Sequence Length Modifications Modified sequence Carbamidomethyl (C) Probabilities Oxidation (M) Probabilities Carbamidomethyl (C) Score Diffs Oxidation (M) Score Diffs Acetyl (Protein N-term) Carbamidomethyl (C) Oxidation (M) Missed cleavages Proteins Leading proteins Leading razor protein Type Raw file Experiment MS/MS m/z Charge m/z Mass Uncalibrated - Calibrated m/z [ppm] Uncalibrated - Calibrated m/z [Da] Mass error [ppm] Mass error [Da] Uncalibrated mass error [ppm] Uncalibrated mass error [Da] Max intensity m/z 0 Retention time Retention length Calibrated retention time Calibrated retention time start Calibrated retention time finish Retention time calibration Match time difference Match m/z difference Match q-value Match score Number of data points Number of scans Number of isotopic peaks PIF Fraction of total spectrum Base peak fraction PEP MS/MS count MS/MS scan number MS/MS scan numbers MS3 scan numbers Score Delta score Combinatorics Intensity Reverse Potential contaminant id Protein group IDs Peptide ID Mod. peptide ID MS/MS IDs Best MS/MS Carbamidomethyl (C) site IDs Oxidation (M) site IDs Taxonomy IDs Taxonomy names Mass deficit AAAAAARSHAL 11 Unmodified _AAAAAARSHAL_ 0 0 0 REV__ENSG00000182255|ENST00000328224|KCNA4 REV__ENSG00000182255|ENST00000328224|KCNA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.5459289550781 2 505.280515 1008.54648 NaN NaN NaN NaN NaN NaN NaN 77.819 1 78.38 77.88 78.88 0.56091 0 0 0 0.89058 1 37781 37781 17.113 1.2657 1 + 0 13883 0 0 0 0 0.04254510251837473 AAAAACATYSS 11 Unmodified _AAAAACATYSS_ 0 0 0 REV__ENST00000488347.5_1_X:101149758-101186981:-|nuORF REV__ENST00000488347.5_1_X:101149758-101186981:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.7172546386719 2 493.716024 985.417496 NaN NaN NaN NaN NaN NaN NaN 78.2 1 78.665 78.165 79.165 0.4642 0 0 0 0.95662 1 37985 37985 10.824 1.4765 1 + 1 13237 1 1 1 1 -0.07579632493263944 AAAAAGRT 8 Unmodified _AAAAAGRT_ 0 0 0 ENST00000441800.5_1_2:190539173-190539437:+|nuORF ENST00000441800.5_1_2:190539173-190539437:+|nuORF ENST00000441800.5_1_2:190539173-190539437:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 344.6907958984375 2 344.69047 687.366387 NaN NaN NaN NaN NaN NaN NaN 82.457 1 83.117 82.617 83.617 0.66019 0 0 0 0.99035 1 37992 37992 2.5775 0 1 2 7938 2 2 2 2 0.010198313148407578 AAAAEEEEEK 10 Unmodified _AAAAEEEEEK_ 0 0 0 REV__ENST00000440636.1_1_7:21467869-21468449:+|nuORF REV__ENST00000440636.1_1_7:21467869-21468449:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.763427734375 2 538.740751 1075.46695 NaN NaN NaN NaN NaN NaN NaN 77.885 1 77.885 77.385 78.385 0 0 0 0 0.98473 1 38220 38220 7.9102 1.187 1 + 3 11061 3 3 3 3 -0.06776646003459064 AAAAELAAQK 10 Unmodified _AAAAELAAQK_ 0 0 0 ENST00000476231.1_1_1:25558504-25558958:-|nuORF;nc|ENSG00000117614|O95926-2|SYF2;ENSG00000117614|ENST00000236273|SYF2 ENST00000476231.1_1_1:25558504-25558958:-|nuORF ENST00000476231.1_1_1:25558504-25558958:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.26556396484375 2 472.263999 942.513445 3.1154 0.0014713 0.32115 0.00015167 3.4366 0.001623 472.2641952443915 13.272 0.12189 13.915 13.808 13.93 0.64272 15 8 2 0 0 0 0.67861 1 5966 5966 21.537 2.28 1 209660 4 2084 4 4 4 4 0.03988883409124355 AAAALLLLKA 10 Unmodified _AAAALLLLKA_ 0 0 0 ENST00000370918.8_1_6:53160486-53213718:-|nuORF ENST00000370918.8_1_6:53160486-53213718:-|nuORF ENST00000370918.8_1_6:53160486-53213718:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.82464599609375 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 76.32 1 76.944 76.444 77.444 0.62397 0 0 0 0.98866 1 36983 36983 7.2892 0.56607 1 5 7309 5 5 5 5 0.14868398242026615 AAAARRGSIRR 11 Unmodified _AAAARRGSIRR_ 0 0 0 REV__ENST00000457956.1_2_21:18984089-18985061:-|nuORF REV__ENST00000457956.1_2_21:18984089-18985061:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 593.0673828125 2 592.857786 1183.70102 NaN NaN NaN NaN NaN NaN NaN 77.68 1 78.241 77.741 78.741 0.56091 0 0 0 0.99968 1 37697 37697 6.7232 0 1 + 6 15453 6 6 6 6 0.11651759457049593 AAAARRKKRRR 11 Unmodified _AAAARRKKRRR_ 0 0 0 nc|ENSG00000048649|Q96T23-3|RSF1;nc|ENSG00000048649|Q96T23-2|RSF1;ENSG00000048649|ENST00000308488|RSF1 nc|ENSG00000048649|Q96T23-3|RSF1 nc|ENSG00000048649|Q96T23-3|RSF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 670.4336547851562 2 670.434527 1338.8545 NaN NaN NaN NaN NaN NaN NaN 48.088 1 48.351 47.851 48.851 0.26209 0 0 0 1.0071 1 21981 21981 1.4819 1.0236 1 7 569 7 7 7 7 0.1986279429336264 AAAGDGGF 8 Unmodified _AAAGDGGF_ 0 0 0 REV__nc|ENSG00000138668|Q14103-4|HNRNPD REV__nc|ENSG00000138668|Q14103-4|HNRNPD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 665.2809448242188 1 665.288931 664.281654 3.0711 0.0020432 -0.56923 -0.0003787 2.5019 0.0016645 665.2869278345289 79.082 0.043564 79.546 79.531 79.574 0.4642 5 3 2 0 0 0 0.73686 1 38571 38571 2.8892 2.0956 1 5148200 + 8 12181 8 8 8 8 -0.06391539221760922 AAALALILLQK 11 Unmodified _AAALALILLQK_ 0 0 0 ENST00000558165.3_1_15:76552439-76552934:-|nuORF ENST00000558165.3_1_15:76552439-76552934:-|nuORF ENST00000558165.3_1_15:76552439-76552934:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.0526123046875 2 562.873717 1123.73288 NaN NaN NaN NaN NaN NaN NaN 68.058 1 68.058 67.558 68.558 0 0 0 0 0.99968 1 32726 32726 6.7232 1.9672 1 9 8948 9 9 9 9 0.175963143676654 AAALARWRP 9 Unmodified _AAALARWRP_ 0 0 0 ENST00000534510.5_1_8:11710880-11725540:-|nuORF ENST00000534510.5_1_8:11710880-11725540:-|nuORF ENST00000534510.5_1_8:11710880-11725540:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.9405517578125 2 506.295968 1010.57738 NaN NaN NaN NaN NaN NaN NaN 78.291 1 78.291 77.791 78.791 0 0 0 0 0.69911 1 38458 38458 12.532 3.1841 1 10 8754 10 10 10 10 0.07251708356750441 AAALLLLGVP 10 Unmodified _AAALLLLGVP_ 0 0 0 REV__nc|ENSG00000090554|P49771-3|FLT3LG REV__nc|ENSG00000090554|P49771-3|FLT3LG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.53173828125 2 469.307678 936.600803 NaN NaN NaN NaN NaN NaN NaN 63.57 1 64.292 63.792 64.792 0.72236 0 0 0 0.95544 1 29791 29791 12.532 4.6214 1 + 11 10713 11 11 11 11 0.12996709350716174 AAALLVLLRPL 11 Unmodified _AAALLVLLRPL_ 0 0 0 REV__ENSG00000165661|ENST00000358701|QSOX2 REV__ENSG00000165661|ENST00000358701|QSOX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.3900756835938 2 575.389534 1148.76451 NaN NaN NaN NaN NaN NaN NaN 28.377 1 28.377 27.877 28.877 0 0 0 0 1.008 1 12793 12793 0.35063 0 1 + 12 13176 12 12 12 12 0.19608307121620783 AAALPRVLRPR 11 Unmodified _AAALPRVLRPR_ 0 0 0 ENST00000261888.10_1_15:65578609-65578774:-|nuORF ENST00000261888.10_1_15:65578609-65578774:-|nuORF ENST00000261888.10_1_15:65578609-65578774:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 610.388671875 2 610.390931 1218.76731 NaN NaN NaN NaN NaN NaN NaN 76.29 1 76.29 75.79 76.79 0 0 0 0 1.0071 1 37385 37385 3.5965 0 1 13 6565 13 13 13 13 0.1666757529910683 AAALSLILLL 10 Unmodified _AAALSLILLL_ 0 0 0 nc|ENSG00000288550|Q8NAC3-4|IL17RC;ENST00000483582.5_1_3:9958999-9974679:+|nuORF;nc|ENSG00000288550|Q8NAC3-6|IL17RC;nc|ENSG00000288550|Q8NAC3-8|IL17RC;nc|ENSG00000288550|Q8NAC3-3|IL17RC;ENST00000497387.5_1_3:9971427-9975274:+|nuORF;ENST00000494365.5_1_3:9965750-9975274:+|nuORF;ENST00000466046.5_1_3:9965750-9975274:+|nuORF;nc|ENSG00000288550|Q8NAC3-7|IL17RC;nc|ENSG00000288550|Q8NAC3-5|IL17RC;ENST00000451271.5_1_3:9958923-9975274:+|nuORF;ENSG00000163702|ENST00000403601|IL17RC;nc|ENSG00000288550|Q8NAC3|IL17RC nc|ENSG00000288550|Q8NAC3-4|IL17RC nc|ENSG00000288550|Q8NAC3-4|IL17RC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.338623046875 2 499.336436 996.658318 NaN NaN NaN NaN NaN NaN NaN 78.814 1 79.278 78.778 79.778 0.4642 0 0 0 0.98473 1 38369 38369 7.9102 0 1 14 8314 14 14 14 14 0.15985551556298105 AAALVCRVHL 10 Unmodified _AAALVCRVHL_ 0 0 0 REV__ENST00000547739.1_1_12:100967536-100972460:+|nuORF REV__ENST00000547739.1_1_12:100967536-100972460:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.5188598632812 2 526.805311 1051.59607 NaN NaN NaN NaN NaN NaN NaN 84.754 1 84.754 84.254 85.254 0 0 0 0 0.96109 1 42982 42982 11.64 2.2572 1 + 15 17259 15 15 15 15 0.07233501936298126 AAAPLRGLHLL 11 Unmodified _AAAPLRGLHLL_ 0 0 0 ENST00000510462.5_1_17:48610105-48613378:+|nuORF;ENST00000268933.7_1_17:48610105-48613843:+|nuORF;ENST00000503690.5_1_17:48610105-48613454:+|nuORF ENST00000510462.5_1_17:48610105-48613378:+|nuORF ENST00000510462.5_1_17:48610105-48613378:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.6360473632812 2 566.353483 1130.69241 NaN NaN NaN NaN NaN NaN NaN 74.604 1 75.291 74.791 75.791 0.68662 0 0 0 0.99968 1 36058 36058 6.7232 0.99131 1 16 6637 16 16 16 16 0.13229392767902937 AAAPPDWHC 9 Unmodified _AAAPPDWHC_ 0 0 0 ENST00000463462.5_1_7:148982563-148988696:+|nuORF ENST00000463462.5_1_7:148982563-148988696:+|nuORF ENST00000463462.5_1_7:148982563-148988696:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.0693054199219 2 484.20817 966.401786 NaN NaN NaN NaN NaN NaN NaN 65.831 1 66.54 66.04 67.04 0.70891 0 0 0 0.7971 1 31163 31163 9.3474 4.1168 1 17 8104 17 17 17 17 -0.08275874219657453 AAAPPQWPPV 10 Unmodified _AAAPPQWPPV_ 0 0 0 REV__ENST00000435287.1_1_6:132272117-132398394:+|nuORF REV__ENST00000435287.1_1_6:132272117-132398394:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.277587890625 2 517.276909 1032.53927 NaN NaN NaN NaN NaN NaN NaN 12.757 1 12.757 12.257 13.257 0 0 0 0 0.98866 1 5565 5565 7.2892 1.5288 1 + 18 16296 18 18 18 18 0.024297776514231373 AAAPRKEPT 9 Unmodified _AAAPRKEPT_ 0 0 0 nc|ENSG00000155506|Q6PKG0-3|LARP1 nc|ENSG00000155506|Q6PKG0-3|LARP1 nc|ENSG00000155506|Q6PKG0-3|LARP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.2917785644531 2 470.764166 939.513779 2.854 0.0013435 -0.45876 -0.00021597 2.3952 0.0011276 470.76358907273203 14.623 0.091276 14.849 14.802 14.893 0.22622 7 5 2 0 0 0 0.10908 1 6439 6439 5.2307 0 1 105240 19 9699 19 19 19 19 0.04160303128992382 AAARKAKVLL 10 Unmodified _AAARKAKVLL_ 0 0 0 nc|ENSG00000157152|Q92777-2|SYN2;ENSG00000157152|ENST00000621198|SYN2 nc|ENSG00000157152|Q92777-2|SYN2 nc|ENSG00000157152|Q92777-2|SYN2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.8709411621094 3 347.569476 1039.6866 2.0637 0.00071727 -0.62385 -0.00021683 1.4398 0.00050044 347.5693122070033 13.479 0.23993 13.786 13.637 13.877 0.30727 29 17 2 0 0 0 0.12676 1 6036 6036 0.69767 0.69767 1 230280 20 3940 20 20 20 20 0.16834294256227622 AAARRERRLQE 11 Unmodified _AAARRERRLQE_ 0 0 0 ENSG00000160460|ENST00000598249|SPTBN4;nc|ENSG00000160460|Q9H254-4|SPTBN4;nc|ENSG00000160460|Q9H254-2|SPTBN4 ENSG00000160460|ENST00000598249|SPTBN4 ENSG00000160460|ENST00000598249|SPTBN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 678.3860473632812 2 678.384365 1354.75418 NaN NaN NaN NaN NaN NaN NaN 75.679 1 76.343 75.843 76.843 0.6635 0 0 0 1.0038 1 36650 36650 5.7319 0 1 21 4061 21 21 21 21 0.09099092449082491 AAARRGPEWG 10 Unmodified _AAARRGPEWG_ 0 0 0 REV__ENSG00000105219|ENST00000430325|CCNP REV__ENSG00000105219|ENST00000430325|CCNP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 535.7015380859375 2 535.778139 1069.54173 2.4176 0.0012953 -0.36038 -0.00019308 2.0572 0.0011022 536.2792218546745 80.716 0.05246 80.885 80.844 80.896 0.16862 5 4 2 0 0 0 0.90196 1 39557 39557 3.5965 0 1 3685300 + 22 11020 22 22 22 22 0.009736261090893095 AAARRWPHKR 10 Unmodified _AAARRWPHKR_ 0 0 0 REV__ENST00000264607.8_1_2:239335652-239342206:+|nuORF REV__ENST00000264607.8_1_2:239335652-239342206:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 624.8633422851562 2 624.862872 1247.71119 NaN NaN NaN NaN NaN NaN NaN 75.153 1 75.153 74.653 75.653 0 0 0 0 0.98866 1 36823 36823 7.2892 0.56607 1 + 23 15020 23 23 23 23 0.0972436718229801 AAAYQSRDYYN 11 Unmodified _AAAYQSRDYYN_ 0 0 0 nc|ENSG00000169083|P10275-3|AR;nc|ENSG00000169083|P10275-4|AR;ENST00000513847.5_1_X:66764886-66909456:+|nuORF;ENSG00000169083|ENST00000374690|AR nc|ENSG00000169083|P10275-3|AR nc|ENSG00000169083|P10275-3|AR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 661.2911376953125 2 661.294016 1320.57348 NaN NaN NaN NaN NaN NaN NaN 75.861 1 76.524 76.024 77.024 0.6635 0 0 0 1.0055 1 36746 36746 3.5965 0.31518 1 24 4668 24 24 24 24 -0.0739847071827171 AACGSGGG 8 Unmodified _AACGSGGG_ 0 0 0 REV__ENST00000308527.5_1_15:75940532-75940874:+|nuORF REV__ENST00000308527.5_1_15:75940532-75940874:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.7962036132812 1 579.219137 578.21186 3.5869 0.0020776 1.8971 0.0010988 5.484 0.0031764 579.2202202225537 67.427 0.31676 67.677 67.502 67.818 0.25011 21 17 2 0 0 0 0.14111 1 30930 30930 2.5775 0 1 355610 + 25 15245 25 25 25 25 -0.0941174116202319 AADECDHF 8 Unmodified _AADECDHF_ 0 0 0 REV__ENSG00000179085|ENST00000368400|DPM3 REV__ENSG00000179085|ENST00000368400|DPM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.1658020019531 2 454.166167 906.317782 NaN NaN NaN NaN NaN NaN NaN 65.133 1 65.842 65.342 66.342 0.70891 0 0 0 0.99035 1 30754 30754 2.8892 0 1 + 26 13782 26 26 26 26 -0.13912450107216046 AADKFSIVPV 10 Unmodified _AADKFSIVPV_ 0 0 0 REV__ENSG00000136643|ENST00000366960|RPS6KC1 REV__ENSG00000136643|ENST00000366960|RPS6KC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.8006591796875 2 523.797675 1045.5808 NaN NaN NaN NaN NaN NaN NaN 54.363 1 55.159 54.659 55.659 0.79552 0 0 0 0.98317 1 24804 24804 8.1555 0.24537 1 + 27 12075 27 27 27 27 0.05982913620096042 AADPLRKGF 9 Unmodified _AADPLRKGF_ 0 0 0 REV__ENST00000586944.5_1_19:797434-805231:+|nuORF REV__ENST00000586944.5_1_19:797434-805231:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.77325439453125 2 487.774534 973.534515 NaN NaN NaN NaN NaN NaN NaN 30.151 1 30.151 29.651 30.651 0 0 0 0 0.90511 1 13619 13619 2.3027 0.4585 1 + 28 17546 28 28 28 28 0.04668893508664951 AADQRHSIF 9 Unmodified _AADQRHSIF_ 0 0 0 ENST00000506043.1_1_X:77218054-77218261:+|nuORF ENST00000506043.1_1_X:77218054-77218261:+|nuORF ENST00000506043.1_1_X:77218054-77218261:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.7649536132812 2 522.764697 1043.51484 NaN NaN NaN NaN NaN NaN NaN 97.915 1 97.986 97.486 98.486 0.070648 0 0 0 0.72654 1 52493 52493 11.64 3.047 1 29 8509 29 29 29 29 -0.005174825021185825 AAEKRRRRS 9 Unmodified _AAEKRRRRS_ 0 0 0 REV__ENST00000357529.7_1_12:8850703-8852541:+|nuORF REV__ENST00000357529.7_1_12:8850703-8852541:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.3388061523438 2 565.336687 1128.65882 NaN NaN NaN NaN NaN NaN NaN 46.201 1 46.201 45.701 46.701 0 0 0 0 0.90699 1 21141 21141 1.8442 0.19162 1 + 30 15567 30 30 30 30 0.09963784048704838 AAELERRRKRE 11 Unmodified _AAELERRRKRE_ 0 0 0 REV__ENST00000359943.7_1_7:121036269-121036368:-|nuORF REV__ENST00000359943.7_1_7:121036269-121036368:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 707.4058227539062 2 707.405298 1412.79604 NaN NaN NaN NaN NaN NaN NaN 48.63 1 49.286 48.786 49.786 0.65524 0 0 0 1.008 1 22252 22252 0.35063 0 1 + 31 15603 31 31 31 31 0.10615648137627431 AAEPRVRFL 9 Unmodified _AAEPRVRFL_ 0 0 0 REV__ENST00000565378.1_1_16:56545067-56553907:-|nuORF REV__ENST00000565378.1_1_16:56545067-56553907:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.2630004882812 2 529.808908 1057.60326 NaN NaN NaN NaN NaN NaN NaN 78.322 1 78.984 78.484 79.484 0.66198 0 0 0 0.89315 1 36092 36092 5.2307 0.47466 1 + 32 17414 32 32 32 32 0.07676557808372309 AAERRRRRRWH 11 Unmodified _AAERRRRRRWH_ 0 0 0 ENST00000321582.9_1_9:124855435-124855555:-|nuORF ENST00000321582.9_1_9:124855435-124855555:-|nuORF ENST00000321582.9_1_9:124855435-124855555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 775.4293212890625 2 775.443415 1548.87228 NaN NaN NaN NaN NaN NaN NaN 105.71 1 105.76 105.26 106.26 0.050888 0 0 0 1.008 1 57206 57206 0.35063 0.043601 1 33 6931 33 33 33 33 0.11979509548245915 AAFEKQVL 8 Unmodified _AAFEKQVL_ 0 0 0 nc|ENSG00000125844|Q9P2E9-3|RRBP1;ENSG00000125844|ENST00000377813|RRBP1 nc|ENSG00000125844|Q9P2E9-3|RRBP1 nc|ENSG00000125844|Q9P2E9-3|RRBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 453.2595520019531 2 453.258185 904.501818 2.839 0.0012868 0.77679 0.00035209 3.6158 0.0016389 453.2583004628941 36.169 0.15195 36.963 36.874 37.026 0.79342 10 5 2 0 0 0 0.47217 1 16401 16401 23.148 6.2061 1 179680 34 2427 34 34 34 34 0.04574686385797122 AAFEKQVL 8 Unmodified _AAFEKQVL_ 0 0 0 nc|ENSG00000125844|Q9P2E9-3|RRBP1;ENSG00000125844|ENST00000377813|RRBP1 nc|ENSG00000125844|Q9P2E9-3|RRBP1 nc|ENSG00000125844|Q9P2E9-3|RRBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.25970458984375 2 453.258185 904.501818 2.9189 0.001323 0.033196 1.5046E-05 2.9521 0.0013381 453.2581074643246 37.073 0.32046 37.333 37.189 37.51 0.26083 16 9 2 0 0 0 0.018424 1 16898 16898 88.904 40.558 1 768610 35 2427 34 34 35 35 0.04574686385797122 AAFEKQVL 8 Unmodified _AAFEKQVL_ 0 0 0 nc|ENSG00000125844|Q9P2E9-3|RRBP1;ENSG00000125844|ENST00000377813|RRBP1 nc|ENSG00000125844|Q9P2E9-3|RRBP1 nc|ENSG00000125844|Q9P2E9-3|RRBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 453.2601013183594 2 453.258185 904.501818 3.139 0.0014228 0.36215 0.00016415 3.5012 0.0015869 453.25830453726314 36.425 0.34914 37.055 36.916 37.265 0.62942 27 12 3 0 0 0 0.051348 2 16664 16664;16727 65.235 17.486 1 668210 36 2427 34 34 36;37 36 0.04574686385797122 AAFFFFFFFF 10 Unmodified _AAFFFFFFFF_ 0 0 0 REV__ENST00000395246.5_1_5:130729482-130729578:+|nuORF REV__ENST00000395246.5_1_5:130729482-130729578:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 669.3256225585938 2 669.323328 1336.6321 NaN NaN NaN NaN NaN NaN NaN 49.368 1 49.629 49.129 50.129 0.26146 0 0 0 1.0015 1 22567 22567 0.45834 0 1 + 37 15981 35 35 38 38 -0.02274717615227928 AAFKRRQQQ 9 Unmodified _AAFKRRQQQ_ 0 0 0 REV__ENSG00000105894|ENST00000348225|PTN REV__ENSG00000105894|ENST00000348225|PTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.8237915039062 2 566.820338 1131.62612 NaN NaN NaN NaN NaN NaN NaN 76.506 1 76.506 76.006 77.006 0 0 0 0 0.89288 1 37495 37495 8.5933 0 1 + 38 11066 36 36 39 39 0.06557576925843023 AAFLRHWKL 9 Unmodified _AAFLRHWKL_ 0 0 0 ENSG00000092148|ENST00000399332|HECTD1 ENSG00000092148|ENST00000399332|HECTD1 ENSG00000092148|ENST00000399332|HECTD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.3380126953125 2 571.335093 1140.65563 NaN NaN NaN NaN NaN NaN NaN 36.211 1 36.211 35.711 36.711 0 0 0 0 0.89509 1 16435 16435 4.756 0.42677 1 39 1093 37 37 40 40 0.09093140941990896 AAFMEHFPFQR 11 Unmodified _AAFMEHFPFQR_ 0 0 0 REV__ENSG00000169221|ENST00000409939|TBC1D10B REV__ENSG00000169221|ENST00000409939|TBC1D10B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 461.1915283203125 3 460.888768 1379.64448 NaN NaN NaN NaN NaN NaN NaN 64.338 1 65.053 64.553 65.553 0.71521 0 0 0 1.0071 1 30307 30307 0.50596 0 1 + 40 13384 38 38 41 41 -0.030160492144659656 AAFRKKKKLV 10 Unmodified _AAFRKKKKLV_ 0 0 0 ENST00000601728.1_1_19:23309373-23309649:-|nuORF ENST00000601728.1_1_19:23309373-23309649:-|nuORF ENST00000601728.1_1_19:23309373-23309649:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 594.9028930664062 2 594.9006 1187.78665 NaN NaN NaN NaN NaN NaN NaN 74.405 1 75.07 74.57 75.57 0.6644 0 0 0 0.99983 1 34251 34251 1.8442 0.19162 1 41 9302 39 39 42 42 0.20026531590019658 AAFRVRQQL 9 Unmodified _AAFRVRQQL_ 0 0 0 REV__ENSG00000243284|ENST00000368100|VSIG8 REV__ENSG00000243284|ENST00000368100|VSIG8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.8212890625 2 544.819807 1087.62506 NaN NaN NaN NaN NaN NaN NaN 13.611 1 13.611 13.111 14.111 0 0 0 0 0.89683 1 5964 5964 4.3292 0 1 + 42 14629 40 40 43 43 0.08475362556941946 AAGALSKKKSI 11 Unmodified _AAGALSKKKSI_ 0 0 0 REV__ENSG00000042429|ENST00000251871|MED17 REV__ENSG00000042429|ENST00000251871|MED17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 358.5616760253906 3 358.560758 1072.66044 2.1181 0.00075948 0.46392 0.00016634 2.5821 0.00092582 358.5609517092941 13.371 0.22448 13.679 13.582 13.806 0.30727 26 16 2 0 0 0 0.74596 1 6027 6027 9.2438 1.2984 1 144430 + 43 10322 41 41 44 44 0.12701980294104942 AAGKRNPAAL 10 Unmodified _AAGKRNPAAL_ 0 0 0 ENST00000506326.1_1_3:134085240-134085282:-|nuORF ENST00000506326.1_1_3:134085240-134085282:-|nuORF ENST00000506326.1_1_3:134085240-134085282:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.7847900390625 2 484.785433 967.556313 NaN NaN NaN NaN NaN NaN NaN 66.431 1 66.679 66.179 67.179 0.24848 0 0 0 0.94673 1 30434 30434 13.906 0.39817 1 44 8512 42 42 45 45 0.07123698257214528 AAGPAVVLGLT 11 Unmodified _AAGPAVVLGLT_ 0 0 0 REV__ENST00000543538.5_1_4:40859041-40859125:-|nuORF REV__ENST00000543538.5_1_4:40859041-40859125:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.8296813964844 2 484.792392 967.570232 NaN NaN NaN NaN NaN NaN NaN 72.079 1 72.743 72.243 73.243 0.66324 0 0 0 0.86806 1 33042 33042 19.257 4.4187 1 + 45 17233 43 43 46 46 0.08514930965645817 AAGPCNWD 8 Unmodified _AAGPCNWD_ 0 0 0 nc|ENSG00000102316|Q9UNF1-2|MAGED2;ENSG00000102316|ENST00000375068|MAGED2;MAGED2|p.E510Q|1|0.77|ENSG00000102316|chrX:54815389-54815389|G/C|missense_variant nc|ENSG00000102316|Q9UNF1-2|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 417.15301513671875 2 417.16597 832.317388 NaN NaN NaN NaN NaN NaN NaN 30.03 1 30.819 30.319 31.319 0.78921 0 0 0 0.99035 1 13554 13554 0.79363 0 1 46 1340 44 44 47 47 -0.1054782503641718 AAGPFFFVLKR 11 Unmodified _AAGPFFFVLKR_ 0 0 0 REV__ENST00000462269.1_1_17:40467765-40469390:-|nuORF REV__ENST00000462269.1_1_17:40467765-40469390:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 626.8612670898438 2 626.863683 1251.71281 NaN NaN NaN NaN NaN NaN NaN 50.203 1 50.203 49.703 50.703 0 0 0 0 1.0071 1 22984 22984 1.4819 0.15237 1 + 47 16501 45 45 48 48 0.09702563427686073 AAGRKARGRPR 11 Unmodified _AAGRKARGRPR_ 0 0 0 ENST00000590548.5_1_19:11597897-11616622:-|nuORF;ENSG00000161914|ENST00000293771|ZNF653 ENST00000590548.5_1_19:11597897-11616622:-|nuORF ENST00000590548.5_1_19:11597897-11616622:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.2475280761719 3 399.246278 1194.717 NaN NaN NaN NaN NaN NaN NaN 80.605 1 80.854 80.354 81.354 0.24947 0 0 0 1.0073 1 37112 37112 1.2148 0.14337 1 48 4108 46 46 49 49 0.12743465693961298 AAGRSPRP 8 Unmodified _AAGRSPRP_ 0 0 0 REV__ENST00000460307.1_1_2:70528513-70529143:-|nuORF REV__ENST00000460307.1_1_2:70528513-70529143:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.2314147949219 2 406.230294 810.446034 3.0205 0.001227 0.72506 0.00029454 3.7456 0.0015216 406.2305792547588 14.986 0.37351 15.64 15.473 15.846 0.65356 61 32 2 0 0 0 0.57648 1 6755 6755 15.847 0 1 254450 + 49 16477 47 47 50 50 0.03322897988846307 AAIALALIDF 10 Unmodified _AAIALALIDF_ 0 0 0 ENSG00000181649|ENST00000314222|PHLDA2 ENSG00000181649|ENST00000314222|PHLDA2 ENSG00000181649|ENST00000314222|PHLDA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 509.1833801269531 2 509.302593 1016.59063 NaN NaN NaN NaN NaN NaN NaN 74.899 1 75.562 75.062 76.062 0.6635 0 0 0 0.95544 1 36224 36224 12.532 0.89125 1 50 5294 48 48 51 51 0.08300101625457046 AAIAVHGRKR 10 Unmodified _AAIAVHGRKR_ 0 0 0 ENSG00000167264|ENST00000565263|DUS2 ENSG00000167264|ENST00000565263|DUS2 ENSG00000167264|ENST00000565263|DUS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.83447265625 2 539.833249 1077.65194 3.5598 0.0019217 -0.73026 -0.00039422 2.8296 0.0015275 539.8326990306359 89.793 0.5903 90.045 89.848 90.438 0.25136 68 25 4 0 0 0 0.93534 1 41347 41347 1.8442 0.19162 1 1875700 51 4539 49 49 52 52 0.1162247116810704 AAIKIFKKL 9 Unmodified _AAIKIFKKL_ 0 0 0 REV__nc|ENSG00000091428|Q8WZA2-5|RAPGEF4 REV__nc|ENSG00000091428|Q8WZA2-5|RAPGEF4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.6675415039062 2 516.35242 1030.69029 NaN NaN NaN NaN NaN NaN NaN 76.573 1 77.197 76.697 77.697 0.62397 0 0 0 0.90511 1 37122 37122 2.3027 0.4585 1 + 52 10731 50 50 53 53 0.17616964030071358 AAIKIFKKLL 10 Unmodified _AAIKIFKKLL_ 0 0 0 REV__nc|ENSG00000091428|Q8WZA2-5|RAPGEF4 REV__nc|ENSG00000091428|Q8WZA2-5|RAPGEF4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.896484375 2 572.894452 1143.77435 NaN NaN NaN NaN NaN NaN NaN 105.49 1 105.81 105.31 106.31 0.31782 0 0 0 1.0015 1 48694 48694 0.45834 0.057624 1 + 53 10731 51 51 54 54 0.2082149512698379 AAIKRLKHV 9 Unmodified _AAIKRLKHV_ 0 0 0 REV__ENST00000376398.6_1_20:26054468-26063613:+|nuORF REV__ENST00000376398.6_1_20:26054468-26063613:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.3419799804688 2 518.342918 1034.67128 NaN NaN NaN NaN NaN NaN NaN 62.278 1 62.278 61.778 62.778 0 0 0 0 0.89509 1 29172 29172 4.756 2.4533 1 + 54 15820 52 52 55 55 0.1553342745903592 AAILKKKKTH 10 Unmodified _AAILKKKKTH_ 0 0 0 REV__ENST00000489713.5_1_13:101277731-101290025:-|nuORF REV__ENST00000489713.5_1_13:101277731-101290025:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.3790893554688 2 569.376958 1136.73936 NaN NaN NaN NaN NaN NaN NaN 81.579 1 81.663 81.163 82.163 0.084106 0 0 0 0.99687 1 40126 40126 4.3292 2.485 1 + 55 11672 53 53 56 56 0.1764625231901391 AAINESNPDPE 11 Unmodified _AAINESNPDPE_ 0 0 0 REV__ENST00000436347.5_1_2:190313199-190340140:+|nuORF REV__ENST00000436347.5_1_2:190313199-190340140:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.7595825195312 2 578.759475 1155.5044 NaN NaN NaN NaN NaN NaN NaN 62.096 1 62.826 62.326 63.326 0.73077 0 0 0 1.0034 1 28893 28893 6.2058 1.8765 1 + 56 11361 54 54 57 57 -0.06713554737871164 AAIPFFNHFKC 11 Unmodified _AAIPFFNHFKC_ 0 0 0 REV__nc|ENSG00000115353|P25103-3|TACR1 REV__nc|ENSG00000115353|P25103-3|TACR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 647.8220825195312 2 647.823701 1293.63285 NaN NaN NaN NaN NaN NaN NaN 84.429 1 85.095 84.595 85.595 0.66566 0 0 0 1.0071 1 38889 38889 1.4819 0.15237 1 + 57 11358 55 55 58 58 -0.0022224623780857655 AAIRRVRA 8 Unmodified _AAIRRVRA_ 0 0 0 ENST00000460658.5_1_22:31484094-31491444:+|nuORF;ENST00000489337.5_1_22:31484532-31494796:+|nuORF;ENSG00000183963|ENST00000333137|SMTN;nc|ENSG00000183963|P53814|SMTN;nc|ENSG00000183963|P53814-6|SMTN ENST00000460658.5_1_22:31484094-31491444:+|nuORF ENST00000460658.5_1_22:31484094-31491444:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.3837585449219 2 456.796135 911.577717 NaN NaN NaN NaN NaN NaN NaN 64.024 1 64.024 63.524 64.524 0 0 0 0 0.99035 1 30233 30233 5.2307 2.3415 1 58 5416 56 56 59 59 0.11839128076599081 AAIVEKIEEEV 11 Unmodified _AAIVEKIEEEV_ 0 0 0 ENSG00000114127|ENST00000392981|XRN1;nc|ENSG00000114127|Q8IZH2|XRN1;ENST00000467077.1_1_3:142074330-142089377:-|nuORF ENSG00000114127|ENST00000392981|XRN1 ENSG00000114127|ENST00000392981|XRN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 615.2875366210938 2 615.334818 1228.65508 NaN NaN NaN NaN NaN NaN NaN 63.985 1 63.985 63.485 64.485 0 0 0 0 0.97175 1 30205 30205 9.3831 2.2814 1 59 1891 57 57 60 60 0.049902119209718876 AAKAILLYLLQ 11 Unmodified _AAKAILLYLLQ_ 0 0 0 nc|ENSG00000176225|Q86VV8-3|RTTN;ENSG00000176225|ENST00000640769|RTTN;RTTN|p.I720Sfs*22|1|0.17|ENSG00000176225|chr18:70149986-70149987|-/AC|frameshift_variant;nc|ENSG00000176225|Q86VV8-4|RTTN nc|ENSG00000176225|Q86VV8-3|RTTN nc|ENSG00000176225|Q86VV8-3|RTTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 609.0324096679688 2 608.886824 1215.7591 NaN NaN NaN NaN NaN NaN NaN 69.262 1 69.262 68.762 69.762 0 0 0 0 0.97175 1 33425 33425 9.3831 2.66 1 60 5068 58 58 61 61 0.15984583539125197 AAKALARRR 9 Unmodified _AAKALARRR_ 0 0 0 ENSG00000177383|ENST00000317897|MAGEF1 ENSG00000177383|ENST00000317897|MAGEF1 ENSG00000177383|ENST00000317897|MAGEF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.8059997558594 2 506.827966 1011.64138 NaN NaN NaN NaN NaN NaN NaN 64.008 1 64.008 63.508 64.508 0 0 0 0 0.69911 1 30221 30221 12.532 1.0368 1 61 5116 59 59 62 62 0.13602488513697608 AAKAVRRQACS 11 Unmodified _AAKAVRRQACS_ 0 0 0 ENST00000590399.1_1_19:11485348-11485594:-|nuORF ENST00000590399.1_1_19:11485348-11485594:-|nuORF ENST00000590399.1_1_19:11485348-11485594:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 580.7461547851562 2 580.819481 1159.62441 NaN NaN NaN NaN NaN NaN NaN 64.125 1 64.125 63.625 64.625 0 0 0 0 0.89058 1 30308 30308 17.113 6.289 1 62 9224 60 60 63 63 0.050981998455881694 AAKCRNRQRE 10 Unmodified _AAKCRNRQRE_ 0 0 0 FOSB|p.R176Q|1|0.13|ENSG00000125740|chr19:45471273-45471273|G/A|missense_variant FOSB|p.R176Q|1|0.13|ENSG00000125740|chr19:45471273-45471273|G/A|missense_variant FOSB|p.R176Q|1|0.13|ENSG00000125740|chr19:45471273-45471273|G/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 616.324462890625 2 616.325462 1230.63637 NaN NaN NaN NaN NaN NaN NaN 46.495 1 47.147 46.647 47.647 0.65219 0 0 0 1.0003 1 21296 21296 1.4819 0.28856 1 63 9361 61 61 64 64 0.03027816588769383 AAKFLKKRR 9 Unmodified _AAKFLKKRR_ 0 0 0 ENSG00000081320|ENST00000263955|STK17B ENSG00000081320|ENST00000263955|STK17B ENSG00000081320|ENST00000263955|STK17B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.7163696289062 2 559.369467 1116.72438 NaN NaN NaN NaN NaN NaN NaN 68.489 1 68.489 67.989 68.989 0 0 0 0 0.89509 1 32980 32980 4.756 0 1 64 919 62 62 65 65 0.1706880524168355 AAKFLKKRR 9 Unmodified _AAKFLKKRR_ 0 0 0 ENSG00000081320|ENST00000263955|STK17B ENSG00000081320|ENST00000263955|STK17B ENSG00000081320|ENST00000263955|STK17B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.0354614257812 2 559.369467 1116.72438 NaN NaN NaN NaN NaN NaN NaN 75.594 1 76.257 75.757 76.757 0.6635 0 0 0 0.90511 1 36606 36606 2.3027 0 1 65 919 62 62 66 66 0.1706880524168355 AAKFPRRRRPG 11 Unmodified _AAKFPRRRRPG_ 0 0 0 ENST00000341259.6_1_12:111843787-111843931:+|nuORF ENST00000341259.6_1_12:111843787-111843931:+|nuORF ENST00000341259.6_1_12:111843787-111843931:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.933349609375 3 437.933811 1310.7796 NaN NaN NaN NaN NaN NaN NaN 76.418 1 77.042 76.542 77.542 0.62397 0 0 0 1.0059 1 37035 37035 1.2148 0.20126 1 66 7073 63 63 67 67 0.13664611762146706 AAKGERRRRR 10 Unmodified _AAKGERRRRR_ 0 0 0 ENSG00000206190|ENST00000555815|ATP10A;nc|ENSG00000206190|O60312-2|ATP10A ENSG00000206190|ENST00000555815|ATP10A ENSG00000206190|ENST00000555815|ATP10A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 628.7195434570312 2 628.38196 1254.74937 NaN NaN NaN NaN NaN NaN NaN 61.133 1 61.133 60.633 61.633 0 0 0 0 0.98866 1 28490 28490 7.2892 1.0834 1 67 6069 64 64 68 68 0.13218253096965782 AAKHKKML 8 Unmodified _AAKHKKML_ 0 0 0 REV__nc|ENSG00000196535|Q92614-5|MYO18A REV__nc|ENSG00000196535|Q92614-5|MYO18A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 309.1868896484375 3 309.52499 925.553142 1.6508 0.00051098 -1.2204 -0.00037775 0.43042 0.00013323 309.52458291266674 34.216 0.26007 34.216 34.094 34.354 0 24 14 2 0 0 0 0.14225 1 15570 15570 1.6526 1.1943 1 5209600 + 68 14228 65 65 69 69 0.08738731878850103 AAKIIPTKI 9 Unmodified _AAKIIPTKI_ 0 0 0 ENST00000531641.1_1_11:76237526-76255878:+|nuORF;nc|ENSG00000158636|Q7Z589-2|EMSY;nc|ENSG00000158636|Q7Z589-6|EMSY;nc|ENSG00000158636|Q7Z589|EMSY;nc|ENSG00000158636|Q7Z589-5|EMSY;nc|ENSG00000158636|Q7Z589-4|EMSY;ENSG00000158636|ENST00000695367|EMSY ENST00000531641.1_1_11:76237526-76255878:+|nuORF ENST00000531641.1_1_11:76237526-76255878:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.82421875 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 65.661 1 65.661 65.161 66.161 0 0 0 0 0.72654 1 31295 31295 11.64 3.047 1 69 3993 66 66 70 70 0.14868398242026615 AAKIIPTKI 9 Unmodified _AAKIIPTKI_ 0 0 0 ENST00000531641.1_1_11:76237526-76255878:+|nuORF;nc|ENSG00000158636|Q7Z589-2|EMSY;nc|ENSG00000158636|Q7Z589-6|EMSY;nc|ENSG00000158636|Q7Z589|EMSY;nc|ENSG00000158636|Q7Z589-5|EMSY;nc|ENSG00000158636|Q7Z589-4|EMSY;ENSG00000158636|ENST00000695367|EMSY ENST00000531641.1_1_11:76237526-76255878:+|nuORF ENST00000531641.1_1_11:76237526-76255878:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.0711364746094 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 69.217 1 69.217 68.717 69.717 0 0 0 0 0.86044 1 33394 33394 7.2892 2.0586 1 70 3993 66 66 71 71 0.14868398242026615 AAKILLLLLI 10 Unmodified _AAKILLLLLI_ 0 0 0 REV__CYP4A22|p.P83Qfs*23|1|0.12|ENSG00000162365|chr1:47140830-47140830|C/-|frameshift_variant REV__CYP4A22|p.P83Qfs*23|1|0.12|ENSG00000162365|chr1:47140830-47140830|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.8898315429688 2 540.891378 1079.7682 NaN NaN NaN NaN NaN NaN NaN 74.691 1 74.691 74.191 75.191 0 0 0 0 0.99983 1 36514 36514 1.8442 1.4435 1 + 71 10119 67 67 72 72 0.2315097689547656 AAKILLLLLIL 11 Unmodified _AAKILLLLLIL_ 0 0 0 REV__CYP4A22|p.P83Qfs*23|1|0.12|ENSG00000162365|chr1:47140830-47140830|C/-|frameshift_variant REV__CYP4A22|p.P83Qfs*23|1|0.12|ENSG00000162365|chr1:47140830-47140830|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.4351806640625 2 597.43341 1192.85227 NaN NaN NaN NaN NaN NaN NaN 106.63 1 106.95 106.45 107.45 0.31628 0 0 0 1.0082 1 49204 49204 0 0 1 + 72 10119 68 68 73 73 0.26355507992388993 AAKKAAEFNS 10 Unmodified _AAKKAAEFNS_ 0 0 0 nc|ENSG00000130024|Q8WUB8-3|PHF10;nc|ENSG00000130024|Q8WUB8-2|PHF10;ENSG00000130024|ENST00000339209|PHF10;ENST00000434827.1_1_22:25745816-25746155:-|nuORF;PHF10|p.L243Cfs*37|1|0.12|ENSG00000130024|chr6:169714808-169714808|A/-|frameshift_variant nc|ENSG00000130024|Q8WUB8-3|PHF10 nc|ENSG00000130024|Q8WUB8-3|PHF10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.0059204101562 2 518.774731 1035.53491 NaN NaN NaN NaN NaN NaN NaN 64.925 1 65.634 65.134 66.134 0.70891 0 0 0 0.94083 1 30613 30613 14.838 2.3067 1 73 2570 69 69 74 74 0.018562684378366612 AAKKAKPTPT 10 Unmodified _AAKKAKPTPT_ 0 0 0 REV__CON__Q2KIS7 REV__CON__Q2KIS7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.7540588378906 2 506.811116 1011.60768 NaN NaN NaN NaN NaN NaN NaN 61.116 1 61.856 61.356 62.356 0.7396 0 0 0 0.94673 1 28300 28300 13.906 1.3745 1 + + 74 10091 70 70 75 75 0.10234022231270501 AAKKAMEIDPR 11 Unmodified _AAKKAMEIDPR_ 0 0 0 REV__nc|ENSG00000183091|P20929-4|NEB REV__nc|ENSG00000183091|P20929-4|NEB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 615.337890625 2 615.337172 1228.65979 NaN NaN NaN NaN NaN NaN NaN 64.719 1 64.719 64.219 65.219 0 0 0 0 0.93332 1 30720 30720 13.042 0 1 + 75 13918 71 71 76 76 0.05460817582707023 AAKKAPTAVA 10 Unmodified _AAKKAPTAVA_ 0 0 0 REV__ENST00000461347.5_1_2:232323706-232327997:-|nuORF REV__ENST00000461347.5_1_2:232323706-232327997:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.28717041015625 2 464.284734 926.554916 NaN NaN NaN NaN NaN NaN NaN 61.627 1 61.627 61.127 62.127 0 0 0 0 0.92641 1 28766 28766 17.113 1.2657 1 + 76 11340 72 72 77 77 0.08870064168445424 AAKKKKKKK 9 Unmodified _AAKKKKKKK_ 0 0 0 L1PB1_dup3131|chr4:69117282-69117596:+|1.59905624223008|0.0293046000434249|5.77|526.0|3|2|sense;L1PB1_dup5905|chr7:93807211-93809400:+|3.627191007074611|0.2056128638309657|4.14|521.0|2|1|sense;nc|ENSG00000121766|Q9NP64-2|ZCCHC17;nc|ENSG00000121766|Q9NP64-3|ZCCHC17;ENSG00000121766|ENST00000344147|ZCCHC17 L1PB1_dup3131|chr4:69117282-69117596:+|1.59905624223008|0.0293046000434249|5.77|526.0|3|2|sense L1PB1_dup3131|chr4:69117282-69117596:+|1.59905624223008|0.0293046000434249|5.77|526.0|3|2|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.3519897460938 2 529.382043 1056.74953 3.4819 0.0018433 -0.65093 -0.00034459 2.831 0.0014987 529.3815805698183 105.04 0.16451 105.64 105.56 105.72 0.59885 20 12 2 0 0 0 0.11408 1 48548 48548 0 0 1 1104100 77 2242 73 73 78 78 0.22342860044273039 AAKKKKRHL 9 Unmodified _AAKKKKRHL_ 0 0 0 ENST00000399449.3_1_10:75487125-75488312:-|nuORF ENST00000399449.3_1_10:75487125-75488312:-|nuORF ENST00000399449.3_1_10:75487125-75488312:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.2772827148438 2 540.361642 1078.70873 NaN NaN NaN NaN NaN NaN NaN 65.519 1 65.519 65.019 66.019 0 0 0 0 0.84134 1 31229 31229 7.9102 1.187 1 78 7598 74 74 79 79 0.17252518724649235 AAKKKRRKGRL 11 Unmodified _AAKKKRRKGRL_ 0 0 0 REV__ENSG00000162522|ENST00000401073|KIAA1522 REV__ENSG00000162522|ENST00000401073|KIAA1522 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 656.4450073242188 2 656.444029 1310.87351 NaN NaN NaN NaN NaN NaN NaN 78.435 1 79.097 78.597 79.597 0.66198 0 0 0 1.008 1 36144 36144 0.35063 0.043601 1 + 79 12939 75 75 80 80 0.23050330864452917 AAKKKRRKKK 10 Unmodified _AAKKKRRKKK_ 0 0 0 ENSG00000111142|ENST00000323666|METAP2;nc|ENSG00000111142|P50579-3|METAP2;nc|ENSG00000111142|P50579-2|METAP2 ENSG00000111142|ENST00000323666|METAP2 ENSG00000111142|ENST00000323666|METAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 621.435302734375 2 621.435673 1240.85679 NaN NaN NaN NaN NaN NaN NaN 72.676 1 72.676 72.176 73.176 0 0 0 0 1.0015 1 35359 35359 0.45834 0 1 80 1744 76 76 81 81 0.24599829978478738 AAKKLANEPD 10 Unmodified _AAKKLANEPD_ 0 0 0 ENSG00000114541|ENST00000398540|FRMD4B;nc|ENSG00000114541|Q9Y2L6-2|FRMD4B ENSG00000114541|ENST00000398540|FRMD4B ENSG00000114541|ENST00000398540|FRMD4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.86279296875 2 528.787838 1055.56112 NaN NaN NaN NaN NaN NaN NaN 65.191 1 65.191 64.691 65.691 0 0 0 0 0.96627 1 31013 31013 10.824 1.4408 1 81 1910 77 77 82 82 0.035565376093245504 AAKKPKATKP 10 Unmodified _AAKKPKATKP_ 0 0 0 REV__ENSG00000124610|ENST00000244573|H1-1 REV__ENSG00000124610|ENST00000244573|H1-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.9544677734375 2 520.334759 1038.65496 NaN NaN NaN NaN NaN NaN NaN 69.835 1 70.538 70.038 71.038 0.70302 0 0 0 0.95729 1 33437 33437 12.241 0.74595 1 + 82 11664 78 78 83 83 0.13718301502285613 AAKKPKKKKKK 11 Unmodified _AAKKPKKKKKK_ 0 0 0 ENSG00000105849|ENST00000222567|POLR1F ENSG00000105849|ENST00000222567|POLR1F ENSG00000105849|ENST00000222567|POLR1F MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.9578247070312 2 641.955907 1281.89726 NaN NaN NaN NaN NaN NaN NaN 66.252 1 66.252 65.752 66.752 0 0 0 0 1.0041 1 31647 31647 5.2969 1.7004 1 83 1535 79 79 84 84 0.2675875157822247 AAKKPNEPSKL 11 Unmodified _AAKKPNEPSKL_ 0 0 0 REV__nc|ENSG00000164483|Q8N6K7-2|SAMD3 REV__nc|ENSG00000164483|Q8N6K7-2|SAMD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.84423828125 2 591.845687 1181.67682 NaN NaN NaN NaN NaN NaN NaN 61.7 1 61.7 61.2 62.2 0 0 0 0 0.93332 1 28810 28810 13.042 0.80181 1 + 84 13095 80 80 85 85 0.0932506146018568 AAKKQAKFYS 10 Unmodified _AAKKQAKFYS_ 0 0 0 REV__ENST00000515388.1_1_4:144312653-144316050:+|nuORF REV__ENST00000515388.1_1_4:144312653-144316050:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.8910522460938 2 571.321848 1140.62914 3.1843 0.0018193 -2.6611 -0.0015203 0.52323 0.00029893 571.3211273276306 61.691 0.04034 61.691 61.673 61.713 0 6 4 2 0 0 0 0.12676 1 28808 28808 10.074 8.2297 1 3841900 + 85 17018 81 81 86 86 0.06445407260002867 AAKKRGKKYK 10 Unmodified _AAKKRGKKYK_ 0 0 0 REV__nc|ENSG00000101868|P09884|POLA1 REV__nc|ENSG00000101868|P09884|POLA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.4957275390625 2 589.380032 1176.74551 NaN NaN NaN NaN NaN NaN NaN 64.318 1 64.318 63.818 64.818 0 0 0 0 0.97797 1 30447 30447 14.838 10.894 1 + 86 10910 82 82 87 87 0.16420770550530506 AAKKRHRMPMR 11 Unmodified _AAKKRHRMPMR_ 0 0 0 REV__ENSG00000120029|ENST00000370033|ARMH3 REV__ENSG00000120029|ENST00000370033|ARMH3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 691.3925170898438 2 691.392625 1380.7707 NaN NaN NaN NaN NaN NaN NaN 59.059 1 59.726 59.226 60.226 0.66703 0 0 0 1.008 1 27037 27037 0.35063 0 1 + 87 11526 83 83 88 88 0.09554178809798941 AAKKRKLI 8 Unmodified _AAKKRKLI_ 0 0 0 REV__ENSG00000175906|ENST00000320033|ARL4D REV__ENSG00000175906|ENST00000320033|ARL4D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.3068542480469 2 464.326737 926.63892 NaN NaN NaN NaN NaN NaN NaN 63.009 1 63.009 62.509 63.509 0 0 0 0 0.99035 1 29593 29593 5.2307 0.47466 1 + 88 13684 84 84 89 89 0.17266640056027427 AAKKRKLI 8 Unmodified _AAKKRKLI_ 0 0 0 REV__ENSG00000175906|ENST00000320033|ARL4D REV__ENSG00000175906|ENST00000320033|ARL4D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.32550048828125 2 464.326737 926.63892 NaN NaN NaN NaN NaN NaN NaN 64.935 1 64.935 64.435 65.435 0 0 0 0 0.94507 1 30856 30856 9.3474 4.1168 1 + 89 13684 84 84 90 90 0.17266640056027427 AAKKRKLI 8 Unmodified _AAKKRKLI_ 0 0 0 REV__ENSG00000175906|ENST00000320033|ARL4D REV__ENSG00000175906|ENST00000320033|ARL4D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.3283996582031 2 464.326737 926.63892 NaN NaN NaN NaN NaN NaN NaN 65.239 1 65.239 64.739 65.739 0 0 0 0 0.94507 1 31046 31046 9.3474 4.1168 1 + 90 13684 84 84 91 91 0.17266640056027427 AAKKRKLI 8 Unmodified _AAKKRKLI_ 0 0 0 REV__ENSG00000175906|ENST00000320033|ARL4D REV__ENSG00000175906|ENST00000320033|ARL4D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.91668701171875 2 464.326737 926.63892 NaN NaN NaN NaN NaN NaN NaN 65.483 1 65.483 64.983 65.983 0 0 0 0 0.86524 1 31207 31207 14.582 5.2343 1 + 91 13684 84 84 92 92 0.17266640056027427 AAKKRRKFC 9 Unmodified _AAKKRRKFC_ 0 0 0 REV__ENSG00000179841|ENST00000394718|AKAP5 REV__ENSG00000179841|ENST00000394718|AKAP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.7081909179688 2 554.332027 1106.6495 NaN NaN NaN NaN NaN NaN NaN 65.186 1 65.895 65.395 66.395 0.70891 0 0 0 0.82031 1 30792 30792 8.5933 0.68312 1 + 92 13806 85 85 93 93 0.10044299438800408 AAKKVQLFNK 10 Unmodified _AAKKVQLFNK_ 0 0 0 REV__ENSG00000066279|ENST00000367409|ASPM REV__ENSG00000066279|ENST00000367409|ASPM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.892578125 2 573.853316 1145.69208 NaN NaN NaN NaN NaN NaN NaN 68.748 1 69.45 68.95 69.95 0.70218 0 0 0 0.94083 1 32805 32805 14.838 7.549 1 + 93 10440 86 86 94 94 0.1250597304801886 AAKKWDEIREQ 11 Unmodified _AAKKWDEIREQ_ 0 0 0 REV__ENSG00000132613|ENST00000338779|MTSS2 REV__ENSG00000132613|ENST00000338779|MTSS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 458.5762939453125 3 458.577247 1372.70991 NaN NaN NaN NaN NaN NaN NaN 61.994 1 62.725 62.225 63.225 0.73077 0 0 0 1.0062 1 28833 28833 2.6312 0.37851 1 + 94 11900 87 87 95 95 0.03846643512201808 AAKKWTMLMVY 11 Unmodified _AAKKWTMLMVY_ 0 0 0 REV__ENST00000530134.5_1_1:32205534-32221699:-|nuORF REV__ENST00000530134.5_1_1:32205534-32221699:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 671.3541259765625 2 671.356519 1340.69849 NaN NaN NaN NaN NaN NaN NaN 63.948 1 63.948 63.448 64.448 0 0 0 0 1.0038 1 30177 30177 5.7319 2.1354 1 + 95 11563 88 88 96 96 0.041764068928614506 AAKLRQPPSWG 11 Unmodified _AAKLRQPPSWG_ 0 0 0 REV__L1P2_dup354|chr3:177908608-177914071:+|1.579459827711941|0.1324791782257567|3.58|528.0|103|3|sense REV__L1P2_dup354|chr3:177908608-177914071:+|1.579459827711941|0.1324791782257567|3.58|528.0|103|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 605.8990478515625 2 605.838197 1209.66184 NaN NaN NaN NaN NaN NaN NaN 62.817 1 63.539 63.039 64.039 0.72236 0 0 0 0.97175 1 29361 29361 9.3831 2.0939 1 + 96 17776 89 89 97 97 0.06539614382859327 AAKPAERRRR 10 Unmodified _AAKPAERRRR_ 0 0 0 REV__CON__P01030 REV__CON__P01030 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 605.6290893554688 2 605.865612 1209.71667 NaN NaN NaN NaN NaN NaN NaN 69.168 1 69.871 69.371 70.371 0.70218 0 0 0 0.98866 1 33078 33078 7.2892 0.56607 1 + + 97 10073 90 90 98 98 0.12020045974122695 AAKPKEPTMV 10 Unmodified _AAKPKEPTMV_ 0 0 0 ENSG00000203485|ENST00000392634|INF2;nc|ENSG00000203485|Q27J81-2|INF2;ENST00000474229.1_1_14:105174633-105175035:+|nuORF ENSG00000203485|ENST00000392634|INF2 ENSG00000203485|ENST00000392634|INF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 535.8328247070312 2 536.296985 1070.57942 NaN NaN NaN NaN NaN NaN NaN 60.423 1 61.172 60.672 61.672 0.74927 0 0 0 0.9754 1 27874 27874 9.3831 2.66 1 98 5972 91 91 99 99 0.046949562596637406 AAKPPLRPP 9 Unmodified _AAKPPLRPP_ 0 0 0 ENST00000264088.8_1_19:6459571-6459757:-|nuORF ENST00000264088.8_1_19:6459571-6459757:-|nuORF ENST00000264088.8_1_19:6459571-6459757:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.8058776855469 2 473.795269 945.575986 NaN NaN NaN NaN NaN NaN NaN 66.364 1 67.069 66.569 67.569 0.7047 0 0 0 0.69911 1 31458 31458 12.532 0 1 99 6600 92 92 100 100 0.10102074267979333 AAKQEFLDKM 10 Unmodified _AAKQEFLDKM_ 0 0 0 REV__EEA1|p.A695Efs*27|1|0.2|ENSG00000102189|chr12:92811394-92811394|G/-|frameshift_variant REV__EEA1|p.A695Efs*27|1|0.2|ENSG00000102189|chr12:92811394-92811394|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.477294921875 2 590.805174 1179.59579 NaN NaN NaN NaN NaN NaN NaN 67.361 1 67.361 66.861 67.861 0 0 0 0 0.98866 1 32297 32297 7.2892 1.0834 1 + 100 10146 93 93 101 101 0.013180374257672156 AAKRIKVEK 9 Unmodified _AAKRIKVEK_ 0 0 0 nc|ENSG00000127152|Q9C0K0-2|BCL11B;ENSG00000127152|ENST00000357195|BCL11B nc|ENSG00000127152|Q9C0K0-2|BCL11B nc|ENSG00000127152|Q9C0K0-2|BCL11B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.7758178710938 2 521.840208 1041.66586 NaN NaN NaN NaN NaN NaN NaN 62.498 1 63.229 62.729 63.729 0.73077 0 0 0 0.59707 1 29145 29145 15.847 1.0089 1 101 2475 94 94 102 102 0.14669703876552376 AAKRLRLY 8 Unmodified _AAKRLRLY_ 0 0 0 REV__ENST00000473629.6_1_11:124492979-124496722:+|nuORF REV__ENST00000473629.6_1_11:124492979-124496722:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.83551025390625 2 495.813993 989.613434 NaN NaN NaN NaN NaN NaN NaN 66.67 1 66.67 66.17 67.17 0 0 0 0 0.94507 1 31887 31887 9.3474 0.75416 1 + 102 12696 95 95 103 103 0.11821165533581279 AAKRRRQRRRR 11 Unmodified _AAKRRRQRRRR_ 0 0 0 REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 755.4837036132812 2 755.480331 1508.94611 NaN NaN NaN NaN NaN NaN NaN 70.513 1 71.217 70.717 71.717 0.70386 0 0 0 1.008 1 33795 33795 0.35063 0.35063 1 + 103 14974 96 96 104 104 0.21199477710547399 AAKRRRQRRRR 11 Unmodified _AAKRRRQRRRR_ 0 0 0 REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 755.477294921875 2 755.480331 1508.94611 NaN NaN NaN NaN NaN NaN NaN 58.624 1 58.887 58.387 59.387 0.26227 0 0 0 1.0071 1 26848 26848 1.4819 1.4819 1 + 104 14974 96 96 105 105 0.21199477710547399 AAKRWLGK 8 Unmodified _AAKRWLGK_ 0 0 0 ENSG00000224109|ENST00000417339|CENPVL3 ENSG00000224109|ENST00000417339|CENPVL3 ENSG00000224109|ENST00000417339|CENPVL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.3894958496094 2 465.287611 928.56067 NaN NaN NaN NaN NaN NaN NaN 62.748 1 63.47 62.97 63.97 0.72236 0 0 0 0.94507 1 29319 29319 9.3474 2.9933 1 105 6163 97 97 106 106 0.09353207470792313 AAKTDERVLFF 11 Unmodified _AAKTDERVLFF_ 0 0 0 REV__ENSG00000123064|ENST00000306014|DDX54 REV__ENSG00000123064|ENST00000306014|DDX54 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 648.849365234375 2 648.85097 1295.68739 NaN NaN NaN NaN NaN NaN NaN 74.718 1 74.977 74.477 75.477 0.25831 0 0 0 1.0034 1 34373 34373 6.2058 0.47393 1 + 106 11601 98 98 107 107 0.05137044114599121 AAKTKKTKNKK 11 Unmodified _AAKTKKTKNKK_ 0 0 0 REV__ENSG00000140319|ENST00000267884|SRP14 REV__ENSG00000140319|ENST00000267884|SRP14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 623.4697875976562 2 623.403704 1244.79285 NaN NaN NaN NaN NaN NaN NaN 61.39 1 62.129 61.629 62.629 0.7396 0 0 0 1.0057 1 28459 28459 3.2813 0.28607 1 + 107 12237 99 99 108 108 0.18025005030881402 AAKTKVKQAG 10 Unmodified _AAKTKVKQAG_ 0 0 0 REV__ENST00000591674.5_1_19:11665055-11666355:-|nuORF REV__ENST00000591674.5_1_19:11665055-11666355:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.86480712890625 2 501.308741 1000.60293 2.5184 0.0012625 -3.0079 -0.0015079 -0.48951 -0.0002454 501.30853248315094 63.65 0.024616 64.372 64.356 64.38 0.72236 4 2 2 0 0 0 0.68517 1 29837 29837 13.906 0 1 3587100 + 108 17586 100 100 109 109 0.10265138088516323 AAKTKVKQAG 10 Unmodified _AAKTKVKQAG_ 0 0 0 REV__ENST00000591674.5_1_19:11665055-11666355:-|nuORF REV__ENST00000591674.5_1_19:11665055-11666355:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 501.308741 1000.60293 2.5184 0.0012625 -3.0079 -0.0015079 -0.48951 -0.0002454 501.30853248315094 63.65 0.024616 64.372 64.356 64.38 0.72236 0 0 NaN 13.906 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 3587100 + 109 17586 100 100 0.10265138088516323 AAKTLYEHY 9 Unmodified _AAKTLYEHY_ 0 0 0 nc|ENSG00000112742|P33981-2|TTK;ENSG00000112742|ENST00000369798|TTK nc|ENSG00000112742|P33981-2|TTK nc|ENSG00000112742|P33981-2|TTK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.3425903320312 2 548.277106 1094.53966 NaN NaN NaN NaN NaN NaN NaN 63.586 1 63.586 63.086 64.086 0 0 0 0 0.82031 1 29933 29933 8.5933 0.68312 1 110 1820 101 101 110 110 -0.0038284741938241496 AAKVNQRAL 9 Unmodified _AAKVNQRAL_ 0 0 0 ENSG00000215045|ENST00000457091|GRID2IP ENSG00000215045|ENST00000457091|GRID2IP ENSG00000215045|ENST00000457091|GRID2IP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.1990051269531 3 324.197931 969.571963 2.2233 0.0007208 1.1294 0.00036615 3.3527 0.001087 324.19838135073843 16.643 0.85959 17.301 16.755 17.614 0.65798 148 90 2 0 0 0 0.7295 1 7533 7533 5.2969 1.3525 1 122590 111 6127 102 102 111 111 0.08595984774274257 AAKWLHFPQL 10 Unmodified _AAKWLHFPQL_ 0 0 0 nc|ENSG00000241878|Q9UG56-2|PISD nc|ENSG00000241878|Q9UG56-2|PISD nc|ENSG00000241878|Q9UG56-2|PISD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 605.8706665039062 2 605.840208 1209.66586 NaN NaN NaN NaN NaN NaN NaN 71.836 1 72.094 71.594 72.594 0.25786 0 0 0 0.98866 1 32952 32952 7.2892 0.56607 1 112 9845 103 103 112 112 0.06941703876555039 AAKYLLQPVLA 11 Unmodified _AAKYLLQPVLA_ 0 0 0 ENSG00000103047|ENST00000261778|TANGO6 ENSG00000103047|ENST00000261778|TANGO6 ENSG00000103047|ENST00000261778|TANGO6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 593.8649291992188 2 593.863349 1185.71214 NaN NaN NaN NaN NaN NaN NaN 73.175 1 73.839 73.339 74.339 0.66398 0 0 0 1.0038 1 33616 33616 5.7319 0 1 113 1370 104 104 113 113 0.1267172398800085 AAKYREKIYYF 11 Unmodified _AAKYREKIYYF_ 0 0 0 ENSG00000155085|ENST00000424296|AK9;nc|ENSG00000155085|Q5TCS8-5|AK9;ENST00000466992.1_1_6:109871214-109940313:-|nuORF;nc|ENSG00000155085|Q5TCS8-3|AK9;nc|ENSG00000155085|Q5TCS8-6|AK9 ENSG00000155085|ENST00000424296|AK9 ENSG00000155085|ENST00000424296|AK9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.8963623046875 3 484.594238 1450.76089 NaN NaN NaN NaN NaN NaN NaN 67.256 1 67.958 67.458 68.458 0.70218 0 0 0 1.006 1 31942 31942 2.8433 1.5136 1 114 3849 105 105 114 114 0.05353592557094089 AALAKPKLRP 10 Unmodified _AALAKPKLRP_ 0 0 0 REV__nc|ENSG00000176909|Q6ZN01-2|MAMSTR REV__nc|ENSG00000176909|Q6ZN01-2|MAMSTR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 532.77490234375 2 532.850576 1063.6866 NaN NaN NaN NaN NaN NaN NaN 65.269 1 65.978 65.478 66.478 0.70891 0 0 0 0.98866 1 30847 30847 7.2892 2.96 1 + 115 13717 106 106 115 115 0.15730294256240995 AALALAIVW 9 Unmodified _AALALAIVW_ 0 0 0 REV__ENSG00000122711|ENST00000379721|SPINK4 REV__ENSG00000122711|ENST00000379721|SPINK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.1908874511719 2 464.286746 926.558939 NaN NaN NaN NaN NaN NaN NaN 63.99 1 63.99 63.49 64.49 0 0 0 0 0.44891 1 30209 30209 20.871 6.2895 1 + 116 11591 107 107 116 116 0.09272153662163873 AALARAPAWPP 11 Unmodified _AALARAPAWPP_ 0 0 0 ENST00000590421.1_1_17:59470996-59476834:-|nuORF ENST00000590421.1_1_17:59470996-59476834:-|nuORF ENST00000590421.1_1_17:59470996-59476834:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.7911376953125 2 560.816733 1119.61891 NaN NaN NaN NaN NaN NaN NaN 66.743 1 67.448 66.948 67.948 0.7047 0 0 0 0.9645 1 31658 31658 10.074 1.4806 1 117 9225 108 108 117 117 0.06388844325397258 AALARRRRHS 10 Unmodified _AALARRRRHS_ 0 0 0 ENST00000392776.3_1_19:47634164-47646785:+|nuORF ENST00000392776.3_1_19:47634164-47646785:+|nuORF ENST00000392776.3_1_19:47634164-47646785:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.576171875 3 398.574395 1192.70135 3.1179 0.0012427 1.038 0.00041371 4.1559 0.0016564 398.5747684599356 95.378 0.55137 95.986 95.804 96.356 0.60769 67 29 4 0 0 0 0.94134 1 43888 43888 0.62683 0.063655 1 1084600 118 7521 109 109 118 118 0.11271179176924306 AALARRRRHS 10 Unmodified _AALARRRRHS_ 0 0 0 ENST00000392776.3_1_19:47634164-47646785:+|nuORF ENST00000392776.3_1_19:47634164-47646785:+|nuORF ENST00000392776.3_1_19:47634164-47646785:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.3609008789062 2 597.357954 1192.70135 4.2462 0.0025365 0.91379 0.00054586 5.16 0.0030824 597.3583948434206 95.362 0.61168 95.969 95.804 96.416 0.60768 83 32 4 0 0 0 0.94364 1 43904 43904 0.45834 0.45834 1 3303500 119 7521 109 109 119 119 0.11271179176924306 AALDIVHPV 9 Unmodified _AALDIVHPV_ 0 0 0 ENST00000566303.5_1_15:79059386-79103601:-|nuORF;ENST00000568712.1_1_15:79063704-79103562:-|nuORF;ENSG00000136378|ENST00000388820|ADAMTS7 ENST00000566303.5_1_15:79059386-79103601:-|nuORF ENST00000566303.5_1_15:79059386-79103601:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.7724914550781 2 467.77146 933.528367 NaN NaN NaN NaN NaN NaN NaN 94.854 1 94.854 94.354 95.354 0 0 0 0 0.84134 1 50972 50972 7.9102 1.5561 1 120 2947 110 110 120 120 0.058943752771256186 AALFTHGK 8 Unmodified _AALFTHGK_ 0 0 0 REV__ENSG00000130997|ENST00000511885|POLN REV__ENSG00000130997|ENST00000511885|POLN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 844.4684448242188 1 844.467564 843.460287 3.4953 0.0029516 -0.19533 -0.00016495 3.2999 0.0027867 844.4671830252561 47.2 0.22895 48.029 47.93 48.159 0.82915 21 12 2 0 0 0 0.56084 2 21486 21486;21528 16.942 1.1741 1 615300 + 121 11841 111 111 121;122 121 0.03229550417131577 AALILVRARLL 11 Unmodified _AALILVRARLL_ 0 0 0 ENST00000294725.13_1_1:196577612-196577717:-|nuORF ENST00000294725.13_1_1:196577612-196577717:-|nuORF ENST00000294725.13_1_1:196577612-196577717:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 604.918701171875 2 604.913707 1207.81286 NaN NaN NaN NaN NaN NaN NaN 78.199 1 78.663 78.163 79.163 0.4642 0 0 0 1.0055 1 37984 37984 3.5965 0.60125 1 122 6750 112 112 123 123 0.21726800761507548 AALKKALAA 9 Unmodified _AALKKALAA_ 0 0 0 ENSG00000124575|ENST00000244534|H1-3;ENSG00000124610|ENST00000244573|H1-1;ENSG00000168298|ENST00000304218|H1-4;ENSG00000184357|ENST00000331442|H1-5;ENSG00000187837|ENST00000343677|H1-2 ENSG00000124575|ENST00000244534|H1-3;ENSG00000168298|ENST00000304218|H1-4;ENSG00000184357|ENST00000331442|H1-5;ENSG00000187837|ENST00000343677|H1-2 ENSG00000184357|ENST00000331442|H1-5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 428.7854919433594 2 428.78437 855.554188 2.8909 0.0012396 -0.12716 -5.4526E-05 2.7638 0.0011851 428.7842053924329 14.028 0.12598 14.028 13.951 14.077 0 14 6 3 0 0 0 0.027384 1 6182 6182 58.679 12.658 1 2276300 123 5435;2368;4619;5640 113 113 124 124 0.12063269519410369 AALKKALAA 9 Unmodified _AALKKALAA_ 0 0 0 ENSG00000124575|ENST00000244534|H1-3;ENSG00000124610|ENST00000244573|H1-1;ENSG00000168298|ENST00000304218|H1-4;ENSG00000184357|ENST00000331442|H1-5;ENSG00000187837|ENST00000343677|H1-2 ENSG00000124575|ENST00000244534|H1-3;ENSG00000168298|ENST00000304218|H1-4;ENSG00000184357|ENST00000331442|H1-5;ENSG00000187837|ENST00000343677|H1-2 ENSG00000184357|ENST00000331442|H1-5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 428.7854309082031 2 428.78437 855.554188 2.4568 0.0010534 0.3268 0.00014012 2.7836 0.0011936 428.78441816345605 13.459 0.32019 13.766 13.571 13.891 0.30727 71 25 4 0 0 0 0.025323 2 6050 6050;6094 61.357 9.0891 1 2309100 124 5435;2368;4619;5640 113 113 125;126 125 0.12063269519410369 AALKKALAA 9 Unmodified _AALKKALAA_ 0 0 0 ENSG00000124575|ENST00000244534|H1-3;ENSG00000124610|ENST00000244573|H1-1;ENSG00000168298|ENST00000304218|H1-4;ENSG00000184357|ENST00000331442|H1-5;ENSG00000187837|ENST00000343677|H1-2 ENSG00000124575|ENST00000244534|H1-3;ENSG00000168298|ENST00000304218|H1-4;ENSG00000184357|ENST00000331442|H1-5;ENSG00000187837|ENST00000343677|H1-2 ENSG00000184357|ENST00000331442|H1-5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 428.7856750488281 2 428.78437 855.554188 3.2804 0.0014066 0.032084 1.3757E-05 3.3125 0.0014203 428.78435153523026 12.855 0.20078 13.497 13.379 13.58 0.64272 16 5 4 0 0 0 0.025323 1 5772 5772 61.357 9.0891 1 4689800 125 5435;2368;4619;5640 113 113 127 127 0.12063269519410369 AALKKALAA 9 Unmodified _AALKKALAA_ 0 0 0 ENSG00000124575|ENST00000244534|H1-3;ENSG00000124610|ENST00000244573|H1-1;ENSG00000168298|ENST00000304218|H1-4;ENSG00000184357|ENST00000331442|H1-5;ENSG00000187837|ENST00000343677|H1-2 ENSG00000124575|ENST00000244534|H1-3;ENSG00000168298|ENST00000304218|H1-4;ENSG00000184357|ENST00000331442|H1-5;ENSG00000187837|ENST00000343677|H1-2 ENSG00000184357|ENST00000331442|H1-5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 428.78437 855.554188 2.5328 0.001086 0.13347 5.723E-05 2.6663 0.0011433 428.7844078837484 13.509 0.21384 13.752 13.647 13.86 0.24346 -0.0089422 5.7439E-06 NaN 61.357 41 22 2 NaN NaN NaN NaN 0 NaN NaN 0 913280 126 5435;2368;4619;5640 113 113 0.12063269519410369 AALKNVPVKFF 11 Unmodified _AALKNVPVKFF_ 0 0 0 REV__CON__Q95121 REV__CON__Q95121 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 617.3740234375 2 617.371341 1232.72813 NaN NaN NaN NaN NaN NaN NaN 80.704 1 81.364 80.864 81.864 0.65998 0 0 0 1.0072 1 37187 37187 1.3295 0.72803 1 + + 127 10103 114 114 128 128 0.12107430224864402 AALKRHTAQLR 11 Unmodified _AALKRHTAQLR_ 0 0 0 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 632.8856201171875 2 632.88347 1263.75239 NaN NaN NaN NaN NaN NaN NaN 74.226 1 74.484 73.984 74.984 0.25831 0 0 0 1.0034 1 34126 34126 6.2058 0.47393 1 128 1990 115 115 129 129 0.13106083431102888 AALLVLLRPLR 11 Unmodified _AALLVLLRPLR_ 0 0 0 REV__ENSG00000165661|ENST00000358701|QSOX2 REV__ENSG00000165661|ENST00000358701|QSOX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 617.9202880859375 2 617.921532 1233.82851 NaN NaN NaN NaN NaN NaN NaN 84.234 1 84.896 84.396 85.396 0.66219 0 0 0 1.008 1 38800 38800 0.35063 0 1 + 129 13176 116 116 130 130 0.22095087278535175 AALLVLVLK 9 Unmodified _AALLVLVLK_ 0 0 0 ENSG00000064687|ENST00000263094|ABCA7;nc|ENSG00000064687|Q8IZY2-2|ABCA7;ABCA7|p.P1501Qfs*17|1|0.44|ENSG00000064687|chr19:1056411-1056411|C/-|frameshift_variant ENSG00000064687|ENST00000263094|ABCA7 ENSG00000064687|ENST00000263094|ABCA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.3324890136719 2 470.333696 938.652839 NaN NaN NaN NaN NaN NaN NaN 75.259 1 75.922 75.422 76.422 0.6635 0 0 0 0.91206 1 36433 36433 0.6015 0 1 130 676 117 117 131 131 0.18105872764442665 AALPFCPE 8 Unmodified _AALPFCPE_ 0 0 0 ENST00000486749.5_1_12:8083049-8088630:-|nuORF;ENSG00000059804|ENST00000075120|SLC2A3 ENST00000486749.5_1_12:8083049-8088630:-|nuORF ENST00000486749.5_1_12:8083049-8088630:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 847.4022827148438 1 847.401852 846.394575 3.5232 0.0029855 -0.34571 -0.00029296 3.1775 0.0026926 847.401651021734 47.334 0.24982 47.334 47.172 47.422 0 16 13 2 0 0 0 0.65723 1 21663 21663 9.3474 9.3474 1 587950 131 638 118 118 132 132 -0.03476606820083816 AALPFCPE 8 Unmodified _AALPFCPE_ 0 0 0 ENST00000486749.5_1_12:8083049-8088630:-|nuORF;ENSG00000059804|ENST00000075120|SLC2A3 ENST00000486749.5_1_12:8083049-8088630:-|nuORF ENST00000486749.5_1_12:8083049-8088630:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 847.4022827148438 1 847.401852 846.394575 4.0951 0.0034702 0.090166 7.6407E-05 4.1853 0.0035466 847.4016692273881 47.099 0.32296 47.363 47.182 47.505 0.26363 19 11 2 0 0 0 0.59268 1 21522 21522 14.582 5.2343 1 566750 132 638 118 118 133 133 -0.03476606820083816 AALPFCPE 8 Unmodified _AALPFCPE_ 0 0 0 ENST00000486749.5_1_12:8083049-8088630:-|nuORF;ENSG00000059804|ENST00000075120|SLC2A3 ENST00000486749.5_1_12:8083049-8088630:-|nuORF ENST00000486749.5_1_12:8083049-8088630:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 424.205810546875 2 424.204564 846.394575 3.1559 0.0013387 0.0196 8.3143E-06 3.1755 0.001347 424.20459125932535 46.585 0.38775 47.237 47.047 47.435 0.65219 28 13 3 0 0 0 0.65723 1 21343 21343 9.3474 2.9933 1 1455900 133 638 118 118 134 134 -0.03476606820083816 AALPFCPE 8 Unmodified _AALPFCPE_ 0 0 0 ENST00000486749.5_1_12:8083049-8088630:-|nuORF;ENSG00000059804|ENST00000075120|SLC2A3 ENST00000486749.5_1_12:8083049-8088630:-|nuORF ENST00000486749.5_1_12:8083049-8088630:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 847.401852 846.394575 3.5232 0.0029855 -0.34571 -0.00029296 3.1775 0.0026926 847.401651021734 47.334 0.24982 47.334 47.172 47.422 0 0.025364 -7.3893E-05 NaN 14.582 16 13 2 NaN NaN NaN NaN 0 NaN NaN 0 587950 134 638 118 118 -0.03476606820083816 AALPFCPE 8 Unmodified _AALPFCPE_ 0 0 0 ENST00000486749.5_1_12:8083049-8088630:-|nuORF;ENSG00000059804|ENST00000075120|SLC2A3 ENST00000486749.5_1_12:8083049-8088630:-|nuORF ENST00000486749.5_1_12:8083049-8088630:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 424.204564 846.394575 2.6587 0.0011278 0.26609 0.00011288 2.9248 0.0012407 424.2043157822242 46.368 0.3124 47.197 47.018 47.33 0.82915 -0.084076 0.00027034 NaN 9.3474 37 16 3 NaN NaN NaN NaN 0 NaN NaN 0 1515900 135 638 118 118 -0.03476606820083816 AALPFCPE 8 Unmodified _AALPFCPE_ 0 0 0 ENST00000486749.5_1_12:8083049-8088630:-|nuORF;ENSG00000059804|ENST00000075120|SLC2A3 ENST00000486749.5_1_12:8083049-8088630:-|nuORF ENST00000486749.5_1_12:8083049-8088630:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 424.204564 846.394575 3.1559 0.0013387 0.0196 8.3143E-06 3.1755 0.001347 424.20459125932535 46.585 0.38775 47.237 47.047 47.435 0.65219 -0.044437 6.1217E-05 NaN 9.3474 28 13 3 NaN NaN NaN NaN 0 NaN NaN 0 1455900 136 638 118 118 -0.03476606820083816 AALPKVQRR 9 Unmodified _AALPKVQRR_ 0 0 0 REV__ENST00000490957.5_1_7:11013950-11101713:+|nuORF REV__ENST00000490957.5_1_7:11013950-11101713:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.540771484375 2 519.830175 1037.6458 NaN NaN NaN NaN NaN NaN NaN 67.002 1 67.707 67.207 68.207 0.7047 0 0 0 0.56337 1 31800 31800 16.942 5.302 1 + 137 11083 119 119 135 135 0.12847952936590445 AALRGLLGGK 10 Unmodified _AALRGLLGGK_ 0 0 0 REV__ENST00000539757.1_1_12:9459887-9464602:+|nuORF REV__ENST00000539757.1_1_12:9459887-9464602:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.189697265625 2 478.306001 954.597449 NaN NaN NaN NaN NaN NaN NaN 63.91 1 63.91 63.41 64.41 0 0 0 0 0.95221 1 30150 30150 13.042 4.4492 1 + 138 10249 120 120 136 136 0.11833459296713045 AALRLMKIPLV 11 Unmodified _AALRLMKIPLV_ 0 0 0 nc|ENSG00000189007|Q7Z6V5-2|ADAT2;ENSG00000189007|ENST00000237283|ADAT2 nc|ENSG00000189007|Q7Z6V5-2|ADAT2 nc|ENSG00000189007|Q7Z6V5-2|ADAT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 612.8944091796875 2 612.896669 1223.77878 NaN NaN NaN NaN NaN NaN NaN 76.275 1 76.899 76.399 77.399 0.62397 0 0 0 1.0071 1 36962 36962 1.4819 0 1 139 5698 121 121 137 137 0.1758463627825222 AALRVKTSL 9 Unmodified _AALRVKTSL_ 0 0 0 ENST00000395756.5_1_17:17715938-17721122:-|nuORF;nc|ENSG00000072310|P36956-3|SREBF1;nc|ENSG00000072310|P36956-2|SREBF1;ENSG00000072310|ENST00000261646|SREBF1;nc|ENSG00000072310|P36956-4|SREBF1 ENST00000395756.5_1_17:17715938-17721122:-|nuORF ENST00000395756.5_1_17:17715938-17721122:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 320.2074890136719 3 320.206315 957.597115 NaN NaN NaN NaN NaN NaN NaN 27.99 1 28.252 27.752 28.752 0.26245 0 0 0 0.89602 1 12728 12728 4.5289 0.93237 1 140 789 122 122 138 138 0.11662039576845018 AALSLILLLKK 11 Unmodified _AALSLILLLKK_ 0 0 0 nc|ENSG00000288550|Q8NAC3-4|IL17RC;ENST00000483582.5_1_3:9958999-9974679:+|nuORF;nc|ENSG00000288550|Q8NAC3-6|IL17RC;nc|ENSG00000288550|Q8NAC3-8|IL17RC;nc|ENSG00000288550|Q8NAC3-3|IL17RC;ENST00000497387.5_1_3:9971427-9975274:+|nuORF;ENST00000494365.5_1_3:9965750-9975274:+|nuORF;ENST00000466046.5_1_3:9965750-9975274:+|nuORF;nc|ENSG00000288550|Q8NAC3-7|IL17RC;nc|ENSG00000288550|Q8NAC3-5|IL17RC;ENST00000451271.5_1_3:9958923-9975274:+|nuORF;ENSG00000163702|ENST00000403601|IL17RC;nc|ENSG00000288550|Q8NAC3|IL17RC nc|ENSG00000288550|Q8NAC3-4|IL17RC nc|ENSG00000288550|Q8NAC3-4|IL17RC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.865966796875 2 591.912842 1181.81113 NaN NaN NaN NaN NaN NaN NaN 67.254 1 67.957 67.457 68.457 0.70218 0 0 0 1.0059 1 31940 31940 2.9952 1.151 1 141 8314 123 123 139 139 0.22749746952877103 AALWLLLLL 9 Unmodified _AALWLLLLL_ 0 0 0 TM9SF3|p.R249Kfs*19|1|0.08|ENSG00000077147|chr10:96552971-96552974|TTTC/-|frameshift_variant;ENSG00000077147|ENST00000371142|TM9SF3 REV__ENST00000545213.5_1_14:24789074-24794639:-|nuORF REV__ENST00000545213.5_1_14:24789074-24794639:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.4198608398438 2 513.341521 1024.66849 NaN NaN NaN NaN NaN NaN NaN 68.882 1 69.584 69.084 70.084 0.70218 0 0 0 0.89315 1 32879 32879 5.2307 0.47466 1 142 856 124 124 140 140 0.15714159281515094 AAPAAPVSSGY 11 Unmodified _AAPAAPVSSGY_ 0 0 0 REV__ENSG00000187033|ENST00000335556|SAMD7 REV__ENSG00000187033|ENST00000335556|SAMD7 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.5126953125 2 495.748182 989.481811 2.456 0.0012176 -1.303 -0.00064594 1.1531 0.00057165 495.74662407556616 66.039 0.045586 66.744 66.709 66.754 0.7047 5 4 2 0 0 0 0.13292 1 31268 31268 14.838 6.245 1 889340 + 143 14081 125 125 141 141 -0.013351093448022766 AAPAESPYTDR 11 Unmodified _AAPAESPYTDR_ 0 0 0 REV__ENST00000377102.5_1_13:80912972-80913233:-|nuORF REV__ENST00000377102.5_1_13:80912972-80913233:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 588.9638061523438 2 589.277835 1176.54112 NaN NaN NaN NaN NaN NaN NaN 78.594 1 78.594 78.094 79.094 0 0 0 0 0.97175 1 38674 38674 9.3831 0.035688 1 + 144 15831 126 126 142 142 -0.04009258121300263 AAPAIMSYAEC 11 Unmodified _AAPAIMSYAEC_ 0 0 0 ENSG00000109920|ENST00000263773|FNBP4;nc|ENSG00000109920|Q8N3X1-2|FNBP4 ENSG00000109920|ENST00000263773|FNBP4 ENSG00000109920|ENST00000263773|FNBP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.2327270507812 2 563.74901 1125.48347 NaN NaN NaN NaN NaN NaN NaN 66.196 1 66.196 65.696 66.696 0 0 0 0 0.99968 1 31614 31614 6.7232 2.3939 1 145 1691 127 127 143 143 -0.0742555964272924 AAPAIWVRHAP 11 Unmodified _AAPAIWVRHAP_ 0 0 0 REV__ENST00000315367.3_1_8:96146033-96166318:+|nuORF REV__ENST00000315367.3_1_8:96146033-96166318:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 595.037109375 2 594.835457 1187.65636 NaN NaN NaN NaN NaN NaN NaN 74.824 1 74.824 74.324 75.324 0 0 0 0 0.95662 1 36621 36621 10.824 2.0785 1 + 146 15288 128 128 144 144 0.07003935591023946 AAPALLRPQLA 11 Unmodified _AAPALLRPQLA_ 0 0 0 ENST00000525455.5_1_11:62529053-62530037:+|nuORF;ENST00000301788.11_1_11:62529053-62530368:+|nuORF;ENST00000524819.5_1_11:62529062-62529592:+|nuORF ENST00000525455.5_1_11:62529053-62530037:+|nuORF ENST00000525455.5_1_11:62529053-62530037:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.84423828125 2 560.84549 1119.67643 NaN NaN NaN NaN NaN NaN NaN 67.149 1 67.149 66.649 67.649 0 0 0 0 0.92425 1 32145 32145 13.906 0.86358 1 147 6806 129 129 145 145 0.12137686530991232 AAPALPFYY 9 Unmodified _AAPALPFYY_ 0 0 0 ENST00000463899.5_1_1:182781291-182795122:+|nuORF;nc|ENSG00000135838|Q9BXD5-4|NPL;NPL|p.Q250Rfs*10|1|0.29|ENSG00000135838|chr1:182825791-182825791|A/-|frameshift_variant;nc|ENSG00000135838|Q9BXD5-3|NPL;nc|ENSG00000135838|Q9BXD5-2|NPL;ENSG00000135838|ENST00000367553|NPL ENST00000463899.5_1_1:182781291-182795122:+|nuORF ENST00000463899.5_1_1:182781291-182795122:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.76043701171875 2 506.760561 1011.50657 NaN NaN NaN NaN NaN NaN NaN 81.478 1 81.562 81.062 82.062 0.084106 0 0 0 0.89315 1 40056 40056 5.2307 0.47466 1 148 2902 130 130 146 146 0.001275705285593176 AAPALRPRGR 10 Unmodified _AAPALRPRGR_ 0 0 0 ENSG00000135862|ENST00000258341|LAMC1;LAMC1|p.C916Vfs*123|1|0.4|ENSG00000135862|chr1:183125494-183125494|C/-|frameshift_variant ENSG00000135862|ENST00000258341|LAMC1 ENSG00000135862|ENST00000258341|LAMC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.8756713867188 2 532.825424 1063.63629 NaN NaN NaN NaN NaN NaN NaN 66.46 1 66.46 65.96 66.96 0 0 0 0 0.93443 1 31768 31768 15.847 1.9411 1 149 2904 131 131 147 147 0.107021846510861 AAPAPAMVSPK 11 Unmodified _AAPAPAMVSPK_ 0 0 0 REV__ENST00000468665.1_1_1:28337454-28343730:-|nuORF REV__ENST00000468665.1_1_1:28337454-28343730:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.15234375 2 520.283877 1038.5532 NaN NaN NaN NaN NaN NaN NaN 69.256 1 69.256 68.756 69.756 0 0 0 0 0.91446 1 33419 33419 14.838 2.3067 1 + 150 12816 132 132 148 148 0.03546687088191902 AAPAPCPCPVC 11 Unmodified _AAPAPCPCPVC_ 0 0 0 ZNF408|p.V555Gfs*146|1|0.24|ENSG00000175213|chr11:46705364-46705364|T/-|frameshift_variant;ENSG00000175213|ENST00000311764|ZNF408 ZNF408|p.V555Gfs*146|1|0.24|ENSG00000175213|chr11:46705364-46705364|T/-|frameshift_variant ZNF408|p.V555Gfs*146|1|0.24|ENSG00000175213|chr11:46705364-46705364|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.7203369140625 2 514.721741 1027.42893 NaN NaN NaN NaN NaN NaN NaN 64.192 1 64.908 64.408 65.408 0.71521 0 0 0 0.95662 1 30219 30219 10.824 2.9138 1 151 18295 133 133 149 149 -0.08368849995122218 AAPAPEDFMD 10 Unmodified _AAPAPEDFMD_ 0 0 0 nc|ENSG00000115762|Q96CS7-5|PLEKHB2 nc|ENSG00000115762|Q96CS7-5|PLEKHB2 nc|ENSG00000115762|Q96CS7-5|PLEKHB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.1549072265625 2 532.223682 1062.43281 NaN NaN NaN NaN NaN NaN NaN 72.888 1 73.552 73.052 74.052 0.66398 0 0 0 0.98473 1 33470 33470 7.9102 0 1 152 9609 134 134 150 150 -0.09590765696066228 AAPAPMVRYCS 11 Unmodified _AAPAPMVRYCS_ 0 0 0 ENSG00000115274|ENST00000233331|INO80B ENSG00000115274|ENST00000233331|INO80B ENSG00000115274|ENST00000233331|INO80B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.7095336914062 2 583.278269 1164.54198 NaN NaN NaN NaN NaN NaN NaN 78.057 1 78.057 77.557 78.557 0 0 0 0 0.95662 1 38319 38319 10.824 3.5347 1 153 1957 135 135 151 151 -0.03370458277572652 AAPAPPTERRA 11 Unmodified _AAPAPPTERRA_ 0 0 0 ENST00000371935.6_1_9:136276183-136282854:-|nuORF ENST00000371935.6_1_9:136276183-136282854:-|nuORF ENST00000371935.6_1_9:136276183-136282854:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.8106689453125 2 568.812179 1135.60981 NaN NaN NaN NaN NaN NaN NaN 61.52 1 62.259 61.759 62.759 0.7396 0 0 0 0.95662 1 28539 28539 10.824 2.9138 1 154 7328 136 136 152 152 0.04742450969092715 AAPAPRPKHWR 11 Unmodified _AAPAPRPKHWR_ 0 0 0 REV__ENSG00000173404|ENST00000310227|INSM1 REV__ENSG00000173404|ENST00000310227|INSM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.8634643554688 2 643.86508 1285.71561 NaN NaN NaN NaN NaN NaN NaN 62.866 1 62.866 62.366 63.366 0 0 0 0 0.91446 1 29502 29502 14.838 8.6325 1 + 155 13597 137 137 153 153 0.08417831605197534 AAPAPSTRGQT 11 Unmodified _AAPAPSTRGQT_ 0 0 0 ENST00000500914.6_1_4:174089235-174090279:-|nuORF ENST00000500914.6_1_4:174089235-174090279:-|nuORF ENST00000500914.6_1_4:174089235-174090279:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.776611328125 2 528.775262 1055.53597 NaN NaN NaN NaN NaN NaN NaN 61.711 1 62.442 61.942 62.942 0.73077 0 0 0 0.95662 1 28657 28657 10.824 2.9138 1 156 8476 138 138 154 154 0.0104248280676984 AAPAQPGQVLE 11 Unmodified _AAPAQPGQVLE_ 0 0 0 ENSG00000171060|ENST00000304519|C8orf74 ENSG00000171060|ENST00000304519|C8orf74 ENSG00000171060|ENST00000304519|C8orf74 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.7694091796875 2 540.787838 1079.56112 NaN NaN NaN NaN NaN NaN NaN 75.492 1 76.155 75.655 76.655 0.6635 0 0 0 0.9645 1 36554 36554 10.074 1.3285 1 157 4785 139 139 155 155 0.024525376093379236 AAPARPRLALA 11 Unmodified _AAPARPRLALA_ 0 0 0 REV__nc|ENSG00000130283|P27539|GDF1 REV__nc|ENSG00000130283|P27539|GDF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.5822143554688 2 553.843282 1105.67201 NaN NaN NaN NaN NaN NaN NaN 62.997 1 62.997 62.497 63.497 0 0 0 0 0.92425 1 29587 29587 13.906 0.86358 1 + 158 17934 140 140 156 156 0.12340222108082344 AAPASSQREL 10 Unmodified _AAPASSQREL_ 0 0 0 ENST00000265351.11_1_6:43543606-43543798:-|nuORF ENST00000265351.11_1_6:43543606-43543798:-|nuORF ENST00000265351.11_1_6:43543606-43543798:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.7010498046875 2 515.269813 1028.52507 3.2595 0.0016795 -2.5536 -0.0013158 0.70593 0.00036375 515.2686964873651 38.72 0.20099 38.72 38.563 38.764 0 12 9 2 0 0 0 0.12409 1 17561 17561 17.113 1.2657 1 174540 159 6618 141 141 157 157 0.011950804324669662 AAPATREQRS 10 Unmodified _AAPATREQRS_ 0 0 0 REV__ENSG00000181649|ENST00000314222|PHLDA2 REV__ENSG00000181649|ENST00000314222|PHLDA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.7894897460938 2 543.786161 1085.55777 NaN NaN NaN NaN NaN NaN NaN 60.283 1 61.032 60.532 61.532 0.74927 0 0 0 0.93443 1 27784 27784 15.847 5.0233 1 + 160 13861 142 142 158 158 0.018412875553167396 AAPATSSDAR 10 Unmodified _AAPATSSDAR_ 0 0 0 REV__ENST00000551556.1_1_12:93965712-93966120:+|nuORF REV__ENST00000551556.1_1_12:93965712-93966120:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.7826843261719 2 473.733063 945.451573 NaN NaN NaN NaN NaN NaN NaN 70.107 1 70.107 69.607 70.607 0 0 0 0 0.96109 1 33962 33962 11.64 2.2572 1 + 161 17287 143 143 159 159 -0.023334680100106198 AAPAWAGYFLP 11 Unmodified _AAPAWAGYFLP_ 0 0 0 REV__ENST00000310546.2_1_3:140770656-140784819:+|nuORF REV__ENST00000310546.2_1_3:140770656-140784819:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.2982788085938 2 582.297842 1162.58113 NaN NaN NaN NaN NaN NaN NaN 66.046 1 66.751 66.251 67.251 0.7047 0 0 0 0.99968 1 31281 31281 6.7232 0 1 + 162 15260 144 144 160 160 0.006343333399399853 AAPAYLLPSIW 11 Unmodified _AAPAYLLPSIW_ 0 0 0 ENST00000520539.5_1_8:103424406-103424691:-|nuORF ENST00000520539.5_1_8:103424406-103424691:-|nuORF ENST00000520539.5_1_8:103424406-103424691:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 601.3342895507812 2 601.334424 1200.6543 NaN NaN NaN NaN NaN NaN NaN 73.407 1 73.407 72.907 73.907 0 0 0 0 0.99968 1 35781 35781 6.7232 0.51738 1 163 8632 145 145 161 161 0.06199462062568273 AAPAYNPSLY 10 Unmodified _AAPAYNPSLY_ 0 0 0 ENST00000432223.2_1_11:73141522-73179519:-|nuORF;nc|ENSG00000054965|Q92567-3|FAM168A;ENSG00000054965|ENST00000356467|FAM168A;nc|ENSG00000054965|Q92567|FAM168A ENST00000432223.2_1_11:73141522-73179519:-|nuORF ENST00000432223.2_1_11:73141522-73179519:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.7637329101562 2 533.763832 1065.51311 NaN NaN NaN NaN NaN NaN NaN 62.542 1 62.542 62.042 63.042 0 0 0 0 0.98473 1 29317 29317 7.9102 1.187 1 164 611 146 146 162 162 -0.017025363107222802 AAPCETMEY 9 Unmodified _AAPCETMEY_ 0 0 0 REV__KDM4A|p.S1016Gfs*8|1|0.03|ENSG00000066135|chr1:43704103-43704104|-/GGAAGGAG|frameshift_variant REV__KDM4A|p.S1016Gfs*8|1|0.03|ENSG00000066135|chr1:43704103-43704104|-/GGAAGGAG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.6971740722656 2 507.698986 1013.38342 NaN NaN NaN NaN NaN NaN NaN 73.945 1 74.631 74.131 75.131 0.68662 0 0 0 0.89315 1 35711 35711 5.2307 2.6532 1 + 165 10439 147 147 163 163 -0.12273796976523954 AAPDQCEDVDM 11 Unmodified _AAPDQCEDVDM_ 0 0 0 REV__ENSG00000168056|ENST00000301873|LTBP3 REV__ENSG00000168056|ENST00000301873|LTBP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.856201171875 2 597.226096 1192.43764 NaN NaN NaN NaN NaN NaN NaN 64.488 1 64.488 63.988 64.988 0 0 0 0 1.0055 1 30562 30562 3.5965 1.5367 1 + 166 13326 148 148 164 164 -0.1508824961561004 AAPEERPRAPW 11 Unmodified _AAPEERPRAPW_ 0 0 0 nc|ENSG00000169297|P51843-2|NR0B1;ENSG00000169297|ENST00000378970|NR0B1 nc|ENSG00000169297|P51843-2|NR0B1 nc|ENSG00000169297|P51843-2|NR0B1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.2440185546875 2 640.330736 1278.64692 NaN NaN NaN NaN NaN NaN NaN 78.988 1 79.452 78.952 79.952 0.4642 0 0 0 1.0034 1 38504 38504 6.2058 0 1 167 4681 149 149 165 165 0.018741225148460217 AAPELLYLRKQ 11 Unmodified _AAPELLYLRKQ_ 0 0 0 nc|ENSG00000121289|Q96ST8-3|CEP89;nc|ENSG00000121289|Q96ST8-2|CEP89;ENSG00000121289|ENST00000305768|CEP89 nc|ENSG00000121289|Q96ST8-3|CEP89 nc|ENSG00000121289|Q96ST8-3|CEP89 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 651.5660400390625 2 651.382437 1300.75032 NaN NaN NaN NaN NaN NaN NaN 75.703 1 76.366 75.866 76.866 0.6635 0 0 0 1.0055 1 36664 36664 3.5965 0.31518 1 168 2226 150 150 166 166 0.1119760990263785 AAPEPLLLLFG 11 Unmodified _AAPEPLLLLFG_ 0 0 0 REV__nc|ENSG00000104687|P00390-5|GSR REV__nc|ENSG00000104687|P00390-5|GSR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.5001831054688 2 570.8368 1139.65905 NaN NaN NaN NaN NaN NaN NaN 78.122 1 78.683 78.183 79.183 0.56091 0 0 0 0.99968 1 37941 37941 6.7232 2.3939 1 + 169 10998 151 151 167 167 0.09480346205327805 AAPFFFFFF 9 Unmodified _AAPFFFFFF_ 0 0 0 nc|ENSG00000143093|Q5VSL9-3|STRIP1;ENST00000473429.5_1_1:110584363-110592127:+|nuORF nc|ENSG00000143093|Q5VSL9-3|STRIP1 nc|ENSG00000143093|Q5VSL9-3|STRIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.8660888671875 2 570.781296 1139.54804 NaN NaN NaN NaN NaN NaN NaN 59.858 1 59.858 59.358 60.358 0 0 0 0 0.90511 1 27689 27689 2.3027 0.24298 1 170 9677 152 152 168 168 -0.016152487120962178 AAPFRPSQGFL 11 Unmodified _AAPFRPSQGFL_ 0 0 0 nc|ENSG00000197283|Q96PV0-3|SYNGAP1;ENST00000479510.2_1_6:33387852-33406697:+|nuORF;nc|ENSG00000197283|Q96PV0-2|SYNGAP1;nc|ENSG00000197283|Q96PV0-4|SYNGAP1;ENSG00000197283|ENST00000646630|SYNGAP1 nc|ENSG00000197283|Q96PV0-3|SYNGAP1 nc|ENSG00000197283|Q96PV0-3|SYNGAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.5502014160156 3 397.548741 1189.62439 3.2391 0.0012877 -0.39457 -0.00015686 2.8445 0.0011308 397.54868731323404 41.733 0.18336 42.003 41.89 42.074 0.27021 12 6 3 0 0 0 0.85532 1 19033 19033 4.4062 0.81909 1 572300 171 9803 153 153 169 169 0.03716523117259385 AAPFRPVS 8 Unmodified _AAPFRPVS_ 0 0 0 ENST00000602596.1_1_16:67515375-67518232:+|nuORF ENST00000602596.1_1_16:67515375-67518232:+|nuORF ENST00000602596.1_1_16:67515375-67518232:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.73822021484375 2 422.73742 843.460287 3.0312 0.0012814 0.19875 8.402E-05 3.23 0.0013654 422.73752188098933 47.584 0.29004 48.237 48.09 48.38 0.65356 19 12 2 0 0 0 0.45037 1 21810 21810 24.674 0 1 441010 172 9305 154 154 170 170 0.03229550417142946 AAPGARSEDDL 11 Unmodified _AAPGARSEDDL_ 0 0 0 ENST00000542570.5_2_17:18212223-18218150:-|nuORF;ENST00000584582.5_1_17:18210215-18218150:-|nuORF ENST00000542570.5_2_17:18212223-18218150:-|nuORF ENST00000542570.5_2_17:18212223-18218150:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.6692504882812 2 551.262185 1100.50982 2.6669 0.0014701 1.5589 0.00085935 4.2257 0.0023295 551.2630906489218 77.744 0.047752 78.305 78.294 78.342 0.56091 5 4 2 0 0 0 0.13295 1 37738 37738 10.074 3.3508 1 1119400 173 8817 155 155 171 171 -0.03641831155368891 AAPGHRSRGRC 11 Unmodified _AAPGHRSRGRC_ 0 0 0 REV__ENST00000468589.5_1_1:197704780-197744549:-|nuORF REV__ENST00000468589.5_1_1:197704780-197744549:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.3031616210938 2 584.299247 1166.58394 NaN NaN NaN NaN NaN NaN NaN 77.894 1 77.894 77.394 78.394 0 0 0 0 0.97175 1 38225 38225 9.3831 4.6271 1 + 174 16569 156 156 172 172 0.007312782458257061 AAPGKRIRKPS 11 Unmodified _AAPGKRIRKPS_ 0 0 0 ENSG00000204256|ENST00000374825|BRD2;nc|ENSG00000204256|P25440-2|BRD2 ENSG00000204256|ENST00000374825|BRD2 ENSG00000204256|ENST00000374825|BRD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.8649291992188 2 590.867289 1179.72002 NaN NaN NaN NaN NaN NaN NaN 65.957 1 65.957 65.457 66.457 0 0 0 0 1.0055 1 31456 31456 3.5965 0 1 175 5994 157 157 173 173 0.13735296028130506 AAPGYFRHYE 10 Unmodified _AAPGYFRHYE_ 0 0 0 REV__ENSG00000120055|ENST00000625129|C10orf95 REV__ENSG00000120055|ENST00000625129|C10orf95 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 605.8135375976562 2 605.78563 1209.55671 NaN NaN NaN NaN NaN NaN NaN 71.913 1 72.171 71.671 72.671 0.25786 0 0 0 0.98473 1 32997 32997 7.9102 1.187 1 + 176 11527 158 158 174 174 -0.03968926813558937 AAPGYGQSCC 10 Unmodified _AAPGYGQSCC_ 0 0 0 nc|ENSG00000164576|Q9HAJ7-2|SAP30L;nc|ENSG00000164576|Q9HAJ7-3|SAP30L;ENSG00000164576|ENST00000297109|SAP30L;ENST00000523198.5_1_5:153826164-153832030:+|nuORF nc|ENSG00000164576|Q9HAJ7-2|SAP30L nc|ENSG00000164576|Q9HAJ7-2|SAP30L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.6845703125 2 478.68367 955.352787 NaN NaN NaN NaN NaN NaN NaN 66.023 1 66.023 65.523 66.523 0 0 0 0 0.96627 1 31499 31499 10.824 2.2306 1 177 4323 159 159 175 175 -0.12667530570899999 AAPHFLPVL 9 Unmodified _AAPHFLPVL_ 0 0 0 nc|ENSG00000185504|Q0VG06-3|FAAP100;ENSG00000185504|ENST00000327787|FAAP100 nc|ENSG00000185504|Q0VG06-3|FAAP100 nc|ENSG00000185504|Q0VG06-3|FAAP100 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.7857666015625 2 482.78437 963.554188 2.6217 0.0012657 -0.060635 -2.9274E-05 2.5611 0.0012364 482.7843421459177 73.239 0.23991 73.938 73.776 74.016 0.69881 33 20 2 0 0 0 0.12776 1 35273 35273 28.173 5.0248 1 806650 178 5511 160 160 176 176 0.07095269519413705 AAPHFLPVL 9 Unmodified _AAPHFLPVL_ 0 0 0 nc|ENSG00000185504|Q0VG06-3|FAAP100;ENSG00000185504|ENST00000327787|FAAP100 nc|ENSG00000185504|Q0VG06-3|FAAP100 nc|ENSG00000185504|Q0VG06-3|FAAP100 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.78533935546875 2 482.78437 963.554188 2.6108 0.0012604 0.010025 4.8399E-06 2.6208 0.0012653 482.7843526665353 73.396 0.35242 74.06 73.874 74.226 0.66397 95 39 3 0 0 0 0.08506 1 33680 33680 36.466 6.2413 1 3181800 179 5511 160 160 177 177 0.07095269519413705 AAPHLLLLP 9 Unmodified _AAPHLLLLP_ 0 0 0 SLAIN1|p.I262Lfs*5|1|0.12|ENSG00000139737|chr13:77744365-77744366|TA/-|frameshift_variant;nc|ENSG00000139737|Q8ND83|SLAIN1;ENSG00000139737|ENST00000418532|SLAIN1 SLAIN1|p.I262Lfs*5|1|0.12|ENSG00000139737|chr13:77744365-77744366|TA/-|frameshift_variant SLAIN1|p.I262Lfs*5|1|0.12|ENSG00000139737|chr13:77744365-77744366|TA/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.2634582519531 2 472.80002 943.585488 2.3389 0.0011058 1.2205 0.00057707 3.5594 0.0016829 472.8012222986798 70.422 0.17056 71.126 70.995 71.166 0.70387 21 17 2 0 0 0 0.10319 1 33695 33695 5.2307 0.47466 1 707670 180 3165 161 161 178 178 0.1114384255350842 AAPHRIQLERH 11 Unmodified _AAPHRIQLERH_ 0 0 0 REV__ENST00000246672.3_1_17:38256597-38256828:-|nuORF REV__ENST00000246672.3_1_17:38256597-38256828:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 664.369873046875 2 664.370727 1326.7269 NaN NaN NaN NaN NaN NaN NaN 64.773 1 64.773 64.273 65.273 0 0 0 0 1.0055 1 30754 30754 3.5965 0 1 + 181 14898 162 162 179 179 0.07660608908690847 AAPIKTRTRRN 11 Unmodified _AAPIKTRTRRN_ 0 0 0 nc|ENSG00000179168|Q86UU5-2|GGN;ENSG00000179168|ENST00000334928|GGN nc|ENSG00000179168|Q86UU5-2|GGN nc|ENSG00000179168|Q86UU5-2|GGN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 642.1201782226562 2 642.386377 1282.7582 NaN NaN NaN NaN NaN NaN NaN 78.222 1 78.686 78.186 79.186 0.4642 0 0 0 1.0055 1 38001 38001 3.5965 0.60125 1 182 5203 163 163 180 180 0.12813181942806295 AAPKQTRWEE 10 Unmodified _AAPKQTRWEE_ 0 0 0 ENST00000265678.8_1_6:166824720-166824909:-|nuORF ENST00000265678.8_1_6:166824720-166824909:-|nuORF ENST00000265678.8_1_6:166824720-166824909:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 608.5895385742188 2 608.309469 1214.60439 NaN NaN NaN NaN NaN NaN NaN 63.604 1 64.326 63.826 64.826 0.72236 0 0 0 0.98866 1 29813 29813 7.2892 0.56607 1 183 6621 164 164 181 181 0.005667273866265532 AAPKTKKIKAF 11 Unmodified _AAPKTKKIKAF_ 0 0 0 nc|ENSG00000168137|Q9C0A6-3|SETD5 nc|ENSG00000168137|Q9C0A6-3|SETD5 nc|ENSG00000168137|Q9C0A6-3|SETD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.8863525390625 2 601.884616 1201.75468 NaN NaN NaN NaN NaN NaN NaN 63.163 1 63.885 63.385 64.385 0.72236 0 0 0 1.0034 1 29561 29561 6.2058 2.9245 1 184 9743 165 165 182 182 0.1618711911619357 AAPLLGLHLV 10 Unmodified _AAPLLGLHLV_ 0 0 0 REV__SDHD|p.L76H|1|0.39|ENSG00000204370|chr11:112088924-112088924|T/A|missense_variant REV__SDHD|p.L76H|1|0.39|ENSG00000204370|chr11:112088924-112088924|T/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.2669372558594 2 502.318577 1002.6226 NaN NaN NaN NaN NaN NaN NaN 69.765 1 69.765 69.265 70.265 0 0 0 0 0.98473 1 33752 33752 7.9102 0.62092 1 + 185 18209 166 166 183 183 0.12139514099294502 AAPLLLLLLLL 11 Unmodified _AAPLLLLLLLL_ 0 0 0 REV__ENST00000498308.1_1_7:5111828-5112677:+|nuORF REV__ENST00000498308.1_1_7:5111828-5112677:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.9143676757812 2 581.91231 1161.81007 NaN NaN NaN NaN NaN NaN NaN 71.571 1 72.275 71.775 72.775 0.70386 0 0 0 1.0071 1 34385 34385 1.4819 0 1 + 186 16009 167 167 184 184 0.23563532584012137 AAPLLREIF 9 Unmodified _AAPLLREIF_ 0 0 0 nc|ENSG00000198589|P50851-2|LRBA;ENSG00000198589|ENST00000651943|LRBA;nc|ENSG00000198589|P50851|LRBA;LRBA|p.H1830Lfs*7|1|0.13|ENSG00000198589|chr4:150806300-150806300|T/-|frameshift_variant nc|ENSG00000198589|P50851-2|LRBA nc|ENSG00000198589|P50851-2|LRBA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.3082885742188 2 515.30821 1028.60187 NaN NaN NaN NaN NaN NaN NaN 81.889 1 82.549 82.049 83.049 0.65998 0 0 0 0.90511 1 37733 37733 2.3027 0 1 187 5904 168 168 185 185 0.08870923719587154 AAPLLVQVNE 10 Unmodified _AAPLLVQVNE_ 0 0 0 REV__nc|ENSG00000109466|O95198-3|KLHL2 REV__nc|ENSG00000109466|O95198-3|KLHL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.3021240234375 2 527.300581 1052.58661 NaN NaN NaN NaN NaN NaN NaN 54.328 1 54.328 53.828 54.828 0 0 0 0 0.99687 1 24918 24918 4.3292 0.38484 1 + 188 11170 169 169 186 186 0.06242012131770025 AAPLSLGPV 9 Unmodified _AAPLSLGPV_ 0 0 0 REV__ENST00000005340.9_1_17:7128967-7129144:-|nuORF REV__ENST00000005340.9_1_17:7128967-7129144:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 824.8489990234375 1 824.48763 823.480354 3.3782 0.0027853 -2.1486 -0.0017715 1.2296 0.0010138 824.4850376599306 98.481 0.030212 98.481 98.461 98.491 0 4 2 2 0 0 0 0.10908 1 53924 53924 5.2307 0 1 17941000 + 189 14772 170 170 187 187 0.06155301357091503 AAPLVHVRRR 10 Unmodified _AAPLVHVRRR_ 0 0 0 REV__ENST00000343470.8_2_4:4291788-4291833:-|nuORF REV__ENST00000343470.8_2_4:4291788-4291833:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.8650512695312 2 587.867623 1173.72069 NaN NaN NaN NaN NaN NaN NaN 64.106 1 64.821 64.321 65.321 0.71521 0 0 0 0.99687 1 30156 30156 4.3292 0.38484 1 + 190 15488 171 171 188 188 0.14078135467843822 AAPLYQYWY 9 Unmodified _AAPLYQYWY_ 0 0 0 REV__ENST00000483834.1_1_3:52273291-52274234:+|nuORF REV__ENST00000483834.1_1_3:52273291-52274234:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.5219116210938 2 587.782025 1173.5495 NaN NaN NaN NaN NaN NaN NaN 63.279 1 64.001 63.501 64.501 0.72236 0 0 0 0.89315 1 29625 29625 5.2307 0.90143 1 + 191 16726 172 172 189 189 -0.030336594139953377 AAPMDWMQE 9 Unmodified _AAPMDWMQE_ 0 0 0 nc|ENSG00000162062|Q7L2K0-3|TEDC2;ENST00000565716.1_1_16:2511058-2514276:+|nuORF;nc|ENSG00000162062|Q7L2K0-2|TEDC2;ENSG00000162062|ENST00000361837|TEDC2 nc|ENSG00000162062|Q7L2K0-3|TEDC2 nc|ENSG00000162062|Q7L2K0-3|TEDC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.7215576171875 2 539.720252 1077.42595 NaN NaN NaN NaN NaN NaN NaN 66.261 1 66.261 65.761 66.761 0 0 0 0 0.90511 1 31652 31652 2.3027 0 1 192 4117 173 173 190 190 -0.10966401848281748 AAPPAAAAVPH 11 Unmodified _AAPPAAAAVPH_ 0 0 0 ENSG00000162923|ENST00000414423|WDR26 ENSG00000162923|ENST00000414423|WDR26 ENSG00000162923|ENST00000414423|WDR26 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 486.4771728515625 2 486.766709 971.518865 NaN NaN NaN NaN NaN NaN NaN 64.97 1 64.97 64.47 65.47 0 0 0 0 0.95662 1 30876 30876 10.824 1.4408 1 193 4179 174 174 191 191 0.03196606991605222 AAPPAFPDREG 11 Unmodified _AAPPAFPDREG_ 0 0 0 ENST00000404801.1_1_19:35454807-35454945:-|nuORF ENST00000404801.1_1_19:35454807-35454945:-|nuORF ENST00000404801.1_1_19:35454807-35454945:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.8939819335938 2 564.277638 1126.54072 NaN NaN NaN NaN NaN NaN NaN 74.717 1 74.717 74.217 75.217 0 0 0 0 0.95662 1 36537 36537 10.824 2.9138 1 194 7629 175 175 192 192 -0.017486330504880243 AAPPAPSQNRR 11 Unmodified _AAPPAPSQNRR_ 0 0 0 REV__ENSG00000218336|ENST00000511685|TENM3 REV__ENSG00000218336|ENST00000511685|TENM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 582.81494140625 2 582.815253 1163.61595 NaN NaN NaN NaN NaN NaN NaN 67.714 1 67.714 67.214 68.214 0 0 0 0 0.99968 1 32529 32529 6.7232 0 1 + 195 14534 176 176 193 193 0.040689692006026235 AAPPFRKQR 9 Unmodified _AAPPFRKQR_ 0 0 0 REV__ENST00000458180.1_1_3:195635405-195635600:+|nuORF REV__ENST00000458180.1_1_3:195635405-195635600:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.1064453125 2 535.814525 1069.6145 NaN NaN NaN NaN NaN NaN NaN 64.261 1 64.976 64.476 65.476 0.71521 0 0 0 0.7971 1 30258 30258 9.3474 0.75416 1 + 196 16466 177 177 194 194 0.08247379902513785 AAPPFTYGPPV 11 Unmodified _AAPPFTYGPPV_ 0 0 0 REV__ENSG00000080603|ENST00000262518|SRCAP REV__ENSG00000080603|ENST00000262518|SRCAP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.8014526367188 2 558.78985 1115.56515 NaN NaN NaN NaN NaN NaN NaN 64.217 1 64.217 63.717 64.717 0 0 0 0 0.95662 1 30375 30375 10.824 2.9138 1 + 197 10597 178 178 195 195 0.011986271030536955 AAPPGPQSPEH 11 Unmodified _AAPPGPQSPEH_ 0 0 0 ENSG00000248713|ENST00000511828|C4orf54 ENSG00000248713|ENST00000511828|C4orf54 ENSG00000248713|ENST00000511828|C4orf54 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.8231201171875 2 544.261988 1086.50942 NaN NaN NaN NaN NaN NaN NaN 78.56 1 78.56 78.06 79.06 0 0 0 0 1.0034 1 38645 38645 6.2058 1.4498 1 198 6257 179 179 196 196 -0.030372060845593296 AAPPHKVHI 9 Unmodified _AAPPHKVHI_ 0 0 0 REV__LTBP1|p.E492A|1|0.24|ENSG00000049323|chr2:33188625-33188625|A/C|missense_variant REV__LTBP1|p.E492A|1|0.24|ENSG00000049323|chr2:33188625-33188625|A/C|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2881774902344 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 76.817 1 77.073 76.573 77.573 0.25533 0 0 0 0.89683 1 35372 35372 4.3292 1.7518 1 + 199 17819 180 180 197 197 0.07004903608185487 AAPPLPVLGFL 11 Unmodified _AAPPLPVLGFL_ 0 0 0 ENST00000295851.9_2_2:204193088-204193232:+|nuORF ENST00000295851.9_2_2:204193088-204193232:+|nuORF ENST00000295851.9_2_2:204193088-204193232:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.0338134765625 2 547.83406 1093.65357 NaN NaN NaN NaN NaN NaN NaN 72.082 1 72.745 72.245 73.245 0.66324 0 0 0 0.95662 1 33043 33043 10.824 1.4408 1 200 6762 181 181 198 198 0.11048667413524527 AAPPLSIRKF 10 Unmodified _AAPPLSIRKF_ 0 0 0 REV__ENSG00000130477|ENST00000519716|UNC13A REV__ENSG00000130477|ENST00000519716|UNC13A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.4405517578125 2 550.334759 1098.65496 NaN NaN NaN NaN NaN NaN NaN 80.667 1 80.836 80.336 81.336 0.16862 0 0 0 0.98473 1 39546 39546 7.9102 1.187 1 + 201 11818 182 182 199 199 0.10958301502250833 AAPPQIYHEK 10 Unmodified _AAPPQIYHEK_ 0 0 0 ENSG00000100221|ENST00000683374|JOSD1 ENSG00000100221|ENST00000683374|JOSD1 ENSG00000100221|ENST00000683374|JOSD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.3037109375 2 577.303655 1152.59276 NaN NaN NaN NaN NaN NaN NaN 62.485 1 63.216 62.716 63.716 0.73077 0 0 0 0.98473 1 29135 29135 7.9102 1.187 1 202 1189 183 183 200 200 0.02256530363274578 AAPPQIYHEKQ 11 Unmodified _AAPPQIYHEKQ_ 0 0 0 ENSG00000100221|ENST00000683374|JOSD1 ENSG00000100221|ENST00000683374|JOSD1 ENSG00000100221|ENST00000683374|JOSD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.332275390625 2 641.332944 1280.65134 NaN NaN NaN NaN NaN NaN NaN 61.513 1 62.253 61.753 62.753 0.7396 0 0 0 0.99968 1 28535 28535 6.7232 0.51738 1 203 1189 184 184 201 201 0.02223586937748223 AAPPVPCRLFY 11 Unmodified _AAPPVPCRLFY_ 0 0 0 REV__ENST00000376227.3_1_X:49106764-49106968:+|nuORF REV__ENST00000376227.3_1_X:49106764-49106968:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.326416015625 2 617.326076 1232.6376 NaN NaN NaN NaN NaN NaN NaN 78.121 1 78.121 77.621 78.621 0 0 0 0 1.0071 1 38358 38358 1.4819 0 1 + 204 15819 185 185 202 202 0.03058637904950956 AAPPVRLARV 10 Unmodified _AAPPVRLARV_ 0 0 0 ENST00000282388.3_2_2:43451527-43452328:-|nuORF ENST00000282388.3_2_2:43451527-43452328:-|nuORF ENST00000282388.3_2_2:43451527-43452328:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 525.301025390625 2 525.33255 1048.65055 NaN NaN NaN NaN NaN NaN NaN 74.944 1 75.607 75.107 76.107 0.6635 0 0 0 0.99954 1 36256 36256 4.3292 0 1 205 6702 186 186 203 203 0.1281683707936736 AAPRALLPLLR 11 Unmodified _AAPRALLPLLR_ 0 0 0 REV__ENSG00000239264|ENST00000379757|TXNDC5 REV__ENSG00000239264|ENST00000379757|TXNDC5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 595.6851806640625 2 595.890232 1189.76591 NaN NaN NaN NaN NaN NaN NaN 77.852 1 77.852 77.352 78.352 0 0 0 0 1.0055 1 38201 38201 3.5965 1.9439 1 + 206 14599 187 187 204 204 0.1786194121036715 AAPRAQLQEA 10 Unmodified _AAPRAQLQEA_ 0 0 0 ENST00000564460.2_1_16:952344-953654:-|nuORF ENST00000564460.2_1_16:952344-953654:-|nuORF ENST00000564460.2_1_16:952344-953654:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.7839965820312 2 527.78563 1053.55671 NaN NaN NaN NaN NaN NaN NaN 60.599 1 60.599 60.099 61.099 0 0 0 0 0.99733 1 28178 28178 3.9444 0.66309 1 207 9031 188 188 205 205 0.03207073186422349 AAPRPRLLLL 10 Unmodified _AAPRPRLLLL_ 0 0 0 nc|ENSG00000106799|P36897-2|TGFBR1;ENSG00000106799|ENST00000374994|TGFBR1;nc|ENSG00000106799|P36897-3|TGFBR1 nc|ENSG00000106799|P36897-2|TGFBR1 nc|ENSG00000106799|P36897-2|TGFBR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.4483032226562 2 560.371675 1118.7288 NaN NaN NaN NaN NaN NaN NaN 74.809 1 75.067 74.567 75.567 0.25831 0 0 0 0.99687 1 34411 34411 4.3292 0 1 208 1583 189 189 206 206 0.17418269664631225 AAPRPRLLLL 10 Unmodified _AAPRPRLLLL_ 0 0 0 nc|ENSG00000106799|P36897-2|TGFBR1;ENSG00000106799|ENST00000374994|TGFBR1;nc|ENSG00000106799|P36897-3|TGFBR1 nc|ENSG00000106799|P36897-2|TGFBR1 nc|ENSG00000106799|P36897-2|TGFBR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.6204833984375 2 560.371675 1118.7288 NaN NaN NaN NaN NaN NaN NaN 93.565 1 94.196 93.696 94.696 0.63115 0 0 0 1.0015 1 43040 43040 0.45834 0 1 209 1583 189 189 207 207 0.17418269664631225 AAPRRRIQIT 10 Unmodified _AAPRRRIQIT_ 0 0 0 ENST00000313565.10_1_16:71898855-71918020:-|nuORF;ENST00000568961.5_1_16:71915334-71918023:-|nuORF ENST00000313565.10_1_16:71898855-71918020:-|nuORF ENST00000313565.10_1_16:71898855-71918020:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.3660888671875 2 591.364913 1180.71527 NaN NaN NaN NaN NaN NaN NaN 73.102 1 73.801 73.301 74.301 0.69881 0 0 0 0.99225 1 35232 35232 6.7232 1.4263 1 210 6886 190 190 208 208 0.13214411885360278 AAPRRRKGNR 10 Unmodified _AAPRRRKGNR_ 0 0 0 ENST00000357060.7_2_10:105990583-105992116:-|nuORF ENST00000357060.7_2_10:105990583-105992116:-|nuORF ENST00000357060.7_2_10:105990583-105992116:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.777099609375 2 591.357954 1180.70135 NaN NaN NaN NaN NaN NaN NaN 87.305 1 87.555 87.055 88.055 0.24974 0 0 0 0.99983 1 40183 40183 1.8442 0 1 211 7170 191 191 209 209 0.11823179176940357 AAPRTLPSR 9 Unmodified _AAPRTLPSR_ 0 0 0 REV__ENST00000464676.5_1_3:133698382-133748739:-|nuORF REV__ENST00000464676.5_1_3:133698382-133748739:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.60125732421875 2 484.785433 967.556313 NaN NaN NaN NaN NaN NaN NaN 54.95 1 54.95 54.45 55.45 0 0 0 0 0.88916 1 25229 25229 6.2058 0 1 + 212 16508 192 192 210 210 0.07123698257248634 AAPRWPRQPR 10 Unmodified _AAPRWPRQPR_ 0 0 0 ENST00000441407.1_1_7:32768273-32768576:+|nuORF ENST00000441407.1_1_7:32768273-32768576:+|nuORF ENST00000441407.1_1_7:32768273-32768576:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 617.8489990234375 2 617.84943 1233.68431 NaN NaN NaN NaN NaN NaN NaN 75.886 1 76.549 76.049 77.049 0.6635 0 0 0 0.99733 1 36760 36760 3.9444 0.66309 1 213 7934 193 193 211 211 0.07681258571119542 AAPRWRDWDTQ 11 Unmodified _AAPRWRDWDTQ_ 0 0 0 ENST00000566228.5_1_16:12662669-12662843:+|nuORF ENST00000566228.5_1_16:12662669-12662843:+|nuORF ENST00000566228.5_1_16:12662669-12662843:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 468.05230712890625 3 467.893459 1400.65855 NaN NaN NaN NaN NaN NaN NaN 67.85 1 68.552 68.052 69.052 0.70218 0 0 0 1.0059 1 32302 32302 1.2148 0 1 214 9052 194 194 212 212 -0.025756804618367823 AAPSFSPACWC 11 Unmodified _AAPSFSPACWC_ 0 0 0 ENST00000436163.2_X:117250221-117250470:-|nuORF ENST00000436163.2_X:117250221-117250470:-|nuORF ENST00000436163.2_X:117250221-117250470:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.2080688476562 2 570.23607 1138.45759 NaN NaN NaN NaN NaN NaN NaN 76.586 1 77.21 76.71 77.71 0.62397 0 0 0 0.99968 1 37129 37129 6.7232 1.9672 1 215 7897 195 195 213 213 -0.1061040909435178 AAPSRRGP 8 Unmodified _AAPSRRGP_ 0 0 0 ENST00000375050.5_1_6:32157573-32157942:-|nuORF ENST00000375050.5_1_6:32157573-32157942:-|nuORF ENST00000375050.5_1_6:32157573-32157942:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.2314147949219 2 406.230294 810.446034 3.0205 0.001227 0.72506 0.00029454 3.7456 0.0015216 406.2305792547588 14.986 0.37351 15.64 15.473 15.846 0.65356 61 32 2 0 0 0 0.71911 1 6707 6707 4.3292 0 1 254450 216 7390 196 196 214 214 0.03322897988857676 AAPSRYRFVR 10 Unmodified _AAPSRYRFVR_ 0 0 0 ENSG00000184408|ENST00000331113|KCND2 ENSG00000184408|ENST00000331113|KCND2 ENSG00000184408|ENST00000331113|KCND2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.6690673828125 2 611.843813 1221.67307 NaN NaN NaN NaN NaN NaN NaN 54.302 1 54.302 53.802 54.802 0 0 0 0 0.99733 1 24906 24906 3.9444 0.66309 1 217 5439 197 197 215 215 0.07110436476978066 AAPSSRRLL 9 Unmodified _AAPSSRRLL_ 0 0 0 REV__nc|ENSG00000204577|O75022|LILRB3 REV__nc|ENSG00000204577|O75022|LILRB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.1988525390625 3 324.197931 969.571963 2.1429 0.00069473 0.53893 0.00017472 2.6818 0.00086945 324.19812877708466 16.85 0.6057 17.154 16.795 17.401 0.30438 89 55 2 0 0 0 0.92809 1 7624 7624 2.9952 0 1 120570 + 218 14426 198 198 216 216 0.08595984774296994 AAPVANRLI 9 Unmodified _AAPVANRLI_ 0 0 0 REV__ENST00000298048.6_2_9:36572863-36581679:+|nuORF REV__ENST00000298048.6_2_9:36572863-36581679:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 462.7856140136719 2 462.784902 923.55525 NaN NaN NaN NaN NaN NaN NaN 57.081 1 57.859 57.359 58.359 0.77786 0 0 0 0.89509 1 26116 26116 4.756 0 1 + 219 15170 199 199 217 217 0.09041483888336188 AAPVLHRLL 9 Unmodified _AAPVLHRLL_ 0 0 0 REV__nc|ENSG00000106100|Q9Y239-3|NOD1 REV__nc|ENSG00000106100|Q9Y239-3|NOD1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.0033874511719 2 495.316369 988.618185 2.4988 0.0012377 -4.3667 -0.0021629 -1.8679 -0.00092518 495.313354228253 65.194 0.024467 65.194 65.181 65.205 0 5 3 2 0 0 0 0.10908 1 31008 31008 5.2307 0 1 6763500 + 220 11072 200 200 218 218 0.12342049676362876 AAPVRFLQV 9 Unmodified _AAPVRFLQV_ 0 0 0 ENST00000506591.1_1_5:145316511-145316655:+|nuORF ENST00000506591.1_1_5:145316511-145316655:+|nuORF ENST00000506591.1_1_5:145316511-145316655:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.193115234375 3 334.202793 999.58655 NaN NaN NaN NaN NaN NaN NaN 15.83 1 16.488 15.988 16.988 0.65798 0 0 0 0.89509 1 7133 7133 2.7352 0 1 221 8515 201 201 219 219 0.08674056922427553 AAPVRLRRPS 10 Unmodified _AAPVRLRRPS_ 0 0 0 REV__ENST00000306799.7_1_4:142054071-142054365:-|nuORF REV__ENST00000306799.7_1_4:142054071-142054365:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.8473510742188 2 561.846356 1121.67816 3.7313 0.0020964 -0.9833 -0.00055246 2.748 0.001544 561.8456646548796 91.569 0.70294 92.231 91.995 92.698 0.66198 101 35 4 0 0 0 0.93534 1 42081 42081 1.8442 1.2427 1 3339000 + 222 15235 202 202 220 220 0.12218740339608303 AAPVVLLLL 9 Unmodified _AAPVVLLLL_ 0 0 0 REV__ENSG00000163501|ENST00000295731|IHH REV__ENSG00000163501|ENST00000295731|IHH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.7791442871094 2 454.812596 907.61064 NaN NaN NaN NaN NaN NaN NaN 61.737 1 61.737 61.237 62.237 0 0 0 0 0.89315 1 28835 28835 5.2307 0 1 + 223 12993 203 203 221 221 0.15313897356111283 AAPVVLLLL 9 Unmodified _AAPVVLLLL_ 0 0 0 REV__ENSG00000163501|ENST00000295731|IHH REV__ENSG00000163501|ENST00000295731|IHH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.5885009765625 2 454.812596 907.61064 NaN NaN NaN NaN NaN NaN NaN 65.508 1 66.217 65.717 66.717 0.70891 0 0 0 0.89315 1 30992 30992 5.2307 0 1 + 224 12993 203 203 222 222 0.15313897356111283 AAPWCRCCSH 10 Unmodified _AAPWCRCCSH_ 0 0 0 REV__ENST00000470378.1_1_22:50686861-50687221:-|nuORF REV__ENST00000470378.1_1_22:50686861-50687221:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.2415161132812 2 567.225513 1132.43647 NaN NaN NaN NaN NaN NaN NaN 68.226 1 68.226 67.726 68.726 0 0 0 0 0.99687 1 32833 32833 4.3292 0 1 + 225 14808 204 204 223 223 -0.12444697674845884 AAPWDQPVRR 10 Unmodified _AAPWDQPVRR_ 0 0 0 REV__ENST00000477553.1_1_9:124091151-124091454:+|nuORF REV__ENST00000477553.1_1_9:124091151-124091454:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 598.321533203125 2 598.320171 1194.62579 NaN NaN NaN NaN NaN NaN NaN 79.269 1 79.589 79.089 80.089 0.31998 0 0 0 0.99983 1 38712 38712 1.8442 0.19162 1 + 226 16663 205 205 224 224 0.03626157205985692 AAPWLQANF 9 Unmodified _AAPWLQANF_ 0 0 0 ENST00000433117.6_1_22:39910519-39910582:+|nuORF ENST00000433117.6_1_22:39910519-39910582:+|nuORF ENST00000433117.6_1_22:39910519-39910582:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.0252380371094 2 509.261259 1016.50797 NaN NaN NaN NaN NaN NaN NaN 54.804 1 54.804 54.304 55.304 0 0 0 0 0.82031 1 25158 25158 8.5933 2.8614 1 227 7870 206 206 225 225 0.00037204617331099143 AAPWRWRWRR 10 Unmodified _AAPWRWRWRR_ 0 0 0 ENST00000253814.5_1_5:141488387-141511833:+|nuORF ENST00000253814.5_1_5:141488387-141511833:+|nuORF ENST00000253814.5_1_5:141488387-141511833:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 720.7467651367188 2 720.897246 1439.77994 NaN NaN NaN NaN NaN NaN NaN 72.128 1 72.128 71.628 72.628 0 0 0 0 0.99733 1 35071 35071 3.9444 0.3479 1 228 6511 207 207 226 226 0.07764031481997336 AAPWRWRWRRW 11 Unmodified _AAPWRWRWRRW_ 0 0 0 ENST00000253814.5_1_5:141488387-141511833:+|nuORF ENST00000253814.5_1_5:141488387-141511833:+|nuORF ENST00000253814.5_1_5:141488387-141511833:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 813.9393310546875 2 813.936902 1625.85925 NaN NaN NaN NaN NaN NaN NaN 58.699 1 58.699 58.199 59.199 0 0 0 0 1.0082 1 27098 27098 0.35063 0.35063 1 229 6511 208 208 227 227 0.07135678436134185 AAPWSRWRRPC 11 Unmodified _AAPWSRWRRPC_ 0 0 0 ENST00000445535.1_1_1:161576981-161578004:+|nuORF ENST00000445535.1_1_1:161576981-161578004:+|nuORF ENST00000445535.1_1_1:161576981-161578004:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 693.3525390625 2 693.354022 1384.69349 NaN NaN NaN NaN NaN NaN NaN 75.288 1 75.546 75.046 76.046 0.25769 0 0 0 1.0055 1 34638 34638 3.5965 0 1 230 7970 209 209 228 228 0.016532838651528436 AAPWYIKKFNK 11 Unmodified _AAPWYIKKFNK_ 0 0 0 REV__ENSG00000153993|ENST00000284136|SEMA3D REV__ENSG00000153993|ENST00000284136|SEMA3D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 683.3202514648438 2 683.387522 1364.76049 NaN NaN NaN NaN NaN NaN NaN 83.729 1 84.391 83.891 84.891 0.66219 0 0 0 1.0071 1 38565 38565 1.4819 0 1 + 231 12692 210 210 229 229 0.0927021762786353 AAPYREEEE 9 Unmodified _AAPYREEEE_ 0 0 0 ENSG00000185215|ENST00000560869|TNFAIP2;ENST00000559195.5_1_14:103592737-103596345:+|nuORF ENSG00000185215|ENST00000560869|TNFAIP2 ENSG00000185215|ENST00000560869|TNFAIP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.2421875 2 547.24346 1092.47237 NaN NaN NaN NaN NaN NaN NaN 83.095 1 83.14 82.64 83.64 0.045006 0 0 0 0.90511 1 41156 41156 2.3027 0 1 232 5495 211 211 230 230 -0.07016922420984884 AAQEEDWPLC 10 Unmodified _AAQEEDWPLC_ 0 0 0 ENST00000257527.8_2_5:156905371-156905707:-|nuORF ENST00000257527.8_2_5:156905371-156905707:-|nuORF ENST00000257527.8_2_5:156905371-156905707:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.1539306640625 2 581.247689 1160.48082 NaN NaN NaN NaN NaN NaN NaN 74.817 1 75.5 75 76 0.68295 0 0 0 0.99687 1 36171 36171 4.3292 0 1 233 6529 212 212 231 231 -0.09299691776004693 AARALALAA 9 Unmodified _AARALALAA_ 0 0 0 REV__nc|ENSG00000160703|Q86UT6-2|NLRX1 REV__nc|ENSG00000160703|Q86UT6-2|NLRX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 414.2594299316406 2 414.25852 826.502486 2.7805 0.0011518 0.3042 0.00012602 3.0847 0.0012779 414.2586311180889 27.735 0.36729 28.522 28.349 28.716 0.78627 90 33 4 0 0 0 0.0080831 1 12525 12525 85.357 3.7437 1 5186300 + 234 12888 213 213 232 232 0.08229525825504425 AARALALAA 9 Unmodified _AARALALAA_ 0 0 0 REV__nc|ENSG00000160703|Q86UT6-2|NLRX1 REV__nc|ENSG00000160703|Q86UT6-2|NLRX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.25982666015625 2 414.25852 826.502486 2.8234 0.0011696 -0.0098266 -4.0708E-06 2.8135 0.0011655 414.25853174123904 28.26 0.38161 28.523 28.335 28.716 0.26245 94 28 4 0 0 0 0.012869 1 12805 12805 77.984 3.5616 1 23307000 + 235 12888 213 213 233 233 0.08229525825504425 AARALALAA 9 Unmodified _AARALALAA_ 0 0 0 REV__nc|ENSG00000160703|Q86UT6-2|NLRX1 REV__nc|ENSG00000160703|Q86UT6-2|NLRX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.2596130371094 2 414.25852 826.502486 2.9068 0.0012042 -0.062362 -2.5834E-05 2.8444 0.0011783 414.25851750193533 27.848 0.37158 28.467 28.302 28.674 0.61947 78 25 4 0 0 0 0.012869 2 12729 12729;12830 77.984 3.5616 1 23828000 + 236 12888 213 213 234;235 234 0.08229525825504425 AARGRHVF 8 Unmodified _AARGRHVF_ 0 0 0 REV__ENST00000467201.5_1_7:100174858-100176198:-|nuORF REV__ENST00000467201.5_1_7:100174858-100176198:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 305.1850280761719 3 305.175349 912.504218 NaN NaN NaN NaN NaN NaN NaN 49.228 1 50.055 49.555 50.555 0.82705 0 0 0 0.99035 1 22427 22427 1.6526 0.17072 1 + 237 16552 214 214 236 236 0.04446579634134196 AARGVLWIP 9 Unmodified _AARGVLWIP_ 0 0 0 REV__ENST00000564318.1_1_16:75573894-75575375:-|nuORF REV__ENST00000564318.1_1_16:75573894-75575375:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7978515625 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 68.886 1 69.14 68.64 69.64 0.25443 0 0 0 0.89683 1 31556 31556 4.3292 0 1 + 238 14452 215 215 237 237 0.08446074267999393 AARKIMRFLRR 11 Unmodified _AARKIMRFLRR_ 0 0 0 ENST00000574951.5_1_17:4872053-4885503:-|nuORF;nc|ENSG00000108509|O94983-2|CAMTA2;nc|ENSG00000108509|O94983-3|CAMTA2;nc|ENSG00000108509|O94983-4|CAMTA2;ENSG00000108509|ENST00000348066|CAMTA2;nc|ENSG00000108509|O94983-5|CAMTA2;ENST00000574442.1_1_17:4872053-4872704:-|nuORF;nc|ENSG00000171735|Q9Y6Y1-2|CAMTA1;ENSG00000171735|ENST00000303635|CAMTA1 ENST00000574951.5_1_17:4872053-4885503:-|nuORF;nc|ENSG00000171735|Q9Y6Y1-2|CAMTA1 ENST00000574951.5_1_17:4872053-4885503:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 709.4410400390625 2 709.437889 1416.86123 NaN NaN NaN NaN NaN NaN NaN 43.514 1 44.162 43.662 44.662 0.64872 0 0 0 1.0079 1 19938 19938 1.4819 1.1313 1 239 1634;4828 216 216 238 238 0.16946971129732447 AARKKPDRRKR 11 Unmodified _AARKKPDRRKR_ 0 0 0 REV__ENSG00000283247|ENST00000636578|CCDC201 REV__ENSG00000283247|ENST00000636578|CCDC201 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 691.4315185546875 2 691.434193 1380.85383 NaN NaN NaN NaN NaN NaN NaN 52.712 1 52.976 52.476 53.476 0.26345 0 0 0 1.008 1 24098 24098 0.35063 0 1 + 240 14764 217 217 239 239 0.17863954853669384 AARLRQIH 8 Unmodified _AARLRQIH_ 0 0 0 ENSG00000137875|ENST00000260442|BCL2L10 ENSG00000137875|ENST00000260442|BCL2L10 ENSG00000137875|ENST00000260442|BCL2L10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 482.7232971191406 2 482.793592 963.572632 NaN NaN NaN NaN NaN NaN NaN 76.982 1 76.982 76.482 77.482 0 0 0 0 0.99035 1 37735 37735 5.7604 0.52976 1 241 3052 218 218 240 240 0.08938824213976204 AARLWQVKRQ 10 Unmodified _AARLWQVKRQ_ 0 0 0 ENST00000345732.8_1_11:60237332-60237389:+|nuORF ENST00000345732.8_1_11:60237332-60237389:+|nuORF ENST00000345732.8_1_11:60237332-60237389:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 628.3751220703125 2 628.372738 1254.73092 NaN NaN NaN NaN NaN NaN NaN 62.414 1 62.414 61.914 62.914 0 0 0 0 0.99733 1 29250 29250 3.9444 0 1 242 7113 219 219 241 241 0.11374698402391914 AARMRIPL 8 Unmodified _AARMRIPL_ 0 0 0 REV__ADCY6|p.Y849Ffs*49|1|0.29|ENSG00000174233|chr12:48773544-48773544|T/-|frameshift_variant REV__ADCY6|p.Y849Ffs*49|1|0.29|ENSG00000174233|chr12:48773544-48773544|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 927.5584716796875 1 927.555667 926.548391 3.8032 0.0035277 -1.207 -0.0011196 2.5962 0.0024081 927.5535405214571 54.815 0.15002 55.481 55.381 55.531 0.6665 12 8 2 0 0 0 0.7471 1 25079 25079 2.5775 0 1 526970 + 243 9926 220 220 242 242 0.08217847736113981 AARRGLLF 8 Unmodified _AARRGLLF_ 0 0 0 REV__ENST00000262376.10_1_16:4897931-4902890:+|nuORF REV__ENST00000262376.10_1_16:4897931-4902890:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.2810363769531 2 452.279786 902.54502 2.8842 0.0013045 0.35985 0.00016276 3.2441 0.0014672 452.2801547030159 25.874 0.1423 26.142 26.098 26.24 0.26777 16 13 2 0 0 0 0.73686 1 11741 11741 2.8892 0 1 219490 + 244 14981 221 221 243 243 0.08984920953764686 AARRGRKRKA 10 Unmodified _AARRGRKRKA_ 0 0 0 ENST00000422292.2_1_9:15055292-15055805:+|nuORF;nc|ENSG00000164985|O75475-3|PSIP1;nc|ENSG00000164985|O75475-2|PSIP1;ENSG00000164985|ENST00000380733|PSIP1 ENST00000422292.2_1_9:15055292-15055805:+|nuORF ENST00000422292.2_1_9:15055292-15055805:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 585.3757934570312 2 585.376146 1168.73774 NaN NaN NaN NaN NaN NaN NaN 50.992 1 51.254 50.754 51.754 0.26146 0 0 0 1.0015 1 23304 23304 0.45834 0.057624 1 245 7766 222 222 244 244 0.16012056073645908 AARRKKRRR 9 Unmodified _AARRKKRRR_ 0 0 0 nc|ENSG00000048649|Q96T23-3|RSF1;nc|ENSG00000048649|Q96T23-2|RSF1;ENSG00000048649|ENST00000308488|RSF1 nc|ENSG00000048649|Q96T23-3|RSF1 nc|ENSG00000048649|Q96T23-3|RSF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 599.4732666015625 2 599.397413 1196.78027 NaN NaN NaN NaN NaN NaN NaN 77.654 1 78.215 77.715 78.715 0.56091 0 0 0 0.90511 1 37676 37676 2.3027 0.4585 1 246 569 223 223 245 245 0.18975451201845317 AARRKQEQEH 10 Unmodified _AARRKQEQEH_ 0 0 0 ENST00000466442.6_1_11:3023374-3028178:-|nuORF ENST00000466442.6_1_11:3023374-3028178:-|nuORF ENST00000466442.6_1_11:3023374-3028178:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 626.8546142578125 2 626.828892 1251.64323 NaN NaN NaN NaN NaN NaN NaN 73.696 1 74.361 73.861 74.861 0.6644 0 0 0 0.99464 1 33888 33888 6.2058 0 1 247 8136 224 224 246 246 0.027474527409822258 AARRLLQVH 9 Unmodified _AARRLLQVH_ 0 0 0 REV__ENSG00000108839|ENST00000251535|ALOX12 REV__ENSG00000108839|ENST00000251535|ALOX12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.2300415039062 2 532.327799 1062.64105 2.8369 0.0015101 -1.4794 -0.00078753 1.3575 0.00072261 532.3265804861252 60.791 0.021072 60.791 60.775 60.797 0 4 2 2 0 0 0 0.76984 1 28294 28294 7.9102 1.187 1 2114200 + 248 11159 225 225 247 247 0.11223068793856328 AARRPGGK 8 Unmodified _AARRPGGK_ 0 0 0 ENST00000558014.5_1_15:47476428-47476563:+|nuORF ENST00000558014.5_1_15:47476428-47476563:+|nuORF ENST00000558014.5_1_15:47476428-47476563:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 812.4859008789062 1 812.484945 811.477669 4.3677 0.0035487 0.32386 0.00026313 4.6916 0.0038118 812.4848151336328 91.809 0.2671 92.061 91.988 92.255 0.25253 20 12 2 0 0 0 0.7471 1 42205 42205 0.79363 0 1 506370 249 8946 226 226 248 248 0.06438890742799686 AARRPTRKA 9 Unmodified _AARRPTRKA_ 0 0 0 REV__nc|ENSG00000168539|P11229-2|CHRM1 REV__nc|ENSG00000168539|P11229-2|CHRM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8201293945312 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 9.2997 1 9.929 9.429 10.429 0.62936 0 0 0 0.91206 1 4189 4189 0.6015 0 1 + 250 13355 227 227 249 249 0.10885898134029048 AARRQRLFEKR 11 Unmodified _AARRQRLFEKR_ 0 0 0 REV__nc|ENSG00000169994|Q6PIF6-2|MYO7B REV__nc|ENSG00000169994|Q6PIF6-2|MYO7B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.56158447265625 3 477.619892 1429.83785 NaN NaN NaN NaN NaN NaN NaN 62.909 1 63.631 63.131 64.131 0.72236 0 0 0 1.0062 1 29412 29412 2.6312 0.19645 1 + 251 13416 228 228 250 250 0.14012248616768375 AARRQRQRQRQ 11 Unmodified _AARRQRQRQRQ_ 0 0 0 REV__nc|ENSG00000160323|Q76LX8-3|ADAMTS13 REV__nc|ENSG00000160323|Q76LX8-3|ADAMTS13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 727.41796875 2 727.419605 1452.82466 NaN NaN NaN NaN NaN NaN NaN 74.572 1 74.572 74.072 75.072 0 0 0 0 1.0059 1 36432 36432 2.9952 0 1 + 252 12876 229 229 251 251 0.11635810557390869 AARRRRKRL 9 Unmodified _AARRRRKRL_ 0 0 0 ENST00000496645.5_1_1:159897137-159899822:-|nuORF;nc|ENSG00000085552|Q9P2J2-2|IGSF9;ENSG00000085552|ENST00000368094|IGSF9;ENST00000493195.5_1_1:159899139-159902434:-|nuORF ENST00000496645.5_1_1:159897137-159899822:-|nuORF ENST00000496645.5_1_1:159897137-159899822:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.0283813476562 2 591.891964 1181.76937 2.8969 0.0017146 1.9393 0.0011478 4.8361 0.0028625 591.8909434112471 77.231 0.031738 77.791 77.773 77.804 0.56091 4 2 2 0 0 0 0.10986 1 37444 37444 4.756 0 1 1140700 253 970 230 230 252 252 0.18576048827594605 AARRRRRRRR 10 Unmodified _AARRRRRRRR_ 0 0 0 REV__ENST00000306085.10_3_7:100730337-100730388:+|nuORF REV__ENST00000306085.10_3_7:100730337-100730388:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 705.4571533203125 2 705.454117 1408.89368 NaN NaN NaN NaN NaN NaN NaN 46.303 1 46.569 46.069 47.069 0.26561 0 0 0 0.99983 1 21164 21164 1.8442 1.8442 1 + 254 15229 231 231 253 253 0.205589393676064 AARRSKLVH 9 Unmodified _AARRSKLVH_ 0 0 0 ENSG00000276581|ENST00000437823|SPATA31A5;ENSG00000276040|ENST00000619167|SPATA31A7;ENSG00000275969|ENST00000428649|SPATA31A3;ENSG00000204849|ENST00000377647|SPATA31A1 ENSG00000276581|ENST00000437823|SPATA31A5 ENSG00000276581|ENST00000437823|SPATA31A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.3187255859375 2 519.319974 1036.6254 NaN NaN NaN NaN NaN NaN NaN 78.809 1 79.274 78.774 79.774 0.4642 0 0 0 0.69911 1 38366 38366 12.532 1.7076 1 255 6033 232 232 254 254 0.10854782276783226 AARSRPVSL 9 Unmodified _AARSRPVSL_ 0 0 0 ENST00000304658.9_1_16:28222843-28223173:-|nuORF ENST00000304658.9_1_16:28222843-28223173:-|nuORF ENST00000304658.9_1_16:28222843-28223173:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.78424072265625 2 478.785433 955.556313 NaN NaN NaN NaN NaN NaN NaN 33.918 1 34.539 34.039 35.039 0.62031 0 0 0 0.49214 1 15541 15541 19.257 8.4331 1 256 6829 233 233 255 255 0.07675698257230579 AARTLYGREPR 11 Unmodified _AARTLYGREPR_ 0 0 0 REV__ENST00000607166.1_1_10:31607359-31607734:-|nuORF REV__ENST00000607166.1_1_10:31607359-31607734:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 645.3546142578125 2 645.357285 1288.70002 NaN NaN NaN NaN NaN NaN NaN 78.095 1 78.095 77.595 78.595 0 0 0 0 1.0044 1 38340 38340 4.897 1.3005 1 + 257 17670 234 234 256 256 0.06721500297499006 AARWRWRRPP 10 Unmodified _AARWRWRRPP_ 0 0 0 REV__ENST00000320895.9_1_5:1345049-1345133:-|nuORF REV__ENST00000320895.9_1_5:1345049-1345133:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 676.3837890625 2 676.383971 1350.75339 NaN NaN NaN NaN NaN NaN NaN 92.065 1 92.148 91.648 92.648 0.082848 0 0 0 1.0003 1 47881 47881 1.4819 0 1 + 258 15315 235 235 257 257 0.09204342590669512 AARYYYYWHLR 11 Unmodified _AARYYYYWHLR_ 0 0 0 ENSG00000139926|ENST00000344768|FRMD6;nc|ENSG00000139926|Q96NE9-2|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 781.3892822265625 2 781.388585 1560.76262 NaN NaN NaN NaN NaN NaN NaN 73.625 1 73.625 73.125 74.125 0 0 0 0 1.008 1 35916 35916 0.35063 0 1 259 3172 236 236 258 258 0.004666463657031272 AASAPSILIHF 11 Unmodified _AASAPSILIHF_ 0 0 0 ENST00000524870.1_1_11:67816626-67816899:+|nuORF;ENST00000533005.5_1_11:67811756-67818283:+|nuORF;nc|ENSG00000110719|Q13488-2|TCIRG1;ENSG00000110719|ENST00000265686|TCIRG1 ENST00000524870.1_1_11:67816626-67816899:+|nuORF ENST00000524870.1_1_11:67816626-67816899:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.2147216796875 3 376.213358 1125.61824 2.6438 0.00099463 0.97243 0.00036584 3.6162 0.0013605 376.2138189918453 54.924 0.56239 55.59 55.412 55.974 0.6665 47 23 4 0 0 0 0.89544 1 25137 25137 2.6312 0.13275 1 1892600 260 1727 237 237 259 259 0.060460048857066795 AASLRKVSM 9 Unmodified _AASLRKVSM_ 0 0 0 ENSG00000082153|ENST00000409600|BZW1;nc|ENSG00000082153|Q7L1Q6-4|BZW1;nc|ENSG00000082153|Q7L1Q6-3|BZW1;nc|ENSG00000082153|Q7L1Q6-2|BZW1 ENSG00000082153|ENST00000409600|BZW1 ENSG00000082153|ENST00000409600|BZW1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.7770080566406 2 481.776219 961.537886 NaN NaN NaN NaN NaN NaN NaN 18.572 1 18.869 18.369 19.369 0.29753 0 0 0 0.52632 1 8423 8423 18.146 0 1 261 926 238 238 260 260 0.05557820291016924 AASNPYLF 8 Unmodified _AASNPYLF_ 0 0 0 REV__ENST00000025301.3_1_13:42893657-42893729:+|nuORF REV__ENST00000025301.3_1_13:42893657-42893729:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.7208557128906 2 441.721436 881.428318 NaN NaN NaN NaN NaN NaN NaN 12.635 1 12.942 12.442 13.442 0.30727 0 0 0 0.99035 1 5701 5701 5.2307 0.47466 1 + 262 14776 239 239 261 261 -0.017138620566583995 AASRVPYLPI 10 Unmodified _AASRVPYLPI_ 0 0 0 REV__ENSG00000166377|ENST00000426216|ATP9B REV__ENSG00000166377|ENST00000426216|ATP9B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.8830261230469 3 362.88172 1085.62333 2.6713 0.00096935 0.75296 0.00027324 3.4242 0.0012426 362.88194312226864 40.799 0.50489 40.799 40.649 41.153 0 73 32 3 0 0 0 0.60841 1 18655 18655 10.899 0 1 2703600 + 263 13231 240 240 262 262 0.08394308748324875 AASRVPYLPI 10 Unmodified _AASRVPYLPI_ 0 0 0 REV__ENSG00000166377|ENST00000426216|ATP9B REV__ENSG00000166377|ENST00000426216|ATP9B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.8822021484375 3 362.88172 1085.62333 2.3683 0.00085942 0.032699 1.1866E-05 2.401 0.00087129 362.8816750217769 40.076 0.92643 40.876 40.178 41.104 0.80014 93 57 3 0 0 0 0.4567 1 18201 18201 14.957 0 1 2988100 + 264 13231 240 240 263 263 0.08394308748324875 AATAAPYPFG 10 Unmodified _AATAAPYPFG_ 0 0 0 REV__nc|ENSG00000078328|Q9NWB1-3|RBFOX1 REV__nc|ENSG00000078328|Q9NWB1-3|RBFOX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.24090576171875 2 483.239993 964.465432 NaN NaN NaN NaN NaN NaN NaN 97.701 1 98.3 97.8 98.8 0.59885 0 0 0 0.88535 1 44935 44935 20.454 5.6154 1 + 265 10570 241 241 264 264 -0.018221905109157888 AATFLKKVAK 10 Unmodified _AATFLKKVAK_ 0 0 0 ENSG00000182446|ENST00000331134|NPLOC4;nc|ENSG00000182446|Q8TAT6-2|NPLOC4;ENST00000570300.1_1_17:79575918-79596804:-|nuORF ENSG00000182446|ENST00000331134|NPLOC4 ENSG00000182446|ENST00000331134|NPLOC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.5819091796875 2 538.844959 1075.67537 NaN NaN NaN NaN NaN NaN NaN 65.284 1 65.993 65.493 66.493 0.70891 0 0 0 0.99733 1 30859 30859 3.9444 1.6417 1 266 5333 242 242 265 265 0.14055472162067417 AATHIYDDAV 10 Unmodified _AATHIYDDAV_ 0 0 0 REV__ENST00000547000.1_1_12:101462478-101462640:+|nuORF REV__ENST00000547000.1_1_12:101462478-101462640:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.7573852539062 2 538.256371 1074.49819 3.2012 0.001723 -0.40301 -0.00021692 2.7982 0.0015061 538.2585973214792 26.025 0.61147 26.65 26.457 27.068 0.62505 62 40 3 0 0 0 0.89464 1 12082 12082 3.9444 0.94915 1 403160 + 267 10687 243 243 266 266 -0.036080281787235435 AATHNYVVD 9 Unmodified _AATHNYVVD_ 0 0 0 REV__AGL|p.I817Nfs*3|1|0.24|ENSG00000162688|chr1:99884350-99884351|-/A|frameshift_variant REV__AGL|p.I817Nfs*3|1|0.24|ENSG00000162688|chr1:99884350-99884351|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.25286865234375 2 495.237981 988.461409 NaN NaN NaN NaN NaN NaN NaN 74.056 1 74.056 73.556 74.556 0 0 0 0 0.62812 1 36141 36141 14.838 0.25658 1 + 268 9933 244 244 267 267 -0.03328280004620865 AATHRYRVGL 10 Unmodified _AATHRYRVGL_ 0 0 0 REV__nc|ENSG00000150893|Q5SZK8-2|FREM2 REV__nc|ENSG00000150893|Q5SZK8-2|FREM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 572.325927734375 2 572.322714 1142.63087 NaN NaN NaN NaN NaN NaN NaN 91.906 1 91.906 91.406 92.406 0 0 0 0 0.99733 1 48688 48688 3.9444 0.66309 1 + 269 12597 245 245 268 268 0.065264610685972 AATLGPRPRV 10 Unmodified _AATLGPRPRV_ 0 0 0 REV__ENST00000370339.7_1_20:61847321-61847444:-|nuORF REV__ENST00000370339.7_1_20:61847321-61847444:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.3165893554688 2 519.314358 1036.61416 NaN NaN NaN NaN NaN NaN NaN 80.206 1 80.206 79.706 80.706 0 0 0 0 0.94673 1 39761 39761 13.906 0.86358 1 + 270 15722 246 246 269 269 0.09731960182648436 AATLRYRDP 9 Unmodified _AATLRYRDP_ 0 0 0 ENSG00000167608|ENST00000619895|TMC4;nc|ENSG00000167608|Q7Z404-1|TMC4;nc|ENSG00000167608|Q7Z404|TMC4 ENSG00000167608|ENST00000619895|TMC4 ENSG00000167608|ENST00000619895|TMC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.6837158203125 2 531.788173 1061.56179 NaN NaN NaN NaN NaN NaN NaN 74.734 1 74.734 74.234 75.234 0 0 0 0 0.72654 1 36551 36551 11.64 1.5664 1 271 4563 247 247 270 270 0.03347377049021816 AATPQPVKTK 10 Unmodified _AATPQPVKTK_ 0 0 0 nc|ENSG00000141867|O60885-2|BRD4;nc|ENSG00000141867|O60885-3|BRD4;BRD4|p.G821Efs*15|1|0.16|ENSG00000141867|chr19:15244350-15244351|-/TTCT|frameshift_variant;ENSG00000141867|ENST00000679869|BRD4 nc|ENSG00000141867|O60885-2|BRD4 nc|ENSG00000141867|O60885-2|BRD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.8067626953125 2 520.808574 1039.60259 NaN NaN NaN NaN NaN NaN NaN 81.198 1 81.367 80.867 81.867 0.16862 0 0 0 0.9754 1 39879 39879 9.3831 0.78985 1 272 89 248 248 271 271 0.08437718368645619 AATRLLRLRA 10 Unmodified _AATRLLRLRA_ 0 0 0 nc|ENSG00000163882|P52434-4|POLR2H nc|ENSG00000163882|P52434-4|POLR2H nc|ENSG00000163882|P52434-4|POLR2H MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.7670288085938 2 570.869831 1139.72511 NaN NaN NaN NaN NaN NaN NaN 78.584 1 78.584 78.084 79.084 0 0 0 0 0.98866 1 38665 38665 7.2892 2.96 1 273 9720 249 249 272 272 0.16083599890725964 AAVFMRTRKEF 11 Unmodified _AAVFMRTRKEF_ 0 0 0 ENST00000585133.1_1_17:29162236-29196669:+|nuORF;nc|ENSG00000176208|Q96QE3-2|ATAD5;ENSG00000176208|ENST00000321990|ATAD5 ENST00000585133.1_1_17:29162236-29196669:+|nuORF ENST00000585133.1_1_17:29162236-29196669:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 678.3639526367188 2 678.366264 1354.71798 NaN NaN NaN NaN NaN NaN NaN 77.282 1 77.537 77.037 78.037 0.25533 0 0 0 1.0072 1 35591 35591 1.3295 0.80477 1 274 5067 250 250 273 273 0.054804992279969156 AAVFRPSP 8 Unmodified _AAVFRPSP_ 0 0 0 REV__ZNF618|p.Q426Rfs*6|1|0.24|ENSG00000157657|chr9:114047920-114047929|ACCAGTCCCG/-|frameshift_variant REV__ZNF618|p.Q426Rfs*6|1|0.24|ENSG00000157657|chr9:114047920-114047929|ACCAGTCCCG/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.7391662597656 2 422.73742 843.460287 2.8238 0.0011937 0.7655 0.00032361 3.5893 0.0015173 422.737787018499 48.274 0.30509 48.274 48.084 48.389 0 31 16 2 0 0 0 0.29255 1 22111 22111 36.044 0 1 1250500 + 275 12807 251 251 274 274 0.03229550417131577 AAVFRPSP 8 Unmodified _AAVFRPSP_ 0 0 0 REV__ZNF618|p.Q426Rfs*6|1|0.24|ENSG00000157657|chr9:114047920-114047929|ACCAGTCCCG/-|frameshift_variant REV__ZNF618|p.Q426Rfs*6|1|0.24|ENSG00000157657|chr9:114047920-114047929|ACCAGTCCCG/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.738525390625 2 422.73742 843.460287 2.6031 0.0011004 0.8615 0.00036419 3.4646 0.0014646 422.73785063516306 47.236 0.28948 48.065 47.889 48.179 0.82915 27 16 2 0 0 0 0.29255 1 21478 21478 36.044 0 1 775210 + 276 12807 251 251 275 275 0.03229550417131577 AAVFRPSP 8 Unmodified _AAVFRPSP_ 0 0 0 REV__ZNF618|p.Q426Rfs*6|1|0.24|ENSG00000157657|chr9:114047920-114047929|ACCAGTCCCG/-|frameshift_variant REV__ZNF618|p.Q426Rfs*6|1|0.24|ENSG00000157657|chr9:114047920-114047929|ACCAGTCCCG/-|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 422.73742 843.460287 2.8238 0.0011937 0.7655 0.00032361 3.5893 0.0015173 422.737787018499 48.274 0.30509 48.274 48.084 48.389 0 0.081797 5.8662E-05 NaN 36.044 31 16 2 NaN NaN NaN NaN 0 NaN NaN 0 1250500 + 277 12807 251 251 0.03229550417131577 AAVFRPSP 8 Unmodified _AAVFRPSP_ 0 0 0 REV__ZNF618|p.Q426Rfs*6|1|0.24|ENSG00000157657|chr9:114047920-114047929|ACCAGTCCCG/-|frameshift_variant REV__ZNF618|p.Q426Rfs*6|1|0.24|ENSG00000157657|chr9:114047920-114047929|ACCAGTCCCG/-|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 422.73742 843.460287 2.6031 0.0011004 0.8615 0.00036419 3.4646 0.0014646 422.73785063516306 47.236 0.28948 48.065 47.889 48.179 0.82915 -0.12707 0.00013983 NaN 36.044 27 16 2 NaN NaN NaN NaN 0 NaN NaN 0 775210 + 278 12807 251 251 0.03229550417131577 AAVFRPSP 8 Unmodified _AAVFRPSP_ 0 0 0 REV__ZNF618|p.Q426Rfs*6|1|0.24|ENSG00000157657|chr9:114047920-114047929|ACCAGTCCCG/-|frameshift_variant REV__ZNF618|p.Q426Rfs*6|1|0.24|ENSG00000157657|chr9:114047920-114047929|ACCAGTCCCG/-|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 422.73742 843.460287 3.0312 0.0012814 0.19875 8.402E-05 3.23 0.0013654 422.73752188098933 47.584 0.29004 48.237 48.09 48.38 0.65356 0.045271 -0.00042051 NaN 36.044 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 441010 + 279 12807 251 251 0.03229550417131577 AAVGWEGPL 9 Unmodified _AAVGWEGPL_ 0 0 0 REV__ENST00000564480.1_2_16:19729090-19729441:-|nuORF REV__ENST00000564480.1_2_16:19729090-19729441:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.2370300292969 2 450.23471 898.454868 3.026 0.0013624 1.4336 0.00064544 4.4595 0.0020078 450.23524753603823 32.186 0.55341 32.804 32.573 33.126 0.61831 42 29 2 0 0 0 0.20384 1 14710 14710 23.148 3.7094 1 229910 + 280 17400 252 252 276 276 0.001578268346634104 AAVLLLRRPGM 11 Unmodified _AAVLLLRRPGM_ 0 0 0 REV__ENSG00000181104|ENST00000319211|F2R REV__ENSG00000181104|ENST00000319211|F2R MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 598.8687133789062 2 598.868443 1195.72233 NaN NaN NaN NaN NaN NaN NaN 74.809 1 75.474 74.974 75.974 0.6644 0 0 0 1.0055 1 34449 34449 3.5965 0 1 + 281 13843 253 253 277 277 0.13230008441564678 AAVTALLLP 9 Unmodified _AAVTALLLP_ 0 0 0 ENSG00000204394|ENST00000375663|VARS1 ENSG00000204394|ENST00000375663|VARS1 ENSG00000204394|ENST00000375663|VARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 868.5573120117188 1 868.550231 867.542954 4.0466 0.0035147 3.3796 0.0029354 7.4262 0.0064501 868.5530486544327 29.476 0.086292 29.734 29.672 29.758 0.25804 8 4 3 0 0 0 1.2078 1 13406 13406 0.6015 0 1 327350 282 6006 254 254 278 278 0.10388447425293634 AAVVRGSL 8 Unmodified _AAVVRGSL_ 0 0 0 nc|ENSG00000181109|Q8NH57|OR52P1 nc|ENSG00000181109|Q8NH57|OR52P1 nc|ENSG00000181109|Q8NH57|OR52P1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 386.7406921386719 2 386.73742 771.460287 NaN NaN NaN NaN NaN NaN NaN 102.87 1 103.46 102.96 103.96 0.59759 0 0 0 0.99035 1 47604 47604 2.8892 0 1 283 9769 255 255 279 279 0.06541550417136932 AAWCCCCCRC 10 Unmodified _AAWCCCCCRC_ 0 0 0 REV__ENST00000561457.2_1_9:139008415-139008820:-|nuORF REV__ENST00000561457.2_1_9:139008415-139008820:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.1660766601562 2 561.167438 1120.32032 NaN NaN NaN NaN NaN NaN NaN 97.547 1 97.547 97.047 98.047 0 0 0 0 1.0015 1 53129 53129 0.45834 0.45834 1 + 284 17373 256 256 280 280 -0.23502423833065222 AAWIPSRG 8 Unmodified _AAWIPSRG_ 0 0 0 REV__ENST00000444772.3_1_10:21805118-21806168:-|nuORF REV__ENST00000444772.3_1_10:21805118-21806168:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 429.23651123046875 2 429.235045 856.455536 2.3257 0.00099827 0.98235 0.00042166 3.308 0.0014199 429.23526397972466 65.774 0.30734 65.774 65.645 65.952 0 120 39 4 0 0 0 0.67495 1 31359 31359 7.9102 0 1 15385000 + 285 16373 257 257 281 281 0.021566662743907727 AAWIPSRG 8 Unmodified _AAWIPSRG_ 0 0 0 REV__ENST00000444772.3_1_10:21805118-21806168:-|nuORF REV__ENST00000444772.3_1_10:21805118-21806168:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 429.235045 856.455536 2.1707 0.00093174 1.7754 0.00076206 3.9461 0.0016938 429.23570718200256 64.672 0.34976 65.388 65.245 65.595 0.71522 -0.21062 0.00032073 NaN 7.9102 115 39 4 NaN NaN NaN NaN 0 NaN NaN 0 12430000 + 286 16373 257 257 0.021566662743907727 AAWIPSRG 8 Unmodified _AAWIPSRG_ 0 0 0 REV__ENST00000444772.3_1_10:21805118-21806168:-|nuORF REV__ENST00000444772.3_1_10:21805118-21806168:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 429.235045 856.455536 3.0248 0.0012984 1.4888 0.00063906 4.5137 0.0019374 429.23561636361944 65.475 0.67406 65.723 65.281 65.956 0.24847 0.12523 7.4739E-05 NaN 7.9102 114 33 4 NaN NaN NaN NaN 0 NaN NaN 0 19729000 + 287 16373 257 257 0.021566662743907727 AAWIPSRG 8 Unmodified _AAWIPSRG_ 0 0 0 REV__ENST00000444772.3_1_10:21805118-21806168:-|nuORF REV__ENST00000444772.3_1_10:21805118-21806168:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 429.235045 856.455536 3.1291 0.0013431 1.3405 0.00057539 4.4696 0.0019185 429.23555731244676 64.85 0.68747 65.507 65.072 65.759 0.65672 -0.090979 -5.2602E-05 NaN 7.9102 119 38 4 NaN NaN NaN NaN 0 NaN NaN 0 23952000 + 288 16373 257 257 0.021566662743907727 AAWIRKLNSF 10 Unmodified _AAWIRKLNSF_ 0 0 0 ENST00000399586.2_1_X:74960734-74966719:-|nuORF ENST00000399586.2_1_X:74960734-74966719:-|nuORF ENST00000399586.2_1_X:74960734-74966719:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 603.347900390625 2 603.343115 1204.67168 NaN NaN NaN NaN NaN NaN NaN 63.13 1 63.13 62.63 63.63 0 0 0 0 0.99464 1 29661 29661 6.2058 0.9089 1 289 7600 258 258 282 282 0.07752802388199598 AAWISRPG 8 Unmodified _AAWISRPG_ 0 0 0 ENST00000427624.2_1_19:58881141-58881231:-|nuORF ENST00000427624.2_1_19:58881141-58881231:-|nuORF ENST00000427624.2_1_19:58881141-58881231:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 429.23614501953125 2 429.235045 856.455536 2.3257 0.00099827 0.98235 0.00042166 3.308 0.0014199 429.23526397972466 65.774 0.30734 65.774 65.645 65.952 0 120 39 4 0 0 0 0.68959 1 31316 31316 6.7232 1.4925 1 15385000 290 7821 259 259 283 283 0.02156666274379404 AAWRDEDDYTW 11 Unmodified _AAWRDEDDYTW_ 0 0 0 SLAIN1|p.I262Lfs*5|1|0.12|ENSG00000139737|chr13:77744365-77744366|TA/-|frameshift_variant;nc|ENSG00000139737|Q8ND83|SLAIN1;ENSG00000139737|ENST00000418532|SLAIN1 SLAIN1|p.I262Lfs*5|1|0.12|ENSG00000139737|chr13:77744365-77744366|TA/-|frameshift_variant SLAIN1|p.I262Lfs*5|1|0.12|ENSG00000139737|chr13:77744365-77744366|TA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 714.2955932617188 2 714.296756 1426.57896 NaN NaN NaN NaN NaN NaN NaN 68.54 1 69.243 68.743 69.743 0.70218 0 0 0 1.0071 1 32682 32682 1.4819 0 1 291 3165 260 260 284 284 -0.11726791926480473 AAYYEMTYVHW 11 Unmodified _AAYYEMTYVHW_ 0 0 0 REV__L1PA5_dup4732|chr6:122761880-122764546:+|3.017081909363208|0.0474676809604407|5.99|503.0|27|1|sense REV__L1PA5_dup4732|chr6:122761880-122764546:+|3.017081909363208|0.0474676809604407|5.99|503.0|27|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.6529235839844 3 478.544667 1432.61217 NaN NaN NaN NaN NaN NaN NaN 62.218 1 62.949 62.449 63.449 0.73077 0 0 0 1.0071 1 28974 28974 0.50596 0.051438 1 + 292 17791 261 261 285 285 -0.0868288140814002 AAYYEMTYVHW 11 Unmodified _AAYYEMTYVHW_ 0 0 0 REV__L1PA5_dup4732|chr6:122761880-122764546:+|3.017081909363208|0.0474676809604407|5.99|503.0|27|1|sense REV__L1PA5_dup4732|chr6:122761880-122764546:+|3.017081909363208|0.0474676809604407|5.99|503.0|27|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.57354736328125 3 478.544667 1432.61217 NaN NaN NaN NaN NaN NaN NaN 67.211 1 67.913 67.413 68.413 0.70218 0 0 0 1.0071 1 31911 31911 0.50596 0 1 + 293 17791 261 261 286 286 -0.0868288140814002 AAYYSFGTEC 10 Unmodified _AAYYSFGTEC_ 0 0 0 REV__ENSG00000236287|ENST00000413761|ZBED5 REV__ENSG00000236287|ENST00000413761|ZBED5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 556.6514892578125 2 556.223682 1110.43281 NaN NaN NaN NaN NaN NaN NaN 76.643 1 77.267 76.767 77.767 0.62397 0 0 0 1.0001 1 37156 37156 1.6526 0.17072 1 + 294 14592 262 262 287 287 -0.11798765696062219 AAYYSFGTEC 10 Unmodified _AAYYSFGTEC_ 0 0 0 REV__ENSG00000236287|ENST00000413761|ZBED5 REV__ENSG00000236287|ENST00000413761|ZBED5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 556.0955810546875 2 556.223682 1110.43281 NaN NaN NaN NaN NaN NaN NaN 77.73 1 78.291 77.791 78.791 0.56091 0 0 0 0.99733 1 37727 37727 3.9444 0.66309 1 + 295 14592 262 262 288 288 -0.11798765696062219 ACGCDCDC 8 Unmodified _ACGCDCDC_ 0 0 0 ENST00000451025.6_2_6:43608345-43608465:+|nuORF ENST00000451025.6_2_6:43608345-43608465:+|nuORF ENST00000451025.6_2_6:43608345-43608465:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.7027893066406 2 395.08716 788.159766 NaN NaN NaN NaN NaN NaN NaN 68.199 1 68.452 67.952 68.952 0.25227 0 0 0 0.99035 1 31242 31242 0 0 1 296 8014 263 263 289 289 -0.24278731953972965 ACKLLLRL 8 Unmodified _ACKLLLRL_ 0 0 0 ENST00000472637.5_1_3:112724385-112732818:-|nuORF;ENSG00000163608|ENST00000314400|NEPRO;ENST00000462295.5_1_3:112729957-112738391:-|nuORF;ENST00000470663.1_1_3:112731453-112738391:-|nuORF;ENST00000494891.5_1_3:112731453-112738391:-|nuORF;ENST00000486271.5_1_3:112732111-112738494:-|nuORF ENST00000472637.5_1_3:112724385-112732818:-|nuORF ENST00000472637.5_1_3:112724385-112732818:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 310.6205749511719 3 310.537007 928.589193 2.2221 0.00069004 -1.1549 -0.00035865 1.0672 0.00033139 310.5366013813524 62.069 0.38637 62.321 62.12 62.506 0.25245 26 19 2 0 0 0 0.7471 1 28489 28489 0.40072 0 1 1023300 297 4229 264 264 290 290 0.12204189055705683 ACLGLHFI 8 Unmodified _ACLGLHFI_ 0 0 0 ENST00000495994.5_1_1:64971609-64971735:+|nuORF ENST00000495994.5_1_1:64971609-64971735:+|nuORF ENST00000495994.5_1_1:64971609-64971735:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.2779235839844 2 437.236199 872.457844 NaN NaN NaN NaN NaN NaN NaN 58.367 1 59.126 58.626 59.626 0.75894 0 0 0 0.99035 1 26768 26768 6.3541 0 1 298 8439 265 265 291 291 0.016513786878249448 ACLLLRRHR 9 Unmodified _ACLLLRRHR_ 0 0 0 ENST00000466933.1_1_20:60758097-60768815:+|nuORF ENST00000466933.1_1_20:60758097-60768815:+|nuORF ENST00000466933.1_1_20:60758097-60768815:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.2326965332031 3 379.89771 1136.6713 2.7827 0.0010571 0.32573 0.00012374 3.1084 0.0011809 379.89790855703416 80.153 0.3894 80.813 80.612 81.001 0.65998 45 26 2 0 0 0 1.178 1 36932 36932 1.0715 0 1 568620 299 8141 266 266 292 292 0.10843104187370045 ACMCCCPS 8 Unmodified _ACMCCCPS_ 0 0 0 REV__ENST00000487159.5_2_3:42266898-42266988:+|nuORF REV__ENST00000487159.5_2_3:42266898-42266988:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 409.1124267578125 2 409.112123 816.209693 NaN NaN NaN NaN NaN NaN NaN 15.289 1 15.289 14.789 15.789 0 0 0 0 0.99035 1 6754 6754 0.69038 0.69038 1 + 300 16763 267 267 293 293 -0.2057632054966234 ACQLRLRRPEL 11 Unmodified _ACQLRLRRPEL_ 0 0 0 REV__ENST00000588097.5_1_17:42381086-42381365:-|nuORF REV__ENST00000588097.5_1_17:42381086-42381365:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.4500427246094 4 339.448857 1353.76632 2.4485 0.00083113 0.867 0.0002943 3.3155 0.0011254 339.4490652907489 61.851 0.78822 62.103 61.718 62.506 0.25245 139 39 4 0 0 0 0.91068 1 28465 28465 1.3296 0.11481 1 11195000 + 301 17557 268 268 294 294 0.10358992867895722 ADAWDWEWW 9 Unmodified _ADAWDWEWW_ 0 0 0 REV__ENST00000457894.4_1_X:38664754-38665171:+|nuORF REV__ENST00000457894.4_1_X:38664754-38665171:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 632.7548828125 2 632.756538 1263.49852 NaN NaN NaN NaN NaN NaN NaN 85.609 1 86.279 85.779 86.779 0.67061 0 0 0 0.91238 1 39423 39423 0.52476 0 1 + 302 16464 269 269 295 295 -0.12268608458862218 ADCMDGSDEE 10 Unmodified _ADCMDGSDEE_ 0 0 0 ENSG00000123384|ENST00000243077|LRP1;ENST00000451724.6_1_12:57597195-57598570:+|nuORF ENSG00000123384|ENST00000243077|LRP1 ENSG00000123384|ENST00000243077|LRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.0230102539062 2 536.165704 1070.31685 NaN NaN NaN NaN NaN NaN NaN 71.766 1 72.024 71.524 72.524 0.25786 0 0 0 1.0015 1 32914 32914 0.40072 0.40072 1 303 2310 270 270 296 296 -0.21549077329086685 ADCMDGSDEE 10 Unmodified _ADCMDGSDEE_ 0 0 0 ENSG00000123384|ENST00000243077|LRP1;ENST00000451724.6_1_12:57597195-57598570:+|nuORF ENSG00000123384|ENST00000243077|LRP1 ENSG00000123384|ENST00000243077|LRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.1677856445312 2 536.165704 1070.31685 NaN NaN NaN NaN NaN NaN NaN 62.244 1 62.904 62.404 63.404 0.66008 0 0 0 1.0001 1 28522 28522 1.6526 1.0511 1 304 2310 270 270 297 297 -0.21549077329086685 ADCMDGSDEE 10 Unmodified _ADCMDGSDEE_ 0 0 0 ENSG00000123384|ENST00000243077|LRP1;ENST00000451724.6_1_12:57597195-57598570:+|nuORF ENSG00000123384|ENST00000243077|LRP1 ENSG00000123384|ENST00000243077|LRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.1677856445312 2 536.165704 1070.31685 NaN NaN NaN NaN NaN NaN NaN 94.207 1 94.839 94.339 95.339 0.63115 0 0 0 1.0015 1 43329 43329 0.40072 0.40072 1 305 2310 270 270 298 298 -0.21549077329086685 ADFIRIEL 8 Unmodified _ADFIRIEL_ 0 0 0 nc|ENSG00000152910|Q9C0A0-2|CNTNAP4;ENSG00000152910|ENST00000611870|CNTNAP4 nc|ENSG00000152910|Q9C0A0-2|CNTNAP4 nc|ENSG00000152910|Q9C0A0-2|CNTNAP4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.26373291015625 2 488.776742 975.538931 3.2402 0.0015837 2.9027 0.0014188 6.1429 0.0030025 488.77726491097707 50.529 0.18629 50.529 50.439 50.626 0 11 8 2 0 0 0 0.1128 1 23150 23150 19.257 3.4098 1 266560 306 3764 271 271 299 299 0.05018357931567152 ADIETIGEI 9 Unmodified _ADIETIGEI_ 0 0 0 nc|ENSG00000165119|P61978-3|HNRNPK;nc|ENSG00000165119|P61978|HNRNPK;ENSG00000165119|ENST00000376263|HNRNPK nc|ENSG00000165119|P61978-3|HNRNPK nc|ENSG00000165119|P61978-3|HNRNPK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.7497253417969 2 480.747847 959.481142 2.8634 0.0013766 -0.0054277 -2.6094E-06 2.858 0.001374 480.74775121411864 76.416 0.49315 76.671 76.484 76.977 0.25533 65 35 3 0 0 0 0.062556 1 35189 35189 42.095 6.0504 1 1275400 307 4374 272 272 300 300 -0.0002194878450154647 ADIETIGEI 9 Unmodified _ADIETIGEI_ 0 0 0 nc|ENSG00000165119|P61978-3|HNRNPK;nc|ENSG00000165119|P61978|HNRNPK;ENSG00000165119|ENST00000376263|HNRNPK nc|ENSG00000165119|P61978-3|HNRNPK nc|ENSG00000165119|P61978-3|HNRNPK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.750732421875 2 480.747847 959.481142 2.7689 0.0013311 0.27402 0.00013173 3.0429 0.0014629 480.74792272717093 75.994 0.45814 76.658 76.451 76.909 0.66387 74 36 3 0 0 0 0.09451 1 35030 35030 34.102 0 1 1153800 308 4374 272 272 301 301 -0.0002194878450154647 ADIETIGEI 9 Unmodified _ADIETIGEI_ 0 0 0 nc|ENSG00000165119|P61978-3|HNRNPK;nc|ENSG00000165119|P61978|HNRNPK;ENSG00000165119|ENST00000376263|HNRNPK nc|ENSG00000165119|P61978-3|HNRNPK nc|ENSG00000165119|P61978-3|HNRNPK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 480.747847 959.481142 2.5388 0.0012205 0.20717 9.9598E-05 2.746 0.0013201 480.74803310667266 77.02 0.22694 77.02 76.886 77.113 0 0.23698 2.9289E-05 NaN 42.095 21 14 2 NaN NaN NaN NaN 0 NaN NaN 0 863730 309 4374 272 272 -0.0002194878450154647 ADKLRYPP 8 Unmodified _ADKLRYPP_ 0 0 0 nc|ENSG00000146966|Q9ULE3-2|DENND2A nc|ENSG00000146966|Q9ULE3-2|DENND2A nc|ENSG00000146966|Q9ULE3-2|DENND2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.27215576171875 2 480.269084 958.523616 NaN NaN NaN NaN NaN NaN NaN 66.686 1 66.686 66.186 67.186 0 0 0 0 0.79394 1 31897 31897 19.257 4.6753 1 310 9682 273 273 302 302 0.042694911343687636 ADKLRYPP 8 Unmodified _ADKLRYPP_ 0 0 0 nc|ENSG00000146966|Q9ULE3-2|DENND2A nc|ENSG00000146966|Q9ULE3-2|DENND2A nc|ENSG00000146966|Q9ULE3-2|DENND2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.2701110839844 2 480.269084 958.523616 3.2351 0.0015537 -0.27671 -0.00013289 2.9584 0.0014208 480.2688771559978 66.431 0.3266 66.68 66.542 66.868 0.24847 43 17 3 0 0 0 0.026256 3 30451 30411;30451;30511 81.613 24.142 1 3454300 311 9682 273 273 303;304;305 304 0.042694911343687636 ADKLRYPP 8 Unmodified _ADKLRYPP_ 0 0 0 nc|ENSG00000146966|Q9ULE3-2|DENND2A nc|ENSG00000146966|Q9ULE3-2|DENND2A nc|ENSG00000146966|Q9ULE3-2|DENND2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.2701416015625 2 480.269084 958.523616 3.2313 0.0015519 -0.27758 -0.00013331 2.9537 0.0014186 480.2689732884422 65.815 0.3353 66.472 66.309 66.644 0.65672 47 20 3 0 0 0 0.037007 2 30158 30158;30201 71.134 22.788 1 3198000 312 9682 273 273 306;307 306 0.042694911343687636 ADKLRYPP 8 Unmodified _ADKLRYPP_ 0 0 0 nc|ENSG00000146966|Q9ULE3-2|DENND2A nc|ENSG00000146966|Q9ULE3-2|DENND2A nc|ENSG00000146966|Q9ULE3-2|DENND2A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 480.269084 958.523616 2.4293 0.0011667 0.72629 0.00034881 3.1556 0.0015155 480.2695714892859 65.647 0.20537 66.356 66.203 66.409 0.7089 -0.14655 0.00086237 NaN 81.613 31 19 2 NaN NaN NaN NaN 0 NaN NaN 0 1445100 313 9682 273 273 0.042694911343687636 ADNILRNPND 10 Unmodified _ADNILRNPND_ 0 0 0 nc|ENSG00000151092|Q96IV0-3|NGLY1;nc|ENSG00000151092|Q96IV0-2|NGLY1;ENSG00000151092|ENST00000280700|NGLY1;ENST00000493324.5_1_3:25778798-25824881:-|nuORF;ENST00000478991.1_1_3:25819998-25824881:-|nuORF;ENST00000474611.1_1_3:25819310-25824959:-|nuORF nc|ENSG00000151092|Q96IV0-3|NGLY1 nc|ENSG00000151092|Q96IV0-3|NGLY1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.2843627929688 2 571.283451 1140.55235 NaN NaN NaN NaN NaN NaN NaN 39.873 1 40.673 40.173 41.173 0.80014 0 0 0 0.99837 1 18052 18052 2.9952 0 1 314 3690 274 274 308 308 -0.012304360271400583 ADPDYDDRR 9 Unmodified _ADPDYDDRR_ 0 0 0 REV__nc|ENSG00000212643|Q15695|ZRSR2P1;REV__ENSG00000169249|ENST00000307771|ZRSR2 REV__ENSG00000169249|ENST00000307771|ZRSR2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.7844848632812 2 561.744159 1121.47377 3.6191 0.002033 -4.0558 -0.0022783 -0.4367 -0.00024532 561.741953054552 52.668 0.089256 52.931 52.885 52.974 0.26345 4 2 2 0 0 0 0.10218 1 24081 24081 6.7232 0.51738 1 158830 + 315 18130;13385 275 275 309 309 -0.08211288332245203 ADRYVRAEAV 10 Unmodified _ADRYVRAEAV_ 0 0 0 REV__nc|ENSG00000110693|P35712-4|SOX6 REV__nc|ENSG00000110693|P35712-4|SOX6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.30615234375 2 575.304187 1148.59382 3.7175 0.0021387 -0.49518 -0.00028488 3.2223 0.0018538 575.303772686191 21.013 0.19465 21.013 20.904 21.098 0 18 11 2 0 0 0 0.68517 1 9411 9411 13.906 0 1 187510 + 316 11208 276 276 310 310 0.025467447321716463 ADVPVETGF 9 Unmodified _ADVPVETGF_ 0 0 0 ENST00000400479.6_1_7:6048951-6054828:+|nuORF ENST00000400479.6_1_7:6048951-6054828:+|nuORF ENST00000400479.6_1_7:6048951-6054828:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.71466064453125 2 467.729458 933.444362 NaN NaN NaN NaN NaN NaN NaN 20.771 1 21.424 20.924 21.924 0.65346 0 0 0 0.56337 1 9428 9428 16.942 1.0951 1 317 7608 277 277 311 311 -0.025022006104222783 ADYYELDWYYE 11 Unmodified _ADYYELDWYYE_ 0 0 0 nc|ENSG00000182606|Q9UPV9-3|TRAK1 nc|ENSG00000182606|Q9UPV9-3|TRAK1 nc|ENSG00000182606|Q9UPV9-3|TRAK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.54388427734375 3 510.541757 1528.60344 NaN NaN NaN NaN NaN NaN NaN 12.47 1 12.47 11.97 12.97 0 0 0 0 1.008 1 5421 5421 0.08335 0 1 318 9773 278 278 312 312 -0.13971576563608323 AECCCTQG 8 Unmodified _AECCCTQG_ 0 0 0 ENSG00000119681|ENST00000261978|LTBP2 ENSG00000119681|ENST00000261978|LTBP2 ENSG00000119681|ENST00000261978|LTBP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 814.2550048828125 1 814.252821 813.245545 3.7423 0.0030472 -0.80109 -0.00065229 2.9412 0.0023949 814.25158256091 30.122 0.34625 30.911 30.776 31.122 0.78921 41 31 2 0 0 0 0.7441 1 13629 13629 2.3027 1.5091 1 297660 319 2155 279 279 313 313 -0.16854823776782268 AEEAALETL 9 Unmodified _AEEAALETL_ 0 0 0 ENSG00000134815|ENST00000328771|DHX34 ENSG00000134815|ENST00000328771|DHX34 ENSG00000134815|ENST00000328771|DHX34 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.7418212890625 2 473.740022 945.465492 3.1842 0.0015085 -0.12283 -5.8187E-05 3.0614 0.0014503 473.7400716657578 41.32 0.44527 41.964 41.772 42.218 0.64452 34 23 2 0 0 0 0.023109 1 18973 18973 64.236 6.765 1 1375700 320 2831 280 280 314 314 -0.009422353015565932 AEEAALETL 9 Unmodified _AEEAALETL_ 0 0 0 ENSG00000134815|ENST00000328771|DHX34 ENSG00000134815|ENST00000328771|DHX34 ENSG00000134815|ENST00000328771|DHX34 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.7417297363281 2 473.740022 945.465492 NaN NaN NaN NaN NaN NaN NaN 41.605 1 42.249 41.749 42.749 0.64451 0 0 0 0.045953 1 19032 19032 54.774 20.671 1 321 2831 280 280 315 315 -0.009422353015565932 AEECDSCRYNK 11 Unmodified _AEECDSCRYNK_ 0 0 0 REV__ENSG00000196458|ENST00000360187|ZNF605 REV__ENSG00000196458|ENST00000360187|ZNF605 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 439.8439636230469 3 439.844788 1316.51254 NaN NaN NaN NaN NaN NaN NaN 15.493 1 15.493 14.993 15.993 0 0 0 0 1.0072 1 6848 6848 0.45452 0 1 + 322 14218 281 281 316 316 -0.1330606708436335 AEEEKGEDWVP 11 Unmodified _AEEEKGEDWVP_ 0 0 0 REV__ENST00000334801.7_1_11:118768023-118768290:-|nuORF REV__ENST00000334801.7_1_11:118768023-118768290:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 644.7887573242188 2 644.788232 1287.56191 NaN NaN NaN NaN NaN NaN NaN 17.243 1 17.444 16.944 17.944 0.20057 0 0 0 1.0059 1 7626 7626 2.9952 0 1 + 323 15409 282 282 317 317 -0.07036712532294587 AEELVLER 8 Acetyl (Protein N-term) _(Acetyl (Protein N-term))AEELVLER_ 1 0 0 nc|ENSG00000198959|P21980-2|TGM2;ENST00000468262.5_1_20:36766485-36793648:-|nuORF;ENSG00000198959|ENST00000361475|TGM2;nc|ENSG00000198959|P21980-3|TGM2;ENST00000474777.1_1_20:36774930-36793648:-|nuORF nc|ENSG00000198959|P21980-2|TGM2 nc|ENSG00000198959|P21980-2|TGM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.770751953125 2 500.769114 999.523675 NaN NaN NaN NaN NaN NaN NaN 62.264 1 62.924 62.424 63.424 0.66008 0 0 0 0.2346 1 28531 28531 40.239 30.056 1 324 5968 283 283 318 318 0.023894463437045488 AEERLVEISM 10 Unmodified _AEERLVEISM_ 0 0 0 REV__ENSG00000184575|ENST00000332707|XPOT REV__ENSG00000184575|ENST00000332707|XPOT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.56982421875 3 392.869151 1175.58562 3.1147 0.0012237 -1.6003 -0.00062869 1.5144 0.00059498 392.8688535862449 12.764 0.13537 13.406 13.345 13.48 0.64272 5 3 2 0 0 0 0.90216 1 5717 5717 3.5871 0.95582 1 201520 + 325 13981 284 284 319 319 0.004854297005294939 AEERLVEISM 10 Unmodified _AEERLVEISM_ 0 0 0 REV__ENSG00000184575|ENST00000332707|XPOT REV__ENSG00000184575|ENST00000332707|XPOT MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 392.869151 1175.58562 2.3253 0.00091354 -2.6728 -0.0010501 -0.34751 -0.00013653 392.86819117316276 12.944 0.17185 13.251 13.187 13.359 0.30727 -0.077663 -0.00025638 NaN 3.5871 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 182300 + 326 13981 284 284 0.004854297005294939 AEERLVEISM 10 Unmodified _AEERLVEISM_ 0 0 0 REV__ENSG00000184575|ENST00000332707|XPOT REV__ENSG00000184575|ENST00000332707|XPOT MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 392.869151 1175.58562 3.1147 0.0012237 -1.6003 -0.00062869 1.5144 0.00059498 392.8688535862449 12.764 0.13537 13.406 13.345 13.48 0.64272 0.077663 0.0010077 NaN 3.5871 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 201520 + 327 13981 284 284 0.004854297005294939 AEHRRWEHWWR 11 Unmodified _AEHRRWEHWWR_ 0 0 0 ENST00000398117.1_1_18:60791148-60791340:-|nuORF ENST00000398117.1_1_18:60791148-60791340:-|nuORF ENST00000398117.1_1_18:60791148-60791340:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 824.9028930664062 2 824.903257 1647.79196 NaN NaN NaN NaN NaN NaN NaN 87.65 1 87.65 87.15 88.15 0 0 0 0 1.0082 1 45259 45259 0 0 1 328 7588 285 285 320 320 -0.006023965654776475 AEKWRQRIRKW 11 Unmodified _AEKWRQRIRKW_ 0 0 0 REV__ENST00000595455.1_1_19:36244761-36245372:+|nuORF REV__ENST00000595455.1_1_19:36244761-36245372:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 779.0027465820312 2 778.949676 1555.8848 NaN NaN NaN NaN NaN NaN NaN 91.896 1 91.979 91.479 92.479 0.082848 0 0 0 1.0079 1 47749 47749 1.3295 0.9789 1 + 329 14711 286 286 321 321 0.1290910816790074 AELRRKWRRWH 11 Unmodified _AELRRKWRRWH_ 0 0 0 nc|ENSG00000114812|P32241-2|VIPR1;ENST00000498102.1_1_3:42576287-42577770:+|nuORF;nc|ENSG00000114812|P32241-3|VIPR1;nc|ENSG00000114812|P32241-4|VIPR1;nc|ENSG00000114812|P32241-5|VIPR1;ENSG00000114812|ENST00000325123|VIPR1 nc|ENSG00000114812|P32241-2|VIPR1 nc|ENSG00000114812|P32241-2|VIPR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 797.4505615234375 2 797.452917 1592.89128 NaN NaN NaN NaN NaN NaN NaN 82.782 1 82.827 82.327 83.327 0.045006 0 0 0 1.008 1 40932 40932 0.35063 0.043601 1 330 9603 287 287 322 322 0.11855046119285362 AEPAEEAVI 9 Unmodified _AEPAEEAVI_ 0 0 0 nc|ENSG00000155755|Q96Q45-2|TMEM237;ENSG00000155755|ENST00000409883|TMEM237;nc|ENSG00000155755|Q96Q45-3|TMEM237;nc|ENSG00000155755|Q96Q45-5|TMEM237 nc|ENSG00000155755|Q96Q45-2|TMEM237 nc|ENSG00000155755|Q96Q45-2|TMEM237 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.2377624511719 2 464.73474 927.454927 2.7373 0.0012721 0.17607 8.1824E-05 2.9134 0.001354 464.7347599351739 52.533 0.37677 52.796 52.635 53.011 0.26345 32 14 3 0 0 0 0.20384 1 23986 23986 23.148 1.4018 1 1107000 331 3875 288 288 323 323 -0.011702179559961223 AEQNRKDAEAW 11 Unmodified _AEQNRKDAEAW_ 0 0 0 ENSG00000186395|ENST00000269576|KRT10;CON__P13645;ENST00000471565.2_1_17:39680334-39680852:-|nuORF;ENST00000468880.1_1_17:39680334-39681232:-|nuORF;ENSG00000171345|ENST00000361566|KRT19;CON__P08727;ENSG00000173908|ENST00000306658|KRT28;CON__Q7Z3Y7;ENSG00000187242|ENST00000251643|KRT12;CON__Q99456;ENSG00000186393|ENST00000335552|KRT26;CON__Q7Z3Y9 ENSG00000186395|ENST00000269576|KRT10;ENSG00000186393|ENST00000335552|KRT26 ENSG00000186395|ENST00000269576|KRT10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 439.87939453125 3 439.877586 1316.61093 2.9076 0.001279 0.50244 0.00022101 3.41 0.0015 439.8779032170647 15.312 0.46439 15.312 15.15 15.615 0 94 54 2 0 0 0 0.81399 2 6762 6762;6817 6.2344 4.9047 1 155640 + 332 217;240 289 289 324;325 324 -0.03471379452662404 AEQNRKDAEAW 11 Unmodified _AEQNRKDAEAW_ 0 0 0 ENSG00000186395|ENST00000269576|KRT10;CON__P13645;ENST00000471565.2_1_17:39680334-39680852:-|nuORF;ENST00000468880.1_1_17:39680334-39681232:-|nuORF;ENSG00000171345|ENST00000361566|KRT19;CON__P08727;ENSG00000173908|ENST00000306658|KRT28;CON__Q7Z3Y7;ENSG00000187242|ENST00000251643|KRT12;CON__Q99456;ENSG00000186393|ENST00000335552|KRT26;CON__Q7Z3Y9 ENSG00000186395|ENST00000269576|KRT10;ENSG00000186393|ENST00000335552|KRT26 ENSG00000186395|ENST00000269576|KRT10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 439.8785095214844 3 439.877586 1316.61093 2.7865 0.0012257 0.33791 0.00014864 3.1244 0.0013744 439.8776519678424 14.708 0.23579 14.934 14.795 15.03 0.22622 32 14 3 0 0 0 0.23529 1 6466 6466 27.088 20.897 1 240760 + 333 217;240 289 289 326 326 -0.03471379452662404 AERCISIAL 9 Unmodified _AERCISIAL_ 0 0 0 ENSG00000148719|ENST00000444643|DNAJB12;nc|ENSG00000148719|Q9NXW2-2|DNAJB12 ENSG00000148719|ENST00000444643|DNAJB12 ENSG00000148719|ENST00000444643|DNAJB12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 488.2715759277344 2 488.268227 974.521901 NaN NaN NaN NaN NaN NaN NaN 23.285 1 23.285 22.785 23.785 0 0 0 0 0.22092 1 10476 10476 30.225 7.0764 1 334 3614 290 290 327 327 0.03362114054095855 AERRRRRRWHW 11 Unmodified _AERRRRRRWHW_ 0 0 0 ENST00000321582.9_1_9:124855435-124855555:-|nuORF ENST00000321582.9_1_9:124855435-124855555:-|nuORF ENST00000321582.9_1_9:124855435-124855555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.0209350585938 3 555.645435 1663.91448 NaN NaN NaN NaN NaN NaN NaN 63.616 1 63.616 63.116 64.116 0 0 0 0 1.0082 1 29954 29954 0 0 1 335 6931 291 291 328 328 0.10907484956624103 AEVFIVEI 8 Unmodified _AEVFIVEI_ 0 0 0 nc|ENSG00000196159|Q6V0I7-2|FAT4 nc|ENSG00000196159|Q6V0I7-2|FAT4 nc|ENSG00000196159|Q6V0I7-2|FAT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 307.17608642578125 3 307.176021 918.506234 NaN NaN NaN NaN NaN NaN NaN 29.286 1 29.546 29.046 30.046 0.2602 0 0 0 0.99035 1 13327 13327 1.8442 0.19162 1 336 9794 292 292 329 329 0.04372150808717379 AEYAVGLMDV 10 Unmodified _AEYAVGLMDV_ 0 0 0 REV__ENST00000474100.1_1_1:151372658-151373852:+|nuORF REV__ENST00000474100.1_1_1:151372658-151373852:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.7595825195312 2 534.257525 1066.5005 3.3228 0.0017752 2.0136 0.0010758 5.3364 0.002851 534.2591559806111 14.247 0.029176 14.896 14.882 14.911 0.64819 5 3 2 0 0 0 0.12452 1 6412 6412 10.824 0.75 1 966300 + 337 12849 293 293 330 330 -0.0300931576525727 AEYFRPIQNCL 11 Unmodified _AEYFRPIQNCL_ 0 0 0 REV__MLT1B_dup5245|chr5:1440525-1440922:+|1.024937348100123|0.0159006092153761|6.01|482.0|30|3|anti-sense REV__MLT1B_dup5245|chr5:1440525-1440922:+|1.024937348100123|0.0159006092153761|6.01|482.0|30|3|anti-sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.8936767578125 3 451.892179 1352.65471 3.0007 0.001356 0.6127 0.00027687 3.6134 0.0016328 451.89233868743025 66.72 0.13265 66.97 66.928 67.061 0.25011 11 6 2 0 0 0 0.89065 1 30570 30570 2.8433 0.4085 1 295860 + 338 17838 294 294 331 331 -0.007514862798643662 AFAGVTTLL 9 Unmodified _AFAGVTTLL_ 0 0 0 REV__ENSG00000166862|ENST00000300105|CACNG2 REV__ENSG00000166862|ENST00000300105|CACNG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 446.76141357421875 2 446.760561 891.506569 NaN NaN NaN NaN NaN NaN NaN 57.081 1 57.345 56.845 57.845 0.26444 0 0 0 0.52667 1 26122 26122 18.135 0 1 + 339 12323 295 295 332 332 0.05647570528560664 AFDEAIAEL 9 Unmodified _AFDEAIAEL_ 0 0 0 ENSG00000134308|ENST00000238081|YWHAQ;ENST00000399764.3_1_9:34922183-34922564:-|nuORF;ENST00000445359.1_1_9:38643302-38643692:+|nuORF;ENST00000479421.5_2_20:43531717-43535076:+|nuORF;nc|ENSG00000164924|P63104-2|YWHAZ;ENST00000480304.5_1_8:101936173-101961117:-|nuORF;ENSG00000164924|ENST00000395958|YWHAZ;nc|ENSG00000166913|P31946-2|YWHAB;ENSG00000166913|ENST00000353703|YWHAB ENSG00000134308|ENST00000238081|YWHAQ;nc|ENSG00000166913|P31946-2|YWHAB ENSG00000134308|ENST00000238081|YWHAQ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.74627685546875 2 489.742565 977.470577 2.8778 0.0014094 0.46353 0.00022701 3.3413 0.0016364 489.7431895533613 72.69 0.26785 72.948 72.837 73.104 0.25876 35 22 2 0 0 0 0.0080831 1 33379 33379 85.357 51.254 1 518570 340 2798;4515 296 296 333 333 -0.01905931438943753 AFDLTEQRY 9 Unmodified _AFDLTEQRY_ 0 0 0 ENST00000530992.1_1_17:32364642-32365872:-|nuORF;nc|ENSG00000146872|Q86UE8-3|TLK2;ENSG00000146872|ENST00000346027|TLK2;nc|ENSG00000146872|Q86UE8|TLK2 ENST00000530992.1_1_17:32364642-32365872:-|nuORF ENST00000530992.1_1_17:32364642-32365872:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.7786865234375 2 571.77747 1141.54039 3.6352 0.0020785 -0.42032 -0.00024033 3.2149 0.0018382 571.7767468902919 47.015 0.2464 47.278 47.151 47.398 0.26363 14 7 3 0 0 0 0.078225 1 21497 21497 38.176 14.386 1 543490 341 3536 297 297 334 334 -0.02472052770326627 AFDLTEQRY 9 Unmodified _AFDLTEQRY_ 0 0 0 ENST00000530992.1_1_17:32364642-32365872:-|nuORF;nc|ENSG00000146872|Q86UE8-3|TLK2;ENSG00000146872|ENST00000346027|TLK2;nc|ENSG00000146872|Q86UE8|TLK2 ENST00000530992.1_1_17:32364642-32365872:-|nuORF ENST00000530992.1_1_17:32364642-32365872:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.7791748046875 2 571.77747 1141.54039 3.8084 0.0021776 0.76732 0.00043873 4.5758 0.0026163 571.7778509140204 46.517 0.15373 47.17 47.072 47.226 0.65219 11 5 3 0 0 0 0.030603 1 21306 21306 55.503 24.866 1 652020 342 3536 297 297 335 335 -0.02472052770326627 AFDPTSTLL 9 Unmodified _AFDPTSTLL_ 0 0 0 ENSG00000183751|ENST00000568546|TBL3 ENSG00000183751|ENST00000568546|TBL3 ENSG00000183751|ENST00000568546|TBL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.7534484863281 2 482.752933 963.491313 NaN NaN NaN NaN NaN NaN NaN 74.476 1 74.735 74.235 75.235 0.25831 0 0 0 0.69911 1 34256 34256 12.532 3.9383 1 343 5403 298 298 336 336 0.008106589407248066 AFDVAEREF 9 Unmodified _AFDVAEREF_ 0 0 0 nc|ENSG00000133816|O94851|MICAL2;nc|ENSG00000133816|O94851-3|MICAL2;ENSG00000133816|ENST00000683283|MICAL2;nc|ENSG00000133816|O94851-2|MICAL2;ENST00000530691.5_1_11:12229562-12281716:+|nuORF;nc|ENSG00000133816|O94851-5|MICAL2;nc|ENSG00000133816|O94851-6|MICAL2;nc|ENSG00000133816|O94851-4|MICAL2 nc|ENSG00000133816|O94851|MICAL2 nc|ENSG00000133816|O94851|MICAL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.26123046875 2 542.258914 1082.50327 3.5735 0.0019378 0.51272 0.00027803 4.0863 0.0022158 542.2590816260665 50.716 0.18189 50.716 50.672 50.854 0 14 10 2 0 0 0 0.063112 1 23256 23256 41.956 27.117 1 760430 344 9650 299 299 337 337 -0.034677243161013394 AFDVAEREF 9 Unmodified _AFDVAEREF_ 0 0 0 nc|ENSG00000133816|O94851|MICAL2;nc|ENSG00000133816|O94851-3|MICAL2;ENSG00000133816|ENST00000683283|MICAL2;nc|ENSG00000133816|O94851-2|MICAL2;ENST00000530691.5_1_11:12229562-12281716:+|nuORF;nc|ENSG00000133816|O94851-5|MICAL2;nc|ENSG00000133816|O94851-6|MICAL2;nc|ENSG00000133816|O94851-4|MICAL2 nc|ENSG00000133816|O94851|MICAL2 nc|ENSG00000133816|O94851|MICAL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.261474609375 2 542.258914 1082.50327 3.2074 0.0017393 -0.056437 -3.0603E-05 3.151 0.0017087 542.258785362163 49.772 0.26448 50.595 50.515 50.78 0.82285 19 12 2 0 0 0 0.1229 1 22720 22720 28.495 13.913 1 375170 345 9650 299 299 338 338 -0.034677243161013394 AFDVAEREF 9 Unmodified _AFDVAEREF_ 0 0 0 nc|ENSG00000133816|O94851|MICAL2;nc|ENSG00000133816|O94851-3|MICAL2;ENSG00000133816|ENST00000683283|MICAL2;nc|ENSG00000133816|O94851-2|MICAL2;ENST00000530691.5_1_11:12229562-12281716:+|nuORF;nc|ENSG00000133816|O94851-5|MICAL2;nc|ENSG00000133816|O94851-6|MICAL2;nc|ENSG00000133816|O94851-4|MICAL2 nc|ENSG00000133816|O94851|MICAL2 nc|ENSG00000133816|O94851|MICAL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.2615356445312 2 542.258914 1082.50327 3.231 0.001752 -0.087849 -4.7637E-05 3.1431 0.0017044 542.2587203488049 50.756 0.33496 51.017 50.815 51.15 0.26146 26 15 2 0 0 0 0.053359 2 23163 23163;23230 45.74 27.594 1 635900 346 9650 299 299 339;340 339 -0.034677243161013394 AFDVAEREF 9 Unmodified _AFDVAEREF_ 0 0 0 nc|ENSG00000133816|O94851|MICAL2;nc|ENSG00000133816|O94851-3|MICAL2;ENSG00000133816|ENST00000683283|MICAL2;nc|ENSG00000133816|O94851-2|MICAL2;ENST00000530691.5_1_11:12229562-12281716:+|nuORF;nc|ENSG00000133816|O94851-5|MICAL2;nc|ENSG00000133816|O94851-6|MICAL2;nc|ENSG00000133816|O94851-4|MICAL2 nc|ENSG00000133816|O94851|MICAL2 nc|ENSG00000133816|O94851|MICAL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.2613525390625 2 542.258914 1082.50327 3.3791 0.0018324 -0.16725 -9.069E-05 3.2119 0.0017417 542.258562622535 50.113 0.33195 50.77 50.563 50.895 0.65735 26 12 3 0 0 0 0.026853 1 22899 22899 59.368 33.969 1 638870 347 9650 299 299 341 341 -0.034677243161013394 AFFRLRRRRQI 11 Unmodified _AFFRLRRRRQI_ 0 0 0 ENST00000292524.5_1_8:145748060-145748543:+|nuORF ENST00000292524.5_1_8:145748060-145748543:+|nuORF ENST00000292524.5_1_8:145748060-145748543:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.9805908203125 3 506.979532 1517.91677 NaN NaN NaN NaN NaN NaN NaN 42.883 1 43.698 43.198 44.198 0.81444 0 0 0 1.0079 1 19497 19497 0.40827 0.31342 1 348 6739 300 300 342 342 0.17852520641713454 AFIEKHWTF 9 Unmodified _AFIEKHWTF_ 0 0 0 nc|ENSG00000149474|Q9H8E8-2|KAT14;ENSG00000149474|ENST00000688188|KAT14;nc|ENSG00000149474|Q9H8E8|KAT14 nc|ENSG00000149474|Q9H8E8-2|KAT14 nc|ENSG00000149474|Q9H8E8-2|KAT14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.5390319824219 3 393.537953 1177.59203 2.9587 0.0011643 -0.31209 -0.00012282 2.6466 0.0010415 393.5377979525315 53.606 0.27275 53.606 53.49 53.763 0 34 19 2 0 0 0 0.14214 2 24544 24544;24599 27.223 18.247 1 3103300 349 3645 301 301 343;344 343 0.010337357142361725 AFIEKHWTF 9 Unmodified _AFIEKHWTF_ 0 0 0 nc|ENSG00000149474|Q9H8E8-2|KAT14;ENSG00000149474|ENST00000688188|KAT14;nc|ENSG00000149474|Q9H8E8|KAT14 nc|ENSG00000149474|Q9H8E8-2|KAT14 nc|ENSG00000149474|Q9H8E8-2|KAT14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.8073120117188 2 589.803291 1177.59203 3.7973 0.0022396 0.65213 0.00038463 4.4494 0.0026243 589.8037807849983 53.636 0.19459 53.636 53.504 53.698 0 22 14 2 0 0 0 0.0053299 1 24574 24574 89.401 62.517 1 2457400 350 3645 301 301 345 345 0.010337357142361725 AFIEKHWTF 9 Unmodified _AFIEKHWTF_ 0 0 0 nc|ENSG00000149474|Q9H8E8-2|KAT14;ENSG00000149474|ENST00000688188|KAT14;nc|ENSG00000149474|Q9H8E8|KAT14 nc|ENSG00000149474|Q9H8E8-2|KAT14 nc|ENSG00000149474|Q9H8E8-2|KAT14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 393.5386657714844 3 393.537953 1177.59203 2.2546 0.00088728 -0.023409 -9.2122E-06 2.2312 0.00087807 393.5379567702793 52.431 0.31189 53.242 53.105 53.417 0.81065 47 20 3 0 0 0 0.069974 2 23881 23881;23925 40.239 17.581 1 1925100 351 3645 301 301 346;347 346 0.010337357142361725 AFIEKHWTF 9 Unmodified _AFIEKHWTF_ 0 0 0 nc|ENSG00000149474|Q9H8E8-2|KAT14;ENSG00000149474|ENST00000688188|KAT14;nc|ENSG00000149474|Q9H8E8|KAT14 nc|ENSG00000149474|Q9H8E8-2|KAT14 nc|ENSG00000149474|Q9H8E8-2|KAT14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.805908203125 2 589.803291 1177.59203 3.0807 0.001817 0.3979 0.00023468 3.4786 0.0020517 589.8035291994819 52.469 0.25285 53.279 53.154 53.406 0.81065 39 16 3 0 0 0 0.0078872 1 23894 23894 103.42 66.913 1 1401400 352 3645 301 301 348 348 0.010337357142361725 AFIEKHWTF 9 Unmodified _AFIEKHWTF_ 0 0 0 nc|ENSG00000149474|Q9H8E8-2|KAT14;ENSG00000149474|ENST00000688188|KAT14;nc|ENSG00000149474|Q9H8E8|KAT14 nc|ENSG00000149474|Q9H8E8-2|KAT14 nc|ENSG00000149474|Q9H8E8-2|KAT14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.5396728515625 3 393.537953 1177.59203 NaN NaN NaN NaN NaN NaN NaN 53.487 1 53.752 53.252 54.252 0.26462 0 0 0 0.57496 1 24462 24462 16.566 10.332 1 353 3645 301 301 349 349 0.010337357142361725 AFIEKHWTF 9 Unmodified _AFIEKHWTF_ 0 0 0 nc|ENSG00000149474|Q9H8E8-2|KAT14;ENSG00000149474|ENST00000688188|KAT14;nc|ENSG00000149474|Q9H8E8|KAT14 nc|ENSG00000149474|Q9H8E8-2|KAT14 nc|ENSG00000149474|Q9H8E8-2|KAT14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.5389099121094 3 393.537953 1177.59203 2.6832 0.0010559 -0.15929 -6.2685E-05 2.5239 0.00099325 393.53813825136376 52.986 0.20499 53.651 53.541 53.746 0.6644 12 8 2 0 0 0 0.43294 1 24247 24247 13.615 9.2087 1 720980 354 3645 301 301 350 350 0.010337357142361725 AFIEKHWTF 9 Unmodified _AFIEKHWTF_ 0 0 0 nc|ENSG00000149474|Q9H8E8-2|KAT14;ENSG00000149474|ENST00000688188|KAT14;nc|ENSG00000149474|Q9H8E8|KAT14 nc|ENSG00000149474|Q9H8E8-2|KAT14 nc|ENSG00000149474|Q9H8E8-2|KAT14 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 589.803291 1177.59203 3.4964 0.0020622 0.74193 0.00043759 4.2384 0.0024998 589.8038210612441 53.032 0.19475 53.696 53.568 53.762 0.6644 0.15889 0.00020839 NaN 89.401 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 1016400 355 3645 301 301 0.010337357142361725 AFLEHRKM 8 Unmodified _AFLEHRKM_ 0 0 0 ENSG00000170961|ENST00000303924|HAS2 ENSG00000170961|ENST00000303924|HAS2 ENSG00000170961|ENST00000303924|HAS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 344.5211486816406 3 344.520016 1030.53822 2.4709 0.00085128 0.60114 0.00020711 3.072 0.0010584 344.52018460089533 14.567 0.19702 15.215 15.12 15.317 0.64819 50 22 3 0 0 0 0.70146 1 6600 6600 3.9444 0 1 1368200 356 4781 302 302 351 351 0.024172400108682268 AFLKVSSVF 9 Unmodified _AFLKVSSVF_ 0 0 0 ENSG00000100401|ENST00000356244|RANGAP1 ENSG00000100401|ENST00000356244|RANGAP1 ENSG00000100401|ENST00000356244|RANGAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.2915954589844 2 499.289485 996.564418 NaN NaN NaN NaN NaN NaN NaN 67.109 1 67.767 67.267 68.267 0.65777 0 0 0 0.21088 1 30763 30763 30.637 17.129 1 357 1215 303 303 352 352 0.06599832454003263 AFLLYLKKRRW 11 Unmodified _AFLLYLKKRRW_ 0 0 0 REV__ENSG00000132429|ENST00000254765|POPDC3 REV__ENSG00000132429|ENST00000254765|POPDC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.485107421875 4 374.233045 1492.90307 2.612 0.00097751 -0.1323 -4.951E-05 2.4797 0.000928 374.23286324853086 59.914 0.26073 59.914 59.733 59.993 0 70 29 4 0 0 0 0.91068 2 27762 27702;27762 1.3296 0.92138 1 13012000 + 358 11890 304 304 353;354 354 0.17633850089919179 AFLLYLKKRRW 11 Unmodified _AFLLYLKKRRW_ 0 0 0 REV__ENSG00000132429|ENST00000254765|POPDC3 REV__ENSG00000132429|ENST00000254765|POPDC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.2337951660156 4 374.233045 1492.90307 2.1026 0.00078685 0.14912 5.5806E-05 2.2517 0.00084266 374.2330418258285 59.117 0.71799 59.876 59.525 60.243 0.75894 177 62 4 0 0 0 0.91028 4 27176 27080;27125;27176;27274 1.4551 1.0469 1 6446500 + 359 11890 304 304 355;356;357;358 357 0.17633850089919179 AFLLYLKKRRW 11 Unmodified _AFLLYLKKRRW_ 0 0 0 REV__ENSG00000132429|ENST00000254765|POPDC3 REV__ENSG00000132429|ENST00000254765|POPDC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.48455810546875 4 374.233045 1492.90307 2.0008 0.00074876 -0.16827 -6.2972E-05 1.8325 0.00068579 374.23287176738324 61.215 0.22918 61.955 61.834 62.063 0.7396 57 27 3 0 0 0 0.91068 1 28387 28387 1.3296 0.87513 1 4797300 + 360 11890 304 304 359 359 0.17633850089919179 AFLLYLKKRRW 11 Unmodified _AFLLYLKKRRW_ 0 0 0 REV__ENSG00000132429|ENST00000254765|POPDC3 REV__ENSG00000132429|ENST00000254765|POPDC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.23370361328125 4 374.233045 1492.90307 2.7504 0.0010293 -0.16713 -6.2546E-05 2.5832 0.00096673 374.23284892241173 59.258 0.60291 59.517 59.316 59.919 0.2593 105 27 5 0 0 0 0.91345 1 27123 27123 0.45452 0.35968 1 13274000 + 361 11890 304 304 360 360 0.17633850089919179 AFLLYLKKRRW 11 Unmodified _AFLLYLKKRRW_ 0 0 0 REV__ENSG00000132429|ENST00000254765|POPDC3 REV__ENSG00000132429|ENST00000254765|POPDC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.6427917480469 3 498.641634 1492.90307 3.2345 0.0016128 0.11942 5.955E-05 3.3539 0.0016724 498.6415318086049 59.272 0.31521 59.532 59.408 59.723 0.2593 27 12 3 0 0 0 0.91345 1 27219 27219 0.45452 0.046251 1 2242800 + 362 11890 304 304 361 361 0.17633850089919179 AFLLYLKKRRW 11 Unmodified _AFLLYLKKRRW_ 0 0 0 REV__ENSG00000132429|ENST00000254765|POPDC3 REV__ENSG00000132429|ENST00000254765|POPDC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.48504638671875 4 374.233045 1492.90307 2.7446 0.0010271 -0.026563 -9.9409E-06 2.718 0.0010172 374.23287144898654 61.417 0.48877 61.67 61.459 61.948 0.25245 79 22 4 0 0 0 0.91328 2 28233 28118;28233 0.50596 0.41111 1 5495900 + 363 11890 304 304 362;363 363 0.17633850089919179 AFLLYLKKRRW 11 Unmodified _AFLLYLKKRRW_ 0 0 0 REV__ENSG00000132429|ENST00000254765|POPDC3 REV__ENSG00000132429|ENST00000254765|POPDC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.2337341308594 4 374.233045 1492.90307 2.6861 0.0010052 0.18343 6.8647E-05 2.8696 0.0010739 374.23297646009235 58.91 0.59597 59.577 59.092 59.688 0.66703 108 25 5 0 0 0 0.89544 3 26895 26895;26947;26995 2.6312 2.223 1 10533000 + 364 11890 304 304 364;365;366 364 0.17633850089919179 AFLLYLKKRRW 11 Unmodified _AFLLYLKKRRW_ 0 0 0 REV__ENSG00000132429|ENST00000254765|POPDC3 REV__ENSG00000132429|ENST00000254765|POPDC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.4847412109375 4 374.233045 1492.90307 2.6767 0.0010017 -0.019792 -7.4069E-06 2.6569 0.00099429 374.23292650185664 59.103 0.17877 59.77 59.661 59.839 0.66703 32 10 4 0 0 0 0.91068 1 27051 27051 1.3296 0.92138 1 10560000 + 365 11890 304 304 367 367 0.17633850089919179 AFLLYLKKRRW 11 Unmodified _AFLLYLKKRRW_ 0 0 0 REV__ENSG00000132429|ENST00000254765|POPDC3 REV__ENSG00000132429|ENST00000254765|POPDC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.2337951660156 4 374.233045 1492.90307 2.6339 0.00098569 0.079077 2.9593E-05 2.713 0.0010153 374.23286513082104 60.929 0.53579 61.591 61.284 61.819 0.66261 98 25 5 0 0 0 0.91328 2 27909 27909;27959 0.50596 0.41111 1 6929700 + 366 11890 304 304 368;369 368 0.17633850089919179 AFLLYLKKRRW 11 Unmodified _AFLLYLKKRRW_ 0 0 0 REV__ENSG00000132429|ENST00000254765|POPDC3 REV__ENSG00000132429|ENST00000254765|POPDC3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 374.233045 1492.90307 2.1099 0.00078959 0.10858 4.0634E-05 2.2185 0.00083023 374.2330070312219 58.863 0.15348 59.622 59.517 59.671 0.75894 0.022293 -6.7744E-05 NaN 2.6312 29 16 2 NaN NaN NaN NaN 0 NaN NaN 0 4477700 + 367 11890 304 304 0.17633850089919179 AFLQRRQRRRQ 11 Unmodified _AFLQRRQRRRQ_ 0 0 0 ENSG00000173080|ENST00000368318|RXFP4 ENSG00000173080|ENST00000368318|RXFP4 ENSG00000173080|ENST00000368318|RXFP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.6995849609375 3 505.634424 1513.88144 NaN NaN NaN NaN NaN NaN NaN 74.367 1 75.032 74.532 75.532 0.6644 0 0 0 1.0071 1 34233 34233 1.4551 0.94916 1 368 4914 305 305 370 370 0.14505858113921022 AFMKGVFTF 9 Unmodified _AFMKGVFTF_ 0 0 0 ENST00000489739.1_1_9:139685858-139686514:+|nuORF;ENSG00000244187|ENST00000290079|TMEM141;ENST00000465017.5_1_9:139685862-139687281:+|nuORF ENST00000489739.1_1_9:139685858-139686514:+|nuORF ENST00000489739.1_1_9:139685858-139686514:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.2718505859375 2 524.270238 1046.52592 2.8307 0.001484 0.36635 0.00019207 3.197 0.0016761 524.7723654097551 73.578 0.20114 74.277 74.173 74.374 0.69881 28 17 2 0 0 0 0.015098 2 35481 35481;35502 74.929 55.672 1 1413400 369 6249 306 306 371;372 371 0.004522035478203179 AFMVNGQKF 9 Unmodified _AFMVNGQKF_ 0 0 0 nc|ENSG00000198901|O43663-3|PRC1;nc|ENSG00000198901|O43663-4|PRC1;ENSG00000198901|ENST00000394249|PRC1 nc|ENSG00000198901|O43663-3|PRC1 nc|ENSG00000198901|O43663-3|PRC1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.364990234375 2 521.262945 1040.51134 3.2848 0.0017122 -1.0498 -0.0005472 2.235 0.001165 521.2628860475916 46.858 0.18815 47.688 47.585 47.773 0.82915 15 6 3 0 0 0 0.040129 1 21329 21329 34.102 8.7031 1 395180 370 5958 307 307 373 373 -0.007298686003196053 AFPVRSSTDPQ 11 Unmodified _AFPVRSSTDPQ_ 0 0 0 REV__ENST00000347708.4_1_8:145194451-145194601:+|nuORF REV__ENST00000347708.4_1_8:145194451-145194601:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 602.8013305664062 2 602.801477 1203.5884 3.5309 0.0021284 0.40957 0.00024689 3.9404 0.0023753 602.8018028328523 50.576 0.24042 50.576 50.439 50.68 0 18 12 2 0 0 0 0.81464 1 23171 23171 6.2058 0 1 644360 + 371 15514 308 308 374 374 -0.005249788502851516 AFPVRSSTDPQ 11 Unmodified _AFPVRSSTDPQ_ 0 0 0 REV__ENST00000347708.4_1_8:145194451-145194601:+|nuORF REV__ENST00000347708.4_1_8:145194451-145194601:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.7813110351562 2 602.801477 1203.5884 3.5261 0.0021255 -0.49053 -0.00029569 3.0355 0.0018298 602.801609719208 49.694 0.25339 50.517 50.382 50.636 0.82285 21 14 2 0 0 0 0.81464 1 22622 22622 6.2058 0.47393 1 700990 + 372 15514 308 308 375 375 -0.005249788502851516 AFPVRSSTDPQ 11 Unmodified _AFPVRSSTDPQ_ 0 0 0 REV__ENST00000347708.4_1_8:145194451-145194601:+|nuORF REV__ENST00000347708.4_1_8:145194451-145194601:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 603.3042602539062 2 602.801477 1203.5884 3.599 0.0021695 -0.25447 -0.0001534 3.3445 0.0020161 602.8011046970802 50.404 0.2952 50.665 50.464 50.76 0.26146 22 13 2 0 0 0 0.81464 1 22998 22998 6.2058 0.47393 1 1130600 + 373 15514 308 308 376 376 -0.005249788502851516 AFSLPRRRS 9 Unmodified _AFSLPRRRS_ 0 0 0 ENST00000228136.8_2_11:16760186-16766155:+|nuORF ENST00000228136.8_2_11:16760186-16766155:+|nuORF ENST00000228136.8_2_11:16760186-16766155:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.2669067382812 2 545.317432 1088.62031 3.5647 0.0019439 -0.89863 -0.00049004 2.6661 0.0014538 545.316860063632 84.788 0.81857 85.036 84.763 85.582 0.24757 91 48 3 0 0 0 0.11053 1 39239 39239 4.3292 2.485 1 769400 374 6432 309 309 377 377 0.07954478414171717 AFSQSSTLTT 10 Unmodified _AFSQSSTLTT_ 0 0 0 ENSG00000229676|ENST00000456783|ZNF492;ENSG00000197360|ENST00000357774|ZNF98;ENSG00000213096|ENST00000357002|ZNF254;nc|ENSG00000167232|Q05481-2|ZNF91;ENSG00000167232|ENST00000300619|ZNF91 ENSG00000229676|ENST00000456783|ZNF492 ENSG00000229676|ENST00000456783|ZNF492 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.7599487304688 2 521.756204 1041.49785 3.4711 0.001811 1.5938 0.0008316 5.0649 0.0026426 522.2587177305413 85.596 0.1867 85.844 85.675 85.861 0.24857 9 7 2 0 0 0 0.12676 1 39350 39350 3.9444 1.3669 1 302280 375 5810 310 310 378 378 -0.021234478985661553 AFVLCLGRL 9 Unmodified _AFVLCLGRL_ 0 0 0 REV__ENST00000263674.3_1_11:73078903-73079227:+|nuORF REV__ENST00000263674.3_1_11:73078903-73079227:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.29302978515625 2 496.291505 990.568457 NaN NaN NaN NaN NaN NaN NaN 42.991 1 43.805 43.305 44.305 0.81444 0 0 0 0.69911 1 19553 19553 12.532 1.7076 1 + 376 15002 311 311 379 379 0.0727959867606387 AFWAPNWHW 9 Unmodified _AFWAPNWHW_ 0 0 0 ENST00000477171.1_1_3:152017595-152017766:+|nuORF ENST00000477171.1_1_3:152017595-152017766:+|nuORF ENST00000477171.1_1_3:152017595-152017766:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.52532958984375 3 405.522526 1213.54575 NaN NaN NaN NaN NaN NaN NaN 34.709 1 35.332 34.832 35.832 0.62294 0 0 0 0.90965 1 15900 15900 1.1933 0.12188 1 377 8242 312 312 380 380 -0.05248284397225689 AFYKVEKR 8 Unmodified _AFYKVEKR_ 0 0 0 REV__nc|ENSG00000077097|Q02880-2|TOP2B REV__nc|ENSG00000077097|Q02880-2|TOP2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.800537109375 2 520.798009 1039.58147 3.0647 0.0015961 1.624 0.00084575 4.6887 0.0024418 520.7990541390878 47.751 0.31236 47.751 47.712 48.025 0 25 16 2 0 0 0 0.71911 1 21938 21938 2.8892 0 1 1863800 + 378 10550 313 313 381 381 0.06325753059786621 AFYKVEKR 8 Unmodified _AFYKVEKR_ 0 0 0 REV__nc|ENSG00000077097|Q02880-2|TOP2B REV__nc|ENSG00000077097|Q02880-2|TOP2B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 520.798009 1039.58147 3.0647 0.0015961 1.624 0.00084575 4.6887 0.0024418 520.7990541390878 47.751 0.31236 47.751 47.712 48.025 0 -0.0084968 0.00052135 NaN 2.8892 25 16 2 NaN NaN NaN NaN 0 NaN NaN 0 1863800 + 379 10550 313 313 0.06325753059786621 AFYKVEKR 8 Unmodified _AFYKVEKR_ 0 0 0 REV__nc|ENSG00000077097|Q02880-2|TOP2B REV__nc|ENSG00000077097|Q02880-2|TOP2B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 520.798009 1039.58147 3.597 0.0018733 -1.008 -0.00052496 2.5891 0.0013484 520.7973771270755 47.522 0.41309 47.785 47.421 47.834 0.26363 0.0261 -0.0022201 NaN 2.8892 33 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1726100 + 380 10550 313 313 0.06325753059786621 AFYKVEKR 8 Unmodified _AFYKVEKR_ 0 0 0 REV__nc|ENSG00000077097|Q02880-2|TOP2B REV__nc|ENSG00000077097|Q02880-2|TOP2B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 520.798009 1039.58147 3.3109 0.0017243 3.0229 0.0015743 6.3338 0.0032987 520.7995147982373 47.09 0.11824 47.742 47.7 47.818 0.65219 -0.017603 0.0019785 NaN 2.8892 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 572550 + 381 10550 313 313 0.06325753059786621 AGAGQFPR 8 Unmodified _AGAGQFPR_ 0 0 0 ENST00000358994.8_1_9:131910170-131910227:+|nuORF ENST00000358994.8_1_9:131910170-131910227:+|nuORF ENST00000358994.8_1_9:131910170-131910227:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 401.9042663574219 2 402.211569 802.408586 NaN NaN NaN NaN NaN NaN NaN 29.444 1 30.233 29.733 30.733 0.78921 0 0 0 0.81105 1 13273 13273 18.135 4.6271 1 382 7198 314 314 382 382 -0.0005219327675831664 AGCGRTVP 8 Unmodified _AGCGRTVP_ 0 0 0 REV__ENST00000549002.5_1_12:95645768-95656758:+|nuORF REV__ENST00000549002.5_1_12:95645768-95656758:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.6920166015625 2 380.692155 759.369758 NaN NaN NaN NaN NaN NaN NaN 57.924 1 58.592 58.092 59.092 0.66829 0 0 0 0.99035 1 26508 26508 4.3292 2.0265 1 + 383 17265 315 315 383 383 -0.01955241902794569 AGDKAAKLAI 10 Unmodified _AGDKAAKLAI_ 0 0 0 REV__nc|ENSG00000119471|Q6YN16-2|HSDL2 REV__nc|ENSG00000119471|Q6YN16-2|HSDL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 319.8633117675781 3 319.862437 956.565481 2.2523 0.00072041 0.89024 0.00028476 3.1425 0.0010052 319.86252649192807 18.834 0.33037 19.494 19.341 19.671 0.66072 46 25 2 0 0 0 0.74998 1 8513 8513 6.1918 0 1 843120 + 384 11501 316 316 384 384 0.08546046822868902 AGDPWEWNQNR 11 Unmodified _AGDPWEWNQNR_ 0 0 0 nc|ENSG00000143434|Q9H3T2-2|SEMA6C;ENSG00000143434|ENST00000368914|SEMA6C;nc|ENSG00000143434|Q9H3T2-3|SEMA6C nc|ENSG00000143434|Q9H3T2-2|SEMA6C nc|ENSG00000143434|Q9H3T2-2|SEMA6C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 687.2974243164062 2 686.805082 1371.59561 NaN NaN NaN NaN NaN NaN NaN 27.224 1 27.224 26.724 27.724 0 0 0 0 1.0072 1 12257 12257 1.3295 0.36726 1 385 3368 317 317 385 385 -0.07532246249888885 AGEWRERWRQS 11 Unmodified _AGEWRERWRQS_ 0 0 0 AluY_dup35442|chr6:31180952-31181248:+|1.2318935688957755|0.3455076719651447|1.83|538.0|10|3|sense AluY_dup35442|chr6:31180952-31181248:+|1.2318935688957755|0.3455076719651447|1.83|538.0|10|3|sense AluY_dup35442|chr6:31180952-31181248:+|1.2318935688957755|0.3455076719651447|1.83|538.0|10|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 730.8596801757812 2 730.860723 1459.70689 NaN NaN NaN NaN NaN NaN NaN 84.195 1 84.224 83.724 84.724 0.028603 0 0 0 1.008 1 41945 41945 0.35063 0 1 386 52 318 318 386 386 -0.004571868219272801 AGFAGDDAPR 10 Unmodified _AGFAGDDAPR_ 0 0 0 ENSG00000159251|ENST00000290378|ACTC1;ENSG00000143632|ENST00000366684|ACTA1;nc|ENSG00000163017|P63267-2|ACTG2;ENSG00000163017|ENST00000345517|ACTG2;ENSG00000107796|ENST00000224784|ACTA2;ENST00000480297.5_1_10:90700968-90708687:-|nuORF;ENST00000477812.1_1_7:5569027-5569288:-|nuORF;ENST00000473016.1_1_2:74120109-74129648:+|nuORF;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF;ENSG00000188219|ENST00000683005|POTEE;ENSG00000196834|ENST00000451531|POTEI;ENSG00000222038|ENST00000409602|POTEJ;ENST00000482085.1_1_10:90708534-90712518:-|nuORF;ENST00000488967.5_1_10:90706975-90712518:-|nuORF ENSG00000159251|ENST00000290378|ACTC1;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF;ENST00000482085.1_1_10:90708534-90712518:-|nuORF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.7292175292969 2 488.727781 975.441008 NaN NaN NaN NaN NaN NaN NaN 19.521 1 20.18 19.68 20.68 0.6583 0 0 0 0.7079 1 8859 8859 24.882 9.6331 1 387 832;5762;3384;8301 319 319 387 387 -0.04769450664434771 AGFLAKVV 8 Unmodified _AGFLAKVV_ 0 0 0 REV__nc|ENSG00000164045|P30304-2|CDC25A REV__nc|ENSG00000164045|P30304-2|CDC25A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 402.75299072265625 2 402.752539 803.490525 NaN NaN NaN NaN NaN NaN NaN 55.852 1 55.852 55.352 56.352 0 0 0 0 0.99035 1 25698 25698 0.79363 0.10326 1 + 388 13052 320 320 388 388 0.08091909082338589 AGHRYRRPHFR 11 Unmodified _AGHRYRRPHFR_ 0 0 0 REV__ENST00000561370.5_1_14:68048786-68054020:+|nuORF REV__ENST00000561370.5_1_14:68048786-68054020:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 726.6790771484375 2 726.895235 1451.77592 NaN NaN NaN NaN NaN NaN NaN 97.98 1 98.051 97.551 98.551 0.070648 0 0 0 1.008 1 52542 52542 0.35063 0 1 + 389 10366 321 321 389 389 0.0680994198830831 AGIEGPPGR 9 Unmodified _AGIEGPPGR_ 0 0 0 REV__nc|ENSG00000142173|P12110-3|COL6A2 REV__nc|ENSG00000142173|P12110-3|COL6A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 427.2311706542969 2 427.229959 852.445365 2.6808 0.0011453 0.10582 4.521E-05 2.7866 0.0011905 427.23000332534383 14.448 0.38209 14.755 14.576 14.958 0.3069 37 22 3 0 0 0 0.83994 1 6565 6565 6.7232 0 1 625960 + 390 12314 322 322 390 390 0.013240585491416823 AGKKKGFSL 9 Unmodified _AGKKKGFSL_ 0 0 0 ENSG00000117228|ENST00000370473|GBP1 ENSG00000117228|ENST00000370473|GBP1 ENSG00000117228|ENST00000370473|GBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.2887268066406 2 468.287277 934.560001 2.3748 0.0011121 0.7153 0.00033497 3.0901 0.001447 468.2875602050189 13.526 0.19859 13.833 13.7 13.898 0.30727 42 16 3 0 0 0 0.049036 2 6117 6072;6117 47.594 14.809 1 1025300 391 2064 323 323 391;392 392 0.09010368031101734 AGKKKGFSL 9 Unmodified _AGKKKGFSL_ 0 0 0 ENSG00000117228|ENST00000370473|GBP1 ENSG00000117228|ENST00000370473|GBP1 ENSG00000117228|ENST00000370473|GBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 468.288818359375 2 468.287277 934.560001 3.0344 0.001421 0.2609 0.00012218 3.2953 0.0015432 468.28733614840354 13.171 0.2178 13.814 13.725 13.943 0.64272 49 17 4 0 0 0 0.0076144 2 5896 5896;5945 86.332 17.227 1 3668000 392 2064 323 323 393;394 393 0.09010368031101734 AGKPHLVL 8 Unmodified _AGKPHLVL_ 0 0 0 nc|ENSG00000102024|P13797-3|PLS3;nc|ENSG00000102024|P13797-2|PLS3;ENSG00000102024|ENST00000355899|PLS3 nc|ENSG00000102024|P13797-3|PLS3 nc|ENSG00000102024|P13797-3|PLS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 417.7644958496094 2 417.763438 833.512323 NaN NaN NaN NaN NaN NaN NaN 27.962 1 28.581 28.081 29.081 0.61947 0 0 0 0.99035 1 12822 12822 5.2307 0 1 393 1326 324 324 395 395 0.08890713830896857 AGKTRVTL 8 Unmodified _AGKTRVTL_ 0 0 0 nc|ENSG00000171566|O43660-2|PLRG1;ENSG00000171566|ENST00000499023|PLRG1 nc|ENSG00000171566|O43660-2|PLRG1 nc|ENSG00000171566|O43660-2|PLRG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.265625 2 423.263802 844.513051 NaN NaN NaN NaN NaN NaN NaN 13.467 1 13.775 13.275 14.275 0.30727 0 0 0 0.81088 1 6076 6076 18.146 4.2403 1 394 4815 325 325 396 396 0.08457508479943954 AGLERESEQL 10 Unmodified _AGLERESEQL_ 0 0 0 REV__ENST00000408011.7_1_18:24128932-24129277:-|nuORF REV__ENST00000408011.7_1_18:24128932-24129277:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.9619750976562 2 566.28566 1130.55677 NaN NaN NaN NaN NaN NaN NaN 58.5 1 58.5 58 59 0 0 0 0 0.53959 1 27000 27000 29.082 7.5446 1 + 395 16084 326 326 397 397 -0.0032897160422180605 AGLLLRLTLLW 11 Unmodified _AGLLLRLTLLW_ 0 0 0 REV__ENSG00000234409|ENST00000439765|CCDC188 REV__ENSG00000234409|ENST00000439765|CCDC188 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 423.6096496582031 3 423.607819 1267.80163 2.6973 0.0011426 1.4514 0.00061482 4.1487 0.0017574 423.6085838125701 35.719 0.23885 35.719 35.543 35.782 0 16 11 2 0 0 0 0.91068 1 16212 16212 1.3296 0.82369 1 418890 + 396 14585 327 327 398 398 0.17843978667360716 AGLLLRLTLLW 11 Unmodified _AGLLLRLTLLW_ 0 0 0 REV__ENSG00000234409|ENST00000439765|CCDC188 REV__ENSG00000234409|ENST00000439765|CCDC188 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 423.607819 1267.80163 2.6973 0.0011426 1.4514 0.00061482 4.1487 0.0017574 423.6085838125701 35.719 0.23885 35.719 35.543 35.782 0 0 0 NaN 1.3296 16 11 2 NaN NaN NaN NaN 0 NaN NaN 0 418890 + 397 14585 327 327 0.17843978667360716 AGLQFPVGR 9 Unmodified _AGLQFPVGR_ 0 0 0 nc|ENSG00000246705|Q9BTM1-2|H2AJ;ENSG00000274997|ENST00000377459|H2AC12;ENSG00000188486|ENST00000530167|H2AX;ENSG00000180573|ENST00000377791|H2AC6;ENSG00000181218|ENST00000689584|H2AC25;ENSG00000196747|ENST00000358739|H2AC13;ENSG00000196787|ENST00000359193|H2AC11;ENSG00000196866|ENST00000341023|H2AC7;ENSG00000276903|ENST00000613174|H2AC16;ENSG00000277075|ENST00000303910|H2AC8;ENSG00000278463|ENST00000615868|H2AC4;ENSG00000278677|ENST00000359611|H2AC17;nc|ENSG00000288859|Q6FI13|H2AC18;ENSG00000184260|ENST00000331380|H2AC20;ENSG00000246705|ENST00000544848|H2AJ;ENSG00000276368|ENST00000333151|H2AC14;ENSG00000184270|ENST00000331128|H2AC21;ENSG00000164508|ENST00000297012|H2AC1;ENSG00000164032|ENST00000296417|H2AZ1;ENSG00000105968|ENST00000308153|H2AZ2;ENST00000511319.5_1_4:100869621-100871200:-|nuORF;nc|ENSG00000105968|Q71UI9-5|H2AZ2;nc|ENSG00000105968|Q71UI9-2|H2AZ2 nc|ENSG00000246705|Q9BTM1-2|H2AJ;ENSG00000164032|ENST00000296417|H2AZ1 ENSG00000164032|ENST00000296417|H2AZ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.7705383300781 2 472.769252 943.52395 2.9948 0.0014159 0.20357 9.6244E-05 3.1984 0.0015121 472.7692591297154 49.482 0.29826 49.743 49.587 49.885 0.26146 15 10 2 0 0 0 0.027384 1 22609 22609 58.679 22.552 1 694360 398 5255;1543 328 328 399 399 0.04992910854230104 AGLQFPVGR 9 Unmodified _AGLQFPVGR_ 0 0 0 nc|ENSG00000246705|Q9BTM1-2|H2AJ;ENSG00000274997|ENST00000377459|H2AC12;ENSG00000188486|ENST00000530167|H2AX;ENSG00000180573|ENST00000377791|H2AC6;ENSG00000181218|ENST00000689584|H2AC25;ENSG00000196747|ENST00000358739|H2AC13;ENSG00000196787|ENST00000359193|H2AC11;ENSG00000196866|ENST00000341023|H2AC7;ENSG00000276903|ENST00000613174|H2AC16;ENSG00000277075|ENST00000303910|H2AC8;ENSG00000278463|ENST00000615868|H2AC4;ENSG00000278677|ENST00000359611|H2AC17;nc|ENSG00000288859|Q6FI13|H2AC18;ENSG00000184260|ENST00000331380|H2AC20;ENSG00000246705|ENST00000544848|H2AJ;ENSG00000276368|ENST00000333151|H2AC14;ENSG00000184270|ENST00000331128|H2AC21;ENSG00000164508|ENST00000297012|H2AC1;ENSG00000164032|ENST00000296417|H2AZ1;ENSG00000105968|ENST00000308153|H2AZ2;ENST00000511319.5_1_4:100869621-100871200:-|nuORF;nc|ENSG00000105968|Q71UI9-5|H2AZ2;nc|ENSG00000105968|Q71UI9-2|H2AZ2 nc|ENSG00000246705|Q9BTM1-2|H2AJ;ENSG00000164032|ENST00000296417|H2AZ1 ENSG00000164032|ENST00000296417|H2AZ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.7708435058594 2 472.769252 943.52395 3.1067 0.0014687 -0.11217 -5.303E-05 2.9945 0.0014157 472.7691660236525 48.965 0.25982 49.62 49.474 49.734 0.65524 17 9 2 0 0 0 0.038142 1 22392 22392 52.268 18.081 1 496150 399 5255;1543 328 328 400 400 0.04992910854230104 AGLQFPVGR 9 Unmodified _AGLQFPVGR_ 0 0 0 nc|ENSG00000246705|Q9BTM1-2|H2AJ;ENSG00000274997|ENST00000377459|H2AC12;ENSG00000188486|ENST00000530167|H2AX;ENSG00000180573|ENST00000377791|H2AC6;ENSG00000181218|ENST00000689584|H2AC25;ENSG00000196747|ENST00000358739|H2AC13;ENSG00000196787|ENST00000359193|H2AC11;ENSG00000196866|ENST00000341023|H2AC7;ENSG00000276903|ENST00000613174|H2AC16;ENSG00000277075|ENST00000303910|H2AC8;ENSG00000278463|ENST00000615868|H2AC4;ENSG00000278677|ENST00000359611|H2AC17;nc|ENSG00000288859|Q6FI13|H2AC18;ENSG00000184260|ENST00000331380|H2AC20;ENSG00000246705|ENST00000544848|H2AJ;ENSG00000276368|ENST00000333151|H2AC14;ENSG00000184270|ENST00000331128|H2AC21;ENSG00000164508|ENST00000297012|H2AC1;ENSG00000164032|ENST00000296417|H2AZ1;ENSG00000105968|ENST00000308153|H2AZ2;ENST00000511319.5_1_4:100869621-100871200:-|nuORF;nc|ENSG00000105968|Q71UI9-5|H2AZ2;nc|ENSG00000105968|Q71UI9-2|H2AZ2 nc|ENSG00000246705|Q9BTM1-2|H2AJ;ENSG00000164032|ENST00000296417|H2AZ1 ENSG00000164032|ENST00000296417|H2AZ1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 472.769252 943.52395 2.9086 0.0013751 -0.3474 -0.00016424 2.5612 0.0012109 472.7692567534528 48.615 0.10322 49.442 49.373 49.476 0.82705 -0.15986 -0.00030785 NaN 58.679 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 356240 400 5255;1543 328 328 0.04992910854230104 AGLRIGVHF 9 Unmodified _AGLRIGVHF_ 0 0 0 ENST00000390655.10_2_2:87068783-87068945:-|nuORF ENST00000390655.10_2_2:87068783-87068945:-|nuORF ENST00000390655.10_2_2:87068783-87068945:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.28717041015625 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 58.375 1 59.134 58.634 59.634 0.75894 0 0 0 0.89683 1 26772 26772 4.3292 1.7518 1 401 7506 329 329 401 401 0.07004903608174118 AGLRIGVHF 9 Unmodified _AGLRIGVHF_ 0 0 0 ENST00000390655.10_2_2:87068783-87068945:-|nuORF ENST00000390655.10_2_2:87068783-87068945:-|nuORF ENST00000390655.10_2_2:87068783-87068945:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2893371582031 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 63.101 1 63.351 62.851 63.851 0.24965 0 0 0 0.90611 1 28898 28898 2.0598 1.2661 1 402 7506 329 329 402 402 0.07004903608174118 AGLRIGVHF 9 Unmodified _AGLRIGVHF_ 0 0 0 ENST00000390655.10_2_2:87068783-87068945:-|nuORF ENST00000390655.10_2_2:87068783-87068945:-|nuORF ENST00000390655.10_2_2:87068783-87068945:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2882080078125 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 45.07 1 45.72 45.22 46.22 0.64998 0 0 0 0.90611 1 20655 20655 2.0598 0.73022 1 403 7506 329 329 403 403 0.07004903608174118 AGLRIGVHF 9 Unmodified _AGLRIGVHF_ 0 0 0 ENST00000390655.10_2_2:87068783-87068945:-|nuORF ENST00000390655.10_2_2:87068783-87068945:-|nuORF ENST00000390655.10_2_2:87068783-87068945:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2890930175781 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 58.751 1 59.418 58.918 59.918 0.66703 0 0 0 0.90611 1 26892 26892 2.0598 0 1 404 7506 329 329 404 404 0.07004903608174118 AGLRIGVHF 9 Unmodified _AGLRIGVHF_ 0 0 0 ENST00000390655.10_2_2:87068783-87068945:-|nuORF ENST00000390655.10_2_2:87068783-87068945:-|nuORF ENST00000390655.10_2_2:87068783-87068945:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.28729248046875 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 62.323 1 62.983 62.483 63.483 0.66008 0 0 0 0.89683 1 28559 28559 4.3292 1.7518 1 405 7506 329 329 405 405 0.07004903608174118 AGLRIGVHF 9 Unmodified _AGLRIGVHF_ 0 0 0 ENST00000390655.10_2_2:87068783-87068945:-|nuORF ENST00000390655.10_2_2:87068783-87068945:-|nuORF ENST00000390655.10_2_2:87068783-87068945:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2889099121094 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 63.136 1 63.795 63.295 64.295 0.65808 0 0 0 0.90611 1 28931 28931 2.0598 1.2661 1 406 7506 329 329 406 406 0.07004903608174118 AGLRIGVHF 9 Unmodified _AGLRIGVHF_ 0 0 0 ENST00000390655.10_2_2:87068783-87068945:-|nuORF ENST00000390655.10_2_2:87068783-87068945:-|nuORF ENST00000390655.10_2_2:87068783-87068945:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2884216308594 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 63.608 1 64.266 63.766 64.766 0.65809 0 0 0 0.89683 1 29150 29150 4.3292 1.44 1 407 7506 329 329 407 407 0.07004903608174118 AGLRIGVHF 9 Unmodified _AGLRIGVHF_ 0 0 0 ENST00000390655.10_2_2:87068783-87068945:-|nuORF ENST00000390655.10_2_2:87068783-87068945:-|nuORF ENST00000390655.10_2_2:87068783-87068945:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2879638671875 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 65.549 1 66.206 65.706 66.706 0.65672 0 0 0 0.89683 1 30051 30051 4.3292 1.7518 1 408 7506 329 329 408 408 0.07004903608174118 AGLRIGVHF 9 Unmodified _AGLRIGVHF_ 0 0 0 ENST00000390655.10_2_2:87068783-87068945:-|nuORF ENST00000390655.10_2_2:87068783-87068945:-|nuORF ENST00000390655.10_2_2:87068783-87068945:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2881164550781 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 69.224 1 69.885 69.385 70.385 0.66071 0 0 0 0.89683 1 31732 31732 4.3292 1.7518 1 409 7506 329 329 409 409 0.07004903608174118 AGPADAPAGA 10 Unmodified _AGPADAPAGA_ 0 0 0 ENST00000594723.1_1_19:49138672-49140251:-|nuORF;ENSG00000105516|ENST00000222122|DBP ENST00000594723.1_1_19:49138672-49140251:-|nuORF ENST00000594723.1_1_19:49138672-49140251:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 797.1268310546875 1 797.378808 796.371532 3.5415 0.0028239 0.31972 0.00025494 3.8612 0.0030788 797.3790084633259 33.638 0.187 33.638 33.558 33.745 0 21 16 2 0 0 0 0.25925 1 15214 15214 32.305 5.4218 1 1179600 410 1503 330 330 410 410 -0.03479909613201926 AGPADAPAGA 10 Unmodified _AGPADAPAGA_ 0 0 0 ENST00000594723.1_1_19:49138672-49140251:-|nuORF;ENSG00000105516|ENST00000222122|DBP ENST00000594723.1_1_19:49138672-49140251:-|nuORF ENST00000594723.1_1_19:49138672-49140251:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 797.378808 796.371532 3.9128 0.00312 -0.10423 -8.3114E-05 3.8086 0.0030369 797.3787121557694 33.424 0.29329 33.678 33.506 33.799 0.25389 0.051024 -0.00051955 NaN 32.305 25 13 3 NaN NaN NaN NaN 0 NaN NaN 0 520030 411 1503 330 330 -0.03479909613201926 AGPADAPAGA 10 Unmodified _AGPADAPAGA_ 0 0 0 ENST00000594723.1_1_19:49138672-49140251:-|nuORF;ENSG00000105516|ENST00000222122|DBP ENST00000594723.1_1_19:49138672-49140251:-|nuORF ENST00000594723.1_1_19:49138672-49140251:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 797.378808 796.371532 3.8417 0.0030633 0.66035 0.00052655 4.5021 0.0035899 797.379233709448 32.973 0.39985 33.591 33.352 33.751 0.61831 -0.036003 9.0115E-05 NaN 32.305 31 18 3 NaN NaN NaN NaN 0 NaN NaN 0 590330 412 1503 330 330 -0.03479909613201926 AGRRRRRRRRT 11 Unmodified _AGRRRRRRRRT_ 0 0 0 ENST00000396212.6_1_16:19535261-19535342:+|nuORF ENST00000396212.6_1_16:19535261-19535342:+|nuORF ENST00000396212.6_1_16:19535261-19535342:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 749.0253295898438 2 748.970131 1495.92571 NaN NaN NaN NaN NaN NaN NaN 108.92 1 109.53 109.03 110.03 0.60264 0 0 0 1.008 1 50247 50247 0.35063 0.35063 1 413 7566 331 331 411 411 0.19758307050733492 AGSCGWFR 8 Unmodified _AGSCGWFR_ 0 0 0 REV__ENST00000464234.5_1_3:195474049-195480138:-|nuORF REV__ENST00000464234.5_1_3:195474049-195480138:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 883.3934326171875 1 883.387933 882.380657 4.7543 0.0041999 -0.34453 -0.00030435 4.4097 0.0038955 883.387327914515 103.84 0.071556 104.16 104.14 104.21 0.31863 11 5 3 0 0 0 0.7471 1 48003 48003 0.69038 0 1 2458700 + 414 12428 332 332 412 412 -0.06523839528517783 AGSCGWFR 8 Unmodified _AGSCGWFR_ 0 0 0 REV__ENST00000464234.5_1_3:195474049-195480138:-|nuORF REV__ENST00000464234.5_1_3:195474049-195480138:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 883.387933 882.380657 2.3376 0.002065 1.7333 0.0015312 4.0709 0.0035962 883.3883022002717 104.1 0.02861 104.15 104.12 104.15 0.052994 -0.086926 0.0014547 NaN 0.69038 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 279890 + 415 12428 332 332 -0.06523839528517783 AGVFRALQKIH 11 Unmodified _AGVFRALQKIH_ 0 0 0 REV__ENST00000550858.1_1_12:42681476-42682067:+|nuORF REV__ENST00000550858.1_1_12:42681476-42682067:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.87255859375 2 620.369664 1238.72478 4.0593 0.0025183 1.5134 0.00093888 5.5727 0.0034571 620.8719784498709 90.476 0.81327 90.727 90.555 91.368 0.25136 62 42 2 0 0 0 0.13295 1 41890 41890 0.35063 0 1 1281000 + 416 17282 333 333 413 413 0.11496180170888692 AHAFVIIF 8 Unmodified _AHAFVIIF_ 0 0 0 ENST00000414273.1_1_1:566573-566693:+|nuORF ENST00000414273.1_1_1:566573-566693:+|nuORF ENST00000414273.1_1_1:566573-566693:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 306.5133056640625 3 306.512968 916.517074 2.2056 0.00067603 0.30753 9.4262E-05 2.5131 0.0007703 306.51306309653273 14.741 0.24364 15.394 15.303 15.547 0.65356 29 19 2 0 0 0 0.7471 1 6642 6642 0.45834 0 1 151110 417 7696 334 334 414 414 0.055475979736797854 AHERRLPAV 9 Unmodified _AHERRLPAV_ 0 0 0 nc|ENSG00000221957|P43632|KIR2DS4;nc|ENSG00000167633|P43629-2|KIR3DL1;ENSG00000167633|ENST00000391728|KIR3DL1 nc|ENSG00000221957|P43632|KIR2DS4 nc|ENSG00000221957|P43632|KIR2DS4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.2069396972656 3 350.205197 1047.59376 NaN NaN NaN NaN NaN NaN NaN 56.974 1 57.752 57.252 58.252 0.77786 0 0 0 0.90335 1 26064 26064 2.7352 0 1 418 4566 335 335 415 415 0.07186789522825165 AHKHLEDI 8 Unmodified _AHKHLEDI_ 0 0 0 REV__ENST00000523669.5_1_8:86025320-86042154:+|nuORF REV__ENST00000523669.5_1_8:86025320-86042154:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 321.5074462890625 3 321.506653 961.498129 1.6133 0.00051868 1.0726 0.00034485 2.6859 0.00086353 321.5068633957717 12.612 0.087564 12.919 12.882 12.969 0.30727 4 2 2 0 0 0 0.64692 1 5711 5711 7.2892 1.5574 1 1290500 + 419 11944 336 336 416 416 0.01584016611923289 AHLEIKLT 8 Unmodified _AHLEIKLT_ 0 0 0 REV__ENST00000412485.1_1_X:13284560-13284650:-|nuORF REV__ENST00000412485.1_1_X:13284560-13284650:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 308.85626220703125 3 308.855282 923.544017 2.3549 0.00072733 -0.042009 -1.2975E-05 2.3129 0.00071436 308.8553475659809 33.093 0.35561 33.347 33.121 33.476 0.25389 42 14 4 0 0 0 0.72385 1 15102 15102 3.9444 0 1 2007500 + 420 16109 337 337 417 417 0.07918661794167292 AHLLGAAH 8 Unmodified _AHLLGAAH_ 0 0 0 REV__nc|ENSG00000140386|Q9BY12-3|SCAPER REV__nc|ENSG00000140386|Q9BY12-3|SCAPER MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.2232360839844 2 395.221937 788.429321 2.9319 0.0011588 1.4415 0.00056971 4.3734 0.0017285 395.2223823368654 35.272 0.57376 35.895 35.698 36.272 0.62294 28 19 2 0 0 0 0.73686 1 16189 16189 2.8892 0 1 361620 + 421 12243 338 338 418 418 0.026643971028875058 AHLLGAAH 8 Unmodified _AHLLGAAH_ 0 0 0 REV__nc|ENSG00000140386|Q9BY12-3|SCAPER REV__nc|ENSG00000140386|Q9BY12-3|SCAPER MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 395.221937 788.429321 2.5635 0.0010132 2.0237 0.00079982 4.5873 0.001813 395.2227431078774 34.813 0.49035 35.602 35.468 35.959 0.78921 -0.21251 0.00026966 NaN 2.8892 43 33 2 NaN NaN NaN NaN 0 NaN NaN 0 355650 + 422 12243 338 338 0.026643971028875058 AHLLGAAH 8 Unmodified _AHLLGAAH_ 0 0 0 REV__nc|ENSG00000140386|Q9BY12-3|SCAPER REV__nc|ENSG00000140386|Q9BY12-3|SCAPER MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 395.221937 788.429321 2.9364 0.0011605 1.5018 0.00059354 4.4382 0.0017541 395.2224015753721 35.691 0.7862 35.947 35.713 36.5 0.25524 0.13186 -0.0001429 NaN 2.8892 44 32 2 NaN NaN NaN NaN 0 NaN NaN 0 296580 + 423 12243 338 338 0.026643971028875058 AHLLGAAH 8 Unmodified _AHLLGAAH_ 0 0 0 REV__nc|ENSG00000140386|Q9BY12-3|SCAPER REV__nc|ENSG00000140386|Q9BY12-3|SCAPER MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 395.221937 788.429321 2.9319 0.0011588 1.4415 0.00056971 4.3734 0.0017285 395.2223823368654 35.272 0.57376 35.895 35.698 36.272 0.62294 0.080647 -0.00019057 NaN 2.8892 28 19 2 NaN NaN NaN NaN 0 NaN NaN 0 361620 + 424 12243 338 338 0.026643971028875058 AHNRTCRYRAF 11 Unmodified _AHNRTCRYRAF_ 0 0 0 ENSG00000146205|ENST00000674324|ANO7;nc|ENSG00000146205|Q6IWH7-3|ANO7;nc|ENSG00000146205|Q6IWH7|ANO7 ENSG00000146205|ENST00000674324|ANO7 ENSG00000146205|ENST00000674324|ANO7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 697.7604370117188 2 697.846561 1393.67857 NaN NaN NaN NaN NaN NaN NaN 84.466 1 84.495 83.995 84.995 0.028603 0 0 0 1.0074 1 42141 42141 1.0715 0.61312 1 425 3505 339 339 419 419 -0.0025220800287115708 AHREYQAVDFE 11 Unmodified _AHREYQAVDFE_ 0 0 0 OGT|p.G35V|1|0.56|ENSG00000147162|chrX:71536244-71536244|G/T|missense_variant OGT|p.G35V|1|0.56|ENSG00000147162|chrX:71536244-71536244|G/T|missense_variant OGT|p.G35V|1|0.56|ENSG00000147162|chrX:71536244-71536244|G/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 455.3033142089844 3 455.545836 1363.61568 NaN NaN NaN NaN NaN NaN NaN 38.481 1 38.481 37.981 38.981 0 0 0 0 1.0038 1 17465 17465 2.6312 0.19645 1 426 9900 340 340 420 420 -0.05158495309910904 AHRLSYEI 8 Unmodified _AHRLSYEI_ 0 0 0 REV__ENST00000460532.5_1_7:143573708-143579134:-|nuORF REV__ENST00000460532.5_1_7:143573708-143579134:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.76641845703125 2 494.764166 987.513779 3.1036 0.0015356 0.28984 0.0001434 3.3935 0.001679 494.76438787927776 27.287 0.22194 27.909 27.763 27.985 0.62178 23 12 2 0 0 0 0.60101 1 12483 12483 12.532 1.7076 1 364030 + 427 16478 341 341 421 421 0.019523031289850223 AHVETGYKL 9 Unmodified _AHVETGYKL_ 0 0 0 ENST00000452533.6_1_12:32896368-32896542:+|nuORF ENST00000452533.6_1_12:32896368-32896542:+|nuORF ENST00000452533.6_1_12:32896368-32896542:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.8509826660156 3 339.850308 1016.5291 2.4731 0.0008405 0.85892 0.0002919 3.3321 0.0011324 339.85041354368354 21.892 0.24258 21.892 21.771 22.014 0 30 20 2 0 0 0 0.68496 1 9793 9793 5.7319 1.5423 1 197070 428 8029 342 342 422 422 0.02149169926178729 AHVETGYKL 9 Unmodified _AHVETGYKL_ 0 0 0 ENST00000452533.6_1_12:32896368-32896542:+|nuORF ENST00000452533.6_1_12:32896368-32896542:+|nuORF ENST00000452533.6_1_12:32896368-32896542:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.8514709472656 3 339.850308 1016.5291 2.4566 0.00083487 0.61528 0.0002091 3.0719 0.001044 339.8503022491124 20.864 0.14198 21.517 21.478 21.62 0.65346 18 11 2 0 0 0 0.68496 1 9479 9479 5.7319 1.5423 1 139250 429 8029 342 342 423 423 0.02149169926178729 AHVQVALVLVL 11 Unmodified _AHVQVALVLVL_ 0 0 0 REV__ENSG00000171135|ENST00000647897|JAGN1 REV__ENSG00000171135|ENST00000647897|JAGN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.3921508789062 2 581.371341 1160.72813 NaN NaN NaN NaN NaN NaN NaN 85.872 1 85.872 85.372 86.372 0 0 0 0 1.0057 1 43848 43848 3.2813 1.4371 1 + 430 13478 343 343 424 424 0.15419430224869757 AHWEEAPSLP 10 Unmodified _AHWEEAPSLP_ 0 0 0 nc|ENSG00000007516|O94812-7|BAIAP3;nc|ENSG00000007516|O94812-5|BAIAP3;nc|ENSG00000007516|O94812-3|BAIAP3;ENSG00000007516|ENST00000426824|BAIAP3;nc|ENSG00000007516|O94812-2|BAIAP3;nc|ENSG00000007516|O94812|BAIAP3;ENST00000568198.1_1_16:1393433-1394289:+|nuORF nc|ENSG00000007516|O94812-7|BAIAP3 nc|ENSG00000007516|O94812-7|BAIAP3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.3241577148438 2 568.772188 1135.52982 3.593 0.0020436 -0.9295 -0.00052867 2.6635 0.0015149 568.7718304784623 49.507 0.21501 50.33 50.167 50.382 0.82285 13 9 2 0 0 0 0.12676 1 22526 22526 6.7232 2.3939 1 213470 431 364 344 344 425 425 -0.03252035424748101 AIAAVIARF 9 Unmodified _AIAAVIARF_ 0 0 0 nc|ENSG00000165949|P40305-4|IFI27;nc|ENSG00000165949|P40305-3|IFI27;nc|ENSG00000165949|P40305-1|IFI27;ENSG00000165949|ENST00000612813|IFI27 nc|ENSG00000165949|P40305-4|IFI27 nc|ENSG00000165949|P40305-4|IFI27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.2916259765625 2 466.28982 930.565087 2.5721 0.0011993 1.0954 0.00051075 3.6674 0.0017101 466.2904283342583 63.367 0.16458 63.615 63.52 63.684 0.24803 13 9 2 0 0 0 0.09451 1 29038 29038 34.102 10.954 1 527780 432 4437 345 345 426 426 0.09702671893694514 AIAAVIARF 9 Unmodified _AIAAVIARF_ 0 0 0 nc|ENSG00000165949|P40305-4|IFI27;nc|ENSG00000165949|P40305-3|IFI27;nc|ENSG00000165949|P40305-1|IFI27;ENSG00000165949|ENST00000612813|IFI27 nc|ENSG00000165949|P40305-4|IFI27 nc|ENSG00000165949|P40305-4|IFI27 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.2920837402344 2 466.28982 930.565087 NaN NaN NaN NaN NaN NaN NaN 62.752 1 63.41 62.91 63.91 0.65808 0 0 0 0.30236 1 28755 28755 26.884 8.7487 1 433 4437 345 345 427 427 0.09702671893694514 AIAPKPKV 8 Unmodified _AIAPKPKV_ 0 0 0 nc|ENSG00000180263|Q6ZV73-2|FGD6;ENSG00000180263|ENST00000343958|FGD6 nc|ENSG00000180263|Q6ZV73-2|FGD6 nc|ENSG00000180263|Q6ZV73-2|FGD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.2736511230469 2 412.273638 822.532724 NaN NaN NaN NaN NaN NaN NaN 39.991 1 40.258 39.758 40.758 0.26696 0 0 0 0.99035 1 18193 18193 2.5775 0 1 434 5246 346 346 428 428 0.1143588449069739 AIEGRNAVL 9 Unmodified _AIEGRNAVL_ 0 0 0 REV__nc|ENSG00000175198|P05165-3|PCCA REV__nc|ENSG00000175198|P05165-3|PCCA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 314.8510437011719 3 314.85042 941.529429 2.2602 0.00071164 -0.39009 -0.00012282 1.8702 0.00058882 314.8503377478757 14.841 0.22591 15.067 14.932 15.158 0.22622 20 16 2 0 0 0 1.0601 1 6512 6512 2.9952 0 1 208980 + 435 13664 347 347 429 429 0.056325896460293734 AIEHRYRE 8 Unmodified _AIEHRYRE_ 0 0 0 REV__nc|ENSG00000128607|Q6PID8-2|KLHDC10 REV__nc|ENSG00000128607|Q6PID8-2|KLHDC10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 358.5220642089844 3 358.521074 1072.54139 2.7079 0.00097083 0.17592 6.3071E-05 2.8838 0.0010339 358.5211360973686 13.021 0.14535 13.663 13.58 13.725 0.64272 7 4 2 0 0 0 0.67495 1 5861 5861 5.7319 2.9967 1 232210 + 436 11765 348 348 430 430 0.008022063892212827 AIEHRYRE 8 Unmodified _AIEHRYRE_ 0 0 0 REV__nc|ENSG00000128607|Q6PID8-2|KLHDC10 REV__nc|ENSG00000128607|Q6PID8-2|KLHDC10 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 358.8756408691406 3 358.521074 1072.54139 2.7079 0.00097083 0.17592 6.3071E-05 2.8838 0.0010339 358.5211360973686 13.021 0.14535 13.663 13.58 13.725 0.64272 7 4 2 0 0 0 0.14161 1 5850 5850 5.7319 1.5423 1 232210 + 437 11765 348 348 431 431 0.008022063892212827 AIHIGDRILA 10 Unmodified _AIHIGDRILA_ 0 0 0 nc|ENSG00000155974|Q9Y3R0-3|GRIP1;nc|ENSG00000155974|Q9Y3R0-2|GRIP1;ENSG00000155974|ENST00000359742|GRIP1 nc|ENSG00000155974|Q9Y3R0-3|GRIP1 nc|ENSG00000155974|Q9Y3R0-3|GRIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.8251953125 2 539.822015 1077.62948 3.3315 0.0017984 0.80571 0.00043494 4.1372 0.0022334 539.8224801906921 29.472 0.28206 29.73 29.595 29.877 0.25804 36 17 3 0 0 0 0.48762 1 13385 13385 32.305 3.8186 1 507780 438 3889 349 349 432 432 0.09376826979860198 AIHIWRYSWFD 11 Unmodified _AIHIWRYSWFD_ 0 0 0 REV__nc|ENSG00000147231|Q6NSI4-3|RADX REV__nc|ENSG00000147231|Q6NSI4-3|RADX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 747.4608154296875 2 747.369861 1492.72517 NaN NaN NaN NaN NaN NaN NaN 59.056 1 59.815 59.315 60.315 0.75894 0 0 0 1.0071 1 27140 27140 1.4819 0.15237 1 + 439 12498 350 350 433 433 -0.0014844489992356102 AILPTKALK 9 Unmodified _AILPTKALK_ 0 0 0 REV__nc|ENSG00000138744|Q02083-2|NAAA REV__nc|ENSG00000138744|Q02083-2|NAAA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.13848876953125 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 69.478 1 69.478 68.978 69.978 0 0 0 0 0.87786 1 33551 33551 6.7232 1.4925 1 + 440 12186 351 351 434 434 0.14868398242037983 AILRQWVP 8 Unmodified _AILRQWVP_ 0 0 0 nc|ENSG00000115295|Q8N3C7-3|CLIP4;nc|ENSG00000115295|Q8N3C7-2|CLIP4;ENSG00000115295|ENST00000320081|CLIP4 nc|ENSG00000115295|Q8N3C7-3|CLIP4 nc|ENSG00000115295|Q8N3C7-3|CLIP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.797607421875 2 491.795269 981.575986 2.8365 0.001395 1.8272 0.00089859 4.6636 0.0022936 491.79596123023106 59.734 0.4319 60.484 60.09 60.522 0.74927 37 31 2 0 0 0 0.7441 1 27336 27336 2.3027 0 1 561940 441 1959 352 352 435 435 0.08446074267988024 AILRTNDSL 9 Unmodified _AILRTNDSL_ 0 0 0 REV__nc|ENSG00000158966|Q5VU97-2|CACHD1 REV__nc|ENSG00000158966|Q5VU97-2|CACHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.7837219238281 2 501.782556 1001.55056 2.9881 0.0014994 -0.91682 -0.00046004 2.0712 0.0010393 501.782336733246 14.227 0.067386 14.534 14.508 14.576 0.3069 6 4 2 0 0 0 0.043585 1 6456 6456 49.933 0 1 1168900 + 442 12837 353 353 436 436 0.04984554954887699 AIPSIMNVLL 10 Unmodified _AIPSIMNVLL_ 0 0 0 SCN1A|p.A1622Pfs*3|1|0.23|ENSG00000144285|chr2:165992415-165992415|A/-|frameshift_variant;nc|ENSG00000144285|P35498-3|SCN1A;nc|ENSG00000144285|P35498-2|SCN1A;ENSG00000144285|ENST00000674923|SCN1A;nc|ENSG00000153253|Q9NY46-4|SCN3A;nc|ENSG00000153253|Q9NY46-2|SCN3A;ENSG00000185313|ENST00000449082|SCN10A;nc|ENSG00000153253|Q9NY46|SCN3A;ENSG00000153253|ENST00000283254|SCN3A;nc|ENSG00000169432|Q15858-4|SCN9A;nc|ENSG00000169432|Q15858-3|SCN9A;nc|ENSG00000169432|Q15858-2|SCN9A;ENSG00000169432|ENST00000642356|SCN9A;SCN9A|p.M1532*|1|0.27|ENSG00000169432|chr2:166204135-166204135|T/-|frameshift_variant;nc|ENSG00000183873|Q14524-5|SCN5A;nc|ENSG00000183873|Q14524-3|SCN5A;nc|ENSG00000183873|Q14524-6|SCN5A;ENSG00000183873|ENST00000423572|SCN5A;nc|ENSG00000183873|Q14524|SCN5A;nc|ENSG00000183873|Q14524-4|SCN5A;ENSG00000007314|ENST00000435607|SCN4A;nc|ENSG00000136531|Q99250-2|SCN2A;ENSG00000136531|ENST00000375437|SCN2A;nc|ENSG00000196876|Q9UQD0-5|SCN8A;nc|ENSG00000196876|Q9UQD0|SCN8A;ENSG00000196876|ENST00000627620|SCN8A;nc|ENSG00000196876|Q9UQD0-3|SCN8A SCN1A|p.A1622Pfs*3|1|0.23|ENSG00000144285|chr2:165992415-165992415|A/-|frameshift_variant;nc|ENSG00000169432|Q15858-4|SCN9A;nc|ENSG00000183873|Q14524-5|SCN5A;ENSG00000007314|ENST00000435607|SCN4A;nc|ENSG00000136531|Q99250-2|SCN2A nc|ENSG00000169432|Q15858-4|SCN9A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.8192749023438 2 535.817553 1069.62055 3.4283 0.001837 0.61208 0.00032796 4.0404 0.0021649 535.817793468573 95.189 0.37721 95.806 95.591 95.968 0.61736 47 18 3 0 0 0 0.84709 2 43779 43779;43839 6.2058 2.2614 1 4312900 443 4691;3416;2956;5410;363 354 354 437;438 437 0.08852717299168944 AIRKAQGKN 9 Unmodified _AIRKAQGKN_ 0 0 0 ENST00000520294.5_1_8:109476316-109498824:+|nuORF;ENSG00000104412|ENST00000220853|EMC2 ENST00000520294.5_1_8:109476316-109498824:+|nuORF ENST00000520294.5_1_8:109476316-109498824:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 329.2027282714844 3 329.201564 984.582862 NaN NaN NaN NaN NaN NaN NaN 28.235 1 29.022 28.522 29.522 0.78627 0 0 0 0.89683 1 12711 12711 2.4985 0.21571 1 444 1437 355 355 439 439 0.08995387148559075 AIRKAQGKN 9 Unmodified _AIRKAQGKN_ 0 0 0 ENST00000520294.5_1_8:109476316-109498824:+|nuORF;ENSG00000104412|ENST00000220853|EMC2 ENST00000520294.5_1_8:109476316-109498824:+|nuORF ENST00000520294.5_1_8:109476316-109498824:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 329.2023010253906 3 329.201564 984.582862 NaN NaN NaN NaN NaN NaN NaN 29.848 1 30.637 30.137 31.137 0.78921 0 0 0 0.90699 1 13466 13466 0.96228 0 1 445 1437 355 355 440 440 0.08995387148559075 AIRNDEEL 8 Unmodified _AIRNDEEL_ 0 0 0 nc|ENSG00000246705|Q9BTM1-2|H2AJ;ENSG00000274997|ENST00000377459|H2AC12;ENSG00000188486|ENST00000530167|H2AX;ENSG00000180573|ENST00000377791|H2AC6;ENSG00000181218|ENST00000689584|H2AC25;ENSG00000196747|ENST00000358739|H2AC13;ENSG00000196787|ENST00000359193|H2AC11;ENSG00000196866|ENST00000341023|H2AC7;ENSG00000276903|ENST00000613174|H2AC16;ENSG00000277075|ENST00000303910|H2AC8;ENSG00000278463|ENST00000615868|H2AC4;ENSG00000278677|ENST00000359611|H2AC17;nc|ENSG00000288859|Q6FI13|H2AC18;ENSG00000184260|ENST00000331380|H2AC20;ENSG00000246705|ENST00000544848|H2AJ;ENSG00000276368|ENST00000333151|H2AC14;ENSG00000164508|ENST00000297012|H2AC1;ENST00000479986.1_1_6:27858584-27860837:-|nuORF nc|ENSG00000246705|Q9BTM1-2|H2AJ nc|ENSG00000246705|Q9BTM1-2|H2AJ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.2446594238281 2 480.243264 958.471974 NaN NaN NaN NaN NaN NaN NaN 22.281 1 22.281 21.781 22.781 0 0 0 0 0.92256 1 9987 9987 10.824 1.4765 1 446 5255 356 356 441 441 -0.008922973501853448 AIRRALSRQVP 11 Unmodified _AIRRALSRQVP_ 0 0 0 REV__ENST00000481743.1_1_10:8095584-8097410:+|nuORF REV__ENST00000481743.1_1_10:8095584-8097410:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.92864990234375 3 422.929955 1265.76804 NaN NaN NaN NaN NaN NaN NaN 70.483 1 70.74 70.24 71.24 0.25642 0 0 0 1.005 1 32280 32280 1.9275 0 1 + 447 16707 357 357 442 442 0.1457836994813988 AIVARGHVF 9 Unmodified _AIVARGHVF_ 0 0 0 ENST00000372336.3_1_10:81145469-81145733:-|nuORF ENST00000372336.3_1_10:81145469-81145733:-|nuORF ENST00000372336.3_1_10:81145469-81145733:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2888488769531 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 64.805 1 65.054 64.554 65.554 0.24803 0 0 0 0.84134 1 29691 29691 7.9102 0 1 448 7335 358 358 443 443 0.07004903608185487 AIVARGHVF 9 Unmodified _AIVARGHVF_ 0 0 0 ENST00000372336.3_1_10:81145469-81145733:-|nuORF ENST00000372336.3_1_10:81145469-81145733:-|nuORF ENST00000372336.3_1_10:81145469-81145733:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.28802490234375 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 64.841 1 65.089 64.589 65.589 0.24803 0 0 0 0.72654 1 29707 29707 11.64 2.2929 1 449 7335 358 358 444 444 0.07004903608185487 AIVARGHVF 9 Unmodified _AIVARGHVF_ 0 0 0 ENST00000372336.3_1_10:81145469-81145733:-|nuORF ENST00000372336.3_1_10:81145469-81145733:-|nuORF ENST00000372336.3_1_10:81145469-81145733:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2867736816406 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 67.403 1 68.061 67.561 68.561 0.65777 0 0 0 0.89509 1 30897 30897 4.756 0.42677 1 450 7335 358 358 445 445 0.07004903608185487 AIVGLPFIRPV 11 Unmodified _AIVGLPFIRPV_ 0 0 0 REV__ENST00000540840.1_1_4:110925670-110933339:+|nuORF REV__ENST00000540840.1_1_4:110925670-110933339:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.9212341308594 3 394.585015 1180.73321 2.4199 0.00095487 1.4098 0.0005563 3.8298 0.0015112 394.5852130599172 47.023 0.56915 47.023 46.603 47.172 0 39 24 2 0 0 0 0.91068 1 21398 21398 1.3296 0.55311 1 873710 + 451 17215 359 359 446 446 0.15007734087498648 AIWADRQNRR 10 Unmodified _AIWADRQNRR_ 0 0 0 REV__nc|ENSG00000163170|Q53S33-2|BOLA3 REV__nc|ENSG00000163170|Q53S33-2|BOLA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 429.2350158691406 3 429.233927 1284.67995 2.2391 0.00096112 0.40755 0.00017494 2.6467 0.0011361 429.23402024528633 72.067 0.35622 72.771 72.509 72.865 0.70386 41 32 2 0 0 0 0.90216 1 34623 34623 3.5871 0.5148 1 1866500 + 452 16582 360 360 447 447 0.048997493575370754 AIWKLLVTIH 10 Unmodified _AIWKLLVTIH_ 0 0 0 ENSG00000082781|ENST00000296181|ITGB5 ENSG00000082781|ENST00000296181|ITGB5 ENSG00000082781|ENST00000296181|ITGB5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.5865173339844 3 398.585015 1192.73321 2.9025 0.0011569 0.45239 0.00018032 3.3549 0.0013372 398.58526608964803 45.453 0.89455 45.721 45.231 46.125 0.26768 76 36 3 0 0 0 0.93584 1 20915 20915 1.7423 1.7423 1 3602800 453 932 361 361 448 448 0.14455734087528072 AIYQNRLAL 9 Unmodified _AIYQNRLAL_ 0 0 0 Harlequin-int_dup218|chr6:31181866-31182438:-|2.116216060176825|0.3787525668952435|2.48|540.0|4|1|sense;Harlequin-int_dup17|chr1:46326040-46329561:-|10.003084288088008|0.3399966488246573|4.88|534.0|74|2|sense;Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|33|1|sense;Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|74|2|sense;chr1:206053265-206056227|484|20.65|0.57|5.17|+|0|TE_info:Harlequin-int,Harlequin-int_dup70,ERV1,LTR,acceptor,+,206056227,206058429|RHEX,None|32;chr1:206053265-206056224|491|26.43|0.74|5.17|+|0|TE_info:Harlequin-int,Harlequin-int_dup70,ERV1,LTR,acceptor,+,206056224,206058429|RHEX,None|33;chr1:206053265-206056179|473|27.28|0.64|5.42|+|0|TE_info:Harlequin-int,Harlequin-int_dup70,ERV1,LTR,acceptor,+,206056179,206058429|RHEX,None|33 Harlequin-int_dup218|chr6:31181866-31182438:-|2.116216060176825|0.3787525668952435|2.48|540.0|4|1|sense Harlequin-int_dup218|chr6:31181866-31182438:-|2.116216060176825|0.3787525668952435|2.48|540.0|4|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.3111572265625 2 531.308741 1060.60293 3.0447 0.0016177 0.1484 7.8846E-05 3.1931 0.0016965 531.308856855847 43.573 0.27252 43.843 43.677 43.949 0.27003 14 8 2 0 0 0 0.093314 1 19889 19889 38.151 9.6643 1 428770 454 124 362 362 449 449 0.07505138088504282 AKAEDVEKI 9 Unmodified _AKAEDVEKI_ 0 0 0 REV__ENST00000513666.5_1_5:96073558-96090478:+|nuORF REV__ENST00000513666.5_1_5:96073558-96090478:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.8556823730469 3 334.853718 1001.53933 2.3288 0.00077982 -0.19498 -6.5289E-05 2.1339 0.00071453 334.85465155546626 66.753 0.91362 67.41 66.864 67.778 0.65672 80 52 2 0 0 0 1.0894 1 30565 30565 2.4985 0.59211 1 711600 + 455 12668 363 363 450 450 0.038617328607642776 AKAKATKDKES 11 Unmodified _AKAKATKDKES_ 0 0 0 REV__ALAS1|p.V75A|1|0.22|ENSG00000023330|chr3:52202531-52202531|T/C|missense_variant REV__ALAS1|p.V75A|1|0.22|ENSG00000023330|chr3:52202531-52202531|T/C|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.9698486328125 2 588.832777 1175.651 NaN NaN NaN NaN NaN NaN NaN 74.746 1 75.41 74.91 75.91 0.6644 0 0 0 0.98464 1 34417 34417 8.1555 0 1 + 456 9938 364 364 451 451 0.07020167217865492 AKAKIRLK 8 Unmodified _AKAKIRLK_ 0 0 0 REV__ENSG00000165030|ENST00000297689|NFIL3 REV__ENSG00000165030|ENST00000297689|NFIL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.3266296386719 2 464.326737 926.63892 NaN NaN NaN NaN NaN NaN NaN 76.054 1 76.311 75.811 76.811 0.25704 0 0 0 0.99035 1 35011 35011 2.3027 0 1 + 457 13128 365 365 452 452 0.17266640056016058 AKAKLTKLK 9 Unmodified _AKAKLTKLK_ 0 0 0 nc|ENSG00000172493|P51825|AFF1;nc|ENSG00000172493|P51825-3|AFF1;ENSG00000172493|ENST00000395146|AFF1;ENST00000504956.5_1_4:87856214-87968836:+|nuORF nc|ENSG00000172493|P51825|AFF1 nc|ENSG00000172493|P51825|AFF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.8454284667969 2 500.847502 999.680451 NaN NaN NaN NaN NaN NaN NaN 74.789 1 74.789 74.289 75.289 0 0 0 0 0.87786 1 36593 36593 6.7232 2.7788 1 458 4874 366 366 453 453 0.1805977602467692 AKAKPKRLQEL 11 Unmodified _AKAKPKRLQEL_ 0 0 0 REV__ENST00000480873.1_1_2:165600108-165630227:-|nuORF REV__ENST00000480873.1_1_2:165600108-165630227:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.4041748046875 2 641.403704 1280.79285 NaN NaN NaN NaN NaN NaN NaN 76.346 1 76.346 75.846 76.846 0 0 0 0 0.95688 1 37412 37412 10.8 3.6978 1 + 459 16695 367 367 454 454 0.16369005030901462 AKAKPKRRAPA 11 Unmodified _AKAKPKRRAPA_ 0 0 0 REV__ENSG00000082438|ENST00000652658|COBLL1 REV__ENSG00000082438|ENST00000652658|COBLL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.955810546875 2 597.383106 1192.75166 NaN NaN NaN NaN NaN NaN NaN 63.96 1 63.96 63.46 64.46 0 0 0 0 1.0041 1 30185 30185 5.2969 1.7004 1 + 460 10617 368 368 455 455 0.16299288782079202 AKAKPRLDIN 10 Unmodified _AKAKPRLDIN_ 0 0 0 ENST00000487188.1_1_1:12371595-12395946:+|nuORF;ENST00000460333.5_1_1:12359354-12409038:+|nuORF;nc|ENSG00000048707|Q5THJ4-2|VPS13D;ENSG00000048707|ENST00000620676|VPS13D ENST00000487188.1_1_1:12371595-12395946:+|nuORF ENST00000487188.1_1_1:12371595-12395946:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.2930908203125 2 563.340572 1124.66659 NaN NaN NaN NaN NaN NaN NaN 69.703 1 69.703 69.203 70.203 0 0 0 0 0.95221 1 33703 33703 13.042 2.9685 1 461 570 369 369 456 456 0.10924498525628223 AKALGKARRKV 11 Unmodified _AKALGKARRKV_ 0 0 0 ENSG00000125522|ENST00000684052|NPBWR2 ENSG00000125522|ENST00000684052|NPBWR2 ENSG00000125522|ENST00000684052|NPBWR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 599.39697265625 2 599.398756 1196.78296 NaN NaN NaN NaN NaN NaN NaN 74.275 1 74.939 74.439 75.439 0.6644 0 0 0 1.0061 1 34185 34185 2.7352 0.89096 1 462 2404 370 370 457 457 0.19243861816130448 AKAMTEEQ 8 Unmodified _AKAMTEEQ_ 0 0 0 REV__ENST00000407797.6_2_5:131805888-131806068:+|nuORF REV__ENST00000407797.6_2_5:131805888-131806068:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.21429443359375 2 454.213117 906.411682 NaN NaN NaN NaN NaN NaN NaN 74.63 1 75.316 74.816 75.816 0.68662 0 0 0 0.95658 1 36071 36071 8.5933 0.68312 1 + 463 16081 371 371 458 458 -0.04526731004921203 AKAQIVLLV 9 Unmodified _AKAQIVLLV_ 0 0 0 nc|ENSG00000064651|P55011-3|SLC12A2;ENSG00000064651|ENST00000262461|SLC12A2 nc|ENSG00000064651|P55011-3|SLC12A2 nc|ENSG00000064651|P55011-3|SLC12A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 477.8226013183594 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 74.143 1 74.402 73.902 74.902 0.25876 0 0 0 0.86044 1 34082 34082 7.2892 2.0586 1 464 674 372 372 459 459 0.14868398242037983 AKAVPRRRRER 11 Unmodified _AKAVPRRRRER_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-3|WAPL REV__nc|ENSG00000062650|Q7Z5K2-3|WAPL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 697.798095703125 2 697.931817 1393.84908 NaN NaN NaN NaN NaN NaN NaN 71.7 1 72.404 71.904 72.904 0.70386 0 0 0 1.0063 1 34458 34458 2.4985 1.169 1 + 465 17862 373 373 460 460 0.16791070710905842 AKCAGKGK 8 Unmodified _AKCAGKGK_ 0 0 0 ENST00000560966.5_1_15:85191115-85191289:-|nuORF;ENST00000558608.1_1_15:85189295-85191289:-|nuORF;ENST00000559015.5_1_15:85186703-85191289:-|nuORF ENST00000560966.5_1_15:85191115-85191289:-|nuORF ENST00000560966.5_1_15:85191115-85191289:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.7201232910156 2 381.718173 761.421793 2.3638 0.00090231 1.4264 0.00054446 3.7902 0.0014468 381.718857126926 69.96 0.37019 70.621 70.452 70.822 0.66072 43 24 3 0 0 0 0.7471 2 32091 32091;32112 0 0 1 352020 466 8953 374 374 461;462 461 0.03153921510966029 AKDRRLEERRR 11 Unmodified _AKDRRLEERRR_ 0 0 0 ENSG00000251322|ENST00000262795|SHANK3;nc|ENSG00000251322|Q9BYB0-3|SHANK3;ENST00000414786.6_1_22:51113069-51169737:+|nuORF;nc|ENSG00000251322|Q9BYB0|SHANK3 ENSG00000251322|ENST00000262795|SHANK3 ENSG00000251322|ENST00000262795|SHANK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 742.9290161132812 2 742.929471 1483.84439 NaN NaN NaN NaN NaN NaN NaN 54.117 1 54.117 53.617 54.617 0 0 0 0 1.005 1 24817 24817 4.1895 1.1943 1 467 6267 375 375 463 463 0.12182141777475408 AKDVYRRYR 9 Unmodified _AKDVYRRYR_ 0 0 0 REV__ENST00000592259.1_1_19:12875564-12875981:-|nuORF REV__ENST00000592259.1_1_19:12875564-12875981:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.5628662109375 3 409.563273 1225.66799 NaN NaN NaN NaN NaN NaN NaN 64.891 1 65.6 65.1 66.1 0.70891 0 0 0 0.89451 1 30593 30593 4.897 2.1618 1 + 468 10757 376 376 464 464 0.06418132614339811 AKERKYLF 8 Unmodified _AKERKYLF_ 0 0 0 REV__nc|ENSG00000059122|Q4VC44-2|FLYWCH1 REV__nc|ENSG00000059122|Q4VC44-2|FLYWCH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.20745849609375 3 352.206315 1053.59712 2.732 0.00096224 1.0522 0.00037059 3.7842 0.0013328 352.20665807166836 54.679 0.33678 54.679 54.528 54.865 0 59 35 2 0 0 0 0.72814 1 25150 25150 3.5965 3.5965 1 1073700 + 469 10385 377 377 465 465 0.07246039576830299 AKERKYLF 8 Unmodified _AKERKYLF_ 0 0 0 REV__nc|ENSG00000059122|Q4VC44-2|FLYWCH1 REV__nc|ENSG00000059122|Q4VC44-2|FLYWCH1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 352.206315 1053.59712 2.1099 0.00074312 1.7272 0.00060833 3.8371 0.0013515 352.20695517431403 53.727 0.33304 54.531 54.456 54.79 0.80351 -0.074042 0.00036775 NaN 3.5965 27 15 2 NaN NaN NaN NaN 0 NaN NaN 0 630090 + 470 10385 377 377 0.07246039576830299 AKGASPTRKRL 11 Unmodified _AKGASPTRKRL_ 0 0 0 REV__nc|ENSG00000148773|P46013-2|MKI67 REV__nc|ENSG00000148773|P46013-2|MKI67 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 395.580078125 3 395.578923 1183.71494 NaN NaN NaN NaN NaN NaN NaN 11.369 1 11.369 10.869 11.869 0 0 0 0 1.0082 1 4966 4966 0.094841 0.094841 1 + 471 12549 378 378 466 466 0.13042992165514988 AKGRPRSGAGP 11 Unmodified _AKGRPRSGAGP_ 0 0 0 ENSG00000149639|ENST00000237536|SOGA1 ENSG00000149639|ENST00000237536|SOGA1 ENSG00000149639|ENST00000237536|SOGA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.3017578125 2 527.299239 1052.58392 NaN NaN NaN NaN NaN NaN NaN 53.39 1 54.194 53.694 54.694 0.80351 0 0 0 1.0061 1 24354 24354 2.7352 0 1 472 3652 379 379 467 467 0.05973601517462157 AKHRGPAA 8 Unmodified _AKHRGPAA_ 0 0 0 ENSG00000165312|ENST00000376495|OTUD1 ENSG00000165312|ENST00000376495|OTUD1 ENSG00000165312|ENST00000376495|OTUD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.2337646484375 2 404.232836 806.45112 2.0515 0.00082929 0.2066 8.3516E-05 2.2581 0.0009128 404.2328643501325 78.401 0.30901 78.866 78.696 79.005 0.4642 52 29 2 0 0 0 0.7471 1 38146 38146 0.79363 0.79363 1 3634600 473 4389 380 380 468 468 0.04015201851461825 AKIIPIIIIKL 11 Unmodified _AKIIPIIIIKL_ 0 0 0 REV__ENST00000377142.4_1_20:21494349-21494634:-|nuORF REV__ENST00000377142.4_1_20:21494349-21494634:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.9517211914062 2 617.946685 1233.87882 NaN NaN NaN NaN NaN NaN NaN 44.924 1 44.924 44.424 45.424 0 0 0 0 1.008 1 20541 20541 0.30703 0.30703 1 + 474 15832 381 381 469 469 0.2712319688371281 AKIIPIIIIKL 11 Unmodified _AKIIPIIIIKL_ 0 0 0 REV__ENST00000377142.4_1_20:21494349-21494634:-|nuORF REV__ENST00000377142.4_1_20:21494349-21494634:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 618.0298461914062 2 617.946685 1233.87882 NaN NaN NaN NaN NaN NaN NaN 86.47 1 86.5 86 87 0.030289 0 0 0 1.008 1 43523 43523 0.30703 0.30703 1 + 475 15832 381 381 470 470 0.2712319688371281 AKIKPAVKHL 10 Unmodified _AKIKPAVKHL_ 0 0 0 REV__ENSG00000128683|ENST00000358196|GAD1 REV__ENSG00000128683|ENST00000358196|GAD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.8673706054688 2 552.866226 1103.7179 NaN NaN NaN NaN NaN NaN NaN 65.567 1 66.276 65.776 66.776 0.70891 0 0 0 0.99812 1 31023 31023 3.2813 1.4371 1 + 476 11768 382 382 471 471 0.170188672903123 AKILLLLLILL 11 Unmodified _AKILLLLLILL_ 0 0 0 REV__CYP4A22|p.P83Qfs*23|1|0.12|ENSG00000162365|chr1:47140830-47140830|C/-|frameshift_variant REV__CYP4A22|p.P83Qfs*23|1|0.12|ENSG00000162365|chr1:47140830-47140830|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 618.8651123046875 2 618.456885 1234.89922 NaN NaN NaN NaN NaN NaN NaN 87.689 1 87.729 87.229 88.229 0.039955 0 0 0 1.008 1 44469 44469 0.30703 0.30703 1 + 477 10119 383 383 472 472 0.29116367543542765 AKILRKTV 8 Unmodified _AKILRKTV_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.82012939453125 2 464.818744 927.622936 NaN NaN NaN NaN NaN NaN NaN 13.61 1 14.258 13.758 14.758 0.6482 0 0 0 0.967 1 6115 6115 7.9102 0.62092 1 + 478 12747 384 384 473 473 0.1562293381912241 AKKAKKKRS 9 Unmodified _AKKAKKKRS_ 0 0 0 REV__ENSG00000072954|ENST00000187762|TMEM38A REV__ENSG00000072954|ENST00000187762|TMEM38A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.1970825195312 2 522.85365 1043.69275 NaN NaN NaN NaN NaN NaN NaN 62.986 1 63.709 63.209 64.209 0.72236 0 0 0 0.8984 1 29459 29459 3.9444 0.3479 1 + 479 10499 385 385 474 474 0.17264812487724157 AKKAPHIFG 9 Unmodified _AKKAPHIFG_ 0 0 0 REV__HYDIN|p.E4039A|1|0.25|ENSG00000157423|chr16:70860081-70860081|T/G|missense_variant REV__HYDIN|p.E4039A|1|0.25|ENSG00000157423|chr16:70860081-70860081|T/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.7303161621094 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 71.99 1 72.694 72.194 73.194 0.70386 0 0 0 0.77475 1 34614 34614 10.074 0.72649 1 + 480 17746 386 386 475 475 0.07525787750932977 AKKAPKEDVD 10 Unmodified _AKKAPKEDVD_ 0 0 0 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.7538452148438 2 550.800946 1099.58734 NaN NaN NaN NaN NaN NaN NaN 68.745 1 68.745 68.245 69.245 0 0 0 0 0.99026 1 33118 33118 11.495 2.1473 1 481 2962 387 387 476 476 0.041528067808030755 AKKAPQRAQ 9 Unmodified _AKKAPQRAQ_ 0 0 0 nc|ENSG00000164430|Q8N884-2|CGAS;ENSG00000164430|ENST00000370315|CGAS nc|ENSG00000164430|Q8N884-2|CGAS nc|ENSG00000164430|Q8N884-2|CGAS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.2975769042969 2 499.298707 996.582862 NaN NaN NaN NaN NaN NaN NaN 62.597 1 62.597 62.097 63.097 0 0 0 0 0.86044 1 29345 29345 7.2892 0 1 482 4314 388 388 477 477 0.08443387148554393 AKKAPVKLE 9 Unmodified _AKKAPVKLE_ 0 0 0 nc|ENSG00000186566|Q9UKJ3-2|GPATCH8;ENSG00000186566|ENST00000591680|GPATCH8 nc|ENSG00000186566|Q9UKJ3-2|GPATCH8 nc|ENSG00000186566|Q9UKJ3-2|GPATCH8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.4394226074219 2 492.316035 982.617516 NaN NaN NaN NaN NaN NaN NaN 70.032 1 70.032 69.532 70.532 0 0 0 0 0.65681 1 33913 33913 13.906 1.3745 1 483 5579 389 389 478 478 0.12551210236642873 AKKAQLRQKWR 11 Unmodified _AKKAQLRQKWR_ 0 0 0 REV__ENST00000426012.1_1_20:19789888-19790269:+|nuORF REV__ENST00000426012.1_1_20:19789888-19790269:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 706.9354858398438 2 706.933494 1411.85244 NaN NaN NaN NaN NaN NaN NaN 61.565 1 62.296 61.796 62.796 0.73077 0 0 0 1.0061 1 28571 28571 2.7352 1.2533 1 + 484 16212 390 390 479 479 0.16298320764917662 AKKARKRA 8 Unmodified _AKKARKRA_ 0 0 0 REV__ENSG00000072501|ENST00000322213|SMC1A REV__ENSG00000072501|ENST00000322213|SMC1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.849853515625 2 464.811785 927.609017 NaN NaN NaN NaN NaN NaN NaN 68.717 1 68.717 68.217 69.217 0 0 0 0 0.95658 1 33103 33103 8.5933 1.304 1 + 485 10491 391 391 480 480 0.1423170111069112 AKKARRRKQP 10 Unmodified _AKKARRRKQP_ 0 0 0 REV__ENST00000536689.5_1_19:10664629-10668377:-|nuORF REV__ENST00000536689.5_1_19:10664629-10668377:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.0496826171875 2 619.899454 1237.78436 NaN NaN NaN NaN NaN NaN NaN 35.092 1 35.884 35.384 36.384 0.79131 0 0 0 1.0003 1 15902 15902 1.4819 0.15237 1 + 486 11785 392 392 481 481 0.1749749590492229 AKKAVLKAVH 10 Unmodified _AKKAVLKAVH_ 0 0 0 ENST00000448062.1_1_2:222909560-222909710:-|nuORF ENST00000448062.1_1_2:222909560-222909710:-|nuORF ENST00000448062.1_1_2:222909560-222909710:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 532.9560546875 2 532.850576 1063.6866 NaN NaN NaN NaN NaN NaN NaN 67.266 1 67.968 67.468 68.468 0.70218 0 0 0 0.9952 1 31949 31949 5.7319 1.7875 1 487 7992 393 393 482 482 0.15730294256240995 AKKDKNIRKIY 11 Unmodified _AKKDKNIRKIY_ 0 0 0 ENST00000340524.9_1_3:190986104-190993073:-|nuORF ENST00000340524.9_1_3:190986104-190993073:-|nuORF ENST00000340524.9_1_3:190986104-190993073:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 459.4613037109375 3 459.617266 1375.82997 NaN NaN NaN NaN NaN NaN NaN 62.899 1 63.621 63.121 64.121 0.72236 0 0 0 1.0063 1 29407 29407 2.2527 1.7468 1 488 7064 394 394 483 483 0.15708676576673497 AKKDLVEVLP 10 Unmodified _AKKDLVEVLP_ 0 0 0 nc|ENSG00000163673|Q9C098|DCLK3;ENSG00000163673|ENST00000636136|DCLK3 nc|ENSG00000163673|Q9C098|DCLK3 nc|ENSG00000163673|Q9C098|DCLK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 556.34033203125 2 556.339707 1110.66486 NaN NaN NaN NaN NaN NaN NaN 78.839 1 79.303 78.803 79.803 0.4642 0 0 0 0.99464 1 38390 38390 6.2058 0 1 489 4240 395 395 484 484 0.11395444716981729 AKKEKKVS 8 Unmodified _AKKEKKVS_ 0 0 0 ENSG00000265972|ENST00000582401|TXNIP;nc|ENSG00000265972|Q9H3M7-2|TXNIP;ENST00000488537.1_1_1:145439826-145440208:+|nuORF ENSG00000265972|ENST00000582401|TXNIP ENSG00000265972|ENST00000582401|TXNIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 459.27197265625 2 459.292559 916.570566 NaN NaN NaN NaN NaN NaN NaN 63.879 1 63.879 63.379 64.379 0 0 0 0 0.967 1 30133 30133 7.9102 1.7044 1 490 6321 396 396 485 485 0.10894350685521204 AKKGSKPLRVK 11 Unmodified _AKKGSKPLRVK_ 0 0 0 nc|ENSG00000118965|Q9P2L0|WDR35;ENSG00000118965|ENST00000281405|WDR35;ENST00000445063.5_1_2:20113365-20153734:-|nuORF nc|ENSG00000118965|Q9P2L0|WDR35 nc|ENSG00000118965|Q9P2L0|WDR35 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 606.4022827148438 2 606.400964 1210.78738 NaN NaN NaN NaN NaN NaN NaN 73.263 1 73.522 73.022 74.022 0.25876 0 0 0 1.0044 1 33647 33647 4.897 0.95262 1 491 2128 397 397 486 486 0.19041326239062073 AKKGWRLNKIR 11 Unmodified _AKKGWRLNKIR_ 0 0 0 REV__ENST00000476195.5_1_1:78050477-78050609:-|nuORF REV__ENST00000476195.5_1_1:78050477-78050609:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.430419921875 2 685.430587 1368.84662 NaN NaN NaN NaN NaN NaN NaN 62.803 1 62.803 62.303 63.303 0 0 0 0 1.0061 1 29461 29461 2.7352 0 1 + 492 16651 398 398 487 487 0.17695222253246357 AKKIEQWHPLF 11 Unmodified _AKKIEQWHPLF_ 0 0 0 REV__ENST00000498115.1_1_1:228336272-228336395:+|nuORF REV__ENST00000498115.1_1_1:228336272-228336395:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 698.8902587890625 2 698.890429 1395.76631 NaN NaN NaN NaN NaN NaN NaN 104.63 1 105.23 104.73 105.73 0.59885 0 0 0 1.008 1 48331 48331 0.35063 0.043601 1 + 493 16866 399 399 488 488 0.08425316139550887 AKKIILIKKK 10 Unmodified _AKKIILIKKK_ 0 0 0 ENST00000438469.2_1_1:146553889-146554591:-|nuORF ENST00000438469.2_1_1:146553889-146554591:-|nuORF ENST00000438469.2_1_1:146553889-146554591:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 591.9362182617188 2 591.936651 1181.85875 NaN NaN NaN NaN NaN NaN NaN 72.644 1 73.308 72.808 73.808 0.66398 0 0 0 1.0004 1 33335 33335 1.3295 0 1 494 7918 400 400 489 489 0.2750944594372413 AKKKILFKV 9 Unmodified _AKKKILFKV_ 0 0 0 REV__ENSG00000222036|ENST00000547889|POTEM;REV__nc|ENSG00000188877|Q6S8J7-2|POTEA REV__ENSG00000222036|ENST00000547889|POTEM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.8733520507812 2 537.87352 1073.73249 NaN NaN NaN NaN NaN NaN NaN 90.68 1 90.755 90.255 91.255 0.075279 0 0 0 0.91238 1 46786 46786 0.52476 0 1 + 495 14101;18086 401 401 490 490 0.19856939438454901 AKKKKKKKKL 10 Unmodified _AKKKKKKKKL_ 0 0 0 REV__AluSz_dup100734|chr21:42594283-42594606:-|1.2254318376354785|0.0495699698250003|4.63|532.0|9|2|sense;REV__ENST00000522197.1_1_8:122652185-122654912:+|nuORF REV__AluSz_dup100734|chr21:42594283-42594606:-|1.2254318376354785|0.0495699698250003|4.63|532.0|9|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.4514770507812 2 614.453 1226.89145 NaN NaN NaN NaN NaN NaN NaN 74.654 1 74.654 74.154 75.154 0 0 0 0 1.0003 1 36486 36486 1.4819 0 1 + 496 9954;17001 402 402 491 491 0.28707653066589955 AKKKKKKKKLQ 11 Unmodified _AKKKKKKKKLQ_ 0 0 0 REV__AluSz_dup100734|chr21:42594283-42594606:-|1.2254318376354785|0.0495699698250003|4.63|532.0|9|2|sense REV__AluSz_dup100734|chr21:42594283-42594606:-|1.2254318376354785|0.0495699698250003|4.63|532.0|9|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 678.3823852539062 2 678.482289 1354.95002 NaN NaN NaN NaN NaN NaN NaN 19.73 1 20.023 19.523 20.523 0.29239 0 0 0 1.0082 1 8978 8978 0 0 1 + 497 9954 403 403 492 492 0.2867470964108634 AKKKKKKQKRK 11 Unmodified _AKKKKKKQKRK_ 0 0 0 ENSG00000152465|ENST00000378165|NMT2;NMT2|p.K466Nfs*6|1|0.2|ENSG00000152465|chr10:15109780-15109780|T/-|frameshift_variant;ENST00000378150.1_1_10:15177331-15210611:-|nuORF ENSG00000152465|ENST00000378165|NMT2 ENSG00000152465|ENST00000378165|NMT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.9954528808594 3 466.9963 1397.96707 NaN NaN NaN NaN NaN NaN NaN 64.05 1 64.765 64.265 65.265 0.71521 0 0 0 1.0079 1 30115 30115 0.40827 0 1 498 3748 404 404 493 493 0.2840063024684696 AKKKKKKS 8 Unmodified _AKKKKKKS_ 0 0 0 nc|ENSG00000134369|Q8NEY1-5|NAV1;nc|ENSG00000134369|Q8NEY1-7|NAV1;nc|ENSG00000134369|Q8NEY1-4|NAV1;nc|ENSG00000134369|Q8NEY1-2|NAV1;nc|ENSG00000134369|Q8NEY1-3|NAV1;nc|ENSG00000134369|Q8NEY1|NAV1;ENSG00000134369|ENST00000685211|NAV1;ENST00000205636.3_1_3:32524128-32524239:-|nuORF nc|ENSG00000134369|Q8NEY1-5|NAV1;ENST00000205636.3_1_3:32524128-32524239:-|nuORF nc|ENSG00000134369|Q8NEY1-5|NAV1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.3308410644531 2 473.332019 944.649485 NaN NaN NaN NaN NaN NaN NaN 62.584 1 62.584 62.084 63.084 0 0 0 0 0.99035 1 29338 29338 2.3027 1.6124 1 499 2806;6391 405 405 494 494 0.17494622710466956 AKKKKKSV 8 Unmodified _AKKKKKSV_ 0 0 0 ENST00000418609.5_1_4:186508297-186508507:-|nuORF ENST00000418609.5_1_4:186508297-186508507:-|nuORF ENST00000418609.5_1_4:186508297-186508507:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 458.7366027832031 2 458.818744 915.622936 NaN NaN NaN NaN NaN NaN NaN 64.214 1 64.214 63.714 64.714 0 0 0 0 0.99035 1 30372 30372 2.3027 0.24298 1 500 7734 406 406 495 495 0.1617493381913846 AKKKKRRRLKR 11 Unmodified _AKKKKRRRLKR_ 0 0 0 REV__ENST00000530731.5_1_11:124495676-124501136:+|nuORF REV__ENST00000530731.5_1_11:124495676-124501136:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 734.514892578125 2 734.512777 1467.011 NaN NaN NaN NaN NaN NaN NaN 65.841 1 65.841 65.341 66.341 0 0 0 0 1.0073 1 31382 31382 1.1933 1.1933 1 + 501 17136 407 407 496 496 0.2961765946383821 AKKKKTKA 8 Unmodified _AKKKKTKA_ 0 0 0 REV__ENST00000488602.1_1_22:39925499-39925935:-|nuORF REV__ENST00000488602.1_1_22:39925499-39925935:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.8494567871094 2 451.810919 901.607286 NaN NaN NaN NaN NaN NaN NaN 63.581 1 64.304 63.804 64.804 0.72236 0 0 0 0.99035 1 29799 29799 2.3027 0 1 + 502 14083 408 408 497 497 0.15254647302072044 AKKKKVSK 8 Unmodified _AKKKKVSK_ 0 0 0 nc|ENSG00000182732|P49758-6|RGS6;nc|ENSG00000182732|P49758-5|RGS6 nc|ENSG00000182732|P49758-6|RGS6 nc|ENSG00000182732|P49758-6|RGS6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 458.8186340332031 2 458.818744 915.622936 NaN NaN NaN NaN NaN NaN NaN 64.22 1 64.22 63.72 64.72 0 0 0 0 0.99035 1 30377 30377 2.3027 0 1 503 9774 409 409 498 498 0.1617493381913846 AKKKLKKRR 9 Unmodified _AKKKLKKRR_ 0 0 0 ENST00000502422.5_1_5:138651717-138665081:+|nuORF ENST00000502422.5_1_5:138651717-138665081:+|nuORF ENST00000502422.5_1_5:138651717-138665081:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.4116821289062 2 578.411666 1154.80878 NaN NaN NaN NaN NaN NaN NaN 71.896 1 72.154 71.654 72.654 0.25786 0 0 0 0.90699 1 32987 32987 1.8442 0.36234 1 504 8478 410 410 499 499 0.23756756058446626 AKKKLKKRRFP 11 Unmodified _AKKKLKKRRFP_ 0 0 0 ENST00000502422.5_1_5:138651717-138665081:+|nuORF ENST00000502422.5_1_5:138651717-138665081:+|nuORF ENST00000502422.5_1_5:138651717-138665081:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 700.835693359375 2 700.472255 1398.92996 NaN NaN NaN NaN NaN NaN NaN 78.117 1 78.678 78.178 79.178 0.56091 0 0 0 1.0073 1 37939 37939 1.1933 0 1 505 8478 411 411 500 500 0.2464495870110568 AKKKRILINRR 11 Unmodified _AKKKRILINRR_ 0 0 0 REV__ENST00000361673.3_1_18:56247268-56247712:-|nuORF REV__ENST00000361673.3_1_18:56247268-56247712:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.8021240234375 3 465.984283 1394.93102 NaN NaN NaN NaN NaN NaN NaN 64.483 1 65.198 64.698 65.698 0.71521 0 0 0 1.0079 1 30383 30383 0.40827 0.26837 1 + 506 15627 412 412 501 501 0.24935173070025485 AKKKRILINRR 11 Unmodified _AKKKRILINRR_ 0 0 0 REV__ENST00000361673.3_1_18:56247268-56247712:-|nuORF REV__ENST00000361673.3_1_18:56247268-56247712:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 697.9868774414062 2 698.472786 1394.93102 NaN NaN NaN NaN NaN NaN NaN 82.202 1 82.286 81.786 82.786 0.084106 0 0 0 1.0082 1 40555 40555 0.30703 0 1 + 507 15627 412 412 502 502 0.24935173070025485 AKKLKKLF 8 Unmodified _AKKLKKLF_ 0 0 0 nc|ENSG00000110619|P49589|CARS1;ENST00000531387.5_1_11:3022346-3069017:-|nuORF;ENSG00000110619|ENST00000380525|CARS1;ENST00000526890.5_1_11:3022346-3038536:-|nuORF nc|ENSG00000110619|P49589|CARS1 nc|ENSG00000110619|P49589|CARS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.09649658203125 2 488.339313 974.664072 NaN NaN NaN NaN NaN NaN NaN 73.934 1 74.598 74.098 75.098 0.6644 0 0 0 0.99035 1 34019 34019 2.3027 0 1 508 1721 413 413 503 503 0.17572694858586146 AKKLNVQKWA 10 Unmodified _AKKLNVQKWA_ 0 0 0 REV__nc|ENSG00000197321|O95425-2|SVIL REV__nc|ENSG00000197321|O95425-2|SVIL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.36328125 2 593.358765 1184.70298 NaN NaN NaN NaN NaN NaN NaN 62.059 1 62.059 61.559 62.559 0 0 0 0 0.95221 1 29042 29042 13.042 1.4022 1 + 509 14271 414 414 504 504 0.11801375422351157 AKKMIPQPK 9 Unmodified _AKKMIPQPK_ 0 0 0 REV__ENST00000594723.1_1_19:49136676-49136928:-|nuORF REV__ENST00000594723.1_1_19:49136676-49136928:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 347.5472106933594 3 347.547684 1039.62122 2.0087 0.00069813 -1.6185 -0.0005625 0.39024 0.00013563 347.5468080039342 55.422 0.41682 56.209 55.871 56.288 0.78711 76 32 3 0 0 0 0.96953 1 25308 25308 4.5289 2.0304 1 1961800 + 510 11039 415 415 505 505 0.1029955673884615 AKKMIPQPK 9 Unmodified _AKKMIPQPK_ 0 0 0 REV__ENST00000594723.1_1_19:49136676-49136928:-|nuORF REV__ENST00000594723.1_1_19:49136676-49136928:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.5478820800781 3 347.547684 1039.62122 2.4088 0.00083717 -0.99604 -0.00034617 1.4127 0.000491 347.5471239250321 55.269 0.38958 55.937 55.647 56.036 0.66798 40 14 3 0 0 0 1.0894 1 25290 25290 2.4985 1.427 1 1989900 + 511 11039 415 415 506 506 0.1029955673884615 AKKMIPQPK 9 Unmodified _AKKMIPQPK_ 0 0 0 REV__ENST00000594723.1_1_19:49136676-49136928:-|nuORF REV__ENST00000594723.1_1_19:49136676-49136928:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 347.547684 1039.62122 2.4018 0.00083473 -1.5707 -0.00054589 0.83108 0.00028884 347.54699994179805 56.267 0.36935 56.267 56.013 56.382 0 -4.1414E-05 -3.5256E-05 NaN 4.5289 76 30 3 NaN NaN NaN NaN 0 NaN NaN 0 1869000 + 512 11039 415 415 0.1029955673884615 AKKMIPQPK 9 Unmodified _AKKMIPQPK_ 0 0 0 REV__ENST00000594723.1_1_19:49136676-49136928:-|nuORF REV__ENST00000594723.1_1_19:49136676-49136928:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 347.547684 1039.62122 2.0087 0.00069813 -1.6185 -0.0005625 0.39024 0.00013563 347.5468080039342 55.422 0.41682 56.209 55.871 56.288 0.78711 -0.057839 -8.5092E-05 NaN 4.5289 76 32 3 NaN NaN NaN NaN 0 NaN NaN 0 1961800 + 513 11039 415 415 0.1029955673884615 AKKNKKKRKK 10 Unmodified _AKKNKKKRKK_ 0 0 0 nc|ENSG00000072415|Q8N3R9-2|PALS1;ENSG00000072415|ENST00000261681|PALS1 nc|ENSG00000072415|Q8N3R9-2|PALS1 nc|ENSG00000072415|Q8N3R9-2|PALS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 628.7659912109375 2 628.935506 1255.85646 NaN NaN NaN NaN NaN NaN NaN 60.841 1 61.58 61.08 62.08 0.7396 0 0 0 1.0003 1 28138 28138 1.4819 0.28856 1 514 791 416 416 507 507 0.23876410258640135 AKKPAAAAGAK 11 Unmodified _AKKPAAAAGAK_ 0 0 0 ENSG00000168298|ENST00000304218|H1-4 ENSG00000168298|ENST00000304218|H1-4 ENSG00000168298|ENST00000304218|H1-4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.2532653808594 2 492.303458 982.592364 NaN NaN NaN NaN NaN NaN NaN 69.229 1 69.932 69.432 70.432 0.70218 0 0 0 0.96369 1 33116 33116 10.151 0.76745 1 515 4619 417 417 508 508 0.10037155434065426 AKKPAKCTHVD 11 Unmodified _AKKPAKCTHVD_ 0 0 0 REV__nc|ENSG00000134245|Q93097-2|WNT2B REV__nc|ENSG00000134245|Q93097-2|WNT2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 599.4225463867188 2 599.324065 1196.63358 NaN NaN NaN NaN NaN NaN NaN 62.466 1 63.197 62.697 63.697 0.73077 0 0 0 0.99038 1 29122 29122 7.609 0.88579 1 + 516 11957 418 418 509 509 0.04312548411235184 AKKPKALQH 9 Unmodified _AKKPKALQH_ 0 0 0 nc|ENSG00000153827|Q14669|TRIP12;nc|ENSG00000153827|Q14669-2|TRIP12;nc|ENSG00000153827|Q14669-3|TRIP12;ENSG00000153827|ENST00000675903|TRIP12;TRIP12|p.I1368Yfs*4|1|0.34|ENSG00000153827|chr2:229791954-229791955|-/A|frameshift_variant;ENST00000479037.5_1_2:230672327-230744801:-|nuORF nc|ENSG00000153827|Q14669|TRIP12 nc|ENSG00000153827|Q14669|TRIP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.8197326660156 2 510.819276 1019.624 NaN NaN NaN NaN NaN NaN NaN 62.725 1 62.725 62.225 63.225 0 0 0 0 0.88072 1 29417 29417 10.074 5.3179 1 517 3792 419 419 510 510 0.11497148188038864 AKKPKALQHTE 11 Unmodified _AKKPKALQHTE_ 0 0 0 nc|ENSG00000153827|Q14669|TRIP12;nc|ENSG00000153827|Q14669-2|TRIP12;nc|ENSG00000153827|Q14669-3|TRIP12;ENSG00000153827|ENST00000675903|TRIP12;TRIP12|p.I1368Yfs*4|1|0.34|ENSG00000153827|chr2:229791954-229791955|-/A|frameshift_variant;ENST00000479037.5_1_2:230672327-230744801:-|nuORF nc|ENSG00000153827|Q14669|TRIP12 nc|ENSG00000153827|Q14669|TRIP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 625.8617553710938 2 625.864412 1249.71427 NaN NaN NaN NaN NaN NaN NaN 64.586 1 65.301 64.801 65.801 0.71521 0 0 0 0.99038 1 30433 30433 7.609 0.88579 1 518 3792 420 420 511 511 0.09940152725812368 AKKPKHVA 8 Unmodified _AKKPKHVA_ 0 0 0 ENST00000606851.5_1_6:22020665-22056887:+|nuORF ENST00000606851.5_1_6:22020665-22056887:+|nuORF ENST00000606851.5_1_6:22020665-22056887:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 439.78045654296875 2 439.782162 877.549771 NaN NaN NaN NaN NaN NaN NaN 61.612 1 61.612 61.112 62.112 0 0 0 0 0.89651 1 28757 28757 12.532 7.3009 1 519 9329 421 421 512 512 0.10609805096510172 AKKPKHVALP 10 Unmodified _AKKPKHVALP_ 0 0 0 ENST00000606851.5_1_6:22020665-22056887:+|nuORF ENST00000606851.5_1_6:22020665-22056887:+|nuORF ENST00000606851.5_1_6:22020665-22056887:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.8511962890625 2 544.850576 1087.6866 NaN NaN NaN NaN NaN NaN NaN 62.35 1 62.35 61.85 62.85 0 0 0 0 0.9952 1 29211 29211 5.7319 1.4026 1 520 9329 422 422 513 513 0.14626294256208894 AKKPKPKKV 9 Unmodified _AKKPKPKKV_ 0 0 0 ENSG00000111642|ENST00000544040|CHD4;nc|ENSG00000111642|Q14839-2|CHD4 ENSG00000111642|ENST00000544040|CHD4 ENSG00000111642|ENST00000544040|CHD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.100830078125 2 512.355494 1022.69644 NaN NaN NaN NaN NaN NaN NaN 74.77 1 74.77 74.27 75.27 0 0 0 0 0.87786 1 36579 36579 6.7232 0.51738 1 521 1767 423 423 514 514 0.1859948226160668 AKKPKWDDFKK 11 Unmodified _AKKPKWDDFKK_ 0 0 0 ENSG00000080608|ENST00000397885|PUM3 ENSG00000080608|ENST00000397885|PUM3 ENSG00000080608|ENST00000397885|PUM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 695.896240234375 2 695.895712 1389.77687 NaN NaN NaN NaN NaN NaN NaN 74.276 1 74.534 74.034 75.034 0.25831 0 0 0 1.0061 1 34151 34151 2.7352 0 1 522 910 424 424 515 515 0.09757298793965674 AKKPVRSM 8 Unmodified _AKKPVRSM_ 0 0 0 ENSG00000182934|ENST00000332118|SRPRA;nc|ENSG00000182934|P08240-2|SRPRA ENSG00000182934|ENST00000332118|SRPRA ENSG00000182934|ENST00000332118|SRPRA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 458.79718017578125 2 458.77348 915.532406 NaN NaN NaN NaN NaN NaN NaN 71.894 1 72.597 72.097 73.097 0.70386 0 0 0 0.99035 1 34563 34563 4.756 0 1 523 5356 425 425 516 516 0.07126141499202276 AKKREVSYYF 10 Unmodified _AKKREVSYYF_ 0 0 0 nc|ENSG00000109572|P51790-4|CLCN3 nc|ENSG00000109572|P51790-4|CLCN3 nc|ENSG00000109572|P51790-4|CLCN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 646.3287353515625 2 645.845687 1289.67682 NaN NaN NaN NaN NaN NaN NaN 64.147 1 64.862 64.362 65.362 0.71521 0 0 0 0.9962 1 30185 30185 4.897 1.3005 1 524 9591 426 426 517 517 0.04357061460177647 AKKRLKVIL 9 Unmodified _AKKRLKVIL_ 0 0 0 REV__ENST00000342992.10_3_2:179494164-179495619:-|nuORF REV__ENST00000342992.10_3_2:179494164-179495619:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 534.8229370117188 2 534.884419 1067.75428 NaN NaN NaN NaN NaN NaN NaN 73.488 1 74.152 73.652 74.652 0.66398 0 0 0 0.90699 1 33773 33773 1.8442 0.19162 1 + 525 15481 427 427 518 518 0.22311744187027216 AKKRPRLKDRW 11 Unmodified _AKKRPRLKDRW_ 0 0 0 REV__ENST00000517360.1_1_5:171471888-171480055:-|nuORF REV__ENST00000517360.1_1_5:171471888-171480055:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 727.445068359375 2 727.446769 1452.87898 NaN NaN NaN NaN NaN NaN NaN 73.106 1 73.106 72.606 73.606 0 0 0 0 1.0063 1 35600 35600 2.4985 1.169 1 + 526 10496 428 428 519 519 0.17066009656264214 AKKRRLRHIR 10 Unmodified _AKKRRLRHIR_ 0 0 0 REV__ENSG00000066735|ENST00000423312|KIF26A REV__ENSG00000066735|ENST00000423312|KIF26A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 667.4447021484375 2 667.441821 1332.86909 NaN NaN NaN NaN NaN NaN NaN 100.31 1 100.62 100.12 101.12 0.30835 0 0 0 1.0015 1 46398 46398 0.40072 0.050084 1 + 527 10443 429 429 520 520 0.2159686644154135 AKKRRQFLIK 10 Unmodified _AKKRRQFLIK_ 0 0 0 ENSG00000253797|ENST00000521776|UTP14C ENSG00000253797|ENST00000521776|UTP14C ENSG00000253797|ENST00000521776|UTP14C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 644.328125 2 644.422231 1286.82991 NaN NaN NaN NaN NaN NaN NaN 73.242 1 73.905 73.405 74.405 0.66398 0 0 0 0.9952 1 33650 33650 5.7319 2.4505 1 528 6273 430 430 521 521 0.19796721367310965 AKKRVLRKA 9 Unmodified _AKKRVLRKA_ 0 0 0 nc|ENSG00000101161|O94906-2|PRPF6;ENSG00000101161|ENST00000266079|PRPF6 nc|ENSG00000101161|O94906-2|PRPF6 nc|ENSG00000101161|O94906-2|PRPF6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 535.371337890625 2 535.369467 1068.72438 NaN NaN NaN NaN NaN NaN NaN 73.576 1 74.275 73.775 74.775 0.69881 0 0 0 0.90699 1 35493 35493 1.8442 0 1 529 1266 431 431 522 522 0.19276805241702277 AKKSKFILLHF 11 Unmodified _AKKSKFILLHF_ 0 0 0 ENST00000452398.5_1_3:19388190-19491848:+|nuORF;ENSG00000183960|ENST00000328405|KCNH8 ENST00000452398.5_1_3:19388190-19491848:+|nuORF ENST00000452398.5_1_3:19388190-19491848:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 444.6127624511719 3 444.611452 1330.81253 NaN NaN NaN NaN NaN NaN NaN 67.82 1 67.82 67.32 68.32 0 0 0 0 1.0072 1 32586 32586 0.45452 0.046251 1 530 5415 432 432 523 523 0.16035381041660912 AKKTRVSDP 9 Unmodified _AKKTRVSDP_ 0 0 0 nc|ENSG00000070814|Q13428-2|TCOF1;nc|ENSG00000070814|Q13428-8|TCOF1;nc|ENSG00000070814|Q13428-6|TCOF1;nc|ENSG00000070814|Q13428-7|TCOF1;nc|ENSG00000070814|Q13428|TCOF1;ENSG00000070814|ENST00000643257|TCOF1;nc|ENSG00000070814|Q13428-4|TCOF1;nc|ENSG00000070814|Q13428-5|TCOF1;TCOF1|p.K1138Qfs*4|1|0.2|ENSG00000070814|chr5:150392068-150392069|-/C|frameshift_variant nc|ENSG00000070814|Q13428-2|TCOF1 nc|ENSG00000070814|Q13428-2|TCOF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.2920227050781 2 501.290548 1000.56654 3.0512 0.0015295 0.63904 0.00032035 3.6902 0.0018499 501.2907932816766 78.748 1.673 78.999 78.211 79.884 0.25127 201 105 2 0 0 0 1.0041 1 36311 36311 3.9444 1.3669 1 1159000 531 772 433 433 524 524 0.06628261191792717 AKKYIHWEQRY 11 Unmodified _AKKYIHWEQRY_ 0 0 0 L1MC5a_dup6065|chr6:25834759-25835527:-|3.3305081510680705|0.0722535869421422|5.53|514.0|20|3|sense L1MC5a_dup6065|chr6:25834759-25835527:-|3.3305081510680705|0.0722535869421422|5.53|514.0|20|3|sense L1MC5a_dup6065|chr6:25834759-25835527:-|3.3305081510680705|0.0722535869421422|5.53|514.0|20|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.9371337890625 3 507.936887 1520.78883 3.5089 0.0017823 -2.3057 -0.0011711 1.2033 0.00061119 507.93540147964677 106.01 0.13963 106.61 106.52 106.66 0.59969 10 5 2 0 0 0 0.91359 1 48968 48968 0.40827 0.31342 1 945910 532 9442 434 434 525 525 0.049269155371575835 AKKYIHWEQRY 11 Unmodified _AKKYIHWEQRY_ 0 0 0 L1MC5a_dup6065|chr6:25834759-25835527:-|3.3305081510680705|0.0722535869421422|5.53|514.0|20|3|sense L1MC5a_dup6065|chr6:25834759-25835527:-|3.3305081510680705|0.0722535869421422|5.53|514.0|20|3|sense L1MC5a_dup6065|chr6:25834759-25835527:-|3.3305081510680705|0.0722535869421422|5.53|514.0|20|3|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 507.936887 1520.78883 4.1154 0.0020904 -3.2685 -0.0016602 0.8469 0.00043017 507.93516613107465 106.03 0.1721 106.35 106.24 106.41 0.31628 -0.13085 -0.00026631 NaN 0.40827 14 6 3 NaN NaN NaN NaN 0 NaN NaN 0 876030 533 9442 434 434 0.049269155371575835 AKLARRRKKLK 11 Unmodified _AKLARRRKKLK_ 0 0 0 REV__ENST00000477040.1_1_1:36921391-36921985:-|nuORF REV__ENST00000477040.1_1_1:36921391-36921985:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 684.7195434570312 2 684.475329 1366.93611 NaN NaN NaN NaN NaN NaN NaN 105.98 1 106.3 105.8 106.8 0.31628 0 0 0 1.0072 1 48917 48917 1.3295 0.9789 1 + 534 11425 435 435 526 526 0.2673147693262763 AKLCLSLMSQ 10 Unmodified _AKLCLSLMSQ_ 0 0 0 nc|ENSG00000068878|Q14997-3|PSME4;nc|ENSG00000068878|Q14997-2|PSME4;ENSG00000068878|ENST00000404125|PSME4 nc|ENSG00000068878|Q14997-3|PSME4 nc|ENSG00000068878|Q14997-3|PSME4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.19677734375 3 365.196322 1092.56714 NaN NaN NaN NaN NaN NaN NaN 69.211 1 69.872 69.372 70.372 0.66071 0 0 0 0.99846 1 31726 31726 1.4551 0.26178 1 535 741 436 436 527 527 0.024555965249874134 AKLLAKYKS 9 Unmodified _AKLLAKYKS_ 0 0 0 ENST00000561014.1_1_15:49531438-49610381:+|nuORF;ENST00000560119.5_1_15:49527865-49611209:+|nuORF;nc|ENSG00000156958|Q01415-2|GALK2;ENSG00000156958|ENST00000560031|GALK2 ENST00000561014.1_1_15:49531438-49610381:+|nuORF ENST00000561014.1_1_15:49531438-49610381:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.3243408203125 2 511.32386 1020.63317 NaN NaN NaN NaN NaN NaN NaN 89.951 1 89.951 89.451 90.451 0 0 0 0 0.88916 1 47132 47132 6.2058 0.9089 1 536 3932 437 437 528 528 0.12367496753711293 AKLLALVKH 9 Unmodified _AKLLALVKH_ 0 0 0 ENSG00000163960|ENST00000296328|UBXN7 ENSG00000163960|ENST00000296328|UBXN7 ENSG00000163960|ENST00000296328|UBXN7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.3683776855469 2 496.834394 991.654236 NaN NaN NaN NaN NaN NaN NaN 76.603 1 76.603 76.103 77.103 0 0 0 0 0.8984 1 37545 37545 3.9444 1.3669 1 537 4269 438 438 529 529 0.15807506853229825 AKLLALVKH 9 Unmodified _AKLLALVKH_ 0 0 0 ENSG00000163960|ENST00000296328|UBXN7 ENSG00000163960|ENST00000296328|UBXN7 ENSG00000163960|ENST00000296328|UBXN7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.9502258300781 2 496.834394 991.654236 NaN NaN NaN NaN NaN NaN NaN 74.705 1 75.37 74.87 75.87 0.6644 0 0 0 0.8984 1 34397 34397 3.9444 1.6417 1 538 4269 438 438 530 530 0.15807506853229825 AKLQSTFS 8 Unmodified _AKLQSTFS_ 0 0 0 REV__ENSG00000113504|ENST00000264930|SLC12A7 REV__ENSG00000113504|ENST00000264930|SLC12A7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.24176025390625 2 441.239993 880.465432 NaN NaN NaN NaN NaN NaN NaN 90.619 1 91.291 90.791 91.791 0.67271 0 0 0 0.99035 1 41708 41708 2.3027 0 1 + 539 11300 439 439 531 531 0.02041809489105617 AKLRKTLKRRR 11 Unmodified _AKLRKTLKRRR_ 0 0 0 ENST00000608163.1_1_10:46215370-46222350:-|nuORF ENST00000608163.1_1_10:46215370-46222350:-|nuORF ENST00000608163.1_1_10:46215370-46222350:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 713.484375 2 713.483686 1424.95282 NaN NaN NaN NaN NaN NaN NaN 61.285 1 61.285 60.785 61.785 0 0 0 0 1.008 1 28568 28568 0.30703 0 1 540 9339 440 440 532 532 0.2573397781859512 AKLRWIRKLIR 11 Unmodified _AKLRWIRKLIR_ 0 0 0 REV__ENST00000497891.1_1_7:143098260-143104736:-|nuORF REV__ENST00000497891.1_1_7:143098260-143104736:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.971435546875 3 484.992779 1451.95651 NaN NaN NaN NaN NaN NaN NaN 70.721 1 70.721 70.221 71.221 0 0 0 0 1.0073 1 34349 34349 1.2148 0.51716 1 + 541 16863 441 441 533 533 0.24860647592458918 AKLRWIRKLIR 11 Unmodified _AKLRWIRKLIR_ 0 0 0 REV__ENST00000497891.1_1_7:143098260-143104736:-|nuORF REV__ENST00000497891.1_1_7:143098260-143104736:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.0091552734375 3 484.992779 1451.95651 NaN NaN NaN NaN NaN NaN NaN 72.673 1 73.372 72.872 73.872 0.69881 0 0 0 1.0073 1 35007 35007 1.2148 0.80657 1 + 542 16863 441 441 534 534 0.24860647592458918 AKPAHRKRK 9 Unmodified _AKPAHRKRK_ 0 0 0 nc|ENSG00000151150|Q12955-4|ANK3 nc|ENSG00000151150|Q12955-4|ANK3 nc|ENSG00000151150|Q12955-4|ANK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.3499145507812 2 546.349066 1090.68358 NaN NaN NaN NaN NaN NaN NaN 91.044 1 91.706 91.206 92.206 0.66198 0 0 0 0.90699 1 41901 41901 1.8442 0 1 543 9688 442 442 535 535 0.14186463922078474 AKPAKAEEYK 10 Unmodified _AKPAKAEEYK_ 0 0 0 REV__nc|ENSG00000099957|O15547-2|P2RX6 REV__nc|ENSG00000099957|O15547-2|P2RX6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.8107299804688 2 567.811313 1133.60807 NaN NaN NaN NaN NaN NaN NaN 91.43 1 92.092 91.592 92.592 0.66198 0 0 0 1.0012 1 42076 42076 0.40072 0 1 + 544 10795 443 443 536 536 0.04661397160452907 AKPAKKIPK 9 Unmodified _AKPAKKIPK_ 0 0 0 REV__nc|ENSG00000132563|Q9BRK0|REEP2 REV__nc|ENSG00000132563|Q9BRK0|REEP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.9356689453125 2 490.834394 979.654236 NaN NaN NaN NaN NaN NaN NaN 68.483 1 68.483 67.983 68.983 0 0 0 0 0.87786 1 32976 32976 6.7232 0 1 + 545 11899 444 444 537 537 0.16359506853223138 AKPANCNDW 9 Unmodified _AKPANCNDW_ 0 0 0 REV__nc|ENSG00000260565|Q9NX77|ERVK13-1 REV__nc|ENSG00000260565|Q9NX77|ERVK13-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.9539794921875 2 509.724184 1017.43381 NaN NaN NaN NaN NaN NaN NaN 86.66 1 86.66 86.16 87.16 0 0 0 0 0.87786 1 44483 44483 6.7232 0.51738 1 + 546 18155 445 445 538 538 -0.07420506536527682 AKPKALWST 9 Unmodified _AKPKALWST_ 0 0 0 REV__ENST00000315249.11_1_17:33338734-33338833:-|nuORF REV__ENST00000315249.11_1_17:33338734-33338833:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.2937927246094 2 501.292559 1000.57057 NaN NaN NaN NaN NaN NaN NaN 75.918 1 76.582 76.082 77.082 0.66387 0 0 0 0.87786 1 34974 34974 6.7232 0.36906 1 + 547 15286 446 446 539 539 0.07030350685499798 AKPKHRVVRPV 11 Unmodified _AKPKHRVVRPV_ 0 0 0 ENST00000557552.1_1_14:105241736-105242162:-|nuORF ENST00000557552.1_1_14:105241736-105242162:-|nuORF ENST00000557552.1_1_14:105241736-105242162:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.8932495117188 2 643.91203 1285.80951 NaN NaN NaN NaN NaN NaN NaN 62.101 1 62.101 61.601 62.601 0 0 0 0 1.0061 1 29068 29068 2.7352 0.23671 1 548 8940 447 447 540 540 0.17803550707503746 AKPKKATKS 9 Unmodified _AKPKKATKS_ 0 0 0 ENSG00000184357|ENST00000331442|H1-5 ENSG00000184357|ENST00000331442|H1-5 ENSG00000184357|ENST00000331442|H1-5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.8066101074219 2 479.805834 957.597115 NaN NaN NaN NaN NaN NaN NaN 64.014 1 64.729 64.229 65.229 0.71521 0 0 0 0.77239 1 30088 30088 10.074 4.3135 1 549 5435 448 448 541 541 0.1166203957683365 AKPKKPYKKK 10 Unmodified _AKPKKPYKKK_ 0 0 0 REV__ENSG00000135999|ENST00000258484|EPC2 REV__ENSG00000135999|ENST00000258484|EPC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 608.3983764648438 2 608.400433 1214.78631 NaN NaN NaN NaN NaN NaN NaN 61.475 1 62.215 61.715 62.715 0.7396 0 0 0 0.9952 1 28511 28511 5.7319 0 1 + 550 12053 449 449 542 542 0.18751111870165005 AKPKLRPWPA 10 Unmodified _AKPKLRPWPA_ 0 0 0 REV__nc|ENSG00000176909|Q6ZN01-2|MAMSTR REV__nc|ENSG00000176909|Q6ZN01-2|MAMSTR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.3535766601562 2 582.356025 1162.6975 NaN NaN NaN NaN NaN NaN NaN 74.126 1 74.385 73.885 74.885 0.25876 0 0 0 0.99464 1 34074 34074 6.2058 0 1 + 551 13717 450 450 543 543 0.12265696630515777 AKPKRKPGMRP 11 Unmodified _AKPKRKPGMRP_ 0 0 0 ENSG00000011260|ENST00000225298|UTP18 ENSG00000011260|ENST00000225298|UTP18 ENSG00000011260|ENST00000225298|UTP18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.5939025878906 3 422.592286 1264.75503 2.5824 0.0010913 0.79559 0.00033621 3.378 0.0014275 422.59252016171985 47.396 0.32581 47.396 47.27 47.595 0 65 17 4 0 0 0 0.89309 1 21737 21737 2.4348 1.325 1 4828000 552 409 451 451 544 544 0.13324215564421138 AKPKRKPGMRP 11 Unmodified _AKPKRKPGMRP_ 0 0 0 ENSG00000011260|ENST00000225298|UTP18 ENSG00000011260|ENST00000225298|UTP18 ENSG00000011260|ENST00000225298|UTP18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.5941162109375 3 422.592286 1264.75503 2.9952 0.0012658 0.66257 0.00028 3.6578 0.0015458 422.5924747282154 53.102 0.9758 53.102 52.629 53.605 0 185 64 4 0 0 0 0.83518 1 24424 24424 4.4062 3.1913 1 3803400 553 409 451 451 545 545 0.13324215564421138 AKPKRKPGMRP 11 Unmodified _AKPKRKPGMRP_ 0 0 0 ENSG00000011260|ENST00000225298|UTP18 ENSG00000011260|ENST00000225298|UTP18 ENSG00000011260|ENST00000225298|UTP18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.92791748046875 3 422.592286 1264.75503 2.4338 0.0010285 0.88938 0.00037585 3.3232 0.0014044 422.5925772935059 58.459 0.23711 59.218 59.084 59.321 0.75894 30 19 2 0 0 0 0.89309 1 26784 26784 2.4348 1.325 1 931310 554 409 451 451 546 546 0.13324215564421138 AKPKRKPGMRP 11 Unmodified _AKPKRKPGMRP_ 0 0 0 ENSG00000011260|ENST00000225298|UTP18 ENSG00000011260|ENST00000225298|UTP18 ENSG00000011260|ENST00000225298|UTP18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.3862915039062 2 633.384791 1264.75503 3.8024 0.0024084 0.93506 0.00059225 4.7374 0.0030006 633.3852812641 46.143 0.47422 46.409 46.123 46.598 0.26561 51 20 3 0 0 0 0.89309 1 21027 21027 2.7352 1.2533 1 1299900 555 409 451 451 547 547 0.13324215564421138 AKPKRKPGMRP 11 Unmodified _AKPKRKPGMRP_ 0 0 0 ENSG00000011260|ENST00000225298|UTP18 ENSG00000011260|ENST00000225298|UTP18 ENSG00000011260|ENST00000225298|UTP18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.1970520019531 4 317.196034 1264.75503 2.3359 0.00074095 0.93403 0.00029627 3.27 0.0010372 317.1962706123493 46.167 0.5174 46.432 46.103 46.62 0.26561 78 22 4 0 0 0 0.91111 1 21096 21096 1.2148 0.80657 1 10960000 556 409 451 451 548 548 0.13324215564421138 AKPKRKPGMRP 11 Unmodified _AKPKRKPGMRP_ 0 0 0 ENSG00000011260|ENST00000225298|UTP18 ENSG00000011260|ENST00000225298|UTP18 ENSG00000011260|ENST00000225298|UTP18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.59375 3 422.592286 1264.75503 3.283 0.0013874 0.58611 0.00024769 3.8691 0.001635 422.5923992642799 45.569 1.1841 46.22 45.721 46.905 0.65104 158 44 5 0 0 0 0.91111 1 20763 20763 1.2148 1.2148 1 4626900 557 409 451 451 549 549 0.13324215564421138 AKPKRKPGMRP 11 Unmodified _AKPKRKPGMRP_ 0 0 0 ENSG00000011260|ENST00000225298|UTP18 ENSG00000011260|ENST00000225298|UTP18 ENSG00000011260|ENST00000225298|UTP18 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 422.592286 1264.75503 2.9952 0.0012658 0.66257 0.00028 3.6578 0.0015458 422.5924747282154 53.102 0.9758 53.102 52.629 53.605 0 0.19901 -0.00010383 NaN 4.4062 185 64 4 NaN NaN NaN NaN 0 NaN NaN 0 3803400 558 409 451 451 0.13324215564421138 AKPKRKPGMRP 11 Unmodified _AKPKRKPGMRP_ 0 0 0 ENSG00000011260|ENST00000225298|UTP18 ENSG00000011260|ENST00000225298|UTP18 ENSG00000011260|ENST00000225298|UTP18 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 422.592286 1264.75503 2.9664 0.0012536 0.7586 0.00032058 3.725 0.0015741 422.59249248382577 52.489 0.92139 52.752 52.387 53.309 0.26345 -0.15043 1.7922E-05 NaN 4.4062 141 48 5 NaN NaN NaN NaN 0 NaN NaN 0 6552800 559 409 451 451 0.13324215564421138 AKPKVVKMF 9 Unmodified _AKPKVVKMF_ 0 0 0 REV__nc|ENSG00000148655|Q9H2I8|LRMDA REV__nc|ENSG00000148655|Q9H2I8|LRMDA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.62548828125 2 524.322805 1046.63106 NaN NaN NaN NaN NaN NaN NaN 67.257 1 67.959 67.459 68.459 0.70218 0 0 0 0.87786 1 31943 31943 6.7232 1.4925 1 + 560 12546 452 452 550 550 0.10960744744238582 AKPLLKIKS 9 Unmodified _AKPLLKIKS_ 0 0 0 ENSG00000147251|ENST00000276202|DOCK11 ENSG00000147251|ENST00000276202|DOCK11 ENSG00000147251|ENST00000276202|DOCK11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.3416442871094 2 499.342052 996.669552 NaN NaN NaN NaN NaN NaN NaN 98.147 1 98.746 98.246 99.246 0.59885 0 0 0 0.87786 1 45207 45207 6.7232 0.51738 1 561 3556 453 453 551 551 0.17108373650410158 AKQKLPKKRKK 11 Unmodified _AKQKLPKKRKK_ 0 0 0 nc|ENSG00000116396|Q03721-2|KCNC4;ENST00000489935.1_1_1:110754121-110766653:+|nuORF;ENSG00000116396|ENST00000438661|KCNC4;nc|ENSG00000116396|Q03721|KCNC4 nc|ENSG00000116396|Q03721-2|KCNC4 nc|ENSG00000116396|Q03721-2|KCNC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 676.9667358398438 2 676.964263 1351.91397 NaN NaN NaN NaN NaN NaN NaN 12.315 1 12.622 12.122 13.122 0.30727 0 0 0 1.0059 1 5527 5527 2.9952 1.6657 1 562 2027 454 454 552 552 0.2520925246419665 AKQKRSQHKE 10 Unmodified _AKQKRSQHKE_ 0 0 0 REV__ENSG00000253797|ENST00000521776|UTP14C REV__ENSG00000253797|ENST00000521776|UTP14C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.351318359375 2 620.34946 1238.68437 NaN NaN NaN NaN NaN NaN NaN 78.944 1 79.408 78.908 79.908 0.4642 0 0 0 0.99812 1 38469 38469 3.2813 0 1 + 563 14664 455 455 553 553 0.07457213780480743 AKQPLFHSL 9 Unmodified _AKQPLFHSL_ 0 0 0 REV__ENSG00000153406|ENST00000283429|NMRAL1 REV__ENSG00000153406|ENST00000283429|NMRAL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.5355529785156 3 347.534431 1039.58147 2.6412 0.00091789 1.0178 0.00035371 3.6589 0.0012716 347.5348128337389 48.824 0.62807 49.086 48.902 49.53 0.2621 49 24 3 0 0 0 0.96953 1 22354 22354 4.5289 1.5336 1 6690700 + 564 12679 456 456 554 554 0.06325753059786621 AKQRGQASPI 10 Unmodified _AKQRGQASPI_ 0 0 0 REV__ENSG00000197532|ENST00000641622|OR6Y1 REV__ENSG00000197532|ENST00000641622|OR6Y1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.8414306640625 2 528.301447 1054.58834 NaN NaN NaN NaN NaN NaN NaN 80.792 1 80.96 80.46 81.46 0.16862 0 0 0 0.98664 1 39616 39616 7.609 0.88579 1 + 565 14285 457 457 555 555 0.06323065940387096 AKRKCFLLRKR 11 Unmodified _AKRKCFLLRKR_ 0 0 0 REV__ENST00000479205.5_1_2:242033778-242033826:-|nuORF REV__ENST00000479205.5_1_2:242033778-242033826:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 709.9498901367188 2 709.94809 1417.88163 NaN NaN NaN NaN NaN NaN NaN 69.743 1 70.446 69.946 70.946 0.70302 0 0 0 1.0073 1 33390 33390 1.1933 0 1 + 566 16674 458 458 556 556 0.18940141789539666 AKRKHFLL 8 Unmodified _AKRKHFLL_ 0 0 0 REV__ENST00000433921.5_1_2:219503064-219516433:-|nuORF REV__ENST00000433921.5_1_2:219503064-219516433:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.55413818359375 3 338.218666 1011.63417 1.7706 0.00059886 1.2708 0.00042981 3.0415 0.0010287 338.5535256635348 12.746 0.18952 13.053 12.936 13.125 0.30727 14 5 4 0 0 0 0.64692 1 5779 5779 7.2892 0 1 2244100 + 567 11372 459 459 557 557 0.12881755913281268 AKRKLLKLLK 10 Unmodified _AKRKLLKLLK_ 0 0 0 ENST00000545279.5_1_5:135468581-135489282:+|nuORF ENST00000545279.5_1_5:135468581-135489282:+|nuORF ENST00000545279.5_1_5:135468581-135489282:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 605.7070922851562 2 605.939725 1209.8649 NaN NaN NaN NaN NaN NaN NaN 98.594 1 99.192 98.692 99.692 0.59885 0 0 0 1.0016 1 45478 45478 0.35063 0.35063 1 568 8841 460 460 558 558 0.26835964175256777 AKRKRKRF 8 Unmodified _AKRKRKRF_ 0 0 0 REV__ENSG00000206559|ENST00000383768|ZCWPW2 REV__ENSG00000206559|ENST00000383768|ZCWPW2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.4093017578125 2 545.359434 1088.70431 NaN NaN NaN NaN NaN NaN NaN 71.216 1 71.92 71.42 72.42 0.70386 0 0 0 0.99035 1 34193 34193 2.3027 0 1 + 569 14478 461 461 559 559 0.16351054301730983 AKRKTFSLVKE 11 Unmodified _AKRKTFSLVKE_ 0 0 0 nc|ENSG00000168539|P11229-2|CHRM1;ENSG00000168539|ENST00000306960|CHRM1 nc|ENSG00000168539|P11229-2|CHRM1 nc|ENSG00000168539|P11229-2|CHRM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 436.41864013671875 3 436.266233 1305.77687 NaN NaN NaN NaN NaN NaN NaN 74.334 1 74.999 74.499 75.499 0.6644 0 0 0 1.0059 1 34214 34214 1.2148 0.10508 1 570 4632 462 462 560 560 0.13621298793964343 AKRKVIIFLRL 11 Unmodified _AKRKVIIFLRL_ 0 0 0 ENST00000466081.5_1_10:90751224-90770411:+|nuORF ENST00000466081.5_1_10:90751224-90770411:+|nuORF ENST00000466081.5_1_10:90751224-90770411:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 678.9658813476562 2 678.963732 1355.91291 NaN NaN NaN NaN NaN NaN NaN 101.11 1 101.71 101.21 102.21 0.59717 0 0 0 1.008 1 46816 46816 0.30703 0.30703 1 571 8133 463 463 561 561 0.24919038095299584 AKRKVKKKKR 10 Unmodified _AKRKVKKKKR_ 0 0 0 nc|ENSG00000187624|Q6ZQX7-2|LIAT1;ENSG00000187624|ENST00000360127|C17orf97;nc|ENSG00000187624|Q6ZQX7-3|LIAT1;nc|ENSG00000187624|Q6ZQX7|LIAT1 nc|ENSG00000187624|Q6ZQX7-2|LIAT1 nc|ENSG00000187624|Q6ZQX7-2|LIAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 635.5099487304688 2 635.451323 1268.88809 NaN NaN NaN NaN NaN NaN NaN 80.135 1 80.135 79.635 80.635 0 0 0 0 1.0001 1 39702 39702 1.6526 1.2519 1 572 5625 464 464 562 562 0.2644040301258883 AKRLVSILN 9 Unmodified _AKRLVSILN_ 0 0 0 ENSG00000268738|ENST00000598963|HSFX2;ENSG00000171116|ENST00000370416|HSFX1 ENSG00000268738|ENST00000598963|HSFX2 ENSG00000268738|ENST00000598963|HSFX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 338.55426025390625 3 338.553715 1012.63931 1.922 0.0006507 -0.11652 -3.945E-05 1.8055 0.00061125 338.55372912472774 12.827 0.087141 13.089 13.05 13.137 0.26154 9 6 2 0 0 0 0.091193 1 5582 5582 34.932 5.0915 1 474060 573 4788 465 465 563 563 0.13350014985235248 AKRLVSILN 9 Unmodified _AKRLVSILN_ 0 0 0 ENSG00000268738|ENST00000598963|HSFX2;ENSG00000171116|ENST00000370416|HSFX1 ENSG00000268738|ENST00000598963|HSFX2 ENSG00000268738|ENST00000598963|HSFX2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 338.553715 1012.63931 2.4341 0.00082406 -0.17691 -5.9894E-05 2.2571 0.00076417 338.55370793162547 13.309 0.17507 13.309 13.224 13.399 0 0.07857 -2.2661E-05 NaN 34.932 22 15 2 NaN NaN NaN NaN 0 NaN NaN 0 325600 574 4788 465 465 0.13350014985235248 AKRPKMARRP 10 Unmodified _AKRPKMARRP_ 0 0 0 REV__nc|ENSG00000111077|Q63HR2-4|TNS2 REV__nc|ENSG00000111077|Q63HR2-4|TNS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 605.8723754882812 2 605.869308 1209.72406 3.8095 0.0023081 0.76868 0.00046572 4.5782 0.0027738 605.8695172506865 56.662 0.54959 57.331 57.088 57.638 0.66829 59 28 3 0 0 0 0.93658 1 25884 25884 3.2813 3.2813 1 1638100 + 575 17892 466 466 564 564 0.12759062250188435 AKRPWRKQRV 10 Unmodified _AKRPWRKQRV_ 0 0 0 ENSG00000090402|ENST00000264382|SI ENSG00000090402|ENST00000264382|SI ENSG00000090402|ENST00000264382|SI MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.9414367675781 3 442.273945 1323.80001 2.6186 0.0011581 0.78774 0.0003484 3.4063 0.0015065 442.27421673566147 55.208 0.11412 55.473 55.423 55.537 0.26543 10 8 2 0 0 0 0.12676 1 25236 25236 1.9064 0.8928 1 1302100 576 1058 467 467 565 565 0.15105782421960612 AKRRRFWIEFR 11 Unmodified _AKRRRFWIEFR_ 0 0 0 REV__ENST00000563969.5_1_16:67314567-67322708:+|nuORF REV__ENST00000563969.5_1_16:67314567-67322708:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 782.953125 2 782.952218 1563.88988 NaN NaN NaN NaN NaN NaN NaN 71.569 1 71.827 71.327 72.327 0.25786 0 0 0 1.0072 1 32793 32793 1.3295 0.9789 1 + 577 14190 468 468 566 566 0.13049412030522944 AKRRRIKRAPQ 11 Unmodified _AKRRRIKRAPQ_ 0 0 0 REV__ENST00000484610.5_1_16:89627367-89627911:+|nuORF REV__ENST00000484610.5_1_16:89627367-89627911:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 460.9667663574219 3 460.632132 1378.87457 2.5443 0.001172 -1.3568 -0.00062498 1.1875 0.00054699 460.965903506466 47.117 0.42374 47.117 46.984 47.408 0 30 23 2 0 0 0 0.89988 1 21668 21668 2.4348 1.22 1 1134300 + 578 13290 469 469 567 567 0.20028545233367367 AKRRRIKRAPQ 11 Unmodified _AKRRRIKRAPQ_ 0 0 0 REV__ENST00000484610.5_1_16:89627367-89627911:+|nuORF REV__ENST00000484610.5_1_16:89627367-89627911:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 460.63238525390625 3 460.632132 1378.87457 2.9228 0.0013464 -2.392 -0.0011018 0.53084 0.00024452 460.63015679347615 46.64 0.30387 46.906 46.62 46.924 0.26561 17 10 3 0 0 0 0.13295 1 21221 21221 1.1098 0.98689 1 2028200 + 579 13290 469 469 568 568 0.20028545233367367 AKRRRIKRAPQ 11 Unmodified _AKRRRIKRAPQ_ 0 0 0 REV__ENST00000484610.5_1_16:89627367-89627911:+|nuORF REV__ENST00000484610.5_1_16:89627367-89627911:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 460.632132 1378.87457 2.9442 0.0013562 -1.9914 -0.00091732 0.95276 0.00043887 460.63096159427687 46.982 0.42232 47.246 47.066 47.488 0.26363 0.077016 -0.00046398 NaN 2.4348 25 14 2 NaN NaN NaN NaN 0 NaN NaN 0 233970 + 580 13290 469 469 0.20028545233367367 AKRRRIKRAPQ 11 Unmodified _AKRRRIKRAPQ_ 0 0 0 REV__ENST00000484610.5_1_16:89627367-89627911:+|nuORF REV__ENST00000484610.5_1_16:89627367-89627911:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 460.632132 1378.87457 3.0465 0.0014033 -1.6415 -0.00075611 1.405 0.00064718 460.9657453921658 46.492 0.23994 47.144 47.047 47.287 0.65219 -0.024962 1.9625E-05 NaN 2.4348 11 8 2 NaN NaN NaN NaN 0 NaN NaN 0 452190 + 581 13290 469 469 0.20028545233367367 AKRTGVAFV 9 Unmodified _AKRTGVAFV_ 0 0 0 REV__nc|ENSG00000108588|Q96A33-2|CCDC47 REV__nc|ENSG00000108588|Q96A33-2|CCDC47 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 316.8597106933594 3 316.859027 947.55525 2.0971 0.0006645 0.082771 2.6227E-05 2.1799 0.00069073 316.8591351641744 23.019 0.27348 23.66 23.531 23.805 0.64051 91 39 3 0 0 0 0.057744 2 10489 10489;10533 33.445 5.8161 1 11427000 + 582 11150 470 470 569;570 569 0.07937483888326824 AKRTGVAFV 9 Unmodified _AKRTGVAFV_ 0 0 0 REV__nc|ENSG00000108588|Q96A33-2|CCDC47 REV__nc|ENSG00000108588|Q96A33-2|CCDC47 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 316.859027 947.55525 1.7653 0.00055934 0.68787 0.00021796 2.4531 0.0007773 316.859262800172 23.061 0.24522 23.746 23.582 23.827 0.68536 0.043281 0.00030902 NaN 33.445 81 34 3 NaN NaN NaN NaN 0 NaN NaN 0 3072300 + 583 11150 470 470 0.07937483888326824 AKRTGVAFV 9 Unmodified _AKRTGVAFV_ 0 0 0 REV__nc|ENSG00000108588|Q96A33-2|CCDC47 REV__nc|ENSG00000108588|Q96A33-2|CCDC47 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 316.859027 947.55525 2.0971 0.0006645 0.082771 2.6227E-05 2.1799 0.00069073 316.8591351641744 23.019 0.27348 23.66 23.531 23.805 0.64051 -0.043281 -0.00026618 NaN 33.445 91 39 3 NaN NaN NaN NaN 0 NaN NaN 0 11427000 + 584 11150 470 470 0.07937483888326824 AKRTKCMEFYQ 11 Unmodified _AKRTKCMEFYQ_ 0 0 0 REV__ENSG00000146350|ENST00000398212|TBC1D32 REV__ENSG00000146350|ENST00000398212|TBC1D32 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 468.8951416015625 3 468.896935 1403.66898 NaN NaN NaN NaN NaN NaN NaN 65.634 1 66.343 65.843 66.843 0.70891 0 0 0 1.0064 1 31057 31057 2.4348 1.9288 1 + 585 12471 471 471 571 571 -0.016711571232690403 AKRTKKKV 8 Unmodified _AKRTKKKV_ 0 0 0 REV__ENST00000420969.1_1_2:162357792-162360000:-|nuORF REV__ENST00000420969.1_1_2:162357792-162360000:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 479.8280334472656 2 479.829643 957.644734 NaN NaN NaN NaN NaN NaN NaN 74.439 1 74.439 73.939 74.939 0 0 0 0 0.95658 1 36360 36360 8.5933 0 1 + 586 16173 472 472 572 572 0.16421738567692046 AKRTKQVC 8 Unmodified _AKRTKQVC_ 0 0 0 ENST00000494124.2_1_9:19316810-19337609:+|nuORF ENST00000494124.2_1_9:19316810-19337609:+|nuORF ENST00000494124.2_1_9:19316810-19337609:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 467.3948059082031 2 467.268561 932.52257 NaN NaN NaN NaN NaN NaN NaN 69.145 1 69.848 69.348 70.348 0.70218 0 0 0 0.9101 1 33061 33061 11.64 3.047 1 587 8418 473 473 573 573 0.053609534938118486 AKRWWSWSKEK 11 Unmodified _AKRWWSWSKEK_ 0 0 0 REV__PLAUR|p.T49Sfs*33|1|0.1|ENSG00000011422|chr19:43667602-43667603|-/GGTCCTGCAGA|frameshift_variant REV__PLAUR|p.T49Sfs*33|1|0.1|ENSG00000011422|chr19:43667602-43667603|-/GGTCCTGCAGA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 746.398681640625 2 746.39641 1490.77827 NaN NaN NaN NaN NaN NaN NaN 74.351 1 75.015 74.515 75.515 0.6644 0 0 0 1.0059 1 34225 34225 2.9952 2.6446 1 + 588 18201 474 474 574 574 0.052509328827227364 AKTKRFYV 8 Unmodified _AKTKRFYV_ 0 0 0 REV__ENSG00000121152|ENST00000240423|NCAPH REV__ENSG00000121152|ENST00000240423|NCAPH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.20404052734375 3 338.202793 1011.58655 2.406 0.0008137 1.1195 0.00037861 3.5254 0.0011923 338.20313289027894 39.392 0.50654 39.659 39.347 39.853 0.26696 53 19 3 0 0 0 0.63902 1 17935 17935 10.824 2.0785 1 854630 + 589 11551 475 475 575 575 0.08122056922422871 AKTKRFYV 8 Unmodified _AKTKRFYV_ 0 0 0 REV__ENSG00000121152|ENST00000240423|NCAPH REV__ENSG00000121152|ENST00000240423|NCAPH MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 338.202793 1011.58655 2.3798 0.00080485 1.6161 0.00054659 3.9959 0.0013514 338.2033338251222 39.675 0.41812 39.675 39.405 39.823 0 -0.012725 0.00038467 NaN 10.824 31 18 2 NaN NaN NaN NaN 0 NaN NaN 0 1272700 + 590 11551 475 475 0.08122056922422871 AKTKRFYV 8 Unmodified _AKTKRFYV_ 0 0 0 REV__ENSG00000121152|ENST00000240423|NCAPH REV__ENSG00000121152|ENST00000240423|NCAPH MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 338.202793 1011.58655 2.3399 0.00079137 0.80843 0.00027341 3.1483 0.0010648 338.202992937295 38.988 0.49911 39.786 39.418 39.917 0.79762 0.098074 -0.00043485 NaN 10.824 59 23 3 NaN NaN NaN NaN 0 NaN NaN 0 730960 + 591 11551 475 475 0.08122056922422871 AKTQVSRELTK 11 Unmodified _AKTQVSRELTK_ 0 0 0 REV__ENSG00000119285|ENST00000366582|HEATR1 REV__ENSG00000119285|ENST00000366582|HEATR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 630.8348999023438 2 630.867151 1259.71975 NaN NaN NaN NaN NaN NaN NaN 96.662 1 96.662 96.162 97.162 0 0 0 0 0.99038 1 52372 52372 7.609 1.4032 1 + 592 11495 476 476 576 576 0.10027831517595587 AKVAKLVRVL 10 Unmodified _AKVAKLVRVL_ 0 0 0 nc|ENSG00000105227|Q9BXM0-2|PRX nc|ENSG00000105227|Q9BXM0-2|PRX nc|ENSG00000105227|Q9BXM0-2|PRX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.2580261230469 3 366.257009 1095.7492 2.8365 0.0010389 -1.6652 -0.0006099 1.1713 0.00042898 366.2564184446287 26.718 0.20689 26.718 26.606 26.813 0 23 13 2 0 0 0 0.93503 1 12039 12039 1.9064 0.71303 1 450010 593 9585 477 477 577 577 0.20515440324402334 AKVIRALLRIL 11 Unmodified _AKVIRALLRIL_ 0 0 0 ENSG00000149218|ENST00000278505|ENDOD1 ENSG00000149218|ENST00000278505|ENDOD1 ENSG00000149218|ENST00000278505|ENDOD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.4415893554688 2 633.442632 1264.87071 NaN NaN NaN NaN NaN NaN NaN 42.805 1 43.62 43.12 44.12 0.81444 0 0 0 1.0073 1 19460 19460 1.1933 0.84271 1 594 3632 478 478 578 578 0.24887062686912031 AKVQDWNLI 9 Unmodified _AKVQDWNLI_ 0 0 0 REV__nc|ENSG00000144619|Q8IWV2-2|CNTN4 REV__nc|ENSG00000144619|Q8IWV2-2|CNTN4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.8832092285156 3 362.869591 1085.58694 2.7912 0.0010128 0.88744 0.00032203 3.6786 0.0013349 362.8698820109774 40.524 0.36157 40.793 40.644 41.006 0.26904 25 15 2 0 0 0 0.64206 1 18478 18478 6.6304 0.43853 1 611030 + 595 12409 479 479 579 579 0.04757431851612637 AKVRKWKARRN 11 Unmodified _AKVRKWKARRN_ 0 0 0 REV__ENSG00000168505|ENST00000306318|GBX2 REV__ENSG00000168505|ENST00000306318|GBX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 706.56298828125 2 706.939111 1411.86367 NaN NaN NaN NaN NaN NaN NaN 71.429 1 71.429 70.929 71.929 0 0 0 0 1.0072 1 34720 34720 1.3295 0 1 + 596 13352 480 480 580 580 0.17421142859052452 AKVTLAVWSL 10 Unmodified _AKVTLAVWSL_ 0 0 0 REV__ENST00000564642.1_1_16:2042626-2043070:+|nuORF REV__ENST00000564642.1_1_16:2042626-2043070:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.3310546875 2 544.329142 1086.64373 3.5251 0.0019188 0.18096 9.8502E-05 3.7061 0.0020173 544.3293520077807 36.918 0.32718 37.548 37.354 37.681 0.62999 24 12 3 0 0 0 0.70333 1 16890 16890 13.042 4.4492 1 410820 + 597 11742 481 481 581 581 0.10387479408132094 AKVTLAVWSL 10 Unmodified _AKVTLAVWSL_ 0 0 0 REV__ENST00000564642.1_1_16:2042626-2043070:+|nuORF REV__ENST00000564642.1_1_16:2042626-2043070:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 544.329142 1086.64373 3.5683 0.0019423 -0.0039197 -2.1336E-06 3.5644 0.0019402 544.3291538757261 37.549 0.28929 37.81 37.662 37.951 0.26083 0.13113 -0.00013176 NaN 13.042 18 8 3 NaN NaN NaN NaN 0 NaN NaN 0 562200 + 598 11742 481 481 0.10387479408132094 AKYANMWLEYY 11 Unmodified _AKYANMWLEYY_ 0 0 0 nc|ENSG00000075856|Q15020-4|SART3;ENSG00000075856|ENST00000546815|SART3 nc|ENSG00000075856|Q15020-4|SART3 nc|ENSG00000075856|Q15020-4|SART3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.008056640625 3 484.560317 1450.65912 2.7439 0.0013296 3.5431 0.0017168 6.287 0.0030464 484.89554614507574 60.801 0.050903 61.54 61.502 61.552 0.7396 7 5 2 0 0 0 0.13295 1 28121 28121 0.45452 0.38125 1 3225300 599 838 482 482 582 582 -0.04818021856976884 AKYANMWLEYY 11 Unmodified _AKYANMWLEYY_ 0 0 0 nc|ENSG00000075856|Q15020-4|SART3;ENSG00000075856|ENST00000546815|SART3 nc|ENSG00000075856|Q15020-4|SART3 nc|ENSG00000075856|Q15020-4|SART3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 484.560317 1450.65912 2.9031 0.0014067 1.8023 0.00087333 4.7054 0.0022801 484.8948013433524 61.897 0.025784 61.897 61.886 61.911 0 0.17815 -0.0021378 NaN 0.45452 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 4967800 600 838 482 482 -0.04818021856976884 ALAARALAA 9 Unmodified _ALAARALAA_ 0 0 0 REV__ENSG00000116032|ENST00000234389|GRIN3B REV__ENSG00000116032|ENST00000234389|GRIN3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 414.2601623535156 2 414.25852 826.502486 3.0658 0.00127 0.0021895 9.0703E-07 3.068 0.0012709 414.25850892664386 28.602 0.27569 28.602 28.455 28.731 0 69 22 4 0 0 0 0.015468 1 12859 12859 74.423 3.2892 1 6494600 + 601 11391 483 483 583 583 0.08229525825504425 ALAARALAA 9 Unmodified _ALAARALAA_ 0 0 0 REV__ENSG00000116032|ENST00000234389|GRIN3B REV__ENSG00000116032|ENST00000234389|GRIN3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 414.26007080078125 2 414.25852 826.502486 2.7805 0.0011518 0.3042 0.00012602 3.0847 0.0012779 414.2586311180889 27.735 0.36729 28.522 28.349 28.716 0.78627 90 33 4 0 0 0 0.015468 1 12434 12434 74.423 3.2892 1 5186300 + 602 11391 483 483 584 584 0.08229525825504425 ALARRPVG 8 Unmodified _ALARRPVG_ 0 0 0 REV__ENST00000454486.4_1_15:32828592-32828919:-|nuORF REV__ENST00000454486.4_1_15:32828592-32828919:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 420.2657165527344 2 420.264136 838.51372 2.572 0.0010809 0.38849 0.00016327 2.9605 0.0012442 420.26427553659937 34.979 0.28235 34.979 34.85 35.132 0 40 21 2 0 0 0 0.16336 3 15827 15827;15877;15927 46.921 12.734 1 6668700 + 603 16435 484 484 585;586;587 585 0.0880034791965727 ALARRPVG 8 Unmodified _ALARRPVG_ 0 0 0 REV__ENST00000454486.4_1_15:32828592-32828919:-|nuORF REV__ENST00000454486.4_1_15:32828592-32828919:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 420.26513671875 2 420.264136 838.51372 2.4799 0.0010422 0.052393 2.2019E-05 2.5323 0.0010642 420.2641180741753 34.063 0.34868 34.852 34.687 35.036 0.78921 58 20 4 0 0 0 0.23254 3 15377 15377;15428;15479 40.449 6.2612 1 3939200 + 604 16435 484 484 588;589;590 588 0.0880034791965727 ALARRPVG 8 Unmodified _ALARRPVG_ 0 0 0 REV__ENST00000454486.4_1_15:32828592-32828919:-|nuORF REV__ENST00000454486.4_1_15:32828592-32828919:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 420.26531982421875 2 420.264136 838.51372 2.9043 0.0012206 0.052401 2.2022E-05 2.9567 0.0012426 420.2641604293257 34.844 0.35151 35.099 34.907 35.259 0.25524 65 26 3 0 0 0 0.16336 3 15873 15828;15873;15926 46.921 12.734 1 14792000 + 605 16435 484 484 591;592;593 592 0.0880034791965727 ALARRPVG 8 Unmodified _ALARRPVG_ 0 0 0 REV__ENST00000454486.4_1_15:32828592-32828919:-|nuORF REV__ENST00000454486.4_1_15:32828592-32828919:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 420.2657470703125 2 420.264136 838.51372 2.9534 0.0012412 -0.14996 -6.3022E-05 2.8035 0.0011782 420.26408000930365 34.407 0.40349 35.03 34.82 35.223 0.62294 45 14 4 0 0 0 0.16336 3 15711 15711;15766;15820 46.921 11.81 1 6131000 + 606 16435 484 484 594;595;596 594 0.0880034791965727 ALARRPVG 8 Unmodified _ALARRPVG_ 0 0 0 REV__ENST00000454486.4_1_15:32828592-32828919:-|nuORF REV__ENST00000454486.4_1_15:32828592-32828919:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 420.264136 838.51372 2.572 0.0010809 0.38849 0.00016327 2.9605 0.0012442 420.26427553659937 34.979 0.28235 34.979 34.85 35.132 0 -0.011009 0.00024247 NaN 46.921 40 21 2 NaN NaN NaN NaN 0 NaN NaN 0 6668700 + 607 16435 484 484 0.0880034791965727 ALARRPVG 8 Unmodified _ALARRPVG_ 0 0 0 REV__ENST00000454486.4_1_15:32828592-32828919:-|nuORF REV__ENST00000454486.4_1_15:32828592-32828919:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 420.264136 838.51372 2.4799 0.0010422 0.052393 2.2019E-05 2.5323 0.0010642 420.2641180741753 34.063 0.34868 34.852 34.687 35.036 0.78921 -0.1382 -4.0025E-05 NaN 46.921 58 20 4 NaN NaN NaN NaN 0 NaN NaN 0 3939200 + 608 16435 484 484 0.0880034791965727 ALARRPVG 8 Unmodified _ALARRPVG_ 0 0 0 REV__ENST00000454486.4_1_15:32828592-32828919:-|nuORF REV__ENST00000454486.4_1_15:32828592-32828919:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 420.264136 838.51372 2.9043 0.0012206 0.052401 2.2022E-05 2.9567 0.0012426 420.2641604293257 34.844 0.35151 35.099 34.907 35.259 0.25524 0.10917 -4.0019E-05 NaN 46.921 65 26 3 NaN NaN NaN NaN 0 NaN NaN 0 14792000 + 609 16435 484 484 0.0880034791965727 ALARRPVG 8 Unmodified _ALARRPVG_ 0 0 0 REV__ENST00000454486.4_1_15:32828592-32828919:-|nuORF REV__ENST00000454486.4_1_15:32828592-32828919:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 420.264136 838.51372 2.9534 0.0012412 -0.14996 -6.3022E-05 2.8035 0.0011782 420.26408000930365 34.407 0.40349 35.03 34.82 35.223 0.62294 0.040044 -0.00021011 NaN 46.921 45 14 4 NaN NaN NaN NaN 0 NaN NaN 0 6131000 + 610 16435 484 484 0.0880034791965727 ALDRQWIRYQ 10 Unmodified _ALDRQWIRYQ_ 0 0 0 REV__ENSG00000127249|ENST00000342695|ATP13A4 REV__ENSG00000127249|ENST00000342695|ATP13A4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1348.51708984375 1 1348.71204 1347.70477 3.3758 0.004553 0.86627 0.0011683 4.2421 0.0057214 1348.7133918253205 58.023 0.035934 58.692 58.678 58.714 0.66829 11 7 2 0 0 0 0.12676 1 26552 26552 1.8442 0.36234 1 12637000 + 611 11733 485 485 597 597 0.04482384440257192 ALFKLMKKLVK 11 Unmodified _ALFKLMKKLVK_ 0 0 0 REV__nc|ENSG00000107669|O95260-2|ATE1 REV__nc|ENSG00000107669|O95260-2|ATE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 330.47174072265625 4 330.471535 1317.85703 2.2813 0.00075391 -0.91638 -0.00030284 1.3649 0.00045107 330.4709666115275 39.627 0.59517 39.627 39.134 39.729 0 58 24 4 0 0 0 0.91459 2 17918 17918;17994 0.094841 0.094841 1 2511700 + 612 11119 486 486 598;599 598 0.21082068863461245 ALFKLMKKLVK 11 Unmodified _ALFKLMKKLVK_ 0 0 0 REV__nc|ENSG00000107669|O95260-2|ATE1 REV__nc|ENSG00000107669|O95260-2|ATE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 330.4718322753906 4 330.471535 1317.85703 2.2836 0.00075466 -1.0032 -0.00033153 1.2804 0.00042313 330.4711543622643 39.826 0.4958 39.826 39.729 40.225 0 45 20 3 0 0 0 0.91459 1 18059 18059 0.094841 0.094841 1 1737300 + 613 11119 486 486 600 600 0.21082068863461245 ALFKLMKKLVK 11 Unmodified _ALFKLMKKLVK_ 0 0 0 REV__nc|ENSG00000107669|O95260-2|ATE1 REV__nc|ENSG00000107669|O95260-2|ATE1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 330.4718322753906 4 330.471535 1317.85703 2.2836 0.00075466 -1.0032 -0.00033153 1.2804 0.00042313 330.4711543622643 39.826 0.4958 39.826 39.729 40.225 0 45 20 3 0 0 0 0.13295 1 18180 18180 0.094841 0.094841 1 1737300 + 614 11119 486 486 601 601 0.21082068863461245 ALFKLMKKLVK 11 Unmodified _ALFKLMKKLVK_ 0 0 0 REV__nc|ENSG00000107669|O95260-2|ATE1 REV__nc|ENSG00000107669|O95260-2|ATE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.4713439941406 4 330.471535 1317.85703 2.2008 0.00072731 -1.1651 -0.00038505 1.0357 0.00034227 330.47100242509555 38.56 0.68214 38.825 38.536 39.218 0.26408 66 25 4 0 0 0 0.91459 2 17551 17551;17598 0.094841 0.094841 1 2514400 + 615 11119 486 486 602;603 602 0.21082068863461245 ALFKLMKKLVK 11 Unmodified _ALFKLMKKLVK_ 0 0 0 REV__nc|ENSG00000107669|O95260-2|ATE1 REV__nc|ENSG00000107669|O95260-2|ATE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.72271728515625 4 330.471535 1317.85703 2.1631 0.00071484 -0.74703 -0.00024687 1.4161 0.00046796 330.72194012271035 38.477 0.66718 39.111 38.703 39.37 0.63388 78 27 4 0 0 0 0.91459 1 17533 17533 0.094841 0.094841 1 733510 + 616 11119 486 486 604 604 0.21082068863461245 ALFKLMKKLVK 11 Unmodified _ALFKLMKKLVK_ 0 0 0 REV__nc|ENSG00000107669|O95260-2|ATE1 REV__nc|ENSG00000107669|O95260-2|ATE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.47174072265625 4 330.471535 1317.85703 2.3071 0.00076242 -0.88009 -0.00029084 1.427 0.00047157 330.47117367191026 39.07 0.72917 39.708 39.408 40.137 0.63778 55 26 3 0 0 0 0.91459 2 17790 17790;17846 0.094841 0.094841 1 797370 + 617 11119 486 486 605;606 605 0.21082068863461245 ALFKLMKKLVK 11 Unmodified _ALFKLMKKLVK_ 0 0 0 REV__nc|ENSG00000107669|O95260-2|ATE1 REV__nc|ENSG00000107669|O95260-2|ATE1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 330.471535 1317.85703 2.3177 0.00076594 -1.3896 -0.00045921 0.92816 0.00030673 330.470887055837 38.739 0.31536 39.536 39.338 39.653 0.79762 -0.078674 -0.00035788 NaN 0.094841 32 14 3 NaN NaN NaN NaN 0 NaN NaN 0 486730 + 618 11119 486 486 0.21082068863461245 ALFKLMKKLVK 11 Unmodified _ALFKLMKKLVK_ 0 0 0 REV__nc|ENSG00000107669|O95260-2|ATE1 REV__nc|ENSG00000107669|O95260-2|ATE1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 330.471535 1317.85703 2.3507 0.00077684 -1.33 -0.00043952 1.0207 0.00033732 330.47093558165056 39.322 0.94143 39.589 39.258 40.199 0.26696 -0.026307 -0.00027911 NaN 0.094841 84 35 3 NaN NaN NaN NaN 0 NaN NaN 0 960610 + 619 11119 486 486 0.21082068863461245 ALFKPPEDS 9 Unmodified _ALFKPPEDS_ 0 0 0 ENSG00000100296|ENST00000490103|THOC5;ENST00000358079.8_1_22:29924947-29938918:-|nuORF ENSG00000100296|ENST00000490103|THOC5 ENSG00000100296|ENST00000490103|THOC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 335.17474365234375 3 335.17468 1002.50221 1.8534 0.00062123 -1.1888 -0.00039845 0.66466 0.00022278 335.17416457507215 12.604 0.058066 12.866 12.835 12.893 0.26154 9 6 2 0 0 0 0.94779 1 5478 5478 4.897 0 1 2891900 620 1202 487 487 607 607 0.0010606131500026095 ALFVRLLAL 9 Unmodified _ALFVRLLAL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000504185.5_1_5:135364744-135380547:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.3381652832031 2 508.33677 1014.65899 3.5797 0.0018197 -0.0054133 -2.7518E-06 3.5743 0.0018169 508.3366733515035 88.684 0.27364 88.936 88.733 89.006 0.25119 30 12 3 0 0 0 0.023321 2 40775 40775;40833 71.134 24.279 1 1173300 621 2210 488 488 608;609 608 0.1522439099597932 ALFVRLLAL 9 Unmodified _ALFVRLLAL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000504185.5_1_5:135364744-135380547:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.3379821777344 2 508.33677 1014.65899 3.466 0.0017619 0.21385 0.00010871 3.6798 0.0018706 508.33679288058045 87.943 0.28205 88.621 88.546 88.828 0.67818 20 12 2 0 0 0 0.030603 2 40511 40511;40565 61.357 26.287 1 1290300 622 2210 488 488 610;611 610 0.1522439099597932 ALGPAVGYLL 10 Unmodified _ALGPAVGYLL_ 0 0 0 nc|ENSG00000137571|Q9H2Y9-3|SLCO5A1;nc|ENSG00000137571|Q9H2Y9-2|SLCO5A1;ENSG00000137571|ENST00000260126|SLCO5A1;ENST00000532388.5_1_8:70617264-70744908:-|nuORF;ENST00000528658.1_1_8:70673979-70744908:-|nuORF nc|ENSG00000137571|Q9H2Y9-3|SLCO5A1 nc|ENSG00000137571|Q9H2Y9-3|SLCO5A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.78973388671875 2 487.289485 972.564418 3.1572 0.0015385 -0.73668 -0.00035898 2.4206 0.0011795 487.28916839996384 60.114 0.62984 60.37 60.041 60.671 0.25578 70 30 3 0 0 0 0.71407 1 27625 27625 12.532 3.9383 1 2335600 623 3026 489 489 612 612 0.07703832454001258 ALHHRILAL 9 Unmodified _ALHHRILAL_ 0 0 0 ENST00000586344.5_1_19:5917623-5933521:-|nuORF;nc|ENSG00000031823|Q9H6Z4-3|RANBP3;ENST00000592771.5_1_19:5917623-5941693:-|nuORF;nc|ENSG00000031823|Q9H6Z4-2|RANBP3;ENSG00000031823|ENST00000340578|RANBP3 ENST00000586344.5_1_19:5917623-5933521:-|nuORF ENST00000586344.5_1_19:5917623-5933521:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.5545654296875 3 348.553937 1042.63998 2.3856 0.0008315 0.18771 6.5429E-05 2.5733 0.00089693 348.5540179117021 28.04 0.24787 28.303 28.129 28.377 0.26245 39 16 3 0 0 0 0.086747 2 12744 12697;12744 32.786 11.669 1 849600 624 496 490 490 613;614 614 0.12036854424923149 ALHHRILAL 9 Unmodified _ALHHRILAL_ 0 0 0 ENST00000586344.5_1_19:5917623-5933521:-|nuORF;nc|ENSG00000031823|Q9H6Z4-3|RANBP3;ENST00000592771.5_1_19:5917623-5941693:-|nuORF;nc|ENSG00000031823|Q9H6Z4-2|RANBP3;ENSG00000031823|ENST00000340578|RANBP3 ENST00000586344.5_1_19:5917623-5933521:-|nuORF ENST00000586344.5_1_19:5917623-5933521:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.5552062988281 3 348.553937 1042.63998 2.3401 0.00081564 0.60501 0.00021088 2.9451 0.0010265 348.55417454667815 27.617 0.24323 28.239 28.117 28.36 0.62179 28 13 3 0 0 0 0.086747 2 12644 12644;12702 39.95 22.837 1 850460 625 496 490 490 615;616 615 0.12036854424923149 ALHIFLEI 8 Unmodified _ALHIFLEI_ 0 0 0 nc|ENSG00000168016|O15050|TRANK1;ENSG00000168016|ENST00000645898|TRANK1 nc|ENSG00000168016|O15050|TRANK1 nc|ENSG00000168016|O15050|TRANK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.2844543457031 2 478.284203 954.553853 NaN NaN NaN NaN NaN NaN NaN 44.018 1 44.839 44.339 45.339 0.82075 0 0 0 0.93233 1 20041 20041 10.183 0.83596 1 626 4593 491 491 617 617 0.07475849799561729 ALHQKLAAL 9 Unmodified _ALHQKLAAL_ 0 0 0 nc|ENSG00000146090|Q8N431-2|RASGEF1C;ENSG00000146090|ENST00000361132|RASGEF1C nc|ENSG00000146090|Q8N431-2|RASGEF1C nc|ENSG00000146090|Q8N431-2|RASGEF1C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 322.21240234375 3 322.202793 963.58655 NaN NaN NaN NaN NaN NaN NaN 36.16 1 36.953 36.453 37.453 0.79342 0 0 0 0.91014 1 16388 16388 1.0715 0.3738 1 627 3502 492 492 618 618 0.10330056922407493 ALHQKLAAL 9 Unmodified _ALHQKLAAL_ 0 0 0 nc|ENSG00000146090|Q8N431-2|RASGEF1C;ENSG00000146090|ENST00000361132|RASGEF1C nc|ENSG00000146090|Q8N431-2|RASGEF1C nc|ENSG00000146090|Q8N431-2|RASGEF1C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 322.2126770019531 3 322.202793 963.58655 NaN NaN NaN NaN NaN NaN NaN 36.48 1 37.11 36.61 37.61 0.62999 0 0 0 0.90965 1 16704 16704 1.1933 0.735 1 628 3502 492 492 619 619 0.10330056922407493 ALIETIDVLAE 11 Unmodified _ALIETIDVLAE_ 0 0 0 REV__ENST00000413697.5_1_2:100019089-100065949:-|nuORF REV__ENST00000413697.5_1_2:100019089-100065949:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 396.2251892089844 3 396.2237 1185.64927 3.0002 0.0011888 0.61985 0.0002456 3.6201 0.0014344 396.22392469595997 36.586 0.28981 36.844 36.673 36.963 0.25768 22 10 3 0 0 0 0.91111 1 16708 16708 0.40827 0 1 681890 + 629 12049 493 493 620 620 0.06387113409277845 ALIGLRNLVMP 11 Unmodified _ALIGLRNLVMP_ 0 0 0 nc|ENSG00000156113|Q12791-5|KCNMA1;nc|ENSG00000156113|Q12791-4|KCNMA1;nc|ENSG00000156113|Q12791-2|KCNMA1;ENSG00000156113|ENST00000286628|KCNMA1;nc|ENSG00000156113|Q12791-7|KCNMA1;nc|ENSG00000156113|Q12791-3|KCNMA1 nc|ENSG00000156113|Q12791-5|KCNMA1 nc|ENSG00000156113|Q12791-5|KCNMA1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.2493896484375 3 399.577643 1195.7111 2.9211 0.0011672 -1.1272 -0.0004504 1.7939 0.0007168 399.57702433400783 49.843 0.47576 50.5 50.222 50.698 0.65735 32 18 3 0 0 0 0.13295 1 22880 22880 4.4062 4.4062 1 780670 630 3896 494 494 621 621 0.12107186347429888 ALIQLPRFH 9 Unmodified _ALIQLPRFH_ 0 0 0 ENST00000561220.6_1_15:45434150-45457096:+|nuORF;nc|ENSG00000137857|Q9NRD9-2|DUOX1;ENSG00000137857|ENST00000389037|DUOX1 ENST00000561220.6_1_15:45434150-45457096:+|nuORF ENST00000561220.6_1_15:45434150-45457096:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.8271484375 2 547.827101 1093.63965 NaN NaN NaN NaN NaN NaN NaN 81.534 1 82.194 81.694 82.694 0.65998 0 0 0 0.89683 1 37569 37569 4.3292 2.2695 1 631 3049 495 495 622 622 0.09657434705081869 ALKERADSL 9 Unmodified _ALKERADSL_ 0 0 0 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.7835388183594 2 501.782556 1001.55056 3.3287 0.0016703 -0.47095 -0.00023631 2.8577 0.001434 501.7822424786755 14.155 0.08453 14.803 14.745 14.829 0.6482 22 13 2 0 0 0 0.015631 1 6349 6349 74.2 11.627 1 3154700 632 2505 496 496 623 623 0.04984554954910436 ALKERADSL 9 Unmodified _ALKERADSL_ 0 0 0 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 501.782556 1001.55056 2.9881 0.0014994 -0.91682 -0.00046004 2.0712 0.0010393 501.782336733246 14.227 0.067386 14.534 14.508 14.576 0.3069 -0.1347 -0.00028241 NaN 74.2 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1168900 633 2505 496 496 0.04984554954910436 ALKGISRPSV 10 Unmodified _ALKGISRPSV_ 0 0 0 ENSG00000196391|ENST00000354377|ZNF774 ENSG00000196391|ENST00000354377|ZNF774 ENSG00000196391|ENST00000354377|ZNF774 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.3193969726562 2 514.316566 1026.61858 3.257 0.0016751 0.90544 0.00046568 4.1624 0.0021408 514.3170615927394 19.55 0.26834 19.842 19.765 20.033 0.29239 29 22 2 0 0 0 0.76414 1 8903 8903 10.151 0.076642 1 233090 634 5742 497 497 624 624 0.10633424605566688 ALKGISRPSV 10 Unmodified _ALKGISRPSV_ 0 0 0 ENSG00000196391|ENST00000354377|ZNF774 ENSG00000196391|ENST00000354377|ZNF774 ENSG00000196391|ENST00000354377|ZNF774 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 514.316566 1026.61858 3.551 0.0018263 0.39581 0.00020357 3.9468 0.0020299 514.3169853288493 19.232 0.22276 19.89 19.763 19.986 0.6583 0.024159 -0.00030434 NaN 10.151 26 15 2 NaN NaN NaN NaN 0 NaN NaN 0 288770 635 5742 497 497 0.10633424605566688 ALKIKREL 8 Unmodified _ALKIKREL_ 0 0 0 ENSG00000185022|ENST00000338483|MAFF ENSG00000185022|ENST00000338483|MAFF ENSG00000185022|ENST00000338483|MAFF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.21917724609375 3 324.218443 969.633501 NaN NaN NaN NaN NaN NaN NaN 16.872 1 17.176 16.676 17.676 0.30438 0 0 0 0.87555 1 7640 7640 13.906 3.0821 1 636 5479 498 498 625 625 0.14746916473552574 ALKIKREL 8 Unmodified _ALKIKREL_ 0 0 0 ENSG00000185022|ENST00000338483|MAFF ENSG00000185022|ENST00000338483|MAFF ENSG00000185022|ENST00000338483|MAFF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.2193908691406 3 324.218443 969.633501 2.2169 0.00071875 0.26173 8.4859E-05 2.4786 0.00080361 324.2184259378881 16.891 0.60286 17.552 17.221 17.824 0.66072 91 53 2 0 0 0 0.62155 2 7501 7501;7550 12.241 2.8575 1 123390 637 5479 498 498 626;627 626 0.14746916473552574 ALKKVQVCLLP 11 Unmodified _ALKKVQVCLLP_ 0 0 0 nc|ENSG00000151414|Q8TDX7-2|NEK7 nc|ENSG00000151414|Q8TDX7-2|NEK7 nc|ENSG00000151414|Q8TDX7-2|NEK7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.5900573730469 3 404.58966 1210.74715 2.579 0.0010434 -1.3185 -0.00053346 1.2604 0.00050996 404.589067976146 33.229 0.47657 33.229 32.812 33.289 0 67 33 3 0 0 0 0.91068 1 14974 14974 1.3296 1.3296 1 1643000 638 9689 499 499 628 628 0.15020643524303523 ALKLKQKSL 9 Unmodified _ALKLKQKSL_ 0 0 0 nc|ENSG00000160679|Q9Y3Y2-3|CHTOP nc|ENSG00000160679|Q9Y3Y2-3|CHTOP nc|ENSG00000160679|Q9Y3Y2-3|CHTOP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.5664978027344 3 343.565732 1027.67537 1.979 0.00067992 0.25772 8.8542E-05 2.2367 0.00076846 343.5657972206822 13.271 0.26929 13.578 13.442 13.712 0.30727 46 19 3 0 0 0 0.053453 2 5985 5985;6033 35.612 2.2047 1 353930 639 9712 500 500 629;630 629 0.16263472162086146 ALKLKQKSL 9 Unmodified _ALKLKQKSL_ 0 0 0 nc|ENSG00000160679|Q9Y3Y2-3|CHTOP nc|ENSG00000160679|Q9Y3Y2-3|CHTOP nc|ENSG00000160679|Q9Y3Y2-3|CHTOP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 343.565732 1027.67537 2.0793 0.00071437 0.97782 0.00033595 3.0571 0.0010503 343.56608128756073 13.365 0.14715 13.608 13.518 13.666 0.24346 0.034264 0.00041868 NaN 35.612 14 11 2 NaN NaN NaN NaN 0 NaN NaN 0 189990 640 9712 500 500 0.16263472162086146 ALKPLAAAL 9 Unmodified _ALKPLAAAL_ 0 0 0 ENSG00000168394|ENST00000354258|TAP1;nc|ENSG00000168394|Q03518-2|TAP1 ENSG00000168394|ENST00000354258|TAP1 ENSG00000168394|ENST00000354258|TAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.28839111328125 2 434.286746 866.558939 2.9129 0.0012651 0.96453 0.00041888 3.8775 0.0016839 434.28699746112454 52.495 0.26334 52.758 52.651 52.915 0.26345 13 9 2 0 0 0 0.052704 1 24016 24016 46.021 15.796 1 927730 641 4624 501 501 631 631 0.12032153662153178 ALKRAATLVRP 11 Unmodified _ALKRAATLVRP_ 0 0 0 REV__nc|ENSG00000242612|Q9NUI1-2|DECR2 REV__nc|ENSG00000242612|Q9NUI1-2|DECR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.2591552734375 3 399.259302 1194.75608 NaN NaN NaN NaN NaN NaN NaN 40.14 1 40.94 40.44 41.44 0.80014 0 0 0 1.0062 1 18175 18175 2.6312 0.88896 1 + 642 14622 502 502 632 632 0.16648753204981404 ALKRHFKL 8 Unmodified _ALKRHFKL_ 0 0 0 ENSG00000151694|ENST00000310823|ADAM17;ENST00000478059.1_1_2:9667906-9695734:-|nuORF;nc|ENSG00000151694|P78536-2|ADAM17 ENSG00000151694|ENST00000310823|ADAM17 ENSG00000151694|ENST00000310823|ADAM17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.21929931640625 3 338.218666 1011.63417 1.7706 0.00059886 1.2708 0.00042981 3.0415 0.0010287 338.5535256635348 12.746 0.18952 13.053 12.936 13.125 0.30727 14 5 4 0 0 0 0.52517 1 5750 5750 14.838 4.0143 1 2244100 643 3725 503 503 633 633 0.12881755913281268 ALKRHFKL 8 Unmodified _ALKRHFKL_ 0 0 0 ENSG00000151694|ENST00000310823|ADAM17;ENST00000478059.1_1_2:9667906-9695734:-|nuORF;nc|ENSG00000151694|P78536-2|ADAM17 ENSG00000151694|ENST00000310823|ADAM17 ENSG00000151694|ENST00000310823|ADAM17 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 338.218666 1011.63417 2.4494 0.00082844 0.19852 6.7142E-05 2.6479 0.00089558 338.21857580188737 13.118 0.13272 13.118 13.021 13.154 0 0.03215 -0.00059619 NaN 14.838 10 5 2 NaN NaN NaN NaN 0 NaN NaN 0 258670 644 3725 503 503 0.12881755913281268 ALKRHFKL 8 Unmodified _ALKRHFKL_ 0 0 0 ENSG00000151694|ENST00000310823|ADAM17;ENST00000478059.1_1_2:9667906-9695734:-|nuORF;nc|ENSG00000151694|P78536-2|ADAM17 ENSG00000151694|ENST00000310823|ADAM17 ENSG00000151694|ENST00000310823|ADAM17 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 338.218666 1011.63417 1.7706 0.00059886 1.2708 0.00042981 3.0415 0.0010287 338.5535256635348 12.746 0.18952 13.053 12.936 13.125 0.30727 -0.03215 0.00049183 NaN 14.838 14 5 4 NaN NaN NaN NaN 0 NaN NaN 0 2244100 645 3725 503 503 0.12881755913281268 ALKRKKKKKRK 11 Unmodified _ALKRKKKKKRK_ 0 0 0 ENST00000565844.1_1_16:19721758-19726357:-|nuORF;ENSG00000103550|ENST00000219837|KNOP1 ENST00000565844.1_1_16:19721758-19726357:-|nuORF ENST00000565844.1_1_16:19721758-19726357:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 706.5638427734375 2 706.506629 1410.99871 NaN NaN NaN NaN NaN NaN NaN 56.041 1 56.819 56.319 57.319 0.77786 0 0 0 1.0072 1 25609 25609 1.3295 1.3295 1 646 1409 504 504 634 634 0.30964623000795655 ALKRMADAL 9 Unmodified _ALKRMADAL_ 0 0 0 nc|ENSG00000175198|P05165-3|PCCA;nc|ENSG00000175198|P05165-2|PCCA;ENSG00000175198|ENST00000376285|PCCA nc|ENSG00000175198|P05165-3|PCCA nc|ENSG00000175198|P05165-3|PCCA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.1926574707031 3 330.191788 987.553536 2.2488 0.00074253 -0.26208 -8.6537E-05 1.9867 0.00065599 330.1917481106612 28.117 0.63307 28.379 27.998 28.631 0.26245 83 44 3 0 0 0 0.5141 2 12789 12746;12789 12.241 1.4167 1 2146600 647 5018 505 505 635;636 636 0.05926106808044551 ALKRMADAL 9 Unmodified _ALKRMADAL_ 0 0 0 nc|ENSG00000175198|P05165-3|PCCA;nc|ENSG00000175198|P05165-2|PCCA;ENSG00000175198|ENST00000376285|PCCA nc|ENSG00000175198|P05165-3|PCCA nc|ENSG00000175198|P05165-3|PCCA MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 330.191788 987.553536 2.2488 0.00074253 -0.26208 -8.6537E-05 1.9867 0.00065599 330.1917481106612 28.117 0.63307 28.379 27.998 28.631 0.26245 0.03168 -0.00014825 NaN 12.241 83 44 3 NaN NaN NaN NaN 0 NaN NaN 0 2146600 648 5018 505 505 0.05926106808044551 ALLCRMFLYVF 11 Unmodified _ALLCRMFLYVF_ 0 0 0 REV__ENST00000427755.2_1_11:33037501-33047701:+|nuORF REV__ENST00000427755.2_1_11:33037501-33047701:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 688.0127563476562 2 688.366887 1374.71922 NaN NaN NaN NaN NaN NaN NaN 109.33 1 109.93 109.43 110.43 0.60264 0 0 0 1.0073 1 50427 50427 1.1933 0.12188 1 + 649 16230 506 506 637 637 0.046849972725340194 ALLGLFHL 8 Unmodified _ALLGLFHL_ 0 0 0 ENSG00000139131|ENST00000324868|YARS2 ENSG00000139131|ENST00000324868|YARS2 ENSG00000139131|ENST00000324868|YARS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 441.9409484863281 2 442.273638 882.532724 NaN NaN NaN NaN NaN NaN NaN 53.011 1 53.814 53.314 54.314 0.80351 0 0 0 0.91812 1 24160 24160 11.114 0 1 650 3128 507 507 638 638 0.08675884490708086 ALLGLFHL 8 Unmodified _ALLGLFHL_ 0 0 0 ENSG00000139131|ENST00000324868|YARS2 ENSG00000139131|ENST00000324868|YARS2 ENSG00000139131|ENST00000324868|YARS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 442.2754211425781 2 442.273638 882.532724 NaN NaN NaN NaN NaN NaN NaN 55.045 1 55.311 54.811 55.811 0.26543 0 0 0 0.91812 1 25164 25164 11.114 0 1 651 3128 507 507 639 639 0.08675884490708086 ALLIILLLIFF 11 Unmodified _ALLIILLLIFF_ 0 0 0 REV__ENST00000497404.1_1_1:111436939-111441814:+|nuORF REV__ENST00000497404.1_1_1:111436939-111441814:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 644.9403076171875 2 644.935786 1287.85702 NaN NaN NaN NaN NaN NaN NaN 23.161 1 23.846 23.346 24.346 0.68536 0 0 0 1.0071 1 10319 10319 1.4819 1.1313 1 + 652 12354 508 508 640 640 0.22460392135121765 ALLKKHEAL 9 Unmodified _ALLKKHEAL_ 0 0 0 nc|ENSG00000197694|Q13813-3|SPTAN1;nc|ENSG00000197694|Q13813|SPTAN1;ENSG00000197694|ENST00000372739|SPTAN1;SPTAN1|p.W2169Cfs*90|1|0.11|ENSG00000197694|chr9:128626632-128626632|G/-|frameshift_variant nc|ENSG00000197694|Q13813-3|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.5504150390625 3 341.550082 1021.62842 1.879 0.00064176 -0.53676 -0.00018333 1.3422 0.00045842 341.54978472357664 13.013 0.14345 13.32 13.216 13.359 0.30727 13 5 3 0 0 0 1.0755 1 5879 5879 2.7352 1.5419 1 84305 653 5834 509 509 641 641 0.11846612610929697 ALLKKHEAL 9 Unmodified _ALLKKHEAL_ 0 0 0 nc|ENSG00000197694|Q13813-3|SPTAN1;nc|ENSG00000197694|Q13813|SPTAN1;ENSG00000197694|ENST00000372739|SPTAN1;SPTAN1|p.W2169Cfs*90|1|0.11|ENSG00000197694|chr9:128626632-128626632|G/-|frameshift_variant nc|ENSG00000197694|Q13813-3|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 341.550082 1021.62842 2.6221 0.00089559 -1.4171 -0.00048402 1.205 0.00041157 341.54947392379336 12.776 0.13537 13.419 13.345 13.48 0.64272 0.04933 -0.00048543 NaN 2.7352 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 131570 654 5834 509 509 0.11846612610929697 ALLQKSFHV 9 Unmodified _ALLQKSFHV_ 0 0 0 ENSG00000167104|ENST00000349552|BPIFB6 ENSG00000167104|ENST00000349552|BPIFB6 ENSG00000167104|ENST00000349552|BPIFB6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.8079223632812 2 521.805834 1041.59712 3.3269 0.001736 1.4107 0.00073609 4.7376 0.0024721 521.8063805451382 43.27 0.50301 43.54 43.481 43.984 0.27021 49 28 2 0 0 0 0.76984 1 19775 19775 7.9102 1.187 1 1180300 655 4530 510 510 642 642 0.0779803957684635 ALLVFYITKRK 11 Unmodified _ALLVFYITKRK_ 0 0 0 CD2|p.K239Nfs*18|1|0.26|ENSG00000116824|chr1:116764582-116764582|A/-|frameshift_variant;ENSG00000116824|ENST00000369478|CD2 CD2|p.K239Nfs*18|1|0.26|ENSG00000116824|chr1:116764582-116764582|A/-|frameshift_variant CD2|p.K239Nfs*18|1|0.26|ENSG00000116824|chr1:116764582-116764582|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 676.4249267578125 2 676.426648 1350.83874 NaN NaN NaN NaN NaN NaN NaN 93.184 1 93.184 92.684 93.684 0 0 0 0 1.0071 1 49718 49718 1.4819 0.15237 1 656 109 511 511 643 643 0.1773565021308059 ALPEEYRDYFI 11 Unmodified _ALPEEYRDYFI_ 0 0 0 nc|ENSG00000134014|Q9H9T3-4|ELP3;nc|ENSG00000134014|Q9H9T3-5|ELP3;nc|ENSG00000134014|Q9H9T3-2|ELP3;ENSG00000134014|ENST00000256398|ELP3 nc|ENSG00000134014|Q9H9T3-4|ELP3 nc|ENSG00000134014|Q9H9T3-4|ELP3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 708.348876953125 2 708.345717 1414.67688 3.8713 0.0027422 -1.0722 -0.0007595 2.7991 0.0019827 708.3451380627009 61.351 0.10183 62.013 61.963 62.065 0.66261 11 6 2 0 0 0 0.13295 1 28112 28112 3.5965 0 1 773410 657 2782 512 512 644 644 -0.013869833304852364 ALPKDRLK 8 Unmodified _ALPKDRLK_ 0 0 0 ENST00000583270.1_1_18:46623573-46623861:-|nuORF;nc|ENSG00000141627|Q7RTS9-2|DYM;nc|ENSG00000141627|Q7RTS9|DYM;ENSG00000141627|ENST00000675505|DYM ENST00000583270.1_1_18:46623573-46623861:-|nuORF ENST00000583270.1_1_18:46623573-46623861:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.74566650390625 2 470.800552 939.58655 3.0864 0.0014531 0.87473 0.00041182 3.9611 0.0018649 470.8006828318188 44.029 0.1651 44.678 44.558 44.723 0.64872 10 5 2 0 0 0 0.1113 1 20132 20132 18.135 0 1 621220 658 3277 513 513 645 645 0.11434056922416858 ALPSKLPTF 9 Unmodified _ALPSKLPTF_ 0 0 0 ENST00000572021.5_1_17:54969063-54989474:-|nuORF;ENSG00000121060|ENST00000316881|TRIM25 ENST00000572021.5_1_17:54969063-54989474:-|nuORF ENST00000572021.5_1_17:54969063-54989474:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.2901916503906 2 487.289485 972.564418 2.8769 0.0014019 1.1187 0.00054514 3.9956 0.001947 487.2895179737162 59.177 0.32103 59.936 59.779 60.1 0.75894 45 22 3 0 0 0 0.063575 1 27194 27194 41.84 5.7954 1 846980 659 2223 514 514 646 646 0.0770383245398989 ALPSKLPTF 9 Unmodified _ALPSKLPTF_ 0 0 0 ENST00000572021.5_1_17:54969063-54989474:-|nuORF;ENSG00000121060|ENST00000316881|TRIM25 ENST00000572021.5_1_17:54969063-54989474:-|nuORF ENST00000572021.5_1_17:54969063-54989474:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.29071044921875 2 487.289485 972.564418 3.1572 0.0015385 -0.73668 -0.00035898 2.4206 0.0011795 487.28916839996384 60.114 0.62984 60.37 60.041 60.671 0.25578 70 30 3 0 0 0 0.010018 4 27506 27464;27506;27556;27605 81.89 24.419 1 2335600 660 2223 514 514 647;648;649;650 648 0.0770383245398989 ALPSKLPTF 9 Unmodified _ALPSKLPTF_ 0 0 0 ENST00000572021.5_1_17:54969063-54989474:-|nuORF;ENSG00000121060|ENST00000316881|TRIM25 ENST00000572021.5_1_17:54969063-54989474:-|nuORF ENST00000572021.5_1_17:54969063-54989474:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.2909240722656 2 487.289485 972.564418 3.2123 0.0015653 -0.25593 -0.00012471 2.9564 0.0014406 487.289105408254 59.517 0.65087 60.182 59.809 60.46 0.66503 61 28 3 0 0 0 0.017293 3 27248 27194;27248;27302 71.922 14.451 1 2464200 661 2223 514 514 651;652;653 652 0.0770383245398989 ALPYFWEHF 9 Unmodified _ALPYFWEHF_ 0 0 0 ENSG00000254772|ENST00000329251|EEF1G;nc|ENSG00000254772|P26641-2|EEF1G;ENST00000526409.5_1_11:62327153-62342310:-|nuORF ENSG00000254772|ENST00000329251|EEF1G ENSG00000254772|ENST00000329251|EEF1G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 605.29296875 2 605.290017 1208.56548 3.6364 0.0022011 1.1343 0.0006866 4.7707 0.0028877 605.2905106251691 84.241 0.27063 84.488 84.333 84.604 0.24757 24 13 2 0 0 0 0.062556 1 38793 38793 42.095 31.271 1 345700 662 6279 515 515 654 654 -0.03045953177092997 ALQGKMKLAV 10 Unmodified _ALQGKMKLAV_ 0 0 0 ENST00000394634.6_2_4:110678924-110681473:-|nuORF;ENST00000394635.7_2_4:110678924-110681470:-|nuORF ENST00000394634.6_2_4:110678924-110681473:-|nuORF ENST00000394634.6_2_4:110678924-110681473:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 353.5506896972656 3 353.551205 1057.63179 2.56 0.00090508 2.3018 0.0008138 4.8618 0.0017189 353.88724096971737 14.312 0.13923 14.96 14.896 15.035 0.6482 18 14 2 0 0 0 0.38486 1 6448 6448 21.59 8.7175 1 2056700 663 7544 516 516 655 655 0.10527539393297047 ALQITKHLL 9 Unmodified _ALQITKHLL_ 0 0 0 REV__nc|ENSG00000095370|Q8N5H7-3|SH2D3C REV__nc|ENSG00000095370|Q8N5H7-3|SH2D3C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.6438598632812 2 518.829309 1035.64407 NaN NaN NaN NaN NaN NaN NaN 45.43 1 46.256 45.756 46.756 0.82621 0 0 0 0.8984 1 20691 20691 3.9444 1.8846 1 + 664 10760 517 517 656 656 0.12766899127996112 ALQLRLMVP 9 Unmodified _ALQLRLMVP_ 0 0 0 nc|ENSG00000087111|Q96S52-2|PIGS;ENSG00000087111|ENST00000308360|PIGS;ENST00000577594.5_1_17:26890803-26898514:-|nuORF nc|ENSG00000087111|Q96S52-2|PIGS nc|ENSG00000087111|Q96S52-2|PIGS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.5480651855469 3 347.547684 1039.62122 2.4207 0.0008413 -1.4021 -0.00048729 1.0186 0.00035401 347.5469530786036 56.059 0.32964 56.325 56.101 56.431 0.26543 33 13 3 0 0 0 1.0894 1 25601 25601 2.4985 0.21571 1 2084200 665 996 518 518 657 657 0.10299556738868887 ALQLRLMVP 9 Unmodified _ALQLRLMVP_ 0 0 0 nc|ENSG00000087111|Q96S52-2|PIGS;ENSG00000087111|ENST00000308360|PIGS;ENST00000577594.5_1_17:26890803-26898514:-|nuORF nc|ENSG00000087111|Q96S52-2|PIGS nc|ENSG00000087111|Q96S52-2|PIGS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.5480041503906 3 347.547684 1039.62122 2.4088 0.00083717 -0.99604 -0.00034617 1.4127 0.000491 347.5471239250321 55.269 0.38958 55.937 55.647 56.036 0.66798 40 14 3 0 0 0 1.0894 1 25227 25227 2.4985 0.21571 1 1989900 666 996 518 518 658 658 0.10299556738868887 ALRAILHF 8 Unmodified _ALRAILHF_ 0 0 0 LRRK2|p.I1533Sfs*15|1|0.16|ENSG00000188906|chr12:40314027-40314027|A/-|frameshift_variant;ENSG00000188906|ENST00000298910|LRRK2 LRRK2|p.I1533Sfs*15|1|0.16|ENSG00000188906|chr12:40314027-40314027|A/-|frameshift_variant LRRK2|p.I1533Sfs*15|1|0.16|ENSG00000188906|chr12:40314027-40314027|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 314.19696044921875 3 314.19575 939.565421 NaN NaN NaN NaN NaN NaN NaN 42.184 1 42.184 41.684 42.684 0 0 0 0 0.99035 1 19195 19195 0.45834 0 1 667 5690 519 519 659 659 0.09322091613569228 ALRFLELVQL 10 Unmodified _ALRFLELVQL_ 0 0 0 ENSG00000196455|ENST00000356763|PIK3R4 ENSG00000196455|ENST00000356763|PIK3R4 ENSG00000196455|ENST00000356763|PIK3R4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 601.6997680664062 2 601.368798 1200.72304 NaN NaN NaN NaN NaN NaN NaN 19.541 1 20.199 19.699 20.699 0.6583 0 0 0 1.0001 1 8868 8868 1.6526 0.17072 1 668 5746 520 520 660 660 0.130711263622743 ALRIIVIMRF 10 Unmodified _ALRIIVIMRF_ 0 0 0 REV__ENST00000307729.11_1_10:21884331-21901337:+|nuORF REV__ENST00000307729.11_1_10:21884331-21901337:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 411.2628479003906 3 411.261766 1230.76347 NaN NaN NaN NaN NaN NaN NaN 38.054 1 38.054 37.554 38.554 0 0 0 0 1.0018 1 17269 17269 0.15932 0 1 + 669 15238 521 521 661 661 0.15731769481044466 ALRIVAKYLKR 11 Unmodified _ALRIVAKYLKR_ 0 0 0 nc|ENSG00000285791|Q8IWW8-4|ADHFE1;nc|ENSG00000285791|Q8IWW8-3|ADHFE1;nc|ENSG00000285791|Q8IWW8-2|ADHFE1;ENSG00000147576|ENST00000396623|ADHFE1 nc|ENSG00000285791|Q8IWW8-4|ADHFE1 nc|ENSG00000285791|Q8IWW8-4|ADHFE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 666.0291137695312 2 665.937714 1329.86087 NaN NaN NaN NaN NaN NaN NaN 65.248 1 65.957 65.457 66.457 0.70891 0 0 0 1.0059 1 30835 30835 2.9952 0.26005 1 670 3574 522 522 662 662 0.20913874681514244 ALRMVFIP 8 Unmodified _ALRMVFIP_ 0 0 0 REV__nc|ENSG00000278540|Q13085-3|ACACA REV__nc|ENSG00000278540|Q13085-3|ACACA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 316.19146728515625 3 316.189608 945.546994 NaN NaN NaN NaN NaN NaN NaN 17.18 1 17.484 16.984 17.984 0.30438 0 0 0 0.99035 1 7780 7780 1.6526 0.17072 1 + 671 14751 523 523 663 663 0.07204213647355573 ALRNLRYRRGI 11 Unmodified _ALRNLRYRRGI_ 0 0 0 ENSG00000137871|ENST00000267807|ZNF280D;nc|ENSG00000285253|Q6N043-2|ZNF280D;nc|ENSG00000285253|Q6N043-4|ZNF280D ENSG00000137871|ENST00000267807|ZNF280D ENSG00000137871|ENST00000267807|ZNF280D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.28619384765625 3 463.284621 1386.83203 3.4419 0.0015946 -0.34082 -0.0001579 3.1011 0.0014367 463.28458981074084 95.478 0.94168 95.745 95.086 96.028 0.2675 92 56 2 0 0 0 0.91391 1 43773 43773 0.08335 0 1 490620 672 3051 524 524 664 664 0.1540915010509707 ALRQVLALL 9 Unmodified _ALRQVLALL_ 0 0 0 ENST00000378970.4_1_X:30326590-30326719:-|nuORF ENST00000378970.4_1_X:30326590-30326719:-|nuORF ENST00000378970.4_1_X:30326590-30326719:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 332.8910217285156 3 332.890327 995.649151 2.346 0.00078095 0.3901 0.00012986 2.7361 0.00091081 332.8903785480255 36.575 0.72115 37.368 36.927 37.648 0.79342 75 33 4 0 0 0 0.09451 1 16632 16632 24.991 4.5764 1 2103500 673 7443 525 525 665 665 0.15115202990614307 ALRRILYSTWC 11 Unmodified _ALRRILYSTWC_ 0 0 0 nc|ENSG00000189410|Q6ZV89-2|SH2D5;ENSG00000189410|ENST00000444387|SH2D5 nc|ENSG00000189410|Q6ZV89-2|SH2D5 nc|ENSG00000189410|Q6ZV89-2|SH2D5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 691.2463989257812 2 691.374089 1380.73363 NaN NaN NaN NaN NaN NaN NaN 85.55 1 86.22 85.72 86.72 0.67061 0 0 0 1.0072 1 39396 39396 1.3295 0.92882 1 674 5713 526 526 666 666 0.058487857450700176 ALRRKKVL 8 Unmodified _ALRRKKVL_ 0 0 0 ENSG00000173272|ENST00000309451|MZT2A;ENSG00000152082|ENST00000281871|MZT2B ENSG00000173272|ENST00000309451|MZT2A ENSG00000173272|ENST00000309451|MZT2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.5671081542969 3 328.566066 982.676368 NaN NaN NaN NaN NaN NaN NaN 10.257 1 10.553 10.053 11.053 0.2956 0 0 0 0.55493 1 4512 4512 26.884 6.43 1 675 3736 527 527 667 667 0.18433731321647429 ALRRLRPRTR 10 Unmodified _ALRRLRPRTR_ 0 0 0 ENSG00000100365|ENST00000248899|NCF4;nc|ENSG00000100365|Q15080-3|NCF4 ENSG00000100365|ENST00000248899|NCF4 ENSG00000100365|ENST00000248899|NCF4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 432.3804016113281 3 432.281211 1293.8218 NaN NaN NaN NaN NaN NaN NaN 61.159 1 61.822 61.322 62.322 0.66261 0 0 0 0.99995 1 28004 28004 1.7423 1.1154 1 676 1211 528 528 668 668 0.1866458717054229 ALRRPGPSLVL 11 Unmodified _ALRRPGPSLVL_ 0 0 0 ENSG00000084092|ENST00000264230|NOA1 ENSG00000084092|ENST00000264230|NOA1 ENSG00000084092|ENST00000264230|NOA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.5865478515625 3 393.583785 1177.72953 NaN NaN NaN NaN NaN NaN NaN 41.296 1 41.565 41.065 42.065 0.26904 0 0 0 1.0074 1 18807 18807 1.1098 0.41209 1 677 951 529 529 669 669 0.14777064313648225 ALRSRKSKILN 11 Unmodified _ALRSRKSKILN_ 0 0 0 ENST00000510006.5_1_5:102343180-102364608:+|nuORF ENST00000510006.5_1_5:102343180-102364608:+|nuORF ENST00000510006.5_1_5:102343180-102364608:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 643.4083862304688 2 643.406778 1284.799 4.1365 0.0026614 -0.99979 -0.00064327 3.1367 0.0020182 643.4061345928407 103.52 0.045753 104.12 104.1 104.15 0.59822 10 9 2 0 0 0 0.91391 1 47893 47893 0.30703 0 1 415410 678 8551 530 530 670 670 0.16799523262443472 ALSADCSKAII 11 Unmodified _ALSADCSKAII_ 0 0 0 REV__ENSG00000111254|ENST00000228850|AKAP3 REV__ENSG00000111254|ENST00000228850|AKAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.2942504882812 2 546.291899 1090.56925 3.6231 0.0019793 0.58115 0.00031748 4.2043 0.0022968 546.2920994281566 64.482 0.32123 65.139 64.998 65.319 0.65672 32 13 3 0 0 0 0.092227 1 29586 29586 43.772 1.9328 1 2842500 + 679 11226 531 531 671 671 0.027583485344621295 ALSADCSKAII 11 Unmodified _ALSADCSKAII_ 0 0 0 REV__ENSG00000111254|ENST00000228850|AKAP3 REV__ENSG00000111254|ENST00000228850|AKAP3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 546.291899 1090.56925 3.6279 0.0019819 0.42545 0.00023242 4.0534 0.0022143 546.2919405797328 65.123 0.2953 65.371 65.225 65.521 0.24802 0.11611 -0.00012072 NaN 43.772 34 13 3 NaN NaN NaN NaN 0 NaN NaN 0 3110300 + 680 11226 531 531 0.027583485344621295 ALSADCSKAII 11 Unmodified _ALSADCSKAII_ 0 0 0 REV__ENSG00000111254|ENST00000228850|AKAP3 REV__ENSG00000111254|ENST00000228850|AKAP3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 546.291899 1090.56925 3.6231 0.0019793 0.58115 0.00031748 4.2043 0.0022968 546.2920994281566 64.482 0.32123 65.139 64.998 65.319 0.65672 -0.11611 4.9399E-05 NaN 43.772 32 13 3 NaN NaN NaN NaN 0 NaN NaN 0 2842500 + 681 11226 531 531 0.027583485344621295 ALSSEGMIKL 10 Unmodified _ALSSEGMIKL_ 0 0 0 REV__nc|nan|Q5JPI3-2|C3orf38 REV__nc|nan|Q5JPI3-2|C3orf38 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.1963195800781 3 350.195087 1047.56343 2.5171 0.00088149 0.17966 6.2915E-05 2.6968 0.0009444 350.1952019059285 15.039 1.1905 15.039 14.731 15.922 0 323 139 4 0 0 0 0.90216 1 6794 6794 3.5871 0.59182 1 552150 + 682 13779 532 532 672 672 0.04155250022790824 ALSTSTMPKI 10 Unmodified _ALSTSTMPKI_ 0 0 0 ENSG00000167332|ENST00000396950|OR51E2 ENSG00000167332|ENST00000396950|OR51E2 ENSG00000167332|ENST00000396950|OR51E2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.1961364746094 3 350.195087 1047.56343 2.5171 0.00088149 0.17966 6.2915E-05 2.6968 0.0009444 350.1952019059285 15.039 1.1905 15.039 14.731 15.922 0 323 139 4 0 0 0 0.7769 1 6750 6750 9.544 1.0997 1 552150 683 4545 533 533 673 673 0.04155250022790824 ALTLKNNAL 9 Unmodified _ALTLKNNAL_ 0 0 0 REV__ENSG00000174348|ENST00000312553|PODN REV__ENSG00000174348|ENST00000312553|PODN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.2966003417969 2 479.290017 956.565481 2.8804 0.0013805 1.7658 0.00084633 4.6462 0.0022269 479.28998172118145 19.213 0.10866 19.51 19.448 19.556 0.29753 22 11 3 0 0 0 0.68496 1 8731 8731 9.3474 0 1 713720 + 684 13630 534 534 674 674 0.0854604682289164 ALTLLRPGRR 10 Unmodified _ALTLLRPGRR_ 0 0 0 REV__ENST00000557056.5_1_14:24800458-24802093:-|nuORF REV__ENST00000557056.5_1_14:24800458-24802093:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 384.7349853515625 3 384.915646 1151.72511 2.5239 0.00097151 4.4693 0.0017203 6.9933 0.0026918 385.2522233977051 59.788 0.049522 59.788 59.758 59.808 0 4 2 2 0 0 0 0.12676 1 27661 27661 3.3196 0 1 427540 + 685 17314 535 535 675 675 0.15531599890755388 ALTLTTHAL 9 Unmodified _ALTLTTHAL_ 0 0 0 REV__nc|ENSG00000114993|Q9BST9-3|RTKN REV__nc|ENSG00000114993|Q9BST9-3|RTKN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.7777404785156 2 470.776742 939.538931 3.2993 0.0015532 -0.51578 -0.00024282 2.7835 0.0013104 470.7764510393596 31.813 0.27571 32.068 31.854 32.129 0.25452 26 23 2 0 0 0 0.27958 1 14423 14423 19.439 0 1 216440 + 686 11339 536 536 676 676 0.06674357931547092 ALVELVVILT 10 Unmodified _ALVELVVILT_ 0 0 0 REV__ENST00000421951.5_1_2:89072537-89077837:+|nuORF REV__ENST00000421951.5_1_2:89072537-89077837:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.7445678710938 2 535.347 1068.67945 3.0481 0.0016318 -4.17 -0.0022324 -1.1218 -0.00060058 535.3444015756645 39.839 0.17791 40.106 39.99 40.168 0.26696 7 5 2 0 0 0 0.12676 1 18140 18140 6.2058 0 1 151010 + 687 16181 537 537 677 677 0.1478551686514038 ALVISLIFNIS 11 Unmodified _ALVISLIFNIS_ 0 0 0 ENST00000484927.5_1_3:108541759-108565958:+|nuORF;ENST00000478830.1_1_3:108541759-108557851:+|nuORF;ENST00000493604.5_1_3:108541759-108565993:+|nuORF;ENSG00000163519|ENST00000295756|TRAT1 ENST00000484927.5_1_3:108541759-108565958:+|nuORF ENST00000484927.5_1_3:108541759-108565958:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.2443542480469 3 397.244547 1188.71181 NaN NaN NaN NaN NaN NaN NaN 79.713 1 79.962 79.462 80.462 0.24947 0 0 0 1.0073 1 36704 36704 1.2148 0.14337 1 688 4216 538 538 678 678 0.1250030426815556 ALVISLIFNIS 11 Unmodified _ALVISLIFNIS_ 0 0 0 ENST00000484927.5_1_3:108541759-108565958:+|nuORF;ENST00000478830.1_1_3:108541759-108557851:+|nuORF;ENST00000493604.5_1_3:108541759-108565993:+|nuORF;ENSG00000163519|ENST00000295756|TRAT1 ENST00000484927.5_1_3:108541759-108565958:+|nuORF ENST00000484927.5_1_3:108541759-108565958:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.243896484375 3 397.244547 1188.71181 NaN NaN NaN NaN NaN NaN NaN 77.777 1 78.44 77.94 78.94 0.66303 0 0 0 1.0073 1 35843 35843 1.2148 0 1 689 4216 538 538 679 679 0.1250030426815556 ALVMRLLEL 9 Unmodified _ALVMRLLEL_ 0 0 0 ENST00000432228.1_1_2:222826463-222827672:+|nuORF ENST00000432228.1_1_2:222826463-222827672:+|nuORF ENST00000432228.1_1_2:222826463-222827672:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.8002319335938 2 529.325545 1056.63654 NaN NaN NaN NaN NaN NaN NaN 46.527 1 46.793 46.293 47.293 0.26561 0 0 0 0.42757 1 21265 21265 21.747 2.4897 1 690 7856 539 539 680 680 0.11048423536067276 ALVRPLKKILL 11 Unmodified _ALVRPLKKILL_ 0 0 0 REV__nc|ENSG00000114374|O00507-2|USP9Y REV__nc|ENSG00000114374|O00507-2|USP9Y MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 632.4778442382812 2 632.447383 1262.88021 NaN NaN NaN NaN NaN NaN NaN 89.884 1 89.884 89.384 90.384 0 0 0 0 1.008 1 47075 47075 0.30703 0 1 + 691 11320 540 540 681 681 0.25928830972475225 ALVSVSALAI 10 Unmodified _ALVSVSALAI_ 0 0 0 REV__nc|ENSG00000204217|Q13873-2|BMPR2 REV__nc|ENSG00000204217|Q13873-2|BMPR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.2966003417969 2 472.294768 942.574983 NaN NaN NaN NaN NaN NaN NaN 53.304 1 53.304 52.804 53.804 0 0 0 0 0.91283 1 24415 24415 19.257 6.2145 1 + 692 14404 541 541 682 682 0.10139815108414041 ALVSVSALAI 10 Unmodified _ALVSVSALAI_ 0 0 0 REV__nc|ENSG00000204217|Q13873-2|BMPR2 REV__nc|ENSG00000204217|Q13873-2|BMPR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.2962951660156 2 472.294768 942.574983 2.4682 0.0011657 0.86305 0.00040762 3.3312 0.0015733 472.2951089792747 52.189 0.23585 53 52.869 53.105 0.81065 25 15 2 0 0 0 0.14785 1 23791 23791 46.021 2.1627 1 385490 + 693 14404 541 541 683 683 0.10139815108414041 ALVSVSALAI 10 Unmodified _ALVSVSALAI_ 0 0 0 REV__nc|ENSG00000204217|Q13873-2|BMPR2 REV__nc|ENSG00000204217|Q13873-2|BMPR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.296875 2 472.294768 942.574983 3.0106 0.0014219 -0.32984 -0.00015578 2.6808 0.0012661 472.2945458314262 52.857 0.17296 53.121 53.011 53.184 0.26344 15 8 2 0 0 0 0.065124 1 24163 24163 58.679 7.2636 1 820420 + 694 14404 541 541 684 684 0.10139815108414041 ALWLRWRRPWF 11 Unmodified _ALWLRWRRPWF_ 0 0 0 REV__ENST00000358933.9_1_16:67906988-67910776:+|nuORF REV__ENST00000358933.9_1_16:67906988-67910776:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.63330078125 3 529.633362 1585.87826 NaN NaN NaN NaN NaN NaN NaN 83.291 1 83.538 83.038 84.038 0.24722 0 0 0 1.0082 1 38340 38340 0 0 1 + 695 15588 542 542 685 685 0.10875215007195038 ALWLVRLRP 9 Unmodified _ALWLVRLRP_ 0 0 0 REV__ENST00000462742.1_1_21:45751724-45754149:-|nuORF REV__ENST00000462742.1_1_21:45751724-45754149:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.8071899414062 2 562.358568 1122.70258 NaN NaN NaN NaN NaN NaN NaN 95.793 1 96.401 95.901 96.901 0.60769 0 0 0 0.90965 1 44049 44049 2.3027 0.65011 1 + 696 12869 543 543 686 686 0.14614000493111234 ALWMWARD 8 Unmodified _ALWMWARD_ 0 0 0 REV__ENSG00000185304|ENST00000398146|RGPD2;REV__ENSG00000153201|ENST00000283195|RANBP2 REV__ENSG00000153201|ENST00000283195|RANBP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.1963195800781 3 350.172617 1047.49602 2.5236 0.00088371 1.248 0.000437 3.7716 0.0013207 350.1728225417642 15.556 0.72052 15.556 15.263 15.984 0 112 85 2 0 0 0 0.14202 1 6794 6794 4.3292 4.3292 1 60707 + 697 12673;14013 544 544 687 687 -0.025827353975046208 ALYRGLHSRL 10 Unmodified _ALYRGLHSRL_ 0 0 0 REV__ENSG00000075618|ENST00000382361|FSCN1 REV__ENSG00000075618|ENST00000382361|FSCN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.4324951171875 2 593.346189 1184.67783 NaN NaN NaN NaN NaN NaN NaN 44.759 1 44.759 44.259 45.259 0 0 0 0 1.0001 1 20465 20465 1.6526 0.17072 1 + 698 10532 545 545 688 688 0.09287320619750972 AMKLSGKLFR 10 Unmodified _AMKLSGKLFR_ 0 0 0 REV__nc|ENSG00000121797|O00421-2|CCRL2 REV__nc|ENSG00000121797|O00421-2|CCRL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.8453979492188 2 575.841894 1149.66923 3.8342 0.0022079 0.86034 0.00049542 4.6946 0.0027033 575.8429567145848 85.461 1.5858 86.127 85.344 86.93 0.66566 128 85 2 0 0 0 0.93658 1 39130 39130 1.3295 1.3295 1 2449700 + 699 17913 546 546 689 689 0.10038630658914371 AMLQTNRGV 9 Unmodified _AMLQTNRGV_ 0 0 0 REV__nc|ENSG00000091128|A4D0S4-3|LAMB4 REV__nc|ENSG00000091128|A4D0S4-3|LAMB4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.51251220703125 3 330.51141 988.512399 NaN NaN NaN NaN NaN NaN NaN 62.532 1 62.781 62.281 63.281 0.24965 0 0 0 0.89451 1 28631 28631 4.897 0.95262 1 + 700 10726 547 547 690 690 0.0176834576860756 AMMKKMQL 8 Unmodified _AMMKKMQL_ 0 0 0 ENSG00000162434|ENST00000342505|JAK1;JAK1|p.L722Wfs*49|1|0.27|ENSG00000162434|chr1:64844841-64844841|G/-|frameshift_variant ENSG00000162434|ENST00000342505|JAK1 ENSG00000162434|ENST00000342505|JAK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.7595520019531 2 490.758126 979.5017 NaN NaN NaN NaN NaN NaN NaN 26.922 1 27.544 27.044 28.044 0.62179 0 0 0 0.23905 1 12342 12342 32.117 17.535 1 701 4139 548 548 691 691 0.011129037982982481 AMNMLHELQ 9 Unmodified _AMNMLHELQ_ 0 0 0 nc|ENSG00000226807|Q6ZUA9|MROH5 nc|ENSG00000226807|Q6ZUA9|MROH5 nc|ENSG00000226807|Q6ZUA9|MROH5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.7594604492188 2 543.757169 1085.49979 3.1496 0.0017126 0.17829 9.6948E-05 3.3279 0.0018096 543.7576185178445 38.002 0.24155 38.798 38.663 38.904 0.79552 16 7 3 0 0 0 0.09451 1 17222 17222 34.102 1.797 1 929200 702 9837 549 549 692 692 -0.03954433685976255 AMNMLHELQ 9 Unmodified _AMNMLHELQ_ 0 0 0 nc|ENSG00000226807|Q6ZUA9|MROH5 nc|ENSG00000226807|Q6ZUA9|MROH5 nc|ENSG00000226807|Q6ZUA9|MROH5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.7598876953125 2 543.757169 1085.49979 3.3701 0.0018325 0.043252 2.3518E-05 3.4133 0.001856 543.7576309969484 38.454 0.35486 39.088 38.894 39.248 0.63389 31 13 3 0 0 0 0.09451 1 17562 17562 34.102 6.4736 1 556610 703 9837 549 549 693 693 -0.03954433685976255 AMNMLHELQ 9 Unmodified _AMNMLHELQ_ 0 0 0 nc|ENSG00000226807|Q6ZUA9|MROH5 nc|ENSG00000226807|Q6ZUA9|MROH5 nc|ENSG00000226807|Q6ZUA9|MROH5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 543.757169 1085.49979 3.2804 0.0017837 0.49009 0.00026649 3.7705 0.0020502 543.7574894969024 38.863 0.26225 39.127 38.974 39.236 0.26408 0.10598 0.00020411 NaN 34.102 20 9 3 NaN NaN NaN NaN 0 NaN NaN 0 943150 704 9837 549 549 -0.03954433685976255 AMVVRVRAPPR 11 Unmodified _AMVVRVRAPPR_ 0 0 0 REV__ENST00000577004.1_1_13:23469166-23490201:-|nuORF REV__ENST00000577004.1_1_13:23469166-23490201:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 626.8800048828125 2 626.376966 1250.73938 3.8339 0.0024015 0.29975 0.00018776 4.1337 0.0025892 626.3768714903662 40.222 0.38222 40.222 39.9 40.282 0 26 14 2 0 0 0 0.91104 1 18172 18172 1.1933 0 1 598150 + 705 17478 550 550 694 694 0.1240392904737746 ANARRRLK 8 Unmodified _ANARRRLK_ 0 0 0 ENSG00000170549|ENST00000302006|IRX1;ENSG00000150051|ENST00000419761|MKX;ENSG00000159387|ENST00000290552|IRX6;ENSG00000170561|ENST00000302057|IRX2;ENSG00000113430|ENST00000231357|IRX4;nc|ENSG00000113430|P78413-2|IRX4;nc|ENSG00000176842|P78411-3|IRX5;ENST00000558597.1_2_16:54966274-54967782:+|nuORF;nc|ENSG00000176842|P78411-2|IRX5;ENSG00000176842|ENST00000394636|IRX5;ENST00000558180.2_1_16:54318400-54319510:-|nuORF;ENSG00000177508|ENST00000329734|IRX3 ENSG00000170549|ENST00000302006|IRX1;nc|ENSG00000176842|P78411-3|IRX5;ENST00000558180.2_1_16:54318400-54319510:-|nuORF ENST00000558180.2_1_16:54318400-54319510:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.81439208984375 2 492.812316 983.61008 NaN NaN NaN NaN NaN NaN NaN 25.926 1 25.926 25.426 26.426 0 0 0 0 0.99035 1 11650 11650 0.69038 0 1 706 5120;5090;4756 551 551 695 695 0.11761915479610252 ANDELHVM 8 Unmodified _ANDELHVM_ 0 0 0 LYST|p.R3095Efs*37|1|0.09|ENSG00000143669|chr1:235724060-235724060|T/-|frameshift_variant;ENSG00000143669|ENST00000389793|LYST LYST|p.R3095Efs*37|1|0.09|ENSG00000143669|chr1:235724060-235724060|T/-|frameshift_variant LYST|p.R3095Efs*37|1|0.09|ENSG00000143669|chr1:235724060-235724060|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.71533203125 2 464.713285 927.412016 NaN NaN NaN NaN NaN NaN NaN 33.415 1 33.669 33.169 34.169 0.25389 0 0 0 0.88162 1 15213 15213 13.508 5.5977 1 707 3386 552 552 696 696 -0.05459311285073909 ANFITKTIFK 10 Unmodified _ANFITKTIFK_ 0 0 0 ENSG00000188738|ENST00000424728|FSIP2;nc|ENSG00000188738|Q5CZC0-2|FSIP2 ENSG00000188738|ENST00000424728|FSIP2 ENSG00000188738|ENST00000424728|FSIP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.9024658203125 3 394.900891 1181.68084 2.991 0.0011811 0.96072 0.00037939 3.9517 0.0015605 394.90110269478106 82.07 1.0983 82.73 82.375 83.473 0.65998 86 63 2 0 0 0 0.90778 1 37744 37744 3.3196 0.58445 1 771720 708 5679 553 553 697 697 0.09727150953881392 ANHWNFHWIYW 11 Unmodified _ANHWNFHWIYW_ 0 0 0 ENSG00000103375|ENST00000219660|AQP8 ENSG00000103375|ENST00000219660|AQP8 ENSG00000103375|ENST00000219660|AQP8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 787.3606567382812 2 787.359828 1572.7051 NaN NaN NaN NaN NaN NaN NaN 92.086 1 92.086 91.586 92.586 0 0 0 0 1.008 1 48830 48830 0.35063 0 1 709 1394 554 554 698 698 -0.058341958398614224 ANLSGRMTLS 10 Unmodified _ANLSGRMTLS_ 0 0 0 ENSG00000188996|ENST00000380907|HUS1B ENSG00000188996|ENST00000380907|HUS1B ENSG00000188996|ENST00000380907|HUS1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.8542785644531 3 350.518453 1048.53353 2.6301 0.00092189 1.0508 0.00036831 3.6809 0.0012902 350.8531638741431 13.055 0.1981 13.698 13.58 13.778 0.64272 25 9 5 0 0 0 0.63441 1 5856 5856 10.315 0.77126 1 2146100 710 5696 555 555 699 699 0.011203110774658853 ANQHYRAWFTF 11 Unmodified _ANQHYRAWFTF_ 0 0 0 REV__ENST00000494718.5_1_X:51643260-51645023:+|nuORF REV__ENST00000494718.5_1_X:51643260-51645023:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 720.5703735351562 2 720.84401 1439.67347 NaN NaN NaN NaN NaN NaN NaN 17.279 1 17.279 16.779 17.779 0 0 0 0 1.0061 1 7674 7674 2.7352 1.2533 1 + 711 13789 556 556 700 700 -0.028781885938542473 ANSESYEV 8 Unmodified _ANSESYEV_ 0 0 0 REV__nc|ENSG00000134775|Q2V2M9-2|FHOD3 REV__nc|ENSG00000134775|Q2V2M9-2|FHOD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 898.380126953125 1 898.378868 897.371591 3.7746 0.003391 0.52965 0.00047583 4.3042 0.0038668 898.3794147672949 37.942 0.31353 38.576 38.389 38.703 0.63388 16 10 2 0 0 0 0.49219 2 17315 17315;17379 21.747 0 1 235080 + 712 11981 557 557 701;702 701 -0.08119954403855445 APAAAEHRRWR 11 Unmodified _APAAAEHRRWR_ 0 0 0 REV__ENST00000558590.1_1_14:103395319-103397951:+|nuORF REV__ENST00000558590.1_1_14:103395319-103397951:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 660.8291015625 2 660.855244 1319.69593 NaN NaN NaN NaN NaN NaN NaN 72.979 1 73.678 73.178 74.178 0.69881 0 0 0 0.9645 1 35165 35165 10.074 1.3285 1 + 713 13211 558 558 703 703 0.048874555944621534 APAAAEPPEFD 11 Unmodified _APAAAEPPEFD_ 0 0 0 ENST00000426799.1_1_X:65041564-65042074:-|nuORF ENST00000426799.1_1_X:65041564-65042074:-|nuORF ENST00000426799.1_1_X:65041564-65042074:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.8350830078125 2 557.756204 1113.49785 NaN NaN NaN NaN NaN NaN NaN 64.489 1 64.489 63.989 64.989 0 0 0 0 0.99968 1 30563 30563 6.7232 0.51738 1 714 7812 559 559 704 704 -0.054354478985715104 APAAAHPFPR 10 Unmodified _APAAAHPFPR_ 0 0 0 REV__ENST00000418310.5_1_7:73535897-73535987:+|nuORF REV__ENST00000418310.5_1_7:73535897-73535987:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.7811279296875 2 517.780151 1033.54575 NaN NaN NaN NaN NaN NaN NaN 79.213 1 79.213 78.713 79.713 0 0 0 0 0.98473 1 39105 39105 7.9102 2.6795 1 + 715 16148 560 560 705 705 0.03031715602787699 APAAAPQGRRA 11 Unmodified _APAAAPQGRRA_ 0 0 0 REV__ENST00000540386.5_1_11:66131737-66133984:-|nuORF REV__ENST00000540386.5_1_11:66131737-66133984:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.2990112304688 2 533.299239 1064.58392 NaN NaN NaN NaN NaN NaN NaN 72.837 1 73.535 73.035 74.035 0.69881 0 0 0 0.99968 1 35092 35092 6.7232 0 1 + 716 17211 561 561 706 706 0.05421601517468844 APAAAVRGVF 10 Unmodified _APAAAVRGVF_ 0 0 0 REV__ENSG00000110955|ENST00000262030|ATP5F1B REV__ENSG00000110955|ENST00000262030|ATP5F1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.0320129394531 2 479.777077 957.5396 NaN NaN NaN NaN NaN NaN NaN 76.628 1 77.292 76.792 77.792 0.66387 0 0 0 0.98985 1 35304 35304 7.9102 1.5561 1 + 717 11219 562 562 707 707 0.059131973712851504 APAADMNIWF 10 Unmodified _APAADMNIWF_ 0 0 0 REV__ENSG00000145888|ENST00000274576|GLRA1 REV__ENSG00000145888|ENST00000274576|GLRA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.0528564453125 2 568.265684 1134.51682 NaN NaN NaN NaN NaN NaN NaN 64.134 1 64.849 64.349 65.349 0.71521 0 0 0 0.98473 1 30177 30177 7.9102 0 1 + 718 12459 563 563 708 708 -0.04506189808535055 APAADRQCRPV 11 Unmodified _APAADRQCRPV_ 0 0 0 REV__ENST00000496720.1_1_22:50722364-50724624:-|nuORF REV__ENST00000496720.1_1_22:50722364-50724624:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.3023681640625 2 592.303664 1182.59277 NaN NaN NaN NaN NaN NaN NaN 73.829 1 74.515 74.015 75.015 0.68662 0 0 0 0.95662 1 35637 35637 10.824 2.9138 1 + 719 16854 564 564 709 709 0.008782070916140583 APAADTHEGH 10 Unmodified _APAADTHEGH_ 0 0 0 ENSG00000071553|ENST00000369762|ATP6AP1 ENSG00000071553|ENST00000369762|ATP6AP1 ENSG00000071553|ENST00000369762|ATP6AP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 502.97589111328125 2 503.222862 1004.43117 NaN NaN NaN NaN NaN NaN NaN 63.54 1 64.263 63.763 64.763 0.72236 0 0 0 0.98473 1 29773 29773 7.9102 1.5561 1 720 779 565 565 710 710 -0.07086638669807144 APAAEDDSSCS 11 Unmodified _APAAEDDSSCS_ 0 0 0 REV__ENSG00000182095|ENST00000430969|TNRC18 REV__ENSG00000182095|ENST00000430969|TNRC18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.6944580078125 2 526.695486 1051.37642 NaN NaN NaN NaN NaN NaN NaN 77.87 1 78.431 77.931 78.931 0.56091 0 0 0 0.99968 1 37808 37808 6.7232 1.4925 1 + 721 13870 566 566 711 711 -0.1472143832340862 APAAEFTTLFF 11 Unmodified _APAAEFTTLFF_ 0 0 0 REV__ENSG00000162490|ENST00000294485|DRAXIN REV__ENSG00000162490|ENST00000294485|DRAXIN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 607.8079833984375 2 607.808239 1213.60193 NaN NaN NaN NaN NaN NaN NaN 71.05 1 71.753 71.253 72.253 0.70386 0 0 0 0.99968 1 34097 34097 6.7232 0 1 + 722 12938 567 567 712 712 0.003668789289349661 APAAEPCFS 9 Unmodified _APAAEPCFS_ 0 0 0 REV__ENSG00000132017|ENST00000254337|DCAF15 REV__ENSG00000132017|ENST00000254337|DCAF15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 446.3188171386719 2 446.697103 891.379654 NaN NaN NaN NaN NaN NaN NaN 62.576 1 63.307 62.807 63.807 0.73077 0 0 0 0.7971 1 29199 29199 9.3474 2.9933 1 + 723 11876 568 568 713 713 -0.07038098688076388 APAAFTETPSD 11 Unmodified _APAAFTETPSD_ 0 0 0 REV__ENSG00000168005|ENST00000294244|SPINDOC REV__ENSG00000168005|ENST00000294244|SPINDOC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.645263671875 2 553.753661 1105.49277 NaN NaN NaN NaN NaN NaN NaN 69.231 1 69.231 68.731 69.731 0 0 0 0 0.99968 1 33403 33403 6.7232 0 1 + 724 13321 569 569 714 714 -0.055757517611937146 APAAGGEEEWG 11 Unmodified _APAAGGEEEWG_ 0 0 0 ENSG00000186834|ENST00000332499|HEXIM1 ENSG00000186834|ENST00000332499|HEXIM1 ENSG00000186834|ENST00000332499|HEXIM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.33154296875 2 537.230353 1072.44615 NaN NaN NaN NaN NaN NaN NaN 68.953 1 69.656 69.156 70.156 0.70218 0 0 0 0.99968 1 32919 32919 6.7232 2.3939 1 725 5588 570 570 715 715 -0.08717191592472773 APAAGHTRQ 9 Unmodified _APAAGHTRQ_ 0 0 0 REV__ENSG00000197483|ENST00000598519|ZNF628 REV__ENSG00000197483|ENST00000598519|ZNF628 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.63861083984375 2 454.738483 907.462413 NaN NaN NaN NaN NaN NaN NaN 73.904 1 74.591 74.091 75.091 0.68662 0 0 0 0.7971 1 35687 35687 9.3474 0.75416 1 + 726 14282 571 571 716 716 0.004979791549430956 APAAGQARW 9 Unmodified _APAAGQARW_ 0 0 0 REV__ENST00000586749.1_1_19:649375-650400:-|nuORF REV__ENST00000586749.1_1_19:649375-650400:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.24200439453125 2 464.243401 926.472249 NaN NaN NaN NaN NaN NaN NaN 72.728 1 73.392 72.892 73.892 0.66398 0 0 0 0.63602 1 33385 33385 14.582 2.0501 1 + 727 17544 572 572 717 717 0.006071671603194773 APAAGQSRDS 10 Unmodified _APAAGQSRDS_ 0 0 0 ENSG00000174718|ENST00000312561|RESF1 ENSG00000174718|ENST00000312561|RESF1 ENSG00000174718|ENST00000312561|RESF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.1585998535156 2 480.230687 958.446822 NaN NaN NaN NaN NaN NaN NaN 70.85 1 70.85 70.35 71.35 0 0 0 0 0.98473 1 34421 34421 7.9102 1.5561 1 728 4992 573 573 718 718 -0.03406352152762793 APAAGSGPLIH 11 Unmodified _APAAGSGPLIH_ 0 0 0 REV__ENST00000565022.1_1_16:31212908-31213633:-|nuORF REV__ENST00000565022.1_1_16:31212908-31213633:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.76971435546875 2 495.771991 989.529429 NaN NaN NaN NaN NaN NaN NaN 70.189 1 70.189 69.689 70.689 0 0 0 0 0.95662 1 34020 34020 10.824 2.2306 1 + 729 17409 574 574 719 719 0.03424589646044751 APAAGTPNLKQ 11 Unmodified _APAAGTPNLKQ_ 0 0 0 REV__nc|ENSG00000136933|Q7Z6M1-2|RABEPK REV__nc|ENSG00000136933|Q7Z6M1-2|RABEPK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 534.1631469726562 2 534.29583 1066.57711 NaN NaN NaN NaN NaN NaN NaN 88.371 1 88.424 87.924 88.924 0.052155 0 0 0 0.94958 1 44990 44990 11.495 4.2055 1 + 730 12089 575 575 720 720 0.04648243846213518 APAAGTWVLQA 11 Unmodified _APAAGTWVLQA_ 0 0 0 ENSG00000196208|ENST00000381486|GREB1;nc|ENSG00000196208|Q4ZG55-4|GREB1 ENSG00000196208|ENST00000381486|GREB1 ENSG00000196208|ENST00000381486|GREB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.7518920898438 2 542.792924 1083.57129 NaN NaN NaN NaN NaN NaN NaN 68.198 1 68.198 67.698 68.698 0 0 0 0 0.99968 1 32815 32815 6.7232 1.4925 1 731 5725 576 576 721 721 0.032851453345756454 APAAHFLLPIP 11 Unmodified _APAAHFLLPIP_ 0 0 0 ENST00000005340.9_1_17:7129795-7129870:-|nuORF ENST00000005340.9_1_17:7129795-7129870:-|nuORF ENST00000005340.9_1_17:7129795-7129870:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.8378295898438 2 573.837134 1145.65972 NaN NaN NaN NaN NaN NaN NaN 77.855 1 78.416 77.916 78.916 0.56091 0 0 0 0.99968 1 37800 37800 6.7232 0.51738 1 732 6375 577 577 722 722 0.09271185645047808 APAAHPKKLF 10 Unmodified _APAAHPKKLF_ 0 0 0 ENST00000335263.9_1_14:102689302-102689416:+|nuORF ENST00000335263.9_1_14:102689302-102689416:+|nuORF ENST00000335263.9_1_14:102689302-102689416:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.3240356445312 2 540.321651 1078.62875 NaN NaN NaN NaN NaN NaN NaN 61.862 1 62.593 62.093 63.093 0.73077 0 0 0 0.98473 1 28749 28749 7.9102 3.5809 1 733 7020 578 578 723 723 0.09258032330785682 APAAKAESSL 10 Unmodified _APAAKAESSL_ 0 0 0 MAGEB16|p.P61S|1|0.24|ENSG00000189023|chrX:35802377-35802377|C/T|missense_variant MAGEB16|p.P61S|1|0.24|ENSG00000189023|chrX:35802377-35802377|C/T|missense_variant MAGEB16|p.P61S|1|0.24|ENSG00000189023|chrX:35802377-35802377|C/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.75555419921875 2 472.756007 943.497461 NaN NaN NaN NaN NaN NaN NaN 66.834 1 67.539 67.039 68.039 0.7047 0 0 0 0.95544 1 31707 31707 12.532 0.89125 1 734 9508 579 579 724 724 0.023451771722420744 APAAKKHALF 10 Unmodified _APAAKKHALF_ 0 0 0 REV__CON__Q3SZ57 REV__CON__Q3SZ57 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.4476318359375 2 527.313826 1052.6131 NaN NaN NaN NaN NaN NaN NaN 75.778 1 76.035 75.535 76.535 0.25704 0 0 0 0.98866 1 34880 34880 7.2892 2.0586 1 + + 735 10095 580 580 725 725 0.08889745813735317 APAAKRPHR 9 Unmodified _APAAKRPHR_ 0 0 0 REV__ENST00000606367.1_1_6:31165433-31165721:-|nuORF REV__ENST00000606367.1_1_6:31165433-31165721:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.6372375488281 2 502.299042 1002.58353 NaN NaN NaN NaN NaN NaN NaN 73.952 1 74.211 73.711 74.711 0.25876 0 0 0 0.8911 1 33982 33982 9.3474 1.4373 1 + 736 17665 581 581 726 726 0.08234226588274396 APAALAPRLTL 11 Unmodified _APAALAPRLTL_ 0 0 0 REV__ENST00000459919.1_1_1:151261826-151261955:+|nuORF REV__ENST00000459919.1_1_1:151261826-151261955:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.3380126953125 2 547.340041 1092.66553 NaN NaN NaN NaN NaN NaN NaN 77.309 1 77.87 77.37 78.37 0.56091 0 0 0 0.99968 1 37492 37492 6.7232 0 1 + 737 16472 582 582 727 727 0.12290284156688358 APAALFPTWK 10 Unmodified _APAALFPTWK_ 0 0 0 ENSG00000176092|ENST00000308182|CRYBG2 ENSG00000176092|ENST00000308182|CRYBG2 ENSG00000176092|ENST00000308182|CRYBG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.15966796875 2 551.30821 1100.60187 NaN NaN NaN NaN NaN NaN NaN 69.069 1 69.772 69.272 70.272 0.70218 0 0 0 0.98473 1 33001 33001 7.9102 0.62092 1 738 5063 583 583 728 728 0.05558923719604536 APAALGRQRLR 11 Unmodified _APAALGRQRLR_ 0 0 0 REV__ENST00000579243.1_1_17:72916650-72919343:-|nuORF REV__ENST00000579243.1_1_17:72916650-72919343:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.6165771484375 2 604.870363 1207.72617 NaN NaN NaN NaN NaN NaN NaN 74.433 1 74.433 73.933 74.933 0 0 0 0 0.9645 1 36357 36357 10.074 0.6908 1 + 739 17498 584 584 729 729 0.13061814259640414 APAALKVVR 9 Unmodified _APAALKVVR_ 0 0 0 ENST00000488281.1_1_14:47669981-47670080:-|nuORF ENST00000488281.1_1_14:47669981-47670080:-|nuORF ENST00000488281.1_1_14:47669981-47670080:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 462.9152526855469 2 462.803094 923.591636 NaN NaN NaN NaN NaN NaN NaN 66.545 1 66.545 66.045 67.045 0 0 0 0 0.7971 1 31820 31820 9.3474 1.4373 1 740 8363 585 585 730 730 0.12678360785037057 APAALLLLLLP 11 Unmodified _APAALLLLLLP_ 0 0 0 REV__ENSG00000166033|ENST00000368984|HTRA1 REV__ENSG00000166033|ENST00000368984|HTRA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.8729858398438 2 552.873185 1103.73182 NaN NaN NaN NaN NaN NaN NaN 73.856 1 74.521 74.021 75.021 0.6644 0 0 0 0.99968 1 33979 33979 6.7232 1.9672 1 + 741 13206 586 586 731 731 0.18410099998754959 APAALLPFAL 10 Unmodified _APAALLPFAL_ 0 0 0 REV__SLC15A4|p.G462Wfs*65|1|0.36|ENSG00000139370|chr12:128800884-128800885|-/A|frameshift_variant REV__SLC15A4|p.G462Wfs*65|1|0.36|ENSG00000139370|chr12:128800884-128800885|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.298828125 2 492.299853 982.585153 NaN NaN NaN NaN NaN NaN NaN 67.512 1 67.512 67.012 68.012 0 0 0 0 0.98473 1 32404 32404 7.9102 1.187 1 + 742 12211 587 587 732 732 0.09316422833660454 APAALRSRGP 10 Unmodified _APAALRSRGP_ 0 0 0 ENST00000333130.3_1_22:19419690-19419801:+|nuORF ENST00000333130.3_1_22:19419690-19419801:+|nuORF ENST00000333130.3_1_22:19419690-19419801:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.02801513671875 2 498.290882 994.567212 NaN NaN NaN NaN NaN NaN NaN 74.189 1 74.189 73.689 74.689 0 0 0 0 0.94083 1 36217 36217 14.838 2.3067 1 743 7010 588 588 733 733 0.06971100631517402 APAALRSRWPQ 11 Unmodified _APAALRSRWPQ_ 0 0 0 nc|ENSG00000020129|Q9UBB6-2|NCDN;ENSG00000020129|ENST00000373243|NCDN nc|ENSG00000020129|Q9UBB6-2|NCDN nc|ENSG00000020129|Q9UBB6-2|NCDN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 626.8469848632812 2 626.849096 1251.68364 NaN NaN NaN NaN NaN NaN NaN 96.7 1 97.302 96.802 97.802 0.6019 0 0 0 0.99968 1 44459 44459 6.7232 0.51738 1 744 451 589 589 734 734 0.06786419131412913 APAALSWQGWW 11 Unmodified _APAALSWQGWW_ 0 0 0 ENST00000383463.8_1_3:129023850-129024000:+|nuORF ENST00000383463.8_1_3:129023850-129024000:+|nuORF ENST00000383463.8_1_3:129023850-129024000:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 636.8114013671875 2 636.811648 1271.60874 NaN NaN NaN NaN NaN NaN NaN 62.556 1 63.287 62.787 63.787 0.73077 0 0 0 0.99968 1 29186 29186 6.7232 0 1 745 7497 590 590 735 735 -0.016197633998217498 APAALWWR 8 Unmodified _APAALWWR_ 0 0 0 ENST00000280987.8_1_14:35515634-35522487:+|nuORF ENST00000280987.8_1_14:35515634-35522487:+|nuORF ENST00000280987.8_1_14:35515634-35522487:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.4948425292969 2 485.766512 969.518471 NaN NaN NaN NaN NaN NaN NaN 72.986 1 73.245 72.745 73.745 0.25876 0 0 0 0.91812 1 33513 33513 11.114 3.2043 1 746 6691 591 591 736 736 0.03249232062410101 APAAMRIRW 9 Unmodified _APAAMRIRW_ 0 0 0 REV__ENST00000469379.5_2_16:11023067-11027744:-|nuORF REV__ENST00000469379.5_2_16:11023067-11027744:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.2989501953125 2 536.297653 1070.58075 NaN NaN NaN NaN NaN NaN NaN 68.87 1 68.87 68.37 69.37 0 0 0 0 0.7971 1 33191 33191 9.3474 1.4373 1 + 747 16576 592 592 737 737 0.048286351390970594 APAAMSSEMEP 11 Unmodified _APAAMSSEMEP_ 0 0 0 ENST00000556567.5_1_14:89291033-89307657:+|nuORF ENST00000556567.5_1_14:89291033-89307657:+|nuORF ENST00000556567.5_1_14:89291033-89307657:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.8182983398438 2 560.736099 1119.45765 NaN NaN NaN NaN NaN NaN NaN 65.92 1 65.92 65.42 66.42 0 0 0 0 0.99968 1 31430 31430 6.7232 0.51738 1 748 8929 593 593 738 738 -0.09730453884981216 APAAPAALRAA 11 Unmodified _APAAPAALRAA_ 0 0 0 ENST00000502486.5_2_4:42153705-42154329:-|nuORF ENST00000502486.5_2_4:42153705-42154329:-|nuORF ENST00000502486.5_2_4:42153705-42154329:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.26934814453125 2 490.287808 978.561064 NaN NaN NaN NaN NaN NaN NaN 73.441 1 74.139 73.639 74.639 0.69881 0 0 0 0.95662 1 35417 35417 10.824 0.75 1 749 8479 594 594 739 739 0.07092582399968705 APAAPAKPEK 10 Unmodified _APAAPAKPEK_ 0 0 0 REV__nc|ENSG00000083067|Q9HCF6-8|TRPM3 REV__nc|ENSG00000083067|Q9HCF6-8|TRPM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.0627136230469 2 490.282192 978.549831 NaN NaN NaN NaN NaN NaN NaN 68.762 1 68.762 68.262 69.262 0 0 0 0 0.92749 1 33128 33128 16.942 0 1 + 750 10622 595 595 740 740 0.05969760305845284 APAAPALSERP 11 Unmodified _APAAPALSERP_ 0 0 0 REV__ENSG00000103154|ENST00000305202|NECAB2 REV__ENSG00000103154|ENST00000305202|NECAB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.29638671875 2 540.29583 1078.57711 NaN NaN NaN NaN NaN NaN NaN 80.735 1 80.735 80.235 81.235 0 0 0 0 0.97845 1 40152 40152 8.7454 1.4562 1 + 751 10959 596 596 741 741 0.04096243846242942 APAAPCSCWPR 11 Unmodified _APAAPCSCWPR_ 0 0 0 ENST00000522223.1_7:102233482-102234290:-|nuORF ENST00000522223.1_7:102233482-102234290:-|nuORF ENST00000522223.1_7:102233482-102234290:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 579.9198608398438 2 579.762786 1157.51102 NaN NaN NaN NaN NaN NaN NaN 62.059 1 62.79 62.29 63.29 0.73077 0 0 0 0.95662 1 28870 28870 10.824 2.2306 1 752 8648 597 597 742 742 -0.06143611591824083 APAAPFHPGVQ 11 Unmodified _APAAPFHPGVQ_ 0 0 0 REV__ENSG00000204946|ENST00000434415|ZNF783 REV__ENSG00000204946|ENST00000434415|ZNF783 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.2843017578125 2 546.285266 1090.55598 NaN NaN NaN NaN NaN NaN NaN 105.83 1 105.88 105.38 106.38 0.04837 0 0 0 0.95662 1 57274 57274 10.824 2.9138 1 + 753 14444 598 598 743 743 0.0143227853739063 APAAPGSFWS 10 Unmodified _APAAPGSFWS_ 0 0 0 REV__ENST00000561658.5_1_16:67486328-67515058:-|nuORF REV__ENST00000561658.5_1_16:67486328-67515058:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.7317810058594 2 495.737617 989.460681 NaN NaN NaN NaN NaN NaN NaN 61.897 1 61.897 61.397 62.397 0 0 0 0 0.95544 1 28934 28934 12.532 4.6214 1 + 754 17374 599 599 744 744 -0.03447074653672644 APAAPGYFL 9 Unmodified _APAAPGYFL_ 0 0 0 REV__nc|ENSG00000257923|P39880-9|CUX1 REV__nc|ENSG00000257923|P39880-9|CUX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 453.7578125 2 453.739628 905.464704 NaN NaN NaN NaN NaN NaN NaN 73.792 1 74.478 73.978 74.978 0.68662 0 0 0 0.63602 1 35611 35611 14.582 3.7578 1 + 755 18152 600 600 745 745 0.008190148400558428 APAAPGYFL 9 Unmodified _APAAPGYFL_ 0 0 0 REV__nc|ENSG00000257923|P39880-9|CUX1 REV__nc|ENSG00000257923|P39880-9|CUX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 453.6842041015625 2 453.739628 905.464704 NaN NaN NaN NaN NaN NaN NaN 73.813 1 74.499 73.999 74.999 0.68662 0 0 0 0.7971 1 35625 35625 9.3474 0 1 + 756 18152 600 600 746 746 0.008190148400558428 APAAPGYFL 9 Unmodified _APAAPGYFL_ 0 0 0 REV__nc|ENSG00000257923|P39880-9|CUX1 REV__nc|ENSG00000257923|P39880-9|CUX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.7415466308594 2 453.739628 905.464704 2.477 0.0011239 -0.39248 -0.00017808 2.0845 0.00094582 453.7395448039152 74.691 0.32794 74.95 74.759 75.087 0.2583 66 31 3 0 0 0 0.23832 1 34356 34356 20.871 6.2895 1 955010 + 757 18152 600 600 747 747 0.008190148400558428 APAAPGYFL 9 Unmodified _APAAPGYFL_ 0 0 0 REV__nc|ENSG00000257923|P39880-9|CUX1 REV__nc|ENSG00000257923|P39880-9|CUX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.7414855957031 2 453.739628 905.464704 2.543 0.0011539 -0.7945 -0.0003605 1.7485 0.00079336 453.74002108342046 75.703 0.27718 75.96 75.817 76.094 0.25705 47 22 3 0 0 0 0.92809 1 34855 34855 5.2307 0.47466 1 738550 + 758 18152 600 600 748 748 0.008190148400558428 APAAPGYFL 9 Unmodified _APAAPGYFL_ 0 0 0 REV__nc|ENSG00000257923|P39880-9|CUX1 REV__nc|ENSG00000257923|P39880-9|CUX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 453.8912353515625 2 453.739628 905.464704 2.5045 0.0011364 -0.60676 -0.00027531 1.8978 0.00086109 453.74000123918546 74.049 0.32146 74.713 74.575 74.896 0.6644 86 38 3 0 0 0 0.37584 1 34020 34020 14.582 7.2925 1 948950 + 759 18152 600 600 749 749 0.008190148400558428 APAAPGYFL 9 Unmodified _APAAPGYFL_ 0 0 0 REV__nc|ENSG00000257923|P39880-9|CUX1 REV__nc|ENSG00000257923|P39880-9|CUX1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 453.739628 905.464704 2.2211 0.0010078 -0.66199 -0.00030037 1.5591 0.00070743 453.7399765522831 75.584 0.24184 75.584 75.401 75.643 0 -0.18807 6.5894E-05 NaN 5.2307 29 18 3 NaN NaN NaN NaN 0 NaN NaN 0 769710 + 760 18152 600 600 0.008190148400558428 APAAPGYFL 9 Unmodified _APAAPGYFL_ 0 0 0 REV__nc|ENSG00000257923|P39880-9|CUX1 REV__nc|ENSG00000257923|P39880-9|CUX1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 453.739628 905.464704 2.543 0.0011539 -0.7945 -0.0003605 1.7485 0.00079336 453.74002108342046 75.703 0.27718 75.96 75.817 76.094 0.25705 0.18807 -5.4351E-05 NaN 5.2307 47 22 3 NaN NaN NaN NaN 0 NaN NaN 0 738550 + 761 18152 600 600 0.008190148400558428 APAAPGYFL 9 Unmodified _APAAPGYFL_ 0 0 0 REV__nc|ENSG00000257923|P39880-9|CUX1 REV__nc|ENSG00000257923|P39880-9|CUX1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 453.739628 905.464704 2.477 0.0011239 -0.39248 -0.00017808 2.0845 0.00094582 453.7395448039152 74.691 0.32794 74.95 74.759 75.087 0.2583 0.11827 8.3846E-05 NaN 20.871 66 31 3 NaN NaN NaN NaN 0 NaN NaN 0 955010 + 762 18152 600 600 0.008190148400558428 APAAPHKMMC 10 Unmodified _APAAPHKMMC_ 0 0 0 ENST00000531123.5_1_1:33290993-33299636:+|nuORF;ENST00000356689.7_1_1:33290993-33299636:+|nuORF ENST00000531123.5_1_1:33290993-33299636:+|nuORF ENST00000531123.5_1_1:33290993-33299636:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.8643798828125 2 528.743008 1055.47146 NaN NaN NaN NaN NaN NaN NaN 65.808 1 65.808 65.308 66.308 0 0 0 0 0.95544 1 31365 31365 12.532 5.8084 1 763 7159 601 601 750 750 -0.05405454866877335 APAAPHLPTA 10 Unmodified _APAAPHLPTA_ 0 0 0 REV__ZNF831|p.S1009Afs*56|1|0.26|ENSG00000124203|chr20:59194040-59194040|C/-|frameshift_variant REV__ZNF831|p.S1009Afs*56|1|0.26|ENSG00000124203|chr20:59194040-59194040|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.2606201171875 2 473.261259 944.507966 NaN NaN NaN NaN NaN NaN NaN 67.942 1 68.644 68.144 69.144 0.70218 0 0 0 0.95544 1 32353 32353 12.532 3.1841 1 + 764 11642 602 602 751 751 0.03349204617313717 APAAPHLPTA 10 Unmodified _APAAPHLPTA_ 0 0 0 REV__ZNF831|p.S1009Afs*56|1|0.26|ENSG00000124203|chr20:59194040-59194040|C/-|frameshift_variant REV__ZNF831|p.S1009Afs*56|1|0.26|ENSG00000124203|chr20:59194040-59194040|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.2607421875 2 473.261259 944.507966 NaN NaN NaN NaN NaN NaN NaN 68.035 1 68.738 68.238 69.238 0.70218 0 0 0 0.95544 1 32412 32412 12.532 2.4576 1 + 765 11642 602 602 752 752 0.03349204617313717 APAAPHLPTA 10 Unmodified _APAAPHLPTA_ 0 0 0 REV__ZNF831|p.S1009Afs*56|1|0.26|ENSG00000124203|chr20:59194040-59194040|C/-|frameshift_variant REV__ZNF831|p.S1009Afs*56|1|0.26|ENSG00000124203|chr20:59194040-59194040|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.25958251953125 2 473.261259 944.507966 NaN NaN NaN NaN NaN NaN NaN 68.474 1 69.176 68.676 69.676 0.70218 0 0 0 0.95544 1 32647 32647 12.532 0 1 + 766 11642 602 602 753 753 0.03349204617313717 APAAPHLPTA 10 Unmodified _APAAPHLPTA_ 0 0 0 REV__ZNF831|p.S1009Afs*56|1|0.26|ENSG00000124203|chr20:59194040-59194040|C/-|frameshift_variant REV__ZNF831|p.S1009Afs*56|1|0.26|ENSG00000124203|chr20:59194040-59194040|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.26007080078125 2 473.261259 944.507966 NaN NaN NaN NaN NaN NaN NaN 71.188 1 71.891 71.391 72.391 0.70386 0 0 0 0.95544 1 34176 34176 12.532 3.1841 1 + 767 11642 602 602 754 754 0.03349204617313717 APAAPHLPTA 10 Unmodified _APAAPHLPTA_ 0 0 0 REV__ZNF831|p.S1009Afs*56|1|0.26|ENSG00000124203|chr20:59194040-59194040|C/-|frameshift_variant REV__ZNF831|p.S1009Afs*56|1|0.26|ENSG00000124203|chr20:59194040-59194040|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.2609558105469 2 473.261259 944.507966 NaN NaN NaN NaN NaN NaN NaN 71.483 1 72.187 71.687 72.687 0.70386 0 0 0 0.95544 1 34333 34333 12.532 0 1 + 768 11642 602 602 755 755 0.03349204617313717 APAAPHLPTA 10 Unmodified _APAAPHLPTA_ 0 0 0 REV__ZNF831|p.S1009Afs*56|1|0.26|ENSG00000124203|chr20:59194040-59194040|C/-|frameshift_variant REV__ZNF831|p.S1009Afs*56|1|0.26|ENSG00000124203|chr20:59194040-59194040|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.25958251953125 2 473.261259 944.507966 NaN NaN NaN NaN NaN NaN NaN 71.632 1 72.336 71.836 72.836 0.70386 0 0 0 0.95544 1 34416 34416 12.532 0 1 + 769 11642 602 602 756 756 0.03349204617313717 APAAPHLPTA 10 Unmodified _APAAPHLPTA_ 0 0 0 REV__ZNF831|p.S1009Afs*56|1|0.26|ENSG00000124203|chr20:59194040-59194040|C/-|frameshift_variant REV__ZNF831|p.S1009Afs*56|1|0.26|ENSG00000124203|chr20:59194040-59194040|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.259765625 2 473.261259 944.507966 NaN NaN NaN NaN NaN NaN NaN 71.905 1 72.609 72.109 73.109 0.70386 0 0 0 0.95544 1 34568 34568 12.532 0 1 + 770 11642 602 602 757 757 0.03349204617313717 APAAPHPPG 9 Unmodified _APAAPHPPG_ 0 0 0 ENST00000278833.3_3_11:62380746-62380866:+|nuORF ENST00000278833.3_3_11:62380746-62380866:+|nuORF ENST00000278833.3_3_11:62380746-62380866:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 407.71258544921875 2 407.713945 813.413337 NaN NaN NaN NaN NaN NaN NaN 62.683 1 63.405 62.905 63.905 0.72236 0 0 0 0.44891 1 29277 29277 20.871 0 1 771 6687 603 603 758 758 -0.000833091340041392 APAAPKLKIF 10 Unmodified _APAAPKLKIF_ 0 0 0 ENSG00000275793|ENST00000619918|RIMBP3;ENSG00000274600|ENST00000620804|RIMBP3B;ENSG00000183246|ENST00000433039|RIMBP3C ENSG00000275793|ENST00000619918|RIMBP3 ENSG00000275793|ENST00000619918|RIMBP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.2550048828125 2 528.334227 1054.6539 NaN NaN NaN NaN NaN NaN NaN 64.366 1 64.366 63.866 64.866 0 0 0 0 0.99704 1 30476 30476 7.9102 3.5809 1 772 5371 604 604 759 759 0.12876087133349756 APAAPLRAPA 10 Unmodified _APAAPLRAPA_ 0 0 0 REV__ENST00000427004.5_1_6:33378256-33380059:+|nuORF REV__ENST00000427004.5_1_6:33378256-33380059:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 467.8677978515625 2 467.777077 933.5396 NaN NaN NaN NaN NaN NaN NaN 63.08 1 63.802 63.302 64.302 0.72236 0 0 0 0.95544 1 29515 29515 12.532 0 1 + 773 16223 605 605 760 760 0.07017197371260409 APAAPLVQF 9 Unmodified _APAAPLVQF_ 0 0 0 REV__ENST00000421019.1_1_20:48894484-48894863:+|nuORF REV__ENST00000421019.1_1_20:48894484-48894863:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 457.260986328125 2 457.260728 912.506903 NaN NaN NaN NaN NaN NaN NaN 63.862 1 64.577 64.077 65.077 0.71521 0 0 0 0.7971 1 29972 29972 9.3474 0 1 + 774 16174 606 606 761 761 0.04714990248419326 APAAPNRSRR 10 Unmodified _APAAPNRSRR_ 0 0 0 REV__ENST00000328086.11_1_16:25268609-25269107:-|nuORF REV__ENST00000328086.11_1_16:25268609-25269107:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.3087768554688 2 548.310138 1094.60572 NaN NaN NaN NaN NaN NaN NaN 71.126 1 71.83 71.33 72.33 0.70386 0 0 0 0.95544 1 34144 34144 12.532 2.4576 1 + 775 15361 607 607 762 762 0.06220406266015743 APAAPPAEPLH 11 Unmodified _APAAPPAEPLH_ 0 0 0 REV__ENSG00000132821|ENST00000373461|VSTM2L REV__ENSG00000132821|ENST00000373461|VSTM2L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.7844848632812 2 535.785099 1069.55564 NaN NaN NaN NaN NaN NaN NaN 73.087 1 73.087 72.587 73.587 0 0 0 0 0.95662 1 35589 35589 10.824 0 1 + 776 11913 608 608 763 763 0.0236485881750923 APAAPPGKPV 10 Unmodified _APAAPPGKPV_ 0 0 0 ENST00000263269.3_1_19:48947279-48947732:+|nuORF ENST00000263269.3_1_19:48947279-48947732:+|nuORF ENST00000263269.3_1_19:48947279-48947732:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 452.7680969238281 2 452.766178 903.517802 NaN NaN NaN NaN NaN NaN NaN 73.927 1 74.592 74.092 75.092 0.6644 0 0 0 0.98473 1 34016 34016 7.9102 1.5561 1 777 6586 609 609 764 764 0.06218392622713509 APAAPPLRPG 10 Unmodified _APAAPPLRPG_ 0 0 0 ENST00000274605.5_1_5:177540505-177546575:+|nuORF ENST00000274605.5_1_5:177540505-177546575:+|nuORF ENST00000274605.5_1_5:177540505-177546575:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.7813415527344 2 473.777077 945.5396 NaN NaN NaN NaN NaN NaN NaN 65.728 1 65.728 65.228 66.228 0 0 0 0 0.95544 1 31328 31328 12.532 0 1 778 6668 610 610 765 765 0.06465197371267095 APAAPPPLKD 10 Unmodified _APAAPPPLKD_ 0 0 0 ENSG00000132846|ENST00000255198|ZBED3 ENSG00000132846|ENST00000255198|ZBED3 ENSG00000132846|ENST00000255198|ZBED3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 488.7629089355469 2 488.776742 975.538931 NaN NaN NaN NaN NaN NaN NaN 64.609 1 64.609 64.109 65.109 0 0 0 0 0.95544 1 30647 30647 12.532 1.7076 1 779 2730 611 611 766 766 0.050183579315557836 APAAPPPYSV 10 Unmodified _APAAPPPYSV_ 0 0 0 ENST00000337537.7_1_14:64009712-64009985:-|nuORF ENST00000337537.7_1_14:64009712-64009985:-|nuORF ENST00000337537.7_1_14:64009712-64009985:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.2548522949219 2 485.255643 968.496732 NaN NaN NaN NaN NaN NaN NaN 75.397 1 75.397 74.897 75.897 0 0 0 0 0.98473 1 36945 36945 7.9102 0 1 780 7041 612 612 767 767 0.011223825231809315 APAAPPQRSPV 11 Unmodified _APAAPPQRSPV_ 0 0 0 nc|ENSG00000139880|Q86UP0|CDH24 nc|ENSG00000139880|Q86UP0|CDH24 nc|ENSG00000139880|Q86UP0|CDH24 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.8305053710938 2 545.803823 1089.59309 NaN NaN NaN NaN NaN NaN NaN 72.562 1 72.562 72.062 73.062 0 0 0 0 0.99968 1 35302 35302 6.7232 0 1 781 9668 613 613 768 768 0.05187950083131909 APAAPPRQF 9 Unmodified _APAAPPRQF_ 0 0 0 REV__ENSG00000197921|ENST00000378453|HES5 REV__ENSG00000197921|ENST00000378453|HES5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.72430419921875 2 477.761426 953.5083 NaN NaN NaN NaN NaN NaN NaN 65.384 1 66.093 65.593 66.593 0.70891 0 0 0 0.44891 1 30920 30920 20.871 10.688 1 + 782 14305 614 614 769 769 0.029686243371884302 APAAPQKWPSP 11 Unmodified _APAAPQKWPSP_ 0 0 0 nc|ENSG00000155093|Q92932-2|PTPRN2;nc|ENSG00000155093|Q92932-4|PTPRN2;ENSG00000155093|ENST00000389418|PTPRN2;nc|ENSG00000155093|Q92932-3|PTPRN2 nc|ENSG00000155093|Q92932-2|PTPRN2 nc|ENSG00000155093|Q92932-2|PTPRN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.5316162109375 2 575.306198 1148.59784 NaN NaN NaN NaN NaN NaN NaN 73.888 1 74.147 73.647 74.647 0.25876 0 0 0 0.95662 1 33950 33950 10.824 4.1008 1 783 3851 615 615 770 770 0.029488342258900957 APAAPQPRPQ 10 Unmodified _APAAPQPRPQ_ 0 0 0 ENST00000359827.7_1_7:132261617-132261992:-|nuORF ENST00000359827.7_1_7:132261617-132261992:-|nuORF ENST00000359827.7_1_7:132261617-132261992:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.7806396484375 2 516.78289 1031.55123 NaN NaN NaN NaN NaN NaN NaN 74.637 1 74.637 74.137 75.137 0 0 0 0 0.95544 1 36475 36475 12.532 1.7076 1 784 7206 616 616 771 771 0.03671394394609706 APAAPQQQSEP 11 Unmodified _APAAPQQQSEP_ 0 0 0 ENST00000598090.5_1_19:42706201-42721823:-|nuORF;ENST00000601135.5_1_19:42703824-42721823:-|nuORF;nc|ENSG00000160570|Q8WXF8-2|DEDD2;ENSG00000160570|ENST00000596251|DEDD2 ENST00000598090.5_1_19:42706201-42721823:-|nuORF ENST00000598090.5_1_19:42706201-42721823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.9265747070312 2 562.272552 1122.53055 NaN NaN NaN NaN NaN NaN NaN 62.818 1 62.818 62.318 63.318 0 0 0 0 0.95662 1 29470 29470 10.824 0 1 785 4064 617 617 772 772 -0.025812407757030087 APAAPQSRLD 10 Unmodified _APAAPQSRLD_ 0 0 0 REV__ENST00000442264.5_2_2:97533649-97534294:-|nuORF REV__ENST00000442264.5_2_2:97533649-97534294:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.0210571289062 2 513.272355 1024.53016 2.7777 0.0014257 2.7566 0.0014149 5.5343 0.0028406 513.7744255688436 63.077 0.04118 63.077 63.048 63.089 0 4 2 2 0 0 0 0.71407 1 29629 29629 12.532 0 1 957700 + 786 16352 618 618 773 773 0.01887384295105221 APAAPQTSTSL 11 Unmodified _APAAPQTSTSL_ 0 0 0 nc|ENSG00000063169|Q9NZM4-2|BICRA;ENSG00000063169|ENST00000594866|BICRA nc|ENSG00000063169|Q9NZM4-2|BICRA nc|ENSG00000063169|Q9NZM4-2|BICRA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.2734375 2 522.272021 1042.52949 NaN NaN NaN NaN NaN NaN NaN 65.451 1 65.451 64.951 65.951 0 0 0 0 0.95662 1 31189 31189 10.824 2.9138 1 787 657 619 619 774 774 0.009925448553985916 APAAPRNSGSS 11 Unmodified _APAAPRNSGSS_ 0 0 0 REV__ENST00000550478.5_1_12:56395997-56396416:+|nuORF REV__ENST00000550478.5_1_12:56395997-56396416:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.7550964355469 2 507.751787 1013.48902 NaN NaN NaN NaN NaN NaN NaN 77.789 1 77.789 77.289 78.289 0 0 0 0 0.95662 1 38162 38162 10.824 0 1 + 788 17279 620 620 775 775 -0.017183767443725628 APAAPRRASS 10 Unmodified _APAAPRRASS_ 0 0 0 ENST00000519728.5_1_8:56792464-56854428:+|nuORF ENST00000519728.5_1_8:56792464-56854428:+|nuORF ENST00000519728.5_1_8:56792464-56854428:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.2740173339844 2 492.27269 982.530826 NaN NaN NaN NaN NaN NaN NaN 60.803 1 60.803 60.303 61.303 0 0 0 0 0.95544 1 28305 28305 12.532 3.9383 1 789 8627 621 621 776 776 0.038862237347984774 APAAPRSRSLG 11 Unmodified _APAAPRSRSLG_ 0 0 0 ENSG00000180233|ENST00000323037|ZNRF2 ENSG00000180233|ENST00000323037|ZNRF2 ENSG00000180233|ENST00000323037|ZNRF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.086669921875 2 541.806897 1081.59924 NaN NaN NaN NaN NaN NaN NaN 62.982 1 63.704 63.204 64.204 0.72236 0 0 0 0.95662 1 29455 29455 10.824 0 1 790 5244 622 622 777 777 0.06170468314644495 APAAPRSRSLG 11 Unmodified _APAAPRSRSLG_ 0 0 0 ENSG00000180233|ENST00000323037|ZNRF2 ENSG00000180233|ENST00000323037|ZNRF2 ENSG00000180233|ENST00000323037|ZNRF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.4805908203125 2 541.806897 1081.59924 NaN NaN NaN NaN NaN NaN NaN 71.735 1 71.993 71.493 72.493 0.25786 0 0 0 0.95662 1 32895 32895 10.824 0 1 791 5244 622 622 778 778 0.06170468314644495 APAAPRTYLM 10 Unmodified _APAAPRTYLM_ 0 0 0 REV__ENST00000255136.7_1_20:43564071-43564125:+|nuORF REV__ENST00000255136.7_1_20:43564071-43564125:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.544189453125 2 545.789327 1089.5641 NaN NaN NaN NaN NaN NaN NaN 75.161 1 75.826 75.326 76.326 0.6644 0 0 0 0.98473 1 34619 34619 7.9102 1.187 1 + 792 14929 623 623 779 779 0.022900894624626744 APAAPSFNRR 10 Unmodified _APAAPSFNRR_ 0 0 0 ENST00000344537.9_1_6:15615611-15627671:-|nuORF ENST00000344537.9_1_6:15615611-15627671:-|nuORF ENST00000344537.9_1_6:15615611-15627671:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.72802734375 2 543.793789 1085.57303 NaN NaN NaN NaN NaN NaN NaN 71.991 1 71.991 71.491 72.491 0 0 0 0 0.98473 1 35002 35002 7.9102 0 1 793 7101 624 624 780 780 0.03366199143169979 APAAPSFNRR 10 Unmodified _APAAPSFNRR_ 0 0 0 ENST00000344537.9_1_6:15615611-15627671:-|nuORF ENST00000344537.9_1_6:15615611-15627671:-|nuORF ENST00000344537.9_1_6:15615611-15627671:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.7164916992188 2 543.793789 1085.57303 NaN NaN NaN NaN NaN NaN NaN 76.481 1 77.145 76.645 77.645 0.66387 0 0 0 0.95544 1 35233 35233 12.532 3.9383 1 794 7101 624 624 781 781 0.03366199143169979 APAAPSSPST 10 Unmodified _APAAPSSPST_ 0 0 0 REV__ENST00000411631.2_7:72711017-72715158:+|nuORF REV__ENST00000411631.2_7:72711017-72715158:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 443.68194580078125 2 443.219257 884.423961 NaN NaN NaN NaN NaN NaN NaN 69.029 1 69.731 69.231 70.231 0.70218 0 0 0 0.95544 1 32970 32970 12.532 3.1841 1 + 795 14204 625 625 782 782 -0.022873712702221383 APAAPSVGIRG 11 Unmodified _APAAPSVGIRG_ 0 0 0 ENST00000374316.9_1_6:33589105-33589339:+|nuORF ENST00000374316.9_1_6:33589105-33589339:+|nuORF ENST00000374316.9_1_6:33589105-33589339:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.2324523925781 2 498.285266 994.555979 NaN NaN NaN NaN NaN NaN NaN 69.007 1 69.709 69.209 70.209 0.70218 0 0 0 0.95662 1 32951 32951 10.824 2.2306 1 796 7377 626 626 783 783 0.05848278537382612 APAAPSVKPQQ 11 Unmodified _APAAPSVKPQQ_ 0 0 0 nc|ENSG00000154358|Q5VST9|OBSCN;nc|ENSG00000154358|Q5VST9-2|OBSCN;nc|ENSG00000154358|Q5VST9-6|OBSCN;ENSG00000154358|ENST00000680850|OBSCN;nc|ENSG00000154358|Q5VST9-3|OBSCN nc|ENSG00000154358|Q5VST9|OBSCN nc|ENSG00000154358|Q5VST9|OBSCN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.3828125 2 547.303655 1092.59276 NaN NaN NaN NaN NaN NaN NaN 64.082 1 64.797 64.297 65.297 0.71521 0 0 0 0.91446 1 30140 30140 14.838 4.0143 1 797 3821 627 627 784 784 0.050165303632638825 APAAPTATVR 10 Unmodified _APAAPTATVR_ 0 0 0 ENST00000420716.2_1_3:195591054-195595875:-|nuORF;nc|ENSG00000061938|Q07912|TNK2;nc|ENSG00000061938|Q07912-3|TNK2;ENSG00000061938|ENST00000672887|TNK2 ENST00000420716.2_1_3:195591054-195595875:-|nuORF ENST00000420716.2_1_3:195591054-195595875:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.46820068359375 2 477.771991 953.529429 NaN NaN NaN NaN NaN NaN NaN 64.432 1 64.432 63.932 64.932 0 0 0 0 0.95544 1 30523 30523 12.532 0 1 798 650 628 628 785 785 0.05080589646047429 APAAPTESHN 10 Unmodified _APAAPTESHN_ 0 0 0 REV__PHACTR2|p.R299Lfs*3|1|0.06|ENSG00000112419|chr6:143765493-143765494|-/TTGCATTA|frameshift_variant REV__PHACTR2|p.R299Lfs*3|1|0.06|ENSG00000112419|chr6:143765493-143765494|-/TTGCATTA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.7333679199219 2 497.733063 993.451573 NaN NaN NaN NaN NaN NaN NaN 73.918 1 74.582 74.082 75.082 0.6644 0 0 0 0.95544 1 34011 34011 12.532 7.3009 1 + 799 11273 629 629 786 786 -0.04541468009995242 APAAPTPHRR 10 Unmodified _APAAPTPHRR_ 0 0 0 ENST00000411861.5_1_11:2016794-2017130:-|nuORF ENST00000411861.5_1_11:2016794-2017130:-|nuORF ENST00000411861.5_1_11:2016794-2017130:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.3004150390625 2 537.301781 1072.58901 NaN NaN NaN NaN NaN NaN NaN 61.208 1 61.208 60.708 61.708 0 0 0 0 0.95544 1 28529 28529 12.532 4.6214 1 800 7676 630 630 787 787 0.05561905380091048 APAAPTPHRR 10 Unmodified _APAAPTPHRR_ 0 0 0 ENST00000411861.5_1_11:2016794-2017130:-|nuORF ENST00000411861.5_1_11:2016794-2017130:-|nuORF ENST00000411861.5_1_11:2016794-2017130:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.3021850585938 2 537.301781 1072.58901 NaN NaN NaN NaN NaN NaN NaN 64.056 1 64.771 64.271 65.271 0.71521 0 0 0 0.95544 1 30121 30121 12.532 3.1484 1 801 7676 630 630 788 788 0.05561905380091048 APAAPTREF 9 Unmodified _APAAPTREF_ 0 0 0 ENST00000493177.1_1_2:48010357-48011729:+|nuORF ENST00000493177.1_1_2:48010357-48011729:+|nuORF ENST00000493177.1_1_2:48010357-48011729:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.3389587402344 2 480.250892 958.48723 NaN NaN NaN NaN NaN NaN NaN 60.936 1 60.936 60.436 61.436 0 0 0 0 0.7971 1 28382 28382 9.3474 1.4373 1 802 8413 631 631 789 789 0.006326142376678945 APAAPTSCDF 10 Unmodified _APAAPTSCDF_ 0 0 0 nc|ENSG00000116062|P52701-2|MSH6;ENSG00000116062|ENST00000234420|MSH6 nc|ENSG00000116062|P52701-2|MSH6 nc|ENSG00000116062|P52701-2|MSH6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.1728820800781 2 490.213117 978.411682 NaN NaN NaN NaN NaN NaN NaN 65.442 1 65.442 64.942 65.942 0 0 0 0 0.95544 1 31184 31184 12.532 4.6214 1 803 2011 632 632 790 790 -0.07838731004926558 APAAQHRAAGT 11 Unmodified _APAAQHRAAGT_ 0 0 0 ENST00000253008.2_1_9:133556683-133557598:+|nuORF ENST00000253008.2_1_9:133556683-133557598:+|nuORF ENST00000253008.2_1_9:133556683-133557598:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.7734375 2 525.775597 1049.53664 NaN NaN NaN NaN NaN NaN NaN 73.616 1 73.875 73.375 74.375 0.25876 0 0 0 0.9645 1 33817 33817 10.074 3.3508 1 804 6509 633 633 791 791 0.01385322246483156 APAAQNESDCT 11 Unmodified _APAAQNESDCT_ 0 0 0 nc|ENSG00000164164|Q01804-5|OTUD4;nc|ENSG00000164164|Q01804-3|OTUD4;ENSG00000164164|ENST00000447906|OTUD4 nc|ENSG00000164164|Q01804-5|OTUD4 nc|ENSG00000164164|Q01804-5|OTUD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.7427368164062 2 553.724578 1105.4346 NaN NaN NaN NaN NaN NaN NaN 62.499 1 63.23 62.73 63.73 0.73077 0 0 0 0.99968 1 29146 29146 6.7232 1.4925 1 805 4291 634 634 792 792 -0.11389756678113372 APAAQSHWPR 10 Unmodified _APAAQSHWPR_ 0 0 0 REV__ENST00000478402.5_1_1:226110107-226110167:-|nuORF REV__ENST00000478402.5_1_1:226110107-226110167:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.8472290039062 2 560.785964 1119.55738 NaN NaN NaN NaN NaN NaN NaN 74.055 1 74.314 73.814 74.814 0.25876 0 0 0 0.98473 1 34036 34036 7.9102 3.5809 1 + 806 16671 635 635 793 793 0.0023791262613030995 APAARARRR 9 Unmodified _APAARARRR_ 0 0 0 ENST00000249330.2_1_7:100805946-100806276:-|nuORF ENST00000249330.2_1_7:100805946-100806276:-|nuORF ENST00000249330.2_1_7:100805946-100806276:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.1953125 2 512.81539 1023.61623 NaN NaN NaN NaN NaN NaN NaN 74.912 1 75.575 75.075 76.075 0.6635 0 0 0 0.66907 1 36234 36234 13.508 4.9146 1 807 6498 636 636 794 794 0.10536433711126847 APAARDVCREQ 11 Unmodified _APAARDVCREQ_ 0 0 0 REV__ENST00000528638.1_1_11:77300495-77320419:+|nuORF REV__ENST00000528638.1_1_11:77300495-77320419:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 608.7734375 2 608.298578 1214.5826 NaN NaN NaN NaN NaN NaN NaN 71.45 1 72.154 71.654 72.654 0.70386 0 0 0 0.99968 1 34316 34316 6.7232 0 1 + 808 17119 637 637 795 795 -0.016104006336036036 APAARFLETL 10 Unmodified _APAARFLETL_ 0 0 0 ENST00000541682.6_1_17:8024850-8025051:-|nuORF ENST00000541682.6_1_17:8024850-8025051:-|nuORF ENST00000541682.6_1_17:8024850-8025051:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.8071899414062 2 544.808574 1087.60259 NaN NaN NaN NaN NaN NaN NaN 92.57 1 92.656 92.156 93.156 0.086212 0 0 0 0.98473 1 48285 48285 7.9102 0.62092 1 809 8812 638 638 796 796 0.062297183686723656 APAARGCGQHT 11 Unmodified _APAARGCGQHT_ 0 0 0 ENST00000315367.3_1_8:96146033-96166318:+|nuORF ENST00000315367.3_1_8:96146033-96166318:+|nuORF ENST00000315367.3_1_8:96146033-96166318:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 534.7289428710938 2 534.753807 1067.49306 NaN NaN NaN NaN NaN NaN NaN 72.817 1 73.481 72.981 73.981 0.66398 0 0 0 0.99968 1 33433 33433 6.7232 0 1 810 6896 639 639 797 797 -0.03798610522312629 APAARLRRHL 10 Unmodified _APAARLRRHL_ 0 0 0 ENST00000261402.6_1_12:106532525-106533446:-|nuORF ENST00000261402.6_1_12:106532525-106533446:-|nuORF ENST00000261402.6_1_12:106532525-106533446:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 580.8604125976562 2 580.859798 1159.70504 NaN NaN NaN NaN NaN NaN NaN 82.362 1 82.362 81.862 82.862 0 0 0 0 0.98866 1 41206 41206 7.2892 2.7604 1 811 6557 640 640 798 798 0.13157848950800144 APAARMDSFYH 11 Unmodified _APAARMDSFYH_ 0 0 0 REV__ENST00000373616.9_1_6:36935956-36936193:-|nuORF REV__ENST00000373616.9_1_6:36935956-36936193:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.2885131835938 2 633.290222 1264.56589 NaN NaN NaN NaN NaN NaN NaN 65.01 1 65.719 65.219 66.219 0.70891 0 0 0 0.99968 1 30674 30674 6.7232 3.1267 1 + 812 15770 641 641 799 799 -0.05580901519533654 APAARNWHIHF 11 Unmodified _APAARNWHIHF_ 0 0 0 ENSG00000086570|ENST00000261800|FAT2 ENSG00000086570|ENST00000261800|FAT2 ENSG00000086570|ENST00000261800|FAT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 660.3405151367188 2 660.341438 1318.66832 NaN NaN NaN NaN NaN NaN NaN 60.081 1 60.83 60.33 61.33 0.74927 0 0 0 0.99968 1 27648 27648 6.7232 0.99131 1 813 984 642 642 800 800 0.021735523341931184 APAARRPKA 9 Unmodified _APAARRPKA_ 0 0 0 ENSG00000179588|ENST00000319555|ZFPM1 ENSG00000179588|ENST00000319555|ZFPM1 ENSG00000179588|ENST00000319555|ZFPM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.28955078125 2 469.288143 936.561733 NaN NaN NaN NaN NaN NaN NaN 67.485 1 67.485 66.985 67.985 0 0 0 0 0.7971 1 32386 32386 9.3474 0.75416 1 814 5223 643 643 801 801 0.09091421839696068 APAARRRREGR 11 Unmodified _APAARRRREGR_ 0 0 0 REV__ENST00000434837.7_1_6:37665242-37665689:-|nuORF REV__ENST00000434837.7_1_6:37665242-37665689:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 648.3823852539062 2 648.379417 1294.74428 NaN NaN NaN NaN NaN NaN NaN 65 1 65 64.5 65.5 0 0 0 0 0.99968 1 30893 30893 6.7232 0.99131 1 + 815 16295 644 644 802 802 0.10869949234347587 APAASAQADKS 11 Unmodified _APAASAQADKS_ 0 0 0 REV__ENST00000472176.1_1_6:44197340-44197857:+|nuORF REV__ENST00000472176.1_1_6:44197340-44197857:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.4353332519531 2 508.753995 1015.49344 2.8912 0.0014709 -2.8523 -0.0014511 0.038967 1.9825E-05 508.7524137920626 75.205 0.32013 75.87 75.742 76.062 0.6644 31 25 2 0 0 0 0.80294 1 34647 34647 6.7232 0.36906 1 516260 + 816 11280 645 645 803 803 -0.0136891232148173 APAASCSHRC 10 Unmodified _APAASCSHRC_ 0 0 0 ENST00000228705.6_1_12:63328520-63328631:-|nuORF ENST00000228705.6_1_12:63328520-63328631:-|nuORF ENST00000228705.6_1_12:63328520-63328631:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.68963623046875 2 501.715836 1001.41712 NaN NaN NaN NaN NaN NaN NaN 70.797 1 70.797 70.297 71.297 0 0 0 0 0.99687 1 34392 34392 4.3292 1.44 1 817 6435 646 646 804 804 -0.08353330694103533 APAASDGAEW 10 Unmodified _APAASDGAEW_ 0 0 0 nc|ENSG00000132773|Q96GM8-2|TOE1 nc|ENSG00000132773|Q96GM8-2|TOE1 nc|ENSG00000132773|Q96GM8-2|TOE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.857177734375 2 487.714339 973.414125 NaN NaN NaN NaN NaN NaN NaN 62.906 1 62.906 62.406 63.406 0 0 0 0 0.98473 1 29529 29529 7.9102 0 1 818 9644 647 647 805 805 -0.07364559275617921 APAASKRVAG 10 Unmodified _APAASKRVAG_ 0 0 0 REV__ENST00000599538.5_1_19:50528609-50528858:-|nuORF REV__ENST00000599538.5_1_19:50528609-50528858:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.2733459472656 2 464.272158 926.529764 3.0284 0.001406 -0.2922 -0.00013566 2.7362 0.0012704 464.2719218410752 98.388 0.14679 98.987 98.914 99.061 0.59885 21 11 2 0 0 0 0.88655 1 45364 45364 4.3292 0.38484 1 1770200 + 819 17629 648 648 806 806 0.06356009365902082 APAASWFSAT 10 Unmodified _APAASWFSAT_ 0 0 0 ENST00000550614.5_2_14:105455660-105455831:+|nuORF ENST00000550614.5_2_14:105455660-105455831:+|nuORF ENST00000550614.5_2_14:105455660-105455831:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.75018310546875 2 504.742899 1007.47125 NaN NaN NaN NaN NaN NaN NaN 66.217 1 66.922 66.422 67.422 0.7047 0 0 0 0.98473 1 31376 31376 7.9102 0 1 820 8872 649 649 807 807 -0.032190919992331146 APAATPHLF 9 Unmodified _APAATPHLF_ 0 0 0 REV__ENSG00000166268|ENST00000552032|MYRFL REV__ENSG00000166268|ENST00000552032|MYRFL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 462.750732421875 2 462.750527 923.486502 NaN NaN NaN NaN NaN NaN NaN 72.154 1 72.858 72.358 73.358 0.70386 0 0 0 0.7971 1 34704 34704 9.3474 0 1 + 821 13221 650 650 808 808 0.021698195886187932 APAAVAPSEI 10 Unmodified _APAAVAPSEI_ 0 0 0 REV__ENSG00000106211|ENST00000248553|HSPB1 REV__ENSG00000106211|ENST00000248553|HSPB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.37353515625 2 463.2531 924.491647 NaN NaN NaN NaN NaN NaN NaN 72.944 1 73.203 72.703 73.703 0.25876 0 0 0 0.96109 1 33492 33492 11.64 2.2929 1 + 822 11075 651 651 809 809 0.026380786605727735 APAAVLDNLRQ 11 Unmodified _APAAVLDNLRQ_ 0 0 0 REV__NPHP3|p.F560Lfs*14|1|0.14|ENSG00000113971|chr3:132700397-132700397|A/-|frameshift_variant REV__NPHP3|p.F560Lfs*14|1|0.14|ENSG00000113971|chr3:132700397-132700397|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.3262939453125 2 584.327662 1166.64077 NaN NaN NaN NaN NaN NaN NaN 65.691 1 65.691 65.191 66.191 0 0 0 0 0.99968 1 31310 31310 6.7232 0 1 + 823 11312 652 652 810 810 0.06411604283312045 APAAVPRLNA 10 Unmodified _APAAVPRLNA_ 0 0 0 REV__ENST00000398542.5_1_1:32229497-32229821:-|nuORF REV__ENST00000398542.5_1_1:32229497-32229821:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.2868957519531 2 490.287808 978.561064 NaN NaN NaN NaN NaN NaN NaN 71.66 1 72.364 71.864 72.864 0.70386 0 0 0 0.96109 1 34430 34430 11.64 0 1 + 824 16025 653 653 811 811 0.07092582399980074 APAAWLLLQ 9 Unmodified _APAAWLLLQ_ 0 0 0 REV__ENST00000467558.5_1_7:2578584-2579570:-|nuORF REV__ENST00000467558.5_1_7:2578584-2579570:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.67901611328125 2 491.789653 981.564752 NaN NaN NaN NaN NaN NaN NaN 63.707 1 63.707 63.207 64.207 0 0 0 0 0.7971 1 30018 30018 9.3474 0 1 + 825 16557 654 654 812 812 0.07323252173853234 APAAYYDQTGA 11 Unmodified _APAAYYDQTGA_ 0 0 0 nc|ENSG00000134644|Q14671-4|PUM1;nc|ENSG00000134644|Q14671-2|PUM1;nc|ENSG00000134644|Q14671|PUM1;ENSG00000134644|ENST00000426105|PUM1;ENST00000490546.1_1_1:31439047-31452930:-|nuORF nc|ENSG00000134644|Q14671-4|PUM1 nc|ENSG00000134644|Q14671-4|PUM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.2531127929688 2 564.253828 1126.4931 NaN NaN NaN NaN NaN NaN NaN 68.661 1 68.661 68.161 69.161 0 0 0 0 0.99968 1 33074 33074 6.7232 0 1 826 2820 655 655 813 813 -0.06508332041335052 APACALLLLF 10 Unmodified _APACALLLLF_ 0 0 0 ENSG00000154277|ENST00000284440|UCHL1;ENST00000512419.5_1_4:41258929-41270087:+|nuORF ENSG00000154277|ENST00000284440|UCHL1 ENSG00000154277|ENST00000284440|UCHL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.102783203125 2 516.301539 1030.58852 NaN NaN NaN NaN NaN NaN NaN 76.636 1 77.26 76.76 77.76 0.62397 0 0 0 0.98473 1 37153 37153 7.9102 0 1 827 3817 656 656 814 814 0.07445349616023123 APACEKQLCWD 11 Unmodified _APACEKQLCWD_ 0 0 0 ENST00000457622.1_1_6:46172676-46173294:+|nuORF ENST00000457622.1_1_6:46172676-46173294:+|nuORF ENST00000457622.1_1_6:46172676-46173294:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.27880859375 2 632.278466 1262.54238 NaN NaN NaN NaN NaN NaN NaN 64.425 1 65.14 64.64 65.64 0.71521 0 0 0 1.0055 1 30352 30352 3.5965 0 1 828 8061 657 657 815 815 -0.0783908334840362 APACPLPPLG 10 Unmodified _APACPLPPLG_ 0 0 0 REV__ENST00000600059.5_1_19:48988799-49002658:-|nuORF REV__ENST00000600059.5_1_19:48988799-49002658:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 468.2569274902344 2 468.254588 934.494624 NaN NaN NaN NaN NaN NaN NaN 73.753 1 74.418 73.918 74.918 0.6644 0 0 0 0.95544 1 33919 33919 12.532 2.4576 1 + 829 17631 658 658 816 816 0.024756305137316303 APACPREQEQ 10 Unmodified _APACPREQEQ_ 0 0 0 ENSG00000224109|ENST00000417339|CENPVL3;ENSG00000283093|ENST00000634648|CENPVL2;ENSG00000223591|ENST00000602548|CENPVL1 ENSG00000224109|ENST00000417339|CENPVL3;ENSG00000283093|ENST00000634648|CENPVL2 ENSG00000224109|ENST00000417339|CENPVL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.7593383789062 2 564.758755 1127.50296 NaN NaN NaN NaN NaN NaN NaN 80.794 1 81.043 80.543 81.543 0.24803 0 0 0 0.99687 1 37200 37200 4.3292 0 1 830 6163;6161 659 659 817 817 -0.05569467307600462 APACQEEKFH 10 Unmodified _APACQEEKFH_ 0 0 0 REV__ENST00000276898.3_1_9:5713908-5748617:+|nuORF REV__ENST00000276898.3_1_9:5713908-5748617:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 580.262939453125 2 580.263673 1158.51279 NaN NaN NaN NaN NaN NaN NaN 64.693 1 64.693 64.193 65.193 0 0 0 0 0.99687 1 30701 30701 4.3292 0.73274 1 + 831 11104 660 660 818 818 -0.06012279302194656 APACRRTRQVC 11 Unmodified _APACRRTRQVC_ 0 0 0 REV__ENST00000438023.5_2_9:6757647-6757842:+|nuORF REV__ENST00000438023.5_2_9:6757647-6757842:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 630.8240966796875 2 630.82424 1259.63393 NaN NaN NaN NaN NaN NaN NaN 72.471 1 72.471 71.971 72.971 0 0 0 0 1.0055 1 35255 35255 3.5965 0 1 + 832 16321 661 661 819 819 0.014496448594627509 APACRSSRTRE 11 Unmodified _APACRSSRTRE_ 0 0 0 REV__ENST00000482054.1_1_9:90341067-90342580:+|nuORF REV__ENST00000482054.1_1_9:90341067-90342580:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 617.019287109375 2 617.309477 1232.6044 NaN NaN NaN NaN NaN NaN NaN 75.253 1 75.511 75.011 76.011 0.25831 0 0 0 1.0038 1 34621 34621 5.7319 0.83484 1 + 833 15485 662 662 820 820 -0.0025959588501791586 APACTKKFQEK 11 Unmodified _APACTKKFQEK_ 0 0 0 nc|ENSG00000214944|Q8N1W1-5|ARHGEF28;nc|ENSG00000214944|Q8N1W1-4|ARHGEF28;nc|ENSG00000214944|Q8N1W1-3|ARHGEF28;ENSG00000214944|ENST00000513042|ARHGEF28;nc|ENSG00000214944|Q8N1W1-6|ARHGEF28 nc|ENSG00000214944|Q8N1W1-5|ARHGEF28 nc|ENSG00000214944|Q8N1W1-5|ARHGEF28 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 625.831298828125 2 625.831723 1249.64889 NaN NaN NaN NaN NaN NaN NaN 96.935 1 97.213 96.713 97.713 0.27778 0 0 0 1.0055 1 44535 44535 3.5965 0 1 834 6125 663 663 821 821 0.03405415208408158 APADEYFT 8 Unmodified _APADEYFT_ 0 0 0 ENSG00000095464|ENST00000371447|PDE6C ENSG00000095464|ENST00000371447|PDE6C ENSG00000095464|ENST00000371447|PDE6C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.8659973144531 2 457.200533 912.386513 NaN NaN NaN NaN NaN NaN NaN 71.771 1 72.475 71.975 72.975 0.70386 0 0 0 0.99035 1 34504 34504 6.3541 0.59368 1 835 1120 664 664 822 822 -0.07318462535852177 APAECRFVHCK 11 Unmodified _APAECRFVHCK_ 0 0 0 REV__ENST00000533407.6_1_11:6422737-6440257:-|nuORF REV__ENST00000533407.6_1_11:6422737-6440257:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 630.803955078125 2 630.802442 1259.59033 NaN NaN NaN NaN NaN NaN NaN 79.255 1 79.506 79.006 80.006 0.25127 0 0 0 1.0055 1 36497 36497 3.5965 0 1 + 836 13225 665 665 823 823 -0.02907964637688565 APAEDFFSRY 10 Unmodified _APAEDFFSRY_ 0 0 0 REV__ENSG00000165182|ENST00000379211|CXorf58 REV__ENSG00000165182|ENST00000379211|CXorf58 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 601.7803955078125 2 601.77747 1201.54039 NaN NaN NaN NaN NaN NaN NaN 67.576 1 67.576 67.076 68.076 0 0 0 0 0.99687 1 32446 32446 4.3292 0.73274 1 + 837 13144 666 666 824 824 -0.052320527703159314 APAEDFFSRY 10 Unmodified _APAEDFFSRY_ 0 0 0 REV__ENSG00000165182|ENST00000379211|CXorf58 REV__ENSG00000165182|ENST00000379211|CXorf58 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.7761840820312 2 601.77747 1201.54039 NaN NaN NaN NaN NaN NaN NaN 66.939 1 67.644 67.144 68.144 0.7047 0 0 0 0.99687 1 31763 31763 4.3292 0.73274 1 + 838 13144 666 666 825 825 -0.052320527703159314 APAEDGSSSC 10 Unmodified _APAEDGSSSC_ 0 0 0 ENST00000570099.5_1_16:30103880-30104012:-|nuORF ENST00000570099.5_1_16:30103880-30104012:-|nuORF ENST00000570099.5_1_16:30103880-30104012:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 462.1793212890625 2 462.174189 922.333826 NaN NaN NaN NaN NaN NaN NaN 64.733 1 65.449 64.949 65.949 0.71521 0 0 0 0.99687 1 30512 30512 4.3292 1.44 1 839 9083 667 667 826 826 -0.1304478866095451 APAEDPVFTIL 11 Unmodified _APAEDPVFTIL_ 0 0 0 ENST00000592605.1_1_19:1478547-1479204:-|nuORF;ENSG00000119559|ENST00000585675|C19orf25;ENST00000589421.1_1_19:1478470-1478902:-|nuORF;nc|nan|Q9UFG5-2|C19orf25 ENST00000592605.1_1_19:1478547-1479204:-|nuORF ENST00000592605.1_1_19:1478547-1479204:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.8137817382812 2 586.813522 1171.61249 3.706 0.0021747 0.045211 2.6531E-05 3.7512 0.0022012 586.8134188083096 90.478 0.28362 91.151 90.979 91.263 0.67271 23 12 3 0 0 0 0.14379 1 41635 41635 34.402 12.655 1 634430 840 2150 668 668 827 827 0.033548615833979056 APAEDPVFTIL 11 Unmodified _APAEDPVFTIL_ 0 0 0 ENST00000592605.1_1_19:1478547-1479204:-|nuORF;ENSG00000119559|ENST00000585675|C19orf25;ENST00000589421.1_1_19:1478470-1478902:-|nuORF;nc|nan|Q9UFG5-2|C19orf25 ENST00000592605.1_1_19:1478547-1479204:-|nuORF ENST00000592605.1_1_19:1478547-1479204:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 586.813522 1171.61249 3.9441 0.0023145 -0.059702 -3.5034E-05 3.8844 0.0022794 586.8139405260124 91.001 0.23265 91.253 91.152 91.385 0.25164 0.050953 -5.357E-05 NaN 34.402 17 11 2 NaN NaN NaN NaN 0 NaN NaN 0 543190 841 2150 668 668 0.033548615833979056 APAEEAEFYD 10 Unmodified _APAEEAEFYD_ 0 0 0 ENSG00000213160|ENST00000392647|KLHL23 ENSG00000213160|ENST00000392647|KLHL23 ENSG00000213160|ENST00000392647|KLHL23 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.2373046875 2 571.237844 1140.46113 NaN NaN NaN NaN NaN NaN NaN 50.797 1 50.797 50.297 51.297 0 0 0 0 1.0001 1 23259 23259 1.6526 0 1 842 6083 669 669 828 828 -0.10347744515138402 APAEGGDELLL 11 Unmodified _APAEGGDELLL_ 0 0 0 REV__DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant REV__DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.7786254882812 2 542.779679 1083.5448 3.1933 0.0017332 -2.5495 -0.0013838 0.64379 0.00034944 542.7784123418871 77.07 0.20309 77.733 77.632 77.835 0.66303 19 15 2 0 0 0 0.7272 1 35515 35515 10.074 0.6908 1 499320 + 843 10142 670 670 829 829 0.0063741165256487875 APAEHNGHS 9 Unmodified _APAEHNGHS_ 0 0 0 REV__ENST00000435880.6_1_2:70190354-70215932:-|nuORF REV__ENST00000435880.6_1_2:70190354-70215932:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 460.1642761230469 2 460.204473 918.394393 NaN NaN NaN NaN NaN NaN NaN 65.39 1 65.39 64.89 65.89 0 0 0 0 0.89315 1 31151 31151 5.2307 0 1 + 844 16302 671 671 830 830 -0.06806890495704465 APAEHVER 8 Unmodified _APAEHVER_ 0 0 0 nc|ENSG00000115041|Q9Y2W7-3|KCNIP3;nc|ENSG00000115041|Q9Y2W7-2|KCNIP3;ENSG00000115041|ENST00000295225|KCNIP3;ENST00000377181.2_1_2:96020843-96049794:+|nuORF nc|ENSG00000115041|Q9Y2W7-3|KCNIP3 nc|ENSG00000115041|Q9Y2W7-3|KCNIP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.7328186035156 2 454.732866 907.451179 NaN NaN NaN NaN NaN NaN NaN 77.697 1 77.95 77.45 78.45 0.25335 0 0 0 0.99035 1 35782 35782 2.8892 0 1 845 1939 672 672 831 831 -0.006248429391916943 APAEHVERFF 10 Unmodified _APAEHVERFF_ 0 0 0 nc|ENSG00000115041|Q9Y2W7-3|KCNIP3;nc|ENSG00000115041|Q9Y2W7-2|KCNIP3;ENSG00000115041|ENST00000295225|KCNIP3;ENST00000377181.2_1_2:96020843-96049794:+|nuORF nc|ENSG00000115041|Q9Y2W7-3|KCNIP3 nc|ENSG00000115041|Q9Y2W7-3|KCNIP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 602.1395263671875 2 601.80128 1201.58801 NaN NaN NaN NaN NaN NaN NaN 12.598 1 12.598 12.098 13.098 0 0 0 0 0.99687 1 5488 5488 4.3292 0.73274 1 846 1939 673 673 832 832 -0.00472353779491641 APAEKKVEAN 10 Unmodified _APAEKKVEAN_ 0 0 0 ENST00000470649.1_2_17:15948127-15948268:+|nuORF ENST00000470649.1_2_17:15948127-15948268:+|nuORF ENST00000470649.1_2_17:15948127-15948268:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.837890625 2 528.787838 1055.56112 NaN NaN NaN NaN NaN NaN NaN 13.688 1 13.688 13.188 14.188 0 0 0 0 0.94673 1 6000 6000 13.906 0.86358 1 847 8176 674 674 833 833 0.03556537609347288 APAEMRDHQCC 11 Unmodified _APAEMRDHQCC_ 0 0 0 REV__ENST00000360814.8_1_12:104387270-104390561:-|nuORF REV__ENST00000360814.8_1_12:104387270-104390561:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 631.0172119140625 2 630.74955 1259.48455 NaN NaN NaN NaN NaN NaN NaN 74.408 1 74.667 74.167 75.167 0.25831 0 0 0 1.0055 1 34221 34221 3.5965 1.7523 1 + 848 15616 675 675 834 834 -0.1348166854545525 APAENFKFERL 11 Unmodified _APAENFKFERL_ 0 0 0 ENST00000261597.8_1_18:2571510-2573058:+|nuORF ENST00000261597.8_1_18:2571510-2573058:+|nuORF ENST00000261597.8_1_18:2571510-2573058:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 660.9160766601562 2 661.348594 1320.68264 NaN NaN NaN NaN NaN NaN NaN 80.534 1 81.194 80.694 81.694 0.65998 0 0 0 1.0055 1 37110 37110 3.5965 0 1 849 6562 676 676 835 835 0.03512159971842266 APAEPKAEKGL 11 Unmodified _APAEPKAEKGL_ 0 0 0 REV__nc|ENSG00000064787|O75363|BCAS1 REV__nc|ENSG00000064787|O75363|BCAS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.8168334960938 2 555.811313 1109.60807 NaN NaN NaN NaN NaN NaN NaN 66.463 1 66.463 65.963 66.963 0 0 0 0 0.92425 1 31769 31769 13.906 1.6654 1 + 850 10418 677 677 836 836 0.057653971604850085 APAEPKIIKV 10 Unmodified _APAEPKIIKV_ 0 0 0 ENSG00000188021|ENST00000338222|UBQLN2 ENSG00000188021|ENST00000338222|UBQLN2 ENSG00000188021|ENST00000338222|UBQLN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.337158203125 2 533.336967 1064.65938 NaN NaN NaN NaN NaN NaN NaN 90.213 1 90.277 89.777 90.777 0.064346 0 0 0 0.99225 1 46433 46433 6.7232 2.3939 1 851 5647 678 678 837 837 0.12963765925201187 APAERGHKRWR 11 Unmodified _APAERGHKRWR_ 0 0 0 REV__ENST00000256151.7_1_12:82752229-82752448:-|nuORF REV__ENST00000256151.7_1_12:82752229-82752448:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 682.353271484375 2 682.376343 1362.73813 NaN NaN NaN NaN NaN NaN NaN 65.088 1 65.797 65.297 66.297 0.70891 0 0 0 1.0055 1 30726 30726 3.5965 0.31518 1 + 852 14934 679 679 838 838 0.07127431002822959 APAERRRPSR 10 Unmodified _APAERRRPSR_ 0 0 0 REV__nc|ENSG00000197361|Q6P050|FBXL22 REV__nc|ENSG00000197361|Q6P050|FBXL22 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 598.3416137695312 2 598.341969 1194.66939 NaN NaN NaN NaN NaN NaN NaN 106.44 1 107.05 106.55 107.55 0.60074 0 0 0 0.99983 1 49146 49146 1.8442 0 1 + 853 18093 680 680 839 839 0.0798376670311427 APAESLRRRK 10 Unmodified _APAESLRRRK_ 0 0 0 ENSG00000103227|ENST00000262301|LMF1;ENST00000543238.5_1_16:943010-1020959:-|nuORF;ENST00000566609.1_1_16:1002623-1020980:-|nuORF ENSG00000103227|ENST00000262301|LMF1 ENSG00000103227|ENST00000262301|LMF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.6519165039062 2 592.354545 1182.69454 NaN NaN NaN NaN NaN NaN NaN 76.211 1 76.875 76.375 77.375 0.66387 0 0 0 0.99687 1 35108 35108 4.3292 0.73274 1 854 1385 681 681 840 840 0.11049821505685031 APAFCDHCGEM 11 Unmodified _APAFCDHCGEM_ 0 0 0 ENSG00000105287|ENST00000291281|PRKD2;nc|ENSG00000105287|Q9BZL6-3|PRKD2;ENSG00000184304|ENST00000331968|PRKD1;ENST00000597088.1_1_19:47214155-47217219:-|nuORF ENSG00000105287|ENST00000291281|PRKD2 ENSG00000105287|ENST00000291281|PRKD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.7446899414062 2 590.714644 1179.41474 NaN NaN NaN NaN NaN NaN NaN 46.695 1 47.525 47.025 48.025 0.82915 0 0 0 1.0057 1 21274 21274 3.2813 1.4371 1 855 1483 682 682 841 841 -0.16779547214082413 APAFDRTIYKV 11 Unmodified _APAFDRTIYKV_ 0 0 0 ENSG00000204967|ENST00000530339|PCDHA4;nc|ENSG00000204967|Q9UN74-2|PCDHA4 ENSG00000204967|ENST00000530339|PCDHA4 ENSG00000204967|ENST00000530339|PCDHA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 640.8524169921875 2 640.853512 1279.69247 NaN NaN NaN NaN NaN NaN NaN 81.119 1 81.367 80.867 81.867 0.24803 0 0 0 1.0071 1 37349 37349 1.4819 0 1 856 6039 683 683 842 842 0.06381347977230689 APAFFTQFSPL 11 Unmodified _APAFFTQFSPL_ 0 0 0 REV__ENST00000485116.5_1_11:124623544-124626668:-|nuORF REV__ENST00000485116.5_1_11:124623544-124626668:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.3158569335938 2 613.316232 1224.61791 NaN NaN NaN NaN NaN NaN NaN 78.748 1 78.999 78.499 79.499 0.25127 0 0 0 1.0071 1 36263 36263 1.4819 0 1 + 857 12573 684 684 843 843 0.014585851658466709 APAFHLSSET 10 Unmodified _APAFHLSSET_ 0 0 0 ENST00000585623.5_2_19:37825584-37837327:+|nuORF;ENST00000324411.8_2_19:37825584-37835523:+|nuORF;ENST00000590386.5_1_19:37825584-37835913:+|nuORF ENST00000585623.5_2_19:37825584-37837327:+|nuORF ENST00000585623.5_2_19:37825584-37837327:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.298828125 2 530.258914 1058.50327 NaN NaN NaN NaN NaN NaN NaN 87.923 1 87.963 87.463 88.463 0.039955 0 0 0 0.98473 1 44653 44653 7.9102 0 1 858 6950 685 685 844 844 -0.023637243160919752 APAFKYFIRRD 11 Unmodified _APAFKYFIRRD_ 0 0 0 nc|ENSG00000168016|O15050|TRANK1;ENSG00000168016|ENST00000645898|TRANK1 nc|ENSG00000168016|O15050|TRANK1 nc|ENSG00000168016|O15050|TRANK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 692.3821411132812 2 692.380229 1382.7459 NaN NaN NaN NaN NaN NaN NaN 27.43 1 27.43 26.93 27.93 0 0 0 0 1.0055 1 12351 12351 3.5965 0.31518 1 859 4593 686 686 845 845 0.0698414547973698 APAFLPLWLPR 11 Unmodified _APAFLPLWLPR_ 0 0 0 nc|ENSG00000188549|Q6ZUT6|CCDC9B nc|ENSG00000188549|Q6ZUT6|CCDC9B nc|ENSG00000188549|Q6ZUT6|CCDC9B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 640.880615234375 2 640.879333 1279.74411 NaN NaN NaN NaN NaN NaN NaN 85.887 1 86.558 86.058 87.058 0.67061 0 0 0 1.0055 1 39549 39549 3.5965 1.7523 1 860 9791 687 687 846 846 0.11543136461796166 APAFNQSRYHA 11 Unmodified _APAFNQSRYHA_ 0 0 0 ENSG00000166341|ENST00000299441|DCHS1 ENSG00000166341|ENST00000299441|DCHS1 ENSG00000166341|ENST00000299441|DCHS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 631.3077392578125 2 631.307261 1260.59997 NaN NaN NaN NaN NaN NaN NaN 73.872 1 74.131 73.631 74.631 0.25876 0 0 0 1.0055 1 33942 33942 3.5965 0 1 861 4474 688 688 847 847 -0.019907370362716392 APAFPMYR 8 Unmodified _APAFPMYR_ 0 0 0 REV__ENSG00000182179|ENST00000333486|UBA7 REV__ENSG00000182179|ENST00000333486|UBA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 476.7378845214844 2 476.739105 951.463658 NaN NaN NaN NaN NaN NaN NaN 74.142 1 74.829 74.329 75.329 0.68662 0 0 0 0.99035 1 35823 35823 6.3541 1.1234 1 + 862 13878 689 689 848 848 -0.014015228005064273 APAFYELQYR 10 Unmodified _APAFYELQYR_ 0 0 0 ENST00000566303.5_1_15:79059386-79103601:-|nuORF;ENST00000568712.1_1_15:79063704-79103562:-|nuORF;ENSG00000136378|ENST00000388820|ADAMTS7;ENST00000565793.5_1_15:79069566-79092863:-|nuORF ENST00000566303.5_1_15:79059386-79103601:-|nuORF ENST00000566303.5_1_15:79059386-79103601:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 628.8897705078125 2 629.316763 1256.61897 NaN NaN NaN NaN NaN NaN NaN 65.84 1 66.549 66.049 67.049 0.70891 0 0 0 0.99687 1 31168 31168 4.3292 0.73274 1 863 2947 690 690 849 849 0.0009279953474106151 APAGAQHNQMY 11 Unmodified _APAGAQHNQMY_ 0 0 0 REV__ENSG00000100888|ENST00000646647|CHD8 REV__ENSG00000100888|ENST00000646647|CHD8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 594.2664794921875 2 594.266747 1186.51894 NaN NaN NaN NaN NaN NaN NaN 12.371 1 12.371 11.871 12.871 0 0 0 0 0.99968 1 5358 5358 6.7232 2.3939 1 + 864 10853 691 691 850 850 -0.06685761070684748 APAGCCCCCCF 11 Unmodified _APAGCCCCCCF_ 0 0 0 ENSG00000143643|ENST00000366661|TTC13;nc|ENSG00000143643|Q8NBP0-2|TTC13 ENSG00000143643|ENST00000366661|TTC13 ENSG00000143643|ENST00000366661|TTC13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.72802734375 2 540.648547 1079.28254 NaN NaN NaN NaN NaN NaN NaN 76.216 1 76.84 76.34 77.34 0.62397 0 0 0 0.99968 1 36932 36932 6.7232 4.8789 1 865 3385 692 692 851 851 -0.25392934818546564 APAGDEDDD 9 Unmodified _APAGDEDDD_ 0 0 0 REV__nc|ENSG00000116985|P34820-2|BMP8B REV__nc|ENSG00000116985|P34820-2|BMP8B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 452.6625061035156 2 452.661969 903.309385 NaN NaN NaN NaN NaN NaN NaN 72.189 1 72.189 71.689 72.689 0 0 0 0 0.89315 1 35105 35105 5.2307 2.3415 1 + 866 9979 693 693 852 852 -0.14613725542847078 APAGFFFLS 9 Unmodified _APAGFFFLS_ 0 0 0 ENST00000370598.5_1_6:69345622-69345742:+|nuORF ENST00000370598.5_1_6:69345622-69345742:+|nuORF ENST00000370598.5_1_6:69345622-69345742:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.6262512207031 2 478.747453 955.480354 NaN NaN NaN NaN NaN NaN NaN 65.339 1 65.339 64.839 65.839 0 0 0 0 0.7971 1 31116 31116 9.3474 0 1 867 7305 694 694 853 853 0.0008330135708547459 APAGHRYR 8 Unmodified _APAGHRYR_ 0 0 0 REV__ENST00000561370.5_1_14:68048786-68054020:+|nuORF REV__ENST00000561370.5_1_14:68048786-68054020:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.9216613769531 2 464.249018 926.483482 NaN NaN NaN NaN NaN NaN NaN 93.511 1 94.142 93.642 94.642 0.63115 0 0 0 0.99035 1 43016 43016 6.3541 0 1 + 868 10366 695 695 854 854 0.01729989254465636 APAGKGECDH 10 Unmodified _APAGKGECDH_ 0 0 0 REV__ENST00000275767.3_1_7:134832829-134849312:+|nuORF REV__ENST00000275767.3_1_7:134832829-134849312:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.7481689453125 2 492.713816 983.413079 NaN NaN NaN NaN NaN NaN NaN 69.794 1 70.497 69.997 70.997 0.70302 0 0 0 0.99687 1 33416 33416 4.3292 0 1 + 869 15076 696 696 855 855 -0.07929096916188882 APAGKGLKILL 11 Unmodified _APAGKGLKILL_ 0 0 0 ENST00000320954.10_2_3:33187460-33187940:+|nuORF ENST00000320954.10_2_3:33187460-33187940:+|nuORF ENST00000320954.10_2_3:33187460-33187940:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.8627319335938 2 540.860609 1079.70667 NaN NaN NaN NaN NaN NaN NaN 74.656 1 74.656 74.156 75.156 0 0 0 0 0.99968 1 36489 36489 6.7232 3.1267 1 870 6926 697 697 856 856 0.17000045196186875 APAGMKKQEAK 11 Unmodified _APAGMKKQEAK_ 0 0 0 ENST00000468834.1_1_10:33346560-33347304:-|nuORF ENST00000468834.1_1_10:33346560-33347304:-|nuORF ENST00000468834.1_1_10:33346560-33347304:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.8215942382812 2 579.818615 1157.62268 NaN NaN NaN NaN NaN NaN NaN 16.92 1 16.92 16.42 17.42 0 0 0 0 1.0038 1 7506 7506 5.7319 1.7875 1 871 8159 698 698 857 857 0.050171460369710985 APAGRREGGG 10 Unmodified _APAGRREGGG_ 0 0 0 REV__ENSG00000184897|ENST00000333762|H1-10 REV__ENSG00000184897|ENST00000333762|H1-10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.24053955078125 2 464.24139 926.468226 NaN NaN NaN NaN NaN NaN NaN 71.207 1 71.91 71.41 72.41 0.70386 0 0 0 0.98473 1 34187 34187 7.9102 1.5561 1 + 872 13991 699 699 858 858 0.0020507766662376525 APAGRRRHLL 10 Unmodified _APAGRRRHLL_ 0 0 0 ENST00000453038.5_1_2:220040976-220041837:-|nuORF;ENST00000360507.9_1_2:220040976-220041644:-|nuORF ENST00000453038.5_1_2:220040976-220041837:-|nuORF ENST00000453038.5_1_2:220040976-220041837:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 573.8521728515625 2 573.851973 1145.68939 NaN NaN NaN NaN NaN NaN NaN 92.153 1 92.801 92.301 93.301 0.64714 0 0 0 0.99687 1 42401 42401 4.3292 0.73274 1 873 7215 700 700 859 859 0.12237562433733729 APAGRVRFRR 10 Unmodified _APAGRVRFRR_ 0 0 0 REV__ENST00000589096.1_1_19:13869843-13870239:+|nuORF REV__ENST00000589096.1_1_19:13869843-13870239:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.3573608398438 2 593.357422 1184.70029 NaN NaN NaN NaN NaN NaN NaN 75.857 1 75.857 75.357 76.357 0 0 0 0 0.99687 1 37178 37178 4.3292 0 1 + 874 17565 701 701 860 860 0.11532964807997814 APAGTEDDEF 10 Unmodified _APAGTEDDEF_ 0 0 0 REV__ENSG00000182103|ENST00000329203|FAM181B REV__ENSG00000182103|ENST00000329203|FAM181B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 525.886474609375 2 526.214369 1050.41418 NaN NaN NaN NaN NaN NaN NaN 62.582 1 62.582 62.082 63.082 0 0 0 0 0.98473 1 29337 29337 7.9102 3.1541 1 + 875 13871 702 702 861 861 -0.10900604066273445 APAHALQC 8 Unmodified _APAHALQC_ 0 0 0 NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant;ENSG00000134250|ENST00000256646|NOTCH2;nc|ENSG00000286106|A0A096LNW5|NOTCH2NLR;NOTCH2|p.N1131Tfs*76|1|0.2|ENSG00000134250|chr1:119937412-119937412|T/-|frameshift_variant;ENSG00000273136|ENST00000620612|NBPF26 NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant;ENSG00000273136|ENST00000620612|NBPF26 ENSG00000273136|ENST00000620612|NBPF26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.3936157226562 1 810.392684 809.385408 3.2923 0.002668 -1.5758 -0.001277 1.7164 0.001391 810.3930668672587 89.942 0.22223 89.942 89.818 90.041 0 49 34 2 0 0 0 0.69414 2 47045 47045;47167 6.3541 0 1 43028000 876 6336;2791 703 703 862;863 862 -0.026909553857535684 APAHFHRNF 9 Unmodified _APAHFHRNF_ 0 0 0 nc|ENSG00000127603|O94854|MACF1;nc|ENSG00000127603|O94854-4|MACF1 nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|O94854|MACF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.1331787109375 2 548.7754 1095.53625 NaN NaN NaN NaN NaN NaN NaN 74.471 1 74.471 73.971 74.971 0 0 0 0 0.89315 1 36380 36380 5.2307 0.90143 1 877 9629 704 704 864 864 -0.007700526827193244 APAHIRAAPRT 11 Unmodified _APAHIRAAPRT_ 0 0 0 REV__ENST00000409179.2_1_2:128145216-128145309:-|nuORF REV__ENST00000409179.2_1_2:128145216-128145309:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 580.6026611328125 2 580.835988 1159.65742 NaN NaN NaN NaN NaN NaN NaN 61.97 1 61.97 61.47 62.47 0 0 0 0 0.87973 1 28980 28980 18.146 8.7632 1 + 878 16090 705 705 865 865 0.08398149959907641 APAHRGSPW 9 Unmodified _APAHRGSPW_ 0 0 0 REV__ENST00000228918.8_1_12:6493298-6493809:+|nuORF REV__ENST00000228918.8_1_12:6493298-6493809:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 489.7474060058594 2 489.74885 977.483148 NaN NaN NaN NaN NaN NaN NaN 53.093 1 53.896 53.396 54.396 0.80351 0 0 0 0.82031 1 24199 24199 8.5933 0.68312 1 + 879 14844 706 706 866 866 -0.006494304653870131 APAHRMLLQ 9 Unmodified _APAHRMLLQ_ 0 0 0 ENST00000368605.2_1_6:116783229-116784525:+|nuORF ENST00000368605.2_1_6:116783229-116784525:+|nuORF ENST00000368605.2_1_6:116783229-116784525:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.6492309570312 2 518.789661 1035.56477 NaN NaN NaN NaN NaN NaN NaN 64.287 1 65.002 64.502 65.502 0.71521 0 0 0 0.89315 1 30274 30274 5.2307 0 1 880 7282 707 707 867 867 0.04840928902217456 APAHWRLRCPH 11 Unmodified _APAHWRLRCPH_ 0 0 0 ENST00000474741.5_1_22:32009833-32014520:+|nuORF ENST00000474741.5_1_22:32009833-32014520:+|nuORF ENST00000474741.5_1_22:32009833-32014520:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 672.7713012695312 2 672.34874 1342.68293 NaN NaN NaN NaN NaN NaN NaN 85.461 1 85.71 85.21 86.21 0.24857 0 0 0 1.0071 1 39327 39327 1.4819 0.28856 1 881 8215 708 708 868 868 0.0252930121071131 APAILVLLK 9 Unmodified _APAILVLLK_ 0 0 0 REV__ENST00000287878.8_2_7:151573972-151574197:-|nuORF REV__ENST00000287878.8_2_7:151573972-151574197:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.3284606933594 2 469.325871 936.637189 NaN NaN NaN NaN NaN NaN NaN 62.574 1 63.304 62.804 63.804 0.73077 0 0 0 0.89509 1 29198 29198 4.756 0.81161 1 + 882 15116 709 709 869 869 0.1663358624742841 APAILVLLK 9 Unmodified _APAILVLLK_ 0 0 0 REV__ENST00000287878.8_2_7:151573972-151574197:-|nuORF REV__ENST00000287878.8_2_7:151573972-151574197:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 468.9684753417969 2 469.325871 936.637189 NaN NaN NaN NaN NaN NaN NaN 72.866 1 73.53 73.03 74.03 0.66398 0 0 0 0.89509 1 33459 33459 4.756 2.4533 1 + 883 15116 709 709 870 870 0.1663358624742841 APAIPGVW 8 Unmodified _APAIPGVW_ 0 0 0 REV__ENST00000285689.7_2_5:125759020-125759227:+|nuORF REV__ENST00000285689.7_2_5:125759020-125759227:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 810.3348388671875 1 810.450851 809.443575 3.2728 0.0026524 -1.8123 -0.0014688 1.4605 0.0011836 810.450853092457 87.731 0.14452 87.731 87.654 87.799 0 31 22 3 0 0 0 0.13779 1 45272 45272 6.3541 3.4649 1 46205000 + 884 15109 710 710 871 871 0.031230495311888262 APAITLTVNIS 11 Unmodified _APAITLTVNIS_ 0 0 0 ENSG00000109182|ENST00000226432|CWH43 ENSG00000109182|ENST00000226432|CWH43 ENSG00000109182|ENST00000226432|CWH43 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.3889770507812 2 550.321514 1098.62847 NaN NaN NaN NaN NaN NaN NaN 83.676 1 83.704 83.204 84.204 0.028603 0 0 0 0.87973 1 41582 41582 18.146 6.5061 1 885 1672 711 711 872 872 0.08310567820285542 APAIWFILL 9 Unmodified _APAIWFILL_ 0 0 0 REV__nc|ENSG00000170113|Q7RTP0-2|NIPA1 REV__nc|ENSG00000170113|Q7RTP0-2|NIPA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.1771850585938 2 522.318046 1042.62154 NaN NaN NaN NaN NaN NaN NaN 60.493 1 61.233 60.733 61.733 0.7396 0 0 0 0.7971 1 27918 27918 9.3474 1.4373 1 + 886 13423 712 712 873 873 0.10193299730372019 APAKAKGRL 9 Unmodified _APAKAKGRL_ 0 0 0 chr3:122928612-122928996|207|36.61|0.04|9.79|-|1|None,SEMA5B|1 chr3:122928612-122928996|207|36.61|0.04|9.79|-|1|None,SEMA5B|1 chr3:122928612-122928996|207|36.61|0.04|9.79|-|1|None,SEMA5B|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.38232421875 2 456.292894 910.571235 NaN NaN NaN NaN NaN NaN NaN 65.557 1 65.557 65.057 66.057 0 0 0 0 0.69911 1 31250 31250 12.532 2.3482 1 887 168 713 713 874 874 0.11237190125223151 APAKFLGNQ 9 Unmodified _APAKFLGNQ_ 0 0 0 nc|ENSG00000058085|Q13753-2|LAMC2;ENSG00000058085|ENST00000264144|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.26068115234375 2 473.261259 944.507966 NaN NaN NaN NaN NaN NaN NaN 70.849 1 71.553 71.053 72.053 0.70386 0 0 0 0.69911 1 33984 33984 12.532 3.9383 1 888 628 714 714 875 875 0.03349204617347823 APAKIFDRPPV 11 Unmodified _APAKIFDRPPV_ 0 0 0 REV__ENST00000479887.1_1_7:143949295-143949613:-|nuORF REV__ENST00000479887.1_1_7:143949295-143949613:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 605.8512573242188 2 605.850773 1209.68699 NaN NaN NaN NaN NaN NaN NaN 106.46 1 106.51 106.01 107.01 0.04837 0 0 0 0.99968 1 57591 57591 6.7232 0.99131 1 + 889 16683 715 715 876 876 0.09053669185414037 APAKKAKPAM 10 Unmodified _APAKKAKPAM_ 0 0 0 nc|ENSG00000131473|P53396-2|ACLY;ENSG00000131473|ENST00000352035|ACLY;nc|ENSG00000131473|P53396-3|ACLY nc|ENSG00000131473|P53396-2|ACLY nc|ENSG00000131473|P53396-2|ACLY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.2045593261719 3 338.203917 1011.58992 2.3997 0.00081158 -0.988 -0.00033415 1.4117 0.00047743 338.20359144215564 46.766 0.36953 47.418 47.167 47.537 0.65219 19 11 3 0 0 0 0.94099 1 21439 21439 0.69767 0.29695 1 405030 890 2662 716 716 877 877 0.08458983704770162 APAKKEPVP 9 Unmodified _APAKKEPVP_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 468.9109802246094 2 468.779285 935.544017 NaN NaN NaN NaN NaN NaN NaN 66.408 1 66.408 65.908 66.908 0 0 0 0 0.69911 1 31738 31738 12.532 0 1 + 891 12747 717 717 878 878 0.07366661794185347 APAKKGEKV 9 Unmodified _APAKKGEKV_ 0 0 0 ENST00000555320.1_1_14:81288942-81289137:+|nuORF;ENST00000261249.6_1_14:61438965-61439184:-|nuORF;ENST00000493418.1_1_1:26800500-26801161:+|nuORF;ENSG00000198830|ENST00000361427|HMGN2 ENST00000555320.1_1_14:81288942-81289137:+|nuORF ENST00000555320.1_1_14:81288942-81289137:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.2866516113281 2 464.284734 926.554916 NaN NaN NaN NaN NaN NaN NaN 75.983 1 75.983 75.483 76.483 0 0 0 0 0.82031 1 37238 37238 8.5933 0 1 892 5944 718 718 879 879 0.0887006416847953 APAKKGELL 9 Unmodified _APAKKGELL_ 0 0 0 REV__ENST00000553144.1_1_12:110785224-110788107:+|nuORF REV__ENST00000553144.1_1_12:110785224-110788107:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.52459716796875 2 463.78711 925.559667 NaN NaN NaN NaN NaN NaN NaN 68.242 1 68.242 67.742 68.742 0 0 0 0 0.69911 1 32844 32844 12.532 3.9383 1 + 893 17301 719 719 880 880 0.09390948311249758 APAKKGSQNT 10 Unmodified _APAKKGSQNT_ 0 0 0 REV__ZNF618|p.Q426Rfs*6|1|0.24|ENSG00000157657|chr9:114047920-114047929|ACCAGTCCCG/-|frameshift_variant REV__ZNF618|p.Q426Rfs*6|1|0.24|ENSG00000157657|chr9:114047920-114047929|ACCAGTCCCG/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.5893859863281 2 501.272355 1000.53016 NaN NaN NaN NaN NaN NaN NaN 65.2 1 65.2 64.7 65.7 0 0 0 0 0.96627 1 31019 31019 10.824 0.64053 1 + 894 12807 720 720 881 881 0.02991384295091848 APAKKKKR 8 Unmodified _APAKKKKR_ 0 0 0 REV__nc|ENSG00000196498|Q9Y618-5|NCOR2 REV__nc|ENSG00000196498|Q9Y618-5|NCOR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.8157958984375 2 463.816536 925.618519 NaN NaN NaN NaN NaN NaN NaN 61.855 1 62.586 62.086 63.086 0.73077 0 0 0 0.79116 1 28743 28743 19.439 1.304 1 + 895 14222 721 721 882 882 0.15273469396231576 APAKKKMKLR 10 Unmodified _APAKKKMKLR_ 0 0 0 ENSG00000127511|ENST00000248054|SIN3B;nc|ENSG00000127511|O75182|SIN3B;nc|ENSG00000127511|O75182-3|SIN3B;SIN3B|p.P553Rfs*19|1|0.19|ENSG00000127511|chr19:16865585-16865585|C/-|frameshift_variant ENSG00000127511|ENST00000248054|SIN3B ENSG00000127511|ENST00000248054|SIN3B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.8805541992188 2 585.87881 1169.74307 NaN NaN NaN NaN NaN NaN NaN 81.026 1 81.026 80.526 81.526 0 0 0 0 0.99687 1 40321 40321 4.3292 0.73274 1 896 2483 722 722 883 883 0.1649859882122655 APAKKKSGSKK 11 Unmodified _APAKKKSGSKK_ 0 0 0 nc|ENSG00000125844|Q9P2E9-3|RRBP1;ENSG00000125844|ENST00000377813|RRBP1 nc|ENSG00000125844|Q9P2E9-3|RRBP1 nc|ENSG00000125844|Q9P2E9-3|RRBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 565.477783203125 2 565.356222 1128.69789 NaN NaN NaN NaN NaN NaN NaN 63.729 1 64.451 63.951 64.951 0.72236 0 0 0 0.91016 1 29882 29882 15.248 5.1746 1 897 2427 723 723 884 884 0.13869071559724944 APAKKLRKPRT 11 Unmodified _APAKKLRKPRT_ 0 0 0 nc|ENSG00000108813|Q92988-3|DLX4;nc|ENSG00000108813|Q92988-2|DLX4;ENSG00000108813|ENST00000240306|DLX4 nc|ENSG00000108813|Q92988-3|DLX4 nc|ENSG00000108813|Q92988-3|DLX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.4091796875 2 633.411863 1264.80917 NaN NaN NaN NaN NaN NaN NaN 61.966 1 61.966 61.466 62.466 0 0 0 0 0.97175 1 28977 28977 9.3831 2.2814 1 898 1650 724 724 885 885 0.18736130987645083 APAKKLSVP 9 Unmodified _APAKKLSVP_ 0 0 0 REV__ENSG00000196531|ENST00000454682|NACA REV__ENSG00000196531|ENST00000454682|NACA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 455.7898254394531 2 455.789653 909.564752 NaN NaN NaN NaN NaN NaN NaN 66.176 1 66.881 66.381 67.381 0.7047 0 0 0 0.69911 1 31353 31353 12.532 1.7076 1 + 899 14227 725 725 886 886 0.10635252173858589 APAKKPKPE 9 Unmodified _APAKKPKPE_ 0 0 0 REV__ENST00000261249.6_1_14:61438965-61439184:-|nuORF REV__ENST00000261249.6_1_14:61438965-61439184:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.33489990234375 2 483.292559 964.570566 NaN NaN NaN NaN NaN NaN NaN 71.242 1 71.242 70.742 71.742 0 0 0 0 0.82031 1 34626 34626 8.5933 3.3626 1 + 900 14363 726 726 887 887 0.08686350685513844 APAKKPYRK 9 Unmodified _APAKKPYRK_ 0 0 0 nc|ENSG00000137221|Q5JTD0-3|TJAP1;ENST00000483640.5_1_6:43466739-43470406:+|nuORF;nc|ENSG00000137221|Q5JTD0-2|TJAP1;ENSG00000137221|ENST00000372449|TJAP1 nc|ENSG00000137221|Q5JTD0-3|TJAP1 nc|ENSG00000137221|Q5JTD0-3|TJAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.8265991210938 2 529.827101 1057.63965 NaN NaN NaN NaN NaN NaN NaN 72.869 1 73.533 73.033 74.033 0.66398 0 0 0 0.82031 1 33461 33461 8.5933 0.68312 1 901 3005 727 727 888 888 0.11313434705061809 APAKKRDIIKI 11 Unmodified _APAKKRDIIKI_ 0 0 0 REV__ENSG00000212122|ENST00000390666|TSSK1B REV__ENSG00000212122|ENST00000390666|TSSK1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 626.7592163085938 2 626.908622 1251.80269 NaN NaN NaN NaN NaN NaN NaN 78.978 1 78.978 78.478 79.478 0 0 0 0 1.0055 1 38940 38940 3.5965 0.60125 1 + 902 14480 728 728 889 889 0.18686193036273835 APAKKRDIIKI 11 Unmodified _APAKKRDIIKI_ 0 0 0 REV__ENSG00000212122|ENST00000390666|TSSK1B REV__ENSG00000212122|ENST00000390666|TSSK1B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 626.682373046875 2 626.908622 1251.80269 3.1947 0.0020028 -1.556 -0.00097548 1.6387 0.0010273 626.9095715583182 68.232 0.035675 68.232 68.209 68.245 0 6 5 2 0 0 0 0.13295 1 32839 32839 6.2058 3.2105 1 3624400 + 903 14480 728 728 890 890 0.18686193036273835 APAKKRKPE 9 Unmodified _APAKKRKPE_ 0 0 0 REV__ENST00000555320.1_1_14:81288942-81289137:+|nuORF REV__ENST00000555320.1_1_14:81288942-81289137:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.011474609375 2 512.816733 1023.61891 NaN NaN NaN NaN NaN NaN NaN 105.99 1 106.59 106.09 107.09 0.59969 0 0 0 0.90228 1 48942 48942 5.2307 0 1 + 904 17319 729 729 891 891 0.10804844325423346 APAKKRKPEPK 11 Unmodified _APAKKRKPEPK_ 0 0 0 REV__ENST00000555320.1_1_14:81288942-81289137:+|nuORF REV__ENST00000555320.1_1_14:81288942-81289137:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 625.3914794921875 2 625.390596 1248.76664 NaN NaN NaN NaN NaN NaN NaN 73.648 1 74.347 73.847 74.847 0.69881 0 0 0 1.0055 1 35532 35532 3.5965 1.7523 1 + 905 17319 730 730 892 892 0.1522073585938415 APAKKRRR 8 Unmodified _APAKKRRR_ 0 0 0 ENST00000485891.1_1_2:75745265-75787829:-|nuORF ENST00000485891.1_1_2:75745265-75787829:-|nuORF ENST00000485891.1_1_2:75745265-75787829:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.82421875 2 491.822684 981.630815 NaN NaN NaN NaN NaN NaN NaN 75.548 1 76.212 75.712 76.712 0.6644 0 0 0 0.93233 1 34808 34808 10.183 1.5901 1 906 8334 731 731 893 893 0.1392650585927413 APAKKRRRRV 10 Unmodified _APAKKRRRRV_ 0 0 0 ENST00000485891.1_1_2:75745265-75787829:-|nuORF ENST00000485891.1_1_2:75745265-75787829:-|nuORF ENST00000485891.1_1_2:75745265-75787829:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.4052124023438 2 619.407447 1236.80034 NaN NaN NaN NaN NaN NaN NaN 71.269 1 71.269 70.769 71.769 0 0 0 0 0.98866 1 34640 34640 7.2892 4.294 1 907 8334 732 732 894 894 0.19141202141827307 APAKPEEAEA 10 Unmodified _APAKPEEAEA_ 0 0 0 ENSG00000110328|ENST00000227756|GALNT18 ENSG00000110328|ENST00000227756|GALNT18 ENSG00000110328|ENST00000227756|GALNT18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.6761779785156 2 506.750921 1011.48729 NaN NaN NaN NaN NaN NaN NaN 72.279 1 72.279 71.779 72.779 0 0 0 0 0.98866 1 35155 35155 7.2892 2.0586 1 908 1708 733 733 895 895 -0.017994305530010024 APAKPKSLQ 9 Unmodified _APAKPKSLQ_ 0 0 0 REV__nc|ENSG00000105549|Q9P2T0-2|SPMAP2 REV__nc|ENSG00000105549|Q9P2T0-2|SPMAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.28668212890625 2 470.284734 938.554916 NaN NaN NaN NaN NaN NaN NaN 76.763 1 77.426 76.926 77.926 0.66387 0 0 0 0.90335 1 35370 35370 4.756 2.4533 1 + 909 11041 734 734 896 896 0.08318064168486217 APAKQGKQAK 10 Unmodified _APAKQGKQAK_ 0 0 0 REV__ENSG00000188846|ENST00000396203|RPL14 REV__ENSG00000188846|ENST00000396203|RPL14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.8080444335938 2 513.806365 1025.59818 NaN NaN NaN NaN NaN NaN NaN 76.929 1 77.553 77.053 78.053 0.62397 0 0 0 0.98866 1 37300 37300 7.2892 0 1 + 910 14162 735 735 897 897 0.08640253945759468 APAKQHYNLHS 11 Unmodified _APAKQHYNLHS_ 0 0 0 REV__nc|ENSG00000165511|Q5T742|ZNF22-AS1 REV__nc|ENSG00000165511|Q5T742|ZNF22-AS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.5518798828125 3 422.551033 1264.63127 NaN NaN NaN NaN NaN NaN NaN 64.403 1 64.403 63.903 64.903 0 0 0 0 1.0055 1 30501 30501 1.4551 0 1 + 911 18024 736 736 898 898 0.009538359978023436 APAKRAARK 9 Unmodified _APAKRAARK_ 0 0 0 REV__ENSG00000225830|ENST00000355832|ERCC6;REV__nc|ENSG00000225830|P0DP91|ERCC6 REV__ENSG00000225830|ENST00000355832|ERCC6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.8089904785156 2 484.809242 967.603932 NaN NaN NaN NaN NaN NaN NaN 95.603 1 95.87 95.37 96.37 0.2675 0 0 0 0.89315 1 43927 43927 5.2307 0 1 + 912 14556;18138 737 737 899 899 0.11883397248084293 APAKRKRSV 9 Unmodified _APAKRKRSV_ 0 0 0 REV__ENSG00000198876|ENST00000361264|DCAF12 REV__ENSG00000198876|ENST00000361264|DCAF12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.8248291015625 2 506.82235 1011.63015 NaN NaN NaN NaN NaN NaN NaN 66.108 1 66.108 65.608 66.608 0 0 0 0 0.69911 1 31558 31558 12.532 0 1 + 913 14374 738 738 900 900 0.12479666419562818 APAKRPKLISP 11 Unmodified _APAKRPKLISP_ 0 0 0 REV__nc|ENSG00000214021|Q9Y4R7|TTLL3 REV__nc|ENSG00000214021|Q9Y4R7|TTLL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.3719482421875 2 589.374415 1176.73428 NaN NaN NaN NaN NaN NaN NaN 83.248 1 83.495 82.995 83.995 0.24722 0 0 0 1.0055 1 38321 38321 3.5965 1.7523 1 + 914 14505 739 739 901 901 0.15297948456418453 APAKWVFSLNR 11 Unmodified _APAKWVFSLNR_ 0 0 0 REV__ENSG00000250673|ENST00000623665|REELD1 REV__ENSG00000250673|ENST00000623665|REELD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 645.1792602539062 2 644.861672 1287.70879 NaN NaN NaN NaN NaN NaN NaN 73.663 1 74.328 73.828 74.828 0.6644 0 0 0 1.0034 1 33871 33871 6.2058 0 1 + 915 14655 740 740 902 902 0.07644473933987683 APALDAPLF 9 Unmodified _APALDAPLF_ 0 0 0 ENSG00000234560|ENST00000641224|OR10G8 ENSG00000234560|ENST00000641224|OR10G8 ENSG00000234560|ENST00000641224|OR10G8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 914.5026245117188 1 914.498195 913.490919 3.9576 0.0036192 -0.12302 -0.0001125 3.8346 0.0035067 914.4983098588466 80.428 0.26978 81.088 80.971 81.241 0.65998 25 15 2 0 0 0 0.069137 2 37027 37027;37074 40.449 4.4044 1 1166800 916 6196 741 741 903;904 903 0.03071284011514308 APALEYETL 9 Unmodified _APALEYETL_ 0 0 0 nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-14|DST;DST|p.I5232Sfs*5|1|0.18|ENSG00000151914|chr6:56470139-56470139|T/-|frameshift_variant;ENSG00000151914|ENST00000680361|DST;nc|ENSG00000151914|Q03001-8|DST nc|ENSG00000151914|Q03001|DST nc|ENSG00000151914|Q03001|DST MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 503.75714111328125 2 503.758215 1005.50188 NaN NaN NaN NaN NaN NaN NaN 67.922 1 67.922 67.422 68.422 0 0 0 0 0.66907 1 32646 32646 13.508 2.684 1 917 9690 742 742 905 905 -0.0006535840484502842 APALFDVDKF 10 Unmodified _APALFDVDKF_ 0 0 0 REV__ENSG00000254469|ENST00000679412|XNDC1N REV__ENSG00000254469|ENST00000679412|XNDC1N MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.73828125 2 561.795132 1121.57571 NaN NaN NaN NaN NaN NaN NaN 56.719 1 56.719 56.219 57.219 0 0 0 0 0.99687 1 26110 26110 4.3292 0 1 + 918 14666 743 743 906 906 0.01978609757452432 APALLISQLAP 11 Unmodified _APALLISQLAP_ 0 0 0 REV__nc|ENSG00000172890|Q6IA69-2|NADSYN1 REV__nc|ENSG00000172890|Q6IA69-2|NADSYN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.0034790039062 2 547.334424 1092.6543 NaN NaN NaN NaN NaN NaN NaN 95.41 1 95.678 95.178 96.178 0.2675 0 0 0 1.0073 1 43839 43839 1.1933 0 1 + 919 13569 744 744 907 907 0.11167462062576305 APALLLKKL 9 Unmodified _APALLLKKL_ 0 0 0 REV__ENST00000509702.5_1_4:23826795-23833347:-|nuORF REV__ENST00000509702.5_1_4:23826795-23833347:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.974365234375 2 483.839146 965.663738 NaN NaN NaN NaN NaN NaN NaN 72.071 1 72.071 71.571 72.571 0 0 0 0 0.89315 1 35043 35043 5.2307 1.2863 1 + 920 11183 745 745 908 908 0.1795327513874554 APALLLLALL 10 Unmodified _APALLLLALL_ 0 0 0 ENSG00000184471|ENST00000328449|C1QTNF8 ENSG00000184471|ENST00000328449|C1QTNF8 ENSG00000184471|ENST00000328449|C1QTNF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.3457946777344 2 504.346803 1006.67905 NaN NaN NaN NaN NaN NaN NaN 75.125 1 75.125 74.625 75.625 0 0 0 0 0.99687 1 36808 36808 4.3292 0 1 921 5444 746 746 909 909 0.17598141935934564 APALPMTLTL 10 Unmodified _APALPMTLTL_ 0 0 0 REV__HERVH-int_dup4295|chr11:71737927-71740823:+|2.9111428382893654|0.2495776091037528|3.54|531.0|114|2|anti-sense REV__HERVH-int_dup4295|chr11:71737927-71740823:+|2.9111428382893654|0.2495776091037528|3.54|531.0|114|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.21051025390625 3 343.200061 1026.57835 NaN NaN NaN NaN NaN NaN NaN 14.683 1 14.99 14.49 15.49 0.3069 0 0 0 0.99704 1 6638 6638 4.1895 0.59301 1 + 922 17730 747 747 910 910 0.06612741890762663 APALPPFFSSQ 11 Unmodified _APALPPFFSSQ_ 0 0 0 REV__ENST00000572275.1_1_17:7826422-7827118:-|nuORF REV__ENST00000572275.1_1_17:7826422-7827118:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.3025512695312 2 581.300581 1160.58661 NaN NaN NaN NaN NaN NaN NaN 71.148 1 71.148 70.648 71.648 0 0 0 0 0.99968 1 34572 34572 6.7232 0.51738 1 + 923 17455 748 748 911 911 0.012740121317847297 APALRCRF 8 Unmodified _APALRCRF_ 0 0 0 REV__ENST00000582456.1_1_17:80408047-80408488:-|nuORF REV__ENST00000582456.1_1_17:80408047-80408488:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.1976623535156 2 467.257997 932.501441 NaN NaN NaN NaN NaN NaN NaN 68.564 1 68.564 68.064 69.064 0 0 0 0 0.99035 1 33023 33023 6.3541 0 1 + 924 17516 749 749 912 912 0.03248988184964219 APALRFLKRT 10 Unmodified _APALRFLKRT_ 0 0 0 nc|ENSG00000089094|Q8NHM5-4|KDM2B;nc|ENSG00000089094|Q8NHM5-2|KDM2B;nc|ENSG00000089094|Q8NHM5-3|KDM2B;ENSG00000089094|ENST00000377071|KDM2B;nc|ENSG00000089094|Q8NHM5-5|KDM2B;ENST00000538503.5_1_12:121882954-121987523:-|nuORF nc|ENSG00000089094|Q8NHM5-4|KDM2B nc|ENSG00000089094|Q8NHM5-4|KDM2B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.8665161132812 2 586.866757 1171.71896 NaN NaN NaN NaN NaN NaN NaN 72.314 1 72.573 72.073 73.073 0.25876 0 0 0 0.99225 1 33195 33195 6.7232 0 1 925 1030 750 750 913 913 0.13997081659204014 APALRKVGLVP 11 Unmodified _APALRKVGLVP_ 0 0 0 ENST00000538662.5_1_19:1383907-1391085:+|nuORF;ENST00000543289.5_1_19:1388688-1391085:+|nuORF ENST00000538662.5_1_19:1383907-1391085:+|nuORF ENST00000538662.5_1_19:1383907-1391085:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.00537109375 2 560.863683 1119.71281 NaN NaN NaN NaN NaN NaN NaN 100.61 1 101.21 100.71 101.71 0.59717 0 0 0 0.99968 1 46576 46576 6.7232 3.1267 1 926 8784 751 751 914 914 0.1577456342770347 APALRNRK 8 Unmodified _APALRNRK_ 0 0 0 REV__ENST00000515319.6_1_X:2405587-2406978:-|nuORF REV__ENST00000515319.6_1_X:2405587-2406978:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.28741455078125 2 463.288143 924.561733 NaN NaN NaN NaN NaN NaN NaN 96.502 1 97.103 96.603 97.603 0.6019 0 0 0 0.99035 1 44370 44370 6.3541 0 1 + 927 14513 752 752 915 915 0.0964342183970075 APALRPRGR 9 Unmodified _APALRPRGR_ 0 0 0 ENSG00000135862|ENST00000258341|LAMC1;LAMC1|p.C916Vfs*123|1|0.4|ENSG00000135862|chr1:183125494-183125494|C/-|frameshift_variant ENSG00000135862|ENST00000258341|LAMC1 ENSG00000135862|ENST00000258341|LAMC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 497.3084411621094 2 497.306867 992.599181 NaN NaN NaN NaN NaN NaN NaN 89.401 1 89.401 88.901 89.901 0 0 0 0 0.69911 1 46678 46678 12.532 0.89125 1 928 2904 753 753 916 916 0.1025851310531607 APALRRLPQQ 10 Unmodified _APALRRLPQQ_ 0 0 0 ENSG00000167700|ENST00000301327|MFSD3;ENST00000526749.1_1_8:145735004-145735891:+|nuORF;ENST00000528047.5_1_8:145734716-145735997:+|nuORF ENSG00000167700|ENST00000301327|MFSD3 ENSG00000167700|ENST00000301327|MFSD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.34716796875 2 575.346189 1148.67783 3.8802 0.0022325 -1.1859 -0.0006823 2.6943 0.0015502 575.3452960952341 93.651 0.80415 94.282 94.046 94.851 0.63115 84 40 3 0 0 0 0.82431 2 43131 43131;43192 7.2892 1.0834 1 3289400 929 4574 754 754 917;918 917 0.10943320619730912 APALRSRIHER 11 Unmodified _APALRSRIHER_ 0 0 0 ENST00000589111.5_1_19:39359746-39361880:-|nuORF;nc|ENSG00000187994|Q6ZS11-2|RINL;ENSG00000187994|ENST00000591812|RINL ENST00000589111.5_1_19:39359746-39361880:-|nuORF ENST00000589111.5_1_19:39359746-39361880:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 653.3795166015625 2 653.378552 1304.74255 NaN NaN NaN NaN NaN NaN NaN 64.864 1 65.579 65.079 66.079 0.71521 0 0 0 1.0055 1 30578 30578 3.5965 0 1 930 5645 755 755 919 919 0.10236895425714465 APALRTHHG 9 Unmodified _APALRTHHG_ 0 0 0 ENST00000259392.7_1_9:115913329-115920044:+|nuORF ENST00000259392.7_1_9:115913329-115920044:+|nuORF ENST00000259392.7_1_9:115913329-115920044:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.30267333984375 2 480.262125 958.509697 NaN NaN NaN NaN NaN NaN NaN 67.964 1 67.964 67.464 68.464 0 0 0 0 0.82031 1 32671 32671 8.5933 1.8701 1 931 6540 756 756 920 920 0.028782584259374744 APALSLSLCLP 11 Unmodified _APALSLSLCLP_ 0 0 0 ENST00000333274.10_1_5:107006316-107006475:-|nuORF ENST00000333274.10_1_5:107006316-107006475:-|nuORF ENST00000333274.10_1_5:107006316-107006475:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.80859375 2 542.807185 1083.59982 NaN NaN NaN NaN NaN NaN NaN 95.167 1 95.434 94.934 95.934 0.2675 0 0 0 1.0072 1 43728 43728 1.3295 0.13619 1 932 7013 757 757 921 921 0.06136126919477647 APALSRVRRAW 11 Unmodified _APALSRVRRAW_ 0 0 0 ENST00000524089.1_1_16:89238206-89251879:+|nuORF;ENSG00000129910|ENST00000289746|CDH15 ENST00000524089.1_1_16:89238206-89251879:+|nuORF ENST00000524089.1_1_16:89238206-89251879:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.8807983398438 2 641.878188 1281.74182 NaN NaN NaN NaN NaN NaN NaN 13.681 1 13.681 13.181 14.181 0 0 0 0 1.0038 1 5997 5997 5.7319 0.43497 1 933 2566 758 758 922 922 0.11222100776694788 APALTLPEL 9 Unmodified _APALTLPEL_ 0 0 0 REV__ENST00000598364.1_1_19:46318820-46320367:-|nuORF REV__ENST00000598364.1_1_19:46318820-46320367:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 462.77490234375 2 462.773668 923.532783 NaN NaN NaN NaN NaN NaN NaN 71.311 1 72.015 71.515 72.515 0.70386 0 0 0 0.83378 1 34241 34241 12.532 0 1 + 934 11693 759 759 923 923 0.06795839700043871 APALVPLIPLP 11 Unmodified _APALVPLIPLP_ 0 0 0 REV__ENST00000537670.5_1_15:66855926-66858216:-|nuORF REV__ENST00000537670.5_1_15:66855926-66858216:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.8558349609375 2 550.857535 1099.70052 NaN NaN NaN NaN NaN NaN NaN 68.402 1 68.402 67.902 68.902 0 0 0 0 1.0055 1 32931 32931 3.5965 0.31518 1 + 935 17191 760 760 924 924 0.15465526964658238 APALWDWD 8 Unmodified _APALWDWD_ 0 0 0 nc|ENSG00000145014|Q2T9K0-4|TMEM44;ENSG00000145014|ENST00000347147|TMEM44;nc|ENSG00000145014|Q2T9K0-7|TMEM44;nc|ENSG00000145014|Q2T9K0-6|TMEM44;nc|ENSG00000145014|Q2T9K0|TMEM44 nc|ENSG00000145014|Q2T9K0-4|TMEM44 nc|ENSG00000145014|Q2T9K0-4|TMEM44 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 486.9494323730469 2 487.224342 972.434132 NaN NaN NaN NaN NaN NaN NaN 72.962 1 72.962 72.462 73.462 0 0 0 0 0.99035 1 35509 35509 6.3541 0.59368 1 936 3454 761 761 925 925 -0.053187635450058224 APALWDWDYL 10 Unmodified _APALWDWDYL_ 0 0 0 nc|ENSG00000145014|Q2T9K0-4|TMEM44;ENSG00000145014|ENST00000347147|TMEM44;nc|ENSG00000145014|Q2T9K0-7|TMEM44;nc|ENSG00000145014|Q2T9K0-6|TMEM44;nc|ENSG00000145014|Q2T9K0|TMEM44 nc|ENSG00000145014|Q2T9K0-4|TMEM44 nc|ENSG00000145014|Q2T9K0-4|TMEM44 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 625.8555297851562 2 625.298039 1248.58152 2.6939 0.0016845 0.25196 0.00015755 2.9459 0.001842 625.7981670873694 82.851 0.057419 82.896 82.859 82.916 0.045006 6 4 2 0 0 0 0.88655 1 40983 40983 4.3292 0 1 2053800 937 3454 762 762 926 926 -0.03282291730852194 APALWRQRG 9 Unmodified _APALWRQRG_ 0 0 0 nc|ENSG00000010310|P48546-2|GIPR nc|ENSG00000010310|P48546-2|GIPR nc|ENSG00000010310|P48546-2|GIPR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.3603515625 2 527.798875 1053.5832 NaN NaN NaN NaN NaN NaN NaN 60.173 1 60.922 60.422 61.422 0.74927 0 0 0 0.89509 1 27704 27704 4.756 0.81161 1 938 9536 763 763 927 927 0.05854806868410378 APALYRLTIV 10 Unmodified _APALYRLTIV_ 0 0 0 REV__ENST00000462742.1_1_21:45755312-45758250:-|nuORF REV__ENST00000462742.1_1_21:45755312-45758250:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.841796875 2 558.842416 1115.67028 NaN NaN NaN NaN NaN NaN NaN 96.926 1 97.203 96.703 97.703 0.27778 0 0 0 0.99687 1 44531 44531 4.3292 0 1 + 939 16507 764 764 928 928 0.1170716829947196 APAMCEEED 9 Unmodified _APAMCEEED_ 0 0 0 ENST00000482085.1_1_10:90708534-90712518:-|nuORF;ENST00000488967.5_1_10:90706975-90712518:-|nuORF ENST00000482085.1_1_10:90708534-90712518:-|nuORF ENST00000482085.1_1_10:90708534-90712518:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 497.6495056152344 2 497.67825 993.341948 NaN NaN NaN NaN NaN NaN NaN 68.593 1 69.296 68.796 69.796 0.70218 0 0 0 0.89315 1 32715 32715 5.2307 0.90143 1 940 8301 765 765 929 929 -0.15498977735853714 APAMGEEDYYL 11 Unmodified _APAMGEEDYYL_ 0 0 0 ENST00000587153.1_1_18:21083537-21084412:+|nuORF ENST00000587153.1_1_18:21083537-21084412:+|nuORF ENST00000587153.1_1_18:21083537-21084412:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 629.7669067382812 2 629.768454 1257.52235 NaN NaN NaN NaN NaN NaN NaN 74.388 1 75.053 74.553 75.553 0.6644 0 0 0 1.0055 1 34243 34243 3.5965 0 1 941 9192 766 766 930 930 -0.09610555807353194 APAMKRPQ 8 Unmodified _APAMKRPQ_ 0 0 0 REV__ENSG00000178804|ENST00000324382|H1-8 REV__ENSG00000178804|ENST00000324382|H1-8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 449.75091552734375 2 449.750005 897.485456 NaN NaN NaN NaN NaN NaN NaN 68.51 1 69.212 68.712 69.712 0.70218 0 0 0 0.99035 1 32665 32665 5.7604 2.8712 1 + 942 13772 767 767 931 931 0.03261281948073247 APAMSNFIP 9 Unmodified _APAMSNFIP_ 0 0 0 REV__ENSG00000106789|ENST00000375077|CORO2A REV__ENSG00000106789|ENST00000375077|CORO2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.2360534667969 2 474.236396 946.458238 NaN NaN NaN NaN NaN NaN NaN 84.957 1 85.622 85.122 86.122 0.66566 0 0 0 0.7971 1 39127 39127 9.3474 0.75416 1 + 943 11098 768 768 932 932 -0.017132463829852895 APAMYDDES 9 Unmodified _APAMYDDES_ 0 0 0 ENSG00000221869|ENST00000408965|CEBPD ENSG00000221869|ENST00000408965|CEBPD ENSG00000221869|ENST00000408965|CEBPD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.69427490234375 2 499.692215 997.369877 NaN NaN NaN NaN NaN NaN NaN 86.431 1 86.462 85.962 86.962 0.030289 0 0 0 0.89315 1 43492 43492 5.2307 0 1 944 6150 769 769 933 933 -0.12891331484115653 APANHSNQHL 10 Unmodified _APANHSNQHL_ 0 0 0 REV__ENSG00000103241|ENST00000262426|FOXF1 REV__ENSG00000103241|ENST00000262426|FOXF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.9312744140625 2 544.765229 1087.5159 NaN NaN NaN NaN NaN NaN NaN 78.485 1 79.147 78.647 79.647 0.66198 0 0 0 0.98473 1 36167 36167 7.9102 1.187 1 + 945 10962 770 770 934 934 -0.02435268133194768 APANKRHIR 9 Unmodified _APANKRHIR_ 0 0 0 REV__nc|ENSG00000120907|P35348-5|ADRA1A REV__nc|ENSG00000120907|P35348-5|ADRA1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.8190307617188 2 531.817599 1061.62064 3.9328 0.0020915 -0.62061 -0.00033005 3.3122 0.0017615 531.8173234288554 96.801 0.28922 97.079 96.925 97.214 0.27778 43 17 3 0 0 0 0.92809 1 44502 44502 5.2307 0.90143 1 1805500 + 946 11547 771 771 935 935 0.09229898134026371 APANMERPVRY 11 Unmodified _APANMERPVRY_ 0 0 0 ENST00000473481.1_1_10:27065936-27112150:-|nuORF;nc|ENSG00000136754|Q8IZP0-10|ABI1;nc|ENSG00000136754|Q8IZP0-8|ABI1;nc|ENSG00000136754|Q8IZP0-7|ABI1;nc|ENSG00000136754|Q8IZP0-2|ABI1;nc|ENSG00000136754|Q8IZP0-4|ABI1;nc|ENSG00000136754|Q8IZP0-3|ABI1;nc|ENSG00000136754|Q8IZP0-5|ABI1;nc|ENSG00000136754|Q8IZP0-6|ABI1;ENSG00000136754|ENST00000376140|ABI1;nc|ENSG00000136754|Q8IZP0-12|ABI1;nc|ENSG00000136754|Q8IZP0|ABI1 ENST00000473481.1_1_10:27065936-27112150:-|nuORF ENST00000473481.1_1_10:27065936-27112150:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 652.521240234375 2 652.332421 1302.65029 NaN NaN NaN NaN NaN NaN NaN 74.53 1 75.195 74.695 75.695 0.6644 0 0 0 1.0055 1 34310 34310 3.5965 0.31518 1 947 2971 772 772 936 936 0.011070492972294232 APAPAAALERQ 11 Unmodified _APAPAAALERQ_ 0 0 0 REV__ENST00000439491.2_1_7:5338995-5342941:+|nuORF REV__ENST00000439491.2_1_7:5338995-5342941:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.8007202148438 2 547.80128 1093.58801 NaN NaN NaN NaN NaN NaN NaN 65.491 1 66.2 65.7 66.7 0.70891 0 0 0 0.90387 1 30982 30982 15.847 1.9411 1 + 948 16332 773 773 937 937 0.04495646220493654 APAPAAQAVGW 11 Unmodified _APAPAAQAVGW_ 0 0 0 nc|ENSG00000198648|Q9UEW8-2|STK39;ENSG00000198648|ENST00000355999|STK39 nc|ENSG00000198648|Q9UEW8-2|STK39 nc|ENSG00000198648|Q9UEW8-2|STK39 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.6066284179688 2 519.771991 1037.52943 NaN NaN NaN NaN NaN NaN NaN 61.898 1 62.629 62.129 63.129 0.73077 0 0 0 0.95662 1 28770 28770 10.824 2.2306 1 949 5910 774 774 938 938 0.012165896460601289 APAPAASGRPP 11 Unmodified _APAPAASGRPP_ 0 0 0 ENSG00000235608|ENST00000422806|NKX1-1 ENSG00000235608|ENST00000422806|NKX1-1 ENSG00000235608|ENST00000422806|NKX1-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.23492431640625 2 496.269616 990.524678 NaN NaN NaN NaN NaN NaN NaN 74.91 1 75.574 75.074 76.074 0.6635 0 0 0 0.90387 1 36232 36232 15.847 0 1 950 6202 775 775 939 939 0.029037055032858916 APAPAATAAPR 11 Unmodified _APAPAATAAPR_ 0 0 0 REV__ENST00000261402.6_1_12:106533091-106533277:-|nuORF REV__ENST00000261402.6_1_12:106533091-106533277:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 497.3280944824219 2 497.277441 992.540328 NaN NaN NaN NaN NaN NaN NaN 64.447 1 64.447 63.947 64.947 0 0 0 0 0.90387 1 30534 30534 15.847 1.9411 1 + 951 14964 776 776 940 940 0.043759920203115144 APAPADGPQPP 11 Unmodified _APAPADGPQPP_ 0 0 0 ENSG00000005206|ENST00000613503|SPPL2B ENSG00000005206|ENST00000613503|SPPL2B ENSG00000005206|ENST00000613503|SPPL2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.22479248046875 2 509.253631 1016.49271 NaN NaN NaN NaN NaN NaN NaN 73.722 1 73.722 73.222 74.222 0 0 0 0 0.95662 1 35966 35966 10.824 0 1 952 323 777 777 941 941 -0.014877069705221402 APAPAGMYRSG 11 Unmodified _APAPAGMYRSG_ 0 0 0 nc|ENSG00000121274|Q8NDF8-5|TENT4B;ENSG00000121274|ENST00000561678|TENT4B nc|ENSG00000121274|Q8NDF8-5|TENT4B nc|ENSG00000121274|Q8NDF8-5|TENT4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.0835571289062 2 539.260933 1076.50731 NaN NaN NaN NaN NaN NaN NaN 63.976 1 63.976 63.476 64.476 0 0 0 0 0.95662 1 30197 30197 10.824 0.75 1 953 2225 778 778 942 942 -0.027879580940407322 APAPAGNDEEE 11 Unmodified _APAPAGNDEEE_ 0 0 0 ENST00000369124.4_1_1:150122230-150123238:+|nuORF ENST00000369124.4_1_1:150122230-150123238:+|nuORF ENST00000369124.4_1_1:150122230-150123238:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.2564086914062 2 550.23055 1098.44655 NaN NaN NaN NaN NaN NaN NaN 69.223 1 69.925 69.425 70.425 0.70218 0 0 0 0.95662 1 33111 33111 10.824 5.5933 1 954 7289 779 779 943 943 -0.09873816663275647 APAPAGRQAGG 11 Unmodified _APAPAGRQAGG_ 0 0 0 ENST00000311234.8_1_13:52025275-52027034:-|nuORF ENST00000311234.8_1_13:52025275-52027034:-|nuORF ENST00000311234.8_1_13:52025275-52027034:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 476.7531433105469 2 476.75159 951.488627 NaN NaN NaN NaN NaN NaN NaN 65.617 1 65.617 65.117 66.117 0 0 0 0 0.99968 1 31272 31272 6.7232 0.36906 1 955 6869 780 780 944 944 0.010942483264216207 APAPAKAKAK 10 Unmodified _APAPAKAKAK_ 0 0 0 REV__ENSG00000133477|ENST00000333407|FAM83F REV__ENSG00000133477|ENST00000333407|FAM83F MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 476.9224548339844 2 476.800552 951.58655 NaN NaN NaN NaN NaN NaN NaN 61.502 1 62.242 61.742 62.742 0.7396 0 0 0 0.95544 1 28528 28528 12.532 2.4576 1 + 956 11936 781 781 945 945 0.10882056922412175 APAPALFFFA 10 Unmodified _APAPALFFFA_ 0 0 0 REV__ENST00000476163.5_1_1:6947993-6948239:+|nuORF REV__ENST00000476163.5_1_1:6947993-6948239:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.2281494140625 2 526.284203 1050.55385 NaN NaN NaN NaN NaN NaN NaN 73.493 1 73.493 72.993 73.993 0 0 0 0 0.98473 1 35840 35840 7.9102 0 1 + 957 16650 782 782 946 946 0.030598497995470098 APAPALLLCR 10 Unmodified _APAPALLLCR_ 0 0 0 REV__ENSG00000165312|ENST00000376495|OTUD1 REV__ENSG00000165312|ENST00000376495|OTUD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.8132934570312 2 512.802237 1023.58992 NaN NaN NaN NaN NaN NaN NaN 61.494 1 61.494 60.994 61.994 0 0 0 0 0.95544 1 28685 28685 12.532 1.7076 1 + 958 13152 783 783 947 947 0.07906983704776849 APAPALQRR 9 Unmodified _APAPALQRR_ 0 0 0 ENST00000548852.5_1_12:96397735-96429337:-|nuORF ENST00000548852.5_1_12:96397735-96429337:-|nuORF ENST00000548852.5_1_12:96397735-96429337:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.27783203125 2 490.293425 978.572297 NaN NaN NaN NaN NaN NaN NaN 60.953 1 60.953 60.453 61.453 0 0 0 0 0.63602 1 28394 28394 14.582 2.9414 1 959 8856 784 784 948 948 0.08215404494126233 APAPALSLKL 10 Unmodified _APAPALSLKL_ 0 0 0 REV__ENST00000307271.3_1_7:150147778-150147952:+|nuORF REV__ENST00000307271.3_1_7:150147778-150147952:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.8100891113281 2 490.810585 979.606617 NaN NaN NaN NaN NaN NaN NaN 76.862 1 76.862 76.362 77.362 0 0 0 0 0.99687 1 37677 37677 4.3292 0 1 + 960 15237 785 785 949 949 0.11599807862364742 APAPALSLKLL 11 Unmodified _APAPALSLKLL_ 0 0 0 REV__ENST00000307271.3_1_7:150147778-150147952:+|nuORF REV__ENST00000307271.3_1_7:150147778-150147952:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.9933471679688 2 547.352617 1092.69068 NaN NaN NaN NaN NaN NaN NaN 71.212 1 71.212 70.712 71.712 0 0 0 0 0.99968 1 34609 34609 6.7232 1.9672 1 + 961 15237 786 786 950 950 0.14804338959265806 APAPAPALMP 10 Unmodified _APAPAPALMP_ 0 0 0 REV__nc|ENSG00000134571|Q14896-2|MYBPC3 REV__nc|ENSG00000134571|Q14896-2|MYBPC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.77276611328125 2 468.254588 934.494624 NaN NaN NaN NaN NaN NaN NaN 63.526 1 63.526 63.026 64.026 0 0 0 0 0.95544 1 29896 29896 12.532 3.1841 1 + 962 11969 787 787 951 951 0.024756305137316303 APAPAPDLSQP 11 Unmodified _APAPAPDLSQP_ 0 0 0 ENST00000360315.7_1_19:19618238-19618463:+|nuORF ENST00000360315.7_1_19:19618238-19618463:+|nuORF ENST00000360315.7_1_19:19618238-19618463:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.030029296875 2 532.274564 1062.53457 NaN NaN NaN NaN NaN NaN NaN 65.82 1 65.82 65.32 66.32 0 0 0 0 0.95662 1 31372 31372 10.824 0 1 963 7210 788 788 952 952 0.0058084871798200766 APAPAPEEEA 10 Unmodified _APAPAPEEEA_ 0 0 0 ENSG00000198455|ENST00000374888|ZXDB ENSG00000198455|ENST00000374888|ZXDB ENSG00000198455|ENST00000374888|ZXDB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.23126220703125 2 491.229822 980.445091 NaN NaN NaN NaN NaN NaN NaN 72.796 1 73.46 72.96 73.96 0.66398 0 0 0 0.95544 1 33421 33421 12.532 4.6214 1 964 5891 789 789 953 953 -0.04591405961377859 APAPAPEEEAE 11 Unmodified _APAPAPEEEAE_ 0 0 0 ENSG00000198455|ENST00000374888|ZXDB ENSG00000198455|ENST00000374888|ZXDB ENSG00000198455|ENST00000374888|ZXDB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.9570922851562 2 555.751118 1109.48768 NaN NaN NaN NaN NaN NaN NaN 63.337 1 63.337 62.837 63.837 0 0 0 0 0.99968 1 29789 29789 6.7232 2.3939 1 965 5891 790 790 954 954 -0.06268055623809232 APAPAPELQQ 10 Unmodified _APAPAPELQQ_ 0 0 0 nc|ENSG00000160271|Q12967-3|RALGDS;nc|ENSG00000160271|Q12967-4|RALGDS;nc|ENSG00000160271|Q12967-6|RALGDS;nc|ENSG00000160271|Q12967-5|RALGDS;ENSG00000160271|ENST00000372050|RALGDS;nc|ENSG00000160271|Q12967-2|RALGDS nc|ENSG00000160271|Q12967-3|RALGDS nc|ENSG00000160271|Q12967-3|RALGDS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.2427673339844 2 511.269281 1020.52401 NaN NaN NaN NaN NaN NaN NaN 65.385 1 65.385 64.885 65.885 0 0 0 0 0.95544 1 31147 31147 12.532 0.89125 1 966 4052 791 791 955 955 0.0145686606357458 APAPAPGPPR 10 Unmodified _APAPAPGPPR_ 0 0 0 REV__nc|ENSG00000162367|P17542-2|TAL1 REV__nc|ENSG00000162367|P17542-2|TAL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.2077941894531 2 465.761426 929.5083 NaN NaN NaN NaN NaN NaN NaN 64.082 1 64.082 63.582 64.582 0 0 0 0 0.95544 1 30279 30279 12.532 0 1 + 967 12927 792 792 956 956 0.04072624337186426 APAPAPPEPRV 11 Unmodified _APAPAPPEPRV_ 0 0 0 REV__nc|ENSG00000260001|H3BV60|TGFBR3L REV__nc|ENSG00000260001|H3BV60|TGFBR3L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.3056640625 2 551.306198 1100.59784 NaN NaN NaN NaN NaN NaN NaN 64.748 1 64.748 64.248 65.248 0 0 0 0 0.95662 1 30738 30738 10.824 0 1 + 968 14687 793 793 957 957 0.051568342258860866 APAPAPRWR 9 Unmodified _APAPAPRWR_ 0 0 0 REV__ENST00000584408.5_1_17:80407084-80408584:-|nuORF REV__ENST00000584408.5_1_17:80407084-80408584:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 511.1694030761719 2 511.288143 1020.56173 NaN NaN NaN NaN NaN NaN NaN 65.584 1 66.293 65.793 66.793 0.70891 0 0 0 0.63602 1 31032 31032 14.582 3.7578 1 + 969 17527 794 794 958 958 0.05227421839697399 APAPAPRWRC 10 Unmodified _APAPAPRWRC_ 0 0 0 REV__ENST00000584408.5_1_17:80407084-80408584:-|nuORF REV__ENST00000584408.5_1_17:80407084-80408584:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.8284301757812 2 562.792735 1123.57092 NaN NaN NaN NaN NaN NaN NaN 61.671 1 61.671 61.171 62.171 0 0 0 0 0.95544 1 28793 28793 12.532 1.7076 1 + 970 17527 795 795 959 959 0.014074471337153227 APAPAPTTDP 10 Unmodified _APAPAPTTDP_ 0 0 0 nc|ENSG00000063245|Q9Y6I3-3|EPN1;ENSG00000063245|ENST00000270460|EPN1;nc|ENSG00000063245|Q9Y6I3-1|EPN1 nc|ENSG00000063245|Q9Y6I3-3|EPN1 nc|ENSG00000063245|Q9Y6I3-3|EPN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 469.2369079589844 2 469.234907 936.455261 NaN NaN NaN NaN NaN NaN NaN 71.866 1 72.124 71.624 72.624 0.25786 0 0 0 0.95544 1 32971 32971 12.532 3.9383 1 971 660 796 796 960 960 -0.015507982361441464 APAPAPVRVP 10 Unmodified _APAPAPVRVP_ 0 0 0 REV__ENSG00000186838|ENST00000335426|SELENOV REV__ENSG00000186838|ENST00000335426|SELENOV MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.7930908203125 2 487.792727 973.5709 NaN NaN NaN NaN NaN NaN NaN 75.287 1 75.952 75.452 76.452 0.6644 0 0 0 0.98866 1 34680 34680 7.2892 2.0586 1 + 972 14072 797 797 961 961 0.08305770405377189 APAPAQRRRTP 11 Unmodified _APAPAQRRRTP_ 0 0 0 REV__ENST00000531072.1_1_11:64808545-64809015:+|nuORF REV__ENST00000531072.1_1_11:64808545-64809015:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 610.8525390625 2 610.85217 1219.68979 NaN NaN NaN NaN NaN NaN NaN 64.044 1 64.044 63.544 64.544 0 0 0 0 0.95662 1 30249 30249 10.824 4.1008 1 + 973 17138 798 798 962 962 0.08872937362934863 APAPARRPDA 10 Unmodified _APAPARRPDA_ 0 0 0 REV__ENSG00000261594|ENST00000562197|TPBGL REV__ENSG00000261594|ENST00000562197|TPBGL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.2401428222656 2 511.280515 1020.54648 NaN NaN NaN NaN NaN NaN NaN 63.762 1 63.762 63.262 64.262 0 0 0 0 0.95544 1 30054 30054 12.532 0 1 + 974 14693 799 799 963 963 0.0370251025184416 APAPASATEI 10 Unmodified _APAPASATEI_ 0 0 0 nc|ENSG00000135916|Q9NQX7-2|ITM2C;nc|ENSG00000135916|Q9NQX7-3|ITM2C;ENSG00000135916|ENST00000326427|ITM2C nc|ENSG00000135916|Q9NQX7-2|ITM2C nc|ENSG00000135916|Q9NQX7-2|ITM2C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.30609130859375 2 464.242732 926.470912 NaN NaN NaN NaN NaN NaN NaN 60.692 1 60.692 60.192 61.192 0 0 0 0 0.95544 1 28238 28238 12.532 3.1841 1 975 2909 800 800 964 964 0.004734882808861585 APAPASHGPSE 11 Unmodified _APAPASHGPSE_ 0 0 0 NINL|p.N1098Tfs*27|1|0.27|ENSG00000101004|chr20:25470051-25470051|T/-|frameshift_variant;ENSG00000101004|ENST00000278886|NINL NINL|p.N1098Tfs*27|1|0.27|ENSG00000101004|chr20:25470051-25470051|T/-|frameshift_variant NINL|p.N1098Tfs*27|1|0.27|ENSG00000101004|chr20:25470051-25470051|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.7998962402344 2 510.740888 1019.46722 NaN NaN NaN NaN NaN NaN NaN 63.608 1 63.608 63.108 64.108 0 0 0 0 0.95662 1 29947 29947 10.824 1.4765 1 976 1259 801 801 965 965 -0.041731814929448774 APAPATTSSWE 11 Unmodified _APAPATTSSWE_ 0 0 0 ENSG00000100249|ENST00000216071|C22orf31 ENSG00000100249|ENST00000216071|C22orf31 ENSG00000100249|ENST00000216071|C22orf31 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.292724609375 2 559.261653 1116.50875 NaN NaN NaN NaN NaN NaN NaN 62.002 1 62.733 62.233 63.233 0.73077 0 0 0 0.95662 1 28837 28837 10.824 2.9138 1 977 1196 802 802 966 966 -0.044840455242592725 APAPATVEQES 11 Unmodified _APAPATVEQES_ 0 0 0 REV__nc|ENSG00000107902|Q9H008-2|LHPP REV__nc|ENSG00000107902|Q9H008-2|LHPP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.6870727539062 2 550.266936 1098.51932 NaN NaN NaN NaN NaN NaN NaN 70.087 1 70.79 70.29 71.29 0.70302 0 0 0 0.95662 1 33569 33569 10.824 2.9138 1 + 978 11128 803 803 967 967 -0.02600062869851172 APAPATVEQES 11 Unmodified _APAPATVEQES_ 0 0 0 REV__nc|ENSG00000107902|Q9H008-2|LHPP REV__nc|ENSG00000107902|Q9H008-2|LHPP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.2661743164062 2 550.266936 1098.51932 NaN NaN NaN NaN NaN NaN NaN 76.501 1 76.757 76.257 77.257 0.25533 0 0 0 0.95662 1 35222 35222 10.824 3.5347 1 + 979 11128 803 803 968 968 -0.02600062869851172 APAPAWLLP 9 Unmodified _APAPAWLLP_ 0 0 0 REV__ENST00000541252.1_1_11:63975337-63978563:+|nuORF REV__ENST00000541252.1_1_11:63975337-63978563:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 468.07958984375 2 468.271096 934.527639 NaN NaN NaN NaN NaN NaN NaN 61.641 1 61.641 61.141 62.141 0 0 0 0 0.63602 1 28774 28774 14.582 2.0501 1 + 980 17218 804 804 969 969 0.057755806280852084 APAPAWLLP 9 Unmodified _APAPAWLLP_ 0 0 0 REV__ENST00000541252.1_1_11:63975337-63978563:+|nuORF REV__ENST00000541252.1_1_11:63975337-63978563:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 468.5207214355469 2 468.271096 934.527639 NaN NaN NaN NaN NaN NaN NaN 67.554 1 68.256 67.756 68.756 0.70218 0 0 0 0.44891 1 32136 32136 20.871 6.2895 1 + 981 17218 804 804 970 970 0.057755806280852084 APAPAWLLPTR 11 Unmodified _APAPAWLLPTR_ 0 0 0 REV__ENST00000541252.1_1_11:63975337-63978563:+|nuORF REV__ENST00000541252.1_1_11:63975337-63978563:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 597.195556640625 2 596.84549 1191.67643 NaN NaN NaN NaN NaN NaN NaN 65.08 1 65.789 65.289 66.289 0.70891 0 0 0 0.99968 1 30719 30719 6.7232 2.7788 1 + 982 17218 805 805 971 971 0.0882568653096314 APAPAWPSPP 10 Unmodified _APAPAWPSPP_ 0 0 0 REV__ENSG00000005206|ENST00000613503|SPPL2B REV__ENSG00000005206|ENST00000613503|SPPL2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.1228942871094 2 495.75581 989.497067 NaN NaN NaN NaN NaN NaN NaN 62.865 1 62.865 62.365 63.365 0 0 0 0 0.95544 1 29501 29501 12.532 2.3482 1 + 983 10177 806 806 972 972 0.0018980224303959403 APAPAWSPTW 10 Unmodified _APAPAWSPTW_ 0 0 0 ENST00000261636.12_1_12:101796714-101801562:-|nuORF ENST00000261636.12_1_12:101796714-101801562:-|nuORF ENST00000261636.12_1_12:101796714-101801562:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.15673828125 2 542.266542 1082.51853 NaN NaN NaN NaN NaN NaN NaN 60.27 1 61.019 60.519 61.519 0.74927 0 0 0 0.95544 1 27775 27775 12.532 1.7076 1 984 6563 807 807 973 973 -0.019428127282481 APAPCEETQL 10 Unmodified _APAPCEETQL_ 0 0 0 ENSG00000174498|ENST00000327987|IGDCC3 ENSG00000174498|ENST00000327987|IGDCC3 ENSG00000174498|ENST00000327987|IGDCC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.9324340820312 2 529.744782 1057.47501 NaN NaN NaN NaN NaN NaN NaN 79.489 1 79.74 79.24 80.24 0.25127 0 0 0 0.99225 1 36603 36603 6.7232 1.4925 1 985 4981 808 808 974 974 -0.05142790287686694 APAPDDWPD 9 Unmodified _APAPDDWPD_ 0 0 0 REV__ENST00000591949.1_1_19:36236739-36236835:+|nuORF REV__ENST00000591949.1_1_19:36236739-36236835:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.77410888671875 2 492.208889 982.403226 NaN NaN NaN NaN NaN NaN NaN 72.987 1 73.246 72.746 73.746 0.25876 0 0 0 0.7971 1 33514 33514 9.3474 1.4373 1 + 986 17589 809 809 975 975 -0.08867961649912104 APAPDESPER 10 Unmodified _APAPDESPER_ 0 0 0 REV__ENST00000262186.9_1_7:150671930-150675339:-|nuORF REV__ENST00000262186.9_1_7:150671930-150675339:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 534.6795654296875 2 534.751453 1067.48835 NaN NaN NaN NaN NaN NaN NaN 72.512 1 73.176 72.676 73.676 0.66398 0 0 0 0.98473 1 33264 33264 7.9102 1.187 1 + 987 14978 810 810 976 976 -0.042692161840932386 APAPDKVQIFT 11 Unmodified _APAPDKVQIFT_ 0 0 0 ENST00000420509.1_1_2:206951001-206951199:+|nuORF ENST00000420509.1_1_2:206951001-206951199:+|nuORF ENST00000420509.1_1_2:206951001-206951199:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 593.8276977539062 2 593.826963 1185.63937 NaN NaN NaN NaN NaN NaN NaN 68.53 1 69.232 68.732 69.732 0.70218 0 0 0 1.0041 1 32676 32676 6.7232 1.4263 1 988 7752 811 811 977 977 0.05397970194553636 APAPDSVEQ 9 Unmodified _APAPDSVEQ_ 0 0 0 ENST00000473039.5_1_9:126143713-126520026:-|nuORF;nc|ENSG00000119522|Q8TEH3|DENND1A;nc|ENSG00000119522|Q8TEH3-7|DENND1A;nc|ENSG00000119522|Q8TEH3-6|DENND1A;ENSG00000119522|ENST00000394215|DENND1A ENST00000473039.5_1_9:126143713-126520026:-|nuORF ENST00000473039.5_1_9:126143713-126520026:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 457.2562561035156 2 457.216714 912.418876 NaN NaN NaN NaN NaN NaN NaN 60.599 1 61.339 60.839 61.839 0.7396 0 0 0 0.7971 1 27989 27989 9.3474 1.4373 1 989 2146 812 812 978 978 -0.0408367513284702 APAPEAYGY 9 Unmodified _APAPEAYGY_ 0 0 0 nc|ENSG00000115762|Q96CS7-3|PLEKHB2 nc|ENSG00000115762|Q96CS7-3|PLEKHB2 nc|ENSG00000115762|Q96CS7-3|PLEKHB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 469.71875 2 469.71635 937.418148 NaN NaN NaN NaN NaN NaN NaN 73.149 1 73.813 73.313 74.313 0.66398 0 0 0 0.7971 1 33602 33602 9.3474 0 1 990 9608 813 813 979 979 -0.05306469781908163 APAPEEEM 8 Unmodified _APAPEEEM_ 0 0 0 ENSG00000254772|ENST00000329251|EEF1G;nc|ENSG00000254772|P26641-2|EEF1G;ENST00000526409.5_1_11:62327153-62342310:-|nuORF ENSG00000254772|ENST00000329251|EEF1G ENSG00000254772|ENST00000329251|EEF1G MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.18731689453125 2 437.186568 872.358584 NaN NaN NaN NaN NaN NaN NaN 65.222 1 65.222 64.722 65.722 0 0 0 0 0.91812 1 31033 31033 11.114 4.7604 1 991 6279 814 814 980 980 -0.0827010878758756 APAPEVRRPA 10 Unmodified _APAPEVRRPA_ 0 0 0 REV__ENSG00000170684|ENST00000303809|ZNF296 REV__ENSG00000170684|ENST00000303809|ZNF296 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 532.0401000976562 2 532.30399 1062.59343 NaN NaN NaN NaN NaN NaN NaN 69.969 1 70.672 70.172 71.172 0.70302 0 0 0 0.96109 1 33506 33506 11.64 4.3511 1 + 992 13446 815 815 981 981 0.064633698030093 APAPEWFTFN 10 Unmodified _APAPEWFTFN_ 0 0 0 ENST00000488477.2_1_2:223916946-223925378:+|nuORF ENST00000488477.2_1_2:223916946-223925378:+|nuORF ENST00000488477.2_1_2:223916946-223925378:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.244140625 2 590.277106 1178.53966 3.4132 0.0020147 -1.8323 -0.0010815 1.5809 0.00093319 590.7774853900335 44.04 0.14759 44.04 43.993 44.14 0 18 14 2 0 0 0 0.81125 1 20084 20084 7.9102 1.187 1 4161300 993 8366 816 816 982 982 -0.042468474193810835 APAPEYEGV 9 Unmodified _APAPEYEGV_ 0 0 0 nc|ENSG00000134438|Q9Y2V3-2|RAX nc|ENSG00000134438|Q9Y2V3-2|RAX nc|ENSG00000134438|Q9Y2V3-2|RAX MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.722900390625 2 466.721633 931.428712 NaN NaN NaN NaN NaN NaN NaN 72.599 1 72.858 72.358 73.358 0.25876 0 0 0 0.69911 1 33329 33329 12.532 4.6214 1 994 9651 817 817 983 983 -0.039744871274706384 APAPFHRRWR 10 Unmodified _APAPFHRRWR_ 0 0 0 REV__ENST00000315872.10_1_2:11484324-11484654:-|nuORF REV__ENST00000315872.10_1_2:11484324-11484654:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 647.3598022460938 2 647.357422 1292.70029 NaN NaN NaN NaN NaN NaN NaN 74.753 1 75.011 74.511 75.511 0.25831 0 0 0 0.98473 1 34391 34391 7.9102 4.3137 1 + 995 15290 818 818 984 984 0.06564964808012519 APAPFLGIVD 10 Unmodified _APAPFLGIVD_ 0 0 0 nc|ENSG00000005238|Q7L5A3-3|ATOSB;nc|ENSG00000005238|Q7L5A3-2|ATOSB;ENSG00000005238|ENST00000322813|ATOSB nc|ENSG00000005238|Q7L5A3-3|ATOSB nc|ENSG00000005238|Q7L5A3-3|ATOSB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.2782287597656 2 500.279118 998.543683 NaN NaN NaN NaN NaN NaN NaN 60.615 1 61.354 60.854 61.854 0.7396 0 0 0 0.95544 1 28001 28001 12.532 2.4576 1 996 324 819 819 985 985 0.04435242074328016 APAPGFRAQR 10 Unmodified _APAPGFRAQR_ 0 0 0 ENST00000298049.11_1_20:62119378-62119654:-|nuORF ENST00000298049.11_1_20:62119378-62119654:-|nuORF ENST00000298049.11_1_20:62119378-62119654:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.7944946289062 2 535.796332 1069.57811 NaN NaN NaN NaN NaN NaN NaN 74.068 1 74.732 74.232 75.232 0.6644 0 0 0 0.98473 1 34085 34085 7.9102 1.187 1 997 6777 820 820 986 986 0.04610503005801547 APAPGLEGPLY 11 Unmodified _APAPGLEGPLY_ 0 0 0 ENST00000575277.1_1_16:67976333-67976859:-|nuORF ENST00000575277.1_1_16:67976333-67976859:-|nuORF ENST00000575277.1_1_16:67976333-67976859:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.9376831054688 2 542.787307 1083.56006 NaN NaN NaN NaN NaN NaN NaN 65.129 1 65.129 64.629 65.629 0 0 0 0 0.95662 1 30969 30969 10.824 0 1 998 9118 821 821 987 987 0.021623232404408554 APAPGPAAPAR 11 Unmodified _APAPGPAAPAR_ 0 0 0 REV__ENST00000259351.9_1_9:129677090-129724543:+|nuORF REV__ENST00000259351.9_1_9:129677090-129724543:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.8272399902344 2 488.272158 974.529764 NaN NaN NaN NaN NaN NaN NaN 71.422 1 71.422 70.922 71.922 0 0 0 0 1.0034 1 34717 34717 6.2058 0.97511 1 + 999 14953 822 822 988 988 0.041480093658947226 APAPGRAAIVL 11 Unmodified _APAPGRAAIVL_ 0 0 0 REV__DHH|p.F274I|1|0.3|ENSG00000139549|chr12:49090230-49090230|A/T|missense_variant REV__DHH|p.F274I|1|0.3|ENSG00000139549|chr12:49090230-49090230|A/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.3187255859375 2 518.319109 1034.62366 NaN NaN NaN NaN NaN NaN NaN 72.197 1 72.197 71.697 72.697 0 0 0 0 0.9645 1 35109 35109 10.074 2.1638 1 + 1000 10127 823 823 989 989 0.10773728468166155 APAPGRLQERP 11 Unmodified _APAPGRLQERP_ 0 0 0 ENST00000377022.7_1_1:10720554-10725214:-|nuORF ENST00000377022.7_1_1:10720554-10725214:-|nuORF ENST00000377022.7_1_1:10720554-10725214:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.254638671875 2 596.333279 1190.652 NaN NaN NaN NaN NaN NaN NaN 66.12 1 66.12 65.62 66.62 0 0 0 0 0.9645 1 31565 31565 10.074 0.6908 1 1001 7407 824 824 990 990 0.06430426377460208 APAPHPRRRLP 11 Unmodified _APAPHPRRRLP_ 0 0 0 REV__nc|ENSG00000204428|Q5SRR4-3|LY6G5C REV__nc|ENSG00000204428|Q5SRR4-3|LY6G5C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 634.3761596679688 2 634.378355 1266.74216 NaN NaN NaN NaN NaN NaN NaN 73.621 1 73.88 73.38 74.38 0.25876 0 0 0 0.99968 1 33819 33819 6.7232 3.1267 1 + 1002 18108 825 825 991 991 0.11945520496556128 APAPHRQDSNC 11 Unmodified _APAPHRQDSNC_ 0 0 0 ENST00000341170.4_1_9:100373886-100380087:-|nuORF ENST00000341170.4_1_9:100373886-100380087:-|nuORF ENST00000341170.4_1_9:100373886-100380087:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 598.2692260742188 2 598.267278 1194.52 NaN NaN NaN NaN NaN NaN NaN 63.942 1 63.942 63.442 64.442 0 0 0 0 0.99968 1 30172 30172 6.7232 2.3939 1 1003 7071 826 826 992 992 -0.06947546701780993 APAPHYLNFTF 11 Unmodified _APAPHYLNFTF_ 0 0 0 REV__ENST00000401992.1_1_19:43687564-43690557:-|nuORF REV__ENST00000401992.1_1_19:43687564-43690557:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 639.319580078125 2 639.319306 1276.62406 NaN NaN NaN NaN NaN NaN NaN 74.352 1 75.039 74.539 75.539 0.68662 0 0 0 0.99968 1 35935 35935 6.7232 0 1 + 1004 16049 827 827 993 993 -0.0031889660265278508 APAPISKIPNK 11 Unmodified _APAPISKIPNK_ 0 0 0 REV__ENSG00000250423|ENST00000691062|KIAA1210 REV__ENSG00000250423|ENST00000691062|KIAA1210 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.4725341796875 2 568.345323 1134.67609 NaN NaN NaN NaN NaN NaN NaN 75.107 1 75.772 75.272 76.272 0.6644 0 0 0 0.99968 1 34594 34594 6.7232 1.4263 1 + 1005 14653 828 828 994 994 0.11414266811129892 APAPIVVPYV 10 Unmodified _APAPIVVPYV_ 0 0 0 REV__ENST00000541264.2_2_14:59108324-59108435:+|nuORF REV__ENST00000541264.2_2_14:59108324-59108435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.2892456054688 2 513.305136 1024.59572 NaN NaN NaN NaN NaN NaN NaN 94.396 1 94.482 93.982 94.982 0.086212 0 0 0 0.98473 1 49652 49652 7.9102 1.7044 1 + 1006 17219 829 829 995 995 0.08440405488067881 APAPKKKRHKT 11 Unmodified _APAPKKKRHKT_ 0 0 0 REV__L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|24|1|sense REV__L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|24|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 631.3507080078125 2 631.396213 1260.77787 NaN NaN NaN NaN NaN NaN NaN 78.049 1 78.61 78.11 79.11 0.56091 0 0 0 1.0079 1 37905 37905 1.4819 1.0236 1 + 1007 17796 830 830 996 996 0.15791557953548363 APAPKRLSVP 10 Unmodified _APAPKRLSVP_ 0 0 0 ENST00000440005.6_2_22:18958062-18978324:+|nuORF;ENST00000438934.5_2_22:18958062-18975611:+|nuORF ENST00000440005.6_2_22:18958062-18978324:+|nuORF ENST00000440005.6_2_22:18958062-18978324:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.315673828125 2 518.319109 1034.62366 NaN NaN NaN NaN NaN NaN NaN 71.621 1 72.325 71.825 72.825 0.70386 0 0 0 0.96109 1 34410 34410 11.64 0.81637 1 1008 7928 831 831 997 997 0.1077372846821163 APAPLEKPIVL 11 Unmodified _APAPLEKPIVL_ 0 0 0 ENST00000595700.5_1_19:44242246-44254893:-|nuORF;nc|ENSG00000105771|Q9H0W8-2|SMG9;ENSG00000105771|ENST00000270066|SMG9 ENST00000595700.5_1_19:44242246-44254893:-|nuORF ENST00000595700.5_1_19:44242246-44254893:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 573.9880981445312 2 574.357899 1146.70125 NaN NaN NaN NaN NaN NaN NaN 75.459 1 75.716 75.216 76.216 0.25704 0 0 0 1.0055 1 34723 34723 3.5965 1.2938 1 1009 1529 832 832 998 998 0.1337632161369129 APAPLFHR 8 Unmodified _APAPLFHR_ 0 0 0 REV__ENST00000521308.5_1_5:150562669-150562879:-|nuORF REV__ENST00000521308.5_1_5:150562669-150562879:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.71844482421875 2 454.758687 907.502821 NaN NaN NaN NaN NaN NaN NaN 61.047 1 61.787 61.287 62.287 0.7396 0 0 0 0.91812 1 28258 28258 11.114 1.767 1 + 1010 17049 833 833 999 999 0.04536945545362414 APAPLLHALTA 11 Unmodified _APAPLLHALTA_ 0 0 0 REV__ENSG00000134595|ENST00000370536|SOX3 REV__ENSG00000134595|ENST00000370536|SOX3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.5938720703125 2 537.818941 1073.62333 NaN NaN NaN NaN NaN NaN NaN 60.561 1 61.3 60.8 61.8 0.7396 0 0 0 0.90387 1 27962 27962 15.847 2.8047 1 + 1011 11972 834 834 1000 1000 0.08946308748318188 APAPLRAGQV 10 Unmodified _APAPLRAGQV_ 0 0 0 ENST00000492370.5_1_3:49724193-49724592:-|nuORF ENST00000492370.5_1_3:49724193-49724592:-|nuORF ENST00000492370.5_1_3:49724193-49724592:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.2864074707031 2 490.287808 978.561064 NaN NaN NaN NaN NaN NaN NaN 72.148 1 72.851 72.351 73.351 0.70386 0 0 0 0.98866 1 34697 34697 7.2892 0.56607 1 1012 8404 835 835 1001 1001 0.07092582399991443 APAPLRLPR 9 Unmodified _APAPLRLPR_ 0 0 0 REV__ENST00000476834.6_1_10:135192804-135197470:+|nuORF REV__ENST00000476834.6_1_10:135192804-135197470:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.8265380859375 2 495.813993 989.613434 NaN NaN NaN NaN NaN NaN NaN 63.618 1 63.618 63.118 64.118 0 0 0 0 0.66907 1 29957 29957 13.508 0 1 + 1013 16658 836 836 1002 1002 0.11821165533604017 APAPMKHR 8 Unmodified _APAPMKHR_ 0 0 0 REV__nc|ENSG00000163701|Q8NFR9-5|IL17RE REV__nc|ENSG00000163701|Q8NFR9-5|IL17RE MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.3193054199219 2 454.250172 906.48579 NaN NaN NaN NaN NaN NaN NaN 62.606 1 63.337 62.837 63.837 0.73077 0 0 0 0.91812 1 29219 29219 11.114 0 1 + 1014 13017 837 837 1003 1003 0.02880701667925223 APAPNCCHV 9 Unmodified _APAPNCCHV_ 0 0 0 REV__chr6:33300007-33303955|161|14.42|0.69|4.39|-|2|TE_info:L2b,L2b_dup35114,L2,LINE,acceptor,-,33299810,33300007|None,TAPBP|2 REV__chr6:33300007-33303955|161|14.42|0.69|4.39|-|2|TE_info:L2b,L2b_dup35114,L2,LINE,acceptor,-,33299810,33300007|None,TAPBP|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.19647216796875 2 456.196748 910.378942 NaN NaN NaN NaN NaN NaN NaN 64.616 1 64.616 64.116 65.116 0 0 0 0 0.7971 1 30651 30651 9.3474 2.9933 1 + 1015 10053 838 838 1004 1004 -0.07983216608772636 APAPPANGEGE 11 Unmodified _APAPPANGEGE_ 0 0 0 REV__ENST00000469543.5_1_10:17272008-17272239:+|nuORF REV__ENST00000469543.5_1_10:17272008-17272239:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.2702941894531 2 505.232896 1008.45124 NaN NaN NaN NaN NaN NaN NaN 63.318 1 63.318 62.818 63.818 0 0 0 0 0.99968 1 29778 29778 6.7232 1.4925 1 + 1016 16580 839 839 1005 1005 -0.052648877298452135 APAPPEPDN 9 Unmodified _APAPPEPDN_ 0 0 0 REV__ENSG00000188112|ENST00000341865|C6orf132 REV__ENSG00000188112|ENST00000341865|C6orf132 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.2169494628906 2 454.211432 906.408311 NaN NaN NaN NaN NaN NaN NaN 61.371 1 61.371 60.871 61.871 0 0 0 0 0.7971 1 28617 28617 9.3474 0 1 + 1017 14133 840 840 1006 1006 -0.04863657787291231 APAPPEPDN 9 Unmodified _APAPPEPDN_ 0 0 0 REV__ENSG00000188112|ENST00000341865|C6orf132 REV__ENSG00000188112|ENST00000341865|C6orf132 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.11676025390625 2 454.211432 906.408311 NaN NaN NaN NaN NaN NaN NaN 61.394 1 61.394 60.894 61.894 0 0 0 0 0.7971 1 28630 28630 9.3474 0 1 + 1018 14133 840 840 1007 1007 -0.04863657787291231 APAPPEWF 8 Unmodified _APAPPEWF_ 0 0 0 REV__ENST00000330688.8_1_3:25469962-25470082:+|nuORF REV__ENST00000330688.8_1_3:25469962-25470082:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 457.6732482910156 2 457.723978 913.433404 NaN NaN NaN NaN NaN NaN NaN 63.282 1 64.004 63.504 64.504 0.72236 0 0 0 0.91812 1 29628 29628 11.114 1.767 1 + 1019 15374 841 841 1008 1008 -0.026775581940455595 APAPPSEDEFA 11 Unmodified _APAPPSEDEFA_ 0 0 0 REV__ENSG00000105464|ENST00000263269|GRIN2D REV__ENSG00000105464|ENST00000263269|GRIN2D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 565.5985717773438 2 565.753661 1129.49277 NaN NaN NaN NaN NaN NaN NaN 71.576 1 71.834 71.334 72.334 0.25786 0 0 0 0.99968 1 32797 32797 6.7232 0 1 + 1020 11035 842 842 1009 1009 -0.06679751761180341 APAPPTLSTKL 11 Unmodified _APAPPTLSTKL_ 0 0 0 REV__ENST00000457633.1_1_2:179315316-179315532:-|nuORF REV__ENST00000457633.1_1_2:179315316-179315532:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.3294067382812 2 548.324057 1094.63356 2.6419 0.0014486 3.3118 0.001816 5.9537 0.0032646 548.3276107980124 77.141 0.31241 77.701 77.432 77.744 0.5609 41 23 2 0 0 0 0.71024 1 37364 37364 10.824 1.4408 1 936300 + 1021 16463 843 843 1010 1010 0.09002871682878322 APAPQDRH 8 Unmodified _APAPQDRH_ 0 0 0 ENSG00000204396|ENST00000375688|VWA7 ENSG00000204396|ENST00000375688|VWA7 ENSG00000204396|ENST00000375688|VWA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 446.2255859375 2 446.225208 890.435863 NaN NaN NaN NaN NaN NaN NaN 60.313 1 61.062 60.562 61.562 0.74927 0 0 0 0.91812 1 27804 27804 11.114 0 1 1022 6007 844 844 1011 1011 -0.01373709736390083 APAPQPHKWIA 11 Unmodified _APAPQPHKWIA_ 0 0 0 REV__nc|ENSG00000107593|Q9P0L9-4|PKD2L1 REV__nc|ENSG00000107593|Q9P0L9-4|PKD2L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 608.33544921875 2 608.33529 1214.65603 NaN NaN NaN NaN NaN NaN NaN 69.517 1 69.517 69.017 70.017 0 0 0 0 0.99968 1 33572 33572 6.7232 0 1 + 1023 11117 845 845 1012 1012 0.0572851587119203 APAPQPSPCD 10 Unmodified _APAPQPSPCD_ 0 0 0 REV__nc|ENSG00000155846|Q86YN6-6|PPARGC1B REV__nc|ENSG00000155846|Q86YN6-6|PPARGC1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.5662536621094 2 491.718567 981.422581 NaN NaN NaN NaN NaN NaN NaN 64.362 1 65.077 64.577 65.577 0.71521 0 0 0 0.98473 1 30320 30320 7.9102 0 1 + 1024 12750 846 846 1013 1013 -0.06887328630648426 APAPQQCSE 9 Unmodified _APAPQQCSE_ 0 0 0 ENSG00000196642|ENST00000311502|RABL6;nc|ENSG00000196642|Q3YEC7-2|RABL6 ENSG00000196642|ENST00000311502|RABL6 ENSG00000196642|ENST00000311502|RABL6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.28582763671875 2 465.702917 929.391281 NaN NaN NaN NaN NaN NaN NaN 77.928 1 78.489 77.989 78.989 0.56091 0 0 0 0.7971 1 37841 37841 9.3474 1.4373 1 1025 5764 847 847 1014 1014 -0.07623901664737787 APAPQWRPRV 10 Unmodified _APAPQWRPRV_ 0 0 0 REV__ENST00000592554.1_1_17:66596980-66597232:-|nuORF REV__ENST00000592554.1_1_17:66596980-66597232:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.336181640625 2 589.333082 1176.65161 NaN NaN NaN NaN NaN NaN NaN 74.761 1 75.019 74.519 75.519 0.25831 0 0 0 0.99687 1 34395 34395 4.3292 0 1 + 1026 17594 848 848 1015 1015 0.07035051448269769 APAPRAFRVQK 11 Unmodified _APAPRAFRVQK_ 0 0 0 ENST00000367569.3_1_6:144416194-144416299:-|nuORF ENST00000367569.3_1_6:144416194-144416299:-|nuORF ENST00000367569.3_1_6:144416194-144416299:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.802001953125 2 620.867289 1239.72002 NaN NaN NaN NaN NaN NaN NaN 62.062 1 62.792 62.292 63.292 0.73077 0 0 0 0.99968 1 28873 28873 6.7232 0.99131 1 1027 7265 849 849 1016 1016 0.10975296028118464 APAPRFPLPPP 11 Unmodified _APAPRFPLPPP_ 0 0 0 ENSG00000179431|ENST00000317811|FJX1 ENSG00000179431|ENST00000317811|FJX1 ENSG00000179431|ENST00000317811|FJX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 580.2781982421875 2 580.334759 1158.65496 NaN NaN NaN NaN NaN NaN NaN 93.111 1 93.111 92.611 93.611 0 0 0 0 0.97175 1 49647 49647 9.3831 0.63772 1 1028 5217 850 850 1017 1017 0.08198301502284266 APAPRPQHSMQ 11 Unmodified _APAPRPQHSMQ_ 0 0 0 REV__STARD13|p.L592M|1|0.16|ENSG00000133121|chr13:33127521-33127521|G/T|missense_variant REV__STARD13|p.L592M|1|0.16|ENSG00000133121|chr13:33127521-33127521|G/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 610.3099365234375 2 610.303664 1218.59277 NaN NaN NaN NaN NaN NaN NaN 59.592 1 59.592 59.092 60.092 0 0 0 0 1.0057 1 27554 27554 3.2813 0.28607 1 + 1029 18222 851 851 1018 1018 -0.007777929083658819 APAPRPRPRP 10 Unmodified _APAPRPRPRP_ 0 0 0 REV__ENST00000245448.10_1_14:50779208-50779406:+|nuORF REV__ENST00000245448.10_1_14:50779208-50779406:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.8350219726562 2 557.833249 1113.65194 NaN NaN NaN NaN NaN NaN NaN 12.305 1 12.942 12.442 13.442 0.63746 0 0 0 0.94083 1 5489 5489 14.838 3.198 1 + 1030 14891 852 852 1019 1019 0.09966471168149837 APAPRRERRDL 11 Unmodified _APAPRRERRDL_ 0 0 0 ENSG00000103489|ENST00000261381|XYLT1 ENSG00000103489|ENST00000261381|XYLT1 ENSG00000103489|ENST00000261381|XYLT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.7965698242188 2 668.881459 1335.74836 NaN NaN NaN NaN NaN NaN NaN 88.271 1 88.323 87.823 88.823 0.052155 0 0 0 1.0034 1 44912 44912 11.495 5.2889 1 1031 1400 853 853 1020 1020 0.09391993937401821 APAPSEACDD 10 Unmodified _APAPSEACDD_ 0 0 0 REV__ENSG00000138080|ENST00000380320|EMILIN1 REV__ENSG00000138080|ENST00000380320|EMILIN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 488.1919860839844 2 488.189839 974.365126 NaN NaN NaN NaN NaN NaN NaN 74.883 1 74.883 74.383 75.383 0 0 0 0 0.98473 1 36664 36664 7.9102 2.6795 1 + 1032 12146 854 854 1021 1021 -0.12308215626876517 APAPSPLKK 9 Unmodified _APAPSPLKK_ 0 0 0 ENST00000083182.7_1_17:58524976-58525024:-|nuORF ENST00000083182.7_1_17:58524976-58525024:-|nuORF ENST00000083182.7_1_17:58524976-58525024:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.7821350097656 2 454.781828 907.549102 NaN NaN NaN NaN NaN NaN NaN 79.804 1 80.124 79.624 80.624 0.31998 0 0 0 0.7971 1 38993 38993 9.3474 0 1 1033 6381 855 855 1022 1022 0.09162965656810229 APAPTQKASEK 11 Unmodified _APAPTQKASEK_ 0 0 0 REV__nc|ENSG00000148773|P46013-2|MKI67 REV__nc|ENSG00000148773|P46013-2|MKI67 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.4270629882812 2 564.306395 1126.59824 NaN NaN NaN NaN NaN NaN NaN 61.189 1 61.928 61.428 62.428 0.7396 0 0 0 0.99968 1 28340 28340 6.7232 0 1 + 1034 12549 856 856 1023 1023 0.04000209155083212 APAPTVNTH 9 Unmodified _APAPTVNTH_ 0 0 0 nc|ENSG00000196338|Q9NZ94-3|NLGN3;nc|ENSG00000196338|Q9NZ94-2|NLGN3;ENSG00000196338|ENST00000358741|NLGN3 nc|ENSG00000196338|Q9NZ94-3|NLGN3 nc|ENSG00000196338|Q9NZ94-3|NLGN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.1114196777344 2 454.235242 906.45593 NaN NaN NaN NaN NaN NaN NaN 76.393 1 77.017 76.517 77.517 0.62397 0 0 0 0.7971 1 37022 37022 9.3474 0 1 1035 5734 857 857 1024 1024 -0.0010395879644420347 APAPVLPHLV 10 Unmodified _APAPVLPHLV_ 0 0 0 ENST00000431232.6_1_16:422161-424053:-|nuORF ENST00000431232.6_1_16:422161-424053:-|nuORF ENST00000431232.6_1_16:422161-424053:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.1220703125 2 507.310752 1012.60695 NaN NaN NaN NaN NaN NaN NaN 72.554 1 73.258 72.758 73.758 0.70386 0 0 0 0.95544 1 34936 34936 12.532 3.1841 1 1036 7852 858 858 1025 1025 0.10115227582230091 APAPVLPHLV 10 Unmodified _APAPVLPHLV_ 0 0 0 ENST00000431232.6_1_16:422161-424053:-|nuORF ENST00000431232.6_1_16:422161-424053:-|nuORF ENST00000431232.6_1_16:422161-424053:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.3092041015625 2 507.310752 1012.60695 NaN NaN NaN NaN NaN NaN NaN 97.39 1 97.992 97.492 98.492 0.6019 0 0 0 0.95544 1 44779 44779 12.532 3.7861 1 1037 7852 858 858 1026 1026 0.10115227582230091 APAPVPALPL 10 Unmodified _APAPVPALPL_ 0 0 0 nc|ENSG00000198324|Q8N4B1-2|PHETA1;ENSG00000198324|ENST00000683047|PHETA1;nc|ENSG00000198324|Q8N4B1-4|PHETA1 nc|ENSG00000198324|Q8N4B1-2|PHETA1 nc|ENSG00000198324|Q8N4B1-2|PHETA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.4212646484375 2 473.292028 944.569503 NaN NaN NaN NaN NaN NaN NaN 61.466 1 61.466 60.966 61.966 0 0 0 0 0.95544 1 28670 28670 12.532 2.3482 1 1038 5883 859 859 1027 1027 0.09500136316614771 APAPVPHRLPR 11 Unmodified _APAPVPHRLPR_ 0 0 0 ENST00000530167.1_1_11:118965418-118965595:-|nuORF ENST00000530167.1_1_11:118965418-118965595:-|nuORF ENST00000530167.1_1_11:118965418-118965595:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 605.9274291992188 2 605.862006 1209.70946 NaN NaN NaN NaN NaN NaN NaN 73.148 1 73.812 73.312 74.312 0.66398 0 0 0 0.9645 1 33601 33601 10.074 1.3285 1 1039 8709 860 860 1028 1028 0.11299313373683617 APAPVPTQRQ 10 Unmodified _APAPVPTQRQ_ 0 0 0 REV__ENST00000527357.5_1_11:803787-804093:-|nuORF REV__ENST00000527357.5_1_11:803787-804093:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.87841796875 2 532.795998 1063.57744 NaN NaN NaN NaN NaN NaN NaN 55.518 1 55.518 55.018 56.018 0 0 0 0 0.99983 1 25521 25521 1.8442 0.19162 1 + 1040 17104 861 861 1029 1029 0.048196635660815446 APAPVQPPM 9 Unmodified _APAPVQPPM_ 0 0 0 ARID1A|p.F1728Wfs*7|1|0.28|ENSG00000117713|chr1:26779078-26779079|TC/-|frameshift_variant;ARID1A|p.I1788Kfs*15|1|0.12|ENSG00000117713|chr1:26779260-26779261|-/AAAG|frameshift_variant;nc|ENSG00000117713|O14497-3|ARID1A;nc|ENSG00000117713|O14497-2|ARID1A;ENSG00000117713|ENST00000324856|ARID1A ARID1A|p.F1728Wfs*7|1|0.28|ENSG00000117713|chr1:26779078-26779079|TC/-|frameshift_variant ARID1A|p.F1728Wfs*7|1|0.28|ENSG00000117713|chr1:26779078-26779079|TC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 454.2406921386719 2 454.238938 906.463324 3.1649 0.0014376 0.070157 3.1868E-05 3.2351 0.0014695 454.23912357396665 44.464 0.38589 45.114 44.933 45.319 0.64999 25 15 2 0 0 0 0.1555 1 20360 20360 26.341 11.76 1 247910 1041 66 862 862 1030 1030 0.006350574796442743 APAPVVEPLKC 11 Unmodified _APAPVVEPLKC_ 0 0 0 nc|ENSG00000124006|O75147-2|OBSL1;ENST00000465149.1_1_2:220420747-220435459:-|nuORF;nc|ENSG00000124006|O75147-1|OBSL1;nc|ENSG00000124006|O75147-4|OBSL1;ENSG00000124006|ENST00000404537|OBSL1 nc|ENSG00000124006|O75147-2|OBSL1 nc|ENSG00000124006|O75147-2|OBSL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.851806640625 2 562.312635 1122.61072 2.7505 0.0015466 1.2327 0.00069318 3.9832 0.0022398 562.3130683417484 68.17 0.034203 68.872 68.858 68.893 0.70218 5 4 2 0 0 0 0.7272 1 32484 32484 10.074 2.1638 1 1387700 1042 2332 863 863 1031 1031 0.0543152929376447 APAPWESGD 9 Unmodified _APAPWESGD_ 0 0 0 ENST00000414084.1_1_3:178785539-178789305:-|nuORF;ENST00000432729.5_1_3:178785539-178789470:-|nuORF ENST00000414084.1_1_3:178785539-178789305:-|nuORF ENST00000414084.1_1_3:178785539-178789305:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.20361328125 2 465.203607 928.392661 NaN NaN NaN NaN NaN NaN NaN 69.931 1 70.634 70.134 71.134 0.70302 0 0 0 0.7971 1 33487 33487 9.3474 2.9933 1 1043 7695 864 864 1032 1032 -0.07439944304326218 APAPWPRH 8 Unmodified _APAPWPRH_ 0 0 0 ENSG00000011028|ENST00000303375|MRC2 ENSG00000011028|ENST00000303375|MRC2 ENSG00000011028|ENST00000303375|MRC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.5730895996094 2 466.248486 930.48242 NaN NaN NaN NaN NaN NaN NaN 65.621 1 65.621 65.121 66.121 0 0 0 0 0.91812 1 31274 31274 11.114 3.2043 1 1044 406 865 865 1033 1033 0.01439774885557199 APAPWRSII 9 Unmodified _APAPWRSII_ 0 0 0 ENST00000432853.1_1_2:132592224-132593771:-|nuORF ENST00000432853.1_1_2:132592224-132593771:-|nuORF ENST00000432853.1_1_2:132592224-132593771:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.97314453125 2 505.792727 1009.5709 NaN NaN NaN NaN NaN NaN NaN 75.84 1 76.097 75.597 76.597 0.25704 0 0 0 0.7971 1 34910 34910 9.3474 0 1 1045 7864 866 866 1034 1034 0.06649770405374511 APAPYLVIR 9 Unmodified _APAPYLVIR_ 0 0 0 ENST00000398136.6_2_11:102323274-102323652:-|nuORF ENST00000398136.6_2_11:102323274-102323652:-|nuORF ENST00000398136.6_2_11:102323274-102323652:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.30230712890625 2 500.302927 998.591301 NaN NaN NaN NaN NaN NaN NaN 64.289 1 65.004 64.504 65.504 0.71521 0 0 0 0.89288 1 30277 30277 8.5933 2.2392 1 1046 7589 867 867 1035 1035 0.09194941065163675 APAPYPRPTRP 11 Unmodified _APAPYPRPTRP_ 0 0 0 ENST00000378347.2_1_16:89006323-89006479:+|nuORF ENST00000378347.2_1_16:89006323-89006479:+|nuORF ENST00000378347.2_1_16:89006323-89006479:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.8377685546875 2 611.838197 1221.66184 NaN NaN NaN NaN NaN NaN NaN 81.193 1 81.441 80.941 81.941 0.24803 0 0 0 1.0055 1 37383 37383 3.5965 0 1 1047 7433 868 868 1036 1036 0.059876143828205386 APAPYRGQYWA 11 Unmodified _APAPYRGQYWA_ 0 0 0 ENST00000479540.5_1_20:62201547-62202346:-|nuORF ENST00000479540.5_1_20:62201547-62202346:-|nuORF ENST00000479540.5_1_20:62201547-62202346:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.3384399414062 2 640.314554 1278.61456 NaN NaN NaN NaN NaN NaN NaN 82.596 1 82.641 82.141 83.141 0.045006 0 0 0 1.0055 1 40803 40803 3.5965 0 1 1048 8263 869 869 1037 1037 -0.013606648881477668 APAPYYSSTN 10 Unmodified _APAPYYSSTN_ 0 0 0 REV__nc|ENSG00000162373|Q7L4P6-2|BEND5 REV__nc|ENSG00000162373|Q7L4P6-2|BEND5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 535.789794921875 2 535.743096 1069.47164 NaN NaN NaN NaN NaN NaN NaN 80.998 1 81.167 80.667 81.667 0.16862 0 0 0 0.98473 1 39754 39754 7.9102 1.187 1 + 1049 12928 870 870 1038 1038 -0.060317170700500355 APAQDEERDS 10 Unmodified _APAQDEERDS_ 0 0 0 ENSG00000113889|ENST00000644859|KNG1 ENSG00000113889|ENST00000644859|KNG1 ENSG00000113889|ENST00000644859|KNG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.2864379882812 2 559.241449 1116.46835 NaN NaN NaN NaN NaN NaN NaN 12.858 1 12.858 12.358 13.358 0 0 0 0 0.96109 1 5611 5611 11.64 3.7301 1 1050 1880 871 871 1039 1039 -0.0852301191468996 APAQEEEEDPL 11 Unmodified _APAQEEEEDPL_ 0 0 0 ENSG00000096433|ENST00000605930|ITPR3 ENSG00000096433|ENST00000605930|ITPR3 ENSG00000096433|ENST00000605930|ITPR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.8493347167969 3 409.850702 1226.53028 NaN NaN NaN NaN NaN NaN NaN 62.164 1 62.895 62.395 63.395 0.73077 0 0 0 1.0071 1 28939 28939 0.50596 0 1 1051 1129 872 872 1040 1040 -0.07392705286224555 APAQRKWL 8 Unmodified _APAQRKWL_ 0 0 0 REV__ENST00000562311.5_3_16:57806174-57831883:-|nuORF REV__ENST00000562311.5_3_16:57806174-57831883:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.3175964355469 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 76.427 1 77.051 76.551 77.551 0.62397 0 0 0 0.99035 1 37040 37040 6.3541 0.59368 1 + 1052 17382 873 873 1041 1041 0.07004903608185487 APAQRKWL 8 Unmodified _APAQRKWL_ 0 0 0 REV__ENST00000562311.5_3_16:57806174-57831883:-|nuORF REV__ENST00000562311.5_3_16:57806174-57831883:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.0809326171875 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 78.703 1 78.955 78.455 79.455 0.25127 0 0 0 0.99035 1 36242 36242 6.3541 0.59368 1 + 1053 17382 873 873 1042 1042 0.07004903608185487 APAQRKWL 8 Unmodified _APAQRKWL_ 0 0 0 REV__ENST00000562311.5_3_16:57806174-57831883:-|nuORF REV__ENST00000562311.5_3_16:57806174-57831883:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.23779296875 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 76.987 1 77.65 77.15 78.15 0.66303 0 0 0 0.99035 1 35476 35476 6.3541 1.1234 1 + 1054 17382 873 873 1043 1043 0.07004903608185487 APAQRRVRAV 10 Unmodified _APAQRRVRAV_ 0 0 0 ENST00000462554.2_2_20:60878367-60878463:+|nuORF ENST00000462554.2_2_20:60878367-60878463:+|nuORF ENST00000462554.2_2_20:60878367-60878463:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.5284423828125 2 562.343981 1122.67341 NaN NaN NaN NaN NaN NaN NaN 79.348 1 79.599 79.099 80.099 0.25127 0 0 0 0.98866 1 36539 36539 7.2892 0 1 1055 8095 874 874 1044 1044 0.11697856196838075 APAQRVECWHL 11 Unmodified _APAQRVECWHL_ 0 0 0 ENST00000378347.2_1_16:89006602-89017765:+|nuORF ENST00000378347.2_1_16:89006602-89017765:+|nuORF ENST00000378347.2_1_16:89006602-89017765:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 655.328369140625 2 655.327139 1308.63972 NaN NaN NaN NaN NaN NaN NaN 71.735 1 72.439 71.939 72.939 0.70386 0 0 0 1.0055 1 34481 34481 3.5965 0 1 1056 7434 875 875 1045 1045 -0.0022493335723083874 APAQVRPPSP 10 Unmodified _APAQVRPPSP_ 0 0 0 nc|ENSG00000135525|Q14244-5|MAP7;nc|ENSG00000135525|Q14244-3|MAP7;nc|ENSG00000135525|Q14244-6|MAP7;chr6:136421799-136466761|462|32.17|0.92|5.13|-|ENST00000544465|MAP7,MAP7;ENSG00000135525|ENST00000354570|MAP7;nc|ENSG00000135525|Q14244-7|MAP7;nc|ENSG00000135525|Q14244-2|MAP7;nc|ENSG00000135525|Q14244-4|MAP7 nc|ENSG00000135525|Q14244-5|MAP7 nc|ENSG00000135525|Q14244-5|MAP7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.2835388183594 2 510.285266 1018.55598 NaN NaN NaN NaN NaN NaN NaN 84.323 1 84.352 83.852 84.852 0.028603 0 0 0 0.99225 1 42038 42038 6.7232 1.4925 1 1057 182 876 876 1046 1046 0.047442785373846164 APAQWRQDWTL 11 Unmodified _APAQWRQDWTL_ 0 0 0 REV__ENST00000473097.5_1_1:1288733-1289815:-|nuORF REV__ENST00000473097.5_1_1:1288733-1289815:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 458.1400146484375 3 457.898321 1370.67313 NaN NaN NaN NaN NaN NaN NaN 72.172 1 72.876 72.376 73.376 0.70386 0 0 0 1.0071 1 34716 34716 1.4551 0.12547 1 + 1058 16623 877 877 1047 1047 0.0026239168630581844 APARAALAHL 10 Unmodified _APARAALAHL_ 0 0 0 ENST00000597578.1_1_16:86524040-86542451:-|nuORF ENST00000597578.1_1_16:86524040-86542451:-|nuORF ENST00000597578.1_1_16:86524040-86542451:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.79449462890625 2 495.795801 989.577048 NaN NaN NaN NaN NaN NaN NaN 99.381 1 99.69 99.19 100.19 0.30835 0 0 0 0.98473 1 45905 45905 7.9102 2.6795 1 1059 9285 878 878 1048 1048 0.08184288636869042 APARARAPRWT 11 Unmodified _APARARAPRWT_ 0 0 0 ENST00000468686.5_1_22:21982709-21983718:-|nuORF ENST00000468686.5_1_22:21982709-21983718:-|nuORF ENST00000468686.5_1_22:21982709-21983718:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 626.7412719726562 2 626.854712 1251.69487 NaN NaN NaN NaN NaN NaN NaN 68.932 1 68.932 68.432 69.432 0 0 0 0 1.0034 1 33228 33228 6.2058 0 1 1060 8157 879 879 1049 1049 0.07909241225547703 APAREQKCWRH 11 Unmodified _APAREQKCWRH_ 0 0 0 ENST00000439313.5_1_2:165693974-165697706:-|nuORF ENST00000439313.5_1_2:165693974-165697706:-|nuORF ENST00000439313.5_1_2:165693974-165697706:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 691.3490600585938 2 691.348937 1380.68332 NaN NaN NaN NaN NaN NaN NaN 85.885 1 86.556 86.056 87.056 0.67061 0 0 0 1.0071 1 39548 39548 1.4819 0.15237 1 1061 7925 880 880 1050 1050 0.008206761398923845 APARFRQR 8 Unmodified _APARFRQR_ 0 0 0 ENST00000573440.1_1_16:680894-681299:+|nuORF ENST00000573440.1_1_16:680894-681299:+|nuORF ENST00000573440.1_1_16:680894-681299:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.32855224609375 2 501.291217 1000.56788 2.9901 0.0014989 -0.72482 -0.00036335 2.2652 0.0011355 501.2907640352041 80.329 0.96761 80.578 80.115 81.083 0.24947 77 61 2 0 0 0 0.14249 1 36978 36978 0.79363 0 1 563320 1062 9107 881 881 1051 1051 0.06761940071237404 APARGLRGRLL 11 Unmodified _APARGLRGRLL_ 0 0 0 REV__nc|ENSG00000163738|Q9H903-5|MTHFD2L REV__nc|ENSG00000163738|Q9H903-5|MTHFD2L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 590.3416748046875 2 590.375281 1178.73601 NaN NaN NaN NaN NaN NaN NaN 96.553 1 96.831 96.331 97.331 0.27778 0 0 0 1.0071 1 44361 44361 1.4819 0.95714 1 + 1063 13022 882 882 1052 1052 0.15379002265058261 APARGLRGRLL 11 Unmodified _APARGLRGRLL_ 0 0 0 REV__nc|ENSG00000163738|Q9H903-5|MTHFD2L REV__nc|ENSG00000163738|Q9H903-5|MTHFD2L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.3767700195312 2 590.375281 1178.73601 NaN NaN NaN NaN NaN NaN NaN 96.446 1 97.048 96.548 97.548 0.6019 0 0 0 1.0055 1 44345 44345 3.5965 0 1 + 1064 13022 882 882 1053 1053 0.15379002265058261 APARGPHQA 9 Unmodified _APARGPHQA_ 0 0 0 REV__ENST00000469090.5_1_17:27942519-27943125:-|nuORF REV__ENST00000469090.5_1_17:27942519-27943125:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.5826110839844 2 452.741025 903.467498 NaN NaN NaN NaN NaN NaN NaN 71.979 1 72.237 71.737 72.737 0.25786 0 0 0 0.82031 1 33031 33031 8.5933 2.2392 1 + 1065 15902 883 883 1054 1054 0.011902830175699819 APARHPRVKR 10 Unmodified _APARHPRVKR_ 0 0 0 nc|ENSG00000132164|P48066-2|SLC6A11;ENSG00000132164|ENST00000254488|SLC6A11 nc|ENSG00000132164|P48066-2|SLC6A11 nc|ENSG00000132164|P48066-2|SLC6A11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 594.3632202148438 2 594.365247 1186.71594 NaN NaN NaN NaN NaN NaN NaN 70.021 1 70.724 70.224 71.224 0.70302 0 0 0 0.99687 1 33533 33533 4.3292 0.38484 1 1066 2683 884 884 1055 1055 0.1300525132508028 APARHRRK 8 Unmodified _APARHRRK_ 0 0 0 ENSG00000170260|ENST00000335870|ZNF212 ENSG00000170260|ENST00000335870|ZNF212 ENSG00000170260|ENST00000335870|ZNF212 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.83551025390625 2 496.304659 990.594764 3.3955 0.0016852 -1.1062 -0.00054901 2.2893 0.0011362 496.3039386040537 91.908 0.37059 92.57 92.404 92.774 0.66198 41 17 3 0 0 0 0.14069 1 42221 42221 6.3541 1.5981 1 874120 1067 4736 885 885 1056 1056 0.09909048682413868 APARHRRK 8 Unmodified _APARHRRK_ 0 0 0 ENSG00000170260|ENST00000335870|ZNF212 ENSG00000170260|ENST00000335870|ZNF212 ENSG00000170260|ENST00000335870|ZNF212 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 496.304659 990.594764 3.7491 0.0018607 -1.1836 -0.00058744 2.5655 0.0012733 496.3039336166049 92.318 0.31748 92.571 92.436 92.754 0.25253 0.00032587 -3.9501E-05 NaN 6.3541 40 16 3 NaN NaN NaN NaN 0 NaN NaN 0 827950 1068 4736 885 885 0.09909048682413868 APARKFPT 8 Unmodified _APARKFPT_ 0 0 0 nc|ENSG00000136367|Q9C0A1-2|ZFHX2;ENSG00000136367|ENST00000419474|ZFHX2 nc|ENSG00000136367|Q9C0A1-2|ZFHX2 nc|ENSG00000136367|Q9C0A1-2|ZFHX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 444.3751525878906 2 444.25852 886.502486 NaN NaN NaN NaN NaN NaN NaN 60.829 1 60.829 60.329 61.329 0 0 0 0 0.99035 1 28320 28320 5.7604 0 1 1069 2945 886 886 1057 1057 0.05469525825526489 APARKLPPKRA 11 Unmodified _APARKLPPKRA_ 0 0 0 ENST00000468713.5_1_6:30594689-30613691:+|nuORF;nc|ENSG00000137343|Q5SQI0-5|ATAT1;nc|ENSG00000137343|Q5SQI0-4|ATAT1;ENSG00000137343|ENST00000330083|ATAT1;nc|ENSG00000137343|Q5SQI0|ATAT1 ENST00000468713.5_1_6:30594689-30613691:+|nuORF ENST00000468713.5_1_6:30594689-30613691:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 602.885986328125 2 602.885481 1203.75641 NaN NaN NaN NaN NaN NaN NaN 80.392 1 81.052 80.552 81.552 0.65998 0 0 0 1.0057 1 37045 37045 3.2813 2.088 1 1070 3013 887 887 1058 1058 0.16268172924856117 APARLHPPVEW 11 Unmodified _APARLHPPVEW_ 0 0 0 REV__ENST00000342665.4_2_20:308281-308551:+|nuORF REV__ENST00000342665.4_2_20:308281-308551:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 636.8453369140625 2 636.846022 1271.67749 NaN NaN NaN NaN NaN NaN NaN 72.642 1 72.901 72.401 73.401 0.25876 0 0 0 1.0034 1 33349 33349 6.2058 1.8765 1 + 1071 15474 888 888 1059 1059 0.052519008998842764 APARLKPSRVP 11 Unmodified _APARLKPSRVP_ 0 0 0 REV__ENST00000417410.6_1_8:42396848-42397127:+|nuORF REV__ENST00000417410.6_1_8:42396848-42397127:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.3710327148438 2 596.369664 1190.72478 NaN NaN NaN NaN NaN NaN NaN 71.955 1 71.955 71.455 72.455 0 0 0 0 1.0055 1 34983 34983 3.5965 0 1 + 1072 16140 889 889 1060 1060 0.13704180170884683 APARLLTHRS 10 Unmodified _APARLLTHRS_ 0 0 0 REV__ENSG00000182173|ENST00000333213|TSEN54 REV__ENSG00000182173|ENST00000333213|TSEN54 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.4512939453125 2 561.330539 1120.64652 NaN NaN NaN NaN NaN NaN NaN 81.432 1 81.68 81.18 82.18 0.24803 0 0 0 0.99774 1 37492 37492 3.5965 0 1 + 1073 13877 890 890 1061 1061 0.09102747585643556 APARLRRRKYT 11 Unmodified _APARLRRRKYT_ 0 0 0 REV__CON__P19013 REV__CON__P19013 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.619384765625 3 463.284621 1386.83203 3.0456 0.001411 -2.0077 -0.00093014 1.0378 0.00048082 463.61814141887305 105.77 0.17699 106.37 106.26 106.44 0.59969 12 5 3 0 0 0 0.88721 1 48867 48867 1.2148 0.80657 1 865960 + + 1074 10080 891 891 1062 1062 0.15409150105119807 APARPARPVL 10 Unmodified _APARPARPVL_ 0 0 0 ENST00000454682.5_1_12:57119205-57119304:-|nuORF ENST00000454682.5_1_12:57119205-57119304:-|nuORF ENST00000454682.5_1_12:57119205-57119304:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.7300415039062 2 524.324725 1046.6349 NaN NaN NaN NaN NaN NaN NaN 74.232 1 74.232 73.732 74.732 0 0 0 0 0.98866 1 36247 36247 7.2892 2.96 1 1075 8038 892 892 1063 1063 0.11344550562330369 APARPKMLV 9 Unmodified _APARPKMLV_ 0 0 0 ENSG00000110237|ENST00000263674|ARHGEF17;ENST00000543530.1_1_11:73076398-73078822:+|nuORF ENSG00000110237|ENST00000263674|ARHGEF17 ENSG00000110237|ENST00000263674|ARHGEF17 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7961730957031 2 491.796955 981.579357 NaN NaN NaN NaN NaN NaN NaN 97.167 1 97.769 97.269 98.269 0.6019 0 0 0 0.89315 1 44677 44677 5.2307 0 1 1076 1706 893 893 1064 1064 0.08783001050346684 APARPLRRPP 10 Unmodified _APARPLRRPP_ 0 0 0 REV__ENST00000557682.6_1_15:93426179-93428750:+|nuORF REV__ENST00000557682.6_1_15:93426179-93428750:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.8505249023438 2 565.848899 1129.68324 NaN NaN NaN NaN NaN NaN NaN 62.873 1 62.873 62.373 63.373 0 0 0 0 0.99704 1 29508 29508 4.3292 0.38484 1 + 1077 17337 894 894 1065 1065 0.1235904420220777 APARQPRRR 9 Unmodified _APARQPRRR_ 0 0 0 ENSG00000284188|ENST00000640271|unknown ENSG00000284188|ENST00000640271|unknown ENSG00000284188|ENST00000640271|unknown MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.333984375 2 554.333947 1106.65334 NaN NaN NaN NaN NaN NaN NaN 105.16 1 105.76 105.26 106.26 0.59969 0 0 0 0.89315 1 48566 48566 5.2307 0.90143 1 1078 6373 895 895 1066 1066 0.10428105256892195 APARRAARRRR 11 Unmodified _APARRAARRRR_ 0 0 0 REV__ENST00000432959.1_1_2:96931033-96931616:-|nuORF REV__ENST00000432959.1_1_2:96931033-96931616:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 668.9183959960938 2 668.916501 1335.81845 NaN NaN NaN NaN NaN NaN NaN 62.129 1 62.129 61.629 62.629 0 0 0 0 1.0055 1 29085 29085 3.5965 2.1146 1 + 1079 14948 896 896 1067 1067 0.1639733711651843 APARRALRPPS 11 Unmodified _APARRALRPPS_ 0 0 0 REV__ENST00000373313.2_1_20:39317299-39317872:-|nuORF REV__ENST00000373313.2_1_20:39317299-39317872:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 596.4779663085938 2 596.357088 1190.69962 NaN NaN NaN NaN NaN NaN NaN 91.101 1 91.353 90.853 91.853 0.25163 0 0 0 1.0057 1 41891 41891 3.2813 1.7994 1 + 1080 15764 897 897 1068 1068 0.11190125368307235 APARRENTL 9 Unmodified _APARRENTL_ 0 0 0 REV__ENST00000367603.7_2_6:143158130-143266337:-|nuORF REV__ENST00000367603.7_2_6:143158130-143266337:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.2880249023438 2 514.285797 1026.55704 NaN NaN NaN NaN NaN NaN NaN 71.964 1 72.668 72.168 73.168 0.70386 0 0 0 0.097886 1 34601 34601 42.095 0.25493 1 + 1081 15667 898 898 1069 1069 0.044824929062770025 APARRGQLRRL 11 Unmodified _APARRGQLRRL_ 0 0 0 ENST00000460787.1_1_11:75137492-75141101:-|nuORF;nc|ENSG00000149243|Q6PF15-2|KLHL35;ENSG00000149243|ENST00000539798|KLHL35 ENST00000460787.1_1_11:75137492-75141101:-|nuORF ENST00000460787.1_1_11:75137492-75141101:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 647.279052734375 2 647.402361 1292.79017 NaN NaN NaN NaN NaN NaN NaN 78.565 1 79.029 78.529 79.529 0.4642 0 0 0 1.0055 1 38208 38208 3.5965 0 1 1082 3633 899 899 1070 1070 0.1554859441660028 APARRHLLVL 10 Unmodified _APARRHLLVL_ 0 0 0 ENSG00000104901|ENST00000221498|DKKL1 ENSG00000104901|ENST00000221498|DKKL1 ENSG00000104901|ENST00000221498|DKKL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.1653442382812 2 573.366924 1144.7193 NaN NaN NaN NaN NaN NaN NaN 79.697 1 80.017 79.517 80.517 0.31998 0 0 0 0.98866 1 38939 38939 7.2892 3.3448 1 1083 1461 900 900 1071 1071 0.15272501379081405 APARRKSAHR 10 Unmodified _APARRKSAHR_ 0 0 0 ENST00000560263.1_1_15:90736385-90736778:+|nuORF ENST00000560263.1_1_15:90736385-90736778:+|nuORF ENST00000560263.1_1_15:90736385-90736778:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.0828857421875 2 575.33923 1148.66391 NaN NaN NaN NaN NaN NaN NaN 67.742 1 67.742 67.242 68.242 0 0 0 0 0.99687 1 32546 32546 4.3292 0.73274 1 1084 8972 901 901 1072 1072 0.09552087911310991 APARRLVFH 9 Unmodified _APARRLVFH_ 0 0 0 ENSG00000137960|ENST00000370759|GIPC2 ENSG00000137960|ENST00000370759|GIPC2 ENSG00000137960|ENST00000370759|GIPC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.76416015625 2 533.817067 1065.61958 NaN NaN NaN NaN NaN NaN NaN 73.55 1 73.55 73.05 74.05 0 0 0 0 0.68339 1 35874 35874 19.439 9.3651 1 1085 3060 902 902 1073 1073 0.08939683765129303 APARRRLGRRC 11 Unmodified _APARRRLGRRC_ 0 0 0 ENST00000538517.6_1_19:14048664-14064120:-|nuORF;ENST00000339560.9_1_19:14048664-14049262:-|nuORF ENST00000538517.6_1_19:14048664-14064120:-|nuORF ENST00000538517.6_1_19:14048664-14064120:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.8014831542969 3 437.926551 1310.75782 NaN NaN NaN NaN NaN NaN NaN 71.757 1 72.015 71.515 72.515 0.25786 0 0 0 1.0055 1 32909 32909 1.4551 0 1 1086 7059 903 903 1074 1074 0.11487483741962023 APARSDDEF 9 Unmodified _APARSDDEF_ 0 0 0 REV__ENSG00000105464|ENST00000263269|GRIN2D REV__ENSG00000105464|ENST00000263269|GRIN2D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.23486328125 2 504.225071 1006.43559 NaN NaN NaN NaN NaN NaN NaN 73.201 1 73.46 72.96 73.96 0.25876 0 0 0 0.89315 1 33616 33616 5.2307 0 1 + 1087 11035 904 904 1075 1075 -0.06737174246893574 APARSPRLR 9 Unmodified _APARSPRLR_ 0 0 0 nc|ENSG00000099308|O60307|MAST3;ENSG00000099308|ENST00000687212|MAST3 nc|ENSG00000099308|O60307|MAST3 nc|ENSG00000099308|O60307|MAST3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 511.9200134277344 2 512.312149 1022.60975 NaN NaN NaN NaN NaN NaN NaN 74.886 1 75.551 75.051 76.051 0.6644 0 0 0 0.89315 1 34488 34488 5.2307 0 1 1088 1137 905 905 1076 1076 0.09934495759762285 APARTPVPLLI 11 Unmodified _APARTPVPLLI_ 0 0 0 ENST00000477110.6_1_X:302544-308028:-|nuORF ENST00000477110.6_1_X:302544-308028:-|nuORF ENST00000477110.6_1_X:302544-308028:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.26513671875 2 574.363516 1146.71248 NaN NaN NaN NaN NaN NaN NaN 77.014 1 77.014 76.514 77.514 0 0 0 0 1.0055 1 37753 37753 3.5965 1.7523 1 1089 8241 906 906 1077 1077 0.14499143707848816 APARTREDQL 10 Unmodified _APARTREDQL_ 0 0 0 ENST00000504009.1_1_4:113436661-113446456:+|nuORF;ENST00000506057.1_1_4:113436661-113439011:+|nuORF ENST00000504009.1_1_4:113436661-113446456:+|nuORF ENST00000504009.1_1_4:113436661-113446456:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.8070068359375 2 578.807094 1155.59963 NaN NaN NaN NaN NaN NaN NaN 64.937 1 65.646 65.146 66.146 0.70891 0 0 0 0.99687 1 30621 30621 4.3292 0 1 1090 8494 907 907 1078 1078 0.028058432438683667 APARWEWLYSI 11 Unmodified _APARWEWLYSI_ 0 0 0 nc|ENSG00000165511|Q5T742|ZNF22-AS1 nc|ENSG00000165511|Q5T742|ZNF22-AS1 nc|ENSG00000165511|Q5T742|ZNF22-AS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.57373046875 3 464.575067 1390.70337 NaN NaN NaN NaN NaN NaN NaN 96.266 1 96.544 96.044 97.044 0.27778 0 0 0 1.0071 1 44231 44231 1.4551 0.82829 1 1091 9732 908 908 1079 1079 0.023647503515348944 APARWPRSDPE 11 Unmodified _APARWPRSDPE_ 0 0 0 ENSG00000105464|ENST00000263269|GRIN2D ENSG00000105464|ENST00000263269|GRIN2D ENSG00000105464|ENST00000263269|GRIN2D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.3238525390625 2 641.320368 1280.62618 NaN NaN NaN NaN NaN NaN NaN 73.462 1 73.462 72.962 73.962 0 0 0 0 1.0055 1 35819 35819 3.5965 0 1 1092 1499 909 909 1080 1080 -0.002904678648292247 APASAVPPRR 10 Unmodified _APASAVPPRR_ 0 0 0 REV__ENST00000257359.6_1_11:130297588-130298293:-|nuORF REV__ENST00000257359.6_1_11:130297588-130298293:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 511.4266052246094 2 511.298707 1020.58286 NaN NaN NaN NaN NaN NaN NaN 69.816 1 70.519 70.019 71.019 0.70302 0 0 0 0.96109 1 33427 33427 11.64 0 1 + 1093 14940 910 910 1081 1081 0.07339387148567766 APASFRTR 8 Unmodified _APASFRTR_ 0 0 0 REV__ENSG00000172238|ENST00000306011|ATOH1 REV__ENSG00000172238|ENST00000306011|ATOH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 452.9552917480469 2 453.251226 904.487899 NaN NaN NaN NaN NaN NaN NaN 67.695 1 67.695 67.195 68.195 0 0 0 0 0.99035 1 32518 32518 6.3541 0 1 + 1094 13542 911 911 1082 1082 0.031834536773772015 APASFRYC 8 Unmodified _APASFRYC_ 0 0 0 ENST00000556095.5_1_14:96829921-96830272:+|nuORF ENST00000556095.5_1_14:96829921-96830272:+|nuORF ENST00000556095.5_1_14:96829921-96830272:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.6827087402344 2 457.713088 913.411622 NaN NaN NaN NaN NaN NaN NaN 72.165 1 72.828 72.328 73.328 0.66324 0 0 0 0.99035 1 33086 33086 5.2307 2.3415 1 1095 8922 912 912 1083 1083 -0.04854686214264348 APASNFMWCVL 11 Unmodified _APASNFMWCVL_ 0 0 0 REV__ENST00000334218.9_1_1:227504950-227505052:-|nuORF REV__ENST00000334218.9_1_1:227504950-227505052:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.6285400390625 2 619.788469 1237.56239 NaN NaN NaN NaN NaN NaN NaN 83.266 1 83.311 82.811 83.811 0.045006 0 0 0 0.99968 1 41282 41282 6.7232 0.99131 1 + 1096 15401 913 913 1084 1084 -0.046892876177707876 APASRPRPL 9 Unmodified _APASRPRPL_ 0 0 0 REV__nc|ENSG00000105559|Q9H4M7-2|PLEKHA4 REV__nc|ENSG00000105559|Q9H4M7-2|PLEKHA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.18548583984375 2 482.787976 963.561398 NaN NaN NaN NaN NaN NaN NaN 60.162 1 60.911 60.411 61.411 0.74927 0 0 0 0.89451 1 27698 27698 7.9102 1.5561 1 + 1097 11042 914 914 1085 1085 0.07816002119852783 APASTPYLLTS 11 Unmodified _APASTPYLLTS_ 0 0 0 ENSG00000161940|ENST00000293805|BCL6B ENSG00000161940|ENST00000293805|BCL6B ENSG00000161940|ENST00000293805|BCL6B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.7977905273438 2 560.797872 1119.58119 NaN NaN NaN NaN NaN NaN NaN 78.543 1 78.797 78.297 79.297 0.25335 0 0 0 1.0034 1 36169 36169 6.2058 0 1 1098 4110 915 915 1086 1086 0.02618288549274439 APASVRDDPRH 11 Unmodified _APASVRDDPRH_ 0 0 0 ENSG00000204532|ENST00000534327|ZSCAN5C ENSG00000204532|ENST00000534327|ZSCAN5C ENSG00000204532|ENST00000534327|ZSCAN5C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 610.8074340820312 2 610.810168 1219.60578 NaN NaN NaN NaN NaN NaN NaN 62.747 1 63.469 62.969 63.969 0.72236 0 0 0 0.9645 1 29318 29318 10.074 3.3508 1 1099 6015 916 916 1087 1087 0.004763614753755974 APASVSREVEW 11 Unmodified _APASVSREVEW_ 0 0 0 ENST00000585538.1_1_17:41020205-41020445:+|nuORF ENST00000585538.1_1_17:41020205-41020445:+|nuORF ENST00000585538.1_1_17:41020205-41020445:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 615.806640625 2 615.809302 1229.60405 NaN NaN NaN NaN NaN NaN NaN 64.822 1 64.822 64.322 65.322 0 0 0 0 0.9645 1 30786 30786 10.074 3.3508 1 1100 9178 917 917 1088 1088 -0.0015669233323478693 APASWIWWRML 11 Unmodified _APASWIWWRML_ 0 0 0 ENSG00000244694|ENST00000339488|PTCHD4;nc|ENSG00000244694|Q6ZW05|PTCHD4 ENSG00000244694|ENST00000339488|PTCHD4 ENSG00000244694|ENST00000339488|PTCHD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.91455078125 3 472.913025 1415.71725 NaN NaN NaN NaN NaN NaN NaN 67.255 1 67.957 67.457 68.457 0.70218 0 0 0 1.0055 1 31941 31941 1.4551 0.12547 1 1101 6254 918 918 1089 1089 0.026017045789558324 APASWIWWRML 11 Unmodified _APASWIWWRML_ 0 0 0 ENSG00000244694|ENST00000339488|PTCHD4;nc|ENSG00000244694|Q6ZW05|PTCHD4 ENSG00000244694|ENST00000339488|PTCHD4 ENSG00000244694|ENST00000339488|PTCHD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 708.8629760742188 2 708.8659 1415.71725 NaN NaN NaN NaN NaN NaN NaN 75.301 1 75.558 75.058 76.058 0.25704 0 0 0 1.0055 1 34644 34644 3.5965 0.31518 1 1102 6254 918 918 1090 1090 0.026017045789558324 APATAQPLLL 10 Unmodified _APATAQPLLL_ 0 0 0 MFSD12|p.G347Rfs*67|1|0.32|ENSG00000161091|chr19:3546410-3546411|-/T|frameshift_variant;nc|ENSG00000161091|Q6NUT3-2|MFSD12;nc|ENSG00000161091|Q6NUT3-4|MFSD12;ENSG00000161091|ENST00000355415|MFSD12;nc|ENSG00000161091|Q6NUT3-3|MFSD12 MFSD12|p.G347Rfs*67|1|0.32|ENSG00000161091|chr19:3546410-3546411|-/T|frameshift_variant MFSD12|p.G347Rfs*67|1|0.32|ENSG00000161091|chr19:3546410-3546411|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.83074951171875 2 497.800217 993.585882 NaN NaN NaN NaN NaN NaN NaN 72.057 1 72.315 71.815 72.815 0.25876 0 0 0 0.99284 1 33069 33069 11.64 4.9171 1 1103 4093 919 919 1091 1091 0.08883217482730288 APATFLRVNCW 11 Unmodified _APATFLRVNCW_ 0 0 0 HERVH-int_dup4295|chr11:71737927-71740823:+|2.9111428382893654|0.2495776091037528|3.54|531.0|114|2|anti-sense;HERVH-int_dup4392|chr11:117810273-117812670:+|1.0106195284198216|0.4419619859838813|1.19|535.0|75|1|anti-sense HERVH-int_dup4295|chr11:71737927-71740823:+|2.9111428382893654|0.2495776091037528|3.54|531.0|114|2|anti-sense HERVH-int_dup4295|chr11:71737927-71740823:+|2.9111428382893654|0.2495776091037528|3.54|531.0|114|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 639.3280639648438 2 639.326608 1276.63866 NaN NaN NaN NaN NaN NaN NaN 73.048 1 73.747 73.247 74.247 0.69881 0 0 0 1.0038 1 35203 35203 5.7319 0.83484 1 1104 9403 920 920 1092 1092 0.011408522738520332 APATKKSL 8 Unmodified _APATKKSL_ 0 0 0 REV__ENSG00000226650|ENST00000435029|KIF4B REV__ENSG00000226650|ENST00000435029|KIF4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 408.2515563964844 2 408.252903 814.491253 NaN NaN NaN NaN NaN NaN NaN 63.132 1 63.854 63.354 64.354 0.72236 0 0 0 0.99035 1 29545 29545 6.3541 1.1234 1 + 1105 14559 921 921 1093 1093 0.07658703731385685 APATKRLFA 9 Unmodified _APATKRLFA_ 0 0 0 nc|ENSG00000184226|Q9HC56-2|PCDH9;ENSG00000184226|ENST00000377865|PCDH9 nc|ENSG00000184226|Q9HC56-2|PCDH9 nc|ENSG00000184226|Q9HC56-2|PCDH9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.3669128417969 2 487.792727 973.5709 NaN NaN NaN NaN NaN NaN NaN 76.713 1 76.713 76.213 77.213 0 0 0 0 0.82031 1 37601 37601 8.5933 0.68312 1 1106 5429 922 922 1094 1094 0.08305770405377189 APATLLRRRRA 11 Unmodified _APATLLRRRRA_ 0 0 0 ENST00000403856.1_2_2:43820015-43823127:-|nuORF;ENST00000405975.6_3_2:43819535-43823169:-|nuORF ENST00000403856.1_2_2:43820015-43823127:-|nuORF ENST00000403856.1_2_2:43820015-43823127:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.9881591796875 2 640.904737 1279.79492 NaN NaN NaN NaN NaN NaN NaN 83.393 1 83.438 82.938 83.938 0.045006 0 0 0 1.0034 1 41378 41378 6.2058 2.9245 1 1107 7624 923 923 1095 1095 0.16621478559363823 APATMSTPTI 10 Unmodified _APATMSTPTI_ 0 0 0 nc|ENSG00000119321|Q5T1M5-2|FKBP15;ENSG00000119321|ENST00000238256|FKBP15;ENST00000462889.1_1_9:115969493-115983538:-|nuORF;nc|ENSG00000119321|Q5T1M5-3|FKBP15 nc|ENSG00000119321|Q5T1M5-2|FKBP15 nc|ENSG00000119321|Q5T1M5-2|FKBP15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.25469970703125 2 495.252243 988.489932 2.9187 0.0014455 0.14947 7.4025E-05 3.0682 0.0015195 495.2523663352943 73.742 0.36287 74 73.828 74.191 0.25876 51 37 2 0 0 0 0.73282 1 33920 33920 11.64 2.2929 1 789540 1108 2138 924 924 1096 1096 -0.004772984196847574 APATMSTPTI 10 Unmodified _APATMSTPTI_ 0 0 0 nc|ENSG00000119321|Q5T1M5-2|FKBP15;ENSG00000119321|ENST00000238256|FKBP15;ENST00000462889.1_1_9:115969493-115983538:-|nuORF;nc|ENSG00000119321|Q5T1M5-3|FKBP15 nc|ENSG00000119321|Q5T1M5-2|FKBP15 nc|ENSG00000119321|Q5T1M5-2|FKBP15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.25225830078125 2 495.252243 988.489932 NaN NaN NaN NaN NaN NaN NaN 73.346 1 74.01 73.51 74.51 0.66398 0 0 0 0.92749 1 33703 33703 16.942 3.4344 1 1109 2138 924 924 1097 1097 -0.004772984196847574 APATPRKRA 9 Unmodified _APATPRKRA_ 0 0 0 REV__ENST00000502332.5_2_3:167967548-168027104:+|nuORF REV__ENST00000502332.5_2_3:167967548-168027104:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.293212890625 2 484.293425 966.572297 NaN NaN NaN NaN NaN NaN NaN 82.309 1 82.969 82.469 83.469 0.66019 0 0 0 0.90511 1 37924 37924 2.3027 0 1 + 1110 16885 925 925 1098 1098 0.08767404494130915 APAVIEVPVE 10 Unmodified _APAVIEVPVE_ 0 0 0 REV__ENSG00000182791|ENST00000333861|CCDC87 REV__ENSG00000182791|ENST00000333861|CCDC87 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.2906494140625 2 512.289682 1022.56481 NaN NaN NaN NaN NaN NaN NaN 76.145 1 76.402 75.902 76.902 0.25704 0 0 0 0.99733 1 35055 35055 3.9444 0.3479 1 + 1111 13905 926 926 1099 1099 0.05443207383200388 APAVKLHIKL 10 Unmodified _APAVKLHIKL_ 0 0 0 REV__ENST00000514671.5_1_4:83275248-83276060:-|nuORF REV__ENST00000514671.5_1_4:83275248-83276060:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.35986328125 2 545.360776 1088.707 NaN NaN NaN NaN NaN NaN NaN 90.142 1 90.815 90.315 91.315 0.67271 0 0 0 0.99983 1 41491 41491 1.8442 1.1539 1 + 1112 17010 927 927 1100 1100 0.1661946491603885 APAVLHFPLV 10 Unmodified _APAVLHFPLV_ 0 0 0 nc|ENSG00000243708|P0C869-4|PLA2G4B;ENSG00000243708|ENST00000458483|PLA2G4B;nc|ENSG00000243708|P0C869-6|PLA2G4B nc|ENSG00000243708|P0C869-4|PLA2G4B nc|ENSG00000243708|P0C869-4|PLA2G4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.052490234375 2 532.318577 1062.6226 2.7853 0.0014827 0.39756 0.00021163 3.1829 0.0016943 532.3183646618236 74.701 0.25117 75.366 75.184 75.436 0.6644 41 24 2 0 0 0 0.58083 1 34395 34395 18.135 5.6034 1 843470 1113 6239 928 928 1101 1101 0.09379514099259723 APAVLHFPLV 10 Unmodified _APAVLHFPLV_ 0 0 0 nc|ENSG00000243708|P0C869-4|PLA2G4B;ENSG00000243708|ENST00000458483|PLA2G4B;nc|ENSG00000243708|P0C869-6|PLA2G4B nc|ENSG00000243708|P0C869-4|PLA2G4B nc|ENSG00000243708|P0C869-4|PLA2G4B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 532.318577 1062.6226 2.507 0.0013345 0.70316 0.00037431 3.2101 0.0017088 532.3187642390313 75.45 0.13213 75.45 75.368 75.5 0 0.010373 -9.1094E-05 NaN 18.135 20 11 2 NaN NaN NaN NaN 0 NaN NaN 0 723230 1114 6239 928 928 0.09379514099259723 APAVLHFPLV 10 Unmodified _APAVLHFPLV_ 0 0 0 nc|ENSG00000243708|P0C869-4|PLA2G4B;ENSG00000243708|ENST00000458483|PLA2G4B;nc|ENSG00000243708|P0C869-6|PLA2G4B nc|ENSG00000243708|P0C869-4|PLA2G4B nc|ENSG00000243708|P0C869-4|PLA2G4B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 532.318577 1062.6226 2.8108 0.0014962 1.3148 0.0006999 4.1256 0.0021961 532.3196619828957 75.245 0.28746 75.503 75.297 75.585 0.25831 0.063569 0.0005601 NaN 18.135 36 26 2 NaN NaN NaN NaN 0 NaN NaN 0 881280 1115 6239 928 928 0.09379514099259723 APAVPIQLM 9 Unmodified _APAVPIQLM_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.2692565917969 2 470.270238 938.525924 NaN NaN NaN NaN NaN NaN NaN 61.768 1 62.499 61.999 62.999 0.73077 0 0 0 0.66907 1 28689 28689 13.508 0.97634 1 + 1116 14485 929 929 1102 1102 0.054202035478283506 APAVPRRRRR 10 Unmodified _APAVPRRRRR_ 0 0 0 REV__ENSG00000253276|ENST00000523505|CCDC71L REV__ENSG00000253276|ENST00000523505|CCDC71L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 617.8888549804688 2 617.889421 1233.76429 NaN NaN NaN NaN NaN NaN NaN 62.358 1 63.089 62.589 63.589 0.73077 0 0 0 0.99687 1 29058 29058 4.3292 0 1 + 1117 14658 930 930 1103 1103 0.1567574496496036 APAVREHQWSL 11 Unmodified _APAVREHQWSL_ 0 0 0 ENST00000416295.1_1_3:50312110-50312520:+|nuORF ENST00000416295.1_1_3:50312110-50312520:+|nuORF ENST00000416295.1_1_3:50312110-50312520:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 647.0882568359375 2 647.338561 1292.66257 NaN NaN NaN NaN NaN NaN NaN 78.487 1 79.149 78.649 79.649 0.66198 0 0 0 1.0055 1 36168 36168 3.5965 0.31518 1 1118 7711 931 931 1104 1104 0.02794409031912437 APAVRPLRTR 10 Unmodified _APAVRPLRTR_ 0 0 0 REV__ENST00000415992.5_1_9:139702603-139703092:+|nuORF REV__ENST00000415992.5_1_9:139702603-139703092:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.8565063476562 2 568.854181 1135.69381 3.8205 0.0021733 -1.59 -0.00090447 2.2305 0.0012688 568.8531842846843 98.338 0.23189 98.937 98.807 99.039 0.59885 38 19 3 0 0 0 0.88655 1 45378 45378 4.3292 0.38484 1 5207900 + 1119 16131 932 932 1105 1105 0.1313902685665198 APAVRPLRTR 10 Unmodified _APAVRPLRTR_ 0 0 0 REV__ENST00000415992.5_1_9:139702603-139703092:+|nuORF REV__ENST00000415992.5_1_9:139702603-139703092:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 568.854181 1135.69381 3.0668 0.0017445 -1.2715 -0.00072329 1.7953 0.0010212 568.8534260951112 98.598 0.08532 98.598 98.529 98.614 0 -0.11295 0.00022939 NaN 4.3292 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 15278000 + 1120 16131 932 932 0.1313902685665198 APAVRPLRTR 10 Unmodified _APAVRPLRTR_ 0 0 0 REV__ENST00000415992.5_1_9:139702603-139703092:+|nuORF REV__ENST00000415992.5_1_9:139702603-139703092:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 568.854181 1135.69381 2.2992 0.0013079 -1.0683 -0.00060771 1.2309 0.00070023 568.8537046015902 98.367 0.065941 98.433 98.388 98.454 0.066025 -0.27733 0.00046056 NaN 4.3292 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 11294000 + 1121 16131 932 932 0.1313902685665198 APAVRPLRTR 10 Unmodified _APAVRPLRTR_ 0 0 0 REV__ENST00000415992.5_1_9:139702603-139703092:+|nuORF REV__ENST00000415992.5_1_9:139702603-139703092:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 568.854181 1135.69381 4.3449 0.0024716 -2.1477 -0.0012217 2.1972 0.0012499 568.85324765819 98.575 0.14533 98.875 98.781 98.926 0.29987 0.16399 -0.00076745 NaN 4.3292 18 13 2 NaN NaN NaN NaN 0 NaN NaN 0 3812100 + 1122 16131 932 932 0.1313902685665198 APAVRPPQRR 10 Unmodified _APAVRPPQRR_ 0 0 0 ENST00000398832.2_1_17:30469273-30469582:-|nuORF ENST00000398832.2_1_17:30469273-30469582:-|nuORF ENST00000398832.2_1_17:30469273-30469582:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 574.7462768554688 2 574.343981 1146.67341 NaN NaN NaN NaN NaN NaN NaN 79.644 1 80.305 79.805 80.805 0.66082 0 0 0 0.98866 1 36697 36697 7.2892 2.96 1 1123 7596 933 933 1106 1106 0.10593856196851448 APAVSCSFA 9 Unmodified _APAVSCSFA_ 0 0 0 REV__ENSG00000168348|ENST00000307169|INSM2 REV__ENSG00000168348|ENST00000307169|INSM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 426.70111083984375 2 426.699646 851.384739 NaN NaN NaN NaN NaN NaN NaN 64.849 1 64.849 64.349 65.349 0 0 0 0 0.82031 1 30803 30803 8.5933 2.2392 1 + 1124 13343 934 934 1107 1107 -0.04689794825446825 APAVSWLY 8 Unmodified _APAVSWLY_ 0 0 0 nc|ENSG00000154654|O15394-2|NCAM2;ENSG00000154654|ENST00000400546|NCAM2 nc|ENSG00000154654|O15394-2|NCAM2 nc|ENSG00000154654|O15394-2|NCAM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 453.7421875 2 453.739628 905.464704 2.5045 0.0011364 -0.60676 -0.00027531 1.8978 0.00086109 453.74000123918546 74.049 0.32146 74.713 74.575 74.896 0.6644 86 38 3 0 0 0 0.69414 1 34055 34055 6.3541 0 1 948950 1125 3832 935 935 1108 1108 0.008190148400444741 APAVTSSRRKR 11 Unmodified _APAVTSSRRKR_ 0 0 0 REV__ENST00000560125.1_1_15:69737113-69739281:+|nuORF REV__ENST00000560125.1_1_15:69737113-69739281:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 614.865234375 2 614.865277 1227.716 NaN NaN NaN NaN NaN NaN NaN 77.597 1 78.26 77.76 78.76 0.66303 0 0 0 1.0055 1 35760 35760 3.5965 0 1 + 1126 12128 936 936 1109 1109 0.11125206534416066 APAVVEPVVL 10 Unmodified _APAVVEPVVL_ 0 0 0 REV__ENSG00000103326|ENST00000219611|CAPN15 REV__ENSG00000103326|ENST00000219611|CAPN15 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.7440185546875 2 497.302593 992.590633 2.8905 0.0014375 0.89798 0.00044657 3.7885 0.001884 497.3028165383713 76.451 0.22696 77.115 76.965 77.192 0.66387 22 15 2 0 0 0 0.11994 1 35156 35156 18.135 8.0611 1 549670 + 1127 10964 937 937 1110 1110 0.09404101625477779 APAVVEPVVL 10 Unmodified _APAVVEPVVL_ 0 0 0 REV__ENSG00000103326|ENST00000219611|CAPN15 REV__ENSG00000103326|ENST00000219611|CAPN15 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 497.302593 992.590633 3.0519 0.0015177 1.0208 0.00050765 4.0727 0.0020254 497.30298580431304 76.91 0.23468 77.165 77.016 77.251 0.25533 0.025061 6.2106E-05 NaN 18.135 25 16 2 NaN NaN NaN NaN 0 NaN NaN 0 346090 + 1128 10964 937 937 0.09404101625477779 APAVYLYI 8 Unmodified _APAVYLYI_ 0 0 0 REV__nc|ENSG00000159063|Q9BVK2-2|ALG8 REV__nc|ENSG00000159063|Q9BVK2-2|ALG8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.9949951171875 2 455.257654 908.500755 NaN NaN NaN NaN NaN NaN NaN 68.617 1 69.319 68.819 69.819 0.70218 0 0 0 0.91812 1 32733 32733 11.114 0 1 + 1129 12839 938 938 1111 1111 0.04284472016900054 APAWDRRADP 10 Unmodified _APAWDRRADP_ 0 0 0 REV__ENST00000332629.6_1_3:196294085-196295479:-|nuORF REV__ENST00000332629.6_1_3:196294085-196295479:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 577.7918701171875 2 577.788704 1153.56285 NaN NaN NaN NaN NaN NaN NaN 66.058 1 66.058 65.558 66.558 0 0 0 0 0.99687 1 31520 31520 4.3292 0.38484 1 + 1130 15388 939 939 1112 1112 -0.007784085820503606 APAWGLLYYWR 11 Unmodified _APAWGLLYYWR_ 0 0 0 REV__nc|ENSG00000004948|P30988-5|CALCR REV__nc|ENSG00000004948|P30988-5|CALCR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 698.365966796875 2 698.364047 1394.71354 NaN NaN NaN NaN NaN NaN NaN 74.939 1 75.603 75.103 76.103 0.6635 0 0 0 1.0055 1 36252 36252 3.5965 0.31518 1 + 1131 17851 940 940 1113 1113 0.031973580767271415 APAWHHQRKF 10 Unmodified _APAWHHQRKF_ 0 0 0 REV__ENST00000367495.3_1_6:146875744-146875882:+|nuORF REV__ENST00000367495.3_1_6:146875744-146875882:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 639.05029296875 2 639.336156 1276.65776 NaN NaN NaN NaN NaN NaN NaN 47.528 1 47.528 47.028 48.028 0 0 0 0 0.99733 1 21760 21760 3.9444 2.1002 1 + 1132 15659 941 941 1114 1114 0.030495696797970595 APAWHHQRKFH 11 Unmodified _APAWHHQRKFH_ 0 0 0 REV__ENST00000367495.3_1_6:146875744-146875882:+|nuORF REV__ENST00000367495.3_1_6:146875744-146875882:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 707.765869140625 2 707.865612 1413.71667 NaN NaN NaN NaN NaN NaN NaN 96.158 1 96.436 95.936 96.936 0.27778 0 0 0 1.0055 1 44181 44181 3.5965 2.1146 1 + 1133 15659 942 942 1115 1115 0.026360459741226805 APAWLENDYMS 11 Unmodified _APAWLENDYMS_ 0 0 0 REV__ENSG00000197019|ENST00000357949|SERTAD1 REV__ENSG00000197019|ENST00000357949|SERTAD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 648.7820434570312 2 648.781896 1295.54924 NaN NaN NaN NaN NaN NaN NaN 61.75 1 61.75 61.25 62.25 0 0 0 0 1.0055 1 28844 28844 3.5965 1.7523 1 + 1134 14253 943 943 1116 1116 -0.08671447196161353 APAWLVFSL 9 Unmodified _APAWLVFSL_ 0 0 0 REV__ENSG00000180720|ENST00000682254|CHRM4 REV__ENSG00000180720|ENST00000682254|CHRM4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.1749267578125 3 335.191894 1002.55385 1.7258 0.00057849 0.062626 2.0992E-05 1.7885 0.00059948 335.1918473731903 12.679 0.17507 12.987 12.848 13.023 0.30727 7 5 2 0 0 0 0.096915 1 5695 5695 2.7352 0 1 368860 + 1135 13828 944 944 1117 1117 0.05267849799577107 APAWPKQKPCR 11 Unmodified _APAWPKQKPCR_ 0 0 0 ENST00000419348.6_2_11:20385427-20385889:+|nuORF ENST00000419348.6_2_11:20385427-20385889:+|nuORF ENST00000419348.6_2_11:20385427-20385889:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.8271484375 2 641.347874 1280.6812 4.4603 0.0028606 1.3337 0.00085535 5.794 0.003716 641.851202592028 94.833 0.055374 95.092 95.058 95.113 0.25975 4 2 2 0 0 0 0.87362 1 43572 43572 3.5965 0 1 372650 1136 7740 945 945 1118 1118 0.05208247402106281 APAWPSFLFGL 11 Unmodified _APAWPSFLFGL_ 0 0 0 REV__ENST00000266673.9_1_12:72080042-72080174:+|nuORF REV__ENST00000266673.9_1_12:72080042-72080174:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 602.9929809570312 2 603.321317 1204.62808 NaN NaN NaN NaN NaN NaN NaN 74.899 1 75.158 74.658 75.658 0.25831 0 0 0 0.99968 1 34453 34453 6.7232 2.3939 1 + 1137 15040 946 946 1119 1119 0.033951928910710194 APAWPTRRRRS 11 Unmodified _APAWPTRRRRS_ 0 0 0 ENST00000586866.5_2_19:1077961-1079783:+|nuORF ENST00000586866.5_2_19:1077961-1079783:+|nuORF ENST00000586866.5_2_19:1077961-1079783:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.9252014160156 3 451.925204 1352.75378 NaN NaN NaN NaN NaN NaN NaN 72.299 1 73.002 72.502 73.502 0.70386 0 0 0 1.0062 1 34795 34795 2.6312 1.1761 1 1138 9190 947 947 1120 1120 0.09151717519853264 APAWPVWCTAW 11 Unmodified _APAWPVWCTAW_ 0 0 0 REV__ENST00000336486.5_1_10:104157832-104159780:+|nuORF REV__ENST00000336486.5_1_10:104157832-104159780:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 643.8447265625 2 644.302601 1286.59065 NaN NaN NaN NaN NaN NaN NaN 64.298 1 65.014 64.514 65.514 0.71521 0 0 0 1.0055 1 30283 30283 3.5965 0 1 + 1139 15420 948 948 1121 1121 -0.0411822164617206 APAWPWPTWPW 11 Unmodified _APAWPWPTWPW_ 0 0 0 REV__ENST00000369583.3_1_10:112257784-112257883:+|nuORF REV__ENST00000369583.3_1_10:112257784-112257883:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 697.8402709960938 2 697.837665 1393.66078 NaN NaN NaN NaN NaN NaN NaN 74.73 1 74.988 74.488 75.488 0.25831 0 0 0 1.0055 1 34379 34379 3.5965 2.1146 1 + 1140 15708 949 949 1122 1122 -0.020305999860738666 APAWRNRTFC 10 Unmodified _APAWRNRTFC_ 0 0 0 nc|ENSG00000146839|Q9Y493-5|ZAN;nc|ENSG00000146839|Q9Y493-4|ZAN;nc|ENSG00000146839|Q9Y493-3|ZAN;nc|ENSG00000146839|Q9Y493-6|ZAN;nc|ENSG00000146839|Q9Y493-2|ZAN;ENSG00000146839|ENST00000613979|ZAN;nc|ENSG00000146839|Q9Y493-7|ZAN;ZAN|p.N2422Mfs*32|1|0.26|ENSG00000146839|chr7:100789253-100789253|A/-|frameshift_variant nc|ENSG00000146839|Q9Y493-5|ZAN nc|ENSG00000146839|Q9Y493-5|ZAN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.6466064453125 2 611.300924 1220.5873 NaN NaN NaN NaN NaN NaN NaN 68.042 1 68.042 67.542 68.542 0 0 0 0 0.99687 1 32716 32716 4.3292 0.73274 1 1141 3532 950 950 1123 1123 -0.014174717001651516 APAWVLLILGF 11 Unmodified _APAWVLLILGF_ 0 0 0 ENSG00000178033|ENST00000368599|CALHM5 ENSG00000178033|ENST00000368599|CALHM5 ENSG00000178033|ENST00000368599|CALHM5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 600.364990234375 2 600.362985 1198.71142 NaN NaN NaN NaN NaN NaN NaN 74.826 1 75.085 74.585 75.585 0.25831 0 0 0 1.0055 1 34419 34419 3.5965 0 1 1142 5146 951 951 1124 1124 0.1200092933893302 APAYEDDISHQ 11 Unmodified _APAYEDDISHQ_ 0 0 0 REV__ENST00000484214.1_1_1:156263748-156265436:-|nuORF REV__ENST00000484214.1_1_1:156263748-156265436:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 623.2716064453125 2 623.272749 1244.53095 NaN NaN NaN NaN NaN NaN NaN 107.65 1 107.69 107.19 108.19 0.045425 0 0 0 1.0055 1 58179 58179 3.5965 0.31518 1 + 1143 14351 952 952 1125 1125 -0.08153865846520603 APAYFNDAQC 10 Unmodified _APAYFNDAQC_ 0 0 0 ENST00000442006.2_1_1:39174637-39175513:+|nuORF ENST00000442006.2_1_1:39174637-39175513:+|nuORF ENST00000442006.2_1_1:39174637-39175513:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.229736328125 2 550.229299 1098.44404 NaN NaN NaN NaN NaN NaN NaN 82.347 1 82.347 81.847 82.847 0 0 0 0 0.98473 1 41192 41192 7.9102 3.5809 1 1144 7940 953 953 1126 1126 -0.10123943601934116 APAYFNDAQCQ 11 Unmodified _APAYFNDAQCQ_ 0 0 0 ENST00000442006.2_1_1:39174637-39175513:+|nuORF ENST00000442006.2_1_1:39174637-39175513:+|nuORF ENST00000442006.2_1_1:39174637-39175513:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 614.6984252929688 2 614.258588 1226.50262 NaN NaN NaN NaN NaN NaN NaN 60.548 1 61.287 60.787 61.787 0.7396 0 0 0 1.0055 1 27954 27954 3.5965 0 1 1145 7940 954 954 1127 1127 -0.10156887027437733 APAYIPDHSHL 11 Unmodified _APAYIPDHSHL_ 0 0 0 ENSG00000283439|ENST00000636696|SPEM3 ENSG00000283439|ENST00000636696|SPEM3 ENSG00000283439|ENST00000636696|SPEM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 610.8058471679688 2 610.806562 1219.59857 NaN NaN NaN NaN NaN NaN NaN 96.328 1 96.936 96.436 97.436 0.60769 0 0 0 1.0071 1 44293 44293 1.4819 0 1 1146 6371 955 955 1128 1128 -0.0024437112506348058 APAYIRECARM 11 Unmodified _APAYIRECARM_ 0 0 0 ARHGAP19|p.L320M|1|0.26|ENSG00000213390|chr10:97246307-97246307|A/T|missense_variant ARHGAP19|p.L320M|1|0.26|ENSG00000213390|chr10:97246307-97246307|A/T|missense_variant ARHGAP19|p.L320M|1|0.26|ENSG00000213390|chr10:97246307-97246307|A/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 640.8158569335938 2 640.81555 1279.61655 NaN NaN NaN NaN NaN NaN NaN 75.07 1 75.734 75.234 76.234 0.6644 0 0 0 1.0055 1 34575 34575 3.5965 0 1 1147 63 956 956 1129 1129 -0.012076954662461503 APAYLIDLM 9 Unmodified _APAYLIDLM_ 0 0 0 nc|ENSG00000075945|Q92845-4|KIFAP3;nc|ENSG00000075945|Q92845-2|KIFAP3;nc|ENSG00000075945|Q92845-3|KIFAP3;ENSG00000075945|ENST00000361580|KIFAP3 nc|ENSG00000075945|Q92845-4|KIFAP3 nc|ENSG00000075945|Q92845-4|KIFAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.76959228515625 2 503.767529 1005.5205 3.0048 0.0015137 -0.025575 -1.2884E-05 2.9792 0.0015008 503.76753382673724 76.206 0.32382 76.463 76.272 76.596 0.25704 43 22 2 0 0 0 0.27958 1 35087 35087 26.341 6.9023 1 1366800 1148 840 957 957 1130 1130 0.01796479965355502 APAYSIYGRPR 11 Unmodified _APAYSIYGRPR_ 0 0 0 ENSG00000177989|ENST00000329363|ODF3B;nc|ENSG00000177989|A8MYP8-2|CIMAP1B;ENST00000469660.1_1_22:50969089-50970101:-|nuORF ENSG00000177989|ENST00000329363|ODF3B ENSG00000177989|ENST00000329363|ODF3B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 625.49560546875 2 625.835654 1249.65676 NaN NaN NaN NaN NaN NaN NaN 72.539 1 73.203 72.703 73.703 0.66398 0 0 0 1.0038 1 33280 33280 5.7319 0 1 1149 5145 958 958 1131 1131 0.04191310520218394 APAYWRPNSQI 11 Unmodified _APAYWRPNSQI_ 0 0 0 nc|ENSG00000165861|Q9HBF4-2|ZFYVE1;nc|ENSG00000165861|Q9HBF4-3|ZFYVE1;ENSG00000165861|ENST00000556143|ZFYVE1 nc|ENSG00000165861|Q9HBF4-2|ZFYVE1 nc|ENSG00000165861|Q9HBF4-2|ZFYVE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 651.8312377929688 2 651.833111 1301.65167 NaN NaN NaN NaN NaN NaN NaN 73.389 1 74.053 73.553 74.553 0.66398 0 0 0 1.0055 1 33724 33724 3.5965 0.31518 1 1150 4428 959 959 1132 1132 0.012910066576068857 APCASCPDNCD 11 Unmodified _APCASCPDNCD_ 0 0 0 nc|ENSG00000096006|P54108|CRISP3;ENSG00000096006|ENST00000263045|CRISP3;nc|ENSG00000096006|P54108-3|CRISP3 nc|ENSG00000096006|P54108|CRISP3 nc|ENSG00000096006|P54108|CRISP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.1812133789062 2 548.180634 1094.34672 NaN NaN NaN NaN NaN NaN NaN 66.246 1 66.951 66.451 67.451 0.7047 0 0 0 1.0071 1 31393 31393 1.4819 0.68827 1 1151 1124 960 960 1133 1133 -0.19668416864737992 APCEEDEDED 10 Unmodified _APCEEDEDED_ 0 0 0 REV__nc|ENSG00000103932|Q9BWH6-2|RPAP1 REV__nc|ENSG00000103932|Q9BWH6-2|RPAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 576.1864624023438 2 576.187691 1150.36083 NaN NaN NaN NaN NaN NaN NaN 79.019 1 79.019 78.519 79.519 0 0 0 0 0.99983 1 38964 38964 1.8442 1.2427 1 + 1152 10979 961 961 1134 1134 -0.2083376963109913 APCEEDEDEDE 11 Unmodified _APCEEDEDEDE_ 0 0 0 REV__nc|ENSG00000103932|Q9BWH6-2|RPAP1 REV__nc|ENSG00000103932|Q9BWH6-2|RPAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 640.4911499023438 2 640.708987 1279.40342 NaN NaN NaN NaN NaN NaN NaN 95.196 1 95.464 94.964 95.964 0.2675 0 0 0 1.0071 1 43741 43741 1.4819 1.1313 1 + 1153 10979 962 962 1135 1135 -0.22510419293530504 APCPLIRQLRI 11 Unmodified _APCPLIRQLRI_ 0 0 0 Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|131|1|anti-sense Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|131|1|anti-sense Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|131|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.3861694335938 2 640.387 1278.75945 NaN NaN NaN NaN NaN NaN NaN 17.291 1 17.492 16.992 17.992 0.20057 0 0 0 1.0057 1 7648 7648 3.2813 0 1 1154 9377 963 963 1136 1136 0.1312167998730729 APCPPMHACC 10 Unmodified _APCPPMHACC_ 0 0 0 REV__ENST00000291672.5_1_21:47588356-47602573:-|nuORF REV__ENST00000291672.5_1_21:47588356-47602573:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.193115234375 2 515.192293 1028.37003 NaN NaN NaN NaN NaN NaN NaN 61.243 1 61.982 61.482 62.482 0.7396 0 0 0 0.99983 1 28371 28371 1.8442 1.0506 1 + 1155 15128 964 964 1137 1137 -0.14301649561116392 APCRDYPWRFK 11 Unmodified _APCRDYPWRFK_ 0 0 0 nc|ENSG00000154864|Q9H5I5-2|PIEZO2;nc|ENSG00000154864|Q9H5I5|PIEZO2;nc|ENSG00000154864|Q9H5I5-4|PIEZO2;ENSG00000154864|ENST00000674853|PIEZO2 nc|ENSG00000154864|Q9H5I5-2|PIEZO2 nc|ENSG00000154864|Q9H5I5-2|PIEZO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 719.8558349609375 2 719.856064 1437.69757 NaN NaN NaN NaN NaN NaN NaN 61.519 1 61.519 61.019 62.019 0 0 0 0 1.0071 1 28701 28701 1.4819 0 1 1156 3843 965 965 1138 1138 -0.0037667143183170992 APCYGYDE 8 Unmodified _APCYGYDE_ 0 0 0 ENST00000552852.1_1_12:76509499-76509865:+|nuORF ENST00000552852.1_1_12:76509499-76509865:+|nuORF ENST00000552852.1_1_12:76509499-76509865:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 459.1752014160156 2 459.170918 916.327284 NaN NaN NaN NaN NaN NaN NaN 66.928 1 67.632 67.132 68.132 0.7047 0 0 0 0.99035 1 31757 31757 2.8892 0.58649 1 1157 8892 966 966 1139 1139 -0.1342268182169164 APCYGYDE 8 Unmodified _APCYGYDE_ 0 0 0 ENST00000552852.1_1_12:76509499-76509865:+|nuORF ENST00000552852.1_1_12:76509499-76509865:+|nuORF ENST00000552852.1_1_12:76509499-76509865:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 459.13360595703125 2 459.170918 916.327284 NaN NaN NaN NaN NaN NaN NaN 70.824 1 71.527 71.027 72.027 0.70386 0 0 0 0.99035 1 33969 33969 2.8892 2.0956 1 1158 8892 966 966 1140 1140 -0.1342268182169164 APCYGYDE 8 Unmodified _APCYGYDE_ 0 0 0 ENST00000552852.1_1_12:76509499-76509865:+|nuORF ENST00000552852.1_1_12:76509499-76509865:+|nuORF ENST00000552852.1_1_12:76509499-76509865:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 459.25762939453125 2 459.170918 916.327284 NaN NaN NaN NaN NaN NaN NaN 71.751 1 72.009 71.509 72.509 0.25786 0 0 0 0.99035 1 32905 32905 2.8892 2.0956 1 1159 8892 966 966 1141 1141 -0.1342268182169164 APDAKSFVL 9 Unmodified _APDAKSFVL_ 0 0 0 ENST00000425542.5_1_22:38072875-38075753:+|nuORF;ENSG00000100097|ENST00000215909|LGALS1 ENST00000425542.5_1_22:38072875-38075753:+|nuORF ENST00000425542.5_1_22:38072875-38075753:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.264892578125 2 474.263468 946.512382 2.9538 0.0014009 0.24912 0.00011815 3.203 0.001519 474.26354547705654 51.79 0.78533 51.79 51.4 52.185 0 157 51 4 0 0 0 0.0057865 5 23680 23588;23632;23680;23725;23773 90.135 32.927 1 10516000 1160 1175 967 967 1142;1143;1144;1145;1146 1144 0.03698669040238656 APDAKSFVL 9 Unmodified _APDAKSFVL_ 0 0 0 ENST00000425542.5_1_22:38072875-38075753:+|nuORF;ENSG00000100097|ENST00000215909|LGALS1 ENST00000425542.5_1_22:38072875-38075753:+|nuORF ENST00000425542.5_1_22:38072875-38075753:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.2649230957031 2 474.263468 946.512382 2.6876 0.0012747 0.48877 0.00023181 3.1764 0.0015065 474.2636789221413 50.745 0.67275 51.562 51.322 51.994 0.81738 114 39 4 0 0 0 0.010904 5 23098 23046;23098;23147;23200;23253 80.676 29.821 1 7656500 1161 1175 967 967 1147;1148;1149;1150;1151 1148 0.03698669040238656 APDAKSFVL 9 Unmodified _APDAKSFVL_ 0 0 0 ENST00000425542.5_1_22:38072875-38075753:+|nuORF;ENSG00000100097|ENST00000215909|LGALS1 ENST00000425542.5_1_22:38072875-38075753:+|nuORF ENST00000425542.5_1_22:38072875-38075753:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.2648620605469 2 474.263468 946.512382 2.8499 0.0013516 0.37107 0.00017598 3.221 0.0015276 474.26362642911243 51.518 0.7129 51.78 51.566 52.279 0.26227 119 48 4 0 0 0 0.0057865 5 23545 23500;23545;23594;23641;23687 90.135 27.562 1 10809000 1162 1175 967 967 1152;1153;1154;1155;1156 1153 0.03698669040238656 APDAKSFVL 9 Unmodified _APDAKSFVL_ 0 0 0 ENST00000425542.5_1_22:38072875-38075753:+|nuORF;ENSG00000100097|ENST00000215909|LGALS1 ENST00000425542.5_1_22:38072875-38075753:+|nuORF ENST00000425542.5_1_22:38072875-38075753:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.26483154296875 2 474.263468 946.512382 2.8684 0.0013604 0.40646 0.00019277 3.2749 0.0015532 474.2636124158594 50.965 0.77658 51.625 51.315 52.092 0.65956 133 49 4 0 0 0 0.0057865 5 23268 23224;23268;23318;23372;23421 90.135 33.958 1 9569400 1163 1175 967 967 1157;1158;1159;1160;1161 1158 0.03698669040238656 APDAMWEDYEF 11 Unmodified _APDAMWEDYEF_ 0 0 0 ENSG00000103227|ENST00000262301|LMF1;nc|ENSG00000103227|Q96S06-2|LMF1;ENST00000570168.1_1_16:919345-920044:-|nuORF;ENST00000569516.5_1_16:904534-921479:-|nuORF ENSG00000103227|ENST00000262301|LMF1 ENSG00000103227|ENST00000262301|LMF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 458.4922790527344 3 458.516666 1372.52817 NaN NaN NaN NaN NaN NaN NaN 72.739 1 73.403 72.903 73.903 0.66398 0 0 0 1.0071 1 33393 33393 0.50596 0 1 1164 1385 968 968 1162 1162 -0.14319457295687243 APDDHKYLT 9 Unmodified _APDDHKYLT_ 0 0 0 REV__nc|ENSG00000179889|Q6P996-2|PDXDC1 REV__nc|ENSG00000179889|Q6P996-2|PDXDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.2583618164062 2 530.258914 1058.50327 NaN NaN NaN NaN NaN NaN NaN 88.66 1 88.712 88.212 89.212 0.052155 0 0 0 0.89509 1 45231 45231 4.756 0 1 + 1165 13809 969 969 1163 1163 -0.023637243161147126 APDDPIGLFVM 11 Unmodified _APDDPIGLFVM_ 0 0 0 nc|ENSG00000134571|Q14896-2|MYBPC3;ENSG00000134571|ENST00000545968|MYBPC3 nc|ENSG00000134571|Q14896-2|MYBPC3 nc|ENSG00000134571|Q14896-2|MYBPC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.879638671875 2 587.794275 1173.574 NaN NaN NaN NaN NaN NaN NaN 92.46 1 92.46 91.96 92.96 0 0 0 0 1.0034 1 49136 49136 6.2058 0.47393 1 1166 2816 970 970 1164 1164 -0.005847673228117856 APDEAAEAL 9 Unmodified _APDEAAEAL_ 0 0 0 ENSG00000142634|ENST00000375980|EFHD2 ENSG00000142634|ENST00000375980|EFHD2 ENSG00000142634|ENST00000375980|EFHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 886.4185791015625 1 886.415253 885.407977 3.7577 0.0033309 0.77446 0.00068649 4.5322 0.0040174 886.41581743591 36.681 0.2915 36.681 36.548 36.84 0 23 13 2 0 0 0 0.0061269 2 16637 16637;16699 89.427 22.083 1 698840 1167 3323 971 971 1165;1166 1165 -0.03931077507138525 APDEAAEAL 9 Unmodified _APDEAAEAL_ 0 0 0 ENSG00000142634|ENST00000375980|EFHD2 ENSG00000142634|ENST00000375980|EFHD2 ENSG00000142634|ENST00000375980|EFHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 443.71282958984375 2 443.711265 885.407977 2.8573 0.0012678 0.24342 0.00010801 3.1008 0.0013758 443.7113844925927 36.7 0.37615 36.7 36.532 36.908 0 38 17 3 0 0 0 0.0061269 1 16654 16654 89.427 22.083 1 1127600 1168 3323 971 971 1167 1167 -0.03931077507138525 APDEAAEAL 9 Unmodified _APDEAAEAL_ 0 0 0 ENSG00000142634|ENST00000375980|EFHD2 ENSG00000142634|ENST00000375980|EFHD2 ENSG00000142634|ENST00000375980|EFHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 443.7122497558594 2 443.711265 885.407977 2.8765 0.0012763 -0.54957 -0.00024385 2.3269 0.0010325 443.71102706209024 35.812 0.23581 36.603 36.521 36.757 0.79132 18 10 2 0 0 0 0.0061269 1 16245 16245 89.427 22.083 1 2149100 1169 3323 971 971 1168 1168 -0.03931077507138525 APDEAAEAL 9 Unmodified _APDEAAEAL_ 0 0 0 ENSG00000142634|ENST00000375980|EFHD2 ENSG00000142634|ENST00000375980|EFHD2 ENSG00000142634|ENST00000375980|EFHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 886.4198608398438 1 886.415253 885.407977 3.7034 0.0032828 0.10276 9.1086E-05 3.8062 0.0033739 886.4149193600874 35.837 0.13958 36.629 36.585 36.724 0.79131 9 6 2 0 0 0 0.028312 1 16280 16280 57.471 15.377 1 1055300 1170 3323 971 971 1169 1169 -0.03931077507138525 APDEAAEAL 9 Unmodified _APDEAAEAL_ 0 0 0 ENSG00000142634|ENST00000375980|EFHD2 ENSG00000142634|ENST00000375980|EFHD2 ENSG00000142634|ENST00000375980|EFHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 886.4191284179688 1 886.415253 885.407977 3.9369 0.0034897 -0.53368 -0.00047306 3.4032 0.0030166 886.4148411526935 36.556 0.30472 36.813 36.625 36.929 0.25768 21 11 2 0 0 0 0.0061269 3 16637 16608;16637;16696 89.427 23.369 1 1011600 1171 3323 971 971 1170;1171;1172 1171 -0.03931077507138525 APDEAAEAL 9 Unmodified _APDEAAEAL_ 0 0 0 ENSG00000142634|ENST00000375980|EFHD2 ENSG00000142634|ENST00000375980|EFHD2 ENSG00000142634|ENST00000375980|EFHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 443.7125549316406 2 443.711265 885.407977 2.8807 0.0012782 0.016702 7.4108E-06 2.8974 0.0012856 443.7112965768725 36.549 0.39151 36.807 36.599 36.991 0.25768 34 14 3 0 0 0 0.0061269 2 16633 16633;16686 89.427 22.083 1 1971300 1172 3323 971 971 1173;1174 1173 -0.03931077507138525 APDEAAEAL 9 Unmodified _APDEAAEAL_ 0 0 0 ENSG00000142634|ENST00000375980|EFHD2 ENSG00000142634|ENST00000375980|EFHD2 ENSG00000142634|ENST00000375980|EFHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 886.4171142578125 1 886.415253 885.407977 4.0476 0.0035878 -0.26646 -0.00023619 3.7811 0.0033516 886.4145067849361 36.004 0.30288 36.63 36.491 36.794 0.62631 17 9 2 0 0 0 0.00147 2 16485 16485;16542 109.63 24.273 1 1124200 1173 3323 971 971 1175;1176 1175 -0.03931077507138525 APDEAAEAL 9 Unmodified _APDEAAEAL_ 0 0 0 ENSG00000142634|ENST00000375980|EFHD2 ENSG00000142634|ENST00000375980|EFHD2 ENSG00000142634|ENST00000375980|EFHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 443.71240234375 2 443.711265 885.407977 3.1996 0.0014197 -0.31988 -0.00014194 2.8797 0.0012778 443.7111917314911 36.013 0.33396 36.639 36.46 36.794 0.62631 22 10 3 0 0 0 0.012869 1 16515 16515 77.984 10.64 1 1365500 1174 3323 971 971 1177 1177 -0.03931077507138525 APDEDEHFC 9 Unmodified _APDEDEHFC_ 0 0 0 REV__nc|ENSG00000166405|Q7Z5B4-3|RIC3 REV__nc|ENSG00000166405|Q7Z5B4-3|RIC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.87548828125 2 531.695289 1061.37602 NaN NaN NaN NaN NaN NaN NaN 87.222 1 87.262 86.762 87.762 0.039955 0 0 0 0.89509 1 44100 44100 4.756 1.8668 1 + 1175 13235 972 972 1178 1178 -0.15220813252585685 APDEDEWPDEH 11 Unmodified _APDEDEWPDEH_ 0 0 0 REV__ENSG00000225614|ENST00000565624|ZNF469 REV__ENSG00000225614|ENST00000565624|ZNF469 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 670.2583618164062 2 670.257296 1338.50004 NaN NaN NaN NaN NaN NaN NaN 81.759 1 82.007 81.507 82.507 0.24803 0 0 0 1.0071 1 37633 37633 1.4819 0.28856 1 + 1176 14553 973 973 1179 1179 -0.15567063951402815 APDEEWEWAHL 11 Unmodified _APDEEWEWAHL_ 0 0 0 REV__ENSG00000114656|ENST00000645291|CFAP92 REV__ENSG00000114656|ENST00000645291|CFAP92 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 461.5387878417969 3 461.53857 1381.59388 NaN NaN NaN NaN NaN NaN NaN 78.143 1 78.638 78.138 79.138 0.49512 0 0 0 1.0071 1 37952 37952 0.50596 0 1 + 1177 11329 974 974 1180 1180 -0.08165300058453795 APDEKLLTR 9 Unmodified _APDEKLLTR_ 0 0 0 REV__ENST00000598240.1_1_19:19105804-19136912:-|nuORF REV__ENST00000598240.1_1_19:19105804-19136912:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.8765258789062 2 521.798206 1041.58186 NaN NaN NaN NaN NaN NaN NaN 70.463 1 70.463 69.963 70.963 0 0 0 0 0.82031 1 34194 34194 8.5933 0 1 + 1178 10413 975 975 1181 1181 0.0627312798899311 APDESDFFCM 10 Unmodified _APDESDFFCM_ 0 0 0 REV__nc|ENSG00000078596|O43736-2|ITM2A REV__nc|ENSG00000078596|O43736-2|ITM2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.2160034179688 2 581.215 1160.41545 NaN NaN NaN NaN NaN NaN NaN 62.398 1 62.398 61.898 62.898 0 0 0 0 0.96627 1 29242 29242 10.824 7.8287 1 + 1179 10572 976 976 1182 1182 -0.15834429293363428 APDFEWYRDD 10 Unmodified _APDFEWYRDD_ 0 0 0 ENST00000473171.5_1_3:115560650-115561345:-|nuORF;ENSG00000185565|ENST00000490035|LSAMP ENST00000473171.5_1_3:115560650-115561345:-|nuORF ENST00000473171.5_1_3:115560650-115561345:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 657.2760009765625 2 657.275292 1312.53603 NaN NaN NaN NaN NaN NaN NaN 61.66 1 62.391 61.891 62.891 0.73077 0 0 0 0.99983 1 28625 28625 1.8442 0.36234 1 1180 5517 977 977 1183 1183 -0.1077356198391044 APDFSDYSEM 10 Unmodified _APDFSDYSEM_ 0 0 0 nc|ENSG00000115310|Q9NQC3-4|RTN4;ENSG00000115310|ENST00000337526|RTN4;nc|ENSG00000115310|Q9NQC3-6|RTN4 nc|ENSG00000115310|Q9NQC3-4|RTN4 nc|ENSG00000115310|Q9NQC3-4|RTN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.2233276367188 2 581.223879 1160.43321 NaN NaN NaN NaN NaN NaN NaN 81.975 1 81.975 81.475 82.475 0 0 0 0 0.99983 1 40901 40901 1.8442 0 1 1181 1962 978 978 1184 1184 -0.14059390766874458 APDGSASSCDS 11 Unmodified _APDGSASSCDS_ 0 0 0 REV__ENST00000379999.6_1_10:5952955-5953006:+|nuORF REV__ENST00000379999.6_1_10:5952955-5953006:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.4610290527344 2 498.682378 995.350204 NaN NaN NaN NaN NaN NaN NaN 74.733 1 75.397 74.897 75.897 0.6644 0 0 0 1.0057 1 34411 34411 3.2813 0.39209 1 + 1182 15878 979 979 1185 1185 -0.14765707494871094 APDGYMGT 8 Unmodified _APDGYMGT_ 0 0 0 REV__ENST00000495368.1_1_10:12184516-12209761:+|nuORF REV__ENST00000495368.1_1_10:12184516-12209761:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.1007080078125 1 811.329081 810.321804 3.3045 0.0026811 2.8597 0.0023202 6.1643 0.0050012 811.3325135869821 91.276 0.062706 91.276 91.234 91.297 0 14 9 2 0 0 0 0.14111 1 48135 48135 5.7604 0 1 21788000 + 1183 10434 980 980 1186 1186 -0.09094360613482877 APDIDVQL 8 Unmodified _APDIDVQL_ 0 0 0 ENSG00000105373|ENST00000246802|NOP53;ENST00000600410.5_1_19:48257983-48259211:+|nuORF ENSG00000105373|ENST00000246802|NOP53 ENSG00000105373|ENST00000246802|NOP53 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.07354736328125 2 435.732 869.449448 NaN NaN NaN NaN NaN NaN NaN 64.161 1 64.876 64.376 65.376 0.71521 0 0 0 0.38365 1 30195 30195 32.117 11.246 1 1184 1491 981 981 1187 1187 0.00950103252205281 APDLQNSYD 9 Unmodified _APDLQNSYD_ 0 0 0 REV__ENSG00000141449|ENST00000424526|GREB1L REV__ENSG00000141449|ENST00000424526|GREB1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 511.7321472167969 2 511.724904 1021.43525 NaN NaN NaN NaN NaN NaN NaN 90.744 1 90.819 90.319 91.319 0.075279 0 0 0 0.84134 1 46836 46836 7.9102 0.62092 1 + 1185 12289 982 982 1188 1188 -0.07460593966766282 APDLRELDM 9 Unmodified _APDLRELDM_ 0 0 0 REV__ENST00000528705.1_1_19:17950262-17953325:-|nuORF REV__ENST00000528705.1_1_19:17950262-17953325:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.260986328125 2 530.260599 1058.50665 NaN NaN NaN NaN NaN NaN NaN 95.886 1 95.886 95.386 96.386 0 0 0 0 0.84134 1 51759 51759 7.9102 0.62092 1 + 1186 11045 983 983 1189 1189 -0.020267975337446842 APDLSWYNG 9 Unmodified _APDLSWYNG_ 0 0 0 REV__ENSG00000273514|ENST00000622588|FOXD4L6 REV__ENSG00000273514|ENST00000622588|FOXD4L6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.7322998046875 2 511.732532 1021.45051 NaN NaN NaN NaN NaN NaN NaN 91.681 1 91.681 91.181 92.181 0 0 0 0 0.84134 1 48505 48505 7.9102 1.187 1 + 1187 14103 984 984 1190 1190 -0.059356823789016744 APDLSWYNG 9 Unmodified _APDLSWYNG_ 0 0 0 REV__ENSG00000273514|ENST00000622588|FOXD4L6 REV__ENSG00000273514|ENST00000622588|FOXD4L6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 511.91815185546875 2 511.732532 1021.45051 NaN NaN NaN NaN NaN NaN NaN 82.22 1 82.304 81.804 82.804 0.084106 0 0 0 0.84134 1 40569 40569 7.9102 0 1 + 1188 14103 984 984 1191 1191 -0.059356823789016744 APDLTKYVLQ 10 Unmodified _APDLTKYVLQ_ 0 0 0 REV__ENST00000553276.1_1_12:56093317-56093771:-|nuORF REV__ENST00000553276.1_1_12:56093317-56093771:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.32373046875 2 574.321514 1146.62847 NaN NaN NaN NaN NaN NaN NaN 94.562 1 94.562 94.062 95.062 0 0 0 0 0.97102 1 50752 50752 10.074 0.6908 1 + 1189 12017 985 985 1192 1192 0.061025678202895506 APDLWYYDL 9 Unmodified _APDLWYYDL_ 0 0 0 REV__ENST00000524197.1_1_6:72926891-72975792:+|nuORF REV__ENST00000524197.1_1_6:72926891-72975792:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.26953125 2 578.27149 1154.52843 NaN NaN NaN NaN NaN NaN NaN 95.418 1 95.418 94.918 95.918 0 0 0 0 0.84134 1 51371 51371 7.9102 0.62092 1 + 1190 10587 986 986 1193 1193 -0.042656695135292466 APDLYIPTM 9 Unmodified _APDLYIPTM_ 0 0 0 YIF1A|p.E166Afs*31|1|0.3|ENSG00000174851|chr11:66285521-66285525|CACCT/-|frameshift_variant;ENSG00000174851|ENST00000376901|YIF1A YIF1A|p.E166Afs*31|1|0.3|ENSG00000174851|chr11:66285521-66285525|CACCT/-|frameshift_variant YIF1A|p.E166Afs*31|1|0.3|ENSG00000174851|chr11:66285521-66285525|CACCT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.75469970703125 2 510.757161 1019.49977 NaN NaN NaN NaN NaN NaN NaN 78.431 1 78.895 78.395 79.395 0.4642 0 0 0 0.07684 1 38135 38135 46.021 31.439 1 1191 5000 987 987 1194 1194 -0.009201104143016892 APDMFYCMK 9 Unmodified _APDMFYCMK_ 0 0 0 ENST00000569193.1_1_16:46957913-46962906:+|nuORF;ENST00000562801.5_1_16:46950457-46962906:+|nuORF;nc|ENSG00000166123|Q8TD30-2|GPT2;ENSG00000166123|ENST00000340124|GPT2 ENST00000569193.1_1_16:46957913-46962906:+|nuORF ENST00000569193.1_1_16:46957913-46962906:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.0844116210938 2 553.229399 1104.44424 NaN NaN NaN NaN NaN NaN NaN 99.262 1 99.86 99.36 100.36 0.59748 0 0 0 0.89509 1 45888 45888 4.756 0 1 1192 4451 988 988 1195 1195 -0.10379983197935871 APDNVLLTL 9 Unmodified _APDNVLLTL_ 0 0 0 ENSG00000181433|ENST00000370709|SAGE1 ENSG00000181433|ENST00000370709|SAGE1 ENSG00000181433|ENST00000370709|SAGE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.27838134765625 2 478.276575 954.538597 2.4081 0.0011517 0.16967 8.1151E-05 2.5778 0.0012329 478.2764949669741 68.062 0.27251 68.764 68.636 68.909 0.70218 64 36 2 0 0 0 0.024388 1 32444 32444 62.573 6.3957 1 2653700 1193 5290 989 989 1196 1196 0.0595093821170849 APDNVLLTL 9 Unmodified _APDNVLLTL_ 0 0 0 ENSG00000181433|ENST00000370709|SAGE1 ENSG00000181433|ENST00000370709|SAGE1 ENSG00000181433|ENST00000370709|SAGE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 955.55126953125 1 955.545874 954.538597 3.9865 0.0038093 -0.61734 -0.00058989 3.3692 0.0032194 955.5461055366632 68.578 0.31539 68.831 68.643 68.958 0.25227 34 23 2 0 0 0 0.15661 1 31360 31360 26.268 3.5319 1 394160 1194 5290 989 989 1197 1197 0.0595093821170849 APDNVLLTL 9 Unmodified _APDNVLLTL_ 0 0 0 ENSG00000181433|ENST00000370709|SAGE1 ENSG00000181433|ENST00000370709|SAGE1 ENSG00000181433|ENST00000370709|SAGE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.2781066894531 2 478.276575 954.538597 3.3355 0.0015953 0.61084 0.00029215 3.9463 0.0018874 478.2764798164074 68.536 0.4649 68.789 68.587 69.052 0.25227 75 31 3 0 0 0 0.034495 1 31434 31434 53.833 6.0841 1 1734500 1195 5290 989 989 1198 1198 0.0595093821170849 APDNVLLTL 9 Unmodified _APDNVLLTL_ 0 0 0 ENSG00000181433|ENST00000370709|SAGE1 ENSG00000181433|ENST00000370709|SAGE1 ENSG00000181433|ENST00000370709|SAGE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.27783203125 2 478.276575 954.538597 2.9958 0.0014328 0.70422 0.00033681 3.7 0.0017696 478.2765839778464 68.061 0.4458 68.721 68.526 68.971 0.65924 64 29 3 0 0 0 0.024388 2 31150 31150;31196 62.573 6.3957 1 1777000 1196 5290 989 989 1199;1200 1199 0.0595093821170849 APDPHLAPL 9 Unmodified _APDPHLAPL_ 0 0 0 REV__ENST00000492715.1_1_X:48457052-48457226:+|nuORF REV__ENST00000492715.1_1_X:48457052-48457226:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.7572021484375 2 465.75581 929.497067 NaN NaN NaN NaN NaN NaN NaN 39.552 1 39.552 39.052 40.052 0 0 0 0 0.66907 1 17948 17948 13.508 0.97634 1 + 1197 16810 990 990 1201 1201 0.029498022430288984 APDPNCVTV 9 Carbamidomethyl (C) _APDPNC(Carbamidomethyl (C))VTV_ APDPNC(1)VTV APDPNC(48)VTV 0 1 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242169444-242174670:-|nuORF;ENST00000484412.1_1_2:242169018-242170248:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 486.72796630859375 2 486.726392 971.438231 3.1953 0.0015552 0.18335 8.9241E-05 3.3786 0.0016445 486.7266077478438 36.573 0.39133 36.573 36.394 36.785 0 27 17 2 0 0 0 0.048676 1 16587 16587 47.749 19.262 1 387430 1198 1983 991 991 1202 1202 47 -0.04863042113595384 APDQPAAAA 9 Unmodified _APDQPAAAA_ 0 0 0 REV__ENST00000566722.1_1_16:31580383-31580761:-|nuORF REV__ENST00000566722.1_1_16:31580383-31580761:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.3345336914062 1 811.394458 810.387182 2.7008 0.0021914 -3.8076 -0.0030894 -1.1067 -0.000898 811.3914537324529 89.048 0.069443 89.101 89.078 89.147 0.052155 20 12 3 0 0 0 0.10461 1 45533 45533 4.756 0 1 33034000 + 1199 10394 992 992 1203 1203 -0.02559623096146879 APDRHFPLL 9 Unmodified _APDRHFPLL_ 0 0 0 REV__nc|ENSG00000196739|Q8IZC6-3|COL27A1 REV__nc|ENSG00000196739|Q8IZC6-3|COL27A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.2965087890625 2 533.295633 1064.57671 2.7526 0.001468 -1.3961 -0.00074453 1.3565 0.00072342 533.2947981924984 74.298 0.3401 74.962 74.797 75.138 0.6644 89 39 3 0 0 0 0.49692 1 34222 34222 12.532 1.7076 1 2725500 + 1200 14240 993 993 1204 1204 0.04700868917052503 APDRKQRKELY 11 Unmodified _APDRKQRKELY_ 0 0 0 REV__ENSG00000120697|ENST00000239891|ALG5 REV__ENSG00000120697|ENST00000239891|ALG5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 702.3901977539062 2 702.391325 1402.7681 NaN NaN NaN NaN NaN NaN NaN 80.355 1 81.015 80.515 81.515 0.65998 0 0 0 1.0059 1 37028 37028 2.9952 1.5133 1 + 1201 11543 994 994 1205 1205 0.08282325157529158 APDRRVREEV 10 Unmodified _APDRRVREEV_ 0 0 0 REV__ENST00000511056.1_1_5:180480224-180482222:+|nuORF REV__ENST00000511056.1_1_5:180480224-180482222:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.9196166992188 2 613.833643 1225.65273 3.1898 0.001958 3.3453 0.0020534 6.535 0.0040114 614.3374254159944 82.674 0.02887 82.674 82.653 82.682 0 4 2 2 0 0 0 0.12409 1 41455 41455 12.241 0 1 2756500 + 1202 15828 995 995 1206 1206 0.048932210265320464 APDRWQDLERW 11 Unmodified _APDRWQDLERW_ 0 0 0 REV__ENSG00000151835|ENST00000382292|SACS REV__ENSG00000151835|ENST00000382292|SACS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 736.3550415039062 2 736.357482 1470.70041 NaN NaN NaN NaN NaN NaN NaN 86.446 1 86.446 85.946 86.946 0 0 0 0 1.0057 1 44316 44316 3.2813 0.28607 1 + 1203 12633 996 996 1207 1207 -0.016111247733078926 APDSPRSSAPV 11 Unmodified _APDSPRSSAPV_ 0 0 0 ENSG00000159433|ENST00000290607|STARD9 ENSG00000159433|ENST00000290607|STARD9 ENSG00000159433|ENST00000290607|STARD9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.27294921875 2 542.275095 1082.53564 NaN NaN NaN NaN NaN NaN NaN 87.331 1 87.331 86.831 87.831 0 0 0 0 0.98464 1 45003 45003 8.1555 0.24537 1 1204 4024 997 997 1208 1208 -0.0023293691308481357 APDSRALDKL 10 Unmodified _APDSRALDKL_ 0 0 0 nc|ENSG00000291317|P0DTL6-4|ZFTRAF1;ENST00000528558.1_1_8:145677565-145687797:-|nuORF nc|ENSG00000291317|P0DTL6-4|ZFTRAF1 nc|ENSG00000291317|P0DTL6-4|ZFTRAF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.7685546875 2 543.301113 1084.58767 NaN NaN NaN NaN NaN NaN NaN 87.316 1 87.316 86.816 87.816 0 0 0 0 0.96627 1 44991 44991 10.824 1.28 1 1205 8689 998 998 1209 1209 0.04876226500641678 APDSRKRPLET 11 Unmodified _APDSRKRPLET_ 0 0 0 ENSG00000104967|ENST00000263257|NOVA2 ENSG00000104967|ENST00000263257|NOVA2 ENSG00000104967|ENST00000263257|NOVA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 635.5811767578125 2 635.349126 1268.6837 NaN NaN NaN NaN NaN NaN NaN 88.04 1 88.04 87.54 88.54 0 0 0 0 1.0038 1 45577 45577 5.7319 0 1 1206 1463 999 999 1210 1210 0.060103743407808 APDSRNRWD 9 Unmodified _APDSRNRWD_ 0 0 0 ENSG00000198841|ENST00000371614|KTI12 ENSG00000198841|ENST00000371614|KTI12 ENSG00000198841|ENST00000371614|KTI12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.763671875 2 558.762686 1115.51082 NaN NaN NaN NaN NaN NaN NaN 96.435 1 96.435 95.935 96.935 0 0 0 0 0.84134 1 52191 52191 7.9102 0.62092 1 1207 5949 1000 1000 1211 1211 -0.042315719958196496 APDSVEGLL 9 Unmodified _APDSVEGLL_ 0 0 0 ENSG00000197872|ENST00000381323|CYRIA ENSG00000197872|ENST00000381323|CYRIA ENSG00000197872|ENST00000381323|CYRIA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.7381591796875 2 450.737283 899.460012 2.4186 0.0010901 0.54193 0.00024427 2.9605 0.0013344 450.7373806837273 54.503 0.2771 55.298 55.113 55.39 0.79552 29 18 2 0 0 0 0.20384 1 24901 24901 23.148 1.4018 1 598480 1208 5846 1001 1001 1212 1212 0.006260859066401281 APDWFLRARRK 11 Unmodified _APDWFLRARRK_ 0 0 0 REV__ENST00000484092.1_1_3:117716162-117716402:-|nuORF REV__ENST00000484092.1_1_3:117716162-117716402:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 708.4036865234375 2 708.40457 1414.79459 NaN NaN NaN NaN NaN NaN NaN 62.175 1 62.906 62.406 63.406 0.73077 0 0 0 1.0071 1 28946 28946 1.4819 0 1 + 1209 16730 1002 1002 1213 1213 0.10378058839478399 APDWSDQT 8 Unmodified _APDWSDQT_ 0 0 0 REV__nc|ENSG00000170909|Q8IYS5-4|OSCAR REV__nc|ENSG00000170909|Q8IYS5-4|OSCAR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 920.3806762695312 1 919.379202 918.371926 2.7354 0.0025149 -3.0924 -0.0028431 -0.35694 -0.00032817 919.3765741059779 86.549 0.042076 86.579 86.553 86.595 0.030289 9 6 2 0 0 0 0.70146 1 43584 43584 5.7604 0 1 15317000 + 1210 18042 1003 1003 1214 1214 -0.09052534683985414 APDYDFHCKV 10 Unmodified _APDYDFHCKV_ 0 0 0 REV__nc|ENSG00000108852|Q14168-5|MPP2 REV__nc|ENSG00000108852|Q14168-5|MPP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 597.7651977539062 2 597.766049 1193.51754 NaN NaN NaN NaN NaN NaN NaN 17.127 1 17.328 16.828 17.828 0.20057 0 0 0 0.99733 1 7574 7574 3.9444 1.6417 1 + 1211 11161 1004 1004 1215 1215 -0.0714739515947258 APECFEFRHRP 11 Unmodified _APECFEFRHRP_ 0 0 0 REV__nc|ENSG00000168300|Q96MG8-2|PCMTD1 REV__nc|ENSG00000168300|Q96MG8-2|PCMTD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.65380859375 3 463.555789 1387.64554 NaN NaN NaN NaN NaN NaN NaN 61.897 1 61.897 61.397 62.397 0 0 0 0 1.0072 1 28935 28935 1.3296 0.11481 1 + 1212 18032 1005 1005 1216 1216 -0.03277834845584948 APECSHCP 8 Unmodified _APECSHCP_ 0 0 0 REV__ENST00000175756.9_1_2:131132254-131132749:+|nuORF REV__ENST00000175756.9_1_2:131132254-131132749:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.1604309082031 2 422.159831 842.305109 NaN NaN NaN NaN NaN NaN NaN 63.483 1 64.205 63.705 64.705 0.72236 0 0 0 0.99035 1 29740 29740 2.8892 0.58649 1 + 1213 14788 1006 1006 1217 1217 -0.12235184771111562 APECTYDMC 9 Unmodified _APECTYDMC_ 0 0 0 ENST00000558653.5_1_15:49913321-49917342:+|nuORF ENST00000558653.5_1_15:49913321-49917342:+|nuORF ENST00000558653.5_1_15:49913321-49917342:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.60693359375 2 516.677196 1031.33984 NaN NaN NaN NaN NaN NaN NaN 69.083 1 69.785 69.285 70.285 0.70218 0 0 0 0.90511 1 33011 33011 2.3027 0 1 1214 8955 1007 1007 1218 1218 -0.1745772974531974 APECTYDMCF 10 Unmodified _APECTYDMCF_ 0 0 0 ENST00000558653.5_1_15:49913321-49917342:+|nuORF ENST00000558653.5_1_15:49913321-49917342:+|nuORF ENST00000558653.5_1_15:49913321-49917342:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.2090454101562 2 590.211403 1178.40825 NaN NaN NaN NaN NaN NaN NaN 49.654 1 50.476 49.976 50.976 0.82285 0 0 0 0.99983 1 22619 22619 1.8442 0.51471 1 1215 8955 1008 1008 1219 1219 -0.17381485165469712 APEDDIRIRI 10 Unmodified _APEDDIRIRI_ 0 0 0 REV__nc|ENSG00000143622|Q92963-2|RIT1 REV__nc|ENSG00000143622|Q92963-2|RIT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 599.3336181640625 2 599.332944 1196.65134 NaN NaN NaN NaN NaN NaN NaN 64.17 1 64.17 63.67 64.67 0 0 0 0 0.98866 1 30342 30342 7.2892 0 1 + 1216 10007 1009 1009 1220 1220 0.060875869377468916 APEDEDEAW 9 Unmodified _APEDEDEAW_ 0 0 0 nc|ENSG00000204469|P48634-2|PRRC2A;nc|ENSG00000204469|P48634-3|PRRC2A;ENSG00000204469|ENST00000376033|PRRC2A;nc|ENSG00000204469|P48634-4|PRRC2A nc|ENSG00000204469|P48634-2|PRRC2A nc|ENSG00000204469|P48634-2|PRRC2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.5703125 2 531.206544 1060.39853 NaN NaN NaN NaN NaN NaN NaN 60.956 1 61.695 61.195 62.195 0.7396 0 0 0 0.89509 1 28203 28203 4.756 0.42677 1 1217 6011 1010 1010 1221 1221 -0.1292489058330375 APEDLEWERYR 11 Unmodified _APEDLEWERYR_ 0 0 0 ENSG00000089199|ENST00000378961|CHGB ENSG00000089199|ENST00000378961|CHGB ENSG00000089199|ENST00000378961|CHGB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 488.6829833984375 3 488.568641 1462.68409 NaN NaN NaN NaN NaN NaN NaN 61.584 1 61.584 61.084 62.084 0 0 0 0 1.0062 1 28741 28741 2.6312 2.1253 1 1218 1039 1011 1011 1222 1222 -0.028742507300648867 APEDLYHH 8 Unmodified _APEDLYHH_ 0 0 0 ENSG00000088538|ENST00000266037|DOCK3 ENSG00000088538|ENST00000266037|DOCK3 ENSG00000088538|ENST00000266037|DOCK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.276611328125 2 491.224874 980.435195 NaN NaN NaN NaN NaN NaN NaN 62.895 1 62.895 62.395 63.395 0 0 0 0 0.99035 1 29522 29522 5.7604 0 1 1219 1015 1012 1012 1223 1223 -0.05580549176090699 APEDMLKLKEH 11 Unmodified _APEDMLKLKEH_ 0 0 0 REV__ENSG00000047617|ENST00000682330|ANO2 REV__ENSG00000047617|ENST00000682330|ANO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 655.8441162109375 2 655.842287 1309.67002 NaN NaN NaN NaN NaN NaN NaN 69.263 1 69.263 68.763 69.763 0 0 0 0 0.95688 1 33426 33426 10.8 4.5937 1 + 1220 10338 1013 1013 1224 1224 0.027573805173005894 APEDPHELL 9 Unmodified _APEDPHELL_ 0 0 0 ENST00000476898.1_1_X:56258986-56259160:+|nuORF ENST00000476898.1_1_X:56258986-56259160:+|nuORF ENST00000476898.1_1_X:56258986-56259160:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.4279479980469 2 510.753464 1019.49238 NaN NaN NaN NaN NaN NaN NaN 74.336 1 75.022 74.522 75.522 0.68662 0 0 0 0.66907 1 35927 35927 13.508 3.434 1 1221 8238 1014 1014 1225 1225 -0.016591266903787982 APEDRISRKYS 11 Unmodified _APEDRISRKYS_ 0 0 0 PLEKHA7|p.G1041Vfs*31|1|0.13|ENSG00000166689|chr11:16789809-16789809|C/-|frameshift_variant;nc|ENSG00000166689|Q6IQ23|PLEKHA7;nc|ENSG00000166689|Q6IQ23-2|PLEKHA7;ENSG00000166689|ENST00000531066|PLEKHA7 PLEKHA7|p.G1041Vfs*31|1|0.13|ENSG00000166689|chr11:16789809-16789809|C/-|frameshift_variant PLEKHA7|p.G1041Vfs*31|1|0.13|ENSG00000166689|chr11:16789809-16789809|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 661.3461303710938 2 661.346583 1320.67861 NaN NaN NaN NaN NaN NaN NaN 70.723 1 70.723 70.223 71.223 0 0 0 0 1.0038 1 34350 34350 5.7319 0.43497 1 1222 4498 1015 1015 1226 1226 0.031100704781465538 APEDVSGFEQV 11 Unmodified _APEDVSGFEQV_ 0 0 0 REV__ENST00000467906.5_1_6:43030654-43039600:+|nuORF REV__ENST00000467906.5_1_6:43030654-43039600:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.1449584960938 2 589.272218 1176.52988 NaN NaN NaN NaN NaN NaN NaN 73.406 1 73.406 72.906 73.906 0 0 0 0 1.0038 1 35779 35779 5.7319 1.4026 1 + 1223 16559 1016 1016 1227 1227 -0.05132080215412316 APEEDEDEDPS 11 Unmodified _APEEDEDEDPS_ 0 0 0 REV__ENSG00000011451|ENST00000673675|WIZ REV__ENSG00000011451|ENST00000673675|WIZ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.90380859375 2 616.725495 1231.43644 NaN NaN NaN NaN NaN NaN NaN 84.331 1 84.36 83.86 84.86 0.028603 0 0 0 1.0071 1 42043 42043 1.4819 0.15237 1 + 1224 10237 1017 1017 1228 1228 -0.17002469179169566 APEEDEEER 9 Unmodified _APEEDEEER_ 0 0 0 nc|ENSG00000197912|Q9UQ90-2|SPG7;SPG7|p.S560Efs*16|1|0.21|ENSG00000197912|chr16:89550501-89550502|-/A|frameshift_variant;SPG7|p.E567Nfs*25|1|0.31|ENSG00000197912|chr16:89550527-89550527|A/-|frameshift_variant;ENSG00000197912|ENST00000645818|SPG7 nc|ENSG00000197912|Q9UQ90-2|SPG7 nc|ENSG00000197912|Q9UQ90-2|SPG7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.2872924804688 2 552.228007 1102.44146 NaN NaN NaN NaN NaN NaN NaN 61.975 1 62.705 62.205 63.205 0.73077 0 0 0 0.89509 1 28819 28819 4.756 0.42677 1 1225 5849 1018 1018 1229 1229 -0.10566120525891165 APEEEDHVL 9 Unmodified _APEEEDHVL_ 0 0 0 ENSG00000185624|ENST00000331483|P4HB;ENST00000466567.2_1_17:79817024-79818356:-|nuORF ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.742431640625 2 519.740554 1037.46655 3.4618 0.0017992 0.015094 7.8447E-06 3.4769 0.0018071 519.7405345825654 27.853 0.43887 27.853 27.656 28.095 0 126 38 5 0 0 0 7.7444E-06 4 12522 12480;12522;12563;12613 147.83 100.08 1 16605000 1226 5518 1019 1019 1230;1231;1232;1233 1231 -0.050680209326628756 APEEEDHVL 9 Unmodified _APEEEDHVL_ 0 0 0 ENSG00000185624|ENST00000331483|P4HB;ENST00000466567.2_1_17:79817024-79818356:-|nuORF ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.7424926757812 2 519.740554 1037.46655 3.4799 0.0018086 -0.28609 -0.00014869 3.1938 0.0016599 519.7403849952161 26.886 0.39636 27.665 27.514 27.91 0.7787 92 29 4 0 0 0 0.00033079 3 12082 12031;12082;12128 133.7 89.295 1 20311000 1227 5518 1019 1019 1234;1235;1236 1235 -0.050680209326628756 APEEEDHVL 9 Unmodified _APEEEDHVL_ 0 0 0 ENSG00000185624|ENST00000331483|P4HB;ENST00000466567.2_1_17:79817024-79818356:-|nuORF ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 519.7421264648438 2 519.740554 1037.46655 3.3072 0.0017189 0.11593 6.0255E-05 3.4232 0.0017792 519.74059395592 27.622 0.49034 27.884 27.684 28.174 0.26245 104 34 4 0 0 0 7.7444E-06 4 12555 12502;12555;12605;12655 147.83 96.976 1 9140600 1228 5518 1019 1019 1237;1238;1239;1240 1238 -0.050680209326628756 APEEEDHVL 9 Unmodified _APEEEDHVL_ 0 0 0 ENSG00000185624|ENST00000331483|P4HB;ENST00000466567.2_1_17:79817024-79818356:-|nuORF ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 519.7420654296875 2 519.740554 1037.46655 3.2753 0.0017023 0.085423 4.4398E-05 3.3608 0.0017467 519.7406019819008 27.197 0.51746 27.819 27.599 28.117 0.62179 112 35 5 0 0 0 0.00033079 4 12449 12405;12449;12500;12543 133.7 89.295 1 8080500 1229 5518 1019 1019 1241;1242;1243;1244 1242 -0.050680209326628756 APEEEDHVLVL 11 Unmodified _APEEEDHVLVL_ 0 0 0 ENSG00000185624|ENST00000331483|P4HB;ENST00000466567.2_1_17:79817024-79818356:-|nuORF ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 626.32080078125 2 625.816793 1249.61903 3.6534 0.0022863 2.0128 0.0012596 5.6661 0.003546 625.8179964376766 55.901 0.13555 55.901 55.841 55.977 0 13 8 2 0 0 0 0.52054 1 25728 25728 18.146 8.7632 1 479430 1230 5518 1020 1020 1245 1245 0.00420754744095575 APEEHPTLL 9 Unmodified _APEEHPTLL_ 0 0 0 ENSG00000159251|ENST00000290378|ACTC1;ENSG00000143632|ENST00000366684|ACTA1;nc|ENSG00000163017|P63267-2|ACTG2;ENSG00000163017|ENST00000345517|ACTG2;ENSG00000107796|ENST00000224784|ACTA2;ENST00000480297.5_1_10:90700968-90708687:-|nuORF ENSG00000159251|ENST00000290378|ACTC1 ENSG00000159251|ENST00000290378|ACTC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 503.7648620605469 2 503.763832 1005.51311 3.1008 0.0015621 0.491 0.00024735 3.5918 0.0018094 503.76402718362806 39.759 0.32362 39.759 39.616 39.94 0 31 15 3 0 0 0 0.0095519 2 18030 18030;18080 104.8 57.051 1 915660 1231 3384 1021 1021 1246;1247 1246 0.010574636892783928 APEEHPTLL 9 Unmodified _APEEHPTLL_ 0 0 0 ENSG00000159251|ENST00000290378|ACTC1;ENSG00000143632|ENST00000366684|ACTA1;nc|ENSG00000163017|P63267-2|ACTG2;ENSG00000163017|ENST00000345517|ACTG2;ENSG00000107796|ENST00000224784|ACTA2;ENST00000480297.5_1_10:90700968-90708687:-|nuORF ENSG00000159251|ENST00000290378|ACTC1 ENSG00000159251|ENST00000290378|ACTC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.7652893066406 2 503.763832 1005.51311 3.0919 0.0015576 0.26002 0.00013099 3.3519 0.0016886 503.7638919264045 38.692 0.39813 39.49 39.301 39.699 0.79762 42 18 3 0 0 0 0.021401 3 17553 17504;17553;17611 85.357 45.407 1 745590 1232 3384 1021 1021 1248;1249;1250 1249 0.010574636892783928 APEEHPTLL 9 Unmodified _APEEHPTLL_ 0 0 0 ENSG00000159251|ENST00000290378|ACTC1;ENSG00000143632|ENST00000366684|ACTA1;nc|ENSG00000163017|P63267-2|ACTG2;ENSG00000163017|ENST00000345517|ACTG2;ENSG00000107796|ENST00000224784|ACTA2;ENST00000480297.5_1_10:90700968-90708687:-|nuORF ENSG00000159251|ENST00000290378|ACTC1 ENSG00000159251|ENST00000290378|ACTC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.7653503417969 2 503.763832 1005.51311 3.2978 0.0016613 -0.1341 -6.7557E-05 3.1636 0.0015937 503.7640056971971 39.061 0.38411 39.699 39.503 39.887 0.63778 22 13 2 0 0 0 0.02812 1 17875 17875 74.423 34.473 1 561050 1233 3384 1021 1021 1251 1251 0.010574636892783928 APEEHPTLL 9 Unmodified _APEEHPTLL_ 0 0 0 ENSG00000159251|ENST00000290378|ACTC1;ENSG00000143632|ENST00000366684|ACTA1;nc|ENSG00000163017|P63267-2|ACTG2;ENSG00000163017|ENST00000345517|ACTG2;ENSG00000107796|ENST00000224784|ACTA2;ENST00000480297.5_1_10:90700968-90708687:-|nuORF ENSG00000159251|ENST00000290378|ACTC1 ENSG00000159251|ENST00000290378|ACTC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 503.763832 1005.51311 3.2141 0.0016192 0.49282 0.00024826 3.7069 0.0018674 503.76385570725415 39.489 0.41641 39.756 39.546 39.962 0.26696 0.08 0.00016666 NaN 104.8 32 15 3 NaN NaN NaN NaN 0 NaN NaN 0 520870 1234 3384 1021 1021 0.010574636892783928 APEEHPVLL 9 Unmodified _APEEHPVLL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.7759094238281 2 502.7742 1003.53385 2.9918 0.0015042 0.5001 0.00025144 3.4919 0.0017557 502.7746366949255 45.022 0.944 45.022 44.743 45.687 0 160 48 5 0 0 0 1.324E-05 6 20672 20512;20571;20624;20672;20719;20779 146.01 82.444 1 226050000 1235 832;5762 1022 1022 1252;1253;1254;1255;1256;1257 1255 0.032220540689422705 APEEHPVLL 9 Unmodified _APEEHPVLL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1004.5442504882812 1 1004.54112 1003.53385 3.4213 0.0034368 0.38727 0.00038903 3.8085 0.0038258 1004.5412393804835 45.047 0.29124 45.047 44.881 45.172 0 22 13 2 0 0 0 4.5715E-14 2 20578 20578;20634 170.55 116.98 1 1899700 1236 832;5762 1022 1022 1258;1259 1258 0.032220540689422705 APEEHPVLL 9 Unmodified _APEEHPVLL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 502.77606201171875 2 502.7742 1003.53385 2.959 0.0014877 0.082566 4.1512E-05 3.0416 0.0015292 502.7745580007003 43.953 1.3459 44.773 44.287 45.633 0.82075 247 75 5 0 0 0 0.00054818 6 19996 19902;19949;19996;20044;20100;20154 131.3 72.049 1 248000000 1237 832;5762 1022 1022 1260;1261;1262;1263;1264;1265 1262 0.032220540689422705 APEEHPVLL 9 Unmodified _APEEHPVLL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1004.5463256835938 1 1004.54112 1003.53385 3.4492 0.0034648 0.43751 0.0004395 3.8867 0.0039043 1004.541292818632 43.971 0.31491 44.792 44.658 44.973 0.82074 30 21 2 0 0 0 0.0080831 3 20038 19995;20038;20064 85.357 56.87 1 2071100 1238 832;5762 1022 1022 1266;1267;1268 1267 0.032220540689422705 APEEHPVLL 9 Unmodified _APEEHPVLL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.7760009765625 2 502.7742 1003.53385 3.0557 0.0015363 -0.044147 -2.2196E-05 3.0116 0.0015141 502.7744705617878 44.778 1.3077 45.046 44.604 45.912 0.26768 189 56 5 0 0 0 1.1387E-08 6 20432 20377;20432;20481;20531;20575;20623 154.46 90.901 1 249850000 1239 832;5762 1022 1022 1269;1270;1271;1272;1273;1274 1270 0.032220540689422705 APEEHPVLL 9 Unmodified _APEEHPVLL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1004.5457763671875 1 1004.54112 1003.53385 3.3319 0.0033471 -0.48584 -0.00048805 2.8461 0.002859 1004.540662075677 44.752 0.37367 45.02 44.857 45.231 0.26768 38 20 2 0 0 0 3.2716E-05 3 20467 20421;20467;20513 139.54 95.137 1 1839500 1240 832;5762 1022 1022 1275;1276;1277 1276 0.032220540689422705 APEEHPVLL 9 Unmodified _APEEHPVLL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.7758483886719 2 502.7742 1003.53385 NaN NaN NaN NaN NaN NaN NaN 45.665 1 45.933 45.433 46.433 0.26768 0 0 0 0.13032 1 20877 20877 36.044 12.896 1 1241 832;5762 1022 1022 1278 1278 0.032220540689422705 APEEHPVLL 9 Unmodified _APEEHPVLL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.776123046875 2 502.7742 1003.53385 3.3933 0.0017061 0.012568 6.3189E-06 3.4059 0.0017124 502.77450970278034 44.175 1.0779 44.825 44.542 45.62 0.64998 165 45 6 0 0 0 1.1387E-08 6 20229 20172;20229;20278;20323;20381;20576 154.46 90.901 1 248490000 1242 832;5762 1022 1022 1279;1280;1281;1282;1283;1284 1280 0.032220540689422705 APEEHPVLL 9 Unmodified _APEEHPVLL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1004.5470581054688 1 1004.54112 1003.53385 3.8071 0.0038243 -0.11033 -0.00011083 3.6967 0.0037135 1004.5411376646884 44.195 0.35253 44.845 44.662 45.014 0.64998 30 17 2 0 0 0 0.0010612 3 20271 20220;20271;20315 125.62 83.53 1 2070600 1243 832;5762 1022 1022 1285;1286;1287 1286 0.032220540689422705 APEEMDECEQ 10 Unmodified _APEEMDECEQ_ 0 0 0 ENST00000422983.1_1_1:53038862-53039237:+|nuORF ENST00000422983.1_1_1:53038862-53039237:+|nuORF ENST00000422983.1_1_1:53038862-53039237:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.6845092773438 2 590.710279 1179.406 NaN NaN NaN NaN NaN NaN NaN 48.486 1 49.313 48.813 49.813 0.82705 0 0 0 0.99983 1 22088 22088 1.8442 0 1 1244 7774 1023 1023 1288 1288 -0.17652242369558735 APEERPAAL 9 Unmodified _APEERPAAL_ 0 0 0 ENST00000498244.1_1_11:2930522-2930941:+|nuORF;ENSG00000110628|ENST00000649076|SLC22A18 ENST00000498244.1_1_11:2930522-2930941:+|nuORF ENST00000498244.1_1_11:2930522-2930941:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.25750732421875 2 477.256174 952.497795 3.0505 0.0014559 0.34986 0.00016697 3.4003 0.0016228 477.25634205449956 23.082 0.20056 23.722 23.645 23.846 0.64051 38 26 2 0 0 0 0.011692 2 10520 10520;10566 79.596 39.639 1 1842800 1245 1722 1024 1024 1289;1290 1289 0.01964596892071313 APEFAMYYETF 11 Unmodified _APEFAMYYETF_ 0 0 0 ENST00000505020.1_1_5:26881247-26890759:-|nuORF;ENSG00000113100|ENST00000231021|CDH9 ENST00000505020.1_1_5:26881247-26890759:-|nuORF ENST00000505020.1_1_5:26881247-26890759:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 684.7949829101562 2 684.794472 1367.57439 NaN NaN NaN NaN NaN NaN NaN 73.698 1 73.698 73.198 74.198 0 0 0 0 1.0057 1 35954 35954 3.2813 0.28607 1 1246 1834 1025 1025 1291 1291 -0.09469392393634735 APEGLIEATL 10 Unmodified _APEGLIEATL_ 0 0 0 REV__nc|ENSG00000286095|A0A087WV53|SPEGNB REV__nc|ENSG00000286095|A0A087WV53|SPEGNB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.28253173828125 2 507.279315 1012.54408 2.462 0.0012489 0.41368 0.00020985 2.8757 0.0014588 507.2795700393317 70.554 0.7605 70.554 70.338 71.098 0 204 89 3 0 0 0 0.38486 1 34258 34258 25.399 6.0374 1 9309600 + 1247 18170 1026 1026 1292 1292 0.03830617003529824 APEKEPQRLLR 11 Unmodified _APEKEPQRLLR_ 0 0 0 REV__nc|ENSG00000132016|Q0VDD7-2|BRME1 REV__nc|ENSG00000132016|Q0VDD7-2|BRME1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.88623046875 2 668.888418 1335.76228 NaN NaN NaN NaN NaN NaN NaN 63.853 1 64.568 64.068 65.068 0.71521 0 0 0 1.0053 1 29966 29966 7.609 4.6137 1 + 1248 11875 1027 1027 1293 1293 0.10783226645844479 APELDERLVER 11 Unmodified _APELDERLVER_ 0 0 0 ENSG00000223443|ENST00000333796|USP17L2 ENSG00000223443|ENST00000333796|USP17L2 ENSG00000223443|ENST00000333796|USP17L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 663.8567504882812 2 663.854241 1325.69393 NaN NaN NaN NaN NaN NaN NaN 60.383 1 61.132 60.632 61.632 0.74927 0 0 0 1.0038 1 27849 27849 5.7319 2.1354 1 1249 6159 1028 1028 1294 1294 0.04410937275292781 APELKIGSLV 10 Unmodified _APELKIGSLV_ 0 0 0 REV__ENSG00000127603|ENST00000564288|MACF1 REV__ENSG00000127603|ENST00000564288|MACF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.4805908203125 2 513.813325 1025.6121 NaN NaN NaN NaN NaN NaN NaN 60.856 1 61.596 61.096 62.096 0.7396 0 0 0 0.97102 1 28148 28148 10.074 1.4806 1 + 1250 11745 1029 1029 1295 1295 0.10031486654179389 APELPVKV 8 Unmodified _APELPVKV_ 0 0 0 ENST00000533321.1_1_11:57509317-57509464:+|nuORF;ENSG00000211450|ENST00000534355|SELENOH ENST00000533321.1_1_11:57509317-57509464:+|nuORF ENST00000533321.1_1_11:57509317-57509464:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 426.7654113769531 2 426.763104 851.511654 NaN NaN NaN NaN NaN NaN NaN 66.456 1 67.161 66.661 67.661 0.7047 0 0 0 0.99035 1 31506 31506 5.7604 0.52976 1 1251 6078 1030 1030 1296 1296 0.07995874391190227 APEMDIMDYC 10 Unmodified _APEMDIMDYC_ 0 0 0 ENSG00000154124|ENST00000284274|OTULIN ENSG00000154124|ENST00000284274|OTULIN ENSG00000154124|ENST00000284274|OTULIN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 594.3848876953125 2 594.22451 1186.43447 NaN NaN NaN NaN NaN NaN NaN 64.558 1 64.558 64.058 65.058 0 0 0 0 0.99733 1 30611 30611 3.9444 0.94915 1 1252 3802 1031 1031 1297 1297 -0.15129215993965772 APEPGQTGLL 10 Unmodified _APEPGQTGLL_ 0 0 0 ENST00000343846.7_1_1:223465986-223537047:-|nuORF ENST00000343846.7_1_1:223465986-223537047:-|nuORF ENST00000343846.7_1_1:223465986-223537047:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7630920410156 2 491.763832 981.513111 NaN NaN NaN NaN NaN NaN NaN 87.47 1 87.721 87.221 88.221 0.25064 0 0 0 0.99774 1 40257 40257 3.5965 0.70727 1 1253 7097 1032 1032 1298 1298 0.02161463689287757 APEREDMWGDM 11 Unmodified _APEREDMWGDM_ 0 0 0 REV__ENST00000390645.2_1_2:235404469-235404652:-|nuORF REV__ENST00000390645.2_1_2:235404469-235404652:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.7685546875 2 668.768462 1335.52237 NaN NaN NaN NaN NaN NaN NaN 65.275 1 65.984 65.484 66.484 0.70891 0 0 0 1.0057 1 30852 30852 3.2813 1.6287 1 + 1254 15921 1033 1033 1299 1299 -0.13196879079032442 APEREGSPAL 10 Unmodified _APEREGSPAL_ 0 0 0 REV__ENST00000372491.3_1_9:131940446-131940530:-|nuORF REV__ENST00000372491.3_1_9:131940446-131940530:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.76611328125 2 513.764363 1025.51417 3.24 0.0016646 0.29861 0.00015341 3.5386 0.001818 513.7644451266024 44.768 0.4436 45.036 44.83 45.274 0.26768 36 23 2 0 0 0 0.42828 2 20452 20452;20511 23.79 0.64136 1 985880 + 1255 15755 1034 1034 1300;1301 1300 0.0024367805817746557 APETNETVM 9 Unmodified _APETNETVM_ 0 0 0 ENSG00000122299|ENST00000355758|ZC3H7A;ZC3H7A|p.K783Nfs*23|1|0.37|ENSG00000122299|chr16:11758510-11758510|T/-|frameshift_variant ENSG00000122299|ENST00000355758|ZC3H7A ENSG00000122299|ENST00000355758|ZC3H7A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.22601318359375 2 496.223682 990.432811 3.2001 0.001588 -0.07998 -3.9688E-05 3.1201 0.0015483 496.22355326461826 29.14 0.21498 29.758 29.73 29.945 0.61789 28 16 2 0 0 0 0.098156 1 13351 13351 13.906 1.3745 1 416050 1256 2264 1035 1035 1302 1302 -0.06278765696072242 APETNETVM 9 Unmodified _APETNETVM_ 0 0 0 ENSG00000122299|ENST00000355758|ZC3H7A;ZC3H7A|p.K783Nfs*23|1|0.37|ENSG00000122299|chr16:11758510-11758510|T/-|frameshift_variant ENSG00000122299|ENST00000355758|ZC3H7A ENSG00000122299|ENST00000355758|ZC3H7A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 496.223682 990.432811 3.2771 0.0016262 0.14748 7.3181E-05 3.4246 0.0016994 496.2237393893769 29.831 0.21932 29.831 29.713 29.932 0 0.056481 -8.7683E-05 NaN 13.906 24 18 2 NaN NaN NaN NaN 0 NaN NaN 0 315670 1257 2264 1035 1035 -0.06278765696072242 APETNETVM 9 Unmodified _APETNETVM_ 0 0 0 ENSG00000122299|ENST00000355758|ZC3H7A;ZC3H7A|p.K783Nfs*23|1|0.37|ENSG00000122299|chr16:11758510-11758510|T/-|frameshift_variant ENSG00000122299|ENST00000355758|ZC3H7A ENSG00000122299|ENST00000355758|ZC3H7A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 496.223682 990.432811 3.1941 0.001585 0.53291 0.00026445 3.727 0.0018494 496.2237794787657 28.996 0.38105 29.785 29.672 30.053 0.78921 0.010807 0.00029484 NaN 13.906 45 28 2 NaN NaN NaN NaN 0 NaN NaN 0 238700 1258 2264 1035 1035 -0.06278765696072242 APETNETVM 9 Unmodified _APETNETVM_ 0 0 0 ENSG00000122299|ENST00000355758|ZC3H7A;ZC3H7A|p.K783Nfs*23|1|0.37|ENSG00000122299|chr16:11758510-11758510|T/-|frameshift_variant ENSG00000122299|ENST00000355758|ZC3H7A ENSG00000122299|ENST00000355758|ZC3H7A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 496.223682 990.432811 3.3679 0.0016712 0.34666 0.00017202 3.7145 0.0018432 496.22358838803274 29.466 0.37981 29.724 29.553 29.933 0.25804 -0.050769 0.00010999 NaN 13.906 38 24 2 NaN NaN NaN NaN 0 NaN NaN 0 288020 1259 2264 1035 1035 -0.06278765696072242 APEVIVTSVST 11 Unmodified _APEVIVTSVST_ 0 0 0 nc|ENSG00000253910|Q9Y5G2-2|PCDHGB2;ENSG00000253910|ENST00000522605|PCDHGB2 nc|ENSG00000253910|Q9Y5G2-2|PCDHGB2 nc|ENSG00000253910|Q9Y5G2-2|PCDHGB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.803955078125 2 551.803154 1101.59175 NaN NaN NaN NaN NaN NaN NaN 78.168 1 78.168 77.668 78.668 0 0 0 0 0.97175 1 38387 38387 9.3831 1.473 1 1260 6274 1036 1036 1303 1303 0.045022712037280144 APEWPSLWEMH 11 Unmodified _APEWPSLWEMH_ 0 0 0 ENST00000317811.5_1_11:35641796-35641892:+|nuORF ENST00000317811.5_1_11:35641796-35641892:+|nuORF ENST00000317811.5_1_11:35641796-35641892:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 691.8109130859375 2 691.81353 1381.61251 NaN NaN NaN NaN NaN NaN NaN 73.474 1 74.173 73.673 74.673 0.69881 0 0 0 1.0057 1 35440 35440 3.2813 0.54611 1 1261 6914 1037 1037 1304 1304 -0.06303461688276002 APEWQLSMMQF 11 Unmodified _APEWQLSMMQF_ 0 0 0 REV__nc|ENSG00000158987|Q8TEU7-2|RAPGEF6 REV__nc|ENSG00000158987|Q8TEU7-2|RAPGEF6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.8247375488281 3 456.542269 1366.60498 NaN NaN NaN NaN NaN NaN NaN 66.905 1 67.609 67.109 68.109 0.7047 0 0 0 1.0071 1 31744 31744 0.50596 0 1 + 1262 12838 1038 1038 1305 1305 -0.06365937280202161 APFAIEVRRSF 11 Unmodified _APFAIEVRRSF_ 0 0 0 REV__ENST00000454935.1_1_10:102133418-102133601:+|nuORF REV__ENST00000454935.1_1_10:102133418-102133601:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 646.8609008789062 2 646.859129 1291.70371 NaN NaN NaN NaN NaN NaN NaN 87.46 1 87.5 87 88 0.039955 0 0 0 0.94174 1 44287 44287 12.241 2.8575 1 + 1263 16441 1039 1039 1306 1306 0.06952170071372166 APFARRPL 8 Unmodified _APFARRPL_ 0 0 0 REV__ENSG00000112787|ENST00000680143|FBRSL1 REV__ENSG00000112787|ENST00000680143|FBRSL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 309.8563537597656 3 309.855616 926.54502 1.9853 0.00061515 0.85559 0.00026511 2.8409 0.00088026 309.85582358916093 57.505 0.32225 58.274 58.168 58.49 0.76861 65 32 3 0 0 0 0.72814 2 26327 26327;26380 3.5965 3.5965 1 2949200 + 1264 11281 1040 1040 1307;1308 1307 0.07880920953743953 APFCYMIQCW 10 Unmodified _APFCYMIQCW_ 0 0 0 REV__ENST00000358065.4_1_3:4355282-4355324:+|nuORF REV__ENST00000358065.4_1_3:4355282-4355324:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 631.2642211914062 2 631.263773 1260.51299 NaN NaN NaN NaN NaN NaN NaN 64.689 1 65.404 64.904 65.904 0.71521 0 0 0 0.99983 1 30489 30489 1.8442 0 1 + 1265 15576 1041 1041 1309 1309 -0.10684318898211131 APFDLFENRKK 11 Unmodified _APFDLFENRKK_ 0 0 0 nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1;ENST00000554401.1_1_14:102549349-102551760:-|nuORF nc|ENSG00000080824|P07900-2|HSP90AA1 nc|ENSG00000080824|P07900-2|HSP90AA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 682.868896484375 2 682.869694 1363.72483 NaN NaN NaN NaN NaN NaN NaN 82.682 1 82.682 82.182 83.182 0 0 0 0 1.0038 1 41475 41475 5.7319 0 1 1266 913 1042 1042 1310 1310 0.05752135380203072 APFDPALAL 9 Unmodified _APFDPALAL_ 0 0 0 REV__nc|ENSG00000227059|E9PGG2|ANHX REV__nc|ENSG00000227059|E9PGG2|ANHX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.75433349609375 2 457.752736 913.490919 2.5596 0.0011717 0.089401 4.0923E-05 2.649 0.0012126 457.7525894188697 81.022 0.42476 81.27 81.027 81.452 0.24803 53 25 3 0 0 0 0.12301 1 37305 37305 28.487 5.7506 1 1497900 + 1267 14562 1043 1043 1311 1311 0.030712840115029394 APFDPALAL 9 Unmodified _APFDPALAL_ 0 0 0 REV__nc|ENSG00000227059|E9PGG2|ANHX REV__nc|ENSG00000227059|E9PGG2|ANHX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.754150390625 2 457.752736 913.490919 3.004 0.0013751 -0.20468 -9.3695E-05 2.7993 0.0012814 457.75252690152274 80.41 0.39323 81.07 80.884 81.277 0.65998 54 24 3 0 0 0 0.086747 1 37067 37067 36.044 12.896 1 1583000 + 1268 14562 1043 1043 1312 1312 0.030712840115029394 APFDPALAL 9 Unmodified _APFDPALAL_ 0 0 0 REV__nc|ENSG00000227059|E9PGG2|ANHX REV__nc|ENSG00000227059|E9PGG2|ANHX MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 457.752736 913.490919 2.2512 0.0010305 0.4257 0.00019487 2.6769 0.0012254 457.75283674916346 81.166 0.11803 81.166 81.095 81.213 0 -0.0027129 0.00031581 NaN 36.044 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 2709500 + 1269 14562 1043 1043 0.030712840115029394 APFDPALAL 9 Unmodified _APFDPALAL_ 0 0 0 REV__nc|ENSG00000227059|E9PGG2|ANHX REV__nc|ENSG00000227059|E9PGG2|ANHX MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 457.752736 913.490919 2.5596 0.0011717 0.089401 4.0923E-05 2.649 0.0012126 457.7525894188697 81.022 0.42476 81.27 81.027 81.452 0.24803 0.10094 7.931E-06 NaN 36.044 53 25 3 NaN NaN NaN NaN 0 NaN NaN 0 1497900 + 1270 14562 1043 1043 0.030712840115029394 APFDPALAL 9 Unmodified _APFDPALAL_ 0 0 0 REV__nc|ENSG00000227059|E9PGG2|ANHX REV__nc|ENSG00000227059|E9PGG2|ANHX MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 457.752736 913.490919 3.004 0.0013751 -0.20468 -9.3695E-05 2.7993 0.0012814 457.75252690152274 80.41 0.39323 81.07 80.884 81.277 0.65998 -0.098232 -0.00026131 NaN 36.044 54 24 3 NaN NaN NaN NaN 0 NaN NaN 0 1583000 + 1271 14562 1043 1043 0.030712840115029394 APFFFFFFSCW 11 Unmodified _APFFFFFFSCW_ 0 0 0 nc|ENSG00000143093|Q5VSL9-3|STRIP1 nc|ENSG00000143093|Q5VSL9-3|STRIP1 nc|ENSG00000143093|Q5VSL9-3|STRIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 482.46209716796875 3 482.551094 1444.63145 NaN NaN NaN NaN NaN NaN NaN 63.076 1 63.076 62.576 63.576 0 0 0 0 1.0079 1 29630 29630 0.50596 0 1 1272 9677 1044 1044 1313 1313 -0.07307880326538907 APFFPDCAL 9 Unmodified _APFFPDCAL_ 0 0 0 ENSG00000182103|ENST00000329203|FAM181B ENSG00000182103|ENST00000329203|FAM181B ENSG00000182103|ENST00000329203|FAM181B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.733154296875 2 490.730946 979.447339 3.323 0.0016307 0.22753 0.00011165 3.5505 0.0017423 490.73113135213146 48.906 0.31995 49.561 49.371 49.691 0.65524 16 11 2 0 0 0 0.12301 1 22391 22391 28.487 2.1456 1 307780 1273 5311 1045 1045 1314 1314 -0.04320648757277468 APFFPDCAL 9 Unmodified _APFFPDCAL_ 0 0 0 ENSG00000182103|ENST00000329203|FAM181B ENSG00000182103|ENST00000329203|FAM181B ENSG00000182103|ENST00000329203|FAM181B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 490.730946 979.447339 3.2344 0.0015872 0.25686 0.00012605 3.4912 0.0017133 490.73112164012883 49.372 0.30003 49.633 49.427 49.727 0.26146 0.10745 0.00011551 NaN 28.487 17 10 2 NaN NaN NaN NaN 0 NaN NaN 0 387080 1274 5311 1045 1045 -0.04320648757277468 APFFQFDMHER 11 Unmodified _APFFQFDMHER_ 0 0 0 REV__ENST00000566567.1_1_9:138999849-139000686:-|nuORF REV__ENST00000566567.1_1_9:138999849-139000686:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 713.3086547851562 2 712.824429 1423.63431 NaN NaN NaN NaN NaN NaN NaN 62.854 1 62.854 62.354 63.354 0 0 0 0 1.0071 1 29494 29494 1.4819 0 1 + 1275 17424 1046 1046 1315 1315 -0.06056656939722416 APFGPEDYDQV 11 Unmodified _APFGPEDYDQV_ 0 0 0 ENST00000465123.1_1_15:43868526-43869117:-|nuORF ENST00000465123.1_1_15:43868526-43869117:-|nuORF ENST00000465123.1_1_15:43868526-43869117:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.2764892578125 2 619.272218 1236.52988 NaN NaN NaN NaN NaN NaN NaN 63.198 1 63.921 63.421 64.421 0.72236 0 0 0 1.0055 1 29580 29580 3.5965 0 1 1276 8120 1047 1047 1316 1316 -0.07892080215469832 APFKLELVK 9 Unmodified _APFKLELVK_ 0 0 0 REV__nc|ENSG00000284862|Q9UFE4|CCDC39 REV__nc|ENSG00000284862|Q9UFE4|CCDC39 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.899169921875 2 522.826235 1043.63792 NaN NaN NaN NaN NaN NaN NaN 61.922 1 61.922 61.422 62.422 0 0 0 0 0.86044 1 28950 28950 7.2892 0 1 + 1277 18165 1048 1048 1317 1317 0.11784380896460789 APFKRSRVRLK 11 Unmodified _APFKRSRVRLK_ 0 0 0 REV__nc|ENSG00000007174|Q9NYC9-2|DNAH9 REV__nc|ENSG00000007174|Q9NYC9-2|DNAH9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 679.4296875 2 679.430587 1356.84662 NaN NaN NaN NaN NaN NaN NaN 80.759 1 81.419 80.919 81.919 0.65998 0 0 0 1.0071 1 37212 37212 1.4819 0.15237 1 + 1278 10198 1049 1049 1318 1318 0.18247222253262407 APFLILAFLA 10 Unmodified _APFLILAFLA_ 0 0 0 ENSG00000036565|ENST00000276373|SLC18A1;nc|ENSG00000036565|P54219-3|SLC18A1;nc|ENSG00000036565|P54219-2|SLC18A1 ENSG00000036565|ENST00000276373|SLC18A1 ENSG00000036565|ENST00000276373|SLC18A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.3312377929688 2 538.331153 1074.64775 3.2361 0.0017421 -1.561 -0.00084036 1.6751 0.00090174 538.329223349673 37.539 0.3511 37.799 37.572 37.923 0.26083 28 10 4 0 0 0 0.71407 1 17132 17132 12.532 4.6214 1 1492800 1279 514 1050 1050 1319 1319 0.11341568901866594 APFPFLLLQMP 11 Unmodified _APFPFLLLQMP_ 0 0 0 ENST00000336838.10_1_2:55646279-55646603:-|nuORF ENST00000336838.10_1_2:55646279-55646603:-|nuORF ENST00000336838.10_1_2:55646279-55646603:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 637.3527221679688 2 637.354302 1272.69405 NaN NaN NaN NaN NaN NaN NaN 74.446 1 74.446 73.946 74.946 0 0 0 0 1.0055 1 36365 36365 3.5965 0 1 1280 7036 1051 1051 1320 1320 0.06861265741622447 APFPNPQVPS 10 Unmodified _APFPNPQVPS_ 0 0 0 REV__ENST00000549336.5_1_12:48238330-48238510:-|nuORF REV__ENST00000549336.5_1_12:48238330-48238510:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.2725219726562 2 527.271824 1052.5291 NaN NaN NaN NaN NaN NaN NaN 70.224 1 70.224 69.724 70.724 0 0 0 0 0.9754 1 34042 34042 9.3831 1.473 1 + 1281 17271 1052 1052 1321 1321 0.004931699261760514 APFQPQSHSQP 11 Unmodified _APFQPQSHSQP_ 0 0 0 REV__ENST00000215941.8_1_22:38227547-38227820:-|nuORF REV__ENST00000215941.8_1_22:38227547-38227820:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 612.2935180664062 2 612.293819 1222.57309 NaN NaN NaN NaN NaN NaN NaN 83.142 1 83.187 82.687 83.687 0.045006 0 0 0 1.0034 1 41188 41188 6.2058 0.47393 1 + 1282 14801 1053 1053 1322 1322 -0.029298456474862178 APFRCYHFIFH 11 Unmodified _APFRCYHFIFH_ 0 0 0 ENST00000506919.1_1_4:146560261-146567442:+|nuORF;ENSG00000151611|ENST00000649156|MMAA ENST00000506919.1_1_4:146560261-146567442:+|nuORF ENST00000506919.1_1_4:146560261-146567442:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 718.8613891601562 2 719.347874 1436.6812 NaN NaN NaN NaN NaN NaN NaN 84.556 1 84.584 84.084 85.084 0.028603 0 0 0 1.0071 1 42207 42207 1.4819 0 1 1283 3718 1054 1054 1323 1323 -0.019677525979204802 APFRRQRPRE 10 Unmodified _APFRRQRPRE_ 0 0 0 REV__ENST00000296417.5_1_4:100870512-100871362:-|nuORF REV__ENST00000296417.5_1_4:100870512-100871362:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 656.9568481445312 2 656.870894 1311.72723 NaN NaN NaN NaN NaN NaN NaN 108.6 1 108.6 108.1 109.1 0 0 0 0 0.99774 1 59458 59458 3.5965 0 1 + 1284 15151 1055 1055 1324 1324 0.08384028628552187 APFVLERRVWL 11 Unmodified _APFVLERRVWL_ 0 0 0 REV__CCDC174|p.S380Rfs*75|1|0.22|ENSG00000154781|chr3:14670927-14670942|GTCAGATCTCCGGGCT/-|frameshift_variant REV__CCDC174|p.S380Rfs*75|1|0.22|ENSG00000154781|chr3:14670927-14670942|GTCAGATCTCCGGGCT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 462.6062316894531 3 462.60659 1384.79794 NaN NaN NaN NaN NaN NaN NaN 64.974 1 64.974 64.474 65.474 0 0 0 0 1.0071 1 30879 30879 1.4551 0.24029 1 + 1285 9991 1056 1056 1325 1325 0.12093308893508947 APGAAEESDES 11 Unmodified _APGAAEESDES_ 0 0 0 REV__ENSG00000182272|ENST00000329962|B4GALNT4 REV__ENSG00000182272|ENST00000329962|B4GALNT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.7150268554688 2 531.714733 1061.41491 NaN NaN NaN NaN NaN NaN NaN 63.635 1 63.635 63.135 64.135 0 0 0 0 0.95662 1 29968 29968 10.824 2.2306 1 + 1286 13885 1057 1057 1326 1326 -0.11333809417237717 APGAEAYREE 10 Unmodified _APGAEAYREE_ 0 0 0 REV__ENSG00000170925|ENST00000302917|TEX13B REV__ENSG00000170925|ENST00000302917|TEX13B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.75146484375 2 546.751453 1091.48835 NaN NaN NaN NaN NaN NaN NaN 79.222 1 79.222 78.722 79.722 0 0 0 0 0.98473 1 39112 39112 7.9102 0 1 + 1287 13463 1058 1058 1327 1327 -0.05373216184102603 APGAHRRLGR 10 Unmodified _APGAHRRLGR_ 0 0 0 REV__ENST00000309890.11_1_17:3844550-3844841:-|nuORF REV__ENST00000309890.11_1_17:3844550-3844841:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.8201904296875 2 545.820673 1089.62679 NaN NaN NaN NaN NaN NaN NaN 83.987 1 84.65 84.15 85.15 0.66219 0 0 0 0.98473 1 38685 38685 7.9102 2.6795 1 + 1288 15254 1059 1059 1328 1328 0.08556416365559016 APGAPWSRYW 10 Unmodified _APGAPWSRYW_ 0 0 0 ENST00000377814.6_1_13:73302069-73305432:+|nuORF ENST00000377814.6_1_13:73302069-73305432:+|nuORF ENST00000377814.6_1_13:73302069-73305432:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 595.78857421875 2 595.790715 1189.56688 NaN NaN NaN NaN NaN NaN NaN 64.791 1 64.791 64.291 65.291 0 0 0 0 0.98473 1 30765 30765 7.9102 1.187 1 1289 7421 1060 1060 1329 1329 -0.02032319088357326 APGARRRRPV 10 Unmodified _APGARRRRPV_ 0 0 0 REV__ENST00000293778.10_2_17:4642818-4643100:-|nuORF REV__ENST00000293778.10_2_17:4642818-4643100:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.34716796875 2 568.349597 1134.68464 NaN NaN NaN NaN NaN NaN NaN 78.44 1 78.44 77.94 78.94 0 0 0 0 0.99687 1 38550 38550 4.3292 0 1 + 1290 15134 1061 1061 1330 1330 0.12268678290979551 APGARVYSSH 10 Unmodified _APGARVYSSH_ 0 0 0 NCKAP5L|p.D746A|1|0.3|ENSG00000167566|chr12:49795623-49795623|T/G|missense_variant NCKAP5L|p.D746A|1|0.3|ENSG00000167566|chr12:49795623-49795623|T/G|missense_variant NCKAP5L|p.D746A|1|0.3|ENSG00000167566|chr12:49795623-49795623|T/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.7646484375 2 522.764697 1043.51484 NaN NaN NaN NaN NaN NaN NaN 61.442 1 62.181 61.681 62.681 0.7396 0 0 0 0.98473 1 28491 28491 7.9102 0 1 1291 9894 1062 1062 1331 1331 -0.005174825020958451 APGAVHQLRDE 11 Unmodified _APGAVHQLRDE_ 0 0 0 REV__nc|ENSG00000147316|Q8NEM0-2|MCPH1 REV__nc|ENSG00000147316|Q8NEM0-2|MCPH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.5570068359375 2 596.807094 1191.59963 NaN NaN NaN NaN NaN NaN NaN 79.028 1 79.028 78.528 79.528 0 0 0 0 0.99968 1 38969 38969 6.7232 0.51738 1 + 1292 12503 1063 1063 1332 1332 0.011498432438656891 APGCGQRFTNE 11 Unmodified _APGCGQRFTNE_ 0 0 0 nc|ENSG00000170653|P17544-5|ATF7;nc|ENSG00000115966|P15336-3|ATF2;nc|ENSG00000115966|P15336-7|ATF2;nc|ENSG00000170653|P17544-4|ATF7;nc|ENSG00000170653|P17544-2|ATF7;nc|ENSG00000170653|P17544-3|ATF7;ENSG00000170653|ENST00000420353|ATF7;nc|ENSG00000115966|P15336-5|ATF2;nc|ENSG00000170653|P17544-1|ATF7;ENSG00000115966|ENST00000264110|ATF2 nc|ENSG00000170653|P17544-5|ATF7 nc|ENSG00000170653|P17544-5|ATF7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.8456726074219 3 393.845228 1178.51386 NaN NaN NaN NaN NaN NaN NaN 61.845 1 61.845 61.345 62.345 0 0 0 0 1.0055 1 28896 28896 1.4551 0 1 1293 2004 1064 1064 1333 1333 -0.0682606493332969 APGDDYDH 8 Unmodified _APGDDYDH_ 0 0 0 ENSG00000016490|ENST00000394711|CLCA1 ENSG00000016490|ENST00000394711|CLCA1 ENSG00000016490|ENST00000394711|CLCA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 445.1695861816406 2 445.169764 888.324976 NaN NaN NaN NaN NaN NaN NaN 63.525 1 64.248 63.748 64.748 0.72236 0 0 0 0.99035 1 29764 29764 2.8892 0 1 1294 441 1065 1065 1334 1334 -0.12365394235143867 APGEERRRH 9 Unmodified _APGEERRRH_ 0 0 0 REV__nc|ENSG00000115266|O95996-3|APC2 REV__nc|ENSG00000115266|O95996-3|APC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.2919311523438 2 554.291945 1106.56934 NaN NaN NaN NaN NaN NaN NaN 78.289 1 78.753 78.253 79.253 0.4642 0 0 0 0.89315 1 38050 38050 5.2307 0 1 + 1295 11351 1066 1066 1335 1335 0.020315293693329295 APGEHGLAPWE 11 Unmodified _APGEHGLAPWE_ 0 0 0 ENSG00000241484|ENST00000356099|ARHGAP8;nc|ENSG00000241484|P85298-3|ARHGAP8;nc|ENSG00000241484|P85298|ARHGAP8 ENSG00000241484|ENST00000356099|ARHGAP8 ENSG00000241484|ENST00000356099|ARHGAP8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.2770385742188 2 582.277638 1162.54072 NaN NaN NaN NaN NaN NaN NaN 72.104 1 72.767 72.267 73.267 0.66324 0 0 0 1.0034 1 33055 33055 6.2058 1.8765 1 1296 6225 1067 1067 1336 1336 -0.03404633050490702 APGEHRRR 8 Unmodified _APGEHRRR_ 0 0 0 REV__nc|ENSG00000185332|Q8N8V8|TMEM105 REV__nc|ENSG00000185332|Q8N8V8|TMEM105 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.7696838378906 2 489.770649 977.526744 NaN NaN NaN NaN NaN NaN NaN 64.867 1 64.867 64.367 65.367 0 0 0 0 0.99035 1 30815 30815 6.3541 1.1234 1 + 1297 18078 1068 1068 1337 1337 0.03708179031752934 APGEKLGQER 10 Unmodified _APGEKLGQER_ 0 0 0 ENST00000263904.4_1_2:153032177-153032426:-|nuORF ENST00000263904.4_1_2:153032177-153032426:-|nuORF ENST00000263904.4_1_2:153032177-153032426:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.3582763671875 2 542.790912 1083.56727 NaN NaN NaN NaN NaN NaN NaN 65.552 1 66.261 65.761 66.761 0.70891 0 0 0 0.99225 1 31015 31015 6.7232 0 1 1298 6595 1069 1069 1338 1338 0.028830558408344586 APGEPTPASFF 11 Unmodified _APGEPTPASFF_ 0 0 0 nc|ENSG00000099814|Q9Y4F5-3|CEP170B;ENSG00000099814|ENST00000414716|CEP170B;nc|ENSG00000099814|Q9Y4F5|CEP170B nc|ENSG00000099814|Q9Y4F5-3|CEP170B nc|ENSG00000099814|Q9Y4F5-3|CEP170B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.7767944335938 2 560.769114 1119.52368 NaN NaN NaN NaN NaN NaN NaN 71.86 1 71.86 71.36 72.36 0 0 0 0 0.95662 1 34934 34934 10.824 0.75 1 1299 1153 1070 1070 1339 1339 -0.03130553656296797 APGEYMYF 8 Unmodified _APGEYMYF_ 0 0 0 REV__chr6:131726200-131737355|507|34.85|0.76|5.53|+|ENST00000358229|ENPP3,ENPP3 REV__chr6:131726200-131737355|507|34.85|0.76|5.53|+|ENST00000358229|ENPP3,ENPP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.20654296875 2 489.207304 976.400055 NaN NaN NaN NaN NaN NaN NaN 75.614 1 75.614 75.114 76.114 0 0 0 0 0.99035 1 37053 37053 6.3541 0 1 + 1300 10050 1071 1071 1340 1340 -0.08908928028267837 APGFEEEEE 9 Unmodified _APGFEEEEE_ 0 0 0 ENST00000334146.7_2_17:1617148-1617241:-|nuORF;ENST00000609990.5_1_17:1616291-1617241:-|nuORF;ENST00000576749.5_1_17:1615614-1617241:-|nuORF;ENST00000573127.5_1_17:1616011-1617241:-|nuORF;ENST00000571595.5_1_17:1615666-1617241:-|nuORF ENST00000334146.7_2_17:1617148-1617241:-|nuORF ENST00000334146.7_2_17:1617148-1617241:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.0811157226562 2 518.708919 1035.40329 NaN NaN NaN NaN NaN NaN NaN 85.132 1 85.161 84.661 85.661 0.028603 0 0 0 0.89315 1 42578 42578 5.2307 0.90143 1 1301 7016 1072 1072 1341 1341 -0.11300006440546895 APGFEREDQ 9 Unmodified _APGFEREDQ_ 0 0 0 UNK|p.N600Kfs*15|1|0.18|ENSG00000132478|chr17:75820071-75820071|C/-|frameshift_variant;ENSG00000132478|ENST00000589666|UNK UNK|p.N600Kfs*15|1|0.18|ENSG00000132478|chr17:75820071-75820071|C/-|frameshift_variant UNK|p.N600Kfs*15|1|0.18|ENSG00000132478|chr17:75820071-75820071|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.7401123046875 2 524.738345 1047.46214 NaN NaN NaN NaN NaN NaN NaN 62.146 1 62.146 61.646 62.646 0 0 0 0 0.89315 1 29096 29096 5.2307 0 1 1302 2708 1073 1073 1342 1342 -0.05969485355581128 APGFLRMR 8 Unmodified _APGFLRMR_ 0 0 0 ENST00000377716.6_1_9:37903994-37904060:-|nuORF ENST00000377716.6_1_9:37903994-37904060:-|nuORF ENST00000377716.6_1_9:37903994-37904060:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.2674255371094 2 474.265822 946.517091 NaN NaN NaN NaN NaN NaN NaN 81.347 1 81.515 81.015 82.015 0.16862 0 0 0 0.99035 1 39979 39979 6.3541 0.59368 1 1303 7420 1074 1074 1343 1343 0.04169274702007897 APGGFECFHC 10 Unmodified _APGGFECFHC_ 0 0 0 ENSG00000185669|ENST00000332281|SNAI3 ENSG00000185669|ENST00000332281|SNAI3 ENSG00000185669|ENST00000332281|SNAI3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 534.1061401367188 2 534.207312 1066.40007 NaN NaN NaN NaN NaN NaN NaN 60.542 1 61.282 60.782 61.782 0.7396 0 0 0 0.99687 1 27949 27949 4.3292 0 1 1304 5525 1075 1075 1344 1344 -0.13047251299917662 APGGLWEEAS 10 Unmodified _APGGLWEEAS_ 0 0 0 ENST00000562988.5_1_16:2053670-2059708:-|nuORF ENST00000562988.5_1_16:2053670-2059708:-|nuORF ENST00000562988.5_1_16:2053670-2059708:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.7392272949219 2 508.737814 1015.46108 NaN NaN NaN NaN NaN NaN NaN 80.958 1 81.127 80.627 81.627 0.16862 0 0 0 0.98473 1 39732 39732 7.9102 1.187 1 1305 9003 1076 1076 1345 1345 -0.046036997244755185 APGGRADSRGT 11 Unmodified _APGGRADSRGT_ 0 0 0 ENST00000561232.5_1_15:67811374-67814126:-|nuORF ENST00000561232.5_1_15:67811374-67814126:-|nuORF ENST00000561232.5_1_15:67811374-67814126:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.8970947265625 2 522.762686 1043.51082 NaN NaN NaN NaN NaN NaN NaN 60.432 1 60.432 59.932 60.932 0 0 0 0 0.89058 1 28059 28059 17.113 3.605 1 1306 8983 1077 1077 1346 1346 -0.009195719958142945 APGGSGCHGCW 11 Unmodified _APGGSGCHGCW_ 0 0 0 REV__ENST00000262395.9_1_17:27075542-27075632:+|nuORF REV__ENST00000262395.9_1_17:27075542-27075632:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.2042846679688 2 516.194736 1030.37492 NaN NaN NaN NaN NaN NaN NaN 69.698 1 69.698 69.198 70.198 0 0 0 0 1.0055 1 33699 33699 3.5965 0.70727 1 + 1307 14982 1078 1078 1347 1347 -0.13905306102469694 APGGSGGCCCH 11 Unmodified _APGGSGGCCCH_ 0 0 0 ENST00000593685.5_2_19:40321124-40324128:-|nuORF ENST00000593685.5_2_19:40321124-40324128:-|nuORF ENST00000593685.5_2_19:40321124-40324128:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.65899658203125 2 474.659672 947.304791 NaN NaN NaN NaN NaN NaN NaN 75.378 1 76.042 75.542 76.542 0.6635 0 0 0 1.0055 1 36496 36496 3.5965 1.019 1 1308 9258 1079 1079 1348 1348 -0.17096927762611358 APGHLWRDQ 9 Unmodified _APGHLWRDQ_ 0 0 0 ENST00000523948.5_1_8:56686169-56737149:+|nuORF ENST00000523948.5_1_8:56686169-56737149:+|nuORF ENST00000523948.5_1_8:56686169-56737149:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.2734375 2 540.27269 1078.53083 NaN NaN NaN NaN NaN NaN NaN 12.365 1 12.627 12.127 13.127 0.26154 0 0 0 0.90511 1 5333 5333 2.3027 0 1 1309 8661 1080 1080 1349 1349 -0.005297762652162419 APGKSQQRKYI 11 Unmodified _APGKSQQRKYI_ 0 0 0 SDAD1|p.K577Q|1|0.2|ENSG00000198301|chr4:75957558-75957558|T/G|missense_variant SDAD1|p.K577Q|1|0.2|ENSG00000198301|chr4:75957558-75957558|T/G|missense_variant SDAD1|p.K577Q|1|0.2|ENSG00000198301|chr4:75957558-75957558|T/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 638.2310791015625 2 638.362036 1274.70952 NaN NaN NaN NaN NaN NaN NaN 97.601 1 98.2 97.7 98.7 0.59885 0 0 0 1.0034 1 44884 44884 6.2058 0.47393 1 1310 18258 1081 1081 1350 1350 0.08315268583055513 APGLGDFLQL 10 Unmodified _APGLGDFLQL_ 0 0 0 nc|ENSG00000021645|Q9HDB5|NRXN3;ENSG00000021645|ENST00000335750|NRXN3;nc|ENSG00000021645|Q9Y4C0|NRXN3;nc|ENSG00000021645|Q9HDB5-3|NRXN3;nc|ENSG00000021645|Q9HDB5-2|NRXN3;nc|ENSG00000021645|Q9HDB5-4|NRXN3;nc|ENSG00000021645|Q9Y4C0-3|NRXN3;nc|ENSG00000021645|Q9Y4C0-4|NRXN3 nc|ENSG00000021645|Q9HDB5|NRXN3 nc|ENSG00000021645|Q9HDB5|NRXN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.7838745117188 2 515.782025 1029.5495 3.3244 0.0017147 -0.047428 -2.4463E-05 3.277 0.0016902 515.782009653818 77.694 0.36884 77.948 77.777 78.146 0.25335 37 22 2 0 0 0 0.22696 1 35800 35800 36.127 6.2864 1 673840 1311 459 1082 1082 1351 1351 0.035903405860153725 APGLITLEIVP 11 Unmodified _APGLITLEIVP_ 0 0 0 ENSG00000138801|ENST00000265174|PAPSS1 ENSG00000138801|ENST00000265174|PAPSS1 ENSG00000138801|ENST00000265174|PAPSS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.8432006835938 2 561.842082 1121.66961 NaN NaN NaN NaN NaN NaN NaN 97.206 1 97.808 97.308 98.308 0.6019 0 0 0 1.0034 1 44696 44696 6.2058 0 1 1312 3121 1083 1083 1352 1352 0.11364328859735906 APGLKLKKGH 10 Unmodified _APGLKLKKGH_ 0 0 0 REV__ENSG00000092345|ENST00000399444|DAZL REV__ENSG00000092345|ENST00000399444|DAZL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.8334350585938 2 524.834926 1047.6553 NaN NaN NaN NaN NaN NaN NaN 75.128 1 75.792 75.292 76.292 0.6635 0 0 0 0.99983 1 36366 36366 1.8442 1.0506 1 + 1313 10062 1084 1084 1353 1353 0.1333772122211485 APGLLRWQMC 10 Unmodified _APGLLRWQMC_ 0 0 0 REV__ENST00000334527.11_1_17:8370356-8370680:+|nuORF REV__ENST00000334527.11_1_17:8370356-8370680:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.24755859375 2 587.796629 1173.5787 NaN NaN NaN NaN NaN NaN NaN 77.95 1 78.511 78.011 79.011 0.56091 0 0 0 0.98866 1 37854 37854 7.2892 2.0586 1 + 1314 15407 1085 1085 1354 1354 -0.0011416166100843839 APGLPSPLLPQ 11 Unmodified _APGLPSPLLPQ_ 0 0 0 nc|ENSG00000256463|Q9BXA9-3|SALL3;nc|ENSG00000256463|Q9BXA9-4|SALL3;nc|ENSG00000256463|Q9BXA9-2|SALL3;ENSG00000256463|ENST00000537592|SALL3 nc|ENSG00000256463|Q9BXA9-3|SALL3 nc|ENSG00000256463|Q9BXA9-3|SALL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.0194702148438 2 545.318774 1088.623 NaN NaN NaN NaN NaN NaN NaN 75.805 1 76.469 75.969 76.969 0.6635 0 0 0 1.0034 1 36717 36717 6.2058 0 1 1315 6291 1086 1086 1355 1355 0.08222889028479585 APGLVLELVL 10 Unmodified _APGLVLELVL_ 0 0 0 SIAE|p.G9E|1|0.27|ENSG00000110013|chr11:124673683-124673683|C/T|missense_variant SIAE|p.G9E|1|0.27|ENSG00000110013|chr11:124673683-124673683|C/T|missense_variant SIAE|p.G9E|1|0.27|ENSG00000110013|chr11:124673683-124673683|C/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.28857421875 2 512.326068 1022.63758 2.5518 0.0013074 2.3353 0.0011964 4.8871 0.0025038 512.3280373376842 71.202 0.031715 71.202 71.181 71.213 0 4 2 2 0 0 0 0.81125 1 34604 34604 7.9102 2.6795 1 578270 1316 18259 1087 1087 1356 1356 0.12716961176590758 APGMEESNN 9 Unmodified _APGMEESNN_ 0 0 0 REV__ENST00000540725.5_1_11:62622995-62623070:-|nuORF REV__ENST00000540725.5_1_11:62622995-62623070:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 475.0518798828125 2 474.690007 947.36546 NaN NaN NaN NaN NaN NaN NaN 70.441 1 70.441 69.941 70.941 0 0 0 0 0.89315 1 34178 34178 5.2307 0 1 + 1317 17213 1088 1088 1357 1357 -0.11032795907021864 APGMLPFCHLW 11 Unmodified _APGMLPFCHLW_ 0 0 0 ENSG00000268738|ENST00000598963|HSFX2;ENSG00000171116|ENST00000370416|HSFX1 ENSG00000268738|ENST00000598963|HSFX2 ENSG00000268738|ENST00000598963|HSFX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 636.2698364257812 2 636.306829 1270.59911 NaN NaN NaN NaN NaN NaN NaN 83.012 1 83.057 82.557 83.557 0.045006 0 0 0 1.0055 1 41089 41089 3.5965 0 1 1318 4788 1089 1089 1358 1358 -0.025369910011932006 APGMRCGL 8 Unmodified _APGMRCGL_ 0 0 0 nc|ENSG00000253276|Q8N9Z2-2|CCDC71L nc|ENSG00000253276|Q8N9Z2-2|CCDC71L nc|ENSG00000253276|Q8N9Z2-2|CCDC71L MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 804.1077880859375 1 804.38549 803.378214 2.8808 0.0023173 1.5161 0.0012196 4.3969 0.0035368 804.387473715669 83.237 0.086807 83.282 83.209 83.296 0.045006 12 10 2 0 0 0 0.14069 1 41208 41208 6.3541 0 1 16645000 1319 9853 1090 1090 1359 1359 -0.031340112578163826 APGNEQHWPLW 11 Unmodified _APGNEQHWPLW_ 0 0 0 REV__FOCAD|p.P1713Tfs*24|1|0.31|ENSG00000188352|chr9:20990253-20990254|-/G|frameshift_variant REV__FOCAD|p.P1713Tfs*24|1|0.31|ENSG00000188352|chr9:20990253-20990254|-/G|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 667.8168334960938 2 667.817461 1333.62037 NaN NaN NaN NaN NaN NaN NaN 73.824 1 74.51 74.01 75.01 0.68662 0 0 0 1.0071 1 35633 35633 1.4819 0.15237 1 + 1320 14146 1091 1091 1360 1360 -0.03309566376469775 APGNWETHPWC 11 Unmodified _APGNWETHPWC_ 0 0 0 ENST00000481165.5_1_1:32042638-32048843:+|nuORF ENST00000481165.5_1_1:32042638-32048843:+|nuORF ENST00000481165.5_1_1:32042638-32048843:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 649.27685546875 2 649.274572 1296.53459 NaN NaN NaN NaN NaN NaN NaN 73.692 1 73.951 73.451 74.451 0.25876 0 0 0 1.0055 1 33854 33854 3.5965 1.7523 1 1321 8287 1092 1092 1361 1361 -0.10181474553633052 APGQEDEDED 10 Unmodified _APGQEDEDED_ 0 0 0 ENST00000596243.5_1_19:50382536-50391878:+|nuORF ENST00000596243.5_1_19:50382536-50391878:+|nuORF ENST00000596243.5_1_19:50382536-50391878:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.7029418945312 2 552.701822 1103.38909 NaN NaN NaN NaN NaN NaN NaN 61.557 1 62.296 61.796 62.796 0.73901 0 0 0 0.99687 1 28565 28565 4.3292 0.73274 1 1322 9275 1093 1093 1362 1362 -0.1584670365950842 APGQLGRFLQF 11 Unmodified _APGQLGRFLQF_ 0 0 0 REV__ENSG00000105610|ENST00000264834|KLF1 REV__ENSG00000105610|ENST00000264834|KLF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.3388061523438 2 617.340572 1232.66659 NaN NaN NaN NaN NaN NaN NaN 73.182 1 73.182 72.682 73.682 0 0 0 0 1.0034 1 35645 35645 6.2058 0.47393 1 + 1323 11044 1094 1094 1363 1363 0.059564985255974534 APGRGPGLQGI 11 Unmodified _APGRGPGLQGI_ 0 0 0 ENST00000531040.5_1_11:67183149-67186290:+|nuORF ENST00000531040.5_1_11:67183149-67186290:+|nuORF ENST00000531040.5_1_11:67183149-67186290:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.7437744140625 2 511.790715 1021.56688 NaN NaN NaN NaN NaN NaN NaN 61.471 1 61.471 60.971 61.971 0 0 0 0 1.0034 1 28673 28673 6.2058 0.97511 1 1324 8722 1095 1095 1364 1364 0.056956809116513796 APGRLRSLRRS 11 Unmodified _APGRLRSLRRS_ 0 0 0 REV__ENST00000370551.8_1_1:87380589-87538650:+|nuORF REV__ENST00000370551.8_1_1:87380589-87538650:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 634.8509521484375 2 634.886544 1267.75853 NaN NaN NaN NaN NaN NaN NaN 97.267 1 97.557 97.057 98.057 0.28923 0 0 0 1.0055 1 44677 44677 3.5965 0.31518 1 + 1325 15729 1096 1096 1365 1365 0.1353660166262216 APGRNVQLQI 10 Unmodified _APGRNVQLQI_ 0 0 0 REV__ENST00000557781.5_1_12:57498159-57499088:-|nuORF REV__ENST00000557781.5_1_12:57498159-57499088:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.8808898925781 3 365.88049 1094.61964 2.6524 0.00097046 -0.55247 -0.00020214 2.0999 0.00076832 365.8802965058951 15.027 0.46205 15.681 15.538 16 0.65356 78 48 2 0 0 0 0.93372 1 6815 6815 2.086 0 1 215490 + 1326 17338 1097 1097 1366 1366 0.07611638974481139 APGRPCRRER 10 Unmodified _APGRPCRRER_ 0 0 0 REV__ENST00000608402.1_1_4:140478044-140478398:+|nuORF REV__ENST00000608402.1_1_4:140478044-140478398:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 599.3986206054688 2 599.322722 1196.63089 NaN NaN NaN NaN NaN NaN NaN 67.169 1 67.169 66.669 67.669 0 0 0 0 0.98866 1 32159 32159 7.2892 0.56607 1 + 1327 17679 1098 1098 1367 1367 0.040441377969500536 APGRPGPHRQ 10 Unmodified _APGRPGPHRQ_ 0 0 0 nc|ENSG00000146587|Q9NYW8-2|RBAK nc|ENSG00000146587|Q9NYW8-2|RBAK nc|ENSG00000146587|Q9NYW8-2|RBAK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.5004272460938 2 536.791581 1071.56861 NaN NaN NaN NaN NaN NaN NaN 68.807 1 68.807 68.307 69.307 0 0 0 0 0.98866 1 33153 33153 7.2892 0.56607 1 1328 9681 1099 1099 1368 1368 0.03568734720283828 APGRPQEQRSW 11 Unmodified _APGRPQEQRSW_ 0 0 0 ENST00000455157.6_1_3:8669382-8677538:-|nuORF;ENSG00000125046|ENST00000544814|SSUH2;ENST00000420394.5_1_3:8661556-8693727:-|nuORF ENST00000455157.6_1_3:8669382-8677538:-|nuORF ENST00000455157.6_1_3:8669382-8677538:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 656.300048828125 2 656.331267 1310.64798 NaN NaN NaN NaN NaN NaN NaN 74.898 1 74.898 74.398 75.398 0 0 0 0 1.0055 1 36672 36672 3.5965 0 1 1329 2387 1100 1100 1369 1369 0.005083368837631497 APGRRCRRRR 10 Unmodified _APGRRCRRRR_ 0 0 0 ENST00000440016.6_1_2:177001452-177001626:-|nuORF ENST00000440016.6_1_2:177001452-177001626:-|nuORF ENST00000440016.6_1_2:177001452-177001626:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 642.56005859375 2 642.376155 1282.73776 NaN NaN NaN NaN NaN NaN NaN 78.671 1 79.135 78.635 79.635 0.4642 0 0 0 0.99687 1 38281 38281 4.3292 2.0265 1 1330 7929 1101 1101 1370 1370 0.1076973280198672 APGRYDIYQYQ 11 Unmodified _APGRYDIYQYQ_ 0 0 0 nc|ENSG00000124493|Q14833-3|GRM4;nc|ENSG00000124493|Q14833-2|GRM4;nc|ENSG00000124493|Q14833-4|GRM4;ENSG00000124493|ENST00000538487|GRM4;nc|ENSG00000124493|Q14833-5|GRM4 nc|ENSG00000124493|Q14833-3|GRM4 nc|ENSG00000124493|Q14833-3|GRM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 687.3291625976562 2 687.327859 1372.64116 NaN NaN NaN NaN NaN NaN NaN 45.904 1 46.73 46.23 47.23 0.82621 0 0 0 1.0055 1 20906 20906 3.5965 1.7523 1 1331 2362 1102 1102 1371 1371 -0.03025020787504218 APGSCETDDC 10 Unmodified _APGSCETDDC_ 0 0 0 ENSG00000145911|ENST00000274605|N4BP3 ENSG00000145911|ENST00000274605|N4BP3 ENSG00000145911|ENST00000274605|N4BP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.1044921875 2 499.165507 996.316461 NaN NaN NaN NaN NaN NaN NaN 63.765 1 64.484 63.984 64.984 0.71971 0 0 0 0.99687 1 29909 29909 4.3292 1.44 1 1332 3495 1103 1103 1372 1372 -0.1818445225827645 APGSEEFSTAF 11 Unmodified _APGSEEFSTAF_ 0 0 0 REV__nc|ENSG00000007174|Q9NYC9-2|DNAH9 REV__nc|ENSG00000007174|Q9NYC9-2|DNAH9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.86376953125 2 571.753661 1141.49277 NaN NaN NaN NaN NaN NaN NaN 73.628 1 74.292 73.792 74.792 0.6644 0 0 0 0.99968 1 33849 33849 6.7232 1.9672 1 + 1333 10198 1104 1104 1373 1373 -0.07231751761173655 APGSQPLLSR 10 Unmodified _APGSQPLLSR_ 0 0 0 REV__nc|ENSG00000225855|Q66K80-2|RUSC1-AS1 REV__nc|ENSG00000225855|Q66K80-2|RUSC1-AS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.2920532226562 2 513.290548 1024.56654 NaN NaN NaN NaN NaN NaN NaN 72.785 1 73.043 72.543 73.543 0.25876 0 0 0 0.99225 1 33416 33416 6.7232 0.51738 1 + 1334 18139 1105 1105 1374 1374 0.055242611917947215 APGSYDVHKS 10 Unmodified _APGSYDVHKS_ 0 0 0 ENSG00000163116|ENST00000295268|STPG2 ENSG00000163116|ENST00000295268|STPG2 ENSG00000163116|ENST00000295268|STPG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.7987060546875 2 530.756538 1059.49852 NaN NaN NaN NaN NaN NaN NaN 93.673 1 93.673 93.173 94.173 0 0 0 0 0.9754 1 50060 50060 9.3831 2.0939 1 1335 4193 1106 1106 1375 1375 -0.028846084588622034 APGSYDVHKS 10 Unmodified _APGSYDVHKS_ 0 0 0 ENSG00000163116|ENST00000295268|STPG2 ENSG00000163116|ENST00000295268|STPG2 ENSG00000163116|ENST00000295268|STPG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.220947265625 2 530.756538 1059.49852 NaN NaN NaN NaN NaN NaN NaN 95.639 1 95.721 95.221 96.221 0.082001 0 0 0 0.9754 1 50600 50600 9.3831 2.0939 1 1336 4193 1106 1106 1376 1376 -0.028846084588622034 APGVIHMLMQ 10 Unmodified _APGVIHMLMQ_ 0 0 0 ENST00000476479.1_1_7:55479080-55499010:+|nuORF;ENST00000452107.6_1_7:55447520-55499010:+|nuORF;ENSG00000132434|ENST00000254770|LANCL2 ENST00000476479.1_1_7:55479080-55499010:+|nuORF ENST00000476479.1_1_7:55479080-55499010:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.7879638671875 2 548.78573 1095.55691 NaN NaN NaN NaN NaN NaN NaN 95.15 1 95.15 94.65 95.65 0 0 0 0 0.98473 1 51171 51171 7.9102 0.62092 1 1337 2701 1107 1107 1377 1377 0.012950335904179155 APGVKRWRLRW 11 Unmodified _APGVKRWRLRW_ 0 0 0 REV__ENST00000548477.5_1_12:113772796-113772928:-|nuORF REV__ENST00000548477.5_1_12:113772796-113772928:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 712.9238891601562 2 712.922929 1423.83131 NaN NaN NaN NaN NaN NaN NaN 81.483 1 81.483 80.983 81.983 0 0 0 0 0.9645 1 40594 40594 10.074 6.7926 1 + 1338 17261 1108 1108 1378 1378 0.1363435545606535 APGVVPVPVRS 11 Unmodified _APGVVPVPVRS_ 0 0 0 REV__ENST00000471094.1_1_22:41865279-41865348:+|nuORF REV__ENST00000471094.1_1_22:41865279-41865348:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.5463256835938 2 539.324391 1076.63423 NaN NaN NaN NaN NaN NaN NaN 70.54 1 70.54 70.04 71.04 0 0 0 0 0.97175 1 34245 34245 9.3831 0.63772 1 + 1339 16599 1109 1109 1379 1379 0.09897711122607689 APGWEMEMEN 10 Unmodified _APGWEMEMEN_ 0 0 0 ENST00000593308.1_1_19:49127732-49127816:+|nuORF ENST00000593308.1_1_19:49127732-49127816:+|nuORF ENST00000593308.1_1_19:49127732-49127816:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.9745483398438 2 597.233724 1192.45289 NaN NaN NaN NaN NaN NaN NaN 63.829 1 63.829 63.329 64.329 0 0 0 0 0.99687 1 30098 30098 4.3292 0.73274 1 1340 9256 1110 1110 1380 1380 -0.135633380277568 APGWFMKWS 9 Unmodified _APGWFMKWS_ 0 0 0 REV__ENST00000396253.7_1_11:18327777-18327885:-|nuORF REV__ENST00000396253.7_1_11:18327777-18327885:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.0354614257812 2 555.265487 1108.51642 NaN NaN NaN NaN NaN NaN NaN 69.595 1 69.595 69.095 70.095 0 0 0 0 0.89315 1 33626 33626 5.2307 0 1 + 1341 16000 1111 1111 1381 1381 -0.033495647376867055 APGWLFETDE 10 Unmodified _APGWLFETDE_ 0 0 0 REV__ENSG00000090402|ENST00000264382|SI REV__ENSG00000090402|ENST00000264382|SI MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.7636108398438 2 582.764029 1163.5135 NaN NaN NaN NaN NaN NaN NaN 60.978 1 61.718 61.218 62.218 0.7396 0 0 0 0.99687 1 28219 28219 4.3292 0 1 + 1342 10709 1112 1112 1382 1382 -0.06171161381553247 APGWQMEDGD 10 Unmodified _APGWQMEDGD_ 0 0 0 REV__ENST00000551359.5_1_12:56713025-56726878:-|nuORF REV__ENST00000551359.5_1_12:56713025-56726878:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.218017578125 2 553.216388 1104.41822 NaN NaN NaN NaN NaN NaN NaN 67.9 1 68.602 68.102 69.102 0.70218 0 0 0 0.99687 1 32332 32332 4.3292 0.73274 1 + 1343 12020 1113 1113 1383 1383 -0.12980837844202142 APGWQMEDGD 10 Unmodified _APGWQMEDGD_ 0 0 0 REV__ENST00000551359.5_1_12:56713025-56726878:-|nuORF REV__ENST00000551359.5_1_12:56713025-56726878:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.2177124023438 2 553.216388 1104.41822 NaN NaN NaN NaN NaN NaN NaN 71.19 1 71.894 71.394 72.394 0.70386 0 0 0 0.99983 1 34177 34177 1.8442 0.36234 1 + 1344 12020 1113 1113 1384 1384 -0.12980837844202142 APGWTWHGQYC 11 Unmodified _APGWTWHGQYC_ 0 0 0 REV__Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|202|2|anti-sense REV__Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|202|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 652.8893432617188 2 653.277115 1304.53968 NaN NaN NaN NaN NaN NaN NaN 90.854 1 91.527 91.027 92.027 0.67271 0 0 0 1.0071 1 41816 41816 1.4819 0.8804 1 + 1345 17722 1114 1114 1385 1385 -0.10041170691010848 APGYLMEQLIE 11 Unmodified _APGYLMEQLIE_ 0 0 0 REV__nc|ENSG00000027075|P24723-2|PRKCH REV__nc|ENSG00000027075|P24723-2|PRKCH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.3182373046875 2 632.318114 1262.62167 NaN NaN NaN NaN NaN NaN NaN 60.584 1 61.324 60.824 61.824 0.7396 0 0 0 1.0055 1 27979 27979 3.5965 0 1 + 1346 10280 1115 1115 1386 1386 0.0008688687742051115 APHFEESWGQR 11 Unmodified _APHFEESWGQR_ 0 0 0 ENSG00000187033|ENST00000335556|SAMD7 ENSG00000187033|ENST00000335556|SAMD7 ENSG00000187033|ENST00000335556|SAMD7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 448.54241943359375 3 448.542426 1342.60545 NaN NaN NaN NaN NaN NaN NaN 65.358 1 66.067 65.567 66.567 0.70891 0 0 0 1.0071 1 30905 30905 0.50596 0 1 1347 5598 1116 1116 1387 1387 -0.052150582444937754 APHFRVILH 9 Unmodified _APHFRVILH_ 0 0 0 REV__ENST00000326195.12_1_6:30558692-30558890:+|nuORF REV__ENST00000326195.12_1_6:30558692-30558890:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.3194580078125 2 545.319443 1088.62433 NaN NaN NaN NaN NaN NaN NaN 84.444 1 84.444 83.944 84.944 0 0 0 0 0.7971 1 42755 42755 9.3474 0.60203 1 + 1348 15351 1117 1117 1388 1388 0.08356567907890167 APHHHKVKWRR 11 Unmodified _APHHHKVKWRR_ 0 0 0 REV__ENSG00000165661|ENST00000358701|QSOX2 REV__ENSG00000165661|ENST00000358701|QSOX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.9485168457031 3 484.612961 1450.81705 2.6114 0.0012655 4.2312 0.0020505 6.8427 0.003316 484.9482820108047 69.716 0.034569 69.716 69.702 69.737 0 6 4 2 0 0 0 0.9102 1 33717 33717 0.50596 0.051438 1 14745000 + 1349 13176 1118 1118 1389 1389 0.10967703027768039 APHHHKVKWRR 11 Unmodified _APHHHKVKWRR_ 0 0 0 REV__ENSG00000165661|ENST00000358701|QSOX2 REV__ENSG00000165661|ENST00000358701|QSOX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.6165771484375 3 484.612961 1450.81705 NaN NaN NaN NaN NaN NaN NaN 69.407 1 69.407 68.907 69.907 0 0 0 0 1.0071 1 33511 33511 0.50596 0 1 + 1350 13176 1118 1118 1390 1390 0.10967703027768039 APHHLFLSHDD 11 Unmodified _APHHLFLSHDD_ 0 0 0 ENSG00000084774|ENST00000264705|CAD ENSG00000084774|ENST00000264705|CAD ENSG00000084774|ENST00000264705|CAD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.9321899414062 2 644.807094 1287.59963 NaN NaN NaN NaN NaN NaN NaN 70.154 1 70.154 69.654 70.654 0 0 0 0 1.0055 1 33995 33995 3.5965 0 1 1351 963 1119 1119 1391 1391 -0.0326615675614903 APHIIHKL 8 Unmodified _APHIIHKL_ 0 0 0 REV__ENSG00000268235|ENST00000622971|TCP11X1 REV__ENSG00000268235|ENST00000622971|TCP11X1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 310.19671630859375 3 310.19575 927.565421 NaN NaN NaN NaN NaN NaN NaN 26.152 1 26.416 25.916 26.916 0.26489 0 0 0 0.99035 1 11879 11879 0.45834 0 1 + 1352 14522 1120 1120 1392 1392 0.09874091613551172 APHIKILLIII 11 Unmodified _APHIKILLIII_ 0 0 0 REV__nc|ENSG00000174970|Q8NH19|OR10AG1 REV__nc|ENSG00000174970|Q8NH19|OR10AG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 622.4281616210938 2 622.428659 1242.84277 NaN NaN NaN NaN NaN NaN NaN 70.221 1 70.221 69.721 70.721 0 0 0 0 1.0071 1 34040 34040 1.4819 1.0236 1 + 1353 13652 1121 1121 1393 1393 0.23105739706852546 APHIKILLIII 11 Unmodified _APHIKILLIII_ 0 0 0 REV__nc|ENSG00000174970|Q8NH19|OR10AG1 REV__nc|ENSG00000174970|Q8NH19|OR10AG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 622.4273071289062 2 622.428659 1242.84277 NaN NaN NaN NaN NaN NaN NaN 77.667 1 77.667 77.167 78.167 0 0 0 0 1.0071 1 38098 38098 1.4819 1.0236 1 + 1354 13652 1121 1121 1394 1394 0.23105739706852546 APHLRRLLLL 10 Unmodified _APHLRRLLLL_ 0 0 0 REV__ENST00000368632.6_1_6:114281140-114292298:-|nuORF REV__ENST00000368632.6_1_6:114281140-114292298:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.512451171875 2 601.398225 1200.7819 NaN NaN NaN NaN NaN NaN NaN 82.942 1 82.987 82.487 83.487 0.045006 0 0 0 1.0001 1 41035 41035 1.6526 0.17072 1 + 1355 15687 1122 1122 1395 1395 0.18953647447278854 APHLRRLLLL 10 Unmodified _APHLRRLLLL_ 0 0 0 REV__ENST00000368632.6_1_6:114281140-114292298:-|nuORF REV__ENST00000368632.6_1_6:114281140-114292298:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 601.3988647460938 2 601.398225 1200.7819 NaN NaN NaN NaN NaN NaN NaN 82.879 1 83.539 83.039 84.039 0.66019 0 0 0 1.0015 1 38187 38187 0.45834 0 1 + 1356 15687 1122 1122 1396 1396 0.18953647447278854 APHRNAGFYD 10 Unmodified _APHRNAGFYD_ 0 0 0 REV__nc|ENSG00000085276|Q03112-8|MECOM REV__nc|ENSG00000085276|Q03112-8|MECOM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.2667846679688 2 574.267604 1146.52066 NaN NaN NaN NaN NaN NaN NaN 83.051 1 83.299 82.799 83.799 0.24722 0 0 0 0.99733 1 38230 38230 3.9444 1.3669 1 + 1357 10644 1123 1123 1397 1397 -0.046743839904365814 APHRQKWVERI 11 Unmodified _APHRQKWVERI_ 0 0 0 nc|ENSG00000181381|Q5H9U9-2|DDX60L;ENSG00000181381|ENST00000682922|DDX60L nc|ENSG00000181381|Q5H9U9-2|DDX60L nc|ENSG00000181381|Q5H9U9-2|DDX60L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.9372863769531 3 473.93711 1418.7895 NaN NaN NaN NaN NaN NaN NaN 96.829 1 97.107 96.607 97.607 0.27778 0 0 0 1.0071 1 44487 44487 0.50596 0 1 1358 5287 1124 1124 1398 1398 0.09685754976885619 APHRTPQPAK 10 Unmodified _APHRTPQPAK_ 0 0 0 ENSG00000187792|ENST00000341976|ZNF70 ENSG00000187792|ENST00000341976|ZNF70 ENSG00000187792|ENST00000341976|ZNF70 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.4559326171875 2 551.809439 1101.60433 NaN NaN NaN NaN NaN NaN NaN 92.506 1 92.506 92.006 93.006 0 0 0 0 0.96201 1 49172 49172 11.495 1.4208 1 1359 5638 1125 1125 1399 1399 0.05758772177273386 APHTPVPAPD 10 Unmodified _APHTPVPAPD_ 0 0 0 ENSG00000138617|ENST00000649807|PARP16;nc|ENSG00000138617|Q8N5Y8-3|PARP16 ENSG00000138617|ENST00000649807|PARP16 ENSG00000138617|ENST00000649807|PARP16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.2583923339844 2 501.256174 1000.49779 2.4887 0.0012475 1.5376 0.00077072 4.0263 0.0020182 501.2568172940297 77.949 0.48465 77.949 77.582 78.067 0 53 40 2 0 0 0 0.89464 1 38256 38256 3.9444 1.0552 1 1722400 1360 3102 1126 1126 1400 1400 -0.002434031079133092 APHVRELRYP 10 Unmodified _APHVRELRYP_ 0 0 0 REV__ENST00000361682.10_1_22:19948730-19950204:+|nuORF REV__ENST00000361682.10_1_22:19948730-19950204:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.3440551757812 2 619.343646 1236.67274 NaN NaN NaN NaN NaN NaN NaN 77.382 1 77.637 77.137 78.137 0.25533 0 0 0 0.99687 1 35637 35637 4.3292 0.38484 1 + 1361 15628 1127 1127 1401 1401 0.06387016757116726 APIFVIVLLLL 11 Unmodified _APIFVIVLLLL_ 0 0 0 REV__ENSG00000103522|ENST00000337929|IL21R REV__ENSG00000103522|ENST00000337929|IL21R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 605.4244995117188 2 605.91231 1209.81007 NaN NaN NaN NaN NaN NaN NaN 75.809 1 76.473 75.973 76.973 0.6635 0 0 0 1.0071 1 36720 36720 1.4819 1.1313 1 + 1362 10968 1128 1128 1402 1402 0.21355532583993408 APIKKRKQFRR 11 Unmodified _APIKKRKQFRR_ 0 0 0 REV__PCP4L1|p.D65Ifs*35|1|0.36|ENSG00000248485|chr1:161284466-161284466|G/-|frameshift_variant REV__PCP4L1|p.D65Ifs*35|1|0.36|ENSG00000248485|chr1:161284466-161284466|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 714.4559326171875 2 714.457136 1426.89972 NaN NaN NaN NaN NaN NaN NaN 63.186 1 63.186 62.686 63.686 0 0 0 0 1.0071 1 29698 29698 1.4819 0 1 + 1363 18199 1129 1129 1403 1403 0.2033460003590335 APILIFILY 9 Unmodified _APILIFILY_ 0 0 0 REV__ENST00000338592.5_1_7:65617312-65617492:+|nuORF REV__ENST00000338592.5_1_7:65617312-65617492:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.7425537109375 2 531.833529 1061.6525 NaN NaN NaN NaN NaN NaN NaN 73.931 1 74.617 74.117 75.117 0.68662 0 0 0 0.89315 1 35703 35703 5.2307 0.47466 1 + 1364 15437 1130 1130 1404 1404 0.12414453044630136 APILKRAL 8 Unmodified _APILKRAL_ 0 0 0 nc|ENSG00000128578|Q9ULQ0-2|STRIP2;ENSG00000128578|ENST00000249344|STRIP2;ENST00000485775.5_1_1:110582506-110596531:+|nuORF;nc|ENSG00000143093|Q5VSL9-2|STRIP1;ENSG00000143093|ENST00000369795|STRIP1 nc|ENSG00000128578|Q9ULQ0-2|STRIP2 nc|ENSG00000128578|Q9ULQ0-2|STRIP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.3016662597656 2 441.300188 880.585822 2.8819 0.0012718 -0.18298 -8.0748E-05 2.6989 0.001191 441.3001562080646 26.531 0.37697 26.795 26.631 27.008 0.26489 34 27 2 0 0 0 0.26384 1 12048 12048 38.151 6.0342 1 286360 1365 2516 1131 1131 1405 1405 0.14075262273365752 APILKRAL 8 Unmodified _APILKRAL_ 0 0 0 nc|ENSG00000128578|Q9ULQ0-2|STRIP2;ENSG00000128578|ENST00000249344|STRIP2;ENST00000485775.5_1_1:110582506-110596531:+|nuORF;nc|ENSG00000143093|Q5VSL9-2|STRIP1;ENSG00000143093|ENST00000369795|STRIP1 nc|ENSG00000128578|Q9ULQ0-2|STRIP2 nc|ENSG00000128578|Q9ULQ0-2|STRIP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.30120849609375 2 441.300188 880.585822 2.9886 0.0013189 0.28173 0.00012433 3.2704 0.0014432 441.3003812243215 26.102 0.19549 26.727 26.637 26.832 0.62505 21 13 2 0 0 0 0.37185 1 11978 11978 30.225 5.5509 1 360150 1366 2516 1131 1131 1406 1406 0.14075262273365752 APILKRAL 8 Unmodified _APILKRAL_ 0 0 0 nc|ENSG00000128578|Q9ULQ0-2|STRIP2;ENSG00000128578|ENST00000249344|STRIP2;ENST00000485775.5_1_1:110582506-110596531:+|nuORF;nc|ENSG00000143093|Q5VSL9-2|STRIP1;ENSG00000143093|ENST00000369795|STRIP1 nc|ENSG00000128578|Q9ULQ0-2|STRIP2 nc|ENSG00000128578|Q9ULQ0-2|STRIP2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 441.300188 880.585822 3.0242 0.0013346 -0.5487 -0.00024214 2.4755 0.0010924 441.3000086947957 26.881 0.28095 26.881 26.765 27.046 0 0.11064 -0.00036773 NaN 38.151 24 16 2 NaN NaN NaN NaN 0 NaN NaN 0 141540 1367 2516 1131 1131 0.14075262273365752 APILKRAL 8 Unmodified _APILKRAL_ 0 0 0 nc|ENSG00000128578|Q9ULQ0-2|STRIP2;ENSG00000128578|ENST00000249344|STRIP2;ENST00000485775.5_1_1:110582506-110596531:+|nuORF;nc|ENSG00000143093|Q5VSL9-2|STRIP1;ENSG00000143093|ENST00000369795|STRIP1 nc|ENSG00000128578|Q9ULQ0-2|STRIP2 nc|ENSG00000128578|Q9ULQ0-2|STRIP2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 441.300188 880.585822 2.6814 0.0011833 -0.0039732 -1.7534E-06 2.6774 0.0011816 441.3000277757725 25.913 0.16191 26.676 26.601 26.763 0.76357 -0.093623 0.00011304 NaN 38.151 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 134640 1368 2516 1131 1131 0.14075262273365752 APILKRQREEY 11 Unmodified _APILKRQREEY_ 0 0 0 ENSG00000047410|ENST00000367478|TPR;TPR|p.E1017Rfs*5|1|0.04|ENSG00000047410|chr1:186346182-186346183|-/G|frameshift_variant;nc|ENSG00000047410|P12270-2|TPR ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 701.8943481445312 2 701.8937 1401.77285 NaN NaN NaN NaN NaN NaN NaN 105.09 1 105.69 105.19 106.19 0.59885 0 0 0 1.0071 1 48537 48537 1.4819 0 1 1369 557 1132 1132 1407 1407 0.08803209300276649 APILLTAIDTR 11 Unmodified _APILLTAIDTR_ 0 0 0 REV__ENSG00000142798|ENST00000374695|HSPG2 REV__ENSG00000142798|ENST00000374695|HSPG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.3566284179688 2 592.355888 1182.69722 NaN NaN NaN NaN NaN NaN NaN 82.551 1 82.635 82.135 83.135 0.084106 0 0 0 1.0044 1 40779 40779 4.897 0.56777 1 + 1370 12347 1133 1133 1408 1408 0.11318232119970162 APILRRKKKKK 11 Unmodified _APILRRKKKKK_ 0 0 0 nc|ENSG00000114923|P48751-3|SLC4A3;ENSG00000114923|ENST00000358055|SLC4A3;nc|ENSG00000114923|P48751-2|SLC4A3 nc|ENSG00000114923|P48751-3|SLC4A3 nc|ENSG00000114923|P48751-3|SLC4A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 455.89898681640625 3 455.989146 1364.94561 NaN NaN NaN NaN NaN NaN NaN 74.06 1 74.319 73.819 74.819 0.25876 0 0 0 1.0079 1 34038 34038 0.50596 0.051438 1 1371 1930 1134 1134 1409 1409 0.2777324521814535 APIQTRRRLRR 11 Unmodified _APIQTRRRLRR_ 0 0 0 REV__ENST00000243082.4_1_12:54367506-54369194:+|nuORF REV__ENST00000243082.4_1_12:54367506-54369194:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 711.9505004882812 2 711.947467 1421.88038 NaN NaN NaN NaN NaN NaN NaN 66.33 1 66.33 65.83 66.83 0 0 0 0 1.0071 1 31689 31689 1.4819 0.15237 1 + 1372 14884 1135 1135 1410 1410 0.18631643744993198 APIRIQTWRTF 11 Unmodified _APIRIQTWRTF_ 0 0 0 ENST00000425380.6_1_11:125757366-125757513:+|nuORF ENST00000425380.6_1_11:125757366-125757513:+|nuORF ENST00000425380.6_1_11:125757366-125757513:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 694.893310546875 2 694.893503 1387.77245 NaN NaN NaN NaN NaN NaN NaN 105.28 1 105.6 105.1 106.1 0.31782 0 0 0 1.0073 1 48600 48600 1.1933 0.12188 1 1373 7795 1136 1136 1411 1411 0.09407834371040735 APIRRRVLPP 10 Unmodified _APIRRRVLPP_ 0 0 0 ENST00000269856.4_1_19:4793890-4794037:+|nuORF ENST00000269856.4_1_19:4793890-4794037:+|nuORF ENST00000269856.4_1_19:4793890-4794037:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.813232421875 2 587.880199 1173.74584 NaN NaN NaN NaN NaN NaN NaN 78.976 1 79.441 78.941 79.941 0.4642 0 0 0 0.99983 1 38494 38494 1.8442 0 1 1374 6647 1137 1137 1412 1412 0.1659219027042127 APIRRTVFVK 10 Unmodified _APIRRTVFVK_ 0 0 0 REV__ENST00000493368.5_1_9:37422741-37424891:+|nuORF REV__ENST00000493368.5_1_9:37422741-37424891:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 594.3573608398438 2 593.874582 1185.73461 NaN NaN NaN NaN NaN NaN NaN 17.206 1 17.206 16.706 17.706 0 0 0 0 0.99983 1 7640 7640 1.8442 0 1 + 1375 12099 1138 1138 1413 1413 0.14917368176247692 APIYLKRL 8 Unmodified _APIYLKRL_ 0 0 0 ENSG00000092148|ENST00000399332|HECTD1 ENSG00000092148|ENST00000399332|HECTD1 ENSG00000092148|ENST00000399332|HECTD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.31854248046875 2 487.313295 972.612037 NaN NaN NaN NaN NaN NaN NaN 70.304 1 71.007 70.507 71.507 0.70302 0 0 0 0.99035 1 33680 33680 5.7604 0.52976 1 1376 1093 1139 1139 1414 1414 0.12463531444836917 APIYLVSYLL 10 Unmodified _APIYLVSYLL_ 0 0 0 REV__ENSG00000164199|ENST00000405460|ADGRV1 REV__ENSG00000164199|ENST00000405460|ADGRV1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.33837890625 2 576.339175 1150.6638 NaN NaN NaN NaN NaN NaN NaN 88.382 1 88.633 88.133 89.133 0.25064 0 0 0 0.99983 1 40667 40667 1.8442 0 1 + 1377 13076 1140 1140 1415 1415 0.09449230348081983 APIYSLIVKI 10 Unmodified _APIYSLIVKI_ 0 0 0 REV__nc|ENSG00000165115|Q86VH2-4|KIF27 REV__nc|ENSG00000165115|Q86VH2-4|KIF27 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.8558959960938 2 558.854993 1115.69543 NaN NaN NaN NaN NaN NaN NaN 80.146 1 80.806 80.306 81.306 0.65998 0 0 0 0.99983 1 36929 36929 1.8442 0.36234 1 + 1378 18021 1141 1141 1416 1416 0.14221223102049407 APKAKEKLK 9 Unmodified _APKAKEKLK_ 0 0 0 REV__ENST00000330736.9_1_16:89334888-89371640:-|nuORF REV__ENST00000330736.9_1_16:89334888-89371640:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.76666259765625 2 506.829309 1011.64407 NaN NaN NaN NaN NaN NaN NaN 68.782 1 69.484 68.984 69.984 0.70218 0 0 0 0.84134 1 32822 32822 7.9102 0.62092 1 + 1379 13288 1142 1142 1417 1417 0.1387089912797137 APKAKKCCKRS 11 Unmodified _APKAKKCCKRS_ 0 0 0 REV__ENST00000331163.10_1_22:39640366-39640519:-|nuORF REV__ENST00000331163.10_1_22:39640366-39640519:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 610.6695556640625 2 610.341735 1218.66892 NaN NaN NaN NaN NaN NaN NaN 63.255 1 63.977 63.477 64.477 0.72236 0 0 0 0.94174 1 29610 29610 12.241 6.0349 1 + 1380 15378 1143 1143 1418 1418 0.06832887667405885 APKAMFKRRQK 11 Unmodified _APKAMFKRRQK_ 0 0 0 REV__ENST00000533085.2_1_12:89894792-89896268:+|nuORF REV__ENST00000533085.2_1_12:89894792-89896268:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 680.9052734375 2 680.903348 1359.79214 NaN NaN NaN NaN NaN NaN NaN 65.095 1 65.804 65.304 66.304 0.70891 0 0 0 1.0057 1 30732 30732 3.2813 0.54611 1 + 1381 12433 1144 1144 1419 1419 0.12663887110170435 APKANDAHC 9 Unmodified _APKANDAHC_ 0 0 0 REV__nc|ENSG00000149571|Q8IZU9-2|KIRREL3 REV__nc|ENSG00000149571|Q8IZU9-2|KIRREL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.70953369140625 2 463.711076 925.4076 NaN NaN NaN NaN NaN NaN NaN 75.668 1 76.331 75.831 76.831 0.6635 0 0 0 0.84134 1 36644 36644 7.9102 0 1 + 1382 12574 1145 1145 1420 1420 -0.05808775707998848 APKAPKQSSS 10 Unmodified _APKAPKQSSS_ 0 0 0 REV__nc|ENSG00000172493|P51825|AFF1 REV__nc|ENSG00000172493|P51825|AFF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.9569396972656 2 500.774731 999.534909 NaN NaN NaN NaN NaN NaN NaN 65.98 1 66.685 66.185 67.185 0.7047 0 0 0 0.97102 1 31246 31246 10.074 1.4806 1 + 1383 13551 1146 1146 1421 1421 0.035122684378507074 APKAPLLLLLL 11 Unmodified _APKAPLLLLLL_ 0 0 0 REV__nc|ENSG00000164078|Q04912-3|MST1R REV__nc|ENSG00000164078|Q04912-3|MST1R MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.4022216796875 2 581.40211 1160.78967 NaN NaN NaN NaN NaN NaN NaN 97.84 1 98.129 97.629 98.629 0.28923 0 0 0 1.0057 1 44977 44977 3.2813 3.2813 1 + 1384 13058 1147 1147 1422 1422 0.21570361924204917 APKAQRLFRKY 11 Unmodified _APKAQRLFRKY_ 0 0 0 REV__ENSG00000085999|ENST00000371975|RAD54L REV__ENSG00000085999|ENST00000371975|RAD54L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 459.9426574707031 3 459.941973 1376.80409 NaN NaN NaN NaN NaN NaN NaN 60.129 1 60.879 60.379 61.379 0.74927 0 0 0 1.0038 1 27676 27676 2.6312 0.98335 1 + 1385 10652 1148 1148 1423 1423 0.13075827125021533 APKARKFFEKL 11 Unmodified _APKARKFFEKL_ 0 0 0 nc|ENSG00000157540|Q13627-4|DYRK1A;nc|ENSG00000157540|Q13627-3|DYRK1A;nc|ENSG00000157540|Q13627-5|DYRK1A;ENSG00000157540|ENST00000647188|DYRK1A;nc|ENSG00000157540|Q13627|DYRK1A nc|ENSG00000157540|Q13627-4|DYRK1A nc|ENSG00000157540|Q13627-4|DYRK1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 667.9007568359375 2 667.900797 1333.78704 NaN NaN NaN NaN NaN NaN NaN 67.064 1 67.064 66.564 67.564 0 0 0 0 0.97845 1 32099 32099 8.7454 1.1365 1 1386 3955 1149 1149 1424 1424 0.13349906519215438 APKARVPDLDR 11 Unmodified _APKARVPDLDR_ 0 0 0 nc|ENSG00000279980|Q9BY60|GABARAPL3 nc|ENSG00000279980|Q9BY60|GABARAPL3 nc|ENSG00000279980|Q9BY60|GABARAPL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.3544311523438 2 619.354211 1236.69387 NaN NaN NaN NaN NaN NaN NaN 75.192 1 75.451 74.951 75.951 0.25831 0 0 0 1.0038 1 34591 34591 5.7319 0 1 1387 9868 1150 1150 1425 1425 0.08498982065975724 APKASSRQSAG 11 Unmodified _APKASSRQSAG_ 0 0 0 ENSG00000204962|ENST00000531613|PCDHA8;nc|ENSG00000204962|Q9Y5H6-2|PCDHA8 ENSG00000204962|ENST00000531613|PCDHA8 ENSG00000204962|ENST00000531613|PCDHA8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.492431640625 2 530.280712 1058.54687 3.4656 0.0018378 -1.819 -0.00096458 1.6466 0.00087318 530.2793057815965 94.929 0.26847 95.546 95.46 95.729 0.61736 30 12 3 0 0 0 0.83518 1 43645 43645 5.2969 0.54088 1 946280 1388 6037 1151 1151 1426 1426 0.01993885181036603 APKAVLFGL 9 Unmodified _APKAVLFGL_ 0 0 0 REV__ENST00000530879.1_1_8:146029451-146033777:+|nuORF REV__ENST00000530879.1_1_8:146029451-146033777:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 458.2190856933594 2 458.286746 914.558939 NaN NaN NaN NaN NaN NaN NaN 62.967 1 62.967 62.467 63.467 0 0 0 0 0.8506 1 29570 29570 11.64 4.3511 1 + 1389 14274 1152 1152 1427 1427 0.09824153662179924 APKAVQWYKDD 11 Unmodified _APKAVQWYKDD_ 0 0 0 nc|ENSG00000154358|Q5VST9|OBSCN;nc|ENSG00000154358|Q5VST9-2|OBSCN;nc|ENSG00000154358|Q5VST9-6|OBSCN;ENSG00000154358|ENST00000680850|OBSCN;nc|ENSG00000154358|Q5VST9-3|OBSCN;nc|ENSG00000154358|Q5VST9-5|OBSCN nc|ENSG00000154358|Q5VST9|OBSCN nc|ENSG00000154358|Q5VST9|OBSCN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 660.8323364257812 2 660.832777 1319.651 NaN NaN NaN NaN NaN NaN NaN 62.047 1 62.777 62.277 63.277 0.73077 0 0 0 1.0038 1 28863 28863 5.7319 2.1354 1 1390 3821 1153 1153 1428 1428 0.0039616721787751885 APKCVDSVI 9 Unmodified _APKCVDSVI_ 0 0 0 ENST00000311637.9_2_20:50216404-50216899:-|nuORF ENST00000311637.9_2_20:50216404-50216899:-|nuORF ENST00000311637.9_2_20:50216404-50216899:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.1634521484375 2 466.249503 930.484453 NaN NaN NaN NaN NaN NaN NaN 75.057 1 75.721 75.221 76.221 0.6644 0 0 0 0.62812 1 34568 34568 14.838 1.3304 1 1391 6873 1154 1154 1429 1429 0.016430227884939086 APKDNEERVFR 11 Unmodified _APKDNEERVFR_ 0 0 0 PRKCE|p.M278*|1|0.36|ENSG00000171132|chr2:46001409-46001409|A/-|frameshift_variant;ENSG00000171132|ENST00000306156|PRKCE PRKCE|p.M278*|1|0.36|ENSG00000171132|chr2:46001409-46001409|A/-|frameshift_variant PRKCE|p.M278*|1|0.36|ENSG00000171132|chr2:46001409-46001409|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 680.8516235351562 2 680.852032 1359.68951 NaN NaN NaN NaN NaN NaN NaN 64.173 1 64.888 64.388 65.388 0.71521 0 0 0 1.0071 1 30203 30203 1.4819 0 1 1392 4789 1155 1155 1430 1430 0.02405472852387902 APKEEVAILDD 11 Unmodified _APKEEVAILDD_ 0 0 0 ENSG00000105641|ENST00000222248|SLC5A5 ENSG00000105641|ENST00000222248|SLC5A5 ENSG00000105641|ENST00000222248|SLC5A5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 599.8174438476562 2 600.311343 1198.60813 3.0044 0.0018036 2.2877 0.0013733 5.2921 0.0031769 600.3122540963649 62.196 0.023636 62.927 62.905 62.929 0.73077 4 2 2 0 0 0 0.13295 1 28960 28960 8.7454 7.2635 1 4852300 1393 1515 1156 1156 1431 1431 0.016773523698020654 APKEHKYKAEE 11 Unmodified _APKEHKYKAEE_ 0 0 0 ENSG00000131187|ENST00000253496|F12 ENSG00000131187|ENST00000253496|F12 ENSG00000131187|ENST00000253496|F12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 665.3450317382812 2 665.343509 1328.67246 NaN NaN NaN NaN NaN NaN NaN 67.782 1 68.484 67.984 68.984 0.70218 0 0 0 0.97845 1 32263 32263 8.7454 3.0136 1 1394 2643 1157 1157 1432 1432 0.021275522466112307 APKELERQQR 10 Unmodified _APKELERQQR_ 0 0 0 ENST00000593149.5_1_19:39109743-39110988:+|nuORF ENST00000593149.5_1_19:39109743-39110988:+|nuORF ENST00000593149.5_1_19:39109743-39110988:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 627.9376220703125 2 627.849293 1253.68403 NaN NaN NaN NaN NaN NaN NaN 81.514 1 81.514 81.014 82.014 0 0 0 0 0.99733 1 40617 40617 3.9444 0.3479 1 1395 9253 1158 1158 1433 1433 0.06733794060596665 APKELERQQR 10 Unmodified _APKELERQQR_ 0 0 0 ENST00000593149.5_1_19:39109743-39110988:+|nuORF ENST00000593149.5_1_19:39109743-39110988:+|nuORF ENST00000593149.5_1_19:39109743-39110988:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 627.9383544921875 2 627.849293 1253.68403 NaN NaN NaN NaN NaN NaN NaN 81.91 1 81.91 81.41 82.41 0 0 0 0 0.97102 1 40849 40849 10.074 3.8681 1 1396 9253 1158 1158 1434 1434 0.06733794060596665 APKEQSDHWD 10 Unmodified _APKEQSDHWD_ 0 0 0 REV__ENSG00000275395|ENST00000616721|FCGBP REV__ENSG00000275395|ENST00000616721|FCGBP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.767578125 2 606.767634 1211.52072 NaN NaN NaN NaN NaN NaN NaN 95.965 1 96.042 95.542 96.542 0.076538 0 0 0 0.99733 1 50876 50876 3.9444 0 1 + 1397 14736 1159 1159 1435 1435 -0.0765842878111016 APKFLAKKW 9 Unmodified _APKFLAKKW_ 0 0 0 REV__ENST00000082468.11_1_6:26410172-26413917:+|nuORF REV__ENST00000082468.11_1_6:26410172-26413917:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.835205078125 2 544.834394 1087.65424 NaN NaN NaN NaN NaN NaN NaN 74.014 1 74.273 73.773 74.773 0.25876 0 0 0 0.89509 1 34014 34014 4.756 0.81161 1 + 1398 10279 1160 1160 1436 1436 0.11391506853237843 APKFLLMSLIL 11 Unmodified _APKFLLMSLIL_ 0 0 0 REV__ENSG00000136824|ENST00000374793|SMC2 REV__ENSG00000136824|ENST00000374793|SMC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 623.3829345703125 2 623.385603 1244.75665 NaN NaN NaN NaN NaN NaN NaN 74.045 1 74.045 73.545 74.545 0 0 0 0 1.0057 1 36135 36135 3.2813 0.28607 1 + 1399 12082 1161 1161 1437 1437 0.14406411809841302 APKGAPPD 8 Unmodified _APKGAPPD_ 0 0 0 REV__ENSG00000130940|ENST00000377022|CASZ1 REV__ENSG00000130940|ENST00000377022|CASZ1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.8822937011719 2 376.700503 751.386454 2.9197 0.0010999 0.30193 0.00011374 3.2216 0.0012136 376.7005154387856 26.784 0.25323 26.784 26.663 26.916 0 30 16 3 0 0 0 0.13972 1 12025 12025 8.5933 3.3626 1 969500 + 1400 11837 1162 1162 1438 1438 0.0008158225480201509 APKGNRGLRV 10 Unmodified _APKGNRGLRV_ 0 0 0 ENST00000478999.1_1_1:150039540-150040875:+|nuORF ENST00000478999.1_1_1:150039540-150040875:+|nuORF ENST00000478999.1_1_1:150039540-150040875:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 534.3518676757812 2 534.325257 1066.63596 NaN NaN NaN NaN NaN NaN NaN 70.491 1 71.194 70.694 71.694 0.70386 0 0 0 0.96627 1 33782 33782 10.824 0.67336 1 1401 8258 1163 1163 1439 1439 0.10530764931218073 APKIKILLL 9 Unmodified _APKIKILLL_ 0 0 0 ENSG00000260286|ENST00000565469|ARMH2 ENSG00000260286|ENST00000565469|ARMH2 ENSG00000260286|ENST00000565469|ARMH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.86358642578125 2 504.862621 1007.71069 NaN NaN NaN NaN NaN NaN NaN 88.204 1 88.256 87.756 88.756 0.052155 0 0 0 0.89509 1 44867 44867 4.756 2.4533 1 1402 6305 1164 1164 1440 1440 0.20714134689887942 APKIPLVKHL 10 Unmodified _APKIPLVKHL_ 0 0 0 REV__ENST00000307403.6_1_7:155532339-155538302:+|nuORF REV__ENST00000307403.6_1_7:155532339-155538302:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.3663330078125 2 558.368601 1114.72265 NaN NaN NaN NaN NaN NaN NaN 76.001 1 76.665 76.165 77.165 0.66387 0 0 0 0.99983 1 35013 35013 1.8442 1.1539 1 + 1403 13989 1165 1165 1441 1441 0.16987751433089215 APKIPVLKR 9 Unmodified _APKIPVLKR_ 0 0 0 REV__nc|ENSG00000167182|Q02086-2|SP2 REV__nc|ENSG00000167182|Q02086-2|SP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.3472595214844 2 511.347669 1020.68079 NaN NaN NaN NaN NaN NaN NaN 84.055 1 84.055 83.555 84.555 0 0 0 0 0.89509 1 42464 42464 4.756 0.42677 1 + 1404 13278 1166 1166 1442 1442 0.17127195744535584 APKIVLKLNFK 11 Unmodified _APKIVLKLNFK_ 0 0 0 REV__ENSG00000135077|ENST00000307851|HAVCR2 REV__ENSG00000135077|ENST00000307851|HAVCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 636.0534057617188 2 635.915916 1269.81728 NaN NaN NaN NaN NaN NaN NaN 73.491 1 73.491 72.991 73.991 0 0 0 0 1.0041 1 35839 35839 5.2969 2.5617 1 + 1405 11997 1167 1167 1443 1443 0.1931626518437497 APKKAAAPRD 10 Unmodified _APKKAAAPRD_ 0 0 0 REV__ENSG00000189350|ENST00000379558|TOGARAM2 REV__ENSG00000189350|ENST00000379558|TOGARAM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.1755981445312 2 512.79854 1023.58253 NaN NaN NaN NaN NaN NaN NaN 75.672 1 76.337 75.837 76.837 0.6644 0 0 0 0.97102 1 34867 34867 10.074 4.8433 1 + 1406 14183 1168 1168 1444 1444 0.07167967428688371 APKKAEEGAFY 11 Unmodified _APKKAEEGAFY_ 0 0 0 ENST00000575094.5_1_12:9800878-9800986:+|nuORF ENST00000575094.5_1_12:9800878-9800986:+|nuORF ENST00000575094.5_1_12:9800878-9800986:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 605.8146362304688 2 605.808771 1209.60299 NaN NaN NaN NaN NaN NaN NaN 72.916 1 73.174 72.674 73.674 0.25876 0 0 0 1.0038 1 33478 33478 5.7319 0.43497 1 1407 9116 1169 1169 1445 1445 0.006570932978547717 APKKAESLPTS 11 Unmodified _APKKAESLPTS_ 0 0 0 REV__ENSG00000131711|ENST00000296755|MAP1B REV__ENSG00000131711|ENST00000296755|MAP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.8194580078125 2 564.816596 1127.61864 NaN NaN NaN NaN NaN NaN NaN 65.887 1 65.887 65.387 66.387 0 0 0 0 0.97845 1 31410 31410 8.7454 2.0222 1 + 1408 11862 1170 1170 1446 1446 0.059933798148904316 APKKAKKPTKV 11 Unmodified _APKKAKKPTKV_ 0 0 0 REV__ENSG00000124610|ENST00000244573|H1-1 REV__ENSG00000124610|ENST00000244573|H1-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 598.1981811523438 2 598.39789 1194.78123 NaN NaN NaN NaN NaN NaN NaN 66.797 1 66.797 66.297 67.297 0 0 0 0 0.97845 1 31954 31954 8.7454 4.801 1 + 1409 11664 1171 1171 1447 1447 0.19162808007536114 APKKANLINE 10 Unmodified _APKKANLINE_ 0 0 0 ENSG00000175175|ENST00000308249|PPM1E;nc|ENSG00000175175|Q8WY54-3|PPM1E ENSG00000175175|ENST00000308249|PPM1E ENSG00000175175|ENST00000308249|PPM1E MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.2591552734375 2 549.319306 1096.62406 NaN NaN NaN NaN NaN NaN NaN 64.549 1 64.549 64.049 65.049 0 0 0 0 0.97102 1 30604 30604 10.074 3.3508 1 1410 5017 1172 1172 1448 1448 0.0796110339738334 APKKARPSET 10 Unmodified _APKKARPSET_ 0 0 0 ENSG00000153107|ENST00000341068|ANAPC1 ENSG00000153107|ENST00000341068|ANAPC1 ENSG00000153107|ENST00000341068|ANAPC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.0324096679688 2 542.809105 1083.60366 NaN NaN NaN NaN NaN NaN NaN 63.356 1 63.356 62.856 63.856 0 0 0 0 0.97102 1 29800 29800 10.074 0.6908 1 1411 3772 1173 1173 1449 1449 0.06519932737569434 APKKASHRILS 11 Unmodified _APKKASHRILS_ 0 0 0 ENST00000330736.9_1_16:89334888-89371640:-|nuORF;ENSG00000167522|ENST00000301030|ANKRD11;ANKRD11|p.P753Rfs*6|1|0.24|ENSG00000167522|chr16:89284284-89284284|G/-|frameshift_variant;ANKRD11|p.V1303Sfs*15|1|0.19|ENSG00000167522|chr16:89282635-89282635|C/-|frameshift_variant ENST00000330736.9_1_16:89334888-89371640:-|nuORF ENST00000330736.9_1_16:89334888-89371640:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 604.3676147460938 2 604.367121 1206.71969 4.0122 0.0024248 -1.3825 -0.00083555 2.6297 0.0015893 604.3662512419384 99.789 0.20145 100.39 100.26 100.46 0.59716 31 10 5 0 0 0 0.91068 1 46203 46203 3.2813 0.28607 1 26494000 1412 4558 1174 1174 1450 1450 0.12459876308275852 APKKASHRILS 11 Unmodified _APKKASHRILS_ 0 0 0 ENST00000330736.9_1_16:89334888-89371640:-|nuORF;ENSG00000167522|ENST00000301030|ANKRD11;ANKRD11|p.P753Rfs*6|1|0.24|ENSG00000167522|chr16:89284284-89284284|G/-|frameshift_variant;ANKRD11|p.V1303Sfs*15|1|0.19|ENSG00000167522|chr16:89282635-89282635|C/-|frameshift_variant ENST00000330736.9_1_16:89334888-89371640:-|nuORF ENST00000330736.9_1_16:89334888-89371640:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 604.367121 1206.71969 4.4828 0.0027092 -1.563 -0.0009446 2.9198 0.0017646 604.3660434397955 99.925 0.15101 100.23 100.13 100.29 0.30835 0.0074686 1.2138E-05 NaN 3.2813 22 6 4 NaN NaN NaN NaN 0 NaN NaN 0 26599000 1413 4558 1174 1174 0.12459876308275852 APKKDCPVR 9 Unmodified _APKKDCPVR_ 0 0 0 ENST00000409490.5_1_2:98948164-98950423:-|nuORF ENST00000409490.5_1_2:98948164-98950423:-|nuORF ENST00000409490.5_1_2:98948164-98950423:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.19207763671875 2 507.281669 1012.54878 NaN NaN NaN NaN NaN NaN NaN 80.144 1 80.804 80.304 81.304 0.65998 0 0 0 0.84134 1 36928 36928 7.9102 0.62092 1 1414 7661 1175 1175 1451 1451 0.04301222665287696 APKKEREEE 9 Unmodified _APKKEREEE_ 0 0 0 REV__ENSG00000163528|ENST00000396914|CHCHD4 REV__ENSG00000163528|ENST00000396914|CHCHD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.9677124023438 2 558.288202 1114.56185 NaN NaN NaN NaN NaN NaN NaN 70.946 1 70.946 70.446 71.446 0 0 0 0 0.84134 1 34469 34469 7.9102 2.1783 1 + 1415 12997 1176 1176 1452 1452 0.00915332258387025 APKKERKESRM 11 Unmodified _APKKERKESRM_ 0 0 0 REV__ENST00000262662.5_1_1:51434456-51434999:+|nuORF REV__ENST00000262662.5_1_1:51434456-51434999:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 453.73565673828125 3 453.922361 1358.74525 NaN NaN NaN NaN NaN NaN NaN 72.195 1 72.858 72.358 73.358 0.66324 0 0 0 1.0038 1 33102 33102 2.6312 1.3016 1 + 1416 14987 1177 1177 1453 1453 0.08022982768375186 APKKIDQFLAR 11 Unmodified _APKKIDQFLAR_ 0 0 0 REV__ENSG00000087086|ENST00000331825|FTL REV__ENSG00000087086|ENST00000331825|FTL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 643.8841552734375 2 643.882604 1285.75066 NaN NaN NaN NaN NaN NaN NaN 12.366 1 12.627 12.127 13.127 0.26154 0 0 0 0.99038 1 5334 5334 7.609 0.97858 1 + 1417 10661 1178 1178 1454 1454 0.11921029622499191 APKKIKLAA 9 Unmodified _APKKIKLAA_ 0 0 0 ENSG00000118997|ENST00000312428|DNAH7 ENSG00000118997|ENST00000312428|DNAH7 ENSG00000118997|ENST00000312428|DNAH7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.3251037597656 2 470.32112 938.627687 NaN NaN NaN NaN NaN NaN NaN 71.029 1 71.029 70.529 71.529 0 0 0 0 0.89509 1 34511 34511 4.756 0.42677 1 1418 2130 1179 1179 1455 1455 0.15591817961876586 APKKILLIN 9 Unmodified _APKKILLIN_ 0 0 0 ENST00000281828.6_1_2:223484425-223488376:-|nuORF ENST00000281828.6_1_2:223484425-223488376:-|nuORF ENST00000281828.6_1_2:223484425-223488376:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.15863037109375 2 505.342052 1008.66955 NaN NaN NaN NaN NaN NaN NaN 70.269 1 70.972 70.472 71.472 0.70302 0 0 0 0.84134 1 33663 33663 7.9102 2.1497 1 1419 6695 1180 1180 1456 1456 0.16556373650428213 APKKKEPQE 9 Unmodified _APKKKEPQE_ 0 0 0 ENSG00000163833|ENST00000338040|FBXO40 ENSG00000163833|ENST00000338040|FBXO40 ENSG00000163833|ENST00000338040|FBXO40 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.8484497070312 2 527.798206 1053.58186 NaN NaN NaN NaN NaN NaN NaN 69.378 1 69.378 68.878 69.878 0 0 0 0 0.72654 1 33498 33498 11.64 0.81637 1 1420 4256 1181 1181 1457 1457 0.05721127988999797 APKKKGFEEEH 11 Unmodified _APKKKGFEEEH_ 0 0 0 ENSG00000087365|ENST00000322535|SF3B2 ENSG00000087365|ENST00000322535|SF3B2 ENSG00000087365|ENST00000322535|SF3B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 650.3386840820312 2 650.338227 1298.6619 NaN NaN NaN NaN NaN NaN NaN 62.623 1 62.623 62.123 63.123 0 0 0 0 1.0038 1 29364 29364 5.7319 2.1354 1 1421 1001 1182 1182 1458 1458 0.024515695922218583 APKKKGIKSSI 11 Unmodified _APKKKGIKSSI_ 0 0 0 nc|ENSG00000139220|O75334-8|PPFIA2;ENST00000526262.5_1_11:70189825-70228249:+|nuORF;ENST00000532504.5_1_11:70185286-70228249:+|nuORF;nc|ENSG00000139220|O75334-7|PPFIA2;nc|ENSG00000139220|O75334-6|PPFIA2;nc|ENSG00000139220|O75334-5|PPFIA2;nc|ENSG00000131626|Q13136-2|PPFIA1;ENSG00000131626|ENST00000253925|PPFIA1;nc|ENSG00000139220|O75334-2|PPFIA2;nc|ENSG00000139220|O75334-4|PPFIA2;nc|ENSG00000139220|O75334-3|PPFIA2;ENSG00000139220|ENST00000549396|PPFIA2 nc|ENSG00000139220|O75334-8|PPFIA2 nc|ENSG00000139220|O75334-8|PPFIA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.8775024414062 2 578.874248 1155.73394 NaN NaN NaN NaN NaN NaN NaN 76.237 1 76.861 76.361 77.361 0.62397 0 0 0 1.0038 1 36944 36944 5.7319 0 1 1422 2667 1183 1183 1459 1459 0.1623052873655979 APKKKGKKGKA 11 Unmodified _APKKKGKKGKA_ 0 0 0 GAS8|p.E368Dfs*7|1|0.29|ENSG00000141013|chr16:90040391-90040391|A/-|frameshift_variant;ENSG00000141013|ENST00000268699|GAS8;ENST00000563980.5_1_16:90088575-90097598:+|nuORF GAS8|p.E368Dfs*7|1|0.29|ENSG00000141013|chr16:90040391-90040391|A/-|frameshift_variant GAS8|p.E368Dfs*7|1|0.29|ENSG00000141013|chr16:90040391-90040391|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.8910522460938 2 570.882407 1139.75026 NaN NaN NaN NaN NaN NaN NaN 61.698 1 61.698 61.198 62.198 0 0 0 0 0.97845 1 28808 28808 8.7454 0 1 1423 3230 1184 1184 1460 1460 0.1859765469332615 APKKKGRTKWS 11 Unmodified _APKKKGRTKWS_ 0 0 0 REV__ENST00000235372.11_1_1:14105080-14105206:+|nuORF REV__ENST00000235372.11_1_1:14105080-14105206:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 643.8866577148438 2 643.888221 1285.76189 NaN NaN NaN NaN NaN NaN NaN 62.334 1 63.065 62.565 63.565 0.73077 0 0 0 0.97845 1 29045 29045 8.7454 0.58988 1 + 1424 14869 1185 1185 1461 1461 0.13043851716679455 APKKKHRRNRT 11 Unmodified _APKKKHRRNRT_ 0 0 0 ENSG00000173976|ENST00000555633|RAX2 ENSG00000173976|ENST00000555633|RAX2 ENSG00000173976|ENST00000555633|RAX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.6621398925781 3 464.620004 1390.83818 NaN NaN NaN NaN NaN NaN NaN 67.852 1 67.852 67.352 68.352 0 0 0 0 1.0038 1 32606 32606 2.6312 1.6177 1 1425 4960 1186 1186 1462 1462 0.15839668336616342 APKKKKFGR 9 Unmodified _APKKKKFGR_ 0 0 0 REV__ENST00000265087.8_1_5:172743950-172744151:-|nuORF REV__ENST00000265087.8_1_5:172743950-172744151:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.3431396484375 2 530.342918 1058.67128 NaN NaN NaN NaN NaN NaN NaN 95.69 1 95.772 95.272 96.272 0.082001 0 0 0 0.89509 1 50641 50641 4.756 0 1 + 1426 15031 1187 1187 1463 1463 0.14429427459026556 APKKKKKKK 9 Unmodified _APKKKKKKK_ 0 0 0 REV__ENST00000368679.8_1_10:127702855-127703017:-|nuORF REV__ENST00000368679.8_1_10:127702855-127703017:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.6444702148438 2 542.389868 1082.76518 NaN NaN NaN NaN NaN NaN NaN 67.688 1 68.39 67.89 68.89 0.70218 0 0 0 0.72654 1 32211 32211 11.64 4.9171 1 + 1427 15690 1188 1188 1464 1464 0.22711146561300666 APKKKKKKKKL 11 Unmodified _APKKKKKKKKL_ 0 0 0 REV__ENST00000368679.8_1_10:127702855-127703017:-|nuORF REV__ENST00000368679.8_1_10:127702855-127703017:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.3233642578125 3 442.322013 1323.94421 NaN NaN NaN NaN NaN NaN NaN 72.366 1 73.029 72.529 73.529 0.66324 0 0 0 1.008 1 33189 33189 0.45452 0.45452 1 + 1428 15690 1189 1189 1465 1465 0.29519611129376244 APKKKKKRL 9 Unmodified _APKKKKKRL_ 0 0 0 ZBTB40|p.C1109Lfs*30|1|0.22|ENSG00000184677|chr1:22524243-22524244|-/T|frameshift_variant;ENSG00000184677|ENST00000375647|ZBTB40 ZBTB40|p.C1109Lfs*30|1|0.22|ENSG00000184677|chr1:22524243-22524244|-/T|frameshift_variant ZBTB40|p.C1109Lfs*30|1|0.22|ENSG00000184677|chr1:22524243-22524244|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.862060546875 2 548.887493 1095.76043 NaN NaN NaN NaN NaN NaN NaN 75.985 1 76.609 76.109 77.109 0.62397 0 0 0 0.89509 1 36810 36810 4.756 0 1 1429 5457 1190 1190 1466 1466 0.21638262418559862 APKKKQKKV 9 Unmodified _APKKKQKKV_ 0 0 0 nc|ENSG00000165671|Q96L73-2|NSD1;nc|ENSG00000165671|Q96L73-3|NSD1;ENSG00000165671|ENST00000439151|NSD1;ENST00000375350.3_1_5:176662823-176666819:+|nuORF;nc|ENSG00000179057|Q8N9C0|IGSF22;ENSG00000179057|ENST00000513874|IGSF22 nc|ENSG00000165671|Q96L73-2|NSD1 nc|ENSG00000165671|Q96L73-2|NSD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.8623657226562 2 527.858401 1053.70225 NaN NaN NaN NaN NaN NaN NaN 63.743 1 64.466 63.966 64.966 0.72236 0 0 0 0.89451 1 29894 29894 7.9102 3.5809 1 1430 4414 1191 1191 1467 1467 0.177545807732713 APKKKQKKVQ 10 Unmodified _APKKKQKKVQ_ 0 0 0 nc|ENSG00000165671|Q96L73-2|NSD1;nc|ENSG00000165671|Q96L73-3|NSD1;ENSG00000165671|ENST00000439151|NSD1;ENST00000375350.3_1_5:176662823-176666819:+|nuORF nc|ENSG00000165671|Q96L73-2|NSD1 nc|ENSG00000165671|Q96L73-2|NSD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.8067016601562 2 591.88769 1181.76083 NaN NaN NaN NaN NaN NaN NaN 64.181 1 64.896 64.396 65.396 0.71521 0 0 0 0.97102 1 30211 30211 10.074 3.8681 1 1431 4414 1192 1192 1468 1468 0.17721637347744945 APKKKQKKVQ 10 Unmodified _APKKKQKKVQ_ 0 0 0 nc|ENSG00000165671|Q96L73-2|NSD1;nc|ENSG00000165671|Q96L73-3|NSD1;ENSG00000165671|ENST00000439151|NSD1;ENST00000375350.3_1_5:176662823-176666819:+|nuORF nc|ENSG00000165671|Q96L73-2|NSD1 nc|ENSG00000165671|Q96L73-2|NSD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.8887939453125 2 591.88769 1181.76083 NaN NaN NaN NaN NaN NaN NaN 73.277 1 73.536 73.036 74.036 0.25876 0 0 0 0.97102 1 33654 33654 10.074 1.3285 1 1432 4414 1192 1192 1469 1469 0.17721637347744945 APKKKTRI 8 Unmodified _APKKKTRI_ 0 0 0 REV__nc|ENSG00000163539|O75122-3|CLASP2 REV__nc|ENSG00000163539|O75122-3|CLASP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 471.31427001953125 2 471.316369 940.618185 NaN NaN NaN NaN NaN NaN NaN 71.129 1 71.833 71.333 72.333 0.70386 0 0 0 0.88162 1 34145 34145 13.508 0 1 + 1433 18007 1193 1193 1470 1470 0.14550049676358867 APKKLKKRFY 10 Unmodified _APKKLKKRFY_ 0 0 0 REV__nc|ENSG00000049759|Q96PU5-9|NEDD4L REV__nc|ENSG00000049759|Q96PU5-9|NEDD4L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 639.9047241210938 2 639.905882 1277.79721 NaN NaN NaN NaN NaN NaN NaN 88.978 1 88.978 88.478 89.478 0 0 0 0 0.99733 1 46334 46334 3.9444 0.66309 1 + 1434 10347 1194 1194 1471 1471 0.169425142444652 APKKLKLDV 9 Unmodified _APKKLKLDV_ 0 0 0 ENSG00000141456|ENST00000572293|PELP1;ENST00000573523.5_1_17:4574736-4578861:-|nuORF ENSG00000141456|ENST00000572293|PELP1 ENSG00000141456|ENST00000572293|PELP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.9925231933594 2 506.331685 1010.64882 NaN NaN NaN NaN NaN NaN NaN 71.712 1 72.415 71.915 72.915 0.70386 0 0 0 0.84134 1 34466 34466 7.9102 0.62092 1 1435 3257 1195 1195 1472 1472 0.14391783270741598 APKKNRLRRKS 11 Unmodified _APKKNRLRRKS_ 0 0 0 nc|ENSG00000012048|P38398-8|BRCA1;nc|ENSG00000012048|P38398-4|BRCA1;ENSG00000012048|ENST00000357654|BRCA1;nc|ENSG00000012048|P38398-7|BRCA1 nc|ENSG00000012048|P38398-8|BRCA1 nc|ENSG00000012048|P38398-8|BRCA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 677.4310913085938 2 677.431119 1352.84768 NaN NaN NaN NaN NaN NaN NaN 69.271 1 69.271 68.771 69.771 0 0 0 0 1.0038 1 33432 33432 5.7319 2.9967 1 1436 421 1196 1196 1473 1473 0.18537436622159476 APKKRKRKLL 10 Unmodified _APKKRKRKLL_ 0 0 0 ENST00000409365.5_2_2:183291437-183291587:-|nuORF ENST00000409365.5_2_2:183291437-183291587:-|nuORF ENST00000409365.5_2_2:183291437-183291587:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.0728759765625 2 619.432599 1236.85064 NaN NaN NaN NaN NaN NaN NaN 64.73 1 65.445 64.945 65.945 0.71521 0 0 0 0.99976 1 30510 30510 3.9444 2.6149 1 1437 7658 1197 1197 1474 1474 0.24169311746982203 APKKRKRKLL 10 Unmodified _APKKRKRKLL_ 0 0 0 ENST00000409365.5_2_2:183291437-183291587:-|nuORF ENST00000409365.5_2_2:183291437-183291587:-|nuORF ENST00000409365.5_2_2:183291437-183291587:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.4340209960938 2 619.432599 1236.85064 NaN NaN NaN NaN NaN NaN NaN 65.041 1 65.75 65.25 66.25 0.70891 0 0 0 0.99776 1 30696 30696 6.7232 3.988 1 1438 7658 1197 1197 1475 1475 0.24169311746982203 APKKRPFIDA 10 Unmodified _APKKRPFIDA_ 0 0 0 REV__nc|ENSG00000132640|Q9Y2F9-2|BTBD3 REV__nc|ENSG00000132640|Q9Y2F9-2|BTBD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.8872680664062 2 571.837665 1141.66078 NaN NaN NaN NaN NaN NaN NaN 72.962 1 73.221 72.721 73.721 0.25876 0 0 0 0.99225 1 33501 33501 6.7232 0.99131 1 + 1439 11904 1198 1198 1476 1476 0.09561400013944876 APKKRRISIG 10 Unmodified _APKKRRISIG_ 0 0 0 nc|ENSG00000034677|Q9NV58-2|RNF19A;nc|ENSG00000034677|Q9NV58-3|RNF19A;ENSG00000034677|ENST00000341084|RNF19A nc|ENSG00000034677|Q9NV58-2|RNF19A nc|ENSG00000034677|Q9NV58-2|RNF19A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.3651123046875 2 563.364382 1124.71421 NaN NaN NaN NaN NaN NaN NaN 61.934 1 62.665 62.165 63.165 0.73077 0 0 0 0.99225 1 28792 28792 6.7232 2.3939 1 1440 508 1199 1199 1477 1477 0.15684197516452514 APKKRRKKKV 10 Unmodified _APKKRRKKKV_ 0 0 0 ENSG00000146278|ENST00000336032|PNRC1;nc|ENSG00000146278|Q12796-2|PNRC1 ENSG00000146278|ENST00000336032|PNRC1 ENSG00000146278|ENST00000336032|PNRC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.9277954101562 2 619.930223 1237.84589 NaN NaN NaN NaN NaN NaN NaN 83.256 1 83.256 82.756 83.756 0 0 0 0 0.99983 1 41897 41897 1.8442 0.36234 1 1441 3509 1200 1200 1478 1478 0.23648427604189237 APKKRRPPKL 10 Unmodified _APKKRRPPKL_ 0 0 0 REV__nc|ENSG00000258388|Q9UMR5-2|PPT2 REV__nc|ENSG00000258388|Q9UMR5-2|PPT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 595.8975830078125 2 595.895849 1189.77715 NaN NaN NaN NaN NaN NaN NaN 86.928 1 87.604 87.104 88.104 0.67555 0 0 0 1.0015 1 40042 40042 0.45834 0 1 + 1442 18153 1201 1201 1479 1479 0.1898476330450194 APKKRRRPE 9 Unmodified _APKKRRRPE_ 0 0 0 nc|ENSG00000174989|Q8N3Y1-2|FBXW8;ENSG00000174989|ENST00000652555|FBXW8 nc|ENSG00000174989|Q8N3Y1-2|FBXW8 nc|ENSG00000174989|Q8N3Y1-2|FBXW8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.3181762695312 2 569.351806 1136.68906 NaN NaN NaN NaN NaN NaN NaN 60.644 1 61.384 60.884 61.884 0.7396 0 0 0 0.65681 1 28018 28018 13.906 6.6168 1 1443 5007 1202 1202 1480 1480 0.12618142713881753 APKKRRTEEK 10 Unmodified _APKKRRTEEK_ 0 0 0 ENST00000495826.5_1_22:20074657-20094820:+|nuORF;nc|ENSG00000128191|Q8WYQ5-3|DGCR8;ENSG00000128191|ENST00000351989|DGCR8;ENST00000498171.5_1_22:20074657-20077367:+|nuORF;nc|ENSG00000128191|Q8WYQ5-2|DGCR8 ENST00000495826.5_1_22:20074657-20094820:+|nuORF ENST00000495826.5_1_22:20074657-20094820:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.8685302734375 2 621.867486 1241.72042 NaN NaN NaN NaN NaN NaN NaN 61.675 1 62.406 61.906 62.906 0.73077 0 0 0 0.99225 1 28634 28634 6.7232 2.7788 1 1444 2501 1203 1203 1481 1481 0.10922670957302216 APKKRRTEEKY 11 Unmodified _APKKRRTEEKY_ 0 0 0 ENST00000495826.5_1_22:20074657-20094820:+|nuORF;nc|ENSG00000128191|Q8WYQ5-3|DGCR8;ENSG00000128191|ENST00000351989|DGCR8;ENST00000498171.5_1_22:20074657-20077367:+|nuORF;nc|ENSG00000128191|Q8WYQ5-2|DGCR8 ENST00000495826.5_1_22:20074657-20094820:+|nuORF ENST00000495826.5_1_22:20074657-20094820:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 703.4850463867188 2 703.39915 1404.78375 NaN NaN NaN NaN NaN NaN NaN 64.505 1 64.505 64.005 65.005 0 0 0 0 1.0057 1 30577 30577 3.2813 1.7994 1 1445 2501 1204 1204 1482 1482 0.09754611674543412 APKKSETRG 9 Unmodified _APKKSETRG_ 0 0 0 ENST00000540974.1_2_12:1800329-1812052:+|nuORF;ENST00000357103.4_1_12:1800329-1863488:+|nuORF ENST00000540974.1_2_12:1800329-1812052:+|nuORF ENST00000540974.1_2_12:1800329-1812052:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.2750244140625 2 487.274898 972.535243 NaN NaN NaN NaN NaN NaN NaN 65.373 1 66.082 65.582 66.582 0.70891 0 0 0 0.84134 1 30913 30913 7.9102 1.187 1 1446 7173 1205 1205 1483 1483 0.047876881577167296 APKKTKIKLT 10 Unmodified _APKKTKIKLT_ 0 0 0 ENSG00000166262|ENST00000299338|FAM227B ENSG00000166262|ENST00000299338|FAM227B ENSG00000166262|ENST00000299338|FAM227B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.9737548828125 2 564.379166 1126.74378 NaN NaN NaN NaN NaN NaN NaN 68.367 1 68.367 67.867 68.867 0 0 0 0 0.95729 1 32913 32913 12.241 4.6317 1 1447 4466 1206 1206 1484 1484 0.18547716741909426 APKKTPASQ 9 Unmodified _APKKTPASQ_ 0 0 0 REV__nc|ENSG00000149090|Q6UXH9-3|PAMR1 REV__nc|ENSG00000149090|Q6UXH9-3|PAMR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.22137451171875 2 464.266542 926.51853 NaN NaN NaN NaN NaN NaN NaN 63.159 1 63.881 63.381 64.381 0.72236 0 0 0 0.75166 1 29559 29559 10.824 1.4765 1 + 1448 12557 1207 1207 1485 1485 0.05233187271744555 APKKVFKGT 9 Unmodified _APKKVFKGT_ 0 0 0 REV__ENSG00000179151|ENST00000315127|EDC3 REV__ENSG00000179151|ENST00000315127|EDC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.3057861328125 2 488.302927 974.591301 NaN NaN NaN NaN NaN NaN NaN 75.136 1 75.8 75.3 76.3 0.6644 0 0 0 0.84134 1 34607 34607 7.9102 0.62092 1 + 1449 13786 1208 1208 1486 1486 0.10298941065184408 APKKVKKPT 9 Unmodified _APKKVKKPT_ 0 0 0 REV__ENSG00000124575|ENST00000244534|H1-3 REV__ENSG00000124575|ENST00000244534|H1-3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.6989440917969 2 498.831852 995.649151 NaN NaN NaN NaN NaN NaN NaN 67.559 1 68.261 67.761 68.761 0.70218 0 0 0 0.84134 1 32140 32140 7.9102 2.6795 1 + 1450 11661 1209 1209 1487 1487 0.15115202990614307 APKKVKMKLI 10 Unmodified _APKKVKMKLI_ 0 0 0 REV__ENSG00000181104|ENST00000319211|F2R REV__ENSG00000181104|ENST00000319211|F2R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.3297119140625 2 578.385937 1154.75732 NaN NaN NaN NaN NaN NaN NaN 74.416 1 74.416 73.916 74.916 0 0 0 0 0.99733 1 36347 36347 3.9444 2.1002 1 + 1451 13843 1210 1210 1488 1488 0.1861325124953055 APKKVKMKLI 10 Unmodified _APKKVKMKLI_ 0 0 0 REV__ENSG00000181104|ENST00000319211|F2R REV__ENSG00000181104|ENST00000319211|F2R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.6640014648438 2 578.385937 1154.75732 NaN NaN NaN NaN NaN NaN NaN 64.963 1 65.672 65.172 66.172 0.70891 0 0 0 0.99225 1 30638 30638 6.7232 0.09279 1 + 1452 13843 1210 1210 1489 1489 0.1861325124953055 APKKVKQYRKV 11 Unmodified _APKKVKQYRKV_ 0 0 0 ENSG00000185038|ENST00000389758|MROH2A ENSG00000185038|ENST00000389758|MROH2A ENSG00000185038|ENST00000389758|MROH2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 448.9530944824219 3 448.95399 1343.84014 NaN NaN NaN NaN NaN NaN NaN 67.464 1 67.464 66.964 67.964 0 0 0 0 1.0046 1 32368 32368 4.7159 1.8726 1 1453 5481 1211 1211 1490 1490 0.18197284301868422 APKKWSVFIRF 11 Unmodified _APKKWSVFIRF_ 0 0 0 ENST00000469733.5_1_1:2129472-2132643:-|nuORF ENST00000469733.5_1_1:2129472-2132643:-|nuORF ENST00000469733.5_1_1:2129472-2132643:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 690.0205078125 2 689.90334 1377.79213 NaN NaN NaN NaN NaN NaN NaN 105.27 1 105.32 104.82 105.82 0.050888 0 0 0 1.0057 1 56943 56943 3.2813 0.54611 1 1454 8166 1212 1212 1491 1491 0.11834210381834964 APKLDLHVI 9 Unmodified _APKLDLHVI_ 0 0 0 REV__ENSG00000172680|ENST00000311923|MOS REV__ENSG00000172680|ENST00000311923|MOS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 503.3082580566406 2 503.30821 1004.60187 NaN NaN NaN NaN NaN NaN NaN 66.455 1 66.455 65.955 66.955 0 0 0 0 0.82031 1 31765 31765 8.5933 0 1 + 1455 13558 1213 1213 1492 1492 0.09974923719596518 APKLEERLKVL 11 Unmodified _APKLEERLKVL_ 0 0 0 ENST00000405027.1_1_6:3978829-3979330:+|nuORF;ENSG00000108010|ENST00000331244|GLRX3 ENST00000405027.1_1_6:3978829-3979330:+|nuORF ENST00000405027.1_1_6:3978829-3979330:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.956298828125 2 648.405912 1294.79727 NaN NaN NaN NaN NaN NaN NaN 89.373 1 89.373 88.873 89.873 0 0 0 0 1.0057 1 46655 46655 3.2813 0 1 1456 1618 1214 1214 1493 1493 0.16166469453787613 APKLKTDV 8 Unmodified _APKLKTDV_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.26715087890625 2 436.26601 870.517468 2.7863 0.0012156 -3.8199 -0.0016665 -1.0335 -0.00045089 436.2659958156624 14.335 0.16783 14.561 14.471 14.638 0.22622 25 14 3 0 0 0 0.11952 1 6307 6307 51.63 9.7902 1 337350 1457 2385 1215 1215 1494 1494 0.0770297290284816 APKLKTDV 8 Unmodified _APKLKTDV_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 436.26601 870.517468 2.9173 0.0012727 -3.6761 -0.0016038 -0.75882 -0.00033105 436.2658377231281 14.596 0.26415 14.596 14.455 14.719 0 0.017401 3.0789E-05 NaN 51.63 69 29 3 NaN NaN NaN NaN 0 NaN NaN 0 265870 1458 2385 1215 1215 0.0770297290284816 APKLLKRL 8 Unmodified _APKLLKRL_ 0 0 0 nc|ENSG00000150712|Q9C0I1-3|MTMR12;nc|ENSG00000150712|Q9C0I1-2|MTMR12;ENSG00000150712|ENST00000382142|MTMR12 nc|ENSG00000150712|Q9C0I1-3|MTMR12 nc|ENSG00000150712|Q9C0I1-3|MTMR12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.8290100097656 2 469.829112 937.643671 NaN NaN NaN NaN NaN NaN NaN 71.734 1 72.438 71.938 72.938 0.70386 0 0 0 0.99035 1 34480 34480 5.7604 1.0044 1 1459 3675 1216 1216 1495 1495 0.17235524198792973 APKLLYVRLS 10 Unmodified _APKLLYVRLS_ 0 0 0 ENSG00000122176|ENST00000354955|FMOD ENSG00000122176|ENST00000354955|FMOD ENSG00000122176|ENST00000354955|FMOD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 580.364501953125 2 580.363516 1158.71248 NaN NaN NaN NaN NaN NaN NaN 86.714 1 86.744 86.244 87.244 0.030289 0 0 0 0.99733 1 43709 43709 3.9444 0 1 1460 2258 1217 1217 1496 1496 0.13947143707832765 APKMRRFIV 9 Unmodified _APKMRRFIV_ 0 0 0 REV__ENST00000451728.6_2_3:128889931-128890333:-|nuORF REV__ENST00000451728.6_2_3:128889931-128890333:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.335693359375 2 559.336778 1116.659 NaN NaN NaN NaN NaN NaN NaN 84.483 1 85.148 84.648 85.648 0.66566 0 0 0 0.90511 1 38913 38913 2.3027 0 1 + 1461 16414 1218 1218 1497 1497 0.10534067724324814 APKMRSHPQ 9 Unmodified _APKMRSHPQ_ 0 0 0 REV__ENST00000553694.5_1_14:100603907-100610072:+|nuORF REV__ENST00000553694.5_1_14:100603907-100610072:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.02197265625 2 526.276918 1050.53928 NaN NaN NaN NaN NaN NaN NaN 70.749 1 71.453 70.953 71.953 0.70386 0 0 0 0.84134 1 33927 33927 7.9102 0.62092 1 + 1462 14212 1219 1219 1498 1498 0.01603454379755931 APKNPQRLWYN 11 Unmodified _APKNPQRLWYN_ 0 0 0 REV__ENST00000317025.12_1_8:38187341-38189007:-|nuORF REV__ENST00000317025.12_1_8:38187341-38189007:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 693.8660888671875 2 693.867486 1385.72042 NaN NaN NaN NaN NaN NaN NaN 64.965 1 65.674 65.174 66.174 0.70891 0 0 0 1.0038 1 30641 30641 5.7319 4.25 1 + 1463 15296 1220 1220 1499 1499 0.04298670957336981 APKNRTYLYH 10 Unmodified _APKNRTYLYH_ 0 0 0 REV__nc|ENSG00000158158|Q6P4Q7-2|CNNM4 REV__nc|ENSG00000158158|Q6P4Q7-2|CNNM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 631.8355102539062 2 631.835654 1261.65676 NaN NaN NaN NaN NaN NaN NaN 61.748 1 62.479 61.979 62.979 0.73077 0 0 0 0.99733 1 28681 28681 3.9444 0.3479 1 + 1464 12815 1221 1221 1500 1500 0.03639310520225081 APKPRKVEL 9 Unmodified _APKPRKVEL_ 0 0 0 ENST00000488317.1_1_1:24981619-24987388:+|nuORF;ENST00000485541.1_1_1:24981613-24989296:+|nuORF;nc|ENSG00000133226|Q8IYB3-2|SRRM1;ENSG00000133226|ENST00000323848|SRRM1 ENST00000488317.1_1_1:24981619-24987388:+|nuORF ENST00000488317.1_1_1:24981619-24987388:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.87786865234375 3 346.553715 1036.63931 2.7421 0.00095029 0.28525 9.8855E-05 3.0274 0.0010491 346.55368968586754 12.517 0.083971 13.16 13.092 13.176 0.64272 4 2 2 0 0 0 0.10837 1 5622 5622 28.495 5.7195 1 1693400 1465 2755 1222 1222 1501 1501 0.12246014985225884 APKPRKVEL 9 Unmodified _APKPRKVEL_ 0 0 0 ENST00000488317.1_1_1:24981619-24987388:+|nuORF;ENST00000485541.1_1_1:24981613-24989296:+|nuORF;nc|ENSG00000133226|Q8IYB3-2|SRRM1;ENSG00000133226|ENST00000323848|SRRM1 ENST00000488317.1_1_1:24981619-24987388:+|nuORF ENST00000488317.1_1_1:24981619-24987388:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 346.553715 1036.63931 1.7743 0.00061488 1.1928 0.00041338 2.9671 0.0010283 346.5541763643116 12.558 0.11663 12.865 12.819 12.936 0.30727 -0.10394 0.00098443 NaN 28.495 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1442800 1466 2755 1222 1222 0.12246014985225884 APKPRPIKRSH 11 Unmodified _APKPRPIKRSH_ 0 0 0 REV__ENSG00000109861|ENST00000227266|CTSC REV__ENSG00000109861|ENST00000227266|CTSC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.9663696289062 2 643.893838 1285.77312 NaN NaN NaN NaN NaN NaN NaN 74.658 1 74.658 74.158 75.158 0 0 0 0 1.0041 1 36491 36491 5.2969 1.3525 1 + 1467 11186 1223 1223 1502 1502 0.14166673810791508 APKPRPTRLLG 11 Unmodified _APKPRPTRLLG_ 0 0 0 REV__ENSG00000159958|ENST00000291232|TNFRSF13C REV__ENSG00000159958|ENST00000291232|TNFRSF13C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 603.6137084960938 2 603.377489 1204.74043 NaN NaN NaN NaN NaN NaN NaN 69.754 1 69.754 69.254 70.254 0 0 0 0 0.99038 1 33741 33741 7.609 1.4032 1 + 1468 12860 1224 1224 1503 1503 0.1462446668792836 APKPYHKF 8 Unmodified _APKPYHKF_ 0 0 0 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000141503|Q8N4C8-2|MINK1;nc|ENSG00000141503|Q8N4C8-3|MINK1;nc|ENSG00000141503|Q8N4C8-4|MINK1;ENSG00000141503|ENST00000355280|MINK1;ENST00000459881.1_1_3:170784284-170789158:-|nuORF;ENST00000484051.5_1_3:170784284-170800202:-|nuORF;nc|ENSG00000154310|Q9UKE5-8|TNIK;nc|ENSG00000154310|Q9UKE5-5|TNIK;nc|ENSG00000154310|Q9UKE5-7|TNIK;nc|ENSG00000154310|Q9UKE5-3|TNIK;nc|ENSG00000154310|Q9UKE5-6|TNIK;nc|ENSG00000154310|Q9UKE5-2|TNIK;nc|ENSG00000154310|Q9UKE5-4|TNIK;ENSG00000154310|ENST00000436636|TNIK;nc|ENSG00000071054|O95819-4|MAP4K4;nc|ENSG00000071054|O95819|MAP4K4;nc|ENSG00000071054|O95819-5|MAP4K4;nc|ENSG00000071054|O95819-2|MAP4K4;nc|ENSG00000071054|O95819-6|MAP4K4;nc|ENSG00000071054|O95819-3|MAP4K4;ENSG00000071054|ENST00000324219|MAP4K4 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000071054|O95819-4|MAP4K4 nc|ENSG00000071054|O95819-4|MAP4K4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.2751770019531 2 494.27417 986.533787 2.9468 0.0014565 0.61385 0.00030341 3.5606 0.0017599 494.2745360359414 25.3 0.17899 26.063 25.988 26.167 0.76357 22 14 2 0 0 0 0.31901 1 11370 11370 34.102 22.462 1 265380 1469 9558;3262 1225 1225 1504 1504 0.0399809885960849 APKQAHFCCRY 11 Unmodified _APKQAHFCCRY_ 0 0 0 REV__ENST00000215906.5_1_22:26839168-26839342:+|nuORF REV__ENST00000215906.5_1_22:26839168-26839342:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 442.2151184082031 3 441.874353 1322.60123 NaN NaN NaN NaN NaN NaN NaN 67.182 1 67.182 66.682 67.682 0 0 0 0 1.0057 1 32165 32165 1.3296 0.11481 1 + 1470 14799 1226 1226 1505 1505 -0.047165622633883686 APKQKIFYFLY 11 Unmodified _APKQKIFYFLY_ 0 0 0 nc|ENSG00000214300|A6NKU9-2|SPDYE3;ENSG00000214300|ENST00000332397|SPDYE3 nc|ENSG00000214300|A6NKU9-2|SPDYE3 nc|ENSG00000214300|A6NKU9-2|SPDYE3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 709.400146484375 2 709.397556 1416.78056 NaN NaN NaN NaN NaN NaN NaN 68.835 1 68.835 68.335 69.335 0 0 0 0 1.0057 1 33169 33169 3.2813 0.28607 1 1471 6113 1227 1227 1506 1506 0.08883968567852207 APKQLHVLL 9 Unmodified _APKQLHVLL_ 0 0 0 REV__ENST00000493582.5_1_2:240274529-240323149:-|nuORF REV__ENST00000493582.5_1_2:240274529-240323149:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.8224792480469 2 509.824027 1017.6335 NaN NaN NaN NaN NaN NaN NaN 88.727 1 88.727 88.227 89.227 0 0 0 0 0.89509 1 46122 46122 4.756 0.81161 1 + 1472 16818 1228 1228 1507 1507 0.12538916473545214 APKREPQPIK 10 Unmodified _APKREPQPIK_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;TTN|p.R30215Vfs*13|1|0.21|ENSG00000155657|chr2:178545544-178545544|G/-|frameshift_variant;TTN|p.P20319Hfs*66|1|0.07|ENSG00000155657|chr2:178582577-178582578|-/AAAATAAATAT|frameshift_variant;TTN|p.A15448Hfs*16|1|0.24|ENSG00000155657|chr2:178610249-178610261|TTCTCCTCCCAGC/-|frameshift_variant;TTN|p.G17760Ifs*40|1|0.07|ENSG00000155657|chr2:178594192-178594193|-/TCGACTTCAGAGAT|frameshift_variant;TTN|p.V17759Afs*3|1|0.05|ENSG00000155657|chr2:178594194-178594195|-/G|frameshift_variant ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 582.3463745117188 2 582.348397 1162.68224 NaN NaN NaN NaN NaN NaN NaN 61.242 1 61.242 60.742 61.742 0 0 0 0 0.95221 1 28546 28546 13.042 2.9685 1 1473 3871 1229 1229 1508 1508 0.107407850426398 APKRGPSE 8 Unmodified _APKRGPSE_ 0 0 0 REV__ENST00000592611.5_1_18:34415331-34809581:+|nuORF REV__ENST00000592611.5_1_18:34415331-34809581:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 420.982666015625 2 421.229959 840.445365 NaN NaN NaN NaN NaN NaN NaN 45.055 1 45.881 45.381 46.381 0.82621 0 0 0 0.86524 1 20517 20517 14.582 1.0738 1 + 1474 12589 1230 1230 1509 1509 0.018760585491463644 APKRGRRWR 9 Unmodified _APKRGRRWR_ 0 0 0 ENST00000293261.7_1_19:48867285-48867390:-|nuORF ENST00000293261.7_1_19:48867285-48867390:-|nuORF ENST00000293261.7_1_19:48867285-48867390:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.5006713867188 2 591.85759 1181.70063 NaN NaN NaN NaN NaN NaN NaN 67.829 1 67.829 67.329 68.329 0 0 0 0 0.84134 1 32591 32591 7.9102 0.80843 1 1475 6742 1231 1231 1510 1510 0.11704384527888578 APKRKKRQ 8 Unmodified _APKRKKRQ_ 0 0 0 ENSG00000130305|ENST00000438747|NSUN5;nc|ENSG00000291151|Q3KNT7-3|NSUN5P1 ENSG00000130305|ENST00000438747|NSUN5 ENSG00000130305|ENST00000438747|NSUN5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.3288269042969 2 506.330342 1010.64613 NaN NaN NaN NaN NaN NaN NaN 82.163 1 82.163 81.663 82.663 0 0 0 0 0.99035 1 41043 41043 5.7604 0 1 1476 2585 1232 1232 1511 1511 0.14123372656456468 APKRKKTK 8 Unmodified _APKRKKTK_ 0 0 0 ENST00000520859.5_1_8:91017819-91018288:+|nuORF ENST00000520859.5_1_8:91017819-91018288:+|nuORF ENST00000520859.5_1_8:91017819-91018288:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.6844787597656 2 478.821818 955.629084 NaN NaN NaN NaN NaN NaN NaN 45.992 1 45.992 45.492 46.492 0 0 0 0 0.99035 1 21043 21043 2.8892 0.31174 1 1477 8636 1233 1233 1512 1512 0.14949452050643686 APKRKKTK 8 Unmodified _APKRKKTK_ 0 0 0 ENST00000520859.5_1_8:91017819-91018288:+|nuORF ENST00000520859.5_1_8:91017819-91018288:+|nuORF ENST00000520859.5_1_8:91017819-91018288:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.918212890625 2 478.821818 955.629084 NaN NaN NaN NaN NaN NaN NaN 66.23 1 66.23 65.73 66.73 0 0 0 0 0.99035 1 31633 31633 5.7604 0.52976 1 1478 8636 1233 1233 1513 1513 0.14949452050643686 APKRKPTTKPK 11 Unmodified _APKRKPTTKPK_ 0 0 0 REV__nc|ENSG00000205571|Q16637-4|SMN1 REV__nc|ENSG00000205571|Q16637-4|SMN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 626.3518676757812 2 626.398422 1250.78229 NaN NaN NaN NaN NaN NaN NaN 94.228 1 94.228 93.728 94.728 0 0 0 0 1.0038 1 50484 50484 5.7319 2.1354 1 + 1479 13535 1234 1234 1514 1514 0.16693022376443878 APKRLLRK 8 Unmodified _APKRLLRK_ 0 0 0 ENST00000609879.1_1_1:149399040-149399154:-|nuORF ENST00000609879.1_1_1:149399040-149399154:-|nuORF ENST00000609879.1_1_1:149399040-149399154:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.1401062011719 2 491.337636 980.660718 NaN NaN NaN NaN NaN NaN NaN 72.873 1 73.132 72.632 73.632 0.25876 0 0 0 0.99035 1 33458 33458 5.7604 1.0044 1 1480 9353 1235 1235 1515 1515 0.16961444804610437 APKRLLRKCRR 11 Unmodified _APKRLLRKCRR_ 0 0 0 ENST00000609879.1_1_1:149399040-149399154:-|nuORF ENST00000609879.1_1_1:149399040-149399154:-|nuORF ENST00000609879.1_1_1:149399040-149399154:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 698.9459838867188 2 698.943339 1395.87212 NaN NaN NaN NaN NaN NaN NaN 87.472 1 87.472 86.972 87.972 0 0 0 0 1.0057 1 45118 45118 3.2813 1.9518 1 1481 9353 1236 1236 1516 1516 0.1900237350403131 APKRMEHEDAF 11 Unmodified _APKRMEHEDAF_ 0 0 0 REV__ENSG00000153157|ENST00000283141|SYCP2L REV__ENSG00000153157|ENST00000283141|SYCP2L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 665.818603515625 2 665.814061 1329.61357 NaN NaN NaN NaN NaN NaN NaN 68.664 1 68.664 68.164 69.164 0 0 0 0 1.0057 1 33075 33075 3.2813 0 1 + 1482 12671 1237 1237 1517 1517 -0.038052473193602054 APKRMLYMPWG 11 Unmodified _APKRMLYMPWG_ 0 0 0 REV__ENSG00000134780|ENST00000257215|DAGLA REV__ENSG00000134780|ENST00000257215|DAGLA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 675.3453979492188 2 675.346486 1348.67842 NaN NaN NaN NaN NaN NaN NaN 62.026 1 62.026 61.526 62.526 0 0 0 0 1.0057 1 29020 29020 3.2813 0 1 + 1483 11982 1238 1238 1518 1518 0.01802655952906207 APKRRNQPDYY 11 Unmodified _APKRRNQPDYY_ 0 0 0 PBRM1|p.M1038Sfs*121|1|0.03|ENSG00000163939|chr3:52587363-52587363|A/-|frameshift_variant;ENSG00000163939|ENST00000707071|PBRM1;PBRM1|p.L1349Wfs*35|1|0.38|ENSG00000163939|chr3:52563324-52563324|G/-|frameshift_variant;PBRM1|p.V1336Sfs*48|1|0.44|ENSG00000163939|chr3:52563363-52563363|C/-|frameshift_variant;PBRM1|p.P1339Lfs*45|1|0.24|ENSG00000163939|chr3:52563353-52563353|G/-|frameshift_variant;PBRM1|p.Q1346Rfs*38|1|0.15|ENSG00000163939|chr3:52563332-52563332|T/-|frameshift_variant;PBRM1|p.K1293Nfs*20|1|0.2|ENSG00000163939|chr3:52563490-52563490|T/-|frameshift_variant;PBRM1|p.V1235Cfs*34|1|0.23|ENSG00000163939|chr3:52564222-52564222|C/-|frameshift_variant;PBRM1|p.E1222Kfs*5|2|0.51|ENSG00000163939|chr3:52576568-52576568|C/-|frameshift_variant;PBRM1|p.E1214Rfs*6|1|0.35|ENSG00000163939|chr3:52576592-52576593|-/T|frameshift_variant;PBRM1|p.D1403Lfs*18|1|0.2|ENSG00000163939|chr3:52561847-52561848|TC/-|frameshift_variant;PBRM1|p.G1161Afs*57|1|0.31|ENSG00000163939|chr3:52579107-52579107|A/-|frameshift_variant;PBRM1|p.I1197Ffs*21|1|0.4|ENSG00000163939|chr3:52576643-52576643|T/-|frameshift_variant;PBRM1|p.P1135Lfs*24|1|0.12|ENSG00000163939|chr3:52579183-52579183|G/-|frameshift_variant;PBRM1|p.I1073Lfs*86|1|0.27|ENSG00000163939|chr3:52586595-52586595|T/-|frameshift_variant;PBRM1|p.N1126Gfs*15|1|0.24|ENSG00000163939|chr3:52586432-52586436|AAGTT/-|frameshift_variant;PBRM1|p.A1104Gfs*3|1|0.37|ENSG00000163939|chr3:52586501-52586502|-/C|frameshift_variant;PBRM1|p.P1491Rfs*48|1|0.62|ENSG00000163939|chr3:52554861-52554861|G/-|frameshift_variant;PBRM1|p.K991Nfs*23|1|0.4|ENSG00000163939|chr3:52587503-52587503|T/-|frameshift_variant;PBRM1|p.P1534Hfs*5|1|0.44|ENSG00000163939|chr3:52554732-52554732|G/-|frameshift_variant;PBRM1|p.L1564Wfs*32|1|0.68|ENSG00000163939|chr3:52550627-52550627|A/-|frameshift_variant;nc|ENSG00000163939|Q86U86|PBRM1;nc|ENSG00000163939|Q86U86-8|PBRM1;nc|ENSG00000163939|Q86U86-2|PBRM1;PBRM1|p.S1607Qfs*5|1|0.34|ENSG00000163939|chr3:52550499-52550499|A/-|frameshift_variant;PBRM1|p.Q1560Nfs*37|1|0.46|ENSG00000163939|chr3:52550749-52550750|-/TT|frameshift_variant;nc|ENSG00000163939|Q86U86-9|PBRM1;PBRM1|p.F1594Lfs*2|1|0.68|ENSG00000163939|chr3:52550536-52550536|A/-|frameshift_variant;PBRM1|p.V1505Lfs*34|1|0.32|ENSG00000163939|chr3:52554823-52554823|G/-|frameshift_variant;nc|ENSG00000163939|Q86U86-3|PBRM1;nc|ENSG00000163939|Q86U86-7|PBRM1;nc|ENSG00000163939|Q86U86-4|PBRM1;nc|ENSG00000163939|Q86U86-5|PBRM1;PBRM1|p.Q1511Sfs*28|1|0.49|ENSG00000163939|chr3:52554802-52554802|G/-|frameshift_variant;PBRM1|p.F1216Yfs*3|1|0.2|ENSG00000163939|chr3:52576585-52576586|-/AT|frameshift_variant;PBRM1|p.L993Mfs*20|1|0.61|ENSG00000163939|chr3:52587496-52587499|ACAA/-|frameshift_variant;PBRM1|p.Y409Tfs*29|1|0.46|ENSG00000163939|chr3:52634678-52634678|A/-|frameshift_variant;PBRM1|p.E572*|1|0.4|ENSG00000163939|chr3:52617366-52617367|-/A|frameshift_variant;PBRM1|p.G401Vfs*20|1|0.17|ENSG00000163939|chr3:52634650-52634701|GGGTATTTTTTCTTTGAAGGCAAATGGTAAAAAGGTTCAGCTATTAGCTGCC/-|frameshift_variant;PBRM1|p.Y281Lfs*2|1|0.19|ENSG00000163939|chr3:52644761-52644761|T/-|frameshift_variant;PBRM1|p.K283Rfs*3|1|0.16|ENSG00000163939|chr3:52644748-52644755|AGCCTTTT/-|frameshift_variant;PBRM1|p.I279Nfs*8|1|0.35|ENSG00000163939|chr3:52644767-52644768|-/T|frameshift_variant;PBRM1|p.E291Dfs*3|1|0.31|ENSG00000163939|chr3:52644729-52644730|TT/-|frameshift_variant;PBRM1|p.M292Ifs*5|1|0.14|ENSG00000163939|chr3:52644718-52644727|TGACTTAGCC/-|frameshift_variant;PBRM1|p.N325Ifs*37|1|0.22|ENSG00000163939|chr3:52643269-52643269|T/-|frameshift_variant;PBRM1|p.Q209Rfs*15|1|0.5|ENSG00000163939|chr3:52658220-52658220|A/-|frameshift_variant;PBRM1|p.Y417Ifs*3|1|0.4|ENSG00000163939|chr3:52634654-52634655|-/T|frameshift_variant;PBRM1|p.W992Mfs*12|1|0.27|ENSG00000163939|chr3:52587502-52587503|-/T|frameshift_variant;PBRM1|p.K909Nfs*6|1|0.29|ENSG00000163939|chr3:52603573-52603573|T/-|frameshift_variant;PBRM1|p.L448Wfs*5|1|0.32|ENSG00000163939|chr3:52628994-52628994|A/-|frameshift_variant;PBRM1|p.N517Hfs*15|1|0.6|ENSG00000163939|chr3:52617531-52617532|TC/-|frameshift_variant;PBRM1|p.I571Mfs*16|1|0.4|ENSG00000163939|chr3:52617367-52617367|A/-|frameshift_variant;PBRM1|p.Y600Ifs*42|1|0.42|ENSG00000163939|chr3:52617283-52617283|G/-|frameshift_variant;PBRM1|p.L617Ffs*25|1|0.47|ENSG00000163939|chr3:52615424-52615424|T/-|frameshift_variant;PBRM1|p.K638Nfs*4|1|0.35|ENSG00000163939|chr3:52615361-52615361|T/-|frameshift_variant;PBRM1|p.N663Mfs*7|1|0.47|ENSG00000163939|chr3:52609892-52609892|T/-|frameshift_variant;PBRM1|p.Y697*|1|0.43|ENSG00000163939|chr3:52609782-52609792|TAGTCAGATAG/-|frameshift_variant;PBRM1|p.D748Mfs*27|2|0.36|ENSG00000163939|chr3:52609638-52609638|C/-|frameshift_variant;nc|ENSG00000163939|Q86U86-6|PBRM1;PBRM1|p.R836Lfs*12|1|0.26|ENSG00000163939|chr3:52609352-52609373|TGCTCTTGAAATAAATCAAGCC/-|frameshift_variant;PBRM1|p.N832Ifs*23|1|0.36|ENSG00000163939|chr3:52609385-52609385|T/-|frameshift_variant;PBRM1|p.Y862*|1|0.5|ENSG00000163939|chr3:52603672-52603715|ACGAATTTTAATAAAAAACTGCTGAAGTTCTACTGCATCTTCAT/-|frameshift_variant;PBRM1|p.Q869Sfs*6|1|0.26|ENSG00000163939|chr3:52603695-52603696|-/A|frameshift_variant;PBRM1|p.D115Sfs*57|1|0.28|ENSG00000163939|chr3:52668533-52668539|GGAAGTC/-|frameshift_variant;PBRM1|p.Y134Ifs*2|1|0.34|ENSG00000163939|chr3:52662261-52662262|-/T|frameshift_variant;PBRM1|p.D142Gfs*9|1|0.33|ENSG00000163939|chr3:52662236-52662237|-/C|frameshift_variant;PBRM1|p.N122Kfs*47|1|0.2|ENSG00000163939|chr3:52668501-52668516|ATAATAGGACTTTGCA/-|frameshift_variant;PBRM1|p.F120*|1|0.19|ENSG00000163939|chr3:52668522-52668523|AA/-|frameshift_variant;PBRM1|p.T172Qfs*2|1|0.26|ENSG00000163939|chr3:52662148-52662148|G/-|frameshift_variant;PBRM1|p.E160Kfs*14|1|0.68|ENSG00000163939|chr3:52662183-52662183|C/-|frameshift_variant;PBRM1|p.V194Cfs*11|1|0.23|ENSG00000163939|chr3:52658263-52658264|AC/-|frameshift_variant;PBRM1|p.N110Ifs*3|1|0.45|ENSG00000163939|chr3:52668553-52668553|T/-|frameshift_variant PBRM1|p.M1038Sfs*121|1|0.03|ENSG00000163939|chr3:52587363-52587363|A/-|frameshift_variant PBRM1|p.M1038Sfs*121|1|0.03|ENSG00000163939|chr3:52587363-52587363|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 704.3584594726562 2 704.360025 1406.7055 NaN NaN NaN NaN NaN NaN NaN 67.32 1 68.022 67.522 68.522 0.70218 0 0 0 1.0057 1 31989 31989 3.2813 1.7994 1 1484 9905 1239 1239 1519 1519 0.01841179089342404 APKRRRLSQR 10 Unmodified _APKRRRLSQR_ 0 0 0 REV__ENST00000599594.1_1_19:41188932-41196472:-|nuORF REV__ENST00000599594.1_1_19:41188932-41196472:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 634.39599609375 2 634.394536 1266.77452 NaN NaN NaN NaN NaN NaN NaN 76.48 1 76.735 76.235 77.235 0.25533 0 0 0 0.99733 1 35212 35212 3.9444 0.3479 1 + 1485 11022 1240 1240 1520 1520 0.15180307899549916 APKRRRRGRR 10 Unmodified _APKRRRRGRR_ 0 0 0 ENST00000610272.1_1_1:179851241-179851412:-|nuORF ENST00000610272.1_1_1:179851241-179851412:-|nuORF ENST00000610272.1_1_1:179851241-179851412:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 654.9186401367188 2 654.919044 1307.82354 NaN NaN NaN NaN NaN NaN NaN 79.34 1 80.001 79.501 80.501 0.66082 0 0 0 1.0011 1 36557 36557 1.8442 0.19162 1 1486 9355 1241 1241 1521 1521 0.1819364097914331 APKRRRRHP 9 Unmodified _APKRRRRHP_ 0 0 0 ENST00000273854.7_2_4:66468008-66535587:-|nuORF ENST00000273854.7_2_4:66468008-66535587:-|nuORF ENST00000273854.7_2_4:66468008-66535587:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.8154907226562 2 587.363039 1172.71153 NaN NaN NaN NaN NaN NaN NaN 74.884 1 75.549 75.049 76.049 0.6644 0 0 0 0.90511 1 34487 34487 2.3027 0.4585 1 1487 6663 1242 1242 1522 1522 0.13207786902171392 APKRRSGR 8 Unmodified _APKRRSGR_ 0 0 0 REV__ENSG00000139218|ENST00000369367|SCAF11 REV__ENSG00000139218|ENST00000369367|SCAF11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.4137268066406 2 464.283392 926.552231 NaN NaN NaN NaN NaN NaN NaN 74.28 1 74.967 74.467 75.467 0.68662 0 0 0 0.99035 1 35898 35898 5.7604 0 1 + 1488 12207 1243 1243 1523 1523 0.08601653554183031 APKSEEFSD 9 Unmodified _APKSEEFSD_ 0 0 0 ENSG00000038219|ENST00000040738|BOD1L1 ENSG00000038219|ENST00000040738|BOD1L1 ENSG00000038219|ENST00000040738|BOD1L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.32110595703125 2 505.227279 1008.44001 NaN NaN NaN NaN NaN NaN NaN 17.285 1 17.486 16.986 17.986 0.20057 0 0 0 0.82031 1 7645 7645 8.5933 1.304 1 1489 519 1244 1244 1524 1524 -0.06387709823991372 APKSFWERFYQ 11 Unmodified _APKSFWERFYQ_ 0 0 0 REV__ENST00000566338.5_1_15:31233675-31240771:-|nuORF REV__ENST00000566338.5_1_15:31233675-31240771:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 729.8604736328125 2 729.861869 1457.70918 NaN NaN NaN NaN NaN NaN NaN 75.276 1 75.94 75.44 76.44 0.6644 0 0 0 1.008 1 34674 34674 0.35063 0 1 + 1490 13269 1245 1245 1525 1525 -0.0013615113682590163 APKSGSHE 8 Unmodified _APKSGSHE_ 0 0 0 ENSG00000180644|ENST00000441259|PRF1 ENSG00000180644|ENST00000441259|PRF1 ENSG00000180644|ENST00000441259|PRF1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 812.0567626953125 1 812.389707 811.382431 4.6778 0.0038002 1.3506 0.0010972 6.0284 0.0048974 812.3932314534037 96.646 0.055641 96.923 96.881 96.937 0.27779 4 2 2 0 0 0 0.14111 1 44389 44389 5.7604 2.8712 1 620940 1491 5258 1246 1246 1526 1526 -0.030805072389057386 APKSKKKSF 9 Unmodified _APKSKKKSF_ 0 0 0 REV__ENSG00000185775|ENST00000332857|SPATA31A6 REV__ENSG00000185775|ENST00000332857|SPATA31A6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.8390808105469 2 510.813659 1019.61277 NaN NaN NaN NaN NaN NaN NaN 60.873 1 61.612 61.112 62.112 0.7396 0 0 0 0.72654 1 28158 28158 11.64 1.5664 1 + 1492 14029 1247 1247 1527 1527 0.10374326093904074 APKSLQLQDIP 11 Unmodified _APKSLQLQDIP_ 0 0 0 REV__nc|ENSG00000254838|Q7Z2Y8|GVINP1 REV__nc|ENSG00000254838|Q7Z2Y8|GVINP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 605.3460083007812 2 605.34552 1208.67649 NaN NaN NaN NaN NaN NaN NaN 97.126 1 97.196 96.696 97.696 0.070648 0 0 0 0.94958 1 51825 51825 11.495 3.5846 1 + 1493 18151 1248 1248 1528 1528 0.08049641740331026 APKSRMKQLSR 11 Unmodified _APKSRMKQLSR_ 0 0 0 REV__nc|ENSG00000106344|Q9NW13-2|RBM28 REV__nc|ENSG00000106344|Q9NW13-2|RBM28 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 651.3748168945312 2 651.377163 1300.73977 NaN NaN NaN NaN NaN NaN NaN 61.827 1 61.827 61.327 62.327 0 0 0 0 1.0041 1 28883 28883 5.2969 2.0156 1 + 1494 11078 1249 1249 1529 1529 0.10143303976587958 APKSVSLGL 9 Unmodified _APKSVSLGL_ 0 0 0 REV__ENSG00000197808|ENST00000588268|ZNF461 REV__ENSG00000197808|ENST00000588268|ZNF461 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.7649841308594 2 436.26601 870.517468 2.7863 0.0012156 -3.8199 -0.0016665 -1.0335 -0.00045089 436.2659958156624 14.335 0.16783 14.561 14.471 14.638 0.22622 25 14 3 0 0 0 0.16976 1 6290 6290 25.399 1.3787 1 337350 + 1495 14300 1250 1250 1530 1530 0.07702972902859528 APKSVTDYDFA 11 Unmodified _APKSVTDYDFA_ 0 0 0 nc|ENSG00000196586|Q9UM54-2|MYO6;ENSG00000196586|ENST00000369977|MYO6;nc|ENSG00000196586|Q9UM54|MYO6 nc|ENSG00000196586|Q9UM54-2|MYO6 nc|ENSG00000196586|Q9UM54-2|MYO6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 607.2909545898438 2 607.290411 1212.56627 NaN NaN NaN NaN NaN NaN NaN 89.615 1 89.68 89.18 90.18 0.064346 0 0 0 1.0041 1 45967 45967 5.2969 0.96765 1 1496 5759 1251 1251 1531 1531 -0.03151203318725493 APKTIKRVLMS 11 Unmodified _APKTIKRVLMS_ 0 0 0 ENST00000537390.5_3_6:160209145-160210586:-|nuORF ENST00000537390.5_3_6:160209145-160210586:-|nuORF ENST00000537390.5_3_6:160209145-160210586:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 622.8418579101562 2 622.381383 1242.74821 NaN NaN NaN NaN NaN NaN NaN 90.253 1 90.253 89.753 90.753 0 0 0 0 1.0041 1 47377 47377 5.2969 1.3525 1 1497 8776 1252 1252 1532 1532 0.13654857893197914 APKTKKIKAFR 11 Unmodified _APKTKKIKAFR_ 0 0 0 nc|ENSG00000168137|Q9C0A6-3|SETD5 nc|ENSG00000168137|Q9C0A6-3|SETD5 nc|ENSG00000168137|Q9C0A6-3|SETD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.3050537109375 2 644.416614 1286.81868 NaN NaN NaN NaN NaN NaN NaN 62.641 1 62.641 62.141 63.141 0 0 0 0 1.0041 1 29373 29373 5.2969 2.3016 1 1498 9743 1253 1253 1533 1533 0.186738992731307 APKVAKGVRRV 11 Unmodified _APKVAKGVRRV_ 0 0 0 ENSG00000198812|ENST00000361484|LRRC10 ENSG00000198812|ENST00000361484|LRRC10 ENSG00000198812|ENST00000361484|LRRC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.1038208007812 2 590.885481 1179.75641 NaN NaN NaN NaN NaN NaN NaN 83.047 1 83.092 82.592 83.592 0.045006 0 0 0 1.0057 1 41118 41118 3.2813 0 1 1499 5939 1254 1254 1534 1534 0.17372172924842744 APKVFKMA 8 Unmodified _APKVFKMA_ 0 0 0 nc|ENSG00000171204|Q8IUX1-4|TMEM126B;nc|ENSG00000171204|Q8IUX1-2|TMEM126B;ENSG00000171204|ENST00000358867|TMEM126B nc|ENSG00000171204|Q8IUX1-4|TMEM126B nc|ENSG00000171204|Q8IUX1-4|TMEM126B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 446.41650390625 2 446.259674 890.504795 NaN NaN NaN NaN NaN NaN NaN 69.179 1 69.881 69.381 70.381 0.70218 0 0 0 0.99035 1 33085 33085 5.7604 1.0044 1 1500 4794 1255 1255 1535 1535 0.05516238238965343 APKVFYIAA 9 Unmodified _APKVFYIAA_ 0 0 0 ENSG00000167733|ENST00000339423|HSD11B1L;nc|ENSG00000167733|Q7Z5J1|HSD11B1L ENSG00000167733|ENST00000339423|HSD11B1L ENSG00000167733|ENST00000339423|HSD11B1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.0007019042969 2 490.284203 978.553853 NaN NaN NaN NaN NaN NaN NaN 71.005 1 71.709 71.209 72.209 0.70386 0 0 0 0.84134 1 34065 34065 7.9102 2.1497 1 1501 4578 1256 1256 1536 1536 0.06371849799552365 APKVQIPRNMG 11 Unmodified _APKVQIPRNMG_ 0 0 0 REV__ENST00000379915.4_1_15:72581750-72612068:-|nuORF REV__ENST00000379915.4_1_15:72581750-72612068:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 605.842529296875 2 605.839882 1209.66521 NaN NaN NaN NaN NaN NaN NaN 72.154 1 72.818 72.318 73.318 0.66324 0 0 0 0.97845 1 33080 33080 8.7454 2.0222 1 + 1502 10898 1257 1257 1537 1537 0.0687654116518388 APKVRKPGR 9 Unmodified _APKVRKPGR_ 0 0 0 nc|nan|Q6ZRI6-3|C15orf39;ENST00000567617.1_1_15:75501147-75503457:+|nuORF;ENSG00000167173|ENST00000394987|C15orf39 nc|nan|Q6ZRI6-3|C15orf39 nc|nan|Q6ZRI6-3|C15orf39 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.6625671386719 2 504.824892 1007.63523 NaN NaN NaN NaN NaN NaN NaN 67.023 1 67.728 67.228 68.228 0.7047 0 0 0 0.89509 1 31809 31809 4.756 2.1785 1 1503 4534 1258 1258 1538 1538 0.13171970282178336 APKVVILSK 9 Unmodified _APKVVILSK_ 0 0 0 ENSG00000116990|ENST00000372816|MYCL;nc|ENSG00000116990|P12524-3|MYCL ENSG00000116990|ENST00000372816|MYCL ENSG00000116990|ENST00000372816|MYCL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 477.9632873535156 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 98.184 1 98.473 97.973 98.973 0.28923 0 0 0 0.90699 1 45189 45189 1.8442 0 1 1504 2056 1259 1259 1539 1539 0.14868398242037983 APKWENERLYF 11 Unmodified _APKWENERLYF_ 0 0 0 REV__ENST00000494672.1_1_3:56600939-56606391:+|nuORF REV__ENST00000494672.1_1_3:56600939-56606391:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.92559814453125 3 484.91386 1451.71975 NaN NaN NaN NaN NaN NaN NaN 62.759 1 63.482 62.982 63.982 0.72236 0 0 0 1.0057 1 29327 29327 1.3296 0 1 + 1505 16829 1260 1260 1540 1540 0.011958315175888856 APKWENERLYF 11 Unmodified _APKWENERLYF_ 0 0 0 REV__ENST00000494672.1_1_3:56600939-56606391:+|nuORF REV__ENST00000494672.1_1_3:56600939-56606391:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 726.8084106445312 2 726.867151 1451.71975 NaN NaN NaN NaN NaN NaN NaN 109.42 1 109.73 109.23 110.23 0.31015 0 0 0 1.0071 1 50443 50443 1.4819 0 1 + 1506 16829 1260 1260 1541 1541 0.011958315175888856 APKWFYSSKT 10 Unmodified _APKWFYSSKT_ 0 0 0 REV__ENST00000361138.6_1_9:72967302-72967377:+|nuORF REV__ENST00000361138.6_1_9:72967302-72967377:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 607.7681884765625 2 607.813856 1213.61316 NaN NaN NaN NaN NaN NaN NaN 87.609 1 87.609 87.109 88.109 0 0 0 0 0.97944 1 45223 45223 8.7454 4.2165 1 + 1507 15621 1261 1261 1542 1542 0.014897010230924934 APLATLKLD 9 Unmodified _APLATLKLD_ 0 0 0 ENST00000405402.6_1_16:85706428-85706470:+|nuORF ENST00000405402.6_1_16:85706428-85706470:+|nuORF ENST00000405402.6_1_16:85706428-85706470:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 314.71295166015625 3 314.527054 940.559333 2.271 0.0007143 0.40127 0.00012621 2.6723 0.00084051 314.52724642451534 38.239 0.24467 39.035 38.871 39.115 0.79552 17 8 3 0 0 0 0.11293 1 17257 17257 0.96228 0.0979 1 320470 1508 7634 1262 1262 1543 1543 0.0866752859137705 APLCLWYD 8 Unmodified _APLCLWYD_ 0 0 0 REV__nc|ENSG00000198431|Q16881-6|TXNRD1 REV__nc|ENSG00000198431|Q16881-6|TXNRD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 490.7324523925781 2 490.730946 979.447339 3.2344 0.0015872 0.25686 0.00012605 3.4912 0.0017133 490.73112164012883 49.372 0.30003 49.633 49.427 49.727 0.26146 17 10 2 0 0 0 0.34607 1 22552 22552 32.117 3.6301 1 387080 + 1509 18103 1263 1263 1544 1544 -0.043206487572888364 APLCRFFLYYH 11 Unmodified _APLCRFFLYYH_ 0 0 0 REV__ENST00000394249.7_1_15:91509410-91509812:-|nuORF REV__ENST00000394249.7_1_15:91509410-91509812:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 715.816162109375 2 715.357908 1428.70126 NaN NaN NaN NaN NaN NaN NaN 45.387 1 45.387 44.887 45.887 0 0 0 0 1.0057 1 20762 20762 3.2813 0.28607 1 + 1510 15962 1264 1264 1545 1545 0.004059983420802382 APLDDTQRW 9 Unmodified _APLDDTQRW_ 0 0 0 nc|ENSG00000249948|Q9H227|GBA3 nc|ENSG00000249948|Q9H227|GBA3 nc|ENSG00000249948|Q9H227|GBA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.2715454101562 2 551.269813 1100.52507 NaN NaN NaN NaN NaN NaN NaN 90.174 1 90.174 89.674 90.674 0 0 0 0 0.89509 1 47314 47314 4.756 0 1 1511 9849 1265 1265 1546 1546 -0.02116919567538389 APLEDEATL 9 Unmodified _APLEDEATL_ 0 0 0 ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 479.7414245605469 2 479.740022 957.465492 3.0578 0.001467 -0.38531 -0.00018485 2.6725 0.0012821 479.73980362551043 49.512 0.43752 49.512 49.297 49.735 0 54 18 4 0 0 0 0.0061269 3 22674 22616;22674;22728 89.427 25.19 1 4324200 1512 3659 1266 1266 1547;1548;1549 1548 -0.014942353015612753 APLEDEATL 9 Unmodified _APLEDEATL_ 0 0 0 ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 958.4766235351562 1 958.472768 957.465492 3.6169 0.0034667 -0.037712 -3.6146E-05 3.5791 0.0034305 958.472623633118 49.503 0.41053 49.503 49.324 49.735 0 35 17 3 0 0 0 0.0026885 3 22672 22625;22672;22726 97.075 29.731 1 1830200 1513 3659 1266 1266 1550;1551;1552 1551 -0.014942353015612753 APLEDEATL 9 Unmodified _APLEDEATL_ 0 0 0 ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 958.4769287109375 1 958.472768 957.465492 3.6022 0.0034526 0.08377 8.0292E-05 3.6859 0.0035329 958.4730855302408 48.622 0.36598 49.449 49.296 49.662 0.82705 48 20 3 0 0 0 0.0026885 3 22160 22104;22160;22203 97.075 35.717 1 2138600 1514 3659 1266 1266 1553;1554;1555 1554 -0.014942353015612753 APLEDEATL 9 Unmodified _APLEDEATL_ 0 0 0 ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.7410583496094 2 479.740022 957.465492 3.0738 0.0014746 -0.24312 -0.00011663 2.8307 0.001358 479.73986123727303 48.627 0.47088 49.454 49.236 49.707 0.82705 70 26 4 0 0 0 0.0061269 3 22114 22114;22167;22213 89.427 25.19 1 5365100 1515 3659 1266 1266 1556;1557;1558 1556 -0.014942353015612753 APLEDEATL 9 Unmodified _APLEDEATL_ 0 0 0 ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.74139404296875 2 479.740022 957.465492 3.1308 0.001502 -0.05304 -2.5445E-05 3.0778 0.0014765 479.7399434970352 49.336 0.47818 49.598 49.361 49.839 0.26146 53 17 4 0 0 0 0.0061269 3 22545 22491;22545;22606 89.427 19.86 1 4716700 1516 3659 1266 1266 1559;1560;1561 1560 -0.014942353015612753 APLEDEATL 9 Unmodified _APLEDEATL_ 0 0 0 ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 958.4758911132812 1 958.472768 957.465492 3.7591 0.003603 -0.23162 -0.000222 3.5275 0.003381 958.4723144028924 49.315 0.35476 49.576 49.427 49.782 0.26146 29 12 3 0 0 0 0.0026885 2 22543 22543;22592 97.075 39.603 1 1894000 1517 3659 1266 1266 1562;1563 1562 -0.014942353015612753 APLEDEATL 9 Unmodified _APLEDEATL_ 0 0 0 ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.7405700683594 2 479.740022 957.465492 3.2445 0.0015565 -0.07378 -3.5395E-05 3.1707 0.0015211 479.7399630998516 48.885 0.51047 49.54 49.281 49.791 0.65524 53 18 4 0 0 0 0.0061269 3 22315 22315;22368;22417 89.427 34.653 1 3952100 1518 3659 1266 1266 1564;1565;1566 1564 -0.014942353015612753 APLEDEATL 9 Unmodified _APLEDEATL_ 0 0 0 ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 958.4752807617188 1 958.472768 957.465492 3.9275 0.0037644 0.062609 6.0009E-05 3.9901 0.0038244 958.4725428004015 48.888 0.36229 49.543 49.371 49.734 0.65524 30 13 3 0 0 0 0.0026885 2 22377 22331;22377 97.075 25.941 1 1976900 1519 3659 1266 1266 1567;1568 1568 -0.014942353015612753 APLEPESPT 9 Unmodified _APLEPESPT_ 0 0 0 REV__ENST00000565797.2_1_19:1875564-1875945:-|nuORF REV__ENST00000565797.2_1_19:1875564-1875945:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.73480224609375 2 470.73474 939.454927 NaN NaN NaN NaN NaN NaN NaN 49.554 1 49.554 49.054 50.054 0 0 0 0 0.42757 1 22691 22691 21.747 0 1 + 1520 17418 1267 1267 1569 1569 -0.017222179560008044 APLEPTCPQS 10 Unmodified _APLEPTCPQS_ 0 0 0 REV__nc|ENSG00000186185|Q86Y91-6|KIF18B REV__nc|ENSG00000186185|Q86Y91-6|KIF18B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.1676330566406 3 348.167308 1041.4801 NaN NaN NaN NaN NaN NaN NaN 44.882 1 45.149 44.649 45.649 0.26768 0 0 0 0.98747 1 20514 20514 7.4771 0.18784 1 + 1521 18081 1268 1268 1570 1570 -0.03898486425077863 APLEVFRRFVW 11 Unmodified _APLEVFRRFVW_ 0 0 0 nc|ENSG00000143324|Q9UBH6-2|XPR1;ENSG00000143324|ENST00000367590|XPR1 nc|ENSG00000143324|Q9UBH6-2|XPR1 nc|ENSG00000143324|Q9UBH6-2|XPR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 710.3987426757812 2 710.398422 1418.78229 NaN NaN NaN NaN NaN NaN NaN 61.572 1 61.572 61.072 62.072 0 0 0 0 1.0071 1 28734 28734 1.4819 0 1 1522 3358 1269 1269 1571 1571 0.08965022376446541 APLEVFRRFVW 11 Unmodified _APLEVFRRFVW_ 0 0 0 nc|ENSG00000143324|Q9UBH6-2|XPR1;ENSG00000143324|ENST00000367590|XPR1 nc|ENSG00000143324|Q9UBH6-2|XPR1 nc|ENSG00000143324|Q9UBH6-2|XPR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 710.3983764648438 2 710.398422 1418.78229 NaN NaN NaN NaN NaN NaN NaN 62.279 1 63.009 62.509 63.509 0.73077 0 0 0 1.0071 1 29008 29008 1.4819 0 1 1523 3358 1269 1269 1572 1572 0.08965022376446541 APLEYDDS 8 Unmodified _APLEYDDS_ 0 0 0 nc|ENSG00000091879|O15123-2|ANGPT2;ENSG00000091879|ENST00000629816|ANGPT2;nc|ENSG00000091879|O15123|ANGPT2 nc|ENSG00000091879|O15123-2|ANGPT2 nc|ENSG00000091879|O15123-2|ANGPT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 455.362060546875 2 455.195448 908.376342 NaN NaN NaN NaN NaN NaN NaN 70.176 1 70.176 69.676 70.676 0 0 0 0 0.99035 1 34012 34012 6.3541 0 1 1524 1085 1270 1270 1573 1573 -0.08151070261089899 APLFFPLSLFR 11 Unmodified _APLFFPLSLFR_ 0 0 0 REV__ENST00000343110.2_1_1:203456044-203456392:+|nuORF REV__ENST00000343110.2_1_1:203456044-203456392:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 436.58978271484375 3 436.588536 1306.74378 NaN NaN NaN NaN NaN NaN NaN 60.805 1 60.805 60.305 61.305 0 0 0 0 1.006 1 28306 28306 2.8433 0.4085 1 + 1525 15484 1271 1271 1574 1574 0.10267716741941513 APLFHILIAV 10 Unmodified _APLFHILIAV_ 0 0 0 REV__nc|ENSG00000196811|P07510-2|CHRNG REV__nc|ENSG00000196811|P07510-2|CHRNG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.3427734375 2 547.342052 1092.66955 NaN NaN NaN NaN NaN NaN NaN 92.631 1 92.717 92.217 93.217 0.086212 0 0 0 0.99687 1 48332 48332 4.3292 2.0265 1 + 1526 14241 1272 1272 1575 1575 0.12692373650406807 APLFLIRAASL 11 Unmodified _APLFLIRAASL_ 0 0 0 ENST00000345317.6_1_7:26894494-26904350:-|nuORF ENST00000345317.6_1_7:26894494-26904350:-|nuORF ENST00000345317.6_1_7:26894494-26904350:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.3634033203125 2 586.363516 1170.71248 NaN NaN NaN NaN NaN NaN NaN 70.552 1 70.552 70.052 71.052 0 0 0 0 0.9645 1 34254 34254 10.074 0 1 1527 7110 1273 1273 1576 1576 0.13395143707839452 APLHNIKQQT 10 Unmodified _APLHNIKQQT_ 0 0 0 REV__nc|ENSG00000089234|Q7Z569-2|BRAP REV__nc|ENSG00000089234|Q7Z569-2|BRAP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.9906005859375 2 575.32238 1148.63021 NaN NaN NaN NaN NaN NaN NaN 98.796 1 99.095 98.595 99.595 0.29987 0 0 0 0.96109 1 45552 45552 11.64 0.14559 1 + 1528 10695 1274 1274 1577 1577 0.06183621628883884 APLHRERRELF 11 Unmodified _APLHRERRELF_ 0 0 0 REV__ENST00000248054.9_2_19:16989547-16989730:+|nuORF REV__ENST00000248054.9_2_19:16989547-16989730:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 712.3978271484375 2 712.399484 1422.78442 NaN NaN NaN NaN NaN NaN NaN 66.888 1 67.593 67.093 68.093 0.7047 0 0 0 1.0038 1 31735 31735 5.7319 2.1354 1 + 1529 14902 1275 1275 1578 1578 0.08993451114270101 APLIAPPEPPI 11 Unmodified _APLIAPPEPPI_ 0 0 0 REV__nc|ENSG00000142675|Q969H4|CNKSR1 REV__nc|ENSG00000142675|Q969H4|CNKSR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.8338623046875 2 557.828975 1113.6434 4.3943 0.0024512 3.6459 0.0020338 8.0402 0.0044851 557.8312888832843 97.439 0.16054 97.728 97.632 97.793 0.28923 12 6 3 0 0 0 0.82535 1 44778 44778 5.7319 0 1 1083500 + 1530 12342 1276 1276 1579 1579 0.09112059688277441 APLIAPPEPPI 11 Unmodified _APLIAPPEPPI_ 0 0 0 REV__nc|ENSG00000142675|Q969H4|CNKSR1 REV__nc|ENSG00000142675|Q969H4|CNKSR1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 557.828975 1113.6434 4.3943 0.0024512 3.6459 0.0020338 8.0402 0.0044851 557.8312888832843 97.439 0.16054 97.728 97.632 97.793 0.28923 0.064668 -0.00037029 NaN 5.7319 12 6 3 NaN NaN NaN NaN 0 NaN NaN 0 1083500 + 1531 12342 1276 1276 0.09112059688277441 APLIHFVKLVR 11 Unmodified _APLIHFVKLVR_ 0 0 0 ENSG00000139304|ENST00000644991|PTPRQ;nc|ENSG00000139304|Q9UMZ3|PTPRQ ENSG00000139304|ENST00000644991|PTPRQ ENSG00000139304|ENST00000644991|PTPRQ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 646.9164428710938 2 646.913707 1291.81286 NaN NaN NaN NaN NaN NaN NaN 97.34 1 97.629 97.129 98.129 0.28923 0 0 0 1.0071 1 44709 44709 1.4819 0 1 1532 3142 1277 1277 1580 1580 0.17862800761486142 APLIHQKMFHK 11 Unmodified _APLIHQKMFHK_ 0 0 0 REV__ENST00000471702.2_2_3:132339980-132400782:-|nuORF REV__ENST00000471702.2_2_3:132339980-132400782:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 675.3822021484375 2 675.379175 1348.7438 NaN NaN NaN NaN NaN NaN NaN 70.432 1 70.432 69.932 70.932 0 0 0 0 1.0055 1 34171 34171 3.5965 0 1 + 1533 14606 1278 1278 1581 1581 0.0833739347028768 APLILQHRKFR 11 Unmodified _APLILQHRKFR_ 0 0 0 REV__ENSG00000100982|ENST00000372409|PCIF1 REV__ENSG00000100982|ENST00000372409|PCIF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 689.9262084960938 2 689.925138 1377.83572 NaN NaN NaN NaN NaN NaN NaN 105.3 1 105.9 105.4 106.4 0.59969 0 0 0 1.0071 1 48629 48629 1.4819 1.0236 1 + 1534 10858 1279 1279 1582 1582 0.16191819878940805 APLKGILPLVP 11 Unmodified _APLKGILPLVP_ 0 0 0 REV__nc|ENSG00000186566|Q9UKJ3-2|GPATCH8 REV__nc|ENSG00000186566|Q9UKJ3-2|GPATCH8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.3703002929688 2 559.37081 1116.72707 NaN NaN NaN NaN NaN NaN NaN 95.333 1 95.601 95.101 96.101 0.2675 0 0 0 1.0071 1 43803 43803 1.4819 0 1 + 1535 14062 1280 1280 1583 1583 0.1733721585596868 APLKGILPLVP 11 Unmodified _APLKGILPLVP_ 0 0 0 REV__nc|ENSG00000186566|Q9UKJ3-2|GPATCH8 REV__nc|ENSG00000186566|Q9UKJ3-2|GPATCH8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.370361328125 2 559.37081 1116.72707 NaN NaN NaN NaN NaN NaN NaN 93.642 1 94.273 93.773 94.773 0.63115 0 0 0 1.0071 1 43074 43074 1.4819 0 1 + 1536 14062 1280 1280 1584 1584 0.1733721585596868 APLKGILPLVP 11 Unmodified _APLKGILPLVP_ 0 0 0 REV__nc|ENSG00000186566|Q9UKJ3-2|GPATCH8 REV__nc|ENSG00000186566|Q9UKJ3-2|GPATCH8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.3726196289062 2 559.37081 1116.72707 NaN NaN NaN NaN NaN NaN NaN 93.887 1 94.518 94.018 95.018 0.63115 0 0 0 1.0071 1 43184 43184 1.4819 0 1 + 1537 14062 1280 1280 1585 1585 0.1733721585596868 APLKGILPLVP 11 Unmodified _APLKGILPLVP_ 0 0 0 REV__nc|ENSG00000186566|Q9UKJ3-2|GPATCH8 REV__nc|ENSG00000186566|Q9UKJ3-2|GPATCH8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.3727416992188 2 559.37081 1116.72707 NaN NaN NaN NaN NaN NaN NaN 96.043 1 96.651 96.151 97.151 0.60769 0 0 0 1.0071 1 44163 44163 1.4819 0 1 + 1538 14062 1280 1280 1586 1586 0.1733721585596868 APLKKWRKVLL 11 Unmodified _APLKKWRKVLL_ 0 0 0 REV__ENST00000591086.1_1_18:57684440-57684650:-|nuORF REV__ENST00000591086.1_1_18:57684440-57684650:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 676.4490356445312 2 676.450457 1350.88636 NaN NaN NaN NaN NaN NaN NaN 61.649 1 62.379 61.879 62.879 0.73077 0 0 0 1.0071 1 28616 28616 1.4819 0.28856 1 + 1539 12203 1281 1281 1587 1587 0.22495349203973092 APLKKWRKVLL 11 Unmodified _APLKKWRKVLL_ 0 0 0 REV__ENST00000591086.1_1_18:57684440-57684650:-|nuORF REV__ENST00000591086.1_1_18:57684440-57684650:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 676.4503784179688 2 676.450457 1350.88636 NaN NaN NaN NaN NaN NaN NaN 69.983 1 70.686 70.186 71.186 0.70302 0 0 0 1.0071 1 33514 33514 1.4819 0.15237 1 + 1540 12203 1281 1281 1588 1588 0.22495349203973092 APLKLVRHKK 10 Unmodified _APLKLVRHKK_ 0 0 0 ENSG00000173546|ENST00000308508|CSPG4 ENSG00000173546|ENST00000308508|CSPG4 ENSG00000173546|ENST00000308508|CSPG4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 595.4007568359375 2 595.398225 1188.7819 NaN NaN NaN NaN NaN NaN NaN 105.49 1 106.09 105.59 106.59 0.59969 0 0 0 0.99983 1 48715 48715 1.8442 0.36234 1 1541 4938 1282 1282 1589 1589 0.1950564744724943 APLLHWRGL 9 Unmodified _APLLHWRGL_ 0 0 0 chr1:185311322-185316661|171|11.53|0.39|4.87|-|1|IVNS1ABP,None|1 chr1:185311322-185316661|171|11.53|0.39|4.87|-|1|IVNS1ABP,None|1 chr1:185311322-185316661|171|11.53|0.39|4.87|-|1|IVNS1ABP,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.8160400390625 2 531.813993 1061.61343 NaN NaN NaN NaN NaN NaN NaN 78.659 1 79.321 78.821 79.821 0.66198 0 0 0 0.7971 1 36247 36247 9.3474 2.0582 1 1542 121 1283 1283 1590 1590 0.0850916553361003 APLLPPQKLI 10 Unmodified _APLLPPQKLI_ 0 0 0 REV__ENST00000473880.5_1_7:102112843-102113359:+|nuORF REV__ENST00000473880.5_1_7:102112843-102113359:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.3578491210938 2 545.35516 1088.69577 NaN NaN NaN NaN NaN NaN NaN 60.935 1 60.935 60.435 61.435 0 0 0 0 0.99733 1 28381 28381 3.9444 0 1 + 1543 12905 1284 1284 1591 1591 0.1549664282190406 APLLPPQKLI 10 Unmodified _APLLPPQKLI_ 0 0 0 REV__ENST00000473880.5_1_7:102112843-102113359:+|nuORF REV__ENST00000473880.5_1_7:102112843-102113359:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.3583374023438 2 545.35516 1088.69577 NaN NaN NaN NaN NaN NaN NaN 72.464 1 73.128 72.628 73.628 0.66398 0 0 0 0.99225 1 33238 33238 6.7232 0.99131 1 + 1544 12905 1284 1284 1592 1592 0.1549664282190406 APLLRWVL 8 Unmodified _APLLRWVL_ 0 0 0 ENSG00000100292|ENST00000216117|HMOX1 ENSG00000100292|ENST00000216117|HMOX1 ENSG00000100292|ENST00000216117|HMOX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.3094482421875 2 484.308013 966.601472 2.8732 0.0013915 0.05895 2.855E-05 2.9321 0.00142 484.30804248607785 80.853 0.3586 81.101 80.867 81.226 0.24802 44 21 3 0 0 0 0.06577 2 37198 37198;37260 60.39 30.165 1 1403800 1545 1201 1285 1285 1593;1594 1593 0.11683548790404075 APLLRWVL 8 Unmodified _APLLRWVL_ 0 0 0 ENSG00000100292|ENST00000216117|HMOX1 ENSG00000100292|ENST00000216117|HMOX1 ENSG00000100292|ENST00000216117|HMOX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.3094787597656 2 484.308013 966.601472 3.2438 0.001571 -0.15999 -7.7487E-05 3.0838 0.0014935 484.30809750289325 80.19 0.27608 80.85 80.685 80.961 0.65998 43 19 3 0 0 0 0.06577 1 36950 36950 60.39 24.345 1 1081400 1546 1201 1285 1285 1595 1595 0.11683548790404075 APLLWVRYRQL 11 Unmodified _APLLWVRYRQL_ 0 0 0 REV__ENST00000264645.11_1_17:38326709-38326796:+|nuORF REV__ENST00000264645.11_1_17:38326709-38326796:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 707.9179077148438 2 707.919521 1413.82449 NaN NaN NaN NaN NaN NaN NaN 13.574 1 13.574 13.074 14.074 0 0 0 0 1.0071 1 5946 5946 1.4819 0.15237 1 + 1547 15021 1286 1286 1596 1596 0.13412997784848812 APLPAVGVKNI 11 Unmodified _APLPAVGVKNI_ 0 0 0 REV__ENST00000442210.2_1_12:123465790-123467130:+|nuORF REV__ENST00000442210.2_1_12:123465790-123467130:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.83203125 2 539.834591 1077.65463 NaN NaN NaN NaN NaN NaN NaN 71.623 1 72.327 71.827 72.827 0.70386 0 0 0 1.0034 1 34411 34411 6.2058 1.4498 1 + 1548 16351 1287 1287 1597 1597 0.11890881782437646 APLPLVVLLV 10 Unmodified _APLPLVVLLV_ 0 0 0 REV__ENST00000487787.5_1_1:202275897-202288332:+|nuORF REV__ENST00000487787.5_1_1:202275897-202288332:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.23974609375 3 345.238844 1032.6947 NaN NaN NaN NaN NaN NaN NaN 33.1 1 33.1 32.6 33.6 0 0 0 0 1.0018 1 14992 14992 0.15932 0 1 + 1549 11921 1288 1288 1598 1598 0.1796642845297356 APLPLVVLLV 10 Unmodified _APLPLVVLLV_ 0 0 0 REV__ENST00000487787.5_1_1:202275897-202288332:+|nuORF REV__ENST00000487787.5_1_1:202275897-202288332:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.2391662597656 3 345.238844 1032.6947 NaN NaN NaN NaN NaN NaN NaN 33.581 1 33.581 33.081 34.081 0 0 0 0 1.0018 1 15223 15223 0.15932 0 1 + 1550 11921 1288 1288 1599 1599 0.1796642845297356 APLPLVVLLV 10 Unmodified _APLPLVVLLV_ 0 0 0 REV__ENST00000487787.5_1_1:202275897-202288332:+|nuORF REV__ENST00000487787.5_1_1:202275897-202288332:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 345.2393493652344 3 345.238844 1032.6947 NaN NaN NaN NaN NaN NaN NaN 31.872 1 32.66 32.16 33.16 0.78795 0 0 0 1.0018 1 14402 14402 0.15932 0 1 + 1551 11921 1288 1288 1600 1600 0.1796642845297356 APLPLVVLLV 10 Unmodified _APLPLVVLLV_ 0 0 0 REV__ENST00000487787.5_1_1:202275897-202288332:+|nuORF REV__ENST00000487787.5_1_1:202275897-202288332:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 345.2390441894531 3 345.238844 1032.6947 NaN NaN NaN NaN NaN NaN NaN 32.272 1 33.06 32.56 33.56 0.78795 0 0 0 1.0018 1 14595 14595 0.15932 0 1 + 1552 11921 1288 1288 1601 1601 0.1796642845297356 APLPLVVLLV 10 Unmodified _APLPLVVLLV_ 0 0 0 REV__ENST00000487787.5_1_1:202275897-202288332:+|nuORF REV__ENST00000487787.5_1_1:202275897-202288332:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.2391052246094 3 345.238844 1032.6947 NaN NaN NaN NaN NaN NaN NaN 33.002 1 33.256 32.756 33.756 0.25389 0 0 0 1.0018 1 15028 15028 0.15932 0 1 + 1553 11921 1288 1288 1602 1602 0.1796642845297356 APLPLVVLLV 10 Unmodified _APLPLVVLLV_ 0 0 0 REV__ENST00000487787.5_1_1:202275897-202288332:+|nuORF REV__ENST00000487787.5_1_1:202275897-202288332:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.2396240234375 3 345.238844 1032.6947 NaN NaN NaN NaN NaN NaN NaN 36.168 1 36.794 36.294 37.294 0.62631 0 0 0 1.0018 1 16563 16563 0.15932 0 1 + 1554 11921 1288 1288 1603 1603 0.1796642845297356 APLPPPLKER 10 Unmodified _APLPPPLKER_ 0 0 0 REV__ENST00000265340.11_1_5:134369665-134369908:-|nuORF REV__ENST00000265340.11_1_5:134369665-134369908:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.439697265625 2 559.340041 1116.66553 NaN NaN NaN NaN NaN NaN NaN 82.943 1 82.943 82.443 83.443 0 0 0 0 0.9754 1 41668 41668 9.3831 2.0939 1 + 1555 15035 1289 1289 1604 1604 0.11186284156701731 APLPTHKHSSY 11 Unmodified _APLPTHKHSSY_ 0 0 0 REV__ENST00000438877.1_1_6:90383200-90385136:+|nuORF REV__ENST00000438877.1_1_6:90383200-90385136:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.3505249023438 2 619.319837 1236.62512 NaN NaN NaN NaN NaN NaN NaN 68.89 1 69.592 69.092 70.092 0.70218 0 0 0 0.9645 1 32884 32884 10.074 5.7447 1 + 1556 16329 1290 1290 1605 1605 0.01627317766269698 APLQFLEAFI 10 Unmodified _APLQFLEAFI_ 0 0 0 REV__ENSG00000136937|ENST00000375147|NCBP1 REV__ENSG00000136937|ENST00000375147|NCBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.82568359375 2 574.82115 1147.62775 NaN NaN NaN NaN NaN NaN NaN 105.94 1 105.94 105.44 106.44 0 0 0 0 0.99733 1 58203 58203 3.9444 0.3479 1 + 1557 12091 1291 1291 1606 1606 0.059837731712150344 APLQKAKVIRL 11 Unmodified _APLQKAKVIRL_ 0 0 0 ENST00000490303.5_1_3:182583321-182631816:+|nuORF;ENSG00000058063|ENST00000323116|ATP11B ENST00000490303.5_1_3:182583321-182631816:+|nuORF ENST00000490303.5_1_3:182583321-182631816:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 618.9094848632812 2 618.911165 1235.80778 NaN NaN NaN NaN NaN NaN NaN 68.635 1 69.337 68.837 69.837 0.70218 0 0 0 1.0034 1 32744 32744 6.2058 0 1 1558 627 1292 1292 1607 1607 0.19930496898882666 APLQLFEPLVL 11 Unmodified _APLQLFEPLVL_ 0 0 0 REV__ENST00000514102.5_1_5:176797843-176799073:+|nuORF REV__ENST00000514102.5_1_5:176797843-176799073:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 620.3816528320312 2 620.371007 1238.72746 NaN NaN NaN NaN NaN NaN NaN 97.439 1 97.728 97.228 98.228 0.28923 0 0 0 1.0072 1 44760 44760 1.3295 0.13619 1 + 1559 13383 1293 1293 1608 1608 0.1176459078519656 APLRALVYFRR 11 Unmodified _APLRALVYFRR_ 0 0 0 REV__ENST00000594883.1_1_19:57687347-57687830:+|nuORF REV__ENST00000594883.1_1_19:57687347-57687830:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.6130676269531 3 454.610334 1360.80917 NaN NaN NaN NaN NaN NaN NaN 65.797 1 66.506 66.006 67.006 0.70891 0 0 0 1.0071 1 31144 31144 0.50596 0.051438 1 + 1560 17607 1294 1294 1609 1609 0.14320130987607627 APLRARFDVP 10 Unmodified _APLRARFDVP_ 0 0 0 REV__ENSG00000188162|ENST00000399397|OTOG REV__ENSG00000188162|ENST00000399397|OTOG MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.273681640625 2 571.327465 1140.64038 3.7091 0.0021191 2.6475 0.0015126 6.3566 0.0036317 571.8296680825869 80.538 0.10577 81.198 81.154 81.259 0.65998 6 5 2 0 0 0 0.12452 1 37101 37101 15.847 9.124 1 308650 + 1561 14135 1295 1295 1610 1610 0.07568229354114919 APLRHRINRLF 11 Unmodified _APLRHRINRLF_ 0 0 0 REV__ENST00000204615.11_1_3:184090388-184093318:-|nuORF REV__ENST00000204615.11_1_3:184090388-184093318:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 696.9214477539062 2 696.920387 1391.82622 NaN NaN NaN NaN NaN NaN NaN 82.589 1 82.589 82.089 83.089 0 0 0 0 1.0057 1 41398 41398 3.2813 1.6287 1 + 1562 14792 1296 1296 1611 1611 0.1459805159345251 APLRKLFKS 9 Unmodified _APLRKLFKS_ 0 0 0 ENST00000264870.7_1_6:6318908-6320947:-|nuORF ENST00000264870.7_1_6:6318908-6320947:-|nuORF ENST00000264870.7_1_6:6318908-6320947:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.4153442382812 2 530.337301 1058.66005 NaN NaN NaN NaN NaN NaN NaN 91.102 1 91.177 90.677 91.677 0.075279 0 0 0 0.84134 1 47119 47119 7.9102 1.7044 1 1563 6610 1297 1297 1612 1612 0.13306605364891766 APLRKLRIL 9 Unmodified _APLRKLRIL_ 0 0 0 ENSG00000255690|ENST00000539664|TRIL ENSG00000255690|ENST00000539664|TRIL ENSG00000255690|ENST00000539664|TRIL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.89892578125 2 540.374218 1078.73388 NaN NaN NaN NaN NaN NaN NaN 73.763 1 74.427 73.927 74.927 0.6644 0 0 0 0.90511 1 33924 33924 2.3027 0 1 1564 6286 1298 1298 1613 1613 0.19766573527226683 APLRLKKKEKE 11 Unmodified _APLRLKKKEKE_ 0 0 0 REV__nc|nan|Q8NEG2-2|C7orf57 REV__nc|nan|Q8NEG2-2|C7orf57 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 669.9876708984375 2 670.424636 1338.83472 NaN NaN NaN NaN NaN NaN NaN 78.206 1 78.67 78.17 79.17 0.4642 0 0 0 1.0071 1 37989 37989 1.4819 0.15237 1 + 1565 13111 1299 1299 1614 1614 0.1788556071937819 APLRQRRVRPL 11 Unmodified _APLRQRRVRPL_ 0 0 0 ENSG00000185338|ENST00000332029|SOCS1 ENSG00000185338|ENST00000332029|SOCS1 ENSG00000185338|ENST00000332029|SOCS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 454.67596435546875 3 454.624866 1360.85277 NaN NaN NaN NaN NaN NaN NaN 73.311 1 73.975 73.475 74.475 0.66398 0 0 0 1.0071 1 33686 33686 1.4551 0.24029 1 1566 5503 1300 1300 1615 1615 0.1867774048478168 APLRRLTVWRV 11 Unmodified _APLRRLTVWRV_ 0 0 0 ENST00000276420.8_1_8:21769926-21771143:-|nuORF ENST00000276420.8_1_8:21769926-21771143:-|nuORF ENST00000276420.8_1_8:21769926-21771143:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 683.9247436523438 2 683.925138 1365.83572 NaN NaN NaN NaN NaN NaN NaN 64.382 1 64.382 63.882 64.882 0 0 0 0 1.0071 1 30486 30486 1.4819 0 1 1567 6675 1301 1301 1616 1616 0.16743819878956856 APLRRRRRAR 10 Unmodified _APLRRRRRAR_ 0 0 0 REV__ENST00000270792.9_1_1:26606524-26606650:+|nuORF REV__ENST00000270792.9_1_1:26606524-26606650:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 654.4218139648438 2 654.42142 1306.82829 NaN NaN NaN NaN NaN NaN NaN 73.167 1 73.831 73.331 74.331 0.66398 0 0 0 0.99983 1 33612 33612 1.8442 0 1 + 1568 15062 1302 1302 1617 1617 0.1871452512191354 APLRTAAPKL 10 Unmodified _APLRTAAPKL_ 0 0 0 REV__ENSG00000277893|ENST00000622030|SRD5A2 REV__ENSG00000277893|ENST00000622030|SRD5A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 346.5549011230469 3 346.553715 1036.63931 2.5774 0.00089319 -0.31109 -0.00010781 2.2663 0.00078538 346.55363040277985 12.882 0.12309 12.882 12.806 12.929 0 9 4 3 0 0 0 0.28007 1 5628 5628 25.997 13.125 1 589670 + 1569 14747 1303 1303 1618 1618 0.12246014985225884 APLRTAAPKL 10 Unmodified _APLRTAAPKL_ 0 0 0 REV__ENSG00000277893|ENST00000622030|SRD5A2 REV__ENSG00000277893|ENST00000622030|SRD5A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 346.87823486328125 3 346.553715 1036.63931 1.7743 0.00061488 1.1928 0.00041338 2.9671 0.0010283 346.5541763643116 12.558 0.11663 12.865 12.819 12.936 0.30727 5 3 2 0 0 0 0.19467 1 5677 5677 28.234 3.3521 1 1442800 + 1570 14747 1303 1303 1619 1619 0.12246014985225884 APLRYPNFIW 10 Unmodified _APLRYPNFIW_ 0 0 0 REV__ENSG00000179363|ENST00000319560|TMEM31 REV__ENSG00000179363|ENST00000319560|TMEM31 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 638.844482421875 2 638.84549 1275.67643 NaN NaN NaN NaN NaN NaN NaN 70.675 1 70.675 70.175 71.175 0 0 0 0 0.99687 1 34326 34326 4.3292 0.38484 1 + 1571 13795 1304 1304 1620 1620 0.04961686530987208 APLSKKQEIFY 11 Unmodified _APLSKKQEIFY_ 0 0 0 nc|ENSG00000119969|Q9NRZ9-6|HELLS;nc|ENSG00000119969|Q9NRZ9-5|HELLS;nc|ENSG00000119969|Q9NRZ9-4|HELLS;nc|ENSG00000119969|Q9NRZ9-3|HELLS;nc|ENSG00000119969|Q9NRZ9-2|HELLS;ENSG00000119969|ENST00000348459|HELLS nc|ENSG00000119969|Q9NRZ9-6|HELLS nc|ENSG00000119969|Q9NRZ9-6|HELLS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 441.9135437011719 3 441.915089 1322.72344 NaN NaN NaN NaN NaN NaN NaN 62.937 1 63.66 63.16 64.16 0.72236 0 0 0 1.0055 1 29431 29431 0.50596 0 1 1572 2176 1305 1305 1621 1621 0.07498501291456705 APLTINRRSP 10 Unmodified _APLTINRRSP_ 0 0 0 REV__ENSG00000137501|ENST00000359152|SYTL2 REV__ENSG00000137501|ENST00000359152|SYTL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.10791015625 2 562.830372 1123.64619 NaN NaN NaN NaN NaN NaN NaN 69.773 1 70.476 69.976 70.976 0.70302 0 0 0 0.97102 1 33406 33406 10.074 0.6908 1 + 1573 12115 1306 1306 1622 1622 0.08931327865798266 APLTRHPWQSA 11 Unmodified _APLTRHPWQSA_ 0 0 0 REV__ENST00000393232.5_1_7:129395565-129395631:+|nuORF REV__ENST00000393232.5_1_7:129395565-129395631:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.3344116210938 2 632.333279 1262.652 NaN NaN NaN NaN NaN NaN NaN 48.123 1 48.953 48.453 49.453 0.82915 0 0 0 1.0038 1 21923 21923 5.7319 0 1 + 1574 15946 1307 1307 1623 1623 0.031184263774548526 APLTSVRTFFV 11 Unmodified _APLTSVRTFFV_ 0 0 0 REV__nc|ENSG00000167632|Q96Q05-3|TRAPPC9 REV__nc|ENSG00000167632|Q96Q05-3|TRAPPC9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.49658203125 2 619.350606 1236.68666 NaN NaN NaN NaN NaN NaN NaN 69.164 1 69.164 68.664 69.664 0 0 0 0 1.0038 1 33361 33361 5.7319 0 1 + 1575 13296 1308 1308 1624 1624 0.07778249465559384 APLVFCLLW 9 Unmodified _APLVFCLLW_ 0 0 0 REV__ENST00000574094.5_1_16:16275679-16317348:-|nuORF REV__ENST00000574094.5_1_16:16275679-16317348:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.8363037109375 2 531.296256 1060.57796 NaN NaN NaN NaN NaN NaN NaN 99.396 1 99.993 99.493 100.49 0.59748 0 0 0 0.89315 1 45960 45960 5.2307 0.47466 1 + 1576 9920 1309 1309 1625 1625 0.05009366961576234 APLVLKGLLIV 11 Unmodified _APLVLKGLLIV_ 0 0 0 REV__nc|ENSG00000113361|P55285-2|CDH6 REV__nc|ENSG00000113361|P55285-2|CDH6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.3958129882812 2 568.394285 1134.77402 NaN NaN NaN NaN NaN NaN NaN 65.914 1 66.622 66.122 67.122 0.70891 0 0 0 1.0071 1 31209 31209 1.4819 1.0236 1 + 1577 17899 1310 1310 1626 1626 0.21202075407131815 APLVRDRGRPQ 11 Unmodified _APLVRDRGRPQ_ 0 0 0 REV__ENST00000528813.1_1_11:56099435-56099735:-|nuORF REV__ENST00000528813.1_1_11:56099435-56099735:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 632.9281005859375 2 632.865277 1263.716 NaN NaN NaN NaN NaN NaN NaN 17.379 1 17.379 16.879 17.879 0 0 0 0 1.0041 1 7720 7720 5.2969 1.3525 1 + 1578 17121 1311 1311 1627 1627 0.09469206534413388 APLYRQLNWVV 11 Unmodified _APLYRQLNWVV_ 0 0 0 ENST00000392439.7_2_12:123459478-123459652:-|nuORF ENST00000392439.7_2_12:123459478-123459652:-|nuORF ENST00000392439.7_2_12:123459478-123459652:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 453.9175720214844 3 453.590828 1357.75066 NaN NaN NaN NaN NaN NaN NaN 71.171 1 71.875 71.375 72.375 0.70386 0 0 0 1.0071 1 34168 34168 1.4551 0 1 1579 7516 1312 1312 1628 1628 0.08609029622471098 APMAWEASCQF 11 Unmodified _APMAWEASCQF_ 0 0 0 REV__ENST00000268797.11_1_16:67719651-67753260:-|nuORF REV__ENST00000268797.11_1_16:67719651-67753260:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.7592163085938 2 620.759909 1239.50526 NaN NaN NaN NaN NaN NaN NaN 62.121 1 62.851 62.351 63.351 0.73077 0 0 0 0.9645 1 28913 28913 10.074 2.7847 1 + 1580 15049 1313 1313 1629 1629 -0.10490754894181009 APMIKKIAF 9 Unmodified _APMIKKIAF_ 0 0 0 nc|ENSG00000080345|Q5UIP0-2|RIF1;ENSG00000080345|ENST00000444746|RIF1 nc|ENSG00000080345|Q5UIP0-2|RIF1 nc|ENSG00000080345|Q5UIP0-2|RIF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.81219482421875 2 509.809531 1017.60451 3.4767 0.0017724 0.92208 0.00047009 4.3987 0.0022425 509.8100489718048 43.289 0.2 43.938 43.851 44.051 0.64872 12 6 3 0 0 0 0.02631 1 19840 19840 57.471 48.878 1 249940 1581 906 1314 1314 1630 1630 0.09641055852910085 APMKHRRYFKF 11 Unmodified _APMKHRRYFKF_ 0 0 0 REV__nc|ENSG00000163701|Q8NFR9-5|IL17RE REV__nc|ENSG00000163701|Q8NFR9-5|IL17RE MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 740.9052734375 2 740.903348 1479.79214 NaN NaN NaN NaN NaN NaN NaN 85.168 1 85.197 84.697 85.697 0.028603 0 0 0 1.0071 1 42597 42597 1.4819 0 1 + 1582 13017 1315 1315 1631 1631 0.07143887110169089 APMPDYSC 8 Unmodified _APMPDYSC_ 0 0 0 nc|ENSG00000111077|Q63HR2-5|TNS2;nc|ENSG00000111077|Q63HR2-2|TNS2;ENST00000549311.7_1_12:53443879-53456445:+|nuORF;nc|ENSG00000111077|Q63HR2-6|TNS2;ENSG00000111077|ENST00000314250|TNS2;nc|ENSG00000111077|Q63HR2-4|TNS2 nc|ENSG00000111077|Q63HR2-5|TNS2 nc|ENSG00000111077|Q63HR2-5|TNS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 883.3375854492188 1 883.332452 882.325175 3.4151 0.0030167 2.6037 0.0023 6.0188 0.0053166 883.3337566779226 104.18 0.058578 104.18 104.15 104.21 0 6 2 3 0 0 0 0.74071 1 57362 57362 2.5775 1.7838 1 1066600 1583 1743 1316 1316 1632 1632 -0.1206943383115231 APMPDYSC 8 Unmodified _APMPDYSC_ 0 0 0 nc|ENSG00000111077|Q63HR2-5|TNS2;nc|ENSG00000111077|Q63HR2-2|TNS2;ENST00000549311.7_1_12:53443879-53456445:+|nuORF;nc|ENSG00000111077|Q63HR2-6|TNS2;ENSG00000111077|ENST00000314250|TNS2;nc|ENSG00000111077|Q63HR2-4|TNS2 nc|ENSG00000111077|Q63HR2-5|TNS2 nc|ENSG00000111077|Q63HR2-5|TNS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 883.3385620117188 1 883.332452 882.325175 4.1587 0.0036735 1.4199 0.0012543 5.5787 0.0049278 883.3343625623169 104.11 0.03598 104.71 104.68 104.72 0.59885 11 5 3 0 0 0 0.74071 1 48140 48140 2.5775 0 1 1389000 1584 1743 1316 1316 1633 1633 -0.1206943383115231 APNKKKKKKKK 11 Unmodified _APNKKKKKKKK_ 0 0 0 REV__ENST00000433510.2_1_17:46713876-46724046:-|nuORF REV__ENST00000433510.2_1_17:46713876-46724046:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 663.4599609375 2 663.458813 1324.90307 NaN NaN NaN NaN NaN NaN NaN 61.897 1 62.627 62.127 63.127 0.73077 0 0 0 1.0072 1 28768 28768 1.3295 0.25807 1 + 1585 16286 1317 1317 1634 1634 0.2536185008989378 APNLKSQL 8 Unmodified _APNLKSQL_ 0 0 0 ENSG00000137076|ENST00000314888|TLN1;nc|ENSG00000137076|Q9Y490-2|TLN1 ENSG00000137076|ENST00000314888|TLN1 ENSG00000137076|ENST00000314888|TLN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 435.7568054199219 2 435.75581 869.497067 NaN NaN NaN NaN NaN NaN NaN 28.826 1 29.087 28.587 29.587 0.2602 0 0 0 0.10928 1 13116 13116 52.268 4.5197 1 1586 2996 1318 1318 1635 1635 0.05709802243052309 APNPILAHLQ 10 Unmodified _APNPILAHLQ_ 0 0 0 ENST00000316059.6_1_11:58386736-58386877:+|nuORF ENST00000316059.6_1_11:58386736-58386877:+|nuORF ENST00000316059.6_1_11:58386736-58386877:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.3363037109375 2 537.308741 1072.60293 NaN NaN NaN NaN NaN NaN NaN 82.332 1 82.416 81.916 82.916 0.084106 0 0 0 0.97102 1 40656 40656 10.074 2.1638 1 1587 6902 1319 1319 1636 1636 0.06953138088488231 APNRRKSRRFI 11 Unmodified _APNRRKSRRFI_ 0 0 0 ENSG00000006047|ENST00000007699|YBX2 ENSG00000006047|ENST00000007699|YBX2 ENSG00000006047|ENST00000007699|YBX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 700.9239501953125 2 700.920918 1399.82728 NaN NaN NaN NaN NaN NaN NaN 94.895 1 95.155 94.655 95.655 0.25975 0 0 0 1.0071 1 43604 43604 1.4819 0 1 1588 340 1320 1320 1637 1637 0.14336265962356265 APNYVAYNLLI 11 Unmodified _APNYVAYNLLI_ 0 0 0 REV__nc|ENSG00000167291|Q8TBP0-4|TBC1D16 REV__nc|ENSG00000167291|Q8TBP0-4|TBC1D16 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 625.8414306640625 2 625.842613 1249.67067 NaN NaN NaN NaN NaN NaN NaN 71.324 1 72.028 71.528 72.528 0.70386 0 0 0 1.0038 1 34247 34247 5.7319 0 1 + 1589 13283 1321 1321 1638 1638 0.05582543228661052 APPAAAQPGRM 11 Unmodified _APPAAAQPGRM_ 0 0 0 REV__ENSG00000171853|ENST00000324266|TRAPPC12 REV__ENSG00000171853|ENST00000324266|TRAPPC12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.9508666992188 2 533.776751 1065.53895 NaN NaN NaN NaN NaN NaN NaN 61.153 1 61.893 61.393 62.393 0.7396 0 0 0 0.95662 1 28320 28320 10.824 1.4765 1 + 1590 13522 1322 1322 1639 1639 0.008800346599173281 APPALGFWPRR 11 Unmodified _APPALGFWPRR_ 0 0 0 ENST00000358933.9_1_16:67906988-67910776:+|nuORF ENST00000358933.9_1_16:67906988-67910776:+|nuORF ENST00000358933.9_1_16:67906988-67910776:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.3566284179688 2 634.356557 1266.69856 NaN NaN NaN NaN NaN NaN NaN 17.428 1 17.428 16.928 17.928 0 0 0 0 1.0057 1 7742 7742 3.2813 1.4371 1 1591 7197 1323 1323 1640 1640 0.07587910999404812 APPAPEYYPEE 11 Unmodified _APPAPEYYPEE_ 0 0 0 SUDS3|p.L220Rfs*4|1|0.25|ENSG00000111707|chr12:118401804-118401804|T/-|frameshift_variant;ENSG00000111707|ENST00000543473|SUDS3 SUDS3|p.L220Rfs*4|1|0.25|ENSG00000111707|chr12:118401804-118401804|T/-|frameshift_variant SUDS3|p.L220Rfs*4|1|0.25|ENSG00000111707|chr12:118401804-118401804|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 631.7852172851562 2 631.782418 1261.55028 NaN NaN NaN NaN NaN NaN NaN 63.351 1 63.351 62.851 63.851 0 0 0 0 0.99968 1 29797 29797 6.7232 2.3939 1 1592 1774 1324 1324 1641 1641 -0.07002909555603765 APPAPSSLY 9 Unmodified _APPAPSSLY_ 0 0 0 ENST00000596769.1_1_19:53510963-53514048:+|nuORF ENST00000596769.1_1_19:53510963-53514048:+|nuORF ENST00000596769.1_1_19:53510963-53514048:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.7355041503906 2 451.734543 901.454533 NaN NaN NaN NaN NaN NaN NaN 69.59 1 69.59 69.09 70.09 0 0 0 0 0.48654 1 33622 33622 19.439 0 1 1593 9279 1325 1325 1642 1642 -0.00013592885181878955 APPAQAVHI 9 Unmodified _APPAQAVHI_ 0 0 0 REV__ENST00000588404.5_1_19:38907704-38910742:-|nuORF REV__ENST00000588404.5_1_19:38907704-38910742:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 452.67669677734375 2 452.255977 902.497401 NaN NaN NaN NaN NaN NaN NaN 62.66 1 63.387 62.887 63.887 0.7272 0 0 0 0.63602 1 29260 29260 14.582 1.0738 1 + 1594 17560 1326 1326 1643 1643 0.04225221962906289 APPAQVRRSF 10 Unmodified _APPAQVRRSF_ 0 0 0 ENST00000587856.1_1_17:43318935-43319418:+|nuORF ENST00000587856.1_1_17:43318935-43319418:+|nuORF ENST00000587856.1_1_17:43318935-43319418:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.618896484375 2 564.817264 1127.61998 NaN NaN NaN NaN NaN NaN NaN 66.36 1 67.064 66.564 67.564 0.7047 0 0 0 0.98866 1 31455 31455 7.2892 1.5574 1 1595 9200 1327 1327 1644 1644 0.061270586943237504 APPARLLPRR 10 Unmodified _APPARLLPRR_ 0 0 0 ENST00000348165.9_1_7:156931771-156931954:+|nuORF ENST00000348165.9_1_7:156931771-156931954:+|nuORF ENST00000348165.9_1_7:156931771-156931954:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 573.8224487304688 2 573.864549 1145.71454 NaN NaN NaN NaN NaN NaN NaN 84.787 1 84.787 84.287 85.287 0 0 0 0 0.99225 1 43008 43008 6.7232 2.3939 1 1596 7124 1328 1328 1645 1645 0.14751617236311176 APPEIEEYCME 11 Unmodified _APPEIEEYCME_ 0 0 0 nc|ENSG00000120915|P34913-3|EPHX2;nc|ENSG00000120915|P34913-2|EPHX2;ENSG00000120915|ENST00000521400|EPHX2;ENST00000520623.5_1_8:27348689-27396319:+|nuORF nc|ENSG00000120915|P34913-3|EPHX2 nc|ENSG00000120915|P34913-3|EPHX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 655.7670288085938 2 655.767597 1309.52064 NaN NaN NaN NaN NaN NaN NaN 106.06 1 106.66 106.16 107.16 0.59969 0 0 0 1.0071 1 48977 48977 1.4819 0 1 1597 2218 1329 1329 1646 1646 -0.12173932887617411 APPELCPQHH 10 Unmodified _APPELCPQHH_ 0 0 0 REV__ENST00000570164.5_1_16:31500819-31501287:-|nuORF REV__ENST00000570164.5_1_16:31500819-31501287:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.765380859375 2 564.766383 1127.51821 NaN NaN NaN NaN NaN NaN NaN 46.17 1 46.999 46.499 47.499 0.82915 0 0 0 1.0001 1 21029 21029 1.6526 0 1 + 1598 17444 1330 1330 1647 1647 -0.040445557197472226 APPFLWAVRWR 11 Unmodified _APPFLWAVRWR_ 0 0 0 REV__ENST00000216121.11_1_22:29951115-29951346:-|nuORF REV__ENST00000216121.11_1_22:29951115-29951346:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 699.4439697265625 2 699.893306 1397.77206 NaN NaN NaN NaN NaN NaN NaN 74.643 1 74.643 74.143 75.143 0 0 0 0 1.0055 1 36479 36479 3.5965 1.9439 1 + 1599 14803 1331 1331 1648 1648 0.08908459441840932 APPFPLTCRL 10 Unmodified _APPFPLTCRL_ 0 0 0 ENST00000337318.7_2_10:126308405-126308534:-|nuORF ENST00000337318.7_2_10:126308405-126308534:-|nuORF ENST00000337318.7_2_10:126308405-126308534:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.8259887695312 2 557.807519 1113.60049 NaN NaN NaN NaN NaN NaN NaN 94.87 1 94.952 94.452 95.452 0.082001 0 0 0 0.99225 1 50018 50018 6.7232 0 1 1600 7039 1332 1332 1649 1649 0.048229663591882854 APPHRWWDW 9 Unmodified _APPHRWWDW_ 0 0 0 REV__ENST00000262518.8_1_16:30748473-30748506:+|nuORF REV__ENST00000262518.8_1_16:30748473-30748506:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 625.7941284179688 2 625.796332 1249.57811 NaN NaN NaN NaN NaN NaN NaN 80.08 1 80.74 80.24 81.24 0.65998 0 0 0 0.90511 1 36899 36899 2.3027 0.4585 1 + 1601 14984 1333 1333 1650 1650 -0.036694969942118405 APPIFGWSRY 10 Unmodified _APPIFGWSRY_ 0 0 0 ENSG00000269433|ENST00000599405|OPN1MW3;ENSG00000268221|ENST00000595290|OPN1MW;ENSG00000166160|ENST00000369929|OPN1MW2;ENSG00000102076|ENST00000369951|OPN1LW ENSG00000269433|ENST00000599405|OPN1MW3 ENSG00000269433|ENST00000599405|OPN1MW3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.310791015625 2 597.308741 1192.60293 NaN NaN NaN NaN NaN NaN NaN 91.24 1 91.902 91.402 92.402 0.66198 0 0 0 0.99687 1 41988 41988 4.3292 0.73274 1 1602 1330 1334 1334 1651 1651 0.014331380885096223 APPIILKR 8 Unmodified _APPIILKR_ 0 0 0 REV__ENST00000479939.1_1_7:30062251-30066124:-|nuORF REV__ENST00000479939.1_1_7:30062251-30066124:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.1995849609375 3 303.207767 906.601472 NaN NaN NaN NaN NaN NaN NaN 44.016 1 44.285 43.785 44.785 0.2694 0 0 0 0.99035 1 20111 20111 1.8442 0 1 + 1603 11071 1335 1335 1652 1652 0.14443548790416116 APPKKPIKKVL 11 Unmodified _APPKKPIKKVL_ 0 0 0 REV__ENSG00000134318|ENST00000315872|ROCK2 REV__ENSG00000134318|ENST00000315872|ROCK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 609.8402099609375 2 609.918458 1217.82236 NaN NaN NaN NaN NaN NaN NaN 82.599 1 82.644 82.144 83.144 0.045006 0 0 0 1.0071 1 40805 40805 1.4819 0.15237 1 + 1604 11961 1336 1336 1653 1653 0.22216569047031953 APPKPLKKPK 10 Unmodified _APPKPLKKPK_ 0 0 0 REV__ENST00000602007.5_1_19:4325153-4327375:-|nuORF REV__ENST00000602007.5_1_19:4325153-4327375:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.9619140625 2 552.368601 1102.72265 NaN NaN NaN NaN NaN NaN NaN 66.279 1 66.279 65.779 66.779 0 0 0 0 0.99733 1 31662 31662 3.9444 0 1 + 1605 13751 1337 1337 1654 1654 0.17539751433059791 APPKPLKKPKL 11 Unmodified _APPKPLKKPKL_ 0 0 0 REV__ENST00000602007.5_1_19:4325153-4327375:-|nuORF REV__ENST00000602007.5_1_19:4325153-4327375:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 608.90966796875 2 608.910633 1215.80671 NaN NaN NaN NaN NaN NaN NaN 84.058 1 84.086 83.586 84.586 0.028603 0 0 0 1.0057 1 41846 41846 3.2813 1.7994 1 + 1606 13751 1338 1338 1655 1655 0.20744282529972224 APPKQRRPMRL 11 Unmodified _APPKQRRPMRL_ 0 0 0 ENST00000340437.8_1_11:61171383-61171542:-|nuORF ENST00000340437.8_1_11:61171383-61171542:-|nuORF ENST00000340437.8_1_11:61171383-61171542:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.6043701171875 3 450.603074 1348.78739 NaN NaN NaN NaN NaN NaN NaN 66.375 1 66.375 65.875 66.875 0 0 0 0 1.0071 1 31717 31717 0.50596 0 1 1607 7063 1339 1339 1656 1656 0.12695002967416258 APPKRKYSVWI 11 Unmodified _APPKRKYSVWI_ 0 0 0 ENST00000418351.1_1_15:44281261-44281585:-|nuORF ENST00000418351.1_1_15:44281261-44281585:-|nuORF ENST00000418351.1_1_15:44281261-44281585:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 672.8928833007812 2 672.892972 1343.77139 NaN NaN NaN NaN NaN NaN NaN 68.684 1 69.386 68.886 69.886 0.70218 0 0 0 1.0071 1 32771 32771 1.4819 0 1 1608 7733 1340 1340 1657 1657 0.11325620002162395 APPLCATVLPR 11 Unmodified _APPLCATVLPR_ 0 0 0 REV__nc|ENSG00000161013|Q9UQ53-3|MGAT4B REV__nc|ENSG00000161013|Q9UQ53-3|MGAT4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 380.2153015136719 3 379.886476 1136.6376 NaN NaN NaN NaN NaN NaN NaN 59.161 1 59.919 59.419 60.419 0.75894 0 0 0 1.0062 1 27190 27190 2.6312 0.54523 1 + 1609 17999 1341 1341 1658 1658 0.07474637904942938 APPLGRRPVSR 11 Unmodified _APPLGRRPVSR_ 0 0 0 REV__ENST00000418460.2_1_1:232941107-232941410:+|nuORF REV__ENST00000418460.2_1_1:232941107-232941410:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 603.3430786132812 2 603.364913 1204.71527 NaN NaN NaN NaN NaN NaN NaN 85.713 1 85.741 85.241 86.241 0.028603 0 0 0 1.0059 1 42966 42966 2.9952 0 1 + 1610 16150 1342 1342 1659 1659 0.12110411885350914 APPLLLPLLPL 11 Unmodified _APPLLLPLLPL_ 0 0 0 REV__nc|ENSG00000085514|Q9UKJ1-4|PILRA REV__nc|ENSG00000085514|Q9UKJ1-4|PILRA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.8865966796875 2 578.888835 1155.76312 NaN NaN NaN NaN NaN NaN NaN 87.917 1 87.917 87.417 88.417 0 0 0 0 1.0071 1 45481 45481 1.4819 0 1 + 1611 10648 1343 1343 1660 1660 0.1914667303283295 APPLRKQES 9 Unmodified _APPLRKQES_ 0 0 0 REV__ENST00000438017.5_1_3:42695550-42695823:-|nuORF REV__ENST00000438017.5_1_3:42695550-42695823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.268798828125 2 513.290548 1024.56654 NaN NaN NaN NaN NaN NaN NaN 72.833 1 73.091 72.591 73.591 0.25876 0 0 0 0.89315 1 33439 33439 5.2307 0 1 + 1612 16320 1344 1344 1661 1661 0.055242611917947215 APPLRSVRRRP 11 Unmodified _APPLRSVRRRP_ 0 0 0 REV__ENST00000568956.1_1_19:56116859-56125214:+|nuORF REV__ENST00000568956.1_1_19:56116859-56125214:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 652.904052734375 2 652.904737 1303.79492 NaN NaN NaN NaN NaN NaN NaN 72.697 1 72.697 72.197 73.197 0 0 0 0 1.0055 1 35369 35369 3.5965 1.3137 1 + 1613 17436 1345 1345 1662 1662 0.15517478559354458 APPPPVCPLDL 11 Unmodified _APPPPVCPLDL_ 0 0 0 REV__ENST00000460049.6_1_14:24028960-24033376:-|nuORF REV__ENST00000460049.6_1_14:24028960-24033376:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.8007202148438 2 559.79936 1117.58417 NaN NaN NaN NaN NaN NaN NaN 80.466 1 81.126 80.626 81.626 0.65998 0 0 0 0.9645 1 37079 37079 10.074 0.6908 1 + 1614 14503 1346 1346 1663 1663 0.03007840402437978 APPPRRVLVLL 11 Unmodified _APPPRRVLVLL_ 0 0 0 ENST00000542587.5_3_19:19738235-19738667:-|nuORF ENST00000542587.5_3_19:19738235-19738667:-|nuORF ENST00000542587.5_3_19:19738235-19738667:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 615.905517578125 2 615.905882 1229.79721 NaN NaN NaN NaN NaN NaN NaN 105.93 1 106.53 106.03 107.03 0.59969 0 0 0 1.0071 1 48915 48915 1.4819 1.0236 1 1615 8818 1347 1347 1664 1664 0.19150514244438455 APPQHCFMMPQ 11 Unmodified _APPQHCFMMPQ_ 0 0 0 ENST00000460211.5_1_2:242607386-242610957:+|nuORF ENST00000460211.5_1_2:242607386-242610957:+|nuORF ENST00000460211.5_1_2:242607386-242610957:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 643.8212890625 2 643.777579 1285.5406 NaN NaN NaN NaN NaN NaN NaN 86.211 1 86.882 86.382 87.382 0.67061 0 0 0 1.0059 1 39701 39701 2.9952 1.6657 1 1616 8070 1348 1348 1665 1665 -0.09074415637996935 APPQTLWMWCE 11 Unmodified _APPQTLWMWCE_ 0 0 0 ENST00000466443.1_1_3:39142410-39149053:-|nuORF;ENST00000470910.5_1_3:39142410-39149053:-|nuORF ENST00000466443.1_1_3:39142410-39149053:-|nuORF ENST00000466443.1_1_3:39142410-39149053:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.53753662109375 3 454.538748 1360.59441 NaN NaN NaN NaN NaN NaN NaN 73.945 1 74.632 74.132 75.132 0.68662 0 0 0 1.0071 1 35712 35712 0.50596 0 1 1617 8137 1349 1349 1666 1666 -0.07145919934623635 APPQVWSRLRN 11 Unmodified _APPQVWSRLRN_ 0 0 0 REV__nc|ENSG00000140839|Q6UXF7|CLEC18B REV__nc|ENSG00000140839|Q6UXF7|CLEC18B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 662.3687133789062 2 662.367653 1322.72075 NaN NaN NaN NaN NaN NaN NaN 27.257 1 28.036 27.536 28.536 0.7787 0 0 0 1.0073 1 12252 12252 1.1933 0 1 + 1618 10032 1350 1350 1667 1667 0.07230090677171574 APPRGRRGRR 10 Unmodified _APPRGRRGRR_ 0 0 0 REV__ENSG00000253368|ENST00000522111|TRNP1 REV__ENSG00000253368|ENST00000522111|TRNP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.4948120117188 2 589.858121 1177.70169 NaN NaN NaN NaN NaN NaN NaN 67.26 1 67.26 66.76 67.76 0 0 0 0 0.98866 1 32218 32218 7.2892 0.56607 1 + 1619 14659 1351 1351 1668 1668 0.11994598896785647 APPRHRLGEEV 11 Unmodified _APPRHRLGEEV_ 0 0 0 ENST00000568121.1_1_16:34213335-34213557:-|nuORF ENST00000568121.1_1_16:34213335-34213557:-|nuORF ENST00000568121.1_1_16:34213335-34213557:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 630.8460693359375 2 630.84401 1259.67347 NaN NaN NaN NaN NaN NaN NaN 60.513 1 60.513 60.013 61.013 0 0 0 0 1.0038 1 28114 28114 5.7319 0.43497 1 1620 9064 1352 1352 1669 1669 0.05401811406181878 APPRQRRRLQ 10 Unmodified _APPRQRRRLQ_ 0 0 0 REV__ENST00000319070.2_1_16:681311-683059:+|nuORF REV__ENST00000319070.2_1_16:681311-683059:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 639.7904663085938 2 639.386711 1276.75887 NaN NaN NaN NaN NaN NaN NaN 70.231 1 70.231 69.731 70.731 0 0 0 0 0.99983 1 34046 34046 1.8442 0.19162 1 + 1621 15305 1353 1353 1670 1670 0.13156021382519612 APPVILEQRR 10 Unmodified _APPVILEQRR_ 0 0 0 ENSG00000152580|ENST00000282466|IGSF10 ENSG00000152580|ENST00000282466|IGSF10 ENSG00000152580|ENST00000282466|IGSF10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.2506713867188 2 589.853847 1177.69314 NaN NaN NaN NaN NaN NaN NaN 87.217 1 87.257 86.757 87.757 0.039955 0 0 0 1.0001 1 44096 44096 1.6526 0.17072 1 1622 3754 1354 1354 1671 1671 0.11140187416935987 APPVKLWKFLI 11 Unmodified _APPVKLWKFLI_ 0 0 0 REV__ENST00000480271.1_1_11:7805306-7805588:+|nuORF REV__ENST00000480271.1_1_11:7805306-7805588:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 656.6082763671875 2 656.413009 1310.81146 NaN NaN NaN NaN NaN NaN NaN 54.625 1 55.421 54.921 55.921 0.79552 0 0 0 1.0071 1 24926 24926 1.4819 0 1 + 1623 16685 1355 1355 1672 1672 0.1684916667275047 APPWWRRIT 9 Unmodified _APPWWRRIT_ 0 0 0 ENST00000381365.3_1_17:4804421-4804538:+|nuORF ENST00000381365.3_1_17:4804421-4804538:+|nuORF ENST00000381365.3_1_17:4804421-4804538:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.8303833007812 2 591.830175 1181.6458 3.3767 0.0019985 -0.0496 -2.9355E-05 3.3271 0.0019691 591.8299011585818 75.736 0.055153 75.993 75.984 76.039 0.25704 6 4 2 0 0 0 0.76984 1 34864 34864 7.9102 1.7044 1 505660 1624 7484 1356 1356 1673 1673 0.062239529366024726 APQARWDET 9 Unmodified _APQARWDET_ 0 0 0 REV__ENST00000592196.1_1_17:58642131-58642236:-|nuORF REV__ENST00000592196.1_1_17:58642131-58642236:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.1644897460938 2 537.254163 1072.49377 NaN NaN NaN NaN NaN NaN NaN 48.995 1 48.995 48.495 49.495 0 0 0 0 0.89683 1 22438 22438 4.3292 1.594 1 + 1625 16741 1357 1357 1674 1674 -0.03957492601625745 APQECRLD 8 Unmodified _APQECRLD_ 0 0 0 ENST00000564810.1_1_16:32265415-32265782:+|nuORF ENST00000564810.1_1_16:32265415-32265782:+|nuORF ENST00000564810.1_1_16:32265415-32265782:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 311.1372985839844 3 311.148248 930.422915 NaN NaN NaN NaN NaN NaN NaN 73.868 1 74.127 73.627 74.627 0.25876 0 0 0 0.99035 1 33940 33940 1.6526 0.58116 1 1626 9037 1358 1358 1675 1675 -0.04507908910807146 APQIYFWLKQL 11 Unmodified _APQIYFWLKQL_ 0 0 0 REV__nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 REV__nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 703.89306640625 2 703.89518 1405.77581 NaN NaN NaN NaN NaN NaN NaN 88.77 1 88.822 88.322 89.322 0.052155 0 0 0 1.0071 1 45322 45322 1.4819 0 1 + 1627 11825 1359 1359 1676 1676 0.08915084425075293 APQKDVKHLA 10 Unmodified _APQKDVKHLA_ 0 0 0 ENSG00000084754|ENST00000380649|HADHA ENSG00000084754|ENST00000380649|HADHA ENSG00000084754|ENST00000380649|HADHA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.822998046875 2 553.819473 1105.62439 NaN NaN NaN NaN NaN NaN NaN 45.155 1 45.981 45.481 46.481 0.82621 0 0 0 0.97102 1 20563 20563 10.074 1.3285 1 1628 962 1360 1360 1677 1677 0.07580523117235316 APQKMQRRVR 10 Unmodified _APQKMQRRVR_ 0 0 0 REV__nc|ENSG00000159140|P18583-3|SON REV__nc|ENSG00000159140|P18583-3|SON MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 635.370361328125 2 635.369672 1268.72479 NaN NaN NaN NaN NaN NaN NaN 46.19 1 46.19 45.69 46.69 0 0 0 0 0.99733 1 21136 21136 3.9444 0.3479 1 + 1629 17995 1361 1361 1678 1678 0.10117856899228173 APQLLQGPRRQ 11 Unmodified _APQLLQGPRRQ_ 0 0 0 REV__ENST00000590867.5_1_19:6468097-6468284:-|nuORF REV__ENST00000590867.5_1_19:6468097-6468284:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.3684692382812 2 632.367653 1262.72075 NaN NaN NaN NaN NaN NaN NaN 45.665 1 46.492 45.992 46.992 0.82621 0 0 0 1.0057 1 20793 20793 3.2813 0 1 + 1630 17578 1362 1362 1679 1679 0.09990090677183616 APQMPEEHCCS 11 Unmodified _APQMPEEHCCS_ 0 0 0 ENST00000409458.3_2_7:23286334-23286451:+|nuORF ENST00000409458.3_2_7:23286334-23286451:+|nuORF ENST00000409458.3_2_7:23286334-23286451:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.0645751953125 2 616.230658 1230.44676 NaN NaN NaN NaN NaN NaN NaN 60.805 1 61.544 61.044 62.044 0.7396 0 0 0 1.0057 1 28117 28117 3.2813 1.4371 1 1631 7659 1363 1363 1680 1680 -0.15924179530929905 APQPELPRIVI 11 Unmodified _APQPELPRIVI_ 0 0 0 REV__nc|ENSG00000108883|Q15029-2|EFTUD2 REV__nc|ENSG00000108883|Q15029-2|EFTUD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.8727416992188 2 616.871705 1231.72886 NaN NaN NaN NaN NaN NaN NaN 46.08 1 46.908 46.408 47.408 0.82814 0 0 0 1.0057 1 20988 20988 3.2813 0.54611 1 + 1632 11162 1364 1364 1681 1681 0.1222622487391618 APQPFLPPLQ 10 Unmodified _APQPFLPPLQ_ 0 0 0 ENST00000569430.6_3_16:28505449-28506076:-|nuORF ENST00000569430.6_3_16:28505449-28506076:-|nuORF ENST00000569430.6_3_16:28505449-28506076:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.8785400390625 2 554.313492 1106.61243 NaN NaN NaN NaN NaN NaN NaN 43.969 1 43.969 43.469 44.469 0 0 0 0 0.94673 1 20059 20059 13.906 2.4113 1 1633 9075 1365 1365 1682 1682 0.0633890637402601 APQPSAPDCED 11 Unmodified _APQPSAPDCED_ 0 0 0 ENST00000441493.6_1_22:18270970-18271342:-|nuORF ENST00000441493.6_1_22:18270970-18271342:-|nuORF ENST00000441493.6_1_22:18270970-18271342:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.9903564453125 2 565.226953 1128.43935 NaN NaN NaN NaN NaN NaN NaN 47.207 1 47.207 46.707 47.707 0 0 0 0 1.0057 1 21610 21610 3.2813 0.97858 1 1634 7936 1366 1366 1683 1683 -0.11972872535352508 APQPTEERL 9 Unmodified _APQPTEERL_ 0 0 0 ENST00000393747.3_1_11:70269077-70281851:+|nuORF;nc|ENSG00000085733|Q14247-3|CTTN;ENSG00000085733|ENST00000301843|CTTN;nc|ENSG00000085733|Q14247-2|CTTN ENST00000393747.3_1_11:70269077-70281851:+|nuORF ENST00000393747.3_1_11:70269077-70281851:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.7743530273438 2 520.772188 1039.52982 NaN NaN NaN NaN NaN NaN NaN 22.928 1 23.613 23.113 24.113 0.68536 0 0 0 0.06994 1 10209 10209 47.594 13.193 1 1635 973 1367 1367 1684 1684 0.011639645752211436 APQQEDAMDD 10 Unmodified _APQQEDAMDD_ 0 0 0 ENST00000543940.1_1_12:124114818-124118191:-|nuORF;ENST00000452159.6_1_12:124114706-124118224:-|nuORF ENST00000543940.1_1_12:124114818-124118191:-|nuORF ENST00000543940.1_1_12:124114818-124118191:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.7183837890625 2 560.216585 1118.41862 2.8709 0.0016083 -2.0055 -0.0011235 0.8654 0.00048481 560.2153609290039 76.354 0.58955 76.354 76.005 76.594 0 62 42 2 0 0 0 0.89464 1 37406 37406 3.9444 0.3479 1 1173000 1636 8027 1368 1368 1685 1685 -0.13585462915011703 APQREPRTSQP 11 Unmodified _APQREPRTSQP_ 0 0 0 ENST00000378891.9_3_1:1270760-1271384:-|nuORF ENST00000378891.9_3_1:1270760-1271384:-|nuORF ENST00000378891.9_3_1:1270760-1271384:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.533935546875 2 633.8311 1265.64765 NaN NaN NaN NaN NaN NaN NaN 75.96 1 76.584 76.084 77.084 0.62397 0 0 0 1.0041 1 36798 36798 5.2969 1.3525 1 1637 7440 1369 1369 1686 1686 0.025449171639138513 APQRPLQPLP 10 Unmodified _APQRPLQPLP_ 0 0 0 ENST00000392038.6_1_19:40739504-40739735:-|nuORF ENST00000392038.6_1_19:40739504-40739735:-|nuORF ENST00000392038.6_1_19:40739504-40739735:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.8321533203125 2 558.82984 1115.64513 NaN NaN NaN NaN NaN NaN NaN 105.75 1 105.8 105.3 106.3 0.050888 0 0 0 0.99225 1 57226 57226 6.7232 0.51738 1 1638 7511 1370 1370 1687 1687 0.09193113496894512 APQRPRAQLL 10 Unmodified _APQRPRAQLL_ 0 0 0 ENST00000479936.1_1_10:114135018-114135162:+|nuORF ENST00000479936.1_1_10:114135018-114135162:+|nuORF ENST00000479936.1_1_10:114135018-114135162:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.34765625 2 575.346189 1148.67783 3.8802 0.0022325 -1.1859 -0.0006823 2.6943 0.0015502 575.3452960952341 93.651 0.80415 94.282 94.046 94.851 0.63115 84 40 3 0 0 0 0.82431 1 43082 43082 7.2892 2.96 1 3289400 1639 8270 1371 1371 1688 1688 0.10943320619730912 APQRPRAQLL 10 Unmodified _APQRPRAQLL_ 0 0 0 ENST00000479936.1_1_10:114135018-114135162:+|nuORF ENST00000479936.1_1_10:114135018-114135162:+|nuORF ENST00000479936.1_1_10:114135018-114135162:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 575.346189 1148.67783 3.9889 0.002295 -1.1686 -0.00067235 2.8203 0.0016226 575.3453543038598 94.144 0.8126 94.404 94.079 94.892 0.25975 0.060711 7.5455E-06 NaN 7.2892 109 41 4 NaN NaN NaN NaN 0 NaN NaN 0 3611500 1640 8270 1371 1371 0.10943320619730912 APQRPRRRRRE 11 Unmodified _APQRPRRRRRE_ 0 0 0 ENST00000376655.1_1_1:11737515-11751604:-|nuORF ENST00000376655.1_1_1:11737515-11751604:-|nuORF ENST00000376655.1_1_1:11737515-11751604:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 739.4382934570312 2 739.437798 1476.86104 NaN NaN NaN NaN NaN NaN NaN 67.463 1 68.165 67.665 68.665 0.70218 0 0 0 1.0071 1 32083 32083 1.4819 1.1313 1 1641 7402 1372 1372 1689 1689 0.1416868745411648 APQSNRLWRHP 11 Unmodified _APQSNRLWRHP_ 0 0 0 REV__ENSG00000135929|ENST00000258415|CYP27A1 REV__ENSG00000135929|ENST00000258415|CYP27A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 681.3616333007812 2 681.362902 1360.71125 NaN NaN NaN NaN NaN NaN NaN 51.175 1 51.992 51.492 52.492 0.81738 0 0 0 1.0057 1 23311 23311 3.2813 0 1 + 1642 12047 1373 1373 1690 1690 0.04532322391651178 APQSRRLRHRW 11 Unmodified _APQSRRLRHRW_ 0 0 0 ENST00000467850.1_1_2:206629136-206659779:+|nuORF ENST00000467850.1_1_2:206629136-206659779:+|nuORF ENST00000467850.1_1_2:206629136-206659779:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 731.9163818359375 2 731.916167 1461.81778 NaN NaN NaN NaN NaN NaN NaN 71.633 1 71.891 71.391 72.391 0.25786 0 0 0 1.0057 1 32833 32833 3.2813 0.28607 1 1643 8150 1374 1374 1691 1691 0.10534497676849242 APQSVQKSSK 10 Unmodified _APQSVQKSSK_ 0 0 0 REV__nc|ENSG00000118058|Q03164-2|KMT2A REV__nc|ENSG00000118058|Q03164-2|KMT2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.7993774414062 2 530.293288 1058.57202 4.0084 0.0021256 4.4095 0.0023383 8.4179 0.004464 530.7961344372228 97.916 0.090355 98.205 98.17 98.26 0.28923 13 9 2 0 0 0 0.73588 2 45038 45025;45038 11.495 0.6952 1 7058600 + 1644 11461 1375 1375 1692;1693 1693 0.04507939983614051 APQTQELTAK 10 Unmodified _APQTQELTAK_ 0 0 0 REV__nc|ENSG00000148408|Q00975-2|CACNA1B REV__nc|ENSG00000148408|Q00975-2|CACNA1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.757568359375 2 543.793121 1085.57169 NaN NaN NaN NaN NaN NaN NaN 74.403 1 75.09 74.59 75.59 0.68662 0 0 0 0.99225 1 35961 35961 6.7232 0.99131 1 + 1645 12536 1376 1376 1694 1694 0.0323252026373666 APQVMDYEAFL 11 Unmodified _APQVMDYEAFL_ 0 0 0 REV__ENST00000394072.7_1_17:38633842-38637100:-|nuORF REV__ENST00000394072.7_1_17:38633842-38637100:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 642.3028564453125 2 642.302464 1282.59037 NaN NaN NaN NaN NaN NaN NaN 79.623 1 79.874 79.374 80.374 0.25127 0 0 0 1.0057 1 36663 36663 3.2813 0.78282 1 + 1646 11865 1377 1377 1695 1695 -0.03961686156685573 APQVRTLRMHL 11 Unmodified _APQVRTLRMHL_ 0 0 0 ENST00000469467.1_1_7:150773072-150773451:+|nuORF ENST00000469467.1_1_7:150773072-150773451:+|nuORF ENST00000469467.1_1_7:150773072-150773451:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 661.16064453125 2 661.379706 1320.74486 NaN NaN NaN NaN NaN NaN NaN 74.673 1 74.673 74.173 75.173 0 0 0 0 0.99038 1 36502 36502 7.609 0.50723 1 1647 8164 1378 1378 1696 1696 0.09731607839194112 APQWTWRRRRR 11 Unmodified _APQWTWRRRRR_ 0 0 0 ENST00000400913.5_1_1:6535562-6545948:-|nuORF;ENST00000537245.5_1_1:6535562-6556614:-|nuORF ENST00000400913.5_1_1:6535562-6545948:-|nuORF ENST00000400913.5_1_1:6535562-6545948:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 784.9453735351562 2 784.942716 1567.87088 NaN NaN NaN NaN NaN NaN NaN 94.684 1 94.77 94.27 95.27 0.086212 0 0 0 1.008 1 49875 49875 0.35063 0.043601 1 1648 7611 1379 1379 1697 1697 0.10965875459464769 APQYVKLLDKL 11 Unmodified _APQYVKLLDKL_ 0 0 0 REV__DNAH3|p.L3142Cfs*14|1|0.19|ENSG00000158486|chr16:20964459-20964459|A/-|frameshift_variant REV__DNAH3|p.L3142Cfs*14|1|0.19|ENSG00000158486|chr16:20964459-20964459|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 643.9279174804688 2 644.387188 1286.75982 NaN NaN NaN NaN NaN NaN NaN 96.908 1 97.51 97.01 98.01 0.6019 0 0 0 1.0071 1 44553 44553 1.4819 0 1 + 1649 10132 1380 1380 1698 1698 0.1279137818817162 APRAALTR 8 Unmodified _APRAALTR_ 0 0 0 ENSG00000168434|ENST00000307149|COG7 ENSG00000168434|ENST00000307149|COG7 ENSG00000168434|ENST00000307149|COG7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 855.5181884765625 1 855.515911 854.508634 4.0906 0.0034996 -0.22891 -0.00019583 3.8617 0.0033038 855.5155253314126 85.465 0.35812 86.131 85.943 86.301 0.66566 27 16 2 0 0 0 0.7471 1 39327 39327 0.79363 0 1 1446000 1650 4628 1381 1381 1699 1699 0.07556044057014333 APRAQRREFKN 11 Unmodified _APRAQRREFKN_ 0 0 0 REV__ENST00000531444.1_1_11:23427242-23427602:+|nuORF REV__ENST00000531444.1_1_11:23427242-23427602:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 686.8804931640625 2 686.881459 1371.74836 NaN NaN NaN NaN NaN NaN NaN 91.566 1 92.228 91.728 92.728 0.66198 0 0 0 1.0057 1 42137 42137 3.2813 1.7994 1 + 1651 17141 1382 1382 1700 1700 0.07735993937399144 APRARRWEWSW 11 Unmodified _APRARRWEWSW_ 0 0 0 REV__ENST00000407627.6_1_19:8027511-8027907:-|nuORF REV__ENST00000407627.6_1_19:8027511-8027907:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.8013610839844 3 500.925093 1499.75345 NaN NaN NaN NaN NaN NaN NaN 62.072 1 62.072 61.572 62.572 0 0 0 0 1.0079 1 29051 29051 0.50596 0.051438 1 + 1652 16080 1383 1383 1701 1701 0.02356297800020002 APRCRRFWSRW 11 Unmodified _APRCRRFWSRW_ 0 0 0 ENSG00000173714|ENST00000311378|WFIKKN2 ENSG00000173714|ENST00000311378|WFIKKN2 ENSG00000173714|ENST00000311378|WFIKKN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 760.896728515625 2 760.893846 1519.77314 NaN NaN NaN NaN NaN NaN NaN 40.057 1 40.698 40.198 41.198 0.64136 0 0 0 1.0071 1 18302 18302 1.4819 0.15237 1 1653 4948 1384 1384 1702 1702 0.03404350539108236 APREEKERETE 11 Unmodified _APREEKERETE_ 0 0 0 nc|ENSG00000136861|Q96SN8-4|CDK5RAP2;nc|ENSG00000136861|Q96SN8-3|CDK5RAP2;nc|ENSG00000136861|Q96SN8-2|CDK5RAP2;ENSG00000136861|ENST00000349780|CDK5RAP2;ENST00000483412.5_1_9:123170580-123298708:-|nuORF nc|ENSG00000136861|Q96SN8-4|CDK5RAP2 nc|ENSG00000136861|Q96SN8-4|CDK5RAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 687.33642578125 2 687.336412 1372.65827 NaN NaN NaN NaN NaN NaN NaN 94.138 1 94.769 94.269 95.269 0.63115 0 0 0 1.0071 1 43297 43297 1.4819 0 1 1654 2982 1385 1385 1703 1703 -0.01315144972318194 APRELRRFFRA 11 Unmodified _APRELRRFFRA_ 0 0 0 REV__nc|ENSG00000142459|Q96CN4|EVI5L REV__nc|ENSG00000142459|Q96CN4|EVI5L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 709.9153442382812 2 709.910019 1417.80549 NaN NaN NaN NaN NaN NaN NaN 13.769 1 13.769 13.269 14.269 0 0 0 0 1.0044 1 6044 6044 4.897 1.6157 1 + 1655 12325 1386 1386 1704 1704 0.113294612137679 APRERRKRRH 10 Unmodified _APRERRKRRH_ 0 0 0 REV__ENST00000462274.1_1_21:38739279-38845117:+|nuORF REV__ENST00000462274.1_1_21:38739279-38845117:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.601318359375 3 454.608098 1360.80247 NaN NaN NaN NaN NaN NaN NaN 69.405 1 70.108 69.608 70.608 0.70302 0 0 0 0.99774 1 33214 33214 3.5871 2.2574 1 + 1656 16502 1387 1387 1705 1705 0.13649630879626784 APRERRKRRHT 11 Unmodified _APRERRKRRHT_ 0 0 0 REV__ENST00000462274.1_1_21:38739279-38845117:+|nuORF REV__ENST00000462274.1_1_21:38739279-38845117:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 731.9327392578125 2 731.932348 1461.85014 NaN NaN NaN NaN NaN NaN NaN 82.094 1 82.094 81.594 82.594 0 0 0 0 1.0071 1 40989 40989 1.4819 0.15237 1 + 1657 16502 1388 1388 1706 1706 0.13769285079820293 APRFQEFRRAY 11 Unmodified _APRFQEFRRAY_ 0 0 0 ENST00000219542.3_3_16:767039-767384:+|nuORF;ENSG00000103260|ENST00000568223|METRN ENST00000219542.3_3_16:767039-767384:+|nuORF ENST00000219542.3_3_16:767039-767384:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 720.8772583007812 2 720.878385 1439.74222 NaN NaN NaN NaN NaN NaN NaN 67.22 1 67.923 67.423 68.423 0.70218 0 0 0 1.0071 1 31917 31917 1.4819 0 1 1658 1388 1389 1389 1707 1707 0.039934757058972536 APRFRFRKDW 10 Unmodified _APRFRFRKDW_ 0 0 0 REV__ENST00000339174.9_2_Y:16636629-16636785:+|nuORF REV__ENST00000339174.9_2_Y:16636629-16636785:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 689.8776245117188 2 689.878188 1377.74182 NaN NaN NaN NaN NaN NaN NaN 95.174 1 95.792 95.292 96.292 0.61736 0 0 0 0.99983 1 43769 43769 1.8442 0 1 + 1659 15441 1390 1390 1708 1708 0.06806100776702806 APRGGWYWIWP 11 Unmodified _APRGGWYWIWP_ 0 0 0 ENST00000370092.7_1_X:153051329-153051590:-|nuORF ENST00000370092.7_1_X:153051329-153051590:-|nuORF ENST00000370092.7_1_X:153051329-153051590:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 694.8485717773438 2 694.848564 1387.68258 NaN NaN NaN NaN NaN NaN NaN 66.042 1 66.042 65.542 66.542 0 0 0 0 1.0071 1 31509 31509 1.4819 0 1 1660 7298 1391 1391 1709 1709 0.00424204762498448 APRHRLLVLV 10 Unmodified _APRHRLLVLV_ 0 0 0 ENSG00000204963|ENST00000525929|PCDHA7;ENSG00000251664|ENST00000398631|PCDHA12;ENSG00000204965|ENST00000529859|PCDHA5;ENSG00000255408|ENST00000522353|PCDHA3;nc|ENSG00000204963|Q9UN72-2|PCDHA7;nc|ENSG00000251664|Q9UN75-2|PCDHA12;nc|ENSG00000204965|Q9Y5H7-2|PCDHA5;nc|ENSG00000255408|Q9Y5H8-2|PCDHA3;nc|ENSG00000204965|Q9Y5H7-3|PCDHA5;ENSG00000204967|ENST00000530339|PCDHA4;nc|ENSG00000204967|Q9UN74-2|PCDHA4 ENSG00000204963|ENST00000525929|PCDHA7;ENSG00000204967|ENST00000530339|PCDHA4 ENSG00000204963|ENST00000525929|PCDHA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.3841552734375 2 587.382574 1172.7506 NaN NaN NaN NaN NaN NaN NaN 60.186 1 60.935 60.435 61.435 0.74927 0 0 0 0.99983 1 27713 27713 1.8442 0.36234 1 1661 6038;6039 1392 1392 1710 1710 0.1711307441316876 APRIYHIL 8 Unmodified _APRIYHIL_ 0 0 0 ENST00000380122.9_2_X:16861892-16862162:+|nuORF ENST00000380122.9_2_X:16861892-16862162:+|nuORF ENST00000380122.9_2_X:16861892-16862162:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.7972106933594 2 491.795269 981.575986 3.0602 0.001505 1.3242 0.00065122 4.3844 0.0021562 491.7957444894631 44.023 0.21939 44.023 43.929 44.149 0 35 21 2 0 0 0 0.69414 1 20116 20116 6.3541 0.59368 1 5434700 1662 7465 1393 1393 1711 1711 0.08446074267999393 APRIYHIL 8 Unmodified _APRIYHIL_ 0 0 0 ENST00000380122.9_2_X:16861892-16862162:+|nuORF ENST00000380122.9_2_X:16861892-16862162:+|nuORF ENST00000380122.9_2_X:16861892-16862162:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 491.795269 981.575986 2.9669 0.0014591 1.2831 0.00063101 4.25 0.0020901 491.79575852399677 44.155 0.3483 44.424 44.35 44.698 0.2694 0.19788 -8.7768E-05 NaN 6.3541 60 26 3 NaN NaN NaN NaN 0 NaN NaN 0 8126200 1663 7465 1393 1393 0.08446074267999393 APRKERRF 8 Unmodified _APRKERRF_ 0 0 0 REV__nc|ENSG00000125999|Q8TDL5-2|BPIFB1 REV__nc|ENSG00000125999|Q8TDL5-2|BPIFB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1060.717529296875 1 1059.61702 1058.60975 2.8213 0.0029895 1.2166 0.0012891 4.0379 0.0042787 1059.6166307153135 81.95 0.026047 82.034 82.024 82.05 0.084106 4 2 2 0 0 0 0.70146 1 40387 40387 5.7604 0 1 39952000 + 1664 16524 1394 1394 1712 1712 0.0827849575973687 APRKERRF 8 Unmodified _APRKERRF_ 0 0 0 REV__nc|ENSG00000125999|Q8TDL5-2|BPIFB1 REV__nc|ENSG00000125999|Q8TDL5-2|BPIFB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.3138427734375 2 530.312149 1058.60975 NaN NaN NaN NaN NaN NaN NaN 100.72 1 101.03 100.53 101.53 0.31412 0 0 0 0.99035 1 46602 46602 5.7604 1.0044 1 + 1665 16524 1394 1394 1713 1713 0.0827849575973687 APRKERRF 8 Unmodified _APRKERRF_ 0 0 0 REV__nc|ENSG00000125999|Q8TDL5-2|BPIFB1 REV__nc|ENSG00000125999|Q8TDL5-2|BPIFB1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 1059.61702 1058.60975 2.8213 0.0029895 1.2166 0.0012891 4.0379 0.0042787 1059.6166307153135 81.95 0.026047 82.034 82.024 82.05 0.084106 0 0 NaN 5.7604 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 39952000 + 1666 16524 1394 1394 0.0827849575973687 APRKKQIAPL 10 Unmodified _APRKKQIAPL_ 0 0 0 nc|ENSG00000163092|A4UGR9-2|XIRP2;nc|ENSG00000163092|A4UGR9-3|XIRP2;nc|ENSG00000163092|A4UGR9|XIRP2;ENSG00000163092|ENST00000409195|XIRP2 nc|ENSG00000163092|A4UGR9-2|XIRP2 nc|ENSG00000163092|A4UGR9-2|XIRP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.782958984375 2 561.361308 1120.70806 NaN NaN NaN NaN NaN NaN NaN 53.534 1 53.799 53.299 54.299 0.26462 0 0 0 0.99733 1 24483 24483 3.9444 0.3479 1 1667 4189 1395 1395 1714 1714 0.15253679284910504 APRKPGIFP 9 Unmodified _APRKPGIFP_ 0 0 0 ENSG00000174720|ENST00000344442|LARP7;nc|ENSG00000174720|Q4G0J3-3|LARP7 ENSG00000174720|ENST00000344442|LARP7 ENSG00000174720|ENST00000344442|LARP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.79742431640625 2 491.795269 981.575986 3.0961 0.0015227 0.40434 0.00019885 3.5005 0.0017215 491.7953111327557 44.603 0.35116 45.424 45.246 45.598 0.82074 20 16 2 0 0 0 0.7295 1 20329 20329 8.5933 0 1 647490 1668 4993 1396 1396 1715 1715 0.08446074267988024 APRLEWRRRPR 11 Unmodified _APRLEWRRRPR_ 0 0 0 ENST00000291572.12_1_21:45404383-45404527:+|nuORF ENST00000291572.12_1_21:45404383-45404527:+|nuORF ENST00000291572.12_1_21:45404383-45404527:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 746.9174194335938 2 746.939642 1491.86473 NaN NaN NaN NaN NaN NaN NaN 74.928 1 74.928 74.428 75.428 0 0 0 0 1.008 1 36693 36693 0.35063 0 1 1669 6737 1397 1397 1716 1716 0.13847357227950852 APRLGYRLR 9 Unmodified _APRLGYRLR_ 0 0 0 REV__nc|ENSG00000196123|Q68EN5-2|MATCAP1 REV__nc|ENSG00000196123|Q68EN5-2|MATCAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.4352416992188 2 551.335624 1100.6567 NaN NaN NaN NaN NaN NaN NaN 72.13 1 72.793 72.293 73.293 0.66324 0 0 0 0.90511 1 33067 33067 2.3027 0 1 + 1670 14189 1398 1398 1717 1717 0.11039355310867904 APRLKYLI 8 Unmodified _APRLKYLI_ 0 0 0 nc|ENSG00000135476|Q14674-2|ESPL1;ENSG00000135476|ENST00000257934|ESPL1 nc|ENSG00000135476|Q14674-2|ESPL1 nc|ENSG00000135476|Q14674-2|ESPL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2463684082031 2 487.313295 972.612037 NaN NaN NaN NaN NaN NaN NaN 72.425 1 72.684 72.184 73.184 0.25876 0 0 0 0.99035 1 33247 33247 2.8892 0 1 1671 2875 1399 1399 1718 1718 0.12463531444836917 APRLLHILKRC 11 Unmodified _APRLLHILKRC_ 0 0 0 REV__nc|ENSG00000163482|Q9NRP7-2|STK36 REV__nc|ENSG00000163482|Q9NRP7-2|STK36 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 660.51416015625 2 660.408266 1318.80198 NaN NaN NaN NaN NaN NaN NaN 107.28 1 107.88 107.38 108.38 0.60074 0 0 0 1.0071 1 49516 49516 1.4819 0 1 + 1672 12990 1400 1400 1719 1719 0.1553307511555886 APRLLIYD 8 Unmodified _APRLLIYD_ 0 0 0 nc|ENSG00000241351|P04433|IGKV3-11;nc|ENSG00000211632|A0A0A0MRZ8|IGKV3D-11;nc|ENSG00000211625|A0A0C4DH25|IGKV3D-20 nc|ENSG00000241351|P04433|IGKV3-11 nc|ENSG00000241351|P04433|IGKV3-11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.77679443359375 2 480.779285 959.544017 NaN NaN NaN NaN NaN NaN NaN 76.093 1 76.35 75.85 76.85 0.25704 0 0 0 0.99035 1 35030 35030 5.7604 0.52976 1 1673 9818 1401 1401 1720 1720 0.06262661794175983 APRLLLQRRMV 11 Unmodified _APRLLLQRRMV_ 0 0 0 ENST00000261405.9_1_12:6103333-6103640:-|nuORF ENST00000261405.9_1_12:6103333-6103640:-|nuORF ENST00000261405.9_1_12:6103333-6103640:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 676.8597412109375 2 676.918998 1351.82344 NaN NaN NaN NaN NaN NaN NaN 82.337 1 82.421 81.921 82.921 0.084106 0 0 0 1.0034 1 40658 40658 6.2058 0.9089 1 1674 6558 1402 1402 1721 1721 0.1616046014426047 APRLVRVKL 9 Unmodified _APRLVRVKL_ 0 0 0 REV__ENSG00000153561|ENST00000283632|RMND5A REV__ENSG00000153561|ENST00000283632|RMND5A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.3265380859375 2 526.358568 1050.70258 NaN NaN NaN NaN NaN NaN NaN 66.979 1 66.979 66.479 67.479 0 0 0 0 0.90511 1 32050 32050 2.3027 0.24298 1 + 1675 12681 1403 1403 1722 1722 0.1792600049311659 APRPAIRLLRP 11 Unmodified _APRPAIRLLRP_ 0 0 0 REV__ENSG00000204839|ENST00000398882|MROH6 REV__ENSG00000204839|ENST00000398882|MROH6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 630.3103637695312 2 630.406581 1258.79861 NaN NaN NaN NaN NaN NaN NaN 89.999 1 90.063 89.563 90.563 0.064346 0 0 0 1.0072 1 46265 46265 3.2813 0 1 + 1676 14440 1404 1404 1723 1723 0.17956148333200872 APRPALARVL 10 Unmodified _APRPALARVL_ 0 0 0 ENST00000332408.8_1_15:49255483-49255573:-|nuORF ENST00000332408.8_1_15:49255483-49255573:-|nuORF ENST00000332408.8_1_15:49255483-49255573:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.3394165039062 2 532.340375 1062.6662 NaN NaN NaN NaN NaN NaN NaN 90.669 1 90.669 90.169 91.169 0 0 0 0 0.99225 1 47715 47715 6.7232 0 1 1677 7000 1405 1405 1724 1724 0.13737123596411038 APRPFVHFY 9 Unmodified _APRPFVHFY_ 0 0 0 ENST00000356166.10_3_16:30681089-30681491:+|nuORF ENST00000356166.10_3_16:30681089-30681491:+|nuORF ENST00000356166.10_3_16:30681089-30681491:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.298828125 2 567.298176 1132.5818 NaN NaN NaN NaN NaN NaN NaN 80.024 1 80.684 80.184 81.184 0.66082 0 0 0 0.90511 1 36872 36872 2.3027 0 1 1678 7154 1406 1406 1725 1725 0.020811727796626656 APRPGTLSVGF 11 Unmodified _APRPGTLSVGF_ 0 0 0 ENST00000294485.5_1_1:11785710-11785770:+|nuORF ENST00000294485.5_1_1:11785710-11785770:+|nuORF ENST00000294485.5_1_1:11785710-11785770:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 551.3062744140625 2 551.306198 1100.59784 NaN NaN NaN NaN NaN NaN NaN 72.319 1 72.577 72.077 73.077 0.25876 0 0 0 1.0055 1 33197 33197 3.5965 0 1 1679 6748 1407 1407 1726 1726 0.051568342258860866 APRPGVLLLLL 11 Unmodified _APRPGVLLLLL_ 0 0 0 nc|ENSG00000049540|P15502-11|ELN;nc|ENSG00000049540|P15502-8|ELN;nc|ENSG00000049540|P15502-7|ELN;nc|ENSG00000049540|P15502-6|ELN;nc|ENSG00000049540|P15502-12|ELN;nc|ENSG00000049540|P15502-13|ELN;nc|ENSG00000049540|P15502-5|ELN;ENSG00000049540|ENST00000252034|ELN;nc|ENSG00000049540|P15502-1|ELN;nc|ENSG00000049540|P15502-4|ELN;nc|ENSG00000049540|P15502-10|ELN;nc|ENSG00000049540|P15502|ELN;nc|ENSG00000049540|P15502-9|ELN;ENST00000480728.5_1_7:73442517-73457477:+|nuORF;ENST00000468517.5_1_7:73442517-73457477:+|nuORF nc|ENSG00000049540|P15502-11|ELN nc|ENSG00000049540|P15502-11|ELN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.4624633789062 2 581.389534 1160.76451 NaN NaN NaN NaN NaN NaN NaN 73.911 1 74.598 74.098 75.098 0.68662 0 0 0 1.0071 1 35691 35691 1.4819 0 1 1680 577 1408 1408 1727 1727 0.1905630712162747 APRPMLLLLIV 11 Unmodified _APRPMLLLLIV_ 0 0 0 REV__ENST00000565181.1_1_15:72766821-72767304:-|nuORF REV__ENST00000565181.1_1_15:72766821-72767304:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 618.399658203125 2 618.399044 1234.78354 NaN NaN NaN NaN NaN NaN NaN 85.477 1 85.725 85.225 86.225 0.24857 0 0 0 1.008 1 39334 39334 0.35063 0 1 + 1681 17413 1409 1409 1728 1728 0.17553520421006397 APRPRHFLHPR 11 Unmodified _APRPRHFLHPR_ 0 0 0 REV__ENST00000561922.1_1_16:67270489-67272168:-|nuORF REV__ENST00000561922.1_1_16:67270489-67272168:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 692.3952026367188 2 692.397079 1382.7796 NaN NaN NaN NaN NaN NaN NaN 69.242 1 69.944 69.444 70.444 0.70218 0 0 0 1.0057 1 33125 33125 3.2813 0.28607 1 + 1682 17378 1410 1410 1729 1729 0.1035261176214135 APRPRRRRLP 10 Unmodified _APRPRRRRLP_ 0 0 0 FAM20C|p.G144Wfs*65|1|0.5|ENSG00000177706|chr7:193628-193629|-/T|frameshift_variant FAM20C|p.G144Wfs*65|1|0.5|ENSG00000177706|chr7:193628-193629|-/T|frameshift_variant FAM20C|p.G144Wfs*65|1|0.5|ENSG00000177706|chr7:193628-193629|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 637.9063110351562 2 637.905071 1273.79559 NaN NaN NaN NaN NaN NaN NaN 17.23 1 17.89 17.39 18.39 0.66072 0 0 0 0.99983 1 7771 7771 1.8442 0.36234 1 1683 9358 1411 1411 1730 1730 0.169643179990544 APRPTGRFSYR 11 Unmodified _APRPTGRFSYR_ 0 0 0 REV__ENST00000455639.6_1_4:156588198-156588336:+|nuORF REV__ENST00000455639.6_1_4:156588198-156588336:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 654.3501586914062 2 654.352003 1306.68945 NaN NaN NaN NaN NaN NaN NaN 28.173 1 28.173 27.673 28.673 0 0 0 0 1.0073 1 12699 12699 1.1933 0.66858 1 + 1684 16446 1412 1412 1731 1731 0.04837517643090905 APRQKKRDKKR 11 Unmodified _APRQKKRDKKR_ 0 0 0 REV__ENST00000478330.1_1_1:171757000-171759833:+|nuORF REV__ENST00000478330.1_1_1:171757000-171759833:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 705.9424438476562 2 705.94185 1409.86915 NaN NaN NaN NaN NaN NaN NaN 63.609 1 64.331 63.831 64.831 0.72236 0 0 0 1.0059 1 29816 29816 2.9952 1.8019 1 + 1685 10222 1413 1413 1732 1732 0.18060821650851722 APRQLLLHL 9 Unmodified _APRQLLLHL_ 0 0 0 REV__nc|ENSG00000171102|Q9NPH6-3|OBP2B REV__nc|ENSG00000171102|Q9NPH6-3|OBP2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.8380126953125 2 530.834926 1059.6553 NaN NaN NaN NaN NaN NaN NaN 87.396 1 87.396 86.896 87.896 0 0 0 0 0.89315 1 45059 45059 5.2307 0.90143 1 + 1686 18045 1414 1414 1733 1733 0.12785721222144275 APRQSHLETWM 11 Unmodified _APRQSHLETWM_ 0 0 0 ENST00000404008.6_1_7:6150774-6150897:+|nuORF ENST00000404008.6_1_7:6150774-6150897:+|nuORF ENST00000404008.6_1_7:6150774-6150897:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 452.55523681640625 3 452.555678 1354.6452 NaN NaN NaN NaN NaN NaN NaN 16.976 1 17.177 16.677 17.677 0.20057 0 0 0 1.0079 1 7512 7512 0.50596 0.41111 1 1687 7626 1415 1415 1734 1734 -0.0179325456542756 APRRFFLLS 9 Unmodified _APRRFFLLS_ 0 0 0 REV__ENST00000342427.6_1_20:32379592-32379847:+|nuORF REV__ENST00000342427.6_1_20:32379592-32379847:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.9502563476562 2 553.827101 1105.63965 NaN NaN NaN NaN NaN NaN NaN 82.516 1 82.6 82.1 83.1 0.084106 0 0 0 0.89509 1 40760 40760 4.756 0.81161 1 + 1688 15472 1416 1416 1735 1735 0.09105434705088555 APRRGLRLH 9 Unmodified _APRRGLRLH_ 0 0 0 REV__ENST00000397661.6_1_19:13206434-13206683:+|nuORF REV__ENST00000397661.6_1_19:13206434-13206683:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.0192260742188 2 538.333416 1074.65228 NaN NaN NaN NaN NaN NaN NaN 63.134 1 63.134 62.634 63.634 0 0 0 0 0.89509 1 29663 29663 4.756 0 1 + 1689 16018 1417 1417 1736 1736 0.11793890887975067 APRRHDHNHH 10 Unmodified _APRRHDHNHH_ 0 0 0 ENST00000409753.7_1_17:73150445-73150580:-|nuORF ENST00000409753.7_1_17:73150445-73150580:-|nuORF ENST00000409753.7_1_17:73150445-73150580:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 638.81201171875 2 638.811368 1275.60818 NaN NaN NaN NaN NaN NaN NaN 94.823 1 95.44 94.94 95.94 0.61736 0 0 0 0.99687 1 43607 43607 4.3292 0 1 1690 7665 1418 1418 1737 1737 -0.018597452763060573 APRRLLQALER 11 Unmodified _APRRLLQALER_ 0 0 0 ENST00000487177.5_1_1:1022889-1023015:-|nuORF ENST00000487177.5_1_1:1022889-1023015:-|nuORF ENST00000487177.5_1_1:1022889-1023015:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 661.9029541015625 2 661.904402 1321.79425 NaN NaN NaN NaN NaN NaN NaN 60.261 1 61.01 60.51 61.51 0.74927 0 0 0 1.0059 1 27768 27768 2.9952 0 1 1691 8347 1419 1419 1738 1738 0.14622639119625092 APRRLPARKAW 11 Unmodified _APRRLPARKAW_ 0 0 0 REV__ENST00000291560.6_1_21:45076563-45078105:-|nuORF REV__ENST00000291560.6_1_21:45076563-45078105:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 661.402099609375 2 661.40183 1320.78911 NaN NaN NaN NaN NaN NaN NaN 77.161 1 77.417 76.917 77.917 0.25533 0 0 0 1.0079 1 35533 35533 1.4819 0 1 + 1692 15126 1420 1420 1739 1739 0.14154380047693849 APRRMRRLSWR 11 Unmodified _APRRMRRLSWR_ 0 0 0 ENST00000305850.9_1_16:81040477-81040603:+|nuORF ENST00000305850.9_1_16:81040477-81040603:+|nuORF ENST00000305850.9_1_16:81040477-81040603:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 742.9301147460938 2 742.92822 1483.84189 NaN NaN NaN NaN NaN NaN NaN 46.018 1 46.844 46.344 47.344 0.82621 0 0 0 1.0071 1 20960 20960 1.4819 0.41044 1 1693 6834 1421 1421 1740 1740 0.11932014838839677 APRRRQRVWAF 11 Unmodified _APRRRQRVWAF_ 0 0 0 chr2:30912342-30913233|415|20.19|0.43|5.55|-|0|GALNT14,None|1 chr2:30912342-30913233|415|20.19|0.43|5.55|-|0|GALNT14,None|1 chr2:30912342-30913233|415|20.19|0.43|5.55|-|0|GALNT14,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 481.8438415527344 3 481.612849 1441.81672 NaN NaN NaN NaN NaN NaN NaN 62.458 1 63.189 62.689 63.689 0.73077 0 0 0 1.0057 1 29118 29118 2.8433 1.5136 1 1694 163 1422 1422 1741 1741 0.11348283307916063 APRRRRLLF 9 Unmodified _APRRRRLLF_ 0 0 0 REV__ENST00000571543.1_1_17:1131443-1132291:-|nuORF REV__ENST00000571543.1_1_17:1131443-1132291:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.8374633789062 2 592.877991 1183.74143 NaN NaN NaN NaN NaN NaN NaN 85.15 1 85.179 84.679 85.679 0.028603 0 0 0 0.90511 1 42587 42587 2.3027 0.4585 1 + 1695 17451 1423 1423 1742 1742 0.15690725847503018 APRRRRQWLRK 11 Unmodified _APRRRRQWLRK_ 0 0 0 REV__ENST00000515594.5_1_6:64345874-64401682:+|nuORF REV__ENST00000515594.5_1_6:64345874-64401682:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.8204345703125 3 508.314915 1521.92291 2.563 0.0013028 -4.0811 -0.0020745 -1.5182 -0.00077172 508.3128086647356 65.51 0.09613 65.51 65.493 65.589 0 11 10 2 0 0 0 0.13295 1 31262 31262 0.45452 0.38125 1 3537700 + 1696 17020 1424 1424 1743 1743 0.18283038873232726 APRRRRRKGKD 11 Unmodified _APRRRRRKGKD_ 0 0 0 REV__ENST00000397514.7_1_16:1359654-1364026:+|nuORF REV__ENST00000397514.7_1_16:1359654-1364026:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 698.889404296875 2 698.429442 1394.84433 NaN NaN NaN NaN NaN NaN NaN 87.084 1 87.084 86.584 87.584 0 0 0 0 1.0071 1 44802 44802 1.4819 0.15237 1 + 1697 16016 1425 1425 1744 1744 0.16270186568135614 APRRRRRRP 9 Unmodified _APRRRRRRP_ 0 0 0 ENST00000469704.1_1_20:17934783-17949290:-|nuORF ENST00000469704.1_1_20:17934783-17949290:-|nuORF ENST00000469704.1_1_20:17934783-17949290:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.0335693359375 2 610.887213 1219.75987 NaN NaN NaN NaN NaN NaN NaN 96.849 1 97.451 96.951 97.951 0.6019 0 0 0 0.90511 1 44526 44526 2.3027 0 1 1698 8165 1426 1426 1745 1745 0.15878280542074208 APRRRRWRRRR 11 Unmodified _APRRRRWRRRR_ 0 0 0 REV__ENST00000556735.1_1_14:51134724-51134856:-|nuORF REV__ENST00000556735.1_1_14:51134724-51134856:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.5025024414062 2 811.501598 1620.98864 NaN NaN NaN NaN NaN NaN NaN 72.062 1 72.766 72.266 73.266 0.70386 0 0 0 1.0071 1 34650 34650 1.4819 1.2129 1 + 1699 17329 1427 1427 1746 1746 0.20298872838770876 APRRRWDRP 9 Unmodified _APRRRWDRP_ 0 0 0 ENSG00000181418|ENST00000421952|DDN ENSG00000181418|ENST00000421952|DDN ENSG00000181418|ENST00000421952|DDN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 605.7600708007812 2 605.33923 1208.66391 NaN NaN NaN NaN NaN NaN NaN 73.416 1 74.08 73.58 74.58 0.66398 0 0 0 0.84134 1 33738 33738 7.9102 1.187 1 1700 5289 1428 1428 1747 1747 0.0679208791129895 APRRVFHL 8 Unmodified _APRRVFHL_ 0 0 0 ENSG00000139865|ENST00000553443|TTC6 ENSG00000139865|ENST00000553443|TTC6 ENSG00000139865|ENST00000553443|TTC6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.7978210449219 2 498.29851 994.582468 3.2881 0.0016385 -2.0471 -0.0010201 1.241 0.00061838 498.29784767798895 47.906 0.1481 48.559 48.534 48.682 0.65356 8 5 2 0 0 0 0.14249 1 21939 21939 0 0 1 148610 1701 3170 1429 1429 1748 1748 0.08496012219370641 APRRWIPVWRS 11 Unmodified _APRRWIPVWRS_ 0 0 0 REV__ENST00000508276.1_1_4:2933511-2933652:-|nuORF REV__ENST00000508276.1_1_4:2933511-2933652:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 712.6903686523438 2 712.407112 1422.79967 NaN NaN NaN NaN NaN NaN NaN 89.524 1 89.524 89.024 90.024 0 0 0 0 1.0057 1 46780 46780 3.2813 0 1 + 1702 16950 1430 1430 1749 1749 0.1051836270212334 APRRWRLLLL 10 Unmodified _APRRWRLLLL_ 0 0 0 REV__ENSG00000130876|ENST00000253188|SLC7A10 REV__ENSG00000130876|ENST00000253188|SLC7A10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 647.4345703125 2 647.416949 1292.81934 NaN NaN NaN NaN NaN NaN NaN 95.113 1 95.73 95.23 96.23 0.61736 0 0 0 1.0015 1 43740 43740 0.45834 0.10771 1 + 1703 11836 1431 1431 1750 1750 0.18464738712896178 APRSALWLL 9 Unmodified _APRSALWLL_ 0 0 0 nc|ENSG00000132535|P78352-2|DLG4 nc|ENSG00000132535|P78352-2|DLG4 nc|ENSG00000132535|P78352-2|DLG4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.8101196289062 2 513.808377 1025.6022 3.2658 0.001678 1.1789 0.00060573 4.4447 0.0022837 513.808849935806 44.974 0.45485 45.242 45.052 45.507 0.26768 52 22 3 0 0 0 0.68496 1 20515 20515 9.3474 0 1 1876500 1704 9642 1432 1432 1751 1751 0.09042343439477918 APRSALWLL 9 Unmodified _APRSALWLL_ 0 0 0 nc|ENSG00000132535|P78352-2|DLG4 nc|ENSG00000132535|P78352-2|DLG4 nc|ENSG00000132535|P78352-2|DLG4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8106079101562 2 513.808377 1025.6022 3.5591 0.0018287 1.34 0.00068851 4.8991 0.0025172 513.8088443644946 44.216 0.39961 44.866 44.775 45.174 0.64998 44 19 3 0 0 0 0.68496 1 20307 20307 9.3474 0 1 2055800 1705 9642 1432 1432 1752 1752 0.09042343439477918 APRSUCCHCR 10 2 Carbamidomethyl (C) _APRSUCCHCR_ 0 2 0 ENSG00000250722|ENST00000514985|SELENOP ENSG00000250722|ENST00000514985|SELENOP ENSG00000250722|ENST00000514985|SELENOP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 648.8326416015625 2 649.216137 1296.41772 NaN NaN NaN NaN NaN NaN NaN 60.562 1 60.562 60.062 61.062 0 0 0 0 1.0015 1 28151 28151 0 0 0 1706 6266 1433 1433 1753 1753 -0.21863102871657247 APRSUCCHCR 10 2 Carbamidomethyl (C) _APRSUCCHCR_ 0 2 0 ENSG00000250722|ENST00000514985|SELENOP ENSG00000250722|ENST00000514985|SELENOP ENSG00000250722|ENST00000514985|SELENOP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 649.2177124023438 2 649.216137 1296.41772 NaN NaN NaN NaN NaN NaN NaN 80.568 1 81.228 80.728 81.728 0.65998 0 0 0 1.0015 1 37125 37125 0 0 0 1707 6266 1433 1433 1754 1754 -0.21863102871657247 APRSUCCHCR 10 Unmodified _APRSUCCHCR_ 0 0 0 ENSG00000250722|ENST00000514985|SELENOP ENSG00000250722|ENST00000514985|SELENOP ENSG00000250722|ENST00000514985|SELENOP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.7938232421875 2 592.194673 1182.37479 NaN NaN NaN NaN NaN NaN NaN 83.953 1 83.953 83.453 84.453 0 0 0 0 0.99983 1 42392 42392 0 0 0 1708 6266 1433 1434 1755 1755 -0.20909872929087214 APRSUCCHCR 10 Unmodified _APRSUCCHCR_ 0 0 0 ENSG00000250722|ENST00000514985|SELENOP ENSG00000250722|ENST00000514985|SELENOP ENSG00000250722|ENST00000514985|SELENOP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.2701416015625 2 592.194673 1182.37479 NaN NaN NaN NaN NaN NaN NaN 63.985 1 64.701 64.201 65.201 0.71521 0 0 0 0.99983 1 30066 30066 0 0 0 1709 6266 1433 1434 1756 1756 -0.20909872929087214 APRSUCCHCR 10 Unmodified _APRSUCCHCR_ 0 0 0 ENSG00000250722|ENST00000514985|SELENOP ENSG00000250722|ENST00000514985|SELENOP ENSG00000250722|ENST00000514985|SELENOP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.1932373046875 2 592.194673 1182.37479 NaN NaN NaN NaN NaN NaN NaN 106.06 1 106.66 106.16 107.16 0.59969 0 0 0 0.99983 1 48976 48976 0 0 0 1710 6266 1433 1434 1757 1757 -0.20909872929087214 APRSUCCHCR 10 3 Carbamidomethyl (C) _APRSUCCHCR_ 0 3 0 ENSG00000250722|ENST00000514985|SELENOP ENSG00000250722|ENST00000514985|SELENOP ENSG00000250722|ENST00000514985|SELENOP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 677.7628784179688 2 677.726869 1353.43918 NaN NaN NaN NaN NaN NaN NaN 91.839 1 91.839 91.339 92.339 0 0 0 0 1.0015 1 48633 48633 0 0 0 1711 6266 1433 1435 1758 1758 -0.22339717842942264 APRSUCCHCR 10 3 Carbamidomethyl (C) _APRSUCCHCR_ 0 3 0 ENSG00000250722|ENST00000514985|SELENOP ENSG00000250722|ENST00000514985|SELENOP ENSG00000250722|ENST00000514985|SELENOP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.7268676757812 2 677.726869 1353.43918 NaN NaN NaN NaN NaN NaN NaN 76.046 1 76.67 76.17 77.17 0.62397 0 0 0 0.99983 1 36838 36838 0 0 0 1712 6266 1433 1435 1759 1759 -0.22339717842942264 APRVHRSLRWR 11 Unmodified _APRVHRSLRWR_ 0 0 0 ENST00000421556.5_1_11:64508932-64510309:-|nuORF ENST00000421556.5_1_11:64508932-64510309:-|nuORF ENST00000421556.5_1_11:64508932-64510309:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.6251220703125 3 478.616482 1432.82762 NaN NaN NaN NaN NaN NaN NaN 70.185 1 70.185 69.685 70.685 0 0 0 0 1.0079 1 34017 34017 0.50596 0.09769 1 1713 7762 1434 1436 1760 1760 0.1285168568217614 APRVLSSRTLF 11 Unmodified _APRVLSSRTLF_ 0 0 0 REV__ENST00000464942.6_1_12:122710297-122710606:-|nuORF REV__ENST00000464942.6_1_12:122710297-122710606:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 623.765380859375 2 623.866954 1245.71936 NaN NaN NaN NaN NaN NaN NaN 96.783 1 96.859 96.359 97.359 0.076538 0 0 0 0.94174 1 51532 51532 12.241 6.0349 1 + 1714 16535 1435 1437 1761 1761 0.10632456588427885 APRVRRRKHP 10 Unmodified _APRVRRRKHP_ 0 0 0 ENST00000592087.1_1_19:36980552-36981209:+|nuORF ENST00000592087.1_1_19:36980552-36981209:+|nuORF ENST00000592087.1_1_19:36980552-36981209:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 425.31304931640625 3 424.933923 1271.77994 3.2335 0.001374 -1.7023 -0.00072335 1.5312 0.00065066 425.26792930974045 103.85 0.15806 104.45 104.35 104.51 0.59822 48 28 2 0 0 0 0.12676 1 48036 48036 0.15932 0.15932 1 501200 1715 9243 1436 1438 1762 1762 0.1549203148201741 APRVWWMFRVF 11 Unmodified _APRVWWMFRVF_ 0 0 0 ENSG00000128311|ENST00000249042|TST ENSG00000128311|ENST00000249042|TST ENSG00000128311|ENST00000249042|TST MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 748.052978515625 2 747.894992 1493.77543 NaN NaN NaN NaN NaN NaN NaN 92.29 1 92.373 91.873 92.873 0.082848 0 0 0 1.0071 1 48053 48053 1.4819 0 1 1716 2507 1437 1439 1763 1763 0.04829386224218979 APRWKPMKG 9 Unmodified _APRWKPMKG_ 0 0 0 REV__ENST00000265069.12_1_5:32420185-32444730:-|nuORF REV__ENST00000265069.12_1_5:32420185-32444730:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.8009643554688 2 535.800029 1069.5855 NaN NaN NaN NaN NaN NaN NaN 87.264 1 87.264 86.764 87.764 0 0 0 0 0.84134 1 44950 44950 7.9102 0.62092 1 + 1717 15029 1438 1440 1764 1764 0.0534951928184455 APRWNDYEVP 10 Unmodified _APRWNDYEVP_ 0 0 0 nc|ENSG00000166743|Q08AH1-2|ACSM1;ENSG00000166743|ENST00000520010|ACSM1 nc|ENSG00000166743|Q08AH1-2|ACSM1 nc|ENSG00000166743|Q08AH1-2|ACSM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 623.53564453125 2 623.796195 1245.57784 NaN NaN NaN NaN NaN NaN NaN 84.448 1 84.448 83.948 84.948 0 0 0 0 0.99687 1 42757 42757 4.3292 0 1 1718 4503 1439 1441 1765 1765 -0.03512961504748091 APRWPRPRTPR 11 Unmodified _APRWPRPRTPR_ 0 0 0 ENST00000457594.2_7:74237150-74267816:-|nuORF ENST00000457594.2_7:74237150-74267816:-|nuORF ENST00000457594.2_7:74237150-74267816:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.199951171875 3 463.937333 1388.79017 NaN NaN NaN NaN NaN NaN NaN 71.721 1 72.425 71.925 72.925 0.70386 0 0 0 1.0071 1 34472 34472 0.50596 0 1 1719 8060 1440 1442 1766 1766 0.11132594416562824 APRWRWWRWTF 11 Unmodified _APRWRWWRWTF_ 0 0 0 chr5:1062509-1063844|226|12.73|0.57|4.48|-|1|None,SLC12A7|1 chr5:1062509-1063844|226|12.73|0.57|4.48|-|1|None,SLC12A7|1 chr5:1062509-1063844|226|12.73|0.57|4.48|-|1|None,SLC12A7|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 824.4253540039062 2 824.425836 1646.83712 NaN NaN NaN NaN NaN NaN NaN 69.772 1 69.772 69.272 70.272 0 0 0 0 1.0082 1 33757 33757 0 0 1 1720 175 1441 1443 1767 1767 0.039574539677005305 APRWRWWRWTF 11 Unmodified _APRWRWWRWTF_ 0 0 0 chr5:1062509-1063844|226|12.73|0.57|4.48|-|1|None,SLC12A7|1 chr5:1062509-1063844|226|12.73|0.57|4.48|-|1|None,SLC12A7|1 chr5:1062509-1063844|226|12.73|0.57|4.48|-|1|None,SLC12A7|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.9537963867188 3 549.952983 1646.83712 NaN NaN NaN NaN NaN NaN NaN 73.34 1 74.004 73.504 74.504 0.66398 0 0 0 1.0071 1 33700 33700 0.50596 0.41111 1 1721 175 1441 1443 1768 1768 0.039574539677005305 APRYARAL 8 Unmodified _APRYARAL_ 0 0 0 REV__ENSG00000181652|ENST00000639579|ATG9B REV__ENSG00000181652|ENST00000639579|ATG9B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 459.1741638183594 2 459.269419 916.524284 3.167 0.0014545 0.29686 0.00013634 3.4639 0.0015909 459.26966526988093 12.787 0.23655 13.43 13.278 13.514 0.64272 11 6 3 0 0 0 0.13853 1 5676 5676 10.183 1.5901 1 1518000 + 1722 13862 1442 1444 1769 1769 0.0626833057406202 APRYARAL 8 Unmodified _APRYARAL_ 0 0 0 REV__ENSG00000181652|ENST00000639579|ATG9B REV__ENSG00000181652|ENST00000639579|ATG9B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 459.269419 916.524284 2.4303 0.0011161 1.1694 0.00053707 3.5997 0.0016532 459.27020510304214 13.081 0.16075 13.324 13.244 13.405 0.24346 -0.051016 0.00064436 NaN 10.183 21 13 2 NaN NaN NaN NaN 0 NaN NaN 0 295560 + 1723 13862 1442 1444 0.0626833057406202 APRYARAL 8 Unmodified _APRYARAL_ 0 0 0 REV__ENSG00000181652|ENST00000639579|ATG9B REV__ENSG00000181652|ENST00000639579|ATG9B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 459.269419 916.524284 2.1772 0.00099992 0.27665 0.00012706 2.4538 0.001127 459.269327855024 13.065 0.26927 13.372 13.216 13.485 0.30727 -0.0033381 -0.00017567 NaN 10.183 27 12 3 NaN NaN NaN NaN 0 NaN NaN 0 387940 + 1724 13862 1442 1444 0.0626833057406202 APSCALFAHL 10 Unmodified _APSCALFAHL_ 0 0 0 REV__ENST00000519067.5_1_8:142220968-142221217:-|nuORF REV__ENST00000519067.5_1_8:142220968-142221217:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.2650146484375 2 515.262945 1028.51134 NaN NaN NaN NaN NaN NaN NaN 44.928 1 44.928 44.428 45.428 0 0 0 0 0.99687 1 20543 20543 4.3292 1.0479 1 + 1725 17033 1443 1445 1770 1770 -0.0017786860032629193 APSCDHEASD 10 Unmodified _APSCDHEASD_ 0 0 0 REV__nc|ENSG00000177398|Q5DID0-3|UMODL1 REV__nc|ENSG00000177398|Q5DID0-3|UMODL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.8985595703125 2 516.190371 1030.36619 NaN NaN NaN NaN NaN NaN NaN 76.285 1 76.542 76.042 77.042 0.25704 0 0 0 0.99983 1 35121 35121 1.8442 1.0506 1 + 1726 13735 1444 1446 1771 1771 -0.14778001257968754 APSCDHEASD 10 Unmodified _APSCDHEASD_ 0 0 0 REV__nc|ENSG00000177398|Q5DID0-3|UMODL1 REV__nc|ENSG00000177398|Q5DID0-3|UMODL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.4186401367188 2 516.190371 1030.36619 NaN NaN NaN NaN NaN NaN NaN 76.308 1 76.565 76.065 77.065 0.25704 0 0 0 0.99983 1 35131 35131 1.8442 1.0506 1 + 1727 13735 1444 1446 1772 1772 -0.14778001257968754 APSEQIPTVRL 11 Unmodified _APSEQIPTVRL_ 0 0 0 ENST00000411689.6_1_6:46620850-46623676:+|nuORF ENST00000411689.6_1_6:46620850-46623676:+|nuORF ENST00000411689.6_1_6:46620850-46623676:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 605.8145751953125 2 605.843145 1209.67174 NaN NaN NaN NaN NaN NaN NaN 63.426 1 63.426 62.926 63.926 0 0 0 0 0.98464 1 29841 29841 8.1555 1.9497 1 1728 7673 1445 1447 1773 1773 0.07528757597560798 APSFWYKIDPS 11 Unmodified _APSFWYKIDPS_ 0 0 0 ENST00000506241.1_1_5:55251841-55256299:-|nuORF;ENST00000503773.6_1_5:55236912-55256289:-|nuORF;nc|ENSG00000134352|P40189-3|IL6ST;ENSG00000134352|ENST00000381298|IL6ST ENST00000506241.1_1_5:55251841-55256299:-|nuORF ENST00000506241.1_1_5:55251841-55256299:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 655.7921142578125 2 655.824421 1309.63429 NaN NaN NaN NaN NaN NaN NaN 44.931 1 45.752 45.252 46.252 0.82075 0 0 0 0.97845 1 20462 20462 8.7454 2.5396 1 1729 2805 1446 1448 1774 1774 -0.008143336680632274 APSGVLVYQI 10 Unmodified _APSGVLVYQI_ 0 0 0 ENST00000479501.5_1_20:61943331-61950713:+|nuORF;ENSG00000101203|ENST00000358894|COL20A1;nc|ENSG00000101203|Q9P218-2|COL20A1;nc|ENSG00000101203|Q9P218-3|COL20A1 ENST00000479501.5_1_20:61943331-61950713:+|nuORF ENST00000479501.5_1_20:61943331-61950713:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.7974243164062 2 523.797675 1045.5808 NaN NaN NaN NaN NaN NaN NaN 85.941 1 85.941 85.441 86.441 0 0 0 0 0.96627 1 43909 43909 10.824 0 1 1730 1273 1447 1449 1775 1775 0.059829136200733046 APSKAIQNEL 10 Unmodified _APSKAIQNEL_ 0 0 0 REV__nc|ENSG00000023287|Q8TDY2-2|RB1CC1 REV__nc|ENSG00000023287|Q8TDY2-2|RB1CC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.7958374023438 2 535.795663 1069.57677 NaN NaN NaN NaN NaN NaN NaN 93.737 1 93.737 93.237 94.237 0 0 0 0 0.95729 1 50110 50110 12.241 4.0851 1 + 1731 10270 1448 1450 1776 1776 0.04476824126390966 APSKLLHIGVL 11 Unmodified _APSKLLHIGVL_ 0 0 0 REV__ENSG00000132382|ENST00000254718|MYBBP1A REV__ENSG00000132382|ENST00000254718|MYBBP1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.3662719726562 2 574.363516 1146.71248 2.3902 0.0013728 0.24134 0.00013862 2.6315 0.0015114 574.3650492348115 95.393 0.12048 95.475 95.403 95.524 0.082001 18 15 2 0 0 0 0.82535 1 50400 50400 5.7319 0 1 10587000 + 1732 11887 1449 1451 1777 1777 0.14499143707848816 APSKPNLTSEH 11 Unmodified _APSKPNLTSEH_ 0 0 0 ENSG00000175105|ENST00000636215|ZNF654 ENSG00000175105|ENST00000636215|ZNF654 ENSG00000175105|ENST00000636215|ZNF654 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.9158325195312 2 590.801477 1179.5884 NaN NaN NaN NaN NaN NaN NaN 90.567 1 90.643 90.143 91.143 0.075279 0 0 0 1.0044 1 46711 46711 4.897 1.3005 1 1733 5014 1450 1452 1778 1778 0.005790211497242126 APSLALIMPI 10 Unmodified _APSLALIMPI_ 0 0 0 ENSG00000089154|ENST00000300648|GCN1 ENSG00000089154|ENST00000300648|GCN1 ENSG00000089154|ENST00000300648|GCN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.0116577148438 2 513.306821 1024.59909 NaN NaN NaN NaN NaN NaN NaN 65.008 1 65.717 65.217 66.217 0.70891 0 0 0 0.96109 1 30671 30671 11.64 2.2929 1 1734 1034 1451 1453 1779 1779 0.0877733227043791 APSLEDWLCCE 11 Unmodified _APSLEDWLCCE_ 0 0 0 ENSG00000188305|ENST00000342063|PEAK3 ENSG00000188305|ENST00000342063|PEAK3 ENSG00000188305|ENST00000342063|PEAK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.3706665039062 2 633.262481 1264.51041 NaN NaN NaN NaN NaN NaN NaN 41.767 1 42.576 42.076 43.076 0.80855 0 0 0 1.0057 1 18958 18958 3.2813 0.28607 1 1735 5663 1452 1454 1780 1780 -0.11126495822190918 APSPLEQPL 9 Unmodified _APSPLEQPL_ 0 0 0 REV__ENST00000240727.10_1_19:58601521-58601680:-|nuORF REV__ENST00000240727.10_1_19:58601521-58601680:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 476.26275634765625 2 476.260925 950.507297 3.1097 0.001481 0.92574 0.00044089 4.0355 0.0019219 476.26149548724874 51.456 0.38919 51.456 51.247 51.637 0 34 20 2 0 0 0 0.17594 1 23550 23550 34.102 3.4659 1 717950 + 1736 14879 1453 1455 1781 1781 0.030063651776117695 APSPLEQPL 9 Unmodified _APSPLEQPL_ 0 0 0 REV__ENST00000240727.10_1_19:58601521-58601680:-|nuORF REV__ENST00000240727.10_1_19:58601521-58601680:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 476.2620544433594 2 476.260925 950.507297 2.9415 0.0014009 0.87328 0.00041591 3.8148 0.0018168 476.26149284759 50.76 0.34449 51.419 51.141 51.485 0.65956 30 17 2 0 0 0 0.10584 1 23207 23207 42.095 4.1206 1 1292500 + 1737 14879 1453 1455 1782 1782 0.030063651776117695 APSPLEQPL 9 Unmodified _APSPLEQPL_ 0 0 0 REV__ENST00000240727.10_1_19:58601521-58601680:-|nuORF REV__ENST00000240727.10_1_19:58601521-58601680:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 476.260925 950.507297 3.1097 0.001481 0.92574 0.00044089 4.0355 0.0019219 476.26149548724874 51.456 0.38919 51.456 51.247 51.637 0 -0.031838 0.00026058 NaN 42.095 34 20 2 NaN NaN NaN NaN 0 NaN NaN 0 717950 + 1738 14879 1453 1455 0.030063651776117695 APSPLEQPL 9 Unmodified _APSPLEQPL_ 0 0 0 REV__ENST00000240727.10_1_19:58601521-58601680:-|nuORF REV__ENST00000240727.10_1_19:58601521-58601680:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 476.260925 950.507297 2.7853 0.0013265 0.4241 0.00020198 3.2094 0.0015285 476.2611790189365 50.709 0.277 51.526 51.407 51.684 0.81738 0.038675 -0.00021724 NaN 42.095 33 15 3 NaN NaN NaN NaN 0 NaN NaN 0 759910 + 1739 14879 1453 1455 0.030063651776117695 APSPPLEEEGP 11 Unmodified _APSPPLEEEGP_ 0 0 0 REV__ENST00000394467.3_1_X:124461034-124461598:-|nuORF REV__ENST00000394467.3_1_X:124461034-124461598:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.766845703125 2 561.769311 1121.52407 NaN NaN NaN NaN NaN NaN NaN 105.56 1 105.61 105.11 106.11 0.050888 0 0 0 1.0038 1 57121 57121 5.7319 0.97584 1 + 1740 15969 1454 1456 1783 1783 -0.03183178727090308 APSPPRPKNP 10 Unmodified _APSPPRPKNP_ 0 0 0 REV__ENSG00000043462|ENST00000046794|LCP2 REV__ENSG00000043462|ENST00000046794|LCP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.79931640625 2 530.79854 1059.58253 NaN NaN NaN NaN NaN NaN NaN 86.814 1 86.844 86.344 87.344 0.030289 0 0 0 0.88535 1 43783 43783 20.454 6.5476 1 + 1741 10327 1455 1457 1784 1784 0.055119674287197995 APSPPRPKNP 10 Unmodified _APSPPRPKNP_ 0 0 0 REV__ENSG00000043462|ENST00000046794|LCP2 REV__ENSG00000043462|ENST00000046794|LCP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.796875 2 530.79854 1059.58253 NaN NaN NaN NaN NaN NaN NaN 88.218 1 88.27 87.77 88.77 0.052155 0 0 0 0.95221 1 44875 44875 13.042 3.6593 1 + 1742 10327 1455 1457 1785 1785 0.055119674287197995 APSQEDDCVF 10 Unmodified _APSQEDDCVF_ 0 0 0 ENST00000480825.6_1_1:36931960-36932521:-|nuORF;ENST00000487540.6_1_1:36931960-36933786:-|nuORF;ENSG00000119535|ENST00000373106|CSF3R;nc|ENSG00000119535|Q99062-3|CSF3R ENST00000480825.6_1_1:36931960-36932521:-|nuORF ENST00000480825.6_1_1:36931960-36932521:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.7252197265625 2 555.724046 1109.43354 NaN NaN NaN NaN NaN NaN NaN 87.722 1 87.722 87.222 88.222 0 0 0 0 0.99733 1 45323 45323 3.9444 0.3479 1 1743 2148 1456 1458 1786 1786 -0.11679971047033177 APSQYCSGTYH 11 Unmodified _APSQYCSGTYH_ 0 0 0 REV__ENSG00000197296|ENST00000396825|FITM2 REV__ENSG00000197296|ENST00000396825|FITM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 607.200927734375 2 607.250763 1212.48697 NaN NaN NaN NaN NaN NaN NaN 86.088 1 86.088 85.588 86.588 0 0 0 0 1.0057 1 44031 44031 3.2813 0.54611 1 + 1744 14269 1457 1459 1787 1787 -0.11077173544481411 APSRLRVPHLL 11 Unmodified _APSRLRVPHLL_ 0 0 0 ENST00000535789.1_1_11:63438917-63439196:-|nuORF ENST00000535789.1_1_11:63438917-63439196:-|nuORF ENST00000535789.1_1_11:63438917-63439196:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 629.865478515625 2 629.890764 1257.76697 NaN NaN NaN NaN NaN NaN NaN 96.942 1 97.544 97.044 98.044 0.6019 0 0 0 1.0055 1 44568 44568 3.5965 0.8613 1 1745 8765 1458 1460 1788 1788 0.148401555792816 APSRRRRDCRP 11 Unmodified _APSRRRRDCRP_ 0 0 0 ENSG00000141664|ENST00000269499|ZCCHC2 ENSG00000141664|ENST00000269499|ZCCHC2 ENSG00000141664|ENST00000269499|ZCCHC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.3678588867188 2 685.370735 1368.72692 NaN NaN NaN NaN NaN NaN NaN 43.927 1 43.927 43.427 44.427 0 0 0 0 1.0034 1 20039 20039 6.2058 0.9089 1 1746 3280 1459 1461 1789 1789 0.05730285637037014 APSVHIGQRWN 11 Unmodified _APSVHIGQRWN_ 0 0 0 ENSG00000188886|ENST00000342380|ASTL ENSG00000188886|ENST00000342380|ASTL ENSG00000188886|ENST00000342380|ASTL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 632.8331909179688 2 632.830903 1263.64725 NaN NaN NaN NaN NaN NaN NaN 45.533 1 45.533 45.033 46.033 0 0 0 0 0.92425 1 20829 20829 13.906 5.1606 1 1747 5688 1460 1462 1790 1790 0.025975422347073618 APSWPRTIL 9 Unmodified _APSWPRTIL_ 0 0 0 REV__ENST00000469963.5_1_6:31696345-31696947:-|nuORF REV__ENST00000469963.5_1_6:31696345-31696947:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.53558349609375 3 347.534431 1039.58147 2.719 0.00094496 0.88538 0.0003077 3.6044 0.0012527 347.53478620476534 47.588 1.0115 47.851 47.124 48.136 0.26363 131 51 3 0 0 0 1.1703 1 21611 21611 1.1933 0 1 5903100 + 1748 14500 1461 1463 1791 1791 0.06325753059809358 APTACRLL 8 Unmodified _APTACRLL_ 0 0 0 ENST00000215781.2_2_22:30658982-30659216:-|nuORF ENST00000215781.2_2_22:30658982-30659216:-|nuORF ENST00000215781.2_2_22:30658982-30659216:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 844.4707641601562 1 844.470935 843.463658 4.0737 0.0034402 -2.9087 -0.0024564 1.165 0.00098381 844.4680197247106 48.171 0.21594 48.433 48.289 48.505 0.26209 11 7 2 0 0 0 0.34607 1 22023 22023 32.117 1.8922 1 470560 1749 6398 1462 1464 1792 1792 0.03566477199490237 APTACRLL 8 Unmodified _APTACRLL_ 0 0 0 ENST00000215781.2_2_22:30658982-30659216:-|nuORF ENST00000215781.2_2_22:30658982-30659216:-|nuORF ENST00000215781.2_2_22:30658982-30659216:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 844.470935 843.463658 3.7529 0.0031692 -5.0477 -0.0042626 -1.2948 -0.0010934 844.4667479679533 48.281 0.33942 48.281 48.061 48.401 0 0.03345 -0.0006026 NaN 32.117 25 18 2 NaN NaN NaN NaN 0 NaN NaN 0 842700 1750 6398 1462 1464 0.03566477199490237 APTALSRRLRA 11 Unmodified _APTALSRRLRA_ 0 0 0 CELSR1|p.G614Afs*54|1|0.58|ENSG00000075275|chr22:46535330-46535330|C/-|frameshift_variant;CELSR1|p.N1011Tfs*72|1|0.23|ENSG00000075275|chr22:46534139-46534139|T/-|frameshift_variant;nc|ENSG00000075275|Q9NYQ6-2|CELSR1;nc|ENSG00000075275|Q9NYQ6|CELSR1;ENSG00000075275|ENST00000674500|CELSR1 CELSR1|p.G614Afs*54|1|0.58|ENSG00000075275|chr22:46535330-46535330|C/-|frameshift_variant CELSR1|p.G614Afs*54|1|0.58|ENSG00000075275|chr22:46535330-46535330|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 606.87353515625 2 606.370195 1210.72584 4.4513 0.0026991 -1.8653 -0.0011311 2.5859 0.001568 606.3688348160372 103.4 0.22926 103.72 103.59 103.82 0.31863 43 20 4 0 0 0 0.91068 1 47788 47788 1.3295 0 1 2279300 1751 113 1463 1465 1793 1793 0.12890394539772387 APTDIEEGM 9 Unmodified _APTDIEEGM_ 0 0 0 ENSG00000161057|ENST00000292644|PSMC2;ENST00000460021.1_1_7:102994369-103002536:+|nuORF ENSG00000161057|ENST00000292644|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 481.7117004394531 2 481.710408 961.406262 NaN NaN NaN NaN NaN NaN NaN 40.797 1 40.797 40.297 41.297 0 0 0 0 0.097886 1 18525 18525 42.095 29.563 1 1752 4092 1464 1466 1794 1794 -0.07598454587400738 APTDIEEGM 9 Unmodified _APTDIEEGM_ 0 0 0 ENSG00000161057|ENST00000292644|PSMC2;ENST00000460021.1_1_7:102994369-103002536:+|nuORF ENSG00000161057|ENST00000292644|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.71246337890625 2 481.710408 961.406262 3.2317 0.0015568 -1.0973 -0.00052856 2.1345 0.0010282 481.71018515349806 40.546 0.18611 40.815 40.677 40.863 0.26904 9 6 2 0 0 0 0.09451 1 18436 18436 34.102 22.462 1 486990 1753 4092 1464 1466 1795 1795 -0.07598454587400738 APTDIEEGM 9 Unmodified _APTDIEEGM_ 0 0 0 ENSG00000161057|ENST00000292644|PSMC2;ENST00000460021.1_1_7:102994369-103002536:+|nuORF ENSG00000161057|ENST00000292644|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.7124328613281 2 481.710408 961.406262 NaN NaN NaN NaN NaN NaN NaN 40.174 1 40.815 40.315 41.315 0.64136 0 0 0 0.72654 1 18356 18356 11.64 3.047 1 1754 4092 1464 1466 1796 1796 -0.07598454587400738 APTDTDFQI 9 Unmodified _APTDTDFQI_ 0 0 0 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.2388610839844 2 504.237647 1006.46074 2.9995 0.0015125 -0.19556 -9.8608E-05 2.8039 0.0014139 504.2375817517517 58.695 0.30959 58.695 58.514 58.824 0 35 27 2 0 0 0 0.079031 1 27068 27068 37.974 1.847 1 797360 + 1755 12335 1465 1467 1797 1797 -0.042231194443274944 APTKDEFDC 9 Unmodified _APTKDEFDC_ 0 0 0 ENSG00000185010|ENST00000360256|F8 ENSG00000185010|ENST00000360256|F8 ENSG00000185010|ENST00000360256|F8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.4302978515625 2 513.215857 1024.41716 NaN NaN NaN NaN NaN NaN NaN 78.466 1 78.93 78.43 79.43 0.4642 0 0 0 0.86044 1 38155 38155 7.2892 2.0586 1 1756 5478 1466 1468 1798 1798 -0.0940705221311191 APTLLIVVL 9 Unmodified _APTLLIVVL_ 0 0 0 nc|ENSG00000109738|P48167-2|GLRB;ENSG00000109738|ENST00000264428|GLRB nc|ENSG00000109738|P48167-2|GLRB nc|ENSG00000109738|P48167-2|GLRB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.817138671875 2 469.817879 937.621205 NaN NaN NaN NaN NaN NaN NaN 76.979 1 77.603 77.103 78.103 0.62397 0 0 0 0.89509 1 37324 37324 4.756 1.8668 1 1757 1683 1467 1469 1799 1799 0.14989880010523393 APTQETERESN 11 Unmodified _APTQETERESN_ 0 0 0 REV__ENSG00000169594|ENST00000345382|BNC1 REV__ENSG00000169594|ENST00000345382|BNC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 631.2528076171875 2 631.286388 1260.55822 NaN NaN NaN NaN NaN NaN NaN 88.178 1 88.23 87.73 88.73 0.052155 0 0 0 1.0041 1 44845 44845 5.2969 1.3525 1 + 1758 13396 1468 1470 1800 1800 -0.06163382306112908 APTRSLHL 8 Unmodified _APTRSLHL_ 0 0 0 nc|ENSG00000133619|A5PL33-2|KRBA1;nc|ENSG00000133619|A5PL33|KRBA1;ENSG00000133619|ENST00000496259|KRBA1 nc|ENSG00000133619|A5PL33-2|KRBA1 nc|ENSG00000133619|A5PL33-2|KRBA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 447.7631530761719 2 447.761426 893.5083 2.5004 0.0011196 -0.21027 -9.4153E-05 2.2901 0.0010254 447.7613676114016 13.797 0.14558 14.105 14.012 14.157 0.30727 27 15 2 0 0 0 0.49219 1 6198 6198 21.747 2.4897 1 2652800 1759 2765 1469 1471 1801 1801 0.05728624337200472 APTWIWRPPWQ 11 Unmodified _APTWIWRPPWQ_ 0 0 0 ENST00000590592.5_1_18:33935532-33952671:+|nuORF ENST00000590592.5_1_18:33935532-33952671:+|nuORF ENST00000590592.5_1_18:33935532-33952671:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 719.3764038085938 2 719.374946 1436.73534 NaN NaN NaN NaN NaN NaN NaN 77.186 1 77.747 77.247 78.247 0.56091 0 0 0 1.0071 1 37423 37423 1.4819 0.15237 1 1760 9227 1470 1472 1802 1802 0.034441628253262024 APVADSSTRV 10 Unmodified _APVADSSTRV_ 0 0 0 nc|ENSG00000204209|Q9UER7-3|DAXX;nc|ENSG00000204209|Q9UER7-2|DAXX;ENSG00000204209|ENST00000374542|DAXX nc|ENSG00000204209|Q9UER7-3|DAXX nc|ENSG00000204209|Q9UER7-3|DAXX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 502.14886474609375 2 501.764363 1001.51417 NaN NaN NaN NaN NaN NaN NaN 71.492 1 72.196 71.696 72.696 0.70386 0 0 0 0.93443 1 34338 34338 15.847 3.3156 1 1761 5991 1471 1473 1803 1803 0.013476780581868297 APVAFSKLPH 10 Unmodified _APVAFSKLPH_ 0 0 0 REV__nc|ENSG00000067141|Q92859-3|NEO1 REV__nc|ENSG00000067141|Q92859-3|NEO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.8037719726562 2 533.805834 1065.59712 NaN NaN NaN NaN NaN NaN NaN 91.779 1 91.779 91.279 92.279 0 0 0 0 0.9952 1 48587 48587 5.7319 0.97584 1 + 1762 10448 1472 1474 1804 1804 0.06694039576859723 APVEKLLIVLS 11 Unmodified _APVEKLLIVLS_ 0 0 0 REV__ENST00000390345.2_3_7:38393383-38393572:-|nuORF REV__ENST00000390345.2_3_7:38393383-38393572:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.7064819335938 2 591.378832 1180.74311 NaN NaN NaN NaN NaN NaN NaN 87.435 1 87.435 86.935 87.935 0 0 0 0 1.0057 1 45091 45091 3.2813 0 1 + 1763 15919 1473 1475 1805 1805 0.15996877302222856 APVETEPKL 9 Unmodified _APVETEPKL_ 0 0 0 ENSG00000066739|ENST00000359933|ATG2B ENSG00000066739|ENST00000359933|ATG2B ENSG00000066739|ENST00000359933|ATG2B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.27642822265625 2 492.274032 982.533512 NaN NaN NaN NaN NaN NaN NaN 32.448 1 32.703 32.203 33.203 0.25452 0 0 0 0.022529 1 14778 14778 69.105 27.265 1 1764 712 1474 1476 1806 1806 0.041546343490949766 APVETEPKL 9 Unmodified _APVETEPKL_ 0 0 0 ENSG00000066739|ENST00000359933|ATG2B ENSG00000066739|ENST00000359933|ATG2B ENSG00000066739|ENST00000359933|ATG2B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.27618408203125 2 492.274032 982.533512 NaN NaN NaN NaN NaN NaN NaN 32.582 1 32.837 32.337 33.337 0.25452 0 0 0 0.52632 1 14838 14838 18.146 3.5647 1 1765 712 1474 1476 1807 1807 0.041546343490949766 APVETEPKL 9 Unmodified _APVETEPKL_ 0 0 0 ENSG00000066739|ENST00000359933|ATG2B ENSG00000066739|ENST00000359933|ATG2B ENSG00000066739|ENST00000359933|ATG2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.275146484375 2 492.274032 982.533512 3.1803 0.0015656 0.6649 0.00032731 3.8452 0.0018929 492.27425644526096 31.809 0.32286 32.426 32.323 32.646 0.61736 26 18 2 0 0 0 0.019364 2 14574 14574;14633 69.105 27.265 1 581840 1766 712 1474 1476 1808;1809 1808 0.041546343490949766 APVETEPKL 9 Unmodified _APVETEPKL_ 0 0 0 ENSG00000066739|ENST00000359933|ATG2B ENSG00000066739|ENST00000359933|ATG2B ENSG00000066739|ENST00000359933|ATG2B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 492.274032 982.533512 3.1096 0.0015308 0.54244 0.00026703 3.652 0.0017978 492.27416005653424 32.598 0.2962 32.598 32.431 32.727 0 0.085945 -7.0995E-05 NaN 69.105 26 20 2 NaN NaN NaN NaN 0 NaN NaN 0 217360 1767 712 1474 1476 0.041546343490949766 APVHEAVVSLH 11 Unmodified _APVHEAVVSLH_ 0 0 0 THOC2|p.K1449Tfs*6|1|0.35|ENSG00000125676|chrX:123614155-123614156|-/TGGACAGTGG|frameshift_variant;ENSG00000125676|ENST00000245838|THOC2 THOC2|p.K1449Tfs*6|1|0.35|ENSG00000125676|chrX:123614155-123614156|-/TGGACAGTGG|frameshift_variant THOC2|p.K1449Tfs*6|1|0.35|ENSG00000125676|chrX:123614155-123614156|-/TGGACAGTGG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 579.8233032226562 2 579.81693 1157.61931 NaN NaN NaN NaN NaN NaN NaN 87.417 1 87.457 86.957 87.957 0.039955 0 0 0 1.0038 1 44254 44254 5.7319 0.97584 1 1768 2413 1475 1477 1810 1810 0.0468021925460107 APVKKKAAKK 10 Unmodified _APVKKKAAKK_ 0 0 0 ENSG00000187837|ENST00000343677|H1-2 ENSG00000187837|ENST00000343677|H1-2 ENSG00000187837|ENST00000343677|H1-2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 534.8551025390625 2 534.866226 1067.7179 NaN NaN NaN NaN NaN NaN NaN 89.854 1 89.919 89.419 90.419 0.064346 0 0 0 1.0001 1 46147 46147 1.6526 1.0511 1 1769 5640 1476 1478 1811 1811 0.18674867290314978 APVKRRVR 8 Unmodified _APVKRRVR_ 0 0 0 REV__ENST00000522870.5_1_16:67199659-67200172:+|nuORF REV__ENST00000522870.5_1_16:67199659-67200172:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.32373046875 2 491.32506 980.635566 NaN NaN NaN NaN NaN NaN NaN 64.329 1 64.329 63.829 64.829 0 0 0 0 0.99035 1 30453 30453 2.8892 0.58649 1 + 1770 10946 1477 1479 1812 1812 0.1444739000203299 APVLFMFS 8 Unmodified _APVLFMFS_ 0 0 0 ENST00000368590.9_3_6:116894024-116894096:+|nuORF ENST00000368590.9_3_6:116894024-116894096:+|nuORF ENST00000368590.9_3_6:116894024-116894096:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.23748779296875 2 456.238407 910.462261 NaN NaN NaN NaN NaN NaN NaN 68.597 1 68.597 68.097 69.097 0 0 0 0 0.99035 1 33042 33042 6.3541 0 1 1771 7281 1478 1480 1813 1813 0.003448431107358374 APVPRPRLKW 10 Unmodified _APVPRPRLKW_ 0 0 0 REV__ENST00000585741.1_1_19:3573729-3573972:+|nuORF REV__ENST00000585741.1_1_19:3573729-3573972:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 610.534423828125 2 610.374749 1218.73495 NaN NaN NaN NaN NaN NaN NaN 76.171 1 76.171 75.671 76.671 0 0 0 0 0.99687 1 37328 37328 4.3292 1.594 1 + 1772 16590 1479 1481 1814 1814 0.13432787896090304 APVRLGRKRPL 11 Unmodified _APVRLGRKRPL_ 0 0 0 ENSG00000172732|ENST00000308110|MUS81 ENSG00000172732|ENST00000308110|MUS81 ENSG00000172732|ENST00000308110|MUS81 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.5741882324219 3 421.610446 1261.80951 NaN NaN NaN NaN NaN NaN NaN 60.347 1 61.097 60.597 61.597 0.74927 0 0 0 1.006 1 27826 27826 2.8433 0.93691 1 1773 4887 1480 1482 1815 1815 0.1890755070751311 APVRLLLLLL 10 Unmodified _APVRLLLLLL_ 0 0 0 REV__ENST00000529734.5_1_11:46105847-46142581:-|nuORF REV__ENST00000529734.5_1_11:46105847-46142581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.8431396484375 2 560.894452 1119.77435 NaN NaN NaN NaN NaN NaN NaN 68.123 1 68.123 67.623 68.623 0 0 0 0 0.99983 1 32764 32764 1.8442 1.3859 1 + 1774 15332 1481 1483 1816 1816 0.21925495127015893 APVRLLLLLL 10 Unmodified _APVRLLLLLL_ 0 0 0 REV__ENST00000529734.5_1_11:46105847-46142581:-|nuORF REV__ENST00000529734.5_1_11:46105847-46142581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.7913208007812 2 560.894452 1119.77435 NaN NaN NaN NaN NaN NaN NaN 74.677 1 75.342 74.842 75.842 0.6644 0 0 0 0.99983 1 34382 34382 1.8442 1.3859 1 + 1775 15332 1481 1483 1817 1817 0.21925495127015893 APVRLRVLQN 10 Unmodified _APVRLRVLQN_ 0 0 0 nc|ENSG00000170959|M0R2J8|DCDC1;ENSG00000170959|ENST00000684477|DCDC1 nc|ENSG00000170959|M0R2J8|DCDC1 nc|ENSG00000170959|M0R2J8|DCDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 583.2486572265625 2 583.361839 1164.70913 NaN NaN NaN NaN NaN NaN NaN 84.383 1 84.412 83.912 84.912 0.028603 0 0 0 0.99687 1 42080 42080 4.3292 0.73274 1 1776 4780 1482 1484 1818 1818 0.13335893653857056 APVRNQHLYRR 11 Unmodified _APVRNQHLYRR_ 0 0 0 REV__nc|ENSG00000186001|Q96II8-3|LRCH3 REV__nc|ENSG00000186001|Q96II8-3|LRCH3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.6001281738281 3 470.600609 1408.78 NaN NaN NaN NaN NaN NaN NaN 75.248 1 75.912 75.412 76.412 0.6644 0 0 0 1.0071 1 34661 34661 0.50596 0 1 + 1777 14040 1483 1485 1819 1819 0.09195986691338476 APVRRATR 8 Unmodified _APVRRATR_ 0 0 0 REV__nc|ENSG00000138650|Q9P2E7-2|PCDH10 REV__nc|ENSG00000138650|Q9P2E7-2|PCDH10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 309.53704833984375 3 309.52627 925.556982 NaN NaN NaN NaN NaN NaN NaN 39.834 1 39.834 39.334 40.334 0 0 0 0 0.99035 1 18079 18079 3.5965 2.525 1 + 1778 12179 1484 1486 1820 1820 0.09122537696930522 APVRTPARPR 10 Unmodified _APVRTPARPR_ 0 0 0 REV__ENST00000530490.1_1_11:17035717-17073753:+|nuORF REV__ENST00000530490.1_1_11:17035717-17073753:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.8407592773438 2 560.838531 1119.66251 NaN NaN NaN NaN NaN NaN NaN 100.96 1 101.56 101.06 102.06 0.59717 0 0 0 0.99225 1 46743 46743 6.7232 2.3939 1 + 1779 17134 1485 1487 1821 1821 0.10746453822525837 APWCCCTCC 9 Unmodified _APWCCCTCC_ 0 0 0 ENST00000329276.9_1_20:2633298-2633542:+|nuORF ENST00000329276.9_1_20:2633298-2633542:+|nuORF ENST00000329276.9_1_20:2633298-2633542:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.1682434082031 2 495.143955 988.273356 NaN NaN NaN NaN NaN NaN NaN 72.508 1 73.172 72.672 73.672 0.66398 0 0 0 0.90511 1 33262 33262 2.3027 1.5091 1 1780 6978 1486 1488 1822 1822 -0.22124960112580538 APWDHRPPWLW 11 Unmodified _APWDHRPPWLW_ 0 0 0 ENST00000397147.6_1_22:37257112-37260979:+|nuORF ENST00000397147.6_1_22:37257112-37260979:+|nuORF ENST00000397147.6_1_22:37257112-37260979:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.5816345214844 3 487.578923 1459.71494 NaN NaN NaN NaN NaN NaN NaN 69.315 1 69.315 68.815 69.815 0 0 0 0 1.0071 1 33469 33469 0.50596 0 1 1781 7576 1487 1489 1823 1823 0.0034699216550961864 APWGWQLQLQR 11 Unmodified _APWGWQLQLQR_ 0 0 0 REV__ENSG00000205108|ENST00000378788|FAM205A REV__ENSG00000205108|ENST00000378788|FAM205A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 691.8699951171875 2 691.870028 1381.7255 NaN NaN NaN NaN NaN NaN NaN 67.843 1 68.545 68.045 69.045 0.70218 0 0 0 1.0071 1 32298 32298 1.4819 0 1 + 1782 14453 1488 1490 1824 1824 0.04990974819929761 APWLRLLSRR 10 Unmodified _APWLRLLSRR_ 0 0 0 ENST00000432329.6_1_2:208394661-208394763:+|nuORF ENST00000432329.6_1_2:208394661-208394763:+|nuORF ENST00000432329.6_1_2:208394661-208394763:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.3538818359375 2 634.390931 1266.76731 NaN NaN NaN NaN NaN NaN NaN 89.313 1 89.313 88.813 89.813 0 0 0 0 0.99687 1 46609 46609 4.3292 1.0479 1 1783 7857 1489 1491 1825 1825 0.14459575299110838 APWPWWSSLWW 11 Unmodified _APWPWWSSLWW_ 0 0 0 REV__nc|ENSG00000130810|Q9NQ55-3|PPAN REV__nc|ENSG00000130810|Q9NQ55-3|PPAN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 751.3577880859375 2 751.356222 1500.69789 NaN NaN NaN NaN NaN NaN NaN 87.263 1 87.303 86.803 87.803 0.039955 0 0 0 1.0071 1 44132 44132 1.4819 0 1 + 1784 17935 1490 1492 1826 1826 -0.03242928440295145 APWQQVLLRAW 11 Unmodified _APWQQVLLRAW_ 0 0 0 ENST00000376440.6_1_13:100038329-100038548:+|nuORF ENST00000376440.6_1_13:100038329-100038548:+|nuORF ENST00000376440.6_1_13:100038329-100038548:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.5901794433594 3 456.59094 1366.75099 NaN NaN NaN NaN NaN NaN NaN 65.707 1 65.707 65.207 66.207 0 0 0 0 1.0071 1 31318 31318 1.4551 0.24029 1 1785 7400 1491 1493 1827 1827 0.08228449342345812 APWRRISRPTQ 11 Unmodified _APWRRISRPTQ_ 0 0 0 ENST00000356865.10_1_15:25962031-25966812:-|nuORF ENST00000356865.10_1_15:25962031-25966812:-|nuORF ENST00000356865.10_1_15:25962031-25966812:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 684.6552734375 2 684.386377 1366.7582 NaN NaN NaN NaN NaN NaN NaN 85.2 1 85.2 84.7 85.7 0 0 0 0 1.0073 1 43316 43316 1.1933 0.735 1 1786 7165 1492 1494 1828 1828 0.0894918194278489 APWRRWPTGLL 11 Unmodified _APWRRWPTGLL_ 0 0 0 ENSG00000168569|ENST00000307366|TMEM223 ENSG00000168569|ENST00000307366|TMEM223 ENSG00000168569|ENST00000307366|TMEM223 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 676.438232421875 2 676.882939 1351.75132 NaN NaN NaN NaN NaN NaN NaN 12.413 1 12.675 12.175 13.175 0.26154 0 0 0 1.0041 1 5365 5365 5.2969 0.39987 1 1787 4635 1493 1495 1829 1829 0.08951869062207152 APWVELWRLQP 11 Unmodified _APWVELWRLQP_ 0 0 0 HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|261|1|anti-sense HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|261|1|anti-sense HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|261|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 697.8853149414062 2 697.882604 1393.75066 NaN NaN NaN NaN NaN NaN NaN 60.409 1 60.409 59.909 60.909 0 0 0 0 1.0038 1 28043 28043 5.7319 2.4505 1 1788 9413 1494 1496 1830 1830 0.06953029622513895 APWWRYRGVK 10 Unmodified _APWWRYRGVK_ 0 0 0 REV__nc|ENSG00000165671|Q96L73-2|NSD1 REV__nc|ENSG00000165671|Q96L73-2|NSD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 659.8600463867188 2 659.862006 1317.70946 NaN NaN NaN NaN NaN NaN NaN 45.572 1 45.572 45.072 46.072 0 0 0 0 0.99983 1 20847 20847 1.8442 0.36234 1 + 1789 13177 1495 1497 1831 1831 0.06331313373652847 APWYIKKFNK 10 Unmodified _APWYIKKFNK_ 0 0 0 REV__ENSG00000153993|ENST00000284136|SEMA3D REV__ENSG00000153993|ENST00000284136|SEMA3D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 648.2617797851562 2 647.868966 1293.72338 NaN NaN NaN NaN NaN NaN NaN 106.27 1 106.87 106.37 107.37 0.60074 0 0 0 0.99983 1 49068 49068 1.8442 0.36234 1 + 1790 12692 1496 1498 1832 1832 0.08826546082127606 APYDENWFYT 10 Unmodified _APYDENWFYT_ 0 0 0 ENSG00000105372|ENST00000598742|RPS19 ENSG00000105372|ENST00000598742|RPS19 ENSG00000105372|ENST00000598742|RPS19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 653.2756958007812 2 653.274761 1304.53497 NaN NaN NaN NaN NaN NaN NaN 65.203 1 65.203 64.703 65.703 0 0 0 0 0.99983 1 31021 31021 1.8442 0.36234 1 1791 1490 1497 1499 1833 1833 -0.10511776352814195 APYDENWFYTR 11 Unmodified _APYDENWFYTR_ 0 0 0 ENSG00000105372|ENST00000598742|RPS19 ENSG00000105372|ENST00000598742|RPS19 ENSG00000105372|ENST00000598742|RPS19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.9233703613281 3 487.88597 1460.63608 NaN NaN NaN NaN NaN NaN NaN 62 1 62 61.5 62.5 0 0 0 0 1.0071 1 29001 29001 0.50596 0 1 1792 1490 1498 1500 1834 1834 -0.07581324650118404 APYEIQQEFWS 11 Unmodified _APYEIQQEFWS_ 0 0 0 ENSG00000006432|ENST00000554752|MAP3K9;nc|ENSG00000006432|P80192-4|MAP3K9 ENSG00000006432|ENST00000554752|MAP3K9 ENSG00000006432|ENST00000554752|MAP3K9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.91845703125 3 466.550587 1396.62993 NaN NaN NaN NaN NaN NaN NaN 64.869 1 65.582 65.082 66.082 0.7135 0 0 0 1.0071 1 30581 30581 0.50596 0.051438 1 1793 346 1499 1501 1835 1835 -0.052518428816256346 APYEKEVPL 9 Unmodified _APYEKEVPL_ 0 0 0 nc|ENSG00000106366|P05121-2|SERPINE1;ENSG00000106366|ENST00000223095|SERPINE1 nc|ENSG00000106366|P05121-2|SERPINE1 nc|ENSG00000106366|P05121-2|SERPINE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.2830200195312 2 523.281857 1044.54916 NaN NaN NaN NaN NaN NaN NaN 41.06 1 41.329 40.829 41.829 0.26904 0 0 0 0.019551 1 18691 18691 74.2 15.521 1 1794 1566 1500 1502 1836 1836 0.028669208661540324 APYEKEVPL 9 Unmodified _APYEKEVPL_ 0 0 0 nc|ENSG00000106366|P05121-2|SERPINE1;ENSG00000106366|ENST00000223095|SERPINE1 nc|ENSG00000106366|P05121-2|SERPINE1 nc|ENSG00000106366|P05121-2|SERPINE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.2838134765625 2 523.281857 1044.54916 NaN NaN NaN NaN NaN NaN NaN 41.153 1 41.422 40.922 41.922 0.26904 0 0 0 0.026708 1 18738 18738 61.602 17.744 1 1795 1566 1500 1502 1837 1837 0.028669208661540324 APYEKEVPL 9 Unmodified _APYEKEVPL_ 0 0 0 nc|ENSG00000106366|P05121-2|SERPINE1;ENSG00000106366|ENST00000223095|SERPINE1 nc|ENSG00000106366|P05121-2|SERPINE1 nc|ENSG00000106366|P05121-2|SERPINE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.2835083007812 2 523.281857 1044.54916 3.5542 0.0018598 0.066033 3.4554E-05 3.6202 0.0018944 523.2818857247748 40.496 0.26024 41.137 41.008 41.268 0.64136 55 25 3 0 0 0 0.018453 3 18488 18488;18534;18561 70.332 31.655 1 2944500 1796 1566 1500 1502 1838;1839;1840 1838 0.028669208661540324 APYEKEVPL 9 Unmodified _APYEKEVPL_ 0 0 0 nc|ENSG00000106366|P05121-2|SERPINE1;ENSG00000106366|ENST00000223095|SERPINE1 nc|ENSG00000106366|P05121-2|SERPINE1 nc|ENSG00000106366|P05121-2|SERPINE1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 523.281857 1044.54916 3.3025 0.0017281 1.0485 0.00054868 4.351 0.0022768 523.2824926341073 40.437 0.18274 41.237 41.142 41.325 0.80014 0.049976 0.00076102 NaN 70.332 19 11 2 NaN NaN NaN NaN 0 NaN NaN 0 719920 1797 1566 1500 1502 0.028669208661540324 APYERRAM 8 Unmodified _APYERRAM_ 0 0 0 ENSG00000130255|ENST00000347512|RPL36 ENSG00000130255|ENST00000347512|RPL36 ENSG00000130255|ENST00000347512|RPL36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.8367004394531 3 331.836005 992.486184 2.4066 0.00079859 -0.68414 -0.00022702 1.7224 0.00057157 331.83587525592634 12.648 0.099775 12.648 12.617 12.716 0 8 6 2 0 0 0 0.62895 1 5530 5530 8.7454 2.5536 1 1349200 1798 2581 1501 1503 1841 1841 -0.010359234028896935 APYERRAM 8 Unmodified _APYERRAM_ 0 0 0 ENSG00000130255|ENST00000347512|RPL36 ENSG00000130255|ENST00000347512|RPL36 ENSG00000130255|ENST00000347512|RPL36 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 331.836005 992.486184 1.637 0.00054322 0.15945 5.2912E-05 1.7965 0.00059614 331.836126402307 12.473 0.060402 12.78 12.733 12.794 0.30727 0.066016 0.00047283 NaN 8.7454 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 5100300 1799 2581 1501 1503 -0.010359234028896935 APYFYNDTV 9 Unmodified _APYFYNDTV_ 0 0 0 nc|ENSG00000117322|P20023-2|CR2;nc|ENSG00000117322|P20023|CR2;nc|ENSG00000117322|P20023-4|CR2;ENSG00000117322|ENST00000367057|CR2 nc|ENSG00000117322|P20023-2|CR2 nc|ENSG00000117322|P20023-2|CR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.2498779296875 2 545.248015 1088.48148 NaN NaN NaN NaN NaN NaN NaN 13.033 1 13.676 13.176 14.176 0.64272 0 0 0 0.8984 1 5849 5849 3.9444 0.3479 1 1800 2068 1502 1504 1842 1842 -0.05922529064673654 APYICCECGKS 11 Unmodified _APYICCECGKS_ 0 0 0 nc|ENSG00000164011|Q5VV52-3|ZNF691;ENSG00000164011|ENST00000651192|ZNF691 nc|ENSG00000164011|Q5VV52-3|ZNF691 nc|ENSG00000164011|Q5VV52-3|ZNF691 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.5712890625 2 587.240495 1172.46644 NaN NaN NaN NaN NaN NaN NaN 87.708 1 87.708 87.208 88.208 0 0 0 0 1.0038 1 45311 45311 5.7319 1.4026 1 1801 4272 1503 1505 1843 1843 -0.11289803520162423 APYIPMDGEDF 11 Unmodified _APYIPMDGEDF_ 0 0 0 ENSG00000116016|ENST00000263734|EPAS1;ENST00000466465.5_1_2:46607308-46611796:+|nuORF ENSG00000116016|ENST00000263734|EPAS1 ENSG00000116016|ENST00000263734|EPAS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 418.8493957519531 3 418.849757 1253.52744 NaN NaN NaN NaN NaN NaN NaN 64.14 1 64.14 63.64 64.64 0 0 0 0 1.0055 1 30321 30321 1.4551 0 1 1802 2007 1504 1506 1844 1844 -0.08918251944714939 APYLGLLALP 10 Unmodified _APYLGLLALP_ 0 0 0 REV__ENSG00000224940|ENST00000446477|PRRT4 REV__ENSG00000224940|ENST00000446477|PRRT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.4291381835938 2 514.312961 1026.61137 NaN NaN NaN NaN NaN NaN NaN 73.803 1 74.062 73.562 74.562 0.25876 0 0 0 0.98473 1 33908 33908 7.9102 2.1783 1 + 1803 14551 1505 1507 1845 1845 0.0991269200512761 APYLISLKLK 10 Unmodified _APYLISLKLK_ 0 0 0 REV__ENSG00000117592|ENST00000340385|PRDX6 REV__ENSG00000117592|ENST00000340385|PRDX6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 573.04052734375 2 573.368267 1144.72198 NaN NaN NaN NaN NaN NaN NaN 69.475 1 69.475 68.975 69.975 0 0 0 0 0.99733 1 33550 33550 3.9444 0.66309 1 + 1804 11447 1506 1508 1846 1846 0.15540911993343798 APYMRSMM 8 Unmodified _APYMRSMM_ 0 0 0 ENSG00000188021|ENST00000338222|UBQLN2;ENST00000533705.5_1_9:86284090-86294929:-|nuORF;nc|ENSG00000135018|Q9UMX0-3|UBQLN1;UBQLN4|p.A529Lfs*12|1|0.28|ENSG00000160803|chr1:156041553-156041553|C/-|frameshift_variant;nc|ENSG00000135018|Q9UMX0-2|UBQLN1;ENSG00000135018|ENST00000376395|UBQLN1;ENSG00000160803|ENST00000368309|UBQLN4 ENSG00000188021|ENST00000338222|UBQLN2 ENSG00000188021|ENST00000338222|UBQLN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.7181396484375 2 493.716459 985.418364 3.024 0.001493 -0.19864 -9.8071E-05 2.8254 0.001395 493.7163732907058 38.712 0.23603 38.976 38.879 39.115 0.26408 15 9 2 0 0 0 0.47805 1 17642 17642 22.736 6.8891 1 599890 1805 5647 1507 1509 1847 1847 -0.07492832649541015 APYMRSMM 8 Unmodified _APYMRSMM_ 0 0 0 ENSG00000188021|ENST00000338222|UBQLN2;ENST00000533705.5_1_9:86284090-86294929:-|nuORF;nc|ENSG00000135018|Q9UMX0-3|UBQLN1;UBQLN4|p.A529Lfs*12|1|0.28|ENSG00000160803|chr1:156041553-156041553|C/-|frameshift_variant;nc|ENSG00000135018|Q9UMX0-2|UBQLN1;ENSG00000135018|ENST00000376395|UBQLN1;ENSG00000160803|ENST00000368309|UBQLN4 ENSG00000188021|ENST00000338222|UBQLN2 ENSG00000188021|ENST00000338222|UBQLN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.718017578125 2 493.716459 985.418364 3.0742 0.0015178 -0.96979 -0.0004788 2.1045 0.001039 493.71618573291596 38.281 0.36921 38.915 38.703 39.072 0.63388 34 16 3 0 0 0 0.52777 1 17529 17529 19.257 5.3509 1 358220 1806 5647 1507 1509 1848 1848 -0.07492832649541015 APYQWCRVRLL 11 Unmodified _APYQWCRVRLL_ 0 0 0 REV__ENST00000429515.1_1_2:139036197-139036410:+|nuORF REV__ENST00000429515.1_1_2:139036197-139036410:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 702.8834838867188 2 702.882081 1403.74961 NaN NaN NaN NaN NaN NaN NaN 65.091 1 65.8 65.3 66.3 0.70891 0 0 0 1.0071 1 30728 30728 1.4819 0 1 + 1807 16242 1508 1510 1849 1849 0.06388491981965672 APYRLKLRVKF 11 Unmodified _APYRLKLRVKF_ 0 0 0 ENSG00000007944|ENST00000356840|MYLIP ENSG00000007944|ENST00000356840|MYLIP ENSG00000007944|ENST00000356840|MYLIP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 696.3489379882812 2 695.937714 1389.86087 NaN NaN NaN NaN NaN NaN NaN 97.922 1 98.521 98.021 99.021 0.59885 0 0 0 1.0071 1 45075 45075 1.4819 0 1 1808 369 1509 1511 1850 1850 0.1815387468152494 AQAFALDKQE 10 Unmodified _AQAFALDKQE_ 0 0 0 REV__nc|ENSG00000116580|Q3T8J9-3|GON4L REV__nc|ENSG00000116580|Q3T8J9-3|GON4L MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.9750366210938 2 560.785296 1119.55604 3.2835 0.0018413 3.3763 0.0018934 6.6597 0.0037347 560.7876134126569 45.278 0.20179 46.104 45.968 46.17 0.82621 27 13 3 0 0 0 0.10762 1 20562 20562 16.149 6.0752 1 778640 + 1809 11407 1510 1512 1851 1851 0.0010423374669699115 AQINKSLLKI 10 Unmodified _AQINKSLLKI_ 0 0 0 ENST00000471383.5_1_2:202131194-202137540:+|nuORF;nc|ENSG00000064012|Q14790-6|CASP8;nc|ENSG00000064012|Q14790-5|CASP8;nc|ENSG00000064012|Q14790-8|CASP8;nc|ENSG00000064012|Q14790-7|CASP8;ENST00000339403.6_1_2:202123080-202141717:+|nuORF;nc|ENSG00000064012|Q14790-3|CASP8;nc|ENSG00000064012|Q14790-2|CASP8;ENSG00000064012|ENST00000673742|CASP8;nc|ENSG00000064012|Q14790-4|CASP8;nc|ENSG00000064012|Q14790-9|CASP8 ENST00000471383.5_1_2:202131194-202137540:+|nuORF ENST00000471383.5_1_2:202131194-202137540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.5772399902344 3 376.576408 1126.70739 2.138 0.00080513 0.09909 3.7315E-05 2.2371 0.00084244 376.576443203934 13.201 0.16929 13.444 13.373 13.542 0.24346 17 11 2 0 0 0 0.85706 1 5749 5749 5.4027 0.5057 1 163050 1810 664 1511 1513 1852 1852 0.14910839845242663 AQKRTYKLR 9 Unmodified _AQKRTYKLR_ 0 0 0 nc|ENSG00000149930|Q9UL54-3|TAOK2;nc|ENSG00000149930|Q9UL54-4|TAOK2;ENSG00000149930|ENST00000308893|TAOK2;nc|ENSG00000149930|Q9UL54-2|TAOK2 nc|ENSG00000149930|Q9UL54-3|TAOK2 nc|ENSG00000149930|Q9UL54-3|TAOK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.1912231445312 2 582.354014 1162.69348 NaN NaN NaN NaN NaN NaN NaN 7.5536 1 7.8795 7.3795 8.3795 0.32587 0 0 0 0.91342 1 3396 3396 0 0 1 1811 3662 1512 1514 1853 1853 0.1186360713677459 AQPCHLGPPPL 11 Unmodified _AQPCHLGPPPL_ 0 0 0 ENST00000564098.5_1_16:1794388-1794685:+|nuORF ENST00000564098.5_1_16:1794388-1794685:+|nuORF ENST00000564098.5_1_16:1794388-1794685:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 377.53411865234375 3 377.198943 1128.575 2.2245 0.00083909 0.17262 6.5113E-05 2.3972 0.0009042 377.1989600950003 34.132 0.27466 34.921 34.816 35.091 0.78921 21 15 2 0 0 0 0.83518 1 15463 15463 2.4348 0 1 387590 1812 9025 1513 1515 1854 1854 0.015854918367494975 AQRFQRLRRFM 11 Unmodified _AQRFQRLRRFM_ 0 0 0 REV__nc|ENSG00000130653|Q6ZV29-3|PNPLA7 REV__nc|ENSG00000130653|Q6ZV29-3|PNPLA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.61773681640625 3 503.617494 1507.83065 NaN NaN NaN NaN NaN NaN NaN 35.626 1 36.417 35.917 36.917 0.79131 0 0 0 1.008 1 16147 16147 0.08335 0 1 + 1813 11826 1514 1516 1855 1855 0.09705192744672786 AQRFQRLRRFM 11 Unmodified _AQRFQRLRRFM_ 0 0 0 REV__nc|ENSG00000130653|Q6ZV29-3|PNPLA7 REV__nc|ENSG00000130653|Q6ZV29-3|PNPLA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.6169128417969 3 503.617494 1507.83065 NaN NaN NaN NaN NaN NaN NaN 37.74 1 38.536 38.036 39.036 0.79552 0 0 0 1.008 1 17099 17099 0.08335 0 1 + 1814 11826 1514 1516 1856 1856 0.09705192744672786 AQRHLYHS 8 Unmodified _AQRHLYHS_ 0 0 0 ENSG00000131849|ENST00000254166|ZNF132 ENSG00000131849|ENST00000254166|ZNF132 ENSG00000131849|ENST00000254166|ZNF132 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.2621154785156 2 506.259582 1010.50461 NaN NaN NaN NaN NaN NaN NaN 28.107 1 28.107 27.607 28.607 0 0 0 0 0.99035 1 12668 12668 2.5775 0 1 1815 2675 1515 1517 1857 1857 -0.0002204543668540282 AQRLLRGAQRR 11 Unmodified _AQRLLRGAQRR_ 0 0 0 ENST00000542466.2_1_12:58120098-58120972:+|nuORF ENST00000542466.2_1_12:58120098-58120972:+|nuORF ENST00000542466.2_1_12:58120098-58120972:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.7076416015625 4 331.956272 1323.79598 2.0903 0.00069388 3.1092 0.0010321 5.1994 0.001726 331.9570603389316 53.586 0.084579 54.39 54.312 54.396 0.80351 11 7 2 0 0 0 0.13295 1 24442 24442 2.4348 0.69251 1 3606100 1816 8816 1516 1518 1858 1858 0.147036929282649 AQRRFAHRRR 10 Unmodified _AQRRFAHRRR_ 0 0 0 REV__nc|ENSG00000022567|Q5BKX6-3|SLC45A4 REV__nc|ENSG00000022567|Q5BKX6-3|SLC45A4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.4007568359375 2 677.395402 1352.77625 4.5522 0.0030836 -0.20487 -0.00013878 4.3473 0.0029448 677.8963105564338 96.034 0.56177 96.301 96.097 96.659 0.26751 64 29 3 0 0 0 0.93584 1 44173 44173 3.5965 2.4032 1 1311400 + 1817 17854 1517 1519 1859 1859 0.11397361708122844 AQWRRRMRKRG 11 Unmodified _AQWRRRMRKRG_ 0 0 0 ENST00000392813.8_1_3:158519897-158520086:+|nuORF ENST00000392813.8_1_3:158519897-158520086:+|nuORF ENST00000392813.8_1_3:158519897-158520086:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.9892883300781 3 500.956622 1499.84804 NaN NaN NaN NaN NaN NaN NaN 66.023 1 66.728 66.228 67.228 0.7047 0 0 0 1.0079 1 31269 31269 0.50596 0.09769 1 1818 7522 1518 1520 1860 1860 0.11810533070342899 AQYEDIAQK 9 Unmodified _AQYEDIAQK_ 0 0 0 ENSG00000167768|ENST00000252244|KRT1 ENSG00000167768|ENST00000252244|KRT1 ENSG00000167768|ENST00000252244|KRT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.2662353515625 2 533.264196 1064.51384 3.1832 0.0016975 0.67045 0.00035753 3.8536 0.002055 533.2644251291705 20.457 0.30387 20.457 20.292 20.596 0 49 27 2 0 0 0 0.057945 1 9151 9151 43.772 3.8227 1 543910 + 1819 4579 1519 1521 1861 1861 -0.015837416616705013 AQYEDIAQK 9 Unmodified _AQYEDIAQK_ 0 0 0 ENSG00000167768|ENST00000252244|KRT1 ENSG00000167768|ENST00000252244|KRT1 ENSG00000167768|ENST00000252244|KRT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 533.264196 1064.51384 3.4072 0.0018169 0.40477 0.00021585 3.8119 0.0020328 533.2643098817769 19.601 0.20621 20.259 20.153 20.36 0.6583 -0.098919 -0.0001995 NaN 43.772 25 15 2 NaN NaN NaN NaN 0 NaN NaN 0 253030 + 1820 4579 1519 1521 -0.015837416616705013 AQYEDIAQKS 10 Unmodified _AQYEDIAQKS_ 0 0 0 ENSG00000167768|ENST00000252244|KRT1 ENSG00000167768|ENST00000252244|KRT1 ENSG00000167768|ENST00000252244|KRT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 576.782470703125 2 576.78021 1151.54587 3.7627 0.0021703 0.55868 0.00032223 4.3214 0.0024925 576.7803562126469 21.546 0.23924 21.546 21.431 21.67 0 66 26 3 0 0 0 0.019146 3 9662 9614;9620;9662 79.427 23.924 1 747220 + 1821 4579 1520 1522 1862;1863;1864 1864 -0.023843739785206708 ARAEIFRTTLT 11 Unmodified _ARAEIFRTTLT_ 0 0 0 REV__ENSG00000011376|ENST00000645846|LARS2 REV__ENSG00000011376|ENST00000645846|LARS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 639.859375 2 639.861869 1277.70918 NaN NaN NaN NaN NaN NaN NaN 51.127 1 51.944 51.444 52.444 0.81738 0 0 0 0.83565 1 23289 23289 20.415 1.1575 1 + 1822 10236 1521 1523 1865 1865 0.08143848863187486 ARHGSIRSPL 10 Unmodified _ARHGSIRSPL_ 0 0 0 nc|ENSG00000105364|Q9BYD3-2|MRPL4;ENSG00000105364|ENST00000253099|MRPL4 nc|ENSG00000105364|Q9BYD3-2|MRPL4 nc|ENSG00000105364|Q9BYD3-2|MRPL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.21307373046875 3 365.212351 1092.61522 NaN NaN NaN NaN NaN NaN NaN 48.071 1 48.333 47.833 48.833 0.26209 0 0 0 0.99846 1 21973 21973 1.4551 0 1 1823 1488 1522 1524 1866 1866 0.07262174551533462 ARHLFILLL 9 Unmodified _ARHLFILLL_ 0 0 0 REV__ENSG00000183479|ENST00000370231|TREX2 REV__ENSG00000183479|ENST00000370231|TREX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.90692138671875 3 365.906088 1094.69644 2.4186 0.00088497 0.50459 0.00018463 2.9232 0.0010696 365.90629703463094 76.078 0.21391 76.335 76.209 76.422 0.25705 27 15 2 0 0 0 1.0755 1 35019 35019 2.7352 0.45242 1 427960 + 1824 13935 1523 1525 1867 1867 0.15287482261601326 ARHLFILLL 9 Unmodified _ARHLFILLL_ 0 0 0 REV__ENSG00000183479|ENST00000370231|TREX2 REV__ENSG00000183479|ENST00000370231|TREX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.24176025390625 3 365.906088 1094.69644 2.1768 0.0007965 0.85695 0.00031356 3.0337 0.0011101 365.9065154490852 75.505 0.4146 76.169 75.894 76.309 0.6644 66 35 2 0 0 0 0.92418 1 34822 34822 5.2969 1.7004 1 514850 + 1825 13935 1523 1525 1868 1868 0.15287482261601326 ARHLFILLL 9 Unmodified _ARHLFILLL_ 0 0 0 REV__ENSG00000183479|ENST00000370231|TREX2 REV__ENSG00000183479|ENST00000370231|TREX2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 365.906088 1094.69644 1.8619 0.00068128 1.1159 0.00040832 2.9778 0.0010896 365.90653237582126 75.895 0.21216 76.558 76.464 76.677 0.66349 0.20403 0.00026456 NaN 5.2969 34 17 3 NaN NaN NaN NaN 0 NaN NaN 0 852360 + 1826 13935 1523 1525 0.15287482261601326 ARHLFILLL 9 Unmodified _ARHLFILLL_ 0 0 0 REV__ENSG00000183479|ENST00000370231|TREX2 REV__ENSG00000183479|ENST00000370231|TREX2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 365.906088 1094.69644 2.1768 0.0007965 0.85695 0.00031356 3.0337 0.0011101 365.9065154490852 75.505 0.4146 76.169 75.894 76.309 0.6644 -0.18496 -1.9723E-05 NaN 5.2969 66 35 2 NaN NaN NaN NaN 0 NaN NaN 0 514850 + 1827 13935 1523 1525 0.15287482261601326 ARHRLKWFWWI 11 Unmodified _ARHRLKWFWWI_ 0 0 0 REV__ENST00000460045.1_1_7:128034815-128035199:-|nuORF REV__ENST00000460045.1_1_7:128034815-128035199:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 799.8204956054688 2 799.946405 1597.87826 NaN NaN NaN NaN NaN NaN NaN 82.957 1 83.002 82.502 83.502 0.045006 0 0 0 1.0082 1 41050 41050 0 0 1 + 1828 16475 1524 1526 1869 1869 0.10323215007224462 ARHWNLSL 8 Unmodified _ARHWNLSL_ 0 0 0 REV__nc|ENSG00000111341|P08493-2|MGP REV__nc|ENSG00000111341|P08493-2|MGP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.7738037109375 2 498.772326 995.530098 2.4222 0.0012081 -1.4785 -0.00073743 0.9437 0.00047069 498.7716385787336 65.547 0.39424 66.256 66.153 66.548 0.7089 55 42 2 0 0 0 0.18676 1 31108 31108 44.407 4.4497 1 1164800 + 1829 17894 1525 1527 1870 1870 0.03215429085753385 ARIRLLRRLLL 11 Unmodified _ARIRLLRRLLL_ 0 0 0 REV__ENST00000526508.5_1_11:46694742-46694910:+|nuORF REV__ENST00000526508.5_1_11:46694742-46694910:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 696.888671875 2 696.98553 1391.95651 NaN NaN NaN NaN NaN NaN NaN 87.654 1 87.694 87.194 88.194 0.039955 0 0 0 1.0082 1 44438 44438 0 0 1 + 1830 17092 1526 1528 1871 1871 0.2762064759247096 ARKIGFHV 8 Unmodified _ARKIGFHV_ 0 0 0 ENSG00000123610|ENST00000243347|TNFAIP6 ENSG00000123610|ENST00000243347|TNFAIP6 ENSG00000123610|ENST00000243347|TNFAIP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.28125 2 464.279786 926.54502 NaN NaN NaN NaN NaN NaN NaN 55.62 1 55.885 55.385 56.385 0.26543 0 0 0 0.99035 1 25435 25435 5.7604 0.52976 1 1831 2323 1527 1529 1872 1872 0.07880920953743953 ARKKKKKKKKN 11 Unmodified _ARKKKKKKKKN_ 0 0 0 ENST00000567998.5_1_16:28621482-28621938:-|nuORF ENST00000567998.5_1_16:28621482-28621938:-|nuORF ENST00000567998.5_1_16:28621482-28621938:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 692.946044921875 2 692.982987 1383.95142 NaN NaN NaN NaN NaN NaN NaN 76.135 1 76.758 76.258 77.258 0.62397 0 0 0 1.0082 1 36886 36886 0 0 1 1832 9063 1528 1530 1873 1873 0.2748034372982602 ARKKKKSA 8 Unmodified _ARKKKKSA_ 0 0 0 REV__nc|ENSG00000149091|Q13574-1|DGKZ REV__nc|ENSG00000149091|Q13574-1|DGKZ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 306.1991271972656 3 306.206538 915.597784 NaN NaN NaN NaN NaN NaN NaN 37.662 1 37.662 37.162 38.162 0 0 0 0 0.99035 1 17092 17092 0.45834 0 1 + 1833 17978 1529 1531 1874 1874 0.13660879016561012 ARKVKLRKV 9 Unmodified _ARKVKLRKV_ 0 0 0 REV__ENSG00000275793|ENST00000619918|RIMBP3 REV__ENSG00000275793|ENST00000619918|RIMBP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.3861694335938 2 549.385117 1096.75568 NaN NaN NaN NaN NaN NaN NaN 84.904 1 84.904 84.404 85.404 0 0 0 0 0.84134 1 43099 43099 7.9102 5.8504 1 + 1834 13923 1530 1532 1875 1875 0.21117378275789633 ARLGINMREP 10 Unmodified _ARLGINMREP_ 0 0 0 REV__ENSG00000073910|ENST00000542859|FRY REV__ENSG00000073910|ENST00000542859|FRY MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 385.88140869140625 3 386.213364 1155.61826 NaN NaN NaN NaN NaN NaN NaN 20.905 1 21.192 20.692 21.692 0.28662 0 0 0 0.92641 1 9483 9483 10.899 2.1472 1 + 1835 10509 1531 1533 1876 1876 0.0466768161404616 ARLILLFIH 9 Unmodified _ARLILLFIH_ 0 0 0 REV__ENSG00000154767|ENST00000285021|XPC REV__ENSG00000154767|ENST00000285021|XPC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.9073791503906 3 365.906088 1094.69644 2.4512 0.00089691 0.87301 0.00031944 3.3242 0.0012164 365.9064499727945 76.522 0.20837 76.777 76.663 76.872 0.25533 30 16 2 0 0 0 0.92418 1 35230 35230 5.2969 4.2254 1 922140 + 1836 12721 1532 1534 1877 1877 0.15287482261601326 ARLILLFIH 9 Unmodified _ARLILLFIH_ 0 0 0 REV__ENSG00000154767|ENST00000285021|XPC REV__ENSG00000154767|ENST00000285021|XPC MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 365.906088 1094.69644 2.4512 0.00089691 0.87301 0.00031944 3.3242 0.0012164 365.9064499727945 76.522 0.20837 76.777 76.663 76.872 0.25533 -0.019328 -0.00025901 NaN 5.2969 30 16 2 NaN NaN NaN NaN 0 NaN NaN 0 922140 + 1837 12721 1532 1534 0.15287482261601326 ARLILLFIH 9 Unmodified _ARLILLFIH_ 0 0 0 REV__ENSG00000154767|ENST00000285021|XPC REV__ENSG00000154767|ENST00000285021|XPC MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 365.906088 1094.69644 2.2157 0.00081076 1.4839 0.00054296 3.6996 0.0013537 365.90664956757496 75.964 0.28826 76.627 76.49 76.778 0.66387 -0.16888 0.00041156 NaN 5.2969 53 24 3 NaN NaN NaN NaN 0 NaN NaN 0 957120 + 1838 12721 1532 1534 0.15287482261601326 ARLLMGPPRLR 11 Unmodified _ARLLMGPPRLR_ 0 0 0 REV__PRTG|p.N363Mfs*19|1|0.3|ENSG00000166450|chr15:55679331-55679331|T/-|frameshift_variant REV__PRTG|p.N363Mfs*19|1|0.3|ENSG00000166450|chr15:55679331-55679331|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 320.7005920410156 4 320.699946 1278.77068 2.0654 0.00066238 0.39083 0.00012534 2.4563 0.00078772 320.7000518036142 52.746 1.0254 53.549 53.162 54.187 0.8035 272 78 5 0 0 0 0.88721 1 24050 24050 1.2148 1.2148 1 79905000 + 1839 13241 1533 1535 1878 1878 0.14244502081464816 ARLMRPVRAVP 11 Unmodified _ARLMRPVRAVP_ 0 0 0 ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.59326171875 3 422.592286 1264.75503 2.5824 0.0010913 0.79559 0.00033621 3.378 0.0014275 422.59252016171985 47.396 0.32581 47.396 47.27 47.595 0 65 17 4 0 0 0 0.88721 1 21682 21682 1.2148 1.2148 1 4828000 1840 6378 1534 1536 1879 1879 0.13324215564421138 ARLMRPVRAVP 11 Unmodified _ARLMRPVRAVP_ 0 0 0 ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.5936279296875 3 422.592286 1264.75503 2.9952 0.0012658 0.66257 0.00028 3.6578 0.0015458 422.5924747282154 53.102 0.9758 53.102 52.629 53.605 0 185 64 4 0 0 0 0.84422 3 24324 24276;24324;24471 2.2527 1.0379 1 3803400 1841 6378 1534 1536 1880;1881;1882 1881 0.13324215564421138 ARLMRPVRAVP 11 Unmodified _ARLMRPVRAVP_ 0 0 0 ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.92803955078125 3 422.592286 1264.75503 2.8737 0.0012144 0.74685 0.00031561 3.6205 0.00153 422.5926952162176 57.65 0.27084 57.65 57.493 57.764 0 41 31 2 0 0 0 0.89309 1 26582 26582 1.1098 0 1 1566800 1842 6378 1534 1536 1883 1883 0.13324215564421138 ARLMRPVRAVP 11 Unmodified _ARLMRPVRAVP_ 0 0 0 ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 317.1968994140625 4 317.196034 1264.75503 2.1929 0.00069559 0.67402 0.0002138 2.867 0.00090939 317.1961990158578 46.383 0.33234 47.213 47.042 47.374 0.82915 62 19 4 0 0 0 0.88721 2 21088 21088;21187 1.2148 0 1 10060000 1843 6378 1534 1536 1884;1885 1884 0.13324215564421138 ARLMRPVRAVP 11 Unmodified _ARLMRPVRAVP_ 0 0 0 ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.5932312011719 3 422.592286 1264.75503 2.6529 0.0011211 0.78882 0.00033335 3.4418 0.0014545 422.592304645361 46.375 0.28788 47.205 47.042 47.33 0.82915 51 15 4 0 0 0 0.83518 1 21090 21090 2.4348 1.22 1 2707000 1844 6378 1534 1536 1886 1886 0.13324215564421138 ARLMRPVRAVP 11 Unmodified _ARLMRPVRAVP_ 0 0 0 ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.59375 3 422.592286 1264.75503 2.2623 0.00095604 0.83559 0.00035311 3.0979 0.0013091 422.59253356023953 52.044 0.62896 52.854 52.418 53.047 0.81065 85 42 4 0 0 0 0.83518 3 23713 23619;23672;23713 2.4348 1.22 1 2687300 1845 6378 1534 1536 1887;1888;1889 1889 0.13324215564421138 ARLMRPVRAVP 11 Unmodified _ARLMRPVRAVP_ 0 0 0 ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5936584472656 3 422.592286 1264.75503 2.9623 0.0012518 0.83244 0.00035178 3.7947 0.0016036 422.5925499846885 46.119 0.54383 46.385 46.024 46.568 0.26561 79 23 4 0 0 0 0.88721 1 21050 21050 1.2148 1.2148 1 5836400 1846 6378 1534 1536 1890 1890 0.13324215564421138 ARLMRPVRAVP 11 Unmodified _ARLMRPVRAVP_ 0 0 0 ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5935974121094 3 422.592286 1264.75503 2.9664 0.0012536 0.7586 0.00032058 3.725 0.0015741 422.59249248382577 52.489 0.92139 52.752 52.387 53.309 0.26345 141 48 5 0 0 0 0.83518 3 24015 23960;24015;24112 2.4348 1.22 1 6552800 1847 6378 1534 1536 1891;1892;1893 1892 0.13324215564421138 ARLMRPVRAVP 11 Unmodified _ARLMRPVRAVP_ 0 0 0 ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.5937805175781 3 422.592286 1264.75503 3.283 0.0013874 0.58611 0.00024769 3.8691 0.001635 422.5923992642799 45.569 1.1841 46.22 45.721 46.905 0.65104 158 44 5 0 0 0 0.88721 2 21034 21034;21148 1.2148 1.2148 1 4626900 1848 6378 1534 1536 1894;1895 1894 0.13324215564421138 ARLMRPVRAVP 11 Unmodified _ARLMRPVRAVP_ 0 0 0 ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 317.19720458984375 4 317.196034 1264.75503 2.3321 0.00073973 0.87169 0.0002765 3.2038 0.0010162 317.19626167726824 46.446 0.59716 47.098 46.906 47.503 0.65219 70 22 5 0 0 0 0.91068 2 21199 21199;21246 0.45452 0 1 10320000 1849 6378 1534 1536 1896;1897 1896 0.13324215564421138 ARLMRPVRAVP 11 Unmodified _ARLMRPVRAVP_ 0 0 0 ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.59381103515625 3 422.592286 1264.75503 2.8316 0.0011966 0.71782 0.00030335 3.5494 0.0015 422.9269987116416 52.419 0.88298 53.081 52.501 53.384 0.66198 78 44 3 0 0 0 0.83518 2 23850 23796;23850 2.6312 2.1767 1 2844000 1850 6378 1534 1536 1898;1899 1899 0.13324215564421138 ARLMRPVRAVP 11 Unmodified _ARLMRPVRAVP_ 0 0 0 ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.92742919921875 3 422.592286 1264.75503 2.978 0.0012585 1.3422 0.00056718 4.3202 0.0018257 422.59261824579823 60.962 0.40413 61.625 61.398 61.803 0.66261 41 17 3 0 0 0 0.88721 1 27886 27886 1.2148 0 1 950360 1851 6378 1534 1536 1900 1900 0.13324215564421138 ARLMRPVRAVP 11 Unmodified _ARLMRPVRAVP_ 0 0 0 ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 422.592286 1264.75503 2.5824 0.0010913 0.79559 0.00033621 3.378 0.0014275 422.59252016171985 47.396 0.32581 47.396 47.27 47.595 0 0.15707 0.00015884 NaN 2.4348 65 17 4 NaN NaN NaN NaN 0 NaN NaN 0 4828000 1852 6378 1534 1536 0.13324215564421138 ARLMRPVRAVP 11 Unmodified _ARLMRPVRAVP_ 0 0 0 ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF ENST00000046640.7_1_17:3540070-3540534:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 422.592286 1264.75503 2.3689 0.0010011 0.84218 0.0003559 3.2111 0.001357 422.5925429038583 52.352 0.43969 53.162 52.952 53.392 0.81065 0.040798 7.9685E-05 NaN 2.4348 73 30 3 NaN NaN NaN NaN 0 NaN NaN 0 1393100 1853 6378 1534 1536 0.13324215564421138 ARPDEKAIMTY 11 Unmodified _ARPDEKAIMTY_ 0 0 0 ENST00000588618.5_1_19:39138385-39212431:+|nuORF;ACTN4|p.D874Rfs*17|1|0.4|ENSG00000130402|chr19:38729309-38729310|-/C|frameshift_variant;ENSG00000130402|ENST00000252699|ACTN4;ENST00000554508.5_1_14:69367621-69387744:-|nuORF;nc|ENSG00000072110|P12814-2|ACTN1;nc|ENSG00000072110|P12814|ACTN1;ENSG00000072110|ENST00000394419|ACTN1;nc|ENSG00000072110|P12814-4|ACTN1 ENST00000588618.5_1_19:39138385-39212431:+|nuORF;nc|ENSG00000072110|P12814-2|ACTN1 ENST00000588618.5_1_19:39138385-39212431:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 647.8306884765625 2 647.826637 1293.63872 4.2959 0.002783 -0.13118 -8.4984E-05 4.1648 0.002698 647.8267615498428 31.284 0.31716 31.54 31.384 31.701 0.25614 28 21 2 0 0 0 0.12309 2 14234 14234;14285 32.898 27.166 1 299450 1854 9;785 1535 1537 1901;1902 1901 0.003648074831971826 ARPDEKAIMTY 11 Unmodified _ARPDEKAIMTY_ 0 0 0 ENST00000588618.5_1_19:39138385-39212431:+|nuORF;ACTN4|p.D874Rfs*17|1|0.4|ENSG00000130402|chr19:38729309-38729310|-/C|frameshift_variant;ENSG00000130402|ENST00000252699|ACTN4;ENST00000554508.5_1_14:69367621-69387744:-|nuORF;nc|ENSG00000072110|P12814-2|ACTN1;nc|ENSG00000072110|P12814|ACTN1;ENSG00000072110|ENST00000394419|ACTN1;nc|ENSG00000072110|P12814-4|ACTN1 ENST00000588618.5_1_19:39138385-39212431:+|nuORF;nc|ENSG00000072110|P12814-2|ACTN1 ENST00000588618.5_1_19:39138385-39212431:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 647.8301391601562 2 647.826637 1293.63872 3.9386 0.0025515 0.39084 0.0002532 4.3294 0.0028047 647.8270380658604 30.819 0.36778 31.436 31.207 31.575 0.61736 33 21 2 0 0 0 0.12309 2 14103 14103;14155 32.898 25.609 1 290340 1855 9;785 1535 1537 1903;1904 1903 0.003648074831971826 ARPPTVIL 8 Unmodified _ARPPTVIL_ 0 0 0 ENSG00000061656|ENST00000374273|SPAG4 ENSG00000061656|ENST00000374273|SPAG4 ENSG00000061656|ENST00000374273|SPAG4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 433.7782897949219 2 433.776545 865.538538 NaN NaN NaN NaN NaN NaN NaN 47.266 1 47.266 46.766 47.766 0 0 0 0 0.33143 1 21637 21637 34.102 10.954 1 1856 647 1536 1538 1905 1905 0.10038983002368695 ARPRPLWRRLL 11 Unmodified _ARPRPLWRRLL_ 0 0 0 REV__ENST00000578046.1_2_19:5687695-5687953:+|nuORF REV__ENST00000578046.1_2_19:5687695-5687953:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.1497802734375 4 359.229565 1432.88916 2.3442 0.00084211 -0.37639 -0.00013521 1.9678 0.0007069 359.48030765833226 75.737 0.066162 75.994 75.955 76.022 0.25704 6 5 2 0 0 0 0.13295 1 34871 34871 0.094841 0.011491 1 637700 + 1857 13306 1537 1539 1906 1906 0.19002617381488562 ARPRWLLLAIM 11 Unmodified _ARPRWLLLAIM_ 0 0 0 REV__nc|ENSG00000112494|Q86WB7-2|UNC93A REV__nc|ENSG00000112494|Q86WB7-2|UNC93A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 447.2745056152344 3 447.272554 1338.79583 3.3188 0.0014844 0.45774 0.00020474 3.7765 0.0016891 447.2726824388955 100.71 0.13185 101.3 101.22 101.35 0.59717 6 3 2 0 0 0 0.91459 1 46638 46638 0.094841 0 1 4132900 + 1858 11274 1538 1540 1907 1907 0.1399855688405296 ARQKQMLIHKA 11 Unmodified _ARQKQMLIHKA_ 0 0 0 REV__ENSG00000112159|ENST00000369393|MDN1 REV__ENSG00000112159|ENST00000369393|MDN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.928955078125 3 441.927446 1322.76051 2.9694 0.0013123 0.14737 6.5126E-05 3.1168 0.0013774 441.9274329489366 49.092 0.30308 49.354 49.227 49.53 0.26146 26 11 3 0 0 0 0.84832 1 22444 22444 4.7159 2.7884 1 1075500 + 1859 11262 1539 1541 1908 1908 0.11203894356231103 ARQKQMLIHKA 11 Unmodified _ARQKQMLIHKA_ 0 0 0 REV__ENSG00000112159|ENST00000369393|MDN1 REV__ENSG00000112159|ENST00000369393|MDN1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 441.927446 1322.76051 2.9694 0.0013123 0.14737 6.5126E-05 3.1168 0.0013774 441.9274329489366 49.092 0.30308 49.354 49.227 49.53 0.26146 -0.030543 0.00029985 NaN 4.7159 26 11 3 NaN NaN NaN NaN 0 NaN NaN 0 1075500 + 1860 11262 1539 1541 0.11203894356231103 ARQKVLQV 8 Unmodified _ARQKVLQV_ 0 0 0 REV__nc|ENSG00000134900|P29144|TPP2 REV__nc|ENSG00000134900|P29144|TPP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.713134765625 3 314.534543 940.581799 2.112 0.0006643 0.93248 0.0002933 3.0445 0.00095759 314.5347739448138 19.559 0.12201 19.851 19.792 19.914 0.29239 11 10 2 0 0 0 0.13931 1 8874 8874 6.2058 3.7073 1 109160 + 1861 11989 1540 1542 1909 1909 0.10913172779657998 ARQLPWLRSQN 11 Unmodified _ARQLPWLRSQN_ 0 0 0 REV__ENST00000471231.6_1_16:30937150-30941463:+|nuORF REV__ENST00000471231.6_1_16:30937150-30941463:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 684.8811645507812 2 684.878385 1367.74222 NaN NaN NaN NaN NaN NaN NaN 36.241 1 36.241 35.741 36.741 0 0 0 0 1.0079 1 16448 16448 0 0 1 + 1862 16601 1541 1543 1910 1910 0.07305475705879871 ARRKRKKKH 9 Unmodified _ARRKRKKKH_ 0 0 0 nc|ENSG00000147133|P21675-23|TAF1;nc|ENSG00000147133|P21675-24|TAF1;nc|ENSG00000147133|P21675-21|TAF1;nc|ENSG00000147133|P21675-15|TAF1;nc|ENSG00000147133|P21675-19|TAF1;nc|ENSG00000147133|P21675-20|TAF1;nc|ENSG00000147133|P21675-13|TAF1;nc|ENSG00000147133|P21675-16|TAF1;nc|ENSG00000147133|P21675-18|TAF1;nc|ENSG00000147133|P21675-22|TAF1;nc|ENSG00000147133|P21675-1|TAF1;ENSG00000147133|ENST00000423759|TAF1;nc|ENSG00000147133|P21675|TAF1;nc|ENSG00000147133|P21675-17|TAF1;nc|ENSG00000147133|P21675-25|TAF1;ENST00000483365.1_1_X:70596867-70597689:+|nuORF nc|ENSG00000147133|P21675-23|TAF1 nc|ENSG00000147133|P21675-23|TAF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 403.27142333984375 3 403.270535 1206.78978 2.3444 0.00094541 -1.128 -0.0004549 1.2163 0.00049052 403.27006547058585 59.04 0.060524 59.799 59.779 59.839 0.75894 5 3 2 0 0 0 1.231 1 27142 27142 0.23584 0.076522 1 413010 1863 3548 1542 1544 1911 1911 0.1946521948739246 ARRLGRLRRHL 11 Unmodified _ARRLGRLRRHL_ 0 0 0 REV__ENSG00000140323|ENST00000267889|DISP2 REV__ENSG00000140323|ENST00000267889|DISP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.20745849609375 4 351.728727 1402.8858 2.6739 0.00094048 -1.7618 -0.00061967 0.91209 0.00032081 351.9788264361286 54.858 0.14746 54.858 54.749 54.896 0 21 13 2 0 0 0 0.13295 1 25150 25150 0.073264 0 1 816450 + 1864 12239 1543 1545 1912 1912 0.2004736732751553 ARRLPSLLRP 10 Unmodified _ARRLPSLLRP_ 0 0 0 REV__nc|ENSG00000130821|P48029-2|SLC6A8 REV__nc|ENSG00000130821|P48029-2|SLC6A8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.5864562988281 3 393.58753 1177.74076 NaN NaN NaN NaN NaN NaN NaN 41.188 1 41.457 40.957 41.957 0.26904 0 0 0 0.99807 1 18755 18755 3.3196 1.5774 1 + 1865 17936 1544 1546 1913 1913 0.15899886407783015 ARRPARLWRRR 11 Unmodified _ARRPARLWRRR_ 0 0 0 REV__ENST00000470487.5_1_3:167813142-167813508:-|nuORF REV__ENST00000470487.5_1_3:167813142-167813508:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 747.9678344726562 2 747.461076 1492.9076 3.9674 0.0029655 -2.0648 -0.0015433 1.9027 0.0014222 747.9611422020705 58.784 0.52168 59.451 59.153 59.675 0.66703 38 21 2 0 0 0 0.91345 1 26834 26834 0.30703 0.30703 1 696330 + 1866 16593 1545 1547 1914 1914 0.1808617207602765 ARRRKKILFY 10 Unmodified _ARRRKKILFY_ 0 0 0 nc|ENSG00000119523|Q9H553-2|ALG2;ENSG00000119523|ENST00000476832|ALG2 nc|ENSG00000119523|Q9H553-2|ALG2 nc|ENSG00000119523|Q9H553-2|ALG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.95452880859375 3 450.954212 1349.84081 NaN NaN NaN NaN NaN NaN NaN 71.876 1 71.876 71.376 72.376 0 0 0 0 0.99807 1 34943 34943 3.3196 1.99 1 1867 2147 1546 1548 1915 1915 0.17988123741588424 ARRRRRRAARE 11 Unmodified _ARRRRRRAARE_ 0 0 0 REV__ENST00000334306.3_1_4:77818266-77818710:-|nuORF REV__ENST00000334306.3_1_4:77818266-77818710:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 727.4437255859375 2 727.443415 1452.87228 NaN NaN NaN NaN NaN NaN NaN 28.671 1 28.931 28.431 29.431 0.2602 0 0 0 1.0082 1 13042 13042 0 0 1 + 1868 15403 1547 1549 1916 1916 0.1639550954828337 ARRRRRRRRWR 11 Unmodified _ARRRRRRRRWR_ 0 0 0 ENST00000510148.1_1_5:179921418-179921547:+|nuORF ENST00000510148.1_1_5:179921418-179921547:+|nuORF ENST00000510148.1_1_5:179921418-179921547:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.9498291015625 3 561.019607 1680.03699 NaN NaN NaN NaN NaN NaN NaN 71.982 1 72.686 72.186 73.186 0.70386 0 0 0 1.0073 1 34609 34609 0.40827 0.40827 1 1869 8552 1548 1550 1917 1917 0.22417366478680378 ARRRRRWSWRR 11 Unmodified _ARRRRRWSWRR_ 0 0 0 MYH14|p.L28Cfs*72|1|0.16|ENSG00000105357|chr19:50210446-50210446|C/-|frameshift_variant MYH14|p.L28Cfs*72|1|0.16|ENSG00000105357|chr19:50210446-50210446|C/-|frameshift_variant MYH14|p.L28Cfs*72|1|0.16|ENSG00000105357|chr19:50210446-50210446|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 821.4808349609375 2 821.480331 1640.94611 NaN NaN NaN NaN NaN NaN NaN 76.807 1 77.062 76.562 77.562 0.25533 0 0 0 1.008 1 35367 35367 0.30703 0.30703 1 1870 9526 1549 1551 1918 1918 0.15127477710575477 ARRTSWLR 8 Unmodified _ARRTSWLR_ 0 0 0 REV__ENST00000568707.1_1_15:75890820-75890877:-|nuORF REV__ENST00000568707.1_1_15:75890820-75890877:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.3068237304688 2 523.304324 1044.5941 3.4513 0.0018061 -1.0687 -0.00055927 2.3825 0.0012468 523.3036196323739 82.09 0.94951 82.75 82.307 83.256 0.65998 101 57 2 0 0 0 0.74709 1 38015 38015 2.0598 0.21551 1 723780 + 1871 17434 1550 1552 1919 1919 0.07358209242693192 ARRVRLKRDRF 11 Unmodified _ARRVRLKRDRF_ 0 0 0 REV__nc|ENSG00000138002|Q9UG01-3|IFT172 REV__nc|ENSG00000138002|Q9UG01-3|IFT172 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.5677795410156 3 491.639287 1471.89603 NaN NaN NaN NaN NaN NaN NaN 67.936 1 67.936 67.436 68.436 0 0 0 0 1.0073 1 32655 32655 1.2148 0 1 + 1872 17956 1551 1553 1920 1920 0.17895930262056936 ARSILCCMR 9 Unmodified _ARSILCCMR_ 0 0 0 ENST00000492931.5_1_20:43251503-43280248:-|nuORF;ENSG00000196839|ENST00000372874|ADA ENST00000492931.5_1_20:43251503-43280248:-|nuORF ENST00000492931.5_1_20:43251503-43280248:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.9811096191406 3 351.510247 1051.50891 2.3361 0.00082115 -0.15058 -5.2932E-05 2.1855 0.00076822 351.51015681742825 46.73 0.23916 46.73 46.603 46.842 0 15 8 2 0 0 0 0.11402 1 21425 21425 0.96228 0.96228 1 350020 1873 5778 1552 1554 1921 1921 -0.014783636012907664 ARSTHLKT 8 Unmodified _ARSTHLKT_ 0 0 0 ENSG00000100056|ENST00000252137|ESS2;ENST00000434568.5_1_22:19121711-19126708:-|nuORF;ENST00000472073.1_1_22:19121711-19131632:-|nuORF ENSG00000100056|ENST00000252137|ESS2 ENSG00000100056|ENST00000252137|ESS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.2662658691406 2 457.264333 912.514114 3.6055 0.0016487 0.32405 0.00014818 3.9296 0.0017969 457.2645695076631 100.54 0.3866 100.85 100.59 100.98 0.31412 21 15 2 0 0 0 0.71384 1 46517 46517 4.756 2.1785 1 1282300 1874 1170 1553 1555 1922 1922 0.05435722848869773 ARTIGFVKL 9 Unmodified _ARTIGFVKL_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.5478820800781 3 335.54656 1003.61785 2.3354 0.00078363 1.0165 0.00034107 3.3518 0.0011247 335.5468163106837 16.809 0.63602 17.47 17.058 17.694 0.66072 121 59 3 0 0 0 0.83994 1 7558 7558 4.1895 0.59301 1 209960 1875 5547 1554 1556 1923 1923 0.11618629956512905 ARTKKSRRPN 10 Unmodified _ARTKKSRRPN_ 0 0 0 REV__ENST00000590504.1_1_X:47518288-47518834:+|nuORF REV__ENST00000590504.1_1_X:47518288-47518834:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.2464904785156 3 405.246055 1212.71634 NaN NaN NaN NaN NaN NaN NaN 76.213 1 76.837 76.337 77.337 0.62397 0 0 0 0.99995 1 36930 36930 1.7423 0.63252 1 + 1876 17573 1555 1557 1924 1924 0.11848626254277406 ARTKKSRRPN 10 Unmodified _ARTKKSRRPN_ 0 0 0 REV__ENST00000590504.1_1_X:47518288-47518834:+|nuORF REV__ENST00000590504.1_1_X:47518288-47518834:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.2467956542969 3 405.246055 1212.71634 NaN NaN NaN NaN NaN NaN NaN 75.284 1 75.542 75.042 76.042 0.2579 0 0 0 0.99995 1 34636 34636 1.7423 0 1 + 1877 17573 1555 1557 1925 1925 0.11848626254277406 ARTKKSRRPN 10 Unmodified _ARTKKSRRPN_ 0 0 0 REV__ENST00000590504.1_1_X:47518288-47518834:+|nuORF REV__ENST00000590504.1_1_X:47518288-47518834:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.24725341796875 3 405.246055 1212.71634 NaN NaN NaN NaN NaN NaN NaN 74.365 1 75.029 74.529 75.529 0.6644 0 0 0 0.99995 1 34232 34232 1.7423 0.52744 1 + 1878 17573 1555 1557 1926 1926 0.11848626254277406 ARTRGTRF 8 Unmodified _ARTRGTRF_ 0 0 0 ENST00000424766.5_2_2:190649458-190656621:+|nuORF ENST00000424766.5_2_2:190649458-190656621:+|nuORF ENST00000424766.5_2_2:190649458-190656621:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.186767578125 3 322.186025 963.536246 NaN NaN NaN NaN NaN NaN NaN 15.537 1 15.843 15.343 16.343 0.306 0 0 0 0.99035 1 7026 7026 1.3295 0.25807 1 1879 7786 1556 1558 1927 1927 0.05301947317275335 ARTRPEMRL 9 Unmodified _ARTRPEMRL_ 0 0 0 REV__ENST00000257700.6_1_7:105172682-105177020:+|nuORF REV__ENST00000257700.6_1_7:105172682-105177020:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 565.3211059570312 2 565.316574 1128.6186 NaN NaN NaN NaN NaN NaN NaN 89.354 1 90.032 89.532 90.532 0.67818 0 0 0 0.89983 1 41141 41141 3.5965 0.60125 1 + 1880 14941 1557 1559 1928 1928 0.059431013339235506 ARVDLRKK 8 Unmodified _ARVDLRKK_ 0 0 0 nc|ENSG00000184465|A2RRH5-2|WDR27;nc|ENSG00000184465|A2RRH5|WDR27;ENSG00000184465|ENST00000448612|WDR27 nc|ENSG00000184465|A2RRH5-2|WDR27 nc|ENSG00000184465|A2RRH5-2|WDR27 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 329.20245361328125 3 329.213692 984.619247 NaN NaN NaN NaN NaN NaN NaN 28.47 1 28.73 28.23 29.23 0.2602 0 0 0 0.99035 1 12950 12950 1.6526 0.32309 1 1881 5443 1558 1560 1929 1929 0.12632264045271313 ARVVWRRRP 9 Unmodified _ARVVWRRRP_ 0 0 0 REV__ENST00000417689.5_1_16:66968434-66968578:+|nuORF REV__ENST00000417689.5_1_16:66968434-66968578:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.2452087402344 3 399.247619 1194.72103 NaN NaN NaN NaN NaN NaN NaN 80.154 1 80.814 80.314 81.314 0.65998 0 0 0 0.90431 1 36933 36933 2.4985 1.5362 1 + 1882 16143 1559 1561 1930 1930 0.13145555187702485 ARWRRWWWRRR 11 Unmodified _ARWRRWWWRRR_ 0 0 0 ENST00000475204.5_1_1:70687068-70687435:+|nuORF;ENST00000370951.5_1_1:70671397-70687435:+|nuORF;ENST00000463877.1_1_1:70671397-70687435:+|nuORF;ENST00000395136.6_2_1:70687096-70687432:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 885.9931030273438 2 885.993075 1769.9716 NaN NaN NaN NaN NaN NaN NaN 84.253 1 84.282 83.782 84.782 0.028603 0 0 0 1.0082 1 41988 41988 0 0 1 1883 7310 1560 1562 1931 1931 0.1174095223295808 ARWRRWWWRRR 11 Unmodified _ARWRRWWWRRR_ 0 0 0 ENST00000475204.5_1_1:70687068-70687435:+|nuORF;ENST00000370951.5_1_1:70671397-70687435:+|nuORF;ENST00000463877.1_1_1:70671397-70687435:+|nuORF;ENST00000395136.6_2_1:70687096-70687432:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 885.991943359375 2 885.993075 1769.9716 NaN NaN NaN NaN NaN NaN NaN 60.267 1 60.932 60.432 61.432 0.66503 0 0 0 1.0082 1 27594 27594 0 0 1 1884 7310 1560 1562 1932 1932 0.1174095223295808 ASHRRRRRRRR 11 Unmodified _ASHRRRRRRRR_ 0 0 0 REV__ENST00000356978.8_1_14:90863393-90866410:+|nuORF REV__ENST00000356978.8_1_14:90863393-90866410:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 782.4869995117188 2 781.98103 1561.94751 3.7063 0.0028982 1.2949 0.0010126 5.0012 0.0039108 781.9818674158693 55.338 0.34693 55.338 55.261 55.608 0 66 27 3 0 0 0 0.91403 1 25519 25519 0.26902 0.26902 1 9426600 + 1885 15561 1561 1563 1933 1933 0.18901111799300452 ASHRRRRRRRR 11 Unmodified _ASHRRRRRRRR_ 0 0 0 REV__ENST00000356978.8_1_14:90863393-90866410:+|nuORF REV__ENST00000356978.8_1_14:90863393-90866410:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.9938354492188 3 521.656445 1561.94751 3.0772 0.0016052 1.7693 0.00092295 4.8465 0.0025282 521.9915093874507 55.733 0.15046 55.733 55.63 55.78 0 25 11 3 0 0 0 0.91068 1 25640 25640 0.45452 0.45452 1 4678700 + 1886 15561 1561 1563 1934 1934 0.18901111799300452 ASHRRRRRRRR 11 Unmodified _ASHRRRRRRRR_ 0 0 0 REV__ENST00000356978.8_1_14:90863393-90866410:+|nuORF REV__ENST00000356978.8_1_14:90863393-90866410:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 521.656445 1561.94751 3.0772 0.0016052 1.7693 0.00092295 4.8465 0.0025282 521.9915093874507 55.733 0.15046 55.733 55.63 55.78 0 -0.058388 0.00062097 NaN 0.45452 25 11 3 NaN NaN NaN NaN 0 NaN NaN 0 4678700 + 1887 15561 1561 1563 0.18901111799300452 ASHRRRRRRRR 11 Unmodified _ASHRRRRRRRR_ 0 0 0 REV__ENST00000356978.8_1_14:90863393-90866410:+|nuORF REV__ENST00000356978.8_1_14:90863393-90866410:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 521.656445 1561.94751 3.0369 0.0015842 0.38409 0.00020036 3.421 0.0017846 521.6564414241009 55.062 0.095924 55.849 55.821 55.917 0.78711 0.058388 -0.0015468 NaN 0.45452 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 624910 + 1888 15561 1561 1563 0.18901111799300452 ASILQKQRP 9 Unmodified _ASILQKQRP_ 0 0 0 REV__nc|ENSG00000070601|Q5SYB0-2|FRMPD1 REV__nc|ENSG00000070601|Q5SYB0-2|FRMPD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 347.547607421875 3 347.545219 1039.61383 NaN NaN NaN NaN NaN NaN NaN 54.061 1 54.061 53.561 54.561 0 0 0 0 0.89288 1 24789 24789 5.2969 1.4206 1 + 1889 10478 1562 1564 1935 1935 0.09560540462780409 ASIRKHPNF 9 Unmodified _ASIRKHPNF_ 0 0 0 REV__nc|ENSG00000135446|P11802-2|CDK4 REV__nc|ENSG00000135446|P11802-2|CDK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.2025146484375 3 357.201564 1068.58286 2.7223 0.0009724 0.39695 0.00014179 3.1192 0.0011142 357.201677926975 12.759 0.089255 12.759 12.716 12.806 0 7 4 2 0 0 0 0.29024 1 5580 5580 17.443 10.341 1 1169600 + 1890 12019 1563 1565 1936 1936 0.051313871485717755 ASIRKHPNF 9 Unmodified _ASIRKHPNF_ 0 0 0 REV__nc|ENSG00000135446|P11802-2|CDK4 REV__nc|ENSG00000135446|P11802-2|CDK4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 357.201564 1068.58286 1.8412 0.00065766 0.91212 0.00032581 2.7533 0.00098348 357.20132278171644 12.558 0.15844 12.865 12.751 12.909 0.30727 0.05274 0.0004584 NaN 17.443 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 1288600 + 1891 12019 1563 1565 0.051313871485717755 ASKIMKKKK 9 Unmodified _ASKIMKKKK_ 0 0 0 ENSG00000185056|ENST00000340147|C5orf47 ENSG00000185056|ENST00000340147|C5orf47 ENSG00000185056|ENST00000340147|C5orf47 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.3460083007812 2 531.346812 1060.67907 NaN NaN NaN NaN NaN NaN NaN 102.81 1 103.13 102.63 103.63 0.31863 0 0 0 0.90699 1 47545 47545 1.8442 0 1 1892 5487 1564 1566 1937 1937 0.15115818664276048 ASKNTIETEL 10 Unmodified _ASKNTIETEL_ 0 0 0 REV__nc|ENSG00000139977|Q147X3-2|NAA30 REV__nc|ENSG00000139977|Q147X3-2|NAA30 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.2929077148438 2 553.290411 1104.56627 3.723 0.0020599 0.65613 0.00036303 4.3791 0.0024229 553.2908167642343 29.633 0.36441 29.892 29.672 30.036 0.25804 31 27 2 0 0 0 0.74998 1 13497 13497 10.824 0.024421 1 240620 + 1893 12226 1565 1567 1938 1938 0.018167966812825398 ASKSKSVS 8 Unmodified _ASKSKSVS_ 0 0 0 REV__ENSG00000176542|ENST00000316407|USF3 REV__ENSG00000176542|ENST00000316407|USF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.22637939453125 2 397.224342 792.434132 2.9662 0.0011782 1.5019 0.0005966 4.4681 0.0017748 397.22478761742474 15.037 0.24934 15.691 15.547 15.796 0.65356 36 23 2 0 0 0 0.71911 1 6750 6750 4.3292 0 1 91956 + 1894 13707 1566 1568 1939 1939 0.029612364550075654 ASKYGFINI 9 Unmodified _ASKYGFINI_ 0 0 0 ENSG00000099139|ENST00000674117|PCSK5;nc|ENSG00000099139|Q92824|PCSK5;nc|ENSG00000099139|Q92824-2|PCSK5 ENSG00000099139|ENST00000674117|PCSK5 ENSG00000099139|ENST00000674117|PCSK5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.2782287597656 2 506.776742 1011.53893 3.0808 0.0015613 -1.0757 -0.00054514 2.0051 0.0010161 506.77666772864023 49.325 0.48399 49.325 49.134 49.618 0 56 19 4 0 0 0 0.3144 1 22660 22660 15.847 5.7733 1 3841200 1895 1134 1567 1569 1940 1940 0.03362357931564475 ASLEEVHRLKR 11 Unmodified _ASLEEVHRLKR_ 0 0 0 REV__Harlequin-int_dup372|chr10:84170027-84170994:-|2.229433011874135|0.252139802420439|3.14|509.0|35|3|sense REV__Harlequin-int_dup372|chr10:84170027-84170994:-|2.229433011874135|0.252139802420439|3.14|509.0|35|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 669.383544921875 2 669.386042 1336.75753 NaN NaN NaN NaN NaN NaN NaN 58.175 1 58.438 57.938 58.938 0.26227 0 0 0 0.97175 1 26635 26635 9.3831 1.7742 1 + 1896 17711 1568 1570 1941 1941 0.10262342503074251 ASLGWRAHLL 10 Unmodified _ASLGWRAHLL_ 0 0 0 ENST00000368202.4_1_6:128840173-128841710:-|nuORF ENST00000368202.4_1_6:128840173-128841710:-|nuORF ENST00000368202.4_1_6:128840173-128841710:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.8282470703125 2 562.322183 1122.62981 3.2921 0.0018512 0.49816 0.00028013 3.7903 0.0021314 562.3203933838633 44.719 0.56646 45.54 45.324 45.891 0.82074 80 27 4 0 0 0 0.24962 1 20368 20368 32.305 14.171 1 2799800 1897 7274 1569 1571 1942 1942 0.07340246699709496 ASLLPKIHKIR 11 Unmodified _ASLLPKIHKIR_ 0 0 0 REV__HUWE1|p.Q1048H|1|0.27|ENSG00000086758|chrX:53600137-53600137|T/A|missense_variant REV__HUWE1|p.Q1048H|1|0.27|ENSG00000086758|chrX:53600137-53600137|T/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 425.9459228515625 3 425.946835 1274.81868 NaN NaN NaN NaN NaN NaN NaN 63.88 1 64.595 64.095 65.095 0.71521 0 0 0 1.0047 1 29987 29987 2.084 0.75432 1 + 1898 17745 1570 1572 1943 1943 0.19225899273146752 ASNVTNKTD 9 Acetyl (Protein N-term) _(Acetyl (Protein N-term))ASNVTNKTD_ 1 0 0 nc|ENSG00000092199|P07910-3|HNRNPC;HNRNPC|p.D258Rfs*2|1|0.38|ENSG00000092199|chr14:21211471-21211472|-/T|frameshift_variant;nc|ENSG00000092199|P07910-4|HNRNPC;ENSG00000092199|ENST00000553300|HNRNPC;nc|ENSG00000092199|P07910|HNRNPC nc|ENSG00000092199|P07910-3|HNRNPC nc|ENSG00000092199|P07910-3|HNRNPC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.2402038574219 2 496.238178 990.461803 3.0942 0.0015355 0.59727 0.00029639 3.6915 0.0018319 496.2386162546293 14.785 0.32357 15.011 14.881 15.205 0.22622 66 25 3 0 0 0 0.0013791 1 6525 6525 114.5 70.724 1 1830000 1899 1094 1571 1573 1944 1944 -0.033809050754143755 ASNYQQMNPE 10 Unmodified _ASNYQQMNPE_ 0 0 0 ENSG00000204103|ENST00000373313|MAFB ENSG00000204103|ENST00000373313|MAFB ENSG00000204103|ENST00000373313|MAFB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.5859375 3 394.501239 1180.48189 NaN NaN NaN NaN NaN NaN NaN 70.946 1 71.609 71.109 72.109 0.66209 0 0 0 1.0006 1 32515 32515 0.50596 0 1 1900 5985 1572 1574 1945 1945 -0.10113477407116989 ASPEECRWHI 10 Unmodified _ASPEECRWHI_ 0 0 0 REV__nc|ENSG00000177640|Q6XLA1|CASC2 REV__nc|ENSG00000177640|Q6XLA1|CASC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.85614013671875 3 409.857357 1226.55024 NaN NaN NaN NaN NaN NaN NaN 12.47 1 12.732 12.232 13.232 0.26154 0 0 0 0.95221 1 5398 5398 11.518 0 1 + 1901 18055 1573 1575 1946 1946 -0.05397188036613443 ASSRIKRF 8 Unmodified _ASSRIKRF_ 0 0 0 REV__nc|ENSG00000204183|Q5U4N7|GDF5-AS1 REV__nc|ENSG00000204183|Q5U4N7|GDF5-AS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 322.1944885253906 3 322.194409 963.561398 NaN NaN NaN NaN NaN NaN NaN 23.737 1 23.737 23.237 24.237 0 0 0 0 0.99035 1 10682 10682 1.4819 0 1 + 1902 18107 1574 1576 1947 1947 0.07816002119841414 ASTKKLLIKNR 11 Unmodified _ASTKKLLIKNR_ 0 0 0 ENST00000488010.5_1_3:69097293-69097338:-|nuORF ENST00000488010.5_1_3:69097293-69097338:-|nuORF ENST00000488010.5_1_3:69097293-69097338:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 636.417236328125 2 636.411529 1270.8085 NaN NaN NaN NaN NaN NaN NaN 60.659 1 60.659 60.159 61.159 0 0 0 0 1.0038 1 28218 28218 5.7319 2.1354 1 1903 8358 1575 1577 1948 1948 0.18393291547931767 ASTRLVLFVFI 11 Unmodified _ASTRLVLFVFI_ 0 0 0 REV__chr16:74413676-74415697|191|23.31|0.09|8.09|-|2|TE_info:AluSx1,AluSx1_dup93401,Alu,SINE,donor,+,74415697,74415903|CLEC18B,None|2 REV__chr16:74413676-74415697|191|23.31|0.09|8.09|-|2|TE_info:AluSx1,AluSx1_dup93401,Alu,SINE,donor,+,74415697,74415903|CLEC18B,None|2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.19671630859375 4 317.195862 1264.75434 2.4694 0.00078327 1.0834 0.00034365 3.5528 0.0011269 317.1961480717587 46.698 0.47327 46.963 46.568 47.041 0.26561 45 16 3 0 0 0 0.88721 1 21193 21193 1.2148 0.10508 1 14192000 + 1904 10033 1576 1578 1949 1949 0.13255699396381715 ASTRLVLFVFI 11 Unmodified _ASTRLVLFVFI_ 0 0 0 REV__chr16:74413676-74415697|191|23.31|0.09|8.09|-|2|TE_info:AluSx1,AluSx1_dup93401,Alu,SINE,donor,+,74415697,74415903|CLEC18B,None|2 REV__chr16:74413676-74415697|191|23.31|0.09|8.09|-|2|TE_info:AluSx1,AluSx1_dup93401,Alu,SINE,donor,+,74415697,74415903|CLEC18B,None|2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.197021484375 4 317.195862 1264.75434 2.5013 0.00079341 0.93735 0.00029732 3.4387 0.0010907 317.19613195167653 46.874 0.84763 47.138 46.618 47.466 0.26363 72 29 5 0 0 0 0.88721 1 21481 21481 1.2148 0.76031 1 16465000 + 1905 10033 1576 1578 1950 1950 0.13255699396381715 ASTRLVLFVFI 11 Unmodified _ASTRLVLFVFI_ 0 0 0 REV__chr16:74413676-74415697|191|23.31|0.09|8.09|-|2|TE_info:AluSx1,AluSx1_dup93401,Alu,SINE,donor,+,74415697,74415903|CLEC18B,None|2 REV__chr16:74413676-74415697|191|23.31|0.09|8.09|-|2|TE_info:AluSx1,AluSx1_dup93401,Alu,SINE,donor,+,74415697,74415903|CLEC18B,None|2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5937194824219 3 422.592058 1264.75434 3.1285 0.0013221 0.93475 0.00039502 4.0632 0.0017171 422.5923230632158 46.85 0.61535 47.115 46.784 47.4 0.26545 52 20 5 0 0 0 0.84422 1 21483 21483 4.1166 1.6818 1 6789200 + 1906 10033 1576 1578 1951 1951 0.13255699396381715 ASTRLVLFVFI 11 Unmodified _ASTRLVLFVFI_ 0 0 0 REV__chr16:74413676-74415697|191|23.31|0.09|8.09|-|2|TE_info:AluSx1,AluSx1_dup93401,Alu,SINE,donor,+,74415697,74415903|CLEC18B,None|2 REV__chr16:74413676-74415697|191|23.31|0.09|8.09|-|2|TE_info:AluSx1,AluSx1_dup93401,Alu,SINE,donor,+,74415697,74415903|CLEC18B,None|2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.5935974121094 3 422.592058 1264.75434 3.2172 0.0013596 1.1773 0.00049754 4.3946 0.0018571 422.5923636223528 46.341 0.43813 46.994 46.88 47.318 0.65219 51 17 4 0 0 0 0.84422 2 21248 21248;21302 4.1166 1.6818 1 3679200 + 1907 10033 1576 1578 1952;1953 1952 0.13255699396381715 ASTRLVLFVFI 11 Unmodified _ASTRLVLFVFI_ 0 0 0 REV__chr16:74413676-74415697|191|23.31|0.09|8.09|-|2|TE_info:AluSx1,AluSx1_dup93401,Alu,SINE,donor,+,74415697,74415903|CLEC18B,None|2 REV__chr16:74413676-74415697|191|23.31|0.09|8.09|-|2|TE_info:AluSx1,AluSx1_dup93401,Alu,SINE,donor,+,74415697,74415903|CLEC18B,None|2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 422.592058 1264.75434 3.2172 0.0013596 1.1773 0.00049754 4.3946 0.0018571 422.5923636223528 46.341 0.43813 46.994 46.88 47.318 0.65219 0.036324 0.00019725 NaN 4.1166 51 17 4 NaN NaN NaN NaN 0 NaN NaN 0 3679200 + 1908 10033 1576 1578 0.13255699396381715 ASVLVPGG 8 Unmodified _ASVLVPGG_ 0 0 0 REV__nc|ENSG00000198947|P11532-4|DMD REV__nc|ENSG00000198947|P11532-4|DMD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.2073669433594 2 350.205421 698.39629 NaN NaN NaN NaN NaN NaN NaN 54.848 1 55.643 55.143 56.143 0.79552 0 0 0 0.99035 1 25032 25032 2.5775 1.7838 1 + 1909 14386 1577 1579 1954 1954 0.035027702601951205 ASWAWRRWWLW 11 Unmodified _ASWAWRRWWLW_ 0 0 0 ENST00000308064.6_1_11:45673544-45686758:-|nuORF;ENST00000531322.1_1_11:45673541-45686758:-|nuORF ENST00000308064.6_1_11:45673544-45686758:-|nuORF ENST00000308064.6_1_11:45673544-45686758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 802.4071044921875 2 802.407112 1602.79967 NaN NaN NaN NaN NaN NaN NaN 103.38 1 103.7 103.2 104.2 0.31863 0 0 0 1.0082 1 47794 47794 0 0 1 1910 6849 1578 1580 1955 1955 0.022383627021326902 ASYMSLLH 8 Oxidation (M) _ASYM(Oxidation (M))SLLH_ ASYM(1)SLLH ASYM(40)SLLH 0 0 1 REV__nc|ENSG00000211781|A0A075B6U4|TRAV7 REV__nc|ENSG00000211781|A0A075B6U4|TRAV7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 469.2266845703125 2 469.226028 936.437503 2.8174 0.001322 -0.1166 -5.4712E-05 2.7008 0.0012673 469.2260154386159 54.538 0.60426 55.204 55.003 55.607 0.6665 93 45 3 0 0 0 0.23254 1 24992 24992 40.449 14.107 1 10248000 + 1911 18125 1579 1581 1956 1956 104 -0.033258367626331165 ASYMSLLH 8 Oxidation (M) _ASYM(Oxidation (M))SLLH_ 0 0 1 REV__nc|ENSG00000211781|A0A075B6U4|TRAV7 REV__nc|ENSG00000211781|A0A075B6U4|TRAV7 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 469.226028 936.437503 2.7885 0.0013084 -0.2563 -0.00012026 2.5322 0.0011882 469.22588754902694 55.437 0.40454 55.437 55.261 55.666 0 0.10794 -0.00020619 NaN 40.449 65 31 3 NaN NaN NaN NaN 0 NaN NaN 0 4356400 + 1912 18125 1579 1581 104 -0.033258367626331165 ASYMSLLH 8 Oxidation (M) _ASYM(Oxidation (M))SLLH_ 0 0 1 REV__nc|ENSG00000211781|A0A075B6U4|TRAV7 REV__nc|ENSG00000211781|A0A075B6U4|TRAV7 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 469.226028 936.437503 2.4776 0.0011625 0.14173 6.6502E-05 2.6193 0.0012291 469.2261685206934 54.34 0.56042 55.136 54.852 55.412 0.79552 -0.19374 0.00016734 NaN 40.449 103 34 4 NaN NaN NaN NaN 0 NaN NaN 0 3334100 + 1913 18125 1579 1581 104 -0.033258367626331165 ASYMSLLH 8 Oxidation (M) _ASYM(Oxidation (M))SLLH_ 0 0 1 REV__nc|ENSG00000211781|A0A075B6U4|TRAV7 REV__nc|ENSG00000211781|A0A075B6U4|TRAV7 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 469.226028 936.437503 2.5985 0.0012193 0.09924 4.6566E-05 2.6977 0.0012658 469.2261273048738 55.275 0.47877 55.54 55.357 55.835 0.26543 0.21089 0.00012747 NaN 40.449 67 26 3 NaN NaN NaN NaN 0 NaN NaN 0 7298300 + 1914 18125 1579 1581 104 -0.033258367626331165 ASYMSLLH 8 Oxidation (M) _ASYM(Oxidation (M))SLLH_ 0 0 1 REV__nc|ENSG00000211781|A0A075B6U4|TRAV7 REV__nc|ENSG00000211781|A0A075B6U4|TRAV7 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 469.226028 936.437503 2.8174 0.001322 -0.1166 -5.4712E-05 2.7008 0.0012673 469.2260154386159 54.538 0.60426 55.204 55.003 55.607 0.6665 -0.1251 -7.5089E-05 NaN 40.449 93 45 3 NaN NaN NaN NaN 0 NaN NaN 0 10248000 + 1915 18125 1579 1581 104 -0.033258367626331165 ATAGRLHV 8 Unmodified _ATAGRLHV_ 0 0 0 REV__ENSG00000080345|ENST00000444746|RIF1 REV__ENSG00000080345|ENST00000444746|RIF1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 824.7128295898438 1 824.473712 823.466435 2.5294 0.0020855 -0.50236 -0.00041418 2.0271 0.0016713 824.4746818081434 94.507 0.27142 94.593 94.473 94.744 0.086205 54 41 2 0 0 0 0.13972 1 49647 49647 8.5933 0 1 21988000 + 1916 10592 1580 1582 1957 1957 0.04764068648648845 ATAREWHSPK 10 Unmodified _ATAREWHSPK_ 0 0 0 REV__ENST00000460095.1_1_2:201342446-201342566:+|nuORF REV__ENST00000460095.1_1_2:201342446-201342566:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.8731384277344 3 394.871995 1181.59415 3.0524 0.0012053 -0.16364 -6.4617E-05 2.8888 0.0011407 394.8719117413632 19.853 0.29893 20.511 20.36 20.659 0.65829 60 24 3 0 0 0 0.79369 1 9004 9004 5.0475 1.9753 1 439100 + 1917 16476 1581 1583 1958 1958 0.010621644520369955 ATAREWHSPK 10 Unmodified _ATAREWHSPK_ 0 0 0 REV__ENST00000460095.1_1_2:201342446-201342566:+|nuORF REV__ENST00000460095.1_1_2:201342446-201342566:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 394.871995 1181.59415 2.7189 0.0010736 0.18838 7.4386E-05 2.9072 0.001148 394.8721289186839 20.869 0.24446 20.869 20.7 20.944 0 0.1789 0.00019767 NaN 5.0475 30 18 2 NaN NaN NaN NaN 0 NaN NaN 0 182320 + 1918 16476 1581 1583 0.010621644520369955 ATATSKLTII 10 Unmodified _ATATSKLTII_ 0 0 0 nc|ENSG00000182175|Q96B86-3|RGMA;ENSG00000182175|ENST00000329082|RGMA;nc|ENSG00000182175|Q96B86-4|RGMA nc|ENSG00000182175|Q96B86-3|RGMA nc|ENSG00000182175|Q96B86-3|RGMA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 340.2108459472656 3 340.209613 1017.60701 2.2313 0.0007591 -0.23035 -7.8368E-05 2.0009 0.00068074 340.2098048278472 14.565 0.29338 14.872 14.752 15.045 0.3069 56 21 3 0 0 0 0.56502 1 6589 6589 18.721 2.1553 1 876200 1919 5315 1582 1584 1959 1959 0.09891182791557185 ATEEDEDDD 9 Unmodified _ATEEDEDDD_ 0 0 0 REV__ENST00000560078.1_1_15:41102255-41105735:+|nuORF REV__ENST00000560078.1_1_15:41102255-41105735:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.1175537109375 2 519.672731 1037.33091 NaN NaN NaN NaN NaN NaN NaN 93.189 1 93.275 92.775 93.775 0.086212 0 0 0 0.89683 1 48757 48757 4.3292 1.44 1 + 1920 13213 1583 1585 1960 1960 -0.18626385304787618 ATEEPGESF 9 Unmodified _ATEEPGESF_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-7|IL32;nc|ENSG00000008517|P24001-4|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.70751953125 2 483.70618 965.397806 NaN NaN NaN NaN NaN NaN NaN 34.085 1 34.339 33.839 34.839 0.25389 0 0 0 0.016111 1 15521 15521 77.984 39.833 1 1921 381 1584 1586 1961 1961 -0.08627685232363547 ATEEPGESF 9 Unmodified _ATEEPGESF_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-7|IL32;nc|ENSG00000008517|P24001-4|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.707763671875 2 483.70618 965.397806 3.0423 0.0014716 0.11502 5.5634E-05 3.1573 0.0015272 483.70608835287504 33.693 0.41966 34.313 34.079 34.499 0.62032 35 18 2 0 0 0 0.020718 2 15409 15409;15463 67.344 33.241 1 581690 1922 381 1584 1586 1962;1963 1962 -0.08627685232363547 ATEEPGESF 9 Unmodified _ATEEPGESF_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-7|IL32;nc|ENSG00000008517|P24001-4|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.7076110839844 2 483.70618 965.397806 NaN NaN NaN NaN NaN NaN NaN 33.881 1 34.501 34.001 35.001 0.62031 0 0 0 0.097886 1 15524 15524 42.095 18.946 1 1923 381 1584 1586 1964 1964 -0.08627685232363547 ATELLLWPLVM 11 Unmodified _ATELLLWPLVM_ 0 0 0 REV__ENST00000452647.2_3_6:99968950-99973980:+|nuORF REV__ENST00000452647.2_3_6:99968950-99973980:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.4381713867188 2 643.364867 1284.71518 NaN NaN NaN NaN NaN NaN NaN 93.717 1 93.717 93.217 94.217 0 0 0 0 0.97845 1 50094 50094 8.7454 1.1365 1 + 1924 16421 1585 1587 1965 1965 0.08421231050465394 ATIETSEQTAE 11 Unmodified _ATIETSEQTAE_ 0 0 0 ENST00000558451.1_1_15:60747196-60747605:-|nuORF;ENSG00000128915|ENST00000261520|ICE2 ENST00000558451.1_1_15:60747196-60747605:-|nuORF ENST00000558451.1_1_15:60747196-60747605:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.274169921875 2 590.272415 1178.53028 3.613 0.0021327 -0.59159 -0.0003492 3.0214 0.0017835 590.2717315783395 26.934 0.38766 26.934 26.765 27.152 0 50 24 3 0 0 0 0.037117 2 12119 12119;12161 53.833 23.196 1 1403300 1925 2532 1586 1588 1966;1967 1966 -0.051847052862285636 ATIETSEQTAE 11 Unmodified _ATIETSEQTAE_ 0 0 0 ENST00000558451.1_1_15:60747196-60747605:-|nuORF;ENSG00000128915|ENST00000261520|ICE2 ENST00000558451.1_1_15:60747196-60747605:-|nuORF ENST00000558451.1_1_15:60747196-60747605:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.2740478515625 2 590.272415 1178.53028 3.3532 0.0019793 -0.22551 -0.00013311 3.1277 0.0018462 590.2719690321358 26.093 0.49364 26.857 26.706 27.2 0.76357 79 37 3 0 0 0 0.037117 2 11746 11697;11746 53.833 15.859 1 965570 1926 2532 1586 1588 1968;1969 1969 -0.051847052862285636 ATIETSEQTAE 11 Unmodified _ATIETSEQTAE_ 0 0 0 ENST00000558451.1_1_15:60747196-60747605:-|nuORF;ENSG00000128915|ENST00000261520|ICE2 ENST00000558451.1_1_15:60747196-60747605:-|nuORF ENST00000558451.1_1_15:60747196-60747605:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 590.274169921875 2 590.272415 1178.53028 3.5953 0.0021222 -0.16353 -9.6528E-05 3.4318 0.0020257 590.2721343600216 26.576 0.42908 26.841 26.69 27.119 0.26489 71 28 4 0 0 0 0.037117 2 12039 12039;12085 53.833 26.204 1 1693200 1927 2532 1586 1588 1970;1971 1970 -0.051847052862285636 ATIETSEQTAE 11 Unmodified _ATIETSEQTAE_ 0 0 0 ENST00000558451.1_1_15:60747196-60747605:-|nuORF;ENSG00000128915|ENST00000261520|ICE2 ENST00000558451.1_1_15:60747196-60747605:-|nuORF ENST00000558451.1_1_15:60747196-60747605:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.2744750976562 2 590.272415 1178.53028 3.6061 0.0021286 0.2711 0.00016002 3.8772 0.0022886 590.272417367001 26.222 0.53988 26.847 26.675 27.215 0.62505 64 30 3 0 0 0 0.037117 2 12001 12001;12046 53.833 26.204 1 1487700 1928 2532 1586 1588 1972;1973 1972 -0.051847052862285636 ATKKRRILF 9 Unmodified _ATKKRRILF_ 0 0 0 REV__ENST00000429490.5_1_10:52349918-52349984:-|nuORF REV__ENST00000429490.5_1_10:52349918-52349984:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 378.2487487792969 3 378.248625 1131.72405 NaN NaN NaN NaN NaN NaN NaN 57.506 1 57.506 57.006 58.006 0 0 0 0 0.90431 1 26508 26508 2.4985 1.427 1 + 1929 16241 1587 1589 1974 1974 0.1634538552182221 ATKKRRILFS 10 Unmodified _ATKKRRILFS_ 0 0 0 REV__ENST00000429490.5_1_10:52349918-52349984:-|nuORF REV__ENST00000429490.5_1_10:52349918-52349984:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.2553405761719 3 407.259302 1218.75608 NaN NaN NaN NaN NaN NaN NaN 66.521 1 66.769 66.269 67.269 0.24848 0 0 0 0.99995 1 30475 30475 1.7423 0.14999 1 + 1930 16241 1588 1590 1975 1975 0.1554475320497204 ATKKRSGH 8 Unmodified _ATKKRSGH_ 0 0 0 REV__nc|ENSG00000100258|Q9BU23-3|LMF2 REV__nc|ENSG00000100258|Q9BU23-3|LMF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 442.7582092285156 2 442.756675 883.498798 2.2953 0.0010162 0.35256 0.0001561 2.6478 0.0011723 442.75662391852507 76.502 0.35478 76.502 76.357 76.711 0 32 24 2 0 0 0 0.67495 1 37478 37478 7.9102 2.6795 1 1558500 + 1931 10815 1589 1591 1976 1976 0.052388560516646976 ATKKRSGH 8 Unmodified _ATKKRSGH_ 0 0 0 REV__nc|ENSG00000100258|Q9BU23-3|LMF2 REV__nc|ENSG00000100258|Q9BU23-3|LMF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.7576904296875 2 442.756675 883.498798 2.6953 0.0011934 0.51009 0.00022584 3.2054 0.0014192 442.75666395321906 75.615 0.30727 76.28 76.119 76.427 0.6644 62 28 3 0 0 0 0.67495 1 34844 34844 7.9102 2.6795 1 1743200 + 1932 10815 1589 1591 1977 1977 0.052388560516646976 ATKKRSGH 8 Unmodified _ATKKRSGH_ 0 0 0 REV__nc|ENSG00000100258|Q9BU23-3|LMF2 REV__nc|ENSG00000100258|Q9BU23-3|LMF2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 442.756675 883.498798 2.2953 0.0010162 0.35256 0.0001561 2.6478 0.0011723 442.75662391852507 76.502 0.35478 76.502 76.357 76.711 0 0.12115 -0.00022351 NaN 7.9102 32 24 2 NaN NaN NaN NaN 0 NaN NaN 0 1558500 + 1933 10815 1589 1591 0.052388560516646976 ATKRKDEPLE 10 Unmodified _ATKRKDEPLE_ 0 0 0 REV__ENSG00000024862|ENST00000617445|CCDC28A REV__ENSG00000024862|ENST00000617445|CCDC28A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 396.221923828125 3 396.21906 1185.63535 NaN NaN NaN NaN NaN NaN NaN 53.054 1 53.857 53.357 54.357 0.80351 0 0 0 0.99995 1 24180 24180 1.7423 0.14999 1 + 1934 10274 1590 1592 1978 1978 0.04995880700835187 ATKRKKWKR 9 Unmodified _ATKRKKWKR_ 0 0 0 REV__ENST00000424556.2_1_11:1856509-1858658:+|nuORF REV__ENST00000424556.2_1_11:1856509-1858658:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 401.4006042480469 3 401.259524 1200.75674 NaN NaN NaN NaN NaN NaN NaN 71.724 1 71.724 71.224 72.224 0 0 0 0 0.90431 1 34869 34869 2.4985 1.427 1 + 1935 12555 1591 1593 1979 1979 0.1643959264467867 ATKRKRVPKM 10 Unmodified _ATKRKRVPKM_ 0 0 0 REV__UBR4|p.Q4684Hfs*5|1|0.26|ENSG00000127481|chr1:19093351-19093372|TGCATTCTGGGTGATCCCCTTC/-|frameshift_variant REV__UBR4|p.Q4684Hfs*5|1|0.26|ENSG00000127481|chr1:19093351-19093372|TGCATTCTGGGTGATCCCCTTC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.58807373046875 3 405.588653 1213.74413 NaN NaN NaN NaN NaN NaN NaN 51.718 1 52.528 52.028 53.028 0.81065 0 0 0 0.99776 1 23558 23558 3.5871 1.8448 1 + 1936 11739 1592 1594 1980 1980 0.14580813190127628 ATKRKSHR 8 Unmodified _ATKRKSHR_ 0 0 0 REV__ENSG00000187950|ENST00000537054|OVCH1 REV__ENSG00000187950|ENST00000537054|OVCH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.3099060058594 2 492.296499 982.578445 NaN NaN NaN NaN NaN NaN NaN 64.381 1 65.038 64.538 65.538 0.65672 0 0 0 0.967 1 29514 29514 7.9102 2.1497 1 + 1937 14124 1593 1595 1981 1981 0.08645922725656874 ATKRKVKHRE 10 Unmodified _ATKRKVKHRE_ 0 0 0 REV__ENST00000497885.1_1_17:4608620-4608779:+|nuORF REV__ENST00000497885.1_1_17:4608620-4608779:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 418.2584228515625 3 418.258072 1251.75239 NaN NaN NaN NaN NaN NaN NaN 71.103 1 71.103 70.603 71.603 0 0 0 0 0.99774 1 34547 34547 1.7423 1.0446 1 + 1938 16862 1594 1596 1982 1982 0.1365808343111894 ATKRKVKHRE 10 Unmodified _ATKRKVKHRE_ 0 0 0 REV__ENST00000497885.1_1_17:4608620-4608779:+|nuORF REV__ENST00000497885.1_1_17:4608620-4608779:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 418.2573547363281 3 418.258072 1251.75239 NaN NaN NaN NaN NaN NaN NaN 52.221 1 52.483 51.983 52.983 0.26227 0 0 0 0.99774 1 23872 23872 1.7423 0.7287 1 + 1939 16862 1594 1596 1983 1983 0.1365808343111894 ATKRKYQA 8 Unmodified _ATKRKYQA_ 0 0 0 ENSG00000125485|ENST00000372159|DDX31;nc|ENSG00000125485|Q9H8H2-2|DDX31;nc|ENSG00000125485|Q9H8H2|DDX31;nc|ENSG00000125485|Q9H8H2-6|DDX31;ENST00000482620.1_1_9:135536593-135545636:-|nuORF;nc|ENSG00000125485|Q9H8H2-3|DDX31;nc|ENSG00000125485|Q9H8H2-4|DDX31 ENSG00000125485|ENST00000372159|DDX31 ENSG00000125485|ENST00000372159|DDX31 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.710205078125 2 483.279983 964.545414 NaN NaN NaN NaN NaN NaN NaN 54.661 1 54.661 54.161 55.161 0 0 0 0 0.99035 1 25089 25089 5.2307 0 1 1940 2402 1595 1597 1984 1984 0.06172295882936396 ATKTKFTM 8 Unmodified _ATKTKFTM_ 0 0 0 ENSG00000131747|ENST00000423485|TOP2A;nc|ENSG00000131747|P11388-2|TOP2A;nc|ENSG00000131747|P11388-3|TOP2A;nc|ENSG00000131747|P11388-4|TOP2A ENSG00000131747|ENST00000423485|TOP2A ENSG00000131747|ENST00000423485|TOP2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.2535400390625 2 464.252046 926.489538 2.5157 0.0011679 0.6366 0.00029554 3.1523 0.0014635 464.25229043273043 17.466 0.33117 17.768 17.571 17.902 0.30158 38 23 2 0 0 0 0.36624 2 7894 7894;7941 30.637 22.726 1 235050 1941 2671 1596 1598 1985;1986 1985 0.02335326651109426 ATKTKFTM 8 Unmodified _ATKTKFTM_ 0 0 0 ENSG00000131747|ENST00000423485|TOP2A;nc|ENSG00000131747|P11388-2|TOP2A;nc|ENSG00000131747|P11388-3|TOP2A;nc|ENSG00000131747|P11388-4|TOP2A ENSG00000131747|ENST00000423485|TOP2A ENSG00000131747|ENST00000423485|TOP2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.25347900390625 2 464.252046 926.489538 2.8301 0.0013139 0.39817 0.00018485 3.2283 0.0014987 464.2522443560413 17.325 0.35832 17.986 17.752 18.11 0.66072 46 24 3 0 0 0 0.083464 2 7787 7787;7844 55.503 36.246 1 449840 1942 2671 1596 1598 1987;1988 1987 0.02335326651109426 ATLTELKQL 9 Unmodified _ATLTELKQL_ 0 0 0 REV__nc|ENSG00000107897|Q5T8D3-4|ACBD5 REV__nc|ENSG00000107897|Q5T8D3-4|ACBD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.80377197265625 2 508.802957 1015.59136 NaN NaN NaN NaN NaN NaN NaN 40.888 1 41.533 41.033 42.033 0.64451 0 0 0 0.10934 1 18692 18692 39.957 5.8549 1 + 1943 11127 1597 1599 1989 1989 0.08418896274520193 ATLTKKKKLKK 11 Unmodified _ATLTKKKKLKK_ 0 0 0 REV__ENST00000372600.8_1_9:131679364-131679535:+|nuORF REV__ENST00000372600.8_1_9:131679364-131679535:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 644.2266235351562 2 643.947747 1285.88094 NaN NaN NaN NaN NaN NaN NaN 96.408 1 96.485 95.985 96.985 0.076538 0 0 0 1.008 1 51224 51224 0.26902 0.26902 1 + 1944 15756 1598 1600 1990 1990 0.24943625621472165 ATPGRVHF 8 Unmodified _ATPGRVHF_ 0 0 0 TBX10|p.L239Afs*2|1|0.05|ENSG00000167800|chr11:67632661-67632662|-/GC|frameshift_variant;ENSG00000167800|ENST00000335385|TBX10 TBX10|p.L239Afs*2|1|0.05|ENSG00000167800|chr11:67632661-67632662|-/GC|frameshift_variant TBX10|p.L239Afs*2|1|0.05|ENSG00000167800|chr11:67632661-67632662|-/GC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 442.7574462890625 2 442.740494 883.466435 NaN NaN NaN NaN NaN NaN NaN 75.875 1 76.132 75.632 76.632 0.25704 0 0 0 0.99035 1 34926 34926 2.5775 0.73324 1 1945 4583 1599 1601 1991 1991 0.020040686486595405 ATPKVKNQL 9 Unmodified _ATPKVKNQL_ 0 0 0 ENST00000473649.1_1_7:142961996-142965927:+|nuORF;nc|ENSG00000197448|Q9Y2Q3-4|GSTK1;nc|ENSG00000197448|Q9Y2Q3-3|GSTK1;ENSG00000197448|ENST00000358406|GSTK1;nc|ENSG00000197448|Q9Y2Q3-2|GSTK1 ENST00000473649.1_1_7:142961996-142965927:+|nuORF ENST00000473649.1_1_7:142961996-142965927:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 333.53857421875 3 333.537953 997.59203 2.3728 0.00079142 -0.24485 -8.1667E-05 2.1279 0.00070975 333.53793947430455 13.293 0.2381 13.293 13.13 13.368 0 26 18 2 0 0 0 0.29781 1 5790 5790 11.495 3.5493 1 264360 1946 5820 1600 1602 1992 1992 0.09313735714226823 ATPKVKNQL 9 Unmodified _ATPKVKNQL_ 0 0 0 ENST00000473649.1_1_7:142961996-142965927:+|nuORF;nc|ENSG00000197448|Q9Y2Q3-4|GSTK1;nc|ENSG00000197448|Q9Y2Q3-3|GSTK1;ENSG00000197448|ENST00000358406|GSTK1;nc|ENSG00000197448|Q9Y2Q3-2|GSTK1 ENST00000473649.1_1_7:142961996-142965927:+|nuORF ENST00000473649.1_1_7:142961996-142965927:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 333.53875732421875 3 333.537953 997.59203 1.7298 0.00057695 0.18249 6.0866E-05 1.9123 0.00063781 333.53809437126915 12.733 0.15566 13.04 12.936 13.091 0.30727 10 4 3 0 0 0 0.020718 1 5749 5749 51.63 28.972 1 1878800 1947 5820 1600 1602 1993 1993 0.09313735714226823 ATPMFPKVG 9 Unmodified _ATPMFPKVG_ 0 0 0 REV__ENSG00000170791|ENST00000355315|CHCHD7 REV__ENSG00000170791|ENST00000355315|CHCHD7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.2525329589844 2 474.254588 946.494624 NaN NaN NaN NaN NaN NaN NaN 26.644 1 26.644 26.144 27.144 0 0 0 0 0.89683 1 11998 11998 4.3292 0.38484 1 + 1948 13454 1601 1603 1994 1994 0.01923630513738317 ATRRRISSS 9 Unmodified _ATRRRISSS_ 0 0 0 REV__ENSG00000273514|ENST00000622588|FOXD4L6 REV__ENSG00000273514|ENST00000622588|FOXD4L6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 517.3372802734375 2 517.296696 1032.57884 NaN NaN NaN NaN NaN NaN NaN 87.375 1 87.415 86.915 87.915 0.039955 0 0 0 0.73102 1 44221 44221 11.495 0.38025 1 + 1949 14103 1602 1604 1995 1995 0.06385297654856004 ATVLKRHRRK 10 Unmodified _ATVLKRHRRK_ 0 0 0 REV__ENST00000416824.1_1_7:44079705-44080035:+|nuORF REV__ENST00000416824.1_1_7:44079705-44080035:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.864013671875 2 632.907279 1263.80001 NaN NaN NaN NaN NaN NaN NaN 91.256 1 91.331 90.831 91.831 0.075279 0 0 0 0.99733 1 47244 47244 3.9444 0.66309 1 + 1950 16137 1603 1605 1996 1996 0.17865782421949916 ATWRPLLLLL 10 Unmodified _ATWRPLLLLL_ 0 0 0 REV__ENST00000540046.5_1_12:121001406-121001742:+|nuORF REV__ENST00000540046.5_1_12:121001406-121001742:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 598.3847045898438 2 598.381709 1194.74886 3.3675 0.0020151 1.6631 0.00099518 5.0307 0.0030103 598.3826258979354 38.916 0.31802 38.916 38.703 39.021 0 21 12 2 0 0 0 0.94099 1 17642 17642 1.6526 0 1 345160 + 1951 17207 1604 1606 1997 1997 0.159280206045878 AVACEDCSCRD 11 Unmodified _AVACEDCSCRD_ 0 0 0 ENSG00000108963|ENST00000263083|DPH1;nc|ENSG00000108963|Q9BZG8-1|DPH1;nc|ENSG00000108963|Q9BZG8-2|DPH1 ENSG00000108963|ENST00000263083|DPH1 ENSG00000108963|ENST00000263083|DPH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.2554931640625 2 586.212466 1170.41038 NaN NaN NaN NaN NaN NaN NaN 93.117 1 93.117 92.617 93.617 0 0 0 0 1.0055 1 49651 49651 3.5965 1.2938 1 1952 1661 1605 1607 1998 1998 -0.16801056427652838 AVADRVIDIT 10 Unmodified _AVADRVIDIT_ 0 0 0 REV__nc|ENSG00000110697|O00562-2|PITPNM1 REV__nc|ENSG00000110697|O00562-2|PITPNM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 358.2059020996094 3 358.204751 1071.59242 NaN NaN NaN NaN NaN NaN NaN 37.057 1 37.057 36.557 37.557 0 0 0 0 0.99976 1 16817 16817 1.9064 0 1 + 1953 11210 1606 1608 1999 1999 0.05949110643427957 AVAGARPRTIL 11 Unmodified _AVAGARPRTIL_ 0 0 0 REV__ENST00000569116.1_1_15:72637785-72638034:-|nuORF REV__ENST00000569116.1_1_15:72637785-72638034:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.8856201171875 2 562.848564 1123.68258 NaN NaN NaN NaN NaN NaN NaN 92.542 1 92.542 92.042 93.042 0 0 0 0 0.9645 1 49202 49202 10.074 2.1638 1 + 1954 17403 1607 1609 2000 2000 0.12568204762510504 AVAHNSLYFGP 11 Unmodified _AVAHNSLYFGP_ 0 0 0 REV__ENSG00000123165|ENST00000371124|ACTRT1 REV__ENSG00000123165|ENST00000371124|ACTRT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.8381958007812 2 588.29583 1174.57711 NaN NaN NaN NaN NaN NaN NaN 97.352 1 97.352 96.852 97.852 0 0 0 0 0.99968 1 52968 52968 6.7232 0 1 + 1955 11607 1608 1610 2001 2001 -0.0031975615379451483 AVAKDHIRQR 10 Unmodified _AVAKDHIRQR_ 0 0 0 REV__nc|ENSG00000178104|Q5VU43-6|PDE4DIP;REV__nc|ENSG00000178104|Q5VU43-13|PDE4DIP REV__nc|ENSG00000178104|Q5VU43-6|PDE4DIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 597.4190063476562 2 597.34672 1192.67889 NaN NaN NaN NaN NaN NaN NaN 97.224 1 97.224 96.724 97.724 0 0 0 0 0.98866 1 52862 52862 7.2892 1.9923 1 + 1956 13753;18057 1609 1611 2002 2002 0.09025534988609252 AVAKDRSPSR 10 Unmodified _AVAKDRSPSR_ 0 0 0 REV__ENSG00000187080|ENST00000366480|OR2AK2 REV__ENSG00000187080|ENST00000366480|OR2AK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.8065185546875 2 543.804354 1085.59415 NaN NaN NaN NaN NaN NaN NaN 89.336 1 89.336 88.836 89.836 0 0 0 0 0.95221 1 46625 46625 13.042 0.51092 1 + 1957 14084 1610 1612 2003 2003 0.054781644520289774 AVAPEERPSM 10 Unmodified _AVAPEERPSM_ 0 0 0 ENSG00000139718|ENST00000604567|SETD1B;nc|ENSG00000139718|Q9UPS6-2|SETD1B ENSG00000139718|ENST00000604567|SETD1B ENSG00000139718|ENST00000604567|SETD1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.732421875 2 543.766049 1085.51754 NaN NaN NaN NaN NaN NaN NaN 60.062 1 60.811 60.311 61.311 0.74927 0 0 0 0.95544 1 27636 27636 12.532 0.89125 1 1958 3162 1611 1613 2004 2004 -0.021793951594645478 AVAPKRRRARL 11 Unmodified _AVAPKRRRARL_ 0 0 0 REV__ENST00000496112.5_1_7:44240579-44240630:+|nuORF REV__ENST00000496112.5_1_7:44240579-44240630:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.22607421875 2 647.420554 1292.82655 NaN NaN NaN NaN NaN NaN NaN 103.13 1 103.13 102.63 103.63 0 0 0 0 1.0071 1 56869 56869 1.4819 1.1313 1 + 1959 16848 1612 1614 2005 2005 0.1918547131331252 AVARAAAPVLR 11 Unmodified _AVARAAAPVLR_ 0 0 0 ENST00000474602.5_1_9:99381659-99381992:-|nuORF ENST00000474602.5_1_9:99381659-99381992:-|nuORF ENST00000474602.5_1_9:99381659-99381992:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.2833862304688 2 547.843282 1093.67201 NaN NaN NaN NaN NaN NaN NaN 93.197 1 93.283 92.783 93.783 0.086212 0 0 0 0.98464 1 48764 48764 8.1555 1.9497 1 1960 8212 1613 1615 2006 2006 0.1289222210805292 AVARQAIRRRR 11 Unmodified _AVARQAIRRRR_ 0 0 0 REV__ENST00000533093.5_1_8:144921838-144923057:-|nuORF REV__ENST00000533093.5_1_8:144921838-144923057:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 677.0360717773438 2 676.926535 1351.83852 NaN NaN NaN NaN NaN NaN NaN 106.49 1 106.49 105.99 106.99 0 0 0 0 1.0055 1 58471 58471 3.5965 2.1146 1 + 1961 17156 1614 1616 2007 2007 0.17667088056487046 AVASKQGFRRG 11 Unmodified _AVASKQGFRRG_ 0 0 0 REV__ENSG00000169951|ENST00000395091|ZNF764 REV__ENSG00000169951|ENST00000395091|ZNF764 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.77392578125 2 588.833446 1175.65234 NaN NaN NaN NaN NaN NaN NaN 97.436 1 97.506 97.006 98.006 0.070648 0 0 0 0.97845 1 52095 52095 8.7454 2.0222 1 + 1962 13411 1615 1617 2008 2008 0.07153846097321548 AVAVTTRRRKP 11 Unmodified _AVAVTTRRRKP_ 0 0 0 ENST00000321599.8_2_3:49770337-49775792:-|nuORF ENST00000321599.8_2_3:49770337-49775792:-|nuORF ENST00000321599.8_2_3:49770337-49775792:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 627.852783203125 2 627.891295 1253.76804 3.3838 0.0021247 4.0899 0.002568 7.4737 0.0046927 628.3944987890716 94.46 0.039108 94.46 94.443 94.482 0 6 5 2 0 0 0 0.13295 1 50675 50675 2.9952 1.5133 1 14332000 1963 6932 1616 1618 2009 2009 0.1513036994815593 AVAVTTRRRKP 11 Unmodified _AVAVTTRRRKP_ 0 0 0 ENST00000321599.8_2_3:49770337-49775792:-|nuORF ENST00000321599.8_2_3:49770337-49775792:-|nuORF ENST00000321599.8_2_3:49770337-49775792:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 627.891295 1253.76804 2.3746 0.001491 6.9689 0.0043757 9.3435 0.0058667 628.3968563686084 94.063 0.081917 94.149 94.12 94.201 0.086212 -0.16713 0.0010978 NaN 2.9952 11 8 2 NaN NaN NaN NaN 0 NaN NaN 0 5197300 1964 6932 1616 1618 0.1513036994815593 AVAVTTRRRKP 11 Unmodified _AVAVTTRRRKP_ 0 0 0 ENST00000321599.8_2_3:49770337-49775792:-|nuORF ENST00000321599.8_2_3:49770337-49775792:-|nuORF ENST00000321599.8_2_3:49770337-49775792:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 627.891295 1253.76804 3.9876 0.0025038 6.0104 0.0037739 9.9979 0.0062776 627.8955885748156 93.708 0.32565 94.339 94.273 94.599 0.63115 0.022929 -0.00010587 NaN 2.9952 19 15 2 NaN NaN NaN NaN 0 NaN NaN 0 1384500 1965 6932 1616 1618 0.1513036994815593 AVAYYQQAYRH 11 Unmodified _AVAYYQQAYRH_ 0 0 0 nc|ENSG00000104221|Q9HAW0-2|BRF2;ENSG00000104221|ENST00000220659|BRF2 nc|ENSG00000104221|Q9HAW0-2|BRF2 nc|ENSG00000104221|Q9HAW0-2|BRF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.1143188476562 2 685.336018 1368.65748 NaN NaN NaN NaN NaN NaN NaN 92.578 1 92.578 92.078 93.078 0 0 0 0 1.0055 1 49229 49229 3.5965 0 1 1966 1430 1617 1619 2010 2010 -0.01209894830731173 AVCCICMDGEC 11 Unmodified _AVCCICMDGEC_ 0 0 0 nc|ENSG00000100425|O95696|BRD1;ENSG00000100425|ENST00000404760|BRD1 nc|ENSG00000100425|O95696|BRD1 nc|ENSG00000100425|O95696|BRD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.6940307617188 2 573.691466 1145.36838 NaN NaN NaN NaN NaN NaN NaN 85.3 1 85.328 84.828 85.828 0.028603 0 0 0 1.0071 1 42676 42676 1.4819 0 1 1967 1216 1618 1620 2011 2011 -0.19849071432008714 AVDFTQEEWTL 11 Unmodified _AVDFTQEEWTL_ 0 0 0 nc|ENSG00000188321|Q9BR84-2|ZNF559;ZNF426|p.E97Afs*19|1|0.03|ENSG00000130818|chr19:9532880-9532881|-/G|frameshift_variant;ZNF846|p.D202Tfs*16|1|0.24|ENSG00000196605|chr19:9758474-9758474|T/-|frameshift_variant;ENSG00000196605|ENST00000397902|ZNF846;ENSG00000188321|ENST00000603380|ZNF559;ENSG00000130818|ENST00000253115|ZNF426;nc|ENSG00000170100|Q96MU6|ZNF778;ENSG00000170100|ENST00000433976|ZNF778 nc|ENSG00000188321|Q9BR84-2|ZNF559 nc|ENSG00000188321|Q9BR84-2|ZNF559 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 670.3176879882812 2 669.81425 1337.61395 3.6956 0.0024754 -0.070954 -4.7526E-05 3.6246 0.0024278 669.8145229761469 14.453 0.16625 14.453 14.374 14.541 0 30 11 3 0 0 0 0.91068 1 6404 6404 1.3295 0 1 857600 1968 2624 1619 1621 2012 2012 -0.041355491185413484 AVDLTLPKVEA 11 Unmodified _AVDLTLPKVEA_ 0 0 0 nc|ENSG00000196419|P12956-2|XRCC6;ENSG00000196419|ENST00000360079|XRCC6;ENST00000478914.1_1_22:42052971-42057696:+|nuORF;ENST00000518193.1_1_8:63767865-63768189:-|nuORF nc|ENSG00000196419|P12956-2|XRCC6 nc|ENSG00000196419|P12956-2|XRCC6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.3381958007812 2 578.334621 1154.65469 NaN NaN NaN NaN NaN NaN NaN 59.948 1 60.697 60.197 61.197 0.74927 0 0 0 0.94958 1 27556 27556 11.495 2.7493 1 1969 5743 1620 1622 2013 2013 0.0835483699179349 AVDSEDDDDEE 11 Unmodified _AVDSEDDDDEE_ 0 0 0 nc|ENSG00000109756|Q9Y4G8|RAPGEF2;ENSG00000109756|ENST00000691494|RAPGEF2 nc|ENSG00000109756|Q9Y4G8|RAPGEF2 nc|ENSG00000109756|Q9Y4G8|RAPGEF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.6415405273438 2 619.712584 1237.41062 NaN NaN NaN NaN NaN NaN NaN 92.616 1 92.703 92.203 93.203 0.086212 0 0 0 1.0071 1 48320 48320 1.4819 0 1 1970 1684 1621 1623 2014 2014 -0.1985936342146033 AVEHLHEL 8 Unmodified _AVEHLHEL_ 0 0 0 REV__ENSG00000178965|ENST00000326665|ERICH3 REV__ENSG00000178965|ENST00000326665|ERICH3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.2520751953125 2 474.250892 946.48723 2.7379 0.0012985 0.20904 9.9139E-05 2.947 0.0013976 474.25091551309373 32.397 0.45799 33.185 33.017 33.475 0.78795 83 35 3 0 0 0 0.13778 1 14637 14637 49.669 5.8106 1 3862500 + 1971 13775 1622 1624 2015 2015 0.011846142376612079 AVEHLHEL 8 Unmodified _AVEHLHEL_ 0 0 0 REV__ENSG00000178965|ENST00000326665|ERICH3 REV__ENSG00000178965|ENST00000326665|ERICH3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 474.250892 946.48723 2.7477 0.0013031 0.050774 2.408E-05 2.7985 0.0013272 474.25094802410104 33.412 0.28682 33.412 33.271 33.558 0 0.073078 -0.00020277 NaN 49.669 58 34 2 NaN NaN NaN NaN 0 NaN NaN 0 4240800 + 1972 13775 1622 1624 0.011846142376612079 AVEHLHEL 8 Unmodified _AVEHLHEL_ 0 0 0 REV__ENSG00000178965|ENST00000326665|ERICH3 REV__ENSG00000178965|ENST00000326665|ERICH3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 474.250892 946.48723 2.7379 0.0012985 0.20904 9.9139E-05 2.947 0.0013976 474.25091551309373 32.397 0.45799 33.185 33.017 33.475 0.78795 -0.15381 -5.2646E-05 NaN 49.669 83 35 3 NaN NaN NaN NaN 0 NaN NaN 0 3862500 + 1973 13775 1622 1624 0.011846142376612079 AVEHLHEL 8 Unmodified _AVEHLHEL_ 0 0 0 REV__ENSG00000178965|ENST00000326665|ERICH3 REV__ENSG00000178965|ENST00000326665|ERICH3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 474.250892 946.48723 3.0859 0.0014635 0.19003 9.012E-05 3.2759 0.0015536 474.25097857606454 33.179 0.47042 33.433 33.232 33.702 0.25389 0.094206 -7.0685E-05 NaN 49.669 54 21 3 NaN NaN NaN NaN 0 NaN NaN 0 3024000 + 1974 13775 1622 1624 0.011846142376612079 AVEHLHEL 8 Unmodified _AVEHLHEL_ 0 0 0 REV__ENSG00000178965|ENST00000326665|ERICH3 REV__ENSG00000178965|ENST00000326665|ERICH3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 474.250892 946.48723 2.9482 0.0013982 0.58089 0.00027549 3.5291 0.0016737 474.2511117031156 32.707 0.45449 33.325 33.097 33.551 0.61831 -0.013479 0.00030005 NaN 49.669 60 19 4 NaN NaN NaN NaN 0 NaN NaN 0 2582900 + 1975 13775 1622 1624 0.011846142376612079 AVEKKPIPRIK 11 Unmodified _AVEKKPIPRIK_ 0 0 0 nc|ENSG00000138336|Q8NFU7-3|TET1;ENSG00000138336|ENST00000373644|TET1;nc|ENSG00000138336|Q8NFU7-2|TET1 nc|ENSG00000138336|Q8NFU7-3|TET1 nc|ENSG00000138336|Q8NFU7-3|TET1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 639.9163818359375 2 639.916447 1277.81834 NaN NaN NaN NaN NaN NaN NaN 42.095 1 42.903 42.403 43.403 0.80855 0 0 0 1.0057 1 19112 19112 3.2813 0.28607 1 1976 3085 1623 1625 2016 2016 0.19054479553301462 AVEQRNRLIRF 11 Unmodified _AVEQRNRLIRF_ 0 0 0 REV__nc|ENSG00000157510|Q8TED9-2|AFAP1L1 REV__nc|ENSG00000157510|Q8TED9-2|AFAP1L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 701.884521484375 2 701.407309 1400.80007 NaN NaN NaN NaN NaN NaN NaN 36.747 1 36.747 36.247 37.247 0 0 0 0 1.0071 1 16678 16678 1.4819 0.15237 1 + 1977 12804 1624 1626 2017 2017 0.1156973763129372 AVEVSISSK 9 Unmodified _AVEVSISSK_ 0 0 0 REV__ENSG00000143061|ENST00000369486|IGSF3 REV__ENSG00000143061|ENST00000369486|IGSF3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 919.3126220703125 1 919.509488 918.502212 3.2916 0.0030267 -0.32983 -0.00030328 2.9618 0.0027234 919.5089302126786 87.278 0.064133 87.278 87.24 87.304 0 9 8 2 0 0 0 0.096132 1 44969 44969 6.2058 1.4498 1 20047000 + 1978 12353 1625 1627 2018 2018 0.039700613149989294 AVFGALFIVLK 11 Unmodified _AVFGALFIVLK_ 0 0 0 REV__ENSG00000110108|ENST00000227525|TMEM109 REV__ENSG00000110108|ENST00000227525|TMEM109 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.371826171875 2 589.37081 1176.72707 NaN NaN NaN NaN NaN NaN NaN 102.63 1 102.69 102.19 103.19 0.055092 0 0 0 1.0079 1 55708 55708 0.35063 0 1 + 1979 11197 1626 1628 2019 2019 0.14577215855979375 AVFGRQRAIM 10 Unmodified _AVFGRQRAIM_ 0 0 0 nc|ENSG00000100445|Q9NRG7-3|SDR39U1;ENSG00000100445|ENST00000399395|SDR39U1 nc|ENSG00000100445|Q9NRG7-3|SDR39U1 nc|ENSG00000100445|Q9NRG7-3|SDR39U1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.995849609375 2 574.821492 1147.62843 NaN NaN NaN NaN NaN NaN NaN 93.548 1 93.634 93.134 94.134 0.086212 0 0 0 0.99225 1 49034 49034 6.7232 0.99131 1 1980 1220 1627 1629 2020 2020 0.06052289339277195 AVFIRKGTA 9 Unmodified _AVFIRKGTA_ 0 0 0 REV__ENST00000372991.8_1_6:41902903-41903062:-|nuORF REV__ENST00000372991.8_1_6:41902903-41903062:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 321.5320739746094 3 321.53091 961.5709 2.4333 0.00078237 0.86161 0.00027703 3.2949 0.0010594 321.53093748010275 29.328 0.25344 29.588 29.45 29.704 0.2602 32 16 3 0 0 0 0.3144 1 13321 13321 10.8 0 1 443570 + 1981 15762 1628 1630 2021 2021 0.08857770405359133 AVFLLAIFWKR 11 Unmodified _AVFLLAIFWKR_ 0 0 0 ENSG00000100170|ENST00000266088|SLC5A1;nc|ENSG00000100170|P13866-2|SLC5A1 ENSG00000100170|ENST00000266088|SLC5A1 ENSG00000100170|ENST00000266088|SLC5A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 682.4163818359375 2 682.416083 1362.81761 NaN NaN NaN NaN NaN NaN NaN 88.765 1 88.765 88.265 89.265 0 0 0 0 1.0059 1 46156 46156 2.9952 0.49676 1 1982 1184 1629 1631 2022 2022 0.15071684904228277 AVFPLMPVV 9 Unmodified _AVFPLMPVV_ 0 0 0 ENSG00000197563|ENST00000640252|PIGN ENSG00000197563|ENST00000640252|PIGN ENSG00000197563|ENST00000640252|PIGN MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.75836181640625 2 486.782982 971.55141 3.2926 0.0016028 -0.96081 -0.0004677 2.3318 0.0011351 486.782440547814 81.243 0.37729 81.903 81.665 82.042 0.65998 38 21 3 0 0 0 0.10319 1 37438 37438 5.2307 5.2307 1 1151000 1983 5827 1630 1632 2023 2023 0.06449678070259779 AVGRQMAVL 9 Unmodified _AVGRQMAVL_ 0 0 0 REV__nc|ENSG00000106123|O15197-2|EPHB6 REV__nc|ENSG00000106123|O15197-2|EPHB6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.77239990234375 2 472.770937 943.527321 3.2124 0.0015187 0.10582 5.0028E-05 3.3182 0.0015687 472.7710438205686 12.934 0.21911 13.577 13.48 13.699 0.64272 8 6 2 0 0 0 0.20384 1 5811 5811 23.148 2.2772 1 163320 + 1984 11074 1631 1633 2024 2024 0.05329837636577395 AVHLVRLLLLV 11 Unmodified _AVHLVRLLLLV_ 0 0 0 REV__ENST00000558791.5_1_15:44719859-44751301:+|nuORF REV__ENST00000558791.5_1_15:44719859-44751301:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 623.4559936523438 2 623.423908 1244.83326 NaN NaN NaN NaN NaN NaN NaN 59.82 1 60.569 60.069 61.069 0.74927 0 0 0 1.008 1 27489 27489 0.35063 0.35063 1 + 1985 17350 1632 1634 2025 2025 0.2206397142131209 AVHPTGTK 8 Unmodified _AVHPTGTK_ 0 0 0 ENST00000351365.7_1_18:77663978-77709700:-|nuORF;nc|ENSG00000122490|Q8N2U9-2|SLC66A2;ENSG00000122490|ENST00000397778|SLC66A2 ENST00000351365.7_1_18:77663978-77709700:-|nuORF ENST00000351365.7_1_18:77663978-77709700:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 810.338134765625 1 810.446828 809.439552 3.2843 0.0026618 3.8307 0.0031045 7.115 0.0057663 810.4513965497117 89.094 0.16558 89.094 89.052 89.218 0 32 26 2 0 0 0 0.13972 1 46469 46469 2.0598 0 1 42404000 1986 2271 1633 1635 2026 2026 0.027209600374817455 AVIDWEDWRPV 11 Unmodified _AVIDWEDWRPV_ 0 0 0 ENST00000481597.5_1_3:50356335-50357944:-|nuORF;ENSG00000068001|ENST00000357750|HYAL2 ENST00000481597.5_1_3:50356335-50357944:-|nuORF ENST00000481597.5_1_3:50356335-50357944:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 693.3530883789062 2 693.346052 1384.67755 NaN NaN NaN NaN NaN NaN NaN 97.006 1 97.076 96.576 97.576 0.070648 0 0 0 1.0055 1 51725 51725 3.5965 0.60125 1 1987 730 1634 1636 2027 2027 0.0005985610921470652 AVIKIRFFK 9 Unmodified _AVIKIRFFK_ 0 0 0 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.3621215820312 2 561.363319 1120.71209 NaN NaN NaN NaN NaN NaN NaN 90.996 1 90.996 90.496 91.496 0 0 0 0 0.89509 1 47942 47942 4.756 0.42677 1 1988 1315 1635 1637 2028 2028 0.1565576877865169 AVIKIRFFK 9 Unmodified _AVIKIRFFK_ 0 0 0 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.328369140625 2 561.363319 1120.71209 3.6958 0.0020747 1.1364 0.00063795 4.8322 0.0027126 561.3640402245207 42.333 0.078785 42.98 42.956 43.035 0.64693 9 5 2 0 0 0 0.11434 1 19395 19395 0 0 1 699440 1989 1315 1635 1637 2029 2029 0.1565576877865169 AVIKIRFFKI 10 Unmodified _AVIKIRFFKI_ 0 0 0 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 412.2760009765625 3 412.27266 1233.79615 NaN NaN NaN NaN NaN NaN NaN 49.416 1 49.416 48.916 49.916 0 0 0 0 1.0011 1 22629 22629 0.77653 0.078866 1 1990 1315 1636 1638 2030 2030 0.18860299875564124 AVIKIRFFKI 10 Unmodified _AVIKIRFFKI_ 0 0 0 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 309.45782470703125 4 309.456314 1233.79615 2.1735 0.0006726 1.2446 0.00038516 3.4181 0.0010578 309.4567153319141 44.574 0.46651 45.395 45.192 45.659 0.82075 39 22 2 0 0 0 0.94364 1 20312 20312 0.15932 0 1 808250 1991 1315 1636 1638 2031 2031 0.18860299875564124 AVIKIRFFKI 10 Unmodified _AVIKIRFFKI_ 0 0 0 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 309.52490234375 4 309.456314 1233.79615 2.3608 0.00073056 0.33057 0.0001023 2.6914 0.00083286 309.7072191451827 29.772 0.12642 30.562 30.538 30.664 0.78921 13 9 2 0 0 0 0.12676 1 13424 13424 0.69767 0.69767 1 525990 1992 1315 1636 1638 2032 2032 0.18860299875564124 AVIKIRFFKI 10 Unmodified _AVIKIRFFKI_ 0 0 0 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 309.53704833984375 4 309.456314 1233.79615 2.3309 0.00072132 1.3023 0.00040301 3.6332 0.0011243 309.456721309603 36.105 0.55812 36.896 36.637 37.195 0.79132 31 22 2 0 0 0 0.12676 1 16253 16253 0.15932 0 1 256870 1993 1315 1636 1638 2033 2033 0.18860299875564124 AVIKIRFFKI 10 Unmodified _AVIKIRFFKI_ 0 0 0 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 309.457275390625 4 309.456314 1233.79615 2.0533 0.00063542 1.1349 0.0003512 3.1882 0.00098662 309.4565550126948 44.721 0.53411 44.989 44.697 45.231 0.26768 43 25 3 0 0 0 0.94099 1 20435 20435 0.69767 0.69767 1 2059900 1994 1315 1636 1638 2034 2034 0.18860299875564124 AVIKIRFFKI 10 Unmodified _AVIKIRFFKI_ 0 0 0 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 309.5251770019531 4 309.456314 1233.79615 2.1557 0.0006671 0.021843 6.7596E-06 2.1775 0.00067386 309.7071323655767 30.079 0.096918 30.696 30.657 30.754 0.61737 9 7 2 0 0 0 0.12676 1 13824 13824 0.15932 0.15932 1 936200 1995 1315 1636 1638 2035 2035 0.18860299875564124 AVIKIRFFKI 10 Unmodified _AVIKIRFFKI_ 0 0 0 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 309.456314 1233.79615 1.8673 0.00057786 1.4359 0.00044436 3.3033 0.0010222 309.45670808378753 45.286 0.76004 45.286 45.129 45.889 0 0.063019 0.00017654 NaN 0.69767 58 38 3 NaN NaN NaN NaN 0 NaN NaN 0 1035200 1996 1315 1636 1638 0.18860299875564124 AVIKIRFFKI 10 Unmodified _AVIKIRFFKI_ 0 0 0 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 309.456314 1233.79615 2.1735 0.0006726 1.2446 0.00038516 3.4181 0.0010578 309.4567153319141 44.574 0.46651 45.395 45.192 45.659 0.82075 0.17132 -6.024E-05 NaN 0.69767 39 22 2 NaN NaN NaN NaN 0 NaN NaN 0 808250 1997 1315 1636 1638 0.18860299875564124 AVIKIRFFKI 10 Unmodified _AVIKIRFFKI_ 0 0 0 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 ENSG00000101850|ENST00000467482|GPR143 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 309.456314 1233.79615 2.4919 0.00077114 0.54886 0.00016985 3.0408 0.00094098 309.4565352337984 30.018 0.16285 30.276 30.199 30.362 0.25804 -0.2355 0.00027361 NaN 0.69767 19 15 2 NaN NaN NaN NaN 0 NaN NaN 0 481160 1998 1315 1636 1638 0.18860299875564124 AVIKSIRRKER 11 Unmodified _AVIKSIRRKER_ 0 0 0 ENSG00000157502|ENST00000357175|PWWP3B ENSG00000157502|ENST00000357175|PWWP3B ENSG00000157502|ENST00000357175|PWWP3B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 678.6956176757812 2 678.433327 1354.8521 NaN NaN NaN NaN NaN NaN NaN 95.805 1 95.805 95.305 96.305 0 0 0 0 1.0038 1 51692 51692 5.7319 2.1354 1 1999 3953 1637 1639 2036 2036 0.18886901045061677 AVILWRVQRRR 11 Unmodified _AVILWRVQRRR_ 0 0 0 ENST00000336097.7_1_17:49238605-49239168:+|nuORF ENST00000336097.7_1_17:49238605-49239168:+|nuORF ENST00000336097.7_1_17:49238605-49239168:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 727.0390625 2 726.954761 1451.89497 4.1525 0.0030187 -1.6083 -0.0011692 2.5442 0.0018495 727.4564703637208 94.86 0.12637 95.477 95.416 95.542 0.61736 7 5 2 0 0 0 0.9102 1 43610 43610 1.4819 0 1 1173900 2000 7029 1638 1640 2037 2037 0.18709715893123757 AVINDLHGEGP 11 Unmodified _AVINDLHGEGP_ 0 0 0 ENST00000531005.5_1_11:65638277-65638940:-|nuORF;ENSG00000172638|ENST00000307998|EFEMP2 ENST00000531005.5_1_11:65638277-65638940:-|nuORF;ENSG00000172638|ENST00000307998|EFEMP2 ENST00000531005.5_1_11:65638277-65638940:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.2824096679688 2 561.28292 1120.55129 NaN NaN NaN NaN NaN NaN NaN 88.921 1 88.973 88.473 89.473 0.052155 0 0 0 0.9645 1 45440 45440 10.074 2.1638 1 2001 8721;4880 1639 1641 2038 2038 -0.004166503960277623 AVISITLSRSS 11 Unmodified _AVISITLSRSS_ 0 0 0 REV__nc|ENSG00000006611|Q9Y6N9-3|USH1C REV__nc|ENSG00000006611|Q9Y6N9-3|USH1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.83349609375 2 567.32987 1132.64519 3.7251 0.0021133 -0.090249 -5.1201E-05 3.6348 0.0020621 567.3297413726835 86.782 0.75046 87.031 86.891 87.642 0.24974 75 36 3 0 0 0 0.91111 1 40031 40031 1.1933 1.1933 1 1561000 + 2002 10193 1640 1642 2039 2039 0.08417068706239661 AVKEKWKRVFC 11 Unmodified _AVKEKWKRVFC_ 0 0 0 REV__nc|ENSG00000266967|Q9BTE6-2|AARSD1 REV__nc|ENSG00000266967|Q9BTE6-2|AARSD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 697.3993530273438 2 697.392282 1392.77001 NaN NaN NaN NaN NaN NaN NaN 94.938 1 94.938 94.438 95.438 0 0 0 0 1.0059 1 51024 51024 2.9952 1.5133 1 + 2003 18156 1641 1643 2040 2040 0.08933662641766205 AVKEQITKFFL 11 Unmodified _AVKEQITKFFL_ 0 0 0 ENSG00000164070|ENST00000296464|HSPA4L ENSG00000164070|ENST00000296464|HSPA4L ENSG00000164070|ENST00000296464|HSPA4L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.9287109375 3 441.927218 1322.75982 2.8301 0.0012507 0.98175 0.00043386 3.8118 0.0016846 441.92766490907235 49.831 0.30699 49.831 49.646 49.953 0 29 14 3 0 0 0 0.89544 1 22831 22831 2.6312 0.72486 1 1255400 2004 4281 1642 1644 2041 2041 0.11135378188168943 AVKEQITKFFL 11 Unmodified _AVKEQITKFFL_ 0 0 0 ENSG00000164070|ENST00000296464|HSPA4L ENSG00000164070|ENST00000296464|HSPA4L ENSG00000164070|ENST00000296464|HSPA4L MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 441.927218 1322.75982 2.8301 0.0012507 0.98175 0.00043386 3.8118 0.0016846 441.92766490907235 49.831 0.30699 49.831 49.646 49.953 0 -0.024718 0.00074424 NaN 2.6312 29 14 3 NaN NaN NaN NaN 0 NaN NaN 0 1255400 2005 4281 1642 1644 0.11135378188168943 AVKEQITKFFL 11 Unmodified _AVKEQITKFFL_ 0 0 0 ENSG00000164070|ENST00000296464|HSPA4L ENSG00000164070|ENST00000296464|HSPA4L ENSG00000164070|ENST00000296464|HSPA4L MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 441.927218 1322.75982 2.8335 0.0012522 0.22829 0.00010089 3.0618 0.0013531 441.9273445128899 48.982 0.23095 49.809 49.662 49.893 0.82705 -0.046454 -0.00025468 NaN 2.6312 22 12 2 NaN NaN NaN NaN 0 NaN NaN 0 539830 2006 4281 1642 1644 0.11135378188168943 AVKGLRVAI 9 Unmodified _AVKGLRVAI_ 0 0 0 REV__ENST00000479183.6_1_1:53364812-53370512:-|nuORF REV__ENST00000479183.6_1_1:53364812-53370512:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.78485107421875 2 463.810919 925.607286 2.7129 0.0012583 0.041567 1.9279E-05 2.7545 0.0012776 463.81073531145677 33.043 0.26523 33.661 33.503 33.768 0.61831 19 13 2 0 0 0 0.068676 1 15121 15121 21.747 5.8995 1 532040 + 2007 11553 1643 1645 2042 2042 0.1415064730207405 AVKKEEKCVPP 11 Unmodified _AVKKEEKCVPP_ 0 0 0 nc|ENSG00000108021|Q5VWN6-2|TASOR2;ENSG00000108021|ENST00000695737|TASOR2 nc|ENSG00000108021|Q5VWN6-2|TASOR2 nc|ENSG00000108021|Q5VWN6-2|TASOR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.9108276367188 2 614.341923 1226.66929 NaN NaN NaN NaN NaN NaN NaN 85.344 1 85.344 84.844 85.844 0 0 0 0 1.005 1 43432 43432 4.1895 0.24511 1 2008 1619 1644 1646 2043 2043 0.06502585868247479 AVKKRRFPINR 11 Unmodified _AVKKRRFPINR_ 0 0 0 nc|ENSG00000187790|Q8IYD8-3|FANCM;ENSG00000187790|ENST00000267430|FANCM nc|ENSG00000187790|Q8IYD8-3|FANCM nc|ENSG00000187790|Q8IYD8-3|FANCM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 692.8905029296875 2 692.936037 1383.85752 NaN NaN NaN NaN NaN NaN NaN 91.724 1 91.806 91.306 92.306 0.082848 0 0 0 1.0071 1 47614 47614 1.4819 0 1 2009 5637 1645 1647 2044 2044 0.1809462462756528 AVKRKIQAL 9 Unmodified _AVKRKIQAL_ 0 0 0 ENST00000587201.5_1_19:16187360-16198908:+|nuORF;ENSG00000167460|ENST00000643579|TPM4 ENST00000587201.5_1_19:16187360-16198908:+|nuORF ENST00000587201.5_1_19:16187360-16198908:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 342.8982849121094 3 342.897593 1025.67095 2.5607 0.00087805 -0.54565 -0.0001871 2.015 0.00069094 342.89744668987896 12.535 0.078744 12.535 12.496 12.575 0 16 6 3 0 0 0 0.034495 1 5453 5453 53.833 21.047 1 13480000 2010 4552 1646 1648 2045 2045 0.15914007739161207 AVKRKIQAL 9 Unmodified _AVKRKIQAL_ 0 0 0 ENST00000587201.5_1_19:16187360-16198908:+|nuORF;ENSG00000167460|ENST00000643579|TPM4 ENST00000587201.5_1_19:16187360-16198908:+|nuORF ENST00000587201.5_1_19:16187360-16198908:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.8982849121094 3 342.897593 1025.67095 1.8216 0.00062463 -0.46302 -0.00015877 1.3586 0.00046586 342.8974610645599 12.406 0.044119 12.668 12.651 12.695 0.26154 10 4 3 0 0 0 0.034495 1 5361 5361 53.833 21.047 1 17945000 2011 4552 1646 1648 2046 2046 0.15914007739161207 AVKRKIQAL 9 Unmodified _AVKRKIQAL_ 0 0 0 ENST00000587201.5_1_19:16187360-16198908:+|nuORF;ENSG00000167460|ENST00000643579|TPM4 ENST00000587201.5_1_19:16187360-16198908:+|nuORF ENST00000587201.5_1_19:16187360-16198908:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 342.8984680175781 3 342.897593 1025.67095 1.6947 0.00058109 -0.58628 -0.00020103 1.1084 0.00038006 342.8973631851906 12.407 0.061019 12.715 12.672 12.733 0.30727 13 4 4 0 0 0 0.024388 1 5579 5579 62.573 29.787 1 40955000 2012 4552 1646 1648 2047 2047 0.15914007739161207 AVKRKIQAL 9 Unmodified _AVKRKIQAL_ 0 0 0 ENST00000587201.5_1_19:16187360-16198908:+|nuORF;ENSG00000167460|ENST00000643579|TPM4 ENST00000587201.5_1_19:16187360-16198908:+|nuORF ENST00000587201.5_1_19:16187360-16198908:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 342.8984375 3 342.897593 1025.67095 2.7441 0.00094096 -0.28867 -9.8984E-05 2.4555 0.00084197 342.897491316048 12.383 0.072437 13.021 12.989 13.062 0.63746 11 4 3 0 0 0 0.29523 1 5554 5554 17.113 4.8722 1 42971000 2013 4552 1646 1648 2048 2048 0.15914007739161207 AVKRKIQVL 9 Unmodified _AVKRKIQVL_ 0 0 0 ENST00000424846.3_1_19:53945061-53945193:+|nuORF;ENST00000473036.2_1_1:154145382-154155604:-|nuORF;nc|ENSG00000143549|P06753-4|TPM3;nc|ENSG00000143549|P06753-3|TPM3;nc|ENSG00000143549|P06753-6|TPM3;nc|ENSG00000143549|P06753-5|TPM3;nc|ENSG00000143549|P06753-2|TPM3 ENST00000424846.3_1_19:53945061-53945193:+|nuORF ENST00000424846.3_1_19:53945061-53945193:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.24249267578125 3 352.241359 1053.70225 2.3106 0.00081388 -0.66295 -0.00023352 1.6476 0.00058036 352.2411269176888 14.217 0.092219 14.524 14.501 14.593 0.3069 10 6 2 0 0 0 0.053453 1 6432 6432 45.7 14.431 1 2455900 2014 7788 1647 1649 2049 2049 0.177545807732713 AVKRLISFLF 10 Unmodified _AVKRLISFLF_ 0 0 0 REV__nc|ENSG00000137216|Q5T3F8-2|TMEM63B REV__nc|ENSG00000137216|Q5T3F8-2|TMEM63B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.58648681640625 3 398.585015 1192.73321 2.5767 0.001027 0.98005 0.00039063 3.5567 0.0014177 398.58551930483077 45.301 0.40623 46.127 45.995 46.401 0.82621 53 24 3 0 0 0 0.9406 1 20650 20650 0.77653 0.078866 1 1139100 + 2015 12103 1648 1650 2050 2050 0.14455734087505334 AVKSKAPLTP 10 Unmodified _AVKSKAPLTP_ 0 0 0 THE1B-int_dup2461|chr9:39963661-39965204:+|1.814289323776622|0.4033997191753589|2.17|537.0|47|1|anti-sense THE1B-int_dup2461|chr9:39963661-39965204:+|1.814289323776622|0.4033997191753589|2.17|537.0|47|1|anti-sense THE1B-int_dup2461|chr9:39963661-39965204:+|1.814289323776622|0.4033997191753589|2.17|537.0|47|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.3147277832031 2 506.313492 1010.61243 NaN NaN NaN NaN NaN NaN NaN 64.173 1 64.421 63.921 64.921 0.24803 0 0 0 0.99846 1 29391 29391 2.9952 0.93549 1 2016 18265 1649 1651 2051 2051 0.1075490637402936 AVKVVVRCRP 10 Unmodified _AVKVVVRCRP_ 0 0 0 ENSG00000117245|ENST00000400463|KIF17;nc|ENSG00000117245|Q9P2E2|KIF17 ENSG00000117245|ENST00000400463|KIF17 ENSG00000117245|ENST00000400463|KIF17 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.23822021484375 3 376.234099 1125.68047 NaN NaN NaN NaN NaN NaN NaN 64.226 1 64.474 63.974 64.974 0.24803 0 0 0 0.99976 1 29415 29415 1.9064 0.1641 1 2017 2065 1650 1652 2052 2052 0.12265452753058526 AVLEQKRQLLL 11 Unmodified _AVLEQKRQLLL_ 0 0 0 REV__ENST00000369332.7_1_6:91226367-91228183:-|nuORF REV__ENST00000369332.7_1_6:91226367-91228183:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 655.4596557617188 2 655.911362 1309.80817 NaN NaN NaN NaN NaN NaN NaN 97.148 1 97.148 96.648 97.648 0 0 0 0 1.0038 1 52794 52794 5.7319 0 1 + 2018 12010 1651 1653 2053 2053 0.16565871828106538 AVLFIFWVTLR 11 Unmodified _AVLFIFWVTLR_ 0 0 0 REV__ENSG00000205213|ENST00000379214|LGR4 REV__ENSG00000205213|ENST00000379214|LGR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 682.9099731445312 2 682.908091 1363.80163 NaN NaN NaN NaN NaN NaN NaN 95.372 1 95.454 94.954 95.954 0.082001 0 0 0 1.0059 1 50393 50393 2.9952 1.5133 1 + 2019 14455 1652 1654 2054 2054 0.13427978667368734 AVLKKTTL 8 Unmodified _AVLKKTTL_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1;EMC1|p.L153H|1|0.07|ENSG00000127463|chr1:19242396-19242396|A/T|missense_variant nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2930603027344 2 437.292028 872.569503 2.6539 0.0011605 0.52268 0.00022856 3.1766 0.0013891 437.2922274766208 14.779 0.28053 15.086 14.965 15.246 0.3069 42 23 2 0 0 0 0.31901 2 6710 6664;6710 34.102 7.2188 1 175830 2020 2480 1653 1655 2055;2056 2056 0.12812136316620126 AVLKKTTL 8 Unmodified _AVLKKTTL_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1;EMC1|p.L153H|1|0.07|ENSG00000127463|chr1:19242396-19242396|A/T|missense_variant nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2937927246094 2 437.292028 872.569503 3.1435 0.0013746 0.62475 0.0002732 3.7683 0.0016478 437.2921707355731 14.818 0.28153 15.472 15.362 15.644 0.65356 42 23 2 0 0 0 0.21358 2 6694 6653;6694 41.84 11.203 1 271830 2021 2480 1653 1655 2057;2058 2058 0.12812136316620126 AVLKRLKKEE 10 Unmodified _AVLKRLKKEE_ 0 0 0 nc|ENSG00000258659|Q9BYJ4-2|TRIM34;ENST00000491385.1_1_11:5653561-5662456:+|nuORF;ENSG00000258659|ENST00000429814|TRIM34 nc|ENSG00000258659|Q9BYJ4-2|TRIM34 nc|ENSG00000258659|Q9BYJ4-2|TRIM34 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.24786376953125 3 405.259079 1212.75541 NaN NaN NaN NaN NaN NaN NaN 75.085 1 75.749 75.249 76.249 0.6644 0 0 0 0.99995 1 34583 34583 1.7423 0 1 2022 6300 1654 1656 2059 2059 0.15753913765297511 AVLLPPVMLLI 11 Unmodified _AVLLPPVMLLI_ 0 0 0 ENSG00000091947|ENST00000206380|TMEM101 ENSG00000091947|ENST00000206380|TMEM101 ENSG00000091947|ENST00000206380|TMEM101 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.8848876953125 2 589.882696 1177.75084 NaN NaN NaN NaN NaN NaN NaN 94.245 1 94.245 93.745 94.745 0 0 0 0 1.0055 1 50500 50500 3.5965 1.5367 1 2023 1086 1655 1657 2060 2060 0.16907313298156623 AVLLQGLIRRY 11 Unmodified _AVLLQGLIRRY_ 0 0 0 REV__nc|ENSG00000168386|Q4L180-2|FILIP1L REV__nc|ENSG00000168386|Q4L180-2|FILIP1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 651.3699340820312 2 651.406247 1300.79794 NaN NaN NaN NaN NaN NaN NaN 90.584 1 90.584 90.084 91.084 0 0 0 0 1.0057 1 47649 47649 3.2813 1.4371 1 + 2024 13346 1656 1658 2061 2061 0.15957308893507616 AVLQITKIIY 10 Unmodified _AVLQITKIIY_ 0 0 0 nc|ENSG00000164209|Q96AG3-2|SLC25A46;nc|ENSG00000164209|Q96AG3-3|SLC25A46;ENSG00000164209|ENST00000355943|SLC25A46 nc|ENSG00000164209|Q96AG3-2|SLC25A46 nc|ENSG00000164209|Q96AG3-2|SLC25A46 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.2447509765625 2 581.365724 1160.7169 NaN NaN NaN NaN NaN NaN NaN 94.134 1 94.134 93.634 94.634 0 0 0 0 0.96109 1 50411 50411 11.64 5.9084 1 2025 4296 1657 1659 2062 2062 0.14296608130757704 AVLRRFFLRIG 11 Unmodified _AVLRRFFLRIG_ 0 0 0 ENST00000518290.1_1_8:68111171-68111339:-|nuORF;ENSG00000066777|ENST00000262215|ARFGEF1 ENST00000518290.1_1_8:68111171-68111339:-|nuORF ENST00000518290.1_1_8:68111171-68111339:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 674.1251220703125 2 674.422231 1346.82991 NaN NaN NaN NaN NaN NaN NaN 85.278 1 85.307 84.807 85.807 0.028603 0 0 0 1.0057 1 42661 42661 3.2813 1.4371 1 2026 713 1658 1660 2063 2063 0.17036721367298924 AVLWLWSSHNR 11 Unmodified _AVLWLWSSHNR_ 0 0 0 ENSG00000116260|ENST00000367602|QSOX1;nc|ENSG00000116260|O00391-2|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 685.0345458984375 2 684.862203 1367.70985 NaN NaN NaN NaN NaN NaN NaN 90.312 1 90.387 89.887 90.887 0.075279 0 0 0 1.0055 1 46507 46507 3.5965 0.31518 1 2027 2023 1659 1661 2064 2064 0.04070688302886083 AVMMKDMI 8 Unmodified _AVMMKDMI_ 0 0 0 REV__ENSG00000153187|ENST00000640218|HNRNPU REV__ENSG00000153187|ENST00000640218|HNRNPU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 939.05029296875 1 938.450793 937.443516 3.186 0.0029899 -1.3188 -0.0012376 1.8673 0.0017523 938.4516948656373 82.635 0.024803 82.635 82.62 82.645 0 5 3 2 0 0 0 0.7471 1 41433 41433 0.79363 0 1 9927700 + 2028 12672 1660 1662 2065 2065 -0.027707778469903133 AVMRRDQSL 9 Unmodified _AVMRRDQSL_ 0 0 0 ENSG00000101182|ENST00000370873|PSMA7;ENST00000484488.5_1_20:60711915-60714832:-|nuORF;nc|ENSG00000101182|O14818-2|PSMA7 ENSG00000101182|ENST00000370873|PSMA7 ENSG00000101182|ENST00000370873|PSMA7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.19451904296875 3 359.19408 1074.56041 2.1165 0.00076024 -0.31455 -0.00011298 1.802 0.00064726 359.1940032668282 13.381 0.25064 13.688 13.571 13.822 0.30727 32 18 3 0 0 0 0.21127 1 6019 6019 22.658 5.2154 1 140280 2029 1268 1661 1663 2066 2066 0.0261141968865104 AVMRRDQSL 9 Unmodified _AVMRRDQSL_ 0 0 0 ENSG00000101182|ENST00000370873|PSMA7;ENST00000484488.5_1_20:60711915-60714832:-|nuORF;nc|ENSG00000101182|O14818-2|PSMA7 ENSG00000101182|ENST00000370873|PSMA7 ENSG00000101182|ENST00000370873|PSMA7 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 359.19408 1074.56041 2.6328 0.00094567 -0.30675 -0.00011018 2.326 0.00083549 359.52816860803995 14.059 0.088448 14.059 14.005 14.094 0 0.18532 5.0846E-06 NaN 22.658 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 229770 2030 1268 1661 1663 0.0261141968865104 AVNGILHFIDR 11 Unmodified _AVNGILHFIDR_ 0 0 0 ENSG00000010327|ENST00000321725|STAB1;ENST00000481626.5_1_3:52552822-52553423:+|nuORF ENSG00000010327|ENST00000321725|STAB1 ENSG00000010327|ENST00000321725|STAB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 627.89892578125 2 627.851304 1253.68806 NaN NaN NaN NaN NaN NaN NaN 95.215 1 95.483 94.983 95.983 0.2675 0 0 0 0.99038 1 43750 43750 7.609 0 1 2031 400 1662 1664 2067 2067 0.07135883554315114 AVPHRATV 8 Unmodified _AVPHRATV_ 0 0 0 ENST00000565356.5_1_16:68349816-68386396:+|nuORF;PRMT7|p.N490Tfs*21|1|0.35|ENSG00000132600|chr16:68352302-68352302|A/-|frameshift_variant;nc|ENSG00000132600|Q9NVM4-2|PRMT7;nc|ENSG00000132600|Q9NVM4-4|PRMT7;nc|ENSG00000132600|Q9NVM4-3|PRMT7;ENSG00000132600|ENST00000441236|PRMT7 ENST00000565356.5_1_16:68349816-68386396:+|nuORF ENST00000565356.5_1_16:68349816-68386396:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 425.7499084472656 2 425.748319 849.482085 2.8998 0.0012346 -0.0128 -5.4495E-06 2.887 0.0012291 425.7483321257547 34.587 0.20841 34.841 34.728 34.936 0.25389 14 8 2 0 0 0 0.60101 1 15756 15756 13.906 2.2658 1 643490 2032 2713 1663 1665 2068 2068 0.05132355165710578 AVPKFDQNL 9 Unmodified _AVPKFDQNL_ 0 0 0 ENSG00000136943|ENST00000259470|CTSV ENSG00000136943|ENST00000259470|CTSV ENSG00000136943|ENST00000259470|CTSV MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.5218505859375 3 344.522192 1030.54475 1.9202 0.00066154 -1.1318 -0.00038993 0.78836 0.00027161 344.52140976866394 13.091 0.27524 13.398 13.187 13.463 0.30727 27 12 3 0 0 0 0.75535 1 5909 5909 8.1555 0.8663 1 137850 2033 2992 1664 1666 2069 2069 0.030694564432451443 AVPRTWVQRG 10 Unmodified _AVPRTWVQRG_ 0 0 0 ENST00000317204.10_1_11:1297294-1297405:-|nuORF ENST00000317204.10_1_11:1297294-1297405:-|nuORF ENST00000317204.10_1_11:1297294-1297405:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.596923828125 2 585.330539 1168.64652 NaN NaN NaN NaN NaN NaN NaN 83.205 1 83.205 82.705 83.705 0 0 0 0 0.97102 1 41861 41861 10.074 1.3285 1 2034 6912 1665 1667 2070 2070 0.06894747585647565 AVQKWFFLRVW 11 Unmodified _AVQKWFFLRVW_ 0 0 0 REV__nc|ENSG00000115525|Q9UNP4-2|ST3GAL5 REV__nc|ENSG00000115525|Q9UNP4-2|ST3GAL5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 740.5263671875 2 740.416614 1478.81868 NaN NaN NaN NaN NaN NaN NaN 91.284 1 91.359 90.859 91.859 0.075279 0 0 0 1.0038 1 47266 47266 5.7319 4.4023 1 + 2035 11370 1666 1668 2071 2071 0.09841899273146737 AVQSEIFLHES 11 Unmodified _AVQSEIFLHES_ 0 0 0 ENSG00000183060|ENST00000684762|LYSMD4;nc|ENSG00000183060|Q5XG99-2|LYSMD4 ENSG00000183060|ENST00000684762|LYSMD4 ENSG00000183060|ENST00000684762|LYSMD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 630.2742919921875 2 630.31696 1258.61937 NaN NaN NaN NaN NaN NaN NaN 96.918 1 96.918 96.418 97.418 0 0 0 0 1.0041 1 52590 52590 5.2969 1.3525 1 2036 5360 1667 1669 2072 2072 0.00040174463970288343 AVRGAHQRLHR 11 Unmodified _AVRGAHQRLHR_ 0 0 0 REV__ENST00000456793.1_1_2:27293574-27294501:-|nuORF REV__ENST00000456793.1_1_2:27293574-27294501:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 651.0201416015625 2 650.876511 1299.73847 NaN NaN NaN NaN NaN NaN NaN 98.274 1 98.873 98.373 99.373 0.59885 0 0 0 1.0038 1 45289 45289 5.7319 0 1 + 2037 16456 1668 1670 2073 2073 0.1005885072268029 AVRGRRRRGRR 11 Unmodified _AVRGRRRRGRR_ 0 0 0 REV__ENST00000393203.2_1_1:117452739-117484357:+|nuORF REV__ENST00000393203.2_1_1:117452739-117484357:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 698.4414672851562 2 698.440675 1394.8668 NaN NaN NaN NaN NaN NaN NaN 93.564 1 93.651 93.151 94.151 0.086212 0 0 0 1.008 1 49049 49049 0.35063 0 1 + 2038 15943 1669 1671 2074 2074 0.18515830756405194 AVRKRWHRWQ 10 Unmodified _AVRKRWHRWQ_ 0 0 0 nc|ENSG00000106113|Q13324-3|CRHR2;nc|ENSG00000106113|Q13324-7|CRHR2;ENSG00000106113|ENST00000471646|CRHR2;nc|ENSG00000106113|Q13324-2|CRHR2 nc|ENSG00000106113|Q13324-3|CRHR2 nc|ENSG00000106113|Q13324-3|CRHR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 711.9026489257812 2 711.902528 1421.7905 NaN NaN NaN NaN NaN NaN NaN 95.025 1 95.107 94.607 95.607 0.082001 0 0 0 0.99983 1 50139 50139 1.8442 0.36234 1 2039 1553 1670 1672 2075 2075 0.09648014136428174 AVRLLILILKL 11 Unmodified _AVRLLILILKL_ 0 0 0 ENST00000569650.1_1_7:72469123-72470067:-|nuORF;ENST00000359898.5_7:74299379-74304447:-|nuORF;nc|ENSG00000205583|P0CL83|STAG3L1 ENST00000569650.1_1_7:72469123-72470067:-|nuORF ENST00000569650.1_1_7:72469123-72470067:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 632.9091186523438 2 632.957584 1263.90061 NaN NaN NaN NaN NaN NaN NaN 98.724 1 99.321 98.821 99.821 0.59748 0 0 0 1.0071 1 45554 45554 1.4819 1.1313 1 2040 7207 1671 1673 2076 2076 0.2792200163225971 AVRPALILILK 11 Unmodified _AVRPALILILK_ 0 0 0 nc|ENSG00000144406|Q8N2C7-7|UNC80;nc|ENSG00000144406|Q8N2C7|UNC80;ENSG00000144406|ENST00000673920|UNC80;nc|ENSG00000144406|Q8N2C7-5|UNC80;nc|ENSG00000144406|Q8N2C7-2|UNC80;nc|ENSG00000144406|Q8N2C7-4|UNC80;nc|ENSG00000144406|Q8N2C7-6|UNC80;ENST00000489023.5_1_2:210693994-210832362:+|nuORF nc|ENSG00000144406|Q8N2C7-7|UNC80 nc|ENSG00000144406|Q8N2C7-7|UNC80 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 603.5678100585938 2 603.918458 1205.82236 NaN NaN NaN NaN NaN NaN NaN 97.758 1 97.758 97.258 98.258 0 0 0 0 1.008 1 53322 53322 0.35063 0 1 2041 3424 1672 1674 2077 2077 0.22768569047025267 AVRRCSRLLLQ 11 Unmodified _AVRRCSRLLLQ_ 0 0 0 ENST00000509792.1_1_4:176987041-176989385:+|nuORF ENST00000509792.1_1_4:176987041-176989385:+|nuORF ENST00000509792.1_1_4:176987041-176989385:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 657.9014282226562 2 657.89298 1313.77141 NaN NaN NaN NaN NaN NaN NaN 106 1 106 105.5 106.5 0 0 0 0 1.0047 1 58232 58232 4.5289 0.33936 1 2042 8547 1673 1675 2078 2078 0.12707296730536655 AVRRQWDKHFH 11 Unmodified _AVRRQWDKHFH_ 0 0 0 REV__ENST00000484610.5_1_16:89627367-89627911:+|nuORF REV__ENST00000484610.5_1_16:89627367-89627911:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.930908203125 3 493.928726 1478.76435 NaN NaN NaN NaN NaN NaN NaN 91.628 1 91.711 91.211 92.211 0.082848 0 0 0 1.0071 1 47536 47536 0.50596 0 1 + 2043 13290 1674 1676 2079 2079 0.04411700174296129 AVRYWRRKTF 10 Unmodified _AVRYWRRKTF_ 0 0 0 ENST00000488349.1_1_2:175260903-175262068:+|nuORF ENST00000488349.1_1_2:175260903-175262068:+|nuORF ENST00000488349.1_1_2:175260903-175262068:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 691.7608642578125 2 691.893838 1381.77312 NaN NaN NaN NaN NaN NaN NaN 97.569 1 97.569 97.069 98.069 0 0 0 0 0.99774 1 53148 53148 3.5965 0.8613 1 2044 8364 1675 1677 2080 2080 0.09750673810776789 AVTGKIRTRLI 11 Unmodified _AVTGKIRTRLI_ 0 0 0 ENSG00000135298|ENST00000370598|ADGRB3 ENSG00000135298|ENST00000370598|ADGRB3 ENSG00000135298|ENST00000370598|ADGRB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 614.4476928710938 2 614.398422 1226.78229 NaN NaN NaN NaN NaN NaN NaN 91.975 1 92.058 91.558 92.558 0.082848 0 0 0 1.0073 1 47808 47808 1.1933 0 1 2045 2860 1676 1678 2081 2081 0.17797022376453242 AVTGLVFYRLC 11 Unmodified _AVTGLVFYRLC_ 0 0 0 REV__nc|ENSG00000172046|O94966|USP19 REV__nc|ENSG00000172046|O94966|USP19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 414.5635681152344 3 414.561881 1240.66381 2.6501 0.0010986 0.30939 0.00012826 2.9595 0.0012269 414.56271547302424 14.156 0.22712 14.382 14.261 14.488 0.22622 25 20 2 0 0 0 0.81464 1 6225 6225 2.8433 0.75932 1 181190 + 2046 18049 1677 1679 2082 2082 0.05310907076454896 AVVAEIKNLII 11 Unmodified _AVVAEIKNLII_ 0 0 0 REV__ENST00000394464.6_1_5:142660044-142660128:-|nuORF REV__ENST00000394464.6_1_5:142660044-142660128:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.6465454101562 2 591.876456 1181.73836 NaN NaN NaN NaN NaN NaN NaN 91.497 1 91.58 91.08 92.08 0.082848 0 0 0 1.0061 1 47436 47436 2.7352 0 1 + 2047 15967 1678 1680 2083 2083 0.15475993159475365 AVVIVVLVLV 10 Unmodified _AVVIVVLVLV_ 0 0 0 REV__ENST00000487222.5_1_7:100401085-100421908:-|nuORF REV__ENST00000487222.5_1_7:100401085-100421908:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.361572265625 2 512.362453 1022.71035 NaN NaN NaN NaN NaN NaN NaN 85.497 1 85.497 84.997 85.997 0 0 0 0 0.99983 1 43545 43545 1.8442 0 1 + 2048 14213 1679 1681 2084 2084 0.19990714970026602 AVVIVVLVLV 10 Unmodified _AVVIVVLVLV_ 0 0 0 REV__ENST00000487222.5_1_7:100401085-100421908:-|nuORF REV__ENST00000487222.5_1_7:100401085-100421908:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.9940185546875 2 512.362453 1022.71035 NaN NaN NaN NaN NaN NaN NaN 85.55 1 85.55 85.05 86.05 0 0 0 0 0.99983 1 43592 43592 1.8442 0 1 + 2049 14213 1679 1681 2085 2085 0.19990714970026602 AVVKEIIHCKS 11 Unmodified _AVVKEIIHCKS_ 0 0 0 ENSG00000120658|ENST00000690772|ENOX1;ENST00000482207.1_1_13:43933927-43935475:-|nuORF ENSG00000120658|ENST00000690772|ENOX1 ENSG00000120658|ENST00000690772|ENOX1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.3544921875 2 613.849916 1225.68528 3.2722 0.0020086 -0.76697 -0.00047081 2.5052 0.0015378 614.3491819009993 91.372 0.046959 91.372 91.339 91.386 0 7 5 2 0 0 0 0.13295 1 48244 48244 9.3831 1.2276 1 4854000 2050 2202 1680 1682 2086 2086 0.08146292105175235 AVVKFKKLLR 10 Unmodified _AVVKFKKLLR_ 0 0 0 REV__nc|ENSG00000151779|A2RRP1-2|NBAS REV__nc|ENSG00000151779|A2RRP1-2|NBAS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 601.2317504882812 2 601.410801 1200.80705 NaN NaN NaN NaN NaN NaN NaN 95.884 1 96.492 95.992 96.992 0.60769 0 0 0 1.0015 1 44090 44090 0.45834 0.10771 1 + 2051 12630 1681 1683 2087 2087 0.21467702249833565 AVVLLPLLPR 10 Unmodified _AVVLLPLLPR_ 0 0 0 REV__AGRN|p.G616Vfs*7|1|0.26|ENSG00000188157|chr1:1043867-1043871|GCAGG/-|frameshift_variant REV__AGRN|p.G616Vfs*7|1|0.26|ENSG00000188157|chr1:1043867-1043871|GCAGG/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.7780151367188 2 545.870977 1089.7274 NaN NaN NaN NaN NaN NaN NaN 94.572 1 94.572 94.072 95.072 0 0 0 0 0.99983 1 50761 50761 1.8442 1.2427 1 + 2052 9934 1682 1684 2088 2088 0.18612635575823333 AVWKMATL 8 Unmodified _AVWKMATL_ 0 0 0 ENST00000399580.2_1_X:83004518-83004785:-|nuORF ENST00000399580.2_1_X:83004518-83004785:-|nuORF ENST00000399580.2_1_X:83004518-83004785:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 307.1745910644531 3 307.173846 918.499709 NaN NaN NaN NaN NaN NaN NaN 66.507 1 66.507 66.007 67.007 0 0 0 0 0.99035 1 31798 31798 3.2813 1.4371 1 2053 7599 1683 1685 2089 2089 0.03719934376340461 AVWRYFRDYFP 11 Unmodified _AVWRYFRDYFP_ 0 0 0 nc|ENSG00000062282|Q96PD7-2|DGAT2;ENSG00000062282|ENST00000228027|DGAT2 nc|ENSG00000062282|Q96PD7-2|DGAT2 nc|ENSG00000062282|Q96PD7-2|DGAT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 760.13427734375 2 760.377686 1518.74082 NaN NaN NaN NaN NaN NaN NaN 96.442 1 96.442 95.942 96.942 0 0 0 0 1.0072 1 52197 52197 1.3295 0.13619 1 2054 653 1684 1686 2090 2090 0.002198416171268036 AVWYYHHCQDR 11 Unmodified _AVWYYHHCQDR_ 0 0 0 ENST00000524795.5_1_15:66587446-66615029:+|nuORF;ENST00000565281.5_1_15:66585934-66615040:+|nuORF;nc|ENSG00000166938|Q8TF46-3|DIS3L;ENST00000564909.5_1_15:66585934-66618751:+|nuORF;nc|ENSG00000166938|Q8TF46-2|DIS3L;nc|ENSG00000166938|Q8TF46-4|DIS3L;ENSG00000166938|ENST00000319212|DIS3L ENST00000524795.5_1_15:66587446-66615029:+|nuORF ENST00000524795.5_1_15:66587446-66615029:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 739.3242797851562 2 739.325128 1476.6357 NaN NaN NaN NaN NaN NaN NaN 88.161 1 88.161 87.661 88.661 0 0 0 0 1.0071 1 45678 45678 1.4819 0 1 2055 4518 1685 1687 2091 2091 -0.08355022850969362 AVYDWMYYPEF 11 Unmodified _AVYDWMYYPEF_ 0 0 0 REV__ENSG00000083097|ENST00000349129|DOP1A REV__ENSG00000083097|ENST00000349129|DOP1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 742.312255859375 2 742.315571 1482.61659 NaN NaN NaN NaN NaN NaN NaN 56.619 1 57.397 56.897 57.897 0.77786 0 0 0 1.008 1 25891 25891 0.35063 0.043601 1 + 2056 10623 1686 1688 2092 2092 -0.10541416985211072 AVYDYTCEENG 11 Unmodified _AVYDYTCEENG_ 0 0 0 REV__nc|ENSG00000157211|Q5VXM1-1|CDCP2 REV__nc|ENSG00000157211|Q5VXM1-1|CDCP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.8343200683594 3 421.832654 1262.47613 NaN NaN NaN NaN NaN NaN NaN 6.0102 1 6.363 5.863 6.863 0.35278 0 0 0 1.008 1 2721 2721 0.094841 0 1 + 2057 12797 1687 1689 2093 2093 -0.1446062070942844 AVYILYLLFLI 11 Unmodified _AVYILYLLFLI_ 0 0 0 ENSG00000146433|ENST00000684151|TMEM181;nc|ENSG00000146433|Q9P2C4-1|TMEM181 ENSG00000146433|ENST00000684151|TMEM181 ENSG00000146433|ENST00000684151|TMEM181 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 670.9152221679688 2 670.91505 1339.81555 NaN NaN NaN NaN NaN NaN NaN 103.62 1 103.62 103.12 104.12 0 0 0 0 1.0071 1 57095 57095 1.4819 0.15237 1 2058 3520 1688 1690 2094 2094 0.1592321137579802 AVYLVECWHCQ 11 Unmodified _AVYLVECWHCQ_ 0 0 0 ENSG00000178233|ENST00000451188|TMEM151B;nc|ENSG00000178233|Q8IW70-2|TMEM151B ENSG00000178233|ENST00000451188|TMEM151B ENSG00000178233|ENST00000451188|TMEM151B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 675.8010864257812 2 675.802108 1349.58966 NaN NaN NaN NaN NaN NaN NaN 96.493 1 96.493 95.993 96.993 0 0 0 0 1.0057 1 52239 52239 3.2813 0 1 2059 5158 1689 1691 2095 2095 -0.07114804077377812 AVYRRYFHWRR 11 Unmodified _AVYRRYFHWRR_ 0 0 0 nc|ENSG00000196371|P22083-2|FUT4;ENSG00000196371|ENST00000358752|FUT4 nc|ENSG00000196371|P22083-2|FUT4 nc|ENSG00000196371|P22083-2|FUT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 805.4365844726562 2 805.434193 1608.85383 NaN NaN NaN NaN NaN NaN NaN 91.016 1 91.016 90.516 91.516 0 0 0 0 1.0082 1 47960 47960 0.35063 0.35063 1 2060 5740 1690 1692 2096 2096 0.07375954853660005 AWAIWKPHLY 10 Unmodified _AWAIWKPHLY_ 0 0 0 ENST00000532385.5_1_11:31392283-31429083:+|nuORF ENST00000532385.5_1_11:31392283-31429083:+|nuORF ENST00000532385.5_1_11:31392283-31429083:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 429.2583923339844 3 428.901114 1283.68151 2.4181 0.0010371 -2.425 -0.0010401 -0.0068624 -2.9433E-06 428.90025731688104 72.483 0.20114 73.147 73.03 73.231 0.66398 38 26 2 0 0 0 0.12676 1 33247 33247 2.086 0.17963 1 972650 2061 8734 1691 1693 2097 2097 0.051019903936094124 AWAPKPYHKF 10 Unmodified _AWAPKPYHKF_ 0 0 0 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000141503|Q8N4C8-2|MINK1;nc|ENSG00000141503|Q8N4C8-3|MINK1;nc|ENSG00000141503|Q8N4C8-4|MINK1;ENSG00000141503|ENST00000355280|MINK1;ENST00000459881.1_1_3:170784284-170789158:-|nuORF;ENST00000484051.5_1_3:170784284-170800202:-|nuORF;nc|ENSG00000154310|Q9UKE5-8|TNIK;nc|ENSG00000154310|Q9UKE5-5|TNIK;nc|ENSG00000154310|Q9UKE5-7|TNIK;nc|ENSG00000154310|Q9UKE5-3|TNIK;nc|ENSG00000154310|Q9UKE5-6|TNIK;nc|ENSG00000154310|Q9UKE5-2|TNIK;nc|ENSG00000154310|Q9UKE5-4|TNIK;ENSG00000154310|ENST00000436636|TNIK;nc|ENSG00000071054|O95819-4|MAP4K4;nc|ENSG00000071054|O95819|MAP4K4;nc|ENSG00000071054|O95819-5|MAP4K4;nc|ENSG00000071054|O95819-2|MAP4K4;nc|ENSG00000071054|O95819-6|MAP4K4;nc|ENSG00000071054|O95819-3|MAP4K4;ENSG00000071054|ENST00000324219|MAP4K4 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000071054|O95819-4|MAP4K4 nc|ENSG00000071054|O95819-4|MAP4K4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 415.5586242675781 3 415.557348 1243.65021 2.8852 0.001199 -0.0057862 -2.4045E-06 2.8794 0.0011966 415.5572804058442 26.367 0.31306 26.367 26.213 26.526 0 119 38 4 0 0 0 0.18812 3 11859 11813;11859;11903 40.725 32.569 1 8086100 2062 9558;3262 1692 1694 2098;2099;2100 2099 0.038134173594926324 AWAPKPYHKF 10 Unmodified _AWAPKPYHKF_ 0 0 0 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000141503|Q8N4C8-2|MINK1;nc|ENSG00000141503|Q8N4C8-3|MINK1;nc|ENSG00000141503|Q8N4C8-4|MINK1;ENSG00000141503|ENST00000355280|MINK1;ENST00000459881.1_1_3:170784284-170789158:-|nuORF;ENST00000484051.5_1_3:170784284-170800202:-|nuORF;nc|ENSG00000154310|Q9UKE5-8|TNIK;nc|ENSG00000154310|Q9UKE5-5|TNIK;nc|ENSG00000154310|Q9UKE5-7|TNIK;nc|ENSG00000154310|Q9UKE5-3|TNIK;nc|ENSG00000154310|Q9UKE5-6|TNIK;nc|ENSG00000154310|Q9UKE5-2|TNIK;nc|ENSG00000154310|Q9UKE5-4|TNIK;ENSG00000154310|ENST00000436636|TNIK;nc|ENSG00000071054|O95819-4|MAP4K4;nc|ENSG00000071054|O95819|MAP4K4;nc|ENSG00000071054|O95819-5|MAP4K4;nc|ENSG00000071054|O95819-2|MAP4K4;nc|ENSG00000071054|O95819-6|MAP4K4;nc|ENSG00000071054|O95819-3|MAP4K4;ENSG00000071054|ENST00000324219|MAP4K4 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000071054|O95819-4|MAP4K4 nc|ENSG00000071054|O95819-4|MAP4K4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 312.1710510253906 4 311.91983 1243.65021 2.1202 0.00066134 0.30162 9.408E-05 2.4218 0.00075542 311.9199033454653 26.352 0.23401 26.352 26.251 26.485 0 70 28 3 0 0 0 0.51485 2 11885 11839;11885 20.581 15.865 1 2628000 2063 9558;3262 1692 1694 2101;2102 2102 0.038134173594926324 AWAPKPYHKF 10 Unmodified _AWAPKPYHKF_ 0 0 0 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000141503|Q8N4C8-2|MINK1;nc|ENSG00000141503|Q8N4C8-3|MINK1;nc|ENSG00000141503|Q8N4C8-4|MINK1;ENSG00000141503|ENST00000355280|MINK1;ENST00000459881.1_1_3:170784284-170789158:-|nuORF;ENST00000484051.5_1_3:170784284-170800202:-|nuORF;nc|ENSG00000154310|Q9UKE5-8|TNIK;nc|ENSG00000154310|Q9UKE5-5|TNIK;nc|ENSG00000154310|Q9UKE5-7|TNIK;nc|ENSG00000154310|Q9UKE5-3|TNIK;nc|ENSG00000154310|Q9UKE5-6|TNIK;nc|ENSG00000154310|Q9UKE5-2|TNIK;nc|ENSG00000154310|Q9UKE5-4|TNIK;ENSG00000154310|ENST00000436636|TNIK;nc|ENSG00000071054|O95819-4|MAP4K4;nc|ENSG00000071054|O95819|MAP4K4;nc|ENSG00000071054|O95819-5|MAP4K4;nc|ENSG00000071054|O95819-2|MAP4K4;nc|ENSG00000071054|O95819-6|MAP4K4;nc|ENSG00000071054|O95819-3|MAP4K4;ENSG00000071054|ENST00000324219|MAP4K4 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000071054|O95819-4|MAP4K4 nc|ENSG00000071054|O95819-4|MAP4K4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 415.89300537109375 3 415.557348 1243.65021 2.5184 0.0010466 0.43386 0.00018029 2.9523 0.0012268 415.55747077197424 25.322 0.36949 26.085 25.886 26.256 0.76356 123 33 5 0 0 0 0.17471 4 11343 11296;11343;11392;11436 42.312 42.312 1 8227300 2064 9558;3262 1692 1694 2103;2104;2105;2106 2104 0.038134173594926324 AWAPKPYHKF 10 Unmodified _AWAPKPYHKF_ 0 0 0 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000141503|Q8N4C8-2|MINK1;nc|ENSG00000141503|Q8N4C8-3|MINK1;nc|ENSG00000141503|Q8N4C8-4|MINK1;ENSG00000141503|ENST00000355280|MINK1;ENST00000459881.1_1_3:170784284-170789158:-|nuORF;ENST00000484051.5_1_3:170784284-170800202:-|nuORF;nc|ENSG00000154310|Q9UKE5-8|TNIK;nc|ENSG00000154310|Q9UKE5-5|TNIK;nc|ENSG00000154310|Q9UKE5-7|TNIK;nc|ENSG00000154310|Q9UKE5-3|TNIK;nc|ENSG00000154310|Q9UKE5-6|TNIK;nc|ENSG00000154310|Q9UKE5-2|TNIK;nc|ENSG00000154310|Q9UKE5-4|TNIK;ENSG00000154310|ENST00000436636|TNIK;nc|ENSG00000071054|O95819-4|MAP4K4;nc|ENSG00000071054|O95819|MAP4K4;nc|ENSG00000071054|O95819-5|MAP4K4;nc|ENSG00000071054|O95819-2|MAP4K4;nc|ENSG00000071054|O95819-6|MAP4K4;nc|ENSG00000071054|O95819-3|MAP4K4;ENSG00000071054|ENST00000324219|MAP4K4 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000071054|O95819-4|MAP4K4 nc|ENSG00000071054|O95819-4|MAP4K4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 311.9205627441406 4 311.91983 1243.65021 2.0704 0.0006458 0.41093 0.00012818 2.4813 0.00077397 311.91990448860287 25.302 0.3341 26.065 25.898 26.232 0.76356 87 30 4 0 0 0 0.51485 2 11344 11344;11394 20.581 14.713 1 2334000 2065 9558;3262 1692 1694 2107;2108 2107 0.038134173594926324 AWAPKPYHKF 10 Unmodified _AWAPKPYHKF_ 0 0 0 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000141503|Q8N4C8-2|MINK1;nc|ENSG00000141503|Q8N4C8-3|MINK1;nc|ENSG00000141503|Q8N4C8-4|MINK1;ENSG00000141503|ENST00000355280|MINK1;ENST00000459881.1_1_3:170784284-170789158:-|nuORF;ENST00000484051.5_1_3:170784284-170800202:-|nuORF;nc|ENSG00000154310|Q9UKE5-8|TNIK;nc|ENSG00000154310|Q9UKE5-5|TNIK;nc|ENSG00000154310|Q9UKE5-7|TNIK;nc|ENSG00000154310|Q9UKE5-3|TNIK;nc|ENSG00000154310|Q9UKE5-6|TNIK;nc|ENSG00000154310|Q9UKE5-2|TNIK;nc|ENSG00000154310|Q9UKE5-4|TNIK;ENSG00000154310|ENST00000436636|TNIK;nc|ENSG00000071054|O95819-4|MAP4K4;nc|ENSG00000071054|O95819|MAP4K4;nc|ENSG00000071054|O95819-5|MAP4K4;nc|ENSG00000071054|O95819-2|MAP4K4;nc|ENSG00000071054|O95819-6|MAP4K4;nc|ENSG00000071054|O95819-3|MAP4K4;ENSG00000071054|ENST00000324219|MAP4K4 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000071054|O95819-4|MAP4K4 nc|ENSG00000071054|O95819-4|MAP4K4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 622.8364868164062 2 622.832383 1243.65021 NaN NaN NaN NaN NaN NaN NaN 25.298 1 26.062 25.562 26.562 0.76356 0 0 0 0.26632 1 11352 11352 47.749 38.366 1 2066 9558;3262 1692 1694 2109 2109 0.038134173594926324 AWAPKPYHKF 10 Unmodified _AWAPKPYHKF_ 0 0 0 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000141503|Q8N4C8-2|MINK1;nc|ENSG00000141503|Q8N4C8-3|MINK1;nc|ENSG00000141503|Q8N4C8-4|MINK1;ENSG00000141503|ENST00000355280|MINK1;ENST00000459881.1_1_3:170784284-170789158:-|nuORF;ENST00000484051.5_1_3:170784284-170800202:-|nuORF;nc|ENSG00000154310|Q9UKE5-8|TNIK;nc|ENSG00000154310|Q9UKE5-5|TNIK;nc|ENSG00000154310|Q9UKE5-7|TNIK;nc|ENSG00000154310|Q9UKE5-3|TNIK;nc|ENSG00000154310|Q9UKE5-6|TNIK;nc|ENSG00000154310|Q9UKE5-2|TNIK;nc|ENSG00000154310|Q9UKE5-4|TNIK;ENSG00000154310|ENST00000436636|TNIK;nc|ENSG00000071054|O95819-4|MAP4K4;nc|ENSG00000071054|O95819|MAP4K4;nc|ENSG00000071054|O95819-5|MAP4K4;nc|ENSG00000071054|O95819-2|MAP4K4;nc|ENSG00000071054|O95819-6|MAP4K4;nc|ENSG00000071054|O95819-3|MAP4K4;ENSG00000071054|ENST00000324219|MAP4K4 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000071054|O95819-4|MAP4K4 nc|ENSG00000071054|O95819-4|MAP4K4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 415.5586242675781 3 415.557348 1243.65021 2.9843 0.0012401 -0.053823 -2.2367E-05 2.9305 0.0012178 415.55724262013035 26.256 0.35803 26.521 26.379 26.737 0.26489 96 29 4 0 0 0 0.12269 2 11931 11886;11931 49.527 38.628 1 2648100 2067 9558;3262 1692 1694 2110;2111 2111 0.038134173594926324 AWAPKPYHKF 10 Unmodified _AWAPKPYHKF_ 0 0 0 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000141503|Q8N4C8-2|MINK1;nc|ENSG00000141503|Q8N4C8-3|MINK1;nc|ENSG00000141503|Q8N4C8-4|MINK1;ENSG00000141503|ENST00000355280|MINK1;ENST00000459881.1_1_3:170784284-170789158:-|nuORF;ENST00000484051.5_1_3:170784284-170800202:-|nuORF;nc|ENSG00000154310|Q9UKE5-8|TNIK;nc|ENSG00000154310|Q9UKE5-5|TNIK;nc|ENSG00000154310|Q9UKE5-7|TNIK;nc|ENSG00000154310|Q9UKE5-3|TNIK;nc|ENSG00000154310|Q9UKE5-6|TNIK;nc|ENSG00000154310|Q9UKE5-2|TNIK;nc|ENSG00000154310|Q9UKE5-4|TNIK;ENSG00000154310|ENST00000436636|TNIK;nc|ENSG00000071054|O95819-4|MAP4K4;nc|ENSG00000071054|O95819|MAP4K4;nc|ENSG00000071054|O95819-5|MAP4K4;nc|ENSG00000071054|O95819-2|MAP4K4;nc|ENSG00000071054|O95819-6|MAP4K4;nc|ENSG00000071054|O95819-3|MAP4K4;ENSG00000071054|ENST00000324219|MAP4K4 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000071054|O95819-4|MAP4K4 nc|ENSG00000071054|O95819-4|MAP4K4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 415.5584716796875 3 415.557348 1243.65021 2.8941 0.0012026 0.15382 6.3921E-05 3.0479 0.0012666 415.55732296160517 25.96 0.34132 26.585 26.41 26.752 0.62505 85 26 4 0 0 0 0.17471 2 11913 11864;11913 42.312 33.868 1 3474500 2068 9558;3262 1692 1694 2112;2113 2113 0.038134173594926324 AWAPKPYHKF 10 Unmodified _AWAPKPYHKF_ 0 0 0 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000141503|Q8N4C8-2|MINK1;nc|ENSG00000141503|Q8N4C8-3|MINK1;nc|ENSG00000141503|Q8N4C8-4|MINK1;ENSG00000141503|ENST00000355280|MINK1;ENST00000459881.1_1_3:170784284-170789158:-|nuORF;ENST00000484051.5_1_3:170784284-170800202:-|nuORF;nc|ENSG00000154310|Q9UKE5-8|TNIK;nc|ENSG00000154310|Q9UKE5-5|TNIK;nc|ENSG00000154310|Q9UKE5-7|TNIK;nc|ENSG00000154310|Q9UKE5-3|TNIK;nc|ENSG00000154310|Q9UKE5-6|TNIK;nc|ENSG00000154310|Q9UKE5-2|TNIK;nc|ENSG00000154310|Q9UKE5-4|TNIK;ENSG00000154310|ENST00000436636|TNIK;nc|ENSG00000071054|O95819-4|MAP4K4;nc|ENSG00000071054|O95819|MAP4K4;nc|ENSG00000071054|O95819-5|MAP4K4;nc|ENSG00000071054|O95819-2|MAP4K4;nc|ENSG00000071054|O95819-6|MAP4K4;nc|ENSG00000071054|O95819-3|MAP4K4;ENSG00000071054|ENST00000324219|MAP4K4 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000071054|O95819-4|MAP4K4 nc|ENSG00000071054|O95819-4|MAP4K4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 622.8349609375 2 622.832383 1243.65021 3.6121 0.0022497 0.70495 0.00043906 4.317 0.0026888 622.8329672925239 25.949 0.14441 26.574 26.53 26.675 0.62505 20 11 2 0 0 0 0.28348 1 11906 11906 34.402 32.119 1 355980 2069 9558;3262 1692 1694 2114 2114 0.038134173594926324 AWAPKPYHKF 10 Unmodified _AWAPKPYHKF_ 0 0 0 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000141503|Q8N4C8-2|MINK1;nc|ENSG00000141503|Q8N4C8-3|MINK1;nc|ENSG00000141503|Q8N4C8-4|MINK1;ENSG00000141503|ENST00000355280|MINK1;ENST00000459881.1_1_3:170784284-170789158:-|nuORF;ENST00000484051.5_1_3:170784284-170800202:-|nuORF;nc|ENSG00000154310|Q9UKE5-8|TNIK;nc|ENSG00000154310|Q9UKE5-5|TNIK;nc|ENSG00000154310|Q9UKE5-7|TNIK;nc|ENSG00000154310|Q9UKE5-3|TNIK;nc|ENSG00000154310|Q9UKE5-6|TNIK;nc|ENSG00000154310|Q9UKE5-2|TNIK;nc|ENSG00000154310|Q9UKE5-4|TNIK;ENSG00000154310|ENST00000436636|TNIK;nc|ENSG00000071054|O95819-4|MAP4K4;nc|ENSG00000071054|O95819|MAP4K4;nc|ENSG00000071054|O95819-5|MAP4K4;nc|ENSG00000071054|O95819-2|MAP4K4;nc|ENSG00000071054|O95819-6|MAP4K4;nc|ENSG00000071054|O95819-3|MAP4K4;ENSG00000071054|ENST00000324219|MAP4K4 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000071054|O95819-4|MAP4K4 nc|ENSG00000071054|O95819-4|MAP4K4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 622.832383 1243.65021 3.6931 0.0023002 -0.12913 -8.0424E-05 3.5639 0.0022197 622.832345948307 26.246 0.1525 26.511 26.49 26.643 0.26489 -0.031443 -0.00045705 NaN 34.402 16 12 2 NaN NaN NaN NaN 0 NaN NaN 0 206350 2070 9558;3262 1692 1694 0.038134173594926324 AWAPKPYHKF 10 Unmodified _AWAPKPYHKF_ 0 0 0 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000141503|Q8N4C8-2|MINK1;nc|ENSG00000141503|Q8N4C8-3|MINK1;nc|ENSG00000141503|Q8N4C8-4|MINK1;ENSG00000141503|ENST00000355280|MINK1;ENST00000459881.1_1_3:170784284-170789158:-|nuORF;ENST00000484051.5_1_3:170784284-170800202:-|nuORF;nc|ENSG00000154310|Q9UKE5-8|TNIK;nc|ENSG00000154310|Q9UKE5-5|TNIK;nc|ENSG00000154310|Q9UKE5-7|TNIK;nc|ENSG00000154310|Q9UKE5-3|TNIK;nc|ENSG00000154310|Q9UKE5-6|TNIK;nc|ENSG00000154310|Q9UKE5-2|TNIK;nc|ENSG00000154310|Q9UKE5-4|TNIK;ENSG00000154310|ENST00000436636|TNIK;nc|ENSG00000071054|O95819-4|MAP4K4;nc|ENSG00000071054|O95819|MAP4K4;nc|ENSG00000071054|O95819-5|MAP4K4;nc|ENSG00000071054|O95819-2|MAP4K4;nc|ENSG00000071054|O95819-6|MAP4K4;nc|ENSG00000071054|O95819-3|MAP4K4;ENSG00000071054|ENST00000324219|MAP4K4 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000071054|O95819-4|MAP4K4 nc|ENSG00000071054|O95819-4|MAP4K4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 311.91983 1243.65021 2.29 0.0007143 0.35484 0.00011068 2.6449 0.00082498 311.91995833084496 26.261 0.31642 26.526 26.388 26.704 0.26489 0.15061 -1.801E-05 NaN 20.581 71 26 4 NaN NaN NaN NaN 0 NaN NaN 0 1171000 2071 9558;3262 1692 1694 0.038134173594926324 AWAPKPYHKF 10 Unmodified _AWAPKPYHKF_ 0 0 0 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000141503|Q8N4C8-2|MINK1;nc|ENSG00000141503|Q8N4C8-3|MINK1;nc|ENSG00000141503|Q8N4C8-4|MINK1;ENSG00000141503|ENST00000355280|MINK1;ENST00000459881.1_1_3:170784284-170789158:-|nuORF;ENST00000484051.5_1_3:170784284-170800202:-|nuORF;nc|ENSG00000154310|Q9UKE5-8|TNIK;nc|ENSG00000154310|Q9UKE5-5|TNIK;nc|ENSG00000154310|Q9UKE5-7|TNIK;nc|ENSG00000154310|Q9UKE5-3|TNIK;nc|ENSG00000154310|Q9UKE5-6|TNIK;nc|ENSG00000154310|Q9UKE5-2|TNIK;nc|ENSG00000154310|Q9UKE5-4|TNIK;ENSG00000154310|ENST00000436636|TNIK;nc|ENSG00000071054|O95819-4|MAP4K4;nc|ENSG00000071054|O95819|MAP4K4;nc|ENSG00000071054|O95819-5|MAP4K4;nc|ENSG00000071054|O95819-2|MAP4K4;nc|ENSG00000071054|O95819-6|MAP4K4;nc|ENSG00000071054|O95819-3|MAP4K4;ENSG00000071054|ENST00000324219|MAP4K4 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000071054|O95819-4|MAP4K4 nc|ENSG00000071054|O95819-4|MAP4K4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 311.91983 1243.65021 2.0363 0.00063516 0.40631 0.00012674 2.4426 0.0007619 311.9199143772816 25.933 0.2297 26.558 26.457 26.687 0.62505 0.18314 4.6202E-05 NaN 20.581 47 17 3 NaN NaN NaN NaN 0 NaN NaN 0 706880 2072 9558;3262 1692 1694 0.038134173594926324 AWDLVPLRA 9 Unmodified _AWDLVPLRA_ 0 0 0 REV__nc|ENSG00000172782|Q8N9I5-2|FADS6 REV__nc|ENSG00000172782|Q8N9I5-2|FADS6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 347.5357360839844 3 347.534431 1039.58147 2.3247 0.0008079 0.99937 0.00034731 3.324 0.0011552 347.53481127699433 47.765 0.41903 47.765 47.665 48.084 0 63 26 3 0 0 0 0.94779 1 21911 21911 4.897 0.36815 1 4759400 + 2073 13562 1693 1695 2115 2115 0.06325753059786621 AWFQYIMMKQ 10 Unmodified _AWFQYIMMKQ_ 0 0 0 ENST00000408901.7_1_14:23945328-23945483:+|nuORF ENST00000408901.7_1_14:23945328-23945483:+|nuORF ENST00000408901.7_1_14:23945328-23945483:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 673.3396606445312 2 673.325219 1344.63589 NaN NaN NaN NaN NaN NaN NaN 91.407 1 91.483 90.983 91.983 0.075279 0 0 0 1.0003 1 47364 47364 1.4819 0 1 2074 7649 1694 1696 2116 2116 -0.02264739175302566 AWHPHTNKF 9 Unmodified _AWHPHTNKF_ 0 0 0 ENSG00000094914|ENST00000209873|AAAS;ENST00000546393.6_1_12:53708449-53708909:-|nuORF ENSG00000094914|ENST00000209873|AAAS ENSG00000094914|ENST00000209873|AAAS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.85870361328125 3 379.857797 1136.55156 2.7866 0.0010585 0.47254 0.0001795 3.2592 0.001238 379.8579943699847 16.191 0.93056 16.191 15.636 16.566 0 173 111 2 0 0 0 1.0894 7 7075 6989;7075;7116;7159;7207;7254;7301 2.4985 2.4985 1 151080 2075 1111 1695 1697 2117;2118;2119;2120;2121;2122;2123 2118 -0.011251858855530372 AWHPHTNKF 9 Unmodified _AWHPHTNKF_ 0 0 0 ENSG00000094914|ENST00000209873|AAAS;ENST00000546393.6_1_12:53708449-53708909:-|nuORF ENSG00000094914|ENST00000209873|AAAS ENSG00000094914|ENST00000209873|AAAS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 380.1933288574219 3 379.857797 1136.55156 2.4608 0.00093474 0.23223 8.8214E-05 2.693 0.001023 379.85778232959166 14.846 0.37525 15.072 14.893 15.268 0.22622 74 31 3 0 0 0 0.02812 2 6521 6521;6565 57.722 26.896 1 587120 2076 1111 1695 1697 2124;2125 2124 -0.011251858855530372 AWIEHVHVI 9 Unmodified _AWIEHVHVI_ 0 0 0 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1;ENSG00000086232|ENST00000199389|EIF2AK1 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.3053588867188 2 552.303458 1102.59236 3.7117 0.00205 0.0085516 4.7231E-06 3.7202 0.0020547 552.3035343428685 53.124 0.15403 53.124 53.013 53.167 0 13 8 2 0 0 0 0.056465 1 24328 24328 44.407 33.583 1 284700 2077 981 1696 1698 2126 2126 0.04517155434086817 AWLKGAGA 8 Unmodified _AWLKGAGA_ 0 0 0 ENSG00000170430|ENST00000651593|MGMT ENSG00000170430|ENST00000651593|MGMT ENSG00000170430|ENST00000651593|MGMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 773.4342651367188 1 773.43045 772.423173 3.7327 0.002887 0.14119 0.0001092 3.8739 0.0029962 773.4307129105872 48.285 0.30057 48.285 48.111 48.411 0 27 17 2 0 0 0 0.74071 1 22161 22161 2.5775 0 1 917430 2078 4748 1697 1699 2127 2127 0.027858788713729155 AWLKGAGA 8 Unmodified _AWLKGAGA_ 0 0 0 ENSG00000170430|ENST00000651593|MGMT ENSG00000170430|ENST00000651593|MGMT ENSG00000170430|ENST00000651593|MGMT MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 773.43045 772.423173 3.5223 0.0027243 0.11046 8.5435E-05 3.6328 0.0028097 773.4307444722019 47.225 0.27802 48.054 47.901 48.179 0.82915 -0.1978 -3.4328E-05 NaN 2.5775 23 15 2 NaN NaN NaN NaN 0 NaN NaN 0 853310 2079 4748 1697 1699 0.027858788713729155 AWLKGAGA 8 Unmodified _AWLKGAGA_ 0 0 0 ENSG00000170430|ENST00000651593|MGMT ENSG00000170430|ENST00000651593|MGMT ENSG00000170430|ENST00000651593|MGMT MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 773.43045 772.423173 4.0284 0.0031157 0.2881 0.00022283 4.3165 0.0033385 773.4306495231315 48.172 0.24208 48.434 48.289 48.531 0.26209 0.18156 0.00010306 NaN 2.5775 14 8 2 NaN NaN NaN NaN 0 NaN NaN 0 539300 2080 4748 1697 1699 0.027858788713729155 AWLKGAGA 8 Unmodified _AWLKGAGA_ 0 0 0 ENSG00000170430|ENST00000651593|MGMT ENSG00000170430|ENST00000651593|MGMT ENSG00000170430|ENST00000651593|MGMT MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 773.43045 772.423173 3.9639 0.0030658 0.084466 6.5328E-05 4.0484 0.0031311 773.4303288062312 47.582 0.25022 48.235 48.09 48.34 0.65356 -0.016621 -5.4435E-05 NaN 2.5775 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 533580 2081 4748 1697 1699 0.027858788713729155 AWLLLLLRLRL 11 Unmodified _AWLLLLLRLRL_ 0 0 0 REV__nc|ENSG00000138623|O75326-2|SEMA7A REV__nc|ENSG00000138623|O75326-2|SEMA7A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 690.4639282226562 2 690.466107 1378.91766 NaN NaN NaN NaN NaN NaN NaN 71.426 1 71.426 70.926 71.926 0 0 0 0 1.008 1 34719 34719 0.35063 0 1 + 2082 12174 1698 1700 2128 2128 0.24335922238060448 AWVKEKVVAL 10 Unmodified _AWVKEKVVAL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-7|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.57061767578125 3 381.569253 1141.68593 2.6135 0.00099724 0.18268 6.9704E-05 2.7962 0.0010669 381.56923806195 44.514 0.25268 44.783 44.606 44.859 0.2694 12 7 2 0 0 0 0.76575 1 20338 20338 5.7834 1.5939 1 375880 2083 381 1699 1701 2129 2129 0.12075454816522324 AWVKEKVVAL 10 Unmodified _AWVKEKVVAL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-7|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 381.569253 1141.68593 2.8766 0.0010976 -0.081973 -3.1278E-05 2.7947 0.0010664 381.569040315267 43.914 0.13712 44.562 44.524 44.661 0.64872 -0.11035 -0.00021019 NaN 5.7834 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 430610 2084 381 1699 1701 0.12075454816522324 AWVLIHKRAA 10 Unmodified _AWVLIHKRAA_ 0 0 0 REV__ENSG00000242259|ENST00000399562|C22orf39 REV__ENSG00000242259|ENST00000399562|C22orf39 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.689453125 2 582.85365 1163.69275 NaN NaN NaN NaN NaN NaN NaN 6.4952 1 6.8349 6.3349 7.3349 0.33974 0 0 0 1.0015 1 2933 2933 0.40072 0 1 + 2085 14619 1700 1702 2130 2130 0.11744812487745548 AWWILVPAA 9 Unmodified _AWWILVPAA_ 0 0 0 nc|ENSG00000056291|Q9Y5X5-4|NPFFR2;nc|ENSG00000056291|Q9Y5X5|NPFFR2 nc|ENSG00000056291|Q9Y5X5-4|NPFFR2 nc|ENSG00000056291|Q9Y5X5-4|NPFFR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.74462890625 2 513.792195 1025.56984 3.2708 0.0016805 -1.0615 -0.00054537 2.2093 0.0011351 513.7910505599798 39.376 0.17541 40.174 40.078 40.253 0.79762 16 7 3 0 0 0 1.0601 1 17821 17821 2.3027 0 1 302080 2086 9549 1701 1703 2131 2131 0.05807556036461392 AYAENIALL 9 Unmodified _AYAENIALL_ 0 0 0 ENSG00000196455|ENST00000356763|PIK3R4 ENSG00000196455|ENST00000356763|PIK3R4 ENSG00000196455|ENST00000356763|PIK3R4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.2701110839844 2 489.26875 976.522947 2.8768 0.0014075 -0.37779 -0.00018484 2.499 0.0012227 489.26829730231617 72.594 0.27023 72.853 72.653 72.923 0.25876 36 22 2 0 0 0 0.032303 1 33293 33293 54.774 24.137 1 621620 2087 5746 1702 1704 2132 2132 0.033746516946507654 AYAIIKEEL 9 Unmodified _AYAIIKEEL_ 0 0 0 ENSG00000156802|ENST00000287394|ATAD2;ENST00000517666.5_1_8:124333376-124408650:-|nuORF ENSG00000156802|ENST00000287394|ATAD2 ENSG00000156802|ENST00000287394|ATAD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 525.2992553710938 2 525.297507 1048.58046 3.2986 0.0017327 0.28562 0.00015003 3.5842 0.0018828 525.2976311661783 53.082 0.26762 53.082 52.936 53.204 0 37 14 3 0 0 0 0.0024283 1 24308 24308 99.755 55.897 1 2012500 2088 3925 1703 1705 2133 2133 0.05811493900228015 AYAIIKEEL 9 Unmodified _AYAIIKEEL_ 0 0 0 ENSG00000156802|ENST00000287394|ATAD2;ENST00000517666.5_1_8:124333376-124408650:-|nuORF ENSG00000156802|ENST00000287394|ATAD2 ENSG00000156802|ENST00000287394|ATAD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 525.298583984375 2 525.297507 1048.58046 2.7996 0.0014706 0.22484 0.00011811 3.0244 0.0015887 525.2976219581407 52.012 0.29718 52.822 52.69 52.987 0.81066 45 19 3 0 0 0 0.014491 1 23683 23683 75.761 31.903 1 2251300 2089 3925 1703 1705 2134 2134 0.05811493900228015 AYAIIKEEL 9 Unmodified _AYAIIKEEL_ 0 0 0 ENSG00000156802|ENST00000287394|ATAD2;ENST00000517666.5_1_8:124333376-124408650:-|nuORF ENSG00000156802|ENST00000287394|ATAD2 ENSG00000156802|ENST00000287394|ATAD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.2997436523438 2 525.297507 1048.58046 3.4118 0.0017922 -0.0022624 -1.1884E-06 3.4095 0.001791 525.2975602833625 52.781 0.23857 53.045 52.915 53.153 0.26345 28 10 3 0 0 0 0.017293 1 24161 24161 71.922 28.064 1 1169100 2090 3925 1703 1705 2135 2135 0.05811493900228015 AYAIIKEEL 9 Unmodified _AYAIIKEEL_ 0 0 0 ENSG00000156802|ENST00000287394|ATAD2;ENST00000517666.5_1_8:124333376-124408650:-|nuORF ENSG00000156802|ENST00000287394|ATAD2 ENSG00000156802|ENST00000287394|ATAD2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 525.297507 1048.58046 3.123 0.0016405 0.4122 0.00021653 3.5352 0.001857 525.2975810388451 52.387 0.29479 53.049 52.877 53.171 0.66198 0.049059 0.00015283 NaN 99.755 32 12 3 NaN NaN NaN NaN 0 NaN NaN 0 1085600 2091 3925 1703 1705 0.05811493900228015 AYAKFYTLL 9 Unmodified _AYAKFYTLL_ 0 0 0 ENST00000380437.8_1_9:19290781-19335045:+|nuORF;nc|ENSG00000137145|Q5VZ89-5|DENND4C;nc|ENSG00000137145|Q5VZ89-3|DENND4C;nc|ENSG00000137145|Q5VZ89|DENND4C;ENSG00000137145|ENST00000434457|DENND4C ENST00000380437.8_1_9:19290781-19335045:+|nuORF ENST00000380437.8_1_9:19290781-19335045:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3046875 2 545.302593 1088.59063 NaN NaN NaN NaN NaN NaN NaN 69.207 1 69.461 68.961 69.961 0.25443 0 0 0 0.33854 1 31696 31696 25.399 2.2509 1 2092 2998 1704 1706 2136 2136 0.049881016254630595 AYALLHLLL 9 Unmodified _AYALLHLLL_ 0 0 0 nc|ENSG00000244731|P0C0L4-2|C4A;ENSG00000244731|ENST00000428956|C4A;ENSG00000224389|ENST00000435363|C4B nc|ENSG00000244731|P0C0L4-2|C4A nc|ENSG00000244731|P0C0L4-2|C4A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.0838623046875 2 513.820953 1025.62735 NaN NaN NaN NaN NaN NaN NaN 91.149 1 91.401 90.901 91.901 0.25163 0 0 0 0.041694 1 41914 41914 56.048 31.374 1 2093 6164 1705 1707 2137 2137 0.11556398242055366 AYAPPPHVI 9 Unmodified _AYAPPPHVI_ 0 0 0 ENSG00000128335|ENST00000358502|APOL2 ENSG00000128335|ENST00000358502|APOL2 ENSG00000128335|ENST00000358502|APOL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 482.7677917480469 2 482.766178 963.517802 3.2118 0.0015505 0.51845 0.00025029 3.7302 0.0018008 482.76618324802416 40.035 0.59302 40.035 39.807 40.4 0 39 22 2 0 0 0 0.029407 2 18197 18197;18293 56.048 41.467 1 609530 2094 2508 1706 1708 2138;2139 2138 0.03458392622712836 AYAPPPHVI 9 Unmodified _AYAPPPHVI_ 0 0 0 ENSG00000128335|ENST00000358502|APOL2 ENSG00000128335|ENST00000358502|APOL2 ENSG00000128335|ENST00000358502|APOL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.76751708984375 2 482.766178 963.517802 3.1213 0.0015069 0.22706 0.00010962 3.3484 0.0016165 482.76609095531927 39.052 0.76712 39.849 39.599 40.366 0.79762 62 37 2 0 0 0 0.029407 3 17733 17733;17782;17835 56.048 41.467 1 495420 2095 2508 1706 1708 2140;2141;2142 2140 0.03458392622712836 AYAPPPHVI 9 Unmodified _AYAPPPHVI_ 0 0 0 ENSG00000128335|ENST00000358502|APOL2 ENSG00000128335|ENST00000358502|APOL2 ENSG00000128335|ENST00000358502|APOL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.7677307128906 2 482.766178 963.517802 3.1438 0.0015177 0.83869 0.00040489 3.9825 0.0019226 482.766149857035 39.737 0.85627 40.004 39.723 40.579 0.26696 70 32 4 0 0 0 0.020665 5 18165 18035;18044;18102;18165;18327 67.413 44.265 1 1313400 2096 2508 1706 1708 2143;2144;2145;2146;2147 2146 0.03458392622712836 AYAPPPHVI 9 Unmodified _AYAPPPHVI_ 0 0 0 ENSG00000128335|ENST00000358502|APOL2 ENSG00000128335|ENST00000358502|APOL2 ENSG00000128335|ENST00000358502|APOL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.76788330078125 2 482.766178 963.517802 3.2947 0.0015906 0.5967 0.00028807 3.8914 0.0018786 482.7661456901885 39.485 0.68559 40.122 39.759 40.444 0.63778 58 29 3 0 0 0 0.029407 3 17964 17964;18021;18075 56.048 42.54 1 1089100 2097 2508 1706 1708 2148;2149;2150 2148 0.03458392622712836 AYAQEIQKL 9 Unmodified _AYAQEIQKL_ 0 0 0 ENSG00000165030|ENST00000297689|NFIL3 ENSG00000165030|ENST00000297689|NFIL3 ENSG00000165030|ENST00000297689|NFIL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.2942504882812 2 532.292756 1062.57096 3.1326 0.0016675 -0.35835 -0.00019075 2.7743 0.0014767 532.2923299566658 40.135 0.26803 40.135 39.985 40.253 0 16 9 2 0 0 0 0.0013314 1 18215 18215 118.07 68.514 1 757810 2098 4365 1707 1709 2151 2151 0.04217725614716983 AYAQEIQKL 9 Unmodified _AYAQEIQKL_ 0 0 0 ENSG00000165030|ENST00000297689|NFIL3 ENSG00000165030|ENST00000297689|NFIL3 ENSG00000165030|ENST00000297689|NFIL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 532.29296875 2 532.292756 1062.57096 3.1102 0.0016555 -1.5746 -0.00083813 1.5356 0.0008174 532.2915496641577 39.029 0.32647 39.826 39.637 39.963 0.79762 28 15 3 0 0 0 0.0024283 1 17674 17674 99.755 59.798 1 664400 2099 4365 1707 1709 2152 2152 0.04217725614716983 AYARIGNSYF 10 Unmodified _AYARIGNSYF_ 0 0 0 nc|ENSG00000168439|P31948-2|STIP1;nc|ENSG00000168439|P31948-3|STIP1;ENSG00000168439|ENST00000305218|STIP1 nc|ENSG00000168439|P31948-2|STIP1 nc|ENSG00000168439|P31948-2|STIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.2318725585938 2 581.288005 1160.56146 NaN NaN NaN NaN NaN NaN NaN 49.117 1 49.772 49.272 50.272 0.65524 0 0 0 0.39115 1 22470 22470 32.786 14.651 1 2100 9746 1708 1710 2153 2153 -0.012400426707927181 AYCNTKQKW 9 Unmodified _AYCNTKQKW_ 0 0 0 nc|ENSG00000104643|Q96QG7-2|MTMR9;ENST00000530200.1_1_8:11152806-11180294:+|nuORF;ENSG00000104643|ENST00000221086|MTMR9 nc|ENSG00000104643|Q96QG7-2|MTMR9 nc|ENSG00000104643|Q96QG7-2|MTMR9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.2780151367188 2 571.276583 1140.53861 NaN NaN NaN NaN NaN NaN NaN 83.246 1 83.246 82.746 83.746 0 0 0 0 0.89683 1 41892 41892 4.3292 0 1 2101 1443 1709 1711 2154 2154 -0.026033850599333164 AYDIITHLTDD 11 Unmodified _AYDIITHLTDD_ 0 0 0 REV__nc|ENSG00000187742|Q96T21-2|SECISBP2 REV__nc|ENSG00000187742|Q96T21-2|SECISBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 638.805908203125 2 638.806425 1275.5983 NaN NaN NaN NaN NaN NaN NaN 70.915 1 71.171 70.671 71.671 0.25642 0 0 0 1.0073 1 32477 32477 1.1933 0 1 + 2102 14109 1710 1712 2155 2155 -0.02847835635566298 AYDTVRWEF 9 Unmodified _AYDTVRWEF_ 0 0 0 ENSG00000176978|ENST00000371579|DPP7;ENST00000482088.5_1_9:140007335-140007673:-|nuORF;ENST00000460830.1_1_9:140006993-140007673:-|nuORF;ENST00000473532.5_1_9:140005202-140008344:-|nuORF ENSG00000176978|ENST00000371579|DPP7 ENSG00000176978|ENST00000371579|DPP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 593.7819213867188 2 593.780013 1185.54547 3.8216 0.0022692 -0.55634 -0.00033034 3.2653 0.0019388 593.7795767680352 65.863 0.30078 66.111 65.956 66.256 0.24848 24 16 2 0 0 0 0.048715 1 30152 30152 47.732 27.317 1 515630 2103 5095 1711 1713 2156 2156 -0.039877489077071004 AYDTVRWEF 9 Unmodified _AYDTVRWEF_ 0 0 0 ENSG00000176978|ENST00000371579|DPP7;ENST00000482088.5_1_9:140007335-140007673:-|nuORF;ENST00000460830.1_1_9:140006993-140007673:-|nuORF;ENST00000473532.5_1_9:140005202-140008344:-|nuORF ENSG00000176978|ENST00000371579|DPP7 ENSG00000176978|ENST00000371579|DPP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 593.7815551757812 2 593.780013 1185.54547 3.9809 0.0023638 -0.72514 -0.00043058 3.2558 0.0019332 593.7794739998042 65.261 0.22169 65.918 65.759 65.981 0.65672 22 12 2 0 0 0 0.023885 1 29909 29909 63.227 42.813 1 455470 2104 5095 1711 1713 2157 2157 -0.039877489077071004 AYDTVRWEF 9 Unmodified _AYDTVRWEF_ 0 0 0 ENSG00000176978|ENST00000371579|DPP7;ENST00000482088.5_1_9:140007335-140007673:-|nuORF;ENST00000460830.1_1_9:140006993-140007673:-|nuORF;ENST00000473532.5_1_9:140005202-140008344:-|nuORF ENSG00000176978|ENST00000371579|DPP7 ENSG00000176978|ENST00000371579|DPP7 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 593.780013 1185.54547 2.8572 0.0016966 1.3208 0.00078425 4.178 0.0024808 593.7811014872484 65.774 0.18155 65.774 65.656 65.838 0 -0.16042 0.0020781 NaN 63.227 25 21 2 NaN NaN NaN NaN 0 NaN NaN 0 1976300 2105 5095 1711 1713 -0.039877489077071004 AYEHKFYEI 9 Unmodified _AYEHKFYEI_ 0 0 0 ENSG00000104133|ENST00000261866|SPG11;nc|ENSG00000104133|Q96JI7-3|SPG11 ENSG00000104133|ENST00000261866|SPG11 ENSG00000104133|ENST00000261866|SPG11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 400.53070068359375 3 400.529235 1198.56587 2.6614 0.001066 0.40133 0.00016075 3.0628 0.0012267 400.5293537921083 39.296 0.2625 39.296 39.203 39.465 0 23 9 3 0 0 0 0.10837 1 17844 17844 22.658 0 1 819750 2106 1427 1712 1714 2158 2158 -0.025465782478931942 AYEHKFYEI 9 Unmodified _AYEHKFYEI_ 0 0 0 ENSG00000104133|ENST00000261866|SPG11;nc|ENSG00000104133|Q96JI7-3|SPG11 ENSG00000104133|ENST00000261866|SPG11 ENSG00000104133|ENST00000261866|SPG11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 600.2923583984375 2 600.290214 1198.56587 3.4212 0.0020537 0.37024 0.00022225 3.7915 0.002276 600.2901423353172 39.296 0.2625 39.296 39.203 39.465 0 19 9 3 0 0 0 0.026853 1 17857 17857 59.368 26.583 1 578700 2107 1427 1712 1714 2159 2159 -0.025465782478931942 AYEHKFYEI 9 Unmodified _AYEHKFYEI_ 0 0 0 ENSG00000104133|ENST00000261866|SPG11;nc|ENSG00000104133|Q96JI7-3|SPG11 ENSG00000104133|ENST00000261866|SPG11 ENSG00000104133|ENST00000261866|SPG11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 400.53021240234375 3 400.529235 1198.56587 2.649 0.001061 0.098102 3.9293E-05 2.7471 0.0011003 400.52916664487236 38.067 0.27959 38.863 38.752 39.032 0.79552 24 9 3 0 0 0 0.19064 1 17247 17247 17.443 0 1 1013800 2108 1427 1712 1714 2160 2160 -0.025465782478931942 AYEHKFYEI 9 Unmodified _AYEHKFYEI_ 0 0 0 ENSG00000104133|ENST00000261866|SPG11;nc|ENSG00000104133|Q96JI7-3|SPG11 ENSG00000104133|ENST00000261866|SPG11 ENSG00000104133|ENST00000261866|SPG11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 600.7926635742188 2 600.290214 1198.56587 3.4761 0.0020866 0.29814 0.00017897 3.7742 0.0022656 600.7917884454771 38.059 0.22984 38.854 38.752 38.982 0.79552 13 7 2 0 0 0 0.069974 1 17263 17263 40.239 25.834 1 359550 2109 1427 1712 1714 2161 2161 -0.025465782478931942 AYEHKFYEI 9 Unmodified _AYEHKFYEI_ 0 0 0 ENSG00000104133|ENST00000261866|SPG11;nc|ENSG00000104133|Q96JI7-3|SPG11 ENSG00000104133|ENST00000261866|SPG11 ENSG00000104133|ENST00000261866|SPG11 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 600.0978393554688 2 600.290214 1198.56587 3.6527 0.0021927 0.15557 9.3388E-05 3.8083 0.0022861 600.792095101998 39.262 0.2338 39.529 39.409 39.643 0.26696 12 7 2 0 0 0 0.051743 1 17847 17847 33.445 12.991 1 335410 2110 1427 1712 1714 2162 2162 -0.025465782478931942 AYEHKFYEI 9 Unmodified _AYEHKFYEI_ 0 0 0 ENSG00000104133|ENST00000261866|SPG11;nc|ENSG00000104133|Q96JI7-3|SPG11 ENSG00000104133|ENST00000261866|SPG11 ENSG00000104133|ENST00000261866|SPG11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 600.29345703125 2 600.290214 1198.56587 NaN NaN NaN NaN NaN NaN NaN 38.869 1 39.507 39.007 40.007 0.63778 0 0 0 0.31736 1 17770 17770 26.268 11.43 1 2111 1427 1712 1714 2163 2163 -0.025465782478931942 AYFVSLFNRF 10 Unmodified _AYFVSLFNRF_ 0 0 0 nc|ENSG00000151067|Q13936-2|CACNA1C;nc|ENSG00000151067|Q13936-6|CACNA1C;nc|ENSG00000151067|Q13936-34|CACNA1C;nc|ENSG00000151067|Q13936-28|CACNA1C;nc|ENSG00000151067|Q13936-36|CACNA1C;nc|ENSG00000151067|Q13936-33|CACNA1C;nc|ENSG00000151067|Q13936-14|CACNA1C;nc|ENSG00000151067|Q13936-18|CACNA1C;nc|ENSG00000151067|Q13936-11|CACNA1C;nc|ENSG00000151067|Q13936-5|CACNA1C;ENSG00000151067|ENST00000399655|CACNA1C;nc|ENSG00000151067|Q13936-17|CACNA1C;nc|ENSG00000151067|Q13936-4|CACNA1C;nc|ENSG00000151067|Q13936-8|CACNA1C;nc|ENSG00000151067|Q13936|CACNA1C;nc|ENSG00000151067|Q13936-3|CACNA1C;nc|ENSG00000151067|Q13936-9|CACNA1C;nc|ENSG00000151067|Q13936-10|CACNA1C;nc|ENSG00000151067|Q13936-31|CACNA1C;nc|ENSG00000151067|Q13936-30|CACNA1C;nc|ENSG00000151067|Q13936-13|CACNA1C;nc|ENSG00000151067|Q13936-27|CACNA1C;nc|ENSG00000151067|Q13936-24|CACNA1C;nc|ENSG00000151067|Q13936-19|CACNA1C;nc|ENSG00000151067|Q13936-35|CACNA1C;nc|ENSG00000151067|Q13936-20|CACNA1C;nc|ENSG00000151067|Q13936-21|CACNA1C;nc|ENSG00000151067|Q13936-22|CACNA1C;nc|ENSG00000151067|Q13936-23|CACNA1C;nc|ENSG00000151067|Q13936-37|CACNA1C;nc|ENSG00000151067|Q13936-7|CACNA1C;nc|ENSG00000151067|Q13936-26|CACNA1C;nc|ENSG00000151067|Q13936-15|CACNA1C;nc|ENSG00000151067|Q13936-16|CACNA1C;nc|ENSG00000151067|Q13936-29|CACNA1C;nc|ENSG00000151067|Q13936-25|CACNA1C;nc|ENSG00000151067|Q13936-32|CACNA1C;CACNA1C|p.V939Ffs*12|1|0.13|ENSG00000151067|chr12:2597251-2597251|G/-|frameshift_variant;nc|ENSG00000157388|Q01668-4|CACNA1D;nc|ENSG00000157388|Q01668-3|CACNA1D;ENSG00000157388|ENST00000350061|CACNA1D;nc|ENSG00000157388|Q01668-2|CACNA1D nc|ENSG00000151067|Q13936-2|CACNA1C;nc|ENSG00000157388|Q01668-4|CACNA1D nc|ENSG00000157388|Q01668-4|CACNA1D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 632.3277587890625 2 632.329673 1262.64479 NaN NaN NaN NaN NaN NaN NaN 60.977 1 61.233 60.733 61.733 0.25578 0 0 0 0.99733 1 27925 27925 3.9444 0.66309 1 2112 3689;3948 1713 1715 2164 2164 0.023976937770157747 AYGGSRRTL 9 Unmodified _AYGGSRRTL_ 0 0 0 LTR5_Hs_dup15|chr1:46329763-46330515:+|1.286842853034861|0.0339675607481123|5.24|486.0|37|2|anti-sense LTR5_Hs_dup15|chr1:46329763-46330515:+|1.286842853034861|0.0339675607481123|5.24|486.0|37|2|anti-sense LTR5_Hs_dup15|chr1:46329763-46330515:+|1.286842853034861|0.0339675607481123|5.24|486.0|37|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.76922607421875 2 490.76724 979.519927 NaN NaN NaN NaN NaN NaN NaN 62.436 1 62.436 61.936 62.936 0 0 0 0 0.66907 1 29264 29264 13.508 0.97634 1 2113 9504 1714 1716 2165 2165 0.02934821360531714 AYGHFSYEF 9 Unmodified _AYGHFSYEF_ 0 0 0 ENST00000504745.1_1_4:113347516-113362363:+|nuORF;nc|ENSG00000073331|Q96QP1-2|ALPK1;ENSG00000073331|ENST00000650871|ALPK1 ENST00000504745.1_1_4:113347516-113362363:+|nuORF ENST00000504745.1_1_4:113347516-113362363:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.7418212890625 2 560.740357 1119.46616 3.5064 0.0019662 -0.2472 -0.00013861 3.2592 0.0018276 560.7398318917573 56.239 0.27456 56.504 56.386 56.66 0.26543 28 12 3 0 0 0 0.0039848 1 25739 25739 93.883 63.659 1 1970400 2114 806 1715 1717 2166 2166 -0.08879395861845296 AYGHFSYEF 9 Unmodified _AYGHFSYEF_ 0 0 0 ENST00000504745.1_1_4:113347516-113362363:+|nuORF;nc|ENSG00000073331|Q96QP1-2|ALPK1;ENSG00000073331|ENST00000650871|ALPK1 ENST00000504745.1_1_4:113347516-113362363:+|nuORF ENST00000504745.1_1_4:113347516-113362363:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.2435302734375 2 560.740357 1119.46616 3.5682 0.0020008 -0.12569 -7.048E-05 3.4425 0.0019304 560.7402516229866 55.584 0.33925 56.252 56.087 56.426 0.66798 25 13 2 0 0 0 0.015487 2 25418 25418;25479 74.396 44.171 1 2162400 2115 806 1715 1717 2167;2168 2167 -0.08879395861845296 AYGKDFHLI 9 Unmodified _AYGKDFHLI_ 0 0 0 nc|ENSG00000198160|Q8N108-19|MIER1;nc|ENSG00000198160|Q8N108-16|MIER1;nc|ENSG00000198160|Q8N108-14|MIER1;nc|ENSG00000198160|Q8N108-18|MIER1;nc|ENSG00000198160|Q8N108-17|MIER1;nc|ENSG00000198160|Q8N108-15|MIER1;nc|ENSG00000198160|Q8N108|MIER1;nc|ENSG00000198160|Q8N108-13|MIER1;ENSG00000198160|ENST00000401041|MIER1 nc|ENSG00000198160|Q8N108-19|MIER1 nc|ENSG00000198160|Q8N108-19|MIER1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 355.19073486328125 3 355.190553 1062.54983 2.4087 0.00085555 -1.183 -0.0004202 1.2257 0.00043534 355.18993802613716 46.422 0.27737 46.422 46.281 46.558 0 36 13 4 0 0 0 0.069974 1 21257 21257 40.239 20.877 1 5143300 2116 5870 1716 1718 2169 2169 0.021057603058579843 AYGKDFHLI 9 Unmodified _AYGKDFHLI_ 0 0 0 nc|ENSG00000198160|Q8N108-19|MIER1;nc|ENSG00000198160|Q8N108-16|MIER1;nc|ENSG00000198160|Q8N108-14|MIER1;nc|ENSG00000198160|Q8N108-18|MIER1;nc|ENSG00000198160|Q8N108-17|MIER1;nc|ENSG00000198160|Q8N108-15|MIER1;nc|ENSG00000198160|Q8N108|MIER1;nc|ENSG00000198160|Q8N108-13|MIER1;ENSG00000198160|ENST00000401041|MIER1 nc|ENSG00000198160|Q8N108-19|MIER1 nc|ENSG00000198160|Q8N108-19|MIER1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.283935546875 2 532.282192 1062.54983 2.9366 0.0015631 -0.37455 -0.00019936 2.5621 0.0013637 532.2818362400626 46.41 0.23246 46.41 46.326 46.558 0 21 11 2 0 0 0 0.01 1 21267 21267 89.401 41.652 1 2109200 2117 5870 1716 1718 2170 2170 0.021057603058579843 AYGKDFHLI 9 Unmodified _AYGKDFHLI_ 0 0 0 nc|ENSG00000198160|Q8N108-19|MIER1;nc|ENSG00000198160|Q8N108-16|MIER1;nc|ENSG00000198160|Q8N108-14|MIER1;nc|ENSG00000198160|Q8N108-18|MIER1;nc|ENSG00000198160|Q8N108-17|MIER1;nc|ENSG00000198160|Q8N108-15|MIER1;nc|ENSG00000198160|Q8N108|MIER1;nc|ENSG00000198160|Q8N108-13|MIER1;ENSG00000198160|ENST00000401041|MIER1 nc|ENSG00000198160|Q8N108-19|MIER1 nc|ENSG00000198160|Q8N108-19|MIER1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 355.1913146972656 3 355.190553 1062.54983 2.3191 0.00082374 -0.21928 -7.7886E-05 2.0999 0.00074585 355.1903949654546 45.338 0.35456 46.164 45.995 46.349 0.82621 52 20 3 0 0 0 0.091193 1 20649 20649 34.932 15.57 1 2635100 2118 5870 1716 1718 2171 2171 0.021057603058579843 AYGKDFHLI 9 Unmodified _AYGKDFHLI_ 0 0 0 nc|ENSG00000198160|Q8N108-19|MIER1;nc|ENSG00000198160|Q8N108-16|MIER1;nc|ENSG00000198160|Q8N108-14|MIER1;nc|ENSG00000198160|Q8N108-18|MIER1;nc|ENSG00000198160|Q8N108-17|MIER1;nc|ENSG00000198160|Q8N108-15|MIER1;nc|ENSG00000198160|Q8N108|MIER1;nc|ENSG00000198160|Q8N108-13|MIER1;ENSG00000198160|ENST00000401041|MIER1 nc|ENSG00000198160|Q8N108-19|MIER1 nc|ENSG00000198160|Q8N108-19|MIER1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 355.1912841796875 3 355.190553 1062.54983 2.6675 0.00094749 -0.53192 -0.00018893 2.1356 0.00075856 355.1902448086101 46.346 0.36835 46.611 46.387 46.756 0.26561 35 14 3 0 0 0 0.17594 1 21197 21197 24.991 13.496 1 1530500 2119 5870 1716 1718 2172 2172 0.021057603058579843 AYGKDFHLI 9 Unmodified _AYGKDFHLI_ 0 0 0 nc|ENSG00000198160|Q8N108-19|MIER1;nc|ENSG00000198160|Q8N108-16|MIER1;nc|ENSG00000198160|Q8N108-14|MIER1;nc|ENSG00000198160|Q8N108-18|MIER1;nc|ENSG00000198160|Q8N108-17|MIER1;nc|ENSG00000198160|Q8N108-15|MIER1;nc|ENSG00000198160|Q8N108|MIER1;nc|ENSG00000198160|Q8N108-13|MIER1;ENSG00000198160|ENST00000401041|MIER1 nc|ENSG00000198160|Q8N108-19|MIER1 nc|ENSG00000198160|Q8N108-19|MIER1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 532.2835083007812 2 532.282192 1062.54983 NaN NaN NaN NaN NaN NaN NaN 46.351 1 46.617 46.117 47.117 0.26561 0 0 0 0.020249 1 21185 21185 61.602 27.2 1 2120 5870 1716 1718 2173 2173 0.021057603058579843 AYGKDFHLI 9 Unmodified _AYGKDFHLI_ 0 0 0 nc|ENSG00000198160|Q8N108-19|MIER1;nc|ENSG00000198160|Q8N108-16|MIER1;nc|ENSG00000198160|Q8N108-14|MIER1;nc|ENSG00000198160|Q8N108-18|MIER1;nc|ENSG00000198160|Q8N108-17|MIER1;nc|ENSG00000198160|Q8N108-15|MIER1;nc|ENSG00000198160|Q8N108|MIER1;nc|ENSG00000198160|Q8N108-13|MIER1;ENSG00000198160|ENST00000401041|MIER1 nc|ENSG00000198160|Q8N108-19|MIER1 nc|ENSG00000198160|Q8N108-19|MIER1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.2830810546875 2 532.282192 1062.54983 3.5291 0.0018785 -0.46719 -0.00024868 3.0619 0.0016298 532.2818155607854 45.684 0.32536 46.335 46.176 46.501 0.65104 19 11 2 0 0 0 0.028592 1 20952 20952 70.332 35.93 1 634750 2121 5870 1716 1718 2174 2174 0.021057603058579843 AYGKDFHLI 9 Unmodified _AYGKDFHLI_ 0 0 0 nc|ENSG00000198160|Q8N108-19|MIER1;nc|ENSG00000198160|Q8N108-16|MIER1;nc|ENSG00000198160|Q8N108-14|MIER1;nc|ENSG00000198160|Q8N108-18|MIER1;nc|ENSG00000198160|Q8N108-17|MIER1;nc|ENSG00000198160|Q8N108-15|MIER1;nc|ENSG00000198160|Q8N108|MIER1;nc|ENSG00000198160|Q8N108-13|MIER1;ENSG00000198160|ENST00000401041|MIER1 nc|ENSG00000198160|Q8N108-19|MIER1 nc|ENSG00000198160|Q8N108-19|MIER1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 355.19134521484375 3 355.190553 1062.54983 2.768 0.00098315 -0.46444 -0.00016496 2.3035 0.00081819 355.19024481023837 45.72 0.35846 46.371 46.176 46.534 0.65104 29 12 3 0 0 0 0.17594 1 20975 20975 24.991 8.8419 1 1462400 2122 5870 1716 1718 2175 2175 0.021057603058579843 AYGNVFSAF 9 Unmodified _AYGNVFSAF_ 0 0 0 nc|ENSG00000134987|Q8NI36|WDR36;ENST00000505303.5_1_5:110428043-110447004:+|nuORF;ENSG00000134987|ENST00000513710|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 975.4569091796875 1 975.457059 974.449782 3.4327 0.0033485 -0.10173 -9.9232E-05 3.331 0.0032492 975.4563575158543 79.065 0.23621 79.316 79.209 79.446 0.25127 27 17 2 0 0 0 0.10245 3 36442 36364;36386;36442 32.117 12.678 1 541390 2123 9654 1717 1719 2176;2177;2178 2178 -0.03846477027957462 AYGNVFSAF 9 Unmodified _AYGNVFSAF_ 0 0 0 nc|ENSG00000134987|Q8NI36|WDR36;ENST00000505303.5_1_5:110428043-110447004:+|nuORF;ENSG00000134987|ENST00000513710|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.23321533203125 2 488.232168 974.449782 2.9457 0.0014382 0.4181 0.00020413 3.3638 0.0016423 488.23230825470165 79.096 0.27906 79.348 79.181 79.46 0.25127 30 20 2 0 0 0 0.27976 1 36403 36403 18.135 1.1927 1 490780 2124 9654 1717 1719 2179 2179 -0.03846477027957462 AYGNVFSAF 9 Unmodified _AYGNVFSAF_ 0 0 0 nc|ENSG00000134987|Q8NI36|WDR36;ENST00000505303.5_1_5:110428043-110447004:+|nuORF;ENSG00000134987|ENST00000513710|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 975.4617309570312 1 975.457059 974.449782 3.7092 0.0036182 -0.88494 -0.00086323 2.8243 0.002755 975.455591686153 78.569 0.17532 79.231 79.115 79.29 0.66197 18 12 2 0 0 0 0.078322 1 36204 36204 38.151 17.698 1 627280 2125 9654 1717 1719 2180 2180 -0.03846477027957462 AYGNVFSAF 9 Unmodified _AYGNVFSAF_ 0 0 0 nc|ENSG00000134987|Q8NI36|WDR36;ENST00000505303.5_1_5:110428043-110447004:+|nuORF;ENSG00000134987|ENST00000513710|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 488.232168 974.449782 3.1594 0.0015425 0.46653 0.00022777 3.6259 0.0017703 488.23241220976433 78.551 0.23861 79.213 79.083 79.322 0.66197 -0.067555 2.4179E-05 NaN 18.135 25 16 2 NaN NaN NaN NaN 0 NaN NaN 0 484870 2126 9654 1717 1719 -0.03846477027957462 AYGSLFNTI 9 Unmodified _AYGSLFNTI_ 0 0 0 nc|ENSG00000137944|Q6YP21-2|KYAT3;ENST00000446900.6_1_1:89430347-89454033:-|nuORF;nc|ENSG00000137944|Q6YP21-3|KYAT3;ENSG00000137944|ENST00000260508|KYAT3 nc|ENSG00000137944|Q6YP21-2|KYAT3 nc|ENSG00000137944|Q6YP21-2|KYAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.2538146972656 2 493.2531 984.491647 3.0272 0.0014932 0.96847 0.0004777 3.9957 0.0019709 493.2533778078585 76.907 0.24519 77.162 77.027 77.272 0.25533 30 18 3 0 0 0 0.20384 1 35416 35416 23.148 1.4018 1 526270 2127 3057 1718 1720 2181 2181 -0.0012192133942789951 AYHAVSRE 8 Unmodified _AYHAVSRE_ 0 0 0 REV__ENSG00000177096|ENST00000321753|PHETA2 REV__ENSG00000177096|ENST00000321753|PHETA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.73455810546875 2 466.732866 931.451179 NaN NaN NaN NaN NaN NaN NaN 78.353 1 78.353 77.853 78.853 0 0 0 0 0.99035 1 38499 38499 5.7604 0 1 + 2128 13725 1719 1721 2182 2182 -0.017288429391896898 AYHNSPAYL 9 Unmodified _AYHNSPAYL_ 0 0 0 ENST00000469334.5_1_17:38788437-38802054:-|nuORF;nc|ENSG00000073584|Q969G3-6|SMARCE1;nc|ENSG00000073584|Q969G3-5|SMARCE1;chr17:40628975-40630714|539|37.17|0.3|6.96|-|ENST00000644527|SMARCE1,SMARCE1;nc|ENSG00000073584|Q969G3-3|SMARCE1;nc|ENSG00000073584|Q969G3-2|SMARCE1;nc|ENSG00000073584|Q969G3-4|SMARCE1;ENSG00000073584|ENST00000348513|SMARCE1;ENST00000493660.5_1_17:38792069-38802054:-|nuORF ENST00000469334.5_1_17:38788437-38802054:-|nuORF ENST00000469334.5_1_17:38788437-38802054:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.2506713867188 2 518.248349 1034.48214 3.3708 0.0017469 0.60093 0.00031143 3.9717 0.0020583 518.248583922791 31.881 0.2961 31.881 31.734 32.03 0 57 26 3 0 0 0 0.020151 1 14402 14402 68.081 38.999 1 818430 2129 157 1720 1722 2183 2183 -0.03371689624964347 AYHNSPAYL 9 Unmodified _AYHNSPAYL_ 0 0 0 ENST00000469334.5_1_17:38788437-38802054:-|nuORF;nc|ENSG00000073584|Q969G3-6|SMARCE1;nc|ENSG00000073584|Q969G3-5|SMARCE1;chr17:40628975-40630714|539|37.17|0.3|6.96|-|ENST00000644527|SMARCE1,SMARCE1;nc|ENSG00000073584|Q969G3-3|SMARCE1;nc|ENSG00000073584|Q969G3-2|SMARCE1;nc|ENSG00000073584|Q969G3-4|SMARCE1;ENSG00000073584|ENST00000348513|SMARCE1;ENST00000493660.5_1_17:38792069-38802054:-|nuORF ENST00000469334.5_1_17:38788437-38802054:-|nuORF ENST00000469334.5_1_17:38788437-38802054:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.2501220703125 2 518.248349 1034.48214 3.5076 0.0018178 0.2166 0.00011225 3.7242 0.0019301 518.2484009446572 30.928 0.25946 31.716 31.597 31.856 0.78879 40 18 3 0 0 0 0.0023685 1 13975 13975 100.37 39.014 1 851480 2130 157 1720 1722 2184 2184 -0.03371689624964347 AYHNSPAYL 9 Unmodified _AYHNSPAYL_ 0 0 0 ENST00000469334.5_1_17:38788437-38802054:-|nuORF;nc|ENSG00000073584|Q969G3-6|SMARCE1;nc|ENSG00000073584|Q969G3-5|SMARCE1;chr17:40628975-40630714|539|37.17|0.3|6.96|-|ENST00000644527|SMARCE1,SMARCE1;nc|ENSG00000073584|Q969G3-3|SMARCE1;nc|ENSG00000073584|Q969G3-2|SMARCE1;nc|ENSG00000073584|Q969G3-4|SMARCE1;ENSG00000073584|ENST00000348513|SMARCE1;ENST00000493660.5_1_17:38792069-38802054:-|nuORF ENST00000469334.5_1_17:38788437-38802054:-|nuORF ENST00000469334.5_1_17:38788437-38802054:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 518.2507934570312 2 518.248349 1034.48214 3.8033 0.001971 0.52672 0.00027297 4.33 0.002244 518.2485554829933 31.934 0.33616 32.189 32.027 32.364 0.25452 47 20 3 0 0 0 0.020151 2 14548 14548;14597 68.081 31.954 1 816470 2131 157 1720 1722 2185;2186 2185 -0.03371689624964347 AYHNSPAYL 9 Unmodified _AYHNSPAYL_ 0 0 0 ENST00000469334.5_1_17:38788437-38802054:-|nuORF;nc|ENSG00000073584|Q969G3-6|SMARCE1;nc|ENSG00000073584|Q969G3-5|SMARCE1;chr17:40628975-40630714|539|37.17|0.3|6.96|-|ENST00000644527|SMARCE1,SMARCE1;nc|ENSG00000073584|Q969G3-3|SMARCE1;nc|ENSG00000073584|Q969G3-2|SMARCE1;nc|ENSG00000073584|Q969G3-4|SMARCE1;ENSG00000073584|ENST00000348513|SMARCE1;ENST00000493660.5_1_17:38792069-38802054:-|nuORF ENST00000469334.5_1_17:38788437-38802054:-|nuORF ENST00000469334.5_1_17:38788437-38802054:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.2505493164062 2 518.248349 1034.48214 3.3946 0.0017592 0.62 0.00032131 4.0146 0.0020805 518.2486123715912 31.402 0.31445 32.019 31.836 32.151 0.61737 48 19 3 0 0 0 0.0063783 2 14391 14391;14438 88.904 36.635 1 825770 2132 157 1720 1722 2187;2188 2187 -0.03371689624964347 AYIADHLGF 9 Unmodified _AYIADHLGF_ 0 0 0 ENSG00000145362|ENST00000357077|ANK2;nc|ENSG00000145362|Q01484-5|ANK2;nc|ENSG00000145362|Q01484-2|ANK2;ANK2|p.H3647Ifs*128|1|0.14|ENSG00000145362|chr4:113365089-113365089|C/-|frameshift_variant;nc|ENSG00000145362|Q01484-7|ANK2 ENSG00000145362|ENST00000357077|ANK2 ENSG00000145362|ENST00000357077|ANK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.75482177734375 2 503.753267 1005.49198 2.7471 0.0013839 0.82354 0.00041486 3.5707 0.0017987 503.75353638139416 59.425 0.20823 60.174 60.064 60.272 0.74927 26 15 2 0 0 0 0.11001 2 27317 27317;27323 30.225 13.283 1 605070 2133 3462 1721 1723 2189;2190 2189 -0.01054501619569237 AYIADHLGF 9 Unmodified _AYIADHLGF_ 0 0 0 ENSG00000145362|ENST00000357077|ANK2;nc|ENSG00000145362|Q01484-5|ANK2;nc|ENSG00000145362|Q01484-2|ANK2;ANK2|p.H3647Ifs*128|1|0.14|ENSG00000145362|chr4:113365089-113365089|C/-|frameshift_variant;nc|ENSG00000145362|Q01484-7|ANK2 ENSG00000145362|ENST00000357077|ANK2 ENSG00000145362|ENST00000357077|ANK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.75457763671875 2 503.753267 1005.49198 NaN NaN NaN NaN NaN NaN NaN 60.363 1 60.619 60.119 61.119 0.25578 0 0 0 0.3934 1 27639 27639 23.148 8.3102 1 2134 3462 1721 1723 2191 2191 -0.01054501619569237 AYIERMNYI 9 Unmodified _AYIERMNYI_ 0 0 0 ENST00000471959.2_1_6:111995672-112015899:-|nuORF;nc|ENSG00000010810|P06241-3|FYN;nc|ENSG00000010810|P06241-2|FYN;ENSG00000010810|ENST00000354650|FYN;ENSG00000176105|ENST00000314574|YES1 ENST00000471959.2_1_6:111995672-112015899:-|nuORF ENST00000471959.2_1_6:111995672-112015899:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.794677734375 2 586.792066 1171.56958 3.4395 0.0020183 -0.13523 -7.935E-05 3.3042 0.0019389 586.7920356336626 52.199 0.33831 52.199 52.006 52.344 0 63 23 4 0 0 0 0.00068611 3 23904 23859;23904;23951 129.77 68.415 1 3975000 2135 404 1722 1724 2192;2193;2194 2193 -0.009342317456912497 AYIERMNYI 9 Unmodified _AYIERMNYI_ 0 0 0 ENST00000471959.2_1_6:111995672-112015899:-|nuORF;nc|ENSG00000010810|P06241-3|FYN;nc|ENSG00000010810|P06241-2|FYN;ENSG00000010810|ENST00000354650|FYN;ENSG00000176105|ENST00000314574|YES1 ENST00000471959.2_1_6:111995672-112015899:-|nuORF ENST00000471959.2_1_6:111995672-112015899:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 586.7941284179688 2 586.792066 1171.56958 2.8905 0.0016961 -0.062298 -3.6556E-05 2.8282 0.0016596 586.7921339215432 51.158 0.27399 51.976 51.825 52.099 0.81738 59 20 4 0 0 0 2.5075E-05 3 23309 23266;23309;23359 142.08 80.722 1 3708200 2136 404 1722 1724 2195;2196;2197 2196 -0.009342317456912497 AYIERMNYI 9 Unmodified _AYIERMNYI_ 0 0 0 ENST00000471959.2_1_6:111995672-112015899:-|nuORF;nc|ENSG00000010810|P06241-3|FYN;nc|ENSG00000010810|P06241-2|FYN;ENSG00000010810|ENST00000354650|FYN;ENSG00000176105|ENST00000314574|YES1 ENST00000471959.2_1_6:111995672-112015899:-|nuORF ENST00000471959.2_1_6:111995672-112015899:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.79443359375 2 586.792066 1171.56958 3.4504 0.0020247 -0.26446 -0.00015519 3.1859 0.0018695 586.7920265903153 52.15 0.27662 52.413 52.225 52.501 0.26228 36 16 3 0 0 0 0.00143 2 23851 23803;23851 110.67 58.406 1 2151900 2137 404 1722 1724 2198;2199 2199 -0.009342317456912497 AYIERMNYI 9 Unmodified _AYIERMNYI_ 0 0 0 ENST00000471959.2_1_6:111995672-112015899:-|nuORF;nc|ENSG00000010810|P06241-3|FYN;nc|ENSG00000010810|P06241-2|FYN;ENSG00000010810|ENST00000354650|FYN;ENSG00000176105|ENST00000314574|YES1 ENST00000471959.2_1_6:111995672-112015899:-|nuORF ENST00000471959.2_1_6:111995672-112015899:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.7939453125 2 586.792066 1171.56958 3.3477 0.0019644 0.1553 9.113E-05 3.503 0.0020555 586.792286743583 51.501 0.33034 52.16 52.001 52.332 0.65956 56 18 4 0 0 0 0.0024283 3 23557 23505;23557;23602 99.755 47.487 1 1335400 2138 404 1722 1724 2200;2201;2202 2201 -0.009342317456912497 AYINKVEEL 9 Unmodified _AYINKVEEL_ 0 0 0 nc|ENSG00000155368|P07108-4|DBI;nc|ENSG00000155368|P07108-5|DBI;ENSG00000155368|ENST00000355857|DBI;nc|ENSG00000155368|P07108-3|DBI;nc|ENSG00000155368|P07108-2|DBI nc|ENSG00000155368|P07108-4|DBI nc|ENSG00000155368|P07108-4|DBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.7936401367188 2 539.792589 1077.57063 3.1936 0.0017239 1.4717 0.00079443 4.6653 0.0025183 539.7930805946063 44.856 0.25853 44.856 44.711 44.97 0 18 13 2 0 0 0 0.012326 1 20504 20504 78.728 13.493 1 686890 2139 9698 1723 1725 2203 2203 0.03494305894855643 AYINKVEEL 9 Unmodified _AYINKVEEL_ 0 0 0 nc|ENSG00000155368|P07108-4|DBI;nc|ENSG00000155368|P07108-5|DBI;ENSG00000155368|ENST00000355857|DBI;nc|ENSG00000155368|P07108-3|DBI;nc|ENSG00000155368|P07108-2|DBI nc|ENSG00000155368|P07108-4|DBI nc|ENSG00000155368|P07108-4|DBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.7940673828125 2 539.792589 1077.57063 2.9888 0.0016134 1.3619 0.00073515 4.3508 0.0023485 539.7928210829365 43.662 0.31582 44.476 44.336 44.652 0.81444 20 16 2 0 0 0 0.071132 1 19867 19867 39.95 1.9757 1 509180 2140 9698 1723 1725 2204 2204 0.03494305894855643 AYINKVEEL 9 Unmodified _AYINKVEEL_ 0 0 0 nc|ENSG00000155368|P07108-4|DBI;nc|ENSG00000155368|P07108-5|DBI;ENSG00000155368|ENST00000355857|DBI;nc|ENSG00000155368|P07108-3|DBI;nc|ENSG00000155368|P07108-2|DBI nc|ENSG00000155368|P07108-4|DBI nc|ENSG00000155368|P07108-4|DBI MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.7925415039062 2 539.792589 1077.57063 NaN NaN NaN NaN NaN NaN NaN 44.77 1 45.038 44.538 45.538 0.26768 0 0 0 0.024684 1 20463 20463 65.235 9.058 1 2141 9698 1723 1725 2205 2205 0.03494305894855643 AYINKVEEL 9 Unmodified _AYINKVEEL_ 0 0 0 nc|ENSG00000155368|P07108-4|DBI;nc|ENSG00000155368|P07108-5|DBI;ENSG00000155368|ENST00000355857|DBI;nc|ENSG00000155368|P07108-3|DBI;nc|ENSG00000155368|P07108-2|DBI nc|ENSG00000155368|P07108-4|DBI nc|ENSG00000155368|P07108-4|DBI MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.7940673828125 2 539.792589 1077.57063 NaN NaN NaN NaN NaN NaN NaN 44.176 1 44.826 44.326 45.326 0.64998 0 0 0 0.078562 1 20249 20249 45.7 11.298 1 2142 9698 1723 1725 2206 2206 0.03494305894855643 AYINRASLL 9 Unmodified _AYINRASLL_ 0 0 0 nc|ENSG00000138663|Q9BT78-2|COPS4;ENSG00000138663|ENST00000264389|COPS4 nc|ENSG00000138663|Q9BT78-2|COPS4 nc|ENSG00000138663|Q9BT78-2|COPS4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.79693603515625 2 510.795466 1019.57638 3.1984 0.0016337 -0.57809 -0.00029529 2.6203 0.0013384 510.79509771036334 48.456 0.35981 48.456 48.269 48.629 0 51 25 3 0 0 0 0.016529 2 22159 22159;22212 72.968 36.841 1 1326500 2143 3109 1724 1726 2207;2208 2207 0.06737449197191836 AYINRASLL 9 Unmodified _AYINRASLL_ 0 0 0 nc|ENSG00000138663|Q9BT78-2|COPS4;ENSG00000138663|ENST00000264389|COPS4 nc|ENSG00000138663|Q9BT78-2|COPS4 nc|ENSG00000138663|Q9BT78-2|COPS4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.79736328125 2 510.795466 1019.57638 3.048 0.0015569 -0.39103 -0.00019973 2.657 0.0013572 510.79547141687175 47.332 0.33601 48.161 47.997 48.333 0.82915 30 19 2 0 0 0 0.023321 1 21579 21579 63.961 27.833 1 1388300 2144 3109 1724 1726 2209 2209 0.06737449197191836 AYINRASLL 9 Unmodified _AYINRASLL_ 0 0 0 nc|ENSG00000138663|Q9BT78-2|COPS4;ENSG00000138663|ENST00000264389|COPS4 nc|ENSG00000138663|Q9BT78-2|COPS4 nc|ENSG00000138663|Q9BT78-2|COPS4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.7973327636719 2 510.795466 1019.57638 3.5132 0.0017945 -1.8578 -0.00094893 1.6555 0.0008456 510.7943711707455 48.371 0.33559 48.633 48.457 48.793 0.26209 47 22 3 0 0 0 0.023321 1 22066 22066 63.961 13.105 1 1371000 2145 3109 1724 1726 2210 2210 0.06737449197191836 AYINRASLL 9 Unmodified _AYINRASLL_ 0 0 0 nc|ENSG00000138663|Q9BT78-2|COPS4;ENSG00000138663|ENST00000264389|COPS4 nc|ENSG00000138663|Q9BT78-2|COPS4 nc|ENSG00000138663|Q9BT78-2|COPS4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.79718017578125 2 510.795466 1019.57638 3.3929 0.0017331 -3.1975 -0.0016333 0.19533 9.9772E-05 510.79379602486 47.735 0.46725 48.389 48.214 48.682 0.65356 35 19 2 0 0 0 0.016529 1 21881 21881 72.968 22.113 1 1032500 2146 3109 1724 1726 2211 2211 0.06737449197191836 AYKKKLQE 8 Unmodified _AYKKKLQE_ 0 0 0 ENST00000444067.2_1_1:78313109-78313610:+|nuORF;ENSG00000126653|ENST00000247026|NSRP1 ENST00000444067.2_1_1:78313109-78313610:+|nuORF ENST00000444067.2_1_1:78313109-78313610:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.2068176269531 3 336.53432 1006.58113 2.6114 0.00087882 -1.6419 -0.00055256 0.96947 0.00032626 336.53390728141557 12.652 0.10089 13.295 13.244 13.345 0.64272 6 2 3 0 0 0 0.141 1 5686 5686 6.7232 1.4263 1 1843200 2147 2460 1725 1727 2212 2212 0.07810333339944009 AYLDKSPQF 9 Unmodified _AYLDKSPQF_ 0 0 0 ENST00000504778.5_1_5:54552318-54579000:-|nuORF;ENSG00000067248|ENST00000251636|DHX29;ENST00000513447.1_1_5:54569247-54572159:-|nuORF;DHX29|p.K899Ifs*3|1|0.22|ENSG00000067248|chr5:55273372-55273373|-/TA|frameshift_variant ENST00000504778.5_1_5:54552318-54579000:-|nuORF ENST00000504778.5_1_5:54552318-54579000:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.7718505859375 2 534.771657 1067.52876 3.0022 0.0016055 0.57875 0.0003095 3.5809 0.001915 534.7719946390076 42.683 0.3828 42.683 42.557 42.94 0 42 20 3 0 0 0 0.0013355 1 19438 19438 117.76 81.254 1 1240200 2148 722 1726 1728 2213 2213 -0.0023024979368528875 AYLDKSPQF 9 Unmodified _AYLDKSPQF_ 0 0 0 ENST00000504778.5_1_5:54552318-54579000:-|nuORF;ENSG00000067248|ENST00000251636|DHX29;ENST00000513447.1_1_5:54569247-54572159:-|nuORF;DHX29|p.K899Ifs*3|1|0.22|ENSG00000067248|chr5:55273372-55273373|-/TA|frameshift_variant ENST00000504778.5_1_5:54552318-54579000:-|nuORF ENST00000504778.5_1_5:54552318-54579000:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 534.7737426757812 2 534.771657 1067.52876 3.0095 0.0016094 0.03378 1.8064E-05 3.0433 0.0016275 534.7715833228655 41.712 0.29312 42.52 42.391 42.684 0.80855 45 25 3 0 0 0 0.0012852 2 18954 18910;18954 121.53 79.694 1 1328900 2149 722 1726 1728 2214;2215 2215 -0.0023024979368528875 AYLEAHETF 9 Unmodified _AYLEAHETF_ 0 0 0 nc|ENSG00000111581|P57740-3|NUP107;nc|ENSG00000111581|P57740-2|NUP107;ENSG00000111581|ENST00000229179|NUP107 nc|ENSG00000111581|P57740-3|NUP107 nc|ENSG00000111581|P57740-3|NUP107 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.7556762695312 2 540.753464 1079.49238 3.2489 0.0017568 0.62016 0.00033535 3.869 0.0020922 540.7538065520794 42.629 0.31902 42.629 42.471 42.79 0 29 18 2 0 0 0 0.0014044 2 19391 19391;19451 112.59 76.549 1 1332200 2150 1765 1727 1729 2216;2217 2216 -0.0441912669039084 AYLEAHETF 9 Unmodified _AYLEAHETF_ 0 0 0 nc|ENSG00000111581|P57740-3|NUP107;nc|ENSG00000111581|P57740-2|NUP107;ENSG00000111581|ENST00000229179|NUP107 nc|ENSG00000111581|P57740-3|NUP107 nc|ENSG00000111581|P57740-3|NUP107 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.2567749023438 2 540.753464 1079.49238 3.0136 0.0016296 0.36754 0.00019875 3.3812 0.0018284 540.7534924542059 41.597 0.18961 42.401 42.374 42.564 0.80351 26 19 2 0 0 0 0.018173 1 18893 18893 70.716 38.41 1 1804400 2151 1765 1727 1729 2218 2218 -0.0441912669039084 AYLEAHETF 9 Unmodified _AYLEAHETF_ 0 0 0 nc|ENSG00000111581|P57740-3|NUP107;nc|ENSG00000111581|P57740-2|NUP107;ENSG00000111581|ENST00000229179|NUP107 nc|ENSG00000111581|P57740-3|NUP107 nc|ENSG00000111581|P57740-3|NUP107 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.7564697265625 2 540.753464 1079.49238 3.3178 0.0017941 0.20144 0.00010893 3.5192 0.001903 540.753669178392 42.62 0.2154 42.89 42.756 42.972 0.27021 14 8 2 0 0 0 0.0019388 1 19439 19439 104.8 68.755 1 763750 2152 1765 1727 1729 2219 2219 -0.0441912669039084 AYLEAIHNF 9 Unmodified _AYLEAIHNF_ 0 0 0 ENSG00000042753|ENST00000263270|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.2739868164062 2 539.271824 1076.5291 3.3404 0.0018014 0.15034 8.1074E-05 3.4907 0.0018825 539.2718865761332 57.179 0.31017 57.179 57.04 57.35 0 90 31 4 0 0 0 0.0012577 3 26358 26308;26358;26405 123.45 85.477 1 13335000 2153 543 1728 1730 2220;2221;2222 2221 -0.006108300738333128 AYLEAIHNF 9 Unmodified _AYLEAIHNF_ 0 0 0 ENSG00000042753|ENST00000263270|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.2734375 2 539.271824 1076.5291 2.8348 0.0015287 0.023499 1.2672E-05 2.8583 0.0015414 539.2716930846378 56.201 0.32483 56.978 56.824 57.149 0.77786 71 29 3 0 0 0 8.6202E-14 3 25692 25648;25692;25742 164.52 126.54 1 12988000 2154 543 1728 1730 2223;2224;2225 2224 -0.006108300738333128 AYLEAIHNF 9 Unmodified _AYLEAIHNF_ 0 0 0 ENSG00000042753|ENST00000263270|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.2731323242188 2 539.271824 1076.5291 3.1114 0.0016779 -0.20458 -0.00011032 2.9068 0.0015676 539.2716758112861 57.052 0.29087 57.317 57.16 57.45 0.26444 42 14 4 0 0 0 0.0014219 2 26075 26075;26138 111.29 73.313 1 9354000 2155 543 1728 1730 2226;2227 2226 -0.006108300738333128 AYLEAIHNF 9 Unmodified _AYLEAIHNF_ 0 0 0 ENSG00000042753|ENST00000263270|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.2737426757812 2 539.271824 1076.5291 3.3797 0.0018226 -0.20983 -0.00011316 3.1698 0.0017094 539.2716629674802 56.435 0.38948 57.103 56.907 57.296 0.66829 67 22 4 0 0 0 9.285E-05 3 25814 25770;25814;25866 136.33 98.359 1 6602400 2156 543 1728 1730 2228;2229;2230 2229 -0.006108300738333128 AYLEAYKEF 9 Unmodified _AYLEAYKEF_ 0 0 0 ENSG00000139163|ENST00000266517|ETNK1;nc|ENSG00000139163|Q9HBU6|ETNK1 ENSG00000139163|ENST00000266517|ETNK1 ENSG00000139163|ENST00000266517|ETNK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.2826538085938 2 567.279315 1132.54408 3.7818 0.0021453 0.25945 0.00014718 4.0412 0.0022925 567.2790727247028 54.127 0.25857 54.127 54 54.259 0 48 20 3 0 0 0 0.013715 2 24805 24805;24860 76.825 27.27 1 1342000 2157 3132 1729 1731 2231;2232 2231 -0.01689382996482891 AYLEAYKEF 9 Unmodified _AYLEAYKEF_ 0 0 0 ENSG00000139163|ENST00000266517|ETNK1;nc|ENSG00000139163|Q9HBU6|ETNK1 ENSG00000139163|ENST00000266517|ETNK1 ENSG00000139163|ENST00000266517|ETNK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.2799072265625 2 567.279315 1132.54408 3.3235 0.0018854 -0.48568 -0.00027552 2.8378 0.0016098 567.2788844293249 53.065 0.22272 53.868 53.675 53.898 0.8035 23 15 2 0 0 0 0.021401 1 24145 24145 66.457 16.902 1 2161100 2158 3132 1729 1731 2233 2233 -0.01689382996482891 AYLEAYKEF 9 Unmodified _AYLEAYKEF_ 0 0 0 ENSG00000139163|ENST00000266517|ETNK1;nc|ENSG00000139163|Q9HBU6|ETNK1 ENSG00000139163|ENST00000266517|ETNK1 ENSG00000139163|ENST00000266517|ETNK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.28173828125 2 567.279315 1132.54408 3.4506 0.0019574 0.3525 0.00019997 3.8031 0.0021574 567.2792236706617 54.021 0.29663 54.286 54.137 54.434 0.26462 31 12 3 0 0 0 0.053453 1 24685 24685 45.7 14.431 1 721970 2159 3132 1729 1731 2234 2234 -0.01689382996482891 AYLEAYKEF 9 Unmodified _AYLEAYKEF_ 0 0 0 ENSG00000139163|ENST00000266517|ETNK1;nc|ENSG00000139163|Q9HBU6|ETNK1 ENSG00000139163|ENST00000266517|ETNK1 ENSG00000139163|ENST00000266517|ETNK1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 567.279315 1132.54408 3.4295 0.0019455 -0.41333 -0.00023447 3.0162 0.001711 567.2792840591505 53.565 0.30536 54.23 54.003 54.309 0.6644 0.10188 -0.00043175 NaN 76.825 27 14 3 NaN NaN NaN NaN 0 NaN NaN 0 748400 2160 3132 1729 1731 -0.01689382996482891 AYLESFYKF 9 Unmodified _AYLESFYKF_ 0 0 0 ENSG00000159720|ENST00000290949|ATP6V0D1 ENSG00000159720|ENST00000290949|ATP6V0D1 ENSG00000159720|ENST00000290949|ATP6V0D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.2921142578125 2 584.289682 1166.56481 2.9216 0.0017071 -0.53148 -0.00031054 2.3901 0.0013965 584.2890559711906 70.073 0.20407 70.073 69.934 70.138 0 47 22 3 0 0 0 0.0063542 2 33885 33885;33940 88.954 33.451 1 5233000 2161 4032 1730 1732 2235;2236 2235 -0.011807926168103222 AYLESFYKF 9 Unmodified _AYLESFYKF_ 0 0 0 ENSG00000159720|ENST00000290949|ATP6V0D1 ENSG00000159720|ENST00000290949|ATP6V0D1 ENSG00000159720|ENST00000290949|ATP6V0D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.291259765625 2 584.289682 1166.56481 2.6291 0.0015362 0.17108 9.996E-05 2.8002 0.0016361 584.7917702434966 68.993 0.13569 69.695 69.594 69.729 0.70218 20 13 2 0 0 0 0.02234 1 32917 32917 65.235 24.996 1 5553000 2162 4032 1730 1732 2237 2237 -0.011807926168103222 AYLESFYKF 9 Unmodified _AYLESFYKF_ 0 0 0 ENSG00000159720|ENST00000290949|ATP6V0D1 ENSG00000159720|ENST00000290949|ATP6V0D1 ENSG00000159720|ENST00000290949|ATP6V0D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.2914428710938 2 584.289682 1166.56481 3.4488 0.0020151 0.41949 0.0002451 3.8683 0.0022602 584.2897930005771 69.979 0.33929 70.235 70.095 70.434 0.25642 59 22 3 0 0 0 0.00097604 3 32051 32005;32051;32107 126.57 64.964 1 3151400 2163 4032 1730 1732 2238;2239;2240 2239 -0.011807926168103222 AYLESFYKF 9 Unmodified _AYLESFYKF_ 0 0 0 ENSG00000159720|ENST00000290949|ATP6V0D1 ENSG00000159720|ENST00000290949|ATP6V0D1 ENSG00000159720|ENST00000290949|ATP6V0D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.2913208007812 2 584.289682 1166.56481 3.2443 0.0018956 0.28873 0.0001687 3.5331 0.0020643 584.2896083064987 69.513 0.35291 70.174 69.999 70.352 0.66071 62 26 3 0 0 0 0.0020791 3 31873 31825;31873;31922 103.35 41.752 1 3290800 2164 4032 1730 1732 2241;2242;2243 2242 -0.011807926168103222 AYLHTTTTF 9 Unmodified _AYLHTTTTF_ 0 0 0 ENST00000502426.5_1_17:48736553-48755440:+|nuORF;nc|ENSG00000108846|O15438-2|ABCC3;ENSG00000108846|ENST00000285238|ABCC3;nc|ENSG00000108846|O15438-4|ABCC3;nc|ENSG00000108846|O15438-5|ABCC3 ENST00000502426.5_1_17:48736553-48755440:+|nuORF ENST00000502426.5_1_17:48736553-48755440:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.7648315429688 2 527.763832 1053.51311 3.1111 0.0016419 -0.10035 -5.2959E-05 3.0108 0.001589 527.7637837563474 41.468 0.28213 41.468 41.307 41.589 0 93 38 3 0 0 0 0.0022375 3 18902 18809;18856;18902 101.72 67.32 1 16592000 2165 1656 1731 1733 2244;2245;2246 2246 -0.011505363107289668 AYLHTTTTF 9 Unmodified _AYLHTTTTF_ 0 0 0 ENST00000502426.5_1_17:48736553-48755440:+|nuORF;nc|ENSG00000108846|O15438-2|ABCC3;ENSG00000108846|ENST00000285238|ABCC3;nc|ENSG00000108846|O15438-4|ABCC3;nc|ENSG00000108846|O15438-5|ABCC3 ENST00000502426.5_1_17:48736553-48755440:+|nuORF ENST00000502426.5_1_17:48736553-48755440:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.7656860351562 2 527.763832 1053.51311 3.1388 0.0016565 -0.021831 -1.1521E-05 3.1169 0.001645 527.7637536149163 40.544 0.24701 41.346 41.183 41.43 0.80253 60 17 4 0 0 0 0.00147 2 18400 18353;18400 109.63 77.324 1 12850000 2166 1656 1731 1733 2247;2248 2248 -0.011505363107289668 AYLHTTTTF 9 Unmodified _AYLHTTTTF_ 0 0 0 ENST00000502426.5_1_17:48736553-48755440:+|nuORF;nc|ENSG00000108846|O15438-2|ABCC3;ENSG00000108846|ENST00000285238|ABCC3;nc|ENSG00000108846|O15438-4|ABCC3;nc|ENSG00000108846|O15438-5|ABCC3 ENST00000502426.5_1_17:48736553-48755440:+|nuORF ENST00000502426.5_1_17:48736553-48755440:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.2672119140625 2 527.763832 1053.51311 3.5147 0.0018549 0.040636 2.1446E-05 3.5553 0.0018764 527.7637630292968 41.39 0.28685 41.659 41.495 41.782 0.26904 55 24 3 0 0 0 0.0026885 3 18802 18802;18852;18905 97.075 66.85 1 6756100 2167 1656 1731 1733 2249;2250;2251 2249 -0.011505363107289668 AYLHTTTTF 9 Unmodified _AYLHTTTTF_ 0 0 0 ENST00000502426.5_1_17:48736553-48755440:+|nuORF;nc|ENSG00000108846|O15438-2|ABCC3;ENSG00000108846|ENST00000285238|ABCC3;nc|ENSG00000108846|O15438-4|ABCC3;nc|ENSG00000108846|O15438-5|ABCC3 ENST00000502426.5_1_17:48736553-48755440:+|nuORF ENST00000502426.5_1_17:48736553-48755440:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.7656860351562 2 527.763832 1053.51311 3.4853 0.0018394 0.30021 0.00015844 3.7855 0.0019979 527.7639328322869 40.771 0.25357 41.415 41.258 41.512 0.64376 47 15 4 0 0 0 0.0026885 2 18642 18600;18642 97.075 59.202 1 3405000 2168 1656 1731 1733 2252;2253 2253 -0.011505363107289668 AYLHTTTTF 9 Unmodified _AYLHTTTTF_ 0 0 0 ENST00000502426.5_1_17:48736553-48755440:+|nuORF;nc|ENSG00000108846|O15438-2|ABCC3;ENSG00000108846|ENST00000285238|ABCC3;nc|ENSG00000108846|O15438-4|ABCC3;nc|ENSG00000108846|O15438-5|ABCC3 ENST00000502426.5_1_17:48736553-48755440:+|nuORF ENST00000502426.5_1_17:48736553-48755440:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.7660522460938 2 527.763832 1053.51311 NaN NaN NaN NaN NaN NaN NaN 40.883 1 41.528 41.028 42.028 0.64451 0 0 0 0.012584 1 18690 18690 81.864 51.228 1 2169 1656 1731 1733 2254 2254 -0.011505363107289668 AYLKAIVLF 9 Unmodified _AYLKAIVLF_ 0 0 0 ENST00000552484.1_1_12:95422157-95422295:-|nuORF;ENST00000547594.5_1_12:95420624-95451409:-|nuORF;ENST00000475707.5_1_3:15045421-15079667:+|nuORF;ENSG00000177463|ENST00000425241|NR2C2;ENSG00000120798|ENST00000333003|NR2C1;nc|ENSG00000177463|P49116-2|NR2C2 ENST00000552484.1_1_12:95422157-95422295:-|nuORF ENST00000552484.1_1_12:95422157-95422295:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.324951171875 2 519.323328 1036.6321 2.8148 0.0014618 -0.62476 -0.00032445 2.19 0.0011373 519.3231800946844 78.531 0.15547 78.995 78.862 79.017 0.4642 22 14 2 0 0 0 0.047285 1 38192 38192 48.346 13.944 1 1128900 2170 2212 1732 1734 2255 2255 0.11525282384764068 AYLKAIVLF 9 Unmodified _AYLKAIVLF_ 0 0 0 ENST00000552484.1_1_12:95422157-95422295:-|nuORF;ENST00000547594.5_1_12:95420624-95451409:-|nuORF;ENST00000475707.5_1_3:15045421-15079667:+|nuORF;ENSG00000177463|ENST00000425241|NR2C2;ENSG00000120798|ENST00000333003|NR2C1;nc|ENSG00000177463|P49116-2|NR2C2 ENST00000552484.1_1_12:95422157-95422295:-|nuORF ENST00000552484.1_1_12:95422157-95422295:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 519.3251342773438 2 519.323328 1036.6321 3.2232 0.0016739 0.18648 9.6845E-05 3.4097 0.0017707 519.3233414113731 79.086 0.30405 79.337 79.209 79.514 0.25127 36 21 2 0 0 0 0.062556 1 36458 36458 42.095 21.641 1 657800 2171 2212 1732 1734 2256 2256 0.11525282384764068 AYLKAIVLF 9 Unmodified _AYLKAIVLF_ 0 0 0 ENST00000552484.1_1_12:95422157-95422295:-|nuORF;ENST00000547594.5_1_12:95420624-95451409:-|nuORF;ENST00000475707.5_1_3:15045421-15079667:+|nuORF;ENSG00000177463|ENST00000425241|NR2C2;ENSG00000120798|ENST00000333003|NR2C1;nc|ENSG00000177463|P49116-2|NR2C2 ENST00000552484.1_1_12:95422157-95422295:-|nuORF ENST00000552484.1_1_12:95422157-95422295:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 519.3250732421875 2 519.323328 1036.6321 3.3435 0.0017363 0.31477 0.00016347 3.6582 0.0018998 519.3235113156842 78.529 0.25752 79.191 79.064 79.322 0.66198 29 17 2 0 0 0 0.062556 1 36185 36185 42.095 17.421 1 983220 2172 2212 1732 1734 2257 2257 0.11525282384764068 AYLKEVEQL 9 Unmodified _AYLKEVEQL_ 0 0 0 ENST00000476672.1_1_3:180675662-180688154:+|nuORF;nc|ENSG00000114416|P51114-3|FXR1;nc|ENSG00000114416|P51114-2|FXR1;ENSG00000114416|ENST00000357559|FXR1 ENST00000476672.1_1_3:180675662-180688154:+|nuORF ENST00000476672.1_1_3:180675662-180688154:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.2254638671875 2 546.800414 1091.58628 3.7259 0.0020373 -0.36261 -0.00019828 3.3633 0.0018391 546.8001636434036 48.62 0.26068 48.62 48.524 48.785 0 30 15 3 0 0 0 0.0046306 1 22254 22254 57.722 26.454 1 616710 2173 1904 1733 1735 2258 2258 0.04414592411899321 AYLKEVEQL 9 Unmodified _AYLKEVEQL_ 0 0 0 ENST00000476672.1_1_3:180675662-180688154:+|nuORF;nc|ENSG00000114416|P51114-3|FXR1;nc|ENSG00000114416|P51114-2|FXR1;ENSG00000114416|ENST00000357559|FXR1 ENST00000476672.1_1_3:180675662-180688154:+|nuORF ENST00000476672.1_1_3:180675662-180688154:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.802490234375 2 546.800414 1091.58628 3.091 0.0016902 -0.60091 -0.00032858 2.4901 0.0013616 546.800045648912 47.512 0.19227 48.341 48.215 48.407 0.82915 26 13 2 0 0 0 0.0020791 1 21642 21642 103.35 23.757 1 620900 2174 1904 1733 1735 2259 2259 0.04414592411899321 AYLKEVEQL 9 Unmodified _AYLKEVEQL_ 0 0 0 ENST00000476672.1_1_3:180675662-180688154:+|nuORF;nc|ENSG00000114416|P51114-3|FXR1;nc|ENSG00000114416|P51114-2|FXR1;ENSG00000114416|ENST00000357559|FXR1 ENST00000476672.1_1_3:180675662-180688154:+|nuORF ENST00000476672.1_1_3:180675662-180688154:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.2265014648438 2 546.800414 1091.58628 3.7046 0.0020257 0.10128 5.5378E-05 3.8059 0.0020811 546.8002280808486 48.563 0.15672 48.825 48.775 48.932 0.2621 7 5 2 0 0 0 0.0094917 1 22232 22232 53.833 11.993 1 309340 2175 1904 1733 1735 2260 2260 0.04414592411899321 AYLKEVEQL 9 Unmodified _AYLKEVEQL_ 0 0 0 ENST00000476672.1_1_3:180675662-180688154:+|nuORF;nc|ENSG00000114416|P51114-3|FXR1;nc|ENSG00000114416|P51114-2|FXR1;ENSG00000114416|ENST00000357559|FXR1 ENST00000476672.1_1_3:180675662-180688154:+|nuORF ENST00000476672.1_1_3:180675662-180688154:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.2258911132812 2 546.800414 1091.58628 3.62 0.0019794 1.6659 0.0009109 5.2858 0.0028903 546.8006874346931 48.042 0.22279 48.695 48.562 48.785 0.65356 13 7 2 0 0 0 0.092097 1 21964 21964 17.113 3.2068 1 184780 2176 1904 1733 1735 2261 2261 0.04414592411899321 AYLLNLNHL 9 Unmodified _AYLLNLNHL_ 0 0 0 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 535.8045654296875 2 535.803291 1069.59203 2.496 0.0013374 0.42366 0.000227 2.9196 0.0015643 535.8037341701062 68.544 0.27279 69.246 69.059 69.332 0.70218 47 27 2 0 0 0 0.018173 1 32623 32623 70.716 32.742 1 3567700 2177 720 1734 1736 2262 2262 0.06001735714221468 AYLLNLNHL 9 Unmodified _AYLLNLNHL_ 0 0 0 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.8048706054688 2 535.803291 1069.59203 3.1317 0.001678 0.39369 0.00021094 3.5254 0.0018889 535.8035085814091 69.377 0.28735 69.632 69.494 69.781 0.25443 51 20 4 0 0 0 0.012869 3 31767 31755;31767;31805 77.984 41.94 1 2149000 2178 720 1734 1736 2263;2264;2265 2264 0.06001735714221468 AYLLNLNHL 9 Unmodified _AYLLNLNHL_ 0 0 0 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.8047485351562 2 535.803291 1069.59203 3.0131 0.0016144 -1.2321 -0.00066016 1.781 0.00095428 535.8034225695785 68.842 0.29218 69.501 69.345 69.637 0.65925 48 21 3 0 0 0 0.012869 1 31533 31533 77.984 41.857 1 1747500 2179 720 1734 1736 2266 2266 0.06001735714221468 AYLNITKHL 9 Unmodified _AYLNITKHL_ 0 0 0 nc|ENSG00000122008|Q9UBT6-2|POLK;ENST00000508867.5_1_5:74842847-74877278:+|nuORF;ENST00000506928.5_1_5:74842847-74879138:+|nuORF;nc|ENSG00000122008|Q9UBT6-7|POLK;nc|ENSG00000122008|Q9UBT6-4|POLK;nc|ENSG00000122008|Q9UBT6-6|POLK;nc|ENSG00000122008|Q9UBT6-5|POLK;nc|ENSG00000122008|Q9UBT6-3|POLK;nc|ENSG00000122008|Q9UBT6-8|POLK;ENSG00000122008|ENST00000241436|POLK nc|ENSG00000122008|Q9UBT6-2|POLK nc|ENSG00000122008|Q9UBT6-2|POLK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 358.21044921875 3 358.209836 1071.60768 2.7177 0.0009735 0.63379 0.00022703 3.3515 0.0012005 358.2099339710196 40.714 0.15455 41.356 41.297 41.452 0.64136 15 8 2 0 0 0 0.41574 1 18630 18630 9.544 5.0151 1 300240 2180 9619 1735 1737 2267 2267 0.07474022231258459 AYLPEWKENI 10 Unmodified _AYLPEWKENI_ 0 0 0 ENST00000392900.3_1_7:143551228-143582358:-|nuORF;ENST00000414990.2_3_7:143295168-143301929:+|nuORF;nc|ENSG00000198420|Q9Y4C2-2|TCAF1;ENSG00000198420|ENST00000479870|TCAF1 ENST00000392900.3_1_7:143551228-143582358:-|nuORF ENST00000392900.3_1_7:143551228-143582358:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 631.8265991210938 2 631.824421 1261.63429 3.143 0.0019859 -0.20948 -0.00013236 2.9336 0.0018535 631.8240521430778 59.88 0.091667 60.629 60.562 60.654 0.74927 18 11 2 0 0 0 0.14459 1 27513 27513 61.602 25.475 1 3773500 2181 7524 1736 1738 2268 2268 0.01393666331955501 AYLPEWKENI 10 Unmodified _AYLPEWKENI_ 0 0 0 ENST00000392900.3_1_7:143551228-143582358:-|nuORF;ENST00000414990.2_3_7:143295168-143301929:+|nuORF;nc|ENSG00000198420|Q9Y4C2-2|TCAF1;ENSG00000198420|ENST00000479870|TCAF1 ENST00000392900.3_1_7:143551228-143582358:-|nuORF ENST00000392900.3_1_7:143551228-143582358:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 631.8270263671875 2 631.824421 1261.63429 3.8876 0.0024563 -0.46877 -0.00029618 3.4188 0.0021601 631.8239634041316 60.234 0.26908 60.899 60.803 61.072 0.66503 20 14 2 0 0 0 0.12115 1 27595 27595 66.457 30.33 1 906640 2182 7524 1736 1738 2269 2269 0.01393666331955501 AYLPKILQI 9 Unmodified _AYLPKILQI_ 0 0 0 ENSG00000120800|ENST00000261637|UTP20;UTP20|p.F1622Lfs*17|1|0.09|ENSG00000120800|chr12:101346566-101346567|-/TTTAGTATCGTATTCTC|frameshift_variant ENSG00000120800|ENST00000261637|UTP20 ENSG00000120800|ENST00000261637|UTP20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.8359375 2 529.83406 1057.65357 2.5383 0.0013449 0.53773 0.00028491 3.076 0.0016298 529.834252155769 75.876 0.31447 75.876 75.71 76.025 0 54 24 3 0 0 0 0.0044949 2 37196 37145;37196 92.822 0 1 2218600 2183 2213 1737 1739 2270;2271 2271 0.12704667413527204 AYLPKILQI 9 Unmodified _AYLPKILQI_ 0 0 0 ENSG00000120800|ENST00000261637|UTP20;UTP20|p.F1622Lfs*17|1|0.09|ENSG00000120800|chr12:101346566-101346567|-/TTTAGTATCGTATTCTC|frameshift_variant ENSG00000120800|ENST00000261637|UTP20 ENSG00000120800|ENST00000261637|UTP20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.8360595703125 2 529.83406 1057.65357 2.9368 0.001556 0.88971 0.0004714 3.8266 0.0020274 529.834323217997 75.712 0.27088 75.969 75.798 76.069 0.25705 39 22 2 0 0 0 0.010221 1 34832 34832 81.613 0 1 1232900 2184 2213 1737 1739 2272 2272 0.12704667413527204 AYLPKILQI 9 Unmodified _AYLPKILQI_ 0 0 0 ENSG00000120800|ENST00000261637|UTP20;UTP20|p.F1622Lfs*17|1|0.09|ENSG00000120800|chr12:101346566-101346567|-/TTTAGTATCGTATTCTC|frameshift_variant ENSG00000120800|ENST00000261637|UTP20 ENSG00000120800|ENST00000261637|UTP20 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 529.83406 1057.65357 2.6103 0.001383 -0.037685 -1.9967E-05 2.5726 0.001363 529.8337394868147 74.974 0.1852 75.637 75.593 75.778 0.6635 -0.19401 -0.00037816 NaN 92.822 19 14 2 NaN NaN NaN NaN 0 NaN NaN 0 2874500 2185 2213 1737 1739 0.12704667413527204 AYLPKILQI 9 Unmodified _AYLPKILQI_ 0 0 0 ENSG00000120800|ENST00000261637|UTP20;UTP20|p.F1622Lfs*17|1|0.09|ENSG00000120800|chr12:101346566-101346567|-/TTTAGTATCGTATTCTC|frameshift_variant ENSG00000120800|ENST00000261637|UTP20 ENSG00000120800|ENST00000261637|UTP20 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 529.83406 1057.65357 2.8402 0.0015048 0.03789 2.0075E-05 2.8781 0.0015249 529.8342006701625 75.179 0.2563 75.844 75.709 75.965 0.6644 0.012198 -0.00029807 NaN 92.822 39 20 3 NaN NaN NaN NaN 0 NaN NaN 0 902840 2186 2213 1737 1739 0.12704667413527204 AYLPVNESF 9 Unmodified _AYLPVNESF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.2595825195312 2 520.258382 1038.50221 2.6282 0.0013674 0.43832 0.00022804 3.0666 0.0015954 520.2584904416262 67.63 0.26964 67.63 67.519 67.789 0 82 34 3 0 0 0 0.079031 2 32520 32464;32520 37.974 14.826 1 9922800 2187 4569 1738 1740 2273;2274 2274 -0.015499386850024166 AYLPVNESF 9 Unmodified _AYLPVNESF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1039.5137939453125 1 1039.50949 1038.50221 2.7898 0.0029 0.57821 0.00060105 3.368 0.0035011 1039.5100515065426 67.609 0.19637 67.609 67.576 67.772 0 37 25 2 0 0 0 0.0063783 2 32475 32475;32531 88.904 38.296 1 2835600 2188 4569 1738 1740 2275;2276 2275 -0.015499386850024166 AYLPVNESF 9 Unmodified _AYLPVNESF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.2599487304688 2 520.258382 1038.50221 2.7986 0.001456 -0.30094 -0.00015657 2.4977 0.0012994 520.2582243725724 66.704 0.31072 67.409 67.24 67.551 0.7047 91 37 3 0 0 0 0.02234 4 31632 31567;31579;31632;31678 65.235 15.302 1 8412600 2189 4569 1738 1740 2277;2278;2279;2280 2279 -0.015499386850024166 AYLPVNESF 9 Unmodified _AYLPVNESF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1039.5098876953125 1 1039.50949 1038.50221 2.902 0.0030166 -0.065482 -6.8069E-05 2.8365 0.0029485 1039.5091259261387 66.661 0.18434 67.366 67.302 67.487 0.7047 30 19 2 0 0 0 0.027384 2 31652 31606;31652 58.679 14.821 1 1581200 2190 4569 1738 1740 2281;2282 2282 -0.015499386850024166 AYLPVNESF 9 Unmodified _AYLPVNESF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.260498046875 2 520.258382 1038.50221 3.6147 0.0018806 0.11228 5.8416E-05 3.727 0.001939 520.2583184444271 67.279 0.4034 67.529 67.324 67.728 0.25011 79 24 4 0 0 0 0.0012577 2 30826 30779;30826 123.45 58.216 1 6376100 2191 4569 1738 1740 2283;2284 2284 -0.015499386850024166 AYLPVNESF 9 Unmodified _AYLPVNESF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1039.5145263671875 1 1039.50949 1038.50221 3.5785 0.0037199 0.57001 0.00059253 4.1485 0.0043124 1039.5101666563107 67.271 0.31194 67.521 67.37 67.682 0.2501 44 20 3 0 0 0 0.020151 3 30830 30784;30830;30881 68.081 20.378 1 1755600 2192 4569 1738 1740 2285;2286;2287 2286 -0.015499386850024166 AYLPVNESF 9 Unmodified _AYLPVNESF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.2603759765625 2 520.258382 1038.50221 3.4045 0.0017712 -0.07124 -3.7063E-05 3.3333 0.0017342 520.2583229191675 66.699 0.421 67.356 67.162 67.583 0.65672 76 24 4 0 0 0 0.0028306 3 30573 30520;30573;30618 96.285 46.352 1 6190200 2193 4569 1738 1740 2288;2289;2290 2289 -0.015499386850024166 AYLPVNESF 9 Unmodified _AYLPVNESF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1039.512451171875 1 1039.50949 1038.50221 3.5754 0.0037166 0.16187 0.00016826 3.7373 0.0038849 1039.509335217646 66.715 0.35645 67.372 67.2 67.557 0.65672 46 21 3 0 0 0 0.010018 2 30617 30572;30617 81.89 23.211 1 1586300 2194 4569 1738 1740 2291;2292 2292 -0.015499386850024166 AYLPVNESFGF 11 Unmodified _AYLPVNESFGF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 622.3063354492188 2 622.303321 1242.59209 3.7285 0.0023203 -0.042708 -2.6577E-05 3.6858 0.0022937 622.3034234452235 85.329 0.33372 85.577 85.416 85.75 0.24857 33 20 2 0 0 0 0.16452 1 39274 39274 30.637 13.524 1 833520 2195 4569 1739 1741 2293 2293 -0.01950309076460144 AYLPVNESFGF 11 Unmodified _AYLPVNESFGF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 622.3080444335938 2 622.303321 1242.59209 3.8394 0.0023892 0.00021412 1.3324E-07 3.8396 0.0023894 622.3032792099392 84.759 0.2934 85.425 85.282 85.575 0.66566 35 15 3 0 0 0 0.05848 2 39020 39020;39065 49.933 39.109 1 771210 2196 4569 1739 1741 2294;2295 2294 -0.01950309076460144 AYLSGMLRF 9 Unmodified _AYLSGMLRF_ 0 0 0 ENST00000587864.1_1_17:74057571-74060203:-|nuORF;nc|ENSG00000167881|Q9UHB9-4|SRP68;nc|ENSG00000167881|Q9UHB9-2|SRP68;ENSG00000167881|ENST00000307877|SRP68 ENST00000587864.1_1_17:74057571-74060203:-|nuORF ENST00000587864.1_1_17:74057571-74060203:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.28076171875 2 529.278595 1056.54264 2.5139 0.0013306 0.87315 0.00046214 3.387 0.0017927 529.2792138466011 72.583 0.19877 72.583 72.514 72.713 0 25 18 2 0 0 0 0.048676 1 35331 35331 47.749 17.112 1 808430 2197 4585 1740 1742 2296 2296 0.016627044337838015 AYLSGMLRF 9 Unmodified _AYLSGMLRF_ 0 0 0 ENST00000587864.1_1_17:74057571-74060203:-|nuORF;nc|ENSG00000167881|Q9UHB9-4|SRP68;nc|ENSG00000167881|Q9UHB9-2|SRP68;ENSG00000167881|ENST00000307877|SRP68 ENST00000587864.1_1_17:74057571-74060203:-|nuORF ENST00000587864.1_1_17:74057571-74060203:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.2794189453125 2 529.278595 1056.54264 NaN NaN NaN NaN NaN NaN NaN 72.348 1 72.607 72.107 73.107 0.25876 0 0 0 0.11997 1 33211 33211 37.974 9.4872 1 2198 4585 1740 1742 2297 2297 0.016627044337838015 AYLSGMLRF 9 Unmodified _AYLSGMLRF_ 0 0 0 ENST00000587864.1_1_17:74057571-74060203:-|nuORF;nc|ENSG00000167881|Q9UHB9-4|SRP68;nc|ENSG00000167881|Q9UHB9-2|SRP68;ENSG00000167881|ENST00000307877|SRP68 ENST00000587864.1_1_17:74057571-74060203:-|nuORF ENST00000587864.1_1_17:74057571-74060203:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 529.278595 1056.54264 2.6121 0.0013825 -0.063993 -3.387E-05 2.5481 0.0013487 529.2786089107062 71.909 0.16856 72.572 72.476 72.644 0.66325 -0.0053222 -0.00037808 NaN 47.749 16 11 2 NaN NaN NaN NaN 0 NaN NaN 0 335290 2199 4585 1740 1742 0.016627044337838015 AYLSKAMEI 9 Unmodified _AYLSKAMEI_ 0 0 0 ENSG00000124784|ENST00000379834|RIOK1 ENSG00000124784|ENST00000379834|RIOK1 ENSG00000124784|ENST00000379834|RIOK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.2716064453125 2 513.270435 1024.52632 3.2055 0.0016453 0.21296 0.00010931 3.4184 0.0017546 513.2702681511453 50.409 0.26166 50.409 50.268 50.53 0 19 10 2 0 0 0 0.0090098 1 23088 23088 83.429 29.596 1 1023400 2200 2380 1741 1743 2298 2298 0.015035784770134342 AYLSKAMEI 9 Unmodified _AYLSKAMEI_ 0 0 0 ENSG00000124784|ENST00000379834|RIOK1 ENSG00000124784|ENST00000379834|RIOK1 ENSG00000124784|ENST00000379834|RIOK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.2724609375 2 513.270435 1024.52632 3.3141 0.001701 -0.44692 -0.00022939 2.8672 0.0014716 513.270088482817 49.361 0.31777 50.188 50.005 50.323 0.82705 29 14 3 0 0 0 0.018453 2 22465 22465;22524 70.332 24.632 1 828490 2201 2380 1741 1743 2299;2300 2299 0.015035784770134342 AYLSKAMEI 9 Unmodified _AYLSKAMEI_ 0 0 0 ENSG00000124784|ENST00000379834|RIOK1 ENSG00000124784|ENST00000379834|RIOK1 ENSG00000124784|ENST00000379834|RIOK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.2709350585938 2 513.270435 1024.52632 3.4268 0.0017589 -1.0288 -0.00052805 2.398 0.0012308 513.2697193885099 49.631 0.20679 50.288 50.167 50.373 0.65735 13 6 3 0 0 0 0.21008 1 22721 22721 22.736 3.4793 1 521030 2202 2380 1741 1743 2301 2301 0.015035784770134342 AYLSKAMEI 9 Unmodified _AYLSKAMEI_ 0 0 0 ENSG00000124784|ENST00000379834|RIOK1 ENSG00000124784|ENST00000379834|RIOK1 ENSG00000124784|ENST00000379834|RIOK1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 513.270435 1024.52632 3.3355 0.001712 0.10461 5.3695E-05 3.4401 0.0017657 513.2701741793501 50.271 0.20377 50.532 50.415 50.619 0.26146 0.17813 0.00032364 NaN 83.429 12 6 2 NaN NaN NaN NaN 0 NaN NaN 0 478550 2203 2380 1741 1743 0.015035784770134342 AYLVHIEHL 9 Unmodified _AYLVHIEHL_ 0 0 0 nc|ENSG00000171444|P23508|MCC;ENSG00000171444|ENST00000408903|MCC nc|ENSG00000171444|P23508|MCC nc|ENSG00000171444|P23508|MCC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 365.5393981933594 3 365.537953 1093.59203 2.7141 0.00099211 -0.47777 -0.00017464 2.2363 0.00081747 365.53782463396414 49.012 0.24124 49.012 48.876 49.118 0 28 12 3 0 0 0 0.099775 1 22440 22440 32.786 16.637 1 853660 2204 4801 1742 1744 2302 2302 0.04897735714234841 AYLVHIEHL 9 Unmodified _AYLVHIEHL_ 0 0 0 nc|ENSG00000171444|P23508|MCC;ENSG00000171444|ENST00000408903|MCC nc|ENSG00000171444|P23508|MCC nc|ENSG00000171444|P23508|MCC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.8051147460938 2 547.803291 1093.59203 3.679 0.0020154 0.64081 0.00035104 4.3198 0.0023664 547.8036475001395 49.02 0.14597 49.02 48.918 49.064 0 9 6 2 0 0 0 0.021401 1 22458 22458 74.423 40.021 1 397600 2205 4801 1742 1744 2303 2303 0.04897735714234841 AYLVHIEHL 9 Unmodified _AYLVHIEHL_ 0 0 0 nc|ENSG00000171444|P23508|MCC;ENSG00000171444|ENST00000408903|MCC nc|ENSG00000171444|P23508|MCC nc|ENSG00000171444|P23508|MCC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 365.8730773925781 3 365.537953 1093.59203 2.3379 0.00085459 -0.15601 -5.7026E-05 2.1819 0.00079756 365.5378271127035 47.895 0.26112 48.725 48.567 48.829 0.82915 24 10 3 0 0 0 0.15661 2 21845 21793;21845 26.268 14.773 1 881220 2206 4801 1742 1744 2304;2305 2305 0.04897735714234841 AYLVHIEHL 9 Unmodified _AYLVHIEHL_ 0 0 0 nc|ENSG00000171444|P23508|MCC;ENSG00000171444|ENST00000408903|MCC nc|ENSG00000171444|P23508|MCC nc|ENSG00000171444|P23508|MCC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.5391540527344 3 365.537953 1093.59203 2.6889 0.00098289 -0.046794 -1.7105E-05 2.6421 0.00096579 365.53790856683594 48.213 0.32938 48.867 48.682 49.011 0.65356 20 12 2 0 0 0 0.55815 1 22087 22087 11.495 6.5977 1 454130 2207 4801 1742 1744 2306 2306 0.04897735714234841 AYLVHIEHL 9 Unmodified _AYLVHIEHL_ 0 0 0 nc|ENSG00000171444|P23508|MCC;ENSG00000171444|ENST00000408903|MCC nc|ENSG00000171444|P23508|MCC nc|ENSG00000171444|P23508|MCC MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 365.537953 1093.59203 2.7749 0.0010143 -0.45296 -0.00016557 2.3219 0.00084875 365.53773764954025 48.757 0.24086 49.019 48.902 49.143 0.26209 0.11351 -0.00020105 NaN 32.786 15 9 2 NaN NaN NaN NaN 0 NaN NaN 0 575360 2208 4801 1742 1744 0.04897735714234841 AYMPHTFFI 9 Unmodified _AYMPHTFFI_ 0 0 0 nc|ENSG00000147162|O15294-4|OGT;nc|ENSG00000147162|O15294-2|OGT;nc|ENSG00000147162|O15294-3|OGT;ENSG00000147162|ENST00000373719|OGT nc|ENSG00000147162|O15294-4|OGT nc|ENSG00000147162|O15294-4|OGT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.77490234375 2 563.773145 1125.53174 2.8159 0.0015875 0.22222 0.00012528 3.0381 0.0017128 563.7733754944954 73.989 0.23792 73.989 73.877 74.115 0 38 24 2 0 0 0 0.026068 1 36120 36120 60.39 34.99 1 2289600 2209 3552 1743 1745 2307 2307 -0.026006979405110542 AYMPHTFFI 9 Unmodified _AYMPHTFFI_ 0 0 0 nc|ENSG00000147162|O15294-4|OGT;nc|ENSG00000147162|O15294-2|OGT;nc|ENSG00000147162|O15294-3|OGT;ENSG00000147162|ENST00000373719|OGT nc|ENSG00000147162|O15294-4|OGT nc|ENSG00000147162|O15294-4|OGT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.77490234375 2 563.773145 1125.53174 2.9057 0.0016381 0.068166 3.843E-05 2.9738 0.0016766 563.7734426509138 72.936 0.26016 73.634 73.485 73.745 0.69881 49 25 3 0 0 0 0.018173 1 35105 35105 70.716 40.079 1 2977800 2210 3552 1743 1745 2308 2308 -0.026006979405110542 AYMPHTFFI 9 Unmodified _AYMPHTFFI_ 0 0 0 nc|ENSG00000147162|O15294-4|OGT;nc|ENSG00000147162|O15294-2|OGT;nc|ENSG00000147162|O15294-3|OGT;ENSG00000147162|ENST00000373719|OGT nc|ENSG00000147162|O15294-4|OGT nc|ENSG00000147162|O15294-4|OGT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.7754516601562 2 563.773145 1125.53174 3.2737 0.0018456 0.19223 0.00010837 3.466 0.001954 563.7728835664151 73.739 0.27502 73.998 73.843 74.118 0.25876 48 28 2 0 0 0 0.018173 2 33858 33858;33914 70.716 40.079 1 1157800 2211 3552 1743 1745 2309;2310 2309 -0.026006979405110542 AYMPHTFFI 9 Unmodified _AYMPHTFFI_ 0 0 0 nc|ENSG00000147162|O15294-4|OGT;nc|ENSG00000147162|O15294-2|OGT;nc|ENSG00000147162|O15294-3|OGT;ENSG00000147162|ENST00000373719|OGT nc|ENSG00000147162|O15294-4|OGT nc|ENSG00000147162|O15294-4|OGT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.7750244140625 2 563.773145 1125.53174 2.991 0.0016862 0.094566 5.3314E-05 3.0855 0.0017395 563.7730667487311 73.189 0.21036 73.853 73.708 73.918 0.66398 39 22 2 0 0 0 0.012869 1 33590 33590 77.984 47.348 1 1309300 2212 3552 1743 1745 2311 2311 -0.026006979405110542 AYNEGIINLL 10 Unmodified _AYNEGIINLL_ 0 0 0 nc|ENSG00000073921|Q13492-3|PICALM;nc|ENSG00000073921|Q13492-4|PICALM;nc|ENSG00000073921|Q13492-2|PICALM;nc|ENSG00000073921|Q13492-5|PICALM;ENSG00000073921|ENST00000393346|PICALM;ENST00000531771.5_1_11:85718509-85733504:-|nuORF nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.8091430664062 2 560.305864 1118.59717 3.884 0.0021762 0.1346 7.5417E-05 4.0186 0.0022516 560.305809816916 89.137 0.26345 89.388 89.212 89.476 0.25118 25 11 3 0 0 0 0.0691 2 41001 40974;41001 57.722 23.32 1 510540 2213 9560 1744 1746 2312;2313 2313 0.04261994786179457 AYNEGIINLL 10 Unmodified _AYNEGIINLL_ 0 0 0 nc|ENSG00000073921|Q13492-3|PICALM;nc|ENSG00000073921|Q13492-4|PICALM;nc|ENSG00000073921|Q13492-2|PICALM;nc|ENSG00000073921|Q13492-5|PICALM;ENSG00000073921|ENST00000393346|PICALM;ENST00000531771.5_1_11:85718509-85733504:-|nuORF nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.30810546875 2 560.305864 1118.59717 3.7032 0.0020749 0.47289 0.00026496 4.1761 0.0023399 560.3055732133548 88.538 0.39491 89.216 88.988 89.382 0.67818 31 16 3 0 0 0 0.020136 1 40746 40746 70.332 33.257 1 743490 2214 9560 1744 1746 2314 2314 0.04261994786179457 AYNNQSNRL 9 Unmodified _AYNNQSNRL_ 0 0 0 ENST00000569800.5_1_16:69167425-69171817:+|nuORF;nc|ENSG00000141076|Q969X6-2|UTP4;nc|ENSG00000141076|Q969X6-3|UTP4;ENSG00000141076|ENST00000314423|UTP4 ENST00000569800.5_1_16:69167425-69171817:+|nuORF ENST00000569800.5_1_16:69167425-69171817:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.2686157226562 2 540.265062 1078.51557 3.2955 0.0017804 -0.94405 -0.00051004 2.3514 0.0012704 540.2653069197464 14.924 0.19337 14.924 14.828 15.021 0 24 19 2 0 0 0 0.41574 1 6584 6584 13.906 3.0821 1 84052 2215 3235 1745 1747 2315 2315 -0.02054687853046744 AYNNQSNRL 9 Unmodified _AYNNQSNRL_ 0 0 0 ENST00000569800.5_1_16:69167425-69171817:+|nuORF;nc|ENSG00000141076|Q969X6-2|UTP4;nc|ENSG00000141076|Q969X6-3|UTP4;ENSG00000141076|ENST00000314423|UTP4 ENST00000569800.5_1_16:69167425-69171817:+|nuORF ENST00000569800.5_1_16:69167425-69171817:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 540.265062 1078.51557 3.1162 0.0016836 0.72416 0.00039124 3.8403 0.0020748 540.2652972170366 14.498 0.084518 14.724 14.686 14.77 0.22622 -0.099997 0.00045039 NaN 13.906 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 123900 2216 3235 1745 1747 -0.02054687853046744 AYNPNTQTF 9 Unmodified _AYNPNTQTF_ 0 0 0 ENSG00000174405|ENST00000442234|LIG4 ENSG00000174405|ENST00000442234|LIG4 ENSG00000174405|ENST00000442234|LIG4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.7465209960938 2 528.243264 1054.47197 3.1542 0.0016662 1.1279 0.0005958 4.2821 0.002262 528.2437101844929 37.804 0.27699 38.438 38.304 38.581 0.63388 13 9 2 0 0 0 0.7295 1 17309 17309 8.5933 4.6489 1 186350 2217 4974 1746 1748 2316 2316 -0.05308297350211433 AYNPNTQTF 9 Unmodified _AYNPNTQTF_ 0 0 0 ENSG00000174405|ENST00000442234|LIG4 ENSG00000174405|ENST00000442234|LIG4 ENSG00000174405|ENST00000442234|LIG4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 528.243264 1054.47197 3.1794 0.0016795 0.18745 9.9017E-05 3.3668 0.0017785 528.2434612414879 38.365 0.18166 38.365 38.289 38.47 0 0.029263 -0.00062021 NaN 8.5933 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 417680 2218 4974 1746 1748 -0.05308297350211433 AYNPNTQTF 9 Unmodified _AYNPNTQTF_ 0 0 0 ENSG00000174405|ENST00000442234|LIG4 ENSG00000174405|ENST00000442234|LIG4 ENSG00000174405|ENST00000442234|LIG4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 528.243264 1054.47197 3.1748 0.0016771 0.36095 0.00019067 3.5357 0.0018677 528.2434906052188 37.408 0.18285 38.204 38.115 38.298 0.79552 -0.13187 -0.0004369 NaN 8.5933 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 249740 2219 4974 1746 1748 -0.05308297350211433 AYPEYLLTF 9 Unmodified _AYPEYLLTF_ 0 0 0 PARP14|p.I1797L|1|0.31|ENSG00000173193|chr3:122728580-122728580|A/C|missense_variant PARP14|p.I1797L|1|0.31|ENSG00000173193|chr3:122728580-122728580|A/C|missense_variant PARP14|p.I1797L|1|0.31|ENSG00000173193|chr3:122728580-122728580|A/C|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.7864990234375 2 558.784233 1115.55391 3.9171 0.0021888 0.23785 0.00013291 4.155 0.0023217 558.7842184047838 89.674 0.45763 89.925 89.708 90.166 0.25137 71 22 4 0 0 0 0.023109 4 41237 41192;41237;41295;41348 64.236 0 1 3642800 2220 9904 1747 1749 2317;2318;2319;2320 2318 0.0007580500889616815 AYPEYLLTF 9 Unmodified _AYPEYLLTF_ 0 0 0 PARP14|p.I1797L|1|0.31|ENSG00000173193|chr3:122728580-122728580|A/C|missense_variant PARP14|p.I1797L|1|0.31|ENSG00000173193|chr3:122728580-122728580|A/C|missense_variant PARP14|p.I1797L|1|0.31|ENSG00000173193|chr3:122728580-122728580|A/C|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1116.56640625 1 1116.56119 1115.55391 3.5336 0.0039455 -0.46686 -0.00052128 3.0668 0.0034242 1116.5604578138539 89.653 0.31305 89.905 89.799 90.112 0.25137 23 14 2 0 0 0 0.22507 2 41270 41218;41270 21.747 0 1 826660 2221 9904 1747 1749 2321;2322 2322 0.0007580500889616815 AYPEYLLTF 9 Unmodified _AYPEYLLTF_ 0 0 0 PARP14|p.I1797L|1|0.31|ENSG00000173193|chr3:122728580-122728580|A/C|missense_variant PARP14|p.I1797L|1|0.31|ENSG00000173193|chr3:122728580-122728580|A/C|missense_variant PARP14|p.I1797L|1|0.31|ENSG00000173193|chr3:122728580-122728580|A/C|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.7860107421875 2 558.784233 1115.55391 3.6965 0.0020655 0.36034 0.00020135 4.0568 0.0022669 558.7843647501178 89.116 0.44951 89.794 89.582 90.031 0.67818 49 18 3 0 0 0 0.023109 3 40980 40980;41026;41082 64.236 0 1 3934000 2222 9904 1747 1749 2323;2324;2325 2323 0.0007580500889616815 AYPHNLMTF 9 Unmodified _AYPHNLMTF_ 0 0 0 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.2613525390625 2 547.260402 1092.50625 3.6348 0.0019892 -0.5005 -0.0002739 3.1343 0.0017153 547.2600847393836 58.334 0.73022 58.334 58.019 58.749 0 163 73 4 0 0 0 1.8233E-05 6 26854 26807;26854;26919;26967;27015;27059 144.35 89.577 1 9036300 2223 720 1748 1750 2326;2327;2328;2329;2330;2331 2327 -0.03630172462931114 AYPHNLMTF 9 Unmodified _AYPHNLMTF_ 0 0 0 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.2612915039062 2 547.260402 1092.50625 NaN NaN NaN NaN NaN NaN NaN 58.781 1 58.781 58.281 59.281 0 0 0 0 0.45908 1 27144 27144 20.454 0 1 2224 720 1748 1750 2332 2332 -0.03630172462931114 AYPHNLMTF 9 Unmodified _AYPHNLMTF_ 0 0 0 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.2620239257812 2 547.260402 1092.50625 2.9335 0.0016054 -0.6313 -0.00034549 2.3022 0.0012599 547.2600964944402 57.355 0.64193 58.123 57.755 58.397 0.76861 155 68 4 0 0 0 9.285E-05 4 26149 26149;26202;26268;26362 136.33 81.56 1 9621300 2225 720 1748 1750 2333;2334;2335;2336 2333 -0.03630172462931114 AYPHNLMTF 9 Unmodified _AYPHNLMTF_ 0 0 0 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.26171875 2 547.260402 1092.50625 3.5218 0.0019273 -0.85724 -0.00046913 2.6646 0.0014582 547.2596858413044 58.194 0.30972 58.456 58.171 58.481 0.26228 40 23 2 0 0 0 0.0013631 2 26615 26569;26615 115.69 60.918 1 4432600 2226 720 1748 1750 2337;2338 2338 -0.03630172462931114 AYPHNLMTF 9 Unmodified _AYPHNLMTF_ 0 0 0 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.2622680664062 2 547.260402 1092.50625 3.5902 0.0019648 -0.81264 -0.00044472 2.7776 0.0015201 547.2598947334013 57.591 0.59503 58.259 58.035 58.63 0.66829 113 36 4 0 0 0 0.086415 1 26510 26510 36.127 5.4905 1 2994100 2227 720 1748 1750 2339 2339 -0.03630172462931114 AYPHNLMTF 9 Oxidation (M) _AYPHNLM(Oxidation (M))TF_ AYPHNLM(1)TF AYPHNLM(48)TF 0 0 1 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.2595825195312 2 555.257859 1108.50117 3.4779 0.0019311 -0.086567 -4.8067E-05 3.3913 0.001883 555.2577456619159 43.402 0.40461 43.672 43.579 43.984 0.27021 36 16 3 0 0 0 0.047285 2 19817 19817;19874 48.346 34.838 1 643120 2228 720 1748 1751 2340;2341 2340 4 -0.04874476325562682 AYPHNLMTF 9 Oxidation (M) _AYPHNLM(Oxidation (M))TF_ AYPHNLM(1)TF AYPHNLM(50)TF 0 0 1 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.259765625 2 555.257859 1108.50117 3.6602 0.0020323 -0.033117 -1.8389E-05 3.6271 0.002014 555.7594736144708 42.797 0.26818 43.444 43.41 43.678 0.64693 19 15 2 0 0 0 0.043585 1 19643 19643 49.933 35.095 1 852410 2229 720 1748 1751 2342 2342 4 -0.04874476325562682 AYPPAPFMHI 10 Unmodified _AYPPAPFMHI_ 0 0 0 nc|ENSG00000143569|Q14157-3|UBAP2L;ENSG00000143569|ENST00000428931|UBAP2L;nc|ENSG00000143569|Q14157-5|UBAP2L;ENST00000484819.1_1_1:154238957-154241481:+|nuORF nc|ENSG00000143569|Q14157-3|UBAP2L nc|ENSG00000143569|Q14157-3|UBAP2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.7900390625 2 572.28642 1142.55829 3.6744 0.0021028 0.15513 8.8777E-05 3.8295 0.0021916 572.2868926735047 67.924 0.38594 68.177 67.954 68.34 0.25227 60 27 3 0 0 0 0.26084 2 31128 31128;31179 32.117 22.734 1 807120 2230 3380 1749 1752 2343;2344 2343 -0.007290090491551382 AYPPAPFMHI 10 Unmodified _AYPPAPFMHI_ 0 0 0 nc|ENSG00000143569|Q14157-3|UBAP2L;ENSG00000143569|ENST00000428931|UBAP2L;nc|ENSG00000143569|Q14157-5|UBAP2L;ENST00000484819.1_1_1:154238957-154241481:+|nuORF nc|ENSG00000143569|Q14157-3|UBAP2L nc|ENSG00000143569|Q14157-3|UBAP2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 572.288818359375 2 572.28642 1142.55829 3.6296 0.0020772 0.20743 0.00011871 3.837 0.0021959 572.2866805177484 67.339 0.4707 67.996 67.756 68.227 0.65777 61 28 3 0 0 0 0.19046 3 30838 30838;30892;30956 40.449 31.065 1 686370 2231 3380 1749 1752 2345;2346;2347 2345 -0.007290090491551382 AYPPAPFMHIL 11 Unmodified _AYPPAPFMHIL_ 0 0 0 nc|ENSG00000143569|Q14157-3|UBAP2L;ENSG00000143569|ENST00000428931|UBAP2L;nc|ENSG00000143569|Q14157-5|UBAP2L;ENST00000484819.1_1_1:154238957-154241481:+|nuORF nc|ENSG00000143569|Q14157-3|UBAP2L nc|ENSG00000143569|Q14157-3|UBAP2L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 628.8265380859375 2 628.828452 1255.64235 NaN NaN NaN NaN NaN NaN NaN 80.187 1 80.437 79.937 80.937 0.24947 0 0 0 0.99968 1 36922 36922 6.7232 2.3939 1 2232 3380 1750 1753 2348 2348 0.024755220477572948 AYPPAPFMHIL 11 Unmodified _AYPPAPFMHIL_ 0 0 0 nc|ENSG00000143569|Q14157-3|UBAP2L;ENSG00000143569|ENST00000428931|UBAP2L;nc|ENSG00000143569|Q14157-5|UBAP2L;ENST00000484819.1_1_1:154238957-154241481:+|nuORF nc|ENSG00000143569|Q14157-3|UBAP2L nc|ENSG00000143569|Q14157-3|UBAP2L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 628.8308715820312 2 628.828452 1255.64235 NaN NaN NaN NaN NaN NaN NaN 80.339 1 80.588 80.088 81.088 0.24947 0 0 0 0.77264 1 36991 36991 21.747 11.673 1 2233 3380 1750 1753 2349 2349 0.024755220477572948 AYPPAPFMHIL 11 Unmodified _AYPPAPFMHIL_ 0 0 0 nc|ENSG00000143569|Q14157-3|UBAP2L;ENSG00000143569|ENST00000428931|UBAP2L;nc|ENSG00000143569|Q14157-5|UBAP2L;ENST00000484819.1_1_1:154238957-154241481:+|nuORF nc|ENSG00000143569|Q14157-3|UBAP2L nc|ENSG00000143569|Q14157-3|UBAP2L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 629.278564453125 2 628.828452 1255.64235 NaN NaN NaN NaN NaN NaN NaN 79.825 1 80.486 79.986 80.986 0.66082 0 0 0 0.77264 1 36782 36782 21.747 11.673 1 2234 3380 1750 1753 2350 2350 0.024755220477572948 AYPPIAAAPR 10 Unmodified _AYPPIAAAPR_ 0 0 0 REV__ENST00000164024.4_1_3:48692826-48693791:-|nuORF REV__ENST00000164024.4_1_3:48692826-48693791:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 342.8752746582031 3 342.862548 1025.56581 NaN NaN NaN NaN NaN NaN NaN 47.409 1 48.062 47.562 48.562 0.65356 0 0 0 0.99774 1 21707 21707 1.7423 0 1 + 2235 14786 1751 1754 2351 2351 0.05405466542742943 AYPYNFSNL 9 Unmodified _AYPYNFSNL_ 0 0 0 ENSG00000174282|ENST00000380599|ZBTB4 ENSG00000174282|ENST00000380599|ZBTB4 ENSG00000174282|ENST00000380599|ZBTB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.7584228515625 2 544.756007 1087.49746 3.6233 0.0019738 0.049654 2.7049E-05 3.6729 0.0020009 544.7557266608035 69.45 0.25966 69.704 69.559 69.819 0.25443 23 17 2 0 0 0 0.18075 1 31790 31790 24.674 11.166 1 454500 2236 4970 1752 1755 2352 2352 -0.042788228277458984 AYPYNFSNL 9 Unmodified _AYPYNFSNL_ 0 0 0 ENSG00000174282|ENST00000380599|ZBTB4 ENSG00000174282|ENST00000380599|ZBTB4 ENSG00000174282|ENST00000380599|ZBTB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.7588500976562 2 544.756007 1087.49746 3.273 0.001783 -0.20686 -0.00011269 3.0661 0.0016703 544.7557987030916 68.914 0.27033 69.573 69.435 69.706 0.65924 26 19 2 0 0 0 0.18075 1 31583 31583 24.674 11.166 1 408230 2237 4970 1752 1755 2353 2353 -0.042788228277458984 AYQDRLAYL 9 Unmodified _AYQDRLAYL_ 0 0 0 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000140575|ENST00000268182|IQGAP1;ENST00000558003.1_1_15:91016937-91017036:+|nuORF IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.7926025390625 2 556.790381 1111.56621 3.5733 0.0019896 -0.3046 -0.0001696 3.2687 0.00182 556.7904102472498 51.658 0.34263 51.658 51.44 51.783 0 40 19 3 0 0 0 0.021401 1 23637 23637 66.457 18.708 1 865640 2238 3209 1753 1756 2354 2354 0.014888414719507637 AYQDRLAYL 9 Unmodified _AYQDRLAYL_ 0 0 0 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000140575|ENST00000268182|IQGAP1;ENST00000558003.1_1_15:91016937-91017036:+|nuORF IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 556.7913208007812 2 556.790381 1111.56621 3.1501 0.0017539 -0.54048 -0.00030093 2.6096 0.001453 556.7900971275193 50.61 0.23552 51.427 51.322 51.557 0.81738 29 12 3 0 0 0 0.018453 1 23054 23054 70.332 18.702 1 752180 2239 3209 1753 1756 2355 2355 0.014888414719507637 AYQDRLAYL 9 Unmodified _AYQDRLAYL_ 0 0 0 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000140575|ENST00000268182|IQGAP1;ENST00000558003.1_1_15:91016937-91017036:+|nuORF IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.7923583984375 2 556.790381 1111.56621 3.4041 0.0018954 -0.18727 -0.00010427 3.2169 0.0017911 556.7904590577981 51.589 0.24673 51.852 51.722 51.969 0.26227 20 12 2 0 0 0 0.025135 1 23590 23590 61.602 17.83 1 701700 2240 3209 1753 1756 2356 2356 0.014888414719507637 AYQDRLAYL 9 Unmodified _AYQDRLAYL_ 0 0 0 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000140575|ENST00000268182|IQGAP1;ENST00000558003.1_1_15:91016937-91017036:+|nuORF IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.7925415039062 2 556.790381 1111.56621 3.3397 0.0018595 -0.26313 -0.00014651 3.0766 0.001713 556.7903660743455 51.024 0.22968 51.683 51.549 51.778 0.65956 17 10 2 0 0 0 0.02812 2 23313 23313;23366 57.722 17.772 1 630480 2241 3209 1753 1756 2357;2358 2357 0.014888414719507637 AYQHLFYLL 9 Unmodified _AYQHLFYLL_ 0 0 0 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000140575|ENST00000268182|IQGAP1;ENSG00000183856|ENST00000361170|IQGAP3 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000183856|ENST00000361170|IQGAP3 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.315185546875 2 584.313492 1166.61243 3.0218 0.0017657 0.4567 0.00026685 3.4785 0.0020325 584.3135580511804 80.913 0.22752 80.913 80.774 81.002 0 35 15 3 0 0 0 0.10169 1 40291 40291 32.305 7.6316 1 8248300 2242 3209;5409 1754 1757 2359 2359 0.03578906374059443 AYQHLFYLL 9 Unmodified _AYQHLFYLL_ 0 0 0 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000140575|ENST00000268182|IQGAP1;ENSG00000183856|ENST00000361170|IQGAP3 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000183856|ENST00000361170|IQGAP3 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.3167724609375 2 584.313492 1166.61243 2.5674 0.0015002 0.79854 0.0004666 3.3659 0.0019668 584.3142042604437 80.038 0.24178 80.358 80.194 80.436 0.31998 38 14 4 0 0 0 0.020718 2 39088 39088;39148 67.344 25.504 1 7807300 2243 3209;5409 1754 1757 2360;2361 2360 0.03578906374059443 AYQHLFYLL 9 Unmodified _AYQHLFYLL_ 0 0 0 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000140575|ENST00000268182|IQGAP1;ENSG00000183856|ENST00000361170|IQGAP3 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000183856|ENST00000361170|IQGAP3 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.3150024414062 2 584.313492 1166.61243 3.2521 0.0019003 0.016496 9.6388E-06 3.2686 0.0019099 584.3133635835528 80.943 0.33256 81.191 81.044 81.376 0.24802 56 19 4 0 0 0 0.028312 2 37287 37287;37341 57.471 10.082 1 3415300 2244 3209;5409 1754 1757 2362;2363 2362 0.03578906374059443 AYQHLFYLL 9 Unmodified _AYQHLFYLL_ 0 0 0 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000140575|ENST00000268182|IQGAP1;ENSG00000183856|ENST00000361170|IQGAP3 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000183856|ENST00000361170|IQGAP3 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.31494140625 2 584.313492 1166.61243 3.6121 0.0021106 -0.1972 -0.00011523 3.4149 0.0019953 584.3133042588696 80.347 0.29806 81.007 80.828 81.126 0.65997 53 20 3 0 0 0 0.028312 3 37010 36965;37010;37063 57.471 20.558 1 3734500 2245 3209;5409 1754 1757 2364;2365;2366 2365 0.03578906374059443 AYRRIFQKF 9 Unmodified _AYRRIFQKF_ 0 0 0 ENSG00000157483|ENST00000288235|MYO1E ENSG00000157483|ENST00000288235|MYO1E ENSG00000157483|ENST00000288235|MYO1E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 410.5716857910156 3 410.236497 1227.68766 2.7752 0.0011385 -0.016998 -6.973E-06 2.7582 0.0011315 410.5706699394753 28.56 0.31481 29.349 29.215 29.53 0.78921 59 25 3 0 0 0 0.026068 2 12879 12836;12879 45.7 29.134 1 1369900 2246 3952 1755 1758 2367;2368 2368 0.08292508625117989 AYRRNGLHR 9 Unmodified _AYRRNGLHR_ 0 0 0 nc|ENSG00000173210|O94929-4|ABLIM3;nc|ENSG00000173210|O94929-2|ABLIM3;nc|ENSG00000173210|O94929-3|ABLIM3;ENSG00000173210|ENST00000309868|ABLIM3 nc|ENSG00000173210|O94929-4|ABLIM3 nc|ENSG00000173210|O94929-4|ABLIM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.754150390625 2 571.81813 1141.62171 NaN NaN NaN NaN NaN NaN NaN 93.021 1 93.276 92.776 93.776 0.25497 0 0 0 0.90611 1 42756 42756 2.0598 0.21551 1 2247 4919 1756 1759 2369 2369 0.056561125029247705 AYRRWRWRKRW 11 Unmodified _AYRRWRWRKRW_ 0 0 0 REV__ENST00000507209.5_1_4:187125362-187125452:+|nuORF REV__ENST00000507209.5_1_4:187125362-187125452:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.2167358398438 3 573.990431 1718.94946 NaN NaN NaN NaN NaN NaN NaN 70.262 1 70.262 69.762 70.762 0 0 0 0 1.0082 1 34065 34065 0.094841 0.094841 1 + 2248 16937 1757 1760 2370 2370 0.11874727764552517 AYSAKIALF 9 Unmodified _AYSAKIALF_ 0 0 0 ENSG00000188641|ENST00000370192|DPYD;ENST00000474241.1_1_1:98157206-98165091:-|nuORF ENSG00000188641|ENST00000370192|DPYD ENSG00000188641|ENST00000370192|DPYD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.28369140625 2 492.28166 982.548768 3.1641 0.0015576 0.84551 0.00041623 4.0096 0.0019739 492.28183658510363 62.011 0.20828 62.263 62.155 62.363 0.25245 23 10 3 0 0 0 0.010018 2 28368 28368;28423 81.89 43.916 1 1100600 2249 5673 1758 1761 2371;2372 2371 0.05679545936948216 AYSAKIALF 9 Unmodified _AYSAKIALF_ 0 0 0 ENSG00000188641|ENST00000370192|DPYD;ENST00000474241.1_1_1:98157206-98165091:-|nuORF ENSG00000188641|ENST00000370192|DPYD ENSG00000188641|ENST00000370192|DPYD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.2833251953125 2 492.28166 982.548768 3.1264 0.001539 0.15039 7.4033E-05 3.2767 0.0016131 492.2814450693685 61.301 0.14108 61.963 61.949 62.09 0.66261 23 9 3 0 0 0 0.014491 1 28079 28079 75.761 45.124 1 2077000 2250 5673 1758 1761 2373 2373 0.05679545936948216 AYSHLRYVF 9 Unmodified _AYSHLRYVF_ 0 0 0 ENSG00000083857|ENST00000441802|FAT1;FAT1|p.S1928Lfs*17|1|0.08|ENSG00000083857|chr4:186620804-186620804|A/-|frameshift_variant ENSG00000083857|ENST00000441802|FAT1 ENSG00000083857|ENST00000441802|FAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 385.8705749511719 3 385.869703 1154.58728 2.6466 0.0010212 0.011777 4.5443E-06 2.6584 0.0010258 385.86969545921266 44.837 0.25283 44.837 44.692 44.944 0 24 13 2 0 0 0 0.24465 1 20501 20501 14.405 3.6059 1 1003300 2251 946 1759 1762 2374 2374 0.01616851571452571 AYSHLRYVF 9 Unmodified _AYSHLRYVF_ 0 0 0 ENSG00000083857|ENST00000441802|FAT1;FAT1|p.S1928Lfs*17|1|0.08|ENSG00000083857|chr4:186620804-186620804|A/-|frameshift_variant ENSG00000083857|ENST00000441802|FAT1 ENSG00000083857|ENST00000441802|FAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.3031616210938 2 578.300916 1154.58728 NaN NaN NaN NaN NaN NaN NaN 44.882 1 44.882 44.382 45.382 0 0 0 0 0.14425 1 20522 20522 33.445 18.607 1 2252 946 1759 1762 2375 2375 0.01616851571452571 AYSHLRYVF 9 Unmodified _AYSHLRYVF_ 0 0 0 ENSG00000083857|ENST00000441802|FAT1;FAT1|p.S1928Lfs*17|1|0.08|ENSG00000083857|chr4:186620804-186620804|A/-|frameshift_variant ENSG00000083857|ENST00000441802|FAT1 ENSG00000083857|ENST00000441802|FAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.303955078125 2 578.300916 1154.58728 3.2717 0.0018921 0.63675 0.00036823 3.9085 0.0022603 578.3009702838835 43.581 0.18254 44.395 44.3 44.483 0.81444 14 7 2 0 0 0 0.3144 1 19877 19877 15.847 4.2069 1 239610 2253 946 1759 1762 2376 2376 0.01616851571452571 AYSHLRYVF 9 Unmodified _AYSHLRYVF_ 0 0 0 ENSG00000083857|ENST00000441802|FAT1;FAT1|p.S1928Lfs*17|1|0.08|ENSG00000083857|chr4:186620804-186620804|A/-|frameshift_variant ENSG00000083857|ENST00000441802|FAT1 ENSG00000083857|ENST00000441802|FAT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 385.869703 1154.58728 2.6866 0.0010367 -0.10555 -4.073E-05 2.581 0.00099593 385.86965184840795 44.746 0.31524 45.014 44.857 45.172 0.26768 0.11355 -0.00010499 NaN 14.405 22 17 2 NaN NaN NaN NaN 0 NaN NaN 0 971850 2254 946 1759 1762 0.01616851571452571 AYSHLRYVF 9 Unmodified _AYSHLRYVF_ 0 0 0 ENSG00000083857|ENST00000441802|FAT1;FAT1|p.S1928Lfs*17|1|0.08|ENSG00000083857|chr4:186620804-186620804|A/-|frameshift_variant ENSG00000083857|ENST00000441802|FAT1 ENSG00000083857|ENST00000441802|FAT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 385.869703 1154.58728 2.9303 0.0011307 0.00082526 3.1844E-07 2.9312 0.001131 385.8696793688276 44.2 0.18429 44.85 44.696 44.88 0.64998 -0.050235 1.8159E-05 NaN 14.405 14 9 2 NaN NaN NaN NaN 0 NaN NaN 0 861540 2255 946 1759 1762 0.01616851571452571 AYSIVAGVF 9 Unmodified _AYSIVAGVF_ 0 0 0 ENSG00000051523|ENST00000261623|CYBA;ENST00000566534.5_1_16:88713161-88717421:-|nuORF;ENST00000562209.1_1_16:88713507-88717421:-|nuORF ENSG00000051523|ENST00000261623|CYBA ENSG00000051523|ENST00000261623|CYBA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 926.4990234375 1 926.498195 925.490919 2.9146 0.0027003 -0.76736 -0.00071095 2.1472 0.0019894 926.4980642409889 80.606 0.14536 80.774 80.653 80.799 0.16862 15 11 2 0 0 0 0.018173 1 39500 39500 70.716 14.174 1 1624200 2256 589 1760 1763 2377 2377 0.025192840115323634 AYSIVAGVF 9 Unmodified _AYSIVAGVF_ 0 0 0 ENSG00000051523|ENST00000261623|CYBA;ENST00000566534.5_1_16:88713161-88717421:-|nuORF;ENST00000562209.1_1_16:88713507-88717421:-|nuORF ENSG00000051523|ENST00000261623|CYBA ENSG00000051523|ENST00000261623|CYBA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 926.5017700195312 1 926.498195 925.490919 3.9408 0.0036511 0.17648 0.00016351 4.1172 0.0038146 926.4982918345363 80.613 0.23265 81.273 81.126 81.358 0.65998 20 12 2 0 0 0 0.035095 1 37174 37174 53.576 15.424 1 596160 2257 589 1760 1763 2378 2378 0.025192840115323634 AYSLTYNTI 9 Unmodified _AYSLTYNTI_ 0 0 0 ENSG00000130766|ENST00000253063|SESN2 ENSG00000130766|ENST00000253063|SESN2 ENSG00000130766|ENST00000253063|SESN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.2650146484375 2 523.263665 1044.51278 NaN NaN NaN NaN NaN NaN NaN 61.36 1 61.612 61.112 62.112 0.25245 0 0 0 0.35622 1 28100 28100 24.674 6.5389 1 2258 2619 1761 1764 2379 2379 -0.0076995603058094275 AYSRVQYQF 9 Unmodified _AYSRVQYQF_ 0 0 0 ENSG00000137936|ENST00000260502|BCAR3;nc|ENSG00000137936|O75815-3|BCAR3 ENSG00000137936|ENST00000260502|BCAR3 ENSG00000137936|ENST00000260502|BCAR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.2899780273438 2 581.288005 1160.56146 3.5514 0.0020644 -0.076083 -4.4226E-05 3.4753 0.0020202 581.2880907531206 41.716 0.24851 41.716 41.572 41.82 0 51 26 3 0 0 0 3.9104E-05 2 18984 18984;19027 137.42 72.189 1 2552600 2259 3054 1762 1765 2380;2381 2380 -0.012400426708154555 AYSRVQYQF 9 Unmodified _AYSRVQYQF_ 0 0 0 ENSG00000137936|ENST00000260502|BCAR3;nc|ENSG00000137936|O75815-3|BCAR3 ENSG00000137936|ENST00000260502|BCAR3 ENSG00000137936|ENST00000260502|BCAR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.2903442382812 2 581.288005 1160.56146 3.227 0.0018758 -0.50913 -0.00029595 2.7178 0.0015798 581.287568727237 40.61 0.086658 41.414 41.344 41.431 0.8035 9 6 2 0 0 0 0.0010698 1 18397 18397 125.53 69.352 1 1856600 2260 3054 1762 1765 2382 2382 -0.012400426708154555 AYSRVQYQF 9 Unmodified _AYSRVQYQF_ 0 0 0 ENSG00000137936|ENST00000260502|BCAR3;nc|ENSG00000137936|O75815-3|BCAR3 ENSG00000137936|ENST00000260502|BCAR3 ENSG00000137936|ENST00000260502|BCAR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.7923583984375 2 581.288005 1160.56146 3.7826 0.0021988 0.13035 7.577E-05 3.9129 0.0022745 581.2878473930359 41.129 0.1231 41.773 41.749 41.872 0.64451 9 5 2 0 0 0 0.0095519 1 18820 18820 82.529 48.128 1 1335000 2261 3054 1762 1765 2383 2383 -0.012400426708154555 AYSSHSSTLL 10 Unmodified _AYSSHSSTLL_ 0 0 0 ENSG00000159433|ENST00000290607|STARD9 ENSG00000159433|ENST00000290607|STARD9 ENSG00000159433|ENST00000290607|STARD9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.2664794921875 2 533.264196 1064.51384 NaN NaN NaN NaN NaN NaN NaN 37.161 1 37.954 37.454 38.454 0.79342 0 0 0 0.94083 1 16838 16838 14.838 4.7643 1 2262 4024 1763 1766 2384 2384 -0.01583741661647764 AYSSYVHQY 9 Unmodified _AYSSYVHQY_ 0 0 0 ENST00000592995.1_1_17:58538022-58538124:-|nuORF;ENSG00000062725|ENST00000083182|APPBP2 ENST00000592995.1_1_17:58538022-58538124:-|nuORF ENST00000592995.1_1_17:58538022-58538124:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.2540283203125 2 559.251089 1116.48762 3.8542 0.0021555 -0.63297 -0.00035399 3.2212 0.0018015 559.2509592899677 32.313 0.27371 32.568 32.489 32.763 0.25452 46 18 3 0 0 0 0.0013631 2 14697 14697;14750 115.69 69.992 1 2194700 2263 656 1764 1767 2385;2386 2385 -0.06596010833141008 AYSSYVHQY 9 Unmodified _AYSSYVHQY_ 0 0 0 ENST00000592995.1_1_17:58538022-58538124:-|nuORF;ENSG00000062725|ENST00000083182|APPBP2 ENST00000592995.1_1_17:58538022-58538124:-|nuORF ENST00000592995.1_1_17:58538022-58538124:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.253173828125 2 559.251089 1116.48762 3.5089 0.0019623 -0.14169 -7.9241E-05 3.3672 0.0018831 559.2512595180757 31.812 0.30729 32.429 32.314 32.621 0.61737 47 18 3 0 0 0 0.00081333 3 14602 14555;14602;14653 128.37 74.533 1 2052000 2264 656 1764 1767 2387;2388;2389 2388 -0.06596010833141008 AYSTVPGYYSW 11 Unmodified _AYSTVPGYYSW_ 0 0 0 nc|ENSG00000165806|P55210-4|CASP7;ENSG00000165806|ENST00000369318|CASP7;nc|ENSG00000165806|P55210-3|CASP7 nc|ENSG00000165806|P55210-4|CASP7 nc|ENSG00000165806|P55210-4|CASP7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 647.2943725585938 2 647.292953 1292.57135 NaN NaN NaN NaN NaN NaN NaN 71.025 1 71.283 70.783 71.783 0.25786 0 0 0 0.42568 1 32531 32531 29.082 16.55 1 2265 4423 1765 1768 2390 2390 -0.06322899456085906 AYSTVPGYYSW 11 Unmodified _AYSTVPGYYSW_ 0 0 0 nc|ENSG00000165806|P55210-4|CASP7;ENSG00000165806|ENST00000369318|CASP7;nc|ENSG00000165806|P55210-3|CASP7 nc|ENSG00000165806|P55210-4|CASP7 nc|ENSG00000165806|P55210-4|CASP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 647.7976684570312 2 647.292953 1292.57135 3.4634 0.0022418 0.55387 0.00035852 4.0173 0.0026004 647.2931219427085 70.514 0.30479 71.176 70.987 71.292 0.66209 26 17 2 0 0 0 0.74281 1 32306 32306 9.3831 2.66 1 402220 2266 4423 1765 1768 2391 2391 -0.06322899456085906 AYTPFHAVL 9 Unmodified _AYTPFHAVL_ 0 0 0 nc|ENSG00000138614|Q96SY0-4|INTS14;nc|ENSG00000138614|Q96SY0-3|INTS14;ENSG00000138614|ENST00000313182|INTS14 nc|ENSG00000138614|Q96SY0-4|INTS14 nc|ENSG00000138614|Q96SY0-4|INTS14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.77313232421875 2 509.77146 1017.52837 2.9195 0.0014883 0.45346 0.00023116 3.373 0.0017195 509.77154149368187 60.246 0.19991 60.246 60.119 60.319 0 49 21 3 0 0 0 0.020956 1 27922 27922 67.035 30.908 1 3737900 2267 3100 1766 1769 2392 2392 0.0203037527712695 AYTPFHAVL 9 Unmodified _AYTPFHAVL_ 0 0 0 nc|ENSG00000138614|Q96SY0-4|INTS14;nc|ENSG00000138614|Q96SY0-3|INTS14;ENSG00000138614|ENST00000313182|INTS14 nc|ENSG00000138614|Q96SY0-4|INTS14 nc|ENSG00000138614|Q96SY0-4|INTS14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.7730712890625 2 509.77146 1017.52837 3.3614 0.0017135 0.88657 0.00045195 4.2479 0.0021655 509.77178176453907 60 0.422 60.257 60.042 60.464 0.25668 42 18 3 0 0 0 0.0017402 3 27501 27447;27501;27548 106.85 76.621 1 2261200 2268 3100 1766 1769 2393;2394;2395 2394 0.0203037527712695 AYTPFHAVL 9 Unmodified _AYTPFHAVL_ 0 0 0 nc|ENSG00000138614|Q96SY0-4|INTS14;nc|ENSG00000138614|Q96SY0-3|INTS14;ENSG00000138614|ENST00000313182|INTS14 nc|ENSG00000138614|Q96SY0-4|INTS14 nc|ENSG00000138614|Q96SY0-4|INTS14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.7730407714844 2 509.77146 1017.52837 3.3444 0.0017049 0.40842 0.0002082 3.7528 0.0019131 509.7714392254219 59.343 0.41144 60.008 59.863 60.274 0.66503 40 17 4 0 0 0 0.0017402 2 27206 27148;27206 106.85 70.718 1 3183200 2269 3100 1766 1769 2396;2397 2397 0.0203037527712695 AYTPFHAVL 9 Unmodified _AYTPFHAVL_ 0 0 0 nc|ENSG00000138614|Q96SY0-4|INTS14;nc|ENSG00000138614|Q96SY0-3|INTS14;ENSG00000138614|ENST00000313182|INTS14 nc|ENSG00000138614|Q96SY0-4|INTS14 nc|ENSG00000138614|Q96SY0-4|INTS14 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 509.77146 1017.52837 2.8252 0.0014402 0.38584 0.00019669 3.211 0.0016369 509.771661641038 59.095 0.33381 59.853 59.702 60.035 0.75894 -0.23758 -0.00019842 NaN 106.85 60 27 3 NaN NaN NaN NaN 0 NaN NaN 0 4080600 2270 3100 1766 1769 0.0203037527712695 AYVDGNSALAL 11 Unmodified _AYVDGNSALAL_ 0 0 0 REV__ENSG00000103657|ENST00000443617|HERC1 REV__ENSG00000103657|ENST00000443617|HERC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.332275390625 2 547.279846 1092.54514 NaN NaN NaN NaN NaN NaN NaN 75.028 1 75.691 75.191 76.191 0.6635 0 0 0 1.0038 1 36312 36312 5.7319 0.50118 1 + 2271 10975 1767 1770 2398 2398 0.002568313724395921 AYVEKVEKL 9 Unmodified _AYVEKVEKL_ 0 0 0 ENSG00000166025|ENST00000433060|AMOTL1;nc|ENSG00000166025|Q8IY63-2|AMOTL1;AMOTL1|p.Y691Sfs*12|1|0.22|ENSG00000166025|chr11:94859652-94859652|A/-|frameshift_variant ENSG00000166025|ENST00000433060|AMOTL1 ENSG00000166025|ENST00000433060|AMOTL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 360.2117614746094 3 360.209613 1077.60701 2.9116 0.0010488 1.3259 0.00047761 4.2376 0.0015264 360.2102940923415 28.248 0.19579 28.248 28.144 28.34 0 20 13 2 0 0 0 0.034495 1 12714 12714 49.527 17.891 1 799940 2272 4448 1768 1771 2399 2399 0.0713118279156788 AYVEKVEKL 9 Unmodified _AYVEKVEKL_ 0 0 0 ENSG00000166025|ENST00000433060|AMOTL1;nc|ENSG00000166025|Q8IY63-2|AMOTL1;AMOTL1|p.Y691Sfs*12|1|0.22|ENSG00000166025|chr11:94859652-94859652|A/-|frameshift_variant ENSG00000166025|ENST00000433060|AMOTL1 ENSG00000166025|ENST00000433060|AMOTL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.3141479492188 2 539.810782 1077.60701 3.1747 0.0017138 0.095894 5.1764E-05 3.2706 0.0017655 539.8107262473621 27.256 0.28284 28.034 27.883 28.166 0.7787 27 20 2 0 0 0 0.091193 2 12260 12260;12266 34.932 14.518 1 210000 2273 4448 1768 1771 2400;2401 2400 0.0713118279156788 AYVEKVEKL 9 Unmodified _AYVEKVEKL_ 0 0 0 ENSG00000166025|ENST00000433060|AMOTL1;nc|ENSG00000166025|Q8IY63-2|AMOTL1;AMOTL1|p.Y691Sfs*12|1|0.22|ENSG00000166025|chr11:94859652-94859652|A/-|frameshift_variant ENSG00000166025|ENST00000433060|AMOTL1 ENSG00000166025|ENST00000433060|AMOTL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 360.2119140625 3 360.209613 1077.60701 2.4564 0.00088481 1.8225 0.0006565 4.2789 0.0015413 360.2107777857496 27.283 0.24044 28.069 27.905 28.145 0.78627 32 17 2 0 0 0 0.063575 1 12275 12275 38.615 14.814 1 512050 2274 4448 1768 1771 2402 2402 0.0713118279156788 AYVEKVEKL 9 Unmodified _AYVEKVEKL_ 0 0 0 ENSG00000166025|ENST00000433060|AMOTL1;nc|ENSG00000166025|Q8IY63-2|AMOTL1;AMOTL1|p.Y691Sfs*12|1|0.22|ENSG00000166025|chr11:94859652-94859652|A/-|frameshift_variant ENSG00000166025|ENST00000433060|AMOTL1 ENSG00000166025|ENST00000433060|AMOTL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.2112121582031 3 360.209613 1077.60701 2.457 0.00088502 0.93667 0.0003374 3.3936 0.0012224 360.2101834972937 28.127 0.20931 28.389 28.255 28.464 0.26245 27 16 2 0 0 0 0.063575 3 12773 12773;12796;12821 32.037 11.457 1 456370 2275 4448 1768 1771 2403;2404;2405 2403 0.0713118279156788 AYVEKVEKL 9 Unmodified _AYVEKVEKL_ 0 0 0 ENSG00000166025|ENST00000433060|AMOTL1;nc|ENSG00000166025|Q8IY63-2|AMOTL1;AMOTL1|p.Y691Sfs*12|1|0.22|ENSG00000166025|chr11:94859652-94859652|A/-|frameshift_variant ENSG00000166025|ENST00000433060|AMOTL1 ENSG00000166025|ENST00000433060|AMOTL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.21173095703125 3 360.209613 1077.60701 2.4508 0.00088281 1.3962 0.00050292 3.847 0.0013857 360.2104217176975 27.721 0.1619 28.341 28.238 28.399 0.61947 14 9 2 0 0 0 0.093314 1 12724 12724 26.021 8.5781 1 513710 2276 4448 1768 1771 2406 2406 0.0713118279156788 AYVEKVEKL 9 Unmodified _AYVEKVEKL_ 0 0 0 ENSG00000166025|ENST00000433060|AMOTL1;nc|ENSG00000166025|Q8IY63-2|AMOTL1;AMOTL1|p.Y691Sfs*12|1|0.22|ENSG00000166025|chr11:94859652-94859652|A/-|frameshift_variant ENSG00000166025|ENST00000433060|AMOTL1 ENSG00000166025|ENST00000433060|AMOTL1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 539.810782 1077.60701 3.5349 0.0019082 0.065038 3.5108E-05 3.6 0.0019433 539.8109055342736 28.276 0.15918 28.276 28.152 28.311 0 0.12083 -2.5933E-05 NaN 34.932 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 351420 2277 4448 1768 1771 0.0713118279156788 AYVEKVERL 9 Unmodified _AYVEKVERL_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.8156127929688 2 553.813856 1105.61316 3.8338 0.0021232 -0.2716 -0.00015042 3.5622 0.0019728 553.8136316491436 29.172 0.4343 29.172 28.934 29.369 0 98 34 4 0 0 0 0.01463 4 13192 13092;13140;13192;13239 75.571 29.831 1 2347300 2278 1886 1769 1772 2407;2408;2409;2410 2409 0.06457701023077789 AYVEKVERL 9 Unmodified _AYVEKVERL_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 369.54620361328125 3 369.544996 1105.61316 3.0413 0.0011239 -0.16434 -6.073E-05 2.877 0.0010632 369.5449541134092 29.166 0.46852 29.166 28.934 29.403 0 126 36 4 0 0 0 0.0079462 2 13169 13125;13169 69.338 32.264 1 8452800 2279 1886 1769 1772 2411;2412 2412 0.06457701023077789 AYVEKVERL 9 Unmodified _AYVEKVERL_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 369.5459289550781 3 369.544996 1105.61316 2.4919 0.00092087 0.12314 4.5507E-05 2.615 0.00096637 369.545040427657 28.246 0.25677 29.032 28.893 29.15 0.78627 65 21 4 0 0 0 0.0029142 2 12726 12684;12726 78.06 40.986 1 12778000 2280 1886 1769 1772 2413;2414 2414 0.06457701023077789 AYVEKVERL 9 Unmodified _AYVEKVERL_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.81494140625 2 553.813856 1105.61316 3.3664 0.0018644 0.2133 0.00011813 3.5797 0.0019825 553.813806550706 28.244 0.23902 29.03 28.885 29.124 0.78627 47 20 3 0 0 0 0.0066378 2 12686 12686;12732 88.364 34.96 1 4440700 2281 1886 1769 1772 2415;2416 2415 0.06457701023077789 AYVEKVERL 9 Unmodified _AYVEKVERL_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 369.5462646484375 3 369.544996 1105.61316 2.7009 0.0009981 -0.13907 -5.1391E-05 2.5618 0.00094671 369.54492919870364 28.91 0.32412 29.171 29.026 29.35 0.2602 75 24 4 0 0 0 0.014491 2 13125 13125;13174 61.09 30.386 1 9189900 2282 1886 1769 1772 2417;2418 2417 0.06457701023077789 AYVEKVERL 9 Unmodified _AYVEKVERL_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.8155517578125 2 553.813856 1105.61316 3.5692 0.0019767 -0.39726 -0.00022001 3.1719 0.0017567 553.8136100975879 28.917 0.28982 29.178 29.026 29.315 0.2602 53 22 3 0 0 0 0.0057865 2 13175 13126;13175 90.135 42.386 1 2788100 2283 1886 1769 1772 2419;2420 2420 0.06457701023077789 AYVEKVERL 9 Unmodified _AYVEKVERL_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.8154907226562 2 553.813856 1105.61316 3.4797 0.0019271 -0.20532 -0.00011371 3.2743 0.0018134 553.8136720751737 28.625 0.38611 29.244 29.026 29.412 0.61947 52 18 4 0 0 0 0.01463 3 13128 13078;13128;13184 75.571 35.621 1 2231700 2284 1886 1769 1772 2421;2422;2423 2422 0.06457701023077789 AYVEKVERL 9 Unmodified _AYVEKVERL_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 369.54595947265625 3 369.544996 1105.61316 2.5825 0.00095435 0.031282 1.156E-05 2.6138 0.00096591 369.5450185562711 28.611 0.39583 29.23 29.016 29.412 0.61947 66 19 5 0 0 0 0.017293 2 13102 13102;13146 65.474 21.492 1 5500100 2285 1886 1769 1772 2424;2425 2424 0.06457701023077789 AYVHMVTHF 9 Oxidation (M) _AYVHM(Oxidation (M))VTHF_ AYVHM(1)VTHF AYVHM(97)VTHF 0 0 1 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.7676391601562 2 560.765852 1119.51715 3.6767 0.0020618 -0.23574 -0.00013219 3.441 0.0019296 560.7656559875225 27.775 0.20764 27.775 27.643 27.851 0 40 17 3 0 0 0 0.0026885 2 12485 12485;12540 97.075 73.926 1 1134200 2286 3158 1770 1773 2426;2427 2426 45 -0.03782770088673715 AYVHMVTHF 9 Oxidation (M) _AYVHM(Oxidation (M))VTHF_ AYVHM(1)VTHF AYVHM(78)VTHF 0 0 1 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.7675170898438 2 560.765852 1119.51715 3.709 0.0020799 0.062994 3.5325E-05 3.772 0.0021152 560.7660098952426 28.084 0.25498 28.084 27.961 28.216 0 43 21 3 0 0 0 0.012869 1 12635 12635 77.984 58.727 1 1045600 2287 3158 1770 1773 2428 2428 45 -0.03782770088673715 AYVHMVTHF 9 Oxidation (M) _AYVHM(Oxidation (M))VTHF_ AYVHM(1)VTHF AYVHM(100)VTHF 0 0 1 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.7672729492188 2 560.765852 1119.51715 3.3548 0.0018813 -0.17808 -9.986E-05 3.1767 0.0017814 560.765659096608 26.777 0.16906 27.556 27.458 27.627 0.7787 19 13 2 0 0 0 0.0019388 1 12020 12020 104.8 70.697 1 1052500 2288 3158 1770 1773 2429 2429 45 -0.03782770088673715 AYVHMVTHF 9 Oxidation (M) _AYVHM(Oxidation (M))VTHF_ AYVHM(1)VTHF AYVHM(51)VTHF 0 0 1 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.7688598632812 2 560.765852 1119.51715 3.3986 0.0019058 0.24821 0.00013919 3.6468 0.002045 560.766236890872 27.078 0.2213 27.856 27.742 27.964 0.7787 43 16 3 0 0 0 0.041436 1 12133 12133 50.855 36.273 1 753770 2289 3158 1770 1773 2430 2430 45 -0.03782770088673715 AYVHMVTHF 9 Oxidation (M) _AYVHM(Oxidation (M))VTHF_ AYVHM(1)VTHF AYVHM(120)VTHF 0 0 1 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.7686157226562 2 560.765852 1119.51715 3.4646 0.0019428 -0.06237 -3.4975E-05 3.4022 0.0019079 560.7660548638057 27.658 0.2389 27.92 27.813 28.052 0.26245 43 14 4 0 0 0 0.0013377 2 12560 12560;12612 117.6 81.555 1 1139700 2290 3158 1770 1773 2431;2432 2431 45 -0.03782770088673715 AYVHMVTHF 9 Oxidation (M) _AYVHM(Oxidation (M))VTHF_ AYVHM(1)VTHF AYVHM(89)VTHF 0 0 1 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.7675170898438 2 560.765852 1119.51715 3.4319 0.0019245 -0.059375 -3.3295E-05 3.3725 0.0018912 560.7658874827308 27.987 0.23613 28.25 28.129 28.366 0.26245 41 15 3 0 0 0 0.0061269 2 12700 12700;12745 89.427 71.292 1 735390 2291 3158 1770 1773 2433;2434 2433 45 -0.03782770088673715 AYVHMVTHF 9 Oxidation (M) _AYVHM(Oxidation (M))VTHF_ AYVHM(1)VTHF AYVHM(120)VTHF 0 0 1 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.7677612304688 2 560.765852 1119.51715 3.4399 0.001929 -0.36181 -0.00020289 3.0781 0.0017261 560.7657485190354 27.248 0.34168 27.87 27.69 28.032 0.62179 59 20 4 0 0 0 0.0013377 2 12509 12454;12509 117.6 75.504 1 1304500 2292 3158 1770 1773 2435;2436 2436 45 -0.03782770088673715 AYVHMVTHF 9 Oxidation (M) _AYVHM(Oxidation (M))VTHF_ AYVHM(1)VTHF AYVHM(100)VTHF 0 0 1 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.767822265625 2 560.765852 1119.51715 3.4571 0.0019386 0.30458 0.0001708 3.7617 0.0021094 560.7661278083126 27.64 0.26937 28.262 28.09 28.36 0.62179 43 15 4 0 0 0 0.0022375 3 12680 12624;12632;12680 101.72 71.497 1 1341000 2293 3158 1770 1773 2437;2438;2439 2439 45 -0.03782770088673715 AYVHMVTHF 9 Unmodified _AYVHMVTHF_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 368.8489685058594 3 368.848022 1103.52224 2.6701 0.00098487 -0.39508 -0.00014572 2.2751 0.00083915 368.8480769816276 42.055 0.36171 42.055 41.842 42.204 0 92 23 5 0 0 0 0.041436 3 19122 19073;19122;19181 38.176 22.026 1 159940000 2294 3158 1770 1774 2440;2441;2442 2441 -0.025384662260421464 AYVHMVTHF 9 Unmodified _AYVHMVTHF_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.7709350585938 2 552.768394 1103.52224 3.4907 0.0019296 -0.248 -0.00013709 3.2427 0.0017925 552.768443353807 42.057 0.3222 42.057 41.861 42.183 0 80 19 5 0 0 0 1.324E-05 3 19074 19074;19124;19183 146.01 103.91 1 58022000 2295 3158 1770 1774 2443;2444;2445 2443 -0.025384662260421464 AYVHMVTHF 9 Unmodified _AYVHMVTHF_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1104.5350341796875 1 1104.52951 1103.52224 3.0966 0.0034203 -1.0992 -0.0012141 1.9974 0.0022062 1104.5281765238503 42.016 0.18354 42.016 41.933 42.117 0 16 10 2 0 0 0 0.0012644 2 19143 19143;19162 123.1 87.052 1 1673500 2296 3158 1770 1774 2446;2447 2446 -0.025384662260421464 AYVHMVTHF 9 Unmodified _AYVHMVTHF_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 368.8489990234375 3 368.848022 1103.52224 2.3372 0.00086206 -0.099966 -3.6872E-05 2.2372 0.00082519 368.84810432089137 40.947 0.41436 41.751 41.619 42.033 0.80351 156 40 5 0 0 0 0.041436 3 18562 18514;18562;18609 45.7 38.091 1 157610000 2297 3158 1770 1774 2448;2449;2450 2449 -0.025384662260421464 AYVHMVTHF 9 Unmodified _AYVHMVTHF_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.769775390625 2 552.768394 1103.52224 3.205 0.0017716 -0.14036 -7.7587E-05 3.0646 0.001694 552.7684773688022 40.966 0.33439 41.77 41.641 41.976 0.80351 118 35 5 0 0 0 1.324E-05 3 18532 18532;18578;18627 146.01 103.91 1 40509000 2298 3158 1770 1774 2451;2452;2453 2451 -0.025384662260421464 AYVHMVTHF 9 Unmodified _AYVHMVTHF_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1104.531494140625 1 1104.52951 1103.52224 3.4556 0.0038168 -0.3292 -0.00036361 3.1263 0.0034531 1104.5285450052188 40.985 0.13809 41.788 41.687 41.825 0.80351 23 15 2 0 0 0 2.402E-09 1 18561 18561 161.89 125.85 1 2888100 2299 3158 1770 1774 2454 2454 -0.025384662260421464 AYVHMVTHF 9 Unmodified _AYVHMVTHF_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.7701416015625 2 552.768394 1103.52224 3.7664 0.002082 -0.78442 -0.0004336 2.982 0.0016484 552.7680384899658 41.897 0.38553 42.168 41.944 42.33 0.27021 91 39 3 0 0 0 4.7721999999999996E-21 4 19121 19019;19070;19121;19168 179.23 134.82 1 39473000 2300 3158 1770 1774 2455;2456;2457;2458 2457 -0.025384662260421464 AYVHMVTHF 9 Unmodified _AYVHMVTHF_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 368.8492126464844 3 368.848022 1103.52224 2.8902 0.0010661 -0.85568 -0.00031562 2.0345 0.00075043 368.84779049204 41.88 0.4623 42.15 41.92 42.382 0.27021 145 47 4 0 0 0 0.041436 4 19163 19028;19069;19118;19163 38.176 22.026 1 79225000 2301 3158 1770 1774 2459;2460;2461;2462 2462 -0.025384662260421464 AYVHMVTHF 9 Unmodified _AYVHMVTHF_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 368.8486633300781 3 368.848022 1103.52224 NaN NaN NaN NaN NaN NaN NaN 42.133 1 42.403 41.903 42.903 0.27021 0 0 0 0.59707 1 19213 19213 15.248 10.351 1 2302 3158 1770 1774 2463 2463 -0.025384662260421464 AYVHMVTHF 9 Unmodified _AYVHMVTHF_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 368.8490905761719 3 368.848022 1103.52224 2.7858 0.0010275 -0.3547 -0.00013083 2.4311 0.00089671 368.8481234709779 41.218 0.32439 41.862 41.702 42.026 0.64451 70 19 5 0 0 0 0.041436 2 18863 18810;18863 38.176 26.681 1 104510000 2303 3158 1770 1774 2464;2465 2465 -0.025384662260421464 AYVHMVTHF 9 Unmodified _AYVHMVTHF_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.7703247070312 2 552.768394 1103.52224 3.6924 0.002041 -0.13139 -7.2626E-05 3.561 0.0019684 552.7684367499412 41.217 0.29746 41.861 41.729 42.026 0.64451 60 16 5 0 0 0 1.324E-05 3 18811 18811;18864;18915 146.01 103.91 1 35426000 2304 3158 1770 1774 2466;2467;2468 2466 -0.025384662260421464 AYVHMVTHF 9 Unmodified _AYVHMVTHF_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1104.529541015625 1 1104.52951 1103.52224 3.5051 0.0038715 -0.50659 -0.00055954 2.9985 0.003312 1104.5289392050606 41.218 0.17653 41.862 41.772 41.949 0.64451 12 8 2 0 0 0 3.8618E-05 1 18854 18854 137.59 101.54 1 1614200 2305 3158 1770 1774 2469 2469 -0.025384662260421464 AYVHMVTHF 9 Unmodified _AYVHMVTHF_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 368.848022 1103.52224 2.3214 0.00085624 -0.40943 -0.00015102 1.912 0.00070523 368.84782580587336 41.291 0.096638 42.094 42.033 42.13 0.80351 -0.0053275 0.00023692 NaN 38.176 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 320780 2306 3158 1770 1774 -0.025384662260421464 AYVLNIVRF 9 Unmodified _AYVLNIVRF_ 0 0 0 nc|ENSG00000143153|P05026-2|ATP1B1;ENSG00000143153|ENST00000367815|ATP1B1 nc|ENSG00000143153|P05026-2|ATP1B1 nc|ENSG00000143153|P05026-2|ATP1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.8235473632812 2 547.821484 1093.62842 3.0803 0.0016875 0.31639 0.00017333 3.3967 0.0018608 547.8215806435927 76.087 0.37943 76.087 75.886 76.266 0 91 28 4 0 0 0 4.7721999999999996E-21 3 37276 37227;37276;37324 179.23 129.3 1 14035000 2307 3346 1771 1775 2470;2471;2472 2471 0.08534612610924341 AYVLNIVRF 9 Unmodified _AYVLNIVRF_ 0 0 0 nc|ENSG00000143153|P05026-2|ATP1B1;ENSG00000143153|ENST00000367815|ATP1B1 nc|ENSG00000143153|P05026-2|ATP1B1 nc|ENSG00000143153|P05026-2|ATP1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.822998046875 2 547.821484 1093.62842 2.6974 0.0014777 0.041324 2.2638E-05 2.7387 0.0015003 547.8215154159012 75.103 0.24761 75.766 75.652 75.9 0.6635 42 16 3 0 0 0 7.7444E-06 2 36362 36316;36362 147.83 97.898 1 16213000 2308 3346 1771 1775 2473;2474 2474 0.08534612610924341 AYVLNIVRF 9 Unmodified _AYVLNIVRF_ 0 0 0 nc|ENSG00000143153|P05026-2|ATP1B1;ENSG00000143153|ENST00000367815|ATP1B1 nc|ENSG00000143153|P05026-2|ATP1B1 nc|ENSG00000143153|P05026-2|ATP1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.8236083984375 2 547.821484 1093.62842 3.316 0.0018166 0.24507 0.00013426 3.5611 0.0019508 547.8214688082201 75.857 0.33818 76.114 75.955 76.294 0.25704 67 25 3 0 0 0 0.0013377 3 34942 34888;34942;35000 117.6 77.641 1 3918200 2309 3346 1771 1775 2475;2476;2477 2476 0.08534612610924341 AYVLNIVRF 9 Unmodified _AYVLNIVRF_ 0 0 0 nc|ENSG00000143153|P05026-2|ATP1B1;ENSG00000143153|ENST00000367815|ATP1B1 nc|ENSG00000143153|P05026-2|ATP1B1 nc|ENSG00000143153|P05026-2|ATP1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.8226318359375 2 547.821484 1093.62842 3.1217 0.0017102 -0.076028 -4.165E-05 3.0457 0.0016685 547.8212510171522 75.379 0.30743 76.044 75.867 76.174 0.6644 78 26 4 0 0 0 0.0080831 2 34738 34685;34738 85.357 51.254 1 4186500 2310 3346 1771 1775 2478;2479 2479 0.08534612610924341 AYVPGFAHI 9 Unmodified _AYVPGFAHI_ 0 0 0 ENST00000477994.1_1_10:104183924-104192326:-|nuORF;ENSG00000107874|ENST00000369937|CUEDC2 ENST00000477994.1_1_10:104183924-104192326:-|nuORF ENST00000477994.1_1_10:104183924-104192326:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.7594909667969 2 487.758352 973.502152 3.0988 0.0015115 -0.060365 -2.9444E-05 3.0385 0.001482 487.7582622706103 58.918 0.22439 58.918 58.733 58.957 0 36 17 3 0 0 0 0.029407 2 27160 27160;27203 56.048 25.823 1 3143000 2311 1612 1772 1776 2480;2481 2480 0.01434106105648425 AYVPGFAHI 9 Unmodified _AYVPGFAHI_ 0 0 0 ENST00000477994.1_1_10:104183924-104192326:-|nuORF;ENSG00000107874|ENST00000369937|CUEDC2 ENST00000477994.1_1_10:104183924-104192326:-|nuORF ENST00000477994.1_1_10:104183924-104192326:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.761474609375 2 487.758352 973.502152 2.9258 0.0014271 -0.27445 -0.00013386 2.6513 0.0012932 487.75841638617845 57.783 0.14857 58.552 58.409 58.557 0.76861 26 13 3 0 0 0 0.053335 1 26459 26459 45.75 17.263 1 8769300 2312 1612 1772 1776 2482 2482 0.01434106105648425 AYVPGFAHI 9 Unmodified _AYVPGFAHI_ 0 0 0 ENST00000477994.1_1_10:104183924-104192326:-|nuORF;ENSG00000107874|ENST00000369937|CUEDC2 ENST00000477994.1_1_10:104183924-104192326:-|nuORF ENST00000477994.1_1_10:104183924-104192326:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 487.758352 973.502152 3.2457 0.0015831 -0.80014 -0.00039027 2.4455 0.0011928 487.75814177951634 57.947 0.18154 58.615 58.449 58.63 0.66829 -0.079625 -0.00056715 NaN 56.048 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 1382100 2313 1612 1772 1776 0.01434106105648425 AYVRKWQR 8 Unmodified _AYVRKWQR_ 0 0 0 REV__nc|ENSG00000275832|Q9P227-2|ARHGAP23 REV__nc|ENSG00000275832|Q9P227-2|ARHGAP23 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.81640625 2 553.814525 1105.6145 NaN NaN NaN NaN NaN NaN NaN 29.061 1 29.321 28.821 29.821 0.2602 0 0 0 0.94507 1 13225 13225 9.3474 2.6243 1 + 2314 14738 1773 1777 2483 2483 0.0659137990248837 AYVVKVFSL 9 Unmodified _AYVVKVFSL_ 0 0 0 ENSG00000125730|ENST00000245907|C3;ENST00000598805.2_1_19:6686670-6693093:-|nuORF ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.3074951171875 2 513.305136 1024.59572 2.6682 0.0013696 1.2246 0.00062861 3.8928 0.0019982 513.3053983898835 69.385 0.2197 70.088 69.966 70.186 0.70302 38 23 3 0 0 0 0.0063542 1 33198 33198 88.954 45.096 1 2241900 2315 2416 1774 1778 2484 2484 0.08440405488090619 AYVVKVFSL 9 Unmodified _AYVVKVFSL_ 0 0 0 ENSG00000125730|ENST00000245907|C3;ENST00000598805.2_1_19:6686670-6693093:-|nuORF ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.3063354492188 2 513.305136 1024.59572 3.3535 0.0017214 -0.20369 -0.00010455 3.1498 0.0016168 513.304952331723 70.155 0.32839 70.412 70.251 70.579 0.25642 58 23 3 0 0 0 0.001731 2 32097 32097;32141 106.94 59.191 1 3174800 2316 2416 1774 1778 2485;2486 2485 0.08440405488090619 AYVVKVFSL 9 Unmodified _AYVVKVFSL_ 0 0 0 ENSG00000125730|ENST00000245907|C3;ENST00000598805.2_1_19:6686670-6693093:-|nuORF ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.306884765625 2 513.305136 1024.59572 3.0781 0.00158 0.13695 7.0295E-05 3.215 0.0016503 513.3051606836891 69.62 0.3114 70.28 70.129 70.44 0.66071 68 23 4 0 0 0 0.001731 3 31932 31887;31932;31977 106.94 59.191 1 3940800 2317 2416 1774 1778 2487;2488;2489 2488 0.08440405488090619 AYVVKVFSL 9 Unmodified _AYVVKVFSL_ 0 0 0 ENSG00000125730|ENST00000245907|C3;ENST00000598805.2_1_19:6686670-6693093:-|nuORF ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 513.305136 1024.59572 2.5596 0.0013139 0.21021 0.0001079 2.7698 0.0014218 513.3050013204861 70.351 0.18639 70.351 70.255 70.441 0 0.068193 9.883E-05 NaN 106.94 34 24 2 NaN NaN NaN NaN 0 NaN NaN 0 2352200 2318 2416 1774 1778 0.08440405488090619 AYYPAQGVQQF 11 Unmodified _AYYPAQGVQQF_ 0 0 0 nc|ENSG00000114867|Q04637-4|EIF4G1;nc|ENSG00000114867|Q04637-3|EIF4G1;ENSG00000114867|ENST00000346169|EIF4G1;nc|ENSG00000114867|Q04637-8|EIF4G1;nc|ENSG00000114867|Q04637-9|EIF4G1 nc|ENSG00000114867|Q04637-4|EIF4G1 nc|ENSG00000114867|Q04637-4|EIF4G1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 636.8103637695312 2 636.306395 1270.59824 3.9544 0.0025162 0.61279 0.00038992 4.5672 0.0029061 636.306714293956 55.834 0.26451 56.502 56.368 56.633 0.66798 16 9 2 0 0 0 0.016786 1 25535 25535 61.357 45.51 1 527320 2319 1928 1775 1779 2490 2490 -0.02623790844904761 CAAPTEPVI 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))AAPTEPVI_ C(1)AAPTEPVI C(44)AAPTEPVI 0 1 0 nc|ENSG00000117519|Q15417-3|CNN3;ENSG00000117519|ENST00000370206|CNN3;nc|ENSG00000117519|Q15417-2|CNN3 nc|ENSG00000117519|Q15417-3|CNN3 nc|ENSG00000117519|Q15417-3|CNN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 957.472412109375 1 957.470994 956.463718 3.8762 0.0037113 -0.048578 -4.6512E-05 3.8276 0.0036648 957.4711628640381 48.121 0.24139 48.383 48.263 48.505 0.26209 14 8 2 0 0 0 0.056465 1 21985 21985 44.407 15.92 1 492900 2320 2077 1776 1780 2491 2491 49 -0.016255675911793332 CAAPTEPVI 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))AAPTEPVI_ C(1)AAPTEPVI C(50)AAPTEPVI 0 1 0 nc|ENSG00000117519|Q15417-3|CNN3;ENSG00000117519|ENST00000370206|CNN3;nc|ENSG00000117519|Q15417-2|CNN3 nc|ENSG00000117519|Q15417-3|CNN3 nc|ENSG00000117519|Q15417-3|CNN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.2405090332031 2 479.239135 956.463718 3.2409 0.0015532 -0.081042 -3.8839E-05 3.1598 0.0015143 479.23908444238936 48.135 0.33136 48.397 48.2 48.531 0.2621 31 12 3 0 0 0 0.044201 1 22038 22038 49.669 26.52 1 2117800 2321 2077 1776 1780 2492 2492 49 -0.016255675911793332 CAAPTEPVI 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))AAPTEPVI_ 0 1 0 nc|ENSG00000117519|Q15417-3|CNN3;ENSG00000117519|ENST00000370206|CNN3;nc|ENSG00000117519|Q15417-2|CNN3 nc|ENSG00000117519|Q15417-3|CNN3 nc|ENSG00000117519|Q15417-3|CNN3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 479.239135 956.463718 3.0715 0.001472 -1.0743 -0.00051484 1.9972 0.00095714 479.23816533977254 48.313 0.30057 48.313 48.111 48.411 0 0.025358 -0.00082365 NaN 49.669 28 17 2 NaN NaN NaN NaN 0 NaN NaN 0 1049500 2322 2077 1776 1780 49 -0.016255675911793332 CAAPTEPVI 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))AAPTEPVI_ 0 1 0 nc|ENSG00000117519|Q15417-3|CNN3;ENSG00000117519|ENST00000370206|CNN3;nc|ENSG00000117519|Q15417-2|CNN3 nc|ENSG00000117519|Q15417-3|CNN3 nc|ENSG00000117519|Q15417-3|CNN3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 479.239135 956.463718 2.9335 0.0014059 -0.41514 -0.00019895 2.5184 0.0012069 479.2387351757646 47.371 0.32025 48.2 48.013 48.333 0.82915 -0.087506 -0.00019187 NaN 49.669 34 18 3 NaN NaN NaN NaN 0 NaN NaN 0 814970 2323 2077 1776 1780 49 -0.016255675911793332 CAAPTEPVI 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))AAPTEPVI_ 0 1 0 nc|ENSG00000117519|Q15417-3|CNN3;ENSG00000117519|ENST00000370206|CNN3;nc|ENSG00000117519|Q15417-2|CNN3 nc|ENSG00000117519|Q15417-3|CNN3 nc|ENSG00000117519|Q15417-3|CNN3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 479.239135 956.463718 3.1284 0.0014993 -0.039332 -1.885E-05 3.0891 0.0014804 479.2391248892367 47.587 0.36351 48.241 48.016 48.38 0.65356 -0.047007 0.00016833 NaN 49.669 37 15 3 NaN NaN NaN NaN 0 NaN NaN 0 1648700 2324 2077 1776 1780 49 -0.016255675911793332 CAIDQDPYF 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))AIDQDPYF_ C(1)AIDQDPYF C(46)AIDQDPYF 0 1 0 nc|ENSG00000140105|P23381-2|WARS1;SLC25A29-WARS|2|fusion;ENSG00000140105|ENST00000392882|WARS1 nc|ENSG00000140105|P23381-2|WARS1 nc|ENSG00000140105|P23381-2|WARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.7393188476562 2 564.736957 1127.45936 3.5968 0.0020313 -0.54794 -0.00030944 3.0489 0.0017218 564.7367703696763 60.64 0.25895 60.896 60.869 61.128 0.25578 25 14 2 0 0 0 0.052704 2 27804 27804;27856 46.021 22.838 1 528170 2325 3182 1777 1781 2493;2494 2493 61 -0.09927076804751778 CAIDQDPYF 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))AIDQDPYF_ C(1)AIDQDPYF C(55)AIDQDPYF 0 1 0 nc|ENSG00000140105|P23381-2|WARS1;SLC25A29-WARS|2|fusion;ENSG00000140105|ENST00000392882|WARS1 nc|ENSG00000140105|P23381-2|WARS1 nc|ENSG00000140105|P23381-2|WARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.7387084960938 2 564.736957 1127.45936 3.5867 0.0020256 -0.74405 -0.00042019 2.8427 0.0016054 564.7371194540029 60.185 0.2098 60.85 60.791 61.001 0.66503 14 11 2 0 0 0 0.032303 1 27558 27558 54.774 25.692 1 628260 2326 3182 1777 1781 2495 2495 61 -0.09927076804751778 CALDDNVCM 9 2 Carbamidomethyl (C) _C(Carbamidomethyl (C))ALDDNVC(Carbamidomethyl (C))M_ C(1)ALDDNVC(1)M C(57)ALDDNVC(57)M 0 2 0 ENSG00000101182|ENST00000370873|PSMA7;nc|ENSG00000101182|O14818-4|PSMA7;ENST00000484488.5_1_20:60714188-60718428:-|nuORF ENSG00000101182|ENST00000370873|PSMA7 ENSG00000101182|ENST00000370873|PSMA7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.20849609375 2 549.206652 1096.39875 3.7608 0.0020655 0.094782 5.2055E-05 3.8556 0.0021175 549.2067496136245 47.487 0.19174 47.751 47.58 47.772 0.26363 10 6 2 0 0 0 0.028312 1 21674 21674 57.471 23.369 1 541120 2327 1268 1778 1782 2496 2496 30;31 -0.14559253450988763 CANLPRSL 8 Unmodified _CANLPRSL_ 0 0 0 nc|ENSG00000144406|Q8N2C7-7|UNC80;nc|ENSG00000144406|Q8N2C7|UNC80;ENSG00000144406|ENST00000673920|UNC80;nc|ENSG00000144406|Q8N2C7-2|UNC80;nc|ENSG00000144406|Q8N2C7-4|UNC80;UNC80|p.G758Lfs*13|1|0.04|ENSG00000144406|chr2:209820618-209820619|-/ATTA|frameshift_variant;UNC80|p.G757Vfs*14|1|0.06|ENSG00000144406|chr2:209820617-209820618|-/TCAT|frameshift_variant nc|ENSG00000144406|Q8N2C7-7|UNC80;UNC80|p.G758Lfs*13|1|0.04|ENSG00000144406|chr2:209820618-209820619|-/ATTA|frameshift_variant;UNC80|p.G757Vfs*14|1|0.06|ENSG00000144406|chr2:209820617-209820618|-/TCAT|frameshift_variant nc|ENSG00000144406|Q8N2C7-7|UNC80 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2687072753906 2 437.234187 872.453822 3.0739 0.001344 -0.20385 -8.913E-05 2.8701 0.0012549 437.2342039487618 48.065 0.30233 48.327 48.181 48.484 0.26209 17 11 2 0 0 0 0.14021 1 21964 21964 7.9102 0 1 402650 2328 3424;18287;18286 1779 1783 2497 2497 0.012492891941064954 CATRGPRLPR 10 Unmodified _CATRGPRLPR_ 0 0 0 ENST00000507416.1_1_5:60457038-60458278:-|nuORF ENST00000507416.1_1_5:60457038-60458278:-|nuORF ENST00000507416.1_1_5:60457038-60458278:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.2146301269531 3 376.213586 1125.61893 2.6517 0.00099762 0.13127 4.9384E-05 2.783 0.001047 376.213603144372 56.018 0.6312 56.283 55.937 56.568 0.26543 86 26 4 0 0 0 0.80002 1 25561 25561 8.4443 2.2525 1 3026000 2329 8521 1780 1784 2498 2498 0.061145210537461026 CATRGPRLPR 10 Unmodified _CATRGPRLPR_ 0 0 0 ENST00000507416.1_1_5:60457038-60458278:-|nuORF ENST00000507416.1_1_5:60457038-60458278:-|nuORF ENST00000507416.1_1_5:60457038-60458278:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.2149353027344 3 376.213586 1125.61893 2.6815 0.0010088 0.71559 0.00026921 3.3971 0.001278 376.2137500174647 55.32 0.53201 55.988 55.647 56.179 0.66798 58 22 3 0 0 0 0.84738 1 25216 25216 6.1918 2.0023 1 2319100 2330 8521 1780 1784 2499 2499 0.061145210537461026 CATRQEPLL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))ATRQEPLL_ C(1)ATRQEPLL C(44)ATRQEPLL 0 1 0 ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.283447265625 2 544.281866 1086.54918 3.4838 0.0018962 -0.43092 -0.00023454 3.0529 0.0016616 544.2814457016931 33.631 0.34281 33.885 33.702 34.045 0.25389 33 21 2 0 0 0 0.057945 1 15321 15321 43.772 23.319 1 530380 2331 4706 1781 1785 2500 2500 80 0.009365975945001992 CATRQEPLL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))ATRQEPLL_ C(1)ATRQEPLL C(44)ATRQEPLL 0 1 0 ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.2838134765625 2 544.281866 1086.54918 3.368 0.0018331 -0.46057 -0.00025068 2.9074 0.0015825 544.2815488167948 33.114 0.33365 33.733 33.526 33.86 0.61831 33 17 3 0 0 0 0.057945 1 15170 15170 43.772 19.752 1 426790 2332 4706 1781 1785 2501 2501 80 0.009365975945001992 CATRQEPLL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))ATRQEPLL_ 0 1 0 ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 544.281866 1086.54918 3.3263 0.0018104 0.58618 0.00031905 3.9125 0.0021295 544.2817918888431 33.756 0.10499 33.756 33.682 33.787 0 0.0087648 0.00089953 NaN 43.772 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 274260 2333 4706 1781 1785 80 0.009365975945001992 CATRQEPLL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))ATRQEPLL_ 0 1 0 ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 544.281866 1086.54918 2.8753 0.001565 1.0162 0.00055308 3.8915 0.0021181 544.2820075280573 32.828 0.13966 33.616 33.561 33.701 0.78795 -0.13163 0.0013676 NaN 43.772 11 8 2 NaN NaN NaN NaN 0 NaN NaN 0 212590 2334 4706 1781 1785 80 0.009365975945001992 CCAPMGCF 8 Unmodified _CCAPMGCF_ 0 0 0 REV__ENST00000324607.7_1_6:20152917-20212568:-|nuORF REV__ENST00000324607.7_1_6:20152917-20212568:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 831.2689208984375 1 831.265634 830.258358 3.9089 0.0032493 0.62117 0.00051636 4.53 0.0037657 831.2670585754703 7.7854 0.14215 7.7854 7.6843 7.8264 0 21 14 2 0 0 0 0.7471 1 3519 3519 0 0 1 28460 + 2335 15342 1782 1786 2502 2502 -0.16356083918242348 CCCCCCCCFQI 11 Unmodified _CCCCCCCCFQI_ 0 0 0 ENST00000606389.5_1_2:69691306-69691378:-|nuORF ENST00000606389.5_1_2:69691306-69691378:-|nuORF ENST00000606389.5_1_2:69691306-69691378:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 411.2622985839844 3 411.105642 1230.2951 NaN NaN NaN NaN NaN NaN NaN 69.015 1 69.269 68.769 69.769 0.25443 0 0 0 1.0082 1 31615 31615 0 0 1 2336 9321 1783 1787 2503 2503 -0.3108398274216597 CCCCCCCCFQI 11 Unmodified _CCCCCCCCFQI_ 0 0 0 ENST00000606389.5_1_2:69691306-69691378:-|nuORF ENST00000606389.5_1_2:69691306-69691378:-|nuORF ENST00000606389.5_1_2:69691306-69691378:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 410.7728576660156 3 411.105642 1230.2951 NaN NaN NaN NaN NaN NaN NaN 76.682 1 76.937 76.437 77.437 0.25533 0 0 0 1.0082 1 35309 35309 0 0 1 2337 9321 1783 1787 2504 2504 -0.3108398274216597 CCCCCCCCFQI 11 Unmodified _CCCCCCCCFQI_ 0 0 0 ENST00000606389.5_1_2:69691306-69691378:-|nuORF ENST00000606389.5_1_2:69691306-69691378:-|nuORF ENST00000606389.5_1_2:69691306-69691378:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 411.10595703125 3 411.105642 1230.2951 NaN NaN NaN NaN NaN NaN NaN 76.485 1 77.149 76.649 77.649 0.66387 0 0 0 1.0082 1 35235 35235 0 0 1 2338 9321 1783 1787 2505 2505 -0.3108398274216597 CCCCCCCDLFA 11 Unmodified _CCCCCCCDLFA_ 0 0 0 REV__ENSG00000170075|ENST00000367282|GPR37L1 REV__ENSG00000170075|ENST00000367282|GPR37L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.652587890625 2 593.652972 1185.29139 NaN NaN NaN NaN NaN NaN NaN 32.354 1 32.354 31.854 32.854 0 0 0 0 1.0082 1 14651 14651 0 0 1 + 2339 13420 1784 1788 2506 2506 -0.293843292443853 CCCCCCCRP 9 Unmodified _CCCCCCCRP_ 0 0 0 REV__ENST00000498308.1_1_7:5111775-5112846:+|nuORF REV__ENST00000498308.1_1_7:5111775-5112846:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 497.2918395996094 2 497.121642 992.228731 NaN NaN NaN NaN NaN NaN NaN 44.11 1 44.11 43.61 44.61 0 0 0 0 0.91452 1 20136 20136 0 0 1 + 2340 16869 1785 1789 2507 2507 -0.26769430521903814 CCCCCCFV 8 Unmodified _CCCCCCFV_ 0 0 0 REV__ENST00000318348.8_1_12:110289098-110289272:-|nuORF REV__ENST00000318348.8_1_12:110289098-110289272:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 442.1183166503906 2 442.108526 882.202499 NaN NaN NaN NaN NaN NaN NaN 64.154 1 64.87 64.37 65.37 0.71521 0 0 0 0.99035 1 30191 30191 0 0 1 + 2341 15301 1786 1790 2508 2508 -0.2433137642173051 CCCCCCRWCTS 11 Unmodified _CCCCCCRWCTS_ 0 0 0 ENST00000519715.1_1_5:140012405-140013200:-|nuORF ENST00000519715.1_1_5:140012405-140013200:-|nuORF ENST00000519715.1_1_5:140012405-140013200:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 424.1188659667969 3 424.118939 1269.33499 NaN NaN NaN NaN NaN NaN NaN 15.448 1 16.101 15.601 16.601 0.65356 0 0 0 1.0082 1 6958 6958 0 0 1 2342 8626 1787 1791 2509 2509 -0.2889071974725539 CCCCCCRWCTS 11 Unmodified _CCCCCCRWCTS_ 0 0 0 ENST00000519715.1_1_5:140012405-140013200:-|nuORF ENST00000519715.1_1_5:140012405-140013200:-|nuORF ENST00000519715.1_1_5:140012405-140013200:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 424.1202697753906 3 424.118939 1269.33499 NaN NaN NaN NaN NaN NaN NaN 15.782 1 16.44 15.94 16.94 0.65798 0 0 0 1.0082 1 7111 7111 0 0 1 2343 8626 1787 1791 2510 2510 -0.2889071974725539 CCCCCCSDSSC 11 Unmodified _CCCCCCSDSSC_ 0 0 0 ENST00000531526.5_1_11:45944386-45945084:+|nuORF ENST00000531526.5_1_11:45944386-45945084:+|nuORF ENST00000531526.5_1_11:45944386-45945084:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.31591796875 2 558.606219 1115.19788 NaN NaN NaN NaN NaN NaN NaN 70.091 1 70.091 69.591 70.591 0 0 0 0 1.0082 1 33949 33949 0 0 1 2344 8728 1788 1792 2511 2511 -0.3551067341745693 CCCCCCSSGS 10 Unmodified _CCCCCCSSGS_ 0 0 0 REV__ENSG00000080709|ENST00000673685|KCNN2 REV__ENSG00000080709|ENST00000673685|KCNN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 319.06951904296875 3 319.06835 954.183221 NaN NaN NaN NaN NaN NaN NaN 62.64 1 62.89 62.39 63.39 0.24965 0 0 0 1.002 1 28681 28681 0 0 1 + 2345 10598 1789 1793 2512 2512 -0.29570377503284817 CCCCCEECGG 10 Unmodified _CCCCCEECGG_ 0 0 0 ENSG00000170075|ENST00000367282|GPR37L1 ENSG00000170075|ENST00000367282|GPR37L1 ENSG00000170075|ENST00000367282|GPR37L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.6617736816406 2 505.104169 1008.19379 NaN NaN NaN NaN NaN NaN NaN 109.91 1 110.52 110.02 111.02 0.60264 0 0 0 1.002 1 50684 50684 0 0 1 2346 4731 1790 1794 2513 2513 -0.30998394848859334 CCCCCSDSSC 10 Unmodified _CCCCCSDSSC_ 0 0 0 ENST00000531526.5_1_11:45944386-45945084:+|nuORF ENST00000531526.5_1_11:45944386-45945084:+|nuORF ENST00000531526.5_1_11:45944386-45945084:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.1029052734375 2 507.101626 1012.1887 NaN NaN NaN NaN NaN NaN NaN 97.146 1 97.748 97.248 98.248 0.6019 0 0 0 1.002 1 44667 44667 0 0 1 2347 8728 1791 1795 2514 2514 -0.3169069871148622 CCCCCSHV 8 Unmodified _CCCCCSHV_ 0 0 0 nc|ENSG00000231721|A0A455ZAR2|LINC-PINT;ENST00000451786.5_1_7:130792823-130793084:-|nuORF nc|ENSG00000231721|A0A455ZAR2|LINC-PINT nc|ENSG00000231721|A0A455ZAR2|LINC-PINT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 429.11529541015625 2 429.115197 856.215841 NaN NaN NaN NaN NaN NaN NaN 76.306 1 76.93 76.43 77.43 0.62397 0 0 0 0.99035 1 36976 36976 0 0 1 2348 8019 1792 1796 2515 2515 -0.21801802318134378 CCCCEECI 8 Unmodified _CCCCEECI_ 0 0 0 ENSG00000170775|ENST00000303921|GPR37 ENSG00000170775|ENST00000303921|GPR37 ENSG00000170775|ENST00000303921|GPR37 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 453.1182861328125 2 453.120145 904.225737 NaN NaN NaN NaN NaN NaN NaN 66.488 1 67.145 66.645 67.645 0.65672 0 0 0 0.99035 1 30481 30481 0.79363 0.10326 1 2349 4767 1793 1797 2516 2516 -0.2302065910341753 CCCCYCCT 8 Unmodified _CCCCYCCT_ 0 0 0 REV__nc|ENSG00000101152|Q9H3Z4-2|DNAJC5 REV__nc|ENSG00000101152|Q9H3Z4-2|DNAJC5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.72210693359375 2 451.095616 900.176679 NaN NaN NaN NaN NaN NaN NaN 65.949 1 66.658 66.158 67.158 0.70891 0 0 0 0.99035 1 31229 31229 0 0 1 + 2350 10869 1794 1798 2517 2517 -0.2774027066401459 CCCGEGEG 8 Unmodified _CCCGEGEG_ 0 0 0 ENST00000512260.5_2_5:175603743-175612170:-|nuORF;ENST00000515403.5_2_5:175603393-175612140:-|nuORF ENST00000512260.5_2_5:175603743-175612170:-|nuORF ENST00000512260.5_2_5:175603743-175612170:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.10400390625 2 379.101124 756.187695 NaN NaN NaN NaN NaN NaN NaN 51.484 1 52.144 51.644 52.644 0.65956 0 0 0 0.99035 1 23544 23544 0 0 1 2351 8569 1795 1799 2518 2518 -0.2001508570220949 CCCGEGGVS 9 Unmodified _CCCGEGGVS_ 0 0 0 ENST00000505490.2_1_17:79845733-79845814:-|nuORF ENST00000505490.2_1_17:79845733-79845814:-|nuORF ENST00000505490.2_1_17:79845733-79845814:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 814.2549438476562 1 814.252821 813.245545 4.2424 0.0034544 -1.213 -0.00098767 3.0294 0.0024667 814.2514125899651 30.502 0.38563 30.758 30.564 30.95 0.25614 37 21 2 0 0 0 1.1154 1 13893 13893 2.0598 1.2661 1 366920 2352 8505 1796 1800 2519 2519 -0.16854823776782268 CCCHAPCCPC 10 Unmodified _CCCHAPCCPC_ 0 0 0 REV__nc|ENSG00000145103|Q86SU0-3|ILDR1 REV__nc|ENSG00000145103|Q86SU0-3|ILDR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.1416015625 2 520.140889 1038.26722 NaN NaN NaN NaN NaN NaN NaN 56.051 1 56.829 56.329 57.329 0.77786 0 0 0 1.002 1 25614 25614 0 0 1 + 2353 12426 1797 1801 2520 2520 -0.2503780161573559 CCCHAPCCPC 10 Unmodified _CCCHAPCCPC_ 0 0 0 REV__nc|ENSG00000145103|Q86SU0-3|ILDR1 REV__nc|ENSG00000145103|Q86SU0-3|ILDR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.1419677734375 2 520.140889 1038.26722 NaN NaN NaN NaN NaN NaN NaN 55.943 1 56.209 55.709 56.709 0.26543 0 0 0 1.002 1 25586 25586 0 0 1 + 2354 12426 1797 1801 2521 2521 -0.2503780161573559 CCDCCSPV 8 Unmodified _CCDCCSPV_ 0 0 0 ENSG00000182447|ENST00000327928|OTOL1 ENSG00000182447|ENST00000327928|OTOL1 ENSG00000182447|ENST00000327928|OTOL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 829.2405395507812 1 829.234728 828.227452 3.3572 0.0027839 3.9844 0.003304 7.3417 0.006088 829.2390090881316 96.139 0.028671 96.139 96.122 96.15 0 5 3 2 0 0 0 0.7471 1 51957 51957 0.79363 0 1 9936000 2355 5334 1798 1802 2522 2522 -0.19353282023143947 CCFCCRCCC 9 Unmodified _CCFCCRCCC_ 0 0 0 REV__ENSG00000183067|ENST00000380588|IGSF5 REV__ENSG00000183067|ENST00000380588|IGSF5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.6195678710938 2 522.129467 1042.24438 NaN NaN NaN NaN NaN NaN NaN 75.007 1 75.671 75.171 76.171 0.6635 0 0 0 0.91452 1 36300 36300 0 0 1 + 2356 13914 1799 1803 2523 2523 -0.27505144004862814 CCFSCFCCT 9 Unmodified _CCFSCFCCT_ 0 0 0 REV__ENST00000368170.7_1_1:158259849-158259882:+|nuORF REV__ENST00000368170.7_1_1:158259849-158259882:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.4317932128906 3 339.431617 1015.27302 NaN NaN NaN NaN NaN NaN NaN 66.944 1 66.944 66.444 67.444 0 0 0 0 0.91452 1 32031 32031 0 0 1 + 2357 15678 1800 1804 2524 2524 -0.23400379832423823 CCGCCGPQCCC 11 Unmodified _CCGCCGPQCCC_ 0 0 0 REV__ENSG00000186860|ENST00000334202|KRTAP17-1 REV__ENSG00000186860|ENST00000334202|KRTAP17-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.2042236328125 2 540.121839 1078.22912 NaN NaN NaN NaN NaN NaN NaN 64.232 1 64.232 63.732 64.732 0 0 0 0 1.0082 1 30385 30385 0 0 1 + 2358 14074 1801 1805 2525 2525 -0.3068605559271873 CCGCCGPQCCC 11 Unmodified _CCGCCGPQCCC_ 0 0 0 REV__ENSG00000186860|ENST00000334202|KRTAP17-1 REV__ENSG00000186860|ENST00000334202|KRTAP17-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.6614990234375 2 540.121839 1078.22912 NaN NaN NaN NaN NaN NaN NaN 82.149 1 82.149 81.649 82.649 0 0 0 0 1.0082 1 41033 41033 0 0 1 + 2359 14074 1801 1805 2526 2526 -0.3068605559271873 CCGCCGPQCCC 11 Unmodified _CCGCCGPQCCC_ 0 0 0 REV__ENSG00000186860|ENST00000334202|KRTAP17-1 REV__ENSG00000186860|ENST00000334202|KRTAP17-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.31396484375 2 540.121839 1078.22912 NaN NaN NaN NaN NaN NaN NaN 92.194 1 92.277 91.777 92.777 0.082848 0 0 0 1.0082 1 47983 47983 0 0 1 + 2360 14074 1801 1805 2527 2527 -0.3068605559271873 CCGNPWCGDCC 11 Unmodified _CCGNPWCGDCC_ 0 0 0 REV__ENSG00000111412|ENST00000261318|SPRING1 REV__ENSG00000111412|ENST00000261318|SPRING1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 580.656982421875 2 580.657957 1159.30136 NaN NaN NaN NaN NaN NaN NaN 48.672 1 48.672 48.172 49.172 0 0 0 0 1.008 1 22290 22290 0.30703 0.30703 1 + 2361 11231 1802 1806 2528 2528 -0.27191681923136457 CCHSSGDCC 9 Unmodified _CCHSSGDCC_ 0 0 0 ENSG00000187173|ENST00000368779|LCE2A ENSG00000187173|ENST00000368779|LCE2A ENSG00000187173|ENST00000368779|LCE2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 914.2312622070312 1 914.225955 913.218678 3.9206 0.0035843 2.9088 0.0026593 6.8294 0.0062436 914.2288978068575 52.755 0.19828 53.019 52.855 53.053 0.26345 13 7 2 0 0 0 1.2459 1 24078 24078 0 0 1 445130 2362 5607 1803 1807 2529 2529 -0.24140255659631293 CCHSSGDCC 9 Unmodified _CCHSSGDCC_ 0 0 0 ENSG00000187173|ENST00000368779|LCE2A ENSG00000187173|ENST00000368779|LCE2A ENSG00000187173|ENST00000368779|LCE2A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 914.225955 913.218678 3.8752 0.0035428 4.08 0.00373 7.9551 0.0072728 914.2297199035212 53.035 0.31019 53.035 52.819 53.129 0 0.0082 0.00052773 NaN 0 25 16 2 NaN NaN NaN NaN 0 NaN NaN 0 462610 2363 5607 1803 1807 -0.24140255659631293 CCLCWCCCC 9 Unmodified _CCLCWCCCC_ 0 0 0 ENSG00000171700|ENST00000395042|RGS19 ENSG00000171700|ENST00000395042|RGS19 ENSG00000171700|ENST00000395042|RGS19 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.1248779296875 2 520.126393 1038.23823 NaN NaN NaN NaN NaN NaN NaN 77.474 1 77.729 77.229 78.229 0.25495 0 0 0 0.91452 1 35679 35679 0 0 1 2364 4823 1804 1808 2530 2530 -0.27935662236382086 CCMQMWCWSCA 11 Unmodified _CCMQMWCWSCA_ 0 0 0 REV__ENST00000442692.2_1_11:68822646-68853210:+|nuORF REV__ENST00000442692.2_1_11:68822646-68853210:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 676.21484375 2 676.214585 1350.41462 NaN NaN NaN NaN NaN NaN NaN 70.671 1 71.375 70.875 71.875 0.70386 0 0 0 1.0082 1 33881 33881 0 0 1 + 2365 16355 1805 1809 2531 2531 -0.24657329801584638 CCPCCCCHHA 10 Unmodified _CCPCCCCHHA_ 0 0 0 REV__ENSG00000197191|ENST00000650725|CYSRT1 REV__ENSG00000197191|ENST00000650725|CYSRT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.0776977539062 2 540.143963 1078.27337 NaN NaN NaN NaN NaN NaN NaN 69.227 1 69.929 69.429 70.429 0.70218 0 0 0 1.002 1 33114 33114 0 0 1 + 2366 14267 1806 1810 2532 2532 -0.26263283384218994 CCPFCHCC 8 Unmodified _CCPFCHCC_ 0 0 0 REV__ENSG00000222036|ENST00000547889|POTEM REV__ENSG00000222036|ENST00000547889|POTEM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 458.1241455078125 2 458.125565 914.236577 NaN NaN NaN NaN NaN NaN NaN 91.863 1 91.863 91.363 92.363 0 0 0 0 0.99035 1 48656 48656 0 0 1 + 2367 14101 1807 1811 2533 2533 -0.22397211938482542 CCSCSSCGSC 10 Unmodified _CCSCSSCGSC_ 0 0 0 ENSG00000205869|ENST00000382171|KRTAP5-1 ENSG00000205869|ENST00000382171|KRTAP5-1 ENSG00000205869|ENST00000382171|KRTAP5-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.1127624511719 2 470.110309 938.206064 NaN NaN NaN NaN NaN NaN NaN 68.525 1 69.227 68.727 69.727 0.70218 0 0 0 1.002 1 32673 32673 0 0 1 2368 6061 1808 1812 2534 2534 -0.2655103511416428 CCYCCCCLCCC 11 Unmodified _CCYCCCCLCCC_ 0 0 0 nc|ENSG00000101152|Q9H3Z4-2|DNAJC5;ENSG00000101152|ENST00000360864|DNAJC5 nc|ENSG00000101152|Q9H3Z4-2|DNAJC5 nc|ENSG00000101152|Q9H3Z4-2|DNAJC5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 408.0901184082031 3 408.087482 1221.24062 NaN NaN NaN NaN NaN NaN NaN 67.779 1 68.031 67.531 68.531 0.25227 0 0 0 1.0082 1 31048 31048 0 0 1 2369 1264 1809 1813 2535 2535 -0.36115317885241893 CCYSCEEDSCQ 11 Unmodified _CCYSCEEDSCQ_ 0 0 0 ENSG00000117983|ENST00000529681|MUC5B ENSG00000117983|ENST00000529681|MUC5B ENSG00000117983|ENST00000529681|MUC5B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 635.36474609375 2 635.179974 1268.34539 NaN NaN NaN NaN NaN NaN NaN 31.599 1 32.388 31.888 32.888 0.78879 0 0 0 1.008 1 14273 14273 0.26902 0.26902 1 2370 2099 1810 1814 2536 2536 -0.27804419015797066 CDCEEGED 8 Unmodified _CDCEEGED_ 0 0 0 REV__ENSG00000069206|ENST00000175238|ADAM7 REV__ENSG00000069206|ENST00000175238|ADAM7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.1238098144531 2 450.123308 898.232063 NaN NaN NaN NaN NaN NaN NaN 32.237 1 32.237 31.737 32.737 0 0 0 0 0.99035 1 14596 14596 0 0 1 + 2371 10468 1811 1815 2537 2537 -0.22112403075027487 CDCPEPCA 8 Unmodified _CDCPEPCA_ 0 0 0 REV__ENSG00000129009|ENST00000249842|ISLR REV__ENSG00000129009|ENST00000249842|ISLR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 419.1353454589844 2 419.132424 836.250296 NaN NaN NaN NaN NaN NaN NaN 75.361 1 75.618 75.118 76.118 0.25704 0 0 0 0.99035 1 34675 34675 2.3027 2.3027 1 + 2372 11777 1812 1816 2538 2538 -0.17437939634044142 CDCPEPCA 8 Unmodified _CDCPEPCA_ 0 0 0 REV__ENSG00000129009|ENST00000249842|ISLR REV__ENSG00000129009|ENST00000249842|ISLR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 418.9249572753906 2 419.132424 836.250296 NaN NaN NaN NaN NaN NaN NaN 53.503 1 54.168 53.668 54.668 0.6644 0 0 0 0.99035 1 24467 24467 2.5775 2.5775 1 + 2373 11777 1812 1816 2539 2539 -0.17437939634044142 CDCPEPCA 8 Unmodified _CDCPEPCA_ 0 0 0 REV__ENSG00000129009|ENST00000249842|ISLR REV__ENSG00000129009|ENST00000249842|ISLR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 419.1343688964844 2 419.132424 836.250296 NaN NaN NaN NaN NaN NaN NaN 73.127 1 73.791 73.291 74.291 0.66398 0 0 0 0.99035 1 33591 33591 2.3027 2.3027 1 + 2374 11777 1812 1816 2540 2540 -0.17437939634044142 CDCPEPCA 8 Unmodified _CDCPEPCA_ 0 0 0 REV__ENSG00000129009|ENST00000249842|ISLR REV__ENSG00000129009|ENST00000249842|ISLR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 419.1345520019531 2 419.132424 836.250296 NaN NaN NaN NaN NaN NaN NaN 75.168 1 75.832 75.332 76.332 0.6644 0 0 0 0.99035 1 34622 34622 0.69038 0.69038 1 + 2375 11777 1812 1816 2541 2541 -0.17437939634044142 CDCPEPCA 8 Unmodified _CDCPEPCA_ 0 0 0 REV__ENSG00000129009|ENST00000249842|ISLR REV__ENSG00000129009|ENST00000249842|ISLR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 419.1348876953125 2 419.132424 836.250296 NaN NaN NaN NaN NaN NaN NaN 80.882 1 81.542 81.042 82.042 0.65998 0 0 0 0.99035 1 37267 37267 0.69038 0.69038 1 + 2376 11777 1812 1816 2542 2542 -0.17437939634044142 CDDDDDNDSN 10 Unmodified _CDDDDDNDSN_ 0 0 0 REV__nc|ENSG00000145700|Q8N7Z5|ANKRD31 REV__nc|ENSG00000145700|Q8N7Z5|ANKRD31 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.15576171875 2 564.156922 1126.29929 NaN NaN NaN NaN NaN NaN NaN 79.796 1 79.796 79.296 80.296 0 0 0 0 1.0016 1 39487 39487 0.35063 0.35063 1 + 2377 12449 1813 1817 2543 2543 -0.2588070133037945 CDDSCYKS 8 Unmodified _CDDSCYKS_ 0 0 0 REV__ENST00000590234.5_1_18:47810059-47811374:-|nuORF REV__ENST00000590234.5_1_18:47810059-47811374:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 921.3826293945312 1 920.312445 919.305168 3.2853 0.0030235 -3.4144 -0.0031423 -0.12904 -0.00011876 920.3101146257543 86.898 0.073624 86.898 86.852 86.925 0 9 8 2 0 0 0 0.71911 1 44640 44640 4.3292 1.44 1 16158000 + 2378 12726 1814 1818 2544 2544 -0.15771229561755717 CDEDDGCHM 9 Unmodified _CDEDDGCHM_ 0 0 0 REV__ENSG00000177202|ENST00000321762|SPACA4 REV__ENSG00000177202|ENST00000321762|SPACA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.7532958984375 2 512.643884 1023.27322 NaN NaN NaN NaN NaN NaN NaN 75.075 1 75.739 75.239 76.239 0.6644 0 0 0 0.91206 1 34578 34578 0.6015 0.6015 1 + 2379 13729 1815 1819 2545 2545 -0.2374896530720889 CDGDDDCGDWS 11 Unmodified _CDGDDDCGDWS_ 0 0 0 ENSG00000134569|ENST00000378623|LRP4 ENSG00000134569|ENST00000378623|LRP4 ENSG00000134569|ENST00000378623|LRP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 594.1657104492188 2 594.166235 1186.31792 NaN NaN NaN NaN NaN NaN NaN 75.525 1 75.782 75.282 76.282 0.25704 0 0 0 1.0082 1 34756 34756 0 0 1 2380 2815 1816 1820 2546 2546 -0.26778862960190963 CDGDNDCEDDS 11 Unmodified _CDGDNDCEDDS_ 0 0 0 ENSG00000134569|ENST00000378623|LRP4 ENSG00000134569|ENST00000378623|LRP4 ENSG00000134569|ENST00000378623|LRP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 593.79638671875 2 594.158607 1186.30266 NaN NaN NaN NaN NaN NaN NaN 47.441 1 48.094 47.594 48.594 0.65356 0 0 0 1.0082 1 21721 21721 0 0 1 2381 2815 1817 1821 2547 2547 -0.283037745480442 CDMEAAEEYC 10 Unmodified _CDMEAAEEYC_ 0 0 0 REV__ENSG00000253117|ENST00000254627|OC90 REV__ENSG00000253117|ENST00000254627|OC90 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.35888671875 2 582.188125 1162.3617 2.7168 0.0015817 1.6849 0.00098091 4.4017 0.0025626 582.1895793636642 7.9489 0.025853 8.2748 8.2559 8.2818 0.32587 5 4 2 0 0 0 0.12676 1 3574 3574 0.40072 0.40072 1 32412 + 2382 14657 1818 1822 2548 2548 -0.2129896978740362 CDPDMCDV 8 Unmodified _CDPDMCDV_ 0 0 0 REV__ENSG00000149256|ENST00000278550|TENM4 REV__ENSG00000149256|ENST00000278550|TENM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 449.1459045410156 2 449.142989 896.271425 NaN NaN NaN NaN NaN NaN NaN 89.58 1 90.258 89.758 90.758 0.67818 0 0 0 0.99035 1 41243 41243 0.69038 0 1 + 2383 12562 1819 1823 2549 2549 -0.1808597432516308 CDRHVMCEM 9 Unmodified _CDRHVMCEM_ 0 0 0 REV__ENST00000483186.1_1_9:77435204-77442805:-|nuORF REV__ENST00000483186.1_1_9:77435204-77442805:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.1448059082031 3 375.143235 1122.40788 NaN NaN NaN NaN NaN NaN NaN 85.225 1 85.473 84.973 85.973 0.24857 0 0 0 0.91014 1 39220 39220 1.0715 0.10919 1 + 2384 11490 1820 1824 2550 2550 -0.14843183366292578 CDSDDDCGDGS 11 Unmodified _CDSDDDCGDGS_ 0 0 0 ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.2120971679688 2 544.642593 1087.27063 NaN NaN NaN NaN NaN NaN NaN 95.398 1 95.398 94.898 95.898 0 0 0 0 1.0082 1 51356 51356 0 0 1 2385 4647 1821 1825 2551 2551 -0.2695114223120072 CDTEDDCGDH 10 Unmodified _CDTEDDCGDH_ 0 0 0 ENSG00000123384|ENST00000243077|LRP1 ENSG00000123384|ENST00000243077|LRP1 ENSG00000123384|ENST00000243077|LRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.8275146484375 2 555.160953 1108.30735 NaN NaN NaN NaN NaN NaN NaN 14.305 1 14.612 14.112 15.112 0.3069 0 0 0 1.0015 1 6474 6474 0.45834 0.10771 1 2386 2310 1822 1826 2552 2552 -0.24246845614607082 CDWQSASYVR 10 Unmodified _CDWQSASYVR_ 0 0 0 REV__nc|ENSG00000134574|Q92466-4|DDB2 REV__nc|ENSG00000134574|Q92466-4|DDB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.514404296875 3 405.513479 1213.51861 NaN NaN NaN NaN NaN NaN NaN 53.451 1 53.716 53.216 54.216 0.26462 0 0 0 1.0012 1 24445 24445 0.69767 0 1 + 2387 11970 1823 1827 2553 2553 -0.07961180790584876 CEACGKAYNT 10 Unmodified _CEACGKAYNT_ 0 0 0 nc|ENSG00000160321|O43345-2|ZNF208 nc|ENSG00000160321|O43345-2|ZNF208 nc|ENSG00000160321|O43345-2|ZNF208 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.2133178710938 2 530.215334 1058.41612 NaN NaN NaN NaN NaN NaN NaN 56.637 1 57.415 56.915 57.915 0.77786 0 0 0 1.0001 1 25899 25899 1.6526 0.85899 1 2388 9711 1824 1828 2554 2554 -0.11075589853680867 CEECCCCCCE 10 Unmodified _CEECCCCCCE_ 0 0 0 REV__ENSG00000170775|ENST00000303921|GPR37 REV__ENSG00000170775|ENST00000303921|GPR37 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.1105346679688 2 564.108594 1126.20264 NaN NaN NaN NaN NaN NaN NaN 29.773 1 30.562 30.062 31.062 0.78921 0 0 0 1.0015 1 13431 13431 0.40072 0.40072 1 + 2389 13451 1825 1829 2555 2555 -0.3554178927470275 CEECKYFKKG 10 Unmodified _CEECKYFKKG_ 0 0 0 REV__ENSG00000269067|ENST00000594710|ZNF728 REV__ENSG00000269067|ENST00000594710|ZNF728 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 617.745849609375 2 617.783384 1233.55222 NaN NaN NaN NaN NaN NaN NaN 94.816 1 95.433 94.933 95.933 0.61736 0 0 0 1.0001 1 43604 43604 1.6526 0 1 + 2390 14713 1826 1830 2556 2556 -0.05521895343031247 CELESDCD 8 Unmodified _CELESDCD_ 0 0 0 ENSG00000188993|ENST00000682860|LRRC66 ENSG00000188993|ENST00000682860|LRRC66 ENSG00000188993|ENST00000682860|LRRC66 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.10296630859375 3 305.101976 912.284098 NaN NaN NaN NaN NaN NaN NaN 39.906 1 40.172 39.672 40.672 0.26696 0 0 0 0.99035 1 18154 18154 0.40072 0 1 2391 5694 1827 1831 2557 2557 -0.1755523966128294 CELPRWHMHDF 11 Unmodified _CELPRWHMHDF_ 0 0 0 nc|ENSG00000136531|Q99250-2|SCN2A;ENSG00000136531|ENST00000375437|SCN2A;nc|ENSG00000196876|Q9UQD0-5|SCN8A;nc|ENSG00000196876|Q9UQD0|SCN8A;ENSG00000196876|ENST00000627620|SCN8A;nc|ENSG00000196876|Q9UQD0-3|SCN8A;nc|ENSG00000196876|Q9UQD0-4|SCN8A;ENST00000480032.4_1_2:166152333-166226884:+|nuORF nc|ENSG00000136531|Q99250-2|SCN2A nc|ENSG00000136531|Q99250-2|SCN2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.78863525390625 3 490.88503 1469.63326 NaN NaN NaN NaN NaN NaN NaN 74.51 1 75.174 74.674 75.674 0.6644 0 0 0 1.008 1 34300 34300 0.08335 0.010087 1 2392 2956 1828 1832 2558 2558 -0.08277194580273317 CEWYILRRYWF 11 Unmodified _CEWYILRRYWF_ 0 0 0 REV__ENSG00000188334|ENST00000344839|BSPH1 REV__ENSG00000188334|ENST00000344839|BSPH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.4951782226562 3 545.60274 1633.78639 NaN NaN NaN NaN NaN NaN NaN 89.649 1 89.714 89.214 90.214 0.064346 0 0 0 1.0082 1 45991 45991 0.094841 0.094841 1 + 2393 14145 1829 1833 2559 2559 -0.005152561921477172 CFCCCCCFCCC 11 Unmodified _CFCCCCCFCCC_ 0 0 0 REV__ENSG00000163793|ENST00000296097|DNAJC5G REV__ENSG00000163793|ENST00000296097|DNAJC5G MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.398193359375 2 620.622303 1239.23005 NaN NaN NaN NaN NaN NaN NaN 96.03 1 96.106 95.606 96.606 0.076538 0 0 0 1.0082 1 50926 50926 0 0 1 + 2394 13027 1830 1834 2560 2560 -0.3799930053967273 CFCCCSCWS 9 Unmodified _CFCCCSCWS_ 0 0 0 ENSG00000197651|ENST00000358859|CCER1 ENSG00000197651|ENST00000358859|CCER1 ENSG00000197651|ENST00000358859|CCER1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.7097778320312 2 521.141412 1040.26827 NaN NaN NaN NaN NaN NaN NaN 79.948 1 80.197 79.697 80.697 0.24947 0 0 0 0.91452 1 36811 36811 0 0 1 2395 5832 1831 1835 2561 2561 -0.25025263975203416 CFECHLPGEVL 11 Unmodified _CFECHLPGEVL_ 0 0 0 nc|ENSG00000015171|Q15326-6|ZMYND11;nc|ENSG00000015171|Q15326-3|ZMYND11;ENSG00000015171|ENST00000381604|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 416.1924743652344 3 416.191348 1245.55222 2.7348 0.0011382 -0.017824 -7.4184E-06 2.717 0.0011308 416.19136956375695 31.358 0.2654 32.147 31.974 32.239 0.78879 32 22 2 0 0 0 0.85532 1 14162 14162 4.4062 0.81909 1 1080900 2396 437 1832 1836 2562 2562 -0.0607389534302456 CFECHLPGEVL 11 Unmodified _CFECHLPGEVL_ 0 0 0 nc|ENSG00000015171|Q15326-6|ZMYND11;nc|ENSG00000015171|Q15326-3|ZMYND11;ENSG00000015171|ENST00000381604|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 416.5263366699219 3 416.191348 1245.55222 3.2128 0.0013371 -0.37435 -0.0001558 2.8385 0.0011813 416.1911667315121 32.463 0.24448 32.717 32.583 32.827 0.25452 23 13 2 0 0 0 0.85532 1 14797 14797 4.4062 0.52982 1 747620 2397 437 1832 1836 2563 2563 -0.0607389534302456 CFHRPKEL 8 Unmodified _CFHRPKEL_ 0 0 0 REV__ENST00000476943.1_1_13:49956911-49975339:-|nuORF REV__ENST00000476943.1_1_13:49956911-49975339:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.2699584960938 2 515.268561 1028.52257 NaN NaN NaN NaN NaN NaN NaN 37.704 1 38.5 38 39 0.79552 0 0 0 0.55493 1 17083 17083 26.884 1.4843 1 + 2398 16660 1833 1837 2564 2564 0.009449534938312354 CFLALLFTSF 10 Unmodified _CFLALLFTSF_ 0 0 0 REV__nc|ENSG00000103546|P23975-3|SLC6A2 REV__nc|ENSG00000103546|P23975-3|SLC6A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.3023681640625 2 581.304278 1160.594 NaN NaN NaN NaN NaN NaN NaN 83.125 1 83.785 83.285 84.285 0.66019 0 0 0 0.62767 1 38290 38290 26.884 7.5217 1 + 2399 10972 1834 1838 2565 2565 0.020130284078277327 CFPQPPRRNWL 11 Unmodified _CFPQPPRRNWL_ 0 0 0 ENSG00000171954|ENST00000269703|CYP4F22 ENSG00000171954|ENST00000269703|CYP4F22 ENSG00000171954|ENST00000269703|CYP4F22 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 471.9107360839844 3 471.911796 1412.71356 NaN NaN NaN NaN NaN NaN NaN 30.515 1 31.304 30.804 31.804 0.78921 0 0 0 1.008 1 13780 13780 0.094841 0.011491 1 2400 4847 1835 1839 2566 2566 0.023710348051054098 CFVCCFLA 8 Unmodified _CFVCCFLA_ 0 0 0 REV__ENSG00000156284|ENST00000399899|CLDN8 REV__ENSG00000156284|ENST00000399899|CLDN8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 453.190673828125 2 453.189545 904.364538 NaN NaN NaN NaN NaN NaN NaN 102.4 1 102.99 102.49 103.49 0.59759 0 0 0 0.99035 1 47396 47396 0.79363 0 1 + 2401 12769 1836 1840 2567 2567 -0.09147005081285897 CGAKCCGD 8 Unmodified _CGAKCCGD_ 0 0 0 nc|ENSG00000133134|Q9BXY8-2|BEX2 nc|ENSG00000133134|Q9BXY8-2|BEX2 nc|ENSG00000133134|Q9BXY8-2|BEX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 757.2503662109375 1 756.247342 755.240065 3.0283 0.0022901 -1.5108 -0.0011425 1.5175 0.0011476 756.2484670876171 12.174 0.10866 12.481 12.416 12.525 0.30727 34 25 2 0 0 0 0.7471 1 5480 5480 0.69038 0.69038 1 104880 2402 9646 1837 1841 2568 2568 -0.14734502568603602 CGCGCGKGCC 10 Unmodified _CGCGCGKGCC_ 0 0 0 nc|ENSG00000284667|A0A286YF46|SCYGR5;nc|ENSG00000285843|P0DSO2|SCYGR9;nc|ENSG00000284718|A0A286YF01|SCYGR7;nc|ENSG00000284725|A0A286YF77|SCYGR6;nc|ENSG00000284643|A0A286YFB4|SCYGR2 nc|ENSG00000284667|A0A286YF46|SCYGR5 nc|ENSG00000284667|A0A286YF46|SCYGR5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 890.2503662109375 1 890.244581 889.237305 4.7566 0.0042346 -2.0021 -0.0017823 2.7546 0.0024523 890.2430067596869 102.07 0.090912 102.39 102.32 102.41 0.31737 4 2 2 0 0 0 0.94443 1 47225 47225 0 0 1 1236800 2403 9871 1838 1842 2569 2569 -0.211744172894214 CGCNQMSS 8 Unmodified _CGCNQMSS_ 0 0 0 ENST00000591433.5_1_19:1360807-1362279:+|nuORF ENST00000591433.5_1_19:1360807-1362279:+|nuORF ENST00000591433.5_1_19:1360807-1362279:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 831.2671508789062 1 829.26372 828.256444 3.9105 0.0032428 1.1311 0.00093794 5.0416 0.0041808 829.2668175054596 6.4081 0.86423 6.4081 5.8984 6.7626 0 205 107 3 0 0 0 0.7471 1 2786 2786 0.69038 0 1 51505 2404 9237 1839 1843 2570 2570 -0.1645542140249745 CGDAHSCDCHE 11 Unmodified _CGDAHSCDCHE_ 0 0 0 REV__nc|ENSG00000157890|A6BM72-3|MEGF11 REV__nc|ENSG00000157890|A6BM72-3|MEGF11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.6773071289062 2 588.67879 1175.34303 NaN NaN NaN NaN NaN NaN NaN 12.262 1 12.899 12.399 13.399 0.63746 0 0 0 1.008 1 5464 5464 0.30703 0.30703 1 + 2405 12811 1840 1844 2571 2571 -0.2376308663860982 CGKGFGHA 8 Unmodified _CGKGFGHA_ 0 0 0 ENST00000395094.3_1_16:30543822-30545758:-|nuORF;ENST00000252799.3_1_16:30543822-30545758:-|nuORF;nc|ENSG00000169955|Q9BV97|ZNF747;ENSG00000169955|ENST00000693075|ZNF747;ENSG00000169951|ENST00000395091|ZNF764;nc|ENSG00000169951|Q96H86|ZNF764 ENST00000395094.3_1_16:30543822-30545758:-|nuORF ENST00000395094.3_1_16:30543822-30545758:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 388.67962646484375 2 388.679048 775.343543 2.1083 0.00081947 -0.80895 -0.00031442 1.2994 0.00050504 388.6781978816483 77.48 0.25609 77.48 77.348 77.604 0 34 18 3 0 0 0 0.7471 1 37978 37978 0.69038 0.69038 1 1332900 2406 4723 1841 1845 2572 2572 -0.05311511074273767 CGKGFGHA 8 Unmodified _CGKGFGHA_ 0 0 0 ENST00000395094.3_1_16:30543822-30545758:-|nuORF;ENST00000252799.3_1_16:30543822-30545758:-|nuORF;nc|ENSG00000169955|Q9BV97|ZNF747;ENSG00000169955|ENST00000693075|ZNF747;ENSG00000169951|ENST00000395091|ZNF764;nc|ENSG00000169951|Q96H86|ZNF764 ENST00000395094.3_1_16:30543822-30545758:-|nuORF ENST00000395094.3_1_16:30543822-30545758:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 388.6787414550781 2 388.679048 775.343543 1.9812 0.00077005 -1.4732 -0.00057262 0.50796 0.00019743 388.6780991813728 76.78 0.32571 77.404 77.239 77.565 0.62397 38 21 2 0 0 0 0.7471 1 37225 37225 0.69038 0.69038 1 823790 2407 4723 1841 1845 2573 2573 -0.05311511074273767 CGKGFGHA 8 Unmodified _CGKGFGHA_ 0 0 0 ENST00000395094.3_1_16:30543822-30545758:-|nuORF;ENST00000252799.3_1_16:30543822-30545758:-|nuORF;nc|ENSG00000169955|Q9BV97|ZNF747;ENSG00000169955|ENST00000693075|ZNF747;ENSG00000169951|ENST00000395091|ZNF764;nc|ENSG00000169951|Q96H86|ZNF764 ENST00000395094.3_1_16:30543822-30545758:-|nuORF ENST00000395094.3_1_16:30543822-30545758:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 388.6786193847656 2 388.679048 775.343543 2.7249 0.0010591 -1.4677 -0.00057046 1.2572 0.00048865 388.6777642095384 76.911 0.33804 77.166 76.988 77.326 0.25533 63 28 3 0 0 0 0.7471 1 35428 35428 0.69038 0.69038 1 1158400 2408 4723 1841 1845 2574 2574 -0.05311511074273767 CGKGFGHA 8 Unmodified _CGKGFGHA_ 0 0 0 ENST00000395094.3_1_16:30543822-30545758:-|nuORF;ENST00000252799.3_1_16:30543822-30545758:-|nuORF;nc|ENSG00000169955|Q9BV97|ZNF747;ENSG00000169955|ENST00000693075|ZNF747;ENSG00000169951|ENST00000395091|ZNF764;nc|ENSG00000169951|Q96H86|ZNF764 ENST00000395094.3_1_16:30543822-30545758:-|nuORF ENST00000395094.3_1_16:30543822-30545758:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 388.6788635253906 2 388.679048 775.343543 2.5058 0.00097396 -1.1341 -0.00044081 1.3717 0.00053314 388.6778174276025 76.537 0.32439 77.201 77.066 77.39 0.66387 54 24 3 0 0 0 0.7471 1 35293 35293 0.69038 0.69038 1 1082600 2409 4723 1841 1845 2575 2575 -0.05311511074273767 CGKGFGHA 8 Unmodified _CGKGFGHA_ 0 0 0 ENST00000395094.3_1_16:30543822-30545758:-|nuORF;ENST00000252799.3_1_16:30543822-30545758:-|nuORF;nc|ENSG00000169955|Q9BV97|ZNF747;ENSG00000169955|ENST00000693075|ZNF747;ENSG00000169951|ENST00000395091|ZNF764;nc|ENSG00000169951|Q96H86|ZNF764 ENST00000395094.3_1_16:30543822-30545758:-|nuORF ENST00000395094.3_1_16:30543822-30545758:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 388.679048 775.343543 2.1083 0.00081947 -0.80895 -0.00031442 1.2994 0.00050504 388.6781978816483 77.48 0.25609 77.48 77.348 77.604 0 0.16704 0.00032957 NaN 0.69038 34 18 3 NaN NaN NaN NaN 0 NaN NaN 0 1332900 2410 4723 1841 1845 -0.05311511074273767 CGPPFGYRQVY 11 Unmodified _CGPPFGYRQVY_ 0 0 0 REV__nc|ENSG00000093217|O75191-2|XYLB REV__nc|ENSG00000093217|O75191-2|XYLB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 644.2950439453125 2 643.802965 1285.59138 NaN NaN NaN NaN NaN NaN NaN 46.315 1 47.144 46.644 47.644 0.82915 0 0 0 1.0071 1 21094 21094 1.4819 0.28856 1 + 2411 10753 1842 1846 2576 2576 -0.03999426997120281 CGPQCCCEECC 11 Unmodified _CGPQCCCEECC_ 0 0 0 REV__ENSG00000186860|ENST00000334202|KRTAP17-1 REV__ENSG00000186860|ENST00000334202|KRTAP17-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.1494750976562 2 589.149108 1176.28366 NaN NaN NaN NaN NaN NaN NaN 86.904 1 86.935 86.435 87.435 0.030289 0 0 0 1.0082 1 43849 43849 0 0 1 + 2412 14074 1843 1847 2577 2577 -0.2974276524028028 CGSSSYTVTP 10 Unmodified _CGSSSYTVTP_ 0 0 0 ENSG00000180998|ENST00000321662|GPR137C ENSG00000180998|ENST00000321662|GPR137C ENSG00000180998|ENST00000321662|GPR137C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.47979736328125 3 334.479664 1000.41716 NaN NaN NaN NaN NaN NaN NaN 37.552 1 37.813 37.313 38.313 0.26083 0 0 0 0.99995 1 17103 17103 1.7423 0.089654 1 2413 5274 1844 1848 2578 2578 -0.08303052213113915 CGSSSYTVTP 10 Unmodified _CGSSSYTVTP_ 0 0 0 ENSG00000180998|ENST00000321662|GPR137C ENSG00000180998|ENST00000321662|GPR137C ENSG00000180998|ENST00000321662|GPR137C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.47918701171875 3 334.479664 1000.41716 NaN NaN NaN NaN NaN NaN NaN 45.053 1 45.321 44.821 45.821 0.26768 0 0 0 0.99995 1 20593 20593 1.7423 0.26037 1 2414 5274 1844 1848 2579 2579 -0.08303052213113915 CGTCCYFC 8 Unmodified _CGTCCYFC_ 0 0 0 REV__nc|ENSG00000187609|Q8N9H8-3|EXD3 REV__nc|ENSG00000187609|Q8N9H8-3|EXD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.1333312988281 2 450.13137 898.248187 NaN NaN NaN NaN NaN NaN NaN 71.799 1 72.462 71.962 72.962 0.66324 0 0 0 0.99035 1 32909 32909 0.79363 0.79363 1 + 2415 14104 1845 1849 2580 2580 -0.20500691643485425 CGYGCGYC 8 Unmodified _CGYGCGYC_ 0 0 0 REV__ENSG00000231068|ENST00000444335|KRTAP21-3 REV__ENSG00000231068|ENST00000444335|KRTAP21-3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 413.1230163574219 2 413.12186 824.229166 NaN NaN NaN NaN NaN NaN NaN 68.372 1 69.031 68.531 69.531 0.65924 0 0 0 0.99035 1 31341 31341 0 0 1 + 2416 14578 1846 1850 2581 2581 -0.18997904942898458 CHCCUSRPA 9 Unmodified _CHCCUSRPA_ 0 0 0 REV__ENSG00000250722|ENST00000514985|SELENOP REV__ENSG00000250722|ENST00000514985|SELENOP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.1008605957031 3 343.098504 1026.27368 NaN NaN NaN NaN NaN NaN NaN 56.597 1 57.266 56.766 57.766 0.66829 0 0 0 0.91238 1 25893 25893 0 0 0 + 2417 14656 1847 1851 2582 2582 -0.23840324631783005 CHGCCCNCCCC 11 Unmodified _CHGCCCNCCCC_ 0 0 0 REV__ENSG00000147570|ENST00000276570|DNAJC5B REV__ENSG00000147570|ENST00000276570|DNAJC5B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 576.1549072265625 2 576.110948 1150.20734 NaN NaN NaN NaN NaN NaN NaN 89.352 1 89.352 88.852 89.852 0 0 0 0 1.0082 1 46636 46636 0 0 1 + 2418 12511 1848 1852 2583 2583 -0.36175183612931505 CHGCCCNCCCC 11 Unmodified _CHGCCCNCCCC_ 0 0 0 REV__ENSG00000147570|ENST00000276570|DNAJC5B REV__ENSG00000147570|ENST00000276570|DNAJC5B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 576.1566162109375 2 576.110948 1150.20734 NaN NaN NaN NaN NaN NaN NaN 90.442 1 90.442 89.942 90.942 0 0 0 0 1.0082 1 47537 47537 0 0 1 + 2419 12511 1848 1852 2584 2584 -0.36175183612931505 CHHDFEEVCND 11 Unmodified _CHHDFEEVCND_ 0 0 0 REV__ENST00000529480.1_1_11:57449153-57457721:+|nuORF REV__ENST00000529480.1_1_11:57449153-57457721:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.2532043457031 3 449.829138 1346.46558 NaN NaN NaN NaN NaN NaN NaN 72.119 1 72.378 71.878 72.878 0.25876 0 0 0 1.0073 1 33101 33101 0.40827 0 1 + 2420 12778 1849 1853 2585 2585 -0.19378926635499738 CHLPVHWWRE 10 Unmodified _CHLPVHWWRE_ 0 0 0 REV__ENST00000541623.5_1_11:72398642-72398732:-|nuORF REV__ENST00000541623.5_1_11:72398642-72398732:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 681.83251953125 2 681.829849 1361.64514 3.3439 0.00228 -0.39129 -0.0002668 2.9526 0.0020132 681.8295331069255 104.44 0.32072 104.44 104.33 104.65 0 27 22 2 0 0 0 0.94217 1 57487 57487 0.45834 0.10771 1 436760 + 2421 17222 1850 1854 2586 2586 -0.021212097747820735 CHQYMGFHPRY 11 Unmodified _CHQYMGFHPRY_ 0 0 0 ENSG00000196208|ENST00000381486|GREB1;nc|ENSG00000196208|Q4ZG55-4|GREB1 ENSG00000196208|ENST00000381486|GREB1 ENSG00000196208|ENST00000381486|GREB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 719.812744140625 2 719.810799 1437.60704 NaN NaN NaN NaN NaN NaN NaN 89.435 1 89.686 89.186 90.186 0.25118 0 0 0 1.0073 1 41134 41134 1.1933 0.12188 1 2422 5725 1851 1855 2587 2587 -0.09425463751722418 CHRRRRRRRPQ 11 Unmodified _CHRRRRRRRPQ_ 0 0 0 REV__ENST00000487413.1_1_3:50453473-50541058:-|nuORF REV__ENST00000487413.1_1_3:50453473-50541058:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 788.9312744140625 2 788.956166 1575.89778 NaN NaN NaN NaN NaN NaN NaN 65.906 1 65.906 65.406 66.406 0 0 0 0 1.0075 1 31421 31421 2.4985 2.1479 1 + 2423 16767 1852 1856 2588 2588 0.13286660799008132 CHRWWRHHHHL 11 Unmodified _CHRWWRHHHHL_ 0 0 0 REV__ENST00000373316.4_1_X:77380531-77380872:+|nuORF REV__ENST00000373316.4_1_X:77380531-77380872:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 802.8886108398438 2 802.886887 1603.75922 NaN NaN NaN NaN NaN NaN NaN 51.42 1 52.08 51.58 52.58 0.65956 0 0 0 1.008 1 23515 23515 0.30703 0.30703 1 + 2424 15765 1853 1857 2589 2589 -0.018508821692876154 CHWESQCCD 9 Unmodified _CHWESQCCD_ 0 0 0 REV__nc|ENSG00000179846|Q17RQ9|NKPD1 REV__nc|ENSG00000179846|Q17RQ9|NKPD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.6773071289062 2 555.675519 1109.33648 NaN NaN NaN NaN NaN NaN NaN 101.73 1 101.73 101.23 102.23 0 0 0 0 0.91238 1 56202 56202 0.52476 0 1 + 2425 13807 1854 1858 2590 2590 -0.21380979799300803 CIETDQWF 8 Unmodified _CIETDQWF_ 0 0 0 REV__ENSG00000142449|ENST00000600128|FBN3 REV__ENSG00000142449|ENST00000600128|FBN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 347.8169860839844 3 347.816387 1040.42733 NaN NaN NaN NaN NaN NaN NaN 61.446 1 61.446 60.946 61.946 0 0 0 0 0.99035 1 28659 28659 0.40072 0.16487 1 + 2426 12324 1855 1859 2591 2591 -0.09126444487878871 CIIDKEVSL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))IIDKEVSL_ C(1)IIDKEVSL C(83)IIDKEVSL 0 1 0 nc|ENSG00000196141|Q9NUQ6-2|SPATS2L;ENSG00000196141|ENST00000409140|SPATS2L;nc|ENSG00000196141|Q9NUQ6-4|SPATS2L;nc|ENSG00000196141|Q9NUQ6-3|SPATS2L nc|ENSG00000196141|Q9NUQ6-2|SPATS2L nc|ENSG00000196141|Q9NUQ6-2|SPATS2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.7882080078125 2 538.78645 1075.55835 3.2781 0.0017662 0.13711 7.3872E-05 3.4152 0.0018401 538.7866135378813 51.636 0.20164 51.636 51.53 51.732 0 24 12 2 0 0 0 0.0095519 2 23666 23618;23666 82.529 27.756 1 519040 2427 5722 1856 1860 2592;2593 2593 92 0.023589461601659423 CIIDKEVSL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))IIDKEVSL_ C(1)IIDKEVSL C(93)IIDKEVSL 0 1 0 nc|ENSG00000196141|Q9NUQ6-2|SPATS2L;ENSG00000196141|ENST00000409140|SPATS2L;nc|ENSG00000196141|Q9NUQ6-4|SPATS2L;nc|ENSG00000196141|Q9NUQ6-3|SPATS2L nc|ENSG00000196141|Q9NUQ6-2|SPATS2L nc|ENSG00000196141|Q9NUQ6-2|SPATS2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.7894287109375 2 538.78645 1075.55835 2.9711 0.0016008 0.64016 0.00034491 3.6112 0.0019457 538.7870991737885 51.448 0.18141 51.71 51.61 51.792 0.26227 12 8 2 0 0 0 0.004576 1 23533 23533 92.653 37.88 1 1665900 2428 5722 1856 1860 2594 2594 92 0.023589461601659423 CIIDKEVSL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))IIDKEVSL_ C(1)IIDKEVSL C(77)IIDKEVSL 0 1 0 nc|ENSG00000196141|Q9NUQ6-2|SPATS2L;ENSG00000196141|ENST00000409140|SPATS2L;nc|ENSG00000196141|Q9NUQ6-4|SPATS2L;nc|ENSG00000196141|Q9NUQ6-3|SPATS2L nc|ENSG00000196141|Q9NUQ6-2|SPATS2L nc|ENSG00000196141|Q9NUQ6-2|SPATS2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.787353515625 2 538.78645 1075.55835 3.146 0.001695 0.09829 5.2957E-05 3.2443 0.001748 538.7865384896513 50.85 0.22798 51.51 51.412 51.64 0.65956 23 14 2 0 0 0 0.013715 1 23275 23275 76.825 22.051 1 798840 2429 5722 1856 1860 2595 2595 92 0.023589461601659423 CIKWRRRRRRR 11 Unmodified _CIKWRRRRRRR_ 0 0 0 ENST00000303961.8_1_19:41306371-41306464:+|nuORF ENST00000303961.8_1_19:41306371-41306464:+|nuORF ENST00000303961.8_1_19:41306371-41306464:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.0007934570312 3 548.002565 1640.98587 NaN NaN NaN NaN NaN NaN NaN 29.528 1 29.528 29.028 30.028 0 0 0 0 1.0082 1 13328 13328 0 0 1 2430 6825 1857 1861 2596 2596 0.19101281389612268 CINLNIIIH 9 Unmodified _CINLNIIIH_ 0 0 0 nc|ENSG00000049883|Q8WV60-2|PTCD2;nc|ENSG00000049883|Q8WV60-3|PTCD2;ENSG00000049883|ENST00000380639|PTCD2 nc|ENSG00000049883|Q8WV60-2|PTCD2 nc|ENSG00000049883|Q8WV60-2|PTCD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.8710632324219 3 351.535555 1051.58484 2.3091 0.00081173 0.58409 0.00020533 2.8932 0.0010171 351.53574167219784 14.518 0.26539 14.825 14.711 14.976 0.3069 32 18 2 0 0 0 0.92418 1 6558 6558 5.2969 0.39987 1 496250 2431 580 1858 1862 2597 2597 0.06110679842163336 CIPYHWWYRWW 11 Unmodified _CIPYHWWYRWW_ 0 0 0 REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 848.3862915039062 2 848.387531 1694.76051 NaN NaN NaN NaN NaN NaN NaN 103.69 1 103.69 103.19 104.19 0 0 0 0 1.0082 1 57124 57124 0 0 1 + 2432 16105 1859 1863 2598 2598 -0.059081056437889856 CIPYHWWYRWW 11 Unmodified _CIPYHWWYRWW_ 0 0 0 REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 565.7315673828125 3 565.927446 1694.76051 NaN NaN NaN NaN NaN NaN NaN 63.009 1 63.732 63.232 64.232 0.72236 0 0 0 1.0082 1 29471 29471 0 0 1 + 2433 16105 1859 1863 2599 2599 -0.059081056437889856 CIPYHWWYRWW 11 Unmodified _CIPYHWWYRWW_ 0 0 0 REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 848.3845825195312 2 848.387531 1694.76051 NaN NaN NaN NaN NaN NaN NaN 83.745 1 83.773 83.273 84.273 0.028603 0 0 0 1.0082 1 41631 41631 0 0 1 + 2434 16105 1859 1863 2600 2600 -0.059081056437889856 CKARRNQF 8 Unmodified _CKARRNQF_ 0 0 0 REV__nc|ENSG00000292354|O15266-2|SHOX REV__nc|ENSG00000292354|O15266-2|SHOX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 511.7277526855469 2 511.76926 1021.52397 NaN NaN NaN NaN NaN NaN NaN 91.11 1 91.186 90.686 91.686 0.075279 0 0 0 0.95658 1 47127 47127 8.5933 0.98433 1 + 2435 13367 1860 1864 2601 2601 0.01406587582573593 CKGLTKRN 8 Unmodified _CKGLTKRN_ 0 0 0 ENST00000547496.5_1_12:89853476-89885774:-|nuORF;ENST00000539190.6_1_12:89855074-89919672:-|nuORF;nc|ENSG00000139323|Q8TC44-2|POC1B;ENSG00000139323|ENST00000313546|POC1B ENST00000547496.5_1_12:89853476-89885774:-|nuORF ENST00000547496.5_1_12:89853476-89885774:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 307.1758728027344 3 307.17625 918.50692 NaN NaN NaN NaN NaN NaN NaN 29.711 1 29.711 29.211 30.211 0 0 0 0 0.99035 1 13414 13414 1.4819 0 1 2436 3143 1861 1865 2602 2602 0.04440666976779539 CKGLTKRN 8 Unmodified _CKGLTKRN_ 0 0 0 ENST00000547496.5_1_12:89853476-89885774:-|nuORF;ENST00000539190.6_1_12:89855074-89919672:-|nuORF;nc|ENSG00000139323|Q8TC44-2|POC1B;ENSG00000139323|ENST00000313546|POC1B ENST00000547496.5_1_12:89853476-89885774:-|nuORF ENST00000547496.5_1_12:89853476-89885774:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 307.17608642578125 3 307.17625 918.50692 NaN NaN NaN NaN NaN NaN NaN 29.408 1 29.666 29.166 30.166 0.25804 0 0 0 0.99035 1 13383 13383 1.4819 0 1 2437 3143 1861 1865 2603 2603 0.04440666976779539 CKIGFQAHYD 10 Unmodified _CKIGFQAHYD_ 0 0 0 REV__nc|ENSG00000173210|O94929-2|ABLIM3 REV__nc|ENSG00000173210|O94929-2|ABLIM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.5186462402344 3 394.518453 1180.53353 NaN NaN NaN NaN NaN NaN NaN 38.525 1 38.525 38.025 39.025 0 0 0 0 1.0003 1 17485 17485 0.62683 0 1 + 2438 13588 1862 1866 2604 2604 -0.04951688922574249 CKKFINLIFL 10 Unmodified _CKKFINLIFL_ 0 0 0 REV__ENST00000338785.7_1_21:38885904-38886156:+|nuORF REV__ENST00000338785.7_1_21:38885904-38886156:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.872314453125 2 619.87012 1237.72569 3.8293 0.0023737 -1.1345 -0.00070325 2.6948 0.0016704 619.8694594625646 90.557 0.98578 91.229 90.708 91.694 0.67271 117 49 3 0 0 0 0.94134 1 41461 41461 1.4819 0.95714 1 1600100 + 2439 15439 1863 1867 2605 2605 0.11633258495567134 CKLAALVRHRI 11 Unmodified _CKLAALVRHRI_ 0 0 0 RYR3|p.T4618Pfs*43|1|0.02|ENSG00000198838|chr15:33854439-33854440|-/TCCAGGTGCAG|frameshift_variant;nc|ENSG00000198838|Q15413-2|RYR3;ENSG00000198838|ENST00000634891|RYR3;nc|ENSG00000198838|Q15413-3|RYR3 RYR3|p.T4618Pfs*43|1|0.02|ENSG00000198838|chr15:33854439-33854440|-/TCCAGGTGCAG|frameshift_variant RYR3|p.T4618Pfs*43|1|0.02|ENSG00000198838|chr15:33854439-33854440|-/TCCAGGTGCAG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1279.77685546875 1 1279.77796 1278.77068 3.5004 0.0044798 0.089024 0.00011393 3.5895 0.0045937 1279.7781078621158 53.667 0.52583 53.667 53.404 53.93 0 65 36 2 0 0 0 0.89309 1 24590 24590 2.7352 1.4057 1 2374100 2440 5947 1864 1868 2606 2606 0.14244502081464816 CKLAALVRHRI 11 Unmodified _CKLAALVRHRI_ 0 0 0 RYR3|p.T4618Pfs*43|1|0.02|ENSG00000198838|chr15:33854439-33854440|-/TCCAGGTGCAG|frameshift_variant;nc|ENSG00000198838|Q15413-2|RYR3;ENSG00000198838|ENST00000634891|RYR3;nc|ENSG00000198838|Q15413-3|RYR3 RYR3|p.T4618Pfs*43|1|0.02|ENSG00000198838|chr15:33854439-33854440|-/TCCAGGTGCAG|frameshift_variant RYR3|p.T4618Pfs*43|1|0.02|ENSG00000198838|chr15:33854439-33854440|-/TCCAGGTGCAG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 320.700927734375 4 320.699946 1278.77068 2.4369 0.0007815 0.65357 0.0002096 3.0904 0.0009911 320.70020872823284 52.953 0.93101 53.216 52.635 53.566 0.26345 240 54 5 0 0 0 0.89309 1 24338 24338 1.1098 1.1098 1 81768000 2441 5947 1864 1868 2607 2607 0.14244502081464816 CKLAALVRHRV 11 Unmodified _CKLAALVRHRV_ 0 0 0 nc|ENSG00000196218|P21817-3|RYR1;nc|ENSG00000196218|P21817-2|RYR1;ENSG00000196218|ENST00000359596|RYR1 nc|ENSG00000196218|P21817-3|RYR1 nc|ENSG00000196218|P21817-3|RYR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.9278869628906 3 422.592286 1264.75503 2.5824 0.0010913 0.79559 0.00033621 3.378 0.0014275 422.59252016171985 47.396 0.32581 47.396 47.27 47.595 0 65 17 4 0 0 0 0.89309 1 21788 21788 1.1098 0.65524 1 4828000 2442 5726 1865 1869 2608 2608 0.133242155643984 CKLAALVRHRV 11 Unmodified _CKLAALVRHRV_ 0 0 0 nc|ENSG00000196218|P21817-3|RYR1;nc|ENSG00000196218|P21817-2|RYR1;ENSG00000196218|ENST00000359596|RYR1 nc|ENSG00000196218|P21817-3|RYR1 nc|ENSG00000196218|P21817-3|RYR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.59356689453125 3 422.592286 1264.75503 2.9952 0.0012658 0.66257 0.00028 3.6578 0.0015458 422.5924747282154 53.102 0.9758 53.102 52.629 53.605 0 185 64 4 0 0 0 0.89309 1 24374 24374 1.1098 1.1098 1 3803400 2443 5726 1865 1869 2609 2609 0.133242155643984 CKLAALVRHRV 11 Unmodified _CKLAALVRHRV_ 0 0 0 nc|ENSG00000196218|P21817-3|RYR1;nc|ENSG00000196218|P21817-2|RYR1;ENSG00000196218|ENST00000359596|RYR1 nc|ENSG00000196218|P21817-3|RYR1 nc|ENSG00000196218|P21817-3|RYR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.5937194824219 3 422.592286 1264.75503 2.9176 0.001233 0.08805 3.7209E-05 3.0057 0.0012702 422.59206905087194 57.256 0.19681 57.256 57.171 57.367 0 23 17 2 0 0 0 0.89309 1 26380 26380 1.1098 0 1 1924700 2444 5726 1865 1869 2610 2610 0.133242155643984 CKLAALVRHRV 11 Unmodified _CKLAALVRHRV_ 0 0 0 nc|ENSG00000196218|P21817-3|RYR1;nc|ENSG00000196218|P21817-2|RYR1;ENSG00000196218|ENST00000359596|RYR1 nc|ENSG00000196218|P21817-3|RYR1 nc|ENSG00000196218|P21817-3|RYR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.593505859375 3 422.592286 1264.75503 2.6631 0.0011254 0.78139 0.00033021 3.4445 0.0014556 422.927098644346 59.309 0.31399 59.309 59.262 59.576 0 41 26 2 0 0 0 0.89309 1 27522 27522 2.4348 0.52841 1 1455100 2445 5726 1865 1869 2611 2611 0.133242155643984 CKLAALVRHRV 11 Unmodified _CKLAALVRHRV_ 0 0 0 nc|ENSG00000196218|P21817-3|RYR1;nc|ENSG00000196218|P21817-2|RYR1;ENSG00000196218|ENST00000359596|RYR1 nc|ENSG00000196218|P21817-3|RYR1 nc|ENSG00000196218|P21817-3|RYR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.59454345703125 3 422.592286 1264.75503 2.6938 0.0011384 0.55041 0.0002326 3.2443 0.001371 422.592456816052 45.797 0.78267 46.624 46.256 47.039 0.82621 113 40 4 0 0 0 0.89309 2 20723 20723;21033 1.1098 0.48293 1 5485100 2446 5726 1865 1869 2612;2613 2612 0.133242155643984 CKLAALVRHRV 11 Unmodified _CKLAALVRHRV_ 0 0 0 nc|ENSG00000196218|P21817-3|RYR1;nc|ENSG00000196218|P21817-2|RYR1;ENSG00000196218|ENST00000359596|RYR1 nc|ENSG00000196218|P21817-3|RYR1 nc|ENSG00000196218|P21817-3|RYR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.593505859375 3 422.592286 1264.75503 2.6529 0.0011211 0.78882 0.00033335 3.4418 0.0014545 422.592304645361 46.375 0.28788 47.205 47.042 47.33 0.82915 51 15 4 0 0 0 0.89309 1 21136 21136 1.1098 1.1098 1 2707000 2447 5726 1865 1869 2614 2614 0.133242155643984 CKLAALVRHRV 11 Unmodified _CKLAALVRHRV_ 0 0 0 nc|ENSG00000196218|P21817-3|RYR1;nc|ENSG00000196218|P21817-2|RYR1;ENSG00000196218|ENST00000359596|RYR1 nc|ENSG00000196218|P21817-3|RYR1 nc|ENSG00000196218|P21817-3|RYR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.92767333984375 3 422.592286 1264.75503 2.3689 0.0010011 0.84218 0.0003559 3.2111 0.001357 422.5925429038583 52.352 0.43969 53.162 52.952 53.392 0.81065 73 30 3 0 0 0 0.91111 1 23850 23850 1.2148 1.2148 1 1393100 2448 5726 1865 1869 2615 2615 0.133242155643984 CKLAALVRHRV 11 Unmodified _CKLAALVRHRV_ 0 0 0 nc|ENSG00000196218|P21817-3|RYR1;nc|ENSG00000196218|P21817-2|RYR1;ENSG00000196218|ENST00000359596|RYR1 nc|ENSG00000196218|P21817-3|RYR1 nc|ENSG00000196218|P21817-3|RYR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.9282531738281 3 422.592286 1264.75503 2.4754 0.0010461 0.65343 0.00027613 3.1289 0.0013222 422.5923603003175 56.961 0.20366 57.739 57.59 57.793 0.77786 29 20 2 0 0 0 0.89309 1 26038 26038 1.1098 0 1 708080 2449 5726 1865 1869 2616 2616 0.133242155643984 CKLAALVRHRV 11 Unmodified _CKLAALVRHRV_ 0 0 0 nc|ENSG00000196218|P21817-3|RYR1;nc|ENSG00000196218|P21817-2|RYR1;ENSG00000196218|ENST00000359596|RYR1 nc|ENSG00000196218|P21817-3|RYR1 nc|ENSG00000196218|P21817-3|RYR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.59423828125 3 422.592286 1264.75503 2.9623 0.0012518 0.83244 0.00035178 3.7947 0.0016036 422.5925499846885 46.119 0.54383 46.385 46.024 46.568 0.26561 79 23 4 0 0 0 0.89309 1 21002 21002 1.1098 1.1098 1 5836400 2450 5726 1865 1869 2617 2617 0.133242155643984 CKLAALVRHRV 11 Unmodified _CKLAALVRHRV_ 0 0 0 nc|ENSG00000196218|P21817-3|RYR1;nc|ENSG00000196218|P21817-2|RYR1;ENSG00000196218|ENST00000359596|RYR1 nc|ENSG00000196218|P21817-3|RYR1 nc|ENSG00000196218|P21817-3|RYR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.19744873046875 4 317.196034 1264.75503 2.3359 0.00074095 0.93403 0.00029627 3.27 0.0010372 317.1962706123493 46.167 0.5174 46.432 46.103 46.62 0.26561 78 22 4 0 0 0 0.91111 1 21144 21144 0.40827 0.40827 1 10960000 2451 5726 1865 1869 2618 2618 0.133242155643984 CKLAALVRHRV 11 Unmodified _CKLAALVRHRV_ 0 0 0 nc|ENSG00000196218|P21817-3|RYR1;nc|ENSG00000196218|P21817-2|RYR1;ENSG00000196218|ENST00000359596|RYR1 nc|ENSG00000196218|P21817-3|RYR1 nc|ENSG00000196218|P21817-3|RYR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.59368896484375 3 422.592286 1264.75503 3.0927 0.001307 0.32567 0.00013763 3.4184 0.0014446 422.5922995577965 46.655 0.50031 46.921 46.568 47.068 0.26561 33 17 2 0 0 0 0.89309 1 21373 21373 1.1098 0.48293 1 6827100 2452 5726 1865 1869 2619 2619 0.133242155643984 CKLAALVRHRV 11 Unmodified _CKLAALVRHRV_ 0 0 0 nc|ENSG00000196218|P21817-3|RYR1;nc|ENSG00000196218|P21817-2|RYR1;ENSG00000196218|ENST00000359596|RYR1 nc|ENSG00000196218|P21817-3|RYR1 nc|ENSG00000196218|P21817-3|RYR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.1968994140625 4 317.196034 1264.75503 2.5013 0.00079341 0.39708 0.00012595 2.8984 0.00091937 317.19613195167653 46.874 0.84763 47.138 46.618 47.466 0.26363 72 29 5 0 0 0 0.89309 1 21424 21424 1.1098 0.48293 1 16465000 2453 5726 1865 1869 2620 2620 0.133242155643984 CKLAALVRHRV 11 Unmodified _CKLAALVRHRV_ 0 0 0 nc|ENSG00000196218|P21817-3|RYR1;nc|ENSG00000196218|P21817-2|RYR1;ENSG00000196218|ENST00000359596|RYR1 nc|ENSG00000196218|P21817-3|RYR1 nc|ENSG00000196218|P21817-3|RYR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5938720703125 3 422.592286 1264.75503 2.9257 0.0012364 1.0736 0.00045368 3.9992 0.00169 422.59269582828847 58.852 0.58222 59.115 59.017 59.599 0.26227 43 29 2 0 0 0 0.89309 1 27045 27045 2.4348 2.4348 1 780590 2454 5726 1865 1869 2621 2621 0.133242155643984 CKLAALVRHRV 11 Unmodified _CKLAALVRHRV_ 0 0 0 nc|ENSG00000196218|P21817-3|RYR1;nc|ENSG00000196218|P21817-2|RYR1;ENSG00000196218|ENST00000359596|RYR1 nc|ENSG00000196218|P21817-3|RYR1 nc|ENSG00000196218|P21817-3|RYR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5932312011719 3 422.592286 1264.75503 2.9352 0.0012404 0.79207 0.00033472 3.7273 0.0015751 422.59257131293424 61.415 0.44471 61.667 61.442 61.887 0.25245 36 20 2 0 0 0 0.89309 1 28181 28181 1.1098 0 1 782660 2455 5726 1865 1869 2622 2622 0.133242155643984 CKLAALVRHRV 11 Unmodified _CKLAALVRHRV_ 0 0 0 nc|ENSG00000196218|P21817-3|RYR1;nc|ENSG00000196218|P21817-2|RYR1;ENSG00000196218|ENST00000359596|RYR1 nc|ENSG00000196218|P21817-3|RYR1 nc|ENSG00000196218|P21817-3|RYR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.5938720703125 3 422.592286 1264.75503 3.283 0.0013874 0.58611 0.00024769 3.8691 0.001635 422.5923992642799 45.569 1.1841 46.22 45.721 46.905 0.65104 158 44 5 0 0 0 0.89309 3 20814 20814;20867;20973 1.1098 1.1098 1 4626900 2456 5726 1865 1869 2623;2624;2625 2623 0.133242155643984 CKLAALVRHRV 11 Unmodified _CKLAALVRHRV_ 0 0 0 nc|ENSG00000196218|P21817-3|RYR1;nc|ENSG00000196218|P21817-2|RYR1;ENSG00000196218|ENST00000359596|RYR1 nc|ENSG00000196218|P21817-3|RYR1 nc|ENSG00000196218|P21817-3|RYR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.59375 3 422.592286 1264.75503 2.8316 0.0011966 0.71782 0.00030335 3.5494 0.0015 422.9269987116416 52.419 0.88298 53.081 52.501 53.384 0.66198 78 44 3 0 0 0 0.89309 1 23961 23961 1.1098 1.1098 1 2844000 2457 5726 1865 1869 2626 2626 0.133242155643984 CKLAALVRHRV 11 Unmodified _CKLAALVRHRV_ 0 0 0 nc|ENSG00000196218|P21817-3|RYR1;nc|ENSG00000196218|P21817-2|RYR1;ENSG00000196218|ENST00000359596|RYR1 nc|ENSG00000196218|P21817-3|RYR1 nc|ENSG00000196218|P21817-3|RYR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.5939636230469 3 422.592286 1264.75503 3.0654 0.0012954 -0.11432 -4.8313E-05 2.9511 0.0012471 422.5920192710376 56.467 0.57382 57.135 56.845 57.419 0.66829 55 32 2 0 0 0 0.89309 1 25880 25880 2.4348 1.808 1 1441500 2458 5726 1865 1869 2627 2627 0.133242155643984 CKNDQCDDFD 10 Unmodified _CKNDQCDDFD_ 0 0 0 REV__nc|ENSG00000145147|O94813-3|SLIT2 REV__nc|ENSG00000145147|O94813-3|SLIT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 601.7078857421875 2 601.70807 1201.40159 NaN NaN NaN NaN NaN NaN NaN 90.874 1 91.126 90.626 91.626 0.25163 0 0 0 1.0015 1 41785 41785 0.40072 0.093686 1 + 2459 12429 1866 1870 2628 2628 -0.19105706792493038 CKQSRDGLHIK 11 Unmodified _CKQSRDGLHIK_ 0 0 0 REV__ENSG00000173258|ENST00000309235|ZNF483 REV__ENSG00000173258|ENST00000309235|ZNF483 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 428.9007568359375 3 428.899556 1283.67684 2.2595 0.00096908 1.2483 0.00053539 3.5077 0.0015045 428.9001866113255 72.826 0.20469 72.826 72.713 72.917 0 30 17 2 0 0 0 0.904 1 35448 35448 2.2527 0.32522 1 1453600 + 2460 13593 1867 1871 2629 2629 0.04634738188519805 CKQSRDGLHIK 11 Unmodified _CKQSRDGLHIK_ 0 0 0 REV__ENSG00000173258|ENST00000309235|ZNF483 REV__ENSG00000173258|ENST00000309235|ZNF483 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 428.899556 1283.67684 2.2595 0.00096908 1.2483 0.00053539 3.5077 0.0015045 428.9001866113255 72.826 0.20469 72.826 72.713 72.917 0 -0.062077 0.00038606 NaN 2.2527 30 17 2 NaN NaN NaN NaN 0 NaN NaN 0 1453600 + 2461 13593 1867 1871 0.04634738188519805 CKQSRDGLHIK 11 Unmodified _CKQSRDGLHIK_ 0 0 0 REV__ENSG00000173258|ENST00000309235|ZNF483 REV__ENSG00000173258|ENST00000309235|ZNF483 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 428.899556 1283.67684 2.245 0.00096288 0.65982 0.000283 2.9048 0.0012459 429.2340979928053 72.247 0.2425 72.95 72.885 73.127 0.70387 0.062077 -0.00037112 NaN 2.2527 35 26 2 NaN NaN NaN NaN 0 NaN NaN 0 2593500 + 2462 13593 1867 1871 0.04634738188519805 CKSLLLLFP 9 Unmodified _CKSLLLLFP_ 0 0 0 ENST00000313486.11_1_17:1422931-1423162:-|nuORF ENST00000313486.11_1_17:1422931-1423162:-|nuORF ENST00000313486.11_1_17:1422931-1423162:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.31103515625 2 517.309364 1032.60417 3.5494 0.0018361 -0.34511 -0.00017853 3.2043 0.0016576 517.3088862275733 83.903 0.31956 84.565 84.395 84.715 0.66219 29 19 3 0 0 0 1.129 1 38632 38632 1.8442 0 1 1267800 2463 6885 1868 1872 2630 2630 0.08917636133060114 CKYCKERSFIK 11 Unmodified _CKYCKERSFIK_ 0 0 0 REV__ENSG00000214652|ENST00000456806|ZNF727 REV__ENSG00000214652|ENST00000456806|ZNF727 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 702.8580322265625 2 702.859957 1403.70536 NaN NaN NaN NaN NaN NaN NaN 54.548 1 54.548 54.048 55.048 0 0 0 0 1.0075 1 25033 25033 0.96228 0.50394 1 + 2464 14510 1869 1873 2631 2631 0.019657197734431975 CLCMCECE 8 Unmodified _CLCMCECE_ 0 0 0 ENST00000278426.7_2_11:57252034-57252334:-|nuORF ENST00000278426.7_2_11:57252034-57252334:-|nuORF ENST00000278426.7_2_11:57252034-57252334:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 467.0823059082031 2 467.135795 932.257037 NaN NaN NaN NaN NaN NaN NaN 62.376 1 63.107 62.607 63.607 0.73077 0 0 0 0.99035 1 29068 29068 0 0 1 2465 6684 1870 1874 2632 2632 -0.21180086069318804 CLIWKTTT 8 Unmodified _CLIWKTTT_ 0 0 0 ENST00000448866.5_2_7:139529035-139611059:+|nuORF;ENST00000492560.6_1_7:139529050-139575514:+|nuORF;ENST00000476637.5_1_7:139529080-139653256:+|nuORF ENST00000448866.5_2_7:139529035-139611059:+|nuORF ENST00000448866.5_2_7:139529035-139611059:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.5096740722656 3 322.509006 964.505189 2.1297 0.00068685 0.42663 0.00013759 2.5563 0.00082444 322.5091444280471 16.883 1.1655 17.188 16.336 17.501 0.30438 207 119 2 0 0 0 0.74071 1 7381 7381 1.6526 1.6526 1 167140 2466 7998 1871 1875 2633 2633 0.021516131681551087 CLKSILVF 8 Unmodified _CLKSILVF_ 0 0 0 ENST00000229266.7_2_12:102117024-102117060:+|nuORF ENST00000229266.7_2_12:102117024-102117060:+|nuORF ENST00000229266.7_2_12:102117024-102117060:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 308.1968994140625 3 308.185863 921.53576 NaN NaN NaN NaN NaN NaN NaN 20.773 1 20.773 20.273 21.273 0 0 0 0 0.99035 1 9294 9294 1.4819 0 1 2467 6437 1872 1876 2634 2634 0.0718539155320741 CLLALLLSLPR 11 Unmodified _CLLALLLSLPR_ 0 0 0 REV__ENSG00000101384|ENST00000254958|JAG1 REV__ENSG00000101384|ENST00000254958|JAG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 303.69451904296875 4 303.694064 1210.74715 1.6277 0.00049432 -0.65574 -0.00019914 0.97195 0.00029518 303.69389019250093 34.468 0.39992 34.468 34.255 34.655 0 52 21 3 0 0 0 0.91359 1 15683 15683 0.40827 0.40827 1 1531300 + 2468 10891 1873 1877 2635 2635 0.15020643524303523 CLLALLLSLPR 11 Unmodified _CLLALLLSLPR_ 0 0 0 REV__ENSG00000101384|ENST00000254958|JAG1 REV__ENSG00000101384|ENST00000254958|JAG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.6946105957031 4 303.694064 1210.74715 2.1237 0.00064494 -0.82577 -0.00025078 1.2979 0.00039416 303.69375095570655 31.264 0.71288 31.881 31.59 32.303 0.61737 136 53 4 0 0 0 0.91104 2 14404 14404;14449 1.2148 1.2148 1 2546700 + 2469 10891 1873 1877 2636;2637 2636 0.15020643524303523 CLLALLLSLPR 11 Unmodified _CLLALLLSLPR_ 0 0 0 REV__ENSG00000101384|ENST00000254958|JAG1 REV__ENSG00000101384|ENST00000254958|JAG1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 303.694064 1210.74715 2.5901 0.0007866 -0.95085 -0.00028877 1.6393 0.00049783 303.6936989379393 31.937 0.55278 32.191 31.854 32.406 0.25452 0.15519 -9.3138E-05 NaN 1.2148 106 40 4 NaN NaN NaN NaN 0 NaN NaN 0 1998900 + 2470 10891 1873 1877 0.15020643524303523 CLLGRAAQ 8 Unmodified _CLLGRAAQ_ 0 0 0 nc|ENSG00000077942|P23142-2|FBLN1;nc|ENSG00000077942|P23142-3|FBLN1;nc|ENSG00000077942|P23142-4|FBLN1;ENSG00000077942|ENST00000327858|FBLN1;CON__ENSEMBL:ENSBTAP00000016046 nc|ENSG00000077942|P23142-2|FBLN1 nc|ENSG00000077942|P23142-2|FBLN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 416.22900390625 2 416.228905 830.443257 NaN NaN NaN NaN NaN NaN NaN 56.793 1 57.57 57.07 58.07 0.77786 0 0 0 0.99035 1 25977 25977 4.756 1.8668 1 + 2471 208 1874 1878 2638 2638 0.021253065396763304 CLLGRAAQ 8 Unmodified _CLLGRAAQ_ 0 0 0 nc|ENSG00000077942|P23142-2|FBLN1;nc|ENSG00000077942|P23142-3|FBLN1;nc|ENSG00000077942|P23142-4|FBLN1;ENSG00000077942|ENST00000327858|FBLN1;CON__ENSEMBL:ENSBTAP00000016046 nc|ENSG00000077942|P23142-2|FBLN1 nc|ENSG00000077942|P23142-2|FBLN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 416.2296447753906 2 416.228905 830.443257 NaN NaN NaN NaN NaN NaN NaN 67.622 1 67.872 67.372 68.372 0.2501 0 0 0 0.99035 1 30976 30976 4.756 0.42677 1 + 2472 208 1874 1878 2639 2639 0.021253065396763304 CLLGRAAQ 8 Unmodified _CLLGRAAQ_ 0 0 0 nc|ENSG00000077942|P23142-2|FBLN1;nc|ENSG00000077942|P23142-3|FBLN1;nc|ENSG00000077942|P23142-4|FBLN1;ENSG00000077942|ENST00000327858|FBLN1;CON__ENSEMBL:ENSBTAP00000016046 nc|ENSG00000077942|P23142-2|FBLN1 nc|ENSG00000077942|P23142-2|FBLN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 416.22979736328125 2 416.228905 830.443257 NaN NaN NaN NaN NaN NaN NaN 67.737 1 67.989 67.489 68.489 0.25227 0 0 0 0.95658 1 31029 31029 8.5933 3.3626 1 + 2473 208 1874 1878 2640 2640 0.021253065396763304 CLLPILFITRK 11 Unmodified _CLLPILFITRK_ 0 0 0 ENST00000609104.5_1_10:11531199-11535127:-|nuORF ENST00000609104.5_1_10:11531199-11535127:-|nuORF ENST00000609104.5_1_10:11531199-11535127:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 439.6092224121094 3 439.608943 1315.805 NaN NaN NaN NaN NaN NaN NaN 104.71 1 105.31 104.81 105.81 0.59885 0 0 0 1.0079 1 48370 48370 0.50596 0 1 2474 9348 1875 1879 2641 2641 0.15972905449689279 CLMGAFFYLI 10 Unmodified _CLMGAFFYLI_ 0 0 0 nc|ENSG00000120925|Q96K19-4|RNF170;nc|ENSG00000120925|Q96K19-6|RNF170;ENSG00000120925|ENST00000527424|RNF170 nc|ENSG00000120925|Q96K19-4|RNF170 nc|ENSG00000120925|Q96K19-4|RNF170 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.7957153320312 2 589.292856 1176.57116 3.0758 0.0018125 0.050106 2.9527E-05 3.1259 0.0018421 589.2929721669099 71.164 0.26031 71.826 71.69 71.95 0.66209 30 18 2 0 0 0 0.58083 2 32613 32580;32613 18.135 0 1 473160 2475 2219 1876 1880 2642;2643 2643 -0.010063139812928057 CLNTMFRQL 9 Unmodified _CLNTMFRQL_ 0 0 0 REV__ENSG00000172487|ENST00000533152|OR8J1 REV__ENSG00000172487|ENST00000533152|OR8J1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.28369140625 2 563.280812 1124.54707 4.4054 0.0024815 0.88028 0.00049584 5.2857 0.0029773 563.2812667871583 102.45 0.17632 102.76 102.66 102.84 0.31737 9 5 2 0 0 0 1.2126 1 47393 47393 0.52476 0 1 850210 + 2476 13550 1877 1881 2644 2644 -0.01022154414954457 CLRRLVPPGLW 11 Unmodified _CLRRLVPPGLW_ 0 0 0 nc|ENSG00000164362|O14746-4|TERT;nc|ENSG00000164362|O14746-2|TERT;nc|ENSG00000164362|O14746-3|TERT;ENSG00000164362|ENST00000310581|TERT nc|ENSG00000164362|O14746-4|TERT nc|ENSG00000164362|O14746-4|TERT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.25860595703125 3 437.256904 1308.74888 3.5065 0.0015332 0.86187 0.00037686 4.3683 0.0019101 437.25716686113356 93.875 1.2314 94.13 93.353 94.585 0.25497 162 59 4 0 0 0 0.91328 3 43081 43081;43131;43184 0.50596 0 1 1485300 2477 4310 1878 1882 2645;2646;2647 2645 0.10685697332928612 CLRRLVPPGLW 11 Unmodified _CLRRLVPPGLW_ 0 0 0 nc|ENSG00000164362|O14746-4|TERT;nc|ENSG00000164362|O14746-2|TERT;nc|ENSG00000164362|O14746-3|TERT;ENSG00000164362|ENST00000310581|TERT nc|ENSG00000164362|O14746-4|TERT nc|ENSG00000164362|O14746-4|TERT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.25823974609375 3 437.256904 1308.74888 3.2624 0.0014265 0.68039 0.00029751 3.9428 0.001724 437.2570799771275 93.412 1.3315 94.044 93.329 94.66 0.63115 139 66 3 0 0 0 0.91328 3 42877 42877;43022;43083 0.50596 0.34663 1 1386600 2478 4310 1878 1882 2648;2649;2650 2648 0.10685697332928612 CLRRLVPPGLW 11 Unmodified _CLRRLVPPGLW_ 0 0 0 nc|ENSG00000164362|O14746-4|TERT;nc|ENSG00000164362|O14746-2|TERT;nc|ENSG00000164362|O14746-3|TERT;ENSG00000164362|ENST00000310581|TERT nc|ENSG00000164362|O14746-4|TERT nc|ENSG00000164362|O14746-4|TERT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 655.3856811523438 2 655.381717 1308.74888 4.1369 0.0027112 1.0999 0.00072085 5.2368 0.0034321 655.3822080800838 94.125 0.94016 94.757 94.462 95.402 0.63115 123 54 4 0 0 0 0.91328 3 43173 43173;43217;43433 0.35063 0 1 1593500 2479 4310 1878 1882 2651;2652;2653 2651 0.10685697332928612 CLVAIICP 8 Unmodified _CLVAIICP_ 0 0 0 REV__nc|ENSG00000080839|P28749-2|RBL1 REV__nc|ENSG00000080839|P28749-2|RBL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 416.2283630371094 2 416.226985 830.439417 NaN NaN NaN NaN NaN NaN NaN 64.113 1 64.361 63.861 64.861 0.24803 0 0 0 0.99035 1 29364 29364 2.8892 0 1 + 2480 10602 1879 1883 2654 2654 0.017415007216186495 CLVCCGTYPQ 10 Unmodified _CLVCCGTYPQ_ 0 0 0 REV__ENST00000369976.5_1_1:109493016-109505032:-|nuORF REV__ENST00000369976.5_1_1:109493016-109505032:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1086.7801513671875 1 1086.44168 1085.43441 3.3231 0.0036104 0.40776 0.00044301 3.7309 0.0040534 1087.4440073110927 13.544 0.18119 13.787 13.708 13.889 0.24346 25 18 2 0 0 0 0.12676 1 5886 5886 3.2813 0.70383 1 1103100 + 2481 15714 1880 1884 2655 2655 -0.1048917120333499 CMECHGTGP 9 Unmodified _CMECHGTGP_ 0 0 0 REV__ENST00000573519.5_1_17:79526287-79532556:-|nuORF REV__ENST00000573519.5_1_17:79526287-79532556:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.37640380859375 2 467.664423 933.314293 NaN NaN NaN NaN NaN NaN NaN 70.972 1 70.972 70.472 71.472 0 0 0 0 0.91238 1 34482 34482 0.52476 0 1 + 2482 13891 1881 1885 2656 2656 -0.15503159477077588 CMEEDDCDESD 11 Unmodified _CMEEDDCDESD_ 0 0 0 REV__nc|ENSG00000186462|Q9ULW6-2|NAP1L2 REV__nc|ENSG00000186462|Q9ULW6-2|NAP1L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.588623046875 2 645.675776 1289.337 NaN NaN NaN NaN NaN NaN NaN 86.411 1 86.441 85.941 86.941 0.030289 0 0 0 1.0082 1 43477 43477 0 0 1 + 2483 14056 1882 1886 2657 2657 -0.2960969445143746 CMELPEELLQL 11 Unmodified _CMELPEELLQL_ 0 0 0 nc|ENSG00000178997|Q8NHP7-2|EXD1;nc|ENSG00000178997|Q8NHP7|EXD1;ENSG00000178997|ENST00000458580|EXD1 nc|ENSG00000178997|Q8NHP7-2|EXD1 nc|ENSG00000178997|Q8NHP7-2|EXD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 659.3190307617188 2 659.325082 1316.63561 3.8965 0.002569 -3.3468 -0.0022066 0.54966 0.00036241 659.8258804189504 28.483 0.091333 29.102 29.026 29.117 0.61947 6 4 2 0 0 0 0.89309 1 13049 13049 2.7352 0.23671 1 136890 2484 9764 1883 1887 2658 2658 -0.010042036857839776 CMHNDDCDC 9 Unmodified _CMHNDDCDC_ 0 0 0 REV__ENSG00000175065|ENST00000308128|DSG4 REV__ENSG00000175065|ENST00000308128|DSG4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.914794921875 2 528.137912 1054.26127 NaN NaN NaN NaN NaN NaN NaN 68.148 1 68.85 68.35 69.35 0.70218 0 0 0 0.91452 1 32479 32479 0 0 1 + 2485 13657 1884 1888 2659 2659 -0.2636890532205598 CMHNDDCDC 9 Unmodified _CMHNDDCDC_ 0 0 0 REV__ENSG00000175065|ENST00000308128|DSG4 REV__ENSG00000175065|ENST00000308128|DSG4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.1373291015625 2 528.137912 1054.26127 NaN NaN NaN NaN NaN NaN NaN 17.538 1 17.84 17.34 18.34 0.30158 0 0 0 0.91452 1 7943 7943 0 0 1 + 2486 13657 1884 1888 2660 2660 -0.2636890532205598 CMWWERWMKHW 11 Unmodified _CMWWERWMKHW_ 0 0 0 ENST00000301180.9_1_12:51133363-51135252:+|nuORF ENST00000301180.9_1_12:51133363-51135252:+|nuORF ENST00000301180.9_1_12:51133363-51135252:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 839.8645629882812 2 839.865051 1677.71555 NaN NaN NaN NaN NaN NaN NaN 92.292 1 92.375 91.875 92.875 0.082848 0 0 0 1.0082 1 48055 48055 0 0 1 2487 6800 1885 1889 2661 2661 -0.09619995772959555 CMWWERWMKHW 11 Unmodified _CMWWERWMKHW_ 0 0 0 ENST00000301180.9_1_12:51133363-51135252:+|nuORF ENST00000301180.9_1_12:51133363-51135252:+|nuORF ENST00000301180.9_1_12:51133363-51135252:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 839.8629760742188 2 839.865051 1677.71555 NaN NaN NaN NaN NaN NaN NaN 96.159 1 96.766 96.266 97.266 0.60769 0 0 0 1.0082 1 44215 44215 0 0 1 2488 6800 1885 1889 2662 2662 -0.09619995772959555 CNCECHWTPCC 11 Unmodified _CNCECHWTPCC_ 0 0 0 REV__ENSG00000165899|ENST00000547103|OTOGL REV__ENSG00000165899|ENST00000547103|OTOGL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 649.6975708007812 2 649.697614 1297.38067 NaN NaN NaN NaN NaN NaN NaN 83.012 1 83.672 83.172 84.172 0.66019 0 0 0 1.0082 1 38239 38239 0 0 1 + 2489 13196 1886 1890 2663 2663 -0.2561203496895814 CNCPSCGDPD 10 Unmodified _CNCPSCGDPD_ 0 0 0 REV__ENSG00000042781|ENST00000307340|USH2A REV__ENSG00000042781|ENST00000307340|USH2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.6545715332031 2 505.654252 1009.29395 NaN NaN NaN NaN NaN NaN NaN 54.975 1 55.241 54.741 55.741 0.26543 0 0 0 1.0015 1 25131 25131 0.40072 0.40072 1 + 2490 10324 1887 1891 2664 2664 -0.210323749275517 CNDDSDSEGP 10 Unmodified _CNDDSDSEGP_ 0 0 0 REV__NPHP3|p.F560Lfs*14|1|0.14|ENSG00000113971|chr3:132700397-132700397|A/-|frameshift_variant REV__NPHP3|p.F560Lfs*14|1|0.14|ENSG00000113971|chr3:132700397-132700397|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.931640625 2 519.669468 1037.32438 NaN NaN NaN NaN NaN NaN NaN 90.462 1 90.537 90.037 91.037 0.075279 0 0 0 1.0001 1 46622 46622 1.6526 1.0511 1 + 2491 11312 1888 1892 2665 2665 -0.19278601737141798 CNKISADDY 9 Unmodified _CNKISADDY_ 0 0 0 UBOX5|p.G23D|1|0.19|ENSG00000185019|chr20:3122571-3122571|C/T|missense_variant UBOX5|p.G23D|1|0.19|ENSG00000185019|chr20:3122571-3122571|C/T|missense_variant UBOX5|p.G23D|1|0.19|ENSG00000185019|chr20:3122571-3122571|C/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 343.3504333496094 3 343.483297 1027.42806 NaN NaN NaN NaN NaN NaN NaN 74.06 1 74.06 73.56 74.56 0 0 0 0 0.90699 1 36143 36143 0.96228 0 1 2492 18283 1889 1893 2666 2666 -0.08455649838833779 CNKLKLVPL 9 Unmodified _CNKLKLVPL_ 0 0 0 L1PA13_dup182|chr1:100740017-100740366:-|4.190239242774861|0.1848678404512023|4.5|540.0|5|1|sense L1PA13_dup182|chr1:100740017-100740366:-|4.190239242774861|0.1848678404512023|4.5|540.0|5|1|sense L1PA13_dup182|chr1:100740017-100740366:-|4.190239242774861|0.1848678404512023|4.5|540.0|5|1|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 343.19891357421875 3 343.215934 1026.62597 2.3509 0.00080686 0.034616 1.1881E-05 2.3855 0.00081874 343.2158576944752 39.32 0.26892 40.117 39.944 40.213 0.79762 17 12 2 0 0 0 0.11115 1 17797 17797 2.2828 1.3205 1 217020 2493 9462 1890 1894 2667 2667 0.11372440881609691 CNKLKLVPL 9 Unmodified _CNKLKLVPL_ 0 0 0 L1PA13_dup182|chr1:100740017-100740366:-|4.190239242774861|0.1848678404512023|4.5|540.0|5|1|sense L1PA13_dup182|chr1:100740017-100740366:-|4.190239242774861|0.1848678404512023|4.5|540.0|5|1|sense L1PA13_dup182|chr1:100740017-100740366:-|4.190239242774861|0.1848678404512023|4.5|540.0|5|1|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 343.215934 1026.62597 2.4509 0.00084119 -0.31662 -0.00010867 2.1343 0.00073253 343.2159243599496 40.325 0.17456 40.325 40.225 40.4 0 0.10049 2.9343E-05 NaN 2.2828 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 469400 2494 9462 1890 1894 0.11372440881609691 CNKLKLVPL 9 Unmodified _CNKLKLVPL_ 0 0 0 L1PA13_dup182|chr1:100740017-100740366:-|4.190239242774861|0.1848678404512023|4.5|540.0|5|1|sense L1PA13_dup182|chr1:100740017-100740366:-|4.190239242774861|0.1848678404512023|4.5|540.0|5|1|sense L1PA13_dup182|chr1:100740017-100740366:-|4.190239242774861|0.1848678404512023|4.5|540.0|5|1|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 343.215934 1026.62597 2.5674 0.00088118 -1.0965 -0.00037635 1.4709 0.00050482 343.21553228963313 39.964 0.25804 40.231 40.037 40.295 0.26696 0.0065828 -0.00077371 NaN 2.2828 11 8 2 NaN NaN NaN NaN 0 NaN NaN 0 842560 2495 9462 1890 1894 0.11372440881609691 CNKRSCPVDGC 11 Unmodified _CNKRSCPVDGC_ 0 0 0 ENSG00000186340|ENST00000617924|THBS2 ENSG00000186340|ENST00000617924|THBS2 ENSG00000186340|ENST00000617924|THBS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.50140380859375 3 394.500187 1180.47873 NaN NaN NaN NaN NaN NaN NaN 69.712 1 69.967 69.467 70.467 0.25443 0 0 0 1.0073 1 31923 31923 0.40827 0 1 2496 5565 1891 1895 2668 2668 -0.10428767057123878 CNLLTTFVLH 10 Unmodified _CNLLTTFVLH_ 0 0 0 REV__ENST00000494346.1_1_2:198436734-198482697:-|nuORF REV__ENST00000494346.1_1_2:198436734-198482697:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.2262878417969 3 387.542598 1159.60597 3.0302 0.0011743 0.45576 0.00017663 3.486 0.001351 387.5425883214592 37.388 0.44242 37.649 37.447 37.889 0.26083 16 13 2 0 0 0 0.12676 1 17107 17107 2.086 0 1 255110 + 2497 16825 1892 1896 2669 2669 0.03254645151037039 CNLLTTFVLH 10 Unmodified _CNLLTTFVLH_ 0 0 0 REV__ENST00000494346.1_1_2:198436734-198482697:-|nuORF REV__ENST00000494346.1_1_2:198436734-198482697:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 387.542598 1159.60597 2.8659 0.0011107 0.64812 0.00025117 3.514 0.0013618 387.54286217015573 36.784 0.45708 37.414 37.167 37.625 0.62999 0.010006 0.00021937 NaN 2.086 31 19 2 NaN NaN NaN NaN 0 NaN NaN 0 144090 + 2498 16825 1892 1896 0.03254645151037039 CNWESCSWS 9 Unmodified _CNWESCSWS_ 0 0 0 ENSG00000171872|ENST00000372299|KLF17 ENSG00000171872|ENST00000372299|KLF17 ENSG00000171872|ENST00000372299|KLF17 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 551.1932983398438 2 551.191859 1100.36917 NaN NaN NaN NaN NaN NaN NaN 64.87 1 65.118 64.618 65.618 0.24803 0 0 0 0.90699 1 29720 29720 1.8442 0.36234 1 2499 4840 1893 1897 2670 2670 -0.17700449404833307 CNWESCSWS 9 Unmodified _CNWESCSWS_ 0 0 0 ENSG00000171872|ENST00000372299|KLF17 ENSG00000171872|ENST00000372299|KLF17 ENSG00000171872|ENST00000372299|KLF17 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.7311401367188 2 551.191859 1100.36917 NaN NaN NaN NaN NaN NaN NaN 77.092 1 77.348 76.848 77.848 0.25533 0 0 0 0.90699 1 35501 35501 1.8442 0.19162 1 2500 4840 1893 1897 2671 2671 -0.17700449404833307 CPAVRLITL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PAVRLITL_ C(1)PAVRLITL C(93)PAVRLITL 0 1 0 ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.8094482421875 2 521.807519 1041.60049 3.177 0.0016578 0.10063 5.2507E-05 3.2777 0.0017103 521.8074862663426 63.639 0.33322 63.887 63.736 64.069 0.24803 40 18 3 0 0 0 0.004576 1 29183 29183 92.653 44.307 1 2114700 2501 5518 1894 1898 2672 2672 89 0.08134966359216378 CPAVRLITL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PAVRLITL_ 0 1 0 ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 521.807519 1041.60049 3.2287 0.0016848 -0.097151 -5.0694E-05 3.1316 0.0016341 521.8076515271129 63.015 0.33151 63.674 63.542 63.874 0.65808 -0.10678 -7.3834E-05 NaN 92.653 36 17 3 NaN NaN NaN NaN 0 NaN NaN 0 2151300 2502 5518 1894 1898 89 0.08134966359216378 CPCCPAHCCC 10 Unmodified _CPCCPAHCCC_ 0 0 0 nc|ENSG00000145103|Q86SU0-2|ILDR1;nc|ENSG00000145103|Q86SU0-6|ILDR1;ENSG00000145103|ENST00000344209|ILDR1;nc|ENSG00000145103|Q86SU0-3|ILDR1;ENST00000460554.1_1_3:121712781-121740924:-|nuORF nc|ENSG00000145103|Q86SU0-2|ILDR1 nc|ENSG00000145103|Q86SU0-2|ILDR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 519.820556640625 2 520.140889 1038.26722 NaN NaN NaN NaN NaN NaN NaN 41.285 1 41.93 41.43 42.43 0.64451 0 0 0 1.002 1 18885 18885 0 0 1 2503 3456 1895 1899 2673 2673 -0.25037801615758326 CPCCPDSCCC 10 Unmodified _CPCCPDSCCC_ 0 0 0 ENSG00000143195|ENST00000271417|ILDR2 ENSG00000143195|ENST00000271417|ILDR2 ENSG00000143195|ENST00000271417|ILDR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.1221923828125 2 517.122362 1032.23017 NaN NaN NaN NaN NaN NaN NaN 12.403 1 12.403 11.903 12.903 0 0 0 0 1.002 1 5378 5378 0 0 1 2504 3351 1896 1900 2674 2674 -0.2846551795216783 CPCHIEASHL 10 Unmodified _CPCHIEASHL_ 0 0 0 REV__ENST00000514040.1_1_5:94044304-94046557:-|nuORF REV__ENST00000514040.1_1_5:94044304-94046557:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.2486572265625 2 555.246969 1108.47938 NaN NaN NaN NaN NaN NaN NaN 54.919 1 55.585 55.085 56.085 0.6665 0 0 0 0.96627 1 25131 25131 10.824 0 1 + 2505 17000 1897 1901 2675 2675 -0.07051604345770102 CPDEVYQLM 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PDEVYQLM_ C(1)PDEVYQLM C(64)PDEVYQLM 0 1 0 ENSG00000162434|ENST00000342505|JAK1 ENSG00000162434|ENST00000342505|JAK1 ENSG00000162434|ENST00000342505|JAK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.7484130859375 2 577.746467 1153.47838 2.7716 0.0016013 -0.4217 -0.00024364 2.3499 0.0013577 577.7467507262589 65.504 0.29197 66.213 66.117 66.409 0.70891 70 30 3 0 0 0 0.023109 1 31002 31002 64.236 47.294 1 6033100 2506 4139 1898 1902 2676 2676 74 -0.09221863505331385 CPDEVYQLM 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PDEVYQLM_ C(1)PDEVYQLM C(89)PDEVYQLM 0 1 0 ENSG00000162434|ENST00000342505|JAK1 ENSG00000162434|ENST00000342505|JAK1 ENSG00000162434|ENST00000342505|JAK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.7489013671875 2 577.746467 1153.47838 3.5005 0.0020224 0.21558 0.00012455 3.7161 0.002147 577.7466802222278 66.224 0.33834 66.472 66.312 66.65 0.24848 49 19 3 0 0 0 0.0063783 2 30362 30318;30362 88.904 62.02 1 2940600 2507 4139 1898 1902 2677;2678 2678 74 -0.09221863505331385 CPDEVYQLM 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PDEVYQLM_ C(1)PDEVYQLM C(71)PDEVYQLM 0 1 0 ENSG00000162434|ENST00000342505|JAK1 ENSG00000162434|ENST00000342505|JAK1 ENSG00000162434|ENST00000342505|JAK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.7490234375 2 577.746467 1153.47838 3.7762 0.0021817 -0.43126 -0.00024916 3.345 0.0019325 577.7463277289188 65.66 0.32941 66.317 66.164 66.494 0.65672 46 18 3 0 0 0 0.017868 2 30113 30063;30113 71.134 51.877 1 2492900 2508 4139 1898 1902 2679;2680 2680 74 -0.09221863505331385 CPDPSSRSL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PDPSSRSL_ C(1)PDPSSRSL C(77)PDPSSRSL 0 1 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1;ENST00000467423.1_1_1:19566287-19566919:-|nuORF nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.7359313964844 2 509.734748 1017.45494 3.2271 0.001645 -0.28553 -0.00014555 2.9416 0.0014994 509.7346382754778 19.681 0.42484 19.681 19.545 19.97 0 69 37 2 0 0 0 0.013715 2 8799 8753;8799 76.825 38.674 1 1996100 2509 2480 1899 1903 2681;2682 2682 56 -0.05308541227623209 CPDPSSRSL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PDPSSRSL_ C(1)PDPSSRSL C(42)PDPSSRSL 0 1 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1;ENST00000467423.1_1_1:19566287-19566919:-|nuORF nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.73602294921875 2 509.734748 1017.45494 3.1448 0.001603 -0.066778 -3.4039E-05 3.078 0.001569 509.7347093507298 19.271 0.45136 19.568 19.467 19.919 0.29753 77 44 2 0 0 0 0.063112 1 8790 8790 41.956 7.5538 1 989150 2510 2480 1899 1903 2683 2683 56 -0.05308541227623209 CPDPSSRSL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PDPSSRSL_ C(1)PDPSSRSL C(42)PDPSSRSL 0 1 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1;ENST00000467423.1_1_1:19566287-19566919:-|nuORF nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.73651123046875 2 509.734748 1017.45494 3.4483 0.0017577 -0.21782 -0.00011103 3.2305 0.0016467 509.734658579657 18.889 0.52988 19.549 19.39 19.92 0.66072 90 42 3 0 0 0 0.063112 1 8582 8582 41.956 11.319 1 796100 2511 2480 1899 1903 2684 2684 56 -0.05308541227623209 CPEGYYAD 8 Unmodified _CPEGYYAD_ 0 0 0 ENSG00000099139|ENST00000674117|PCSK5;nc|ENSG00000099139|Q92824|PCSK5 ENSG00000099139|ENST00000674117|PCSK5 ENSG00000099139|ENST00000674117|PCSK5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 458.8585205078125 2 459.170918 916.327284 NaN NaN NaN NaN NaN NaN NaN 74.453 1 75.14 74.64 75.64 0.68662 0 0 0 0.99035 1 35986 35986 2.5775 1.7838 1 2512 1134 1900 1904 2685 2685 -0.13422681821703009 CPELREPLL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PELREPLL_ C(1)PELREPLL C(46)PELREPLL 0 1 0 ENSG00000125755|ENST00000245934|SYMPK;ENST00000598364.1_1_19:46318820-46320367:-|nuORF;ENST00000598155.5_1_19:46318820-46327397:-|nuORF ENSG00000125755|ENST00000245934|SYMPK ENSG00000125755|ENST00000245934|SYMPK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.8011474609375 2 563.799891 1125.58523 NaN NaN NaN NaN NaN NaN NaN 54.023 1 54.818 54.318 55.318 0.79552 0 0 0 0.078346 1 24650 24650 45.74 19.472 1 2513 2420 1901 1905 2686 2686 54 0.027460547713417327 CPESCCEPCCC 11 Unmodified _CPESCCEPCCC_ 0 0 0 ENSG00000221859|ENST00000380095|KRTAP10-10 ENSG00000221859|ENST00000380095|KRTAP10-10 ENSG00000221859|ENST00000380095|KRTAP10-10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 392.77166748046875 3 392.770081 1175.28841 NaN NaN NaN NaN NaN NaN NaN 21.744 1 21.744 21.244 22.244 0 0 0 0 1.0082 1 9741 9741 0 0 1 2514 6149 1902 1906 2687 2687 -0.29221881097532787 CPESCCEPCCC 11 Unmodified _CPESCCEPCCC_ 0 0 0 ENSG00000221859|ENST00000380095|KRTAP10-10 ENSG00000221859|ENST00000380095|KRTAP10-10 ENSG00000221859|ENST00000380095|KRTAP10-10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 392.771240234375 3 392.770081 1175.28841 NaN NaN NaN NaN NaN NaN NaN 21.798 1 21.798 21.298 22.298 0 0 0 0 1.0082 1 9765 9765 0 0 1 2515 6149 1902 1906 2688 2688 -0.29221881097532787 CPIKEDSFL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PIKEDSFL_ C(1)PIKEDSFL C(86)PIKEDSFL 0 1 0 ENSG00000146648|ENST00000275493|EGFR ENSG00000146648|ENST00000275493|EGFR ENSG00000146648|ENST00000275493|EGFR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.2630615234375 2 554.7708 1107.52705 3.511 0.0019478 -2.0117 -0.0011161 1.4992 0.00083173 555.2699528764805 49.383 0.25169 49.383 49.275 49.526 0 15 10 2 0 0 0 0.0079462 1 22619 22619 85.642 33.307 1 835640 2516 3526 1903 1907 2689 2689 66 -0.022416268739334555 CPIKEDSFL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PIKEDSFL_ C(1)PIKEDSFL C(70)PIKEDSFL 0 1 0 ENSG00000146648|ENST00000275493|EGFR ENSG00000146648|ENST00000275493|EGFR ENSG00000146648|ENST00000275493|EGFR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.7719116210938 2 554.7708 1107.52705 3.2736 0.0018161 -1.3671 -0.00075845 1.9065 0.0010577 554.7702198514485 48.344 0.23438 49.172 49.025 49.259 0.82705 19 10 2 0 0 0 0.018453 1 22020 22020 70.332 37.878 1 655120 2517 3526 1903 1907 2690 2690 66 -0.022416268739334555 CPIKEDSFL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PIKEDSFL_ C(1)PIKEDSFL C(86)PIKEDSFL 0 1 0 ENSG00000146648|ENST00000275493|EGFR ENSG00000146648|ENST00000275493|EGFR ENSG00000146648|ENST00000275493|EGFR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.7734985351562 2 554.7708 1107.52705 3.6361 0.0020172 -0.50715 -0.00028135 3.129 0.0017359 554.7709346259105 49.246 0.24356 49.508 49.427 49.671 0.26146 19 8 3 0 0 0 0.0076144 1 22521 22521 86.332 44.515 1 597260 2518 3526 1903 1907 2691 2691 66 -0.022416268739334555 CPIKEDSFL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PIKEDSFL_ C(1)PIKEDSFL C(61)PIKEDSFL 0 1 0 ENSG00000146648|ENST00000275493|EGFR ENSG00000146648|ENST00000275493|EGFR ENSG00000146648|ENST00000275493|EGFR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.2732543945312 2 554.7708 1107.52705 3.6465 0.002023 -0.65494 -0.00036334 2.9916 0.0016596 554.7707288012023 48.773 0.26424 49.428 49.31 49.574 0.65525 17 9 2 0 0 0 0.025323 1 22317 22317 61.357 21.4 1 608360 2519 3526 1903 1907 2692 2692 66 -0.022416268739334555 CPLLKPWAL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PLLKPWAL_ C(1)PLLKPWAL C(120)PLLKPWAL 0 1 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.3142700195312 2 549.312438 1096.61032 3.3082 0.0018172 -0.78009 -0.00042852 2.5281 0.0013887 549.3119167481264 71.82 0.27345 72.078 71.976 72.25 0.25786 79 26 4 0 0 0 0.0012644 2 32989 32934;32989 123.1 123.1 1 8080800 2520 3661 1904 1908 2693;2694 2694 67 0.06588154364567345 CPLLKPWAL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PLLKPWAL_ C(1)PLLKPWAL C(120)PLLKPWAL 0 1 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.3145751953125 2 549.312438 1096.61032 2.9235 0.0016059 -0.04521 -2.4834E-05 2.8783 0.0015811 549.3124738902153 71.379 0.39243 72.042 71.824 72.217 0.66324 85 28 4 0 0 0 0.0012644 3 32670 32670;32712;32763 123.1 123.1 1 8126000 2521 3661 1904 1908 2695;2696;2697 2695 67 0.06588154364567345 CPLLKPWAL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PLLKPWAL_ 0 1 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 549.312438 1096.61032 3.0149 0.0016561 -1.2257 -0.0006733 1.7892 0.00098284 549.3123047716368 72.204 0.19122 72.204 72.059 72.251 0 0.14369 -0.0009355 NaN 123.1 29 17 2 NaN NaN NaN NaN 0 NaN NaN 0 1797100 2522 3661 1904 1908 67 0.06588154364567345 CPLLKPWAL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PLLKPWAL_ 0 1 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 549.312438 1096.61032 2.6938 0.0014797 0.012729 6.9925E-06 2.7065 0.0014867 549.3122732251435 71.212 0.1846 71.916 71.833 72.017 0.70386 -0.14417 0.00042509 NaN 123.1 32 20 2 NaN NaN NaN NaN 0 NaN NaN 0 1616300 2523 3661 1904 1908 67 0.06588154364567345 CPSLVPLIL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PSLVPLIL_ C(1)PSLVPLIL C(60)PSLVPLIL 0 1 0 ENST00000456754.6_1_X:47444724-47445414:+|nuORF ENST00000456754.6_1_X:47444724-47445414:+|nuORF ENST00000456754.6_1_X:47444724-47445414:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.2998962402344 2 506.298996 1010.58344 3.2856 0.0016635 -0.02933 -1.485E-05 3.2563 0.0016487 506.2990532539919 84.809 0.40488 85.056 84.855 85.26 0.24757 51 20 3 0 0 0 0.026068 1 38997 38997 60.39 6.814 1 2719700 2524 8051 1905 1909 2698 2698 104 0.078570457534056 CPTENEPDL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PTENEPDL_ C(1)PTENEPDL C(65)PTENEPDL 0 1 0 nc|ENSG00000089685|O15392-7|BIRC5;nc|ENSG00000089685|O15392-6|BIRC5;nc|ENSG00000089685|O15392-5|BIRC5;nc|ENSG00000089685|O15392-4|BIRC5;nc|ENSG00000089685|O15392-3|BIRC5;nc|ENSG00000089685|O15392|BIRC5;ENSG00000089685|ENST00000350051|BIRC5;nc|ENSG00000089685|O15392-2|BIRC5 nc|ENSG00000089685|O15392-7|BIRC5 nc|ENSG00000089685|O15392-7|BIRC5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.7265625 2 537.724046 1073.43354 NaN NaN NaN NaN NaN NaN NaN 34.668 1 34.668 34.168 35.168 0 0 0 0 0.024684 1 15717 15717 65.235 32.93 1 2525 1047 1906 1910 2699 2699 21 -0.100239710470305 CPTENEPDL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PTENEPDL_ C(1)PTENEPDL C(56)PTENEPDL 0 1 0 nc|ENSG00000089685|O15392-7|BIRC5;nc|ENSG00000089685|O15392-6|BIRC5;nc|ENSG00000089685|O15392-5|BIRC5;nc|ENSG00000089685|O15392-4|BIRC5;nc|ENSG00000089685|O15392-3|BIRC5;nc|ENSG00000089685|O15392|BIRC5;ENSG00000089685|ENST00000350051|BIRC5;nc|ENSG00000089685|O15392-2|BIRC5 nc|ENSG00000089685|O15392-7|BIRC5 nc|ENSG00000089685|O15392-7|BIRC5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.7263793945312 2 537.724046 1073.43354 NaN NaN NaN NaN NaN NaN NaN 33.894 1 34.682 34.182 35.182 0.78795 0 0 0 0.041263 1 15346 15346 56.177 36.92 1 2526 1047 1906 1910 2700 2700 21 -0.100239710470305 CPTENEPDL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PTENEPDL_ C(1)PTENEPDL C(110)PTENEPDL 0 1 0 nc|ENSG00000089685|O15392-7|BIRC5;nc|ENSG00000089685|O15392-6|BIRC5;nc|ENSG00000089685|O15392-5|BIRC5;nc|ENSG00000089685|O15392-4|BIRC5;nc|ENSG00000089685|O15392-3|BIRC5;nc|ENSG00000089685|O15392|BIRC5;ENSG00000089685|ENST00000350051|BIRC5;nc|ENSG00000089685|O15392-2|BIRC5 nc|ENSG00000089685|O15392-7|BIRC5 nc|ENSG00000089685|O15392-7|BIRC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.7251586914062 2 537.724046 1073.43354 3.045 0.0016374 -0.14854 -7.9875E-05 2.8965 0.0015575 537.7237726639305 34.659 0.43446 34.913 34.55 34.984 0.25389 27 18 2 0 0 0 0.0016284 2 15705 15705;15769 108 68.04 1 627430 2527 1047 1906 1910 2701;2702 2701 21 -0.100239710470305 CPTENEPDL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))PTENEPDL_ C(1)PTENEPDL C(56)PTENEPDL 0 1 0 nc|ENSG00000089685|O15392-7|BIRC5;nc|ENSG00000089685|O15392-6|BIRC5;nc|ENSG00000089685|O15392-5|BIRC5;nc|ENSG00000089685|O15392-4|BIRC5;nc|ENSG00000089685|O15392-3|BIRC5;nc|ENSG00000089685|O15392|BIRC5;ENSG00000089685|ENST00000350051|BIRC5;nc|ENSG00000089685|O15392-2|BIRC5 nc|ENSG00000089685|O15392-7|BIRC5 nc|ENSG00000089685|O15392-7|BIRC5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.7255859375 2 537.724046 1073.43354 NaN NaN NaN NaN NaN NaN NaN 33.958 1 34.579 34.079 35.079 0.62031 0 0 0 0.041263 1 15559 15559 56.177 30.778 1 2528 1047 1906 1910 2703 2703 21 -0.100239710470305 CQARAVPV 8 Unmodified _CQARAVPV_ 0 0 0 ENSG00000031081|ENST00000264245|ARHGAP31 ENSG00000031081|ENST00000264245|ARHGAP31 ENSG00000031081|ENST00000264245|ARHGAP31 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.22918701171875 2 422.228905 842.443257 NaN NaN NaN NaN NaN NaN NaN 55.559 1 55.825 55.325 56.325 0.26543 0 0 0 0.99035 1 25407 25407 5.2307 0 1 2529 495 1907 1911 2704 2704 0.015733065396716484 CQCWYDELGF 10 Unmodified _CQCWYDELGF_ 0 0 0 REV__nc|ENSG00000107731|Q8IZJ1-2|UNC5B REV__nc|ENSG00000107731|Q8IZJ1-2|UNC5B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.8347473144531 3 421.83182 1262.47363 NaN NaN NaN NaN NaN NaN NaN 4.1243 1 4.7469 4.2469 5.2469 0.62252 0 0 0 1.0015 1 1872 1872 0.13989 0.056541 1 + 2530 11121 1908 1912 2705 2705 -0.14710747648132383 CQECDCDESH 10 Unmodified _CQECDCDESH_ 0 0 0 REV__ENSG00000166930|ENST00000300190|MS4A5 REV__ENSG00000166930|ENST00000300190|MS4A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.7967529296875 2 584.670631 1167.32671 NaN NaN NaN NaN NaN NaN NaN 92.21 1 92.292 91.792 92.792 0.082848 0 0 0 1.0015 1 47995 47995 0.40072 0.40072 1 + 2531 13271 1909 1913 2706 2706 -0.25026212595366815 CQGHFPGYGCL 11 Unmodified _CQGHFPGYGCL_ 0 0 0 ENST00000527372.6_2_17:27401583-27401691:-|nuORF ENST00000527372.6_2_17:27401583-27401691:-|nuORF ENST00000527372.6_2_17:27401583-27401691:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 591.2459716796875 2 591.246969 1180.47938 NaN NaN NaN NaN NaN NaN NaN 57.219 1 57.887 57.387 58.387 0.66829 0 0 0 1.0057 1 26182 26182 3.2813 0.97858 1 2532 8684 1910 1914 2707 2707 -0.1036360434575272 CRALLQAG 8 Unmodified _CRALLQAG_ 0 0 0 ENST00000489226.5_1_9:130485405-130489873:+|nuORF ENST00000489226.5_1_9:130485405-130489873:+|nuORF ENST00000489226.5_1_9:130485405-130489873:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 416.2287292480469 2 416.228905 830.443257 NaN NaN NaN NaN NaN NaN NaN 56.672 1 57.449 56.949 57.949 0.77786 0 0 0 0.99035 1 25916 25916 4.756 0 1 2533 8375 1911 1915 2708 2708 0.021253065396763304 CRARVLRQA 9 Unmodified _CRARVLRQA_ 0 0 0 REV__ENST00000309575.4_1_3:142838295-142838649:+|nuORF REV__ENST00000309575.4_1_3:142838295-142838649:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 357.8912048339844 3 358.210065 1071.60837 2.3892 0.00085584 0.96016 0.00034394 3.3494 0.0011998 358.210401257731 38.884 0.72261 39.682 39.221 39.944 0.79762 66 34 2 0 0 0 0.10127 1 17709 17709 12.241 0 1 390180 + 2534 15253 1912 1916 2709 2709 0.07542538399343357 CRARVLRQA 9 Unmodified _CRARVLRQA_ 0 0 0 REV__ENST00000309575.4_1_3:142838295-142838649:+|nuORF REV__ENST00000309575.4_1_3:142838295-142838649:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 358.210065 1071.60837 2.6398 0.00094561 1.1645 0.00041714 3.8043 0.0013628 358.21047383262953 39.909 0.60871 39.909 39.616 40.225 0 0.035889 -0.00027382 NaN 12.241 48 26 2 NaN NaN NaN NaN 0 NaN NaN 0 540790 + 2535 15253 1912 1916 0.07542538399343357 CRARVLRQA 9 Unmodified _CRARVLRQA_ 0 0 0 REV__ENST00000309575.4_1_3:142838295-142838649:+|nuORF REV__ENST00000309575.4_1_3:142838295-142838649:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 358.210065 1071.60837 2.6111 0.00093532 1.2379 0.00044343 3.849 0.0013788 358.21052778827874 39.694 0.75951 39.961 39.409 40.168 0.26696 0.087489 -0.00019494 NaN 12.241 53 27 3 NaN NaN NaN NaN 0 NaN NaN 0 502570 + 2536 15253 1912 1916 0.07542538399343357 CRARVLRQA 9 Unmodified _CRARVLRQA_ 0 0 0 REV__ENST00000309575.4_1_3:142838295-142838649:+|nuORF REV__ENST00000309575.4_1_3:142838295-142838649:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 358.210065 1071.60837 2.6082 0.00093427 2.0432 0.00073191 4.6514 0.0016662 358.21091172192837 39.303 0.45777 39.941 39.649 40.107 0.63778 0.067984 0.00067048 NaN 12.241 42 16 3 NaN NaN NaN NaN 0 NaN NaN 0 644730 + 2537 15253 1912 1916 0.07542538399343357 CRGDHECM 8 Unmodified _CRGDHECM_ 0 0 0 REV__ENSG00000108797|ENST00000264638|CNTNAP1 REV__ENSG00000108797|ENST00000264638|CNTNAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 317.44720458984375 3 317.447423 949.320441 NaN NaN NaN NaN NaN NaN NaN 61.118 1 61.781 61.281 62.281 0.66261 0 0 0 0.99035 1 27985 27985 0.40072 0 1 + 2538 11155 1913 1917 2710 2710 -0.1562464124555163 CRKGRHKKLHF 11 Unmodified _CRKGRHKKLHF_ 0 0 0 chr19:18402796-18427351|370|10.19|0.59|4.11|+|0|TE_info:LTR5B,LTR5B_dup345,ERVK,LTR,donor,+,18402468,18402796|None,SSBP4|2 chr19:18402796-18427351|370|10.19|0.59|4.11|+|0|TE_info:LTR5B,LTR5B_dup345,ERVK,LTR,donor,+,18402468,18402796|None,SSBP4|2 chr19:18402796-18427351|370|10.19|0.59|4.11|+|0|TE_info:LTR5B,LTR5B_dup345,ERVK,LTR,donor,+,18402468,18402796|None,SSBP4|2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 353.4583435058594 4 353.206933 1408.79863 2.4026 0.00084861 -0.62202 -0.0002197 1.7806 0.00062891 353.20657497382183 55.787 0.59377 55.787 55.561 56.155 0 96 43 3 0 0 0 0.88721 1 25664 25664 1.2148 0.76031 1 2292600 2539 158 1914 1918 2711 2711 0.11057825061539006 CRKQSLVSI 9 Unmodified _CRKQSLVSI_ 0 0 0 REV__ENST00000595585.1_1_19:51446889-51452204:-|nuORF REV__ENST00000595585.1_1_19:51446889-51452204:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.2965698242188 2 517.294776 1032.575 3.4406 0.0017798 0.36426 0.00018843 3.8049 0.0019682 517.2948126304697 17.814 0.17322 18.475 18.388 18.562 0.66072 33 22 2 0 0 0 0.19064 1 8046 8046 24.021 1.2843 1 514940 + 2540 13308 1915 1919 2712 2712 0.06001491836786954 CRKQSLVSI 9 Unmodified _CRKQSLVSI_ 0 0 0 REV__ENST00000595585.1_1_19:51446889-51452204:-|nuORF REV__ENST00000595585.1_1_19:51446889-51452204:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 517.294776 1032.575 3.2429 0.0016775 1.123 0.00058092 4.3659 0.0022585 517.2955641243802 17.994 0.13033 18.295 18.205 18.335 0.30159 -0.089833 0.00065718 NaN 24.021 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 174560 + 2541 13308 1915 1919 0.06001491836786954 CRKQSLVSI 9 Unmodified _CRKQSLVSI_ 0 0 0 REV__ENST00000595585.1_1_19:51446889-51452204:-|nuORF REV__ENST00000595585.1_1_19:51446889-51452204:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 517.294776 1032.575 3.4406 0.0017798 0.36426 0.00018843 3.8049 0.0019682 517.2948126304697 17.814 0.17322 18.475 18.388 18.562 0.66072 0.089833 -0.00012779 NaN 24.021 33 22 2 NaN NaN NaN NaN 0 NaN NaN 0 514940 + 2542 13308 1915 1919 0.06001491836786954 CRLQFWSWN 9 Unmodified _CRLQFWSWN_ 0 0 0 REV__nc|ENSG00000242247|Q9NP61-2|ARFGAP3 REV__nc|ENSG00000242247|Q9NP61-2|ARFGAP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 620.2936401367188 2 620.290025 1238.5655 NaN NaN NaN NaN NaN NaN NaN 55.118 1 55.383 54.883 55.883 0.26543 0 0 0 0.89983 1 25199 25199 3.5965 0.31518 1 + 2543 14618 1916 1920 2713 2713 -0.044242764487307795 CRLRLTVP 8 Unmodified _CRLRLTVP_ 0 0 0 nc|ENSG00000263155|P0CAP1-11|MYZAP;nc|ENSG00000263155|P0CAP1-8|MYZAP;nc|ENSG00000263155|P0CAP1-5|MYZAP;nc|ENSG00000263155|P0CAP1-10|MYZAP;nc|ENSG00000263155|P0CAP1-7|MYZAP;nc|ENSG00000263155|P0CAP1-6|MYZAP;nc|ENSG00000263155|P0CAP1-9|MYZAP;nc|ENSG00000263155|P0CAP1-3|MYZAP;nc|ENSG00000263155|P0CAP1-4|MYZAP;nc|ENSG00000263155|P0CAP1-2|MYZAP;ENSG00000263155|ENST00000267853|MYZAP nc|ENSG00000263155|P0CAP1-11|MYZAP nc|ENSG00000263155|P0CAP1-11|MYZAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 319.86029052734375 3 319.860262 956.558955 2.108 0.00067428 -1.3498 -0.00043176 0.7582 0.00024252 319.85962369497634 46.999 0.31017 47.651 47.589 47.899 0.65219 45 24 2 0 0 0 0.74709 1 21572 21572 1.3295 0 1 3595000 2544 9860 1917 1921 2714 2714 0.07893830390514722 CRPRRQKP 8 Unmodified _CRPRRQKP_ 0 0 0 REV__ENSG00000124177|ENST00000373233|CHD6 REV__ENSG00000124177|ENST00000373233|CHD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 347.5357360839844 3 347.53466 1039.58215 2.4777 0.00086108 0.33557 0.00011662 2.8133 0.0009777 347.5347635612104 49.115 0.48552 49.115 48.859 49.344 0 63 23 4 0 0 0 0.72814 1 22454 22454 3.5965 0.60125 1 6446100 + 2545 11638 1918 1922 2715 2715 0.06394269227871519 CRPRRQKP 8 Unmodified _CRPRRQKP_ 0 0 0 REV__ENSG00000124177|ENST00000373233|CHD6 REV__ENSG00000124177|ENST00000373233|CHD6 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 347.53466 1039.58215 2.4777 0.00086108 0.33557 0.00011662 2.8133 0.0009777 347.5347635612104 49.115 0.48552 49.115 48.859 49.344 0 0.12616 -0.00024825 NaN 3.5965 63 23 4 NaN NaN NaN NaN 0 NaN NaN 0 6446100 + 2546 11638 1918 1922 0.06394269227871519 CRPRRQKP 8 Unmodified _CRPRRQKP_ 0 0 0 REV__ENSG00000124177|ENST00000373233|CHD6 REV__ENSG00000124177|ENST00000373233|CHD6 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 347.53466 1039.58215 2.3075 0.00080195 0.70141 0.00024376 3.0089 0.0010457 347.5348347361234 48.008 0.42521 48.837 48.642 49.067 0.82915 -0.15143 0.00013318 NaN 3.5965 64 19 4 NaN NaN NaN NaN 0 NaN NaN 0 2955000 + 2547 11638 1918 1922 0.06394269227871519 CRPRRQKP 8 Unmodified _CRPRRQKP_ 0 0 0 REV__ENSG00000124177|ENST00000373233|CHD6 REV__ENSG00000124177|ENST00000373233|CHD6 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 347.53466 1039.58215 2.5349 0.00088098 0.85794 0.00029817 3.3929 0.0011791 347.5348987326548 48.262 0.46868 48.916 48.682 49.15 0.65356 -0.072311 0.00029638 NaN 3.5965 56 18 4 NaN NaN NaN NaN 0 NaN NaN 0 4075700 + 2548 11638 1918 1922 0.06394269227871519 CRRIAKLTSH 10 Unmodified _CRRIAKLTSH_ 0 0 0 ENST00000264192.7_1_2:158272056-158272122:-|nuORF ENST00000264192.7_1_2:158272056-158272122:-|nuORF ENST00000264192.7_1_2:158272056-158272122:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.5620422363281 3 395.560875 1183.66079 2.9768 0.0011775 -0.14567 -5.7622E-05 2.8311 0.0011199 395.56085871737787 65.418 0.91332 66.075 65.58 66.494 0.65672 84 54 2 0 0 0 0.90859 1 29931 29931 1.5923 1.5923 1 579110 2549 6602 1919 1923 2716 2716 0.07631076742291043 CRRIKILG 8 Unmodified _CRRIKILG_ 0 0 0 ENSG00000164742|ENST00000297323|ADCY1 ENSG00000164742|ENST00000297323|ADCY1 ENSG00000164742|ENST00000297323|ADCY1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 320.1950988769531 3 320.20414 957.59059 NaN NaN NaN NaN NaN NaN NaN 48.76 1 49.022 48.522 49.522 0.26209 0 0 0 0.99035 1 22290 22290 1.6526 0 1 2550 4341 1920 1924 2717 2717 0.11009823144490838 CRRLKKRKSLR 11 Unmodified _CRRLKKRKSLR_ 0 0 0 ENST00000446760.2_1:146412138-146412798:+|nuORF ENST00000446760.2_1:146412138-146412798:+|nuORF ENST00000446760.2_1:146412138-146412798:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 722.462158203125 2 722.461896 1442.90924 NaN NaN NaN NaN NaN NaN NaN 15.893 1 16.104 15.604 16.604 0.21108 0 0 0 1.0082 1 7016 7016 0 0 1 2551 7979 1921 1925 2718 2718 0.20550045049799337 CRRPLLLLI 9 Unmodified _CRRPLLLLI_ 0 0 0 REV__ENST00000563104.5_1_16:71841975-71842665:-|nuORF REV__ENST00000563104.5_1_16:71841975-71842665:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.2391662597656 3 366.238961 1095.69505 NaN NaN NaN NaN NaN NaN NaN 44.077 1 44.077 43.577 44.577 0 0 0 0 0.89288 1 20119 20119 5.2969 3.0141 1 + 2552 17389 1922 1926 2719 2719 0.15103524901223864 CRRQQRRRRRR 11 Unmodified _CRRQQRRRRRR_ 0 0 0 REV__ENST00000397992.5_1_16:72984846-73092758:-|nuORF REV__ENST00000397992.5_1_16:72984846-73092758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 813.9808349609375 2 813.980173 1625.94579 NaN NaN NaN NaN NaN NaN NaN 86.289 1 86.289 85.789 86.789 0 0 0 0 1.0082 1 44190 44190 0 0 1 + 2553 16021 1923 1927 2720 2720 0.1578573471904292 CRRQQRRRRRR 11 Unmodified _CRRQQRRRRRR_ 0 0 0 REV__ENST00000397992.5_1_16:72984846-73092758:-|nuORF REV__ENST00000397992.5_1_16:72984846-73092758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 814.395751953125 2 813.980173 1625.94579 NaN NaN NaN NaN NaN NaN NaN 94.493 1 94.493 93.993 94.993 0 0 0 0 1.0082 1 50701 50701 0 0 1 + 2554 16021 1923 1927 2721 2721 0.1578573471904292 CRRQQRRRRRR 11 Unmodified _CRRQQRRRRRR_ 0 0 0 REV__ENST00000397992.5_1_16:72984846-73092758:-|nuORF REV__ENST00000397992.5_1_16:72984846-73092758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 813.878173828125 2 813.980173 1625.94579 NaN NaN NaN NaN NaN NaN NaN 106.12 1 106.16 105.66 106.66 0.04837 0 0 0 1.0082 1 57415 57415 0 0 1 + 2555 16021 1923 1927 2722 2722 0.1578573471904292 CRRRIPVARRA 11 Unmodified _CRRRIPVARRA_ 0 0 0 ENST00000263056.5_1_10:30722942-30726138:+|nuORF ENST00000263056.5_1_10:30722942-30726138:+|nuORF ENST00000263056.5_1_10:30722942-30726138:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.94439697265625 3 451.942201 1352.80477 NaN NaN NaN NaN NaN NaN NaN 51.035 1 51.035 50.535 51.535 0 0 0 0 1.0074 1 23368 23368 1.1098 0.41209 1 2556 6581 1924 1928 2723 2723 0.1424834329307032 CRRRLFLFE 9 Unmodified _CRRRLFLFE_ 0 0 0 REV__ENST00000463422.5_1_2:85981774-86000028:+|nuORF REV__ENST00000463422.5_1_2:85981774-86000028:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 414.0837707519531 3 413.897487 1238.67063 NaN NaN NaN NaN NaN NaN NaN 72.961 1 73.66 73.16 74.16 0.69881 0 0 0 0.90699 1 35155 35155 0.96228 0 1 + 2557 16511 1925 1929 2724 2724 0.0608426474764201 CRRRREPV 8 Unmodified _CRRRREPV_ 0 0 0 ENST00000284878.11_1_21:18885283-18885484:+|nuORF ENST00000284878.11_1_21:18885283-18885484:+|nuORF ENST00000284878.11_1_21:18885283-18885484:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.8707580566406 3 357.869931 1070.58796 2.8482 0.0010193 0.88702 0.00031744 3.7352 0.0013367 357.87022715746326 68.066 0.3484 68.318 68.154 68.502 0.25227 63 25 3 0 0 0 0.7441 1 31149 31149 1.4819 0.51963 1 1225500 2558 6712 1926 1930 2725 2725 0.055493677395361374 CRRRREPV 8 Unmodified _CRRRREPV_ 0 0 0 ENST00000284878.11_1_21:18885283-18885484:+|nuORF ENST00000284878.11_1_21:18885283-18885484:+|nuORF ENST00000284878.11_1_21:18885283-18885484:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 357.869931 1070.58796 2.8482 0.0010193 0.88702 0.00031744 3.7352 0.0013367 357.87022715746326 68.066 0.3484 68.318 68.154 68.502 0.25227 -0.077602 -4.9985E-05 NaN 1.4819 63 25 3 NaN NaN NaN NaN 0 NaN NaN 0 1225500 2559 6712 1926 1930 0.055493677395361374 CRRRRRQI 8 Unmodified _CRRRRRQI_ 0 0 0 ENST00000273258.3_1_3:69134136-69134307:+|nuORF ENST00000273258.3_1_3:69134136-69134307:+|nuORF ENST00000273258.3_1_3:69134136-69134307:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.8977355957031 3 381.896592 1142.66795 2.0112 0.00076808 1.1062 0.00042246 3.1174 0.0011905 381.8969504632014 7.2879 1.0147 7.5937 7.2207 8.2355 0.30573 163 83 3 0 0 0 0.7471 2 3434 3434;3538 0.45834 0 1 82435 2560 6661 1927 1931 2726;2727 2726 0.10231854133371598 CRRRRRRRYCC 11 Unmodified _CRRRRRRRYCC_ 0 0 0 ENST00000447274.6_1_11:67056466-67056871:+|nuORF ENST00000447274.6_1_11:67056466-67056871:+|nuORF ENST00000447274.6_1_11:67056466-67056871:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 792.08203125 2 792.411888 1582.80922 NaN NaN NaN NaN NaN NaN NaN 49.395 1 50.22 49.72 50.72 0.82533 0 0 0 1.0082 1 22502 22502 0 0 1 2561 7984 1928 1932 2728 2728 0.04113161172722357 CRRTLHVR 8 Unmodified _CRRTLHVR_ 0 0 0 ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.5358581542969 3 347.53466 1039.58215 2.4816 0.00086244 0.78806 0.00027388 3.2697 0.0011363 347.53490287159235 47.929 0.3061 48.583 48.398 48.704 0.65356 37 12 4 0 0 0 0.73556 1 21936 21936 2.9952 2.9952 1 1865600 2562 936 1929 1933 2729 2729 0.06394269227871519 CRRTLHVR 8 Unmodified _CRRTLHVR_ 0 0 0 ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 347.53466 1039.58215 2.4998 0.00086875 0.16977 5.9002E-05 2.6695 0.00092776 347.53465081599643 48.811 0.25238 48.811 48.665 48.918 0 0.12905 -0.00032198 NaN 2.9952 36 14 3 NaN NaN NaN NaN 0 NaN NaN 0 1869200 2563 936 1929 1933 0.06394269227871519 CRRTLHVR 8 Unmodified _CRRTLHVR_ 0 0 0 ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 347.53466 1039.58215 2.2734 0.00079008 0.24899 8.6533E-05 2.5224 0.00087661 347.5346942226006 47.711 0.29296 48.54 48.375 48.668 0.82915 -0.14108 -0.00023939 NaN 2.9952 34 13 3 NaN NaN NaN NaN 0 NaN NaN 0 1545000 2564 936 1929 1933 0.06394269227871519 CRRTLHVR 8 Unmodified _CRRTLHVR_ 0 0 0 ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 347.53466 1039.58215 2.6683 0.00092731 0.70509 0.00024504 3.3733 0.0011724 347.5348201391384 48.531 0.24559 48.793 48.657 48.902 0.26209 0.11105 0.00023614 NaN 2.9952 37 12 4 NaN NaN NaN NaN 0 NaN NaN 0 1900500 2565 936 1929 1933 0.06394269227871519 CRRTLHVR 8 Unmodified _CRRTLHVR_ 0 0 0 ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 347.53466 1039.58215 2.4816 0.00086244 0.78806 0.00027388 3.2697 0.0011363 347.53490287159235 47.929 0.3061 48.583 48.398 48.704 0.65356 -0.099017 0.00032265 NaN 2.9952 37 12 4 NaN NaN NaN NaN 0 NaN NaN 0 1865600 2566 936 1929 1933 0.06394269227871519 CRRTMKKIKRR 11 Unmodified _CRRTMKKIKRR_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;nc|ENSG00000155657|Q8WZ42-5|TTN;nc|ENSG00000155657|Q8WZ42-9|TTN;nc|ENSG00000155657|Q8WZ42-10|TTN;nc|ENSG00000155657|Q8WZ42-3|TTN ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 738.4461059570312 2 738.447931 1474.88131 NaN NaN NaN NaN NaN NaN NaN 73.181 1 73.44 72.94 73.94 0.25876 0 0 0 1.008 1 33606 33606 0.26902 0.26902 1 2567 3871 1930 1934 2730 2730 0.16286398798024493 CRRWRYWEYWS 11 Unmodified _CRRWRYWEYWS_ 0 0 0 ENST00000299314.11_1_12:102159966-102161843:-|nuORF ENST00000299314.11_1_12:102159966-102161843:-|nuORF ENST00000299314.11_1_12:102159966-102161843:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 845.88916015625 2 845.888426 1689.7623 NaN NaN NaN NaN NaN NaN NaN 53.565 1 53.83 53.33 54.33 0.26462 0 0 0 1.0082 1 24498 24498 0 0 1 2568 6786 1931 1935 2731 2731 -0.05499096625817401 CRRWRYWEYWS 11 Unmodified _CRRWRYWEYWS_ 0 0 0 ENST00000299314.11_1_12:102159966-102161843:-|nuORF ENST00000299314.11_1_12:102159966-102161843:-|nuORF ENST00000299314.11_1_12:102159966-102161843:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 845.8878784179688 2 845.888426 1689.7623 NaN NaN NaN NaN NaN NaN NaN 95.779 1 96.386 95.886 96.886 0.60769 0 0 0 1.008 1 44043 44043 0.30703 0.30703 1 2569 6786 1931 1935 2732 2732 -0.05499096625817401 CRRYMMMRD 9 Unmodified _CRRYMMMRD_ 0 0 0 ENST00000531196.5_1_8:38271148-38271684:-|nuORF ENST00000531196.5_1_8:38271148-38271684:-|nuORF ENST00000531196.5_1_8:38271148-38271684:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.18695068359375 3 421.185546 1260.53481 NaN NaN NaN NaN NaN NaN NaN 73.993 1 74.68 74.18 75.18 0.68662 0 0 0 0.91099 1 35739 35739 0.86438 0.23755 1 2570 8725 1932 1936 2733 2733 -0.0850383742131271 CRSIRRQYRQ 10 Unmodified _CRSIRRQYRQ_ 0 0 0 EID3|p.L205Ffs*8|1|0.33|ENSG00000255150|chr12:104304546-104304547|-/T|frameshift_variant;ENSG00000255150|ENST00000527879|EID3 EID3|p.L205Ffs*8|1|0.33|ENSG00000255150|chr12:104304546-104304547|-/T|frameshift_variant EID3|p.L205Ffs*8|1|0.33|ENSG00000255150|chr12:104304546-104304547|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 683.7222290039062 2 683.367661 1364.72077 NaN NaN NaN NaN NaN NaN NaN 91.7 1 92.362 91.862 92.862 0.66198 0 0 0 1.0015 1 42198 42198 0.40072 0 1 2571 288 1933 1937 2734 2734 0.05299767405517741 CRSSHRPRG 9 Unmodified _CRSSHRPRG_ 0 0 0 ENST00000300589.6_1_16:50733767-50741796:+|nuORF ENST00000300589.6_1_16:50733767-50741796:+|nuORF ENST00000300589.6_1_16:50733767-50741796:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.2674560546875 2 528.267416 1054.52028 NaN NaN NaN NaN NaN NaN NaN 83.099 1 83.759 83.259 84.259 0.66019 0 0 0 0.90699 1 38278 38278 1.8442 0 1 2572 6796 1934 1938 2735 2735 -0.004800821912567699 CRWWRPCERRW 11 Unmodified _CRWWRPCERRW_ 0 0 0 REV__ENST00000599470.5_2_19:39616427-39616532:+|nuORF REV__ENST00000599470.5_2_19:39616427-39616532:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 817.3902587890625 2 817.390613 1632.76667 NaN NaN NaN NaN NaN NaN NaN 94.985 1 95.067 94.567 95.567 0.082001 0 0 0 1.0082 1 50108 50108 0 0 1 + 2573 17628 1935 1939 2736 2736 -0.024399106839155138 CSCCCCWCLCC 11 Unmodified _CSCCCCWCLCC_ 0 0 0 REV__ENSG00000171700|ENST00000395042|RGS19 REV__ENSG00000171700|ENST00000395042|RGS19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.9072875976562 2 615.146999 1228.27945 NaN NaN NaN NaN NaN NaN NaN 89.136 1 89.136 88.636 89.636 0 0 0 0 1.0082 1 46466 46466 0 0 1 + 2574 13510 1936 1940 2737 2737 -0.325562692592257 CSCCCCWCLCC 11 Unmodified _CSCCCCWCLCC_ 0 0 0 REV__ENSG00000171700|ENST00000395042|RGS19 REV__ENSG00000171700|ENST00000395042|RGS19 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 615.1471557617188 2 615.146999 1228.27945 NaN NaN NaN NaN NaN NaN NaN 105.35 1 105.66 105.16 106.16 0.31782 0 0 0 1.0082 1 48630 48630 0 0 1 + 2575 13510 1936 1940 2738 2738 -0.325562692592257 CSCCYCCPCCC 11 Unmodified _CSCCYCCPCCC_ 0 0 0 REV__ENST00000346964.6_2_3:196770181-196770280:-|nuORF REV__ENST00000346964.6_2_3:196770181-196770280:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 595.3182983398438 2 595.623357 1189.23216 NaN NaN NaN NaN NaN NaN NaN 12.395 1 12.657 12.157 13.157 0.26154 0 0 0 1.0082 1 5351 5351 0 0 1 + 2576 15512 1937 1941 2739 2739 -0.35488548530202024 CSCNQMANL 9 Unmodified _CSCNQMANL_ 0 0 0 ADGRE1|p.I578_C579insKWIK|1|0.04|ENSG00000174837|chr19:6921826-6921827|-/AAATGGATTAAA|inframe_insertion;nc|ENSG00000174837|Q14246-4|ADGRE1;nc|ENSG00000174837|Q14246-5|ADGRE1;nc|ENSG00000174837|Q14246-2|ADGRE1;nc|ENSG00000174837|Q14246-3|ADGRE1;ENSG00000174837|ENST00000312053|ADGRE1 ADGRE1|p.I578_C579insKWIK|1|0.04|ENSG00000174837|chr19:6921826-6921827|-/AAATGGATTAAA|inframe_insertion ADGRE1|p.I578_C579insKWIK|1|0.04|ENSG00000174837|chr19:6921826-6921827|-/AAATGGATTAAA|inframe_insertion MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.1902770996094 2 492.190805 982.367057 NaN NaN NaN NaN NaN NaN NaN 80.96 1 80.96 80.46 81.46 0 0 0 0 0.77475 1 40284 40284 10.074 0.72649 1 2577 13 1938 1942 2740 2740 -0.1248320141428394 CSCSCCCCWCF 11 Unmodified _CSCSCCCCWCF_ 0 0 0 REV__ENSG00000091844|ENST00000206262|RGS17 REV__ENSG00000091844|ENST00000206262|RGS17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 624.1500854492188 2 624.150596 1246.28664 NaN NaN NaN NaN NaN NaN NaN 92.583 1 92.583 92.083 93.083 0 0 0 0 1.0082 1 49234 49234 0 0 1 + 2578 10735 1939 1943 2741 2741 -0.3266521338716757 CSCSCCCCWCF 11 Unmodified _CSCSCCCCWCF_ 0 0 0 REV__ENSG00000091844|ENST00000206262|RGS17 REV__ENSG00000091844|ENST00000206262|RGS17 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 416.0025634765625 3 416.436156 1246.28664 NaN NaN NaN NaN NaN NaN NaN 13.427 1 13.734 13.234 14.234 0.30727 0 0 0 1.0082 1 6057 6057 0 0 1 + 2579 10735 1939 1943 2742 2742 -0.3266521338716757 CSDAFDGD 8 Unmodified _CSDAFDGD_ 0 0 0 REV__ENST00000430767.8_1_17:75212554-75212710:+|nuORF REV__ENST00000430767.8_1_17:75212554-75212710:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 830.2702026367188 1 829.266875 828.259598 3.0984 0.0025694 -0.49069 -0.00040692 2.6077 0.0021625 829.267402325822 5.6992 0.72613 6.052 5.863 6.5891 0.35278 155 92 2 0 0 0 0.7471 1 2620 2620 0.69038 0 1 54477 + 2580 16258 1940 1944 2743 2743 -0.1614013175250193 CSDCDDCEEA 10 Unmodified _CSDCDDCEEA_ 0 0 0 REV__nc|ENSG00000053747|Q16787-3|LAMA3 REV__nc|ENSG00000053747|Q16787-3|LAMA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.5088500976562 2 545.143914 1088.27328 NaN NaN NaN NaN NaN NaN NaN 68.548 1 69.25 68.75 69.75 0.70218 0 0 0 1.002 1 32686 32686 0 0 1 + 2581 10357 1941 1945 2744 2744 -0.2673301009788247 CSDPELAA 8 Unmodified _CSDPELAA_ 0 0 0 nc|ENSG00000020129|Q9UBB6-2|NCDN;ENSG00000020129|ENST00000373243|NCDN nc|ENSG00000020129|Q9UBB6-2|NCDN nc|ENSG00000020129|Q9UBB6-2|NCDN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.1383972167969 2 403.173461 804.332369 NaN NaN NaN NaN NaN NaN NaN 66.583 1 66.833 66.333 67.333 0.2501 0 0 0 0.99035 1 30503 30503 2.3027 0 1 2582 451 1942 1946 2745 2745 -0.07762377959090827 CSEDSSSCC 9 Unmodified _CSEDSSSCC_ 0 0 0 ENSG00000215455|ENST00000400375|KRTAP10-1;ENSG00000241123|ENST00000400372|KRTAP10-5;ENSG00000243489|ENST00000334670|KRTAP10-11;ENSG00000188155|ENST00000400368|KRTAP10-6;ENSG00000215454|ENST00000400374|KRTAP10-4 ENSG00000215455|ENST00000400375|KRTAP10-1 ENSG00000215455|ENST00000400375|KRTAP10-1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 920.2457275390625 1 920.243044 919.235768 3.2681 0.0030074 0.045666 4.2024E-05 3.3138 0.0030495 920.2438845163576 85.056 0.030136 85.056 85.037 85.067 0 7 4 2 0 0 0 1.2459 1 43207 43207 0 0 1 8196600 2583 6133 1943 1947 2746 2746 -0.22708056572832902 CSGDDDDDNDD 11 Unmodified _CSGDDDDDNDD_ 0 0 0 ENST00000322002.4_1_2:5834175-5834352:+|nuORF ENST00000322002.4_1_2:5834175-5834352:+|nuORF ENST00000322002.4_1_2:5834175-5834352:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 593.5653686523438 2 593.159661 1184.30477 NaN NaN NaN NaN NaN NaN NaN 49.795 1 50.618 50.118 51.118 0.82285 0 0 0 1.008 1 22684 22684 0.26902 0.26902 1 2584 6938 1944 1948 2747 2747 -0.28001022538592224 CSGDSDCM 8 Unmodified _CSGDSDCM_ 0 0 0 REV__ENSG00000073910|ENST00000542859|FRY REV__ENSG00000073910|ENST00000542859|FRY MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 408.84783935546875 2 409.111689 816.208825 NaN NaN NaN NaN NaN NaN NaN 92.101 1 92.354 91.854 92.854 0.25253 0 0 0 0.99035 1 42342 42342 0.69038 0 1 + 2585 10509 1945 1949 2748 2748 -0.20663120393351164 CSGFAPPD 8 Unmodified _CSGFAPPD_ 0 0 0 ENSG00000092096|ENST00000354772|SLC22A17;nc|ENSG00000092096|Q8WUG5|SLC22A17;nc|ENSG00000092096|Q8WUG5-3|SLC22A17;ENST00000557699.5_1_14:23818379-23821759:-|nuORF ENSG00000092096|ENST00000354772|SLC22A17 ENSG00000092096|ENST00000354772|SLC22A17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 397.1651916503906 2 397.162896 792.31124 NaN NaN NaN NaN NaN NaN NaN 67.097 1 67.097 66.597 67.597 0 0 0 0 0.99035 1 32117 32117 2.3027 1.5091 1 2586 1091 1946 1950 2749 2749 -0.09322343267945143 CSGSHTPCLP 10 Unmodified _CSGSHTPCLP_ 0 0 0 ENST00000263277.7_1_19:48244710-48244917:+|nuORF ENST00000263277.7_1_19:48244710-48244917:+|nuORF ENST00000263277.7_1_19:48244710-48244917:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.47998046875 3 334.477489 1000.41064 NaN NaN NaN NaN NaN NaN NaN 38.064 1 38.064 37.564 38.564 0 0 0 0 1.0012 1 17274 17274 0.69767 0.23933 1 2587 6587 1947 1951 2750 2750 -0.08955268645502201 CSGSHTPCLP 10 Unmodified _CSGSHTPCLP_ 0 0 0 ENST00000263277.7_1_19:48244710-48244917:+|nuORF ENST00000263277.7_1_19:48244710-48244917:+|nuORF ENST00000263277.7_1_19:48244710-48244917:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.4798583984375 3 334.477489 1000.41064 NaN NaN NaN NaN NaN NaN NaN 37.16 1 37.42 36.92 37.92 0.26083 0 0 0 1.0012 1 16926 16926 0.69767 0.23933 1 2588 6587 1947 1951 2751 2751 -0.08955268645502201 CSGSHTPCLP 10 Unmodified _CSGSHTPCLP_ 0 0 0 ENST00000263277.7_1_19:48244710-48244917:+|nuORF ENST00000263277.7_1_19:48244710-48244917:+|nuORF ENST00000263277.7_1_19:48244710-48244917:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.4799499511719 3 334.477489 1000.41064 NaN NaN NaN NaN NaN NaN NaN 37.682 1 37.943 37.443 38.443 0.26083 0 0 0 1.0012 1 17161 17161 0.69767 0.23933 1 2589 6587 1947 1951 2752 2752 -0.08955268645502201 CSKKLLLP 8 Unmodified _CSKKLLLP_ 0 0 0 ENST00000583784.1_1_17:80007881-80008457:-|nuORF;ENST00000580953.5_1_17:80007881-80009420:-|nuORF ENST00000583784.1_1_17:80007881-80008457:-|nuORF ENST00000583784.1_1_17:80007881-80008457:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 301.18890380859375 3 301.189496 900.546659 NaN NaN NaN NaN NaN NaN NaN 22.775 1 23.415 22.915 23.915 0.64051 0 0 0 0.99035 1 10378 10378 1.4819 1.0812 1 2590 9149 1948 1952 2753 2753 0.09240793927506274 CSNDDNGDDCT 11 Unmodified _CSNDDNGDDCT_ 0 0 0 REV__nc|ENSG00000145147|O94813-3|SLIT2 REV__nc|ENSG00000145147|O94813-3|SLIT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.695068359375 2 579.669142 1157.32373 NaN NaN NaN NaN NaN NaN NaN 92.19 1 92.19 91.69 92.69 0 0 0 0 1.0082 1 48918 48918 0 0 1 + 2591 12429 1949 1953 2754 2754 -0.2486376444853704 CSPCCACL 8 Unmodified _CSPCCACL_ 0 0 0 nc|ENSG00000188467|Q71RS6-2|SLC24A5;ENSG00000188467|ENST00000341459|SLC24A5 nc|ENSG00000188467|Q71RS6-2|SLC24A5 nc|ENSG00000188467|Q71RS6-2|SLC24A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 400.1357727050781 2 400.133913 798.253273 NaN NaN NaN NaN NaN NaN NaN 59.5 1 59.5 59 60 0 0 0 0 0.99035 1 27508 27508 0.79363 0 1 2592 5668 1950 1954 2755 2755 -0.15392387780877925 CSQEQWRYRLR 11 Unmodified _CSQEQWRYRLR_ 0 0 0 REV__ENSG00000107719|ENST00000263563|PALD1 REV__ENSG00000107719|ENST00000263563|PALD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 763.03955078125 2 762.878059 1523.74156 NaN NaN NaN NaN NaN NaN NaN 94.983 1 95.065 94.565 95.565 0.082001 0 0 0 1.0072 1 50105 50105 1.3295 0.92882 1 + 2593 11120 1951 1955 2756 2756 0.0006431299452742678 CSQVCEQHKHT 11 Unmodified _CSQVCEQHKHT_ 0 0 0 ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 649.9659423828125 2 650.282071 1298.54959 NaN NaN NaN NaN NaN NaN NaN 102.74 1 103.34 102.84 103.84 0.59759 0 0 0 1.0074 1 47548 47548 1.0715 0.61312 1 2594 4647 1952 1956 2757 2757 -0.08774350747967219 CSRKRVVT 8 Unmodified _CSRKRVVT_ 0 0 0 ENST00000316097.12_1_19:1924366-1924684:+|nuORF ENST00000316097.12_1_19:1924366-1924684:+|nuORF ENST00000316097.12_1_19:1924366-1924684:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.712890625 2 474.774011 947.533469 2.898 0.0013759 0.17677 8.3925E-05 3.0748 0.0014598 474.773947645277 68.337 0.20289 68.997 68.9 69.103 0.65924 16 11 2 0 0 0 0.14225 1 31292 31292 1.6526 0 1 288830 2595 6903 1953 1957 2758 2758 0.057603558681194045 CSWCWMQMCC 10 Unmodified _CSWCWMQMCC_ 0 0 0 ENST00000442692.2_1_11:68822646-68853210:+|nuORF ENST00000442692.2_1_11:68822646-68853210:+|nuORF ENST00000442692.2_1_11:68822646-68853210:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 640.5577392578125 2 640.696028 1279.3775 NaN NaN NaN NaN NaN NaN NaN 98.346 1 98.646 98.146 99.146 0.29987 0 0 0 1.002 1 45285 45285 0 0 1 2596 7948 1954 1958 2759 2759 -0.251010013473433 CSWTSRDL 8 Unmodified _CSWTSRDL_ 0 0 0 ENST00000579520.5_1_17:79977061-79977748:-|nuORF ENST00000579520.5_1_17:79977061-79977748:-|nuORF ENST00000579520.5_1_17:79977061-79977748:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.1493225097656 3 323.148248 966.422915 NaN NaN NaN NaN NaN NaN NaN 66.559 1 67.216 66.716 67.716 0.65672 0 0 0 0.99035 1 30513 30513 1.4819 0 1 2597 9144 1955 1959 2760 2760 -0.061639089107984546 CSWVPRGA 8 Unmodified _CSWVPRGA_ 0 0 0 REV__ENSG00000168411|ENST00000361070|RFWD3 REV__ENSG00000168411|ENST00000361070|RFWD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 438.26788330078125 2 438.213255 874.411957 NaN NaN NaN NaN NaN NaN NaN 73.954 1 74.618 74.118 75.118 0.6644 0 0 0 0.99035 1 34029 34029 2.3027 0 1 + 2598 13347 1956 1960 2761 2761 -0.030272664944163807 CTCAAGCY 8 Unmodified _CTCAAGCY_ 0 0 0 REV__ENSG00000212864|ENST00000391553|RNF208 REV__ENSG00000212864|ENST00000391553|RNF208 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 396.2503356933594 2 396.129685 790.244816 NaN NaN NaN NaN NaN NaN NaN 73.121 1 73.38 72.88 73.88 0.25876 0 0 0 0.99035 1 33578 33578 0.69038 0 1 + 2599 14483 1957 1961 2762 2762 -0.1586961842584742 CTCMCACACM 10 Unmodified _CTCMCACACM_ 0 0 0 REV__ENST00000544665.7_1_16:31343047-31343377:+|nuORF REV__ENST00000544665.7_1_16:31343047-31343377:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.3391723632812 2 520.136958 1038.25936 NaN NaN NaN NaN NaN NaN NaN 93.353 1 93.353 92.853 93.853 0 0 0 0 1.002 1 49843 49843 0 0 1 + 2600 17241 1958 1962 2763 2763 -0.25823696927545825 CTDCEPMVI 9 Unmodified _CTDCEPMVI_ 0 0 0 ENSG00000102786|ENST00000311234|INTS6;nc|ENSG00000102786|Q9UL03-3|INTS6;ENST00000493153.5_1_13:51957718-51957853:-|nuORF ENSG00000102786|ENST00000311234|INTS6 ENSG00000102786|ENST00000311234|INTS6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.70587158203125 2 505.703214 1009.39187 3.2615 0.0016493 1.3835 0.00069965 4.645 0.002349 505.70357774062785 59.721 0.34673 59.98 59.804 60.151 0.2593 40 21 2 0 0 0 0.49692 2 27363 27315;27363 12.532 7.3009 1 2186600 2601 1354 1959 1963 2764;2765 2765 -0.11244566331561145 CTDCEPMVI 9 Unmodified _CTDCEPMVI_ 0 0 0 ENSG00000102786|ENST00000311234|INTS6;nc|ENSG00000102786|Q9UL03-3|INTS6;ENST00000493153.5_1_13:51957718-51957853:-|nuORF ENSG00000102786|ENST00000311234|INTS6 ENSG00000102786|ENST00000311234|INTS6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 505.703214 1009.39187 2.8679 0.0014503 4.3525 0.002201 7.2203 0.0036513 505.7044299781393 60.107 0.044914 60.107 60.074 60.119 0 0.1575 0.0025305 NaN 12.532 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 3734100 2602 1354 1959 1963 -0.11244566331561145 CTDCEPMVI 9 Unmodified _CTDCEPMVI_ 0 0 0 ENSG00000102786|ENST00000311234|INTS6;nc|ENSG00000102786|Q9UL03-3|INTS6;ENST00000493153.5_1_13:51957718-51957853:-|nuORF ENSG00000102786|ENST00000311234|INTS6 ENSG00000102786|ENST00000311234|INTS6 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 505.703214 1009.39187 3.2726 0.001655 1.8416 0.00093132 5.1143 0.0025863 505.70381273700156 59.174 0.3348 59.841 59.644 59.979 0.66703 -0.10843 -8.945E-06 NaN 12.532 41 17 4 NaN NaN NaN NaN 0 NaN NaN 0 2149900 2603 1354 1959 1963 -0.11244566331561145 CTDYTAEC 8 Unmodified _CTDYTAEC_ 0 0 0 ENSG00000109072|ENST00000226218|VTN ENSG00000109072|ENST00000226218|VTN ENSG00000109072|ENST00000226218|VTN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 452.78656005859375 2 453.154411 904.294269 NaN NaN NaN NaN NaN NaN NaN 65.027 1 65.683 65.183 66.183 0.65672 0 0 0 0.99035 1 29811 29811 0.69038 0 1 2604 1667 1960 1964 2766 2766 -0.16170631936063273 CTECFDFDDCN 11 Unmodified _CTECFDFDDCN_ 0 0 0 REV__ENSG00000128731|ENST00000261609|HERC2 REV__ENSG00000128731|ENST00000261609|HERC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 656.200927734375 2 656.201763 1310.38897 NaN NaN NaN NaN NaN NaN NaN 50.482 1 51.14 50.64 51.64 0.65735 0 0 0 1.008 1 23084 23084 0.30703 0.30703 1 + 2605 11770 1961 1965 2767 2767 -0.25380486246990586 CTECFDFDDCN 11 Unmodified _CTECFDFDDCN_ 0 0 0 REV__ENSG00000128731|ENST00000261609|HERC2 REV__ENSG00000128731|ENST00000261609|HERC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 656.2015991210938 2 656.201763 1310.38897 NaN NaN NaN NaN NaN NaN NaN 50.596 1 51.255 50.755 51.755 0.6588 0 0 0 1.008 1 23136 23136 0.30703 0.30703 1 + 2606 11770 1961 1965 2768 2768 -0.25380486246990586 CTECFDFDDCN 11 Unmodified _CTECFDFDDCN_ 0 0 0 REV__ENSG00000128731|ENST00000261609|HERC2 REV__ENSG00000128731|ENST00000261609|HERC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 656.2029418945312 2 656.201763 1310.38897 NaN NaN NaN NaN NaN NaN NaN 51.8 1 52.462 51.962 52.962 0.66198 0 0 0 1.008 1 23688 23688 0.30703 0.30703 1 + 2607 11770 1961 1965 2769 2769 -0.25380486246990586 CTFYNLVHF 9 Unmodified _CTFYNLVHF_ 0 0 0 REV__nc|ENSG00000204519|Q7Z340-3|ZNF551 REV__nc|ENSG00000204519|Q7Z340-3|ZNF551 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.8482971191406 3 381.84791 1142.5219 NaN NaN NaN NaN NaN NaN NaN 45.718 1 46.544 46.044 47.044 0.82621 0 0 0 0.90965 1 20818 20818 1.1933 0.23107 1 + 2608 14422 1962 1966 2770 2770 -0.043658859458901134 CTLSRPGGL 9 Unmodified _CTLSRPGGL_ 0 0 0 REV__ENST00000489018.1_1_1:109812780-109813362:+|nuORF REV__ENST00000489018.1_1_1:109812780-109813362:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.24005126953125 2 452.23947 902.464386 NaN NaN NaN NaN NaN NaN NaN 55.113 1 55.379 54.879 55.879 0.26543 0 0 0 0.88916 1 25197 25197 6.2058 0 1 + 2609 16784 1963 1967 2771 2771 0.009252718485413425 CTNGQDLI 8 Unmodified _CTNGQDLI_ 0 0 0 nc|ENSG00000197694|Q13813-3|SPTAN1;nc|ENSG00000197694|Q13813|SPTAN1;ENSG00000197694|ENST00000372739|SPTAN1;SPTAN1|p.W2169Cfs*90|1|0.11|ENSG00000197694|chr9:128626632-128626632|G/-|frameshift_variant nc|ENSG00000197694|Q13813-3|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.199462890625 2 432.20001 862.385467 NaN NaN NaN NaN NaN NaN NaN 28.154 1 28.94 28.44 29.44 0.78627 0 0 0 0.79394 1 12674 12674 19.257 3.4098 1 2610 5834 1964 1968 2772 2772 -0.05123000176399728 CTYRQPII 8 Unmodified _CTYRQPII_ 0 0 0 REV__ENST00000244051.2_1_20:49576777-49576906:+|nuORF REV__ENST00000244051.2_1_20:49576777-49576906:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.26434326171875 2 497.262945 992.511337 3.1833 0.001583 -0.0014547 -7.2336E-07 3.1819 0.0015822 497.2630686003693 35.271 0.32263 35.526 35.391 35.713 0.25524 30 12 3 0 0 0 0.4188 1 16065 16065 26.884 2.2098 1 931970 + 2611 14887 1965 1969 2773 2773 0.014781313996763856 CTYRQPII 8 Unmodified _CTYRQPII_ 0 0 0 REV__ENST00000244051.2_1_20:49576777-49576906:+|nuORF REV__ENST00000244051.2_1_20:49576777-49576906:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.2647399902344 2 497.262945 992.511337 3.2289 0.0016056 0.65053 0.00032348 3.8794 0.0019291 497.2631140540993 34.95 0.12275 35.573 35.49 35.612 0.62294 13 12 2 0 0 0 0.39589 1 16021 16021 28.487 10.352 1 942110 + 2612 14887 1965 1969 2774 2774 0.014781313996763856 CTYRQPII 8 Unmodified _CTYRQPII_ 0 0 0 REV__ENST00000244051.2_1_20:49576777-49576906:+|nuORF REV__ENST00000244051.2_1_20:49576777-49576906:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 497.262945 992.511337 3.2289 0.0016056 0.65053 0.00032348 3.8794 0.0019291 497.2631140540993 34.95 0.12275 35.573 35.49 35.612 0.62294 0.023714 0.00034059 NaN 28.487 13 12 2 NaN NaN NaN NaN 0 NaN NaN 0 942110 + 2613 14887 1965 1969 0.014781313996763856 CTYYYELWWFW 11 Unmodified _CTYYYELWWFW_ 0 0 0 ENST00000473467.5_1_2:74685729-74687181:+|nuORF;ENST00000441673.2_1_2:74684653-74687805:+|nuORF;ENST00000452361.5_1_2:74684918-74687805:+|nuORF;ENSG00000239779|ENST00000233615|WBP1 ENST00000473467.5_1_2:74685729-74687181:+|nuORF ENST00000473467.5_1_2:74685729-74687181:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 830.2913818359375 2 830.352488 1658.69042 NaN NaN NaN NaN NaN NaN NaN 103.65 1 103.7 103.2 104.2 0.052994 0 0 0 1.0082 1 56178 56178 0 0 1 2614 6213 1966 1970 2775 2775 -0.11257448822925653 CVCMCACMC 9 Unmodified _CVCMCACMC_ 0 0 0 REV__nc|nan|Q96N68|C18orf15 REV__nc|nan|Q96N68|C18orf15 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.9416198730469 2 483.628768 965.242984 2.7801 0.0013445 1.9247 0.00093082 4.7048 0.0022754 483.6295222563599 63.145 0.03344 63.145 63.123 63.156 0 5 3 2 0 0 0 0.11443 1 29656 29656 0 0 1 2612100 + 2615 18184 1967 1971 2776 2776 -0.24102778093617871 CVGLLRGN 8 Unmodified _CVGLLRGN_ 0 0 0 REV__nc|ENSG00000148584|Q9NQ94-5|A1CF REV__nc|ENSG00000148584|Q9NQ94-5|A1CF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 416.2289733886719 2 416.228905 830.443257 NaN NaN NaN NaN NaN NaN NaN 68.274 1 68.933 68.433 69.433 0.65924 0 0 0 0.99035 1 31296 31296 4.756 0 1 + 2616 12543 1968 1972 2777 2777 0.021253065396763304 CVKARLACLL 10 Unmodified _CVKARLACLL_ 0 0 0 REV__ENSG00000101384|ENST00000254958|JAG1 REV__ENSG00000101384|ENST00000254958|JAG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3184814453125 2 545.317197 1088.61984 3.4792 0.0018973 -0.38326 -0.000209 3.0959 0.0016883 545.3169124440693 83.541 1.7312 83.788 83.088 84.819 0.24722 279 102 3 0 0 0 0.93628 6 38290 38290;38348;38389;38430;38571;38618 1.6526 1.6526 1 2574300 + 2617 10891 1969 1973 2778;2779;2780;2781;2782;2783 2778 0.07907599378472696 CVKARLACLL 10 Unmodified _CVKARLACLL_ 0 0 0 REV__ENSG00000101384|ENST00000254958|JAG1 REV__ENSG00000101384|ENST00000254958|JAG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.3184204101562 2 545.317197 1088.61984 3.6481 0.0019894 -0.6529 -0.00035604 2.9952 0.0016333 545.3167571998881 83.226 1.6957 83.886 83.094 84.79 0.66019 259 100 4 0 0 0 0.93628 2 38100 38100;38374 1.6526 0.17072 1 2968300 + 2618 10891 1969 1973 2784;2785 2784 0.07907599378472696 CVKARLACLL 10 Unmodified _CVKARLACLL_ 0 0 0 REV__ENSG00000101384|ENST00000254958|JAG1 REV__ENSG00000101384|ENST00000254958|JAG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.3195190429688 2 545.317197 1088.61984 3.6546 0.0019929 -0.54916 -0.00029947 3.1054 0.0016934 545.3170035522877 84.341 1.0692 85.003 84.792 85.861 0.66219 97 57 3 0 0 0 0.90196 2 38942 38894;38942 3.5965 0.70727 1 954520 + 2619 10891 1969 1973 2786;2787 2787 0.07907599378472696 CVLVLPMG 8 Unmodified _CVLVLPMG_ 0 0 0 nc|ENSG00000196266|Q5JRS4|OR10J3 nc|ENSG00000196266|Q5JRS4|OR10J3 nc|ENSG00000196266|Q5JRS4|OR10J3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 416.22882080078125 2 416.226985 830.439417 NaN NaN NaN NaN NaN NaN NaN 83.475 1 83.722 83.222 84.222 0.24722 0 0 0 0.99035 1 38423 38423 2.8892 0 1 2620 9795 1970 1974 2788 2788 0.01741500721607281 CWCCGCSCDSC 11 Unmodified _CWCCGCSCDSC_ 0 0 0 REV__ENST00000222584.7_1_7:21470186-21470375:+|nuORF REV__ENST00000222584.7_1_7:21470186-21470375:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.12255859375 2 585.136001 1168.25745 NaN NaN NaN NaN NaN NaN NaN 77.985 1 77.985 77.485 78.485 0 0 0 0 1.0082 1 38276 38276 0 0 1 + 2621 14829 1971 1975 2789 2789 -0.3199503441176148 CWMSEMWIM 9 Unmodified _CWMSEMWIM_ 0 0 0 REV__ENST00000389600.6_1_13:51590304-51594849:-|nuORF REV__ENST00000389600.6_1_13:51590304-51594849:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 608.7409057617188 2 608.736534 1215.45851 3.5517 0.002162 2.0848 0.0012691 5.6365 0.0034311 608.7379876778087 62.111 0.25852 62.364 62.199 62.457 0.25245 18 11 2 0 0 0 0.49692 1 28456 28456 12.532 1.7076 1 970320 + 2622 15914 1972 1976 2790 2790 -0.14059654041307112 CWMSEMWIM 9 Unmodified _CWMSEMWIM_ 0 0 0 REV__ENST00000389600.6_1_13:51590304-51594849:-|nuORF REV__ENST00000389600.6_1_13:51590304-51594849:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 608.739990234375 2 608.736534 1215.45851 3.5535 0.0021631 2.4463 0.0014891 5.9997 0.0036522 608.7382134671725 61.492 0.21963 62.154 62.043 62.262 0.66261 24 10 3 0 0 0 0.49692 2 28155 28155;28209 12.532 1.7076 1 769630 + 2623 15914 1972 1976 2791;2792 2791 -0.14059654041307112 CWMSEMWIM 9 Unmodified _CWMSEMWIM_ 0 0 0 REV__ENST00000389600.6_1_13:51590304-51594849:-|nuORF REV__ENST00000389600.6_1_13:51590304-51594849:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 608.736534 1215.45851 3.5517 0.002162 2.0848 0.0012691 5.6365 0.0034311 608.7379876778087 62.111 0.25852 62.364 62.199 62.457 0.25245 0.10489 -0.00021295 NaN 12.532 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 970320 + 2624 15914 1972 1976 -0.14059654041307112 CWNWLYIWMWL 11 Unmodified _CWNWLYIWMWL_ 0 0 0 REV__ENST00000495272.5_1_1:95705378-95709907:+|nuORF REV__ENST00000495272.5_1_1:95705378-95709907:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.5869750976562 3 538.585921 1612.73593 NaN NaN NaN NaN NaN NaN NaN 41.596 1 41.596 41.096 42.096 0 0 0 0 1.0072 1 18920 18920 0.45452 0.35968 1 + 2625 16838 1973 1977 2793 2793 -0.04592501841511876 CWRRRRRTQRK 11 Unmodified _CWRRRRRTQRK_ 0 0 0 REV__ENST00000356865.10_1_15:25962031-25966812:-|nuORF REV__ENST00000356865.10_1_15:25962031-25966812:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 534.6422119140625 3 534.642926 1600.90695 NaN NaN NaN NaN NaN NaN NaN 40.635 1 41.439 40.939 41.939 0.80351 0 0 0 1.0079 1 18408 18408 0.45452 0.45452 1 + 2626 15560 1974 1978 2794 2794 0.13053009364671198 CWYKYFQYL 9 Unmodified _CWYKYFQYL_ 0 0 0 nc|ENSG00000215296|A8MYB1|TMCO5B nc|ENSG00000215296|A8MYB1|TMCO5B nc|ENSG00000215296|A8MYB1|TMCO5B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 438.5392150878906 3 438.538965 1312.59507 NaN NaN NaN NaN NaN NaN NaN 27.486 1 28.272 27.772 28.772 0.78627 0 0 0 0.91356 1 12360 12360 0.23584 0 1 2627 9830 1975 1979 2795 2795 -0.04872757223256485 CYFDDTCLC 9 Unmodified _CYFDDTCLC_ 0 0 0 REV__ENSG00000187871|ENST00000340465|GFRAL REV__ENSG00000187871|ENST00000340465|GFRAL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.5335693359375 2 541.685021 1081.35549 NaN NaN NaN NaN NaN NaN NaN 77.449 1 77.449 76.949 77.949 0 0 0 0 0.90511 1 37986 37986 2.3027 0.24298 1 + 2628 14120 1976 1980 2796 2796 -0.18193443228278738 CYKLPDNVTF 10 Carbamidomethyl (C) _C(Carbamidomethyl (C))YKLPDNVTF_ C(1)YKLPDNVTF C(54)YKLPDNVTF 0 1 0 ENST00000559230.5_1_15:45353218-45365725:+|nuORF;ENSG00000140263|ENST00000267814|SORD ENST00000559230.5_1_15:45353218-45365725:+|nuORF ENST00000559230.5_1_15:45353218-45365725:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 628.8049926757812 2 628.802631 1255.59071 NaN NaN NaN NaN NaN NaN NaN 60.296 1 60.961 60.461 61.461 0.66503 0 0 0 0.11148 1 27607 27607 53.833 40.79 1 2629 3186 1977 1981 2797 2797 62 -0.02686266436853657 CYLGMASINK 10 Unmodified _CYLGMASINK_ 0 0 0 REV__ENST00000464428.2_1_1:177936859-177991802:-|nuORF REV__ENST00000464428.2_1_1:177936859-177991802:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.2691040039062 2 550.26737 1098.52019 NaN NaN NaN NaN NaN NaN NaN 43.673 1 43.673 43.173 44.173 0 0 0 0 0.83354 1 19916 19916 21.747 1.293 1 + 2630 16530 1978 1982 2798 2798 -0.02513263026162349 CYLKDFILL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))YLKDFILL_ C(1)YLKDFILL C(78)YLKDFILL 0 1 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.8241577148438 2 592.822835 1183.63112 3.7524 0.0022245 -0.41787 -0.00024772 3.3346 0.0019768 592.8229306046899 85.643 0.31416 85.892 85.724 86.038 0.24857 26 12 4 0 0 0 0.012748 1 39386 39386 78.149 30.401 1 1243200 2631 4953 1979 1983 2799 2799 83 0.04664699953582385 CYLKDFILL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))YLKDFILL_ C(1)YLKDFILL C(100)YLKDFILL 0 1 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.8230590820312 2 592.822835 1183.63112 3.9756 0.0023568 -0.72585 -0.0004303 3.2498 0.0019265 592.8222498955117 85.013 0.24706 85.679 85.552 85.799 0.66566 19 10 2 0 0 0 0.0020408 1 39149 39149 103.75 38.513 1 1124400 2632 4953 1979 1983 2800 2800 83 0.04664699953582385 CYPHSMSLPL 10 Unmodified _CYPHSMSLPL_ 0 0 0 REV__ENSG00000160961|ENST00000292530|ZNF333 REV__ENSG00000160961|ENST00000292530|ZNF333 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 383.18182373046875 3 383.180672 1146.52019 3.0718 0.001177 -0.69014 -0.00026445 2.3816 0.00091259 383.1806530491359 67.659 0.3872 67.911 67.73 68.117 0.25227 73 20 5 0 0 0 0.76575 2 31005 30961;31005 8.9762 4.7867 1 7385100 + 2633 12901 1980 1984 2801;2802 2802 -0.047212630261356026 CYPHSMSLPL 10 Unmodified _CYPHSMSLPL_ 0 0 0 REV__ENSG00000160961|ENST00000292530|ZNF333 REV__ENSG00000160961|ENST00000292530|ZNF333 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 383.1822814941406 3 383.180672 1146.52019 2.7579 0.0010568 -0.28877 -0.00011065 2.4692 0.00094613 383.18079218234027 67.081 0.39572 67.738 67.54 67.936 0.65778 74 22 4 0 0 0 0.76575 1 30773 30773 5.7834 1.9071 1 5214200 + 2634 12901 1980 1984 2803 2803 -0.047212630261356026 CYPHSMSLPL 10 Unmodified _CYPHSMSLPL_ 0 0 0 REV__ENSG00000160961|ENST00000292530|ZNF333 REV__ENSG00000160961|ENST00000292530|ZNF333 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 383.180672 1146.52019 1.8554 0.00071097 -0.38694 -0.00014827 1.4685 0.0005627 383.51489273899216 66.954 0.13448 67.659 67.586 67.721 0.7047 -0.1106 0.00010766 NaN 8.9762 20 16 2 NaN NaN NaN NaN 0 NaN NaN 0 965820 + 2635 12901 1980 1984 -0.047212630261356026 CYQDDCTGCCF 11 Unmodified _CYQDDCTGCCF_ 0 0 0 REV__nc|ENSG00000164054|Q8N114-2|SHISA5 REV__nc|ENSG00000164054|Q8N114-2|SHISA5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 629.0862426757812 2 629.187602 1256.36065 NaN NaN NaN NaN NaN NaN NaN 103.53 1 103.59 103.09 104.09 0.055092 0 0 0 1.0082 1 56123 56123 0 0 1 + 2636 13055 1981 1985 2804 2804 -0.2572750742797325 CYQEGLRSL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))YQEGLRSL_ C(1)YQEGLRSL C(46)YQEGLRSL 0 1 0 ENSG00000244509|ENST00000361441|APOBEC3C ENSG00000244509|ENST00000361441|APOBEC3C ENSG00000244509|ENST00000361441|APOBEC3C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.2732543945312 2 563.271498 1124.52844 3.3903 0.0019097 -0.40338 -0.00022721 2.9869 0.0016825 563.2711833567002 37.873 0.19454 38.669 38.558 38.752 0.79552 15 6 3 0 0 0 0.053359 1 17170 17170 45.74 11.338 1 562150 2637 6251 1982 1986 2805 2805 101 -0.028839927851777247 CYQEGLRSL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))YQEGLRSL_ 0 1 0 ENSG00000244509|ENST00000361441|APOBEC3C ENSG00000244509|ENST00000361441|APOBEC3C ENSG00000244509|ENST00000361441|APOBEC3C MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 563.271498 1124.52844 3.4477 0.001942 -0.21459 -0.00012087 3.2331 0.0018211 563.2716434818722 39.03 0.23467 39.03 38.865 39.1 0 0.082681 3.1104E-05 NaN 45.74 20 8 3 NaN NaN NaN NaN 0 NaN NaN 0 420050 2638 6251 1982 1986 101 -0.028839927851777247 CYRRRRRRRCR 11 Unmodified _CYRRRRRRRCR_ 0 0 0 REV__ENST00000447274.6_1_11:67056466-67056871:+|nuORF REV__ENST00000447274.6_1_11:67056466-67056871:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 818.9566650390625 2 818.957852 1635.90115 NaN NaN NaN NaN NaN NaN NaN 71.496 1 72.199 71.699 72.699 0.70386 0 0 0 1.0082 1 34340 34340 0 0 1 + 2639 16387 1983 1987 2806 2806 0.10863587581366119 CYSKIVDKL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))YSKIVDKL_ C(1)YSKIVDKL C(59)YSKIVDKL 0 1 0 SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant;nc|ENSG00000157106|Q96Q15-2|SMG1;ENSG00000157106|ENST00000446231|SMG1;nc|ENSG00000157106|Q96Q15-3|SMG1;nc|ENSG00000157106|Q96Q15-4|SMG1;ENST00000562668.1_16:18859095-18860659:-|nuORF SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 375.8711853027344 3 375.870603 1124.58998 2.6324 0.00098944 -0.040178 -1.5102E-05 2.5922 0.00097434 375.87041996630217 34.396 0.27083 35.019 34.894 35.165 0.62294 17 9 3 0 0 0 0.026853 1 15744 15744 59.368 37.778 1 474880 2640 3939 1984 1988 2807 2807 72 0.03266938914111961 CYSKIVDKL 9 Carbamidomethyl (C) _C(Carbamidomethyl (C))YSKIVDKL_ 0 1 0 SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant;nc|ENSG00000157106|Q96Q15-2|SMG1;ENSG00000157106|ENST00000446231|SMG1;nc|ENSG00000157106|Q96Q15-3|SMG1;nc|ENSG00000157106|Q96Q15-4|SMG1;ENST00000562668.1_16:18859095-18860659:-|nuORF SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 375.870603 1124.58998 2.5476 0.00095758 -0.20393 -7.6651E-05 2.3437 0.00088093 376.2052063752452 34.845 0.10048 34.845 34.81 34.91 0 -0.023363 -0.00032654 NaN 59.368 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 679380 2641 3939 1984 1988 72 0.03266938914111961 DAAIRVWSL 9 Unmodified _DAAIRVWSL_ 0 0 0 ENSG00000183751|ENST00000568546|TBL3 ENSG00000183751|ENST00000568546|TBL3 ENSG00000183751|ENST00000568546|TBL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.7890625 2 515.787641 1029.56073 2.8761 0.0014835 0.09529 4.915E-05 2.9714 0.0015326 515.787853235936 71.093 0.28374 71.756 71.596 71.879 0.66209 36 19 2 0 0 0 0.021227 1 32586 32586 71.708 35.581 1 603790 2642 5403 1985 1989 2808 2808 0.04713162680127425 DADEEKASL 9 Unmodified _DADEEKASL_ 0 0 0 nc|ENSG00000130779|P30622-2|CLIP1;nc|ENSG00000130779|P30622-1|CLIP1;ENSG00000130779|ENST00000620786|CLIP1 nc|ENSG00000130779|P30622-2|CLIP1 nc|ENSG00000130779|P30622-2|CLIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.2264709472656 2 489.224736 976.43492 3.2614 0.0015956 0.39521 0.00019335 3.6567 0.0017889 489.2249500193414 20.428 0.38297 20.428 20.213 20.596 0 77 34 3 0 0 0 0.0076144 2 9120 9120;9163 86.332 8.4997 1 870290 2643 2621 1986 1990 2809;2810 2809 -0.05424013686615581 DADEEKASL 9 Unmodified _DADEEKASL_ 0 0 0 nc|ENSG00000130779|P30622-2|CLIP1;nc|ENSG00000130779|P30622-1|CLIP1;ENSG00000130779|ENST00000620786|CLIP1 nc|ENSG00000130779|P30622-2|CLIP1 nc|ENSG00000130779|P30622-2|CLIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.2260437011719 2 489.224736 976.43492 3.3686 0.001648 0.87549 0.00042831 4.2441 0.0020763 489.2252287877923 19.606 0.32727 20.265 20.055 20.383 0.6583 54 23 3 0 0 0 0.00143 1 8896 8896 110.67 2.6777 1 667040 2644 2621 1986 1990 2811 2811 -0.05424013686615581 DADLREQAL 9 Unmodified _DADLREQAL_ 0 0 0 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.763671875 2 515.76182 1029.50909 3.0755 0.0015862 -0.6971 -0.00035954 2.3784 0.0012267 515.7613727177635 34.093 0.25935 34.882 34.73 34.989 0.78921 31 14 3 0 0 0 0.026853 2 15392 15392;15449 59.368 22.862 1 644430 2645 5780 1987 1991 2812;2813 2812 -0.00448625804438052 DADLREQAL 9 Unmodified _DADLREQAL_ 0 0 0 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.7636108398438 2 515.76182 1029.50909 NaN NaN NaN NaN NaN NaN NaN 34.729 1 34.983 34.483 35.483 0.25389 0 0 0 0.017165 1 15818 15818 76.825 33.052 1 2646 5780 1987 1991 2814 2814 -0.00448625804438052 DADLREQAL 9 Unmodified _DADLREQAL_ 0 0 0 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.7627563476562 2 515.76182 1029.50909 3.3754 0.0017409 -0.59267 -0.00030568 2.7828 0.0014352 515.7614549368025 34.313 0.23109 34.936 34.82 35.051 0.62294 13 8 2 0 0 0 0.0076144 1 15729 15729 86.332 34.702 1 488890 2647 5780 1987 1991 2815 2815 -0.00448625804438052 DADLREQAL 9 Unmodified _DADLREQAL_ 0 0 0 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 515.76182 1029.50909 2.9934 0.0015439 0.41062 0.00021178 3.404 0.0017557 515.7618933508193 34.861 0.14518 34.861 34.765 34.91 0 -0.03196 0.00077466 NaN 86.332 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 1589900 2648 5780 1987 1991 -0.00448625804438052 DADPTEEQM 9 Unmodified _DADPTEEQM_ 0 0 0 ENSG00000147601|ENST00000276603|TERF1;nc|ENSG00000147601|P54274-2|TERF1 ENSG00000147601|ENST00000276603|TERF1 ENSG00000147601|ENST00000276603|TERF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.2026977539062 2 518.200404 1034.38626 3.3663 0.0017444 0.25307 0.00013114 3.6194 0.0018756 518.2004888108289 26.706 0.3731 26.706 26.558 26.932 0 46 27 2 0 0 0 0.0017071 1 12023 12023 107.19 73.085 1 602410 2649 3575 1988 1992 2816 2816 -0.12956250318006823 DADPTEEQM 9 Unmodified _DADPTEEQM_ 0 0 0 ENSG00000147601|ENST00000276603|TERF1;nc|ENSG00000147601|P54274-2|TERF1 ENSG00000147601|ENST00000276603|TERF1 ENSG00000147601|ENST00000276603|TERF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.2022705078125 2 518.200404 1034.38626 3.3234 0.0017222 -0.1183 -6.1302E-05 3.2051 0.0016609 518.2003192345753 26.042 0.46125 26.805 26.616 27.077 0.76356 73 32 3 0 0 0 0.0017071 2 11704 11704;11754 107.19 73.085 1 470440 2650 3575 1988 1992 2817;2818 2817 -0.12956250318006823 DADPTEEQM 9 Unmodified _DADPTEEQM_ 0 0 0 ENSG00000147601|ENST00000276603|TERF1;nc|ENSG00000147601|P54274-2|TERF1 ENSG00000147601|ENST00000276603|TERF1 ENSG00000147601|ENST00000276603|TERF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 518.2015991210938 2 518.200404 1034.38626 3.4838 0.0018053 0.10904 5.6505E-05 3.5929 0.0018618 518.2003685731473 26.001 0.35872 26.269 26.122 26.48 0.26777 62 34 2 0 0 0 0.020151 1 11810 11810 68.081 51.138 1 552930 2651 3575 1988 1992 2819 2819 -0.12956250318006823 DADPTEEQM 9 Unmodified _DADPTEEQM_ 0 0 0 ENSG00000147601|ENST00000276603|TERF1;nc|ENSG00000147601|P54274-2|TERF1 ENSG00000147601|ENST00000276603|TERF1 ENSG00000147601|ENST00000276603|TERF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.2007446289062 2 518.200404 1034.38626 NaN NaN NaN NaN NaN NaN NaN 25.666 1 26.291 25.791 26.791 0.62505 0 0 0 0.00074829 1 11766 11766 99.799 53.778 1 2652 3575 1988 1992 2820 2820 -0.12956250318006823 DADPTEEQM 9 Unmodified _DADPTEEQM_ 0 0 0 ENSG00000147601|ENST00000276603|TERF1;nc|ENSG00000147601|P54274-2|TERF1 ENSG00000147601|ENST00000276603|TERF1 ENSG00000147601|ENST00000276603|TERF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.2015991210938 2 518.200404 1034.38626 NaN NaN NaN NaN NaN NaN NaN 25.764 1 26.389 25.889 26.889 0.62505 0 0 0 0.041263 1 11811 11811 56.177 33.029 1 2653 3575 1988 1992 2821 2821 -0.12956250318006823 DADQASNIL 9 Unmodified _DADQASNIL_ 0 0 0 ENSG00000015479|ENST00000394805|MATR3 ENSG00000015479|ENST00000394805|MATR3 ENSG00000015479|ENST00000394805|MATR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.72857666015625 2 473.727446 945.44034 2.8018 0.0013273 -0.11266 -5.3372E-05 2.6891 0.0012739 473.7275520562896 47.353 0.32063 48.182 47.997 48.318 0.82915 28 18 2 0 0 0 0.16976 1 21603 21603 25.399 10.561 1 532850 2654 439 1989 1993 2822 2822 -0.03456290104134041 DADQASNIL 9 Unmodified _DADQASNIL_ 0 0 0 ENSG00000015479|ENST00000394805|MATR3 ENSG00000015479|ENST00000394805|MATR3 ENSG00000015479|ENST00000394805|MATR3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 473.727446 945.44034 2.8378 0.0013443 0.72036 0.00034126 3.5582 0.0016856 473.7276957244605 48.086 0.31149 48.086 47.978 48.289 0 0.047318 0.00023549 NaN 25.399 23 13 2 NaN NaN NaN NaN 0 NaN NaN 0 469850 2655 439 1989 1993 -0.03456290104134041 DADQASNIL 9 Unmodified _DADQASNIL_ 0 0 0 ENSG00000015479|ENST00000394805|MATR3 ENSG00000015479|ENST00000394805|MATR3 ENSG00000015479|ENST00000394805|MATR3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 473.727446 945.44034 2.9771 0.0014103 0.72334 0.00034266 3.7004 0.001753 473.7276789697887 47.196 0.29979 47.848 47.715 48.015 0.65219 -0.19091 0.00023831 NaN 25.399 26 14 2 NaN NaN NaN NaN 0 NaN NaN 0 483390 2656 439 1989 1993 -0.03456290104134041 DADYDDEDYD 10 Unmodified _DADYDDEDYD_ 0 0 0 REV__ENSG00000122728|ENST00000242310|TAF1L REV__ENSG00000122728|ENST00000242310|TAF1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 618.0457763671875 2 618.19657 1234.37859 NaN NaN NaN NaN NaN NaN NaN 45.18 1 45.447 44.947 45.947 0.26768 0 0 0 1.0001 1 20651 20651 1.6526 0.32309 1 + 2657 11592 1990 1994 2823 2823 -0.2292273110460883 DAEADVASL 9 Unmodified _DAEADVASL_ 0 0 0 nc|ENSG00000140416|P09493-9|TPM1;nc|ENSG00000140416|P09493-3|TPM1;TPM1|p.V200Efs*2|1|0.07|ENSG00000140416|chr15:63061746-63061747|-/GA|frameshift_variant;nc|ENSG00000198467|P07951-2|TPM2;nc|ENSG00000140416|P09493-4|TPM1;nc|ENSG00000140416|P09493-10|TPM1;ENSG00000198467|ENST00000645482|TPM2;ENSG00000140416|ENST00000403994|TPM1;CON__Q3SX28;ENST00000471212.5_1_9:35684790-35689844:-|nuORF nc|ENSG00000140416|P09493-9|TPM1 nc|ENSG00000140416|P09493-9|TPM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 890.4135131835938 1 890.410168 889.402892 3.744 0.0033337 -0.46661 -0.00041547 3.2774 0.0029182 890.4100418637393 50.323 0.26132 50.323 50.199 50.461 0 17 11 2 0 0 0 0.038142 1 23079 23079 52.268 14.294 1 585060 + 2658 9670 1991 1995 2824 2824 -0.046233813697654114 DAESFRQRFRW 11 Unmodified _DAESFRQRFRW_ 0 0 0 nc|ENSG00000173258|Q8TF39-2|ZNF483;ENSG00000173258|ENST00000309235|ZNF483 nc|ENSG00000173258|Q8TF39-2|ZNF483 nc|ENSG00000173258|Q8TF39-2|ZNF483 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 749.0433349609375 2 749.370924 1496.72729 NaN NaN NaN NaN NaN NaN NaN 54.393 1 54.393 53.893 54.893 0 0 0 0 0.98464 1 24950 24950 8.1555 5.1603 1 2659 4924 1992 1996 2825 2825 -0.0012001616210000066 DAFLKEPAL 9 Unmodified _DAFLKEPAL_ 0 0 0 ENSG00000092010|ENST00000206451|PSME1;ENST00000561142.5_1_14:24605441-24607359:+|nuORF;nc|ENSG00000092010|Q06323-3|PSME1;nc|ENSG00000092010|Q06323-2|PSME1 ENSG00000092010|ENST00000206451|PSME1 ENSG00000092010|ENST00000206451|PSME1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 502.2778625488281 2 502.276575 1002.5386 2.7114 0.0013619 0.13277 6.6686E-05 2.8442 0.0014286 502.2766662395242 59.87 0.14655 60.62 60.507 60.654 0.74927 25 17 2 0 0 0 0.024161 1 27504 27504 67.838 27.881 1 3003500 2660 1088 1993 1997 2826 2826 0.03742938211712499 DAFLKEPAL 9 Unmodified _DAFLKEPAL_ 0 0 0 ENSG00000092010|ENST00000206451|PSME1;ENST00000561142.5_1_14:24605441-24607359:+|nuORF;nc|ENSG00000092010|Q06323-3|PSME1;nc|ENSG00000092010|Q06323-2|PSME1 ENSG00000092010|ENST00000206451|PSME1 ENSG00000092010|ENST00000206451|PSME1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.2780456542969 2 502.276575 1002.5386 3.2503 0.0016326 0.31479 0.00015811 3.5651 0.0017907 502.27664031186606 60.588 0.26373 60.843 60.744 61.007 0.25578 42 26 2 0 0 0 0.039961 1 27789 27789 63.961 25.785 1 3777800 2661 1088 1993 1997 2827 2827 0.03742938211712499 DAFLKEPAL 9 Unmodified _DAFLKEPAL_ 0 0 0 ENSG00000092010|ENST00000206451|PSME1;ENST00000561142.5_1_14:24605441-24607359:+|nuORF;nc|ENSG00000092010|Q06323-3|PSME1;nc|ENSG00000092010|Q06323-2|PSME1 ENSG00000092010|ENST00000206451|PSME1 ENSG00000092010|ENST00000206451|PSME1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.27777099609375 2 502.276575 1002.5386 NaN NaN NaN NaN NaN NaN NaN 59.993 1 60.658 60.158 61.158 0.66503 0 0 0 0.021513 1 27463 27463 86.332 42.474 1 2662 1088 1993 1997 2828 2828 0.03742938211712499 DAFLRHKM 8 Unmodified _DAFLRHKM_ 0 0 0 ENST00000589104.5_1_19:5070919-5151519:+|nuORF;nc|ENSG00000127663|O94953|KDM4B;ENSG00000127663|ENST00000159111|KDM4B;nc|ENSG00000127663|O94953-2|KDM4B;ENST00000489243.5_1_9:6758133-6893415:+|nuORF;nc|ENSG00000293552|Q9H3R0-3|KDM4C;nc|ENSG00000293552|Q9H3R0-4|KDM4C;nc|ENSG00000293552|Q9H3R0-2|KDM4C;ENSG00000107077|ENST00000381309|KDM4C ENST00000589104.5_1_19:5070919-5151519:+|nuORF;nc|ENSG00000293552|Q9H3R0-3|KDM4C ENST00000589104.5_1_19:5070919-5151519:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.84906005859375 3 339.848133 1016.52257 2.2939 0.00077956 0.66453 0.00022584 2.9584 0.0010054 339.8481997508569 19.619 0.18215 19.911 19.816 19.998 0.29239 21 14 2 0 0 0 0.60592 1 8904 8904 14.838 8.1151 1 331700 2663 2489;1588 1994 1998 2829 2829 0.014969534938245488 DAFLRHKM 8 Unmodified _DAFLRHKM_ 0 0 0 ENST00000589104.5_1_19:5070919-5151519:+|nuORF;nc|ENSG00000127663|O94953|KDM4B;ENSG00000127663|ENST00000159111|KDM4B;nc|ENSG00000127663|O94953-2|KDM4B;ENST00000489243.5_1_9:6758133-6893415:+|nuORF;nc|ENSG00000293552|Q9H3R0-3|KDM4C;nc|ENSG00000293552|Q9H3R0-4|KDM4C;nc|ENSG00000293552|Q9H3R0-2|KDM4C;ENSG00000107077|ENST00000381309|KDM4C ENST00000589104.5_1_19:5070919-5151519:+|nuORF;nc|ENSG00000293552|Q9H3R0-3|KDM4C ENST00000589104.5_1_19:5070919-5151519:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 339.848133 1016.52257 2.4829 0.00084381 0.041324 1.4044E-05 2.5242 0.00085785 339.8480335151339 19.215 0.20699 19.873 19.779 19.986 0.6583 -0.019104 -0.00033451 NaN 14.838 20 14 2 NaN NaN NaN NaN 0 NaN NaN 0 350120 2664 2489;1588 1994 1998 0.014969534938245488 DAFPKRIL 8 Unmodified _DAFPKRIL_ 0 0 0 nc|ENSG00000005801|O14628-4|ZNF195;nc|ENSG00000005801|O14628-7|ZNF195;nc|ENSG00000005801|O14628-5|ZNF195;nc|ENSG00000005801|O14628-6|ZNF195;ENSG00000005801|ENST00000399602|ZNF195 nc|ENSG00000005801|O14628-4|ZNF195 nc|ENSG00000005801|O14628-4|ZNF195 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.28936767578125 2 480.287277 958.560001 NaN NaN NaN NaN NaN NaN NaN 43.268 1 43.916 43.416 44.416 0.64872 0 0 0 0.82924 1 19828 19828 16.942 4.4107 1 2665 333 1995 1999 2830 2830 0.07906368031081001 DAFYKNIV 8 Unmodified _DAFYKNIV_ 0 0 0 nc|ENSG00000145715|P20936-3|RASA1;nc|ENSG00000145715|P20936-2|RASA1;nc|ENSG00000145715|P20936-4|RASA1;RASA1|p.D972Tfs*6|1|0.13|ENSG00000145715|chr5:87386891-87386895|AGATG/-|frameshift_variant;ENSG00000145715|ENST00000274376|RASA1 nc|ENSG00000145715|P20936-3|RASA1 nc|ENSG00000145715|P20936-3|RASA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.25640869140625 2 485.255643 968.496732 2.8471 0.0013816 0.5135 0.00024918 3.3606 0.0016308 485.2557753058939 54.176 0.24372 54.972 54.817 55.061 0.79552 22 13 2 0 0 0 0.19187 1 24716 24716 43.858 14.777 1 344970 2666 3482 1996 2000 2831 2831 0.011223825231809315 DAFYKNIV 8 Unmodified _DAFYKNIV_ 0 0 0 nc|ENSG00000145715|P20936-3|RASA1;nc|ENSG00000145715|P20936-2|RASA1;nc|ENSG00000145715|P20936-4|RASA1;RASA1|p.D972Tfs*6|1|0.13|ENSG00000145715|chr5:87386891-87386895|AGATG/-|frameshift_variant;ENSG00000145715|ENST00000274376|RASA1 nc|ENSG00000145715|P20936-3|RASA1 nc|ENSG00000145715|P20936-3|RASA1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.28717041015625 2 485.255643 968.496732 2.8456 0.0013808 0.38934 0.00018893 3.2349 0.0015698 485.2557173071244 55.22 0.23978 55.486 55.357 55.596 0.26543 22 15 2 0 0 0 0.03602 1 25211 25211 52.268 23.187 1 1701000 2667 3482 1996 2000 2832 2832 0.011223825231809315 DAFYKNIV 8 Unmodified _DAFYKNIV_ 0 0 0 nc|ENSG00000145715|P20936-3|RASA1;nc|ENSG00000145715|P20936-2|RASA1;nc|ENSG00000145715|P20936-4|RASA1;RASA1|p.D972Tfs*6|1|0.13|ENSG00000145715|chr5:87386891-87386895|AGATG/-|frameshift_variant;ENSG00000145715|ENST00000274376|RASA1 nc|ENSG00000145715|P20936-3|RASA1 nc|ENSG00000145715|P20936-3|RASA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2568054199219 2 485.255643 968.496732 NaN NaN NaN NaN NaN NaN NaN 54.442 1 55.109 54.609 55.609 0.6665 0 0 0 0.093988 1 24903 24903 56.177 27.095 1 2668 3482 1996 2000 2833 2833 0.011223825231809315 DAFYKNIV 8 Unmodified _DAFYKNIV_ 0 0 0 nc|ENSG00000145715|P20936-3|RASA1;nc|ENSG00000145715|P20936-2|RASA1;nc|ENSG00000145715|P20936-4|RASA1;RASA1|p.D972Tfs*6|1|0.13|ENSG00000145715|chr5:87386891-87386895|AGATG/-|frameshift_variant;ENSG00000145715|ENST00000274376|RASA1 nc|ENSG00000145715|P20936-3|RASA1 nc|ENSG00000145715|P20936-3|RASA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2572021484375 2 485.255643 968.496732 NaN NaN NaN NaN NaN NaN NaN 54.567 1 55.234 54.734 55.734 0.6665 0 0 0 0.1775 1 24965 24965 43.858 14.777 1 2669 3482 1996 2000 2834 2834 0.011223825231809315 DAGCDPCH 8 Unmodified _DAGCDPCH_ 0 0 0 REV__ENSG00000103326|ENST00000219611|CAPN15 REV__ENSG00000103326|ENST00000219611|CAPN15 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 816.8168334960938 1 817.260349 816.253073 3.3916 0.0027718 3.9113 0.0031965 7.3029 0.0059684 817.2615260029147 107.85 0.089401 107.85 107.83 107.92 0 6 4 2 0 0 0 0.14267 1 59140 59140 0.69038 0.69038 1 471860 + 2670 10964 1997 2001 2835 2835 -0.16240348184851428 DAHIRLWDL 9 Unmodified _DAHIRLWDL_ 0 0 0 ENSG00000140395|ENST00000267973|SKIC8;ENST00000559700.5_1_15:78584919-78588040:-|nuORF ENSG00000140395|ENST00000267973|SKIC8 ENSG00000140395|ENST00000267973|SKIC8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.805908203125 2 569.803823 1137.59309 3.7074 0.0021125 0.28204 0.00016071 3.9894 0.0022732 569.8041367100892 67.397 0.26173 67.647 67.515 67.776 0.2501 27 14 2 0 0 0 0.051645 2 30850 30850;30901 53.317 31.727 1 665450 2671 3196 1998 2002 2836;2837 2836 0.029799500831359182 DAHIRLWDL 9 Unmodified _DAHIRLWDL_ 0 0 0 ENSG00000140395|ENST00000267973|SKIC8;ENST00000559700.5_1_15:78584919-78588040:-|nuORF ENSG00000140395|ENST00000267973|SKIC8 ENSG00000140395|ENST00000267973|SKIC8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.8057250976562 2 569.803823 1137.59309 3.6467 0.0020779 -0.58133 -0.00033124 3.0654 0.0017467 569.8034265562858 66.733 0.25846 67.39 67.263 67.521 0.65672 29 15 2 0 0 0 0.035342 2 30554 30554;30608 59.052 31.829 1 807740 2672 3196 1998 2002 2838;2839 2838 0.029799500831359182 DAHIRLWDL 9 Unmodified _DAHIRLWDL_ 0 0 0 ENSG00000140395|ENST00000267973|SKIC8;ENST00000559700.5_1_15:78584919-78588040:-|nuORF ENSG00000140395|ENST00000267973|SKIC8 ENSG00000140395|ENST00000267973|SKIC8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.5404357910156 3 380.204974 1137.59309 2.7554 0.0010476 -0.44983 -0.00017103 2.3056 0.0008766 380.20520353306625 66.769 0.39902 67.425 67.2 67.599 0.65672 43 23 3 0 0 0 0.70688 1 30577 30577 8.9762 1.4992 1 541520 2673 3196 1998 2002 2840 2840 0.029799500831359182 DAHIRLWDL 9 Unmodified _DAHIRLWDL_ 0 0 0 ENSG00000140395|ENST00000267973|SKIC8;ENST00000559700.5_1_15:78584919-78588040:-|nuORF ENSG00000140395|ENST00000267973|SKIC8 ENSG00000140395|ENST00000267973|SKIC8 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 380.204974 1137.59309 3.0221 0.001149 0.27283 0.00010373 3.2949 0.0012527 380.2052318066368 67.421 0.34164 67.671 67.515 67.856 0.2501 0.12301 0.00039687 NaN 8.9762 30 18 2 NaN NaN NaN NaN 0 NaN NaN 0 564390 2674 3196 1998 2002 0.029799500831359182 DAHLRPTSL 9 Unmodified _DAHLRPTSL_ 0 0 0 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant;ENST00000528882.5_1_11:57067274-57087552:-|nuORF;ENSG00000149115|ENST00000358252|TNKS1BP1 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.27703857421875 2 505.274898 1008.53524 3.3233 0.0016792 0.67537 0.00034125 3.9986 0.0020204 505.2753925367979 27.916 0.22709 27.916 27.801 28.029 0 44 17 3 0 0 0 0.010744 1 12599 12599 87.258 43.486 1 1228000 2675 3627 1999 2003 2841 2841 0.03131688157714052 DAHLRPTSL 9 Unmodified _DAHLRPTSL_ 0 0 0 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant;ENST00000528882.5_1_11:57067274-57087552:-|nuORF;ENSG00000149115|ENST00000358252|TNKS1BP1 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 337.18634033203125 3 337.185691 1008.53524 2.3695 0.00079897 -0.14722 -4.9641E-05 2.2223 0.00074933 337.18553901584755 26.963 0.18581 27.741 27.643 27.828 0.7787 22 13 2 0 0 0 0.10277 1 12101 12101 32.037 12.676 1 819170 2676 3627 1999 2003 2842 2842 0.03131688157714052 DAHLRPTSL 9 Unmodified _DAHLRPTSL_ 0 0 0 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant;ENST00000528882.5_1_11:57067274-57087552:-|nuORF;ENSG00000149115|ENST00000358252|TNKS1BP1 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.2765808105469 2 505.274898 1008.53524 3.1407 0.0015869 0.38541 0.00019474 3.5261 0.0017816 505.2751819238297 26.944 0.19765 27.723 27.643 27.84 0.7787 31 14 3 0 0 0 0.0041939 1 12110 12110 110.79 37.825 1 1610700 2677 3627 1999 2003 2843 2843 0.03131688157714052 DAHLRPTSL 9 Unmodified _DAHLRPTSL_ 0 0 0 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant;ENST00000528882.5_1_11:57067274-57087552:-|nuORF;ENSG00000149115|ENST00000358252|TNKS1BP1 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.2771301269531 2 505.274898 1008.53524 3.1333 0.0015832 0.44555 0.00022512 3.5789 0.0018083 505.27516182944356 27.61 0.30233 27.873 27.709 28.012 0.26245 49 22 3 0 0 0 0.0013716 2 12557 12511;12557 125.04 52.07 1 3497600 2678 3627 1999 2003 2844;2845 2845 0.03131688157714052 DAHLRPTSL 9 Unmodified _DAHLRPTSL_ 0 0 0 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant;ENST00000528882.5_1_11:57067274-57087552:-|nuORF;ENSG00000149115|ENST00000358252|TNKS1BP1 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.1866760253906 3 337.185691 1008.53524 2.3473 0.00079147 0.39713 0.00013391 2.7444 0.00092537 337.1858555793023 27.6 0.26613 27.863 27.732 27.998 0.26245 44 19 3 0 0 0 0.082627 1 12517 12517 37.075 11.054 1 2282600 2679 3627 1999 2003 2846 2846 0.03131688157714052 DAHLRPTSL 9 Unmodified _DAHLRPTSL_ 0 0 0 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant;ENST00000528882.5_1_11:57067274-57087552:-|nuORF;ENSG00000149115|ENST00000358252|TNKS1BP1 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.2767028808594 2 505.274898 1008.53524 3.1495 0.0015914 0.41149 0.00020792 3.561 0.0017993 505.27515962765597 27.186 0.29792 27.808 27.645 27.943 0.62179 54 17 4 0 0 0 0.00076775 2 12465 12414;12465 151.48 58.827 1 3846800 2680 3627 1999 2003 2847;2848 2848 0.03131688157714052 DAHLRPTSL 9 Unmodified _DAHLRPTSL_ 0 0 0 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant;ENST00000528882.5_1_11:57067274-57087552:-|nuORF;ENSG00000149115|ENST00000358252|TNKS1BP1 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 337.1865539550781 3 337.185691 1008.53524 2.2158 0.00074714 0.53795 0.00018139 2.7538 0.00092853 337.18588140888346 27.176 0.27779 27.798 27.665 27.943 0.62179 40 15 3 0 0 0 0.29024 1 12487 12487 17.443 7.2921 1 2183200 2681 3627 1999 2003 2849 2849 0.03131688157714052 DAHLRPTSL 9 Unmodified _DAHLRPTSL_ 0 0 0 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant;ENST00000528882.5_1_11:57067274-57087552:-|nuORF;ENSG00000149115|ENST00000358252|TNKS1BP1 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 337.185691 1008.53524 2.5825 0.00087077 0.18423 6.2118E-05 2.7667 0.00093289 337.18583382824715 27.915 0.21415 27.915 27.801 28.016 0 0.085944 -5.0365E-05 NaN 37.075 37 16 3 NaN NaN NaN NaN 0 NaN NaN 0 831590 2682 3627 1999 2003 0.03131688157714052 DAHPETIVL 9 Unmodified _DAHPETIVL_ 0 0 0 nc|ENSG00000100605|Q13572-2|ITPK1;ENSG00000100605|ENST00000267615|ITPK1 nc|ENSG00000100605|Q13572-2|ITPK1 nc|ENSG00000100605|Q13572-2|ITPK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 497.7658386230469 2 497.763832 993.513111 2.4755 0.0012322 1.1126 0.0005538 3.5881 0.001786 497.7641928587315 51.613 0.2489 52.425 52.292 52.541 0.81131 24 13 2 0 0 0 0.10584 1 23482 23482 42.095 18.946 1 494140 2683 1231 2000 2004 2850 2850 0.01609463689283075 DAHPETIVL 9 Unmodified _DAHPETIVL_ 0 0 0 nc|ENSG00000100605|Q13572-2|ITPK1;ENSG00000100605|ENST00000267615|ITPK1 nc|ENSG00000100605|Q13572-2|ITPK1 nc|ENSG00000100605|Q13572-2|ITPK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.7655944824219 2 497.763832 993.513111 3.2003 0.001593 0.50899 0.00025336 3.7093 0.0018464 497.7640548894931 52.269 0.21869 52.531 52.454 52.673 0.26228 23 13 2 0 0 0 0.078225 1 23928 23928 50.855 20.63 1 1001500 2684 1231 2000 2004 2851 2851 0.01609463689283075 DAHPETIVL 9 Unmodified _DAHPETIVL_ 0 0 0 nc|ENSG00000100605|Q13572-2|ITPK1;ENSG00000100605|ENST00000267615|ITPK1 nc|ENSG00000100605|Q13572-2|ITPK1 nc|ENSG00000100605|Q13572-2|ITPK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.7655944824219 2 497.763832 993.513111 3.0387 0.0015125 0.77802 0.00038727 3.8167 0.0018998 497.76421767924614 51.758 0.30136 52.42 52.199 52.501 0.66198 27 16 2 0 0 0 0.078225 1 23639 23639 50.855 20.63 1 1309200 2685 1231 2000 2004 2852 2852 0.01609463689283075 DAHPETIVL 9 Unmodified _DAHPETIVL_ 0 0 0 nc|ENSG00000100605|Q13572-2|ITPK1;ENSG00000100605|ENST00000267615|ITPK1 nc|ENSG00000100605|Q13572-2|ITPK1 nc|ENSG00000100605|Q13572-2|ITPK1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 497.763832 993.513111 2.9671 0.0014769 0.38476 0.00019152 3.3518 0.0016684 497.7640497681616 52.555 0.28499 52.555 52.421 52.706 0 0.072647 -0.00032349 NaN 50.855 41 27 2 NaN NaN NaN NaN 0 NaN NaN 0 819090 2686 1231 2000 2004 0.01609463689283075 DAHPSVPR 8 Unmodified _DAHPSVPR_ 0 0 0 ENST00000269389.7_1_17:80279290-80279587:-|nuORF ENST00000269389.7_1_17:80279290-80279587:-|nuORF ENST00000269389.7_1_17:80279290-80279587:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 439.7292175292969 2 439.727584 877.440614 2.7807 0.0012227 0.39653 0.00017436 3.1772 0.0013971 439.72782203485036 27.611 0.22442 27.874 27.746 27.97 0.26245 20 16 2 0 0 0 0.3435 1 12537 12537 32.305 3.8186 1 715120 2687 6644 2001 2005 2853 2853 -0.003008255936151727 DAHPSVPR 8 Unmodified _DAHPSVPR_ 0 0 0 ENST00000269389.7_1_17:80279290-80279587:-|nuORF ENST00000269389.7_1_17:80279290-80279587:-|nuORF ENST00000269389.7_1_17:80279290-80279587:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 439.72857666015625 2 439.727584 877.440614 2.9712 0.0013065 -0.11688 -5.1394E-05 2.8543 0.0012551 439.7274390143977 27.175 0.20263 27.797 27.706 27.908 0.62179 18 10 2 0 0 0 0.3435 1 12462 12462 32.305 3.8186 1 456310 2688 6644 2001 2005 2854 2854 -0.003008255936151727 DAHPSVPR 8 Unmodified _DAHPSVPR_ 0 0 0 ENST00000269389.7_1_17:80279290-80279587:-|nuORF ENST00000269389.7_1_17:80279290-80279587:-|nuORF ENST00000269389.7_1_17:80279290-80279587:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 439.727584 877.440614 3.1379 0.0013798 -0.53148 -0.00023371 2.6064 0.0011461 439.7275899950327 27.916 0.13968 27.916 27.837 27.977 0 0.054088 -0.00048456 NaN 32.305 16 11 2 NaN NaN NaN NaN 0 NaN NaN 0 201990 2689 6644 2001 2005 -0.003008255936151727 DAHRRIML 8 Unmodified _DAHRRIML_ 0 0 0 nc|ENSG00000205981|Q96DA6-2|DNAJC19;ENSG00000205981|ENST00000382564|DNAJC19;ENST00000478723.5_1_3:180703708-180707489:-|nuORF nc|ENSG00000205981|Q96DA6-2|DNAJC19 nc|ENSG00000205981|Q96DA6-2|DNAJC19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 337.856201171875 3 337.855399 1010.54437 2.4464 0.00082652 -0.28817 -9.736E-05 2.1582 0.00072916 337.8555171116141 21.287 0.22299 21.287 21.17 21.393 0 34 20 3 0 0 0 0.61796 1 9523 9523 13.906 6.2971 1 311880 2690 6065 2002 2006 2855 2855 0.03951758242385495 DAHTRNLL 8 Unmodified _DAHTRNLL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000515433.1_1_5:135385061-135390565:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.2549133300781 2 470.253966 938.493378 NaN NaN NaN NaN NaN NaN NaN 22.763 1 23.403 22.903 23.903 0.64051 0 0 0 0.22495 1 10372 10372 78.149 32.128 1 2691 2210 2003 2007 2856 2856 0.021671324691851623 DAIAELDTL 9 Unmodified _DAIAELDTL_ 0 0 0 ENSG00000128245|ENST00000248975|YWHAH;ENSG00000170027|ENST00000307630|YWHAG;ENST00000397492.1_1_22:32346295-32352776:+|nuORF;nc|ENSG00000108953|P62258-2|YWHAE;ENSG00000108953|ENST00000264335|YWHAE ENSG00000128245|ENST00000248975|YWHAH ENSG00000128245|ENST00000248975|YWHAH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.74957275390625 2 480.747847 959.481142 2.8634 0.0013766 -0.0054277 -2.6093E-06 2.858 0.001374 480.74775121411864 76.416 0.49315 76.671 76.484 76.977 0.25533 65 35 3 0 0 0 0.14729 2 35140 35140;35234 26.884 5.137 1 1275400 2692 2503 2004 2008 2857;2858 2857 -0.00021948784524283838 DAIAELDTL 9 Unmodified _DAIAELDTL_ 0 0 0 ENSG00000128245|ENST00000248975|YWHAH;ENSG00000170027|ENST00000307630|YWHAG;ENST00000397492.1_1_22:32346295-32352776:+|nuORF;nc|ENSG00000108953|P62258-2|YWHAE;ENSG00000108953|ENST00000264335|YWHAE ENSG00000128245|ENST00000248975|YWHAH ENSG00000128245|ENST00000248975|YWHAH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 960.4917602539062 1 960.488418 959.481142 3.4347 0.003299 0.20548 0.00019736 3.6402 0.0034964 960.4884883003168 75.999 0.22373 76.663 76.587 76.81 0.66387 32 19 2 0 0 0 0.09451 1 35020 35020 34.102 5.6156 1 713850 2693 2503 2004 2008 2859 2859 -0.00021948784524283838 DAIRDAEIL 9 Unmodified _DAIRDAEIL_ 0 0 0 ENSG00000138279|ENST00000372921|ANXA7;nc|ENSG00000138279|P20073|ANXA7 ENSG00000138279|ENST00000372921|ANXA7 ENSG00000138279|ENST00000372921|ANXA7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.275634765625 2 508.274564 1014.53457 3.3285 0.0016918 0.61067 0.00031039 3.9392 0.0020022 508.27485849369265 53.343 0.23346 53.343 53.183 53.417 0 33 16 3 0 0 0 0.053359 1 24413 24413 45.74 11.338 1 1013200 2694 3084 2005 2009 2860 2860 0.027888487179893673 DAIRDAEIL 9 Unmodified _DAIRDAEIL_ 0 0 0 ENSG00000138279|ENST00000372921|ANXA7;nc|ENSG00000138279|P20073|ANXA7 ENSG00000138279|ENST00000372921|ANXA7 ENSG00000138279|ENST00000372921|ANXA7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.2757263183594 2 508.274564 1014.53457 3.3991 0.0017277 -0.33024 -0.00016785 3.0688 0.0015598 508.27440246256555 53.043 0.24695 53.307 53.137 53.384 0.26345 31 18 2 0 0 0 0.035495 2 24256 24209;24256 53.404 10.986 1 1557300 2695 3084 2005 2009 2861;2862 2862 0.027888487179893673 DAIRDAEIL 9 Unmodified _DAIRDAEIL_ 0 0 0 ENSG00000138279|ENST00000372921|ANXA7;nc|ENSG00000138279|P20073|ANXA7 ENSG00000138279|ENST00000372921|ANXA7 ENSG00000138279|ENST00000372921|ANXA7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.2767028808594 2 508.274564 1014.53457 3.1212 0.0015864 0.015256 7.7543E-06 3.1364 0.0015942 508.2747068824944 52.6 0.26868 53.261 53.099 53.368 0.66198 23 14 2 0 0 0 0.025135 2 24032 24032;24076 61.602 11.669 1 1942700 2696 3084 2005 2009 2863;2864 2863 0.027888487179893673 DAIRDAEIL 9 Unmodified _DAIRDAEIL_ 0 0 0 ENSG00000138279|ENST00000372921|ANXA7;nc|ENSG00000138279|P20073|ANXA7 ENSG00000138279|ENST00000372921|ANXA7 ENSG00000138279|ENST00000372921|ANXA7 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 508.274564 1014.53457 2.7503 0.0013979 0.57958 0.00029458 3.3298 0.0016925 508.2747002994814 52.322 0.24524 53.133 52.997 53.242 0.81065 -0.12808 0.00031226 NaN 61.602 43 18 3 NaN NaN NaN NaN 0 NaN NaN 0 1241800 2697 3084 2005 2009 0.027888487179893673 DAKARPAS 8 Unmodified _DAKARPAS_ 0 0 0 ENST00000527765.1_1_11:64896153-64897501:-|nuORF ENST00000527765.1_1_11:64896153-64897501:-|nuORF ENST00000527765.1_1_11:64896153-64897501:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 408.22381591796875 2 408.222134 814.429715 NaN NaN NaN NaN NaN NaN NaN 19.768 1 19.768 19.268 20.268 0 0 0 0 0.76538 1 8825 8825 20.454 3.5113 1 2698 8685 2006 2010 2865 2865 0.015077720320959997 DAKARPAS 8 Unmodified _DAKARPAS_ 0 0 0 ENST00000527765.1_1_11:64896153-64897501:-|nuORF ENST00000527765.1_1_11:64896153-64897501:-|nuORF ENST00000527765.1_1_11:64896153-64897501:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 408.2232360839844 2 408.222134 814.429715 NaN NaN NaN NaN NaN NaN NaN 19.298 1 19.596 19.096 20.096 0.29753 0 0 0 0.76538 1 8775 8775 20.454 2.3186 1 2699 8685 2006 2010 2866 2866 0.015077720320959997 DAKARPAS 8 Unmodified _DAKARPAS_ 0 0 0 ENST00000527765.1_1_11:64896153-64897501:-|nuORF ENST00000527765.1_1_11:64896153-64897501:-|nuORF ENST00000527765.1_1_11:64896153-64897501:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 408.2236022949219 2 408.222134 814.429715 3.0697 0.0012531 0.48713 0.00019886 3.5568 0.001452 408.2223118864556 18.907 0.15669 19.568 19.503 19.66 0.66072 18 12 2 0 0 0 0.51067 1 8584 8584 20.454 0 1 341040 2700 8685 2006 2010 2867 2867 0.015077720320959997 DAKGRIVL 8 Unmodified _DAKGRIVL_ 0 0 0 ENSG00000106546|ENST00000242057|AHR;AHR|p.Q667Pfs*7|1|0.3|ENSG00000106546|chr7:17339823-17339824|-/C|frameshift_variant ENSG00000106546|ENST00000242057|AHR ENSG00000106546|ENST00000242057|AHR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 436.2730407714844 2 436.271627 870.528701 2.8218 0.0012311 0.39417 0.00017196 3.2159 0.001403 436.2718357885991 28.551 0.23169 28.811 28.683 28.915 0.2602 20 14 2 0 0 0 0.11358 1 12979 12979 52.268 18.166 1 365340 2701 1576 2007 2011 2868 2868 0.0882579499698295 DAKGRIVL 8 Unmodified _DAKGRIVL_ 0 0 0 ENSG00000106546|ENST00000242057|AHR;AHR|p.Q667Pfs*7|1|0.3|ENSG00000106546|chr7:17339823-17339824|-/C|frameshift_variant ENSG00000106546|ENST00000242057|AHR ENSG00000106546|ENST00000242057|AHR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 436.2733154296875 2 436.271627 870.528701 3.0051 0.001311 0.39321 0.00017154 3.3983 0.0014826 436.27163123331303 28.114 0.26539 28.733 28.614 28.88 0.61947 32 17 3 0 0 0 0.29142 2 12880 12880;12925 36.127 9.7029 1 333590 2702 1576 2007 2011 2869;2870 2869 0.0882579499698295 DAKGRTVSL 9 Unmodified _DAKGRTVSL_ 0 0 0 ENSG00000164294|ENST00000503787|GPX8;ENST00000511617.5_1_5:54456173-54456882:+|nuORF;ENST00000505096.1_1_5:54456173-54456239:+|nuORF ENSG00000164294|ENST00000503787|GPX8 ENSG00000164294|ENST00000503787|GPX8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.7713928222656 2 473.769448 945.524344 2.9845 0.001414 0.011622 5.5062E-06 2.9962 0.0014195 473.7694802655929 19.747 0.19516 19.747 19.652 19.848 0 38 15 3 0 0 0 0.0057865 2 8790 8790;8832 90.135 31.456 1 2312400 2703 4301 2008 2012 2871;2872 2871 0.049402857834252245 DAKGRTVSL 9 Unmodified _DAKGRTVSL_ 0 0 0 ENSG00000164294|ENST00000503787|GPX8;ENST00000511617.5_1_5:54456173-54456882:+|nuORF;ENST00000505096.1_1_5:54456173-54456239:+|nuORF ENSG00000164294|ENST00000503787|GPX8 ENSG00000164294|ENST00000503787|GPX8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.7708740234375 2 473.769448 945.524344 2.7993 0.0013262 0.10718 5.0779E-05 2.9065 0.001377 473.76949811601634 19.298 0.20428 19.595 19.501 19.706 0.29753 51 20 3 0 0 0 0.001731 2 8797 8753;8797 106.94 41.705 1 3005000 2704 4301 2008 2012 2873;2874 2874 0.049402857834252245 DAKGRTVSL 9 Unmodified _DAKGRTVSL_ 0 0 0 ENSG00000164294|ENST00000503787|GPX8;ENST00000511617.5_1_5:54456173-54456882:+|nuORF;ENST00000505096.1_1_5:54456173-54456239:+|nuORF ENSG00000164294|ENST00000503787|GPX8 ENSG00000164294|ENST00000503787|GPX8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 316.18304443359375 3 316.182058 945.524344 2.1173 0.00066944 0.68569 0.0002168 2.803 0.00088624 316.18236550287327 19.286 0.19494 19.584 19.511 19.706 0.29753 27 19 2 0 0 0 0.11458 1 8784 8784 27.223 10.11 1 1043900 2705 4301 2008 2012 2875 2875 0.049402857834252245 DAKGRTVSL 9 Unmodified _DAKGRTVSL_ 0 0 0 ENSG00000164294|ENST00000503787|GPX8;ENST00000511617.5_1_5:54456173-54456882:+|nuORF;ENST00000505096.1_1_5:54456173-54456239:+|nuORF ENSG00000164294|ENST00000503787|GPX8 ENSG00000164294|ENST00000503787|GPX8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.7711486816406 2 473.769448 945.524344 3.1353 0.0014854 0.34477 0.00016334 3.4801 0.0016488 473.7695617090447 18.929 0.26791 19.589 19.443 19.711 0.66072 50 20 3 0 0 0 0.0013314 2 8594 8549;8594 118.07 52.833 1 4045000 2706 4301 2008 2012 2876;2877 2877 0.049402857834252245 DAKGRTVSL 9 Unmodified _DAKGRTVSL_ 0 0 0 ENSG00000164294|ENST00000503787|GPX8;ENST00000511617.5_1_5:54456173-54456882:+|nuORF;ENST00000505096.1_1_5:54456173-54456239:+|nuORF ENSG00000164294|ENST00000503787|GPX8 ENSG00000164294|ENST00000503787|GPX8 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 316.182058 945.524344 2.1569 0.00068197 0.97246 0.00030748 3.1294 0.00098945 316.18250155926836 19.738 0.12863 19.738 19.679 19.808 0 0.10238 0.00011827 NaN 27.223 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 1073000 2707 4301 2008 2012 0.049402857834252245 DAKGRTVSL 9 Unmodified _DAKGRTVSL_ 0 0 0 ENSG00000164294|ENST00000503787|GPX8;ENST00000511617.5_1_5:54456173-54456882:+|nuORF;ENST00000505096.1_1_5:54456173-54456239:+|nuORF ENSG00000164294|ENST00000503787|GPX8 ENSG00000164294|ENST00000503787|GPX8 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 316.182058 945.524344 2.2418 0.00070882 1.1668 0.00036891 3.4086 0.0010777 316.1825793343166 18.925 0.19366 19.585 19.478 19.671 0.66072 -0.050446 0.00030257 NaN 27.223 34 15 3 NaN NaN NaN NaN 0 NaN NaN 0 1023000 2708 4301 2008 2012 0.049402857834252245 DAKHKYLI 8 Unmodified _DAKHKYLI_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 329.8594970703125 3 329.858915 986.554916 1.8868 0.00062239 -0.55276 -0.00018233 1.3341 0.00044005 329.85877462905114 21.531 0.20858 21.937 21.828 22.037 0.40533 72 39 2 0 0 0 0.26626 2 9518 9518;9561 38.176 15.439 1 9883900 2709 5547 2009 2013 2878;2879 2878 0.0611006416845612 DAKHKYLI 8 Unmodified _DAKHKYLI_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 329.8595886230469 3 329.858915 986.554916 2.3416 0.00077239 -0.070022 -2.3097E-05 2.2716 0.0007493 329.85886784857274 22.025 0.33371 22.306 22.132 22.466 0.28085 159 72 3 0 0 0 0.26626 4 9893 9893;9932;9972;10014 38.176 15.439 1 13682000 2710 5547 2009 2013 2880;2881;2882;2883 2880 0.0611006416845612 DAKHKYLI 8 Unmodified _DAKHKYLI_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.28692626953125 2 494.284734 986.554916 NaN NaN NaN NaN NaN NaN NaN 21.968 1 22.249 21.749 22.749 0.28085 0 0 0 0.23597 1 9933 9933 71.922 30.083 1 2711 5547 2009 2013 2884 2884 0.0611006416845612 DAKHKYLI 8 Unmodified _DAKHKYLI_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.2862243652344 2 494.284734 986.554916 NaN NaN NaN NaN NaN NaN NaN 22.094 1 22.375 21.875 22.875 0.28085 0 0 0 0.23597 1 9990 9990 71.922 30.083 1 2712 5547 2009 2013 2885 2885 0.0611006416845612 DAKHKYLI 8 Unmodified _DAKHKYLI_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 329.85992431640625 3 329.858915 986.554916 2.3164 0.00076407 0.011166 3.6832E-06 2.3275 0.00076776 329.85888890280523 21.642 0.24025 22.29 22.163 22.403 0.64714 86 50 2 0 0 0 0.26626 3 9817 9780;9817;9873 38.176 15.439 1 20170000 2713 5547 2009 2013 2886;2887;2888 2887 0.0611006416845612 DAKHKYLI 8 Unmodified _DAKHKYLI_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.2857666015625 2 494.284734 986.554916 3.2679 0.0016152 -0.45576 -0.00022528 2.8121 0.00139 494.284394054208 21.603 0.16225 22.25 22.201 22.363 0.64714 45 35 2 0 0 0 0.0086598 2 9839 9800;9839 115.69 51.456 1 7199900 2714 5547 2009 2013 2889;2890 2890 0.0611006416845612 DAKIRIFDL 9 Unmodified _DAKIRIFDL_ 0 0 0 ENST00000482732.1_1_X:153627802-153628024:+|nuORF;ENST00000489200.5_1_X:153627802-153628283:+|nuORF;ENST00000491035.5_1_X:153626749-153628283:+|nuORF;ENST00000467168.5_1_X:153626860-153629039:+|nuORF;ENSG00000165496|ENST00000298283|RPL10L;ENSG00000147403|ENST00000369817|RPL10 ENST00000482732.1_1_X:153627802-153628024:+|nuORF ENST00000482732.1_1_X:153627802-153628024:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.8179321289062 2 545.816399 1089.61824 3.0789 0.0016805 0.041298 2.2541E-05 3.1202 0.0017031 545.8164755072899 66.682 0.30341 66.682 66.574 66.878 0 118 39 4 0 0 0 0.0017868 2 31928 31876;31928 114.5 60.712 1 13409000 2715 3561 2010 2014 2891;2892 2892 0.07702004885709357 DAKIRIFDL 9 Unmodified _DAKIRIFDL_ 0 0 0 ENST00000482732.1_1_X:153627802-153628024:+|nuORF;ENST00000489200.5_1_X:153627802-153628283:+|nuORF;ENST00000491035.5_1_X:153626749-153628283:+|nuORF;ENST00000467168.5_1_X:153626860-153629039:+|nuORF;ENSG00000165496|ENST00000298283|RPL10L;ENSG00000147403|ENST00000369817|RPL10 ENST00000482732.1_1_X:153627802-153628024:+|nuORF ENST00000482732.1_1_X:153627802-153628024:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 364.2140808105469 3 364.213358 1089.61824 2.1138 0.00076986 -0.0036561 -1.3316E-06 2.1101 0.00076853 364.2133457329 66.691 0.29533 66.691 66.574 66.87 0 92 38 3 0 0 0 0.2095 1 31882 31882 22.775 5.3323 1 4652000 2716 3561 2010 2014 2893 2893 0.07702004885709357 DAKIRIFDL 9 Unmodified _DAKIRIFDL_ 0 0 0 ENST00000482732.1_1_X:153627802-153628024:+|nuORF;ENST00000489200.5_1_X:153627802-153628283:+|nuORF;ENST00000491035.5_1_X:153626749-153628283:+|nuORF;ENST00000467168.5_1_X:153626860-153629039:+|nuORF;ENSG00000165496|ENST00000298283|RPL10L;ENSG00000147403|ENST00000369817|RPL10 ENST00000482732.1_1_X:153627802-153628024:+|nuORF ENST00000482732.1_1_X:153627802-153628024:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 364.2138977050781 3 364.213358 1089.61824 1.7617 0.00064162 -0.13211 -4.8116E-05 1.6296 0.00059351 364.2132948075051 65.623 0.32433 66.332 66.153 66.478 0.7089 78 34 3 0 0 0 0.094033 1 31013 31013 34.222 6.9985 1 4956500 2717 3561 2010 2014 2894 2894 0.07702004885709357 DAKIRIFDL 9 Unmodified _DAKIRIFDL_ 0 0 0 ENST00000482732.1_1_X:153627802-153628024:+|nuORF;ENST00000489200.5_1_X:153627802-153628283:+|nuORF;ENST00000491035.5_1_X:153626749-153628283:+|nuORF;ENST00000467168.5_1_X:153626860-153629039:+|nuORF;ENSG00000165496|ENST00000298283|RPL10L;ENSG00000147403|ENST00000369817|RPL10 ENST00000482732.1_1_X:153627802-153628024:+|nuORF ENST00000482732.1_1_X:153627802-153628024:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.817626953125 2 545.816399 1089.61824 2.5463 0.0013898 -0.1314 -7.1723E-05 2.4149 0.0013181 545.816327457591 65.587 0.31226 66.296 66.165 66.478 0.70891 86 33 4 0 0 0 0.0010583 2 31022 31022;31071 135.86 49.532 1 14004000 2718 3561 2010 2014 2895;2896 2895 0.07702004885709357 DAKIRIFDL 9 Unmodified _DAKIRIFDL_ 0 0 0 ENST00000482732.1_1_X:153627802-153628024:+|nuORF;ENST00000489200.5_1_X:153627802-153628283:+|nuORF;ENST00000491035.5_1_X:153626749-153628283:+|nuORF;ENST00000467168.5_1_X:153626860-153629039:+|nuORF;ENSG00000165496|ENST00000298283|RPL10L;ENSG00000147403|ENST00000369817|RPL10 ENST00000482732.1_1_X:153627802-153628024:+|nuORF ENST00000482732.1_1_X:153627802-153628024:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.8185424804688 2 545.816399 1089.61824 3.7196 0.0020302 -0.30452 -0.00016621 3.4151 0.001864 545.8163287120287 66.428 0.43169 66.677 66.512 66.944 0.24847 87 23 5 0 0 0 1.0159E-21 4 30424 30378;30424;30470;30516 220.1 109.55 1 37814000 2719 3561 2010 2014 2897;2898;2899;2900 2898 0.07702004885709357 DAKIRIFDL 9 Unmodified _DAKIRIFDL_ 0 0 0 ENST00000482732.1_1_X:153627802-153628024:+|nuORF;ENST00000489200.5_1_X:153627802-153628283:+|nuORF;ENST00000491035.5_1_X:153626749-153628283:+|nuORF;ENST00000467168.5_1_X:153626860-153629039:+|nuORF;ENSG00000165496|ENST00000298283|RPL10L;ENSG00000147403|ENST00000369817|RPL10 ENST00000482732.1_1_X:153627802-153628024:+|nuORF ENST00000482732.1_1_X:153627802-153628024:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 364.21453857421875 3 364.213358 1089.61824 2.8057 0.0010219 -0.13182 -4.8009E-05 2.6739 0.00097387 364.21332846079235 66.454 0.44331 66.702 66.512 66.956 0.24848 77 24 5 0 0 0 0.056501 3 30405 30405;30447;30496 44.392 7.3173 1 14779000 2720 3561 2010 2014 2901;2902;2903 2901 0.07702004885709357 DAKIRIFDL 9 Unmodified _DAKIRIFDL_ 0 0 0 ENST00000482732.1_1_X:153627802-153628024:+|nuORF;ENST00000489200.5_1_X:153627802-153628283:+|nuORF;ENST00000491035.5_1_X:153626749-153628283:+|nuORF;ENST00000467168.5_1_X:153626860-153629039:+|nuORF;ENSG00000165496|ENST00000298283|RPL10L;ENSG00000147403|ENST00000369817|RPL10 ENST00000482732.1_1_X:153627802-153628024:+|nuORF ENST00000482732.1_1_X:153627802-153628024:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.8184814453125 2 545.816399 1089.61824 3.6324 0.0019826 -0.076146 -4.1562E-05 3.5563 0.0019411 545.8164309258776 65.798 0.46273 66.455 66.29 66.753 0.65672 100 27 5 0 0 0 1.0159E-21 4 30215 30122;30169;30215;30271 220.1 108.44 1 44516000 2721 3561 2010 2014 2904;2905;2906;2907 2906 0.07702004885709357 DAKIRIFDL 9 Unmodified _DAKIRIFDL_ 0 0 0 ENST00000482732.1_1_X:153627802-153628024:+|nuORF;ENST00000489200.5_1_X:153627802-153628283:+|nuORF;ENST00000491035.5_1_X:153626749-153628283:+|nuORF;ENST00000467168.5_1_X:153626860-153629039:+|nuORF;ENSG00000165496|ENST00000298283|RPL10L;ENSG00000147403|ENST00000369817|RPL10 ENST00000482732.1_1_X:153627802-153628024:+|nuORF ENST00000482732.1_1_X:153627802-153628024:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.2142028808594 3 364.213358 1089.61824 2.671 0.00097281 0.11651 4.2435E-05 2.7875 0.0010152 364.21341045432195 65.817 0.48168 66.474 66.256 66.737 0.65672 84 28 4 0 0 0 0.039961 3 30171 30125;30171;30221 51.488 12.275 1 14027000 2722 3561 2010 2014 2908;2909;2910 2909 0.07702004885709357 DAKKRINL 8 Unmodified _DAKKRINL_ 0 0 0 ENSG00000273749|ENST00000617928|CYFIP1;ENSG00000055163|ENST00000620254|CYFIP2;nc|ENSG00000055163|Q96F07|CYFIP2 ENSG00000273749|ENST00000617928|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 319.86639404296875 3 319.866181 956.576714 2.1733 0.00069518 -0.71403 -0.0002284 1.4593 0.00046679 319.8659751357654 13.537 0.18201 13.537 13.436 13.618 0 52 31 2 0 0 0 0.15565 1 5889 5889 47.749 3.8904 1 6381300 2723 6340 2011 2015 2911 2911 0.09668868917015061 DAKKRINL 8 Unmodified _DAKKRINL_ 0 0 0 ENSG00000273749|ENST00000617928|CYFIP1;ENSG00000055163|ENST00000620254|CYFIP2;nc|ENSG00000055163|Q96F07|CYFIP2 ENSG00000273749|ENST00000617928|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.2970886230469 2 479.295633 956.576714 2.6731 0.0012812 -0.17025 -8.1601E-05 2.5029 0.0011996 479.2954230091417 12.965 0.14022 13.208 13.139 13.279 0.24346 19 11 2 0 0 0 0.035125 1 5638 5638 74.929 0.50624 1 1376900 2724 6340 2011 2015 2912 2912 0.09668868917015061 DAKKRINL 8 Unmodified _DAKKRINL_ 0 0 0 ENSG00000273749|ENST00000617928|CYFIP1;ENSG00000055163|ENST00000620254|CYFIP2;nc|ENSG00000055163|Q96F07|CYFIP2 ENSG00000273749|ENST00000617928|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.2972106933594 2 479.295633 956.576714 NaN NaN NaN NaN NaN NaN NaN 12.892 1 13.199 12.699 13.699 0.30727 0 0 0 0.15587 1 5816 5816 88.954 10.804 1 2725 6340 2011 2015 2913 2913 0.09668868917015061 DAKKRINL 8 Unmodified _DAKKRINL_ 0 0 0 ENSG00000273749|ENST00000617928|CYFIP1;ENSG00000055163|ENST00000620254|CYFIP2;nc|ENSG00000055163|Q96F07|CYFIP2 ENSG00000273749|ENST00000617928|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.297119140625 2 479.295633 956.576714 3.386 0.0016229 0.16582 7.9476E-05 3.5518 0.0017024 479.29572244728473 12.753 0.13525 13.396 13.311 13.446 0.64272 6 3 2 0 0 0 0.0092948 1 5730 5730 111.29 10.916 1 3022000 2726 6340 2011 2015 2914 2914 0.09668868917015061 DAKLRLEV 8 Unmodified _DAKLRLEV_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000105357|Q7Z406|MYH14;nc|ENSG00000105357|Q7Z406-6|MYH14;ENSG00000105357|ENST00000642316|MYH14;nc|ENSG00000133026|P35580|MYH10;nc|ENSG00000133026|P35580-5|MYH10;nc|ENSG00000133026|P35580-2|MYH10;nc|ENSG00000133026|P35580-3|MYH10;ENSG00000133026|ENST00000360416|MYH10 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000133026|P35580|MYH10 ENSG00000100345|ENST00000216181|MYH9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.283447265625 2 472.282192 942.549831 NaN NaN NaN NaN NaN NaN NaN 41.949 1 41.949 41.449 42.449 0 0 0 0 0.10484 1 19090 19090 53.404 7.7044 1 2727 1207;2759;1487;2742 2012 2016 2915 2915 0.0762576030585933 DAKQKWLL 8 Unmodified _DAKQKWLL_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC;CLTC|p.N1492Kfs*34|1|0.12|ENSG00000141367|chr17:59685097-59685097|T/-|frameshift_variant;CLTC|p.V305Cfs*6|1|0.38|ENSG00000141367|chr17:59655965-59655966|-/T|frameshift_variant nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.2944030761719 2 501.292559 1000.57057 2.9108 0.0014592 0.27196 0.00013633 3.1828 0.0015955 501.29270840668386 47.823 0.26915 47.823 47.725 47.994 0 31 13 3 0 0 0 3.1694E-18 2 21894 21894;21960 180.01 82.935 1 3087600 2728 3246 2013 2017 2916;2917 2916 0.07030350685522535 DAKQKWLL 8 Unmodified _DAKQKWLL_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC;CLTC|p.N1492Kfs*34|1|0.12|ENSG00000141367|chr17:59685097-59685097|T/-|frameshift_variant;CLTC|p.V305Cfs*6|1|0.38|ENSG00000141367|chr17:59655965-59655966|-/T|frameshift_variant nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.5315856933594 3 334.530798 1000.57057 2.1631 0.00072364 0.086417 2.8909E-05 2.2496 0.00075254 334.53077116141645 47.828 0.26915 47.828 47.725 47.994 0 26 13 3 0 0 0 0.58952 1 21923 21923 11.495 1.4208 1 1299700 2729 3246 2013 2017 2918 2918 0.07030350685522535 DAKQKWLL 8 Unmodified _DAKQKWLL_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC;CLTC|p.N1492Kfs*34|1|0.12|ENSG00000141367|chr17:59685097-59685097|T/-|frameshift_variant;CLTC|p.V305Cfs*6|1|0.38|ENSG00000141367|chr17:59655965-59655966|-/T|frameshift_variant nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.2940673828125 2 501.292559 1000.57057 2.9532 0.0014804 -0.34468 -0.00017279 2.6085 0.0013076 501.2923637439928 46.646 0.25158 47.475 47.394 47.646 0.82915 50 20 3 0 0 0 6.6473E-12 3 21268 21220;21268;21326 172.91 84.003 1 3105800 2730 3246 2013 2017 2919;2920;2921 2920 0.07030350685522535 DAKQKWLL 8 Unmodified _DAKQKWLL_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC;CLTC|p.N1492Kfs*34|1|0.12|ENSG00000141367|chr17:59685097-59685097|T/-|frameshift_variant;CLTC|p.V305Cfs*6|1|0.38|ENSG00000141367|chr17:59655965-59655966|-/T|frameshift_variant nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.29437255859375 2 501.292559 1000.57057 3.4293 0.0017191 0.13066 6.5501E-05 3.5599 0.0017846 501.29257918011285 47.799 0.36234 48.062 47.928 48.29 0.26363 42 17 3 0 0 0 1.3948E-05 3 21854 21806;21854;21906 149.99 64.638 1 3682500 2731 3246 2013 2017 2922;2923;2924 2923 0.07030350685522535 DAKQKWLL 8 Unmodified _DAKQKWLL_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC;CLTC|p.N1492Kfs*34|1|0.12|ENSG00000141367|chr17:59685097-59685097|T/-|frameshift_variant;CLTC|p.V305Cfs*6|1|0.38|ENSG00000141367|chr17:59655965-59655966|-/T|frameshift_variant nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.2945556640625 2 501.292559 1000.57057 3.1888 0.0015985 0.21817 0.00010937 3.407 0.0017079 501.29262339332325 47.078 0.39038 47.731 47.624 48.015 0.65219 59 25 3 0 0 0 0.00019857 4 21580 21532;21580;21620;21670 144.35 66.201 1 3529100 2732 3246 2013 2017 2925;2926;2927;2928 2926 0.07030350685522535 DAKQKWLLL 9 Unmodified _DAKQKWLLL_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC;CLTC|p.N1492Kfs*34|1|0.12|ENSG00000141367|chr17:59685097-59685097|T/-|frameshift_variant;CLTC|p.V305Cfs*6|1|0.38|ENSG00000141367|chr17:59655965-59655966|-/T|frameshift_variant nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.8364868164062 2 557.834591 1113.65463 3.3939 0.0018932 -0.27836 -0.00015528 3.1155 0.0017379 557.8343587849863 63.974 0.3501 64.222 64.083 64.433 0.24803 60 21 4 0 0 0 4.7117000000000006E-30 2 29285 29285;29336 191.38 102.48 1 4147900 2733 3246 2014 2018 2929;2930 2929 0.10234881782434968 DAKQKWLLL 9 Unmodified _DAKQKWLLL_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC;CLTC|p.N1492Kfs*34|1|0.12|ENSG00000141367|chr17:59685097-59685097|T/-|frameshift_variant;CLTC|p.V305Cfs*6|1|0.38|ENSG00000141367|chr17:59655965-59655966|-/T|frameshift_variant nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.83642578125 2 557.834591 1113.65463 3.4601 0.0019301 -0.12748 -7.1111E-05 3.3326 0.001859 557.8344460583371 63.358 0.38048 64.016 63.854 64.234 0.65809 66 24 4 0 0 0 4.7117000000000006E-30 2 29043 28995;29043 191.38 102.48 1 5387400 2734 3246 2014 2018 2931;2932 2932 0.10234881782434968 DAKSKIRAL 9 Unmodified _DAKSKIRAL_ 0 0 0 nc|ENSG00000120694|Q92598-2|HSPH1;nc|ENSG00000120694|Q92598-3|HSPH1;ENSG00000120694|ENST00000320027|HSPH1;nc|ENSG00000120694|Q92598-4|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.5421447753906 3 334.541586 1000.60293 2.3336 0.00078069 -0.89399 -0.00029908 1.4396 0.00048161 334.5413553848839 16.255 0.95982 16.255 15.677 16.637 0 287 120 3 0 0 0 0.14729 9 7115 7031;7073;7115;7158;7201;7246;7287;7326;7374 38.176 18.814 1 249610 2735 2206 2015 2019 2933;2934;2935;2936;2937;2938;2939;2940;2941 2935 0.10265138088516323 DAKSKIRAL 9 Unmodified _DAKSKIRAL_ 0 0 0 nc|ENSG00000120694|Q92598-2|HSPH1;nc|ENSG00000120694|Q92598-3|HSPH1;ENSG00000120694|ENST00000320027|HSPH1;nc|ENSG00000120694|Q92598-4|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.5423278808594 3 334.541586 1000.60293 2.3066 0.00077166 0.085721 2.8677E-05 2.3923 0.00080034 334.541604176297 14.906 0.33557 15.132 14.973 15.309 0.22622 83 32 3 0 0 0 0.0063542 2 6556 6556;6601 71.708 29.752 1 923810 2736 2206 2015 2019 2942;2943 2942 0.10265138088516323 DAKSKIRAL 9 Unmodified _DAKSKIRAL_ 0 0 0 nc|ENSG00000120694|Q92598-2|HSPH1;nc|ENSG00000120694|Q92598-3|HSPH1;ENSG00000120694|ENST00000320027|HSPH1;nc|ENSG00000120694|Q92598-4|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.5396728515625 3 334.541586 1000.60293 2.1875 0.00073182 -1.053 -0.00035227 1.1345 0.00037955 334.5412493775433 14.365 0.25177 14.671 14.527 14.779 0.3069 23 11 3 0 0 0 0.0020791 1 6483 6483 84.522 31.118 1 4508600 2737 2206 2015 2019 2944 2944 0.10265138088516323 DAKSKIRAL 9 Unmodified _DAKSKIRAL_ 0 0 0 nc|ENSG00000120694|Q92598-2|HSPH1;nc|ENSG00000120694|Q92598-3|HSPH1;ENSG00000120694|ENST00000320027|HSPH1;nc|ENSG00000120694|Q92598-4|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.541015625 3 334.541586 1000.60293 2.3857 0.00079811 -0.018968 -6.3456E-06 2.3667 0.00079177 334.5414271623221 14.312 0.18608 14.96 14.869 15.055 0.6482 38 19 3 0 0 0 0.057945 2 6421 6421;6473 40.725 12.23 1 5878500 2738 2206 2015 2019 2945;2946 2945 0.10265138088516323 DAKSKIRAL 9 Unmodified _DAKSKIRAL_ 0 0 0 nc|ENSG00000120694|Q92598-2|HSPH1;nc|ENSG00000120694|Q92598-3|HSPH1;ENSG00000120694|ENST00000320027|HSPH1;nc|ENSG00000120694|Q92598-4|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.3102722167969 2 501.308741 1000.60293 3.3231 0.0016659 0.44157 0.00022136 3.7647 0.0018873 501.30887487916056 14.311 0.12379 14.959 14.911 15.035 0.6482 20 12 2 0 0 0 0.020338 1 6439 6439 67.838 29.663 1 1351400 2739 2206 2015 2019 2947 2947 0.10265138088516323 DAKSKIRAL 9 Unmodified _DAKSKIRAL_ 0 0 0 nc|ENSG00000120694|Q92598-2|HSPH1;nc|ENSG00000120694|Q92598-3|HSPH1;ENSG00000120694|ENST00000320027|HSPH1;nc|ENSG00000120694|Q92598-4|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 501.308741 1000.60293 3.0449 0.0015264 0.21764 0.00010911 3.2625 0.0016355 501.30894178766346 14.91 0.24846 15.136 15.011 15.26 0.22622 0.088399 -0.00012099 NaN 67.838 38 23 2 NaN NaN NaN NaN 0 NaN NaN 0 146040 2740 2206 2015 2019 0.10265138088516323 DAKTHIAL 8 Unmodified _DAKTHIAL_ 0 0 0 nc|ENSG00000259207|P05106-2|ITGB3;nc|ENSG00000259207|P05106-3|ITGB3;ENSG00000259207|ENST00000559488|ITGB3 nc|ENSG00000259207|P05106-2|ITGB3 nc|ENSG00000259207|P05106-2|ITGB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.7494812011719 2 434.747985 867.481417 3.1155 0.0013545 0.31162 0.00013548 3.4271 0.0014899 434.74808865828896 27.405 0.23375 27.405 27.235 27.469 0 35 17 3 0 0 0 0.03226 1 12335 12335 75.761 27.415 1 1204900 2741 6302 2016 2020 2948 2948 0.0423751572599258 DAKTHIAL 8 Unmodified _DAKTHIAL_ 0 0 0 nc|ENSG00000259207|P05106-2|ITGB3;nc|ENSG00000259207|P05106-3|ITGB3;ENSG00000259207|ENST00000559488|ITGB3 nc|ENSG00000259207|P05106-2|ITGB3 nc|ENSG00000259207|P05106-2|ITGB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.7486572265625 2 434.747985 867.481417 2.7531 0.0011969 -0.15381 -6.6867E-05 2.5993 0.00113 434.74785889338756 26.473 0.2554 27.251 27.105 27.361 0.7787 43 19 3 0 0 0 0.036198 2 11907 11866;11907 71.922 23.576 1 916930 2742 6302 2016 2020 2949;2950 2950 0.0423751572599258 DAKTHIAL 8 Unmodified _DAKTHIAL_ 0 0 0 nc|ENSG00000259207|P05106-2|ITGB3;nc|ENSG00000259207|P05106-3|ITGB3;ENSG00000259207|ENST00000559488|ITGB3 nc|ENSG00000259207|P05106-2|ITGB3 nc|ENSG00000259207|P05106-2|ITGB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.74981689453125 2 434.747985 867.481417 2.8503 0.0012392 0.92751 0.00040323 3.7778 0.0016424 434.74846742644905 27.066 0.26525 27.331 27.163 27.428 0.26489 43 17 3 0 0 0 0.010601 1 12296 12296 96.111 28.767 1 1849800 2743 6302 2016 2020 2951 2951 0.0423751572599258 DAKTHIAL 8 Unmodified _DAKTHIAL_ 0 0 0 nc|ENSG00000259207|P05106-2|ITGB3;nc|ENSG00000259207|P05106-3|ITGB3;ENSG00000259207|ENST00000559488|ITGB3 nc|ENSG00000259207|P05106-2|ITGB3 nc|ENSG00000259207|P05106-2|ITGB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7491149902344 2 434.747985 867.481417 2.9556 0.0012849 0.41895 0.00018214 3.3746 0.0014671 434.74812164726717 26.624 0.28255 27.245 27.085 27.368 0.62178 47 18 3 0 0 0 0.047712 2 12200 12200;12248 66.457 18.111 1 1796700 2744 6302 2016 2020 2952;2953 2952 0.0423751572599258 DAKTKLAQL 9 Unmodified _DAKTKLAQL_ 0 0 0 nc|ENSG00000167767|Q6KB66-2|KRT80;ENSG00000167767|ENST00000394815|KRT80;CON__Q6KB66-1;nc|ENSG00000167767|Q6KB66-3|KRT80;ENST00000466011.1_1_12:52565184-52579482:-|nuORF nc|ENSG00000167767|Q6KB66-2|KRT80 nc|ENSG00000167767|Q6KB66-2|KRT80 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.7652282714844 2 494.295299 986.576045 3.3749 0.0016682 -0.11079 -5.4765E-05 3.2641 0.0016134 494.2952612398232 28.751 0.20869 28.751 28.614 28.822 0 24 18 2 0 0 0 0.032817 1 12951 12951 40.239 18.702 1 463980 + 2745 239 2017 2021 2954 2954 0.08222029477315118 DAKTKLAQL 9 Unmodified _DAKTKLAQL_ 0 0 0 nc|ENSG00000167767|Q6KB66-2|KRT80;ENSG00000167767|ENST00000394815|KRT80;CON__Q6KB66-1;nc|ENSG00000167767|Q6KB66-3|KRT80;ENST00000466011.1_1_12:52565184-52579482:-|nuORF nc|ENSG00000167767|Q6KB66-2|KRT80 nc|ENSG00000167767|Q6KB66-2|KRT80 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.7663269042969 2 494.295299 986.576045 3.2142 0.0015888 0.23979 0.00011852 3.454 0.0017073 494.2954273631744 27.749 0.25914 28.535 28.414 28.674 0.78627 42 23 2 0 0 0 0.098156 1 12477 12477 13.906 2.2658 1 222940 + 2746 239 2017 2021 2955 2955 0.08222029477315118 DAKTKLAQL 9 Unmodified _DAKTKLAQL_ 0 0 0 nc|ENSG00000167767|Q6KB66-2|KRT80;ENSG00000167767|ENST00000394815|KRT80;CON__Q6KB66-1;nc|ENSG00000167767|Q6KB66-3|KRT80;ENST00000466011.1_1_12:52565184-52579482:-|nuORF nc|ENSG00000167767|Q6KB66-2|KRT80 nc|ENSG00000167767|Q6KB66-2|KRT80 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.7657470703125 2 494.295299 986.576045 3.1429 0.0015535 0.26721 0.00013208 3.4102 0.0016856 494.29562273439336 28.075 0.29531 28.695 28.538 28.833 0.61947 40 18 3 0 0 0 0.021506 1 12859 12859 47.594 19.966 1 381630 + 2747 239 2017 2021 2956 2956 0.08222029477315118 DAKVKQRIDY 10 Unmodified _DAKVKQRIDY_ 0 0 0 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.56488037109375 3 412.562938 1234.66699 NaN NaN NaN NaN NaN NaN NaN 13.437 1 14.08 13.58 14.58 0.64272 0 0 0 0.98317 1 6036 6036 7.4771 5.3931 1 2748 5847 2018 2022 2957 2957 0.05903873454803943 DAKWRVRL 8 Unmodified _DAKWRVRL_ 0 0 0 ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-4|PPP2R1B;nc|ENSG00000137713|P30154-5|PPP2R1B;ENSG00000137713|ENST00000527614|PPP2R1B;nc|ENSG00000137713|P30154-2|PPP2R1B;ENST00000534521.5_1_11:111612322-111631898:-|nuORF;nc|ENSG00000137713|P30154-3|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-5|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 348.54266357421875 3 348.541809 1042.6036 2.3484 0.0008185 0.14742 5.138E-05 2.4958 0.00086988 348.5418407772971 35.67 0.41306 35.67 35.457 35.87 0 58 19 4 0 0 0 0.070862 2 16137 16137;16185 58.679 33.28 1 6486100 2749 1509;3033 2019 2023 2958;2959 2958 0.08399977528233649 DAKWRVRL 8 Unmodified _DAKWRVRL_ 0 0 0 ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-4|PPP2R1B;nc|ENSG00000137713|P30154-5|PPP2R1B;ENSG00000137713|ENST00000527614|PPP2R1B;nc|ENSG00000137713|P30154-2|PPP2R1B;ENST00000534521.5_1_11:111612322-111631898:-|nuORF;nc|ENSG00000137713|P30154-3|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-5|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 348.5424499511719 3 348.541809 1042.6036 2.2516 0.00078478 -0.051412 -1.7919E-05 2.2002 0.00076686 348.5417565949343 34.634 0.26634 35.423 35.318 35.584 0.78921 62 26 3 0 0 0 0.070862 3 15652 15652;15700;15746 58.679 29.597 1 8933600 2750 1509;3033 2019 2023 2960;2961;2962 2960 0.08399977528233649 DAKWRVRL 8 Unmodified _DAKWRVRL_ 0 0 0 ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-4|PPP2R1B;nc|ENSG00000137713|P30154-5|PPP2R1B;ENSG00000137713|ENST00000527614|PPP2R1B;nc|ENSG00000137713|P30154-2|PPP2R1B;ENST00000534521.5_1_11:111612322-111631898:-|nuORF;nc|ENSG00000137713|P30154-3|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-5|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.5426940917969 3 348.541809 1042.6036 2.4875 0.00086699 0.015526 5.4114E-06 2.503 0.0008724 348.5418077360857 35.54 0.54263 35.795 35.537 36.08 0.25524 66 18 5 0 0 0 0.070862 3 16137 16137;16191;16251 58.679 33.28 1 14696000 2751 1509;3033 2019 2023 2963;2964;2965 2963 0.08399977528233649 DAKWRVRL 8 Unmodified _DAKWRVRL_ 0 0 0 ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-4|PPP2R1B;nc|ENSG00000137713|P30154-5|PPP2R1B;ENSG00000137713|ENST00000527614|PPP2R1B;nc|ENSG00000137713|P30154-2|PPP2R1B;ENST00000534521.5_1_11:111612322-111631898:-|nuORF;nc|ENSG00000137713|P30154-3|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-5|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.3107299804688 2 522.309075 1042.6036 3.3425 0.0017458 0.20939 0.00010937 3.5519 0.0018552 522.309133997119 35.55 0.45984 35.806 35.62 36.08 0.25524 24 15 2 0 0 0 0.38743 1 16177 16177 28.487 11.545 1 1338600 2752 1509;3033 2019 2023 2966 2966 0.08399977528233649 DAKWRVRL 8 Unmodified _DAKWRVRL_ 0 0 0 ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-4|PPP2R1B;nc|ENSG00000137713|P30154-5|PPP2R1B;ENSG00000137713|ENST00000527614|PPP2R1B;nc|ENSG00000137713|P30154-2|PPP2R1B;ENST00000534521.5_1_11:111612322-111631898:-|nuORF;nc|ENSG00000137713|P30154-3|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-5|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.5426025390625 3 348.541809 1042.6036 2.4596 0.00085728 0.28632 9.9796E-05 2.7459 0.00095707 348.54188960106046 35.095 0.42801 35.718 35.565 35.993 0.62294 59 20 4 0 0 0 0.070862 3 16048 16048;16100;16158 58.679 58.679 1 9012800 2753 1509;3033 2019 2023 2967;2968;2969 2967 0.08399977528233649 DAKWRVRL 8 Unmodified _DAKWRVRL_ 0 0 0 ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-4|PPP2R1B;nc|ENSG00000137713|P30154-5|PPP2R1B;ENSG00000137713|ENST00000527614|PPP2R1B;nc|ENSG00000137713|P30154-2|PPP2R1B;ENST00000534521.5_1_11:111612322-111631898:-|nuORF;nc|ENSG00000137713|P30154-3|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-5|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.3108520507812 2 522.309075 1042.6036 3.3794 0.0017651 0.65837 0.00034387 4.0378 0.002109 522.3096076098842 35.088 0.2351 35.711 35.631 35.866 0.62294 25 11 3 0 0 0 0.5584 1 16080 16080 15.847 0 1 722690 2754 1509;3033 2019 2023 2970 2970 0.08399977528233649 DAKWRVRL 8 Unmodified _DAKWRVRL_ 0 0 0 ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-4|PPP2R1B;nc|ENSG00000137713|P30154-5|PPP2R1B;ENSG00000137713|ENST00000527614|PPP2R1B;nc|ENSG00000137713|P30154-2|PPP2R1B;ENST00000534521.5_1_11:111612322-111631898:-|nuORF;nc|ENSG00000137713|P30154-3|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-5|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 522.309075 1042.6036 3.0626 0.0015996 0.79557 0.00041553 3.8582 0.0020152 522.3094447611004 35.656 0.27562 35.656 35.506 35.782 0 0.0021224 0.00038701 NaN 28.487 24 13 2 NaN NaN NaN NaN 0 NaN NaN 0 796940 2755 1509;3033 2019 2023 0.08399977528233649 DAKWRVRL 8 Unmodified _DAKWRVRL_ 0 0 0 ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-4|PPP2R1B;nc|ENSG00000137713|P30154-5|PPP2R1B;ENSG00000137713|ENST00000527614|PPP2R1B;nc|ENSG00000137713|P30154-2|PPP2R1B;ENST00000534521.5_1_11:111612322-111631898:-|nuORF;nc|ENSG00000137713|P30154-3|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-5|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 522.309075 1042.6036 3.2829 0.0017147 -1.011 -0.00052804 2.2719 0.0011866 522.3089163150951 34.653 0.090118 35.442 35.406 35.496 0.78921 -0.21182 -0.0015001 NaN 28.487 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 906110 2756 1509;3033 2019 2023 0.08399977528233649 DALKKMLL 8 Unmodified _DALKKMLL_ 0 0 0 ENSG00000115204|ENST00000380044|MPV17 ENSG00000115204|ENST00000380044|MPV17 ENSG00000115204|ENST00000380044|MPV17 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.28704833984375 2 466.285889 930.557224 NaN NaN NaN NaN NaN NaN NaN 46.42 1 47.073 46.573 47.573 0.65219 0 0 0 0.67718 1 21263 21263 23.148 10.617 1 2757 1950 2020 2024 2971 2971 0.08916776581918384 DALQRSVQL 9 Unmodified _DALQRSVQL_ 0 0 0 ENSG00000013364|ENST00000357402|MVP ENSG00000013364|ENST00000357402|MVP ENSG00000013364|ENST00000357402|MVP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.2900390625 2 515.288005 1028.56146 NaN NaN NaN NaN NaN NaN NaN 43.245 1 43.515 43.015 44.015 0.27021 0 0 0 0.021845 1 19752 19752 70.332 16.499 1 2758 430 2021 2025 2972 2972 0.04831957329201941 DALRRFQGL 9 Unmodified _DALRRFQGL_ 0 0 0 ENSG00000178878|ENST00000356591|APOLD1;nc|ENSG00000178878|Q96LR9|APOLD1 ENSG00000178878|ENST00000356591|APOLD1 ENSG00000178878|ENST00000356591|APOLD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.5402526855469 3 359.205085 1074.59343 2.6032 0.00093508 0.36504 0.00013112 2.9682 0.0010662 359.2052017478377 32.753 0.25582 32.753 32.586 32.842 0 27 18 2 0 0 0 0.98132 1 14856 14856 2.4985 0 1 213650 2759 5184 2022 2026 2973 2973 0.05911369802993249 DALRRFQGL 9 Unmodified _DALRRFQGL_ 0 0 0 ENSG00000178878|ENST00000356591|APOLD1;nc|ENSG00000178878|Q96LR9|APOLD1 ENSG00000178878|ENST00000356591|APOLD1 ENSG00000178878|ENST00000356591|APOLD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.2060546875 3 359.205085 1074.59343 2.4862 0.00089305 0.20288 7.2874E-05 2.689 0.00096592 359.2051463503015 32.007 0.28447 32.624 32.468 32.753 0.61737 29 13 3 0 0 0 0.14729 1 14697 14697 19.362 3.0874 1 432870 2760 5184 2022 2026 2974 2974 0.05911369802993249 DAMKRVEEI 9 Unmodified _DAMKRVEEI_ 0 0 0 ENSG00000137876|ENST00000260443|RSL24D1 ENSG00000137876|ENST00000260443|RSL24D1 ENSG00000137876|ENST00000260443|RSL24D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.78369140625 2 545.781699 1089.54884 4.0658 0.002219 0.59427 0.00032434 4.66 0.0025434 545.7819831933577 31.329 0.24908 31.585 31.421 31.67 0.25614 24 16 2 0 0 0 0.21127 1 14248 14248 22.658 9.6156 1 167220 2761 3053 2023 2027 2975 2975 0.007651778746321725 DAMKRVEEI 9 Unmodified _DAMKRVEEI_ 0 0 0 ENSG00000137876|ENST00000260443|RSL24D1 ENSG00000137876|ENST00000260443|RSL24D1 ENSG00000137876|ENST00000260443|RSL24D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.7831420898438 2 545.781699 1089.54884 3.5355 0.0019296 0.17938 9.7901E-05 3.7149 0.0020275 545.7817827006234 30.838 0.22277 31.456 31.305 31.527 0.61737 19 12 2 0 0 0 0.30982 1 14134 14134 16.149 3.1066 1 225540 2762 3053 2023 2027 2976 2976 0.007651778746321725 DANLRKNEL 9 Unmodified _DANLRKNEL_ 0 0 0 ENST00000527306.1_1_8:42752256-42852891:+|nuORF;ENSG00000168172|ENST00000307602|HOOK3 ENST00000527306.1_1_8:42752256-42852891:+|nuORF ENST00000527306.1_1_8:42752256-42852891:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 358.1977233886719 3 358.196367 1071.56727 2.527 0.00090516 0.6479 0.00023207 3.1749 0.0011372 358.1966102328451 17.373 0.25593 18.034 17.846 18.102 0.66072 30 18 2 0 0 0 0.80651 1 7792 7792 7.609 4.2893 1 242230 2763 4612 2024 2028 2977 2977 0.034350558408505094 DANLRKNEL 9 Unmodified _DANLRKNEL_ 0 0 0 ENST00000527306.1_1_8:42752256-42852891:+|nuORF;ENSG00000168172|ENST00000307602|HOOK3 ENST00000527306.1_1_8:42752256-42852891:+|nuORF ENST00000527306.1_1_8:42752256-42852891:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.7921142578125 2 536.790912 1071.56727 3.2565 0.0017481 1.0081 0.00054115 4.2646 0.0022892 536.7912836220785 17.339 0.25522 18 17.895 18.15 0.66072 26 18 2 0 0 0 0.55815 1 7845 7845 11.495 2.7493 1 239270 2764 4612 2024 2028 2978 2978 0.034350558408505094 DANLRKNEL 9 Unmodified _DANLRKNEL_ 0 0 0 ENST00000527306.1_1_8:42752256-42852891:+|nuORF;ENSG00000168172|ENST00000307602|HOOK3 ENST00000527306.1_1_8:42752256-42852891:+|nuORF ENST00000527306.1_1_8:42752256-42852891:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 358.196367 1071.56727 2.3907 0.00085634 1.0412 0.00037297 3.4319 0.0012293 358.19675542511527 17.413 0.34543 17.714 17.557 17.902 0.30158 -0.15976 0.00019598 NaN 7.609 37 24 2 NaN NaN NaN NaN 0 NaN NaN 0 212610 2765 4612 2024 2028 0.034350558408505094 DAPAHHLF 8 Unmodified _DAPAHHLF_ 0 0 0 nc|ENSG00000135372|Q9H0A0-2|NAT10;ENSG00000135372|ENST00000257829|NAT10;ENSG00000204962|ENST00000531613|PCDHA8;nc|ENSG00000204962|Q9Y5H6-2|PCDHA8 nc|ENSG00000135372|Q9H0A0-2|NAT10;ENSG00000204962|ENST00000531613|PCDHA8 ENSG00000204962|ENST00000531613|PCDHA8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.2259521484375 2 454.224677 906.434801 3.0426 0.001382 -0.0044262 -2.0105E-06 3.0381 0.00138 454.2246911013377 30.096 0.27877 30.096 29.974 30.253 0 45 18 3 0 0 0 0.024895 3 13610 13566;13610;13660 82.939 82.939 1 1495800 2766 6037;2866 2025 2029 2979;2980;2981 2980 -0.022159241052804646 DAPAHHLF 8 Unmodified _DAPAHHLF_ 0 0 0 nc|ENSG00000135372|Q9H0A0-2|NAT10;ENSG00000135372|ENST00000257829|NAT10;ENSG00000204962|ENST00000531613|PCDHA8;nc|ENSG00000204962|Q9Y5H6-2|PCDHA8 nc|ENSG00000135372|Q9H0A0-2|NAT10;ENSG00000204962|ENST00000531613|PCDHA8 ENSG00000204962|ENST00000531613|PCDHA8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.2256774902344 2 454.224677 906.434801 2.8662 0.0013019 0.013224 6.0066E-06 2.8794 0.0013079 454.2246352602683 29.187 0.37177 29.977 29.754 30.126 0.78921 68 27 3 0 0 0 0.037283 3 13135 13087;13135;13181 70.865 70.865 1 988220 2767 6037;2866 2025 2029 2982;2983;2984 2983 -0.022159241052804646 DAPAHHLF 8 Unmodified _DAPAHHLF_ 0 0 0 nc|ENSG00000135372|Q9H0A0-2|NAT10;ENSG00000135372|ENST00000257829|NAT10;ENSG00000204962|ENST00000531613|PCDHA8;nc|ENSG00000204962|Q9Y5H6-2|PCDHA8 nc|ENSG00000135372|Q9H0A0-2|NAT10;ENSG00000204962|ENST00000531613|PCDHA8 ENSG00000204962|ENST00000531613|PCDHA8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.22607421875 2 454.224677 906.434801 3.0111 0.0013677 0.40425 0.00018362 3.4153 0.0015513 454.2248019688426 29.865 0.41546 30.123 29.87 30.285 0.25804 86 38 3 0 0 0 0.016327 4 13547 13502;13547;13593;13640 90.836 90.836 1 2245200 2768 6037;2866 2025 2029 2985;2986;2987;2988 2986 -0.022159241052804646 DAPAHHLF 8 Unmodified _DAPAHHLF_ 0 0 0 nc|ENSG00000135372|Q9H0A0-2|NAT10;ENSG00000135372|ENST00000257829|NAT10;ENSG00000204962|ENST00000531613|PCDHA8;nc|ENSG00000204962|Q9Y5H6-2|PCDHA8 nc|ENSG00000135372|Q9H0A0-2|NAT10;ENSG00000204962|ENST00000531613|PCDHA8 ENSG00000204962|ENST00000531613|PCDHA8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 454.2261962890625 2 454.224677 906.434801 3.003 0.001364 0.30602 0.000139 3.309 0.001503 454.2247625001978 29.425 0.49869 30.043 29.84 30.339 0.61789 90 32 4 0 0 0 0.016327 4 13475 13432;13475;13520;13568 90.836 90.836 1 2303000 2769 6037;2866 2025 2029 2989;2990;2991;2992 2990 -0.022159241052804646 DAPDHQEL 8 Unmodified _DAPDHQEL_ 0 0 0 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 462.7084655761719 2 462.706514 923.398475 NaN NaN NaN NaN NaN NaN NaN 19.111 1 19.769 19.269 20.269 0.6583 0 0 0 0.86133 1 8670 8670 14.838 1.3304 1 2770 2416 2026 2030 2993 2993 -0.06628845792658922 DAPGAALLL 9 Unmodified _DAPGAALLL_ 0 0 0 REV__ENSG00000173546|ENST00000308508|CSPG4;REV__ENST00000558282.5_1_15:85734698-85737265:+|nuORF REV__ENST00000558282.5_1_15:85734698-85737265:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.2256164550781 2 420.744911 839.475269 2.7751 0.0011676 -2.0479 -0.00086165 0.72714 0.00030594 420.7461607869761 48.242 0.31149 48.242 47.978 48.289 0 18 13 2 0 0 0 0.076365 1 22075 22075 21.747 13.836 1 321970 + 2771 13602;17344 2027 2031 2994 2994 0.049109974944940404 DAPGAALLL 9 Unmodified _DAPGAALLL_ 0 0 0 REV__ENSG00000173546|ENST00000308508|CSPG4;REV__ENST00000558282.5_1_15:85734698-85737265:+|nuORF REV__ENST00000558282.5_1_15:85734698-85737265:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.2259521484375 2 420.744911 839.475269 3.0068 0.0012651 -1.368 -0.00057557 1.6389 0.00068955 420.74646191826264 47.54 0.44167 48.194 47.855 48.297 0.65356 23 18 2 0 0 0 0.056326 1 21695 21695 28.487 10.352 1 193740 + 2772 13602;17344 2027 2031 2995 2995 0.049109974944940404 DAPGTLVG 8 Unmodified _DAPGTLVG_ 0 0 0 ENSG00000144227|ENST00000272641|NXPH2 ENSG00000144227|ENST00000272641|NXPH2 ENSG00000144227|ENST00000272641|NXPH2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 729.3828125 1 729.377746 728.370469 3.9147 0.0028553 2.9025 0.002117 6.8172 0.0049723 729.380065641996 33.179 0.30012 33.433 33.318 33.618 0.25389 17 13 2 0 0 0 0.60592 1 15141 15141 13.508 0 1 182090 2773 3412 2028 2032 2996 2996 -0.004581239820822702 DAQADEAVL 9 Unmodified _DAQADEAVL_ 0 0 0 ENST00000463409.6_1_10:22605382-22615407:+|nuORF;ENSG00000148444|ENST00000376836|COMMD3;ENST00000602574.5_1_10:22605346-22607236:+|nuORF;ENST00000448361.5_2_10:22605382-22607041:+|nuORF;ENST00000496071.5_1_10:22605382-22607284:+|nuORF;ENST00000479958.6_1_10:22605346-22607121:+|nuORF;ENST00000470045.1_1_10:22605346-22607030:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.22381591796875 2 466.221997 930.429441 2.6798 0.0012494 0.74464 0.00034717 3.4245 0.0015966 466.22240042380344 43.379 0.18744 43.649 43.572 43.759 0.27021 15 10 2 0 0 0 0.22824 1 19841 19841 21.537 2.28 1 433890 2774 3606 2029 2033 2997 2997 -0.03855692478430228 DAQADEAVL 9 Unmodified _DAQADEAVL_ 0 0 0 ENST00000463409.6_1_10:22605382-22615407:+|nuORF;ENSG00000148444|ENST00000376836|COMMD3;ENST00000602574.5_1_10:22605346-22607236:+|nuORF;ENST00000448361.5_2_10:22605382-22607041:+|nuORF;ENST00000496071.5_1_10:22605382-22607284:+|nuORF;ENST00000479958.6_1_10:22605346-22607121:+|nuORF;ENST00000470045.1_1_10:22605346-22607030:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.7264404296875 2 466.221997 930.429441 2.9734 0.0013862 0.032629 1.5213E-05 3.006 0.0014015 466.2218214526085 42.937 0.10694 43.583 43.513 43.619 0.64693 7 4 2 0 0 0 0.093314 1 19647 19647 34.402 7.5181 1 363090 2775 3606 2029 2033 2998 2998 -0.03855692478430228 DAQADEAVL 9 Unmodified _DAQADEAVL_ 0 0 0 ENST00000463409.6_1_10:22605382-22615407:+|nuORF;ENSG00000148444|ENST00000376836|COMMD3;ENST00000602574.5_1_10:22605346-22607236:+|nuORF;ENST00000448361.5_2_10:22605382-22607041:+|nuORF;ENST00000496071.5_1_10:22605382-22607284:+|nuORF;ENST00000479958.6_1_10:22605346-22607121:+|nuORF;ENST00000470045.1_1_10:22605346-22607030:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.2231140136719 2 466.221997 930.429441 NaN NaN NaN NaN NaN NaN NaN 42.996 1 43.645 43.145 44.145 0.64872 0 0 0 0.43268 1 19702 19702 21.537 1.0834 1 2776 3606 2029 2033 2999 2999 -0.03855692478430228 DAQRYKRKL 9 Unmodified _DAQRYKRKL_ 0 0 0 nc|ENSG00000103549|O75150-3|RNF40;ENST00000493683.5_1_16:30773821-30780773:+|nuORF;nc|ENSG00000103549|O75150-4|RNF40;ENSG00000103549|ENST00000324685|RNF40 nc|ENSG00000103549|O75150-3|RNF40 nc|ENSG00000103549|O75150-3|RNF40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.3453979492188 2 589.343646 1176.67274 2.1165 0.0012473 -0.88505 -0.0005216 1.2314 0.00072573 589.3431293436497 104.21 0.31566 104.26 104.15 104.47 0.052994 40 32 2 0 0 0 1.129 1 56435 56435 1.8442 1.3195 1 434530 2777 1408 2030 2034 3000 3000 0.09147016757128767 DAREKISL 8 Unmodified _DAREKISL_ 0 0 0 ENSG00000100227|ENST00000252115|POLDIP3;nc|ENSG00000100227|Q9BY77-2|POLDIP3;ENST00000491021.1_1_22:42993722-42998991:-|nuORF ENSG00000100227|ENST00000252115|POLDIP3 ENSG00000100227|ENST00000252115|POLDIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.2652587890625 2 466.263999 930.513445 3.0991 0.001445 0.035456 1.6532E-05 3.1346 0.0014616 466.2639880053851 28.667 0.35658 28.667 28.466 28.822 0 80 30 4 0 0 0 0.0098492 3 12914 12870;12914;12963 114.2 18.091 1 5664100 2778 1191 2031 2035 3001;3002;3003 3002 0.04540883409140406 DAREKISL 8 Unmodified _DAREKISL_ 0 0 0 ENSG00000100227|ENST00000252115|POLDIP3;nc|ENSG00000100227|Q9BY77-2|POLDIP3;ENST00000491021.1_1_22:42993722-42998991:-|nuORF ENSG00000100227|ENST00000252115|POLDIP3 ENSG00000100227|ENST00000252115|POLDIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 311.1792297363281 3 311.178425 930.513445 2.3005 0.00071588 0.25522 7.942E-05 2.5558 0.0007953 311.1784760785136 28.668 0.32698 28.668 28.482 28.809 0 78 28 4 0 0 0 0.42759 1 12930 12930 26.268 1.2772 1 4312500 2779 1191 2031 2035 3004 3004 0.04540883409140406 DAREKISL 8 Unmodified _DAREKISL_ 0 0 0 ENSG00000100227|ENST00000252115|POLDIP3;nc|ENSG00000100227|Q9BY77-2|POLDIP3;ENST00000491021.1_1_22:42993722-42998991:-|nuORF ENSG00000100227|ENST00000252115|POLDIP3 ENSG00000100227|ENST00000252115|POLDIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.2654113769531 2 466.263999 930.513445 2.8389 0.0013237 0.24992 0.00011653 3.0888 0.0014402 466.2640635723102 27.662 0.34637 28.449 28.281 28.627 0.78627 101 31 5 0 0 0 0.0082979 3 12440 12392;12440;12482 137.42 18.529 1 4159600 2780 1191 2031 2035 3005;3006;3007 3006 0.04540883409140406 DAREKISL 8 Unmodified _DAREKISL_ 0 0 0 ENSG00000100227|ENST00000252115|POLDIP3;nc|ENSG00000100227|Q9BY77-2|POLDIP3;ENST00000491021.1_1_22:42993722-42998991:-|nuORF ENSG00000100227|ENST00000252115|POLDIP3 ENSG00000100227|ENST00000252115|POLDIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 311.17913818359375 3 311.178425 930.513445 2.3369 0.00072719 0.28926 9.0011E-05 2.6261 0.0008172 311.1784822575253 27.66 0.33576 28.446 28.291 28.627 0.78627 120 30 7 0 0 0 0.33696 1 12455 12455 32.786 1.5173 1 3862500 2781 1191 2031 2035 3008 3008 0.04540883409140406 DAREKISL 8 Unmodified _DAREKISL_ 0 0 0 ENSG00000100227|ENST00000252115|POLDIP3;nc|ENSG00000100227|Q9BY77-2|POLDIP3;ENST00000491021.1_1_22:42993722-42998991:-|nuORF ENSG00000100227|ENST00000252115|POLDIP3 ENSG00000100227|ENST00000252115|POLDIP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.2652587890625 2 466.263999 930.513445 NaN NaN NaN NaN NaN NaN NaN 27.842 1 28.628 28.128 29.128 0.78627 0 0 0 0.4321 1 12527 12527 16.942 1.0951 1 2782 1191 2031 2035 3009 3009 0.04540883409140406 DAREKISL 8 Unmodified _DAREKISL_ 0 0 0 ENSG00000100227|ENST00000252115|POLDIP3;nc|ENSG00000100227|Q9BY77-2|POLDIP3;ENST00000491021.1_1_22:42993722-42998991:-|nuORF ENSG00000100227|ENST00000252115|POLDIP3 ENSG00000100227|ENST00000252115|POLDIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.2652587890625 2 466.263999 930.513445 2.6568 0.0012388 0.46901 0.00021868 3.1258 0.0014575 466.2641802079759 28.44 0.37954 28.701 28.514 28.894 0.2602 67 23 4 0 0 0 0.0098492 3 12933 12882;12933;12989 114.2 18.091 1 8565000 2783 1191 2031 2035 3010;3011;3012 3011 0.04540883409140406 DAREKISL 8 Unmodified _DAREKISL_ 0 0 0 ENSG00000100227|ENST00000252115|POLDIP3;nc|ENSG00000100227|Q9BY77-2|POLDIP3;ENST00000491021.1_1_22:42993722-42998991:-|nuORF ENSG00000100227|ENST00000252115|POLDIP3 ENSG00000100227|ENST00000252115|POLDIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 311.1790771484375 3 311.178425 930.513445 2.1573 0.00067132 0.50477 0.00015707 2.6621 0.00082839 311.1785748133189 28.434 0.35946 28.695 28.514 28.874 0.2602 73 22 4 0 0 0 0.23933 2 12901 12901;12958 39.95 3.8227 1 7398800 2784 1191 2031 2035 3013;3014 3013 0.04540883409140406 DAREKISL 8 Unmodified _DAREKISL_ 0 0 0 ENSG00000100227|ENST00000252115|POLDIP3;nc|ENSG00000100227|Q9BY77-2|POLDIP3;ENST00000491021.1_1_22:42993722-42998991:-|nuORF ENSG00000100227|ENST00000252115|POLDIP3 ENSG00000100227|ENST00000252115|POLDIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.26544189453125 2 466.263999 930.513445 2.7642 0.0012888 0.1949 9.0873E-05 2.9591 0.0013797 466.264089955947 27.989 0.4456 28.608 28.399 28.845 0.61947 95 30 4 0 0 0 0.0098492 3 12829 12778;12829;12875 114.2 18.091 1 9425600 2785 1191 2031 2035 3015;3016;3017 3016 0.04540883409140406 DAREKISL 8 Unmodified _DAREKISL_ 0 0 0 ENSG00000100227|ENST00000252115|POLDIP3;nc|ENSG00000100227|Q9BY77-2|POLDIP3;ENST00000491021.1_1_22:42993722-42998991:-|nuORF ENSG00000100227|ENST00000252115|POLDIP3 ENSG00000100227|ENST00000252115|POLDIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 311.1791687011719 3 311.178425 930.513445 2.0616 0.00064153 0.46464 0.00014459 2.5262 0.00078611 311.17855706795183 27.994 0.4019 28.613 28.431 28.833 0.61947 83 27 4 0 0 0 0.33696 2 12799 12799;12852 32.786 1.5173 1 5220100 2786 1191 2031 2035 3018;3019 3018 0.04540883409140406 DAREKISL 8 Unmodified _DAREKISL_ 0 0 0 ENSG00000100227|ENST00000252115|POLDIP3;nc|ENSG00000100227|Q9BY77-2|POLDIP3;ENST00000491021.1_1_22:42993722-42998991:-|nuORF ENSG00000100227|ENST00000252115|POLDIP3 ENSG00000100227|ENST00000252115|POLDIP3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 311.178425 930.513445 2.3005 0.00071588 0.25522 7.942E-05 2.5558 0.0007953 311.1784760785136 28.668 0.32698 28.668 28.482 28.809 0 0.062191 -0.00010838 NaN 39.95 78 28 4 NaN NaN NaN NaN 0 NaN NaN 0 4312500 2787 1191 2031 2035 0.04540883409140406 DAREKISL 8 Unmodified _DAREKISL_ 0 0 0 ENSG00000100227|ENST00000252115|POLDIP3;nc|ENSG00000100227|Q9BY77-2|POLDIP3;ENST00000491021.1_1_22:42993722-42998991:-|nuORF ENSG00000100227|ENST00000252115|POLDIP3 ENSG00000100227|ENST00000252115|POLDIP3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 311.178425 930.513445 2.3369 0.00072719 0.28926 9.0011E-05 2.6261 0.0008172 311.1784822575253 27.66 0.33576 28.446 28.291 28.627 0.78627 -0.1594 -7.6602E-05 NaN 39.95 120 30 7 NaN NaN NaN NaN 0 NaN NaN 0 3862500 2788 1191 2031 2035 0.04540883409140406 DAREKISL 8 Unmodified _DAREKISL_ 0 0 0 ENSG00000100227|ENST00000252115|POLDIP3;nc|ENSG00000100227|Q9BY77-2|POLDIP3;ENST00000491021.1_1_22:42993722-42998991:-|nuORF ENSG00000100227|ENST00000252115|POLDIP3 ENSG00000100227|ENST00000252115|POLDIP3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 311.178425 930.513445 2.0616 0.00064153 0.46464 0.00014459 2.5262 0.00078611 311.17855706795183 27.994 0.4019 28.613 28.431 28.833 0.61947 0.0080196 8.7126E-05 NaN 39.95 83 27 4 NaN NaN NaN NaN 0 NaN NaN 0 5220100 2789 1191 2031 2035 0.04540883409140406 DARQKIGL 8 Unmodified _DARQKIGL_ 0 0 0 ENSG00000100227|ENST00000252115|POLDIP3;nc|ENSG00000100227|Q9BY77-2|POLDIP3 ENSG00000100227|ENST00000252115|POLDIP3 ENSG00000100227|ENST00000252115|POLDIP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.7679748535156 2 450.766709 899.518865 NaN NaN NaN NaN NaN NaN NaN 24.931 1 25.202 24.702 25.702 0.27129 0 0 0 0.12696 1 11306 11306 47.749 4.7807 1 2790 1191 2032 2036 3020 3020 0.06508606991610577 DARRRLWR 8 Unmodified _DARRRLWR_ 0 0 0 REV__ENST00000504102.5_1_17:47755419-47755581:-|nuORF REV__ENST00000504102.5_1_17:47755419-47755581:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.8303833007812 2 564.828498 1127.64244 3.3688 0.0019028 -0.8212 -0.00046384 2.5476 0.0014389 564.8281330903466 16.856 0.81587 17.161 16.668 17.484 0.30438 96 76 2 0 0 0 0.7471 3 7471 7471;7609;7698 2.0598 2.0598 1 117690 + 2791 16911 2033 2037 3021;3022;3023 3021 0.08372702882570593 DARRRLWR 8 Unmodified _DARRRLWR_ 0 0 0 REV__ENST00000504102.5_1_17:47755419-47755581:-|nuORF REV__ENST00000504102.5_1_17:47755419-47755581:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.8312377929688 2 564.828498 1127.64244 3.5934 0.0020297 -0.46905 -0.00026493 3.1244 0.0017647 564.8282490767342 16.924 0.94013 17.585 16.906 17.846 0.66072 128 87 2 0 0 0 0.7471 2 7366 7366;7385 0.69038 0.16561 1 235650 + 2792 16911 2033 2037 3024;3025 3024 0.08372702882570593 DARRRLWR 8 Unmodified _DARRRLWR_ 0 0 0 REV__ENST00000504102.5_1_17:47755419-47755581:-|nuORF REV__ENST00000504102.5_1_17:47755419-47755581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.82958984375 2 564.828498 1127.64244 NaN NaN NaN NaN NaN NaN NaN 16.188 1 16.846 16.346 17.346 0.65798 0 0 0 0.99035 1 7293 7293 0 0 1 + 2793 16911 2033 2037 3026 3026 0.08372702882570593 DASAEVERL 9 Unmodified _DASAEVERL_ 0 0 0 nc|ENSG00000130303|Q10589-2|BST2;ENSG00000130303|ENST00000252593|BST2 nc|ENSG00000130303|Q10589-2|BST2 nc|ENSG00000130303|Q10589-2|BST2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.2498779296875 2 495.248546 988.482539 3.217 0.0015932 -0.13776 -6.8223E-05 3.0793 0.001525 495.24840933852886 36.432 0.39191 36.689 36.476 36.868 0.25768 37 15 3 0 0 0 0.0027913 2 16631 16573;16631 96.367 42.534 1 2248200 2794 2584 2034 2038 3027;3028 3028 -0.012163146957504978 DASAEVERL 9 Unmodified _DASAEVERL_ 0 0 0 nc|ENSG00000130303|Q10589-2|BST2;ENSG00000130303|ENST00000252593|BST2 nc|ENSG00000130303|Q10589-2|BST2 nc|ENSG00000130303|Q10589-2|BST2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.2501220703125 2 495.248546 988.482539 3.3076 0.0016381 0.067422 3.3391E-05 3.375 0.0016715 495.2486288806653 35.922 0.30087 36.548 36.395 36.695 0.62631 24 10 3 0 0 0 0.0020727 1 16457 16457 103.42 47.242 1 2510300 2795 2584 2034 2038 3029 3029 -0.012163146957504978 DASAEVERL 9 Unmodified _DASAEVERL_ 0 0 0 nc|ENSG00000130303|Q10589-2|BST2;ENSG00000130303|ENST00000252593|BST2 nc|ENSG00000130303|Q10589-2|BST2 nc|ENSG00000130303|Q10589-2|BST2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.2500915527344 2 495.248546 988.482539 NaN NaN NaN NaN NaN NaN NaN 36.074 1 36.7 36.2 37.2 0.62631 0 0 0 0.58778 1 16521 16521 16.149 4.5088 1 2796 2584 2034 2038 3030 3030 -0.012163146957504978 DASGPDPQL 9 Unmodified _DASGPDPQL_ 0 0 0 ENSG00000082068|ENST00000265107|WDR70;ENST00000450081.5_1_6:58285388-58287665:-|nuORF;ENST00000508973.5_1_5:21459626-21473494:+|nuORF;ENST00000607545.5_1_5:21459668-21501934:+|nuORF;ENST00000505799.1_1_5:37379427-37381852:+|nuORF;ENST00000509649.5_1_5:21459626-21462031:+|nuORF ENSG00000082068|ENST00000265107|WDR70;ENST00000505799.1_1_5:37379427-37381852:+|nuORF;ENST00000509649.5_1_5:21459626-21462031:+|nuORF ENST00000505799.1_1_5:37379427-37381852:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 899.4091796875 1 899.410502 898.403226 3.8269 0.003442 -0.2812 -0.00025291 3.5457 0.0031891 899.4103009419177 37.844 0.32439 37.844 37.611 37.935 0 21 12 2 0 0 0 0.0090098 2 17135 17135;17199 83.429 10.461 1 736440 2797 8507;925;8544 2035 2039 3031;3032 3031 -0.050039616499134354 DASGPDPQL 9 Unmodified _DASGPDPQL_ 0 0 0 ENSG00000082068|ENST00000265107|WDR70;ENST00000450081.5_1_6:58285388-58287665:-|nuORF;ENST00000508973.5_1_5:21459626-21473494:+|nuORF;ENST00000607545.5_1_5:21459668-21501934:+|nuORF;ENST00000505799.1_1_5:37379427-37381852:+|nuORF;ENST00000509649.5_1_5:21459626-21462031:+|nuORF ENSG00000082068|ENST00000265107|WDR70;ENST00000505799.1_1_5:37379427-37381852:+|nuORF;ENST00000509649.5_1_5:21459626-21462031:+|nuORF ENST00000505799.1_1_5:37379427-37381852:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.2100830078125 2 450.208889 898.403226 2.771 0.0012475 0.03885 1.749E-05 2.8098 0.001265 450.20889474196963 37.043 0.39893 37.837 37.586 37.985 0.79342 38 17 3 0 0 0 2.5075E-05 1 16788 16788 142.08 15.514 1 1430300 2798 8507;925;8544 2035 2039 3033 3033 -0.050039616499134354 DASGPDPQL 9 Unmodified _DASGPDPQL_ 0 0 0 ENSG00000082068|ENST00000265107|WDR70;ENST00000450081.5_1_6:58285388-58287665:-|nuORF;ENST00000508973.5_1_5:21459626-21473494:+|nuORF;ENST00000607545.5_1_5:21459668-21501934:+|nuORF;ENST00000505799.1_1_5:37379427-37381852:+|nuORF;ENST00000509649.5_1_5:21459626-21462031:+|nuORF ENSG00000082068|ENST00000265107|WDR70;ENST00000505799.1_1_5:37379427-37381852:+|nuORF;ENST00000509649.5_1_5:21459626-21462031:+|nuORF ENST00000505799.1_1_5:37379427-37381852:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 899.4146118164062 1 899.410502 898.403226 4.0439 0.0036371 -0.27786 -0.00024991 3.7661 0.0033872 899.4100195730932 37.501 0.35067 37.762 37.6 37.951 0.26083 19 10 2 0 0 0 0.013715 2 17058 17058;17130 76.825 10.368 1 495650 2799 8507;925;8544 2035 2039 3034;3035 3034 -0.050039616499134354 DASGPDPQL 9 Unmodified _DASGPDPQL_ 0 0 0 ENSG00000082068|ENST00000265107|WDR70;ENST00000450081.5_1_6:58285388-58287665:-|nuORF;ENST00000508973.5_1_5:21459626-21473494:+|nuORF;ENST00000607545.5_1_5:21459668-21501934:+|nuORF;ENST00000505799.1_1_5:37379427-37381852:+|nuORF;ENST00000509649.5_1_5:21459626-21462031:+|nuORF ENSG00000082068|ENST00000265107|WDR70;ENST00000505799.1_1_5:37379427-37381852:+|nuORF;ENST00000509649.5_1_5:21459626-21462031:+|nuORF ENST00000505799.1_1_5:37379427-37381852:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.2103271484375 2 450.208889 898.403226 2.9549 0.0013303 0.3393 0.00015275 3.2942 0.0014831 450.20908814005037 37.5 0.44159 37.761 37.51 37.951 0.26083 33 13 3 0 0 0 0.0012766 2 17089 17089;17150 122.18 14.992 1 1563900 2800 8507;925;8544 2035 2039 3036;3037 3036 -0.050039616499134354 DASGPDPQL 9 Unmodified _DASGPDPQL_ 0 0 0 ENSG00000082068|ENST00000265107|WDR70;ENST00000450081.5_1_6:58285388-58287665:-|nuORF;ENST00000508973.5_1_5:21459626-21473494:+|nuORF;ENST00000607545.5_1_5:21459668-21501934:+|nuORF;ENST00000505799.1_1_5:37379427-37381852:+|nuORF;ENST00000509649.5_1_5:21459626-21462031:+|nuORF ENSG00000082068|ENST00000265107|WDR70;ENST00000505799.1_1_5:37379427-37381852:+|nuORF;ENST00000509649.5_1_5:21459626-21462031:+|nuORF ENST00000505799.1_1_5:37379427-37381852:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.2101745605469 2 450.208889 898.403226 3.1022 0.0013967 0.041926 1.8876E-05 3.1442 0.0014155 450.2089008699576 36.977 0.46194 37.607 37.377 37.839 0.62999 42 19 3 0 0 0 0.0010698 1 16922 16922 125.53 14.854 1 1365100 2801 8507;925;8544 2035 2039 3038 3038 -0.050039616499134354 DASGPDPQL 9 Unmodified _DASGPDPQL_ 0 0 0 ENSG00000082068|ENST00000265107|WDR70;ENST00000450081.5_1_6:58285388-58287665:-|nuORF;ENST00000508973.5_1_5:21459626-21473494:+|nuORF;ENST00000607545.5_1_5:21459668-21501934:+|nuORF;ENST00000505799.1_1_5:37379427-37381852:+|nuORF;ENST00000509649.5_1_5:21459626-21462031:+|nuORF ENSG00000082068|ENST00000265107|WDR70;ENST00000505799.1_1_5:37379427-37381852:+|nuORF;ENST00000509649.5_1_5:21459626-21462031:+|nuORF ENST00000505799.1_1_5:37379427-37381852:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 450.208889 898.403226 2.8844 0.0012986 0.29317 0.00013199 3.1775 0.0014306 450.2090878074696 37.81 0.37515 37.81 37.585 37.96 0 0.056493 0.00011324 NaN 142.08 32 14 3 NaN NaN NaN NaN 0 NaN NaN 0 1420100 2802 8507;925;8544 2035 2039 -0.050039616499134354 DASVEPDPL 9 Unmodified _DASVEPDPL_ 0 0 0 ENSG00000099795|ENST00000215565|NDUFB7 ENSG00000099795|ENST00000215565|NDUFB7 ENSG00000099795|ENST00000215565|NDUFB7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 471.72528076171875 2 471.724372 941.434192 2.9496 0.0013914 0.070312 3.3168E-05 3.0199 0.0014246 471.7242939667416 50.064 0.427 50.887 50.698 51.125 0.82285 31 19 2 0 0 0 0.047285 1 22804 22804 48.346 21.462 1 480890 2803 1149 2036 2040 3039 3039 -0.03886808335664682 DASVEPDPL 9 Unmodified _DASVEPDPL_ 0 0 0 ENSG00000099795|ENST00000215565|NDUFB7 ENSG00000099795|ENST00000215565|NDUFB7 ENSG00000099795|ENST00000215565|NDUFB7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 942.4434814453125 1 942.441468 941.434192 3.6735 0.0034621 1.0957 0.0010327 4.7693 0.0044947 942.4414732477755 50.382 0.38762 50.643 50.464 50.852 0.26146 25 18 2 0 0 0 0.071101 2 23021 23021;23063 39.957 19.504 1 746640 2804 1149 2036 2040 3040;3041 3040 -0.03886808335664682 DASVEPDPL 9 Unmodified _DASVEPDPL_ 0 0 0 ENSG00000099795|ENST00000215565|NDUFB7 ENSG00000099795|ENST00000215565|NDUFB7 ENSG00000099795|ENST00000215565|NDUFB7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.725830078125 2 471.724372 941.434192 2.8323 0.0013361 0.042206 1.991E-05 2.8745 0.001356 471.72438028984794 50.411 0.44424 50.672 50.464 50.909 0.26146 27 20 2 0 0 0 0.047285 1 23024 23024 48.346 21.462 1 872270 2805 1149 2036 2040 3042 3042 -0.03886808335664682 DASVEPDPL 9 Unmodified _DASVEPDPL_ 0 0 0 ENSG00000099795|ENST00000215565|NDUFB7 ENSG00000099795|ENST00000215565|NDUFB7 ENSG00000099795|ENST00000215565|NDUFB7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 942.4459228515625 1 942.441468 941.434192 3.8314 0.0036109 -0.11474 -0.00010814 3.7167 0.0035028 942.4412956412955 49.804 0.4184 50.461 50.34 50.758 0.65735 25 16 2 0 0 0 0.052704 2 22783 22783;22846 46.021 20.622 1 528590 2806 1149 2036 2040 3043;3044 3043 -0.03886808335664682 DASVEPDPL 9 Unmodified _DASVEPDPL_ 0 0 0 ENSG00000099795|ENST00000215565|NDUFB7 ENSG00000099795|ENST00000215565|NDUFB7 ENSG00000099795|ENST00000215565|NDUFB7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.7266845703125 2 471.724372 941.434192 2.965 0.0013987 0.65498 0.00030897 3.62 0.0017076 471.72462212459584 49.815 0.31024 50.472 50.419 50.729 0.65735 26 12 3 0 0 0 0.028312 2 22789 22789;22849 57.471 27.892 1 520020 2807 1149 2036 2040 3045;3046 3045 -0.03886808335664682 DASVEPDPL 9 Unmodified _DASVEPDPL_ 0 0 0 ENSG00000099795|ENST00000215565|NDUFB7 ENSG00000099795|ENST00000215565|NDUFB7 ENSG00000099795|ENST00000215565|NDUFB7 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 471.724372 941.434192 3.0287 0.0014287 -0.16497 -7.7818E-05 2.8638 0.0013509 471.72410451034193 50.784 0.26641 50.784 50.672 50.938 0 0.080074 -0.00029637 NaN 57.471 19 13 2 NaN NaN NaN NaN 0 NaN NaN 0 551170 2808 1149 2036 2040 -0.03886808335664682 DATPRPRA 8 Unmodified _DATPRPRA_ 0 0 0 ENST00000542532.5_1_12:118704541-118810640:-|nuORF;ENST00000392533.7_1_12:118704533-118810733:-|nuORF ENST00000542532.5_1_12:118704541-118810640:-|nuORF ENST00000542532.5_1_12:118704541-118810640:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 442.24237060546875 2 442.240858 882.467164 3.1577 0.0013965 0.6013 0.00026592 3.759 0.0016624 442.24104067779894 88.669 0.43404 88.92 88.688 89.122 0.25118 45 18 3 0 0 0 0.74709 1 40742 40742 2.0598 0.57785 1 2867200 2809 7517 2037 2041 3047 3047 0.021228632976999506 DAVEKLKQL 9 Unmodified _DAVEKLKQL_ 0 0 0 ENST00000555284.1_1_14:81736911-81745120:-|nuORF;nc|ENSG00000140022|Q8WXE9|STON2;nc|ENSG00000140022|Q8WXE9-3|STON2;ENSG00000140022|ENST00000614646|STON2 ENST00000555284.1_1_14:81736911-81745120:-|nuORF ENST00000555284.1_1_14:81736911-81745120:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.3111572265625 2 522.308406 1042.60226 3.3425 0.0017458 1.4897 0.00077807 4.8322 0.0025239 522.309133997119 35.55 0.45984 35.806 35.62 36.08 0.25524 24 15 2 0 0 0 0.19413 1 16230 16230 25.399 1.3787 1 1338600 2810 3177 2038 2042 3048 3048 0.0826629864880033 DAVQREYQL 9 Unmodified _DAVQREYQL_ 0 0 0 ENSG00000080986|ENST00000261597|NDC80 ENSG00000080986|ENST00000261597|NDC80 ENSG00000080986|ENST00000261597|NDC80 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.286865234375 2 561.28292 1120.55129 NaN NaN NaN NaN NaN NaN NaN 37.063 1 37.693 37.193 38.193 0.62999 0 0 0 0.48891 1 16964 16964 19.362 6.3195 1 2811 915 2039 2043 3049 3049 -0.004166503960504997 DAVVKHVL 8 Unmodified _DAVVKHVL_ 0 0 0 COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant;ENSG00000122218|ENST00000241704|COPA;nc|ENSG00000122218|P53621-2|COPA COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 440.7676086425781 2 440.766178 879.517802 3.1549 0.0013906 0.22486 9.911E-05 3.3798 0.0014897 440.7662534633972 28.15 0.2632 28.15 28.016 28.279 0 65 21 4 0 0 0 0.025972 2 12683 12640;12683 81.89 31.035 1 4650800 2812 242 2040 2044 3050;3051 3051 0.07322392622711504 DAVVKHVL 8 Unmodified _DAVVKHVL_ 0 0 0 COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant;ENSG00000122218|ENST00000241704|COPA;nc|ENSG00000122218|P53621-2|COPA COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 440.7676086425781 2 440.766178 879.517802 2.8549 0.0012584 0.019525 8.6062E-06 2.8745 0.001267 440.7661731128002 27.172 0.28562 27.951 27.828 28.114 0.7787 62 21 4 0 0 0 0.05432 2 12173 12173;12216 64.236 32.119 1 4457800 2813 242 2040 2044 3052;3053 3052 0.07322392622711504 DAVVKHVL 8 Unmodified _DAVVKHVL_ 0 0 0 COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant;ENSG00000122218|ENST00000241704|COPA;nc|ENSG00000122218|P53621-2|COPA COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 440.7674255371094 2 440.766178 879.517802 2.7669 0.0012196 0.43994 0.00019391 3.2069 0.0014135 440.7663311592224 27.694 0.31545 27.957 27.827 28.142 0.26245 63 19 4 0 0 0 0.025972 3 12610 12559;12610;12654 81.89 33.544 1 10522000 2814 242 2040 2044 3054;3055;3056 3055 0.07322392622711504 DAVVKHVL 8 Unmodified _DAVVKHVL_ 0 0 0 COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant;ENSG00000122218|ENST00000241704|COPA;nc|ENSG00000122218|P53621-2|COPA COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 440.7676696777344 2 440.766178 879.517802 2.9836 0.0013151 0.13035 5.7453E-05 3.1139 0.0013725 440.7662260288052 27.323 0.40245 27.945 27.763 28.165 0.62178 85 26 5 0 0 0 0.036198 3 12482 12482;12531;12575 71.922 32.037 1 11515000 2815 242 2040 2044 3057;3058;3059 3057 0.07322392622711504 DAWTINGNAL 10 Unmodified _DAWTINGNAL_ 0 0 0 REV__nc|ENSG00000106105|P41250-2|GARS1 REV__nc|ENSG00000106105|P41250-2|GARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 358.8450927734375 3 358.845334 1073.51417 2.1089 0.00075677 -2.184 -0.00078373 -0.075128 -2.6959E-05 358.8442842884236 13.337 0.15904 13.581 13.496 13.655 0.24346 22 12 2 0 0 0 0.82825 1 5808 5808 7.1017 1.3699 1 212380 + 2816 11073 2041 2045 3060 3060 -0.019643219418185254 DAYIPDCSSL 10 Unmodified _DAYIPDCSSL_ 0 0 0 ENSG00000105261|ENST00000633214|OVOL3 ENSG00000105261|ENST00000633214|OVOL3 ENSG00000105261|ENST00000633214|OVOL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.2378540039062 2 542.23679 1082.45903 NaN NaN NaN NaN NaN NaN NaN 51.054 1 51.714 51.214 52.214 0.65956 0 0 0 0.99464 1 23345 23345 6.2058 0.44535 1 2817 1481 2042 2046 3061 3061 -0.07890496524601076 DAYQKRLL 8 Unmodified _DAYQKRLL_ 0 0 0 nc|ENSG00000096696|P15924-2|DSP;nc|ENSG00000096696|P15924-3|DSP;DSP|p.F2623Lfs*19|1|0.11|ENSG00000096696|chr6:7585130-7585131|-/GAATATCATAC|frameshift_variant;ENSG00000096696|ENST00000379802|DSP nc|ENSG00000096696|P15924-2|DSP nc|ENSG00000096696|P15924-2|DSP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.1949157714844 3 336.194186 1005.56073 2.4003 0.00080697 -0.45886 -0.00015426 1.9415 0.00065271 336.1939424874272 26.98 0.21852 27.245 27.119 27.338 0.26489 18 14 3 0 0 0 0.44001 1 12267 12267 25.399 9.5521 1 181960 2818 279 2043 2047 3062 3062 0.05817162680148158 DAYQKRLL 8 Unmodified _DAYQKRLL_ 0 0 0 nc|ENSG00000096696|P15924-2|DSP;nc|ENSG00000096696|P15924-3|DSP;DSP|p.F2623Lfs*19|1|0.11|ENSG00000096696|chr6:7585130-7585131|-/GAATATCATAC|frameshift_variant;ENSG00000096696|ENST00000379802|DSP nc|ENSG00000096696|P15924-2|DSP nc|ENSG00000096696|P15924-2|DSP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.1949462890625 3 336.194186 1005.56073 NaN NaN NaN NaN NaN NaN NaN 26.592 1 27.215 26.715 27.715 0.62298 0 0 0 0.93399 1 12190 12190 10.074 3.3508 1 2819 279 2043 2047 3063 3063 0.05817162680148158 DAYQKRLL 8 Unmodified _DAYQKRLL_ 0 0 0 nc|ENSG00000096696|P15924-2|DSP;nc|ENSG00000096696|P15924-3|DSP;DSP|p.F2623Lfs*19|1|0.11|ENSG00000096696|chr6:7585130-7585131|-/GAATATCATAC|frameshift_variant;ENSG00000096696|ENST00000379802|DSP nc|ENSG00000096696|P15924-2|DSP nc|ENSG00000096696|P15924-2|DSP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.6053466796875 2 503.787641 1005.56073 NaN NaN NaN NaN NaN NaN NaN 26.631 1 27.252 26.752 27.752 0.62179 0 0 0 0.64864 1 12208 12208 16.942 4.4107 1 2820 279 2043 2047 3064 3064 0.05817162680148158 DAYRLVILQLL 11 Unmodified _DAYRLVILQLL_ 0 0 0 REV__nc|ENSG00000135773|O14815-2|CAPN9 REV__nc|ENSG00000135773|O14815-2|CAPN9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 658.9005737304688 2 658.900463 1315.78637 NaN NaN NaN NaN NaN NaN NaN 85.599 1 85.848 85.348 86.348 0.24857 0 0 0 1.0072 1 39389 39389 1.3295 0 1 + 2821 12037 2044 2048 3065 3065 0.14111067079511486 DAYRRIHSL 9 Unmodified _DAYRRIHSL_ 0 0 0 nc|ENSG00000185515|P46736-4|BRCC3;ENST00000453705.1_3_X:154299864-154348422:+|nuORF;ENSG00000185515|ENST00000330045|BRCC3;nc|ENSG00000185515|P46736-3|BRCC3;nc|ENSG00000185515|P46736|BRCC3 nc|ENSG00000185515|P46736-4|BRCC3 nc|ENSG00000185515|P46736-4|BRCC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 377.5409851074219 3 377.540357 1129.59924 NaN NaN NaN NaN NaN NaN NaN 19.463 1 19.677 19.177 20.177 0.21445 0 0 0 0.05082 1 8667 8667 53.317 18.385 1 2822 5514 2045 2049 3066 3066 0.039624683146712414 DAYRRIHSL 9 Unmodified _DAYRRIHSL_ 0 0 0 nc|ENSG00000185515|P46736-4|BRCC3;ENST00000453705.1_3_X:154299864-154348422:+|nuORF;ENSG00000185515|ENST00000330045|BRCC3;nc|ENSG00000185515|P46736-3|BRCC3;nc|ENSG00000185515|P46736|BRCC3 nc|ENSG00000185515|P46736-4|BRCC3 nc|ENSG00000185515|P46736-4|BRCC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 377.54150390625 3 377.540357 1129.59924 NaN NaN NaN NaN NaN NaN NaN 19.548 1 19.814 19.314 20.314 0.26616 0 0 0 0.063482 1 8700 8700 49.527 10.912 1 2823 5514 2045 2049 3067 3067 0.039624683146712414 DAYRRIHSL 9 Unmodified _DAYRRIHSL_ 0 0 0 nc|ENSG00000185515|P46736-4|BRCC3;ENST00000453705.1_3_X:154299864-154348422:+|nuORF;ENSG00000185515|ENST00000330045|BRCC3;nc|ENSG00000185515|P46736-3|BRCC3;nc|ENSG00000185515|P46736|BRCC3 nc|ENSG00000185515|P46736-4|BRCC3 nc|ENSG00000185515|P46736-4|BRCC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.5414123535156 3 377.540357 1129.59924 2.8784 0.0010867 -0.036079 -1.3621E-05 2.8423 0.0010731 377.5403348607913 19.762 0.30884 20.42 20.266 20.574 0.6583 70 23 4 0 0 0 0.023885 2 8983 8935;8983 63.227 63.227 1 1795000 2824 5514 2045 2049 3068;3069 3069 0.039624683146712414 DAYRRIHSL 9 Unmodified _DAYRRIHSL_ 0 0 0 nc|ENSG00000185515|P46736-4|BRCC3;ENST00000453705.1_3_X:154299864-154348422:+|nuORF;ENSG00000185515|ENST00000330045|BRCC3;nc|ENSG00000185515|P46736-3|BRCC3;nc|ENSG00000185515|P46736|BRCC3 nc|ENSG00000185515|P46736-4|BRCC3 nc|ENSG00000185515|P46736-4|BRCC3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 377.540357 1129.59924 2.8772 0.0010863 0.079153 2.9884E-05 2.9563 0.0011161 377.5404700947736 20.757 0.39551 20.757 20.528 20.924 0 0.16857 7.207E-05 NaN 63.227 97 35 4 NaN NaN NaN NaN 0 NaN NaN 0 933640 2825 5514 2045 2049 0.039624683146712414 DAYTKKEL 8 Unmodified _DAYTKKEL_ 0 0 0 ENSG00000137076|ENST00000314888|TLN1;nc|ENSG00000137076|Q9Y490-2|TLN1 ENSG00000137076|ENST00000314888|TLN1 ENSG00000137076|ENST00000314888|TLN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.25994873046875 2 484.258382 966.502212 3.2267 0.0015626 0.53758 0.00026033 3.7643 0.0018229 484.25864835420583 14.282 0.10317 14.282 14.228 14.331 0 14 7 3 0 0 0 0.103 1 6293 6293 53.404 19.002 1 560930 2826 2996 2046 2050 3070 3070 0.017620613149915698 DAYTKKEL 8 Unmodified _DAYTKKEL_ 0 0 0 ENSG00000137076|ENST00000314888|TLN1;nc|ENSG00000137076|Q9Y490-2|TLN1 ENSG00000137076|ENST00000314888|TLN1 ENSG00000137076|ENST00000314888|TLN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.2603759765625 2 484.258382 966.502212 3.309 0.0016024 0.42348 0.00020507 3.7325 0.0018075 484.2585546171879 13.28 0.3027 13.923 13.791 14.094 0.64272 47 23 3 0 0 0 0.0436 3 5971 5925;5971;6017 67.838 31.711 1 972290 2827 2996 2046 2050 3071;3072;3073 3072 0.017620613149915698 DCCCCCCCEE 10 Unmodified _DCCCCCCCEE_ 0 0 0 ENSG00000170075|ENST00000367282|GPR37L1 ENSG00000170075|ENST00000367282|GPR37L1 ENSG00000170075|ENST00000367282|GPR37L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.1023559570312 2 557.100769 1112.18699 NaN NaN NaN NaN NaN NaN NaN 47.071 1 47.071 46.571 47.571 0 0 0 0 1.002 1 21547 21547 0 0 1 2828 4731 2047 2051 3074 3074 -0.3646207579174643 DCCDGDDF 8 Unmodified _DCCDGDDF_ 0 0 0 REV__ENSG00000116183|ENST00000367662|PAPPA2 REV__ENSG00000116183|ENST00000367662|PAPPA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 445.1208190917969 2 445.120568 888.226583 NaN NaN NaN NaN NaN NaN NaN 102.05 1 102.65 102.15 103.15 0.59759 0 0 0 0.99035 1 47243 47243 0.69038 0 1 + 2829 11398 2048 2052 3075 3075 -0.22200081866844812 DCCGCTERVYT 11 Unmodified _DCCGCTERVYT_ 0 0 0 REV__nc|ENSG00000142173|P12110-3|COL6A2 REV__nc|ENSG00000142173|P12110-3|COL6A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 624.7529907226562 2 625.235941 1248.45733 NaN NaN NaN NaN NaN NaN NaN 66.495 1 67.152 66.652 67.652 0.65672 0 0 0 1.0072 1 30484 30484 1.3295 0 1 + 2830 12314 2049 2053 3076 3076 -0.15696196876501745 DCDEYITDPSC 11 Unmodified _DCDEYITDPSC_ 0 0 0 REV__ENSG00000198844|ENST00000361926|ARHGEF15 REV__ENSG00000198844|ENST00000361926|ARHGEF15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 420.8190612792969 3 420.818016 1259.43222 2.5127 0.0010574 -0.21642 -9.1075E-05 2.2962 0.0009663 420.8177329378465 34.502 0.32377 34.502 34.331 34.655 0 52 17 4 0 0 0 0.91068 1 15662 15662 0.45452 0 1 1353200 + 2831 14368 2050 2054 3077 3077 -0.18711973198082887 DCGMHMGFNDD 11 Unmodified _DCGMHMGFNDD_ 0 0 0 nc|ENSG00000127054|Q5TA45-2|INTS11;nc|ENSG00000127054|Q5TA45-4|INTS11;nc|ENSG00000127054|Q5TA45-3|INTS11;ENSG00000127054|ENST00000435064|INTS11;nc|ENSG00000127054|Q5TA45-5|INTS11;ENST00000493534.6_1_1:1255081-1259988:-|nuORF;ENST00000490853.5_1_1:1255198-1259988:-|nuORF;ENST00000498173.2_1_1:1256180-1260054:-|nuORF;ENST00000488042.6_1_1:1250056-1259988:-|nuORF;ENST00000532952.5_1_1:1255198-1259988:-|nuORF nc|ENSG00000127054|Q5TA45-2|INTS11;ENST00000532952.5_1_1:1255198-1259988:-|nuORF nc|ENSG00000127054|Q5TA45-2|INTS11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.7523803710938 2 621.204641 1240.39473 NaN NaN NaN NaN NaN NaN NaN 15.609 1 15.82 15.32 16.32 0.21108 0 0 0 1.008 1 6887 6887 0.30703 0.30703 1 2832 2473;8739 2051 2055 3078 3078 -0.21585342944695185 DCPCFCSCHC 10 Unmodified _DCPCFCSCHC_ 0 0 0 ENST00000472558.6_1_12:6657995-6658223:-|nuORF ENST00000472558.6_1_12:6657995-6658223:-|nuORF ENST00000472558.6_1_12:6657995-6658223:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.156494140625 2 559.155051 1116.29555 NaN NaN NaN NaN NaN NaN NaN 67.81 1 68.513 68.013 69.013 0.70218 0 0 0 1.002 1 32277 32277 0 0 1 2833 8189 2052 2056 3079 3079 -0.2579478043480776 DCVCSCEEE 9 Unmodified _DCVCSCEEE_ 0 0 0 REV__nc|ENSG00000140839|Q6UXF7|CLEC18B REV__nc|ENSG00000140839|Q6UXF7|CLEC18B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.7651062011719 2 508.653918 1015.29328 NaN NaN NaN NaN NaN NaN NaN 69.572 1 69.826 69.326 70.326 0.25443 0 0 0 0.90611 1 31859 31859 2.0598 1.535 1 + 2834 10032 2053 2057 3080 3080 -0.21375214367265016 DDCVDHAC 8 Unmodified _DDCVDHAC_ 0 0 0 ENSG00000187122|ENST00000266058|SLIT1 ENSG00000187122|ENST00000266058|SLIT1 ENSG00000187122|ENST00000266058|SLIT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 439.144775390625 2 439.144378 876.274202 NaN NaN NaN NaN NaN NaN NaN 12.115 1 12.376 11.876 12.876 0.26154 0 0 0 0.99035 1 5210 5210 0.69038 0.69038 1 2835 5602 2054 2058 3081 3081 -0.1688838287600447 DDDCQWQHI 9 Unmodified _DDDCQWQHI_ 0 0 0 nc|ENSG00000133858|O60293-2|ZFC3H1;ENSG00000133858|ENST00000378743|ZFC3H1 nc|ENSG00000133858|O60293-2|ZFC3H1 nc|ENSG00000133858|O60293-2|ZFC3H1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 580.2274780273438 2 580.227288 1158.44002 NaN NaN NaN NaN NaN NaN NaN 47.859 1 47.859 47.359 48.359 0 0 0 0 0.91206 1 21917 21917 0.6015 0 1 2836 2773 2055 2059 3082 3082 -0.1328603309564187 DDDDDCDDDES 11 Unmodified _DDDDDCDDDES_ 0 0 0 REV__ENSG00000189269|ENST00000317749|DRICH1 REV__ENSG00000189269|ENST00000317749|DRICH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 629.6646728515625 2 629.662234 1257.30991 NaN NaN NaN NaN NaN NaN NaN 50.957 1 51.218 50.718 51.718 0.26146 0 0 0 1.0082 1 23288 23288 0 0 1 + 2837 14178 2056 2060 3083 3083 -0.30844763466598124 DDDDDDDCDDD 11 Unmodified _DDDDDDDCDDD_ 0 0 0 REV__ENSG00000189269|ENST00000317749|DRICH1 REV__ENSG00000189269|ENST00000317749|DRICH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 636.6503295898438 2 636.651866 1271.28918 NaN NaN NaN NaN NaN NaN NaN 83.54 1 83.585 83.085 84.085 0.045006 0 0 0 1.0082 1 41480 41480 0 0 1 + 2838 14178 2057 2061 3084 3084 -0.3356135384628942 DDDDDDDDDDD 11 Unmodified _DDDDDDDDDDD_ 0 0 0 ENSG00000156802|ENST00000287394|ATAD2;ENST00000517666.5_1_8:124333376-124408650:-|nuORF;ENST00000521903.5_1_8:124361561-124413087:-|nuORF;ENST00000521496.5_1_8:124357024-124408597:-|nuORF;nc|ENSG00000156802|Q6PL18-2|ATAD2;ATAD2|p.L665Cfs*24|1|0.08|ENSG00000156802|chr8:123347311-123347312|-/AATTCAGAACAAATAAAACA|frameshift_variant;ENSG00000130528|ENST00000252825|HRC;ENST00000438918.1_1_2:204637659-204638058:-|nuORF;ENSG00000106819|ENST00000375544|ASPN;ENSG00000273841|ENST00000217893|TAF9;ASPN|p.K341Nfs*7|1|0.08|ENSG00000106819|chr9:92457408-92457408|T/-|frameshift_variant;nc|ENSG00000105176|O94763-2|URI1;nc|ENSG00000105176|O94763-4|URI1;nc|ENSG00000105176|O94763-3|URI1;ENSG00000105176|ENST00000392271|URI1 ENSG00000156802|ENST00000287394|ATAD2;REV__nc|ENSG00000105176|O94763-2|URI1;ASPN|p.K341Nfs*7|1|0.08|ENSG00000106819|chr9:92457408-92457408|T/-|frameshift_variant;nc|ENSG00000105176|O94763-2|URI1;REV__ENSG00000130528|ENST00000252825|HRC ENSG00000156802|ENST00000287394|ATAD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 642.2477416992188 2 642.660745 1283.30694 NaN NaN NaN NaN NaN NaN NaN 75.665 1 76.329 75.829 76.829 0.6635 0 0 0 1.0082 1 36643 36643 0 0 1 2839 3925;11018;70;1474;11821 2058 2062 3085 3085 -0.32338315319793765 DDDDDDDDGDE 11 Unmodified _DDDDDDDDGDE_ 0 0 0 ENSG00000230667|ENST00000596516|SETSIP;nc|ENSG00000230667|P0DME0-1|SETSIP ENSG00000230667|ENST00000596516|SETSIP ENSG00000230667|ENST00000596516|SETSIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.6670532226562 2 620.665831 1239.31711 NaN NaN NaN NaN NaN NaN NaN 24.932 1 25.669 25.169 26.169 0.73623 0 0 0 1.0082 1 11179 11179 0 0 1 2840 6180 2059 2063 3086 3086 -0.29297707594514577 DDDDDDDDM 9 Unmodified _DDDDDDDDM_ 0 0 0 REV__nc|ENSG00000108883|Q15029-2|EFTUD2 REV__nc|ENSG00000108883|Q15029-2|EFTUD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.6387939453125 2 535.640573 1069.26659 NaN NaN NaN NaN NaN NaN NaN 71.954 1 72.211 71.711 72.711 0.25786 0 0 0 0.91206 1 33018 33018 0.6015 0 1 + 2841 11162 2060 2064 3087 3087 -0.26526908453251963 DDDDDGDYT 9 Unmodified _DDDDDGDYT_ 0 0 0 REV__ENST00000430246.6_1_14:21731323-21731509:-|nuORF REV__ENST00000430246.6_1_14:21731323-21731509:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.6592407226562 2 515.659623 1029.30469 NaN NaN NaN NaN NaN NaN NaN 51.705 1 52.515 52.015 53.015 0.81065 0 0 0 0.91238 1 23552 23552 0.52476 0 1 + 2842 16252 2061 2065 3088 3088 -0.2087865447626882 DDDEYDSEMED 11 Unmodified _DDDEYDSEMED_ 0 0 0 ENST00000536336.5_1_11:18633859-18655855:-|nuORF;nc|ENSG00000179119|Q68D10-2|SPTY2D1;ENSG00000179119|ENST00000336349|SPTY2D1 ENST00000536336.5_1_11:18633859-18655855:-|nuORF ENST00000536336.5_1_11:18633859-18655855:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.81036376953125 3 454.810243 1361.4089 NaN NaN NaN NaN NaN NaN NaN 73.186 1 73.186 72.686 73.686 0 0 0 0 1.0082 1 35647 35647 0 0 1 2843 5200 2062 2066 3089 3089 -0.25734740501707165 DDDGGCSELSR 11 Unmodified _DDDGGCSELSR_ 0 0 0 ENSG00000182261|ENST00000691676|NLRP10 ENSG00000182261|ENST00000691676|NLRP10 ENSG00000182261|ENST00000691676|NLRP10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 385.154296875 3 385.152387 1152.43533 NaN NaN NaN NaN NaN NaN NaN 39.836 1 40.103 39.603 40.603 0.26696 0 0 0 1.0075 1 18123 18123 1.0136 0.051299 1 2844 5325 2063 2067 3090 3090 -0.1347896202908032 DDDSGDHD 8 Unmodified _DDDSGDHD_ 0 0 0 ENST00000498242.5_1_2:233415434-233422740:+|nuORF;nc|ENSG00000135930|O60573-2|EIF4E2;ENSG00000135930|ENST00000258416|EIF4E2;EIF4E2|p.R138Qfs*111|1|0.05|ENSG00000135930|chr2:232566865-232566866|-/AACTCTATAGAAAAACT|frameshift_variant ENST00000498242.5_1_2:233415434-233422740:+|nuORF ENST00000498242.5_1_2:233415434-233422740:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 438.13720703125 2 438.136118 874.257684 2.9669 0.0012999 -0.56994 -0.00024971 2.3969 0.0010502 438.13581030757433 52.867 0.35782 53.131 52.915 53.273 0.26345 26 18 2 0 0 0 0.7471 1 24193 24193 0.69038 0.69038 1 686110 2845 291 2064 2068 3091 3091 -0.18447469236741654 DDEDADNDDN 10 Unmodified _DDEDADNDDN_ 0 0 0 nc|ENSG00000198160|Q8N108-19|MIER1;nc|ENSG00000198160|Q8N108-16|MIER1;nc|ENSG00000198160|Q8N108-14|MIER1;nc|ENSG00000198160|Q8N108-18|MIER1;nc|ENSG00000198160|Q8N108-17|MIER1;nc|ENSG00000198160|Q8N108-15|MIER1;nc|ENSG00000198160|Q8N108|MIER1;nc|ENSG00000198160|Q8N108-13|MIER1;ENSG00000198160|ENST00000401041|MIER1 nc|ENSG00000198160|Q8N108-19|MIER1 nc|ENSG00000198160|Q8N108-19|MIER1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.8129272460938 2 569.176169 1136.33778 NaN NaN NaN NaN NaN NaN NaN 81.316 1 81.976 81.476 82.476 0.65998 0 0 0 1.0001 1 37465 37465 1.6526 0.96225 1 2846 5870 2065 2069 3092 3092 -0.22493072424231286 DDEDSGHSS 9 Unmodified _DDEDSGHSS_ 0 0 0 nc|ENSG00000118762|Q13563-3|PKD2;ENSG00000118762|ENST00000237596|PKD2;ENST00000512858.1_1_4:88986866-88996843:+|nuORF nc|ENSG00000118762|Q13563-3|PKD2 nc|ENSG00000118762|Q13563-3|PKD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.6651611328125 2 474.6625 947.310448 NaN NaN NaN NaN NaN NaN NaN 88.703 1 89.381 88.881 89.881 0.67818 0 0 0 0.91238 1 40849 40849 0.52476 0 1 2847 2123 2066 2070 3093 3093 -0.16531511173923263 DDEEDDEYYDE 11 Unmodified _DDEEDDEYYDE_ 0 0 0 REV__ENSG00000198700|ENST00000361565|IPO9 REV__ENSG00000198700|ENST00000361565|IPO9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 718.727783203125 2 718.728431 1435.44231 NaN NaN NaN NaN NaN NaN NaN 60.942 1 61.605 61.105 62.105 0.66261 0 0 0 1.008 1 27903 27903 0.30703 0.30703 1 + 2848 14349 2067 2071 3094 3094 -0.2579941545816382 DDEEMMDQ 8 Unmodified _DDEEMMDQ_ 0 0 0 nc|ENSG00000060709|O15034-3|RIMBP2;nc|ENSG00000060709|O15034|RIMBP2;ENSG00000060709|ENST00000690449|RIMBP2 nc|ENSG00000060709|O15034-3|RIMBP2 nc|ENSG00000060709|O15034-3|RIMBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.66552734375 2 506.66534 1011.31613 NaN NaN NaN NaN NaN NaN NaN 89.457 1 89.708 89.208 90.208 0.25118 0 0 0 0.99035 1 41144 41144 5.7604 3.4577 1 2849 644 2068 2072 3095 3095 -0.18907871978126423 DDEEMNIL 8 Unmodified _DDEEMNIL_ 0 0 0 ENST00000478736.1_1_7:31887580-31890349:-|nuORF;nc|ENSG00000154678|Q14123-2|PDE1C;ENSG00000154678|ENST00000396191|PDE1C;nc|ENSG00000154678|Q14123-3|PDE1C ENST00000478736.1_1_7:31887580-31890349:-|nuORF ENST00000478736.1_1_7:31887580-31890349:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 489.677001953125 2 489.707865 977.401177 NaN NaN NaN NaN NaN NaN NaN 58.616 1 59.375 58.875 59.875 0.75894 0 0 0 0.94507 1 26893 26893 9.3474 2.9933 1 2850 3833 2069 2073 3096 3096 -0.088427584499982 DDEPLASIF 9 Unmodified _DDEPLASIF_ 0 0 0 REV__nc|ENSG00000085511|Q9Y6R4-2|MAP3K4 REV__nc|ENSG00000085511|Q9Y6R4-2|MAP3K4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.74005126953125 2 503.740022 1005.46549 3.4721 0.0017491 -0.44971 -0.00022654 3.0224 0.0015225 503.73962222147236 67.771 0.4563 68.023 67.821 68.277 0.25227 69 28 3 0 0 0 0.12301 1 31101 31101 28.487 6.7402 1 1648600 + 2851 10647 2070 2074 3097 3097 -0.03702235301568635 DDEPLASIF 9 Unmodified _DDEPLASIF_ 0 0 0 REV__nc|ENSG00000085511|Q9Y6R4-2|MAP3K4 REV__nc|ENSG00000085511|Q9Y6R4-2|MAP3K4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.7403869628906 2 503.740022 1005.46549 3.2299 0.001627 -1.0411 -0.00052443 2.1889 0.0011026 503.73918659710546 67.314 0.5168 67.972 67.721 68.238 0.65777 73 31 3 0 0 0 0.028312 4 30846 30794;30846;30891;30895 57.471 17.514 1 1298700 + 2852 10647 2070 2074 3098;3099;3100;3101 3099 -0.03702235301568635 DDEPLASIF 9 Unmodified _DDEPLASIF_ 0 0 0 REV__nc|ENSG00000085511|Q9Y6R4-2|MAP3K4 REV__nc|ENSG00000085511|Q9Y6R4-2|MAP3K4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 503.740022 1005.46549 3.2299 0.001627 -1.0411 -0.00052443 2.1889 0.0011026 503.73918659710546 67.314 0.5168 67.972 67.721 68.238 0.65777 -0.025711 -0.00024298 NaN 57.471 73 31 3 NaN NaN NaN NaN 0 NaN NaN 0 1298700 + 2853 10647 2070 2074 -0.03702235301568635 DDEPQVPSI 9 Unmodified _DDEPQVPSI_ 0 0 0 REV__ENSG00000128218|ENST00000248948|VPREB3 REV__ENSG00000128218|ENST00000248948|VPREB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.2369079589844 2 500.235104 998.455655 3.1051 0.0015533 0.57506 0.00028767 3.6802 0.001841 500.2353313114631 37.65 0.52791 37.65 37.407 37.935 0 34 20 2 0 0 0 0.19064 1 17165 17165 24.021 5.8742 1 555840 + 2854 11759 2071 2075 3102 3102 -0.04363423306926961 DDFDDDDDD 9 Unmodified _DDFDDDDDD_ 0 0 0 REV__nc|ENSG00000181163|P06748-3|NPM1 REV__nc|ENSG00000181163|P06748-3|NPM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.6541748046875 2 543.654538 1085.29452 NaN NaN NaN NaN NaN NaN NaN 61.487 1 62.149 61.649 62.649 0.66261 0 0 0 0.91452 1 28159 28159 0 0 1 + 2855 13845 2072 2076 3103 3103 -0.24471262201495847 DDFDDDDDDED 11 Unmodified _DDFDDDDDDED_ 0 0 0 REV__nc|ENSG00000181163|P06748-3|NPM1 REV__nc|ENSG00000181163|P06748-3|NPM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 666.091064453125 2 665.689306 1329.36406 NaN NaN NaN NaN NaN NaN NaN 20.156 1 20.156 19.656 20.656 0 0 0 0 1.0082 1 9007 9007 0 0 1 + 2856 13845 2073 2077 3104 3104 -0.28744848043379534 DDGDDDDDDDN 11 Unmodified _DDGDDDDDDDN_ 0 0 0 REV__ENST00000483012.1_1_7:148516133-148534012:-|nuORF REV__ENST00000483012.1_1_7:148516133-148534012:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.1671752929688 2 613.165998 1224.31744 NaN NaN NaN NaN NaN NaN NaN 98.961 1 99.261 98.761 99.761 0.29987 0 0 0 1.0082 1 45661 45661 0 0 1 + 2857 11084 2074 2078 3105 3105 -0.28574287874675974 DDGDDDGDDG 10 Unmodified _DDGDDDGDDG_ 0 0 0 nc|ENSG00000152583|Q14515-2|SPARCL1;ENSG00000152583|ENST00000282470|SPARCL1 nc|ENSG00000152583|Q14515-2|SPARCL1 nc|ENSG00000152583|Q14515-2|SPARCL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.1394348144531 2 498.139055 994.263557 NaN NaN NaN NaN NaN NaN NaN 86.019 1 86.019 85.519 86.519 0 0 0 0 1.002 1 43970 43970 0 0 1 2858 3756 2075 2079 3106 3106 -0.23380415515725872 DDGGYMDA 8 Unmodified _DDGGYMDA_ 0 0 0 REV__ENST00000505020.1_1_5:26881247-26890759:-|nuORF REV__ENST00000505020.1_1_5:26881247-26890759:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.14605712890625 2 422.144901 842.275248 NaN NaN NaN NaN NaN NaN NaN 84.507 1 85.173 84.673 85.673 0.66566 0 0 0 0.99035 1 38924 38924 0.69038 0 1 + 2859 11289 2076 2080 3107 3107 -0.15219845235446883 DDHHWEPWFKR 11 Unmodified _DDHHWEPWFKR_ 0 0 0 REV__ENST00000461803.1_1_6:99729042-99732030:-|nuORF REV__ENST00000461803.1_1_6:99729042-99732030:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 776.8606567382812 2 776.857649 1551.70075 NaN NaN NaN NaN NaN NaN NaN 105.83 1 105.87 105.37 106.37 0.04837 0 0 0 1.0072 1 57268 57268 1.3295 0.9789 1 + 2860 12469 2077 2081 3108 3108 -0.05303705053461272 DDKLELQYR 9 Unmodified _DDKLELQYR_ 0 0 0 REV__ENST00000490265.5_1_X:13771424-13787224:+|nuORF REV__ENST00000490265.5_1_X:13771424-13787224:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.8723449707031 3 393.87166 1178.59315 2.7249 0.0010733 0.10813 4.259E-05 2.833 0.0011158 393.87165776166694 15.433 1.0353 15.739 15.355 16.39 0.306 192 113 2 0 0 0 0.98132 1 7003 7003 2.4985 0 1 164420 + 2861 16798 2078 2082 3109 3109 0.010999052924717034 DDKLELQYR 9 Unmodified _DDKLELQYR_ 0 0 0 REV__ENST00000490265.5_1_X:13771424-13787224:+|nuORF REV__ENST00000490265.5_1_X:13771424-13787224:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8731384277344 3 393.87166 1178.59315 2.9222 0.001151 0.75594 0.00029774 3.6782 0.0014487 393.8718647202667 15.487 0.55182 16.141 15.86 16.412 0.65356 127 76 3 0 0 0 0.98132 1 7032 7032 2.4985 0 1 108030 + 2862 16798 2078 2082 3110 3110 0.010999052924717034 DDKWQDEEE 9 Unmodified _DDKWQDEEE_ 0 0 0 REV__ENSG00000168263|ENST00000382082|KCNV2 REV__ENSG00000168263|ENST00000382082|KCNV2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.23291015625 2 597.23329 1192.45203 NaN NaN NaN NaN NaN NaN NaN 67.32 1 67.57 67.07 68.07 0.2501 0 0 0 0.91206 1 30839 30839 0.6015 0 1 + 2863 13337 2079 2083 3111 3111 -0.13650137871491097 DDLEPDDSL 9 Unmodified _DDLEPDDSL_ 0 0 0 ENSG00000153896|ENST00000329285|ZNF599 ENSG00000153896|ENST00000329285|ZNF599 ENSG00000153896|ENST00000329285|ZNF599 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.7130432128906 2 509.714202 1017.41385 NaN NaN NaN NaN NaN NaN NaN 61.226 1 61.479 60.979 61.979 0.25245 0 0 0 0.90699 1 28039 28039 1.8442 1.0506 1 2864 3793 2080 2084 3112 3112 -0.09416023786127425 DDNDDDDDGSC 11 Unmodified _DDNDDDDDGSC_ 0 0 0 REV__ENST00000322002.4_1_2:5834175-5834352:+|nuORF REV__ENST00000322002.4_1_2:5834175-5834352:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 593.3159790039062 2 593.159661 1184.30477 NaN NaN NaN NaN NaN NaN NaN 45.295 1 46.121 45.621 46.621 0.82621 0 0 0 1.0082 1 20630 20630 0 0 1 + 2865 15325 2081 2085 3113 3113 -0.28001022538569487 DDNKLRGLPL 10 Unmodified _DDNKLRGLPL_ 0 0 0 ENSG00000114771|ENST00000232892|AADAC ENSG00000114771|ENST00000232892|AADAC ENSG00000114771|ENST00000232892|AADAC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 380.8865051269531 3 380.8839 1139.62987 NaN NaN NaN NaN NaN NaN NaN 62.096 1 62.827 62.327 63.327 0.73077 0 0 0 0.9952 1 28894 28894 3.0723 0 1 2866 1921 2082 2086 3114 3114 0.06564201909054646 DDNQDYNRPV 10 Unmodified _DDNQDYNRPV_ 0 0 0 ENST00000502249.6_1_4:119401524-119435218:+|nuORF;nc|ENSG00000143702|Q5SW79-2|CEP170;nc|ENSG00000143702|Q5SW79-3|CEP170;ENSG00000143702|ENST00000366542|CEP170 ENST00000502249.6_1_4:119401524-119435218:+|nuORF ENST00000502249.6_1_4:119401524-119435218:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 412.51513671875 3 412.514424 1234.52144 2.8375 0.0011705 -0.38718 -0.00015972 2.4503 0.0010108 412.5141694309256 21.84 0.33265 21.84 21.67 22.002 0 45 27 2 0 0 0 0.9406 1 9778 9778 0.77653 0.50751 1 214680 2867 3388 2083 2087 3115 3115 -0.08643634132045008 DDNQDYNRPV 10 Unmodified _DDNQDYNRPV_ 0 0 0 ENST00000502249.6_1_4:119401524-119435218:+|nuORF;nc|ENSG00000143702|Q5SW79-2|CEP170;nc|ENSG00000143702|Q5SW79-3|CEP170;ENSG00000143702|ENST00000366542|CEP170 ENST00000502249.6_1_4:119401524-119435218:+|nuORF ENST00000502249.6_1_4:119401524-119435218:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 412.514424 1234.52144 3.0834 0.0012719 -0.67227 -0.00027732 2.4111 0.00099461 412.51414432374514 20.946 0.11858 21.599 21.501 21.62 0.65346 -0.12007 -0.0002417 NaN 0.77653 11 8 2 NaN NaN NaN NaN 0 NaN NaN 0 131280 2868 3388 2083 2087 -0.08643634132045008 DDQSPLVSL 9 Unmodified _DDQSPLVSL_ 0 0 0 REV__ENST00000514463.1_1_3:126157220-126159113:-|nuORF REV__ENST00000514463.1_1_3:126157220-126159113:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.2470397949219 2 487.245472 972.476391 3.2204 0.0015691 0.18681 9.1022E-05 3.4072 0.0016602 487.2455445223159 60.136 0.22012 60.801 60.781 61.001 0.66503 22 12 2 0 0 0 0.071101 1 27603 27603 39.957 1.9833 1 1263900 + 2869 17007 2084 2088 3116 3116 -0.010948329272878254 DDRHYNIPVR 10 Unmodified _DDRHYNIPVR_ 0 0 0 ENSG00000154124|ENST00000284274|OTULIN ENSG00000154124|ENST00000284274|OTULIN ENSG00000154124|ENST00000284274|OTULIN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 642.8262329101562 2 642.825818 1283.63708 NaN NaN NaN NaN NaN NaN NaN 101.84 1 101.84 101.34 102.34 0 0 0 0 0.99774 1 56256 56256 3.5965 0.31518 1 2870 3802 2085 2089 3117 3117 0.006609345094375385 DDSFYPFEDEE 11 Unmodified _DDSFYPFEDEE_ 0 0 0 ENSG00000164236|ENST00000296657|ANKRD33B ENSG00000164236|ENST00000296657|ANKRD33B ENSG00000164236|ENST00000296657|ANKRD33B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.84344482421875 3 464.841984 1391.50412 2.8939 0.0013452 0.40658 0.000189 3.3005 0.0015342 464.84223206164205 53.123 0.30856 53.123 52.936 53.245 0 41 16 3 0 0 0 0.88721 2 24340 24288;24340 1.3296 0.63198 1 1743900 2871 4298 2086 2090 3118;3119 3119 -0.17597019248364631 DDSFYPFEDEE 11 Unmodified _DDSFYPFEDEE_ 0 0 0 ENSG00000164236|ENST00000296657|ANKRD33B ENSG00000164236|ENST00000296657|ANKRD33B ENSG00000164236|ENST00000296657|ANKRD33B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.8435363769531 3 464.841984 1391.50412 2.2182 0.0010311 0.41843 0.0001945 2.6367 0.0012256 464.842076179323 51.792 0.31298 52.602 52.432 52.745 0.81065 57 21 4 0 0 0 0.88721 1 23606 23606 1.2148 0 1 2550300 2872 4298 2086 2090 3120 3120 -0.17597019248364631 DDYRAWDL 8 Unmodified _DDYRAWDL_ 0 0 0 nc|ENSG00000188659|Q658L1-2|SAXO2;nc|ENSG00000188659|Q658L1|SAXO2;ENSG00000188659|ENST00000682753|SAXO2 nc|ENSG00000188659|Q658L1-2|SAXO2 nc|ENSG00000188659|Q658L1-2|SAXO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.2345581054688 2 527.235439 1052.45632 3.1131 0.0016414 0.59713 0.00031483 3.7103 0.0019562 527.2357652553761 58.343 0.26963 58.343 58.302 58.572 0 43 26 2 0 0 0 0.31901 1 26976 26976 34.102 0 1 2636600 2873 5676 2087 2091 3121 3121 -0.06780583867248424 DDYRAWDL 8 Unmodified _DDYRAWDL_ 0 0 0 nc|ENSG00000188659|Q658L1-2|SAXO2;nc|ENSG00000188659|Q658L1|SAXO2;ENSG00000188659|ENST00000682753|SAXO2 nc|ENSG00000188659|Q658L1-2|SAXO2 nc|ENSG00000188659|Q658L1-2|SAXO2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 527.235439 1052.45632 2.9368 0.0015484 -0.32752 -0.00017268 2.6093 0.0013757 527.2352141266234 57.461 0.099609 58.23 58.211 58.311 0.76861 -0.10493 -0.0007989 NaN 34.102 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 2034300 2874 5676 2087 2091 -0.06780583867248424 DDYRAWDL 8 Unmodified _DDYRAWDL_ 0 0 0 nc|ENSG00000188659|Q658L1-2|SAXO2;nc|ENSG00000188659|Q658L1|SAXO2;ENSG00000188659|ENST00000682753|SAXO2 nc|ENSG00000188659|Q658L1-2|SAXO2 nc|ENSG00000188659|Q658L1-2|SAXO2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 527.235439 1052.45632 3.2538 0.0017155 0.85328 0.00044988 4.1071 0.0021654 527.2359350221002 58.169 0.19732 58.432 58.248 58.446 0.26227 0.096913 0.00044622 NaN 34.102 17 10 2 NaN NaN NaN NaN 0 NaN NaN 0 1530300 2875 5676 2087 2091 -0.06780583867248424 DDYSARPPSL 10 Unmodified _DDYSARPPSL_ 0 0 0 REV__ENSG00000239306|ENST00000310137|RBM14 REV__ENSG00000239306|ENST00000310137|RBM14 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.489013671875 3 374.180494 1119.51965 2.803 0.0010488 -1.6685 -0.00062431 1.1346 0.00042453 374.1797862470471 36.669 0.6809 36.669 36.487 37.168 0 36 29 2 0 0 0 0.12676 1 16861 16861 5.0475 3.1411 1 233160 + 2876 14600 2088 2092 3122 3122 -0.03532643149992509 DDYSARPPSL 10 Unmodified _DDYSARPPSL_ 0 0 0 REV__ENSG00000239306|ENST00000310137|RBM14 REV__ENSG00000239306|ENST00000310137|RBM14 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 374.180494 1119.51965 2.7285 0.001021 -1.9947 -0.00074636 0.73388 0.00027461 374.1797053271757 36.489 0.46658 36.747 36.33 36.797 0.25768 0.039193 -0.00021827 NaN 5.0475 25 18 2 NaN NaN NaN NaN 0 NaN NaN 0 260630 + 2877 14600 2088 2092 -0.03532643149992509 DDYYYYGP 8 Unmodified _DDYYYYGP_ 0 0 0 nc|ENSG00000271793|O60506-5|SYNCRIP;nc|ENSG00000271793|O60506-4|SYNCRIP;nc|ENSG00000271793|O60506-3|SYNCRIP;chr6:85641451-85641990|481|13.22|0.81|4.04|-|ENST00000677059|SYNCRIP,SYNCRIP;nc|ENSG00000271793|O60506-2|SYNCRIP;ENSG00000135316|ENST00000369622|SYNCRIP nc|ENSG00000271793|O60506-5|SYNCRIP nc|ENSG00000271793|O60506-5|SYNCRIP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1055.569091796875 1 1055.39927 1054.39199 3.2277 0.0034065 -3.8995 -0.0041156 -0.67188 -0.0007091 1056.3987502342368 45.507 0.12159 45.507 45.43 45.552 0 7 5 2 0 0 0 0.14249 1 20800 20800 2.8892 0 1 570000 2878 9863 2089 2093 3123 3123 -0.1330278374405225 DDYYYYGP 8 Unmodified _DDYYYYGP_ 0 0 0 nc|ENSG00000271793|O60506-5|SYNCRIP;nc|ENSG00000271793|O60506-4|SYNCRIP;nc|ENSG00000271793|O60506-3|SYNCRIP;chr6:85641451-85641990|481|13.22|0.81|4.04|-|ENST00000677059|SYNCRIP,SYNCRIP;nc|ENSG00000271793|O60506-2|SYNCRIP;ENSG00000135316|ENST00000369622|SYNCRIP nc|ENSG00000271793|O60506-5|SYNCRIP nc|ENSG00000271793|O60506-5|SYNCRIP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 1055.39927 1054.39199 3.4704 0.0036627 -5.8249 -0.0061476 -2.3545 -0.0024849 1056.3982128940836 44.878 0.15824 45.698 45.598 45.756 0.82074 0.095503 -0.00097421 NaN 2.8892 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 796330 2879 9863 2089 2093 -0.1330278374405225 DEAFFDSEN 9 Unmodified _DEAFFDSEN_ 0 0 0 ENSG00000119285|ENST00000366582|HEATR1 ENSG00000119285|ENST00000366582|HEATR1 ENSG00000119285|ENST00000366582|HEATR1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.7525634765625 2 537.206544 1072.39853 2.9767 0.0015991 -0.94832 -0.00050944 2.0283 0.0010896 537.2057115523279 52.157 0.31789 52.419 52.202 52.52 0.26227 29 19 2 0 0 0 0.10586 1 23856 23856 7.9102 1.187 1 916710 2880 2136 2090 2094 3124 3124 -0.134768905833198 DEAFFDSEN 9 Unmodified _DEAFFDSEN_ 0 0 0 ENSG00000119285|ENST00000366582|HEATR1 ENSG00000119285|ENST00000366582|HEATR1 ENSG00000119285|ENST00000366582|HEATR1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.7527465820312 2 537.206544 1072.39853 3.0829 0.0016562 -0.92458 -0.00049669 2.1583 0.0011595 537.2061288583575 51.538 0.2654 52.198 52.022 52.288 0.65956 29 14 3 0 0 0 0.10586 1 23595 23595 7.9102 1.187 1 319370 2881 2136 2090 2094 3125 3125 -0.134768905833198 DEAGEKEAKSD 11 Unmodified _DEAGEKEAKSD_ 0 0 0 ENST00000288344.14_1_21:40715040-40717785:-|nuORF;ENST00000490032.5_1_21:40715040-40720258:-|nuORF;ENSG00000205581|ENST00000380749|HMGN1 ENST00000288344.14_1_21:40715040-40717785:-|nuORF ENST00000288344.14_1_21:40715040-40717785:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.7009887695312 2 589.762214 1177.50988 NaN NaN NaN NaN NaN NaN NaN 17.289 1 17.489 16.989 17.989 0.20057 0 0 0 0.724 1 7647 7647 22.775 13.392 1 2882 6052 2091 2095 3126 3126 -0.07177875946035783 DECCDCVGMCN 11 Unmodified _DECCDCVGMCN_ 0 0 0 ENSG00000128791|ENST00000262120|TWSG1 ENSG00000128791|ENST00000262120|TWSG1 ENSG00000128791|ENST00000262120|TWSG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 596.1661376953125 2 596.165812 1190.31707 NaN NaN NaN NaN NaN NaN NaN 78.125 1 78.787 78.287 79.287 0.66198 0 0 0 1.0082 1 36002 36002 0 0 1 2883 2527 2092 2096 3127 3127 -0.2704744019672489 DECDDDDDN 9 Unmodified _DECDDDDDN_ 0 0 0 ENSG00000113296|ENST00000350881|THBS4 ENSG00000113296|ENST00000350881|THBS4 ENSG00000113296|ENST00000350881|THBS4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.9434814453125 2 528.14074 1054.26693 NaN NaN NaN NaN NaN NaN NaN 63.165 1 63.887 63.387 64.387 0.72236 0 0 0 0.91206 1 29562 29562 0.6015 0.6015 1 2884 1845 2093 2097 3128 3128 -0.2580348873339062 DECEDVDEC 9 Unmodified _DECEDVDEC_ 0 0 0 REV__ENSG00000119681|ENST00000261978|LTBP2 REV__ENSG00000119681|ENST00000261978|LTBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.6599731445312 2 528.660254 1055.30596 NaN NaN NaN NaN NaN NaN NaN 80.272 1 80.272 79.772 80.772 0 0 0 0 0.91206 1 39813 39813 0.6015 0.6015 1 + 2885 11508 2094 2098 3129 3129 -0.21948479703360135 DECFYHFMEQH 11 Unmodified _DECFYHFMEQH_ 0 0 0 REV__nc|ENSG00000204616|Q9BZY9-2|TRIM31 REV__nc|ENSG00000204616|Q9BZY9-2|TRIM31 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 743.2831420898438 2 743.281737 1484.54892 NaN NaN NaN NaN NaN NaN NaN 100.08 1 100.39 99.889 100.89 0.30835 0 0 0 1.0072 1 46282 46282 1.3295 0 1 + 2886 14431 2095 2099 3130 3130 -0.17397190187693923 DECFYRNFDYQ 11 Unmodified _DECFYRNFDYQ_ 0 0 0 REV__ENSG00000141449|ENST00000424526|GREB1L REV__ENSG00000141449|ENST00000424526|GREB1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.430908203125 3 500.53472 1498.58233 NaN NaN NaN NaN NaN NaN NaN 62.009 1 62.009 61.509 62.509 0 0 0 0 1.0082 1 29007 29007 0.094841 0 1 + 2887 12289 2096 2100 3131 3131 -0.147018651441158 DEDCIDYF 8 Unmodified _DEDCIDYF_ 0 0 0 REV__nc|ENSG00000138315|Q8WWZ8-2|OIT3 REV__nc|ENSG00000138315|Q8WWZ8-2|OIT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.1895751953125 2 510.186765 1018.35898 3.1564 0.0016104 0.45805 0.00023369 3.6145 0.0018441 510.187054548316 52.305 0.22358 52.967 52.849 53.073 0.66198 18 9 2 0 0 0 0.65723 1 23909 23909 9.3474 0.75416 1 317250 + 2888 12156 2097 2101 3132 3132 -0.1494673385839178 DEDDDDDGSE 10 Unmodified _DEDDDDDGSE_ 0 0 0 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1;nc|ENSG00000086758|Q7Z6Z7-3|HUWE1;ENSG00000086758|ENST00000262854|HUWE1 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 371.1014404296875 3 371.11091 1110.3109 NaN NaN NaN NaN NaN NaN NaN 66.21 1 66.21 65.71 66.71 0 0 0 0 1.0018 1 31622 31622 0.15932 0 1 2889 987 2098 2102 3133 3133 -0.23984181035393703 DEDDDEDEHGG 11 Unmodified _DEDDDEDEHGG_ 0 0 0 EIF2AK4|p.K1062Nfs*10|1|0.05|ENSG00000128829|chr15:40002738-40002739|-/TGGGAAG|frameshift_variant;EIF2AK4|p.L1134*|1|0.22|ENSG00000128829|chr15:40007057-40007057|T/-|frameshift_variant;nc|ENSG00000128829|Q9P2K8-2|EIF2AK4;ENSG00000128829|ENST00000263791|EIF2AK4 EIF2AK4|p.K1062Nfs*10|1|0.05|ENSG00000128829|chr15:40002738-40002739|-/TGGGAAG|frameshift_variant EIF2AK4|p.K1062Nfs*10|1|0.05|ENSG00000128829|chr15:40002738-40002739|-/TGGGAAG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 616.5326538085938 2 616.694726 1231.3749 NaN NaN NaN NaN NaN NaN NaN 71.707 1 71.707 71.207 72.207 0 0 0 0 1.0057 1 34861 34861 3.2813 1.2216 1 2890 290 2099 2103 3134 3134 -0.2315340087848199 DEDDDNDN 8 Unmodified _DEDDDNDN_ 0 0 0 REV__ENSG00000219481|ENST00000430580|NBPF1 REV__ENSG00000219481|ENST00000430580|NBPF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 476.2935485839844 2 476.14414 950.273728 NaN NaN NaN NaN NaN NaN NaN 67.342 1 68.044 67.544 68.544 0.70218 0 0 0 0.99035 1 32005 32005 0.79363 0 1 + 2891 14536 2100 2104 3135 3135 -0.20339807790503528 DEDDHEDHDDS 11 Unmodified _DEDDHEDHDDS_ 0 0 0 nc|ENSG00000101746|O94818-4|NOL4;ENST00000586314.5_1_18:31432808-31708839:-|nuORF;nc|ENSG00000101746|O94818-2|NOL4;nc|ENSG00000101746|O94818-3|NOL4;ENSG00000101746|ENST00000261592|NOL4 nc|ENSG00000101746|O94818-4|NOL4 nc|ENSG00000101746|O94818-4|NOL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 443.2293395996094 3 443.476364 1327.40726 NaN NaN NaN NaN NaN NaN NaN 60.607 1 61.347 60.847 61.847 0.7396 0 0 0 1.0082 1 27996 27996 0.094841 0 1 2892 1311 2101 2105 3136 3136 -0.24334613475457445 DEDEDDEWDD 10 Unmodified _DEDEDDEWDD_ 0 0 0 ENSG00000015285|ENST00000376701|WAS ENSG00000015285|ENST00000376701|WAS ENSG00000015285|ENST00000376701|WAS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.5768432617188 2 641.696934 1281.37932 NaN NaN NaN NaN NaN NaN NaN 92.296 1 92.296 91.796 92.796 0 0 0 0 1.0015 1 49009 49009 0.45834 0.057624 1 2893 438 2102 2106 3137 3137 -0.25011936455530304 DEDEDYERERR 11 Unmodified _DEDEDYERERR_ 0 0 0 ENST00000467214.1_1_10:6146929-6148209:+|nuORF;ENSG00000134453|ENST00000379888|RBM17 ENST00000467214.1_1_10:6146929-6148209:+|nuORF ENST00000467214.1_1_10:6146929-6148209:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.5861511230469 3 504.550086 1510.62843 NaN NaN NaN NaN NaN NaN NaN 73.041 1 73.041 72.541 73.541 0 0 0 0 1.0082 1 35560 35560 0.094841 0 1 2894 2811 2103 2107 3138 3138 -0.10646128708344804 DEDNEHWI 8 Unmodified _DEDNEHWI_ 0 0 0 nc|ENSG00000137474|Q13402-3|MYO7A;nc|ENSG00000137474|Q13402-4|MYO7A;nc|ENSG00000137474|Q13402-5|MYO7A;nc|ENSG00000137474|Q13402-8|MYO7A;nc|ENSG00000137474|Q13402-2|MYO7A;nc|ENSG00000137474|Q13402-7|MYO7A;nc|ENSG00000137474|Q13402-6|MYO7A;ENSG00000137474|ENST00000409709|MYO7A nc|ENSG00000137474|Q13402-3|MYO7A nc|ENSG00000137474|Q13402-3|MYO7A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.2128295898438 2 529.214703 1056.41485 NaN NaN NaN NaN NaN NaN NaN 36.721 1 37.515 37.015 38.015 0.79342 0 0 0 0.99035 1 16641 16641 2.3027 0.24298 1 2895 3019 2104 2108 3139 3139 -0.1110976462657618 DEDSDDDGSD 10 Unmodified _DEDSDDDGSD_ 0 0 0 nc|ENSG00000153827|Q14669|TRIP12;nc|ENSG00000153827|Q14669-2|TRIP12;nc|ENSG00000153827|Q14669-3|TRIP12;ENSG00000153827|ENST00000675903|TRIP12;TRIP12|p.I1368Yfs*4|1|0.34|ENSG00000153827|chr2:229791954-229791955|-/A|frameshift_variant;nc|ENSG00000153827|Q14669-4|TRIP12;ENST00000470302.5_1_2:230656574-230657731:-|nuORF nc|ENSG00000153827|Q14669|TRIP12 nc|ENSG00000153827|Q14669|TRIP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.1779174804688 2 535.157445 1068.30034 NaN NaN NaN NaN NaN NaN NaN 68.842 1 68.842 68.342 69.342 0 0 0 0 1.0015 1 33175 33175 0.45834 0 1 2896 3792 2105 2109 3140 3140 -0.23108163689835237 DEDSMDGC 8 Unmodified _DEDSMDGC_ 0 0 0 REV__LRP2|p.N4549Kfs*8|1|0.33|ENSG00000081479|chr2:169132655-169132655|A/-|frameshift_variant REV__LRP2|p.N4549Kfs*8|1|0.33|ENSG00000081479|chr2:169132655-169132655|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.46759033203125 2 436.125851 870.237148 NaN NaN NaN NaN NaN NaN NaN 62.927 1 63.65 63.15 64.15 0.72236 0 0 0 0.99035 1 29424 29424 0.79363 0 1 + 2897 10609 2106 2110 3141 3141 -0.20316099212402605 DEECDEWHDFD 11 Unmodified _DEECDEWHDFD_ 0 0 0 REV__ENSG00000173809|ENST00000639142|TDRD12 REV__ENSG00000173809|ENST00000639142|TDRD12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 720.2382202148438 2 720.238246 1438.46194 NaN NaN NaN NaN NaN NaN NaN 100.63 1 100.63 100.13 101.13 0 0 0 0 1.008 1 55563 55563 0.30703 0 1 + 2898 13613 2107 2111 3142 3142 -0.23975317928398 DEECDEWHDFD 11 Unmodified _DEECDEWHDFD_ 0 0 0 REV__ENSG00000173809|ENST00000639142|TDRD12 REV__ENSG00000173809|ENST00000639142|TDRD12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.4872131347656 3 480.49459 1438.46194 NaN NaN NaN NaN NaN NaN NaN 74.313 1 75 74.5 75.5 0.68662 0 0 0 1.008 1 35916 35916 0.094841 0 1 + 2899 13613 2107 2111 3143 3143 -0.23975317928398 DEEDEESSC 9 Unmodified _DEEDEESSC_ 0 0 0 REV__nc|ENSG00000058272|O14974-5|PPP1R12A REV__nc|ENSG00000058272|O14974-5|PPP1R12A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.685546875 2 521.661309 1041.30806 NaN NaN NaN NaN NaN NaN NaN 63.982 1 63.982 63.482 64.482 0 0 0 0 0.91206 1 30202 30202 0.6015 0 1 + 2900 10380 2108 2112 3144 3144 -0.21093727693892106 DEEDGYEDYYY 11 Unmodified _DEEDGYEDYYY_ 0 0 0 NAP1L2|p.D200E|1|0.06|ENSG00000186462|chrX:73213893-73213893|G/C|missense_variant NAP1L2|p.D200E|1|0.06|ENSG00000186462|chrX:73213893-73213893|G/C|missense_variant NAP1L2|p.D200E|1|0.06|ENSG00000186462|chrX:73213893-73213893|G/C|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.50531005859375 3 487.50526 1459.49395 NaN NaN NaN NaN NaN NaN NaN 70.302 1 70.302 69.802 70.802 0 0 0 0 1.008 1 34088 34088 0.094841 0 1 2901 9529 2109 2113 3145 3145 -0.2174162697358497 DEEDTDFE 8 Unmodified _DEEDTDFE_ 0 0 0 nc|ENSG00000136098|P51956-2|NEK3;ENSG00000136098|ENST00000610828|NEK3;ENST00000550331.1_1_13:52707280-52707970:-|nuORF nc|ENSG00000136098|P51956-2|NEK3 nc|ENSG00000136098|P51956-2|NEK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.17626953125 2 500.174909 998.335265 3.2732 0.0016372 -0.82666 -0.00041348 2.4465 0.0012237 500.17440787912363 33.424 0.42866 33.678 33.45 33.878 0.25389 89 22 6 0 0 0 0.70799 1 15187 15187 5.2307 0 1 4232900 2902 2927 2110 2114 3146 3146 -0.16396876091221202 DEEEELRERRE 11 Unmodified _DEEEELRERRE_ 0 0 0 SH3D19|p.L516Qfs*23|1|0.1|ENSG00000109686|chr4:151137841-151137842|-/TTGTAAGTGGGTTGTGTTTGTTTTAATTT|frameshift_variant;ENSG00000109686|ENST00000604030|SH3D19 SH3D19|p.L516Qfs*23|1|0.1|ENSG00000109686|chr4:151137841-151137842|-/TTGTAAGTGGGTTGTGTTTGTTTTAATTT|frameshift_variant SH3D19|p.L516Qfs*23|1|0.1|ENSG00000109686|chr4:151137841-151137842|-/TTGTAAGTGGGTTGTGTTTGTTTTAATTT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 745.3461303710938 2 745.347508 1488.68046 NaN NaN NaN NaN NaN NaN NaN 42.241 1 42.888 42.388 43.388 0.64693 0 0 0 1.0073 1 19348 19348 1.1933 0 1 2903 1682 2111 2115 3147 3147 -0.04432965294608948 DEEGFCSG 8 Unmodified _DEEGFCSG_ 0 0 0 ENSG00000130158|ENST00000294618|DOCK6 ENSG00000130158|ENST00000294618|DOCK6 ENSG00000130158|ENST00000294618|DOCK6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.1460876464844 2 422.144901 842.275248 NaN NaN NaN NaN NaN NaN NaN 17.852 1 18.153 17.653 18.653 0.30158 0 0 0 0.99035 1 8086 8086 2.5775 1.7838 1 2904 2575 2112 2116 3148 3148 -0.15219845235435514 DEEMVDMM 8 Unmodified _DEEMVDMM_ 0 0 0 ENSG00000011260|ENST00000225298|UTP18;UTP18|p.D147G|1|0.29|ENSG00000011260|chr17:51263371-51263371|A/G|missense_variant;ENST00000591191.1_1_18:43608486-43608675:+|nuORF ENSG00000011260|ENST00000225298|UTP18;ENST00000591191.1_1_18:43608486-43608675:+|nuORF ENSG00000011260|ENST00000225298|UTP18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.12115478515625 3 333.787111 998.339505 2.0432 0.000682 -2.3194 -0.0007742 -0.27621 -9.2194E-05 334.1208876328733 32.792 0.22533 33.579 33.475 33.701 0.78795 20 15 2 0 0 0 0.7471 1 14866 14866 0.45834 0 1 616010 2905 409;9233 2113 2117 3149 3149 -0.1597314946516235 DEEMVDMM 8 Unmodified _DEEMVDMM_ 0 0 0 ENSG00000011260|ENST00000225298|UTP18;UTP18|p.D147G|1|0.29|ENSG00000011260|chr17:51263371-51263371|A/G|missense_variant;ENST00000591191.1_1_18:43608486-43608675:+|nuORF ENSG00000011260|ENST00000225298|UTP18;ENST00000591191.1_1_18:43608486-43608675:+|nuORF ENSG00000011260|ENST00000225298|UTP18 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 333.787111 998.339505 2.4715 0.00082495 -3.1757 -0.00106 -0.7042 -0.00023505 333.7854363735969 33.409 0.19344 33.663 33.527 33.721 0.25389 0.056901 -0.00068131 NaN 0.45834 20 8 3 NaN NaN NaN NaN 0 NaN NaN 0 301270 2906 409;9233 2113 2117 -0.1597314946516235 DEEMVDMM 8 Unmodified _DEEMVDMM_ 0 0 0 ENSG00000011260|ENST00000225298|UTP18;UTP18|p.D147G|1|0.29|ENSG00000011260|chr17:51263371-51263371|A/G|missense_variant;ENST00000591191.1_1_18:43608486-43608675:+|nuORF ENSG00000011260|ENST00000225298|UTP18;ENST00000591191.1_1_18:43608486-43608675:+|nuORF ENSG00000011260|ENST00000225298|UTP18 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 333.787111 998.339505 2.1864 0.0007298 -1.9724 -0.00065836 0.21404 7.1442E-05 334.1212026217232 32.957 0.25661 33.575 33.407 33.664 0.61831 -0.030629 0.00052361 NaN 0.45834 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 308850 2907 409;9233 2113 2117 -0.1597314946516235 DEEVLEETAL 10 Unmodified _DEEVLEETAL_ 0 0 0 ENSG00000133704|ENST00000256079|IPO8;nc|ENSG00000133704|O15397-2|IPO8 ENSG00000133704|ENST00000256079|IPO8 ENSG00000133704|ENST00000256079|IPO8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.2733764648438 2 574.271884 1146.52921 3.5284 0.0020263 0.80085 0.0004599 4.3292 0.0024862 574.2721404174339 32.944 0.59673 33.198 32.955 33.552 0.25389 61 26 4 0 0 0 0.55057 1 14946 14946 19.257 1.1106 1 1257000 2908 2767 2114 2118 3150 3150 -0.03818919655122954 DEEYDEEDYER 11 Unmodified _DEEYDEEDYER_ 0 0 0 nc|ENSG00000103995|O94986-1|CEP152;nc|ENSG00000103995|O94986-2|CEP152;nc|ENSG00000103995|O94986-3|CEP152;ENSG00000103995|ENST00000380950|CEP152;ENST00000559630.1_1_15:49097750-49103222:-|nuORF;ENST00000559444.1_1_15:49090143-49103222:-|nuORF nc|ENSG00000103995|O94986-1|CEP152 nc|ENSG00000103995|O94986-1|CEP152 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 746.2744750976562 2 746.27334 1490.53213 NaN NaN NaN NaN NaN NaN NaN 97.53 1 97.6 97.1 98.1 0.070648 0 0 0 1.008 1 52176 52176 0.35063 0 1 2909 1419 2115 2119 3151 3151 -0.19351741058926564 DEGKYFHRV 9 Unmodified _DEGKYFHRV_ 0 0 0 REV__nc|ENSG00000038532|Q2KHT3-2|CLEC16A REV__nc|ENSG00000038532|Q2KHT3-2|CLEC16A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.7528076171875 2 575.78563 1149.55671 NaN NaN NaN NaN NaN NaN NaN 50.286 1 51.108 50.608 51.608 0.82285 0 0 0 0.90699 1 22906 22906 1.8442 0 1 + 2910 17858 2116 2120 3152 3152 -0.012089268135923703 DEHEMDDYEYE 11 Unmodified _DEHEMDDYEYE_ 0 0 0 REV__ENSG00000167721|ENST00000301364|TSR1 REV__ENSG00000167721|ENST00000301364|TSR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 737.7513427734375 2 737.751186 1473.48782 NaN NaN NaN NaN NaN NaN NaN 70.61 1 70.866 70.366 71.366 0.25642 0 0 0 1.0082 1 32338 32338 0 0 1 + 2911 13304 2117 2121 3153 3153 -0.22998468476725975 DEMDDDDDDDD 11 Unmodified _DEMDDDDDDDD_ 0 0 0 nc|ENSG00000108883|Q15029-3|EFTUD2;ENSG00000108883|ENST00000426333|EFTUD2;ENST00000589825.5_1_17:42960950-42971889:-|nuORF nc|ENSG00000108883|Q15029-3|EFTUD2 nc|ENSG00000108883|Q15029-3|EFTUD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 657.6768798828125 2 657.675341 1313.33613 NaN NaN NaN NaN NaN NaN NaN 29.14 1 29.929 29.429 30.429 0.78921 0 0 0 1.0082 1 13131 13131 0 0 1 2912 1658 2118 2122 3154 3154 -0.30800494295158387 DEMESDYEDDD 11 Unmodified _DEMESDYEDDD_ 0 0 0 REV__ENST00000536336.5_1_11:18633859-18655855:-|nuORF REV__ENST00000536336.5_1_11:18633859-18655855:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.7383117675781 3 454.810243 1361.4089 NaN NaN NaN NaN NaN NaN NaN 63.178 1 63.178 62.678 63.678 0 0 0 0 1.0082 1 29693 29693 0.094841 0 1 + 2913 13784 2119 2123 3155 3155 -0.257347405017299 DEMWLMLDRVM 11 Unmodified _DEMWLMLDRVM_ 0 0 0 REV__ENST00000496323.1_1_2:54880712-54887220:+|nuORF REV__ENST00000496323.1_1_2:54880712-54887220:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 720.0328979492188 2 719.830008 1437.64546 NaN NaN NaN NaN NaN NaN NaN 92.241 1 92.323 91.823 92.823 0.082848 0 0 0 1.0057 1 48019 48019 3.2813 0.28607 1 + 2914 11356 2120 2124 3156 3156 -0.055853389521189456 DENGYCFD 8 Unmodified _DENGYCFD_ 0 0 0 REV__nc|ENSG00000144406|Q8N2C7-7|UNC80 REV__nc|ENSG00000144406|Q8N2C7-7|UNC80 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 481.8670654296875 2 481.663457 961.312362 NaN NaN NaN NaN NaN NaN NaN 71.829 1 72.533 72.033 73.033 0.70386 0 0 0 0.99035 1 34538 34538 0.79363 0 1 + 2915 12401 2121 2125 3157 3157 -0.16984173689684212 DENSEENNEG 10 Unmodified _DENSEENNEG_ 0 0 0 REV__ENSG00000029559|ENST00000226284|IBSP REV__ENSG00000029559|ENST00000226284|IBSP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.70166015625 2 568.702354 1135.39015 NaN NaN NaN NaN NaN NaN NaN 58.085 1 58.853 58.353 59.353 0.76861 0 0 0 0.99733 1 26628 26628 3.9444 0 1 + 2916 10286 2122 2126 3158 3158 -0.1721248929061403 DEPADYFEETD 11 Unmodified _DEPADYFEETD_ 0 0 0 REV__nc|ENSG00000131725|Q5JSH3-4|WDR44 REV__nc|ENSG00000131725|Q5JSH3-4|WDR44 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 665.7529296875 2 665.751512 1329.48847 NaN NaN NaN NaN NaN NaN NaN 70.384 1 71.087 70.587 71.587 0.70302 0 0 0 1.0059 1 33722 33722 2.9952 1.5133 1 + 2917 11864 2123 2127 3159 3159 -0.16309305765412319 DEPAQPEFG 9 Unmodified _DEPAQPEFG_ 0 0 0 REV__ENST00000464277.1_3_15:57999049-57999157:+|nuORF REV__ENST00000464277.1_3_15:57999049-57999157:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.2155456542969 2 495.214172 988.413791 NaN NaN NaN NaN NaN NaN NaN 67.124 1 67.124 66.624 67.624 0 0 0 0 0.84134 1 32131 32131 7.9102 0 1 + 2918 14672 2124 2128 3160 3160 -0.08087978995456524 DEPARDGEWS 10 Unmodified _DEPARDGEWS_ 0 0 0 ENST00000361832.2_1_10:102045868-102046416:-|nuORF ENST00000361832.2_1_10:102045868-102046416:-|nuORF ENST00000361832.2_1_10:102045868-102046416:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.24267578125 2 581.243992 1160.47343 NaN NaN NaN NaN NaN NaN NaN 61.885 1 61.885 61.385 62.385 0 0 0 0 0.96627 1 28926 28926 10.824 3.5347 1 2919 7229 2125 2129 3161 3161 -0.1003870805209317 DEPAYEDI 8 Unmodified _DEPAYEDI_ 0 0 0 REV__COL11A1|p.S555Kfs*3|1|0.25|ENSG00000060718|chr1:103008482-103008483|-/T|frameshift_variant REV__COL11A1|p.S555Kfs*3|1|0.25|ENSG00000060718|chr1:103008482-103008483|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 476.2022399902344 2 476.20073 950.386907 NaN NaN NaN NaN NaN NaN NaN 60.624 1 61.363 60.863 61.863 0.7396 0 0 0 0.99035 1 28006 28006 5.2307 2.3415 1 + 2920 10068 2126 2130 3162 3162 -0.09027087606648365 DEPMDEDEDE 10 Unmodified _DEPMDEDEDE_ 0 0 0 REV__UBE2Q1|p.E193D|1|0.11|ENSG00000160714|chr1:154554744-154554744|C/A|missense_variant REV__UBE2Q1|p.E193D|1|0.11|ENSG00000160714|chr1:154554744-154554744|C/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 612.1962890625 2 612.198255 1222.38196 NaN NaN NaN NaN NaN NaN NaN 64.289 1 65.005 64.505 65.505 0.71521 0 0 0 1.0001 1 30278 30278 1.6526 0.17072 1 + 2921 18242 2127 2131 3163 3163 -0.2203380432222275 DEPMPFDSFC 10 Unmodified _DEPMPFDSFC_ 0 0 0 REV__ENST00000209929.9_1_1:171154426-171178089:+|nuORF REV__ENST00000209929.9_1_1:171154426-171178089:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 594.2244873046875 2 594.222825 1186.4311 NaN NaN NaN NaN NaN NaN NaN 76.322 1 76.579 76.079 77.079 0.25704 0 0 0 0.99733 1 35138 35138 3.9444 0 1 + 2922 14794 2128 2132 3164 3164 -0.154661427763358 DEPNYDNSA 9 Unmodified _DEPNYDNSA_ 0 0 0 REV__ENST00000265070.6_1_5:32125201-32125306:-|nuORF REV__ENST00000265070.6_1_5:32125201-32125306:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 342.1544494628906 3 342.133321 1023.37813 NaN NaN NaN NaN NaN NaN NaN 66.505 1 66.754 66.254 67.254 0.24848 0 0 0 0.90611 1 30468 30468 1.0715 0 1 + 2923 15030 2129 2133 3165 3165 -0.1326206124313103 DEPQNRMTKY 10 Unmodified _DEPQNRMTKY_ 0 0 0 nc|ENSG00000179776|P33151-2|CDH5;ENSG00000179776|ENST00000341529|CDH5 nc|ENSG00000179776|P33151-2|CDH5 nc|ENSG00000179776|P33151-2|CDH5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.9745483398438 2 641.298244 1280.58194 NaN NaN NaN NaN NaN NaN NaN 61.155 1 61.895 61.395 62.395 0.7396 0 0 0 0.99733 1 28321 28321 3.9444 0 1 2924 5229 2130 2134 3166 3166 -0.04713240073306224 DEPRETESICN 11 Unmodified _DEPRETESICN_ 0 0 0 REV__nc|ENSG00000168826|Q6ZSB9-4|ZBTB49 REV__nc|ENSG00000168826|Q6ZSB9-4|ZBTB49 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 646.7762451171875 2 646.774799 1291.53504 NaN NaN NaN NaN NaN NaN NaN 62.014 1 62.745 62.245 63.245 0.73077 0 0 0 1.0061 1 28845 28845 2.7352 0.89096 1 + 2925 13368 2131 2135 3167 3167 -0.09906144415117524 DEPRIWYAHSD 11 Unmodified _DEPRIWYAHSD_ 0 0 0 REV__ENSG00000040933|ENST00000409851|INPP4A REV__ENSG00000040933|ENST00000409851|INPP4A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.59075927734375 3 463.545836 1387.61568 NaN NaN NaN NaN NaN NaN NaN 65.689 1 65.689 65.189 66.189 0 0 0 0 1.0072 1 31309 31309 0.45452 0 1 + 2926 10317 2132 2136 3168 3168 -0.06262495309920268 DEPRIWYAHSD 11 Unmodified _DEPRIWYAHSD_ 0 0 0 REV__ENSG00000040933|ENST00000409851|INPP4A REV__ENSG00000040933|ENST00000409851|INPP4A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.5458679199219 3 463.545836 1387.61568 NaN NaN NaN NaN NaN NaN NaN 65.221 1 65.93 65.43 66.43 0.70891 0 0 0 1.0072 1 30816 30816 0.45452 0 1 + 2927 10317 2132 2136 3169 3169 -0.06262495309920268 DEPRIWYAHSD 11 Unmodified _DEPRIWYAHSD_ 0 0 0 REV__ENSG00000040933|ENST00000409851|INPP4A REV__ENSG00000040933|ENST00000409851|INPP4A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.372802734375 3 463.545836 1387.61568 NaN NaN NaN NaN NaN NaN NaN 73.309 1 73.568 73.068 74.068 0.25876 0 0 0 1.0072 1 33670 33670 0.45452 0 1 + 2928 10317 2132 2136 3170 3170 -0.06262495309920268 DEPWYWYIRDS 11 Unmodified _DEPWYWYIRDS_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.5606994628906 3 510.561375 1528.66229 NaN NaN NaN NaN NaN NaN NaN 75.337 1 75.594 75.094 76.094 0.25704 0 0 0 1.0057 1 34663 34663 1.3296 0.87513 1 + 2929 12747 2133 2137 3171 3171 -0.08089055478649243 DEQQDEMEDF 10 Unmodified _DEQQDEMEDF_ 0 0 0 nc|ENSG00000054523|O60333-2|KIF1B;ENSG00000054523|ENST00000676179|KIF1B;nc|ENSG00000054523|O60333-4|KIF1B nc|ENSG00000054523|O60333-2|KIF1B nc|ENSG00000054523|O60333-2|KIF1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 643.2307739257812 2 643.22989 1284.44523 NaN NaN NaN NaN NaN NaN NaN 107.47 1 107.52 107.02 108.02 0.045425 0 0 0 1.0003 1 58090 58090 1.4819 0.15237 1 2930 608 2134 2138 3172 3172 -0.18561818814350772 DEQVWHVI 8 Unmodified _DEQVWHVI_ 0 0 0 REV__ENST00000462086.1_1_X:153207964-153209081:-|nuORF REV__ENST00000462086.1_1_X:153207964-153209081:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.2561645507812 2 513.256174 1024.49779 2.7414 0.001407 0.21105 0.00010832 2.9524 0.0015153 513.2562767105865 72.712 0.33219 73.411 73.308 73.64 0.69881 50 29 2 0 0 0 0.5438 1 35030 35030 18.135 1.1927 1 1857700 + 2931 10916 2135 2139 3173 3173 -0.013474031079113047 DEQVWHVI 8 Unmodified _DEQVWHVI_ 0 0 0 REV__ENST00000462086.1_1_X:153207964-153209081:-|nuORF REV__ENST00000462086.1_1_X:153207964-153209081:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.256591796875 2 513.256174 1024.49779 3.1062 0.0015943 -0.1307 -6.7083E-05 2.9755 0.0015272 513.2562431522044 73.501 0.34921 73.76 73.601 73.95 0.25876 55 32 2 0 0 0 0.5438 1 33790 33790 18.135 5.6034 1 1304400 + 2932 10916 2135 2139 3174 3174 -0.013474031079113047 DEQVWHVI 8 Unmodified _DEQVWHVI_ 0 0 0 REV__ENST00000462086.1_1_X:153207964-153209081:-|nuORF REV__ENST00000462086.1_1_X:153207964-153209081:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.2587280273438 2 513.256174 1024.49779 2.8128 0.0014437 0.11773 6.0424E-05 2.9305 0.0015041 513.2561899687533 72.975 0.32718 73.639 73.491 73.818 0.66398 56 32 2 0 0 0 0.5438 1 33486 33486 18.135 5.6034 1 1514400 + 2933 10916 2135 2139 3175 3175 -0.013474031079113047 DERFKVIMKN 10 Unmodified _DERFKVIMKN_ 0 0 0 REV__ENST00000493134.1_1_3:44840780-44854740:+|nuORF REV__ENST00000493134.1_1_3:44840780-44854740:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.7815551757812 2 640.344997 1278.67544 NaN NaN NaN NaN NaN NaN NaN 85.534 1 85.563 85.063 86.063 0.028603 0 0 0 0.99774 1 42839 42839 3.5965 0.8613 1 + 2934 13029 2136 2140 3176 3176 0.047251040997707605 DESFVVMV 8 Unmodified _DESFVVMV_ 0 0 0 REV__nc|ENSG00000083307|Q6ISB3-2|GRHL2 REV__nc|ENSG00000083307|Q6ISB3-2|GRHL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 925.43798828125 1 925.433546 924.426269 3.9995 0.0037012 -0.105 -9.7175E-05 3.8944 0.0036041 925.4338167210298 69.295 0.18764 69.549 69.436 69.623 0.25443 16 11 2 0 0 0 0.42655 1 31722 31722 26.341 11.76 1 243980 + 2935 10626 2137 2141 3177 3177 -0.03896658856774593 DESRHRRKF 9 Unmodified _DESRHRRKF_ 0 0 0 REV__nc|ENSG00000100207|Q9UGU0-2|TCF20 REV__nc|ENSG00000100207|Q9UGU0-2|TCF20 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 616.0311889648438 2 615.826152 1229.63775 NaN NaN NaN NaN NaN NaN NaN 89.787 1 89.787 89.287 90.287 0 0 0 0 0.8984 1 46998 46998 3.9444 0.66309 1 + 2936 10810 2138 2142 3178 3178 0.03211773949169583 DESTVNVLT 9 Unmodified _DESTVNVLT_ 0 0 0 REV__ENST00000559764.2_1_15:88675272-88679265:-|nuORF REV__ENST00000559764.2_1_15:88675272-88679265:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 977.47900390625 1 977.478582 976.471305 3.5864 0.0035057 0.35065 0.00034275 3.9371 0.0038484 977.479011848533 38.007 0.33281 38.641 38.438 38.771 0.63388 18 11 2 0 0 0 0.80651 1 17434 17434 7.2892 0.56607 1 482470 + 2937 12255 2139 2143 3179 3179 -0.017871367899147117 DETLHSPSL 9 Unmodified _DETLHSPSL_ 0 0 0 REV__nc|ENSG00000123200|Q5T200-2|ZC3H13 REV__nc|ENSG00000123200|Q5T200-2|ZC3H13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.4023742675781 2 499.743096 997.47164 2.9586 0.0014785 -0.18995 -9.4929E-05 2.7686 0.0013836 499.7429130977915 36.008 0.3215 36.008 35.845 36.167 0 32 20 2 0 0 0 0.041436 1 16318 16318 50.855 2.5092 1 740840 + 2938 11609 2140 2144 3180 3180 -0.027197170700446804 DETPNDKFVAP 11 Unmodified _DETPNDKFVAP_ 0 0 0 REV__nc|ENSG00000261371|P16284-5|PECAM1 REV__nc|ENSG00000261371|P16284-5|PECAM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.7945556640625 2 616.793318 1231.57208 NaN NaN NaN NaN NaN NaN NaN 99.933 1 99.995 99.495 100.5 0.062241 0 0 0 1.0038 1 54114 54114 5.7319 0.43497 1 + 2939 14692 2141 2145 3181 3181 -0.03444104807044823 DEWDDDDDFD 10 Unmodified _DEWDDDDDFD_ 0 0 0 REV__ENSG00000197299|ENST00000355112|BLM REV__ENSG00000197299|ENST00000355112|BLM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 643.5941162109375 2 643.702019 1285.38949 NaN NaN NaN NaN NaN NaN NaN 94.472 1 94.559 94.059 95.059 0.086212 0 0 0 1.0015 1 49713 49713 0.45834 0.057624 1 + 2940 14270 2142 2146 3182 3182 -0.2417932873031532 DEWRRQRRQRR 11 Unmodified _DEWRRQRRQRR_ 0 0 0 REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 821.4475708007812 2 821.448894 1640.88323 NaN NaN NaN NaN NaN NaN NaN 101.58 1 101.58 101.08 102.08 0 0 0 0 1.008 1 56118 56118 0.35063 0.043601 1 + 2941 11619 2143 2147 3183 3183 0.08842867131829735 DEWRRQRRQRR 11 Unmodified _DEWRRQRRQRR_ 0 0 0 REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.92822265625 3 547.968355 1640.88323 NaN NaN NaN NaN NaN NaN NaN 76.489 1 77.113 76.613 77.613 0.62397 0 0 0 1.008 1 37078 37078 0.094841 0.094841 1 + 2942 11619 2143 2147 3184 3184 0.08842867131829735 DEYEDEDQWED 11 Unmodified _DEYEDEDQWED_ 0 0 0 nc|ENSG00000196235|O00267-2|SUPT5H;ENSG00000196235|ENST00000432763|SUPT5H;ENST00000595368.5_1_19:39936232-39948556:+|nuORF nc|ENSG00000196235|O00267-2|SUPT5H nc|ENSG00000196235|O00267-2|SUPT5H MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.7845764160156 3 491.503919 1471.48993 NaN NaN NaN NaN NaN NaN NaN 62.939 1 62.939 62.439 63.439 0 0 0 0 1.0082 1 29551 29551 0.094841 0 1 2943 5728 2144 2148 3185 3185 -0.2269571646731947 DEYEPRRRD 9 Unmodified _DEYEPRRRD_ 0 0 0 nc|ENSG00000146143|P49643-2|PRIM2;ENST00000419977.4_1_6:57182469-57246993:+|nuORF;ENSG00000146143|ENST00000615550|PRIM2 nc|ENSG00000146143|P49643-2|PRIM2 nc|ENSG00000146143|P49643-2|PRIM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 617.9904174804688 2 618.291808 1234.56906 NaN NaN NaN NaN NaN NaN NaN 100.26 1 100.56 100.06 101.06 0.30835 0 0 0 0.90699 1 46370 46370 1.8442 0.19162 1 2944 3503 2145 2149 3186 3186 -0.038839351411979806 DEYKRRWEEEY 11 Unmodified _DEYKRRWEEEY_ 0 0 0 nc|ENSG00000010295|Q0D2I5|IFFO1;nc|ENSG00000010295|Q0D2I5-7|IFFO1;nc|ENSG00000010295|Q0D2I5-4|IFFO1;nc|ENSG00000010295|Q0D2I5-5|IFFO1;ENSG00000010295|ENST00000619571|IFFO1 nc|ENSG00000010295|Q0D2I5|IFFO1 nc|ENSG00000010295|Q0D2I5|IFFO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.130615234375 3 534.910955 1601.71104 NaN NaN NaN NaN NaN NaN NaN 69.965 1 69.965 69.465 70.465 0 0 0 0 1.0082 1 33875 33875 0.094841 0.094841 1 2945 398 2146 2150 3187 3187 -0.0657518690948109 DEYRQDYD 8 Unmodified _DEYRQDYD_ 0 0 0 ENST00000463783.1_1_3:196663884-196664019:-|nuORF;ENST00000467803.1_1_3:196662357-196664019:-|nuORF;nc|ENSG00000114503|P52298-3|NCBP2;nc|ENSG00000114503|P52298-2|NCBP2;ENSG00000114503|ENST00000321256|NCBP2 ENST00000463783.1_1_3:196663884-196664019:-|nuORF ENST00000463783.1_1_3:196663884-196664019:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.8971557617188 2 552.217443 1102.42033 NaN NaN NaN NaN NaN NaN NaN 90.444 1 91.117 90.617 91.617 0.67271 0 0 0 0.99035 1 41627 41627 0.69038 0 1 2946 1908 2147 2151 3188 3188 -0.12678085834750163 DFDDDDDDE 9 Unmodified _DFDDDDDDE_ 0 0 0 REV__nc|ENSG00000181163|P06748-3|NPM1 REV__nc|ENSG00000181163|P06748-3|NPM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.5060424804688 2 550.662363 1099.31017 NaN NaN NaN NaN NaN NaN NaN 93.217 1 93.217 92.717 93.717 0 0 0 0 0.91238 1 49745 49745 0.52476 0 1 + 2947 13845 2148 2152 3189 3189 -0.23550975684474906 DFDSWFDTNNC 11 Unmodified _DFDSWFDTNNC_ 0 0 0 ENSG00000153147|ENST00000283131|SMARCA5 ENSG00000153147|ENST00000283131|SMARCA5 ENSG00000153147|ENST00000283131|SMARCA5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 682.2489013671875 2 682.248417 1362.48228 NaN NaN NaN NaN NaN NaN NaN 25.932 1 25.932 25.432 26.432 0 0 0 0 1.008 1 11653 11653 0.30703 0 1 2948 3774 2149 2153 3190 3190 -0.1844610247790115 DFIRIKADL 9 Unmodified _DFIRIKADL_ 0 0 0 REV__ENST00000482732.1_1_X:153627802-153628024:+|nuORF REV__ENST00000482732.1_1_X:153627802-153628024:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 364.21392822265625 3 364.213358 1089.61824 2.1138 0.00076986 -0.0036561 -1.3316E-06 2.1101 0.00076853 364.2133457329 66.691 0.29533 66.691 66.574 66.87 0 92 38 3 0 0 0 0.094033 1 31932 31932 34.222 2.586 1 4652000 + 2949 16715 2150 2154 3191 3191 0.07702004885709357 DFKDKIVL 8 Unmodified _DFKDKIVL_ 0 0 0 nc|ENSG00000142453|Q86X55-2|CARM1;nc|ENSG00000142453|Q86X55-1|CARM1;ENSG00000142453|ENST00000327064|CARM1 nc|ENSG00000142453|Q86X55-2|CARM1 nc|ENSG00000142453|Q86X55-2|CARM1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.2670593261719 2 489.286943 976.559333 3.2064 0.0015688 -1.434 -0.00070165 1.7724 0.0008672 489.2859758585859 49.787 0.22311 50.445 50.34 50.563 0.65735 14 9 2 0 0 0 0.1128 1 22780 22780 25.399 10.561 1 882340 2950 3309 2151 2155 3192 3192 0.07011528591374372 DFKHKSAL 8 Unmodified _DFKHKSAL_ 0 0 0 ENSG00000186130|ENST00000373659|ZBTB6 ENSG00000186130|ENST00000373659|ZBTB6 ENSG00000186130|ENST00000373659|ZBTB6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 315.8437805175781 3 315.843265 944.507966 2.1975 0.00069407 -0.84468 -0.00026679 1.3528 0.00042728 315.84315552814246 12.673 0.070674 12.673 12.646 12.716 0 7 4 2 0 0 0 0.67495 1 5533 5533 5.7319 0.43497 1 1044100 2951 5556 2152 2156 3193 3193 0.033492046173250856 DFKHKSAL 8 Unmodified _DFKHKSAL_ 0 0 0 ENSG00000186130|ENST00000373659|ZBTB6 ENSG00000186130|ENST00000373659|ZBTB6 ENSG00000186130|ENST00000373659|ZBTB6 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 315.843265 944.507966 2.1975 0.00069407 -0.84468 -0.00026679 1.3528 0.00042728 315.84315552814246 12.673 0.070674 12.673 12.646 12.716 0 -0.067179 -0.00031129 NaN 5.7319 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1044100 2952 5556 2152 2156 0.033492046173250856 DFKHKSAL 8 Unmodified _DFKHKSAL_ 0 0 0 ENSG00000186130|ENST00000373659|ZBTB6 ENSG00000186130|ENST00000373659|ZBTB6 ENSG00000186130|ENST00000373659|ZBTB6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 315.843265 944.507966 1.5308 0.0004835 0.076103 2.4037E-05 1.6069 0.00050753 315.84340188666107 12.5 0.068579 12.807 12.751 12.819 0.30727 0.067179 0.00056118 NaN 5.7319 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 770320 2953 5556 2152 2156 0.033492046173250856 DFKIKCVAF 9 Carbamidomethyl (C) _DFKIKC(Carbamidomethyl (C))VAF_ DFKIKC(1)VAF DFKIKC(52)VAF 0 1 0 ENST00000425542.5_1_22:38072875-38075753:+|nuORF;ENSG00000100097|ENST00000215909|LGALS1;ENST00000472321.1_1_22:38074415-38075753:+|nuORF ENST00000425542.5_1_22:38072875-38075753:+|nuORF ENST00000425542.5_1_22:38072875-38075753:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.3010864257812 2 564.299527 1126.5845 3.5234 0.0019883 -1.2255 -0.00069156 2.2979 0.0012967 564.299056990339 56.964 0.15395 57.229 57.138 57.292 0.26443 13 6 3 0 0 0 0.03963 1 26078 26078 51.63 33.483 1 673700 2954 1175 2153 2157 3194 3194 24 0.026272601222672165 DFKIKCVAF 9 Carbamidomethyl (C) _DFKIKC(Carbamidomethyl (C))VAF_ 0 1 0 ENST00000425542.5_1_22:38072875-38075753:+|nuORF;ENSG00000100097|ENST00000215909|LGALS1;ENST00000472321.1_1_22:38074415-38075753:+|nuORF ENST00000425542.5_1_22:38072875-38075753:+|nuORF ENST00000425542.5_1_22:38072875-38075753:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 564.299527 1126.5845 3.6128 0.0020387 -0.43674 -0.00024645 3.1761 0.0017922 564.2990598994801 56.249 0.20792 56.917 56.813 57.021 0.66829 -0.15578 0.00038916 NaN 51.63 23 11 3 NaN NaN NaN NaN 0 NaN NaN 0 535290 2955 1175 2153 2157 24 0.026272601222672165 DFKIKTVEL 9 Unmodified _DFKIKTVEL_ 0 0 0 ENST00000495146.5_1_2:26257477-26350043:+|nuORF;ENSG00000084733|ENST00000264710|RAB10;nc|ENSG00000206418|Q6IQ22|RAB12;ENSG00000206418|ENST00000649141|RAB12 ENST00000495146.5_1_2:26257477-26350043:+|nuORF ENST00000495146.5_1_2:26257477-26350043:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.8207397460938 2 546.818607 1091.62266 3.5751 0.0019549 0.35034 0.00019157 3.9254 0.0021465 546.8185583816594 56.05 0.22557 56.05 55.943 56.168 0 25 15 2 0 0 0 0.01463 1 25812 25812 75.571 33.615 1 634980 2956 961 2154 2158 3195 3195 0.08051469308611559 DFKIKTVEL 9 Unmodified _DFKIKTVEL_ 0 0 0 ENST00000495146.5_1_2:26257477-26350043:+|nuORF;ENSG00000084733|ENST00000264710|RAB10;nc|ENSG00000206418|Q6IQ22|RAB12;ENSG00000206418|ENST00000649141|RAB12 ENST00000495146.5_1_2:26257477-26350043:+|nuORF ENST00000495146.5_1_2:26257477-26350043:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.8187866210938 2 546.818607 1091.62266 NaN NaN NaN NaN NaN NaN NaN 55.1 1 55.887 55.387 56.387 0.78711 0 0 0 0.031656 1 25152 25152 59.052 20.438 1 2957 961 2154 2158 3196 3196 0.08051469308611559 DFKIKTVEL 9 Unmodified _DFKIKTVEL_ 0 0 0 ENST00000495146.5_1_2:26257477-26350043:+|nuORF;ENSG00000084733|ENST00000264710|RAB10;nc|ENSG00000206418|Q6IQ22|RAB12;ENSG00000206418|ENST00000649141|RAB12 ENST00000495146.5_1_2:26257477-26350043:+|nuORF ENST00000495146.5_1_2:26257477-26350043:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.8203125 2 546.818607 1091.62266 3.4522 0.0018877 -0.011015 -6.023E-06 3.4411 0.0018817 546.818512436857 55.961 0.25732 56.226 56.071 56.329 0.26543 32 10 4 0 0 0 3.9589E-14 2 25584 25584;25635 171.46 71.373 1 3252100 2958 961 2154 2158 3197;3198 3197 0.08051469308611559 DFKIKTVEL 9 Unmodified _DFKIKTVEL_ 0 0 0 ENST00000495146.5_1_2:26257477-26350043:+|nuORF;ENSG00000084733|ENST00000264710|RAB10;nc|ENSG00000206418|Q6IQ22|RAB12;ENSG00000206418|ENST00000649141|RAB12 ENST00000495146.5_1_2:26257477-26350043:+|nuORF ENST00000495146.5_1_2:26257477-26350043:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.8204956054688 2 546.818607 1091.62266 3.5232 0.0019265 0.41272 0.00022568 3.9359 0.0021522 546.8187421189822 55.162 0.32865 55.83 55.647 55.976 0.66798 31 12 4 0 0 0 9.5238E-06 1 25238 25238 147.24 57.106 1 2471000 2959 961 2154 2158 3199 3199 0.08051469308611559 DFKIRTIEL 9 Unmodified _DFKIRTIEL_ 0 0 0 nc|ENSG00000138069|P62820-3|RAB1A;ENSG00000138069|ENST00000409784|RAB1A;ENST00000342609.6_1_2:191857981-191858245:-|nuORF;ENST00000590899.5_1_19:16222711-16232755:+|nuORF;ENST00000589697.1_1_19:16222732-16236504:+|nuORF;ENST00000587156.5_1_19:16222711-16238468:+|nuORF;ENSG00000174903|ENST00000311481|RAB1B;nc|ENSG00000167461|P61006-2|RAB8A;ENSG00000167461|ENST00000300935|RAB8A;ENSG00000166128|ENST00000321437|RAB8B nc|ENSG00000138069|P62820-3|RAB1A nc|ENSG00000138069|P62820-3|RAB1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.83154296875 2 567.829506 1133.64446 3.4277 0.0019463 0.068675 3.8996E-05 3.4963 0.0019853 567.8295756416818 62.753 0.26962 63.003 62.918 63.188 0.24965 50 21 3 0 0 0 1.4994E-08 3 28756 28711;28756;28803 151.48 76.551 1 3159400 2960 3067 2155 2159 3200;3201;3202 3201 0.08298274057187882 DFKIRTIEL 9 Unmodified _DFKIRTIEL_ 0 0 0 nc|ENSG00000138069|P62820-3|RAB1A;ENSG00000138069|ENST00000409784|RAB1A;ENST00000342609.6_1_2:191857981-191858245:-|nuORF;ENST00000590899.5_1_19:16222711-16232755:+|nuORF;ENST00000589697.1_1_19:16222732-16236504:+|nuORF;ENST00000587156.5_1_19:16222711-16238468:+|nuORF;ENSG00000174903|ENST00000311481|RAB1B;nc|ENSG00000167461|P61006-2|RAB8A;ENSG00000167461|ENST00000300935|RAB8A;ENSG00000166128|ENST00000321437|RAB8B nc|ENSG00000138069|P62820-3|RAB1A nc|ENSG00000138069|P62820-3|RAB1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.8314819335938 2 567.829506 1133.64446 3.4341 0.00195 -0.19972 -0.00011341 3.2344 0.0018366 567.8292841130041 62.13 0.26494 62.791 62.688 62.953 0.66008 64 26 3 0 0 0 0.00079456 2 28488 28433;28488 128.57 62.116 1 4854500 2961 3067 2155 2159 3203;3204 3204 0.08298274057187882 DFLKPRDL 8 Unmodified _DFLKPRDL_ 0 0 0 ENSG00000162639|ENST00000651461|HENMT1 ENSG00000162639|ENST00000651461|HENMT1 ENSG00000162639|ENST00000651461|HENMT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.2834777832031 2 502.282192 1002.54983 NaN NaN NaN NaN NaN NaN NaN 62.185 1 62.845 62.345 63.345 0.66008 0 0 0 0.64864 1 28494 28494 24.021 2.2739 1 2962 4152 2156 2160 3205 3205 0.0486576030583592 DFLLKPEL 8 Unmodified _DFLLKPEL_ 0 0 0 ENSG00000198563|ENST00000396172|DDX39B;nc|ENSG00000198563|Q13838-2|DDX39B;DDX39B|p.A178*|1|0.23|ENSG00000198563|chr6:31536585-31536586|-/AG|frameshift_variant;ENST00000481456.1_1_6:31503008-31508408:-|nuORF;ENST00000593008.1_1_19:14523585-14524032:-|nuORF;ENST00000431908.5_1_6:31504422-31508408:-|nuORF;ENST00000586558.5_1_19:14523585-14524032:-|nuORF;ENST00000590260.5_1_19:14522263-14530155:-|nuORF;ENSG00000123136|ENST00000242776|DDX39A;nc|ENSG00000123136|O00148-3|DDX39A;ENST00000589318.5_1_19:14520811-14524032:-|nuORF;nc|ENSG00000123136|O00148-2|DDX39A ENSG00000198563|ENST00000396172|DDX39B;ENSG00000123136|ENST00000242776|DDX39A ENSG00000198563|ENST00000396172|DDX39B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.7819519042969 2 487.781493 973.548434 2.8257 0.0013783 -0.79064 -0.00038566 2.035 0.00099266 487.7812141696285 73.84 0.18874 74.099 73.961 74.15 0.25876 28 20 2 0 0 0 0.26626 1 33894 33894 37.974 0 1 683360 2963 5901;2294 2157 2161 3206 3206 0.06060126217084871 DFLLKPEL 8 Unmodified _DFLLKPEL_ 0 0 0 ENSG00000198563|ENST00000396172|DDX39B;nc|ENSG00000198563|Q13838-2|DDX39B;DDX39B|p.A178*|1|0.23|ENSG00000198563|chr6:31536585-31536586|-/AG|frameshift_variant;ENST00000481456.1_1_6:31503008-31508408:-|nuORF;ENST00000593008.1_1_19:14523585-14524032:-|nuORF;ENST00000431908.5_1_6:31504422-31508408:-|nuORF;ENST00000586558.5_1_19:14523585-14524032:-|nuORF;ENST00000590260.5_1_19:14522263-14530155:-|nuORF;ENSG00000123136|ENST00000242776|DDX39A;nc|ENSG00000123136|O00148-3|DDX39A;ENST00000589318.5_1_19:14520811-14524032:-|nuORF;nc|ENSG00000123136|O00148-2|DDX39A ENSG00000198563|ENST00000396172|DDX39B;ENSG00000123136|ENST00000242776|DDX39A ENSG00000198563|ENST00000396172|DDX39B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 487.781493 973.548434 2.6387 0.0012871 -0.72009 -0.00035125 1.9186 0.00093586 487.78097177413053 73.254 0.19225 73.918 73.839 74.032 0.66397 -0.090463 4.0606E-05 NaN 37.974 26 20 2 NaN NaN NaN NaN 0 NaN NaN 0 686110 2964 5901;2294 2157 2161 0.06060126217084871 DFLPVLREY 9 Unmodified _DFLPVLREY_ 0 0 0 ENSG00000148158|ENST00000374232|SNX30 ENSG00000148158|ENST00000374232|SNX30 ENSG00000148158|ENST00000374232|SNX30 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 384.583251953125 3 384.541363 1150.60226 2.6753 0.0010288 0.67372 0.00025907 3.349 0.0012878 384.54160061835097 32.836 0.36888 32.836 32.648 33.016 0 47 24 3 0 0 0 0.11293 1 14838 14838 2.4985 0.41248 1 421360 2965 3591 2158 2162 3207 3207 0.032982986488150345 DFLSSPAFYL 10 Unmodified _DFLSSPAFYL_ 0 0 0 REV__nc|ENSG00000181019|P15559-3|NQO1 REV__nc|ENSG00000181019|P15559-3|NQO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 580.2888793945312 2 580.28714 1158.55973 3.6012 0.0020897 -0.61054 -0.00035429 2.9907 0.0017355 580.2868373475118 78.662 0.22273 79.324 79.216 79.439 0.66197 22 13 2 0 0 0 0.64255 1 36269 36269 15.847 0 1 701440 + 2966 13840 2159 2163 3208 3208 -0.013210964794325264 DFMRFIVRP 9 Unmodified _DFMRFIVRP_ 0 0 0 REV__ENSG00000136937|ENST00000375147|NCBP1 REV__ENSG00000136937|ENST00000375147|NCBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.21630859375 3 394.214704 1179.62228 NaN NaN NaN NaN NaN NaN NaN 39.282 1 39.282 38.782 39.782 0 0 0 0 0.90611 1 17826 17826 1.0715 0 1 + 2967 12091 2160 2164 3209 3209 0.03965771107777982 DFPAADEL 8 Unmodified _DFPAADEL_ 0 0 0 ENSG00000083857|ENST00000441802|FAT1;ENST00000500085.2_1_4:187509748-187518366:-|nuORF ENSG00000083857|ENST00000441802|FAT1 ENSG00000083857|ENST00000441802|FAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 439.200927734375 2 439.200533 876.386513 2.8027 0.0012309 -0.54523 -0.00023947 2.2575 0.00099148 439.20001640653805 64.422 0.092575 64.671 64.627 64.719 0.24803 8 4 2 0 0 0 0.65723 1 29520 29520 9.3474 0 1 867560 2968 946 2161 2165 3210 3210 -0.05662462535872237 DFPAADEL 8 Unmodified _DFPAADEL_ 0 0 0 ENSG00000083857|ENST00000441802|FAT1;ENST00000500085.2_1_4:187509748-187518366:-|nuORF ENSG00000083857|ENST00000441802|FAT1 ENSG00000083857|ENST00000441802|FAT1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 439.200533 876.386513 2.8027 0.0012309 -0.54523 -0.00023947 2.2575 0.00099148 439.20001640653805 64.422 0.092575 64.671 64.627 64.719 0.24803 0.0063465 -8.1965E-05 NaN 9.3474 8 4 2 NaN NaN NaN NaN 0 NaN NaN 0 867560 2969 946 2161 2165 -0.05662462535872237 DFPAADEL 8 Unmodified _DFPAADEL_ 0 0 0 ENSG00000083857|ENST00000441802|FAT1;ENST00000500085.2_1_4:187509748-187518366:-|nuORF ENSG00000083857|ENST00000441802|FAT1 ENSG00000083857|ENST00000441802|FAT1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 439.200533 876.386513 3.1116 0.0013666 -0.4354 -0.00019123 2.6762 0.0011754 439.2001079662756 64.001 0.19591 64.658 64.475 64.671 0.65672 -0.0063465 1.4512E-05 NaN 9.3474 19 13 2 NaN NaN NaN NaN 0 NaN NaN 0 469230 2970 946 2161 2165 -0.05662462535872237 DFRKWYQF 8 Unmodified _DFRKWYQF_ 0 0 0 REV__ENSG00000111249|ENST00000261726|CUX2;REV__nc|ENSG00000257923|P39880-9|CUX1 REV__nc|ENSG00000257923|P39880-9|CUX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 595.2929077148438 2 595.293091 1188.57163 NaN NaN NaN NaN NaN NaN NaN 53.254 1 53.918 53.418 54.418 0.6644 0 0 0 0.97647 1 24354 24354 5.7604 1.0044 1 + 2971 18152;11225 2162 2166 3211 3211 -0.015114349456098353 DFRRRFLAL 9 Unmodified _DFRRRFLAL_ 0 0 0 nc|ENSG00000135372|Q9H0A0-2|NAT10;ENSG00000135372|ENST00000257829|NAT10 nc|ENSG00000135372|Q9H0A0-2|NAT10 nc|ENSG00000135372|Q9H0A0-2|NAT10 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.9985656738281 3 398.568247 1192.68291 2.9429 0.0011729 -0.098781 -3.9371E-05 2.8441 0.0011336 398.5683177297761 49.645 0.20679 50.302 50.167 50.373 0.65735 15 6 3 0 0 0 0.10586 1 22708 22708 1.0715 0 1 978950 2972 2866 2163 2167 3212 3212 0.09427624482395913 DFWLRHRLQWW 11 Unmodified _DFWLRHRLQWW_ 0 0 0 ENST00000585141.5_1_17:62481823-62493086:-|nuORF;ENST00000580893.5_1_17:62486773-62489133:-|nuORF;ENSG00000256525|ENST00000539111|POLG2 ENST00000585141.5_1_17:62481823-62493086:-|nuORF ENST00000585141.5_1_17:62481823-62493086:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 821.927001953125 2 821.923126 1641.8317 NaN NaN NaN NaN NaN NaN NaN 91.369 1 91.369 90.869 91.869 0 0 0 0 1.008 1 48250 48250 0.26902 0.26902 1 2973 9175 2164 2168 3213 3213 0.03645730385278512 DFWSMPWYWW 10 Unmodified _DFWSMPWYWW_ 0 0 0 REV__ENST00000584716.1_1_17:30815096-30816294:+|nuORF REV__ENST00000584716.1_1_17:30815096-30816294:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 752.313232421875 2 752.313166 1502.61178 NaN NaN NaN NaN NaN NaN NaN 48.882 1 48.882 48.382 49.382 0 0 0 0 1.002 1 22387 22387 0 0 1 + 2974 17531 2165 2169 3214 3214 -0.11942256337329127 DFYCVPVM 8 Unmodified _DFYCVPVM_ 0 0 0 REV__ENST00000463848.1_1_7:891563-892305:+|nuORF REV__ENST00000463848.1_1_7:891563-892305:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 325.1543273925781 3 325.143447 972.408511 NaN NaN NaN NaN NaN NaN NaN 78.236 1 78.49 77.99 78.99 0.25335 0 0 0 0.99035 1 36030 36030 0.45834 0 1 + 2975 16523 2166 2170 3215 3215 -0.0787969738329366 DFYCVPVM 8 Unmodified _DFYCVPVM_ 0 0 0 REV__ENST00000463848.1_1_7:891563-892305:+|nuORF REV__ENST00000463848.1_1_7:891563-892305:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 325.1552734375 3 325.143447 972.408511 NaN NaN NaN NaN NaN NaN NaN 78.403 1 78.656 78.156 79.156 0.25335 0 0 0 0.99035 1 36105 36105 0.45834 0 1 + 2976 16523 2166 2170 3216 3216 -0.0787969738329366 DGDCEDDEDDD 11 Unmodified _DGDCEDDEDDD_ 0 0 0 nc|ENSG00000173253|Q9Y5R5-2|DMRT2;ENSG00000173253|ENST00000358146|DMRT2 nc|ENSG00000173253|Q9Y5R5-2|DMRT2 nc|ENSG00000173253|Q9Y5R5-2|DMRT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.6310424804688 2 621.664777 1241.315 NaN NaN NaN NaN NaN NaN NaN 93.48 1 93.566 93.066 94.066 0.086212 0 0 0 1.0082 1 48979 48979 0 0 1 2977 4923 2167 2171 3217 3217 -0.2960045960401203 DGDDDDDDDD 10 Unmodified _DGDDDDDDDD_ 0 0 0 REV__ENSG00000230667|ENST00000596516|SETSIP REV__ENSG00000230667|ENST00000596516|SETSIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.1436157226562 2 556.144534 1110.27452 NaN NaN NaN NaN NaN NaN NaN 69.449 1 69.449 68.949 69.949 0 0 0 0 1.002 1 33535 33535 0 0 1 + 2978 14576 2168 2172 3218 3218 -0.2762105793212868 DGDDDDDDDDE 11 Unmodified _DGDDDDDDDDE_ 0 0 0 REV__ENSG00000230667|ENST00000596516|SETSIP REV__ENSG00000230667|ENST00000596516|SETSIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 621.1266479492188 2 620.665831 1239.31711 NaN NaN NaN NaN NaN NaN NaN 62.83 1 62.83 62.33 63.33 0 0 0 0 1.0082 1 29477 29477 0 0 1 + 2979 14576 2169 2173 3219 3219 -0.2929770759456005 DGGCDEWFH 9 Unmodified _DGGCDEWFH_ 0 0 0 ENSG00000073614|ENST00000399788|KDM5A ENSG00000073614|ENST00000399788|KDM5A ENSG00000073614|ENST00000399788|KDM5A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.1917724609375 2 533.190174 1064.36579 NaN NaN NaN NaN NaN NaN NaN 102.33 1 102.93 102.43 103.43 0.59759 0 0 0 0.91206 1 47367 47367 0.6015 0 1 2980 810 2170 2174 3220 3220 -0.16381376187155183 DGIGVSIILFH 11 Unmodified _DGIGVSIILFH_ 0 0 0 REV__nc|ENSG00000147255|Q8N6C5-2|IGSF1 REV__nc|ENSG00000147255|Q8N6C5-2|IGSF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 390.8895263671875 3 390.888763 1169.64446 2.3135 0.00090434 0.8122 0.00031748 3.1257 0.0012218 390.88906272412373 56.597 0.27086 57.375 57.24 57.511 0.77786 50 28 2 0 0 0 0.89065 1 25855 25855 2.8433 0.75728 1 1484000 + 2981 12500 2171 2175 3221 3221 0.06642274057185205 DGIGVSIILFH 11 Unmodified _DGIGVSIILFH_ 0 0 0 REV__nc|ENSG00000147255|Q8N6C5-2|IGSF1 REV__nc|ENSG00000147255|Q8N6C5-2|IGSF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.89044189453125 3 390.888763 1169.64446 2.9292 0.001145 1.1597 0.00045331 4.0889 0.0015983 390.88917702398606 61.18 0.87746 61.433 60.913 61.79 0.25245 96 41 3 0 0 0 0.89065 1 27967 27967 2.8433 0.93691 1 1572500 + 2982 12500 2171 2175 3222 3222 0.06642274057185205 DGIGVSIILFH 11 Unmodified _DGIGVSIILFH_ 0 0 0 REV__nc|ENSG00000147255|Q8N6C5-2|IGSF1 REV__nc|ENSG00000147255|Q8N6C5-2|IGSF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.89044189453125 3 390.888763 1169.64446 2.8854 0.0011279 0.94654 0.00036999 3.8319 0.0014978 390.88910201908595 56.529 0.79317 57.198 56.592 57.385 0.66829 89 46 3 0 0 0 0.84082 1 25757 25757 5.0475 1.1712 1 2644800 + 2983 12500 2171 2175 3223 3223 0.06642274057185205 DGIGVSIILFH 11 Unmodified _DGIGVSIILFH_ 0 0 0 REV__nc|ENSG00000147255|Q8N6C5-2|IGSF1 REV__nc|ENSG00000147255|Q8N6C5-2|IGSF1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 390.888763 1169.64446 2.7287 0.0010666 0.99154 0.00038758 3.7202 0.0014542 390.889157790635 57.502 0.32429 57.502 57.35 57.675 0 0.22656 -3.2168E-05 NaN 5.0475 83 39 3 NaN NaN NaN NaN 0 NaN NaN 0 1545600 + 2984 12500 2171 2175 0.06642274057185205 DGKLKVTL 8 Unmodified _DGKLKVTL_ 0 0 0 ENSG00000172009|ENST00000307741|THOP1 ENSG00000172009|ENST00000307741|THOP1 ENSG00000172009|ENST00000307741|THOP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.27618408203125 2 437.273835 872.533118 2.8265 0.001236 -0.088332 -3.8625E-05 2.7382 0.0011973 437.2738141799754 36.049 0.3559 36.049 35.909 36.265 0 32 20 2 0 0 0 0.036418 2 16359 16359;16401 71.708 15.531 1 896040 2985 4851 2172 2176 3224;3225 3224 0.0917525941989652 DGKLKVTL 8 Unmodified _DGKLKVTL_ 0 0 0 ENSG00000172009|ENST00000307741|THOP1 ENSG00000172009|ENST00000307741|THOP1 ENSG00000172009|ENST00000307741|THOP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.2751770019531 2 437.273835 872.533118 2.8367 0.0012404 0.024014 1.0501E-05 2.8607 0.0012509 437.27385215537134 35.27 0.306 36.061 35.834 36.14 0.79131 28 18 2 0 0 0 0.036418 1 15966 15966 71.708 15.531 1 773210 2986 4851 2172 2176 3226 3226 0.0917525941989652 DGKLKVTL 8 Unmodified _DGKLKVTL_ 0 0 0 ENSG00000172009|ENST00000307741|THOP1 ENSG00000172009|ENST00000307741|THOP1 ENSG00000172009|ENST00000307741|THOP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2751159667969 2 437.273835 872.533118 2.8571 0.0012494 -0.16034 -7.0114E-05 2.6968 0.0011792 437.27386878284005 35.914 0.50249 36.169 35.891 36.394 0.25524 41 22 3 0 0 0 0.017087 2 16371 16318;16371 90.135 21.03 1 860760 2987 4851 2172 2176 3227;3228 3228 0.0917525941989652 DGKLKVTL 8 Unmodified _DGKLKVTL_ 0 0 0 ENSG00000172009|ENST00000307741|THOP1 ENSG00000172009|ENST00000307741|THOP1 ENSG00000172009|ENST00000307741|THOP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2754211425781 2 437.273835 872.533118 3.1358 0.0013712 0.58173 0.00025438 3.7175 0.0016256 437.2740135080244 35.433 0.42211 36.059 35.744 36.167 0.62631 24 13 3 0 0 0 0.031168 2 16208 16208;16263 76.825 11.669 1 903180 2988 4851 2172 2176 3229;3230 3229 0.0917525941989652 DGKYSQVL 8 Unmodified _DGKYSQVL_ 0 0 0 ENST00000496813.5_1_6:33239896-33244045:+|nuORF;ENSG00000231500|ENST00000439602|RPS18;ENST00000407538.2_1_6:141243712-141243922:-|nuORF;ENST00000445477.1_1_22:31955550-31955922:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 455.2392883300781 2 455.23745 908.460347 2.5393 0.001156 0.7833 0.00035659 3.3226 0.0015126 455.2378730962959 32.625 0.26791 33.413 33.253 33.521 0.78795 30 19 2 0 0 0 0.19187 2 14728 14728;14773 43.858 3.9131 1 388780 2989 6183 2173 2177 3231;3232 3231 0.002455056264693667 DGKYSQVL 8 Unmodified _DGKYSQVL_ 0 0 0 ENST00000496813.5_1_6:33239896-33244045:+|nuORF;ENSG00000231500|ENST00000439602|RPS18;ENST00000407538.2_1_6:141243712-141243922:-|nuORF;ENST00000445477.1_1_22:31955550-31955922:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 455.2388916015625 2 455.23745 908.460347 2.8786 0.0013105 0.38495 0.00017524 3.2636 0.0014857 455.23760229590164 32.937 0.30596 33.555 33.407 33.713 0.61831 22 13 2 0 0 0 0.062889 1 15092 15092 61.357 3.8861 1 446980 2990 6183 2173 2177 3233 3233 0.002455056264693667 DGKYSQVL 8 Unmodified _DGKYSQVL_ 0 0 0 ENST00000496813.5_1_6:33239896-33244045:+|nuORF;ENSG00000231500|ENST00000439602|RPS18;ENST00000407538.2_1_6:141243712-141243922:-|nuORF;ENST00000445477.1_1_22:31955550-31955922:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 455.23745 908.460347 2.8344 0.0012903 0.63796 0.00029042 3.4723 0.0015807 455.2377675035308 33.451 0.32263 33.704 33.506 33.829 0.25389 0.14684 3.5408E-05 NaN 61.357 27 15 2 NaN NaN NaN NaN 0 NaN NaN 0 490740 2991 6183 2173 2177 0.002455056264693667 DGLKKISSL 9 Unmodified _DGLKKISSL_ 0 0 0 nc|ENSG00000133083|O15075-2|DCLK1;ENSG00000133083|ENST00000360631|DCLK1 nc|ENSG00000133083|O15075-2|DCLK1 nc|ENSG00000133083|O15075-2|DCLK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.791259765625 2 480.78985 959.565146 3.0827 0.0014821 0.44784 0.00021532 3.5305 0.0016974 480.7900568949238 32.22 0.24835 32.838 32.7 32.948 0.61831 22 13 2 0 0 0 0.33646 1 14787 14787 15.248 1.3424 1 221420 2992 2747 2174 2178 3234 3234 0.0837462710304635 DGLKKISSL 9 Unmodified _DGLKKISSL_ 0 0 0 nc|ENSG00000133083|O15075-2|DCLK1;ENSG00000133083|ENST00000360631|DCLK1 nc|ENSG00000133083|O15075-2|DCLK1 nc|ENSG00000133083|O15075-2|DCLK1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 480.78985 959.565146 3.2534 0.0015642 0.286 0.00013751 3.5394 0.0017017 480.78994488525757 32.797 0.21465 33.051 32.929 33.144 0.25389 0.10624 -9.8395E-05 NaN 15.248 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 190530 2993 2747 2174 2178 0.0837462710304635 DGNIKTAL 8 Unmodified _DGNIKTAL_ 0 0 0 ENSG00000184445|ENST00000333479|KNTC1 ENSG00000184445|ENST00000333479|KNTC1 ENSG00000184445|ENST00000333479|KNTC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 416.2335510253906 2 416.232168 830.449782 3.0365 0.0012639 0.0016037 6.6753E-07 3.0381 0.0012646 416.23206057165856 29.252 0.30447 29.513 29.35 29.654 0.2602 36 18 3 0 0 0 0.36624 1 13282 13282 30.637 3.7529 1 385430 2994 5442 2175 2179 3235 3235 0.027775229720305106 DGNIKTAL 8 Unmodified _DGNIKTAL_ 0 0 0 ENSG00000184445|ENST00000333479|KNTC1 ENSG00000184445|ENST00000333479|KNTC1 ENSG00000184445|ENST00000333479|KNTC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 416.2329406738281 2 416.232168 830.449782 2.9655 0.0012344 -0.61773 -0.00025712 2.3478 0.00097724 416.231807353119 28.92 0.17274 29.538 29.48 29.653 0.61789 20 16 2 0 0 0 0.099011 1 13266 13266 53.833 7.8118 1 689830 2995 5442 2175 2179 3236 3236 0.027775229720305106 DGNIKTAL 8 Unmodified _DGNIKTAL_ 0 0 0 ENSG00000184445|ENST00000333479|KNTC1 ENSG00000184445|ENST00000333479|KNTC1 ENSG00000184445|ENST00000333479|KNTC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 416.232168 830.449782 3.0279 0.0012603 -0.64205 -0.00026724 2.3858 0.00099306 416.2317836851973 29.692 0.14436 29.692 29.603 29.747 0 0.13058 -0.00019232 NaN 53.833 16 11 2 NaN NaN NaN NaN 0 NaN NaN 0 281770 2996 5442 2175 2179 0.027775229720305106 DGNIKTAL 8 Unmodified _DGNIKTAL_ 0 0 0 ENSG00000184445|ENST00000333479|KNTC1 ENSG00000184445|ENST00000333479|KNTC1 ENSG00000184445|ENST00000333479|KNTC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 416.232168 830.449782 2.7982 0.0011647 -0.50542 -0.00021037 2.2928 0.00095432 416.23188490210964 28.715 0.22939 29.504 29.398 29.627 0.78921 -0.057826 -7.8582E-05 NaN 53.833 30 18 2 NaN NaN NaN NaN 0 NaN NaN 0 204820 2997 5442 2175 2179 0.027775229720305106 DGRRKIAF 8 Unmodified _DGRRKIAF_ 0 0 0 ENST00000496813.5_1_6:33239896-33244045:+|nuORF;ENSG00000231500|ENST00000439602|RPS18;ENST00000474626.5_1_6:33239896-33243984:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 321.5229187011719 3 321.522526 961.545748 2.1992 0.00070709 0.34299 0.00011028 2.5422 0.00081737 321.5227052512535 18.279 0.28736 18.279 18.114 18.401 0 25 16 2 0 0 0 0.60101 1 8086 8086 13.906 3.0821 1 587630 2998 6183 2176 2180 3237 3237 0.06343715602793054 DGRRKIAF 8 Unmodified _DGRRKIAF_ 0 0 0 ENST00000496813.5_1_6:33239896-33244045:+|nuORF;ENSG00000231500|ENST00000439602|RPS18;ENST00000474626.5_1_6:33239896-33243984:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 321.5232849121094 3 321.522526 961.545748 2.1239 0.00068287 0.57202 0.00018392 2.6959 0.00086679 321.5227132838771 16.76 0.88209 17.065 16.541 17.423 0.30438 224 85 3 0 0 0 0.51123 5 7573 7449;7532;7573;7614;7657 20.415 8.1739 1 645040 2999 6183 2176 2180 3238;3239;3240;3241;3242 3240 0.06343715602793054 DGRRKIAF 8 Unmodified _DGRRKIAF_ 0 0 0 ENST00000496813.5_1_6:33239896-33244045:+|nuORF;ENSG00000231500|ENST00000439602|RPS18;ENST00000474626.5_1_6:33239896-33243984:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 321.522526 961.545748 2.1029 0.00067612 -0.056958 -1.8313E-05 2.0459 0.0006578 321.52243041982973 17.706 0.025467 17.907 17.892 17.918 0.20057 -0.18624 -0.00031309 NaN 13.906 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1643500 3000 6183 2176 2180 0.06343715602793054 DGRRKIAF 8 Unmodified _DGRRKIAF_ 0 0 0 ENST00000496813.5_1_6:33239896-33244045:+|nuORF;ENSG00000231500|ENST00000439602|RPS18;ENST00000474626.5_1_6:33239896-33243984:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 321.522526 961.545748 2.1948 0.00070566 0.89485 0.00028772 3.0896 0.00099338 321.52280531914664 16.642 1.062 17.3 16.629 17.691 0.65798 0.11772 0.00014355 NaN 20.415 257 115 3 NaN NaN NaN NaN 0 NaN NaN 0 682650 3001 6183 2176 2180 0.06343715602793054 DGVPFILR 8 Unmodified _DGVPFILR_ 0 0 0 ENSG00000160211|ENST00000393562|G6PD;nc|ENSG00000160211|P11413-3|G6PD;nc|ENSG00000160211|P11413-2|G6PD ENSG00000160211|ENST00000393562|G6PD ENSG00000160211|ENST00000393562|G6PD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 306.1818542480469 3 306.179877 915.517802 3.0479 0.00093322 3.1436 0.0009625 6.1915 0.0018957 306.18101601100284 100.82 0.095993 101.13 101.08 101.18 0.31412 6 2 3 0 0 0 0.7471 1 46676 46676 1.6526 1.2519 1 758150 3002 4048 2177 2181 3243 3243 0.056663926227201955 DHDGSDDD 8 Unmodified _DHDGSDDD_ 0 0 0 REV__ENST00000498242.5_1_2:233415434-233422740:+|nuORF REV__ENST00000498242.5_1_2:233415434-233422740:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 438.13653564453125 2 438.136118 874.257684 3.0315 0.0013282 -0.78148 -0.00034239 2.2501 0.00098583 438.1357411744337 53.138 0.40479 53.138 52.876 53.281 0 32 21 2 0 0 0 0.7471 2 24317 24317;24390 0 0 1 481270 + 3003 10147 2178 2182 3244;3245 3244 -0.18447469236753022 DHDGSDDD 8 Unmodified _DHDGSDDD_ 0 0 0 REV__ENST00000498242.5_1_2:233415434-233422740:+|nuORF REV__ENST00000498242.5_1_2:233415434-233422740:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 438.1369323730469 2 438.136118 874.257684 2.9669 0.0012999 -0.56994 -0.00024971 2.3969 0.0010502 438.13581030757433 52.867 0.35782 53.131 52.915 53.273 0.26345 26 18 2 0 0 0 0.7471 1 24144 24144 0 0 1 686110 + 3004 10147 2178 2182 3246 3246 -0.18447469236753022 DHLSLYDRL 9 Unmodified _DHLSLYDRL_ 0 0 0 REV__nc|ENSG00000092871|Q8WZ73-3|RFFL REV__nc|ENSG00000092871|Q8WZ73-3|RFFL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.8880615234375 2 566.293288 1130.57202 NaN NaN NaN NaN NaN NaN NaN 26.56 1 26.56 26.06 27.06 0 0 0 0 0.88916 1 11959 11959 6.2058 0 1 + 3005 10748 2179 2183 3247 3247 0.011959399836086959 DHPPADDDQP 10 Unmodified _DHPPADDDQP_ 0 0 0 REV__ENSG00000182329|ENST00000498697|KIAA2012 REV__ENSG00000182329|ENST00000498697|KIAA2012 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.7224731445312 2 553.722892 1105.43123 NaN NaN NaN NaN NaN NaN NaN 35.947 1 35.947 35.447 36.447 0 0 0 0 1.0001 1 16313 16313 1.6526 0.85899 1 + 3006 13887 2180 2184 3248 3248 -0.117266834604834 DHQTTPSL 8 Unmodified _DHQTTPSL_ 0 0 0 nc|ENSG00000082269|Q9P2D6-3|FAM135A;nc|ENSG00000082269|Q9P2D6-2|FAM135A;nc|ENSG00000082269|Q9P2D6-4|FAM135A;ENSG00000082269|ENST00000418814|FAM135A nc|ENSG00000082269|Q9P2D6-3|FAM135A nc|ENSG00000082269|Q9P2D6-3|FAM135A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 449.718017578125 2 449.716882 897.41921 2.9357 0.0013202 0.66548 0.00029928 3.6011 0.0016195 449.71716829313993 21.734 0.24716 21.734 21.582 21.829 0 37 23 2 0 0 0 0.4188 1 9712 9712 26.884 5.137 1 265870 3007 927 2181 2185 3249 3249 -0.033602554129970486 DHQTTPSL 8 Unmodified _DHQTTPSL_ 0 0 0 nc|ENSG00000082269|Q9P2D6-3|FAM135A;nc|ENSG00000082269|Q9P2D6-2|FAM135A;nc|ENSG00000082269|Q9P2D6-4|FAM135A;ENSG00000082269|ENST00000418814|FAM135A nc|ENSG00000082269|Q9P2D6-3|FAM135A nc|ENSG00000082269|Q9P2D6-3|FAM135A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 449.71856689453125 2 449.716882 897.41921 3.1999 0.001439 0.013414 6.0323E-06 3.2133 0.0014451 449.7169716350172 20.841 0.23437 21.494 21.364 21.598 0.65346 37 16 3 0 0 0 0.39589 1 9436 9436 28.487 6.7402 1 328060 3008 927 2181 2185 3250 3250 -0.033602554129970486 DHQTTPSL 8 Unmodified _DHQTTPSL_ 0 0 0 nc|ENSG00000082269|Q9P2D6-3|FAM135A;nc|ENSG00000082269|Q9P2D6-2|FAM135A;nc|ENSG00000082269|Q9P2D6-4|FAM135A;ENSG00000082269|ENST00000418814|FAM135A nc|ENSG00000082269|Q9P2D6-3|FAM135A nc|ENSG00000082269|Q9P2D6-3|FAM135A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 449.716882 897.41921 2.9357 0.0013202 0.66548 0.00029928 3.6011 0.0016195 449.71716829313993 21.734 0.24716 21.734 21.582 21.829 0 0.11987 0.00032393 NaN 28.487 37 23 2 NaN NaN NaN NaN 0 NaN NaN 0 265870 3009 927 2181 2185 -0.033602554129970486 DHQTTPSL 8 Unmodified _DHQTTPSL_ 0 0 0 nc|ENSG00000082269|Q9P2D6-3|FAM135A;nc|ENSG00000082269|Q9P2D6-2|FAM135A;nc|ENSG00000082269|Q9P2D6-4|FAM135A;ENSG00000082269|ENST00000418814|FAM135A nc|ENSG00000082269|Q9P2D6-3|FAM135A nc|ENSG00000082269|Q9P2D6-3|FAM135A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 449.716882 897.41921 3.1999 0.001439 0.013414 6.0323E-06 3.2133 0.0014451 449.7169716350172 20.841 0.23437 21.494 21.364 21.598 0.65346 -0.11987 -0.00026256 NaN 28.487 37 16 3 NaN NaN NaN NaN 0 NaN NaN 0 328060 3010 927 2181 2185 -0.033602554129970486 DHRYVTKVK 9 Unmodified _DHRYVTKVK_ 0 0 0 REV__ENSG00000105514|ENST00000222120|RAB3D REV__ENSG00000105514|ENST00000222120|RAB3D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 573.326416015625 2 573.324922 1144.63529 NaN NaN NaN NaN NaN NaN NaN 101.99 1 102.31 101.81 102.81 0.31737 0 0 0 0.89683 1 47187 47187 4.3292 0 1 + 3011 11038 2182 2186 3251 3251 0.06875925491499402 DHSVSQQPL 9 Unmodified _DHSVSQQPL_ 0 0 0 ENST00000556772.5_1_14:73753841-73753928:-|nuORF ENST00000556772.5_1_14:73753841-73753928:-|nuORF ENST00000556772.5_1_14:73753841-73753928:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.7503356933594 2 505.748713 1009.48287 3.0864 0.001561 0.43494 0.00021997 3.5214 0.0017809 505.74893729965135 14.749 0.58242 14.749 14.587 15.169 0 168 68 4 0 0 0 0.30982 1 6536 6536 16.942 5.302 1 1529900 3012 8931 2183 2187 3252 3252 -0.021488949758918352 DHVERYDTI 9 Unmodified _DHVERYDTI_ 0 0 0 ENST00000471654.1_1_2:23914526-23929531:+|nuORF;ENSG00000119771|ENST00000486442|KLHL29 ENST00000471654.1_1_2:23914526-23929531:+|nuORF ENST00000471654.1_1_2:23914526-23929531:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.2732543945312 2 574.272552 1146.53055 3.3884 0.0019459 -1.3398 -0.00076942 2.0486 0.0011765 574.2719264674726 32.142 0.35166 32.93 32.747 33.099 0.78795 86 43 3 0 0 0 0.24465 1 14552 14552 20.454 1.1966 1 1314600 3013 2166 2184 2188 3253 3253 -0.03685240775712373 DHWRGRYGRRR 11 Unmodified _DHWRGRYGRRR_ 0 0 0 SLC45A3|p.P435Lfs*107|1|0.14|ENSG00000158715|chr1:205659592-205659592|G/-|frameshift_variant;ENSG00000158715|ENST00000367145|SLC45A3 SLC45A3|p.P435Lfs*107|1|0.14|ENSG00000158715|chr1:205659592-205659592|G/-|frameshift_variant SLC45A3|p.P435Lfs*107|1|0.14|ENSG00000158715|chr1:205659592-205659592|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 757.9010009765625 2 757.901048 1513.78754 NaN NaN NaN NaN NaN NaN NaN 106.8 1 107.4 106.9 107.9 0.60074 0 0 0 1.008 1 49303 49303 0.30703 0 1 3014 3997 2185 2189 3254 3254 0.051201390116148104 DHYKNMRYLYF 11 Unmodified _DHYKNMRYLYF_ 0 0 0 REV__nc|ENSG00000214711|A8MX76-2|CAPN14 REV__nc|ENSG00000214711|A8MX76-2|CAPN14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 775.0697631835938 2 775.366461 1548.71837 NaN NaN NaN NaN NaN NaN NaN 81.752 1 81.752 81.252 82.252 0 0 0 0 1.0072 1 40759 40759 1.3295 0 1 + 3015 14512 2186 2190 3255 3255 -0.03404125842780559 DIAHVTCWF 9 Unmodified _DIAHVTCWF_ 0 0 0 ENSG00000136932|ENST00000375119|TRMO ENSG00000136932|ENST00000375119|TRMO ENSG00000136932|ENST00000375119|TRMO MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.2529296875 2 546.252577 1090.4906 NaN NaN NaN NaN NaN NaN NaN 50.371 1 50.633 50.133 51.133 0.26146 0 0 0 0.69911 1 23019 23019 12.532 6.7711 1 3016 2988 2187 2191 3256 3256 -0.051024589799908426 DIDSTLANF 9 Unmodified _DIDSTLANF_ 0 0 0 ENSG00000109920|ENST00000263773|FNBP4;nc|ENSG00000109920|Q8N3X1-2|FNBP4 ENSG00000109920|ENST00000263773|FNBP4 ENSG00000109920|ENST00000263773|FNBP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.746337890625 2 498.237647 994.460741 3.0029 0.0014962 2.9599 0.0014747 5.9628 0.0029709 498.23771985149676 46.163 0.50533 46.992 46.715 47.22 0.82915 47 25 3 0 0 0 0.54955 1 21096 21096 11.64 1.5664 1 1398900 3017 1691 2188 2192 3257 3257 -0.03671119444322812 DIEPPNHENLI 11 Unmodified _DIEPPNHENLI_ 0 0 0 REV__ENSG00000150722|ENST00000682840|PPP1R1C REV__ENSG00000150722|ENST00000682840|PPP1R1C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 645.8178100585938 2 645.819867 1289.62518 NaN NaN NaN NaN NaN NaN NaN 52.315 1 52.315 51.815 52.815 0 0 0 0 0.94958 1 23955 23955 11.495 2.1116 1 + 3018 12592 2189 2193 3258 3258 -0.008047270243650928 DIFPELDDIL 10 Unmodified _DIFPELDDIL_ 0 0 0 nc|ENSG00000164741|Q96QB1-4|DLC1;nc|ENSG00000164741|Q96QB1-1|DLC1;nc|ENSG00000164741|Q96QB1-6|DLC1;ENSG00000164741|ENST00000276297|DLC1 nc|ENSG00000164741|Q96QB1-4|DLC1 nc|ENSG00000164741|Q96QB1-4|DLC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 397.20501708984375 3 397.204417 1188.59142 2.8169 0.0011189 0.20976 8.3317E-05 3.0267 0.0012022 397.20444939423965 30.55 0.19336 30.55 30.408 30.601 0 28 15 3 0 0 0 0.42206 1 13764 13764 20.581 4.0151 1 1138600 3019 4340 2190 2194 3259 3259 0.004668514838613191 DIFRMSNSF 9 Oxidation (M) _DIFRM(Oxidation (M))SNSF_ DIFRM(1)SNSF DIFRM(55)SNSF 0 0 1 nc|ENSG00000197415|Q14D04-2|VEPH1;ENSG00000197415|ENST00000362010|VEPH1 nc|ENSG00000197415|Q14D04-2|VEPH1 nc|ENSG00000197415|Q14D04-2|VEPH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 566.7603759765625 2 566.758223 1131.50189 3.7126 0.0021041 -0.17344 -9.8301E-05 3.5391 0.0020058 566.7580055577394 48.568 0.26694 48.83 48.665 48.932 0.26209 19 12 2 0 0 0 0.032303 1 22182 22182 54.774 6.4277 1 915570 3020 5815 2191 2195 3260 3260 76 -0.0585968167649753 DIFRMSNSF 9 Oxidation (M) _DIFRM(Oxidation (M))SNSF_ 0 0 1 nc|ENSG00000197415|Q14D04-2|VEPH1;ENSG00000197415|ENST00000362010|VEPH1 nc|ENSG00000197415|Q14D04-2|VEPH1 nc|ENSG00000197415|Q14D04-2|VEPH1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 566.758223 1131.50189 3.6529 0.0020703 -0.1908 -0.00010814 3.4621 0.0019622 566.7581339107641 47.934 0.29832 48.587 48.458 48.756 0.65356 -0.12126 -1.1187E-05 NaN 54.774 23 11 3 NaN NaN NaN NaN 0 NaN NaN 0 793390 3021 5815 2191 2195 76 -0.0585968167649753 DIHGPDAKL 9 Unmodified _DIHGPDAKL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 322.507568359375 3 322.506541 964.497795 2.3379 0.000754 -0.12373 -3.9903E-05 2.2142 0.00071409 322.5064807192547 27.461 0.44588 27.461 27.073 27.519 0 53 33 2 0 0 0 0.16035 3 12327 12281;12327;12379 26.021 4.4306 1 864740 3022 2385 2192 2196 3261;3262;3263 3262 0.01412596892100737 DIHGPDAKL 9 Unmodified _DIHGPDAKL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 322.5071716308594 3 322.506541 964.497795 2.2541 0.00072695 -0.0075244 -2.4267E-06 2.2465 0.00072453 322.5065845942854 26.427 0.43145 27.206 26.945 27.376 0.7787 72 35 3 0 0 0 0.14214 3 11832 11832;11882;11931 27.223 4.5652 1 682190 3023 2385 2192 2196 3264;3265;3266 3264 0.01412596892100737 DIHGPDAKL 9 Unmodified _DIHGPDAKL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.2576599121094 2 483.256174 964.497795 3.0814 0.0014891 0.56643 0.00027373 3.6479 0.0017629 483.25638405774254 26.451 0.38307 27.23 26.945 27.328 0.7787 52 32 2 0 0 0 0.1081 1 11840 11840 39.95 10.868 1 283030 3024 2385 2192 2196 3267 3267 0.01412596892100737 DIHGPDAKL 9 Unmodified _DIHGPDAKL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.25823974609375 2 483.256174 964.497795 3.042 0.0014701 0.80333 0.00038821 3.8453 0.0018583 483.2565034369954 27.018 0.34925 27.283 27.119 27.468 0.26489 33 23 2 0 0 0 0.068032 2 12288 12242;12288 43.772 10.987 1 361300 3025 2385 2192 2196 3268;3269 3269 0.01412596892100737 DIHGPDAKL 9 Unmodified _DIHGPDAKL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.5073547363281 3 322.506541 964.497795 NaN NaN NaN NaN NaN NaN NaN 26.935 1 27.2 26.7 27.7 0.26489 0 0 0 0.51934 1 12240 12240 18.373 3.9677 1 3026 2385 2192 2196 3270 3270 0.01412596892100737 DIHGPDAKL 9 Unmodified _DIHGPDAKL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.5075988769531 3 322.506541 964.497795 NaN NaN NaN NaN NaN NaN NaN 27.035 1 27.3 26.8 27.8 0.26489 0 0 0 0.60042 1 12286 12286 15.739 3.5639 1 3027 2385 2192 2196 3271 3271 0.01412596892100737 DIHGPDAKL 9 Unmodified _DIHGPDAKL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.5074462890625 3 322.506541 964.497795 NaN NaN NaN NaN NaN NaN NaN 27.162 1 27.427 26.927 27.927 0.26489 0 0 0 0.66577 1 12344 12344 13.615 3.4643 1 3028 2385 2192 2196 3272 3272 0.01412596892100737 DIHGPDAKL 9 Unmodified _DIHGPDAKL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 322.5073547363281 3 322.506541 964.497795 2.0677 0.00066686 0.54756 0.00017659 2.6153 0.00084345 322.5067490156564 26.632 0.38523 27.254 27.044 27.429 0.62178 53 24 3 0 0 0 0.24272 3 12220 12178;12220;12266 20.581 4.0151 1 796430 3029 2385 2192 2196 3273;3274;3275 3274 0.01412596892100737 DIHGPDAKL 9 Unmodified _DIHGPDAKL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.25787353515625 2 483.256174 964.497795 3.0662 0.0014818 0.13237 6.397E-05 3.1986 0.0015457 483.25648825245236 26.674 0.38317 27.295 27.085 27.468 0.62178 58 25 3 0 0 0 0.044531 2 12180 12180;12221 47.594 11.298 1 516780 3030 2385 2192 2196 3276;3277 3276 0.01412596892100737 DIHGPDAKL 9 Unmodified _DIHGPDAKL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 483.256174 964.497795 3.381 0.0016339 -0.39602 -0.00019138 2.9849 0.0014425 483.2560425988597 27.43 0.29212 27.43 27.164 27.457 0 0.1202 -0.00070249 NaN 45.7 28 20 2 NaN NaN NaN NaN 0 NaN NaN 0 481990 3031 2385 2192 2196 0.01412596892100737 DIHHKVLSL 9 Unmodified _DIHHKVLSL_ 0 0 0 nc|ENSG00000138757|Q9UN86-2|G3BP2;ENSG00000138757|ENST00000359707|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 354.5425109863281 3 354.541586 1060.60293 2.8185 0.00099926 -0.18378 -6.5156E-05 2.6347 0.0009341 354.5415139108086 29.721 0.31738 29.721 29.559 29.876 0 90 29 4 0 0 0 0.048715 2 13390 13390;13434 47.732 23.811 1 9882200 3032 3114 2193 2197 3278;3279 3278 0.07505138088527019 DIHHKVLSL 9 Unmodified _DIHHKVLSL_ 0 0 0 nc|ENSG00000138757|Q9UN86-2|G3BP2;ENSG00000138757|ENST00000359707|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.812255859375 2 531.308741 1060.60293 3.3652 0.0017879 0.23238 0.00012347 3.5976 0.0019114 531.3088517566135 29.718 0.26652 29.718 29.589 29.856 0 53 22 3 0 0 0 0.0078872 2 13392 13392;13435 81.915 52.663 1 2315700 3033 3114 2193 2197 3280;3281 3280 0.07505138088527019 DIHHKVLSL 9 Unmodified _DIHHKVLSL_ 0 0 0 nc|ENSG00000138757|Q9UN86-2|G3BP2;ENSG00000138757|ENST00000359707|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 354.5423583984375 3 354.541586 1060.60293 2.4593 0.00087194 0.21224 7.5246E-05 2.6716 0.00094718 354.54166428537275 28.709 0.4035 29.499 29.321 29.725 0.78921 122 35 5 0 0 0 0.047921 2 12905 12905;12954 48.073 26.539 1 7501400 3034 3114 2193 2197 3282;3283 3282 0.07505138088527019 DIHHKVLSL 9 Unmodified _DIHHKVLSL_ 0 0 0 nc|ENSG00000138757|Q9UN86-2|G3BP2;ENSG00000138757|ENST00000359707|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.3108520507812 2 531.308741 1060.60293 3.1863 0.0016929 0.30813 0.00016371 3.4944 0.0018566 531.3088967317457 28.684 0.30804 29.474 29.354 29.662 0.78921 65 27 3 0 0 0 0.0041939 2 12917 12917;12958 91.085 52.909 1 1319300 3035 3114 2193 2197 3284;3285 3284 0.07505138088527019 DIHHKVLSL 9 Unmodified _DIHHKVLSL_ 0 0 0 nc|ENSG00000138757|Q9UN86-2|G3BP2;ENSG00000138757|ENST00000359707|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 354.5428466796875 3 354.541586 1060.60293 2.6807 0.00095043 0.19417 6.8841E-05 2.8749 0.0010193 354.541765828547 29.349 0.52808 29.609 29.39 29.918 0.2602 122 33 5 0 0 0 0.031195 3 13316 13316;13362;13414 55.249 31.448 1 29105000 3036 3114 2193 2197 3286;3287;3288 3286 0.07505138088527019 DIHHKVLSL 9 Unmodified _DIHHKVLSL_ 0 0 0 nc|ENSG00000138757|Q9UN86-2|G3BP2;ENSG00000138757|ENST00000359707|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.310546875 2 531.308741 1060.60293 3.2523 0.001728 0.27258 0.00014482 3.5249 0.0018728 531.308858016178 29.351 0.39672 29.611 29.45 29.847 0.2602 79 25 4 0 0 0 0.0021572 3 13364 13317;13364;13415 110.79 69.44 1 6324000 3037 3114 2193 2197 3289;3290;3291 3290 0.07505138088527019 DIHHKVLSL 9 Unmodified _DIHHKVLSL_ 0 0 0 nc|ENSG00000138757|Q9UN86-2|G3BP2;ENSG00000138757|ENST00000359707|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 354.5426940917969 3 354.541586 1060.60293 2.4653 0.00087405 0.18225 6.4614E-05 2.6476 0.00093867 354.5416611251719 29.068 0.43959 29.686 29.518 29.958 0.61789 106 32 4 0 0 0 0.031228 3 13341 13284;13341;13386 55.235 31.445 1 30809000 3038 3114 2193 2197 3292;3293;3294 3293 0.07505138088527019 DIHHKVLSL 9 Unmodified _DIHHKVLSL_ 0 0 0 nc|ENSG00000138757|Q9UN86-2|G3BP2;ENSG00000138757|ENST00000359707|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.3107299804688 2 531.308741 1060.60293 3.2397 0.0017213 0.14403 7.6523E-05 3.3837 0.0017978 531.3087520725413 29.072 0.39556 29.69 29.507 29.902 0.61789 85 29 4 0 0 0 0.0014118 3 13343 13286;13343;13388 121.35 63.624 1 9838700 3039 3114 2193 2197 3295;3296;3297 3296 0.07505138088527019 DIHHKVLSL 9 Unmodified _DIHHKVLSL_ 0 0 0 nc|ENSG00000138757|Q9UN86-2|G3BP2;ENSG00000138757|ENST00000359707|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 354.541586 1060.60293 2.4816 0.00087984 0.29132 0.00010328 2.7729 0.00098312 354.54178662623207 29.374 0.21488 29.992 29.958 30.173 0.61789 0.28701 0.00023114 NaN 55.249 17 14 2 NaN NaN NaN NaN 0 NaN NaN 0 97801 3040 3114 2193 2197 0.07505138088527019 DIHKKMVV 8 Unmodified _DIHKKMVV_ 0 0 0 ENSG00000221823|ENST00000234310|PPP3R1 ENSG00000221823|ENST00000234310|PPP3R1 ENSG00000221823|ENST00000234310|PPP3R1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 323.857421875 3 323.856517 968.547722 2.1842 0.00070736 -0.38503 -0.00012469 1.7992 0.00058267 323.85649403103713 13.999 0.10322 13.999 13.935 14.038 0 14 5 4 0 0 0 0.37709 1 6159 6159 29.841 21.685 1 1164800 3041 6146 2194 2198 3298 3298 0.062190082963979876 DIHKKMVV 8 Unmodified _DIHKKMVV_ 0 0 0 ENSG00000221823|ENST00000234310|PPP3R1 ENSG00000221823|ENST00000234310|PPP3R1 ENSG00000221823|ENST00000234310|PPP3R1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.28277587890625 2 485.281137 968.547722 2.8853 0.0014002 0.78865 0.00038271 3.674 0.0017829 485.28126811841474 13.317 0.18169 13.561 13.473 13.655 0.24346 22 14 2 0 0 0 0.21358 1 5820 5820 26.884 20.53 1 225240 3042 6146 2194 2198 3299 3299 0.062190082963979876 DIHKKMVV 8 Unmodified _DIHKKMVV_ 0 0 0 ENSG00000221823|ENST00000234310|PPP3R1 ENSG00000221823|ENST00000234310|PPP3R1 ENSG00000221823|ENST00000234310|PPP3R1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.8570556640625 3 323.856517 968.547722 1.8429 0.00059683 0.52751 0.00017084 2.3704 0.00076766 323.8567165837441 13.299 0.28707 13.606 13.442 13.729 0.30727 54 20 3 0 0 0 0.54363 2 5979 5979;6024 18.146 14.865 1 760300 3043 6146 2194 2198 3300;3301 3300 0.062190082963979876 DIHKKMVV 8 Unmodified _DIHKKMVV_ 0 0 0 ENSG00000221823|ENST00000234310|PPP3R1 ENSG00000221823|ENST00000234310|PPP3R1 ENSG00000221823|ENST00000234310|PPP3R1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.28253173828125 2 485.281137 968.547722 2.5944 0.001259 0.53523 0.00025974 3.1296 0.0015188 485.2813592004495 13.313 0.18389 13.62 13.502 13.686 0.30727 25 14 2 0 0 0 0.26351 1 5999 5999 37.974 28.627 1 188350 3044 6146 2194 2198 3302 3302 0.062190082963979876 DIHKKMVV 8 Unmodified _DIHKKMVV_ 0 0 0 ENSG00000221823|ENST00000234310|PPP3R1 ENSG00000221823|ENST00000234310|PPP3R1 ENSG00000221823|ENST00000234310|PPP3R1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2829284667969 2 485.281137 968.547722 3.4419 0.0016703 -0.25199 -0.00012229 3.1899 0.001548 485.28095158906615 12.82 0.16884 13.463 13.379 13.548 0.64272 7 4 2 0 0 0 0.0436 1 5769 5769 69.105 45.084 1 617160 3045 6146 2194 2198 3303 3303 0.062190082963979876 DIHTKTRL 8 Unmodified _DIHTKTRL_ 0 0 0 nc|ENSG00000165983|Q96BW5-2|PTER;ENSG00000165983|ENST00000535784|PTER nc|ENSG00000165983|Q96BW5-2|PTER nc|ENSG00000165983|Q96BW5-2|PTER MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.5266418457031 3 328.525936 982.555979 2.3649 0.00077695 0.19389 6.3699E-05 2.5588 0.00084064 328.5259351765177 12.643 0.090858 12.643 12.594 12.685 0 11 6 2 0 0 0 0.037007 1 5516 5516 69.105 27.265 1 2476700 3046 4441 2195 2199 3304 3304 0.06400278537353188 DIHTKTRL 8 Unmodified _DIHTKTRL_ 0 0 0 nc|ENSG00000165983|Q96BW5-2|PTER;ENSG00000165983|ENST00000535784|PTER nc|ENSG00000165983|Q96BW5-2|PTER nc|ENSG00000165983|Q96BW5-2|PTER MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.5270080566406 3 328.525936 982.555979 NaN NaN NaN NaN NaN NaN NaN 12.49 1 12.751 12.251 13.251 0.26154 0 0 0 0.14338 1 5409 5409 38.176 15.439 1 3047 4441 2195 2199 3305 3305 0.06400278537353188 DIHTKTRL 8 Unmodified _DIHTKTRL_ 0 0 0 nc|ENSG00000165983|Q96BW5-2|PTER;ENSG00000165983|ENST00000535784|PTER nc|ENSG00000165983|Q96BW5-2|PTER nc|ENSG00000165983|Q96BW5-2|PTER MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 328.525936 982.555979 1.802 0.000592 0.14691 4.8263E-05 1.9489 0.00064026 328.52598957207505 12.483 0.044291 12.745 12.707 12.751 0.26154 0.025895 -0.00013491 NaN 69.105 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 3600200 3048 4441 2195 2199 0.06400278537353188 DIHTKTRL 8 Unmodified _DIHTKTRL_ 0 0 0 nc|ENSG00000165983|Q96BW5-2|PTER;ENSG00000165983|ENST00000535784|PTER nc|ENSG00000165983|Q96BW5-2|PTER nc|ENSG00000165983|Q96BW5-2|PTER MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 328.525936 982.555979 1.613 0.00052991 0.3855 0.00012665 1.9985 0.00065656 328.52612930775007 12.461 0.060402 12.769 12.733 12.794 0.30727 0.049794 0.00010025 NaN 69.105 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 3791200 3049 4441 2195 2199 0.06400278537353188 DIHWAVRPRG 10 Unmodified _DIHWAVRPRG_ 0 0 0 REV__ENST00000466794.5_1_19:12769146-12777470:-|nuORF REV__ENST00000466794.5_1_19:12769146-12777470:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 603.7730102539062 2 603.828163 1205.64177 NaN NaN NaN NaN NaN NaN NaN 69.126 1 69.829 69.329 70.329 0.70218 0 0 0 0.99225 1 33044 33044 6.7232 0.51738 1 + 3050 11000 2196 2200 3306 3306 0.04717863442874659 DIIKKFEV 8 Unmodified _DIIKKFEV_ 0 0 0 nc|ENSG00000114805|Q4KWH8-3|PLCH1;nc|ENSG00000114805|Q4KWH8-4|PLCH1;nc|ENSG00000114805|Q4KWH8-2|PLCH1;ENSG00000114805|ENST00000460012|PLCH1;nc|ENSG00000114805|Q4KWH8|PLCH1 nc|ENSG00000114805|Q4KWH8-3|PLCH1 nc|ENSG00000114805|Q4KWH8-3|PLCH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.2965393066406 2 496.294768 990.574983 3.3614 0.0016682 -0.3342 -0.00016586 3.0272 0.0015024 496.29463395257795 48.689 0.18358 48.951 48.816 48.999 0.26209 10 6 2 0 0 0 0.19267 1 22248 22248 43.772 7.6454 1 747920 3051 1924 2197 2201 3307 3307 0.07931815108429419 DIIKKPIAL 9 Unmodified _DIIKKPIAL_ 0 0 0 nc|ENSG00000198604|Q9NRL2-2|BAZ1A;ENSG00000198604|ENST00000360310|BAZ1A nc|ENSG00000198604|Q9NRL2-2|BAZ1A nc|ENSG00000198604|Q9NRL2-2|BAZ1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.8354797363281 2 505.83406 1009.65357 3.4366 0.0017384 -0.13629 -6.894E-05 3.3003 0.0016694 505.83399067111804 47.329 0.43051 47.592 47.342 47.772 0.26363 37 17 3 0 0 0 0.034495 2 21618 21618;21672 53.833 21.446 1 694760 3052 5906 2198 2202 3308;3309 3308 0.14912667413500458 DIIKKPIAL 9 Unmodified _DIIKKPIAL_ 0 0 0 nc|ENSG00000198604|Q9NRL2-2|BAZ1A;ENSG00000198604|ENST00000360310|BAZ1A nc|ENSG00000198604|Q9NRL2-2|BAZ1A nc|ENSG00000198604|Q9NRL2-2|BAZ1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.8355712890625 2 505.83406 1009.65357 3.3438 0.0016914 0.20661 0.00010451 3.5504 0.0017959 505.83398232112137 46.672 0.36953 47.324 47.167 47.537 0.65219 22 11 3 0 0 0 0.029308 2 21395 21395;21458 56.177 18.203 1 655500 3053 5906 2198 2202 3310;3311 3310 0.14912667413500458 DIIKPDPPKN 10 Unmodified _DIIKPDPPKN_ 0 0 0 ENSG00000113302|ENST00000231228|IL12B ENSG00000113302|ENST00000231228|IL12B ENSG00000113302|ENST00000231228|IL12B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.5490417480469 3 379.548518 1135.62372 NaN NaN NaN NaN NaN NaN NaN 16.407 1 17.065 16.565 17.565 0.65798 0 0 0 0.99976 1 7393 7393 1.9064 0.71303 1 3054 1846 2199 2203 3312 3312 0.06133683677512636 DIKAAIQRV 9 Unmodified _DIKAAIQRV_ 0 0 0 REV__ENSG00000107164|ENST00000319725|FUBP3 REV__ENSG00000107164|ENST00000319725|FUBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.3103942871094 2 507.308741 1012.60293 3.1787 0.0016126 0.12593 6.3885E-05 3.3046 0.0016765 507.30880321335144 32.995 0.24645 33.613 33.435 33.682 0.61831 18 10 2 0 0 0 0.22507 1 15087 15087 21.747 2.3076 1 353300 + 3055 11108 2200 2204 3313 3313 0.0971313808852301 DIKARALQV 9 Unmodified _DIKARALQV_ 0 0 0 ENSG00000171456|ENST00000375687|ASXL1 ENSG00000171456|ENST00000375687|ASXL1 ENSG00000171456|ENST00000375687|ASXL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.3101501464844 2 507.308741 1012.60293 3.3053 0.0016768 0.043349 2.1991E-05 3.3486 0.0016988 507.3088949520087 33.497 0.27892 33.751 33.599 33.878 0.25389 24 15 2 0 0 0 0.071132 2 15227 15227;15281 39.95 9.6887 1 505850 3056 4804 2201 2205 3314;3315 3314 0.09713138088511641 DIKIRVNKF 9 Unmodified _DIKIRVNKF_ 0 0 0 nc|ENSG00000130816|P26358-3|DNMT1;nc|ENSG00000130816|P26358|DNMT1;ENSG00000130816|ENST00000359526|DNMT1;ENST00000586588.5_1_19:10244345-10254710:-|nuORF nc|ENSG00000130816|P26358-3|DNMT1 nc|ENSG00000130816|P26358-3|DNMT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 378.2336120605469 3 378.232752 1131.67643 2.7589 0.0010435 -0.30506 -0.00011538 2.4538 0.00092811 378.2326615182945 36.288 0.25137 36.546 36.348 36.599 0.25768 17 9 2 0 0 0 0.11155 1 16511 16511 29.841 14.592 1 342840 3057 2623 2202 2206 3316 3316 0.11585686530997918 DIKIRVNKF 9 Unmodified _DIKIRVNKF_ 0 0 0 nc|ENSG00000130816|P26358-3|DNMT1;nc|ENSG00000130816|P26358|DNMT1;ENSG00000130816|ENST00000359526|DNMT1;ENST00000586588.5_1_19:10244345-10254710:-|nuORF nc|ENSG00000130816|P26358-3|DNMT1 nc|ENSG00000130816|P26358-3|DNMT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.21826171875 3 378.232752 1131.67643 2.7913 0.0010558 -0.007007 -2.6503E-06 2.7843 0.0010531 378.23268245372424 35.702 0.23336 36.328 36.201 36.434 0.62631 10 9 2 0 0 0 0.099775 2 16349 16349;16371 32.786 15.673 1 546800 3058 2623 2202 2206 3317;3318 3317 0.11585686530997918 DIKKIFEF 8 Unmodified _DIKKIFEF_ 0 0 0 ENST00000487696.1_1_10:12391817-12708810:+|nuORF;CAMK1D|p.I213Nfs*11|1|0.18|ENSG00000183049|chr10:12791228-12791229|-/A|frameshift_variant;nc|ENSG00000183049|Q8IU85-2|CAMK1D;ENSG00000183049|ENST00000619168|CAMK1D;CAMK1D-MCM5|1|fusion ENST00000487696.1_1_10:12391817-12708810:+|nuORF;CAMK1D-MCM5|1|fusion ENST00000487696.1_1_10:12391817-12708810:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.29736328125 2 520.294768 1038.57498 3.4638 0.0018022 -0.10085 -5.2473E-05 3.363 0.0017497 520.2947154302403 64.794 0.20597 65.451 65.345 65.551 0.65672 15 10 2 0 0 0 0.19267 1 29717 29717 43.772 19.752 1 440470 3059 99;98 2203 2207 3319 3319 0.05723815108422059 DIKKSVKL 8 Unmodified _DIKKSVKL_ 0 0 0 ENSG00000117000|ENST00000372771|RLF;RLF|p.D1028Afs*6|1|0.23|ENSG00000117000|chr1:40237785-40237786|AT/-|frameshift_variant ENSG00000117000|ENST00000372771|RLF ENSG00000117000|ENST00000372771|RLF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.80560302734375 2 465.80276 929.590967 2.8455 0.0013255 0.7263 0.00033831 3.5719 0.0016638 465.8030429368853 18.601 0.16029 18.601 18.486 18.647 0 15 8 2 0 0 0 0.26351 1 8260 8260 38.176 14.155 1 176950 3060 2057 2204 2208 3320 3320 0.12335521345323741 DIKKSVKL 8 Unmodified _DIKKSVKL_ 0 0 0 ENSG00000117000|ENST00000372771|RLF;RLF|p.D1028Afs*6|1|0.23|ENSG00000117000|chr1:40237785-40237786|AT/-|frameshift_variant ENSG00000117000|ENST00000372771|RLF ENSG00000117000|ENST00000372771|RLF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.8045654296875 2 465.80276 929.590967 2.8454 0.0013254 0.78655 0.00036638 3.6319 0.0016918 465.80307836744106 16.816 0.777 17.477 16.947 17.724 0.66072 111 72 2 0 0 0 0.51067 2 7606 7566;7606 20.454 8.8133 1 159430 3061 2057 2204 2208 3321;3322 3322 0.12335521345323741 DIKKVGNKRL 10 Unmodified _DIKKVGNKRL_ 0 0 0 REV__ENSG00000118507|ENST00000431975|AKAP7 REV__ENSG00000118507|ENST00000431975|AKAP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.9168395996094 3 390.915423 1169.72444 2.9479 0.0011524 1.1638 0.00045495 4.1117 0.0016073 391.2507317875021 20.932 0.35398 21.586 21.284 21.638 0.65346 53 26 3 0 0 0 0.39883 1 9468 9468 24.882 4.3006 1 644340 + 3062 11473 2205 2209 3323 3323 0.14636760451048758 DIKQKDMEL 9 Unmodified _DIKQKDMEL_ 0 0 0 nc|ENSG00000005175|Q9H6T3-2|RPAP3;ENSG00000005175|ENST00000005386|RPAP3;ENST00000551293.1_1_12:48095240-48099773:-|nuORF;ENST00000547706.1_1_12:48093851-48096584:-|nuORF nc|ENSG00000005175|Q9H6T3-2|RPAP3 nc|ENSG00000005175|Q9H6T3-2|RPAP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.8625183105469 3 373.861996 1118.56416 NaN NaN NaN NaN NaN NaN NaN 29.384 1 29.643 29.143 30.143 0.25827 0 0 0 0.77475 1 13372 13372 10.151 4.8537 1 3063 321 2206 2210 3324 3324 0.009620446718372477 DIKRETQVQ 9 Unmodified _DIKRETQVQ_ 0 0 0 REV__ENST00000379066.5_1_2:37543982-37544117:-|nuORF REV__ENST00000379066.5_1_2:37543982-37544117:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.5299072265625 2 558.80402 1115.59349 NaN NaN NaN NaN NaN NaN NaN 40.262 1 41.062 40.562 41.562 0.80014 0 0 0 0.87786 1 18233 18233 6.7232 0.99131 1 + 3064 15859 2207 2211 3325 3325 0.040313250123290345 DIKRKDFL 8 Unmodified _DIKRKDFL_ 0 0 0 ENST00000547138.5_1_12:50529516-50531570:-|nuORF;ENST00000546676.1_1_12:50529513-50531570:-|nuORF;ENST00000380189.8_1_12:50527593-50531570:-|nuORF;nc|ENSG00000139624|Q8N5B7-2|CERS5;ENSG00000139624|ENST00000317551|CERS5 ENST00000547138.5_1_12:50529516-50531570:-|nuORF ENST00000547138.5_1_12:50529516-50531570:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.5390319824219 3 345.537953 1033.59203 NaN NaN NaN NaN NaN NaN NaN 24.722 1 24.994 24.494 25.494 0.27129 0 0 0 0.50221 1 11208 11208 28.495 2.4738 1 3065 3154 2208 2212 3326 3326 0.07657735714224145 DIKSHYAF 8 Unmodified _DIKSHYAF_ 0 0 0 ENSG00000185043|ENST00000328649|CIB1;nc|ENSG00000185043|Q99828-2|CIB1 ENSG00000185043|ENST00000328649|CIB1 ENSG00000185043|ENST00000328649|CIB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.7475280761719 2 490.745442 979.476331 2.8593 0.0014032 0.43757 0.00021474 3.2969 0.0016179 490.74553753268725 34.032 0.18613 34.032 33.941 34.127 0 20 11 2 0 0 0 0.083464 1 15449 15449 56.177 32.156 1 1007000 3066 5483 2209 2213 3327 3327 -0.014227881366196016 DIKSHYAF 8 Unmodified _DIKSHYAF_ 0 0 0 ENSG00000185043|ENST00000328649|CIB1;nc|ENSG00000185043|Q99828-2|CIB1 ENSG00000185043|ENST00000328649|CIB1 ENSG00000185043|ENST00000328649|CIB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.7470397949219 2 490.745442 979.476331 2.8976 0.001422 0.43993 0.00021589 3.3376 0.0016379 490.7456375984322 32.985 0.28622 33.773 33.601 33.888 0.78795 26 16 2 0 0 0 0.055141 1 14898 14898 56.177 41.339 1 610290 3067 5483 2209 2213 3328 3328 -0.014227881366196016 DIKSHYAF 8 Unmodified _DIKSHYAF_ 0 0 0 ENSG00000185043|ENST00000328649|CIB1;nc|ENSG00000185043|Q99828-2|CIB1 ENSG00000185043|ENST00000328649|CIB1 ENSG00000185043|ENST00000328649|CIB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 490.7472229003906 2 490.745442 979.476331 3.1772 0.0015592 0.21714 0.00010656 3.3943 0.0016657 490.7454548940391 34.045 0.28647 34.299 34.104 34.391 0.25389 32 12 4 0 0 0 0.055141 2 15477 15477;15529 74.929 36.053 1 2387100 3068 5483 2209 2213 3329;3330 3329 -0.014227881366196016 DIKSHYAF 8 Unmodified _DIKSHYAF_ 0 0 0 ENSG00000185043|ENST00000328649|CIB1;nc|ENSG00000185043|Q99828-2|CIB1 ENSG00000185043|ENST00000328649|CIB1 ENSG00000185043|ENST00000328649|CIB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 327.83392333984375 3 327.499387 979.476331 2.3836 0.00078062 -0.53996 -0.00017684 1.8436 0.00060379 327.4992512779464 34.045 0.23554 34.299 34.104 34.34 0.25389 17 10 2 0 0 0 0.54363 1 15492 15492 18.146 8.7632 1 1151600 3069 5483 2209 2213 3331 3331 -0.014227881366196016 DIKSHYAF 8 Unmodified _DIKSHYAF_ 0 0 0 ENSG00000185043|ENST00000328649|CIB1;nc|ENSG00000185043|Q99828-2|CIB1 ENSG00000185043|ENST00000328649|CIB1 ENSG00000185043|ENST00000328649|CIB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.7471618652344 2 490.745442 979.476331 3.0601 0.0015017 0.43433 0.00021314 3.4944 0.0017149 490.74561524148817 33.489 0.34541 34.109 33.932 34.278 0.62031 32 12 3 0 0 0 0.033113 2 15405 15357;15405 71.134 34.838 1 2394400 3070 5483 2209 2213 3332;3333 3333 -0.014227881366196016 DIKSHYAF 8 Unmodified _DIKSHYAF_ 0 0 0 ENSG00000185043|ENST00000328649|CIB1;nc|ENSG00000185043|Q99828-2|CIB1 ENSG00000185043|ENST00000328649|CIB1 ENSG00000185043|ENST00000328649|CIB1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 327.499387 979.476331 2.0865 0.00068334 0.47691 0.00015619 2.5634 0.00083952 327.499563902562 33.494 0.27818 34.114 33.97 34.249 0.62031 -0.092414 0.00040648 NaN 18.146 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 358720 3071 5483 2209 2213 -0.014227881366196016 DIKSKIRAL 9 Unmodified _DIKSKIRAL_ 0 0 0 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 348.5580139160156 3 348.557236 1042.64988 2.6516 0.00092423 -0.19371 -6.752E-05 2.4579 0.00085671 348.5571874870641 31.303 0.32534 31.303 31.137 31.462 0 72 27 3 0 0 0 0.012326 3 14157 14113;14157;14205 71.708 25.968 1 2858200 3072 4761 2210 2214 3334;3335;3336 3335 0.13025997639647358 DIKSKIRAL 9 Unmodified _DIKSKIRAL_ 0 0 0 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 348.5578918457031 3 348.557236 1042.64988 2.4614 0.00085793 -0.2961 -0.00010321 2.1653 0.00075473 348.55712854911866 30.226 0.48495 31.015 30.787 31.272 0.78921 111 43 4 0 0 0 0.0014219 4 13610 13566;13610;13658;13703 100.09 46.687 1 1604600 3073 4761 2210 2214 3337;3338;3339;3340 3338 0.13025997639647358 DIKSKIRAL 9 Unmodified _DIKSKIRAL_ 0 0 0 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.3340454101562 2 522.332216 1042.64988 3.4866 0.0018212 -0.22939 -0.00011982 3.2572 0.0017014 522.3320656692501 30.233 0.29566 31.022 30.856 31.152 0.78921 45 27 2 0 0 0 0.30982 1 13671 13671 16.149 7.4037 1 262830 3074 4761 2210 2214 3341 3341 0.13025997639647358 DIKSKIRAL 9 Unmodified _DIKSKIRAL_ 0 0 0 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.3345947265625 2 522.332216 1042.64988 3.8843 0.0020289 0.011311 5.9081E-06 3.8957 0.0020348 522.3322124426609 31.153 0.31573 31.409 31.251 31.567 0.25614 56 25 3 0 0 0 0.030603 3 14194 14141;14194;14237 55.503 11.975 1 765280 3075 4761 2210 2214 3342;3343;3344 3343 0.13025997639647358 DIKSKIRAL 9 Unmodified _DIKSKIRAL_ 0 0 0 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.5582275390625 3 348.557236 1042.64988 3.0299 0.0010561 -0.39206 -0.00013666 2.6378 0.00091944 348.557087891135 31.152 0.45601 31.408 31.194 31.65 0.25614 117 36 4 0 0 0 0.004576 3 14150 14150;14207;14252 93.938 34.886 1 4267000 3076 4761 2210 2214 3345;3346;3347 3345 0.13025997639647358 DIKSKIRAL 9 Unmodified _DIKSKIRAL_ 0 0 0 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.5580139160156 3 348.557236 1042.64988 2.4381 0.00084982 0.006684 2.3298E-06 2.4448 0.00085215 348.55722753900267 30.672 0.41014 31.289 31.117 31.527 0.61737 74 24 4 0 0 0 0.0079462 3 14076 14027;14076;14125 78.06 35.225 1 4859400 3077 4761 2210 2214 3348;3349;3350 3349 0.13025997639647358 DIKSKIRAL 9 Unmodified _DIKSKIRAL_ 0 0 0 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.3341064453125 2 522.332216 1042.64988 3.3567 0.0017533 0.40282 0.00021041 3.7595 0.0019637 522.3323959055335 30.664 0.35305 31.282 31.152 31.505 0.61737 46 20 3 0 0 0 0.03963 2 14092 14046;14092 51.63 11.68 1 904670 3078 4761 2210 2214 3351;3352 3352 0.13025997639647358 DIKSKIRAL 9 Unmodified _DIKSKIRAL_ 0 0 0 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 522.332216 1042.64988 3.3677 0.0017591 0.019146 1E-05 3.3869 0.0017691 522.3323677503781 31.311 0.234 31.311 31.176 31.41 0 0.055208 -5.8123E-05 NaN 55.503 36 21 2 NaN NaN NaN NaN 0 NaN NaN 0 631520 3079 4761 2210 2214 0.13025997639647358 DIKSKTYSL 9 Unmodified _DIKSKTYSL_ 0 0 0 ENST00000229866.10_1_6:37328318-37358531:+|nuORF;ENSG00000112130|ENST00000373479|RNF8 ENST00000229866.10_1_6:37328318-37358531:+|nuORF ENST00000229866.10_1_6:37328318-37358531:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.7947998046875 2 527.792589 1053.57063 3.2201 0.0016995 0.42832 0.00022607 3.6484 0.0019256 527.7925930207497 28.63 0.15599 28.89 28.799 28.955 0.2602 23 12 2 0 0 0 0.12685 1 13008 13008 29.841 12.898 1 317620 3080 1793 2211 2215 3353 3353 0.04598305894865007 DIKSKTYSL 9 Unmodified _DIKSKTYSL_ 0 0 0 ENST00000229866.10_1_6:37328318-37358531:+|nuORF;ENSG00000112130|ENST00000373479|RNF8 ENST00000229866.10_1_6:37328318-37358531:+|nuORF ENST00000229866.10_1_6:37328318-37358531:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.7943115234375 2 527.792589 1053.57063 3.2244 0.0017018 0.48111 0.00025393 3.7055 0.0019557 527.7926833149337 28.196 0.29512 28.816 28.664 28.959 0.61947 35 20 2 0 0 0 0.097139 2 12950 12900;12950 29.082 2.3147 1 458110 3081 1793 2211 2215 3354;3355 3355 0.04598305894865007 DIKTLFLTRRK 11 Unmodified _DIKTLFLTRRK_ 0 0 0 ENST00000606584.5_1_13:79980478-79992024:+|nuORF ENST00000606584.5_1_13:79980478-79992024:+|nuORF ENST00000606584.5_1_13:79980478-79992024:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 696.1007080078125 2 695.930086 1389.84562 NaN NaN NaN NaN NaN NaN NaN 107.09 1 107.69 107.19 108.19 0.60074 0 0 0 1.0073 1 49432 49432 1.1933 0.79263 1 3082 9323 2212 2216 3356 3356 0.16628963093648963 DIKVKEQSL 9 Unmodified _DIKVKEQSL_ 0 0 0 ENST00000492067.5_1_1:101455997-101487245:-|nuORF;ENST00000481871.5_1_1:101455997-101490867:-|nuORF;nc|ENSG00000117543|Q9H2P9-3|DPH5;nc|ENSG00000117543|Q9H2P9-2|DPH5;nc|ENSG00000117543|Q9H2P9-6|DPH5;nc|ENSG00000117543|Q9H2P9-4|DPH5;ENSG00000117543|ENST00000370109|DPH5;nc|ENSG00000117543|Q9H2P9-5|DPH5 ENST00000492067.5_1_1:101455997-101487245:-|nuORF ENST00000492067.5_1_1:101455997-101487245:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.8091430664062 2 530.305864 1058.59717 3.1704 0.0016813 0.14847 7.8734E-05 3.3189 0.00176 530.3059288375293 26.682 0.23038 26.947 26.839 27.07 0.26489 23 14 2 0 0 0 0.19413 2 12109 12109;12164 23.79 4.4278 1 339570 3083 2079 2213 2217 3357;3358 3357 0.07021994786191499 DIKVKEQSL 9 Unmodified _DIKVKEQSL_ 0 0 0 ENST00000492067.5_1_1:101455997-101487245:-|nuORF;ENST00000481871.5_1_1:101455997-101490867:-|nuORF;nc|ENSG00000117543|Q9H2P9-3|DPH5;nc|ENSG00000117543|Q9H2P9-2|DPH5;nc|ENSG00000117543|Q9H2P9-6|DPH5;nc|ENSG00000117543|Q9H2P9-4|DPH5;ENSG00000117543|ENST00000370109|DPH5;nc|ENSG00000117543|Q9H2P9-5|DPH5 ENST00000492067.5_1_1:101455997-101487245:-|nuORF ENST00000492067.5_1_1:101455997-101487245:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.3075561523438 2 530.305864 1058.59717 3.1639 0.0016778 0.81144 0.00043031 3.9753 0.0021081 530.3061496045658 26.336 0.21475 26.961 26.832 27.047 0.62505 19 11 2 0 0 0 0.031228 1 12062 12062 55.235 17.059 1 279830 3084 2079 2213 2217 3359 3359 0.07021994786191499 DILIGHFI 8 Unmodified _DILIGHFI_ 0 0 0 REV__nc|ENSG00000163785|P34925-2|RYK REV__nc|ENSG00000163785|P34925-2|RYK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 309.85687255859375 3 309.848128 926.522553 NaN NaN NaN NaN NaN NaN NaN 55.801 1 55.801 55.301 56.301 0 0 0 0 0.99035 1 25670 25670 1.8442 0 1 + 3085 13026 2214 2218 3360 3360 0.056352767654857416 DILIHPEL 8 Unmodified _DILIHPEL_ 0 0 0 ENST00000475698.1_1_1:201982922-201984448:+|nuORF;nc|ENSG00000163435|P78545-2|ELF3;ENSG00000163435|ENST00000367284|ELF3 ENST00000475698.1_1_1:201982922-201984448:+|nuORF ENST00000475698.1_1_1:201982922-201984448:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.27252197265625 2 475.271293 948.528032 3.2579 0.0015484 -0.14052 -6.6785E-05 3.1174 0.0014816 475.27119493431707 67.657 0.29478 67.909 67.755 68.049 0.25227 30 15 3 0 0 0 0.29255 2 30970 30970;31017 36.044 0 1 719560 3086 4208 2215 2219 3361;3362 3361 0.05170955557275647 DILIHPEL 8 Unmodified _DILIHPEL_ 0 0 0 ENST00000475698.1_1_1:201982922-201984448:+|nuORF;nc|ENSG00000163435|P78545-2|ELF3;ENSG00000163435|ENST00000367284|ELF3 ENST00000475698.1_1_1:201982922-201984448:+|nuORF ENST00000475698.1_1_1:201982922-201984448:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 475.271293 948.528032 3.0619 0.0014552 0.16607 7.893E-05 3.228 0.0015342 475.271419901373 67.049 0.2728 67.707 67.6 67.873 0.65777 -0.10116 0.0001777 NaN 36.044 26 15 2 NaN NaN NaN NaN 0 NaN NaN 0 769800 3087 4208 2215 2219 0.05170955557275647 DILKKSSHAV 10 Unmodified _DILKKSSHAV_ 0 0 0 ENSG00000130638|ENST00000252934|ATXN10 ENSG00000130638|ENST00000252934|ATXN10 ENSG00000130638|ENST00000252934|ATXN10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.5487976074219 3 366.548629 1096.62406 2.0728 0.00075979 0.51948 0.00019041 2.5923 0.00095021 366.54898248156627 13.065 0.12946 13.372 13.279 13.408 0.30727 9 6 2 0 0 0 0.84709 1 5893 5893 3.3196 1.4133 1 79832 3088 2603 2216 2220 3363 3363 0.0796110339738334 DILKRLYEL 9 Unmodified _DILKRLYEL_ 0 0 0 ENSG00000106305|ENST00000223029|AIMP2 ENSG00000106305|ENST00000223029|AIMP2 ENSG00000106305|ENST00000223029|AIMP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.84912109375 2 581.845156 1161.67576 3.5897 0.0020886 0.21124 0.00012291 3.8009 0.0022115 581.8449955662579 66.655 0.22591 66.905 66.702 66.928 0.2501 20 12 2 0 0 0 0.027127 2 30481 30481;30544 47.732 14.946 1 637770 3089 1562 2217 2221 3364;3365 3364 0.10138847091275238 DILKRLYEL 9 Unmodified _DILKRLYEL_ 0 0 0 ENSG00000106305|ENST00000223029|AIMP2 ENSG00000106305|ENST00000223029|AIMP2 ENSG00000106305|ENST00000223029|AIMP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.8475952148438 2 581.845156 1161.67576 NaN NaN NaN NaN NaN NaN NaN 65.97 1 66.626 66.126 67.126 0.65672 0 0 0 0.020587 1 30246 30246 78.06 38.111 1 3090 1562 2217 2221 3366 3366 0.10138847091275238 DILPLFVHEKL 11 Unmodified _DILPLFVHEKL_ 0 0 0 REV__ENSG00000131969|ENST00000337334|ABHD12B REV__ENSG00000131969|ENST00000337334|ABHD12B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 442.26318359375 3 441.927218 1322.75982 2.7908 0.0012333 0.90213 0.00039868 3.6929 0.001632 442.26201367374085 50.43 0.28642 50.691 50.529 50.815 0.26146 26 14 2 0 0 0 0.90781 1 23097 23097 2.084 0.75432 1 1018700 + 3091 11871 2218 2222 3367 3367 0.11135378188168943 DILQRFLAW 9 Unmodified _DILQRFLAW_ 0 0 0 nc|ENSG00000168619|Q9Y3Q7-2|ADAM18;ENSG00000168619|ENST00000265707|ADAM18 nc|ENSG00000168619|Q9Y3Q7-2|ADAM18 nc|ENSG00000168619|Q9Y3Q7-2|ADAM18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 387.8858947753906 3 387.885353 1160.63423 2.7797 0.0010782 -0.8399 -0.00032578 1.9398 0.00075241 387.8851082668357 19.922 0.21716 19.922 19.808 20.025 0 35 15 3 0 0 0 0.22507 1 8884 8884 15.248 0 1 1543200 3092 4638 2219 2223 3368 3368 0.0603371112260902 DILSMIIQY 9 Unmodified _DILSMIIQY_ 0 0 0 ENST00000434918.6_1_2:162902058-162902115:-|nuORF ENST00000434918.6_1_2:162902058-162902115:-|nuORF ENST00000434918.6_1_2:162902058-162902115:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1096.439697265625 1 1095.57546 1094.56818 3.0058 0.0032931 -1.3613 -0.0014914 1.6446 0.0018017 1096.5715046153696 38.719 0.13699 38.983 38.952 39.089 0.26408 5 4 2 0 0 0 1.1154 1 17650 17650 2.0598 0 1 537170 3093 7885 2220 2224 3369 3369 0.02468134165542324 DILVYTGS 8 Unmodified _DILVYTGS_ 0 0 0 REV__nc|ENSG00000155093|Q92932-2|PTPRN2 REV__nc|ENSG00000155093|Q92932-2|PTPRN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 867.4498291015625 1 867.445825 866.438549 3.7474 0.0032507 -0.088266 -7.6566E-05 3.6592 0.0031741 867.445421465241 62.473 0.19304 63.133 63.027 63.22 0.66008 19 12 2 0 0 0 0.26384 1 28603 28603 38.151 0 1 559010 + 3094 12734 2221 2225 3370 3370 -1.2991220955882454E-05 DIMLKYSRWHH 11 Unmodified _DIMLKYSRWHH_ 0 0 0 REV__nc|ENSG00000139718|Q9UPS6-2|SETD1B REV__nc|ENSG00000139718|Q9UPS6-2|SETD1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 743.3748168945312 2 743.37462 1484.73469 NaN NaN NaN NaN NaN NaN NaN 58.52 1 58.782 58.282 59.282 0.26227 0 0 0 1.008 1 26799 26799 0.30703 0 1 + 3095 12217 2222 2226 3371 3371 0.011710001139590531 DIMMNPVAP 9 Unmodified _DIMMNPVAP_ 0 0 0 REV__DIAPH1|p.A1052Lfs*8|1|0.21|ENSG00000131504|chr5:141527693-141527693|A/-|frameshift_variant REV__DIAPH1|p.A1052Lfs*8|1|0.21|ENSG00000131504|chr5:141527693-141527693|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.2377624511719 2 494.235538 986.456524 3.584 0.0017713 1.1919 0.00058907 4.7759 0.0023604 494.2359493022326 12.336 0.05832 12.974 12.956 13.014 0.63746 6 5 2 0 0 0 1.101 1 5537 5537 2.3027 0 1 1929400 + 3096 10131 2223 2227 3372 3372 -0.03724623463244825 DINEMWDDEP 10 Unmodified _DINEMWDDEP_ 0 0 0 REV__nc|ENSG00000182866|P06239-2|LCK REV__nc|ENSG00000182866|P06239-2|LCK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.83453369140625 3 421.832654 1262.47613 NaN NaN NaN NaN NaN NaN NaN 7.3082 1 7.6479 7.1479 8.1479 0.33974 0 0 0 1.0015 1 3288 3288 0.15932 0 1 + 3097 13908 2224 2228 3373 3373 -0.1446062070942844 DINRHLVSHL 10 Unmodified _DINRHLVSHL_ 0 0 0 REV__ENSG00000185085|ENST00000330574|INTS5 REV__ENSG00000185085|ENST00000330574|INTS5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.2926025390625 2 602.333279 1202.652 NaN NaN NaN NaN NaN NaN NaN 87.994 1 88.034 87.534 88.534 0.039955 0 0 0 0.95729 1 44711 44711 12.241 2.0901 1 + 3098 14004 2225 2229 3374 3374 0.05878426377489632 DIPFTSNPR 9 Unmodified _DIPFTSNPR_ 0 0 0 REV__ENSG00000181958|ENST00000641526|OR4A15 REV__ENSG00000181958|ENST00000641526|OR4A15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.7716674804688 2 523.766906 1045.51926 NaN NaN NaN NaN NaN NaN NaN 54.401 1 55.197 54.697 55.697 0.79552 0 0 0 0.86044 1 24821 24821 7.2892 1.5574 1 + 3099 13868 2226 2230 3375 3375 -0.0016801807919364364 DIPQHSLL 8 Unmodified _DIPQHSLL_ 0 0 0 REV__nc|ENSG00000167528|Q96N77-3|ZNF641 REV__nc|ENSG00000167528|Q96N77-3|ZNF641 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 461.75482177734375 2 461.753267 921.491981 2.7886 0.0012877 0.4695 0.00021679 3.2581 0.0015045 461.7534170877758 38.762 0.30554 38.762 38.636 38.942 0 20 12 2 0 0 0 0.60592 1 17671 17671 13.508 0.97634 1 297060 + 3100 18030 2227 2231 3376 3376 0.028094983804294316 DIPQHSLL 8 Unmodified _DIPQHSLL_ 0 0 0 REV__nc|ENSG00000167528|Q96N77-3|ZNF641 REV__nc|ENSG00000167528|Q96N77-3|ZNF641 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 461.7543029785156 2 461.753267 921.491981 2.7673 0.0012778 0.89908 0.00041516 3.6664 0.001693 461.7536108387413 37.806 0.26997 38.601 38.452 38.722 0.79552 14 10 3 0 0 0 0.60592 1 17173 17173 13.508 0.97634 1 191630 + 3101 18030 2227 2231 3377 3377 0.028094983804294316 DIPTVSHIEY 10 Unmodified _DIPTVSHIEY_ 0 0 0 REV__nc|ENSG00000152953|Q9NY57-2|STK32B REV__nc|ENSG00000152953|Q9NY57-2|STK32B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.29638671875 2 587.292953 1172.57135 3.7921 0.0022271 0.95197 0.00055908 4.744 0.0027861 587.2928378872804 68.355 0.31705 68.608 68.424 68.741 0.25227 59 20 4 0 0 0 0.58053 1 31363 31363 18.146 0 1 4422400 + 3102 12664 2228 2232 3378 3378 -0.008028994560845604 DIPVFIAMI 9 Unmodified _DIPVFIAMI_ 0 0 0 nc|ENSG00000132849|Q8NI35|PATJ;ENSG00000132849|ENST00000642238|PATJ;ENST00000472512.2_1_1:62586792-62593784:+|nuORF;ENST00000484937.5_1_1:62582831-62626723:+|nuORF nc|ENSG00000132849|Q8NI35|PATJ nc|ENSG00000132849|Q8NI35|PATJ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.8049011230469 2 509.785721 1017.55689 NaN NaN NaN NaN NaN NaN NaN 78.407 1 78.661 78.161 79.161 0.25335 0 0 0 0.75166 1 36107 36107 10.824 1.4765 1 3103 2731 2229 2233 3379 3379 0.048813568620630576 DIQRNQTDI 9 Unmodified _DIQRNQTDI_ 0 0 0 REV__ENST00000495883.1_1_20:10277513-10286842:+|nuORF REV__ENST00000495883.1_1_20:10277513-10286842:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 551.7789916992188 2 551.778002 1101.54145 NaN NaN NaN NaN NaN NaN NaN 81.18 1 81.428 80.928 81.928 0.24803 0 0 0 0.59707 1 37377 37377 15.847 5.7733 1 + 3104 11903 2230 2234 3380 3380 -0.005258384014268813 DIRAQYEAL 9 Unmodified _DIRAQYEAL_ 0 0 0 CON__P05784 CON__P05784 CON__P05784 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.8741455078125 3 360.189101 1077.54547 NaN NaN NaN NaN NaN NaN NaN 14.393 1 15.041 14.541 15.541 0.6482 0 0 0 0.70806 1 6478 6478 12.241 2.6967 1 + 3105 215 2231 2235 3381 3381 0.009802510922781948 DIREREIRI 9 Unmodified _DIREREIRI_ 0 0 0 ENSG00000047315|ENST00000314595|POLR2B ENSG00000047315|ENST00000314595|POLR2B ENSG00000047315|ENST00000314595|POLR2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 400.5682067871094 3 400.566683 1198.67822 2.8082 0.0011249 0.87047 0.00034868 3.6787 0.0014736 400.56701654831215 27.232 0.21875 27.232 27.091 27.31 0 26 14 3 0 0 0 0.24524 1 12238 12238 20.415 3.8487 1 344840 3106 555 2232 2236 3382 3382 0.0868269554894141 DIREREIRI 9 Unmodified _DIREREIRI_ 0 0 0 ENSG00000047315|ENST00000314595|POLR2B ENSG00000047315|ENST00000314595|POLR2B ENSG00000047315|ENST00000314595|POLR2B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 400.566683 1198.67822 2.5849 0.0010354 1.0664 0.00042718 3.6513 0.0014626 400.56730164258005 26.213 0.24012 26.992 26.865 27.105 0.7787 -0.25381 -6.7643E-05 NaN 20.415 33 18 2 NaN NaN NaN NaN 0 NaN NaN 0 367190 3107 555 2232 2236 0.0868269554894141 DIRERRAVF 9 Unmodified _DIRERRAVF_ 0 0 0 ENSG00000118960|ENST00000304031|HS1BP3 ENSG00000118960|ENST00000304031|HS1BP3 ENSG00000118960|ENST00000304031|HS1BP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 388.22320556640625 3 387.887756 1160.64144 2.7827 0.0010794 0.00012926 5.0137E-08 2.7828 0.0010794 387.8878121834077 22.846 0.17454 23.486 23.398 23.572 0.64051 34 24 2 0 0 0 0.136 1 10392 10392 26.021 15.122 1 3226300 3108 2127 2233 2237 3383 3383 0.06754443723048098 DIRERVESL 9 Unmodified _DIRERVESL_ 0 0 0 ENSG00000091136|ENST00000222399|LAMB1;ENST00000472714.1_1_7:107569804-107570089:-|nuORF ENSG00000091136|ENST00000222399|LAMB1 ENSG00000091136|ENST00000222399|LAMB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.8047485351562 2 558.80402 1115.59349 3.816 0.0021324 -0.21972 -0.00012278 3.5963 0.0020096 558.8038109536798 41.452 0.26953 41.722 41.597 41.867 0.27021 42 19 3 0 0 0 0.01463 2 18864 18864;18919 75.571 20.078 1 4509700 3109 1073 2234 2238 3384;3385 3384 0.04031325012351772 DIRERVESL 9 Unmodified _DIRERVESL_ 0 0 0 ENSG00000091136|ENST00000222399|LAMB1;ENST00000472714.1_1_7:107569804-107570089:-|nuORF ENSG00000091136|ENST00000222399|LAMB1 ENSG00000091136|ENST00000222399|LAMB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.8060302734375 2 558.80402 1115.59349 3.724 0.002081 -0.52062 -0.00029093 3.2034 0.0017901 558.8036289376903 40.89 0.21262 41.535 41.35 41.563 0.64451 22 13 2 0 0 0 0.04013 2 18698 18648;18698 51.415 7.6428 1 4309600 3110 1073 2234 2238 3386;3387 3387 0.04031325012351772 DIRIRAIL 8 Unmodified _DIRIRAIL_ 0 0 0 ENSG00000134013|ENST00000389131|LOXL2 ENSG00000134013|ENST00000389131|LOXL2 ENSG00000134013|ENST00000389131|LOXL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.3157653808594 2 485.313826 968.613099 2.8944 0.0014047 -0.44026 -0.00021367 2.4542 0.001191 485.3138183126085 56.232 0.18639 57.01 56.907 57.094 0.77786 23 15 2 0 0 0 0.090253 1 25699 25699 54.774 2.5052 1 675810 3111 2781 2235 2239 3388 3388 0.12753745813768091 DIRIRAIL 8 Unmodified _DIRIRAIL_ 0 0 0 ENSG00000134013|ENST00000389131|LOXL2 ENSG00000134013|ENST00000389131|LOXL2 ENSG00000134013|ENST00000389131|LOXL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.3146667480469 2 485.313826 968.613099 3.0467 0.0014786 -0.60595 -0.00029408 2.4408 0.0011845 485.31347491641816 56.914 0.2234 57.178 57.031 57.254 0.26444 17 8 3 0 0 0 0.090253 1 26032 26032 54.774 2.5052 1 1270300 3112 2781 2235 2239 3389 3389 0.12753745813768091 DIRIRAIL 8 Unmodified _DIRIRAIL_ 0 0 0 ENSG00000134013|ENST00000389131|LOXL2 ENSG00000134013|ENST00000389131|LOXL2 ENSG00000134013|ENST00000389131|LOXL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.3150939941406 2 485.313826 968.613099 3.2413 0.001573 -0.62195 -0.00030184 2.6193 0.0012712 485.31349752434295 56.159 0.31398 56.827 56.707 57.021 0.66829 42 19 3 0 0 0 0.090253 2 25723 25668;25723 54.774 2.5052 1 1346400 3113 2781 2235 2239 3390;3391 3391 0.12753745813768091 DIRIRAIL 8 Unmodified _DIRIRAIL_ 0 0 0 ENSG00000134013|ENST00000389131|LOXL2 ENSG00000134013|ENST00000389131|LOXL2 ENSG00000134013|ENST00000389131|LOXL2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 485.313826 968.613099 3.3665 0.0016338 1.4894 0.00072285 4.856 0.0023567 485.3139766559249 57.086 0.059349 57.086 57.033 57.093 0 0.060275 0.0019735 NaN 54.774 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 1000700 3114 2781 2235 2239 0.12753745813768091 DIRKKRLQL 9 Unmodified _DIRKKRLQL_ 0 0 0 ENSG00000153044|ENST00000283006|CENPH ENSG00000153044|ENST00000283006|CENPH ENSG00000153044|ENST00000283006|CENPH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 390.5885009765625 3 390.587418 1168.74043 2.557 0.00099873 0.011742 4.5861E-06 2.5687 0.0010033 390.58750089940395 14.765 0.3842 14.991 14.802 15.186 0.22622 71 27 3 0 0 0 0.079031 1 6508 6508 41.956 3.78 1 883250 3115 3768 2236 2240 3392 3392 0.1628046668793104 DIRKKRLQL 9 Unmodified _DIRKKRLQL_ 0 0 0 ENSG00000153044|ENST00000283006|CENPH ENSG00000153044|ENST00000283006|CENPH ENSG00000153044|ENST00000283006|CENPH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.588134765625 3 390.587418 1168.74043 2.6758 0.0010451 -0.30763 -0.00012016 2.3681 0.00092496 390.5872642305811 14.255 0.13897 14.562 14.515 14.654 0.3069 20 7 4 0 0 0 0.02812 1 6453 6453 53.317 7.5768 1 8463400 3116 3768 2236 2240 3393 3393 0.1628046668793104 DIRKKRLQL 9 Unmodified _DIRKKRLQL_ 0 0 0 ENSG00000153044|ENST00000283006|CENPH ENSG00000153044|ENST00000283006|CENPH ENSG00000153044|ENST00000283006|CENPH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.588623046875 3 390.587418 1168.74043 2.9198 0.0011404 -0.4013 -0.00015674 2.5185 0.00098369 390.58739252278974 14.257 0.1303 14.906 14.829 14.96 0.6482 42 18 3 0 0 0 0.032303 1 6402 6402 49.554 11.379 1 7368000 3117 3768 2236 2240 3394 3394 0.1628046668793104 DIRKKVSL 8 Unmodified _DIRKKVSL_ 0 0 0 nc|ENSG00000114098|Q8IUR7-6|ARMC8;ENST00000486832.1_1_3:137958292-137964088:+|nuORF nc|ENSG00000114098|Q8IUR7-6|ARMC8 nc|ENSG00000114098|Q8IUR7-6|ARMC8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 320.2071838378906 3 320.206315 957.597115 2.1338 0.00068327 0.38194 0.0001223 2.5158 0.00080557 320.20640286284737 18.366 0.32413 18.668 18.501 18.825 0.30158 56 31 2 0 0 0 0.51123 1 8332 8332 20.415 2.2682 1 614690 3118 9600 2237 2241 3395 3395 0.11662039576845018 DIRKKVSL 8 Unmodified _DIRKKVSL_ 0 0 0 nc|ENSG00000114098|Q8IUR7-6|ARMC8;ENST00000486832.1_1_3:137958292-137964088:+|nuORF nc|ENSG00000114098|Q8IUR7-6|ARMC8 nc|ENSG00000114098|Q8IUR7-6|ARMC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 320.20721435546875 3 320.206315 957.597115 NaN NaN NaN NaN NaN NaN NaN 18.126 1 18.786 18.286 19.286 0.66072 0 0 0 0.20752 1 8197 8197 41.956 14.327 1 3119 9600 2237 2241 3396 3396 0.11662039576845018 DIRLKDGSL 9 Unmodified _DIRLKDGSL_ 0 0 0 ENSG00000033178|ENST00000322244|UBA6;nc|ENSG00000033178|A0AVT1-2|UBA6 ENSG00000033178|ENST00000322244|UBA6 ENSG00000033178|ENST00000322244|UBA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.7921142578125 2 508.790381 1015.56621 3.2602 0.0016588 0.62691 0.00031897 3.8871 0.0019777 508.79073922182477 35.361 0.22913 35.616 35.484 35.713 0.25524 12 7 2 0 0 0 0.049036 1 16104 16104 47.594 7.6447 1 256100 3120 504 2238 2242 3397 3397 0.05904841471965483 DIRPKISL 8 Unmodified _DIRPKISL_ 0 0 0 ENSG00000198919|ENST00000361582|DZIP3;ENST00000495008.5_1_3:108355483-108366962:+|nuORF ENSG00000198919|ENST00000361582|DZIP3 ENSG00000198919|ENST00000361582|DZIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.29351806640625 2 471.292559 940.570566 2.7747 0.0013077 -0.34726 -0.00016366 2.4275 0.0011441 471.2922744248055 45.264 0.23944 45.531 45.438 45.678 0.26768 12 9 2 0 0 0 0.19267 1 20719 20719 43.772 7.2662 1 565350 3121 5963 2239 2243 3398 3398 0.09790350685523208 DIRPKISL 8 Unmodified _DIRPKISL_ 0 0 0 ENSG00000198919|ENST00000361582|DZIP3;ENST00000495008.5_1_3:108355483-108366962:+|nuORF ENSG00000198919|ENST00000361582|DZIP3 ENSG00000198919|ENST00000361582|DZIP3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 471.292559 940.570566 3.1303 0.0014753 -0.88014 -0.0004148 2.2502 0.0010605 471.2922639236274 44.641 0.27822 45.291 45.123 45.401 0.64998 -0.12033 -0.00025695 NaN 43.772 19 10 3 NaN NaN NaN NaN 0 NaN NaN 0 440630 3122 5963 2239 2243 0.09790350685523208 DIRRKLLM 8 Unmodified _DIRRKLLM_ 0 0 0 ATM|p.Q2066Rfs*16|1|0.31|ENSG00000149311|chr11:108316109-108316109|T/-|frameshift_variant;ATM|p.T2640Lfs*6|1|0.34|ENSG00000149311|chr11:108332890-108332890|G/-|frameshift_variant;ENSG00000149311|ENST00000675843|ATM;ENST00000419286.2_1_11:108139165-108142001:+|nuORF ATM|p.Q2066Rfs*16|1|0.31|ENSG00000149311|chr11:108316109-108316109|T/-|frameshift_variant ATM|p.Q2066Rfs*16|1|0.31|ENSG00000149311|chr11:108316109-108316109|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.8833312988281 3 348.883066 1043.62737 2.9381 0.0010251 -1.0733 -0.00037446 1.8648 0.00065061 348.88255913567366 30.767 0.23201 31.023 30.842 31.074 0.25614 26 19 2 0 0 0 0.65723 1 13988 13988 15.847 9.6414 1 567430 3123 76 2240 2244 3399 3399 0.10730074970388159 DIRRKLLML 9 Unmodified _DIRRKLLML_ 0 0 0 ATM|p.Q2066Rfs*16|1|0.31|ENSG00000149311|chr11:108316109-108316109|T/-|frameshift_variant;ATM|p.T2640Lfs*6|1|0.34|ENSG00000149311|chr11:108332890-108332890|G/-|frameshift_variant;ENSG00000149311|ENST00000675843|ATM;ENST00000419286.2_1_11:108139165-108142001:+|nuORF ATM|p.Q2066Rfs*16|1|0.31|ENSG00000149311|chr11:108316109-108316109|T/-|frameshift_variant ATM|p.Q2066Rfs*16|1|0.31|ENSG00000149311|chr11:108316109-108316109|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 386.578857421875 3 386.577754 1156.71143 2.8133 0.0010876 -0.41193 -0.00015924 2.4014 0.00092833 386.5776338991857 50.19 0.29874 50.452 50.32 50.619 0.26146 26 10 3 0 0 0 0.22824 1 22954 22954 15.739 8.1297 1 1167200 3124 76 2241 2245 3400 3400 0.13934606067300592 DIRRKLLML 9 Unmodified _DIRRKLLML_ 0 0 0 ATM|p.Q2066Rfs*16|1|0.31|ENSG00000149311|chr11:108316109-108316109|T/-|frameshift_variant;ATM|p.T2640Lfs*6|1|0.34|ENSG00000149311|chr11:108332890-108332890|G/-|frameshift_variant;ENSG00000149311|ENST00000675843|ATM;ENST00000419286.2_1_11:108139165-108142001:+|nuORF ATM|p.Q2066Rfs*16|1|0.31|ENSG00000149311|chr11:108316109-108316109|T/-|frameshift_variant ATM|p.Q2066Rfs*16|1|0.31|ENSG00000149311|chr11:108316109-108316109|T/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 386.577754 1156.71143 2.7223 0.0010524 0.82213 0.00031782 3.5444 0.0013702 386.57814571303015 50.462 0.23752 50.462 50.312 50.55 0 0.087241 0.00098617 NaN 15.739 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 359480 3125 76 2241 2245 0.13934606067300592 DIRRKLLML 9 Unmodified _DIRRKLLML_ 0 0 0 ATM|p.Q2066Rfs*16|1|0.31|ENSG00000149311|chr11:108316109-108316109|T/-|frameshift_variant;ATM|p.T2640Lfs*6|1|0.34|ENSG00000149311|chr11:108332890-108332890|G/-|frameshift_variant;ENSG00000149311|ENST00000675843|ATM;ENST00000419286.2_1_11:108139165-108142001:+|nuORF ATM|p.Q2066Rfs*16|1|0.31|ENSG00000149311|chr11:108316109-108316109|T/-|frameshift_variant ATM|p.Q2066Rfs*16|1|0.31|ENSG00000149311|chr11:108316109-108316109|T/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 386.577754 1156.71143 2.8328 0.0010951 0.083913 3.2439E-05 2.9167 0.0011275 386.57770846933096 49.553 0.25482 50.211 50.085 50.34 0.65735 -0.16419 0.00013004 NaN 15.739 20 8 3 NaN NaN NaN NaN 0 NaN NaN 0 972160 3126 76 2241 2245 0.13934606067300592 DISKKSKVNA 10 Unmodified _DISKKSKVNA_ 0 0 0 nc|ENSG00000135272|Q9P1T7-1|MDFIC;ENSG00000135272|ENST00000393486|MDFIC nc|ENSG00000135272|Q9P1T7-1|MDFIC nc|ENSG00000135272|Q9P1T7-1|MDFIC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.320068359375 2 545.316763 1088.61897 3.6546 0.0019929 0.24707 0.00013473 3.9017 0.0021276 545.3170035522877 84.341 1.0692 85.003 84.792 85.861 0.66219 97 57 3 0 0 0 0.9146 2 38791 38791;38804 2.9952 0.69251 1 954520 3127 9655 2242 2246 3401;3402 3401 0.07820799534783873 DISKRIQSL 9 Unmodified _DISKRIQSL_ 0 0 0 nc|ENSG00000150527|Q96PC5-6|MIA2;nc|ENSG00000150527|Q96PC5-11|MIA2;nc|ENSG00000150527|Q96PC5-13|MIA2;nc|ENSG00000150527|Q96PC5-5|MIA2;nc|ENSG00000150527|Q96PC5-8|MIA2;nc|ENSG00000150527|Q96PC5-10|MIA2;nc|ENSG00000150527|Q96PC5-9|MIA2;nc|ENSG00000150527|Q96PC5-14|MIA2;nc|ENSG00000150527|Q96PC5-7|MIA2;nc|ENSG00000150527|Q96PC5-12|MIA2;ENSG00000150527|ENST00000640607|MIA2;CTAGE1|p.A429Sfs*3|1|0.31|ENSG00000212710|chr18:22416527-22416528|-/T|frameshift_variant;ENSG00000212710|ENST00000391403|CTAGE1 nc|ENSG00000150527|Q96PC5-6|MIA2 nc|ENSG00000150527|Q96PC5-6|MIA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.3128051757812 2 530.31148 1058.60841 3.1427 0.0016666 0.26016 0.00013797 3.4028 0.0018046 530.3116102517297 35.609 0.33689 35.864 35.713 36.05 0.25524 19 11 2 0 0 0 0.069974 2 16224 16224;16281 40.239 12.61 1 369180 3128 3669 2243 2247 3403;3404 3403 0.08144816880326289 DISKRIQSL 9 Unmodified _DISKRIQSL_ 0 0 0 nc|ENSG00000150527|Q96PC5-6|MIA2;nc|ENSG00000150527|Q96PC5-11|MIA2;nc|ENSG00000150527|Q96PC5-13|MIA2;nc|ENSG00000150527|Q96PC5-5|MIA2;nc|ENSG00000150527|Q96PC5-8|MIA2;nc|ENSG00000150527|Q96PC5-10|MIA2;nc|ENSG00000150527|Q96PC5-9|MIA2;nc|ENSG00000150527|Q96PC5-14|MIA2;nc|ENSG00000150527|Q96PC5-7|MIA2;nc|ENSG00000150527|Q96PC5-12|MIA2;ENSG00000150527|ENST00000640607|MIA2;CTAGE1|p.A429Sfs*3|1|0.31|ENSG00000212710|chr18:22416527-22416528|-/T|frameshift_variant;ENSG00000212710|ENST00000391403|CTAGE1 nc|ENSG00000150527|Q96PC5-6|MIA2 nc|ENSG00000150527|Q96PC5-6|MIA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.3134765625 2 530.31148 1058.60841 3.3099 0.0017553 0.98234 0.00052095 4.2923 0.0022762 530.3120129658092 35.212 0.24461 35.835 35.719 35.964 0.62294 13 8 2 0 0 0 0.057456 1 16153 16153 43.982 7.4756 1 455440 3129 3669 2243 2247 3405 3405 0.08144816880326289 DISQDWRL 8 Unmodified _DISQDWRL_ 0 0 0 nc|ENSG00000169919|P08236-3|GUSB;GUSB|p.Q568Lfs*24|1|0.45|ENSG00000169919|chr7:65964403-65964409|TGGTACT/-|frameshift_variant;nc|ENSG00000169919|P08236-2|GUSB;ENSG00000169919|ENST00000304895|GUSB;ENST00000476486.5_1_7:65444492-65445384:-|nuORF nc|ENSG00000169919|P08236-3|GUSB nc|ENSG00000169919|P08236-3|GUSB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.4888305664062 2 516.759081 1031.50361 NaN NaN NaN NaN NaN NaN NaN 62.675 1 63.333 62.833 63.833 0.65808 0 0 0 0.79394 1 28723 28723 19.257 3.4098 1 3130 4721 2244 2248 3406 3406 -0.010883045962373217 DITPFGRPI 9 Unmodified _DITPFGRPI_ 0 0 0 REV__nc|ENSG00000153707|P23468-3|PTPRD REV__nc|ENSG00000153707|P23468-3|PTPRD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.28192138671875 2 508.282192 1014.54983 NaN NaN NaN NaN NaN NaN NaN 54.565 1 55.231 54.731 55.731 0.6665 0 0 0 0.69911 1 24964 24964 12.532 0 1 + 3131 12683 2245 2249 3407 3407 0.04313760305853975 DITTKHML 8 Unmodified _DITTKHML_ 0 0 0 ENSG00000105568|ENST00000322088|PPP2R1A ENSG00000105568|ENST00000322088|PPP2R1A ENSG00000105568|ENST00000322088|PPP2R1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 479.75775146484375 2 479.754953 957.495352 3.3787 0.0016209 0.41098 0.00019717 3.7897 0.0018181 479.7550227420209 28.437 0.18284 28.437 28.358 28.541 0 19 12 2 0 0 0 0.39589 1 12850 12850 28.487 11.545 1 402800 3132 1509 2246 2250 3408 3408 0.014904251627854137 DITTKHML 8 Unmodified _DITTKHML_ 0 0 0 ENSG00000105568|ENST00000322088|PPP2R1A ENSG00000105568|ENST00000322088|PPP2R1A ENSG00000105568|ENST00000322088|PPP2R1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.75732421875 2 479.754953 957.495352 NaN NaN NaN NaN NaN NaN NaN 27.444 1 28.23 27.73 28.73 0.78627 0 0 0 0.20533 1 12339 12339 42.095 20.348 1 3133 1509 2246 2250 3409 3409 0.014904251627854137 DITTKHML 8 Unmodified _DITTKHML_ 0 0 0 ENSG00000105568|ENST00000322088|PPP2R1A ENSG00000105568|ENST00000322088|PPP2R1A ENSG00000105568|ENST00000322088|PPP2R1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.258056640625 2 479.754953 957.495352 2.9135 0.0013978 -0.09792 -4.6977E-05 2.8156 0.0013508 479.754970289056 28.183 0.27269 28.445 28.291 28.564 0.26245 35 21 2 0 0 0 0.21011 2 12808 12808;12861 42.095 21.463 1 731420 3134 1509 2246 2250 3410;3411 3410 0.014904251627854137 DITTKHML 8 Unmodified _DITTKHML_ 0 0 0 ENSG00000105568|ENST00000322088|PPP2R1A ENSG00000105568|ENST00000322088|PPP2R1A ENSG00000105568|ENST00000322088|PPP2R1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.7563171386719 2 479.754953 957.495352 3.0437 0.0014602 -0.26015 -0.00012481 2.7835 0.0013354 479.75507186595377 27.752 0.31923 28.371 28.219 28.538 0.61947 36 21 3 0 0 0 0.21011 2 12700 12700;12752 42.095 21.223 1 970530 3135 1509 2246 2250 3412;3413 3412 0.014904251627854137 DIVRRRQL 8 Unmodified _DIVRRRQL_ 0 0 0 ENSG00000142185|ENST00000397928|TRPM2;nc|ENSG00000142185|O94759-2|TRPM2;nc|ENSG00000142185|O94759-3|TRPM2 ENSG00000142185|ENST00000397928|TRPM2 ENSG00000142185|ENST00000397928|TRPM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.5536804199219 3 352.552597 1054.63596 2.5516 0.00089956 0.357 0.00012586 2.9086 0.0010254 352.5527352887701 15.317 1.1789 15.317 14.929 16.108 0 410 142 4 0 0 0 0.44001 1 6841 6841 25.399 1.3787 1 1982500 3136 3298 2247 2251 3414 3414 0.11082764931234124 DIWKKFEL 8 Unmodified _DIWKKFEL_ 0 0 0 ENSG00000116990|ENST00000372816|MYCL;nc|ENSG00000116990|P12524-3|MYCL;nc|ENSG00000116990|P12524-2|MYCL;nc|ENSG00000204053|P12525|MYCLP1;ENSG00000134323|ENST00000281043|MYCN;nc|ENSG00000136997|P01106-1|MYC;nc|ENSG00000136997|P01106-3|MYC;ENSG00000136997|ENST00000621592|MYC ENSG00000116990|ENST00000372816|MYCL;nc|ENSG00000136997|P01106-1|MYC nc|ENSG00000136997|P01106-1|MYC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.8016357421875 2 539.800217 1077.58588 2.4551 0.0013253 0.75363 0.00040681 3.2088 0.0017321 539.8007418319451 65.931 0.1919 66.64 66.508 66.699 0.7089 30 22 2 0 0 0 0.15565 1 31194 31194 47.749 15.443 1 2023500 3137 2056;2994 2248 2252 3415 3415 0.05019217482708882 DIWKKFEL 8 Unmodified _DIWKKFEL_ 0 0 0 ENSG00000116990|ENST00000372816|MYCL;nc|ENSG00000116990|P12524-3|MYCL;nc|ENSG00000116990|P12524-2|MYCL;nc|ENSG00000204053|P12525|MYCLP1;ENSG00000134323|ENST00000281043|MYCN;nc|ENSG00000136997|P01106-1|MYC;nc|ENSG00000136997|P01106-3|MYC;ENSG00000136997|ENST00000621592|MYC ENSG00000116990|ENST00000372816|MYCL;nc|ENSG00000136997|P01106-1|MYC nc|ENSG00000136997|P01106-1|MYC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.8016357421875 2 539.800217 1077.58588 3.3926 0.0018313 0.13491 7.2823E-05 3.5275 0.0019042 539.8004456899249 67.067 0.56766 67.317 66.907 67.474 0.2501 64 33 3 0 0 0 0.009934 2 30723 30723;30770 99.755 48.125 1 2461300 3138 2056;2994 2248 2252 3416;3417 3416 0.05019217482708882 DIWKKFEL 8 Unmodified _DIWKKFEL_ 0 0 0 ENSG00000116990|ENST00000372816|MYCL;nc|ENSG00000116990|P12524-3|MYCL;nc|ENSG00000116990|P12524-2|MYCL;nc|ENSG00000204053|P12525|MYCLP1;ENSG00000134323|ENST00000281043|MYCN;nc|ENSG00000136997|P01106-1|MYC;nc|ENSG00000136997|P01106-3|MYC;ENSG00000136997|ENST00000621592|MYC ENSG00000116990|ENST00000372816|MYCL;nc|ENSG00000136997|P01106-1|MYC nc|ENSG00000136997|P01106-1|MYC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.20343017578125 3 360.20257 1077.58588 2.806 0.0010107 -0.85956 -0.00030962 1.9464 0.00070112 360.2021884852289 67.083 0.32259 67.333 67.166 67.489 0.2501 34 20 2 0 0 0 0.61796 1 30733 30733 9.3831 4.8543 1 674020 3139 2056;2994 2248 2252 3418 3418 0.05019217482708882 DIWKKFEL 8 Unmodified _DIWKKFEL_ 0 0 0 ENSG00000116990|ENST00000372816|MYCL;nc|ENSG00000116990|P12524-3|MYCL;nc|ENSG00000116990|P12524-2|MYCL;nc|ENSG00000204053|P12525|MYCLP1;ENSG00000134323|ENST00000281043|MYCN;nc|ENSG00000136997|P01106-1|MYC;nc|ENSG00000136997|P01106-3|MYC;ENSG00000136997|ENST00000621592|MYC ENSG00000116990|ENST00000372816|MYCL;nc|ENSG00000136997|P01106-1|MYC nc|ENSG00000136997|P01106-1|MYC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.80224609375 2 539.800217 1077.58588 3.3967 0.0018335 0.85245 0.00046015 4.2491 0.0022937 539.8007080536955 66.41 0.4069 67.067 66.811 67.218 0.65672 51 22 3 0 0 0 0.0089887 2 30439 30392;30439 110.55 70.603 1 2555400 3140 2056;2994 2248 2252 3419;3420 3420 0.05019217482708882 DIWKKFEL 8 Unmodified _DIWKKFEL_ 0 0 0 ENSG00000116990|ENST00000372816|MYCL;nc|ENSG00000116990|P12524-3|MYCL;nc|ENSG00000116990|P12524-2|MYCL;nc|ENSG00000204053|P12525|MYCLP1;ENSG00000134323|ENST00000281043|MYCN;nc|ENSG00000136997|P01106-1|MYC;nc|ENSG00000136997|P01106-3|MYC;ENSG00000136997|ENST00000621592|MYC ENSG00000116990|ENST00000372816|MYCL;nc|ENSG00000136997|P01106-1|MYC nc|ENSG00000136997|P01106-1|MYC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.2028503417969 3 360.20257 1077.58588 2.586 0.00093148 -0.3919 -0.00014116 2.1941 0.00079032 360.2023092247784 66.404 0.32428 67.061 66.909 67.233 0.65672 26 16 2 0 0 0 0.71911 1 30440 30440 2.9952 1.5133 1 728400 3141 2056;2994 2248 2252 3421 3421 0.05019217482708882 DIYNHRFHRIF 11 Unmodified _DIYNHRFHRIF_ 0 0 0 nc|ENSG00000135655|Q9Y4E8-2|USP15;nc|ENSG00000135655|Q9Y4E8-3|USP15;ENSG00000135655|ENST00000280377|USP15 nc|ENSG00000135655|Q9Y4E8-2|USP15 nc|ENSG00000135655|Q9Y4E8-2|USP15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 759.3927001953125 2 759.391659 1516.76877 NaN NaN NaN NaN NaN NaN NaN 72.964 1 73.223 72.723 73.723 0.25876 0 0 0 1.008 1 33502 33502 0.35063 0 1 3142 2886 2249 2253 3422 3422 0.031051645971956532 DKCDYERD 8 Unmodified _DKCDYERD_ 0 0 0 REV__nc|ENSG00000130164|P01130-2|LDLR REV__nc|ENSG00000130164|P01130-2|LDLR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 348.4776916503906 3 348.474801 1042.40257 NaN NaN NaN NaN NaN NaN NaN 40.468 1 40.468 39.968 40.968 0 0 0 0 0.99035 1 18367 18367 0.45834 0.18932 1 + 3143 11802 2250 2254 3423 3423 -0.11693124361272567 DKDDDDDDSDD 11 Unmodified _DKDDDDDDSDD_ 0 0 0 ENSG00000139718|ENST00000604567|SETD1B ENSG00000139718|ENST00000604567|SETD1B ENSG00000139718|ENST00000604567|SETD1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 635.2167358398438 2 635.197298 1268.38004 NaN NaN NaN NaN NaN NaN NaN 91.053 1 91.128 90.628 91.628 0.075279 0 0 0 1.008 1 47076 47076 0.35063 0.35063 1 3144 3162 2251 2255 3424 3424 -0.2434114180650795 DKDFQCPREED 11 Unmodified _DKDFQCPREED_ 0 0 0 ENSG00000156575|ENST00000287143|PRG3 ENSG00000156575|ENST00000287143|PRG3 ENSG00000156575|ENST00000287143|PRG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 691.2884521484375 2 691.288073 1380.56159 NaN NaN NaN NaN NaN NaN NaN 100.12 1 100.12 99.621 100.62 0 0 0 0 0.98464 1 55197 55197 8.1555 1.4324 1 3145 3917 2252 2256 3425 3425 -0.113464555237897 DKDMLKYKV 9 Unmodified _DKDMLKYKV_ 0 0 0 ENSG00000152127|ENST00000281923|MGAT5 ENSG00000152127|ENST00000281923|MGAT5 ENSG00000152127|ENST00000281923|MGAT5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.20916748046875 3 380.542487 1138.60563 2.7375 0.0010417 -0.33541 -0.00012764 2.4021 0.0009141 380.54228210979204 22.415 0.034845 23.055 23.031 23.066 0.64051 10 7 2 0 0 0 0.077129 1 10202 10202 18.373 3.9677 1 4439900 3146 3739 2253 2257 3426 3426 0.041872254311329016 DKERVRLLRA 10 Unmodified _DKERVRLLRA_ 0 0 0 ENST00000470461.1_1_X:51636742-51638153:+|nuORF ENST00000470461.1_1_X:51636742-51638153:+|nuORF ENST00000470461.1_1_X:51636742-51638153:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 628.3851928710938 2 628.383303 1254.75205 4.0956 0.0025736 -0.48717 -0.00030613 3.6084 0.0022674 628.3827896669425 89.994 1.1969 90.246 89.54 90.737 0.25136 85 56 3 0 0 0 0.93713 1 41398 41398 1.4819 0.15237 1 1529500 3147 8174 2254 2258 3427 3427 0.1348666371127365 DKFRMLFQHFQ 11 Unmodified _DKFRMLFQHFQ_ 0 0 0 ENSG00000183128|ENST00000369783|CALHM3 ENSG00000183128|ENST00000369783|CALHM3 ENSG00000183128|ENST00000369783|CALHM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.58837890625 3 499.587089 1495.73944 NaN NaN NaN NaN NaN NaN NaN 18.916 1 18.916 18.416 19.416 0 0 0 0 1.0059 1 8406 8406 1.2148 0 1 3148 5365 2255 2259 3428 3428 0.011398842567132306 DKFSFDDF 8 Unmodified _DKFSFDDF_ 0 0 0 nc|ENSG00000135636|O75923-3|DYSF;nc|ENSG00000135636|O75923-9|DYSF;nc|ENSG00000135636|O75923|DYSF;nc|ENSG00000135636|O75923-14|DYSF;nc|ENSG00000135636|O75923-6|DYSF;nc|ENSG00000135636|O75923-12|DYSF;nc|ENSG00000135636|O75923-5|DYSF;nc|ENSG00000135636|O75923-11|DYSF;nc|ENSG00000135636|O75923-4|DYSF;nc|ENSG00000135636|O75923-10|DYSF;nc|ENSG00000135636|O75923-2|DYSF;nc|ENSG00000135636|O75923-8|DYSF;nc|ENSG00000135636|O75923-7|DYSF;ENSG00000135636|ENST00000410020|DYSF;nc|ENSG00000135636|O75923-15|DYSF nc|ENSG00000135636|O75923-3|DYSF nc|ENSG00000135636|O75923-3|DYSF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.7195129394531 2 510.71909 1019.42363 NaN NaN NaN NaN NaN NaN NaN 32.89 1 33.144 32.644 33.644 0.25389 0 0 0 0.94507 1 14978 14978 9.3474 2.0582 1 3149 2885 2256 2260 3429 3429 -0.08530790990084824 DKFYVYFVLFC 11 Unmodified _DKFYVYFVLFC_ 0 0 0 ENST00000293778.10_2_17:4637501-4637576:-|nuORF ENST00000293778.10_2_17:4637501-4637576:-|nuORF ENST00000293778.10_2_17:4637501-4637576:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 722.3568725585938 2 722.354499 1442.69445 NaN NaN NaN NaN NaN NaN NaN 80.001 1 80.321 79.821 80.821 0.31998 0 0 0 1.0038 1 39099 39099 5.7319 0.43497 1 3150 6744 2257 2261 3430 3430 -0.00919359329168401 DKGNEEEEKC 10 Unmodified _DKGNEEEEKC_ 0 0 0 REV__nc|ENSG00000169635|Q96JB3-2|HIC2 REV__nc|ENSG00000169635|Q96JB3-2|HIC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.1645812988281 3 394.164404 1179.47138 NaN NaN NaN NaN NaN NaN NaN 25.878 1 26.642 26.142 27.142 0.76356 0 0 0 0.99976 1 11618 11618 1.9064 0.1641 1 + 3151 13397 2258 2262 3431 3431 -0.111175048522 DKGPKHLK 8 Unmodified _DKGPKHLK_ 0 0 0 REV__ENSG00000158887|ENST00000533357|MPZ REV__ENSG00000158887|ENST00000533357|MPZ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 308.1973876953125 3 308.187143 921.5396 NaN NaN NaN NaN NaN NaN NaN 27.645 1 27.908 27.408 28.408 0.26245 0 0 0 0.99035 1 12571 12571 1.8442 0 1 + 3152 12836 2259 2263 3432 3432 0.0756919737126509 DKGSLQRVRRR 11 Unmodified _DKGSLQRVRRR_ 0 0 0 REV__ENST00000580273.1_1_17:73282404-73285559:-|nuORF REV__ENST00000580273.1_1_17:73282404-73285559:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.91162109375 2 685.908008 1369.80146 4.5121 0.0030949 0.5766 0.00039549 5.0887 0.0034904 685.9083621922492 95.394 1.3047 95.661 95.107 96.411 0.2675 166 74 3 0 0 0 0.88721 1 44122 44122 2.9952 2.9952 1 1640800 + 3153 17505 2260 2264 3433 3433 0.1313537172004544 DKIKRKKRVHR 11 Unmodified _DKIKRKKRVHR_ 0 0 0 REV__ENST00000605810.1_1_3:70174691-70175321:-|nuORF REV__ENST00000605810.1_1_3:70174691-70175321:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 732.57958984375 2 732.473318 1462.93208 NaN NaN NaN NaN NaN NaN NaN 93.219 1 93.305 92.805 93.805 0.086212 0 0 0 1.008 1 48783 48783 0.35063 0.35063 1 + 3154 17662 2261 2265 3434 3434 0.2191338743889446 DKIWYVIRTEE 11 Unmodified _DKIWYVIRTEE_ 0 0 0 REV__ENST00000453574.1_1_X:100673300-100674112:+|nuORF REV__ENST00000453574.1_1_X:100673300-100674112:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 726.2717895507812 2 726.380091 1450.74563 NaN NaN NaN NaN NaN NaN NaN 79.457 1 79.777 79.277 80.277 0.31998 0 0 0 1.005 1 38817 38817 4.1895 1.4543 1 + 3155 16428 2262 2266 3435 3435 0.03828680969218112 DKKKRLVRRPS 11 Unmodified _DKKKRLVRRPS_ 0 0 0 ENST00000417359.1_1_10:8094326-8094419:-|nuORF ENST00000417359.1_1_10:8094326-8094419:-|nuORF ENST00000417359.1_1_10:8094326-8094419:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 692.0370483398438 2 691.938776 1381.863 NaN NaN NaN NaN NaN NaN NaN 92.182 1 92.265 91.765 92.765 0.082848 0 0 0 1.0059 1 47972 47972 2.9952 1.8019 1 3156 7721 2263 2267 3436 3436 0.18734303419341813 DKKLKFMRLY 10 Unmodified _DKKLKFMRLY_ 0 0 0 REV__nc|ENSG00000155966|P51816-7|AFF2 REV__nc|ENSG00000155966|P51816-7|AFF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 671.3882446289062 2 671.389208 1340.76386 NaN NaN NaN NaN NaN NaN NaN 57.556 1 57.821 57.321 58.321 0.26444 0 0 0 1.0015 1 26349 26349 0.40072 0 1 + 3157 12758 2264 2268 3437 3437 0.1071114441026566 DKKQHLDKTWA 11 Unmodified _DKKQHLDKTWA_ 0 0 0 PDE4DIP|p.Y267*|1|0.1|ENSG00000178104|chr1:148961867-148961868|TA/-|frameshift_variant;nc|ENSG00000178104|Q5VU43-6|PDE4DIP;nc|ENSG00000178104|Q5VU43-7|PDE4DIP;nc|ENSG00000178104|Q5VU43-3|PDE4DIP;nc|ENSG00000178104|Q5VU43|PDE4DIP;nc|ENSG00000178104|Q5VU43-4|PDE4DIP;ENSG00000178104|ENST00000695795|PDE4DIP;ENST00000533259.1_1_1:144952356-145039598:-|nuORF;ENST00000477941.2_1_1:144952199-144955307:-|nuORF;nc|ENSG00000178104|Q5VU43-11|PDE4DIP;nc|ENSG00000178104|Q5VU43-10|PDE4DIP;nc|ENSG00000178104|Q5VU43-12|PDE4DIP;nc|ENSG00000178104|Q5VU43-8|PDE4DIP;nc|ENSG00000178104|Q5VU43-9|PDE4DIP PDE4DIP|p.Y267*|1|0.1|ENSG00000178104|chr1:148961867-148961868|TA/-|frameshift_variant PDE4DIP|p.Y267*|1|0.1|ENSG00000178104|chr1:148961867-148961868|TA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.3682861328125 2 685.364776 1368.715 NaN NaN NaN NaN NaN NaN NaN 43.744 1 43.744 43.244 44.244 0 0 0 0 0.94243 1 19952 19952 12.175 3.4293 1 3158 5148 2265 2269 3438 3438 0.04538947374840063 DKKRALRRL 9 Unmodified _DKKRALRRL_ 0 0 0 ENSG00000108106|ENST00000264552|UBE2S ENSG00000108106|ENST00000264552|UBE2S ENSG00000108106|ENST00000264552|UBE2S MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.3759765625 2 578.375281 1154.73601 NaN NaN NaN NaN NaN NaN NaN 47.838 1 48.102 47.602 48.602 0.26363 0 0 0 0.88916 1 21868 21868 6.2058 0.9089 1 3159 1622 2266 2270 3439 3439 0.1648300226502215 DKKRALRRL 9 Unmodified _DKKRALRRL_ 0 0 0 ENSG00000108106|ENST00000264552|UBE2S ENSG00000108106|ENST00000264552|UBE2S ENSG00000108106|ENST00000264552|UBE2S MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.3751831054688 2 578.375281 1154.73601 NaN NaN NaN NaN NaN NaN NaN 44.936 1 45.586 45.086 46.086 0.64998 0 0 0 0.90111 1 20594 20594 3.2813 0.54611 1 3160 1622 2266 2270 3440 3440 0.1648300226502215 DKKRERQILFQ 11 Unmodified _DKKRERQILFQ_ 0 0 0 ENSG00000014123|ENST00000369278|UFL1;nc|ENSG00000014123|O94874-2|UFL1 ENSG00000014123|ENST00000369278|UFL1 ENSG00000014123|ENST00000369278|UFL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 730.8191528320312 2 730.920249 1459.82595 NaN NaN NaN NaN NaN NaN NaN 86.205 1 86.205 85.705 86.705 0 0 0 0 1.0059 1 44134 44134 2.9952 0.26005 1 3161 433 2267 2271 3441 3441 0.11442587082933642 DKKRERRKKKY 11 Unmodified _DKKRERRKKKY_ 0 0 0 ENSG00000124383|ENST00000244230|MPHOSPH10 ENSG00000124383|ENST00000244230|MPHOSPH10 ENSG00000124383|ENST00000244230|MPHOSPH10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 384.73883056640625 4 384.487671 1533.92158 2.4052 0.00092477 -1.2745 -0.00049001 1.1307 0.00043476 384.7376952549149 42.906 0.096046 43.72 43.639 43.735 0.81444 15 5 3 0 0 0 0.91104 2 19500 19484;19500 1.2148 1.2148 1 2334100 3162 2358 2268 2272 3442;3443 3443 0.17597359993828832 DKKRERRKKKY 11 Unmodified _DKKRERRKKKY_ 0 0 0 ENSG00000124383|ENST00000244230|MPHOSPH10 ENSG00000124383|ENST00000244230|MPHOSPH10 ENSG00000124383|ENST00000244230|MPHOSPH10 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.7706909179688 3 512.314469 1533.92158 3.2843 0.0016826 -1.0326 -0.00052901 2.2517 0.0011536 512.6483608672729 43.662 0.38415 43.932 43.599 43.983 0.2694 27 14 3 0 0 0 0.13295 1 19929 19929 0.094841 0 1 435640 3163 2358 2268 2272 3444 3444 0.17597359993828832 DKKRLKKKAI 10 Unmodified _DKKRLKKKAI_ 0 0 0 REV__ENSG00000169062|ENST00000375299|UPF3A REV__ENSG00000169062|ENST00000375299|UPF3A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.4139404296875 2 614.416614 1226.81868 NaN NaN NaN NaN NaN NaN NaN 79.816 1 79.816 79.316 80.316 0 0 0 0 0.99774 1 39502 39502 3.5965 2.267 1 + 3164 13378 2269 2273 3445 3445 0.21433899273188217 DKKRNVLA 8 Unmodified _DKKRNVLA_ 0 0 0 ENST00000602865.1_1_1:2282646-2283036:-|nuORF ENST00000602865.1_1_1:2282646-2283036:-|nuORF ENST00000602865.1_1_1:2282646-2283036:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.28924560546875 2 472.287808 942.561064 3.3695 0.0015914 0.84535 0.00039925 4.2148 0.0019906 472.28831019479253 90.943 0.82042 91.195 90.913 91.734 0.25163 135 39 5 0 0 0 0.73203 1 41744 41744 2.0598 1.4583 1 68593000 3165 9307 2270 2274 3446 3446 0.0874858239999412 DKKSPSECSLI 11 Unmodified _DKKSPSECSLI_ 0 0 0 nc|ENSG00000134313|Q9ULH0-2|KIDINS220;ENST00000488729.5_1_2:8870852-8965899:-|nuORF;nc|ENSG00000134313|Q9ULH0-4|KIDINS220;ENSG00000134313|ENST00000256707|KIDINS220;nc|ENSG00000134313|Q9ULH0-5|KIDINS220 nc|ENSG00000134313|Q9ULH0-2|KIDINS220 nc|ENSG00000134313|Q9ULH0-2|KIDINS220 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 603.3042602539062 2 603.805371 1205.59619 3.586 0.0021652 -3.0298 -0.0018294 0.55615 0.00033581 603.8038778940316 50.374 0.11815 50.636 50.529 50.647 0.26146 5 3 2 0 0 0 0.13295 1 22998 22998 7.609 0.88579 1 340470 3166 2799 2271 2275 3447 3447 0.0016141235496434092 DKLAGLWG 8 Unmodified _DKLAGLWG_ 0 0 0 ENSG00000100987|ENST00000376709|VSX1 ENSG00000100987|ENST00000376709|VSX1 ENSG00000100987|ENST00000376709|VSX1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 859.3778076171875 1 859.467229 858.459953 2.3608 0.002029 -2.7884 -0.0023965 -0.4276 -0.00036751 859.4651715160503 99.621 0.22498 99.683 99.531 99.756 0.062241 20 17 2 0 0 0 0.13917 1 53877 53877 9.3474 3.587 1 60751000 3167 1254 2272 2276 3448 3448 0.025061306972816055 DKLESLQGSL 10 Unmodified _DKLESLQGSL_ 0 0 0 REV__nc|ENSG00000150995|Q14643-4|ITPR1 REV__nc|ENSG00000150995|Q14643-4|ITPR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.8351440429688 2 545.292953 1088.57135 3.7694 0.0020554 3.8552 0.0021022 7.6246 0.0041577 545.295076677562 12.787 0.10118 13.43 13.379 13.48 0.64272 4 2 2 0 0 0 0.70333 1 5724 5724 13.042 0 1 430900 + 3168 12600 2273 2277 3449 3449 0.03061100543914108 DKLESLQGSL 10 Unmodified _DKLESLQGSL_ 0 0 0 REV__nc|ENSG00000150995|Q14643-4|ITPR1 REV__nc|ENSG00000150995|Q14643-4|ITPR1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 545.292953 1088.57135 2.9075 0.0015854 5.7443 0.0031323 8.6518 0.0047177 545.2961284249104 12.967 0.10431 13.274 13.216 13.32 0.30727 -0.077759 0.00019684 NaN 13.042 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 91981 + 3169 12600 2273 2277 0.03061100543914108 DKLESLQGSL 10 Unmodified _DKLESLQGSL_ 0 0 0 REV__nc|ENSG00000150995|Q14643-4|ITPR1 REV__nc|ENSG00000150995|Q14643-4|ITPR1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 545.292953 1088.57135 3.7694 0.0020554 3.8552 0.0021022 7.6246 0.0041577 545.295076677562 12.787 0.10118 13.43 13.379 13.48 0.64272 0.077759 -0.0018634 NaN 13.042 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 430900 + 3170 12600 2273 2277 0.03061100543914108 DKLHRPQRHPV 11 Unmodified _DKLHRPQRHPV_ 0 0 0 REV__ENST00000562235.5_1_16:67262534-67263013:+|nuORF REV__ENST00000562235.5_1_16:67262534-67263013:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 691.8955688476562 2 691.891826 1381.7691 NaN NaN NaN NaN NaN NaN NaN 79.373 1 79.693 79.193 80.193 0.31998 0 0 0 1.0059 1 38770 38770 2.9952 0.49676 1 + 3171 17380 2274 2278 3450 3450 0.0934858431705834 DKLLQIQYLAL 11 Unmodified _DKLLQIQYLAL_ 0 0 0 REV__ENST00000588353.1_1_17:40716040-40716649:+|nuORF REV__ENST00000588353.1_1_17:40716040-40716649:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 659.0436401367188 2 659.39247 1316.77039 NaN NaN NaN NaN NaN NaN NaN 99.226 1 99.288 98.788 99.788 0.062241 0 0 0 0.98464 1 53581 53581 8.1555 0 1 + 3172 10459 2275 2279 3451 3451 0.12467360842606467 DKPDLVRRQRS 11 Unmodified _DKPDLVRRQRS_ 0 0 0 REV__ENSG00000227345|ENST00000616448|PARG REV__ENSG00000227345|ENST00000616448|PARG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 684.9247436523438 2 685.386574 1368.75859 NaN NaN NaN NaN NaN NaN NaN 54.667 1 54.667 54.167 55.167 0 0 0 0 1.0044 1 25092 25092 4.897 1.6157 1 + 3173 14564 2276 2280 3452 3452 0.08896556871968642 DKPLVVLVLF 10 Unmodified _DKPLVVLVLF_ 0 0 0 ENST00000447052.1_1_21:24762586-24762793:+|nuORF ENST00000447052.1_1_21:24762586-24762793:+|nuORF ENST00000447052.1_1_21:24762586-24762793:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.5779113769531 3 381.577637 1141.71108 2.0066 0.00076568 -0.93313 -0.00035606 1.0735 0.00040962 381.5772505985709 8.5831 0.52163 8.8893 8.574 9.0956 0.30618 53 45 2 0 0 0 0.94364 2 3862 3862;3916 0.15932 0 1 36853 3174 7983 2277 2281 3453;3454 3453 0.14589509619054297 DKPTIAKGKK 10 Unmodified _DKPTIAKGKK_ 0 0 0 REV__nc|ENSG00000152455|Q9H5I1-2|SUV39H2 REV__nc|ENSG00000152455|Q9H5I1-2|SUV39H2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.3382568359375 2 543.337498 1084.66044 NaN NaN NaN NaN NaN NaN NaN 81.075 1 81.243 80.743 81.743 0.16862 0 0 0 0.98317 1 39797 39797 8.1555 1.4324 1 + 3175 12650 2278 2282 3455 3455 0.12149980294066154 DKPTPDLLEWE 11 Unmodified _DKPTPDLLEWE_ 0 0 0 REV__ENSG00000167202|ENST00000300584|TBC1D2B REV__ENSG00000167202|ENST00000300584|TBC1D2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 671.8294677734375 2 671.8299 1341.64525 NaN NaN NaN NaN NaN NaN NaN 81.134 1 81.134 80.634 81.634 0 0 0 0 0.99571 1 40394 40394 7.1017 0.89594 1 + 3176 13280 2279 2283 3456 3456 -0.011909760843991535 DKRLEAEDYL 10 Unmodified _DKRLEAEDYL_ 0 0 0 ENSG00000196455|ENST00000356763|PIK3R4 ENSG00000196455|ENST00000356763|PIK3R4 ENSG00000196455|ENST00000356763|PIK3R4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 417.87945556640625 3 417.878704 1250.61428 NaN NaN NaN NaN NaN NaN NaN 31.461 1 32.25 31.75 32.75 0.78879 0 0 0 0.9952 1 14209 14209 3.0723 0.63748 1 3177 5746 2280 2284 3457 3457 -0.001001293986746532 DKRLEAEDYL 10 Unmodified _DKRLEAEDYL_ 0 0 0 ENSG00000196455|ENST00000356763|PIK3R4 ENSG00000196455|ENST00000356763|PIK3R4 ENSG00000196455|ENST00000356763|PIK3R4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 417.88037109375 3 417.878704 1250.61428 NaN NaN NaN NaN NaN NaN NaN 32.172 1 32.426 31.926 32.926 0.25452 0 0 0 0.9952 1 14649 14649 3.0723 0 1 3178 5746 2280 2284 3458 3458 -0.001001293986746532 DKRRKKRKEKE 11 Unmodified _DKRRKKRKEKE_ 0 0 0 nc|ENSG00000065000|O14617-3|AP3D1;nc|ENSG00000065000|O14617-2|AP3D1;nc|ENSG00000065000|O14617|AP3D1;ENSG00000065000|ENST00000643116|AP3D1;nc|ENSG00000065000|O14617-4|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 750.837890625 2 750.957698 1499.90084 NaN NaN NaN NaN NaN NaN NaN 100.81 1 100.81 100.31 101.31 0 0 0 0 1.0073 1 55694 55694 1.1933 0.84271 1 3179 681 2281 2285 3459 3459 0.17088769614133525 DKRRRRRRRR 10 Unmodified _DKRRRRRRRR_ 0 0 0 REV__ENSG00000229674|ENST00000448797|H2AL3 REV__ENSG00000229674|ENST00000448797|H2AL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 755.9779052734375 2 755.977956 1509.94136 NaN NaN NaN NaN NaN NaN NaN 54.799 1 55.465 54.965 55.965 0.6665 0 0 0 1.002 1 25077 25077 0 0 1 + 3180 14570 2282 2286 3460 3460 0.2067859356777717 DKRRRRRRRRR 11 Unmodified _DKRRRRRRRRR_ 0 0 0 REV__ENSG00000229674|ENST00000448797|H2AL3 REV__ENSG00000229674|ENST00000448797|H2AL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 834.0253295898438 2 834.028511 1666.04247 NaN NaN NaN NaN NaN NaN NaN 90.892 1 91.565 91.065 92.065 0.67271 0 0 0 1.0082 1 41833 41833 0 0 1 + 3181 14570 2283 2287 3461 3461 0.23609045270472961 DKRRWRKIPKR 11 Unmodified _DKRRWRKIPKR_ 0 0 0 nc|ENSG00000168539|P11229-2|CHRM1;ENSG00000168539|ENST00000306960|CHRM1 nc|ENSG00000168539|P11229-2|CHRM1 nc|ENSG00000168539|P11229-2|CHRM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.633544921875 3 513.654937 1537.94298 NaN NaN NaN NaN NaN NaN NaN 69.837 1 69.837 69.337 70.337 0 0 0 0 1.0072 1 33802 33802 2.8433 2.7034 1 3182 4632 2284 2288 3462 3462 0.19552789813201343 DKRVRRKRV 9 Unmodified _DKRVRRKRV_ 0 0 0 REV__ENSG00000153132|ENST00000325617|CLGN REV__ENSG00000153132|ENST00000325617|CLGN MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.0144348144531 3 404.930178 1211.76871 3.2707 0.0013244 -4.1262 -0.0016708 -0.85548 -0.00034641 404.9291787814303 68.896 0.16803 69.15 69.008 69.176 0.25443 11 9 2 0 0 0 0.11335 1 31514 31514 2.086 1.4592 1 551880 + 3183 12669 2285 2289 3463 3463 0.17129209387871924 DKRVRRKRV 9 Unmodified _DKRVRRKRV_ 0 0 0 REV__ENSG00000153132|ENST00000325617|CLGN REV__ENSG00000153132|ENST00000325617|CLGN MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 404.930178 1211.76871 2.0551 0.00083217 -4.0274 -0.0016308 -1.9723 -0.00079866 404.9284430673173 68.927 0.043808 68.927 68.896 68.94 0 -0.11156 7.6996E-06 NaN 2.086 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1141500 + 3184 12669 2285 2289 0.17129209387871924 DKSPIRYI 8 Unmodified _DKSPIRYI_ 0 0 0 ENST00000480772.1_1_3:49720035-49720580:+|nuORF;ENSG00000164062|ENST00000296456|APEH ENST00000480772.1_1_3:49720035-49720580:+|nuORF ENST00000480772.1_1_3:49720035-49720580:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.19061279296875 3 331.190553 990.549831 NaN NaN NaN NaN NaN NaN NaN 71.435 1 72.099 71.599 72.599 0.66324 0 0 0 0.99035 1 32742 32742 3.5965 0.8613 1 3185 4280 2286 2290 3464 3464 0.054177603058633395 DKTRFPPLQLR 11 Unmodified _DKTRFPPLQLR_ 0 0 0 REV__ENST00000444348.1_1_1:36043143-36043293:-|nuORF REV__ENST00000444348.1_1_1:36043143-36043293:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.9788208007812 2 685.898786 1369.78302 NaN NaN NaN NaN NaN NaN NaN 79.741 1 79.741 79.241 80.241 0 0 0 0 1.0044 1 39440 39440 4.897 1.6157 1 + 3186 16371 2287 2291 3465 3465 0.1129181702549431 DKVFLLDV 8 Unmodified _DKVFLLDV_ 0 0 0 REV__ENSG00000148842|ENST00000369878|CNNM2 REV__ENSG00000148842|ENST00000369878|CNNM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 948.5421752929688 1 948.54006 947.532783 4.0133 0.0038068 -0.87113 -0.0008263 3.1422 0.0029805 948.5396243346962 92.45 0.1954 93.097 92.997 93.192 0.64714 13 10 2 0 0 0 0.5584 1 42539 42539 21.747 0 1 463130 + 3187 12551 2288 2292 3466 3466 0.05691839700057244 DKWKLSLLCWW 11 Unmodified _DKWKLSLLCWW_ 0 0 0 REV__nc|ENSG00000290798|Q9H1B4|NXF5 REV__nc|ENSG00000290798|Q9H1B4|NXF5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.2620849609375 3 493.260202 1476.75878 3.4179 0.0016859 0.29887 0.00014742 3.7168 0.0018333 493.2601752848516 105.91 0.16968 106.51 106.41 106.58 0.59969 16 6 4 0 0 0 0.91459 1 48908 48908 0.094841 0 1 981050 + 3188 18174 2289 2293 3467 3467 0.03946840547632746 DKYKKMIANSE 11 Unmodified _DKYKKMIANSE_ 0 0 0 REV__nc|ENSG00000175054|Q13535-2|ATR REV__nc|ENSG00000175054|Q13535-2|ATR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 663.8411254882812 2 663.839745 1325.66494 NaN NaN NaN NaN NaN NaN NaN 87.251 1 87.291 86.791 87.791 0.039955 0 0 0 0.95688 1 44125 44125 10.8 0.64894 1 + 3189 13656 2290 2294 3468 3468 0.01513076654669021 DLAARNVL 8 Unmodified _DLAARNVL_ 0 0 0 nc|ENSG00000077782|P11362-14|FGFR1;nc|ENSG00000077782|P11362-4|FGFR1;nc|ENSG00000077782|P11362-3|FGFR1;nc|ENSG00000077782|P11362-21|FGFR1;ENSG00000077782|ENST00000447712|FGFR1;nc|ENSG00000077782|P11362-19|FGFR1;nc|ENSG00000077782|P11362-7|FGFR1;nc|ENSG00000077782|P11362-2|FGFR1;nc|ENSG00000077782|P11362-20|FGFR1;nc|ENSG00000077782|P11362-6|FGFR1;nc|ENSG00000077782|P11362-5|FGFR1;ENST00000526570.5_1_8:38271148-38285795:-|nuORF;nc|ENSG00000066468|P21802-2|FGFR2;nc|ENSG00000066468|P21802-17|FGFR2;ENST00000529422.1_1_19:10461953-10463789:-|nuORF;nc|ENSG00000066468|P21802-8|FGFR2;nc|ENSG00000160867|P22455-2|FGFR4;nc|ENSG00000068078|P22607-4|FGFR3;nc|ENSG00000066468|P21802-6|FGFR2;nc|ENSG00000066468|P21802-15|FGFR2;ENSG00000160867|ENST00000292408|FGFR4;ENSG00000068078|ENST00000440486|FGFR3;nc|ENSG00000066468|P21802-21|FGFR2;nc|ENSG00000066468|P21802-5|FGFR2;nc|ENSG00000066468|P21802-18|FGFR2;ENSG00000066468|ENST00000358487|FGFR2;nc|ENSG00000066468|P21802-3|FGFR2;nc|ENSG00000066468|P21802-16|FGFR2;ENST00000520579.5_1_5:149495328-149514444:-|nuORF;ENSG00000122025|ENST00000241453|FLT3;ENSG00000113721|ENST00000261799|PDGFRB;nc|ENSG00000066468|P21802-23|FGFR2;nc|ENSG00000066468|P21802-20|FGFR2;nc|ENSG00000068078|P22607-2|FGFR3;ENST00000583038.5_1_17:37872360-37881463:+|nuORF;ENST00000530220.1_1_19:10461631-10463789:-|nuORF;ENST00000563010.1_1_15:75093985-75094348:+|nuORF;ENST00000473014.1_1_1:43783488-43785201:+|nuORF;ENST00000495754.1_1_2:98351695-98354405:+|nuORF;ENST00000564216.5_1_15:75092818-75094348:+|nuORF;ENST00000380987.2_1_13:28578191-28599431:-|nuORF;nc|ENSG00000115085|P43403-2|ZAP70;nc|ENSG00000111816|P42685-2|FRK;nc|ENSG00000068078|P22607-3|FGFR3;ENSG00000125508|ENST00000217188|SRMS;nc|ENSG00000115085|P43403-3|ZAP70;ENSG00000111816|ENST00000606080|FRK;ENST00000604236.5_1_10:123239373-123278228:-|nuORF;nc|ENSG00000141736|P04626-3|ERBB2;nc|ENSG00000165025|P43405-2|SYK;ENSG00000115085|ENST00000264972|ZAP70;ENSG00000165025|ENST00000375754|SYK;nc|ENSG00000141736|P04626-2|ERBB2;nc|ENSG00000066468|P21802-22|FGFR2;nc|ENSG00000066468|P21802-4|FGFR2;ENSG00000103653|ENST00000220003|CSK;ENSG00000066056|ENST00000372476|TIE1;ENSG00000146648|ENST00000275493|EGFR;ENSG00000070886|ENST00000166244|EPHA8;ENSG00000105397|ENST00000525621|TYK2;ENSG00000134853|ENST00000257290|PDGFRA;nc|ENSG00000141736|P04626-5|ERBB2;nc|ENSG00000141736|P04626-4|ERBB2;ENSG00000141736|ENST00000269571|ERBB2;ENSG00000162434|ENST00000342505|JAK1;nc|ENSG00000178568|Q15303-4|ERBB4;nc|ENSG00000178568|Q15303-3|ERBB4;nc|ENSG00000178568|Q15303-2|ERBB4;ENSG00000178568|ENST00000342788|ERBB4;ENST00000487283.5_1_2:98351482-98355958:+|nuORF nc|ENSG00000077782|P11362-14|FGFR1;ENSG00000146648|ENST00000275493|EGFR;ENSG00000070886|ENST00000166244|EPHA8;ENSG00000105397|ENST00000525621|TYK2;ENSG00000134853|ENST00000257290|PDGFRA;nc|ENSG00000141736|P04626-5|ERBB2;ENSG00000162434|ENST00000342505|JAK1;nc|ENSG00000178568|Q15303-4|ERBB4;ENST00000487283.5_1_2:98351482-98355958:+|nuORF ENSG00000162434|ENST00000342505|JAK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 436.2545471191406 2 436.253434 870.492316 2.8483 0.0012426 0.31294 0.00013652 3.1612 0.0013791 436.2534295548811 42.742 0.28298 42.742 42.591 42.874 0 20 15 2 0 0 0 0.13532 1 19464 19464 49.933 0 1 661750 3190 4139;869;3526;774;1493;2832;3284;5173;8349 2291 2295 3469 3469 0.051889181002820806 DLAARNVL 8 Unmodified _DLAARNVL_ 0 0 0 nc|ENSG00000077782|P11362-14|FGFR1;nc|ENSG00000077782|P11362-4|FGFR1;nc|ENSG00000077782|P11362-3|FGFR1;nc|ENSG00000077782|P11362-21|FGFR1;ENSG00000077782|ENST00000447712|FGFR1;nc|ENSG00000077782|P11362-19|FGFR1;nc|ENSG00000077782|P11362-7|FGFR1;nc|ENSG00000077782|P11362-2|FGFR1;nc|ENSG00000077782|P11362-20|FGFR1;nc|ENSG00000077782|P11362-6|FGFR1;nc|ENSG00000077782|P11362-5|FGFR1;ENST00000526570.5_1_8:38271148-38285795:-|nuORF;nc|ENSG00000066468|P21802-2|FGFR2;nc|ENSG00000066468|P21802-17|FGFR2;ENST00000529422.1_1_19:10461953-10463789:-|nuORF;nc|ENSG00000066468|P21802-8|FGFR2;nc|ENSG00000160867|P22455-2|FGFR4;nc|ENSG00000068078|P22607-4|FGFR3;nc|ENSG00000066468|P21802-6|FGFR2;nc|ENSG00000066468|P21802-15|FGFR2;ENSG00000160867|ENST00000292408|FGFR4;ENSG00000068078|ENST00000440486|FGFR3;nc|ENSG00000066468|P21802-21|FGFR2;nc|ENSG00000066468|P21802-5|FGFR2;nc|ENSG00000066468|P21802-18|FGFR2;ENSG00000066468|ENST00000358487|FGFR2;nc|ENSG00000066468|P21802-3|FGFR2;nc|ENSG00000066468|P21802-16|FGFR2;ENST00000520579.5_1_5:149495328-149514444:-|nuORF;ENSG00000122025|ENST00000241453|FLT3;ENSG00000113721|ENST00000261799|PDGFRB;nc|ENSG00000066468|P21802-23|FGFR2;nc|ENSG00000066468|P21802-20|FGFR2;nc|ENSG00000068078|P22607-2|FGFR3;ENST00000583038.5_1_17:37872360-37881463:+|nuORF;ENST00000530220.1_1_19:10461631-10463789:-|nuORF;ENST00000563010.1_1_15:75093985-75094348:+|nuORF;ENST00000473014.1_1_1:43783488-43785201:+|nuORF;ENST00000495754.1_1_2:98351695-98354405:+|nuORF;ENST00000564216.5_1_15:75092818-75094348:+|nuORF;ENST00000380987.2_1_13:28578191-28599431:-|nuORF;nc|ENSG00000115085|P43403-2|ZAP70;nc|ENSG00000111816|P42685-2|FRK;nc|ENSG00000068078|P22607-3|FGFR3;ENSG00000125508|ENST00000217188|SRMS;nc|ENSG00000115085|P43403-3|ZAP70;ENSG00000111816|ENST00000606080|FRK;ENST00000604236.5_1_10:123239373-123278228:-|nuORF;nc|ENSG00000141736|P04626-3|ERBB2;nc|ENSG00000165025|P43405-2|SYK;ENSG00000115085|ENST00000264972|ZAP70;ENSG00000165025|ENST00000375754|SYK;nc|ENSG00000141736|P04626-2|ERBB2;nc|ENSG00000066468|P21802-22|FGFR2;nc|ENSG00000066468|P21802-4|FGFR2;ENSG00000103653|ENST00000220003|CSK;ENSG00000066056|ENST00000372476|TIE1;ENSG00000146648|ENST00000275493|EGFR;ENSG00000070886|ENST00000166244|EPHA8;ENSG00000105397|ENST00000525621|TYK2;ENSG00000134853|ENST00000257290|PDGFRA;nc|ENSG00000141736|P04626-5|ERBB2;nc|ENSG00000141736|P04626-4|ERBB2;ENSG00000141736|ENST00000269571|ERBB2;ENSG00000162434|ENST00000342505|JAK1;nc|ENSG00000178568|Q15303-4|ERBB4;nc|ENSG00000178568|Q15303-3|ERBB4;nc|ENSG00000178568|Q15303-2|ERBB4;ENSG00000178568|ENST00000342788|ERBB4;ENST00000487283.5_1_2:98351482-98355958:+|nuORF nc|ENSG00000077782|P11362-14|FGFR1;ENSG00000146648|ENST00000275493|EGFR;ENSG00000070886|ENST00000166244|EPHA8;ENSG00000105397|ENST00000525621|TYK2;ENSG00000134853|ENST00000257290|PDGFRA;nc|ENSG00000141736|P04626-5|ERBB2;ENSG00000162434|ENST00000342505|JAK1;nc|ENSG00000178568|Q15303-4|ERBB4;ENST00000487283.5_1_2:98351482-98355958:+|nuORF ENSG00000162434|ENST00000342505|JAK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.255126953125 2 436.253434 870.492316 2.6941 0.0011753 -0.52677 -0.00022981 2.1674 0.00094552 436.25335251653036 41.816 0.20228 42.625 42.517 42.72 0.80855 21 13 2 0 0 0 0.21358 1 18965 18965 41.84 0 1 1241300 3191 4139;869;3526;774;1493;2832;3284;5173;8349 2291 2295 3470 3470 0.051889181002820806 DLAARNVL 8 Unmodified _DLAARNVL_ 0 0 0 nc|ENSG00000077782|P11362-14|FGFR1;nc|ENSG00000077782|P11362-4|FGFR1;nc|ENSG00000077782|P11362-3|FGFR1;nc|ENSG00000077782|P11362-21|FGFR1;ENSG00000077782|ENST00000447712|FGFR1;nc|ENSG00000077782|P11362-19|FGFR1;nc|ENSG00000077782|P11362-7|FGFR1;nc|ENSG00000077782|P11362-2|FGFR1;nc|ENSG00000077782|P11362-20|FGFR1;nc|ENSG00000077782|P11362-6|FGFR1;nc|ENSG00000077782|P11362-5|FGFR1;ENST00000526570.5_1_8:38271148-38285795:-|nuORF;nc|ENSG00000066468|P21802-2|FGFR2;nc|ENSG00000066468|P21802-17|FGFR2;ENST00000529422.1_1_19:10461953-10463789:-|nuORF;nc|ENSG00000066468|P21802-8|FGFR2;nc|ENSG00000160867|P22455-2|FGFR4;nc|ENSG00000068078|P22607-4|FGFR3;nc|ENSG00000066468|P21802-6|FGFR2;nc|ENSG00000066468|P21802-15|FGFR2;ENSG00000160867|ENST00000292408|FGFR4;ENSG00000068078|ENST00000440486|FGFR3;nc|ENSG00000066468|P21802-21|FGFR2;nc|ENSG00000066468|P21802-5|FGFR2;nc|ENSG00000066468|P21802-18|FGFR2;ENSG00000066468|ENST00000358487|FGFR2;nc|ENSG00000066468|P21802-3|FGFR2;nc|ENSG00000066468|P21802-16|FGFR2;ENST00000520579.5_1_5:149495328-149514444:-|nuORF;ENSG00000122025|ENST00000241453|FLT3;ENSG00000113721|ENST00000261799|PDGFRB;nc|ENSG00000066468|P21802-23|FGFR2;nc|ENSG00000066468|P21802-20|FGFR2;nc|ENSG00000068078|P22607-2|FGFR3;ENST00000583038.5_1_17:37872360-37881463:+|nuORF;ENST00000530220.1_1_19:10461631-10463789:-|nuORF;ENST00000563010.1_1_15:75093985-75094348:+|nuORF;ENST00000473014.1_1_1:43783488-43785201:+|nuORF;ENST00000495754.1_1_2:98351695-98354405:+|nuORF;ENST00000564216.5_1_15:75092818-75094348:+|nuORF;ENST00000380987.2_1_13:28578191-28599431:-|nuORF;nc|ENSG00000115085|P43403-2|ZAP70;nc|ENSG00000111816|P42685-2|FRK;nc|ENSG00000068078|P22607-3|FGFR3;ENSG00000125508|ENST00000217188|SRMS;nc|ENSG00000115085|P43403-3|ZAP70;ENSG00000111816|ENST00000606080|FRK;ENST00000604236.5_1_10:123239373-123278228:-|nuORF;nc|ENSG00000141736|P04626-3|ERBB2;nc|ENSG00000165025|P43405-2|SYK;ENSG00000115085|ENST00000264972|ZAP70;ENSG00000165025|ENST00000375754|SYK;nc|ENSG00000141736|P04626-2|ERBB2;nc|ENSG00000066468|P21802-22|FGFR2;nc|ENSG00000066468|P21802-4|FGFR2;ENSG00000103653|ENST00000220003|CSK;ENSG00000066056|ENST00000372476|TIE1;ENSG00000146648|ENST00000275493|EGFR;ENSG00000070886|ENST00000166244|EPHA8;ENSG00000105397|ENST00000525621|TYK2;ENSG00000134853|ENST00000257290|PDGFRA;nc|ENSG00000141736|P04626-5|ERBB2;nc|ENSG00000141736|P04626-4|ERBB2;ENSG00000141736|ENST00000269571|ERBB2;ENSG00000162434|ENST00000342505|JAK1;nc|ENSG00000178568|Q15303-4|ERBB4;nc|ENSG00000178568|Q15303-3|ERBB4;nc|ENSG00000178568|Q15303-2|ERBB4;ENSG00000178568|ENST00000342788|ERBB4;ENST00000487283.5_1_2:98351482-98355958:+|nuORF nc|ENSG00000077782|P11362-14|FGFR1;ENSG00000146648|ENST00000275493|EGFR;ENSG00000070886|ENST00000166244|EPHA8;ENSG00000105397|ENST00000525621|TYK2;ENSG00000134853|ENST00000257290|PDGFRA;nc|ENSG00000141736|P04626-5|ERBB2;ENSG00000162434|ENST00000342505|JAK1;nc|ENSG00000178568|Q15303-4|ERBB4;ENST00000487283.5_1_2:98351482-98355958:+|nuORF ENSG00000162434|ENST00000342505|JAK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 436.25494384765625 2 436.253434 870.492316 2.975 0.0012978 0.46995 0.00020502 3.4449 0.0015029 436.25357438675525 42.565 0.28305 42.836 42.665 42.948 0.27021 24 11 3 0 0 0 0.070862 1 19396 19396 58.679 0 1 2017600 3192 4139;869;3526;774;1493;2832;3284;5173;8349 2291 2295 3471 3471 0.051889181002820806 DLAASTTML 9 Unmodified _DLAASTTML_ 0 0 0 ENST00000450544.1_1_7:63361310-63365003:+|nuORF ENST00000450544.1_1_7:63361310-63365003:+|nuORF ENST00000450544.1_1_7:63361310-63365003:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 461.7333984375 2 461.731143 921.447733 2.5429 0.0011741 1.0391 0.00047981 3.582 0.0016539 461.73155358585194 38.674 0.17785 38.938 38.821 38.999 0.26408 15 8 2 0 0 0 0.12301 1 17583 17583 28.487 1.6032 1 475620 3193 8008 2292 2296 3472 3472 -0.01613273828081674 DLAASTTML 9 Unmodified _DLAASTTML_ 0 0 0 ENST00000450544.1_1_7:63361310-63365003:+|nuORF ENST00000450544.1_1_7:63361310-63365003:+|nuORF ENST00000450544.1_1_7:63361310-63365003:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 461.7320251464844 2 461.731143 921.447733 2.7149 0.0012536 0.94644 0.000437 3.6614 0.0016906 461.73145596504037 38.177 0.3126 38.811 38.703 39.015 0.63389 26 14 2 0 0 0 0.22507 1 17468 17468 21.747 1.293 1 320280 3194 8008 2292 2296 3473 3473 -0.01613273828081674 DLCHKFLQL 9 Unmodified _DLCHKFLQL_ 0 0 0 ENSG00000138134|ENST00000371926|STAMBPL1;nc|ENSG00000138134|Q96FJ0-2|STAMBPL1 ENSG00000138134|ENST00000371926|STAMBPL1 ENSG00000138134|ENST00000371926|STAMBPL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.2276611328125 2 558.797152 1115.57975 3.577 0.0019988 1.493 0.00083426 5.07 0.0028331 558.7981359120066 37.788 0.20585 38.049 37.978 38.184 0.26083 8 6 2 0 0 0 0.10063 1 17229 17229 11.64 0 1 185570 3195 3074 2293 2297 3474 3474 0.026583759795585138 DLDVKKMPL 9 Unmodified _DLDVKKMPL_ 0 0 0 ENSG00000041880|ENST00000398755|PARP3;nc|ENSG00000041880|Q9Y6F1-2|PARP3 ENSG00000041880|ENST00000398755|PARP3 ENSG00000041880|ENST00000398755|PARP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.8013916015625 2 529.79936 1057.58417 3.3997 0.0018011 -0.77966 -0.00041307 2.62 0.0013881 529.7984439572308 47.708 0.1667 47.971 47.942 48.109 0.26363 12 8 2 0 0 0 0.053453 1 21829 21829 45.7 27.565 1 706360 3196 539 2294 2298 3475 3475 0.057678404024500196 DLDVKKMPL 9 Unmodified _DLDVKKMPL_ 0 0 0 ENSG00000041880|ENST00000398755|PARP3;nc|ENSG00000041880|Q9Y6F1-2|PARP3 ENSG00000041880|ENST00000398755|PARP3 ENSG00000041880|ENST00000398755|PARP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.8014526367188 2 529.79936 1057.58417 3.2133 0.0017024 -0.1053 -5.5789E-05 3.1079 0.0016466 529.7995341392285 47.061 0.18653 47.713 47.689 47.876 0.65219 16 10 2 0 0 0 0.093314 1 21575 21575 34.402 21.87 1 677130 3197 539 2294 2298 3476 3476 0.057678404024500196 DLEERKNSL 9 Unmodified _DLEERKNSL_ 0 0 0 ENSG00000152147|ENST00000281950|GEMIN6 ENSG00000152147|ENST00000281950|GEMIN6 ENSG00000152147|ENST00000281950|GEMIN6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.2899780273438 2 552.288202 1102.56185 3.3628 0.0018572 0.1812 0.00010007 3.544 0.0019573 552.2882393573218 17.807 0.249 18.108 17.956 18.205 0.30159 38 22 2 0 0 0 0.19413 1 8047 8047 23.79 4.4278 1 179200 3198 3741 2295 2299 3477 3477 0.014673322583803383 DLEERKNSL 9 Unmodified _DLEERKNSL_ 0 0 0 ENSG00000152147|ENST00000281950|GEMIN6 ENSG00000152147|ENST00000281950|GEMIN6 ENSG00000152147|ENST00000281950|GEMIN6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.2890014648438 2 552.288202 1102.56185 NaN NaN NaN NaN NaN NaN NaN 17.56 1 18.221 17.721 18.721 0.66072 0 0 0 0.10783 1 7924 7924 40.239 4.1122 1 3199 3741 2295 2299 3478 3478 0.014673322583803383 DLEKDQQKL 9 Unmodified _DLEKDQQKL_ 0 0 0 nc|ENSG00000180357|O15014-2|ZNF609;ENSG00000180357|ENST00000326648|ZNF609 nc|ENSG00000180357|O15014-2|ZNF609 nc|ENSG00000180357|O15014-2|ZNF609 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.7257080078125 2 558.798403 1115.58225 3.5107 0.0019618 -0.40236 -0.00022484 3.1083 0.0017369 558.7984709527763 37.203 0.18648 37.833 37.752 37.939 0.62999 10 8 2 0 0 0 0.10355 1 17059 17059 6.2058 0 1 160040 3200 5249 2296 2300 3479 3479 0.029085029181942446 DLERKVESL 9 Unmodified _DLERKVESL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000421459.2_2_10:17272631-17276850:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.8028564453125 2 544.800946 1087.58734 3.5897 0.0019557 -0.059775 -3.2565E-05 3.53 0.0019231 544.8009306291877 36.861 0.45583 36.861 36.624 37.08 0 67 19 4 0 0 0 1.1809E-05 4 16758 16660;16708;16758;16814 159.1 62.99 1 7350300 3201 483 2297 2301 3480;3481;3482;3483 3482 0.04704806780819126 DLERKVESL 9 Unmodified _DLERKVESL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000421459.2_2_10:17272631-17276850:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.5372619628906 3 363.536389 1087.58734 2.6823 0.0009751 -0.07768 -2.824E-05 2.6046 0.00094686 363.53636362133113 36.858 0.41202 36.858 36.668 37.08 0 53 17 4 0 0 0 0.048715 1 16745 16745 47.732 10.657 1 3146100 3202 483 2297 2301 3484 3484 0.04704806780819126 DLERKVESL 9 Unmodified _DLERKVESL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000421459.2_2_10:17272631-17276850:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.802734375 2 544.800946 1087.58734 3.2662 0.0017794 0.49354 0.00026888 3.7598 0.0020483 544.8011015806476 35.742 0.35517 36.534 36.327 36.683 0.79131 39 17 3 0 0 0 0.0010583 2 16180 16180;16229 147.24 61.599 1 16018000 3203 483 2297 2301 3485;3486 3485 0.04704806780819126 DLERKVESL 9 Unmodified _DLERKVESL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000421459.2_2_10:17272631-17276850:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 363.5368957519531 3 363.536389 1087.58734 2.4973 0.00090786 -0.80637 -0.00029315 1.6909 0.00061472 363.5361087061528 35.741 0.28962 36.532 36.371 36.66 0.79131 29 13 3 0 0 0 0.057456 1 16182 16182 41.347 3.5757 1 4915800 3204 483 2297 2301 3487 3487 0.04704806780819126 DLERKVESL 9 Unmodified _DLERKVESL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000421459.2_2_10:17272631-17276850:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.8027954101562 2 544.800946 1087.58734 3.5845 0.0019528 -0.11042 -6.0157E-05 3.4741 0.0018927 544.8009601738813 36.974 0.72944 37.232 36.929 37.659 0.25768 81 23 5 0 0 0 3.9589E-14 4 16828 16770;16828;16887;16948 171.46 67.576 1 35317000 3205 483 2297 2301 3488;3489;3490;3491 3489 0.04704806780819126 DLERKVESL 9 Unmodified _DLERKVESL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000421459.2_2_10:17272631-17276850:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.5373840332031 3 363.536389 1087.58734 2.7213 0.00098928 0.026721 9.7141E-06 2.748 0.00099899 363.5364491369559 36.974 0.54319 37.231 36.963 37.506 0.25768 60 17 5 0 0 0 0.039961 2 16783 16783;16842 51.488 10.763 1 20115000 3206 483 2297 2301 3492;3493 3492 0.04704806780819126 DLERKVESL 9 Unmodified _DLERKVESL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000421459.2_2_10:17272631-17276850:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.8023071289062 2 544.800946 1087.58734 3.6239 0.0019743 -0.15295 -8.3328E-05 3.471 0.001891 544.8010291830335 36.27 0.74752 36.896 36.665 37.413 0.62631 87 27 5 0 0 0 3.9589E-14 4 16574 16574;16639;16698;16748 171.46 64.277 1 42070000 3207 483 2297 2301 3494;3495;3496;3497 3494 0.04704806780819126 DLERKVESL 9 Unmodified _DLERKVESL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000421459.2_2_10:17272631-17276850:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.5373229980469 3 363.536389 1087.58734 2.6859 0.00097643 -0.0040425 -1.4696E-06 2.6819 0.00097496 363.5364289715524 36.271 0.49745 36.897 36.729 37.227 0.62631 62 16 5 0 0 0 0.031228 2 16581 16581;16641 55.235 15.694 1 15262000 3208 483 2297 2301 3498;3499 3498 0.04704806780819126 DLEWRPDR 8 Unmodified _DLEWRPDR_ 0 0 0 ENSG00000141639|ENST00000400384|MAPK4 ENSG00000141639|ENST00000400384|MAPK4 ENSG00000141639|ENST00000400384|MAPK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.7061767578125 2 543.76998 1085.52541 NaN NaN NaN NaN NaN NaN NaN 53.393 1 54.196 53.696 54.696 0.80351 0 0 0 0.99035 1 24355 24355 4.756 0.81161 1 3209 3278 2298 2302 3500 3500 -0.013934998476770488 DLFEIKPILKV 11 Unmodified _DLFEIKPILKV_ 0 0 0 REV__nc|ENSG00000010322|Q9Y2I1-4|NISCH REV__nc|ENSG00000010322|Q9Y2I1-4|NISCH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 657.8781127929688 2 657.905214 1313.79587 NaN NaN NaN NaN NaN NaN NaN 80.966 1 81.135 80.635 81.635 0.16862 0 0 0 1.0041 1 39737 39737 5.2969 0 1 + 3210 10224 2299 2303 3501 3501 0.15152835365006467 DLFLLREEDMV 11 Unmodified _DLFLLREEDMV_ 0 0 0 ENST00000332065.9_1_17:74078001-74078805:-|nuORF ENST00000332065.9_1_17:74078001-74078805:-|nuORF ENST00000332065.9_1_17:74078001-74078805:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 690.3487548828125 2 690.347403 1378.68025 NaN NaN NaN NaN NaN NaN NaN 102.73 1 102.73 102.23 103.23 0 0 0 0 1.0057 1 56686 56686 3.2813 0.54611 1 3211 6996 2300 2304 3502 3502 0.006059434518647322 DLFRKALEL 9 Unmodified _DLFRKALEL_ 0 0 0 ENSG00000169189|ENST00000361439|NSMCE1;ENST00000565070.5_1_16:27237776-27268891:-|nuORF;ENST00000569236.5_1_16:27236480-27252833:-|nuORF ENSG00000169189|ENST00000361439|NSMCE1 ENSG00000169189|ENST00000361439|NSMCE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.8260498046875 2 552.824224 1103.63389 NaN NaN NaN NaN NaN NaN NaN 63.893 1 64.141 63.641 64.641 0.24803 0 0 0 0.096718 1 29263 29263 42.312 0.35693 1 3212 4675 2301 2305 3503 3503 0.08622291402753035 DLGGQIIAFL 10 Unmodified _DLGGQIIAFL_ 0 0 0 REV__ENST00000585885.5_1_19:10818158-10819649:+|nuORF REV__ENST00000585885.5_1_19:10818158-10819649:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 349.86944580078125 3 349.534209 1045.5808 2.3516 0.00082198 0.46849 0.00016375 2.8201 0.00098573 349.5342816840353 14.802 0.20439 15.028 14.932 15.136 0.22622 21 14 2 0 0 0 0.73282 1 6513 6513 6.6304 1.5829 1 128370 + 3213 14492 2302 2306 3504 3504 0.05982913620096042 DLGGQIIAFL 10 Unmodified _DLGGQIIAFL_ 0 0 0 REV__ENST00000585885.5_1_19:10818158-10819649:+|nuORF REV__ENST00000585885.5_1_19:10818158-10819649:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 349.534209 1045.5808 2.3516 0.00082198 0.46849 0.00016375 2.8201 0.00098573 349.5342816840353 14.802 0.20439 15.028 14.932 15.136 0.22622 0 0 NaN 6.6304 21 14 2 NaN NaN NaN NaN 0 NaN NaN 0 128370 + 3214 14492 2302 2306 0.05982913620096042 DLGKKIAL 8 Unmodified _DLGKKIAL_ 0 0 0 nc|ENSG00000138674|O94979-3|SEC31A;nc|ENSG00000138674|O94979-9|SEC31A;nc|ENSG00000138674|O94979-2|SEC31A;ENSG00000138674|ENST00000395310|SEC31A;nc|ENSG00000138674|O94979-8|SEC31A nc|ENSG00000138674|O94979-3|SEC31A nc|ENSG00000138674|O94979-3|SEC31A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 429.2776794433594 2 429.276378 856.538203 2.7712 0.0011896 0.32958 0.00014148 3.1008 0.0013311 429.276523019635 35.874 0.25587 35.874 35.743 35.999 0 27 14 2 0 0 0 0.042878 1 16263 16263 68.081 15.812 1 1133800 3215 3111 2303 2307 3505 3505 0.10419563282493982 DLGKKIAL 8 Unmodified _DLGKKIAL_ 0 0 0 nc|ENSG00000138674|O94979-3|SEC31A;nc|ENSG00000138674|O94979-9|SEC31A;nc|ENSG00000138674|O94979-2|SEC31A;ENSG00000138674|ENST00000395310|SEC31A;nc|ENSG00000138674|O94979-8|SEC31A nc|ENSG00000138674|O94979-3|SEC31A nc|ENSG00000138674|O94979-3|SEC31A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 429.2775573730469 2 429.276378 856.538203 2.8763 0.0012347 0.059187 2.5408E-05 2.9355 0.0012601 429.2763770587774 35.654 0.48297 35.909 35.651 36.134 0.25524 48 16 4 0 0 0 0.018369 3 16261 16208;16261;16313 88.954 19.849 1 5654100 3216 3111 2303 2307 3506;3507;3508 3507 0.10419563282493982 DLGKKIAL 8 Unmodified _DLGKKIAL_ 0 0 0 nc|ENSG00000138674|O94979-3|SEC31A;nc|ENSG00000138674|O94979-9|SEC31A;nc|ENSG00000138674|O94979-2|SEC31A;ENSG00000138674|ENST00000395310|SEC31A;nc|ENSG00000138674|O94979-8|SEC31A nc|ENSG00000138674|O94979-3|SEC31A nc|ENSG00000138674|O94979-3|SEC31A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 429.2777099609375 2 429.276378 856.538203 3.086 0.0013248 0.32581 0.00013986 3.4119 0.0014646 429.27646126197243 35.223 0.38 35.846 35.681 36.061 0.62294 40 13 4 0 0 0 0.025972 2 16173 16113;16173 81.89 16.655 1 5686100 3217 3111 2303 2307 3509;3510 3510 0.10419563282493982 DLGKKIAL 8 Unmodified _DLGKKIAL_ 0 0 0 nc|ENSG00000138674|O94979-3|SEC31A;nc|ENSG00000138674|O94979-9|SEC31A;nc|ENSG00000138674|O94979-2|SEC31A;ENSG00000138674|ENST00000395310|SEC31A;nc|ENSG00000138674|O94979-8|SEC31A nc|ENSG00000138674|O94979-3|SEC31A nc|ENSG00000138674|O94979-3|SEC31A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 429.276378 856.538203 2.7454 0.0011785 0.099935 4.29E-05 2.8453 0.0012214 429.2763544856099 34.968 0.28862 35.757 35.642 35.93 0.78921 -0.089796 -9.0412E-05 NaN 88.954 44 18 3 NaN NaN NaN NaN 0 NaN NaN 0 1054800 3218 3111 2303 2307 0.10419563282493982 DLGKKKLL 8 Unmodified _DLGKKKLL_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3;nc|ENSG00000189091|Q15393-3|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.5401916503906 3 305.539294 913.596052 2.016 0.00061597 0.67798 0.00020715 2.694 0.00082312 305.5394867879119 17.852 0.40899 18.153 17.902 18.311 0.30159 85 34 3 0 0 0 0.5438 1 8058 8058 19.257 1.1106 1 600930 3219 5704 2304 2308 3511 3511 0.1357982520794394 DLGKKKLL 8 Unmodified _DLGKKKLL_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3;nc|ENSG00000189091|Q15393-3|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 305.8743896484375 3 305.539294 913.596052 2.1382 0.00065331 0.55955 0.00017096 2.6978 0.00082427 305.5394067609202 17.644 0.2064 18.305 18.135 18.341 0.66072 44 25 2 0 0 0 0.52517 1 7975 7975 14.838 0.93222 1 1205700 3220 5704 2304 2308 3512 3512 0.1357982520794394 DLGKLKKI 8 Unmodified _DLGKLKKI_ 0 0 0 ENST00000482601.1_1_2:144885858-144903287:-|nuORF;GTDC1|p.S136Hfs*10|1|0.37|ENSG00000121964|chr2:144141996-144141997|GA/-|frameshift_variant;nc|ENSG00000121964|Q4AE62-3|GTDC1;ENST00000491448.5_1_2:144764747-144969145:-|nuORF;nc|ENSG00000121964|Q4AE62-2|GTDC1;nc|ENSG00000121964|Q4AE62-4|GTDC1;nc|ENSG00000121964|Q4AE62-5|GTDC1;ENSG00000121964|ENST00000682281|GTDC1 ENST00000482601.1_1_2:144885858-144903287:-|nuORF ENST00000482601.1_1_2:144885858-144903287:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 305.5401306152344 3 305.539294 913.596052 2.1382 0.00065331 0.55955 0.00017096 2.6978 0.00082427 305.5394067609202 17.644 0.2064 18.305 18.135 18.341 0.66072 44 25 2 0 0 0 0.49219 1 7929 7929 22.736 5.6234 1 1205700 3221 2252 2305 2309 3513 3513 0.1357982520794394 DLHEKDFSL 9 Unmodified _DLHEKDFSL_ 0 0 0 ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.274169921875 2 552.272021 1102.52949 3.3379 0.0018434 -0.35699 -0.00019715 2.9809 0.0016463 552.2718008839521 44.253 0.26945 44.522 44.429 44.698 0.2694 27 15 2 0 0 0 0.0076144 2 20261 20210;20261 86.332 27.27 1 3545400 3222 1350 2306 2310 3514;3515 3515 -0.0176745514461345 DLHEKDFSL 9 Unmodified _DLHEKDFSL_ 0 0 0 ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 368.51806640625 3 368.517106 1102.52949 2.4562 0.00090516 -0.30389 -0.00011199 2.1523 0.00079317 368.51699603406223 44.247 0.24636 44.516 44.452 44.698 0.2694 21 12 2 0 0 0 0.071132 1 20237 20237 30.703 14.138 1 1680100 3223 1350 2306 2310 3516 3516 -0.0176745514461345 DLHEKDFSL 9 Unmodified _DLHEKDFSL_ 0 0 0 ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.2742309570312 2 552.272021 1102.52949 3.6579 0.0020201 0.54491 0.00030094 4.2028 0.0023211 552.2724785953327 43.775 0.21427 44.424 44.215 44.43 0.64872 22 12 3 0 0 0 0.013715 1 20023 20023 76.825 27.27 1 5416500 3224 1350 2306 2310 3517 3517 -0.0176745514461345 DLHEKDFSL 9 Unmodified _DLHEKDFSL_ 0 0 0 ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 368.51837158203125 3 368.517106 1102.52949 2.7465 0.0010121 0.69218 0.00025508 3.4386 0.0012672 368.517458037775 43.7 0.10554 44.349 44.291 44.397 0.64872 10 5 3 0 0 0 0.16976 1 20047 20047 18.373 3.9677 1 934600 3225 1350 2306 2310 3518 3518 -0.0176745514461345 DLHHHQDL 8 Unmodified _DLHHHQDL_ 0 0 0 nc|ENSG00000187486|Q14654-2|KCNJ11;ENSG00000187486|ENST00000339994|KCNJ11 nc|ENSG00000187486|Q14654-2|KCNJ11 nc|ENSG00000187486|Q14654-2|KCNJ11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.74371337890625 2 507.741222 1013.46789 NaN NaN NaN NaN NaN NaN NaN 36.964 1 37.222 36.722 37.722 0.25768 0 0 0 0.82924 1 16836 16836 16.942 2.3606 1 3226 5615 2307 2311 3519 3519 -0.03830342053254299 DLHHQKRL 8 Unmodified _DLHHQKRL_ 0 0 0 REV__nc|ENSG00000176406|Q9UQ26-4|RIMS2 REV__nc|ENSG00000176406|Q9UQ26-4|RIMS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 349.53485107421875 3 349.533313 1045.57811 2.292 0.00080112 3.2026 0.0011194 5.4946 0.0019205 349.5346349906404 14.255 0.06612 14.562 14.527 14.593 0.3069 6 3 2 0 0 0 0.45037 1 6457 6457 19.257 5.6421 1 1599100 + 3227 13703 2308 2312 3520 3520 0.05714503005788174 DLHSHHEL 8 Unmodified _DLHSHHEL_ 0 0 0 nc|ENSG00000166949|P84022-2|SMAD3;ENSG00000166949|ENST00000327367|SMAD3;ENST00000587353.5_1_18:45394679-45413284:-|nuORF;nc|ENSG00000175387|Q15796-2|SMAD2;ENSG00000175387|ENST00000262160|SMAD2 nc|ENSG00000166949|P84022-2|SMAD3 nc|ENSG00000166949|P84022-2|SMAD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 329.8267517089844 3 329.826274 986.456993 1.5939 0.00052572 0.20964 6.9145E-05 1.8036 0.00059486 329.8262702254028 12.371 0.043784 12.678 12.661 12.705 0.30727 6 3 2 0 0 0 0.18676 1 5571 5571 36.127 8.4982 1 3104000 3228 4521 2309 2313 3521 3521 -0.036777444275230664 DLHSHHEL 8 Unmodified _DLHSHHEL_ 0 0 0 nc|ENSG00000166949|P84022-2|SMAD3;ENSG00000166949|ENST00000327367|SMAD3;ENST00000587353.5_1_18:45394679-45413284:-|nuORF;nc|ENSG00000175387|Q15796-2|SMAD2;ENSG00000175387|ENST00000262160|SMAD2 nc|ENSG00000166949|P84022-2|SMAD3 nc|ENSG00000166949|P84022-2|SMAD3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 329.826274 986.456993 2.6307 0.00086767 0.33806 0.0001115 2.9688 0.00097917 329.82631874444377 12.364 0.03614 13.002 12.978 13.014 0.63746 0.16189 8.2899E-05 NaN 36.127 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 2293500 3229 4521 2309 2313 -0.036777444275230664 DLHVKPLL 8 Unmodified _DLHVKPLL_ 0 0 0 ENSG00000138792|ENST00000265162|ENPEP;ENPEP|p.K229Tfs*4|1|0.32|ENSG00000138792|chr4:110488582-110488589|AATCTTTT/-|frameshift_variant ENSG00000138792|ENST00000265162|ENPEP ENSG00000138792|ENST00000265162|ENPEP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 468.2924499511719 2 467.789653 933.564752 2.9673 0.0013881 0.28884 0.00013512 3.2561 0.0015232 467.7897246414548 50.735 0.23758 50.735 50.642 50.879 0 21 13 2 0 0 0 0.090253 2 23225 23225;23285 54.774 22.368 1 641440 3230 3119 2310 2314 3522;3523 3522 0.09531252173849225 DLHVKPLL 8 Unmodified _DLHVKPLL_ 0 0 0 ENSG00000138792|ENST00000265162|ENPEP;ENPEP|p.K229Tfs*4|1|0.32|ENSG00000138792|chr4:110488582-110488589|AATCTTTT/-|frameshift_variant ENSG00000138792|ENST00000265162|ENPEP ENSG00000138792|ENST00000265162|ENPEP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 467.7895812988281 2 467.789653 933.564752 2.8684 0.0013418 0.3359 0.00015713 3.2043 0.001499 467.789498382215 49.894 0.29258 50.717 50.565 50.858 0.82285 19 12 2 0 0 0 0.090253 1 22747 22747 54.774 26.287 1 308100 3231 3119 2310 2314 3524 3524 0.09531252173849225 DLHVKPLL 8 Unmodified _DLHVKPLL_ 0 0 0 ENSG00000138792|ENST00000265162|ENPEP;ENPEP|p.K229Tfs*4|1|0.32|ENSG00000138792|chr4:110488582-110488589|AATCTTTT/-|frameshift_variant ENSG00000138792|ENST00000265162|ENPEP ENSG00000138792|ENST00000265162|ENPEP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 467.7908630371094 2 467.789653 933.564752 2.7079 0.0012667 0.29658 0.00013874 3.0045 0.0014055 467.78977377982415 50.446 0.49363 50.707 50.497 50.991 0.26146 42 22 2 0 0 0 0.036198 3 23064 23016;23064;23121 71.922 37.82 1 2673700 3232 3119 2310 2314 3525;3526;3527 3526 0.09531252173849225 DLHVKPLL 8 Unmodified _DLHVKPLL_ 0 0 0 ENSG00000138792|ENST00000265162|ENPEP;ENPEP|p.K229Tfs*4|1|0.32|ENSG00000138792|chr4:110488582-110488589|AATCTTTT/-|frameshift_variant ENSG00000138792|ENST00000265162|ENPEP ENSG00000138792|ENST00000265162|ENPEP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.7911071777344 2 467.789653 933.564752 2.8807 0.0013476 0.16565 7.7489E-05 3.0464 0.0014251 467.78972097279524 49.778 0.44617 50.435 50.222 50.668 0.65735 38 17 3 0 0 0 0.025972 3 22785 22740;22785;22842 81.89 41.933 1 1735700 3233 3119 2310 2314 3528;3529;3530 3529 0.09531252173849225 DLIHTLLEPNF 11 Unmodified _DLIHTLLEPNF_ 0 0 0 REV__ENST00000591857.5_1_17:73953534-73975166:-|nuORF REV__ENST00000591857.5_1_17:73953534-73975166:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 656.3525390625 2 656.350803 1310.68705 NaN NaN NaN NaN NaN NaN NaN 66.096 1 66.096 65.596 66.596 0 0 0 0 1.0038 1 31549 31549 5.7319 1.7875 1 + 3234 12912 2311 2315 3531 3531 0.04413624394760518 DLIIKGISV 9 Unmodified _DLIIKGISV_ 0 0 0 ENSG00000120948|ENST00000240185|TARDBP;nc|ENSG00000120948|Q13148-4|TARDBP ENSG00000120948|ENST00000240185|TARDBP ENSG00000120948|ENST00000240185|TARDBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.3041076660156 2 479.302593 956.590633 2.8466 0.0013644 0.24677 0.00011828 3.0934 0.0014827 479.3025840995707 70.769 0.30353 71.025 70.869 71.172 0.25641 46 18 3 0 0 0 0.0090098 2 32425 32377;32425 83.429 16.972 1 3468100 3235 2220 2312 2316 3532;3533 3533 0.11060101625480456 DLIIKGISV 9 Unmodified _DLIIKGISV_ 0 0 0 ENSG00000120948|ENST00000240185|TARDBP;nc|ENSG00000120948|Q13148-4|TARDBP ENSG00000120948|ENST00000240185|TARDBP ENSG00000120948|ENST00000240185|TARDBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.303955078125 2 479.302593 956.590633 2.6981 0.0012932 -0.029127 -1.3961E-05 2.669 0.0012793 479.3024749499387 70.228 0.30717 70.89 70.736 71.043 0.66155 48 18 3 0 0 0 0.017449 2 32222 32174;32222 71.708 16.205 1 4260800 3236 2220 2312 2316 3534;3535 3535 0.11060101625480456 DLIIKGISV 9 Unmodified _DLIIKGISV_ 0 0 0 ENSG00000120948|ENST00000240185|TARDBP;nc|ENSG00000120948|Q13148-4|TARDBP ENSG00000120948|ENST00000240185|TARDBP ENSG00000120948|ENST00000240185|TARDBP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 479.302593 956.590633 2.4333 0.0011663 0.18402 8.8199E-05 2.6174 0.0012545 479.30280672880735 70.996 0.20507 70.996 70.893 71.098 0 0.025558 6.1747E-05 NaN 83.429 32 20 2 NaN NaN NaN NaN 0 NaN NaN 0 1251800 3237 2220 2312 2316 0.11060101625480456 DLIIPREK 8 Unmodified _DLIIPREK_ 0 0 0 REV__ENSG00000135114|ENST00000257570|OASL REV__ENSG00000135114|ENST00000257570|OASL MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.698486328125 3 328.53432 982.581131 2.3087 0.00075849 1.275 0.00041887 3.5837 0.0011774 328.5344862299659 39.461 0.34777 40.261 40.021 40.369 0.80014 26 16 2 0 0 0 0.13877 1 17796 17796 8.1555 1.9637 1 182450 + 3238 11999 2313 2317 3536 3536 0.08914333339942004 DLIIPREK 8 Unmodified _DLIIPREK_ 0 0 0 REV__ENSG00000135114|ENST00000257570|OASL REV__ENSG00000135114|ENST00000257570|OASL MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.6983337402344 3 328.53432 982.581131 2.4849 0.00081638 0.11208 3.6821E-05 2.597 0.0008532 328.53437281209403 40.026 0.58641 40.293 39.962 40.549 0.26696 28 22 2 0 0 0 0.13877 1 18121 18121 8.1555 1.5252 1 866540 + 3239 11999 2313 2317 3537 3537 0.08914333339942004 DLIKHQKKL 9 Unmodified _DLIKHQKKL_ 0 0 0 ENSG00000140836|ENST00000268489|ZFHX3;nc|ENSG00000140836|Q15911-2|ZFHX3;ZFHX3|p.V2783Afs*6|1|0.37|ENSG00000140836|chr16:72794330-72794334|GGGGA/-|frameshift_variant ENSG00000140836|ENST00000268489|ZFHX3 ENSG00000140836|ENST00000268489|ZFHX3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.8527221679688 2 561.853316 1121.69208 NaN NaN NaN NaN NaN NaN NaN 81.262 1 81.51 81.01 82.01 0.24803 0 0 0 0.89509 1 37415 37415 4.756 0 1 3240 3220 2314 2318 3538 3538 0.13609973048028223 DLIKKSLL 8 Unmodified _DLIKKSLL_ 0 0 0 ENSG00000174405|ENST00000442234|LIG4 ENSG00000174405|ENST00000442234|LIG4 ENSG00000174405|ENST00000442234|LIG4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.30645751953125 2 465.305136 928.595718 NaN NaN NaN NaN NaN NaN NaN 45.628 1 45.896 45.396 46.396 0.26768 0 0 0 0.12742 1 20859 20859 63.961 3.8866 1 3241 4974 2315 2319 3539 3539 0.1285640548809397 DLIKKSLL 8 Unmodified _DLIKKSLL_ 0 0 0 ENSG00000174405|ENST00000442234|LIG4 ENSG00000174405|ENST00000442234|LIG4 ENSG00000174405|ENST00000442234|LIG4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.306396484375 2 465.305136 928.595718 2.9933 0.0013928 -0.27486 -0.00012789 2.7184 0.0012649 465.3049448581452 44.939 0.20223 45.589 45.458 45.66 0.64998 10 7 2 0 0 0 0.03226 1 20609 20609 75.761 3.8386 1 632880 3242 4974 2315 2319 3540 3540 0.1285640548809397 DLILKQHT 8 Unmodified _DLILKQHT_ 0 0 0 ENST00000246024.6_1_20:7959389-7959524:-|nuORF ENST00000246024.6_1_20:7959389-7959524:-|nuORF ENST00000246024.6_1_20:7959389-7959524:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.1915588378906 3 323.190553 966.549831 2.4675 0.00079748 0.25858 8.3572E-05 2.7261 0.00088105 323.1906371695465 33.093 0.30273 33.347 33.174 33.476 0.25389 33 12 3 0 0 0 0.29255 1 15056 15056 29.082 0 1 1341500 3243 6487 2316 2320 3541 3541 0.06521760305861335 DLIRHFLI 8 Unmodified _DLIRHFLI_ 0 0 0 ENSG00000131746|ENST00000254051|TNS4 ENSG00000131746|ENST00000254051|TNS4 ENSG00000131746|ENST00000254051|TNS4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.3049926757812 2 513.808377 1025.6022 3.6129 0.0018564 -0.14756 -7.5817E-05 3.4654 0.0017805 513.8080591667076 45.089 0.34486 45.739 45.592 45.937 0.64998 20 11 2 0 0 0 0.64692 1 20658 20658 10.183 0.83596 1 1736000 3244 2670 2317 2321 3542 3542 0.09042343439477918 DLIRHFLI 8 Unmodified _DLIRHFLI_ 0 0 0 ENSG00000131746|ENST00000254051|TNS4 ENSG00000131746|ENST00000254051|TNS4 ENSG00000131746|ENST00000254051|TNS4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 513.808377 1025.6022 3.0865 0.0015859 1.8647 0.00095808 4.9512 0.002544 513.809343693567 45.764 0.37134 45.764 45.595 45.967 0 0.09262 0.00082911 NaN 10.183 30 17 2 NaN NaN NaN NaN 0 NaN NaN 0 982440 3245 2670 2317 2321 0.09042343439477918 DLIRHFLI 8 Unmodified _DLIRHFLI_ 0 0 0 ENSG00000131746|ENST00000254051|TNS4 ENSG00000131746|ENST00000254051|TNS4 ENSG00000131746|ENST00000254051|TNS4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 513.808377 1025.6022 3.1768 0.0016323 0.81735 0.00041996 3.9941 0.0020522 513.8085277243906 44.651 0.34473 45.472 45.385 45.729 0.82075 -0.19918 -0.00024712 NaN 10.183 19 17 2 NaN NaN NaN NaN 0 NaN NaN 0 423650 3246 2670 2317 2321 0.09042343439477918 DLIRHFLI 8 Unmodified _DLIRHFLI_ 0 0 0 ENSG00000131746|ENST00000254051|TNS4 ENSG00000131746|ENST00000254051|TNS4 ENSG00000131746|ENST00000254051|TNS4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 513.808377 1025.6022 3.31 0.0017007 1.0476 0.00053826 4.3576 0.002239 513.808889446881 45.442 0.24113 45.71 45.562 45.803 0.26768 0.038764 -1.0527E-05 NaN 10.183 18 7 3 NaN NaN NaN NaN 0 NaN NaN 0 1709500 3247 2670 2317 2321 0.09042343439477918 DLISRDYSL 9 Unmodified _DLISRDYSL_ 0 0 0 nc|ENSG00000155229|Q96T76-5|MMS19;ENSG00000155229|ENST00000438925|MMS19;nc|ENSG00000155229|Q96T76-8|MMS19;nc|ENSG00000155229|Q96T76-7|MMS19 nc|ENSG00000155229|Q96T76-5|MMS19 nc|ENSG00000155229|Q96T76-5|MMS19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.2817993164062 2 541.279846 1080.54514 3.2406 0.0017541 1.5233 0.00082451 4.7639 0.0025786 541.2799977217284 57.656 0.26965 57.921 57.799 58.069 0.26444 34 15 3 0 0 0 0.049036 1 26422 26422 47.594 15.289 1 549110 3248 3854 2318 2322 3543 3543 0.008088313724329055 DLISRDYSL 9 Unmodified _DLISRDYSL_ 0 0 0 nc|ENSG00000155229|Q96T76-5|MMS19;ENSG00000155229|ENST00000438925|MMS19;nc|ENSG00000155229|Q96T76-8|MMS19;nc|ENSG00000155229|Q96T76-7|MMS19 nc|ENSG00000155229|Q96T76-5|MMS19 nc|ENSG00000155229|Q96T76-5|MMS19 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 541.279846 1080.54514 3.4629 0.0018744 1.9363 0.0010481 5.3991 0.0029224 541.7828081480493 57.098 0.24906 57.766 57.638 57.887 0.66829 -0.077244 0.00027299 NaN 47.594 19 11 3 NaN NaN NaN NaN 0 NaN NaN 0 1117400 3249 3854 2318 2322 0.008088313724329055 DLITRQKQL 9 Unmodified _DLITRQKQL_ 0 0 0 ENST00000560710.1_1_15:79184565-79186592:+|nuORF;nc|ENSG00000185787|Q9UBU8-3|MORF4L1;ENSG00000185787|ENST00000426013|MORF4L1;nc|ENSG00000185787|Q9UBU8|MORF4L1;MORF4L1|p.R243Pfs*6|1|0.07|ENSG00000185787|chr15:78893607-78893608|-/C|frameshift_variant;ENST00000447135.2_1_4:174537089-174537971:-|nuORF ENST00000560710.1_1_15:79184565-79186592:+|nuORF ENST00000560710.1_1_15:79184565-79186592:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.8335571289062 2 557.83258 1113.65061 3.5261 0.001967 -0.083784 -4.6738E-05 3.4424 0.0019203 557.8324989923436 28.718 0.22461 28.978 28.843 29.068 0.2602 39 21 2 0 0 0 0.00045036 2 13065 13021;13065 132.38 3.8697 1 2150400 3250 5531 2319 2323 3544;3545 3545 0.09832792288693781 DLITRQKQL 9 Unmodified _DLITRQKQL_ 0 0 0 ENST00000560710.1_1_15:79184565-79186592:+|nuORF;nc|ENSG00000185787|Q9UBU8-3|MORF4L1;ENSG00000185787|ENST00000426013|MORF4L1;nc|ENSG00000185787|Q9UBU8|MORF4L1;MORF4L1|p.R243Pfs*6|1|0.07|ENSG00000185787|chr15:78893607-78893608|-/C|frameshift_variant;ENST00000447135.2_1_4:174537089-174537971:-|nuORF ENST00000560710.1_1_15:79184565-79186592:+|nuORF ENST00000560710.1_1_15:79184565-79186592:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.8342895507812 2 557.83258 1113.65061 3.471 0.0019362 0.080467 4.4887E-05 3.5515 0.0019811 557.8325437784814 28.308 0.33984 28.927 28.777 29.117 0.61947 61 23 3 0 0 0 0.0013832 2 12993 12948;12993 114.19 3.8295 1 1236400 3251 5531 2319 2323 3546;3547 3547 0.09832792288693781 DLITRQKQL 9 Unmodified _DLITRQKQL_ 0 0 0 ENST00000560710.1_1_15:79184565-79186592:+|nuORF;nc|ENSG00000185787|Q9UBU8-3|MORF4L1;ENSG00000185787|ENST00000426013|MORF4L1;nc|ENSG00000185787|Q9UBU8|MORF4L1;MORF4L1|p.R243Pfs*6|1|0.07|ENSG00000185787|chr15:78893607-78893608|-/C|frameshift_variant;ENST00000447135.2_1_4:174537089-174537971:-|nuORF ENST00000560710.1_1_15:79184565-79186592:+|nuORF ENST00000560710.1_1_15:79184565-79186592:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 557.83258 1113.65061 3.7806 0.002109 0.05942 3.3147E-05 3.8401 0.0021421 557.8326457469354 28.871 0.20694 28.871 28.764 28.971 0 -0.03897 4.4583E-06 NaN 132.38 25 18 2 NaN NaN NaN NaN 0 NaN NaN 0 323510 3252 5531 2319 2323 0.09832792288693781 DLITRQKQL 9 Unmodified _DLITRQKQL_ 0 0 0 ENST00000560710.1_1_15:79184565-79186592:+|nuORF;nc|ENSG00000185787|Q9UBU8-3|MORF4L1;ENSG00000185787|ENST00000426013|MORF4L1;nc|ENSG00000185787|Q9UBU8|MORF4L1;MORF4L1|p.R243Pfs*6|1|0.07|ENSG00000185787|chr15:78893607-78893608|-/C|frameshift_variant;ENST00000447135.2_1_4:174537089-174537971:-|nuORF ENST00000560710.1_1_15:79184565-79186592:+|nuORF ENST00000560710.1_1_15:79184565-79186592:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 557.83258 1113.65061 3.3944 0.0018935 0.30535 0.00017034 3.6997 0.0020638 557.8328612937929 28.077 0.17401 28.863 28.703 28.877 0.78627 -0.047117 0.00027884 NaN 132.38 19 13 2 NaN NaN NaN NaN 0 NaN NaN 0 395540 3253 5531 2319 2323 0.09832792288693781 DLKAARQL 8 Unmodified _DLKAARQL_ 0 0 0 ENSG00000103351|ENST00000576634|CLUAP1 ENSG00000103351|ENST00000576634|CLUAP1 ENSG00000103351|ENST00000576634|CLUAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.7759094238281 2 457.774534 913.534515 3.0496 0.001396 0.18191 8.3273E-05 3.2315 0.0014793 457.7746957413142 20.864 0.24289 21.518 21.377 21.62 0.65346 39 16 3 0 0 0 0.23923 1 9488 9488 39.957 7.6518 1 388370 3254 1392 2320 2324 3548 3548 0.07428893508654255 DLKAARQL 8 Unmodified _DLKAARQL_ 0 0 0 ENSG00000103351|ENST00000576634|CLUAP1 ENSG00000103351|ENST00000576634|CLUAP1 ENSG00000103351|ENST00000576634|CLUAP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 457.774534 913.534515 2.8888 0.0013224 0.45084 0.00020638 3.3397 0.0015288 457.7748878704105 21.86 0.18306 21.86 21.771 21.954 0 0.17099 0.00019496 NaN 39.957 24 16 2 NaN NaN NaN NaN 0 NaN NaN 0 98240 3255 1392 2320 2324 0.07428893508654255 DLKAASKL 8 Unmodified _DLKAASKL_ 0 0 0 ENSG00000102580|ENST00000602402|DNAJC3 ENSG00000102580|ENST00000602402|DNAJC3 ENSG00000102580|ENST00000602402|DNAJC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 423.2592468261719 2 423.258185 844.501818 NaN NaN NaN NaN NaN NaN NaN 21.545 1 22.192 21.692 22.692 0.64714 0 0 0 0.003053 1 9782 9782 110.55 17.899 1 3256 1348 2321 2325 3549 3549 0.07334686385797795 DLKAFVPAI 9 Unmodified _DLKAFVPAI_ 0 0 0 ENSG00000151461|ENST00000357604|UPF2 ENSG00000151461|ENST00000357604|UPF2 ENSG00000151461|ENST00000357604|UPF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2901916503906 2 487.289485 972.564418 NaN NaN NaN NaN NaN NaN NaN 28.48 1 28.74 28.24 29.24 0.2602 0 0 0 0.45908 1 12954 12954 20.454 0 1 3257 3709 2322 2326 3550 3550 0.07703832454001258 DLKATQAL 8 Unmodified _DLKATQAL_ 0 0 0 ENSG00000161960|ENST00000293831|EIF4A1;ENST00000578324.5_1_17:7477602-7481249:+|nuORF;nc|ENSG00000161960|P60842-2|EIF4A1;ENST00000581621.1_1_17:7476159-7481249:+|nuORF;ENST00000584901.5_1_17:7476159-7480015:+|nuORF;ENST00000584712.5_1_17:7476159-7478717:+|nuORF;ENST00000582848.5_1_17:7476159-7480015:+|nuORF;ENST00000550578.1_1_12:53547103-53547616:+|nuORF;ENST00000580461.5_1_17:7476163-7478717:+|nuORF;ENST00000428062.1_1_13:37513331-37513424:-|nuORF;ENST00000578754.5_2_17:7476163-7480421:+|nuORF ENSG00000161960|ENST00000293831|EIF4A1 ENSG00000161960|ENST00000293831|EIF4A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.25091552734375 2 430.247818 858.481082 2.9205 0.0012565 2.7716 0.0011925 5.6921 0.002449 430.2499596781028 33.755 0.34215 34.376 34.195 34.537 0.62031 29 16 2 0 0 0 0.0086598 2 15497 15453;15497 115.69 15.321 1 1554200 3258 4112 2323 2327 3551;3552 3552 0.04618096006140604 DLKDKYKNI 9 Unmodified _DLKDKYKNI_ 0 0 0 nc|ENSG00000144381|P10809-2|HSPD1;ENST00000461097.1_1_2:198361816-198363572:-|nuORF;ENST00000447985.1_1_21:30260983-30261475:-|nuORF;ENST00000503199.1_1_5:21882861-21883359:+|nuORF;ENST00000476746.5_1_2:198360008-198364584:-|nuORF;ENSG00000144381|ENST00000388968|HSPD1 nc|ENSG00000144381|P10809-2|HSPD1 nc|ENSG00000144381|P10809-2|HSPD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.5491943359375 3 379.548518 1135.62372 NaN NaN NaN NaN NaN NaN NaN 16.608 1 17.266 16.766 17.766 0.65798 0 0 0 0.90228 1 7486 7486 2.9952 0.90923 1 3259 3422 2324 2328 3553 3553 0.06133683677512636 DLKEHASSL 9 Unmodified _DLKEHASSL_ 0 0 0 ENST00000536573.6_1_12:1213918-1353789:+|nuORF;nc|ENSG00000082805|Q8IUD2-5|ERC1;nc|ENSG00000082805|Q8IUD2-4|ERC1;nc|ENSG00000082805|Q8IUD2-2|ERC1;nc|ENSG00000082805|Q8IUD2-3|ERC1;ENSG00000082805|ENST00000360905|ERC1;ENSG00000187672|ENST00000288221|ERC2 ENST00000536573.6_1_12:1213918-1353789:+|nuORF ENST00000536573.6_1_12:1213918-1353789:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.2626037597656 2 500.258914 998.503274 3.4131 0.0017074 1.1137 0.00055715 4.5268 0.0022646 500.25999666029094 19.831 0.23556 20.489 20.36 20.595 0.6583 38 17 4 0 0 0 0.020338 2 8987 8987;9034 67.838 29.663 1 336210 3260 933 2325 2329 3554;3555 3554 0.003962756839086978 DLKEKKEVV 9 Unmodified _DLKEKKEVV_ 0 0 0 ENST00000607242.1_1_13:82264202-82264532:+|nuORF;ENSG00000187514|ENST00000409115|PTMA;nc|ENSG00000187514|P06454|PTMA;ENST00000468027.5_1_2:232573416-232577283:+|nuORF;ENST00000466801.5_1_2:232571605-232577558:+|nuORF ENST00000607242.1_1_13:82264202-82264532:+|nuORF ENST00000607242.1_1_13:82264202-82264532:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.2173767089844 3 363.216768 1086.62847 1.848 0.00067121 0.048614 1.7657E-05 1.8966 0.00068887 363.21679656605255 12.433 0.065393 12.74 12.705 12.77 0.30727 9 3 3 0 0 0 0.0041939 1 5603 5603 93.448 50.613 1 37649000 3261 5618 2326 2330 3556 3556 0.08862567820278855 DLKEKKEVV 9 Unmodified _DLKEKKEVV_ 0 0 0 ENST00000607242.1_1_13:82264202-82264532:+|nuORF;ENSG00000187514|ENST00000409115|PTMA;nc|ENSG00000187514|P06454|PTMA;ENST00000468027.5_1_2:232573416-232577283:+|nuORF;ENST00000466801.5_1_2:232571605-232577558:+|nuORF ENST00000607242.1_1_13:82264202-82264532:+|nuORF ENST00000607242.1_1_13:82264202-82264532:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.2177734375 3 363.216768 1086.62847 2.923 0.0010617 0.083937 3.0487E-05 3.0069 0.0010922 363.2167876230125 12.411 0.047505 13.054 13.02 13.067 0.64272 6 2 3 0 0 0 0.0021572 1 5562 5562 102.55 56.526 1 36459000 3262 5618 2326 2330 3557 3557 0.08862567820278855 DLKEKKEVV 9 Unmodified _DLKEKKEVV_ 0 0 0 ENST00000607242.1_1_13:82264202-82264532:+|nuORF;ENSG00000187514|ENST00000409115|PTMA;nc|ENSG00000187514|P06454|PTMA;ENST00000468027.5_1_2:232573416-232577283:+|nuORF;ENST00000466801.5_1_2:232571605-232577558:+|nuORF ENST00000607242.1_1_13:82264202-82264532:+|nuORF ENST00000607242.1_1_13:82264202-82264532:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 363.216768 1086.62847 1.8826 0.00068378 0.63534 0.00023076 2.5179 0.00091454 363.21710210927057 12.451 0.062756 12.713 12.674 12.737 0.26154 -0.12283 0.00055733 NaN 102.55 10 4 3 NaN NaN NaN NaN 0 NaN NaN 0 13468000 3263 5618 2326 2330 0.08862567820278855 DLKEKVSL 8 Unmodified _DLKEKVSL_ 0 0 0 ENST00000536573.6_1_12:1213918-1353789:+|nuORF;nc|ENSG00000082805|Q8IUD2-5|ERC1;nc|ENSG00000082805|Q8IUD2-4|ERC1;nc|ENSG00000082805|Q8IUD2-2|ERC1;nc|ENSG00000082805|Q8IUD2-3|ERC1;ENSG00000082805|ENST00000360905|ERC1 ENST00000536573.6_1_12:1213918-1353789:+|nuORF ENST00000536573.6_1_12:1213918-1353789:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.2790222167969 2 466.276575 930.538597 2.8626 0.0013347 0.48187 0.00022468 3.3444 0.0015594 466.2768325095589 33.107 0.24466 33.361 33.232 33.476 0.25389 18 10 2 0 0 0 0.031168 1 15061 15061 76.825 12.864 1 431230 3264 933 2327 2331 3558 3558 0.07054938211717854 DLKEKVSL 8 Unmodified _DLKEKVSL_ 0 0 0 ENST00000536573.6_1_12:1213918-1353789:+|nuORF;nc|ENSG00000082805|Q8IUD2-5|ERC1;nc|ENSG00000082805|Q8IUD2-4|ERC1;nc|ENSG00000082805|Q8IUD2-2|ERC1;nc|ENSG00000082805|Q8IUD2-3|ERC1;ENSG00000082805|ENST00000360905|ERC1 ENST00000536573.6_1_12:1213918-1353789:+|nuORF ENST00000536573.6_1_12:1213918-1353789:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.278076171875 2 466.276575 930.538597 2.7516 0.001283 0.88945 0.00041473 3.6411 0.0016977 466.27707191839926 32.612 0.28278 33.23 33.069 33.352 0.61831 28 12 3 0 0 0 0.021215 1 14945 14945 86.332 13.364 1 470660 3265 933 2327 2331 3559 3559 0.07054938211717854 DLKEKVSL 8 Unmodified _DLKEKVSL_ 0 0 0 ENST00000536573.6_1_12:1213918-1353789:+|nuORF;nc|ENSG00000082805|Q8IUD2-5|ERC1;nc|ENSG00000082805|Q8IUD2-4|ERC1;nc|ENSG00000082805|Q8IUD2-2|ERC1;nc|ENSG00000082805|Q8IUD2-3|ERC1;ENSG00000082805|ENST00000360905|ERC1 ENST00000536573.6_1_12:1213918-1353789:+|nuORF ENST00000536573.6_1_12:1213918-1353789:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 466.276575 930.538597 2.5881 0.0012068 0.25848 0.00012052 2.8466 0.0013273 466.27683057956466 32.359 0.16171 33.147 33.024 33.186 0.78795 -0.099096 -0.00041369 NaN 86.332 12 12 2 NaN NaN NaN NaN 0 NaN NaN 0 189920 3266 933 2327 2331 0.07054938211717854 DLKEKVSLL 9 Unmodified _DLKEKVSLL_ 0 0 0 ENST00000536573.6_1_12:1213918-1353789:+|nuORF;nc|ENSG00000082805|Q8IUD2-5|ERC1;nc|ENSG00000082805|Q8IUD2-4|ERC1;nc|ENSG00000082805|Q8IUD2-2|ERC1;nc|ENSG00000082805|Q8IUD2-3|ERC1;ENSG00000082805|ENST00000360905|ERC1 ENST00000536573.6_1_12:1213918-1353789:+|nuORF ENST00000536573.6_1_12:1213918-1353789:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.8196411132812 2 522.818607 1043.62266 3.4095 0.0017826 -0.3279 -0.00017143 3.0816 0.0016111 522.818336840592 47.962 0.2225 48.615 48.482 48.704 0.65356 12 8 2 0 0 0 0.018018 1 21955 21955 70.929 15.426 1 376910 3267 933 2328 2332 3560 3560 0.10259469308630287 DLKEKVSLL 9 Unmodified _DLKEKVSLL_ 0 0 0 ENST00000536573.6_1_12:1213918-1353789:+|nuORF;nc|ENSG00000082805|Q8IUD2-5|ERC1;nc|ENSG00000082805|Q8IUD2-4|ERC1;nc|ENSG00000082805|Q8IUD2-2|ERC1;nc|ENSG00000082805|Q8IUD2-3|ERC1;ENSG00000082805|ENST00000360905|ERC1 ENST00000536573.6_1_12:1213918-1353789:+|nuORF ENST00000536573.6_1_12:1213918-1353789:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 522.818607 1043.62266 3.5181 0.0018393 -0.6343 -0.00033162 2.8838 0.0015077 522.8185411164624 48.568 0.15765 48.83 48.745 48.902 0.26209 0.10716 -0.00019096 NaN 70.929 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 503560 3268 933 2328 2332 0.10259469308630287 DLKERTVL 8 Unmodified _DLKERTVL_ 0 0 0 nc|ENSG00000141027|O75376-2|NCOR1;ENSG00000141027|ENST00000268712|NCOR1 nc|ENSG00000141027|O75376-2|NCOR1 nc|ENSG00000141027|O75376-2|NCOR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.288818359375 2 487.287474 972.560395 3.1349 0.0015276 -0.24933 -0.0001215 2.8856 0.0014061 487.28735388098113 28.047 0.24078 28.666 28.565 28.806 0.61947 23 14 2 0 0 0 0.47805 1 12844 12844 22.736 3.4793 1 202570 3269 3231 2329 2333 3561 3561 0.0730174296027144 DLKHAHEL 8 Unmodified _DLKHAHEL_ 0 0 0 nc|ENSG00000114098|Q8IUR7-6|ARMC8;ENST00000486832.1_1_3:137958292-137964088:+|nuORF;nc|ENSG00000114098|Q8IUR7-8|ARMC8;nc|ENSG00000114098|Q8IUR7-3|ARMC8;nc|ENSG00000114098|Q8IUR7-7|ARMC8;nc|ENSG00000114098|Q8IUR7-2|ARMC8;ENSG00000114098|ENST00000469044|ARMC8;ENST00000460495.5_1_3:137956301-138014731:+|nuORF nc|ENSG00000114098|Q8IUR7-6|ARMC8 nc|ENSG00000114098|Q8IUR7-6|ARMC8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 321.5076599121094 3 321.506653 961.498129 2.2495 0.00072324 0.35306 0.00011351 2.6026 0.00083675 321.5068376495617 12.911 0.15975 12.911 12.806 12.965 0 10 6 2 0 0 0 0.23923 1 5639 5639 32.786 16.22 1 1051100 3270 9600 2330 2334 3562 3562 0.015840166119460264 DLKHAHEL 8 Unmodified _DLKHAHEL_ 0 0 0 nc|ENSG00000114098|Q8IUR7-6|ARMC8;ENST00000486832.1_1_3:137958292-137964088:+|nuORF;nc|ENSG00000114098|Q8IUR7-8|ARMC8;nc|ENSG00000114098|Q8IUR7-3|ARMC8;nc|ENSG00000114098|Q8IUR7-7|ARMC8;nc|ENSG00000114098|Q8IUR7-2|ARMC8;ENSG00000114098|ENST00000469044|ARMC8;ENST00000460495.5_1_3:137956301-138014731:+|nuORF nc|ENSG00000114098|Q8IUR7-6|ARMC8 nc|ENSG00000114098|Q8IUR7-6|ARMC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 321.50689697265625 3 321.506653 961.498129 NaN NaN NaN NaN NaN NaN NaN 12.646 1 12.908 12.408 13.408 0.26154 0 0 0 0.12463 1 5494 5494 47.749 26.159 1 3271 9600 2330 2334 3563 3563 0.015840166119460264 DLKHAHEL 8 Unmodified _DLKHAHEL_ 0 0 0 nc|ENSG00000114098|Q8IUR7-6|ARMC8;ENST00000486832.1_1_3:137958292-137964088:+|nuORF;nc|ENSG00000114098|Q8IUR7-8|ARMC8;nc|ENSG00000114098|Q8IUR7-3|ARMC8;nc|ENSG00000114098|Q8IUR7-7|ARMC8;nc|ENSG00000114098|Q8IUR7-2|ARMC8;ENSG00000114098|ENST00000469044|ARMC8;ENST00000460495.5_1_3:137956301-138014731:+|nuORF nc|ENSG00000114098|Q8IUR7-6|ARMC8 nc|ENSG00000114098|Q8IUR7-6|ARMC8 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 321.506653 961.498129 1.6133 0.00051868 1.0726 0.00034485 2.6859 0.00086353 321.5068633957717 12.612 0.087564 12.919 12.882 12.969 0.30727 0.0043259 0.00037736 NaN 32.786 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 1290500 3272 9600 2330 2334 0.015840166119460264 DLKHDFQAL 9 Unmodified _DLKHDFQAL_ 0 0 0 ENSG00000172183|ENST00000306072|ISG20;ENST00000558942.5_1_15:89195091-89198759:+|nuORF ENSG00000172183|ENST00000306072|ISG20 ENSG00000172183|ENST00000306072|ISG20 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.7847900390625 2 543.782556 1085.55056 NaN NaN NaN NaN NaN NaN NaN 50.887 1 51.149 50.649 51.649 0.26146 0 0 0 0.34849 1 23257 23257 24.991 8.8419 1 3273 4861 2331 2335 3564 3564 0.01120554954900399 DLKHDFQAL 9 Unmodified _DLKHDFQAL_ 0 0 0 ENSG00000172183|ENST00000306072|ISG20;ENST00000558942.5_1_15:89195091-89198759:+|nuORF ENSG00000172183|ENST00000306072|ISG20 ENSG00000172183|ENST00000306072|ISG20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.7844848632812 2 543.782556 1085.55056 3.4039 0.001851 -0.017693 -9.6211E-06 3.3862 0.0018414 543.7823293123207 50.18 0.26974 50.837 50.729 50.999 0.65735 17 10 2 0 0 0 0.044468 1 22958 22958 49.554 15.153 1 354620 3274 4861 2331 2335 3565 3565 0.01120554954900399 DLKIKREKI 9 Unmodified _DLKIKREKI_ 0 0 0 nc|ENSG00000132294|Q14156-3|EFR3A;nc|ENSG00000132294|Q14156-2|EFR3A;ENSG00000132294|ENST00000254624|EFR3A nc|ENSG00000132294|Q14156-3|EFR3A nc|ENSG00000132294|Q14156-3|EFR3A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.98504638671875 3 381.580041 1141.71829 2.751 0.0010497 0.024017 9.1645E-06 2.775 0.0010589 381.58008801848894 14.861 0.39524 14.861 14.686 15.081 0 69 41 2 0 0 0 0.11402 1 6494 6494 0.96228 0.26461 1 174540 3275 2688 2332 2336 3566 3566 0.15310242219493375 DLKIKREKI 9 Unmodified _DLKIKREKI_ 0 0 0 nc|ENSG00000132294|Q14156-3|EFR3A;nc|ENSG00000132294|Q14156-2|EFR3A;ENSG00000132294|ENST00000254624|EFR3A nc|ENSG00000132294|Q14156-3|EFR3A nc|ENSG00000132294|Q14156-3|EFR3A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.5809020996094 3 381.580041 1141.71829 NaN NaN NaN NaN NaN NaN NaN 13.78 1 14.428 13.928 14.928 0.6482 0 0 0 0.57496 1 6193 6193 16.566 1.6087 1 3276 2688 2332 2336 3567 3567 0.15310242219493375 DLKIKREKI 9 Unmodified _DLKIKREKI_ 0 0 0 nc|ENSG00000132294|Q14156-3|EFR3A;nc|ENSG00000132294|Q14156-2|EFR3A;ENSG00000132294|ENST00000254624|EFR3A nc|ENSG00000132294|Q14156-3|EFR3A nc|ENSG00000132294|Q14156-3|EFR3A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 381.580041 1141.71829 2.4953 0.00095216 -0.34517 -0.00013171 2.1501 0.00082045 381.5798610586885 14.427 0.26062 14.653 14.51 14.77 0.22622 -0.0026769 -5.6506E-05 NaN 0.96228 32 20 2 NaN NaN NaN NaN 0 NaN NaN 0 172360 3277 2688 2332 2336 0.15310242219493375 DLKIKREKI 9 Unmodified _DLKIKREKI_ 0 0 0 nc|ENSG00000132294|Q14156-3|EFR3A;nc|ENSG00000132294|Q14156-2|EFR3A;ENSG00000132294|ENST00000254624|EFR3A nc|ENSG00000132294|Q14156-3|EFR3A nc|ENSG00000132294|Q14156-3|EFR3A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 381.580041 1141.71829 2.5769 0.0009833 -0.93334 -0.00035615 1.6436 0.00062715 381.57961456103226 14.147 0.051134 14.454 14.429 14.48 0.3069 -0.20233 -0.00072981 NaN 0.96228 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 2161700 3278 2688 2332 2336 0.15310242219493375 DLKIKRSKL 9 Unmodified _DLKIKRSKL_ 0 0 0 ENSG00000112249|ENST00000369162|ASCC3;nc|ENSG00000112249|Q8N3C0-3|ASCC3;ENST00000468245.2_1_6:101296020-101315873:-|nuORF;nc|ENSG00000112249|Q8N3C0-4|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 367.5777893066406 3 367.576519 1099.70773 2.883 0.0010597 0.17916 6.5855E-05 3.0621 0.0011256 367.57653443941535 12.685 0.13507 13.328 13.244 13.379 0.64272 7 3 3 0 0 0 0.1081 1 5716 5716 30.703 5.8219 1 2775900 3279 1798 2333 2337 3568 3568 0.16186259565097316 DLKKGTQL 8 Unmodified _DLKKGTQL_ 0 0 0 ENST00000559016.1_1_15:49426483-49429634:-|nuORF;ENSG00000166200|ENST00000388901|COPS2;nc|ENSG00000166200|P61201-2|COPS2 ENST00000559016.1_1_15:49426483-49429634:-|nuORF ENST00000559016.1_1_15:49426483-49429634:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.76971435546875 2 451.768917 901.523281 2.5808 0.0011659 -0.38153 -0.00017236 2.1993 0.00099358 451.768756163821 14.387 0.14693 14.694 14.632 14.779 0.3069 8 5 2 0 0 0 0.035125 1 6519 6519 72.968 7.7329 1 1140500 3280 4461 2334 2338 3569 3569 0.06858071414524147 DLKKGTQL 8 Unmodified _DLKKGTQL_ 0 0 0 ENST00000559016.1_1_15:49426483-49429634:-|nuORF;ENSG00000166200|ENST00000388901|COPS2;nc|ENSG00000166200|P61201-2|COPS2 ENST00000559016.1_1_15:49426483-49429634:-|nuORF ENST00000559016.1_1_15:49426483-49429634:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.7702331542969 2 451.768917 901.523281 3.1358 0.0014167 0.080856 3.6528E-05 3.2166 0.0014532 451.7689572961661 14.307 0.10856 14.955 14.911 15.02 0.64819 20 11 2 0 0 0 0.014354 1 6433 6433 92.653 17.724 1 1802400 3281 4461 2334 2338 3570 3570 0.06858071414524147 DLKKITNSL 9 Unmodified _DLKKITNSL_ 0 0 0 nc|ENSG00000104131|O75822-2|EIF3J;nc|ENSG00000104131|O75822-3|EIF3J;ENSG00000104131|ENST00000261868|EIF3J nc|ENSG00000104131|O75822-2|EIF3J nc|ENSG00000104131|O75822-2|EIF3J MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.3096923828125 2 516.308406 1030.60226 NaN NaN NaN NaN NaN NaN NaN 40.089 1 40.356 39.856 40.856 0.26696 0 0 0 0.023656 1 18239 18239 67.081 4.508 1 3282 1426 2335 2339 3571 3571 0.08818298648793643 DLKKITNSL 9 Unmodified _DLKKITNSL_ 0 0 0 nc|ENSG00000104131|O75822-2|EIF3J;nc|ENSG00000104131|O75822-3|EIF3J;ENSG00000104131|ENST00000261868|EIF3J nc|ENSG00000104131|O75822-2|EIF3J nc|ENSG00000104131|O75822-2|EIF3J MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.3095092773438 2 516.308406 1030.60226 3.6019 0.0018597 -0.50725 -0.0002619 3.0946 0.0015978 516.308011897257 39.607 0.18453 40.245 40.197 40.382 0.63778 12 8 2 0 0 0 0.01463 1 18115 18115 75.571 15.497 1 911640 3283 1426 2335 2339 3572 3572 0.08818298648793643 DLKKKGLI 8 Unmodified _DLKKKGLI_ 0 0 0 nc|ENSG00000101333|Q15147-2|PLCB4;ENST00000464199.5_1_20:9351789-9459633:+|nuORF;nc|ENSG00000101333|Q15147|PLCB4;nc|ENSG00000101333|Q15147-5|PLCB4;nc|ENSG00000101333|Q15147-4|PLCB4;ENSG00000101333|ENST00000378473|PLCB4;ENST00000492632.5_1_20:9288449-9449247:+|nuORF nc|ENSG00000101333|Q15147-2|PLCB4 nc|ENSG00000101333|Q15147-2|PLCB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 305.53973388671875 3 305.539294 913.596052 1.9941 0.00060928 0.57826 0.00017668 2.5724 0.00078596 305.53946057147465 18.521 0.29097 18.521 18.376 18.667 0 47 16 4 0 0 0 0.57648 1 8189 8189 12.241 1.4167 1 3452000 3284 1283 2336 2340 3573 3573 0.1357982520794394 DLKKKGLI 8 Unmodified _DLKKKGLI_ 0 0 0 nc|ENSG00000101333|Q15147-2|PLCB4;ENST00000464199.5_1_20:9351789-9459633:+|nuORF;nc|ENSG00000101333|Q15147|PLCB4;nc|ENSG00000101333|Q15147-5|PLCB4;nc|ENSG00000101333|Q15147-4|PLCB4;ENSG00000101333|ENST00000378473|PLCB4;ENST00000492632.5_1_20:9288449-9449247:+|nuORF nc|ENSG00000101333|Q15147-2|PLCB4 nc|ENSG00000101333|Q15147-2|PLCB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 457.8067932128906 2 457.805303 913.596052 2.8554 0.0013072 0.45556 0.00020856 3.3109 0.0015158 457.8054215357244 18.482 0.25695 18.482 18.361 18.618 0 37 13 4 0 0 0 0.036198 2 8203 8203;8254 71.922 19.654 1 1821500 3285 1283 2336 2340 3574;3575 3574 0.1357982520794394 DLKKKGLI 8 Unmodified _DLKKKGLI_ 0 0 0 nc|ENSG00000101333|Q15147-2|PLCB4;ENST00000464199.5_1_20:9351789-9459633:+|nuORF;nc|ENSG00000101333|Q15147|PLCB4;nc|ENSG00000101333|Q15147-5|PLCB4;nc|ENSG00000101333|Q15147-4|PLCB4;ENSG00000101333|ENST00000378473|PLCB4;ENST00000492632.5_1_20:9288449-9449247:+|nuORF nc|ENSG00000101333|Q15147-2|PLCB4 nc|ENSG00000101333|Q15147-2|PLCB4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 457.8066711425781 2 457.805303 913.596052 NaN NaN NaN NaN NaN NaN NaN 17.861 1 18.061 17.561 18.561 0.20057 0 0 0 0.10316 1 7917 7917 53.833 15.657 1 3286 1283 2336 2340 3576 3576 0.1357982520794394 DLKKKGLI 8 Unmodified _DLKKKGLI_ 0 0 0 nc|ENSG00000101333|Q15147-2|PLCB4;ENST00000464199.5_1_20:9351789-9459633:+|nuORF;nc|ENSG00000101333|Q15147|PLCB4;nc|ENSG00000101333|Q15147-5|PLCB4;nc|ENSG00000101333|Q15147-4|PLCB4;ENSG00000101333|ENST00000378473|PLCB4;ENST00000492632.5_1_20:9288449-9449247:+|nuORF nc|ENSG00000101333|Q15147-2|PLCB4 nc|ENSG00000101333|Q15147-2|PLCB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.5399169921875 3 305.539294 913.596052 2.0077 0.00061343 0.88786 0.00027128 2.8956 0.00088471 305.53953190351996 17.17 0.64401 17.474 17.114 17.758 0.30438 133 51 3 0 0 0 0.57648 1 7825 7825 17.113 2.2746 1 900110 3287 1283 2336 2340 3577 3577 0.1357982520794394 DLKKKGLI 8 Unmodified _DLKKKGLI_ 0 0 0 nc|ENSG00000101333|Q15147-2|PLCB4;ENST00000464199.5_1_20:9351789-9459633:+|nuORF;nc|ENSG00000101333|Q15147|PLCB4;nc|ENSG00000101333|Q15147-5|PLCB4;nc|ENSG00000101333|Q15147-4|PLCB4;ENSG00000101333|ENST00000378473|PLCB4;ENST00000492632.5_1_20:9288449-9449247:+|nuORF nc|ENSG00000101333|Q15147-2|PLCB4 nc|ENSG00000101333|Q15147-2|PLCB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.8065185546875 2 457.805303 913.596052 2.9587 0.0013545 0.6199 0.00028379 3.5786 0.0016383 457.80549067532434 16.992 0.60307 17.653 17.263 17.866 0.66072 126 49 3 0 0 0 0.070862 2 7619 7619;7666 58.679 16.584 1 606290 3288 1283 2336 2340 3578;3579 3578 0.1357982520794394 DLKKKGLI 8 Unmodified _DLKKKGLI_ 0 0 0 nc|ENSG00000101333|Q15147-2|PLCB4;ENST00000464199.5_1_20:9351789-9459633:+|nuORF;nc|ENSG00000101333|Q15147|PLCB4;nc|ENSG00000101333|Q15147-5|PLCB4;nc|ENSG00000101333|Q15147-4|PLCB4;ENSG00000101333|ENST00000378473|PLCB4;ENST00000492632.5_1_20:9288449-9449247:+|nuORF nc|ENSG00000101333|Q15147-2|PLCB4 nc|ENSG00000101333|Q15147-2|PLCB4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 457.805303 913.596052 2.573 0.0011779 0.30972 0.00014179 2.8827 0.0013197 457.80523292189866 17.838 0.22557 18.139 18.019 18.245 0.30159 -0.17133 -9.3225E-05 NaN 71.922 35 20 2 NaN NaN NaN NaN 0 NaN NaN 0 126060 3289 1283 2336 2340 0.1357982520794394 DLKKKGLI 8 Unmodified _DLKKKGLI_ 0 0 0 nc|ENSG00000101333|Q15147-2|PLCB4;ENST00000464199.5_1_20:9351789-9459633:+|nuORF;nc|ENSG00000101333|Q15147|PLCB4;nc|ENSG00000101333|Q15147-5|PLCB4;nc|ENSG00000101333|Q15147-4|PLCB4;ENSG00000101333|ENST00000378473|PLCB4;ENST00000492632.5_1_20:9288449-9449247:+|nuORF nc|ENSG00000101333|Q15147-2|PLCB4 nc|ENSG00000101333|Q15147-2|PLCB4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 457.805303 913.596052 2.5646 0.0011741 0.48194 0.00022064 3.0465 0.0013947 457.80533269231927 17.164 0.47432 17.468 17.179 17.653 0.30438 -0.092502 -7.2919E-05 NaN 58.679 89 36 3 NaN NaN NaN NaN 0 NaN NaN 0 347620 3290 1283 2336 2340 0.1357982520794394 DLKKKKKKKAL 11 Unmodified _DLKKKKKKKAL_ 0 0 0 REV__ENST00000377291.2_1_5:175110088-175110163:+|nuORF REV__ENST00000377291.2_1_5:175110088-175110163:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 664.7568969726562 2 664.461022 1326.90749 NaN NaN NaN NaN NaN NaN NaN 109.84 1 110.44 109.94 110.94 0.60264 0 0 0 1.0082 1 50650 50650 0 0 1 + 3291 15834 2337 2341 3580 3580 0.2571131451286419 DLKKKKKKKAL 11 Unmodified _DLKKKKKKKAL_ 0 0 0 REV__ENST00000377291.2_1_5:175110088-175110163:+|nuORF REV__ENST00000377291.2_1_5:175110088-175110163:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 664.0497436523438 2 664.461022 1326.90749 NaN NaN NaN NaN NaN NaN NaN 109.89 1 110.49 109.99 110.99 0.60264 0 0 0 1.0082 1 50673 50673 0 0 1 + 3292 15834 2337 2341 3581 3581 0.2571131451286419 DLKKRIESL 9 Unmodified _DLKKRIESL_ 0 0 0 nc|ENSG00000139842|Q13619-2|CUL4A;nc|ENSG00000158290|Q13620-3|CUL4B;ENSG00000139842|ENST00000375440|CUL4A;ENSG00000158290|ENST00000371322|CUL4B;nc|ENSG00000158290|Q13620|CUL4B nc|ENSG00000139842|Q13619-2|CUL4A nc|ENSG00000139842|Q13619-2|CUL4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 551.8389892578125 2 551.334956 1100.65536 3.5423 0.001953 1.0035 0.00055329 4.5458 0.0025063 551.8372523233829 34.541 0.25962 34.795 34.646 34.906 0.25389 12 10 2 0 0 0 0.22824 1 15740 15740 21.537 1.1224 1 433280 3293 3169 2338 2342 3582 3582 0.1090567643148006 DLKKRIMVL 9 Unmodified _DLKKRIMVL_ 0 0 0 ENSG00000166263|ENST00000376352|STXBP4 ENSG00000166263|ENST00000376352|STXBP4 ENSG00000166263|ENST00000376352|STXBP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.3543701171875 2 558.352094 1114.68964 3.6873 0.0020588 -0.60577 -0.00033823 3.0815 0.0017206 558.3519003643431 39.569 0.098869 40.207 40.174 40.273 0.63778 10 6 2 0 0 0 0.11458 1 18101 18101 29.082 9.8246 1 691170 3294 4467 2339 2343 3583 3583 0.13687801318747006 DLKKTRVL 8 Unmodified _DLKKTRVL_ 0 0 0 nc|ENSG00000105976|P08581-3|MET;ENSG00000105976|ENST00000397752|MET;nc|ENSG00000105976|P08581-2|MET nc|ENSG00000105976|P08581-3|MET nc|ENSG00000105976|P08581-3|MET MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.87908935546875 3 324.878198 971.612765 2.1175 0.00068792 0.12584 4.0883E-05 2.2433 0.0007288 324.87823547060395 14.254 0.092219 14.56 14.501 14.593 0.3069 11 6 2 0 0 0 0.13532 1 6442 6442 49.933 6.1606 1 2097500 3295 1545 2340 2344 3584 3584 0.12582326093911433 DLKKTRVL 8 Unmodified _DLKKTRVL_ 0 0 0 nc|ENSG00000105976|P08581-3|MET;ENSG00000105976|ENST00000397752|MET;nc|ENSG00000105976|P08581-2|MET nc|ENSG00000105976|P08581-3|MET nc|ENSG00000105976|P08581-3|MET MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.8780822753906 3 324.878198 971.612765 NaN NaN NaN NaN NaN NaN NaN 14.148 1 14.797 14.297 15.297 0.6482 0 0 0 0.0842 1 6363 6363 58.679 7.049 1 3296 1545 2340 2344 3585 3585 0.12582326093911433 DLKKTRVL 8 Unmodified _DLKKTRVL_ 0 0 0 nc|ENSG00000105976|P08581-3|MET;ENSG00000105976|ENST00000397752|MET;nc|ENSG00000105976|P08581-2|MET nc|ENSG00000105976|P08581-3|MET nc|ENSG00000105976|P08581-3|MET MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 324.878198 971.612765 2.2983 0.00074668 -0.045923 -1.4919E-05 2.2524 0.00073176 324.87818798492583 14.676 0.23511 14.902 14.759 14.994 0.22622 0.1708 -4.3116E-05 NaN 49.933 36 16 3 NaN NaN NaN NaN 0 NaN NaN 0 572050 3297 1545 2340 2344 0.12582326093911433 DLKLKQHRLLR 11 Unmodified _DLKLKQHRLLR_ 0 0 0 REV__ENSG00000206530|ENST00000393845|CFAP44 REV__ENSG00000206530|ENST00000393845|CFAP44 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 710.4475708007812 2 710.448977 1418.8834 NaN NaN NaN NaN NaN NaN NaN 88.4 1 88.4 87.9 88.9 0 0 0 0 1.008 1 45858 45858 0.35063 0 1 + 3298 14477 2341 2345 3586 3586 0.19071474079146356 DLKLRKFVF 9 Unmodified _DLKLRKFVF_ 0 0 0 ENSG00000173334|ENST00000311922|TRIB1;nc|ENSG00000173334|Q96RU8-2|TRIB1;ENST00000519576.1_1_8:126445801-126445852:+|nuORF ENSG00000173334|ENST00000311922|TRIB1 ENSG00000173334|ENST00000311922|TRIB1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.2424621582031 3 389.241248 1164.70191 2.6906 0.0010473 0.19417 7.5578E-05 2.8848 0.0011229 389.24131852314997 54.292 0.24709 54.959 54.808 55.055 0.6665 19 12 2 0 0 0 0.084337 1 24852 24852 21.59 15.398 1 1623100 3299 4929 2342 2346 3587 3587 0.12615161053417978 DLKQKVENL 9 Unmodified _DLKQKVENL_ 0 0 0 ENST00000544802.5_1_7:72593260-72619478:+|nuORF;nc|ENSG00000263001|P78347-2|GTF2I;nc|ENSG00000263001|P78347-4|GTF2I;nc|ENSG00000263001|P78347-3|GTF2I;ENSG00000263001|ENST00000573035|GTF2I ENST00000544802.5_1_7:72593260-72619478:+|nuORF ENST00000544802.5_1_7:72593260-72619478:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.8142700195312 2 543.811313 1085.60807 3.3954 0.0018465 0.11921 6.4826E-05 3.5146 0.0019113 543.8117948750418 35.46 0.35672 35.715 35.509 35.866 0.25524 28 11 3 0 0 0 0.0084842 2 16125 16125;16193 84.522 9.535 1 811170 3300 6316 2343 2347 3588;3589 3588 0.06869397160471635 DLKQKVENL 9 Unmodified _DLKQKVENL_ 0 0 0 ENST00000544802.5_1_7:72593260-72619478:+|nuORF;nc|ENSG00000263001|P78347-2|GTF2I;nc|ENSG00000263001|P78347-4|GTF2I;nc|ENSG00000263001|P78347-3|GTF2I;ENSG00000263001|ENST00000573035|GTF2I ENST00000544802.5_1_7:72593260-72619478:+|nuORF ENST00000544802.5_1_7:72593260-72619478:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.3151245117188 2 543.811313 1085.60807 3.4947 0.0019004 0.90467 0.00049197 4.3993 0.0023924 543.8114922969412 35.07 0.25864 35.693 35.58 35.839 0.62294 24 13 2 0 0 0 0.026853 1 16061 16061 59.368 13.669 1 898650 3301 6316 2343 2347 3590 3590 0.06869397160471635 DLKQLDHVLL 10 Unmodified _DLKQLDHVLL_ 0 0 0 REV__nc|ENSG00000107862|Q92538-3|GBF1 REV__nc|ENSG00000107862|Q92538-3|GBF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.568115234375 3 398.567801 1192.68157 2.6918 0.0010729 1.0003 0.00039869 3.6921 0.0014716 398.5680794214838 49.258 0.22055 50.085 49.951 50.172 0.82705 18 11 2 0 0 0 0.85706 1 22442 22442 3.0723 0 1 216310 + 3302 11125 2344 2348 3591 3591 0.09293945602939857 DLKRHIISV 9 Unmodified _DLKRHIISV_ 0 0 0 nc|ENSG00000005889|P17010-2|ZFX;nc|ENSG00000147180|Q9Y462|ZNF711;nc|ENSG00000147180|Q9Y462-2|ZNF711;ENSG00000005889|ENST00000304543|ZFX;ENSG00000147180|ENST00000674551|ZNF711;nc|ENSG00000005889|P17010-3|ZFX nc|ENSG00000005889|P17010-2|ZFX nc|ENSG00000005889|P17010-2|ZFX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.8896484375 3 360.888986 1079.64513 2.6066 0.00094069 -0.5066 -0.00018283 2.1 0.00075787 360.88882358214715 28.879 0.21109 29.139 28.992 29.203 0.2602 22 17 2 0 0 0 0.097139 1 13117 13117 33.445 8.5633 1 1191600 3303 336 2345 2349 3592 3592 0.10849113496897189 DLKRHIISV 9 Unmodified _DLKRHIISV_ 0 0 0 nc|ENSG00000005889|P17010-2|ZFX;nc|ENSG00000147180|Q9Y462|ZNF711;nc|ENSG00000147180|Q9Y462-2|ZNF711;ENSG00000005889|ENST00000304543|ZFX;ENSG00000147180|ENST00000674551|ZNF711;nc|ENSG00000005889|P17010-3|ZFX nc|ENSG00000005889|P17010-2|ZFX nc|ENSG00000005889|P17010-2|ZFX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.8321533203125 2 540.82984 1079.64513 3.3285 0.0018002 0.31373 0.00016967 3.6423 0.0019699 540.8302416440494 28.533 0.2029 29.152 29.016 29.219 0.61947 14 10 2 0 0 0 0.29024 1 13098 13098 8.7454 5.4641 1 151240 3304 336 2345 2349 3593 3593 0.10849113496897189 DLKRHIISV 9 Unmodified _DLKRHIISV_ 0 0 0 nc|ENSG00000005889|P17010-2|ZFX;nc|ENSG00000147180|Q9Y462|ZNF711;nc|ENSG00000147180|Q9Y462-2|ZNF711;ENSG00000005889|ENST00000304543|ZFX;ENSG00000147180|ENST00000674551|ZNF711;nc|ENSG00000005889|P17010-3|ZFX nc|ENSG00000005889|P17010-2|ZFX nc|ENSG00000005889|P17010-2|ZFX MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 360.888986 1079.64513 2.9331 0.0010585 -0.050872 -1.8359E-05 2.8822 0.0010401 360.88905820621096 29.14 0.26875 29.14 28.995 29.264 0 -0.0042858 -5.5586E-05 NaN 33.445 30 19 2 NaN NaN NaN NaN 0 NaN NaN 0 184610 3305 336 2345 2349 0.10849113496897189 DLKRHIISV 9 Unmodified _DLKRHIISV_ 0 0 0 nc|ENSG00000005889|P17010-2|ZFX;nc|ENSG00000147180|Q9Y462|ZNF711;nc|ENSG00000147180|Q9Y462-2|ZNF711;ENSG00000005889|ENST00000304543|ZFX;ENSG00000147180|ENST00000674551|ZNF711;nc|ENSG00000005889|P17010-3|ZFX nc|ENSG00000005889|P17010-2|ZFX nc|ENSG00000005889|P17010-2|ZFX MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 360.888986 1079.64513 2.4957 0.00090066 0.20705 7.4722E-05 2.7027 0.00097538 360.8890676767069 28.535 0.29378 29.154 28.985 29.279 0.61947 0.0096135 0.00022366 NaN 33.445 33 15 3 NaN NaN NaN NaN 0 NaN NaN 0 506310 3306 336 2345 2349 0.10849113496897189 DLKRKEIL 8 Unmodified _DLKRKEIL_ 0 0 0 L1MB3_dup5175|chr5:139538302-139538553:+|1.1883182316292258|0.0370069933492919|5.0|512.0|2|1|sense L1MB3_dup5175|chr5:139538302-139538553:+|1.1883182316292258|0.0370069933492919|5.0|512.0|2|1|sense L1MB3_dup5175|chr5:139538302-139538553:+|1.1883182316292258|0.0370069933492919|5.0|512.0|2|1|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.55413818359375 3 338.88172 1013.62333 1.8089 0.00061299 -0.50264 -0.00017034 1.3062 0.00044266 338.88126020284216 12.849 0.095909 13.156 13.091 13.187 0.30727 4 2 2 0 0 0 0.1128 1 5779 5779 25.399 1.3787 1 164950 3307 9435 2346 2350 3594 3594 0.1170630874833023 DLKRKMIL 8 Unmodified _DLKRKMIL_ 0 0 0 ENST00000474964.5_1_3:127323572-127340613:+|nuORF;ENSG00000073111|ENST00000265056|MCM2;ENST00000468414.1_1_3:127336783-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.5484924316406 3 339.547684 1015.62122 2.6375 0.00089555 -0.41497 -0.0001409 2.2225 0.00075465 339.5476629940342 28.146 0.22905 28.146 28.029 28.258 0 46 19 4 0 0 0 0.23933 1 12667 12667 39.95 3.8227 1 1359000 3308 802 2347 2351 3595 3595 0.11403556738866882 DLKRKMIL 8 Unmodified _DLKRKMIL_ 0 0 0 ENST00000474964.5_1_3:127323572-127340613:+|nuORF;ENSG00000073111|ENST00000265056|MCM2;ENST00000468414.1_1_3:127336783-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 339.5483093261719 3 339.547684 1015.62122 2.4005 0.00081509 -0.42567 -0.00014453 1.9749 0.00067056 339.54761621315015 27.131 0.26949 27.91 27.795 28.064 0.7787 51 20 3 0 0 0 0.42759 2 12210 12169;12210 26.268 3.5319 1 1276000 3309 802 2347 2351 3596;3597 3597 0.11403556738866882 DLKRKMIL 8 Unmodified _DLKRKMIL_ 0 0 0 ENST00000474964.5_1_3:127323572-127340613:+|nuORF;ENSG00000073111|ENST00000265056|MCM2;ENST00000468414.1_1_3:127336783-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.8199157714844 2 508.817887 1015.62122 3.1996 0.001628 0.52441 0.00026683 3.724 0.0018948 508.8180944532896 27.133 0.15541 27.912 27.828 27.984 0.7787 18 11 2 0 0 0 0.21358 1 12188 12188 26.884 0 1 243490 3310 802 2347 2351 3598 3598 0.11403556738866882 DLKRKMIL 8 Unmodified _DLKRKMIL_ 0 0 0 ENST00000474964.5_1_3:127323572-127340613:+|nuORF;ENSG00000073111|ENST00000265056|MCM2;ENST00000468414.1_1_3:127336783-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.5486145019531 3 339.547684 1015.62122 2.344 0.00079591 -0.16563 -5.624E-05 2.1784 0.00073967 339.54771182824607 27.796 0.30312 28.059 27.914 28.217 0.26245 55 17 4 0 0 0 0.26351 2 12660 12617;12660 38.176 3.7738 1 1974400 3311 802 2347 2351 3599;3600 3600 0.11403556738866882 DLKRKMIL 8 Unmodified _DLKRKMIL_ 0 0 0 ENST00000474964.5_1_3:127323572-127340613:+|nuORF;ENSG00000073111|ENST00000265056|MCM2;ENST00000468414.1_1_3:127336783-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.8207092285156 2 508.817887 1015.62122 3.1852 0.0016207 -0.013687 -6.9641E-06 3.1715 0.0016137 508.81778253521867 27.817 0.26048 28.08 27.914 28.174 0.26245 25 15 2 0 0 0 0.30771 2 12618 12618;12671 34.402 3.7652 1 386270 3312 802 2347 2351 3601;3602 3601 0.11403556738866882 DLKRKMIL 8 Unmodified _DLKRKMIL_ 0 0 0 ENST00000474964.5_1_3:127323572-127340613:+|nuORF;ENSG00000073111|ENST00000265056|MCM2;ENST00000468414.1_1_3:127336783-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.8193359375 2 508.817887 1015.62122 3.2187 0.0016377 0.0069679 3.5454E-06 3.2256 0.0016413 508.8180364754215 27.4 0.27551 28.022 27.871 28.146 0.62178 42 19 3 0 0 0 0.23539 2 12535 12535;12583 47.749 3.8904 1 624430 3313 802 2347 2351 3603;3604 3603 0.11403556738866882 DLKRKMIL 8 Unmodified _DLKRKMIL_ 0 0 0 ENST00000474964.5_1_3:127323572-127340613:+|nuORF;ENSG00000073111|ENST00000265056|MCM2;ENST00000468414.1_1_3:127336783-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.5483703613281 3 339.547684 1015.62122 2.248 0.00076329 -0.076462 -2.5963E-05 2.1715 0.00073733 339.54778560781216 27.396 0.30988 28.018 27.836 28.146 0.62179 64 21 4 0 0 0 0.26351 1 12538 12538 38.176 3.7738 1 1996600 3314 802 2347 2351 3605 3605 0.11403556738866882 DLKRKMIL 8 Unmodified _DLKRKMIL_ 0 0 0 ENST00000474964.5_1_3:127323572-127340613:+|nuORF;ENSG00000073111|ENST00000265056|MCM2;ENST00000468414.1_1_3:127336783-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 508.817887 1015.62122 3.3908 0.0017253 0.15937 8.1092E-05 3.5501 0.0018064 508.8179538677861 28.155 0.16115 28.155 28.067 28.228 0 0.11308 3.2517E-05 NaN 26.884 18 13 2 NaN NaN NaN NaN 0 NaN NaN 0 289700 3315 802 2347 2351 0.11403556738866882 DLKRKPADL 9 Unmodified _DLKRKPADL_ 0 0 0 ENSG00000169504|ENST00000374379|CLIC4;nc|ENSG00000112782|Q9NZA1-3|CLIC5;ENSG00000112782|ENST00000339561|CLIC5;nc|ENSG00000112782|Q9NZA1|CLIC5;ENSG00000159212|ENST00000349499|CLIC6;nc|ENSG00000159212|Q96NY7|CLIC6 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.3158569335938 2 528.314023 1054.61349 NaN NaN NaN NaN NaN NaN NaN 13.957 1 13.957 13.457 14.457 0 0 0 0 0.10529 1 6139 6139 42.835 11.567 1 3316 4694 2348 2352 3606 3606 0.08837120742941806 DLKRKPADL 9 Unmodified _DLKRKPADL_ 0 0 0 ENSG00000169504|ENST00000374379|CLIC4;nc|ENSG00000112782|Q9NZA1-3|CLIC5;ENSG00000112782|ENST00000339561|CLIC5;nc|ENSG00000112782|Q9NZA1|CLIC5;ENSG00000159212|ENST00000349499|CLIC6;nc|ENSG00000159212|Q96NY7|CLIC6 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.3154296875 2 528.314023 1054.61349 2.8474 0.0015043 0.35452 0.0001873 3.2019 0.0016916 528.3141819208822 13.13 0.17726 13.373 13.296 13.473 0.24346 27 12 3 0 0 0 0.27666 2 5708 5692;5708 23.801 3.3865 1 559540 3317 4694 2348 2352 3607;3608 3608 0.08837120742941806 DLKRKPADL 9 Unmodified _DLKRKPADL_ 0 0 0 ENSG00000169504|ENST00000374379|CLIC4;nc|ENSG00000112782|Q9NZA1-3|CLIC5;ENSG00000112782|ENST00000339561|CLIC5;nc|ENSG00000112782|Q9NZA1|CLIC5;ENSG00000159212|ENST00000349499|CLIC6;nc|ENSG00000159212|Q96NY7|CLIC6 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 352.5461120605469 3 352.545108 1054.61349 2.0393 0.00071895 0.29347 0.00010346 2.3328 0.00082241 352.5451802849254 13.121 0.27341 13.364 13.257 13.53 0.24346 64 21 4 0 0 0 0.81759 1 5783 5783 7.1017 2.5729 1 3727500 3318 4694 2348 2352 3609 3609 0.08837120742941806 DLKRKPADL 9 Unmodified _DLKRKPADL_ 0 0 0 ENSG00000169504|ENST00000374379|CLIC4;nc|ENSG00000112782|Q9NZA1-3|CLIC5;ENSG00000112782|ENST00000339561|CLIC5;nc|ENSG00000112782|Q9NZA1|CLIC5;ENSG00000159212|ENST00000349499|CLIC6;nc|ENSG00000159212|Q96NY7|CLIC6 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.3158569335938 2 528.314023 1054.61349 2.6776 0.0014146 0.20906 0.00011045 2.8866 0.0015251 528.314181424298 13.079 0.33094 13.386 13.187 13.518 0.30727 36 15 3 0 0 0 0.12764 2 5921 5873;5921 35.612 7.9835 1 857090 3319 4694 2348 2352 3610;3611 3611 0.08837120742941806 DLKRKPADL 9 Unmodified _DLKRKPADL_ 0 0 0 ENSG00000169504|ENST00000374379|CLIC4;nc|ENSG00000112782|Q9NZA1-3|CLIC5;ENSG00000112782|ENST00000339561|CLIC5;nc|ENSG00000112782|Q9NZA1|CLIC5;ENSG00000159212|ENST00000349499|CLIC6;nc|ENSG00000159212|Q96NY7|CLIC6 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.31591796875 2 528.314023 1054.61349 3.5373 0.0018688 0.46181 0.00024398 3.9991 0.0021128 528.3141852979402 12.787 0.1692 13.43 13.345 13.514 0.64272 13 4 4 0 0 0 0.027 1 5745 5745 70.929 39.66 1 5069100 3320 4694 2348 2352 3612 3612 0.08837120742941806 DLKRKWTW 8 Unmodified _DLKRKWTW_ 0 0 0 ENSG00000124486|ENST00000378308|USP9X;ENSG00000114374|ENST00000338981|USP9Y;nc|ENSG00000124486|Q93008-3|USP9X;ENST00000485180.1_1_X:41088473-41089140:+|nuORF ENSG00000124486|ENST00000378308|USP9X ENSG00000124486|ENST00000378308|USP9X MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 378.2138366699219 3 378.213581 1131.61891 2.5038 0.00094696 -0.38668 -0.00014625 2.1171 0.00080071 378.21311007659364 36.387 0.38091 37.181 37.026 37.407 0.79342 32 18 3 0 0 0 0.69597 1 16477 16477 6.2058 3.2105 1 226980 3321 1901 2349 2353 3613 3613 0.05836844325403945 DLKSKNVF 8 Unmodified _DLKSKNVF_ 0 0 0 ENST00000426022.6_1_3:130828655-130852133:+|nuORF;ENST00000506695.5_1_3:130748540-130852801:+|nuORF;nc|ENSG00000114670|Q8NG66-2|NEK11;nc|ENSG00000114670|Q8NG66-3|NEK11;nc|ENSG00000114670|Q8NG66-4|NEK11;ENSG00000114670|ENST00000383366|NEK11;nc|ENSG00000141068|Q8IVT5-4|KSR1;nc|ENSG00000141068|Q8IVT5-3|KSR1;nc|ENSG00000141068|Q8IVT5-2|KSR1;nc|ENSG00000141068|Q8IVT5|KSR1;ENSG00000141068|ENST00000644974|KSR1;ENSG00000171435|ENST00000339824|KSR2 ENST00000426022.6_1_3:130828655-130852133:+|nuORF ENST00000426022.6_1_3:130828655-130852133:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.77032470703125 2 475.768917 949.523281 2.9592 0.0014079 0.21813 0.00010378 3.1773 0.0015117 475.7690418314979 26.883 0.21271 27.505 27.412 27.625 0.62178 23 15 2 0 0 0 0.17473 1 12338 12338 45.7 18.816 1 445270 3322 1918 2350 2354 3614 3614 0.04650071414528156 DLKSRIIHL 9 Unmodified _DLKSRIIHL_ 0 0 0 nc|ENSG00000128849|Q0VF96-2|CGNL1;ENSG00000128849|ENST00000281282|CGNL1 nc|ENSG00000128849|Q0VF96-2|CGNL1 nc|ENSG00000128849|Q0VF96-2|CGNL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 365.5617980957031 3 365.560869 1093.66078 NaN NaN NaN NaN NaN NaN NaN 43.374 1 43.374 42.874 43.874 0 0 0 0 0.056931 1 19766 19766 51.488 5.7481 1 3323 2530 2351 2355 3615 3615 0.11769400013940867 DLKSRIIHL 9 Unmodified _DLKSRIIHL_ 0 0 0 nc|ENSG00000128849|Q0VF96-2|CGNL1;ENSG00000128849|ENST00000281282|CGNL1 nc|ENSG00000128849|Q0VF96-2|CGNL1 nc|ENSG00000128849|Q0VF96-2|CGNL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.56195068359375 3 365.560869 1093.66078 2.6325 0.00096233 -0.26729 -9.7709E-05 2.3652 0.00086462 365.5608224161539 43.096 0.28517 43.367 43.224 43.509 0.27021 61 26 3 0 0 0 0.024161 3 19676 19634;19676;19726 62.869 19.451 1 30927000 3324 2530 2351 2355 3616;3617;3618 3617 0.11769400013940867 DLKSRIIHL 9 Unmodified _DLKSRIIHL_ 0 0 0 nc|ENSG00000128849|Q0VF96-2|CGNL1;ENSG00000128849|ENST00000281282|CGNL1 nc|ENSG00000128849|Q0VF96-2|CGNL1 nc|ENSG00000128849|Q0VF96-2|CGNL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.8402709960938 2 547.837665 1093.66078 3.543 0.001941 0.39239 0.00021496 3.9354 0.0021559 547.8375629175101 43.121 0.25787 43.391 43.237 43.495 0.27021 34 24 2 0 0 0 0.0013716 1 19682 19682 125.04 43.148 1 6826600 3325 2530 2351 2355 3619 3619 0.11769400013940867 DLKSRIIHL 9 Unmodified _DLKSRIIHL_ 0 0 0 nc|ENSG00000128849|Q0VF96-2|CGNL1;ENSG00000128849|ENST00000281282|CGNL1 nc|ENSG00000128849|Q0VF96-2|CGNL1 nc|ENSG00000128849|Q0VF96-2|CGNL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.56170654296875 3 365.560869 1093.66078 2.7331 0.00099913 -0.58948 -0.00021549 2.1437 0.00078364 365.5607535166239 42.386 0.41338 43.033 42.856 43.269 0.64693 99 33 5 0 0 0 0.027096 4 19399 19353;19399;19447;19493 59.052 15.175 1 10968000 3326 2530 2351 2355 3620;3621;3622;3623 3621 0.11769400013940867 DLKSRIIHL 9 Unmodified _DLKSRIIHL_ 0 0 0 nc|ENSG00000128849|Q0VF96-2|CGNL1;ENSG00000128849|ENST00000281282|CGNL1 nc|ENSG00000128849|Q0VF96-2|CGNL1 nc|ENSG00000128849|Q0VF96-2|CGNL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.8392333984375 2 547.837665 1093.66078 3.6851 0.0020188 -0.1808 -9.905E-05 3.5043 0.0019198 547.8375202516371 42.364 0.3508 43.011 42.888 43.239 0.64693 58 26 3 0 0 0 0.0090824 3 19375 19375;19423;19475 90.135 27.562 1 2949900 3327 2530 2351 2355 3624;3625;3626 3624 0.11769400013940867 DLKSRNVVI 9 Unmodified _DLKSRNVVI_ 0 0 0 nc|ENSG00000091436|Q9NYL2-3|MAP3K20;ENST00000476618.5_1_2:173940647-174074648:+|nuORF;nc|ENSG00000091436|Q9NYL2-2|MAP3K20;ENSG00000091436|ENST00000375213|MAP3K20 nc|ENSG00000091436|Q9NYL2-3|MAP3K20 nc|ENSG00000091436|Q9NYL2-3|MAP3K20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.3169555664062 2 522.314023 1042.61349 3.6645 0.001914 0.055961 2.9229E-05 3.7205 0.0019433 522.3140205273545 32.316 0.19685 32.57 32.526 32.723 0.25452 15 12 2 0 0 0 0.063112 1 14741 14741 41.956 11.319 1 872090 3328 1077 2352 2356 3627 3627 0.09389120742957857 DLKSRNVVI 9 Unmodified _DLKSRNVVI_ 0 0 0 nc|ENSG00000091436|Q9NYL2-3|MAP3K20;ENST00000476618.5_1_2:173940647-174074648:+|nuORF;nc|ENSG00000091436|Q9NYL2-2|MAP3K20;ENSG00000091436|ENST00000375213|MAP3K20 nc|ENSG00000091436|Q9NYL2-3|MAP3K20 nc|ENSG00000091436|Q9NYL2-3|MAP3K20 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.5458679199219 3 348.545108 1042.61349 NaN NaN NaN NaN NaN NaN NaN 32.355 1 32.61 32.11 33.11 0.25452 0 0 0 0.52632 1 14736 14736 17.443 10.153 1 3329 1077 2352 2356 3628 3628 0.09389120742957857 DLKSRNVVI 9 Unmodified _DLKSRNVVI_ 0 0 0 nc|ENSG00000091436|Q9NYL2-3|MAP3K20;ENST00000476618.5_1_2:173940647-174074648:+|nuORF;nc|ENSG00000091436|Q9NYL2-2|MAP3K20;ENSG00000091436|ENST00000375213|MAP3K20 nc|ENSG00000091436|Q9NYL2-3|MAP3K20 nc|ENSG00000091436|Q9NYL2-3|MAP3K20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.3161010742188 2 522.314023 1042.61349 3.3257 0.001737 1.0905 0.00056957 4.4161 0.0023066 522.3145751630971 31.77 0.19029 32.388 32.314 32.504 0.61737 19 13 2 0 0 0 0.049036 1 14572 14572 47.594 23.574 1 729060 3330 1077 2352 2356 3629 3629 0.09389120742957857 DLKSSKASL 9 Unmodified _DLKSSKASL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK;ENST00000525875.1_1_11:62201326-62284770:-|nuORF ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.7734375 2 474.771657 947.528761 2.7964 0.0013276 0.74279 0.00035265 3.5392 0.0016803 474.7719658376152 16.802 0.94156 17.107 16.437 17.379 0.30438 168 96 2 0 0 0 0.1776 2 7592 7542;7592 32.786 0 1 213170 3331 2385 2353 2357 3630;3631 3631 0.05289750206338795 DLKSSKASL 9 Unmodified _DLKSSKASL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK;ENST00000525875.1_1_11:62201326-62284770:-|nuORF ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.7729797363281 2 474.771657 947.528761 3.0845 0.0014644 0.86548 0.0004109 3.95 0.0018753 474.7720130772782 16.568 1.1402 17.226 16.443 17.583 0.65798 286 129 3 0 0 0 0.039961 2 7475 7205;7475 47.594 0 1 369910 3332 2385 2353 2357 3632;3633 3633 0.05289750206338795 DLKTHIVSI 9 Unmodified _DLKTHIVSI_ 0 0 0 nc|ENSG00000196526|Q8N556|AFAP1;ENSG00000196526|ENST00000420658|AFAP1 nc|ENSG00000196526|Q8N556|AFAP1 nc|ENSG00000196526|Q8N556|AFAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.3029174804688 2 513.303124 1024.5917 NaN NaN NaN NaN NaN NaN NaN 45.702 1 45.969 45.469 46.469 0.26768 0 0 0 0.020377 1 20893 20893 72.968 20.7 1 3333 5751 2354 2358 3634 3634 0.0803831599437217 DLKTHPEV 8 Unmodified _DLKTHPEV_ 0 0 0 ENST00000550051.5_1_12:112563419-112579054:+|nuORF;ENSG00000135148|ENST00000412615|TRAFD1 ENST00000550051.5_1_12:112563419-112579054:+|nuORF ENST00000550051.5_1_12:112563419-112579054:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 469.7531433105469 2 469.750724 937.486896 2.6809 0.0012594 0.70534 0.00033133 3.3863 0.0015907 469.75105883802973 19.522 0.14784 19.817 19.75 19.898 0.29537 19 14 2 0 0 0 0.44001 1 8883 8883 25.399 3.6527 1 151870 3334 2851 2355 2359 3635 3635 0.01565194517809232 DLKTHPEV 8 Unmodified _DLKTHPEV_ 0 0 0 ENST00000550051.5_1_12:112563419-112579054:+|nuORF;ENSG00000135148|ENST00000412615|TRAFD1 ENST00000550051.5_1_12:112563419-112579054:+|nuORF ENST00000550051.5_1_12:112563419-112579054:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 469.7525939941406 2 469.750724 937.486896 3.0523 0.0014338 -0.20819 -9.7799E-05 2.8441 0.001336 469.75070694932845 19.169 0.13997 19.828 19.748 19.888 0.6583 15 9 2 0 0 0 0.58952 1 8713 8713 14.838 4.0143 1 171900 3335 2851 2355 2359 3636 3636 0.01565194517809232 DLKTKVLVL 9 Unmodified _DLKTKVLVL_ 0 0 0 ENSG00000180104|ENST00000512944|EXOC3 ENSG00000180104|ENST00000512944|EXOC3 ENSG00000180104|ENST00000512944|EXOC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.345458984375 2 514.839342 1027.66413 3.1048 0.0015985 -0.09686 -4.9867E-05 3.0079 0.0015486 514.8393416310826 53.364 0.14494 54.168 54.11 54.255 0.8035 26 13 3 0 0 0 0.085344 1 24335 24335 45.74 10.808 1 915540 3336 5239 2356 2360 3637 3637 0.15140650067951356 DLKTKVLVL 9 Unmodified _DLKTKVLVL_ 0 0 0 ENSG00000180104|ENST00000512944|EXOC3 ENSG00000180104|ENST00000512944|EXOC3 ENSG00000180104|ENST00000512944|EXOC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 343.5624084472656 3 343.561987 1027.66413 2.1479 0.00073794 -0.11208 -3.8507E-05 2.0358 0.00069943 343.5620450879674 53.395 0.10318 54.199 54.142 54.245 0.8035 19 10 2 0 0 0 0.81759 1 24369 24369 7.1017 0.90987 1 404190 3337 5239 2356 2360 3638 3638 0.15140650067951356 DLKTKVLVL 9 Unmodified _DLKTKVLVL_ 0 0 0 ENSG00000180104|ENST00000512944|EXOC3 ENSG00000180104|ENST00000512944|EXOC3 ENSG00000180104|ENST00000512944|EXOC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.8414306640625 2 514.839342 1027.66413 3.3293 0.001714 0.074255 3.823E-05 3.4035 0.0017523 514.8393393113254 54.09 0.30685 54.354 54.188 54.494 0.26462 32 13 3 0 0 0 0.007234 2 24756 24704;24756 103.82 49.991 1 1985300 3338 5239 2356 2360 3639;3640 3640 0.15140650067951356 DLKTKVLVL 9 Unmodified _DLKTKVLVL_ 0 0 0 ENSG00000180104|ENST00000512944|EXOC3 ENSG00000180104|ENST00000512944|EXOC3 ENSG00000180104|ENST00000512944|EXOC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.56292724609375 3 343.561987 1027.66413 2.3789 0.00081729 0.1442 4.9541E-05 2.5231 0.00086683 343.5621424549947 54.091 0.30685 54.355 54.188 54.494 0.26462 35 13 3 0 0 0 0.47677 2 24760 24710;24760 12.873 4.0408 1 1055600 3339 5239 2356 2360 3641;3642 3642 0.15140650067951356 DLKTKVLVL 9 Unmodified _DLKTKVLVL_ 0 0 0 ENSG00000180104|ENST00000512944|EXOC3 ENSG00000180104|ENST00000512944|EXOC3 ENSG00000180104|ENST00000512944|EXOC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.8408203125 2 514.839342 1027.66413 3.2621 0.0016795 0.049619 2.5546E-05 3.3117 0.001705 514.8393709284744 53.477 0.26213 54.142 54.003 54.265 0.6644 28 11 3 0 0 0 0.013552 2 24491 24438;24491 83.429 37.729 1 2494500 3340 5239 2356 2360 3643;3644 3644 0.15140650067951356 DLKTKVLVL 9 Unmodified _DLKTKVLVL_ 0 0 0 ENSG00000180104|ENST00000512944|EXOC3 ENSG00000180104|ENST00000512944|EXOC3 ENSG00000180104|ENST00000512944|EXOC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.5630187988281 3 343.561987 1027.66413 2.2185 0.00076219 -0.01419 -4.8751E-06 2.2043 0.00075731 343.56220608804125 53.489 0.26213 54.153 54.003 54.265 0.6644 24 11 3 0 0 0 0.29024 1 24465 24465 17.443 1.704 1 1142700 3341 5239 2356 2360 3645 3645 0.15140650067951356 DLKVKLTEV 9 Unmodified _DLKVKLTEV_ 0 0 0 ENSG00000132467|ENST00000254803|UTP3 ENSG00000132467|ENST00000254803|UTP3 ENSG00000132467|ENST00000254803|UTP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.8214111328125 2 522.818607 1043.62266 3.6533 0.00191 0.15529 8.1191E-05 3.8086 0.0019912 522.8183778518396 46 0.26877 46.651 46.468 46.737 0.65104 10 7 2 0 0 0 0.049036 1 21083 21083 47.594 11.088 1 313640 3342 2704 2357 2361 3646 3646 0.10259469308630287 DLKYKKLF 8 Unmodified _DLKYKKLF_ 0 0 0 ENSG00000024048|ENST00000372901|UBR2;nc|ENSG00000024048|Q8IWV8|UBR2;nc|ENSG00000024048|Q8IWV8-2|UBR2 ENSG00000024048|ENST00000372901|UBR2 ENSG00000024048|ENST00000372901|UBR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.21551513671875 3 352.214699 1053.62227 2.3291 0.00082035 0.66717 0.00023499 2.9963 0.0010553 352.2136908063212 37.842 0.4071 38.476 38.27 38.677 0.63388 29 13 3 0 0 0 0.70146 1 17334 17334 7.2892 4.0079 1 301150 3343 473 2358 2362 3647 3647 0.09760094379407747 DLLIEALKFHL 11 Unmodified _DLLIEALKFHL_ 0 0 0 ENSG00000187961|ENST00000338591|KLHL17 ENSG00000187961|ENST00000338591|KLHL17 ENSG00000187961|ENST00000338591|KLHL17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.928955078125 3 437.927218 1310.75982 2.9375 0.0012864 1.1236 0.00049207 4.0612 0.0017785 437.92751504301924 40.178 0.85854 40.178 39.653 40.512 0 86 34 3 0 0 0 0.91111 2 18049 18049;18350 0.40827 0.041592 1 931650 3344 5644 2359 2363 3648;3649 3648 0.11687378188184994 DLLIREPL 8 Unmodified _DLLIREPL_ 0 0 0 REV__CATSPERG|p.F759L|1|0.2|ENSG00000099338|chr19:38362495-38362495|C/A|missense_variant REV__CATSPERG|p.F759L|1|0.2|ENSG00000099338|chr19:38362495-38362495|C/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.79376220703125 2 484.792392 967.570232 3.3389 0.0016187 -3.4238 -0.0016598 -0.084917 -4.1167E-05 484.791428866754 67.827 0.51032 68.08 67.705 68.215 0.25226 63 28 3 0 0 0 0.059272 2 31091 31046;31091 62.573 0 1 1261700 + 3345 9988 2360 2364 3650;3651 3651 0.08514930965668555 DLLIREPL 8 Unmodified _DLLIREPL_ 0 0 0 REV__CATSPERG|p.F759L|1|0.2|ENSG00000099338|chr19:38362495-38362495|C/A|missense_variant REV__CATSPERG|p.F759L|1|0.2|ENSG00000099338|chr19:38362495-38362495|C/A|missense_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 484.792392 967.570232 3.3389 0.0016187 -3.4238 -0.0016598 -0.084917 -4.1167E-05 484.791428866754 67.827 0.51032 68.08 67.705 68.215 0.25226 0.084776 -0.00058402 NaN 62.573 63 28 3 NaN NaN NaN NaN 0 NaN NaN 0 1261700 + 3346 9988 2360 2364 0.08514930965668555 DLLIREPL 8 Unmodified _DLLIREPL_ 0 0 0 REV__CATSPERG|p.F759L|1|0.2|ENSG00000099338|chr19:38362495-38362495|C/A|missense_variant REV__CATSPERG|p.F759L|1|0.2|ENSG00000099338|chr19:38362495-38362495|C/A|missense_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 484.792392 967.570232 3.1759 0.0015397 -2.6211 -0.0012707 0.5548 0.00026896 484.7909831166816 67.252 0.56236 67.91 67.614 68.177 0.65777 -0.084776 0.00019426 NaN 62.573 53 33 3 NaN NaN NaN NaN 0 NaN NaN 0 1212200 + 3347 9988 2360 2364 0.08514930965668555 DLLIRTHM 8 Unmodified _DLLIRTHM_ 0 0 0 ENST00000589246.1_1_17:75493182-75494737:+|nuORF;nc|ENSG00000184640|Q9UHD8-4|SEPTIN9;nc|ENSG00000184640|Q9UHD8-9|SEPTIN9;nc|ENSG00000184640|Q9UHD8-3|SEPTIN9;nc|ENSG00000184640|Q9UHD8-8|SEPTIN9;nc|ENSG00000184640|Q9UHD8-7|SEPTIN9;nc|ENSG00000184640|Q9UHD8-2|SEPTIN9;nc|ENSG00000184640|Q9UHD8-5|SEPTIN9;ENSG00000184640|ENST00000427177|SEPTIN9 ENST00000589246.1_1_17:75493182-75494737:+|nuORF ENST00000589246.1_1_17:75493182-75494737:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.778564453125 2 499.776219 997.537886 3.1443 0.0015714 0.60363 0.00030168 3.7479 0.0018731 499.7763636113617 45.705 0.33072 45.972 45.774 46.105 0.26768 20 12 2 0 0 0 0.03226 1 20910 20910 75.761 43.455 1 1066800 3348 5455 2361 2365 3652 3652 0.03901820291025615 DLLIRTHM 8 Unmodified _DLLIRTHM_ 0 0 0 ENST00000589246.1_1_17:75493182-75494737:+|nuORF;nc|ENSG00000184640|Q9UHD8-4|SEPTIN9;nc|ENSG00000184640|Q9UHD8-9|SEPTIN9;nc|ENSG00000184640|Q9UHD8-3|SEPTIN9;nc|ENSG00000184640|Q9UHD8-8|SEPTIN9;nc|ENSG00000184640|Q9UHD8-7|SEPTIN9;nc|ENSG00000184640|Q9UHD8-2|SEPTIN9;nc|ENSG00000184640|Q9UHD8-5|SEPTIN9;ENSG00000184640|ENST00000427177|SEPTIN9 ENST00000589246.1_1_17:75493182-75494737:+|nuORF ENST00000589246.1_1_17:75493182-75494737:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.7779846191406 2 499.776219 997.537886 NaN NaN NaN NaN NaN NaN NaN 45.063 1 45.712 45.212 46.212 0.64998 0 0 0 0.21274 1 20652 20652 79.596 47.291 1 3349 5455 2361 2365 3653 3653 0.03901820291025615 DLLKKLRER 9 Unmodified _DLLKKLRER_ 0 0 0 REV__ENSG00000119778|ENST00000238789|ATAD2B REV__ENSG00000119778|ENST00000238789|ATAD2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 390.9166259765625 3 390.915423 1169.72444 2.7616 0.0010795 1.6077 0.00062848 4.3693 0.001708 390.91556105765403 21.822 0.34504 21.822 21.642 21.987 0 48 29 2 0 0 0 0.30351 1 9789 9789 16.566 2.951 1 297910 + 3350 11516 2362 2366 3654 3654 0.1463676045102602 DLLKKLRER 9 Unmodified _DLLKKLRER_ 0 0 0 REV__ENSG00000119778|ENST00000238789|ATAD2B REV__ENSG00000119778|ENST00000238789|ATAD2B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 390.915423 1169.72444 2.7616 0.0010795 1.6077 0.00062848 4.3693 0.001708 390.91556105765403 21.822 0.34504 21.822 21.642 21.987 0 0.11828 0.00031505 NaN 16.566 48 29 2 NaN NaN NaN NaN 0 NaN NaN 0 297910 + 3351 11516 2362 2366 0.1463676045102602 DLLKKLRER 9 Unmodified _DLLKKLRER_ 0 0 0 REV__ENSG00000119778|ENST00000238789|ATAD2B REV__ENSG00000119778|ENST00000238789|ATAD2B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 390.915423 1169.72444 2.9479 0.0011524 1.1638 0.00045495 4.1117 0.0016073 391.2507317875021 20.932 0.35398 21.586 21.284 21.638 0.65346 -0.11828 -0.00020554 NaN 16.566 53 26 3 NaN NaN NaN NaN 0 NaN NaN 0 644340 + 3352 11516 2362 2366 0.1463676045102602 DLLKKSRKL 9 Unmodified _DLLKKSRKL_ 0 0 0 CARD6|p.V285Gfs*3|1|0.67|ENSG00000132357|chr5:40852177-40852178|-/A|frameshift_variant;ENSG00000132357|ENST00000254691|CARD6 CARD6|p.V285Gfs*3|1|0.67|ENSG00000132357|chr5:40852177-40852178|-/A|frameshift_variant CARD6|p.V285Gfs*3|1|0.67|ENSG00000132357|chr5:40852177-40852178|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 367.57733154296875 3 367.576519 1099.70773 2.0278 0.00074537 -0.11327 -4.1637E-05 1.9145 0.00070374 367.5765035737064 12.948 0.13803 13.191 13.119 13.257 0.24346 26 11 3 0 0 0 0.035698 1 5637 5637 53.317 3.5748 1 1725900 3353 100 2363 2367 3655 3655 0.16186259565097316 DLLKKSRKL 9 Unmodified _DLLKKSRKL_ 0 0 0 CARD6|p.V285Gfs*3|1|0.67|ENSG00000132357|chr5:40852177-40852178|-/A|frameshift_variant;ENSG00000132357|ENST00000254691|CARD6 CARD6|p.V285Gfs*3|1|0.67|ENSG00000132357|chr5:40852177-40852178|-/A|frameshift_variant CARD6|p.V285Gfs*3|1|0.67|ENSG00000132357|chr5:40852177-40852178|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 367.5773010253906 3 367.576519 1099.70773 2.0296 0.00074603 0.30873 0.00011348 2.3383 0.00085951 367.57663563482987 12.869 0.22097 13.176 13.058 13.279 0.30727 18 6 4 0 0 0 0.053359 1 5831 5831 45.74 0 1 3333700 3354 100 2363 2367 3656 3656 0.16186259565097316 DLLKRKRKI 9 Unmodified _DLLKRKRKI_ 0 0 0 LRRK2|p.I1533Sfs*15|1|0.16|ENSG00000188906|chr12:40314027-40314027|A/-|frameshift_variant;ENSG00000188906|ENST00000298910|LRRK2 LRRK2|p.I1533Sfs*15|1|0.16|ENSG00000188906|chr12:40314027-40314027|A/-|frameshift_variant LRRK2|p.I1533Sfs*15|1|0.16|ENSG00000188906|chr12:40314027-40314027|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.582275390625 2 585.395682 1168.77681 NaN NaN NaN NaN NaN NaN NaN 54.421 1 54.421 53.921 54.921 0 0 0 0 0.91206 1 24965 24965 0.6015 0 1 3355 5690 2364 2368 3657 3657 0.19917343584643277 DLLMFTVKNRF 11 Unmodified _DLLMFTVKNRF_ 0 0 0 REV__nc|ENSG00000056558|Q13077-2|TRAF1 REV__nc|ENSG00000056558|Q13077-2|TRAF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 692.3743896484375 2 692.376297 1382.73804 NaN NaN NaN NaN NaN NaN NaN 70.122 1 70.825 70.325 71.325 0.70302 0 0 0 1.0059 1 33588 33588 2.9952 0 1 + 3356 10376 2365 2369 3658 3658 0.06198250167949482 DLLMVEHL 8 Unmodified _DLLMVEHL_ 0 0 0 REV__TRHDE|p.F993Sfs*26|1|0.04|ENSG00000072657|chr12:72663096-72663096|T/-|frameshift_variant REV__TRHDE|p.F993Sfs*26|1|0.04|ENSG00000072657|chr12:72663096-72663096|T/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.7922668457031 2 485.257328 968.500103 3.3263 0.0016141 -0.040863 -1.9829E-05 3.2854 0.0015943 485.25709649039715 67.571 0.48375 67.821 67.544 68.028 0.2501 41 26 2 0 0 0 0.13672 1 31046 31046 13.508 3.3245 1 518160 + 3357 10494 2366 2370 3659 3659 0.014593093055395912 DLLMVEHL 8 Unmodified _DLLMVEHL_ 0 0 0 REV__TRHDE|p.F993Sfs*26|1|0.04|ENSG00000072657|chr12:72663096-72663096|T/-|frameshift_variant REV__TRHDE|p.F993Sfs*26|1|0.04|ENSG00000072657|chr12:72663096-72663096|T/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 485.257328 968.500103 3.2049 0.0015552 -0.24785 -0.00012027 2.9571 0.001435 485.2571401128139 67.002 0.43094 67.66 67.387 67.818 0.65777 -0.080892 -7.8798E-05 NaN 13.508 41 24 2 NaN NaN NaN NaN 0 NaN NaN 0 531000 + 3358 10494 2366 2370 0.014593093055395912 DLLPKEKRHVL 11 Unmodified _DLLPKEKRHVL_ 0 0 0 nc|ENSG00000051108|Q15011-3|HERPUD1;nc|ENSG00000051108|Q15011-2|HERPUD1 nc|ENSG00000051108|Q15011-3|HERPUD1 nc|ENSG00000051108|Q15011-3|HERPUD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 449.94384765625 3 449.94175 1346.80342 NaN NaN NaN NaN NaN NaN NaN 26.126 1 26.391 25.891 26.891 0.26489 0 0 0 0.92815 1 11867 11867 13.535 5.6889 1 3359 9544 2367 2371 3660 3660 0.14388987685310894 DLLPKREL 8 Unmodified _DLLPKREL_ 0 0 0 ENST00000547486.1_1_12:69645004-69651771:+|nuORF;nc|ENSG00000111605|Q16630-3|CPSF6;ENSG00000111605|ENST00000435070|CPSF6;nc|ENSG00000111605|Q16630-2|CPSF6 ENST00000547486.1_1_12:69645004-69651771:+|nuORF ENST00000547486.1_1_12:69645004-69651771:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.2991638183594 2 492.297842 982.581131 NaN NaN NaN NaN NaN NaN NaN 40.197 1 40.464 39.964 40.964 0.26696 0 0 0 0.48299 1 18289 18289 29.082 0.90835 1 3360 8852 2368 2372 3661 3661 0.08914333339930636 DLLPKREL 8 Unmodified _DLLPKREL_ 0 0 0 ENST00000547486.1_1_12:69645004-69651771:+|nuORF;nc|ENSG00000111605|Q16630-3|CPSF6;ENSG00000111605|ENST00000435070|CPSF6;nc|ENSG00000111605|Q16630-2|CPSF6 ENST00000547486.1_1_12:69645004-69651771:+|nuORF ENST00000547486.1_1_12:69645004-69651771:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.3003234863281 2 492.297842 982.581131 3.3673 0.0016577 0.28593 0.00014076 3.6532 0.0017985 492.29770973272457 39.557 0.57673 40.195 39.831 40.407 0.63778 33 24 2 0 0 0 0.47805 2 18038 18038;18126 22.736 2.2827 1 781580 3361 8852 2368 2372 3662;3663 3662 0.08914333339930636 DLLPRNRR 8 Unmodified _DLLPRNRR_ 0 0 0 REV__ENST00000490957.5_1_7:11013950-11101713:+|nuORF REV__ENST00000490957.5_1_7:11013950-11101713:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.2096862792969 3 347.20883 1038.60466 2.6023 0.00090353 -0.92197 -0.00032012 1.6803 0.00058341 347.20841447829747 13.073 0.14535 13.715 13.58 13.725 0.64272 8 4 2 0 0 0 0.68959 1 5870 5870 6.7232 0 1 274030 + 3362 11083 2369 2373 3664 3664 0.08690191897130717 DLLQKHTL 8 Unmodified _DLLQKHTL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;SPTBN1|p.E1055Gfs*20|1|0.19|ENSG00000115306|chr2:54631208-54631224|GAGAGGCCTCCCTGGGA/-|frameshift_variant ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.2840881347656 2 484.282192 966.549831 3.2174 0.0015581 0.059617 2.8871E-05 3.2771 0.001587 484.2820843742475 33.091 0.49373 33.345 32.998 33.492 0.25389 44 21 3 0 0 0 0.010324 2 15036 15036;15087 96.367 32.596 1 1479300 3363 1960 2370 2374 3665;3666 3665 0.06521760305861335 DLLQKHTL 8 Unmodified _DLLQKHTL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;SPTBN1|p.E1055Gfs*20|1|0.19|ENSG00000115306|chr2:54631208-54631224|GAGAGGCCTCCCTGGGA/-|frameshift_variant ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.2844543457031 2 484.282192 966.549831 3.1059 0.0015041 0.5238 0.00025367 3.6297 0.0017578 484.28231632232166 32.582 0.32319 33.2 33.005 33.328 0.61831 42 15 3 0 0 0 0.00453 3 14939 14881;14939;14985 129.77 37.281 1 1410200 3364 1960 2370 2374 3667;3668;3669 3668 0.06521760305861335 DLLQWRRRRHR 11 Unmodified _DLLQWRRRRHR_ 0 0 0 ENST00000589935.1_1_18:54318575-54318788:+|nuORF ENST00000589935.1_1_18:54318575-54318788:+|nuORF ENST00000589935.1_1_18:54318575-54318788:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 796.4610595703125 2 796.461273 1590.90799 NaN NaN NaN NaN NaN NaN NaN 96.872 1 96.872 96.372 97.372 0 0 0 0 1.0082 1 52553 52553 0 0 1 3365 9220 2371 2375 3670 3670 0.13617547005219421 DLLRKVGAL 9 Unmodified _DLLRKVGAL_ 0 0 0 nc|ENSG00000166579|Q9GZM8-3|NDEL1;ENSG00000072864|ENST00000396354|NDE1;ENSG00000166579|ENST00000334527|NDEL1;nc|ENSG00000072864|Q9NXR1-1|NDE1;nc|ENSG00000166579|Q9GZM8-2|NDEL1 nc|ENSG00000166579|Q9GZM8-3|NDEL1 nc|ENSG00000166579|Q9GZM8-3|NDEL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.8157958984375 2 492.813659 983.612765 NaN NaN NaN NaN NaN NaN NaN 48.568 1 48.83 48.33 49.33 0.26209 0 0 0 0.021845 1 22203 22203 70.332 15.558 1 3366 799 2372 2376 3671 3671 0.12030326093884014 DLLRRIRL 8 Unmodified _DLLRRIRL_ 0 0 0 REV__CON__P50448 REV__CON__P50448 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 352.2337951660156 3 352.232975 1053.6771 2.062 0.00072631 0.25608 9.0201E-05 2.3181 0.00081651 352.2332621252731 33.827 0.12895 34.615 34.571 34.7 0.78795 13 9 2 0 0 0 0.42655 1 15341 15341 20.454 0 1 261200 + + 3367 10084 2373 2377 3672 3672 0.15240525970693852 DLLRRIRL 8 Unmodified _DLLRRIRL_ 0 0 0 REV__CON__P50448 REV__CON__P50448 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.2339782714844 3 352.232975 1053.6771 2.529 0.00089078 -0.2597 -9.1476E-05 2.2692 0.0007993 352.2329015262961 34.613 0.26476 34.867 34.672 34.936 0.25389 17 10 2 0 0 0 0.34607 1 15782 15782 25.399 0 1 584120 + + 3368 10084 2373 2377 3673 3673 0.15240525970693852 DLLRRIRL 8 Unmodified _DLLRRIRL_ 0 0 0 REV__CON__P50448 REV__CON__P50448 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.54742431640625 3 352.232975 1053.6771 2.529 0.00089078 -0.2597 -9.1476E-05 2.2692 0.0007993 352.2329015262961 34.613 0.26476 34.867 34.672 34.936 0.25389 17 10 2 0 0 0 0.12371 1 15715 15715 20.454 0 1 584120 + + 3369 10084 2373 2377 3674 3674 0.15240525970693852 DLLRRIRL 8 Unmodified _DLLRRIRL_ 0 0 0 REV__CON__P50448 REV__CON__P50448 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 352.232975 1053.6771 2.062 0.00072631 0.25608 9.0201E-05 2.3181 0.00081651 352.2332621252731 33.827 0.12895 34.615 34.571 34.7 0.78795 -0.12601 0.00026585 NaN 25.399 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 261200 + + 3370 10084 2373 2377 0.15240525970693852 DLLRRVLVL 9 Unmodified _DLLRRVLVL_ 0 0 0 nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B;ENSG00000275052|ENST00000616407|PPP4R3B;nc|ENSG00000275052|Q5MIZ7-5|PPP4R3B;ENST00000482826.1_1_2:55795287-55800821:-|nuORF nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.86572265625 2 548.863683 1095.71281 3.3224 0.0018236 0.35228 0.00019335 3.6747 0.0020169 548.8640558539058 71.224 0.19856 71.482 71.374 71.573 0.25786 26 16 2 0 0 0 0.7295 1 32621 32621 8.5933 0 1 640420 3371 6345 2374 2378 3675 3675 0.16878563427690096 DLLRRVLVL 9 Unmodified _DLLRRVLVL_ 0 0 0 nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B;ENSG00000275052|ENST00000616407|PPP4R3B;nc|ENSG00000275052|Q5MIZ7-5|PPP4R3B;ENST00000482826.1_1_2:55795287-55800821:-|nuORF nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.865478515625 2 548.863683 1095.71281 3.0419 0.0016696 0.44056 0.00024181 3.4824 0.0019114 548.8638488401024 70.672 0.2176 71.334 71.206 71.424 0.66209 23 13 2 0 0 0 0.14729 2 32373 32373;32421 26.884 0 1 679480 3372 6345 2374 2378 3676;3677 3676 0.16878563427690096 DLLSIFFSL 9 Unmodified _DLLSIFFSL_ 0 0 0 REV__ENSG00000237521|ENST00000456448|OR7E24 REV__ENSG00000237521|ENST00000456448|OR7E24 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.7943725585938 2 527.794601 1053.57465 NaN NaN NaN NaN NaN NaN NaN 27.726 1 28.513 28.013 29.013 0.78627 0 0 0 0.70806 1 12473 12473 12.532 2.4576 1 + 3373 14598 2375 2379 3678 3678 0.05000395388583456 DLLSRTAV 8 Unmodified _DLLSRTAV_ 0 0 0 ENST00000460505.5_1_3:49053023-49053570:-|nuORF;ENST00000498794.1_1_3:49053195-49053570:-|nuORF;ENST00000481001.5_1_3:49053078-49053570:-|nuORF;ENST00000498498.5_1_3:49053078-49053570:-|nuORF;nc|ENSG00000178149|Q5D0E6-4|DALRD3;ENSG00000178149|ENST00000341949|DALRD3 ENST00000460505.5_1_3:49053023-49053570:-|nuORF ENST00000460505.5_1_3:49053023-49053570:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.7549743652344 2 437.753267 873.491981 NaN NaN NaN NaN NaN NaN NaN 40.951 1 40.951 40.451 41.451 0 0 0 0 0.32671 1 18597 18597 34.402 0 1 3374 5152 2376 2380 3679 3679 0.050174983804254225 DLLSRTAV 8 Unmodified _DLLSRTAV_ 0 0 0 ENST00000460505.5_1_3:49053023-49053570:-|nuORF;ENST00000498794.1_1_3:49053195-49053570:-|nuORF;ENST00000481001.5_1_3:49053078-49053570:-|nuORF;ENST00000498498.5_1_3:49053078-49053570:-|nuORF;nc|ENSG00000178149|Q5D0E6-4|DALRD3;ENSG00000178149|ENST00000341949|DALRD3 ENST00000460505.5_1_3:49053023-49053570:-|nuORF ENST00000460505.5_1_3:49053023-49053570:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.7541809082031 2 437.753267 873.491981 NaN NaN NaN NaN NaN NaN NaN 40.197 1 40.997 40.497 41.497 0.80014 0 0 0 0.48299 1 18202 18202 29.082 0 1 3375 5152 2376 2380 3680 3680 0.050174983804254225 DLLSRTAV 8 Unmodified _DLLSRTAV_ 0 0 0 ENST00000460505.5_1_3:49053023-49053570:-|nuORF;ENST00000498794.1_1_3:49053195-49053570:-|nuORF;ENST00000481001.5_1_3:49053078-49053570:-|nuORF;ENST00000498498.5_1_3:49053078-49053570:-|nuORF;nc|ENSG00000178149|Q5D0E6-4|DALRD3;ENSG00000178149|ENST00000341949|DALRD3 ENST00000460505.5_1_3:49053023-49053570:-|nuORF ENST00000460505.5_1_3:49053023-49053570:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.75537109375 2 437.753267 873.491981 3.0664 0.0013423 -0.32195 -0.00014093 2.7445 0.0012014 437.7531290715372 40.776 0.24294 41.045 40.891 41.134 0.26904 24 16 2 0 0 0 0.23933 2 18571 18526;18571 39.95 0 1 1326400 3376 5152 2376 2380 3681;3682 3682 0.050174983804254225 DLLSRTAV 8 Unmodified _DLLSRTAV_ 0 0 0 ENST00000460505.5_1_3:49053023-49053570:-|nuORF;ENST00000498794.1_1_3:49053195-49053570:-|nuORF;ENST00000481001.5_1_3:49053078-49053570:-|nuORF;ENST00000498498.5_1_3:49053078-49053570:-|nuORF;nc|ENSG00000178149|Q5D0E6-4|DALRD3;ENSG00000178149|ENST00000341949|DALRD3 ENST00000460505.5_1_3:49053023-49053570:-|nuORF ENST00000460505.5_1_3:49053023-49053570:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.7547912597656 2 437.753267 873.491981 3.3113 0.0014495 0.47641 0.00020855 3.7877 0.0016581 437.7534416775165 40.238 0.11068 40.879 40.772 40.883 0.64136 8 6 2 0 0 0 0.17473 1 18382 18382 45.7 0 1 1598400 3377 5152 2376 2380 3683 3683 0.050174983804254225 DLLTELLAAQL 11 Unmodified _DLLTELLAAQL_ 0 0 0 REV__ENSG00000112877|ENST00000264935|CEP72 REV__ENSG00000112877|ENST00000264935|CEP72 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.9015808105469 3 400.567578 1198.6809 2.9441 0.0011793 -0.86468 -0.00034636 2.0795 0.00083296 400.5673059574092 27.151 0.29228 27.416 27.24 27.532 0.26489 48 19 3 0 0 0 0.46182 1 12304 12304 19.987 1.2657 1 931740 + 3378 11282 2377 2381 3684 3684 0.08951106163249278 DLLTKERL 8 Unmodified _DLLTKERL_ 0 0 0 ENSG00000273749|ENST00000617928|CYFIP1;ENSG00000055163|ENST00000620254|CYFIP2;nc|ENSG00000055163|Q96F07|CYFIP2;nc|ENSG00000273749|Q7L576-2|CYFIP1;ENST00000524058.1_1_5:156810283-156816436:+|nuORF;ENST00000522884.5_1_5:156811334-156816436:+|nuORF;nc|ENSG00000273749|Q7L576-3|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.2973937988281 2 494.295299 986.576045 3.1346 0.0015494 -0.10047 -4.966E-05 3.0342 0.0014998 494.29541991104287 37.548 0.26933 38.344 38.182 38.452 0.79552 21 12 3 0 0 0 0.26351 1 17047 17047 38.176 3.7738 1 539870 3379 6340 2378 2382 3685 3685 0.08222029477337855 DLLTKERL 8 Unmodified _DLLTKERL_ 0 0 0 ENSG00000273749|ENST00000617928|CYFIP1;ENSG00000055163|ENST00000620254|CYFIP2;nc|ENSG00000055163|Q96F07|CYFIP2;nc|ENSG00000273749|Q7L576-2|CYFIP1;ENST00000524058.1_1_5:156810283-156816436:+|nuORF;ENST00000522884.5_1_5:156811334-156816436:+|nuORF;nc|ENSG00000273749|Q7L576-3|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.29669189453125 2 494.295299 986.576045 3.0821 0.0015235 -3.8115 -0.001884 -0.72931 -0.00036049 494.2951608424555 37.848 0.70714 38.482 37.97 38.677 0.63388 64 23 4 0 0 0 0.035125 2 17318 17318;17387 72.968 7.7329 1 1172100 3380 6340 2378 2382 3686;3687 3686 0.08222029477337855 DLLTKERL 8 Unmodified _DLLTKERL_ 0 0 0 ENSG00000273749|ENST00000617928|CYFIP1;ENSG00000055163|ENST00000620254|CYFIP2;nc|ENSG00000055163|Q96F07|CYFIP2;nc|ENSG00000273749|Q7L576-2|CYFIP1;ENST00000524058.1_1_5:156810283-156816436:+|nuORF;ENST00000522884.5_1_5:156811334-156816436:+|nuORF;nc|ENSG00000273749|Q7L576-3|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 494.295299 986.576045 3.0927 0.0015287 -0.35043 -0.00017322 2.7423 0.0013555 494.29504339023504 38.583 0.29669 38.583 38.447 38.744 0 0.054291 -0.00028413 NaN 72.968 23 14 2 NaN NaN NaN NaN 0 NaN NaN 0 519590 3381 6340 2378 2382 0.08222029477337855 DLLTKERL 8 Unmodified _DLLTKERL_ 0 0 0 ENSG00000273749|ENST00000617928|CYFIP1;ENSG00000055163|ENST00000620254|CYFIP2;nc|ENSG00000055163|Q96F07|CYFIP2;nc|ENSG00000273749|Q7L576-2|CYFIP1;ENST00000524058.1_1_5:156810283-156816436:+|nuORF;ENST00000522884.5_1_5:156811334-156816436:+|nuORF;nc|ENSG00000273749|Q7L576-3|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 494.295299 986.576045 3.0106 0.0014881 0.70856 0.00035024 3.7192 0.0018384 494.29560437762837 38.443 0.22329 38.707 38.569 38.793 0.26408 0.17797 0.00076278 NaN 72.968 11 6 2 NaN NaN NaN NaN 0 NaN NaN 0 1026800 3382 6340 2378 2382 0.08222029477337855 DLLTRENVAL 10 Unmodified _DLLTRENVAL_ 0 0 0 ENSG00000146216|ENST00000259750|TTBK1;nc|ENSG00000146216|Q5TCY1-2|TTBK1 ENSG00000146216|ENST00000259750|TTBK1 ENSG00000146216|ENST00000259750|TTBK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.3245849609375 2 572.322045 1142.62954 3.3716 0.0019296 0.25261 0.00014457 3.6242 0.0020742 572.3221922593949 53.914 0.40493 54.179 53.907 54.312 0.26462 32 15 3 0 0 0 0.63441 1 24568 24568 16.149 0.90062 1 532770 3383 3506 2379 2383 3688 3688 0.06392782189186619 DLLTRLRAN 9 Unmodified _DLLTRLRAN_ 0 0 0 ENSG00000130513|ENST00000252809|GDF15 ENSG00000130513|ENST00000252809|GDF15 ENSG00000130513|ENST00000252809|GDF15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.8812561035156 3 357.88049 1070.61964 1.8178 0.00065054 0.6771 0.00024232 2.4949 0.00089287 357.8807691050159 12.454 0.073212 12.761 12.72 12.794 0.30727 8 3 3 0 0 0 0.088474 1 5618 5618 35.612 1.7909 1 5091000 3384 2595 2380 2384 3689 3689 0.08715638974490503 DLLTRLRAN 9 Unmodified _DLLTRLRAN_ 0 0 0 ENSG00000130513|ENST00000252809|GDF15 ENSG00000130513|ENST00000252809|GDF15 ENSG00000130513|ENST00000252809|GDF15 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 357.88049 1070.61964 1.8178 0.00065054 0.6771 0.00024232 2.4949 0.00089287 357.8807691050159 12.454 0.073212 12.761 12.72 12.794 0.30727 -0.15316 2.2401E-05 NaN 35.612 8 3 3 NaN NaN NaN NaN 0 NaN NaN 0 5091000 3385 2595 2380 2384 0.08715638974490503 DLLTRLRAN 9 Unmodified _DLLTRLRAN_ 0 0 0 ENSG00000130513|ENST00000252809|GDF15 ENSG00000130513|ENST00000252809|GDF15 ENSG00000130513|ENST00000252809|GDF15 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 357.88049 1070.61964 2.8708 0.0010274 0.62351 0.00022314 3.4944 0.0012506 357.88072755147414 12.424 0.059254 13.067 13.033 13.092 0.64272 0.15316 -3.5137E-05 NaN 35.612 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 1611500 3386 2595 2380 2384 0.08715638974490503 DLMEKRRTL 9 Unmodified _DLMEKRRTL_ 0 0 0 ENSG00000174243|ENST00000308025|DDX23;ENST00000547135.5_1_12:49230675-49230801:-|nuORF ENSG00000174243|ENST00000308025|DDX23 ENSG00000174243|ENST00000308025|DDX23 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.8863525390625 3 387.885135 1160.63358 2.7095 0.001051 -0.28611 -0.00011098 2.4234 0.00094001 387.88513927157965 19.42 0.26329 19.718 19.585 19.849 0.29753 72 24 4 0 0 0 0.11155 2 8807 8807;8852 22.775 5.7264 1 4155900 3387 4969 2381 2385 3690;3691 3690 0.05968548411260599 DLMEKRRTL 9 Unmodified _DLMEKRRTL_ 0 0 0 ENSG00000174243|ENST00000308025|DDX23;ENST00000547135.5_1_12:49230675-49230801:-|nuORF ENSG00000174243|ENST00000308025|DDX23 ENSG00000174243|ENST00000308025|DDX23 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.88629150390625 3 387.885135 1160.63358 2.9245 0.0011344 -0.38322 -0.00014865 2.5413 0.00098574 387.8850544668578 19.027 0.32803 19.685 19.501 19.829 0.65829 73 28 3 0 0 0 0.15661 1 8595 8595 19.626 2.5774 1 2791800 3388 4969 2381 2385 3692 3692 0.05968548411260599 DLMLRHGW 8 Unmodified _DLMLRHGW_ 0 0 0 nc|ENSG00000168268|Q9H857-4|NT5DC2;nc|ENSG00000168268|Q9H857|NT5DC2;nc|ENSG00000168268|Q9H857-3|NT5DC2;ENSG00000168268|ENST00000422318|NT5DC2 nc|ENSG00000168268|Q9H857-4|NT5DC2 nc|ENSG00000168268|Q9H857-4|NT5DC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.2616577148438 2 514.260736 1026.50692 3.8096 0.0019591 -1.1694 -0.00060136 2.6402 0.0013578 514.2600559444911 30.6 0.35798 30.856 30.656 31.014 0.25614 37 23 2 0 0 0 0.70146 1 13993 13993 5.7604 3.1829 1 211000 3389 4616 2382 2386 3693 3693 -0.005273330232284934 DLMPDIAVG 9 Unmodified _DLMPDIAVG_ 0 0 0 ENSG00000011114|ENST00000334746|BTBD7;nc|ENSG00000011114|Q9P203-5|BTBD7 ENSG00000011114|ENST00000334746|BTBD7 ENSG00000011114|ENST00000334746|BTBD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 930.4656372070312 1 930.460095 929.452819 3.6787 0.0034229 0.36278 0.00033755 4.0415 0.0037604 930.4608037118849 82.322 0.57843 82.569 82.349 82.927 0.24722 64 33 3 0 0 0 0.062556 1 37874 37874 42.095 3.9434 1 1659200 3390 407 2383 2387 3694 3694 -0.01472969965448101 DLMRRQEEL 9 Unmodified _DLMRRQEEL_ 0 0 0 nc|ENSG00000116560|P23246-2|SFPQ;ENSG00000116560|ENST00000357214|SFPQ;ENST00000473525.1_1_X:70516758-70517827:+|nuORF;ENST00000471419.6_1_X:70511819-70517312:+|nuORF;nc|ENSG00000121390|Q8WXF1-2|PSPC1;ENSG00000121390|ENST00000338910|PSPC1;nc|ENSG00000147140|Q15233-2|NONO;ENSG00000147140|ENST00000276079|NONO nc|ENSG00000116560|P23246-2|SFPQ;nc|ENSG00000147140|Q15233-2|NONO nc|ENSG00000147140|Q15233-2|NONO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 397.2057189941406 3 397.204645 1188.59211 2.8169 0.0011189 -0.36549 -0.00014517 2.4514 0.00097372 397.20444939423965 30.55 0.19336 30.55 30.408 30.601 0 28 15 3 0 0 0 0.093314 1 13811 13811 32.037 9.3794 1 1138600 3391 2033;3549 2384 2388 3695 3695 0.005353676519462169 DLMRRQEEL 9 Unmodified _DLMRRQEEL_ 0 0 0 nc|ENSG00000116560|P23246-2|SFPQ;ENSG00000116560|ENST00000357214|SFPQ;ENST00000473525.1_1_X:70516758-70517827:+|nuORF;ENST00000471419.6_1_X:70511819-70517312:+|nuORF;nc|ENSG00000121390|Q8WXF1-2|PSPC1;ENSG00000121390|ENST00000338910|PSPC1;nc|ENSG00000147140|Q15233-2|NONO;ENSG00000147140|ENST00000276079|NONO nc|ENSG00000116560|P23246-2|SFPQ;nc|ENSG00000147140|Q15233-2|NONO nc|ENSG00000147140|Q15233-2|NONO MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 595.3048706054688 2 595.303329 1188.59211 NaN NaN NaN NaN NaN NaN NaN 30.513 1 30.513 30.013 31.013 0 0 0 0 0.2842 1 13785 13785 27.629 0 1 3392 2033;3549 2384 2388 3696 3696 0.005353676519462169 DLMRRQEEL 9 Unmodified _DLMRRQEEL_ 0 0 0 nc|ENSG00000116560|P23246-2|SFPQ;ENSG00000116560|ENST00000357214|SFPQ;ENST00000473525.1_1_X:70516758-70517827:+|nuORF;ENST00000471419.6_1_X:70511819-70517312:+|nuORF;nc|ENSG00000121390|Q8WXF1-2|PSPC1;ENSG00000121390|ENST00000338910|PSPC1;nc|ENSG00000147140|Q15233-2|NONO;ENSG00000147140|ENST00000276079|NONO nc|ENSG00000116560|P23246-2|SFPQ;nc|ENSG00000147140|Q15233-2|NONO nc|ENSG00000147140|Q15233-2|NONO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 595.3059692382812 2 595.303329 1188.59211 4.0368 0.0024031 -0.027548 -1.6399E-05 4.0093 0.0023867 595.3034404873785 30.289 0.28305 30.547 30.419 30.702 0.25804 39 14 3 0 0 0 0.078225 2 13754 13754;13812 38.176 3.7738 1 1838900 3393 2033;3549 2384 2388 3697;3698 3697 0.005353676519462169 DLMRRQEEL 9 Unmodified _DLMRRQEEL_ 0 0 0 nc|ENSG00000116560|P23246-2|SFPQ;ENSG00000116560|ENST00000357214|SFPQ;ENST00000473525.1_1_X:70516758-70517827:+|nuORF;ENST00000471419.6_1_X:70511819-70517312:+|nuORF;nc|ENSG00000121390|Q8WXF1-2|PSPC1;ENSG00000121390|ENST00000338910|PSPC1;nc|ENSG00000147140|Q15233-2|NONO;ENSG00000147140|ENST00000276079|NONO nc|ENSG00000116560|P23246-2|SFPQ;nc|ENSG00000147140|Q15233-2|NONO nc|ENSG00000147140|Q15233-2|NONO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.205810546875 3 397.204645 1188.59211 3.3073 0.0013137 -0.24095 -9.5708E-05 3.0664 0.001218 397.20462448251675 30.289 0.33671 30.547 30.39 30.726 0.25804 47 18 3 0 0 0 0.011692 1 13784 13784 64.927 32.889 1 2987100 3394 2033;3549 2384 2388 3699 3699 0.005353676519462169 DLMRRQEEL 9 Unmodified _DLMRRQEEL_ 0 0 0 nc|ENSG00000116560|P23246-2|SFPQ;ENSG00000116560|ENST00000357214|SFPQ;ENST00000473525.1_1_X:70516758-70517827:+|nuORF;ENST00000471419.6_1_X:70511819-70517312:+|nuORF;nc|ENSG00000121390|Q8WXF1-2|PSPC1;ENSG00000121390|ENST00000338910|PSPC1;nc|ENSG00000147140|Q15233-2|NONO;ENSG00000147140|ENST00000276079|NONO nc|ENSG00000116560|P23246-2|SFPQ;nc|ENSG00000147140|Q15233-2|NONO nc|ENSG00000147140|Q15233-2|NONO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 595.3063354492188 2 595.303329 1188.59211 3.9889 0.0023746 -0.99908 -0.00059476 2.9898 0.0017799 595.302700988311 30.01 0.25814 30.628 30.496 30.754 0.61737 54 28 2 0 0 0 0.013715 2 13770 13723;13770 76.825 29.076 1 3910400 3395 2033;3549 2384 2388 3700;3701 3701 0.005353676519462169 DLMRRQEEL 9 Unmodified _DLMRRQEEL_ 0 0 0 nc|ENSG00000116560|P23246-2|SFPQ;ENSG00000116560|ENST00000357214|SFPQ;ENST00000473525.1_1_X:70516758-70517827:+|nuORF;ENST00000471419.6_1_X:70511819-70517312:+|nuORF;nc|ENSG00000121390|Q8WXF1-2|PSPC1;ENSG00000121390|ENST00000338910|PSPC1;nc|ENSG00000147140|Q15233-2|NONO;ENSG00000147140|ENST00000276079|NONO nc|ENSG00000116560|P23246-2|SFPQ;nc|ENSG00000147140|Q15233-2|NONO nc|ENSG00000147140|Q15233-2|NONO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.20562744140625 3 397.204645 1188.59211 2.9231 0.0011611 -0.93639 -0.00037194 1.9867 0.00078913 397.2043953707489 29.995 0.28048 30.612 30.473 30.754 0.61737 77 30 3 0 0 0 0.021401 2 13749 13749;13791 61.09 32.595 1 3291300 3396 2033;3549 2384 2388 3702;3703 3702 0.005353676519462169 DLMSKKIHL 9 Unmodified _DLMSKKIHL_ 0 0 0 nc|ENSG00000133706|Q9P2J5-2|LARS1;ENSG00000133706|ENST00000394434|LARS1;nc|ENSG00000133706|Q9P2J5-3|LARS1 nc|ENSG00000133706|Q9P2J5-2|LARS1 nc|ENSG00000133706|Q9P2J5-2|LARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.2115478515625 3 362.21096 1083.61105 2.7619 0.0010004 -0.78044 -0.00028268 1.9814 0.00071769 362.2105346149917 37.454 0.31483 37.714 37.541 37.856 0.26083 29 9 4 0 0 0 0.079031 2 17048 17048;17106 34.932 16.559 1 1357100 3397 2768 2385 2389 3704;3705 3704 0.07258949013657912 DLMSKKIHL 9 Unmodified _DLMSKKIHL_ 0 0 0 nc|ENSG00000133706|Q9P2J5-2|LARS1;ENSG00000133706|ENST00000394434|LARS1;nc|ENSG00000133706|Q9P2J5-3|LARS1 nc|ENSG00000133706|Q9P2J5-2|LARS1 nc|ENSG00000133706|Q9P2J5-2|LARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.2117919921875 3 362.21096 1083.61105 2.6128 0.00094637 -0.24908 -9.0221E-05 2.3637 0.00085615 362.21075041756643 36.793 0.38474 37.423 37.214 37.598 0.62999 46 16 4 0 0 0 0.052704 1 16837 16837 41.956 29.715 1 852190 3398 2768 2385 2389 3706 3706 0.07258949013657912 DLMSKKIHL 9 Unmodified _DLMSKKIHL_ 0 0 0 nc|ENSG00000133706|Q9P2J5-2|LARS1;ENSG00000133706|ENST00000394434|LARS1;nc|ENSG00000133706|Q9P2J5-3|LARS1 nc|ENSG00000133706|Q9P2J5-2|LARS1 nc|ENSG00000133706|Q9P2J5-2|LARS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 362.21096 1083.61105 2.7172 0.00098421 -0.31995 -0.00011589 2.3973 0.00086832 362.2104798548305 37.612 0.20922 37.612 37.509 37.718 0 0.10078 9.6896E-05 NaN 41.956 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 365270 3399 2768 2385 2389 0.07258949013657912 DLMSKKIHL 9 Unmodified _DLMSKKIHL_ 0 0 0 nc|ENSG00000133706|Q9P2J5-2|LARS1;ENSG00000133706|ENST00000394434|LARS1;nc|ENSG00000133706|Q9P2J5-3|LARS1 nc|ENSG00000133706|Q9P2J5-2|LARS1 nc|ENSG00000133706|Q9P2J5-2|LARS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 362.21096 1083.61105 2.4262 0.00087879 -0.18109 -6.5592E-05 2.2451 0.00081319 362.210888384796 36.504 0.27316 37.297 37.149 37.423 0.79342 -0.21453 0.00024778 NaN 41.956 28 13 3 NaN NaN NaN NaN 0 NaN NaN 0 238990 3400 2768 2385 2389 0.07258949013657912 DLNEKARAL 9 Unmodified _DLNEKARAL_ 0 0 0 ENSG00000114209|ENST00000392750|PDCD10 ENSG00000114209|ENST00000392750|PDCD10 ENSG00000114209|ENST00000392750|PDCD10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 343.8623352050781 3 343.861096 1028.56146 NaN NaN NaN NaN NaN NaN NaN 22.528 1 22.528 22.028 23.028 0 0 0 0 0.11997 1 10101 10101 34.932 19.684 1 3401 1892 2386 2390 3707 3707 0.04831957329179204 DLNKRVQDL 9 Unmodified _DLNKRVQDL_ 0 0 0 ENSG00000084652|ENST00000373610|TXLNA ENSG00000084652|ENST00000373610|TXLNA ENSG00000084652|ENST00000373610|TXLNA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.8092041015625 2 550.806562 1099.59857 NaN NaN NaN NaN NaN NaN NaN 26.548 1 27.326 26.826 27.826 0.7787 0 0 0 0.08777 1 11925 11925 43.982 13.345 1 3402 958 2387 2391 3708 3708 0.052756288749378655 DLNKRVQDL 9 Unmodified _DLNKRVQDL_ 0 0 0 ENSG00000084652|ENST00000373610|TXLNA ENSG00000084652|ENST00000373610|TXLNA ENSG00000084652|ENST00000373610|TXLNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.8086547851562 2 550.806562 1099.59857 3.4852 0.0019197 0.16161 8.9014E-05 3.6468 0.0020087 550.8068072202119 27.372 0.25021 27.634 27.496 27.746 0.26245 55 24 3 0 0 0 0.0084842 2 12463 12418;12463 84.522 33.615 1 1050000 3403 958 2387 2391 3709;3710 3710 0.052756288749378655 DLNKRVQDL 9 Unmodified _DLNKRVQDL_ 0 0 0 ENSG00000084652|ENST00000373610|TXLNA ENSG00000084652|ENST00000373610|TXLNA ENSG00000084652|ENST00000373610|TXLNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.8088989257812 2 550.806562 1099.59857 3.4156 0.0018813 0.29067 0.0001601 3.7062 0.0020414 550.8067313213807 26.952 0.29684 27.574 27.429 27.726 0.62179 52 22 3 0 0 0 0.0066378 3 12371 12327;12371;12416 88.364 36.734 1 936700 3404 958 2387 2391 3711;3712;3713 3712 0.052756288749378655 DLNRKEVL 8 Unmodified _DLNRKEVL_ 0 0 0 nc|ENSG00000155363|Q9HCE1-2|MOV10;ENST00000468624.5_1_1:113217534-113241292:+|nuORF;ENST00000496577.5_1_1:113231344-113241292:+|nuORF;ENSG00000155363|ENST00000369645|MOV10 nc|ENSG00000155363|Q9HCE1-2|MOV10 nc|ENSG00000155363|Q9HCE1-2|MOV10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.7871398925781 2 493.785099 985.555644 NaN NaN NaN NaN NaN NaN NaN 23.187 1 23.828 23.328 24.328 0.64051 0 0 0 0.21429 1 10578 10578 70.332 2.9881 1 3405 3861 2388 2392 3714 3714 0.06228858817530636 DLNRMYMFNLQ 11 Unmodified _DLNRMYMFNLQ_ 0 0 0 REV__ENST00000515578.5_1_4:420284-429666:-|nuORF REV__ENST00000515578.5_1_4:420284-429666:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 722.7316284179688 2 722.839222 1443.66389 NaN NaN NaN NaN NaN NaN NaN 105.81 1 105.86 105.36 106.36 0.04837 0 0 0 1.0061 1 57261 57261 2.7352 0 1 + 3406 17019 2389 2393 3715 3715 -0.04019460985864498 DLNSSCGSNS 10 Unmodified _DLNSSCGSNS_ 0 0 0 nc|ENSG00000100485|Q07890-2|SOS2;ENSG00000100485|ENST00000216373|SOS2 nc|ENSG00000100485|Q07890-2|SOS2 nc|ENSG00000100485|Q07890-2|SOS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.19097900390625 2 492.190371 982.366188 3.2662 0.0016076 -1.1384 -0.00056033 2.1278 0.0010473 492.189716838042 80.144 0.616 80.804 80.51 81.126 0.65998 122 40 4 0 0 0 0.90859 1 36864 36864 3.2813 0.70383 1 1751000 3407 1224 2390 2394 3716 3716 -0.12570001257961394 DLPAMEDAL 9 Oxidation (M) _DLPAM(Oxidation (M))EDAL_ DLPAM(1)EDAL DLPAM(44)EDAL 0 0 1 ENST00000441743.1_1_22:21622636-21623056:+|nuORF ENST00000441743.1_1_22:21622636-21623056:+|nuORF ENST00000441743.1_1_22:21622636-21623056:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.7279052734375 2 495.726058 989.437562 3.2745 0.0016233 0.32212 0.00015968 3.5967 0.001783 495.7262348119249 56.936 0.29868 57.604 57.436 57.735 0.66829 22 14 2 0 0 0 0.056465 1 26026 26026 44.407 8.3628 1 1218500 3408 7937 2391 2395 3717 3717 88 -0.05757881553313382 DLPEHAVL 8 Unmodified _DLPEHAVL_ 0 0 0 nc|ENSG00000153187|Q00839-2|HNRNPU;ENSG00000153187|ENST00000640218|HNRNPU nc|ENSG00000153187|Q00839-2|HNRNPU nc|ENSG00000153187|Q00839-2|HNRNPU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 447.2417907714844 2 447.239993 892.465432 2.6198 0.0011717 0.26045 0.00011649 2.8803 0.0012882 447.2400793161016 47.556 0.26655 47.556 47.385 47.652 0 35 16 3 0 0 0 0.03366 2 21738 21738;21798 74.396 24.727 1 3721700 3409 3776 2392 2396 3718;3719 3718 0.01489809489100935 DLPEHAVL 8 Unmodified _DLPEHAVL_ 0 0 0 nc|ENSG00000153187|Q00839-2|HNRNPU;ENSG00000153187|ENST00000640218|HNRNPU nc|ENSG00000153187|Q00839-2|HNRNPU nc|ENSG00000153187|Q00839-2|HNRNPU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 447.2408447265625 2 447.239993 892.465432 2.6784 0.0011979 -0.29909 -0.00013376 2.3794 0.0010641 447.2397883846004 46.536 0.34196 47.365 47.22 47.562 0.82915 51 29 2 0 0 0 0.03366 2 21189 21189;21233 74.396 24.727 1 8362300 3410 3776 2392 2396 3720;3721 3720 0.01489809489100935 DLPEHAVL 8 Unmodified _DLPEHAVL_ 0 0 0 nc|ENSG00000153187|Q00839-2|HNRNPU;ENSG00000153187|ENST00000640218|HNRNPU nc|ENSG00000153187|Q00839-2|HNRNPU nc|ENSG00000153187|Q00839-2|HNRNPU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 447.24151611328125 2 447.239993 892.465432 3.0542 0.001366 -0.01723 -7.7059E-06 3.037 0.0013582 447.2399540180445 47.323 0.55795 47.586 47.214 47.772 0.26363 65 21 4 0 0 0 0.021444 3 21567 21567;21617;21668 86.121 29.58 1 8869900 3411 3776 2392 2396 3722;3723;3724 3722 0.01489809489100935 DLPEHAVL 8 Unmodified _DLPEHAVL_ 0 0 0 nc|ENSG00000153187|Q00839-2|HNRNPU;ENSG00000153187|ENST00000640218|HNRNPU nc|ENSG00000153187|Q00839-2|HNRNPU nc|ENSG00000153187|Q00839-2|HNRNPU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 893.4776000976562 1 893.472709 892.465432 4.1253 0.0036858 -0.13802 -0.00012332 3.9872 0.0035625 893.473063342371 47.29 0.2267 47.553 47.466 47.692 0.26363 16 9 2 0 0 0 0.21011 1 21645 21645 42.095 17.421 1 543760 3412 3776 2392 2396 3725 3725 0.01489809489100935 DLPEHAVL 8 Unmodified _DLPEHAVL_ 0 0 0 nc|ENSG00000153187|Q00839-2|HNRNPU;ENSG00000153187|ENST00000640218|HNRNPU nc|ENSG00000153187|Q00839-2|HNRNPU nc|ENSG00000153187|Q00839-2|HNRNPU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 447.2410888671875 2 447.239993 892.465432 3.1888 0.0014262 -0.2634 -0.0001178 2.9254 0.0013084 447.2398724466495 46.715 0.44445 47.367 47.092 47.537 0.65219 41 14 4 0 0 0 0.021444 2 21382 21382;21435 86.121 32.546 1 8116000 3413 3776 2392 2396 3726;3727 3726 0.01489809489100935 DLPILAIHG 9 Unmodified _DLPILAIHG_ 0 0 0 ENST00000556558.1_1_14:69551426-69551618:+|nuORF ENST00000556558.1_1_14:69551426-69551618:+|nuORF ENST00000556558.1_1_14:69551426-69551618:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.2829284667969 2 474.779285 947.544017 3.1926 0.0015158 3.2377 0.0015372 6.4303 0.003053 474.78118621753913 42.886 0.15295 43.533 43.466 43.619 0.64693 10 7 2 0 0 0 0.11053 1 19663 19663 4.3292 0 1 273860 3414 8928 2393 2397 3728 3728 0.06814661794180665 DLPYDYDED 9 Unmodified _DLPYDYDED_ 0 0 0 REV__ENSG00000094975|ENST00000263688|SUCO REV__ENSG00000094975|ENST00000263688|SUCO MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 572.6541137695312 2 572.719484 1143.42441 NaN NaN NaN NaN NaN NaN NaN 80.292 1 80.612 80.112 81.112 0.31998 0 0 0 0.89683 1 39312 39312 4.3292 0.73274 1 + 3415 10755 2394 2398 3729 3729 -0.14156041131718666 DLQARITSL 9 Unmodified _DLQARITSL_ 0 0 0 ENSG00000067900|ENST00000399799|ROCK1 ENSG00000067900|ENST00000399799|ROCK1 ENSG00000067900|ENST00000399799|ROCK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.7928161621094 2 508.790381 1015.56621 NaN NaN NaN NaN NaN NaN NaN 54.391 1 55.057 54.557 55.557 0.6665 0 0 0 0.026993 1 24879 24879 61.09 15.39 1 3416 728 2395 2399 3730 3730 0.059048414719427456 DLQKKSEAL 9 Unmodified _DLQKKSEAL_ 0 0 0 ENSG00000102189|ENST00000322349|EEA1;EEA1|p.N1334Tfs*12|1|0.34|ENSG00000102189|chr12:92777556-92777556|T/-|frameshift_variant ENSG00000102189|ENST00000322349|EEA1 ENSG00000102189|ENST00000322349|EEA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.2891235351562 2 516.290214 1030.56587 NaN NaN NaN NaN NaN NaN NaN 14.132 1 14.78 14.28 15.28 0.6482 0 0 0 0.11654 1 6354 6354 38.615 4.5123 1 3417 286 2396 2400 3731 3731 0.051814217520814054 DLQQLPDIL 9 Unmodified _DLQQLPDIL_ 0 0 0 nc|ENSG00000136811|Q5BJF6-9|ODF2;nc|ENSG00000136811|Q5BJF6-8|ODF2;nc|ENSG00000136811|Q5BJF6-5|ODF2;nc|ENSG00000136811|Q5BJF6-6|ODF2;nc|ENSG00000136811|Q5BJF6-10|ODF2;nc|ENSG00000136811|Q5BJF6-7|ODF2;nc|ENSG00000136811|Q5BJF6-2|ODF2;nc|ENSG00000136811|Q5BJF6-3|ODF2;nc|ENSG00000136811|Q5BJF6-4|ODF2;nc|ENSG00000136811|Q5BJF6|ODF2;ENSG00000136811|ENST00000351030|ODF2 nc|ENSG00000136811|Q5BJF6-9|ODF2 nc|ENSG00000136811|Q5BJF6-9|ODF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.1982727050781 3 352.197485 1053.57063 2.8464 0.0010025 -0.37717 -0.00013284 2.4692 0.00086966 352.1974023811283 28.629 0.1053 28.629 28.585 28.691 0 13 8 2 0 0 0 0.94779 1 12922 12922 4.897 0.70751 1 168650 3418 2974 2397 2401 3732 3732 0.04598305894865007 DLQQLPDIL 9 Unmodified _DLQQLPDIL_ 0 0 0 nc|ENSG00000136811|Q5BJF6-9|ODF2;nc|ENSG00000136811|Q5BJF6-8|ODF2;nc|ENSG00000136811|Q5BJF6-5|ODF2;nc|ENSG00000136811|Q5BJF6-6|ODF2;nc|ENSG00000136811|Q5BJF6-10|ODF2;nc|ENSG00000136811|Q5BJF6-7|ODF2;nc|ENSG00000136811|Q5BJF6-2|ODF2;nc|ENSG00000136811|Q5BJF6-3|ODF2;nc|ENSG00000136811|Q5BJF6-4|ODF2;nc|ENSG00000136811|Q5BJF6|ODF2;ENSG00000136811|ENST00000351030|ODF2 nc|ENSG00000136811|Q5BJF6-9|ODF2 nc|ENSG00000136811|Q5BJF6-9|ODF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.19830322265625 3 352.197485 1053.57063 2.4987 0.00088003 -0.053198 -1.8736E-05 2.4455 0.0008613 352.1974677528221 28.636 0.15599 28.896 28.799 28.955 0.2602 21 12 2 0 0 0 0.94779 1 13035 13035 4.897 1.3005 1 316470 3419 2974 2397 2401 3733 3733 0.04598305894865007 DLQSKLRLA 9 Unmodified _DLQSKLRLA_ 0 0 0 nc|ENSG00000113522|Q92878-3|RAD50;ENSG00000113522|ENST00000378823|RAD50;nc|ENSG00000113522|Q92878-2|RAD50;ENST00000496204.1_1_5:131931266-131935763:+|nuORF nc|ENSG00000113522|Q92878-3|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.5578918457031 3 348.545108 1042.61349 NaN NaN NaN NaN NaN NaN NaN 30.982 1 31.238 30.738 31.738 0.25614 0 0 0 0.45908 1 14101 14101 19.362 4.1135 1 3420 1858 2398 2402 3734 3734 0.09389120742957857 DLQTRIMEL 9 Unmodified _DLQTRIMEL_ 0 0 0 nc|ENSG00000135052|Q8NBJ4-2|GOLM1;ENSG00000135052|ENST00000388712|GOLM1 nc|ENSG00000135052|Q8NBJ4-2|GOLM1 nc|ENSG00000135052|Q8NBJ4-2|GOLM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.7984619140625 2 559.797349 1117.58014 3.7887 0.0021209 -0.5385 -0.00030145 3.2502 0.0018194 559.7971006290933 67.465 0.31247 67.715 67.544 67.856 0.2501 31 16 3 0 0 0 0.015631 2 30884 30884;30946 74.2 22.57 1 999730 3421 2843 2399 2403 3735;3736 3735 0.02605750908742266 DLQTRIMEL 9 Unmodified _DLQTRIMEL_ 0 0 0 nc|ENSG00000135052|Q8NBJ4-2|GOLM1;ENSG00000135052|ENST00000388712|GOLM1 nc|ENSG00000135052|Q8NBJ4-2|GOLM1 nc|ENSG00000135052|Q8NBJ4-2|GOLM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.7988891601562 2 559.797349 1117.58014 3.55 0.0019873 -2.2965 -0.0012856 1.2535 0.00070168 559.7957973499348 66.852 0.4097 67.508 67.368 67.778 0.65672 38 23 2 0 0 0 0.010904 1 30655 30655 80.676 16.716 1 846980 3422 2843 2399 2403 3737 3737 0.02605750908742266 DLRAKAVEL 9 Unmodified _DLRAKAVEL_ 0 0 0 ENST00000443199.6_1_17:73623504-73629591:-|nuORF;nc|ENSG00000108469|O94762-4|RECQL5;ENSG00000108469|ENST00000317905|RECQL5 ENST00000443199.6_1_17:73623504-73629591:-|nuORF ENST00000443199.6_1_17:73623504-73629591:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.8023986816406 2 507.800749 1013.58694 3.3955 0.0017242 0.013463 6.8366E-06 3.409 0.0017311 507.8016293829539 36.54 0.30865 37.169 37.046 37.354 0.62999 17 12 2 0 0 0 0.21008 1 16732 16732 22.736 4.6013 1 139130 3423 7952 2400 2404 3738 3738 0.08069431851606623 DLRAKAVEL 9 Unmodified _DLRAKAVEL_ 0 0 0 ENST00000443199.6_1_17:73623504-73629591:-|nuORF;nc|ENSG00000108469|O94762-4|RECQL5;ENSG00000108469|ENST00000317905|RECQL5 ENST00000443199.6_1_17:73623504-73629591:-|nuORF ENST00000443199.6_1_17:73623504-73629591:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 507.800749 1013.58694 3.4174 0.0017354 -0.70549 -0.00035825 2.7119 0.0013771 507.80071166788787 37.264 0.15805 37.524 37.383 37.541 0.26083 0.17744 -0.00026368 NaN 22.736 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 173440 3424 7952 2400 2404 0.08069431851606623 DLRCWSSPL 9 Unmodified _DLRCWSSPL_ 0 0 0 ENST00000379440.8_2_20:4680762-4680822:+|nuORF ENST00000379440.8_2_20:4680762-4680822:+|nuORF ENST00000379440.8_2_20:4680762-4680822:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.3006591796875 2 538.763309 1075.51206 3.2915 0.0017733 -1.8037 -0.00097176 1.4878 0.00080156 538.7627047466469 22.097 0.062925 22.097 22.048 22.111 0 5 3 2 0 0 0 0.11288 1 9904 9904 2.0598 0 1 82876 3425 7450 2401 2405 3739 3739 -0.02267073951270504 DLREKLVTD 9 Unmodified _DLREKLVTD_ 0 0 0 REV__THOC2|p.K1449Tfs*6|1|0.35|ENSG00000125676|chrX:123614155-123614156|-/TGGACAGTGG|frameshift_variant REV__THOC2|p.K1449Tfs*6|1|0.35|ENSG00000125676|chrX:123614155-123614156|-/TGGACAGTGG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.53741455078125 3 363.536389 1087.58734 2.7213 0.00098928 0.026721 9.7141E-06 2.748 0.00099899 363.5364491369559 36.974 0.54319 37.231 36.963 37.506 0.25768 60 17 5 0 0 0 0.10277 1 16903 16903 32.037 4.8142 1 20115000 + 3426 11690 2402 2406 3740 3740 0.04704806780819126 DLRERLESA 9 Unmodified _DLRERLESA_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.7899169921875 2 544.78837 1087.56219 3.4974 0.0019053 0.11812 6.4353E-05 3.6155 0.0019697 544.7882542443749 34.058 0.31321 34.311 34.027 34.34 0.25389 24 14 2 0 0 0 0.29523 1 15457 15457 17.113 3.2068 1 551410 3427 1886 2403 2407 3741 3741 0.021907519782416784 DLRERLESA 9 Unmodified _DLRERLESA_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.791015625 2 544.78837 1087.56219 3.3551 0.0018278 -0.13327 -7.2606E-05 3.2218 0.0017552 544.7883665595526 33.473 0.38638 34.093 33.862 34.249 0.62031 26 15 2 0 0 0 0.72052 1 15360 15360 8.7454 4.4162 1 578400 3428 1886 2403 2407 3742 3742 0.021907519782416784 DLRFVRLPV 9 Unmodified _DLRFVRLPV_ 0 0 0 nc|ENSG00000159403|P00736|C1R;ENSG00000159403|ENST00000647956|C1R nc|ENSG00000159403|P00736|C1R nc|ENSG00000159403|P00736|C1R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.858642578125 2 557.840208 1113.66586 NaN NaN NaN NaN NaN NaN NaN 86.576 1 86.606 86.106 87.106 0.030289 0 0 0 0.90431 1 43602 43602 4.3292 2.0265 1 3429 4022 2404 2408 3743 3743 0.1135770387654702 DLRGRTAL 8 Unmodified _DLRGRTAL_ 0 0 0 ENSG00000139645|ENST00000267116|ANKRD52 ENSG00000139645|ENST00000267116|ANKRD52 ENSG00000139645|ENST00000267116|ANKRD52 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.2655944824219 2 451.264333 900.514114 2.9272 0.001321 0.15839 7.1474E-05 3.0856 0.0013924 451.26439340226426 21.859 0.28257 21.859 21.72 22.002 0 59 23 3 0 0 0 0.4188 1 9804 9804 26.884 3.7352 1 761910 3430 3159 2405 2409 3744 3744 0.05987722848840349 DLRGRTAL 8 Unmodified _DLRGRTAL_ 0 0 0 ENSG00000139645|ENST00000267116|ANKRD52 ENSG00000139645|ENST00000267116|ANKRD52 ENSG00000139645|ENST00000267116|ANKRD52 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.2654724121094 2 451.264333 900.514114 NaN NaN NaN NaN NaN NaN NaN 20.966 1 21.252 20.752 21.752 0.28662 0 0 0 0.33143 1 9511 9511 34.102 3.8776 1 3431 3159 2405 2409 3745 3745 0.05987722848840349 DLRGRTAL 8 Unmodified _DLRGRTAL_ 0 0 0 ENSG00000139645|ENST00000267116|ANKRD52 ENSG00000139645|ENST00000267116|ANKRD52 ENSG00000139645|ENST00000267116|ANKRD52 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.2660217285156 2 451.264333 900.514114 3.1686 0.0014299 0.12929 5.8342E-05 3.2979 0.0014882 451.2643558791844 20.913 0.2609 21.566 21.377 21.638 0.65346 46 17 3 0 0 0 0.26626 1 9494 9494 37.974 11.09 1 1403600 3432 3159 2405 2409 3746 3746 0.05987722848840349 DLRIKSQEL 9 Unmodified _DLRIKSQEL_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 551.3197631835938 2 551.316763 1100.61897 3.5145 0.0019376 0.11556 6.371E-05 3.6301 0.0020013 551.3166678230867 35.081 0.1797 35.336 35.229 35.408 0.25524 14 9 2 0 0 0 0.0084842 1 15978 15978 84.522 24.448 1 895930 3433 282 2406 2410 3747 3747 0.07268799534767822 DLRIKSQEL 9 Unmodified _DLRIKSQEL_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.3192138671875 2 551.316763 1100.61897 3.5032 0.0019314 0.11721 6.4623E-05 3.6204 0.001996 551.3171810152113 34.676 0.18726 35.298 35.141 35.328 0.62294 12 9 2 0 0 0 0.031228 1 15871 15871 55.235 15.285 1 818450 3434 282 2406 2410 3748 3748 0.07268799534767822 DLRKKAESF 9 Unmodified _DLRKKAESF_ 0 0 0 nc|ENSG00000187164|A0MZ66-2|SHTN1;nc|ENSG00000187164|A0MZ66-8|SHTN1;nc|ENSG00000187164|A0MZ66-4|SHTN1;nc|ENSG00000187164|A0MZ66-5|SHTN1;nc|ENSG00000187164|A0MZ66-6|SHTN1;ENSG00000187164|ENST00000355371|SHTN1;nc|ENSG00000187164|A0MZ66-3|SHTN1 nc|ENSG00000187164|A0MZ66-2|SHTN1 nc|ENSG00000187164|A0MZ66-2|SHTN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.20599365234375 3 365.204862 1092.59276 2.4482 0.0008941 0.55974 0.00020442 3.0079 0.0010985 365.20505715239244 17.868 0.34134 18.17 17.981 18.322 0.30159 85 30 4 0 0 0 0.091193 2 8100 8059;8100 35.612 21.207 1 947960 3435 5605 2407 2411 3749;3750 3750 0.050165303632638825 DLRKKAESF 9 Unmodified _DLRKKAESF_ 0 0 0 nc|ENSG00000187164|A0MZ66-2|SHTN1;nc|ENSG00000187164|A0MZ66-8|SHTN1;nc|ENSG00000187164|A0MZ66-4|SHTN1;nc|ENSG00000187164|A0MZ66-5|SHTN1;nc|ENSG00000187164|A0MZ66-6|SHTN1;ENSG00000187164|ENST00000355371|SHTN1;nc|ENSG00000187164|A0MZ66-3|SHTN1 nc|ENSG00000187164|A0MZ66-2|SHTN1 nc|ENSG00000187164|A0MZ66-2|SHTN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.2055358886719 3 365.204862 1092.59276 2.5919 0.00094658 0.10521 3.8422E-05 2.6971 0.000985 365.20486698602383 17.69 0.23293 18.351 18.212 18.445 0.66072 63 33 3 0 0 0 0.02631 2 7977 7934;7977 63.227 41.637 1 1467400 3436 5605 2407 2411 3751;3752 3752 0.050165303632638825 DLRKKLFRI 9 Unmodified _DLRKKLFRI_ 0 0 0 ENSG00000165733|ENST00000374518|BMS1 ENSG00000165733|ENST00000374518|BMS1 ENSG00000165733|ENST00000374518|BMS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 396.92498779296875 3 396.92403 1187.75026 NaN NaN NaN NaN NaN NaN NaN 36.073 1 36.331 35.831 36.831 0.25768 0 0 0 0.88922 1 16431 16431 6.1918 0 1 3437 4421 2408 2412 3753 3753 0.16389654693330158 DLRKKLFRI 9 Unmodified _DLRKKLFRI_ 0 0 0 ENSG00000165733|ENST00000374518|BMS1 ENSG00000165733|ENST00000374518|BMS1 ENSG00000165733|ENST00000374518|BMS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 396.9251403808594 3 396.92403 1187.75026 2.97 0.0011789 -0.27462 -0.000109 2.6954 0.0010699 396.9240400057788 35.581 0.23108 36.207 36.065 36.296 0.62631 12 7 2 0 0 0 0.22744 1 16313 16313 21.59 14.113 1 246010 3438 4421 2408 2412 3754 3754 0.16389654693330158 DLRKVKKTRRK 11 Unmodified _DLRKVKKTRRK_ 0 0 0 ENSG00000175115|ENST00000320580|PACS1;nc|ENSG00000175115|Q6VY07-2|PACS1;ENST00000527224.1_1_11:65837957-65984297:+|nuORF ENSG00000175115|ENST00000320580|PACS1 ENSG00000175115|ENST00000320580|PACS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 715.005126953125 2 714.467701 1426.92085 3.3547 0.0023968 2.1229 0.0015167 5.4775 0.0039135 714.4704095652949 109 0.10887 109 108.93 109.04 0 6 5 2 0 0 0 0.91068 1 59647 59647 1.3295 0.9789 1 411370 3439 5015 2409 2413 3755 3755 0.22446565344762348 DLRLKHRTL 9 Unmodified _DLRLKHRTL_ 0 0 0 ENSG00000100065|ENST00000251973|CARD10;nc|ENSG00000100065|Q9BWT7-2|CARD10 ENSG00000100065|ENST00000251973|CARD10 ENSG00000100065|ENST00000251973|CARD10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 384.5730285644531 3 384.571768 1150.69348 2.7147 0.001044 0.32991 0.00012688 3.0446 0.0011709 384.571821843268 14.345 0.20472 14.345 14.25 14.455 0 31 11 4 0 0 0 0.015553 1 6308 6308 74.306 32.351 1 3287500 3440 1171 2410 2414 3756 3756 0.12415607136813378 DLRLKHRTL 9 Unmodified _DLRLKHRTL_ 0 0 0 ENSG00000100065|ENST00000251973|CARD10;nc|ENSG00000100065|Q9BWT7-2|CARD10 ENSG00000100065|ENST00000251973|CARD10 ENSG00000100065|ENST00000251973|CARD10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 384.5719909667969 3 384.571768 1150.69348 2.3629 0.00090872 -0.64537 -0.00024819 1.7176 0.00066053 384.57145426587067 13.802 0.10265 14.045 13.984 14.087 0.24346 27 14 2 0 0 0 0.0053879 1 6032 6032 90.964 41.222 1 6618800 3441 1171 2410 2414 3757 3757 0.12415607136813378 DLRLKHRTL 9 Unmodified _DLRLKHRTL_ 0 0 0 ENSG00000100065|ENST00000251973|CARD10;nc|ENSG00000100065|Q9BWT7-2|CARD10 ENSG00000100065|ENST00000251973|CARD10 ENSG00000100065|ENST00000251973|CARD10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 384.57232666015625 3 384.571768 1150.69348 2.5788 0.00099174 -0.68615 -0.00026387 1.8927 0.00072787 384.57155201207723 14.039 0.075105 14.346 14.306 14.381 0.30727 23 12 3 0 0 0 0.0013997 1 6343 6343 112.95 61.458 1 16705000 3442 1171 2410 2414 3758 3758 0.12415607136813378 DLRLKHRTL 9 Unmodified _DLRLKHRTL_ 0 0 0 ENSG00000100065|ENST00000251973|CARD10;nc|ENSG00000100065|Q9BWT7-2|CARD10 ENSG00000100065|ENST00000251973|CARD10 ENSG00000100065|ENST00000251973|CARD10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 576.3563232421875 2 576.354014 1150.69348 3.8127 0.0021975 0.3624 0.00020887 4.1751 0.0024064 576.8558057721777 13.342 0.2325 13.984 13.847 14.08 0.64272 24 17 2 0 0 0 1.0252 1 5978 5978 2.9952 2.5369 1 661750 3443 1171 2410 2414 3759 3759 0.12415607136813378 DLRLKHRTL 9 Unmodified _DLRLKHRTL_ 0 0 0 ENSG00000100065|ENST00000251973|CARD10;nc|ENSG00000100065|Q9BWT7-2|CARD10 ENSG00000100065|ENST00000251973|CARD10 ENSG00000100065|ENST00000251973|CARD10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 384.57293701171875 3 384.571768 1150.69348 2.8865 0.0011101 0.31495 0.00012112 3.2014 0.0012312 384.571787851713 13.318 0.33302 13.961 13.791 14.124 0.64272 67 25 3 0 0 0 0.0096134 1 5995 5995 82.445 21.546 1 3892800 3444 1171 2410 2414 3760 3760 0.12415607136813378 DLRLKHRTL 9 Unmodified _DLRLKHRTL_ 0 0 0 ENSG00000100065|ENST00000251973|CARD10;nc|ENSG00000100065|Q9BWT7-2|CARD10 ENSG00000100065|ENST00000251973|CARD10 ENSG00000100065|ENST00000251973|CARD10 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 576.354014 1150.69348 3.6484 0.0021028 0.099096 5.7114E-05 3.7475 0.0021599 576.3544483099366 14.332 0.11359 14.332 14.279 14.392 0 0.17404 -0.00026632 NaN 2.9952 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 169380 3445 1171 2410 2414 0.12415607136813378 DLRLKVSEM 9 Unmodified _DLRLKVSEM_ 0 0 0 nc|ENSG00000110841|Q86W92-4|PPFIBP1;ENSG00000110841|ENST00000228425|PPFIBP1;nc|ENSG00000110841|Q86W92|PPFIBP1;nc|ENSG00000110841|Q86W92-3|PPFIBP1;ENST00000534917.1_1_12:27807636-27809701:+|nuORF nc|ENSG00000110841|Q86W92-4|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.800048828125 2 545.799891 1089.58523 3.4564 0.0018865 -1.0854 -0.00059242 2.371 0.0012941 545.7993541098657 45.65 0.22295 45.917 45.803 46.026 0.26768 13 8 2 0 0 0 0.019184 1 20887 20887 69.338 46.602 1 864330 3446 1731 2411 2415 3761 3761 0.044020547713671476 DLRLKVSEM 9 Unmodified _DLRLKVSEM_ 0 0 0 nc|ENSG00000110841|Q86W92-4|PPFIBP1;ENSG00000110841|ENST00000228425|PPFIBP1;nc|ENSG00000110841|Q86W92|PPFIBP1;nc|ENSG00000110841|Q86W92-3|PPFIBP1;ENST00000534917.1_1_12:27807636-27809701:+|nuORF nc|ENSG00000110841|Q86W92-4|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.8024291992188 2 545.799891 1089.58523 3.7237 0.0020324 0.28866 0.00015755 4.0124 0.0021899 545.8001956633846 45.027 0.21404 45.677 45.566 45.78 0.64998 13 7 2 0 0 0 0.016363 1 20623 20623 73.196 49.406 1 833950 3447 1731 2411 2415 3762 3762 0.044020547713671476 DLRQKLEEL 9 Unmodified _DLRQKLEEL_ 0 0 0 nc|ENSG00000151718|Q6AWC2-4|WWC2;ENSG00000151718|ENST00000403733|WWC2;nc|ENSG00000151718|Q6AWC2-6|WWC2;nc|ENSG00000151718|Q6AWC2-7|WWC2;nc|ENSG00000151718|Q6AWC2-3|WWC2;nc|ENSG00000151718|Q6AWC2-2|WWC2 nc|ENSG00000151718|Q6AWC2-4|WWC2 nc|ENSG00000151718|Q6AWC2-4|WWC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.3208618164062 2 572.322045 1142.62954 3.3716 0.0019296 0.25261 0.00014457 3.6242 0.0020742 572.3221922593949 53.914 0.40493 54.179 53.907 54.312 0.26462 32 15 3 0 0 0 0.04013 1 24657 24657 51.415 11.466 1 532770 3448 3727 2412 2416 3763 3763 0.06392782189186619 DLRQKLEEL 9 Unmodified _DLRQKLEEL_ 0 0 0 nc|ENSG00000151718|Q6AWC2-4|WWC2;ENSG00000151718|ENST00000403733|WWC2;nc|ENSG00000151718|Q6AWC2-6|WWC2;nc|ENSG00000151718|Q6AWC2-7|WWC2;nc|ENSG00000151718|Q6AWC2-3|WWC2;nc|ENSG00000151718|Q6AWC2-2|WWC2 nc|ENSG00000151718|Q6AWC2-4|WWC2 nc|ENSG00000151718|Q6AWC2-4|WWC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 572.3220825195312 2 572.322045 1142.62954 3.4809 0.0019922 0.25909 0.00014828 3.74 0.0021405 572.3222406968541 53.379 0.3695 54.043 53.762 54.132 0.6644 22 14 2 0 0 0 0.015631 1 24403 24403 74.2 18.023 1 700810 3449 3727 2412 2416 3764 3764 0.06392782189186619 DLRQKLEEL 9 Unmodified _DLRQKLEEL_ 0 0 0 nc|ENSG00000151718|Q6AWC2-4|WWC2;ENSG00000151718|ENST00000403733|WWC2;nc|ENSG00000151718|Q6AWC2-6|WWC2;nc|ENSG00000151718|Q6AWC2-7|WWC2;nc|ENSG00000151718|Q6AWC2-3|WWC2;nc|ENSG00000151718|Q6AWC2-2|WWC2 nc|ENSG00000151718|Q6AWC2-4|WWC2 nc|ENSG00000151718|Q6AWC2-4|WWC2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 572.322045 1142.62954 3.976 0.0022756 1.2976 0.00074263 5.2736 0.0030182 572.8251766545359 53.947 0.06818 53.947 53.918 53.986 0 -0.10956 0.001117 NaN 74.2 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 395910 3450 3727 2412 2416 0.06392782189186619 DLRRILIRYYI 11 Unmodified _DLRRILIRYYI_ 0 0 0 ENSG00000135749|ENST00000258229|PCNX2;nc|ENSG00000135749|A6NKB5-4|PCNX2;nc|ENSG00000135749|A6NKB5-3|PCNX2 ENSG00000135749|ENST00000258229|PCNX2 ENSG00000135749|ENST00000258229|PCNX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 747.454345703125 2 747.451185 1492.88782 NaN NaN NaN NaN NaN NaN NaN 80.672 1 80.841 80.341 81.341 0.16862 0 0 0 1.0059 1 39550 39550 2.9952 1.5133 1 3451 2895 2413 2417 3765 3765 0.16108938502088677 DLRRKGLEF 9 Unmodified _DLRRKGLEF_ 0 0 0 ENST00000404284.6_1_22:35717823-35727385:+|nuORF;nc|ENSG00000100284|O60784-4|TOM1;ENST00000424387.5_1_22:35695884-35743199:+|nuORF;ENSG00000100284|ENST00000449058|TOM1;nc|ENSG00000100284|O60784-2|TOM1 ENST00000404284.6_1_22:35717823-35727385:+|nuORF ENST00000404284.6_1_22:35717823-35727385:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 378.5531005859375 3 378.552374 1132.63529 3.0381 0.0011501 -0.69295 -0.00026232 2.3451 0.00088775 378.55210011201035 30.007 0.25826 30.265 30.152 30.41 0.25804 33 27 2 0 0 0 0.59921 1 13632 13632 10.8 5.9025 1 706860 3452 1200 2414 2418 3766 3766 0.07427925491515452 DLRRKGLEF 9 Unmodified _DLRRKGLEF_ 0 0 0 ENST00000404284.6_1_22:35717823-35727385:+|nuORF;nc|ENSG00000100284|O60784-4|TOM1;ENST00000424387.5_1_22:35695884-35743199:+|nuORF;ENSG00000100284|ENST00000449058|TOM1;nc|ENSG00000100284|O60784-2|TOM1 ENST00000404284.6_1_22:35717823-35727385:+|nuORF ENST00000404284.6_1_22:35717823-35727385:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.5534362792969 3 378.552374 1132.63529 2.7234 0.001031 -0.44687 -0.00016917 2.2766 0.0008618 378.5522646247203 29.711 0.34536 30.329 30.102 30.447 0.61789 46 20 3 0 0 0 0.81759 2 13598 13598;13654 7.1017 2.9122 1 624990 3453 1200 2414 2418 3767;3768 3767 0.07427925491515452 DLRRKGLEF 9 Unmodified _DLRRKGLEF_ 0 0 0 ENST00000404284.6_1_22:35717823-35727385:+|nuORF;nc|ENSG00000100284|O60784-4|TOM1;ENST00000424387.5_1_22:35695884-35743199:+|nuORF;ENSG00000100284|ENST00000449058|TOM1;nc|ENSG00000100284|O60784-2|TOM1 ENST00000404284.6_1_22:35717823-35727385:+|nuORF ENST00000404284.6_1_22:35717823-35727385:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 378.552374 1132.63529 2.5525 0.00096627 -0.0027108 -1.0262E-06 2.5498 0.00096524 378.552316379042 29.172 0.28899 29.961 29.773 30.062 0.78921 -0.2235 0.00046742 NaN 10.8 40 22 3 NaN NaN NaN NaN 0 NaN NaN 0 190820 3454 1200 2414 2418 0.07427925491515452 DLRRKLYVL 9 Unmodified _DLRRKLYVL_ 0 0 0 nc|ENSG00000289758|Q92902-2|HPS1;nc|ENSG00000289758|Q92902-4|HPS1;ENSG00000107521|ENST00000361490|HPS1;ENST00000474873.5_1_10:100195027-100205113:-|nuORF;ENST00000467246.5_1_10:100191016-100205113:-|nuORF;nc|ENSG00000289758|Q92902-3|HPS1 nc|ENSG00000289758|Q92902-2|HPS1 nc|ENSG00000289758|Q92902-2|HPS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 392.5812683105469 3 392.580152 1174.71863 2.5806 0.0010131 0.069137 2.7142E-05 2.6498 0.0010402 392.5804380827364 43.055 0.19952 43.055 42.891 43.09 0 16 10 2 0 0 0 0.30351 1 19589 19589 16.566 7.0219 1 1300300 3455 1599 2415 2419 3769 3769 0.13825661939381462 DLRRKLYVL 9 Unmodified _DLRRKLYVL_ 0 0 0 nc|ENSG00000289758|Q92902-2|HPS1;nc|ENSG00000289758|Q92902-4|HPS1;ENSG00000107521|ENST00000361490|HPS1;ENST00000474873.5_1_10:100195027-100205113:-|nuORF;ENST00000467246.5_1_10:100191016-100205113:-|nuORF;nc|ENSG00000289758|Q92902-3|HPS1 nc|ENSG00000289758|Q92902-2|HPS1 nc|ENSG00000289758|Q92902-2|HPS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 392.5813293457031 3 392.580152 1174.71863 2.4838 0.00097509 0.53949 0.00021179 3.0233 0.0011869 392.58042675243286 41.979 0.20471 42.788 42.656 42.861 0.80855 20 12 2 0 0 0 0.22744 1 19042 19042 21.59 7.372 1 1310100 3456 1599 2415 2419 3770 3770 0.13825661939381462 DLRRKTEL 8 Unmodified _DLRRKTEL_ 0 0 0 GAS8|p.E368Dfs*7|1|0.29|ENSG00000141013|chr16:90040391-90040391|A/-|frameshift_variant;ENSG00000141013|ENST00000268699|GAS8;ENST00000565062.5_1_16:90097706-90103159:+|nuORF;ENST00000540721.5_1_16:90089090-90108732:+|nuORF;nc|ENSG00000141013|O95995-2|GAS8 GAS8|p.E368Dfs*7|1|0.29|ENSG00000141013|chr16:90040391-90040391|A/-|frameshift_variant GAS8|p.E368Dfs*7|1|0.29|ENSG00000141013|chr16:90040391-90040391|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 344.2052307128906 3 344.204974 1029.59309 2.5301 0.00087086 0.35571 0.00012244 2.8858 0.0009933 344.2049420866147 13.061 0.17302 13.061 12.981 13.154 0 20 8 3 0 0 0 0.4188 1 5701 5701 27.629 7.2143 1 989510 3457 3230 2416 2420 3771 3771 0.07947950083121214 DLRRKTEL 8 Unmodified _DLRRKTEL_ 0 0 0 GAS8|p.E368Dfs*7|1|0.29|ENSG00000141013|chr16:90040391-90040391|A/-|frameshift_variant;ENSG00000141013|ENST00000268699|GAS8;ENST00000565062.5_1_16:90097706-90103159:+|nuORF;ENST00000540721.5_1_16:90089090-90108732:+|nuORF;nc|ENSG00000141013|O95995-2|GAS8 GAS8|p.E368Dfs*7|1|0.29|ENSG00000141013|chr16:90040391-90040391|A/-|frameshift_variant GAS8|p.E368Dfs*7|1|0.29|ENSG00000141013|chr16:90040391-90040391|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 344.2049865722656 3 344.204974 1029.59309 1.9115 0.00065795 -0.034848 -1.1995E-05 1.8766 0.00064595 344.2048851453393 12.75 0.088026 13.011 12.948 13.036 0.26154 10 7 2 0 0 0 0.39589 1 5537 5537 36.127 14.59 1 1571600 3458 3230 2416 2420 3772 3772 0.07947950083121214 DLRRKTEL 8 Unmodified _DLRRKTEL_ 0 0 0 GAS8|p.E368Dfs*7|1|0.29|ENSG00000141013|chr16:90040391-90040391|A/-|frameshift_variant;ENSG00000141013|ENST00000268699|GAS8;ENST00000565062.5_1_16:90097706-90103159:+|nuORF;ENST00000540721.5_1_16:90089090-90108732:+|nuORF;nc|ENSG00000141013|O95995-2|GAS8 GAS8|p.E368Dfs*7|1|0.29|ENSG00000141013|chr16:90040391-90040391|A/-|frameshift_variant GAS8|p.E368Dfs*7|1|0.29|ENSG00000141013|chr16:90040391-90040391|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.20574951171875 3 344.204974 1029.59309 1.7999 0.00061954 0.57753 0.00019879 2.3774 0.00081833 344.2051262538708 12.698 0.15566 13.005 12.936 13.091 0.30727 11 4 3 0 0 0 0.51067 1 5738 5738 21.537 8.6644 1 2555200 3459 3230 2416 2420 3773 3773 0.07947950083121214 DLRRRIFF 8 Unmodified _DLRRRIFF_ 0 0 0 REV__ENSG00000119927|ENST00000348367|GPAM REV__ENSG00000119927|ENST00000348367|GPAM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.2238464355469 3 374.889209 1121.6458 2.9456 0.0011043 -0.25692 -9.6317E-05 2.6887 0.0010079 374.88905853507885 47.196 0.27663 47.46 47.28 47.556 0.26363 27 11 3 0 0 0 0.57648 1 21594 21594 15.847 0 1 695550 + 3460 11522 2417 2421 3774 3774 0.08983952936614514 DLRRRIFF 8 Unmodified _DLRRRIFF_ 0 0 0 REV__ENSG00000119927|ENST00000348367|GPAM REV__ENSG00000119927|ENST00000348367|GPAM MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 374.889209 1121.6458 2.9456 0.0011043 -0.25692 -9.6317E-05 2.6887 0.0010079 374.88905853507885 47.196 0.27663 47.46 47.28 47.556 0.26363 0.1085 0.00012494 NaN 15.847 27 11 3 NaN NaN NaN NaN 0 NaN NaN 0 695550 + 3461 11522 2417 2421 0.08983952936614514 DLRRRIFF 8 Unmodified _DLRRRIFF_ 0 0 0 REV__ENSG00000119927|ENST00000348367|GPAM REV__ENSG00000119927|ENST00000348367|GPAM MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 374.889209 1121.6458 2.7988 0.0010492 -0.45355 -0.00017003 2.3452 0.00087919 374.88904137886493 46.591 0.27832 47.243 47.092 47.371 0.65219 -0.1085 -9.6209E-05 NaN 15.847 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 763470 + 3462 11522 2417 2421 0.08983952936614514 DLRRRQVL 8 Unmodified _DLRRRQVL_ 0 0 0 ENST00000505306.5_1_17:48133647-48154208:+|nuORF;ENSG00000005884|ENST00000320031|ITGA3;nc|ENSG00000005884|P26006-1|ITGA3;ENST00000506401.6_1_17:48148218-48152910:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.5534973144531 3 352.552597 1054.63596 2.5516 0.00089956 0.357 0.00012586 2.9086 0.0010254 352.5527352887701 15.317 1.1789 15.317 14.929 16.108 0 410 142 4 0 0 0 0.23933 5 6797 6668;6753;6797;6883;6927 39.95 10.868 1 1982500 3463 335 2418 2422 3775;3776;3777;3778;3779 3777 0.11082764931234124 DLRRRQVL 8 Unmodified _DLRRRQVL_ 0 0 0 ENST00000505306.5_1_17:48133647-48154208:+|nuORF;ENSG00000005884|ENST00000320031|ITGA3;nc|ENSG00000005884|P26006-1|ITGA3;ENST00000506401.6_1_17:48148218-48152910:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 352.5535888671875 3 352.552597 1054.63596 2.3668 0.00083443 0.23132 8.1554E-05 2.5981 0.00091598 352.5527049981153 14.688 0.36945 14.914 14.759 15.128 0.22622 69 26 4 0 0 0 0.17473 2 6453 6453;6503 45.7 11.298 1 7303700 3464 335 2418 2422 3780;3781 3780 0.11082764931234124 DLRRRQVL 8 Unmodified _DLRRRQVL_ 0 0 0 ENST00000505306.5_1_17:48133647-48154208:+|nuORF;ENSG00000005884|ENST00000320031|ITGA3;nc|ENSG00000005884|P26006-1|ITGA3;ENST00000506401.6_1_17:48148218-48152910:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.5533752441406 3 352.552597 1054.63596 2.3139 0.00081576 0.00061657 2.1737E-07 2.3145 0.00081598 352.5526018914362 14.287 0.28237 14.594 14.515 14.798 0.3069 32 13 3 0 0 0 0.23933 1 6452 6452 39.95 7.6442 1 20922000 3465 335 2418 2422 3782 3782 0.11082764931234124 DLRRRQVL 8 Unmodified _DLRRRQVL_ 0 0 0 ENST00000505306.5_1_17:48133647-48154208:+|nuORF;ENSG00000005884|ENST00000320031|ITGA3;nc|ENSG00000005884|P26006-1|ITGA3;ENST00000506401.6_1_17:48148218-48152910:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.32763671875 2 528.325257 1054.63596 3.0139 0.0015923 0.2118 0.0001119 3.2257 0.0017042 528.3254614910262 14.272 0.12722 14.579 14.527 14.654 0.3069 9 6 2 0 0 0 0.58446 1 6459 6459 13.906 3.0821 1 1275000 3466 335 2418 2422 3783 3783 0.11082764931234124 DLRRRQVL 8 Unmodified _DLRRRQVL_ 0 0 0 ENST00000505306.5_1_17:48133647-48154208:+|nuORF;ENSG00000005884|ENST00000320031|ITGA3;nc|ENSG00000005884|P26006-1|ITGA3;ENST00000506401.6_1_17:48148218-48152910:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.5538330078125 3 352.552597 1054.63596 2.5532 0.00090013 0.367 0.00012939 2.9202 0.0010295 352.5527169912903 14.225 0.15549 14.874 14.799 14.955 0.64819 63 22 4 0 0 0 0.099011 2 6381 6381;6425 53.833 11.993 1 22599000 3467 335 2418 2422 3784;3785 3784 0.11082764931234124 DLRRRQVL 8 Unmodified _DLRRRQVL_ 0 0 0 ENST00000505306.5_1_17:48133647-48154208:+|nuORF;ENSG00000005884|ENST00000320031|ITGA3;nc|ENSG00000005884|P26006-1|ITGA3;ENST00000506401.6_1_17:48148218-48152910:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.82861328125 2 528.325257 1054.63596 3.368 0.0017794 0.046789 2.472E-05 3.4147 0.0018041 528.3253888135113 14.221 0.11106 14.869 14.808 14.919 0.6482 27 16 2 0 0 0 0.52627 1 6385 6385 18.146 5.1039 1 3548800 3468 335 2418 2422 3786 3786 0.11082764931234124 DLRRRQVL 8 Unmodified _DLRRRQVL_ 0 0 0 ENST00000505306.5_1_17:48133647-48154208:+|nuORF;ENSG00000005884|ENST00000320031|ITGA3;nc|ENSG00000005884|P26006-1|ITGA3;ENST00000506401.6_1_17:48148218-48152910:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 528.325257 1054.63596 3.0139 0.0015923 0.2118 0.0001119 3.2257 0.0017042 528.3254614910262 14.272 0.12722 14.579 14.527 14.654 0.3069 -0.14515 0.00010069 NaN 18.146 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 1275000 3469 335 2418 2422 0.11082764931234124 DLRRVRQI 8 Unmodified _DLRRVRQI_ 0 0 0 ENST00000594064.5_1_19:35769874-35770156:+|nuORF ENST00000594064.5_1_19:35769874-35770156:+|nuORF ENST00000594064.5_1_19:35769874-35770156:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.5535583496094 3 352.552597 1054.63596 2.5516 0.00089956 0.357 0.00012586 2.9086 0.0010254 352.5527352887701 15.317 1.1789 15.317 14.929 16.108 0 410 142 4 0 0 0 0.63902 2 6625 6625;7012 10.824 0 1 1982500 3470 9260 2419 2423 3787;3788 3787 0.11082764931234124 DLRSHSSF 8 Unmodified _DLRSHSSF_ 0 0 0 nc|ENSG00000119777|Q6NUQ4-2|TMEM214;ENSG00000119777|ENST00000238788|TMEM214 nc|ENSG00000119777|Q6NUQ4-2|TMEM214 nc|ENSG00000119777|Q6NUQ4-2|TMEM214 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.731689453125 2 474.730323 947.446094 3.2187 0.001528 -0.021507 -1.021E-05 3.1972 0.0015178 474.7304166157232 19.677 0.19792 20.335 20.237 20.435 0.65829 37 14 3 0 0 0 0.17473 1 8919 8919 45.7 1.2926 1 525600 3471 2167 2420 2424 3789 3789 -0.029731468017985208 DLRSHSSF 8 Unmodified _DLRSHSSF_ 0 0 0 nc|ENSG00000119777|Q6NUQ4-2|TMEM214;ENSG00000119777|ENST00000238788|TMEM214 nc|ENSG00000119777|Q6NUQ4-2|TMEM214 nc|ENSG00000119777|Q6NUQ4-2|TMEM214 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 474.730323 947.446094 3.0139 0.0014308 0.54005 0.00025638 3.5539 0.0016872 474.7306273621907 20.553 0.23383 20.553 20.448 20.681 0 0.10868 0.00023386 NaN 45.7 40 23 2 NaN NaN NaN NaN 0 NaN NaN 0 165620 3472 2167 2420 2424 -0.029731468017985208 DLRSLVRL 8 Unmodified _DLRSLVRL_ 0 0 0 REV__ENST00000502481.5_2_5:102456325-102456463:+|nuORF REV__ENST00000502481.5_2_5:102456325-102456463:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.3054504394531 2 486.303458 970.592364 3.4107 0.0016586 0.063629 3.0943E-05 3.4743 0.0016896 486.3035130834966 40.635 0.28732 41.276 41.165 41.452 0.64135 51 19 3 0 0 0 0.51067 1 18646 18646 20.454 0 1 3012600 + 3473 16889 2421 2425 3790 3790 0.10589155434104214 DLRTKGFSL 9 Unmodified _DLRTKGFSL_ 0 0 0 ENSG00000014216|ENST00000279247|CAPN1;ENST00000530567.1_1_11:64976762-64977505:+|nuORF ENSG00000014216|ENST00000279247|CAPN1 ENSG00000014216|ENST00000279247|CAPN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 518.794677734375 2 518.792924 1035.57129 3.5956 0.0018654 -0.45568 -0.0002364 3.1399 0.001629 518.792797819177 46.61 0.33653 46.876 46.644 46.98 0.26561 25 11 3 0 0 0 0.0019694 1 21294 21294 104.48 19.962 1 3232400 3474 435 2422 2426 3791 3791 0.05493145334571636 DLRTKGFSL 9 Unmodified _DLRTKGFSL_ 0 0 0 ENSG00000014216|ENST00000279247|CAPN1;ENST00000530567.1_1_11:64976762-64977505:+|nuORF ENSG00000014216|ENST00000279247|CAPN1 ENSG00000014216|ENST00000279247|CAPN1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.9764709472656 3 346.197708 1035.57129 2.6847 0.00092943 0.070909 2.4549E-05 2.7556 0.00095398 346.1975901895467 46.61 0.33654 46.876 46.675 47.011 0.26561 26 11 3 0 0 0 0.10399 1 21319 21319 5.0475 0 1 2454600 3475 435 2422 2426 3792 3792 0.05493145334571636 DLRTKGFSL 9 Unmodified _DLRTKGFSL_ 0 0 0 ENSG00000014216|ENST00000279247|CAPN1;ENST00000530567.1_1_11:64976762-64977505:+|nuORF ENSG00000014216|ENST00000279247|CAPN1 ENSG00000014216|ENST00000279247|CAPN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.7949829101562 2 518.792924 1035.57129 3.7081 0.0019237 -0.18989 -9.8514E-05 3.5182 0.0018252 518.7927997273351 45.998 0.36074 46.649 46.468 46.829 0.65104 29 10 4 0 0 0 0.0066378 1 21065 21065 88.364 27.274 1 2761800 3476 435 2422 2426 3793 3793 0.05493145334571636 DLRTKGFSL 9 Unmodified _DLRTKGFSL_ 0 0 0 ENSG00000014216|ENST00000279247|CAPN1;ENST00000530567.1_1_11:64976762-64977505:+|nuORF ENSG00000014216|ENST00000279247|CAPN1 ENSG00000014216|ENST00000279247|CAPN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 518.792924 1035.57129 3.0507 0.0015827 0.20714 0.00010746 3.2579 0.0016902 518.7929522840873 46.688 0.34074 46.688 46.502 46.842 0 0.026213 0.00029073 NaN 104.48 25 12 3 NaN NaN NaN NaN 0 NaN NaN 0 1350900 3477 435 2422 2426 0.05493145334571636 DLRTRVVL 8 Unmodified _DLRTRVVL_ 0 0 0 nc|ENSG00000169919|P08236-3|GUSB;GUSB|p.Q568Lfs*24|1|0.45|ENSG00000169919|chr7:65964403-65964409|TGGTACT/-|frameshift_variant;nc|ENSG00000169919|P08236-2|GUSB;ENSG00000169919|ENST00000304895|GUSB;ENST00000476486.5_1_7:65444492-65445384:-|nuORF nc|ENSG00000169919|P08236-3|GUSB nc|ENSG00000169919|P08236-3|GUSB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 486.3050231933594 2 486.303458 970.592364 NaN NaN NaN NaN NaN NaN NaN 41.502 1 41.502 41.002 42.002 0 0 0 0 0.27034 1 18872 18872 37.974 17.52 1 3478 4721 2423 2427 3794 3794 0.10589155434081476 DLRTRVVL 8 Unmodified _DLRTRVVL_ 0 0 0 nc|ENSG00000169919|P08236-3|GUSB;GUSB|p.Q568Lfs*24|1|0.45|ENSG00000169919|chr7:65964403-65964409|TGGTACT/-|frameshift_variant;nc|ENSG00000169919|P08236-2|GUSB;ENSG00000169919|ENST00000304895|GUSB;ENST00000476486.5_1_7:65444492-65445384:-|nuORF nc|ENSG00000169919|P08236-3|GUSB nc|ENSG00000169919|P08236-3|GUSB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.30523681640625 2 486.303458 970.592364 3.1272 0.0015208 0.0037954 1.8457E-06 3.131 0.0015226 486.3034604804743 40.566 0.15963 41.369 41.271 41.431 0.80351 18 11 2 0 0 0 0.13532 1 18383 18383 49.933 19.296 1 1265300 3479 4721 2423 2427 3795 3795 0.10589155434081476 DLRTRVVL 8 Unmodified _DLRTRVVL_ 0 0 0 nc|ENSG00000169919|P08236-3|GUSB;GUSB|p.Q568Lfs*24|1|0.45|ENSG00000169919|chr7:65964403-65964409|TGGTACT/-|frameshift_variant;nc|ENSG00000169919|P08236-2|GUSB;ENSG00000169919|ENST00000304895|GUSB;ENST00000476486.5_1_7:65444492-65445384:-|nuORF nc|ENSG00000169919|P08236-3|GUSB nc|ENSG00000169919|P08236-3|GUSB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.3052062988281 2 486.303458 970.592364 3.3467 0.0016275 -0.041965 -2.0408E-05 3.3048 0.0016071 486.3034519444868 41.26 0.21508 41.529 41.444 41.659 0.26904 36 17 3 0 0 0 0.099011 2 18768 18768;18813 53.833 19.431 1 2943500 3480 4721 2423 2427 3796;3797 3796 0.10589155434081476 DLRTRVVL 8 Unmodified _DLRTRVVL_ 0 0 0 nc|ENSG00000169919|P08236-3|GUSB;GUSB|p.Q568Lfs*24|1|0.45|ENSG00000169919|chr7:65964403-65964409|TGGTACT/-|frameshift_variant;nc|ENSG00000169919|P08236-2|GUSB;ENSG00000169919|ENST00000304895|GUSB;ENST00000476486.5_1_7:65444492-65445384:-|nuORF nc|ENSG00000169919|P08236-3|GUSB nc|ENSG00000169919|P08236-3|GUSB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.53900146484375 3 324.538064 970.592364 2.5868 0.00083952 -0.221 -7.1723E-05 2.3658 0.0007678 324.5379115816888 41.28 0.21434 41.549 41.413 41.627 0.26904 28 18 2 0 0 0 0.4188 1 18808 18808 21.537 11.463 1 2404300 3481 4721 2423 2427 3798 3798 0.10589155434081476 DLRTRVVL 8 Unmodified _DLRTRVVL_ 0 0 0 nc|ENSG00000169919|P08236-3|GUSB;GUSB|p.Q568Lfs*24|1|0.45|ENSG00000169919|chr7:65964403-65964409|TGGTACT/-|frameshift_variant;nc|ENSG00000169919|P08236-2|GUSB;ENSG00000169919|ENST00000304895|GUSB;ENST00000476486.5_1_7:65444492-65445384:-|nuORF nc|ENSG00000169919|P08236-3|GUSB nc|ENSG00000169919|P08236-3|GUSB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.80743408203125 2 486.303458 970.592364 3.4107 0.0016586 0.063629 3.0943E-05 3.4743 0.0016896 486.3035130834966 40.635 0.28732 41.276 41.165 41.452 0.64135 51 19 3 0 0 0 0.099011 2 18546 18546;18591 53.833 19.431 1 3012600 3482 4721 2423 2427 3799;3800 3799 0.10589155434081476 DLRTRVVL 8 Unmodified _DLRTRVVL_ 0 0 0 nc|ENSG00000169919|P08236-3|GUSB;GUSB|p.Q568Lfs*24|1|0.45|ENSG00000169919|chr7:65964403-65964409|TGGTACT/-|frameshift_variant;nc|ENSG00000169919|P08236-2|GUSB;ENSG00000169919|ENST00000304895|GUSB;ENST00000476486.5_1_7:65444492-65445384:-|nuORF nc|ENSG00000169919|P08236-3|GUSB nc|ENSG00000169919|P08236-3|GUSB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.5389099121094 3 324.538064 970.592364 2.4063 0.00078094 0.57573 0.00018685 2.982 0.00096778 324.53821379677584 40.636 0.26568 41.277 41.186 41.452 0.64135 32 17 2 0 0 0 0.45971 1 18599 18599 31.268 19.028 1 1321500 3483 4721 2423 2427 3801 3801 0.10589155434081476 DLRTRYTAL 9 Unmodified _DLRTRYTAL_ 0 0 0 nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-14|DST;DST|p.I5232Sfs*5|1|0.18|ENSG00000151914|chr6:56470139-56470139|T/-|frameshift_variant;ENSG00000151914|ENST00000680361|DST;DST|p.L2377Sfs*24|1|0.05|ENSG00000151914|chr6:56568573-56568574|-/TATCTCAAGAAATTACAAG|frameshift_variant;nc|ENSG00000151914|Q03001-8|DST;DST|p.V3868Mfs*36|1|0.21|ENSG00000151914|chr6:56515641-56515653|AGTTCTTCAGTAC/-|frameshift_variant;nc|ENSG00000151914|Q03001-9|DST;nc|ENSG00000151914|Q03001-3|DST;nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;ENST00000476350.1_1_1:39768622-39838291:+|nuORF nc|ENSG00000151914|Q03001|DST;nc|ENSG00000127603|Q9UPN3-4|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.8111572265625 2 554.809105 1107.60366 3.6317 0.0020149 -0.3092 -0.00017155 3.3225 0.0018434 554.8089305189438 37.656 0.31021 37.917 37.728 38.038 0.26083 23 9 3 0 0 0 0.136 1 17137 17137 27.629 6.0918 1 1135900 3484 2487;9690 2424 2428 3802 3802 0.05415932737537332 DLRTRYTAL 9 Unmodified _DLRTRYTAL_ 0 0 0 nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-14|DST;DST|p.I5232Sfs*5|1|0.18|ENSG00000151914|chr6:56470139-56470139|T/-|frameshift_variant;ENSG00000151914|ENST00000680361|DST;DST|p.L2377Sfs*24|1|0.05|ENSG00000151914|chr6:56568573-56568574|-/TATCTCAAGAAATTACAAG|frameshift_variant;nc|ENSG00000151914|Q03001-8|DST;DST|p.V3868Mfs*36|1|0.21|ENSG00000151914|chr6:56515641-56515653|AGTTCTTCAGTAC/-|frameshift_variant;nc|ENSG00000151914|Q03001-9|DST;nc|ENSG00000151914|Q03001-3|DST;nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;ENST00000476350.1_1_1:39768622-39838291:+|nuORF nc|ENSG00000151914|Q03001|DST;nc|ENSG00000127603|Q9UPN3-4|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.8120727539062 2 554.809105 1107.60366 3.5297 0.0019583 0.14855 8.2419E-05 3.6782 0.0020407 554.8090951190675 37.034 0.34846 37.664 37.491 37.839 0.62999 34 14 3 0 0 0 0.26277 1 16934 16934 19.257 3.4098 1 803580 3485 2487;9690 2424 2428 3803 3803 0.05415932737537332 DLRTRYTAL 9 Unmodified _DLRTRYTAL_ 0 0 0 nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-14|DST;DST|p.I5232Sfs*5|1|0.18|ENSG00000151914|chr6:56470139-56470139|T/-|frameshift_variant;ENSG00000151914|ENST00000680361|DST;DST|p.L2377Sfs*24|1|0.05|ENSG00000151914|chr6:56568573-56568574|-/TATCTCAAGAAATTACAAG|frameshift_variant;nc|ENSG00000151914|Q03001-8|DST;DST|p.V3868Mfs*36|1|0.21|ENSG00000151914|chr6:56515641-56515653|AGTTCTTCAGTAC/-|frameshift_variant;nc|ENSG00000151914|Q03001-9|DST;nc|ENSG00000151914|Q03001-3|DST;nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;ENST00000476350.1_1_1:39768622-39838291:+|nuORF nc|ENSG00000151914|Q03001|DST;nc|ENSG00000127603|Q9UPN3-4|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 554.809105 1107.60366 3.583 0.0019879 0.13753 7.6302E-05 3.7205 0.0020642 554.8088110225661 37.684 0.22129 37.684 37.563 37.784 0 -0.071171 0.00013359 NaN 27.629 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 454500 3486 2487;9690 2424 2428 0.05415932737537332 DLRTTSTL 8 Unmodified _DLRTTSTL_ 0 0 0 nc|ENSG00000138468|Q9BQF6-4|SENP7;nc|ENSG00000138468|Q9BQF6-5|SENP7;nc|ENSG00000138468|Q9BQF6-2|SENP7;ENSG00000138468|ENST00000394095|SENP7;nc|ENSG00000138468|Q9BQF6-3|SENP7 nc|ENSG00000138468|Q9BQF6-4|SENP7 nc|ENSG00000138468|Q9BQF6-4|SENP7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 453.7494201660156 2 453.748182 905.481811 NaN NaN NaN NaN NaN NaN NaN 31.98 1 32.597 32.097 33.097 0.61736 0 0 0 0.55493 1 14665 14665 26.884 1.4843 1 3487 3096 2425 2429 3804 3804 0.025288906552077606 DLRWRFWWEYV 11 Unmodified _DLRWRFWWEYV_ 0 0 0 REV__ENSG00000127995|ENST00000297273|CASD1 REV__ENSG00000127995|ENST00000297273|CASD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 828.4107666015625 2 828.409518 1654.80448 NaN NaN NaN NaN NaN NaN NaN 33.31 1 33.93 33.43 34.43 0.62031 0 0 0 1.0082 1 15267 15267 0 0 1 + 3488 11755 2426 2430 3805 3805 0.003272020542226528 DLSMTRRL 8 Unmodified _DLSMTRRL_ 0 0 0 REV__ENST00000559630.1_1_15:49097750-49103222:-|nuORF REV__ENST00000559630.1_1_15:49097750-49103222:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.184326171875 3 331.183293 990.528049 2.5125 0.00083211 -0.098138 -3.2502E-05 2.4144 0.00079961 331.1834786922928 27.988 0.21104 27.988 27.864 28.075 0 41 18 3 0 0 0 0.13941 1 12617 12617 7.1017 1.8048 1 854080 + 3489 17355 2427 2431 3806 3806 0.03240632285644551 DLSRRDVSL 9 Unmodified _DLSRRDVSL_ 0 0 0 HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant;ENSG00000113249|ENST00000523175|HAVCR1 HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.7926635742188 2 530.790912 1059.56727 3.2788 0.0017404 0.12423 6.5939E-05 3.403 0.0018063 530.7909046774572 31.371 0.24827 31.371 31.226 31.474 0 47 21 3 0 0 0 0.013715 2 14188 14146;14188 76.825 33.052 1 2057700 3490 1840 2428 2432 3807;3808 3808 0.0398705584086656 DLSRRDVSL 9 Unmodified _DLSRRDVSL_ 0 0 0 HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant;ENSG00000113249|ENST00000523175|HAVCR1 HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 354.1972961425781 3 354.196367 1059.56727 2.7218 0.00096406 0.16861 5.9722E-05 2.8904 0.0010238 354.1964410122487 31.365 0.26522 31.365 31.226 31.491 0 57 23 4 0 0 0 0.013715 1 14190 14190 62.869 29.424 1 1608200 3491 1840 2428 2432 3809 3809 0.0398705584086656 DLSRRDVSL 9 Unmodified _DLSRRDVSL_ 0 0 0 HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant;ENSG00000113249|ENST00000523175|HAVCR1 HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.7928466796875 2 530.790912 1059.56727 3.2054 0.0017014 0.13437 7.1323E-05 3.3398 0.0017727 530.7910696797495 30.424 0.43136 31.214 30.961 31.392 0.78921 80 35 3 0 0 0 0.071132 3 13722 13672;13722;13768 39.95 24.021 1 1232900 3492 1840 2428 2432 3810;3811;3812 3811 0.0398705584086656 DLSRRDVSL 9 Unmodified _DLSRRDVSL_ 0 0 0 HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant;ENSG00000113249|ENST00000523175|HAVCR1 HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.7926025390625 2 530.790912 1059.56727 3.6728 0.0019495 0.042771 2.2703E-05 3.7156 0.0019722 530.7909290138095 31.207 0.41925 31.463 31.251 31.67 0.25614 89 31 4 0 0 0 0.0076144 3 14224 14129;14173;14224 86.332 34.702 1 3582000 3493 1840 2428 2432 3813;3814;3815 3815 0.0398705584086656 DLSRRDVSL 9 Unmodified _DLSRRDVSL_ 0 0 0 HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant;ENSG00000113249|ENST00000523175|HAVCR1 HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 354.1976318359375 3 354.196367 1059.56727 3.0793 0.0010907 0.05386 1.9077E-05 3.1331 0.0011097 354.196427340358 31.2 0.41097 31.456 31.239 31.65 0.25614 94 31 4 0 0 0 0.013715 2 14233 14192;14233 62.869 55.249 1 3937000 3494 1840 2428 2432 3816;3817 3817 0.0398705584086656 DLSRRDVSL 9 Unmodified _DLSRRDVSL_ 0 0 0 HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant;ENSG00000113249|ENST00000523175|HAVCR1 HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.7925415039062 2 530.790912 1059.56727 3.2696 0.0017355 0.21428 0.00011374 3.4839 0.0018492 530.7910217962452 30.74 0.39207 31.358 31.152 31.544 0.61737 63 22 4 0 0 0 0.002702 3 14091 14049;14091;14138 96.936 96.936 1 4373100 3495 1840 2428 2432 3818;3819;3820 3819 0.0398705584086656 DLSRRDVSL 9 Unmodified _DLSRRDVSL_ 0 0 0 HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant;ENSG00000113249|ENST00000523175|HAVCR1 HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 354.1974182128906 3 354.196367 1059.56727 2.4882 0.0008813 0.48006 0.00017004 2.9682 0.0010513 354.19660798565053 30.754 0.3755 31.371 31.152 31.527 0.61736 64 21 4 0 0 0 0.019364 1 14108 14108 63.227 17.488 1 3075600 3496 1840 2428 2432 3821 3821 0.0398705584086656 DLSRRDVSL 9 Unmodified _DLSRRDVSL_ 0 0 0 HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant;ENSG00000113249|ENST00000523175|HAVCR1 HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant HAVCR1|p.L305Ffs*27|1|0.1|ENSG00000113249|chr5:157037287-157037288|-/ACAGAAAT|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 354.196367 1059.56727 2.4779 0.00087766 0.16071 5.6923E-05 2.6386 0.00093458 354.1964825863813 30.421 0.37667 31.21 31.002 31.379 0.78921 -0.14041 -6.0027E-05 NaN 62.869 86 30 4 NaN NaN NaN NaN 0 NaN NaN 0 998110 3497 1840 2428 2432 0.0398705584086656 DLSVPQRKI 9 Unmodified _DLSVPQRKI_ 0 0 0 REV__nc|ENSG00000173120|Q9Y2K7-5|KDM2A REV__nc|ENSG00000173120|Q9Y2K7-5|KDM2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.3156127929688 2 528.314023 1054.61349 2.8474 0.0015043 0.35452 0.0001873 3.2019 0.0016916 528.3141819208822 13.13 0.17726 13.373 13.296 13.473 0.24346 27 12 3 0 0 0 0.51799 1 5758 5758 17.113 0 1 559540 + 3498 13583 2429 2433 3822 3822 0.08837120742964544 DLTIRLLGPGR 11 Unmodified _DLTIRLLGPGR_ 0 0 0 REV__ENST00000600689.1_1_19:18976320-18976969:+|nuORF REV__ENST00000600689.1_1_19:18976320-18976969:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1211.7381591796875 1 1210.72663 1209.71936 3.1275 0.0037865 3.7882 0.0045864 6.9157 0.008373 1210.7321412623194 57.075 0.20327 57.34 57.179 57.383 0.26444 14 8 2 0 0 0 0.83518 1 26085 26085 5.2969 0.76802 1 1650200 + 3499 17636 2430 2434 3823 3823 0.12288456588430563 DLTIRLLGPGR 11 Unmodified _DLTIRLLGPGR_ 0 0 0 REV__ENST00000600689.1_1_19:18976320-18976969:+|nuORF REV__ENST00000600689.1_1_19:18976320-18976969:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 1210.72663 1209.71936 3.1275 0.0037865 3.7882 0.0045864 6.9157 0.008373 1210.7321412623194 57.075 0.20327 57.34 57.179 57.383 0.26444 0.014748 -0.0017732 NaN 5.2969 14 8 2 NaN NaN NaN NaN 0 NaN NaN 0 1650200 + 3500 17636 2430 2434 0.12288456588430563 DLTIRLLGPGR 11 Unmodified _DLTIRLLGPGR_ 0 0 0 REV__ENST00000600689.1_1_19:18976320-18976969:+|nuORF REV__ENST00000600689.1_1_19:18976320-18976969:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 1210.72663 1209.71936 3.3932 0.0041082 6.67 0.0080755 10.063 0.012184 1210.7364642345117 56.642 0.1868 57.31 57.214 57.401 0.66829 -0.014748 0.0017159 NaN 5.2969 18 9 2 NaN NaN NaN NaN 0 NaN NaN 0 1122600 + 3501 17636 2430 2434 0.12288456588430563 DLTKSKAKAQ 10 Unmodified _DLTKSKAKAQ_ 0 0 0 REV__nc|ENSG00000186115|P78329-2|CYP4F2 REV__nc|ENSG00000186115|P78329-2|CYP4F2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3182983398438 2 545.316763 1088.61897 3.4792 0.0018973 0.41297 0.0002252 3.8922 0.0021225 545.3169124440693 83.541 1.7312 83.788 83.088 84.819 0.24722 279 102 3 0 0 0 0.93788 1 38886 38886 1.3295 0.13619 1 2574300 + 3502 14045 2431 2435 3824 3824 0.07820799534761136 DLTKSKAKAQ 10 Unmodified _DLTKSKAKAQ_ 0 0 0 REV__nc|ENSG00000186115|P78329-2|CYP4F2 REV__nc|ENSG00000186115|P78329-2|CYP4F2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3184204101562 2 545.316763 1088.61897 3.5647 0.0019439 0.32763 0.00017866 3.8923 0.0021225 545.316860063632 84.788 0.81857 85.036 84.763 85.582 0.24757 91 48 3 0 0 0 0.9146 1 39081 39081 2.9952 0.69251 1 769400 + 3503 14045 2431 2435 3825 3825 0.07820799534761136 DLTLARTI 8 Unmodified _DLTLARTI_ 0 0 0 ENSG00000121957|ENST00000264126|GPSM2 ENSG00000121957|ENST00000264126|GPSM2 ENSG00000121957|ENST00000264126|GPSM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.77032470703125 2 451.768917 901.523281 2.7661 0.0012496 0.14539 6.5682E-05 2.9115 0.0013153 451.7690097919147 14.85 0.24543 15.076 14.932 15.177 0.22622 28 18 2 0 0 0 0.39589 1 6514 6514 28.487 0 1 234440 3504 2251 2432 2436 3826 3826 0.06858071414524147 DLTNLILFSL 10 Unmodified _DLTNLILFSL_ 0 0 0 ENSG00000196664|ENST00000380659|TLR7 ENSG00000196664|ENST00000380659|TLR7 ENSG00000196664|ENST00000380659|TLR7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 574.8321533203125 2 574.831714 1147.64888 3.6973 0.0021253 -2.1411 -0.0012308 1.5562 0.00089454 574.8304307598605 30.365 0.21047 30.982 30.851 31.061 0.61737 20 12 2 0 0 0 0.88949 2 13950 13906;13950 1.3295 0.80477 1 429520 3505 5767 2433 2437 3827;3828 3828 0.0809573848009677 DLTPSAQVTI 10 Unmodified _DLTPSAQVTI_ 0 0 0 REV__ENSG00000130758|ENST00000253055|MAP3K10 REV__ENSG00000130758|ENST00000253055|MAP3K10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.7859497070312 2 522.782222 1043.54989 3.2631 0.0017059 1.2949 0.00067695 4.558 0.0023829 522.7830158693532 54.113 0.66849 54.378 54.07 54.739 0.26462 59 28 3 0 0 0 0.1787 1 24802 24802 41.84 3.6641 1 1224200 + 3506 11830 2434 2438 3829 3829 0.029857155152058112 DLTPSAQVTI 10 Unmodified _DLTPSAQVTI_ 0 0 0 REV__ENSG00000130758|ENST00000253055|MAP3K10 REV__ENSG00000130758|ENST00000253055|MAP3K10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.7843017578125 2 522.782222 1043.54989 3.1788 0.0016618 1.1002 0.00057518 4.279 0.002237 522.7828431823112 53.541 0.48759 54.206 54.003 54.491 0.6644 51 23 3 0 0 0 0.048946 1 24536 24536 62.573 8.7399 1 1621300 + 3507 11830 2434 2438 3830 3830 0.029857155152058112 DLVKKYIL 8 Unmodified _DLVKKYIL_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3;ENST00000471989.5_1_17:40475276-40475366:-|nuORF nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.3150329589844 2 496.312961 990.611368 3.2556 0.0016158 0.18771 9.3162E-05 3.4433 0.001709 496.3129759904174 49.582 0.30894 49.843 49.698 50.007 0.26146 28 12 3 0 0 0 0.022365 1 22659 22659 85.272 31.696 1 944560 3508 4637 2435 2439 3831 3831 0.11568692005130288 DLVKKYIL 8 Unmodified _DLVKKYIL_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3;ENST00000471989.5_1_17:40475276-40475366:-|nuORF nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.3149108886719 2 496.312961 990.611368 3.3099 0.0016427 0.092591 4.5954E-05 3.4025 0.0016887 496.312886072582 49.073 0.24653 49.729 49.604 49.851 0.65525 20 8 3 0 0 0 0.033113 1 22437 22437 74.929 26.583 1 1167200 3509 4637 2435 2439 3832 3832 0.11568692005130288 DLVMLVTEVI 10 Unmodified _DLVMLVTEVI_ 0 0 0 ENSG00000183625|ENST00000395940|CCR3;nc|ENSG00000183625|P51677-2|CCR3 ENSG00000183625|ENST00000395940|CCR3 ENSG00000183625|ENST00000395940|CCR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 566.320068359375 2 566.320125 1130.6257 NaN NaN NaN NaN NaN NaN NaN 47.825 1 48.089 47.589 48.589 0.26363 0 0 0 0.99812 1 21862 21862 3.2813 0.78282 1 3510 5394 2436 2440 3833 3833 0.0656097637113362 DLVVKKEL 8 Unmodified _DLVVKKEL_ 0 0 0 ENSG00000183624|ENST00000383463|HMCES ENSG00000183624|ENST00000383463|HMCES ENSG00000183624|ENST00000383463|HMCES MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.2962951660156 2 472.294768 942.574983 3.0252 0.0014288 0.85491 0.00040377 3.8801 0.0018326 472.29513773843576 31.522 0.23812 31.522 31.432 31.67 0 34 23 2 0 0 0 0.37709 2 14257 14257;14305 29.841 4.8496 1 377490 3511 5393 2437 2441 3834;3835 3834 0.10139815108436778 DLVVKKEL 8 Unmodified _DLVVKKEL_ 0 0 0 ENSG00000183624|ENST00000383463|HMCES ENSG00000183624|ENST00000383463|HMCES ENSG00000183624|ENST00000383463|HMCES MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.2964782714844 2 472.294768 942.574983 3.4537 0.0016312 0.14981 7.0755E-05 3.6035 0.0017019 472.29478643156426 31.288 0.31082 31.544 31.407 31.718 0.25614 50 20 3 0 0 0 0.062161 2 14273 14273;14322 61.602 3.8799 1 1074100 3512 5393 2437 2441 3836;3837 3836 0.10139815108436778 DLVVKKEL 8 Unmodified _DLVVKKEL_ 0 0 0 ENSG00000183624|ENST00000383463|HMCES ENSG00000183624|ENST00000383463|HMCES ENSG00000183624|ENST00000383463|HMCES MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.2969970703125 2 472.294768 942.574983 2.9934 0.0014138 0.55136 0.0002604 3.5447 0.0016742 472.29496884553737 30.825 0.28559 31.443 31.305 31.59 0.61737 41 16 3 0 0 0 0.028325 2 14161 14112;14161 79.596 15.636 1 1038600 3513 5393 2437 2441 3838;3839 3839 0.10139815108436778 DLWLHPLIP 9 Unmodified _DLWLHPLIP_ 0 0 0 ENSG00000239305|ENST00000237455|RNF103 ENSG00000239305|ENST00000237455|RNF103 ENSG00000239305|ENST00000237455|RNF103 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.3175048828125 2 552.316035 1102.61752 3.8691 0.002137 -0.83344 -0.00046032 3.0356 0.0016766 552.315447998804 30.278 0.26674 30.536 30.41 30.677 0.25804 21 14 2 0 0 0 0.95612 1 13827 13827 4.756 0 1 436520 3514 6209 2438 2442 3840 3840 0.07031210236664265 DLYLWLSYR 9 Unmodified _DLYLWLSYR_ 0 0 0 ENSG00000156502|ENST00000359655|SUPV3L1 ENSG00000156502|ENST00000359655|SUPV3L1 ENSG00000156502|ENST00000359655|SUPV3L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 410.218505859375 3 410.21688 1227.62881 2.5358 0.0010402 0.59976 0.00024603 3.1356 0.0012863 410.2170705870666 46.692 0.25729 46.692 46.585 46.842 0 23 9 3 0 0 0 0.27958 2 21364 21364;21416 17.443 11.251 1 1370600 3515 3914 2439 2443 3841;3842 3841 0.024099875401361714 DLYLWLSYR 9 Unmodified _DLYLWLSYR_ 0 0 0 ENSG00000156502|ENST00000359655|SUPV3L1 ENSG00000156502|ENST00000359655|SUPV3L1 ENSG00000156502|ENST00000359655|SUPV3L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 410.21868896484375 3 410.21688 1227.62881 3.2828 0.0013467 -0.24026 -9.8559E-05 3.0426 0.0012481 410.2167669918442 46.021 0.29781 46.672 46.501 46.799 0.65104 17 8 3 0 0 0 0.72052 1 21081 21081 8.9762 6.5415 1 541320 3516 3914 2439 2443 3843 3843 0.024099875401361714 DLYLWLSYR 9 Unmodified _DLYLWLSYR_ 0 0 0 ENSG00000156502|ENST00000359655|SUPV3L1 ENSG00000156502|ENST00000359655|SUPV3L1 ENSG00000156502|ENST00000359655|SUPV3L1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 410.21688 1227.62881 3.2828 0.0013467 -0.24026 -9.8559E-05 3.0426 0.0012481 410.2167669918442 46.021 0.29781 46.672 46.501 46.799 0.65104 -0.0098634 -0.00082173 NaN 17.443 17 8 3 NaN NaN NaN NaN 0 NaN NaN 0 541320 3517 3914 2439 2443 0.024099875401361714 DLYMVDMFREV 11 Unmodified _DLYMVDMFREV_ 0 0 0 ENSG00000105509|ENST00000540069|HAS1;nc|ENSG00000105509|Q92839|HAS1 ENSG00000105509|ENST00000540069|HAS1 ENSG00000105509|ENST00000540069|HAS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 709.3325805664062 2 709.328156 1416.64176 NaN NaN NaN NaN NaN NaN NaN 99.87 1 99.87 99.37 100.37 0 0 0 0 0.99038 1 55016 55016 7.609 1.8771 1 3518 1502 2440 2444 3844 3844 -0.04989685454324899 DLYRKVML 8 Unmodified _DLYRKVML_ 0 0 0 ENSG00000172687|ENST00000683779|ZNF738;nc|ENSG00000196268|Q6ZR52-3|ZNF493;ENSG00000118620|ENST00000261560|ZNF430;ENST00000595833.1_1_19:21203606-21216480:+|nuORF;ZNF430|p.C238Lfs*3|1|0.53|ENSG00000118620|chr19:21057019-21057020|-/T|frameshift_variant;nc|ENSG00000172687|Q8NE65-2|ZNF738;ZNF738|p.E88Gfs*21|1|0.11|ENSG00000172687|chr19:21375907-21375908|-/GGGTGTGGCTACCATACTGTGTCTCTTCATATTCC|frameshift_variant;ENSG00000196268|ENST00000392288|ZNF493 ENSG00000172687|ENST00000683779|ZNF738 ENSG00000172687|ENST00000683779|ZNF738 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 519.7514038085938 2 519.294245 1036.57394 3.3688 0.0017494 0.55444 0.00028792 3.9233 0.0020373 519.7962272965938 45.86 0.20858 46.125 46.024 46.232 0.26561 10 7 2 0 0 0 0.12371 1 20981 20981 20.454 7.9221 1 362230 3519 4884 2441 2445 3845 3845 0.05711277467889886 DLYRRSRRRRR 11 Unmodified _DLYRRSRRRRR_ 0 0 0 REV__ENST00000245157.9_1_16:56553867-56553957:-|nuORF REV__ENST00000245157.9_1_16:56553867-56553957:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.8004760742188 3 530.648845 1588.92471 NaN NaN NaN NaN NaN NaN NaN 96.515 1 96.515 96.015 97.015 0 0 0 0 1.0082 1 52257 52257 0.094841 0.011491 1 + 3520 14890 2442 2446 3846 3846 0.15380047891176218 DLYTRFDTL 9 Unmodified _DLYTRFDTL_ 0 0 0 ENSG00000061918|ENST00000264424|GUCY1B1;nc|ENSG00000061918|Q02153-2|GUCY1B1;nc|ENSG00000061918|Q02153-3|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.2903442382812 2 572.287671 1142.56079 3.6122 0.0020672 0.018297 1.0471E-05 3.6305 0.0020777 572.2876440435296 66.754 0.27942 67.005 66.852 67.132 0.2501 21 14 2 0 0 0 0.031195 1 30571 30571 67.838 29.864 1 612230 3521 649 2443 2447 3847 3847 -0.004788821105421448 DLYTRFDTL 9 Unmodified _DLYTRFDTL_ 0 0 0 ENSG00000061918|ENST00000264424|GUCY1B1;nc|ENSG00000061918|Q02153-2|GUCY1B1;nc|ENSG00000061918|Q02153-3|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 572.2907104492188 2 572.287671 1142.56079 3.7196 0.0021287 0.1664 9.5229E-05 3.886 0.0022239 572.287787380247 66.206 0.25671 66.863 66.723 66.98 0.65672 32 16 2 0 0 0 0.079841 1 30322 30322 47.594 16.958 1 718820 3522 649 2443 2447 3848 3848 -0.004788821105421448 DMACAKTT 8 Unmodified _DMACAKTT_ 0 0 0 nc|ENSG00000180347|Q6ZRS4-2|ITPRID1;nc|ENSG00000180347|Q6ZRS4-3|ITPRID1;ENSG00000180347|ENST00000615280|ITPRID1;nc|ENSG00000180347|Q6ZRS4-4|ITPRID1 nc|ENSG00000180347|Q6ZRS4-2|ITPRID1 nc|ENSG00000180347|Q6ZRS4-2|ITPRID1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 420.68414306640625 2 420.683139 839.351724 NaN NaN NaN NaN NaN NaN NaN 75.627 1 75.884 75.384 76.384 0.25704 0 0 0 0.99035 1 34807 34807 2.0598 0.21551 1 3523 5248 2444 2448 3849 3849 -0.07437744939829827 DMAKRVANL 9 Unmodified _DMAKRVANL_ 0 0 0 nc|ENSG00000110713|P52948-6|NUP98;ENSG00000110713|ENST00000324932|NUP98;nc|ENSG00000110713|P52948|NUP98;nc|ENSG00000110713|P52948-2|NUP98;ENST00000469881.1_1_11:3697391-3700990:-|nuORF nc|ENSG00000110713|P52948-6|NUP98 nc|ENSG00000110713|P52948-6|NUP98 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.28155517578125 2 509.279126 1016.5437 3.1693 0.001614 0.16595 8.4515E-05 3.3352 0.0016986 509.78073735320976 28.092 0.11083 28.354 28.266 28.377 0.26245 13 7 2 0 0 0 0.27958 1 12772 12772 18.146 9.5531 1 190620 3524 1726 2445 2449 3850 3850 0.03608918802683547 DMDCPCNCDD 10 Unmodified _DMDCPCNCDD_ 0 0 0 REV__nc|ENSG00000135272|Q9P1T7-1|MDFIC REV__nc|ENSG00000135272|Q9P1T7-1|MDFIC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 565.6270141601562 2 565.64831 1129.28207 NaN NaN NaN NaN NaN NaN NaN 54.556 1 55.351 54.851 55.851 0.79552 0 0 0 1.002 1 24893 24893 0 0 1 + 3525 17948 2446 2450 3851 3851 -0.27740359733070363 DMDDDMDP 8 Unmodified _DMDDDMDP_ 0 0 0 ENSG00000184619|ENST00000396267|KRBA2;nc|ENSG00000184619|Q6ZNG9|KRBA2 ENSG00000184619|ENST00000396267|KRBA2 ENSG00000184619|ENST00000396267|KRBA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.3133239746094 2 477.146783 952.279013 NaN NaN NaN NaN NaN NaN NaN 70.444 1 70.444 69.944 70.944 0 0 0 0 0.99035 1 34182 34182 2.5775 0.27475 1 3526 5453 2447 2451 3852 3852 -0.19903543523901135 DMDDEDDEDG 10 Unmodified _DMDDEDDEDG_ 0 0 0 ENSG00000132467|ENST00000254803|UTP3 ENSG00000132467|ENST00000254803|UTP3 ENSG00000132467|ENST00000254803|UTP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.3209228515625 2 578.166955 1154.31936 NaN NaN NaN NaN NaN NaN NaN 61.254 1 61.994 61.494 62.494 0.7396 0 0 0 1.0001 1 28378 28378 1.6526 1.2519 1 3527 2704 2448 2452 3853 3853 -0.25162950390449623 DMGNRVTAL 9 Unmodified _DMGNRVTAL_ 0 0 0 nc|ENSG00000166557|Q9Y3Q3-2|TMED3;ENSG00000166557|ENST00000299705|TMED3 nc|ENSG00000166557|Q9Y3Q3-2|TMED3 nc|ENSG00000166557|Q9Y3Q3-2|TMED3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 488.74908447265625 2 488.747659 975.480765 3.2333 0.0015803 -0.31256 -0.00015276 2.9207 0.0014275 488.7475042826184 37.684 0.18148 37.684 37.563 37.745 0 9 6 2 0 0 0 0.093314 1 17108 17108 34.402 5.3201 1 317760 3528 4493 2449 2453 3854 3854 -0.007956469853752424 DMGNRVTAL 9 Unmodified _DMGNRVTAL_ 0 0 0 nc|ENSG00000166557|Q9Y3Q3-2|TMED3;ENSG00000166557|ENST00000299705|TMED3 nc|ENSG00000166557|Q9Y3Q3-2|TMED3 nc|ENSG00000166557|Q9Y3Q3-2|TMED3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.7493896484375 2 488.747659 975.480765 3.264 0.0015953 -1.4175 -0.0006928 1.8465 0.0009025 488.74748305231526 37.5 0.37949 37.76 37.572 37.951 0.26083 24 11 3 0 0 0 0.013715 2 17065 17065;17134 76.825 20.284 1 853300 3529 4493 2449 2453 3855;3856 3855 -0.007956469853752424 DMGNRVTAL 9 Unmodified _DMGNRVTAL_ 0 0 0 nc|ENSG00000166557|Q9Y3Q3-2|TMED3;ENSG00000166557|ENST00000299705|TMED3 nc|ENSG00000166557|Q9Y3Q3-2|TMED3 nc|ENSG00000166557|Q9Y3Q3-2|TMED3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.749267578125 2 488.747659 975.480765 3.2393 0.0015832 -0.99432 -0.00048597 2.245 0.0010972 488.74769048031754 36.926 0.35203 37.556 37.354 37.706 0.62999 34 13 4 0 0 0 0.035495 2 16931 16874;16931 53.404 17.277 1 1049500 3530 4493 2449 2453 3857;3858 3858 -0.007956469853752424 DMITRRSL 8 Unmodified _DMITRRSL_ 0 0 0 nc|ENSG00000070756|P11940-2|PABPC1;ENSG00000070756|ENST00000318607|PABPC1;nc|ENSG00000090621|Q13310-2|PABPC4;nc|ENSG00000090621|Q13310|PABPC4;ENSG00000090621|ENST00000372858|PABPC4 nc|ENSG00000070756|P11940-2|PABPC1;nc|ENSG00000090621|Q13310-2|PABPC4 nc|ENSG00000070756|P11940-2|PABPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.27337646484375 2 496.271301 990.528049 3.2797 0.0016276 0.39935 0.00019819 3.6791 0.0018258 496.27158046216044 27.996 0.2312 27.996 27.864 28.095 0 38 20 3 0 0 0 0.66653 1 12604 12604 8.5933 0.68312 1 545340 3531 770;1065 2450 2454 3859 3859 0.03240632285644551 DMITRRSL 8 Unmodified _DMITRRSL_ 0 0 0 nc|ENSG00000070756|P11940-2|PABPC1;ENSG00000070756|ENST00000318607|PABPC1;nc|ENSG00000090621|Q13310-2|PABPC4;nc|ENSG00000090621|Q13310|PABPC4;ENSG00000090621|ENST00000372858|PABPC4 nc|ENSG00000070756|P11940-2|PABPC1;nc|ENSG00000090621|Q13310-2|PABPC4 nc|ENSG00000070756|P11940-2|PABPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.1842956542969 3 331.183293 990.528049 2.3575 0.00078075 -0.58432 -0.00019352 1.7731 0.00058723 331.18337342044447 26.973 0.21086 27.752 27.658 27.869 0.7787 31 15 4 0 0 0 0.45971 1 12102 12102 19.362 2.249 1 917370 3532 770;1065 2450 2454 3860 3860 0.03240632285644551 DMITRRSL 8 Unmodified _DMITRRSL_ 0 0 0 nc|ENSG00000070756|P11940-2|PABPC1;ENSG00000070756|ENST00000318607|PABPC1;nc|ENSG00000090621|Q13310-2|PABPC4;nc|ENSG00000090621|Q13310|PABPC4;ENSG00000090621|ENST00000372858|PABPC4 nc|ENSG00000070756|P11940-2|PABPC1;nc|ENSG00000090621|Q13310-2|PABPC4 nc|ENSG00000070756|P11940-2|PABPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.2728271484375 2 496.271301 990.528049 3.0997 0.0015383 -0.99497 -0.00049378 2.1047 0.0010445 496.2707981135583 27.884 0.352 28.146 27.97 28.322 0.26245 47 22 3 0 0 0 0.52777 1 12662 12662 19.257 7.6167 1 914810 3533 770;1065 2450 2454 3861 3861 0.03240632285644551 DMITRRSL 8 Unmodified _DMITRRSL_ 0 0 0 nc|ENSG00000070756|P11940-2|PABPC1;ENSG00000070756|ENST00000318607|PABPC1;nc|ENSG00000090621|Q13310-2|PABPC4;nc|ENSG00000090621|Q13310|PABPC4;ENSG00000090621|ENST00000372858|PABPC4 nc|ENSG00000070756|P11940-2|PABPC1;nc|ENSG00000090621|Q13310-2|PABPC4 nc|ENSG00000070756|P11940-2|PABPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.18402099609375 3 331.183293 990.528049 2.2774 0.00075422 -0.61601 -0.00020401 1.6613 0.00055021 331.1833215821405 27.879 0.32079 28.142 27.97 28.291 0.26245 56 20 4 0 0 0 0.42759 1 12690 12690 21.59 5.441 1 1510400 3534 770;1065 2450 2454 3862 3862 0.03240632285644551 DMITRRSL 8 Unmodified _DMITRRSL_ 0 0 0 nc|ENSG00000070756|P11940-2|PABPC1;ENSG00000070756|ENST00000318607|PABPC1;nc|ENSG00000090621|Q13310-2|PABPC4;nc|ENSG00000090621|Q13310|PABPC4;ENSG00000090621|ENST00000372858|PABPC4 nc|ENSG00000070756|P11940-2|PABPC1;nc|ENSG00000090621|Q13310-2|PABPC4 nc|ENSG00000070756|P11940-2|PABPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.27325439453125 2 496.271301 990.528049 3.1188 0.0015478 -0.66634 -0.00033068 2.4525 0.0012171 496.2711870888245 27.478 0.3776 28.1 27.927 28.304 0.62178 51 25 3 0 0 0 0.52777 2 12605 12557;12605 19.257 3.4098 1 1205100 3535 770;1065 2450 2454 3863;3864 3864 0.03240632285644551 DMITRRSL 8 Unmodified _DMITRRSL_ 0 0 0 nc|ENSG00000070756|P11940-2|PABPC1;ENSG00000070756|ENST00000318607|PABPC1;nc|ENSG00000090621|Q13310-2|PABPC4;nc|ENSG00000090621|Q13310|PABPC4;ENSG00000090621|ENST00000372858|PABPC4 nc|ENSG00000070756|P11940-2|PABPC1;nc|ENSG00000090621|Q13310-2|PABPC4 nc|ENSG00000070756|P11940-2|PABPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.1837158203125 3 331.183293 990.528049 2.1754 0.00072046 -0.43409 -0.00014376 1.7413 0.0005767 331.1834985106161 27.488 0.32855 28.11 27.927 28.255 0.62178 56 22 4 0 0 0 0.42759 1 12593 12593 21.59 5.441 1 958890 3536 770;1065 2450 2454 3865 3865 0.03240632285644551 DMKAKQEAL 9 Unmodified _DMKAKQEAL_ 0 0 0 ENST00000481619.5_1_X:153672624-153677371:+|nuORF;ENSG00000071859|ENST00000393600|FAM50A ENST00000481619.5_1_X:153672624-153677371:+|nuORF ENST00000481619.5_1_X:153672624-153677371:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.1838073730469 3 345.18307 1032.52738 2.4577 0.00084836 -0.77305 -0.00026685 1.6846 0.00058151 345.1826958563482 15.476 0.64418 15.476 15.208 15.853 0 135 76 2 0 0 0 0.59776 1 6827 6827 7.1017 2.9122 1 121530 3537 781 2451 2455 3866 3866 0.01241792845917189 DMKAKQEAL 9 Unmodified _DMKAKQEAL_ 0 0 0 ENST00000481619.5_1_X:153672624-153677371:+|nuORF;ENSG00000071859|ENST00000393600|FAM50A ENST00000481619.5_1_X:153672624-153677371:+|nuORF ENST00000481619.5_1_X:153672624-153677371:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 517.271484375 2 517.270967 1032.52738 3.3715 0.001744 -1.3719 -0.00070966 1.9996 0.0010343 517.2702017055634 14.701 0.21677 14.927 14.814 15.03 0.22622 28 12 3 0 0 0 0.0527 1 6481 6481 46.022 24.485 1 542450 3538 781 2451 2455 3867 3867 0.01241792845917189 DMKAKQEAL 9 Unmodified _DMKAKQEAL_ 0 0 0 ENST00000481619.5_1_X:153672624-153677371:+|nuORF;ENSG00000071859|ENST00000393600|FAM50A ENST00000481619.5_1_X:153672624-153677371:+|nuORF ENST00000481619.5_1_X:153672624-153677371:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.270263671875 2 517.270967 1032.52738 NaN NaN NaN NaN NaN NaN NaN 14.338 1 14.645 14.145 15.145 0.3069 0 0 0 5.505E-05 1 6489 6489 110.79 52.114 1 3539 781 2451 2455 3868 3868 0.01241792845917189 DMKAKQEAL 9 Unmodified _DMKAKQEAL_ 0 0 0 ENST00000481619.5_1_X:153672624-153677371:+|nuORF;ENSG00000071859|ENST00000393600|FAM50A ENST00000481619.5_1_X:153672624-153677371:+|nuORF ENST00000481619.5_1_X:153672624-153677371:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.19317626953125 3 345.18307 1032.52738 2.2621 0.00078082 -1.6323 -0.00056344 0.62977 0.00021739 345.1821365584213 14.33 0.12259 14.637 14.56 14.683 0.3069 8 5 2 0 0 0 0.081012 1 6473 6473 15.739 13.003 1 1999800 3540 781 2451 2455 3869 3869 0.01241792845917189 DMKAKQEAL 9 Unmodified _DMKAKQEAL_ 0 0 0 ENST00000481619.5_1_X:153672624-153677371:+|nuORF;ENSG00000071859|ENST00000393600|FAM50A ENST00000481619.5_1_X:153672624-153677371:+|nuORF ENST00000481619.5_1_X:153672624-153677371:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.2728881835938 2 517.270967 1032.52738 3.5031 0.0018121 -2.042 -0.0010563 1.4611 0.00075578 517.2693159633401 14.245 0.10928 14.893 14.85 14.96 0.6482 26 15 3 0 0 0 3.5071E-10 1 6403 6403 103.42 39.183 1 3001200 3541 781 2451 2455 3870 3870 0.01241792845917189 DMKAKQEAL 9 Unmodified _DMKAKQEAL_ 0 0 0 ENST00000481619.5_1_X:153672624-153677371:+|nuORF;ENSG00000071859|ENST00000393600|FAM50A ENST00000481619.5_1_X:153672624-153677371:+|nuORF ENST00000481619.5_1_X:153672624-153677371:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 345.18307 1032.52738 2.3476 0.00081035 -1.5769 -0.00054432 0.77068 0.00026603 345.18242362350287 14.703 0.19781 14.929 14.814 15.011 0.22622 0.11004 -4.3751E-05 NaN 20.581 27 11 3 NaN NaN NaN NaN 0 NaN NaN 0 420350 3542 781 2451 2455 0.01241792845917189 DMKERYREL 9 Unmodified _DMKERYREL_ 0 0 0 ENST00000585912.5_1_17:40855746-40880959:-|nuORF;ENST00000586103.5_1_17:40855746-40880959:-|nuORF;nc|ENSG00000108799|Q92800-3|EZH1;ENSG00000108799|ENST00000428826|EZH1;nc|ENSG00000108799|Q92800-2|EZH1;ENST00000593148.1_1_17:40870451-40871187:-|nuORF;ENST00000591330.5_1_17:40855746-40879722:-|nuORF;nc|ENSG00000108799|Q92800-5|EZH1;nc|ENSG00000108799|Q92800-4|EZH1 ENST00000585912.5_1_17:40855746-40880959:-|nuORF ENST00000585912.5_1_17:40855746-40880959:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 413.8785400390625 3 413.876529 1238.60776 NaN NaN NaN NaN NaN NaN NaN 20.483 1 21.136 20.636 21.636 0.65346 0 0 0 0.8974 1 9301 9301 4.1895 0.86986 1 3543 1649 2452 2456 3871 3871 -0.0020034583103551995 DMKIKVTDL 9 Unmodified _DMKIKVTDL_ 0 0 0 ENSG00000085433|ENST00000369962|WDR47;nc|ENSG00000085433|O94967-3|WDR47;nc|ENSG00000085433|O94967-4|WDR47;nc|ENSG00000085433|O94967-2|WDR47 ENSG00000085433|ENST00000369962|WDR47 ENSG00000085433|ENST00000369962|WDR47 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.798583984375 2 531.796817 1061.57908 3.2507 0.0017287 -0.41604 -0.00022125 2.8347 0.0015075 531.7967755121545 48.784 0.26976 49.046 48.902 49.172 0.26209 16 10 2 0 0 0 0.01 1 22303 22303 81.915 36.175 1 881370 3544 968 2453 2457 3872 3872 0.05075536539811765 DMKIKVTDL 9 Unmodified _DMKIKVTDL_ 0 0 0 ENSG00000085433|ENST00000369962|WDR47;nc|ENSG00000085433|O94967-3|WDR47;nc|ENSG00000085433|O94967-4|WDR47;nc|ENSG00000085433|O94967-2|WDR47 ENSG00000085433|ENST00000369962|WDR47 ENSG00000085433|ENST00000369962|WDR47 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.7982788085938 2 531.796817 1061.57908 3.3679 0.001791 0.41818 0.00022239 3.7861 0.0020134 531.7971308870968 48.264 0.30566 48.917 48.729 49.035 0.65356 22 11 2 0 0 0 0.0020335 1 22076 22076 103.82 39.863 1 447380 3545 968 2453 2457 3873 3873 0.05075536539811765 DMKQQHVIET 10 Unmodified _DMKQQHVIET_ 0 0 0 nc|ENSG00000150753|P48643-2|CCT5;ENSG00000150753|ENST00000280326|CCT5 nc|ENSG00000150753|P48643-2|CCT5 nc|ENSG00000150753|P48643-2|CCT5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 614.8054809570312 2 614.803162 1227.59177 3.7424 0.0023009 0.13412 8.2458E-05 3.8766 0.0023833 614.8033097639018 19.744 0.19401 20.403 20.313 20.507 0.6583 25 12 3 0 0 0 0.61014 2 8952 8952;9005 10.151 7.8678 1 253060 3546 3676 2454 2458 3874;3875 3874 -0.012920520679472247 DMKRHRIQF 9 Unmodified _DMKRHRIQF_ 0 0 0 ENSG00000131747|ENST00000423485|TOP2A;nc|ENSG00000131747|P11388-2|TOP2A;nc|ENSG00000131747|P11388-3|TOP2A;nc|ENSG00000131747|P11388-4|TOP2A ENSG00000131747|ENST00000423485|TOP2A ENSG00000131747|ENST00000423485|TOP2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 410.89013671875 3 410.888991 1229.64514 2.7652 0.0011362 -0.3416 -0.00014036 2.4236 0.00099583 410.8889114491814 16.97 0.31149 16.97 16.75 17.061 0 81 32 3 0 0 0 0.10169 3 7554 7461;7505;7554 43.772 35.617 1 324620 3547 2671 2455 2459 3876;3877;3878 3878 0.03950790225235323 DMKRHRIQF 9 Unmodified _DMKRHRIQF_ 0 0 0 ENSG00000131747|ENST00000423485|TOP2A;nc|ENSG00000131747|P11388-2|TOP2A;nc|ENSG00000131747|P11388-3|TOP2A;nc|ENSG00000131747|P11388-4|TOP2A ENSG00000131747|ENST00000423485|TOP2A ENSG00000131747|ENST00000423485|TOP2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 410.89013671875 3 410.888991 1229.64514 2.6564 0.0010915 0.25912 0.00010647 2.9155 0.0011979 410.88930135842526 15.24 0.57148 15.451 15.21 15.781 0.21108 197 80 3 0 0 0 0.10169 5 6766 6641;6680;6724;6766;6806 29.841 25.13 1 281400 3548 2671 2455 2459 3879;3880;3881;3882;3883 3882 0.03950790225235323 DMKRHRIQF 9 Unmodified _DMKRHRIQF_ 0 0 0 ENSG00000131747|ENST00000423485|TOP2A;nc|ENSG00000131747|P11388-2|TOP2A;nc|ENSG00000131747|P11388-3|TOP2A;nc|ENSG00000131747|P11388-4|TOP2A ENSG00000131747|ENST00000423485|TOP2A ENSG00000131747|ENST00000423485|TOP2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 410.88946533203125 3 410.888991 1229.64514 2.7303 0.0011219 -0.51252 -0.00021059 2.2178 0.00091127 410.88887954245115 14.425 0.1826 14.732 14.632 14.815 0.3069 22 7 4 0 0 0 0.028312 2 6516 6516;6559 60.074 36.273 1 2576100 3549 2671 2455 2459 3884;3885 3884 0.03950790225235323 DMKRHRIQF 9 Unmodified _DMKRHRIQF_ 0 0 0 ENSG00000131747|ENST00000423485|TOP2A;nc|ENSG00000131747|P11388-2|TOP2A;nc|ENSG00000131747|P11388-3|TOP2A;nc|ENSG00000131747|P11388-4|TOP2A ENSG00000131747|ENST00000423485|TOP2A ENSG00000131747|ENST00000423485|TOP2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 411.2243347167969 3 410.888991 1229.64514 3.053 0.0012545 -0.086336 -3.5474E-05 2.9667 0.001219 410.8889917997906 14.429 0.18378 15.078 14.973 15.156 0.6482 32 15 3 0 0 0 0.017293 1 6484 6484 57.249 30.161 1 3995700 3550 2671 2455 2459 3886 3886 0.03950790225235323 DMKRLIMVL 9 Unmodified _DMKRLIMVL_ 0 0 0 ENSG00000025796|ENST00000369002|SEC63 ENSG00000025796|ENST00000369002|SEC63 ENSG00000025796|ENST00000369002|SEC63 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.8259887695312 2 559.824855 1117.63516 3.3404 0.0018701 -0.40212 -0.00022512 2.9383 0.0016449 559.8246710057723 70.866 0.20543 71.122 70.977 71.183 0.25642 23 13 2 0 0 0 0.091193 1 32436 32436 34.932 21.026 1 590400 3551 481 2456 2460 3887 3887 0.08104466175677771 DMKRLIMVL 9 Unmodified _DMKRLIMVL_ 0 0 0 ENSG00000025796|ENST00000369002|SEC63 ENSG00000025796|ENST00000369002|SEC63 ENSG00000025796|ENST00000369002|SEC63 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.826171875 2 559.824855 1117.63516 3.1078 0.0017399 -0.17429 -9.7573E-05 2.9336 0.0016423 559.8249056173013 70.293 0.24401 70.956 70.824 71.068 0.66208 28 14 3 0 0 0 0.063112 1 32217 32217 41.956 24.843 1 663660 3552 481 2456 2460 3888 3888 0.08104466175677771 DMKSRLSSL 9 Unmodified _DMKSRLSSL_ 0 0 0 nc|ENSG00000166783|Q9Y4F3-3|MARF1;nc|ENSG00000166783|Q9Y4F3-4|MARF1;nc|ENSG00000166783|Q9Y4F3-5|MARF1;ENSG00000166783|ENST00000396368|MARF1 nc|ENSG00000166783|Q9Y4F3-3|MARF1 nc|ENSG00000166783|Q9Y4F3-3|MARF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 518.778076171875 2 518.776416 1035.53828 3.4405 0.0017848 -0.94331 -0.00048937 2.4972 0.0012955 518.7759646072262 37.875 0.36185 38.135 37.822 38.184 0.26083 18 11 2 0 0 0 0.094033 1 17227 17227 34.222 8.8224 1 333820 3553 4506 2457 2461 3889 3889 0.02193195220229427 DMKSRLSSL 9 Unmodified _DMKSRLSSL_ 0 0 0 nc|ENSG00000166783|Q9Y4F3-3|MARF1;nc|ENSG00000166783|Q9Y4F3-4|MARF1;nc|ENSG00000166783|Q9Y4F3-5|MARF1;ENSG00000166783|ENST00000396368|MARF1 nc|ENSG00000166783|Q9Y4F3-3|MARF1 nc|ENSG00000166783|Q9Y4F3-3|MARF1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 518.776416 1035.53828 3.2861 0.0017048 2.4847 0.001289 5.7708 0.0029938 519.2799403425554 37.789 0.19301 37.789 37.667 37.86 0 -0.13924 0.0029143 NaN 34.222 13 7 2 NaN NaN NaN NaN 0 NaN NaN 0 330600 3554 4506 2457 2461 0.02193195220229427 DMKSRLSSL 9 Unmodified _DMKSRLSSL_ 0 0 0 nc|ENSG00000166783|Q9Y4F3-3|MARF1;nc|ENSG00000166783|Q9Y4F3-4|MARF1;nc|ENSG00000166783|Q9Y4F3-5|MARF1;ENSG00000166783|ENST00000396368|MARF1 nc|ENSG00000166783|Q9Y4F3-3|MARF1 nc|ENSG00000166783|Q9Y4F3-3|MARF1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 518.776416 1035.53828 3.3771 0.001752 -0.15514 -8.0483E-05 3.222 0.0016715 518.7761123822854 37.231 0.40165 37.861 37.598 38 0.62999 -0.067461 0.00017536 NaN 34.222 23 16 2 NaN NaN NaN NaN 0 NaN NaN 0 242970 3555 4506 2457 2461 0.02193195220229427 DMKTKYFF 8 Unmodified _DMKTKYFF_ 0 0 0 ENST00000513139.1_1_4:177241188-177248429:+|nuORF;ENSG00000129128|ENST00000503362|SPCS3;ENST00000507678.5_1_4:177243228-177249478:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 360.5135192871094 3 360.512528 1078.51575 2.8065 0.0010118 -0.18878 -6.8056E-05 2.6177 0.0009437 360.5124718831868 51.368 0.28274 51.368 51.23 51.512 0 34 13 3 0 0 0 0.68261 2 23537 23491;23537 5.2969 1.1074 1 796070 3556 2540 2458 2462 3890;3891 3891 -0.020364041774200814 DMKTKYFF 8 Unmodified _DMKTKYFF_ 0 0 0 ENST00000513139.1_1_4:177241188-177248429:+|nuORF;ENSG00000129128|ENST00000503362|SPCS3;ENST00000507678.5_1_4:177243228-177249478:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.2665405273438 2 540.265153 1078.51575 3.463 0.0018709 -0.26058 -0.00014078 3.2024 0.0017302 540.2649489220298 51.364 0.37746 51.364 51.167 51.544 0 41 18 3 0 0 0 0.035125 2 23502 23502;23559 72.968 30.873 1 1114800 3557 2540 2458 2462 3892;3893 3892 -0.020364041774200814 DMKTKYFF 8 Unmodified _DMKTKYFF_ 0 0 0 ENST00000513139.1_1_4:177241188-177248429:+|nuORF;ENSG00000129128|ENST00000503362|SPCS3;ENST00000507678.5_1_4:177243228-177249478:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.2677612304688 2 540.265153 1078.51575 3.0992 0.0016744 0.15503 8.3755E-05 3.2542 0.0017581 540.2650271456102 50.326 0.3033 51.149 50.97 51.273 0.82285 34 15 3 0 0 0 0.15709 2 22903 22903;22958 47.594 25.848 1 641360 3558 2540 2458 2462 3894;3895 3894 -0.020364041774200814 DMKTKYFF 8 Unmodified _DMKTKYFF_ 0 0 0 ENST00000513139.1_1_4:177241188-177248429:+|nuORF;ENSG00000129128|ENST00000503362|SPCS3;ENST00000507678.5_1_4:177243228-177249478:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.2669677734375 2 540.265153 1078.51575 3.0721 0.0016598 0.15973 8.6299E-05 3.2319 0.0017461 540.2653052494388 51.41 0.30199 51.672 51.49 51.792 0.26227 37 14 4 0 0 0 0.0087265 2 23496 23439;23496 114.65 58.472 1 4838100 3559 2540 2458 2462 3896;3897 3897 -0.020364041774200814 DMKTKYFF 8 Unmodified _DMKTKYFF_ 0 0 0 ENST00000513139.1_1_4:177241188-177248429:+|nuORF;ENSG00000129128|ENST00000503362|SPCS3;ENST00000507678.5_1_4:177243228-177249478:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.51318359375 3 360.512528 1078.51575 2.4569 0.00088573 0.064068 2.3097E-05 2.5209 0.00090883 360.5124953217774 51.406 0.25385 51.669 51.49 51.744 0.26227 27 11 3 0 0 0 0.38743 2 23476 23476;23526 23.79 5.6434 1 3643900 3560 2540 2458 2462 3898;3899 3898 -0.020364041774200814 DMKTKYFF 8 Unmodified _DMKTKYFF_ 0 0 0 ENST00000513139.1_1_4:177241188-177248429:+|nuORF;ENSG00000129128|ENST00000503362|SPCS3;ENST00000507678.5_1_4:177243228-177249478:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.2669677734375 2 540.265153 1078.51575 3.2129 0.0017358 0.0022174 1.198E-06 3.2151 0.001737 540.2651394647768 50.772 0.37898 51.431 51.205 51.584 0.65956 54 21 3 0 0 0 0.0096139 3 23214 23162;23214;23264 103.35 55.605 1 3639800 3561 2540 2458 2462 3900;3901;3902 3901 -0.020364041774200814 DMKTKYFF 8 Unmodified _DMKTKYFF_ 0 0 0 ENST00000513139.1_1_4:177241188-177248429:+|nuORF;ENSG00000129128|ENST00000503362|SPCS3;ENST00000507678.5_1_4:177243228-177249478:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.5140380859375 3 360.512528 1078.51575 2.3892 0.00086133 0.3204 0.00011551 2.7096 0.00097684 360.51257949528485 50.753 0.34583 51.413 51.219 51.565 0.65956 49 19 3 0 0 0 0.47805 2 23183 23183;23228 18.373 5.3306 1 3087100 3562 2540 2458 2462 3903;3904 3903 -0.020364041774200814 DMKTKYFFF 9 Unmodified _DMKTKYFFF_ 0 0 0 ENST00000513139.1_1_4:177241188-177248429:+|nuORF;ENSG00000129128|ENST00000503362|SPCS3;ENST00000507678.5_1_4:177243228-177249478:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 409.5360107421875 3 409.535332 1225.58417 2.0747 0.00084967 -0.40128 -0.00016434 1.6734 0.00068534 409.53510364503626 70.69 0.17338 70.69 70.603 70.776 0 28 17 2 0 0 0 0.1081 1 34329 34329 30.703 19.904 1 1361000 3563 2540 2459 2463 3905 3905 -0.019601595975700548 DMKTKYFFF 9 Unmodified _DMKTKYFFF_ 0 0 0 ENST00000513139.1_1_4:177241188-177248429:+|nuORF;ENSG00000129128|ENST00000503362|SPCS3;ENST00000507678.5_1_4:177243228-177249478:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.53558349609375 3 409.535332 1225.58417 2.108 0.00086329 -0.18792 -7.6958E-05 1.9201 0.00078634 409.53520507022677 69.638 0.26678 70.341 70.208 70.475 0.70302 46 27 2 0 0 0 0.43294 1 33329 33329 13.615 7.3805 1 1064600 3564 2540 2459 2463 3906 3906 -0.019601595975700548 DMKTKYFFF 9 Unmodified _DMKTKYFFF_ 0 0 0 ENST00000513139.1_1_4:177241188-177248429:+|nuORF;ENSG00000129128|ENST00000503362|SPCS3;ENST00000507678.5_1_4:177243228-177249478:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.79931640625 2 613.79936 1225.58417 NaN NaN NaN NaN NaN NaN NaN 69.665 1 70.368 69.868 70.868 0.70302 0 0 0 0.031788 1 33352 33352 63.227 36.344 1 3565 2540 2459 2463 3907 3907 -0.019601595975700548 DMKTKYFFF 9 Unmodified _DMKTKYFFF_ 0 0 0 ENST00000513139.1_1_4:177241188-177248429:+|nuORF;ENSG00000129128|ENST00000503362|SPCS3;ENST00000507678.5_1_4:177243228-177249478:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.53662109375 3 409.535332 1225.58417 2.7732 0.0011357 -0.016319 -6.6831E-06 2.7568 0.001129 409.5353652496107 70.72 0.36148 70.977 70.775 71.137 0.25642 65 20 4 0 0 0 0.082627 3 32349 32349;32401;32443 37.075 26.275 1 4117900 3566 2540 2459 2463 3908;3909;3910 3908 -0.019601595975700548 DMKTKYFFF 9 Unmodified _DMKTKYFFF_ 0 0 0 ENST00000513139.1_1_4:177241188-177248429:+|nuORF;ENSG00000129128|ENST00000503362|SPCS3;ENST00000507678.5_1_4:177243228-177249478:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.8023071289062 2 613.79936 1225.58417 3.3764 0.0020725 -0.026706 -1.6392E-05 3.3497 0.0020561 613.7995291369257 70.726 0.35402 70.983 70.796 71.15 0.25642 62 20 4 0 0 0 7.0178E-09 3 32350 32350;32403;32445 173.69 127.67 1 3511900 3567 2540 2459 2463 3911;3912;3913 3911 -0.019601595975700548 DMKTKYFFF 9 Unmodified _DMKTKYFFF_ 0 0 0 ENST00000513139.1_1_4:177241188-177248429:+|nuORF;ENSG00000129128|ENST00000503362|SPCS3;ENST00000507678.5_1_4:177243228-177249478:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.53643798828125 3 409.535332 1225.58417 2.5544 0.0010461 -0.19879 -8.1414E-05 2.3557 0.00096472 409.535339593605 70.169 0.36435 70.83 70.652 71.017 0.66071 72 22 4 0 0 0 0.057456 3 32167 32122;32167;32213 43.982 28.733 1 4414900 3568 2540 2459 2463 3914;3915;3916 3915 -0.019601595975700548 DMKTKYFFF 9 Unmodified _DMKTKYFFF_ 0 0 0 ENST00000513139.1_1_4:177241188-177248429:+|nuORF;ENSG00000129128|ENST00000503362|SPCS3;ENST00000507678.5_1_4:177243228-177249478:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 613.8016357421875 2 613.79936 1225.58417 3.1382 0.0019262 -0.36625 -0.0002248 2.772 0.0017014 613.7993715739361 70.171 0.39381 70.832 70.623 71.017 0.66071 71 24 4 0 0 0 7.0178E-09 3 32173 32123;32173;32223 173.69 137.18 1 4022600 3569 2540 2459 2463 3917;3918;3919 3918 -0.019601595975700548 DMKTKYFFF 9 Oxidation (M) _DM(Oxidation (M))KTKYFFF_ DM(1)KTKYFFF DM(51)KTKYFFF 0 0 1 ENST00000513139.1_1_4:177241188-177248429:+|nuORF;ENSG00000129128|ENST00000503362|SPCS3;ENST00000507678.5_1_4:177243228-177249478:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 621.7988891601562 2 621.796817 1241.57908 3.8124 0.0023705 -0.92004 -0.00057208 2.8924 0.0017985 621.7966222227424 66.16 0.28999 66.408 66.312 66.602 0.24848 37 17 3 0 0 0 0.04013 1 30287 30287 51.415 28.267 1 766760 3570 2540 2459 2464 3920 3920 36 -0.03204463460201623 DMKTKYFFF 9 Oxidation (M) _DM(Oxidation (M))KTKYFFF_ DM(1)KTKYFFF DM(53)KTKYFFF 0 0 1 ENST00000513139.1_1_4:177241188-177248429:+|nuORF;ENSG00000129128|ENST00000503362|SPCS3;ENST00000507678.5_1_4:177243228-177249478:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 621.799072265625 2 621.796817 1241.57908 3.7945 0.0023594 -1.1324 -0.00070413 2.6621 0.0016553 621.7970518065569 65.587 0.33457 66.243 66.056 66.39 0.65672 40 17 4 0 0 0 0.035698 1 30038 30038 53.317 24.83 1 890970 3571 2540 2459 2464 3921 3921 36 -0.03204463460201623 DMKTMINVQ 9 Unmodified _DMKTMINVQ_ 0 0 0 REV__ENSG00000111231|ENST00000228827|GPN3 REV__ENSG00000111231|ENST00000228827|GPN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 360.5133056640625 3 360.51231 1078.5151 2.3789 0.00085763 0.26951 9.7163E-05 2.6484 0.00095479 360.5125011779911 50.325 0.26629 51.148 51.007 51.273 0.82285 31 13 3 0 0 0 0.26277 1 22929 22929 13.615 2.1202 1 694070 + 3572 11224 2460 2465 3922 3922 -0.021015668887685024 DMKTMINVQ 9 Unmodified _DMKTMINVQ_ 0 0 0 REV__ENSG00000111231|ENST00000228827|GPN3 REV__ENSG00000111231|ENST00000228827|GPN3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 360.51231 1078.5151 2.3789 0.00085763 0.26951 9.7163E-05 2.6484 0.00095479 360.5125011779911 50.325 0.26629 51.148 51.007 51.273 0.82285 -0.10976 -9.0659E-05 NaN 13.615 31 13 3 NaN NaN NaN NaN 0 NaN NaN 0 694070 + 3573 11224 2460 2465 -0.021015668887685024 DMKYKNRV 8 Unmodified _DMKYKNRV_ 0 0 0 ENST00000521086.6_1_8:54891227-54912595:-|nuORF;nc|ENSG00000187735|P23193-2|TCEA1;ENSG00000187735|ENST00000521604|TCEA1;ENST00000395053.7_1_20:62701563-62701860:+|nuORF;ENST00000465111.5_1_20:62701563-62703530:+|nuORF;ENST00000477783.5_1_20:62701125-62703530:+|nuORF;nc|ENSG00000171703|Q15560-2|TCEA2;ENSG00000171703|ENST00000343484|TCEA2 ENST00000521086.6_1_8:54891227-54912595:-|nuORF ENST00000521086.6_1_8:54891227-54912595:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.8558044433594 3 351.855176 1052.5437 NaN NaN NaN NaN NaN NaN NaN 12.468 1 12.468 11.968 12.968 0 0 0 0 0.11842 1 5420 5420 49.933 25.912 1 3574 5631 2461 2466 3923 3923 0.019529188026808697 DMKYKNRV 8 Unmodified _DMKYKNRV_ 0 0 0 ENST00000521086.6_1_8:54891227-54912595:-|nuORF;nc|ENSG00000187735|P23193-2|TCEA1;ENSG00000187735|ENST00000521604|TCEA1;ENST00000395053.7_1_20:62701563-62701860:+|nuORF;ENST00000465111.5_1_20:62701563-62703530:+|nuORF;ENST00000477783.5_1_20:62701125-62703530:+|nuORF;nc|ENSG00000171703|Q15560-2|TCEA2;ENSG00000171703|ENST00000343484|TCEA2 ENST00000521086.6_1_8:54891227-54912595:-|nuORF ENST00000521086.6_1_8:54891227-54912595:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.8556823730469 3 351.855176 1052.5437 NaN NaN NaN NaN NaN NaN NaN 12.373 1 12.681 12.181 13.181 0.30727 0 0 0 0.10928 1 5566 5566 52.268 31.815 1 3575 5631 2461 2466 3924 3924 0.019529188026808697 DMLLELEEQL 10 Unmodified _DMLLELEEQL_ 0 0 0 ENSG00000124831|ENST00000308482|LRRFIP1;nc|ENSG00000124831|Q32MZ4-3|LRRFIP1;nc|ENSG00000124831|Q32MZ4-2|LRRFIP1;nc|ENSG00000124831|Q32MZ4|LRRFIP1 ENSG00000124831|ENST00000308482|LRRFIP1 ENSG00000124831|ENST00000308482|LRRFIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 411.5428161621094 3 411.540811 1231.60061 2.6416 0.0010871 1.5623 0.00064297 4.2039 0.0017301 411.5414320684585 33.096 0.27222 33.096 32.902 33.174 0 26 15 3 0 0 0 0.79369 1 14990 14990 5.0475 0 1 538640 3576 2384 2462 2467 3925 3925 -0.005931232221200844 DMLVKVNAL 9 Unmodified _DMLVKVNAL_ 0 0 0 ENST00000472067.1_1_7:143000848-143002161:+|nuORF;ENST00000493642.5_1_7:142991831-143002161:+|nuORF;ENSG00000106144|ENST00000310447|CASP2 ENST00000472067.1_1_7:143000848-143002161:+|nuORF ENST00000472067.1_1_7:143000848-143002161:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.7874450683594 2 501.786253 1001.55795 NaN NaN NaN NaN NaN NaN NaN 62.932 1 63.182 62.682 63.682 0.24965 0 0 0 0.0027835 1 28820 28820 96.111 47.765 1 3577 1555 2463 2468 3926 3926 0.05723571230964808 DMLVKVNAL 9 Unmodified _DMLVKVNAL_ 0 0 0 ENST00000472067.1_1_7:143000848-143002161:+|nuORF;ENST00000493642.5_1_7:142991831-143002161:+|nuORF;ENSG00000106144|ENST00000310447|CASP2 ENST00000472067.1_1_7:143000848-143002161:+|nuORF ENST00000472067.1_1_7:143000848-143002161:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.7877197265625 2 501.786253 1001.55795 NaN NaN NaN NaN NaN NaN NaN 62.275 1 62.936 62.436 63.436 0.66008 0 0 0 0.022529 1 28537 28537 69.105 29.148 1 3578 1555 2463 2468 3927 3927 0.05723571230964808 DMLVKVNAL 9 Unmodified _DMLVKVNAL_ 0 0 0 ENST00000472067.1_1_7:143000848-143002161:+|nuORF;ENST00000493642.5_1_7:142991831-143002161:+|nuORF;ENSG00000106144|ENST00000310447|CASP2 ENST00000472067.1_1_7:143000848-143002161:+|nuORF ENST00000472067.1_1_7:143000848-143002161:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.7881164550781 2 501.786253 1001.55795 NaN NaN NaN NaN NaN NaN NaN 62.38 1 63.04 62.54 63.54 0.66008 0 0 0 0.088432 1 28586 28586 43.858 3.901 1 3579 1555 2463 2468 3928 3928 0.05723571230964808 DMNLIWLGVGG 11 Unmodified _DMNLIWLGVGG_ 0 0 0 REV__ENST00000544562.5_1_14:23067206-23078652:+|nuORF REV__ENST00000544562.5_1_14:23067206-23078652:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.7975463867188 2 587.799891 1173.58523 NaN NaN NaN NaN NaN NaN NaN 92.541 1 92.794 92.294 93.294 0.25253 0 0 0 1.0071 1 42540 42540 1.4819 0.68827 1 + 3580 17239 2464 2469 3929 3929 0.0053805477134574176 DMNMPALE 8 Unmodified _DMNMPALE_ 0 0 0 ENSG00000174844|ENST00000495027|DNAH12;nc|ENSG00000174844|Q6ZR08|DNAH12 ENSG00000174844|ENST00000495027|DNAH12 ENSG00000174844|ENST00000495027|DNAH12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 307.4683532714844 3 307.466589 919.377939 NaN NaN NaN NaN NaN NaN NaN 63.814 1 64.47 63.97 64.97 0.65672 0 0 0 0.99035 1 29245 29245 1.4819 1.0236 1 3581 4999 2465 2470 3930 3930 -0.0849747576834261 DMPAATMDDI 10 Unmodified _DMPAATMDDI_ 0 0 0 REV__ENSG00000117748|ENST00000373912|RPA2 REV__ENSG00000117748|ENST00000373912|RPA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.224853515625 2 540.222825 1078.4311 3.4512 0.0018644 -0.39647 -0.00021418 3.0548 0.0016503 540.2225086587488 65.456 0.16907 66.112 65.995 66.164 0.65672 10 7 2 0 0 0 0.90196 1 30014 30014 3.5965 0 1 360290 + 3582 11453 2466 2471 3931 3931 -0.10498142776350505 DMPAATMDDI 10 Unmodified _DMPAATMDDI_ 0 0 0 REV__ENSG00000117748|ENST00000373912|RPA2 REV__ENSG00000117748|ENST00000373912|RPA2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 540.222825 1078.4311 3.3577 0.0018139 0.10305 5.567E-05 3.4607 0.0018696 540.2225946884323 66.014 0.16511 66.263 66.147 66.312 0.24848 0.075221 0.0003576 NaN 3.5965 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 429670 + 3583 11453 2466 2471 -0.10498142776350505 DMPAATMDDI 10 Unmodified _DMPAATMDDI_ 0 0 0 REV__ENSG00000117748|ENST00000373912|RPA2 REV__ENSG00000117748|ENST00000373912|RPA2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 540.222825 1078.4311 3.4512 0.0018644 -0.39647 -0.00021418 3.0548 0.0016503 540.2225086587488 65.456 0.16907 66.112 65.995 66.164 0.65672 -0.075221 -0.00018211 NaN 3.5965 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 360290 + 3584 11453 2466 2471 -0.10498142776350505 DMPNLSLSWL 10 Oxidation (M) _DM(Oxidation (M))PNLSLSWL_ DM(1)PNLSLSWL DM(44)PNLSLSWL 0 0 1 REV__ENST00000558523.1_1_14:102821996-102829188:-|nuORF REV__ENST00000558523.1_1_14:102821996-102829188:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.2916870117188 2 596.289356 1190.56416 3.0877 0.0018412 0.23696 0.0001413 3.3247 0.0019825 596.2895163603761 34.111 0.5452 34.111 33.769 34.314 0 70 32 3 0 0 0 0.16336 1 15421 15421 43.858 18.459 1 2601100 + 3585 17345 2467 2472 3932 3932 102 -0.023499553281681074 DMPNLSLSWL 10 Unmodified _DMPNLSLSWL_ 0 0 0 REV__ENST00000558523.1_1_14:102821996-102829188:-|nuORF REV__ENST00000558523.1_1_14:102821996-102829188:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 588.2940063476562 2 588.291899 1174.56925 3.5208 0.0020713 -0.36399 -0.00021413 3.1568 0.0018571 588.2918059297479 40.561 0.32248 40.561 40.37 40.692 0 38 17 3 0 0 0 0.22696 2 18441 18384;18441 36.127 21.289 1 5255800 + 3586 17345 2467 2473 3933;3934 3934 -0.011056514655592764 DMPNLSLSWL 10 Unmodified _DMPNLSLSWL_ 0 0 0 REV__ENST00000558523.1_1_14:102821996-102829188:-|nuORF REV__ENST00000558523.1_1_14:102821996-102829188:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.2933959960938 2 588.291899 1174.56925 3.3533 0.0019727 -0.048086 -2.8288E-05 3.3052 0.0019444 588.2919176862071 39.692 0.45499 40.492 40.235 40.69 0.80014 64 22 4 0 0 0 0.28649 4 17947 17899;17947;17994;18056 29.082 11.096 1 2556200 + 3587 17345 2467 2473 3935;3936;3937;3938 3936 -0.011056514655592764 DMPNLSLSWL 10 Unmodified _DMPNLSLSWL_ 0 0 0 REV__ENST00000558523.1_1_14:102821996-102829188:-|nuORF REV__ENST00000558523.1_1_14:102821996-102829188:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.2942504882812 2 588.291899 1174.56925 3.6824 0.0021663 -0.041578 -2.446E-05 3.6409 0.0021419 588.2920151638185 40.352 0.35275 40.621 40.406 40.759 0.26904 29 11 4 0 0 0 0.60841 2 18322 18322;18380 17.113 4.0704 1 3657000 + 3588 17345 2467 2473 3939;3940 3939 -0.011056514655592764 DMPNLSLSWL 10 Unmodified _DMPNLSLSWL_ 0 0 0 REV__ENST00000558523.1_1_14:102821996-102829188:-|nuORF REV__ENST00000558523.1_1_14:102821996-102829188:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.2933959960938 2 588.291899 1174.56925 3.8367 0.0022571 -0.52474 -0.0003087 3.3119 0.0019484 588.2915239780933 39.898 0.30925 40.539 40.355 40.664 0.64135 37 12 4 0 0 0 0.4567 2 18245 18198;18245 22.736 7.898 1 2751200 + 3589 17345 2467 2473 3941;3942 3942 -0.011056514655592764 DMPNLSLSWL 10 Unmodified _DMPNLSLSWL_ 0 0 0 REV__ENST00000558523.1_1_14:102821996-102829188:-|nuORF REV__ENST00000558523.1_1_14:102821996-102829188:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 588.291899 1174.56925 3.5208 0.0020713 -0.36399 -0.00021413 3.1568 0.0018571 588.2918059297479 40.561 0.32248 40.561 40.37 40.692 0 0.0075513 -0.00018428 NaN 36.127 38 17 3 NaN NaN NaN NaN 0 NaN NaN 0 5255800 + 3590 17345 2467 2473 -0.011056514655592764 DMPPRLIRI 9 Unmodified _DMPPRLIRI_ 0 0 0 REV__ENST00000360311.4_1_3:32023272-32030257:+|nuORF REV__ENST00000360311.4_1_3:32023272-32030257:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.6421508789062 2 555.826243 1109.63793 NaN NaN NaN NaN NaN NaN NaN 53.64 1 53.64 53.14 54.14 0 0 0 0 0.86044 1 24586 24586 7.2892 1.5288 1 + 3591 15605 2468 2474 3943 3943 0.08750057624820329 DMPYLPKP 8 Oxidation (M) _DM(Oxidation (M))PYLPKP_ DM(1)PYLPKP DM(57)PYLPKP 0 0 1 REV__ENSG00000168301|ENST00000404589|KCTD6 REV__ENSG00000168301|ENST00000404589|KCTD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 488.7464599609375 2 488.744053 975.473554 2.9362 0.001435 0.17406 8.5073E-05 3.1102 0.0015201 488.7442081490881 34.99 0.57659 34.99 34.599 35.175 0 58 40 2 0 0 0 0.074456 1 15788 15788 57.471 13.064 1 3127300 + 3592 13341 2469 2475 3944 3944 96 -0.01516379585791583 DMPYLPKP 8 Oxidation (M) _DM(Oxidation (M))PYLPKP_ DM(1)PYLPKP DM(48)PYLPKP 0 0 1 REV__ENSG00000168301|ENST00000404589|KCTD6 REV__ENSG00000168301|ENST00000404589|KCTD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.7455139160156 2 488.744053 975.473554 3.1502 0.0015396 -1.3238 -0.00064699 1.8264 0.00089263 488.74383610062677 34.383 0.51665 35.006 34.755 35.271 0.62294 60 19 4 0 0 0 0.15009 1 15682 15682 48.346 12.302 1 2447400 + 3593 13341 2469 2475 3945 3945 96 -0.01516379585791583 DMPYLPKP 8 Unmodified _DMPYLPKP_ 0 0 0 REV__ENSG00000168301|ENST00000404589|KCTD6 REV__ENSG00000168301|ENST00000404589|KCTD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.7478332519531 2 480.746596 959.478639 3.0548 0.0014686 -0.80687 -0.0003879 2.2479 0.0010807 480.7463779687859 41.846 0.47187 41.846 41.645 42.117 0 96 40 3 0 0 0 0.49219 1 19125 19125 21.747 4.6601 1 5400200 + 3594 13341 2469 2476 3946 3946 -0.0027207572318275197 DMPYLPKP 8 Unmodified _DMPYLPKP_ 0 0 0 REV__ENSG00000168301|ENST00000404589|KCTD6 REV__ENSG00000168301|ENST00000404589|KCTD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.74847412109375 2 480.746596 959.478639 3.3228 0.0015974 -0.64105 -0.00030818 2.6817 0.0012892 480.74656235084933 41.647 0.35756 41.917 41.716 42.074 0.27021 54 16 4 0 0 0 0.49219 1 18910 18910 21.747 4.8044 1 5390500 + 3595 13341 2469 2476 3947 3947 -0.0027207572318275197 DMPYLPKP 8 Unmodified _DMPYLPKP_ 0 0 0 REV__ENSG00000168301|ENST00000404589|KCTD6 REV__ENSG00000168301|ENST00000404589|KCTD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.7477722167969 2 480.746596 959.478639 3.3148 0.0015936 -0.65801 -0.00031633 2.6568 0.0012772 480.7462425863187 41.057 0.20733 41.701 41.638 41.845 0.64451 27 19 2 0 0 0 0.56084 1 18843 18843 16.942 2.3606 1 11384000 + 3596 13341 2469 2476 3948 3948 -0.0027207572318275197 DMQEITQHF 9 Unmodified _DMQEITQHF_ 0 0 0 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;ENST00000518010.5_1_8:134269105-134296554:-|nuORF;nc|ENSG00000101079|Q9UGV2-2|NDRG3;ENSG00000101079|ENST00000349004|NDRG3 ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.7571411132812 2 574.755681 1147.49681 NaN NaN NaN NaN NaN NaN NaN 53.754 1 54.018 53.518 54.518 0.26462 0 0 0 0.19548 1 24583 24583 31.268 16.43 1 3597 1438 2470 2477 3949 3949 -0.07103985539151836 DMQKKTQEL 9 Unmodified _DMQKKTQEL_ 0 0 0 nc|ENSG00000116641|Q96N67-4|DOCK7;nc|ENSG00000116641|Q96N67-3|DOCK7;nc|ENSG00000116641|Q96N67-5|DOCK7;nc|ENSG00000116641|Q96N67-2|DOCK7;nc|ENSG00000116641|Q96N67-6|DOCK7;ENSG00000116641|ENST00000635253|DOCK7 nc|ENSG00000116641|Q96N67-4|DOCK7 nc|ENSG00000116641|Q96N67-4|DOCK7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.1943054199219 3 374.193746 1119.55941 2.1057 0.00078793 -0.31982 -0.00011967 1.7859 0.00066826 374.19363236651157 12.879 0.15323 13.187 13.125 13.279 0.30727 7 4 2 0 0 0 0.95612 1 5837 5837 2.7352 0 1 238840 3598 2035 2471 2478 3950 3950 0.004411605290670195 DMRGKELEV 9 Unmodified _DMRGKELEV_ 0 0 0 ENSG00000135862|ENST00000258341|LAMC1;ENST00000495918.1_1_1:183103830-183107010:+|nuORF ENSG00000135862|ENST00000258341|LAMC1 ENSG00000135862|ENST00000258341|LAMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.51910400390625 3 359.518341 1075.53319 2.4576 0.00088357 0.45792 0.00016463 2.9156 0.0010482 359.51851683486046 28.09 0.1921 28.352 28.196 28.388 0.26245 22 13 2 0 0 0 0.59776 1 12750 12750 10.8 5.9025 1 464500 3599 2904 2472 2479 3951 3951 -0.0015510864241150557 DMRGKELEV 9 Unmodified _DMRGKELEV_ 0 0 0 ENSG00000135862|ENST00000258341|LAMC1;ENST00000495918.1_1_1:183103830-183107010:+|nuORF ENSG00000135862|ENST00000258341|LAMC1 ENSG00000135862|ENST00000258341|LAMC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.51959228515625 3 359.518341 1075.53319 NaN NaN NaN NaN NaN NaN NaN 27.671 1 28.292 27.792 28.792 0.62179 0 0 0 0.796 1 12686 12686 9.544 1.935 1 3600 2904 2472 2479 3952 3952 -0.0015510864241150557 DMVCCGGE 8 Unmodified _DMVCCGGE_ 0 0 0 REV__nc|ENSG00000005189|Q96IC2-2|REXO5 REV__nc|ENSG00000005189|Q96IC2-2|REXO5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 407.4459228515625 2 407.132424 812.250296 NaN NaN NaN NaN NaN NaN NaN 71.262 1 71.966 71.466 72.466 0.70386 0 0 0 0.99035 1 34216 34216 0.69038 0 1 + 3601 10176 2473 2480 3953 3953 -0.1633393963402341 DMVCCGGE 8 Unmodified _DMVCCGGE_ 0 0 0 REV__nc|ENSG00000005189|Q96IC2-2|REXO5 REV__nc|ENSG00000005189|Q96IC2-2|REXO5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.135498046875 2 407.132424 812.250296 NaN NaN NaN NaN NaN NaN NaN 59.37 1 59.63 59.13 60.13 0.2593 0 0 0 0.99035 1 27186 27186 0.69038 0 1 + 3602 10176 2473 2480 3954 3954 -0.1633393963402341 DMVCCGGE 8 Unmodified _DMVCCGGE_ 0 0 0 REV__nc|ENSG00000005189|Q96IC2-2|REXO5 REV__nc|ENSG00000005189|Q96IC2-2|REXO5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.1354675292969 2 407.132424 812.250296 NaN NaN NaN NaN NaN NaN NaN 60.275 1 60.53 60.03 61.03 0.25578 0 0 0 0.99035 1 27599 27599 0.69038 0 1 + 3603 10176 2473 2480 3955 3955 -0.1633393963402341 DMVRFLLEA 9 Unmodified _DMVRFLLEA_ 0 0 0 ENSG00000131503|ENST00000360839|ANKHD1;nc|ENSG00000131503|Q8IWZ3-5|ANKHD1;nc|ENSG00000131503|Q8IWZ3-3|ANKHD1;nc|ENSG00000131503|Q8IWZ3-2|ANKHD1;nc|ENSG00000131503|Q8IWZ3-4|ANKHD1;nc|ENSG00000131503|Q8IWZ3-6|ANKHD1 ENSG00000131503|ENST00000360839|ANKHD1 ENSG00000131503|ENST00000360839|ANKHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.1964416503906 3 365.195198 1092.56377 NaN NaN NaN NaN NaN NaN NaN 79.701 1 79.95 79.45 80.45 0.24947 0 0 0 0.90699 1 36699 36699 0.96228 0 1 3604 2664 2474 2481 3956 3956 0.021186697426401224 DNCEEEEDCD 10 Unmodified _DNCEEEEDCD_ 0 0 0 REV__ENSG00000176635|ENST00000336726|HORMAD2 REV__ENSG00000176635|ENST00000336726|HORMAD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 600.6690673828125 2 600.668808 1199.32306 NaN NaN NaN NaN NaN NaN NaN 40.567 1 41.371 40.871 41.871 0.80351 0 0 0 1.002 1 18376 18376 0 0 1 + 3605 13710 2475 2482 3957 3957 -0.2686260388820756 DNDEDDSDDSK 11 Unmodified _DNDEDDSDDSK_ 0 0 0 ENST00000567636.1_1_18:30092709-30093042:+|nuORF ENST00000567636.1_1_18:30092709-30093042:+|nuORF ENST00000567636.1_1_18:30092709-30093042:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 627.852783203125 2 627.715658 1253.41676 NaN NaN NaN NaN NaN NaN NaN 94.457 1 94.457 93.957 94.957 0 0 0 0 1.0065 1 50675 50675 2.2828 0.43854 1 3606 9060 2476 2483 3958 3958 -0.1998084518993437 DNFSCSLCSY 10 Unmodified _DNFSCSLCSY_ 0 0 0 nc|ENSG00000148516|P37275-4|ZEB1;nc|ENSG00000148516|P37275-3|ZEB1;nc|ENSG00000148516|P37275-5|ZEB1;ENST00000488625.6_1_10:31676182-31816189:+|nuORF;nc|ENSG00000148516|P37275|ZEB1;ENSG00000148516|ENST00000424869|ZEB1 nc|ENSG00000148516|P37275-4|ZEB1 nc|ENSG00000148516|P37275-4|ZEB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.1449279785156 3 380.144175 1137.4107 2.7452 0.0010436 -0.59151 -0.00022486 2.1536 0.0008187 380.14385472067585 17.166 0.56813 17.826 17.469 18.037 0.66072 81 43 3 0 0 0 0.94246 1 7678 7678 0.13989 0 1 367490 3607 9684 2477 2484 3959 3959 -0.1525131343614703 DNLLTEKYYV 10 Unmodified _DNLLTEKYYV_ 0 0 0 REV__MAP3K15|p.E1259*|1|0.27|ENSG00000180815|chrX:19361498-19361499|-/A|frameshift_variant REV__MAP3K15|p.E1259*|1|0.27|ENSG00000180815|chrX:19361498-19361499|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 629.3243408203125 2 629.321711 1256.62887 4.559 0.0028691 -1.3501 -0.00084965 3.2089 0.0020194 629.3206652634531 103.39 0.21059 103.7 103.59 103.8 0.31863 25 16 2 0 0 0 0.93534 1 47824 47824 1.8442 0.36234 1 858480 + 3608 13831 2478 2485 3960 3960 0.0108194274946527 DNPIQTVSL 9 Unmodified _DNPIQTVSL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2;ENST00000572932.1_1_16:16374097-16382502:+|nuORF ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 493.7631530761719 2 493.761289 985.508025 3.3099 0.0016343 0.26173 0.00012923 3.5717 0.0017636 493.76132762009047 51.131 0.27962 51.131 51.007 51.287 0 44 14 4 0 0 0 0.020151 1 23381 23381 68.081 2.8457 1 3608400 3609 1384 2479 2486 3961 3961 0.014691598266608707 DNQDDDSD 8 Unmodified _DNQDDDSD_ 0 0 0 nc|ENSG00000162852|Q6PJW8-2|CNST;ENSG00000162852|ENST00000366513|CNST nc|ENSG00000162852|Q6PJW8-2|CNST nc|ENSG00000162852|Q6PJW8-2|CNST MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.2724304199219 2 462.146683 922.278813 NaN NaN NaN NaN NaN NaN NaN 40.166 1 40.433 39.933 40.933 0.26696 0 0 0 0.99035 1 18275 18275 0.69038 0 1 3610 4172 2480 2487 3962 3962 -0.18543503927901384 DNQEDSHYQ 9 Unmodified _DNQEDSHYQ_ 0 0 0 REV__ENSG00000222036|ENST00000547889|POTEM REV__ENSG00000222036|ENST00000547889|POTEM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.2206420898438 2 568.217974 1134.4214 NaN NaN NaN NaN NaN NaN NaN 70.595 1 70.851 70.351 71.351 0.25642 0 0 0 0.89983 1 32331 32331 3.5965 1.5367 1 + 3611 14101 2481 2488 3963 3963 -0.14043871465855773 DNRCEPCYWED 11 Unmodified _DNRCEPCYWED_ 0 0 0 REV__nc|ENSG00000276043|Q96T88-2|UHRF1 REV__nc|ENSG00000276043|Q96T88-2|UHRF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 715.2599487304688 2 715.261001 1428.50745 NaN NaN NaN NaN NaN NaN NaN 79.685 1 79.935 79.435 80.435 0.24947 0 0 0 1.008 1 36692 36692 0.30703 0 1 + 3612 14740 2482 2489 3964 3964 -0.189663709469869 DPAQEYTL 8 Unmodified _DPAQEYTL_ 0 0 0 ENSG00000102595|ENST00000376747|UGGT2 ENSG00000102595|ENST00000376747|UGGT2 ENSG00000102595|ENST00000376747|UGGT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 468.7209167480469 2 468.71909 935.423627 NaN NaN NaN NaN NaN NaN NaN 48.578 1 49.405 48.905 49.905 0.82705 0 0 0 0.86133 1 22130 22130 14.838 6.245 1 3613 1349 2483 2490 3965 3965 -0.04666790990074787 DPASCPCCQH 10 Unmodified _DPASCPCCQH_ 0 0 0 nc|ENSG00000100346|Q9P0X4-3|CACNA1I;nc|ENSG00000100346|Q9P0X4-2|CACNA1I;nc|ENSG00000100346|Q9P0X4-4|CACNA1I;ENSG00000100346|ENST00000402142|CACNA1I nc|ENSG00000100346|Q9P0X4-3|CACNA1I nc|ENSG00000100346|Q9P0X4-3|CACNA1I MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.4083251953125 2 530.685887 1059.35722 NaN NaN NaN NaN NaN NaN NaN 96.441 1 96.518 96.018 97.018 0.076538 0 0 0 0.99812 1 51251 51251 3.2813 0.70383 1 3614 1208 2484 2491 3966 3966 -0.17008389419652303 DPASVCAIL 9 Unmodified _DPASVCAIL_ 0 0 0 REV__nc|ENSG00000101901|Q9NP73-2|ALG13 REV__nc|ENSG00000101901|Q9NP73-2|ALG13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 444.7298278808594 2 444.728403 887.442254 2.2838 0.0010156 -0.38608 -0.0001717 1.8977 0.00084395 444.7284910296881 67.107 0.22691 67.107 66.96 67.187 0 56 29 3 0 0 0 0.12301 1 32098 32098 28.487 3.0875 1 3234700 + 3615 9939 2485 2492 3967 3967 -0.005969526198668973 DPASVCAIL 9 Unmodified _DPASVCAIL_ 0 0 0 REV__nc|ENSG00000101901|Q9NP73-2|ALG13 REV__nc|ENSG00000101901|Q9NP73-2|ALG13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 444.7295227050781 2 444.728403 887.442254 2.1214 0.00094346 -0.016687 -7.4211E-06 2.1047 0.00093604 444.7284742734528 66.194 0.34084 66.898 66.701 67.042 0.7047 98 43 3 0 0 0 0.086747 1 31307 31307 36.044 1.9418 1 5230000 + 3616 9939 2485 2492 3968 3968 -0.005969526198668973 DPASVCAIL 9 Unmodified _DPASVCAIL_ 0 0 0 REV__nc|ENSG00000101901|Q9NP73-2|ALG13 REV__nc|ENSG00000101901|Q9NP73-2|ALG13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 444.7296447753906 2 444.728403 887.442254 3.0508 0.0013568 -0.55148 -0.00024526 2.4993 0.0011115 444.72828300760733 66.799 0.43332 67.049 66.831 67.264 0.2501 63 24 4 0 0 0 0.086747 1 30658 30658 36.044 7.5574 1 4757200 + 3617 9939 2485 2492 3969 3969 -0.005969526198668973 DPASVCAIL 9 Unmodified _DPASVCAIL_ 0 0 0 REV__nc|ENSG00000101901|Q9NP73-2|ALG13 REV__nc|ENSG00000101901|Q9NP73-2|ALG13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 444.7297668457031 2 444.728403 887.442254 3.1688 0.0014092 -0.15706 -6.9849E-05 3.0117 0.0013394 444.7283812233058 66.23 0.44899 66.886 66.626 67.075 0.65672 72 26 4 0 0 0 0.062556 1 30412 30412 42.095 2.1372 1 4405600 + 3618 9939 2485 2492 3970 3970 -0.005969526198668973 DPAVPGHRM 9 Unmodified _DPAVPGHRM_ 0 0 0 ZNF831|p.S1009Afs*56|1|0.26|ENSG00000124203|chr20:59194040-59194040|C/-|frameshift_variant ZNF831|p.S1009Afs*56|1|0.26|ENSG00000124203|chr20:59194040-59194040|C/-|frameshift_variant ZNF831|p.S1009Afs*56|1|0.26|ENSG00000124203|chr20:59194040-59194040|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.24420166015625 2 490.242544 978.470534 NaN NaN NaN NaN NaN NaN NaN 56.268 1 57.045 56.545 57.545 0.77786 0 0 0 0.8984 1 25719 25719 3.9444 1.0552 1 3619 18298 2486 2493 3971 3971 -0.01956209919922003 DPDDDNDG 8 Unmodified _DPDDDNDG_ 0 0 0 ENSG00000186340|ENST00000617924|THBS2 ENSG00000186340|ENST00000617924|THBS2 ENSG00000186340|ENST00000617924|THBS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 431.6395568847656 2 431.638494 861.262435 NaN NaN NaN NaN NaN NaN NaN 70.692 1 70.692 70.192 71.192 0 0 0 0 0.99035 1 34334 34334 2.5775 1.8871 1 3620 5565 2487 2494 3972 3972 -0.17374585093978112 DPDDKFHCL 9 Carbamidomethyl (C) _DPDDKFHC(Carbamidomethyl (C))L_ DPDDKFHC(1)L DPDDKFHC(70)L 0 1 0 ENST00000466185.1_1_6:4052221-4056689:+|nuORF;ENST00000463634.6_1_6:4041126-4056780:+|nuORF;ENSG00000112739|ENST00000337659|PRPF4B ENST00000466185.1_1_6:4052221-4056689:+|nuORF ENST00000466185.1_1_6:4052221-4056689:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 382.8350830078125 3 382.834329 1145.48116 2.6225 0.001004 -0.28238 -0.00010811 2.3402 0.0008959 382.83422770597167 33.204 0.26503 33.204 33.016 33.282 0 40 19 3 0 0 0 0.018453 1 15042 15042 70.332 31.717 1 1455200 3621 1819 2488 2495 3973 3973 41 -0.08576272056188827 DPDDKFHCL 9 Carbamidomethyl (C) _DPDDKFHC(Carbamidomethyl (C))L_ 0 1 0 ENST00000466185.1_1_6:4052221-4056689:+|nuORF;ENST00000463634.6_1_6:4041126-4056780:+|nuORF;ENSG00000112739|ENST00000337659|PRPF4B ENST00000466185.1_1_6:4052221-4056689:+|nuORF ENST00000466185.1_1_6:4052221-4056689:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 382.834329 1145.48116 2.9641 0.0011348 0.044251 1.6941E-05 3.0084 0.0011517 382.8343139389267 33.003 0.3734 33.257 33.076 33.45 0.25389 0.16182 0.00016171 NaN 70.332 27 15 2 NaN NaN NaN NaN 0 NaN NaN 0 530760 3622 1819 2488 2495 41 -0.08576272056188827 DPDFQPEL 8 Unmodified _DPDFQPEL_ 0 0 0 ENSG00000091164|ENST00000217515|TXNL1 ENSG00000091164|ENST00000217515|TXNL1 ENSG00000091164|ENST00000217515|TXNL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.7198181152344 2 480.71909 959.423627 2.862 0.0013758 1.1194 0.00053813 3.9814 0.0019139 480.7191677808482 63.698 0.525 63.946 63.719 64.244 0.24803 61 30 3 0 0 0 0.062889 3 29154 29106;29154;29200 61.357 29.052 1 1453700 3623 1076 2489 2496 3974;3975;3976 3975 -0.05770790990072783 DPDFQPEL 8 Unmodified _DPDFQPEL_ 0 0 0 ENSG00000091164|ENST00000217515|TXNL1 ENSG00000091164|ENST00000217515|TXNL1 ENSG00000091164|ENST00000217515|TXNL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 960.434326171875 1 960.430903 959.423627 3.4746 0.0033371 -0.32518 -0.00031231 3.1494 0.0030248 960.4307388046105 63.646 0.42496 63.894 63.719 64.144 0.24803 42 24 2 0 0 0 0.0098792 3 29149 29149;29197;29240 100.37 36.135 1 1124200 3624 1076 2489 2496 3977;3978;3979 3977 -0.05770790990072783 DPDFQPEL 8 Unmodified _DPDFQPEL_ 0 0 0 ENSG00000091164|ENST00000217515|TXNL1 ENSG00000091164|ENST00000217515|TXNL1 ENSG00000091164|ENST00000217515|TXNL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.7205505371094 2 480.71909 959.423627 3.0437 0.0014632 1.0907 0.0005243 4.1344 0.0019875 480.71897274969143 63.161 0.52906 63.819 63.608 64.137 0.65808 57 32 2 0 0 0 0.074456 3 28936 28893;28936;28985 57.471 28.985 1 1241300 3625 1076 2489 2496 3980;3981;3982 3981 -0.05770790990072783 DPDFQPEL 8 Unmodified _DPDFQPEL_ 0 0 0 ENSG00000091164|ENST00000217515|TXNL1 ENSG00000091164|ENST00000217515|TXNL1 ENSG00000091164|ENST00000217515|TXNL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 960.4356079101562 1 960.430903 959.423627 3.7089 0.0035621 -0.02645 -2.5403E-05 3.6825 0.0035367 960.4310171327336 63.241 0.48736 63.899 63.65 64.137 0.65808 49 30 2 0 0 0 0.037436 3 28896 28896;28963;29024 70.716 19.86 1 1458800 3626 1076 2489 2496 3983;3984;3985 3983 -0.05770790990072783 DPDGHEICF 9 Carbamidomethyl (C) _DPDGHEIC(Carbamidomethyl (C))F_ DPDGHEIC(1)F DPDGHEIC(89)F 0 1 0 ENST00000576239.5_1_17:663415-673427:-|nuORF;ENSG00000167699|ENST00000301329|GLOD4;nc|ENSG00000167699|Q9HC38|GLOD4 ENST00000576239.5_1_17:663415-673427:-|nuORF ENST00000576239.5_1_17:663415-673427:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.2214965820312 2 545.218931 1088.42331 3.4262 0.0018681 -0.35251 -0.0001922 3.0737 0.0016759 545.2189643829968 46.79 0.39917 46.79 46.585 46.984 0 45 14 4 0 0 0 0.0063783 2 21374 21374;21436 88.904 41.656 1 6361300 3627 4573 2490 2497 3986;3987 3986 79 -0.11736533981616049 DPDGHEICF 9 Carbamidomethyl (C) _DPDGHEIC(Carbamidomethyl (C))F_ DPDGHEIC(1)F DPDGHEIC(93)F 0 1 0 ENST00000576239.5_1_17:663415-673427:-|nuORF;ENSG00000167699|ENST00000301329|GLOD4;nc|ENSG00000167699|Q9HC38|GLOD4 ENST00000576239.5_1_17:663415-673427:-|nuORF ENST00000576239.5_1_17:663415-673427:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.2205200195312 2 545.218931 1088.42331 3.1362 0.0017099 -0.7154 -0.00039005 2.4208 0.0013198 545.2186639636903 45.801 0.43668 46.627 46.401 46.838 0.82621 57 22 3 0 0 0 0.0044949 2 20853 20794;20853 92.822 48.415 1 6113900 3628 4573 2490 2497 3988;3989 3989 79 -0.11736533981616049 DPDGHEICF 9 Carbamidomethyl (C) _DPDGHEIC(Carbamidomethyl (C))F_ DPDGHEIC(1)F DPDGHEIC(89)F 0 1 0 ENST00000576239.5_1_17:663415-673427:-|nuORF;ENSG00000167699|ENST00000301329|GLOD4;nc|ENSG00000167699|Q9HC38|GLOD4 ENST00000576239.5_1_17:663415-673427:-|nuORF ENST00000576239.5_1_17:663415-673427:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.220947265625 2 545.218931 1088.42331 3.7098 0.0020227 -0.20668 -0.00011268 3.5031 0.00191 545.2188685548671 46.708 0.46468 46.974 46.785 47.249 0.26561 32 15 3 0 0 0 0.0063783 2 21349 21349;21402 88.904 59.822 1 3662600 3629 4573 2490 2497 3990;3991 3990 79 -0.11736533981616049 DPDGHEICF 9 Carbamidomethyl (C) _DPDGHEIC(Carbamidomethyl (C))F_ DPDGHEIC(1)F DPDGHEIC(89)F 0 1 0 ENST00000576239.5_1_17:663415-673427:-|nuORF;ENSG00000167699|ENST00000301329|GLOD4;nc|ENSG00000167699|Q9HC38|GLOD4 ENST00000576239.5_1_17:663415-673427:-|nuORF ENST00000576239.5_1_17:663415-673427:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.2208862304688 2 545.218931 1088.42331 3.8007 0.0020722 0.053174 2.8991E-05 3.8539 0.0021012 545.2188747555346 46.204 0.47955 46.855 46.567 47.046 0.65104 41 17 3 0 0 0 0.0063783 2 21170 21121;21170 88.904 40.558 1 2863200 3630 4573 2490 2497 3992;3993 3993 79 -0.11736533981616049 DPDKEYNM 8 Unmodified _DPDKEYNM_ 0 0 0 ENST00000467586.5_1_17:74084128-74084266:-|nuORF;nc|ENSG00000182473|Q9UPT5-2|EXOC7;nc|ENSG00000182473|Q9UPT5-5|EXOC7;ENSG00000182473|ENST00000589210|EXOC7;nc|ENSG00000182473|Q9UPT5-6|EXOC7;nc|ENSG00000182473|Q9UPT5|EXOC7 ENST00000467586.5_1_17:74084128-74084266:-|nuORF ENST00000467586.5_1_17:74084128-74084266:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.2092590332031 2 506.208032 1010.40151 NaN NaN NaN NaN NaN NaN NaN 21.644 1 22.049 21.549 22.549 0.40533 0 0 0 0.1617 1 9610 9610 85.642 53.336 1 3631 5336 2491 2498 3994 3994 -0.10327338730155589 DPDKEYNM 8 Unmodified _DPDKEYNM_ 0 0 0 ENST00000467586.5_1_17:74084128-74084266:-|nuORF;nc|ENSG00000182473|Q9UPT5-2|EXOC7;nc|ENSG00000182473|Q9UPT5-5|EXOC7;ENSG00000182473|ENST00000589210|EXOC7;nc|ENSG00000182473|Q9UPT5-6|EXOC7;nc|ENSG00000182473|Q9UPT5|EXOC7 ENST00000467586.5_1_17:74084128-74084266:-|nuORF ENST00000467586.5_1_17:74084128-74084266:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.20904541015625 2 506.208032 1010.40151 NaN NaN NaN NaN NaN NaN NaN 21.742 1 22.147 21.647 22.647 0.40533 0 0 0 0.12638 1 9658 9658 89.401 55.298 1 3632 5336 2491 2498 3995 3995 -0.10327338730155589 DPDMGSCH 8 Unmodified _DPDMGSCH_ 0 0 0 REV__nc|ENSG00000147202|O60879-2|DIAPH2 REV__nc|ENSG00000147202|O60879-2|DIAPH2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 860.9201049804688 1 861.286564 860.279288 2.7157 0.002339 3.3108 0.0028515 6.0265 0.0051905 861.2894899147303 87.921 0.026192 87.961 87.947 87.973 0.039955 6 4 2 0 0 0 0.14267 1 44646 44646 0.69038 0 1 21962000 + 3633 12497 2492 2499 3996 3996 -0.15644079013372902 DPDNPLVL 8 Unmodified _DPDNPLVL_ 0 0 0 nc|ENSG00000244038|P39656-3|DDOST;ENSG00000244038|ENST00000602624|DDOST;nc|ENSG00000244038|P39656|DDOST;nc|ENSG00000244038|P39656-2|DDOST nc|ENSG00000244038|P39656-3|DDOST nc|ENSG00000244038|P39656-3|DDOST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 882.4632568359375 1 882.456724 881.449448 3.1391 0.0027701 -0.28524 -0.00025171 2.8538 0.0025184 882.4568112947962 71.272 0.3273 71.272 71.134 71.462 0 66 33 3 0 0 0 0.0036564 3 34614 34614;34667;34715 131.3 5.6731 1 4053600 3634 6246 2493 2500 3997;3998;3999 3997 0.003981032521778616 DPDNPLVL 8 Unmodified _DPDNPLVL_ 0 0 0 nc|ENSG00000244038|P39656-3|DDOST;ENSG00000244038|ENST00000602624|DDOST;nc|ENSG00000244038|P39656|DDOST;nc|ENSG00000244038|P39656-2|DDOST nc|ENSG00000244038|P39656-3|DDOST nc|ENSG00000244038|P39656-3|DDOST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 882.4609985351562 1 882.456724 881.449448 3.0587 0.0026991 -0.36375 -0.00032099 2.6949 0.0023781 882.4563649731443 70.649 0.23187 71.353 71.232 71.464 0.70386 50 30 2 0 0 0 0.0036564 2 33822 33822;33874 131.3 5.6731 1 3204000 3635 6246 2493 2500 4000;4001 4000 0.003981032521778616 DPDNPLVL 8 Unmodified _DPDNPLVL_ 0 0 0 nc|ENSG00000244038|P39656-3|DDOST;ENSG00000244038|ENST00000602624|DDOST;nc|ENSG00000244038|P39656|DDOST;nc|ENSG00000244038|P39656-2|DDOST nc|ENSG00000244038|P39656-3|DDOST nc|ENSG00000244038|P39656-3|DDOST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 882.460205078125 1 882.456724 881.449448 3.6987 0.003264 -0.28737 -0.00025359 3.4113 0.0030104 882.4565645411884 70.834 0.36787 71.091 70.882 71.25 0.25641 42 26 2 0 0 0 0.0094853 3 32442 32400;32442;32485 104.8 4.4277 1 972140 3636 6246 2493 2500 4002;4003;4004 4003 0.003981032521778616 DPDNPLVL 8 Unmodified _DPDNPLVL_ 0 0 0 nc|ENSG00000244038|P39656-3|DDOST;ENSG00000244038|ENST00000602624|DDOST;nc|ENSG00000244038|P39656|DDOST;nc|ENSG00000244038|P39656-2|DDOST nc|ENSG00000244038|P39656-3|DDOST nc|ENSG00000244038|P39656-3|DDOST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 882.459228515625 1 882.456724 881.449448 3.5065 0.0030944 -0.22183 -0.00019575 3.2847 0.0028986 882.4565899280224 70.361 0.40499 71.023 70.824 71.229 0.66209 39 23 2 0 0 0 0.0085377 3 32292 32202;32248;32292 117.6 5.0055 1 1380500 3637 6246 2493 2500 4005;4006;4007 4007 0.003981032521778616 DPDRMFVEL 9 Unmodified _DPDRMFVEL_ 0 0 0 nc|ENSG00000145041|Q9Y4B6-2|DCAF1;ENSG00000145041|ENST00000684031|DCAF1 nc|ENSG00000145041|Q9Y4B6-2|DCAF1 nc|ENSG00000145041|Q9Y4B6-2|DCAF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.2705688476562 2 561.268424 1120.5223 3.4854 0.0019563 0.17254 9.6842E-05 3.658 0.0020531 561.2687587095218 70.265 0.33431 70.521 70.368 70.703 0.25642 55 26 3 0 0 0 0.069974 3 32190 32143;32149;32190 40.239 12.61 1 872810 3638 3455 2494 2501 4008;4009;4010 4010 -0.03314511016696997 DPDRMFVEL 9 Unmodified _DPDRMFVEL_ 0 0 0 nc|ENSG00000145041|Q9Y4B6-2|DCAF1;ENSG00000145041|ENST00000684031|DCAF1 nc|ENSG00000145041|Q9Y4B6-2|DCAF1 nc|ENSG00000145041|Q9Y4B6-2|DCAF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.2703857421875 2 561.268424 1120.5223 3.2016 0.0017969 0.76584 0.00042984 3.9674 0.0022268 561.2687102613875 69.762 0.34531 70.423 70.232 70.577 0.66071 43 25 2 0 0 0 0.049036 2 31987 31933;31987 47.594 19.966 1 961640 3639 3455 2494 2501 4011;4012 4012 -0.03314511016696997 DPDSNPYSL 9 Unmodified _DPDSNPYSL_ 0 0 0 ENST00000476672.1_1_3:180675662-180688154:+|nuORF;nc|ENSG00000114416|P51114-3|FXR1;nc|ENSG00000114416|P51114-2|FXR1;ENSG00000114416|ENST00000357559|FXR1;ENSG00000129245|ENST00000250113|FXR2 ENST00000476672.1_1_3:180675662-180688154:+|nuORF ENST00000476672.1_1_3:180675662-180688154:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.2212829589844 2 504.219454 1006.42436 NaN NaN NaN NaN NaN NaN NaN 50.443 1 50.443 49.943 50.943 0 0 0 0 0.12987 1 23094 23094 36.127 19.185 1 3640 1904 2495 2502 4013 4013 -0.07859996341028364 DPDSNPYSL 9 Unmodified _DPDSNPYSL_ 0 0 0 ENST00000476672.1_1_3:180675662-180688154:+|nuORF;nc|ENSG00000114416|P51114-3|FXR1;nc|ENSG00000114416|P51114-2|FXR1;ENSG00000114416|ENST00000357559|FXR1;ENSG00000129245|ENST00000250113|FXR2 ENST00000476672.1_1_3:180675662-180688154:+|nuORF ENST00000476672.1_1_3:180675662-180688154:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.2216796875 2 504.219454 1006.42436 3.2894 0.0016586 0.44356 0.00022365 3.733 0.0018822 504.21985433799034 49.573 0.25482 50.231 50.085 50.34 0.65735 13 8 2 0 0 0 0.079031 1 22664 22664 37.974 22.127 1 314800 3641 1904 2495 2502 4014 4014 -0.07859996341028364 DPDSNPYSL 9 Unmodified _DPDSNPYSL_ 0 0 0 ENST00000476672.1_1_3:180675662-180688154:+|nuORF;nc|ENSG00000114416|P51114-3|FXR1;nc|ENSG00000114416|P51114-2|FXR1;ENSG00000114416|ENST00000357559|FXR1;ENSG00000129245|ENST00000250113|FXR2 ENST00000476672.1_1_3:180675662-180688154:+|nuORF ENST00000476672.1_1_3:180675662-180688154:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 504.219454 1006.42436 3.1639 0.0015953 1.0459 0.00052734 4.2098 0.0021226 504.7218146039841 49.578 0.055481 50.401 50.373 50.428 0.82285 0.085027 0.00054592 NaN 37.974 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 150700 3642 1904 2495 2502 -0.07859996341028364 DPDSPLLM 8 Unmodified _DPDSPLLM_ 0 0 0 ENSG00000277481|ENST00000620267|PKD1L3 ENSG00000277481|ENST00000620267|PKD1L3 ENSG00000277481|ENST00000620267|PKD1L3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 887.42333984375 1 887.417896 886.410619 3.9069 0.0034671 -0.00027192 -2.4131E-07 3.9067 0.0034668 887.4180311557075 83.96 0.34552 84.207 84.047 84.392 0.24722 33 19 2 0 0 0 0.45037 1 38608 38608 24.674 5.2349 1 1298300 3643 6354 2496 2503 4015 4015 -0.03712945373808907 DPDSPLLM 8 Unmodified _DPDSPLLM_ 0 0 0 ENSG00000277481|ENST00000620267|PKD1L3 ENSG00000277481|ENST00000620267|PKD1L3 ENSG00000277481|ENST00000620267|PKD1L3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 887.421875 1 887.417896 886.410619 4.0733 0.0036147 0.0089168 7.9129E-06 4.0822 0.0036226 887.4179492657861 83.506 0.34837 84.169 83.98 84.328 0.66219 35 22 2 0 0 0 0.26384 2 38445 38399;38445 38.151 6.0342 1 1179100 3644 6354 2496 2503 4016;4017 4017 -0.03712945373808907 DPDSQEQQL 9 Unmodified _DPDSQEQQL_ 0 0 0 ENST00000551558.1_1_12:77439797-77459307:-|nuORF;nc|ENSG00000165891|Q96AV8-2|E2F7;nc|ENSG00000165891|Q96AV8-3|E2F7;ENSG00000165891|ENST00000322886|E2F7 ENST00000551558.1_1_12:77439797-77459307:-|nuORF ENST00000551558.1_1_12:77439797-77459307:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.2349853515625 2 530.233093 1058.45163 NaN NaN NaN NaN NaN NaN NaN 25.47 1 26.233 25.733 26.733 0.76356 0 0 0 0.024684 1 11433 11433 65.235 44.781 1 3645 4431 2497 2504 4018 4018 -0.07525512800657452 DPDVPRPL 8 Unmodified _DPDVPRPL_ 0 0 0 REV__ENST00000478546.1_1_13:22255254-22275571:+|nuORF REV__ENST00000478546.1_1_13:22255254-22275571:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.7472229003906 2 454.745442 907.476331 2.9357 0.001335 0.4237 0.00019267 3.3594 0.0015277 454.74555731684865 37.416 0.41141 37.677 37.478 37.889 0.26083 20 12 2 0 0 0 0.65723 1 17079 17079 9.3474 0 1 233660 + 3646 10934 2498 2505 4019 4019 0.018892118633857535 DPEAEKWCQTE 11 Unmodified _DPEAEKWCQTE_ 0 0 0 REV__nc|ENSG00000020129|Q9UBB6-2|NCDN REV__nc|ENSG00000020129|Q9UBB6-2|NCDN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 668.2815551757812 2 668.279717 1334.54488 NaN NaN NaN NaN NaN NaN NaN 70.202 1 70.202 69.702 70.702 0 0 0 0 1.0041 1 34028 34028 5.2969 2.0156 1 + 3647 10262 2499 2506 4020 4020 -0.10900956409727769 DPEDEFGFFIQ 11 Unmodified _DPEDEFGFFIQ_ 0 0 0 REV__ZNFX1|p.S1823Wfs*15|1|0.26|ENSG00000124201|chr20:49247550-49247556|AGGCCAG/-|frameshift_variant REV__ZNFX1|p.S1823Wfs*15|1|0.26|ENSG00000124201|chr20:49247550-49247556|AGGCCAG/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 672.2903442382812 2 672.29315 1342.57175 NaN NaN NaN NaN NaN NaN NaN 67.863 1 68.565 68.065 69.065 0.70218 0 0 0 1.0061 1 32310 32310 2.7352 0.89096 1 + 3648 11641 2500 2507 4021 4021 -0.08583524526875408 DPEEMIRGVDE 11 Unmodified _DPEEMIRGVDE_ 0 0 0 ENSG00000180964|ENST00000372685|TCEAL8 ENSG00000180964|ENST00000372685|TCEAL8 ENSG00000180964|ENST00000372685|TCEAL8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 430.5284423828125 3 430.527454 1288.56053 NaN NaN NaN NaN NaN NaN NaN 65.158 1 65.867 65.367 66.367 0.70891 0 0 0 1.0038 1 30776 30776 2.6312 0 1 3649 5272 2501 2508 4022 4022 -0.07220669892672049 DPEHKFIY 8 Unmodified _DPEHKFIY_ 0 0 0 nc|ENSG00000163249|Q8N7R7-3|CCNYL1;nc|ENSG00000163249|Q8N7R7-2|CCNYL1;CCNYL1|p.L322Nfs*3|1|0.06|ENSG00000163249|chr2:207751113-207751114|-/AATGT|frameshift_variant;ENSG00000163249|ENST00000295414|CCNYL1 nc|ENSG00000163249|Q8N7R7-3|CCNYL1 nc|ENSG00000163249|Q8N7R7-3|CCNYL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.1756286621094 3 350.174792 1047.50255 2.5568 0.00089531 -0.46337 -0.00016226 2.0934 0.00073305 350.1745919378322 32.275 0.35214 32.275 32.216 32.568 0 43 26 2 0 0 0 0.65723 2 14616 14616;14674 6.7232 2.7788 1 718200 3650 108 2502 2509 4023;4024 4023 -0.019305189651277033 DPEHKFIY 8 Unmodified _DPEHKFIY_ 0 0 0 nc|ENSG00000163249|Q8N7R7-3|CCNYL1;nc|ENSG00000163249|Q8N7R7-2|CCNYL1;CCNYL1|p.L322Nfs*3|1|0.06|ENSG00000163249|chr2:207751113-207751114|-/AATGT|frameshift_variant;ENSG00000163249|ENST00000295414|CCNYL1 nc|ENSG00000163249|Q8N7R7-3|CCNYL1 nc|ENSG00000163249|Q8N7R7-3|CCNYL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.5093994140625 3 350.174792 1047.50255 2.3915 0.00083744 -0.051806 -1.8141E-05 2.3397 0.0008193 350.1747107481392 31.344 0.28651 32.133 31.927 32.214 0.78879 37 24 2 0 0 0 0.59268 2 14157 14113;14157 10.824 3.5347 1 804120 3651 108 2502 2509 4025;4026 4026 -0.019305189651277033 DPEKSDPVI 9 Unmodified _DPEKSDPVI_ 0 0 0 nc|ENSG00000117174|Q9NWK9-2|ZNHIT6;ENSG00000117174|ENST00000370574|ZNHIT6 nc|ENSG00000117174|Q9NWK9-2|ZNHIT6 nc|ENSG00000117174|Q9NWK9-2|ZNHIT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.25543212890625 2 500.253297 998.492041 3.2732 0.0016374 0.66869 0.00033452 3.9418 0.0019719 500.2538309648949 30.304 0.23194 30.304 30.176 30.408 0 18 13 2 0 0 0 0.084899 1 13675 13675 36.506 17.249 1 523020 3652 2063 2503 2510 4027 4027 -0.007265464102374608 DPEKSDPVI 9 Unmodified _DPEKSDPVI_ 0 0 0 nc|ENSG00000117174|Q9NWK9-2|ZNHIT6;ENSG00000117174|ENST00000370574|ZNHIT6 nc|ENSG00000117174|Q9NWK9-2|ZNHIT6 nc|ENSG00000117174|Q9NWK9-2|ZNHIT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.25457763671875 2 500.253297 998.492041 3.2409 0.0016212 0.031347 1.5682E-05 3.2722 0.0016369 500.2531439211232 29.678 0.21813 30.296 30.148 30.366 0.61789 22 12 2 0 0 0 0.15661 1 13588 13588 26.268 12.362 1 230280 3653 2063 2503 2510 4028 4028 -0.007265464102374608 DPEKYPHML 9 Unmodified _DPEKYPHML_ 0 0 0 ENST00000470083.5_1_6:31765536-31774578:-|nuORF;ENSG00000204392|ENST00000375661|LSM2 ENST00000470083.5_1_6:31765536-31774578:-|nuORF ENST00000470083.5_1_6:31765536-31774578:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 377.51812744140625 3 377.18307 1128.52738 2.8017 0.0010568 -0.70295 -0.00026514 2.0988 0.00079162 377.18269947963967 37.008 0.33622 37.008 36.801 37.137 0 18 13 2 0 0 0 0.92418 1 16798 16798 5.2969 2.5617 1 206650 3654 6005 2504 2511 4029 4029 -0.0317420715409753 DPENDSYKS 9 Unmodified _DPENDSYKS_ 0 0 0 ENSG00000197860|ENST00000381007|SGTB ENSG00000197860|ENST00000381007|SGTB ENSG00000197860|ENST00000381007|SGTB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.866455078125 2 527.719818 1053.42508 NaN NaN NaN NaN NaN NaN NaN 88.705 1 88.757 88.257 89.257 0.052155 0 0 0 0.88916 1 45273 45273 6.2058 0.9089 1 3655 5845 2505 2512 4030 4030 -0.09949201691983944 DPENLYLKQGI 11 Unmodified _DPENLYLKQGI_ 0 0 0 ENSG00000165030|ENST00000297689|NFIL3 ENSG00000165030|ENST00000297689|NFIL3 ENSG00000165030|ENST00000297689|NFIL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 430.5621032714844 3 430.562715 1288.66632 NaN NaN NaN NaN NaN NaN NaN 67.88 1 67.88 67.38 68.38 0 0 0 0 1.0062 1 32622 32622 2.6312 0 1 3656 4365 2506 2513 4031 4031 0.033530340150718985 DPEPLLTEMIH 11 Unmodified _DPEPLLTEMIH_ 0 0 0 ENST00000462616.1_1_9:139310627-139310981:+|nuORF;nc|ENSG00000165688|Q10713-2|PMPCA;ENSG00000165688|ENST00000371717|PMPCA ENST00000462616.1_1_9:139310627-139310981:+|nuORF ENST00000462616.1_1_9:139310627-139310981:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 432.21832275390625 3 432.216439 1293.62749 NaN NaN NaN NaN NaN NaN NaN 62.095 1 62.095 61.595 62.595 0 0 0 0 1.0059 1 29064 29064 1.2148 0.10508 1 3657 4417 2507 2514 4032 4032 -0.0075801461091487 DPETSDPT 8 Unmodified _DPETSDPT_ 0 0 0 ENST00000500118.2_1_8:6263499-6263865:-|nuORF ENST00000500118.2_1_8:6263499-6263865:-|nuORF ENST00000500118.2_1_8:6263499-6263865:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 430.85675048828125 2 431.177255 860.339957 NaN NaN NaN NaN NaN NaN NaN 62.422 1 63.153 62.653 63.653 0.73077 0 0 0 0.57268 1 29098 29098 26.341 1.6674 1 3658 8471 2508 2515 4033 4033 -0.09579947157794777 DPETSDPT 8 Unmodified _DPETSDPT_ 0 0 0 ENST00000500118.2_1_8:6263499-6263865:-|nuORF ENST00000500118.2_1_8:6263499-6263865:-|nuORF ENST00000500118.2_1_8:6263499-6263865:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 431.5297546386719 2 431.177255 860.339957 NaN NaN NaN NaN NaN NaN NaN 64.257 1 64.973 64.473 65.473 0.71521 0 0 0 0.79116 1 30256 30256 19.439 1.304 1 3659 8471 2508 2515 4034 4034 -0.09579947157794777 DPEVLCPP 8 Unmodified _DPEVLCPP_ 0 0 0 ENST00000607001.1_1_5:72793842-72794073:-|nuORF ENST00000607001.1_1_5:72793842-72794073:-|nuORF ENST00000607001.1_1_5:72793842-72794073:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.20855712890625 2 435.207304 868.400055 3.193 0.0013896 -0.39827 -0.00017333 2.7947 0.0012163 435.20713374948167 83.469 0.30559 84.132 84.006 84.312 0.66219 27 19 2 0 0 0 0.5438 1 38483 38483 18.135 0 1 475180 3660 9331 2509 2516 4035 4035 -0.039409280282711734 DPFDLDTDFLD 11 Unmodified _DPFDLDTDFLD_ 0 0 0 REV__ENSG00000176208|ENST00000321990|ATAD5 REV__ENSG00000176208|ENST00000321990|ATAD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 656.7865600585938 2 656.782615 1311.55068 NaN NaN NaN NaN NaN NaN NaN 26.47 1 27.095 26.595 27.595 0.62505 0 0 0 1.0041 1 12135 12135 5.2969 1.7004 1 + 3661 13697 2510 2517 4036 4036 -0.09263534626438741 DPFFEIEADQL 11 Unmodified _DPFFEIEADQL_ 0 0 0 REV__nc|ENSG00000249948|Q9H227|GBA3 REV__nc|ENSG00000249948|Q9H227|GBA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 662.3115844726562 2 662.3088 1322.60305 3.7919 0.0025114 0.16173 0.00010711 3.9536 0.0026185 662.3090074415492 20.919 0.33045 20.919 20.768 21.098 0 65 21 4 0 0 0 0.26146 2 9386 9341;9386 26.268 5.1661 1 2067500 + 3662 18149 2511 2518 4037;4038 4038 -0.04534951492792061 DPFFEIEADQL 11 Unmodified _DPFFEIEADQL_ 0 0 0 REV__nc|ENSG00000249948|Q9H227|GBA3 REV__nc|ENSG00000249948|Q9H227|GBA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 662.3107299804688 2 662.3088 1322.60305 NaN NaN NaN NaN NaN NaN NaN 20.14 1 20.433 19.933 20.933 0.29239 0 0 0 0.32224 1 9166 9166 31.268 0.5649 1 + 3663 18149 2511 2518 4039 4039 -0.04534951492792061 DPFFEIEADQL 11 Unmodified _DPFFEIEADQL_ 0 0 0 REV__nc|ENSG00000249948|Q9H227|GBA3 REV__nc|ENSG00000249948|Q9H227|GBA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 662.31103515625 2 662.3088 1322.60305 4.1266 0.0027331 -0.44544 -0.00029502 3.6811 0.002438 662.3087236842666 19.827 0.31057 20.485 20.329 20.639 0.6583 77 24 4 0 0 0 0.12301 2 9008 8964;9008 38.176 8.335 1 1988900 + 3664 18149 2511 2518 4040;4041 4041 -0.04534951492792061 DPFFEIEADQL 11 Unmodified _DPFFEIEADQL_ 0 0 0 REV__nc|ENSG00000249948|Q9H227|GBA3 REV__nc|ENSG00000249948|Q9H227|GBA3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 662.3088 1322.60305 3.7919 0.0025114 0.16173 0.00010711 3.9536 0.0026185 662.3090074415492 20.919 0.33045 20.919 20.768 21.098 0 0 0 NaN 26.268 65 21 4 NaN NaN NaN NaN 0 NaN NaN 0 2067500 + 3665 18149 2511 2518 -0.04534951492792061 DPFIVKLN 8 Unmodified _DPFIVKLN_ 0 0 0 REV__ENST00000482967.5_1_20:31946851-31989286:-|nuORF REV__ENST00000482967.5_1_20:31946851-31989286:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.2752990722656 2 473.273835 944.533118 NaN NaN NaN NaN NaN NaN NaN 101.23 1 101.55 101.05 102.05 0.31412 0 0 0 0.99035 1 46846 46846 5.2307 0 1 + 3666 10892 2512 2519 4042 4042 0.05863259419879796 DPFLFWPCL 9 Unmodified _DPFLFWPCL_ 0 0 0 ENST00000352171.11_1_1:52344043-52344172:-|nuORF ENST00000352171.11_1_1:52344043-52344172:-|nuORF ENST00000352171.11_1_1:52344043-52344172:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.8624267578125 3 379.852773 1136.53649 2.9192 0.0011089 -1.4024 -0.00053272 1.5168 0.00057616 379.8522441408632 27.056 0.25686 27.056 26.932 27.188 0 34 14 3 0 0 0 0.94779 1 12140 12140 4.897 2.1618 1 605410 3667 7134 2513 2520 4043 4043 -0.026318137977568767 DPFNNLVL 8 Unmodified _DPFNNLVL_ 0 0 0 REV__ENST00000284617.6_1_1:229460549-229460678:-|nuORF REV__ENST00000284617.6_1_1:229460549-229460678:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.2496337890625 2 466.247818 930.481082 NaN NaN NaN NaN NaN NaN NaN 75.472 1 75.729 75.229 76.229 0.25704 0 0 0 0.50246 1 34730 34730 28.487 9.2299 1 + 3668 15104 2514 2521 4044 4044 0.013060960061352489 DPGRDYEL 8 Unmodified _DPGRDYEL_ 0 0 0 ENSG00000100296|ENST00000490103|THOC5;ENST00000475187.5_1_22:29932576-29945100:-|nuORF ENSG00000100296|ENST00000490103|THOC5 ENSG00000100296|ENST00000490103|THOC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.7229919433594 2 482.722164 963.429775 2.882 0.0013912 -0.16022 -7.7344E-05 2.7218 0.0013139 482.72189823092157 34.132 0.30408 34.921 34.787 35.091 0.78921 29 17 2 0 0 0 0.036198 2 15448 15448;15497 71.922 35.878 1 827420 3669 1202 2515 2522 4045;4046 4045 -0.05340272758576248 DPGRDYEL 8 Unmodified _DPGRDYEL_ 0 0 0 ENSG00000100296|ENST00000490103|THOC5;ENST00000475187.5_1_22:29932576-29945100:-|nuORF ENSG00000100296|ENST00000490103|THOC5 ENSG00000100296|ENST00000490103|THOC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.7239990234375 2 482.722164 963.429775 3.0386 0.0014668 -0.39125 -0.00018887 2.6473 0.0012779 482.7218908478151 35.003 0.12338 35.258 35.216 35.339 0.25524 9 6 2 0 0 0 0.42759 1 15981 15981 26.268 9.3258 1 1150500 3670 1202 2515 2522 4047 4047 -0.05340272758576248 DPGRDYEL 8 Unmodified _DPGRDYEL_ 0 0 0 ENSG00000100296|ENST00000490103|THOC5;ENST00000475187.5_1_22:29932576-29945100:-|nuORF ENSG00000100296|ENST00000490103|THOC5 ENSG00000100296|ENST00000490103|THOC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.7233581542969 2 482.722164 963.429775 3.1313 0.0015116 -0.40919 -0.00019753 2.7221 0.001314 482.7220808583091 34.643 0.25893 35.266 35.051 35.31 0.62294 15 10 2 0 0 0 0.26351 1 15821 15821 38.176 11.292 1 806670 3671 1202 2515 2522 4048 4048 -0.05340272758576248 DPHFRSAL 8 Unmodified _DPHFRSAL_ 0 0 0 nc|ENSG00000123989|Q8IZ52-4|CHPF;ENSG00000123989|ENST00000243776|CHPF nc|ENSG00000123989|Q8IZ52-4|CHPF nc|ENSG00000123989|Q8IZ52-4|CHPF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 471.7452087402344 2 471.743234 941.471915 3.1733 0.001497 1.0035 0.00047339 4.1768 0.0019704 471.74337076883154 28.561 0.24619 28.561 28.444 28.691 0 35 20 2 0 0 0 0.60101 1 12866 12866 13.906 0.39817 1 321440 3672 2330 2516 2523 4049 4049 -0.0011625255953049418 DPHFRSAL 8 Unmodified _DPHFRSAL_ 0 0 0 nc|ENSG00000123989|Q8IZ52-4|CHPF;ENSG00000123989|ENST00000243776|CHPF nc|ENSG00000123989|Q8IZ52-4|CHPF nc|ENSG00000123989|Q8IZ52-4|CHPF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.7452697753906 2 471.743234 941.471915 NaN NaN NaN NaN NaN NaN NaN 28.499 1 28.759 28.259 29.259 0.2602 0 0 0 0.87555 1 12963 12963 13.906 0.39817 1 3673 2330 2516 2523 4050 4050 -0.0011625255953049418 DPHFRSAL 8 Unmodified _DPHFRSAL_ 0 0 0 nc|ENSG00000123989|Q8IZ52-4|CHPF;ENSG00000123989|ENST00000243776|CHPF nc|ENSG00000123989|Q8IZ52-4|CHPF nc|ENSG00000123989|Q8IZ52-4|CHPF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.7445983886719 2 471.743234 941.471915 2.9037 0.0013698 0.52471 0.00024753 3.4284 0.0016173 471.7431814248421 28.044 0.31377 28.663 28.507 28.821 0.61947 34 19 2 0 0 0 0.54363 1 12854 12854 18.146 0.011366 1 304160 3674 2330 2516 2523 4051 4051 -0.0011625255953049418 DPHFRSAL 8 Unmodified _DPHFRSAL_ 0 0 0 nc|ENSG00000123989|Q8IZ52-4|CHPF;ENSG00000123989|ENST00000243776|CHPF nc|ENSG00000123989|Q8IZ52-4|CHPF nc|ENSG00000123989|Q8IZ52-4|CHPF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 471.743234 941.471915 3.1733 0.001497 1.0035 0.00047339 4.1768 0.0019704 471.74337076883154 28.561 0.24619 28.561 28.444 28.691 0 0.027502 0.00016898 NaN 18.146 35 20 2 NaN NaN NaN NaN 0 NaN NaN 0 321440 3675 2330 2516 2523 -0.0011625255953049418 DPHFRSAL 8 Unmodified _DPHFRSAL_ 0 0 0 nc|ENSG00000123989|Q8IZ52-4|CHPF;ENSG00000123989|ENST00000243776|CHPF nc|ENSG00000123989|Q8IZ52-4|CHPF nc|ENSG00000123989|Q8IZ52-4|CHPF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 471.743234 941.471915 2.9462 0.0013899 1.0251 0.00048357 3.9713 0.0018734 471.74367085299184 27.59 0.21021 28.376 28.327 28.537 0.78627 -0.15725 0.00018935 NaN 18.146 26 19 2 NaN NaN NaN NaN 0 NaN NaN 0 223220 3676 2330 2516 2523 -0.0011625255953049418 DPHFRSAL 8 Unmodified _DPHFRSAL_ 0 0 0 nc|ENSG00000123989|Q8IZ52-4|CHPF;ENSG00000123989|ENST00000243776|CHPF nc|ENSG00000123989|Q8IZ52-4|CHPF nc|ENSG00000123989|Q8IZ52-4|CHPF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 471.743234 941.471915 2.9037 0.0013698 0.52471 0.00024753 3.4284 0.0016173 471.7431814248421 28.044 0.31377 28.663 28.507 28.821 0.61947 0.12975 -0.00028274 NaN 18.146 34 19 2 NaN NaN NaN NaN 0 NaN NaN 0 304160 3677 2330 2516 2523 -0.0011625255953049418 DPHIKLQL 8 Unmodified _DPHIKLQL_ 0 0 0 nc|ENSG00000138685|P09038-3|FGF2;nc|ENSG00000138685|P09038-1|FGF2;nc|ENSG00000138685|P09038|FGF2;FGF2|p.V258Wfs*3|1|0.29|ENSG00000138685|chr4:122892301-122892301|G/-|frameshift_variant;ENSG00000138685|ENST00000644866|FGF2 nc|ENSG00000138685|P09038-3|FGF2 nc|ENSG00000138685|P09038-3|FGF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.2864685058594 2 482.284734 962.554916 3.1999 0.0015433 0.027985 1.3497E-05 3.2279 0.0015568 482.28472334470683 48.798 0.17278 49.06 48.999 49.172 0.2621 10 6 2 0 0 0 0.21011 1 22335 22335 42.095 13.608 1 426860 3678 9665 2517 2524 4052 4052 0.07214064168476853 DPHIKLQL 8 Unmodified _DPHIKLQL_ 0 0 0 nc|ENSG00000138685|P09038-3|FGF2;nc|ENSG00000138685|P09038-1|FGF2;nc|ENSG00000138685|P09038|FGF2;FGF2|p.V258Wfs*3|1|0.29|ENSG00000138685|chr4:122892301-122892301|G/-|frameshift_variant;ENSG00000138685|ENST00000644866|FGF2 nc|ENSG00000138685|P09038-3|FGF2 nc|ENSG00000138685|P09038-3|FGF2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 482.284734 962.554916 3.2734 0.0015787 0.54356 0.00026215 3.817 0.0018409 482.28493683359704 48.28 0.27842 48.934 48.756 49.035 0.65356 -0.063176 0.00029032 NaN 42.095 18 10 2 NaN NaN NaN NaN 0 NaN NaN 0 266290 3679 9665 2517 2524 0.07214064168476853 DPHIQKLI 8 Unmodified _DPHIQKLI_ 0 0 0 REV__nc|ENSG00000290320|P0DW85|H2BN1 REV__nc|ENSG00000290320|P0DW85|H2BN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.28692626953125 2 482.284734 962.554916 3.2734 0.0015787 0.54356 0.00026215 3.817 0.0018409 482.28493683359704 48.28 0.27842 48.934 48.756 49.035 0.65356 18 10 2 0 0 0 0.29255 1 22097 22097 36.044 0 1 266290 + 3680 18173 2518 2525 4053 4053 0.07214064168476853 DPHRYAAL 8 Unmodified _DPHRYAAL_ 0 0 0 REV__ENSG00000244476|ENST00000472091|ERVFRD-1 REV__ENSG00000244476|ENST00000472091|ERVFRD-1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.24700927734375 2 471.743234 941.471915 2.9037 0.0013698 0.52471 0.00024753 3.4284 0.0016173 471.7431814248421 28.044 0.31377 28.663 28.507 28.821 0.61947 34 19 2 0 0 0 0.60592 1 12903 12903 13.508 2.684 1 304160 + 3681 14637 2519 2526 4054 4054 -0.0011625255955323155 DPHSLEMVL 9 Unmodified _DPHSLEMVL_ 0 0 0 ENSG00000135519|ENST00000257981|KCNH3 ENSG00000135519|ENST00000257981|KCNH3 ENSG00000135519|ENST00000257981|KCNH3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.7666015625 2 520.757692 1039.50083 2.899 0.0015097 1.3732 0.00071511 4.2723 0.0022248 520.757503387566 51.85 0.60872 52.661 52.463 53.071 0.81065 70 41 3 0 0 0 0.49692 1 23706 23706 12.532 1.7076 1 1337400 3682 2877 2520 2527 4055 4055 -0.017338960454253538 DPHVKTNL 8 Unmodified _DPHVKTNL_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF;ENST00000480835.1_1_2:96943505-96944085:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 462.2514343261719 2 462.250892 922.48723 2.8319 0.001309 0.14677 6.7844E-05 2.9787 0.0013769 462.25086109827885 18.701 0.18372 18.701 18.532 18.716 0 31 14 3 0 0 0 0.0089417 2 8318 8271;8318 111.29 47.051 1 2646100 3683 3406 2521 2528 4056;4057 4057 0.022886142376592034 DPHVKTNL 8 Unmodified _DPHVKTNL_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF;ENST00000480835.1_1_2:96943505-96944085:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 308.5037536621094 3 308.50302 922.48723 2.0189 0.00062285 0.64325 0.00019844 2.6622 0.00082129 308.50317929841555 18.671 0.15378 18.671 18.532 18.686 0 27 11 3 0 0 0 0.5438 1 8273 8273 13.906 3.8321 1 1128200 3684 3406 2521 2528 4058 4058 0.022886142376592034 DPHVKTNL 8 Unmodified _DPHVKTNL_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF;ENST00000480835.1_1_2:96943505-96944085:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.2526550292969 2 462.250892 922.48723 2.533 0.0011709 0.60123 0.00027792 3.1342 0.0014488 462.2512886324525 17.533 0.5867 17.835 17.534 18.121 0.30158 102 44 3 0 0 0 0.099011 3 7939 7891;7939;7983 53.833 19.73 1 531060 3685 3406 2521 2528 4059;4060;4061 4060 0.022886142376592034 DPHVKTNL 8 Unmodified _DPHVKTNL_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF;ENST00000480835.1_1_2:96943505-96944085:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 308.5039978027344 3 308.50302 922.48723 2.0287 0.00062586 0.57667 0.0001779 2.6054 0.00080376 308.5032155341468 17.548 0.61305 17.85 17.498 18.111 0.30159 103 46 3 0 0 0 0.45037 2 7940 7940;7984 25.399 10.115 1 440670 3686 3406 2521 2528 4062;4063 4062 0.022886142376592034 DPHVKTNL 8 Unmodified _DPHVKTNL_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF;ENST00000480835.1_1_2:96943505-96944085:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 462.252685546875 2 462.250892 922.48723 2.8644 0.0013241 0.41251 0.00019068 3.277 0.0015148 462.2510420026785 17.418 0.40983 18.078 17.846 18.256 0.66072 75 35 3 0 0 0 0.0089417 3 7862 7816;7862;7907 111.29 48.58 1 1244500 3687 3406 2521 2528 4064;4065;4066 4065 0.022886142376592034 DPHVKTNL 8 Unmodified _DPHVKTNL_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF;ENST00000480835.1_1_2:96943505-96944085:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.5037841796875 3 308.50302 922.48723 2.1411 0.00066053 0.56503 0.00017431 2.7061 0.00083484 308.50320238412456 17.451 0.38995 18.112 17.846 18.236 0.66072 64 31 3 0 0 0 0.5438 1 7843 7843 19.257 9.8739 1 524260 3688 3406 2521 2528 4067 4067 0.022886142376592034 DPHVTEPLM 9 Unmodified _DPHVTEPLM_ 0 0 0 SLC4A2|p.P928Sfs*28|1|0.33|ENSG00000164889|chr7:151074281-151074282|-/T|frameshift_variant;nc|ENSG00000164889|P04920-2|SLC4A2;nc|ENSG00000164889|P04920-3|SLC4A2;ENSG00000164889|ENST00000413384|SLC4A2 SLC4A2|p.P928Sfs*28|1|0.33|ENSG00000164889|chr7:151074281-151074282|-/T|frameshift_variant SLC4A2|p.P928Sfs*28|1|0.33|ENSG00000164889|chr7:151074281-151074282|-/T|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 519.7514038085938 2 519.749867 1037.48518 3.3647 0.0017488 -0.40333 -0.00020963 2.9614 0.0015392 519.7497159164421 45.87 0.26344 46.136 46.001 46.265 0.26561 16 9 2 0 0 0 0.09451 1 20981 20981 34.102 5.6156 1 472710 3689 4352 2522 2529 4068 4068 -0.032061825624850826 DPHVTEPLM 9 Unmodified _DPHVTEPLM_ 0 0 0 SLC4A2|p.P928Sfs*28|1|0.33|ENSG00000164889|chr7:151074281-151074282|-/T|frameshift_variant;nc|ENSG00000164889|P04920-2|SLC4A2;nc|ENSG00000164889|P04920-3|SLC4A2;ENSG00000164889|ENST00000413384|SLC4A2 SLC4A2|p.P928Sfs*28|1|0.33|ENSG00000164889|chr7:151074281-151074282|-/T|frameshift_variant SLC4A2|p.P928Sfs*28|1|0.33|ENSG00000164889|chr7:151074281-151074282|-/T|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.140380859375 2 519.749867 1037.48518 3.6066 0.0018745 0.042821 2.2256E-05 3.6494 0.0018968 519.7497497409114 45.246 0.30961 45.897 45.751 46.061 0.65104 22 12 2 0 0 0 0.0096869 1 20717 20717 50.855 27.707 1 330230 3690 4352 2522 2529 4069 4069 -0.032061825624850826 DPIRYQTM 8 Unmodified _DPIRYQTM_ 0 0 0 REV__nc|ENSG00000145088|Q96CJ1-2|EAF2 REV__nc|ENSG00000145088|Q96CJ1-2|EAF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.2512817382812 2 512.250034 1022.48552 3.219 0.001649 -0.79956 -0.00040957 2.4195 0.0012394 512.2497534637355 32.44 0.29574 32.44 32.304 32.6 0 46 19 3 0 0 0 0.18676 1 14717 14717 44.407 4.4497 1 860090 + 3691 12425 2523 2530 4070 4070 -0.024827628425896364 DPIRYQTM 8 Unmodified _DPIRYQTM_ 0 0 0 REV__nc|ENSG00000145088|Q96CJ1-2|EAF2 REV__nc|ENSG00000145088|Q96CJ1-2|EAF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.2525024414062 2 512.250034 1022.48552 3.3616 0.001722 -0.76516 -0.00039195 2.5965 0.00133 512.2494640209128 31.684 0.27804 32.301 32.151 32.429 0.61736 44 25 2 0 0 0 0.45037 1 14498 14498 24.674 2.9272 1 1384100 + 3692 12425 2523 2530 4071 4071 -0.024827628425896364 DPISIEMTL 9 Unmodified _DPISIEMTL_ 0 0 0 REV__ENST00000523483.5_2_8:59483452-59484811:+|nuORF REV__ENST00000523483.5_2_8:59483452-59484811:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1018.5157470703125 1 1018.51252 1017.50525 3.4336 0.0034972 -0.069361 -7.0645E-05 3.3643 0.0034265 1018.5127617152332 83.976 0.44566 84.224 83.988 84.433 0.24722 78 24 4 0 0 0 0.010221 2 38724 38633;38724 81.613 14.269 1 12460000 + 3693 17064 2524 2531 4072;4073 4073 -0.002804316225024195 DPISIEMTL 9 Unmodified _DPISIEMTL_ 0 0 0 REV__ENST00000523483.5_2_8:59483452-59484811:+|nuORF REV__ENST00000523483.5_2_8:59483452-59484811:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1018.5166625976562 1 1018.51252 1017.50525 3.7448 0.0038142 -0.47279 -0.00048154 3.272 0.0033326 1018.5123036067218 83.515 0.47078 84.177 83.909 84.38 0.66219 98 30 4 0 0 0 0.017868 1 38474 38474 71.134 6.8973 1 12915000 + 3694 17064 2524 2531 4074 4074 -0.002804316225024195 DPIVVHRLT 9 Unmodified _DPIVVHRLT_ 0 0 0 REV__ENSG00000166049|ENST00000370357|PASD1 REV__ENSG00000166049|ENST00000370357|PASD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.5428161621094 3 350.541586 1048.60293 2.5204 0.00088349 0.13652 4.7857E-05 2.6569 0.00093135 350.5415869635384 34.539 0.35519 34.793 34.608 34.963 0.25389 32 14 3 0 0 0 0.64206 1 15808 15808 6.6304 0 1 1305000 + 3695 13208 2525 2532 4075 4075 0.08057138088520333 DPKDVENLL 9 Unmodified _DPKDVENLL_ 0 0 0 ENSG00000204021|ENST00000404190|LIPK ENSG00000204021|ENST00000404190|LIPK ENSG00000204021|ENST00000404190|LIPK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.775634765625 2 521.774396 1041.53424 3.5347 0.0018443 0.97543 0.00050895 4.5102 0.0023533 521.7743526995744 48.553 0.25515 48.815 48.677 48.932 0.26209 16 11 2 0 0 0 0.17594 1 22210 22210 24.991 2.2547 1 328220 3696 5984 2526 2533 4076 4076 0.015134289981460824 DPKRTLALT 9 Unmodified _DPKRTLALT_ 0 0 0 ENST00000378487.2_1_12:92813988-92814823:-|nuORF ENST00000378487.2_1_12:92813988-92814823:-|nuORF ENST00000378487.2_1_12:92813988-92814823:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.7328186035156 2 507.800749 1013.58694 3.4266 0.0017401 0.31304 0.00015896 3.7397 0.001899 507.80082129268067 32.937 0.24553 33.191 33.051 33.297 0.25389 16 9 2 0 0 0 0.0284 1 14966 14966 32.305 5.4218 1 482430 3697 7435 2527 2534 4077 4077 0.08069431851606623 DPLEPPIHI 9 Unmodified _DPLEPPIHI_ 0 0 0 REV__ENST00000515762.5_1_5:10442078-10461472:+|nuORF REV__ENST00000515762.5_1_5:10442078-10461472:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.7811279296875 2 515.782025 1029.5495 NaN NaN NaN NaN NaN NaN NaN 80.582 1 80.582 80.082 81.082 0 0 0 0 0.82031 1 40029 40029 8.5933 3.3626 1 + 3698 12443 2528 2535 4078 4078 0.035903405860153725 DPLHTLHM 8 Unmodified _DPLHTLHM_ 0 0 0 nc|ENSG00000285791|Q8IWW8-4|ADHFE1;nc|ENSG00000285791|Q8IWW8-3|ADHFE1;nc|ENSG00000285791|Q8IWW8-2|ADHFE1;ENSG00000147576|ENST00000396623|ADHFE1 nc|ENSG00000285791|Q8IWW8-4|ADHFE1 nc|ENSG00000285791|Q8IWW8-4|ADHFE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.2402038574219 2 482.23947 962.464386 NaN NaN NaN NaN NaN NaN NaN 61.585 1 61.837 61.337 62.337 0.25245 0 0 0 0.99035 1 28203 28203 5.2307 0.47466 1 3699 3574 2529 2536 4079 4079 -0.01834728151447962 DPLKKHTL 8 Unmodified _DPLKKHTL_ 0 0 0 nc|ENSG00000077235|Q12789-3|GTF3C1;ENSG00000077235|ENST00000356183|GTF3C1;GTF3C1|p.Q1078Afs*25|1|0.3|ENSG00000077235|chr16:27489664-27489665|-/T|frameshift_variant nc|ENSG00000077235|Q12789-3|GTF3C1 nc|ENSG00000077235|Q12789-3|GTF3C1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 317.8598327636719 3 317.858915 950.554916 2.2095 0.0007023 -0.93902 -0.00029847 1.2704 0.00040382 317.8590295056587 12.882 0.26595 12.882 12.77 13.036 0 16 13 2 0 0 0 0.078308 1 5626 5626 56.177 38.031 1 1046900 3700 858 2530 2537 4080 4080 0.07766064168481535 DPLKKHTL 8 Unmodified _DPLKKHTL_ 0 0 0 nc|ENSG00000077235|Q12789-3|GTF3C1;ENSG00000077235|ENST00000356183|GTF3C1;GTF3C1|p.Q1078Afs*25|1|0.3|ENSG00000077235|chr16:27489664-27489665|-/T|frameshift_variant nc|ENSG00000077235|Q12789-3|GTF3C1 nc|ENSG00000077235|Q12789-3|GTF3C1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 317.8594970703125 3 317.858915 950.554916 1.8085 0.00057485 -0.69319 -0.00022034 1.1153 0.00035451 317.8589203127695 12.618 0.090235 12.88 12.811 12.901 0.26154 15 10 2 0 0 0 0.103 1 5470 5470 53.404 28.413 1 2131800 3701 858 2530 2537 4081 4081 0.07766064168481535 DPLLVDDL 8 Unmodified _DPLLVDDL_ 0 0 0 REV__ENST00000503602.6_1_12:1086253-1099126:-|nuORF REV__ENST00000503602.6_1_12:1086253-1099126:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.2408142089844 2 450.239658 898.464763 NaN NaN NaN NaN NaN NaN NaN 77.323 1 77.579 77.079 78.079 0.25533 0 0 0 0.81105 1 35610 35610 18.135 0 1 + 3702 16905 2531 2538 4082 4082 0.011469700493648816 DPLQKEEL 8 Unmodified _DPLQKEEL_ 0 0 0 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000140575|ENST00000268182|IQGAP1 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 486.25823974609375 2 486.25584 970.497126 2.9455 0.0014323 0.57575 0.00027996 3.5212 0.0017122 486.25551114661397 34.548 0.25422 34.548 34.479 34.733 0 22 14 2 0 0 0 0.055141 1 15685 15685 63.961 14.028 1 470690 3703 3209 2532 2539 4083 4083 0.01069757452387421 DPLQKEEL 8 Unmodified _DPLQKEEL_ 0 0 0 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000140575|ENST00000268182|IQGAP1 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.2568664550781 2 486.25584 970.497126 NaN NaN NaN NaN NaN NaN NaN 33.788 1 34.576 34.076 35.076 0.78795 0 0 0 0.25023 1 15297 15297 72.968 14.289 1 3704 3209 2532 2539 4084 4084 0.01069757452387421 DPLQKEEL 8 Unmodified _DPLQKEEL_ 0 0 0 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000140575|ENST00000268182|IQGAP1 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.2577209472656 2 486.25584 970.497126 3.0941 0.0015045 0.8637 0.00041998 3.9579 0.0019245 486.2557228228532 34.535 0.32817 34.789 34.608 34.936 0.25389 30 13 3 0 0 0 0.010324 2 15707 15707;15764 96.367 28.286 1 1690800 3705 3209 2532 2539 4085;4086 4085 0.01069757452387421 DPLQKEEL 8 Unmodified _DPLQKEEL_ 0 0 0 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000140575|ENST00000268182|IQGAP1 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.2568359375 2 486.25584 970.497126 3.1166 0.0015155 -0.0059256 -2.8814E-06 3.1107 0.0015126 486.2553862251837 34.124 0.35908 34.744 34.557 34.916 0.62032 32 17 2 0 0 0 0.021215 2 15657 15602;15657 86.332 27.653 1 1423200 3706 3209 2532 2539 4087;4088 4088 0.01069757452387421 DPLRQKAI 8 Unmodified _DPLRQKAI_ 0 0 0 nc|ENSG00000091622|Q9BZ71-2|PITPNM3;nc|ENSG00000091622|Q9BZ71-3|PITPNM3;ENSG00000091622|ENST00000262483|PITPNM3 nc|ENSG00000091622|Q9BZ71-2|PITPNM3 nc|ENSG00000091622|Q9BZ71-2|PITPNM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.8533630371094 2 470.782359 939.550165 NaN NaN NaN NaN NaN NaN NaN 49.077 1 49.904 49.404 50.404 0.82705 0 0 0 0.89651 1 22358 22358 12.532 3.1841 1 3707 1080 2533 2540 4089 4089 0.07797180025715988 DPLYTRLLL 9 Unmodified _DPLYTRLLL_ 0 0 0 REV__ENSG00000166189|ENST00000299238|HPS6 REV__ENSG00000166189|ENST00000299238|HPS6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.3275756835938 2 552.326599 1102.63865 2.9707 0.0016408 0.066158 3.6541E-05 3.0368 0.0016773 552.3265588859256 73.805 0.23338 73.805 73.662 73.895 0 42 21 2 0 0 0 0.11458 1 36008 36008 29.082 1.4528 1 6249600 + 3708 13217 2534 2541 4090 4090 0.09143175545523263 DPMKARVVL 9 Unmodified _DPMKARVVL_ 0 0 0 ENSG00000143742|ENST00000304786|SRP9;nc|ENSG00000143742|P49458-2|SRP9 ENSG00000143742|ENST00000304786|SRP9 ENSG00000143742|ENST00000304786|SRP9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.801513671875 2 514.799694 1027.58484 3.2632 0.0016799 0.55302 0.0002847 3.8162 0.0019646 514.8000148171803 38.344 0.29688 38.344 38.173 38.47 0 21 11 3 0 0 0 0.0029142 1 17409 17409 96.111 63.805 1 1473000 3709 3389 2535 2542 4091 4091 0.07214679842149962 DPMKARVVL 9 Unmodified _DPMKARVVL_ 0 0 0 ENSG00000143742|ENST00000304786|SRP9;nc|ENSG00000143742|P49458-2|SRP9 ENSG00000143742|ENST00000304786|SRP9 ENSG00000143742|ENST00000304786|SRP9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.8010864257812 2 514.799694 1027.58484 3.2907 0.0016941 -0.49347 -0.00025404 2.7972 0.00144 514.7996848892457 37.326 0.31117 38.122 37.962 38.273 0.79552 30 14 3 0 0 0 0.0079462 1 16910 16910 85.642 53.336 1 1188500 3710 3389 2535 2542 4092 4092 0.07214679842149962 DPMKARVVL 9 Unmodified _DPMKARVVL_ 0 0 0 ENSG00000143742|ENST00000304786|SRP9;nc|ENSG00000143742|P49458-2|SRP9 ENSG00000143742|ENST00000304786|SRP9 ENSG00000143742|ENST00000304786|SRP9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 343.5361022949219 3 343.535555 1027.58484 2.3394 0.00080366 0.23393 8.0362E-05 2.5733 0.00088402 343.53530428766254 37.332 0.31923 38.128 38.004 38.323 0.79552 24 14 3 0 0 0 0.26277 1 16932 16932 13.615 8.7179 1 631340 3711 3389 2535 2542 4093 4093 0.07214679842149962 DPMKARVVL 9 Unmodified _DPMKARVVL_ 0 0 0 ENSG00000143742|ENST00000304786|SRP9;nc|ENSG00000143742|P49458-2|SRP9 ENSG00000143742|ENST00000304786|SRP9 ENSG00000143742|ENST00000304786|SRP9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.8016967773438 2 514.799694 1027.58484 3.3612 0.0017303 0.062397 3.2122E-05 3.4236 0.0017625 514.7997814825839 38.088 0.31536 38.349 38.184 38.5 0.26083 26 9 3 0 0 0 0.0079462 2 17323 17323;17396 85.642 39.942 1 2352400 3712 3389 2535 2542 4094;4095 4094 0.07214679842149962 DPMKARVVL 9 Unmodified _DPMKARVVL_ 0 0 0 ENSG00000143742|ENST00000304786|SRP9;nc|ENSG00000143742|P49458-2|SRP9 ENSG00000143742|ENST00000304786|SRP9 ENSG00000143742|ENST00000304786|SRP9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.802001953125 2 514.799694 1027.58484 3.3648 0.0017322 -0.014331 -7.3777E-06 3.3505 0.0017248 514.799799613369 37.456 0.29499 38.085 37.939 38.234 0.62999 27 9 4 0 0 0 0.0029142 2 17123 17123;17179 96.111 65.474 1 2090200 3713 3389 2535 2542 4096;4097 4096 0.07214679842149962 DPMKARVVL 9 Unmodified _DPMKARVVL_ 0 0 0 ENSG00000143742|ENST00000304786|SRP9;nc|ENSG00000143742|P49458-2|SRP9 ENSG00000143742|ENST00000304786|SRP9 ENSG00000143742|ENST00000304786|SRP9 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 343.535555 1027.58484 2.4038 0.00082578 0.46238 0.00015884 2.8662 0.00098463 343.53550711084785 38.105 0.6322 38.367 38.125 38.757 0.26243 0.11971 0.00012648 NaN 13.615 35 19 3 NaN NaN NaN NaN 0 NaN NaN 0 1350000 3714 3389 2535 2542 0.07214679842149962 DPMLTPEE 8 Unmodified _DPMLTPEE_ 0 0 0 ENST00000533860.5_1_11:130009456-130013340:+|nuORF;nc|ENSG00000084234|Q06481-5|APLP2;nc|ENSG00000084234|Q06481-4|APLP2;nc|ENSG00000084234|Q06481-2|APLP2;ENSG00000084234|ENST00000338167|APLP2;nc|ENSG00000084234|Q06481-6|APLP2;nc|ENSG00000084234|Q06481|APLP2 ENST00000533860.5_1_11:130009456-130013340:+|nuORF ENST00000533860.5_1_11:130009456-130013340:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.2085876464844 2 466.207501 930.400449 NaN NaN NaN NaN NaN NaN NaN 58.994 1 59.253 58.753 59.753 0.2593 0 0 0 0.99035 1 27017 27017 5.2307 2.3415 1 3715 954 2536 2543 4098 4098 -0.06753553099065357 DPMMEHEM 8 Unmodified _DPMMEHEM_ 0 0 0 ENSG00000168036|ENST00000349496|CTNNB1 ENSG00000168036|ENST00000349496|CTNNB1 ENSG00000168036|ENST00000349496|CTNNB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.186279296875 2 510.185188 1018.35582 3.461 0.0017658 -1.5576 -0.00079464 1.9035 0.00097114 510.1849987313094 33.065 0.35561 33.318 33.121 33.476 0.25389 31 14 3 0 0 0 0.18676 1 15089 15089 44.407 30.899 1 351870 3716 4597 2537 2544 4099 4099 -0.1526202350839867 DPMMEHEM 8 Unmodified _DPMMEHEM_ 0 0 0 ENSG00000168036|ENST00000349496|CTNNB1 ENSG00000168036|ENST00000349496|CTNNB1 ENSG00000168036|ENST00000349496|CTNNB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.18695068359375 2 510.185188 1018.35582 3.2596 0.001663 0.016018 8.1721E-06 3.2756 0.0016711 510.1851967368808 32.599 0.32319 33.217 33.005 33.328 0.61831 25 15 2 0 0 0 0.06577 1 14908 14908 60.39 35.716 1 345230 3717 4597 2537 2544 4100 4100 -0.1526202350839867 DPNFKNRL 8 Unmodified _DPNFKNRL_ 0 0 0 ENSG00000173726|ENST00000366607|TOMM20 ENSG00000173726|ENST00000366607|TOMM20 ENSG00000173726|ENST00000366607|TOMM20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.2718811035156 2 502.269616 1002.52468 3.3364 0.0016758 0.29581 0.00014858 3.6322 0.0018243 502.26973903422544 25.413 0.46762 25.68 25.467 25.935 0.26777 68 45 2 0 0 0 0.33696 4 11516 11464;11516;11560;11616 39.957 14.558 1 716870 3718 4949 2538 2545 4101;4102;4103;4104 4102 0.023517055032812095 DPNFKNRL 8 Unmodified _DPNFKNRL_ 0 0 0 ENSG00000173726|ENST00000366607|TOMM20 ENSG00000173726|ENST00000366607|TOMM20 ENSG00000173726|ENST00000366607|TOMM20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.1827087402344 3 335.182169 1002.52468 2.537 0.00085037 -0.29164 -9.7754E-05 2.2454 0.00075262 335.18205592212564 25.533 0.55469 25.801 25.467 26.022 0.26777 98 54 2 0 0 0 0.090253 4 11483 11483;11528;11569;11613 54.774 34.32 1 1048200 3719 4949 2538 2545 4105;4106;4107;4108 4105 0.023517055032812095 DPNLEFVAM 9 Unmodified _DPNLEFVAM_ 0 0 0 ENST00000455094.1_1_6:30454046-30454364:+|nuORF;ENSG00000132341|ENST00000543796|RAN ENST00000455094.1_1_6:30454046-30454364:+|nuORF ENST00000455094.1_1_6:30454046-30454364:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.246337890625 2 518.244418 1034.47428 2.7 0.0013992 -0.024077 -1.2478E-05 2.6759 0.0013868 518.2443797384566 81.004 0.48662 81.004 80.762 81.249 0 63 37 3 0 0 0 0.0017071 3 40230 40230;40282;40380 107.19 62.78 1 8800400 3720 2692 2539 2546 4109;4110;4111 4109 -0.04157584936751846 DPNLEFVAM 9 Unmodified _DPNLEFVAM_ 0 0 0 ENST00000455094.1_1_6:30454046-30454364:+|nuORF;ENSG00000132341|ENST00000543796|RAN ENST00000455094.1_1_6:30454046-30454364:+|nuORF ENST00000455094.1_1_6:30454046-30454364:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.2454223632812 2 518.244418 1034.47428 2.7252 0.0014123 -0.34525 -0.00017893 2.3799 0.0012334 518.244242776801 80.365 0.52338 80.534 80.424 80.948 0.16862 96 44 3 0 0 0 0.0017071 3 39386 39386;39448;39506 107.19 62.78 1 8147000 3721 2692 2539 2546 4112;4113;4114 4112 -0.04157584936751846 DPNLEFVAM 9 Unmodified _DPNLEFVAM_ 0 0 0 ENST00000455094.1_1_6:30454046-30454364:+|nuORF;ENSG00000132341|ENST00000543796|RAN ENST00000455094.1_1_6:30454046-30454364:+|nuORF ENST00000455094.1_1_6:30454046-30454364:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 518.2460327148438 2 518.244418 1034.47428 3.1894 0.0016529 -0.6202 -0.00032141 2.5692 0.0013315 518.2442065278544 80.544 0.7466 80.793 80.492 81.238 0.24947 145 45 4 0 0 0 0.0013204 5 37146 37008;37056;37102;37146;37205 118.89 67.237 1 7187800 3722 2692 2539 2546 4115;4116;4117;4118;4119 4118 -0.04157584936751846 DPNLEFVAM 9 Unmodified _DPNLEFVAM_ 0 0 0 ENST00000455094.1_1_6:30454046-30454364:+|nuORF;ENSG00000132341|ENST00000543796|RAN ENST00000455094.1_1_6:30454046-30454364:+|nuORF ENST00000455094.1_1_6:30454046-30454364:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1035.48486328125 1 1035.48156 1034.47428 3.146 0.0032576 -0.064412 -6.6698E-05 3.0816 0.0031909 1035.4816386604452 80.531 0.51437 80.781 80.587 81.102 0.24947 55 31 3 0 0 0 0.0013631 3 37068 37068;37114;37160 115.69 86.61 1 1237100 3723 2692 2539 2546 4120;4121;4122 4120 -0.04157584936751846 DPNLEFVAM 9 Unmodified _DPNLEFVAM_ 0 0 0 ENST00000455094.1_1_6:30454046-30454364:+|nuORF;ENSG00000132341|ENST00000543796|RAN ENST00000455094.1_1_6:30454046-30454364:+|nuORF ENST00000455094.1_1_6:30454046-30454364:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.2459106445312 2 518.244418 1034.47428 3.459 0.0017926 -0.44977 -0.00023309 3.0092 0.0015595 518.2442748986734 80.112 0.72596 80.772 80.428 81.154 0.65998 148 46 4 0 0 0 0.0017071 5 36949 36807;36855;36905;36949;37000 107.19 62.78 1 6427500 3724 2692 2539 2546 4123;4124;4125;4126;4127 4126 -0.04157584936751846 DPNLEFVAM 9 Unmodified _DPNLEFVAM_ 0 0 0 ENST00000455094.1_1_6:30454046-30454364:+|nuORF;ENSG00000132341|ENST00000543796|RAN ENST00000455094.1_1_6:30454046-30454364:+|nuORF ENST00000455094.1_1_6:30454046-30454364:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1035.4866943359375 1 1035.48156 1034.47428 3.6146 0.0037429 0.098706 0.00010221 3.7133 0.0038451 1035.4821929871027 80.101 0.42236 80.761 80.524 80.947 0.65998 62 27 3 0 0 0 0.0013204 3 36890 36836;36890;36937 118.89 86.109 1 1181700 3725 2692 2539 2546 4128;4129;4130 4129 -0.04157584936751846 DPNLEFVAM 9 Oxidation (M) _DPNLEFVAM(Oxidation (M))_ DPNLEFVAM(1) DPNLEFVAM(58) 0 0 1 ENST00000455094.1_1_6:30454046-30454364:+|nuORF;ENSG00000132341|ENST00000543796|RAN ENST00000455094.1_1_6:30454046-30454364:+|nuORF ENST00000455094.1_1_6:30454046-30454364:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.24365234375 2 526.241875 1050.4692 3.2062 0.0016872 -0.37804 -0.00019894 2.8281 0.0014883 526.2416891540607 62.883 0.6211 63.132 62.9 63.521 0.24965 93 44 3 0 0 0 0.02812 1 28719 28719 57.722 35.975 1 1820900 3726 2692 2539 2547 4131 4131 40 -0.05401888799360677 DPNLEFVAM 9 Oxidation (M) _DPNLEFVAM(Oxidation (M))_ DPNLEFVAM(1) DPNLEFVAM(120) 0 0 1 ENST00000455094.1_1_6:30454046-30454364:+|nuORF;ENSG00000132341|ENST00000543796|RAN ENST00000455094.1_1_6:30454046-30454364:+|nuORF ENST00000455094.1_1_6:30454046-30454364:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.2435302734375 2 526.241875 1050.4692 3.1062 0.0016346 -0.21147 -0.00011129 2.8947 0.0015233 526.2418228845077 62.388 0.67793 63.048 62.748 63.426 0.66008 109 48 3 0 0 0 0.0013204 5 28543 28492;28543;28593;28643;28691 118.89 74.488 1 1900400 3727 2692 2539 2547 4132;4133;4134;4135;4136 4133 40 -0.05401888799360677 DPNRDGHVSL 10 Unmodified _DPNRDGHVSL_ 0 0 0 nc|ENSG00000197694|Q13813-3|SPTAN1;nc|ENSG00000197694|Q13813|SPTAN1;ENSG00000197694|ENST00000372739|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 370.51690673828125 3 370.515988 1108.52613 2.8669 0.0010622 -0.071858 -2.6624E-05 2.795 0.0010356 370.515995043744 21.141 0.40632 21.141 20.916 21.322 0 90 29 4 0 0 0 0.15953 2 9477 9437;9477 44.392 29.172 1 5800600 3728 5834 2540 2548 4137;4138 4138 -0.02378705198634634 DPNRDGHVSL 10 Unmodified _DPNRDGHVSL_ 0 0 0 nc|ENSG00000197694|Q13813-3|SPTAN1;nc|ENSG00000197694|Q13813|SPTAN1;ENSG00000197694|ENST00000372739|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 370.51654052734375 3 370.515988 1108.52613 NaN NaN NaN NaN NaN NaN NaN 19.984 1 20.25 19.75 20.75 0.26616 0 0 0 0.21548 1 8882 8882 44.392 22.802 1 3729 5834 2540 2548 4139 4139 -0.02378705198634634 DPNRDGHVSL 10 Unmodified _DPNRDGHVSL_ 0 0 0 nc|ENSG00000197694|Q13813-3|SPTAN1;nc|ENSG00000197694|Q13813|SPTAN1;ENSG00000197694|ENST00000372739|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 555.2733764648438 2 555.270344 1108.52613 NaN NaN NaN NaN NaN NaN NaN 20.027 1 20.293 19.793 20.793 0.26616 0 0 0 0.042786 1 8901 8901 79.427 23.924 1 3730 5834 2540 2548 4140 4140 -0.02378705198634634 DPNRDGHVSL 10 Unmodified _DPNRDGHVSL_ 0 0 0 nc|ENSG00000197694|Q13813-3|SPTAN1;nc|ENSG00000197694|Q13813|SPTAN1;ENSG00000197694|ENST00000372739|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.2725219726562 2 555.270344 1108.52613 3.6795 0.0020431 0.23347 0.00012964 3.913 0.0021728 555.2704793682651 20.102 0.38953 20.756 20.542 20.932 0.65346 84 34 3 0 0 0 0.20979 1 9118 9118 49.742 19.901 1 644910 3731 5834 2540 2548 4141 4141 -0.02378705198634634 DPNRDGHVSL 10 Unmodified _DPNRDGHVSL_ 0 0 0 nc|ENSG00000197694|Q13813-3|SPTAN1;nc|ENSG00000197694|Q13813|SPTAN1;ENSG00000197694|ENST00000372739|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 555.270344 1108.52613 3.6149 0.0020073 -0.088564 -4.9177E-05 3.5264 0.0019581 555.2702153120234 21.138 0.37648 21.138 20.924 21.3 0 0.191 -0.00019231 NaN 49.742 71 26 4 NaN NaN NaN NaN 0 NaN NaN 0 2004600 3732 5834 2540 2548 -0.02378705198634634 DPNRDGHVSL 10 Unmodified _DPNRDGHVSL_ 0 0 0 nc|ENSG00000197694|Q13813-3|SPTAN1;nc|ENSG00000197694|Q13813|SPTAN1;ENSG00000197694|ENST00000372739|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 370.515988 1108.52613 2.7958 0.0010359 0.51933 0.00019242 3.3151 0.0012283 370.51620861878763 20.093 0.41227 20.746 20.542 20.954 0.65346 -0.19712 0.00027642 NaN 44.392 111 36 4 NaN NaN NaN NaN 0 NaN NaN 0 1031800 3733 5834 2540 2548 -0.02378705198634634 DPPLDNQMK 9 Unmodified _DPPLDNQMK_ 0 0 0 ENSG00000141446|ENST00000269214|ESCO1;nc|ENSG00000141446|Q5FWF5-2|ESCO1 ENSG00000141446|ENST00000269214|ESCO1 ENSG00000141446|ENST00000269214|ESCO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.2547607421875 2 529.252774 1056.491 NaN NaN NaN NaN NaN NaN NaN 15.559 1 15.77 15.27 16.27 0.21108 0 0 0 0.90777 1 6864 6864 1.6526 0.85899 1 3734 3253 2541 2549 4142 4142 -0.034990840507816756 DPPLKFMSV 9 Unmodified _DPPLKFMSV_ 0 0 0 ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.2876586914062 2 517.272978 1032.5314 3.7152 0.0019218 -2.8732 -0.0014862 0.84201 0.00043555 517.7742672018427 68.408 0.2962 68.66 68.52 68.816 0.25227 31 21 3 0 0 0 0.020921 1 31348 31348 67.081 45.544 1 760780 3735 4714 2542 2550 4143 4143 0.016438823396356383 DPPLLAVLKNG 11 Unmodified _DPPLLAVLKNG_ 0 0 0 ENSG00000139618|ENST00000380152|BRCA2 ENSG00000139618|ENST00000380152|BRCA2 ENSG00000139618|ENST00000380152|BRCA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.8394775390625 2 568.837331 1135.66011 3.6602 0.002082 -0.081116 -4.6142E-05 3.579 0.0020359 568.8372102548208 30.412 0.24957 30.412 30.274 30.524 0 48 16 4 0 0 0 0.12524 2 13748 13699;13748 56.177 25.246 1 2811200 3736 3153 2543 2551 4144;4145 4145 0.09770560574224874 DPPLLAVLKNG 11 Unmodified _DPPLLAVLKNG_ 0 0 0 ENSG00000139618|ENST00000380152|BRCA2 ENSG00000139618|ENST00000380152|BRCA2 ENSG00000139618|ENST00000380152|BRCA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.8396606445312 2 568.837331 1135.66011 3.6201 0.0020593 -0.29656 -0.00016869 3.3236 0.0018906 568.8371301140958 29.53 0.19024 30.32 30.198 30.388 0.78921 27 15 2 0 0 0 0.13281 1 13292 13292 53.833 15.657 1 4099700 3737 3153 2543 2551 4146 4146 0.09770560574224874 DPPLLAVLKNG 11 Unmodified _DPPLLAVLKNG_ 0 0 0 ENSG00000139618|ENST00000380152|BRCA2 ENSG00000139618|ENST00000380152|BRCA2 ENSG00000139618|ENST00000380152|BRCA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.8966064453125 3 379.560646 1135.66011 3.0781 0.0011683 -0.21803 -8.2757E-05 2.8601 0.0010856 379.5604451038542 30.117 0.317 30.375 30.249 30.566 0.25804 73 27 3 0 0 0 0.55555 2 13681 13681;13763 17.049 3.5299 1 2987300 3738 3153 2543 2551 4147;4148 4147 0.09770560574224874 DPPLLAVLKNG 11 Unmodified _DPPLLAVLKNG_ 0 0 0 ENSG00000139618|ENST00000380152|BRCA2 ENSG00000139618|ENST00000380152|BRCA2 ENSG00000139618|ENST00000380152|BRCA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.8392944335938 2 568.837331 1135.66011 3.7914 0.0021567 0.070148 3.9903E-05 3.8615 0.0021966 568.8373159473113 30.119 0.2978 30.377 30.268 30.566 0.25804 63 25 3 0 0 0 0.12524 2 13731 13689;13731 56.177 21.775 1 2227400 3739 3153 2543 2551 4149;4150 4150 0.09770560574224874 DPPLLAVLKNG 11 Unmodified _DPPLLAVLKNG_ 0 0 0 ENSG00000139618|ENST00000380152|BRCA2 ENSG00000139618|ENST00000380152|BRCA2 ENSG00000139618|ENST00000380152|BRCA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.8392333984375 2 568.837331 1135.66011 3.6312 0.0020656 -0.17824 -0.00010139 3.453 0.0019642 568.8370761870495 29.867 0.3351 30.485 30.27 30.605 0.61755 65 28 3 0 0 0 0.12524 3 13678 13632;13678;13722 56.177 13.122 1 3158500 3740 3153 2543 2551 4151;4152;4153 4152 0.09770560574224874 DPPREEHAALR 11 Unmodified _DPPREEHAALR_ 0 0 0 ENST00000588572.6_3_19:55865056-55865797:-|nuORF ENST00000588572.6_3_19:55865056-55865797:-|nuORF ENST00000588572.6_3_19:55865056-55865797:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.8889465332031 3 430.889825 1289.64765 NaN NaN NaN NaN NaN NaN NaN 102.23 1 102.55 102.05 103.05 0.31737 0 0 0 1.0079 1 47290 47290 0.50596 0.10524 1 3741 9205 2544 2552 4154 4154 0.014409171638817497 DPPREEHAALR 11 Unmodified _DPPREEHAALR_ 0 0 0 ENST00000588572.6_3_19:55865056-55865797:-|nuORF ENST00000588572.6_3_19:55865056-55865797:-|nuORF ENST00000588572.6_3_19:55865056-55865797:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.8896789550781 3 430.889825 1289.64765 NaN NaN NaN NaN NaN NaN NaN 102.69 1 103.01 102.51 103.51 0.31863 0 0 0 1.0079 1 47494 47494 0.50596 0.051438 1 3742 9205 2544 2552 4155 4155 0.014409171638817497 DPPSPVGNLY 10 Unmodified _DPPSPVGNLY_ 0 0 0 REV__nc|ENSG00000024048|Q8IWV8|UBR2 REV__nc|ENSG00000024048|Q8IWV8|UBR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.7609252929688 2 529.761289 1057.50803 3.201 0.0016957 -1.8304 -0.00096968 1.3706 0.00072607 529.7601223820799 37.466 0.78426 38.096 37.889 38.673 0.62999 32 19 2 0 0 0 0.9146 1 17227 17227 2.9952 0.10602 1 585530 + 3743 10273 2545 2553 4156 4156 -0.01842840173321747 DPPSRMRVLPA 11 Unmodified _DPPSRMRVLPA_ 0 0 0 REV__nc|ENSG00000164403|Q2M3G4-2|SHROOM1 REV__nc|ENSG00000164403|Q2M3G4-2|SHROOM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1238.6690673828125 1 1238.6674 1237.66013 2.9673 0.0036755 1.5572 0.0019289 4.5246 0.0056044 1238.6708162613184 46.974 0.30993 46.974 46.787 47.097 0 15 13 2 0 0 0 0.91068 1 21535 21535 1.3295 0 1 1212400 + 3744 13091 2546 2554 4157 4157 0.05080237302581736 DPQKRRRRRQ 10 Unmodified _DPQKRRRRRQ_ 0 0 0 REV__ENST00000477957.1_1_1:229743577-229761715:-|nuORF REV__ENST00000477957.1_1_1:229743577-229761715:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 698.4124755859375 2 698.411249 1394.80794 NaN NaN NaN NaN NaN NaN NaN 40.44 1 41.082 40.582 41.582 0.64136 0 0 0 1.0015 1 18486 18486 0.40072 0.050084 1 + 3745 16667 2547 2555 4158 4158 0.12633309671446113 DPQQRQELRRR 11 Unmodified _DPQQRQELRRR_ 0 0 0 REV__ENSG00000104824|ENST00000221419|HNRNPL REV__ENSG00000104824|ENST00000221419|HNRNPL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 741.4041137695312 2 741.405829 1480.79711 NaN NaN NaN NaN NaN NaN NaN 82.794 1 82.794 82.294 83.294 0 0 0 0 1.0072 1 41555 41555 1.3295 0.92882 1 + 3746 11002 2548 2556 4159 4159 0.0759386250647367 DPQTGLCPTKD 11 Unmodified _DPQTGLCPTKD_ 0 0 0 REV__ENST00000574260.1_1_17:4891192-4891441:+|nuORF REV__ENST00000574260.1_1_17:4891192-4891441:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.7783813476562 2 587.774071 1173.53359 3.3611 0.0019755 1.9145 0.0011253 5.2756 0.0031008 587.7761494429992 38.762 0.68779 39.027 38.656 39.344 0.26408 68 27 4 0 0 0 0.54298 2 17624 17624;17679 17.443 0 1 1602200 + 3747 17466 2549 2557 4160;4161 4160 -0.046237337132197354 DPQVHTVL 8 Unmodified _DPQVHTVL_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.7470703125 2 454.745442 907.476331 2.9357 0.001335 0.4237 0.00019267 3.3594 0.0015277 454.74555731684865 37.416 0.41141 37.677 37.478 37.889 0.26083 20 12 2 0 0 0 0.5438 1 17008 17008 18.135 8.7875 1 233660 3748 282 2550 2558 4162 4162 0.01889211863363016 DPQVHTVL 8 Unmodified _DPQVHTVL_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 454.7462158203125 2 454.745442 907.476331 3.0514 0.0013876 0.55773 0.00025362 3.6091 0.0016412 454.7456004338708 36.818 0.39415 37.448 37.23 37.625 0.62999 27 16 2 0 0 0 0.60592 1 16830 16830 13.508 4.9146 1 185760 3749 282 2550 2558 4163 4163 0.01889211863363016 DPRHWWLQ 8 Unmodified _DPRHWWLQ_ 0 0 0 REV__ENST00000270776.12_1_1:10477506-10477563:+|nuORF REV__ENST00000270776.12_1_1:10477506-10477563:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.8741455078125 3 379.857797 1136.55156 2.3064 0.00087609 1.1858 0.00045044 3.4922 0.0013265 379.8580655881529 25.452 0.22619 26.215 26.155 26.382 0.76356 31 20 2 0 0 0 0.14132 1 11455 11455 6.2058 0.013936 1 269720 + 3750 15061 2551 2559 4164 4164 -0.011251858855302999 DPRIKLEKQL 10 Unmodified _DPRIKLEKQL_ 0 0 0 REV__ENST00000475407.5_2_9:127642811-127683993:-|nuORF REV__ENST00000475407.5_2_9:127642811-127683993:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 620.3239135742188 2 620.374612 1238.73467 3.4835 0.0021611 0.32534 0.00020184 3.8088 0.0023629 620.3749983843123 51.477 0.22111 52.136 52.039 52.26 0.65956 20 11 2 0 0 0 0.79369 1 23534 23534 8.7454 0 1 310710 + 3751 12090 2552 2560 4165 4165 0.12485323385612901 DPRRRNIL 8 Unmodified _DPRRRNIL_ 0 0 0 ENSG00000160007|ENST00000672722|ARHGAP35 ENSG00000160007|ENST00000672722|ARHGAP35 ENSG00000160007|ENST00000672722|ARHGAP35 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 347.1722717285156 3 347.20883 1038.60466 2.4716 0.00085816 -0.48143 -0.00016716 1.9902 0.000691 347.20856383477627 14.125 0.12996 14.125 14.059 14.189 0 14 8 2 0 0 0 0.1128 1 6215 6215 19.257 4.4187 1 532050 3752 4038 2553 2561 4166 4166 0.08690191897130717 DPRRRNIL 8 Unmodified _DPRRRNIL_ 0 0 0 ENSG00000160007|ENST00000672722|ARHGAP35 ENSG00000160007|ENST00000672722|ARHGAP35 ENSG00000160007|ENST00000672722|ARHGAP35 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 347.20883 1038.60466 2.1322 0.00074031 -0.83642 -0.00029041 1.2958 0.0004499 347.2085035853806 13.505 0.11459 13.749 13.722 13.837 0.24346 -0.11478 -9.1353E-06 NaN 19.257 21 12 2 NaN NaN NaN NaN 0 NaN NaN 0 413970 3753 4038 2553 2561 0.08690191897130717 DPRRRNIL 8 Unmodified _DPRRRNIL_ 0 0 0 ENSG00000160007|ENST00000672722|ARHGAP35 ENSG00000160007|ENST00000672722|ARHGAP35 ENSG00000160007|ENST00000672722|ARHGAP35 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 347.20883 1038.60466 2.0865 0.00072446 -1.0582 -0.00036741 1.0283 0.00035705 347.20846913567465 13.558 0.14723 13.865 13.744 13.891 0.30727 0.0013352 -0.00024013 NaN 19.257 16 12 2 NaN NaN NaN NaN 0 NaN NaN 0 196550 3754 4038 2553 2561 0.08690191897130717 DPRTLKLRRG 10 Unmodified _DPRTLKLRRG_ 0 0 0 REV__nc|ENSG00000101190|Q9UL49-2|TCFL5 REV__nc|ENSG00000101190|Q9UL49-2|TCFL5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 606.3743286132812 2 606.370195 1210.72584 3.8939 0.0023612 -0.83857 -0.00050849 3.0554 0.0018527 606.3696906973938 87.539 0.72218 88.215 87.912 88.634 0.67555 61 35 2 0 0 0 0.93628 1 40197 40197 1.6526 0.17072 1 1769000 + 3755 10871 2554 2562 4167 4167 0.12890394539772387 DPRTLKLRRG 10 Unmodified _DPRTLKLRRG_ 0 0 0 REV__nc|ENSG00000101190|Q9UL49-2|TCFL5 REV__nc|ENSG00000101190|Q9UL49-2|TCFL5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 606.370195 1210.72584 3.8345 0.0023251 -0.0089904 -5.4515E-06 3.8255 0.0023197 606.3705304839185 87.58 0.25746 87.83 87.693 87.951 0.25065 -0.19215 0.00064142 NaN 1.6526 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 646570 + 3756 10871 2554 2562 0.12890394539772387 DPRWKRYRRWM 11 Unmodified _DPRWKRYRRWM_ 0 0 0 nc|ENSG00000059769|Q9H1X3-2|DNAJC25;ENST00000463589.5_1_9:114405367-114415499:+|nuORF;ENSG00000059769|ENST00000313525|DNAJC25 nc|ENSG00000059769|Q9H1X3-2|DNAJC25 nc|ENSG00000059769|Q9H1X3-2|DNAJC25 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.2733764648438 3 550.624649 1648.85212 NaN NaN NaN NaN NaN NaN NaN 96.267 1 96.267 95.767 96.767 0 0 0 0 1.0082 1 52055 52055 0.08335 0 1 3757 637 2555 2563 4168 4168 0.05364577773389101 DPRWWRRRRIG 11 Unmodified _DPRWWRRRRIG_ 0 0 0 ENST00000510882.3_1_6:22569875-22570217:+|nuORF ENST00000510882.3_1_6:22569875-22570217:+|nuORF ENST00000510882.3_1_6:22569875-22570217:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.6273803710938 3 518.62727 1552.85998 NaN NaN NaN NaN NaN NaN NaN 81.275 1 81.275 80.775 81.775 0 0 0 0 1.0073 1 40473 40473 0.40827 0.32491 1 3758 8561 2556 2564 4169 4169 0.10566473085191319 DPSAMAAL 8 Unmodified _DPSAMAAL_ 0 0 0 ENST00000566987.5_1_16:71893923-71901814:-|nuORF;nc|ENSG00000102984|O75541-2|ZNF821;ENSG00000102984|ENST00000425432|ZNF821 ENST00000566987.5_1_16:71893923-71901814:-|nuORF ENST00000566987.5_1_16:71893923-71901814:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 775.3677368164062 1 775.365466 774.35819 3.958 0.0030689 0.32334 0.00025071 4.2814 0.0033196 775.3654779256132 42.449 0.35577 42.719 42.535 42.891 0.27021 29 16 2 0 0 0 0.16336 1 19433 19433 46.921 8.7697 1 1996400 3759 1365 2557 2565 4170 4170 -0.038014837168020676 DPSAMAAL 8 Unmodified _DPSAMAAL_ 0 0 0 ENST00000566987.5_1_16:71893923-71901814:-|nuORF;nc|ENSG00000102984|O75541-2|ZNF821;ENSG00000102984|ENST00000425432|ZNF821 ENST00000566987.5_1_16:71893923-71901814:-|nuORF ENST00000566987.5_1_16:71893923-71901814:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 775.365466 774.35819 3.6631 0.0028402 0.061869 4.7971E-05 3.7249 0.0028882 775.3656978806982 42.57 0.32391 42.57 42.39 42.714 0 -0.028881 5.2941E-05 NaN 46.921 49 21 3 NaN NaN NaN NaN 0 NaN NaN 0 4623700 3760 1365 2557 2565 -0.038014837168020676 DPSAMAAL 8 Unmodified _DPSAMAAL_ 0 0 0 ENST00000566987.5_1_16:71893923-71901814:-|nuORF;nc|ENSG00000102984|O75541-2|ZNF821;ENSG00000102984|ENST00000425432|ZNF821 ENST00000566987.5_1_16:71893923-71901814:-|nuORF ENST00000566987.5_1_16:71893923-71901814:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 775.365466 774.35819 3.562 0.0027618 -0.27789 -0.00021546 3.2841 0.0025464 775.365501696009 41.699 0.28013 42.507 42.391 42.671 0.80855 -0.091479 -0.00021049 NaN 46.921 56 24 3 NaN NaN NaN NaN 0 NaN NaN 0 3721700 3761 1365 2557 2565 -0.038014837168020676 DPSCPNGSCW 10 Unmodified _DPSCPNGSCW_ 0 0 0 ENSG00000146648|ENST00000275493|EGFR;nc|ENSG00000146648|P00533-2|EGFR;nc|ENSG00000146648|P00533-4|EGFR;nc|ENSG00000146648|P00533-3|EGFR ENSG00000146648|ENST00000275493|EGFR ENSG00000146648|ENST00000275493|EGFR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.24072265625 2 533.191859 1064.36917 NaN NaN NaN NaN NaN NaN NaN 51.851 1 51.851 51.351 52.351 0 0 0 0 1.0003 1 23739 23739 1.4819 0 1 3762 3526 2558 2566 4171 4171 -0.1604444940483063 DPSDDDDDDDD 11 Unmodified _DPSDDDDDDDD_ 0 0 0 REV__ENSG00000110696|ENST00000228136|C11orf58 REV__ENSG00000110696|ENST00000228136|C11orf58 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.67578125 2 619.676199 1237.33784 NaN NaN NaN NaN NaN NaN NaN 71.293 1 71.997 71.497 72.497 0.70386 0 0 0 1.0082 1 34232 34232 0 0 1 + 3763 11209 2559 2567 4172 4172 -0.27133117214884805 DPSSDWEM 8 Unmodified _DPSSDWEM_ 0 0 0 ENST00000494766.5_1_13:115000559-115007787:+|nuORF;nc|ENSG00000130177|Q13042-3|CDC16;nc|ENSG00000130177|Q13042-2|CDC16;ENSG00000130177|ENST00000356221|CDC16;nc|ENSG00000130177|Q13042-4|CDC16 ENST00000494766.5_1_13:115000559-115007787:+|nuORF ENST00000494766.5_1_13:115000559-115007787:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.68060302734375 2 483.679108 965.343662 3.1681 0.0015323 -0.22031 -0.00010656 2.9478 0.0014258 483.67897688620513 56.386 0.19497 56.386 56.26 56.455 0 23 16 2 0 0 0 0.16336 1 25923 25923 46.921 37.573 1 692040 3764 2577 2560 2568 4173 4173 -0.14039600655587492 DPSSDWEM 8 Unmodified _DPSSDWEM_ 0 0 0 ENST00000494766.5_1_13:115000559-115007787:+|nuORF;nc|ENSG00000130177|Q13042-3|CDC16;nc|ENSG00000130177|Q13042-2|CDC16;ENSG00000130177|ENST00000356221|CDC16;nc|ENSG00000130177|Q13042-4|CDC16 ENST00000494766.5_1_13:115000559-115007787:+|nuORF ENST00000494766.5_1_13:115000559-115007787:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.6802062988281 2 483.679108 965.343662 2.8342 0.0013708 -0.13517 -6.538E-05 2.699 0.0013055 483.678905415164 55.876 0.37625 56.663 56.519 56.896 0.78711 37 29 2 0 0 0 0.10141 2 25551 25551;25620 53.576 44.228 1 643650 3765 2577 2560 2568 4174;4175 4174 -0.14039600655587492 DPSSDWEM 8 Unmodified _DPSSDWEM_ 0 0 0 ENST00000494766.5_1_13:115000559-115007787:+|nuORF;nc|ENSG00000130177|Q13042-3|CDC16;nc|ENSG00000130177|Q13042-2|CDC16;ENSG00000130177|ENST00000356221|CDC16;nc|ENSG00000130177|Q13042-4|CDC16 ENST00000494766.5_1_13:115000559-115007787:+|nuORF ENST00000494766.5_1_13:115000559-115007787:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.6807861328125 2 483.679108 965.343662 2.9399 0.001422 0.238 0.00011512 3.1779 0.0015371 483.6791673168519 55.739 0.1899 56.005 55.961 56.15 0.26543 11 7 2 0 0 0 0.056325 1 25509 25509 63.563 54.215 1 621920 3766 2577 2560 2568 4176 4176 -0.14039600655587492 DPSSDWEM 8 Unmodified _DPSSDWEM_ 0 0 0 ENST00000494766.5_1_13:115000559-115007787:+|nuORF;nc|ENSG00000130177|Q13042-3|CDC16;nc|ENSG00000130177|Q13042-2|CDC16;ENSG00000130177|ENST00000356221|CDC16;nc|ENSG00000130177|Q13042-4|CDC16 ENST00000494766.5_1_13:115000559-115007787:+|nuORF ENST00000494766.5_1_13:115000559-115007787:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 966.3462524414062 1 966.350939 965.343662 3.7641 0.0036374 -1.4869 -0.0014369 2.2772 0.0022006 966.3490321520954 55.111 0.31676 55.778 55.659 55.975 0.66797 14 11 2 0 0 0 0.10141 1 25226 25226 53.576 36.633 1 366490 3767 2577 2560 2568 4177 4177 -0.14039600655587492 DPSSDWEM 8 Unmodified _DPSSDWEM_ 0 0 0 ENST00000494766.5_1_13:115000559-115007787:+|nuORF;nc|ENSG00000130177|Q13042-3|CDC16;nc|ENSG00000130177|Q13042-2|CDC16;ENSG00000130177|ENST00000356221|CDC16;nc|ENSG00000130177|Q13042-4|CDC16 ENST00000494766.5_1_13:115000559-115007787:+|nuORF ENST00000494766.5_1_13:115000559-115007787:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.6806640625 2 483.679108 965.343662 3.1558 0.0015264 -0.17823 -8.6208E-05 2.9775 0.0014402 483.6789817871671 55.163 0.32865 55.831 55.647 55.976 0.66798 19 12 2 0 0 0 0.03366 1 25268 25268 74.396 74.396 1 480740 3768 2577 2560 2568 4178 4178 -0.14039600655587492 DPSTLLPSSL 10 Unmodified _DPSTLLPSSL_ 0 0 0 ENSG00000133742|ENST00000523022|CA1 ENSG00000133742|ENST00000523022|CA1 ENSG00000133742|ENST00000523022|CA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.277587890625 2 515.276772 1028.53899 3.3102 0.0017056 -0.10836 -5.5836E-05 3.2018 0.0016498 515.2768915732266 37.861 0.33579 38.657 38.507 38.843 0.79552 27 11 3 0 0 0 0.76575 1 17208 17208 10.074 1.4806 1 915560 3769 2769 2561 2569 4179 4179 0.02586313140909624 DPTGKNIYLH 10 Unmodified _DPTGKNIYLH_ 0 0 0 ENSG00000136381|ENST00000258886|IREB2 ENSG00000136381|ENST00000258886|IREB2 ENSG00000136381|ENST00000258886|IREB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.30078125 2 579.301113 1156.58767 NaN NaN NaN NaN NaN NaN NaN 86.38 1 86.38 85.88 86.88 0 0 0 0 0.93252 1 44259 44259 16.149 0.90062 1 3770 2948 2562 2570 4180 4180 0.015642265006590605 DPTHAAEQAEL 11 Unmodified _DPTHAAEQAEL_ 0 0 0 CACNA1A|p.L1543Dfs*51|1|0.31|ENSG00000141837|chr19:13255223-13255224|GC/-|frameshift_variant CACNA1A|p.L1543Dfs*51|1|0.31|ENSG00000141837|chr19:13255223-13255224|GC/-|frameshift_variant CACNA1A|p.L1543Dfs*51|1|0.31|ENSG00000141837|chr19:13255223-13255224|GC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.52044677734375 3 394.519287 1180.53603 2.9056 0.0011463 -0.49657 -0.00019591 2.409 0.0009504 394.5193005078512 56.879 0.32761 57.144 56.964 57.292 0.26444 38 13 4 0 0 0 0.81399 1 26005 26005 6.2344 0.042509 1 5030500 3771 95 2563 2571 4181 4181 -0.04701561983915781 DPTKKKKKKL 10 Unmodified _DPTKKKKKKL_ 0 0 0 nc|ENSG00000073712|Q96AC1-2|FERMT2;ENSG00000073712|ENST00000341590|FERMT2;nc|ENSG00000073712|Q96AC1-3|FERMT2 nc|ENSG00000073712|Q96AC1-2|FERMT2 nc|ENSG00000073712|Q96AC1-2|FERMT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 607.7078247070312 2 607.403173 1212.79179 NaN NaN NaN NaN NaN NaN NaN 87.628 1 87.879 87.379 88.379 0.25064 0 0 0 1.0015 1 40327 40327 0.40072 0 1 3772 811 2564 2572 4182 4182 0.19390790661987012 DPTTWEIRYI 10 Unmodified _DPTTWEIRYI_ 0 0 0 REV__ENSG00000212123|ENST00000419421|PRR22 REV__ENSG00000212123|ENST00000419421|PRR22 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 647.330322265625 2 647.327328 1292.6401 NaN NaN NaN NaN NaN NaN NaN 49.438 1 49.699 49.199 50.199 0.26146 0 0 0 0.94083 1 22598 22598 14.838 1.7958 1 + 3773 14481 2565 2573 4183 4183 0.005487648435973824 DPTVHDDVL 9 Unmodified _DPTVHDDVL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.7446594238281 2 505.743096 1009.47164 3.1044 0.00157 0.37792 0.00019113 3.4823 0.0017611 505.7433154135376 38.806 0.40126 38.806 38.62 39.021 0 28 16 2 0 0 0 0.032303 1 17634 17634 54.774 35.517 1 387440 3774 6272 2566 2574 4184 4184 -0.03271717070037994 DPTVHDDVL 9 Unmodified _DPTVHDDVL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 505.743096 1009.47164 3.1007 0.0015682 -0.18129 -9.1685E-05 2.9194 0.0014765 505.7430739897653 37.825 0.28178 38.621 38.471 38.752 0.79552 -0.15607 -0.00028551 NaN 54.774 17 10 2 NaN NaN NaN NaN 0 NaN NaN 0 492170 3775 6272 2566 2574 -0.03271717070037994 DPTVHDDVL 9 Unmodified _DPTVHDDVL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 505.743096 1009.47164 3.128 0.001582 -0.30549 -0.0001545 2.8225 0.0014275 505.7434239664577 38.27 0.1133 38.904 38.857 38.97 0.63388 0.12682 -0.00041114 NaN 54.774 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 85742 3776 6272 2566 2574 -0.03271717070037994 DPVDILVDM 9 Unmodified _DPVDILVDM_ 0 0 0 REV__ENST00000543023.1_1_11:69489476-69489926:-|nuORF REV__ENST00000543023.1_1_11:69489476-69489926:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.7538146972656 2 508.752075 1015.4896 3.1658 0.0016106 -0.37045 -0.00018847 2.7953 0.0014221 508.7519008884733 63.035 0.45589 63.285 63.081 63.537 0.24965 78 25 4 0 0 0 0.80651 1 28969 28969 7.2892 0.56607 1 9843300 + 3777 17229 2567 2575 4185 4185 -0.01752718139539411 DPVISKRLS 9 Unmodified _DPVISKRLS_ 0 0 0 nc|ENSG00000135525|Q14244-5|MAP7;nc|ENSG00000135525|Q14244-3|MAP7;nc|ENSG00000135525|Q14244-6|MAP7;chr6:136421799-136466761|462|32.17|0.92|5.13|-|ENST00000544465|MAP7,MAP7;ENSG00000135525|ENST00000354570|MAP7;nc|ENSG00000135525|Q14244-7|MAP7 nc|ENSG00000135525|Q14244-5|MAP7 nc|ENSG00000135525|Q14244-5|MAP7 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.7334289550781 2 507.800749 1013.58694 3.2289 0.0016396 0.35199 0.00017874 3.5809 0.0018184 507.8008833957514 32.411 0.34034 33.03 32.844 33.184 0.61831 28 16 2 0 0 0 0.037447 1 14842 14842 29.082 0 1 366770 3778 182 2568 2576 4186 4186 0.08069431851606623 DPVKEVMM 8 Unmodified _DPVKEVMM_ 0 0 0 REV__ENST00000581764.1_1_17:61907522-61908306:+|nuORF REV__ENST00000581764.1_1_17:61907522-61908306:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.73126220703125 2 474.730089 947.445625 2.7034 0.0012834 -0.54834 -0.00026032 2.1551 0.0010231 474.7299151489371 53.644 0.41096 54.448 54.396 54.807 0.8035 49 22 3 0 0 0 0.61796 1 24557 24557 12.532 2.4576 1 2728400 + 3779 10665 2569 2577 4187 4187 -0.030200258375202793 DPVLEKEMKPV 11 Unmodified _DPVLEKEMKPV_ 0 0 0 REV__nc|ENSG00000170776|Q12802-4|AKAP13 REV__nc|ENSG00000170776|Q12802-4|AKAP13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 428.9012145996094 3 428.900451 1283.67952 2.6468 0.0011352 -0.88934 -0.00038144 1.7575 0.00075378 428.900229375341 72.29 0.93633 72.549 72.084 73.021 0.25876 241 83 4 0 0 0 0.90879 1 33082 33082 1.9275 0.33522 1 4063900 + 3780 13452 2570 2578 4188 4188 0.04903148802804935 DPVLFLPRIEL 11 Unmodified _DPVLFLPRIEL_ 0 0 0 REV__nc|ENSG00000070366|Q86US8-2|SMG6 REV__nc|ENSG00000070366|Q86US8-2|SMG6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.928955078125 3 437.927218 1310.75982 2.9322 0.0012841 0.66497 0.00029121 3.5972 0.0015753 437.9273651663293 39.629 0.57279 39.629 39.156 39.729 0 35 23 2 0 0 0 0.91149 3 17874 17874;17933;17988 0.36667 0.037403 1 1178700 + 3781 10476 2571 2579 4189;4190;4191 4189 0.11687378188184994 DPVLFLPRIEL 11 Unmodified _DPVLFLPRIEL_ 0 0 0 REV__nc|ENSG00000070366|Q86US8-2|SMG6 REV__nc|ENSG00000070366|Q86US8-2|SMG6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.92919921875 3 437.927218 1310.75982 2.9375 0.0012864 1.1236 0.00049207 4.0612 0.0017785 437.92751504301924 40.178 0.85854 40.178 39.653 40.512 0 86 34 3 0 0 0 0.90332 1 18290 18290 0.92553 0 1 931650 + 3782 10476 2571 2579 4192 4192 0.11687378188184994 DPVLFLPRIEL 11 Unmodified _DPVLFLPRIEL_ 0 0 0 REV__nc|ENSG00000070366|Q86US8-2|SMG6 REV__nc|ENSG00000070366|Q86US8-2|SMG6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.929443359375 3 437.927218 1310.75982 2.7918 0.0012226 0.83455 0.00036547 3.6263 0.0015881 437.92755897139506 38.36 0.69367 39.158 38.724 39.418 0.79762 48 28 2 0 0 0 0.91149 2 17318 17318;17388 0.36667 0.037403 1 550320 + 3783 10476 2571 2579 4193;4194 4193 0.11687378188184994 DPVLFLPRIEL 11 Unmodified _DPVLFLPRIEL_ 0 0 0 REV__nc|ENSG00000070366|Q86US8-2|SMG6 REV__nc|ENSG00000070366|Q86US8-2|SMG6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.92877197265625 3 437.927218 1310.75982 2.7971 0.0012249 1.0268 0.00044966 3.8239 0.0016746 437.9275896916548 39.072 0.99592 39.87 39.338 40.334 0.79762 100 47 3 0 0 0 0.91149 2 17458 17458;17865 0.36667 0.36667 1 637470 + 3784 10476 2571 2579 4195;4196 4195 0.11687378188184994 DPVLFLPRIEL 11 Unmodified _DPVLFLPRIEL_ 0 0 0 REV__nc|ENSG00000070366|Q86US8-2|SMG6 REV__nc|ENSG00000070366|Q86US8-2|SMG6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.9289245605469 3 437.927218 1310.75982 2.7449 0.0012021 0.99845 0.00043725 3.7433 0.0016393 438.26198004442284 38.929 0.55221 39.193 38.896 39.448 0.26408 33 23 2 0 0 0 0.91149 1 17724 17724 0.36667 0.037403 1 548940 + 3785 10476 2571 2579 4197 4197 0.11687378188184994 DPVLFLPRIEL 11 Unmodified _DPVLFLPRIEL_ 0 0 0 REV__nc|ENSG00000070366|Q86US8-2|SMG6 REV__nc|ENSG00000070366|Q86US8-2|SMG6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.9291687011719 3 437.927218 1310.75982 3.0351 0.0013292 0.95796 0.00041952 3.9931 0.0017487 437.9274949958067 38.749 0.72941 39.386 38.92 39.649 0.63778 70 26 3 0 0 0 0.91149 1 17629 17629 0.36667 0 1 744430 + 3786 10476 2571 2579 4198 4198 0.11687378188184994 DPVLFLPRIEL 11 Unmodified _DPVLFLPRIEL_ 0 0 0 REV__nc|ENSG00000070366|Q86US8-2|SMG6 REV__nc|ENSG00000070366|Q86US8-2|SMG6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 438.26373291015625 3 437.927218 1310.75982 3.1766 0.0013911 0.68253 0.0002989 3.8591 0.00169 437.9273364909026 39.467 0.63309 40.104 39.617 40.25 0.63778 59 26 3 0 0 0 0.90332 2 18014 17838;18014 0.92553 0.36236 1 1399500 + 3787 10476 2571 2579 4199;4200 4200 0.11687378188184994 DPVSRTPAL 9 Unmodified _DPVSRTPAL_ 0 0 0 ENSG00000254598|ENST00000528848|CSNK2A3;ENSG00000101266|ENST00000217244|CSNK2A1 ENSG00000254598|ENST00000528848|CSNK2A3 ENSG00000254598|ENST00000528848|CSNK2A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.2661437988281 2 478.263999 954.513445 3.2418 0.0015504 0.052969 2.5333E-05 3.2947 0.0015758 478.26407377568916 30.65 0.62305 30.65 30.176 30.799 0 98 47 3 0 0 0 0.11458 1 13761 13761 29.082 0.58707 1 4582100 3788 1278 2572 2580 4201 4201 0.03436883409131042 DPVSRTPAL 9 Unmodified _DPVSRTPAL_ 0 0 0 ENSG00000254598|ENST00000528848|CSNK2A3;ENSG00000101266|ENST00000217244|CSNK2A1 ENSG00000254598|ENST00000528848|CSNK2A3 ENSG00000254598|ENST00000528848|CSNK2A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.26531982421875 2 478.263999 954.513445 3.379 0.0016161 -0.044001 -2.1044E-05 3.335 0.001595 478.26395916427543 30.365 0.45392 30.623 30.39 30.844 0.25804 66 25 3 0 0 0 0.043585 1 13764 13764 49.933 0.37871 1 3135500 3789 1278 2572 2580 4202 4202 0.03436883409131042 DPVTHCGP 8 Unmodified _DPVTHCGP_ 0 0 0 REV__nc|ENSG00000113073|Q96Q91-2|SLC4A9 REV__nc|ENSG00000113073|Q96Q91-2|SLC4A9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.1816711425781 2 413.18162 824.348688 NaN NaN NaN NaN NaN NaN NaN 84.21 1 84.457 83.957 84.957 0.24757 0 0 0 0.99035 1 38759 38759 2.5775 1.7838 1 + 3790 11288 2573 2581 4203 4203 -0.07051252002315778 DPVTSEHEL 9 Unmodified _DPVTSEHEL_ 0 0 0 nc|ENSG00000120217|Q9NZQ7-2|CD274;ENSG00000120217|ENST00000381577|CD274;ENST00000474218.1_1_9:5462862-5463174:+|nuORF;nc|ENSG00000120217|Q9NZQ7-3|CD274;nc|ENSG00000120217|Q9NZQ7-4|CD274 nc|ENSG00000120217|Q9NZQ7-2|CD274 nc|ENSG00000120217|Q9NZQ7-2|CD274 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.7431030273438 2 513.740554 1025.46655 3.5699 0.001834 0.10679 5.4861E-05 3.6767 0.0018889 513.7406203332215 29.57 0.30632 29.828 29.672 29.978 0.25804 32 21 2 0 0 0 0.052704 1 13432 13432 46.021 24.274 1 344680 3791 2183 2574 2582 4204 4204 -0.04516020932669562 DPVTSEHEL 9 Unmodified _DPVTSEHEL_ 0 0 0 nc|ENSG00000120217|Q9NZQ7-2|CD274;ENSG00000120217|ENST00000381577|CD274;ENST00000474218.1_1_9:5462862-5463174:+|nuORF;nc|ENSG00000120217|Q9NZQ7-3|CD274;nc|ENSG00000120217|Q9NZQ7-4|CD274 nc|ENSG00000120217|Q9NZQ7-2|CD274 nc|ENSG00000120217|Q9NZQ7-2|CD274 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.7425537109375 2 513.740554 1025.46655 3.3943 0.0017438 0.36237 0.00018616 3.7567 0.0019299 513.7406463216709 29.205 0.26232 29.823 29.744 30.007 0.61789 31 19 2 0 0 0 0.079031 2 13378 13378;13428 37.974 16.227 1 345730 3792 2183 2574 2582 4205;4206 4205 -0.04516020932669562 DPVYIKYIL 9 Unmodified _DPVYIKYIL_ 0 0 0 REV__ENST00000524003.1_1_8:92080234-92080327:-|nuORF REV__ENST00000524003.1_1_8:92080234-92080327:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 375.21795654296875 3 375.218109 1122.6325 NaN NaN NaN NaN NaN NaN NaN 14.203 1 14.203 13.703 14.703 0 0 0 0 0.12784 1 6251 6251 36.506 4.8704 1 + 3793 17072 2575 2583 4207 4207 0.07608657313994627 DPYIKITL 8 Unmodified _DPYIKITL_ 0 0 0 nc|ENSG00000138119|Q9NZM1-2|MYOF;nc|ENSG00000138119|Q9NZM1-6|MYOF;nc|ENSG00000138119|Q9NZM1-3|MYOF;ENSG00000138119|ENST00000359263|MYOF nc|ENSG00000138119|Q9NZM1-2|MYOF nc|ENSG00000138119|Q9NZM1-2|MYOF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.78314208984375 2 481.781493 961.548434 3.1635 0.0015241 0.45882 0.00022105 3.6223 0.0017452 481.78160147642234 69.627 0.30437 69.882 69.715 70.02 0.25443 31 18 2 0 0 0 0.22877 2 31900 31846;31900 47.749 23.075 1 389320 3794 3073 2576 2584 4208;4209 4209 0.06612126217078185 DPYIKITL 8 Unmodified _DPYIKITL_ 0 0 0 nc|ENSG00000138119|Q9NZM1-2|MYOF;nc|ENSG00000138119|Q9NZM1-6|MYOF;nc|ENSG00000138119|Q9NZM1-3|MYOF;ENSG00000138119|ENST00000359263|MYOF nc|ENSG00000138119|Q9NZM1-2|MYOF nc|ENSG00000138119|Q9NZM1-2|MYOF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.78265380859375 2 481.781493 961.548434 2.9017 0.001398 -0.18104 -8.7223E-05 2.7207 0.0013108 481.781192316015 69.134 0.28578 69.793 69.6 69.886 0.65925 33 19 2 0 0 0 0.083464 3 31645 31645;31649;31703 56.177 25.541 1 414900 3795 3073 2576 2584 4210;4211;4212 4210 0.06612126217078185 DPYKHKVNIGM 11 Unmodified _DPYKHKVNIGM_ 0 0 0 ENSG00000198793|ENST00000361445|MTOR ENSG00000198793|ENST00000361445|MTOR ENSG00000198793|ENST00000361445|MTOR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.5606994628906 3 434.56054 1300.65979 NaN NaN NaN NaN NaN NaN NaN 104.02 1 104.34 103.84 104.84 0.31863 0 0 0 1.0079 1 48069 48069 0.45452 0.046251 1 3796 5935 2577 2585 4213 4213 0.021488175827016676 DPYLKPYAV 9 Unmodified _DPYLKPYAV_ 0 0 0 ENSG00000114480|ENST00000429644|GBE1 ENSG00000114480|ENST00000429644|GBE1 ENSG00000114480|ENST00000429644|GBE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.2865600585938 2 533.2844 1064.55425 3.1232 0.0016656 0.40798 0.00021757 3.5312 0.0018831 533.2846539381043 50.627 0.26646 51.286 51.126 51.393 0.65956 21 13 2 0 0 0 0.057744 1 23155 23155 43.858 24.601 1 324550 3797 1906 2578 2586 4214 4214 0.024552247287601858 DPYLKPYAV 9 Unmodified _DPYLKPYAV_ 0 0 0 ENSG00000114480|ENST00000429644|GBE1 ENSG00000114480|ENST00000429644|GBE1 ENSG00000114480|ENST00000429644|GBE1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 533.2844 1064.55425 2.9282 0.0015616 -0.49739 -0.00026525 2.4308 0.0012963 533.2846706385969 51.256 0.23196 51.519 51.378 51.61 0.26227 0.11627 -0.00054054 NaN 43.858 13 10 2 NaN NaN NaN NaN 0 NaN NaN 0 597210 3798 1906 2578 2586 0.024552247287601858 DPYPKKEL 8 Unmodified _DPYPKKEL_ 0 0 0 REV__FOXR1|p.N41Y|1|0.36|ENSG00000176302|chr11:118978841-118978841|A/T|missense_variant REV__FOXR1|p.N41Y|1|0.36|ENSG00000176302|chr11:118978841-118978841|A/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.5159912109375 3 330.514925 988.522947 2.4976 0.0008255 1.0188 0.00033673 3.5164 0.0011622 330.515163117204 12.855 0.35448 13.498 13.345 13.699 0.64272 24 10 4 0 0 0 0.5584 1 5777 5777 17.113 0 1 3432800 + 3799 17688 2579 2587 4215 4215 0.028226516946688207 DPYSDDPRL 9 Unmodified _DPYSDDPRL_ 0 0 0 LLGL1|p.L685Vfs*10|1|0.32|ENSG00000131899|chr17:18238211-18238212|-/A|frameshift_variant;nc|ENSG00000073350|Q6P1M3-2|LLGL2;ENSG00000073350|ENST00000392550|LLGL2;ENST00000545227.6_1_17:73554011-73570984:+|nuORF;ENSG00000131899|ENST00000316843|LLGL1 LLGL1|p.L685Vfs*10|1|0.32|ENSG00000131899|chr17:18238211-18238212|-/A|frameshift_variant LLGL1|p.L685Vfs*10|1|0.32|ENSG00000131899|chr17:18238211-18238212|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.2474975585938 2 539.246003 1076.47745 3.1782 0.0017139 0.61591 0.00033213 3.7942 0.002046 539.2462627850337 36.408 0.25205 36.408 36.296 36.548 0 22 11 2 0 0 0 0.023321 1 16536 16536 63.961 44.704 1 532890 3800 807 2580 2588 4216 4216 -0.057726185583760525 DPYSDDPRL 9 Unmodified _DPYSDDPRL_ 0 0 0 LLGL1|p.L685Vfs*10|1|0.32|ENSG00000131899|chr17:18238211-18238212|-/A|frameshift_variant;nc|ENSG00000073350|Q6P1M3-2|LLGL2;ENSG00000073350|ENST00000392550|LLGL2;ENST00000545227.6_1_17:73554011-73570984:+|nuORF;ENSG00000131899|ENST00000316843|LLGL1 LLGL1|p.L685Vfs*10|1|0.32|ENSG00000131899|chr17:18238211-18238212|-/A|frameshift_variant LLGL1|p.L685Vfs*10|1|0.32|ENSG00000131899|chr17:18238211-18238212|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.248046875 2 539.246003 1076.47745 3.151 0.0016992 0.79608 0.00042928 3.9471 0.0021284 539.2462217321516 36.408 0.24888 36.666 36.502 36.751 0.25768 17 9 3 0 0 0 0.0095519 1 16588 16588 82.529 70.289 1 469310 3801 807 2580 2588 4217 4217 -0.057726185583760525 DPYSDDPRL 9 Unmodified _DPYSDDPRL_ 0 0 0 LLGL1|p.L685Vfs*10|1|0.32|ENSG00000131899|chr17:18238211-18238212|-/A|frameshift_variant;nc|ENSG00000073350|Q6P1M3-2|LLGL2;ENSG00000073350|ENST00000392550|LLGL2;ENST00000545227.6_1_17:73554011-73570984:+|nuORF;ENSG00000131899|ENST00000316843|LLGL1 LLGL1|p.L685Vfs*10|1|0.32|ENSG00000131899|chr17:18238211-18238212|-/A|frameshift_variant LLGL1|p.L685Vfs*10|1|0.32|ENSG00000131899|chr17:18238211-18238212|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.248291015625 2 539.246003 1076.47745 3.4178 0.001843 0.87817 0.00047355 4.2959 0.0023166 539.246536446813 35.9 0.24931 36.526 36.416 36.665 0.62631 12 8 2 0 0 0 0.023321 1 16439 16439 63.961 51.72 1 599790 3802 807 2580 2588 4218 4218 -0.057726185583760525 DQETCSFDGVY 11 Unmodified _DQETCSFDGVY_ 0 0 0 nc|ENSG00000168032|O75355-2|ENTPD3;ENSG00000168032|ENST00000301825|ENTPD3 nc|ENSG00000168032|O75355-2|ENTPD3 nc|ENSG00000168032|O75355-2|ENTPD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.8339538574219 3 421.832654 1262.47613 NaN NaN NaN NaN NaN NaN NaN 7.1943 1 7.534 7.034 8.034 0.33974 0 0 0 1.008 1 3237 3237 0.094841 0 1 3803 4596 2581 2589 4219 4219 -0.1446062070942844 DQFSIVLVHI 10 Unmodified _DQFSIVLVHI_ 0 0 0 REV__chr1:31911841-31915895|192|20.6|0.0|20.97|-|0|None,PTP4A2|1 REV__chr1:31911841-31915895|192|20.6|0.0|20.97|-|0|None,PTP4A2|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.8904113769531 3 390.888763 1169.64446 2.9292 0.001145 1.1597 0.00045331 4.0889 0.0015983 390.88917702398606 61.18 0.87746 61.433 60.913 61.79 0.25245 96 41 3 0 0 0 0.93584 1 27855 27855 1.7423 0.67081 1 1572500 + 3804 10012 2582 2590 4220 4220 0.06642274057207942 DQGKRGPHGL 10 Unmodified _DQGKRGPHGL_ 0 0 0 nc|ENSG00000171502|Q17RW2-2|COL24A1;ENSG00000171502|ENST00000370571|COL24A1 nc|ENSG00000171502|Q17RW2-2|COL24A1 nc|ENSG00000171502|Q17RW2-2|COL24A1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.2938842773438 2 532.783422 1063.55229 3.1492 0.0016779 3.1104 0.0016572 6.2596 0.003335 532.7852672450396 37.684 0.13282 37.684 37.585 37.718 0 7 4 2 0 0 0 0.12676 1 17059 17059 12.241 2.1667 1 200270 3805 4808 2583 2591 4221 4221 0.023056087635040967 DQIVSKAAYV 10 Unmodified _DQIVSKAAYV_ 0 0 0 nc|ENSG00000135655|Q9Y4E8-2|USP15;nc|ENSG00000135655|Q9Y4E8-3|USP15;ENSG00000135655|ENST00000280377|USP15;ENST00000549101.1_1_12:62794944-62798152:+|nuORF nc|ENSG00000135655|Q9Y4E8-2|USP15 nc|ENSG00000135655|Q9Y4E8-2|USP15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.2996215820312 2 547.298039 1092.58152 3.8153 0.0020881 -0.43961 -0.0002406 3.3757 0.0018475 547.7992360860422 45.679 0.2546 46.33 46.214 46.468 0.65104 13 8 2 0 0 0 0.60841 1 20955 20955 17.113 1.2657 1 312350 3806 2886 2584 2592 4222 4222 0.038937082691290925 DQKDHAVF 8 Unmodified _DQKDHAVF_ 0 0 0 nc|ENSG00000086061|P31689-2|DNAJA1;ENSG00000086061|ENST00000330899|DNAJA1;ENST00000495015.5_1_9:33025323-33036160:+|nuORF;ENST00000465677.1_1_9:33034269-33037131:+|nuORF nc|ENSG00000086061|P31689-2|DNAJA1 nc|ENSG00000086061|P31689-2|DNAJA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.2348937988281 2 480.232699 958.450845 3.1975 0.0015355 0.47858 0.00022983 3.676 0.0017654 480.2328507393372 21.806 0.22028 21.806 21.713 21.933 0 29 19 2 0 0 0 0.57648 1 9780 9780 15.847 3.3156 1 122960 3807 979 2585 2593 4223 4223 -0.03004262659055712 DQKDHAVF 8 Unmodified _DQKDHAVF_ 0 0 0 nc|ENSG00000086061|P31689-2|DNAJA1;ENSG00000086061|ENST00000330899|DNAJA1;ENST00000495015.5_1_9:33025323-33036160:+|nuORF;ENST00000465677.1_1_9:33034269-33037131:+|nuORF nc|ENSG00000086061|P31689-2|DNAJA1 nc|ENSG00000086061|P31689-2|DNAJA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.2337951660156 2 480.232699 958.450845 3.2329 0.0015525 -0.40388 -0.00019396 2.829 0.0013586 480.2324001577685 20.987 0.1743 21.64 21.478 21.652 0.65346 22 13 2 0 0 0 0.099011 2 9522 9477;9522 53.833 13.875 1 1385500 3808 979 2585 2593 4224;4225 4225 -0.03004262659055712 DQKDHAVF 8 Unmodified _DQKDHAVF_ 0 0 0 nc|ENSG00000086061|P31689-2|DNAJA1;ENSG00000086061|ENST00000330899|DNAJA1;ENST00000495015.5_1_9:33025323-33036160:+|nuORF;ENST00000465677.1_1_9:33034269-33037131:+|nuORF nc|ENSG00000086061|P31689-2|DNAJA1 nc|ENSG00000086061|P31689-2|DNAJA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 320.49163818359375 3 320.490891 958.450845 2.2599 0.00072427 0.18328 5.874E-05 2.4432 0.00078301 320.49099872577017 20.956 0.11329 21.61 21.507 21.62 0.65346 11 7 2 0 0 0 0.52777 1 9515 9515 15.248 9.5166 1 200140 3809 979 2585 2593 4226 4226 -0.03004262659055712 DQKDHAVF 8 Unmodified _DQKDHAVF_ 0 0 0 nc|ENSG00000086061|P31689-2|DNAJA1;ENSG00000086061|ENST00000330899|DNAJA1;ENST00000495015.5_1_9:33025323-33036160:+|nuORF;ENST00000465677.1_1_9:33034269-33037131:+|nuORF nc|ENSG00000086061|P31689-2|DNAJA1 nc|ENSG00000086061|P31689-2|DNAJA1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 320.490891 958.450845 2.2241 0.00071279 0.20583 6.5967E-05 2.4299 0.00077876 320.49102949758907 21.84 0.20229 21.84 21.72 21.922 0 0.1149 5.8482E-06 NaN 15.248 25 17 2 NaN NaN NaN NaN 0 NaN NaN 0 131820 3810 979 2585 2593 -0.03004262659055712 DQKKNKHEDF 10 Unmodified _DQKKNKHEDF_ 0 0 0 ENSG00000130711|ENST00000253008|PRDM12 ENSG00000130711|ENST00000253008|PRDM12 ENSG00000130711|ENST00000253008|PRDM12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.8201293945312 2 644.817658 1287.62076 NaN NaN NaN NaN NaN NaN NaN 71.889 1 71.889 71.389 72.389 0 0 0 0 0.98317 1 34949 34949 8.1555 1.4324 1 3811 2612 2586 2594 4227 4227 -0.01154191447312769 DQKMKSISL 9 Unmodified _DQKMKSISL_ 0 0 0 ENSG00000120800|ENST00000261637|UTP20 ENSG00000120800|ENST00000261637|UTP20 ENSG00000120800|ENST00000261637|UTP20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.288818359375 2 525.286617 1048.55868 3.3793 0.0017751 0.74419 0.00039091 4.1234 0.002166 525.2869882431016 33.492 0.31367 33.746 33.618 33.932 0.25389 38 18 3 0 0 0 0.028483 2 15237 15237;15287 57.249 30.908 1 582380 3812 2213 2587 2595 4228;4229 4228 0.03634365880043333 DQKMKSISL 9 Unmodified _DQKMKSISL_ 0 0 0 ENSG00000120800|ENST00000261637|UTP20 ENSG00000120800|ENST00000261637|UTP20 ENSG00000120800|ENST00000261637|UTP20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.2881469726562 2 525.286617 1048.55868 3.1956 0.0016786 1.3307 0.00069901 4.5263 0.0023776 525.287238569522 32.998 0.29373 33.616 33.458 33.751 0.61831 21 14 2 0 0 0 0.10277 1 15122 15122 32.037 10.447 1 344770 3813 2213 2587 2595 4230 4230 0.03634365880043333 DQLHRKKKK 9 Unmodified _DQLHRKKKK_ 0 0 0 REV__ENST00000453174.7_2_10:81666360-81667538:+|nuORF REV__ENST00000453174.7_2_10:81666360-81667538:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.8681030273438 2 590.867289 1179.72002 2.1844 0.0012907 -0.48791 -0.00028829 1.6965 0.0010024 590.8669361357953 99.509 0.092033 99.572 99.499 99.591 0.062248 12 5 3 0 0 0 1.2078 1 53814 53814 0.6015 0.14316 1 17945000 + 3814 16034 2588 2596 4231 4231 0.13735296028107769 DQMMRAIAM 9 Unmodified _DQMMRAIAM_ 0 0 0 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1;nc|ENSG00000086758|Q7Z6Z7-3|HUWE1;ENSG00000086758|ENST00000262854|HUWE1;ENST00000218328.12_1_X:53611240-53681066:-|nuORF nc|ENSG00000086758|Q7Z6Z7-2|HUWE1 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.7902221679688 2 533.745747 1065.47694 3.0851 0.0016467 0.87174 0.00046529 3.9569 0.002112 533.7462855671064 52.59 0.17068 52.854 52.777 52.948 0.26345 8 5 2 0 0 0 0.046443 1 24039 24039 28.495 13.246 1 305570 3815 987 2589 2597 4232 4232 -0.05317776075094116 DQMMRAIAM 9 Unmodified _DQMMRAIAM_ 0 0 0 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1;nc|ENSG00000086758|Q7Z6Z7-3|HUWE1;ENSG00000086758|ENST00000262854|HUWE1;ENST00000218328.12_1_X:53611240-53681066:-|nuORF nc|ENSG00000086758|Q7Z6Z7-2|HUWE1 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.790283203125 2 533.745747 1065.47694 3.057 0.0016317 1.0959 0.00058493 4.1529 0.0022166 533.7460642776407 52.146 0.19172 52.808 52.685 52.877 0.66198 11 7 2 0 0 0 0.088173 1 23821 23821 19.362 5.4559 1 282900 3816 987 2589 2597 4233 4233 -0.05317776075094116 DQPTELTSI 9 Unmodified _DQPTELTSI_ 0 0 0 REV__ENSG00000166049|ENST00000370357|PASD1 REV__ENSG00000166049|ENST00000370357|PASD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 502.2521057128906 2 502.250754 1002.48696 3.0742 0.001544 -0.1335 -6.7049E-05 2.9407 0.001477 502.2504398221997 38.392 0.67612 39.19 39.06 39.736 0.79762 42 31 2 0 0 0 0.36069 1 17452 17452 14.838 3.198 1 308180 + 3817 13208 2590 2598 4234 4234 -0.014188502728529784 DQRDPLHKRKR 11 Unmodified _DQRDPLHKRKR_ 0 0 0 REV__ENSG00000068394|ENST00000156109|GPKOW REV__ENSG00000068394|ENST00000156109|GPKOW MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 724.9109497070312 2 724.91329 1447.81203 NaN NaN NaN NaN NaN NaN NaN 45.358 1 46.009 45.509 46.509 0.65104 0 0 0 1.0074 1 20785 20785 1.0715 0.67075 1 + 3818 10461 2591 2599 4235 4235 0.10603354374484297 DQRQKSMGL 9 Unmodified _DQRQKSMGL_ 0 0 0 ENST00000484772.1_1_1:27271971-27272669:+|nuORF;ENSG00000090273|ENST00000321265|NUDC ENST00000484772.1_1_1:27271971-27272669:+|nuORF ENST00000484772.1_1_1:27271971-27272669:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.7738647460938 2 531.771665 1061.52878 2.9271 0.0015565 0.55912 0.00029732 3.4862 0.0018539 531.7720860456658 17.884 0.28266 18.186 18.029 18.311 0.30159 55 24 3 0 0 0 0.19413 1 8108 8108 23.79 12.966 1 410340 3819 1056 2592 2600 4236 4236 0.0004742693467960635 DQRQKSMGL 9 Unmodified _DQRQKSMGL_ 0 0 0 ENST00000484772.1_1_1:27271971-27272669:+|nuORF;ENSG00000090273|ENST00000321265|NUDC ENST00000484772.1_1_1:27271971-27272669:+|nuORF ENST00000484772.1_1_1:27271971-27272669:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.7733764648438 2 531.771665 1061.52878 3.2617 0.0017345 0.32531 0.00017299 3.5871 0.0019075 531.771786292458 17.609 0.21385 18.27 18.15 18.364 0.66072 49 27 2 0 0 0 0.027096 2 7972 7919;7972 59.052 28.135 1 1641100 3820 1056 2592 2600 4237;4238 4238 0.0004742693467960635 DQRRPQKI 8 Unmodified _DQRRPQKI_ 0 0 0 REV__ENSG00000131386|ENST00000339732|GALNT15 REV__ENSG00000131386|ENST00000339732|GALNT15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.27685546875 2 520.801614 1039.58868 3.4331 0.001788 -3.7438 -0.0019498 -0.31067 -0.0001618 521.3018149911045 47.948 0.11062 48.602 48.508 48.619 0.65356 7 4 2 0 0 0 0.70799 1 21941 21941 5.2307 0 1 447920 + 3821 11856 2593 2601 4239 4239 0.07046485660225699 DQRRPQKI 8 Unmodified _DQRRPQKI_ 0 0 0 REV__ENSG00000131386|ENST00000339732|GALNT15 REV__ENSG00000131386|ENST00000339732|GALNT15 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 520.801614 1039.58868 3.2424 0.0016886 -3.3812 -0.0017609 -0.13883 -7.2301E-05 521.3018765662245 48.81 0.16342 48.81 48.713 48.876 0 0.081778 0.0019299 NaN 5.2307 20 10 2 NaN NaN NaN NaN 0 NaN NaN 0 480250 + 3822 11856 2593 2601 0.07046485660225699 DQRRPQKI 8 Unmodified _DQRRPQKI_ 0 0 0 REV__ENSG00000131386|ENST00000339732|GALNT15 REV__ENSG00000131386|ENST00000339732|GALNT15 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 520.801614 1039.58868 3.5452 0.0018464 -5.9876 -0.0031184 -2.4424 -0.001272 520.798387148614 48.51 0.13745 48.772 48.708 48.846 0.26209 0.044398 -0.00078489 NaN 5.2307 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 308690 + 3823 11856 2593 2601 0.07046485660225699 DQRRPQKI 8 Unmodified _DQRRPQKI_ 0 0 0 REV__ENSG00000131386|ENST00000339732|GALNT15 REV__ENSG00000131386|ENST00000339732|GALNT15 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 520.801614 1039.58868 3.4331 0.001788 -3.7438 -0.0019498 -0.31067 -0.0001618 521.3018149911045 47.948 0.11062 48.602 48.508 48.619 0.65356 -0.12618 0.0015523 NaN 5.2307 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 447920 + 3824 11856 2593 2601 0.07046485660225699 DQYDEEETL 9 Unmodified _DQYDEEETL_ 0 0 0 REV__nc|ENSG00000070371|P53675-2|CLTCL1 REV__nc|ENSG00000070371|P53675-2|CLTCL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.1575927734375 3 381.155903 1140.44588 2.7635 0.0010533 0.40637 0.00015489 3.1698 0.0012082 381.1560270349958 17.833 0.35863 18.493 18.341 18.7 0.66072 126 49 3 0 0 0 0.98132 1 8133 8133 2.4985 0.59211 1 7898400 + 3825 17866 2594 2602 4240 4240 -0.11872656102991641 DRAFRVRIA 9 Unmodified _DRAFRVRIA_ 0 0 0 nc|ENSG00000132692|Q96GW7-2|BCAN;BCAN|p.I752Sfs*104|1|0.19|ENSG00000132692|chr1:156657717-156657717|C/-|frameshift_variant;ENSG00000132692|ENST00000329117|BCAN nc|ENSG00000132692|Q96GW7-2|BCAN nc|ENSG00000132692|Q96GW7-2|BCAN MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.77197265625 2 552.325257 1102.63596 3.3576 0.0018545 1.698 0.00093785 5.0556 0.0027923 552.32564357652 35.899 0.096645 36.69 36.66 36.757 0.79131 5 3 2 0 0 0 0.11053 1 16298 16298 4.3292 1.0479 1 275200 3826 84 2595 2603 4241 4241 0.08874764931215395 DREFRKWMKWY 11 Unmodified _DREFRKWMKWY_ 0 0 0 ENSG00000104885|ENST00000398665|DOT1L;nc|ENSG00000104885|Q8TEK3-1|DOT1L ENSG00000104885|ENST00000398665|DOT1L ENSG00000104885|ENST00000398665|DOT1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 822.6259155273438 2 822.908827 1643.8031 NaN NaN NaN NaN NaN NaN NaN 31.246 1 31.246 30.746 31.746 0 0 0 0 1.008 1 14132 14132 0.35063 0.35063 1 3827 1459 2596 2604 4242 4242 0.00695244693793029 DRELWYKLL 9 Unmodified _DRELWYKLL_ 0 0 0 REV__nc|ENSG00000145362|Q01484-5|ANK2 REV__nc|ENSG00000145362|Q01484-5|ANK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 618.345703125 2 618.342781 1234.67101 3.3913 0.002097 1.3304 0.00082263 4.7216 0.0029196 618.3433248659395 38.971 0.32594 39.768 39.534 39.86 0.79762 27 15 3 0 0 0 0.14214 1 17625 17625 29.082 1.8583 1 522330 + 3828 12438 2597 2605 4243 4243 0.06305962948522392 DRELWYKLL 9 Unmodified _DRELWYKLL_ 0 0 0 REV__nc|ENSG00000145362|Q01484-5|ANK2 REV__nc|ENSG00000145362|Q01484-5|ANK2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 618.342781 1234.67101 3.3913 0.002097 1.3304 0.00082263 4.7216 0.0029196 618.3433248659395 38.971 0.32594 39.768 39.534 39.86 0.79762 -0.27016 -0.00083065 NaN 29.082 27 15 3 NaN NaN NaN NaN 0 NaN NaN 0 522330 + 3829 12438 2597 2605 0.06305962948522392 DRERRYRERKL 11 Unmodified _DRERRYRERKL_ 0 0 0 ENSG00000126870|ENST00000407559|DYNC2I1 ENSG00000126870|ENST00000407559|DYNC2I1 ENSG00000126870|ENST00000407559|DYNC2I1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 788.9422607421875 2 788.942579 1575.8706 NaN NaN NaN NaN NaN NaN NaN 45.837 1 46.103 45.603 46.603 0.26561 0 0 0 1.0082 1 20957 20957 0 0 1 3830 2468 2598 2606 4244 4244 0.10570410948935205 DRGCCCCC 8 Unmodified _DRGCCCCC_ 0 0 0 REV__ENST00000566726.5_1_16:57770947-57775680:+|nuORF REV__ENST00000566726.5_1_16:57770947-57775680:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 431.9448547363281 2 431.610279 861.206005 NaN NaN NaN NaN NaN NaN NaN 51.965 1 52.227 51.727 52.727 0.26227 0 0 0 0.99035 1 23754 23754 0.6015 0.6015 1 + 3831 17426 2599 2607 4245 4245 -0.23014990323520124 DRILARAAL 9 Unmodified _DRILARAAL_ 0 0 0 REV__ENSG00000102699|ENST00000381989|PARP4 REV__ENSG00000102699|ENST00000381989|PARP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.8104248046875 2 499.808908 997.603263 NaN NaN NaN NaN NaN NaN NaN 56.857 1 57.121 56.621 57.621 0.26444 0 0 0 0.75166 1 26016 26016 10.824 0 1 + 3832 10935 2600 2608 4246 4246 0.10436557808350244 DRKKLARRR 9 Unmodified _DRKKLARRR_ 0 0 0 nc|ENSG00000132912|Q9UJW0-2|DCTN4;ENSG00000132912|ENST00000447998|DCTN4;nc|ENSG00000132912|Q9UJW0-3|DCTN4;ENST00000519313.5_1_5:150110976-150138143:-|nuORF nc|ENSG00000132912|Q9UJW0-2|DCTN4 nc|ENSG00000132912|Q9UJW0-2|DCTN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 400.2613830566406 3 400.258295 1197.75306 NaN NaN NaN NaN NaN NaN NaN 73.961 1 73.961 73.461 74.461 0 0 0 0 0.90431 1 36093 36093 2.4985 0.75621 1 3833 2734 2601 2609 4247 4247 0.1620892287080551 DRKKLYSL 8 Unmodified _DRKKLYSL_ 0 0 0 nc|ENSG00000139697|A3KN83-3|SBNO1;nc|ENSG00000139697|A3KN83-2|SBNO1;ENSG00000139697|ENST00000602398|SBNO1;nc|ENSG00000139697|A3KN83-4|SBNO1;SBNO1|p.N1108Efs*3|1|0.22|ENSG00000139697|chr12:123309827-123309830|TATT/-|frameshift_variant nc|ENSG00000139697|A3KN83-3|SBNO1 nc|ENSG00000139697|A3KN83-3|SBNO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.804931640625 2 511.803291 1021.59203 NaN NaN NaN NaN NaN NaN NaN 55.127 1 55.127 54.627 55.627 0 0 0 0 0.99035 1 25315 25315 8.5933 0.68312 1 3834 3161 2602 2610 4248 4248 0.08209735714228827 DRKLRLWFDKK 11 Unmodified _DRKLRLWFDKK_ 0 0 0 REV__ENST00000493155.1_1_1:213124884-213125846:+|nuORF REV__ENST00000493155.1_1_1:213124884-213125846:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 502.63201904296875 3 502.296415 1503.86742 2.9795 0.0014966 -0.62424 -0.00031356 2.3553 0.0011831 502.6305359949539 44.529 0.33535 45.35 45.169 45.505 0.82075 46 16 4 0 0 0 0.90781 1 20249 20249 2.084 0.86914 1 2948900 + 3835 16814 2603 2611 4249 4249 0.13563767842219931 DRKRLRKRPPI 11 Unmodified _DRKRLRKRPPI_ 0 0 0 REV__nc|ENSG00000171606|Q96GC6-4|ZNF274 REV__nc|ENSG00000171606|Q96GC6-4|ZNF274 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.7353820800781 4 359.48366 1433.90553 2.3471 0.00084374 -1.1922 -0.00042859 1.1548 0.00041514 359.7338925728928 52.096 0.67071 52.758 52.501 53.171 0.66198 66 31 4 0 0 0 0.77056 1 23812 23812 4.1166 3.6621 1 711900 + 3836 13506 2604 2612 4250 4250 0.2059369854760007 DRKRLRKRPPI 11 Unmodified _DRKRLRKRPPI_ 0 0 0 REV__nc|ENSG00000171606|Q96GC6-4|ZNF274 REV__nc|ENSG00000171606|Q96GC6-4|ZNF274 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 359.48366 1433.90553 2.5586 0.00091979 -2.4956 -0.00089712 0.06306 2.2669E-05 359.4826251747453 52.223 0.55993 52.485 52.239 52.799 0.26228 -0.13668 -0.00098946 NaN 4.1166 49 30 2 NaN NaN NaN NaN 0 NaN NaN 0 1040900 + 3837 13506 2604 2612 0.2059369854760007 DRKRRRKKRK 10 Unmodified _DRKRRRKKRK_ 0 0 0 REV__HMGB4|p.R86dup|1|0.05|ENSG00000176256|chr1:33864442-33864443|-/GAG|inframe_insertion REV__HMGB4|p.R86dup|1|0.05|ENSG00000176256|chr1:33864442-33864443|-/GAG|inframe_insertion MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 713.9713745117188 2 713.968734 1425.92291 NaN NaN NaN NaN NaN NaN NaN 31.732 1 31.732 31.232 32.232 0 0 0 0 1.0015 1 14360 14360 0.40072 0 1 + 3838 17741 2605 2613 4251 4251 0.22699038873247446 DRLENLRQR 9 Unmodified _DRLENLRQR_ 0 0 0 REV__ENSG00000176595|ENST00000320248|KBTBD11 REV__ENSG00000176595|ENST00000320248|KBTBD11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 600.1331176757812 2 600.33381 1198.65307 NaN NaN NaN NaN NaN NaN NaN 87.289 1 87.965 87.465 88.465 0.67555 0 0 0 0.90847 1 40209 40209 1.4819 0.28856 1 + 3839 13708 2606 2614 4252 4252 0.06168640746341225 DRLKKANL 8 Unmodified _DRLKKANL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;ENST00000475726.5_1_22:36680347-36682008:-|nuORF;ENST00000486218.1_1_22:36680427-36682008:-|nuORF ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 319.86669921875 3 319.866181 956.576714 1.9109 0.00061124 0.05942 1.9007E-05 1.9704 0.00063025 319.8661920925755 12.952 0.2089 13.195 13.087 13.296 0.24346 43 17 3 0 0 0 0.35763 1 5618 5618 31.268 2.1868 1 7617300 3840 1207 2607 2615 4253 4253 0.09668868917015061 DRLKKANL 8 Unmodified _DRLKKANL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;ENST00000475726.5_1_22:36680347-36682008:-|nuORF;ENST00000486218.1_1_22:36680427-36682008:-|nuORF ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 319.8666076660156 3 319.866181 956.576714 1.6871 0.00053963 0.33889 0.0001084 2.0259 0.00064803 319.86637141497835 12.891 0.3506 13.198 12.969 13.32 0.30727 35 11 5 0 0 0 0.28626 1 5808 5808 36.506 2.1045 1 11242000 3841 1207 2607 2615 4254 4254 0.09668868917015061 DRLLRIRAL 9 Unmodified _DRLLRIRAL_ 0 0 0 ENSG00000101003|ENST00000262460|GINS1 ENSG00000101003|ENST00000262460|GINS1 ENSG00000101003|ENST00000262460|GINS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.2470703125 3 375.912013 1124.71421 2.9083 0.0010933 -0.55783 -0.0002097 2.3505 0.00088356 375.91179596758366 40.441 0.17799 41.082 40.997 41.175 0.64136 29 19 2 0 0 0 0.0061394 1 18479 18479 73.196 25.464 1 1677000 3842 1258 2608 2616 4255 4255 0.15684197516452514 DRLLRIRAL 9 Unmodified _DRLLRIRAL_ 0 0 0 ENSG00000101003|ENST00000262460|GINS1 ENSG00000101003|ENST00000262460|GINS1 ENSG00000101003|ENST00000262460|GINS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 375.912013 1124.71421 2.3901 0.00089848 -1.0199 -0.00038338 1.3703 0.00051511 375.9115270735428 40.451 0.16423 41.252 41.161 41.325 0.80014 0.084841 -0.00028707 NaN 73.196 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 534740 3843 1258 2608 2616 0.15684197516452514 DRNIRYVAL 9 Unmodified _DRNIRYVAL_ 0 0 0 ENST00000535852.6_1_14:24028960-24035624:-|nuORF;ENSG00000213983|ENST00000397120|AP1G2 ENST00000535852.6_1_14:24028960-24035624:-|nuORF ENST00000535852.6_1_14:24028960-24035624:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.319091796875 2 560.317097 1118.61964 3.7146 0.0020813 -0.099755 -5.5894E-05 3.6148 0.0020254 560.3170309687316 40.445 0.17803 40.714 40.581 40.759 0.26904 10 5 2 0 0 0 0.10169 1 18399 18399 32.305 16.458 1 833950 3844 6106 2609 2617 4256 4256 0.06507638974449037 DRNIRYVAL 9 Unmodified _DRNIRYVAL_ 0 0 0 ENST00000535852.6_1_14:24028960-24035624:-|nuORF;ENSG00000213983|ENST00000397120|AP1G2 ENST00000535852.6_1_14:24028960-24035624:-|nuORF ENST00000535852.6_1_14:24028960-24035624:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.3182373046875 2 560.317097 1118.61964 3.7818 0.002119 -0.7006 -0.00039256 3.0812 0.0017265 560.3165912900213 39.963 0.22083 40.604 40.471 40.692 0.64135 13 8 2 0 0 0 0.14729 1 18276 18276 26.884 16.06 1 771680 3845 6106 2609 2617 4257 4257 0.06507638974449037 DRNIRYVAL 9 Unmodified _DRNIRYVAL_ 0 0 0 ENST00000535852.6_1_14:24028960-24035624:-|nuORF;ENSG00000213983|ENST00000397120|AP1G2 ENST00000535852.6_1_14:24028960-24035624:-|nuORF ENST00000535852.6_1_14:24028960-24035624:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 373.9851379394531 3 373.88049 1118.61964 2.9053 0.0010863 -0.53204 -0.00019892 2.3733 0.00088733 373.8803835771926 39.94 0.17545 40.581 40.489 40.664 0.64136 12 6 2 0 0 0 0.10497 1 18242 18242 7.4771 1.6936 1 653260 3846 6106 2609 2617 4258 4258 0.06507638974449037 DRNIRYVAL 9 Unmodified _DRNIRYVAL_ 0 0 0 ENST00000535852.6_1_14:24028960-24035624:-|nuORF;ENSG00000213983|ENST00000397120|AP1G2 ENST00000535852.6_1_14:24028960-24035624:-|nuORF ENST00000535852.6_1_14:24028960-24035624:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 373.88049 1118.61964 2.412 0.00090178 0.31485 0.00011772 2.7268 0.0010195 373.88051602963833 39.693 0.23448 40.493 40.337 40.571 0.80014 -0.095297 0.0004967 NaN 10.899 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 353300 3847 6106 2609 2617 0.06507638974449037 DRNIRYVAL 9 Unmodified _DRNIRYVAL_ 0 0 0 ENST00000535852.6_1_14:24028960-24035624:-|nuORF;ENSG00000213983|ENST00000397120|AP1G2 ENST00000535852.6_1_14:24028960-24035624:-|nuORF ENST00000535852.6_1_14:24028960-24035624:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 373.88049 1118.61964 2.8854 0.0010788 -0.27058 -0.00010117 2.6148 0.00097764 373.8801564305268 40.422 0.23872 40.691 40.551 40.79 0.26904 0.10247 -0.00015995 NaN 10.899 14 7 3 NaN NaN NaN NaN 0 NaN NaN 0 996050 3848 6106 2609 2617 0.06507638974449037 DRNKRFISI 9 Unmodified _DRNKRFISI_ 0 0 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 383.55712890625 3 383.556007 1147.64619 2.9159 0.0011184 0.14823 5.6855E-05 3.0642 0.0011753 383.5560697577758 30.922 0.29404 30.922 30.73 31.024 0 62 27 3 0 0 0 0.044031 2 13972 13927;13972 49.742 42.835 1 3529400 3849 829 2610 2618 4259;4260 4260 0.0782732786581164 DRNKRFISI 9 Unmodified _DRNKRFISI_ 0 0 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 383.5572814941406 3 383.556007 1147.64619 2.6033 0.00099853 0.31022 0.00011899 2.9136 0.0011175 383.55607458978284 29.859 0.30753 30.649 30.5 30.808 0.78921 74 28 4 0 0 0 0.0527 2 13437 13437;13482 46.022 21.031 1 3945000 3850 829 2610 2618 4261;4262 4261 0.0782732786581164 DRNKRFISI 9 Unmodified _DRNKRFISI_ 0 0 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 383.5571594238281 3 383.556007 1147.64619 3.2622 0.0012512 -0.4966 -0.00019048 2.7656 0.0010608 383.5558191587562 30.772 0.46485 31.028 30.774 31.239 0.25614 145 46 4 0 0 0 0.060129 3 13941 13941;13981;14024 42.835 42.835 1 7666600 3851 829 2610 2618 4263;4264;4265 4263 0.0782732786581164 DRNKRFISI 9 Unmodified _DRNKRFISI_ 0 0 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 383.5572814941406 3 383.556007 1147.64619 2.7799 0.0010663 0.19931 7.6448E-05 2.9792 0.0011427 383.55609294810984 30.36 0.39265 30.977 30.777 31.17 0.61737 80 26 4 0 0 0 0.035342 2 13938 13887;13938 53.47 23.629 1 7903200 3852 829 2610 2618 4266;4267 4267 0.0782732786581164 DRPLRVLI 8 Unmodified _DRPLRVLI_ 0 0 0 ENSG00000135090|ENST00000392533|TAOK3;TAOK3|p.H750Qfs*5|1|0.2|ENSG00000135090|chr12:118160248-118160248|G/-|frameshift_variant;ENST00000536584.1_1_12:118639070-118651824:-|nuORF ENSG00000135090|ENST00000392533|TAOK3 ENSG00000135090|ENST00000392533|TAOK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 327.87908935546875 3 327.87831 980.613099 2.1981 0.00072072 -0.21425 -7.0248E-05 1.9839 0.00065047 327.87824295565764 19.173 0.16563 19.47 19.375 19.541 0.29753 30 17 2 0 0 0 0.26351 1 8699 8699 38.176 0 1 1235400 3853 2848 2611 2619 4268 4268 0.12201745813740672 DRRIKLYAV 9 Unmodified _DRRIKLYAV_ 0 0 0 nc|ENSG00000100462|O14744-4|PRMT5;nc|ENSG00000100462|O14744-3|PRMT5;nc|ENSG00000100462|O14744-5|PRMT5;nc|ENSG00000100462|O14744-2|PRMT5;ENSG00000100462|ENST00000324366|PRMT5 nc|ENSG00000100462|O14744-4|PRMT5 nc|ENSG00000100462|O14744-4|PRMT5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 378.56591796875 3 378.564502 1132.67168 3.0456 0.0011529 0.28908 0.00010944 3.3346 0.0012624 378.56441630706763 32.498 0.30099 32.753 32.526 32.827 0.25452 35 18 3 0 0 0 0.29523 1 14831 14831 12.175 7.1272 1 889920 3854 1223 2612 2620 4269 4269 0.11064802388204953 DRRIKLYAV 9 Unmodified _DRRIKLYAV_ 0 0 0 nc|ENSG00000100462|O14744-4|PRMT5;nc|ENSG00000100462|O14744-3|PRMT5;nc|ENSG00000100462|O14744-5|PRMT5;nc|ENSG00000100462|O14744-2|PRMT5;ENSG00000100462|ENST00000324366|PRMT5 nc|ENSG00000100462|O14744-4|PRMT5 nc|ENSG00000100462|O14744-4|PRMT5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 378.564502 1132.67168 2.6817 0.0010152 0.0049144 1.8604E-06 2.6866 0.0010171 378.5644389198481 31.882 0.24282 32.499 32.354 32.597 0.61737 -0.1268 -0.00013795 NaN 12.175 21 13 2 NaN NaN NaN NaN 0 NaN NaN 0 812410 3855 1223 2612 2620 0.11064802388204953 DRRRWWVRVFR 11 Unmodified _DRRRWWVRVFR_ 0 0 0 REV__ENST00000348624.4_1_7:4815294-4820850:+|nuORF REV__ENST00000348624.4_1_7:4815294-4820850:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 816.4603881835938 2 816.460742 1630.90693 NaN NaN NaN NaN NaN NaN NaN 62.36 1 63.091 62.591 63.591 0.73077 0 0 0 1.0082 1 29060 29060 0 0 1 + 3856 15518 2613 2621 4270 4270 0.11671332636296938 DRSFHDFAP 9 Unmodified _DRSFHDFAP_ 0 0 0 REV__ENST00000301738.8_1_16:2757389-2757602:+|nuORF REV__ENST00000301738.8_1_16:2757389-2757602:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 364.5026550292969 3 364.501679 1090.48321 2.5983 0.00094709 0.25699 9.3672E-05 2.8553 0.0010408 364.50180616422267 28.713 0.32778 28.973 28.774 29.102 0.2602 37 27 2 0 0 0 0.95612 1 13057 13057 2.7352 0.23671 1 1330200 + 3857 15194 2614 2622 4271 4271 -0.05841475256033846 DRSFHDFAP 9 Unmodified _DRSFHDFAP_ 0 0 0 REV__ENST00000301738.8_1_16:2757389-2757602:+|nuORF REV__ENST00000301738.8_1_16:2757389-2757602:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 364.501679 1090.48321 2.9947 0.0010916 -0.10003 -3.6462E-05 2.8946 0.0010551 364.50170529934144 28.787 0.32693 28.787 28.705 29.032 0 -0.10518 -0.00026612 NaN 2.7352 49 28 2 NaN NaN NaN NaN 0 NaN NaN 0 493230 + 3858 15194 2614 2622 -0.05841475256033846 DRSFHDFAP 9 Unmodified _DRSFHDFAP_ 0 0 0 REV__ENST00000301738.8_1_16:2757389-2757602:+|nuORF REV__ENST00000301738.8_1_16:2757389-2757602:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 364.501679 1090.48321 2.5189 0.00091815 0.31633 0.0001153 2.8352 0.0010334 364.50183259151606 28.296 0.4318 28.916 28.685 29.117 0.61947 0.023687 0.00018917 NaN 2.7352 62 28 3 NaN NaN NaN NaN 0 NaN NaN 0 466600 + 3859 15194 2614 2622 -0.05841475256033846 DRVLKHKRM 9 Unmodified _DRVLKHKRM_ 0 0 0 ZNF148|p.Q640Sfs*7|1|0.36|ENSG00000163848|chr3:125232809-125232809|A/-|frameshift_variant;ENST00000497929.1_1_3:124951187-125011317:-|nuORF;ENSG00000163848|ENST00000360647|ZNF148 ZNF148|p.Q640Sfs*7|1|0.36|ENSG00000163848|chr3:125232809-125232809|A/-|frameshift_variant ZNF148|p.Q640Sfs*7|1|0.36|ENSG00000163848|chr3:125232809-125232809|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.9028625488281 3 394.90112 1181.68153 2.8735 0.0011348 0.77404 0.00030567 3.6476 0.0014404 394.90114857650326 82.901 0.88363 83.149 82.626 83.509 0.24722 105 45 3 0 0 0 1.0081 1 38181 38181 3.8763 1.5936 1 1004800 3860 4257 2615 2623 4272 4272 0.09795667121943552 DRVYIHPFHL 10 Unmodified _DRVYIHPFHL_ 0 0 0 ENSG00000135744|ENST00000366667|AGT ENSG00000135744|ENST00000366667|AGT ENSG00000135744|ENST00000366667|AGT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 432.9012451171875 3 432.899773 1295.67749 3.0938 0.0013393 -1.0804 -0.00046771 2.0133 0.00087158 432.8997224321334 51.328 0.29119 51.328 51.149 51.44 0 38 14 4 0 0 0 0.36873 2 23480 23480;23533 25.997 20.595 1 580510 3861 2894 2616 2624 4273;4274 4273 0.041479008998976497 DRVYIHPFHL 10 Unmodified _DRVYIHPFHL_ 0 0 0 ENSG00000135744|ENST00000366667|AGT ENSG00000135744|ENST00000366667|AGT ENSG00000135744|ENST00000366667|AGT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 432.900634765625 3 432.899773 1295.67749 2.7567 0.0011934 0.12879 5.5753E-05 2.8854 0.0012491 432.89995522646944 51.274 0.15403 51.537 51.431 51.585 0.26228 13 7 2 0 0 0 0.42358 1 23438 23438 23.964 18.561 1 725050 3862 2894 2616 2624 4275 4275 0.041479008998976497 DRVYIHPFHL 10 Unmodified _DRVYIHPFHL_ 0 0 0 ENSG00000135744|ENST00000366667|AGT ENSG00000135744|ENST00000366667|AGT ENSG00000135744|ENST00000366667|AGT MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 432.899773 1295.67749 2.9365 0.0012712 0.18095 7.8334E-05 3.1174 0.0013495 433.23414600793274 50.599 0.2855 51.259 51.082 51.368 0.65923 -0.11587 0.0006339 NaN 25.997 28 14 3 NaN NaN NaN NaN 0 NaN NaN 0 561350 3863 2894 2616 2624 0.041479008998976497 DSANDGFVRL 10 Unmodified _DSANDGFVRL_ 0 0 0 ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.2694702148438 2 547.26727 1092.51999 4.0583 0.002221 0.37611 0.00020583 4.4344 0.0024268 547.2672020691583 53.773 0.2527 53.773 53.654 53.906 0 44 16 4 0 0 0 2.9505E-13 2 24633 24633;24679 151.48 103.89 1 3716500 3864 4714 2617 2625 4276;4277 4276 -0.022572234301151184 DSANDGFVRL 10 Unmodified _DSANDGFVRL_ 0 0 0 ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.2686157226562 2 547.26727 1092.51999 2.9601 0.00162 -0.071883 -3.9339E-05 2.8882 0.0015806 547.2671873528874 52.75 0.33495 53.553 53.362 53.697 0.8035 50 22 3 0 0 0 4.4188E-20 3 24036 23989;24036;24085 171.09 119.62 1 4017200 3865 4714 2617 2625 4278;4279;4280 4279 -0.022572234301151184 DSANDGFVRL 10 Unmodified _DSANDGFVRL_ 0 0 0 ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.269775390625 2 547.26727 1092.51999 3.5881 0.0019637 0.79693 0.00043613 4.385 0.0023998 547.2673229698134 53.599 0.33186 53.864 53.714 54.045 0.26462 38 14 3 0 0 0 4.4188E-20 2 24490 24490;24540 171.09 119.46 1 3924700 3866 4714 2617 2625 4281;4282 4281 -0.022572234301151184 DSANDGFVRL 10 Unmodified _DSANDGFVRL_ 0 0 0 ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.2691650390625 2 547.26727 1092.51999 NaN NaN NaN NaN NaN NaN NaN 53.788 1 54.053 53.553 54.553 0.26462 0 0 0 0.94357 1 24598 24598 14.405 10.076 1 3867 4714 2617 2625 4283 4283 -0.022572234301151184 DSANDGFVRL 10 Unmodified _DSANDGFVRL_ 0 0 0 ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.26904296875 2 547.26727 1092.51999 3.3615 0.0018397 -0.48102 -0.00026325 2.8805 0.0015764 547.2668728510998 53.093 0.27081 53.757 53.622 53.892 0.6644 28 11 3 0 0 0 4.5792E-39 2 24268 24268;24327 201.57 132.46 1 4291400 3868 4714 2617 2625 4284;4285 4284 -0.022572234301151184 DSEGDSDDSCD 11 Unmodified _DSEGDSDDSCD_ 0 0 0 ENSG00000167778|ENST00000301463|SPRYD3 ENSG00000167778|ENST00000301463|SPRYD3 ENSG00000167778|ENST00000301463|SPRYD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.66455078125 2 572.66458 1143.31461 NaN NaN NaN NaN NaN NaN NaN 81.651 1 81.899 81.399 82.399 0.24803 0 0 0 1.0082 1 37591 37591 0 0 1 3869 4581 2618 2626 4286 4286 -0.251318345332038 DSFHDFVH 8 Unmodified _DSFHDFVH_ 0 0 0 REV__ENSG00000163154|ENST00000368910|TNFAIP8L2 REV__ENSG00000163154|ENST00000368910|TNFAIP8L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.1474609375 3 335.147125 1002.41954 NaN NaN NaN NaN NaN NaN NaN 76.334 1 76.591 76.091 77.091 0.25704 0 0 0 0.99035 1 35144 35144 0.45834 0 1 + 3870 12981 2619 2627 4287 4287 -0.08156835693137054 DSFHDFVH 8 Unmodified _DSFHDFVH_ 0 0 0 REV__ENSG00000163154|ENST00000368910|TNFAIP8L2 REV__ENSG00000163154|ENST00000368910|TNFAIP8L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.1485290527344 3 335.147125 1002.41954 NaN NaN NaN NaN NaN NaN NaN 72.24 1 72.903 72.403 73.403 0.66324 0 0 0 0.99035 1 33125 33125 0.45834 0 1 + 3871 12981 2619 2627 4288 4288 -0.08156835693137054 DSFWRWAV 8 Unmodified _DSFWRWAV_ 0 0 0 ENST00000487283.5_1_2:98351482-98355958:+|nuORF ENST00000487283.5_1_2:98351482-98355958:+|nuORF ENST00000487283.5_1_2:98351482-98355958:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.7601928710938 2 533.758884 1065.50321 3.101 0.0016552 -1.3404 -0.00071546 1.7606 0.00093972 533.7583551405539 14.692 0.20966 14.919 14.802 15.011 0.22622 30 12 3 0 0 0 0.70799 1 6504 6504 5.2307 0.47466 1 693780 3872 8349 2620 2628 4289 4289 -0.026916795254464887 DSGDGCDDNGD 11 Unmodified _DSGDGCDDNGD_ 0 0 0 REV__ENSG00000123384|ENST00000243077|LRP1 REV__ENSG00000123384|ENST00000243077|LRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.1531372070312 2 535.154182 1068.29381 NaN NaN NaN NaN NaN NaN NaN 73.129 1 73.793 73.293 74.293 0.66398 0 0 0 1.008 1 33592 33592 0.26902 0.26902 1 + 3873 11615 2621 2629 4290 4290 -0.23760380122189417 DSHLPIIM 8 Unmodified _DSHLPIIM_ 0 0 0 ENST00000382215.3_1_12:7272108-7273222:+|nuORF ENST00000382215.3_1_12:7272108-7273222:+|nuORF ENST00000382215.3_1_12:7272108-7273222:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.24517822265625 2 463.244221 924.473888 2.7075 0.0012543 0.57297 0.00026542 3.2805 0.0015197 463.24443072957183 49.826 0.31765 49.826 49.618 49.935 0 24 14 2 0 0 0 0.56084 1 22769 22769 16.942 2.3606 1 596010 3874 7491 2622 2630 4291 4291 0.008630401340724347 DSHLPIIM 8 Unmodified _DSHLPIIM_ 0 0 0 ENST00000382215.3_1_12:7272108-7273222:+|nuORF ENST00000382215.3_1_12:7272108-7273222:+|nuORF ENST00000382215.3_1_12:7272108-7273222:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.2452697753906 2 463.244221 924.473888 2.8026 0.0012983 1.7914 0.00082985 4.594 0.0021282 463.2441314287123 48.858 0.30574 49.685 49.476 49.782 0.82705 33 17 3 0 0 0 0.47217 1 22220 22220 23.148 2.2772 1 464720 3875 7491 2622 2630 4292 4292 0.008630401340724347 DSICYRMI 8 Unmodified _DSICYRMI_ 0 0 0 ENSG00000203910|ENST00000370375|C1orf146 ENSG00000203910|ENST00000370375|C1orf146 ENSG00000203910|ENST00000370375|C1orf146 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.7349548339844 2 500.733163 999.451773 NaN NaN NaN NaN NaN NaN NaN 67.722 1 67.974 67.474 68.474 0.25227 0 0 0 0.99035 1 31022 31022 5.7604 0.52976 1 3876 5980 2623 2631 4293 4293 -0.047975076060083666 DSICYRMI 8 Unmodified _DSICYRMI_ 0 0 0 ENSG00000203910|ENST00000370375|C1orf146 ENSG00000203910|ENST00000370375|C1orf146 ENSG00000203910|ENST00000370375|C1orf146 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.73529052734375 2 500.733163 999.451773 NaN NaN NaN NaN NaN NaN NaN 67.744 1 67.997 67.497 68.497 0.25227 0 0 0 0.99035 1 31032 31032 5.7604 0.52976 1 3877 5980 2623 2631 4294 4294 -0.047975076060083666 DSKIRSKAL 9 Unmodified _DSKIRSKAL_ 0 0 0 ENST00000557054.1_1_14:20923524-20925664:+|nuORF;ENST00000557159.5_1_14:20924026-20925664:+|nuORF;ENSG00000100823|ENST00000216714|APEX1 ENST00000557054.1_1_14:20923524-20925664:+|nuORF ENST00000557054.1_1_14:20923524-20925664:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.873779296875 3 339.873224 1016.59784 2.7314 0.00092833 -0.69633 -0.00023666 2.0351 0.00069167 339.87307793162023 12.316 0.023666 12.954 12.938 12.961 0.63746 5 3 2 0 0 0 0.044468 1 5500 5500 46.022 18.799 1 6072100 3878 1244 2624 2632 4295 4295 0.09020834225896124 DSKLHVTL 8 Unmodified _DSKLHVTL_ 0 0 0 ENSG00000196576|ENST00000359337|PLXNB2 ENSG00000196576|ENST00000359337|PLXNB2 ENSG00000196576|ENST00000359337|PLXNB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.7624206542969 2 456.761092 911.507631 2.5622 0.0011703 0.33556 0.00015327 2.8977 0.0013236 456.76090723180346 38.512 0.18906 38.776 38.656 38.845 0.26408 9 5 2 0 0 0 0.059272 1 17541 17541 62.573 24.599 1 742520 3879 5758 2625 2633 4296 4296 0.048337848974938424 DSKLHVTL 8 Unmodified _DSKLHVTL_ 0 0 0 ENSG00000196576|ENST00000359337|PLXNB2 ENSG00000196576|ENST00000359337|PLXNB2 ENSG00000196576|ENST00000359337|PLXNB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.7624206542969 2 456.761092 911.507631 2.8032 0.0012804 0.40415 0.0001846 3.2074 0.001465 456.76108560180273 37.995 0.29122 38.629 38.438 38.729 0.63388 16 9 2 0 0 0 0.042878 1 17369 17369 68.081 22.06 1 395000 3880 5758 2625 2633 4297 4297 0.048337848974938424 DSQQQHQSSK 10 Unmodified _DSQQQHQSSK_ 0 0 0 ENSG00000204256|ENST00000374825|BRD2;nc|ENSG00000204256|P25440-2|BRD2;nc|ENSG00000204256|P25440-4|BRD2;nc|ENSG00000204256|P25440-3|BRD2 ENSG00000204256|ENST00000374825|BRD2 ENSG00000204256|ENST00000374825|BRD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.7689819335938 2 586.768165 1171.52178 NaN NaN NaN NaN NaN NaN NaN 89.025 1 89.025 88.525 89.525 0 0 0 0 0.98664 1 46375 46375 7.609 0.88579 1 3881 5994 2626 2634 4298 4298 -0.057122144122104146 DSRIHVCL 8 Carbamidomethyl (C) _DSRIHVC(Carbamidomethyl (C))L_ DSRIHVC(1)L DSRIHVC(48)L 0 1 0 ENSG00000125354|ENST00000394610|SEPTIN6;nc|ENSG00000125354|Q14141-4|SEPTIN6;nc|ENSG00000125354|Q14141|SEPTIN6;nc|ENSG00000125354|Q14141-3|SEPTIN6 ENSG00000125354|ENST00000394610|SEPTIN6 ENSG00000125354|ENST00000394610|SEPTIN6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.2576904296875 2 500.255651 998.496749 3.3587 0.0016802 0.41303 0.00020662 3.7718 0.0018869 500.2557307090357 40.265 0.26255 40.532 40.38 40.642 0.26696 13 8 2 0 0 0 0.15565 1 18328 18328 47.749 7.7914 1 775320 3882 2395 2627 2635 4299 4299 53 -0.002559407484454823 DSRIHVCL 8 Carbamidomethyl (C) _DSRIHVC(Carbamidomethyl (C))L_ 0 1 0 ENSG00000125354|ENST00000394610|SEPTIN6;nc|ENSG00000125354|Q14141-4|SEPTIN6;nc|ENSG00000125354|Q14141|SEPTIN6;nc|ENSG00000125354|Q14141-3|SEPTIN6 ENSG00000125354|ENST00000394610|SEPTIN6 ENSG00000125354|ENST00000394610|SEPTIN6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 500.255651 998.496749 3.0492 0.0015254 1.1907 0.00059564 4.2399 0.002121 500.25634527160673 39.452 0.19108 40.252 40.178 40.369 0.80014 -0.13729 0.00076728 NaN 47.749 14 9 2 NaN NaN NaN NaN 0 NaN NaN 0 177960 3883 2395 2627 2635 53 -0.002559407484454823 DSRKPKYLWKR 11 Unmodified _DSRKPKYLWKR_ 0 0 0 REV__nc|ENSG00000159733|Q9HCC9-6|ZFYVE28 REV__nc|ENSG00000159733|Q9HCC9-6|ZFYVE28 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 738.9284057617188 2 738.925335 1475.83612 NaN NaN NaN NaN NaN NaN NaN 28.013 1 28.013 27.513 28.513 0 0 0 0 1.008 1 12624 12624 0.35063 0 1 + 3884 12859 2628 2636 4300 4300 0.11723194808132575 DSSDSDAT 8 Unmodified _DSSDSDAT_ 0 0 0 ENSG00000169592|ENST00000563197|INO80E;nc|ENSG00000169592|Q8NBZ0-2|INO80E ENSG00000169592|ENST00000563197|INO80E ENSG00000169592|ENST00000563197|INO80E MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.7528381347656 2 399.143412 796.272271 NaN NaN NaN NaN NaN NaN NaN 102.69 1 103.28 102.78 103.78 0.59759 0 0 0 0.99035 1 47523 47523 0.69038 0 1 3885 4698 2629 2637 4301 4301 -0.1340139708861443 DSYLADCYDAI 11 Unmodified _DSYLADCYDAI_ 0 0 0 nc|ENSG00000223501|Q8N1B4-2|VPS52;ENSG00000223501|ENST00000445902|VPS52;ENST00000493379.1_1_6:33232539-33235000:-|nuORF nc|ENSG00000223501|Q8N1B4-2|VPS52 nc|ENSG00000223501|Q8N1B4-2|VPS52 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 624.760498046875 2 624.758086 1247.50162 3.5945 0.0022457 -0.86733 -0.00054187 2.7272 0.0017038 624.7571539249772 43.492 0.22909 43.763 43.654 43.883 0.27021 10 7 2 0 0 0 0.64057 1 19879 19879 13.906 0.86358 1 294260 3886 6160 2630 2638 4302 4302 -0.1122314618701239 DTANDGFVRL 10 Unmodified _DTANDGFVRL_ 0 0 0 HNRNPH1|p.H338Rfs*56|1|0.06|ENSG00000169045|chr5:179617557-179617558|AT/-|frameshift_variant;ENSG00000169045|ENST00000393432|HNRNPH1;ENSG00000126945|ENST00000316594|HNRNPH2;ENST00000519455.5_1_5:179047887-179050134:-|nuORF;ENST00000513972.5_1_5:179047887-179050134:-|nuORF;ENST00000524180.5_1_5:179047015-179050134:-|nuORF;ENST00000522958.5_1_5:179046175-179048291:-|nuORF HNRNPH1|p.H338Rfs*56|1|0.06|ENSG00000169045|chr5:179617557-179617558|AT/-|frameshift_variant HNRNPH1|p.H338Rfs*56|1|0.06|ENSG00000169045|chr5:179617557-179617558|AT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.277587890625 2 554.275095 1106.53564 3.3327 0.0018472 0.59183 0.00032804 3.9245 0.0021753 554.2755495584598 54.536 0.17026 54.802 54.68 54.85 0.26543 10 7 2 0 0 0 0.094878 1 24929 24929 53.404 24.322 1 392880 3887 4667 2631 2639 4303 4303 -0.013369369130941777 DTGCEEDEAC 10 Unmodified _DTGCEEDEAC_ 0 0 0 REV__ENSG00000107984|ENST00000373970|DKK1 REV__ENSG00000107984|ENST00000373970|DKK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.1663208007812 2 536.165704 1070.31685 NaN NaN NaN NaN NaN NaN NaN 71.265 1 71.927 71.427 72.427 0.66209 0 0 0 1.0015 1 32660 32660 0.40072 0 1 + 3888 11133 2632 2640 4304 4304 -0.21549077329109423 DTGLRTSIFLR 11 Unmodified _DTGLRTSIFLR_ 0 0 0 REV__nc|ENSG00000197879|O00159-2|MYO1C REV__nc|ENSG00000197879|O00159-2|MYO1C MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 639.5736083984375 2 639.861869 1277.70918 3.3628 0.0021517 2.7358 0.0017506 6.0986 0.0039023 640.3648129281133 97.882 0.066681 97.882 97.847 97.914 0 7 4 2 0 0 0 0.13295 1 53451 53451 2.7352 1.0826 1 10308000 + 3889 14303 2633 2641 4305 4305 0.08143848863187486 DTHRWRRRDHR 11 Unmodified _DTHRWRRRDHR_ 0 0 0 REV__ENSG00000174010|ENST00000328046|KLHL15 REV__ENSG00000174010|ENST00000328046|KLHL15 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.764892578125 3 530.94555 1589.81482 2.4823 0.001318 -2.742 -0.0014559 -0.25971 -0.00013789 531.2797603626731 68.079 0.046562 68.781 68.767 68.814 0.70218 7 5 2 0 0 0 0.13295 1 32446 32446 0 0 1 1963200 + 3890 13620 2634 2642 4306 4306 0.04350622551987726 DTIRRFQSV 9 Unmodified _DTIRRFQSV_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC;CLTC|p.N1492Kfs*34|1|0.12|ENSG00000141367|chr17:59685097-59685097|T/-|frameshift_variant nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.3084106445312 2 561.306729 1120.59891 3.4574 0.0019406 -0.79223 -0.00044468 2.6651 0.001496 561.3059167173984 28.325 0.19175 28.585 28.522 28.714 0.2602 20 11 2 0 0 0 0.89849 1 12888 12888 5.7319 2.4505 1 278470 3891 3246 2635 2643 4307 4307 0.04343048594796528 DTIRRFQSV 9 Unmodified _DTIRRFQSV_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC;CLTC|p.N1492Kfs*34|1|0.12|ENSG00000141367|chr17:59685097-59685097|T/-|frameshift_variant nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.5411071777344 3 374.540245 1120.59891 2.6304 0.0009852 -0.88597 -0.00033183 1.7444 0.00065337 374.54020962221756 28.339 0.2106 28.599 28.503 28.714 0.2602 28 13 3 0 0 0 0.5141 1 12904 12904 12.175 2.6308 1 387130 3892 3246 2635 2643 4308 4308 0.04343048594796528 DTIRRFQSV 9 Unmodified _DTIRRFQSV_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC;CLTC|p.N1492Kfs*34|1|0.12|ENSG00000141367|chr17:59685097-59685097|T/-|frameshift_variant nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.3078002929688 2 561.306729 1120.59891 3.4732 0.0019495 0.030314 1.7016E-05 3.5035 0.0019665 561.3068663987148 27.937 0.23265 28.557 28.441 28.674 0.61947 24 16 2 0 0 0 0.68285 1 12803 12803 9.3831 5.4387 1 279350 3893 3246 2635 2643 4309 4309 0.04343048594796528 DTKKTKLE 8 Unmodified _DTKKTKLE_ 0 0 0 nc|ENSG00000075292|Q14966-5|ZNF638;nc|ENSG00000075292|Q14966-3|ZNF638;ENSG00000075292|ENST00000264447|ZNF638 nc|ENSG00000075292|Q14966-5|ZNF638 nc|ENSG00000075292|Q14966-5|ZNF638 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.7819519042969 2 481.779482 961.544411 NaN NaN NaN NaN NaN NaN NaN 16.72 1 17.025 16.525 17.525 0.30438 0 0 0 0.99035 1 7570 7570 1.8442 1.0506 1 3894 826 2636 2644 4310 4310 0.06210036723371104 DTMKKFKSL 9 Unmodified _DTMKKFKSL_ 0 0 0 ENST00000503112.1_1_5:6372618-6374583:-|nuORF;ENSG00000133398|ENST00000255764|MED10 ENST00000503112.1_1_5:6372618-6374583:-|nuORF ENST00000503112.1_1_5:6372618-6374583:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.5402526855469 3 366.538965 1096.59507 2.8202 0.0010337 -0.08482 -3.109E-05 2.7354 0.0010026 366.53908185097686 22.485 0.14748 22.485 22.363 22.51 0 23 10 3 0 0 0 0.10437 1 10080 10080 31.636 15.897 1 974080 3895 2760 2637 2645 4311 4311 0.050632427767368426 DTMKKFKSL 9 Unmodified _DTMKKFKSL_ 0 0 0 ENST00000503112.1_1_5:6372618-6374583:-|nuORF;ENSG00000133398|ENST00000255764|MED10 ENST00000503112.1_1_5:6372618-6374583:-|nuORF ENST00000503112.1_1_5:6372618-6374583:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.539794921875 3 366.538965 1096.59507 NaN NaN NaN NaN NaN NaN NaN 21.7 1 21.986 21.486 22.486 0.28662 0 0 0 0.13549 1 9815 9815 35.08 4.3762 1 3896 2760 2637 2645 4312 4312 0.050632427767368426 DTNEKIFMPF 10 Unmodified _DTNEKIFMPF_ 0 0 0 ENST00000461352.5_1_2:73172212-73286292:-|nuORF;ENST00000474528.5_1_2:73172153-73286292:-|nuORF;ENST00000485057.5_1_2:73247283-73302735:-|nuORF;ENST00000416579.5_1_2:73200539-73298852:-|nuORF;ENSG00000144040|ENST00000272433|SFXN5 ENST00000461352.5_1_2:73172212-73286292:-|nuORF ENST00000461352.5_1_2:73172212-73286292:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 621.4401245117188 2 621.297181 1240.57981 NaN NaN NaN NaN NaN NaN NaN 94.298 1 94.298 93.798 94.798 0 0 0 0 0.99464 1 50544 50544 6.2058 0.47393 1 3897 8083 2638 2646 4313 4313 -0.03085668811127107 DTPEIEASL 9 Unmodified _DTPEIEASL_ 0 0 0 nc|ENSG00000130751|Q99742-2|NPAS1;ENSG00000130751|ENST00000602212|NPAS1 nc|ENSG00000130751|Q99742-2|NPAS1 nc|ENSG00000130751|Q99742-2|NPAS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.75628662109375 2 487.73748 973.460406 NaN NaN NaN NaN NaN NaN NaN 53.695 1 54.498 53.998 54.998 0.80351 0 0 0 0.3934 1 24504 24504 23.148 0 1 3898 2617 2639 2647 4314 4314 -0.02738539164181475 DTPVTEFSL 9 Unmodified _DTPVTEFSL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-3|COL6A3;nc|ENSG00000163359|P12111-5|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.7494812011719 2 504.747847 1007.48114 3.2646 0.0016478 1.6469 0.00083126 4.9115 0.0024791 504.7481208722525 59.917 0.41136 60.176 60.013 60.424 0.2593 34 20 3 0 0 0 0.26277 1 27450 27450 19.257 3.4098 1 487580 3899 4204 2640 2648 4315 4315 -0.022299487844975374 DTSGMEESYSG 11 Unmodified _DTSGMEESYSG_ 0 0 0 nc|ENSG00000176273|Q2M3R5-2|SLC35G1;ENSG00000176273|ENST00000427197|SLC35G1 nc|ENSG00000176273|Q2M3R5-2|SLC35G1 nc|ENSG00000176273|Q2M3R5-2|SLC35G1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.7133178710938 2 581.713876 1161.4132 NaN NaN NaN NaN NaN NaN NaN 66.258 1 66.258 65.758 66.758 0 0 0 0 1.0059 1 31651 31651 2.9952 0.93549 1 3900 5072 2641 2649 4316 4316 -0.16105186497497925 DTTYIVRVRML 11 Unmodified _DTTYIVRVRML_ 0 0 0 ENST00000488068.5_1_7:143088552-143095662:-|nuORF;ENSG00000146904|ENST00000275815|EPHA1 ENST00000488068.5_1_7:143088552-143095662:-|nuORF ENST00000488068.5_1_7:143088552-143095662:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 683.8778686523438 2 683.879204 1365.74386 NaN NaN NaN NaN NaN NaN NaN 42.044 1 42.852 42.352 43.352 0.80855 0 0 0 0.32224 1 19087 19087 31.268 19.774 1 3901 3537 2642 2650 4317 4317 0.07561348679632829 DTYHMQQCL 9 Unmodified _DTYHMQQCL_ 0 0 0 ENSG00000179532|ENST00000254579|DNHD1;nc|ENSG00000179532|Q96M86-5|DNHD1;nc|ENSG00000179532|Q96M86-4|DNHD1 ENSG00000179532|ENST00000254579|DNHD1 ENSG00000179532|ENST00000254579|DNHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.1623229980469 3 380.160048 1137.45831 NaN NaN NaN NaN NaN NaN NaN 17.523 1 17.824 17.324 18.324 0.30158 0 0 0 0.90965 1 7936 7936 1.1933 0 1 3902 5220 2643 2651 4318 4318 -0.10491614445277264 DTYPEEYAL 9 Unmodified _DTYPEEYAL_ 0 0 0 nc|ENSG00000170525|Q16875-3|PFKFB3;nc|ENSG00000170525|Q16875-2|PFKFB3;ENSG00000170525|ENST00000379775|PFKFB3;nc|ENSG00000170525|Q16875-4|PFKFB3 nc|ENSG00000170525|Q16875-3|PFKFB3 nc|ENSG00000170525|Q16875-3|PFKFB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.7448120117188 2 550.742762 1099.47097 3.5692 0.0019657 -0.07989 -4.3999E-05 3.4893 0.0019217 550.7428096551394 61.223 0.27574 61.476 61.271 61.547 0.25245 20 13 2 0 0 0 0.76984 1 28065 28065 7.9102 1.187 1 352260 3903 4754 2644 2652 4319 4319 -0.07478556509772716 DTYTKRQLLK 10 Unmodified _DTYTKRQLLK_ 0 0 0 ENSG00000133101|ENST00000255465|CCNA1;nc|ENSG00000133101|P78396-2|CCNA1;nc|ENSG00000133101|P78396|CCNA1 ENSG00000133101|ENST00000255465|CCNA1 ENSG00000133101|ENST00000255465|CCNA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.3624877929688 2 633.364244 1264.71394 NaN NaN NaN NaN NaN NaN NaN 40.56 1 41.364 40.864 41.864 0.80351 0 0 0 0.57357 1 18373 18373 32.786 13.424 1 3904 2748 2645 2653 4320 4320 0.0921673300592829 DVAFTDPTL 9 Unmodified _DVAFTDPTL_ 0 0 0 ENSG00000151689|ENST00000392329|INPP1 ENSG00000151689|ENST00000392329|INPP1 ENSG00000151689|ENST00000392329|INPP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.7442932128906 2 489.742565 977.470577 NaN NaN NaN NaN NaN NaN NaN 68.443 1 69.102 68.602 69.602 0.65924 0 0 0 0.72654 1 31373 31373 11.64 3.047 1 3905 3723 2646 2654 4321 4321 -0.019059314389664905 DVDIPTDFEG 10 Unmodified _DVDIPTDFEG_ 0 0 0 ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 369.8346862792969 3 369.832871 1106.47678 2.3137 0.00085567 1.1697 0.0004326 3.4834 0.0012883 369.83317848512786 42.172 0.20498 42.981 42.781 42.986 0.80856 20 13 2 0 0 0 0.66557 1 19141 19141 8.9762 0 1 4185800 3906 3391 2647 2655 4322 4322 -0.07219457998098733 DVDIPTDFEG 10 Unmodified _DVDIPTDFEG_ 0 0 0 ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.2481079101562 2 554.245669 1106.47678 3.5398 0.0019619 0.88767 0.00049199 4.4274 0.0024539 554.2460937292981 43.148 0.35242 43.418 43.21 43.563 0.27021 80 36 3 0 0 0 0.42206 3 19624 19624;19672;19718 24.021 4.7636 1 10928000 3907 3391 2647 2655 4323;4324;4325 4323 -0.07219457998098733 DVDIPTDFEG 10 Unmodified _DVDIPTDFEG_ 0 0 0 ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.2488403320312 2 554.245669 1106.47678 3.6666 0.0020322 0.84048 0.00046583 4.5071 0.0024981 554.2459912780456 42.567 0.47992 43.214 42.868 43.348 0.64693 92 39 3 0 0 0 0.42206 2 19393 19393;19494 24.021 4.7636 1 4872500 3908 3391 2647 2655 4326;4327 4326 -0.07219457998098733 DVDIPTDFEG 10 Unmodified _DVDIPTDFEG_ 0 0 0 ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 369.8343811035156 3 369.832871 1106.47678 2.7734 0.0010257 0.83883 0.00031023 3.6122 0.0013359 369.8331407549258 42.546 0.48889 43.193 42.901 43.39 0.64693 114 41 4 0 0 0 0.68517 1 19422 19422 8.4443 0.83535 1 8048400 3909 3391 2647 2655 4328 4328 -0.07219457998098733 DVDIPTDFEG 10 Unmodified _DVDIPTDFEG_ 0 0 0 ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 554.245669 1106.47678 3.5398 0.0019619 0.88767 0.00049199 4.4274 0.0024539 554.2460937292981 43.148 0.35242 43.418 43.21 43.563 0.27021 0.10214 2.5199E-05 NaN 24.021 80 36 3 NaN NaN NaN NaN 0 NaN NaN 0 10928000 3910 3391 2647 2655 -0.07219457998098733 DVDIPTDFEG 10 Unmodified _DVDIPTDFEG_ 0 0 0 ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 554.245669 1106.47678 3.6666 0.0020322 0.84048 0.00046583 4.5071 0.0024981 554.2459912780456 42.567 0.47992 43.214 42.868 43.348 0.64693 -0.10214 -2.7114E-05 NaN 24.021 92 39 3 NaN NaN NaN NaN 0 NaN NaN 0 4872500 3911 3391 2647 2655 -0.07219457998098733 DVESQQAPL 9 Unmodified _DVESQQAPL_ 0 0 0 REV__L1P2_dup354|chr3:177908608-177914071:+|1.579459827711941|0.1324791782257567|3.58|528.0|51|2|sense REV__L1P2_dup354|chr3:177908608-177914071:+|1.579459827711941|0.1324791782257567|3.58|528.0|51|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.74493408203125 2 493.743096 985.47164 NaN NaN NaN NaN NaN NaN NaN 25.782 1 26.407 25.907 26.907 0.62505 0 0 0 0.37214 1 11820 11820 24.021 0 1 + 3912 17777 2648 2656 4329 4329 -0.021677170700399984 DVGHSQVAF 9 Unmodified _DVGHSQVAF_ 0 0 0 REV__ENST00000559327.1_1_15:65676349-65688574:-|nuORF REV__ENST00000559327.1_1_15:65676349-65688574:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 320.4917907714844 3 320.490891 958.450845 2.2241 0.00071279 0.20583 6.5967E-05 2.4299 0.00077876 320.49102949758907 21.84 0.20229 21.84 21.72 21.922 0 25 17 2 0 0 0 1.0041 1 9792 9792 2.2828 0.63015 1 131820 + 3913 10977 2649 2657 4330 4330 -0.030042626590443433 DVHGPDWHL 9 Unmodified _DVHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.1710510253906 3 359.170041 1074.48829 2.4264 0.00087148 -0.22486 -8.0763E-05 2.2015 0.00079071 359.1701370369964 47.651 0.83186 47.651 47.481 48.313 0 169 50 5 0 0 0 0.020151 5 21812 21768;21812;21858;21908;21959 53.404 28.744 1 610560000 3914 2385 2650 2658 4331;4332;4333;4334;4335 4332 -0.04597171393447752 DVHGPDWHL 9 Unmodified _DVHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.2528686523438 2 538.251423 1074.48829 2.9717 0.0015995 -0.098672 -5.311E-05 2.873 0.0015464 538.2515171299768 47.66 0.51523 47.66 47.495 48.011 0 145 35 5 0 0 0 2.5838E-05 4 21874 21776;21821;21874;21931 141.83 114.94 1 398710000 3915 2385 2650 2658 4336;4337;4338;4339 4338 -0.04597171393447752 DVHGPDWHL 9 Unmodified _DVHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1075.4984130859375 1 1075.49557 1074.48829 3.0673 0.0032989 -1.2125 -0.001304 1.8548 0.0019949 1075.494146327358 47.679 0.18645 47.679 47.572 47.758 0 30 18 2 0 0 0 0.00081333 2 21811 21811;21868 128.37 93.567 1 3888400 3916 2385 2650 2658 4340;4341 4340 -0.04597171393447752 DVHGPDWHL 9 Unmodified _DVHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 359.1709289550781 3 359.170041 1074.48829 2.282 0.00081964 -0.2419 -8.6882E-05 2.0401 0.00073276 359.1701453478389 46.536 0.88737 47.365 47.209 48.096 0.82915 198 58 5 0 0 0 0.012748 5 21288 21153;21197;21239;21288;21352 61.602 35.334 1 687790000 3917 2385 2650 2658 4342;4343;4344;4345;4346 4345 -0.04597171393447752 DVHGPDWHL 9 Unmodified _DVHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.2532958984375 2 538.251423 1074.48829 3.002 0.0016158 -0.28759 -0.00015479 2.7144 0.0014611 538.2513153925275 46.537 0.55286 47.366 47.22 47.773 0.82915 153 37 5 0 0 0 1.2253E-06 5 21164 21164;21206;21250;21308;21364 149.99 119.77 1 251860000 3918 2385 2650 2658 4347;4348;4349;4350;4351 4347 -0.04597171393447752 DVHGPDWHL 9 Unmodified _DVHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.1710510253906 3 359.170041 1074.48829 2.8008 0.001006 -0.09966 -3.5795E-05 2.7012 0.00097018 359.17018177400985 47.585 0.92607 47.849 47.58 48.506 0.26363 177 48 5 0 0 0 0.012748 6 21767 21680;21725;21767;21817;21877;21944 61.602 35.334 1 507520000 3919 2385 2650 2658 4352;4353;4354;4355;4356;4357 4354 -0.04597171393447752 DVHGPDWHL 9 Unmodified _DVHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.2533569335938 2 538.251423 1074.48829 3.3049 0.0017789 0.072482 3.9013E-05 3.3774 0.0018179 538.2515831274619 47.596 0.71013 47.86 47.58 48.29 0.26363 161 40 5 0 0 0 2.5838E-05 5 21781 21682;21736;21781;21833;21897 141.83 113.34 1 312990000 3920 2385 2650 2658 4358;4359;4360;4361;4362 4360 -0.04597171393447752 DVHGPDWHL 9 Unmodified _DVHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1075.4991455078125 1 1075.49557 1074.48829 3.4237 0.0036822 -0.95689 -0.0010291 2.4668 0.0026531 1075.4943367298433 47.589 0.19684 47.852 47.772 47.969 0.26363 21 18 2 0 0 0 0.00081333 1 21749 21749 128.37 98.141 1 2926200 3921 2385 2650 2658 4363 4363 -0.04597171393447752 DVHGPDWHL 9 Unmodified _DVHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.1712646484375 3 359.170041 1074.48829 2.5008 0.00089821 -0.14909 -5.355E-05 2.3517 0.00084467 359.17020282030546 46.965 0.90257 47.617 47.371 48.273 0.65219 176 47 5 0 0 0 0.012748 4 21497 21453;21497;21541;21587 61.602 42.474 1 490570000 3922 2385 2650 2658 4364;4365;4366;4367 4365 -0.04597171393447752 DVHGPDWHL 9 Unmodified _DVHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.2536010742188 2 538.251423 1074.48829 3.2714 0.0017608 -0.22375 -0.00012044 3.0476 0.0016404 538.2514705656073 46.959 0.71751 47.611 47.371 48.088 0.65219 160 39 5 0 0 0 1.2253E-06 4 21455 21455;21498;21542;21589 149.99 113.95 1 377700000 3923 2385 2650 2658 4368;4369;4370;4371 4368 -0.04597171393447752 DVHGPDWHL 9 Unmodified _DVHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1075.4991455078125 1 1075.49557 1074.48829 3.4171 0.0036751 -1.096 -0.0011788 2.3211 0.0024964 1075.494921706614 46.945 0.054111 47.597 47.57 47.624 0.65219 6 4 2 0 0 0 0.00081333 1 21502 21502 128.37 98.141 1 3009100 3924 2385 2650 2658 4372 4372 -0.04597171393447752 DVHGPDWHL 9 Unmodified _DVHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 359.170041 1074.48829 2.7964 0.0010044 -1.4236 -0.0005113 1.3729 0.00049309 359.1695632606994 46.89 0.18139 47.154 47.066 47.247 0.26363 -0.293 -0.0012499 NaN 61.602 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 175940 3925 2385 2650 2658 -0.04597171393447752 DVHGPDWNL 9 Unmodified _DVHGPDWNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.7450561523438 2 526.743431 1051.47231 3.1269 0.0016471 0.061803 3.2554E-05 3.1887 0.0016796 526.7434817278368 56.409 0.47691 56.409 56.168 56.645 0 140 40 5 0 0 0 0.0063783 4 25914 25866;25914;25962;26005 88.904 46.809 1 65988000 3926 2385 2651 2659 4373;4374;4375;4376 4374 -0.051368776303661434 DVHGPDWNL 9 Unmodified _DVHGPDWNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1052.483154296875 1 1052.47958 1051.47231 3.3014 0.0034746 0.026655 2.8054E-05 3.328 0.0035027 1052.4799205534828 56.382 0.18946 56.382 56.266 56.455 0 27 15 2 0 0 0 1.0217E-09 2 25955 25908;25955 163.04 118.07 1 1576000 3927 2385 2651 2659 4377;4378 4378 -0.051368776303661434 DVHGPDWNL 9 Unmodified _DVHGPDWNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.7449951171875 2 526.743431 1051.47231 2.8945 0.0015247 -0.2555 -0.00013458 2.639 0.0013901 526.743268049375 55.475 0.52271 56.262 56.022 56.545 0.78711 145 44 4 0 0 0 0.010018 4 25398 25258;25306;25351;25398 81.89 39.796 1 75261000 3928 2385 2651 2659 4379;4380;4381;4382 4382 -0.051368776303661434 DVHGPDWNL 9 Unmodified _DVHGPDWNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.74560546875 2 526.743431 1051.47231 3.2459 0.0017098 -0.096492 -5.0827E-05 3.1495 0.001659 526.7434110559961 56.284 0.45758 56.55 56.329 56.786 0.26543 92 24 5 0 0 0 0.0063783 4 25747 25698;25747;25796;25846 88.904 46.809 1 54717000 3929 2385 2651 2659 4383;4384;4385;4386 4384 -0.051368776303661434 DVHGPDWNL 9 Unmodified _DVHGPDWNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1052.484130859375 1 1052.47958 1051.47231 3.2539 0.0034246 0.68187 0.00071766 3.9357 0.0041423 1052.4799228095874 56.296 0.23985 56.562 56.431 56.671 0.26543 20 11 2 0 0 0 1.0217E-09 2 25746 25746;25794 163.04 125.06 1 1222900 3930 2385 2651 2659 4387;4388 4387 -0.051368776303661434 DVHGPDWNL 9 Unmodified _DVHGPDWNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.7453002929688 2 526.743431 1051.47231 3.3186 0.0017481 -0.10363 -5.4589E-05 3.215 0.0016935 526.7433804537635 55.619 0.45801 56.287 56.073 56.531 0.66797 66 18 5 0 0 0 0.012748 5 25427 25362;25367;25427;25486;25544 78.149 37.031 1 59276000 3931 2385 2651 2659 4389;4390;4391;4392;4393 4391 -0.051368776303661434 DVHGPDWNL 9 Unmodified _DVHGPDWNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1052.4847412109375 1 1052.47958 1051.47231 3.5307 0.003716 0.27321 0.00028755 3.8039 0.0040035 1052.4806849125746 55.633 0.25759 56.301 56.135 56.393 0.66798 17 9 2 0 0 0 0.001731 1 25412 25412 106.94 52.167 1 2321200 3932 2385 2651 2659 4394 4394 -0.051368776303661434 DVHRRFLQL 9 Unmodified _DVHRRFLQL_ 0 0 0 ENSG00000169189|ENST00000361439|NSMCE1;ENST00000565070.5_1_16:27237776-27268891:-|nuORF;ENST00000565626.1_1_16:27268693-27268891:-|nuORF ENSG00000169189|ENST00000361439|NSMCE1 ENSG00000169189|ENST00000361439|NSMCE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.22918701171875 3 395.228001 1182.66217 2.779 0.0010983 0.57269 0.00022634 3.3517 0.0013247 395.2281545267426 38.409 0.25687 38.673 38.536 38.793 0.26408 16 7 3 0 0 0 0.057456 1 17482 17482 43.982 21.324 1 1492500 3933 4675 2652 2660 4395 4395 0.07815034102691243 DVHRRFLQL 9 Unmodified _DVHRRFLQL_ 0 0 0 ENSG00000169189|ENST00000361439|NSMCE1;ENST00000565070.5_1_16:27237776-27268891:-|nuORF;ENST00000565626.1_1_16:27268693-27268891:-|nuORF ENSG00000169189|ENST00000361439|NSMCE1 ENSG00000169189|ENST00000361439|NSMCE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.2293395996094 3 395.228001 1182.66217 2.7482 0.0010862 -0.025514 -1.0084E-05 2.7227 0.0010761 395.227892645952 37.791 0.3409 38.425 38.304 38.645 0.63388 31 11 3 0 0 0 0.10277 2 17332 17271;17332 32.037 15.472 1 988350 3934 4675 2652 2660 4396;4397 4397 0.07815034102691243 DVHRRFLQL 9 Unmodified _DVHRRFLQL_ 0 0 0 ENSG00000169189|ENST00000361439|NSMCE1;ENST00000565070.5_1_16:27237776-27268891:-|nuORF;ENST00000565626.1_1_16:27268693-27268891:-|nuORF ENSG00000169189|ENST00000361439|NSMCE1 ENSG00000169189|ENST00000361439|NSMCE1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 395.228001 1182.66217 2.6474 0.0010463 -0.69866 -0.00027613 1.9488 0.0007702 395.22700654975426 38.595 0.25363 38.595 38.47 38.724 0 0.090504 -0.00084632 NaN 43.982 23 12 2 NaN NaN NaN NaN 0 NaN NaN 0 317690 3935 4675 2652 2660 0.07815034102691243 DVHRRFLQL 9 Unmodified _DVHRRFLQL_ 0 0 0 ENSG00000169189|ENST00000361439|NSMCE1;ENST00000565070.5_1_16:27237776-27268891:-|nuORF;ENST00000565626.1_1_16:27268693-27268891:-|nuORF ENSG00000169189|ENST00000361439|NSMCE1 ENSG00000169189|ENST00000361439|NSMCE1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 395.228001 1182.66217 2.5987 0.0010271 -1.1628 -0.00045955 1.4359 0.00056753 395.562419813335 37.529 0.20068 38.324 38.205 38.406 0.79552 -0.17996 -0.0013966 NaN 43.982 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 192040 3936 4675 2652 2660 0.07815034102691243 DVIIKNNL 8 Unmodified _DVIIKNNL_ 0 0 0 nc|ENSG00000114353|P04899-6|GNAI2;ENST00000490122.5_1_3:50289817-50295119:+|nuORF;nc|ENSG00000114353|P04899-3|GNAI2;nc|ENSG00000114353|P04899-5|GNAI2;nc|ENSG00000114353|P04899-2|GNAI2;ENSG00000114353|ENST00000313601|GNAI2;nc|ENSG00000127955|P63096-2|GNAI1;ENSG00000127955|ENST00000649796|GNAI1;ENSG00000065135|ENST00000369851|GNAI3 nc|ENSG00000114353|P04899-6|GNAI2 nc|ENSG00000114353|P04899-6|GNAI2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.7785339355469 2 464.776742 927.538931 2.9566 0.0013742 0.16083 7.4749E-05 3.1175 0.0014489 464.776798339285 42.583 0.26401 43.23 43.054 43.318 0.64693 31 22 2 0 0 0 0.11358 1 19490 19490 63.563 6.0915 1 1341500 3937 1899 2653 2661 4398 4398 0.07226357931563143 DVIPEDHRL 9 Unmodified _DVIPEDHRL_ 0 0 0 ENSG00000265972|ENST00000582401|TXNIP;nc|ENSG00000265972|Q9H3M7-2|TXNIP;ENST00000488537.1_1_1:145440673-145441098:+|nuORF ENSG00000265972|ENST00000582401|TXNIP ENSG00000265972|ENST00000582401|TXNIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.2870483398438 2 547.285463 1092.55637 3.5776 0.001958 -0.23012 -0.00012594 3.3475 0.001832 547.2855857560547 33.899 0.32862 34.153 33.99 34.318 0.25389 33 15 3 0 0 0 0.084899 1 15432 15432 36.506 19.393 1 750170 3938 6321 2654 2662 4399 4399 0.01379653466574382 DVIPEDHRL 9 Unmodified _DVIPEDHRL_ 0 0 0 ENSG00000265972|ENST00000582401|TXNIP;nc|ENSG00000265972|Q9H3M7-2|TXNIP;ENST00000488537.1_1_1:145440673-145441098:+|nuORF ENSG00000265972|ENST00000582401|TXNIP ENSG00000265972|ENST00000582401|TXNIP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.2132263183594 3 365.192734 1092.55637 2.6565 0.00097014 -0.21116 -7.7115E-05 2.4454 0.00089303 365.1923970643782 33.906 0.23169 34.16 34.045 34.277 0.25389 18 10 2 0 0 0 0.10755 1 15412 15412 5.4027 3.1199 1 357360 3939 6321 2654 2662 4400 4400 0.01379653466574382 DVIPEDHRL 9 Unmodified _DVIPEDHRL_ 0 0 0 ENSG00000265972|ENST00000582401|TXNIP;nc|ENSG00000265972|Q9H3M7-2|TXNIP;ENST00000488537.1_1_1:145440673-145441098:+|nuORF ENSG00000265972|ENST00000582401|TXNIP ENSG00000265972|ENST00000582401|TXNIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.2874145507812 2 547.285463 1092.55637 3.4 0.0018608 0.17506 9.5805E-05 3.575 0.0019566 547.2857146772002 33.382 0.33947 34.002 33.797 34.137 0.62031 33 14 3 0 0 0 0.084899 2 15335 15277;15335 36.506 18.36 1 831910 3940 6321 2654 2662 4401;4402 4402 0.01379653466574382 DVIQKGSSL 9 Unmodified _DVIQKGSSL_ 0 0 0 nc|ENSG00000130695|Q6P2H3|CEP85;ENSG00000130695|ENST00000451429|CEP85 nc|ENSG00000130695|Q6P2H3|CEP85 nc|ENSG00000130695|Q6P2H3|CEP85 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.7653503417969 2 473.763832 945.513111 2.977 0.0014104 -0.070617 -3.3456E-05 2.9063 0.0013769 473.7638863853416 28.453 0.21731 29.072 28.985 29.203 0.61947 17 11 2 0 0 0 0.10837 1 13071 13071 30.637 6.616 1 133190 3941 2605 2655 2663 4403 4403 0.03817463689301803 DVIQKNKL 8 Unmodified _DVIQKNKL_ 0 0 0 ENST00000556764.5_1_14:61201502-61275155:+|nuORF;nc|ENSG00000020426|P51948-2|MNAT1;ENSG00000020426|ENST00000261245|MNAT1 ENST00000556764.5_1_14:61201502-61275155:+|nuORF ENST00000556764.5_1_14:61201502-61275155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 320.1977233886719 3 319.862437 956.565481 2.2523 0.00072041 0.89024 0.00028476 3.1425 0.0010052 319.86252649192807 18.834 0.33037 19.494 19.341 19.671 0.66072 46 25 2 0 0 0 0.65723 1 8572 8572 6.7232 1.8262 1 843120 3942 453 2656 2664 4404 4404 0.0854604682289164 DVIQKNKL 8 Unmodified _DVIQKNKL_ 0 0 0 ENST00000556764.5_1_14:61201502-61275155:+|nuORF;nc|ENSG00000020426|P51948-2|MNAT1;ENSG00000020426|ENST00000261245|MNAT1 ENST00000556764.5_1_14:61201502-61275155:+|nuORF ENST00000556764.5_1_14:61201502-61275155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.29193115234375 2 479.290017 956.565481 3.2222 0.0015444 0.86651 0.00041531 4.0887 0.0019597 479.29012030530333 18.857 0.37258 19.518 19.299 19.671 0.66072 50 29 2 0 0 0 0.12673 1 8599 8599 50.855 10.898 1 758080 3943 453 2656 2664 4405 4405 0.0854604682289164 DVIQKNKL 8 Unmodified _DVIQKNKL_ 0 0 0 ENST00000556764.5_1_14:61201502-61275155:+|nuORF;nc|ENSG00000020426|P51948-2|MNAT1;ENSG00000020426|ENST00000261245|MNAT1 ENST00000556764.5_1_14:61201502-61275155:+|nuORF ENST00000556764.5_1_14:61201502-61275155:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 479.290017 956.565481 2.8804 0.0013805 1.7658 0.00084633 4.6462 0.0022269 479.28998172118145 19.213 0.10866 19.51 19.448 19.556 0.29753 -0.0038608 0.0005911 NaN 50.855 22 11 3 NaN NaN NaN NaN 0 NaN NaN 0 713720 3944 453 2656 2664 0.0854604682289164 DVKGKRVVM 9 Unmodified _DVKGKRVVM_ 0 0 0 ENSG00000102144|ENST00000373316|PGK1 ENSG00000102144|ENST00000373316|PGK1 ENSG00000102144|ENST00000373316|PGK1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.54638671875 3 344.539188 1030.59573 1.7255 0.00059449 -0.55866 -0.00019248 1.1668 0.00040201 344.5388699208568 12.462 0.060402 12.769 12.733 12.794 0.30727 4 2 2 0 0 0 0.029641 1 5613 5613 41.956 27.117 1 1451500 3945 1332 2657 2665 4406 4406 0.08166082216439463 DVKGRIYQL 9 Unmodified _DVKGRIYQL_ 0 0 0 ENSG00000010292|ENST00000315579|NCAPD2;ENST00000542472.1_1_12:6626979-6631036:+|nuORF;ENST00000536090.1_1_12:6626539-6627126:+|nuORF ENSG00000010292|ENST00000315579|NCAPD2 ENSG00000010292|ENST00000315579|NCAPD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.3153686523438 2 546.314023 1090.61349 3.2024 0.0017495 -0.69546 -0.00037994 2.5069 0.0013696 546.3137282923442 36.689 0.226 37.482 37.388 37.614 0.79342 15 10 2 0 0 0 0.099775 2 16640 16640;16656 32.786 16.637 1 211600 3946 397 2658 2666 4407;4408 4407 0.07181120742939129 DVKGRIYQL 9 Unmodified _DVKGRIYQL_ 0 0 0 ENSG00000010292|ENST00000315579|NCAPD2;ENST00000542472.1_1_12:6626979-6631036:+|nuORF;ENST00000536090.1_1_12:6626539-6627126:+|nuORF ENSG00000010292|ENST00000315579|NCAPD2 ENSG00000010292|ENST00000315579|NCAPD2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 546.314023 1090.61349 3.7249 0.002035 0.15888 8.6796E-05 3.8838 0.0021218 546.3144728861106 37.84 0.2728 37.84 37.637 37.91 0 0.071454 -9.8272E-05 NaN 32.786 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 256710 3947 397 2658 2666 0.07181120742939129 DVKGRIYQL 9 Unmodified _DVKGRIYQL_ 0 0 0 ENSG00000010292|ENST00000315579|NCAPD2;ENST00000542472.1_1_12:6626979-6631036:+|nuORF;ENST00000536090.1_1_12:6626539-6627126:+|nuORF ENSG00000010292|ENST00000315579|NCAPD2 ENSG00000010292|ENST00000315579|NCAPD2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 546.314023 1090.61349 3.602 0.0019678 0.29903 0.00016337 3.901 0.0021312 546.3139066346389 37.75 0.38993 38.01 37.822 38.212 0.26083 0.24144 5.4869E-05 NaN 32.786 26 12 3 NaN NaN NaN NaN 0 NaN NaN 0 810500 3948 397 2658 2666 0.07181120742939129 DVKGRIYQL 9 Unmodified _DVKGRIYQL_ 0 0 0 ENSG00000010292|ENST00000315579|NCAPD2;ENST00000542472.1_1_12:6626979-6631036:+|nuORF;ENST00000536090.1_1_12:6626539-6627126:+|nuORF ENSG00000010292|ENST00000315579|NCAPD2 ENSG00000010292|ENST00000315579|NCAPD2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 546.314023 1090.61349 3.5362 0.0019319 0.62797 0.00034307 4.1642 0.002275 546.3143216244655 37.112 0.37039 37.742 37.545 37.916 0.62999 -0.026449 0.00041427 NaN 32.786 33 14 3 NaN NaN NaN NaN 0 NaN NaN 0 615320 3949 397 2658 2666 0.07181120742939129 DVKHVFRL 8 Unmodified _DVKHVFRL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.5352478027344 3 338.534543 1012.5818 2.4165 0.00081808 0.18869 6.3879E-05 2.6052 0.00088196 338.5346704812108 35.539 0.39967 35.794 35.62 36.02 0.25524 20 13 2 0 0 0 0.61796 1 16232 16232 13.906 7.7003 1 531070 3950 4953 2659 2667 4409 4409 0.07601172779664012 DVKHVFRL 8 Unmodified _DVKHVFRL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 338.534543 1012.5818 2.3726 0.0008032 0.7325 0.00024798 3.1051 0.0010512 338.5348852403082 35.138 0.24621 35.761 35.654 35.9 0.62294 -0.016486 0.00024002 NaN 13.906 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 306730 3951 4953 2659 2667 0.07601172779664012 DVKKRAVAL 9 Unmodified _DVKKRAVAL_ 0 0 0 nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-14|DST;DST|p.I5232Sfs*5|1|0.18|ENSG00000151914|chr6:56470139-56470139|T/-|frameshift_variant;ENSG00000151914|ENST00000680361|DST;nc|ENSG00000151914|Q03001-8|DST nc|ENSG00000151914|Q03001|DST nc|ENSG00000151914|Q03001|DST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 333.8826904296875 3 333.881831 998.623664 2.3137 0.0007725 0.16337 5.4546E-05 2.4771 0.00082704 333.8818622558213 13.998 0.14173 13.998 13.917 14.059 0 16 7 3 0 0 0 0.16035 1 6152 6152 26.021 7.8744 1 1902000 3952 9690 2660 2668 4410 4410 0.12429728468180201 DVKKRAVAL 9 Unmodified _DVKKRAVAL_ 0 0 0 nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-14|DST;DST|p.I5232Sfs*5|1|0.18|ENSG00000151914|chr6:56470139-56470139|T/-|frameshift_variant;ENSG00000151914|ENST00000680361|DST;nc|ENSG00000151914|Q03001-8|DST nc|ENSG00000151914|Q03001|DST nc|ENSG00000151914|Q03001|DST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 333.8826904296875 3 333.881831 998.623664 2.047 0.00068347 0.35962 0.00012007 2.4067 0.00080354 333.88196226312675 13.347 0.22185 13.59 13.454 13.676 0.24346 49 17 3 0 0 0 0.14214 1 5826 5826 27.223 9.0769 1 942490 3953 9690 2660 2668 4411 4411 0.12429728468180201 DVKKRAVAL 9 Unmodified _DVKKRAVAL_ 0 0 0 nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-14|DST;DST|p.I5232Sfs*5|1|0.18|ENSG00000151914|chr6:56470139-56470139|T/-|frameshift_variant;ENSG00000151914|ENST00000680361|DST;nc|ENSG00000151914|Q03001-8|DST nc|ENSG00000151914|Q03001|DST nc|ENSG00000151914|Q03001|DST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.3204650878906 2 500.319109 998.623664 2.7757 0.0013887 0.40042 0.00020034 3.1761 0.0015891 500.3193197822462 13.325 0.13773 13.568 13.509 13.647 0.24346 17 10 2 0 0 0 0.21127 1 5833 5833 18.146 8.0724 1 165360 3954 9690 2660 2668 4412 4412 0.12429728468180201 DVKKRAVAL 9 Unmodified _DVKKRAVAL_ 0 0 0 nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-14|DST;DST|p.I5232Sfs*5|1|0.18|ENSG00000151914|chr6:56470139-56470139|T/-|frameshift_variant;ENSG00000151914|ENST00000680361|DST;nc|ENSG00000151914|Q03001-8|DST nc|ENSG00000151914|Q03001|DST nc|ENSG00000151914|Q03001|DST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.31982421875 2 500.319109 998.623664 2.7199 0.0013608 1.1063 0.00055351 3.8262 0.0019143 500.3195767665941 13.278 0.2372 13.585 13.463 13.7 0.30727 29 17 2 0 0 0 0.29024 1 5982 5982 18.146 8.0724 1 155640 3955 9690 2660 2668 4413 4413 0.12429728468180201 DVKKRAVAL 9 Unmodified _DVKKRAVAL_ 0 0 0 nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-14|DST;DST|p.I5232Sfs*5|1|0.18|ENSG00000151914|chr6:56470139-56470139|T/-|frameshift_variant;ENSG00000151914|ENST00000680361|DST;nc|ENSG00000151914|Q03001-8|DST nc|ENSG00000151914|Q03001|DST nc|ENSG00000151914|Q03001|DST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 333.8824157714844 3 333.881831 998.623664 2.545 0.00084973 0.51466 0.00017184 3.0597 0.0010216 333.88195008210107 12.818 0.23678 13.461 13.311 13.548 0.64272 16 6 4 0 0 0 0.14214 1 5753 5753 27.223 9.0769 1 2192700 3956 9690 2660 2668 4414 4414 0.12429728468180201 DVKKRAVAL 9 Unmodified _DVKKRAVAL_ 0 0 0 nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-14|DST;DST|p.I5232Sfs*5|1|0.18|ENSG00000151914|chr6:56470139-56470139|T/-|frameshift_variant;ENSG00000151914|ENST00000680361|DST;nc|ENSG00000151914|Q03001-8|DST nc|ENSG00000151914|Q03001|DST nc|ENSG00000151914|Q03001|DST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.3199768066406 2 500.319109 998.623664 3.4837 0.0017429 -0.067468 -3.3755E-05 3.4162 0.0017092 500.3189347882188 12.82 0.20294 13.463 13.311 13.514 0.64272 11 5 3 0 0 0 0.11316 1 5761 5761 38.176 14.155 1 713150 3957 9690 2660 2668 4415 4415 0.12429728468180201 DVKNKVTAV 9 Unmodified _DVKNKVTAV_ 0 0 0 FAM172A|p.A308G|1|0.29|ENSG00000113391|chr5:93784483-93784483|G/C|missense_variant;ENST00000510445.1_1_5:93120070-93217196:-|nuORF;nc|ENSG00000113391|Q8WUF8-4|ARB2A;nc|ENSG00000113391|Q8WUF8-3|ARB2A;ENSG00000113391|ENST00000395965|FAM172A FAM172A|p.A308G|1|0.29|ENSG00000113391|chr5:93784483-93784483|G/C|missense_variant FAM172A|p.A308G|1|0.29|ENSG00000113391|chr5:93784483-93784483|G/C|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.28875732421875 2 487.287474 972.560395 3.2466 0.001582 -0.2288 -0.00011149 3.0178 0.0014705 487.28721020210406 16.9 0.33125 16.9 16.694 17.025 0 50 35 2 0 0 0 0.29523 1 7482 7482 17.113 4.8722 1 130310 3958 1853 2661 2669 4416 4416 0.0730174296027144 DVKNKVTAV 9 Unmodified _DVKNKVTAV_ 0 0 0 FAM172A|p.A308G|1|0.29|ENSG00000113391|chr5:93784483-93784483|G/C|missense_variant;ENST00000510445.1_1_5:93120070-93217196:-|nuORF;nc|ENSG00000113391|Q8WUF8-4|ARB2A;nc|ENSG00000113391|Q8WUF8-3|ARB2A;ENSG00000113391|ENST00000395965|FAM172A FAM172A|p.A308G|1|0.29|ENSG00000113391|chr5:93784483-93784483|G/C|missense_variant FAM172A|p.A308G|1|0.29|ENSG00000113391|chr5:93784483-93784483|G/C|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.289306640625 2 487.287474 972.560395 3.1839 0.0015515 0.50421 0.00024569 3.6881 0.0017972 487.28775849234387 14.917 0.28073 15.143 15.011 15.292 0.22622 51 28 2 0 0 0 0.10584 1 6571 6571 31.268 7.2478 1 255440 3959 1853 2661 2669 4417 4417 0.0730174296027144 DVKNKVTAV 9 Unmodified _DVKNKVTAV_ 0 0 0 FAM172A|p.A308G|1|0.29|ENSG00000113391|chr5:93784483-93784483|G/C|missense_variant;ENST00000510445.1_1_5:93120070-93217196:-|nuORF;nc|ENSG00000113391|Q8WUF8-4|ARB2A;nc|ENSG00000113391|Q8WUF8-3|ARB2A;ENSG00000113391|ENST00000395965|FAM172A FAM172A|p.A308G|1|0.29|ENSG00000113391|chr5:93784483-93784483|G/C|missense_variant FAM172A|p.A308G|1|0.29|ENSG00000113391|chr5:93784483-93784483|G/C|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2892761230469 2 487.287474 972.560395 2.8851 0.0014059 -0.45628 -0.00022234 2.4288 0.0011835 487.28765682349496 14.307 0.094321 14.614 14.56 14.654 0.3069 8 4 2 0 0 0 0.023885 1 6478 6478 63.227 28.826 1 588640 3960 1853 2661 2669 4418 4418 0.0730174296027144 DVKNKVTAV 9 Unmodified _DVKNKVTAV_ 0 0 0 FAM172A|p.A308G|1|0.29|ENSG00000113391|chr5:93784483-93784483|G/C|missense_variant;ENST00000510445.1_1_5:93120070-93217196:-|nuORF;nc|ENSG00000113391|Q8WUF8-4|ARB2A;nc|ENSG00000113391|Q8WUF8-3|ARB2A;ENSG00000113391|ENST00000395965|FAM172A FAM172A|p.A308G|1|0.29|ENSG00000113391|chr5:93784483-93784483|G/C|missense_variant FAM172A|p.A308G|1|0.29|ENSG00000113391|chr5:93784483-93784483|G/C|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.2889099121094 2 487.287474 972.560395 3.2892 0.0016028 -0.46246 -0.00022535 2.8267 0.0013774 487.2873117990024 14.257 0.070874 14.906 14.862 14.933 0.6482 11 8 2 0 0 0 0.01463 1 6417 6417 75.571 41.169 1 1177900 3961 1853 2661 2669 4419 4419 0.0730174296027144 DVKSKTEAL 9 Unmodified _DVKSKTEAL_ 0 0 0 ENSG00000129083|ENST00000439561|COPB1 ENSG00000129083|ENST00000439561|COPB1 ENSG00000129083|ENST00000439561|COPB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.7789611816406 2 495.776939 989.539325 3.039 0.0015067 0.72412 0.000359 3.7631 0.0018657 495.7773193028452 14.851 0.45534 14.851 14.659 15.115 0 145 50 4 0 0 0 0.0057865 2 6568 6523;6568 90.135 31.456 1 1789200 3962 2538 2662 2670 4420;4421 4421 0.04413732860757591 DVKSKTEAL 9 Unmodified _DVKSKTEAL_ 0 0 0 ENSG00000129083|ENST00000439561|COPB1 ENSG00000129083|ENST00000439561|COPB1 ENSG00000129083|ENST00000439561|COPB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.7784729003906 2 495.776939 989.539325 3.123 0.0015483 0.18263 9.0544E-05 3.3056 0.0016389 495.7769281450106 14.487 0.3144 14.713 14.517 14.831 0.22622 67 25 4 0 0 0 0.012813 2 6380 6333;6380 78.06 24.228 1 3552400 3963 2538 2662 2670 4422;4423 4423 0.04413732860757591 DVKSKTEAL 9 Unmodified _DVKSKTEAL_ 0 0 0 ENSG00000129083|ENST00000439561|COPB1 ENSG00000129083|ENST00000439561|COPB1 ENSG00000129083|ENST00000439561|COPB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.8541259765625 3 330.853718 989.539325 2.1609 0.00071494 0.047565 1.5737E-05 2.2085 0.00073068 330.8536877905895 14.236 0.19087 14.543 14.492 14.683 0.3069 25 11 3 0 0 0 0.093314 1 6427 6427 26.021 11.803 1 12357000 3964 2538 2662 2670 4424 4424 0.04413732860757591 DVKSKTEAL 9 Unmodified _DVKSKTEAL_ 0 0 0 ENSG00000129083|ENST00000439561|COPB1 ENSG00000129083|ENST00000439561|COPB1 ENSG00000129083|ENST00000439561|COPB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.7781066894531 2 495.776939 989.539325 2.9859 0.0014803 -0.25708 -0.00012745 2.7288 0.0013529 495.7767924687164 14.227 0.14718 14.534 14.485 14.632 0.3069 28 10 4 0 0 0 0.0053299 1 6428 6428 91.085 28.512 1 13745000 3965 2538 2662 2670 4425 4425 0.04413732860757591 DVKSKTEAL 9 Unmodified _DVKSKTEAL_ 0 0 0 ENSG00000129083|ENST00000439561|COPB1 ENSG00000129083|ENST00000439561|COPB1 ENSG00000129083|ENST00000439561|COPB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.7781677246094 2 495.776939 989.539325 3.3015 0.0016368 -0.09757 -4.8373E-05 3.204 0.0015885 495.7768708565497 14.128 0.15854 14.776 14.68 14.839 0.64819 62 25 3 0 0 0 0.0014285 2 6313 6313;6357 110.79 35.864 1 20103000 3966 2538 2662 2670 4426;4427 4426 0.04413732860757591 DVKSKTEAL 9 Unmodified _DVKSKTEAL_ 0 0 0 ENSG00000129083|ENST00000439561|COPB1 ENSG00000129083|ENST00000439561|COPB1 ENSG00000129083|ENST00000439561|COPB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.8541259765625 3 330.853718 989.539325 2.357 0.00077983 0.11629 3.8474E-05 2.4733 0.0008183 330.85372581240046 14.122 0.15265 14.77 14.686 14.839 0.64819 49 24 3 0 0 0 0.093314 1 6324 6324 26.021 11.803 1 11488000 3967 2538 2662 2670 4428 4428 0.04413732860757591 DVLDQMRAL 9 Unmodified _DVLDQMRAL_ 0 0 0 REV__ENSG00000078814|ENST00000262873|MYH7B REV__ENSG00000078814|ENST00000262873|MYH7B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.2340698242188 2 530.776416 1059.53828 3.3395 0.0017725 -0.31995 -0.00016982 3.0195 0.0016027 530.776443534805 36.656 0.18019 37.286 37.214 37.394 0.62999 11 8 2 0 0 0 0.11256 1 16757 16757 2.3027 0 1 143950 + 3968 10576 2663 2671 4429 4429 0.010891952201973254 DVLELLDKYL 10 Unmodified _DVLELLDKYL_ 0 0 0 nc|ENSG00000166913|P31946-2|YWHAB;ENSG00000166913|ENST00000353703|YWHAB nc|ENSG00000166913|P31946-2|YWHAB nc|ENSG00000166913|P31946-2|YWHAB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 407.5648193359375 3 407.563945 1219.67001 2.8464 0.0011601 0.87501 0.00035662 3.7214 0.0015167 407.5642550756189 27.127 0.27143 27.749 27.637 27.908 0.62179 30 16 2 0 0 0 0.85597 1 12474 12474 5.7834 0.38072 1 525260 3969 4515 2664 2672 4430 4430 0.06895703788950414 DVLLQIVHFLL 11 Unmodified _DVLLQIVHFLL_ 0 0 0 ENSG00000112996|ENST00000507110|MRPS30 ENSG00000112996|ENST00000507110|MRPS30 ENSG00000112996|ENST00000507110|MRPS30 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.4022216796875 2 655.397556 1308.78056 NaN NaN NaN NaN NaN NaN NaN 48.434 1 48.696 48.196 49.196 0.26209 0 0 0 1.0072 1 22141 22141 1.3295 1.0225 1 3970 1830 2665 2673 4431 4431 0.1385196856786024 DVMRLNKI 8 Unmodified _DVMRLNKI_ 0 0 0 REV__ENST00000460813.5_1_3:113723339-113723381:-|nuORF REV__ENST00000460813.5_1_3:113723339-113723381:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 330.17938232421875 3 330.191788 987.553536 2.5353 0.00083712 -1.8862 -0.00062282 0.64904 0.00021431 330.1911964162051 28.384 0.37282 28.384 28.109 28.482 0 32 25 2 0 0 0 0.14244 1 12731 12731 3.5965 1.7523 1 640800 + 3971 16484 2666 2674 4432 4432 0.059261068080672885 DVMRLNKI 8 Unmodified _DVMRLNKI_ 0 0 0 REV__ENST00000460813.5_1_3:113723339-113723381:-|nuORF REV__ENST00000460813.5_1_3:113723339-113723381:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.17950439453125 3 330.191788 987.553536 2.1771 0.00071888 0.023609 7.7955E-06 2.2008 0.00072667 330.1918225679332 27.697 0.42436 28.316 28.069 28.494 0.61947 50 28 3 0 0 0 0.141 1 12642 12642 6.7232 1.8262 1 1520500 + 3972 16484 2666 2674 4433 4433 0.059261068080672885 DVQGPDWHL 9 Unmodified _DVQGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.7527465820312 2 533.751256 1065.48796 3.0477 0.0016267 0.21852 0.00011663 3.2662 0.0017433 533.7513692858257 59.035 0.37494 59.294 59.102 59.476 0.2593 46 18 3 0 0 0 0.02234 1 27015 27015 65.235 65.235 1 1492800 3973 2385 2667 2675 4434 4434 -0.04216591113299728 DVQGPDWHL 9 Unmodified _DVQGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 533.751256 1065.48796 2.8051 0.0014972 -1.0552 -0.00056319 1.7499 0.00093403 533.7506088445136 58.21 0.24688 58.979 58.888 59.135 0.76861 -0.15313 -0.00113 NaN 65.235 36 24 2 NaN NaN NaN NaN 0 NaN NaN 0 3306100 3974 2385 2667 2675 -0.04216591113299728 DVQGPDWHL 9 Unmodified _DVQGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 533.751256 1065.48796 3.2667 0.0017436 -0.031617 -1.6876E-05 3.2351 0.0017267 533.75133381925 58.456 0.28236 59.123 59.007 59.289 0.66703 -0.0086959 -3.7392E-05 NaN 65.235 31 14 3 NaN NaN NaN NaN 0 NaN NaN 0 2197800 3975 2385 2667 2675 -0.04216591113299728 DVQKKLMSL 9 Unmodified _DVQKKLMSL_ 0 0 0 nc|ENSG00000100815|Q15643-2|TRIP11;ENSG00000100815|ENST00000267622|TRIP11 nc|ENSG00000100815|Q15643-2|TRIP11 nc|ENSG00000100815|Q15643-2|TRIP11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.305908203125 2 531.30481 1060.59507 3.378 0.0017948 0.13983 7.4294E-05 3.5179 0.0018691 531.3047671706331 41.785 0.23384 42.055 41.867 42.101 0.27021 18 8 3 0 0 0 0.0014285 1 19005 19005 110.79 63.044 1 1520500 3976 1243 2668 2676 4435 4435 0.0671924277673952 DVQKKLMSL 9 Unmodified _DVQKKLMSL_ 0 0 0 nc|ENSG00000100815|Q15643-2|TRIP11;ENSG00000100815|ENST00000267622|TRIP11 nc|ENSG00000100815|Q15643-2|TRIP11 nc|ENSG00000100815|Q15643-2|TRIP11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.3058471679688 2 531.30481 1060.59507 NaN NaN NaN NaN NaN NaN NaN 41.16 1 41.804 41.304 42.304 0.64451 0 0 0 5.505E-05 1 18826 18826 110.79 59.163 1 3977 1243 2668 2676 4436 4436 0.0671924277673952 DVQLRLNSI 9 Unmodified _DVQLRLNSI_ 0 0 0 ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-4|PPP2R1B;ENST00000468280.5_1_19:52693376-52714746:+|nuORF;PPP2R1B|p.I361Yfs*14|1|0.3|ENSG00000137713|chr11:111753526-111753527|TT/-|frameshift_variant;nc|ENSG00000137713|P30154-5|PPP2R1B;ENSG00000137713|ENST00000527614|PPP2R1B;nc|ENSG00000137713|P30154-2|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-5|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.3052978515625 2 529.303655 1056.59276 NaN NaN NaN NaN NaN NaN NaN 59.706 1 60.371 59.871 60.871 0.66503 0 0 0 0.0060814 1 27331 27331 90.135 30.061 1 3978 1509;3033 2669 2677 4437 4437 0.0667253036326656 DVRKRVQDL 9 Unmodified _DVRKRVQDL_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.888916015625 3 376.887645 1127.64111 2.8522 0.001075 -0.54683 -0.00020609 2.3054 0.00086887 376.8874545794753 18.319 0.32604 18.319 18.183 18.509 0 26 17 2 0 0 0 0.98958 1 8206 8206 4.1895 1.1943 1 280290 3979 4637 2670 2678 4438 4438 0.08239024003182749 DVRKRVQDL 9 Unmodified _DVRKRVQDL_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.8887939453125 3 376.887645 1127.64111 2.2517 0.00084862 -0.1316 -4.9598E-05 2.1201 0.00079903 376.8876405640703 17.818 0.11742 18.019 17.963 18.08 0.20057 15 8 2 0 0 0 0.24272 1 7904 7904 20.581 0.95498 1 378250 3980 4637 2670 2678 4439 4439 0.08239024003182749 DVRKRVQDL 9 Unmodified _DVRKRVQDL_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.88873291015625 3 376.887645 1127.64111 2.5583 0.00096419 0.28755 0.00010838 2.8458 0.0010726 376.8877737739488 16.797 1.407 17.101 16.153 17.56 0.30438 347 148 3 0 0 0 0.22744 3 7623 7313;7357;7623 21.59 2.7366 1 437530 3981 4637 2670 2678 4440;4441;4442 4442 0.08239024003182749 DVRKRVQDL 9 Unmodified _DVRKRVQDL_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.8890686035156 3 376.887645 1127.64111 2.7213 0.0010256 0.52512 0.00019791 3.2464 0.0012235 376.8878538358413 16.873 1.2501 17.534 16.596 17.846 0.66072 288 131 3 0 0 0 0.14214 5 7629 7313;7355;7396;7446;7629 27.223 5.6331 1 602780 3982 4637 2670 2678 4443;4444;4445;4446;4447 4447 0.08239024003182749 DVRQQYESV 9 Unmodified _DVRQQYESV_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000421459.2_2_10:17272631-17276850:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.275390625 2 562.272552 1122.53055 NaN NaN NaN NaN NaN NaN NaN 28.46 1 28.72 28.22 29.22 0.2602 0 0 0 0.58778 1 12945 12945 16.149 0.30192 1 3983 483 2671 2679 4448 4448 -0.025812407757030087 DVRQQYESV 9 Unmodified _DVRQQYESV_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000421459.2_2_10:17272631-17276850:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.2742919921875 2 562.272552 1122.53055 3.4868 0.0019605 0.88043 0.00049504 4.3672 0.0024556 562.2730053635055 28.099 0.20778 28.718 28.583 28.79 0.61947 18 12 2 0 0 0 0.30982 1 12889 12889 16.149 3.1066 1 151870 3984 483 2671 2679 4449 4449 -0.025812407757030087 DVRRRLAQL 9 Unmodified _DVRRRLAQL_ 0 0 0 ENST00000578236.5_1_17:79966858-79974746:+|nuORF;ENST00000577733.5_1_17:79966858-79975195:+|nuORF;nc|ENSG00000169696|Q9BZE9-4|ASPSCR1;nc|ENSG00000169696|Q9BZE9-3|ASPSCR1;ENSG00000169696|ENST00000306739|ASPSCR1;nc|ENSG00000169696|Q9BZE9-2|ASPSCR1 ENST00000578236.5_1_17:79966858-79974746:+|nuORF ENST00000578236.5_1_17:79966858-79974746:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.2325134277344 3 376.231634 1125.67307 2.7764 0.0010446 -0.78483 -0.00029528 1.9916 0.0007493 376.23147399018006 26.382 0.3019 26.647 26.565 26.867 0.26489 31 23 2 0 0 0 0.92418 1 11985 11985 5.2969 2.3016 1 194750 3985 4705 2672 2680 4450 4450 0.11526436476970048 DVSIKRRAMEL 11 Unmodified _DVSIKRRAMEL_ 0 0 0 ENST00000565642.5_1_16:71777395-71799448:-|nuORF;ENSG00000166747|ENST00000299980|AP1G1;nc|ENSG00000166747|O43747-2|AP1G1 ENST00000565642.5_1_16:71777395-71799448:-|nuORF ENST00000565642.5_1_16:71777395-71799448:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 439.9160461425781 3 439.915095 1316.72345 3.2905 0.0014475 0.30856 0.00013574 3.5991 0.0015833 439.9152089961646 31.811 0.25104 32.065 31.92 32.171 0.25452 46 20 3 0 0 0 0.83006 1 14495 14495 5.5233 0 1 293360 3986 4504 2673 2681 4451 4451 0.077761780198216 DVSIKRRAMEL 11 Unmodified _DVSIKRRAMEL_ 0 0 0 ENST00000565642.5_1_16:71777395-71799448:-|nuORF;ENSG00000166747|ENST00000299980|AP1G1;nc|ENSG00000166747|O43747-2|AP1G1 ENST00000565642.5_1_16:71777395-71799448:-|nuORF ENST00000565642.5_1_16:71777395-71799448:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 439.915095 1316.72345 3.0762 0.0013533 -0.29201 -0.00012846 2.7842 0.0012248 439.9150570152947 31.256 0.23269 31.873 31.74 31.972 0.61737 -0.095848 -0.00045522 NaN 5.5233 23 14 2 NaN NaN NaN NaN 0 NaN NaN 0 459110 3987 4504 2673 2681 0.077761780198216 DVTQDYNETDW 11 Unmodified _DVTQDYNETDW_ 0 0 0 nc|ENSG00000139197|P50542-2|PEX5;nc|ENSG00000139197|P50542-3|PEX5;ENSG00000139197|ENST00000675855|PEX5;nc|ENSG00000139197|P50542-4|PEX5;ENST00000545220.1_1_12:7343495-7354840:+|nuORF;ENST00000539304.1_1_12:7344181-7354515:+|nuORF nc|ENSG00000139197|P50542-2|PEX5 nc|ENSG00000139197|P50542-2|PEX5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 462.5232238769531 3 462.521245 1384.5419 2.435 0.0011262 0.99479 0.00046011 3.4298 0.0015863 462.52157525013394 54.316 0.35748 55.112 54.919 55.277 0.79552 53 21 3 0 0 0 0.91111 1 24803 24803 0.40827 0 1 406260 3988 3137 2674 2682 4452 4452 -0.13498508262910036 DVYKSPLRI 9 Unmodified _DVYKSPLRI_ 0 0 0 ENST00000419462.1_1_8:102381113-102381542:+|nuORF ENST00000419462.1_1_8:102381113-102381542:+|nuORF ENST00000419462.1_1_8:102381113-102381542:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.2140808105469 3 364.213358 1089.61824 NaN NaN NaN NaN NaN NaN NaN 57.997 1 58.666 58.166 59.166 0.66829 0 0 0 0.89451 1 26542 26542 4.897 0.36815 1 3989 7742 2675 2683 4453 4453 0.07702004885709357 DVYMDWFDQ 9 Unmodified _DVYMDWFDQ_ 0 0 0 REV__ENSG00000283267|ENST00000692316|FAM237B REV__ENSG00000283267|ENST00000692316|FAM237B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1219.4818115234375 1 1218.4772 1217.46993 3.1609 0.0038515 0.091411 0.00011138 3.2523 0.0039629 1219.479832552246 36.7 0.072346 36.7 36.668 36.74 0 4 2 2 0 0 0 1.2078 1 16668 16668 0.6015 0 1 271710 + 3990 14765 2676 2684 4454 4454 -0.13011094150306235 DVYMDWFDQ 9 Unmodified _DVYMDWFDQ_ 0 0 0 REV__ENSG00000283267|ENST00000692316|FAM237B REV__ENSG00000283267|ENST00000692316|FAM237B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 1218.4772 1217.46993 3.1609 0.0038515 0.091411 0.00011138 3.2523 0.0039629 1219.479832552246 36.7 0.072346 36.7 36.668 36.74 0 0 0 NaN 0.6015 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 271710 + 3991 14765 2676 2684 -0.13011094150306235 DVYRLHIY 8 Unmodified _DVYRLHIY_ 0 0 0 REV__nc|ENSG00000010626|Q53EV4-2|LRRC23 REV__nc|ENSG00000010626|Q53EV4-2|LRRC23 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1079.2403564453125 1 1078.56801 1077.56073 3.1958 0.0034469 1.1316 0.0012205 4.3275 0.0046675 1079.5741807672143 43.597 0.028511 43.597 43.586 43.615 0 5 3 2 0 0 0 0.7471 1 19880 19880 0.79363 0 1 2460600 + 3992 10228 2677 2685 4455 4455 0.025051626801541715 DVYYFYER 8 Unmodified _DVYYFYER_ 0 0 0 REV__ENSG00000213563|ENST00000524821|C8orf82 REV__ENSG00000213563|ENST00000524821|C8orf82 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.7610473632812 2 577.761289 1153.50803 NaN NaN NaN NaN NaN NaN NaN 18.035 1 18.336 17.836 18.836 0.30158 0 0 0 0.99035 1 8170 8170 0.79363 0.19213 1 + 3993 14496 2678 2686 4456 4456 -0.06258840173336466 DWFLLRRRRRR 11 Unmodified _DWFLLRRRRRR_ 0 0 0 REV__nc|ENSG00000100918|O95072-2|REC8 REV__nc|ENSG00000100918|O95072-2|REC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.9937744140625 3 543.993953 1628.96003 NaN NaN NaN NaN NaN NaN NaN 90.335 1 91.008 90.508 91.508 0.67271 0 0 0 1.0082 1 41580 41580 0 0 1 + 3994 10856 2679 2687 4457 4457 0.1707071041898871 DWLRIHADL 9 Unmodified _DWLRIHADL_ 0 0 0 REV__ENST00000559700.5_1_15:78584919-78588040:-|nuORF REV__ENST00000559700.5_1_15:78584919-78588040:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.5403747558594 3 380.204974 1137.59309 3.0221 0.001149 0.27283 0.00010373 3.2949 0.0012527 380.2052318066368 67.421 0.34164 67.671 67.515 67.856 0.2501 30 18 2 0 0 0 0.87132 1 30922 30922 6.1918 2.6048 1 564390 + 3995 12245 2680 2688 4458 4458 0.029799500831586556 DWPRRWRRPKP 11 Unmodified _DWPRRWRRPKP_ 0 0 0 REV__ENST00000287878.8_2_7:151292537-151372615:-|nuORF REV__ENST00000287878.8_2_7:151292537-151372615:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 775.4359741210938 2 775.434193 1548.85383 NaN NaN NaN NaN NaN NaN NaN 95.493 1 96.101 95.601 96.601 0.60769 0 0 0 1.008 1 43914 43914 0.30703 0.30703 1 + 3996 15115 2681 2689 4459 4459 0.10135954853672047 DWTERFRDLL 10 Unmodified _DWTERFRDLL_ 0 0 0 nc|ENSG00000086991|Q9NPH5-3|NOX4;nc|ENSG00000086991|Q9NPH5-4|NOX4;nc|ENSG00000086991|Q9NPH5-2|NOX4;nc|ENSG00000086991|Q9NPH5-9|NOX4;nc|ENSG00000086991|Q9NPH5-6|NOX4;nc|ENSG00000086991|Q9NPH5-8|NOX4;ENSG00000086991|ENST00000263317|NOX4 nc|ENSG00000086991|Q9NPH5-3|NOX4 nc|ENSG00000086991|Q9NPH5-3|NOX4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.89947509765625 3 450.89821 1349.6728 2.5478 0.0011488 0.48275 0.00021767 3.0306 0.0013665 450.898356447753 50.823 0.3402 51.64 51.422 51.762 0.81738 35 18 3 0 0 0 0.83621 2 23139 23083;23139 3.5871 3.5871 1 517080 3997 990 2682 2690 4460;4461 4461 0.011949719664926306 DWTERFRDLL 10 Unmodified _DWTERFRDLL_ 0 0 0 nc|ENSG00000086991|Q9NPH5-3|NOX4;nc|ENSG00000086991|Q9NPH5-4|NOX4;nc|ENSG00000086991|Q9NPH5-2|NOX4;nc|ENSG00000086991|Q9NPH5-9|NOX4;nc|ENSG00000086991|Q9NPH5-6|NOX4;nc|ENSG00000086991|Q9NPH5-8|NOX4;ENSG00000086991|ENST00000263317|NOX4 nc|ENSG00000086991|Q9NPH5-3|NOX4 nc|ENSG00000086991|Q9NPH5-3|NOX4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.23345947265625 3 450.89821 1349.6728 2.8906 0.0013034 0.085136 3.8388E-05 2.9758 0.0013418 450.8980205679105 51.03 0.30489 51.69 51.526 51.831 0.65956 26 16 2 0 0 0 0.90196 1 23281 23281 1.7423 0.41263 1 607400 3998 990 2682 2690 4462 4462 0.011949719664926306 DWVEYYRRWER 11 Unmodified _DWVEYYRRWER_ 0 0 0 REV__ENSG00000118017|ENST00000236709|A4GNT REV__ENSG00000118017|ENST00000236709|A4GNT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 829.3965454101562 2 829.397138 1656.77972 NaN NaN NaN NaN NaN NaN NaN 81.765 1 82.425 81.925 82.925 0.65998 0 0 0 1.0082 1 37677 37677 0 0 1 + 3999 11459 2683 2691 4463 4463 -0.02239477819171043 DWYHRRRD 8 Unmodified _DWYHRRRD_ 0 0 0 REV__ENST00000463847.1_1_6:38110907-38120162:+|nuORF REV__ENST00000463847.1_1_6:38110907-38120162:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 602.2948608398438 2 602.291945 1202.56934 NaN NaN NaN NaN NaN NaN NaN 103.42 1 104.02 103.52 104.52 0.59821 0 0 0 0.99035 1 47844 47844 2.0598 0.21551 1 + 4000 16522 2684 2692 4464 4464 -0.023844706306817898 DYAETVHQL 9 Unmodified _DYAETVHQL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.2571411132812 2 538.256371 1074.49819 3.1572 0.0016994 -0.33 -0.00017763 2.8272 0.0015218 538.255946052608 40.953 0.33925 40.953 40.785 41.124 0 35 23 2 0 0 0 0.044468 1 18574 18574 49.554 15.153 1 1024600 4001 1960 2685 2693 4465 4465 -0.03608028178700806 DYAETVHQL 9 Unmodified _DYAETVHQL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.2582397460938 2 538.256371 1074.49819 3.283 0.0017671 0.086453 4.6534E-05 3.3695 0.0018136 538.2562025252302 40.844 0.1378 41.113 41.035 41.173 0.26904 18 10 2 0 0 0 0.093314 1 18572 18572 34.402 6.7729 1 980470 4002 1960 2685 2693 4466 4466 -0.03608028178700806 DYDDYRIG 8 Unmodified _DYDDYRIG_ 0 0 0 REV__nc|ENSG00000149212|P58005-4|SESN3 REV__nc|ENSG00000149212|P58005-4|SESN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.7193908691406 2 508.719621 1015.42469 NaN NaN NaN NaN NaN NaN NaN 73.438 1 73.696 73.196 74.196 0.25876 0 0 0 0.99035 1 33731 33731 5.2307 0 1 + 4003 12561 2686 2694 4467 4467 -0.08240576621187756 DYDSVFHHL 9 Unmodified _DYDSVFHHL_ 0 0 0 nc|ENSG00000120616|Q9H2F5-3|EPC1;ENSG00000120616|ENST00000319778|EPC1;nc|ENSG00000120616|Q9H2F5|EPC1;ENST00000495790.1_1_10:32573515-32573971:-|nuORF nc|ENSG00000120616|Q9H2F5-3|EPC1;ENST00000495790.1_1_10:32573515-32573971:-|nuORF ENST00000495790.1_1_10:32573515-32573971:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 378.17510986328125 3 378.173451 1131.49852 1.8925 0.00071569 1.333 0.00050411 3.2255 0.0012198 378.17410123395416 51.446 0.21169 52.263 52.173 52.384 0.81738 23 15 2 0 0 0 0.41574 1 23434 23434 13.906 9.5768 1 361500 4004 2198;8437 2687 2695 4468 4468 -0.06196608458844821 DYEEEWSD 8 Unmodified _DYEEEWSD_ 0 0 0 REV__nc|ENSG00000171680|O94827-4|PLEKHG5 REV__nc|ENSG00000171680|O94827-4|PLEKHG5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.6912231445312 2 536.690726 1071.3669 3.1218 0.0016754 -1.487 -0.00079807 1.6348 0.00087738 536.6902863933581 36.731 0.37886 37.525 37.27 37.648 0.79342 34 17 3 0 0 0 0.7471 1 16684 16684 0.69038 0 1 439560 + 4005 13509 2688 2696 4469 4469 -0.1659288333726181 DYERTERPV 9 Unmodified _DYERTERPV_ 0 0 0 REV__nc|ENSG00000185920|Q13635-3|PTCH1 REV__nc|ENSG00000185920|Q13635-3|PTCH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.34375 2 582.785827 1163.5571 NaN NaN NaN NaN NaN NaN NaN 71.386 1 72.09 71.59 72.59 0.70386 0 0 0 0.90511 1 34280 34280 2.3027 0.24298 1 + 4006 14034 2689 2697 4470 4470 -0.018135518843791942 DYFFKPVLF 9 Unmodified _DYFFKPVLF_ 0 0 0 ENST00000369452.8_1_10:112723943-112724024:+|nuORF ENST00000369452.8_1_10:112723943-112724024:+|nuORF ENST00000369452.8_1_10:112723943-112724024:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.3131713867188 2 588.310418 1174.60628 4.0647 0.0023913 -0.16465 -9.6864E-05 3.9001 0.0022945 588.3099935459853 92.372 0.21428 92.624 92.511 92.725 0.25253 18 10 2 0 0 0 0.10169 1 42470 42470 32.305 24.395 1 560760 4007 7294 2690 2698 4471 4471 0.025963881425013824 DYFFKPVLF 9 Unmodified _DYFFKPVLF_ 0 0 0 ENST00000369452.8_1_10:112723943-112724024:+|nuORF ENST00000369452.8_1_10:112723943-112724024:+|nuORF ENST00000369452.8_1_10:112723943-112724024:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.3133544921875 2 588.310418 1174.60628 3.7788 0.0022231 -0.444 -0.00026121 3.3348 0.0019619 588.3100970489553 91.761 0.28894 92.423 92.274 92.563 0.66198 26 15 2 0 0 0 0.071101 1 42217 42217 39.957 30.574 1 377210 4008 7294 2690 2698 4472 4472 0.025963881425013824 DYILNVMKF 9 Unmodified _DYILNVMKF_ 0 0 0 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1;nc|ENSG00000086758|Q7Z6Z7-3|HUWE1;ENSG00000086758|ENST00000262854|HUWE1;ENST00000218328.12_1_X:53611240-53681066:-|nuORF nc|ENSG00000086758|Q7Z6Z7-2|HUWE1 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.8012084960938 2 571.79936 1141.58417 3.4331 0.001963 0.26625 0.00015224 3.6993 0.0021153 571.7993241378632 84.131 0.1917 84.379 84.282 84.474 0.24757 16 9 2 0 0 0 0.071132 1 38755 38755 39.95 29.876 1 377100 4009 987 2691 2699 4473 4473 0.01903840402451351 DYIPQLAKF 9 Unmodified _DYIPQLAKF_ 0 0 0 nc|ENSG00000115419|O94925-3|GLS;ENSG00000115419|ENST00000320717|GLS;ENST00000469774.1_1_2:191760380-191769916:+|nuORF nc|ENSG00000115419|O94925-3|GLS nc|ENSG00000115419|O94925-3|GLS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.8011474609375 2 547.797675 1093.5808 3.7077 0.002031 0.37578 0.00020585 4.0834 0.0022369 547.7975561642016 69.384 0.18094 69.638 69.559 69.74 0.25443 17 12 2 0 0 0 0.24465 1 31779 31779 20.454 20.454 1 285880 4010 1970 2692 2700 4474 4474 0.03774913620077314 DYIPQLAKF 9 Unmodified _DYIPQLAKF_ 0 0 0 nc|ENSG00000115419|O94925-3|GLS;ENSG00000115419|ENST00000320717|GLS;ENST00000469774.1_1_2:191760380-191769916:+|nuORF nc|ENSG00000115419|O94925-3|GLS nc|ENSG00000115419|O94925-3|GLS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 547.797675 1093.5808 3.3113 0.0018139 1.0292 0.0005638 4.3405 0.0023777 548.3001998996918 68.917 0.1375 69.576 69.491 69.628 0.65924 -0.031085 0.00049988 NaN 20.454 14 9 2 NaN NaN NaN NaN 0 NaN NaN 0 471190 4011 1970 2692 2700 0.03774913620077314 DYKFHHTF 8 Unmodified _DYKFHHTF_ 0 0 0 ENSG00000155660|ENST00000652332|PDIA4 ENSG00000155660|ENST00000652332|PDIA4 ENSG00000155660|ENST00000652332|PDIA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.5073547363281 3 365.506653 1093.49813 2.7177 0.00099334 0.10194 3.7258E-05 2.8196 0.0010306 365.50666546342006 25.839 0.3578 26.107 25.953 26.31 0.26777 50 35 2 0 0 0 0.52517 1 11716 11716 14.838 12.34 1 360300 4012 3873 2693 2701 4475 4475 -0.04487983388048633 DYKFHHTF 8 Unmodified _DYKFHHTF_ 0 0 0 ENSG00000155660|ENST00000652332|PDIA4 ENSG00000155660|ENST00000652332|PDIA4 ENSG00000155660|ENST00000652332|PDIA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.50830078125 3 365.506653 1093.49813 2.4942 0.00091165 0.36941 0.00013502 2.8636 0.0010467 365.50668401194804 25.506 0.21804 26.131 26.057 26.275 0.62505 38 24 2 0 0 0 0.26384 1 11685 11685 30.637 26.447 1 488330 4013 3873 2693 2701 4476 4476 -0.04487983388048633 DYKGDATVFFI 11 Unmodified _DYKGDATVFFI_ 0 0 0 ENSG00000100665|ENST00000557004|SERPINA4 ENSG00000100665|ENST00000557004|SERPINA4 ENSG00000100665|ENST00000557004|SERPINA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 638.319580078125 2 638.316428 1274.6183 3.9101 0.0024959 -0.27452 -0.00017523 3.6356 0.0023206 638.316266568782 65.732 0.34123 65.981 65.824 66.165 0.24848 55 19 4 0 0 0 0.26935 1 30075 30075 26.021 3.3626 1 3771500 4014 1235 2694 2702 4477 4477 -0.00802039904965568 DYKGDATVFFI 11 Unmodified _DYKGDATVFFI_ 0 0 0 ENSG00000100665|ENST00000557004|SERPINA4 ENSG00000100665|ENST00000557004|SERPINA4 ENSG00000100665|ENST00000557004|SERPINA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 638.3180541992188 2 638.316428 1274.6183 4.0157 0.0025633 -0.35122 -0.00022419 3.6645 0.0023391 638.3160528807555 65.093 0.33069 65.749 65.604 65.935 0.65672 63 21 4 0 0 0 0.15681 3 29850 29807;29850;29908 32.037 3.543 1 2924800 4015 1235 2694 2702 4478;4479;4480 4479 -0.00802039904965568 DYKGDATVFFI 11 Unmodified _DYKGDATVFFI_ 0 0 0 ENSG00000100665|ENST00000557004|SERPINA4 ENSG00000100665|ENST00000557004|SERPINA4 ENSG00000100665|ENST00000557004|SERPINA4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 638.316428 1274.6183 3.1911 0.002037 0.17022 0.00010865 3.3614 0.0021456 638.3165633789472 65.856 0.091339 65.856 65.792 65.883 0 0.08948 0.00050687 NaN 32.037 14 13 2 NaN NaN NaN NaN 0 NaN NaN 0 1782100 4016 1235 2694 2702 -0.00802039904965568 DYKGDATVFFI 11 Unmodified _DYKGDATVFFI_ 0 0 0 ENSG00000100665|ENST00000557004|SERPINA4 ENSG00000100665|ENST00000557004|SERPINA4 ENSG00000100665|ENST00000557004|SERPINA4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 638.316428 1274.6183 2.9637 0.0018918 -0.14661 -9.3582E-05 2.8171 0.0017982 638.3162190125265 64.764 0.12485 65.48 65.433 65.558 0.71521 -0.28672 0.0001024 NaN 32.037 21 14 2 NaN NaN NaN NaN 0 NaN NaN 0 1432600 4017 1235 2694 2702 -0.00802039904965568 DYLAKEVIIY 10 Unmodified _DYLAKEVIIY_ 0 0 0 REV__ENSG00000168619|ENST00000265707|ADAM18 REV__ENSG00000168619|ENST00000265707|ADAM18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 613.8425903320312 2 613.836997 1225.65944 3.5447 0.0021759 0.65987 0.00040505 4.2046 0.0025809 613.8374500830489 63.755 0.20149 64.412 64.291 64.493 0.65672 20 14 2 0 0 0 0.81759 1 29247 29247 7.609 2.3783 1 536780 + 4018 13359 2695 2703 4481 4481 0.05563721134535626 DYLEKYYKF 9 Unmodified _DYLEKYYKF_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT;ENST00000546313.1_1_11:114167278-114168881:+|nuORF ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 423.5458984375 3 423.544773 1267.61249 2.7229 0.0011533 0.032099 1.3595E-05 2.755 0.0011669 423.5447317333581 56.065 0.35661 56.065 55.891 56.248 0 86 25 4 0 0 0 0.053359 3 25798 25753;25798;25836 45.74 31.522 1 11615000 4019 4502 2696 2704 4482;4483;4484 4483 -0.010611384166168136 DYLEKYYKF 9 Unmodified _DYLEKYYKF_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT;ENST00000546313.1_1_11:114167278-114168881:+|nuORF ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.81591796875 2 634.813522 1267.61249 3.6553 0.0023204 0.3218 0.00020429 3.9771 0.0025247 634.8138300827402 56.079 0.34448 56.079 55.891 56.236 0 78 24 4 0 0 0 2.2546E-05 2 25763 25763;25810 155.95 82.986 1 8150100 4020 4502 2696 2704 4485;4486 4485 -0.010611384166168136 DYLEKYYKF 9 Unmodified _DYLEKYYKF_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT;ENST00000546313.1_1_11:114167278-114168881:+|nuORF ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 423.545654296875 3 423.544773 1267.61249 2.3603 0.00099971 0.052043 2.2043E-05 2.4124 0.0010217 423.5447262007678 54.948 0.43748 55.735 55.53 55.967 0.78711 84 27 4 0 0 0 0.053359 3 25081 25033;25081;25128 45.74 28.297 1 9373800 4021 4502 2696 2704 4487;4488;4489 4488 -0.010611384166168136 DYLEKYYKF 9 Unmodified _DYLEKYYKF_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT;ENST00000546313.1_1_11:114167278-114168881:+|nuORF ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 634.8136596679688 2 634.813522 1267.61249 3.1508 0.0020002 0.50869 0.00032292 3.6595 0.0023231 634.813880917732 54.919 0.32484 55.709 55.569 55.894 0.78937 63 21 4 0 0 0 3.3216E-05 2 25062 25062;25112 140.63 67.665 1 6334100 4022 4502 2696 2704 4490;4491 4490 -0.010611384166168136 DYLEKYYKF 9 Unmodified _DYLEKYYKF_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT;ENST00000546313.1_1_11:114167278-114168881:+|nuORF ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 634.8196411132812 2 634.813522 1267.61249 3.696 0.0023462 0.75943 0.0004821 4.4554 0.0028283 634.8139118450085 56.136 0.3062 56.402 56.262 56.568 0.26543 32 11 4 0 0 0 0.0013296 2 25638 25638;25684 132.38 76.877 1 7411000 4023 4502 2696 2704 4492;4493 4492 -0.010611384166168136 DYLEKYYKF 9 Unmodified _DYLEKYYKF_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT;ENST00000546313.1_1_11:114167278-114168881:+|nuORF ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.54583740234375 3 423.544773 1267.61249 2.8519 0.0012079 0.0046344 1.9629E-06 2.8565 0.0012099 423.5447204923693 56.153 0.32109 56.418 56.247 56.568 0.26543 38 12 4 0 0 0 0.053359 2 25661 25661;25725 45.74 27.019 1 8166500 4024 4502 2696 2704 4494;4495 4494 -0.010611384166168136 DYLEKYYKF 9 Unmodified _DYLEKYYKF_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT;ENST00000546313.1_1_11:114167278-114168881:+|nuORF ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 634.8173828125 2 634.813522 1267.61249 3.9412 0.0025019 0.42728 0.00027124 4.3684 0.0027731 634.8138450043222 55.444 0.3151 56.112 55.975 56.291 0.66797 44 13 4 0 0 0 0.0012799 2 25357 25357;25413 132.38 77.521 1 4896900 4025 4502 2696 2704 4496;4497 4496 -0.010611384166168136 DYLEKYYKF 9 Unmodified _DYLEKYYKF_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT;ENST00000546313.1_1_11:114167278-114168881:+|nuORF ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 423.5457763671875 3 423.544773 1267.61249 3.0387 0.001287 0.13665 5.7878E-05 3.1753 0.0013449 423.544746189229 55.443 0.39407 56.111 55.922 56.316 0.66798 51 16 4 0 0 0 0.10277 2 25365 25365;25414 32.037 19.863 1 4580800 4026 4502 2696 2704 4498;4499 4498 -0.010611384166168136 DYMKTTSNF 9 Unmodified _DYMKTTSNF_ 0 0 0 nc|ENSG00000165525|O60524-4|NEMF;nc|ENSG00000165525|O60524-3|NEMF;ENSG00000165525|ENST00000298310|NEMF nc|ENSG00000165525|O60524-4|NEMF nc|ENSG00000165525|O60524-4|NEMF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.7468872070312 2 553.744782 1105.47501 3.5919 0.001989 -0.1105 -6.1188E-05 3.4814 0.0019278 553.7448845975418 38.068 0.23815 38.068 37.935 38.173 0 18 8 3 0 0 0 0.002702 1 17286 17286 96.936 71.945 1 1106800 4027 4406 2697 2705 4500 4500 -0.07350790287682685 DYMKTTSNF 9 Unmodified _DYMKTTSNF_ 0 0 0 nc|ENSG00000165525|O60524-4|NEMF;nc|ENSG00000165525|O60524-3|NEMF;ENSG00000165525|ENST00000298310|NEMF nc|ENSG00000165525|O60524-4|NEMF nc|ENSG00000165525|O60524-4|NEMF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.7478637695312 2 553.744782 1105.47501 3.2764 0.0018143 0.26207 0.00014512 3.5384 0.0019594 553.7449092425619 37.07 0.29365 37.864 37.691 37.985 0.79342 30 13 3 0 0 0 0.018453 1 16781 16781 70.332 46.311 1 972910 4028 4406 2697 2705 4501 4501 -0.07350790287682685 DYMKTTSNF 9 Unmodified _DYMKTTSNF_ 0 0 0 nc|ENSG00000165525|O60524-4|NEMF;nc|ENSG00000165525|O60524-3|NEMF;ENSG00000165525|ENST00000298310|NEMF nc|ENSG00000165525|O60524-4|NEMF nc|ENSG00000165525|O60524-4|NEMF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.7473754882812 2 553.744782 1105.47501 3.4842 0.0019294 0.42468 0.00023516 3.9089 0.0021645 553.7450046371896 38.065 0.25503 38.326 38.212 38.467 0.26083 16 7 3 0 0 0 0.014491 1 17350 17350 75.761 55.307 1 560190 4029 4406 2697 2705 4502 4502 -0.07350790287682685 DYMKTTSNF 9 Unmodified _DYMKTTSNF_ 0 0 0 nc|ENSG00000165525|O60524-4|NEMF;nc|ENSG00000165525|O60524-3|NEMF;ENSG00000165525|ENST00000298310|NEMF nc|ENSG00000165525|O60524-4|NEMF nc|ENSG00000165525|O60524-4|NEMF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.7465209960938 2 553.744782 1105.47501 3.4495 0.0019101 -0.17619 -9.7564E-05 3.2733 0.0018126 553.7450198856412 37.486 0.30004 38.118 37.968 38.268 0.63212 20 9 3 0 0 0 0.025135 1 17162 17162 61.602 36.928 1 417320 4030 4406 2697 2705 4503 4503 -0.07350790287682685 DYPKEALKL 9 Unmodified _DYPKEALKL_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2 nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.80517578125 2 538.802957 1075.59136 3.1199 0.001681 0.32348 0.00017429 3.4434 0.0018553 538.8031514316879 42.734 0.23619 42.734 42.638 42.874 0 17 12 2 0 0 0 0.076469 1 19471 19471 38.615 13.624 1 1037600 4031 3765 2698 2706 4504 4504 0.05658896274530889 DYPKEALKL 9 Unmodified _DYPKEALKL_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2 nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.8046264648438 2 538.802957 1075.59136 NaN NaN NaN NaN NaN NaN NaN 41.718 1 42.527 42.027 43.027 0.80855 0 0 0 0.17674 1 18935 18935 32.037 9.3012 1 4032 3765 2698 2706 4505 4505 0.05658896274530889 DYSFGDLD 8 Unmodified _DYSFGDLD_ 0 0 0 REV__ENST00000223129.8_1_7:7676599-7676647:-|nuORF REV__ENST00000223129.8_1_7:7676599-7676647:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 311.1362609863281 3 311.127507 930.360692 NaN NaN NaN NaN NaN NaN NaN 69.59 1 69.845 69.345 70.345 0.25443 0 0 0 0.99035 1 31868 31868 3.5965 1.9439 1 + 4033 14832 2699 2707 4506 4506 -0.10727356778136254 DYSSILQKF 9 Unmodified _DYSSILQKF_ 0 0 0 nc|ENSG00000187239|Q96RU3-4|FNBP1;nc|ENSG00000187239|Q96RU3-3|FNBP1;nc|ENSG00000187239|Q96RU3-5|FNBP1;nc|ENSG00000187239|Q96RU3-2|FNBP1;ENSG00000187239|ENST00000446176|FNBP1 nc|ENSG00000187239|Q96RU3-4|FNBP1 nc|ENSG00000187239|Q96RU3-4|FNBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.78662109375 2 550.784764 1099.55498 2.861 0.0015758 -0.29858 -0.00016445 2.5625 0.0014114 550.7844852673834 71.787 0.20882 72.45 72.347 72.555 0.66324 20 12 2 0 0 0 0.029308 1 32924 32924 56.177 32.156 1 474250 4034 5610 2700 2708 4507 4507 0.009180193778320245 DYSSILQKF 9 Unmodified _DYSSILQKF_ 0 0 0 nc|ENSG00000187239|Q96RU3-4|FNBP1;nc|ENSG00000187239|Q96RU3-3|FNBP1;nc|ENSG00000187239|Q96RU3-5|FNBP1;nc|ENSG00000187239|Q96RU3-2|FNBP1;ENSG00000187239|ENST00000446176|FNBP1 nc|ENSG00000187239|Q96RU3-4|FNBP1 nc|ENSG00000187239|Q96RU3-4|FNBP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 550.784764 1099.55498 3.2988 0.001817 -0.5097 -0.00028074 2.7891 0.0015362 550.784366504448 72.125 0.20406 72.384 72.323 72.527 0.25876 -0.033213 -9.9245E-05 NaN 56.177 25 19 2 NaN NaN NaN NaN 0 NaN NaN 0 665070 4035 5610 2700 2708 0.009180193778320245 DYTILLHNI 9 Unmodified _DYTILLHNI_ 0 0 0 ENSG00000079257|ENST00000264265|LXN ENSG00000079257|ENST00000264265|LXN ENSG00000079257|ENST00000264265|LXN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.3045043945312 2 551.300581 1100.58661 NaN NaN NaN NaN NaN NaN NaN 76.236 1 76.9 76.4 77.4 0.66387 0 0 0 0.088432 1 35120 35120 43.858 31.327 1 4036 890 2701 2709 4508 4508 0.04034012131751297 DYVEGLRVF 9 Unmodified _DYVEGLRVF_ 0 0 0 ENSG00000092841|ENST00000550697|MYL6;ENST00000548725.5_1_12:56552185-56553955:+|nuORF;nc|ENSG00000092841|P60660-2|MYL6 ENSG00000092841|ENST00000550697|MYL6 ENSG00000092841|ENST00000550697|MYL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.2897338867188 2 549.284931 1096.55531 2.9985 0.001647 0.70901 0.00038945 3.7075 0.0020365 549.2846349775053 70.045 0.19942 70.045 69.899 70.099 0 25 21 2 0 0 0 0.017293 1 33892 33892 71.922 46.523 1 4015600 4037 1102 2702 2710 4509 4509 0.010894390976773138 DYVEGLRVF 9 Unmodified _DYVEGLRVF_ 0 0 0 ENSG00000092841|ENST00000550697|MYL6;ENST00000548725.5_1_12:56552185-56553955:+|nuORF;nc|ENSG00000092841|P60660-2|MYL6 ENSG00000092841|ENST00000550697|MYL6 ENSG00000092841|ENST00000550697|MYL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.2869262695312 2 549.284931 1096.55531 3.6019 0.0019785 0.1938 0.00010645 3.7957 0.0020849 549.2849662153026 69.813 0.27895 70.068 69.899 70.178 0.25443 42 17 3 0 0 0 0.024388 2 31972 31930;31972 62.573 37.173 1 1660300 4038 1102 2702 2710 4510;4511 4511 0.010894390976773138 DYVEGLRVF 9 Unmodified _DYVEGLRVF_ 0 0 0 ENSG00000092841|ENST00000550697|MYL6;ENST00000548725.5_1_12:56552185-56553955:+|nuORF;nc|ENSG00000092841|P60660-2|MYL6 ENSG00000092841|ENST00000550697|MYL6 ENSG00000092841|ENST00000550697|MYL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.287353515625 2 549.284931 1096.55531 3.2541 0.0017874 -0.017608 -9.6716E-06 3.2365 0.0017778 549.2847941677288 69.298 0.26826 69.959 69.841 70.109 0.66072 46 18 3 0 0 0 0.014491 2 31782 31738;31782 75.761 50.362 1 1343600 4039 1102 2702 2710 4512;4513 4513 0.010894390976773138 DYVIIEKSFI 10 Unmodified _DYVIIEKSFI_ 0 0 0 REV__ENSG00000143507|ENST00000366899|DUSP10 REV__ENSG00000143507|ENST00000366899|DUSP10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.8958435058594 3 409.560423 1225.65944 2.8734 0.0011768 0.35709 0.00014625 3.2305 0.0013231 409.8948645970887 64.366 0.31335 64.614 64.388 64.702 0.24803 30 18 2 0 0 0 0.84709 1 29454 29454 5.7834 2.4638 1 764750 + 4040 12371 2703 2711 4514 4514 0.05563721134535626 EAAGEVRAM 9 Oxidation (M) _EAAGEVRAM(Oxidation (M))_ EAAGEVRAM(1) EAAGEVRAM(63) 0 0 1 ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 475.2254638671875 2 475.224017 948.43348 2.9814 0.0014168 -0.39998 -0.00019008 2.5814 0.0012267 475.2239311278184 16.896 0.35296 16.896 16.699 17.052 0 70 38 4 0 0 0 0.024388 2 7517 7477;7517 62.573 22.615 1 753960 4041 6521 2704 2712 4515;4516 4516 84 -0.04279926256356248 EAAGEVRAM 9 Oxidation (M) _EAAGEVRAM(Oxidation (M))_ EAAGEVRAM(1) EAAGEVRAM(72) 0 0 1 ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 475.2253723144531 2 475.224017 948.43348 2.821 0.0013406 -0.7086 -0.00033675 2.1124 0.0010039 475.22419160542927 16.905 0.29822 17.105 16.92 17.219 0.20057 71 38 4 0 0 0 0.017293 1 7470 7470 71.922 23.576 1 566070 4042 6521 2704 2712 4517 4517 84 -0.04279926256356248 EAAGEVRAM 9 Oxidation (M) _EAAGEVRAM(Oxidation (M))_ EAAGEVRAM(1) EAAGEVRAM(69) 0 0 1 ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 475.22528076171875 2 475.224017 948.43348 NaN NaN NaN NaN NaN NaN NaN 12.338 1 12.6 12.1 13.1 0.26154 0 0 0 0.022529 1 5316 5316 69.105 29.148 1 4043 6521 2704 2712 4518 4518 84 -0.04279926256356248 EAAGEVRAM 9 Oxidation (M) _EAAGEVRAM(Oxidation (M))_ EAAGEVRAM(1) EAAGEVRAM(140) 0 0 1 ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.22454833984375 2 475.224017 948.43348 2.2113 0.0010509 0.30571 0.00014528 2.517 0.0011962 475.22399387322906 12.325 0.031498 12.632 12.622 12.653 0.30727 9 5 2 0 0 0 3.9104E-05 1 5537 5537 137.42 37.625 1 30132000 4044 6521 2704 2712 4519 4519 84 -0.04279926256356248 EAAGEVRAM 9 Oxidation (M) _EAAGEVRAM(Oxidation (M))_ EAAGEVRAM(1) EAAGEVRAM(63) 0 0 1 ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.2258605957031 2 475.224017 948.43348 2.8172 0.0013388 0.59849 0.00028442 3.4157 0.0016232 475.22443017406255 16.947 1.4677 17.251 16.82 18.288 0.30438 197 124 3 0 0 0 0.024388 4 7669 7669;7714;7754;7798 62.573 21.446 1 550510 4045 6521 2704 2712 4520;4521;4522;4523 4520 84 -0.04279926256356248 EAAGEVRAM 9 Oxidation (M) _EAAGEVRAM(Oxidation (M))_ EAAGEVRAM(1) EAAGEVRAM(130) 0 0 1 ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.7275390625 2 475.224017 948.43348 3.4467 0.0016379 -0.4357 -0.00020705 3.011 0.0014309 475.2240174578884 12.316 0.052273 12.954 12.926 12.978 0.63746 14 6 3 0 0 0 0.00027711 1 5494 5494 134.3 49.024 1 29710000 4046 6521 2704 2712 4524 4524 84 -0.04279926256356248 EAAGEVRAM 9 Oxidation (M) _EAAGEVRAM(Oxidation (M))_ EAAGEVRAM(1) EAAGEVRAM(63) 0 0 1 ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.22589111328125 2 475.224017 948.43348 3.0829 0.0014651 0.72553 0.00034479 3.8084 0.0018099 475.224356183393 16.878 0.47976 17.538 17.228 17.708 0.66072 87 45 2 0 0 0 0.024388 2 7594 7594;7639 62.573 14.227 1 638900 4047 6521 2704 2712 4525;4526 4525 84 -0.04279926256356248 EAAGEVRAM 9 Oxidation (M) _EAAGEVRAM(Oxidation (M))_ EAAGEVRAM(1) EAAGEVRAM(46) 0 0 1 ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.2261962890625 2 475.224017 948.43348 NaN NaN NaN NaN NaN NaN NaN 17.153 1 17.814 17.314 18.314 0.66072 0 0 0 0.078562 1 7736 7736 45.7 13.394 1 4048 6521 2704 2712 4527 4527 84 -0.04279926256356248 EAAGEVRAM 9 Unmodified _EAAGEVRAM_ 0 0 0 ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.2281799316406 2 467.226559 932.438566 2.8896 0.0013501 -0.28838 -0.00013474 2.6012 0.0012154 467.22674812462617 19.817 0.32384 19.817 19.67 19.993 0 92 24 5 0 0 0 2.5075E-05 3 8859 8804;8859;8906 142.08 45.795 1 86286000 4049 6521 2704 2713 4528;4529;4530 4529 -0.030356223937360483 EAAGEVRAM 9 Unmodified _EAAGEVRAM_ 0 0 0 ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 933.4483642578125 1 933.445842 932.438566 3.815 0.0035611 -0.077097 -7.1965E-05 3.7379 0.0034892 933.4455319839645 19.817 0.16949 19.817 19.729 19.898 0 18 11 2 0 0 0 0.001383 1 8840 8840 114.2 39.273 1 1128100 4050 6521 2704 2713 4531 4531 -0.030356223937360483 EAAGEVRAM 9 Unmodified _EAAGEVRAM_ 0 0 0 ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 467.22723388671875 2 467.226559 932.438566 2.4991 0.0011676 -0.5244 -0.00024502 1.9747 0.00092262 467.22644618225183 19.066 0.12882 19.28 19.212 19.341 0.21445 67 32 3 0 0 0 2.5075E-05 2 8478 8478;8512 142.08 45.795 1 103570000 4051 6521 2704 2713 4532;4533 4532 -0.030356223937360483 EAAGEVRAM 9 Unmodified _EAAGEVRAM_ 0 0 0 ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 467.2283020019531 2 467.226559 932.438566 2.6039 0.0012166 0.17287 8.0772E-05 2.7768 0.0012974 467.22708136619383 19.424 0.47351 19.721 19.578 20.052 0.29753 132 40 6 0 0 0 0.00097604 4 8824 8777;8824;8869;8918 126.57 44.953 1 136440000 4052 6521 2704 2713 4534;4535;4536;4537 4535 -0.030356223937360483 EAAGEVRAM 9 Unmodified _EAAGEVRAM_ 0 0 0 ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 933.4509887695312 1 933.445842 932.438566 3.613 0.0033725 -0.056032 -5.2303E-05 3.5569 0.0033202 933.4463142553559 19.424 0.1691 19.721 19.628 19.797 0.29753 36 14 3 0 0 0 0.0013355 2 8812 8812;8856 117.76 48.656 1 1845200 4053 6521 2704 2713 4538;4539 4538 -0.030356223937360483 EAAGEVRAM 9 Unmodified _EAAGEVRAM_ 0 0 0 ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.2281799316406 2 467.226559 932.438566 2.981 0.0013928 -0.36048 -0.00016843 2.6205 0.0012244 467.2268146078921 19.044 0.39632 19.702 19.538 19.934 0.65829 124 31 5 0 0 0 0.00097604 3 8626 8581;8626;8678 126.57 44.953 1 129990000 4054 6521 2704 2713 4540;4541;4542 4541 -0.030356223937360483 EAAGEVRAM 9 Unmodified _EAAGEVRAM_ 0 0 0 ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF ENST00000256015.4_1_12:92539535-92539610:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 933.45068359375 1 933.445842 932.438566 3.9779 0.0037132 -0.51058 -0.0004766 3.4674 0.0032366 933.4459864017629 19.038 0.20209 19.696 19.601 19.803 0.65829 40 17 3 0 0 0 3.9104E-05 2 8656 8614;8656 137.42 58.696 1 1897000 4055 6521 2704 2713 4543;4544 4544 -0.030356223937360483 EAAIRSVEL 9 Unmodified _EAAIRSVEL_ 0 0 0 ENST00000399000.7_1_21:38597847-38603826:-|nuORF;ENST00000497493.1_1_21:38599661-38600668:-|nuORF;nc|ENSG00000157538|O14972-2|VPS26C;ENSG00000157538|ENST00000309117|VPS26C ENST00000399000.7_1_21:38597847-38603826:-|nuORF ENST00000399000.7_1_21:38597847-38603826:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.2782287597656 2 494.277106 986.53966 3.105 0.0015347 1.0619 0.00052487 4.1669 0.0020596 494.27679390090873 43.634 0.30655 43.904 43.676 43.983 0.2694 25 9 3 0 0 0 0.001383 2 19903 19903;19963 114.2 48.967 1 1212600 4056 3954 2705 2714 4545;4546 4545 0.04585152580614249 EAAIRSVEL 9 Unmodified _EAAIRSVEL_ 0 0 0 ENST00000399000.7_1_21:38597847-38603826:-|nuORF;ENST00000497493.1_1_21:38599661-38600668:-|nuORF;nc|ENSG00000157538|O14972-2|VPS26C;ENSG00000157538|ENST00000309117|VPS26C ENST00000399000.7_1_21:38597847-38603826:-|nuORF ENST00000399000.7_1_21:38597847-38603826:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.2786865234375 2 494.277106 986.53966 NaN NaN NaN NaN NaN NaN NaN 43.016 1 43.665 43.165 44.165 0.64872 0 0 0 0.0064866 1 19711 19711 89.401 30.722 1 4057 3954 2705 2714 4547 4547 0.04585152580614249 EAAIRSVEL 9 Unmodified _EAAIRSVEL_ 0 0 0 ENST00000399000.7_1_21:38597847-38603826:-|nuORF;ENST00000497493.1_1_21:38599661-38600668:-|nuORF;nc|ENSG00000157538|O14972-2|VPS26C;ENSG00000157538|ENST00000309117|VPS26C ENST00000399000.7_1_21:38597847-38603826:-|nuORF ENST00000399000.7_1_21:38597847-38603826:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.279052734375 2 494.277106 986.53966 NaN NaN NaN NaN NaN NaN NaN 43.051 1 43.699 43.199 44.199 0.64872 0 0 0 2.4295E-06 1 19727 19727 114.2 48.967 1 4058 3954 2705 2714 4548 4548 0.04585152580614249 EAANKVVL 8 Unmodified _EAANKVVL_ 0 0 0 ENSG00000169019|ENST00000381571|COMMD8 ENSG00000169019|ENST00000381571|COMMD8 ENSG00000169019|ENST00000381571|COMMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.25189208984375 2 422.25036 842.486168 2.8301 0.001195 0.45014 0.00019007 3.2802 0.0013851 422.25058386493777 28.437 0.25183 28.697 28.522 28.774 0.2602 25 14 2 0 0 0 0.42655 1 12951 12951 26.341 0 1 373710 4059 4665 2706 2715 4549 4549 0.05862399868760804 EAANKVVL 8 Unmodified _EAANKVVL_ 0 0 0 ENSG00000169019|ENST00000381571|COMMD8 ENSG00000169019|ENST00000381571|COMMD8 ENSG00000169019|ENST00000381571|COMMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.2516174316406 2 422.25036 842.486168 2.944 0.0012431 0.26187 0.00011058 3.2059 0.0013537 422.2504591992251 27.989 0.2075 28.608 28.538 28.745 0.61947 23 12 2 0 0 0 0.57761 1 12823 12823 15.768 0 1 353050 4060 4665 2706 2715 4550 4550 0.05862399868760804 EAAQKNMAL 9 Unmodified _EAAQKNMAL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 488.2508544921875 2 488.250034 974.485516 2.7418 0.0013387 -0.35731 -0.00017446 2.3845 0.0011642 488.2498409361168 22.401 0.21886 22.988 22.885 23.104 0.58739 70 46 3 0 0 0 0.00143 2 9969 9931;9969 110.67 48.102 1 5823700 4061 1207 2707 2716 4551;4552 4552 -0.0027476284260501416 EAAQKNMAL 9 Unmodified _EAAQKNMAL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.2518310546875 2 488.250034 974.485516 3.1294 0.001528 -0.54556 -0.00026637 2.5839 0.0012616 488.2498218024087 22.926 0.21194 23.201 23.132 23.344 0.27562 74 41 2 0 0 0 2.5075E-05 2 10325 10325;10369 142.08 53.126 1 15462000 4062 1207 2707 2716 4553;4554 4553 -0.0027476284260501416 EAAQKNMAL 9 Unmodified _EAAQKNMAL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.2514343261719 2 488.250034 974.485516 3.2064 0.0015655 -0.70179 -0.00034265 2.5046 0.0012229 488.2499113017284 22.463 0.21747 23.103 23.011 23.229 0.64051 82 37 3 0 0 0 0.001377 2 10190 10190;10234 114.65 45.544 1 16123000 4063 1207 2707 2716 4555;4556 4555 -0.0027476284260501416 EAAQKNMAL 9 Oxidation (M) _EAAQKNM(Oxidation (M))AL_ EAAQKNM(1)AL EAAQKNM(89)AL 0 0 1 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.24920654296875 2 496.247492 990.48043 2.5102 0.0012457 0.24326 0.00012072 2.7534 0.0013664 496.2476792158519 12.645 0.11411 12.952 12.882 12.996 0.30727 11 3 4 0 0 0 0.0063542 1 5707 5707 88.954 7.0637 1 1734800 4064 1207 2707 2717 4557 4557 7 -0.015190667052138451 EAAQKNMAL 9 Oxidation (M) _EAAQKNM(Oxidation (M))AL_ EAAQKNM(1)AL EAAQKNM(89)AL 0 0 1 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.2499694824219 2 496.247492 990.48043 3.5294 0.0017515 0.47513 0.00023578 4.0045 0.0019872 496.24787700787346 12.571 0.12861 13.214 13.149 13.278 0.64272 7 3 3 0 0 0 0.0063542 1 5655 5655 88.954 19.849 1 1738000 4065 1207 2707 2717 4558 4558 7 -0.015190667052138451 EACCCCCG 8 Unmodified _EACCCCCG_ 0 0 0 nc|ENSG00000135272|Q9P1T7-1|MDFIC;ENSG00000135272|ENST00000393486|MDFIC;ENST00000431629.5_2_7:114654517-114655986:+|nuORF nc|ENSG00000135272|Q9P1T7-1|MDFIC nc|ENSG00000135272|Q9P1T7-1|MDFIC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 396.4248352050781 2 396.086105 790.157658 NaN NaN NaN NaN NaN NaN NaN 16.102 1 16.313 15.813 16.813 0.21108 0 0 0 0.99035 1 7109 7109 0 0 1 4066 9655 2708 2718 4559 4559 -0.24581483963413575 EACCCCCG 8 Unmodified _EACCCCCG_ 0 0 0 nc|ENSG00000135272|Q9P1T7-1|MDFIC;ENSG00000135272|ENST00000393486|MDFIC;ENST00000431629.5_2_7:114654517-114655986:+|nuORF nc|ENSG00000135272|Q9P1T7-1|MDFIC nc|ENSG00000135272|Q9P1T7-1|MDFIC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 396.0893859863281 2 396.086105 790.157658 NaN NaN NaN NaN NaN NaN NaN 10.985 1 11.292 10.792 11.792 0.30727 0 0 0 0.99035 1 4982 4982 0 0 1 4067 9655 2708 2718 4560 4560 -0.24581483963413575 EACCCCCGDEM 11 Unmodified _EACCCCCGDEM_ 0 0 0 nc|ENSG00000135272|Q9P1T7-1|MDFIC;ENSG00000135272|ENST00000393486|MDFIC;ENST00000431629.5_2_7:114654517-114655986:+|nuORF nc|ENSG00000135272|Q9P1T7-1|MDFIC nc|ENSG00000135272|Q9P1T7-1|MDFIC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.6708984375 2 583.641116 1165.26768 NaN NaN NaN NaN NaN NaN NaN 97.006 1 97.006 96.506 97.506 0 0 0 0 1.0082 1 52675 52675 0 0 1 4068 9655 2709 2719 4561 4561 -0.3083447147721472 EACDDGADD 9 Unmodified _EACDDGADD_ 0 0 0 ENST00000438671.3_1_3:45731844-45750997:+|nuORF;ENST00000463347.5_1_3:45730948-45748420:+|nuORF;ENST00000445499.2_1_3:45730957-45754662:+|nuORF;ENST00000463237.5_1_3:45730948-45754703:+|nuORF;ENSG00000211456|ENST00000389061|SACM1L ENST00000438671.3_1_3:45731844-45750997:+|nuORF ENST00000438671.3_1_3:45731844-45750997:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.09796142578125 3 304.095878 909.265806 NaN NaN NaN NaN NaN NaN NaN 59.722 1 60.472 59.972 60.972 0.74927 0 0 0 0.91356 1 27441 27441 0.23584 0.23584 1 4069 6079 2710 2720 4562 4562 -0.1924565831163818 EACGRQYTL 9 Carbamidomethyl (C) _EAC(Carbamidomethyl (C))GRQYTL_ EAC(1)GRQYTL EAC(48)GRQYTL 0 1 0 ENSG00000173801|ENST00000393931|JUP;ENST00000589036.1_1_17:39927815-39942960:-|nuORF ENSG00000173801|ENST00000393931|JUP ENSG00000173801|ENST00000393931|JUP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.2586669921875 2 549.255848 1096.49714 3.5125 0.0019293 1.0025 0.00055062 4.515 0.0024799 549.2563644710319 27.118 0.13799 27.383 27.277 27.415 0.26489 15 8 2 0 0 0 0.048676 1 12314 12314 47.749 29.614 1 201870 4070 4952 2711 2721 4563 4563 82 -0.04724565819265081 EACGRQYTL 9 Carbamidomethyl (C) _EAC(Carbamidomethyl (C))GRQYTL_ 0 1 0 ENSG00000173801|ENST00000393931|JUP;ENST00000589036.1_1_17:39927815-39942960:-|nuORF ENSG00000173801|ENST00000393931|JUP ENSG00000173801|ENST00000393931|JUP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 549.255848 1096.49714 3.4234 0.0018803 0.53861 0.00029584 3.962 0.0021761 549.2559502538908 26.734 0.16936 27.356 27.275 27.444 0.62179 -0.013701 -0.00032151 NaN 47.749 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 240830 4071 4952 2711 2721 82 -0.04724565819265081 EADFLGGMEC 10 Unmodified _EADFLGGMEC_ 0 0 0 ENSG00000196353|ENST00000429747|CPNE4;nc|ENSG00000196353|Q96A23-2|CPNE4 ENSG00000196353|ENST00000429747|CPNE4 ENSG00000196353|ENST00000429747|CPNE4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.7135620117188 2 536.209718 1070.40488 3.077 0.0016499 0.36557 0.00019602 3.4425 0.0018459 536.2099813128863 40.595 0.44406 40.595 40.341 40.785 0 41 23 2 0 0 0 0.66557 1 18397 18397 14.838 0.93222 1 5186200 4072 5737 2712 2722 4564 4564 -0.12750411947786233 EADPFLHRL 9 Unmodified _EADPFLHRL_ 0 0 0 ENSG00000157782|ENST00000316803|CABP1 ENSG00000157782|ENST00000316803|CABP1 ENSG00000157782|ENST00000316803|CABP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.2391052246094 3 366.529458 1096.56654 2.3001 0.00084304 -0.42706 -0.00015653 1.873 0.00068651 366.52923710651544 44.289 0.21702 45.11 45.029 45.246 0.82075 17 11 2 0 0 0 0.11316 1 20205 20205 2.2828 0.3764 1 276950 4073 3962 2713 2723 4565 4565 0.022122611917893664 EAEDGSSYE 9 Unmodified _EAEDGSSYE_ 0 0 0 REV__ENST00000493579.1_1_3:180041073-180041484:+|nuORF REV__ENST00000493579.1_1_3:180041073-180041484:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.6846008300781 2 493.682901 985.35125 3.33 0.001644 -0.7109 -0.00035096 2.6191 0.001293 493.68214408121435 19.051 0.22694 19.709 19.587 19.814 0.65829 50 19 3 0 0 0 0.98132 1 8616 8616 4.3292 1.7518 1 1989100 + 4074 16817 2714 2724 4566 4566 -0.14201169854311502 EAEESSYGD 9 Unmodified _EAEESSYGD_ 0 0 0 REV__ENST00000472077.1_1_2:27604468-27607956:-|nuORF REV__ENST00000472077.1_1_2:27604468-27607956:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 493.68426513671875 2 493.682901 985.35125 3.1639 0.001562 -0.72002 -0.00035546 2.4439 0.0012065 493.6823151094269 19.815 0.18013 19.815 19.729 19.909 0 31 12 3 0 0 0 0.98132 1 8833 8833 4.3292 0 1 1037300 + 4075 11349 2715 2725 4567 4567 -0.1420116985432287 EAENERLRRL 10 Unmodified _EAENERLRRL_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 429.2389831542969 3 429.237225 1284.68985 3.1459 0.0013503 1.2181 0.00052284 4.364 0.0018732 429.2379299978052 13.494 0.26718 14.138 14.025 14.293 0.64429 54 18 4 0 0 0 0.20966 1 6068 6068 27.088 4.3134 1 698110 4076 5155 2716 2726 4568 4568 0.05888892572284021 EAEWYFEQDRW 11 Unmodified _EAEWYFEQDRW_ 0 0 0 REV__NDOR1|p.D492E|1|0.39|ENSG00000188566|chr9:137215939-137215939|C/A|missense_variant REV__NDOR1|p.D492E|1|0.39|ENSG00000188566|chr9:137215939-137215939|C/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 779.3826293945312 2 779.833505 1557.65246 NaN NaN NaN NaN NaN NaN NaN 83.22 1 83.22 82.72 83.72 0 0 0 0 1.008 1 41871 41871 0.35063 0 1 + 4077 18185 2717 2727 4569 4569 -0.10406243484021616 EAFLEAEELE 10 Unmodified _EAFLEAEELE_ 0 0 0 REV__ENSG00000103335|ENST00000301015|PIEZO1 REV__ENSG00000103335|ENST00000301015|PIEZO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.2756958007812 2 590.274426 1178.5343 3.5681 0.0021061 -0.68768 -0.00040592 2.8804 0.0017002 590.2744317229069 21.637 0.21699 21.637 21.528 21.745 0 28 21 2 0 0 0 0.90859 1 9685 9685 3.2813 0 1 163130 + 4078 10965 2718 2728 4570 4570 -0.04782615792555589 EAFLRHKM 8 Unmodified _EAFLRHKM_ 0 0 0 KDM4A|p.S1016Gfs*8|1|0.03|ENSG00000066135|chr1:43704103-43704104|-/GGAAGGAG|frameshift_variant;ENSG00000066135|ENST00000372396|KDM4A KDM4A|p.S1016Gfs*8|1|0.03|ENSG00000066135|chr1:43704103-43704104|-/GGAAGGAG|frameshift_variant KDM4A|p.S1016Gfs*8|1|0.03|ENSG00000066135|chr1:43704103-43704104|-/GGAAGGAG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.5206604003906 3 344.520016 1030.53822 2.2617 0.00077921 0.36623 0.00012617 2.6279 0.00090538 344.5201449921635 14.575 0.23635 14.882 14.752 14.988 0.3069 51 17 4 0 0 0 0.18676 2 6579 6579;6620 36.127 24.487 1 1012200 4079 700 2719 2729 4571;4572 4571 0.024172400108682268 EAFLRHKM 8 Unmodified _EAFLRHKM_ 0 0 0 KDM4A|p.S1016Gfs*8|1|0.03|ENSG00000066135|chr1:43704103-43704104|-/GGAAGGAG|frameshift_variant;ENSG00000066135|ENST00000372396|KDM4A KDM4A|p.S1016Gfs*8|1|0.03|ENSG00000066135|chr1:43704103-43704104|-/GGAAGGAG|frameshift_variant KDM4A|p.S1016Gfs*8|1|0.03|ENSG00000066135|chr1:43704103-43704104|-/GGAAGGAG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 344.52093505859375 3 344.520016 1030.53822 2.4709 0.00085128 0.60114 0.00020711 3.072 0.0010584 344.52018460089533 14.567 0.19702 15.215 15.12 15.317 0.64819 50 22 3 0 0 0 0.26384 1 6555 6555 37.974 17.52 1 1368200 4080 700 2719 2729 4573 4573 0.024172400108682268 EAFPHDSQL 9 Unmodified _EAFPHDSQL_ 0 0 0 ENSG00000071894|ENST00000616140|CPSF1 ENSG00000071894|ENST00000616140|CPSF1 ENSG00000071894|ENST00000616140|CPSF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.6695556640625 2 522.243264 1042.47197 NaN NaN NaN NaN NaN NaN NaN 36.493 1 36.493 35.993 36.993 0 0 0 0 0.62812 1 16563 16563 14.838 0.93222 1 4081 782 2720 2730 4574 4574 -0.04756297350195382 EAFRKRMM 8 Unmodified _EAFRKRMM_ 0 0 0 ENST00000592188.1_1_19:19387459-19391209:-|nuORF;ENST00000589144.5_1_19:19387459-19413207:-|nuORF;ENST00000588731.6_1_19:19387459-19414804:-|nuORF;ENSG00000105705|ENST00000247001|SUGP1 ENST00000592188.1_1_19:19387459-19391209:-|nuORF ENST00000592188.1_1_19:19387459-19391209:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.2215576171875 3 356.85289 1067.53684 1.8807 0.00067115 0.91715 0.00032729 2.7979 0.00099843 356.85322190404094 12.679 0.11395 12.987 12.909 13.023 0.30727 5 3 2 0 0 0 0.085778 1 5719 5719 31.268 21.885 1 258600 4082 1524 2721 2731 4575 4575 0.005772826504653494 EAFTRANHL 9 Unmodified _EAFTRANHL_ 0 0 0 nc|ENSG00000198959|P21980-2|TGM2;ENST00000468262.5_1_20:36766485-36793648:-|nuORF;ENSG00000198959|ENST00000361475|TGM2 nc|ENSG00000198959|P21980-2|TGM2 nc|ENSG00000198959|P21980-2|TGM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.774658203125 2 529.772522 1057.53049 3.4269 0.0018155 1.1763 0.00062319 4.6032 0.0024387 529.7730449334193 20.153 0.25241 20.806 20.702 20.954 0.65346 35 20 2 0 0 0 0.41574 2 9132 9132;9181 13.906 3.8321 1 116290 4083 5968 2722 2732 4576;4577 4576 0.0040280401492509554 EAFVREVL 8 Unmodified _EAFVREVL_ 0 0 0 ENST00000442885.2_1_11:65654989-65655220:-|nuORF;ENST00000528937.1_1_11:65654989-65655958:-|nuORF;ENST00000532679.5_1_11:65653270-65655931:-|nuORF;ENSG00000172500|ENST00000357519|FIBP;nc|ENSG00000172500|O43427|FIBP ENST00000442885.2_1_11:65654989-65655220:-|nuORF ENST00000442885.2_1_11:65654989-65655220:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.7709655761719 2 481.768917 961.523281 3.1055 0.0014961 0.47326 0.000228 3.5788 0.0017241 481.76924424272164 52.574 0.19246 52.838 52.756 52.948 0.26345 12 6 3 0 0 0 0.059272 1 24041 24041 62.573 11.718 1 675010 4084 4875 2723 2733 4578 4578 0.04098071414523474 EAFVRHIL 8 Unmodified _EAFVRHIL_ 0 0 0 ENSG00000092841|ENST00000550697|MYL6;ENST00000412707.1_1_17:69617202-69617574:+|nuORF ENSG00000092841|ENST00000550697|MYL6 ENSG00000092841|ENST00000550697|MYL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.7867431640625 2 492.784902 983.55525 3.0977 0.0015265 -0.25451 -0.00012542 2.8432 0.0014011 492.7847052032538 40.815 0.2986 40.815 40.669 40.968 0 49 17 4 0 0 0 0.0063663 2 18494 18494;18546 147.83 87.442 1 12021000 4085 1102 2724 2734 4579;4580 4579 0.06281483888335515 EAFVRHIL 8 Unmodified _EAFVRHIL_ 0 0 0 ENSG00000092841|ENST00000550697|MYL6;ENST00000412707.1_1_17:69617202-69617574:+|nuORF ENSG00000092841|ENST00000550697|MYL6 ENSG00000092841|ENST00000550697|MYL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.8595886230469 3 328.859027 983.55525 2.2376 0.00073586 -0.28675 -9.4302E-05 1.9509 0.00064156 328.8590565549027 40.814 0.30914 40.814 40.669 40.978 0 46 18 4 0 0 0 0.062889 1 18529 18529 61.357 34.474 1 9569100 4086 1102 2724 2734 4581 4581 0.06281483888335515 EAFVRHIL 8 Unmodified _EAFVRHIL_ 0 0 0 ENSG00000092841|ENST00000550697|MYL6;ENST00000412707.1_1_17:69617202-69617574:+|nuORF ENSG00000092841|ENST00000550697|MYL6 ENSG00000092841|ENST00000550697|MYL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.7854919433594 2 492.784902 983.55525 3.1433 0.001549 -0.17405 -8.5769E-05 2.9693 0.0014632 492.7847996666719 39.906 0.3578 40.706 40.531 40.889 0.80014 52 19 4 0 0 0 0.0063663 2 18031 18031;18085 147.83 96.976 1 7523700 4087 1102 2724 2734 4582;4583 4582 0.06281483888335515 EAFVRHIL 8 Unmodified _EAFVRHIL_ 0 0 0 ENSG00000092841|ENST00000550697|MYL6;ENST00000412707.1_1_17:69617202-69617574:+|nuORF ENSG00000092841|ENST00000550697|MYL6 ENSG00000092841|ENST00000550697|MYL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.8600769042969 3 328.859027 983.55525 2.2852 0.00075152 -0.56784 -0.00018674 1.7174 0.00056478 328.8589940996565 39.909 0.32961 40.709 40.531 40.861 0.80014 48 16 4 0 0 0 0.17174 1 18043 18043 46.021 19.137 1 6681100 4088 1102 2724 2734 4584 4584 0.06281483888335515 EAFVRHIL 8 Unmodified _EAFVRHIL_ 0 0 0 ENSG00000092841|ENST00000550697|MYL6;ENST00000412707.1_1_17:69617202-69617574:+|nuORF ENSG00000092841|ENST00000550697|MYL6 ENSG00000092841|ENST00000550697|MYL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.7865295410156 2 492.784902 983.55525 3.3544 0.001653 -0.42497 -0.00020942 2.9295 0.0014436 492.7846682825001 40.55 0.37557 40.819 40.644 41.02 0.26904 48 16 4 0 0 0 0.00010996 4 18476 18419;18476;18524;18535 171.47 104.12 1 23640000 4089 1102 2724 2734 4585;4586;4587;4588 4586 0.06281483888335515 EAFVRHIL 8 Unmodified _EAFVRHIL_ 0 0 0 ENSG00000092841|ENST00000550697|MYL6;ENST00000412707.1_1_17:69617202-69617574:+|nuORF ENSG00000092841|ENST00000550697|MYL6 ENSG00000092841|ENST00000550697|MYL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.8601379394531 3 328.859027 983.55525 2.5481 0.00083797 -0.13696 -4.504E-05 2.4112 0.00079293 328.8590396527254 40.55 0.36157 40.819 40.644 41.006 0.26904 47 15 4 0 0 0 0.033113 2 18431 18431;18492 74.929 36.955 1 18800000 4090 1102 2724 2734 4589;4590 4589 0.06281483888335515 EAFVRHIL 8 Unmodified _EAFVRHIL_ 0 0 0 ENSG00000092841|ENST00000550697|MYL6;ENST00000412707.1_1_17:69617202-69617574:+|nuORF ENSG00000092841|ENST00000550697|MYL6 ENSG00000092841|ENST00000550697|MYL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.78662109375 2 492.784902 983.55525 3.4568 0.0017035 -0.22007 -0.00010845 3.2367 0.001595 492.78480381561576 40.08 0.27788 40.721 40.548 40.826 0.64136 28 9 4 0 0 0 0.00010996 2 18284 18284;18345 171.47 114 1 21728000 4091 1102 2724 2734 4591;4592 4591 0.06281483888335515 EAFVRHIL 8 Unmodified _EAFVRHIL_ 0 0 0 ENSG00000092841|ENST00000550697|MYL6;ENST00000412707.1_1_17:69617202-69617574:+|nuORF ENSG00000092841|ENST00000550697|MYL6 ENSG00000092841|ENST00000550697|MYL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.8597106933594 3 328.859027 983.55525 2.4981 0.00082152 -0.20416 -6.7141E-05 2.2939 0.00075437 328.8590349133136 40.087 0.25665 40.728 40.569 40.826 0.64135 26 8 4 0 0 0 0.033113 1 18318 18318 74.929 36.955 1 13183000 4092 1102 2724 2734 4593 4593 0.06281483888335515 EAGDEFEL 8 Unmodified _EAGDEFEL_ 0 0 0 nc|ENSG00000171552|Q07817-2|BCL2L1;nc|ENSG00000171552|Q07817-3|BCL2L1;ENSG00000171552|ENST00000307677|BCL2L1 nc|ENSG00000171552|Q07817-2|BCL2L1 nc|ENSG00000171552|Q07817-2|BCL2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 909.3868408203125 1 909.383619 908.376342 3.4847 0.0031689 -0.33921 -0.00030847 3.1455 0.0028604 909.3832628148668 61.236 0.30642 61.236 61.087 61.393 0 41 29 2 0 0 0 0.077224 4 28516 28504;28516;28550;28612 56.541 2.9657 1 2039900 4093 4813 2725 2735 4594;4595;4596;4597 4595 -0.08151070261089899 EAGDEFEL 8 Unmodified _EAGDEFEL_ 0 0 0 nc|ENSG00000171552|Q07817-2|BCL2L1;nc|ENSG00000171552|Q07817-3|BCL2L1;ENSG00000171552|ENST00000307677|BCL2L1 nc|ENSG00000171552|Q07817-2|BCL2L1 nc|ENSG00000171552|Q07817-2|BCL2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 909.387451171875 1 909.383619 908.376342 3.8986 0.0035453 0.033578 3.0535E-05 3.9322 0.0035758 909.3833572392523 61.012 0.40311 61.268 61.059 61.463 0.25578 32 17 3 0 0 0 0.077224 2 27961 27907;27961 56.541 12.134 1 1250300 4094 4813 2725 2735 4598;4599 4599 -0.08151070261089899 EAGDEFEL 8 Unmodified _EAGDEFEL_ 0 0 0 nc|ENSG00000171552|Q07817-2|BCL2L1;nc|ENSG00000171552|Q07817-3|BCL2L1;ENSG00000171552|ENST00000307677|BCL2L1 nc|ENSG00000171552|Q07817-2|BCL2L1 nc|ENSG00000171552|Q07817-2|BCL2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 909.3863525390625 1 909.383619 908.376342 3.9149 0.0035601 -0.15037 -0.00013675 3.7645 0.0034234 909.3834994743636 60.441 0.42368 61.103 60.872 61.295 0.66261 40 20 3 0 0 0 0.077224 3 27663 27616;27663;27707 56.541 12.134 1 1775900 4095 4813 2725 2735 4600;4601;4602 4601 -0.08151070261089899 EAGPDFEL 8 Unmodified _EAGPDFEL_ 0 0 0 nc|ENSG00000114993|Q9BST9-3|RTKN;nc|ENSG00000114993|Q9BST9-2|RTKN;ENSG00000114993|ENST00000272430|RTKN nc|ENSG00000114993|Q9BST9-3|RTKN nc|ENSG00000114993|Q9BST9-3|RTKN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 877.3994750976562 1 877.39379 876.386513 3.2338 0.0028373 -0.68039 -0.00059697 2.5534 0.0022403 877.3933126943493 64.781 0.12312 64.781 64.677 64.8 0 23 16 2 0 0 0 0.025999 1 30719 30719 81.864 34.943 1 9210400 4096 1935 2726 2736 4603 4603 -0.056624625358494995 EAGPDFEL 8 Unmodified _EAGPDFEL_ 0 0 0 nc|ENSG00000114993|Q9BST9-3|RTKN;nc|ENSG00000114993|Q9BST9-2|RTKN;ENSG00000114993|ENST00000272430|RTKN nc|ENSG00000114993|Q9BST9-3|RTKN nc|ENSG00000114993|Q9BST9-3|RTKN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 877.396728515625 1 877.39379 876.386513 3.854 0.0033815 -0.45238 -0.00039692 3.4016 0.0029845 877.3936120557443 64.508 0.30635 64.756 64.543 64.85 0.24802 45 31 2 0 0 0 0.017856 2 29541 29490;29541 89.427 42.506 1 6478900 4097 1935 2726 2736 4604;4605 4605 -0.056624625358494995 EAGPDFEL 8 Unmodified _EAGPDFEL_ 0 0 0 nc|ENSG00000114993|Q9BST9-3|RTKN;nc|ENSG00000114993|Q9BST9-2|RTKN;ENSG00000114993|ENST00000272430|RTKN nc|ENSG00000114993|Q9BST9-3|RTKN nc|ENSG00000114993|Q9BST9-3|RTKN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 877.3970336914062 1 877.39379 876.386513 3.9843 0.0034958 0.038325 3.3626E-05 4.0226 0.0035294 877.3936613038092 63.985 0.33128 64.642 64.404 64.735 0.65672 59 24 3 0 0 0 0.0090555 3 29326 29243;29285;29326 109.63 62.708 1 4760100 4098 1935 2726 2736 4606;4607;4608 4608 -0.056624625358494995 EAHAKVRL 8 Unmodified _EAHAKVRL_ 0 0 0 ENSG00000104738|ENST00000649973|MCM4 ENSG00000104738|ENST00000649973|MCM4 ENSG00000104738|ENST00000649973|MCM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 308.51922607421875 3 308.518893 922.534849 NaN NaN NaN NaN NaN NaN NaN 12.368 1 12.63 12.13 13.13 0.26154 0 0 0 0.37748 1 5335 5335 32.305 10.559 1 4099 1447 2727 2737 4609 4609 0.07048313228528968 EAHAKVRL 8 Unmodified _EAHAKVRL_ 0 0 0 ENSG00000104738|ENST00000649973|MCM4 ENSG00000104738|ENST00000649973|MCM4 ENSG00000104738|ENST00000649973|MCM4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 308.51953125 3 308.518893 922.534849 1.421 0.00043839 -0.91823 -0.00028329 0.50272 0.0001551 308.51904932191735 12.349 0.038334 12.656 12.634 12.672 0.30727 7 4 2 0 0 0 0.070862 1 5554 5554 58.679 28.042 1 7419500 4100 1447 2727 2737 4610 4610 0.07048313228528968 EAHAKVRL 8 Unmodified _EAHAKVRL_ 0 0 0 ENSG00000104738|ENST00000649973|MCM4 ENSG00000104738|ENST00000649973|MCM4 ENSG00000104738|ENST00000649973|MCM4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 308.518893 922.534849 1.7263 0.00053261 -0.35152 -0.00010845 1.3748 0.00042416 308.51868242257945 12.353 0.018064 12.614 12.599 12.618 0.26154 -0.13569 6.9051E-05 NaN 58.679 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 3996400 4101 1447 2727 2737 0.07048313228528968 EAHAKVRL 8 Unmodified _EAHAKVRL_ 0 0 0 ENSG00000104738|ENST00000649973|MCM4 ENSG00000104738|ENST00000649973|MCM4 ENSG00000104738|ENST00000649973|MCM4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 308.518893 922.534849 2.5104 0.00077452 -0.49504 -0.00015273 2.0154 0.00062179 308.5189204869599 12.342 0.037963 12.979 12.951 12.989 0.63746 0.22961 -6.3786E-05 NaN 58.679 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 5252500 4102 1447 2727 2737 0.07048313228528968 EAHLELNAF 9 Unmodified _EAHLELNAF_ 0 0 0 nc|ENSG00000166377|O43861-2|ATP9B;ENSG00000166377|ENST00000426216|ATP9B;nc|ENSG00000054793|O75110-2|ATP9A;ENSG00000054793|ENST00000338821|ATP9A nc|ENSG00000166377|O43861-2|ATP9B nc|ENSG00000166377|O43861-2|ATP9B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.2637939453125 2 522.261456 1042.50836 3.4057 0.0017787 1.3545 0.0007074 4.7602 0.0024861 522.2618814826558 57.488 0.25446 58.157 58.041 58.296 0.66829 25 15 2 0 0 0 0.0044949 1 26312 26312 92.822 52.865 1 943240 4103 4478 2728 2738 4611 4611 -0.011194204534831442 EAHLELNAF 9 Unmodified _EAHLELNAF_ 0 0 0 nc|ENSG00000166377|O43861-2|ATP9B;ENSG00000166377|ENST00000426216|ATP9B;nc|ENSG00000054793|O75110-2|ATP9A;ENSG00000054793|ENST00000338821|ATP9A nc|ENSG00000166377|O43861-2|ATP9B nc|ENSG00000166377|O43861-2|ATP9B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 522.261456 1042.50836 3.116 0.0016274 -0.45723 -0.00023879 2.6588 0.0013886 522.2610338964533 57.328 0.13284 58.096 57.974 58.106 0.76861 -0.11815 -0.0011463 NaN 92.822 23 14 2 NaN NaN NaN NaN 0 NaN NaN 0 1649700 4104 4478 2728 2738 -0.011194204534831442 EAHLELNAF 9 Unmodified _EAHLELNAF_ 0 0 0 nc|ENSG00000166377|O43861-2|ATP9B;ENSG00000166377|ENST00000426216|ATP9B;nc|ENSG00000054793|O75110-2|ATP9A;ENSG00000054793|ENST00000338821|ATP9A nc|ENSG00000166377|O43861-2|ATP9B nc|ENSG00000166377|O43861-2|ATP9B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 522.261456 1042.50836 3.3373 0.001743 0.84435 0.00044097 4.1817 0.0021839 522.2615032831659 58.128 0.2016 58.39 58.213 58.414 0.26227 0.17592 0.00021323 NaN 92.822 22 10 3 NaN NaN NaN NaN 0 NaN NaN 0 944110 4105 4478 2728 2738 -0.011194204534831442 EAHLKTIL 8 Unmodified _EAHLKTIL_ 0 0 0 ENST00000528821.5_1_12:16109876-16185684:+|nuORF;ENSG00000023697|ENST00000428559|DERA ENST00000528821.5_1_12:16109876-16185684:+|nuORF ENST00000528821.5_1_12:16109876-16185684:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 462.7802429199219 2 462.779285 923.544017 NaN NaN NaN NaN NaN NaN NaN 33.385 1 33.385 32.885 33.885 0 0 0 0 0.21274 1 15130 15130 81.89 39.796 1 4106 470 2729 2739 4612 4612 0.0791866179419003 EAHLKTIL 8 Unmodified _EAHLKTIL_ 0 0 0 ENST00000528821.5_1_12:16109876-16185684:+|nuORF;ENSG00000023697|ENST00000428559|DERA ENST00000528821.5_1_12:16109876-16185684:+|nuORF ENST00000528821.5_1_12:16109876-16185684:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 462.78045654296875 2 462.779285 923.544017 2.596 0.0012014 0.44432 0.00020562 3.0404 0.001407 462.7794660015563 32.32 0.23963 33.108 32.986 33.226 0.78795 41 21 3 0 0 0 0.0092806 1 14619 14619 110.67 49.317 1 1206200 4107 470 2729 2739 4613 4613 0.0791866179419003 EAHLKTIL 8 Unmodified _EAHLKTIL_ 0 0 0 ENST00000528821.5_1_12:16109876-16185684:+|nuORF;ENSG00000023697|ENST00000428559|DERA ENST00000528821.5_1_12:16109876-16185684:+|nuORF ENST00000528821.5_1_12:16109876-16185684:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 308.85614013671875 3 308.855282 923.544017 2.3549 0.00072733 -0.042009 -1.2975E-05 2.3129 0.00071436 308.8553475659809 33.093 0.35561 33.347 33.121 33.476 0.25389 42 14 4 0 0 0 0.5584 1 15050 15050 17.113 2.2746 1 2007500 4108 470 2729 2739 4614 4614 0.0791866179419003 EAHLKTIL 8 Unmodified _EAHLKTIL_ 0 0 0 ENST00000528821.5_1_12:16109876-16185684:+|nuORF;ENSG00000023697|ENST00000428559|DERA ENST00000528821.5_1_12:16109876-16185684:+|nuORF ENST00000528821.5_1_12:16109876-16185684:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.7809753417969 2 462.779285 923.544017 2.8511 0.0013194 0.38827 0.00017968 3.2394 0.0014991 462.77946031613743 33.048 0.33231 33.302 33.144 33.476 0.25389 29 13 3 0 0 0 0.0092806 2 15052 15052;15117 122.18 51.046 1 1236600 4109 470 2729 2739 4615;4616 4615 0.0791866179419003 EAHLKTIL 8 Unmodified _EAHLKTIL_ 0 0 0 ENST00000528821.5_1_12:16109876-16185684:+|nuORF;ENSG00000023697|ENST00000428559|DERA ENST00000528821.5_1_12:16109876-16185684:+|nuORF ENST00000528821.5_1_12:16109876-16185684:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.8561706542969 3 308.855282 923.544017 2.0537 0.00063428 0.66006 0.00020386 2.7137 0.00083815 308.8555357263438 32.528 0.36701 33.147 32.961 33.328 0.61831 46 18 4 0 0 0 0.60101 1 14903 14903 13.906 2.2658 1 1590700 4110 470 2729 2739 4617 4617 0.0791866179419003 EAHLKTIL 8 Unmodified _EAHLKTIL_ 0 0 0 ENST00000528821.5_1_12:16109876-16185684:+|nuORF;ENSG00000023697|ENST00000428559|DERA ENST00000528821.5_1_12:16109876-16185684:+|nuORF ENST00000528821.5_1_12:16109876-16185684:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 462.7807922363281 2 462.779285 923.544017 2.7672 0.0012806 0.73682 0.00034099 3.504 0.0016216 462.77963370223284 32.527 0.31292 33.145 32.991 33.304 0.61832 39 15 4 0 0 0 0.0085274 2 14904 14904;14952 110.67 49.317 1 1371700 4111 470 2729 2739 4618;4619 4618 0.0791866179419003 EAIAELDTL 9 Unmodified _EAIAELDTL_ 0 0 0 ENSG00000134308|ENST00000238081|YWHAQ;ENST00000399764.3_1_9:34922183-34922564:-|nuORF;ENST00000445359.1_1_9:38643302-38643692:+|nuORF;ENST00000479421.5_2_20:43531717-43535076:+|nuORF;nc|ENSG00000164924|P63104-2|YWHAZ;ENST00000480304.5_1_8:101936173-101961117:-|nuORF;ENSG00000164924|ENST00000395958|YWHAZ;nc|ENSG00000166913|P31946-2|YWHAB;ENSG00000166913|ENST00000353703|YWHAB ENSG00000134308|ENST00000238081|YWHAQ;nc|ENSG00000166913|P31946-2|YWHAB ENSG00000134308|ENST00000238081|YWHAQ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.7579040527344 2 487.755672 973.496792 3.397 0.0016569 0.1396 6.8089E-05 3.5366 0.001725 487.75581098635956 68.291 0.25106 68.544 68.372 68.623 0.25227 28 15 2 0 0 0 0.026068 2 31259 31259;31309 60.39 15.983 1 603810 4112 2798;4515 2730 2740 4620;4621 4620 0.008983377325193942 EAIAELDTL 9 Unmodified _EAIAELDTL_ 0 0 0 ENSG00000134308|ENST00000238081|YWHAQ;ENST00000399764.3_1_9:34922183-34922564:-|nuORF;ENST00000445359.1_1_9:38643302-38643692:+|nuORF;ENST00000479421.5_2_20:43531717-43535076:+|nuORF;nc|ENSG00000164924|P63104-2|YWHAZ;ENST00000480304.5_1_8:101936173-101961117:-|nuORF;ENSG00000164924|ENST00000395958|YWHAZ;nc|ENSG00000166913|P31946-2|YWHAB;ENSG00000166913|ENST00000353703|YWHAB ENSG00000134308|ENST00000238081|YWHAQ;nc|ENSG00000166913|P31946-2|YWHAB ENSG00000134308|ENST00000238081|YWHAQ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.7574768066406 2 487.755672 973.496792 3.1312 0.0015273 0.45142 0.00022018 3.5826 0.0017475 487.7558542740005 67.792 0.37502 68.45 68.259 68.634 0.65777 28 21 2 0 0 0 0.041436 2 31068 31068;31099 50.855 14.811 1 530110 4113 2798;4515 2730 2740 4622;4623 4622 0.008983377325193942 EAIKQIEVL 9 Unmodified _EAIKQIEVL_ 0 0 0 nc|ENSG00000116786|Q8IWE5-2|PLEKHM2;ENSG00000116786|ENST00000375799|PLEKHM2 nc|ENSG00000116786|Q8IWE5-2|PLEKHM2 nc|ENSG00000116786|Q8IWE5-2|PLEKHM2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.282958984375 2 521.810782 1041.60701 3.3479 0.001747 -0.36886 -0.00019247 2.9791 0.0015545 521.8105547334075 53.118 0.27652 53.118 52.987 53.264 0 22 14 2 0 0 0 0.014377 1 24327 24327 34.402 3.7652 1 491040 4114 2051 2731 2741 4624 4624 0.08787182791570558 EAIKQIEVL 9 Unmodified _EAIKQIEVL_ 0 0 0 nc|ENSG00000116786|Q8IWE5-2|PLEKHM2;ENSG00000116786|ENST00000375799|PLEKHM2 nc|ENSG00000116786|Q8IWE5-2|PLEKHM2 nc|ENSG00000116786|Q8IWE5-2|PLEKHM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.8109741210938 2 521.810782 1041.60701 2.9484 0.0015385 0.069352 3.6189E-05 3.0177 0.0015747 521.8106509767135 52.081 0.23542 52.891 52.777 53.012 0.81066 22 14 2 0 0 0 0.043585 1 23745 23745 49.933 0 1 419600 4115 2051 2731 2741 4625 4625 0.08787182791570558 EAIKQIEVL 9 Unmodified _EAIKQIEVL_ 0 0 0 nc|ENSG00000116786|Q8IWE5-2|PLEKHM2;ENSG00000116786|ENST00000375799|PLEKHM2 nc|ENSG00000116786|Q8IWE5-2|PLEKHM2 nc|ENSG00000116786|Q8IWE5-2|PLEKHM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.812255859375 2 521.810782 1041.60701 3.4428 0.0017965 0.08902 4.6452E-05 3.5318 0.0018429 521.8108029040732 52.728 0.29361 52.991 52.824 53.118 0.26345 17 11 2 0 0 0 0.02812 1 24113 24113 57.722 3.8892 1 743520 4116 2051 2731 2741 4626 4626 0.08787182791570558 EAIPTILLA 9 Unmodified _EAIPTILLA_ 0 0 0 ENST00000524591.6_1_8:12878711-12878915:+|nuORF ENST00000524591.6_1_8:12878711-12878915:+|nuORF ENST00000524591.6_1_8:12878711-12878915:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 314.19720458984375 3 314.195304 939.564084 NaN NaN NaN NaN NaN NaN NaN 42.556 1 42.556 42.056 43.056 0 0 0 0 0.91014 1 19375 19375 1.0715 0 1 4117 8665 2732 2742 4627 4627 0.09188412734158646 EAIPTILLA 9 Unmodified _EAIPTILLA_ 0 0 0 ENST00000524591.6_1_8:12878711-12878915:+|nuORF ENST00000524591.6_1_8:12878711-12878915:+|nuORF ENST00000524591.6_1_8:12878711-12878915:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 314.1966552734375 3 314.195304 939.564084 NaN NaN NaN NaN NaN NaN NaN 41.88 1 42.689 42.189 43.189 0.80855 0 0 0 0.91014 1 19010 19010 1.0715 0 1 4118 8665 2732 2742 4628 4628 0.09188412734158646 EAISQTIDTI 10 Unmodified _EAISQTIDTI_ 0 0 0 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.7847900390625 2 545.784961 1089.55537 NaN NaN NaN NaN NaN NaN NaN 54.176 1 54.843 54.343 55.343 0.6665 0 0 0 0.041265 1 24780 24780 63.961 13.105 1 4119 3293 2733 2743 4629 4629 0.0141739430700909 EAKEKIYL 8 Unmodified _EAKEKIYL_ 0 0 0 nc|ENSG00000133706|Q9P2J5-2|LARS1;ENSG00000133706|ENST00000394434|LARS1;ENST00000508667.5_1_5:145522961-145531505:-|nuORF nc|ENSG00000133706|Q9P2J5-2|LARS1 nc|ENSG00000133706|Q9P2J5-2|LARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.2863464355469 2 497.2844 992.554247 3.1487 0.0015658 0.5589 0.00027793 3.7076 0.0018437 497.28464808563695 27.379 0.21629 27.642 27.53 27.746 0.26245 45 21 3 0 0 0 0.031168 2 12436 12436;12486 76.825 25.195 1 817780 4120 2768 2734 2744 4630;4631 4630 0.05767224728754172 EAKEKIYL 8 Unmodified _EAKEKIYL_ 0 0 0 nc|ENSG00000133706|Q9P2J5-2|LARS1;ENSG00000133706|ENST00000394434|LARS1;ENST00000508667.5_1_5:145522961-145531505:-|nuORF nc|ENSG00000133706|Q9P2J5-2|LARS1 nc|ENSG00000133706|Q9P2J5-2|LARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.2861328125 2 497.2844 992.554247 3.1065 0.0015448 0.65581 0.00032612 3.7623 0.0018709 497.2846686192951 26.971 0.24944 27.592 27.456 27.706 0.62179 42 19 3 0 0 0 0.035125 2 12346 12346;12388 72.968 20.7 1 804740 4121 2768 2734 2744 4632;4633 4632 0.05767224728754172 EAKERLMAL 9 Unmodified _EAKERLMAL_ 0 0 0 nc|ENSG00000123240|Q96CV9-3|OPTN;nc|ENSG00000123240|Q96CV9-2|OPTN;ENSG00000123240|ENST00000378747|OPTN nc|ENSG00000123240|Q96CV9-3|OPTN nc|ENSG00000123240|Q96CV9-3|OPTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.7970581054688 2 530.794609 1059.57467 3.1095 0.0016505 -0.16504 -8.7604E-05 2.9444 0.0015629 530.7948134521843 35.159 0.29727 35.414 35.297 35.594 0.25524 27 13 3 0 0 0 0.016529 2 16019 16019;16077 72.968 31.128 1 577560 4122 2302 2735 2745 4634;4635 4634 0.047260721169323006 EAKQRLQQL 9 Unmodified _EAKQRLQQL_ 0 0 0 ENSG00000196683|ENST00000358435|TOMM7;ENST00000496129.1_1_7:22857608-22862419:-|nuORF;ENST00000463284.2_1_7:22852718-22862419:-|nuORF ENSG00000196683|ENST00000358435|TOMM7 ENSG00000196683|ENST00000358435|TOMM7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.3248291015625 2 557.32238 1112.63021 3.5343 0.0019697 0.77792 0.00043355 4.3122 0.0024033 557.3233642951479 17.702 0.30729 17.702 17.579 17.886 0 41 20 3 0 0 0 0.0063542 1 7877 7877 88.954 23.719 1 485050 4123 5768 2736 2746 4636 4636 0.07839621628886562 EAKQRLQQL 9 Unmodified _EAKQRLQQL_ 0 0 0 ENSG00000196683|ENST00000358435|TOMM7;ENST00000496129.1_1_7:22857608-22862419:-|nuORF;ENST00000463284.2_1_7:22852718-22862419:-|nuORF ENSG00000196683|ENST00000358435|TOMM7 ENSG00000196683|ENST00000358435|TOMM7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.3242797851562 2 557.32238 1112.63021 3.3309 0.0018564 0.10584 5.8986E-05 3.4368 0.0019154 557.3224592920154 15.005 0.52653 15.312 15.072 15.599 0.3069 141 52 4 0 0 0 0.00097604 4 6807 6719;6762;6807;6850 126.57 51.637 1 739080 4124 5768 2736 2746 4637;4638;4639;4640 4639 0.07839621628886562 EAKQRLQQL 9 Unmodified _EAKQRLQQL_ 0 0 0 ENSG00000196683|ENST00000358435|TOMM7;ENST00000496129.1_1_7:22857608-22862419:-|nuORF;ENST00000463284.2_1_7:22852718-22862419:-|nuORF ENSG00000196683|ENST00000358435|TOMM7 ENSG00000196683|ENST00000358435|TOMM7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.3246459960938 2 557.32238 1112.63021 3.5913 0.0020015 0.38156 0.00021265 3.9729 0.0022142 557.3225958045616 15.008 0.52985 15.662 15.434 15.964 0.65356 147 49 4 0 0 0 1.7701E-14 4 6746 6695;6746;6794;6837 174.73 63.44 1 1781600 4125 5768 2736 2746 4641;4642;4643;4644 4642 0.07839621628886562 EAKRGLLL 8 Unmodified _EAKRGLLL_ 0 0 0 ENST00000489749.1_1_2:7018228-7023923:+|nuORF;ENSG00000134321|ENST00000382040|RSAD2 ENST00000489749.1_1_2:7018228-7023923:+|nuORF ENST00000489749.1_1_2:7018228-7023923:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.28875732421875 2 450.287277 898.560001 NaN NaN NaN NaN NaN NaN NaN 27.116 1 27.381 26.881 27.881 0.26489 0 0 0 0.82924 1 12323 12323 16.942 0 1 4126 8383 2737 2747 4645 4645 0.10666368031104412 EAKRHLLQV 9 Unmodified _EAKRHLLQV_ 0 0 0 ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.3298950195312 2 547.327465 1092.64038 3.3807 0.0018504 0.046982 2.5715E-05 3.4277 0.0018761 547.3275699141442 19.002 0.2116 19.299 19.22 19.431 0.29753 53 29 3 0 0 0 0.001731 3 8617 8605;8617;8664 106.94 40.483 1 6240000 4127 6101 2738 2748 4646;4647;4648 4647 0.0977622935411091 EAKRHLLQV 9 Unmodified _EAKRHLLQV_ 0 0 0 ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.2216491699219 3 365.220735 1092.64038 2.4623 0.0008993 0.38905 0.00014209 2.8514 0.0010414 365.2209812596958 18.998 0.30268 19.296 19.173 19.475 0.29753 115 43 4 0 0 0 0.053453 2 8662 8616;8662 35.612 12.837 1 25730000 4128 6101 2738 2748 4649;4650 4650 0.0977622935411091 EAKRHLLQV 9 Unmodified _EAKRHLLQV_ 0 0 0 ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.32958984375 2 547.327465 1092.64038 3.6202 0.0019814 0.026329 1.441E-05 3.6465 0.0019959 547.3275503301628 18.556 0.2145 19.217 19.138 19.353 0.66072 68 26 3 0 0 0 0.0013314 2 8438 8385;8438 118.07 60.346 1 7565600 4129 6101 2738 2748 4651;4652 4652 0.0977622935411091 EAKRHLLQV 9 Unmodified _EAKRHLLQV_ 0 0 0 ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.2217102050781 3 365.220735 1092.64038 2.6638 0.00097286 0.40409 0.00014758 3.0678 0.0011204 365.2209661793665 18.553 0.30088 19.214 19.089 19.39 0.66072 109 35 4 0 0 0 0.093314 1 8437 8437 26.021 2.2196 1 25441000 4130 6101 2738 2748 4653 4653 0.0977622935411091 EAKRKEFL 8 Unmodified _EAKRKEFL_ 0 0 0 nc|ENSG00000164402|Q92599-2|SEPTIN8;nc|ENSG00000164402|Q92599-4|SEPTIN8;ENSG00000164402|ENST00000378719|SEPTIN8;nc|ENSG00000164402|Q92599-3|SEPTIN8 nc|ENSG00000164402|Q92599-2|SEPTIN8 nc|ENSG00000164402|Q92599-2|SEPTIN8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.7972717285156 2 510.795466 1019.57638 3.5543 0.0018155 -0.26802 -0.0001369 3.2862 0.0016786 510.79536839831246 12.986 0.18528 13.629 13.514 13.699 0.64272 14 5 3 0 0 0 0.028325 1 5844 5844 79.596 33.575 1 1616600 4131 4311 2739 2749 4654 4654 0.06737449197191836 EAKRKKLISP 10 Unmodified _EAKRKKLISP_ 0 0 0 nc|ENSG00000096696|P15924-2|DSP;nc|ENSG00000096696|P15924-3|DSP;DSP|p.F2623Lfs*19|1|0.11|ENSG00000096696|chr6:7585130-7585131|-/GAATATCATAC|frameshift_variant;ENSG00000096696|ENST00000379802|DSP nc|ENSG00000096696|P15924-2|DSP nc|ENSG00000096696|P15924-2|DSP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 585.3773193359375 2 585.371872 1168.72919 NaN NaN NaN NaN NaN NaN NaN 32.498 1 32.753 32.253 33.253 0.25452 0 0 0 1.0001 1 14800 14800 3.2813 1.6287 1 4132 279 2740 2750 4655 4655 0.1515764459379625 EAKRRINFL 9 Unmodified _EAKRRINFL_ 0 0 0 nc|ENSG00000135336|Q9UBD5-3|ORC3;ENSG00000135336|ENST00000392844|ORC3;nc|ENSG00000135336|Q9UBD5-2|ORC3 nc|ENSG00000135336|Q9UBD5-3|ORC3 nc|ENSG00000135336|Q9UBD5-3|ORC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 382.8968200683594 3 382.896252 1145.66693 2.7565 0.0010554 0.38913 0.000149 3.1456 0.0012044 382.89652675569744 27.34 0.23955 27.602 27.506 27.746 0.26245 34 23 2 0 0 0 0.30982 1 12433 12433 16.149 2.5342 1 456370 4133 2865 2741 2751 4656 4656 0.09991918245464149 EAKRRINFL 9 Unmodified _EAKRRINFL_ 0 0 0 nc|ENSG00000135336|Q9UBD5-3|ORC3;ENSG00000135336|ENST00000392844|ORC3;nc|ENSG00000135336|Q9UBD5-2|ORC3 nc|ENSG00000135336|Q9UBD5-3|ORC3 nc|ENSG00000135336|Q9UBD5-3|ORC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.89703369140625 3 382.896252 1145.66693 2.643 0.001012 0.28303 0.00010837 2.9261 0.0011204 382.8964081048115 26.935 0.26131 27.557 27.429 27.69 0.62179 28 20 2 0 0 0 0.21008 1 12361 12361 22.736 8.8302 1 375220 4134 2865 2741 2751 4657 4657 0.09991918245464149 EAKRRINFL 9 Unmodified _EAKRRINFL_ 0 0 0 nc|ENSG00000135336|Q9UBD5-3|ORC3;ENSG00000135336|ENST00000392844|ORC3;nc|ENSG00000135336|Q9UBD5-2|ORC3 nc|ENSG00000135336|Q9UBD5-3|ORC3 nc|ENSG00000135336|Q9UBD5-3|ORC3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 382.896252 1145.66693 2.498 0.00095646 -0.48693 -0.00018644 2.011 0.00077002 382.89615283730524 26.686 0.13395 27.465 27.361 27.495 0.7787 -0.076662 -0.00077133 NaN 22.736 12 10 2 NaN NaN NaN NaN 0 NaN NaN 0 399150 4135 2865 2741 2751 0.09991918245464149 EALARNLL 8 Unmodified _EALARNLL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.27117919921875 2 450.269084 898.523616 3.39 0.0015264 -0.15013 -6.7598E-05 3.2398 0.0014588 450.26902243050176 46 0.2687 46.651 46.501 46.77 0.65104 12 7 2 0 0 0 0.12673 1 21070 21070 50.855 6.448 1 380610 4136 931 2742 2752 4658 4658 0.07029491134380805 EALERTEKL 9 Unmodified _EALERTEKL_ 0 0 0 nc|ENSG00000072110|P12814-2|ACTN1;nc|ENSG00000072110|P12814|ACTN1;ENSG00000072110|ENST00000394419|ACTN1;nc|ENSG00000072110|P12814-4|ACTN1 nc|ENSG00000072110|P12814-2|ACTN1 nc|ENSG00000072110|P12814-2|ACTN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.8037109375 2 544.800946 1087.58734 3.638 0.001982 0.65364 0.00035611 4.2916 0.0023381 544.8013137861997 19.259 0.18026 19.917 19.829 20.009 0.6583 18 12 2 0 0 0 0.031195 2 8735 8735;8746 59.368 19.419 1 281660 4137 785 2743 2753 4659;4660 4659 0.04704806780819126 EALERTEKL 9 Unmodified _EALERTEKL_ 0 0 0 nc|ENSG00000072110|P12814-2|ACTN1;nc|ENSG00000072110|P12814|ACTN1;ENSG00000072110|ENST00000394419|ACTN1;nc|ENSG00000072110|P12814-4|ACTN1 nc|ENSG00000072110|P12814-2|ACTN1 nc|ENSG00000072110|P12814-2|ACTN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 544.800946 1087.58734 3.3185 0.0018079 1.2473 0.00067956 4.5658 0.0024875 544.8015225761667 19.62 0.12578 19.912 19.861 19.987 0.29239 -0.0024093 0.00031242 NaN 59.368 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 161380 4138 785 2743 2753 0.04704806780819126 EALKKLIL 8 Unmodified _EALKKLIL_ 0 0 0 ENSG00000104738|ENST00000649973|MCM4 ENSG00000104738|ENST00000649973|MCM4 ENSG00000104738|ENST00000649973|MCM4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.3172302246094 2 464.315503 926.616454 2.9669 0.0013776 0.43216 0.00020066 3.3991 0.0015782 464.31573559317565 42.422 0.27679 43.069 42.914 43.191 0.64693 29 18 2 0 0 0 0.029809 2 19441 19389;19441 78.149 0 1 625520 4139 1447 2744 2754 4661;4662 4662 0.15020995867757847 EALLRYVL 8 Unmodified _EALLRYVL_ 0 0 0 SEC14L1|p.V598Kfs*16|1|0.31|ENSG00000129657|chr17:77212126-77212127|-/AA|frameshift_variant;SEC14L1|p.V620Efs*51|1|0.16|ENSG00000129657|chr17:77212192-77212193|-/TCTGAAAAAG|frameshift_variant;nc|ENSG00000129657|Q92503-3|SEC14L1;ENSG00000129657|ENST00000436233|SEC14L1;nc|ENSG00000129657|Q92503-2|SEC14L1;ENST00000534767.1_1_11:43919588-43920434:+|nuORF SEC14L1|p.V598Kfs*16|1|0.31|ENSG00000129657|chr17:77212126-77212127|-/AA|frameshift_variant SEC14L1|p.V598Kfs*16|1|0.31|ENSG00000129657|chr17:77212126-77212127|-/AA|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.7436828613281 2 488.794935 975.575317 3.1697 0.0015493 -0.72783 -0.00035576 2.4418 0.0011936 488.79473157802744 69.839 0.13592 70.096 70.044 70.18 0.25641 12 9 2 0 0 0 0.055392 1 31996 31996 46.021 17.534 1 248360 4140 2559 2745 2755 4663 4663 0.08655234828268021 EALNHHNL 8 Unmodified _EALNHHNL_ 0 0 0 ENST00000487676.1_1_6:32629660-32630092:-|nuORF;nc|ENSG00000232629|P05538-2|HLA-DQB2;nc|ENSG00000179344|P01920|HLA-DQB1;ENSG00000179344|ENST00000434651|HLA-DQB1;ENSG00000232629|ENST00000437316|HLA-DQB2;nc|ENSG00000232629|P05538|HLA-DQB2 ENST00000487676.1_1_6:32629660-32630092:-|nuORF ENST00000487676.1_1_6:32629660-32630092:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.2392883300781 2 474.238316 946.462078 2.3093 0.0010952 -0.23868 -0.00011319 2.0706 0.00098197 474.2381337376349 12.733 0.095427 13.04 12.996 13.091 0.30727 4 2 2 0 0 0 0.70146 1 5767 5767 5.7604 0 1 426310 4141 5212 2746 2756 4664 4664 -0.0132944056491624 EALNHHNL 8 Unmodified _EALNHHNL_ 0 0 0 ENST00000487676.1_1_6:32629660-32630092:-|nuORF;nc|ENSG00000232629|P05538-2|HLA-DQB2;nc|ENSG00000179344|P01920|HLA-DQB1;ENSG00000179344|ENST00000434651|HLA-DQB1;ENSG00000232629|ENST00000437316|HLA-DQB2;nc|ENSG00000232629|P05538|HLA-DQB2 ENST00000487676.1_1_6:32629660-32630092:-|nuORF ENST00000487676.1_1_6:32629660-32630092:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 474.238316 946.462078 2.3093 0.0010952 -0.23868 -0.00011319 2.0706 0.00098197 474.2381337376349 12.733 0.095427 13.04 12.996 13.091 0.30727 -0.11008 -0.00018633 NaN 5.7604 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 426310 4142 5212 2746 2756 -0.0132944056491624 EALNHHNL 8 Unmodified _EALNHHNL_ 0 0 0 ENST00000487676.1_1_6:32629660-32630092:-|nuORF;nc|ENSG00000232629|P05538-2|HLA-DQB2;nc|ENSG00000179344|P01920|HLA-DQB1;ENSG00000179344|ENST00000434651|HLA-DQB1;ENSG00000232629|ENST00000437316|HLA-DQB2;nc|ENSG00000232629|P05538|HLA-DQB2 ENST00000487676.1_1_6:32629660-32630092:-|nuORF ENST00000487676.1_1_6:32629660-32630092:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 474.238316 946.462078 3.3333 0.0015808 3.3967 0.0016108 6.73 0.0031916 474.2404170706909 12.618 0.10099 13.261 13.21 13.311 0.64272 0.11008 0.0032617 NaN 5.7604 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 606170 4143 5212 2746 2756 -0.0132944056491624 EALPKQSV 8 Unmodified _EALPKQSV_ 0 0 0 nc|ENSG00000145741|P20290-2|BTF3;BTF3|p.S201*|1|0.34|ENSG00000145741|chr5:73505219-73505222|CCAA/-|frameshift_variant;ENSG00000145741|ENST00000380591|BTF3 nc|ENSG00000145741|P20290-2|BTF3 nc|ENSG00000145741|P20290-2|BTF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 436.24920654296875 2 436.247818 870.481082 3.0149 0.0013152 0.16552 7.2209E-05 3.1804 0.0013874 436.2478432077234 21.232 0.29958 21.232 21.043 21.342 0 55 23 3 0 0 0 0.062889 2 9504 9457;9504 61.357 25.23 1 789790 4144 91 2747 2757 4665;4666 4666 0.040660960061472906 EALPKQSV 8 Unmodified _EALPKQSV_ 0 0 0 nc|ENSG00000145741|P20290-2|BTF3;BTF3|p.S201*|1|0.34|ENSG00000145741|chr5:73505219-73505222|CCAA/-|frameshift_variant;ENSG00000145741|ENST00000380591|BTF3 nc|ENSG00000145741|P20290-2|BTF3 nc|ENSG00000145741|P20290-2|BTF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 436.2494812011719 2 436.247818 870.481082 3.2304 0.0014092 0.41371 0.00018048 3.6441 0.0015897 436.2479434542778 20.12 0.46331 20.773 20.517 20.98 0.65346 104 41 3 0 0 0 0.0092008 4 9134 9048;9090;9134;9180 108 50.526 1 1324800 4145 91 2747 2757 4667;4668;4669;4670 4669 0.040660960061472906 EALQNHEL 8 Unmodified _EALQNHEL_ 0 0 0 REV__ENST00000445535.1_1_1:161576981-161578004:+|nuORF REV__ENST00000445535.1_1_1:161576981-161578004:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 477.23974609375 2 477.237981 952.461409 NaN NaN NaN NaN NaN NaN NaN 19.596 1 19.889 19.389 20.389 0.29239 0 0 0 0.18359 1 8917 8917 68.081 9.4019 1 + 4146 13582 2748 2758 4671 4671 -0.01672280004629556 EALQNHEL 8 Unmodified _EALQNHEL_ 0 0 0 REV__ENST00000445535.1_1_1:161576981-161578004:+|nuORF REV__ENST00000445535.1_1_1:161576981-161578004:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.23944091796875 2 477.237981 952.461409 NaN NaN NaN NaN NaN NaN NaN 19.196 1 19.854 19.354 20.354 0.6583 0 0 0 0.22495 1 8710 8710 78.149 19.471 1 + 4147 13582 2748 2758 4672 4672 -0.01672280004629556 EALSRITSV 9 Unmodified _EALSRITSV_ 0 0 0 ENST00000568613.5_1_16:88880849-88909575:-|nuORF;ENSG00000141012|ENST00000268695|GALNS ENST00000568613.5_1_16:88880849-88909575:-|nuORF ENST00000568613.5_1_16:88880849-88909575:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.2789001464844 2 488.277106 974.53966 3.1745 0.00155 0.49782 0.00024307 3.6723 0.0017931 488.2770056579822 39.752 0.34723 40.019 39.821 40.168 0.26696 17 11 2 0 0 0 0.21008 1 18081 18081 22.736 3.4793 1 215420 4148 9068 2749 2759 4673 4673 0.05137152580618931 EALTKEEL 8 Unmodified _EALTKEEL_ 0 0 0 ENSG00000092201|ENST00000216297|SUPT16H;ENST00000537175.1_1_12:16552809-16553013:-|nuORF ENSG00000092201|ENST00000216297|SUPT16H ENSG00000092201|ENST00000216297|SUPT16H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.7518615722656 2 466.75039 931.486227 2.8536 0.0013319 -0.21522 -0.00010045 2.6384 0.0012315 466.7503037368992 29.673 0.17904 30.291 30.16 30.339 0.61789 13 10 2 0 0 0 0.66653 1 13609 13609 8.5933 0 1 104630 4149 1095 2750 2760 4674 4674 0.01774355078100598 EALVRTVAL 9 Unmodified _EALVRTVAL_ 0 0 0 ENSG00000182179|ENST00000333486|UBA7;ENST00000460703.1_1_3:49848630-49848912:-|nuORF ENSG00000182179|ENST00000333486|UBA7 ENSG00000182179|ENST00000333486|UBA7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.2997131347656 2 486.297842 970.581131 3.043 0.0014798 -0.15695 -7.6326E-05 2.8861 0.0014035 486.2978966349353 50.843 0.13025 51.502 51.435 51.565 0.65956 13 9 2 0 0 0 0.013715 1 23242 23242 76.825 26.892 1 712850 4150 5316 2751 2761 4675 4675 0.09466333339958055 EALVRTVL 8 Unmodified _EALVRTVL_ 0 0 0 ENSG00000168036|ENST00000349496|CTNNB1 ENSG00000168036|ENST00000349496|CTNNB1 ENSG00000168036|ENST00000349496|CTNNB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.7808837890625 2 450.779285 899.544017 NaN NaN NaN NaN NaN NaN NaN 49.248 1 49.51 49.01 50.01 0.26146 0 0 0 0.86133 1 22512 22512 14.838 0 1 4151 4597 2752 2762 4676 4676 0.09022661794188025 EALWLVRLRP 10 Unmodified _EALWLVRLRP_ 0 0 0 REV__ENST00000462742.1_1_21:45751724-45754149:-|nuORF REV__ENST00000462742.1_1_21:45751724-45754149:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 313.6929016113281 4 313.943571 1251.74518 2.0111 0.00063138 -0.061562 -1.9327E-05 1.9496 0.00061206 313.9429612791174 41.225 0.10198 41.225 41.153 41.255 0 16 13 2 0 0 0 0.12676 1 18725 18725 0.62683 0 1 3030400 + 4152 12869 2753 2763 4677 4677 0.1293735083067986 EALYLKNEANT 11 Unmodified _EALYLKNEANT_ 0 0 0 REV__ENSG00000102010|ENST00000348343|BMX REV__ENSG00000102010|ENST00000348343|BMX MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3204956054688 2 633.322242 1264.62993 NaN NaN NaN NaN NaN NaN NaN 18.246 1 18.906 18.406 19.406 0.66072 0 0 0 0.61918 1 8255 8255 24.991 1.2012 1 + 4153 10915 2754 2764 4678 4678 0.008201571183917622 EAMIKKKEF 9 Unmodified _EAMIKKKEF_ 0 0 0 ENSG00000100139|ENST00000215957|MICALL1 ENSG00000100139|ENST00000215957|MICALL1 ENSG00000100139|ENST00000215957|MICALL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.21197509765625 3 375.210849 1122.61072 NaN NaN NaN NaN NaN NaN NaN 13.028 1 13.336 12.836 13.836 0.30727 0 0 0 0.81563 1 5876 5876 8.9762 5.3892 1 4154 1181 2755 2765 4679 4679 0.0543152929376447 EAMKRLSYI 9 Unmodified _EAMKRLSYI_ 0 0 0 nc|ENSG00000058085|Q13753-2|LAMC2;ENSG00000058085|ENST00000264144|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.8028564453125 2 555.802434 1109.59032 3.4658 0.0019263 0.11818 6.5685E-05 3.5839 0.001992 555.8021476632341 34.445 0.27083 35.068 34.894 35.165 0.62294 18 9 3 0 0 0 0.044468 1 15773 15773 49.554 25.534 1 409220 4155 628 2756 2766 4680 4680 0.03990358633973301 EAQKELEAL 9 Unmodified _EAQKELEAL_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242174673-242189369:-|nuORF;ENST00000479169.5_1_2:242177863-242181895:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.7760009765625 2 515.774396 1029.53424 3.3578 0.0017319 -0.025258 -1.3027E-05 3.3325 0.0017188 515.7743002043968 35.171 0.19957 35.963 35.856 36.056 0.79131 13 11 2 0 0 0 0.049759 1 15965 15965 32.786 3.7041 1 419120 4156 1983 2757 2767 4681 4681 0.02065428998139396 EAQLKLEVI 9 Unmodified _EAQLKLEVI_ 0 0 0 REV__ENSG00000187775|ENST00000389840|DNAH17 REV__ENSG00000187775|ENST00000389840|DNAH17 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.7659912109375 2 521.810782 1041.60701 3.1717 0.001655 -0.38031 -0.00019845 2.7914 0.0014566 521.8108219621864 52.314 0.27217 52.976 52.801 53.073 0.66198 19 11 2 0 0 0 0.05306 1 23949 23949 24.021 0 1 613730 + 4157 14113 2758 2768 4682 4682 0.0878718279154782 EARIKKLF 8 Unmodified _EARIKKLF_ 0 0 0 ENSG00000132840|ENST00000255192|BHMT2 ENSG00000132840|ENST00000255192|BHMT2 ENSG00000132840|ENST00000255192|BHMT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.5474548339844 3 335.54656 1003.61785 2.217 0.0007439 0.77236 0.00025916 2.9893 0.0010031 335.54667803216824 25.845 0.24746 26.47 26.346 26.593 0.62505 45 23 3 0 0 0 0.26626 1 11849 11849 31.268 5.0002 1 726350 4158 2728 2759 2769 4683 4683 0.11618629956501536 EARKKLAQI 9 Unmodified _EARKKLAQI_ 0 0 0 ENSG00000137076|ENST00000314888|TLN1;nc|ENSG00000137076|Q9Y490-2|TLN1;ENSG00000171914|ENST00000636159|TLN2 ENSG00000137076|ENST00000314888|TLN1 ENSG00000137076|ENST00000314888|TLN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.8901062011719 3 352.888986 1055.64513 NaN NaN NaN NaN NaN NaN NaN 12.634 1 12.634 12.134 13.134 0 0 0 0 0.57496 1 5506 5506 16.566 5.6669 1 4159 2996 2760 2770 4684 4684 0.11953113496883816 EARKKLAQI 9 Unmodified _EARKKLAQI_ 0 0 0 ENSG00000137076|ENST00000314888|TLN1;nc|ENSG00000137076|Q9Y490-2|TLN1;ENSG00000171914|ENST00000636159|TLN2 ENSG00000137076|ENST00000314888|TLN1 ENSG00000137076|ENST00000314888|TLN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 353.5451354980469 3 352.888986 1055.64513 1.7799 0.00062811 0.35107 0.00012389 2.131 0.000752 352.88900776140275 12.454 0.049932 12.761 12.72 12.77 0.30727 4 2 2 0 0 0 0.38625 1 5606 5606 14.405 4.8614 1 5011500 4160 2996 2760 2770 4685 4685 0.11953113496883816 EARKKLAQI 9 Unmodified _EARKKLAQI_ 0 0 0 ENSG00000137076|ENST00000314888|TLN1;nc|ENSG00000137076|Q9Y490-2|TLN1;ENSG00000171914|ENST00000636159|TLN2 ENSG00000137076|ENST00000314888|TLN1 ENSG00000137076|ENST00000314888|TLN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 352.888986 1055.64513 2.6806 0.00094595 -1.2673 -0.00044722 1.4133 0.00049873 352.88852678818415 12.62 0.054881 12.62 12.575 12.63 0 -0.19125 -0.0010469 NaN 14.405 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 981360 4161 2996 2760 2770 0.11953113496883816 EARKKLAQI 9 Unmodified _EARKKLAQI_ 0 0 0 ENSG00000137076|ENST00000314888|TLN1;nc|ENSG00000137076|Q9Y490-2|TLN1;ENSG00000171914|ENST00000636159|TLN2 ENSG00000137076|ENST00000314888|TLN1 ENSG00000137076|ENST00000314888|TLN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 352.888986 1055.64513 2.8243 0.00099665 -0.037134 -1.3104E-05 2.7871 0.00098355 352.88889697511183 12.411 0.059254 13.054 13.033 13.092 0.64272 0.24205 0.00025543 NaN 14.405 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 2039400 4162 2996 2760 2770 0.11953113496883816 EARKRKNRRLK 11 Unmodified _EARKRKNRRLK_ 0 0 0 ENSG00000136888|ENST00000374050|ATP6V1G1 ENSG00000136888|ENST00000374050|ATP6V1G1 ENSG00000136888|ENST00000374050|ATP6V1G1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 727.9605102539062 2 727.960575 1453.9066 NaN NaN NaN NaN NaN NaN NaN 75.954 1 76.211 75.711 76.711 0.25704 0 0 0 1.008 1 34963 34963 0.26902 0.26902 1 4163 2985 2761 2771 4686 4686 0.19779912916465037 EARKTEVLL 9 Unmodified _EARKTEVLL_ 0 0 0 nc|ENSG00000105639|P52333-4|JAK3;ENST00000527031.5_1_19:17947866-17955268:-|nuORF;nc|ENSG00000105639|P52333-2|JAK3;ENSG00000105639|ENST00000458235|JAK3 nc|ENSG00000105639|P52333-4|JAK3 nc|ENSG00000105639|P52333-4|JAK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 353.5459899902344 3 353.544996 1057.61316 2.8351 0.0010024 0.41832 0.0001479 3.2535 0.0011502 353.54498817859735 12.397 0.047505 13.035 13.014 13.062 0.63746 4 2 2 0 0 0 0.43294 1 5567 5567 13.615 2.8154 1 3184700 4164 1514 2762 2772 4687 4687 0.08665701023096517 EARKTEVLL 9 Unmodified _EARKTEVLL_ 0 0 0 nc|ENSG00000105639|P52333-4|JAK3;ENST00000527031.5_1_19:17947866-17955268:-|nuORF;nc|ENSG00000105639|P52333-2|JAK3;ENSG00000105639|ENST00000458235|JAK3 nc|ENSG00000105639|P52333-4|JAK3 nc|ENSG00000105639|P52333-4|JAK3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 353.544996 1057.61316 1.7736 0.00062706 -0.4189 -0.0001481 1.3547 0.00047896 353.54475902659385 12.419 0.059488 12.726 12.691 12.751 0.30727 -0.15423 -0.00043983 NaN 13.615 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 3356800 4165 1514 2762 2772 0.08665701023096517 EARLKSVVV 9 Unmodified _EARLKSVVV_ 0 0 0 nc|ENSG00000153815|Q8IY22-3|CMIP;nc|ENSG00000153815|Q8IY22-2|CMIP;ENSG00000153815|ENST00000537098|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.21142578125 3 334.209836 999.60768 2.3719 0.0007927 1.3832 0.00046228 3.7551 0.001255 334.21036745778224 27.09 0.23967 27.355 27.258 27.498 0.26489 25 15 2 0 0 0 0.43294 1 12297 12297 13.615 6.5131 1 443920 4166 9694 2763 2773 4688 4688 0.10786022231275183 EARLKSVVV 9 Unmodified _EARLKSVVV_ 0 0 0 nc|ENSG00000153815|Q8IY22-3|CMIP;nc|ENSG00000153815|Q8IY22-2|CMIP;ENSG00000153815|ENST00000537098|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.8138122558594 2 500.811116 999.60768 3.1763 0.0015907 0.24825 0.00012433 3.4245 0.001715 500.8113136332321 27.116 0.20597 27.381 27.277 27.483 0.26489 17 13 2 0 0 0 0.084899 1 12325 12325 25.399 9.5521 1 323600 4167 9694 2763 2773 4689 4689 0.10786022231275183 EARLKSVVV 9 Unmodified _EARLKSVVV_ 0 0 0 nc|ENSG00000153815|Q8IY22-3|CMIP;nc|ENSG00000153815|Q8IY22-2|CMIP;ENSG00000153815|ENST00000537098|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.2110900878906 3 334.209836 999.60768 2.1885 0.00073143 1.0765 0.00035979 3.2651 0.0010912 334.210249355403 26.726 0.21811 27.348 27.226 27.444 0.62179 23 16 2 0 0 0 0.81759 1 12235 12235 7.1017 0 1 365120 4168 9694 2763 2773 4690 4690 0.10786022231275183 EARLKSVVV 9 Unmodified _EARLKSVVV_ 0 0 0 nc|ENSG00000153815|Q8IY22-3|CMIP;nc|ENSG00000153815|Q8IY22-2|CMIP;ENSG00000153815|ENST00000537098|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.8129577636719 2 500.811116 999.60768 3.1267 0.0015659 0.57646 0.0002887 3.7032 0.0018546 500.8114243708001 26.734 0.17308 27.356 27.239 27.412 0.62178 21 13 2 0 0 0 0.1081 1 12255 12255 32.786 13.529 1 355240 4169 9694 2763 2773 4691 4691 0.10786022231275183 EARLLPVLV 9 Unmodified _EARLLPVLV_ 0 0 0 REV__nc|ENSG00000141098|Q3B7J2-3|GFOD2 REV__nc|ENSG00000141098|Q3B7J2-3|GFOD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.2179870605469 3 337.218332 1008.63317 NaN NaN NaN NaN NaN NaN NaN 26.4 1 26.665 26.165 27.165 0.26489 0 0 0 0.91342 1 11995 11995 0.26902 0 1 + 4170 12277 2764 2774 4692 4692 0.12919496753704607 EARPRPLSL 9 Unmodified _EARPRPLSL_ 0 0 0 nc|ENSG00000148840|Q5VV67-2|PPRC1;ENSG00000148840|ENST00000278070|PPRC1 nc|ENSG00000148840|Q5VV67-2|PPRC1 nc|ENSG00000148840|Q5VV67-2|PPRC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 346.87432861328125 3 346.873336 1037.59818 2.7048 0.00093821 -0.33854 -0.00011743 2.3662 0.00082078 346.8732821676798 29.982 0.21887 29.982 29.856 30.075 0 19 16 2 0 0 0 0.26118 1 13539 13539 19.362 4.9566 1 370290 4171 3617 2765 2775 4693 4693 0.08088253945743418 EARPRPLSL 9 Unmodified _EARPRPLSL_ 0 0 0 nc|ENSG00000148840|Q5VV67-2|PPRC1;ENSG00000148840|ENST00000278070|PPRC1 nc|ENSG00000148840|Q5VV67-2|PPRC1 nc|ENSG00000148840|Q5VV67-2|PPRC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.87408447265625 3 346.873336 1037.59818 2.4051 0.00083426 -0.2361 -8.1897E-05 2.169 0.00075236 346.87333429771473 29.308 0.33113 29.926 29.756 30.087 0.61789 48 23 3 0 0 0 0.59921 1 13394 13394 10.8 0.64894 1 785900 4172 3617 2765 2775 4694 4694 0.08088253945743418 EARPRPLSL 9 Unmodified _EARPRPLSL_ 0 0 0 nc|ENSG00000148840|Q5VV67-2|PPRC1;ENSG00000148840|ENST00000278070|PPRC1 nc|ENSG00000148840|Q5VV67-2|PPRC1 nc|ENSG00000148840|Q5VV67-2|PPRC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 519.807861328125 2 519.806365 1037.59818 3.3742 0.0017539 -0.18467 -9.5992E-05 3.1895 0.0016579 519.8063363459643 29.31 0.27155 29.928 29.769 30.04 0.61789 30 19 2 0 0 0 0.55678 1 13426 13426 16.149 4.5088 1 462800 4173 3617 2765 2775 4695 4695 0.08088253945743418 EARPRPLSL 9 Unmodified _EARPRPLSL_ 0 0 0 nc|ENSG00000148840|Q5VV67-2|PPRC1;ENSG00000148840|ENST00000278070|PPRC1 nc|ENSG00000148840|Q5VV67-2|PPRC1 nc|ENSG00000148840|Q5VV67-2|PPRC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 519.806365 1037.59818 3.5403 0.0018403 0.45612 0.00023709 3.9964 0.0020773 519.8058608942355 29.056 0.16388 29.845 29.739 29.903 0.78921 -0.034632 0.00044762 NaN 16.149 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 103430 4174 3617 2765 2775 0.08088253945743418 EARPRPLSL 9 Unmodified _EARPRPLSL_ 0 0 0 nc|ENSG00000148840|Q5VV67-2|PPRC1;ENSG00000148840|ENST00000278070|PPRC1 nc|ENSG00000148840|Q5VV67-2|PPRC1 nc|ENSG00000148840|Q5VV67-2|PPRC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 519.806365 1037.59818 3.5732 0.0018574 0.1675 8.707E-05 3.7407 0.0019444 519.8063662120874 29.609 0.28976 29.867 29.702 29.991 0.25804 -0.013201 0.00014757 NaN 16.149 34 20 3 NaN NaN NaN NaN 0 NaN NaN 0 394830 4175 3617 2765 2775 0.08088253945743418 EARPRPLSL 9 Unmodified _EARPRPLSL_ 0 0 0 nc|ENSG00000148840|Q5VV67-2|PPRC1;ENSG00000148840|ENST00000278070|PPRC1 nc|ENSG00000148840|Q5VV67-2|PPRC1 nc|ENSG00000148840|Q5VV67-2|PPRC1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 519.806365 1037.59818 3.3742 0.0017539 -0.18467 -9.5992E-05 3.1895 0.0016579 519.8063363459643 29.31 0.27155 29.928 29.769 30.04 0.61789 0.047833 -0.00021856 NaN 16.149 30 19 2 NaN NaN NaN NaN 0 NaN NaN 0 462800 4176 3617 2765 2775 0.08088253945743418 EARRVRESRKR 11 Unmodified _EARRVRESRKR_ 0 0 0 REV__nc|ENSG00000147130|Q14202-3|ZMYM3 REV__nc|ENSG00000147130|Q14202-3|ZMYM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.62060546875 3 481.618552 1441.83383 NaN NaN NaN NaN NaN NaN NaN 98.048 1 98.337 97.837 98.837 0.28923 0 0 0 1.0075 1 45101 45101 1.0136 0.50762 1 + 4177 12494 2766 2776 4696 4696 0.13058159123056612 EASPAMKL 8 Unmodified _EASPAMKL_ 0 0 0 REV__ENST00000379297.5_1_X:23722013-23724857:-|nuORF REV__ENST00000379297.5_1_X:23722013-23724857:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 423.72381591796875 2 423.723121 845.431689 2.9827 0.0012638 -0.021663 -9.1789E-06 2.961 0.0012547 423.7231437185683 28.699 0.16696 29.319 29.219 29.386 0.61947 12 7 2 0 0 0 0.67495 1 13167 13167 7.9102 0.62092 1 173480 + 4178 11603 2767 2777 4697 4697 0.0027906472569156904 EASPAMKL 8 Unmodified _EASPAMKL_ 0 0 0 REV__ENST00000379297.5_1_X:23722013-23724857:-|nuORF REV__ENST00000379297.5_1_X:23722013-23724857:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 423.723121 845.431689 3.1134 0.0013192 0.060216 2.5515E-05 3.1736 0.0013447 423.72329290337836 29.266 0.17134 29.266 29.188 29.359 0 -0.026164 2.173E-05 NaN 7.9102 17 13 2 NaN NaN NaN NaN 0 NaN NaN 0 140730 + 4179 11603 2767 2777 0.0027906472569156904 EASPDRTTL 9 Unmodified _EASPDRTTL_ 0 0 0 ENST00000523711.5_1_8:1824717-1874701:+|nuORF;nc|ENSG00000104728|O15013-7|ARHGEF10;nc|ENSG00000104728|O15013-4|ARHGEF10;ENSG00000104728|ENST00000349830|ARHGEF10;nc|ENSG00000104728|O15013-6|ARHGEF10;nc|ENSG00000104728|O15013|ARHGEF10 ENST00000523711.5_1_8:1824717-1874701:+|nuORF ENST00000523711.5_1_8:1824717-1874701:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.2496643066406 2 495.248546 988.482539 3.3415 0.0016549 -0.66548 -0.00032958 2.676 0.0013253 495.2481563014335 19.18 0.18604 19.839 19.748 19.934 0.6583 26 12 3 0 0 0 0.11155 1 8704 8704 29.841 10.584 1 344470 4180 1446 2768 2778 4698 4698 -0.012163146957732351 EASPVEPQL 9 Unmodified _EASPVEPQL_ 0 0 0 nc|ENSG00000204469|P48634-2|PRRC2A;nc|ENSG00000204469|P48634-3|PRRC2A;ENSG00000204469|ENST00000376033|PRRC2A;nc|ENSG00000204469|P48634-4|PRRC2A nc|ENSG00000204469|P48634-2|PRRC2A nc|ENSG00000204469|P48634-2|PRRC2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.25048828125 2 485.248015 968.481476 3.2881 0.0015955 1.1707 0.0005681 4.4589 0.0021636 485.2482960212745 48.445 0.36308 48.445 48.302 48.665 0 55 25 3 0 0 0 0.010221 2 22188 22188;22236 81.613 37.206 1 1237400 4181 6011 2769 2779 4699;4700 4699 -0.004025290646723079 EASPVEPQL 9 Unmodified _EASPVEPQL_ 0 0 0 nc|ENSG00000204469|P48634-2|PRRC2A;nc|ENSG00000204469|P48634-3|PRRC2A;ENSG00000204469|ENST00000376033|PRRC2A;nc|ENSG00000204469|P48634-4|PRRC2A nc|ENSG00000204469|P48634-2|PRRC2A nc|ENSG00000204469|P48634-2|PRRC2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.75421142578125 2 485.248015 968.481476 3.0636 0.0014866 0.97571 0.00047346 4.0393 0.0019601 485.24822819200887 47.513 0.33859 48.342 48.179 48.517 0.82915 50 21 3 0 0 0 0.017868 2 21625 21625;21675 71.134 35.089 1 780630 4182 6011 2769 2779 4701;4702 4701 -0.004025290646723079 EASPVEPQL 9 Unmodified _EASPVEPQL_ 0 0 0 nc|ENSG00000204469|P48634-2|PRRC2A;nc|ENSG00000204469|P48634-3|PRRC2A;ENSG00000204469|ENST00000376033|PRRC2A;nc|ENSG00000204469|P48634-4|PRRC2A nc|ENSG00000204469|P48634-2|PRRC2A nc|ENSG00000204469|P48634-2|PRRC2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2501220703125 2 485.248015 968.481476 3.2692 0.0015864 0.85071 0.00041281 4.1199 0.0019992 485.2484899477944 48.277 0.36124 48.539 48.347 48.708 0.26209 42 21 3 0 0 0 0.0081238 2 22080 22030;22080 85.272 36.926 1 1621400 4183 6011 2769 2779 4703;4704 4704 -0.004025290646723079 EASPVEPQL 9 Unmodified _EASPVEPQL_ 0 0 0 nc|ENSG00000204469|P48634-2|PRRC2A;nc|ENSG00000204469|P48634-3|PRRC2A;ENSG00000204469|ENST00000376033|PRRC2A;nc|ENSG00000204469|P48634-4|PRRC2A nc|ENSG00000204469|P48634-2|PRRC2A nc|ENSG00000204469|P48634-2|PRRC2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2506103515625 2 485.248015 968.481476 3.235 0.0015698 1.0006 0.00048553 4.2356 0.0020553 485.24840371585157 47.758 0.39281 48.412 48.193 48.586 0.65356 43 17 3 0 0 0 0.010221 2 21854 21809;21854 81.613 37.206 1 1294200 4184 6011 2769 2779 4705;4706 4706 -0.004025290646723079 EATLRCWAL 9 Carbamidomethyl (C) _EATLRC(Carbamidomethyl (C))WAL_ EATLRC(1)WAL EATLRC(96)WAL 0 1 0 ENSG00000204592|ENST00000376630|HLA-E;nc|ENSG00000204632|P17693-6|HLA-G;nc|ENSG00000204632|P17693-2|HLA-G;ENST00000383620.4_1_6:29857122-29858256:+|nuORF;nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;ENST00000484704.5_1_6:29691969-29693843:+|nuORF;ENSG00000234745|ENST00000412585|HLA-B;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF;nc|ENSG00000206341|P01893|HLA-H;ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910749-29913287:+|nuORF;ENSG00000204632|ENST00000360323|HLA-G;nc|ENSG00000204632|P17693-5|HLA-G ENSG00000204592|ENST00000376630|HLA-E;nc|ENSG00000204642|P30511|HLA-F;ENSG00000234745|ENST00000412585|HLA-B;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000206503|ENST00000376809|HLA-A;ENSG00000204632|ENST00000360323|HLA-G nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.2868041992188 2 560.284408 1118.55426 3.6001 0.0020171 -0.57911 -0.00032447 3.021 0.0016926 560.2843102946117 60.149 0.37525 60.405 60.227 60.602 0.25578 53 18 4 0 0 0 0.0027913 3 27508 27508;27555;27603 96.367 46.434 1 3038800 4185 6014;6023;6072;6028;6198;6027 2770 2780 4707;4708;4709 4707 98 -0.00027098542909698153 EATLRCWAL 9 Carbamidomethyl (C) _EATLRC(Carbamidomethyl (C))WAL_ EATLRC(1)WAL EATLRC(110)WAL 0 1 0 ENSG00000204592|ENST00000376630|HLA-E;nc|ENSG00000204632|P17693-6|HLA-G;nc|ENSG00000204632|P17693-2|HLA-G;ENST00000383620.4_1_6:29857122-29858256:+|nuORF;nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;ENST00000484704.5_1_6:29691969-29693843:+|nuORF;ENSG00000234745|ENST00000412585|HLA-B;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF;nc|ENSG00000206341|P01893|HLA-H;ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910749-29913287:+|nuORF;ENSG00000204632|ENST00000360323|HLA-G;nc|ENSG00000204632|P17693-5|HLA-G ENSG00000204592|ENST00000376630|HLA-E;nc|ENSG00000204642|P30511|HLA-F;ENSG00000234745|ENST00000412585|HLA-B;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000206503|ENST00000376809|HLA-A;ENSG00000204632|ENST00000360323|HLA-G nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.2864990234375 2 560.284408 1118.55426 3.5523 0.0019903 -0.36333 -0.00020357 3.189 0.0017867 560.2843356848384 59.575 0.35884 60.24 60.059 60.418 0.66503 48 15 4 0 0 0 0.001731 2 27301 27249;27301 106.94 48.261 1 4051600 4186 6014;6023;6072;6028;6198;6027 2770 2780 4710;4711 4711 98 -0.00027098542909698153 EATLRCWAL 9 Carbamidomethyl (C) _EATLRC(Carbamidomethyl (C))WAL_ 0 1 0 ENSG00000204592|ENST00000376630|HLA-E;nc|ENSG00000204632|P17693-6|HLA-G;nc|ENSG00000204632|P17693-2|HLA-G;ENST00000383620.4_1_6:29857122-29858256:+|nuORF;nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;ENST00000484704.5_1_6:29691969-29693843:+|nuORF;ENSG00000234745|ENST00000412585|HLA-B;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF;nc|ENSG00000206341|P01893|HLA-H;ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910749-29913287:+|nuORF;ENSG00000204632|ENST00000360323|HLA-G;nc|ENSG00000204632|P17693-5|HLA-G ENSG00000204592|ENST00000376630|HLA-E;nc|ENSG00000204642|P30511|HLA-F;ENSG00000234745|ENST00000412585|HLA-B;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000206503|ENST00000376809|HLA-A;ENSG00000204632|ENST00000360323|HLA-G nc|ENSG00000204525|P10321-2|HLA-C MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 560.284408 1118.55426 3.2278 0.0018085 1.6565 0.00092812 4.8843 0.0027366 560.2863819016471 60.306 0.091366 60.306 60.217 60.309 0 -0.011015 0.002322 NaN 106.94 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 1646600 4187 6014;6023;6072;6028;6198;6027 2770 2780 98 -0.00027098542909698153 EAVFREKILHI 11 Unmodified _EAVFREKILHI_ 0 0 0 nc|ENSG00000107201|O95786-2|RIGI;ENSG00000107201|ENST00000379883|RIGI nc|ENSG00000107201|O95786-2|RIGI nc|ENSG00000107201|O95786-2|RIGI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.60150146484375 3 452.266233 1353.77687 2.9778 0.0013467 0.16579 7.4982E-05 3.1436 0.0014217 452.26628867445424 40.606 0.15432 40.876 40.759 40.913 0.26904 9 5 2 0 0 0 0.75723 1 18462 18462 4.4062 2.1534 1 593330 4188 1591 2771 2781 4712 4712 0.11413298794013826 EAVIKHSL 8 Unmodified _EAVIKHSL_ 0 0 0 ENSG00000080608|ENST00000397885|PUM3 ENSG00000080608|ENST00000397885|PUM3 ENSG00000080608|ENST00000397885|PUM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 448.76556396484375 2 448.763635 895.512717 NaN NaN NaN NaN NaN NaN NaN 18.655 1 18.952 18.452 19.452 0.29753 0 0 0 0.13091 1 8464 8464 88.954 30.275 1 4189 910 2772 2782 4713 4713 0.06078088760091305 EAVLARKKH 9 Unmodified _EAVLARKKH_ 0 0 0 ENSG00000168517|ENST00000589230|HEXIM2 ENSG00000168517|ENST00000589230|HEXIM2 ENSG00000168517|ENST00000589230|HEXIM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.4993286132812 2 526.322183 1050.62981 NaN NaN NaN NaN NaN NaN NaN 75.025 1 75.283 74.783 75.783 0.25831 0 0 0 0.8974 1 34511 34511 3.5965 0 1 4190 4630 2773 2783 4714 4714 0.10652246699692114 EAVLIDPVL 9 Unmodified _EAVLIDPVL_ 0 0 0 ENST00000595115.1_1_19:44030583-44031338:-|nuORF;ENSG00000105755|ENST00000292147|ETHE1 ENST00000595115.1_1_19:44030583-44031338:-|nuORF ENST00000595115.1_1_19:44030583-44031338:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.7891540527344 2 484.786776 967.558998 3.0642 0.0014855 0.17526 8.4962E-05 3.2395 0.0015705 484.7874345660072 83.768 0.4404 84.016 83.731 84.171 0.24722 43 27 2 0 0 0 0.041436 2 38576 38530;38576 50.855 14.811 1 338920 4191 1527 2774 2784 4715;4716 4716 0.07392108871522396 EAVLIDPVL 9 Unmodified _EAVLIDPVL_ 0 0 0 ENST00000595115.1_1_19:44030583-44031338:-|nuORF;ENSG00000105755|ENST00000292147|ETHE1 ENST00000595115.1_1_19:44030583-44031338:-|nuORF ENST00000595115.1_1_19:44030583-44031338:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 484.786776 967.558998 3.3203 0.0016096 -0.60073 -0.00029122 2.7196 0.0013184 484.787054664374 83.279 0.31555 83.94 83.734 84.05 0.66019 -0.037939 -0.00036021 NaN 50.855 26 18 2 NaN NaN NaN NaN 0 NaN NaN 0 260970 4192 1527 2774 2784 0.07392108871522396 EAVLKHIA 8 Unmodified _EAVLKHIA_ 0 0 0 ENSG00000033178|ENST00000322244|UBA6;nc|ENSG00000033178|A0AVT1-4|UBA6;ENST00000429659.7_1_4:68529542-68566852:-|nuORF;nc|ENSG00000033178|A0AVT1-3|UBA6 ENSG00000033178|ENST00000322244|UBA6 ENSG00000033178|ENST00000322244|UBA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 440.76727294921875 2 440.766178 879.517802 3.2567 0.0014355 0.23082 0.00010174 3.4875 0.0015372 440.76624624093586 19.949 0.24034 20.607 20.486 20.726 0.65829 43 23 2 0 0 0 0.45037 1 9017 9017 24.674 11.166 1 268110 4193 504 2775 2785 4717 4717 0.07322392622700136 EAVLRHKL 8 Unmodified _EAVLRHKL_ 0 0 0 ENSG00000049239|ENST00000377403|H6PD;nc|ENSG00000049239|O95479-2|H6PD ENSG00000049239|ENST00000377403|H6PD ENSG00000049239|ENST00000377403|H6PD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.53509521484375 3 322.534543 964.581799 1.6902 0.00054516 -0.38585 -0.00012445 1.3044 0.00042071 322.53444411023105 12.838 0.1928 13.145 13.023 13.216 0.30727 11 5 3 0 0 0 0.31786 1 5809 5809 26.884 5.137 1 548420 4194 575 2776 2786 4718 4718 0.09809172779637265 EAVRKRLRRRR 11 Unmodified _EAVRKRLRRRR_ 0 0 0 ENSG00000186452|ENST00000398458|TMPRSS12 ENSG00000186452|ENST00000398458|TMPRSS12 ENSG00000186452|ENST00000398458|TMPRSS12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 748.5281982421875 2 748.479466 1494.94438 NaN NaN NaN NaN NaN NaN NaN 66.772 1 67.428 66.928 67.928 0.65672 0 0 0 1.0082 1 30610 30610 0 0 1 4195 5571 2777 2787 4719 4719 0.2167042390192364 EAVSKTAL 8 Unmodified _EAVSKTAL_ 0 0 0 nc|ENSG00000084093|Q13127-4|REST;ENSG00000084093|ENST00000309042|REST nc|ENSG00000084093|Q13127-4|REST nc|ENSG00000084093|Q13127-4|REST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.73614501953125 2 409.734543 817.454533 2.7959 0.0011456 0.68448 0.00028046 3.4803 0.001426 409.7347136249248 19.439 0.13198 19.737 19.706 19.838 0.29753 19 12 2 0 0 0 0.44001 1 8845 8845 25.399 9.5521 1 345740 4196 952 2778 2788 4720 4720 0.03850407114805421 EAVSKTAL 8 Unmodified _EAVSKTAL_ 0 0 0 nc|ENSG00000084093|Q13127-4|REST;ENSG00000084093|ENST00000309042|REST nc|ENSG00000084093|Q13127-4|REST nc|ENSG00000084093|Q13127-4|REST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.73638916015625 2 409.734543 817.454533 3.0917 0.0012668 -0.063064 -2.5839E-05 3.0286 0.0012409 409.7343260962321 19.125 0.15122 19.783 19.721 19.872 0.6583 16 13 2 0 0 0 0.23923 1 8674 8674 39.957 11.47 1 324930 4197 952 2778 2788 4721 4721 0.03850407114805421 EAWKKIQL 8 Unmodified _EAWKKIQL_ 0 0 0 nc|ENSG00000113719|Q969X5-2|ERGIC1;ENSG00000113719|ENST00000393784|ERGIC1 nc|ENSG00000113719|Q969X5-2|ERGIC1 nc|ENSG00000113719|Q969X5-2|ERGIC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.3020935058594 2 508.300384 1014.58622 3.057 0.0015539 0.097691 4.9656E-05 3.1547 0.0016035 508.30038394218656 41.768 0.23207 41.768 41.61 41.842 0 45 24 2 0 0 0 1.9155E-11 2 18990 18944;18990 164.52 86.531 1 3598700 4198 1870 2779 2789 4722;4723 4723 0.07950637202554844 EAWKKIQL 8 Unmodified _EAWKKIQL_ 0 0 0 nc|ENSG00000113719|Q969X5-2|ERGIC1;ENSG00000113719|ENST00000393784|ERGIC1 nc|ENSG00000113719|Q969X5-2|ERGIC1 nc|ENSG00000113719|Q969X5-2|ERGIC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.30145263671875 2 508.300384 1014.58622 NaN NaN NaN NaN NaN NaN NaN 40.727 1 41.53 41.03 42.03 0.80351 0 0 0 5.7429E-16 1 18456 18456 152.41 74.428 1 4199 1870 2779 2789 4724 4724 0.07950637202554844 EAWKKIQL 8 Unmodified _EAWKKIQL_ 0 0 0 nc|ENSG00000113719|Q969X5-2|ERGIC1;ENSG00000113719|ENST00000393784|ERGIC1 nc|ENSG00000113719|Q969X5-2|ERGIC1 nc|ENSG00000113719|Q969X5-2|ERGIC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.3021240234375 2 508.300384 1014.58622 3.5511 0.001805 -0.12429 -6.3179E-05 3.4268 0.0017419 508.30030729473924 41.589 0.27314 41.86 41.716 41.989 0.27021 35 13 3 0 0 0 0.00019857 2 18903 18903;18957 144.35 66.366 1 5289800 4200 1870 2779 2789 4725;4726 4725 0.07950637202554844 EAYDDCGG 8 Unmodified _EAYDDCGG_ 0 0 0 REV__ENSG00000250510|ENST00000311268|GPR162 REV__ENSG00000250510|ENST00000311268|GPR162 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 830.2716064453125 1 829.266875 828.259598 4.3338 0.0035939 -0.81211 -0.00067345 3.5217 0.0029204 829.2672921956117 6.0124 0.94949 6.636 6.4515 7.401 0.62357 136 83 2 0 0 0 0.7471 1 2832 2832 0.69038 0 1 34058 + 4201 14654 2780 2790 4727 4727 -0.1614013175249056 EAYLRRIKM 9 Unmodified _EAYLRRIKM_ 0 0 0 nc|ENSG00000116584|Q92974-3|ARHGEF2;nc|ENSG00000116584|Q92974-2|ARHGEF2;ENSG00000116584|ENST00000361247|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.8932189941406 3 393.893742 1178.6594 3.0459 0.0011998 -0.82023 -0.00032308 2.2257 0.00087667 393.8932277720321 29.341 0.29136 29.601 29.412 29.704 0.2602 39 18 3 0 0 0 0.43294 2 13313 13313;13368 13.615 7.423 1 447170 4202 2034 2781 2791 4728;4729 4728 0.07721442653519262 EAYLRRIKM 9 Unmodified _EAYLRRIKM_ 0 0 0 nc|ENSG00000116584|Q92974-3|ARHGEF2;nc|ENSG00000116584|Q92974-2|ARHGEF2;ENSG00000116584|ENST00000361247|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8951110839844 3 393.893742 1178.6594 2.8455 0.0011208 -0.51075 -0.00020118 2.3347 0.00091963 393.89341601383796 29.006 0.22965 29.624 29.557 29.787 0.61789 24 16 3 0 0 0 0.091193 1 13332 13332 34.932 23.437 1 429870 4203 2034 2781 2791 4730 4730 0.07721442653519262 EAYLRRIKM 9 Unmodified _EAYLRRIKM_ 0 0 0 nc|ENSG00000116584|Q92974-3|ARHGEF2;nc|ENSG00000116584|Q92974-2|ARHGEF2;ENSG00000116584|ENST00000361247|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 393.893742 1178.6594 2.6746 0.0010535 -0.32831 -0.00012932 2.3463 0.00092419 393.8937294066248 28.513 0.081913 29.302 29.239 29.321 0.78921 -0.20703 0.00028019 NaN 34.932 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 181330 4204 2034 2781 2791 0.07721442653519262 ECCCCCCEEC 10 Unmodified _ECCCCCCEEC_ 0 0 0 ENSG00000170775|ENST00000303921|GPR37 ENSG00000170775|ENST00000303921|GPR37 ENSG00000170775|ENST00000303921|GPR37 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.1138916015625 2 564.108594 1126.20264 NaN NaN NaN NaN NaN NaN NaN 69.863 1 70.566 70.066 71.066 0.70302 0 0 0 1.002 1 33451 33451 0 0 1 4205 4767 2782 2792 4731 4731 -0.3554178927470275 ECDECHYCSCH 11 Unmodified _ECDECHYCSCH_ 0 0 0 REV__GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant REV__GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 664.6943969726562 2 664.693583 1327.37261 NaN NaN NaN NaN NaN NaN NaN 105.92 1 105.92 105.42 106.42 0 0 0 0 1.0082 1 58194 58194 0 0 1 + 4206 17692 2783 2793 4732 4732 -0.2779789068474656 ECEDEEGC 8 Unmodified _ECEDEEGC_ 0 0 0 REV__ENST00000563741.5_1_16:1828298-1832574:-|nuORF REV__ENST00000563741.5_1_16:1828298-1832574:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 305.1002197265625 3 305.089847 912.247713 NaN NaN NaN NaN NaN NaN NaN 69.303 1 69.964 69.464 70.464 0.66071 0 0 0 0.99035 1 31769 31769 0 0 1 + 4207 17394 2784 2794 4733 4733 -0.2119211655798381 ECHPGEWGD 9 Unmodified _ECHPGEWGD_ 0 0 0 REV__ENSG00000165816|ENST00000392982|VWA2 REV__ENSG00000165816|ENST00000392982|VWA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.1930541992188 2 515.190174 1028.36579 NaN NaN NaN NaN NaN NaN NaN 51.884 1 51.884 51.384 52.384 0 0 0 0 0.89683 1 23755 23755 4.3292 1.7518 1 + 4208 13191 2785 2795 4734 4734 -0.14725376187152506 ECHSSCTSET 10 Unmodified _ECHSSCTSET_ 0 0 0 nc|ENSG00000006576|Q8N3S3-7|PHTF2;nc|ENSG00000006576|Q8N3S3-4|PHTF2;nc|ENSG00000006576|Q8N3S3-3|PHTF2;nc|ENSG00000006576|Q8N3S3-2|PHTF2;ENSG00000006576|ENST00000416283|PHTF2;ENST00000454592.5_1_7:77538159-77567164:+|nuORF nc|ENSG00000006576|Q8N3S3-7|PHTF2 nc|ENSG00000006576|Q8N3S3-7|PHTF2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.2597045898438 2 542.189513 1082.36447 3.2152 0.0017432 -2.6335 -0.0014279 0.58168 0.00031538 542.1894142280412 50.906 0.24297 51.168 50.991 51.234 0.26146 15 12 2 0 0 0 0.12676 1 23230 23230 1.4819 0 1 234110 4209 352 2786 2796 4735 4735 -0.1734137833823297 ECVQMLAEAAA 11 Unmodified _ECVQMLAEAAA_ 0 0 0 REV__GPRIN3|p.Y696*|1|0.12|ENSG00000185477|chr4:89248011-89248024|CAAGGATGCACCAT/-|frameshift_variant REV__GPRIN3|p.Y696*|1|0.12|ENSG00000185477|chr4:89248011-89248024|CAAGGATGCACCAT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.1749572753906 3 379.175587 1134.50493 NaN NaN NaN NaN NaN NaN NaN 67.264 1 67.921 67.421 68.421 0.65777 0 0 0 1.0072 1 30833 30833 1.3296 0.1363 1 + 4210 14020 2787 2797 4736 4736 -0.05694174614018266 ECWWDHWIMDV 11 Unmodified _ECWWDHWIMDV_ 0 0 0 ENST00000526878.5_1_11:460175-490579:+|nuORF;ENSG00000174915|ENST00000308020|PTDSS2 ENST00000526878.5_1_11:460175-490579:+|nuORF ENST00000526878.5_1_11:460175-490579:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 760.3088989257812 2 760.310297 1518.60604 NaN NaN NaN NaN NaN NaN NaN 40.027 1 40.294 39.794 40.794 0.26696 0 0 0 1.008 1 18210 18210 0.30703 0.30703 1 4211 5003 2788 2798 4737 4737 -0.13251722911309116 EDASAYLTL 9 Unmodified _EDASAYLTL_ 0 0 0 ENSG00000134516|ENST00000520908|DOCK2;nc|ENSG00000134516|Q92608-2|DOCK2 ENSG00000134516|ENST00000520908|DOCK2 ENSG00000134516|ENST00000520908|DOCK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 982.4761352539062 1 982.472768 981.465492 3.4943 0.0034331 0.33619 0.00033029 3.8305 0.0037634 982.4727002000286 50.112 0.22614 50.112 49.973 50.199 0 17 11 2 0 0 0 0.24465 1 22929 22929 20.454 4.6064 1 386330 4212 2814 2789 2799 4738 4738 -0.025982353015592707 EDCATLEG 8 Unmodified _EDCATLEG_ 0 0 0 ENST00000563508.1_1_15:43662265-43662457:-|nuORF ENST00000563508.1_1_15:43662265-43662457:-|nuORF ENST00000563508.1_1_15:43662265-43662457:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 419.16998291015625 2 419.168376 836.322198 NaN NaN NaN NaN NaN NaN NaN 93.892 1 94.15 93.65 94.65 0.25769 0 0 0 0.99035 1 43151 43151 2.3027 0 1 4213 9013 2790 2800 4739 4739 -0.10250985684285752 EDDDADDDDD 10 Unmodified _EDDDADDDDD_ 0 0 0 ENSG00000077097|ENST00000264331|TOP2B;nc|ENSG00000077097|Q02880-2|TOP2B ENSG00000077097|ENST00000264331|TOP2B ENSG00000077097|ENST00000264331|TOP2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.7683715820312 2 570.160184 1138.30582 NaN NaN NaN NaN NaN NaN NaN 74.93 1 75.593 75.093 76.093 0.6635 0 0 0 1.0015 1 36246 36246 0.45834 0 1 4214 855 2791 2801 4740 4740 -0.2578048489804132 EDDDADDDDD 10 Unmodified _EDDDADDDDD_ 0 0 0 ENSG00000077097|ENST00000264331|TOP2B;nc|ENSG00000077097|Q02880-2|TOP2B ENSG00000077097|ENST00000264331|TOP2B ENSG00000077097|ENST00000264331|TOP2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.06884765625 2 570.160184 1138.30582 NaN NaN NaN NaN NaN NaN NaN 94.14 1 94.226 93.726 94.726 0.086212 0 0 0 0.99733 1 49457 49457 3.9444 0 1 4215 855 2791 2801 4741 4741 -0.2578048489804132 EDDDDDDDDSS 11 Unmodified _EDDDDDDDDSS_ 0 0 0 ENSG00000118096|ENST00000264021|IFT46;nc|ENSG00000118096|Q9NQC8-2|IFT46;ENST00000531201.5_1_11:118415633-118427808:-|nuORF ENSG00000118096|ENST00000264021|IFT46 ENSG00000118096|ENST00000264021|IFT46 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.6071166992188 2 621.673656 1241.33276 NaN NaN NaN NaN NaN NaN NaN 15.074 1 15.301 14.801 15.801 0.22622 0 0 0 1.0082 1 6639 6639 0 0 1 4216 2104 2792 2802 4742 4742 -0.27825421077477586 EDDDDNNEEEE 11 Unmodified _EDDDDNNEEEE_ 0 0 0 nc|ENSG00000054267|Q4LE39-4|ARID4B;nc|ENSG00000054267|Q4LE39-3|ARID4B;ENSG00000054267|ENST00000264183|ARID4B nc|ENSG00000054267|Q4LE39-4|ARID4B nc|ENSG00000054267|Q4LE39-4|ARID4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 676.714111328125 2 676.715855 1351.41716 NaN NaN NaN NaN NaN NaN NaN 103.91 1 103.96 103.46 104.46 0.052994 0 0 0 1.008 1 56296 56296 0.26902 0.26902 1 4217 605 2793 2803 4743 4743 -0.24449470260719863 EDDDDSDYGSS 11 Unmodified _EDDDDSDYGSS_ 0 0 0 nc|ENSG00000069275|Q9H1E3-2|NUCKS1;ENSG00000069275|ENST00000367142|NUCKS1 nc|ENSG00000069275|Q9H1E3-2|NUCKS1 nc|ENSG00000069275|Q9H1E3-2|NUCKS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 602.7054443359375 2 602.691652 1203.36875 NaN NaN NaN NaN NaN NaN NaN 67.876 1 67.876 67.376 68.376 0 0 0 0 1.0072 1 32620 32620 1.3295 0 1 4218 748 2794 2804 4744 4744 -0.2247991910996916 EDDDDSDYGSS 11 Unmodified _EDDDDSDYGSS_ 0 0 0 nc|ENSG00000069275|Q9H1E3-2|NUCKS1;ENSG00000069275|ENST00000367142|NUCKS1 nc|ENSG00000069275|Q9H1E3-2|NUCKS1 nc|ENSG00000069275|Q9H1E3-2|NUCKS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 602.2884521484375 2 602.691652 1203.36875 NaN NaN NaN NaN NaN NaN NaN 71.914 1 72.172 71.672 72.672 0.25786 0 0 0 1.0072 1 32998 32998 1.3295 0.72803 1 4219 748 2794 2804 4745 4745 -0.2247991910996916 EDDDEEDC 8 Unmodified _EDDDEEDC_ 0 0 0 ENSG00000135250|ENST00000393651|SRPK2;nc|ENSG00000135250|P78362|SRPK2 ENSG00000135250|ENST00000393651|SRPK2 ENSG00000135250|ENST00000393651|SRPK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.1352233886719 2 485.134927 968.255301 NaN NaN NaN NaN NaN NaN NaN 107.19 1 107.79 107.29 108.29 0.60074 0 0 0 0.99035 1 49476 49476 0 0 1 4220 2858 2795 2805 4746 4746 -0.23009685756721865 EDDDEHDE 8 Unmodified _EDDDEHDE_ 0 0 0 REV__nc|ENSG00000092853|Q9HAW4-2|CLSPN REV__nc|ENSG00000092853|Q9HAW4-2|CLSPN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.1614990234375 2 502.15979 1002.30503 2.992 0.0015025 0.38102 0.00019134 3.3731 0.0016938 502.15983224730587 42.696 0.46854 42.696 42.471 42.94 0 47 26 2 0 0 0 0.74071 2 19444 19444;19497 2.5775 0 1 1506700 + 4221 10747 2796 2806 4747;4748 4747 -0.19603234756414167 EDDDEHDE 8 Unmodified _EDDDEHDE_ 0 0 0 REV__nc|ENSG00000092853|Q9HAW4-2|CLSPN REV__nc|ENSG00000092853|Q9HAW4-2|CLSPN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.16241455078125 2 502.15979 1002.30503 3.3271 0.0016707 0.2664 0.00013378 3.5935 0.0018045 502.159766357347 42.527 0.39598 42.797 42.552 42.948 0.27021 43 18 3 0 0 0 0.74071 1 19447 19447 2.5775 0 1 1955300 + 4222 10747 2796 2806 4749 4749 -0.19603234756414167 EDDFDDGDDED 11 Unmodified _EDDFDDGDDED_ 0 0 0 REV__ENST00000427761.1_1_13:68406302-68406587:-|nuORF REV__ENST00000427761.1_1_13:68406302-68406587:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 644.0858154296875 2 643.694391 1285.37423 NaN NaN NaN NaN NaN NaN NaN 77.318 1 77.981 77.481 78.481 0.66303 0 0 0 1.008 1 35631 35631 0.35063 0 1 + 4223 16231 2797 2807 4750 4750 -0.2570424031814582 EDDFEDED 8 Unmodified _EDDFEDED_ 0 0 0 REV__ENSG00000078618|ENST00000352171|NRDC REV__ENSG00000078618|ENST00000352171|NRDC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.0488586425781 2 507.164541 1012.31453 NaN NaN NaN NaN NaN NaN NaN 73.09 1 73.349 72.849 73.849 0.25876 0 0 0 0.99035 1 33564 33564 2.3027 0 1 + 4224 10573 2798 2808 4751 4751 -0.19113466470878393 EDDFEDED 8 Unmodified _EDDFEDED_ 0 0 0 REV__ENSG00000078618|ENST00000352171|NRDC REV__ENSG00000078618|ENST00000352171|NRDC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.1921081542969 2 507.164541 1012.31453 NaN NaN NaN NaN NaN NaN NaN 74.148 1 74.812 74.312 75.312 0.6644 0 0 0 0.99035 1 34125 34125 2.5775 0 1 + 4225 10573 2798 2808 4752 4752 -0.19113466470878393 EDDFEDED 8 Unmodified _EDDFEDED_ 0 0 0 REV__ENSG00000078618|ENST00000352171|NRDC REV__ENSG00000078618|ENST00000352171|NRDC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.30975341796875 2 507.164541 1012.31453 NaN NaN NaN NaN NaN NaN NaN 78.352 1 79.014 78.514 79.514 0.66198 0 0 0 0.99035 1 36106 36106 5.7604 0 1 + 4226 10573 2798 2808 4753 4753 -0.19113466470878393 EDDIDGGESSD 11 Unmodified _EDDIDGGESSD_ 0 0 0 nc|ENSG00000139116|Q7Z4S6-3|KIF21A;nc|ENSG00000139116|Q7Z4S6-6|KIF21A;nc|ENSG00000139116|Q7Z4S6-5|KIF21A;nc|ENSG00000139116|Q7Z4S6-2|KIF21A;ENSG00000139116|ENST00000361418|KIF21A;nc|ENSG00000139116|Q7Z4S6-4|KIF21A nc|ENSG00000139116|Q7Z4S6-3|KIF21A nc|ENSG00000139116|Q7Z4S6-3|KIF21A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.7052612304688 2 569.704562 1137.39457 NaN NaN NaN NaN NaN NaN NaN 57.416 1 58.084 57.584 58.584 0.66829 0 0 0 1.0059 1 26274 26274 2.9952 0.26005 1 4227 9667 2799 2809 4754 4754 -0.16863024867666354 EDDMDRFFQHL 11 Unmodified _EDDMDRFFQHL_ 0 0 0 REV__nc|ENSG00000197694|Q13813-3|SPTAN1 REV__nc|ENSG00000197694|Q13813-3|SPTAN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.8797607421875 3 484.878598 1451.61396 NaN NaN NaN NaN NaN NaN NaN 98.079 1 98.368 97.868 98.868 0.28923 0 0 0 1.0057 1 45118 45118 1.3296 0 1 + 4228 14298 2800 2810 4755 4755 -0.09377872390155062 EDDQYFEQLFK 11 Unmodified _EDDQYFEQLFK_ 0 0 0 REV__ENST00000463722.5_1_7:99697202-99698956:-|nuORF REV__ENST00000463722.5_1_7:99697202-99698956:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.7384033203125 3 487.889268 1460.64598 NaN NaN NaN NaN NaN NaN NaN 65.741 1 65.741 65.241 66.241 0 0 0 0 1.0073 1 31335 31335 0.40827 0 1 + 4229 13245 2801 2811 4756 4756 -0.06592181435394195 EDDSTDCDD 9 Unmodified _EDDSTDCDD_ 0 0 0 ENSG00000170881|ENST00000303545|RNF139 ENSG00000170881|ENST00000303545|RNF139 ENSG00000170881|ENST00000303545|RNF139 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.6454772949219 2 507.645659 1013.27676 NaN NaN NaN NaN NaN NaN NaN 96.661 1 96.938 96.438 97.438 0.27778 0 0 0 0.91206 1 44410 44410 0.6015 0 1 4230 4770 2802 2812 4757 4757 -0.229343007280022 EDDYEDDEEDD 11 Unmodified _EDDYEDDEEDD_ 0 0 0 ENSG00000163930|ENST00000460680|BAP1;BAP1|p.C543Yfs*27|1|0.13|ENSG00000163930|chr3:52403514-52403517|ATGC/-|frameshift_variant;BAP1|p.P618Lfs*5|1|0.34|ENSG00000163930|chr3:52403175-52403175|G/-|frameshift_variant;BAP1|p.F678Cfs*34|1|0.37|ENSG00000163930|chr3:52402612-52402625|CAGCATGGAGATAA/-|frameshift_variant ENSG00000163930|ENST00000460680|BAP1 ENSG00000163930|ENST00000460680|BAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.43548583984375 3 463.475918 1387.40592 NaN NaN NaN NaN NaN NaN NaN 69.058 1 69.058 68.558 69.558 0 0 0 0 1.0082 1 33300 33300 0.094841 0 1 4231 4262 2803 2813 4758 4758 -0.27228292354902806 EDEAKLEHCT 10 Unmodified _EDEAKLEHCT_ 0 0 0 REV__ENSG00000197410|ENST00000357232|DCHS2 REV__ENSG00000197410|ENST00000357232|DCHS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.7584838867188 2 587.755878 1173.4972 NaN NaN NaN NaN NaN NaN NaN 97.953 1 97.953 97.453 98.453 0 0 0 0 0.99464 1 53493 53493 6.2058 2.2614 1 + 4232 14276 2804 2814 4759 4759 -0.08260610609931973 EDEDDDDD 8 Unmodified _EDEDDDDD_ 0 0 0 NCL|p.K477Lfs*19|1|0.03|ENSG00000115053|chr2:231457661-231457662|-/ATTTGGAATAGTAA|frameshift_variant;ENSG00000115053|ENST00000322723|NCL;ENST00000461347.5_1_2:232323706-232327997:-|nuORF;ENST00000533568.5_1_11:77069900-77103583:-|nuORF;ENSG00000149269|ENST00000356341|PAK1;nc|ENSG00000149269|Q13153-2|PAK1;ENSG00000125817|ENST00000379751|CENPB NCL|p.K477Lfs*19|1|0.03|ENSG00000115053|chr2:231457661-231457662|-/ATTTGGAATAGTAA|frameshift_variant;ENST00000533568.5_1_11:77069900-77103583:-|nuORF;ENSG00000125817|ENST00000379751|CENPB ENSG00000125817|ENST00000379751|CENPB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.134033203125 2 484.135981 966.257409 NaN NaN NaN NaN NaN NaN NaN 80.634 1 80.803 80.303 81.303 0.16862 0 0 0 0.99035 1 39529 39529 0.79363 0 1 4233 2424;3637;1940 2805 2815 4760 4760 -0.22706933747269886 EDEDDEDF 8 Unmodified _EDEDDEDF_ 0 0 0 ENSG00000163945|ENST00000389851|UVSSA ENSG00000163945|ENST00000389851|UVSSA ENSG00000163945|ENST00000389851|UVSSA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.1654052734375 2 507.164541 1012.31453 NaN NaN NaN NaN NaN NaN NaN 75.518 1 75.775 75.275 76.275 0.25704 0 0 0 0.99035 1 34752 34752 2.5775 0 1 4234 4265 2806 2816 4761 4761 -0.19113466470878393 EDEDDEDF 8 Unmodified _EDEDDEDF_ 0 0 0 ENSG00000163945|ENST00000389851|UVSSA ENSG00000163945|ENST00000389851|UVSSA ENSG00000163945|ENST00000389851|UVSSA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.1401062011719 2 507.164541 1012.31453 NaN NaN NaN NaN NaN NaN NaN 75.575 1 75.832 75.332 76.332 0.25704 0 0 0 0.99035 1 34782 34782 2.5775 0 1 4235 4265 2806 2816 4762 4762 -0.19113466470878393 EDEDDEDF 8 Unmodified _EDEDDEDF_ 0 0 0 ENSG00000163945|ENST00000389851|UVSSA ENSG00000163945|ENST00000389851|UVSSA ENSG00000163945|ENST00000389851|UVSSA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.47515869140625 2 507.164541 1012.31453 NaN NaN NaN NaN NaN NaN NaN 78.548 1 78.801 78.301 79.301 0.25335 0 0 0 0.99035 1 36171 36171 2.5775 0 1 4236 4265 2806 2816 4763 4763 -0.19113466470878393 EDEDDEDF 8 Unmodified _EDEDDEDF_ 0 0 0 ENSG00000163945|ENST00000389851|UVSSA ENSG00000163945|ENST00000389851|UVSSA ENSG00000163945|ENST00000389851|UVSSA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.1699523925781 2 507.164541 1012.31453 NaN NaN NaN NaN NaN NaN NaN 80.224 1 80.473 79.973 80.973 0.24947 0 0 0 0.99035 1 36938 36938 2.5775 0 1 4237 4265 2806 2816 4764 4764 -0.19113466470878393 EDEDDEDF 8 Unmodified _EDEDDEDF_ 0 0 0 ENSG00000163945|ENST00000389851|UVSSA ENSG00000163945|ENST00000389851|UVSSA ENSG00000163945|ENST00000389851|UVSSA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.1654357910156 2 507.164541 1012.31453 NaN NaN NaN NaN NaN NaN NaN 79.211 1 79.872 79.372 80.372 0.66082 0 0 0 0.99035 1 36499 36499 2.5775 0 1 4238 4265 2806 2816 4765 4765 -0.19113466470878393 EDEDEDDEFCW 11 Unmodified _EDEDEDDEFCW_ 0 0 0 REV__nc|ENSG00000111880|O60942-3|RNGTT REV__nc|ENSG00000111880|O60942-3|RNGTT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.82257080078125 3 477.822483 1430.44562 NaN NaN NaN NaN NaN NaN NaN 64.518 1 65.233 64.733 65.733 0.71521 0 0 0 1.0082 1 30400 30400 0.094841 0.094841 1 + 4239 11254 2807 2817 4766 4766 -0.25238443885154993 EDEDEDEGDE 10 Unmodified _EDEDEDEGDE_ 0 0 0 REV__ENSG00000142235|ENST00000600059|LMTK3 REV__ENSG00000142235|ENST00000600059|LMTK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.1861572265625 2 591.183659 1180.35277 NaN NaN NaN NaN NaN NaN NaN 94.735 1 94.817 94.317 95.317 0.082001 0 0 0 1.0015 1 49915 49915 0.45834 0 1 + 4240 12320 2808 2818 4767 4767 -0.23019625346842076 EDEDSAEWRR 10 Unmodified _EDEDSAEWRR_ 0 0 0 ENSG00000164061|ENST00000296452|BSN ENSG00000164061|ENST00000296452|BSN ENSG00000164061|ENST00000296452|BSN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 646.7781372070312 2 646.77873 1291.54291 NaN NaN NaN NaN NaN NaN NaN 89.502 1 90.18 89.68 90.68 0.67818 0 0 0 1.0004 1 41208 41208 1.3295 0 1 4241 4279 2809 2819 4768 4768 -0.09120249103352762 EDEEDEYDYDY 11 Unmodified _EDEEDEYDYDY_ 0 0 0 PLCE1|p.Q1778Pfs*42|1|0.42|ENSG00000138193|chr10:94298540-94298541|-/C|frameshift_variant;nc|ENSG00000138193|Q9P212-2|PLCE1;ENSG00000138193|ENST00000371380|PLCE1 PLCE1|p.Q1778Pfs*42|1|0.42|ENSG00000138193|chr10:94298540-94298541|-/C|frameshift_variant PLCE1|p.Q1778Pfs*42|1|0.42|ENSG00000138193|chr10:94298540-94298541|-/C|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.5494079589844 3 495.500175 1483.47869 NaN NaN NaN NaN NaN NaN NaN 67.632 1 67.632 67.132 68.132 0 0 0 0 1.0082 1 32482 32482 0.094841 0 1 4242 3082 2810 2820 4769 4769 -0.24370538561447574 EDEEEEDDD 9 Unmodified _EDEEEEDDD_ 0 0 0 ENSG00000133704|ENST00000256079|IPO8;nc|ENSG00000133704|O15397-2|IPO8;LMOD3|p.N304Kfs*5|1|0.58|ENSG00000163380|chr3:69119443-69119444|-/T|frameshift_variant;nc|ENSG00000163380|Q0VAK6-2|LMOD3;ENSG00000163380|ENST00000420581|LMOD3;ENSG00000251493|ENST00000615637|FOXD1 ENSG00000133704|ENST00000256079|IPO8;REV__ENSG00000122592|ENST00000242159|HOXA7;ENSG00000251493|ENST00000615637|FOXD1 ENSG00000133704|ENST00000256079|IPO8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.3953857421875 2 562.672928 1123.3313 NaN NaN NaN NaN NaN NaN NaN 70.759 1 70.759 70.259 71.259 0 0 0 0 0.91206 1 34371 34371 0.6015 0 1 4243 2767;6268;11589 2811 2821 4770 4770 -0.22543010375602535 EDEEEEEEEEE 11 Unmodified _EDEEEEEEEEE_ 0 0 0 nc|ENSG00000196235|O00267-2|SUPT5H;ENSG00000196235|ENST00000432763|SUPT5H;ENST00000595368.5_1_19:39936232-39948556:+|nuORF;nc|ENSG00000155846|Q86YN6-3|PPARGC1B;nc|ENSG00000008735|Q13387-2|MAPK8IP2;ENSG00000008735|ENST00000329492|MAPK8IP2;nc|ENSG00000155846|Q86YN6-6|PPARGC1B;nc|ENSG00000155846|Q86YN6-5|PPARGC1B;MYT1L|p.I952Sfs*39|1|0.23|ENSG00000186487|chr2:1840765-1840765|G/-|frameshift_variant;nc|ENSG00000155846|Q86YN6-4|PPARGC1B;nc|ENSG00000155846|Q86YN6-2|PPARGC1B;ENST00000451509.5_1_22:37771856-37771958:-|nuORF;nc|ENSG00000129951|Q6T4P5-3|PLPPR3;ENSG00000196132|ENST00000328439|MYT1;nc|ENSG00000196132|Q01538-2|MYT1;nc|ENSG00000186487|Q9UL68-4|MYT1L;ENSG00000186487|ENST00000647738|MYT1L;nc|ENSG00000156650|Q8WYB5-3|KAT6B;nc|ENSG00000156650|Q8WYB5-2|KAT6B;nc|ENSG00000129951|Q6T4P5-2|PLPPR3;ZNF830|p.E319Vfs*10|1|0.05|ENSG00000198783|chr17:34962521-34962522|-/TCAA|frameshift_variant;ENST00000462641.1_1_22:36907036-36908721:-|nuORF;ENST00000489842.1_1_9:135931263-135933364:+|nuORF;ENSG00000029993|ENST00000325307|HMGB3;nc|ENSG00000204116|Q5VXU3-2|CHIC1;ENSG00000204116|ENST00000373502|CHIC1;ENSG00000277535|ENST00000620151|CT47C1;nc|ENSG00000129951|Q6T4P5-4|PLPPR3;ENSG00000155846|ENST00000309241|PPARGC1B;ENSG00000129951|ENST00000520876|PLPPR3;ENSG00000198783|ENST00000361952|ZNF830;ENST00000490365.1_1_10:76744849-76785012:+|nuORF;nc|ENSG00000100353|O15371-2|EIF3D;ENSG00000105229|ENST00000262971|PIAS4;nc|ENSG00000148308|Q9Y5Q8-3|GTF3C5;nc|ENSG00000100353|O15371-3|EIF3D;ENSG00000100353|ENST00000216190|EIF3D;nc|ENSG00000008735|Q13387-3|MAPK8IP2;ENSG00000156650|ENST00000287239|KAT6B;nc|ENSG00000198160|Q8N108-19|MIER1;nc|ENSG00000198160|Q8N108-16|MIER1;nc|ENSG00000198160|Q8N108-14|MIER1;nc|ENSG00000198160|Q8N108-18|MIER1;nc|ENSG00000198160|Q8N108-17|MIER1;nc|ENSG00000198160|Q8N108-15|MIER1;nc|ENSG00000198160|Q8N108|MIER1;nc|ENSG00000198160|Q8N108-13|MIER1;ENSG00000198160|ENST00000401041|MIER1;nc|ENSG00000115310|Q9NQC3-4|RTN4;ENSG00000115310|ENST00000337526|RTN4;nc|ENSG00000115310|Q9NQC3-2|RTN4;nc|ENSG00000115310|Q9NQC3-5|RTN4;nc|ENSG00000148308|Q9Y5Q8-2|GTF3C5;ENSG00000148308|ENST00000372097|GTF3C5;nc|ENSG00000070729|Q14028-4|CNGB1;ENSG00000070729|ENST00000251102|CNGB1;ENSG00000100401|ENST00000356244|RANGAP1;nc|ENSG00000127152|Q9C0K0-2|BCL11B;ENSG00000127152|ENST00000357195|BCL11B;ENSG00000146216|ENST00000259750|TTBK1;ENSG00000184828|ENST00000590800|ZBTB7C;nc|ENSG00000139116|Q7Z4S6-3|KIF21A;nc|ENSG00000139116|Q7Z4S6-6|KIF21A;nc|ENSG00000139116|Q7Z4S6-5|KIF21A;nc|ENSG00000139116|Q7Z4S6-2|KIF21A;ENSG00000139116|ENST00000361418|KIF21A;nc|ENSG00000139116|Q7Z4S6-4|KIF21A nc|ENSG00000196235|O00267-2|SUPT5H;nc|ENSG00000198160|Q8N108-19|MIER1;REV__nc|ENSG00000143401|Q9BTT0-3|ANP32E;REV__ENSG00000126461|ENST00000360565|SCAF1;REV__ENSG00000110429|ENST00000265651|FBXO3;nc|ENSG00000115310|Q9NQC3-4|RTN4;nc|ENSG00000148308|Q9Y5Q8-2|GTF3C5;REV__ENSG00000140836|ENST00000268489|ZFHX3;nc|ENSG00000070729|Q14028-4|CNGB1;ENSG00000100401|ENST00000356244|RANGAP1;nc|ENSG00000127152|Q9C0K0-2|BCL11B;ENSG00000146216|ENST00000259750|TTBK1;ENSG00000184828|ENST00000590800|ZBTB7C;nc|ENSG00000139116|Q7Z4S6-3|KIF21A;REV__nc|ENSG00000085224|P46100-2|ATRX;REV__nc|ENSG00000116731|Q13029-5|PRDM2;REV__ENSG00000129951|ENST00000520876|PLPPR3;REV__ENSG00000130294|ENST00000498729|KIF1A;REV__nc|ENSG00000156650|Q8WYB5-3|KAT6B;REV__ENSG00000161956|ENST00000321337|SENP3;REV__ENST00000480912.5_1_6:31847863-31860642:-|nuORF nc|ENSG00000196235|O00267-2|SUPT5H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 475.2281799316406 3 475.495089 1423.46344 2.3612 0.0011227 -1.9664 -0.00093501 0.39482 0.00018773 475.4943490828423 64.8 0.026688 65.516 65.494 65.521 0.71521 4 2 2 0 0 0 0.91378 1 30539 30539 0.094841 0 1 953620 4244 5728;12779;11710;10641;5870;11810;1962;12267;11416;9667;3506;11798;2475;12922;1215;769;3598;11204;12368;5463;14412 2812 2822 4771 4771 -0.23135450149288772 EDEEEMEHQEE 11 Unmodified _EDEEEMEHQEE_ 0 0 0 ENST00000485450.5_1_3:49315728-49349110:-|nuORF;nc|ENSG00000114316|Q13107-2|USP4;ENSG00000114316|ENST00000265560|USP4 ENST00000485450.5_1_3:49315728-49349110:-|nuORF ENST00000485450.5_1_3:49315728-49349110:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.5076599121094 3 478.505154 1432.49363 NaN NaN NaN NaN NaN NaN NaN 71.511 1 72.214 71.714 72.714 0.70386 0 0 0 1.008 1 34350 34350 0.094841 0 1 4245 1896 2813 2823 4772 4772 -0.20531369965078738 EDEEWCPAPTS 11 Unmodified _EDEEWCPAPTS_ 0 0 0 REV__nc|ENSG00000160570|Q8WXF8-2|DEDD2 REV__nc|ENSG00000160570|Q8WXF8-2|DEDD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.8346862792969 3 421.832654 1262.47613 NaN NaN NaN NaN NaN NaN NaN 4.2823 1 4.2823 3.7823 4.7823 0 0 0 0 1.008 1 1947 1947 0.08335 0 1 + 4246 12883 2814 2824 4773 4773 -0.14460620709451177 EDEEWCPAPTS 11 Unmodified _EDEEWCPAPTS_ 0 0 0 REV__nc|ENSG00000160570|Q8WXF8-2|DEDD2 REV__nc|ENSG00000160570|Q8WXF8-2|DEDD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.83465576171875 3 421.832654 1262.47613 NaN NaN NaN NaN NaN NaN NaN 4.5073 1 5.1299 4.6299 5.6299 0.62252 0 0 0 1.008 1 2045 2045 0.08335 0.010087 1 + 4247 12883 2814 2824 4774 4774 -0.14460620709451177 EDEMEIYGYN 10 Unmodified _EDEMEIYGYN_ 0 0 0 ATP13A3|p.T754Ifs*18|1|0.35|ENSG00000133657|chr3:194431877-194431878|-/TCAA|frameshift_variant;nc|ENSG00000133657|Q9H7F0|ATP13A3;ENSG00000133657|ENST00000645319|ATP13A3 ATP13A3|p.T754Ifs*18|1|0.35|ENSG00000133657|chr3:194431877-194431878|-/TCAA|frameshift_variant ATP13A3|p.T754Ifs*18|1|0.35|ENSG00000133657|chr3:194431877-194431878|-/TCAA|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 631.5326538085938 2 631.747718 1261.48088 3.2555 0.0020566 3.8061 0.0024045 7.0616 0.0044612 632.2531595482968 82.83 0.074493 82.83 82.786 82.861 0 10 8 2 0 0 0 0.12676 1 41605 41605 1.4819 1.1749 1 5975200 4248 80 2815 2825 4775 4775 -0.13939736566658212 EDETEPQL 8 Unmodified _EDETEPQL_ 0 0 0 REV__ENSG00000100565|ENST00000689127|LRRC74A REV__ENSG00000100565|ENST00000689127|LRRC74A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.7129211425781 2 480.711462 959.408371 NaN NaN NaN NaN NaN NaN NaN 82.167 1 82.414 81.914 82.914 0.24722 0 0 0 0.99035 1 37821 37821 5.7604 0 1 + 4249 10835 2816 2826 4776 4776 -0.0729570257794876 EDEYFDWVWDD 11 Unmodified _EDEYFDWVWDD_ 0 0 0 ENSG00000162032|ENST00000566339|SPSB3 ENSG00000162032|ENST00000566339|SPSB3 ENSG00000162032|ENST00000566339|SPSB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 759.7894287109375 2 759.788429 1517.56231 NaN NaN NaN NaN NaN NaN NaN 93.187 1 93.273 92.773 93.773 0.086212 0 0 0 1.008 1 48755 48755 0.35063 0 1 4250 4116 2817 2827 4777 4777 -0.17577337603097476 EDFYSRLLQL 10 Unmodified _EDFYSRLLQL_ 0 0 0 ENST00000535141.6_1_15:66797640-66806344:+|nuORF ENST00000535141.6_1_15:66797640-66806344:+|nuORF ENST00000535141.6_1_15:66797640-66806344:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 642.3353881835938 2 642.335153 1282.65575 3.1054 0.0019947 1.4309 0.00091913 4.5363 0.0029138 642.3358218312409 74.306 0.35027 74.993 74.877 75.228 0.68662 53 26 3 0 0 0 0.13545 1 35892 35892 47.749 0 1 2299700 4251 8760 2818 2828 4778 4778 0.02573051360673162 EDFYSRLLQL 10 Unmodified _EDFYSRLLQL_ 0 0 0 ENST00000535141.6_1_15:66797640-66806344:+|nuORF ENST00000535141.6_1_15:66797640-66806344:+|nuORF ENST00000535141.6_1_15:66797640-66806344:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 642.3400268554688 2 642.335153 1282.65575 3.4405 0.0022099 2.5581 0.0016432 5.9986 0.0038531 642.3361013625046 74.327 0.26754 74.991 74.87 75.138 0.6644 42 30 2 0 0 0 0.25519 1 34218 34218 32.786 5.1569 1 1137500 4252 8760 2818 2828 4779 4779 0.02573051360673162 EDGDDEDD 8 Unmodified _EDGDDEDD_ 0 0 0 REV__ENST00000469080.5_1_X:47092634-47106681:+|nuORF REV__ENST00000469080.5_1_X:47092634-47106681:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.7376708984375 2 455.133241 908.25193 NaN NaN NaN NaN NaN NaN NaN 72.131 1 72.39 71.89 72.89 0.25876 0 0 0 0.99035 1 33106 33106 0.79363 0 1 + 4253 10924 2819 2829 4780 4780 -0.20586612539079852 EDGDDEDWEED 11 Unmodified _EDGDDEDWEED_ 0 0 0 ENSG00000205339|ENST00000379719|IPO7 ENSG00000205339|ENST00000379719|IPO7 ENSG00000205339|ENST00000379719|IPO7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.2157592773438 2 677.215491 1352.41643 NaN NaN NaN NaN NaN NaN NaN 23.086 1 23.772 23.272 24.272 0.68536 0 0 0 1.0082 1 10284 10284 0 0 1 4254 6046 2820 2830 4781 4781 -0.24568264909771642 EDGFEAEL 8 Unmodified _EDGFEAEL_ 0 0 0 ENSG00000167393|ENST00000390665|PPP2R3B;nc|ENSG00000292327|Q9Y5P8-2|PPP2R3B ENSG00000167393|ENST00000390665|PPP2R3B ENSG00000167393|ENST00000390665|PPP2R3B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 455.1965026855469 2 455.195448 908.376342 NaN NaN NaN NaN NaN NaN NaN 61.029 1 61.285 60.785 61.785 0.25578 0 0 0 0.99035 1 27948 27948 5.2307 0 1 4255 4548 2821 2831 4782 4782 -0.08151070261089899 EDGVRNGWF 9 Unmodified _EDGVRNGWF_ 0 0 0 REV__ENSG00000167207|ENST00000647318|NOD2 REV__ENSG00000167207|ENST00000647318|NOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 360.50262451171875 3 360.501679 1078.48321 2.5638 0.00092424 0.025231 9.0959E-06 2.589 0.00093334 360.5016842354687 45.059 0.4149 45.059 44.858 45.272 0 52 22 3 0 0 0 0.59776 2 20581 20533;20581 7.1017 0.47135 1 3638300 + 4256 13281 2822 2832 4783;4784 4784 -0.05289475256040532 EDGVRNGWF 9 Unmodified _EDGVRNGWF_ 0 0 0 REV__ENSG00000167207|ENST00000647318|NOD2 REV__ENSG00000167207|ENST00000647318|NOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 360.5024719238281 3 360.501679 1078.48321 2.27 0.00081835 0.08449 3.0459E-05 2.3545 0.00084881 360.5016968354374 43.915 0.5616 44.736 44.412 44.973 0.82075 96 35 4 0 0 0 0.3144 2 19974 19931;19974 10.8 3.1906 1 4032900 + 4257 13281 2822 2832 4785;4786 4786 -0.05289475256040532 EDGVRNGWF 9 Unmodified _EDGVRNGWF_ 0 0 0 REV__ENSG00000167207|ENST00000647318|NOD2 REV__ENSG00000167207|ENST00000647318|NOD2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 360.22271728515625 3 360.501679 1078.48321 2.27 0.00081835 0.08449 3.0459E-05 2.3545 0.00084881 360.5016968354374 43.915 0.5616 44.736 44.412 44.973 0.82075 96 35 4 0 0 0 0.10847 1 19990 19990 7.1017 7.1017 1 4032900 + 4258 13281 2822 2832 4787 4787 -0.05289475256040532 EDGVRNGWF 9 Unmodified _EDGVRNGWF_ 0 0 0 REV__ENSG00000167207|ENST00000647318|NOD2 REV__ENSG00000167207|ENST00000647318|NOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.5025634765625 3 360.501679 1078.48321 2.4585 0.0008863 0.5102 0.00018393 2.9687 0.0010702 360.50182831053775 45.069 0.54932 45.336 45.012 45.562 0.26768 79 28 4 0 0 0 0.59776 1 20643 20643 7.1017 2.5729 1 5672300 + 4259 13281 2822 2832 4788 4788 -0.05289475256040532 EDGVRNGWF 9 Unmodified _EDGVRNGWF_ 0 0 0 REV__ENSG00000167207|ENST00000647318|NOD2 REV__ENSG00000167207|ENST00000647318|NOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.5025939941406 3 360.501679 1078.48321 2.6936 0.00097104 0.4471 0.00016118 3.1407 0.0011322 360.5018220776206 44.399 0.52647 45.049 44.793 45.319 0.64999 72 24 4 0 0 0 0.59776 1 20382 20382 7.1017 0.89594 1 4311300 + 4260 13281 2822 2832 4789 4789 -0.05289475256040532 EDGVRNGWF 9 Unmodified _EDGVRNGWF_ 0 0 0 REV__ENSG00000167207|ENST00000647318|NOD2 REV__ENSG00000167207|ENST00000647318|NOD2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 360.501679 1078.48321 2.5638 0.00092424 0.025231 9.0959E-06 2.589 0.00093334 360.5016842354687 45.059 0.4149 45.059 44.858 45.272 0 0.11135 -0.00018066 NaN 10.8 52 22 3 NaN NaN NaN NaN 0 NaN NaN 0 3638300 + 4261 13281 2822 2832 -0.05289475256040532 EDGVRNGWF 9 Unmodified _EDGVRNGWF_ 0 0 0 REV__ENSG00000167207|ENST00000647318|NOD2 REV__ENSG00000167207|ENST00000647318|NOD2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 360.501679 1078.48321 2.6936 0.00097104 0.4471 0.00016118 3.1407 0.0011322 360.5018220776206 44.399 0.52647 45.049 44.793 45.319 0.64999 0.10075 0.00027559 NaN 10.8 72 24 4 NaN NaN NaN NaN 0 NaN NaN 0 4311300 + 4262 13281 2822 2832 -0.05289475256040532 EDGYEDYYYDY 11 Unmodified _EDGYEDYYYDY_ 0 0 0 NAP1L2|p.D200E|1|0.06|ENSG00000186462|chrX:73213893-73213893|G/C|missense_variant NAP1L2|p.D200E|1|0.06|ENSG00000186462|chrX:73213893-73213893|G/C|missense_variant NAP1L2|p.D200E|1|0.06|ENSG00000186462|chrX:73213893-73213893|G/C|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 747.7646484375 2 747.76462 1493.51469 NaN NaN NaN NaN NaN NaN NaN 17.233 1 17.233 16.733 17.733 0 0 0 0 1.0082 1 7653 7653 0 0 1 4263 9529 2823 2833 4790 4790 -0.21233036593912402 EDHRQFYS 8 Unmodified _EDHRQFYS_ 0 0 0 REV__ENSG00000006607|ENST00000264042|FARP2 REV__ENSG00000006607|ENST00000264042|FARP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1080.975830078125 1 1081.46975 1080.46247 3.385 0.0036608 -1.3597 -0.0014705 2.0253 0.0021903 1081.4677977301264 67.395 0.23039 68.053 67.89 68.12 0.65777 13 13 2 0 0 0 0.14267 1 30899 30899 2.5775 0 1 356010 + 4264 10192 2824 2834 4791 4791 -0.07454065635715779 EDKKKKKKKK 10 Unmodified _EDKKKKKKKK_ 0 0 0 ENSG00000181585|ENST00000643606|TMIE REV__ENSG00000235750|ENST00000423313|KIAA0040 REV__ENSG00000235750|ENST00000423313|KIAA0040 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 644.42724609375 2 644.427179 1286.8398 NaN NaN NaN NaN NaN NaN NaN 76.04 1 76.704 76.204 77.204 0.66387 0 0 0 1.0015 1 35031 35031 0.45834 0.057624 1 4265 5292 2825 2835 4792 4792 0.20785864582012437 EDKVEKKESLL 11 Unmodified _EDKVEKKESLL_ 0 0 0 ENST00000533466.1_1_11:28098218-28119398:-|nuORF ENST00000533466.1_1_11:28098218-28119398:-|nuORF ENST00000533466.1_1_11:28098218-28119398:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 659.3698120117188 2 659.36665 1316.71875 NaN NaN NaN NaN NaN NaN NaN 98.714 1 98.714 98.214 99.214 0 0 0 0 0.88712 1 54095 54095 17.443 7.2921 1 4266 8746 2826 2836 4793 4793 0.07305572358063728 EDLNQVITI 9 Unmodified _EDLNQVITI_ 0 0 0 nc|ENSG00000173230|Q14789-4|GOLGB1;nc|ENSG00000173230|Q14789-3|GOLGB1;nc|ENSG00000173230|Q14789|GOLGB1;ENSG00000173230|ENST00000614479|GOLGB1;nc|ENSG00000173230|Q14789-2|GOLGB1 nc|ENSG00000173230|Q14789-4|GOLGB1 nc|ENSG00000173230|Q14789-4|GOLGB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.7838134765625 2 522.782222 1043.54989 3.1788 0.0016618 1.1002 0.00057518 4.279 0.002237 522.7828431823112 53.541 0.48759 54.206 54.003 54.491 0.6644 51 23 3 0 0 0 0.020151 1 24450 24450 68.081 1.624 1 1621300 4267 4921 2827 2837 4794 4794 0.029857155152058112 EDLPQLVVM 9 Unmodified _EDLPQLVVM_ 0 0 0 REV__nc|ENSG00000144445|A0AUZ9-2|KANSL1L REV__nc|ENSG00000144445|A0AUZ9-2|KANSL1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.4795532226562 2 522.275718 1042.53688 2.6068 0.0013615 0.25112 0.00013116 2.8579 0.0014926 522.27585842702 67.82 0.49063 67.82 67.601 68.091 0 96 63 2 0 0 0 0.063575 4 32489 32462;32489;32514;32659 41.84 5.3509 1 4553900 + 4268 12403 2828 2838 4795;4796;4797;4798 4796 0.017315611314415946 EDLPQLVVM 9 Unmodified _EDLPQLVVM_ 0 0 0 REV__nc|ENSG00000144445|A0AUZ9-2|KANSL1L REV__nc|ENSG00000144445|A0AUZ9-2|KANSL1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.2770385742188 2 522.275718 1042.53688 2.7349 0.0014284 -0.50393 -0.00026319 2.231 0.0011652 522.2754781577879 66.977 0.5149 67.682 67.374 67.889 0.7047 158 64 3 0 0 0 0.043585 2 31789 31789;31845 49.933 6.616 1 5359500 + 4269 12403 2828 2838 4799;4800 4799 0.017315611314415946 EDLVTKLNA 9 Unmodified _EDLVTKLNA_ 0 0 0 ENSG00000265203|ENST00000584701|RBP3 ENSG00000265203|ENST00000584701|RBP3 ENSG00000265203|ENST00000584701|RBP3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.1134948730469 3 334.853718 1001.53933 2.3288 0.00077982 -0.19498 -6.5289E-05 2.1339 0.00071453 334.85465155546626 66.753 0.91362 67.41 66.864 67.778 0.65672 80 52 2 0 0 0 0.11293 1 30469 30469 0.96228 0 1 711600 4270 6317 2829 2839 4801 4801 0.038617328607642776 EDMEKVKL 8 Unmodified _EDMEKVKL_ 0 0 0 ENSG00000164742|ENST00000297323|ADCY1 ENSG00000164742|ENST00000297323|ADCY1 ENSG00000164742|ENST00000297323|ADCY1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.2591857910156 2 496.260068 990.505582 NaN NaN NaN NaN NaN NaN NaN 49.526 1 49.787 49.287 50.287 0.26146 0 0 0 0.72306 1 22638 22638 21.747 4.8044 1 4271 4341 2830 2840 4802 4802 0.00994988097352234 EDMTEDELWEF 11 Unmodified _EDMTEDELWEF_ 0 0 0 ENST00000456601.1_1_2:239140945-239144573:+|nuORF ENST00000456601.1_1_2:239140945-239144573:+|nuORF ENST00000456601.1_1_2:239140945-239144573:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.9610290527344 3 481.858869 1442.55478 NaN NaN NaN NaN NaN NaN NaN 72.531 1 72.79 72.29 73.29 0.25876 0 0 0 1.008 1 33297 33297 0.094841 0 1 4272 8050 2831 2841 4803 4803 -0.1487981319503433 EDMVEADEY 9 Unmodified _EDMVEADEY_ 0 0 0 ENSG00000044090|ENST00000265348|CUL7;nc|ENSG00000044090|Q14999-2|CUL7 ENSG00000044090|ENST00000265348|CUL7 ENSG00000044090|ENST00000265348|CUL7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.7071533203125 2 550.708062 1099.40157 NaN NaN NaN NaN NaN NaN NaN 52.178 1 52.988 52.488 53.488 0.81065 0 0 0 0.90611 1 23770 23770 2.0598 0.21551 1 4273 547 2832 2842 4804 4804 -0.14415383520827163 EDNDEDDND 9 Unmodified _EDNDEDDND_ 0 0 0 ENSG00000122085|ENST00000391980|MTERF4 ENSG00000122085|ENST00000391980|MTERF4 ENSG00000122085|ENST00000391980|MTERF4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.62109375 2 540.665437 1079.31632 NaN NaN NaN NaN NaN NaN NaN 73.776 1 74.441 73.941 74.941 0.6644 0 0 0 0.91206 1 33931 33931 0.6015 0 1 4274 2255 2833 2843 4805 4805 -0.22016457452923532 EDPEEHDDG 9 Unmodified _EDPEEHDDG_ 0 0 0 REV__ENST00000519029.1_1_8:67896384-67896720:-|nuORF REV__ENST00000519029.1_1_8:67896384-67896720:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.927001953125 2 521.683433 1041.35231 NaN NaN NaN NaN NaN NaN NaN 76.217 1 76.474 75.974 76.974 0.25704 0 0 0 0.89509 1 35089 35089 4.756 0 1 + 4275 17032 2834 2844 4806 4806 -0.16670955485437844 EDPPKWEQELD 11 Unmodified _EDPPKWEQELD_ 0 0 0 REV__ENSG00000166173|ENST00000299213|LARP6 REV__ENSG00000166173|ENST00000299213|LARP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 693.3134765625 2 693.314614 1384.61468 NaN NaN NaN NaN NaN NaN NaN 76.783 1 77.407 76.907 77.907 0.62397 0 0 0 1.0072 1 37226 37226 1.3295 0 1 + 4276 13215 2835 2845 4807 4807 -0.062247544694855605 EDPSCGYDE 9 Unmodified _EDPSCGYDE_ 0 0 0 REV__ENSG00000124406|ENST00000381668|ATP8A1 REV__ENSG00000124406|ENST00000381668|ATP8A1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.8204345703125 2 507.671479 1013.32841 2.5532 0.0012962 1.4386 0.00073032 3.9918 0.0020265 507.672310542736 65.62 0.065094 65.62 65.568 65.633 0 6 4 2 0 0 0 0.11288 1 31262 31262 2.0598 1.535 1 899010 + 4277 11654 2836 2846 4808 4808 -0.1777251224344809 EDPSCGYDE 9 Unmodified _EDPSCGYDE_ 0 0 0 REV__ENSG00000124406|ENST00000381668|ATP8A1 REV__ENSG00000124406|ENST00000381668|ATP8A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.6455078125 2 507.671479 1013.32841 NaN NaN NaN NaN NaN NaN NaN 62.318 1 63.048 62.548 63.548 0.73077 0 0 0 0.90611 1 29033 29033 2.0598 1.2661 1 + 4278 11654 2836 2846 4809 4809 -0.1777251224344809 EDPTTVTVI 9 Unmodified _EDPTTVTVI_ 0 0 0 REV__ENSG00000138792|ENST00000265162|ENPEP REV__ENSG00000138792|ENST00000265162|ENPEP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.7572326660156 2 487.755672 973.496792 3.3547 0.0016363 -0.28924 -0.00014108 3.0655 0.0014952 487.7556230224756 54.773 0.3032 54.773 54.701 55.005 0 44 31 2 0 0 0 0.041436 2 25217 25217;25250 50.855 6.2061 1 1229600 + 4279 12192 2837 2847 4810;4811 4810 0.008983377325421316 EDPTTVTVI 9 Unmodified _EDPTTVTVI_ 0 0 0 REV__ENSG00000138792|ENST00000265162|ENPEP REV__ENSG00000138792|ENST00000265162|ENPEP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.7571105957031 2 487.755672 973.496792 2.8919 0.0014106 0.42628 0.00020792 3.3182 0.0016185 487.75581286084054 54.665 0.35501 54.93 54.585 54.94 0.26543 28 15 2 0 0 0 0.041436 2 24964 24898;24964 50.855 7.5574 1 955060 + 4280 12192 2837 2847 4812;4813 4813 0.008983377325421316 EDPTTVTVI 9 Unmodified _EDPTTVTVI_ 0 0 0 REV__ENSG00000138792|ENST00000265162|ENPEP REV__ENSG00000138792|ENST00000265162|ENPEP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.75762939453125 2 487.755672 973.496792 NaN NaN NaN NaN NaN NaN NaN 53.851 1 54.517 54.017 55.017 0.66545 0 0 0 0.13032 1 24627 24627 36.044 5.8194 1 + 4281 12192 2837 2847 4814 4814 0.008983377325421316 EDPWNCYMC 9 Unmodified _EDPWNCYMC_ 0 0 0 DNMT3A|p.E616Dfs*35|1|0.15|ENSG00000119772|chr2:25244158-25244158|T/-|frameshift_variant;DNMT3A|p.S839Pfs*2|1|0.35|ENSG00000119772|chr2:25235789-25235789|A/-|frameshift_variant;ENSG00000119772|ENST00000321117|DNMT3A;ENST00000474887.5_1_2:25458684-25467188:-|nuORF;nc|ENSG00000119772|Q9Y6K1-2|DNMT3A DNMT3A|p.E616Dfs*35|1|0.15|ENSG00000119772|chr2:25244158-25244158|T/-|frameshift_variant DNMT3A|p.E616Dfs*35|1|0.15|ENSG00000119772|chr2:25244158-25244158|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 580.69580078125 2 580.69592 1159.37729 NaN NaN NaN NaN NaN NaN NaN 62.189 1 62.189 61.689 62.689 0 0 0 0 0.90611 1 29121 29121 2.0598 0.21551 1 4282 274 2838 2848 4815 4815 -0.19602638479705092 EDPWNCYMC 9 Unmodified _EDPWNCYMC_ 0 0 0 DNMT3A|p.E616Dfs*35|1|0.15|ENSG00000119772|chr2:25244158-25244158|T/-|frameshift_variant;DNMT3A|p.S839Pfs*2|1|0.35|ENSG00000119772|chr2:25235789-25235789|A/-|frameshift_variant;ENSG00000119772|ENST00000321117|DNMT3A;ENST00000474887.5_1_2:25458684-25467188:-|nuORF;nc|ENSG00000119772|Q9Y6K1-2|DNMT3A DNMT3A|p.E616Dfs*35|1|0.15|ENSG00000119772|chr2:25244158-25244158|T/-|frameshift_variant DNMT3A|p.E616Dfs*35|1|0.15|ENSG00000119772|chr2:25244158-25244158|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 580.6969604492188 2 580.69592 1159.37729 NaN NaN NaN NaN NaN NaN NaN 63.293 1 64.015 63.515 64.515 0.72236 0 0 0 0.89509 1 29635 29635 4.756 2.6963 1 4283 274 2838 2848 4816 4816 -0.19602638479705092 EDQKKLNLWPV 11 Unmodified _EDQKKLNLWPV_ 0 0 0 REV__nc|ENSG00000114107|Q8NHQ1-2|CEP70 REV__nc|ENSG00000114107|Q8NHQ1-2|CEP70 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.3802490234375 2 685.377352 1368.74015 NaN NaN NaN NaN NaN NaN NaN 89.36 1 89.36 88.86 89.86 0 0 0 0 1.0057 1 46643 46643 3.2813 0 1 + 4284 11316 2839 2849 4817 4817 0.07053002177394774 EDQLLWCPD 9 Unmodified _EDQLLWCPD_ 0 0 0 ENST00000452157.5_1_5:56218957-56234137:-|nuORF;nc|ENSG00000155545|Q7Z3K6-4|MIER3;nc|ENSG00000155545|Q7Z3K6-3|MIER3;ENSG00000155545|ENST00000381199|MIER3;nc|ENSG00000155545|Q7Z3K6-2|MIER3 ENST00000452157.5_1_5:56218957-56234137:-|nuORF ENST00000452157.5_1_5:56218957-56234137:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 373.4997253417969 3 373.498947 1117.47501 NaN NaN NaN NaN NaN NaN NaN 59.94 1 60.605 60.105 61.105 0.66503 0 0 0 0.90699 1 27437 27437 0.96228 0 1 4285 3867 2840 2850 4818 4818 -0.07902790287698735 EDSAGECCSC 10 Unmodified _EDSAGECCSC_ 0 0 0 nc|ENSG00000171105|P06213-2|INSR;ENSG00000171105|ENST00000302850|INSR nc|ENSG00000171105|P06213-2|INSR nc|ENSG00000171105|P06213-2|INSR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 502.1430969238281 2 502.143717 1002.27288 NaN NaN NaN NaN NaN NaN NaN 66.862 1 67.567 67.067 68.067 0.7047 0 0 0 1.002 1 31722 31722 0 0 1 4286 4786 2841 2851 4819 4819 -0.22816385027078923 EDSGCCCASC 10 Unmodified _EDSGCCCASC_ 0 0 0 REV__ENSG00000106404|ENST00000308344|CLDN15 REV__ENSG00000106404|ENST00000308344|CLDN15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.2773132324219 2 489.127013 976.239473 NaN NaN NaN NaN NaN NaN NaN 75.014 1 75.678 75.178 76.178 0.6644 0 0 0 1.0015 1 34548 34548 0.45834 0.057624 1 + 4287 11081 2842 2852 4820 4820 -0.24959710070629626 EDSKLYQLVY 10 Unmodified _EDSKLYQLVY_ 0 0 0 ENST00000471517.5_1_19:38845366-38853372:+|nuORF;ENST00000412458.6_1_19:38845366-38860119:+|nuORF;ENSG00000099338|ENST00000409235|CATSPERG ENST00000471517.5_1_19:38845366-38853372:+|nuORF ENST00000471517.5_1_19:38845366-38853372:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 629.3237915039062 2 629.321711 1256.62887 4.0355 0.0025396 -0.69372 -0.00043658 3.3418 0.002103 629.3214672035655 103.36 0.23116 103.96 103.8 104.04 0.59821 31 15 3 0 0 0 0.94217 1 47840 47840 0.45834 0 1 594800 4288 1140 2843 2853 4821 4821 0.0108194274946527 EDTDDEDEM 9 Unmodified _EDTDDEDEM_ 0 0 0 REV__nc|ENSG00000174197|Q8IWI9-3|MGA REV__nc|ENSG00000174197|Q8IWI9-3|MGA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.9404907226562 2 549.674416 1097.33428 NaN NaN NaN NaN NaN NaN NaN 65.081 1 65.79 65.29 66.29 0.70891 0 0 0 0.91206 1 30720 30720 0.6015 0 1 + 4289 13624 2844 2854 4822 4822 -0.21049458522429632 EDVKEKIFQ 9 Unmodified _EDVKEKIFQ_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;TTN|p.R30215Vfs*13|1|0.21|ENSG00000155657|chr2:178545544-178545544|G/-|frameshift_variant;TTN|p.P20319Hfs*66|1|0.07|ENSG00000155657|chr2:178582577-178582578|-/AAAATAAATAT|frameshift_variant;TTN|p.A15448Hfs*16|1|0.24|ENSG00000155657|chr2:178610249-178610261|TTCTCCTCCCAGC/-|frameshift_variant;TTN|p.G17760Ifs*40|1|0.07|ENSG00000155657|chr2:178594192-178594193|-/TCGACTTCAGAGAT|frameshift_variant;TTN|p.V17759Afs*3|1|0.05|ENSG00000155657|chr2:178594194-178594195|-/G|frameshift_variant ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.3032836914062 2 568.303321 1134.59209 NaN NaN NaN NaN NaN NaN NaN 97.139 1 97.741 97.241 98.241 0.6019 0 0 0 0.90699 1 44664 44664 1.8442 0 1 4290 3871 2845 2855 4823 4823 0.030176909235706262 EDWDLRGRYFY 11 Unmodified _EDWDLRGRYFY_ 0 0 0 REV__nc|ENSG00000176444|P49760-3|CLK2 REV__nc|ENSG00000176444|P49760-3|CLK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 760.3519897460938 2 760.351865 1518.68918 NaN NaN NaN NaN NaN NaN NaN 70.793 1 70.793 70.293 71.293 0 0 0 0 1.0071 1 34390 34390 1.4819 0.15237 1 + 4291 13705 2846 2856 4824 4824 -0.049419468674386735 EDWDPFRFRHM 11 Unmodified _EDWDPFRFRHM_ 0 0 0 nc|ENSG00000156299|Q13009-2|TIAM1;ENSG00000156299|ENST00000541036|TIAM1 nc|ENSG00000156299|Q13009-2|TIAM1 nc|ENSG00000156299|Q13009-2|TIAM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.5621948242188 3 512.566465 1534.67757 NaN NaN NaN NaN NaN NaN NaN 65.453 1 65.453 64.953 65.953 0 0 0 0 1.0082 1 31191 31191 0.094841 0 1 4292 3905 2847 2857 4825 4825 -0.06838467162424422 EDWMNFYINYY 11 Unmodified _EDWMNFYINYY_ 0 0 0 ENST00000569954.1_1_16:31539246-31540009:+|nuORF;ENSG00000169877|ENST00000302312|AHSP ENST00000569954.1_1_16:31539246-31540009:+|nuORF ENST00000569954.1_1_16:31539246-31540009:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.852294921875 3 519.883349 1556.62822 NaN NaN NaN NaN NaN NaN NaN 67.825 1 67.825 67.325 68.325 0 0 0 0 1.0082 1 32589 32589 0.094841 0.094841 1 4293 4717 2848 2858 4826 4826 -0.1278321996185241 EDYDDDDDEI 10 Unmodified _EDYDDDDDEI_ 0 0 0 REV__ENST00000547969.5_1_12:76443520-76446936:-|nuORF REV__ENST00000547969.5_1_12:76443520-76446936:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 622.2093505859375 2 622.209677 1242.4048 NaN NaN NaN NaN NaN NaN NaN 56.711 1 56.975 56.475 57.475 0.26455 0 0 0 1.0015 1 25947 25947 0.45834 0 1 + 4294 14087 2849 2859 4827 4827 -0.2067046193310489 EDYDELCC 8 Unmodified _EDYDELCC_ 0 0 0 REV__ENST00000503533.1_1_5:175511965-175524816:+|nuORF REV__ENST00000503533.1_1_5:175511965-175524816:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.1617736816406 2 495.164976 988.315398 NaN NaN NaN NaN NaN NaN NaN 66.215 1 66.919 66.419 67.419 0.7047 0 0 0 0.99035 1 31375 31375 0.79363 0 1 + 4295 16904 2850 2860 4828 4828 -0.17922666627191575 EDYRWWWRNFL 11 Unmodified _EDYRWWWRNFL_ 0 0 0 ENSG00000101337|ENST00000398022|TM9SF4 ENSG00000101337|ENST00000398022|TM9SF4 ENSG00000101337|ENST00000398022|TM9SF4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.599365234375 3 557.600275 1669.779 NaN NaN NaN NaN NaN NaN NaN 61.564 1 62.295 61.795 62.795 0.73077 0 0 0 1.0082 1 28570 28570 0.094841 0.094841 1 4296 1284 2851 2861 4829 4829 -0.029102724681933978 EEAPARKL 8 Unmodified _EEAPARKL_ 0 0 0 ENSG00000025293|ENST00000374012|PHF20 ENSG00000025293|ENST00000374012|PHF20 ENSG00000025293|ENST00000374012|PHF20 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.18511962890625 3 305.174903 912.50288 NaN NaN NaN NaN NaN NaN NaN 49.288 1 49.55 49.05 50.05 0.26146 0 0 0 0.99035 1 22531 22531 1.6526 0 1 4297 477 2852 2862 4830 4830 0.04312900754700877 EECCCCCCCDL 11 Unmodified _EECCCCCCCDL_ 0 0 0 REV__ENSG00000170075|ENST00000367282|GPR37L1 REV__ENSG00000170075|ENST00000367282|GPR37L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.6452026367188 2 613.642801 1225.27105 NaN NaN NaN NaN NaN NaN NaN 80.357 1 80.357 79.857 80.857 0 0 0 0 1.0082 1 39879 39879 0 0 1 + 4298 13420 2853 2863 4831 4831 -0.33257544694856733 EECCCCCCEMF 11 Unmodified _EECCCCCCEMF_ 0 0 0 REV__ENSG00000170775|ENST00000303921|GPR37 REV__ENSG00000170775|ENST00000303921|GPR37 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 651.6563720703125 2 651.658451 1301.30235 NaN NaN NaN NaN NaN NaN NaN 82.178 1 82.178 81.678 82.678 0 0 0 0 1.0082 1 41054 41054 0 0 1 + 4299 13451 2854 2864 4832 4832 -0.33624971660788106 EECCCCCCEMF 11 Unmodified _EECCCCCCEMF_ 0 0 0 REV__ENSG00000170775|ENST00000303921|GPR37 REV__ENSG00000170775|ENST00000303921|GPR37 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 651.5274047851562 2 651.658451 1301.30235 NaN NaN NaN NaN NaN NaN NaN 36.121 1 36.379 35.879 36.879 0.25768 0 0 0 1.0082 1 16453 16453 0 0 1 + 4300 13451 2854 2864 4833 4833 -0.33624971660788106 EECCSEWDCMC 11 Unmodified _EECCSEWDCMC_ 0 0 0 nc|ENSG00000186891|Q9Y5U5-3|TNFRSF18;ENSG00000186891|ENST00000379268|TNFRSF18;nc|ENSG00000186891|Q9Y5U5-2|TNFRSF18 nc|ENSG00000186891|Q9Y5U5-3|TNFRSF18 nc|ENSG00000186891|Q9Y5U5-3|TNFRSF18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 669.18505859375 2 669.184202 1336.35385 NaN NaN NaN NaN NaN NaN NaN 77.393 1 77.393 76.893 77.893 0 0 0 0 1.0082 1 37957 37957 0 0 1 4301 5593 2855 2865 4834 4834 -0.3008718837083961 EEDACSPC 8 Unmodified _EEDACSPC_ 0 0 0 ENST00000368309.3_1_1:156006093-156006240:-|nuORF ENST00000368309.3_1_1:156006093-156006240:-|nuORF ENST00000368309.3_1_1:156006093-156006240:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 426.8110046386719 2 427.138761 852.262969 NaN NaN NaN NaN NaN NaN NaN 76.256 1 76.919 76.419 77.419 0.66387 0 0 0 0.99035 1 35129 35129 0.69038 0.69038 1 4302 7275 2856 2866 4835 4835 -0.16907204970152634 EEDGEAYEEDP 11 Unmodified _EEDGEAYEEDP_ 0 0 0 ENSG00000011451|ENST00000673675|WIZ;nc|ENSG00000011451|O95785|WIZ ENSG00000011451|ENST00000673675|WIZ ENSG00000011451|ENST00000673675|WIZ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.7324829101562 2 641.73332 1281.45209 NaN NaN NaN NaN NaN NaN NaN 69.99 1 70.693 70.193 71.193 0.70302 0 0 0 1.0038 1 33518 33518 5.7319 0 1 4303 416 2857 2867 4836 4836 -0.17738182662151303 EEDLLYWVD 9 Unmodified _EEDLLYWVD_ 0 0 0 ENSG00000081479|ENST00000649046|LRP2;LRP2|p.N4549Kfs*8|1|0.33|ENSG00000081479|chr2:169132655-169132655|A/-|frameshift_variant ENSG00000081479|ENST00000649046|LRP2 ENSG00000081479|ENST00000649046|LRP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.27490234375 2 591.271687 1180.52882 3.1601 0.0018685 -0.32056 -0.00018954 2.8396 0.001679 591.2716522525022 13.232 0.23586 13.475 13.353 13.589 0.24346 52 17 4 0 0 0 0.3144 1 5737 5737 15.847 1.0089 1 1662600 4304 920 2858 2868 4837 4837 -0.05422294584332121 EEDLLYWVD 9 Unmodified _EEDLLYWVD_ 0 0 0 ENSG00000081479|ENST00000649046|LRP2;LRP2|p.N4549Kfs*8|1|0.33|ENSG00000081479|chr2:169132655-169132655|A/-|frameshift_variant ENSG00000081479|ENST00000649046|LRP2 ENSG00000081479|ENST00000649046|LRP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.27294921875 2 591.271687 1180.52882 3.1018 0.001834 -0.1644 -9.7204E-05 2.9374 0.0017368 591.2717271170206 13.235 0.32385 13.543 13.388 13.712 0.30727 75 22 4 0 0 0 0.3144 2 5931 5931;6018 15.847 5.0233 1 1561500 4305 920 2858 2868 4838;4839 4838 -0.05422294584332121 EEDSGDMCDA 10 Unmodified _EEDSGDMCDA_ 0 0 0 REV__ENSG00000123384|ENST00000243077|LRP1 REV__ENSG00000123384|ENST00000243077|LRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.3145141601562 2 536.165704 1070.31685 NaN NaN NaN NaN NaN NaN NaN 94.131 1 94.391 93.891 94.891 0.25975 0 0 0 1.0015 1 43258 43258 0.40072 0.40072 1 + 4306 11615 2859 2869 4840 4840 -0.21549077329086685 EEECATFSAH 10 Unmodified _EEECATFSAH_ 0 0 0 nc|ENSG00000012048|P38398-8|BRCA1;nc|ENSG00000012048|P38398-4|BRCA1;ENSG00000012048|ENST00000357654|BRCA1;nc|ENSG00000012048|P38398-7|BRCA1 nc|ENSG00000012048|P38398-8|BRCA1 nc|ENSG00000012048|P38398-8|BRCA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.680908203125 2 562.221671 1122.42879 NaN NaN NaN NaN NaN NaN NaN 94.49 1 94.75 94.25 95.25 0.25975 0 0 0 1.0003 1 43420 43420 1.4819 0 1 4307 421 2860 2870 4841 4841 -0.1275285518979672 EEEDDDDDDDD 11 Unmodified _EEEDDDDDDDD_ 0 0 0 ENSG00000154945|ENST00000285243|ANKRD40;nc|ENSG00000290292|Q8IX15|HOMEZ;nc|ENSG00000290292|Q8IX15-3|HOMEZ ENSG00000154945|ENST00000285243|ANKRD40 ENSG00000154945|ENST00000285243|ANKRD40 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.6842041015625 2 663.684221 1325.35389 NaN NaN NaN NaN NaN NaN NaN 59.265 1 59.524 59.024 60.024 0.2593 0 0 0 1.0082 1 27139 27139 0 0 1 4308 3846 2861 2871 4842 4842 -0.2957745576866273 EEEDDDDDE 9 Unmodified _EEEDDDDDE_ 0 0 0 ENST00000536336.5_1_11:18633859-18655855:-|nuORF;nc|ENSG00000179119|Q68D10-2|SPTY2D1;ENSG00000179119|ENST00000336349|SPTY2D1;nc|ENSG00000116731|Q13029-5|PRDM2;nc|ENSG00000116731|Q13029-3|PRDM2;PRDM2|p.S1549Hfs*15|1|0.24|ENSG00000116731|chr1:13782440-13782440|T/-|frameshift_variant;nc|ENSG00000116731|Q13029-2|PRDM2;ENSG00000116731|ENST00000311066|PRDM2;ENSG00000083312|ENST00000337273|TNPO1;nc|ENSG00000083312|Q92973-2|TNPO1;nc|ENSG00000083312|Q92973-3|TNPO1 ENST00000536336.5_1_11:18633859-18655855:-|nuORF;ENSG00000083312|ENST00000337273|TNPO1 ENST00000536336.5_1_11:18633859-18655855:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.6649169921875 2 555.665103 1109.31565 NaN NaN NaN NaN NaN NaN NaN 68.752 1 68.752 68.252 69.252 0 0 0 0 0.91452 1 33121 33121 0 0 1 4309 5200;939 2862 2872 4843 4843 -0.2346329689266895 EEEDSDAYAL 10 Unmodified _EEEDSDAYAL_ 0 0 0 ENSG00000110777|ENST00000393067|POU2AF1 ENSG00000110777|ENST00000393067|POU2AF1 ENSG00000110777|ENST00000393067|POU2AF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.15643310546875 3 381.155903 1140.44588 2.2573 0.00086037 -0.0079086 -3.0144E-06 2.2494 0.00085736 381.1559303498035 18.326 0.15184 18.526 18.468 18.62 0.20057 44 31 2 0 0 0 0.74998 1 8117 8117 6.1918 0.40842 1 10236000 4310 1728 2863 2873 4844 4844 -0.11872656102991641 EEEDSDAYAL 10 Unmodified _EEEDSDAYAL_ 0 0 0 ENSG00000110777|ENST00000393067|POU2AF1 ENSG00000110777|ENST00000393067|POU2AF1 ENSG00000110777|ENST00000393067|POU2AF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.156982421875 3 381.155903 1140.44588 2.7635 0.0010533 0.40637 0.00015489 3.1698 0.0012082 381.1560270349958 17.833 0.35863 18.493 18.341 18.7 0.66072 126 49 3 0 0 0 0.74998 1 8087 8087 6.1918 0 1 7898400 4311 1728 2863 2873 4845 4845 -0.11872656102991641 EEEDYDRTVQK 11 Unmodified _EEEDYDRTVQK_ 0 0 0 REV__ENSG00000116754|ENST00000370949|SRSF11 REV__ENSG00000116754|ENST00000370949|SRSF11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 706.3230590820312 2 706.320428 1410.6263 4.6384 0.0032762 -0.84705 -0.00059829 3.7914 0.0026779 706.3199008027686 104.68 0.38076 105 104.78 105.16 0.31863 202 80 3 0 0 0 0.91391 1 48308 48308 0.30703 0 1 1637900 + 4312 11419 2864 2874 4846 4846 -0.06258557446176383 EEEEDDDDDTE 11 Unmodified _EEEEDDDDDTE_ 0 0 0 ENSG00000184828|ENST00000590800|ZBTB7C ENSG00000184828|ENST00000590800|ZBTB7C ENSG00000184828|ENST00000590800|ZBTB7C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 671.0460205078125 2 670.710238 1339.40592 NaN NaN NaN NaN NaN NaN NaN 39.747 1 40.014 39.514 40.514 0.26696 0 0 0 1.0059 1 18083 18083 2.9952 0 1 4313 5463 2865 2875 4847 4847 -0.25020292354884077 EEEEDDDQVR 10 Unmodified _EEEEDDDQVR_ 0 0 0 ENST00000561379.1_1_14:24651787-24652670:-|nuORF ENST00000561379.1_1_14:24651787-24652670:-|nuORF ENST00000561379.1_1_14:24651787-24652670:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 632.2500610351562 2 632.252211 1262.48987 NaN NaN NaN NaN NaN NaN NaN 83.606 1 83.853 83.353 84.353 0.24722 0 0 0 1.0015 1 38483 38483 0.40072 0 1 4314 8984 2866 2876 4848 4848 -0.1308767167665792 EEEEDEDDI 9 Unmodified _EEEEDEDDI_ 0 0 0 REV__ENSG00000107341|ENST00000263228|UBE2R2 REV__ENSG00000107341|ENST00000263228|UBE2R2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.6246337890625 2 561.701488 1121.38842 NaN NaN NaN NaN NaN NaN NaN 80.622 1 80.79 80.29 81.29 0.16862 0 0 0 0.89509 1 39523 39523 4.756 0 1 + 4315 11113 2867 2877 4849 4849 -0.1674154309921505 EEEEERNQILQ 11 Unmodified _EEEEERNQILQ_ 0 0 0 nc|ENSG00000133026|P35580|MYH10;nc|ENSG00000133026|P35580-5|MYH10;nc|ENSG00000133026|P35580-2|MYH10;nc|ENSG00000133026|P35580-3|MYH10;ENSG00000133026|ENST00000360416|MYH10 nc|ENSG00000133026|P35580|MYH10 nc|ENSG00000133026|P35580|MYH10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 708.8363037109375 2 708.833702 1415.65285 NaN NaN NaN NaN NaN NaN NaN 26.374 1 27.153 26.653 27.653 0.7787 0 0 0 0.9007 1 11846 11846 16.149 0 1 4316 2742 2868 2878 4850 4850 -0.038348685547816785 EEEEERRYYRR 11 Unmodified _EEEEERRYYRR_ 0 0 0 ENST00000533424.5_1_11:67770773-67771486:-|nuORF;ENST00000530138.3_1_11:67766987-67771573:-|nuORF;ENSG00000110057|ENST00000227471|UNC93B1 ENST00000533424.5_1_11:67770773-67771486:-|nuORF ENST00000533424.5_1_11:67770773-67771486:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.9273071289062 3 538.925487 1613.75463 NaN NaN NaN NaN NaN NaN NaN 12.449 1 12.711 12.211 13.211 0.26154 0 0 0 1.008 1 5386 5386 0.094841 0.011491 1 4317 1698 2869 2879 4851 4851 -0.027695774123912997 EEEEWGSGSE 10 Unmodified _EEEEWGSGSE_ 0 0 0 ENST00000530105.1_1_11:57156392-57157417:-|nuORF;nc|ENSG00000186652|P13727-2|PRG2;ENSG00000186652|ENST00000311862|PRG2 ENST00000530105.1_1_11:57156392-57157417:-|nuORF ENST00000530105.1_1_11:57156392-57157417:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.14471435546875 3 380.143886 1137.40983 2.7452 0.0010436 0.16995 6.4606E-05 2.9151 0.0011082 380.14385472067585 17.166 0.56813 17.826 17.469 18.037 0.66072 81 43 3 0 0 0 0.94246 1 7631 7631 0.13989 0 1 367490 4318 5581 2870 2880 4852 4852 -0.15338113279835852 EEEEYKYTSC 10 Unmodified _EEEEYKYTSC_ 0 0 0 nc|ENSG00000187239|Q96RU3-4|FNBP1;nc|ENSG00000187239|Q96RU3-3|FNBP1;nc|ENSG00000187239|Q96RU3-5|FNBP1;nc|ENSG00000187239|Q96RU3-2|FNBP1;ENSG00000187239|ENST00000446176|FNBP1 nc|ENSG00000187239|Q96RU3-4|FNBP1 nc|ENSG00000187239|Q96RU3-4|FNBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 427.50518798828125 3 427.504426 1279.49145 NaN NaN NaN NaN NaN NaN NaN 13.456 1 13.456 12.956 13.956 0 0 0 0 1.0015 1 5887 5887 0.15932 0 1 4319 5610 2871 2881 4853 4853 -0.1371175391225279 EEERWMEEQER 11 Unmodified _EEERWMEEQER_ 0 0 0 REV__ENSG00000277322|ENST00000619213|GOLGA6L6 REV__ENSG00000277322|ENST00000619213|GOLGA6L6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 775.8291015625 2 775.830637 1549.64672 NaN NaN NaN NaN NaN NaN NaN 81.487 1 81.571 81.071 82.071 0.084106 0 0 0 1.0072 1 40062 40062 1.3295 0 1 + 4320 14743 2872 2882 4854 4854 -0.10611710057992241 EEEYPLMIMRK 11 Unmodified _EEEYPLMIMRK_ 0 0 0 ENST00000489282.1_1_1:59158492-59165724:-|nuORF ENST00000489282.1_1_1:59158492-59165724:-|nuORF ENST00000489282.1_1_1:59158492-59165724:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.57733154296875 3 480.240479 1437.69961 3.0307 0.0014555 -0.179 -8.5961E-05 2.8517 0.0013695 480.2403914359527 26.475 0.20112 27.254 27.092 27.294 0.7787 27 16 2 0 0 0 0.82535 2 11879 11863;11879 4.7159 0 1 336690 4321 8376 2873 2883 4855;4856 4856 -0.0017342352891773771 EEEYPLMIMRK 11 Unmodified _EEEYPLMIMRK_ 0 0 0 ENST00000489282.1_1_1:59158492-59165724:-|nuORF ENST00000489282.1_1_1:59158492-59165724:-|nuORF ENST00000489282.1_1_1:59158492-59165724:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 480.240479 1437.69961 3.2877 0.0015789 -0.027163 -1.3045E-05 3.2606 0.0015659 480.2407637217892 27.43 0.15103 27.43 27.297 27.448 0 0.087823 0.00011945 NaN 4.7159 19 11 2 NaN NaN NaN NaN 0 NaN NaN 0 603130 4322 8376 2873 2883 -0.0017342352891773771 EEFKQISEEWR 11 Unmodified _EEFKQISEEWR_ 0 0 0 REV__ENSG00000115423|ENST00000389394|DNAH6 REV__ENSG00000115423|ENST00000389394|DNAH6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 740.8595581054688 2 740.85698 1479.69941 3.5537 0.0026328 -0.041506 -3.075E-05 3.5122 0.0026021 740.8571561765949 59.469 0.2748 59.469 59.312 59.587 0 73 22 4 0 0 0 0.71079 1 27491 27491 10.8 2.644 1 14762000 + 4323 11365 2874 2884 4857 4857 -0.02125383932866498 EEFLNSRML 9 Unmodified _EEFLNSRML_ 0 0 0 nc|ENSG00000113916|P41182-2|BCL6;ENSG00000113916|ENST00000406870|BCL6 nc|ENSG00000113916|P41182-2|BCL6 nc|ENSG00000113916|P41182-2|BCL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.2880249023438 2 569.781699 1137.54884 3.9131 0.0022296 1.3325 0.00075922 5.2456 0.0029888 569.7832080633931 46.162 1.0008 46.814 46.501 47.502 0.65104 51 28 4 0 0 0 0.46674 1 21387 21387 13.042 0.51092 1 3713500 4324 1881 2875 2885 4858 4858 -0.014428221253638185 EEFPKHKVL 9 Unmodified _EEFPKHKVL_ 0 0 0 REV__ENST00000397042.7_1_20:37203820-37203961:+|nuORF REV__ENST00000397042.7_1_20:37203820-37203961:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.2145080566406 3 376.213358 1125.61824 2.5775 0.00096969 1.0449 0.0003931 3.6224 0.0013628 376.21368818518323 54.447 0.69055 55.114 54.738 55.428 0.6665 85 51 3 0 0 0 0.94779 1 24787 24787 4.897 0.70751 1 4499200 + 4325 16010 2876 2886 4859 4859 0.060460048857066795 EEFQVAYDTI 10 Unmodified _EEFQVAYDTI_ 0 0 0 REV__NFASC|p.V662A|1|0.37|ENSG00000163531|chr1:204979368-204979368|T/C|missense_variant REV__NFASC|p.V662A|1|0.37|ENSG00000163531|chr1:204979368-204979368|T/C|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.52557373046875 3 405.524038 1213.55028 NaN NaN NaN NaN NaN NaN NaN 39.834 1 40.475 39.975 40.975 0.64136 0 0 0 1.0012 1 18206 18206 0.69767 0.2894 1 + 4326 18187 2877 2887 4860 4860 -0.04794909555607774 EEFRHIQRI 9 Unmodified _EEFRHIQRI_ 0 0 0 REV__ENST00000495197.1_1_10:38368986-38369799:-|nuORF REV__ENST00000495197.1_1_10:38368986-38369799:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.8930969238281 3 409.891278 1226.652 2.7475 0.0011262 -0.068911 -2.8246E-05 2.6786 0.0010979 409.8911606415021 15.583 0.99096 15.889 15.552 16.543 0.306 152 114 2 0 0 0 1.0755 1 7162 7162 2.7352 0 1 172260 + 4327 16834 2878 2888 4861 4861 0.0477442637745753 EEGGCSDG 8 Unmodified _EEGGCSDG_ 0 0 0 ENST00000587217.5_1_19:3015738-3020566:-|nuORF ENST00000587217.5_1_19:3015738-3020566:-|nuORF ENST00000587217.5_1_19:3015738-3020566:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.4893798828125 2 377.121425 752.228298 NaN NaN NaN NaN NaN NaN NaN 44.053 1 44.702 44.202 45.202 0.64961 0 0 0 0.99035 1 20191 20191 0.69038 0.69038 1 4328 9193 2879 2889 4862 4862 -0.15772704786581926 EEHDQASPSGF 11 Unmodified _EEHDQASPSGF_ 0 0 0 nc|ENSG00000166432|Q5H9K5|ZMAT1;ENSG00000166432|ENST00000651725|ZMAT1;ENST00000488347.5_1_X:101149758-101186981:-|nuORF;ENST00000458570.5_1_X:101149758-101187002:-|nuORF nc|ENSG00000166432|Q5H9K5|ZMAT1 nc|ENSG00000166432|Q5H9K5|ZMAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 602.7529296875 2 602.249274 1202.484 3.5803 0.0021562 -1.4821 -0.00089256 2.0983 0.0012637 602.7500802969093 76.685 0.23028 77.349 77.219 77.45 0.66387 33 16 3 0 0 0 0.83518 1 35358 35358 5.2969 0.96765 1 1323500 4329 4482 2880 2890 4863 4863 -0.10914725397674374 EEIERKLHVYH 11 Unmodified _EEIERKLHVYH_ 0 0 0 NSMF|p.N396H|1|0.26|ENSG00000165802|chr9:137452415-137452415|T/G|missense_variant NSMF|p.N396H|1|0.26|ENSG00000165802|chr9:137452415-137452415|T/G|missense_variant NSMF|p.N396H|1|0.26|ENSG00000165802|chr9:137452415-137452415|T/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 726.8780517578125 2 726.883333 1451.75211 NaN NaN NaN NaN NaN NaN NaN 80.727 1 80.896 80.396 81.396 0.16862 0 0 0 1.0071 1 39578 39578 1.4819 0 1 4330 9899 2881 2891 4864 4864 0.04430618920628149 EEKELYLN 8 Unmodified _EEKELYLN_ 0 0 0 PDS5B|p.R112Dfs*3|1|0.28|ENSG00000083642|chr13:32658259-32658259|A/-|frameshift_variant;nc|ENSG00000083642|Q9NTI5-4|PDS5B;ENST00000493653.1_1_13:33222909-33226198:+|nuORF;nc|ENSG00000083642|Q9NTI5-3|PDS5B;ENST00000498550.5_1_13:33222909-33262824:+|nuORF;nc|ENSG00000083642|Q9NTI5-2|PDS5B;ENSG00000083642|ENST00000315596|PDS5B PDS5B|p.R112Dfs*3|1|0.28|ENSG00000083642|chr13:32658259-32658259|A/-|frameshift_variant PDS5B|p.R112Dfs*3|1|0.28|ENSG00000083642|chr13:32658259-32658259|A/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.761962890625 2 519.261122 1036.50769 3.2597 0.0016926 -3.8165 -0.0019818 -0.55681 -0.00028913 519.2588791044848 50.695 0.1549 51.355 51.238 51.393 0.65956 9 6 2 0 0 0 0.13348 1 23184 23184 15.847 4.2069 1 256360 4331 941 2882 2892 4865 4865 -0.00910259893203147 EEKHLHVL 8 Unmodified _EEKHLHVL_ 0 0 0 ENST00000553816.5_1_14:68151682-68162420:-|nuORF;nc|ENSG00000072042|Q8TC12-3|RDH11;nc|ENSG00000072042|Q8TC12-2|RDH11;ENSG00000072042|ENST00000381346|RDH11 ENST00000553816.5_1_14:68151682-68162420:-|nuORF ENST00000553816.5_1_14:68151682-68162420:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 335.5234375 3 335.522303 1003.54508 2.5227 0.00084643 0.060003 2.0132E-05 2.5827 0.00086656 335.5223306593204 30.584 0.15443 30.584 30.514 30.669 0 23 13 2 0 0 0 0.59268 1 13806 13806 10.824 2.6684 1 765860 4332 784 2883 2893 4866 4866 0.04344876163088429 EEKHLHVL 8 Unmodified _EEKHLHVL_ 0 0 0 ENST00000553816.5_1_14:68151682-68162420:-|nuORF;nc|ENSG00000072042|Q8TC12-3|RDH11;nc|ENSG00000072042|Q8TC12-2|RDH11;ENSG00000072042|ENST00000381346|RDH11 ENST00000553816.5_1_14:68151682-68162420:-|nuORF ENST00000553816.5_1_14:68151682-68162420:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 335.522303 1003.54508 2.4219 0.0008126 -0.15134 -5.0779E-05 2.2706 0.00076183 335.8565544937574 29.682 0.15633 30.471 30.425 30.581 0.78921 -0.051329 -9.4298E-06 NaN 10.824 22 15 2 NaN NaN NaN NaN 0 NaN NaN 0 1368300 4333 784 2883 2893 0.04344876163088429 EEKHLHVL 8 Unmodified _EEKHLHVL_ 0 0 0 ENST00000553816.5_1_14:68151682-68162420:-|nuORF;nc|ENSG00000072042|Q8TC12-3|RDH11;nc|ENSG00000072042|Q8TC12-2|RDH11;ENSG00000072042|ENST00000381346|RDH11 ENST00000553816.5_1_14:68151682-68162420:-|nuORF ENST00000553816.5_1_14:68151682-68162420:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 335.522303 1003.54508 2.738 0.00091867 -0.27996 -9.3933E-05 2.4581 0.00082473 335.5221627619543 30.254 0.24851 30.513 30.381 30.63 0.25804 -0.010072 -0.00013889 NaN 10.824 27 15 2 NaN NaN NaN NaN 0 NaN NaN 0 641080 4334 784 2883 2893 0.04344876163088429 EEKKEQFL 8 Unmodified _EEKKEQFL_ 0 0 0 REV__ENSG00000142623|ENST00000375471|PADI1 REV__ENSG00000142623|ENST00000375471|PADI1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.85406494140625 3 350.853718 1049.53933 2.1274 0.00074642 -1.2482 -0.00043793 0.87924 0.00030848 350.85326843958217 13.47 0.17247 13.713 13.618 13.791 0.24346 32 18 2 0 0 0 0.5584 1 5901 5901 17.113 5.6182 1 686010 + 4335 12337 2884 2894 4867 4867 0.016537328607682866 EEKKEQFL 8 Unmodified _EEKKEQFL_ 0 0 0 REV__ENSG00000142623|ENST00000375471|PADI1 REV__ENSG00000142623|ENST00000375471|PADI1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 350.853718 1049.53933 2.5203 0.00088427 -2.6215 -0.00091977 -0.1012 -3.5506E-05 350.85264579200754 14.086 0.12403 14.086 14.038 14.163 0 0.18658 -0.00097197 NaN 17.113 13 7 2 NaN NaN NaN NaN 0 NaN NaN 0 814500 + 4336 12337 2884 2894 0.016537328607682866 EEKLRPVK 8 Unmodified _EEKLRPVK_ 0 0 0 REV__CHD2|p.N1397Tfs*9|1|0.25|ENSG00000173575|chr15:93002227-93002227|G/-|frameshift_variant REV__CHD2|p.N1397Tfs*9|1|0.25|ENSG00000173575|chr15:93002227-93002227|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.8051452636719 2 499.803291 997.59203 3.533 0.0017658 -0.40414 -0.00020199 3.1289 0.0015638 499.8030928306428 12.618 0.13484 13.261 13.176 13.311 0.64272 5 3 2 0 0 0 0.71911 1 5685 5685 4.3292 0.38484 1 1973800 + 4337 10004 2885 2895 4868 4868 0.09313735714238192 EELFAERFLH 10 Unmodified _EELFAERFLH_ 0 0 0 ENST00000429951.5_1_11:113186690-113186780:+|nuORF ENST00000429951.5_1_11:113186690-113186780:+|nuORF ENST00000429951.5_1_11:113186690-113186780:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.8893127441406 3 430.887422 1289.64044 NaN NaN NaN NaN NaN NaN NaN 75.895 1 76.559 76.059 77.059 0.66387 0 0 0 0.99976 1 34963 34963 1.9064 0.1641 1 4338 7841 2886 2896 4869 4869 0.0072018456346540916 EELHCRLIDT 10 Unmodified _EELHCRLIDT_ 0 0 0 nc|ENSG00000172575|O95267-4|RASGRP1;nc|ENSG00000172575|O95267-5|RASGRP1;nc|ENSG00000172575|O95267-3|RASGRP1;nc|ENSG00000172575|O95267-2|RASGRP1;ENSG00000172575|ENST00000310803|RASGRP1 nc|ENSG00000172575|O95267-4|RASGRP1 nc|ENSG00000172575|O95267-4|RASGRP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 410.2057189941406 3 410.204534 1227.59177 3.1443 0.0012898 -0.3423 -0.00014041 2.802 0.0011494 410.20441527668044 19.764 0.19307 20.422 20.329 20.522 0.65829 25 13 3 0 0 0 0.93658 1 8968 8968 1.5923 0 1 238420 4339 4879 2887 2897 4870 4870 -0.012920520679472247 EELKILYRY 9 Unmodified _EELKILYRY_ 0 0 0 ENST00000569916.1_1_16:58633342-58663636:-|nuORF ENST00000569916.1_1_16:58633342-58663636:-|nuORF ENST00000569916.1_1_16:58633342-58663636:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.8407592773438 2 613.842613 1225.67067 NaN NaN NaN NaN NaN NaN NaN 106.94 1 106.98 106.48 107.48 0.045425 0 0 0 0.83378 1 57826 57826 7.9102 1.187 1 4340 9079 2888 2898 4871 4871 0.06686543228647679 EELKPKKK 8 Unmodified _EELKPKKK_ 0 0 0 ENST00000490826.1_1_1:33241584-33245138:-|nuORF;ENST00000469100.5_1_1:33241584-33246798:-|nuORF;ENST00000487404.5_1_1:33241584-33248146:-|nuORF;ENSG00000134684|ENST00000373477|YARS1 ENST00000490826.1_1_1:33241584-33245138:-|nuORF ENST00000490826.1_1_1:33241584-33245138:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.31243896484375 2 500.313492 998.612431 NaN NaN NaN NaN NaN NaN NaN 66.299 1 66.299 65.799 66.799 0 0 0 0 0.94453 1 31673 31673 9.3831 0 1 4341 2821 2889 2899 4872 4872 0.11306906374034043 EELKQRPSRR 10 Unmodified _EELKQRPSRR_ 0 0 0 REV__nc|ENSG00000086712|Q9NUQ3-2|TXLNG REV__nc|ENSG00000086712|Q9NUQ3-2|TXLNG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 649.8673706054688 2 649.868017 1297.72148 NaN NaN NaN NaN NaN NaN NaN 53.394 1 53.394 52.894 53.894 0 0 0 0 0.99812 1 24461 24461 3.2813 0.28607 1 + 4342 17872 2890 2900 4873 4873 0.0845288532620998 EELQKWRYLRK 11 Unmodified _EELQKWRYLRK_ 0 0 0 REV__nc|ENSG00000140993|Q6NT04-2|TIGD7 REV__nc|ENSG00000140993|Q6NT04-2|TIGD7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 774.5875854492188 2 774.935899 1547.85725 NaN NaN NaN NaN NaN NaN NaN 105.33 1 105.33 104.83 105.83 0 0 0 0 1.008 1 57884 57884 0.35063 0 1 + 4343 12274 2891 2901 4874 4874 0.10523160117008956 EELVKLPTKRK 11 Unmodified _EELVKLPTKRK_ 0 0 0 REV__ENST00000422590.6_1_1:231829618-232144897:+|nuORF REV__ENST00000422590.6_1_1:231829618-232144897:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 447.6131896972656 3 447.613522 1339.81874 NaN NaN NaN NaN NaN NaN NaN 82.773 1 83.02 82.52 83.52 0.24722 0 0 0 1.0072 1 38099 38099 0.45452 0 1 + 4344 12968 2892 2902 4875 4875 0.16241854482473173 EEMCGLVMGM 10 Unmodified _EEMCGLVMGM_ 0 0 0 nc|ENSG00000198408|O60502-4|OGA;ENSG00000198408|ENST00000361464|OGA;ENST00000482611.5_1_10:103552686-103559078:-|nuORF;nc|ENSG00000198408|O60502-3|OGA;nc|ENSG00000198408|O60502-2|OGA nc|ENSG00000198408|O60502-4|OGA nc|ENSG00000198408|O60502-4|OGA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.393310546875 2 550.218174 1098.42179 NaN NaN NaN NaN NaN NaN NaN 52.676 1 53.487 52.987 53.987 0.81065 0 0 0 1.0001 1 24002 24002 1.6526 0 1 4345 5889 2893 2903 4876 4876 -0.12347950657840556 EEMCGLVMGM 10 Unmodified _EEMCGLVMGM_ 0 0 0 nc|ENSG00000198408|O60502-4|OGA;ENSG00000198408|ENST00000361464|OGA;ENST00000482611.5_1_10:103552686-103559078:-|nuORF;nc|ENSG00000198408|O60502-3|OGA;nc|ENSG00000198408|O60502-2|OGA nc|ENSG00000198408|O60502-4|OGA nc|ENSG00000198408|O60502-4|OGA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.2193603515625 2 550.218174 1098.42179 NaN NaN NaN NaN NaN NaN NaN 97.06 1 97.337 96.837 97.837 0.27778 0 0 0 1.0001 1 44583 44583 1.6526 0.96225 1 4346 5889 2893 2903 4877 4877 -0.12347950657840556 EEMDSDMG 8 Unmodified _EEMDSDMG_ 0 0 0 REV__ENST00000517946.1_1_9:26869929-26887469:-|nuORF REV__ENST00000517946.1_1_9:26869929-26887469:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 305.1023864746094 3 305.101976 912.284098 NaN NaN NaN NaN NaN NaN NaN 39.937 1 40.578 40.078 41.078 0.64136 0 0 0 0.99035 1 18253 18253 0.40072 0 1 + 4347 11530 2894 2904 4878 4878 -0.1755523966127157 EEMDWELE 8 Unmodified _EEMDWELE_ 0 0 0 REV__nc|ENSG00000171804|Q6ZQQ6|WDR87 REV__nc|ENSG00000171804|Q6ZQQ6|WDR87 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.7144775390625 2 540.713147 1079.41174 NaN NaN NaN NaN NaN NaN NaN 53.628 1 53.628 53.128 54.128 0 0 0 0 0.95658 1 24579 24579 8.5933 3.3626 1 + 4348 13518 2895 2905 4879 4879 -0.12478775795580077 EEMPQKLTKT 10 Unmodified _EEMPQKLTKT_ 0 0 0 REV__ENST00000509368.6_1_5:59284313-59481385:-|nuORF REV__ENST00000509368.6_1_5:59284313-59481385:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 402.2167663574219 3 402.212918 1203.61692 NaN NaN NaN NaN NaN NaN NaN 93.336 1 93.591 93.091 94.091 0.25497 0 0 0 1.0003 1 42899 42899 0.62683 0 1 + 4349 16962 2896 2906 4880 4880 0.0232600273461685 EEMPQKLTKT 10 Unmodified _EEMPQKLTKT_ 0 0 0 REV__ENST00000509368.6_1_5:59284313-59481385:-|nuORF REV__ENST00000509368.6_1_5:59284313-59481385:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 402.2162780761719 3 402.212918 1203.61692 NaN NaN NaN NaN NaN NaN NaN 93.485 1 93.74 93.24 94.24 0.25497 0 0 0 1.0003 1 42968 42968 0.62683 0 1 + 4350 16962 2896 2906 4881 4881 0.0232600273461685 EENEHDEQ 8 Unmodified _EENEHDEQ_ 0 0 0 nc|ENSG00000078674|Q15154-2|PCM1;nc|ENSG00000078674|Q15154-5|PCM1;ENSG00000078674|ENST00000325083|PCM1;nc|ENSG00000078674|Q15154-4|PCM1 nc|ENSG00000078674|Q15154-2|PCM1 nc|ENSG00000078674|Q15154-2|PCM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.1930541992188 2 515.191425 1028.3683 NaN NaN NaN NaN NaN NaN NaN 54.007 1 54.803 54.303 55.303 0.79552 0 0 0 0.99035 1 24643 24643 5.2307 0 1 4351 881 2897 2907 4882 4882 -0.14475249248516775 EEQRRRMWRQN 11 Unmodified _EEQRRRMWRQN_ 0 0 0 REV__ENSG00000189431|ENST00000529419|RASSF10 REV__ENSG00000189431|ENST00000529419|RASSF10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 794.9002685546875 2 794.897314 1587.78008 NaN NaN NaN NaN NaN NaN NaN 76.54 1 77.164 76.664 77.664 0.62397 0 0 0 1.0072 1 37104 37104 1.3295 0.9789 1 + 4352 14186 2898 2908 4883 4883 0.009696186290739206 EERKKRLHKRK 11 Unmodified _EERKKRLHKRK_ 0 0 0 REV__ENSG00000204560|ENST00000376442|DHX16 REV__ENSG00000204560|ENST00000376442|DHX16 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 754.4654541015625 2 754.468232 1506.92191 NaN NaN NaN NaN NaN NaN NaN 56.091 1 56.091 55.591 56.591 0 0 0 0 1.008 1 25803 25803 0.30703 0.30703 1 + 4353 14425 2899 2909 4884 4884 0.18872779713660748 EERLKKHIKKL 11 Unmodified _EERLKKHIKKL_ 0 0 0 nc|ENSG00000225830|P0DP91|ERCC6;ENSG00000225830|ENST00000355832|ERCC6 nc|ENSG00000225830|P0DP91|ERCC6 nc|ENSG00000225830|P0DP91|ERCC6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 711.4949340820312 2 711.451185 1420.88782 NaN NaN NaN NaN NaN NaN NaN 107.85 1 107.89 107.39 108.39 0.045425 0 0 0 1.0072 1 58262 58262 1.3295 0.13619 1 4354 9836 2900 2910 4885 4885 0.19420938502071294 EERLRQIEVLL 11 Unmodified _EERLRQIEVLL_ 0 0 0 REV__ENST00000462117.5_1_19:48972629-48975663:+|nuORF REV__ENST00000462117.5_1_19:48972629-48975663:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.6095886230469 3 466.608548 1396.80381 3.5635 0.0016628 -0.72908 -0.00034019 2.8344 0.0013226 466.6081314363555 96.693 0.94424 96.97 96.464 97.409 0.27779 160 50 4 0 0 0 0.91068 1 44543 44543 0.45452 0 1 2923100 + 4355 11034 2901 2911 4886 4886 0.12128362614521393 EERRKYTL 8 Unmodified _EERRKYTL_ 0 0 0 ENSG00000140259|ENST00000267812|MFAP1 ENSG00000140259|ENST00000267812|MFAP1 ENSG00000140259|ENST00000267812|MFAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 365.8720703125 3 365.536612 1093.58801 2.8129 0.0010282 -0.51613 -0.00018866 2.2968 0.00083956 365.53652957448645 12.983 0.19241 12.983 12.865 13.058 0 25 10 4 0 0 0 0.21011 1 5660 5660 34.402 16.959 1 1597200 4356 3185 2902 2912 4887 4887 0.044956462205163916 EERRKYTL 8 Unmodified _EERRKYTL_ 0 0 0 ENSG00000140259|ENST00000267812|MFAP1 ENSG00000140259|ENST00000267812|MFAP1 ENSG00000140259|ENST00000267812|MFAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 365.5371398925781 3 365.536612 1093.58801 1.9573 0.00071545 -0.36952 -0.00013507 1.5877 0.00058038 365.5365860033947 12.694 0.076151 12.955 12.92 12.996 0.26154 13 7 2 0 0 0 0.31901 1 5522 5522 34.402 15.04 1 3040300 4357 3185 2902 2912 4888 4888 0.044956462205163916 EERRKYTL 8 Unmodified _EERRKYTL_ 0 0 0 ENSG00000140259|ENST00000267812|MFAP1 ENSG00000140259|ENST00000267812|MFAP1 ENSG00000140259|ENST00000267812|MFAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.5372009277344 3 365.536612 1093.58801 1.9474 0.00071184 0.17986 6.5744E-05 2.1272 0.00077758 365.53670282671993 12.675 0.17566 12.983 12.882 13.058 0.30727 14 5 4 0 0 0 0.21011 1 5727 5727 34.402 3.1334 1 3007000 4358 3185 2902 2912 4889 4889 0.044956462205163916 EERRKYTL 8 Unmodified _EERRKYTL_ 0 0 0 ENSG00000140259|ENST00000267812|MFAP1 ENSG00000140259|ENST00000267812|MFAP1 ENSG00000140259|ENST00000267812|MFAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.8632507324219 3 365.536612 1093.58801 2.8896 0.0010563 -0.0131 -4.7886E-06 2.8765 0.0010515 365.5365989391262 12.606 0.10123 13.249 13.176 13.278 0.64272 4 2 2 0 0 0 0.47217 2 5643 5643;5667 24.021 7.2474 1 2419200 4359 3185 2902 2912 4890;4891 4890 0.044956462205163916 EERRLRQRNR 10 Unmodified _EERRLRQRNR_ 0 0 0 ENSG00000011260|ENST00000225298|UTP18 ENSG00000011260|ENST00000225298|UTP18 ENSG00000011260|ENST00000225298|UTP18 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.60296630859375 3 471.602901 1411.78687 NaN NaN NaN NaN NaN NaN NaN 64.838 1 65.495 64.995 65.995 0.65672 0 0 0 1.0013 1 29723 29723 0.62683 0.12087 1 4360 409 2903 2913 4892 4892 0.09745299571932264 EERWRMEMRRY 11 Unmodified _EERWRMEMRRY_ 0 0 0 ENSG00000056097|ENST00000265069|ZFR ENSG00000056097|ENST00000265069|ZFR ENSG00000056097|ENST00000265069|ZFR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 821.8538208007812 2 821.390476 1640.7664 NaN NaN NaN NaN NaN NaN NaN 77.921 1 77.921 77.421 78.421 0 0 0 0 1.0073 1 38240 38240 1.1933 0.84271 1 4361 620 2904 2914 4893 4893 -0.02835375194399603 EESDQDMDMFT 11 Unmodified _EESDQDMDMFT_ 0 0 0 REV__nc|ENSG00000083642|Q9NTI5-2|PDS5B REV__nc|ENSG00000083642|Q9NTI5-2|PDS5B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 449.94207763671875 3 449.828692 1346.46425 NaN NaN NaN NaN NaN NaN NaN 20.469 1 20.469 19.969 20.969 0 0 0 0 1.008 1 9153 9153 0.094841 0 1 + 4362 10630 2905 2915 4894 4894 -0.19512605514978532 EESDVVPF 8 Unmodified _EESDVVPF_ 0 0 0 REV__ENSG00000100109|ENST00000407690|TFIP11 REV__ENSG00000100109|ENST00000407690|TFIP11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 461.1946105957031 2 461.21364 920.412728 NaN NaN NaN NaN NaN NaN NaN 68.671 1 68.671 68.171 69.171 0 0 0 0 0.99035 1 33078 33078 2.5775 0 1 + 4363 10804 2906 2916 4895 4895 -0.050661933643709745 EESHETLV 8 Unmodified _EESHETLV_ 0 0 0 REV__ENST00000483189.1_1_13:111893629-111928079:+|nuORF REV__ENST00000483189.1_1_13:111893629-111928079:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.22393798828125 2 472.221997 942.429441 2.9951 0.0014144 0.22771 0.00010753 3.2228 0.0015219 472.2220603416985 29.741 0.28734 30.359 30.148 30.435 0.61789 27 16 2 0 0 0 0.70799 1 13661 13661 5.2307 0.47466 1 341210 + 4364 10933 2907 2917 4896 4896 -0.044076924784235416 EESMAYLL 8 Unmodified _EESMAYLL_ 0 0 0 REV__ENSG00000249156|ENST00000503184|TAF11L12 REV__ENSG00000249156|ENST00000503184|TAF11L12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 319.154296875 3 319.152888 954.436834 NaN NaN NaN NaN NaN NaN NaN 100.98 1 101.57 101.07 102.07 0.59717 0 0 0 0.99035 1 46751 46751 1.6526 0.45928 1 + 4365 14644 2908 2918 4897 4897 -0.042206762023511146 EETELDNL 8 Unmodified _EETELDNL_ 0 0 0 nc|ENSG00000117751|Q12972-2|PPP1R8;ENSG00000117751|ENST00000311772|PPP1R8 nc|ENSG00000117751|Q12972-2|PPP1R8 nc|ENSG00000117751|Q12972-2|PPP1R8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.7196044921875 2 481.719287 961.424021 2.9237 0.0014084 -2.5325 -0.00122 0.39114 0.00018842 481.71783172396954 78.189 0.22656 78.442 78.324 78.55 0.25335 17 12 2 0 0 0 0.62895 1 36004 36004 11.64 3.047 1 200460 4366 2094 2909 2919 4898 4898 -0.05823416060911768 EETQGMAP 8 Unmodified _EETQGMAP_ 0 0 0 nc|ENSG00000131351|Q9BT25-2|HAUS8;nc|ENSG00000131351|Q9BT25-3|HAUS8;ENSG00000131351|ENST00000253669|HAUS8;ENST00000597917.1_1_19:17160685-17163834:-|nuORF nc|ENSG00000131351|Q9BT25-2|HAUS8 nc|ENSG00000131351|Q9BT25-2|HAUS8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 431.3163146972656 2 431.684193 861.353833 NaN NaN NaN NaN NaN NaN NaN 64.572 1 64.572 64.072 65.072 0 0 0 0 0.86524 1 30622 30622 14.582 0 1 4367 2653 2910 2920 4899 4899 -0.08238992930353106 EETVEEPAL 9 Unmodified _EETVEEPAL_ 0 0 0 nc|ENSG00000111305|Q2KHT4-2|GSG1;nc|ENSG00000111305|Q2KHT4-7|GSG1;nc|ENSG00000111305|Q2KHT4|GSG1;ENSG00000111305|ENST00000651961|GSG1 nc|ENSG00000111305|Q2KHT4-2|GSG1 nc|ENSG00000111305|Q2KHT4-2|GSG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.741455078125 2 508.742762 1015.47097 NaN NaN NaN NaN NaN NaN NaN 32.819 1 33.438 32.938 33.938 0.61831 0 0 0 0.84134 1 15045 15045 7.9102 0.62092 1 4368 1753 2911 2921 4900 4900 -0.03614556509774047 EETVLGGGT 9 Unmodified _EETVLGGGT_ 0 0 0 ENSG00000160818|ENST00000368232|GPATCH4;nc|ENSG00000160818|Q5T3I0-3|GPATCH4 ENSG00000160818|ENST00000368232|GPATCH4 ENSG00000160818|ENST00000368232|GPATCH4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 431.7125244140625 2 431.711265 861.407977 NaN NaN NaN NaN NaN NaN NaN 62.303 1 63.033 62.533 63.533 0.73077 0 0 0 0.72654 1 29025 29025 11.64 2.2929 1 4369 4082 2912 2922 4901 4901 -0.028270775071177923 EEYEEYDYKEF 11 Unmodified _EEYEEYDYKEF_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;TTN|p.R30215Vfs*13|1|0.21|ENSG00000155657|chr2:178545544-178545544|G/-|frameshift_variant;nc|ENSG00000155657|Q8WZ42-5|TTN;TTN|p.P20319Hfs*66|1|0.07|ENSG00000155657|chr2:178582577-178582578|-/AAAATAAATAT|frameshift_variant;TTN|p.A15448Hfs*16|1|0.24|ENSG00000155657|chr2:178610249-178610261|TTCTCCTCCCAGC/-|frameshift_variant;TTN|p.G17760Ifs*40|1|0.07|ENSG00000155657|chr2:178594192-178594193|-/TCGACTTCAGAGAT|frameshift_variant;TTN|p.V17759Afs*3|1|0.05|ENSG00000155657|chr2:178594194-178594195|-/G|frameshift_variant ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 772.3080444335938 2 772.309194 1542.60384 NaN NaN NaN NaN NaN NaN NaN 17.838 1 17.838 17.338 18.338 0 0 0 0 1.008 1 7920 7920 0.26902 0.26902 1 4370 3871 2913 2923 4902 4902 -0.14576201634440622 EEYYFYVFPIW 11 Unmodified _EEYYFYVFPIW_ 0 0 0 REV__nc|ENSG00000168216|Q9NUN5-2|LMBRD1 REV__nc|ENSG00000168216|Q9NUN5-2|LMBRD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 778.1243286132812 2 778.360836 1554.70712 NaN NaN NaN NaN NaN NaN NaN 107.36 1 107.36 106.86 107.86 0 0 0 0 1.0057 1 58892 58892 3.2813 1.7994 1 + 4371 13336 2914 2924 4903 4903 -0.04804624665302981 EFAGDEIE 8 Unmodified _EFAGDEIE_ 0 0 0 REV__ENSG00000187122|ENST00000266058|SLIT1 REV__ENSG00000187122|ENST00000266058|SLIT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 909.3862915039062 1 909.383619 908.376342 3.8986 0.0035453 0.033578 3.0535E-05 3.9322 0.0035758 909.3833572392523 61.012 0.40311 61.268 61.059 61.463 0.25578 32 17 3 0 0 0 0.59268 1 28009 28009 14.582 1.0738 1 1250300 + 4372 14089 2915 2925 4904 4904 -0.0815107026107853 EFCDCDDRDCD 11 Unmodified _EFCDCDDRDCD_ 0 0 0 nc|ENSG00000198542|O95965-2|ITGBL1;nc|ENSG00000198542|O95965-3|ITGBL1;ENSG00000198542|ENST00000376180|ITGBL1 nc|ENSG00000198542|O95965-2|ITGBL1 nc|ENSG00000198542|O95965-2|ITGBL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 668.1544189453125 2 668.199752 1334.38495 NaN NaN NaN NaN NaN NaN NaN 53.48 1 53.48 52.98 53.98 0 0 0 0 1.0082 1 24505 24505 0 0 1 4373 5897 2916 2926 4905 4905 -0.26886575740741137 EFDPEEFYHLL 11 Unmodified _EFDPEEFYHLL_ 0 0 0 nc|ENSG00000099308|O60307|MAST3;ENSG00000099308|ENST00000687212|MAST3 nc|ENSG00000099308|O60307|MAST3 nc|ENSG00000099308|O60307|MAST3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 719.8301391601562 2 719.8299 1437.64525 NaN NaN NaN NaN NaN NaN NaN 27.805 1 27.805 27.305 28.305 0 0 0 0 1.008 1 12527 12527 0.35063 0 1 4374 1137 2917 2927 4906 4906 -0.05606976084413873 EFENLFEL 8 Unmodified _EFENLFEL_ 0 0 0 REV__nc|ENSG00000138400|Q5I0G3-2|MDH1B REV__nc|ENSG00000138400|Q5I0G3-2|MDH1B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.2798461914062 2 520.75039 1039.48623 3.3803 0.0017603 0.86226 0.00044902 4.2426 0.0022093 520.7506843756862 83.991 0.38271 84.239 84.033 84.415 0.24722 56 21 3 0 0 0 0.075603 1 38572 38572 30.225 16.717 1 4168300 + 4375 12165 2918 2928 4907 4907 -0.03193644921907435 EFFCGEGSWAM 11 Unmodified _EFFCGEGSWAM_ 0 0 0 REV__ENST00000375286.7_1_17:73059974-73060100:+|nuORF REV__ENST00000375286.7_1_17:73059974-73060100:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.83416748046875 3 421.83182 1262.47363 NaN NaN NaN NaN NaN NaN NaN 7.5143 1 7.8402 7.3402 8.3402 0.32587 0 0 0 1.008 1 3378 3378 0.08335 0 1 + 4376 15800 2919 2929 4908 4908 -0.14710747648086908 EFFRTEERI 9 Unmodified _EFFRTEERI_ 0 0 0 ENSG00000168792|ENST00000307201|ABHD15 ENSG00000168792|ENST00000307201|ABHD15 ENSG00000168792|ENST00000307201|ABHD15 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.2110595703125 3 409.543655 1225.60914 2.9415 0.0012047 -0.58479 -0.0002395 2.3567 0.00096516 409.54371300480096 26.897 0.048561 27.162 27.14 27.189 0.26489 5 3 2 0 0 0 0.11065 1 12231 12231 4.897 2.9906 1 106260 4377 4651 2920 2930 4909 4909 0.0053561152938073064 EFHFKEEWVPN 11 Unmodified _EFHFKEEWVPN_ 0 0 0 REV__ENSG00000198722|ENST00000635942|UNC13B REV__ENSG00000198722|ENST00000635942|UNC13B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 731.19677734375 2 731.343509 1460.67246 NaN NaN NaN NaN NaN NaN NaN 100.63 1 100.69 100.19 101.19 0.059723 0 0 0 1.0041 1 54616 54616 5.2969 2.5617 1 + 4378 14352 2921 2931 4910 4910 -0.03944447753383429 EFIILACDGIW 11 Unmodified _EFIILACDGIW_ 0 0 0 nc|ENSG00000138032|O75688-4|PPM1B;nc|ENSG00000138032|O75688-2|PPM1B;ENSG00000138032|ENST00000282412|PPM1B;nc|ENSG00000138032|O75688-5|PPM1B;ENST00000409486.6_1_2:44428329-44436483:+|nuORF nc|ENSG00000138032|O75688-4|PPM1B nc|ENSG00000138032|O75688-4|PPM1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 640.3281860351562 2 640.323199 1278.63185 NaN NaN NaN NaN NaN NaN NaN 93.172 1 93.172 92.672 93.672 0 0 0 0 1.0034 1 49704 49704 6.2058 0 1 4379 3063 2922 2932 4911 4911 0.0036749460261944478 EFKTKYKL 8 Unmodified _EFKTKYKL_ 0 0 0 nc|ENSG00000120694|Q92598-2|HSPH1;nc|ENSG00000120694|Q92598-3|HSPH1;ENSG00000120694|ENST00000320027|HSPH1;nc|ENSG00000120694|Q92598-4|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.8756408691406 3 352.874454 1055.60153 NaN NaN NaN NaN NaN NaN NaN 23.309 1 23.584 23.084 24.084 0.27562 0 0 0 0.53054 1 10530 10530 27.629 0 1 4380 2206 2923 2933 4912 4912 0.075955039997325 EFLKKYHKKKK 11 Unmodified _EFLKKYHKKKK_ 0 0 0 ENSG00000166262|ENST00000299338|FAM227B;ENST00000561116.5_1_15:49868913-49903415:-|nuORF;ENST00000558615.5_1_15:49867204-49907386:-|nuORF;nc|ENSG00000166262|Q96M60-2|FAM227B ENSG00000166262|ENST00000299338|FAM227B ENSG00000166262|ENST00000299338|FAM227B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 738.9556884765625 2 738.956104 1475.89765 NaN NaN NaN NaN NaN NaN NaN 68.721 1 69.38 68.88 69.88 0.65924 0 0 0 1.0082 1 31501 31501 0 0 1 4381 4466 2924 2934 4913 4913 0.1787412650742226 EFLLRFYIIYI 11 Unmodified _EFLLRFYIIYI_ 0 0 0 REV__ENST00000370790.5_1_X:133903760-133903853:-|nuORF REV__ENST00000370790.5_1_X:133903760-133903853:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 745.42919921875 2 745.426313 1488.83807 NaN NaN NaN NaN NaN NaN NaN 92.583 1 92.583 92.083 93.083 0 0 0 0 1.0073 1 49233 49233 1.1933 0.84271 1 + 4382 15731 2925 2935 4914 4914 0.11320810773418089 EFNNRTNQLN 10 Unmodified _EFNNRTNQLN_ 0 0 0 REV__ENSG00000165895|ENST00000298815|ARHGAP42 REV__ENSG00000165895|ENST00000298815|ARHGAP42 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 417.20263671875 3 417.202181 1248.58471 NaN NaN NaN NaN NaN NaN NaN 41.422 1 41.422 40.922 41.922 0 0 0 0 0.96201 1 18830 18830 7.0371 1.2537 1 + 4383 13195 2926 2936 4915 4915 -0.029636486241543025 EFRFNQRRYDE 11 Unmodified _EFRFNQRRYDE_ 0 0 0 REV__ENST00000337859.10_1_2:187351003-187359982:+|nuORF REV__ENST00000337859.10_1_2:187351003-187359982:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 780.4912109375 2 780.371121 1558.72769 NaN NaN NaN NaN NaN NaN NaN 97.83 1 97.83 97.33 98.33 0 0 0 0 1.008 1 53389 53389 0.35063 0 1 + 4384 15433 2927 2937 4916 4916 -0.029326412328828155 EFRILKKKSF 10 Unmodified _EFRILKKKSF_ 0 0 0 ENST00000536851.1_1_12:21613985-21615680:+|nuORF;ENST00000531301.1_1_11:106697120-106698287:-|nuORF;nc|ENSG00000121350|Q8WU10-2|PYROXD1;ENSG00000121350|ENST00000240651|PYROXD1 ENST00000536851.1_1_12:21613985-21615680:+|nuORF ENST00000536851.1_1_12:21613985-21615680:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.5986633300781 3 432.599324 1294.77614 NaN NaN NaN NaN NaN NaN NaN 104.35 1 104.4 103.9 104.9 0.052994 0 0 0 1.0013 1 56503 56503 0.62683 0.12087 1 4385 2227 2928 2938 4917 4917 0.14054504144928615 EFRKFKEHLKQ 11 Unmodified _EFRKFKEHLKQ_ 0 0 0 ENSG00000160505|ENST00000301295|NLRP4 ENSG00000160505|ENST00000301295|NLRP4 ENSG00000160505|ENST00000301295|NLRP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 745.5614013671875 2 745.417343 1488.82013 NaN NaN NaN NaN NaN NaN NaN 93.859 1 93.946 93.446 94.446 0.086212 0 0 0 1.0061 1 49267 49267 2.7352 1.0826 1 4386 4062 2929 2939 4918 4918 0.09527488571279719 EFRQYKRTYYM 11 Unmodified _EFRQYKRTYYM_ 0 0 0 ENSG00000114127|ENST00000392981|XRN1;nc|ENSG00000114127|Q8IZH2|XRN1;ENST00000472697.5_1_3:142095319-142144369:-|nuORF;nc|ENSG00000114127|Q8IZH2-3|XRN1 ENSG00000114127|ENST00000392981|XRN1 ENSG00000114127|ENST00000392981|XRN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.2619018554688 3 528.925771 1583.75548 3.3142 0.001753 0.74249 0.00039272 4.0567 0.0021457 529.2605448565804 35.189 0.28232 35.812 35.681 35.964 0.62294 13 10 2 0 0 0 0.91104 1 16125 16125 1.2148 0.80657 1 729050 4387 1891 2930 2940 4919 4919 -0.01304454297041957 EFRQYKRTYYM 11 Unmodified _EFRQYKRTYYM_ 0 0 0 ENSG00000114127|ENST00000392981|XRN1;nc|ENSG00000114127|Q8IZH2|XRN1;ENST00000472697.5_1_3:142095319-142144369:-|nuORF;nc|ENSG00000114127|Q8IZH2-3|XRN1 ENSG00000114127|ENST00000392981|XRN1 ENSG00000114127|ENST00000392981|XRN1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 528.925771 1583.75548 3.3142 0.001753 0.74249 0.00039272 4.0567 0.0021457 529.2605448565804 35.189 0.28232 35.812 35.681 35.964 0.62294 -0.015996 0.0002748 NaN 1.2148 13 10 2 NaN NaN NaN NaN 0 NaN NaN 0 729050 4388 1891 2930 2940 -0.01304454297041957 EFRRIHFQNYR 11 Unmodified _EFRRIHFQNYR_ 0 0 0 REV__ENSG00000198001|ENST00000613694|IRAK4 REV__ENSG00000198001|ENST00000613694|IRAK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 783.3929443359375 2 783.40784 1564.80113 NaN NaN NaN NaN NaN NaN NaN 97.837 1 97.907 97.407 98.407 0.070648 0 0 0 1.0072 1 52430 52430 1.3295 0.9789 1 + 4389 14313 2931 2941 4920 4920 0.04131952000216188 EFRRKVTKD 9 Unmodified _EFRRKVTKD_ 0 0 0 ENST00000477714.1_1_22:45706022-45724091:+|nuORF;ENSG00000100376|ENST00000441876|FAM118A ENST00000477714.1_1_22:45706022-45724091:+|nuORF ENST00000477714.1_1_22:45706022-45724091:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.8343505859375 2 589.835654 1177.65676 NaN NaN NaN NaN NaN NaN NaN 84.775 1 84.775 84.275 85.275 0 0 0 0 0.86044 1 42998 42998 7.2892 0 1 4390 1212 2932 2942 4921 4921 0.0750331052022375 EFRRRREMHER 11 Unmodified _EFRRRREMHER_ 0 0 0 REV__GIGYF2|p.I1041Lfs*9|1|0.12|ENSG00000204120|chr2:232844390-232844390|A/-|frameshift_variant REV__GIGYF2|p.I1041Lfs*9|1|0.12|ENSG00000204120|chr2:232844390-232844390|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.6131591796875 3 534.61118 1600.81171 NaN NaN NaN NaN NaN NaN NaN 91.216 1 91.216 90.716 91.716 0 0 0 0 1.008 1 48117 48117 0.094841 0.011491 1 + 4391 14398 2933 2943 4922 4922 0.035336113829998794 EFRRWRQRRRR 11 Unmodified _EFRRWRQRRRR_ 0 0 0 REV__ENST00000525786.1_1_11:96120692-96123066:-|nuORF REV__ENST00000525786.1_1_11:96120692-96123066:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.99658203125 3 567.996356 1700.96724 NaN NaN NaN NaN NaN NaN NaN 105.57 1 105.57 105.07 106.07 0 0 0 0 1.0072 1 58006 58006 1.3296 0.82369 1 + 4392 17079 2934 2944 4923 4923 0.14479443019399696 EFRRWRQRRRR 11 Unmodified _EFRRWRQRRRR_ 0 0 0 REV__ENST00000525786.1_1_11:96120692-96123066:-|nuORF REV__ENST00000525786.1_1_11:96120692-96123066:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 851.88037109375 2 851.490896 1700.96724 NaN NaN NaN NaN NaN NaN NaN 92.888 1 92.974 92.474 93.474 0.086212 0 0 0 1.0082 1 48532 48532 0 0 1 + 4393 17079 2934 2944 4924 4924 0.14479443019399696 EFTKRLYAI 9 Unmodified _EFTKRLYAI_ 0 0 0 REV__nc|ENSG00000182168|O95185-2|UNC5C REV__nc|ENSG00000182168|O95185-2|UNC5C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.8236083984375 2 570.824224 1139.63389 NaN NaN NaN NaN NaN NaN NaN 44.788 1 45.438 44.938 45.938 0.64998 0 0 0 0.82031 1 20527 20527 8.5933 0.68312 1 + 4394 13876 2935 2945 4925 4925 0.06966291402750358 EFVISRPLVI 10 Unmodified _EFVISRPLVI_ 0 0 0 ENSG00000169340|ENST00000302451|PDILT ENSG00000169340|ENST00000302451|PDILT ENSG00000169340|ENST00000302451|PDILT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 391.5740966796875 3 391.572775 1171.69649 NaN NaN NaN NaN NaN NaN NaN 92.293 1 92.376 91.876 92.876 0.082848 0 0 0 1.0001 1 48056 48056 0.69767 0 1 4395 4684 2936 2946 4926 4926 0.11751437470934434 EFWHRYFYKVH 11 Unmodified _EFWHRYFYKVH_ 0 0 0 nc|ENSG00000160058|Q9NW68-9|BSDC1;nc|ENSG00000160058|Q9NW68-4|BSDC1;nc|ENSG00000160058|Q9NW68-8|BSDC1;nc|ENSG00000160058|Q9NW68-2|BSDC1;ENSG00000160058|ENST00000455895|BSDC1;nc|ENSG00000160058|Q9NW68-7|BSDC1;nc|ENSG00000160058|Q9NW68-3|BSDC1 nc|ENSG00000160058|Q9NW68-9|BSDC1 nc|ENSG00000160058|Q9NW68-9|BSDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 806.3983764648438 2 806.39641 1610.77827 NaN NaN NaN NaN NaN NaN NaN 96.502 1 96.78 96.28 97.28 0.27778 0 0 0 1.0082 1 44338 44338 0 0 1 4396 4040 2937 2947 4927 4927 -0.002690671172558723 EGAEMEQEPQ 10 Unmodified _EGAEMEQEPQ_ 0 0 0 ENST00000495510.1_1_13:36900679-36920374:-|nuORF ENST00000495510.1_1_13:36900679-36920374:-|nuORF ENST00000495510.1_1_13:36900679-36920374:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.2327880859375 2 574.232235 1146.44992 NaN NaN NaN NaN NaN NaN NaN 12.293 1 12.555 12.055 13.055 0.26154 0 0 0 0.9952 1 5287 5287 5.7319 1.4026 1 4397 8432 2938 2948 4928 4928 -0.11744889880924347 EGCSRPGR 8 Unmodified _EGCSRPGR_ 0 0 0 ENST00000591501.1_1_19:10763903-10764383:-|nuORF ENST00000591501.1_1_19:10763903-10764383:-|nuORF ENST00000591501.1_1_19:10763903-10764383:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 431.2049560546875 2 431.203418 860.392284 3.4958 0.0015074 0.32525 0.00014025 3.821 0.0016476 431.2035982453911 93.385 0.65675 93.64 93.272 93.929 0.25497 54 31 2 0 0 0 0.7471 1 42951 42951 0.69038 0 1 654980 4398 9238 2939 2949 4929 4929 -0.043496425051671395 EGCSRPGR 8 Unmodified _EGCSRPGR_ 0 0 0 ENST00000591501.1_1_19:10763903-10764383:-|nuORF ENST00000591501.1_1_19:10763903-10764383:-|nuORF ENST00000591501.1_1_19:10763903-10764383:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 431.2047119140625 2 431.203418 860.392284 3.2373 0.0013959 0.069288 2.9877E-05 3.3066 0.0014258 431.2034230609645 93.33 0.56779 93.961 93.644 94.212 0.63115 48 27 2 0 0 0 0.7471 1 42932 42932 0.69038 0 1 675800 4399 9238 2939 2949 4930 4930 -0.043496425051671395 EGDAPDTRDAL 11 Unmodified _EGDAPDTRDAL_ 0 0 0 REV__ENST00000552933.2_1_12:49412567-49412867:+|nuORF REV__ENST00000552933.2_1_12:49412567-49412867:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.51416015625 3 387.179042 1158.5153 2.8087 0.0010875 0.44555 0.00017251 3.2542 0.00126 387.1792024328092 30.652 0.32959 31.269 31.105 31.435 0.61736 43 20 3 0 0 0 0.58424 1 14081 14081 9.2438 0.79947 1 1002500 + 4400 17297 2940 2950 4931 4931 -0.05762152363581663 EGDAPDTRDAL 11 Unmodified _EGDAPDTRDAL_ 0 0 0 REV__ENST00000552933.2_1_12:49412567-49412867:+|nuORF REV__ENST00000552933.2_1_12:49412567-49412867:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 387.179042 1158.5153 2.8703 0.0011113 0.25678 9.9421E-05 3.1271 0.0012108 387.17914638702763 31.113 0.24469 31.113 31 31.245 0 -0.13244 -8.127E-05 NaN 9.2438 33 22 3 NaN NaN NaN NaN 0 NaN NaN 0 613470 + 4401 17297 2940 2950 -0.05762152363581663 EGDAPDTRDAL 11 Unmodified _EGDAPDTRDAL_ 0 0 0 REV__ENST00000552933.2_1_12:49412567-49412867:+|nuORF REV__ENST00000552933.2_1_12:49412567-49412867:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 387.179042 1158.5153 3.3728 0.0013059 0.28933 0.00011202 3.6621 0.0014179 387.17912092021817 31.098 0.38106 31.354 31.162 31.543 0.25614 0.10869 -4.3464E-05 NaN 9.2438 66 33 3 NaN NaN NaN NaN 0 NaN NaN 0 850810 + 4402 17297 2940 2950 -0.05762152363581663 EGDAPDTRDAL 11 Unmodified _EGDAPDTRDAL_ 0 0 0 REV__ENST00000552933.2_1_12:49412567-49412867:+|nuORF REV__ENST00000552933.2_1_12:49412567-49412867:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 387.179042 1158.5153 2.8087 0.0010875 0.44555 0.00017251 3.2542 0.00126 387.1792024328092 30.652 0.32959 31.269 31.105 31.435 0.61736 0.023745 0.00013799 NaN 9.2438 43 20 3 NaN NaN NaN NaN 0 NaN NaN 0 1002500 + 4403 17297 2940 2950 -0.05762152363581663 EGDYCSCDGY 10 Unmodified _EGDYCSCDGY_ 0 0 0 nc|ENSG00000140479|P29122-3|PCSK6;nc|ENSG00000140479|P29122-6|PCSK6;nc|ENSG00000140479|P29122-5|PCSK6;nc|ENSG00000140479|P29122-4|PCSK6;nc|ENSG00000140479|P29122-2|PCSK6;nc|ENSG00000140479|P29122-8|PCSK6;ENSG00000140479|ENST00000611716|PCSK6;nc|ENSG00000140479|P29122-7|PCSK6 nc|ENSG00000140479|P29122-3|PCSK6 nc|ENSG00000140479|P29122-3|PCSK6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.1690673828125 2 556.170789 1110.32703 NaN NaN NaN NaN NaN NaN NaN 97.917 1 98.516 98.016 99.016 0.59885 0 0 0 1.0015 1 45071 45071 0.45834 0.45834 1 4404 3203 2941 2951 4932 4932 -0.2237246960385164 EGEAHELRF 9 Unmodified _EGEAHELRF_ 0 0 0 ENST00000400864.3_1_19:55236001-55309429:+|nuORF ENST00000400864.3_1_19:55236001-55309429:+|nuORF ENST00000400864.3_1_19:55236001-55309429:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.263427734375 2 544.261988 1086.50942 NaN NaN NaN NaN NaN NaN NaN 35.027 1 35.818 35.318 36.318 0.79131 0 0 0 0.89683 1 15873 15873 4.3292 0.38484 1 4405 7610 2942 2952 4933 4933 -0.030372060845593296 EGEGIVTDVM 10 Unmodified _EGEGIVTDVM_ 0 0 0 REV__ENST00000488068.5_1_7:143088552-143095662:-|nuORF REV__ENST00000488068.5_1_7:143088552-143095662:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 525.029296875 2 525.244615 1048.47468 NaN NaN NaN NaN NaN NaN NaN 13.36 1 13.36 12.86 13.86 0 0 0 0 0.99225 1 5840 5840 6.7232 0.99131 1 + 4406 12486 2943 2953 4934 4934 -0.0476221000753867 EGFDRSTSL 9 Unmodified _EGFDRSTSL_ 0 0 0 ENSG00000168209|ENST00000307365|DDIT4;ENST00000471240.1_1_10:74033815-74034322:+|nuORF ENSG00000168209|ENST00000307365|DDIT4 ENSG00000168209|ENST00000307365|DDIT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.2423095703125 2 506.240721 1010.46689 3.0101 0.0015239 0.12562 6.3595E-05 3.1358 0.0015874 506.2407329361917 33.008 0.29041 33.008 32.825 33.116 0 33 17 3 0 0 0 0.049036 2 14930 14930;14982 47.594 9.6204 1 656430 4407 4613 2944 2954 4935;4936 4935 -0.03792601212785485 EGFDRSTSL 9 Unmodified _EGFDRSTSL_ 0 0 0 ENSG00000168209|ENST00000307365|DDIT4;ENST00000471240.1_1_10:74033815-74034322:+|nuORF ENSG00000168209|ENST00000307365|DDIT4 ENSG00000168209|ENST00000307365|DDIT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.24224853515625 2 506.240721 1010.46689 3.0067 0.0015221 -0.49331 -0.00024973 2.5134 0.0012724 506.24042224883 31.962 0.13533 32.75 32.679 32.815 0.78795 18 12 2 0 0 0 0.069974 1 14427 14427 40.239 9.6027 1 829120 4408 4613 2944 2954 4937 4937 -0.03792601212785485 EGFDRSTSL 9 Unmodified _EGFDRSTSL_ 0 0 0 ENSG00000168209|ENST00000307365|DDIT4;ENST00000471240.1_1_10:74033815-74034322:+|nuORF ENSG00000168209|ENST00000307365|DDIT4 ENSG00000168209|ENST00000307365|DDIT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.7428894042969 2 506.240721 1010.46689 3.4183 0.0017305 -0.22073 -0.00011174 3.1976 0.0016187 506.2406652605563 32.86 0.47504 33.114 32.882 33.357 0.25389 44 20 3 0 0 0 0.049036 2 14927 14920;14927 47.594 9.6204 1 1524800 4409 4613 2944 2954 4938;4939 4939 -0.03792601212785485 EGFDRSTSL 9 Unmodified _EGFDRSTSL_ 0 0 0 ENSG00000168209|ENST00000307365|DDIT4;ENST00000471240.1_1_10:74033815-74034322:+|nuORF ENSG00000168209|ENST00000307365|DDIT4 ENSG00000168209|ENST00000307365|DDIT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.2427062988281 2 506.240721 1010.46689 3.2106 0.0016254 0.13229 6.697E-05 3.3429 0.0016923 506.2408230046984 32.294 0.52976 32.912 32.684 33.214 0.61831 65 27 3 0 0 0 0.026853 2 14810 14760;14810 59.368 21.394 1 1382800 4410 4613 2944 2954 4940;4941 4941 -0.03792601212785485 EGFPLTFYC 9 Unmodified _EGFPLTFYC_ 0 0 0 REV__nc|ENSG00000115977|Q2M2I8-2|AAK1 REV__nc|ENSG00000115977|Q2M2I8-2|AAK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.739501953125 2 538.741511 1075.46847 NaN NaN NaN NaN NaN NaN NaN 92.365 1 93.012 92.512 93.512 0.64714 0 0 0 0.90699 1 42496 42496 1.8442 0.51471 1 + 4411 11390 2945 2955 4942 4942 -0.06624683448399082 EGHEEMVAL 9 Unmodified _EGHEEMVAL_ 0 0 0 nc|ENSG00000132466|O75179-5|ANKRD17;nc|ENSG00000132466|O75179-3|ANKRD17;nc|ENSG00000132466|O75179-4|ANKRD17;nc|ENSG00000132466|O75179-6|ANKRD17;nc|ENSG00000132466|O75179-7|ANKRD17;nc|ENSG00000132466|O75179-2|ANKRD17;ENSG00000132466|ENST00000358602|ANKRD17;ENST00000514252.1_1_4:73978989-74017230:-|nuORF;ENST00000490185.1_1_5:139838323-139844373:+|nuORF;ENSG00000131503|ENST00000360839|ANKHD1;nc|ENSG00000131503|Q8IWZ3-5|ANKHD1;nc|ENSG00000131503|Q8IWZ3-3|ANKHD1;nc|ENSG00000131503|Q8IWZ3-2|ANKHD1;nc|ENSG00000131503|Q8IWZ3-4|ANKHD1;nc|ENSG00000131503|Q8IWZ3-6|ANKHD1 nc|ENSG00000132466|O75179-5|ANKRD17;ENSG00000131503|ENST00000360839|ANKHD1 nc|ENSG00000132466|O75179-5|ANKRD17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.7328186035156 2 507.731674 1013.4488 3.0384 0.0015427 -0.18886 -9.5888E-05 2.8496 0.0014468 507.7315961606273 41.95 0.27909 41.95 41.802 42.081 0 40 21 3 0 0 0 0.012869 3 19068 19039;19068;19118 77.984 45.679 1 2310400 4412 2703;2664 2946 2956 4943;4944;4945 4944 -0.0573905945915385 EGHEEMVAL 9 Unmodified _EGHEEMVAL_ 0 0 0 nc|ENSG00000132466|O75179-5|ANKRD17;nc|ENSG00000132466|O75179-3|ANKRD17;nc|ENSG00000132466|O75179-4|ANKRD17;nc|ENSG00000132466|O75179-6|ANKRD17;nc|ENSG00000132466|O75179-7|ANKRD17;nc|ENSG00000132466|O75179-2|ANKRD17;ENSG00000132466|ENST00000358602|ANKRD17;ENST00000514252.1_1_4:73978989-74017230:-|nuORF;ENST00000490185.1_1_5:139838323-139844373:+|nuORF;ENSG00000131503|ENST00000360839|ANKHD1;nc|ENSG00000131503|Q8IWZ3-5|ANKHD1;nc|ENSG00000131503|Q8IWZ3-3|ANKHD1;nc|ENSG00000131503|Q8IWZ3-2|ANKHD1;nc|ENSG00000131503|Q8IWZ3-4|ANKHD1;nc|ENSG00000131503|Q8IWZ3-6|ANKHD1 nc|ENSG00000132466|O75179-5|ANKRD17;ENSG00000131503|ENST00000360839|ANKHD1 nc|ENSG00000132466|O75179-5|ANKRD17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.7332458496094 2 507.731674 1013.4488 3.0517 0.0015494 0.28825 0.00014636 3.34 0.0016958 507.7317518287818 40.919 0.20271 41.722 41.628 41.831 0.80351 33 22 2 0 0 0 0.012869 1 18556 18556 77.984 40.01 1 3941600 4413 2703;2664 2946 2956 4946 4946 -0.0573905945915385 EGHEEMVAL 9 Unmodified _EGHEEMVAL_ 0 0 0 nc|ENSG00000132466|O75179-5|ANKRD17;nc|ENSG00000132466|O75179-3|ANKRD17;nc|ENSG00000132466|O75179-4|ANKRD17;nc|ENSG00000132466|O75179-6|ANKRD17;nc|ENSG00000132466|O75179-7|ANKRD17;nc|ENSG00000132466|O75179-2|ANKRD17;ENSG00000132466|ENST00000358602|ANKRD17;ENST00000514252.1_1_4:73978989-74017230:-|nuORF;ENST00000490185.1_1_5:139838323-139844373:+|nuORF;ENSG00000131503|ENST00000360839|ANKHD1;nc|ENSG00000131503|Q8IWZ3-5|ANKHD1;nc|ENSG00000131503|Q8IWZ3-3|ANKHD1;nc|ENSG00000131503|Q8IWZ3-2|ANKHD1;nc|ENSG00000131503|Q8IWZ3-4|ANKHD1;nc|ENSG00000131503|Q8IWZ3-6|ANKHD1 nc|ENSG00000132466|O75179-5|ANKRD17;ENSG00000131503|ENST00000360839|ANKHD1 nc|ENSG00000132466|O75179-5|ANKRD17 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.8097839355469 2 507.731674 1013.4488 3.5188 0.0017866 0.17801 9.0384E-05 3.6968 0.001877 507.7318956925965 41.747 0.25912 42.017 41.842 42.101 0.27021 23 9 3 0 0 0 0.014702 1 19014 19014 48.346 22.947 1 1278200 4414 2703;2664 2946 2956 4947 4947 -0.0573905945915385 EGHEEMVAL 9 Unmodified _EGHEEMVAL_ 0 0 0 nc|ENSG00000132466|O75179-5|ANKRD17;nc|ENSG00000132466|O75179-3|ANKRD17;nc|ENSG00000132466|O75179-4|ANKRD17;nc|ENSG00000132466|O75179-6|ANKRD17;nc|ENSG00000132466|O75179-7|ANKRD17;nc|ENSG00000132466|O75179-2|ANKRD17;ENSG00000132466|ENST00000358602|ANKRD17;ENST00000514252.1_1_4:73978989-74017230:-|nuORF;ENST00000490185.1_1_5:139838323-139844373:+|nuORF;ENSG00000131503|ENST00000360839|ANKHD1;nc|ENSG00000131503|Q8IWZ3-5|ANKHD1;nc|ENSG00000131503|Q8IWZ3-3|ANKHD1;nc|ENSG00000131503|Q8IWZ3-2|ANKHD1;nc|ENSG00000131503|Q8IWZ3-4|ANKHD1;nc|ENSG00000131503|Q8IWZ3-6|ANKHD1 nc|ENSG00000132466|O75179-5|ANKRD17;ENSG00000131503|ENST00000360839|ANKHD1 nc|ENSG00000132466|O75179-5|ANKRD17 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.81011962890625 2 507.731674 1013.4488 3.4701 0.0017619 -0.25421 -0.00012907 3.2159 0.0016328 507.73120524846325 41.13 0.17257 41.774 41.729 41.902 0.64451 12 9 2 0 0 0 0.089124 1 18839 18839 16.942 5.302 1 2096800 4415 2703;2664 2946 2956 4948 4948 -0.0573905945915385 EGHSKSTRDSF 11 Unmodified _EGHSKSTRDSF_ 0 0 0 REV__nc|ENSG00000100852|Q13017-2|ARHGAP5 REV__nc|ENSG00000100852|Q13017-2|ARHGAP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 625.7903442382812 2 625.79164 1249.56873 NaN NaN NaN NaN NaN NaN NaN 39.91 1 40.177 39.677 40.677 0.26696 0 0 0 0.88712 1 18156 18156 17.443 1.5955 1 + 4416 10852 2947 2957 4949 4949 -0.04607354861059321 EGHVEARIYK 10 Unmodified _EGHVEARIYK_ 0 0 0 REV__ENST00000486708.1_1_22:31924838-31946432:+|nuORF REV__ENST00000486708.1_1_22:31924838-31946432:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 401.2307434082031 3 401.21565 1200.62512 NaN NaN NaN NaN NaN NaN NaN 51.741 1 52.552 52.052 53.052 0.81065 0 0 0 0.99641 1 23569 23569 4.7159 0 1 + 4417 16755 2948 2958 4950 4950 0.032833177662723756 EGHWRPAL 8 Unmodified _EGHWRPAL_ 0 0 0 REV__ENST00000610177.1_1_7:66368428-66368833:+|nuORF REV__ENST00000610177.1_1_7:66368428-66368833:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.2586975097656 2 483.251226 964.487899 3.2297 0.0015608 1.6783 0.00081103 4.908 0.0023718 483.25153209110846 40.192 0.60184 40.192 39.709 40.311 0 54 24 3 0 0 0 0.47217 1 18085 18085 23.148 6.0619 1 892660 + 4418 17683 2949 2959 4951 4951 0.004234536773651598 EGIKSVDLKS 10 Unmodified _EGIKSVDLKS_ 0 0 0 ENSG00000221843|ENST00000447166|C2orf16 ENSG00000221843|ENST00000447166|C2orf16 ENSG00000221843|ENST00000447166|C2orf16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.2063293457031 3 359.20464 1074.59209 2.8261 0.0010152 0.86618 0.00031113 3.6923 0.0013263 359.2049118129376 32.638 0.2756 32.893 32.723 32.999 0.25452 22 13 2 0 0 0 0.45881 1 14833 14833 15.538 1.9236 1 726940 4419 6147 2950 2960 4952 4952 0.057776909235599305 EGIRFMRWRR 10 Unmodified _EGIRFMRWRR_ 0 0 0 REV__ENST00000560458.5_1_15:59970098-59981480:-|nuORF REV__ENST00000560458.5_1_15:59970098-59981480:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 703.4378662109375 2 703.882947 1405.75134 NaN NaN NaN NaN NaN NaN NaN 85.782 1 86.031 85.531 86.531 0.24857 0 0 0 1.0001 1 39474 39474 1.6526 0.17072 1 + 4420 12236 2951 2961 4953 4953 0.06469545790560005 EGIVKQDSL 9 Unmodified _EGIVKQDSL_ 0 0 0 ENSG00000092201|ENST00000216297|SUPT16H ENSG00000092201|ENST00000216297|SUPT16H ENSG00000092201|ENST00000216297|SUPT16H MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.7698669433594 2 494.769114 987.523675 NaN NaN NaN NaN NaN NaN NaN 30.099 1 30.717 30.217 31.217 0.61737 0 0 0 0.11997 1 13808 13808 37.974 13.953 1 4421 1095 2952 2962 4954 4954 0.029414463437205995 EGIWRRVAL 9 Unmodified _EGIWRRVAL_ 0 0 0 ENST00000293880.9_1_11:57100225-57103093:-|nuORF;ENSG00000149136|ENST00000278412|SSRP1 ENST00000293880.9_1_11:57100225-57103093:-|nuORF ENST00000293880.9_1_11:57100225-57103093:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.8262329101562 2 550.322183 1098.62981 3.6556 0.0020118 0.64917 0.00035725 4.3048 0.002369 550.3224301114285 49.144 0.22821 49.406 49.268 49.496 0.26146 11 8 2 0 0 0 0.78763 1 22469 22469 3.9444 3.3429 1 459490 4422 3629 2953 2963 4955 4955 0.08444246699696123 EGKIKPHL 8 Unmodified _EGKIKPHL_ 0 0 0 ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 461.2804870605469 2 461.279452 920.544351 2.9064 0.0013407 -1.2155 -0.00056069 1.6909 0.00077997 461.27919803629567 12.643 0.080364 12.643 12.594 12.675 0 9 5 2 0 0 0 0.062889 1 5518 5518 61.357 15.337 1 866000 4423 5518 2954 2964 4956 4956 0.08090081514046688 EGKIKPHLM 9 Unmodified _EGKIKPHLM_ 0 0 0 ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.53662109375 3 351.535555 1051.58484 2.5357 0.00089139 -0.1273 -4.4751E-05 2.4084 0.00084664 351.53578814958945 14.537 0.19347 15.185 15.104 15.298 0.6482 53 22 3 0 0 0 0.89849 1 6521 6521 5.7319 0.83484 1 886490 4424 5518 2955 2965 4957 4957 0.06110679842140598 EGKPRILSL 9 Unmodified _EGKPRILSL_ 0 0 0 ENSG00000150347|ENST00000279873|ARID5B;nc|ENSG00000150347|Q14865-3|ARID5B ENSG00000150347|ENST00000279873|ARID5B ENSG00000150347|ENST00000279873|ARID5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.8138732910156 2 506.811116 1011.60768 3.3551 0.0017004 0.34532 0.00017501 3.7004 0.0018754 506.81137348344083 40.013 0.38752 40.28 40.071 40.458 0.26696 35 15 3 0 0 0 0.015631 1 18178 18178 74.2 5.0947 1 2810100 4425 3665 2956 2966 4958 4958 0.10234022231293238 EGKPRILSL 9 Unmodified _EGKPRILSL_ 0 0 0 ENSG00000150347|ENST00000279873|ARID5B;nc|ENSG00000150347|Q14865-3|ARID5B ENSG00000150347|ENST00000279873|ARID5B ENSG00000150347|ENST00000279873|ARID5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.81329345703125 2 506.811116 1011.60768 3.43 0.0017384 0.14486 7.3419E-05 3.5748 0.0018118 506.81117553214756 39.524 0.38023 40.161 39.971 40.352 0.63778 36 17 3 0 0 0 0.010904 1 18068 18068 80.676 14.219 1 2579500 4426 3665 2956 2966 4959 4959 0.10234022231293238 EGKRLLKSF 9 Unmodified _EGKRLLKSF_ 0 0 0 ENST00000332012.5_1_17:79281523-79283022:-|nuORF ENST00000332012.5_1_17:79281523-79283022:-|nuORF ENST00000332012.5_1_17:79281523-79283022:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.885986328125 3 359.885353 1076.63423 2.3737 0.00085426 0.31646 0.00011389 2.6901 0.00096815 359.8854132515299 14.977 0.3972 15.284 15.1 15.497 0.3069 72 38 2 0 0 0 1.0246 1 6764 6764 4.1895 3.118 1 138920 4427 6995 2957 2967 4960 4960 0.09897711122607689 EGLIKHIL 8 Unmodified _EGLIKHIL_ 0 0 0 nc|ENSG00000122126|Q01968-2|OCRL;ENSG00000122126|ENST00000371113|OCRL nc|ENSG00000122126|Q01968-2|OCRL nc|ENSG00000122126|Q01968-2|OCRL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 461.7909240722656 2 461.789653 921.564752 2.684 0.0012394 0.46932 0.00021673 3.1533 0.0014562 461.7897354547276 43.305 0.30321 43.575 43.456 43.759 0.27021 39 23 2 0 0 0 0.029809 2 19815 19769;19815 78.149 29.804 1 1789800 4428 2256 2958 2968 4961;4962 4962 0.10083252173853907 EGLIKHIL 8 Unmodified _EGLIKHIL_ 0 0 0 nc|ENSG00000122126|Q01968-2|OCRL;ENSG00000122126|ENST00000371113|OCRL nc|ENSG00000122126|Q01968-2|OCRL nc|ENSG00000122126|Q01968-2|OCRL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 461.7910461425781 2 461.789653 921.564752 NaN NaN NaN NaN NaN NaN NaN 42.723 1 43.37 42.87 43.87 0.64693 0 0 0 0.095043 1 19576 19576 92.491 35.02 1 4429 2256 2958 2968 4963 4963 0.10083252173853907 EGLIKHIL 8 Unmodified _EGLIKHIL_ 0 0 0 nc|ENSG00000122126|Q01968-2|OCRL;ENSG00000122126|ENST00000371113|OCRL nc|ENSG00000122126|Q01968-2|OCRL nc|ENSG00000122126|Q01968-2|OCRL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 461.7911071777344 2 461.789653 921.564752 NaN NaN NaN NaN NaN NaN NaN 42.831 1 43.478 42.978 43.978 0.64693 0 0 0 0.12463 1 19628 19628 48.346 10.195 1 4430 2256 2958 2968 4964 4964 0.10083252173853907 EGLIKHIL 8 Unmodified _EGLIKHIL_ 0 0 0 nc|ENSG00000122126|Q01968-2|OCRL;ENSG00000122126|ENST00000371113|OCRL nc|ENSG00000122126|Q01968-2|OCRL nc|ENSG00000122126|Q01968-2|OCRL MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 461.789653 921.564752 2.706 0.0012496 0.92835 0.0004287 3.6344 0.0016783 461.7897037101219 43.682 0.081932 43.682 43.615 43.697 0 0.053329 0.00039615 NaN 78.149 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 863070 4431 2256 2958 2968 0.10083252173853907 EGLPKPLTL 9 Unmodified _EGLPKPLTL_ 0 0 0 ENSG00000234745|ENST00000412585|HLA-B;ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910749-29913287:+|nuORF ENSG00000234745|ENST00000412585|HLA-B;ENSG00000206503|ENST00000376809|HLA-A ENSG00000206503|ENST00000376809|HLA-A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.2960510253906 2 484.294768 966.574983 3.1941 0.0015469 -1.5953 -0.00077262 1.5988 0.00077427 484.29473332180794 58.939 0.25143 59.606 59.465 59.717 0.66703 17 13 2 0 0 0 0.10837 1 27004 27004 30.637 15.798 1 354270 4432 6072;6198 2959 2969 4965 4965 0.09035815108416045 EGMDGCELMCC 11 Unmodified _EGMDGCELMCC_ 0 0 0 ENST00000545747.1_1_12:1754224-1755415:+|nuORF;ENSG00000111186|ENST00000397196|WNT5B;nc|ENSG00000114251|P41221-2|WNT5A;ENSG00000114251|ENST00000264634|WNT5A ENST00000545747.1_1_12:1754224-1755415:+|nuORF ENST00000545747.1_1_12:1754224-1755415:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 596.018310546875 2 595.68638 1189.35821 NaN NaN NaN NaN NaN NaN NaN 9.2167 1 9.5279 9.0279 10.028 0.31115 0 0 0 1.008 1 4134 4134 0.35063 0 1 4433 1745 2960 2970 4966 4966 -0.22889679157265164 EGNFDIMLT 9 Unmodified _EGNFDIMLT_ 0 0 0 REV__nc|ENSG00000162711|Q96P20-3|NLRP3 REV__nc|ENSG00000162711|Q96P20-3|NLRP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1039.4786376953125 1 1039.47647 1038.4692 3.0732 0.0031945 0.98451 0.0010234 4.0577 0.0042179 1039.476874164703 70.568 0.37126 71.23 71.004 71.375 0.66209 54 21 3 0 0 0 0.41574 1 32287 32287 13.906 1.3745 1 1423800 + 4434 12953 2961 2971 4967 4967 -0.048498887993673634 EGNLKLNRE 9 Unmodified _EGNLKLNRE_ 0 0 0 ENST00000478998.5_1_3:108124174-108178278:-|nuORF;ENSG00000144821|ENST00000693548|MYH15 ENST00000478998.5_1_3:108124174-108178278:-|nuORF ENST00000478998.5_1_3:108124174-108178278:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.7924194335938 2 536.790912 1071.56727 2.8086 0.0015076 0.88087 0.00047285 3.6894 0.0019805 536.7912845444358 17.472 0.22608 17.773 17.65 17.876 0.30158 24 15 2 0 0 0 1.0041 1 7905 7905 3.9444 0 1 104290 4435 3447 2962 2972 4968 4968 0.03435055840873247 EGPECETPGI 10 Unmodified _EGPECETPGI_ 0 0 0 ENSG00000125755|ENST00000245934|SYMPK;ENST00000598364.1_1_19:46318820-46320367:-|nuORF;ENST00000598155.5_1_19:46318820-46327397:-|nuORF ENSG00000125755|ENST00000245934|SYMPK ENSG00000125755|ENST00000245934|SYMPK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.2243041992188 2 516.221139 1030.42773 NaN NaN NaN NaN NaN NaN NaN 52.742 1 52.742 52.242 53.242 0 0 0 0 0.99733 1 24155 24155 3.9444 0.3479 1 4436 2420 2963 2973 4969 4969 -0.08627069558701805 EGPTHSTFTF 10 Unmodified _EGPTHSTFTF_ 0 0 0 REV__ENST00000513799.5_1_5:177019550-177022414:+|nuORF REV__ENST00000513799.5_1_5:177019550-177022414:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.2586059570312 2 562.256371 1122.49819 3.4304 0.0019288 -0.3379 -0.00018999 3.0925 0.0017388 562.2561952769937 51.944 0.34365 51.944 51.783 52.127 0 58 26 3 0 0 0 0.16336 1 23840 23840 43.858 5.6827 1 2552500 + 4437 13988 2964 2974 4970 4970 -0.058160281787195345 EGPTHSTFTF 10 Unmodified _EGPTHSTFTF_ 0 0 0 REV__ENST00000513799.5_1_5:177019550-177022414:+|nuORF REV__ENST00000513799.5_1_5:177019550-177022414:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.25830078125 2 562.256371 1122.49819 3.487 0.0019606 -0.2708 -0.00015226 3.2162 0.0018083 562.2561564217116 51.985 0.25205 52.247 52.107 52.359 0.26227 43 20 3 0 0 0 0.10303 2 23739 23739;23794 52.268 6.5687 1 943400 + 4438 13988 2964 2974 4971;4972 4971 -0.058160281787195345 EGPTHSTFTF 10 Unmodified _EGPTHSTFTF_ 0 0 0 REV__ENST00000513799.5_1_5:177019550-177022414:+|nuORF REV__ENST00000513799.5_1_5:177019550-177022414:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.258056640625 2 562.256371 1122.49819 3.3747 0.0018975 0.080921 4.5498E-05 3.4557 0.001943 562.2563746427513 51.402 0.29576 52.062 51.925 52.221 0.65956 41 18 3 0 0 0 0.16336 2 23483 23483;23532 43.858 5.6827 1 875900 + 4439 13988 2964 2974 4973;4974 4973 -0.058160281787195345 EGPTHSTFTF 10 Unmodified _EGPTHSTFTF_ 0 0 0 REV__ENST00000513799.5_1_5:177019550-177022414:+|nuORF REV__ENST00000513799.5_1_5:177019550-177022414:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 562.256371 1122.49819 3.487 0.0019606 -0.2708 -0.00015226 3.2162 0.0018083 562.2561564217116 51.985 0.25205 52.247 52.107 52.359 0.26227 0.092592 -0.00017481 NaN 52.268 43 20 3 NaN NaN NaN NaN 0 NaN NaN 0 943400 + 4440 13988 2964 2974 -0.058160281787195345 EGPTHSTFTF 10 Unmodified _EGPTHSTFTF_ 0 0 0 REV__ENST00000513799.5_1_5:177019550-177022414:+|nuORF REV__ENST00000513799.5_1_5:177019550-177022414:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 562.256371 1122.49819 3.3747 0.0018975 0.080921 4.5498E-05 3.4557 0.001943 562.2563746427513 51.402 0.29576 52.062 51.925 52.221 0.65956 -0.092592 0.0002207 NaN 52.268 41 18 3 NaN NaN NaN NaN 0 NaN NaN 0 875900 + 4441 13988 2964 2974 -0.058160281787195345 EGQWQHQAEVQ 11 Unmodified _EGQWQHQAEVQ_ 0 0 0 ENSG00000104081|ENST00000354670|BMF ENSG00000104081|ENST00000354670|BMF ENSG00000104081|ENST00000354670|BMF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.30810546875 2 670.304915 1338.59528 NaN NaN NaN NaN NaN NaN NaN 16.008 1 16.219 15.719 16.719 0.21108 0 0 0 1.0074 1 7069 7069 1.0715 0.67075 1 4442 1424 2965 2975 4975 4975 -0.06047665969731497 EGQWQHQAEVQ 11 Unmodified _EGQWQHQAEVQ_ 0 0 0 ENSG00000104081|ENST00000354670|BMF ENSG00000104081|ENST00000354670|BMF ENSG00000104081|ENST00000354670|BMF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.30859375 2 670.304915 1338.59528 NaN NaN NaN NaN NaN NaN NaN 16.144 1 16.355 15.855 16.855 0.21108 0 0 0 1.0065 1 7128 7128 2.2828 0.63015 1 4443 1424 2965 2975 4976 4976 -0.06047665969731497 EGQWQHQAEVQ 11 Unmodified _EGQWQHQAEVQ_ 0 0 0 ENSG00000104081|ENST00000354670|BMF ENSG00000104081|ENST00000354670|BMF ENSG00000104081|ENST00000354670|BMF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.3076171875 2 670.304915 1338.59528 NaN NaN NaN NaN NaN NaN NaN 16.234 1 16.435 15.935 16.935 0.20057 0 0 0 1.0061 1 7168 7168 2.7352 1.0826 1 4444 1424 2965 2975 4977 4977 -0.06047665969731497 EGQWQHQAEVQ 11 Unmodified _EGQWQHQAEVQ_ 0 0 0 ENSG00000104081|ENST00000354670|BMF ENSG00000104081|ENST00000354670|BMF ENSG00000104081|ENST00000354670|BMF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.3075561523438 2 670.304915 1338.59528 NaN NaN NaN NaN NaN NaN NaN 16.322 1 16.523 16.023 17.023 0.20057 0 0 0 1.0065 1 7207 7207 2.2828 1.2113 1 4445 1424 2965 2975 4978 4978 -0.06047665969731497 EGREIWTLLT 10 Unmodified _EGREIWTLLT_ 0 0 0 REV__ENSG00000165675|ENST00000394363|ENOX2 REV__ENSG00000165675|ENST00000394363|ENOX2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.9158020019531 3 406.555672 1216.64519 3.1121 0.0012652 0.39535 0.00016073 3.5074 0.001426 406.89024575443364 29.483 0.23236 29.742 29.613 29.845 0.25804 23 13 2 0 0 0 0.12676 1 13395 13395 8.9762 2.3459 1 300750 + 4446 13179 2966 2976 4979 4979 0.04553068706218255 EGREWHPIR 9 Unmodified _EGREWHPIR_ 0 0 0 REV__ENSG00000104324|ENST00000220763|CPQ REV__ENSG00000104324|ENST00000220763|CPQ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.2071533203125 3 393.872106 1178.59449 2.7024 0.0010644 -0.82732 -0.00032586 1.8751 0.00073853 393.8717548760648 18.529 0.28388 18.529 18.376 18.66 0 26 15 2 0 0 0 0.54955 1 8207 8207 7.609 1.7408 1 490630 + 4447 10989 2967 2977 4980 4980 0.012335841718822849 EGREWHPIR 9 Unmodified _EGREWHPIR_ 0 0 0 REV__ENSG00000104324|ENST00000220763|CPQ REV__ENSG00000104324|ENST00000220763|CPQ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.8729248046875 3 393.872106 1178.59449 2.7249 0.0010733 -1.0237 -0.00040321 1.7012 0.00067004 393.87165776166694 15.433 1.0353 15.739 15.355 16.39 0.306 192 113 2 0 0 0 0.98132 1 6956 6956 2.4985 0 1 164420 + 4448 10989 2967 2977 4981 4981 0.012335841718822849 EGRGKAFSTC 10 Unmodified _EGRGKAFSTC_ 0 0 0 ENSG00000196098|ENST00000354924|OR5K4 ENSG00000196098|ENST00000354924|OR5K4 ENSG00000196098|ENST00000354924|OR5K4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.5787353515625 2 528.250566 1054.48658 NaN NaN NaN NaN NaN NaN NaN 85.617 1 85.646 85.146 86.146 0.028603 0 0 0 0.98317 1 42897 42897 8.1555 0.24537 1 4449 5718 2968 2978 4982 4982 -0.03848548473683877 EGRIRGAAL 9 Unmodified _EGRIRGAAL_ 0 0 0 nc|ENSG00000175029|P56545|CTBP2;nc|ENSG00000175029|P56545-3|CTBP2;ENSG00000175029|ENST00000309035|CTBP2;ENST00000511907.1_1_4:1208072-1210006:-|nuORF;ENSG00000159692|ENST00000382952|CTBP1;nc|ENSG00000159692|Q13363|CTBP1 nc|ENSG00000175029|P56545|CTBP2 nc|ENSG00000175029|P56545|CTBP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.77899169921875 2 471.777608 941.540663 2.6886 0.0012684 0.2485 0.00011724 2.9371 0.0013857 471.7777292044752 14.975 0.41842 15.282 15.115 15.534 0.3069 104 42 3 0 0 0 0.76984 2 6741 6741;6780 7.9102 7.9102 1 343060 4450 5009 2969 2979 4983;4984 4983 0.06755411740175532 EGRIRGAAL 9 Unmodified _EGRIRGAAL_ 0 0 0 nc|ENSG00000175029|P56545|CTBP2;nc|ENSG00000175029|P56545-3|CTBP2;ENSG00000175029|ENST00000309035|CTBP2;ENST00000511907.1_1_4:1208072-1210006:-|nuORF;ENSG00000159692|ENST00000382952|CTBP1;nc|ENSG00000159692|Q13363|CTBP1 nc|ENSG00000175029|P56545|CTBP2 nc|ENSG00000175029|P56545|CTBP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.7793273925781 2 471.777608 941.540663 3.0432 0.0014357 0.65624 0.0003096 3.6995 0.0017453 471.7778969491367 14.995 0.4678 15.648 15.455 15.923 0.65356 111 43 3 0 0 0 0.093314 3 6747 6699;6747;6795 34.402 9.7278 1 882060 4451 5009 2969 2979 4985;4986;4987 4986 0.06755411740175532 EGRQKMTSL 9 Unmodified _EGRQKMTSL_ 0 0 0 nc|ENSG00000047932|Q9HD26-3|GOPC;nc|ENSG00000047932|Q9HD26-2|GOPC;ENSG00000047932|ENST00000368498|GOPC nc|ENSG00000047932|Q9HD26-3|GOPC nc|ENSG00000047932|Q9HD26-3|GOPC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.7775268554688 2 525.274041 1048.53353 2.9297 0.0015389 1.2547 0.00065906 4.1844 0.0021979 525.7765079804517 13.61 0.2499 13.918 13.752 14.002 0.30727 48 21 3 0 0 0 0.64206 2 6108 6108;6132 10.074 2.1638 1 840940 4452 563 2970 2980 4988;4989 4988 0.011203110774658853 EGRQKMTSL 9 Unmodified _EGRQKMTSL_ 0 0 0 nc|ENSG00000047932|Q9HD26-3|GOPC;nc|ENSG00000047932|Q9HD26-2|GOPC;ENSG00000047932|ENST00000368498|GOPC nc|ENSG00000047932|Q9HD26-3|GOPC nc|ENSG00000047932|Q9HD26-3|GOPC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.8542785644531 3 350.518453 1048.53353 2.1275 0.00074572 1.5031 0.00052687 3.6306 0.0012726 350.8535626753706 13.59 0.34986 13.898 13.7 14.05 0.30727 71 30 3 0 0 0 0.24465 1 6111 6111 14.405 0 1 1295200 4453 563 2970 2980 4990 4990 0.011203110774658853 EGRRPRRTQRR 11 Unmodified _EGRRPRRTQRR_ 0 0 0 ENST00000276520.12_1_8:38644873-38644972:+|nuORF ENST00000276520.12_1_8:38644873-38644972:+|nuORF ENST00000276520.12_1_8:38644873-38644972:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 367.7187194824219 4 367.717353 1466.84031 2.5 0.00091928 -0.53583 -0.00019703 1.9641 0.00072224 367.7171510065175 61.612 0.32093 62.272 61.987 62.308 0.66008 35 16 3 0 0 0 0.91345 1 28166 28166 0.45452 0.45452 1 6607700 4454 6676 2971 2981 4991 4991 0.12556097074434547 EGRRPRRTQRR 11 Unmodified _EGRRPRRTQRR_ 0 0 0 ENST00000276520.12_1_8:38644873-38644972:+|nuORF ENST00000276520.12_1_8:38644873-38644972:+|nuORF ENST00000276520.12_1_8:38644873-38644972:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 367.717353 1466.84031 2.6319 0.0009678 -0.51959 -0.00019106 2.1123 0.00077674 367.71711481828515 62.171 0.3264 62.424 62.199 62.525 0.25245 0.076088 1.2405E-05 NaN 0.45452 27 14 3 NaN NaN NaN NaN 0 NaN NaN 0 1275300 4455 6676 2971 2981 0.12556097074434547 EGTEAEPLP 9 Unmodified _EGTEAEPLP_ 0 0 0 ENSG00000142733|ENST00000357582|MAP3K6;nc|ENSG00000142733|O95382-3|MAP3K6 ENSG00000142733|ENST00000357582|MAP3K6 ENSG00000142733|ENST00000357582|MAP3K6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.7254943847656 2 471.724372 941.434192 2.8323 0.0013361 0.042206 1.991E-05 2.8745 0.001356 471.72438028984794 50.411 0.44424 50.672 50.464 50.909 0.26146 27 20 2 0 0 0 0.95612 1 23140 23140 4.756 0 1 872270 4456 3329 2972 2982 4992 4992 -0.03886808335664682 EGTEGPQGM 9 Unmodified _EGTEGPQGM_ 0 0 0 ENSG00000282419|ENST00000632372|TEX13D ENSG00000282419|ENST00000632372|TEX13D ENSG00000282419|ENST00000632372|TEX13D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 453.18878173828125 2 453.1871 904.359646 2.8696 0.0013005 0.29168 0.00013219 3.1613 0.0014327 453.1870963334622 17.75 0.27393 17.75 17.612 17.886 0 26 17 2 0 0 0 0.95612 1 7881 7881 4.756 0 1 131840 4457 6367 2973 2983 4993 4993 -0.09635894418681801 EGTVLVEPR 9 Unmodified _EGTVLVEPR_ 0 0 0 ENST00000356949.2_6:167358247-167358364:-|nuORF ENST00000356949.2_6:167358247-167358364:-|nuORF ENST00000356949.2_6:167358247-167358364:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.2816467285156 2 500.277106 998.53966 NaN NaN NaN NaN NaN NaN NaN 45.117 1 45.943 45.443 46.443 0.82621 0 0 0 0.8984 1 20546 20546 3.9444 0 1 4458 7166 2974 2984 4994 4994 0.040331525806209356 EGYIKKLL 8 Unmodified _EGYIKKLL_ 0 0 0 nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000100796|Q6IN85-2|PPP4R3A;ENSG00000100796|ENST00000554943|PPP4R3A;nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B;ENSG00000275052|ENST00000616407|PPP4R3B;nc|ENSG00000275052|Q5MIZ7-3|PPP4R3B nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 482.2990417480469 2 482.29731 962.580068 3.1994 0.001543 -0.066286 -3.1969E-05 3.1331 0.0015111 482.2974086684088 39.902 0.26764 39.902 39.772 40.04 0 23 11 3 0 0 0 0.029809 1 18098 18098 78.149 36.055 1 452580 4459 6345;1241 2975 2985 4995 4995 0.09728118971031563 EGYIKKLL 8 Unmodified _EGYIKKLL_ 0 0 0 nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000100796|Q6IN85-2|PPP4R3A;ENSG00000100796|ENST00000554943|PPP4R3A;nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B;ENSG00000275052|ENST00000616407|PPP4R3B;nc|ENSG00000275052|Q5MIZ7-3|PPP4R3B nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.2985534667969 2 482.29731 962.580068 3.1137 0.0015017 0.073881 3.5633E-05 3.1876 0.0015374 482.29724218425747 38.754 0.3203 39.551 39.379 39.699 0.79762 30 14 3 0 0 0 0.037007 2 17541 17541;17591 71.134 29.039 1 272990 4460 6345;1241 2975 2985 4996;4997 4996 0.09728118971031563 EGYIKKLL 8 Unmodified _EGYIKKLL_ 0 0 0 nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000100796|Q6IN85-2|PPP4R3A;ENSG00000100796|ENST00000554943|PPP4R3A;nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B;ENSG00000275052|ENST00000616407|PPP4R3B;nc|ENSG00000275052|Q5MIZ7-3|PPP4R3B nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.76788330078125 2 482.29731 962.580068 3.0993 0.0014948 -0.15905 -7.6711E-05 2.9403 0.0014181 482.297398667521 39.671 0.35831 39.938 39.745 40.103 0.26696 29 12 3 0 0 0 0.00014171 1 18035 18035 68.081 39.594 1 741930 4461 6345;1241 2975 2985 4998 4998 0.09728118971031563 EGYIKKLL 8 Unmodified _EGYIKKLL_ 0 0 0 nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000100796|Q6IN85-2|PPP4R3A;ENSG00000100796|ENST00000554943|PPP4R3A;nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B;ENSG00000275052|ENST00000616407|PPP4R3B;nc|ENSG00000275052|Q5MIZ7-3|PPP4R3B nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.2992248535156 2 482.29731 962.580068 3.2418 0.0015635 -0.2189 -0.00010558 3.0229 0.0014579 482.2973739678424 39.239 0.28517 39.877 39.712 39.997 0.63778 21 10 3 0 0 0 0.018424 1 17915 17915 88.904 46.809 1 707980 4462 6345;1241 2975 2985 4999 4999 0.09728118971031563 EGYVKVQV 8 Unmodified _EGYVKVQV_ 0 0 0 ENSG00000139218|ENST00000369367|SCAF11;SCAF11|p.E294Lfs*24|1|0.07|ENSG00000139218|chr12:45928821-45928822|-/AG|frameshift_variant ENSG00000139218|ENST00000369367|SCAF11 ENSG00000139218|ENST00000369367|SCAF11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 461.2569580078125 2 461.255643 920.496732 2.7606 0.0012733 0.69786 0.00032189 3.4585 0.0015952 461.2559986581334 37.815 0.26145 38.076 37.923 38.184 0.26083 12 8 2 0 0 0 0.10141 1 17215 17215 53.576 15.424 1 409140 4463 3139 2976 2986 5000 5000 0.0333038252319966 EGYVKVQV 8 Unmodified _EGYVKVQV_ 0 0 0 ENSG00000139218|ENST00000369367|SCAF11;SCAF11|p.E294Lfs*24|1|0.07|ENSG00000139218|chr12:45928821-45928822|-/AG|frameshift_variant ENSG00000139218|ENST00000369367|SCAF11 ENSG00000139218|ENST00000369367|SCAF11 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 461.255643 920.496732 2.8567 0.0013177 1.1454 0.0005283 4.0021 0.001846 461.25612726123944 37.213 0.25756 37.843 37.681 37.939 0.62999 -0.11683 0.00015527 NaN 53.576 22 11 3 NaN NaN NaN NaN 0 NaN NaN 0 327510 4464 3139 2976 2986 0.0333038252319966 EHCMEEDDCDE 11 Unmodified _EHCMEEDDCDE_ 0 0 0 REV__nc|ENSG00000186462|Q9ULW6-2|NAP1L2 REV__nc|ENSG00000186462|Q9ULW6-2|NAP1L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 677.6967163085938 2 677.697042 1353.37953 NaN NaN NaN NaN NaN NaN NaN 62.609 1 62.609 62.109 63.109 0 0 0 0 1.0082 1 29354 29354 0 0 1 + 4465 14056 2977 2987 5001 5001 -0.28302299323217994 EHDNPRQLS 9 Unmodified _EHDNPRQLS_ 0 0 0 REV__nc|ENSG00000101665|O15105-2|SMAD7 REV__nc|ENSG00000101665|O15105-2|SMAD7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.8445739746094 3 365.844105 1094.51048 NaN NaN NaN NaN NaN NaN NaN 44.783 1 45.051 44.551 45.551 0.26768 0 0 0 0.90699 1 20469 20469 0.96228 0 1 + 4466 10907 2978 2988 5002 5002 -0.03298991715655575 EHEDYEEDEED 11 Unmodified _EHEDYEEDEED_ 0 0 0 ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 719.3500366210938 2 719.741873 1437.46919 NaN NaN NaN NaN NaN NaN NaN 81.052 1 81.052 80.552 81.552 0 0 0 0 1.008 1 40340 40340 0.35063 0.35063 1 4467 557 2979 2989 5003 5003 -0.2320430684699204 EHEKLQQLL 9 Unmodified _EHEKLQQLL_ 0 0 0 nc|ENSG00000124541|Q96EU6-2|RRP36;ENSG00000124541|ENST00000244496|RRP36 nc|ENSG00000124541|Q96EU6-2|RRP36 nc|ENSG00000124541|Q96EU6-2|RRP36 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.7845458984375 2 569.316763 1136.61897 3.9316 0.0022383 1.4733 0.00083879 5.405 0.0030771 569.3173788969318 46.107 0.19886 46.758 46.6 46.799 0.65104 8 5 2 0 0 0 0.091317 1 21134 21134 19.257 6.7254 1 244900 4468 2364 2980 2990 5004 5004 0.05612799534765145 EHGDPDVCW 9 Unmodified _EHGDPDVCW_ 0 0 0 REV__nc|ENSG00000087303|Q14112-2|NID2 REV__nc|ENSG00000087303|Q14112-2|NID2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.2068481445312 2 529.205824 1056.39709 3.0604 0.0016196 -0.086716 -4.5891E-05 2.9737 0.0015737 529.2054356819725 52.55 0.31767 52.55 52.38 52.698 0 48 29 2 0 0 0 0.11155 3 24062 23998;24018;24062 32.305 32.305 1 1549500 + 4469 10669 2981 2991 5005;5006;5007 5007 -0.1288480315306515 EHGDPDVCW 9 Unmodified _EHGDPDVCW_ 0 0 0 REV__nc|ENSG00000087303|Q14112-2|NID2 REV__nc|ENSG00000087303|Q14112-2|NID2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.27490234375 2 529.205824 1056.39709 3.0604 0.0016196 -0.086716 -4.5891E-05 2.9737 0.0015737 529.2054356819725 52.55 0.31767 52.55 52.38 52.698 0 48 29 2 0 0 0 0.096132 1 23998 23998 14.838 7.549 1 1549500 + 4470 10669 2981 2991 5008 5008 -0.1288480315306515 EHGDPDVCW 9 Unmodified _EHGDPDVCW_ 0 0 0 REV__nc|ENSG00000087303|Q14112-2|NID2 REV__nc|ENSG00000087303|Q14112-2|NID2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.2079467773438 2 529.205824 1056.39709 2.5541 0.0013516 0.87885 0.00046509 3.433 0.0018167 529.2063484219564 51.573 0.29802 52.39 52.222 52.52 0.81738 41 19 3 0 0 0 0.11155 2 23442 23442;23495 32.305 17.467 1 888670 + 4471 10669 2981 2991 5009;5010 5009 -0.1288480315306515 EHGDPDVCW 9 Unmodified _EHGDPDVCW_ 0 0 0 REV__nc|ENSG00000087303|Q14112-2|NID2 REV__nc|ENSG00000087303|Q14112-2|NID2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.2828979492188 2 529.205824 1056.39709 2.5541 0.0013516 0.87885 0.00046509 3.433 0.0018167 529.2063484219564 51.573 0.29802 52.39 52.222 52.52 0.81738 41 19 3 0 0 0 0.080899 1 23518 23518 20.454 6.5476 1 888670 + 4472 10669 2981 2991 5011 5011 -0.1288480315306515 EHGDPDVCW 9 Unmodified _EHGDPDVCW_ 0 0 0 REV__nc|ENSG00000087303|Q14112-2|NID2 REV__nc|ENSG00000087303|Q14112-2|NID2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.2070922851562 2 529.205824 1056.39709 3.2134 0.0017005 0.09636 5.0994E-05 3.3097 0.0017515 529.2059610280483 52.417 0.25177 52.68 52.548 52.8 0.26345 22 11 3 0 0 0 0.11155 1 23952 23952 32.305 32.305 1 845620 + 4473 10669 2981 2991 5012 5012 -0.1288480315306515 EHGDPDVCW 9 Unmodified _EHGDPDVCW_ 0 0 0 REV__nc|ENSG00000087303|Q14112-2|NID2 REV__nc|ENSG00000087303|Q14112-2|NID2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.2843627929688 2 529.205824 1056.39709 3.2134 0.0017005 0.09636 5.0994E-05 3.3097 0.0017515 529.2059610280483 52.417 0.25177 52.68 52.548 52.8 0.26345 22 11 3 0 0 0 0.10218 1 24009 24009 10.824 3.5347 1 845620 + 4474 10669 2981 2991 5013 5013 -0.1288480315306515 EHGDPDVCW 9 Unmodified _EHGDPDVCW_ 0 0 0 REV__nc|ENSG00000087303|Q14112-2|NID2 REV__nc|ENSG00000087303|Q14112-2|NID2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.207275390625 2 529.205824 1056.39709 3.0921 0.0016364 0.093858 4.967E-05 3.186 0.001686 529.2056053170912 51.835 0.34845 52.497 52.358 52.706 0.66198 33 20 2 0 0 0 0.26118 2 23742 23696;23742 25.399 25.399 1 721460 + 4475 10669 2981 2991 5014;5015 5015 -0.1288480315306515 EHGDQDYIW 9 Unmodified _EHGDQDYIW_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6;ENST00000550040.1_1_12:50153009-50155568:+|nuORF nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.7445068359375 2 581.743628 1161.4727 3.6266 0.0021098 -2.1001 -0.0012217 1.5266 0.00088806 581.7433355294465 50.431 0.2137 50.431 50.336 50.55 0 12 8 2 0 0 0 0.19064 1 23115 23115 24.021 13.197 1 359850 4476 3158 2982 2992 5016 5016 -0.10157502701144949 EHGDQDYIW 9 Unmodified _EHGDQDYIW_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6;ENST00000550040.1_1_12:50153009-50155568:+|nuORF nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.7460327148438 2 581.743628 1161.4727 3.6009 0.0020948 0.55144 0.00032079 4.1523 0.0024156 581.7440113325637 49.787 0.17223 50.445 50.419 50.591 0.65735 11 7 2 0 0 0 0.048676 1 22793 22793 47.749 47.749 1 535660 4477 3158 2982 2992 5017 5017 -0.10157502701144949 EHHATDPDL 9 Unmodified _EHHATDPDL_ 0 0 0 REV__ENSG00000112343|ENST00000357085|TRIM38 REV__ENSG00000112343|ENST00000357085|TRIM38 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.4898376464844 3 345.489439 1033.44649 2.6673 0.00092152 -0.024796 -8.5669E-06 2.6425 0.00091296 345.4893321901209 12.719 0.36865 13.362 13.278 13.646 0.64272 12 10 2 0 0 0 0.92418 1 5733 5733 5.2969 0.39987 1 650850 + 4478 11271 2983 2993 5018 5018 -0.06889771872624806 EHIWFETN 8 Unmodified _EHIWFETN_ 0 0 0 nc|ENSG00000149091|Q13574-6|DGKZ;ENSG00000149091|ENST00000456247|DGKZ;nc|ENSG00000149091|Q13574-4|DGKZ;nc|ENSG00000149091|Q13574-5|DGKZ;ENST00000528173.5_1_11:46388871-46389638:+|nuORF;ENST00000531879.5_1_11:46367016-46400221:+|nuORF;nc|ENSG00000149091|Q13574-7|DGKZ;nc|ENSG00000149091|Q13574-3|DGKZ;nc|ENSG00000149091|Q13574-1|DGKZ nc|ENSG00000149091|Q13574-6|DGKZ nc|ENSG00000149091|Q13574-6|DGKZ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.2687377929688 2 538.245806 1074.47706 NaN NaN NaN NaN NaN NaN NaN 71.983 1 72.687 72.187 73.187 0.70386 0 0 0 0.94507 1 34610 34610 9.3474 0 1 4479 3625 2984 2994 5019 5019 -0.057199934875598046 EHKKLFLV 8 Unmodified _EHKKLFLV_ 0 0 0 ENSG00000167005|ENST00000300291|NUDT21 ENSG00000167005|ENST00000300291|NUDT21 ENSG00000167005|ENST00000300291|NUDT21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.5316162109375 3 338.542927 1012.60695 2.4102 0.00081595 -3.3837 -0.0011455 -0.97347 -0.00032956 338.8761894166281 14.815 0.090689 15.468 15.434 15.525 0.65356 6 4 2 0 0 0 0.66653 1 6693 6693 6.2058 0.47393 1 80404 4480 4526 2985 2995 5020 5020 0.10115227582230091 EHKNWLRTRR 10 Unmodified _EHKNWLRTRR_ 0 0 0 nc|ENSG00000164520|Q8TD07-6|RAET1E nc|ENSG00000164520|Q8TD07-6|RAET1E nc|ENSG00000164520|Q8TD07-6|RAET1E MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 698.7384033203125 2 698.389451 1394.76435 3.2547 0.002273 3.3503 0.0023398 6.6049 0.0046128 698.891530837774 90.086 0.019592 90.086 90.077 90.097 0 4 2 2 0 0 0 0.12676 1 47240 47240 1.4819 0.15237 1 10630000 4481 9725 2986 2996 5021 5021 0.08275700174294798 EHKQYSCCSKC 11 Unmodified _EHKQYSCCSKC_ 0 0 0 REV__nc|ENSG00000170011|Q8NFW9-5|MYRIP REV__nc|ENSG00000170011|Q8NFW9-5|MYRIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 439.1803894042969 3 439.179114 1314.51551 2.7721 0.0012174 -1.0294 -0.00045207 1.7427 0.00076537 439.17876915352247 48.324 0.31539 49.151 48.981 49.296 0.82705 36 14 3 0 0 0 0.904 1 22000 22000 2.2527 0.51045 1 1225900 + 4482 13418 2987 2997 5022 5022 -0.12916515231222547 EHLASCPPDP 10 Unmodified _EHLASCPPDP_ 0 0 0 REV__nc|ENSG00000167705|Q96NA2-2|RILP REV__nc|ENSG00000167705|Q96NA2-2|RILP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.2391357421875 2 533.237124 1064.45969 3.3894 0.0018074 0.39206 0.00020906 3.7815 0.0020164 533.2370254183274 42.694 0.079239 43.341 43.3 43.379 0.64693 9 6 2 0 0 0 0.12676 1 19571 19571 3.5965 0 1 1487100 + 4483 13302 2988 2998 5023 5023 -0.06995657084894447 EHLDKEPM 8 Unmodified _EHLDKEPM_ 0 0 0 REV__ENSG00000165953|ENST00000677451|SERPINA12 REV__ENSG00000165953|ENST00000677451|SERPINA12 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.7707824707031 2 499.734217 997.453881 3.071 0.0015347 0.33651 0.00016816 3.4075 0.0017028 499.7345269285795 51.463 0.42933 51.726 51.566 51.995 0.26228 36 21 2 0 0 0 0.1113 1 23450 23450 18.135 6.4947 1 1054200 + 4484 13200 2989 2999 5024 5024 -0.04494755596545019 EHLFIRLLIS 10 Unmodified _EHLFIRLLIS_ 0 0 0 REV__ENST00000515800.6_1_5:86667940-86686697:+|nuORF REV__ENST00000515800.6_1_5:86667940-86686697:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 620.876953125 2 620.874248 1239.73394 3.782 0.0023481 0.6279 0.00038985 4.4099 0.002738 620.8743414035567 48.18 0.18722 48.18 48.061 48.248 0 11 6 2 0 0 0 0.93628 1 22058 22058 1.6526 0 1 414990 + 4485 12450 2990 3000 5025 5025 0.12366528736561122 EHLFIRLLIS 10 Unmodified _EHLFIRLLIS_ 0 0 0 REV__ENST00000515800.6_1_5:86667940-86686697:+|nuORF REV__ENST00000515800.6_1_5:86667940-86686697:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 620.568115234375 2 620.874248 1239.73394 3.782 0.0023481 0.6279 0.00038985 4.4099 0.002738 620.8743414035567 48.18 0.18722 48.18 48.061 48.248 0 11 6 2 0 0 0 0.12676 1 22034 22034 3.9444 0 1 414990 + 4486 12450 2990 3000 5026 5026 0.12366528736561122 EHMKITKK 8 Unmodified _EHMKITKK_ 0 0 0 REV__ENST00000511141.1_1_4:153717696-153717858:-|nuORF REV__ENST00000511141.1_1_4:153717696-153717858:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 338.865966796875 3 338.863672 1013.56919 NaN NaN NaN NaN NaN NaN NaN 16.781 1 16.982 16.482 17.482 0.20057 0 0 0 0.99035 1 7419 7419 3.9444 0 1 + 4487 13088 2991 3001 5027 5027 0.06294393325106284 EHPITLAI 8 Unmodified _EHPITLAI_ 0 0 0 ENSG00000068650|ENST00000375645|ATP11A;ENST00000459908.5_1_13:113439469-113512287:+|nuORF ENSG00000068650|ENST00000375645|ATP11A ENSG00000068650|ENST00000375645|ATP11A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 447.25927734375 2 447.258185 892.501818 2.8711 0.0012841 -0.12817 -5.7326E-05 2.743 0.0012268 447.25805532722245 50.022 0.3473 50.845 50.674 51.021 0.82285 37 14 3 0 0 0 0.077224 1 22841 22841 56.541 9.6204 1 2159700 4488 737 2992 3002 5028 5028 0.05126686385801804 EHQDQGQEVN 10 Unmodified _EHQDQGQEVN_ 0 0 0 nc|ENSG00000090615|Q08378-4|GOLGA3;nc|ENSG00000090615|Q08378-2|GOLGA3;ENSG00000090615|ENST00000450791|GOLGA3 nc|ENSG00000090615|Q08378-4|GOLGA3 nc|ENSG00000090615|Q08378-4|GOLGA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.1705322265625 3 395.170658 1182.49014 NaN NaN NaN NaN NaN NaN NaN 79.165 1 79.416 78.916 79.916 0.25127 0 0 0 0.99846 1 36455 36455 1.4551 0.49284 1 4489 1064 2993 3003 5029 5029 -0.09380207166123 EHQDQGQEVN 10 Unmodified _EHQDQGQEVN_ 0 0 0 nc|ENSG00000090615|Q08378-4|GOLGA3;nc|ENSG00000090615|Q08378-2|GOLGA3;ENSG00000090615|ENST00000450791|GOLGA3 nc|ENSG00000090615|Q08378-4|GOLGA3 nc|ENSG00000090615|Q08378-4|GOLGA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.17041015625 3 395.170658 1182.49014 NaN NaN NaN NaN NaN NaN NaN 70.691 1 71.353 70.853 71.853 0.66209 0 0 0 0.99846 1 32400 32400 1.4551 0.49284 1 4490 1064 2993 3003 5030 5030 -0.09380207166123 EHQDQGQEVN 10 Unmodified _EHQDQGQEVN_ 0 0 0 nc|ENSG00000090615|Q08378-4|GOLGA3;nc|ENSG00000090615|Q08378-2|GOLGA3;ENSG00000090615|ENST00000450791|GOLGA3 nc|ENSG00000090615|Q08378-4|GOLGA3 nc|ENSG00000090615|Q08378-4|GOLGA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.1703796386719 3 395.170658 1182.49014 NaN NaN NaN NaN NaN NaN NaN 75.322 1 75.986 75.486 76.486 0.6644 0 0 0 0.99846 1 34697 34697 1.4551 0.49284 1 4491 1064 2993 3003 5031 5031 -0.09380207166123 EHREERTWRE 10 Unmodified _EHREERTWRE_ 0 0 0 ENST00000577066.2_1_17:79007091-79008259:-|nuORF ENST00000577066.2_1_17:79007091-79008259:-|nuORF ENST00000577066.2_1_17:79007091-79008259:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 714.5949096679688 2 714.342363 1426.67017 NaN NaN NaN NaN NaN NaN NaN 46.767 1 46.767 46.267 47.267 0 0 0 0 1.0003 1 21406 21406 1.4819 0 1 4492 9126 2994 3004 5032 5032 -0.026094834384821297 EHTSSHLSI 9 Unmodified _EHTSSHLSI_ 0 0 0 REV__nc|ENSG00000184313|Q68CQ1-1|MROH7 REV__nc|ENSG00000184313|Q68CQ1-1|MROH7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.7505798339844 2 505.748713 1009.48287 3.1169 0.0015764 -0.093839 -4.7459E-05 3.0231 0.0015289 505.7485938636113 14.41 0.35231 14.637 14.529 14.881 0.22622 75 27 4 0 0 0 0.75535 1 6308 6308 7.9102 0.62092 1 2458900 + 4493 13966 2995 3005 5033 5033 -0.021488949758918352 EHTVDFYDL 9 Unmodified _EHTVDFYDL_ 0 0 0 nc|ENSG00000214595|Q6ZMW3-2|EML6;ENSG00000214595|ENST00000356458|EML6;ENST00000472965.1_1_2:55191229-55195275:+|nuORF;ENST00000490828.5_1_2:55184973-55193987:+|nuORF nc|ENSG00000214595|Q6ZMW3-2|EML6 nc|ENSG00000214595|Q6ZMW3-2|EML6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.2576293945312 2 569.756204 1137.49785 3.1867 0.0018156 0.55493 0.00031618 3.7416 0.0021318 569.7569809066655 54.747 0.34137 55.013 54.988 55.329 0.26543 47 30 2 0 0 0 0.089124 1 25045 25045 7.2892 0 1 3083900 4494 6115 2996 3006 5034 5034 -0.06539447898558137 EIAPLLYHKRL 11 Unmodified _EIAPLLYHKRL_ 0 0 0 REV__ENST00000593595.1_1_19:50321571-50321933:+|nuORF REV__ENST00000593595.1_1_19:50321571-50321933:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 677.1239624023438 2 676.906079 1351.79761 NaN NaN NaN NaN NaN NaN NaN 94.674 1 94.674 94.174 95.174 0 0 0 0 1.0059 1 50846 50846 2.9952 0 1 + 4495 11012 2997 3007 5035 5035 0.13577889173643598 EIATHWVTF 9 Unmodified _EIATHWVTF_ 0 0 0 REV__ENSG00000047365|ENST00000303965|ARAP2 REV__ENSG00000047365|ENST00000303965|ARAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.1341552734375 2 552.279649 1102.54475 3.5366 0.0019532 0.24105 0.00013313 3.7777 0.0020863 552.2797368565098 55.389 0.38164 56.057 55.856 56.238 0.66798 40 15 3 0 0 0 0.80651 1 25272 25272 7.2892 0.93513 1 3293500 + 4496 10336 2998 3008 5036 5036 -0.0024254355676021078 EIDDDDDDNC 10 Unmodified _EIDDDDDDNC_ 0 0 0 ENSG00000136541|ENST00000410096|ERMN;nc|ENSG00000136541|Q8TAM6-2|ERMN ENSG00000136541|ENST00000410096|ERMN ENSG00000136541|ENST00000410096|ERMN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.68408203125 2 584.682772 1167.35099 NaN NaN NaN NaN NaN NaN NaN 85.289 1 85.289 84.789 85.789 0 0 0 0 1.0001 1 43384 43384 1.6526 0.85899 1 4497 2958 2999 3009 5037 5037 -0.2259895763647819 EIDKSGPMTL 10 Unmodified _EIDKSGPMTL_ 0 0 0 nc|ENSG00000214595|Q6ZMW3-2|EML6;ENSG00000214595|ENST00000356458|EML6 nc|ENSG00000214595|Q6ZMW3-2|EML6 nc|ENSG00000214595|Q6ZMW3-2|EML6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.7772216796875 2 545.776082 1089.53761 NaN NaN NaN NaN NaN NaN NaN 54.124 1 54.79 54.29 55.29 0.6665 0 0 0 0.39115 1 24756 24756 32.786 2.1491 1 4498 6115 3000 3010 5038 5038 -0.003576442194798801 EIEEVIQVQL 10 Unmodified _EIEEVIQVQL_ 0 0 0 ENSG00000164199|ENST00000405460|ADGRV1 ENSG00000164199|ENST00000405460|ADGRV1 ENSG00000164199|ENST00000405460|ADGRV1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 600.33251953125 2 600.329536 1198.64452 3.6833 0.0022112 1.042 0.00062557 4.7253 0.0028367 600.3300529066414 39.403 0.4259 39.67 39.48 39.906 0.26696 45 15 4 0 0 0 0.93658 1 18025 18025 3.2813 0 1 3125500 4499 4295 3001 3011 5039 5039 0.05314229266514303 EIELIEEHL 9 Unmodified _EIELIEEHL_ 0 0 0 REV__ENSG00000187715|ENST00000405109|KBTBD12 REV__ENSG00000187715|ENST00000405109|KBTBD12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 375.5340270996094 3 375.532645 1123.5761 2.6792 0.0010061 1.4788 0.00055535 4.1581 0.0015615 375.53316628085366 35.792 0.3407 35.792 35.626 35.967 0 31 18 2 0 0 0 0.49692 1 16210 16210 8.1555 0.54658 1 784850 + 4500 14107 3002 3012 5040 5040 0.019259846866816588 EIELIEEHL 9 Unmodified _EIELIEEHL_ 0 0 0 REV__ENSG00000187715|ENST00000405109|KBTBD12 REV__ENSG00000187715|ENST00000405109|KBTBD12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 375.5340881347656 3 375.532645 1123.5761 2.3467 0.00088127 1.232 0.00046266 3.5787 0.0013439 375.5331774701126 34.656 0.22373 35.445 35.406 35.63 0.78921 26 17 2 0 0 0 0.49692 1 15718 15718 8.1555 0.54658 1 1457400 + 4501 14107 3002 3012 5041 5041 0.019259846866816588 EIELIEEHL 9 Unmodified _EIELIEEHL_ 0 0 0 REV__ENSG00000187715|ENST00000405109|KBTBD12 REV__ENSG00000187715|ENST00000405109|KBTBD12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 375.53375244140625 3 375.532645 1123.5761 2.7279 0.0010244 1.5441 0.00057987 4.2721 0.0016043 375.5331275860619 35.208 0.41041 35.831 35.719 36.129 0.62294 29 13 3 0 0 0 0.49692 1 16128 16128 8.1555 0.54658 1 761460 + 4502 14107 3002 3012 5042 5042 0.019259846866816588 EIFDVPLYHFY 11 Unmodified _EIFDVPLYHFY_ 0 0 0 ENSG00000103479|ENST00000262133|RBL2;ENST00000561512.1_1_16:53495692-53498290:+|nuORF;nc|ENSG00000103479|Q08999-2|RBL2 ENSG00000103479|ENST00000262133|RBL2 ENSG00000103479|ENST00000262133|RBL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 721.4093017578125 2 721.853178 1441.6918 NaN NaN NaN NaN NaN NaN NaN 97.139 1 97.139 96.639 97.639 0 0 0 0 1.0072 1 52785 52785 1.3295 0.13619 1 4503 1399 3003 3013 5043 5043 -0.011374914624866506 EIFKWFELPWY 11 Unmodified _EIFKWFELPWY_ 0 0 0 REV__ENST00000273047.8_1_3:19988696-19992457:+|nuORF REV__ENST00000273047.8_1_3:19988696-19992457:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.930908203125 3 519.930739 1556.77039 NaN NaN NaN NaN NaN NaN NaN 97.28 1 97.351 96.851 97.851 0.070648 0 0 0 1.0079 1 51958 51958 0.45452 0.37117 1 + 4504 15068 3004 3014 5044 5044 0.014273608426265127 EIFRLWNRHRR 11 Unmodified _EIFRLWNRHRR_ 0 0 0 HMGXB4|p.Y83Tfs*31|1|0.44|ENSG00000100281|chr22:35263861-35263861|T/-|frameshift_variant HMGXB4|p.Y83Tfs*31|1|0.44|ENSG00000100281|chr22:35263861-35263861|T/-|frameshift_variant HMGXB4|p.Y83Tfs*31|1|0.44|ENSG00000100281|chr22:35263861-35263861|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 791.9476318359375 2 791.944924 1581.8753 NaN NaN NaN NaN NaN NaN NaN 89.707 1 89.707 89.207 90.207 0 0 0 0 1.008 1 46932 46932 0.35063 0.043601 1 4505 9419 3005 3015 5045 5045 0.10763339882396394 EIGMKVAL 8 Unmodified _EIGMKVAL_ 0 0 0 nc|ENSG00000166333|Q13418-3|ILK;nc|ENSG00000166333|Q13418-2|ILK;ENSG00000166333|ENST00000299421|ILK nc|ENSG00000166333|Q13418-3|ILK nc|ENSG00000166333|Q13418-3|ILK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.7500305175781 2 430.749139 859.483725 2.8613 0.0012325 -0.62715 -0.00027014 2.2341 0.00096234 430.74877147834536 52.577 0.20686 53.239 53.099 53.306 0.66198 13 8 2 0 0 0 0.5438 1 24061 24061 18.135 3.5533 1 846400 4506 4473 3006 3016 5046 5046 0.04836228139447485 EIGMKVAL 8 Unmodified _EIGMKVAL_ 0 0 0 nc|ENSG00000166333|Q13418-3|ILK;nc|ENSG00000166333|Q13418-2|ILK;ENSG00000166333|ENST00000299421|ILK nc|ENSG00000166333|Q13418-3|ILK nc|ENSG00000166333|Q13418-3|ILK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 430.749139 859.483725 3.021 0.0013013 -0.99554 -0.00042883 2.0255 0.00087248 430.74883723793886 53.05 0.21484 53.313 53.169 53.384 0.26345 0.037031 -0.00012855 NaN 18.135 25 16 2 NaN NaN NaN NaN 0 NaN NaN 0 786030 4507 4473 3006 3016 0.04836228139447485 EIHVNIRKVLI 11 Unmodified _EIHVNIRKVLI_ 0 0 0 REV__ENST00000469899.2_1_12:66431104-66431491:+|nuORF REV__ENST00000469899.2_1_12:66431104-66431491:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 667.5502319335938 2 667.419354 1332.82415 NaN NaN NaN NaN NaN NaN NaN 99.388 1 99.985 99.485 100.49 0.59748 0 0 0 1.0061 1 45956 45956 2.7352 0 1 + 4508 16583 3007 3017 5047 5047 0.17105578065002192 EIIEDMEIDE 10 Unmodified _EIIEDMEIDE_ 0 0 0 REV__ENSG00000151503|ENST00000534548|NCAPD3 REV__ENSG00000151503|ENST00000534548|NCAPD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.5155029296875 3 412.516443 1234.5275 NaN NaN NaN NaN NaN NaN NaN 20.967 1 21.62 21.12 22.12 0.65346 0 0 0 1.0011 1 9516 9516 0.77653 0 1 + 4509 12618 3008 3018 5048 5048 -0.0803829673538985 EIIFYLLRIRR 11 Unmodified _EIIFYLLRIRR_ 0 0 0 ENST00000329378.7_2_5:93918161-93954215:-|nuORF ENST00000329378.7_2_5:93918161-93954215:-|nuORF ENST00000329378.7_2_5:93918161-93954215:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 746.4636840820312 2 746.461553 1490.90855 NaN NaN NaN NaN NaN NaN NaN 89.617 1 89.617 89.117 90.117 0 0 0 0 1.008 1 46860 46860 0.35063 0.081612 1 4510 6979 3009 3019 5049 5049 0.18273528881718448 EIILELIEHR 10 Unmodified _EIILELIEHR_ 0 0 0 REV__ENST00000427965.6_1_16:29086353-29124388:+|nuORF;REV__nc|ENSG00000085721|Q9NYV6-2|RRN3 REV__nc|ENSG00000085721|Q9NYV6-2|RRN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.7976684570312 2 632.86662 1263.71869 NaN NaN NaN NaN NaN NaN NaN 95.69 1 95.772 95.272 96.272 0.082001 0 0 0 0.99774 1 50642 50642 3.5965 0.31518 1 + 4511 16233;10650 3010 3020 5050 5050 0.09737617148721256 EIILSHVGN 9 Unmodified _EIILSHVGN_ 0 0 0 REV__ENST00000507699.1_1_4:169819634-169847533:+|nuORF REV__ENST00000507699.1_1_4:169819634-169847533:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.2723083496094 2 491.271824 980.529095 NaN NaN NaN NaN NaN NaN NaN 93.95 1 94.036 93.536 94.536 0.086212 0 0 0 0.86044 1 49326 49326 7.2892 0 1 + 4512 11779 3011 3021 5051 5051 0.03805169926192775 EIIQLLRPFKL 11 Unmodified _EIIQLLRPFKL_ 0 0 0 REV__nc|ENSG00000253729|P78527-2|PRKDC REV__nc|ENSG00000253729|P78527-2|PRKDC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 685.431884765625 2 685.43193 1368.84931 NaN NaN NaN NaN NaN NaN NaN 47.352 1 48.181 47.681 48.681 0.82915 0 0 0 1.0073 1 21573 21573 1.1933 0 1 + 4513 14662 3012 3022 5052 5052 0.17963632867554225 EIISTRLSL 9 Unmodified _EIISTRLSL_ 0 0 0 REV__ENSG00000148843|ENST00000369797|PDCD11 REV__ENSG00000148843|ENST00000369797|PDCD11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.310791015625 2 516.308406 1030.60226 3.3269 0.0017177 0.30129 0.00015556 3.6282 0.0018732 516.3083714012865 26.49 0.19339 27.115 26.959 27.152 0.62505 19 10 2 0 0 0 0.3144 1 12114 12114 15.847 1.0089 1 232750 + 4514 12552 3013 3023 5053 5053 0.0881829864881638 EIISTRLSL 9 Unmodified _EIISTRLSL_ 0 0 0 REV__ENSG00000148843|ENST00000369797|PDCD11 REV__ENSG00000148843|ENST00000369797|PDCD11 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 516.308406 1030.60226 3.2752 0.001691 0.77733 0.00040134 4.0525 0.0020923 516.8103337071706 26.192 0.099585 26.97 26.926 27.025 0.7787 -0.10681 0.00052144 NaN 15.847 9 7 2 NaN NaN NaN NaN 0 NaN NaN 0 118730 + 4515 12552 3013 3023 0.0881829864881638 EIISTRLSL 9 Unmodified _EIISTRLSL_ 0 0 0 REV__ENSG00000148843|ENST00000369797|PDCD11 REV__ENSG00000148843|ENST00000369797|PDCD11 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 516.308406 1030.60226 3.423 0.0017673 -0.56236 -0.00029035 2.8606 0.001477 516.3082341113159 26.882 0.20793 27.147 27.008 27.216 0.26489 0.069468 -0.00086195 NaN 15.847 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 235280 + 4516 12552 3013 3023 0.0881829864881638 EIISTRLSL 9 Unmodified _EIISTRLSL_ 0 0 0 REV__ENSG00000148843|ENST00000369797|PDCD11 REV__ENSG00000148843|ENST00000369797|PDCD11 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 516.308406 1030.60226 3.3269 0.0017177 0.30129 0.00015556 3.6282 0.0018732 516.3083714012865 26.49 0.19339 27.115 26.959 27.152 0.62505 0.037337 2.9868E-05 NaN 15.847 19 10 2 NaN NaN NaN NaN 0 NaN NaN 0 232750 + 4517 12552 3013 3023 0.0881829864881638 EIITKKFRR 9 Unmodified _EIITKKFRR_ 0 0 0 REV__MAP3K15|p.E1259*|1|0.27|ENSG00000180815|chrX:19361498-19361499|-/A|frameshift_variant REV__MAP3K15|p.E1259*|1|0.27|ENSG00000180815|chrX:19361498-19361499|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 595.873046875 2 595.87204 1189.72953 NaN NaN NaN NaN NaN NaN NaN 59.467 1 60.132 59.632 60.632 0.66503 0 0 0 0.91206 1 27223 27223 0.6015 0.076735 1 + 4518 13831 3014 3024 5054 5054 0.14225064313654912 EIKEKLLQL 9 Unmodified _EIKEKLLQL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;ENST00000496323.1_1_2:54880712-54887220:+|nuORF ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.3486938476562 2 557.347532 1112.68051 3.4173 0.0019046 -0.42015 -0.00023417 2.9972 0.0016705 557.3473069265991 49.987 0.36039 49.987 49.822 50.183 0 35 17 3 0 0 0 3.1999E-05 1 22894 22894 139.78 28.989 1 1264800 4519 1960 3015 3025 5055 5055 0.12867731234041457 EIKEKLLQL 9 Unmodified _EIKEKLLQL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;ENST00000496323.1_1_2:54880712-54887220:+|nuORF ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.3494873046875 2 557.347532 1112.68051 3.575 0.0019925 -0.22368 -0.00012467 3.3514 0.0018679 557.3473004621231 49.708 0.52193 49.97 49.755 50.277 0.26146 55 20 4 0 0 0 3.1999E-05 3 22721 22678;22721;22779 139.78 14.829 1 5024900 4520 1960 3015 3025 5056;5057;5058 5057 0.12867731234041457 EIKEKLLQL 9 Unmodified _EIKEKLLQL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;ENST00000496323.1_1_2:54880712-54887220:+|nuORF ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.349853515625 2 557.347532 1112.68051 3.61 0.002012 0.060009 3.3446E-05 3.67 0.0020455 557.3474355756998 49.141 0.37249 49.796 49.664 50.037 0.65524 33 12 4 0 0 0 1.4994E-08 3 22516 22451;22460;22516 151.48 30.134 1 5674000 4521 1960 3015 3025 5059;5060;5061 5061 0.12867731234041457 EIKERIERV 9 Unmodified _EIKERIERV_ 0 0 0 nc|ENSG00000212789|Q8NFI4|ST13P5;ENSG00000100380|ENST00000216218|ST13 nc|ENSG00000212789|Q8NFI4|ST13P5;ENSG00000100380|ENST00000216218|ST13 nc|ENSG00000212789|Q8NFI4|ST13P5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.5665588378906 3 391.2313 1170.67207 2.6841 0.0010501 -0.14373 -5.6233E-05 2.5404 0.00099387 391.2310321372074 14.403 0.16692 14.71 14.612 14.779 0.3069 16 6 3 0 0 0 0.019629 1 6517 6517 68.76 35.862 1 902150 4522 9827;1213 3016 3026 5062 5062 0.09356177317408765 EIKERIERV 9 Unmodified _EIKERIERV_ 0 0 0 nc|ENSG00000212789|Q8NFI4|ST13P5;ENSG00000100380|ENST00000216218|ST13 nc|ENSG00000212789|Q8NFI4|ST13P5;ENSG00000100380|ENST00000216218|ST13 nc|ENSG00000212789|Q8NFI4|ST13P5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.2326354980469 3 391.2313 1170.67207 2.9213 0.0011429 0.3517 0.0001376 3.273 0.0012805 391.23129412816394 14.388 0.14926 15.036 14.982 15.131 0.6482 19 11 2 0 0 0 0.025675 1 6490 6490 60.899 22.285 1 1538400 4523 9827;1213 3016 3026 5063 5063 0.09356177317408765 EIKFIPLRQ 9 Unmodified _EIKFIPLRQ_ 0 0 0 REV__nc|ENSG00000174844|Q6ZR08|DNAH12 REV__nc|ENSG00000174844|Q6ZR08|DNAH12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.8991088867188 2 572.347866 1142.68118 NaN NaN NaN NaN NaN NaN NaN 85.826 1 85.855 85.355 86.355 0.028603 0 0 0 0.88072 1 43033 43033 6.2058 1.3088 1 + 4524 13648 3017 3027 5064 5064 0.11554570673752096 EIKFKVETL 9 Unmodified _EIKFKVETL_ 0 0 0 ENSG00000178078|ENST00000594605|STAP2;nc|ENSG00000178078|Q9UGK3-2|STAP2 ENSG00000178078|ENST00000594605|STAP2 ENSG00000178078|ENST00000594605|STAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.828857421875 2 553.826432 1105.63831 NaN NaN NaN NaN NaN NaN NaN 50.092 1 50.092 49.592 50.592 0 0 0 0 0.55812 1 22933 22933 17.113 4.0704 1 4525 5147 3018 3028 5065 5065 0.08971755825677974 EIKFKVETL 9 Unmodified _EIKFKVETL_ 0 0 0 ENSG00000178078|ENST00000594605|STAP2;nc|ENSG00000178078|Q9UGK3-2|STAP2 ENSG00000178078|ENST00000594605|STAP2 ENSG00000178078|ENST00000594605|STAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.828125 2 553.826432 1105.63831 3.5563 0.0019696 0.90634 0.00050195 4.4627 0.0024716 553.8270057625864 49.853 0.27734 50.115 49.946 50.223 0.26146 22 10 3 0 0 0 0.0061394 1 22770 22770 89.401 39.468 1 734180 4526 5147 3018 3028 5066 5066 0.08971755825677974 EIKFKVETL 9 Unmodified _EIKFKVETL_ 0 0 0 ENSG00000178078|ENST00000594605|STAP2;nc|ENSG00000178078|Q9UGK3-2|STAP2 ENSG00000178078|ENST00000594605|STAP2 ENSG00000178078|ENST00000594605|STAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.828369140625 2 553.826432 1105.63831 3.5957 0.0019914 0.87988 0.0004873 4.4755 0.0024787 553.8269087313455 49.251 0.24665 49.906 49.763 50.01 0.65524 13 6 3 0 0 0 3.9104E-05 1 22537 22537 137.42 74.851 1 780770 4527 5147 3018 3028 5067 5067 0.08971755825677974 EIKITPWFKII 11 Unmodified _EIKITPWFKII_ 0 0 0 nc|ENSG00000067064|Q13907|IDI1;ENSG00000067064|ENST00000381344|IDI1 nc|ENSG00000067064|Q13907|IDI1 nc|ENSG00000067064|Q13907|IDI1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 694.42431640625 2 694.421031 1386.82751 4.4944 0.003121 1.5344 0.0010655 6.0288 0.0041865 694.4220146812681 94.993 0.24657 95.261 95.139 95.386 0.2675 24 14 3 0 0 0 0.91111 1 43641 43641 1.1933 0 1 714150 4528 718 3019 3029 5068 5068 0.14956828118988597 EIKKALIIKLR 11 Unmodified _EIKKALIIKLR_ 0 0 0 ZBTB21|p.P998Sfs*4|1|0.05|ENSG00000173276|chr21:41991103-41991104|GG/-|frameshift_variant;ENSG00000173276|ENST00000310826|ZBTB21 ZBTB21|p.P998Sfs*4|1|0.05|ENSG00000173276|chr21:41991103-41991104|GG/-|frameshift_variant ZBTB21|p.P998Sfs*4|1|0.05|ENSG00000173276|chr21:41991103-41991104|GG/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 662.9476318359375 2 662.955572 1323.89659 NaN NaN NaN NaN NaN NaN NaN 91.679 1 91.679 91.179 92.179 0 0 0 0 1.0072 1 48503 48503 1.3295 0 1 4529 4927 3020 3030 5069 5069 0.24759912138551954 EIKKRFRQL 9 Unmodified _EIKKRFRQL_ 0 0 0 ENST00000488868.1_1_1:28537058-28556683:-|nuORF;ENST00000482674.5_1_1:28537058-28559509:-|nuORF;ENST00000489277.5_1_1:28527761-28556683:-|nuORF;ENSG00000126698|ENST00000263697|DNAJC8 ENST00000488868.1_1_1:28537058-28556683:-|nuORF ENST00000488868.1_1_1:28537058-28556683:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 406.5884094238281 3 406.587418 1216.74043 2.8176 0.0011456 -0.31727 -0.000129 2.5003 0.0010166 406.587353133797 12.735 0.17237 12.735 12.66 12.833 0 33 9 5 0 0 0 0.0017071 1 5550 5550 87.258 53.813 1 56079000 4530 2461 3021 3031 5070 5070 0.14072466687935048 EIKKRFRQL 9 Unmodified _EIKKRFRQL_ 0 0 0 ENST00000488868.1_1_1:28537058-28556683:-|nuORF;ENST00000482674.5_1_1:28537058-28559509:-|nuORF;ENST00000489277.5_1_1:28527761-28556683:-|nuORF;ENSG00000126698|ENST00000263697|DNAJC8 ENST00000488868.1_1_1:28537058-28556683:-|nuORF ENST00000488868.1_1_1:28537058-28556683:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 305.19287109375 4 305.192383 1216.74043 2.0558 0.00062741 0.036231 1.1058E-05 2.092 0.00063847 305.1924264438822 12.734 0.1904 12.734 12.675 12.865 0 25 9 4 0 0 0 0.012748 1 5552 5552 61.602 36.611 1 27166000 4531 2461 3021 3031 5071 5071 0.14072466687935048 EIKKRFRQL 9 Unmodified _EIKKRFRQL_ 0 0 0 ENST00000488868.1_1_1:28537058-28556683:-|nuORF;ENST00000482674.5_1_1:28537058-28559509:-|nuORF;ENST00000489277.5_1_1:28527761-28556683:-|nuORF;ENSG00000126698|ENST00000263697|DNAJC8 ENST00000488868.1_1_1:28537058-28556683:-|nuORF ENST00000488868.1_1_1:28537058-28556683:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 609.3793334960938 2 609.377489 1216.74043 3.7389 0.0022784 -1.1267 -0.0006866 2.6122 0.0015918 609.3770083430801 12.739 0.12024 12.739 12.685 12.806 0 14 6 3 0 0 0 0.099775 1 5568 5568 32.786 6.5175 1 2459200 4532 2461 3021 3031 5072 5072 0.14072466687935048 EIKKRFRQL 9 Unmodified _EIKKRFRQL_ 0 0 0 ENST00000488868.1_1_1:28537058-28556683:-|nuORF;ENST00000482674.5_1_1:28537058-28559509:-|nuORF;ENST00000489277.5_1_1:28527761-28556683:-|nuORF;ENSG00000126698|ENST00000263697|DNAJC8 ENST00000488868.1_1_1:28537058-28556683:-|nuORF ENST00000488868.1_1_1:28537058-28556683:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 406.58807373046875 3 406.587418 1216.74043 2.1825 0.00088736 -0.40912 -0.00016634 1.7733 0.00072101 406.5872589755591 12.506 0.096539 12.768 12.721 12.818 0.26154 42 13 4 0 0 0 0.0017071 1 5413 5413 87.258 53.813 1 89776000 4533 2461 3021 3031 5073 5073 0.14072466687935048 EIKKRFRQL 9 Unmodified _EIKKRFRQL_ 0 0 0 ENST00000488868.1_1_1:28537058-28556683:-|nuORF;ENST00000482674.5_1_1:28537058-28559509:-|nuORF;ENST00000489277.5_1_1:28527761-28556683:-|nuORF;ENSG00000126698|ENST00000263697|DNAJC8 ENST00000488868.1_1_1:28537058-28556683:-|nuORF ENST00000488868.1_1_1:28537058-28556683:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 305.19293212890625 4 305.192383 1216.74043 1.7679 0.00053956 -0.37487 -0.00011441 1.3931 0.00042515 305.44301730458574 12.51 0.082979 12.771 12.721 12.804 0.26154 34 11 4 0 0 0 0.079031 1 5414 5414 41.956 27.118 1 44724000 4534 2461 3021 3031 5074 5074 0.14072466687935048 EIKKRFRQL 9 Unmodified _EIKKRFRQL_ 0 0 0 ENST00000488868.1_1_1:28537058-28556683:-|nuORF;ENST00000482674.5_1_1:28537058-28559509:-|nuORF;ENST00000489277.5_1_1:28527761-28556683:-|nuORF;ENSG00000126698|ENST00000263697|DNAJC8 ENST00000488868.1_1_1:28537058-28556683:-|nuORF ENST00000488868.1_1_1:28537058-28556683:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.5881652832031 3 406.587418 1216.74043 2.2213 0.00090315 0.35001 0.00014231 2.5713 0.0010455 406.58769716865675 12.5 0.1146 12.807 12.733 12.848 0.30727 7 4 2 0 0 0 0.0017071 1 5636 5636 87.258 43.276 1 85166000 4535 2461 3021 3031 5075 5075 0.14072466687935048 EIKKRFRQL 9 Unmodified _EIKKRFRQL_ 0 0 0 ENST00000488868.1_1_1:28537058-28556683:-|nuORF;ENST00000482674.5_1_1:28537058-28559509:-|nuORF;ENST00000489277.5_1_1:28527761-28556683:-|nuORF;ENSG00000126698|ENST00000263697|DNAJC8 ENST00000488868.1_1_1:28537058-28556683:-|nuORF ENST00000488868.1_1_1:28537058-28556683:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.1929016113281 4 305.192383 1216.74043 1.4522 0.00044321 0.50321 0.00015358 1.9555 0.00059679 305.1926119994825 12.5 0.097315 12.807 12.751 12.848 0.30727 11 3 4 0 0 0 0.057744 1 5638 5638 40.239 19.825 1 41504000 4536 2461 3021 3031 5076 5076 0.14072466687935048 EIKKRFRQL 9 Unmodified _EIKKRFRQL_ 0 0 0 ENST00000488868.1_1_1:28537058-28556683:-|nuORF;ENST00000482674.5_1_1:28537058-28559509:-|nuORF;ENST00000489277.5_1_1:28527761-28556683:-|nuORF;ENSG00000126698|ENST00000263697|DNAJC8 ENST00000488868.1_1_1:28537058-28556683:-|nuORF ENST00000488868.1_1_1:28537058-28556683:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.58868408203125 3 406.587418 1216.74043 3.3024 0.0013427 -0.029798 -1.2116E-05 3.2726 0.0013306 406.5874764686569 12.462 0.10207 13.104 13.047 13.149 0.64272 11 3 5 0 0 0 0.0063542 1 5588 5588 71.708 35.202 1 83161000 4537 2461 3021 3031 5077 5077 0.14072466687935048 EIKKRFRQL 9 Unmodified _EIKKRFRQL_ 0 0 0 ENST00000488868.1_1_1:28537058-28556683:-|nuORF;ENST00000482674.5_1_1:28537058-28559509:-|nuORF;ENST00000489277.5_1_1:28527761-28556683:-|nuORF;ENSG00000126698|ENST00000263697|DNAJC8 ENST00000488868.1_1_1:28537058-28556683:-|nuORF ENST00000488868.1_1_1:28537058-28556683:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 305.1932373046875 4 305.192383 1216.74043 2.4791 0.00075661 0.48686 0.00014859 2.966 0.0009052 305.1925034648219 12.462 0.074265 13.104 13.047 13.121 0.64272 6 2 3 0 0 0 0.071101 1 5591 5591 36.506 11.515 1 23067000 4538 2461 3021 3031 5078 5078 0.14072466687935048 EIKKRFRQL 9 Unmodified _EIKKRFRQL_ 0 0 0 ENST00000488868.1_1_1:28537058-28556683:-|nuORF;ENST00000482674.5_1_1:28537058-28559509:-|nuORF;ENST00000489277.5_1_1:28527761-28556683:-|nuORF;ENSG00000126698|ENST00000263697|DNAJC8 ENST00000488868.1_1_1:28537058-28556683:-|nuORF ENST00000488868.1_1_1:28537058-28556683:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.5887756347656 3 406.587418 1216.74043 2.9635 0.0012049 0.56699 0.00023053 3.5305 0.0014354 406.5875438629778 17.393 0.097141 18.054 18.005 18.102 0.66072 9 6 2 0 0 0 0.83994 1 7858 7858 15.248 7.6395 1 231290 4539 2461 3021 3031 5079 5079 0.14072466687935048 EIKKRFRQL 9 Unmodified _EIKKRFRQL_ 0 0 0 ENST00000488868.1_1_1:28537058-28556683:-|nuORF;ENST00000482674.5_1_1:28537058-28559509:-|nuORF;ENST00000489277.5_1_1:28527761-28556683:-|nuORF;ENSG00000126698|ENST00000263697|DNAJC8 ENST00000488868.1_1_1:28537058-28556683:-|nuORF ENST00000488868.1_1_1:28537058-28556683:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 609.377489 1216.74043 2.8737 0.0017512 -1.2325 -0.00075103 1.6413 0.0010001 609.3767023884094 12.503 0.03626 12.765 12.751 12.787 0.26154 -0.089251 -0.00069979 NaN 32.786 12 6 2 NaN NaN NaN NaN 0 NaN NaN 0 12263000 4540 2461 3021 3031 0.14072466687935048 EIKKRFRQL 9 Unmodified _EIKKRFRQL_ 0 0 0 ENST00000488868.1_1_1:28537058-28556683:-|nuORF;ENST00000482674.5_1_1:28537058-28559509:-|nuORF;ENST00000489277.5_1_1:28527761-28556683:-|nuORF;ENSG00000126698|ENST00000263697|DNAJC8 ENST00000488868.1_1_1:28537058-28556683:-|nuORF ENST00000488868.1_1_1:28537058-28556683:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 609.377489 1216.74043 2.8141 0.0017148 -0.17983 -0.00010958 2.6342 0.0016052 609.377853259282 12.5 0.097315 12.807 12.751 12.848 0.30727 -0.046348 0.0005831 NaN 32.786 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 2564600 4541 2461 3021 3031 0.14072466687935048 EIKKRFRQL 9 Unmodified _EIKKRFRQL_ 0 0 0 ENST00000488868.1_1_1:28537058-28556683:-|nuORF;ENST00000482674.5_1_1:28537058-28559509:-|nuORF;ENST00000489277.5_1_1:28527761-28556683:-|nuORF;ENSG00000126698|ENST00000263697|DNAJC8 ENST00000488868.1_1_1:28537058-28556683:-|nuORF ENST00000488868.1_1_1:28537058-28556683:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 406.587418 1216.74043 2.7805 0.0011305 0.12583 5.116E-05 2.9063 0.0011817 406.587646112959 17.539 0.11286 17.84 17.79 17.902 0.30159 -0.10671 -0.00031164 NaN 15.248 9 5 2 NaN NaN NaN NaN 0 NaN NaN 0 119390 4542 2461 3021 3031 0.14072466687935048 EIKKRFRQL 9 Unmodified _EIKKRFRQL_ 0 0 0 ENST00000488868.1_1_1:28537058-28556683:-|nuORF;ENST00000482674.5_1_1:28537058-28559509:-|nuORF;ENST00000489277.5_1_1:28527761-28556683:-|nuORF;ENSG00000126698|ENST00000263697|DNAJC8 ENST00000488868.1_1_1:28537058-28556683:-|nuORF ENST00000488868.1_1_1:28537058-28556683:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 609.377489 1216.74043 3.9812 0.0024261 0.054614 3.3281E-05 4.0358 0.0024593 609.377842434234 12.462 0.074265 13.104 13.047 13.121 0.64272 0.25042 0.00086883 NaN 32.786 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 5373300 4543 2461 3021 3031 0.14072466687935048 EIKMLRRKKP 10 Unmodified _EIKMLRRKKP_ 0 0 0 ENSG00000138615|ENST00000261883|CILP ENSG00000138615|ENST00000261883|CILP ENSG00000138615|ENST00000261883|CILP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 433.6063537597656 3 433.607825 1297.80165 NaN NaN NaN NaN NaN NaN NaN 67.395 1 68.097 67.597 68.597 0.70218 0 0 0 0.99954 1 32040 32040 2.086 0.49373 1 4544 3101 3022 3032 5080 5080 0.16465655395700196 EIKQRYVAAL 10 Unmodified _EIKQRYVAAL_ 0 0 0 REV__nc|ENSG00000165891|Q96AV8-2|E2F7 REV__nc|ENSG00000165891|Q96AV8-2|E2F7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.5686950683594 3 397.567912 1189.68191 3.0041 0.0011943 -0.43556 -0.00017316 2.5685 0.0010212 397.9018878019678 21.01 0.1524 21.664 21.525 21.678 0.65346 19 12 2 0 0 0 0.56502 1 9505 9505 18.721 3.1828 1 5999300 + 4545 13194 3023 3033 5081 5081 0.09465365322807884 EIKRINKEL 9 Unmodified _EIKRINKEL_ 0 0 0 ENSG00000196961|ENST00000354293|AP2A1;nc|ENSG00000196961|O95782|AP2A1;ENSG00000183020|ENST00000448903|AP2A2;nc|ENSG00000183020|O94973-2|AP2A2;ENST00000600199.1_1_19:50270291-50299453:+|nuORF;nc|ENSG00000183020|O94973-3|AP2A2 ENSG00000196961|ENST00000354293|AP2A1 ENSG00000196961|ENST00000354293|AP2A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.56842041015625 3 381.567912 1141.68191 2.5491 0.00097266 -1.454 -0.0005548 1.0951 0.00041786 381.5673318344249 14.043 0.055443 14.35 14.326 14.381 0.30727 10 7 2 0 0 0 0.028483 1 6358 6358 57.249 3.8451 1 3817600 4546 5789 3024 3034 5082 5082 0.11673365322803875 EIKTKIKEL 9 Unmodified _EIKTKIKEL_ 0 0 0 nc|ENSG00000120694|Q92598-2|HSPH1;nc|ENSG00000120694|Q92598-3|HSPH1;ENSG00000120694|ENST00000320027|HSPH1;nc|ENSG00000120694|Q92598-4|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 367.9017639160156 3 367.90078 1100.68051 2.8313 0.0010416 0.18609 6.8461E-05 3.0174 0.0011101 367.90079203506247 21.023 0.3519 21.023 20.826 21.178 0 65 24 4 0 0 0 0.022758 1 9387 9387 64.692 7.4878 1 2125900 4547 2206 3025 3035 5083 5083 0.13419731234057508 EIKTKIKEL 9 Unmodified _EIKTKIKEL_ 0 0 0 nc|ENSG00000120694|Q92598-2|HSPH1;nc|ENSG00000120694|Q92598-3|HSPH1;ENSG00000120694|ENST00000320027|HSPH1;nc|ENSG00000120694|Q92598-4|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 367.9018249511719 3 367.90078 1100.68051 NaN NaN NaN NaN NaN NaN NaN 19.662 1 19.928 19.428 20.428 0.26616 0 0 0 0.05031 1 8751 8751 53.47 5.7376 1 4548 2206 3025 3035 5084 5084 0.13419731234057508 EIKTKIKEL 9 Unmodified _EIKTKIKEL_ 0 0 0 nc|ENSG00000120694|Q92598-2|HSPH1;nc|ENSG00000120694|Q92598-3|HSPH1;ENSG00000120694|ENST00000320027|HSPH1;nc|ENSG00000120694|Q92598-4|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 367.90087890625 3 367.90078 1100.68051 NaN NaN NaN NaN NaN NaN NaN 19.755 1 20.021 19.521 20.521 0.26616 0 0 0 0.022721 1 8788 8788 68.76 7.8606 1 4549 2206 3025 3035 5085 5085 0.13419731234057508 EIKTKIKEL 9 Unmodified _EIKTKIKEL_ 0 0 0 nc|ENSG00000120694|Q92598-2|HSPH1;nc|ENSG00000120694|Q92598-3|HSPH1;ENSG00000120694|ENST00000320027|HSPH1;nc|ENSG00000120694|Q92598-4|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 367.9013671875 3 367.90078 1100.68051 NaN NaN NaN NaN NaN NaN NaN 20.044 1 20.337 19.837 20.837 0.29239 0 0 0 0.013464 1 9127 9127 80.896 8.3059 1 4550 2206 3025 3035 5086 5086 0.13419731234057508 EIKTKIKEL 9 Unmodified _EIKTKIKEL_ 0 0 0 nc|ENSG00000120694|Q92598-2|HSPH1;nc|ENSG00000120694|Q92598-3|HSPH1;ENSG00000120694|ENST00000320027|HSPH1;nc|ENSG00000120694|Q92598-4|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.3497924804688 2 551.347532 1100.68051 3.7009 0.0020405 0.30199 0.0001665 4.0029 0.002207 551.3476703396499 19.724 0.28362 20.383 20.25 20.534 0.6583 61 21 4 0 0 0 0.0025372 2 8972 8926;8972 105.35 10.436 1 1276700 4551 2206 3025 3035 5087;5088 5088 0.13419731234057508 EIKTKIKEL 9 Unmodified _EIKTKIKEL_ 0 0 0 nc|ENSG00000120694|Q92598-2|HSPH1;nc|ENSG00000120694|Q92598-3|HSPH1;ENSG00000120694|ENST00000320027|HSPH1;nc|ENSG00000120694|Q92598-4|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 367.9019470214844 3 367.90078 1100.68051 2.7807 0.001023 0.19579 7.203E-05 2.9765 0.0010951 367.90084417869394 19.714 0.34811 20.372 20.226 20.574 0.65829 90 26 5 0 0 0 0.0083806 2 8982 8933;8982 84.738 12.148 1 5276200 4552 2206 3025 3035 5089;5090 5090 0.13419731234057508 EILKYTLWEV 10 Unmodified _EILKYTLWEV_ 0 0 0 ENSG00000183671|ENST00000621141|CMKLR2 ENSG00000183671|ENST00000621141|CMKLR2 ENSG00000183671|ENST00000621141|CMKLR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 647.3595581054688 2 647.358096 1292.70164 NaN NaN NaN NaN NaN NaN NaN 81.132 1 81.38 80.88 81.88 0.24803 0 0 0 1.0003 1 37355 37355 1.4819 0 1 4553 5397 3026 3036 5091 5091 0.06699696542887068 EILNRYIYFYE 11 Unmodified _EILNRYIYFYE_ 0 0 0 ENSG00000069329|ENST00000299138|VPS35;ENST00000568784.6_1_16:46694386-46722246:-|nuORF ENSG00000069329|ENST00000299138|VPS35 ENSG00000069329|ENST00000299138|VPS35 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 761.8845825195312 2 761.882467 1521.75038 NaN NaN NaN NaN NaN NaN NaN 99.938 1 100.54 100.04 101.04 0.59717 0 0 0 1.0061 1 46243 46243 2.7352 0.23671 1 4554 749 3027 3037 5092 5092 0.010375651119829854 EILRKVHSI 9 Unmodified _EILRKVHSI_ 0 0 0 nc|ENSG00000122417|Q9ULJ1-5|ODF2L;nc|ENSG00000122417|Q9ULJ1-6|ODF2L;nc|ENSG00000122417|Q9ULJ1-3|ODF2L;nc|ENSG00000122417|Q9ULJ1-2|ODF2L;nc|ENSG00000122417|Q9ULJ1|ODF2L;ENSG00000122417|ENST00000460698|ODF2L nc|ENSG00000122417|Q9ULJ1-5|ODF2L nc|ENSG00000122417|Q9ULJ1-5|ODF2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.5620422363281 3 365.560869 1093.66078 2.7606 0.0010092 0.53331 0.00019496 3.2939 0.0012041 365.56097182561876 19.857 0.28814 20.515 20.399 20.687 0.6583 55 24 3 0 0 0 0.46674 1 9016 9016 13.042 4.2971 1 285530 4555 2267 3028 3038 5093 5093 0.11769400013940867 EILRQILKTYF 11 Unmodified _EILRQILKTYF_ 0 0 0 ENST00000357727.6_1_7:28452319-28452490:+|nuORF ENST00000357727.6_1_7:28452319-28452490:+|nuORF ENST00000357727.6_1_7:28452319-28452490:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 712.416259765625 2 712.41902 1422.82349 NaN NaN NaN NaN NaN NaN NaN 62.091 1 62.343 61.843 62.843 0.25245 0 0 0 1.0073 1 28426 28426 1.1933 0 1 4556 7182 3029 3039 5094 5094 0.12898738625290207 EIPFRLWVEP 10 Unmodified _EIPFRLWVEP_ 0 0 0 ENST00000595081.5_1_19:50364507-50365005:-|nuORF;ENST00000594661.5_1_19:50364507-50367546:-|nuORF;nc|ENSG00000039650|Q96T60-2|PNKP;ENST00000593946.5_1_19:50364507-50370327:-|nuORF;ENSG00000039650|ENST00000322344|PNKP ENST00000595081.5_1_19:50364507-50365005:-|nuORF ENST00000595081.5_1_19:50364507-50365005:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 643.1124877929688 2 643.350606 1284.68666 NaN NaN NaN NaN NaN NaN NaN 87.182 1 87.222 86.722 87.722 0.039955 0 0 0 0.9962 1 44070 44070 4.897 0.36815 1 4557 530 3030 3040 5095 5095 0.055702494655406554 EIQINLKLEIK 11 Unmodified _EIQINLKLEIK_ 0 0 0 Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|48|2|sense Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|48|2|sense Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|48|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.9110717773438 2 670.911027 1339.8075 NaN NaN NaN NaN NaN NaN NaN 95.067 1 95.149 94.649 95.649 0.082001 0 0 0 1.0061 1 50171 50171 2.7352 0 1 4558 9394 3031 3041 5096 5096 0.1511903238836112 EIQKKLYTL 9 Unmodified _EIQKKLYTL_ 0 0 0 ROCK2|p.E705Vfs*7|1|0.05|ENSG00000134318|chr2:11211770-11211771|-/TTTGGTTTTGAAA|frameshift_variant;ROCK2|p.K892Tfs*35|1|0.04|ENSG00000134318|chr2:11201358-11201359|-/AGGGAGCTTAAAGAAGAATG|frameshift_variant;ENSG00000134318|ENST00000315872|ROCK2 ROCK2|p.E705Vfs*7|1|0.05|ENSG00000134318|chr2:11211770-11211771|-/TTTGGTTTTGAAA|frameshift_variant ROCK2|p.E705Vfs*7|1|0.05|ENSG00000134318|chr2:11211770-11211771|-/TTTGGTTTTGAAA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.3514404296875 2 568.339707 1134.66486 NaN NaN NaN NaN NaN NaN NaN 35.533 1 35.789 35.289 36.289 0.25524 0 0 0 0.43138 1 16187 16187 22.736 4.6013 1 4559 2801 3032 3042 5097 5097 0.10291444717017839 EIQLLPLNRR 10 Unmodified _EIQLLPLNRR_ 0 0 0 REV__ENSG00000178694|ENST00000314622|NSUN3 REV__ENSG00000178694|ENST00000314622|NSUN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 626.3821411132812 2 626.380229 1250.7459 3.9834 0.0024951 -0.72429 -0.00045368 3.2591 0.0020414 626.379533632586 100.17 0.13911 100.76 100.68 100.82 0.59717 13 4 4 0 0 0 0.93713 1 46360 46360 1.4819 0 1 12477000 + 4560 13769 3033 3043 5098 5098 0.1305614547973164 EIQSTWLE 8 Unmodified _EIQSTWLE_ 0 0 0 nc|ENSG00000289758|Q92902-2|HPS1;nc|ENSG00000289758|Q92902-4|HPS1;ENSG00000107521|ENST00000361490|HPS1 nc|ENSG00000289758|Q92902-2|HPS1 nc|ENSG00000289758|Q92902-2|HPS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1005.489013671875 1 1005.48875 1004.48148 2.891 0.0029069 -1.5392 -0.0015477 1.3518 0.0013592 1005.4892989016973 68.107 0.11836 68.107 68.034 68.153 0 22 17 2 0 0 0 0.18676 1 32781 32781 44.407 2.3125 1 2378600 4561 1599 3034 3044 5099 5099 -0.020585290646636167 EIQVWNWQLDK 11 Unmodified _EIQVWNWQLDK_ 0 0 0 nc|ENSG00000120868|O14727-5|APAF1;nc|ENSG00000120868|O14727-3|APAF1;nc|ENSG00000120868|O14727-4|APAF1;nc|ENSG00000120868|O14727-2|APAF1;ENSG00000120868|ENST00000551964|APAF1 nc|ENSG00000120868|O14727-5|APAF1 nc|ENSG00000120868|O14727-5|APAF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 730.3461303710938 2 729.872434 1457.73031 2.3961 0.0017488 0.17118 0.00012494 2.5672 0.0018738 729.8720582569556 108.95 0.11726 109 108.95 109.06 0.04248 6 5 2 0 0 0 0.73918 1 58829 58829 9.544 2.9136 1 301440 4562 2214 3035 3045 5100 5100 0.01975814172033097 EIRARLLPVYE 11 Unmodified _EIRARLLPVYE_ 0 0 0 ENSG00000093072|ENST00000399837|ADA2 ENSG00000093072|ENST00000399837|ADA2 ENSG00000093072|ENST00000399837|ADA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.6011962890625 3 453.597871 1357.77178 NaN NaN NaN NaN NaN NaN NaN 76.305 1 76.562 76.062 77.062 0.25704 0 0 0 1.0071 1 35130 35130 1.4551 0.12547 1 4563 1107 3036 3046 5101 5101 0.10720994931352834 EIREKLIRL 9 Unmodified _EIREKLIRL_ 0 0 0 ENST00000527306.1_1_8:42752256-42852891:+|nuORF;ENSG00000168172|ENST00000307602|HOOK3 ENST00000527306.1_1_8:42752256-42852891:+|nuORF ENST00000527306.1_1_8:42752256-42852891:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.5852966308594 3 390.583674 1168.72919 3.0004 0.0011719 -0.21719 -8.483E-05 2.7832 0.0010871 390.58381334705234 36.932 0.33014 37.19 37.05 37.38 0.25768 13 10 2 0 0 0 0.19396 1 16850 16850 23.801 10.186 1 362940 4564 4612 3037 3047 5102 5102 0.1515764459379625 EIREKLIRL 9 Unmodified _EIREKLIRL_ 0 0 0 ENST00000527306.1_1_8:42752256-42852891:+|nuORF;ENSG00000168172|ENST00000307602|HOOK3 ENST00000527306.1_1_8:42752256-42852891:+|nuORF ENST00000527306.1_1_8:42752256-42852891:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.5848693847656 3 390.583674 1168.72919 2.9489 0.0011518 -0.17419 -6.8036E-05 2.7747 0.0010838 390.58357249939644 36.236 0.24885 36.862 36.762 37.01 0.62631 12 7 2 0 0 0 0.11316 1 16599 16599 29.437 8.8562 1 695720 4565 4612 3037 3047 5103 5103 0.1515764459379625 EIREKLIRL 9 Unmodified _EIREKLIRL_ 0 0 0 ENST00000527306.1_1_8:42752256-42852891:+|nuORF;ENSG00000168172|ENST00000307602|HOOK3 ENST00000527306.1_1_8:42752256-42852891:+|nuORF ENST00000527306.1_1_8:42752256-42852891:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 390.583674 1168.72919 2.6363 0.0010297 -0.61789 -0.00024134 2.0184 0.00078836 390.58349411533703 36.048 0.22716 36.839 36.724 36.951 0.79132 -0.12446 -0.00036601 NaN 29.437 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 150520 4566 4612 3037 3047 0.1515764459379625 EIRFRTRWRT 10 Unmodified _EIRFRTRWRT_ 0 0 0 REV__nc|ENSG00000131269|O75027-3|ABCB7 REV__nc|ENSG00000131269|O75027-3|ABCB7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 710.9021606445312 2 710.899651 1419.78475 NaN NaN NaN NaN NaN NaN NaN 97.382 1 97.382 96.882 97.882 0 0 0 0 1.0001 1 52996 52996 3.2813 1.9518 1 + 4567 11852 3038 3048 5104 5104 0.09164870834138128 EIRGKVLAL 9 Unmodified _EIRGKVLAL_ 0 0 0 nc|ENSG00000055917|Q8TB72-4|PUM2;ENSG00000055917|ENST00000361078|PUM2;nc|ENSG00000055917|Q8TB72|PUM2;nc|ENSG00000055917|Q8TB72-2|PUM2 nc|ENSG00000055917|Q8TB72-4|PUM2 nc|ENSG00000055917|Q8TB72-4|PUM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.8240966796875 2 499.821484 997.628415 3.1233 0.0015611 1.2181 0.00060882 4.3413 0.0021699 499.82245365216403 37.695 0.20348 38.329 38.212 38.415 0.63389 11 6 2 0 0 0 0.136 1 17253 17253 27.629 2.2295 1 184890 4568 617 3039 3049 5105 5105 0.12950612610927692 EIRGRRVFHQI 11 Unmodified _EIRGRRVFHQI_ 0 0 0 REV__ENSG00000110060|ENST00000227474|PUS3 REV__ENSG00000110060|ENST00000227474|PUS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.9410095214844 3 470.940743 1409.8004 2.9391 0.0013842 -0.43131 -0.00020312 2.5078 0.001181 470.94054091926574 55.163 0.28191 55.831 55.755 56.036 0.66797 15 9 2 0 0 0 0.90781 1 25255 25255 2.084 1.6757 1 341840 + 4569 11192 3040 3050 5106 5106 0.11189157351168433 EIRHLIEKAK 10 Unmodified _EIRHLIEKAK_ 0 0 0 REV__nc|ENSG00000249961|Q8NA31-3|TERB1 REV__nc|ENSG00000249961|Q8NA31-3|TERB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 618.41064453125 2 618.874779 1235.73501 NaN NaN NaN NaN NaN NaN NaN 14.004 1 14.652 14.152 15.152 0.6482 0 0 0 0.9952 1 6294 6294 5.7319 0.43497 1 + 4570 14650 3041 3051 5107 5107 0.1265674310545819 EIRIFKRKKRI 11 Unmodified _EIRIFKRKKRI_ 0 0 0 ENSG00000130943|ENST00000253255|PKDREJ ENSG00000130943|ENST00000253255|PKDREJ ENSG00000130943|ENST00000253255|PKDREJ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 743.659912109375 2 743.988269 1485.96199 NaN NaN NaN NaN NaN NaN NaN 98.36 1 98.426 97.926 98.926 0.066025 0 0 0 1.008 1 52866 52866 0.30703 0.30703 1 4571 2631 3042 3052 5108 5108 0.2384432638425551 EIRIRVVQM 9 Unmodified _EIRIRVVQM_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.894775390625 3 381.893742 1142.6594 3.0208 0.0011536 -0.50874 -0.00019428 2.5121 0.00095935 381.8935878058126 47.102 0.27402 47.366 47.214 47.488 0.26363 27 9 4 0 0 0 0.038142 1 21524 21524 47.594 28.232 1 1297900 4572 6272 3043 3053 5109 5109 0.09377442653544676 EIRIRVVQM 9 Unmodified _EIRIRVVQM_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.3386840820312 2 572.336975 1142.6594 3.6226 0.0020733 -0.13807 -7.9021E-05 3.4845 0.0019943 572.3369277595365 47.103 0.30588 47.367 47.214 47.52 0.26363 23 11 3 0 0 0 0.079031 1 21525 21525 37.974 23.136 1 889180 4573 6272 3043 3053 5110 5110 0.09377442653544676 EIRIRVVQM 9 Unmodified _EIRIRVVQM_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 572.3387451171875 2 572.336975 1142.6594 3.7986 0.0021741 -0.6688 -0.00038278 3.1298 0.0017913 572.336438303353 46.552 0.26166 47.204 47.026 47.287 0.65219 17 9 3 0 0 0 0.16976 1 21331 21331 25.399 17.489 1 839840 4574 6272 3043 3053 5111 5111 0.09377442653544676 EIRIRVVQM 9 Unmodified _EIRIRVVQM_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 381.893742 1142.6594 2.4972 0.00095365 -1.1296 -0.00043139 1.3676 0.00052226 381.89354422664496 47.441 0.16256 47.441 47.385 47.548 0 0.10525 -0.00061766 NaN 47.594 16 9 3 NaN NaN NaN NaN 0 NaN NaN 0 343910 4575 6272 3043 3053 0.09377442653544676 EIRIRVVQM 9 Unmodified _EIRIRVVQM_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 381.893742 1142.6594 2.8926 0.0011047 -0.42791 -0.00016341 2.4647 0.00094125 381.8936233109321 46.548 0.27084 47.2 47.047 47.318 0.65219 -0.13554 0.00018626 NaN 47.594 20 9 3 NaN NaN NaN NaN 0 NaN NaN 0 1173000 4576 6272 3043 3053 0.09377442653544676 EIRKKVLKI 9 Unmodified _EIRKKVLKI_ 0 0 0 ENST00000556764.5_1_14:61201502-61275155:+|nuORF;nc|ENSG00000020426|P51948-2|MNAT1;ENSG00000020426|ENST00000261245|MNAT1 ENST00000556764.5_1_14:61201502-61275155:+|nuORF ENST00000556764.5_1_14:61201502-61275155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.2608642578125 3 376.260531 1125.75976 2.1532 0.00081016 -0.035476 -1.3348E-05 2.1177 0.00079681 376.26045063157324 12.96 0.17185 13.267 13.187 13.359 0.30727 11 6 2 0 0 0 0.078225 1 5852 5852 35.612 7.1177 1 185290 4577 453 3044 3054 5112 5112 0.2019142297883718 EIRKKVLKI 9 Unmodified _EIRKKVLKI_ 0 0 0 ENST00000556764.5_1_14:61201502-61275155:+|nuORF;nc|ENSG00000020426|P51948-2|MNAT1;ENSG00000020426|ENST00000261245|MNAT1 ENST00000556764.5_1_14:61201502-61275155:+|nuORF ENST00000556764.5_1_14:61201502-61275155:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 376.260531 1125.75976 2.9628 0.0011148 -0.34298 -0.00012905 2.6198 0.00098574 376.2599694753102 12.719 0.10173 13.362 13.311 13.413 0.64272 0.047429 -0.0002885 NaN 35.612 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 478160 4578 453 3044 3054 0.2019142297883718 EIRKLRREL 9 Unmodified _EIRKLRREL_ 0 0 0 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-4|NAV2;ENSG00000166833|ENST00000349880|NAV2;nc|ENSG00000166833|Q8IVL1-5|NAV2;nc|ENSG00000166833|Q8IVL1-6|NAV2;nc|ENSG00000166833|Q8IVL1-8|NAV2;nc|ENSG00000166833|Q8IVL1-9|NAV2;nc|ENSG00000166833|Q8IVL1-10|NAV2;nc|ENSG00000166833|Q8IVL1-13|NAV2;nc|ENSG00000166833|Q8IVL1-12|NAV2;nc|ENSG00000166833|Q8IVL1-11|NAV2;nc|ENSG00000166833|Q8IVL1-2|NAV2;nc|ENSG00000166833|Q8IVL1|NAV2 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-8|NAV2 nc|ENSG00000166833|Q8IVL1-8|NAV2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 303.9446716308594 4 303.943836 1211.74624 2.0299 0.00061696 0.23013 6.9947E-05 2.26 0.00068691 303.9438918618786 13.025 0.21323 13.025 12.917 13.13 0 36 11 5 0 0 0 0.30982 1 5717 5717 11.518 1.2026 1 7524700 4579 9530;9735 3045 3055 5113 5113 0.14883565199625082 EIRKPSPYDG 10 Unmodified _EIRKPSPYDG_ 0 0 0 nc|ENSG00000196091|Q00872-5|MYBPC1;nc|ENSG00000196091|Q00872-3|MYBPC1;nc|ENSG00000196091|Q00872-9|MYBPC1;nc|ENSG00000196091|Q00872-8|MYBPC1;nc|ENSG00000196091|Q00872-7|MYBPC1;nc|ENSG00000196091|Q00872|MYBPC1;nc|ENSG00000196091|Q00872-10|MYBPC1;nc|ENSG00000196091|Q00872-2|MYBPC1;ENSG00000196091|ENST00000361466|MYBPC1;nc|ENSG00000196091|Q00872-6|MYBPC1 nc|ENSG00000196091|Q00872-5|MYBPC1 nc|ENSG00000196091|Q00872-5|MYBPC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.0022583007812 2 581.29857 1160.58259 NaN NaN NaN NaN NaN NaN NaN 97.418 1 97.489 96.989 97.989 0.070648 0 0 0 0.99572 1 52079 52079 5.2969 0.96765 1 4580 5717 3046 3056 5114 5114 0.00871922638043543 EIRKVVQSL 9 Unmodified _EIRKVVQSL_ 0 0 0 ENST00000483698.5_1_2:122513280-122515022:+|nuORF;nc|ENSG00000211460|Q15631-2|TSN;ENST00000467324.5_1_2:122513466-122522940:+|nuORF;ENSG00000211460|ENST00000389682|TSN ENST00000483698.5_1_2:122513280-122515022:+|nuORF ENST00000483698.5_1_2:122513280-122515022:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.332275390625 2 536.329673 1070.64479 3.2301 0.0017324 0.39622 0.0002125 3.6263 0.0019449 536.3300571910361 31.13 0.20026 31.13 31.076 31.276 0 25 17 2 0 0 0 0.063575 1 14082 14082 41.84 6.9076 1 463840 4581 6080 3047 3057 5115 5115 0.1122969377706795 EIRKVVQSL 9 Unmodified _EIRKVVQSL_ 0 0 0 ENST00000483698.5_1_2:122513280-122515022:+|nuORF;nc|ENSG00000211460|Q15631-2|TSN;ENST00000467324.5_1_2:122513466-122522940:+|nuORF;ENSG00000211460|ENST00000389682|TSN ENST00000483698.5_1_2:122513280-122515022:+|nuORF ENST00000483698.5_1_2:122513280-122515022:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.331298828125 2 536.329673 1070.64479 3.2058 0.0017194 -0.074335 -3.9868E-05 3.1314 0.0016795 536.3295439784473 30.165 0.29766 30.954 30.808 31.105 0.78921 44 27 2 0 0 0 0.22824 2 13594 13594;13650 21.537 8.4945 1 275020 4582 6080 3047 3057 5116;5117 5116 0.1122969377706795 EIRKVVQSL 9 Unmodified _EIRKVVQSL_ 0 0 0 ENST00000483698.5_1_2:122513280-122515022:+|nuORF;nc|ENSG00000211460|Q15631-2|TSN;ENST00000467324.5_1_2:122513466-122522940:+|nuORF;ENSG00000211460|ENST00000389682|TSN ENST00000483698.5_1_2:122513280-122515022:+|nuORF ENST00000483698.5_1_2:122513280-122515022:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.3320922851562 2 536.329673 1070.64479 3.4428 0.0018465 0.37391 0.00020054 3.8167 0.002047 536.3298141214913 30.948 0.33288 31.204 31.033 31.366 0.25614 78 37 3 0 0 0 0.0017155 3 14071 14031;14071;14118 107.1 44.527 1 935670 4583 6080 3047 3057 5118;5119;5120 5119 0.1122969377706795 EIRKVVQSL 9 Unmodified _EIRKVVQSL_ 0 0 0 ENST00000483698.5_1_2:122513280-122515022:+|nuORF;nc|ENSG00000211460|Q15631-2|TSN;ENST00000467324.5_1_2:122513466-122522940:+|nuORF;ENSG00000211460|ENST00000389682|TSN ENST00000483698.5_1_2:122513280-122515022:+|nuORF ENST00000483698.5_1_2:122513280-122515022:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.3316650390625 2 536.329673 1070.64479 3.2467 0.0017413 0.31341 0.00016809 3.5601 0.0019094 536.3297909982925 30.503 0.27707 31.12 30.993 31.27 0.61736 51 22 3 0 0 0 0.044468 2 14018 13967;14018 49.554 10.94 1 1029200 4584 6080 3047 3057 5121;5122 5122 0.1122969377706795 EIRKVVQSL 9 Unmodified _EIRKVVQSL_ 0 0 0 ENST00000483698.5_1_2:122513280-122515022:+|nuORF;nc|ENSG00000211460|Q15631-2|TSN;ENST00000467324.5_1_2:122513466-122522940:+|nuORF;ENSG00000211460|ENST00000389682|TSN ENST00000483698.5_1_2:122513280-122515022:+|nuORF ENST00000483698.5_1_2:122513280-122515022:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.8900146484375 3 357.888874 1070.64479 2.528 0.00090475 0.41812 0.00014964 2.9461 0.0010544 357.8891231184852 30.522 0.27994 31.139 31.009 31.289 0.61737 44 22 3 0 0 0 0.079031 1 13992 13992 28.495 11.929 1 908210 4585 6080 3047 3057 5123 5123 0.1122969377706795 EIRQKNLSL 9 Unmodified _EIRQKNLSL_ 0 0 0 ENSG00000101343|ENST00000536226|CRNKL1;nc|ENSG00000101343|Q9BZJ0-3|CRNKL1;nc|ENSG00000101343|Q9BZJ0|CRNKL1 ENSG00000101343|ENST00000536226|CRNKL1 ENSG00000101343|ENST00000536226|CRNKL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.826416015625 2 550.824755 1099.63496 3.6276 0.0019981 0.34602 0.0001906 3.9736 0.0021887 550.8248793036875 25.93 0.23495 26.198 26.06 26.295 0.26777 32 22 2 0 0 0 0.063575 1 11753 11753 41.84 7.4379 1 484480 4586 1285 3048 3058 5124 5124 0.0891250577167284 EIRQKNLSL 9 Unmodified _EIRQKNLSL_ 0 0 0 ENSG00000101343|ENST00000536226|CRNKL1;nc|ENSG00000101343|Q9BZJ0-3|CRNKL1;nc|ENSG00000101343|Q9BZJ0|CRNKL1 ENSG00000101343|ENST00000536226|CRNKL1 ENSG00000101343|ENST00000536226|CRNKL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.8263549804688 2 550.824755 1099.63496 3.439 0.0018943 0.50478 0.00027805 3.9438 0.0021723 550.8251216467395 25.58 0.20165 26.205 26.091 26.293 0.62505 37 21 2 0 0 0 0.069974 1 11702 11702 40.239 7.4535 1 642840 4587 1285 3048 3058 5125 5125 0.0891250577167284 EIRQKNLSL 9 Unmodified _EIRQKNLSL_ 0 0 0 ENSG00000101343|ENST00000536226|CRNKL1;nc|ENSG00000101343|Q9BZJ0-3|CRNKL1;nc|ENSG00000101343|Q9BZJ0|CRNKL1 ENSG00000101343|ENST00000536226|CRNKL1 ENSG00000101343|ENST00000536226|CRNKL1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 550.824755 1099.63496 3.0536 0.001682 -0.12524 -6.8988E-05 2.9283 0.001613 550.8248005032619 25.237 0.09177 26.001 25.942 26.034 0.76356 -0.13367 -0.00057415 NaN 41.84 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 274410 4588 1285 3048 3058 0.0891250577167284 EIRQRFIDFFK 11 Unmodified _EIRQRFIDFFK_ 0 0 0 ENSG00000090861|ENST00000261772|AARS1;nc|ENSG00000090861|P49588-2|AARS1 ENSG00000090861|ENST00000261772|AARS1 ENSG00000090861|ENST00000261772|AARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.4613342285156 4 375.459585 1497.80923 2.736 0.0010273 0.10061 3.7776E-05 2.8366 0.001065 375.4594653313035 69.894 1.145 70.151 69.867 71.012 0.25642 149 76 4 0 0 0 0.91328 1 32065 32065 0.50596 0.051438 1 1043600 4589 1068 3049 3059 5126 5126 0.0802408619695143 EIRRERRREER 11 Unmodified _EIRRERRREER_ 0 0 0 REV__ENSG00000022840|ENST00000325954|RNF10 REV__ENSG00000022840|ENST00000325954|RNF10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 792.9454956054688 2 792.94311 1583.87167 NaN NaN NaN NaN NaN NaN NaN 86.525 1 86.525 86.025 87.025 0 0 0 0 1.0072 1 44378 44378 1.3295 0.13619 1 + 4590 10267 3050 3060 5127 5127 0.10308625317884434 EIRRSVIEI 9 Unmodified _EIRRSVIEI_ 0 0 0 nc|ENSG00000085511|Q9Y6R4-2|MAP3K4;ENSG00000085511|ENST00000392142|MAP3K4 nc|ENSG00000085511|Q9Y6R4-2|MAP3K4 nc|ENSG00000085511|Q9Y6R4-2|MAP3K4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 372.2254333496094 3 372.224146 1113.65061 3.0307 0.0011281 0.17621 6.5591E-05 3.2069 0.0011937 372.2242425676954 12.292 0.028397 12.93 12.909 12.938 0.63746 4 2 2 0 0 0 0.053453 1 5482 5482 42.312 9.4147 1 33229000 4591 969 3051 3061 5128 5128 0.09832792288693781 EIRVKTNL 8 Unmodified _EIRVKTNL_ 0 0 0 nc|ENSG00000112335|O60493-3|SNX3;ENSG00000112335|ENST00000230085|SNX3 nc|ENSG00000112335|O60493-3|SNX3 nc|ENSG00000112335|O60493-3|SNX3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.2988586425781 2 486.795466 971.57638 3.3672 0.0016391 0.03901 1.899E-05 3.4062 0.0016581 486.7952627970125 26.968 0.20377 26.968 26.888 27.091 0 17 10 2 0 0 0 0.03226 1 12139 12139 58.679 0 1 381610 4592 1804 3052 3062 5129 5129 0.08945449197187827 EIRVKTNL 8 Unmodified _EIRVKTNL_ 0 0 0 nc|ENSG00000112335|O60493-3|SNX3;ENSG00000112335|ENST00000230085|SNX3 nc|ENSG00000112335|O60493-3|SNX3 nc|ENSG00000112335|O60493-3|SNX3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 324.8667297363281 3 324.86607 971.57638 2.33 0.00075693 0.0070715 2.2973E-06 2.337 0.00075922 324.8660405056436 26.943 0.22748 26.943 26.864 27.091 0 26 12 3 0 0 0 0.60101 1 12148 12148 13.906 0.86358 1 572360 4593 1804 3052 3062 5130 5130 0.08945449197187827 EIRVKTNL 8 Unmodified _EIRVKTNL_ 0 0 0 nc|ENSG00000112335|O60493-3|SNX3;ENSG00000112335|ENST00000230085|SNX3 nc|ENSG00000112335|O60493-3|SNX3 nc|ENSG00000112335|O60493-3|SNX3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.8669738769531 3 324.86607 971.57638 2.3504 0.00076358 0.20831 6.7673E-05 2.5587 0.00083125 324.86609061776124 26.67 0.27682 26.934 26.793 27.07 0.26489 48 18 3 0 0 0 0.60101 1 12102 12102 13.906 3.8321 1 1423800 4594 1804 3052 3062 5131 5131 0.08945449197187827 EIRVKTNL 8 Unmodified _EIRVKTNL_ 0 0 0 nc|ENSG00000112335|O60493-3|SNX3;ENSG00000112335|ENST00000230085|SNX3 nc|ENSG00000112335|O60493-3|SNX3 nc|ENSG00000112335|O60493-3|SNX3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.79669189453125 2 486.795466 971.57638 3.1098 0.0015138 -0.047635 -2.3188E-05 3.0622 0.0014906 486.7953044778101 26.651 0.23525 26.916 26.813 27.049 0.26489 29 15 2 0 0 0 0.099011 1 12152 12152 37.974 0 1 857490 4595 1804 3052 3062 5132 5132 0.08945449197187827 EIRVKTNL 8 Unmodified _EIRVKTNL_ 0 0 0 nc|ENSG00000112335|O60493-3|SNX3;ENSG00000112335|ENST00000230085|SNX3 nc|ENSG00000112335|O60493-3|SNX3 nc|ENSG00000112335|O60493-3|SNX3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.8670959472656 3 324.86607 971.57638 2.1024 0.00068301 0.63069 0.00020489 2.7331 0.0008879 324.8661904661507 26.293 0.25982 26.918 26.787 27.047 0.62505 35 14 3 0 0 0 0.60101 1 12048 12048 13.906 3.8321 1 1030300 4596 1804 3052 3062 5133 5133 0.08945449197187827 EIRVKTNL 8 Unmodified _EIRVKTNL_ 0 0 0 nc|ENSG00000112335|O60493-3|SNX3;ENSG00000112335|ENST00000230085|SNX3 nc|ENSG00000112335|O60493-3|SNX3 nc|ENSG00000112335|O60493-3|SNX3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.7973937988281 2 486.795466 971.57638 3.1017 0.0015099 0.80957 0.0003941 3.9113 0.001904 486.79559196568425 26.29 0.25982 26.915 26.787 27.047 0.62505 40 14 4 0 0 0 0.0052169 1 12049 12049 133.05 25.055 1 945600 4597 1804 3052 3062 5134 5134 0.08945449197187827 EITLKGFRNG 10 Unmodified _EITLKGFRNG_ 0 0 0 ENSG00000165732|ENST00000354185|DDX21;nc|ENSG00000165732|Q9NR30-2|DDX21 ENSG00000165732|ENST00000354185|DDX21 ENSG00000165732|ENST00000354185|DDX21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.8813171386719 3 378.880379 1133.61931 2.6524 0.001005 0.18812 7.1275E-05 2.8406 0.0010762 378.88021545685854 34.305 0.33887 34.928 34.776 35.115 0.62294 20 12 2 0 0 0 0.51485 1 15705 15705 20.581 2.2078 1 714480 4598 4420 3053 3063 5135 5135 0.05784219254633172 EITPFSYISLP 11 Unmodified _EITPFSYISLP_ 0 0 0 nc|ENSG00000169894|Q02505-2|MUC3A;nc|ENSG00000169894|Q02505-3|MUC3A;nc|ENSG00000169894|Q02505-4|MUC3A;nc|ENSG00000169894|Q02505-5|MUC3A;ENSG00000169894|ENST00000379458|MUC3A nc|ENSG00000169894|Q02505-2|MUC3A nc|ENSG00000169894|Q02505-2|MUC3A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.83544921875 2 633.834454 1265.65436 NaN NaN NaN NaN NaN NaN NaN 46.848 1 47.678 47.178 48.178 0.82915 0 0 0 1.0041 1 21343 21343 5.2969 0 1 4599 4719 3054 3064 5136 5136 0.03215417271917431 EIVFLDLVF 9 Unmodified _EIVFLDLVF_ 0 0 0 REV__ENST00000403716.5_1_2:131905685-131905853:+|nuORF REV__ENST00000403716.5_1_2:131905685-131905853:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.8789978027344 3 365.542593 1093.60595 2.443 0.000893 1.0453 0.00038209 3.4882 0.0012751 365.54319547978554 17.136 0.56422 17.44 17.061 17.625 0.30438 86 44 3 0 0 0 1.1703 1 7658 7658 1.1933 1.1933 1 164330 + 4600 16055 3055 3065 5137 5137 0.06288968422677499 EIVVLILGG 9 Unmodified _EIVVLILGG_ 0 0 0 ENST00000471694.1_1_3:107765468-107765555:-|nuORF ENST00000471694.1_1_3:107765468-107765555:-|nuORF ENST00000471694.1_1_3:107765468-107765555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.8648376464844 3 304.863666 911.569169 NaN NaN NaN NaN NaN NaN NaN 32.355 1 33.143 32.643 33.643 0.78795 0 0 0 0.91452 1 14634 14634 0 0 1 4601 8183 3056 3066 5138 5138 0.10984716596783528 EIVVLILGG 9 Unmodified _EIVVLILGG_ 0 0 0 ENST00000471694.1_1_3:107765468-107765555:-|nuORF ENST00000471694.1_1_3:107765468-107765555:-|nuORF ENST00000471694.1_1_3:107765468-107765555:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 912.584228515625 1 912.576445 911.569169 3.855 0.003518 3.5573 0.0032463 7.4123 0.0067643 912.5798242503195 28.626 0.095388 29.246 29.184 29.279 0.61947 6 4 2 0 0 0 1.2459 1 13122 13122 0 0 1 209370 4602 8183 3056 3066 5139 5139 0.10984716596783528 EIWHRRHDYWL 11 Unmodified _EIWHRRHDYWL_ 0 0 0 nc|ENSG00000170004|Q12873-2|CHD3;ENSG00000170004|ENST00000330494|CHD3;nc|ENSG00000170004|Q12873-3|CHD3;ENST00000470531.5_3_17:7807732-7814900:+|nuORF;ENSG00000111642|ENST00000544040|CHD4;nc|ENSG00000111642|Q14839-2|CHD4 nc|ENSG00000170004|Q12873-2|CHD3;ENSG00000111642|ENST00000544040|CHD4 ENSG00000111642|ENST00000544040|CHD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 805.901123046875 2 805.902391 1609.79023 NaN NaN NaN NaN NaN NaN NaN 77.391 1 77.391 76.891 77.891 0 0 0 0 1.008 1 37956 37956 0.35063 0.043601 1 4603 1767;4727 3057 3067 5140 5140 0.009725496259534339 EIYHWKRWPL 10 Unmodified _EIYHWKRWPL_ 0 0 0 nc|ENSG00000104093|Q8TDJ6|DMXL2;nc|ENSG00000104093|Q8TDJ6-3|DMXL2;ENSG00000104093|ENST00000560891|DMXL2 nc|ENSG00000104093|Q8TDJ6|DMXL2 nc|ENSG00000104093|Q8TDJ6|DMXL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 714.3848876953125 2 714.382771 1426.75099 NaN NaN NaN NaN NaN NaN NaN 98.444 1 98.744 98.244 99.244 0.29987 0 0 0 0.99464 1 45345 45345 6.2058 0.47393 1 4604 1425 3058 3068 5141 5141 0.05468449342356507 EIYPILMRLRT 11 Unmodified _EIYPILMRLRT_ 0 0 0 REV__ENSG00000088682|ENST00000262507|COQ9 REV__ENSG00000088682|ENST00000262507|COQ9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 703.4539794921875 2 702.905222 1403.79589 3.324 0.0023365 -2.79 -0.0019611 0.53398 0.00037534 702.9029669709367 97.24 0.019379 97.24 97.226 97.246 0 4 2 2 0 0 0 0.82535 1 52877 52877 5.7319 2.9967 1 10980000 + 4605 10680 3059 3069 5142 5142 0.1101451209337938 EKAPHWAQLPV 11 Unmodified _EKAPHWAQLPV_ 0 0 0 REV__ENSG00000104450|ENST00000388798|SPAG1 REV__ENSG00000104450|ENST00000388798|SPAG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 425.900390625 3 425.899662 1274.67716 NaN NaN NaN NaN NaN NaN NaN 61.994 1 61.994 61.494 62.494 0 0 0 0 0.95688 1 28998 28998 5.8681 0.084707 1 + 4606 10993 3060 3070 5143 5143 0.0508048118001625 EKARLAAAAPV 11 Unmodified _EKARLAAAAPV_ 0 0 0 REV__THSD7B|p.W490Cfs*9|1|0.19|ENSG00000144229|chr2:137160313-137160314|GT/-|frameshift_variant REV__THSD7B|p.W490Cfs*9|1|0.19|ENSG00000144229|chr2:137160313-137160314|GT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.8260498046875 2 548.827298 1095.64004 NaN NaN NaN NaN NaN NaN NaN 17.229 1 17.429 16.929 17.929 0.20057 0 0 0 0.97175 1 7619 7619 9.3831 3.1773 1 + 4607 12394 3061 3071 5144 5144 0.09604809634242883 EKARYKRLLFH 11 Unmodified _EKARYKRLLFH_ 0 0 0 REV__MAGEA4|p.W274Lfs*14|1|0.11|ENSG00000147381|chrX:151924482-151924483|-/CCTCA|frameshift_variant REV__MAGEA4|p.W274Lfs*14|1|0.11|ENSG00000147381|chrX:151924482-151924483|-/CCTCA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.6122131347656 3 487.62101 1459.8412 NaN NaN NaN NaN NaN NaN NaN 67.725 1 67.725 67.225 68.225 0 0 0 0 1.0059 1 32535 32535 1.2148 0.70888 1 + 4608 12504 3062 3072 5145 5145 0.1296749867078688 EKAYEKILFT 10 Unmodified _EKAYEKILFT_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8;ENST00000584430.1_1_18:856598-856898:+|nuORF ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 621.4672241210938 2 621.342446 1240.67034 NaN NaN NaN NaN NaN NaN NaN 83.684 1 83.684 83.184 84.184 0 0 0 0 0.95221 1 42195 42195 13.042 2.9685 1 4609 1141 3063 3073 5146 5146 0.05963123508786339 EKCYDYQHYYQ 11 Unmodified _EKCYDYQHYYQ_ 0 0 0 ENST00000510376.1_1_5:176332285-176333139:-|nuORF ENST00000510376.1_1_5:176332285-176333139:-|nuORF ENST00000510376.1_1_5:176332285-176333139:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 770.0352172851562 2 770.314091 1538.61363 NaN NaN NaN NaN NaN NaN NaN 88.014 1 88.014 87.514 88.514 0 0 0 0 1.008 1 45553 45553 0.35063 0 1 4610 8554 3064 3074 5147 5147 -0.13413292110021757 EKDETVEWAV 10 Unmodified _EKDETVEWAV_ 0 0 0 REV__ENST00000056233.3_1_7:26224862-26224895:+|nuORF REV__ENST00000056233.3_1_7:26224862-26224895:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 603.103271484375 2 603.287868 1204.56118 NaN NaN NaN NaN NaN NaN NaN 85.165 1 85.194 84.694 85.694 0.028603 0 0 0 1.0001 1 42595 42595 1.6526 0 1 + 4611 14781 3065 3075 5148 5148 -0.03291507181347697 EKDHPFCRRWR 11 Unmodified _EKDHPFCRRWR_ 0 0 0 ENST00000396467.5_1_8:74203291-74203402:-|nuORF ENST00000396467.5_1_8:74203291-74203402:-|nuORF ENST00000396467.5_1_8:74203291-74203402:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.41046142578125 3 510.589604 1528.74698 NaN NaN NaN NaN NaN NaN NaN 67.097 1 67.8 67.3 68.3 0.70218 0 0 0 1.0062 1 31850 31850 2.6312 1.5215 1 4612 7569 3066 3076 5149 5149 0.0037603657697218296 EKDLLVHQL 9 Unmodified _EKDLLVHQL_ 0 0 0 REV__ENSG00000173572|ENST00000342929|NLRP13 REV__ENSG00000173572|ENST00000342929|NLRP13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.8120727539062 2 547.813856 1093.61316 NaN NaN NaN NaN NaN NaN NaN 84.825 1 84.825 84.325 85.325 0 0 0 0 0.86044 1 43040 43040 7.2892 0 1 + 4613 13604 3067 3077 5150 5150 0.07009701023071102 EKEDDFDDWEP 11 Unmodified _EKEDDFDDWEP_ 0 0 0 ENSG00000117000|ENST00000372771|RLF ENSG00000117000|ENST00000372771|RLF ENSG00000117000|ENST00000372771|RLF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 475.5207214355469 3 475.521133 1423.54157 NaN NaN NaN NaN NaN NaN NaN 59.993 1 59.993 59.493 60.493 0 0 0 0 1.0074 1 27785 27785 1.1098 0.096179 1 4614 2057 3068 3078 5151 5151 -0.15325927982735266 EKEKQEFL 8 Unmodified _EKEKQEFL_ 0 0 0 ENST00000574828.1_1_17:80584850-80606216:-|nuORF;WDR45B|p.S282Pfs*56|1|0.29|ENSG00000141580|chr17:82616608-82616608|A/-|frameshift_variant;ENSG00000141580|ENST00000392325|WDR45B;ENST00000583470.1_1_17:30439414-30439573:-|nuORF ENST00000574828.1_1_17:80584850-80606216:-|nuORF ENST00000574828.1_1_17:80584850-80606216:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.18878173828125 3 350.853718 1049.53933 2.1274 0.00074642 -1.2482 -0.00043793 0.87924 0.00030848 350.85326843958217 13.47 0.17247 13.713 13.618 13.791 0.24346 32 18 2 0 0 0 0.60101 1 5858 5858 13.906 3.1065 1 686010 4615 3274 3069 3079 5152 5152 0.016537328607682866 EKELRDML 8 Unmodified _EKELRDML_ 0 0 0 REV__nc|ENSG00000156983|P55201-4|BRPF1 REV__nc|ENSG00000156983|P55201-4|BRPF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.1829833984375 3 345.18307 1032.52738 2.2621 0.00078082 -1.6323 -0.00056344 0.62977 0.00021739 345.1821365584213 14.33 0.12259 14.637 14.56 14.683 0.3069 8 5 2 0 0 0 0.65723 1 6502 6502 6.7232 0 1 1999800 + 4616 12790 3070 3080 5153 5153 0.012417928459399263 EKERRKMWMVF 11 Unmodified _EKERRKMWMVF_ 0 0 0 REV__nc|ENSG00000179242|P55283-2|CDH4 REV__nc|ENSG00000179242|P55283-2|CDH4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.9351806640625 3 513.935613 1538.78501 NaN NaN NaN NaN NaN NaN NaN 62.081 1 62.812 62.312 63.312 0.73077 0 0 0 1.0082 1 28882 28882 0.094841 0 1 + 4617 13791 3071 3081 5154 5154 0.037167864474213275 EKFDKKRFRYI 11 Unmodified _EKFDKKRFRYI_ 0 0 0 ENSG00000085433|ENST00000369962|WDR47;nc|ENSG00000085433|O94967-3|WDR47;nc|ENSG00000085433|O94967-4|WDR47 ENSG00000085433|ENST00000369962|WDR47 ENSG00000085433|ENST00000369962|WDR47 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 765.4342041015625 2 765.432993 1528.85143 NaN NaN NaN NaN NaN NaN NaN 61.019 1 61.759 61.259 62.259 0.7396 0 0 0 1.008 1 28242 28242 0.35063 0 1 4618 968 3072 3082 5155 5155 0.10816061605373761 EKFLLLHAL 9 Unmodified _EKFLLLHAL_ 0 0 0 REV__nc|ENSG00000156970|O60566-3|BUB1B REV__nc|ENSG00000156970|O60566-3|BUB1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.3345336914062 2 542.331685 1082.64882 3.6031 0.0019541 0.78326 0.00042479 4.3864 0.0023789 542.3319363462872 44.816 0.19454 45.466 45.346 45.541 0.64999 14 6 3 0 0 0 0.59776 1 20558 20558 10.824 2.9138 1 586420 + 4619 12789 3073 3083 5156 5156 0.11079783270747612 EKFLLLHAL 9 Unmodified _EKFLLLHAL_ 0 0 0 REV__nc|ENSG00000156970|O60566-3|BUB1B REV__nc|ENSG00000156970|O60566-3|BUB1B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 542.331685 1082.64882 3.2327 0.0017532 -0.078112 -4.2363E-05 3.1545 0.0017108 542.3315477267112 45.495 0.18329 45.762 45.62 45.803 0.26768 0.14829 -0.00049783 NaN 10.824 9 5 2 NaN NaN NaN NaN 0 NaN NaN 0 694860 + 4620 12789 3073 3083 0.11079783270747612 EKFLLLHAL 9 Unmodified _EKFLLLHAL_ 0 0 0 REV__nc|ENSG00000156970|O60566-3|BUB1B REV__nc|ENSG00000156970|O60566-3|BUB1B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 542.331685 1082.64882 3.6031 0.0019541 0.78326 0.00042479 4.3864 0.0023789 542.3319363462872 44.816 0.19454 45.466 45.346 45.541 0.64999 -0.14829 0.00043647 NaN 10.824 14 6 3 NaN NaN NaN NaN 0 NaN NaN 0 586420 + 4621 12789 3073 3083 0.11079783270747612 EKFRQKYWNKL 11 Unmodified _EKFRQKYWNKL_ 0 0 0 ENSG00000157881|ENST00000378466|PANK4 ENSG00000157881|ENST00000378466|PANK4 ENSG00000157881|ENST00000378466|PANK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.33984375 3 513.952537 1538.83578 NaN NaN NaN NaN NaN NaN NaN 66.622 1 66.622 66.122 67.122 0 0 0 0 1.0079 1 31860 31860 0.50596 0.051438 1 4622 3966 3074 3084 5157 5157 0.08791775088320719 EKFSKTKKS 9 Unmodified _EKFSKTKKS_ 0 0 0 nc|ENSG00000084093|Q13127-4|REST;ENSG00000084093|ENST00000309042|REST nc|ENSG00000084093|Q13127-4|REST nc|ENSG00000084093|Q13127-4|REST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 361.5465087890625 3 361.544996 1081.61316 2.8803 0.0010413 1.0919 0.00039476 3.9721 0.0014361 361.5453737709528 12.495 0.11782 13.138 13.092 13.21 0.64272 5 3 2 0 0 0 1.1703 1 5633 5633 1.1933 0 1 9603200 4623 952 3075 3085 5158 5158 0.0756170102310989 EKGCEECEYSK 11 Unmodified _EKGCEECEYSK_ 0 0 0 REV__ENSG00000141040|ENST00000395825|ZNF287 REV__ENSG00000141040|ENST00000395825|ZNF287 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 652.7623901367188 2 652.760303 1303.50605 NaN NaN NaN NaN NaN NaN NaN 86.154 1 86.184 85.684 86.684 0.030289 0 0 0 1.0073 1 43272 43272 1.1933 0.59184 1 + 4624 12276 3076 3086 5159 5159 -0.13356005035780072 EKGRRWSYRRR 11 Unmodified _EKGRRWSYRRR_ 0 0 0 REV__ENST00000474612.1_1_6:32163881-32164117:-|nuORF REV__ENST00000474612.1_1_6:32163881-32164117:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 775.4300537109375 2 775.432181 1548.84981 NaN NaN NaN NaN NaN NaN NaN 87.484 1 87.484 86.984 87.984 0 0 0 0 1.0073 1 45128 45128 1.1933 0 1 + 4625 16638 3077 3087 5160 5160 0.0973386535993086 EKICIKIKHL 10 Unmodified _EKICIKIKHL_ 0 0 0 REV__ENSG00000103657|ENST00000443617|HERC1 REV__ENSG00000103657|ENST00000443617|HERC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 409.2571716308594 3 408.921409 1223.7424 2.3498 0.0009609 0.88677 0.00036262 3.2366 0.0013235 409.2561551349892 100.06 0.1089 100.06 100.01 100.12 0 13 7 2 0 0 0 0.93584 1 55155 55155 1.7423 0.96574 1 5958000 + 4626 10975 3078 3088 5161 5161 0.13947759381539981 EKICIKIKHL 10 Unmodified _EKICIKIKHL_ 0 0 0 REV__ENSG00000103657|ENST00000443617|HERC1 REV__ENSG00000103657|ENST00000443617|HERC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 408.9234619140625 3 408.921409 1223.7424 3.8057 0.0015562 0.85881 0.00035119 4.6645 0.0019074 408.92171762557075 99.926 0.12872 100.23 100.13 100.26 0.30835 16 5 4 0 0 0 0.93584 1 46190 46190 1.7423 0.96574 1 10670000 + 4627 10975 3078 3088 5162 5162 0.13947759381539981 EKICIKIKHL 10 Unmodified _EKICIKIKHL_ 0 0 0 REV__ENSG00000103657|ENST00000443617|HERC1 REV__ENSG00000103657|ENST00000443617|HERC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 408.9228515625 3 408.921409 1223.7424 3.1731 0.0012976 1.5357 0.00062799 4.7088 0.0019255 408.9219445022067 99.79 0.14926 100.39 100.29 100.44 0.59717 19 7 4 0 0 0 0.93584 1 46164 46164 1.7423 0 1 9757900 + 4628 10975 3078 3088 5163 5163 0.13947759381539981 EKIKLKKKKKV 11 Unmodified _EKIKLKKKKKV_ 0 0 0 ENST00000282964.5_1_21:21112145-21112373:+|nuORF ENST00000282964.5_1_21:21112145-21112373:+|nuORF ENST00000282964.5_1_21:21112145-21112373:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.484130859375 2 685.484497 1368.95444 NaN NaN NaN NaN NaN NaN NaN 88.63 1 88.63 88.13 89.13 0 0 0 0 1.008 1 46042 46042 0.35063 0 1 4629 6703 3079 3089 5164 5164 0.2847217406394975 EKIRHLLKRKR 11 Unmodified _EKIRHLLKRKR_ 0 0 0 ENST00000574110.5_1_19:30499934-30499991:+|nuORF ENST00000574110.5_1_19:30499934-30499991:+|nuORF ENST00000574110.5_1_19:30499934-30499991:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.3497009277344 3 492.991438 1475.95248 NaN NaN NaN NaN NaN NaN NaN 89.766 1 89.831 89.331 90.331 0.064346 0 0 0 1.0079 1 46074 46074 0.50596 0.41111 1 4630 9112 3080 3090 5165 5165 0.2335455809868563 EKIRLLLRKHR 11 Unmodified _EKIRLLLRKHR_ 0 0 0 nc|ENSG00000165066|A6NJ46-2|NKX6-3;ENSG00000165066|ENST00000518699|NKX6-3 nc|ENSG00000165066|A6NJ46-2|NKX6-3 nc|ENSG00000165066|A6NJ46-2|NKX6-3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 731.476318359375 2 731.478069 1460.94158 NaN NaN NaN NaN NaN NaN NaN 70.33 1 70.33 69.83 70.83 0 0 0 0 1.008 1 34109 34109 0.35063 0.043601 1 4631 9729 3081 3091 5166 5166 0.2295515572441218 EKIRLLLRKHR 11 Unmodified _EKIRLLLRKHR_ 0 0 0 nc|ENSG00000165066|A6NJ46-2|NKX6-3;ENSG00000165066|ENST00000518699|NKX6-3 nc|ENSG00000165066|A6NJ46-2|NKX6-3 nc|ENSG00000165066|A6NJ46-2|NKX6-3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 731.4758911132812 2 731.478069 1460.94158 NaN NaN NaN NaN NaN NaN NaN 65.261 1 65.97 65.47 66.47 0.70891 0 0 0 1.008 1 30843 30843 0.35063 0.043601 1 4632 9729 3081 3091 5167 5167 0.2295515572441218 EKKEISHKPDE 11 Unmodified _EKKEISHKPDE_ 0 0 0 ENSG00000145700|ENST00000506364|ANKRD31 ENSG00000145700|ENST00000506364|ANKRD31 ENSG00000145700|ENST00000506364|ANKRD31 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.3457641601562 2 670.346249 1338.67794 NaN NaN NaN NaN NaN NaN NaN 76.344 1 76.968 76.468 77.468 0.62397 0 0 0 0.97845 1 36995 36995 8.7454 0.58988 1 4633 3480 3082 3092 5168 5168 0.02215231038417187 EKKEWRRRSR 10 Unmodified _EKKEWRRRSR_ 0 0 0 REV__ENST00000426911.2_1_X:136058956-136065632:-|nuORF REV__ENST00000426911.2_1_X:136058956-136065632:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 715.90673828125 2 715.908008 1429.80146 NaN NaN NaN NaN NaN NaN NaN 14.979 1 14.979 14.479 15.479 0 0 0 0 1.0016 1 6611 6611 0.35063 0 1 + 4634 16222 3083 3093 5169 5169 0.10375371720056137 EKKIKKEQIKE 11 Unmodified _EKKIKKEQIKE_ 0 0 0 REV__ENST00000483417.1_1_19:3575543-3576359:+|nuORF REV__ENST00000483417.1_1_19:3575543-3576359:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 700.9296264648438 2 700.927209 1399.83986 NaN NaN NaN NaN NaN NaN NaN 81.129 1 81.129 80.629 81.629 0 0 0 0 1.0059 1 40392 40392 2.9952 0.49676 1 + 4635 10420 3084 3094 5170 5170 0.15593819791365604 EKKIKVIL 8 Unmodified _EKKIKVIL_ 0 0 0 ENSG00000162434|ENST00000342505|JAK1;JAK1|p.L722Wfs*49|1|0.27|ENSG00000162434|chr1:64844841-64844841|G/-|frameshift_variant ENSG00000162434|ENST00000342505|JAK1 ENSG00000162434|ENST00000342505|JAK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.83831787109375 2 485.836603 969.658653 NaN NaN NaN NaN NaN NaN NaN 26.073 1 26.073 25.573 26.573 0 0 0 0 0.0089401 1 11721 11721 103.35 28.425 1 4636 4139 3085 3095 5171 5171 0.1726097127615276 EKKIKVIL 8 Unmodified _EKKIKVIL_ 0 0 0 ENSG00000162434|ENST00000342505|JAK1;JAK1|p.L722Wfs*49|1|0.27|ENSG00000162434|chr1:64844841-64844841|G/-|frameshift_variant ENSG00000162434|ENST00000342505|JAK1 ENSG00000162434|ENST00000342505|JAK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.83819580078125 2 485.836603 969.658653 2.9649 0.0014405 0.077563 3.7683E-05 3.0424 0.0014781 485.83655126104475 25.192 0.26138 25.955 25.829 26.09 0.76356 48 22 3 0 0 0 0.051348 2 11325 11276;11325 65.235 6.5562 1 1357400 4637 4139 3085 3095 5172;5173 5173 0.1726097127615276 EKKIKVIL 8 Unmodified _EKKIKVIL_ 0 0 0 ENSG00000162434|ENST00000342505|JAK1;JAK1|p.L722Wfs*49|1|0.27|ENSG00000162434|chr1:64844841-64844841|G/-|frameshift_variant ENSG00000162434|ENST00000342505|JAK1 ENSG00000162434|ENST00000342505|JAK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.83758544921875 2 485.836603 969.658653 3.2072 0.0015582 0.038963 1.893E-05 3.2461 0.0015771 485.83653403056235 25.582 0.2514 25.85 25.729 25.98 0.26777 62 25 3 0 0 0 0.0096139 2 11624 11581;11624 103.35 28.425 1 1781100 4638 4139 3085 3095 5174;5175 5175 0.1726097127615276 EKKIKVIL 8 Unmodified _EKKIKVIL_ 0 0 0 ENSG00000162434|ENST00000342505|JAK1;JAK1|p.L722Wfs*49|1|0.27|ENSG00000162434|chr1:64844841-64844841|G/-|frameshift_variant ENSG00000162434|ENST00000342505|JAK1 ENSG00000162434|ENST00000342505|JAK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.83831787109375 2 485.836603 969.658653 3.1179 0.0015148 -0.19504 -9.4757E-05 2.9228 0.00142 485.83647585447613 25.237 0.25087 25.866 25.757 26.007 0.62915 65 39 2 0 0 0 0.025316 2 11566 11522;11566 82.529 17.294 1 3017200 4639 4139 3085 3095 5176;5177 5177 0.1726097127615276 EKKIKVIL 8 Unmodified _EKKIKVIL_ 0 0 0 ENSG00000162434|ENST00000342505|JAK1;JAK1|p.L722Wfs*49|1|0.27|ENSG00000162434|chr1:64844841-64844841|G/-|frameshift_variant ENSG00000162434|ENST00000342505|JAK1 ENSG00000162434|ENST00000342505|JAK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.2274475097656 3 324.226827 969.658653 2.112 0.00068478 0.036296 1.1768E-05 2.1483 0.00069654 324.2268910463735 25.221 0.23451 25.85 25.752 25.986 0.62915 69 38 2 0 0 0 0.3435 1 11559 11559 26.268 0 1 3297900 4640 4139 3085 3095 5178 5178 0.1726097127615276 EKKKARLEPR 10 Unmodified _EKKKARLEPR_ 0 0 0 ENST00000602101.6_1_19:15568751-15575169:-|nuORF;nc|ENSG00000105122|Q86YV0-2|RASAL3;ENSG00000105122|ENST00000343625|RASAL3 ENST00000602101.6_1_19:15568751-15575169:-|nuORF ENST00000602101.6_1_19:15568751-15575169:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 418.9270935058594 3 418.926211 1253.7568 3.775 0.0015814 -1.6079 -0.00067361 2.167 0.00090782 418.9254336355038 97.296 0.25465 97.585 97.406 97.66 0.28924 17 11 3 0 0 0 0.93726 1 44701 44701 1.4551 0.24029 1 1037900 4641 1469 3086 3096 5179 5179 0.1400754785402114 EKKKARLEPR 10 Unmodified _EKKKARLEPR_ 0 0 0 ENST00000602101.6_1_19:15568751-15575169:-|nuORF;nc|ENSG00000105122|Q86YV0-2|RASAL3;ENSG00000105122|ENST00000343625|RASAL3 ENST00000602101.6_1_19:15568751-15575169:-|nuORF ENST00000602101.6_1_19:15568751-15575169:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 418.926211 1253.7568 3.2103 0.0013449 -1.1899 -0.00049846 2.0205 0.00084644 418.9255784445039 96.824 0.35414 97.426 97.267 97.621 0.6019 -0.079538 0.00014909 NaN 1.4551 32 15 3 NaN NaN NaN NaN 0 NaN NaN 0 990570 4642 1469 3086 3096 0.1400754785402114 EKKKFLVFLTG 11 Unmodified _EKKKFLVFLTG_ 0 0 0 ENSG00000138646|ENST00000264350|HERC5 ENSG00000138646|ENST00000264350|HERC5 ENSG00000138646|ENST00000264350|HERC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.26910400390625 3 437.267463 1308.78056 2.9505 0.0012902 1.1872 0.00051914 4.1378 0.0018093 437.60226328809813 51.807 0.78082 51.807 51.266 52.047 0 107 50 3 0 0 0 0.89065 1 23644 23644 2.8433 1.5136 1 3239400 4643 3107 3087 3097 5180 5180 0.1385196856786024 EKKKKDRFYR 10 Unmodified _EKKKKDRFYR_ 0 0 0 ENST00000533568.5_1_11:77069900-77103583:-|nuORF;ENSG00000149269|ENST00000356341|PAK1;nc|ENSG00000149269|Q13153-2|PAK1 ENST00000533568.5_1_11:77069900-77103583:-|nuORF ENST00000533568.5_1_11:77069900-77103583:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.60565185546875 3 466.605249 1396.79392 NaN NaN NaN NaN NaN NaN NaN 69.654 1 69.654 69.154 70.154 0 0 0 0 0.99774 1 33671 33671 1.7423 0.41263 1 4644 3637 3088 3098 5181 5181 0.11139219399797184 EKKKKERKKLR 11 Unmodified _EKKKKERKKLR_ 0 0 0 REV__ENST00000575042.1_1_16:3493766-3500111:+|nuORF REV__ENST00000575042.1_1_16:3493766-3500111:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.1265563964844 3 490.991215 1469.95182 NaN NaN NaN NaN NaN NaN NaN 68.741 1 68.741 68.241 69.241 0 0 0 0 1.0062 1 33115 33115 2.6312 2.1253 1 + 4645 17471 3089 3099 5182 5182 0.23563718659011101 EKKKKKKDRKK 11 Unmodified _EKKKKKKDRKK_ 0 0 0 ENSG00000138433|ENST00000342016|CIR1 ENSG00000138433|ENST00000342016|CIR1 ENSG00000138433|ENST00000342016|CIR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 722.47802734375 2 722.477734 1442.94092 NaN NaN NaN NaN NaN NaN NaN 62.252 1 62.983 62.483 63.483 0.73077 0 0 0 1.008 1 28993 28993 0.35063 0 1 4646 3090 3090 3100 5183 5183 0.23716316284708228 EKKKKKKKFR 10 Unmodified _EKKKKKKKFR_ 0 0 0 REV__ENST00000341776.6_1_6:15521185-15521434:+|nuORF REV__ENST00000341776.6_1_6:15521185-15521434:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.0438537597656 3 449.969751 1346.88742 NaN NaN NaN NaN NaN NaN NaN 69.364 1 70.067 69.567 70.567 0.70302 0 0 0 1.0001 1 33194 33194 1.5923 1.4974 1 + 4647 15467 3091 3101 5184 5184 0.22785563572847423 EKKKKKYKRPQ 11 Unmodified _EKKKKKYKRPQ_ 0 0 0 REV__nc|ENSG00000170004|Q12873-2|CHD3 REV__nc|ENSG00000170004|Q12873-2|CHD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.3036804199219 3 487.640182 1459.89872 NaN NaN NaN NaN NaN NaN NaN 63.046 1 63.768 63.268 64.268 0.72236 0 0 0 1.0079 1 29495 29495 0.50596 0.051438 1 + 4648 13417 3092 3102 5185 5185 0.1871634087633538 EKKKKKYKRPQ 11 Unmodified _EKKKKKYKRPQ_ 0 0 0 REV__nc|ENSG00000170004|Q12873-2|CHD3 REV__nc|ENSG00000170004|Q12873-2|CHD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.3215637207031 3 487.640182 1459.89872 NaN NaN NaN NaN NaN NaN NaN 69.019 1 69.721 69.221 70.221 0.70218 0 0 0 1.0073 1 32960 32960 1.2148 0 1 + 4649 13417 3092 3102 5186 5186 0.1871634087633538 EKKKKVKKIV 10 Unmodified _EKKKKVKKIV_ 0 0 0 REV__nc|ENSG00000167525|Q8NCQ7-2|PROCA1 REV__nc|ENSG00000167525|Q8NCQ7-2|PROCA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.8536987304688 2 614.42919 1226.84383 NaN NaN NaN NaN NaN NaN NaN 86.098 1 86.098 85.598 86.598 0 0 0 0 1.0015 1 44039 44039 0.45834 0.057624 1 + 4650 13289 3093 3103 5187 5187 0.23947954075742928 EKKKLLIFL 9 Unmodified _EKKKLLIFL_ 0 0 0 ENST00000518096.1_1_8:30209440-30209518:+|nuORF ENST00000518096.1_1_8:30209440-30209518:+|nuORF ENST00000518096.1_1_8:30209440-30209518:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.3289794921875 2 566.378635 1130.74272 NaN NaN NaN NaN NaN NaN NaN 94.159 1 94.245 93.745 94.745 0.086212 0 0 0 0.90511 1 49470 49470 2.3027 0.24298 1 4651 8606 3094 3104 5188 5188 0.18257502373035095 EKKKVRKIKKK 11 Unmodified _EKKKVRKIKKK_ 0 0 0 REV__ENSG00000206530|ENST00000393845|CFAP44 REV__ENSG00000206530|ENST00000393845|CFAP44 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 706.992919921875 2 706.99302 1411.97149 NaN NaN NaN NaN NaN NaN NaN 63.041 1 63.763 63.263 64.263 0.72236 0 0 0 1.008 1 29492 29492 0.30703 0 1 + 4652 14477 3095 3105 5189 5189 0.28198094669755847 EKKLIKQKH 9 Unmodified _EKKLIKQKH_ 0 0 0 REV__nc|ENSG00000229089|Q5CZ79|ANKRD20A8P REV__nc|ENSG00000229089|Q5CZ79|ANKRD20A8P MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 576.3700561523438 2 576.36659 1150.71863 NaN NaN NaN NaN NaN NaN NaN 33.138 1 33.138 32.638 33.638 0 0 0 0 0.90699 1 15009 15009 1.8442 0 1 + 4653 16272 3096 3106 5190 5190 0.14929661939368088 EKKLIKQKH 9 Unmodified _EKKLIKQKH_ 0 0 0 REV__nc|ENSG00000229089|Q5CZ79|ANKRD20A8P REV__nc|ENSG00000229089|Q5CZ79|ANKRD20A8P MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 576.367919921875 2 576.36659 1150.71863 NaN NaN NaN NaN NaN NaN NaN 36.007 1 36.007 35.507 36.507 0 0 0 0 0.90699 1 16342 16342 1.8442 0 1 + 4654 16272 3096 3106 5191 5191 0.14929661939368088 EKKPIRRRPRA 11 Unmodified _EKKPIRRRPRA_ 0 0 0 ENSG00000164484|ENST00000296978|TMEM200A ENSG00000164484|ENST00000296978|TMEM200A ENSG00000164484|ENST00000296978|TMEM200A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.67919921875 3 469.632021 1405.87423 NaN NaN NaN NaN NaN NaN NaN 61.309 1 62.049 61.549 62.549 0.7396 0 0 0 1.0072 1 28409 28409 1.3296 0.11481 1 4655 4319 3097 3107 5192 5192 0.18753125513489977 EKKPSPIKDSS 11 Unmodified _EKKPSPIKDSS_ 0 0 0 ENSG00000137628|ENST00000393743|DDX60 ENSG00000137628|ENST00000393743|DDX60 ENSG00000137628|ENST00000393743|DDX60 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 608.3325805664062 2 608.33261 1214.65067 NaN NaN NaN NaN NaN NaN NaN 25.835 1 25.835 25.335 26.335 0 0 0 0 1.0057 1 11604 11604 3.2813 0 1 4656 3030 3098 3108 5193 5193 0.051927474980629995 EKKRMAMAM 9 Unmodified _EKKRMAMAM_ 0 0 0 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.275390625 2 548.277215 1094.53988 NaN NaN NaN NaN NaN NaN NaN 12.796 1 13.103 12.603 13.603 0.30727 0 0 0 0.90611 1 5773 5773 2.0598 0 1 4657 2481 3099 3109 5194 5194 -0.003612102870420131 EKKRYLWFYRF 11 Unmodified _EKKRYLWFYRF_ 0 0 0 nc|ENSG00000139144|O75747-2|PIK3C2G;ENSG00000139144|ENST00000538779|PIK3C2G nc|ENSG00000139144|O75747-2|PIK3C2G nc|ENSG00000139144|O75747-2|PIK3C2G MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 818.44482421875 2 818.44336 1634.87217 NaN NaN NaN NaN NaN NaN NaN 81.795 1 81.795 81.295 82.295 0 0 0 0 1.008 1 40783 40783 0.35063 0.35063 1 4658 3129 3100 3110 5195 5195 0.08012651985018238 EKKSWYYEKKS 11 Unmodified _EKKSWYYEKKS_ 0 0 0 ENSG00000198734|ENST00000367797|F5 ENSG00000198734|ENST00000367797|F5 ENSG00000198734|ENST00000367797|F5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.87725830078125 3 492.589153 1474.74563 NaN NaN NaN NaN NaN NaN NaN 89.704 1 89.768 89.268 90.268 0.064346 0 0 0 1.0059 1 46029 46029 1.2148 0.10508 1 4659 5923 3101 3111 5196 5196 0.02724680969208748 EKKTKKNKKKK 11 Unmodified _EKKTKKNKKKK_ 0 0 0 REV__ENSG00000189134|ENST00000343684|NKAPL REV__ENSG00000189134|ENST00000343684|NKAPL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 694.4598388671875 2 694.45901 1386.90347 NaN NaN NaN NaN NaN NaN NaN 94.138 1 94.398 93.898 94.898 0.25975 0 0 0 1.008 1 43261 43261 0.35063 0 1 + 4660 14174 3102 3112 5197 5197 0.22549225019088226 EKKTPYEI 8 Unmodified _EKKTPYEI_ 0 0 0 REV__nc|nan|Q8ND61-2|C3orf20 REV__nc|nan|Q8ND61-2|C3orf20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.5194396972656 3 336.518447 1006.53351 1.8976 0.00063858 0.87675 0.00029504 2.7744 0.00093362 336.5187365579522 13.185 0.53669 13.492 13.216 13.752 0.30727 119 33 5 0 0 0 0.11358 2 5938 5891;5938 43.772 4.0085 1 6378800 + 4661 11855 3103 3113 5198;5199 5199 0.030506343490856125 EKKTPYEI 8 Unmodified _EKKTPYEI_ 0 0 0 REV__nc|nan|Q8ND61-2|C3orf20 REV__nc|nan|Q8ND61-2|C3orf20 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 336.518447 1006.53351 2.0213 0.0006802 0.44777 0.00015068 2.4691 0.00083088 336.5185821087262 13.201 0.25346 13.444 13.32 13.573 0.24346 -0.033948 -0.00024923 NaN 43.772 60 19 4 NaN NaN NaN NaN 0 NaN NaN 0 2467200 + 4662 11855 3103 3113 0.030506343490856125 EKLAKITVEPV 11 Unmodified _EKLAKITVEPV_ 0 0 0 REV__nc|ENSG00000257923|P39880-9|CUX1 REV__nc|ENSG00000257923|P39880-9|CUX1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.371337890625 2 613.871371 1225.72819 2.6806 0.0016456 -1.1861 -0.00072813 1.4945 0.00091742 613.8725912006028 79.9 0.067688 80.22 80.194 80.262 0.31998 5 3 2 0 0 0 0.13295 1 39055 39055 8.7454 3.8484 1 1240700 + 4663 18152 3104 3114 5200 5200 0.12435385434218915 EKLESPSI 8 Unmodified _EKLESPSI_ 0 0 0 REV__ENST00000463846.5_1_1:44461379-44461848:+|nuORF REV__ENST00000463846.5_1_1:44461379-44461848:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.7464599609375 2 451.745108 901.475663 2.8295 0.0012782 1.2567 0.00056771 4.0862 0.0018459 451.745620112448 49.099 0.39215 49.099 48.859 49.251 0 31 19 2 0 0 0 0.56084 1 22448 22448 16.942 1.0951 1 543730 + 4664 16521 3105 3115 5201 5201 0.020983724236884882 EKLESPSI 8 Unmodified _EKLESPSI_ 0 0 0 REV__ENST00000463846.5_1_1:44461379-44461848:+|nuORF REV__ENST00000463846.5_1_1:44461379-44461848:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 451.745108 901.475663 2.8295 0.0012782 1.2567 0.00056771 4.0862 0.0018459 451.745620112448 49.099 0.39215 49.099 48.859 49.251 0 0.13286 0.00016196 NaN 16.942 31 19 2 NaN NaN NaN NaN 0 NaN NaN 0 543730 + 4665 16521 3105 3115 0.020983724236884882 EKLESPSI 8 Unmodified _EKLESPSI_ 0 0 0 REV__ENST00000463846.5_1_1:44461379-44461848:+|nuORF REV__ENST00000463846.5_1_1:44461379-44461848:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 451.745108 901.475663 2.7252 0.0012311 0.72954 0.00032957 3.4548 0.0015607 451.7454904060907 47.927 0.58799 48.756 48.544 49.132 0.82915 -0.20962 -0.00031432 NaN 16.942 40 26 2 NaN NaN NaN NaN 0 NaN NaN 0 348070 + 4666 16521 3105 3115 0.020983724236884882 EKLESPSI 8 Unmodified _EKLESPSI_ 0 0 0 REV__ENST00000463846.5_1_1:44461379-44461848:+|nuORF REV__ENST00000463846.5_1_1:44461379-44461848:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 451.745108 901.475663 3.1712 0.0014326 0.95068 0.00042946 4.1219 0.001862 451.7455317915377 48.256 0.37708 48.909 48.729 49.106 0.65356 -0.056642 -0.00011453 NaN 16.942 23 14 2 NaN NaN NaN NaN 0 NaN NaN 0 329720 + 4667 16521 3105 3115 0.020983724236884882 EKLEVREDPSS 11 Unmodified _EKLEVREDPSS_ 0 0 0 nc|ENSG00000184014|Q6IQ26-2|DENND5A;ENSG00000184014|ENST00000328194|DENND5A nc|ENSG00000184014|Q6IQ26-2|DENND5A nc|ENSG00000184014|Q6IQ26-2|DENND5A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 644.8206787109375 2 644.822606 1287.63066 NaN NaN NaN NaN NaN NaN NaN 26.975 1 27.754 27.254 28.254 0.7787 0 0 0 1.0057 1 12122 12122 3.2813 0.54611 1 4668 5418 3106 3116 5202 5202 -0.0016504823254308576 EKLFRPTN 8 Unmodified _EKLFRPTN_ 0 0 0 REV__nc|ENSG00000253731|Q9Y5G7-2|PCDHGA6 REV__nc|ENSG00000253731|Q9Y5G7-2|PCDHGA6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.7790832519531 2 502.779816 1003.54508 NaN NaN NaN NaN NaN NaN NaN 60.554 1 60.809 60.309 61.309 0.25578 0 0 0 0.69067 1 27728 27728 22.736 0 1 + 4669 14663 3107 3117 5203 5203 0.043448761630770605 EKLHKDRLR 9 Unmodified _EKLHKDRLR_ 0 0 0 REV__nc|ENSG00000060237|Q9H4A3-4|WNK1 REV__nc|ENSG00000060237|Q9H4A3-4|WNK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.8584594726562 2 597.856921 1193.69929 4.0643 0.0024299 -0.53944 -0.00032251 3.5248 0.0021073 597.8564602953894 88.979 0.97191 89.23 88.792 89.763 0.25118 64 42 3 0 0 0 1.2169 1 41132 41132 0.45834 0 1 853210 + 4670 10395 3108 3118 5204 5204 0.11018705648439209 EKLHKDRLR 9 Unmodified _EKLHKDRLR_ 0 0 0 REV__nc|ENSG00000060237|Q9H4A3-4|WNK1 REV__nc|ENSG00000060237|Q9H4A3-4|WNK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.8580322265625 2 597.856921 1193.69929 4.1885 0.0025041 -0.64247 -0.00038411 3.5461 0.00212 597.8562632215801 88.623 0.81973 89.301 89.016 89.836 0.67818 65 35 3 0 0 0 1.2169 1 40715 40715 0.45834 0 1 741520 + 4671 10395 3108 3118 5205 5205 0.11018705648439209 EKLHLYKKGRR 11 Unmodified _EKLHLYKKGRR_ 0 0 0 ENST00000515003.1_1_5:98106807-98108385:-|nuORF ENST00000515003.1_1_5:98106807-98108385:-|nuORF ENST00000515003.1_1_5:98106807-98108385:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 476.9593505859375 3 476.624643 1426.8521 1.7126 0.00081626 -0.69595 -0.00033171 1.0166 0.00048455 476.62421038855376 101.16 0.097717 101.22 101.15 101.25 0.059723 10 4 3 0 0 0 0.91359 1 54927 54927 0.40827 0 1 10414000 4672 8588 3109 3119 5206 5206 0.15574901045033585 EKLHLYKKGRR 11 Unmodified _EKLHLYKKGRR_ 0 0 0 ENST00000515003.1_1_5:98106807-98108385:-|nuORF ENST00000515003.1_1_5:98106807-98108385:-|nuORF ENST00000515003.1_1_5:98106807-98108385:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 476.624643 1426.8521 1.7126 0.00081626 -0.69595 -0.00033171 1.0166 0.00048455 476.62421038855376 101.16 0.097717 101.22 101.15 101.25 0.059723 -0.15908 0.00088806 NaN 0.40827 10 4 3 NaN NaN NaN NaN 0 NaN NaN 0 10414000 4673 8588 3109 3119 0.15574901045033585 EKLIKKRNVP 10 Unmodified _EKLIKKRNVP_ 0 0 0 ENST00000547020.1_1_12:53877089-53877236:-|nuORF;ENST00000552365.1_1_12:53874968-53878035:-|nuORF;nc|ENSG00000139625|Q12852|MAP3K12;ENSG00000139625|ENST00000547488|MAP3K12 ENST00000547020.1_1_12:53877089-53877236:-|nuORF ENST00000547020.1_1_12:53877089-53877236:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 612.6256103515625 2 612.892972 1223.77139 NaN NaN NaN NaN NaN NaN NaN 73.29 1 73.29 72.79 73.79 0 0 0 0 0.96187 1 35705 35705 13.042 3.6593 1 4674 3155 3110 3120 5207 5207 0.16845620002163741 EKLKGCIQKAF 11 Unmodified _EKLKGCIQKAF_ 0 0 0 nc|ENSG00000103995|O94986-1|CEP152;nc|ENSG00000103995|O94986-2|CEP152;nc|ENSG00000103995|O94986-3|CEP152;ENSG00000103995|ENST00000380950|CEP152 nc|ENSG00000103995|O94986-1|CEP152 nc|ENSG00000103995|O94986-1|CEP152 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.9839477539062 2 632.857741 1263.70093 NaN NaN NaN NaN NaN NaN NaN 89.06 1 89.112 88.612 89.612 0.052155 0 0 0 1.0044 1 45546 45546 4.897 0.56777 1 4675 1419 3111 3121 5208 5208 0.07962578622186811 EKLKRHRPLFH 11 Unmodified _EKLKRHRPLFH_ 0 0 0 REV__ENSG00000188895|ENST00000398532|MSL1 REV__ENSG00000188895|ENST00000398532|MSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 731.4185791015625 2 730.933494 1459.85244 NaN NaN NaN NaN NaN NaN NaN 84.781 1 84.781 84.281 85.281 0 0 0 0 1.008 1 43003 43003 0.30703 0 1 + 4676 14163 3112 3122 5209 5209 0.1409032076492167 EKLLIDIIHFL 11 Unmodified _EKLLIDIIHFL_ 0 0 0 nc|ENSG00000176225|Q86VV8-3|RTTN;ENSG00000176225|ENST00000640769|RTTN;ENST00000583043.5_1_18:67684852-67806940:-|nuORF nc|ENSG00000176225|Q86VV8-3|RTTN nc|ENSG00000176225|Q86VV8-3|RTTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.46099853515625 4 339.20897 1352.80677 2.4594 0.00083425 0.9159 0.00031068 3.3753 0.0011449 339.20919049790405 50.668 1.1449 50.668 49.793 50.938 0 77 56 2 0 0 0 0.91328 1 23195 23195 0.50596 0.09769 1 1315900 4677 5068 3113 3123 5210 5210 0.14448237739316028 EKLLIDIIHFL 11 Unmodified _EKLLIDIIHFL_ 0 0 0 nc|ENSG00000176225|Q86VV8-3|RTTN;ENSG00000176225|ENST00000640769|RTTN;ENST00000583043.5_1_18:67684852-67806940:-|nuORF nc|ENSG00000176225|Q86VV8-3|RTTN nc|ENSG00000176225|Q86VV8-3|RTTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 339.46148681640625 4 339.20897 1352.80677 2.398 0.00081343 0.72544 0.00024608 3.1235 0.0010595 339.2091491307949 49.357 0.66811 50.184 49.782 50.45 0.82705 74 34 3 0 0 0 0.91328 1 22488 22488 0.50596 0.09769 1 399260 4678 5068 3113 3123 5211 5211 0.14448237739316028 EKLLIDIIHFL 11 Unmodified _EKLLIDIIHFL_ 0 0 0 nc|ENSG00000176225|Q86VV8-3|RTTN;ENSG00000176225|ENST00000640769|RTTN;ENST00000583043.5_1_18:67684852-67806940:-|nuORF nc|ENSG00000176225|Q86VV8-3|RTTN nc|ENSG00000176225|Q86VV8-3|RTTN MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 339.20897 1352.80677 2.398 0.00081343 0.72544 0.00024608 3.1235 0.0010595 339.2091491307949 49.357 0.66811 50.184 49.782 50.45 0.82705 0 0 NaN 0.50596 74 34 3 NaN NaN NaN NaN 0 NaN NaN 0 399260 4679 5068 3113 3123 0.14448237739316028 EKLLRPLRELS 11 Unmodified _EKLLRPLRELS_ 0 0 0 ENSG00000188897|ENST00000696174|unknown ENSG00000188897|ENST00000696174|unknown ENSG00000188897|ENST00000696174|unknown MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.9449157714844 3 451.945271 1352.81398 NaN NaN NaN NaN NaN NaN NaN 64.95 1 65.659 65.159 66.159 0.70891 0 0 0 1.0065 1 30631 30631 2.2527 0.92309 1 4680 5689 3114 3124 5212 5212 0.15168970339755106 EKLQKRWDWRW 11 Unmodified _EKLQKRWDWRW_ 0 0 0 nc|ENSG00000166321|Q86X67-4|NUDT13 nc|ENSG00000166321|Q86X67-4|NUDT13 nc|ENSG00000166321|Q86X67-4|NUDT13 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 815.93359375 2 815.933691 1629.85283 NaN NaN NaN NaN NaN NaN NaN 103.24 1 103.55 103.05 104.05 0.31863 0 0 0 1.0082 1 47729 47729 0 0 1 4681 9733 3115 3125 5213 5213 0.06309695694108086 EKLRIKRRG 9 Unmodified _EKLRIKRRG_ 0 0 0 ENST00000544200.5_1_12:6942746-6942943:+|nuORF ENST00000544200.5_1_12:6942746-6942943:+|nuORF ENST00000544200.5_1_12:6942746-6942943:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.3764038085938 2 578.375281 1154.73601 NaN NaN NaN NaN NaN NaN NaN 70.519 1 70.776 70.276 71.276 0.25642 0 0 0 0.90699 1 32297 32297 1.8442 0 1 4682 8832 3116 3126 5214 5214 0.16483002264999413 EKLRKRSLH 9 Unmodified _EKLRKRSLH_ 0 0 0 ENST00000523897.5_1_8:62496079-62555960:-|nuORF ENST00000523897.5_1_8:62496079-62555960:-|nuORF ENST00000523897.5_1_8:62496079-62555960:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.8612060546875 2 583.859464 1165.70437 4.0937 0.0023901 -1.1522 -0.00067271 2.9415 0.0017174 583.8586512834531 94.126 0.77798 94.386 94.114 94.892 0.25975 87 39 3 0 0 0 1.129 1 43251 43251 1.8442 0.19162 1 2074200 4683 8660 3117 3127 5215 5215 0.1281500951106409 EKLRQLQRL 9 Unmodified _EKLRQLQRL_ 0 0 0 REV__ENSG00000137460|ENST00000511601|FHDC1 REV__ENSG00000137460|ENST00000511601|FHDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.247802734375 3 395.247173 1182.71969 2.7472 0.0010858 -0.16079 -6.3552E-05 2.5864 0.0010223 395.2471477272661 15.527 0.89386 15.833 15.455 16.349 0.306 211 100 3 0 0 0 1.129 1 7191 7191 0.96228 0 1 119180 + 4684 12112 3118 3128 5216 5216 0.1356387630826248 EKLSKSRINRL 11 Unmodified _EKLSKSRINRL_ 0 0 0 REV__nc|ENSG00000133030|Q6WCQ1-3|MPRIP REV__nc|ENSG00000133030|Q6WCQ1-3|MPRIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 672.4097290039062 2 672.409518 1342.80448 4.2655 0.0028682 -0.92836 -0.00062424 3.3372 0.0022439 672.4085157670422 91.775 0.37827 92.028 91.768 92.146 0.25254 33 19 2 0 0 0 0.91359 1 42167 42167 0.26902 0 1 715420 + 4685 11919 3119 3129 5217 5217 0.146792020542307 EKLSKSRINRL 11 Unmodified _EKLSKSRINRL_ 0 0 0 REV__nc|ENSG00000133030|Q6WCQ1-3|MPRIP REV__nc|ENSG00000133030|Q6WCQ1-3|MPRIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 672.4119262695312 2 672.409518 1342.80448 4.4057 0.0029624 -0.8687 -0.00058412 3.537 0.0023783 672.4087051503507 93.816 0.67179 94.071 93.791 94.463 0.25497 66 31 3 0 0 0 0.91359 2 43118 43118;43165 0.26902 0 1 1032900 + 4686 11919 3119 3129 5218;5219 5218 0.146792020542307 EKLSKSRINRL 11 Unmodified _EKLSKSRINRL_ 0 0 0 REV__nc|ENSG00000133030|Q6WCQ1-3|MPRIP REV__nc|ENSG00000133030|Q6WCQ1-3|MPRIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 672.4124145507812 2 672.409518 1342.80448 4.4517 0.0029933 -1.2279 -0.00082568 3.2237 0.0021677 672.4084667103627 94.535 0.34785 94.794 94.658 95.006 0.25975 25 18 2 0 0 0 0.91359 1 43432 43432 0.26902 0 1 323160 + 4687 11919 3119 3129 5220 5220 0.146792020542307 EKLSKSRINRL 11 Unmodified _EKLSKSRINRL_ 0 0 0 REV__nc|ENSG00000133030|Q6WCQ1-3|MPRIP REV__nc|ENSG00000133030|Q6WCQ1-3|MPRIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 672.4114379882812 2 672.409518 1342.80448 4.1454 0.0027874 -0.82839 -0.00055702 3.317 0.0022304 672.4088782887255 93.355 0.83585 93.986 93.609 94.445 0.63115 78 39 3 0 0 0 0.91359 2 42971 42971;43072 0.26902 0 1 1635400 + 4688 11919 3119 3129 5221;5222 5221 0.146792020542307 EKLSRARKLDK 11 Unmodified _EKLSRARKLDK_ 0 0 0 nc|ENSG00000151092|Q96IV0-3|NGLY1;nc|ENSG00000151092|Q96IV0-2|NGLY1;ENSG00000151092|ENST00000280700|NGLY1;ENST00000493324.5_1_3:25778798-25824881:-|nuORF;nc|ENSG00000151092|Q96IV0-5|NGLY1 nc|ENSG00000151092|Q96IV0-3|NGLY1 nc|ENSG00000151092|Q96IV0-3|NGLY1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 672.4138793945312 2 672.409518 1342.80448 4.4057 0.0029624 -0.8687 -0.00058412 3.537 0.0023783 672.4087051503507 93.816 0.67179 94.071 93.791 94.463 0.25497 66 31 3 0 0 0 0.91384 1 43212 43212 0.96228 0.96228 1 1032900 4689 3690 3120 3130 5223 5223 0.14679202054207963 EKLVLLSLI 9 Unmodified _EKLVLLSLI_ 0 0 0 REV__ENSG00000184194|ENST00000332582|GPR173 REV__ENSG00000184194|ENST00000332582|GPR173 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.2907104492188 2 514.341718 1026.66888 NaN NaN NaN NaN NaN NaN NaN 67.315 1 68.017 67.517 68.517 0.70218 0 0 0 0.87786 1 31985 31985 6.7232 1.4925 1 + 4690 13960 3121 3131 5224 5224 0.15661534210721584 EKLWDWDMWMR 11 Unmodified _EKLWDWDMWMR_ 0 0 0 ENSG00000085998|ENST00000371984|POMGNT1;nc|ENSG00000085998|Q8WZA1-2|POMGNT1;ENST00000485714.1_1_1:46657733-46659087:-|nuORF;ENST00000396420.7_1_1:46654944-46659087:-|nuORF ENSG00000085998|ENST00000371984|POMGNT1 ENSG00000085998|ENST00000371984|POMGNT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.4249877929688 3 532.575973 1594.70609 NaN NaN NaN NaN NaN NaN NaN 96.759 1 96.759 96.259 97.259 0 0 0 0 1.008 1 52456 52456 0.094841 0.011491 1 4691 978 3122 3132 5225 5225 -0.06747485577534462 EKLYKIRLLQ 10 Unmodified _EKLYKIRLLQ_ 0 0 0 ENST00000466171.1_1_2:118694276-118701638:-|nuORF;ENSG00000125633|ENST00000376300|CCDC93 ENST00000466171.1_1_2:118694276-118701638:-|nuORF ENST00000466171.1_1_2:118694276-118701638:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 652.4056396484375 2 652.408455 1302.80236 NaN NaN NaN NaN NaN NaN NaN 89.491 1 89.555 89.055 90.055 0.064346 0 0 0 1.0003 1 45880 45880 1.4819 0.15237 1 4692 2409 3123 3133 5226 5226 0.16306773316409817 EKMKDVQNQF 10 Unmodified _EKMKDVQNQF_ 0 0 0 REV__nc|ENSG00000102230|Q9Y5K3-2|PCYT1B REV__nc|ENSG00000102230|Q9Y5K3-2|PCYT1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.87744140625 3 422.876417 1265.60742 2.7869 0.0011785 0.40172 0.00016988 3.1887 0.0013484 422.8765382771617 41.472 0.386 41.472 41.307 41.693 0 129 49 3 0 0 0 0.60841 2 18930 18779;18930 14.957 4.6419 1 25871000 + 4693 10925 3124 3134 5227;5228 5228 -0.014757655509129108 EKMKDVQNQF 10 Unmodified _EKMKDVQNQF_ 0 0 0 REV__nc|ENSG00000102230|Q9Y5K3-2|PCYT1B REV__nc|ENSG00000102230|Q9Y5K3-2|PCYT1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.8779602050781 3 422.876417 1265.60742 2.6956 0.0011399 0.48136 0.00020356 3.1769 0.0013435 422.87661097166284 40.32 0.33709 41.12 40.988 41.325 0.80014 81 24 5 0 0 0 0.60841 1 18320 18320 10.899 0.58372 1 24468000 + 4694 10925 3124 3134 5229 5229 -0.014757655509129108 EKPGALWPKV 10 Unmodified _EKPGALWPKV_ 0 0 0 REV__ENST00000518039.1_1_8:22106011-22107622:+|nuORF REV__ENST00000518039.1_1_8:22106011-22107622:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 375.5542907714844 3 375.553603 1123.63898 2.6773 0.0010055 -0.84617 -0.00031778 1.8311 0.00068769 375.5531134581739 45.762 0.54082 45.762 45.571 46.111 0 68 26 5 0 0 0 0.56502 1 21025 21025 18.721 5.6788 1 7846200 + 4695 13351 3125 3135 5230 5230 0.08210595265336451 EKPIVLMKPRE 11 Unmodified _EKPIVLMKPRE_ 0 0 0 ENST00000595700.5_1_19:44242246-44254893:-|nuORF;nc|ENSG00000105771|Q9H0W8-2|SMG9;ENSG00000105771|ENST00000270066|SMG9 ENST00000595700.5_1_19:44242246-44254893:-|nuORF ENST00000595700.5_1_19:44242246-44254893:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 670.3929443359375 2 670.391948 1338.76934 NaN NaN NaN NaN NaN NaN NaN 70.642 1 70.642 70.142 71.142 0 0 0 0 0.99571 1 34307 34307 7.1017 1.3699 1 4696 1529 3126 3136 5231 5231 0.11350823202019455 EKPLLFWEDM 10 Unmodified _EKPLLFWEDM_ 0 0 0 COG1|p.T572Lfs*57|1|0.22|ENSG00000166685|chr17:73201539-73201539|G/-|frameshift_variant;ENSG00000166685|ENST00000299886|COG1 COG1|p.T572Lfs*57|1|0.22|ENSG00000166685|chr17:73201539-73201539|G/-|frameshift_variant COG1|p.T572Lfs*57|1|0.22|ENSG00000166685|chr17:73201539-73201539|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 436.22662353515625 3 436.54953 1306.62676 NaN NaN NaN NaN NaN NaN NaN 64.069 1 64.069 63.569 64.569 0 0 0 0 0.99995 1 30271 30271 1.7423 0 1 4697 201 3127 3137 5232 5232 -0.01428809260005437 EKPRQRLFLH 10 Unmodified _EKPRQRLFLH_ 0 0 0 ENST00000543561.1_1_16:67040205-67043042:+|nuORF ENST00000543561.1_1_16:67040205-67043042:+|nuORF ENST00000543561.1_1_16:67040205-67043042:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.92901611328125 3 441.926322 1322.75714 2.9339 0.0012966 2.0395 0.00090132 4.9735 0.0021979 441.9275233117206 49.41 0.31375 49.671 49.468 49.782 0.26146 25 10 3 0 0 0 0.93503 1 22573 22573 1.9064 0.57673 1 1152600 4698 8827 3128 3138 5233 5233 0.10866967573883812 EKPVVGPI 8 Unmodified _EKPVVGPI_ 0 0 0 REV__ENSG00000198722|ENST00000635942|UNC13B REV__ENSG00000198722|ENST00000635942|UNC13B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 419.75714111328125 2 419.755278 837.496004 3.0427 0.0012772 1.6904 0.00070954 4.733 0.0019867 419.7557700033935 65.335 0.2351 65.583 65.437 65.672 0.24803 20 11 2 0 0 0 0.7471 1 29926 29926 0.79363 0 1 656600 + 4699 14352 3129 3139 5234 5234 0.0707558787414655 EKPVVGPI 8 Unmodified _EKPVVGPI_ 0 0 0 REV__ENSG00000198722|ENST00000635942|UNC13B REV__ENSG00000198722|ENST00000635942|UNC13B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 419.755278 837.496004 3.0427 0.0012772 1.6904 0.00070954 4.733 0.0019867 419.7557700033935 65.335 0.2351 65.583 65.437 65.672 0.24803 0 0 NaN 0.79363 20 11 2 NaN NaN NaN NaN 0 NaN NaN 0 656600 + 4700 14352 3129 3139 0.0707558787414655 EKQERFKWQSR 11 Unmodified _EKQERFKWQSR_ 0 0 0 REV__ENST00000439687.6_1_6:31608034-31608474:-|nuORF REV__ENST00000439687.6_1_6:31608034-31608474:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.9366760253906 3 507.935546 1520.78481 2.754 0.0013988 0.04127 2.0962E-05 2.7952 0.0014198 507.93540130300727 106.02 0.12523 106.02 105.94 106.06 0 9 4 3 0 0 0 0.13295 1 58259 58259 0.094841 0 1 759030 + 4701 16334 3130 3140 5235 5235 0.04524826043439134 EKQERFKWQSR 11 Unmodified _EKQERFKWQSR_ 0 0 0 REV__ENST00000439687.6_1_6:31608034-31608474:-|nuORF REV__ENST00000439687.6_1_6:31608034-31608474:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 507.935546 1520.78481 1.8485 0.00093892 1.4116 0.00071702 3.2601 0.0016559 507.93604305175296 106.13 0.10646 106.18 106.11 106.21 0.04837 0.078558 0.0011447 NaN 0.094841 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1383200 + 4702 16334 3130 3140 0.04524826043439134 EKQIRLIKKAI 11 Unmodified _EKQIRLIKKAI_ 0 0 0 REV__nc|ENSG00000032444|Q8IY17-5|PNPLA6 REV__nc|ENSG00000032444|Q8IY17-5|PNPLA6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 670.5020141601562 2 670.442829 1338.87111 NaN NaN NaN NaN NaN NaN NaN 77.532 1 77.532 77.032 78.032 0 0 0 0 1.0044 1 38030 38030 4.897 1.9018 1 + 4703 10293 3131 3141 5236 5236 0.21522437616113166 EKQKEPFVF 9 Unmodified _EKQKEPFVF_ 0 0 0 nc|ENSG00000020129|Q9UBB6-2|NCDN;ENSG00000020129|ENST00000373243|NCDN nc|ENSG00000020129|Q9UBB6-2|NCDN nc|ENSG00000020129|Q9UBB6-2|NCDN MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 384.58306884765625 3 384.541363 1150.60226 2.7247 0.0010478 0.76209 0.00029305 3.4868 0.0013408 384.8761390057182 32.1 0.30994 32.718 32.573 32.883 0.61831 24 16 2 0 0 0 0.11065 1 14783 14783 2.4985 0 1 202950 4704 451 3132 3142 5237 5237 0.032982986488150345 EKQKPKRRRRR 11 Unmodified _EKQKPKRRRRR_ 0 0 0 REV__ENSG00000132793|ENST00000373257|LPIN3 REV__ENSG00000132793|ENST00000373257|LPIN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 769.484130859375 2 769.484748 1536.95494 NaN NaN NaN NaN NaN NaN NaN 18.569 1 18.569 18.069 19.069 0 0 0 0 1.0082 1 8251 8251 0 0 1 + 4705 11912 3133 3143 5238 5238 0.20794406556365175 EKQYFFKRYYY 11 Unmodified _EKQYFFKRYYY_ 0 0 0 REV__nc|ENSG00000197555|O43166-3|SIPA1L1 REV__nc|ENSG00000197555|O43166-3|SIPA1L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.835693359375 3 545.604915 1633.79291 NaN NaN NaN NaN NaN NaN NaN 61.754 1 61.754 61.254 62.254 0 0 0 0 1.0082 1 28847 28847 0.094841 0.094841 1 + 4706 14287 3134 3144 5239 5239 0.0013696024025193765 EKRAKKQLKL 10 Unmodified _EKRAKKQLKL_ 0 0 0 REV__ENSG00000132613|ENST00000338779|MTSS2 REV__ENSG00000132613|ENST00000338779|MTSS2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 310.9419860839844 4 311.206762 1240.79794 2.0323 0.00063247 -2.1635 -0.0006733 -0.13118 -4.0825E-05 311.45721092842774 50.497 0.29604 50.497 50.312 50.608 0 18 12 2 0 0 0 0.12676 1 23070 23070 0.62683 0.51889 1 282020 + 4707 11900 3135 3145 5240 5240 0.1871730889349692 EKRAKKQLKL 10 Unmodified _EKRAKKQLKL_ 0 0 0 REV__ENSG00000132613|ENST00000338779|MTSS2 REV__ENSG00000132613|ENST00000338779|MTSS2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 311.206762 1240.79794 2.3493 0.00073111 -0.40674 -0.00012658 1.9425 0.00060453 311.4573226262983 49.872 0.145 50.695 50.658 50.803 0.82285 0.098897 0.0012893 NaN 0.62683 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 98399 + 4708 11900 3135 3145 0.1871730889349692 EKRDAISLA 9 Unmodified _EKRDAISLA_ 0 0 0 nc|ENSG00000107282|Q02410-2|APBA1;ENSG00000107282|ENST00000265381|APBA1 nc|ENSG00000107282|Q02410-2|APBA1 nc|ENSG00000107282|Q02410-2|APBA1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.5534362792969 3 334.857463 1001.55056 2.1888 0.00073295 -0.39908 -0.00013363 1.7898 0.00059931 334.8573846420096 14.227 0.083841 14.534 14.492 14.576 0.3069 11 6 3 0 0 0 0.077083 1 6445 6445 24.882 5.2556 1 2302100 4709 1595 3136 3146 5241 5241 0.049845549548990675 EKRDAISLA 9 Unmodified _EKRDAISLA_ 0 0 0 nc|ENSG00000107282|Q02410-2|APBA1;ENSG00000107282|ENST00000265381|APBA1 nc|ENSG00000107282|Q02410-2|APBA1 nc|ENSG00000107282|Q02410-2|APBA1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 334.857463 1001.55056 2.3311 0.00078058 -0.4394 -0.00014714 1.8917 0.00063344 334.8572061226686 14.552 0.13964 14.778 14.674 14.814 0.22622 0.12243 -1.7487E-05 NaN 24.882 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 153410 4710 1595 3136 3146 0.049845549548990675 EKRELYRKRQ 10 Unmodified _EKRELYRKRQ_ 0 0 0 MAP10|p.T965Qfs*18|1|0.17|ENSG00000212916|chr1:232807914-232807914|T/-|frameshift_variant;ENSG00000212916|ENST00000418460|MAP10 MAP10|p.T965Qfs*18|1|0.17|ENSG00000212916|chr1:232807914-232807914|T/-|frameshift_variant MAP10|p.T965Qfs*18|1|0.17|ENSG00000212916|chr1:232807914-232807914|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 703.4075927734375 2 703.404766 1404.79498 NaN NaN NaN NaN NaN NaN NaN 29.382 1 30.171 29.671 30.671 0.78921 0 0 0 1.0001 1 13243 13243 1.6526 0.32309 1 4711 6081 3137 3147 5242 5242 0.10877433768678202 EKREVLKRRFE 11 Unmodified _EKREVLKRRFE_ 0 0 0 ENSG00000137815|ENST00000389629|RTF1 ENSG00000137815|ENST00000389629|RTF1 ENSG00000137815|ENST00000389629|RTF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 745.4315185546875 2 745.433524 1488.85249 NaN NaN NaN NaN NaN NaN NaN 44.048 1 44.048 43.548 44.548 0 0 0 0 1.0072 1 20102 20102 1.3295 0.13619 1 4712 3043 3138 3148 5243 5243 0.1276227597425077 EKRFFLRWPAN 11 Unmodified _EKRFFLRWPAN_ 0 0 0 REV__nc|ENSG00000137474|Q13402-5|MYO7A REV__nc|ENSG00000137474|Q13402-5|MYO7A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 732.3508911132812 2 732.398953 1462.78335 NaN NaN NaN NaN NaN NaN NaN 33.33 1 34.118 33.618 34.618 0.78795 0 0 0 1.0065 1 15082 15082 2.2828 0.19677 1 + 4713 12113 3139 3149 5244 5244 0.07047236745393093 EKRFMRYLERI 11 Unmodified _EKRFMRYLERI_ 0 0 0 REV__ENST00000528393.1_1_11:79699709-79699943:+|nuORF REV__ENST00000528393.1_1_11:79699709-79699943:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 770.5450439453125 2 770.924477 1539.8344 NaN NaN NaN NaN NaN NaN NaN 88.104 1 88.156 87.656 88.656 0.052155 0 0 0 1.008 1 44798 44798 0.35063 0 1 + 4714 17116 3140 3150 5245 5245 0.08607817727920519 EKRHQQIKNF 10 Unmodified _EKRHQQIKNF_ 0 0 0 ENSG00000184445|ENST00000333479|KNTC1 ENSG00000184445|ENST00000333479|KNTC1 ENSG00000184445|ENST00000333479|KNTC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.9784545898438 2 664.36511 1326.71567 NaN NaN NaN NaN NaN NaN NaN 98.912 1 99.212 98.712 99.712 0.29987 0 0 0 1.0003 1 45632 45632 1.4819 0 1 4715 5442 3141 3151 5246 5246 0.06537786814556057 EKRKKKKKRKL 11 Unmodified _EKRKKKKKRKL_ 0 0 0 REV__ENST00000565844.1_1_16:19721758-19726357:-|nuORF REV__ENST00000565844.1_1_16:19721758-19726357:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 735.5144653320312 2 735.509369 1469.00418 NaN NaN NaN NaN NaN NaN NaN 93.498 1 93.498 92.998 93.998 0 0 0 0 1.008 1 49924 49924 0.35063 0 1 + 4716 10973 3142 3152 5247 5247 0.2884430179260562 EKRKKLKKRK 10 Unmodified _EKRKKLKKRK_ 0 0 0 REV__nc|ENSG00000230453|A2A2Z9|ANKRD18B REV__nc|ENSG00000230453|A2A2Z9|ANKRD18B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 671.4631958007812 2 671.461887 1340.90922 NaN NaN NaN NaN NaN NaN NaN 106.08 1 106.4 105.9 106.9 0.31628 0 0 0 1.0015 1 48962 48962 0.45834 0.057624 1 + 4717 14574 3143 3153 5248 5248 0.25240368321442475 EKRKLARLLIY 11 Unmodified _EKRKLARLLIY_ 0 0 0 REV__ENST00000345317.6_1_7:26708085-26708181:-|nuORF REV__ENST00000345317.6_1_7:26708085-26708181:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 702.4368286132812 2 701.948279 1401.882 NaN NaN NaN NaN NaN NaN NaN 94.914 1 95.174 94.674 95.674 0.25975 0 0 0 1.008 1 43613 43613 0.35063 0 1 + 4718 15504 3144 3154 5249 5249 0.197138399904361 EKRKRWRRKLF 11 Unmodified _EKRKRWRRKLF_ 0 0 0 REV__nc|ENSG00000171804|Q6ZQQ6|WDR87 REV__nc|ENSG00000171804|Q6ZQQ6|WDR87 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.7789306640625 3 534.998704 1601.97428 NaN NaN NaN NaN NaN NaN NaN 61.261 1 61.261 60.761 61.761 0 0 0 0 1.0082 1 28556 28556 0.094841 0.094841 1 + 4719 13518 3145 3155 5250 5250 0.19737362847263284 EKRKRWRRKLF 11 Unmodified _EKRKRWRRKLF_ 0 0 0 REV__nc|ENSG00000171804|Q6ZQQ6|WDR87 REV__nc|ENSG00000171804|Q6ZQQ6|WDR87 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 801.9947509765625 2 801.994417 1601.97428 NaN NaN NaN NaN NaN NaN NaN 19.309 1 19.968 19.468 20.468 0.6583 0 0 0 1.0082 1 8762 8762 0 0 1 + 4720 13518 3145 3155 5251 5251 0.19737362847263284 EKRLLRRHEES 11 Unmodified _EKRLLRRHEES_ 0 0 0 REV__ENST00000429989.7_1_10:82280820-82281054:+|nuORF REV__ENST00000429989.7_1_10:82280820-82281054:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.81732177734375 3 484.939179 1451.79571 NaN NaN NaN NaN NaN NaN NaN 74.087 1 74.773 74.273 75.273 0.68662 0 0 0 1.0044 1 35790 35790 2.2527 1.7468 1 + 4721 16245 3146 3156 5252 5252 0.08788228417756727 EKRLWQRRRRP 11 Unmodified _EKRLWQRRRRP_ 0 0 0 ENST00000515594.5_1_6:64345874-64401682:+|nuORF ENST00000515594.5_1_6:64345874-64401682:+|nuORF ENST00000515594.5_1_6:64345874-64401682:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.64990234375 3 527.650075 1579.92839 NaN NaN NaN NaN NaN NaN NaN 61.56 1 62.293 61.793 62.793 0.73305 0 0 0 1.008 1 28567 28567 0.094841 0 1 4722 8598 3147 3157 5253 5253 0.1616271766506543 EKRPLGFTWIK 11 Unmodified _EKRPLGFTWIK_ 0 0 0 ENSG00000165895|ENST00000298815|ARHGAP42 ENSG00000165895|ENST00000298815|ARHGAP42 ENSG00000165895|ENST00000298815|ARHGAP42 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 687.8973388671875 2 687.898254 1373.78196 NaN NaN NaN NaN NaN NaN NaN 58.902 1 59.661 59.161 60.161 0.75894 0 0 0 0.87735 1 27060 27060 18.373 3.9677 1 4723 4432 3148 3158 5254 5254 0.11001602656597242 EKRQHFRRWVK 11 Unmodified _EKRQHFRRWVK_ 0 0 0 REV__nc|ENSG00000132321|Q86XH1-2|IQCA1 REV__nc|ENSG00000132321|Q86XH1-2|IQCA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 785.4478149414062 2 785.4473 1568.88005 NaN NaN NaN NaN NaN NaN NaN 65.213 1 65.213 64.713 65.713 0 0 0 0 1.008 1 31028 31028 0.35063 0 1 + 4724 11883 3149 3159 5255 5255 0.11836224025137199 EKRQKRRWYLA 11 Unmodified _EKRQKRRWYLA_ 0 0 0 REV__nc|ENSG00000154134|Q96MS0-2|ROBO3 REV__nc|ENSG00000154134|Q96MS0-2|ROBO3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 767.4420166015625 2 767.441683 1532.86881 NaN NaN NaN NaN NaN NaN NaN 68.924 1 68.924 68.424 69.424 0 0 0 0 1.008 1 33223 33223 0.35063 0 1 + 4725 12694 3150 3160 5256 5256 0.12369401931073298 EKRRFHKRRFT 11 Unmodified _EKRRFHKRRFT_ 0 0 0 REV__MER4-int_dup1854|chrY:4104844-4107652:+|1.373527874812219|0.2382143427425708|2.53|399.0|106|1|anti-sense REV__MER4-int_dup1854|chrY:4104844-4107652:+|1.373527874812219|0.2382143427425708|2.53|399.0|106|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.8788452148438 3 520.970925 1559.89095 NaN NaN NaN NaN NaN NaN NaN 74.702 1 75.389 74.889 75.889 0.68662 0 0 0 1.0082 1 36110 36110 0.094841 0 1 + 4726 17829 3151 3161 5257 5257 0.1333962639944275 EKRRKKKEQQQ 11 Unmodified _EKRRKKKEQQQ_ 0 0 0 nc|ENSG00000165113|Q5VSY0-2|GKAP1;ENSG00000165113|ENST00000376371|GKAP1 nc|ENSG00000165113|Q5VSY0-2|GKAP1 nc|ENSG00000165113|Q5VSY0-2|GKAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.2945861816406 3 495.958462 1484.85356 2.6728 0.0013256 0.51373 0.00025479 3.1865 0.0015804 495.95876914171527 106.09 0.11707 106.09 106.02 106.14 0 11 5 3 0 0 0 0.91459 1 58276 58276 0.094841 0 1 1787200 4727 4372 3152 3162 5258 5258 0.13052490343170575 EKRRKKKEQQQ 11 Unmodified _EKRRKKKEQQQ_ 0 0 0 nc|ENSG00000165113|Q5VSY0-2|GKAP1;ENSG00000165113|ENST00000376371|GKAP1 nc|ENSG00000165113|Q5VSY0-2|GKAP1 nc|ENSG00000165113|Q5VSY0-2|GKAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.96044921875 3 495.958462 1484.85356 4.0575 0.0020123 0.57306 0.00028421 4.6305 0.0022966 495.95855979016807 106.13 0.20354 106.44 106.35 106.55 0.31628 17 7 4 0 0 0 0.91328 1 48997 48997 0.50596 0.41111 1 1335600 4728 4372 3152 3162 5259 5259 0.13052490343170575 EKRRKKKEQQQ 11 Unmodified _EKRRKKKEQQQ_ 0 0 0 nc|ENSG00000165113|Q5VSY0-2|GKAP1;ENSG00000165113|ENST00000376371|GKAP1 nc|ENSG00000165113|Q5VSY0-2|GKAP1 nc|ENSG00000165113|Q5VSY0-2|GKAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.9583740234375 3 495.958462 1484.85356 3.4219 0.0016971 0.83832 0.00041577 4.2602 0.0021129 495.95858842974724 98.72 0.28203 99.317 99.197 99.479 0.59748 34 19 3 0 0 0 0.91328 1 45509 45509 0.50596 0.051438 1 2235000 4729 4372 3152 3162 5260 5260 0.13052490343170575 EKRRKREKKKK 11 Unmodified _EKRRKREKKKK_ 0 0 0 REV__nc|ENSG00000163081|Q96MF4|CCDC140 REV__nc|ENSG00000163081|Q96MF4|CCDC140 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 757.4910888671875 2 757.491708 1512.96886 NaN NaN NaN NaN NaN NaN NaN 61.833 1 61.833 61.333 62.333 0 0 0 0 1.0063 1 28889 28889 2.4985 1.3051 1 + 4730 18002 3153 3163 5261 5261 0.2328963926479446 EKRRLYRRRWT 11 Unmodified _EKRRLYRRRWT_ 0 0 0 REV__ENSG00000284188|ENST00000640271|unknown REV__ENSG00000284188|ENST00000640271|unknown MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 810.4710083007812 2 810.471306 1618.92806 NaN NaN NaN NaN NaN NaN NaN 91.367 1 91.619 91.119 92.119 0.25163 0 0 0 1.0082 1 42014 42014 0 0 1 + 4731 14771 3154 3164 5262 5262 0.14335297945171988 EKRRQERERKE 11 Unmodified _EKRRQERERKE_ 0 0 0 ENST00000570306.5_1_17:19284999-19286541:+|nuORF;nc|ENSG00000166484|Q13164-2|MAPK7;ENSG00000166484|ENST00000395604|MAPK7 ENST00000570306.5_1_17:19284999-19286541:+|nuORF ENST00000570306.5_1_17:19284999-19286541:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 772.4277954101562 2 772.424219 1542.83388 NaN NaN NaN NaN NaN NaN NaN 87.524 1 87.524 87.024 88.024 0 0 0 0 1.0079 1 45162 45162 1.1933 0.84271 1 4732 4489 3155 3165 5263 5263 0.08418114332380355 EKRRQWNRWRQ 11 Unmodified _EKRRQWNRWRQ_ 0 0 0 REV__ENST00000291074.9_2_17:505039-505090:-|nuORF REV__ENST00000291074.9_2_17:505039-505090:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 821.9408569335938 2 821.942913 1641.87127 NaN NaN NaN NaN NaN NaN NaN 96.115 1 96.115 95.615 96.615 0 0 0 0 1.008 1 51931 51931 0.35063 0.35063 1 + 4733 15125 3156 3166 5264 5264 0.07601250388665903 EKRRRDRINR 10 Unmodified _EKRRRDRINR_ 0 0 0 nc|ENSG00000179111|Q9BYE0|HES7;ENSG00000179111|ENST00000541682|HES7;nc|ENSG00000187821|A6NFD8-4|HELT;ENSG00000187821|ENST00000515777|HELT nc|ENSG00000179111|Q9BYE0|HES7 nc|ENSG00000179111|Q9BYE0|HES7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 699.9151000976562 2 699.911082 1397.80761 NaN NaN NaN NaN NaN NaN NaN 95.044 1 95.661 95.161 96.161 0.61736 0 0 0 1.0016 1 43709 43709 0.35063 0 1 4734 5198 3157 3167 5265 5265 0.12461889951600824 EKRRRQEWER 10 Unmodified _EKRRRQEWER_ 0 0 0 ENSG00000159450|ENST00000614923|TCHH ENSG00000159450|ENST00000614923|TCHH ENSG00000159450|ENST00000614923|TCHH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 736.5557861328125 2 736.895097 1471.77564 NaN NaN NaN NaN NaN NaN NaN 62.625 1 63.356 62.856 63.856 0.73077 0 0 0 1.0003 1 29234 29234 1.4819 0.15237 1 4735 4025 3158 3168 5266 5266 0.0586247747780817 EKSDCCCVC 9 Unmodified _EKSDCCCVC_ 0 0 0 SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|29|3|sense SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|29|3|sense SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|29|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.1664733886719 2 495.163399 988.312244 NaN NaN NaN NaN NaN NaN NaN 75.571 1 75.828 75.328 76.328 0.25704 0 0 0 0.90511 1 34779 34779 2.3027 1.5091 1 4736 18263 3159 3169 5267 5267 -0.18237956277198464 EKSLGMVNEWG 11 Unmodified _EKSLGMVNEWG_ 0 0 0 nc|ENSG00000059145|Q9H9P5|UNKL;ENSG00000059145|ENST00000389221|UNKL;nc|ENSG00000059145|Q9H9P5-6|UNKL nc|ENSG00000059145|Q9H9P5|UNKL nc|ENSG00000059145|Q9H9P5|UNKL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 417.20166015625 3 417.200901 1248.58087 2.6733 0.0011153 0.17874 7.4571E-05 2.8521 0.0011899 417.20096971755953 40.349 0.19687 41.149 41.059 41.256 0.80014 24 11 3 0 0 0 0.79438 1 18280 18280 3.5927 0.27303 1 953100 4737 634 3160 3170 5268 5268 -0.03347454442223352 EKTRKITTV 9 Unmodified _EKTRKITTV_ 0 0 0 ENST00000442578.5_2_7:65894980-65944034:-|nuORF ENST00000442578.5_2_7:65894980-65944034:-|nuORF ENST00000442578.5_2_7:65894980-65944034:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.2212219238281 3 359.220513 1074.63971 2.7362 0.00098292 -0.081133 -2.9145E-05 2.6551 0.00095377 359.22034378598437 96.997 0.33673 97.599 97.409 97.746 0.60191 48 15 4 0 0 0 1.1849 1 44584 44584 0.96228 0 1 3179500 4738 7946 3161 3171 5269 5269 0.10537389914384221 EKTRKITTV 9 Unmodified _EKTRKITTV_ 0 0 0 ENST00000442578.5_2_7:65894980-65944034:-|nuORF ENST00000442578.5_2_7:65894980-65944034:-|nuORF ENST00000442578.5_2_7:65894980-65944034:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 359.220513 1074.63971 3.4325 0.001233 -0.69528 -0.00024976 2.7372 0.00098327 359.2202450535743 97.396 0.28133 97.685 97.511 97.793 0.28923 0.043295 -0.00043103 NaN 0.96228 25 11 3 NaN NaN NaN NaN 0 NaN NaN 0 3812900 4739 7946 3161 3171 0.10537389914384221 EKTRKITTV 9 Unmodified _EKTRKITTV_ 0 0 0 ENST00000442578.5_2_7:65894980-65944034:-|nuORF ENST00000442578.5_2_7:65894980-65944034:-|nuORF ENST00000442578.5_2_7:65894980-65944034:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 359.220513 1074.63971 2.7362 0.00098292 -0.081133 -2.9145E-05 2.6551 0.00095377 359.22034378598437 96.997 0.33673 97.599 97.409 97.746 0.60191 -0.043295 0.00023081 NaN 0.96228 48 15 4 NaN NaN NaN NaN 0 NaN NaN 0 3179500 4740 7946 3161 3171 0.10537389914384221 EKTRTILFY 9 Unmodified _EKTRTILFY_ 0 0 0 ENSG00000109323|ENST00000647097|MANBA;ENST00000514430.5_1_4:103553216-103586042:-|nuORF ENSG00000109323|ENST00000647097|MANBA ENSG00000109323|ENST00000647097|MANBA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.8901672363281 3 390.888763 1169.64446 2.8646 0.0011197 1.0145 0.00039655 3.8791 0.0015163 390.8890983703943 57.088 0.52077 57.353 56.987 57.508 0.26444 60 26 3 0 0 0 1.0894 1 26140 26140 2.4985 0.21571 1 6075500 4741 1675 3162 3172 5270 5270 0.06642274057185205 EKTRYDEDL 9 Unmodified _EKTRYDEDL_ 0 0 0 REV__nc|ENSG00000171467|Q5VUA4-2|ZNF318 REV__nc|ENSG00000171467|Q5VUA4-2|ZNF318 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.1898193359375 3 390.187537 1167.54078 NaN NaN NaN NaN NaN NaN NaN 22.597 1 23.237 22.737 23.737 0.64051 0 0 0 0.42757 1 10291 10291 15.248 0 1 + 4742 13495 3163 3173 5271 5271 -0.03628677841152239 EKTYRRFLEL 10 Unmodified _EKTYRRFLEL_ 0 0 0 ENSG00000175175|ENST00000308249|PPM1E ENSG00000175175|ENST00000308249|PPM1E ENSG00000175175|ENST00000308249|PPM1E MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.8795166015625 2 677.877519 1353.74048 NaN NaN NaN NaN NaN NaN NaN 12.521 1 12.828 12.328 13.328 0.30727 0 0 0 0.99846 1 5646 5646 2.9952 0 1 4743 5017 3164 3174 5272 5272 0.07776421897278851 EKVEPEVLS 9 Unmodified _EKVEPEVLS_ 0 0 0 ENSG00000073614|ENST00000399788|KDM5A;nc|ENSG00000073614|P29375-2|KDM5A ENSG00000073614|ENST00000399788|KDM5A ENSG00000073614|ENST00000399788|KDM5A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.2786254882812 2 515.276772 1028.53899 3.2576 0.0016785 0.063881 3.2917E-05 3.3214 0.0017115 515.277015526986 38.896 0.42078 38.896 38.679 39.1 0 35 16 3 0 0 0 0.03963 1 17662 17662 51.63 3.8811 1 1051500 4744 810 3165 3175 5273 5273 0.02586313140909624 EKVFKKKY 8 Unmodified _EKVFKKKY_ 0 0 0 REV__nc|ENSG00000183091|P20929-4|NEB REV__nc|ENSG00000183091|P20929-4|NEB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.2191467285156 3 357.218332 1068.63317 2.6899 0.0009609 -0.21358 -7.6294E-05 2.4764 0.0008846 357.2181321380287 37.562 0.34796 37.822 37.63 37.978 0.26083 20 10 3 0 0 0 0.67192 1 17108 17108 8.1555 1.0538 1 442390 + 4745 13918 3166 3176 5274 5274 0.10159496753726671 EKVFKKKY 8 Unmodified _EKVFKKKY_ 0 0 0 REV__nc|ENSG00000183091|P20929-4|NEB REV__nc|ENSG00000183091|P20929-4|NEB MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 357.218332 1068.63317 2.6899 0.0009609 -0.21358 -7.6294E-05 2.4764 0.0008846 357.2181321380287 37.562 0.34796 37.822 37.63 37.978 0.26083 0.13295 -0.00051943 NaN 8.1555 20 10 3 NaN NaN NaN NaN 0 NaN NaN 0 442390 + 4746 13918 3166 3176 0.10159496753726671 EKVFKKKY 8 Unmodified _EKVFKKKY_ 0 0 0 REV__nc|ENSG00000183091|P20929-4|NEB REV__nc|ENSG00000183091|P20929-4|NEB MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 357.218332 1068.63317 2.5445 0.00090895 0.58673 0.00020959 3.1313 0.0011185 357.2184182297205 36.926 0.37338 37.556 37.354 37.728 0.62999 -0.13295 0.00033823 NaN 8.1555 28 14 3 NaN NaN NaN NaN 0 NaN NaN 0 449860 + 4747 13918 3166 3176 0.10159496753726671 EKVRHRCRRLF 11 Unmodified _EKVRHRCRRLF_ 0 0 0 REV__nc|ENSG00000171735|Q9Y6Y1-2|CAMTA1 REV__nc|ENSG00000171735|Q9Y6Y1-2|CAMTA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 750.2282104492188 2 750.428053 1498.84155 NaN NaN NaN NaN NaN NaN NaN 59.967 1 59.967 59.467 60.467 0 0 0 0 1.0061 1 27768 27768 2.7352 0 1 + 4748 18048 3167 3177 5275 5275 0.11208595118978337 EKWAYWRRRQL 11 Unmodified _EKWAYWRRRQL_ 0 0 0 nc|ENSG00000003096|Q9P2N7-5|KLHL13 nc|ENSG00000003096|Q9P2N7-5|KLHL13 nc|ENSG00000003096|Q9P2N7-5|KLHL13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 796.435546875 2 796.433858 1590.85316 NaN NaN NaN NaN NaN NaN NaN 91.062 1 91.137 90.637 91.637 0.075279 0 0 0 1.0072 1 47085 47085 1.3295 0.9789 1 4749 9533 3168 3178 5276 5276 0.08137115413956053 EKWFTRYKKWF 11 Unmodified _EKWFTRYKKWF_ 0 0 0 REV__ENSG00000123171|ENST00000242819|CCDC70 REV__ENSG00000123171|ENST00000242819|CCDC70 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 809.926513671875 2 809.930086 1617.84562 NaN NaN NaN NaN NaN NaN NaN 52.886 1 53.55 53.05 54.05 0.6644 0 0 0 1.008 1 24185 24185 0.26902 0 1 + 4750 11608 3169 3179 5277 5277 0.061409630936623216 EKWLVYHYKEW 11 Unmodified _EKWLVYHYKEW_ 0 0 0 REV__ENST00000355774.6_2_14:75497265-75497367:-|nuORF REV__ENST00000355774.6_2_14:75497265-75497367:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 790.8956298828125 2 790.898451 1579.78235 NaN NaN NaN NaN NaN NaN NaN 57.969 1 57.969 57.469 58.469 0 0 0 0 1.008 1 26734 26734 0.35063 0.081612 1 + 4751 15545 3170 3180 5278 5278 0.0156497758578098 EKWRRLQEERM 11 Unmodified _EKWRRLQEERM_ 0 0 0 REV__nc|ENSG00000178217|Q5SQS7-2|SH2D4B REV__nc|ENSG00000178217|Q5SQS7-2|SH2D4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 780.9068603515625 2 780.906816 1559.79908 NaN NaN NaN NaN NaN NaN NaN 68.041 1 68.743 68.243 69.243 0.70218 0 0 0 1.008 1 32415 32415 0.35063 0 1 + 4752 13756 3171 3181 5279 5279 0.041571552000959855 EKWRRPFYRVL 11 Unmodified _EKWRRPFYRVL_ 0 0 0 ENSG00000101638|ENST00000315087|ST8SIA5;nc|ENSG00000101638|O15466-2|ST8SIA5 ENSG00000101638|ENST00000315087|ST8SIA5 ENSG00000101638|ENST00000315087|ST8SIA5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 775.4425048828125 2 775.441152 1548.86775 NaN NaN NaN NaN NaN NaN NaN 89.28 1 89.344 88.844 89.844 0.064346 0 0 0 1.008 1 45717 45717 0.35063 0 1 4753 1306 3172 3182 5280 5280 0.11527187562114705 EKWSNRNQ 8 Unmodified _EKWSNRNQ_ 0 0 0 REV__ENSG00000140678|ENST00000268296|ITGAX REV__ENSG00000140678|ENST00000268296|ITGAX MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.3373413085938 2 531.259779 1060.50501 NaN NaN NaN NaN NaN NaN NaN 102.07 1 102.67 102.17 103.17 0.59759 0 0 0 0.99035 1 47252 47252 2.5775 0.92486 1 + 4754 12261 3173 3183 5281 5281 -0.022826705074749043 EKYFWWDWEW 10 Unmodified _EKYFWWDWEW_ 0 0 0 REV__MSTC_dup783|chr4:9823989-9824389:+|1.921033049629389|0.4477763399962282|2.1|541.0|7|2|sense REV__MSTC_dup783|chr4:9823989-9824389:+|1.921033049629389|0.4477763399962282|2.1|541.0|7|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.6621704101562 3 525.562827 1573.66665 NaN NaN NaN NaN NaN NaN NaN 71.578 1 71.836 71.336 72.336 0.25786 0 0 0 1.0018 1 32799 32799 0.15932 0.075971 1 + 4755 17843 3174 3184 5282 5282 -0.0972354626503602 EKYFWWDWEWS 11 Unmodified _EKYFWWDWEWS_ 0 0 0 REV__MSTC_dup783|chr4:9823989-9824389:+|1.921033049629389|0.4477763399962282|2.1|541.0|7|2|sense REV__MSTC_dup783|chr4:9823989-9824389:+|1.921033049629389|0.4477763399962282|2.1|541.0|7|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.1680297851562 3 554.573503 1660.69868 NaN NaN NaN NaN NaN NaN NaN 43.641 1 43.641 43.141 44.141 0 0 0 0 1.008 1 19901 19901 0.094841 0.011491 1 + 4756 17843 3175 3185 5283 5283 -0.1052417858188619 EKYKFFAFWKY 11 Unmodified _EKYKFFAFWKY_ 0 0 0 REV__ENSG00000109861|ENST00000227266|CTSC REV__ENSG00000109861|ENST00000227266|CTSC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.6353149414062 3 519.602734 1555.78637 NaN NaN NaN NaN NaN NaN NaN 64.11 1 64.11 63.61 64.61 0 0 0 0 1.008 1 30296 30296 0.094841 0.011491 1 + 4757 11186 3176 3186 5284 5284 0.03071067079486056 EKYKFFAFWKY 11 Unmodified _EKYKFFAFWKY_ 0 0 0 REV__ENSG00000109861|ENST00000227266|CTSC REV__ENSG00000109861|ENST00000227266|CTSC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 778.900634765625 2 778.900463 1555.78637 NaN NaN NaN NaN NaN NaN NaN 70.099 1 70.099 69.599 70.599 0 0 0 0 1.008 1 33956 33956 0.35063 0.043601 1 + 4758 11186 3176 3186 5285 5285 0.03071067079486056 EKYLRRRKYSL 11 Unmodified _EKYLRRRKYSL_ 0 0 0 nc|ENSG00000135636|O75923-3|DYSF;nc|ENSG00000135636|O75923-9|DYSF;nc|ENSG00000135636|O75923|DYSF;nc|ENSG00000135636|O75923-14|DYSF;nc|ENSG00000135636|O75923-6|DYSF;nc|ENSG00000135636|O75923-12|DYSF;nc|ENSG00000135636|O75923-5|DYSF;nc|ENSG00000135636|O75923-11|DYSF;nc|ENSG00000135636|O75923-4|DYSF;nc|ENSG00000135636|O75923-10|DYSF;nc|ENSG00000135636|O75923-2|DYSF;nc|ENSG00000135636|O75923-8|DYSF;nc|ENSG00000135636|O75923-7|DYSF;ENSG00000135636|ENST00000410020|DYSF;nc|ENSG00000135636|O75923-15|DYSF nc|ENSG00000135636|O75923-3|DYSF nc|ENSG00000135636|O75923-3|DYSF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 756.443115234375 2 756.443892 1510.87323 NaN NaN NaN NaN NaN NaN NaN 37.456 1 38.086 37.586 38.586 0.62999 0 0 0 1.008 1 17140 17140 0.35063 0.043601 1 4759 2885 3177 3187 5286 5286 0.13822866353962127 ELAEIFRREK 10 Unmodified _ELAEIFRREK_ 0 0 0 REV__ENSG00000073734|ENST00000650372|ABCB11 REV__ENSG00000073734|ENST00000650372|ABCB11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 645.9014282226562 2 645.861869 1289.70918 NaN NaN NaN NaN NaN NaN NaN 73.736 1 73.736 73.236 74.236 0 0 0 0 0.97797 1 35973 35973 8.9762 1.8745 1 + 4760 10507 3178 3188 5287 5287 0.07591848863171435 ELAEQEELDE 10 Unmodified _ELAEQEELDE_ 0 0 0 REV__ENSG00000120800|ENST00000261637|UTP20 REV__ENSG00000120800|ENST00000261637|UTP20 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 402.1803283691406 3 402.178707 1203.51429 NaN NaN NaN NaN NaN NaN NaN 25.927 1 26.195 25.695 26.695 0.26777 0 0 0 0.99807 1 11774 11774 3.3196 1.5774 1 + 4761 11546 3179 3189 5288 5288 -0.07932411523120209 ELAEYRCREM 10 Unmodified _ELAEYRCREM_ 0 0 0 ENST00000413233.1_1_7:116612221-116612569:-|nuORF ENST00000413233.1_1_7:116612221-116612569:-|nuORF ENST00000413233.1_1_7:116612221-116612569:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 649.9165649414062 2 650.294647 1298.57474 NaN NaN NaN NaN NaN NaN NaN 90.198 1 90.198 89.698 90.698 0 0 0 0 0.99774 1 47334 47334 3.5965 0 1 4762 7689 3180 3190 5289 5289 -0.06260295945389771 ELAKRKSSL 9 Unmodified _ELAKRKSSL_ 0 0 0 REV__nc|ENSG00000120802|P42166|TMPO REV__nc|ENSG00000120802|P42166|TMPO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.3152465820312 2 516.314023 1030.61349 2.1933 0.0011325 0.41282 0.00021315 2.6062 0.0013456 516.3141627007365 95.783 0.29288 95.865 95.726 96.019 0.082001 77 41 2 0 0 0 1.0041 1 50754 50754 3.9444 1.3669 1 32759000 + 4763 17912 3181 3191 5290 5290 0.0994112074295117 ELAKRKSSL 9 Unmodified _ELAKRKSSL_ 0 0 0 REV__nc|ENSG00000120802|P42166|TMPO REV__nc|ENSG00000120802|P42166|TMPO MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 516.314023 1030.61349 4.1887 0.0021627 -0.26822 -0.00013849 3.9205 0.0020242 516.3138673189935 95.689 0.60126 95.957 95.668 96.27 0.2675 0.075799 -0.00041251 NaN 3.9444 127 33 5 NaN NaN NaN NaN 0 NaN NaN 0 50338000 + 4764 17912 3181 3191 0.0994112074295117 ELAKRVSRL 9 Unmodified _ELAKRVSRL_ 0 0 0 nc|ENSG00000148700|Q9UEY8-2|ADD3;ENSG00000148700|ENST00000356080|ADD3 nc|ENSG00000148700|Q9UEY8-2|ADD3 nc|ENSG00000148700|Q9UEY8-2|ADD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.8938903808594 3 357.892619 1070.65603 NaN NaN NaN NaN NaN NaN NaN 13.826 1 13.826 13.326 14.326 0 0 0 0 0.18653 1 6075 6075 31.636 12.274 1 4765 3613 3182 3192 5291 5291 0.12352515871180003 ELAKRVSRL 9 Unmodified _ELAKRVSRL_ 0 0 0 nc|ENSG00000148700|Q9UEY8-2|ADD3;ENSG00000148700|ENST00000356080|ADD3 nc|ENSG00000148700|Q9UEY8-2|ADD3 nc|ENSG00000148700|Q9UEY8-2|ADD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 357.8932800292969 3 357.892619 1070.65603 2.0323 0.00072736 0.13289 4.7562E-05 2.1652 0.00077492 357.8926974942749 13.043 0.22537 13.286 13.163 13.388 0.24346 45 19 3 0 0 0 0.10437 1 5678 5678 31.636 11.221 1 700720 4766 3613 3182 3192 5292 5292 0.12352515871180003 ELAKRVSRL 9 Unmodified _ELAKRVSRL_ 0 0 0 nc|ENSG00000148700|Q9UEY8-2|ADD3;ENSG00000148700|ENST00000356080|ADD3 nc|ENSG00000148700|Q9UEY8-2|ADD3 nc|ENSG00000148700|Q9UEY8-2|ADD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.8934631347656 3 357.892619 1070.65603 1.9826 0.00070957 0.28889 0.00010339 2.2715 0.00081296 357.89271454184063 12.978 0.30047 13.286 13.125 13.426 0.30727 37 12 4 0 0 0 0.082627 2 5821 5821;5867 37.075 11.077 1 1275300 4767 3613 3182 3192 5293;5294 5293 0.12352515871180003 ELAKRVSRL 9 Unmodified _ELAKRVSRL_ 0 0 0 nc|ENSG00000148700|Q9UEY8-2|ADD3;ENSG00000148700|ENST00000356080|ADD3 nc|ENSG00000148700|Q9UEY8-2|ADD3 nc|ENSG00000148700|Q9UEY8-2|ADD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.8938903808594 3 357.892619 1070.65603 NaN NaN NaN NaN NaN NaN NaN 12.792 1 13.435 12.935 13.935 0.64272 0 0 0 0.48078 1 5743 5743 19.626 1.2529 1 4768 3613 3182 3192 5295 5295 0.12352515871180003 ELAQRLKQEQ 10 Unmodified _ELAQRLKQEQ_ 0 0 0 ENST00000468108.1_1_3:56627740-56649353:+|nuORF;nc|ENSG00000180376|A2RUB6-3|CCDC66;ENSG00000180376|ENST00000394672|CCDC66 ENST00000468108.1_1_3:56627740-56649353:+|nuORF ENST00000468108.1_1_3:56627740-56649353:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.7935791015625 2 621.843676 1241.6728 NaN NaN NaN NaN NaN NaN NaN 95.102 1 95.184 94.684 95.684 0.082001 0 0 0 0.99678 1 50195 50195 7.609 3.6646 1 4769 5251 3183 3193 5296 5296 0.06162971966477926 ELATLIQTKR 10 Unmodified _ELATLIQTKR_ 0 0 0 nc|ENSG00000197321|O95425-2|SVIL;SVIL|p.L2113Dfs*17|1|0.07|ENSG00000197321|chr10:29462341-29462342|AG/-|frameshift_variant;nc|ENSG00000197321|O95425-4|SVIL;nc|ENSG00000197321|O95425-3|SVIL;ENSG00000197321|ENST00000355867|SVIL nc|ENSG00000197321|O95425-2|SVIL nc|ENSG00000197321|O95425-2|SVIL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 586.6181030273438 2 586.853512 1171.69247 NaN NaN NaN NaN NaN NaN NaN 97.022 1 97.093 96.593 97.593 0.070648 0 0 0 0.99225 1 51739 51739 6.7232 0.51738 1 4770 5806 3184 3194 5297 5297 0.11349347977215984 ELATSREYA 9 Unmodified _ELATSREYA_ 0 0 0 nc|ENSG00000140992|O15530-4|PDPK1;nc|ENSG00000140992|O15530-2|PDPK1;nc|ENSG00000140992|O15530-3|PDPK1;ENSG00000140992|ENST00000342085|PDPK1;ENST00000570136.5_1_16:2588053-2611615:+|nuORF;nc|ENSG00000205918|Q6A1A2|PDPK2P;ENST00000491073.5_1_16:2607712-2633730:+|nuORF;nc|ENSG00000140992|O15530-5|PDPK1 nc|ENSG00000140992|O15530-4|PDPK1 nc|ENSG00000140992|O15530-4|PDPK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.0044555664062 2 520.256371 1038.49819 NaN NaN NaN NaN NaN NaN NaN 94.853 1 94.853 94.353 95.353 0 0 0 0 0.86044 1 50971 50971 7.2892 0.56607 1 4771 3226 3185 3195 5298 5298 -0.019520281786981286 ELCFCFEL 8 Unmodified _ELCFCFEL_ 0 0 0 REV__nc|ENSG00000166473|Q7Z442-4|PKD1L2 REV__nc|ENSG00000166473|Q7Z442-4|PKD1L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.1493225097656 3 335.146968 1002.41908 NaN NaN NaN NaN NaN NaN NaN 75.224 1 75.889 75.389 76.389 0.6644 0 0 0 0.99035 1 34649 34649 1.4819 0 1 + 4772 15177 3186 3196 5299 5299 -0.08203714728870182 ELCQWRRRQRR 11 Unmodified _ELCQWRRRQRR_ 0 0 0 ENST00000370332.5_1_1:92949124-92949509:-|nuORF ENST00000370332.5_1_1:92949124-92949509:-|nuORF ENST00000370332.5_1_1:92949124-92949509:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 793.9306030273438 2 793.931491 1585.84843 NaN NaN NaN NaN NaN NaN NaN 93.477 1 93.477 92.977 93.977 0 0 0 0 1.0072 1 49913 49913 1.3295 0 1 4773 7300 3187 3197 5300 5300 0.0789390799955072 ELCRLPSPI 9 Unmodified _ELCRLPSPI_ 0 0 0 REV__ENSG00000115423|ENST00000389394|DNAH6 REV__ENSG00000115423|ENST00000389394|DNAH6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.28271484375 2 514.283877 1026.5532 NaN NaN NaN NaN NaN NaN NaN 70.601 1 71.263 70.763 71.763 0.66209 0 0 0 0.86044 1 32360 32360 7.2892 2.5332 1 + 4774 11365 3188 3198 5301 5301 0.04098687088207953 ELCSIRRGPR 10 Unmodified _ELCSIRRGPR_ 0 0 0 REV__ENST00000357503.2_1_9:140172234-140172336:+|nuORF REV__ENST00000357503.2_1_9:140172234-140172336:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 396.22186279296875 3 396.22063 1185.64006 2.3247 0.0009211 0.8491 0.00033643 3.1738 0.0012575 396.2208872315016 53.738 0.78128 54.542 54.447 55.228 0.80351 112 42 3 0 0 0 0.90778 1 24603 24603 3.3196 0.58445 1 817910 + 4775 15566 3189 3199 5302 5302 0.05466486362638534 ELCTASQVI 9 Unmodified _ELCTASQVI_ 0 0 0 ENST00000355312.7_1_12:110367795-110368041:-|nuORF ENST00000355312.7_1_12:110367795-110368041:-|nuORF ENST00000355312.7_1_12:110367795-110368041:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.2439270019531 2 482.244418 962.474282 NaN NaN NaN NaN NaN NaN NaN 68.296 1 68.955 68.455 69.455 0.65924 0 0 0 0.72654 1 31306 31306 11.64 3.047 1 4776 7147 3190 3200 5303 5303 -0.008455849367237533 ELDADIATL 9 Unmodified _ELDADIATL_ 0 0 0 REV__nc|ENSG00000166589|O75309-3|CDH16 REV__nc|ENSG00000166589|O75309-3|CDH16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 960.4918212890625 1 960.488418 959.481142 3.4347 0.003299 0.20548 0.00019736 3.6402 0.0034964 960.4884883003168 75.999 0.22373 76.663 76.587 76.81 0.66387 32 19 2 0 0 0 0.12301 1 35023 35023 28.487 0 1 713850 + 4777 13249 3191 3201 5304 5304 -0.00021948784524283838 ELDAIAPKR 9 Unmodified _ELDAIAPKR_ 0 0 0 ENSG00000165280|ENST00000358901|VCP;ENST00000493886.5_1_9:35062192-35072350:-|nuORF ENSG00000165280|ENST00000358901|VCP ENSG00000165280|ENST00000358901|VCP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.55413818359375 3 338.197708 1011.57129 1.8155 0.000614 0.51013 0.00017253 2.3256 0.00078652 338.1979559081286 12.884 0.25557 13.192 13.023 13.279 0.30727 10 7 2 0 0 0 0.10683 1 5779 5779 4.897 4.897 1 371730 4778 4385 3192 3202 5305 5305 0.06597145334558263 ELDDDEDDDDE 11 Unmodified _ELDDDEDDDDE_ 0 0 0 REV__nc|ENSG00000103351|Q96AJ1-2|CLUAP1 REV__nc|ENSG00000103351|Q96AJ1-2|CLUAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 662.6537475585938 2 662.712781 1323.41101 NaN NaN NaN NaN NaN NaN NaN 79.103 1 79.103 78.603 79.603 0 0 0 0 1.008 1 39024 39024 0.35063 0 1 + 4779 10966 3193 3203 5306 5306 -0.2377598849225251 ELDEFHPS 8 Unmodified _ELDEFHPS_ 0 0 0 REV__nc|ENSG00000169994|Q6PIF6-2|MYO7B REV__nc|ENSG00000169994|Q6PIF6-2|MYO7B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.2159118652344 2 487.216714 972.418876 NaN NaN NaN NaN NaN NaN NaN 12.777 1 13.42 12.92 13.92 0.64272 0 0 0 0.99035 1 5736 5736 2.3027 0.24298 1 + 4780 13416 3194 3204 5307 5307 -0.06843675132847693 ELDNNDDDD 9 Unmodified _ELDNNDDDD_ 0 0 0 REV__nc|ENSG00000077097|Q02880-2|TOP2B REV__nc|ENSG00000077097|Q02880-2|TOP2B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.8782958984375 2 532.686172 1063.35779 NaN NaN NaN NaN NaN NaN NaN 98.525 1 99.124 98.624 99.624 0.59885 0 0 0 0.90611 1 45433 45433 2.0598 0 1 + 4781 10550 3195 3205 5308 5308 -0.17135276693602464 ELDRRIVAL 9 Unmodified _ELDRRIVAL_ 0 0 0 nc|ENSG00000188549|Q6ZUT6|CCDC9B;ENST00000558912.1_1_15:40631451-40632237:-|nuORF;ENSG00000188549|ENST00000397536|CCDC9B nc|ENSG00000188549|Q6ZUT6|CCDC9B nc|ENSG00000188549|Q6ZUT6|CCDC9B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.3309936523438 2 542.827298 1083.64004 3.2681 0.001774 0.70641 0.00038346 3.9745 0.0021575 542.8276700276724 43.618 0.25218 43.887 43.731 43.983 0.2694 20 7 3 0 0 0 0.071132 2 19898 19898;19962 39.95 7.6442 1 1154400 4782 9791 3196 3206 5309;5310 5309 0.10156809634281672 ELDRRIVAL 9 Unmodified _ELDRRIVAL_ 0 0 0 nc|ENSG00000188549|Q6ZUT6|CCDC9B;ENST00000558912.1_1_15:40631451-40632237:-|nuORF;ENSG00000188549|ENST00000397536|CCDC9B nc|ENSG00000188549|Q6ZUT6|CCDC9B nc|ENSG00000188549|Q6ZUT6|CCDC9B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.2213439941406 3 362.220624 1083.64004 2.5116 0.00090977 0.47592 0.00017239 2.9876 0.0010822 362.22065118830614 43.649 0.25218 43.918 43.731 43.983 0.2694 19 7 3 0 0 0 0.02234 1 19932 19932 67.838 38.401 1 1073000 4783 9791 3196 3206 5311 5311 0.10156809634281672 ELDRRIVAL 9 Unmodified _ELDRRIVAL_ 0 0 0 nc|ENSG00000188549|Q6ZUT6|CCDC9B;ENST00000558912.1_1_15:40631451-40632237:-|nuORF;ENSG00000188549|ENST00000397536|CCDC9B nc|ENSG00000188549|Q6ZUT6|CCDC9B nc|ENSG00000188549|Q6ZUT6|CCDC9B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.8292846679688 2 542.827298 1083.64004 3.581 0.0019439 -0.011883 -6.4506E-06 3.5691 0.0019374 543.3286652663587 43.101 0.25093 43.749 43.573 43.824 0.64872 25 15 2 0 0 0 0.10837 2 19717 19717;19761 30.637 3.7529 1 1416400 4784 9791 3196 3206 5312;5313 5312 0.10156809634281672 ELDRRIVAL 9 Unmodified _ELDRRIVAL_ 0 0 0 nc|ENSG00000188549|Q6ZUT6|CCDC9B;ENST00000558912.1_1_15:40631451-40632237:-|nuORF;ENSG00000188549|ENST00000397536|CCDC9B nc|ENSG00000188549|Q6ZUT6|CCDC9B nc|ENSG00000188549|Q6ZUT6|CCDC9B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.2215576171875 3 362.220624 1083.64004 2.6937 0.00097571 -0.20718 -7.5043E-05 2.4865 0.00090066 362.22029834703574 43.086 0.25317 43.734 43.533 43.786 0.64872 23 14 2 0 0 0 0.028312 1 19747 19747 69.105 39.264 1 1343900 4785 9791 3196 3206 5314 5314 0.10156809634281672 ELDRRIVAL 9 Unmodified _ELDRRIVAL_ 0 0 0 nc|ENSG00000188549|Q6ZUT6|CCDC9B;ENST00000558912.1_1_15:40631451-40632237:-|nuORF;ENSG00000188549|ENST00000397536|CCDC9B nc|ENSG00000188549|Q6ZUT6|CCDC9B nc|ENSG00000188549|Q6ZUT6|CCDC9B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 542.827298 1083.64004 3.3937 0.0018422 -0.32235 -0.00017498 3.0714 0.0016672 542.8275214857564 43.909 0.091461 43.909 43.838 43.929 0 0.060507 -0.0007129 NaN 39.95 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 680350 4786 9791 3196 3206 0.10156809634281672 ELDRRIVAL 9 Unmodified _ELDRRIVAL_ 0 0 0 nc|ENSG00000188549|Q6ZUT6|CCDC9B;ENST00000558912.1_1_15:40631451-40632237:-|nuORF;ENSG00000188549|ENST00000397536|CCDC9B nc|ENSG00000188549|Q6ZUT6|CCDC9B nc|ENSG00000188549|Q6ZUT6|CCDC9B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 362.220624 1083.64004 2.603 0.00094285 -0.7788 -0.0002821 1.8242 0.00066076 362.2203877905687 43.885 0.067017 43.885 43.838 43.905 0 0.038841 -0.0009954 NaN 67.838 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 824210 4787 9791 3196 3206 0.10156809634281672 ELDVRITAL 9 Unmodified _ELDVRITAL_ 0 0 0 ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.3006591796875 2 515.300581 1028.58661 3.5378 0.001823 -2.1531 -0.0011095 1.3846 0.0007135 515.2990081520771 65.179 0.29752 65.427 65.375 65.672 0.24803 21 14 2 0 0 0 0.41574 1 29896 29896 13.906 3.0821 1 470170 4788 557 3197 3207 5315 5315 0.07346012131756652 ELDVRITAL 9 Unmodified _ELDVRITAL_ 0 0 0 ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.3001708984375 2 515.300581 1028.58661 NaN NaN NaN NaN NaN NaN NaN 64.695 1 65.352 64.852 65.852 0.65672 0 0 0 0.31736 1 29657 29657 26.268 3.5319 1 4789 557 3197 3207 5316 5316 0.07346012131756652 ELDYPDDEKER 11 Unmodified _ELDYPDDEKER_ 0 0 0 REV__ENST00000555814.1_3_14:32545845-32559752:+|nuORF REV__ENST00000555814.1_3_14:32545845-32559752:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 704.8160400390625 2 704.814978 1407.6154 NaN NaN NaN NaN NaN NaN NaN 32.087 1 32.087 31.587 32.587 0 0 0 0 1.0052 1 14525 14525 3.8763 2.0321 1 + 4790 17322 3198 3208 5317 5317 -0.07209959820465883 ELEDVHDK 8 Unmodified _ELEDVHDK_ 0 0 0 REV__PCNT|p.S3190Lfs*20|1|0.06|ENSG00000160299|chr21:46441029-46441030|-/TAACA|frameshift_variant REV__PCNT|p.S3190Lfs*20|1|0.06|ENSG00000160299|chr21:46441029-46441030|-/TAACA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.7353515625 2 492.735271 983.45599 NaN NaN NaN NaN NaN NaN NaN 35.522 1 35.522 35.022 36.022 0 0 0 0 0.88162 1 16118 16118 13.508 0.97634 1 + 4791 12873 3199 3209 5318 5318 -0.036400035870883585 ELEEEDQDWR 10 Unmodified _ELEEEDQDWR_ 0 0 0 REV__ENSG00000130477|ENST00000519716|UNC13A REV__ENSG00000130477|ENST00000519716|UNC13A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 674.7850952148438 2 674.786221 1347.55789 NaN NaN NaN NaN NaN NaN NaN 81.173 1 81.341 80.841 81.841 0.16862 0 0 0 0.99464 1 39861 39861 6.2058 3.2105 1 + 4792 11818 3200 3210 5319 5319 -0.10198802026025078 ELEEFHRL 8 Unmodified _ELEEFHRL_ 0 0 0 REV__ENSG00000173473|ENST00000254480|SMARCC1 REV__ENSG00000173473|ENST00000254480|SMARCC1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.8812561035156 3 358.185579 1071.53491 1.8364 0.00065776 -1.2128 -0.00043442 0.62352 0.00022334 358.1846716990143 12.5 0.077475 12.807 12.77 12.848 0.30727 4 2 2 0 0 0 0.14225 1 5618 5618 1.6526 0 1 380040 + 4793 12214 3201 3211 5320 5320 0.00200268437856721 ELEKLKRKHE 10 Unmodified _ELEKLKRKHE_ 0 0 0 nc|ENSG00000160299|O95613-2|PCNT;PCNT|p.S3190Lfs*20|1|0.06|ENSG00000160299|chr21:46441029-46441030|-/TAACA|frameshift_variant;PCNT|p.L3177Gfs*37|1|0.25|ENSG00000160299|chr21:46440989-46440990|TT/-|frameshift_variant;ENSG00000160299|ENST00000359568|PCNT nc|ENSG00000160299|O95613-2|PCNT nc|ENSG00000160299|O95613-2|PCNT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.3851928710938 2 655.382968 1308.75138 4.45 0.0029164 -0.70531 -0.00046225 3.7447 0.0024542 655.3825091827703 94.44 0.80049 94.7 94.589 95.39 0.25975 101 47 3 0 0 0 0.94134 1 43423 43423 0.35063 0 1 1112300 4794 4055 3202 3212 5321 5321 0.10935824271564343 ELEPDLCVLH 10 Unmodified _ELEPDLCVLH_ 0 0 0 REV__ENSG00000116254|ENST00000262450|CHD5 REV__ENSG00000116254|ENST00000262450|CHD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.2916870117188 2 584.289356 1166.56416 NaN NaN NaN NaN NaN NaN NaN 97.96 1 98.559 98.059 99.059 0.59885 0 0 0 0.98866 1 45095 45095 7.2892 0.56607 1 + 4795 11402 3203 3213 5322 5322 -0.012459553281814806 ELEPEERL 8 Unmodified _ELEPEERL_ 0 0 0 REV__ENSG00000172938|ENST00000309106|MRGPRD REV__ENSG00000172938|ENST00000309106|MRGPRD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.9238586425781 2 507.758746 1013.50294 3.1315 0.0015901 0.92162 0.00046796 4.0532 0.002058 507.75889596941175 39.452 0.21651 39.452 39.276 39.492 0 12 7 2 0 0 0 0.62895 1 17863 17863 11.64 0.52583 1 332290 + 4796 13572 3204 3214 5323 5323 -0.003271440359412736 ELEPEERL 8 Unmodified _ELEPEERL_ 0 0 0 REV__ENSG00000172938|ENST00000309106|MRGPRD REV__ENSG00000172938|ENST00000309106|MRGPRD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.7603759765625 2 507.758746 1013.50294 3.21 0.0016299 0.42262 0.00021459 3.6326 0.0018445 508.2606337002181 39.263 0.33743 39.53 39.347 39.684 0.26696 19 12 2 0 0 0 0.66653 1 17889 17889 8.5933 0 1 250870 + 4797 13572 3204 3214 5324 5324 -0.003271440359412736 ELEPEERL 8 Unmodified _ELEPEERL_ 0 0 0 REV__ENSG00000172938|ENST00000309106|MRGPRD REV__ENSG00000172938|ENST00000309106|MRGPRD MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 507.758746 1013.50294 3.1315 0.0015901 0.92162 0.00046796 4.0532 0.002058 507.75889596941175 39.452 0.21651 39.452 39.276 39.492 0 -0.038997 0.00042095 NaN 11.64 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 332290 + 4798 13572 3204 3214 -0.003271440359412736 ELEPEERL 8 Unmodified _ELEPEERL_ 0 0 0 REV__ENSG00000172938|ENST00000309106|MRGPRD REV__ENSG00000172938|ENST00000309106|MRGPRD MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 507.758746 1013.50294 3.21 0.0016299 0.42262 0.00021459 3.6326 0.0018445 508.2606337002181 39.263 0.33743 39.53 39.347 39.684 0.26696 0.038997 -8.5791E-05 NaN 11.64 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 250870 + 4799 13572 3204 3214 -0.003271440359412736 ELERIRVYM 9 Unmodified _ELERIRVYM_ 0 0 0 ENSG00000197223|ENST00000410067|C1D;ENST00000455013.2_1_10:81784495-81784867:-|nuORF ENSG00000197223|ENST00000410067|C1D ENSG00000197223|ENST00000410067|C1D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 403.5548400878906 3 403.553386 1207.63833 2.6376 0.0010644 0.68167 0.00027509 3.3193 0.0013395 403.5536598502691 15.087 0.40402 15.313 15.128 15.532 0.22622 97 52 2 0 0 0 0.75535 1 6623 6623 8.1555 0 1 259720 4800 5800 3205 3215 5325 5325 0.042814325540348364 ELERRLKRI 9 Unmodified _ELERRLKRI_ 0 0 0 REV__nc|ENSG00000134369|Q8NEY1-7|NAV1 REV__nc|ENSG00000134369|Q8NEY1-7|NAV1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 303.9446105957031 4 303.943836 1211.74624 2.0299 0.00061696 0.23013 6.9947E-05 2.26 0.00068691 303.9438918618786 13.025 0.21323 13.025 12.917 13.13 0 36 11 5 0 0 0 0.21008 1 5670 5670 16.566 0 1 7524700 + 4801 11963 3206 3216 5326 5326 0.14883565199602344 ELFCTEYQNN 10 Unmodified _ELFCTEYQNN_ 0 0 0 ENST00000463409.6_1_10:22605382-22615407:+|nuORF;ENSG00000148444|ENST00000376836|COMMD3;ENST00000602574.5_1_10:22605346-22607236:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 630.867919921875 2 630.763703 1259.51285 NaN NaN NaN NaN NaN NaN NaN 95.047 1 95.047 94.547 95.547 0 0 0 0 0.99774 1 51095 51095 3.5965 0 1 4802 3606 3207 3217 5327 5327 -0.10652324092870913 ELFIEISRRIP 11 Unmodified _ELFIEISRRIP_ 0 0 0 ENSG00000124209|ENST00000244040|RAB22A ENSG00000124209|ENST00000244040|RAB22A ENSG00000124209|ENST00000244040|RAB22A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.7029724121094 4 343.954135 1371.78744 2.3019 0.00079174 -0.30719 -0.00010566 1.9947 0.00068608 344.20510678872944 38.618 0.35644 38.882 38.758 39.115 0.26408 25 14 2 0 0 0 0.13295 1 17629 17629 2.6312 0.19645 1 872470 4803 2349 3208 3218 5328 5328 0.1164128144841925 ELFIEISRRIP 11 Unmodified _ELFIEISRRIP_ 0 0 0 ENSG00000124209|ENST00000244040|RAB22A ENSG00000124209|ENST00000244040|RAB22A ENSG00000124209|ENST00000244040|RAB22A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 343.954135 1371.78744 2.4476 0.00084187 0.03536 1.2162E-05 2.483 0.00085404 343.9536614849909 38.933 0.44712 38.933 38.653 39.1 0 0.025384 0.00025469 NaN 2.6312 25 17 2 NaN NaN NaN NaN 0 NaN NaN 0 234580 4804 2349 3208 3218 0.1164128144841925 ELFKKRAL 8 Unmodified _ELFKKRAL_ 0 0 0 ENSG00000197265|ENST00000355904|GTF2E2 ENSG00000197265|ENST00000355904|GTF2E2 ENSG00000197265|ENST00000355904|GTF2E2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.5472717285156 3 335.54656 1003.61785 2.2718 0.00076228 0.41065 0.00013779 2.6824 0.00090007 335.54658217640326 19.769 0.17035 20.062 19.914 20.084 0.29239 30 13 3 0 0 0 0.39589 1 8966 8966 36.127 26.053 1 705310 4805 5803 3209 3219 5329 5329 0.11618629956512905 ELFKKRAL 8 Unmodified _ELFKKRAL_ 0 0 0 ENSG00000197265|ENST00000355904|GTF2E2 ENSG00000197265|ENST00000355904|GTF2E2 ENSG00000197265|ENST00000355904|GTF2E2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.54754638671875 3 335.54656 1003.61785 2.4573 0.00082455 0.75602 0.00025368 3.2134 0.0010782 335.54662494294405 19.384 0.20121 20.042 19.934 20.136 0.6583 34 14 3 0 0 0 0.39589 1 8813 8813 29.082 16.039 1 696300 4806 5803 3209 3219 5330 5330 0.11618629956512905 ELFKKRAL 8 Unmodified _ELFKKRAL_ 0 0 0 ENSG00000197265|ENST00000355904|GTF2E2 ENSG00000197265|ENST00000355904|GTF2E2 ENSG00000197265|ENST00000355904|GTF2E2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 335.54656 1003.61785 2.4138 0.00080996 0.71668 0.00024048 3.1305 0.0010504 335.5465626684337 20.403 0.28111 20.403 20.233 20.514 0 0.234 7.7945E-05 NaN 36.127 59 24 3 NaN NaN NaN NaN 0 NaN NaN 0 223120 4807 5803 3209 3219 0.11618629956512905 ELFLIKRKLKV 11 Unmodified _ELFLIKRKLKV_ 0 0 0 REV__MYB|p.T443Lfs*18|1|0.16|ENSG00000118513|chr6:135199028-135199028|A/-|frameshift_variant REV__MYB|p.T443Lfs*18|1|0.16|ENSG00000118513|chr6:135199028-135199028|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 694.15380859375 2 693.963397 1385.91224 NaN NaN NaN NaN NaN NaN NaN 99.039 1 99.039 98.539 99.539 0 0 0 0 1.0072 1 54357 54357 1.3295 0.9789 1 + 4808 17845 3210 3220 5331 5331 0.23472198655576904 ELFLLVTLRE 10 Unmodified _ELFLLVTLRE_ 0 0 0 REV__ENSG00000185800|ENST00000270223|DMWD REV__ENSG00000185800|ENST00000270223|DMWD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 616.8701171875 2 616.866089 1231.71762 NaN NaN NaN NaN NaN NaN NaN 72.661 1 72.661 72.161 73.161 0 0 0 0 0.99812 1 35352 35352 3.2813 0 1 + 4809 14030 3211 3221 5332 5332 0.11103402779826865 ELFPDRAL 8 Unmodified _ELFPDRAL_ 0 0 0 ENST00000488316.1_1_20:62290755-62293122:+|nuORF;nc|ENSG00000258366|Q9NZ71-8|RTEL1;nc|ENSG00000258366|Q9NZ71-4|RTEL1;nc|ENSG00000258366|Q9NZ71|RTEL1;nc|ENSG00000258366|Q9NZ71-7|RTEL1;ENSG00000258366|ENST00000360203|RTEL1;nc|ENSG00000258366|Q9NZ71-2|RTEL1 ENST00000488316.1_1_20:62290755-62293122:+|nuORF ENST00000488316.1_1_20:62290755-62293122:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.7631530761719 2 480.761092 959.507631 3.2201 0.0015481 0.93129 0.00044773 4.1514 0.0019958 480.761150788893 22.157 0.34061 22.157 21.969 22.309 0 63 25 3 0 0 0 0.71384 1 9983 9983 4.756 1.8668 1 711230 4810 6299 3212 3222 5333 5333 0.026257848974637454 ELFRFLISL 9 Unmodified _ELFRFLISL_ 0 0 0 nc|ENSG00000107862|Q92538-3|GBF1;nc|ENSG00000107862|Q92538-2|GBF1;nc|ENSG00000107862|Q92538-1|GBF1;ENSG00000107862|ENST00000369983|GBF1 nc|ENSG00000107862|Q92538-3|GBF1 nc|ENSG00000107862|Q92538-3|GBF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.8973999023438 2 569.336967 1136.65938 NaN NaN NaN NaN NaN NaN NaN 94.448 1 94.708 94.208 95.208 0.25975 0 0 0 0.88916 1 43401 43401 6.2058 0 1 4811 1611 3213 3223 5334 5334 0.09651765925195832 ELFRKLVL 8 Unmodified _ELFRKLVL_ 0 0 0 ENST00000537312.5_1_12:121615084-121622602:+|nuORF;nc|ENSG00000089041|Q99572-6|P2RX7;nc|ENSG00000089041|Q99572-4|P2RX7;nc|ENSG00000089041|Q99572-8|P2RX7;ENST00000538011.5_1_12:121592718-121622602:+|nuORF;ENSG00000089041|ENST00000328963|P2RX7 ENST00000537312.5_1_12:121615084-121622602:+|nuORF ENST00000537312.5_1_12:121615084-121622602:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.3279724121094 2 509.326402 1016.63825 3.2422 0.0016513 0.45402 0.00023124 3.6962 0.0018826 509.3266517265676 56.16 0.21336 56.425 56.329 56.542 0.26543 12 7 2 0 0 0 0.029809 1 25681 25681 78.149 20.678 1 624740 4812 1026 3214 3224 5335 5335 0.13059800616315442 ELFRKLVL 8 Unmodified _ELFRKLVL_ 0 0 0 ENST00000537312.5_1_12:121615084-121622602:+|nuORF;nc|ENSG00000089041|Q99572-6|P2RX7;nc|ENSG00000089041|Q99572-4|P2RX7;nc|ENSG00000089041|Q99572-8|P2RX7;ENST00000538011.5_1_12:121592718-121622602:+|nuORF;ENSG00000089041|ENST00000328963|P2RX7 ENST00000537312.5_1_12:121615084-121622602:+|nuORF ENST00000537312.5_1_12:121615084-121622602:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 509.326402 1016.63825 3.3391 0.0017007 0.605 0.00030814 3.9441 0.0020088 509.3264704641266 55.428 0.20335 56.096 55.976 56.179 0.66798 -0.16474 6.1826E-05 NaN 78.149 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 792060 4813 1026 3214 3224 0.13059800616315442 ELFRKVSL 8 Unmodified _ELFRKVSL_ 0 0 0 PTPN13|p.I524Lfs*3|1|0.17|ENSG00000163629|chr4:86722394-86722394|A/-|frameshift_variant;PTPN13|p.P2038Sfs*15|1|0.05|ENSG00000163629|chr4:86784550-86784551|-/CTCCTCTTCTTTCTTA|frameshift_variant;nc|ENSG00000163629|Q12923-2|PTPN13;nc|ENSG00000163629|Q12923-3|PTPN13;ENSG00000163629|ENST00000411767|PTPN13;nc|ENSG00000163629|Q12923-4|PTPN13 PTPN13|p.I524Lfs*3|1|0.17|ENSG00000163629|chr4:86722394-86722394|A/-|frameshift_variant PTPN13|p.I524Lfs*3|1|0.17|ENSG00000163629|chr4:86722394-86722394|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.3022155761719 2 496.300384 990.586216 NaN NaN NaN NaN NaN NaN NaN 43.823 1 44.093 43.593 44.593 0.2694 0 0 0 0.081502 1 20019 20019 60.074 29.849 1 4814 4233 3215 3225 5336 5336 0.09054637202575577 ELFRSFQKL 9 Unmodified _ELFRSFQKL_ 0 0 0 ENST00000564489.1_1_16:75579850-75642318:-|nuORF;nc|ENSG00000065457|Q9BUB4-2|ADAT1;ENSG00000065457|ENST00000564657|ADAT1 ENST00000564489.1_1_16:75579850-75642318:-|nuORF ENST00000564489.1_1_16:75579850-75642318:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.89013671875 3 389.888874 1166.64479 NaN NaN NaN NaN NaN NaN NaN 26.033 1 26.658 26.158 27.158 0.62505 0 0 0 0.86621 1 11937 11937 7.1017 0 1 4815 9033 3216 3226 5337 5337 0.06813693777053231 ELFSLNRLFF 10 Unmodified _ELFSLNRLFF_ 0 0 0 REV__ENSG00000170790|ENST00000641461|OR10A2 REV__ENSG00000170790|ENST00000641461|OR10A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.3505249023438 2 643.350606 1284.68666 NaN NaN NaN NaN NaN NaN NaN 55.562 1 55.562 55.062 56.062 0 0 0 0 0.99733 1 25545 25545 3.9444 0 1 + 4816 13230 3217 3227 5338 5338 0.055702494655406554 ELGIKHSL 8 Unmodified _ELGIKHSL_ 0 0 0 nc|ENSG00000110841|Q86W92-4|PPFIBP1;ENSG00000110841|ENST00000228425|PPFIBP1;nc|ENSG00000110841|Q86W92|PPFIBP1;nc|ENSG00000110841|Q86W92-3|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 448.7650451660156 2 448.763635 895.512717 2.7756 0.0012456 0.73655 0.00033054 3.5121 0.0015761 448.7638454108039 27.301 0.21025 27.563 27.413 27.623 0.26245 28 17 2 0 0 0 0.029809 1 12392 12392 78.149 23.376 1 377470 4817 1731 3218 3228 5339 5339 0.06078088760091305 ELGIKHSL 8 Unmodified _ELGIKHSL_ 0 0 0 nc|ENSG00000110841|Q86W92-4|PPFIBP1;ENSG00000110841|ENST00000228425|PPFIBP1;nc|ENSG00000110841|Q86W92|PPFIBP1;nc|ENSG00000110841|Q86W92-3|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.7646484375 2 448.763635 895.512717 2.9951 0.0013441 0.0488 2.19E-05 3.0439 0.001366 448.7635524543311 26.854 0.1772 27.476 27.397 27.574 0.62179 20 12 2 0 0 0 0.018369 1 12303 12303 88.954 30.275 1 483480 4818 1731 3218 3228 5340 5340 0.06078088760091305 ELHFKIWVR 9 Unmodified _ELHFKIWVR_ 0 0 0 ENST00000429350.5_1_22:30414646-30446524:-|nuORF ENST00000429350.5_1_22:30414646-30446524:-|nuORF ENST00000429350.5_1_22:30414646-30446524:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.3550415039062 2 614.353483 1226.69241 NaN NaN NaN NaN NaN NaN NaN 9.9891 1 9.9891 9.4891 10.489 0 0 0 0 0.91238 1 4472 4472 0.52476 0 1 4819 7832 3219 3229 5341 5341 0.08813392767888217 ELHGKMISV 9 Unmodified _ELHGKMISV_ 0 0 0 nc|ENSG00000160633|Q15424-2|SAFB;nc|ENSG00000160633|Q15424|SAFB;nc|ENSG00000160633|Q15424-4|SAFB;ENSG00000160633|ENST00000588852|SAFB nc|ENSG00000160633|Q15424-2|SAFB nc|ENSG00000160633|Q15424-2|SAFB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.27783203125 2 507.276052 1012.53755 3.3069 0.0016775 -1.3777 -0.0006989 1.9292 0.00097861 507.27608146801515 29.824 0.21279 30.442 30.302 30.515 0.61789 21 13 2 0 0 0 0.019364 1 13688 13688 69.105 31.131 1 598690 4820 4069 3220 3230 5342 5342 0.03178400571164275 ELHKKLLSV 9 Unmodified _ELHKKLLSV_ 0 0 0 ENSG00000179151|ENST00000315127|EDC3 ENSG00000179151|ENST00000315127|EDC3 ENSG00000179151|ENST00000315127|EDC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 356.2265625 3 356.225486 1065.65463 NaN NaN NaN NaN NaN NaN NaN 23.293 1 23.568 23.068 24.068 0.27562 0 0 0 0.8506 1 10522 10522 7.609 0.97858 1 4821 5202 3221 3231 5343 5343 0.12442881782430959 ELHKKLLSV 9 Unmodified _ELHKKLLSV_ 0 0 0 ENSG00000179151|ENST00000315127|EDC3 ENSG00000179151|ENST00000315127|EDC3 ENSG00000179151|ENST00000315127|EDC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 356.2264099121094 3 356.225486 1065.65463 2.483 0.0008845 0.19922 7.0966E-05 2.6822 0.00095546 356.2255469028413 22.73 0.15535 23.37 23.277 23.433 0.64051 30 18 2 0 0 0 0.55815 1 10344 10344 11.495 3.8858 1 2511400 4822 5202 3221 3231 5344 5344 0.12442881782430959 ELHKKLLSV 9 Unmodified _ELHKKLLSV_ 0 0 0 ENSG00000179151|ENST00000315127|EDC3 ENSG00000179151|ENST00000315127|EDC3 ENSG00000179151|ENST00000315127|EDC3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 356.225486 1065.65463 1.8713 0.00066661 0.099278 3.5365E-05 1.9706 0.00070198 356.22568135133287 22.824 0.23962 23.411 23.366 23.605 0.58739 0.02036 -5.4032E-05 NaN 11.495 56 35 2 NaN NaN NaN NaN 0 NaN NaN 0 785910 4823 5202 3221 3231 0.12442881782430959 ELHKQIKSELK 11 Unmodified _ELHKQIKSELK_ 0 0 0 REV__ENST00000470335.1_1_22:20837987-20843498:-|nuORF REV__ENST00000470335.1_1_22:20837987-20843498:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 676.89990234375 2 676.898451 1351.78235 NaN NaN NaN NaN NaN NaN NaN 65.484 1 66.141 65.641 66.641 0.65672 0 0 0 0.94174 1 30021 30021 12.241 0.74595 1 + 4824 16589 3222 3232 5345 5345 0.12052977585790359 ELHLESVREA 10 Unmodified _ELHLESVREA_ 0 0 0 REV__nc|ENSG00000100266|Q9UNF0-2|PACSIN2 REV__nc|ENSG00000100266|Q9UNF0-2|PACSIN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.8082275390625 2 591.809302 1181.60405 NaN NaN NaN NaN NaN NaN NaN 40.79 1 40.79 40.29 41.29 0 0 0 0 0.99877 1 18522 18522 2.7352 1.2533 1 + 4825 10816 3223 3233 5346 5346 0.02051307666761204 ELHPLRIRQHR 11 Unmodified _ELHPLRIRQHR_ 0 0 0 REV__nc|ENSG00000137074|Q7Z2E3-12|APTX REV__nc|ENSG00000137074|Q7Z2E3-12|APTX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.61834716796875 3 485.619892 1453.83785 NaN NaN NaN NaN NaN NaN NaN 95.672 1 95.754 95.254 96.254 0.082001 0 0 0 1.0059 1 50626 50626 1.2148 0 1 + 4826 12095 3224 3234 5347 5347 0.12908248616781748 ELHRCIREGVK 11 Unmodified _ELHRCIREGVK_ 0 0 0 ENSG00000155858|ENST00000286307|LSM11 ENSG00000155858|ENST00000286307|LSM11 ENSG00000155858|ENST00000286307|LSM11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.7847900390625 2 670.366795 1338.71904 NaN NaN NaN NaN NaN NaN NaN 37.199 1 37.993 37.493 38.493 0.79342 0 0 0 0.94958 1 16855 16855 11.495 2.1116 1 4827 3879 3225 3235 5348 5348 0.06322713596887297 ELHRRLMAL 9 Unmodified _ELHRRLMAL_ 0 0 0 ENSG00000130382|ENST00000252674|MLLT1 ENSG00000130382|ENST00000252674|MLLT1 ENSG00000130382|ENST00000252674|MLLT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.222900390625 3 380.22197 1137.64408 2.6933 0.0010241 -0.95704 -0.00036389 1.7363 0.00066017 380.2214875336532 28.363 0.27067 28.623 28.503 28.774 0.2602 23 16 2 0 0 0 0.11458 2 12885 12885;12934 29.082 19.538 1 294070 4828 2592 3226 3236 5349;5350 5349 0.08076575856352974 ELHRRLMAL 9 Unmodified _ELHRRLMAL_ 0 0 0 ENSG00000130382|ENST00000252674|MLLT1 ENSG00000130382|ENST00000252674|MLLT1 ENSG00000130382|ENST00000252674|MLLT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.2230529785156 3 380.22197 1137.64408 2.6534 0.0010089 -0.6154 -0.00023399 2.038 0.00077488 380.22175764550497 27.915 0.22023 28.534 28.431 28.651 0.61947 25 15 2 0 0 0 0.46674 1 12796 12796 13.042 6.4121 1 287460 4829 2592 3226 3236 5351 5351 0.08076575856352974 ELHRRLMAL 9 Unmodified _ELHRRLMAL_ 0 0 0 ENSG00000130382|ENST00000252674|MLLT1 ENSG00000130382|ENST00000252674|MLLT1 ENSG00000130382|ENST00000252674|MLLT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 380.22197 1137.64408 3.0661 0.0011658 -0.60857 -0.00023139 2.4575 0.00093441 380.5559780833903 28.555 0.077 28.555 28.508 28.585 0 -0.016022 0.00015935 NaN 29.082 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 126070 4830 2592 3226 3236 0.08076575856352974 ELHRRLMTL 9 Unmodified _ELHRRLMTL_ 0 0 0 ENST00000488705.1_1_9:20346443-20382387:-|nuORF;nc|ENSG00000171843|P42568-2|MLLT3;ENSG00000171843|ENST00000380338|MLLT3 ENST00000488705.1_1_9:20346443-20382387:-|nuORF ENST00000488705.1_1_9:20346443-20382387:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.225830078125 3 390.225492 1167.65465 2.7879 0.0010879 0.25644 0.00010007 3.0444 0.001188 390.2255224075331 27.837 0.22549 28.099 27.97 28.196 0.26245 23 13 2 0 0 0 0.10945 1 12649 12649 5.7319 0.83484 1 417180 4831 4838 3227 3237 5352 5352 0.07752558510787821 ELHRRLMTL 9 Unmodified _ELHRRLMTL_ 0 0 0 ENST00000488705.1_1_9:20346443-20382387:-|nuORF;nc|ENSG00000171843|P42568-2|MLLT3;ENSG00000171843|ENST00000380338|MLLT3 ENST00000488705.1_1_9:20346443-20382387:-|nuORF ENST00000488705.1_1_9:20346443-20382387:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.2272644042969 3 390.225492 1167.65465 2.7326 0.0010663 0.75433 0.00029436 3.4869 0.0013607 390.2258407840959 27.423 0.27332 28.045 27.908 28.182 0.62178 37 19 3 0 0 0 0.22824 1 12570 12570 21.537 4.9711 1 358640 4832 4838 3227 3237 5353 5353 0.07752558510787821 ELIDLQPLI 9 Unmodified _ELIDLQPLI_ 0 0 0 PLCE1|p.Q1778Pfs*42|1|0.42|ENSG00000138193|chr10:94298540-94298541|-/C|frameshift_variant;nc|ENSG00000138193|Q9P212-2|PLCE1;ENSG00000138193|ENST00000371380|PLCE1 PLCE1|p.Q1778Pfs*42|1|0.42|ENSG00000138193|chr10:94298540-94298541|-/C|frameshift_variant PLCE1|p.Q1778Pfs*42|1|0.42|ENSG00000138193|chr10:94298540-94298541|-/C|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.6137084960938 2 527.313158 1052.61176 3.4974 0.0018442 1.0021 0.00052844 4.4995 0.0023726 527.3140457373336 98.631 0.10133 99.229 99.186 99.288 0.59748 12 7 2 0 0 0 0.16976 1 45483 45483 25.399 1.3787 1 1615400 4833 3082 3228 3238 5354 5354 0.08756066934347473 ELIIIILKGVM 11 Unmodified _ELIIIILKGVM_ 0 0 0 REV__ENST00000394288.7_2_4:129029149-129029425:+|nuORF REV__ENST00000394288.7_2_4:129029149-129029425:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.6052856445312 2 621.39871 1240.78287 NaN NaN NaN NaN NaN NaN NaN 97.307 1 97.377 96.877 97.877 0.070648 0 0 0 1.0071 1 51979 51979 1.4819 0.15237 1 + 4834 15965 3229 3239 5355 5355 0.1721068098129308 ELIKKHLL 8 Unmodified _ELIKKHLL_ 0 0 0 ENSG00000115415|ENST00000361099|STAT1;nc|ENSG00000115415|P42224-2|STAT1;ENST00000464072.1_1_2:191843483-191848388:-|nuORF ENSG00000115415|ENST00000361099|STAT1 ENSG00000115415|ENST00000361099|STAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.3279113769531 2 497.326402 992.638252 3.2524 0.0016175 0.0066325 3.2985E-06 3.259 0.0016208 497.32629653710313 26.328 0.27413 26.593 26.447 26.721 0.26489 65 21 4 0 0 0 0.010413 1 11966 11966 96.285 3.7933 1 2196700 4835 1969 3230 3240 5356 5356 0.14163800616313438 ELIKKHLL 8 Unmodified _ELIKKHLL_ 0 0 0 ENSG00000115415|ENST00000361099|STAT1;nc|ENSG00000115415|P42224-2|STAT1;ENST00000464072.1_1_2:191843483-191848388:-|nuORF ENSG00000115415|ENST00000361099|STAT1 ENSG00000115415|ENST00000361099|STAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.32781982421875 2 497.326402 992.638252 3.1239 0.0015536 0.14229 7.0763E-05 3.2662 0.0016244 497.32640359211325 25.972 0.30567 26.597 26.446 26.752 0.62505 63 22 4 0 0 0 0.010413 2 11881 11881;11924 96.285 3.7933 1 2921800 4836 1969 3230 3240 5357;5358 5357 0.14163800616313438 ELIKKNKF 8 Unmodified _ELIKKNKF_ 0 0 0 nc|ENSG00000127334|Q92630-2|DYRK2;ENSG00000127334|ENST00000344096|DYRK2;nc|ENSG00000143479|O43781-2|DYRK3;ENSG00000143479|ENST00000367109|DYRK3 nc|ENSG00000127334|Q92630-2|DYRK2 nc|ENSG00000127334|Q92630-2|DYRK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 340.546875 3 340.546449 1018.61752 1.8457 0.00062856 0.25706 8.7542E-05 2.1028 0.0007161 340.5465756946373 12.926 0.17577 13.233 13.125 13.301 0.30727 7 5 2 0 0 0 0.65679 1 5851 5851 9.3831 3.1773 1 202500 4837 2478 3231 3241 5359 5359 0.10895210236662933 ELIKKNKF 8 Unmodified _ELIKKNKF_ 0 0 0 nc|ENSG00000127334|Q92630-2|DYRK2;ENSG00000127334|ENST00000344096|DYRK2;nc|ENSG00000143479|O43781-2|DYRK3;ENSG00000143479|ENST00000367109|DYRK3 nc|ENSG00000127334|Q92630-2|DYRK2 nc|ENSG00000127334|Q92630-2|DYRK2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 340.546449 1018.61752 1.9763 0.00067301 -0.10851 -3.6953E-05 1.8678 0.00063606 340.5463961615854 13.007 0.097778 13.251 13.198 13.296 0.24346 0.0090174 -9.6898E-05 NaN 9.3831 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 142800 4838 2478 3231 3241 0.10895210236662933 ELIKQKKQI 9 Unmodified _ELIKQKKQI_ 0 0 0 REV__nc|ENSG00000132466|O75179-2|ANKRD17;REV__nc|ENSG00000132466|O75179-4|ANKRD17 REV__nc|ENSG00000132466|O75179-4|ANKRD17 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.5790710449219 3 376.576408 1126.70739 NaN NaN NaN NaN NaN NaN NaN 29.983 1 30.241 29.741 30.741 0.25804 0 0 0 0.75166 1 13645 13645 7.1017 2.2047 1 + 4839 11892;17942 3232 3242 5360 5360 0.14910839845242663 ELIKRYREQRR 11 Unmodified _ELIKRYREQRR_ 0 0 0 REV__ENSG00000159450|ENST00000614923|TCHH REV__ENSG00000159450|ENST00000614923|TCHH MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 773.951171875 2 773.949872 1545.88519 NaN NaN NaN NaN NaN NaN NaN 100.58 1 100.89 100.39 101.39 0.31412 0 0 0 1.0073 1 46532 46532 1.1933 0.84271 1 + 4840 12852 3233 3243 5361 5361 0.13408483097100543 ELIQKQLRKVE 11 Unmodified _ELIQKQLRKVE_ 0 0 0 REV__ENSG00000100302|ENST00000216127|RASD2 REV__ENSG00000100302|ENST00000216127|RASD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 692.4195556640625 2 692.419551 1382.82455 NaN NaN NaN NaN NaN NaN NaN 101.04 1 101.1 100.6 101.6 0.059723 0 0 0 1.0072 1 54860 54860 1.3295 0 1 + 4841 10819 3234 3244 5362 5362 0.14844952994144478 ELIRRLLFRKR 11 Unmodified _ELIRRLLFRKR_ 0 0 0 REV__ENST00000524965.5_1_8:145540848-145542370:-|nuORF REV__ENST00000524965.5_1_8:145540848-145542370:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 750.6416625976562 2 750.485894 1498.95723 NaN NaN NaN NaN NaN NaN NaN 105.82 1 105.87 105.37 106.37 0.04837 0 0 0 1.0072 1 57266 57266 1.3295 0 1 + 4842 13996 3235 3245 5363 5363 0.22771442241446493 ELIRWATFI 9 Unmodified _ELIRWATFI_ 0 0 0 REV__FOCAD|p.P1713Tfs*24|1|0.31|ENSG00000188352|chr9:20990253-20990254|-/G|frameshift_variant REV__FOCAD|p.P1713Tfs*24|1|0.31|ENSG00000188352|chr9:20990253-20990254|-/G|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 383.21875 3 383.553603 1147.63898 NaN NaN NaN NaN NaN NaN NaN 17.644 1 18.305 17.805 18.805 0.66072 0 0 0 0.81563 1 7966 7966 8.7454 0 1 + 4843 14146 3236 3246 5364 5364 0.07106595265372562 ELITKAVAA 9 Unmodified _ELITKAVAA_ 0 0 0 ENSG00000124575|ENST00000244534|H1-3;ENSG00000168298|ENST00000304218|H1-4;ENSG00000184357|ENST00000331442|H1-5;ENSG00000187837|ENST00000343677|H1-2 ENSG00000124575|ENST00000244534|H1-3;ENSG00000168298|ENST00000304218|H1-4;ENSG00000184357|ENST00000331442|H1-5;ENSG00000187837|ENST00000343677|H1-2 ENSG00000184357|ENST00000331442|H1-5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 458.2825012207031 2 458.279118 914.543683 2.7502 0.0012603 2.0429 0.00093623 4.7931 0.0021966 458.2805214478127 34.48 0.2285 34.734 34.627 34.855 0.25389 10 8 2 0 0 0 0.093314 1 15713 15713 34.402 3.7652 1 842460 4844 5435;2368;4619;5640 3237 3247 5365 5365 0.08299242074326685 ELITKAVAA 9 Unmodified _ELITKAVAA_ 0 0 0 ENSG00000124575|ENST00000244534|H1-3;ENSG00000168298|ENST00000304218|H1-4;ENSG00000184357|ENST00000331442|H1-5;ENSG00000187837|ENST00000343677|H1-2 ENSG00000124575|ENST00000244534|H1-3;ENSG00000168298|ENST00000304218|H1-4;ENSG00000184357|ENST00000331442|H1-5;ENSG00000187837|ENST00000343677|H1-2 ENSG00000184357|ENST00000331442|H1-5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 458.279118 914.543683 2.8396 0.0013013 1.1137 0.00051039 3.9533 0.0018117 458.2797879363801 34.074 0.19569 34.694 34.577 34.773 0.62031 -0.01989 -0.00025988 NaN 34.402 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 570860 4845 5435;2368;4619;5640 3237 3247 0.08299242074326685 ELIVILTLPL 10 Unmodified _ELIVILTLPL_ 0 0 0 REV__ENSG00000197106|ENST00000331565|SLC6A17 REV__ENSG00000197106|ENST00000331565|SLC6A17 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.23919677734375 3 375.249409 1122.7264 NaN NaN NaN NaN NaN NaN NaN 32.116 1 32.371 31.871 32.871 0.25452 0 0 0 1.0015 1 14624 14624 0.13989 0 1 + 4846 14257 3238 3248 5366 5366 0.169943764162781 ELKCQLYYDTY 11 Unmodified _ELKCQLYYDTY_ 0 0 0 REV__SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant REV__SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 719.8340454101562 2 719.831585 1437.64862 3.5612 0.0025635 0.062573 4.5042E-05 3.6238 0.0026085 719.8316796925805 46.649 0.19799 47.478 47.448 47.646 0.82915 17 11 2 0 0 0 0.83518 1 21254 21254 5.2969 1.7004 1 1139800 + 4847 12008 3239 3249 5367 5367 -0.05270049302066582 ELKEKFLRV 9 Unmodified _ELKEKFLRV_ 0 0 0 ENSG00000161800|ENST00000312377|RACGAP1 ENSG00000161800|ENST00000312377|RACGAP1 ENSG00000161800|ENST00000312377|RACGAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.9047546386719 3 387.904524 1160.69174 NaN NaN NaN NaN NaN NaN NaN 34.622 1 34.876 34.376 35.376 0.25389 0 0 0 0.8974 1 15770 15770 4.1895 1.691 1 4848 4103 3240 3250 5368 5368 0.11782553328180256 ELKEKLRSI 9 Unmodified _ELKEKLRSI_ 0 0 0 ENST00000515119.5_1_4:3517776-3534065:-|nuORF;ENST00000296325.9_1_4:3514703-3533784:-|nuORF;ENSG00000163956|ENST00000650182|LRPAP1 ENST00000515119.5_1_4:3517776-3534065:-|nuORF ENST00000515119.5_1_4:3517776-3534065:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 372.56488037109375 3 372.564279 1114.67101 NaN NaN NaN NaN NaN NaN NaN 20.773 1 21.06 20.56 21.56 0.28662 0 0 0 0.0063718 1 9427 9427 89.609 12.56 1 4849 4267 3241 3251 5369 5369 0.11825962948501001 ELKFKTGL 8 Unmodified _ELKFKTGL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF;nc|ENSG00000166888|P42226-3|STAT6 ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 468.2825927734375 2 468.28166 934.548768 2.7899 0.0013065 0.10516 4.9246E-05 2.8951 0.0013557 468.28154637991736 37.686 0.16978 38.482 38.419 38.588 0.79552 13 7 2 0 0 0 0.40815 1 17086 17086 27.629 13.723 1 374420 4850 4511 3242 3252 5370 5370 0.07887545936955576 ELKFKTGL 8 Unmodified _ELKFKTGL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF;nc|ENSG00000166888|P42226-3|STAT6 ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.28289794921875 2 468.28166 934.548768 2.5951 0.0012152 0.093063 4.358E-05 2.6881 0.0012588 468.28168230262963 38.512 0.24921 38.776 38.63 38.879 0.26408 13 8 3 0 0 0 0.036198 1 17536 17536 71.922 19.654 1 1411900 4851 4511 3242 3252 5371 5371 0.07887545936955576 ELKFKTGL 8 Unmodified _ELKFKTGL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF;nc|ENSG00000166888|P42226-3|STAT6 ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 468.28166 934.548768 2.8382 0.0013291 0.98038 0.0004591 3.8186 0.0017882 468.28206921495155 38.738 0.19833 38.738 38.636 38.834 0 0.087848 0.00025202 NaN 71.922 15 8 2 NaN NaN NaN NaN 0 NaN NaN 0 290560 4852 4511 3242 3252 0.07887545936955576 ELKFKTGL 8 Unmodified _ELKFKTGL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF;nc|ENSG00000166888|P42226-3|STAT6 ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 468.28166 934.548768 2.7337 0.0012801 1.0041 0.00047018 3.7377 0.0017503 468.2820675093046 37.972 0.31371 38.606 38.415 38.729 0.63389 -0.04437 0.00027419 NaN 71.922 23 10 3 NaN NaN NaN NaN 0 NaN NaN 0 650400 4853 4511 3242 3252 0.07887545936955576 ELKIAYQL 8 Unmodified _ELKIAYQL_ 0 0 0 nc|ENSG00000184432|P35606-2|COPB2;ENSG00000184432|ENST00000333188|COPB2 nc|ENSG00000184432|P35606-2|COPB2 nc|ENSG00000184432|P35606-2|COPB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.2882080078125 2 489.286943 976.559333 2.9777 0.001457 -0.87244 -0.00042687 2.1053 0.0010301 489.2862317749491 59.826 0.19072 59.826 59.655 59.846 0 21 14 2 0 0 0 0.070862 2 27628 27594;27628 58.679 10.333 1 736100 4854 5440 3243 3253 5372;5373 5373 0.07011528591374372 ELKIAYQL 8 Unmodified _ELKIAYQL_ 0 0 0 nc|ENSG00000184432|P35606-2|COPB2;ENSG00000184432|ENST00000333188|COPB2 nc|ENSG00000184432|P35606-2|COPB2 nc|ENSG00000184432|P35606-2|COPB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.28839111328125 2 489.286943 976.559333 3.1662 0.0015492 -0.40652 -0.00019891 2.7597 0.0013503 489.28683490130845 59.462 0.31107 59.722 59.569 59.88 0.2593 34 13 3 0 0 0 0.01453 1 27214 27214 92.491 0 1 2629100 4855 5440 3243 3253 5374 5374 0.07011528591374372 ELKIAYQL 8 Unmodified _ELKIAYQL_ 0 0 0 nc|ENSG00000184432|P35606-2|COPB2;ENSG00000184432|ENST00000333188|COPB2 nc|ENSG00000184432|P35606-2|COPB2 nc|ENSG00000184432|P35606-2|COPB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.2882995605469 2 489.286943 976.559333 3.2194 0.0015752 -0.09551 -4.6732E-05 3.1239 0.0015285 489.28688844560213 58.812 0.33935 59.48 59.321 59.661 0.66703 35 14 3 0 0 0 0.01453 2 26949 26890;26949 92.491 14.342 1 2893200 4856 5440 3243 3253 5375;5376 5376 0.07011528591374372 ELKIKRSLF 9 Unmodified _ELKIKRSLF_ 0 0 0 nc|ENSG00000138758|Q9NVA2-2|SEPTIN11;ENSG00000138758|ENST00000264893|SEPTIN11 nc|ENSG00000138758|Q9NVA2-2|SEPTIN11 nc|ENSG00000138758|Q9NVA2-2|SEPTIN11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.5740051269531 3 378.572886 1132.69683 2.5498 0.0009653 0.50293 0.00019039 3.0528 0.0011557 378.57303267440926 38.139 0.44244 38.772 38.528 38.97 0.63389 50 18 4 0 0 0 0.082627 1 17419 17419 37.075 2.1426 1 3320800 4857 9666 3244 3254 5377 5377 0.13578857190805138 ELKIRRSL 8 Unmodified _ELKIRRSL_ 0 0 0 nc|ENSG00000164402|Q92599-2|SEPTIN8;nc|ENSG00000164402|Q92599-4|SEPTIN8;ENSG00000164402|ENST00000378719|SEPTIN8;nc|ENSG00000164402|Q92599-3|SEPTIN8;ENST00000371478.2_1_5:132097291-132101152:-|nuORF nc|ENSG00000164402|Q92599-2|SEPTIN8 nc|ENSG00000164402|Q92599-2|SEPTIN8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.8865661621094 3 338.885464 1013.63456 2.4733 0.00083816 0.62232 0.0002109 3.0956 0.0010491 338.88572748125296 20.525 0.22043 21.178 21.073 21.294 0.65346 35 20 2 0 0 0 0.37709 1 9324 9324 29.841 9.426 1 239510 4858 4311 3245 3255 5378 5378 0.12829130842476388 ELKKAPVRTRA 11 Unmodified _ELKKAPVRTRA_ 0 0 0 REV__ENSG00000170876|ENST00000306077|TMEM43 REV__ENSG00000170876|ENST00000306077|TMEM43 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 423.5981140136719 3 423.598094 1267.77245 2.4743 0.0010481 -1.5796 -0.00066912 0.89463 0.00037896 423.5973208614413 100.43 0.08107 100.43 100.38 100.47 0 10 6 2 0 0 0 0.89844 1 55432 55432 1.0136 0 1 7403000 + 4859 13459 3246 3256 5379 5379 0.14927834371087556 ELKKAPVRTRA 11 Unmodified _ELKKAPVRTRA_ 0 0 0 REV__ENSG00000170876|ENST00000306077|TMEM43 REV__ENSG00000170876|ENST00000306077|TMEM43 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 423.59832763671875 3 423.598094 1267.77245 1.4638 0.00062008 -0.24435 -0.00010351 1.2195 0.00051657 423.5977519860668 100.31 0.093048 100.37 100.32 100.41 0.059723 8 6 2 0 0 0 0.89844 1 54408 54408 1.0136 0.051299 1 3897000 + 4860 13459 3246 3256 5380 5380 0.14927834371087556 ELKKAPVRTRA 11 Unmodified _ELKKAPVRTRA_ 0 0 0 REV__ENSG00000170876|ENST00000306077|TMEM43 REV__ENSG00000170876|ENST00000306077|TMEM43 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 423.59906005859375 3 423.598094 1267.77245 3.2291 0.0013678 -0.6956 -0.00029466 2.5335 0.0010732 423.59774612854886 100.17 0.13911 100.77 100.68 100.82 0.59717 17 4 5 0 0 0 0.89844 1 46346 46346 1.0136 0.38675 1 11227000 + 4861 13459 3246 3256 5381 5381 0.14927834371087556 ELKKGKYI 8 Unmodified _ELKKGKYI_ 0 0 0 ENST00000415922.6_1_6:26638669-26638894:-|nuORF ENST00000415922.6_1_6:26638669-26638894:-|nuORF ENST00000415922.6_1_6:26638669-26638894:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.8045349121094 2 489.80276 977.590967 3.2359 0.0015849 -0.037623 -1.8428E-05 3.1982 0.0015665 489.8025936503783 13.268 0.17188 13.268 13.183 13.355 0 29 13 3 0 0 0 0.12673 1 5789 5789 50.855 6.448 1 685940 4862 7708 3247 3257 5382 5382 0.1012752134532775 ELKKGKYI 8 Unmodified _ELKKGKYI_ 0 0 0 ENST00000415922.6_1_6:26638669-26638894:-|nuORF ENST00000415922.6_1_6:26638669-26638894:-|nuORF ENST00000415922.6_1_6:26638669-26638894:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.8039855957031 2 489.80276 977.590967 2.4956 0.0012223 0.58164 0.00028489 3.0772 0.0015072 489.80284202139757 12.801 0.16439 13.108 13.023 13.187 0.30727 7 4 2 0 0 0 0.47217 1 5798 5798 23.148 3.7094 1 539330 4863 7708 3247 3257 5383 5383 0.1012752134532775 ELKKHKLKWQR 11 Unmodified _ELKKHKLKWQR_ 0 0 0 REV__nc|ENSG00000100629|Q6ZU80-1|CEP128 REV__nc|ENSG00000100629|Q6ZU80-1|CEP128 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 747.4593505859375 2 747.456802 1492.89905 NaN NaN NaN NaN NaN NaN NaN 88.088 1 88.128 87.628 88.628 0.039955 0 0 0 1.008 1 44784 44784 0.35063 0.043601 1 + 4864 10841 3248 3258 5384 5384 0.1723176059620073 ELKKKEYEEL 10 Unmodified _ELKKKEYEEL_ 0 0 0 ENSG00000117724|ENST00000366955|CENPF ENSG00000117724|ENST00000366955|CENPF ENSG00000117724|ENST00000366955|CENPF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.24139404296875 3 436.906371 1307.69728 3.1358 0.00137 0.61334 0.00026797 3.7491 0.001638 436.906736811414 15.054 0.40027 15.708 15.555 15.955 0.65356 64 39 2 0 0 0 0.89464 1 6748 6748 1.9064 0.45126 1 136150 4865 2092 3249 3259 5385 5385 0.05574187329330016 ELKKKLFKRR 10 Unmodified _ELKKKLFKRR_ 0 0 0 ENST00000354588.7_1_11:62430524-62435168:-|nuORF;ENSG00000278615|ENST00000524958|C11orf98;ENST00000532786.2_1_11:62430524-62432598:-|nuORF ENST00000354588.7_1_11:62430524-62435168:-|nuORF ENST00000354588.7_1_11:62430524-62435168:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 673.440673828125 2 673.443163 1344.87177 NaN NaN NaN NaN NaN NaN NaN 96.105 1 96.182 95.682 96.682 0.076538 0 0 0 1.0001 1 50977 50977 1.6526 0.17072 1 4866 7144 3250 3260 5386 5386 0.2131327705581043 ELKKKPRR 8 Unmodified _ELKKKPRR_ 0 0 0 nc|ENSG00000101596|A6NHR9-2|SMCHD1;ENSG00000101596|ENST00000320876|SMCHD1;nc|ENSG00000101596|A6NHR9-3|SMCHD1;ENST00000584897.5_1_18:2726458-2784452:+|nuORF nc|ENSG00000101596|A6NHR9-2|SMCHD1 nc|ENSG00000101596|A6NHR9-2|SMCHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.8436279296875 2 527.845825 1053.6771 NaN NaN NaN NaN NaN NaN NaN 94.557 1 94.557 94.057 95.057 0 0 0 0 0.95658 1 50749 50749 8.5933 3.3626 1 4867 1302 3251 3261 5387 5387 0.15240525970693852 ELKKVAQEL 9 Unmodified _ELKKVAQEL_ 0 0 0 nc|ENSG00000100342|O14791-3|APOL1;ENSG00000100342|ENST00000397278|APOL1;nc|ENSG00000100342|O14791-2|APOL1 nc|ENSG00000100342|O14791-3|APOL1 nc|ENSG00000100342|O14791-3|APOL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.3182373046875 2 529.316232 1056.61791 2.8712 0.0015198 0.36417 0.00019276 3.2354 0.0017125 529.3161713531194 24.752 0.13042 25.488 25.431 25.561 0.73623 26 16 2 0 0 0 0.02631 1 11097 11097 60.074 8.4441 1 828820 4868 1206 3252 3262 5388 5388 0.09186585165844008 ELKKVAQEL 9 Unmodified _ELKKVAQEL_ 0 0 0 nc|ENSG00000100342|O14791-3|APOL1;ENSG00000100342|ENST00000397278|APOL1;nc|ENSG00000100342|O14791-2|APOL1 nc|ENSG00000100342|O14791-3|APOL1 nc|ENSG00000100342|O14791-3|APOL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.3181762695312 2 529.316232 1056.61791 3.3233 0.0017591 0.20334 0.00010763 3.5266 0.0018667 529.3163112804173 25.36 0.36867 25.628 25.455 25.824 0.26777 116 37 4 0 0 0 0.0012856 4 11532 11444;11487;11532;11580 121.5 32.427 1 10775000 4869 1206 3252 3262 5389;5390;5391;5392 5391 0.09186585165844008 ELKKVAQEL 9 Unmodified _ELKKVAQEL_ 0 0 0 nc|ENSG00000100342|O14791-3|APOL1;ENSG00000100342|ENST00000397278|APOL1;nc|ENSG00000100342|O14791-2|APOL1 nc|ENSG00000100342|O14791-3|APOL1 nc|ENSG00000100342|O14791-3|APOL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.317626953125 2 529.316232 1056.61791 3.1934 0.0016903 -0.32398 -0.00017149 2.8694 0.0015188 529.3160668027843 25.029 0.31276 25.658 25.499 25.812 0.62915 155 60 3 0 0 0 2.1659E-05 5 11441 11400;11411;11441;11481;11525 143.21 52.128 1 14559000 4870 1206 3252 3262 5393;5394;5395;5396;5397 5395 0.09186585165844008 ELKLKEIQL 9 Unmodified _ELKLKEIQL_ 0 0 0 ENST00000547616.2_1_14:19475147-19475555:-|nuORF;ENST00000438441.1_22:16365437-16366175:+|nuORF;nc|ENSG00000117650|P51955-3|NEK2;nc|ENSG00000117650|P51955-2|NEK2;nc|ENSG00000117650|P51955-4|NEK2;ENSG00000117650|ENST00000366999|NEK2 ENST00000547616.2_1_14:19475147-19475555:-|nuORF ENST00000547616.2_1_14:19475147-19475555:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.3489990234375 2 557.347532 1112.68051 3.361 0.0018732 -0.33201 -0.00018505 3.029 0.0016882 557.3472885218981 48.963 0.29808 49.79 49.621 49.919 0.82705 34 15 3 0 0 0 0.016363 1 22310 22310 73.196 1.4884 1 857160 4871 2087 3253 3263 5398 5398 0.12867731234041457 ELKLKEIQL 9 Unmodified _ELKLKEIQL_ 0 0 0 ENST00000547616.2_1_14:19475147-19475555:-|nuORF;ENST00000438441.1_22:16365437-16366175:+|nuORF;nc|ENSG00000117650|P51955-3|NEK2;nc|ENSG00000117650|P51955-2|NEK2;nc|ENSG00000117650|P51955-4|NEK2;ENSG00000117650|ENST00000366999|NEK2 ENST00000547616.2_1_14:19475147-19475555:-|nuORF ENST00000547616.2_1_14:19475147-19475555:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 371.90203857421875 3 371.90078 1112.68051 2.7323 0.0010161 -0.04034 -1.5003E-05 2.6919 0.0010011 371.9006965132431 49.147 0.50443 49.803 49.635 50.139 0.65524 38 17 4 0 0 0 0.034495 1 22485 22485 42.312 10.275 1 7683800 4872 2087 3253 3263 5399 5399 0.12867731234041457 ELKLKEIQL 9 Unmodified _ELKLKEIQL_ 0 0 0 ENST00000547616.2_1_14:19475147-19475555:-|nuORF;ENST00000438441.1_22:16365437-16366175:+|nuORF;nc|ENSG00000117650|P51955-3|NEK2;nc|ENSG00000117650|P51955-2|NEK2;nc|ENSG00000117650|P51955-4|NEK2;ENSG00000117650|ENST00000366999|NEK2 ENST00000547616.2_1_14:19475147-19475555:-|nuORF ENST00000547616.2_1_14:19475147-19475555:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 371.90078 1112.68051 2.7346 0.001017 -0.68059 -0.00025311 2.054 0.00076388 371.9004353631257 49.955 0.3362 49.955 49.793 50.13 0 0.076949 -0.00037478 NaN 42.312 38 15 3 NaN NaN NaN NaN 0 NaN NaN 0 1455400 4873 2087 3253 3263 0.12867731234041457 ELKLKEIQL 9 Unmodified _ELKLKEIQL_ 0 0 0 ENST00000547616.2_1_14:19475147-19475555:-|nuORF;ENST00000438441.1_22:16365437-16366175:+|nuORF;nc|ENSG00000117650|P51955-3|NEK2;nc|ENSG00000117650|P51955-2|NEK2;nc|ENSG00000117650|P51955-4|NEK2;ENSG00000117650|ENST00000366999|NEK2 ENST00000547616.2_1_14:19475147-19475555:-|nuORF ENST00000547616.2_1_14:19475147-19475555:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 371.90078 1112.68051 2.4646 0.00091658 -0.48948 -0.00018204 1.9751 0.00073454 371.90052607093355 48.957 0.44098 49.784 49.586 50.027 0.82705 -0.094594 -0.00016156 NaN 42.312 56 23 4 NaN NaN NaN NaN 0 NaN NaN 0 1224500 4874 2087 3253 3263 0.12867731234041457 ELKLKEIQL 9 Unmodified _ELKLKEIQL_ 0 0 0 ENST00000547616.2_1_14:19475147-19475555:-|nuORF;ENST00000438441.1_22:16365437-16366175:+|nuORF;nc|ENSG00000117650|P51955-3|NEK2;nc|ENSG00000117650|P51955-2|NEK2;nc|ENSG00000117650|P51955-4|NEK2;ENSG00000117650|ENST00000366999|NEK2 ENST00000547616.2_1_14:19475147-19475555:-|nuORF ENST00000547616.2_1_14:19475147-19475555:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 371.90078 1112.68051 2.7285 0.0010147 -0.24836 -9.2364E-05 2.4801 0.00092235 371.90061960184335 49.71 0.56566 49.971 49.755 50.32 0.26146 0.093232 0.00010746 NaN 42.312 62 22 4 NaN NaN NaN NaN 0 NaN NaN 0 6818500 4875 2087 3253 3263 0.12867731234041457 ELKNGDYVF 9 Unmodified _ELKNGDYVF_ 0 0 0 ENSG00000141034|ENST00000268719|GID4 ENSG00000141034|ENST00000268719|GID4 ENSG00000141034|ENST00000268719|GID4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.6312255859375 2 542.769114 1083.52368 NaN NaN NaN NaN NaN NaN NaN 95.77 1 95.77 95.27 96.27 0 0 0 0 0.77475 1 51662 51662 10.074 2.7847 1 4876 3233 3254 3264 5400 5400 -0.014745536562713824 ELKNKYYQV 9 Unmodified _ELKNKYYQV_ 0 0 0 ENSG00000162645|ENST00000370466|GBP2 ENSG00000162645|ENST00000370466|GBP2 ENSG00000162645|ENST00000370466|GBP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.8231811523438 2 592.819138 1183.62372 3.6876 0.0021861 -0.091527 -5.4259E-05 3.5961 0.0021318 592.8190935532634 26.259 0.27382 26.524 26.388 26.662 0.26489 42 23 2 0 0 0 0.010018 2 11926 11926;11973 81.89 25.713 1 528070 4877 4153 3255 3265 5401;5402 5401 0.039256836774939075 ELKNKYYQV 9 Unmodified _ELKNKYYQV_ 0 0 0 ENSG00000162645|ENST00000370466|GBP2 ENSG00000162645|ENST00000370466|GBP2 ENSG00000162645|ENST00000370466|GBP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.821044921875 2 592.819138 1183.62372 3.7489 0.0022224 0.21965 0.00013021 3.9685 0.0023526 592.8191695287793 25.933 0.26435 26.558 26.41 26.675 0.62505 42 21 3 0 0 0 0.00143 2 11901 11854;11901 110.67 62.926 1 829880 4878 4153 3255 3265 5403;5404 5404 0.039256836774939075 ELKNKYYQV 9 Unmodified _ELKNKYYQV_ 0 0 0 ENSG00000162645|ENST00000370466|GBP2 ENSG00000162645|ENST00000370466|GBP2 ENSG00000162645|ENST00000370466|GBP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.549560546875 3 395.548518 1183.62372 2.7878 0.0011027 0.035311 1.3967E-05 2.8232 0.0011167 395.54853038188963 25.923 0.28098 26.549 26.419 26.7 0.62505 62 22 4 0 0 0 0.3144 1 11900 11900 10.8 0 1 1482200 4879 4153 3255 3265 5405 5405 0.039256836774939075 ELKNRYQSF 9 Unmodified _ELKNRYQSF_ 0 0 0 ENSG00000167165|ENST00000305139|UGT1A6;nc|ENSG00000167165|P19224-3|UGT1A6 ENSG00000167165|ENST00000305139|UGT1A6 ENSG00000167165|ENST00000305139|UGT1A6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.8089599609375 2 592.806562 1183.59857 NaN NaN NaN NaN NaN NaN NaN 22.727 1 23.367 22.867 23.867 0.64051 0 0 0 0.0049413 1 10354 10354 100.09 48.461 1 4880 4533 3256 3266 5406 5406 0.01411628874939197 ELKQELKLRSL 11 Unmodified _ELKQELKLRSL_ 0 0 0 nc|ENSG00000196588|Q969V6|MRTFA;ENSG00000196588|ENST00000355630|MRTFA nc|ENSG00000196588|Q969V6|MRTFA nc|ENSG00000196588|Q969V6|MRTFA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 678.9130249023438 2 678.914101 1355.81365 NaN NaN NaN NaN NaN NaN NaN 82.169 1 82.169 81.669 82.669 0 0 0 0 1.0047 1 41047 41047 4.5289 0.93237 1 4881 5760 3257 3267 5407 5407 0.1499755061988708 ELKQRARYL 9 Unmodified _ELKQRARYL_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 392.90081787109375 3 392.899773 1175.67749 2.6395 0.0010371 0.31124 0.00012229 2.9507 0.0011593 392.8999327043899 14.342 0.18814 14.342 14.25 14.439 0 36 10 4 0 0 0 0.012748 2 6294 6294;6343 61.602 41.021 1 4118700 4882 4569 3258 3268 5408;5409 5408 0.09667900899921733 ELKQRARYL 9 Unmodified _ELKQRARYL_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 392.9007873535156 3 392.899773 1175.67749 2.4236 0.00095225 -0.004998 -1.9637E-06 2.4186 0.00095028 392.89975812215295 13.752 0.12517 13.996 13.937 14.062 0.24346 43 17 3 0 0 0 0.0081238 1 6007 6007 67.838 38.547 1 5813100 4883 4569 3258 3268 5410 5410 0.09667900899921733 ELKQRARYL 9 Unmodified _ELKQRARYL_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 392.900634765625 3 392.899773 1175.67749 2.6732 0.0010503 -0.70729 -0.00027789 1.966 0.00077242 392.8994983399459 14.053 0.092545 14.36 14.319 14.411 0.30727 33 12 4 0 0 0 0.0081238 1 6342 6342 67.838 41.817 1 45320000 4884 4569 3258 3268 5411 5411 0.09667900899921733 ELKQRARYL 9 Unmodified _ELKQRARYL_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.8482055664062 2 588.846022 1175.67749 NaN NaN NaN NaN NaN NaN NaN 14.043 1 14.35 13.85 14.85 0.30727 0 0 0 0.11997 1 6349 6349 37.974 13.953 1 4885 4569 3258 3268 5412 5412 0.09667900899921733 ELKQRARYL 9 Unmodified _ELKQRARYL_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 392.90118408203125 3 392.899773 1175.67749 2.9766 0.0011695 0.03755 1.4753E-05 3.0142 0.0011843 392.8998483680398 13.29 0.36498 13.933 13.759 14.124 0.64272 97 28 5 0 0 0 0.0063783 3 5960 5913;5960;6003 70.332 39.629 1 16955000 4886 4569 3258 3268 5413;5414;5415 5414 0.09667900899921733 ELKQRARYL 9 Unmodified _ELKQRARYL_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.8484497070312 2 588.846022 1175.67749 3.7561 0.0022117 0.31555 0.00018581 4.0716 0.0023975 588.8461990395233 13.284 0.27626 13.926 13.803 14.08 0.64272 61 21 4 0 0 0 0.10837 2 5970 5927;5970 30.637 12.49 1 1825000 4887 4569 3258 3268 5416;5417 5417 0.09667900899921733 ELKQRLRAM 9 Unmodified _ELKQRLRAM_ 0 0 0 ENSG00000136371|ENST00000258874|MTHFS ENSG00000136371|ENST00000258874|MTHFS ENSG00000136371|ENST00000258874|MTHFS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 382.2264404296875 3 382.225492 1143.65465 2.5849 0.00098803 -0.49025 -0.00018739 2.0947 0.00080064 382.2251250303587 14.253 0.077864 14.56 14.515 14.593 0.3069 7 4 2 0 0 0 0.026853 1 6455 6455 59.368 38.954 1 1297400 4888 2946 3259 3269 5418 5418 0.08856558510774448 ELKQRLRAM 9 Unmodified _ELKQRLRAM_ 0 0 0 ENSG00000136371|ENST00000258874|MTHFS ENSG00000136371|ENST00000258874|MTHFS ENSG00000136371|ENST00000258874|MTHFS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.2265930175781 3 382.225492 1143.65465 NaN NaN NaN NaN NaN NaN NaN 14.221 1 14.869 14.369 15.369 0.6482 0 0 0 0.17674 1 6397 6397 32.037 19.863 1 4889 2946 3259 3269 5419 5419 0.08856558510774448 ELKQRPSRRR 10 Unmodified _ELKQRPSRRR_ 0 0 0 REV__nc|ENSG00000086712|Q9NUQ3-2|TXLNG REV__nc|ENSG00000086712|Q9NUQ3-2|TXLNG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 442.6026306152344 3 442.600609 1324.78 3.7021 0.0016386 0.44715 0.00019791 4.1493 0.0018365 442.6006888562937 99.294 0.17906 99.593 99.517 99.696 0.29987 17 11 2 0 0 0 0.93713 1 45851 45851 0.62683 0.17231 1 3264400 + 4890 17872 3260 3270 5420 5420 0.13059986691359882 ELKQRPSRRR 10 Unmodified _ELKQRPSRRR_ 0 0 0 REV__nc|ENSG00000086712|Q9NUQ3-2|TXLNG REV__nc|ENSG00000086712|Q9NUQ3-2|TXLNG MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 442.600609 1324.78 3.7021 0.0016386 0.44715 0.00019791 4.1493 0.0018365 442.6006888562937 99.294 0.17906 99.593 99.517 99.696 0.29987 -0.089845 1.2372E-05 NaN 0.62683 17 11 2 NaN NaN NaN NaN 0 NaN NaN 0 3264400 + 4891 17872 3260 3270 0.13059986691359882 ELKQRPSRRR 10 Unmodified _ELKQRPSRRR_ 0 0 0 REV__nc|ENSG00000086712|Q9NUQ3-2|TXLNG REV__nc|ENSG00000086712|Q9NUQ3-2|TXLNG MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 442.600609 1324.78 3.3015 0.0014613 0.4252 0.0001882 3.7268 0.0016495 442.6005787844721 99.176 0.12265 99.773 99.73 99.853 0.59748 0.089845 -1.6772E-05 NaN 0.62683 15 7 3 NaN NaN NaN NaN 0 NaN NaN 0 4455000 + 4892 17872 3260 3270 0.13059986691359882 ELKQRWRPP 9 Unmodified _ELKQRWRPP_ 0 0 0 REV__ENSG00000174282|ENST00000380599|ZBTB4 REV__ENSG00000174282|ENST00000380599|ZBTB4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 605.3529052734375 2 605.346189 1208.67783 NaN NaN NaN NaN NaN NaN NaN 90.843 1 90.843 90.343 91.343 0 0 0 0 0.87786 1 47834 47834 6.7232 0.51738 1 + 4893 13629 3261 3271 5421 5421 0.08183320619764345 ELKRDPEP 8 Unmodified _ELKRDPEP_ 0 0 0 ENST00000243253.7_1_3:127771282-127774410:+|nuORF ENST00000243253.7_1_3:127771282-127774410:+|nuORF ENST00000243253.7_1_3:127771282-127774410:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.2648010253906 2 492.261456 982.50836 NaN NaN NaN NaN NaN NaN NaN 49.137 1 49.793 49.293 50.293 0.65524 0 0 0 0.55493 1 22479 22479 26.884 2.8631 1 4894 6472 3262 3272 5422 5422 0.016405795465288975 ELKRKFEQL 9 Unmodified _ELKRKFEQL_ 0 0 0 nc|ENSG00000090621|Q13310-2|PABPC4;nc|ENSG00000090621|Q13310|PABPC4;ENSG00000090621|ENST00000372858|PABPC4;ENST00000525751.5_1_1:40034389-40035574:-|nuORF nc|ENSG00000090621|Q13310-2|PABPC4 nc|ENSG00000090621|Q13310-2|PABPC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.56927490234375 3 397.567912 1189.68191 2.8988 0.0011525 -1.2933 -0.00051416 1.6055 0.00063832 397.901777301918 21 0.16225 21.287 21.232 21.394 0.28662 57 39 2 0 0 0 0.091193 1 9540 9540 34.932 3.6637 1 4814700 4895 1065 3263 3273 5423 5423 0.09465365322807884 ELKRKFEQL 9 Unmodified _ELKRKFEQL_ 0 0 0 nc|ENSG00000090621|Q13310-2|PABPC4;nc|ENSG00000090621|Q13310|PABPC4;ENSG00000090621|ENST00000372858|PABPC4;ENST00000525751.5_1_1:40034389-40035574:-|nuORF nc|ENSG00000090621|Q13310-2|PABPC4 nc|ENSG00000090621|Q13310-2|PABPC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 595.8500366210938 2 595.84823 1189.68191 NaN NaN NaN NaN NaN NaN NaN 20.984 1 21.638 21.138 22.138 0.65346 0 0 0 0.13549 1 9524 9524 37.075 3.6297 1 4896 1065 3263 3273 5424 5424 0.09465365322807884 ELKRKFEQL 9 Unmodified _ELKRKFEQL_ 0 0 0 nc|ENSG00000090621|Q13310-2|PABPC4;nc|ENSG00000090621|Q13310|PABPC4;ENSG00000090621|ENST00000372858|PABPC4;ENST00000525751.5_1_1:40034389-40035574:-|nuORF nc|ENSG00000090621|Q13310-2|PABPC4 nc|ENSG00000090621|Q13310-2|PABPC4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 397.567912 1189.68191 3.0041 0.0011943 -0.43556 -0.00017316 2.5685 0.0010212 397.9018878019678 21.01 0.1524 21.664 21.525 21.678 0.65346 0.18853 0.00077127 NaN 34.932 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 5999300 4897 1065 3263 3273 0.09465365322807884 ELKRKFEQM 9 Unmodified _ELKRKFEQM_ 0 0 0 nc|ENSG00000070756|P11940-2|PABPC1;ENSG00000070756|ENST00000318607|PABPC1 nc|ENSG00000070756|P11940-2|PABPC1 nc|ENSG00000070756|P11940-2|PABPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.5543212890625 3 403.553386 1207.63833 2.7518 0.0011105 -0.80541 -0.00032503 1.9464 0.00078549 403.55313663926654 14.33 0.13522 14.637 14.576 14.711 0.3069 17 5 4 0 0 0 0.10277 1 6487 6487 32.037 14.174 1 2938500 4898 770 3264 3274 5425 5425 0.04281432554012099 ELKRKFEQM 9 Unmodified _ELKRKFEQM_ 0 0 0 nc|ENSG00000070756|P11940-2|PABPC1;ENSG00000070756|ENST00000318607|PABPC1 nc|ENSG00000070756|P11940-2|PABPC1 nc|ENSG00000070756|P11940-2|PABPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 403.8885192871094 3 403.553386 1207.63833 3.0274 0.0012217 -0.054985 -2.2189E-05 2.9724 0.0011995 403.55339000874415 14.335 0.14373 14.983 14.911 15.055 0.64819 28 13 3 0 0 0 0.27615 1 6436 6436 18.373 7.5736 1 3673000 4899 770 3264 3274 5426 5426 0.04281432554012099 ELKRLKVLRLK 11 Unmodified _ELKRLKVLRLK_ 0 0 0 ENSG00000136802|ENST00000372600|LRRC8A ENSG00000136802|ENST00000372600|LRRC8A ENSG00000136802|ENST00000372600|LRRC8A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 698.5414428710938 2 698.479746 1394.94494 NaN NaN NaN NaN NaN NaN NaN 105.78 1 105.83 105.33 106.33 0.050888 0 0 0 1.008 1 57244 57244 0.35063 0.35063 1 4900 2973 3265 3275 5427 5427 0.26326405778445405 ELKRQRQVL 9 Unmodified _ELKRQRQVL_ 0 0 0 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-5|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-7|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-6|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 390.5764465332031 3 390.57529 1168.70404 2.8059 0.0010959 -0.58172 -0.0002272 2.2242 0.00086871 390.57506452240904 12.608 0.070706 12.608 12.575 12.646 0 9 5 2 0 0 0 0.015098 1 5494 5494 59.368 15.387 1 1404700 4901 9705 3266 3276 5428 5428 0.12643589791241538 ELKRQRQVL 9 Unmodified _ELKRQRQVL_ 0 0 0 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-5|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-7|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-6|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.5761413574219 3 390.57529 1168.70404 2.1337 0.00083337 0.19866 7.7592E-05 2.3324 0.00091096 390.5753630947249 12.433 0.065393 12.74 12.705 12.77 0.30727 5 3 2 0 0 0 0.020151 1 5612 5612 53.404 11.092 1 2961100 4902 9705 3266 3276 5429 5429 0.12643589791241538 ELKRQRQVL 9 Unmodified _ELKRQRQVL_ 0 0 0 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-5|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-7|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-6|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 390.57529 1168.70404 2.0521 0.0008015 0.41739 0.00016302 2.4695 0.00096452 390.5753962025134 12.452 0.041538 12.714 12.695 12.737 0.26154 0.026286 0.00034284 NaN 59.368 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 3084000 4903 9705 3266 3276 0.12643589791241538 ELKRRLGL 8 Unmodified _ELKRRLGL_ 0 0 0 nc|ENSG00000101150|O43399-6|TPD52L2;nc|ENSG00000101150|O43399-2|TPD52L2;nc|ENSG00000101150|O43399-4|TPD52L2;ENSG00000101150|ENST00000346249|TPD52L2;nc|ENSG00000101150|O43399-3|TPD52L2;nc|ENSG00000101150|O43399-5|TPD52L2;nc|ENSG00000101150|O43399-7|TPD52L2 nc|ENSG00000101150|O43399-6|TPD52L2 nc|ENSG00000101150|O43399-6|TPD52L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.88299560546875 3 328.881943 983.623999 2.3276 0.00076551 0.40867 0.0001344 2.7363 0.00089992 328.88202770963073 20.322 0.39906 20.322 20.156 20.555 0 102 35 4 0 0 0 0.045071 1 9106 9106 56.177 6.244 1 2119700 4904 1263 3267 3277 5430 5430 0.13153148188030173 ELKRRLGL 8 Unmodified _ELKRRLGL_ 0 0 0 nc|ENSG00000101150|O43399-6|TPD52L2;nc|ENSG00000101150|O43399-2|TPD52L2;nc|ENSG00000101150|O43399-4|TPD52L2;ENSG00000101150|ENST00000346249|TPD52L2;nc|ENSG00000101150|O43399-3|TPD52L2;nc|ENSG00000101150|O43399-5|TPD52L2;nc|ENSG00000101150|O43399-7|TPD52L2 nc|ENSG00000101150|O43399-6|TPD52L2 nc|ENSG00000101150|O43399-6|TPD52L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.882568359375 3 328.881943 983.623999 NaN NaN NaN NaN NaN NaN NaN 19.317 1 19.532 19.032 20.032 0.21445 0 0 0 0.21952 1 8603 8603 58.679 12.658 1 4905 1263 3267 3277 5431 5431 0.13153148188030173 ELKRRLGL 8 Unmodified _ELKRRLGL_ 0 0 0 nc|ENSG00000101150|O43399-6|TPD52L2;nc|ENSG00000101150|O43399-2|TPD52L2;nc|ENSG00000101150|O43399-4|TPD52L2;ENSG00000101150|ENST00000346249|TPD52L2;nc|ENSG00000101150|O43399-3|TPD52L2;nc|ENSG00000101150|O43399-5|TPD52L2;nc|ENSG00000101150|O43399-7|TPD52L2 nc|ENSG00000101150|O43399-6|TPD52L2 nc|ENSG00000101150|O43399-6|TPD52L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.8214111328125 2 492.819276 983.623999 3.03 0.0014932 -0.43765 -0.00021568 2.5923 0.0012775 492.8190183412363 19.754 0.26548 20.047 19.838 20.104 0.29239 44 22 3 0 0 0 0.70146 1 8948 8948 5.7604 0 1 1005300 4906 1263 3267 3277 5432 5432 0.13153148188030173 ELKRRLGL 8 Unmodified _ELKRRLGL_ 0 0 0 nc|ENSG00000101150|O43399-6|TPD52L2;nc|ENSG00000101150|O43399-2|TPD52L2;nc|ENSG00000101150|O43399-4|TPD52L2;ENSG00000101150|ENST00000346249|TPD52L2;nc|ENSG00000101150|O43399-3|TPD52L2;nc|ENSG00000101150|O43399-5|TPD52L2;nc|ENSG00000101150|O43399-7|TPD52L2 nc|ENSG00000101150|O43399-6|TPD52L2 nc|ENSG00000101150|O43399-6|TPD52L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.8828430175781 3 328.881943 983.623999 2.2245 0.0007316 0.4297 0.00014132 2.6542 0.00087292 328.88206469150924 19.754 0.26568 20.047 19.861 20.127 0.29239 66 24 4 0 0 0 0.033633 1 8955 8955 62.573 12.64 1 5856600 4907 1263 3267 3277 5433 5433 0.13153148188030173 ELKRRLGL 8 Unmodified _ELKRRLGL_ 0 0 0 nc|ENSG00000101150|O43399-6|TPD52L2;nc|ENSG00000101150|O43399-2|TPD52L2;nc|ENSG00000101150|O43399-4|TPD52L2;ENSG00000101150|ENST00000346249|TPD52L2;nc|ENSG00000101150|O43399-3|TPD52L2;nc|ENSG00000101150|O43399-5|TPD52L2;nc|ENSG00000101150|O43399-7|TPD52L2 nc|ENSG00000101150|O43399-6|TPD52L2 nc|ENSG00000101150|O43399-6|TPD52L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.8829040527344 3 328.881943 983.623999 2.3947 0.00078758 0.52537 0.00017278 2.9201 0.00096037 328.8820778230513 19.365 0.29583 20.023 19.858 20.153 0.6583 70 20 4 0 0 0 0.045071 1 8754 8754 56.177 6.244 1 8432100 4908 1263 3267 3277 5434 5434 0.13153148188030173 ELKRRLGL 8 Unmodified _ELKRRLGL_ 0 0 0 nc|ENSG00000101150|O43399-6|TPD52L2;nc|ENSG00000101150|O43399-2|TPD52L2;nc|ENSG00000101150|O43399-4|TPD52L2;ENSG00000101150|ENST00000346249|TPD52L2;nc|ENSG00000101150|O43399-3|TPD52L2;nc|ENSG00000101150|O43399-5|TPD52L2;nc|ENSG00000101150|O43399-7|TPD52L2 nc|ENSG00000101150|O43399-6|TPD52L2 nc|ENSG00000101150|O43399-6|TPD52L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.8208923339844 2 492.819276 983.623999 3.3529 0.0016524 -0.29274 -0.00014427 3.0602 0.0015081 492.81899297607424 19.361 0.33264 20.02 19.803 20.136 0.65829 52 23 3 0 0 0 0.37185 1 8802 8802 30.225 7.0764 1 2270900 4909 1263 3267 3277 5435 5435 0.13153148188030173 ELKRRYTII 9 Unmodified _ELKRRYTII_ 0 0 0 nc|ENSG00000136824|O95347-2|SMC2;ENSG00000136824|ENST00000374793|SMC2 nc|ENSG00000136824|O95347-2|SMC2 nc|ENSG00000136824|O95347-2|SMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.9128112792969 3 397.91179 1190.71354 2.9303 0.001166 0.19004 7.5619E-05 3.1204 0.0012416 397.9117262708228 27.293 0.17843 27.555 27.453 27.631 0.26245 18 15 2 0 0 0 0.89849 1 12417 12417 5.7319 0 1 261380 4910 2977 3268 3278 5436 5436 0.12581358076749893 ELKRSKRRRGK 11 Unmodified _ELKRSKRRRGK_ 0 0 0 REV__ENST00000275036.11_1_6:79911404-79912078:-|nuORF REV__ENST00000275036.11_1_6:79911404-79912078:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 707.4378051757812 2 707.4473 1412.88005 NaN NaN NaN NaN NaN NaN NaN 94.909 1 94.909 94.409 95.409 0 0 0 0 1.0061 1 51007 51007 2.7352 1.4057 1 + 4911 15074 3269 3279 5437 5437 0.19012224025141222 ELKSSISAL 9 Unmodified _ELKSSISAL_ 0 0 0 nc|ENSG00000116641|Q96N67-4|DOCK7;nc|ENSG00000116641|Q96N67-3|DOCK7;nc|ENSG00000116641|Q96N67-5|DOCK7;nc|ENSG00000116641|Q96N67-2|DOCK7;nc|ENSG00000116641|Q96N67-6|DOCK7;ENSG00000116641|ENST00000635253|DOCK7;DOCK7|p.E1876Lfs*12|1|0.03|ENSG00000116641|chr1:62476133-62476134|-/GTGCAATTTTGTTTGAGAAAGA|frameshift_variant nc|ENSG00000116641|Q96N67-4|DOCK7 nc|ENSG00000116641|Q96N67-4|DOCK7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.2757873535156 2 474.274032 946.533512 NaN NaN NaN NaN NaN NaN NaN 42.199 1 42.469 41.969 42.969 0.27021 0 0 0 0.024004 1 19244 19244 66.457 12.624 1 4912 2035 3270 3280 5438 5438 0.058106343490862855 ELKSSTVGL 9 Unmodified _ELKSSTVGL_ 0 0 0 ENST00000481619.5_1_X:153672624-153677371:+|nuORF;ENSG00000071859|ENST00000393600|FAM50A;ENSG00000145945|ENST00000648326|FAM50B ENST00000481619.5_1_X:153672624-153677371:+|nuORF ENST00000481619.5_1_X:153672624-153677371:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.2680358886719 2 467.266207 932.517862 2.7604 0.0012898 1.1552 0.0005398 3.9156 0.0018296 467.2666672866106 32.804 0.22234 33.423 33.304 33.526 0.61831 13 8 2 0 0 0 0.3144 1 15044 15044 15.847 4.2069 1 183800 4913 781 3271 3281 5439 5439 0.048903478320767135 ELKTKIEKL 9 Unmodified _ELKTKIEKL_ 0 0 0 ENST00000510751.5_1_5:169015420-169022772:+|nuORF;nc|ENSG00000040275|Q96EA4-2|SPDL1;ENST00000507232.5_1_5:169018105-169028825:+|nuORF;ENSG00000040275|ENST00000265295|SPDL1 ENST00000510751.5_1_5:169015420-169022772:+|nuORF ENST00000510751.5_1_5:169015420-169022772:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.3499755859375 2 551.347532 1100.68051 3.6941 0.0020367 0.53116 0.00029285 4.2253 0.0023296 551.347936841999 21.029 0.25633 21.029 20.88 21.136 0 27 15 2 0 0 0 0.051645 1 9396 9396 42.312 0 1 265090 4914 532 3272 3282 5440 5440 0.13419731234057508 ELKTKIEKL 9 Unmodified _ELKTKIEKL_ 0 0 0 ENST00000510751.5_1_5:169015420-169022772:+|nuORF;nc|ENSG00000040275|Q96EA4-2|SPDL1;ENST00000507232.5_1_5:169018105-169028825:+|nuORF;ENSG00000040275|ENST00000265295|SPDL1 ENST00000510751.5_1_5:169015420-169022772:+|nuORF ENST00000510751.5_1_5:169015420-169022772:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 367.9019470214844 3 367.90078 1100.68051 2.8313 0.0010416 0.18609 6.8461E-05 3.0174 0.0011101 367.90079203506247 21.023 0.3519 21.023 20.826 21.178 0 65 24 4 0 0 0 0.044031 1 9439 9439 49.742 0 1 2125900 4915 532 3272 3282 5441 5441 0.13419731234057508 ELKVKLQEM 9 Unmodified _ELKVKLQEM_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;ENST00000475726.5_1_22:36680347-36682008:-|nuORF;ENST00000486218.1_1_22:36680427-36682008:-|nuORF ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.32080078125 2 559.317917 1116.62128 3.4928 0.0019536 0.63352 0.00035434 4.1263 0.0023079 559.3182489215255 39.861 0.31059 39.861 39.729 40.04 0 28 13 3 0 0 0 0.00079456 1 18082 18082 128.57 55.605 1 897990 4916 1207 3273 3283 5442 5442 0.06763511948201995 ELKVKLQEM 9 Unmodified _ELKVKLQEM_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;ENST00000475726.5_1_22:36680347-36682008:-|nuORF;ENST00000486218.1_1_22:36680427-36682008:-|nuORF ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.3203735351562 2 559.317917 1116.62128 3.3374 0.0018667 -0.41747 -0.0002335 2.9199 0.0016332 559.3178921677406 38.73 0.3203 39.527 39.379 39.699 0.79762 32 14 3 0 0 0 0.68285 1 17592 17592 9.3831 2.66 1 534050 4917 1207 3273 3283 5443 5443 0.06763511948201995 ELKVKLQEM 9 Unmodified _ELKVKLQEM_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;ENST00000475726.5_1_22:36680347-36682008:-|nuORF;ENST00000486218.1_1_22:36680427-36682008:-|nuORF ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.320068359375 2 559.317917 1116.62128 3.5694 0.0019964 -0.4649 -0.00026003 3.1045 0.0017364 559.3177938172603 39.578 0.37092 39.845 39.666 40.037 0.26696 37 14 4 0 0 0 6.2995E-15 2 18029 17972;18029 176.43 62.225 1 1806200 4918 1207 3273 3283 5444;5445 5445 0.06763511948201995 ELKVKLQEM 9 Unmodified _ELKVKLQEM_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;ENST00000475726.5_1_22:36680347-36682008:-|nuORF;ENST00000486218.1_1_22:36680427-36682008:-|nuORF ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.31982421875 2 559.317917 1116.62128 3.6063 0.0020171 -0.036788 -2.0576E-05 3.5696 0.0019965 559.3179952059824 39.197 0.29837 39.835 39.649 39.948 0.63778 30 10 4 0 0 0 3.1999E-05 2 17938 17884;17938 139.78 53.644 1 1863000 4919 1207 3273 3283 5446;5447 5447 0.06763511948201995 ELLEDCWDADP 11 Unmodified _ELLEDCWDADP_ 0 0 0 nc|ENSG00000135409|Q16671-3|AMHR2;ENSG00000135409|ENST00000257863|AMHR2 nc|ENSG00000135409|Q16671-3|AMHR2 nc|ENSG00000135409|Q16671-3|AMHR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 652.9720458984375 2 653.268818 1304.52308 NaN NaN NaN NaN NaN NaN NaN 96.023 1 96.1 95.6 96.6 0.076538 0 0 0 1.0059 1 50920 50920 2.9952 0.93549 1 4920 2871 3274 3284 5448 5448 -0.11699761158297406 ELLFKRDYIIR 11 Unmodified _ELLFKRDYIIR_ 0 0 0 REV__ENST00000532219.5_3_5:139921832-139928844:+|nuORF REV__ENST00000532219.5_3_5:139921832-139928844:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 733.4290771484375 2 733.429919 1464.84528 NaN NaN NaN NaN NaN NaN NaN 70.027 1 70.027 69.527 70.527 0 0 0 0 1.0073 1 33910 33910 1.1933 0 1 + 4921 14625 3275 3285 5449 5449 0.13145543373843793 ELLFRPTAL 9 Unmodified _ELLFRPTAL_ 0 0 0 ENSG00000159256|ENST00000400485|MORC3 ENSG00000159256|ENST00000400485|MORC3 ENSG00000159256|ENST00000400485|MORC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.314453125 2 530.313492 1058.61243 3.4531 0.0018312 1.0115 0.00053641 4.4646 0.0023677 530.3137446474698 68.359 0.24939 68.611 68.482 68.732 0.25227 23 14 2 0 0 0 0.016529 2 31301 31301;31350 72.968 23.035 1 845510 4922 4017 3276 3286 5450;5451 5450 0.08546906374044738 ELLFRPTAL 9 Unmodified _ELLFRPTAL_ 0 0 0 ENSG00000159256|ENST00000400485|MORC3 ENSG00000159256|ENST00000400485|MORC3 ENSG00000159256|ENST00000400485|MORC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.3170166015625 2 530.313492 1058.61243 3.1837 0.0016884 1.7663 0.0009367 4.95 0.0026251 530.3141950009644 67.864 0.21248 68.522 68.375 68.587 0.65777 19 11 2 0 0 0 0.048676 1 31088 31088 47.749 13.347 1 657200 4923 4017 3276 3286 5452 5452 0.08546906374044738 ELLIRKLPF 9 Unmodified _ELLIRKLPF_ 0 0 0 ENST00000401004.2_1:120904811-120905087:+|nuORF;ENST00000586518.1_1_17:73774674-73775034:-|nuORF;ENSG00000278828|ENST00000685041|H3C10;ENSG00000277775|ENST00000618052|H3C7;ENSG00000275714|ENST00000613854|H3C1;ENSG00000275379|ENST00000616365|H3C11;ENSG00000274750|ENST00000614911|H3C6;ENSG00000273983|ENST00000614378|H3C8;ENSG00000203852|ENST00000403683|H3C15;ENSG00000197409|ENST00000356476|H3C4;ENSG00000197153|ENST00000359303|H3C12;ENSG00000183598|ENST00000331491|H3C13;ENSG00000168148|ENST00000366696|H3-4;ENSG00000163041|ENST00000366815|H3-3A;ENSG00000203811|ENST00000369158|H3C14;nc|ENSG00000273213|Q5TEC6|H3-7;ENSG00000188375|ENST00000340398|H3-5;ENSG00000132475|ENST00000254810|H3-3B ENST00000401004.2_1:120904811-120905087:+|nuORF ENST00000401004.2_1:120904811-120905087:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.9106140136719 3 376.909498 1127.70667 2.8299 0.0010666 0.18107 6.8246E-05 3.0109 0.0011349 376.90947870956 65.079 0.40482 65.327 65.13 65.535 0.24803 67 19 5 0 0 0 0.041436 3 29821 29775;29821;29871 38.176 0 1 7550400 4924 2707 3277 3287 5453;5454;5455 5454 0.14792045196168147 ELLIRKLPF 9 Unmodified _ELLIRKLPF_ 0 0 0 ENST00000401004.2_1:120904811-120905087:+|nuORF;ENST00000586518.1_1_17:73774674-73775034:-|nuORF;ENSG00000278828|ENST00000685041|H3C10;ENSG00000277775|ENST00000618052|H3C7;ENSG00000275714|ENST00000613854|H3C1;ENSG00000275379|ENST00000616365|H3C11;ENSG00000274750|ENST00000614911|H3C6;ENSG00000273983|ENST00000614378|H3C8;ENSG00000203852|ENST00000403683|H3C15;ENSG00000197409|ENST00000356476|H3C4;ENSG00000197153|ENST00000359303|H3C12;ENSG00000183598|ENST00000331491|H3C13;ENSG00000168148|ENST00000366696|H3-4;ENSG00000163041|ENST00000366815|H3-3A;ENSG00000203811|ENST00000369158|H3C14;nc|ENSG00000273213|Q5TEC6|H3-7;ENSG00000188375|ENST00000340398|H3-5;ENSG00000132475|ENST00000254810|H3-3B ENST00000401004.2_1:120904811-120905087:+|nuORF ENST00000401004.2_1:120904811-120905087:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.8626098632812 2 564.860609 1127.70667 3.6399 0.002056 -0.17691 -9.9931E-05 3.4629 0.0019561 564.8604667703266 65.12 0.44031 65.368 65.111 65.552 0.24803 56 21 4 0 0 0 1.0071E-05 2 29823 29778;29823 147.06 0 1 4863500 4925 2707 3277 3287 5456;5457 5457 0.14792045196168147 ELLIRKLPF 9 Unmodified _ELLIRKLPF_ 0 0 0 ENST00000401004.2_1:120904811-120905087:+|nuORF;ENST00000586518.1_1_17:73774674-73775034:-|nuORF;ENSG00000278828|ENST00000685041|H3C10;ENSG00000277775|ENST00000618052|H3C7;ENSG00000275714|ENST00000613854|H3C1;ENSG00000275379|ENST00000616365|H3C11;ENSG00000274750|ENST00000614911|H3C6;ENSG00000273983|ENST00000614378|H3C8;ENSG00000203852|ENST00000403683|H3C15;ENSG00000197409|ENST00000356476|H3C4;ENSG00000197153|ENST00000359303|H3C12;ENSG00000183598|ENST00000331491|H3C13;ENSG00000168148|ENST00000366696|H3-4;ENSG00000163041|ENST00000366815|H3-3A;ENSG00000203811|ENST00000369158|H3C14;nc|ENSG00000273213|Q5TEC6|H3-7;ENSG00000188375|ENST00000340398|H3-5;ENSG00000132475|ENST00000254810|H3-3B ENST00000401004.2_1:120904811-120905087:+|nuORF ENST00000401004.2_1:120904811-120905087:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.8624877929688 2 564.860609 1127.70667 3.6543 0.0020642 0.014255 8.0521E-06 3.6685 0.0020722 564.8605130920225 64.501 0.41193 65.158 64.961 65.373 0.65672 52 17 4 0 0 0 1.0071E-05 3 29571 29515;29571;29627 147.06 0 1 5768300 4926 2707 3277 3287 5458;5459;5460 5459 0.14792045196168147 ELLIRKLPF 9 Unmodified _ELLIRKLPF_ 0 0 0 ENST00000401004.2_1:120904811-120905087:+|nuORF;ENST00000586518.1_1_17:73774674-73775034:-|nuORF;ENSG00000278828|ENST00000685041|H3C10;ENSG00000277775|ENST00000618052|H3C7;ENSG00000275714|ENST00000613854|H3C1;ENSG00000275379|ENST00000616365|H3C11;ENSG00000274750|ENST00000614911|H3C6;ENSG00000273983|ENST00000614378|H3C8;ENSG00000203852|ENST00000403683|H3C15;ENSG00000197409|ENST00000356476|H3C4;ENSG00000197153|ENST00000359303|H3C12;ENSG00000183598|ENST00000331491|H3C13;ENSG00000168148|ENST00000366696|H3-4;ENSG00000163041|ENST00000366815|H3-3A;ENSG00000203811|ENST00000369158|H3C14;nc|ENSG00000273213|Q5TEC6|H3-7;ENSG00000188375|ENST00000340398|H3-5;ENSG00000132475|ENST00000254810|H3-3B ENST00000401004.2_1:120904811-120905087:+|nuORF ENST00000401004.2_1:120904811-120905087:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.910400390625 3 376.909498 1127.70667 2.7799 0.0010478 0.19377 7.3036E-05 2.9737 0.0011208 376.9094847442331 64.514 0.38409 65.171 64.961 65.345 0.65672 54 16 4 0 0 0 0.12301 2 29543 29543;29602 20.415 0 1 6618900 4927 2707 3277 3287 5461;5462 5461 0.14792045196168147 ELLKALVKQRP 11 Unmodified _ELLKALVKQRP_ 0 0 0 REV__ENST00000427191.6_1_4:87515546-87515657:+|nuORF REV__ENST00000427191.6_1_4:87515546-87515657:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.28082275390625 3 432.278362 1293.81326 NaN NaN NaN NaN NaN NaN NaN 58.295 1 59.054 58.554 59.554 0.75894 0 0 0 1.0044 1 26734 26734 2.2527 1.143 1 + 4928 16226 3278 3288 5463 5463 0.17810175690669894 ELLKHKDRITT 11 Unmodified _ELLKHKDRITT_ 0 0 0 nc|ENSG00000164304|Q8TC20-4|CAGE1;nc|ENSG00000164304|Q8TC20-3|CAGE1;ENSG00000164304|ENST00000502583|CAGE1 nc|ENSG00000164304|Q8TC20-4|CAGE1 nc|ENSG00000164304|Q8TC20-4|CAGE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 677.86474609375 2 677.396076 1352.7776 4.1471 0.0028092 -0.84524 -0.00057256 3.3018 0.0022366 677.3953447916282 93.628 0.56178 94.259 94.082 94.644 0.63115 42 25 2 0 0 0 0.91359 1 43034 43034 1.1933 0.79263 1 587350 4929 4302 3279 3289 5464 5464 0.1153209344302013 ELLKKEKI 8 Unmodified _ELLKKEKI_ 0 0 0 ENST00000461139.5_1_3:53259774-53265639:-|nuORF;ENSG00000163931|ENST00000462138|TKT;nc|ENSG00000163931|P29401-2|TKT ENST00000461139.5_1_3:53259774-53265639:-|nuORF ENST00000461139.5_1_3:53259774-53265639:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.218994140625 3 334.21822 999.632832 NaN NaN NaN NaN NaN NaN NaN 14.191 1 14.84 14.34 15.34 0.6482 0 0 0 0.11842 1 6383 6383 49.933 0 1 4930 4263 3280 3290 5465 5465 0.13300077033841262 ELLKKYHL 8 Unmodified _ELLKKYHL_ 0 0 0 nc|ENSG00000126226|Q5JVF3-3|PCID2;nc|ENSG00000126226|Q5JVF3-2|PCID2;ENSG00000126226|ENST00000337344|PCID2;nc|ENSG00000126226|Q5JVF3-4|PCID2 nc|ENSG00000126226|Q5JVF3-3|PCID2 nc|ENSG00000126226|Q5JVF3-3|PCID2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.8824462890625 3 348.546449 1042.61752 NaN NaN NaN NaN NaN NaN NaN 30.855 1 31.111 30.611 31.611 0.25614 0 0 0 0.99035 1 14041 14041 3.9444 1.2092 1 4931 2447 3281 3291 5466 5466 0.09791210236653569 ELLKKYHL 8 Unmodified _ELLKKYHL_ 0 0 0 nc|ENSG00000126226|Q5JVF3-3|PCID2;nc|ENSG00000126226|Q5JVF3-2|PCID2;ENSG00000126226|ENST00000337344|PCID2;nc|ENSG00000126226|Q5JVF3-4|PCID2 nc|ENSG00000126226|Q5JVF3-3|PCID2 nc|ENSG00000126226|Q5JVF3-3|PCID2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.5469055175781 3 348.546449 1042.61752 NaN NaN NaN NaN NaN NaN NaN 30.879 1 31.135 30.635 31.635 0.25614 0 0 0 0.99035 1 14053 14053 3.9444 1.2092 1 4932 2447 3281 3291 5467 5467 0.09791210236653569 ELLKRKEAL 9 Unmodified _ELLKRKEAL_ 0 0 0 nc|ENSG00000196526|Q8N556|AFAP1;ENSG00000196526|ENST00000420658|AFAP1;ENST00000505447.5_1_4:7765494-7780765:-|nuORF;ENST00000513842.1_1_4:7765494-7800689:-|nuORF nc|ENSG00000196526|Q8N556|AFAP1 nc|ENSG00000196526|Q8N556|AFAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 367.23382568359375 3 367.232641 1098.67609 2.431 0.00089274 0.38357 0.00014086 2.8145 0.0010336 367.232762603196 14.641 0.32505 14.948 14.815 15.14 0.3069 69 25 3 0 0 0 0.03963 1 6619 6619 51.63 13.015 1 1614200 4933 5751 3282 3292 5468 5468 0.1307026681113257 ELLKRKEAL 9 Unmodified _ELLKRKEAL_ 0 0 0 nc|ENSG00000196526|Q8N556|AFAP1;ENSG00000196526|ENST00000420658|AFAP1;ENST00000505447.5_1_4:7765494-7780765:-|nuORF;ENST00000513842.1_1_4:7765494-7800689:-|nuORF nc|ENSG00000196526|Q8N556|AFAP1 nc|ENSG00000196526|Q8N556|AFAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 367.2336730957031 3 367.232641 1098.67609 2.6745 0.00098215 0.43902 0.00016122 3.1135 0.0011434 367.23278830323375 14.709 0.34573 15.362 15.23 15.576 0.65356 79 32 3 0 0 0 0.028483 1 6633 6633 57.249 7.6948 1 1528200 4934 5751 3282 3292 5469 5469 0.1307026681113257 ELLKRRLG 8 Unmodified _ELLKRRLG_ 0 0 0 nc|ENSG00000055955|Q14624-4|ITIH4;ENST00000468472.1_1_3:52853923-52864679:-|nuORF;ITIH4|p.M609Wfs*50|1|0.57|ENSG00000055955|chr3:52820641-52820641|G/-|frameshift_variant;nc|ENSG00000055955|Q14624-3|ITIH4;nc|ENSG00000055955|Q14624-2|ITIH4;ENSG00000055955|ENST00000266041|ITIH4 nc|ENSG00000055955|Q14624-4|ITIH4 nc|ENSG00000055955|Q14624-4|ITIH4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.88287353515625 3 328.881943 983.623999 2.3276 0.00076551 0.40867 0.0001344 2.7363 0.00089992 328.88202770963073 20.322 0.39906 20.322 20.156 20.555 0 102 35 4 0 0 0 0.06577 1 9056 9056 49.933 8.0934 1 2119700 4935 9548 3283 3293 5470 5470 0.1315314818804154 ELLKRRLG 8 Unmodified _ELLKRRLG_ 0 0 0 nc|ENSG00000055955|Q14624-4|ITIH4;ENST00000468472.1_1_3:52853923-52864679:-|nuORF;ITIH4|p.M609Wfs*50|1|0.57|ENSG00000055955|chr3:52820641-52820641|G/-|frameshift_variant;nc|ENSG00000055955|Q14624-3|ITIH4;nc|ENSG00000055955|Q14624-2|ITIH4;ENSG00000055955|ENST00000266041|ITIH4 nc|ENSG00000055955|Q14624-4|ITIH4 nc|ENSG00000055955|Q14624-4|ITIH4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.8827819824219 3 328.881943 983.623999 2.2245 0.0007316 0.4297 0.00014132 2.6542 0.00087292 328.88206469150924 19.754 0.26568 20.047 19.861 20.127 0.29239 66 24 4 0 0 0 0.12673 1 8998 8998 41.84 7.4379 1 5856600 4936 9548 3283 3293 5471 5471 0.1315314818804154 ELLKRRLG 8 Unmodified _ELLKRRLG_ 0 0 0 nc|ENSG00000055955|Q14624-4|ITIH4;ENST00000468472.1_1_3:52853923-52864679:-|nuORF;ITIH4|p.M609Wfs*50|1|0.57|ENSG00000055955|chr3:52820641-52820641|G/-|frameshift_variant;nc|ENSG00000055955|Q14624-3|ITIH4;nc|ENSG00000055955|Q14624-2|ITIH4;ENSG00000055955|ENST00000266041|ITIH4 nc|ENSG00000055955|Q14624-4|ITIH4 nc|ENSG00000055955|Q14624-4|ITIH4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.8827819824219 3 328.881943 983.623999 2.3947 0.00078758 0.52537 0.00017278 2.9201 0.00096037 328.8820778230513 19.365 0.29583 20.023 19.858 20.153 0.6583 70 20 4 0 0 0 0.06577 1 8801 8801 49.933 8.0934 1 8432100 4937 9548 3283 3293 5472 5472 0.1315314818804154 ELLKRTAL 8 Unmodified _ELLKRTAL_ 0 0 0 ENST00000495601.1_1_2:148716324-148733527:-|nuORF;ENSG00000115947|ENST00000392857|ORC4 ENST00000495601.1_1_2:148716324-148733527:-|nuORF ENST00000495601.1_1_2:148716324-148733527:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.3015441894531 2 472.300384 942.586216 3.1865 0.001505 -0.16451 -7.77E-05 3.0219 0.0014273 472.30028611705626 28.644 0.20009 28.644 28.531 28.731 0 25 16 2 0 0 0 0.029809 1 12905 12905 78.149 0 1 379010 4938 2001 3284 3294 5473 5473 0.112626372025602 ELLKRTAL 8 Unmodified _ELLKRTAL_ 0 0 0 ENST00000495601.1_1_2:148716324-148733527:-|nuORF;ENSG00000115947|ENST00000392857|ORC4 ENST00000495601.1_1_2:148716324-148733527:-|nuORF ENST00000495601.1_1_2:148716324-148733527:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.30224609375 2 472.300384 942.586216 2.9601 0.001398 0.24748 0.00011689 3.2076 0.0015149 472.300458312189 27.72 0.24799 28.506 28.368 28.616 0.78627 30 21 2 0 0 0 0.31493 2 12450 12450;12506 34.402 0 1 262820 4939 2001 3284 3294 5474;5475 5474 0.112626372025602 ELLKRTAL 8 Unmodified _ELLKRTAL_ 0 0 0 ENST00000495601.1_1_2:148716324-148733527:-|nuORF;ENSG00000115947|ENST00000392857|ORC4 ENST00000495601.1_1_2:148716324-148733527:-|nuORF ENST00000495601.1_1_2:148716324-148733527:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.3017578125 2 472.300384 942.586216 2.8222 0.0013329 0.26529 0.0001253 3.0875 0.0014582 472.3003875251577 28.351 0.24475 28.611 28.492 28.736 0.2602 34 15 3 0 0 0 0.070862 2 12912 12864;12912 58.679 0 1 834110 4940 2001 3284 3294 5476;5477 5477 0.112626372025602 ELLKRTAL 8 Unmodified _ELLKRTAL_ 0 0 0 ENST00000495601.1_1_2:148716324-148733527:-|nuORF;ENSG00000115947|ENST00000392857|ORC4 ENST00000495601.1_1_2:148716324-148733527:-|nuORF ENST00000495601.1_1_2:148716324-148733527:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.3016357421875 2 472.300384 942.586216 2.9136 0.0013761 0.008173 3.8601E-06 2.9218 0.00138 472.30036143861423 27.893 0.26454 28.512 28.399 28.664 0.61947 42 18 3 0 0 0 0.022365 2 12813 12766;12813 85.272 0 1 1036300 4941 2001 3284 3294 5478;5479 5479 0.112626372025602 ELLLKLLAI 9 Unmodified _ELLLKLLAI_ 0 0 0 REV__nc|ENSG00000197653|Q8IVF4|DNAH10 REV__nc|ENSG00000197653|Q8IVF4|DNAH10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.3551025390625 2 513.352086 1024.68962 NaN NaN NaN NaN NaN NaN NaN 19.826 1 19.826 19.326 20.326 0 0 0 0 0.91014 1 8852 8852 2.0598 0 1 + 4942 14297 3285 3295 5480 5480 0.17826124590374093 ELLLQPLRLKR 11 Unmodified _ELLLQPLRLKR_ 0 0 0 ENST00000564793.1_1_16:75327852-75396798:-|nuORF ENST00000564793.1_1_16:75327852-75396798:-|nuORF ENST00000564793.1_1_16:75327852-75396798:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 689.9654541015625 2 689.948279 1377.882 NaN NaN NaN NaN NaN NaN NaN 105.14 1 105.19 104.69 105.69 0.050888 0 0 0 1.0072 1 56878 56878 1.3295 0.92882 1 4943 9036 3286 3296 5481 5481 0.20817839990377252 ELLLYIHSE 9 Unmodified _ELLLYIHSE_ 0 0 0 ENST00000483591.6_1_6:16432911-16433279:-|nuORF ENST00000483591.6_1_6:16432911-16433279:-|nuORF ENST00000483591.6_1_6:16432911-16433279:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.3449096679688 2 558.800414 1115.58628 NaN NaN NaN NaN NaN NaN NaN 12.915 1 13.557 13.057 14.057 0.64272 0 0 0 0.90611 1 5797 5797 2.0598 0 1 4944 8315 3287 3297 5482 5482 0.033105924118899566 ELLRFRRKRKN 11 Unmodified _ELLRFRRKRKN_ 0 0 0 nc|ENSG00000145451|O75311-2|GLRA3;ENSG00000145451|ENST00000274093|GLRA3 nc|ENSG00000145451|O75311-2|GLRA3 nc|ENSG00000145451|O75311-2|GLRA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 758.4696655273438 2 758.470775 1514.927 NaN NaN NaN NaN NaN NaN NaN 92.949 1 92.949 92.449 93.449 0 0 0 0 1.0072 1 49514 49514 1.3295 1.0225 1 4945 3469 3288 3298 5483 5483 0.1901308357630569 ELLRKERL 8 Unmodified _ELLRKERL_ 0 0 0 ENST00000557706.5_1_9:34647742-34649031:+|nuORF;ENST00000555086.5_1_9:34647111-34648905:+|nuORF;nc|ENSG00000213930|P07902-2|GALT;ENST00000554638.5_1_9:34647742-34650443:+|nuORF;ENSG00000213930|ENST00000378842|GALT ENST00000557706.5_1_9:34647742-34649031:+|nuORF ENST00000557706.5_1_9:34647742-34649031:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.8465881347656 3 352.888986 1055.64513 2.5367 0.00089517 0.36894 0.00013019 2.9056 0.0010254 353.2236544780835 14.268 0.11328 14.268 14.241 14.354 0 11 6 2 0 0 0 0.12369 1 6310 6310 17.443 0 1 648530 4946 6104 3289 3299 5484 5484 0.11953113496883816 ELLRKRQL 8 Unmodified _ELLRKRQL_ 0 0 0 REV__ENST00000562621.1_1_15:73048204-73048867:-|nuORF REV__ENST00000562621.1_1_15:73048204-73048867:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.56207275390625 3 352.560981 1054.66111 2.6374 0.00092984 -0.20604 -7.264E-05 2.4313 0.0008572 352.5608934612277 13.046 0.14943 13.046 12.981 13.13 0 12 7 2 0 0 0 0.19267 1 5694 5694 43.772 0 1 508650 + 4947 12847 3290 3300 5485 5485 0.13596819733811571 ELLRKRQL 8 Unmodified _ELLRKRQL_ 0 0 0 REV__ENST00000562621.1_1_15:73048204-73048867:-|nuORF REV__ENST00000562621.1_1_15:73048204-73048867:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.56109619140625 3 352.560981 1054.66111 NaN NaN NaN NaN NaN NaN NaN 12.691 1 12.998 12.498 13.498 0.30727 0 0 0 0.32671 1 5726 5726 34.402 0 1 + 4948 12847 3290 3300 5486 5486 0.13596819733811571 ELLRKRQL 8 Unmodified _ELLRKRQL_ 0 0 0 REV__ENST00000562621.1_1_15:73048204-73048867:-|nuORF REV__ENST00000562621.1_1_15:73048204-73048867:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 352.560981 1054.66111 2.6374 0.00092984 -0.20604 -7.264E-05 2.4313 0.0008572 352.5608934612277 13.046 0.14943 13.046 12.981 13.13 0 -0.027034 -1.3038E-05 NaN 43.772 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 508650 + 4949 12847 3290 3300 0.13596819733811571 ELLRKRQL 8 Unmodified _ELLRKRQL_ 0 0 0 REV__ENST00000562621.1_1_15:73048204-73048867:-|nuORF REV__ENST00000562621.1_1_15:73048204-73048867:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 352.560981 1054.66111 1.9248 0.00067861 -0.093638 -3.3013E-05 1.8312 0.00064559 352.5609970573582 12.708 0.047558 12.97 12.938 12.986 0.26154 -0.10345 0.00010584 NaN 43.772 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 740170 + 4950 12847 3290 3300 0.13596819733811571 ELLRKRQL 8 Unmodified _ELLRKRQL_ 0 0 0 REV__ENST00000562621.1_1_15:73048204-73048867:-|nuORF REV__ENST00000562621.1_1_15:73048204-73048867:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 352.560981 1054.66111 2.7814 0.00098062 -0.26963 -9.506E-05 2.5118 0.00088556 352.56077058170985 12.561 0.095084 13.204 13.149 13.244 0.64272 0.13049 -8.0298E-05 NaN 43.772 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 621720 + 4951 12847 3290 3300 0.13596819733811571 ELLRKYVL 8 Unmodified _ELLRKYVL_ 0 0 0 ENST00000419271.1_1_7:63353684-63354623:+|nuORF;ENSG00000154727|ENST00000400075|GABPA ENST00000419271.1_1_7:63353684-63354623:+|nuORF ENST00000419271.1_1_7:63353684-63354623:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.325927734375 2 517.32386 1032.63317 3.4909 0.0018059 -0.034357 -1.7774E-05 3.4565 0.0017881 517.3237445553592 39.816 0.29298 40.083 39.906 40.199 0.26696 22 9 3 0 0 0 0.033113 1 18106 18106 74.929 0 1 803010 4952 3836 3291 3301 5487 5487 0.11815496753706611 ELLRKYVL 8 Unmodified _ELLRKYVL_ 0 0 0 ENST00000419271.1_1_7:63353684-63354623:+|nuORF;ENSG00000154727|ENST00000400075|GABPA ENST00000419271.1_1_7:63353684-63354623:+|nuORF ENST00000419271.1_1_7:63353684-63354623:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.324951171875 2 517.32386 1032.63317 3.2536 0.0016832 -0.53537 -0.00027696 2.7183 0.0014062 517.3235330263446 44.682 0.26899 44.95 44.799 45.068 0.26768 19 13 2 0 0 0 0.033113 1 20413 20413 74.929 0 1 785710 4953 3836 3291 3301 5488 5488 0.11815496753706611 ELLRKYVL 8 Unmodified _ELLRKYVL_ 0 0 0 ENST00000419271.1_1_7:63353684-63354623:+|nuORF;ENSG00000154727|ENST00000400075|GABPA ENST00000419271.1_1_7:63353684-63354623:+|nuORF ENST00000419271.1_1_7:63353684-63354623:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.3259887695312 2 517.32386 1032.63317 3.5335 0.001828 0.25376 0.00013128 3.7873 0.0019592 517.3239106671448 39.407 0.27574 40.045 39.861 40.137 0.63778 22 9 3 0 0 0 0.051348 1 18003 18003 65.235 0 1 734830 4954 3836 3291 3301 5489 5489 0.11815496753706611 ELLRKYVL 8 Unmodified _ELLRKYVL_ 0 0 0 ENST00000419271.1_1_7:63353684-63354623:+|nuORF;ENSG00000154727|ENST00000400075|GABPA ENST00000419271.1_1_7:63353684-63354623:+|nuORF ENST00000419271.1_1_7:63353684-63354623:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.325439453125 2 517.32386 1032.63317 3.5583 0.0018408 0.29684 0.00015356 3.8551 0.0019943 517.3238591119672 44.041 0.20329 44.69 44.601 44.804 0.64915 12 7 2 0 0 0 0.029809 1 20211 20211 78.149 0 1 709240 4955 3836 3291 3301 5490 5490 0.11815496753706611 ELLRKYVL 8 Unmodified _ELLRKYVL_ 0 0 0 ENST00000419271.1_1_7:63353684-63354623:+|nuORF;ENSG00000154727|ENST00000400075|GABPA ENST00000419271.1_1_7:63353684-63354623:+|nuORF ENST00000419271.1_1_7:63353684-63354623:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 517.32386 1032.63317 3.2804 0.001697 0.63406 0.00032801 3.9145 0.0020251 517.3242830352755 40.095 0.2138 40.095 39.985 40.199 0 0.09288 0.00042309 NaN 74.929 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 239900 4956 3836 3291 3301 0.11815496753706611 ELLRKYVL 8 Unmodified _ELLRKYVL_ 0 0 0 ENST00000419271.1_1_7:63353684-63354623:+|nuORF;ENSG00000154727|ENST00000400075|GABPA ENST00000419271.1_1_7:63353684-63354623:+|nuORF ENST00000419271.1_1_7:63353684-63354623:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 517.32386 1032.63317 3.3805 0.0017488 -0.13851 -7.1656E-05 3.242 0.0016772 517.3237782781719 38.99 0.22306 39.787 39.637 39.86 0.79762 -0.2152 -0.00037625 NaN 74.929 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 196700 4957 3836 3291 3301 0.11815496753706611 ELLRLYTKSS 10 Unmodified _ELLRLYTKSS_ 0 0 0 AFAP1L2|p.L204Cfs*15|1|0.31|ENSG00000169129|chr10:114315563-114315563|A/-|frameshift_variant;nc|ENSG00000169129|Q8N4X5-2|AFAP1L2;ENSG00000169129|ENST00000304129|AFAP1L2;nc|ENSG00000169129|Q8N4X5-4|AFAP1L2 AFAP1L2|p.L204Cfs*15|1|0.31|ENSG00000169129|chr10:114315563-114315563|A/-|frameshift_variant AFAP1L2|p.L204Cfs*15|1|0.31|ENSG00000169129|chr10:114315563-114315563|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 605.3150024414062 2 605.34552 1208.67649 NaN NaN NaN NaN NaN NaN NaN 96.843 1 96.92 96.42 97.42 0.076538 0 0 0 0.98664 1 51581 51581 7.609 0.88579 1 4958 15 3292 3302 5491 5491 0.08049641740331026 ELLRRKLI 8 Unmodified _ELLRRKLI_ 0 0 0 nc|ENSG00000116584|Q92974-3|ARHGEF2;nc|ENSG00000116584|Q92974-2|ARHGEF2;ENSG00000116584|ENST00000361247|ARHGEF2;ENST00000474428.6_1_1:155922555-155932010:-|nuORF nc|ENSG00000116584|Q92974-3|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.57037353515625 3 347.569476 1039.6866 2.5348 0.00088104 -0.066072 -2.2965E-05 2.4688 0.00085807 347.5694554232289 28.944 0.14853 29.204 29.15 29.299 0.2602 20 12 2 0 0 0 0.49519 1 13162 13162 21.537 3.3906 1 473180 4959 2034 3293 3303 5492 5492 0.16834294256227622 ELLRRKLI 8 Unmodified _ELLRRKLI_ 0 0 0 nc|ENSG00000116584|Q92974-3|ARHGEF2;nc|ENSG00000116584|Q92974-2|ARHGEF2;ENSG00000116584|ENST00000361247|ARHGEF2;ENST00000474428.6_1_1:155922555-155932010:-|nuORF nc|ENSG00000116584|Q92974-3|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.5704345703125 3 347.569476 1039.6866 2.3769 0.00082615 0.2939 0.00010215 2.6708 0.0009283 347.56959905136927 28.58 0.31158 29.199 29.026 29.337 0.61947 35 15 3 0 0 0 0.64827 1 13133 13133 10.074 0 1 394710 4960 2034 3293 3303 5493 5493 0.16834294256227622 ELLRRKLI 8 Unmodified _ELLRRKLI_ 0 0 0 nc|ENSG00000116584|Q92974-3|ARHGEF2;nc|ENSG00000116584|Q92974-2|ARHGEF2;ENSG00000116584|ENST00000361247|ARHGEF2;ENST00000474428.6_1_1:155922555-155932010:-|nuORF nc|ENSG00000116584|Q92974-3|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 347.569476 1039.6866 2.4366 0.00084688 -0.5346 -0.00018581 1.902 0.00066107 347.90358967418024 28.314 0.031925 29.101 29.092 29.124 0.78627 -0.067218 -0.00058332 NaN 21.537 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 374570 4961 2034 3293 3303 0.16834294256227622 ELLRYKRIQRK 11 Unmodified _ELLRYKRIQRK_ 0 0 0 ENSG00000124587|ENST00000304611|PEX6;nc|ENSG00000124587|Q13608-3|PEX6 ENSG00000124587|ENST00000304611|PEX6 ENSG00000124587|ENST00000304611|PEX6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 751.966552734375 2 751.967534 1501.92051 NaN NaN NaN NaN NaN NaN NaN 94.228 1 94.314 93.814 94.814 0.086212 0 0 0 1.008 1 49519 49519 0.35063 0 1 4962 2369 3294 3304 5494 5494 0.18963145624911704 ELLSSRELF 9 Unmodified _ELLSSRELF_ 0 0 0 REV__ENST00000282120.6_1_2:85547375-85547630:-|nuORF REV__ENST00000282120.6_1_2:85547375-85547630:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.3003540039062 2 547.298039 1092.58152 3.7946 0.0020768 -0.0085638 -4.6869E-06 3.786 0.0020721 547.2981192556431 67.616 0.28043 67.866 67.728 68.008 0.2501 24 14 2 0 0 0 0.64206 1 31033 31033 10.074 1.3285 1 850470 + 4963 15092 3295 3305 5495 5495 0.038937082691290925 ELLTRIREL 9 Unmodified _ELLTRIREL_ 0 0 0 REV__nc|ENSG00000126012|P41229-3|KDM5C REV__nc|ENSG00000126012|P41229-3|KDM5C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.56866455078125 3 381.567912 1141.68191 2.7421 0.0010463 0.0021301 8.1279E-07 2.7443 0.0010471 381.56784799303466 14.362 0.17651 14.362 14.279 14.455 0 23 9 3 0 0 0 0.076469 1 6328 6328 38.615 3.6827 1 591940 + 4964 11703 3296 3306 5496 5496 0.11673365322803875 ELLTRIREL 9 Unmodified _ELLTRIREL_ 0 0 0 REV__nc|ENSG00000126012|P41229-3|KDM5C REV__nc|ENSG00000126012|P41229-3|KDM5C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.5690612792969 3 381.567912 1141.68191 2.8618 0.001092 -0.11099 -4.2352E-05 2.7508 0.0010496 381.5677192662846 13.293 0.26313 13.935 13.803 14.066 0.64272 49 20 3 0 0 0 0.035495 2 5969 5928;5969 53.404 3.8497 1 1318600 + 4965 11703 3296 3306 5497;5498 5498 0.11673365322803875 ELLTRIREL 9 Unmodified _ELLTRIREL_ 0 0 0 REV__nc|ENSG00000126012|P41229-3|KDM5C REV__nc|ENSG00000126012|P41229-3|KDM5C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 381.567912 1141.68191 2.7421 0.0010463 0.0021301 8.1279E-07 2.7443 0.0010471 381.56784799303466 14.362 0.17651 14.362 14.279 14.455 0 0 0 NaN 38.615 23 9 3 NaN NaN NaN NaN 0 NaN NaN 0 591940 + 4966 11703 3296 3306 0.11673365322803875 ELLTVKKRKQ 10 Unmodified _ELLTVKKRKQ_ 0 0 0 nc|ENSG00000101977|P10911-6|MCF2;nc|ENSG00000101977|P10911-2|MCF2;nc|ENSG00000101977|P10911|MCF2;nc|ENSG00000101977|P10911-4|MCF2;nc|ENSG00000101977|P10911-3|MCF2;ENSG00000101977|ENST00000519895|MCF2 nc|ENSG00000101977|P10911-6|MCF2 nc|ENSG00000101977|P10911-6|MCF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.8969116210938 2 621.898254 1241.78196 NaN NaN NaN NaN NaN NaN NaN 96.22 1 96.296 95.796 96.796 0.076538 0 0 0 1.0001 1 51071 51071 1.6526 0.17072 1 4967 1324 3297 3307 5499 5499 0.17073602656591902 ELLVFEQFL 9 Unmodified _ELLVFEQFL_ 0 0 0 nc|ENSG00000173258|Q8TF39-2|ZNF483;ENSG00000173258|ENST00000309235|ZNF483 nc|ENSG00000173258|Q8TF39-2|ZNF483 nc|ENSG00000173258|Q8TF39-2|ZNF483 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.8788757324219 3 379.877864 1136.61176 2.3262 0.00088366 0.48698 0.00018499 2.8132 0.0010687 379.8781274824401 13.394 0.30448 13.701 13.564 13.868 0.30727 54 23 3 0 0 0 0.1229 1 6045 6045 28.495 3.0952 1 502170 4968 4924 3298 3308 5500 5500 0.04892066934326067 ELLVFEQFL 9 Unmodified _ELLVFEQFL_ 0 0 0 nc|ENSG00000173258|Q8TF39-2|ZNF483;ENSG00000173258|ENST00000309235|ZNF483 nc|ENSG00000173258|Q8TF39-2|ZNF483 nc|ENSG00000173258|Q8TF39-2|ZNF483 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 379.877864 1136.61176 2.7757 0.0010544 0.22973 8.7269E-05 3.0054 0.0011417 380.2123562891428 14.02 0.067062 14.02 13.971 14.038 0 0.27583 -0.00021013 NaN 28.495 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 229850 4969 4924 3298 3308 0.04892066934326067 ELLVFEQFL 9 Unmodified _ELLVFEQFL_ 0 0 0 nc|ENSG00000173258|Q8TF39-2|ZNF483;ENSG00000173258|ENST00000309235|ZNF483 nc|ENSG00000173258|Q8TF39-2|ZNF483 nc|ENSG00000173258|Q8TF39-2|ZNF483 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 379.877864 1136.61176 2.2187 0.00084282 0.23953 9.0993E-05 2.4582 0.00093381 379.8780070662287 13.418 0.10062 13.661 13.589 13.689 0.24346 -0.082918 -0.00019896 NaN 28.495 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 229490 4970 4924 3298 3308 0.04892066934326067 ELLVFEQFL 9 Unmodified _ELLVFEQFL_ 0 0 0 nc|ENSG00000173258|Q8TF39-2|ZNF483;ENSG00000173258|ENST00000309235|ZNF483 nc|ENSG00000173258|Q8TF39-2|ZNF483 nc|ENSG00000173258|Q8TF39-2|ZNF483 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 379.877864 1136.61176 2.9347 0.0011148 0.42098 0.00015992 3.3556 0.0012747 379.878087782941 12.952 0.24494 13.595 13.48 13.725 0.64272 -0.14958 7.8251E-06 NaN 28.495 16 7 3 NaN NaN NaN NaN 0 NaN NaN 0 1173900 4971 4924 3298 3308 0.04892066934326067 ELLWKNKKRIY 11 Unmodified _ELLWKNKKRIY_ 0 0 0 REV__nc|ENSG00000138430|Q9NTK5-3|OLA1 REV__nc|ENSG00000138430|Q9NTK5-3|OLA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 745.93505859375 2 745.945736 1489.87692 NaN NaN NaN NaN NaN NaN NaN 99.32 1 99.917 99.417 100.42 0.59748 0 0 0 1.0072 1 45919 45919 1.3295 0 1 + 4972 17958 3299 3309 5501 5501 0.15157536127799176 ELLWLLGRA 9 Unmodified _ELLWLLGRA_ 0 0 0 REV__nc|ENSG00000196535|Q92614-5|MYO18A REV__nc|ENSG00000196535|Q92614-5|MYO18A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.2156677246094 3 357.550082 1069.62842 2.5246 0.00090266 0.90127 0.00032225 3.4258 0.0012249 357.5504147732241 50.282 0.29874 50.543 50.32 50.619 0.26146 17 10 2 0 0 0 0.11402 1 22893 22893 0.96228 0 1 405250 + 4973 14228 3300 3310 5502 5502 0.0963861261097918 ELMKKTETM 9 Unmodified _ELMKKTETM_ 0 0 0 ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.7821044921875 2 555.78031 1109.54607 NaN NaN NaN NaN NaN NaN NaN 14.413 1 15.061 14.561 15.561 0.6482 0 0 0 0.00058728 1 6487 6487 100.09 58.251 1 4974 557 3301 3311 5503 5503 -0.004324135745264357 ELMLLLQQRRN 11 Unmodified _ELMLLLQQRRN_ 0 0 0 REV__nc|ENSG00000178104|Q5VU43-6|PDE4DIP;REV__nc|ENSG00000178104|Q5VU43-13|PDE4DIP REV__nc|ENSG00000178104|Q5VU43-6|PDE4DIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 707.4060668945312 2 707.403378 1412.7922 NaN NaN NaN NaN NaN NaN NaN 93.299 1 93.385 92.885 93.885 0.086212 0 0 0 1.0059 1 48854 48854 2.9952 0 1 + 4975 13753;18057 3302 3312 5504 5504 0.10231842319535644 ELMPRVYTL 9 Unmodified _ELMPRVYTL_ 0 0 0 ENSG00000083857|ENST00000441802|FAT1;FAT1|p.S1928Lfs*17|1|0.08|ENSG00000083857|chr4:186620804-186620804|A/-|frameshift_variant ENSG00000083857|ENST00000441802|FAT1 ENSG00000083857|ENST00000441802|FAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.3058471679688 2 561.30481 1120.59507 3.3464 0.0018783 -0.27736 -0.00015568 3.069 0.0017227 561.3047014649675 62.587 0.23339 63.246 63.131 63.364 0.65929 25 13 2 0 0 0 0.0027913 2 28659 28659;28708 96.367 33.794 1 1087900 4976 946 3303 3313 5505;5506 5505 0.039592427767274785 ELMRQEAAL 9 Unmodified _ELMRQEAAL_ 0 0 0 ENST00000485244.1_1_3:149243755-149260220:-|nuORF;ENSG00000018408|ENST00000360632|WWTR1 ENST00000485244.1_1_3:149243755-149260220:-|nuORF ENST00000485244.1_1_3:149243755-149260220:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.2332153320312 2 530.776416 1059.53828 3.3198 0.0017621 1.4307 0.00075938 4.7505 0.0025215 530.7764576222497 37.33 0.1523 37.591 37.51 37.662 0.26083 6 4 2 0 0 0 0.085001 1 16977 16977 19.257 2.3147 1 158240 4977 444 3304 3314 5507 5507 0.010891952201973254 ELNESSQSSAV 11 Unmodified _ELNESSQSSAV_ 0 0 0 REV__ENST00000529565.1_1_11:104819221-104819389:-|nuORF REV__ENST00000529565.1_1_11:104819221-104819389:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.768310546875 2 575.764757 1149.51496 NaN NaN NaN NaN NaN NaN NaN 57.697 1 58.365 57.865 58.865 0.66829 0 0 0 0.94958 1 26402 26402 11.495 1.4208 1 + 4978 14249 3305 3315 5508 5508 -0.053815720834109015 ELNLRSNEL 9 Unmodified _ELNLRSNEL_ 0 0 0 ENST00000528713.5_1_11:500482-502162:-|nuORF;ENST00000531223.1_1_11:499763-502162:-|nuORF;ENST00000525522.5_1_11:499827-504867:-|nuORF;ENSG00000023191|ENST00000354420|RNH1 ENST00000528713.5_1_11:500482-502162:-|nuORF ENST00000528713.5_1_11:500482-502162:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.2922973632812 2 544.290745 1086.56694 NaN NaN NaN NaN NaN NaN NaN 43.605 1 44.254 43.754 44.754 0.64872 0 0 0 0.00016887 1 19983 19983 103.42 31.497 1 4979 468 3306 3316 5509 5509 0.027116361209891693 ELNPKILAL 9 Unmodified _ELNPKILAL_ 0 0 0 nc|ENSG00000100644|Q16665-2|HIF1A;HIF1A|p.R754Vfs*2|1|0.13|ENSG00000100644|chr14:61745748-61745748|C/-|frameshift_variant;ENSG00000100644|ENST00000337138|HIF1A;nc|ENSG00000100644|Q16665-3|HIF1A nc|ENSG00000100644|Q16665-2|HIF1A nc|ENSG00000100644|Q16665-2|HIF1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.8177490234375 2 505.815867 1009.61718 3.4024 0.001721 0.39365 0.00019912 3.796 0.0019201 505.8159711274416 66.354 0.2963 66.602 66.453 66.749 0.24847 44 17 4 0 0 0 0.0020791 2 30419 30366;30419 103.35 36.897 1 2785400 4980 1234 3307 3317 5510;5511 5511 0.11275790516799589 ELNPKILAL 9 Unmodified _ELNPKILAL_ 0 0 0 nc|ENSG00000100644|Q16665-2|HIF1A;HIF1A|p.R754Vfs*2|1|0.13|ENSG00000100644|chr14:61745748-61745748|C/-|frameshift_variant;ENSG00000100644|ENST00000337138|HIF1A;nc|ENSG00000100644|Q16665-3|HIF1A nc|ENSG00000100644|Q16665-2|HIF1A nc|ENSG00000100644|Q16665-2|HIF1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.81787109375 2 505.815867 1009.61718 3.3651 0.0017021 0.056074 2.8363E-05 3.4212 0.0017305 505.815831807659 65.724 0.29351 66.38 66.24 66.534 0.65672 41 16 4 0 0 0 0.004576 2 30108 30108;30157 92.653 34.931 1 3953700 4981 1234 3307 3317 5512;5513 5512 0.11275790516799589 ELNVRKVTL 9 Unmodified _ELNVRKVTL_ 0 0 0 ENSG00000196305|ENST00000443024|IARS1 ENSG00000196305|ENST00000443024|IARS1 ENSG00000196305|ENST00000443024|IARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.3319702148438 2 536.329673 1070.64479 2.8564 0.001532 0.79228 0.00042493 3.6487 0.0019569 536.3300093690766 38.223 0.20002 38.487 38.369 38.569 0.26408 8 5 2 0 0 0 0.0039585 1 17415 17415 93.938 48.239 1 594120 4982 5731 3308 3318 5514 5514 0.1122969377706795 ELNVRKVTL 9 Unmodified _ELNVRKVTL_ 0 0 0 ENSG00000196305|ENST00000443024|IARS1 ENSG00000196305|ENST00000443024|IARS1 ENSG00000196305|ENST00000443024|IARS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 536.329673 1070.64479 3.148 0.0016884 0.83903 0.00045 3.9871 0.0021384 536.3299711307033 37.572 0.2792 38.206 38.058 38.337 0.63388 -0.14039 3.2828E-05 NaN 93.938 17 8 3 NaN NaN NaN NaN 0 NaN NaN 0 502750 4983 5731 3308 3318 0.1122969377706795 ELPFEHFTEWF 11 Unmodified _ELPFEHFTEWF_ 0 0 0 REV__ENSG00000138641|ENST00000402738|HERC3 REV__ENSG00000138641|ENST00000402738|HERC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 741.5020141601562 2 741.340435 1480.66632 NaN NaN NaN NaN NaN NaN NaN 108.63 1 108.63 108.13 109.13 0 0 0 0 1.0059 1 59473 59473 2.9952 0.26005 1 + 4984 12176 3309 3319 5515 5515 -0.05478965984912065 ELPGNFQLI 9 Unmodified _ELPGNFQLI_ 0 0 0 REV__ENST00000494760.1_1_2:9002596-9008596:-|nuORF REV__ENST00000494760.1_1_2:9002596-9008596:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.7833251953125 2 515.782025 1029.5495 3.3244 0.0017147 -0.047428 -2.4463E-05 3.277 0.0016902 515.782009653818 77.694 0.36884 77.948 77.777 78.146 0.25335 37 22 2 0 0 0 0.086415 1 35750 35750 36.127 7.0454 1 673840 + 4985 16830 3310 3320 5516 5516 0.035903405860153725 ELPINFEK 8 Unmodified _ELPINFEK_ 0 0 0 REV__PI4KA|p.S1815*|1|0.23|ENSG00000241973|chr22:20714476-20714477|-/A|frameshift_variant REV__PI4KA|p.S1815*|1|0.23|ENSG00000241973|chr22:20714476-20714477|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.5158386230469 3 330.514925 988.522947 1.8543 0.00061286 1.0734 0.00035478 2.9277 0.00096764 330.5151861090835 13.164 0.54242 13.472 13.125 13.668 0.30727 80 30 5 0 0 0 0.63075 1 5954 5954 11.495 0 1 2394400 + 4986 14615 3311 3321 5517 5517 0.028226516946688207 ELPKKREL 8 Unmodified _ELPKKREL_ 0 0 0 ENSG00000130749|ENST00000253048|ZC3H4 ENSG00000130749|ENST00000253048|ZC3H4 ENSG00000130749|ENST00000253048|ZC3H4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 338.2105407714844 3 338.209836 1011.60768 2.5063 0.00084765 0.16966 5.738E-05 2.676 0.00090503 338.20979290152724 12.454 0.026673 12.454 12.441 12.467 0 6 3 2 0 0 0 0.059272 1 5419 5419 61.602 14.008 1 1804800 4987 2616 3312 3322 5518 5518 0.10234022231293238 ELPPSCKDI 9 Unmodified _ELPPSCKDI_ 0 0 0 REV__ENSG00000157014|ENST00000448281|TATDN2 REV__ENSG00000157014|ENST00000448281|TATDN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.14666748046875 2 501.252243 1000.48993 NaN NaN NaN NaN NaN NaN NaN 89.727 1 89.792 89.292 90.292 0.064346 0 0 0 0.84134 1 46046 46046 7.9102 1.7044 1 + 4988 12791 3313 3323 5519 5519 -0.010292984196894395 ELPRSRQL 8 Unmodified _ELPRSRQL_ 0 0 0 REV__ENSG00000106034|ENST00000310396|CPED1 REV__ENSG00000106034|ENST00000310396|CPED1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 333.5303649902344 3 333.529569 997.566878 2.1842 0.00072849 0.58033 0.00019356 2.7645 0.00092205 333.5297635637756 14.56 0.38385 14.867 14.779 15.163 0.3069 56 29 3 0 0 0 0.71911 1 6582 6582 4.3292 4.3292 1 331690 + 4989 11068 3314 3324 5520 5520 0.06799680911672112 ELPTALKGRL 10 Unmodified _ELPTALKGRL_ 0 0 0 nc|ENSG00000175216|Q14008-2|CKAP5;ENSG00000175216|ENST00000529230|CKAP5;nc|ENSG00000175216|Q14008-3|CKAP5 nc|ENSG00000175216|Q14008-2|CKAP5 nc|ENSG00000175216|Q14008-2|CKAP5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.56170654296875 3 366.560758 1096.66044 2.7329 0.0010018 0.3372 0.00012361 3.0701 0.0011254 366.5610674038624 15.513 0.29695 15.513 15.4 15.696 0 55 34 2 0 0 0 0.93584 2 6861 6861;6924 1.7423 0 1 76139 4990 5020 3315 3325 5521;5522 5521 0.11597980294095578 ELPTALKGRL 10 Unmodified _ELPTALKGRL_ 0 0 0 nc|ENSG00000175216|Q14008-2|CKAP5;ENSG00000175216|ENST00000529230|CKAP5;nc|ENSG00000175216|Q14008-3|CKAP5 nc|ENSG00000175216|Q14008-2|CKAP5 nc|ENSG00000175216|Q14008-2|CKAP5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 366.560758 1096.66044 2.7329 0.0010018 0.3372 0.00012361 3.0701 0.0011254 366.5610674038624 15.513 0.29695 15.513 15.4 15.696 0 0 0 NaN 1.7423 55 34 2 NaN NaN NaN NaN 0 NaN NaN 0 76139 4991 5020 3315 3325 0.11597980294095578 ELPVTLVRPL 10 Unmodified _ELPVTLVRPL_ 0 0 0 nc|ENSG00000154358|Q5VST9|OBSCN;nc|ENSG00000154358|Q5VST9-2|OBSCN;nc|ENSG00000154358|Q5VST9-6|OBSCN;ENSG00000154358|ENST00000680850|OBSCN;nc|ENSG00000154358|Q5VST9-3|OBSCN;nc|ENSG00000154358|Q5VST9-5|OBSCN nc|ENSG00000154358|Q5VST9|OBSCN nc|ENSG00000154358|Q5VST9|OBSCN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.5726013183594 3 379.572775 1135.69649 NaN NaN NaN NaN NaN NaN NaN 98.076 1 98.675 98.175 99.175 0.59885 0 0 0 0.99954 1 45160 45160 2.086 0 1 4992 3821 3316 3326 5523 5523 0.1340743747095985 ELPWGSLQL 9 Unmodified _ELPWGSLQL_ 0 0 0 ENST00000509659.5_1_4:88898870-88904045:+|nuORF ENST00000509659.5_1_4:88898870-88904045:+|nuORF ENST00000509659.5_1_4:88898870-88904045:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.22314453125 2 521.782025 1041.5495 NaN NaN NaN NaN NaN NaN NaN 39.885 1 39.885 39.385 40.385 0 0 0 0 0.77475 1 18102 18102 10.074 1.3285 1 4993 8545 3317 3327 5524 5524 0.030383405859993218 ELQETEHL 8 Unmodified _ELQETEHL_ 0 0 0 ENST00000321235.10_1_11:113582627-113582798:+|nuORF ENST00000321235.10_1_11:113582627-113582798:+|nuORF ENST00000321235.10_1_11:113582627-113582798:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.3338928222656 2 499.743096 997.47164 3.1973 0.0015978 -1.0643 -0.00053187 2.133 0.001066 499.74262438850263 35.924 0.42719 36.18 35.918 36.345 0.25524 35 19 2 0 0 0 0.70799 1 16245 16245 5.2307 0.47466 1 727600 4994 6928 3318 3328 5525 5525 -0.027197170700446804 ELQKKVQEL 9 Unmodified _ELQKKVQEL_ 0 0 0 ENST00000468845.1_1_1:153945363-153946538:+|nuORF;nc|ENSG00000143578|Q8TEY5-2|CREB3L4;ENSG00000143578|ENST00000368607|CREB3L4 ENST00000468845.1_1_1:153945363-153946538:+|nuORF ENST00000468845.1_1_1:153945363-153946538:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.8295288085938 2 557.826963 1113.63937 3.6871 0.0020568 0.64045 0.00035726 4.3276 0.002414 557.8272317374983 19.55 0.12053 20.208 20.165 20.286 0.65829 13 8 2 0 0 0 0.47677 1 8892 8892 13.042 0 1 135970 4995 3381 3319 3329 5526 5526 0.08709970194581729 ELQKRFIL 8 Unmodified _ELQKRFIL_ 0 0 0 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.8229370117188 2 523.821484 1045.62842 3.1314 0.0016403 -0.40138 -0.00021025 2.73 0.00143 523.8212509517308 43.823 0.20399 43.823 43.744 43.948 0 22 13 2 0 0 0 0.0053358 1 19991 19991 128.37 43.093 1 2805000 4996 2443 3320 3330 5527 5527 0.1074261261094307 ELQKRFIL 8 Unmodified _ELQKRFIL_ 0 0 0 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.8233032226562 2 523.821484 1045.62842 3.2251 0.0016894 -0.29878 -0.00015651 2.9263 0.0015328 523.8214127619481 42.773 0.15728 43.587 43.515 43.672 0.81444 26 18 2 0 0 0 0.018424 1 19422 19422 88.904 23.669 1 2943900 4997 2443 3320 3330 5528 5528 0.1074261261094307 ELQKRFIL 8 Unmodified _ELQKRFIL_ 0 0 0 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.8224487304688 2 523.821484 1045.62842 NaN NaN NaN NaN NaN NaN NaN 42.85 1 43.664 43.164 44.164 0.81444 0 0 0 0.13142 1 19482 19482 88.904 23.669 1 4998 2443 3320 3330 5529 5529 0.1074261261094307 ELQKRFIL 8 Unmodified _ELQKRFIL_ 0 0 0 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.8240356445312 2 523.821484 1045.62842 3.2569 0.001706 0.42092 0.00022049 3.6779 0.0019265 523.8217939981341 43.597 0.34651 43.866 43.636 43.983 0.26939 34 11 4 0 0 0 4.7186E-07 2 19887 19887;19945 156.16 59.871 1 3169800 4999 2443 3320 3330 5530;5531 5530 0.1074261261094307 ELQKRFIL 8 Unmodified _ELQKRFIL_ 0 0 0 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 349.55096435546875 3 349.550082 1045.62842 2.4266 0.00084822 0.57294 0.00020027 2.9995 0.0010485 349.55033267997584 43.605 0.33807 43.874 43.676 44.014 0.2694 27 10 3 0 0 0 0.47217 1 19931 19931 18.146 0 1 1691600 5000 2443 3320 3330 5532 5532 0.1074261261094307 ELQKRFIL 8 Unmodified _ELQKRFIL_ 0 0 0 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.8233032226562 2 523.821484 1045.62842 3.4691 0.0018172 -0.17961 -9.4085E-05 3.2894 0.0017231 523.8213368475399 43.008 0.34161 43.657 43.468 43.81 0.64872 48 20 3 0 0 0 0.0086598 3 19708 19659;19708;19751 115.69 41.269 1 3451700 5001 2443 3320 3330 5533;5534;5535 5534 0.1074261261094307 ELQKRFRKL 9 Unmodified _ELQKRFRKL_ 0 0 0 REV__nc|ENSG00000131044|Q3SXZ7-3|TTLL9 REV__nc|ENSG00000131044|Q3SXZ7-3|TTLL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 406.58807373046875 3 406.587418 1216.74043 2.7343 0.0011117 -0.62309 -0.00025334 2.1112 0.0008584 406.5870552357515 17.365 0.10159 17.365 17.326 17.427 0 7 5 2 0 0 0 1.0041 1 7722 7722 2.2828 0 1 234880 + 5002 11843 3321 3331 5536 5536 0.14072466687935048 ELQKRFRKL 9 Unmodified _ELQKRFRKL_ 0 0 0 REV__nc|ENSG00000131044|Q3SXZ7-3|TTLL9 REV__nc|ENSG00000131044|Q3SXZ7-3|TTLL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 609.3795776367188 2 609.377489 1216.74043 2.8141 0.0017148 -0.17983 -0.00010958 2.6342 0.0016052 609.377853259282 12.5 0.097315 12.807 12.751 12.848 0.30727 5 3 2 0 0 0 0.24465 1 5649 5649 20.454 2.3073 1 2564600 + 5003 11843 3321 3331 5537 5537 0.14072466687935048 ELQKRFRKL 9 Unmodified _ELQKRFRKL_ 0 0 0 REV__nc|ENSG00000131044|Q3SXZ7-3|TTLL9 REV__nc|ENSG00000131044|Q3SXZ7-3|TTLL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.5887451171875 3 406.587418 1216.74043 2.7805 0.0011305 0.12583 5.116E-05 2.9063 0.0011817 406.587646112959 17.539 0.11286 17.84 17.79 17.902 0.30159 9 5 2 0 0 0 1.1412 1 7958 7958 0.86438 0 1 119390 + 5004 11843 3321 3331 5538 5538 0.14072466687935048 ELQKRVKEL 9 Unmodified _ELQKRVKEL_ 0 0 0 REV__ENSG00000197616|ENST00000405093|MYH6 REV__ENSG00000197616|ENST00000405093|MYH6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.568603515625 3 381.567912 1141.68191 2.8618 0.001092 -0.11099 -4.2352E-05 2.7508 0.0010496 381.5677192662846 13.293 0.26313 13.935 13.803 14.066 0.64272 49 20 3 0 0 0 0.26118 1 6014 6014 19.362 0 1 1318600 + 5005 14292 3322 3332 5539 5539 0.11673365322803875 ELQLRVRQL 9 Unmodified _ELQLRVRQL_ 0 0 0 ENST00000507723.1_1_5:177021070-177022414:+|nuORF;ENST00000513799.5_1_5:177019550-177022414:+|nuORF;ENSG00000184840|ENST00000332598|TMED9 ENST00000507723.1_1_5:177021070-177022414:+|nuORF ENST00000507723.1_1_5:177021070-177022414:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 385.57232666015625 3 385.571657 1153.69314 2.8005 0.0010798 0.1101 4.2452E-05 2.9106 0.0011222 385.5716687011489 43.335 0.29936 43.605 43.521 43.82 0.27021 43 19 3 0 0 0 0.027384 1 19793 19793 45.74 9.2337 1 1986500 5006 5464 3323 3333 5540 5540 0.12244187416945351 ELQLRVRQL 9 Unmodified _ELQLRVRQL_ 0 0 0 ENST00000507723.1_1_5:177021070-177022414:+|nuORF;ENST00000513799.5_1_5:177019550-177022414:+|nuORF;ENSG00000184840|ENST00000332598|TMED9 ENST00000507723.1_1_5:177021070-177022414:+|nuORF ENST00000507723.1_1_5:177021070-177022414:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.8560180664062 2 577.853847 1153.69314 3.2836 0.0018975 0.38075 0.00022002 3.6644 0.0021175 577.8540395791183 43.324 0.21539 43.595 43.572 43.787 0.27021 25 11 3 0 0 0 0.029308 2 19794 19794;19851 56.177 18.001 1 841090 5007 5464 3323 3333 5541;5542 5541 0.12244187416945351 ELQLRVRQL 9 Unmodified _ELQLRVRQL_ 0 0 0 ENST00000507723.1_1_5:177021070-177022414:+|nuORF;ENST00000513799.5_1_5:177019550-177022414:+|nuORF;ENSG00000184840|ENST00000332598|TMED9 ENST00000507723.1_1_5:177021070-177022414:+|nuORF ENST00000507723.1_1_5:177021070-177022414:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 385.5727844238281 3 385.571657 1153.69314 2.9281 0.001129 -0.11754 -4.5322E-05 2.8106 0.0010837 385.5716566292127 42.79 0.23843 43.437 43.333 43.571 0.64693 41 19 3 0 0 0 0.027384 1 19585 19585 45.74 15.899 1 2232200 5008 5464 3323 3333 5543 5543 0.12244187416945351 ELQPRSISV 9 Unmodified _ELQPRSISV_ 0 0 0 nc|ENSG00000046651|O75665-3|OFD1;ENSG00000046651|ENST00000340096|OFD1;ENST00000380567.5_2_X:13753187-13758224:+|nuORF;nc|ENSG00000046651|O75665-2|OFD1;ENST00000490265.5_1_X:13753187-13770868:+|nuORF nc|ENSG00000046651|O75665-3|OFD1 nc|ENSG00000046651|O75665-3|OFD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.7926025390625 2 514.790381 1027.56621 3.3842 0.0017421 0.58395 0.00030061 3.9681 0.0020427 514.791069274209 39.34 0.21472 39.607 39.451 39.666 0.26696 10 6 2 0 0 0 0.11458 1 17888 17888 29.082 5.061 1 189320 5009 552 3324 3334 5544 5544 0.05352841471949432 ELQPRSISV 9 Unmodified _ELQPRSISV_ 0 0 0 nc|ENSG00000046651|O75665-3|OFD1;ENSG00000046651|ENST00000340096|OFD1;ENST00000380567.5_2_X:13753187-13758224:+|nuORF;nc|ENSG00000046651|O75665-2|OFD1;ENST00000490265.5_1_X:13753187-13770868:+|nuORF nc|ENSG00000046651|O75665-3|OFD1 nc|ENSG00000046651|O75665-3|OFD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.7928466796875 2 514.790381 1027.56621 NaN NaN NaN NaN NaN NaN NaN 38.981 1 39.619 39.119 40.119 0.63778 0 0 0 0.33854 1 17820 17820 25.399 4.9457 1 5010 552 3324 3334 5545 5545 0.05352841471949432 ELQRKLHRQER 11 Unmodified _ELQRKLHRQER_ 0 0 0 REV__ENSG00000059728|ENST00000264444|MXD1 REV__ENSG00000059728|ENST00000264444|MXD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 747.1522216796875 2 746.926397 1491.83824 NaN NaN NaN NaN NaN NaN NaN 85.054 1 85.054 84.554 85.554 0 0 0 0 1.0061 1 43205 43205 2.7352 0 1 + 5011 10389 3325 3335 5546 5546 0.11199623545962822 ELQRKQQL 8 Unmodified _ELQRKQQL_ 0 0 0 ENSG00000154240|ENST00000535342|CEP112 ENSG00000154240|ENST00000535342|CEP112 ENSG00000154240|ENST00000535342|CEP112 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.20538330078125 3 348.204974 1041.59309 1.8922 0.00065887 -0.16176 -5.6324E-05 1.7304 0.00060255 348.20482590742034 12.926 0.24351 13.233 13.058 13.301 0.30727 16 7 3 0 0 0 0.47217 1 5836 5836 24.021 4.7636 1 445250 5012 3812 3326 3336 5547 5547 0.07395950083150638 ELQRRGAL 8 Unmodified _ELQRRGAL_ 0 0 0 nc|ENSG00000187634|Q96NU1-1|SAMD11;nc|ENSG00000187634|Q96NU1-2|SAMD11;nc|ENSG00000187634|Q96NU1-6|SAMD11;nc|ENSG00000187634|Q96NU1-4|SAMD11;nc|ENSG00000187634|Q96NU1|SAMD11;nc|ENSG00000187634|Q96NU1-5|SAMD11;ENSG00000187634|ENST00000616016|SAMD11 nc|ENSG00000187634|Q96NU1-1|SAMD11 nc|ENSG00000187634|Q96NU1-1|SAMD11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.8549499511719 3 314.854164 941.540663 2.0552 0.0006471 0.50731 0.00015973 2.5626 0.00080683 314.85430965080485 14.973 0.56198 15.28 15.045 15.607 0.3069 151 55 4 0 0 0 0.70799 1 6703 6703 3.5965 0 1 852960 5013 5626 3327 3337 5548 5548 0.0675541174019827 ELQSRLAAL 9 Unmodified _ELQSRLAAL_ 0 0 0 ENSG00000181029|ENST00000596148|TRAPPC5 ENSG00000181029|ENST00000596148|TRAPPC5 ENSG00000181029|ENST00000596148|TRAPPC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.7948303222656 2 500.792924 999.571294 3.4255 0.0017155 1.025 0.00051332 4.4506 0.0022288 500.7928912649906 47.032 0.25924 47.296 47.182 47.441 0.26363 17 8 3 0 0 0 0.004576 2 21493 21493;21500 92.653 30.081 1 674520 5014 5277 3328 3338 5549;5550 5549 0.07149145334562945 ELQSRLAAL 9 Unmodified _ELQSRLAAL_ 0 0 0 ENSG00000181029|ENST00000596148|TRAPPC5 ENSG00000181029|ENST00000596148|TRAPPC5 ENSG00000181029|ENST00000596148|TRAPPC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.79461669921875 2 500.792924 999.571294 3.4006 0.001703 0.87011 0.00043574 4.2708 0.0021388 500.7930670848976 46.493 0.23192 47.145 47.026 47.258 0.65219 14 8 2 0 0 0 0.0095519 1 21330 21330 82.529 26.352 1 538180 5015 5277 3328 3338 5551 5551 0.07149145334562945 ELRAKALEL 9 Unmodified _ELRAKALEL_ 0 0 0 ENSG00000221963|ENST00000409652|APOL6 ENSG00000221963|ENST00000409652|APOL6 ENSG00000221963|ENST00000409652|APOL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.21453857421875 3 348.213358 1041.61824 2.3593 0.00082153 1.6429 0.00057206 4.0021 0.0013936 348.21418502502445 38.781 0.34784 39.045 38.845 39.193 0.26408 26 14 3 0 0 0 0.10837 1 17654 17654 22.658 8.2527 1 854640 5016 6154 3329 3339 5552 5552 0.09910004885705348 ELRAKALEL 9 Unmodified _ELRAKALEL_ 0 0 0 ENSG00000221963|ENST00000409652|APOL6 ENSG00000221963|ENST00000409652|APOL6 ENSG00000221963|ENST00000409652|APOL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.8178100585938 2 521.816399 1041.61824 3.2247 0.0016827 -0.099417 -5.1877E-05 3.1253 0.0016308 521.816364986789 38.79 0.26157 39.054 38.932 39.193 0.26408 18 9 3 0 0 0 0.04013 1 17658 17658 51.415 1.8609 1 597240 5017 6154 3329 3339 5553 5553 0.09910004885705348 ELRAKALEL 9 Unmodified _ELRAKALEL_ 0 0 0 ENSG00000221963|ENST00000409652|APOL6 ENSG00000221963|ENST00000409652|APOL6 ENSG00000221963|ENST00000409652|APOL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.214599609375 3 348.213358 1041.61824 2.3051 0.00080268 1.1754 0.0004093 3.4806 0.001212 348.2138815787953 38.329 0.36566 38.962 38.822 39.188 0.63388 32 14 3 0 0 0 0.10837 2 17522 17522;17580 22.658 8.2527 1 625560 5018 6154 3329 3339 5554;5555 5554 0.09910004885705348 ELRAKALEL 9 Unmodified _ELRAKALEL_ 0 0 0 ENSG00000221963|ENST00000409652|APOL6 ENSG00000221963|ENST00000409652|APOL6 ENSG00000221963|ENST00000409652|APOL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.8184814453125 2 521.816399 1041.61824 3.2355 0.0016884 0.796 0.00041537 4.0315 0.0021037 521.81665302492 38.356 0.30408 38.99 38.822 39.126 0.63389 25 12 3 0 0 0 0.097139 1 17543 17543 33.445 2.1766 1 392110 5019 6154 3329 3339 5556 5556 0.09910004885705348 ELRARGLEV 9 Unmodified _ELRARGLEV_ 0 0 0 ENSG00000090861|ENST00000261772|AARS1;nc|ENSG00000090861|P49588-2|AARS1 ENSG00000090861|ENST00000261772|AARS1 ENSG00000090861|ENST00000261772|AARS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.2054443359375 3 348.204974 1041.59309 NaN NaN NaN NaN NaN NaN NaN 30.016 1 30.633 30.133 31.133 0.61737 0 0 0 0.054323 1 13768 13768 40.239 0 1 5020 1068 3330 3340 5557 5557 0.07395950083150638 ELRDRLWKKKA 11 Unmodified _ELRDRLWKKKA_ 0 0 0 nc|ENSG00000143514|Q13625-2|TP53BP2;nc|ENSG00000143514|Q13625|TP53BP2;ENSG00000143514|ENST00000343537|TP53BP2;ENST00000481128.1_1_1:223989797-223991008:-|nuORF nc|ENSG00000143514|Q13625-2|TP53BP2 nc|ENSG00000143514|Q13625-2|TP53BP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 722.087646484375 2 721.93316 1441.85177 NaN NaN NaN NaN NaN NaN NaN 66.535 1 67.24 66.74 67.74 0.7047 0 0 0 1.0038 1 31546 31546 5.7319 2.4505 1 5021 3376 3331 3341 5558 5558 0.14851481325194982 ELREYNLEQQR 11 Unmodified _ELREYNLEQQR_ 0 0 0 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1;nc|ENSG00000086758|Q7Z6Z7-3|HUWE1;ENSG00000086758|ENST00000262854|HUWE1 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 739.3739013671875 2 739.373329 1476.73211 NaN NaN NaN NaN NaN NaN NaN 100.67 1 101.27 100.77 101.77 0.59717 0 0 0 1.0061 1 46605 46605 2.7352 0 1 5022 987 3332 3342 5559 5559 0.012808231899725797 ELRHFGFTFRK 11 Unmodified _ELRHFGFTFRK_ 0 0 0 REV__ENSG00000104154|ENST00000261867|SLC30A4 REV__ENSG00000104154|ENST00000261867|SLC30A4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.9329528808594 3 479.929844 1436.7677 NaN NaN NaN NaN NaN NaN NaN 59.95 1 60.699 60.199 61.199 0.74927 0 0 0 1.0041 1 27557 27557 2.4348 0 1 + 5023 10984 3333 3343 5560 5560 0.06678950228297253 ELRICYRWWY 10 Unmodified _ELRICYRWWY_ 0 0 0 REV__ENSG00000004142|ENST00000540200|POLDIP2 REV__ENSG00000004142|ENST00000540200|POLDIP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 744.3682250976562 2 744.366264 1486.71798 NaN NaN NaN NaN NaN NaN NaN 96.05 1 96.05 95.55 96.55 0 0 0 0 1.0001 1 51879 51879 1.6526 0.32309 1 + 5024 10163 3334 3344 5561 5561 -0.005915007719977439 ELRKISQAL 9 Unmodified _ELRKISQAL_ 0 0 0 nc|ENSG00000005175|Q9H6T3-2|RPAP3;ENSG00000005175|ENST00000005386|RPAP3;nc|ENSG00000005175|Q9H6T3-3|RPAP3 nc|ENSG00000005175|Q9H6T3-2|RPAP3 nc|ENSG00000005175|Q9H6T3-2|RPAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.323974609375 2 529.321848 1056.62914 3.2356 0.0017127 0.44399 0.00023501 3.6796 0.0019477 529.3220714634132 28.698 0.22375 29.318 29.162 29.386 0.61947 13 10 2 0 0 0 0.80651 1 13161 13161 7.2892 0.56607 1 131770 5025 321 3335 3345 5562 5562 0.10309407260001535 ELRKKLPVSL 10 Unmodified _ELRKKLPVSL_ 0 0 0 ENSG00000121680|ENST00000378750|PEX16;nc|ENSG00000121680|Q9Y5Y5-2|PEX16 ENSG00000121680|ENST00000378750|PEX16 ENSG00000121680|ENST00000378750|PEX16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.9245300292969 3 394.923807 1181.74959 2.9192 0.0011529 -0.45399 -0.00017929 2.4652 0.00097357 394.923520166414 35.181 0.21706 35.436 35.32 35.537 0.25524 17 10 2 0 0 0 0.64548 1 16018 16018 15.739 2.866 1 328920 5026 2236 3336 3346 5563 5563 0.16598815253610155 ELRKKVEVL 9 Unmodified _ELRKKVEVL_ 0 0 0 CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant;nc|ENSG00000182158|Q70SY1-2|CREB3L2;ENSG00000182158|ENST00000330387|CREB3L2 CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.3558349609375 2 557.353148 1112.69174 3.5736 0.0019918 0.29128 0.00016235 3.8649 0.0021541 557.3533555587625 20.213 0.25246 20.213 20.09 20.343 0 57 23 3 0 0 0 0.094033 1 9018 9018 36.506 16.053 1 586290 5027 244 3337 3347 5564 5564 0.13990553328198985 ELRKKVEVL 9 Unmodified _ELRKKVEVL_ 0 0 0 CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant;nc|ENSG00000182158|Q70SY1-2|CREB3L2;ENSG00000182158|ENST00000330387|CREB3L2 CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 371.9046936035156 3 371.904524 1112.69174 NaN NaN NaN NaN NaN NaN NaN 19.239 1 19.453 18.953 19.953 0.21445 0 0 0 0.05082 1 8566 8566 53.317 21.279 1 5028 244 3337 3347 5565 5565 0.13990553328198985 ELRKKVEVL 9 Unmodified _ELRKKVEVL_ 0 0 0 CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant;nc|ENSG00000182158|Q70SY1-2|CREB3L2;ENSG00000182158|ENST00000330387|CREB3L2 CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.35546875 2 557.353148 1112.69174 3.3908 0.0018899 0.16149 9.0008E-05 3.5523 0.0019799 557.3531743531796 19.577 0.1912 19.869 19.771 19.962 0.29239 42 15 3 0 0 0 0.057456 2 8931 8882;8931 47.749 20.12 1 1160600 5029 244 3337 3347 5566;5567 5567 0.13990553328198985 ELRKKVEVL 9 Unmodified _ELRKKVEVL_ 0 0 0 CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant;nc|ENSG00000182158|Q70SY1-2|CREB3L2;ENSG00000182158|ENST00000330387|CREB3L2 CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 371.9056396484375 3 371.904524 1112.69174 2.5462 0.00094695 0.22847 8.497E-05 2.7747 0.0010319 371.90462397262974 19.576 0.29662 19.868 19.737 20.033 0.29239 83 25 5 0 0 0 0.025529 1 8915 8915 61.09 28.192 1 9361500 5030 244 3337 3347 5568 5568 0.13990553328198985 ELRKKVEVL 9 Unmodified _ELRKKVEVL_ 0 0 0 CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant;nc|ENSG00000182158|Q70SY1-2|CREB3L2;ENSG00000182158|ENST00000330387|CREB3L2 CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.3552856445312 2 557.353148 1112.69174 3.6594 0.0020396 -0.073153 -4.0772E-05 3.5863 0.0019988 557.3530956567133 19.231 0.21761 19.89 19.779 19.996 0.6583 42 15 4 0 0 0 0.027096 2 8711 8711;8756 72.968 25.219 1 1813600 5031 244 3337 3347 5569;5570 5569 0.13990553328198985 ELRKKVEVL 9 Unmodified _ELRKKVEVL_ 0 0 0 CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant;nc|ENSG00000182158|Q70SY1-2|CREB3L2;ENSG00000182158|ENST00000330387|CREB3L2 CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 371.9054870605469 3 371.904524 1112.69174 2.7819 0.0010346 -0.3533 -0.00013139 2.4286 0.00090319 371.9043999777817 19.237 0.29638 19.895 19.748 20.045 0.6583 65 21 4 0 0 0 0.025529 1 8730 8730 61.09 22.475 1 9570500 5032 244 3337 3347 5571 5571 0.13990553328198985 ELRKKVEVL 9 Unmodified _ELRKKVEVL_ 0 0 0 CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant;nc|ENSG00000182158|Q70SY1-2|CREB3L2;ENSG00000182158|ENST00000330387|CREB3L2 CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 371.904524 1112.69174 2.8906 0.001075 -0.20457 -7.608E-05 2.6861 0.00099896 371.9044607390859 20.214 0.36065 20.214 20.046 20.406 0 0.22157 -9.4392E-05 NaN 61.09 111 34 4 NaN NaN NaN NaN 0 NaN NaN 0 4501600 5033 244 3337 3347 0.13990553328198985 ELRKLKRRF 9 Unmodified _ELRKLKRRF_ 0 0 0 ENSG00000135750|ENST00000366621|KCNK1 ENSG00000135750|ENST00000366621|KCNK1 ENSG00000135750|ENST00000366621|KCNK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 623.4003295898438 2 623.398756 1244.78296 NaN NaN NaN NaN NaN NaN NaN 92.36 1 92.36 91.86 92.86 0 0 0 0 0.89683 1 49055 49055 4.3292 0.73274 1 5034 2896 3338 3348 5572 5572 0.17035861816157194 ELRKVARI 8 Unmodified _ELRKVARI_ 0 0 0 nc|ENSG00000168065|Q9NSA0-2|SLC22A11;chr11:64568778-64570979|459|20.1|0.81|4.63|+|ENST00000377581|SLC22A11,SLC22A11;ENSG00000168065|ENST00000301891|SLC22A11 nc|ENSG00000168065|Q9NSA0-2|SLC22A11 nc|ENSG00000168065|Q9NSA0-2|SLC22A11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.82086181640625 2 492.819276 983.623999 3.03 0.0014932 -0.43765 -0.00021568 2.5923 0.0012775 492.8190183412363 19.754 0.26548 20.047 19.838 20.104 0.29239 44 22 3 0 0 0 0.42655 1 8992 8992 26.341 0 1 1005300 5035 135 3339 3349 5573 5573 0.13153148188030173 ELRLKPQLL 9 Unmodified _ELRLKPQLL_ 0 0 0 ENSG00000168872|ENST00000302243|DDX19A;ENSG00000157349|ENST00000288071|DDX19B;ENST00000570055.5_1_16:70328730-70353576:+|nuORF ENSG00000168872|ENST00000302243|DDX19A ENSG00000168872|ENST00000302243|DDX19A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.3566284179688 2 555.355691 1108.69683 3.4811 0.0019333 -0.6414 -0.00035621 2.8397 0.0015771 555.3551875473066 52.011 0.19461 52.273 52.191 52.386 0.26228 20 11 2 0 0 0 0.057945 1 23770 23770 43.772 12.504 1 379650 5036 3947 3340 3350 5574 5574 0.14682857190791765 ELRLKPQLL 9 Unmodified _ELRLKPQLL_ 0 0 0 ENSG00000168872|ENST00000302243|DDX19A;ENSG00000157349|ENST00000288071|DDX19B;ENST00000570055.5_1_16:70328730-70353576:+|nuORF ENSG00000168872|ENST00000302243|DDX19A ENSG00000168872|ENST00000302243|DDX19A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.3573608398438 2 555.355691 1108.69683 3.3367 0.0018531 0.37796 0.0002099 3.7147 0.002063 555.8571380056037 51.354 0.18951 52.014 51.949 52.139 0.65956 26 12 3 0 0 0 0.72052 1 23527 23527 8.7454 2.0222 1 460590 5037 3947 3340 3350 5575 5575 0.14682857190791765 ELRLRRPEL 9 Unmodified _ELRLRRPEL_ 0 0 0 REV__ENST00000496484.1_1_3:15091336-15091447:-|nuORF REV__ENST00000496484.1_1_3:15091336-15091447:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 591.3615112304688 2 591.359296 1180.70404 NaN NaN NaN NaN NaN NaN NaN 66.157 1 66.813 66.313 67.313 0.65672 0 0 0 0.90611 1 30331 30331 2.0598 0 1 + 5038 16849 3341 3351 5576 5576 0.12091589791225488 ELRLVHILVRL 11 Unmodified _ELRLVHILVRL_ 0 0 0 ENST00000434206.1_1_3:43020805-43095327:+|nuORF ENST00000434206.1_1_3:43020805-43095327:+|nuORF ENST00000434206.1_1_3:43020805-43095327:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.6329040527344 3 454.297756 1359.87144 2.3744 0.0010787 1.6009 0.0007273 3.9753 0.001806 454.631774223547 60.735 0.045338 61.475 61.436 61.481 0.7396 6 4 2 0 0 0 0.89988 1 28073 28073 2.4348 0.97967 1 4112200 5039 7883 3342 3352 5577 5577 0.20589857335971828 ELRLVHILVRL 11 Unmodified _ELRLVHILVRL_ 0 0 0 ENST00000434206.1_1_3:43020805-43095327:+|nuORF ENST00000434206.1_1_3:43020805-43095327:+|nuORF ENST00000434206.1_1_3:43020805-43095327:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 680.8753662109375 2 680.942996 1359.87144 NaN NaN NaN NaN NaN NaN NaN 97.467 1 97.538 97.038 98.038 0.070648 0 0 0 1.0079 1 52122 52122 1.3295 0.13619 1 5040 7883 3342 3352 5578 5578 0.20589857335971828 ELRNKVNRL 9 Unmodified _ELRNKVNRL_ 0 0 0 nc|ENSG00000114354|Q92734-4|TFG;nc|ENSG00000114354|Q92734-3|TFG;nc|ENSG00000114354|Q92734-2|TFG;ENSG00000114354|ENST00000240851|TFG nc|ENSG00000114354|Q92734-4|TFG nc|ENSG00000114354|Q92734-4|TFG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.2324523925781 3 381.231523 1140.67274 2.8693 0.0010939 0.16854 6.4253E-05 3.0379 0.0011581 381.2314885408543 12.83 0.10829 12.83 12.788 12.896 0 5 3 2 0 0 0 0.21127 1 5615 5615 22.658 8.2527 1 377000 5041 1900 3343 3353 5579 5579 0.10803016757131445 ELRNKVNRL 9 Unmodified _ELRNKVNRL_ 0 0 0 nc|ENSG00000114354|Q92734-4|TFG;nc|ENSG00000114354|Q92734-3|TFG;nc|ENSG00000114354|Q92734-2|TFG;ENSG00000114354|ENST00000240851|TFG nc|ENSG00000114354|Q92734-4|TFG nc|ENSG00000114354|Q92734-4|TFG MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 381.231523 1140.67274 3.073 0.0011715 -0.69947 -0.00026666 2.3735 0.00090487 381.2312101810263 12.495 0.083971 13.138 13.092 13.176 0.64272 0.15404 -0.00059371 NaN 22.658 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 1867000 5042 1900 3343 3353 0.10803016757131445 ELRQRRRRRR 10 Unmodified _ELRQRRRRRR_ 0 0 0 ENST00000055682.10_1_X:74144856-74145033:-|nuORF ENST00000055682.10_1_X:74144856-74145033:-|nuORF ENST00000055682.10_1_X:74144856-74145033:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 741.5686645507812 2 741.459065 1480.90358 NaN NaN NaN NaN NaN NaN NaN 94.184 1 94.184 93.684 94.684 0 0 0 0 1.0015 1 50448 50448 0.40072 0.050084 1 5043 6379 3344 3354 5580 5580 0.18236082582325253 ELRQWIVV 8 Unmodified _ELRQWIVV_ 0 0 0 nc|ENSG00000176438|Q6ZMZ3-2|SYNE3;ENSG00000176438|ENST00000682763|SYNE3;ENST00000555759.1_1_14:95904955-95916441:-|nuORF nc|ENSG00000176438|Q6ZMZ3-2|SYNE3 nc|ENSG00000176438|Q6ZMZ3-2|SYNE3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.8063354492188 2 521.805834 1041.59712 NaN NaN NaN NaN NaN NaN NaN 30.049 1 30.666 30.166 31.166 0.61737 0 0 0 0.89651 1 13784 13784 12.532 4.6214 1 5044 5078 3345 3355 5581 5581 0.0779803957684635 ELRRERRERRR 11 Unmodified _ELRRERRERRR_ 0 0 0 REV__nc|ENSG00000160460|Q9H254-3|SPTBN4 REV__nc|ENSG00000160460|Q9H254-3|SPTBN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 806.4713134765625 2 806.472369 1610.93019 NaN NaN NaN NaN NaN NaN NaN 95.241 1 95.241 94.741 95.741 0 0 0 0 1.0061 1 51242 51242 2.7352 2.4282 1 + 5045 12881 3346 3356 5582 5582 0.149157266830116 ELRRKIQEL 9 Unmodified _ELRRKIQEL_ 0 0 0 nc|ENSG00000276043|Q96T88-2|UHRF1;ENSG00000276043|ENST00000650932|UHRF1 nc|ENSG00000276043|Q96T88-2|UHRF1 nc|ENSG00000276043|Q96T88-2|UHRF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 395.5762023925781 3 395.575178 1183.70371 2.7024 0.001069 -0.0692 -2.7374E-05 2.6332 0.0010416 395.5751217100636 19.741 0.12743 19.741 19.661 19.789 0 18 11 2 0 0 0 0.091193 1 8818 8818 34.932 15.57 1 864180 5046 6349 3347 3357 5583 5583 0.11920170071380198 ELRRKIQEL 9 Unmodified _ELRRKIQEL_ 0 0 0 nc|ENSG00000276043|Q96T88-2|UHRF1;ENSG00000276043|ENST00000650932|UHRF1 nc|ENSG00000276043|Q96T88-2|UHRF1 nc|ENSG00000276043|Q96T88-2|UHRF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.57598876953125 3 395.575178 1183.70371 NaN NaN NaN NaN NaN NaN NaN 18.559 1 19.219 18.719 19.719 0.66072 0 0 0 0.26309 1 8409 8409 28.495 9.1326 1 5047 6349 3347 3357 5584 5584 0.11920170071380198 ELRRKIREL 9 Unmodified _ELRRKIREL_ 0 0 0 ENSG00000184515|ENST00000333643|BEX5 ENSG00000184515|ENST00000333643|BEX5 ENSG00000184515|ENST00000333643|BEX5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.9239501953125 3 404.922689 1211.74624 2.7776 0.0011247 -0.3309 -0.00013399 2.4467 0.00099072 404.922643054248 13.026 0.23927 13.026 12.929 13.168 0 47 12 5 0 0 0 0.091193 1 5716 5716 32.898 0 1 23100000 5048 5447 3348 3358 5585 5585 0.14883565199602344 ELRRKIREL 9 Unmodified _ELRRKIREL_ 0 0 0 ENSG00000184515|ENST00000333643|BEX5 ENSG00000184515|ENST00000333643|BEX5 ENSG00000184515|ENST00000333643|BEX5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.92327880859375 3 404.922689 1211.74624 2.2206 0.00089916 0.034194 1.3846E-05 2.2548 0.000913 404.92267521858963 12.678 0.11025 12.94 12.886 12.996 0.26154 41 11 5 0 0 0 0.025135 1 5492 5492 64.927 0 1 37983000 5049 5447 3348 3358 5586 5586 0.14883565199602344 ELRRKIREL 9 Unmodified _ELRRKIREL_ 0 0 0 ENSG00000184515|ENST00000333643|BEX5 ENSG00000184515|ENST00000333643|BEX5 ENSG00000184515|ENST00000333643|BEX5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.94451904296875 4 303.943836 1211.74624 1.8121 0.00055077 -0.072383 -2.2E-05 1.7397 0.00052877 303.9438340658913 12.676 0.10723 12.937 12.879 12.986 0.26154 33 11 4 0 0 0 0.053359 1 5504 5504 36.395 0 1 9901300 5050 5447 3348 3358 5587 5587 0.14883565199602344 ELRRKIREL 9 Unmodified _ELRRKIREL_ 0 0 0 ENSG00000184515|ENST00000333643|BEX5 ENSG00000184515|ENST00000333643|BEX5 ENSG00000184515|ENST00000333643|BEX5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.9237365722656 3 404.922689 1211.74624 2.2736 0.00092064 -0.2172 -8.7951E-05 2.0564 0.00083269 404.9227228572581 12.645 0.14106 12.952 12.882 13.023 0.30727 15 4 4 0 0 0 0.022157 1 5706 5706 60.899 0 1 51649000 5051 5447 3348 3358 5588 5588 0.14883565199602344 ELRRKIREL 9 Unmodified _ELRRKIREL_ 0 0 0 ENSG00000184515|ENST00000333643|BEX5 ENSG00000184515|ENST00000333643|BEX5 ENSG00000184515|ENST00000333643|BEX5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.9444885253906 4 303.943836 1211.74624 1.4969 0.00045499 0.34503 0.00010487 1.842 0.00055986 303.9439773035048 12.645 0.17566 12.952 12.882 13.058 0.30727 13 5 3 0 0 0 0.015631 1 5708 5708 60.899 0 1 17976000 5052 5447 3348 3358 5589 5589 0.14883565199602344 ELRRKIREL 9 Unmodified _ELRRKIREL_ 0 0 0 ENSG00000184515|ENST00000333643|BEX5 ENSG00000184515|ENST00000333643|BEX5 ENSG00000184515|ENST00000333643|BEX5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 404.922689 1211.74624 3.2689 0.0013237 -0.3399 -0.00013763 2.929 0.001186 404.92265759700285 12.55 0.12288 13.193 13.121 13.244 0.64272 0.1651 -0.00019884 NaN 60.899 10 3 4 NaN NaN NaN NaN 0 NaN NaN 0 62422000 5053 5447 3348 3358 0.14883565199602344 ELRRKIREL 9 Unmodified _ELRRKIREL_ 0 0 0 ENSG00000184515|ENST00000333643|BEX5 ENSG00000184515|ENST00000333643|BEX5 ENSG00000184515|ENST00000333643|BEX5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 303.943836 1211.74624 2.4524 0.00074539 0.031932 9.7055E-06 2.4843 0.0007551 303.9439355970303 12.55 0.12288 13.193 13.121 13.244 0.64272 0.16602 -0.00016523 NaN 60.899 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 9131100 5054 5447 3348 3358 0.14883565199602344 ELRRLEKG 8 Unmodified _ELRRLEKG_ 0 0 0 ENST00000540458.5_1_12:6956031-6956169:+|nuORF ENST00000540458.5_1_12:6956031-6956169:+|nuORF ENST00000540458.5_1_12:6956031-6956169:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.0065002441406 2 500.79854 999.582528 NaN NaN NaN NaN NaN NaN NaN 94.87 1 94.87 94.37 95.37 0 0 0 0 0.89651 1 50981 50981 12.532 0 1 5055 8802 3349 3359 5590 5590 0.08271967428720473 ELRRQLWIWKF 11 Unmodified _ELRRQLWIWKF_ 0 0 0 ENST00000464415.1_1_2:33817123-33824435:-|nuORF ENST00000464415.1_1_2:33817123-33824435:-|nuORF ENST00000464415.1_1_2:33817123-33824435:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 787.5202026367188 2 787.951353 1573.88815 NaN NaN NaN NaN NaN NaN NaN 101.09 1 101.09 100.59 101.59 0 0 0 0 1.0061 1 55862 55862 2.7352 0 1 5056 8113 3350 3360 5591 5591 0.12416358221935297 ELRRQVDQL 9 Unmodified _ELRRQVDQL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 386.5549011230469 3 386.219283 1155.63602 2.8426 0.0010979 -0.075688 -2.9232E-05 2.767 0.0010687 386.21925304302886 22.569 0.20046 22.85 22.738 22.938 0.28085 76 44 2 0 0 0 0.017293 2 10197 10156;10197 57.249 18.634 1 7841900 5057 483 3351 3361 5592;5593 5593 0.06442720140557867 ELRRQVDQL 9 Unmodified _ELRRQVDQL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.8275146484375 2 578.825286 1155.63602 3.3352 0.0019305 0.94247 0.00054553 4.2777 0.002476 578.8258177510243 22.559 0.10695 22.84 22.764 22.871 0.28085 31 22 2 0 0 0 0.057945 1 10177 10177 43.772 0 1 4097900 5058 483 3351 3361 5594 5594 0.06442720140557867 ELRRQVDQL 9 Unmodified _ELRRQVDQL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 386.220458984375 3 386.219283 1155.63602 2.8178 0.0010883 0.24861 9.6019E-05 3.0664 0.0011843 386.21959709055443 22.068 0.031448 22.715 22.699 22.73 0.64714 8 6 2 0 0 0 0.0079462 1 10038 10038 69.338 30.723 1 5395300 5059 483 3351 3361 5595 5595 0.06442720140557867 ELRRQVDQL 9 Unmodified _ELRRQVDQL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.8272094726562 2 578.825286 1155.63602 NaN NaN NaN NaN NaN NaN NaN 22.116 1 22.763 22.263 23.263 0.64714 0 0 0 0.021079 1 10059 10059 71.708 12.34 1 5060 483 3351 3361 5596 5596 0.06442720140557867 ELRRRRDKVKE 11 Unmodified _ELRRRRDKVKE_ 0 0 0 REV__ENST00000433491.5_1_X:103031547-103031884:+|nuORF REV__ENST00000433491.5_1_X:103031547-103031884:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 742.9415283203125 2 742.942047 1483.86954 NaN NaN NaN NaN NaN NaN NaN 81.791 1 81.791 81.291 82.291 0 0 0 0 1.0073 1 40781 40781 1.1933 0 1 + 5061 16283 3352 3362 5597 5597 0.14696196580075593 ELRRRRSFLWP 11 Unmodified _ELRRRRSFLWP_ 0 0 0 REV__nc|ENSG00000117281|O95971-4|CD160 REV__nc|ENSG00000117281|O95971-4|CD160 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 758.4401245117188 2 758.436401 1514.85825 4.6755 0.0035461 -0.44927 -0.00034074 4.2262 0.0032053 758.4374080401683 100.62 0.59342 100.93 100.79 101.38 0.31412 82 19 5 0 0 0 0.91378 1 46567 46567 0.35063 0.043601 1 14522000 + 5062 17907 3353 3363 5598 5598 0.12141419276599663 ELRRRRVRPR 10 Unmodified _ELRRRRVRPR_ 0 0 0 REV__ENST00000422760.1_1_7:117824319-117824580:+|nuORF REV__ENST00000422760.1_1_7:117824319-117824580:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 697.3971557617188 2 697.439809 1392.86507 NaN NaN NaN NaN NaN NaN NaN 107.96 1 108.01 107.51 108.51 0.045425 0 0 0 1.0001 1 58320 58320 1.6526 0 1 + 5063 16185 3354 3364 5599 5599 0.18434776947833598 ELRRRWLKDQE 11 Unmodified _ELRRRWLKDQE_ 0 0 0 nc|ENSG00000165264|O95139-2|NDUFB6;ENSG00000165264|ENST00000379847|NDUFB6 nc|ENSG00000165264|O95139-2|NDUFB6 nc|ENSG00000165264|O95139-2|NDUFB6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 764.9888916015625 2 764.920781 1527.82701 NaN NaN NaN NaN NaN NaN NaN 107.87 1 107.92 107.42 108.42 0.045425 0 0 0 0.97845 1 58275 58275 8.7454 0 1 5064 4384 3355 3365 5600 5600 0.08420801451825355 ELRRTLQSL 9 Unmodified _ELRRTLQSL_ 0 0 0 nc|ENSG00000139842|Q13619-2|CUL4A;nc|ENSG00000158290|Q13620-3|CUL4B;ENSG00000139842|ENST00000375440|CUL4A;ENSG00000158290|ENST00000371322|CUL4B;nc|ENSG00000158290|Q13620|CUL4B nc|ENSG00000139842|Q13619-2|CUL4A nc|ENSG00000139842|Q13619-2|CUL4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.3330078125 2 558.330205 1114.64586 3.6878 0.002059 -0.3243 -0.00018107 3.3635 0.001878 558.3300524457727 33.023 0.25173 33.277 33.174 33.425 0.25389 25 10 3 0 0 0 0.64206 2 15039 15039;15088 10.074 0.6908 1 565090 5065 3169 3356 3366 5601;5602 5601 0.0931190814594629 ELRRTLQSL 9 Unmodified _ELRRTLQSL_ 0 0 0 nc|ENSG00000139842|Q13619-2|CUL4A;nc|ENSG00000158290|Q13620-3|CUL4B;ENSG00000139842|ENST00000375440|CUL4A;ENSG00000158290|ENST00000371322|CUL4B;nc|ENSG00000158290|Q13620|CUL4B nc|ENSG00000139842|Q13619-2|CUL4A nc|ENSG00000139842|Q13619-2|CUL4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.33154296875 2 558.330205 1114.64586 3.4503 0.0019264 0.17057 9.5235E-05 3.6209 0.0020217 558.3303149904463 32.514 0.35078 33.133 32.977 33.328 0.61831 37 17 3 0 0 0 0.80651 2 14882 14882;14941 7.2892 0 1 466160 5066 3169 3356 3366 5603;5604 5603 0.0931190814594629 ELRRWFIQQE 10 Unmodified _ELRRWFIQQE_ 0 0 0 nc|ENSG00000146143|P49643-2|PRIM2;ENST00000419977.4_1_6:57182469-57246993:+|nuORF;ENSG00000146143|ENST00000615550|PRIM2 nc|ENSG00000146143|P49643-2|PRIM2 nc|ENSG00000146143|P49643-2|PRIM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 702.8453369140625 2 702.872768 1403.73098 NaN NaN NaN NaN NaN NaN NaN 83.599 1 83.599 83.099 84.099 0 0 0 0 0.98664 1 42136 42136 7.609 0.97858 1 5067 3503 3357 3367 5605 5605 0.04526653611742404 ELRSKVKRLI 10 Unmodified _ELRSKVKRLI_ 0 0 0 ENST00000528685.1_1_11:71498671-71500866:+|nuORF;ENST00000338711.9_1_12:8393265-8395508:-|nuORF ENST00000528685.1_1_11:71498671-71500866:+|nuORF ENST00000528685.1_1_11:71498671-71500866:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 620.9876098632812 2 621.406247 1240.79794 NaN NaN NaN NaN NaN NaN NaN 93.998 1 93.998 93.498 94.498 0 0 0 0 1.0006 1 50297 50297 1.1933 0 1 5068 7048 3358 3368 5606 5606 0.18717308893519657 ELRVAPSFL 9 Unmodified _ELRVAPSFL_ 0 0 0 ENST00000507479.5_1_4:186317255-186318313:+|nuORF;ENST00000507753.1_1_4:186317255-186318067:+|nuORF ENST00000507479.5_1_4:186317255-186318313:+|nuORF ENST00000507479.5_1_4:186317255-186318313:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.2970581054688 2 516.297842 1030.58113 NaN NaN NaN NaN NaN NaN NaN 12.613 1 13.255 12.755 13.755 0.64272 0 0 0 0.77475 1 5662 5662 10.074 1.4806 1 5069 8523 3359 3369 5607 5607 0.06706333339957382 ELRVEQESL 9 Unmodified _ELRVEQESL_ 0 0 0 ENSG00000130638|ENST00000252934|ATXN10;nc|ENSG00000130638|Q9UBB4-2|ATXN10 ENSG00000130638|ENST00000252934|ATXN10 ENSG00000130638|ENST00000252934|ATXN10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 551.7922973632812 2 551.790578 1101.5666 3.5292 0.0019474 -0.18393 -0.00010149 3.3453 0.0018459 551.7902677740202 39.43 0.24791 39.697 39.546 39.794 0.26696 15 9 2 0 0 0 0.02812 1 17936 17936 57.722 12.022 1 380400 5070 2603 3360 3370 5608 5608 0.019882164011505665 ELRVEQESL 9 Unmodified _ELRVEQESL_ 0 0 0 ENSG00000130638|ENST00000252934|ATXN10;nc|ENSG00000130638|Q9UBB4-2|ATXN10 ENSG00000130638|ENST00000252934|ATXN10 ENSG00000130638|ENST00000252934|ATXN10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.7925415039062 2 551.790578 1101.5666 NaN NaN NaN NaN NaN NaN NaN 39.049 1 39.687 39.187 40.187 0.63778 0 0 0 0.026167 1 17850 17850 62.573 13.018 1 5071 2603 3360 3370 5609 5609 0.019882164011505665 ELRVGLFLRRA 11 Unmodified _ELRVGLFLRRA_ 0 0 0 nc|ENSG00000164050|O43157-2|PLXNB1;PLXNB1|p.N1992Tfs*76|1|0.36|ENSG00000164050|chr3:48409441-48409441|T/-|frameshift_variant;ENSG00000164050|ENST00000296440|PLXNB1 nc|ENSG00000164050|O43157-2|PLXNB1 nc|ENSG00000164050|O43157-2|PLXNB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 665.1510620117188 2 665.409321 1328.80409 NaN NaN NaN NaN NaN NaN NaN 99.004 1 99.304 98.804 99.804 0.29987 0 0 0 1.0044 1 45687 45687 4.897 2.3985 1 5072 4277 3361 3371 5610 5610 0.15283827125017524 ELRVQVEKLKP 11 Unmodified _ELRVQVEKLKP_ 0 0 0 REV__ENSG00000197461|ENST00000402802|PDGFA REV__ENSG00000197461|ENST00000402802|PDGFA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 669.9136352539062 2 669.908819 1337.80309 NaN NaN NaN NaN NaN NaN NaN 94.381 1 94.468 93.968 94.968 0.086212 0 0 0 1.0041 1 49639 49639 5.2969 0 1 + 5073 14280 3362 3372 5611 5611 0.14769567965458918 ELRWRNIL 8 Unmodified _ELRWRNIL_ 0 0 0 REV__nc|ENSG00000151572|Q32M45-2|ANO4 REV__nc|ENSG00000151572|Q32M45-2|ANO4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.3241577148438 2 550.322183 1098.62981 3.6764 0.0020232 -0.030038 -1.6531E-05 3.6464 0.0020067 550.8231806023114 48.626 0.19827 49.281 49.173 49.371 0.65525 9 6 2 0 0 0 0.68261 1 22266 22266 2.5775 0 1 295120 + 5074 10021 3363 3373 5612 5612 0.08444246699696123 ELRWRNIL 8 Unmodified _ELRWRNIL_ 0 0 0 REV__nc|ENSG00000151572|Q32M45-2|ANO4 REV__nc|ENSG00000151572|Q32M45-2|ANO4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 550.322183 1098.62981 3.6764 0.0020232 -0.030038 -1.6531E-05 3.6464 0.0020067 550.8231806023114 48.626 0.19827 49.281 49.173 49.371 0.65525 -0.062314 -0.00048851 NaN 2.5775 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 295120 + 5075 10021 3363 3373 0.08444246699696123 ELRYKEKRRQ 10 Unmodified _ELRYKEKRRQ_ 0 0 0 REV__nc|ENSG00000104218|Q1MSJ5-2|CSPP1 REV__nc|ENSG00000104218|Q1MSJ5-2|CSPP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 703.4039306640625 2 703.404766 1404.79498 NaN NaN NaN NaN NaN NaN NaN 94.091 1 94.091 93.591 94.591 0 0 0 0 0.99812 1 50376 50376 3.2813 0 1 + 5076 10114 3364 3374 5613 5613 0.10877433768700939 ELSHKLVT 8 Unmodified _ELSHKLVT_ 0 0 0 REV__ENST00000497262.1_1_10:94669265-94675727:+|nuORF REV__ENST00000497262.1_1_10:94669265-94675727:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.7703552246094 2 463.768917 925.523281 2.8323 0.0013135 0.2345 0.00010875 3.0668 0.0014223 463.7688638274573 25.36 0.26377 25.628 25.508 25.772 0.26777 43 24 2 0 0 0 0.62895 1 11476 11476 11.64 0 1 756010 + 5077 12153 3365 3375 5614 5614 0.05754071414526152 ELSLNKLATS 10 Unmodified _ELSLNKLATS_ 0 0 0 ENST00000536971.1_1_12:7090970-7125761:-|nuORF;ENSG00000111684|ENST00000261407|LPCAT3 ENST00000536971.1_1_12:7090970-7125761:-|nuORF ENST00000536971.1_1_12:7090970-7125761:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.3026733398438 2 538.303321 1074.59209 NaN NaN NaN NaN NaN NaN NaN 88.184 1 88.237 87.737 88.737 0.052155 0 0 0 0.95221 1 44850 44850 13.042 2.9685 1 5078 1771 3366 3376 5615 5615 0.05777690923582668 ELSLRQPHYFQ 11 Unmodified _ELSLRQPHYFQ_ 0 0 0 REV__ENSG00000139044|ENST00000266383|B4GALNT3 REV__ENSG00000139044|ENST00000266383|B4GALNT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 709.431884765625 2 709.364776 1416.715 NaN NaN NaN NaN NaN NaN NaN 97.257 1 97.257 96.757 97.757 0 0 0 0 1.0059 1 52890 52890 2.9952 0.26005 1 + 5079 12201 3367 3377 5616 5616 0.023309473748440723 ELSRIVLEVRE 11 Unmodified _ELSRIVLEVRE_ 0 0 0 nc|ENSG00000103264|Q5XUX0-2|FBXO31;ENSG00000103264|ENST00000311635|FBXO31 nc|ENSG00000103264|Q5XUX0-2|FBXO31 nc|ENSG00000103264|Q5XUX0-2|FBXO31 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 671.6685791015625 2 671.888084 1341.76161 NaN NaN NaN NaN NaN NaN NaN 94.422 1 94.508 94.008 95.008 0.086212 0 0 0 1.0047 1 49672 49672 4.5289 0 1 5080 1389 3368 3378 5617 5617 0.10440387206108426 ELSSFQNII 9 Unmodified _ELSSFQNII_ 0 0 0 ENSG00000118997|ENST00000312428|DNAH7;nc|ENSG00000118997|Q8WXX0-4|DNAH7 ENSG00000118997|ENST00000312428|DNAH7 ENSG00000118997|ENST00000312428|DNAH7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.7811889648438 2 525.776939 1049.53933 NaN NaN NaN NaN NaN NaN NaN 69.316 1 69.57 69.07 70.07 0.25443 0 0 0 0.34849 1 31745 31745 26.884 0 1 5081 2130 3369 3379 5618 5618 0.01653732860791024 ELSVAMKRA 9 Unmodified _ELSVAMKRA_ 0 0 0 REV__ENST00000420283.2_1_6:116574780-116574846:-|nuORF REV__ENST00000420283.2_1_6:116574780-116574846:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.54754638671875 3 335.523427 1003.54845 2.4614 0.00082585 0.25116 8.4271E-05 2.7125 0.00091012 335.5235392238379 19.459 0.18023 20.117 20.031 20.211 0.65829 13 11 2 0 0 0 0.11293 1 8813 8813 0.96228 0.61164 1 229260 + 5082 16166 3370 3380 5619 5619 0.04681802945447089 ELSWRMCL 8 Carbamidomethyl (C) _ELSWRMC(Carbamidomethyl (C))L_ ELSWRMC(1)L ELSWRMC(44)L 0 1 0 nc|ENSG00000171617|O14682-2|ENC1;ENSG00000171617|ENST00000302351|ENC1 nc|ENSG00000171617|O14682-2|ENC1 nc|ENSG00000171617|O14682-2|ENC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.76171875 2 547.759712 1093.50487 3.5702 0.0019556 0.74106 0.00040592 4.3113 0.0023615 547.7600051980153 56.07 0.54862 56.07 55.853 56.401 0 104 42 3 0 0 0 0.18676 1 25821 25821 44.407 44.407 1 3178700 5083 4821 3371 3381 5620 5620 81 -0.03814129823354051 ELTESQKYNFR 11 Unmodified _ELTESQKYNFR_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;TTN|p.R30215Vfs*13|1|0.21|ENSG00000155657|chr2:178545544-178545544|G/-|frameshift_variant;nc|ENSG00000155657|Q8WZ42-5|TTN;TTN|p.P20319Hfs*66|1|0.07|ENSG00000155657|chr2:178582577-178582578|-/AAAATAAATAT|frameshift_variant;TTN|p.A15448Hfs*16|1|0.24|ENSG00000155657|chr2:178610249-178610261|TTCTCCTCCCAGC/-|frameshift_variant;TTN|p.G17760Ifs*40|1|0.07|ENSG00000155657|chr2:178594192-178594193|-/TCGACTTCAGAGAT|frameshift_variant;TTN|p.V17759Afs*3|1|0.05|ENSG00000155657|chr2:178594194-178594195|-/G|frameshift_variant ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 707.4581909179688 2 707.851698 1413.68884 NaN NaN NaN NaN NaN NaN NaN 96.137 1 96.137 95.637 96.637 0 0 0 0 1.0038 1 51948 51948 5.7319 0.43497 1 5084 3871 3372 3382 5621 5621 -0.0014536658729866758 ELTHLKKYRRY 11 Unmodified _ELTHLKKYRRY_ 0 0 0 ENST00000481856.1_1_7:4213871-4218865:+|nuORF;ENST00000476701.5_1_7:4169443-4308379:+|nuORF;nc|ENSG00000146555|Q7Z5N4-3|SDK1;ENSG00000146555|ENST00000404826|SDK1 ENST00000481856.1_1_7:4213871-4218865:+|nuORF ENST00000481856.1_1_7:4213871-4218865:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 753.931396484375 2 753.930617 1505.84668 NaN NaN NaN NaN NaN NaN NaN 90.837 1 90.837 90.337 91.337 0 0 0 0 1.008 1 47830 47830 0.35063 0 1 5085 3525 3373 3383 5622 5622 0.11399177462612897 ELTIPNDLI 9 Unmodified _ELTIPNDLI_ 0 0 0 ENST00000547048.5_1_12:53862529-53873223:+|nuORF;ENST00000517662.1_1_8:75515525-75516083:-|nuORF;nc|ENSG00000197111|Q15366-7|PCBP2;nc|ENSG00000197111|Q15366-8|PCBP2;nc|ENSG00000197111|Q15366-4|PCBP2;nc|ENSG00000197111|Q15366-5|PCBP2;nc|ENSG00000183570|P57721-2|PCBP3;nc|ENSG00000183570|P57721-3|PCBP3;nc|ENSG00000183570|P57721-5|PCBP3;nc|ENSG00000197111|Q15366-6|PCBP2;ENSG00000197111|ENST00000546463|PCBP2;nc|ENSG00000197111|Q15366|PCBP2;nc|ENSG00000197111|Q15366-2|PCBP2;nc|ENSG00000183570|P57721-4|PCBP3;ENSG00000183570|ENST00000681687|PCBP3 ENST00000547048.5_1_12:53862529-53873223:+|nuORF ENST00000547048.5_1_12:53862529-53873223:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.2889404296875 2 514.28714 1026.55973 2.5977 0.0013359 0.96578 0.00049669 3.5634 0.0018326 514.2875823622691 72.763 0.25774 72.763 72.611 72.868 0 35 22 2 0 0 0 0.057744 1 35363 35363 43.858 2.0187 1 2190900 5086 5388 3374 3384 5623 5623 0.04750903520562133 ELTRRLLSL 9 Unmodified _ELTRRLLSL_ 0 0 0 nc|ENSG00000072682|O15460|P4HA2;ENSG00000072682|ENST00000360568|P4HA2 nc|ENSG00000072682|O15460|P4HA2 nc|ENSG00000072682|O15460|P4HA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.84521484375 2 550.842948 1099.67134 3.8095 0.0020984 -0.30799 -0.00016965 3.5015 0.0019288 550.8426658587914 50.857 0.22772 50.857 50.711 50.938 0 14 9 2 0 0 0 0.11458 1 23294 23294 29.082 3.6823 1 1034800 5087 795 3375 3385 5624 5624 0.12549382668385078 ELTRRLLSL 9 Unmodified _ELTRRLLSL_ 0 0 0 nc|ENSG00000072682|O15460|P4HA2;ENSG00000072682|ENST00000360568|P4HA2 nc|ENSG00000072682|O15460|P4HA2 nc|ENSG00000072682|O15460|P4HA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.8450927734375 2 550.842948 1099.67134 3.4634 0.0019078 0.073729 4.0613E-05 3.5372 0.0019484 550.8430091500763 50.66 0.33082 50.921 50.745 51.076 0.26146 37 15 3 0 0 0 0.057945 3 23157 23106;23157;23197 43.772 12.504 1 2229100 5088 795 3375 3385 5625;5626;5627 5626 0.12549382668385078 ELTRRLLSL 9 Unmodified _ELTRRLLSL_ 0 0 0 nc|ENSG00000072682|O15460|P4HA2;ENSG00000072682|ENST00000360568|P4HA2 nc|ENSG00000072682|O15460|P4HA2 nc|ENSG00000072682|O15460|P4HA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 367.5650939941406 3 367.564391 1099.67134 2.5732 0.00094583 -0.39484 -0.00014513 2.1784 0.0008007 367.56430460694764 50.624 0.33082 50.886 50.745 51.076 0.26146 44 15 4 0 0 0 0.048676 1 23129 23129 43.982 13.278 1 2287100 5089 795 3375 3385 5628 5628 0.12549382668385078 ELTRRLLSL 9 Unmodified _ELTRRLLSL_ 0 0 0 nc|ENSG00000072682|O15460|P4HA2;ENSG00000072682|ENST00000360568|P4HA2 nc|ENSG00000072682|O15460|P4HA2 nc|ENSG00000072682|O15460|P4HA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 367.5649719238281 3 367.564391 1099.67134 2.5881 0.00095129 -0.11898 -4.3735E-05 2.4691 0.00090756 367.56436540539903 49.898 0.3466 50.555 50.436 50.783 0.65735 37 13 4 0 0 0 0.021401 2 22809 22809;22858 53.317 20.419 1 2761100 5090 795 3375 3385 5629;5630 5629 0.12549382668385078 ELTRRLLSL 9 Unmodified _ELTRRLLSL_ 0 0 0 nc|ENSG00000072682|O15460|P4HA2;ENSG00000072682|ENST00000360568|P4HA2 nc|ENSG00000072682|O15460|P4HA2 nc|ENSG00000072682|O15460|P4HA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.8447265625 2 550.842948 1099.67134 3.5129 0.0019351 0.37316 0.00020555 3.8861 0.0021406 550.8430632569323 49.916 0.29306 50.574 50.436 50.729 0.65735 28 11 3 0 0 0 0.02812 2 22812 22812;22870 57.722 13.864 1 2614000 5091 795 3375 3385 5631;5632 5631 0.12549382668385078 ELTRRLLSL 9 Unmodified _ELTRRLLSL_ 0 0 0 nc|ENSG00000072682|O15460|P4HA2;ENSG00000072682|ENST00000360568|P4HA2 nc|ENSG00000072682|O15460|P4HA2 nc|ENSG00000072682|O15460|P4HA2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 367.564391 1099.67134 2.9352 0.0010789 -0.26982 -9.9176E-05 2.6654 0.00097971 367.5642094677887 50.862 0.21451 50.862 50.748 50.963 0 0.09763 -5.8645E-05 NaN 53.317 15 7 3 NaN NaN NaN NaN 0 NaN NaN 0 863500 5092 795 3375 3385 0.12549382668385078 ELTRRLLSL 9 Unmodified _ELTRRLLSL_ 0 0 0 nc|ENSG00000072682|O15460|P4HA2;ENSG00000072682|ENST00000360568|P4HA2 nc|ENSG00000072682|O15460|P4HA2 nc|ENSG00000072682|O15460|P4HA2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 550.842948 1099.67134 3.3455 0.0018429 -0.020973 -1.1553E-05 3.3246 0.0018313 550.8429695365586 49.892 0.27307 50.715 50.612 50.885 0.82285 -0.051963 -0.0001586 NaN 57.722 18 10 2 NaN NaN NaN NaN 0 NaN NaN 0 489610 5093 795 3375 3385 0.12549382668385078 ELTRRLLSL 9 Unmodified _ELTRRLLSL_ 0 0 0 nc|ENSG00000072682|O15460|P4HA2;ENSG00000072682|ENST00000360568|P4HA2 nc|ENSG00000072682|O15460|P4HA2 nc|ENSG00000072682|O15460|P4HA2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 367.564391 1099.67134 2.4942 0.00091677 -0.041007 -1.5073E-05 2.4532 0.00090169 367.5643612010617 49.932 0.27307 50.755 50.612 50.885 0.82285 -0.0093575 0.00019366 NaN 53.317 18 10 2 NaN NaN NaN NaN 0 NaN NaN 0 683050 5094 795 3375 3385 0.12549382668385078 ELVKKHKKKRV 11 Unmodified _ELVKKHKKKRV_ 0 0 0 ENST00000549307.5_1_12:58109828-58113249:+|nuORF;nc|ENSG00000135506|Q13438-8|OS9;nc|ENSG00000135506|Q13438-6|OS9;nc|ENSG00000135506|Q13438-5|OS9;nc|ENSG00000135506|Q13438-3|OS9;nc|ENSG00000135506|Q13438-2|OS9;nc|ENSG00000135506|Q13438-7|OS9;nc|ENSG00000135506|Q13438-4|OS9;ENSG00000135506|ENST00000315970|OS9 ENST00000549307.5_1_12:58109828-58113249:+|nuORF ENST00000549307.5_1_12:58109828-58113249:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.9765319824219 3 464.976906 1391.90889 NaN NaN NaN NaN NaN NaN NaN 64.057 1 64.057 63.557 64.557 0 0 0 0 1.0079 1 30259 30259 0.50596 0.051438 1 5095 2876 3376 3386 5633 5633 0.22860948601578457 ELVKRSQL 8 Unmodified _ELVKRSQL_ 0 0 0 ENSG00000011454|ENST00000373647|RABGAP1;nc|ENSG00000188394|Q9Y3P9-3|RABGAP1;nc|ENSG00000188394|Q9Y3P9-2|RABGAP1;nc|ENSG00000188394|Q9Y3P9-4|RABGAP1;ENST00000317419.7_1_9:125719338-125751780:+|nuORF ENSG00000011454|ENST00000373647|RABGAP1 ENSG00000011454|ENST00000373647|RABGAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.7965393066406 2 486.795466 971.57638 3.1011 0.0015096 0.48923 0.00023816 3.5903 0.0017477 486.7956284963823 26.046 0.23777 26.81 26.692 26.93 0.76356 23 14 2 0 0 0 0.65679 1 11729 11729 4.3292 2.0265 1 239540 5096 417 3377 3387 5634 5634 0.08945449197187827 ELVLLLLRVLH 11 Unmodified _ELVLLLLRVLH_ 0 0 0 ENST00000558791.5_1_15:44719859-44751301:+|nuORF ENST00000558791.5_1_15:44719859-44751301:+|nuORF ENST00000558791.5_1_15:44719859-44751301:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 659.4345703125 2 659.434473 1316.85439 NaN NaN NaN NaN NaN NaN NaN 57.618 1 58.286 57.786 58.786 0.66829 0 0 0 1.008 1 26366 26366 0.35063 0 1 5097 8958 3378 3388 5635 5635 0.2086393673018847 ELVQLVSPFL 10 Unmodified _ELVQLVSPFL_ 0 0 0 ENSG00000169375|ENST00000394947|SIN3A ENSG00000169375|ENST00000394947|SIN3A ENSG00000169375|ENST00000394947|SIN3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 382.226318359375 3 382.225264 1143.65396 2.7613 0.0010554 0.39234 0.00014996 3.1536 0.0012054 382.2252830859624 15.796 0.36904 15.796 15.615 15.984 0 59 43 2 0 0 0 0.94134 1 7005 7005 0.62683 0 1 58284 5098 4688 3379 3389 5636 5636 0.08788042342712288 ELVRGATDVAI 11 Unmodified _ELVRGATDVAI_ 0 0 0 REV__ENSG00000165934|ENST00000298875|CPSF2 REV__ENSG00000165934|ENST00000298875|CPSF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 572.3260498046875 2 572.322045 1142.62954 3.4809 0.0019922 0.25909 0.00014828 3.74 0.0021405 572.3222406968541 53.379 0.3695 54.043 53.762 54.132 0.6644 22 14 2 0 0 0 0.62928 1 24346 24346 14.405 2.1647 1 700810 + 5099 13199 3380 3390 5637 5637 0.06392782189186619 ELVRVLCRRL 10 Unmodified _ELVRVLCRRL_ 0 0 0 ENSG00000198198|ENST00000634258|SZT2;nc|ENSG00000198198|Q5T011-5|SZT2 ENSG00000198198|ENST00000634258|SZT2 ENSG00000198198|ENST00000634258|SZT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 419.928466796875 3 419.592175 1255.7547 3.1615 0.0013265 0.5456 0.00022893 3.7071 0.0015555 419.592318563839 87.799 0.6163 88.477 88.239 88.856 0.67818 69 30 4 0 0 0 0.93503 1 40500 40500 1.9064 0.83491 1 1698700 5100 5875 3381 3391 5638 5638 0.13704795844569162 ELVTTHHLKL 10 Unmodified _ELVTTHHLKL_ 0 0 0 ENSG00000008226|ENST00000308059|DLEC1;nc|ENSG00000008226|Q9Y238-3|DLEC1 ENSG00000008226|ENST00000308059|DLEC1 ENSG00000008226|ENST00000308059|DLEC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 397.569091796875 3 397.567912 1189.68191 2.7109 0.0010778 0.27463 0.00010919 2.9856 0.001187 397.5679662636362 22.137 0.31566 22.137 21.969 22.284 0 65 23 3 0 0 0 0.51485 1 9954 9954 20.581 4.0151 1 1034400 5101 373 3382 3392 5639 5639 0.09465365322807884 ELVTVQKEQS 10 Unmodified _ELVTVQKEQS_ 0 0 0 REV__ENST00000490763.1_1_12:8078421-8082456:-|nuORF REV__ENST00000490763.1_1_12:8078421-8082456:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 580.4462280273438 2 580.81151 1159.60847 NaN NaN NaN NaN NaN NaN NaN 95.684 1 95.766 95.266 96.266 0.082001 0 0 0 0.99774 1 50636 50636 3.5965 0.31518 1 + 5102 10391 3383 3393 5640 5640 0.035047720896727697 ELVVPKHVM 9 Unmodified _ELVVPKHVM_ 0 0 0 nc|ENSG00000196365|P36776-2|LONP1;ENSG00000196365|ENST00000360614|LONP1;ENST00000590558.5_1_19:5692045-5712033:-|nuORF;nc|ENSG00000196365|P36776-3|LONP1;ENST00000587552.5_1_19:5696605-5708411:-|nuORF nc|ENSG00000196365|P36776-2|LONP1 nc|ENSG00000196365|P36776-2|LONP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.30419921875 2 526.30207 1050.58959 NaN NaN NaN NaN NaN NaN NaN 36.752 1 36.752 36.252 37.252 0 0 0 0 0.17021 1 16680 16680 32.305 6.9062 1 5103 5738 3384 3394 5641 5641 0.06631563984910827 ELVVPKHVM 9 Unmodified _ELVVPKHVM_ 0 0 0 nc|ENSG00000196365|P36776-2|LONP1;ENSG00000196365|ENST00000360614|LONP1;ENST00000590558.5_1_19:5692045-5712033:-|nuORF;nc|ENSG00000196365|P36776-3|LONP1;ENST00000587552.5_1_19:5696605-5708411:-|nuORF nc|ENSG00000196365|P36776-2|LONP1 nc|ENSG00000196365|P36776-2|LONP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.3037109375 2 526.30207 1050.58959 3.347 0.0017615 -0.28402 -0.00014948 3.063 0.001612 526.3019032346102 36.615 0.24377 36.873 36.719 36.963 0.25768 21 8 3 0 0 0 0.052704 2 16658 16658;16719 46.021 17.534 1 780170 5104 5738 3384 3394 5642;5643 5642 0.06631563984910827 ELVVPKHVM 9 Unmodified _ELVVPKHVM_ 0 0 0 nc|ENSG00000196365|P36776-2|LONP1;ENSG00000196365|ENST00000360614|LONP1;ENST00000590558.5_1_19:5692045-5712033:-|nuORF;nc|ENSG00000196365|P36776-3|LONP1;ENST00000587552.5_1_19:5696605-5708411:-|nuORF nc|ENSG00000196365|P36776-2|LONP1 nc|ENSG00000196365|P36776-2|LONP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.3040771484375 2 526.30207 1050.58959 3.3968 0.0017877 -0.36381 -0.00019147 3.033 0.0015963 526.3020243068619 35.987 0.17562 36.613 36.52 36.695 0.62631 14 5 3 0 0 0 0.052704 1 16479 16479 46.021 13.715 1 972160 5105 5738 3384 3394 5644 5644 0.06631563984910827 ELWAHQGPE 9 Unmodified _ELWAHQGPE_ 0 0 0 nc|ENSG00000157833|Q75VX8-3|GAREM2;nc|ENSG00000157833|Q75VX8-2|GAREM2;ENSG00000157833|ENST00000401533|GAREM2 nc|ENSG00000157833|Q75VX8-3|GAREM2 nc|ENSG00000157833|Q75VX8-3|GAREM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.75341796875 2 533.751256 1065.48796 3.0102 0.0016067 0.5716 0.00030509 3.5818 0.0019118 533.7514374167057 58.128 0.22863 58.39 58.204 58.433 0.26227 21 12 2 0 0 0 0.26277 1 26574 26574 19.257 3.4098 1 1012400 5106 3964 3385 3395 5645 5645 -0.04216591113276991 ELWDLYTRYRF 11 Unmodified _ELWDLYTRYRF_ 0 0 0 REV__nc|ENSG00000125505|Q96N66-3|MBOAT7 REV__nc|ENSG00000125505|Q96N66-3|MBOAT7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 781.3967895507812 2 781.393533 1560.77251 NaN NaN NaN NaN NaN NaN NaN 96.146 1 96.223 95.723 96.723 0.076538 0 0 0 1.0072 1 51008 51008 1.3295 0 1 + 5107 11684 3386 3396 5646 5646 0.014557895804045984 ELWLLLRLGP 10 Unmodified _ELWLLLRLGP_ 0 0 0 REV__nc|ENSG00000070729|Q14028-3|CNGB1 REV__nc|ENSG00000070729|Q14028-3|CNGB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 403.91802978515625 3 403.916653 1208.72813 2.6912 0.001087 0.41938 0.00016939 3.1105 0.0012564 404.250839286028 38.682 0.23376 38.682 38.601 38.834 0 18 10 2 0 0 0 0.93713 1 17585 17585 0.62683 0.21856 1 519420 + 5108 10480 3387 3397 5647 5647 0.13211430224896503 ELWLLLRLGP 10 Unmodified _ELWLLLRLGP_ 0 0 0 REV__nc|ENSG00000070729|Q14028-3|CNGB1 REV__nc|ENSG00000070729|Q14028-3|CNGB1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 403.916653 1208.72813 2.6912 0.001087 0.41938 0.00016939 3.1105 0.0012564 404.250839286028 38.682 0.23376 38.682 38.601 38.834 0 -0.077725 0.0004611 NaN 0.62683 18 10 2 NaN NaN NaN NaN 0 NaN NaN 0 519420 + 5109 10480 3387 3397 0.13211430224896503 ELWLLLRLGP 10 Unmodified _ELWLLLRLGP_ 0 0 0 REV__nc|ENSG00000070729|Q14028-3|CNGB1 REV__nc|ENSG00000070729|Q14028-3|CNGB1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 403.916653 1208.72813 2.7825 0.0011239 0.012251 4.9482E-06 2.7947 0.0011288 404.2505849794861 38.569 0.36765 38.833 38.69 39.058 0.26408 0.073296 -3.2234E-05 NaN 0.62683 18 14 2 NaN NaN NaN NaN 0 NaN NaN 0 1064900 + 5110 10480 3387 3397 0.13211430224896503 ELWLLLRLGP 10 Unmodified _ELWLLLRLGP_ 0 0 0 REV__nc|ENSG00000070729|Q14028-3|CNGB1 REV__nc|ENSG00000070729|Q14028-3|CNGB1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 403.916653 1208.72813 2.7878 0.001126 -0.64176 -0.00025922 2.146 0.00086681 404.2502542402771 38.13 0.46269 38.764 38.553 39.015 0.63388 0.0044289 -0.00082473 NaN 0.62683 24 19 2 NaN NaN NaN NaN 0 NaN NaN 0 401610 + 5111 10480 3387 3397 0.13211430224896503 ELWRPCWRPQW 11 Unmodified _ELWRPCWRPQW_ 0 0 0 REV__ENST00000351288.10_3_2:130930900-130931209:-|nuORF REV__ENST00000351288.10_3_2:130930900-130931209:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 779.1470336914062 2 778.882613 1555.75067 NaN NaN NaN NaN NaN NaN NaN 98.458 1 98.524 98.024 99.024 0.066025 0 0 0 1.008 1 52940 52940 0.35063 0 1 + 5112 15523 3388 3398 5648 5648 -0.004972936491412838 ELYAEINLST 10 Unmodified _ELYAEINLST_ 0 0 0 REV__ENSG00000039139|ENST00000265104|DNAH5 REV__ENSG00000039139|ENST00000265104|DNAH5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 576.7921142578125 2 576.792786 1151.57102 NaN NaN NaN NaN NaN NaN NaN 97.378 1 97.449 96.949 97.949 0.070648 0 0 0 0.99464 1 52040 52040 6.2058 0 1 + 5113 10311 3389 3399 5649 5649 0.0012968082403403969 ELYFPEQKMV 10 Unmodified _ELYFPEQKMV_ 0 0 0 REV__nc|ENSG00000172901|Q6Q4G3-4|LVRN REV__nc|ENSG00000172901|Q6Q4G3-4|LVRN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 642.281005859375 2 642.320657 1282.62676 NaN NaN NaN NaN NaN NaN NaN 95.629 1 95.629 95.129 96.129 0 0 0 0 0.98866 1 51543 51543 7.2892 1.0834 1 + 5114 13570 3390 3400 5650 5650 -0.003248092599960728 ELYQKRVL 8 Unmodified _ELYQKRVL_ 0 0 0 nc|ENSG00000157168|Q02297-11|NRG1;nc|ENSG00000157168|Q02297-7|NRG1;ENSG00000157168|ENST00000405005|NRG1;nc|ENSG00000157168|Q02297-6|NRG1;nc|ENSG00000157168|Q02297-2|NRG1;nc|ENSG00000157168|Q02297-12|NRG1;nc|ENSG00000157168|Q02297-3|NRG1;nc|ENSG00000158458|O14511-7|NRG2;nc|ENSG00000158458|O14511-8|NRG2;nc|ENSG00000158458|O14511-2|NRG2;ENSG00000158458|ENST00000361474|NRG2;nc|ENSG00000158458|O14511-4|NRG2;nc|ENSG00000158458|O14511-3|NRG2 nc|ENSG00000157168|Q02297-11|NRG1 nc|ENSG00000157168|Q02297-11|NRG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.2108459472656 3 350.209836 1047.60768 NaN NaN NaN NaN NaN NaN NaN 25.667 1 25.934 25.434 26.434 0.26777 0 0 0 0.95658 1 11651 11651 10.074 6.4774 1 5115 3941 3391 3401 5651 5651 0.08578022231290561 ELYQRWERYRR 11 Unmodified _ELYQRWERYRR_ 0 0 0 nc|ENSG00000010310|P48546-2|GIPR;nc|ENSG00000010310|P48546-3|GIPR;ENSG00000010310|ENST00000590918|GIPR nc|ENSG00000010310|P48546-2|GIPR nc|ENSG00000010310|P48546-2|GIPR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 828.2059326171875 2 827.93168 1653.84881 NaN NaN NaN NaN NaN NaN NaN 102.29 1 102.29 101.79 102.79 0 0 0 0 1.0082 1 56484 56484 0.35063 0.35063 1 5116 9536 3392 3402 5652 5652 0.0480360620040301 ELYTKKLWHQL 11 Unmodified _ELYTKKLWHQL_ 0 0 0 ENSG00000185627|ENST00000532097|PSMD13 ENSG00000185627|ENST00000532097|PSMD13 ENSG00000185627|ENST00000532097|PSMD13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.943115234375 3 486.941638 1457.80309 2.9096 0.0014168 0.29696 0.0001446 3.2065 0.0015614 486.94173246775784 44.413 0.25071 44.682 44.581 44.832 0.2694 18 7 3 0 0 0 0.003718 2 20291 20291;20347 70.321 53.482 1 1578400 5117 5519 3393 3403 5653;5654 5653 0.0924956796548031 ELYTKKLWHQL 11 Unmodified _ELYTKKLWHQL_ 0 0 0 ENSG00000185627|ENST00000532097|PSMD13 ENSG00000185627|ENST00000532097|PSMD13 ENSG00000185627|ENST00000532097|PSMD13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.2769470214844 3 486.941638 1457.80309 3.3361 0.0016245 -0.065314 -3.1804E-05 3.2708 0.0015927 487.2758350593303 43.86 0.16256 44.508 44.498 44.661 0.64872 17 8 3 0 0 0 1.1089E-09 2 20119 20119;20127 115.82 79.426 1 3089100 5118 5519 3393 3403 5655;5656 5655 0.0924956796548031 EMEFNCEVL 9 Unmodified _EMEFNCEVL_ 0 0 0 nc|ENSG00000186575|P35240-6|NF2 nc|ENSG00000186575|P35240-6|NF2 nc|ENSG00000186575|P35240-6|NF2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 372.2025451660156 3 371.824554 1112.45183 2.7392 0.0010185 -0.54737 -0.00020353 2.1919 0.00081498 371.82439150647406 36.595 0.42842 36.852 36.65 37.078 0.25768 36 15 3 0 0 0 0.11383 1 16617 16617 1.1933 0 1 1923200 5119 9788 3394 3404 5657 5657 -0.09989552396677936 EMFATNLL 8 Unmodified _EMFATNLL_ 0 0 0 ENST00000438423.6_1_15:57578531-57578681:+|nuORF ENST00000438423.6_1_15:57578531-57578681:+|nuORF ENST00000438423.6_1_15:57578531-57578681:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 469.7375183105469 2 469.736228 937.457904 2.855 0.0013411 -0.23596 -0.00011084 2.6191 0.0012303 469.73617017059854 39.603 0.27803 39.87 39.684 39.962 0.26696 18 10 2 0 0 0 0.47217 2 17988 17957;17988 23.148 3.8914 1 287290 5120 7917 3395 3405 5658;5659 5659 -0.013326661028372655 EMFPKTSV 8 Unmodified _EMFPKTSV_ 0 0 0 ENSG00000171940|ENST00000371471|ZNF217 ENSG00000171940|ENST00000371471|ZNF217 ENSG00000171940|ENST00000371471|ZNF217 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 469.7374572753906 2 469.736228 937.457904 2.9928 0.0014058 0.10381 4.8764E-05 3.0966 0.0014546 469.7362436148243 39.16 0.21199 39.798 39.736 39.948 0.63778 11 7 2 0 0 0 0.3435 1 17919 17919 32.305 9.1571 1 296160 5121 4842 3396 3406 5660 5660 -0.013326661028258968 EMGGHHIV 8 Unmodified _EMGGHHIV_ 0 0 0 ENSG00000165704|ENST00000298556|HPRT1 ENSG00000165704|ENST00000298556|HPRT1 ENSG00000165704|ENST00000298556|HPRT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 440.2113952636719 2 440.210712 878.406871 2.8869 0.0012709 0.087313 3.8436E-05 2.9743 0.0013093 440.2106281154609 14.238 0.1123 14.238 14.201 14.314 0 13 9 2 0 0 0 0.0063899 1 6278 6278 126.52 59.489 1 1022200 5122 4419 3397 3407 5661 5661 -0.037195703570205296 EMGGHHIV 8 Unmodified _EMGGHHIV_ 0 0 0 ENSG00000165704|ENST00000298556|HPRT1 ENSG00000165704|ENST00000298556|HPRT1 ENSG00000165704|ENST00000298556|HPRT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 440.2123718261719 2 440.210712 878.406871 3.2096 0.0014129 -0.47579 -0.00020945 2.7338 0.0012035 440.2107886821926 13.279 0.24564 13.921 13.791 14.037 0.64272 38 19 3 0 0 0 0.17426 2 5972 5926;5972 45.75 19.409 1 670200 5123 4419 3397 3407 5662;5663 5663 -0.037195703570205296 EMKRMFNQL 9 Unmodified _EMKRMFNQL_ 0 0 0 ENSG00000169991|ENST00000455833|IFFO2 ENSG00000169991|ENST00000455833|IFFO2 ENSG00000169991|ENST00000455833|IFFO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.8031616210938 2 598.799368 1195.58418 NaN NaN NaN NaN NaN NaN NaN 38.88 1 39.144 38.644 39.644 0.26408 0 0 0 0.14425 1 17694 17694 36.127 13.391 1 5124 4726 3398 3408 5664 5664 -0.005784828691957955 EMKSRILVI 9 Unmodified _EMKSRILVI_ 0 0 0 ENSG00000111358|ENST00000543341|GTF2H3;nc|ENSG00000111358|Q13889-2|GTF2H3 ENSG00000111358|ENST00000543341|GTF2H3 ENSG00000111358|ENST00000543341|GTF2H3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.8302612304688 2 544.828452 1087.64235 3.6754 0.0020025 -0.76142 -0.00041484 2.914 0.0015876 544.8281500769066 46.631 0.22268 46.896 46.728 46.951 0.26561 16 7 3 0 0 0 0.025135 1 21301 21301 61.602 17.195 1 943540 5125 1760 3399 3409 5665 5665 0.10203522047731894 EMKSRILVI 9 Unmodified _EMKSRILVI_ 0 0 0 ENSG00000111358|ENST00000543341|GTF2H3;nc|ENSG00000111358|Q13889-2|GTF2H3 ENSG00000111358|ENST00000543341|GTF2H3 ENSG00000111358|ENST00000543341|GTF2H3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.8304443359375 2 544.828452 1087.64235 3.8145 0.0020783 0.248 0.00013512 4.0625 0.0022134 544.8282759124452 45.973 0.30149 46.624 46.435 46.737 0.65104 16 8 3 0 0 0 0.023321 1 21047 21047 63.961 19.554 1 695390 5126 1760 3399 3409 5666 5666 0.10203522047731894 EMKSRILVI 9 Unmodified _EMKSRILVI_ 0 0 0 ENSG00000111358|ENST00000543341|GTF2H3;nc|ENSG00000111358|Q13889-2|GTF2H3 ENSG00000111358|ENST00000543341|GTF2H3 ENSG00000111358|ENST00000543341|GTF2H3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.555419921875 3 363.554727 1087.64235 2.8739 0.0010448 -0.11867 -4.3141E-05 2.7552 0.0010017 363.55470552436344 45.983 0.49578 46.634 46.36 46.856 0.65104 22 9 3 0 0 0 0.3144 1 21095 21095 10.8 2.644 1 1071400 5127 1760 3399 3409 5667 5667 0.10203522047731894 EMLFPKEI 8 Unmodified _EMLFPKEI_ 0 0 0 REV__nc|ENSG00000137941|Q6ZT98-2|TTLL7 REV__nc|ENSG00000137941|Q6ZT98-2|TTLL7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.7674865722656 2 503.767529 1005.5205 NaN NaN NaN NaN NaN NaN NaN 13.343 1 13.985 13.485 14.485 0.64272 0 0 0 0.84594 1 5992 5992 5.2307 0.47466 1 + 5128 12136 3400 3410 5668 5668 0.017964799653441332 EMLIRVNM 8 Unmodified _EMLIRVNM_ 0 0 0 nc|ENSG00000164402|Q92599-2|SEPTIN8;nc|ENSG00000164402|Q92599-4|SEPTIN8;ENSG00000164402|ENST00000378719|SEPTIN8;nc|ENSG00000164402|Q92599-3|SEPTIN8;ENST00000506047.1_1_4:77936059-77941836:+|nuORF;ENSG00000125354|ENST00000394610|SEPTIN6;nc|ENSG00000125354|Q14141-4|SEPTIN6;nc|ENSG00000125354|Q14141|SEPTIN6;nc|ENSG00000138758|Q9NVA2-2|SEPTIN11;ENSG00000138758|ENST00000264893|SEPTIN11 nc|ENSG00000164402|Q92599-2|SEPTIN8;ENSG00000125354|ENST00000394610|SEPTIN6;nc|ENSG00000138758|Q9NVA2-2|SEPTIN11 nc|ENSG00000164402|Q92599-2|SEPTIN8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.2660827636719 2 503.26463 1004.51471 3.2315 0.0016263 -0.065525 -3.2976E-05 3.166 0.0015933 503.26479021225475 59.137 0.31466 59.396 59.254 59.569 0.2593 24 14 3 0 0 0 0.056325 1 27104 27104 63.563 23.114 1 500860 5129 4311;2395;9666 3401 3411 5669 5669 0.01263058182041732 EMLIRVNM 8 Unmodified _EMLIRVNM_ 0 0 0 nc|ENSG00000164402|Q92599-2|SEPTIN8;nc|ENSG00000164402|Q92599-4|SEPTIN8;ENSG00000164402|ENST00000378719|SEPTIN8;nc|ENSG00000164402|Q92599-3|SEPTIN8;ENST00000506047.1_1_4:77936059-77941836:+|nuORF;ENSG00000125354|ENST00000394610|SEPTIN6;nc|ENSG00000125354|Q14141-4|SEPTIN6;nc|ENSG00000125354|Q14141|SEPTIN6;nc|ENSG00000138758|Q9NVA2-2|SEPTIN11;ENSG00000138758|ENST00000264893|SEPTIN11 nc|ENSG00000164402|Q92599-2|SEPTIN8;ENSG00000125354|ENST00000394610|SEPTIN6;nc|ENSG00000138758|Q9NVA2-2|SEPTIN11 nc|ENSG00000164402|Q92599-2|SEPTIN8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.26617431640625 2 503.26463 1004.51471 3.2726 0.001647 -1.1539 -0.00058071 2.1187 0.0010663 503.2641978480219 58.523 0.22939 59.19 59.092 59.321 0.66703 17 8 3 0 0 0 0.0085377 1 26800 26800 117.6 70.678 1 637100 5130 4311;2395;9666 3401 3411 5670 5670 0.01263058182041732 EMLLKEQRS 9 Unmodified _EMLLKEQRS_ 0 0 0 ENSG00000099381|ENST00000262519|SETD1A ENSG00000099381|ENST00000262519|SETD1A ENSG00000099381|ENST00000262519|SETD1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 378.5379333496094 3 378.537624 1132.59104 2.1289 0.00080589 0.65244 0.00024697 2.7814 0.0010529 378.5377501674601 55.472 0.37081 56.259 56.135 56.505 0.78711 64 31 3 0 0 0 0.64206 1 25391 25391 6.6304 1.9145 1 3809600 5131 1144 3402 3412 5671 5671 0.030051532830157157 EMLTKKSTL 9 Unmodified _EMLTKKSTL_ 0 0 0 ENSG00000183431|ENST00000373019|SF3A3;ENST00000470585.5_1_1:38445118-38455637:-|nuORF ENSG00000183431|ENST00000373019|SF3A3 ENSG00000183431|ENST00000373019|SF3A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.79736328125 2 525.796817 1049.57908 3.1563 0.0016596 -0.43548 -0.00022897 2.7208 0.0014306 525.7968453499979 19.202 0.12831 19.499 19.422 19.55 0.29753 17 13 3 0 0 0 0.0020727 1 8722 8722 103.42 69.018 1 811620 5132 5380 3403 3413 5672 5672 0.05627536539850553 EMLTKKSTL 9 Unmodified _EMLTKKSTL_ 0 0 0 ENSG00000183431|ENST00000373019|SF3A3;ENST00000470585.5_1_1:38445118-38455637:-|nuORF ENSG00000183431|ENST00000373019|SF3A3 ENSG00000183431|ENST00000373019|SF3A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.2997436523438 2 525.796817 1049.57908 3.3989 0.0017871 0.5972 0.00031401 3.9961 0.0021011 525.7972227073245 18.773 0.18961 19.433 19.328 19.518 0.66072 23 13 2 0 0 0 0.03963 1 8498 8498 51.63 27.609 1 1092400 5133 5380 3403 3413 5673 5673 0.05627536539850553 EMQQKLVEL 9 Unmodified _EMQQKLVEL_ 0 0 0 ENSG00000221869|ENST00000408965|CEBPD ENSG00000221869|ENST00000408965|CEBPD ENSG00000221869|ENST00000408965|CEBPD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.3018188476562 2 559.299724 1116.5849 3.6675 0.0020512 -0.67363 -0.00037676 2.9938 0.0016745 559.29931089556 48.398 0.25293 49.052 48.898 49.151 0.65386 22 10 3 0 0 0 0.063575 2 22127 22127;22185 41.84 14.211 1 357940 5134 6150 3404 3414 5674;5675 5674 0.03126635051512494 EMQQKLVEL 9 Unmodified _EMQQKLVEL_ 0 0 0 ENSG00000221869|ENST00000408965|CEBPD ENSG00000221869|ENST00000408965|CEBPD ENSG00000221869|ENST00000408965|CEBPD MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 559.299724 1116.5849 3.682 0.0020593 -0.7724 -0.000432 2.9096 0.0016273 559.2985484988376 48.854 0.20915 49.116 49.038 49.247 0.26209 0.03205 -0.00010386 NaN 41.84 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 379010 5135 6150 3404 3414 0.03126635051512494 EMRRRWRRRRF 11 Unmodified _EMRRRWRRRRF_ 0 0 0 REV__nc|ENSG00000135636|O75923-15|DYSF REV__nc|ENSG00000135636|O75923-15|DYSF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.988525390625 3 568.990325 1703.94915 NaN NaN NaN NaN NaN NaN NaN 101.57 1 102.17 101.67 102.67 0.59717 0 0 0 1.0082 1 47028 47028 0.094841 0.094841 1 + 5136 12030 3405 3415 5676 5676 0.125329847730427 EMVKKLYSL 9 Unmodified _EMVKKLYSL_ 0 0 0 ENSG00000122970|ENST00000242591|IFT81 ENSG00000122970|ENST00000242591|IFT81 ENSG00000122970|ENST00000242591|IFT81 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.8154296875 2 555.81501 1109.61547 NaN NaN NaN NaN NaN NaN NaN 40.596 1 40.865 40.365 41.365 0.26904 0 0 0 0.55812 1 18469 18469 17.113 3.605 1 5137 2289 3406 3416 5677 5677 0.06504413436550749 EMYEEMMH 8 Unmodified _EMYEEMMH_ 0 0 0 PCLO|p.L2497Hfs*9|1|0.05|ENSG00000186472|chr7:82953465-82953466|-/ATGA|frameshift_variant;PCLO|p.G2496Afs*27|1|0.04|ENSG00000186472|chr7:82953466-82953467|-/CTTAAATTTAGTGACTTCAG|frameshift_variant;nc|ENSG00000186472|Q9Y6V0-6|PCLO;ENSG00000186472|ENST00000333891|PCLO;PCLO|p.T2117Ifs*6|1|0.15|ENSG00000186472|chr7:82954578-82954603|GAGTGTTGCACTGCTGGTCGAATCTG/-|frameshift_variant PCLO|p.L2497Hfs*9|1|0.05|ENSG00000186472|chr7:82953465-82953466|-/ATGA|frameshift_variant PCLO|p.L2497Hfs*9|1|0.05|ENSG00000186472|chr7:82953465-82953466|-/ATGA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.1975708007812 2 550.198296 1098.38204 NaN NaN NaN NaN NaN NaN NaN 82.876 1 82.921 82.421 83.421 0.045006 0 0 0 0.99035 1 40988 40988 2.5775 0.51773 1 5138 5572 3407 3417 5678 5678 -0.16321754336922822 ENCGKKTR 8 Unmodified _ENCGKKTR_ 0 0 0 nc|ENSG00000184979|Q9UMW8-2|USP18;ENSG00000184979|ENST00000215794|USP18 nc|ENSG00000184979|Q9UMW8-2|USP18 nc|ENSG00000184979|Q9UMW8-2|USP18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.2427673339844 2 468.240001 934.465449 3.6402 0.0017045 0.095975 4.494E-05 3.7361 0.0017494 468.24013281498526 97.159 0.27568 97.436 97.239 97.515 0.27778 18 14 2 0 0 0 0.7441 1 44634 44634 2.3027 0 1 256470 5139 5472 3408 3418 5679 5679 -0.004405137825415295 ENEKQWQL 8 Unmodified _ENEKQWQL_ 0 0 0 REV__ENST00000438961.1_1_7:766900-790557:+|nuORF REV__ENST00000438961.1_1_7:766900-790557:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.2811889648438 2 537.764363 1073.51417 3.1319 0.0016842 -0.16533 -8.8906E-05 2.9666 0.0015953 537.7639212347179 46.169 0.35811 46.435 46.345 46.703 0.26561 23 15 2 0 0 0 0.13978 1 21080 21080 7.9102 0 1 553820 + 5140 13115 3409 3419 5680 5680 -0.019643219418185254 ENERYRKEME 10 Unmodified _ENERYRKEME_ 0 0 0 nc|ENSG00000006611|Q9Y6N9-3|USH1C;nc|ENSG00000006611|Q9Y6N9-2|USH1C;nc|ENSG00000006611|Q9Y6N9-4|USH1C;nc|ENSG00000006611|Q9Y6N9|USH1C;ENSG00000006611|ENST00000005226|USH1C nc|ENSG00000006611|Q9Y6N9-3|USH1C nc|ENSG00000006611|Q9Y6N9-3|USH1C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 692.3184204101562 2 692.319708 1382.62486 NaN NaN NaN NaN NaN NaN NaN 77.053 1 77.716 77.216 78.216 0.66303 0 0 0 1.0003 1 35506 35506 1.4819 0.15237 1 5141 354 3410 3420 5681 5681 -0.05114470015905681 ENGVFKYRPR 10 Unmodified _ENGVFKYRPR_ 0 0 0 ENSG00000029559|ENST00000226284|IBSP ENSG00000029559|ENST00000226284|IBSP ENSG00000029559|ENST00000226284|IBSP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.564453125 3 422.563161 1264.66765 2.916 0.0012322 0.25784 0.00010895 3.1738 0.0013411 422.5632783289532 20.257 0.30936 20.257 20.138 20.448 0 43 28 2 0 0 0 0.90196 1 9033 9033 3.5871 0 1 305330 5142 491 3411 3421 5682 5682 0.045907128945145814 ENIDDCTEM 9 Unmodified _ENIDDCTEM_ 0 0 0 REV__ENST00000598500.1_1_19:14883058-14887568:-|nuORF REV__ENST00000598500.1_1_19:14883058-14887568:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 357.13372802734375 3 357.131935 1068.37398 NaN NaN NaN NaN NaN NaN NaN 66.643 1 67.348 66.848 67.848 0.7047 0 0 0 0.90777 1 31607 31607 0.86438 0 1 + 5143 9928 3412 3422 5683 5683 -0.1574761005272194 ENIDDCTEM 9 Unmodified _ENIDDCTEM_ 0 0 0 REV__ENST00000598500.1_1_19:14883058-14887568:-|nuORF REV__ENST00000598500.1_1_19:14883058-14887568:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 357.1341247558594 3 357.131935 1068.37398 NaN NaN NaN NaN NaN NaN NaN 67.53 1 68.232 67.732 68.732 0.70218 0 0 0 0.90777 1 32122 32122 0.86438 0 1 + 5144 9928 3412 3422 5684 5684 -0.1574761005272194 ENKIKVVAL 9 Unmodified _ENKIKVVAL_ 0 0 0 ENST00000532267.1_1_11:43351536-43357422:+|nuORF;nc|ENSG00000166181|Q9BZZ5-3|API5;nc|ENSG00000166181|Q9BZZ5-5|API5;nc|ENSG00000166181|Q9BZZ5-2|API5;nc|ENSG00000166181|Q9BZZ5-1|API5;nc|ENSG00000166181|Q9BZZ5-6|API5;ENSG00000166181|ENST00000531273|API5 ENST00000532267.1_1_11:43351536-43357422:+|nuORF ENST00000532267.1_1_11:43351536-43357422:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.3233337402344 2 507.321317 1012.62808 3.3614 0.0017053 0.04677 2.3727E-05 3.4082 0.001729 507.3212367095468 37.587 0.31511 37.847 37.696 38.011 0.26083 18 9 3 0 0 0 0.001383 2 17111 17111;17173 114.2 58.699 1 1083100 5145 4458 3413 3423 5685;5686 5685 0.1222719289107772 ENKIKVVAL 9 Unmodified _ENKIKVVAL_ 0 0 0 ENST00000532267.1_1_11:43351536-43357422:+|nuORF;nc|ENSG00000166181|Q9BZZ5-3|API5;nc|ENSG00000166181|Q9BZZ5-5|API5;nc|ENSG00000166181|Q9BZZ5-2|API5;nc|ENSG00000166181|Q9BZZ5-1|API5;nc|ENSG00000166181|Q9BZZ5-6|API5;ENSG00000166181|ENST00000531273|API5 ENST00000532267.1_1_11:43351536-43357422:+|nuORF ENST00000532267.1_1_11:43351536-43357422:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.3238525390625 2 507.321317 1012.62808 3.3217 0.0016852 0.26263 0.00013324 3.5843 0.0018184 507.32134653879564 36.932 0.31108 37.562 37.416 37.728 0.62999 27 11 3 0 0 0 0.004576 1 16895 16895 92.653 41.024 1 737160 5146 4458 3413 3423 5687 5687 0.1222719289107772 ENKIKVVAL 9 Unmodified _ENKIKVVAL_ 0 0 0 ENST00000532267.1_1_11:43351536-43357422:+|nuORF;nc|ENSG00000166181|Q9BZZ5-3|API5;nc|ENSG00000166181|Q9BZZ5-5|API5;nc|ENSG00000166181|Q9BZZ5-2|API5;nc|ENSG00000166181|Q9BZZ5-1|API5;nc|ENSG00000166181|Q9BZZ5-6|API5;ENSG00000166181|ENST00000531273|API5 ENST00000532267.1_1_11:43351536-43357422:+|nuORF ENST00000532267.1_1_11:43351536-43357422:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 507.321317 1012.62808 3.1479 0.001597 1.189 0.00060321 4.3369 0.0022002 507.3218252138486 37.883 0.203 37.883 37.784 37.987 0 0.11896 0.00084276 NaN 114.2 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 335630 5147 4458 3413 3423 0.1222719289107772 ENKIRSTL 8 Unmodified _ENKIRSTL_ 0 0 0 ENSG00000077549|ENST00000264202|CAPZB;nc|ENSG00000077549|P47756-1|CAPZB ENSG00000077549|ENST00000264202|CAPZB ENSG00000077549|ENST00000264202|CAPZB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.7784729003906 2 480.777274 959.539994 3.1402 0.0015098 -0.15745 -7.5699E-05 2.9828 0.0014341 480.77711781343686 15.886 0.8739 15.886 15.438 16.312 0 261 108 3 0 0 0 0.52777 6 7046 6916;6961;7003;7046;7088;7130 19.257 19.257 1 333280 5148 867 3414 3424 5688;5689;5690;5691;5692;5693 5691 0.058605723004689025 ENKIRSTL 8 Unmodified _ENKIRSTL_ 0 0 0 ENSG00000077549|ENST00000264202|CAPZB;nc|ENSG00000077549|P47756-1|CAPZB ENSG00000077549|ENST00000264202|CAPZB ENSG00000077549|ENST00000264202|CAPZB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.77862548828125 2 480.777274 959.539994 3.0663 0.0014742 -0.1522 -7.3176E-05 2.9141 0.001401 480.7771528080765 14.831 0.30587 15.057 14.91 15.215 0.22622 58 24 3 0 0 0 0.0096139 2 6537 6491;6537 103.35 38.118 1 1252100 5149 867 3414 3424 5694;5695 5695 0.058605723004689025 ENKIRSTL 8 Unmodified _ENKIRSTL_ 0 0 0 ENSG00000077549|ENST00000264202|CAPZB;nc|ENSG00000077549|P47756-1|CAPZB ENSG00000077549|ENST00000264202|CAPZB ENSG00000077549|ENST00000264202|CAPZB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.7790222167969 2 480.777274 959.539994 2.8296 0.0013604 -0.16015 -7.6997E-05 2.6694 0.0012834 480.77726418340256 14.365 0.15874 14.671 14.593 14.752 0.3069 11 6 2 0 0 0 7.8809E-13 1 6504 6504 176.84 57.943 1 3432500 5150 867 3414 3424 5696 5696 0.058605723004689025 ENKIRSTL 8 Unmodified _ENKIRSTL_ 0 0 0 ENSG00000077549|ENST00000264202|CAPZB;nc|ENSG00000077549|P47756-1|CAPZB ENSG00000077549|ENST00000264202|CAPZB ENSG00000077549|ENST00000264202|CAPZB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.7784729003906 2 480.777274 959.539994 3.2236 0.0015499 0.033797 1.6249E-05 3.2574 0.0015661 480.777228024163 14.3 0.14504 14.949 14.89 15.035 0.6482 37 15 3 0 0 0 2.0555E-07 1 6426 6426 160.52 56.768 1 5845600 5151 867 3414 3424 5697 5697 0.058605723004689025 ENKMWRRYRKW 11 Unmodified _ENKMWRRYRKW_ 0 0 0 REV__nc|ENSG00000059769|Q9H1X3-2|DNAJC25 REV__nc|ENSG00000059769|Q9H1X3-2|DNAJC25 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 826.9324340820312 2 826.933168 1651.85178 NaN NaN NaN NaN NaN NaN NaN 79.344 1 79.344 78.844 79.844 0 0 0 0 1.008 1 39192 39192 0.35063 0 1 + 5152 10390 3415 3425 5698 5698 0.051931580535438115 ENNNFSMERFM 11 Unmodified _ENNNFSMERFM_ 0 0 0 ENST00000474505.5_1_3:150264589-150282188:+|nuORF ENST00000474505.5_1_3:150264589-150282188:+|nuORF ENST00000474505.5_1_3:150264589-150282188:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.5327453613281 3 473.532433 1417.57547 NaN NaN NaN NaN NaN NaN NaN 57.472 1 58.24 57.74 58.74 0.76861 0 0 0 1.0073 1 26319 26319 0.40827 0 1 5153 8211 3416 3426 5699 5699 -0.11661501296362076 ENPPKRAPL 9 Unmodified _ENPPKRAPL_ 0 0 0 REV__nc|ENSG00000141655|Q9Y6Q6-4|TNFRSF11A REV__nc|ENSG00000141655|Q9Y6Q6-4|TNFRSF11A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 341.1985778808594 3 341.197819 1020.57163 2.5225 0.00086068 -0.75897 -0.00025896 1.7636 0.00060172 341.19768177927654 12.689 0.17237 12.689 12.66 12.833 0 11 9 2 0 0 0 0.24465 1 5543 5543 19.362 4.9566 1 823710 + 5154 12304 3417 3427 5700 5700 0.06216565054421608 ENRKASVI 8 Unmodified _ENRKASVI_ 0 0 0 chr2:69789926-69790680|323|10.1|0.0|19.95|-|2|TE_info:LTR25-int,LTR25-int_dup24,ERV1,LTR,donor,-,69790680,69792971|SMANTIS,None|51 chr2:69789926-69790680|323|10.1|0.0|19.95|-|2|TE_info:LTR25-int,LTR25-int_dup24,ERV1,LTR,donor,-,69790680,69792971|SMANTIS,None|51 chr2:69789926-69790680|323|10.1|0.0|19.95|-|2|TE_info:LTR25-int,LTR25-int_dup24,ERV1,LTR,donor,-,69790680,69792971|SMANTIS,None|51 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 306.17913818359375 3 306.178536 915.513779 1.5179 0.00046475 0.56264 0.00017227 2.0805 0.00063701 306.1787362351496 12.698 0.12178 13.005 12.936 13.058 0.30727 8 3 3 0 0 0 0.5438 1 5742 5742 13.906 0 1 1058100 5155 165 3418 3428 5701 5701 0.052643031289903774 ENRKASVI 8 Unmodified _ENRKASVI_ 0 0 0 chr2:69789926-69790680|323|10.1|0.0|19.95|-|2|TE_info:LTR25-int,LTR25-int_dup24,ERV1,LTR,donor,-,69790680,69792971|SMANTIS,None|51 chr2:69789926-69790680|323|10.1|0.0|19.95|-|2|TE_info:LTR25-int,LTR25-int_dup24,ERV1,LTR,donor,-,69790680,69792971|SMANTIS,None|51 chr2:69789926-69790680|323|10.1|0.0|19.95|-|2|TE_info:LTR25-int,LTR25-int_dup24,ERV1,LTR,donor,-,69790680,69792971|SMANTIS,None|51 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 306.178536 915.513779 2.0306 0.00062174 0.57623 0.00017643 2.6069 0.00079816 306.1786695651195 13.046 0.13806 13.046 12.965 13.103 0 0.030704 4.8732E-05 NaN 13.906 15 7 3 NaN NaN NaN NaN 0 NaN NaN 0 384260 5156 165 3418 3428 0.052643031289903774 ENRKASVI 8 Unmodified _ENRKASVI_ 0 0 0 chr2:69789926-69790680|323|10.1|0.0|19.95|-|2|TE_info:LTR25-int,LTR25-int_dup24,ERV1,LTR,donor,-,69790680,69792971|SMANTIS,None|51 chr2:69789926-69790680|323|10.1|0.0|19.95|-|2|TE_info:LTR25-int,LTR25-int_dup24,ERV1,LTR,donor,-,69790680,69792971|SMANTIS,None|51 chr2:69789926-69790680|323|10.1|0.0|19.95|-|2|TE_info:LTR25-int,LTR25-int_dup24,ERV1,LTR,donor,-,69790680,69792971|SMANTIS,None|51 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 306.178536 915.513779 1.8255 0.00055892 0.30093 9.2139E-05 2.1264 0.00065106 306.17861828158834 12.734 0.088026 12.995 12.948 13.036 0.26154 -0.020461 -0.00020414 NaN 13.906 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 760630 5157 165 3418 3428 0.052643031289903774 ENSLDWEDWQY 11 Unmodified _ENSLDWEDWQY_ 0 0 0 ENSG00000042781|ENST00000307340|USH2A;nc|ENSG00000042781|O75445-3|USH2A;USH2A|p.T2648Yfs*13|1|0.13|ENSG00000042781|chr1:215888708-215888709|-/G|frameshift_variant;USH2A|p.D2872Rfs*17|1|0.23|ENSG00000042781|chr1:215877825-215877826|-/T|frameshift_variant;USH2A|p.T445Lfs*13|1|0.04|ENSG00000042781|chr1:216323691-216323691|T/-|frameshift_variant;nc|ENSG00000042781|O75445-2|USH2A;USH2A|p.F2200Gfs*16|1|0.03|ENSG00000042781|chr1:215998947-215998948|-/CTCTCTTCCC|frameshift_variant ENSG00000042781|ENST00000307340|USH2A ENSG00000042781|ENST00000307340|USH2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 742.8388671875 2 742.801871 1483.58919 NaN NaN NaN NaN NaN NaN NaN 99.548 1 99.61 99.11 100.11 0.062241 0 0 0 1.0073 1 53834 53834 1.1933 0 1 5158 544 3419 3429 5702 5702 -0.1332622899190028 ENTLYWYFHCW 11 Unmodified _ENTLYWYFHCW_ 0 0 0 REV__nc|ENSG00000178209|Q15149|PLEC REV__nc|ENSG00000178209|Q15149|PLEC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 781.5568237304688 2 781.332087 1560.64962 NaN NaN NaN NaN NaN NaN NaN 107.04 1 107.04 106.54 107.54 0 0 0 0 1.0059 1 58736 58736 2.9952 1.8019 1 + 5159 18058 3420 3430 5703 5703 -0.10827790142502636 ENTPLVPSG 9 Unmodified _ENTPLVPSG_ 0 0 0 nc|ENSG00000204469|P48634-2|PRRC2A;nc|ENSG00000204469|P48634-3|PRRC2A;ENSG00000204469|ENST00000376033|PRRC2A;nc|ENSG00000204469|P48634-4|PRRC2A nc|ENSG00000204469|P48634-2|PRRC2A nc|ENSG00000204469|P48634-2|PRRC2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 913.4642944335938 1 913.462538 912.455261 4.0119 0.0036647 -1.6607 -0.001517 2.3511 0.0021477 913.4608321643581 30.131 0.21278 30.131 30.04 30.253 0 19 13 2 0 0 0 0.20384 1 13618 13618 23.148 1.4018 1 745940 5160 6011 3421 3431 5704 5704 -0.004467982361234135 ENTPLVPSG 9 Unmodified _ENTPLVPSG_ 0 0 0 nc|ENSG00000204469|P48634-2|PRRC2A;nc|ENSG00000204469|P48634-3|PRRC2A;ENSG00000204469|ENST00000376033|PRRC2A;nc|ENSG00000204469|P48634-4|PRRC2A nc|ENSG00000204469|P48634-2|PRRC2A nc|ENSG00000204469|P48634-2|PRRC2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 914.462158203125 1 913.462538 912.455261 3.6944 0.0033747 -2.5583 -0.0023369 1.1361 0.0010378 913.4609032238546 29.334 0.14892 30.123 30.024 30.173 0.78921 12 9 2 0 0 0 0.29781 1 13205 13205 16.942 6.8684 1 512620 5161 6011 3421 3431 5705 5705 -0.004467982361234135 ENTPLVPSG 9 Unmodified _ENTPLVPSG_ 0 0 0 nc|ENSG00000204469|P48634-2|PRRC2A;nc|ENSG00000204469|P48634-3|PRRC2A;ENSG00000204469|ENST00000376033|PRRC2A;nc|ENSG00000204469|P48634-4|PRRC2A nc|ENSG00000204469|P48634-2|PRRC2A nc|ENSG00000204469|P48634-2|PRRC2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 913.4645385742188 1 913.462538 912.455261 3.8914 0.0035547 -0.58771 -0.00053685 3.3037 0.0030178 913.4615963858705 29.38 0.24924 29.998 29.884 30.134 0.61789 22 16 2 0 0 0 0.29781 1 13474 13474 16.942 4.4107 1 216110 5162 6011 3421 3431 5706 5706 -0.004467982361234135 ENTYLKAQE 9 Unmodified _ENTYLKAQE_ 0 0 0 ATM|p.A1123T|1|0.12|ENSG00000149311|chr11:108279573-108279573|G/A|missense_variant ATM|p.A1123T|1|0.12|ENSG00000149311|chr11:108279573-108279573|G/A|missense_variant ATM|p.A1123T|1|0.12|ENSG00000149311|chr11:108279573-108279573|G/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1095.53564453125 1 1095.53168 1094.5244 3.1564 0.0034579 0.15681 0.00017179 3.3132 0.0036297 1095.5321895311606 48.164 0.22364 48.164 48.025 48.248 0 15 8 2 0 0 0 0.10169 1 22037 22037 32.305 3.2239 1 474210 5163 75 3422 3432 5707 5707 -0.019077590072583916 ENTYLKAQE 9 Unmodified _ENTYLKAQE_ 0 0 0 ATM|p.A1123T|1|0.12|ENSG00000149311|chr11:108279573-108279573|G/A|missense_variant ATM|p.A1123T|1|0.12|ENSG00000149311|chr11:108279573-108279573|G/A|missense_variant ATM|p.A1123T|1|0.12|ENSG00000149311|chr11:108279573-108279573|G/A|missense_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 1095.53168 1094.5244 3.3629 0.0036842 -0.6823 -0.00074748 2.6806 0.0029367 1095.5299042528122 48.139 0.24139 48.401 48.263 48.505 0.26209 0.11851 -0.00065579 NaN 32.305 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 474290 5164 75 3422 3432 -0.019077590072583916 EPAAPEVLL 9 Unmodified _EPAAPEVLL_ 0 0 0 ENSG00000257093|ENST00000536163|DENND11 ENSG00000257093|ENST00000536163|DENND11 ENSG00000257093|ENST00000536163|DENND11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 469.7632141113281 2 469.7633 937.512048 2.7342 0.0012844 -0.037275 -1.751E-05 2.697 0.0012669 469.76316496923414 62.313 0.35656 62.973 62.842 63.198 0.66008 36 24 2 0 0 0 0.36069 1 28595 28595 14.838 4.0143 1 686030 5165 6294 3423 3433 5708 5708 0.0407924932038668 EPAQWQAEL 9 Unmodified _EPAQWQAEL_ 0 0 0 REV__ENSG00000188771|ENST00000338832|PLET1 REV__ENSG00000188771|ENST00000338832|PLET1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 357.8425598144531 3 357.841701 1070.50327 2.0131 0.00072037 0.080131 2.8674E-05 2.0932 0.00074905 357.84174260542636 12.972 0.15791 13.215 13.149 13.307 0.24346 31 13 3 0 0 0 0.3144 1 5652 5652 10.8 2.3552 1 1337800 + 5166 14158 3424 3434 5709 5709 -0.02915724316108026 EPARRRRLYWG 11 Unmodified _EPARRRRLYWG_ 0 0 0 ENSG00000176022|ENST00000379198|B3GALT6 ENSG00000176022|ENST00000379198|B3GALT6 ENSG00000176022|ENST00000379198|B3GALT6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 730.6502685546875 2 730.405101 1458.79565 NaN NaN NaN NaN NaN NaN NaN 89.811 1 89.811 89.311 90.311 0 0 0 0 1.0072 1 47016 47016 1.3295 0 1 5167 5060 3425 3435 5710 5710 0.08460273208402214 EPASPEQEL 9 Unmodified _EPASPEQEL_ 0 0 0 ENSG00000148773|ENST00000368654|MKI67;MKI67|p.M746Wfs*10|1|0.24|ENSG00000148773|chr10:128111669-128111669|T/-|frameshift_variant ENSG00000148773|ENST00000368654|MKI67 ENSG00000148773|ENST00000368654|MKI67 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.73809814453125 2 500.235104 998.455655 3.2904 0.001646 0.2552 0.00012766 3.5456 0.0017736 500.23520773187096 36.746 0.41331 37.004 36.868 37.281 0.25768 21 13 2 0 0 0 0.14729 2 16735 16735;16817 26.884 11.036 1 338990 5168 3615 3426 3436 5711;5712 5711 -0.043634233069496986 EPASPEQEL 9 Unmodified _EPASPEQEL_ 0 0 0 ENSG00000148773|ENST00000368654|MKI67;MKI67|p.M746Wfs*10|1|0.24|ENSG00000148773|chr10:128111669-128111669|T/-|frameshift_variant ENSG00000148773|ENST00000368654|MKI67 ENSG00000148773|ENST00000368654|MKI67 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.2369689941406 2 500.235104 998.455655 NaN NaN NaN NaN NaN NaN NaN 38.249 1 38.513 38.013 39.013 0.26408 0 0 0 0.10934 1 17416 17416 39.957 13.074 1 5169 3615 3426 3436 5713 5713 -0.043634233069496986 EPASPEQEL 9 Unmodified _EPASPEQEL_ 0 0 0 ENSG00000148773|ENST00000368654|MKI67;MKI67|p.M746Wfs*10|1|0.24|ENSG00000148773|chr10:128111669-128111669|T/-|frameshift_variant ENSG00000148773|ENST00000368654|MKI67 ENSG00000148773|ENST00000368654|MKI67 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.2364501953125 2 500.235104 998.455655 NaN NaN NaN NaN NaN NaN NaN 36.23 1 36.857 36.357 37.357 0.62631 0 0 0 0.21088 1 16591 16591 30.637 12.502 1 5170 3615 3426 3436 5714 5714 -0.043634233069496986 EPASPEQEL 9 Unmodified _EPASPEQEL_ 0 0 0 ENSG00000148773|ENST00000368654|MKI67;MKI67|p.M746Wfs*10|1|0.24|ENSG00000148773|chr10:128111669-128111669|T/-|frameshift_variant ENSG00000148773|ENST00000368654|MKI67 ENSG00000148773|ENST00000368654|MKI67 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 500.235104 998.455655 3.0586 0.00153 0.44255 0.00022138 3.5011 0.0017514 500.23500046685297 36.896 0.38885 36.896 36.691 37.08 0 -0.053972 0.00011907 NaN 26.884 22 16 2 NaN NaN NaN NaN 0 NaN NaN 0 196520 5171 3615 3426 3436 -0.043634233069496986 EPATHNAL 8 Unmodified _EPATHNAL_ 0 0 0 nc|ENSG00000070371|P53675-2|CLTCL1;ENSG00000070371|ENST00000427926|CLTCL1;nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC;CLTC|p.N1492Kfs*34|1|0.12|ENSG00000141367|chr17:59685097-59685097|T/-|frameshift_variant nc|ENSG00000070371|P53675-2|CLTCL1;nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 426.7151794433594 2 426.714142 851.413731 2.8583 0.0012197 -0.11737 -5.0082E-05 2.741 0.0011696 426.7140553099587 14.539 0.34893 14.539 14.406 14.755 0 54 36 2 0 0 0 0.37185 1 6398 6398 30.225 16.717 1 228790 5172 3246;763 3427 3437 5715 5715 -0.01791934204811696 EPATHNAL 8 Unmodified _EPATHNAL_ 0 0 0 nc|ENSG00000070371|P53675-2|CLTCL1;ENSG00000070371|ENST00000427926|CLTCL1;nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC;CLTC|p.N1492Kfs*34|1|0.12|ENSG00000141367|chr17:59685097-59685097|T/-|frameshift_variant nc|ENSG00000070371|P53675-2|CLTCL1;nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 426.7149353027344 2 426.714142 851.413731 2.7273 0.0011638 0.0034907 1.4895E-06 2.7308 0.0011653 426.7140695335615 14.239 0.23485 14.465 14.376 14.611 0.22622 32 18 2 0 0 0 0.47217 1 6250 6250 23.148 9.6405 1 334330 5173 3246;763 3427 3437 5716 5716 -0.01791934204811696 EPCCQQDECAQ 11 Unmodified _EPCCQQDECAQ_ 0 0 0 REV__ENST00000485991.5_1_X:47485455-47487711:-|nuORF REV__ENST00000485991.5_1_X:47485455-47487711:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 627.2169189453125 2 627.215205 1252.41586 NaN NaN NaN NaN NaN NaN NaN 94.686 1 94.946 94.446 95.446 0.25975 0 0 0 1.0072 1 43509 43509 1.3295 0.92882 1 + 5174 11718 3428 3438 5717 5717 -0.200253776358295 EPCCQQDECAQ 11 Unmodified _EPCCQQDECAQ_ 0 0 0 REV__ENST00000485991.5_1_X:47485455-47487711:-|nuORF REV__ENST00000485991.5_1_X:47485455-47487711:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 627.4780883789062 2 627.215205 1252.41586 NaN NaN NaN NaN NaN NaN NaN 101.56 1 101.88 101.38 102.38 0.31737 0 0 0 1.0072 1 46992 46992 1.3295 0.72803 1 + 5175 11718 3428 3438 5718 5718 -0.200253776358295 EPCETDMWDT 10 Unmodified _EPCETDMWDT_ 0 0 0 REV__NOTCH3|p.E1812Rfs*13|1|0.35|ENSG00000074181|chr19:15166020-15166020|C/-|frameshift_variant REV__NOTCH3|p.E1812Rfs*13|1|0.35|ENSG00000074181|chr19:15166020-15166020|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.7195434570312 2 613.720646 1225.42674 NaN NaN NaN NaN NaN NaN NaN 86.829 1 86.859 86.359 87.359 0.030289 0 0 0 0.99774 1 43793 43793 3.5965 0.31518 1 + 5176 10513 3429 3439 5719 5719 -0.17695651989902217 EPCFDPCY 8 Unmodified _EPCFDPCY_ 0 0 0 ENSG00000121871|ENST00000475390|SLITRK3 ENSG00000121871|ENST00000475390|SLITRK3 ENSG00000121871|ENST00000475390|SLITRK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.1752014160156 2 487.175146 972.33574 NaN NaN NaN NaN NaN NaN NaN 27.553 1 27.553 27.053 28.053 0 0 0 0 0.99035 1 12410 12410 0.79363 0 1 5177 2246 3430 3440 5720 5720 -0.15153451176729504 EPCFEECTCD 10 Unmodified _EPCFEECTCD_ 0 0 0 REV__ENST00000567982.5_1_16:57496627-57503684:+|nuORF REV__ENST00000567982.5_1_16:57496627-57503684:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.7592163085938 2 588.188125 1174.3617 NaN NaN NaN NaN NaN NaN NaN 83.31 1 83.355 82.855 83.855 0.045006 0 0 0 1.0001 1 41317 41317 1.6526 1.1943 1 + 5178 10953 3431 3441 5721 5721 -0.21850969787396934 EPCFRYLHSFW 11 Unmodified _EPCFRYLHSFW_ 0 0 0 ENST00000551775.5_1_12:57106933-57108201:-|nuORF ENST00000551775.5_1_12:57106933-57108201:-|nuORF ENST00000551775.5_1_12:57106933-57108201:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 742.8447265625 2 742.842622 1483.67069 3.918 0.0029105 0.35259 0.00026192 4.2706 0.0031724 742.843578725917 49.195 0.37272 49.457 49.298 49.671 0.26146 18 13 2 0 0 0 0.72546 1 22496 22496 10.151 2.5416 1 755300 5179 8885 3432 3442 5722 5722 -0.05179780042999482 EPCFRYLHSFW 11 Unmodified _EPCFRYLHSFW_ 0 0 0 ENST00000551775.5_1_12:57106933-57108201:-|nuORF ENST00000551775.5_1_12:57106933-57108201:-|nuORF ENST00000551775.5_1_12:57106933-57108201:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 743.3468627929688 2 742.842622 1483.67069 4.0838 0.0030336 -0.94053 -0.00069867 3.1433 0.002335 742.8415988173299 48.781 0.21713 49.436 49.281 49.498 0.65524 11 7 2 0 0 0 0.80504 1 22309 22309 6.6304 1.3335 1 575070 5180 8885 3432 3442 5723 5723 -0.05179780042999482 EPCFRYLHSFW 11 Unmodified _EPCFRYLHSFW_ 0 0 0 ENST00000551775.5_1_12:57106933-57108201:-|nuORF ENST00000551775.5_1_12:57106933-57108201:-|nuORF ENST00000551775.5_1_12:57106933-57108201:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 742.842622 1483.67069 3.6501 0.0027115 -0.31303 -0.00023253 3.3371 0.0024789 742.8426185125685 48.327 0.27876 49.154 49.001 49.28 0.82705 -0.19472 0.00027927 NaN 10.151 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 1018700 5181 8885 3432 3442 -0.05179780042999482 EPCPTIWSK 9 Unmodified _EPCPTIWSK_ 0 0 0 REV__ENSG00000112293|ENST00000230036|GPLD1 REV__ENSG00000112293|ENST00000230036|GPLD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.6446533203125 2 530.760235 1059.50592 NaN NaN NaN NaN NaN NaN NaN 90.294 1 90.294 89.794 90.794 0 0 0 0 0.70806 1 47411 47411 12.241 3.4953 1 + 5182 11269 3433 3443 5724 5724 -0.02145592182796463 EPCPTIWSK 9 Unmodified _EPCPTIWSK_ 0 0 0 REV__ENSG00000112293|ENST00000230036|GPLD1 REV__ENSG00000112293|ENST00000230036|GPLD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.7184448242188 2 530.760235 1059.50592 NaN NaN NaN NaN NaN NaN NaN 89.904 1 89.969 89.469 90.469 0.064346 0 0 0 0.796 1 46188 46188 9.3831 2.0939 1 + 5183 11269 3433 3443 5725 5725 -0.02145592182796463 EPCQRCVVYPQ 11 Unmodified _EPCQRCVVYPQ_ 0 0 0 REV__nc|ENSG00000072609|Q96EP1-5|CHFR REV__nc|ENSG00000072609|Q96EP1-5|CHFR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 661.3026733398438 2 661.305015 1320.59548 NaN NaN NaN NaN NaN NaN NaN 102.33 1 102.33 101.83 102.83 0 0 0 0 1.0059 1 56500 56500 2.9952 1.3426 1 + 5184 10493 3434 3444 5726 5726 -0.05199705565723889 EPCSSTSRPAL 11 Unmodified _EPCSSTSRPAL_ 0 0 0 nc|ENSG00000276043|Q96T88-2|UHRF1;ENSG00000276043|ENST00000650932|UHRF1 nc|ENSG00000276043|Q96T88-2|UHRF1 nc|ENSG00000276043|Q96T88-2|UHRF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.3629760742188 2 574.274238 1146.53392 NaN NaN NaN NaN NaN NaN NaN 101.9 1 102.22 101.72 102.72 0.31737 0 0 0 1.0041 1 47145 47145 5.2969 0 1 5185 6349 3435 3445 5727 5727 -0.033483139933423445 EPDAVHVVL 9 Unmodified _EPDAVHVVL_ 0 0 0 ENST00000533960.1_1_11:770991-771360:-|nuORF;ENST00000530209.5_1_11:770899-772585:-|nuORF;ENST00000534603.5_1_11:770899-773566:-|nuORF;nc|ENSG00000177225|Q8NB37-3|GATD1;ENSG00000177225|ENST00000319863|GATD1 ENST00000533960.1_1_11:770991-771360:-|nuORF ENST00000533960.1_1_11:770991-771360:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.7675476074219 2 489.766374 977.518196 3.1304 0.0015332 -0.25948 -0.00012708 2.871 0.0014061 489.76620650556674 52.694 0.67993 52.694 52.432 53.112 0 175 50 5 0 0 0 0.0022375 5 24096 24051;24096;24137;24184;24231 101.72 45.181 1 22575000 5186 5109 3436 3446 5728;5729;5730;5731;5732 5729 0.028537675519032746 EPDAVHVVL 9 Unmodified _EPDAVHVVL_ 0 0 0 ENST00000533960.1_1_11:770991-771360:-|nuORF;ENST00000530209.5_1_11:770899-772585:-|nuORF;ENST00000534603.5_1_11:770899-773566:-|nuORF;nc|ENSG00000177225|Q8NB37-3|GATD1;ENSG00000177225|ENST00000319863|GATD1 ENST00000533960.1_1_11:770991-771360:-|nuORF ENST00000533960.1_1_11:770991-771360:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 489.7677917480469 2 489.766374 977.518196 2.6596 0.0013026 0.39686 0.00019437 3.0565 0.001497 489.7665750194962 51.696 0.71119 52.507 52.276 52.987 0.81065 148 44 5 0 0 0 0.0061269 5 23541 23492;23541;23589;23636;23692 89.427 45.02 1 21546000 5187 5109 3436 3446 5733;5734;5735;5736;5737 5734 0.028537675519032746 EPDAVHVVL 9 Unmodified _EPDAVHVVL_ 0 0 0 ENST00000533960.1_1_11:770991-771360:-|nuORF;ENST00000530209.5_1_11:770899-772585:-|nuORF;ENST00000534603.5_1_11:770899-773566:-|nuORF;nc|ENSG00000177225|Q8NB37-3|GATD1;ENSG00000177225|ENST00000319863|GATD1 ENST00000533960.1_1_11:770991-771360:-|nuORF ENST00000533960.1_1_11:770991-771360:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.7679138183594 2 489.766374 977.518196 3.15 0.0015428 0.19061 9.3354E-05 3.3406 0.0016361 489.76644032745475 52.397 0.53278 52.66 52.442 52.974 0.26345 67 25 3 0 0 0 0.00147 3 23946 23900;23946;24004 109.63 49.24 1 10941000 5188 5109 3436 3446 5738;5739;5740 5739 0.028537675519032746 EPDAVHVVL 9 Unmodified _EPDAVHVVL_ 0 0 0 ENST00000533960.1_1_11:770991-771360:-|nuORF;ENST00000530209.5_1_11:770899-772585:-|nuORF;ENST00000534603.5_1_11:770899-773566:-|nuORF;nc|ENSG00000177225|Q8NB37-3|GATD1;ENSG00000177225|ENST00000319863|GATD1 ENST00000533960.1_1_11:770991-771360:-|nuORF ENST00000533960.1_1_11:770991-771360:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.7674560546875 2 489.766374 977.518196 3.0235 0.0014808 -0.22362 -0.00010952 2.7999 0.0013713 489.76622258379007 51.767 0.80023 52.429 52.158 52.958 0.66198 120 40 4 0 0 0 0.0022375 4 23710 23659;23710;23760;23804 101.72 41.332 1 9260200 5189 5109 3436 3446 5741;5742;5743;5744 5742 0.028537675519032746 EPDCSSSS 8 Unmodified _EPDCSSSS_ 0 0 0 ENST00000487114.1_1_1:36644989-36645856:+|nuORF ENST00000487114.1_1_1:36644989-36645856:+|nuORF ENST00000487114.1_1_1:36644989-36645856:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.274169921875 1 811.277439 810.270163 2.4647 0.0019995 -3.6998 -0.0030015 -1.2351 -0.001002 811.2749809890022 96.75 0.20234 96.827 96.783 96.985 0.076538 35 29 2 0 0 0 0.70799 1 51515 51515 5.2307 2.6532 1 35647000 5190 8343 3437 3447 5745 5745 -0.14256149098059723 EPDDEEQPTL 10 Unmodified _EPDDEEQPTL_ 0 0 0 REV__nc|ENSG00000104093|Q8TDJ6-2|DMXL2 REV__nc|ENSG00000104093|Q8TDJ6-2|DMXL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 586.9417114257812 2 586.751315 1171.48808 NaN NaN NaN NaN NaN NaN NaN 89.447 1 89.512 89.012 90.012 0.064346 0 0 0 0.99774 1 45849 45849 3.5965 0.60125 1 + 5191 10983 3438 3448 5746 5746 -0.09080680694592047 EPDDGDDDDDD 11 Unmodified _EPDDGDDDDDD_ 0 0 0 REV__ENST00000483012.1_1_7:148516133-148534012:-|nuORF REV__ENST00000483012.1_1_7:148516133-148534012:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.678955078125 2 611.678741 1221.34293 NaN NaN NaN NaN NaN NaN NaN 108.14 1 108.14 107.64 108.64 0 0 0 0 1.0082 1 59261 59261 0 0 1 + 5192 11084 3439 3449 5747 5747 -0.25888813352253237 EPDDNWRRKLR 11 Unmodified _EPDDNWRRKLR_ 0 0 0 REV__ENSG00000117036|ENST00000368192|ETV3 REV__ENSG00000117036|ENST00000368192|ETV3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 742.8900756835938 2 742.889481 1483.76441 NaN NaN NaN NaN NaN NaN NaN 91.13 1 91.382 90.882 91.882 0.25163 0 0 0 1.0072 1 41905 41905 1.3295 0 1 + 5193 11432 3440 3450 5748 5748 0.04187655383634592 EPDGTGLTCSL 11 Carbamidomethyl (C) _EPDGTGLTC(Carbamidomethyl (C))SL_ EPDGTGLTC(1)SL EPDGTGLTC(69)SL 0 1 0 nc|ENSG00000126432|P30044-4|PRDX5;nc|ENSG00000126432|P30044-2|PRDX5;nc|ENSG00000126432|P30044-3|PRDX5;ENSG00000126432|ENST00000265462|PRDX5 nc|ENSG00000126432|P30044-4|PRDX5 nc|ENSG00000126432|P30044-4|PRDX5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.2607421875 2 575.258253 1148.50195 3.2087 0.0018458 0.33179 0.00019087 3.5405 0.0020367 575.2584762583376 50.919 0.33837 51.737 51.499 51.838 0.81738 34 18 2 0 0 0 0.0045522 1 23160 23160 69.105 15.272 1 804620 5194 2451 3441 3451 5749 5749 55 -0.06635726467175118 EPDGTGLTCSL 11 Carbamidomethyl (C) _EPDGTGLTC(Carbamidomethyl (C))SL_ EPDGTGLTC(1)SL EPDGTGLTC(42)SL 0 1 0 nc|ENSG00000126432|P30044-4|PRDX5;nc|ENSG00000126432|P30044-2|PRDX5;nc|ENSG00000126432|P30044-3|PRDX5;ENSG00000126432|ENST00000265462|PRDX5 nc|ENSG00000126432|P30044-4|PRDX5 nc|ENSG00000126432|P30044-4|PRDX5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.2600708007812 2 575.258253 1148.50195 3.5153 0.0020222 -0.053293 -3.0657E-05 3.462 0.0019915 575.2583499333685 50.88 0.38528 51.54 51.393 51.778 0.65956 31 21 2 0 0 0 0.10283 1 23261 23261 41.84 12.758 1 641100 5195 2451 3441 3451 5750 5750 55 -0.06635726467175118 EPDGTGLTCSL 11 Carbamidomethyl (C) _EPDGTGLTC(Carbamidomethyl (C))SL_ 0 1 0 nc|ENSG00000126432|P30044-4|PRDX5;nc|ENSG00000126432|P30044-2|PRDX5;nc|ENSG00000126432|P30044-3|PRDX5;ENSG00000126432|ENST00000265462|PRDX5 nc|ENSG00000126432|P30044-4|PRDX5 nc|ENSG00000126432|P30044-4|PRDX5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 575.258253 1148.50195 3.6967 0.0021266 -0.11959 -6.8796E-05 3.5771 0.0020578 575.7594021912538 51.723 0.43646 51.723 51.4 51.837 0 0.056576 -0.00014934 NaN 69.105 47 26 2 NaN NaN NaN NaN 0 NaN NaN 0 823520 5196 2451 3441 3451 55 -0.06635726467175118 EPDLISKVL 9 Unmodified _EPDLISKVL_ 0 0 0 ENSG00000164880|ENST00000404767|INTS1 ENSG00000164880|ENST00000404767|INTS1 ENSG00000164880|ENST00000404767|INTS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.2989807128906 2 507.297507 1012.58046 NaN NaN NaN NaN NaN NaN NaN 66.521 1 67.178 66.678 67.678 0.65672 0 0 0 0.75166 1 30496 30496 10.824 2.2306 1 5197 4351 3442 3452 5751 5751 0.0746749390025343 EPDMFRMSLLF 11 Unmodified _EPDMFRMSLLF_ 0 0 0 REV__ENSG00000138031|ENST00000679454|ADCY3 REV__ENSG00000138031|ENST00000679454|ADCY3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 692.9595336914062 2 693.333241 1384.65193 NaN NaN NaN NaN NaN NaN NaN 102.43 1 102.49 101.99 102.99 0.057198 0 0 0 1.0059 1 55608 55608 2.9952 0.26005 1 + 5198 12142 3443 3453 5752 5752 -0.025010777290617625 EPDPEEWQL 9 Unmodified _EPDPEEWQL_ 0 0 0 nc|ENSG00000172845|Q02447-4|SP3;nc|ENSG00000172845|Q02447-3|SP3;nc|ENSG00000172845|Q02447-5|SP3;nc|ENSG00000172845|Q02447-6|SP3;nc|ENSG00000172845|Q02447-2|SP3;ENSG00000172845|ENST00000310015|SP3 nc|ENSG00000172845|Q02447-4|SP3 nc|ENSG00000172845|Q02447-4|SP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.75537109375 2 571.753661 1141.49277 3.7245 0.0021295 -0.20048 -0.00011463 3.524 0.0020148 571.7535179108978 68.702 0.6015 68.955 68.741 69.343 0.25227 68 41 2 0 0 0 0.0023685 5 31479 31435;31479;31551;31562;31627 100.37 79.918 1 682140 5199 4899 3444 3454 5753;5754;5755;5756;5757 5754 -0.07231751761173655 EPDPEEWQL 9 Unmodified _EPDPEEWQL_ 0 0 0 nc|ENSG00000172845|Q02447-4|SP3;nc|ENSG00000172845|Q02447-3|SP3;nc|ENSG00000172845|Q02447-5|SP3;nc|ENSG00000172845|Q02447-6|SP3;nc|ENSG00000172845|Q02447-2|SP3;ENSG00000172845|ENST00000310015|SP3 nc|ENSG00000172845|Q02447-4|SP3 nc|ENSG00000172845|Q02447-4|SP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.7561645507812 2 571.753661 1141.49277 3.506 0.0020046 -0.15426 -8.8198E-05 3.3517 0.0019164 571.7537745857652 68.311 0.5804 68.97 68.635 69.216 0.65925 86 38 3 0 0 0 0.0063783 3 31311 31261;31311;31363 88.904 70.757 1 849810 5200 4899 3444 3454 5758;5759;5760 5759 -0.07231751761173655 EPDPKMVEL 9 Unmodified _EPDPKMVEL_ 0 0 0 ENST00000487875.5_1_15:91491769-91496943:+|nuORF;nc|ENSG00000140553|Q9H3U1-2|UNC45A;ENSG00000140553|ENST00000418476|UNC45A ENST00000487875.5_1_15:91491769-91496943:+|nuORF ENST00000487875.5_1_15:91491769-91496943:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.266845703125 2 529.26535 1056.51615 3.168 0.0016767 0.27574 0.00014594 3.4437 0.0018226 529.265490754561 48.689 0.67476 48.689 48.389 49.064 0 97 39 3 0 0 0 0.10837 2 22353 22353;22425 30.637 8.8899 1 1328400 5201 3208 3445 3455 5761;5762 5761 -0.009850292482042278 EPDPKMVEL 9 Unmodified _EPDPKMVEL_ 0 0 0 ENST00000487875.5_1_15:91491769-91496943:+|nuORF;nc|ENSG00000140553|Q9H3U1-2|UNC45A;ENSG00000140553|ENST00000418476|UNC45A ENST00000487875.5_1_15:91491769-91496943:+|nuORF ENST00000487875.5_1_15:91491769-91496943:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.2670288085938 2 529.26535 1056.51615 3.3434 0.0017695 -0.32353 -0.00017123 3.0199 0.0015983 529.2651351293064 47.917 0.67841 48.57 48.356 49.035 0.65356 60 27 3 0 0 0 0.54955 1 21979 21979 11.64 1.4569 1 671050 5202 3208 3445 3455 5763 5763 -0.009850292482042278 EPDRLRLQ 8 Unmodified _EPDRLRLQ_ 0 0 0 ENSG00000177721|ENST00000616064|ANXA2R ENSG00000177721|ENST00000616064|ANXA2R ENSG00000177721|ENST00000616064|ANXA2R MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.7875366210938 2 513.788173 1025.56179 NaN NaN NaN NaN NaN NaN NaN 97.373 1 97.974 97.474 98.474 0.6019 0 0 0 0.99035 1 44771 44771 5.2307 0.47466 1 5203 5134 3446 3456 5764 5764 0.05003377049024493 EPDRPPLSGF 10 Unmodified _EPDRPPLSGF_ 0 0 0 CNOT11|p.R492Lfs*14|1|0.04|ENSG00000158435|chr2:101269354-101269355|-/T|frameshift_variant;CNOT11|p.L493Qfs*15|1|0.04|ENSG00000158435|chr2:101269356-101269357|-/CAGCCAT|frameshift_variant;ENSG00000158435|ENST00000289382|CNOT11 CNOT11|p.R492Lfs*14|1|0.04|ENSG00000158435|chr2:101269354-101269355|-/T|frameshift_variant CNOT11|p.R492Lfs*14|1|0.04|ENSG00000158435|chr2:101269354-101269355|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.7785034179688 2 557.780013 1113.54547 NaN NaN NaN NaN NaN NaN NaN 99.635 1 99.944 99.444 100.44 0.30835 0 0 0 0.99464 1 46051 46051 6.2058 1.4498 1 5204 197 3447 3457 5765 5765 -0.006757489077244827 EPDSPPVAL 9 Unmodified _EPDSPPVAL_ 0 0 0 ENSG00000198911|ENST00000361204|SREBF2;nc|ENSG00000198911|Q12772-2|SREBF2 ENSG00000198911|ENST00000361204|SREBF2 ENSG00000198911|ENST00000361204|SREBF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 462.7381591796875 2 462.737283 923.460012 2.4881 0.0011514 0.5073 0.00023475 2.9955 0.0013861 462.7375485428017 53.88 0.56688 54.676 54.494 55.061 0.79552 41 28 2 0 0 0 0.086747 1 24572 24572 36.044 11.834 1 312750 5205 5961 3448 3458 5766 5766 -0.0047791409338060475 EPDTLMTRLHS 11 Unmodified _EPDTLMTRLHS_ 0 0 0 REV__nc|ENSG00000153786|Q9NXF8-2|ZDHHC7 REV__nc|ENSG00000153786|Q9NXF8-2|ZDHHC7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 650.573974609375 2 650.321719 1298.62889 NaN NaN NaN NaN NaN NaN NaN 90.451 1 90.526 90.026 91.026 0.075279 0 0 0 1.0059 1 46614 46614 2.9952 0 1 + 5206 17988 3449 3459 5767 5767 -0.008483805221658258 EPDTSVTLAQ 10 Unmodified _EPDTSVTLAQ_ 0 0 0 REV__nc|ENSG00000184432|P35606-2|COPB2 REV__nc|ENSG00000184432|P35606-2|COPB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.7608642578125 2 530.761486 1059.50842 NaN NaN NaN NaN NaN NaN NaN 82.949 1 82.949 82.449 83.449 0 0 0 0 0.99464 1 41672 41672 6.2058 0.47393 1 + 5207 13973 3450 3460 5768 5768 -0.01895465244137995 EPDVHQYKMFW 11 Unmodified _EPDVHQYKMFW_ 0 0 0 REV__ENST00000414118.2_1_7:102743878-102755668:-|nuORF REV__ENST00000414118.2_1_7:102743878-102755668:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.89727783203125 3 493.8957 1478.66527 NaN NaN NaN NaN NaN NaN NaN 92.409 1 92.492 91.992 92.992 0.082848 0 0 0 1.0072 1 48147 48147 0.45452 0.046251 1 + 5208 12907 3451 3461 5769 5769 -0.05491503625466976 EPDWFEKQFVP 11 Unmodified _EPDWFEKQFVP_ 0 0 0 nc|ENSG00000144730|Q8NFM7-2|IL17RD;ENST00000469841.5_1_3:57131519-57204269:-|nuORF;nc|ENSG00000144730|Q8NFM7-4|IL17RD;nc|ENSG00000144730|Q8NFM7-3|IL17RD;ENSG00000144730|ENST00000296318|IL17RD nc|ENSG00000144730|Q8NFM7-2|IL17RD nc|ENSG00000144730|Q8NFM7-2|IL17RD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 711.3419189453125 2 711.340435 1420.66632 NaN NaN NaN NaN NaN NaN NaN 87.741 1 87.741 87.241 88.241 0 0 0 0 1.0057 1 45341 45341 3.2813 1.6287 1 5209 3443 3452 3462 5770 5770 -0.027189659849454983 EPDWNDEEWDE 11 Unmodified _EPDWNDEEWDE_ 0 0 0 REV__ENSG00000182459|ENST00000333437|TEX19 REV__ENSG00000182459|ENST00000333437|TEX19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 732.2659301757812 2 732.265318 1462.51608 NaN NaN NaN NaN NaN NaN NaN 81.689 1 81.689 81.189 82.189 0 0 0 0 1.0072 1 40722 40722 1.3295 1.0225 1 + 5210 13893 3453 3463 5771 5771 -0.19667402505183418 EPEDDDEDPN 10 Unmodified _EPEDDDEDPN_ 0 0 0 REV__ENSG00000119720|ENST00000354366|NRDE2 REV__ENSG00000119720|ENST00000354366|NRDE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.7064819335938 2 587.704562 1173.39457 NaN NaN NaN NaN NaN NaN NaN 88.055 1 88.095 87.595 88.595 0.039955 0 0 0 0.99774 1 44759 44759 3.5965 1.5367 1 + 5211 11514 3454 3464 5772 5772 -0.1851902486769177 EPEDHYFLL 9 Unmodified _EPEDHYFLL_ 0 0 0 ENST00000541653.2_1_14:22054224-22054383:-|nuORF;ENST00000489779.1_1_2:114684960-114691984:+|nuORF;ENSG00000115091|ENST00000263238|ACTR3 ENST00000541653.2_1_14:22054224-22054383:-|nuORF ENST00000541653.2_1_14:22054224-22054383:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.7756958007812 2 581.774396 1161.53424 NaN NaN NaN NaN NaN NaN NaN 70.071 1 70.327 69.827 70.827 0.25642 0 0 0 0.52667 1 32089 32089 18.135 0 1 5212 1943 3455 3465 5773 5773 -0.040065710018552636 EPEEEGDRDPE 11 Unmodified _EPEEEGDRDPE_ 0 0 0 ENST00000273067.4_1_2:217236061-217236496:-|nuORF ENST00000273067.4_1_2:217236061-217236496:-|nuORF ENST00000273067.4_1_2:217236061-217236496:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 651.2616577148438 2 651.260036 1300.50552 NaN NaN NaN NaN NaN NaN NaN 99.805 1 99.867 99.367 100.37 0.062241 0 0 0 1.0059 1 54028 54028 2.9952 0 1 5213 6660 3456 3466 5774 5774 -0.13271385159600868 EPEEESERHIL 11 Unmodified _EPEEESERHIL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.5534362792969 3 456.552768 1366.63647 2.8738 0.0013121 0.047982 2.1906E-05 2.9218 0.001334 456.55280587860466 25.006 0.52131 25.274 25.095 25.616 0.26777 215 74 4 0 0 0 8.4729E-05 6 11266 11266;11308;11351;11393;11436;11484 74.306 48.186 1 12006000 5214 4953 3457 3467 5775;5776;5777;5778;5779;5780 5775 -0.03217949720897195 EPEEESERHIL 11 Unmodified _EPEEESERHIL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 684.3272094726562 2 684.325513 1366.63647 NaN NaN NaN NaN NaN NaN NaN 24.905 1 25.177 24.677 25.677 0.27129 0 0 0 0.14817 1 11294 11294 40.725 23.282 1 5215 4953 3457 3467 5781 5781 -0.03217949720897195 EPEEESERHIL 11 Unmodified _EPEEESERHIL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 684.3270874023438 2 684.325513 1366.63647 NaN NaN NaN NaN NaN NaN NaN 25.098 1 25.366 24.866 25.866 0.26777 0 0 0 0.0012194 1 11385 11385 77.049 49.825 1 5216 4953 3457 3467 5782 5782 -0.03217949720897195 EPEEESERHIL 11 Unmodified _EPEEESERHIL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 684.3277587890625 2 684.325513 1366.63647 NaN NaN NaN NaN NaN NaN NaN 25.192 1 25.46 24.96 25.96 0.26777 0 0 0 0.40886 1 11430 11430 29.437 20.054 1 5217 4953 3457 3467 5783 5783 -0.03217949720897195 EPEEESERHIL 11 Unmodified _EPEEESERHIL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.55438232421875 3 456.552768 1366.63647 2.8886 0.0013188 -0.069859 -3.1894E-05 2.8187 0.0012869 456.55275150307097 24.675 0.30569 25.304 25.184 25.49 0.62915 97 57 2 0 0 0 8.4729E-05 3 11258 11258;11295;11341 66.55 34.333 1 12087000 5218 4953 3457 3467 5784;5785;5786 5784 -0.03217949720897195 EPEEESERHIL 11 Unmodified _EPEEESERHIL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 684.3267211914062 2 684.325513 1366.63647 NaN NaN NaN NaN NaN NaN NaN 24.624 1 25.253 24.753 25.753 0.62915 0 0 0 1.1426E-08 1 11273 11273 125.18 84.456 1 5219 4953 3457 3467 5787 5787 -0.03217949720897195 EPEERPKRRWR 11 Unmodified _EPEERPKRRWR_ 0 0 0 REV__ENST00000569248.5_1_16:730446-730920:+|nuORF REV__ENST00000569248.5_1_16:730446-730920:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 769.59423828125 2 769.918572 1537.82259 NaN NaN NaN NaN NaN NaN NaN 85.243 1 85.271 84.771 85.771 0.028603 0 0 0 1.0072 1 42640 42640 1.3295 0 1 + 5220 17438 3458 3468 5788 5788 0.07519337028907103 EPEGRPRPL 9 Unmodified _EPEGRPRPL_ 0 0 0 ENST00000258149.9_1_12:69201984-69202068:+|nuORF ENST00000258149.9_1_12:69201984-69202068:+|nuORF ENST00000258149.9_1_12:69201984-69202068:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.8620300292969 3 350.861207 1049.56179 2.5329 0.00088868 -0.23386 -8.2053E-05 2.299 0.00080663 350.8610901319533 14.002 0.18094 14.002 13.878 14.059 0 22 10 3 0 0 0 0.079031 1 6167 6167 28.495 13.537 1 839770 5221 6537 3459 3469 5789 5789 0.038993770490378665 EPEGRPRPL 9 Unmodified _EPEGRPRPL_ 0 0 0 ENST00000258149.9_1_12:69201984-69202068:+|nuORF ENST00000258149.9_1_12:69201984-69202068:+|nuORF ENST00000258149.9_1_12:69201984-69202068:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.86181640625 3 350.861207 1049.56179 2.0615 0.0007233 0.42072 0.00014761 2.4822 0.00087091 350.86144821160036 13.204 0.38389 13.448 13.271 13.655 0.24346 60 30 3 0 0 0 0.19064 2 5778 5778;5828 17.443 7.2921 1 348280 5222 6537 3459 3469 5790;5791 5790 0.038993770490378665 EPEGRPRPL 9 Unmodified _EPEGRPRPL_ 0 0 0 ENST00000258149.9_1_12:69201984-69202068:+|nuORF ENST00000258149.9_1_12:69201984-69202068:+|nuORF ENST00000258149.9_1_12:69201984-69202068:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 525.7898559570312 2 525.788173 1049.56179 NaN NaN NaN NaN NaN NaN NaN 13.33 1 13.573 13.073 14.073 0.24346 0 0 0 0.8984 1 5815 5815 3.9444 0.66309 1 5223 6537 3459 3469 5792 5792 0.038993770490378665 EPEGRPRPL 9 Unmodified _EPEGRPRPL_ 0 0 0 ENST00000258149.9_1_12:69201984-69202068:+|nuORF ENST00000258149.9_1_12:69201984-69202068:+|nuORF ENST00000258149.9_1_12:69201984-69202068:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.1954650878906 3 350.861207 1049.56179 2.0002 0.00070181 1.5315 0.00053734 3.5317 0.0012392 350.86174317276567 13.199 0.47393 13.506 13.279 13.752 0.30727 44 31 2 0 0 0 0.1038 1 6012 6012 7.1017 4.8189 1 268670 5224 6537 3459 3469 5793 5793 0.038993770490378665 EPEKELYV 8 Unmodified _EPEKELYV_ 0 0 0 REV__nc|ENSG00000282100|Q58FF6|HSP90AB4P REV__nc|ENSG00000282100|Q58FF6|HSP90AB4P MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.7591552734375 2 503.758215 1005.50188 3.0415 0.0015322 0.47446 0.00023901 3.5159 0.0017712 503.75803642425143 40.35 0.19901 41.15 41.069 41.268 0.80014 21 11 3 0 0 0 0.21011 1 18289 18289 42.095 0 1 910310 + 5225 18160 3460 3470 5794 5794 -0.0006535840486776578 EPEKEVVSL 9 Unmodified _EPEKEVVSL_ 0 0 0 nc|ENSG00000143514|Q13625-2|TP53BP2;nc|ENSG00000143514|Q13625|TP53BP2;ENSG00000143514|ENST00000343537|TP53BP2 nc|ENSG00000143514|Q13625-2|TP53BP2 nc|ENSG00000143514|Q13625-2|TP53BP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.2750244140625 2 515.276772 1028.53899 3.2492 0.0016742 -0.24889 -0.00012825 3.0003 0.001546 515.2773789727215 38.61 0.37146 38.874 38.656 39.028 0.26408 29 14 3 0 0 0 0.02631 1 17569 17569 60.074 1.3951 1 1136900 5226 3376 3461 3471 5795 5795 0.02586313140909624 EPELLVRWYQM 11 Unmodified _EPELLVRWYQM_ 0 0 0 nc|ENSG00000089597|Q14697-2|GANAB;ENSG00000089597|ENST00000356638|GANAB nc|ENSG00000089597|Q14697-2|GANAB nc|ENSG00000089597|Q14697-2|GANAB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 731.947265625 2 732.371212 1462.72787 NaN NaN NaN NaN NaN NaN NaN 88.578 1 88.63 88.13 89.13 0.052155 0 0 0 1.0072 1 45156 45156 1.3295 0 1 5227 1044 3462 3472 5796 5796 0.015016424427358288 EPELYWCSEVP 11 Unmodified _EPELYWCSEVP_ 0 0 0 REV__ENST00000603864.5_1_12:51663146-51663326:-|nuORF REV__ENST00000603864.5_1_12:51663146-51663326:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 676.2953491210938 2 676.297378 1350.5802 NaN NaN NaN NaN NaN NaN NaN 89.939 1 90.003 89.503 90.503 0.064346 0 0 0 1.0057 1 46219 46219 3.2813 0.28607 1 + 5228 17650 3463 3473 5797 5797 -0.08106293881951387 EPEPAHMIL 9 Unmodified _EPEPAHMIL_ 0 0 0 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.7623291015625 2 518.760235 1035.50592 3.359 0.0017425 -0.23633 -0.0001226 3.1227 0.0016199 518.7604241960656 51.5 0.56488 51.5 51.167 51.732 0 55 26 4 0 0 0 0.044201 2 23549 23549;23595 49.669 29.215 1 2468900 5229 4131 3464 3474 5798;5799 5798 -0.010415921827870989 EPEPAHMIL 9 Unmodified _EPEPAHMIL_ 0 0 0 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.7627563476562 2 518.760235 1035.50592 3.27 0.0016963 -0.1019 -5.2861E-05 3.1681 0.0016435 518.7603434303162 50.591 0.34108 51.409 51.239 51.58 0.81738 38 16 3 0 0 0 0.044201 2 23032 23032;23090 49.669 26.52 1 2863200 5230 4131 3464 3474 5800;5801 5800 -0.010415921827870989 EPEPAHMIL 9 Unmodified _EPEPAHMIL_ 0 0 0 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.7626953125 2 518.760235 1035.50592 NaN NaN NaN NaN NaN NaN NaN 50.657 1 51.316 50.816 51.816 0.65956 0 0 0 0.35622 1 23163 23163 24.674 6.5389 1 5231 4131 3464 3474 5802 5802 -0.010415921827870989 EPEPAHMIL 9 Unmodified _EPEPAHMIL_ 0 0 0 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.761962890625 2 518.760235 1035.50592 NaN NaN NaN NaN NaN NaN NaN 50.704 1 51.363 50.863 51.863 0.65956 0 0 0 0.1748 1 23184 23184 32.117 7.4431 1 5232 4131 3464 3474 5803 5803 -0.010415921827870989 EPEPSPKAL 9 Unmodified _EPEPSPKAL_ 0 0 0 ENSG00000127220|ENST00000247706|ABHD8 ENSG00000127220|ENST00000247706|ABHD8 ENSG00000127220|ENST00000247706|ABHD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.259521484375 2 484.258382 966.502212 3.424 0.0016581 -0.088605 -4.2908E-05 3.3354 0.0016152 484.2583523059999 27.463 0.37292 27.463 27.221 27.594 0 40 28 2 0 0 0 0.093314 2 12386 12319;12386 34.402 18.996 1 663460 5233 2476 3465 3475 5804;5805 5805 0.017620613149915698 EPEPSPKAL 9 Unmodified _EPEPSPKAL_ 0 0 0 ENSG00000127220|ENST00000247706|ABHD8 ENSG00000127220|ENST00000247706|ABHD8 ENSG00000127220|ENST00000247706|ABHD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.259521484375 2 484.258382 966.502212 3.1166 0.0015093 -0.12255 -5.9348E-05 2.9941 0.0014499 484.25838659430156 26.481 0.39196 27.26 27.054 27.446 0.7787 52 30 2 0 0 0 0.043585 2 11916 11867;11916 49.933 23.049 1 439580 5234 2476 3465 3475 5806;5807 5807 0.017620613149915698 EPEPSPKAL 9 Unmodified _EPEPSPKAL_ 0 0 0 ENSG00000127220|ENST00000247706|ABHD8 ENSG00000127220|ENST00000247706|ABHD8 ENSG00000127220|ENST00000247706|ABHD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.2607727050781 2 484.258382 966.502212 3.0439 0.001474 0.55845 0.00027043 3.6024 0.0017445 484.2585733442807 27.107 0.24036 27.372 27.202 27.442 0.26489 23 15 2 0 0 0 0.41574 1 12331 12331 13.906 8.1456 1 322360 5235 2476 3465 3475 5808 5808 0.017620613149915698 EPEQFVVVM 9 Unmodified _EPEQFVVVM_ 0 0 0 nc|ENSG00000139734|Q9NSV4-2|DIAPH3;nc|ENSG00000139734|Q9NSV4-1|DIAPH3;nc|ENSG00000139734|Q9NSV4-7|DIAPH3;nc|ENSG00000139734|Q9NSV4-6|DIAPH3;nc|ENSG00000139734|Q9NSV4-5|DIAPH3;nc|ENSG00000139734|Q9NSV4-4|DIAPH3;ENSG00000139734|ENST00000400324|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.2699584960938 2 539.267893 1076.52123 2.6379 0.0014225 0.57172 0.00030831 3.2096 0.0017308 539.2682077609156 75.21 0.38568 75.21 75.042 75.428 0 99 36 3 0 0 0 0.024388 4 36851 36804;36851;36906;36956 62.573 26.949 1 5909600 5236 3164 3466 3476 5809;5810;5811;5812 5810 -0.013967253855980744 EPEQFVVVM 9 Unmodified _EPEQFVVVM_ 0 0 0 nc|ENSG00000139734|Q9NSV4-2|DIAPH3;nc|ENSG00000139734|Q9NSV4-1|DIAPH3;nc|ENSG00000139734|Q9NSV4-7|DIAPH3;nc|ENSG00000139734|Q9NSV4-6|DIAPH3;nc|ENSG00000139734|Q9NSV4-5|DIAPH3;nc|ENSG00000139734|Q9NSV4-4|DIAPH3;ENSG00000139734|ENST00000400324|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.2697143554688 2 539.267893 1076.52123 2.6111 0.0014081 -0.53033 -0.00028599 2.0808 0.0011221 539.2680148152928 74.396 0.45505 75.082 74.904 75.359 0.68662 93 34 4 0 0 0 0.027384 3 35924 35924;35970;36015 58.679 20.705 1 4486100 5237 3164 3466 3476 5813;5814;5815 5813 -0.013967253855980744 EPEQFVVVM 9 Unmodified _EPEQFVVVM_ 0 0 0 nc|ENSG00000139734|Q9NSV4-2|DIAPH3;nc|ENSG00000139734|Q9NSV4-1|DIAPH3;nc|ENSG00000139734|Q9NSV4-7|DIAPH3;nc|ENSG00000139734|Q9NSV4-6|DIAPH3;nc|ENSG00000139734|Q9NSV4-5|DIAPH3;nc|ENSG00000139734|Q9NSV4-4|DIAPH3;ENSG00000139734|ENST00000400324|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.2695922851562 2 539.267893 1076.52123 2.8515 0.0015377 0.10134 5.4652E-05 2.9528 0.0015924 539.2679029088921 74.945 0.4642 75.203 75.021 75.485 0.25831 111 42 3 0 0 0 0.024388 4 34464 34418;34464;34509;34553 62.573 30.267 1 2996400 5238 3164 3466 3476 5816;5817;5818;5819 5817 -0.013967253855980744 EPEQFVVVM 9 Unmodified _EPEQFVVVM_ 0 0 0 nc|ENSG00000139734|Q9NSV4-2|DIAPH3;nc|ENSG00000139734|Q9NSV4-1|DIAPH3;nc|ENSG00000139734|Q9NSV4-7|DIAPH3;nc|ENSG00000139734|Q9NSV4-6|DIAPH3;nc|ENSG00000139734|Q9NSV4-5|DIAPH3;nc|ENSG00000139734|Q9NSV4-4|DIAPH3;ENSG00000139734|ENST00000400324|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.269287109375 2 539.267893 1076.52123 2.8499 0.0015369 -0.12424 -6.6998E-05 2.7257 0.0014699 539.2677016061945 74.432 0.45341 75.096 74.914 75.367 0.6644 119 48 3 0 0 0 0.024388 4 34267 34223;34267;34309;34352 62.573 20.3 1 2355600 5239 3164 3466 3476 5820;5821;5822;5823 5821 -0.013967253855980744 EPEQFVVVM 9 Oxidation (M) _EPEQFVVVM(Oxidation (M))_ EPEQFVVVM(1) EPEQFVVVM(68) 0 0 1 nc|ENSG00000139734|Q9NSV4-2|DIAPH3;nc|ENSG00000139734|Q9NSV4-1|DIAPH3;nc|ENSG00000139734|Q9NSV4-7|DIAPH3;nc|ENSG00000139734|Q9NSV4-6|DIAPH3;nc|ENSG00000139734|Q9NSV4-5|DIAPH3;nc|ENSG00000139734|Q9NSV4-4|DIAPH3;ENSG00000139734|ENST00000400324|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.266845703125 2 547.26535 1092.51615 3.5049 0.0019181 -0.38246 -0.00020931 3.1225 0.0017088 547.2647980087182 56.689 0.33545 56.954 56.803 57.139 0.26532 26 16 2 0 0 0 0.020151 1 25921 25921 68.081 44.932 1 1280100 5240 3164 3466 3477 5824 5824 46 -0.026410292482069053 EPEQFVVVM 9 Oxidation (M) _EPEQFVVVM(Oxidation (M))_ EPEQFVVVM(1) EPEQFVVVM(59) 0 0 1 nc|ENSG00000139734|Q9NSV4-2|DIAPH3;nc|ENSG00000139734|Q9NSV4-1|DIAPH3;nc|ENSG00000139734|Q9NSV4-7|DIAPH3;nc|ENSG00000139734|Q9NSV4-6|DIAPH3;nc|ENSG00000139734|Q9NSV4-5|DIAPH3;nc|ENSG00000139734|Q9NSV4-4|DIAPH3;ENSG00000139734|ENST00000400324|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.2678833007812 2 547.26535 1092.51615 3.5775 0.0019579 -0.41977 -0.00022973 3.1578 0.0017281 547.2652557203675 56.065 0.5036 56.733 56.479 56.982 0.66829 57 26 3 0 0 0 0.027384 1 25603 25603 58.679 36.932 1 1384100 5241 3164 3466 3477 5825 5825 46 -0.026410292482069053 EPEQFVVVM 9 Oxidation (M) _EPEQFVVVM(Oxidation (M))_ 0 0 1 nc|ENSG00000139734|Q9NSV4-2|DIAPH3;nc|ENSG00000139734|Q9NSV4-1|DIAPH3;nc|ENSG00000139734|Q9NSV4-7|DIAPH3;nc|ENSG00000139734|Q9NSV4-6|DIAPH3;nc|ENSG00000139734|Q9NSV4-5|DIAPH3;nc|ENSG00000139734|Q9NSV4-4|DIAPH3;ENSG00000139734|ENST00000400324|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 547.26535 1092.51615 2.9342 0.0016058 -0.40519 -0.00022175 2.529 0.001384 547.2654847441643 56.226 0.27666 57.004 56.857 57.133 0.77786 0.083476 6.8106E-05 NaN 68.081 41 25 2 NaN NaN NaN NaN 0 NaN NaN 0 891370 5242 3164 3466 3477 46 -0.026410292482069053 EPERKRQKS 9 Unmodified _EPERKRQKS_ 0 0 0 ENSG00000038219|ENST00000040738|BOD1L1 ENSG00000038219|ENST00000040738|BOD1L1 ENSG00000038219|ENST00000040738|BOD1L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.32275390625 2 579.322911 1156.63127 NaN NaN NaN NaN NaN NaN NaN 90.412 1 90.412 89.912 90.912 0 0 0 0 0.88916 1 47512 47512 6.2058 0.9089 1 5243 519 3467 3478 5826 5826 0.05921835997787639 EPERVASVL 9 Unmodified _EPERVASVL_ 0 0 0 ENSG00000130147|ENST00000392011|SH3BP4 ENSG00000130147|ENST00000392011|SH3BP4 ENSG00000130147|ENST00000392011|SH3BP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.2787780761719 2 500.277106 998.53966 3.0752 0.0015385 0.45324 0.00022675 3.5284 0.0017652 500.27729053499235 39.128 0.40851 39.128 38.942 39.35 0 37 15 3 0 0 0 0.015631 2 17773 17722;17773 74.2 30.341 1 4437900 5244 2574 3468 3479 5827;5828 5828 0.04033152580609567 EPERVASVL 9 Unmodified _EPERVASVL_ 0 0 0 ENSG00000130147|ENST00000392011|SH3BP4 ENSG00000130147|ENST00000392011|SH3BP4 ENSG00000130147|ENST00000392011|SH3BP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.2785339355469 2 500.277106 998.53966 3.0515 0.0015266 0.1537 7.6894E-05 3.2052 0.0016035 500.2771551875478 38.057 0.49809 38.852 38.588 39.087 0.79552 35 17 3 0 0 0 0.026853 2 17272 17220;17272 59.368 15.51 1 3934100 5245 2574 3468 3479 5829;5830 5830 0.04033152580609567 EPERVASVL 9 Unmodified _EPERVASVL_ 0 0 0 ENSG00000130147|ENST00000392011|SH3BP4 ENSG00000130147|ENST00000392011|SH3BP4 ENSG00000130147|ENST00000392011|SH3BP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.2795715332031 2 500.277106 998.53966 3.0705 0.0015361 0.63897 0.00031966 3.7094 0.0018557 500.2773861179175 38.774 0.32309 39.038 38.932 39.255 0.26408 29 12 3 0 0 0 0.030603 1 17631 17631 55.503 11.644 1 1616700 5246 2574 3468 3479 5831 5831 0.04033152580609567 EPERVASVL 9 Unmodified _EPERVASVL_ 0 0 0 ENSG00000130147|ENST00000392011|SH3BP4 ENSG00000130147|ENST00000392011|SH3BP4 ENSG00000130147|ENST00000392011|SH3BP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.2787780761719 2 500.277106 998.53966 3.1165 0.0015591 0.56777 0.00028404 3.6843 0.0018432 500.27735391182176 38.378 0.4614 39.012 38.787 39.248 0.63388 45 19 3 0 0 0 0.02812 1 17541 17541 57.722 19.748 1 1348200 5247 2574 3468 3479 5832 5832 0.04033152580609567 EPFDEFEEW 9 Unmodified _EPFDEFEEW_ 0 0 0 ENST00000567039.1_1_15:43620629-43622752:-|nuORF;LCMT2|p.L638Cfs*39|1|0.14|ENSG00000168806|chr15:43328574-43328577|ATTA/-|frameshift_variant;ENSG00000168806|ENST00000305641|LCMT2 ENST00000567039.1_1_15:43620629-43622752:-|nuORF ENST00000567039.1_1_15:43620629-43622752:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 614.150146484375 2 614.245669 1226.47678 NaN NaN NaN NaN NaN NaN NaN 97.558 1 97.847 97.347 98.347 0.28923 0 0 0 0.90611 1 44825 44825 2.0598 0 1 5248 4653 3469 3480 5833 5833 -0.1273945799810008 EPFFALLL 8 Unmodified _EPFFALLL_ 0 0 0 REV__ENST00000512712.2_1_4:2937493-2937682:+|nuORF REV__ENST00000512712.2_1_4:2937493-2937682:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 475.2732238769531 2 475.273304 948.532055 NaN NaN NaN NaN NaN NaN NaN 45.248 1 45.248 44.748 45.748 0 0 0 0 0.99035 1 20697 20697 0.79363 0 1 + 5249 16983 3470 3481 5834 5834 0.055730450509940965 EPFIKFSY 8 Unmodified _EPFIKFSY_ 0 0 0 REV__nc|ENSG00000106991|P17813-2|ENG REV__nc|ENSG00000106991|P17813-2|ENG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.7667236328125 2 515.765843 1029.51713 NaN NaN NaN NaN NaN NaN NaN 82.086 1 82.086 81.586 82.586 0 0 0 0 0.95658 1 40984 40984 8.5933 2.8329 1 + 5250 11103 3471 3482 5835 5835 0.0035555318299884675 EPFKQPQQRL 10 Unmodified _EPFKQPQQRL_ 0 0 0 REV__ITGAM|p.D529Tfs*2|1|0.31|ENSG00000169896|chr16:31297828-31297828|G/-|frameshift_variant REV__ITGAM|p.D529Tfs*2|1|0.31|ENSG00000169896|chr16:31297828-31297828|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 635.8060302734375 2 635.848761 1269.68297 NaN NaN NaN NaN NaN NaN NaN 85.198 1 85.226 84.726 85.726 0.028603 0 0 0 0.99774 1 42615 42615 3.5965 0.31518 1 + 5251 13404 3472 3483 5836 5836 0.058915796917062835 EPFNTNEMEMW 11 Unmodified _EPFNTNEMEMW_ 0 0 0 REV__ENST00000470305.1_1_9:91938716-91938794:+|nuORF REV__ENST00000470305.1_1_9:91938716-91938794:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 714.2840576171875 2 714.283945 1426.55334 NaN NaN NaN NaN NaN NaN NaN 90.512 1 90.587 90.087 91.087 0.075279 0 0 0 1.0059 1 46662 46662 2.9952 1.3426 1 + 5252 16588 3473 3484 5837 5837 -0.1428772576477968 EPFSEEATL 9 Unmodified _EPFSEEATL_ 0 0 0 ENSG00000197157|ENST00000354725|SND1;ENST00000470723.5_1_7:127589266-127648128:+|nuORF;ENST00000467238.1_1_7:127631037-127637644:+|nuORF ENSG00000197157|ENST00000354725|SND1 ENSG00000197157|ENST00000354725|SND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 511.739501953125 2 511.73748 1021.46041 3.2969 0.0016871 0.19673 0.00010068 3.4936 0.0017878 511.7376810287683 56.176 0.28931 56.442 56.279 56.568 0.26543 15 10 2 0 0 0 0.09451 1 25742 25742 34.102 22.462 1 630620 5253 5798 3474 3485 5838 5838 -0.049465391641888345 EPFSEEATL 9 Unmodified _EPFSEEATL_ 0 0 0 ENSG00000197157|ENST00000354725|SND1;ENST00000470723.5_1_7:127589266-127648128:+|nuORF;ENST00000467238.1_1_7:127631037-127637644:+|nuORF ENSG00000197157|ENST00000354725|SND1 ENSG00000197157|ENST00000354725|SND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 511.7389831542969 2 511.73748 1021.46041 3.3934 0.0017365 0.092348 4.7258E-05 3.4858 0.0017838 511.73738621427225 55.511 0.25689 56.179 56.059 56.316 0.66798 18 11 3 0 0 0 0.062556 1 25393 25393 42.095 16.695 1 526590 5254 5798 3474 3485 5839 5839 -0.049465391641888345 EPFSEEATL 9 Unmodified _EPFSEEATL_ 0 0 0 ENSG00000197157|ENST00000354725|SND1;ENST00000470723.5_1_7:127589266-127648128:+|nuORF;ENST00000467238.1_1_7:127631037-127637644:+|nuORF ENSG00000197157|ENST00000354725|SND1 ENSG00000197157|ENST00000354725|SND1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 511.73748 1021.46041 3.1142 0.0015937 -0.03276 -1.6765E-05 3.0814 0.0015769 511.7375814059351 56.251 0.24589 56.251 56.155 56.401 0 -0.039602 -0.0001161 NaN 42.095 25 21 2 NaN NaN NaN NaN 0 NaN NaN 0 692670 5255 5798 3474 3485 -0.049465391641888345 EPFTQIFLR 9 Unmodified _EPFTQIFLR_ 0 0 0 nc|ENSG00000163625|Q8IZQ1-2|WDFY3;ENSG00000163625|ENST00000295888|WDFY3 nc|ENSG00000163625|Q8IZQ1-2|WDFY3 nc|ENSG00000163625|Q8IZQ1-2|WDFY3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 384.2145690917969 3 384.213358 1149.61824 2.7962 0.0010743 -0.15297 -5.8774E-05 2.6432 0.0010155 384.21336575282794 55.645 0.2698 56.313 56.209 56.478 0.66798 15 9 2 0 0 0 0.81759 1 25481 25481 7.1017 0 1 1308300 5256 4231 3475 3486 5840 5840 0.04942004885674578 EPFVLVPI 8 Unmodified _EPFVLVPI_ 0 0 0 REV__ENST00000474433.5_1_7:105254161-105283525:-|nuORF REV__ENST00000474433.5_1_7:105254161-105283525:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.27447509765625 2 457.273304 912.532055 3.0199 0.0013809 -0.80645 -0.00036877 2.2135 0.0010122 457.272943676785 49.243 0.31972 49.898 49.763 50.083 0.65524 19 10 2 0 0 0 0.70799 1 22547 22547 5.2307 5.2307 1 603890 + 5257 16636 3476 3487 5841 5841 0.07229045050996774 EPFYEVNAVR 10 Unmodified _EPFYEVNAVR_ 0 0 0 REV__PARP14|p.F753Sfs*5|1|0.07|ENSG00000173193|chr3:122700811-122700812|-/C|frameshift_variant REV__PARP14|p.F753Sfs*5|1|0.07|ENSG00000173193|chr3:122700811-122700812|-/C|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 612.3045654296875 2 612.306395 1222.59824 NaN NaN NaN NaN NaN NaN NaN 86.953 1 86.953 86.453 87.453 0 0 0 0 0.99774 1 44703 44703 3.5965 1.5367 1 + 5258 13586 3477 3488 5842 5842 -0.004157908449315073 EPGAEEGPTL 10 Unmodified _EPGAEEGPTL_ 0 0 0 REV__nc|ENSG00000165259|Q7Z353-2|HDX REV__nc|ENSG00000165259|Q7Z353-2|HDX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.2367248535156 2 500.235104 998.455655 3.0586 0.00153 0.44255 0.00022138 3.5011 0.0017514 500.23500046685297 36.896 0.38885 36.896 36.691 37.08 0 22 16 2 0 0 0 0.76575 1 16732 16732 10.074 2.7847 1 196520 + 5259 13149 3478 3489 5843 5843 -0.04363423306926961 EPGAEEGPTL 10 Unmodified _EPGAEEGPTL_ 0 0 0 REV__nc|ENSG00000165259|Q7Z353-2|HDX REV__nc|ENSG00000165259|Q7Z353-2|HDX MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.2376403808594 2 500.235104 998.455655 NaN NaN NaN NaN NaN NaN NaN 36.393 1 37.02 36.52 37.52 0.62631 0 0 0 0.97102 1 16665 16665 10.074 2.7847 1 + 5260 13149 3478 3489 5844 5844 -0.04363423306926961 EPGDHGSTLL 10 Unmodified _EPGDHGSTLL_ 0 0 0 REV__nc|ENSG00000196588|Q969V6|MRTFA REV__nc|ENSG00000196588|Q969V6|MRTFA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.2500610351562 2 513.248546 1024.48254 NaN NaN NaN NaN NaN NaN NaN 94.965 1 95.047 94.547 95.547 0.082001 0 0 0 0.99464 1 50090 50090 6.2058 0.97511 1 + 5261 14234 3479 3490 5845 5845 -0.028723146957418066 EPGEELEEE 9 Unmodified _EPGEELEEE_ 0 0 0 nc|nan|Q9H3H3-1|C11orf68;nc|nan|Q9H3H3|C11orf68;ENSG00000175573|ENST00000438576|C11orf68 nc|nan|Q9H3H3-1|C11orf68 nc|nan|Q9H3H3-1|C11orf68 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.7223510742188 2 530.719484 1059.42441 NaN NaN NaN NaN NaN NaN NaN 89.832 1 89.896 89.396 90.396 0.064346 0 0 0 0.89683 1 46129 46129 4.3292 0 1 5262 5036 3480 3491 5846 5846 -0.10292041131719998 EPGHEWWRSMY 11 Unmodified _EPGHEWWRSMY_ 0 0 0 REV__RYR2|p.M4809Qfs*5|1|0.04|ENSG00000198626|chr1:237809025-237809026|-/CCAGGTAT|frameshift_variant REV__RYR2|p.M4809Qfs*5|1|0.04|ENSG00000198626|chr1:237809025-237809026|-/CCAGGTAT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 739.3203125 2 739.319511 1476.62447 NaN NaN NaN NaN NaN NaN NaN 87.342 1 87.342 86.842 87.842 0 0 0 0 1.0072 1 45011 45011 1.3295 0 1 + 5263 14344 3481 3492 5847 5847 -0.09477844945081415 EPGISGSSDVL 11 Unmodified _EPGISGSSDVL_ 0 0 0 REV__COL6A6|p.Y853Efs*25|1|0.05|ENSG00000206384|chr3:130570971-130570972|-/AGAGGAAGAGAGAG|frameshift_variant REV__COL6A6|p.Y853Efs*25|1|0.05|ENSG00000206384|chr3:130570971-130570972|-/AGAGGAAGAGAGAG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.761962890625 2 530.761486 1059.50842 NaN NaN NaN NaN NaN NaN NaN 88.881 1 88.933 88.433 89.433 0.052155 0 0 0 0.98464 1 45412 45412 8.1555 0.24537 1 + 5264 10070 3482 3493 5848 5848 -0.018954652441152575 EPGKTHRAM 9 Unmodified _EPGKTHRAM_ 0 0 0 REV__ENSG00000170925|ENST00000302917|TEX13B REV__ENSG00000170925|ENST00000302917|TEX13B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.7606811523438 2 513.761101 1025.50765 NaN NaN NaN NaN NaN NaN NaN 90.973 1 91.048 90.548 91.548 0.075279 0 0 0 0.86044 1 47015 47015 7.2892 2.5332 1 + 5265 13463 3483 3494 5849 5849 -0.004085383741994519 EPGLLGLAGWW 11 Unmodified _EPGLLGLAGWW_ 0 0 0 REV__ENST00000333055.8_1_5:180218346-180218421:-|nuORF REV__ENST00000333055.8_1_5:180218346-180218421:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 599.9273071289062 2 599.816399 1197.61824 NaN NaN NaN NaN NaN NaN NaN 92.8 1 92.8 92.3 93.3 0 0 0 0 0.94174 1 49396 49396 12.241 3.4953 1 + 5266 15394 3484 3495 5850 5850 0.027340048857013244 EPGLRLSACDT 11 Unmodified _EPGLRLSACDT_ 0 0 0 ENST00000428660.1_1_7:7998187-8009451:-|nuORF ENST00000428660.1_1_7:7998187-8009451:-|nuORF ENST00000428660.1_1_7:7998187-8009451:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.2212524414062 2 581.282063 1160.54957 NaN NaN NaN NaN NaN NaN NaN 89.065 1 89.117 88.617 89.617 0.052155 0 0 0 1.0044 1 45551 45551 4.897 0.95262 1 5267 7825 3485 3496 5851 5851 -0.024280274763214038 EPGLSRTRVP 10 Unmodified _EPGLSRTRVP_ 0 0 0 ENST00000592982.2_1_19:33793807-33793969:+|nuORF ENST00000592982.2_1_19:33793807-33793969:+|nuORF ENST00000592982.2_1_19:33793807-33793969:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 555.8864135742188 2 556.314554 1110.61456 NaN NaN NaN NaN NaN NaN NaN 94.776 1 94.858 94.358 95.358 0.082001 0 0 0 0.97102 1 49946 49946 10.074 2.7847 1 5268 9251 3486 3497 5852 5852 0.0636733511184957 EPGQKLLFRNG 11 Unmodified _EPGQKLLFRNG_ 0 0 0 nc|ENSG00000010030|Q9Y603-5|ETV7;nc|ENSG00000010030|Q9Y603-6|ETV7 nc|ENSG00000010030|Q9Y603-5|ETV7 nc|ENSG00000010030|Q9Y603-5|ETV7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 629.899169921875 2 629.848761 1257.68297 NaN NaN NaN NaN NaN NaN NaN 92.783 1 93.035 92.535 93.535 0.25253 0 0 0 1.0044 1 42648 42648 4.897 0.95262 1 5269 9535 3487 3498 5853 5853 0.06443579691722334 EPGRLDGDQKS 11 Unmodified _EPGRLDGDQKS_ 0 0 0 REV__nc|ENSG00000146147|Q5VWP3-4|MLIP REV__nc|ENSG00000146147|Q5VWP3-4|MLIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.2741088867188 2 601.294016 1200.57348 NaN NaN NaN NaN NaN NaN NaN 83.819 1 83.848 83.348 84.348 0.028603 0 0 0 0.98464 1 41680 41680 8.1555 3.2585 1 + 5270 12462 3488 3499 5854 5854 -0.01878470718270364 EPGRRRRLRRR 11 Unmodified _EPGRRRRLRRR_ 0 0 0 REV__ENST00000379026.6_1_19:36133589-36134644:+|nuORF REV__ENST00000379026.6_1_19:36133589-36134644:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 753.984619140625 2 754.46689 1506.91923 NaN NaN NaN NaN NaN NaN NaN 73.692 1 74.39 73.89 74.89 0.69881 0 0 0 1.008 1 35555 35555 0.35063 0.35063 1 + 5271 15858 3489 3500 5855 5855 0.18604369099375617 EPGSAAWATLG 11 Unmodified _EPGSAAWATLG_ 0 0 0 ENST00000450764.6_3_19:12831828-12832152:-|nuORF ENST00000450764.6_3_19:12831828-12832152:-|nuORF ENST00000450764.6_3_19:12831828-12832152:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1060.5126953125 1 1059.51055 1058.50327 2.8508 0.0030205 -4.0451 -0.0042859 -1.1943 -0.0012654 1060.5075079235407 88.603 0.033463 88.603 88.587 88.62 0 6 4 2 0 0 0 0.77056 1 46026 46026 8.1555 1.4324 1 15293000 5272 8012 3490 3501 5856 5856 -0.023637243161147126 EPGSAAWATLG 11 Unmodified _EPGSAAWATLG_ 0 0 0 ENST00000450764.6_3_19:12831828-12832152:-|nuORF ENST00000450764.6_3_19:12831828-12832152:-|nuORF ENST00000450764.6_3_19:12831828-12832152:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 1059.51055 1058.50327 2.6195 0.0027754 -0.087522 -9.2731E-05 2.532 0.0026826 1060.512456994606 88.596 0.045189 88.648 88.635 88.681 0.052155 0.022602 0.0010033 NaN 8.1555 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 15706000 5273 8012 3490 3501 -0.023637243161147126 EPGSCRACP 9 Unmodified _EPGSCRACP_ 0 0 0 REV__nc|ENSG00000163703|Q96HD1-2|CRELD1 REV__nc|ENSG00000163703|Q96HD1-2|CRELD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 919.38037109375 1 919.376048 918.368771 3.3339 0.0030651 -0.90335 -0.00083052 2.4305 0.0022346 919.3758282813808 91.65 0.038559 91.65 91.636 91.674 0 5 4 2 0 0 0 0.80651 1 48485 48485 7.2892 0.93513 1 10923000 + 5274 18009 3491 3502 5857 5857 -0.09367824334003672 EPGSCRACP 9 Unmodified _EPGSCRACP_ 0 0 0 REV__nc|ENSG00000163703|Q96HD1-2|CRELD1 REV__nc|ENSG00000163703|Q96HD1-2|CRELD1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 919.376048 918.368771 3.3339 0.0030651 -0.90335 -0.00083052 2.4305 0.0022346 919.3758282813808 91.65 0.038559 91.65 91.636 91.674 0 0 0 NaN 7.2892 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 10923000 + 5275 18009 3491 3502 -0.09367824334003672 EPGSDESESI 10 Unmodified _EPGSDESESI_ 0 0 0 REV__nc|ENSG00000006459|Q6ZMT4-2|KDM7A REV__nc|ENSG00000006459|Q6ZMT4-2|KDM7A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 525.2174682617188 2 525.217108 1048.41966 NaN NaN NaN NaN NaN NaN NaN 50.524 1 51.342 50.842 51.842 0.81738 0 0 0 0.99225 1 23013 23013 6.7232 1.9672 1 + 5276 10190 3492 3503 5858 5858 -0.10260925274451438 EPGSRHRLWY 10 Unmodified _EPGSRHRLWY_ 0 0 0 REV__CNOT8|p.C256Wfs*12|1|0.2|ENSG00000155508|chr5:154875326-154875339|TGTGGGCGGCTCTA/-|frameshift_variant REV__CNOT8|p.C256Wfs*12|1|0.2|ENSG00000155508|chr5:154875326-154875339|TGTGGGCGGCTCTA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 650.7770385742188 2 650.830903 1299.64725 NaN NaN NaN NaN NaN NaN NaN 89.269 1 89.269 88.769 89.769 0 0 0 0 0.99774 1 46576 46576 3.5965 0.60125 1 + 5277 10066 3493 3504 5859 5859 0.009415422347046842 EPGSSREHDHD 11 Unmodified _EPGSSREHDHD_ 0 0 0 ENSG00000186393|ENST00000335552|KRT26;CON__Q7Z3Y9 ENSG00000186393|ENST00000335552|KRT26 ENSG00000186393|ENST00000335552|KRT26 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.4378051757812 2 633.260705 1264.50686 NaN NaN NaN NaN NaN NaN NaN 98.673 1 98.973 98.473 99.473 0.29987 0 0 0 1.0041 1 45488 45488 5.2969 0 1 + 5278 240 3494 3505 5860 5860 -0.11481706280187609 EPGWSFCEYF 10 Unmodified _EPGWSFCEYF_ 0 0 0 nc|ENSG00000160218|P48553-2|TRAPPC10;ENSG00000160218|ENST00000291574|TRAPPC10 nc|ENSG00000160218|P48553-2|TRAPPC10 nc|ENSG00000160218|P48553-2|TRAPPC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 632.8390502929688 2 632.752607 1263.49066 NaN NaN NaN NaN NaN NaN NaN 96.592 1 96.592 96.092 97.092 0 0 0 0 0.99774 1 52314 52314 3.5965 0 1 5279 4049 3495 3506 5861 5861 -0.13054503770649717 EPHCCENNET 10 Unmodified _EPHCCENNET_ 0 0 0 REV__ENSG00000140443|ENST00000650285|IGF1R REV__ENSG00000140443|ENST00000650285|IGF1R MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.2080078125 2 588.208237 1174.40192 NaN NaN NaN NaN NaN NaN NaN 97.185 1 97.474 96.974 97.974 0.28923 0 0 0 1.0001 1 44639 44639 1.6526 0 1 + 5280 12246 3496 3507 5862 5862 -0.17830287072638384 EPHLLRSRLL 10 Unmodified _EPHLLRSRLL_ 0 0 0 REV__ENST00000462326.5_1_7:55503854-55639964:-|nuORF REV__ENST00000462326.5_1_7:55503854-55639964:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.7811889648438 2 617.374946 1232.73534 3.8555 0.0023803 1.4823 0.00091513 5.3378 0.0032954 617.8755357145708 56.767 0.066002 56.767 56.738 56.804 0 5 4 2 0 0 0 0.12676 1 26144 26144 3.9444 0.94915 1 754360 + 5281 16154 3497 3508 5863 5863 0.12828162825326217 EPHSGLSSL 9 Unmodified _EPHSGLSSL_ 0 0 0 REV__ENST00000297107.10_1_5:153798899-153799208:+|nuORF REV__ENST00000297107.10_1_5:153798899-153799208:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.73382568359375 2 463.732532 925.45051 2.6366 0.0012227 0.20418 9.4683E-05 2.8408 0.0013174 463.7326395431211 33.285 0.43338 33.285 32.962 33.396 0 56 34 2 0 0 0 0.0080831 2 15022 15022;15071 85.357 18.013 1 2796600 + 5282 15162 3498 3509 5864;5865 5864 -0.015196823788983238 EPHSGLSSL 9 Unmodified _EPHSGLSSL_ 0 0 0 REV__ENST00000297107.10_1_5:153798899-153799208:+|nuORF REV__ENST00000297107.10_1_5:153798899-153799208:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.7340393066406 2 463.732532 925.45051 2.616 0.0012131 0.14155 6.5641E-05 2.7576 0.0012788 463.7326108358264 32.182 0.52786 32.97 32.815 33.343 0.78795 125 55 3 0 0 0 0.0080831 3 14497 14497;14539;14583 85.357 18.013 1 2067400 + 5283 15162 3498 3509 5866;5867;5868 5866 -0.015196823788983238 EPHSGLSSL 9 Unmodified _EPHSGLSSL_ 0 0 0 REV__ENST00000297107.10_1_5:153798899-153799208:+|nuORF REV__ENST00000297107.10_1_5:153798899-153799208:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.73370361328125 2 463.732532 925.45051 2.8439 0.0013188 0.46606 0.00021613 3.31 0.001535 463.73268965631945 33.017 0.58596 33.271 33.032 33.618 0.25389 57 25 3 0 0 0 0.028312 2 14980 14980;15126 57.471 6.6163 1 999150 + 5284 15162 3498 3509 5869;5870 5869 -0.015196823788983238 EPHSGLSSL 9 Unmodified _EPHSGLSSL_ 0 0 0 REV__ENST00000297107.10_1_5:153798899-153799208:+|nuORF REV__ENST00000297107.10_1_5:153798899-153799208:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.73394775390625 2 463.732532 925.45051 2.7481 0.0012744 0.67181 0.00031154 3.4199 0.0015859 463.73279095993786 32.509 0.64085 33.127 32.862 33.503 0.61831 61 30 3 0 0 0 0.020718 1 14970 14970 67.344 9.8725 1 605770 + 5285 15162 3498 3509 5871 5871 -0.015196823788983238 EPHSGLSSL 9 Unmodified _EPHSGLSSL_ 0 0 0 REV__ENST00000297107.10_1_5:153798899-153799208:+|nuORF REV__ENST00000297107.10_1_5:153798899-153799208:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 463.732532 925.45051 2.6366 0.0012227 0.20418 9.4683E-05 2.8408 0.0013174 463.7326395431211 33.285 0.43338 33.285 32.962 33.396 0 0.12209 -0.00014092 NaN 85.357 56 34 2 NaN NaN NaN NaN 0 NaN NaN 0 2796600 + 5286 15162 3498 3509 -0.015196823788983238 EPHSGLSSL 9 Unmodified _EPHSGLSSL_ 0 0 0 REV__ENST00000297107.10_1_5:153798899-153799208:+|nuORF REV__ENST00000297107.10_1_5:153798899-153799208:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 463.732532 925.45051 2.616 0.0012131 0.14155 6.5641E-05 2.7576 0.0012788 463.7326108358264 32.182 0.52786 32.97 32.815 33.343 0.78795 -0.19337 -0.000199 NaN 85.357 125 55 3 NaN NaN NaN NaN 0 NaN NaN 0 2067400 + 5287 15162 3498 3509 -0.015196823788983238 EPHSGLSSL 9 Unmodified _EPHSGLSSL_ 0 0 0 REV__ENST00000297107.10_1_5:153798899-153799208:+|nuORF REV__ENST00000297107.10_1_5:153798899-153799208:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 463.732532 925.45051 2.8439 0.0013188 0.46606 0.00021613 3.31 0.001535 463.73268965631945 33.017 0.58596 33.271 33.032 33.618 0.25389 0.10736 0.00010197 NaN 85.357 57 25 3 NaN NaN NaN NaN 0 NaN NaN 0 999150 + 5288 15162 3498 3509 -0.015196823788983238 EPHSGLSSL 9 Unmodified _EPHSGLSSL_ 0 0 0 REV__ENST00000297107.10_1_5:153798899-153799208:+|nuORF REV__ENST00000297107.10_1_5:153798899-153799208:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 463.732532 925.45051 2.7481 0.0012744 0.67181 0.00031154 3.4199 0.0015859 463.73279095993786 32.509 0.64085 33.127 32.862 33.503 0.61831 -0.03607 0.0002928 NaN 85.357 61 30 3 NaN NaN NaN NaN 0 NaN NaN 0 605770 + 5289 15162 3498 3509 -0.015196823788983238 EPHVKEVCSDF 11 Unmodified _EPHVKEVCSDF_ 0 0 0 REV__ENSG00000198837|ENST00000361217|DENND4B REV__ENSG00000198837|ENST00000361217|DENND4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.4371948242188 2 645.29517 1288.57579 NaN NaN NaN NaN NaN NaN NaN 55.979 1 56.766 56.266 57.266 0.78711 0 0 0 1.0059 1 25577 25577 2.9952 0.26005 1 + 5290 14365 3499 3510 5872 5872 -0.056957583048642846 EPILSIFFSMT 11 Unmodified _EPILSIFFSMT_ 0 0 0 REV__ENSG00000113211|ENST00000231136|PCDHB6 REV__ENSG00000113211|ENST00000231136|PCDHB6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 642.9869384765625 2 642.830857 1283.64716 NaN NaN NaN NaN NaN NaN NaN 86.349 1 86.379 85.879 86.879 0.030289 0 0 0 1.0059 1 43429 43429 2.9952 0.49676 1 + 5291 11291 3500 3511 5873 5873 0.01668361399811147 EPILVDFKT 9 Unmodified _EPILVDFKT_ 0 0 0 nc|ENSG00000159140|P18583-2|SON;nc|ENSG00000159140|P18583-7|SON;ENSG00000159140|ENST00000356577|SON;nc|ENSG00000159140|P18583-5|SON;nc|ENSG00000159140|P18583-9|SON nc|ENSG00000159140|P18583-2|SON nc|ENSG00000159140|P18583-2|SON MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.2998046875 2 531.297507 1060.58046 3.4677 0.0018424 -0.57608 -0.00030607 2.8916 0.0015363 531.2974180831378 97.803 0.093063 98.402 98.368 98.461 0.59885 10 9 2 0 0 0 0.83994 1 45008 45008 6.7232 0.51738 1 12092000 5292 4010 3501 3512 5874 5874 0.05259493900234702 EPIPEKRHLS 10 Unmodified _EPIPEKRHLS_ 0 0 0 REV__nc|ENSG00000164694|Q4ZHG4-2|FNDC1 REV__nc|ENSG00000164694|Q4ZHG4-2|FNDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 603.5271606445312 2 603.335487 1204.65642 NaN NaN NaN NaN NaN NaN NaN 86.016 1 86.046 85.546 86.546 0.030289 0 0 0 0.99812 1 43175 43175 3.2813 0 1 + 5293 13108 3502 3513 5875 5875 0.06227890800369096 EPIPIKKLVL 10 Unmodified _EPIPIKKLVL_ 0 0 0 REV__nc|ENSG00000142675|Q969H4|CNKSR1 REV__nc|ENSG00000142675|Q969H4|CNKSR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.3858642578125 2 575.383917 1148.75328 NaN NaN NaN NaN NaN NaN NaN 107.4 1 107.4 106.9 107.9 0 0 0 0 1.0001 1 58911 58911 1.6526 1.302 1 + 5294 12342 3503 3514 5876 5876 0.18485485027463255 EPKAVLKKFRE 11 Unmodified _EPKAVLKKFRE_ 0 0 0 nc|ENSG00000161905|P16050-2|ALOX15;ENSG00000161905|ENST00000293761|ALOX15 nc|ENSG00000161905|P16050-2|ALOX15 nc|ENSG00000161905|P16050-2|ALOX15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 672.9052734375 2 672.903537 1343.79252 NaN NaN NaN NaN NaN NaN NaN 90.163 1 90.163 89.663 90.663 0 0 0 0 1.0061 1 47304 47304 2.7352 0 1 5295 4107 3504 3515 5877 5877 0.13437585311021394 EPKEIHLY 8 Unmodified _EPKEIHLY_ 0 0 0 ENST00000378823.7_1_5:131895021-131911490:+|nuORF ENST00000378823.7_1_5:131895021-131911490:+|nuORF ENST00000378823.7_1_5:131895021-131911490:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.2778930664062 2 514.7742 1027.53385 3.6275 0.0018674 0.6184 0.00031833 4.2459 0.0021857 515.2743497835193 40.789 0.17813 41.434 41.316 41.494 0.64451 14 9 2 0 0 0 0.13619 1 18607 18607 14.838 1.3304 1 386510 5296 7438 3505 3516 5878 5878 0.021180540689556437 EPKFRKLIYY 10 Unmodified _EPKFRKLIYY_ 0 0 0 ENST00000481425.5_1_7:86825954-86846082:-|nuORF;ENSG00000135185|ENST00000257637|TMEM243 ENST00000481425.5_1_7:86825954-86846082:-|nuORF ENST00000481425.5_1_7:86825954-86846082:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 678.8899536132812 2 678.887355 1355.76016 NaN NaN NaN NaN NaN NaN NaN 86.449 1 86.449 85.949 86.949 0 0 0 0 1.0015 1 44320 44320 0.45834 0 1 5297 2852 3506 3517 5879 5879 0.0965079790805703 EPKIHIDKW 9 Unmodified _EPKIHIDKW_ 0 0 0 REV__ENSG00000145331|ENST00000394876|TRMT10A REV__ENSG00000145331|ENST00000394876|TRMT10A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.3226928710938 2 583.321848 1164.62914 NaN NaN NaN NaN NaN NaN NaN 16.952 1 16.952 16.452 17.452 0 0 0 0 0.91206 1 7521 7521 0.6015 0 1 + 5298 12437 3507 3518 5880 5880 0.05341407259970765 EPKLKVDL 8 Unmodified _EPKLKVDL_ 0 0 0 nc|ENSG00000142945|Q99661-2|KIF2C;ENSG00000142945|ENST00000372224|KIF2C nc|ENSG00000142945|Q99661-2|KIF2C nc|ENSG00000142945|Q99661-2|KIF2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.2884521484375 2 471.286943 940.559333 2.8855 0.0013599 0.8806 0.00041502 3.7661 0.0017749 471.28746041646696 38.505 0.42738 39.139 38.943 39.37 0.63389 33 15 3 0 0 0 0.21358 1 17600 17600 41.84 3.8656 1 518950 5299 3335 3508 3519 5881 5881 0.0866752859137705 EPKLKYERL 9 Unmodified _EPKLKYERL_ 0 0 0 nc|ENSG00000006715|P49754-2|VPS41;nc|ENSG00000006715|P49754-3|VPS41;ENSG00000006715|ENST00000310301|VPS41 nc|ENSG00000006715|P49754-2|VPS41 nc|ENSG00000006715|P49754-2|VPS41 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 392.5658264160156 3 392.564279 1174.67101 NaN NaN NaN NaN NaN NaN NaN 24.176 1 24.176 23.676 24.676 0 0 0 0 0.34849 1 10868 10868 29.437 15.822 1 5300 356 3509 3520 5882 5882 0.09065962948511697 EPKLKYERL 9 Unmodified _EPKLKYERL_ 0 0 0 nc|ENSG00000006715|P49754-2|VPS41;nc|ENSG00000006715|P49754-3|VPS41;ENSG00000006715|ENST00000310301|VPS41 nc|ENSG00000006715|P49754-2|VPS41 nc|ENSG00000006715|P49754-2|VPS41 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 392.56549072265625 3 392.564279 1174.67101 NaN NaN NaN NaN NaN NaN NaN 23.141 1 23.826 23.326 24.326 0.68536 0 0 0 0.40535 1 10310 10310 21.799 10.901 1 5301 356 3509 3520 5883 5883 0.09065962948511697 EPKNLDYIRL 10 Unmodified _EPKNLDYIRL_ 0 0 0 REV__ENSG00000023734|ENST00000419869|STRAP REV__ENSG00000023734|ENST00000419869|STRAP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 630.7935791015625 2 630.85097 1259.68739 NaN NaN NaN NaN NaN NaN NaN 99.67 1 99.978 99.478 100.48 0.30835 0 0 0 0.99812 1 46068 46068 3.2813 0 1 + 5302 10271 3510 3521 5884 5884 0.06793044114601798 EPKQKRWKRK 10 Unmodified _EPKQKRWKRK_ 0 0 0 REV__ENST00000460832.1_1_3:113218243-113233639:-|nuORF REV__ENST00000460832.1_1_3:113218243-113233639:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 692.4228515625 2 692.42022 1382.82589 4.1634 0.0028828 -1.6945 -0.0011733 2.4689 0.0017095 692.9203842690611 100.9 0.10918 101.5 101.42 101.53 0.59717 5 3 2 0 0 0 0.94099 1 46729 46729 1.6526 0.32309 1 849950 + 5303 13008 3511 3522 5885 5885 0.14978631873577797 EPKRLKKHL 9 Unmodified _EPKRLKKHL_ 0 0 0 ENSG00000132321|ENST00000409907|IQCA1;nc|ENSG00000132321|Q86XH1-5|IQCA1 ENSG00000132321|ENST00000409907|IQCA1 ENSG00000132321|ENST00000409907|IQCA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 574.8238525390625 2 574.866757 1147.71896 NaN NaN NaN NaN NaN NaN NaN 102.31 1 102.91 102.41 103.41 0.59759 0 0 0 0.90611 1 47358 47358 2.0598 0.40713 1 5304 2690 3512 3523 5886 5886 0.15101081659236115 EPKRRKRELTR 11 Unmodified _EPKRRKRELTR_ 0 0 0 REV__ENST00000305105.2_1_7:100865971-100866960:+|nuORF REV__ENST00000305105.2_1_7:100865971-100866960:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 734.982177734375 2 734.94459 1467.87463 NaN NaN NaN NaN NaN NaN NaN 94.078 1 94.078 93.578 94.578 0 0 0 0 1.008 1 50367 50367 0.35063 0 1 + 5305 15224 3513 3524 5887 5887 0.15940500442684424 EPKRRRKLKKE 11 Unmodified _EPKRRRKLKKE_ 0 0 0 REV__ENST00000591756.1_1_17:76115376-76116864:-|nuORF REV__ENST00000591756.1_1_17:76115376-76116864:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 734.4463500976562 2 734.465158 1466.91576 NaN NaN NaN NaN NaN NaN NaN 98.788 1 99.087 98.587 99.587 0.29987 0 0 0 1.0072 1 45548 45548 1.3295 0 1 + 5306 12296 3514 3525 5888 5888 0.2009826148216689 EPKVKIDL 8 Unmodified _EPKVKIDL_ 0 0 0 ENSG00000013392|ENST00000369724|RWDD2A ENSG00000013392|ENST00000369724|RWDD2A ENSG00000013392|ENST00000369724|RWDD2A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 471.2885437011719 2 471.286943 940.559333 2.8848 0.0013596 1.2152 0.00057272 4.1 0.0019323 471.2876584734019 39.36 0.23531 39.36 39.23 39.465 0 17 8 3 0 0 0 0.11064 1 17860 17860 27.629 0 1 486520 5307 431 3515 3526 5889 5889 0.0866752859137705 EPKVKIDL 8 Unmodified _EPKVKIDL_ 0 0 0 ENSG00000013392|ENST00000369724|RWDD2A ENSG00000013392|ENST00000369724|RWDD2A ENSG00000013392|ENST00000369724|RWDD2A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 471.0245361328125 2 471.286943 940.559333 2.8675 0.0013514 1.5882 0.00074852 4.4557 0.0020999 471.28781659983287 38.243 0.21118 39.039 38.904 39.115 0.79552 17 7 3 0 0 0 0.085778 1 17299 17299 24.021 3.5669 1 367270 5308 431 3515 3526 5890 5890 0.0866752859137705 EPKVKIDL 8 Unmodified _EPKVKIDL_ 0 0 0 ENSG00000013392|ENST00000369724|RWDD2A ENSG00000013392|ENST00000369724|RWDD2A ENSG00000013392|ENST00000369724|RWDD2A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 471.286943 940.559333 2.7733 0.001307 1.056 0.00049768 3.8293 0.0018047 471.2875729294211 38.969 0.28639 39.233 39.058 39.344 0.26408 0.040204 1.233E-05 NaN 41.84 19 11 2 NaN NaN NaN NaN 0 NaN NaN 0 708100 5309 431 3515 3526 0.0866752859137705 EPKVLVPKIL 10 Unmodified _EPKVLVPKIL_ 0 0 0 REV__ENSG00000166535|ENST00000299698|A2ML1 REV__ENSG00000166535|ENST00000299698|A2ML1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.380859375 2 568.376092 1134.73763 NaN NaN NaN NaN NaN NaN NaN 86.767 1 86.797 86.297 87.297 0.030289 0 0 0 0.99812 1 43748 43748 3.2813 0 1 + 5310 13246 3516 3527 5891 5891 0.17565198510442315 EPLAESITDVL 11 Unmodified _EPLAESITDVL_ 0 0 0 ENSG00000143384|ENST00000369026|MCL1 ENSG00000143384|ENST00000369026|MCL1 ENSG00000143384|ENST00000369026|MCL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 593.81640625 2 593.813719 1185.61288 3.7633 0.0022347 -0.25955 -0.00015413 3.5038 0.0020806 593.8136856314244 85.477 0.30347 85.726 85.54 85.844 0.24857 33 14 3 0 0 0 0.0013644 2 39353 39302;39353 78.728 51.099 1 1225700 5311 3363 3517 3528 5892;5893 5893 0.02750236512565607 EPLAESITDVL 11 Unmodified _EPLAESITDVL_ 0 0 0 ENSG00000143384|ENST00000369026|MCL1 ENSG00000143384|ENST00000369026|MCL1 ENSG00000143384|ENST00000369026|MCL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 593.8147583007812 2 593.813719 1185.61288 4.0277 0.0023917 -1.1284 -0.00067004 2.8993 0.0017217 593.8128217987597 84.908 0.36478 85.574 85.364 85.729 0.66566 29 17 2 0 0 0 0.024966 2 39126 39066;39126 56.177 33.441 1 897890 5312 3363 3517 3528 5894;5895 5895 0.02750236512565607 EPLCETHLL 9 Unmodified _EPLCETHLL_ 0 0 0 REV__nc|ENSG00000189056|P78509-3|RELN REV__nc|ENSG00000189056|P78509-3|RELN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.7678833007812 2 527.765517 1053.51648 NaN NaN NaN NaN NaN NaN NaN 83.067 1 83.314 82.814 83.814 0.24722 0 0 0 0.86044 1 38237 38237 7.2892 0.56607 1 + 5313 14170 3518 3529 5896 5896 -0.008136095283589384 EPLKILLRLK 10 Unmodified _EPLKILLRLK_ 0 0 0 REV__ENST00000495849.5_1_2:191897681-192012929:-|nuORF REV__ENST00000495849.5_1_2:191897681-192012929:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.8993530273438 2 611.915916 1221.81728 NaN NaN NaN NaN NaN NaN NaN 82.174 1 82.174 81.674 82.674 0 0 0 0 0.99774 1 41051 41051 3.5965 1.9439 1 + 5314 12160 3519 3530 5897 5897 0.21524265184393698 EPLKIRRRKKR 11 Unmodified _EPLKIRRRKKR_ 0 0 0 REV__ENST00000530163.1_1_11:74340223-74351808:+|nuORF REV__ENST00000530163.1_1_11:74340223-74351808:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 740.4877319335938 2 740.488968 1478.96338 NaN NaN NaN NaN NaN NaN NaN 84.724 1 84.752 84.252 85.252 0.028603 0 0 0 1.0082 1 42328 42328 0 0 1 + 5315 10558 3520 3531 5898 5898 0.2430596047297513 EPLKIRRRKKR 11 Unmodified _EPLKIRRRKKR_ 0 0 0 REV__ENST00000530163.1_1_11:74340223-74351808:+|nuORF REV__ENST00000530163.1_1_11:74340223-74351808:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 740.4880981445312 2 740.488968 1478.96338 NaN NaN NaN NaN NaN NaN NaN 51.637 1 52.296 51.796 52.796 0.65956 0 0 0 1.0082 1 23613 23613 0 0 1 + 5316 10558 3520 3531 5899 5899 0.2430596047297513 EPLKRFLRWYF 11 Unmodified _EPLKRFLRWYF_ 0 0 0 REV__ENST00000502508.5_1_5:33441192-33446243:+|nuORF REV__ENST00000502508.5_1_5:33441192-33446243:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.9557495117188 3 518.957511 1553.8507 NaN NaN NaN NaN NaN NaN NaN 86.428 1 86.458 85.958 86.958 0.030289 0 0 0 1.0072 1 43490 43490 0.45452 0 1 + 5317 16892 3521 3532 5900 5900 0.09593266956312618 EPLKVRNRKA 10 Unmodified _EPLKVRNRKA_ 0 0 0 REV__ENSG00000197241|ENST00000400906|SLC2A7 REV__ENSG00000197241|ENST00000400906|SLC2A7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 606.3732299804688 2 605.872571 1209.73059 4.3836 0.0026559 -1.2973 -0.00078601 3.0863 0.0018699 605.8716530204588 95.918 0.43704 96.186 96.017 96.454 0.2675 60 22 4 0 0 0 0.90778 1 44176 44176 6.2058 0.9089 1 2162500 + 5318 14268 3522 3533 5901 5901 0.13411278682565353 EPLKVRNRKA 10 Unmodified _EPLKVRNRKA_ 0 0 0 REV__ENSG00000197241|ENST00000400906|SLC2A7 REV__ENSG00000197241|ENST00000400906|SLC2A7 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 605.872571 1209.73059 3.9542 0.0023957 -0.88365 -0.00053538 3.0705 0.0018603 605.8717670858961 95.408 0.53008 96.015 95.804 96.334 0.60769 -0.085169 0.00019588 NaN 6.2058 75 28 4 NaN NaN NaN NaN 0 NaN NaN 0 2670900 + 5319 14268 3522 3533 0.13411278682565353 EPLPIPRIK 9 Unmodified _EPLPIPRIK_ 0 0 0 ENSG00000184210|ENST00000333026|DGAT2L6 ENSG00000184210|ENST00000333026|DGAT2L6 ENSG00000184210|ENST00000333026|DGAT2L6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.7938232421875 2 531.837134 1061.65972 NaN NaN NaN NaN NaN NaN NaN 98.697 1 98.997 98.497 99.497 0.29987 0 0 0 0.87786 1 45502 45502 6.7232 2.3939 1 5320 5427 3523 3534 5902 5902 0.1313518564502374 EPLPPRPW 8 Unmodified _EPLPPRPW_ 0 0 0 REV__ENST00000478328.1_1_7:127231492-127231768:+|nuORF REV__ENST00000478328.1_1_7:127231492-127231768:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.2730407714844 2 496.271627 990.528701 2.8925 0.0014355 0.20558 0.00010203 3.0981 0.0015375 496.27167198083504 46.03 0.2389 46.03 45.912 46.151 0 29 12 3 0 0 0 0.61796 1 21108 21108 12.532 0.89125 1 1521000 + 5321 16670 3524 3535 5903 5903 0.03305794996992972 EPLPPRPW 8 Unmodified _EPLPPRPW_ 0 0 0 REV__ENST00000478328.1_1_7:127231492-127231768:+|nuORF REV__ENST00000478328.1_1_7:127231492-127231768:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.27337646484375 2 496.271627 990.528701 3.0243 0.0015009 0.21287 0.00010564 3.2372 0.0016065 496.27157722775763 44.845 0.33054 45.666 45.505 45.835 0.82074 37 14 3 0 0 0 0.4188 1 20408 20408 26.884 2.2098 1 1139600 + 5322 16670 3524 3535 5904 5904 0.03305794996992972 EPLRPAEAPH 10 Unmodified _EPLRPAEAPH_ 0 0 0 REV__ENSG00000283787|ENST00000640310|PRR33 REV__ENSG00000283787|ENST00000640310|PRR33 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.7924194335938 2 558.793455 1115.57236 NaN NaN NaN NaN NaN NaN NaN 88.927 1 88.979 88.479 89.479 0.052155 0 0 0 0.97944 1 45446 45446 8.7454 1.4562 1 + 5323 14769 3525 3536 5905 5905 0.01919359703470036 EPLSFKKEAV 10 Unmodified _EPLSFKKEAV_ 0 0 0 ENSG00000124491|ENST00000264870|F13A1 ENSG00000124491|ENST00000264870|F13A1 ENSG00000124491|ENST00000264870|F13A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.3238525390625 2 574.321514 1146.62847 NaN NaN NaN NaN NaN NaN NaN 96.619 1 96.619 96.119 97.119 0 0 0 0 0.95729 1 52337 52337 12.241 1.4167 1 5324 2361 3526 3537 5906 5906 0.061025678202895506 EPLSHRGLPR 10 Unmodified _EPLSHRGLPR_ 0 0 0 ENSG00000159842|ENST00000302538|ABR ENSG00000159842|ENST00000302538|ABR ENSG00000159842|ENST00000302538|ABR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.1936645507812 2 581.327996 1160.64144 NaN NaN NaN NaN NaN NaN NaN 94.883 1 95.501 95.001 96.001 0.61736 0 0 0 0.97944 1 43634 43634 8.7454 2.0222 1 5325 4036 3527 3538 5907 5907 0.06754443723048098 EPLVRQVL 8 Unmodified _EPLVRQVL_ 0 0 0 ENSG00000109111|ENST00000314616|SUPT6H;nc|ENSG00000109111|Q7KZ85-3|SUPT6H ENSG00000109111|ENST00000314616|SUPT6H ENSG00000109111|ENST00000314616|SUPT6H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.2935791015625 2 477.292559 952.570566 3.002 0.0014328 0.38159 0.00018213 3.3836 0.001615 477.2924365335758 48.294 0.32751 48.294 48.061 48.389 0 32 17 2 0 0 0 0.077224 2 22121 22077;22121 56.541 9.6204 1 1654700 5326 1668 3528 3539 5908;5909 5909 0.09238350685518526 EPLVRQVL 8 Unmodified _EPLVRQVL_ 0 0 0 ENSG00000109111|ENST00000314616|SUPT6H;nc|ENSG00000109111|Q7KZ85-3|SUPT6H ENSG00000109111|ENST00000314616|SUPT6H ENSG00000109111|ENST00000314616|SUPT6H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.2940673828125 2 477.292559 952.570566 2.8741 0.0013718 0.34282 0.00016363 3.2169 0.0015354 477.292419828018 47.245 0.32245 48.074 47.878 48.201 0.82915 39 18 3 0 0 0 0.13778 2 21502 21502;21553 49.669 9.2203 1 1233800 5327 1668 3528 3539 5910;5911 5910 0.09238350685518526 EPLVRQVL 8 Unmodified _EPLVRQVL_ 0 0 0 ENSG00000109111|ENST00000314616|SUPT6H;nc|ENSG00000109111|Q7KZ85-3|SUPT6H ENSG00000109111|ENST00000314616|SUPT6H ENSG00000109111|ENST00000314616|SUPT6H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 477.294677734375 2 477.292559 952.570566 3.2301 0.0015417 0.39518 0.00018861 3.6253 0.0017303 477.2926162776525 48.09 0.36866 48.352 48.162 48.531 0.26209 38 14 4 0 0 0 0.037436 2 21950 21950;22013 70.716 15.942 1 2901800 5328 1668 3528 3539 5912;5913 5912 0.09238350685518526 EPLVRQVL 8 Unmodified _EPLVRQVL_ 0 0 0 ENSG00000109111|ENST00000314616|SUPT6H;nc|ENSG00000109111|Q7KZ85-3|SUPT6H ENSG00000109111|ENST00000314616|SUPT6H ENSG00000109111|ENST00000314616|SUPT6H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.2941589355469 2 477.292559 952.570566 3.0876 0.0014737 0.48739 0.00023263 3.575 0.0017063 477.2927523051685 47.468 0.39634 48.121 47.901 48.297 0.65356 47 16 4 0 0 0 0.022274 2 21734 21681;21734 85.357 24.967 1 2177200 5329 1668 3528 3539 5914;5915 5915 0.09238350685518526 EPLYIIEKRK 10 Unmodified _EPLYIIEKRK_ 0 0 0 REV__nc|ENSG00000166265|Q96J86-4|CYYR1 REV__nc|ENSG00000166265|Q96J86-4|CYYR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.4553833007812 2 644.884813 1287.75507 NaN NaN NaN NaN NaN NaN NaN 87.709 1 87.709 87.209 88.209 0 0 0 0 0.99774 1 45312 45312 3.5965 0.31518 1 + 5330 18027 3529 3540 5916 5916 0.12270494045401392 EPMEKEFGL 9 Unmodified _EPMEKEFGL_ 0 0 0 ENST00000492349.5_1_3:52720087-52722217:+|nuORF;ENST00000468146.5_1_3:52720039-52723083:+|nuORF;ENST00000496254.5_1_3:52720087-52724795:+|nuORF;nc|ENSG00000163938|Q9BVP2-2|GNL3;ENSG00000163938|ENST00000418458|GNL3 ENST00000492349.5_1_3:52720087-52722217:+|nuORF ENST00000492349.5_1_3:52720087-52722217:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.3077392578125 2 540.257525 1078.5005 NaN NaN NaN NaN NaN NaN NaN 52.855 1 53.658 53.158 54.158 0.80351 0 0 0 0.796 1 24086 24086 9.3831 3.1773 1 5331 4264 3530 3541 5917 5917 -0.035613157652505834 EPMFKHLKM 9 Unmodified _EPMFKHLKM_ 0 0 0 ENSG00000134698|ENST00000373210|AGO4 ENSG00000134698|ENST00000373210|AGO4 ENSG00000134698|ENST00000373210|AGO4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 580.849853515625 2 580.80138 1159.58821 NaN NaN NaN NaN NaN NaN NaN 96.222 1 96.829 96.329 97.329 0.60769 0 0 0 0.89683 1 44244 44244 4.3292 0 1 5332 2822 3531 3542 5918 5918 0.014796066244798567 EPMPWRIAFC 10 Unmodified _EPMPWRIAFC_ 0 0 0 ENST00000598084.6_2_13:47029562-47029622:-|nuORF ENST00000598084.6_2_13:47029562-47029622:-|nuORF ENST00000598084.6_2_13:47029562-47029622:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 625.73291015625 2 625.296462 1248.57837 NaN NaN NaN NaN NaN NaN NaN 101.94 1 102.25 101.75 102.75 0.31737 0 0 0 0.99812 1 47162 47162 3.2813 0.28607 1 5333 9289 3532 3543 5919 5919 -0.03597581380859083 EPNPDDPLM 9 Unmodified _EPNPDDPLM_ 0 0 0 ENST00000487227.5_1_1:202302298-202304891:-|nuORF;ENSG00000077152|ENST00000646651|UBE2T ENST00000487227.5_1_1:202302298-202304891:-|nuORF ENST00000487227.5_1_1:202302298-202304891:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.2255249023438 2 514.223682 1026.43281 3.4549 0.0017766 0.091174 4.6884E-05 3.5461 0.0018235 514.2237563196385 50.96 0.68011 50.96 50.702 51.382 0 83 34 3 0 0 0 0.0029142 3 23331 23270;23331;23379 96.111 58.137 1 2705900 5334 857 3533 3544 5920;5921;5922 5921 -0.0793476569606355 EPNPDDPLM 9 Unmodified _EPNPDDPLM_ 0 0 0 ENST00000487227.5_1_1:202302298-202304891:-|nuORF;ENSG00000077152|ENST00000646651|UBE2T ENST00000487227.5_1_1:202302298-202304891:-|nuORF ENST00000487227.5_1_1:202302298-202304891:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1027.44384765625 1 1027.44009 1026.43281 3.6653 0.0037659 0.66657 0.00068486 4.3319 0.0044508 1027.4409049744581 50.969 0.54064 50.969 50.767 51.308 0 39 25 2 0 0 0 0.023109 3 23347 23281;23347;23407 64.236 38.837 1 1035200 5335 857 3533 3544 5923;5924;5925 5924 -0.0793476569606355 EPNPDDPLM 9 Unmodified _EPNPDDPLM_ 0 0 0 ENST00000487227.5_1_1:202302298-202304891:-|nuORF;ENSG00000077152|ENST00000646651|UBE2T ENST00000487227.5_1_1:202302298-202304891:-|nuORF ENST00000487227.5_1_1:202302298-202304891:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.2255859375 2 514.223682 1026.43281 3.3202 0.0017073 -0.066544 -3.4219E-05 3.2537 0.0016731 514.2236464625238 50.173 0.76894 50.996 50.658 51.427 0.82285 85 35 3 0 0 0 0.0013204 5 22820 22766;22820;22866;22912;22954 118.89 75.036 1 2297100 5336 857 3533 3544 5926;5927;5928;5929;5930 5927 -0.0793476569606355 EPNPDDPLM 9 Unmodified _EPNPDDPLM_ 0 0 0 ENST00000487227.5_1_1:202302298-202304891:-|nuORF;ENSG00000077152|ENST00000646651|UBE2T ENST00000487227.5_1_1:202302298-202304891:-|nuORF ENST00000487227.5_1_1:202302298-202304891:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.2251586914062 2 514.223682 1026.43281 3.3257 0.0017102 0.00091455 4.7028E-07 3.3266 0.0017106 514.2237967332524 50.735 0.70766 50.997 50.697 51.404 0.26146 88 34 4 0 0 0 0.010018 3 23170 23114;23170;23223 81.89 49.585 1 1984100 5337 857 3533 3544 5931;5932;5933 5932 -0.0793476569606355 EPNPDDPLM 9 Unmodified _EPNPDDPLM_ 0 0 0 ENST00000487227.5_1_1:202302298-202304891:-|nuORF;ENSG00000077152|ENST00000646651|UBE2T ENST00000487227.5_1_1:202302298-202304891:-|nuORF ENST00000487227.5_1_1:202302298-202304891:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1027.448974609375 1 1027.44009 1026.43281 3.3111 0.0034019 1.7094 0.0017563 5.0204 0.0051582 1027.4415382612126 50.726 0.37966 50.987 50.815 51.195 0.26146 24 17 2 0 0 0 0.09451 2 23213 23143;23213 34.102 23.279 1 399360 5338 857 3533 3544 5934;5935 5935 -0.0793476569606355 EPNPDDPLM 9 Unmodified _EPNPDDPLM_ 0 0 0 ENST00000487227.5_1_1:202302298-202304891:-|nuORF;ENSG00000077152|ENST00000646651|UBE2T ENST00000487227.5_1_1:202302298-202304891:-|nuORF ENST00000487227.5_1_1:202302298-202304891:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.225341796875 2 514.223682 1026.43281 3.3613 0.0017285 0.16871 8.6756E-05 3.53 0.0018152 514.223803208225 50.138 0.75624 50.796 50.461 51.217 0.65735 85 32 3 0 0 0 0.024388 4 22921 22862;22921;22971;23030 62.573 41.701 1 1758400 5339 857 3533 3544 5936;5937;5938;5939 5937 -0.0793476569606355 EPNPDDPLM 9 Unmodified _EPNPDDPLM_ 0 0 0 ENST00000487227.5_1_1:202302298-202304891:-|nuORF;ENSG00000077152|ENST00000646651|UBE2T ENST00000487227.5_1_1:202302298-202304891:-|nuORF ENST00000487227.5_1_1:202302298-202304891:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1027.4468994140625 1 1027.44009 1026.43281 3.5344 0.0036313 1.1448 0.0011763 4.6792 0.0048076 1027.4414708920895 50.107 0.52079 50.764 50.532 51.053 0.65735 23 19 2 0 0 0 0.093314 2 22951 22908;22951 34.402 21.482 1 346760 5340 857 3533 3544 5940;5941 5941 -0.0793476569606355 EPPCMPWHF 9 Unmodified _EPPCMPWHF_ 0 0 0 REV__ENST00000486901.1_1_1:22156468-22156615:-|nuORF REV__ENST00000486901.1_1_1:22156468-22156615:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 572.2413330078125 2 572.241155 1142.46776 NaN NaN NaN NaN NaN NaN NaN 65.024 1 65.681 65.181 66.181 0.65672 0 0 0 0.90511 1 29810 29810 2.3027 0 1 + 5341 16758 3534 3545 5942 5942 -0.09777801369114059 EPPDRREEAK 10 Unmodified _EPPDRREEAK_ 0 0 0 REV__ENSG00000156076|ENST00000286574|WIF1 REV__ENSG00000156076|ENST00000286574|WIF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.8087158203125 2 613.809833 1225.60511 NaN NaN NaN NaN NaN NaN NaN 87.641 1 87.681 87.181 88.181 0.039955 0 0 0 0.99774 1 44427 44427 3.5965 0.60125 1 + 5342 12762 3535 3546 5943 5943 0.0013352203566228127 EPPKDEESF 9 Unmodified _EPPKDEESF_ 0 0 0 ENSG00000130477|ENST00000519716|UNC13A ENSG00000130477|ENST00000519716|UNC13A ENSG00000130477|ENST00000519716|UNC13A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.2400512695312 2 539.240386 1076.46622 NaN NaN NaN NaN NaN NaN NaN 101.02 1 101.08 100.58 101.58 0.059723 0 0 0 0.89683 1 54850 54850 4.3292 0.73274 1 5343 2594 3536 3547 5944 5944 -0.06895440652510842 EPPLRLKMRKF 11 Unmodified _EPPLRLKMRKF_ 0 0 0 ENST00000267294.4_1_13:100617617-100617761:-|nuORF ENST00000267294.4_1_13:100617617-100617761:-|nuORF ENST00000267294.4_1_13:100617617-100617761:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 707.5798950195312 2 707.921206 1413.82786 NaN NaN NaN NaN NaN NaN NaN 95.799 1 96.066 95.566 96.566 0.2675 0 0 0 1.0079 1 44018 44018 1.1933 0.84271 1 5344 6632 3537 3548 5945 5945 0.13749924567173366 EPPNEDDEDD 10 Unmodified _EPPNEDDEDD_ 0 0 0 ENSG00000189431|ENST00000529419|RASSF10 ENSG00000189431|ENST00000529419|RASSF10 ENSG00000189431|ENST00000529419|RASSF10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.7036743164062 2 587.704562 1173.39457 NaN NaN NaN NaN NaN NaN NaN 87.263 1 87.263 86.763 87.763 0 0 0 0 1.0001 1 44949 44949 1.6526 0 1 5345 5714 3538 3549 5946 5946 -0.1851902486769177 EPPQPPPTGQ 10 Unmodified _EPPQPPPTGQ_ 0 0 0 nc|ENSG00000088247|Q92945|KHSRP;ENSG00000088247|ENST00000600480|KHSRP nc|ENSG00000088247|Q92945|KHSRP nc|ENSG00000088247|Q92945|KHSRP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.7588500976562 2 524.258914 1046.50327 3.0283 0.0015876 -2.2976 -0.0012046 0.73061 0.00038303 524.7585558990488 46.307 0.25745 46.307 46.19 46.448 0 19 13 2 0 0 0 0.82825 1 21251 21251 7.1017 0.74762 1 719730 5346 1009 3539 3550 5947 5947 -0.018117243160986618 EPPRRRLRLRR 11 Unmodified _EPPRRRLRLRR_ 0 0 0 REV__ENSG00000266714|ENST00000645453|MYO15B REV__ENSG00000266714|ENST00000645453|MYO15B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 752.7645263671875 2 752.974016 1503.93348 NaN NaN NaN NaN NaN NaN NaN 17.46 1 18.121 17.621 18.621 0.66072 0 0 0 1.008 1 7877 7877 0.26902 0.26902 1 + 5347 14709 3540 3551 5948 5948 0.20167021527663564 EPPYPSTHWR 10 Unmodified _EPPYPSTHWR_ 0 0 0 REV__ENST00000603037.2_2_X:73422686-73423058:-|nuORF REV__ENST00000603037.2_2_X:73422686-73423058:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 635.3800048828125 2 635.304187 1268.59382 NaN NaN NaN NaN NaN NaN NaN 101.79 1 102.39 101.89 102.89 0.59717 0 0 0 1.0003 1 47128 47128 1.4819 0.15237 1 + 5348 17648 3541 3552 5949 5949 -0.029732552678296997 EPQAESEPL 9 Unmodified _EPQAESEPL_ 0 0 0 ENST00000535009.5_1_11:68816453-68846494:+|nuORF;ENSG00000162341|ENST00000294309|TPCN2 ENST00000535009.5_1_11:68816453-68846494:+|nuORF ENST00000535009.5_1_11:68816453-68846494:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.237060546875 2 500.235104 998.455655 3.1154 0.0015584 0.7896 0.00039499 3.905 0.0019534 500.23561674981676 37.698 0.55625 38.332 38.089 38.645 0.63388 32 18 2 0 0 0 0.09451 1 17238 17238 34.102 5.6156 1 275800 5349 4129 3542 3553 5950 5950 -0.043634233069496986 EPQQEEKKL 9 Unmodified _EPQQEEKKL_ 0 0 0 REV__ENST00000485942.1_1_7:134889192-134891883:-|nuORF REV__ENST00000485942.1_1_7:134889192-134891883:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.5339660644531 3 376.868027 1127.58225 NaN NaN NaN NaN NaN NaN NaN 28.639 1 28.899 28.399 29.399 0.2602 0 0 0 0.84134 1 13027 13027 4.897 1.31 1 + 5350 11062 3543 3554 5951 5951 0.02356502918200931 EPQQLVLRLR 10 Unmodified _EPQQLVLRLR_ 0 0 0 ITGB1|p.D110_Q115del|1|0.17|ENSG00000150093|chr10:32929854-32929871|TGGATCTGAGTAATATCC/-|inframe_deletion ITGB1|p.D110_Q115del|1|0.17|ENSG00000150093|chr10:32929854-32929871|TGGATCTGAGTAATATCC/-|inframe_deletion ITGB1|p.D110_Q115del|1|0.17|ENSG00000150093|chr10:32929854-32929871|TGGATCTGAGTAATATCC/-|inframe_deletion MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 627.3858642578125 2 626.380229 1250.7459 3.4442 0.0021574 -1.2319 -0.00077164 2.2123 0.0013857 626.3791085878256 100.43 0.08107 100.43 100.38 100.47 0 13 6 3 0 0 0 0.84709 1 55434 55434 6.2058 0.47393 1 11051000 5351 9421 3544 3555 5952 5952 0.1305614547973164 EPQQLVLRLR 10 Unmodified _EPQQLVLRLR_ 0 0 0 ITGB1|p.D110_Q115del|1|0.17|ENSG00000150093|chr10:32929854-32929871|TGGATCTGAGTAATATCC/-|inframe_deletion ITGB1|p.D110_Q115del|1|0.17|ENSG00000150093|chr10:32929854-32929871|TGGATCTGAGTAATATCC/-|inframe_deletion ITGB1|p.D110_Q115del|1|0.17|ENSG00000150093|chr10:32929854-32929871|TGGATCTGAGTAATATCC/-|inframe_deletion MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 626.380229 1250.7459 4.5342 0.0028401 -1.389 -0.00087003 3.1452 0.0019701 626.3787639042589 100.29 0.16344 100.6 100.49 100.65 0.30835 0.056944 -0.00060331 NaN 6.2058 15 5 4 NaN NaN NaN NaN 0 NaN NaN 0 11249000 5352 9421 3544 3555 0.1305614547973164 EPQQLVLRLR 10 Unmodified _EPQQLVLRLR_ 0 0 0 ITGB1|p.D110_Q115del|1|0.17|ENSG00000150093|chr10:32929854-32929871|TGGATCTGAGTAATATCC/-|inframe_deletion ITGB1|p.D110_Q115del|1|0.17|ENSG00000150093|chr10:32929854-32929871|TGGATCTGAGTAATATCC/-|inframe_deletion ITGB1|p.D110_Q115del|1|0.17|ENSG00000150093|chr10:32929854-32929871|TGGATCTGAGTAATATCC/-|inframe_deletion MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 626.380229 1250.7459 3.9834 0.0024951 -0.72429 -0.00045368 3.2591 0.0020414 626.379533632586 100.17 0.13911 100.76 100.68 100.82 0.59717 0.22298 0.00022939 NaN 6.2058 13 4 4 NaN NaN NaN NaN 0 NaN NaN 0 12477000 5353 9421 3544 3555 0.1305614547973164 EPRGRRGGRAG 11 Unmodified _EPRGRRGGRAG_ 0 0 0 ENST00000480451.1_1_22:17639677-17639998:-|nuORF ENST00000480451.1_1_22:17639677-17639998:-|nuORF ENST00000480451.1_1_22:17639677-17639998:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.8289794921875 2 584.823944 1167.63333 NaN NaN NaN NaN NaN NaN NaN 83.277 1 83.322 82.822 83.822 0.045006 0 0 0 0.97845 1 41291 41291 8.7454 1.4562 1 5354 8277 3545 3556 5953 5953 0.05622309526279423 EPRKKKKRK 9 Unmodified _EPRKKKKRK_ 0 0 0 REV__ENSG00000055483|ENST00000449938|USP36 REV__ENSG00000055483|ENST00000449938|USP36 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 599.402099609375 2 599.398756 1196.78296 NaN NaN NaN NaN NaN NaN NaN 103.78 1 103.83 103.33 104.33 0.052994 0 0 0 0.91206 1 56237 56237 0.6015 0 1 + 5355 10371 3546 3557 5954 5954 0.19243861816153185 EPRLLRWRR 9 Unmodified _EPRLLRWRR_ 0 0 0 REV__ENST00000389279.7_1_8:22462563-22463297:+|nuORF REV__ENST00000389279.7_1_8:22462563-22463297:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.3709106445312 2 641.38618 1280.75781 4.6056 0.002954 -2.2341 -0.0014329 2.3715 0.0015211 641.3847081167315 98.644 0.18474 98.944 98.861 99.046 0.29987 22 14 2 0 0 0 0.10694 1 45522 45522 7.2892 0 1 3531400 + 5356 15910 3547 3558 5955 5955 0.12865807013577069 EPRLQQKIREE 11 Unmodified _EPRLQQKIREE_ 0 0 0 ENST00000592374.5_1_19:1356398-1357062:+|nuORF ENST00000592374.5_1_19:1356398-1357062:+|nuORF ENST00000592374.5_1_19:1356398-1357062:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 713.3953857421875 2 713.394064 1424.77358 NaN NaN NaN NaN NaN NaN NaN 97.412 1 98.014 97.514 98.514 0.6019 0 0 0 1.0047 1 44789 44789 4.5289 0.93237 1 5357 9246 3548 3559 5956 5956 0.07818003949319063 EPRLVKVLILR 11 Unmodified _EPRLVKVLILR_ 0 0 0 REV__nc|ENSG00000185842|Q0VDD8-4|DNAH14 REV__nc|ENSG00000185842|Q0VDD8-4|DNAH14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.4410400390625 2 668.445372 1334.87619 NaN NaN NaN NaN NaN NaN NaN 87.04 1 87.08 86.58 87.58 0.039955 0 0 0 1.0072 1 43954 43954 1.3295 0.92882 1 + 5358 14032 3549 3560 5957 5957 0.22214741478728683 EPRMHCAVD 9 Unmodified _EPRMHCAVD_ 0 0 0 ENSG00000142627|ENST00000358432|EPHA2;nc|ENSG00000142627|P29317-2|EPHA2 ENSG00000142627|ENST00000358432|EPHA2 ENSG00000142627|ENST00000358432|EPHA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.7341918945312 2 529.231319 1056.44808 3.4202 0.0018101 -1.3064 -0.00069137 2.1138 0.0011187 529.2303146867876 44.178 0.37832 44.828 44.662 45.04 0.64999 29 18 3 0 0 0 0.83994 1 20255 20255 6.7232 0.99131 1 1853600 5359 3321 3550 3561 5958 5958 -0.07788177379848094 EPRQRPRLRPR 11 Unmodified _EPRQRPRLRPR_ 0 0 0 REV__ENST00000326925.10_1_3:49058876-49059380:+|nuORF REV__ENST00000326925.10_1_3:49058876-49059380:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 730.6755981445312 2 730.937099 1459.85965 NaN NaN NaN NaN NaN NaN NaN 87.023 1 87.023 86.523 87.523 0 0 0 0 1.0061 1 44754 44754 2.7352 1.5419 1 + 5360 15356 3551 3562 5959 5959 0.14811053365338012 EPRQRPRLRPR 11 Unmodified _EPRQRPRLRPR_ 0 0 0 REV__ENST00000326925.10_1_3:49058876-49059380:+|nuORF REV__ENST00000326925.10_1_3:49058876-49059380:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 731.24169921875 2 730.937099 1459.85965 NaN NaN NaN NaN NaN NaN NaN 88.089 1 88.129 87.629 88.629 0.039955 0 0 0 1.0061 1 44785 44785 2.7352 1.5419 1 + 5361 15356 3551 3562 5960 5960 0.14811053365338012 EPRRFWYLRRN 11 Unmodified _EPRRFWYLRRN_ 0 0 0 REV__ENST00000408953.3_1_5:159826916-159827063:-|nuORF REV__ENST00000408953.3_1_5:159826916-159827063:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 796.9352416992188 2 796.931483 1591.84841 NaN NaN NaN NaN NaN NaN NaN 80.461 1 80.461 79.961 80.961 0 0 0 0 1.0082 1 39950 39950 0.30703 0.30703 1 + 5362 16086 3552 3563 5961 5961 0.07616231271208562 EPRRGLLPRG 10 Unmodified _EPRRGLLPRG_ 0 0 0 ENST00000414789.5_1_19:38709694-38713528:-|nuORF;ENST00000420980.6_1_19:38709694-38714867:-|nuORF ENST00000414789.5_1_19:38709694-38713528:-|nuORF ENST00000414789.5_1_19:38709694-38713528:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.8442993164062 2 575.843813 1149.67307 3.2792 0.0018883 -1.2324 -0.00070964 2.0468 0.0011787 575.8429438547263 103.46 0.18604 103.46 103.35 103.54 0 18 12 2 0 0 0 0.93713 1 57027 57027 1.4819 0.68827 1 468550 5363 7698 3553 3564 5962 5962 0.10422436476960684 EPRRKRRVVTK 11 Unmodified _EPRRKRRVVTK_ 0 0 0 ENST00000471423.1_1_1:151158258-151162597:-|nuORF;ENSG00000163159|ENST00000368892|VPS72;nc|ENSG00000163159|Q15906-2|VPS72 ENST00000471423.1_1_1:151158258-151162597:-|nuORF ENST00000471423.1_1_1:151158258-151162597:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 713.29931640625 2 712.949676 1423.8848 NaN NaN NaN NaN NaN NaN NaN 88.241 1 88.241 87.741 88.741 0 0 0 0 1.0072 1 45745 45745 1.3295 0 1 5364 4198 3554 3565 5963 5963 0.18981108167918137 EPRRQRRLVLV 11 Unmodified _EPRRQRRLVLV_ 0 0 0 ENSG00000187714|ENST00000374115|SLC18A3 ENSG00000187714|ENST00000374115|SLC18A3 ENSG00000187714|ENST00000374115|SLC18A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 711.5307006835938 2 711.444226 1420.8739 NaN NaN NaN NaN NaN NaN NaN 98.364 1 98.664 98.164 99.164 0.29987 0 0 0 1.0072 1 45296 45296 1.3295 0.13619 1 5365 5630 3555 3566 5964 5964 0.18029705793628636 EPRRRPPPARP 11 Unmodified _EPRRRPPPARP_ 0 0 0 REV__ENST00000234310.7_1_2:68479316-68479514:-|nuORF REV__ENST00000234310.7_1_2:68479316-68479514:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 664.8848266601562 2 664.886544 1327.75853 NaN NaN NaN NaN NaN NaN NaN 18.172 1 18.833 18.333 19.333 0.66072 0 0 0 1.0059 1 8220 8220 2.9952 0 1 + 5366 14867 3556 3567 5965 5965 0.10776601662632856 EPRRRVRVRHL 11 Unmodified _EPRRRVRVRHL_ 0 0 0 REV__ENST00000381031.7_1_22:46688787-46688886:+|nuORF REV__ENST00000381031.7_1_22:46688787-46688886:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 737.3639526367188 2 737.452917 1472.89128 NaN NaN NaN NaN NaN NaN NaN 87.239 1 87.239 86.739 87.739 0 0 0 0 1.0072 1 44928 44928 1.3295 0.9789 1 + 5367 15890 3557 3568 5966 5966 0.17375046119309445 EPRRSHQRCRR 11 Unmodified _EPRRSHQRCRR_ 0 0 0 REV__ENST00000558100.1_1_15:52311447-52334953:+|nuORF REV__ENST00000558100.1_1_15:52311447-52334953:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 740.8931884765625 2 740.892366 1479.77018 NaN NaN NaN NaN NaN NaN NaN 88.135 1 88.135 87.635 88.635 0 0 0 0 1.0072 1 45654 45654 1.3295 0 1 + 5368 14972 3558 3569 5967 5967 0.0494847541431227 EPRSRRRWGQ 10 Unmodified _EPRSRRRWGQ_ 0 0 0 ENST00000394921.8_1_7:75157205-75157286:-|nuORF ENST00000394921.8_1_7:75157205-75157286:-|nuORF ENST00000394921.8_1_7:75157205-75157286:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 664.3555297851562 2 664.358151 1326.70175 NaN NaN NaN NaN NaN NaN NaN 100.6 1 100.92 100.42 101.42 0.31412 0 0 0 0.99774 1 46545 46545 3.5965 0.31518 1 5369 7547 3559 3570 5968 5968 0.051465541061361364 EPRSYVESV 9 Unmodified _EPRSYVESV_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.265380859375 2 533.264196 1064.51384 3.3425 0.0017825 0.19946 0.00010636 3.542 0.0018888 533.2642754487342 30.09 0.17803 30.348 30.259 30.437 0.25804 30 18 2 0 0 0 0.063575 1 13697 13697 41.84 7.4379 1 789110 5370 892 3560 3571 5969 5969 -0.015837416616705013 EPRSYVESV 9 Unmodified _EPRSYVESV_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.2654418945312 2 533.264196 1064.51384 3.2601 0.0017385 0.21042 0.00011221 3.4705 0.0018507 533.2643069655594 29.821 0.33743 30.439 30.19 30.527 0.61789 37 22 2 0 0 0 0.034495 2 13667 13667;13712 53.833 13.875 1 749630 5371 892 3560 3571 5970;5971 5970 -0.015837416616705013 EPRVSRLTRHQ 11 Unmodified _EPRVSRLTRHQ_ 0 0 0 ENST00000377689.2_1_9:38527126-38527906:+|nuORF;nc|ENSG00000176007|B1ANY3|FAM220BP ENST00000377689.2_1_9:38527126-38527906:+|nuORF ENST00000377689.2_1_9:38527126-38527906:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 689.8370361328125 2 689.886741 1377.75893 NaN NaN NaN NaN NaN NaN NaN 83.079 1 83.079 82.579 83.579 0 0 0 0 0.99038 1 41768 41768 7.609 0.50723 1 5372 7418 3561 3572 5972 5972 0.08515976591820618 EPSCPFSFL 9 Unmodified _EPSCPFSFL_ 0 0 0 ENST00000571710.5_1_17:1945329-1945866:+|nuORF ENST00000571710.5_1_17:1945329-1945866:+|nuORF ENST00000571710.5_1_17:1945329-1945866:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.7325439453125 2 513.733686 1025.45282 NaN NaN NaN NaN NaN NaN NaN 97.902 1 98.501 98.001 99.001 0.59885 0 0 0 0.89451 1 45063 45063 7.9102 3.5809 1 5373 9092 3562 3573 5973 5973 -0.0588896996546282 EPSFTKENSSK 11 Unmodified _EPSFTKENSSK_ 0 0 0 nc|ENSG00000116138|Q9Y2G8-2|DNAJC16;ENSG00000116138|ENST00000375847|DNAJC16 nc|ENSG00000116138|Q9Y2G8-2|DNAJC16 nc|ENSG00000116138|Q9Y2G8-2|DNAJC16 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 627.3079833984375 2 627.304049 1252.59355 NaN NaN NaN NaN NaN NaN NaN 92.333 1 92.333 91.833 92.833 0 0 0 0 1.0044 1 49036 49036 4.897 1.3005 1 5374 2015 3563 3574 5974 5974 -0.022647197783498996 EPSLDLLPE 9 Unmodified _EPSLDLLPE_ 0 0 0 nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1;ENSG00000108175|ENST00000334512|ZMIZ1 nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1 nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.76470947265625 2 506.763497 1011.51244 3.2679 0.001656 -1.8227 -0.00092367 1.4452 0.00073238 506.76225825810445 59.365 0.23173 59.624 59.518 59.75 0.2593 12 8 2 0 0 0 0.028312 1 27190 27190 57.471 9.1255 1 349670 5375 1623 3564 3575 5975 5975 0.007146242495878141 EPSNESAFM 9 Unmodified _EPSNESAFM_ 0 0 0 REV__nc|ENSG00000120318|Q8WWN8-2|ARAP3 REV__nc|ENSG00000120318|Q8WWN8-2|ARAP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.2096252441406 2 506.208032 1010.40151 NaN NaN NaN NaN NaN NaN NaN 39.5 1 39.5 39 40 0 0 0 0 0.75166 1 17924 17924 10.824 4.6181 1 + 5376 11533 3565 3576 5976 5976 -0.10327338730155589 EPSSSHNP 8 Unmodified _EPSSSHNP_ 0 0 0 REV__ENSG00000122435|ENST00000370141|TRMT13 REV__ENSG00000122435|ENST00000370141|TRMT13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 854.366943359375 1 854.363886 853.35661 4.1584 0.0035528 -4.4857 -0.0038324 -0.32728 -0.00027962 854.3598414554461 102.52 0.098755 103.12 103.04 103.14 0.59759 8 2 4 0 0 0 0.74071 1 47452 47452 2.5775 0 1 10079000 + 5377 11585 3566 3577 5977 5977 -0.07593401481187811 EPSSSHNP 8 Unmodified _EPSSSHNP_ 0 0 0 REV__ENSG00000122435|ENST00000370141|TRMT13 REV__ENSG00000122435|ENST00000370141|TRMT13 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 854.363886 853.35661 3.4044 0.0029086 -4.6549 -0.003977 -1.2505 -0.0010684 854.3595107722855 103.09 0.13849 103.09 103.06 103.2 0 0.057057 -0.00010384 NaN 2.5775 11 5 3 NaN NaN NaN NaN 0 NaN NaN 0 6181800 + 5378 11585 3566 3577 -0.07593401481187811 EPSSSHNP 8 Unmodified _EPSSSHNP_ 0 0 0 REV__ENSG00000122435|ENST00000370141|TRMT13 REV__ENSG00000122435|ENST00000370141|TRMT13 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 854.363886 853.35661 4.7344 0.0040449 -4.4799 -0.0038275 0.25445 0.00021739 854.3598806622792 102.56 0.15382 102.88 102.81 102.96 0.31737 -0.14882 4.5645E-05 NaN 2.5775 12 4 4 NaN NaN NaN NaN 0 NaN NaN 0 26334000 + 5379 11585 3566 3577 -0.07593401481187811 EPSSSHNP 8 Unmodified _EPSSSHNP_ 0 0 0 REV__ENSG00000122435|ENST00000370141|TRMT13 REV__ENSG00000122435|ENST00000370141|TRMT13 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 854.363886 853.35661 4.1584 0.0035528 -4.4857 -0.0038324 -0.32728 -0.00027962 854.3598414554461 102.52 0.098755 103.12 103.04 103.14 0.59759 0.091761 4.073E-05 NaN 2.5775 8 2 4 NaN NaN NaN NaN 0 NaN NaN 0 10079000 + 5380 11585 3566 3577 -0.07593401481187811 EPTDVVDKL 9 Unmodified _EPTDVVDKL_ 0 0 0 ENST00000420752.1_1_10:50980319-50981214:+|nuORF;ENSG00000069956|ENST00000261845|MAPK6 ENST00000420752.1_1_10:50980319-50981214:+|nuORF ENST00000420752.1_1_10:50980319-50981214:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.2705383300781 2 508.268947 1014.52334 3.0623 0.0015565 -1.6026 -0.00081458 1.4596 0.00074189 508.2689127655686 44.814 0.28165 44.814 44.641 44.922 0 34 15 3 0 0 0 0.027096 1 20478 20478 72.968 43.886 1 803430 5381 755 3567 3578 5978 5978 0.01666026623865946 EPTDVVDKL 9 Unmodified _EPTDVVDKL_ 0 0 0 ENST00000420752.1_1_10:50980319-50981214:+|nuORF;ENSG00000069956|ENST00000261845|MAPK6 ENST00000420752.1_1_10:50980319-50981214:+|nuORF ENST00000420752.1_1_10:50980319-50981214:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.27130126953125 2 508.268947 1014.52334 3.0124 0.0015311 -0.08489 -4.3147E-05 2.9275 0.0014879 508.26898410643435 43.743 0.34762 44.557 44.336 44.684 0.81444 45 18 3 0 0 0 0.11316 1 19884 19884 38.176 17.722 1 737010 5382 755 3567 3578 5979 5979 0.01666026623865946 EPTDVVDKL 9 Unmodified _EPTDVVDKL_ 0 0 0 ENST00000420752.1_1_10:50980319-50981214:+|nuORF;ENSG00000069956|ENST00000261845|MAPK6 ENST00000420752.1_1_10:50980319-50981214:+|nuORF ENST00000420752.1_1_10:50980319-50981214:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.2713623046875 2 508.268947 1014.52334 3.0947 0.0015729 -0.39161 -0.00019904 2.7031 0.0013739 508.2689123039295 44.518 0.35584 44.787 44.606 44.962 0.2694 27 11 3 0 0 0 0.048715 1 20404 20404 51.63 26.23 1 766670 5383 755 3567 3578 5980 5980 0.01666026623865946 EPTDVVDKL 9 Unmodified _EPTDVVDKL_ 0 0 0 ENST00000420752.1_1_10:50980319-50981214:+|nuORF;ENSG00000069956|ENST00000261845|MAPK6 ENST00000420752.1_1_10:50980319-50981214:+|nuORF ENST00000420752.1_1_10:50980319-50981214:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.2708740234375 2 508.268947 1014.52334 3.4461 0.0017515 -0.10686 -5.4313E-05 3.3392 0.0016972 508.26914297999315 44.029 0.24991 44.678 44.524 44.773 0.64872 20 9 3 0 0 0 0.039961 1 20204 20204 63.961 27.833 1 1088200 5384 755 3567 3578 5981 5981 0.01666026623865946 EPTKWWYCWGW 11 Unmodified _EPTKWWYCWGW_ 0 0 0 REV__ENST00000483771.5_1_10:86004898-86007552:+|nuORF REV__ENST00000483771.5_1_10:86004898-86007552:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 771.0538940429688 2 771.337172 1540.65979 NaN NaN NaN NaN NaN NaN NaN 58.317 1 58.317 57.817 58.817 0 0 0 0 1.0057 1 26909 26909 3.2813 1.7994 1 + 5385 15748 3568 3579 5982 5982 -0.08891182417278287 EPTLLAAP 8 Unmodified _EPTLLAAP_ 0 0 0 REV__nc|nan|Q8N9H9-2|C1orf127 REV__nc|nan|Q8N9H9-2|C1orf127 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.160888671875 1 811.455996 810.448719 2.5567 0.0020747 -3.4946 -0.0028357 -0.93788 -0.00076105 811.4546223709633 93.76 0.029778 93.846 93.839 93.868 0.086212 5 4 2 0 0 0 0.14111 1 49191 49191 5.7604 0 1 8625100 + 5386 13669 3569 3580 5983 5983 0.03591308603131438 EPTLLAAP 8 Unmodified _EPTLLAAP_ 0 0 0 REV__nc|nan|Q8N9H9-2|C1orf127 REV__nc|nan|Q8N9H9-2|C1orf127 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 811.455996 810.448719 3.3278 0.0027004 -8.1842 -0.0066412 -4.8564 -0.0039408 811.449197997042 93.654 0.035149 93.654 93.631 93.666 0 -0.095824 -0.0012393 NaN 5.7604 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 11607000 + 5387 13669 3569 3580 0.03591308603131438 EPTQLKHPNLV 11 Unmodified _EPTQLKHPNLV_ 0 0 0 nc|ENSG00000100490|Q00532-2|CDKL1 nc|ENSG00000100490|Q00532-2|CDKL1 nc|ENSG00000100490|Q00532-2|CDKL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 638.350830078125 2 638.356419 1274.69829 NaN NaN NaN NaN NaN NaN NaN 80.675 1 80.675 80.175 81.175 0 0 0 0 0.92731 1 40105 40105 13.615 4.0709 1 5388 9574 3570 3581 5984 5984 0.07192446488897986 EPTRGDCDGRL 11 Unmodified _EPTRGDCDGRL_ 0 0 0 ENST00000219204.7_1_16:57279230-57280003:+|nuORF;ENST00000565794.1_1_16:57279230-57280035:+|nuORF ENST00000219204.7_1_16:57279230-57280003:+|nuORF ENST00000219204.7_1_16:57279230-57280003:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 609.7402954101562 2 609.780219 1217.54588 NaN NaN NaN NaN NaN NaN NaN 82.997 1 82.997 82.497 83.497 0 0 0 0 1.0061 1 41710 41710 2.7352 0.67545 1 5389 6412 3571 3582 5985 5985 -0.05418697250161131 EPTRVRRNLR 10 Unmodified _EPTRVRRNLR_ 0 0 0 nc|ENSG00000155090|Q13118-4|KLF10 nc|ENSG00000155090|Q13118-4|KLF10 nc|ENSG00000155090|Q13118-4|KLF10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.8855590820312 2 648.884001 1295.75345 NaN NaN NaN NaN NaN NaN NaN 4.1812 1 4.5462 4.0462 5.0462 0.36497 0 0 0 1.0015 1 1897 1897 0.40072 0 1 5390 9697 3572 3583 5986 5986 0.11740297800042754 EPVAEPDIM 9 Unmodified _EPVAEPDIM_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.7384338378906 2 500.736425 999.458298 2.7829 0.0013935 0.56751 0.00028417 3.3504 0.0016777 500.7370301295881 53.934 0.42519 54.729 54.494 54.919 0.79552 36 19 3 0 0 0 0.086747 2 24573 24573;24632 36.044 17.909 1 277320 5391 2210 3573 3584 5987;5988 5987 -0.041452911736541864 EPVAEPDIM 9 Unmodified _EPVAEPDIM_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.737060546875 2 500.736425 999.458298 NaN NaN NaN NaN NaN NaN NaN 54.619 1 54.884 54.384 55.384 0.26543 0 0 0 0.036939 1 24966 24966 57.471 28.985 1 5392 2210 3573 3584 5989 5989 -0.041452911736541864 EPVAEPDIM 9 Unmodified _EPVAEPDIM_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.7379150390625 2 500.736425 999.458298 3.0857 0.0015451 0.70748 0.00035426 3.7932 0.0018994 500.73650924613617 53.99 0.21025 54.657 54.649 54.859 0.6665 18 12 2 0 0 0 0.041436 1 24717 24717 50.855 22.368 1 1091300 5393 2210 3573 3584 5990 5990 -0.041452911736541864 EPVAPKKVKEL 11 Unmodified _EPVAPKKVKEL_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.4303588867188 2 619.379363 1236.74417 NaN NaN NaN NaN NaN NaN NaN 87.293 1 87.293 86.793 87.793 0 0 0 0 0.99571 1 44974 44974 7.1017 0.89594 1 + 5394 12747 3574 3585 5991 5991 0.1352709167113062 EPVEKRRRLQN 11 Unmodified _EPVEKRRRLQN_ 0 0 0 nc|ENSG00000133131|Q8TE76-2|MORC4;nc|ENSG00000133131|Q8TE76-3|MORC4;ENSG00000133131|ENST00000355610|MORC4 nc|ENSG00000133131|Q8TE76-2|MORC4 nc|ENSG00000133131|Q8TE76-2|MORC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 713.3275146484375 2 712.907673 1423.80079 NaN NaN NaN NaN NaN NaN NaN 87.131 1 87.131 86.631 87.631 0 0 0 0 1.0059 1 44840 44840 2.9952 0 1 5395 2753 3575 3586 5992 5992 0.10584532280381609 EPVFPPVLFRR 11 Unmodified _EPVFPPVLFRR_ 0 0 0 REV__ENST00000250916.5_1_19:1852736-1853027:-|nuORF REV__ENST00000250916.5_1_19:1852736-1853027:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 678.8946533203125 2 678.892972 1355.77139 NaN NaN NaN NaN NaN NaN NaN 81.522 1 81.606 81.106 82.106 0.084106 0 0 0 0.97845 1 40087 40087 8.7454 1.6437 1 + 5396 14905 3576 3587 5993 5993 0.10773620002146345 EPVKEFKQML 10 Unmodified _EPVKEFKQML_ 0 0 0 REV__nc|ENSG00000042832|P01266-2|TG REV__nc|ENSG00000042832|P01266-2|TG MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 624.837890625 2 624.836474 1247.65839 NaN NaN NaN NaN NaN NaN NaN 93.473 1 94.104 93.604 94.604 0.63115 0 0 0 1.0001 1 42999 42999 1.6526 0 1 + 5397 17859 3577 3588 5994 5994 0.04447183493971352 EPVLRLRGRA 10 Unmodified _EPVLRLRGRA_ 0 0 0 REV__ENST00000265052.9_1_3:127410292-127410427:-|nuORF REV__ENST00000265052.9_1_3:127410292-127410427:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.86083984375 2 583.859464 1165.70437 3.7498 0.0021894 -1.0028 -0.0005855 2.747 0.0016039 583.8586852341052 93.651 0.64449 94.282 94.082 94.726 0.63115 76 30 4 0 0 0 0.9146 1 43095 43095 2.9952 1.151 1 2733900 + 5398 15027 3578 3589 5995 5995 0.1281500951106409 EPVPLYFDP 9 Unmodified _EPVPLYFDP_ 0 0 0 REV__ENST00000300403.10_1_20:30388876-30389098:+|nuORF REV__ENST00000300403.10_1_20:30388876-30389098:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1076.3470458984375 1 1076.52989 1075.52261 3.5225 0.003792 0.36544 0.00039341 3.8879 0.0041854 1076.5289838753597 88.932 0.2851 89.183 89.032 89.317 0.25118 12 9 2 0 0 0 0.10063 1 40874 40874 3.9444 1.6417 1 1176400 + 5399 15183 3579 3590 5996 5996 -0.012127680251978745 EPVQHHFL 8 Unmodified _EPVQHHFL_ 0 0 0 REV__ENST00000361757.7_1_19:1109529-1111037:-|nuORF REV__ENST00000361757.7_1_19:1109529-1111037:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.760009765625 2 503.758884 1005.50321 NaN NaN NaN NaN NaN NaN NaN 40.438 1 41.079 40.579 41.579 0.64136 0 0 0 0.33009 1 18485 18485 34.187 7.3037 1 + 5400 15630 3580 3591 5997 5997 0.000683204745769217 EPVQKVLSNRP 11 Unmodified _EPVQKVLSNRP_ 0 0 0 ENSG00000145907|ENST00000356245|G3BP1 ENSG00000145907|ENST00000356245|G3BP1 ENSG00000145907|ENST00000356245|G3BP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.9732666015625 2 633.861869 1265.70918 NaN NaN NaN NaN NaN NaN NaN 85.122 1 85.122 84.622 85.622 0 0 0 0 0.91901 1 43251 43251 14.405 2.9107 1 5401 3494 3581 3592 5998 5998 0.086958488631808 EPVQLHAFAK 10 Unmodified _EPVQLHAFAK_ 0 0 0 REV__ENSG00000142798|ENST00000374695|HSPG2 REV__ENSG00000142798|ENST00000374695|HSPG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.582275390625 2 570.314023 1138.61349 NaN NaN NaN NaN NaN NaN NaN 88.05 1 88.09 87.59 88.59 0.039955 0 0 0 0.9952 1 44756 44756 5.7319 0.83484 1 + 5402 12347 3582 3593 5999 5999 0.04973120742943138 EPVQVWRPV 9 Unmodified _EPVQVWRPV_ 0 0 0 REV__nc|ENSG00000169129|Q8N4X5-4|AFAP1L2 REV__nc|ENSG00000169129|Q8N4X5-4|AFAP1L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 555.4376220703125 2 555.308741 1108.60293 NaN NaN NaN NaN NaN NaN NaN 88.54 1 88.592 88.092 89.092 0.052155 0 0 0 0.89683 1 45124 45124 4.3292 0.38484 1 + 5403 18035 3583 3594 6000 6000 0.05297138088508291 EPWDLSLPEE 10 Unmodified _EPWDLSLPEE_ 0 0 0 REV__nc|ENSG00000074621|O60721-2|SLC24A1 REV__nc|ENSG00000074621|O60721-2|SLC24A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.52557373046875 3 405.524038 1213.55028 NaN NaN NaN NaN NaN NaN NaN 36.238 1 36.865 36.365 37.365 0.62631 0 0 0 0.99514 1 16595 16595 5.7834 1.0675 1 + 5404 10517 3584 3595 6001 6001 -0.04794909555607774 EPWEPWTQLRL 11 Unmodified _EPWEPWTQLRL_ 0 0 0 TRHDE|p.F993Sfs*26|1|0.04|ENSG00000072657|chr12:72663096-72663096|T/-|frameshift_variant;ENSG00000072657|ENST00000261180|TRHDE TRHDE|p.F993Sfs*26|1|0.04|ENSG00000072657|chr12:72663096-72663096|T/-|frameshift_variant TRHDE|p.F993Sfs*26|1|0.04|ENSG00000072657|chr12:72663096-72663096|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 727.8802490234375 2 727.874976 1453.7354 NaN NaN NaN NaN NaN NaN NaN 82.233 1 82.317 81.817 82.817 0.084106 0 0 0 0.98464 1 40582 40582 8.1555 5.1603 1 5405 794 3585 3596 6002 6002 0.026681180346486144 EPWISWML 8 Unmodified _EPWISWML_ 0 0 0 REV__UBR4|p.Q4684Hfs*5|1|0.26|ENSG00000127481|chr1:19093351-19093372|TGCATTCTGGGTGATCCCCTTC/-|frameshift_variant REV__UBR4|p.Q4684Hfs*5|1|0.26|ENSG00000127481|chr1:19093351-19093372|TGCATTCTGGGTGATCCCCTTC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.2586059570312 2 531.259871 1060.50519 NaN NaN NaN NaN NaN NaN NaN 81.985 1 82.069 81.569 82.569 0.084106 0 0 0 0.99035 1 40400 40400 5.7604 1.0044 1 + 5406 11739 3586 3597 6003 6003 -0.02264386831848242 EPWKRRQFQRY 11 Unmodified _EPWKRRQFQRY_ 0 0 0 REV__nc|ENSG00000196562|Q8IWU5-2|SULF2 REV__nc|ENSG00000196562|Q8IWU5-2|SULF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.9523315429688 3 531.951419 1592.83243 NaN NaN NaN NaN NaN NaN NaN 83.336 1 83.336 82.836 83.836 0 0 0 0 1.0072 1 41956 41956 0.45452 0.37117 1 + 5407 14231 3587 3598 6004 6004 0.059725250343262815 EPWKRRQFQRY 11 Unmodified _EPWKRRQFQRY_ 0 0 0 REV__nc|ENSG00000196562|Q8IWU5-2|SULF2 REV__nc|ENSG00000196562|Q8IWU5-2|SULF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.8755493164062 3 531.951419 1592.83243 NaN NaN NaN NaN NaN NaN NaN 88.324 1 88.324 87.824 88.824 0 0 0 0 1.0072 1 45811 45811 0.45452 0.37117 1 + 5408 14231 3587 3598 6005 6005 0.059725250343262815 EPWRCGRKPHP 11 Unmodified _EPWRCGRKPHP_ 0 0 0 ENST00000235090.9_1_1:111991766-111991910:-|nuORF ENST00000235090.9_1_1:111991766-111991910:-|nuORF ENST00000235090.9_1_1:111991766-111991910:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 681.8479614257812 2 681.84603 1361.67751 NaN NaN NaN NaN NaN NaN NaN 88.488 1 88.488 87.988 88.988 0 0 0 0 1.0041 1 45933 45933 5.2969 1.7004 1 5409 6457 3588 3599 6006 6006 0.011135776282344523 EPYDNEGWL 9 Unmodified _EPYDNEGWL_ 0 0 0 REV__nc|ENSG00000103534|Q6UXY8-2|TMC5 REV__nc|ENSG00000103534|Q6UXY8-2|TMC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.8302307128906 3 374.829461 1121.46655 2.565 0.00096143 -0.89259 -0.00033457 1.6724 0.00062686 374.82949268711235 26.922 0.37729 27.544 27.328 27.706 0.62179 76 28 4 0 0 0 0.95612 1 12393 12393 2.7352 0 1 1693200 + 5410 10970 3589 3600 6007 6007 -0.08932020932661544 EPYDYDDEWD 10 Unmodified _EPYDYDDEWD_ 0 0 0 REV__nc|ENSG00000255302|Q9Y6B2-2|EID1 REV__nc|ENSG00000255302|Q9Y6B2-2|EID1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 673.7388916015625 2 673.738405 1345.46226 NaN NaN NaN NaN NaN NaN NaN 100.91 1 101.51 101.01 102.01 0.59717 0 0 0 1.0001 1 46720 46720 1.6526 0.17072 1 + 5411 14670 3590 3601 6008 6008 -0.19665574936902885 EPYEEDEFNDD 11 Unmodified _EPYEEDEFNDD_ 0 0 0 nc|ENSG00000163104|Q9H4L7-2|SMARCAD1;ENSG00000163104|ENST00000354268|SMARCAD1 nc|ENSG00000163104|Q9H4L7-2|SMARCAD1 nc|ENSG00000163104|Q9H4L7-2|SMARCAD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.8397216796875 3 467.83701 1400.4892 NaN NaN NaN NaN NaN NaN NaN 15.669 1 15.669 15.169 16.169 0 0 0 0 1.008 1 6929 6929 0.094841 0 1 5412 4190 3591 3602 6009 6009 -0.19502511116365895 EPYEEDEFNDD 11 Unmodified _EPYEEDEFNDD_ 0 0 0 nc|ENSG00000163104|Q9H4L7-2|SMARCAD1;ENSG00000163104|ENST00000354268|SMARCAD1 nc|ENSG00000163104|Q9H4L7-2|SMARCAD1 nc|ENSG00000163104|Q9H4L7-2|SMARCAD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.8394775390625 3 467.83701 1400.4892 NaN NaN NaN NaN NaN NaN NaN 16.247 1 16.247 15.747 16.747 0 0 0 0 1.008 1 7195 7195 0.08335 0 1 5413 4190 3591 3602 6010 6010 -0.19502511116365895 EPYHNYRER 9 Unmodified _EPYHNYRER_ 0 0 0 ZC3H18|p.E930Sfs*3|1|0.25|ENSG00000158545|chr16:88631224-88631224|G/-|frameshift_variant;ENSG00000158545|ENST00000301011|ZC3H18 ZC3H18|p.E930Sfs*3|1|0.25|ENSG00000158545|chr16:88631224-88631224|G/-|frameshift_variant ZC3H18|p.E930Sfs*3|1|0.25|ENSG00000158545|chr16:88631224-88631224|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 632.2993774414062 2 632.296893 1262.57923 NaN NaN NaN NaN NaN NaN NaN 59.611 1 59.87 59.37 60.37 0.2593 0 0 0 0.90699 1 27297 27297 1.8442 0.19162 1 5414 3989 3592 3603 6011 6011 -0.04155327415969623 EPYHNYRERER 11 Unmodified _EPYHNYRERER_ 0 0 0 ZC3H18|p.E930Sfs*3|1|0.25|ENSG00000158545|chr16:88631224-88631224|G/-|frameshift_variant;ENSG00000158545|ENST00000301011|ZC3H18 ZC3H18|p.E930Sfs*3|1|0.25|ENSG00000158545|chr16:88631224-88631224|G/-|frameshift_variant ZC3H18|p.E930Sfs*3|1|0.25|ENSG00000158545|chr16:88631224-88631224|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 775.1172485351562 2 774.868745 1547.72294 NaN NaN NaN NaN NaN NaN NaN 106.33 1 106.93 106.43 107.43 0.60074 0 0 0 1.008 1 49093 49093 0.35063 0.043601 1 5415 3989 3593 3604 6012 6012 -0.029015253756824677 EPYIEDHVWK 10 Unmodified _EPYIEDHVWK_ 0 0 0 ENST00000596755.1_1_19:57876176-57876239:+|nuORF ENST00000596755.1_1_19:57876176-57876239:+|nuORF ENST00000596755.1_1_19:57876176-57876239:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 658.3209838867188 2 658.319502 1314.62445 NaN NaN NaN NaN NaN NaN NaN 93.985 1 94.617 94.117 95.117 0.63115 0 0 0 0.99774 1 43228 43228 3.5965 0.31518 1 5416 9278 3594 3605 6013 6013 -0.020275216734262358 EPYNEEFMC 9 Unmodified _EPYNEEFMC_ 0 0 0 REV__ENST00000464335.5_1_22:30795691-30811950:+|nuORF REV__ENST00000464335.5_1_22:30795691-30811950:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.2156982421875 2 581.215 1160.41545 NaN NaN NaN NaN NaN NaN NaN 93.627 1 93.627 93.127 94.127 0 0 0 0 0.90611 1 50024 50024 2.0598 0 1 + 5417 10797 3595 3606 6014 6014 -0.15834429293363428 EPYRRVISH 9 Unmodified _EPYRRVISH_ 0 0 0 nc|ENSG00000106772|Q8WUY3-4|PRUNE2;ENSG00000106772|ENST00000376718|PRUNE2;nc|ENSG00000106772|Q8WUY3-2|PRUNE2;nc|ENSG00000106772|Q8WUY3-3|PRUNE2;ENST00000494975.1_1_9:79256876-79259880:-|nuORF;ENST00000488346.5_1_9:79259601-79307072:-|nuORF;ENST00000466266.6_1_9:79228267-79307072:-|nuORF;nc|ENSG00000106772|Q8WUY3-5|PRUNE2 nc|ENSG00000106772|Q8WUY3-4|PRUNE2 nc|ENSG00000106772|Q8WUY3-4|PRUNE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 579.2005004882812 2 578.814722 1155.61489 NaN NaN NaN NaN NaN NaN NaN 86.113 1 86.143 85.643 86.643 0.030289 0 0 0 0.77475 1 43247 43247 10.074 2.7847 1 5418 1582 3596 3607 6015 6015 0.04330754831721606 EPYRWLRGGQG 11 Unmodified _EPYRWLRGGQG_ 0 0 0 REV__ENST00000571074.5_1_17:7530728-7531173:-|nuORF REV__ENST00000571074.5_1_17:7530728-7531173:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 659.8375854492188 2 659.836185 1317.65782 NaN NaN NaN NaN NaN NaN NaN 58.987 1 58.987 58.487 59.487 0 0 0 0 0.97845 1 27250 27250 8.7454 2.0222 1 + 5419 17446 3597 3608 6016 6016 0.011695248891328447 EPYSRWGGGLL 11 Unmodified _EPYSRWGGGLL_ 0 0 0 REV__ENST00000490995.5_1_7:86548580-86549025:-|nuORF REV__ENST00000490995.5_1_7:86548580-86549025:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.7811889648438 2 617.814387 1233.61422 3.8421 0.0023737 1.0859 0.00067087 4.9279 0.0030445 618.316609836303 56.696 0.2945 56.696 56.548 56.843 0 37 24 2 0 0 0 0.71079 1 26144 26144 10.8 2.0541 1 1740800 + 5420 16801 3598 3609 6017 6017 0.006759153920029348 EPYTKKEL 8 Unmodified _EPYTKKEL_ 0 0 0 ENSG00000115415|ENST00000361099|STAT1;nc|ENSG00000115415|P42224-2|STAT1 ENSG00000115415|ENST00000361099|STAT1 ENSG00000115415|ENST00000361099|STAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 336.5190734863281 3 336.518447 1006.53351 2.3532 0.00079189 0.18347 6.1743E-05 2.5367 0.00085364 336.51839714733336 13.949 0.16138 13.949 13.859 14.021 0 26 11 4 0 0 0 0.15565 1 6121 6121 47.594 19.1 1 2977300 5421 1969 3599 3610 6018 6018 0.030506343490856125 EPYTKKEL 8 Unmodified _EPYTKKEL_ 0 0 0 ENSG00000115415|ENST00000361099|STAT1;nc|ENSG00000115415|P42224-2|STAT1 ENSG00000115415|ENST00000361099|STAT1 ENSG00000115415|ENST00000361099|STAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.37677001953125 2 504.274032 1006.53351 3.0952 0.0015608 0.36182 0.00018246 3.457 0.0017433 504.2741686243883 13.943 0.13521 13.943 13.87 14.005 0 19 8 3 0 0 0 0.03226 2 6123 6123;6143 75.761 25.828 1 2072900 5422 1969 3599 3610 6019;6020 6019 0.030506343490856125 EPYTKKEL 8 Unmodified _EPYTKKEL_ 0 0 0 ENSG00000115415|ENST00000361099|STAT1;nc|ENSG00000115415|P42224-2|STAT1 ENSG00000115415|ENST00000361099|STAT1 ENSG00000115415|ENST00000361099|STAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.2752990722656 2 504.274032 1006.53351 2.7847 0.0014042 0.74969 0.00037805 3.5344 0.0017823 504.2743111520189 13.204 0.26648 13.448 13.307 13.573 0.24346 53 20 4 0 0 0 0.03983 2 5774 5727;5774 69.105 16.837 1 1358900 5423 1969 3599 3610 6021;6022 6022 0.030506343490856125 EPYTKKEL 8 Unmodified _EPYTKKEL_ 0 0 0 ENSG00000115415|ENST00000361099|STAT1;nc|ENSG00000115415|P42224-2|STAT1 ENSG00000115415|ENST00000361099|STAT1 ENSG00000115415|ENST00000361099|STAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 336.51959228515625 3 336.518447 1006.53351 2.0213 0.0006802 0.44777 0.00015068 2.4691 0.00083088 336.5185821087262 13.201 0.25346 13.444 13.32 13.573 0.24346 60 19 4 0 0 0 0.71911 1 5812 5812 2.9952 1.0889 1 2467200 5424 1969 3599 3610 6023 6023 0.030506343490856125 EPYTKKEL 8 Unmodified _EPYTKKEL_ 0 0 0 ENSG00000115415|ENST00000361099|STAT1;nc|ENSG00000115415|P42224-2|STAT1 ENSG00000115415|ENST00000361099|STAT1 ENSG00000115415|ENST00000361099|STAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.2755432128906 2 504.274032 1006.53351 2.6866 0.0013548 1.05 0.00052951 3.7366 0.0018843 504.2744460191091 13.189 0.38446 13.496 13.301 13.686 0.30727 86 25 4 0 0 0 0.021964 2 5915 5915;5964 85.642 22.598 1 3163500 5425 1969 3599 3610 6024;6025 6024 0.030506343490856125 EPYTKKEL 8 Unmodified _EPYTKKEL_ 0 0 0 ENSG00000115415|ENST00000361099|STAT1;nc|ENSG00000115415|P42224-2|STAT1 ENSG00000115415|ENST00000361099|STAT1 ENSG00000115415|ENST00000361099|STAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.5191955566406 3 336.518447 1006.53351 1.8976 0.00063858 0.87675 0.00029504 2.7744 0.00093362 336.5187365579522 13.185 0.53669 13.492 13.216 13.752 0.30727 119 33 5 0 0 0 0.23933 1 5981 5981 47.594 12.662 1 6378800 5426 1969 3599 3610 6026 6026 0.030506343490856125 EPYTKKEL 8 Unmodified _EPYTKKEL_ 0 0 0 ENSG00000115415|ENST00000361099|STAT1;nc|ENSG00000115415|P42224-2|STAT1 ENSG00000115415|ENST00000361099|STAT1 ENSG00000115415|ENST00000361099|STAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.27587890625 2 504.274032 1006.53351 3.4875 0.0017587 0.65001 0.00032778 4.1375 0.0020864 504.2743389528815 12.855 0.33504 13.497 13.311 13.646 0.64272 27 9 4 0 0 0 0.0087265 1 5775 5775 114.65 29.008 1 9274300 5427 1969 3599 3610 6027 6027 0.030506343490856125 EPYWPPDFRD 10 Unmodified _EPYWPPDFRD_ 0 0 0 nc|ENSG00000171105|P06213-2|INSR;ENSG00000171105|ENST00000302850|INSR nc|ENSG00000171105|P06213-2|INSR nc|ENSG00000171105|P06213-2|INSR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 661.2979736328125 2 661.296027 1320.5775 NaN NaN NaN NaN NaN NaN NaN 56.946 1 57.724 57.224 58.224 0.77786 0 0 0 0.99225 1 26050 26050 6.7232 0.99131 1 5428 4786 3600 3611 6028 6028 -0.06996381224598736 EPYWPPDFRD 10 Unmodified _EPYWPPDFRD_ 0 0 0 nc|ENSG00000171105|P06213-2|INSR;ENSG00000171105|ENST00000302850|INSR nc|ENSG00000171105|P06213-2|INSR nc|ENSG00000171105|P06213-2|INSR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 661.296875 2 661.296027 1320.5775 NaN NaN NaN NaN NaN NaN NaN 57.316 1 58.084 57.584 58.584 0.76861 0 0 0 0.99225 1 26235 26235 6.7232 0.51738 1 5429 4786 3600 3611 6029 6029 -0.06996381224598736 EPYYHCYHD 9 Unmodified _EPYYHCYHD_ 0 0 0 REV__ENST00000561483.5_1_15:84323016-84694242:+|nuORF REV__ENST00000561483.5_1_15:84323016-84694242:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.7342529296875 2 613.732206 1225.44986 NaN NaN NaN NaN NaN NaN NaN 86.901 1 86.931 86.431 87.431 0.030289 0 0 0 0.90611 1 43846 43846 2.0598 0.40713 1 + 5430 12768 3601 3612 6030 6030 -0.15384845090284216 EQALAAEHRI 10 Unmodified _EQALAAEHRI_ 0 0 0 ENST00000422983.1_1_1:53038862-53039237:+|nuORF ENST00000422983.1_1_1:53038862-53039237:+|nuORF ENST00000422983.1_1_1:53038862-53039237:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.3055419921875 2 569.304187 1136.59382 3.7616 0.0021415 0.48557 0.00027644 4.2472 0.002418 569.3044434520327 20.345 0.33129 20.998 20.834 21.165 0.65346 62 25 3 0 0 0 0.93726 1 9198 9198 1.1933 0.59184 1 599300 5431 7774 3602 3613 6031 6031 0.030987447321649597 EQCCCCEQEE 10 Unmodified _EQCCCCEQEE_ 0 0 0 ENSG00000134780|ENST00000257215|DAGLA ENSG00000134780|ENST00000257215|DAGLA ENSG00000134780|ENST00000257215|DAGLA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.1746215820312 2 602.174691 1202.33483 NaN NaN NaN NaN NaN NaN NaN 10.286 1 10.582 10.082 11.082 0.2956 0 0 0 1.002 1 4523 4523 0 0 1 5432 2830 3603 3614 6032 6032 -0.25824401670251973 EQCCDCMLM 9 Unmodified _EQCCDCMLM_ 0 0 0 REV__ENST00000444125.1_1_9:132099225-132104149:+|nuORF REV__ENST00000444125.1_1_9:132099225-132104149:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.171875 2 538.172909 1074.33126 NaN NaN NaN NaN NaN NaN NaN 80.923 1 81.092 80.592 81.592 0.16862 0 0 0 0.91206 1 39711 39711 0.6015 0 1 + 5433 16310 3604 3615 6033 6033 -0.2029274297781285 EQEKQKKK 8 Unmodified _EQEKQKKK_ 0 0 0 REV__ENST00000461007.6_1_X:155253834-155254005:+|nuORF REV__ENST00000461007.6_1_X:155253834-155254005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.3062133789062 2 523.303655 1044.59276 3.4122 0.0017856 0.43544 0.00022787 3.8477 0.0020135 523.3038839446587 80.776 1.6208 81.436 80.742 82.363 0.65998 229 108 3 0 0 0 0.7441 1 37310 37310 2.3027 0 1 1677500 + 5434 13894 3605 3616 6034 6034 0.07224530363282611 EQFKKTSL 8 Unmodified _EQFKKTSL_ 0 0 0 ENSG00000105127|ENST00000269701|AKAP8;ENST00000598597.6_1_19:15465728-15479935:-|nuORF ENSG00000105127|ENST00000269701|AKAP8 ENSG00000105127|ENST00000269701|AKAP8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.7757873535156 2 490.7742 979.533846 NaN NaN NaN NaN NaN NaN NaN 14.288 1 14.936 14.436 15.436 0.6482 0 0 0 0.19756 1 6429 6429 69.105 21.356 1 5435 1470 3606 3617 6035 6035 0.043260540689630034 EQFLNEKRQHE 11 Unmodified _EQFLNEKRQHE_ 0 0 0 ENSG00000196422|ENST00000356818|PPP1R26 ENSG00000196422|ENST00000356818|PPP1R26 ENSG00000196422|ENST00000356818|PPP1R26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 729.1414184570312 2 729.360222 1456.70589 2.4527 0.0017889 -1.0828 -0.00078978 1.3699 0.00099913 729.8615620730284 98.21 0.076324 98.276 98.218 98.294 0.066025 8 5 2 0 0 0 0.84422 1 52689 52689 4.897 1.9018 1 10774000 5436 5744 3607 3618 6036 6036 -0.004194459814698348 EQGKLRERI 9 Unmodified _EQGKLRERI_ 0 0 0 REV__ENSG00000160799|ENST00000683445|CCDC12 REV__ENSG00000160799|ENST00000683445|CCDC12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.8304443359375 2 564.827829 1127.64111 3.3688 0.0019028 0.3627 0.00020486 3.7315 0.0021076 564.8281330903466 16.856 0.81587 17.161 16.668 17.484 0.30438 96 76 2 0 0 0 1.0894 1 7566 7566 0.45834 0 1 117690 + 5437 12894 3608 3619 6037 6037 0.08239024003160011 EQGSTGPQ 8 Unmodified _EQGSTGPQ_ 0 0 0 REV__ENSG00000278195|ENST00000610913|SSTR3 REV__ENSG00000278195|ENST00000610913|SSTR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 402.1808166503906 2 402.180132 802.345711 NaN NaN NaN NaN NaN NaN NaN 70.518 1 71.18 70.68 71.68 0.66209 0 0 0 0.99035 1 32323 32323 1.8442 0 1 + 5438 14749 3609 3620 6038 6038 -0.06336803855469952 EQIAKYRQL 9 Unmodified _EQIAKYRQL_ 0 0 0 ENSG00000089048|ENST00000617257|ESF1 ENSG00000089048|ENST00000617257|ESF1 ENSG00000089048|ENST00000617257|ESF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.827392578125 2 574.824755 1147.63496 3.5025 0.0020133 -0.36043 -0.00020718 3.142 0.0018061 574.8247688985638 39.502 0.21155 40.302 40.178 40.389 0.80014 23 10 3 0 0 0 0.086415 1 17864 17864 36.127 1.7253 1 333650 5439 1027 3610 3621 6039 6039 0.0670450577167685 EQIAKYRQL 9 Unmodified _EQIAKYRQL_ 0 0 0 ENSG00000089048|ENST00000617257|ESF1 ENSG00000089048|ENST00000617257|ESF1 ENSG00000089048|ENST00000617257|ESF1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 574.824755 1147.63496 3.6406 0.0020927 -0.58727 -0.00033758 3.0534 0.0017552 574.8245250348305 40.492 0.15953 40.492 40.37 40.529 0 0.045394 -0.00053285 NaN 36.127 12 5 3 NaN NaN NaN NaN 0 NaN NaN 0 647270 5440 1027 3610 3621 0.0670450577167685 EQIAKYRQL 9 Unmodified _EQIAKYRQL_ 0 0 0 ENSG00000089048|ENST00000617257|ESF1 ENSG00000089048|ENST00000617257|ESF1 ENSG00000089048|ENST00000617257|ESF1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 574.824755 1147.63496 3.9078 0.0022463 1.1345 0.00065216 5.0424 0.0028985 574.8254749585972 39.904 0.12117 40.545 40.448 40.569 0.64135 0.098892 0.0014466 NaN 36.127 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 344380 5441 1027 3610 3621 0.0670450577167685 EQIKEYHHL 9 Unmodified _EQIKEYHHL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.54168701171875 3 399.540134 1195.59857 2.6497 0.0010587 -0.41702 -0.00016661 2.2327 0.00089205 399.54017217456726 13.933 0.12574 13.933 13.865 13.99 0 14 8 2 0 0 0 0.136 1 6126 6126 27.629 19.473 1 778560 5442 4953 3611 3622 6040 6040 0.008596288749458836 EQIKEYHHL 9 Unmodified _EQIKEYHHL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.5409240722656 3 399.540134 1195.59857 2.352 0.00093974 0.4136 0.00016525 2.7656 0.001105 399.54018949844215 13.281 0.22892 13.524 13.405 13.634 0.24346 44 16 3 0 0 0 0.22824 2 5770 5770;5819 21.537 14.435 1 595790 5443 4953 3611 3622 6041;6042 6041 0.008596288749458836 EQIKEYHHL 9 Unmodified _EQIKEYHHL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.5413513183594 3 399.540134 1195.59857 2.4781 0.00099011 0.31397 0.00012545 2.7921 0.0011156 399.54021259227346 13.235 0.34163 13.542 13.388 13.729 0.30727 78 23 4 0 0 0 0.091193 3 5969 5924;5969;6011 34.932 22.059 1 1594300 5444 4953 3611 3622 6043;6044;6045 6044 0.008596288749458836 EQIKEYHHL 9 Unmodified _EQIKEYHHL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.54144287109375 3 399.540134 1195.59857 3.1582 0.0012618 0.26317 0.00010515 3.4214 0.001367 399.54021199238787 12.856 0.26055 13.498 13.413 13.673 0.64272 21 7 4 0 0 0 0.091193 1 5778 5778 34.932 13.342 1 2723100 5445 4953 3611 3622 6046 6046 0.008596288749458836 EQIKEYHHL 9 Unmodified _EQIKEYHHL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 598.8085327148438 2 598.806562 1195.59857 4.2333 0.0025349 -0.069203 -4.1439E-05 4.1641 0.0024935 598.8062542679947 12.855 0.16698 13.497 13.413 13.58 0.64272 7 4 2 0 0 0 0.061685 1 5794 5794 45.7 24.163 1 271440 5446 4953 3611 3622 6047 6047 0.008596288749458836 EQIKEYHHL 9 Unmodified _EQIKEYHHL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 598.806562 1195.59857 3.2113 0.0019229 0.07266 4.3509E-05 3.2839 0.0019664 598.8064345685649 13.221 0.10835 13.528 13.463 13.571 0.30727 0.015265 9.8845E-05 NaN 45.7 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 102190 5447 4953 3611 3622 0.008596288749458836 EQIKKTEL 8 Unmodified _EQIKKTEL_ 0 0 0 ENSG00000107581|ENST00000369144|EIF3A;nc|ENSG00000107581|Q14152-2|EIF3A ENSG00000107581|ENST00000369144|EIF3A ENSG00000107581|ENST00000369144|EIF3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.7888488769531 2 494.787307 987.560061 2.6091 0.0012909 0.25652 0.00012692 2.8656 0.0014179 494.78744578451796 12.961 0.22859 13.268 13.159 13.388 0.30727 25 9 4 0 0 0 0.0069601 1 5847 5847 125.53 14.854 1 2248200 5448 1600 3612 3623 6048 6048 0.06578323240421469 EQIKKTEL 8 Unmodified _EQIKKTEL_ 0 0 0 ENSG00000107581|ENST00000369144|EIF3A;nc|ENSG00000107581|Q14152-2|EIF3A ENSG00000107581|ENST00000369144|EIF3A ENSG00000107581|ENST00000369144|EIF3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.7893371582031 2 494.787307 987.560061 3.4692 0.0017165 0.80488 0.00039825 4.2741 0.0021148 494.78772075200663 12.786 0.16912 13.429 13.311 13.48 0.64272 12 4 4 0 0 0 0.00453 1 5742 5742 129.77 22.585 1 5163500 5449 1600 3612 3623 6049 6049 0.06578323240421469 EQIKKTEL 8 Unmodified _EQIKKTEL_ 0 0 0 ENSG00000107581|ENST00000369144|EIF3A;nc|ENSG00000107581|Q14152-2|EIF3A ENSG00000107581|ENST00000369144|EIF3A ENSG00000107581|ENST00000369144|EIF3A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 494.787307 987.560061 2.7721 0.0013716 0.041956 2.0759E-05 2.814 0.0013924 494.78739020079985 13.027 0.15919 13.271 13.183 13.342 0.24346 -0.051876 -0.00038512 NaN 129.77 30 13 3 NaN NaN NaN NaN 0 NaN NaN 0 1100300 5450 1600 3612 3623 0.06578323240421469 EQIQYYYNQHV 11 Unmodified _EQIQYYYNQHV_ 0 0 0 ENSG00000095777|ENST00000642920|MYO3A ENSG00000095777|ENST00000642920|MYO3A ENSG00000095777|ENST00000642920|MYO3A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 742.6279907226562 2 742.843873 1483.67319 NaN NaN NaN NaN NaN NaN NaN 100.37 1 100.37 99.869 100.87 0 0 0 0 0.94174 1 55377 55377 12.241 3.4953 1 5451 1123 3613 3624 6050 6050 -0.04929653104341014 EQKKRNGI 8 Unmodified _EQKKRNGI_ 0 0 0 nc|ENSG00000151458|Q9ULJ7-2|ANKRD50;ENSG00000151458|ENST00000504087|ANKRD50 nc|ENSG00000151458|Q9ULJ7-2|ANKRD50 nc|ENSG00000151458|Q9ULJ7-2|ANKRD50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.7847595214844 2 486.78289 971.551228 2.9521 0.001437 0.18807 9.1552E-05 3.1401 0.0015286 486.7828157413941 81.668 0.28757 81.916 81.759 82.046 0.24802 29 13 3 0 0 0 0.65723 1 37616 37616 9.3474 9.3474 1 932420 5452 3708 3614 3625 6051 6051 0.06431394394610379 EQKLKAESL 9 Unmodified _EQKLKAESL_ 0 0 0 nc|ENSG00000122966|O14578-3|CIT;ENST00000545913.5_1_12:120126039-120222037:-|nuORF;ENST00000537607.5_1_12:120126039-120222037:-|nuORF;nc|ENSG00000122966|O14578|CIT;ENSG00000122966|ENST00000392521|CIT nc|ENSG00000122966|O14578-3|CIT nc|ENSG00000122966|O14578-3|CIT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.29931640625 2 523.298039 1044.58152 3.1796 0.0016639 -0.21536 -0.0001127 2.9642 0.0015512 523.2974419535894 18.474 0.13074 18.772 18.69 18.821 0.29753 13 11 2 0 0 0 0.72052 1 8376 8376 8.7454 0 1 156480 5453 2288 3615 3626 6052 6052 0.061017082691250835 EQKLKWAF 8 Unmodified _EQKLKWAF_ 0 0 0 ENSG00000115756|ENST00000307845|HPCAL1;ENSG00000104490|ENST00000220931|NCALD ENSG00000115756|ENST00000307845|HPCAL1 ENSG00000115756|ENST00000307845|HPCAL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.294677734375 2 525.292559 1048.57057 3.3468 0.001758 0.27996 0.00014706 3.6267 0.0019051 525.2927799922544 49.766 0.35329 50.027 49.839 50.193 0.26146 32 14 4 0 0 0 0.21011 1 22789 22789 42.095 21.641 1 1820000 5454 1988 3616 3627 6053 6053 0.04822350685503807 EQKLKWAF 8 Unmodified _EQKLKWAF_ 0 0 0 ENSG00000115756|ENST00000307845|HPCAL1;ENSG00000104490|ENST00000220931|NCALD ENSG00000115756|ENST00000307845|HPCAL1 ENSG00000115756|ENST00000307845|HPCAL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.2853393554688 2 525.292559 1048.57057 NaN NaN NaN NaN NaN NaN NaN 49.223 1 49.879 49.379 50.379 0.65524 0 0 0 0.099479 1 22518 22518 54.774 29.374 1 5455 1988 3616 3627 6054 6054 0.04822350685503807 EQKLKWAF 8 Unmodified _EQKLKWAF_ 0 0 0 ENSG00000115756|ENST00000307845|HPCAL1;ENSG00000104490|ENST00000220931|NCALD ENSG00000115756|ENST00000307845|HPCAL1 ENSG00000115756|ENST00000307845|HPCAL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.2933349609375 2 525.292559 1048.57057 NaN NaN NaN NaN NaN NaN NaN 49.261 1 49.916 49.416 50.416 0.65524 0 0 0 0.099479 1 22535 22535 54.774 29.374 1 5456 1988 3616 3627 6055 6055 0.04822350685503807 EQKLRRWKAR 10 Unmodified _EQKLRRWKAR_ 0 0 0 REV__ENSG00000152804|ENST00000282728|HHEX REV__ENSG00000152804|ENST00000282728|HHEX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.9117431640625 2 685.910019 1369.80549 4.1545 0.0028496 -1.678 -0.001151 2.4765 0.0016987 685.9086674867965 94.938 0.94016 95.555 94.962 95.902 0.61736 106 52 5 0 0 0 0.94217 1 43594 43594 0.45834 0.057624 1 3449400 + 5457 12659 3617 3628 6056 6056 0.1353746121376389 EQKWKWWEEER 11 Unmodified _EQKWKWWEEER_ 0 0 0 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 817.2547607421875 2 817.391522 1632.76849 NaN NaN NaN NaN NaN NaN NaN 106.16 1 106.21 105.71 106.71 0.04837 0 0 0 1.0073 1 57438 57438 1.1933 0.88631 1 5458 5957 3618 3629 6057 6057 -0.022582999132964687 EQLCCPCCCCN 11 Unmodified _EQLCCPCCCCN_ 0 0 0 REV__PLSCR2|p.E182Afs*27|1|0.08|ENSG00000163746|chr3:146454159-146454160|-/G|frameshift_variant REV__PLSCR2|p.E182Afs*27|1|0.08|ENSG00000163746|chr3:146454159-146454160|-/G|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 609.6826171875 2 609.680575 1217.3466 NaN NaN NaN NaN NaN NaN NaN 95.32 1 95.587 95.087 96.087 0.2675 0 0 0 1.0082 1 43797 43797 0 0 1 + 5459 13023 3619 3630 6058 6058 -0.25338199452244226 EQLKTKEL 8 Unmodified _EQLKTKEL_ 0 0 0 REV__nc|ENSG00000100503|Q8N4C6-4|NIN REV__nc|ENSG00000100503|Q8N4C6-4|NIN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.7886962890625 2 494.787307 987.560061 2.7721 0.0013716 0.041956 2.0759E-05 2.814 0.0013924 494.78739020079985 13.027 0.15919 13.271 13.183 13.342 0.24346 30 13 3 0 0 0 0.03983 1 5662 5662 69.105 0 1 1100300 + 5460 10834 3620 3631 6059 6059 0.06578323240421469 EQLKYFRERRW 11 Unmodified _EQLKYFRERRW_ 0 0 0 REV__ENSG00000187091|ENST00000334661|PLCD1;REV__ENST00000461445.5_1_3:38051483-38071030:-|nuORF REV__ENSG00000187091|ENST00000334661|PLCD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 805.9310302734375 2 805.931148 1609.84774 NaN NaN NaN NaN NaN NaN NaN 31.544 1 32.333 31.833 32.833 0.78879 0 0 0 1.0082 1 14248 14248 0 0 1 + 5461 14085;16493 3621 3632 6060 6060 0.06721391831479195 EQLRFWKHWHS 11 Unmodified _EQLRFWKHWHS_ 0 0 0 nc|ENSG00000158055|Q8TE85-4|GRHL3;nc|ENSG00000158055|Q8TE85-3|GRHL3;ENSG00000158055|ENST00000361548|GRHL3;nc|ENSG00000158055|Q8TE85-2|GRHL3;nc|ENSG00000158055|Q8TE85|GRHL3 nc|ENSG00000158055|Q8TE85-4|GRHL3 nc|ENSG00000158055|Q8TE85-4|GRHL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 777.8216552734375 2 777.391659 1552.76877 NaN NaN NaN NaN NaN NaN NaN 101.63 1 101.63 101.13 102.13 0 0 0 0 1.0062 1 56141 56141 2.9952 1.6657 1 5462 3973 3622 3633 6061 6061 0.01449164597215713 EQLRKKQRTI 10 Unmodified _EQLRKKQRTI_ 0 0 0 REV__nc|ENSG00000189077|Q9BXJ8-2|TMEM120A REV__nc|ENSG00000189077|Q9BXJ8-2|TMEM120A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 650.5748901367188 2 650.39641 1298.77827 NaN NaN NaN NaN NaN NaN NaN 102.53 1 102.59 102.09 103.09 0.055092 0 0 0 0.99995 1 55658 55658 1.4819 0.28856 1 + 5463 14172 3623 3634 6062 6062 0.14082932882729438 EQMRKIAL 8 Unmodified _EQMRKIAL_ 0 0 0 ENST00000466342.1_1_5:179250916-179260288:+|nuORF;nc|ENSG00000161011|Q13501-2|SQSTM1;ENSG00000161011|ENST00000389805|SQSTM1 ENST00000466342.1_1_5:179250916-179260288:+|nuORF ENST00000466342.1_1_5:179250916-179260288:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.7658996582031 2 494.784044 987.553536 3.3397 0.0016524 -1.0364 -0.00051282 2.3032 0.0011396 494.78365846089133 28.37 0.1999 28.37 28.228 28.428 0 14 11 2 0 0 0 0.13289 1 12808 12808 15.847 0 1 534410 5464 4090 3624 3635 6063 6063 0.05926106808044551 EQMRKIAL 8 Unmodified _EQMRKIAL_ 0 0 0 ENST00000466342.1_1_5:179250916-179260288:+|nuORF;nc|ENSG00000161011|Q13501-2|SQSTM1;ENSG00000161011|ENST00000389805|SQSTM1 ENST00000466342.1_1_5:179250916-179260288:+|nuORF ENST00000466342.1_1_5:179250916-179260288:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.7660217285156 2 494.784044 987.553536 3.0686 0.0015183 0.20199 9.9939E-05 3.2706 0.0016182 494.7841894687481 28.11 0.29819 28.372 28.196 28.494 0.26245 47 23 3 0 0 0 0.016273 1 12784 12784 74.929 32.834 1 944300 5465 4090 3624 3635 6064 6064 0.05926106808044551 EQMRKIAL 8 Unmodified _EQMRKIAL_ 0 0 0 ENST00000466342.1_1_5:179250916-179260288:+|nuORF;nc|ENSG00000161011|Q13501-2|SQSTM1;ENSG00000161011|ENST00000389805|SQSTM1 ENST00000466342.1_1_5:179250916-179260288:+|nuORF ENST00000466342.1_1_5:179250916-179260288:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.765869140625 2 494.784044 987.553536 3.1256 0.0015465 0.36552 0.00018085 3.4911 0.0017273 494.78431105127294 27.715 0.28769 28.334 28.163 28.45 0.61947 42 17 3 0 0 0 0.0062401 1 12714 12714 85.272 43.177 1 1195400 5466 4090 3624 3635 6065 6065 0.05926106808044551 EQNRREREKRR 11 Unmodified _EQNRREREKRR_ 0 0 0 REV__AFF3|p.K283Sfs*23|1|0.44|ENSG00000144218|chr2:100006657-100006657|T/-|frameshift_variant REV__AFF3|p.K283Sfs*23|1|0.44|ENSG00000144218|chr2:100006657-100006657|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 779.4273071289062 2 778.92746 1555.84037 2.409 0.0018764 -2.7071 -0.0021087 -0.29813 -0.00023222 779.4262723641835 99.016 0.061646 99.082 99.04 99.101 0.066025 6 4 2 0 0 0 0.88721 1 53408 53408 2.9952 1.6657 1 31163000 + 5467 9932 3625 3636 6066 6066 0.08468052283774341 EQPETYYKW 9 Unmodified _EQPETYYKW_ 0 0 0 ENSG00000164880|ENST00000404767|INTS1 ENSG00000164880|ENST00000404767|INTS1 ENSG00000164880|ENST00000404767|INTS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 622.7868041992188 2 622.285128 1242.5557 3.8563 0.0023997 -0.98999 -0.00061606 2.8664 0.0017837 622.2847204303524 47.049 0.3142 47.313 47.151 47.466 0.26363 18 10 2 0 0 0 0.053453 1 21503 21503 45.7 22.963 1 442440 5468 4351 3626 3637 6067 6067 -0.05587185973149644 EQPETYYKW 9 Unmodified _EQPETYYKW_ 0 0 0 ENSG00000164880|ENST00000404767|INTS1 ENSG00000164880|ENST00000404767|INTS1 ENSG00000164880|ENST00000404767|INTS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 622.2872314453125 2 622.285128 1242.5557 3.8595 0.0024017 0.0058782 3.6579E-06 3.8654 0.0024054 622.2849500490115 46.539 0.26166 47.191 47.026 47.287 0.65219 18 9 3 0 0 0 0.10584 1 21293 21293 31.268 19.774 1 534210 5469 4351 3626 3637 6068 6068 -0.05587185973149644 EQPETYYKW 9 Unmodified _EQPETYYKW_ 0 0 0 ENSG00000164880|ENST00000404767|INTS1 ENSG00000164880|ENST00000404767|INTS1 ENSG00000164880|ENST00000404767|INTS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 622.2877197265625 2 622.285128 1242.5557 NaN NaN NaN NaN NaN NaN NaN 46.645 1 47.297 46.797 47.797 0.65219 0 0 0 0.55812 1 21364 21364 17.113 6.289 1 5470 4351 3626 3637 6069 6069 -0.05587185973149644 EQQERREEEE 10 Unmodified _EQQERREEEE_ 0 0 0 REV__ENSG00000159450|ENST00000614923|TCHH REV__ENSG00000159450|ENST00000614923|TCHH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 680.8777465820312 2 681.300027 1360.5855 NaN NaN NaN NaN NaN NaN NaN 108.33 1 108.38 107.88 108.88 0.04248 0 0 0 1.0003 1 58501 58501 1.4819 0 1 + 5471 12852 3627 3638 6070 6070 -0.08036898765726619 EQQQWRQRWFQ 11 Unmodified _EQQQWRQRWFQ_ 0 0 0 ENST00000442074.1_1_7:78115917-78116193:+|nuORF ENST00000442074.1_1_7:78115917-78116193:+|nuORF ENST00000442074.1_1_7:78115917-78116193:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 810.3907470703125 2 810.39493 1618.77531 NaN NaN NaN NaN NaN NaN NaN 106.62 1 106.62 106.12 107.12 0 0 0 0 1.0073 1 58538 58538 1.1933 0.84271 1 5472 7942 3628 3639 6071 6071 -0.009329422420705669 EQQRWERERQW 11 Unmodified _EQQRWERERQW_ 0 0 0 nc|ENSG00000104880|Q6ZSZ5-2|ARHGEF18;nc|ENSG00000104880|Q6ZSZ5-1|ARHGEF18;nc|ENSG00000104880|Q6ZSZ5-6|ARHGEF18;nc|ENSG00000104880|Q6ZSZ5-5|ARHGEF18;ENSG00000104880|ENST00000668164|ARHGEF18 nc|ENSG00000104880|Q6ZSZ5-2|ARHGEF18 nc|ENSG00000104880|Q6ZSZ5-2|ARHGEF18 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 815.979248046875 2 815.895294 1629.77604 NaN NaN NaN NaN NaN NaN NaN 99.043 1 99.343 98.843 99.843 0.29987 0 0 0 1.008 1 45708 45708 0.26902 0.26902 1 5473 1456 3629 3640 6072 6072 -0.013661475930121014 EQREAWWKRK 10 Unmodified _EQREAWWKRK_ 0 0 0 ENST00000433770.1_1_10:31982192-31996309:-|nuORF ENST00000433770.1_1_10:31982192-31996309:-|nuORF ENST00000433770.1_1_10:31982192-31996309:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 708.4420776367188 2 708.878385 1415.74222 2.404 0.0017041 -2.5192 -0.0017858 -0.1152 -8.1664E-05 708.8772094935797 107.63 0.057556 107.68 107.65 107.71 0.045425 4 2 2 0 0 0 0.12676 1 58175 58175 3.5965 0 1 654880 5474 7876 3630 3641 6073 6073 0.05097475705861143 EQRFRKKRRRS 11 Unmodified _EQRFRKKRRRS_ 0 0 0 nc|ENSG00000186854|Q86V40-2|TRABD2A;ENSG00000186854|ENST00000409520|TRABD2A nc|ENSG00000186854|Q86V40-2|TRABD2A nc|ENSG00000186854|Q86V40-2|TRABD2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.3115844726562 3 516.309829 1545.90766 4.2803 0.00221 -0.81003 -0.00041823 3.4703 0.0017917 516.309644245638 106.21 0.14741 106.53 106.43 106.58 0.31628 12 4 4 0 0 0 0.91489 1 49041 49041 0 0 1 743270 5475 5589 3631 3642 6074 6074 0.1565412728539286 EQRFRKKRRRS 11 Unmodified _EQRFRKKRRRS_ 0 0 0 nc|ENSG00000186854|Q86V40-2|TRABD2A;ENSG00000186854|ENST00000409520|TRABD2A nc|ENSG00000186854|Q86V40-2|TRABD2A nc|ENSG00000186854|Q86V40-2|TRABD2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.3116455078125 3 516.309829 1545.90766 3.6391 0.0018789 -0.55527 -0.00028669 3.0839 0.0015922 516.3091247052625 106.2 0.15842 106.8 106.71 106.87 0.59969 11 4 4 0 0 0 0.91489 2 49044 49044;49054 0 0 1 651070 5476 5589 3631 3642 6075;6076 6075 0.1565412728539286 EQRKKIETL 9 Unmodified _EQRKKIETL_ 0 0 0 nc|ENSG00000117859|Q96SU4-3|OSBPL9;nc|ENSG00000117859|Q96SU4-7|OSBPL9;nc|ENSG00000117859|Q96SU4-2|OSBPL9;ENSG00000117859|ENST00000428468|OSBPL9;nc|ENSG00000117859|Q96SU4-6|OSBPL9;ENST00000524620.1_1_1:52211285-52225200:+|nuORF;ENST00000484890.5_1_1:52211210-52222042:+|nuORF;ENST00000473207.6_1_1:52195646-52226369:+|nuORF nc|ENSG00000117859|Q96SU4-3|OSBPL9 nc|ENSG00000117859|Q96SU4-3|OSBPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 382.2286682128906 3 382.227667 1143.66117 2.8845 0.0011025 0.23295 8.904E-05 3.1174 0.0011916 382.2276142145229 12.564 0.065215 12.564 12.529 12.594 0 14 5 3 0 0 0 0.027096 1 5473 5473 59.052 15.576 1 5019300 5477 2096 3632 3643 6077 6077 0.09508774943151366 EQRKKIETL 9 Unmodified _EQRKKIETL_ 0 0 0 nc|ENSG00000117859|Q96SU4-3|OSBPL9;nc|ENSG00000117859|Q96SU4-7|OSBPL9;nc|ENSG00000117859|Q96SU4-2|OSBPL9;ENSG00000117859|ENST00000428468|OSBPL9;nc|ENSG00000117859|Q96SU4-6|OSBPL9;ENST00000524620.1_1_1:52211285-52225200:+|nuORF;ENST00000484890.5_1_1:52211210-52222042:+|nuORF;ENST00000473207.6_1_1:52195646-52226369:+|nuORF nc|ENSG00000117859|Q96SU4-3|OSBPL9 nc|ENSG00000117859|Q96SU4-3|OSBPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 382.22821044921875 3 382.227667 1143.66117 2.0417 0.00078038 -0.71099 -0.00027176 1.3307 0.00050862 382.2274530004264 12.419 0.059488 12.726 12.691 12.751 0.30727 8 3 3 0 0 0 0.057456 1 5601 5601 43.982 15.487 1 10111000 5478 2096 3632 3643 6078 6078 0.09508774943151366 EQRKKIETL 9 Unmodified _EQRKKIETL_ 0 0 0 nc|ENSG00000117859|Q96SU4-3|OSBPL9;nc|ENSG00000117859|Q96SU4-7|OSBPL9;nc|ENSG00000117859|Q96SU4-2|OSBPL9;ENSG00000117859|ENST00000428468|OSBPL9;nc|ENSG00000117859|Q96SU4-6|OSBPL9;ENST00000524620.1_1_1:52211285-52225200:+|nuORF;ENST00000484890.5_1_1:52211210-52222042:+|nuORF;ENST00000473207.6_1_1:52195646-52226369:+|nuORF nc|ENSG00000117859|Q96SU4-3|OSBPL9 nc|ENSG00000117859|Q96SU4-3|OSBPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.2287292480469 3 382.227667 1143.66117 3.1109 0.0011891 -0.53437 -0.00020425 2.5765 0.0009848 382.2275568681776 12.409 0.058697 13.051 13.008 13.066 0.64184 7 3 3 0 0 0 0.027096 1 5561 5561 59.052 20.438 1 7597900 5479 2096 3632 3643 6079 6079 0.09508774943151366 EQRKKIETL 9 Unmodified _EQRKKIETL_ 0 0 0 nc|ENSG00000117859|Q96SU4-3|OSBPL9;nc|ENSG00000117859|Q96SU4-7|OSBPL9;nc|ENSG00000117859|Q96SU4-2|OSBPL9;ENSG00000117859|ENST00000428468|OSBPL9;nc|ENSG00000117859|Q96SU4-6|OSBPL9;ENST00000524620.1_1_1:52211285-52225200:+|nuORF;ENST00000484890.5_1_1:52211210-52222042:+|nuORF;ENST00000473207.6_1_1:52195646-52226369:+|nuORF nc|ENSG00000117859|Q96SU4-3|OSBPL9 nc|ENSG00000117859|Q96SU4-3|OSBPL9 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 382.227667 1143.66117 1.9758 0.00075522 -0.081672 -3.1217E-05 1.8942 0.00072401 382.2276851603424 12.438 0.042667 12.7 12.664 12.707 0.26154 -0.0604 9.8404E-05 NaN 59.052 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 5426900 5480 2096 3632 3643 0.09508774943151366 EQRQRRWRRER 11 Unmodified _EQRQRRWRRER_ 0 0 0 ENST00000370033.8_1_10:103799782-103815930:-|nuORF ENST00000370033.8_1_10:103799782-103815930:-|nuORF ENST00000370033.8_1_10:103799782-103815930:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 828.4563598632812 2 828.456719 1654.89889 NaN NaN NaN NaN NaN NaN NaN 97.55 1 97.84 97.34 98.34 0.28923 0 0 0 1.0082 1 44821 44821 0 0 1 5481 7297 3633 3644 6080 6080 0.0976315364889615 EQRRKLRRRLF 11 Unmodified _EQRRKLRRRLF_ 0 0 0 REV__nc|ENSG00000131188|Q8TB68-2|PRR7 REV__nc|ENSG00000131188|Q8TB68-2|PRR7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 779.4869384765625 2 779.481674 1556.9488 NaN NaN NaN NaN NaN NaN NaN 99.307 1 99.307 98.807 99.807 0 0 0 0 1.008 1 54578 54578 0.26902 0.26902 1 + 5482 11849 3634 3645 6081 6081 0.19259888324859276 EQRRRRRRRRW 11 Unmodified _EQRRRRRRRRW_ 0 0 0 REV__nc|ENSG00000149177|Q12913-3|PTPRJ REV__nc|ENSG00000149177|Q12913-3|PTPRJ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.80126953125 3 571.007255 1709.99994 NaN NaN NaN NaN NaN NaN NaN 88.145 1 88.145 87.645 88.645 0 0 0 0 1.0079 1 45664 45664 0.40827 0.32491 1 + 5483 17979 3635 3646 6082 6082 0.17333650142268198 EQRRYVSSL 9 Unmodified _EQRRYVSSL_ 0 0 0 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.8720397949219 3 379.871883 1136.59382 2.8589 0.001086 -0.88859 -0.00033755 1.9704 0.00074848 379.87130682328063 21.337 0.29061 21.337 21.196 21.487 0 62 26 3 0 0 0 0.11316 1 9545 9545 29.437 8.8562 1 633580 5484 821 3636 3647 6083 6083 0.03098744732187697 EQRRYVSSL 9 Unmodified _EQRRYVSSL_ 0 0 0 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.8728332519531 3 379.871883 1136.59382 2.8705 0.0010904 -0.01659 -6.3021E-06 2.8539 0.0010841 379.8717971732625 20.389 0.40239 21.043 20.817 21.22 0.65346 73 32 3 0 0 0 0.028483 2 9260 9215;9260 57.249 27.812 1 1157500 5485 821 3636 3647 6084;6085 6085 0.03098744732187697 EQTANKRQRKI 11 Unmodified _EQTANKRQRKI_ 0 0 0 REV__nc|ENSG00000171310|Q9NPF2-2|CHST11 REV__nc|ENSG00000171310|Q9NPF2-2|CHST11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 686.3945922851562 2 686.394399 1370.77424 NaN NaN NaN NaN NaN NaN NaN 46.551 1 47.203 46.703 47.703 0.65219 0 0 0 1.0063 1 21322 21322 2.4985 1.0166 1 + 5486 13487 3637 3648 6086 6086 0.1036884338902837 EQYIREREWNR 11 Unmodified _EQYIREREWNR_ 0 0 0 nc|ENSG00000162614|Q0ZGT2-3|NEXN;nc|ENSG00000162614|Q0ZGT2-2|NEXN;ENSG00000162614|ENST00000334785|NEXN nc|ENSG00000162614|Q0ZGT2-3|NEXN nc|ENSG00000162614|Q0ZGT2-3|NEXN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 790.356201171875 2 789.89222 1577.76989 NaN NaN NaN NaN NaN NaN NaN 54.68 1 54.68 54.18 55.18 0 0 0 0 1.0074 1 25098 25098 1.0715 0.72083 1 5487 4148 3638 3649 6087 6087 0.0041133417546461715 EQYWEWCLNRE 11 Unmodified _EQYWEWCLNRE_ 0 0 0 REV__VPS13A|p.L1845Vfs*28|1|0.03|ENSG00000197969|chr9:77321285-77321286|-/GTACATT|frameshift_variant REV__VPS13A|p.L1845Vfs*28|1|0.03|ENSG00000197969|chr9:77321285-77321286|-/GTACATT|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 778.0051879882812 2 778.335358 1554.65616 2.3775 0.0018505 1.4926 0.0011617 3.87 0.0030122 778.3368360275845 108.01 0.12132 108.06 108 108.12 0.04248 6 5 2 0 0 0 0.13295 1 58319 58319 2.7352 0 1 681630 + 5488 14310 3639 3650 6088 6088 -0.09897896981760823 ERALQYKL 8 Unmodified _ERALQYKL_ 0 0 0 ENSG00000107959|ENST00000224949|PITRM1;nc|ENSG00000107959|Q5JRX3-2|PITRM1 ENSG00000107959|ENST00000224949|PITRM1 ENSG00000107959|ENST00000224949|PITRM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 341.2173767089844 3 340.86607 1019.57638 2.558 0.00087193 -0.038331 -1.3066E-05 2.5197 0.00085887 340.86609715585615 12.987 0.31233 13.63 13.413 13.725 0.64272 22 9 4 0 0 0 0.74071 1 5781 5781 1.6526 0 1 4867000 5489 1616 3640 3651 6089 6089 0.06737449197169099 ERAVREVL 8 Unmodified _ERAVREVL_ 0 0 0 nc|ENSG00000164403|Q2M3G4-2|SHROOM1;ENSG00000164403|ENST00000378679|SHROOM1 nc|ENSG00000164403|Q2M3G4-2|SHROOM1 nc|ENSG00000164403|Q2M3G4-2|SHROOM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.2869873046875 2 486.285266 970.555979 3.2949 0.0016023 1.381 0.00067155 4.6759 0.0022738 486.2862609362742 32.791 0.18859 33.045 32.955 33.144 0.25389 11 8 2 0 0 0 0.60101 1 14939 14939 13.906 0 1 181790 5490 4312 3641 3652 6090 6090 0.06952278537380607 ERAVREVL 8 Unmodified _ERAVREVL_ 0 0 0 nc|ENSG00000164403|Q2M3G4-2|SHROOM1;ENSG00000164403|ENST00000378679|SHROOM1 nc|ENSG00000164403|Q2M3G4-2|SHROOM1 nc|ENSG00000164403|Q2M3G4-2|SHROOM1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 486.285266 970.555979 3.1453 0.0015295 1.318 0.00064095 4.4633 0.0021705 486.28595947716167 32.226 0.32185 32.845 32.7 33.022 0.61831 -0.099965 -1.3977E-05 NaN 13.906 23 18 2 NaN NaN NaN NaN 0 NaN NaN 0 192920 5491 4312 3641 3652 0.06952278537380607 ERAYDQFEKEK 11 Unmodified _ERAYDQFEKEK_ 0 0 0 REV__ENSG00000154479|ENST00000447353|CFAP210 REV__ENSG00000154479|ENST00000447353|CFAP210 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 721.84912109375 2 721.849155 1441.68376 NaN NaN NaN NaN NaN NaN NaN 104.21 1 104.53 104.03 105.03 0.31863 0 0 0 1.0082 1 48152 48152 0 0 1 + 5492 12708 3642 3653 6091 6091 -0.019416704499462867 ERCRHLRIKIF 11 Unmodified _ERCRHLRIKIF_ 0 0 0 REV__ENST00000480342.5_1_1:8525723-8716473:-|nuORF REV__ENST00000480342.5_1_1:8525723-8716473:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.9534912109375 3 490.953995 1469.84016 NaN NaN NaN NaN NaN NaN NaN 86.93 1 86.93 86.43 87.43 0 0 0 0 1.0073 1 44686 44686 0.40827 0 1 + 5493 16686 3643 3654 6092 6092 0.1240296103021592 ERDLKVTDI 9 Unmodified _ERDLKVTDI_ 0 0 0 nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000105357|Q7Z406|MYH14;nc|ENSG00000105357|Q7Z406-6|MYH14;ENSG00000105357|ENST00000642316|MYH14;nc|ENSG00000105357|Q7Z406-5|MYH14 nc|ENSG00000105357|Q7Z406-4|MYH14 nc|ENSG00000105357|Q7Z406-4|MYH14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.537109375 3 363.536389 1087.58734 2.6823 0.0009751 -0.07768 -2.824E-05 2.6046 0.00094686 363.53636362133113 36.858 0.41202 36.858 36.668 37.08 0 53 17 4 0 0 0 0.048676 1 16693 16693 37.075 0 1 3146100 5494 1487 3644 3655 6093 6093 0.04704806780796389 EREERYTRISG 11 Unmodified _EREERYTRISG_ 0 0 0 REV__ENSG00000107960|ENST00000224950|STN1 REV__ENSG00000107960|ENST00000224950|STN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.9039611816406 3 465.904023 1394.69024 NaN NaN NaN NaN NaN NaN NaN 47.335 1 47.335 46.835 47.835 0 0 0 0 1.0075 1 21669 21669 0.32927 0 1 + 5495 11132 3645 3656 6094 6094 0.008682675014597407 EREKKRWLL 9 Unmodified _EREKKRWLL_ 0 0 0 ENSG00000214897|ENST00000445091|PNMA6E ENSG00000214897|ENST00000445091|PNMA6E ENSG00000214897|ENST00000445091|PNMA6E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 419.9210510253906 3 419.919056 1256.73534 2.836 0.0011909 1.9817 0.00083215 4.8177 0.002023 419.91983505013405 40.32 0.20088 40.32 40.199 40.4 0 12 6 3 0 0 0 0.67336 1 18310 18310 9.544 1.3884 1 718540 5496 6122 3646 3657 6095 6095 0.1172416282533959 EREKKRWLL 9 Unmodified _EREKKRWLL_ 0 0 0 ENSG00000214897|ENST00000445091|PNMA6E ENSG00000214897|ENST00000445091|PNMA6E ENSG00000214897|ENST00000445091|PNMA6E MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 419.919056 1256.73534 2.836 0.0011909 1.9817 0.00083215 4.8177 0.002023 419.91983505013405 40.32 0.20088 40.32 40.199 40.4 0 0.046983 -5.2229E-05 NaN 9.544 12 6 3 NaN NaN NaN NaN 0 NaN NaN 0 718540 5497 6122 3646 3657 0.1172416282533959 EREKKRWLL 9 Unmodified _EREKKRWLL_ 0 0 0 ENSG00000214897|ENST00000445091|PNMA6E ENSG00000214897|ENST00000445091|PNMA6E ENSG00000214897|ENST00000445091|PNMA6E MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 419.919056 1256.73534 3.0395 0.0012763 1.9259 0.0008087 4.9653 0.002085 420.2543423207201 40.015 0.38041 40.282 40.135 40.515 0.26696 0.0091391 -0.00012256 NaN 9.544 27 15 2 NaN NaN NaN NaN 0 NaN NaN 0 2123200 5498 6122 3646 3657 0.1172416282533959 ERHYFLRSP 9 Unmodified _ERHYFLRSP_ 0 0 0 REV__nc|ENSG00000073146|Q9BXT6-5|MOV10L1 REV__nc|ENSG00000073146|Q9BXT6-5|MOV10L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 402.21258544921875 3 402.21224 1203.61489 NaN NaN NaN NaN NaN NaN NaN 46.737 1 47.002 46.502 47.502 0.26561 0 0 0 0.33854 1 21361 21361 18.373 3.4159 1 + 5499 10501 3647 3658 6096 6096 0.021227548316801403 ERIMKAQAL 9 Unmodified _ERIMKAQAL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;ENST00000506915.1_1_4:190395906-190396341:+|nuORF;ENST00000378770.1_1_4:190394307-190396341:+|nuORF;nc|ENSG00000205100|Q58FG1|HSP90AA4P;nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000080824|P07900-2|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 353.87164306640625 3 353.870826 1058.59065 NaN NaN NaN NaN NaN NaN NaN 23.05 1 23.05 22.55 23.55 0 0 0 0 0.015435 1 10365 10365 63.227 36.004 1 5500 1127;913 3648 3659 6097 6097 0.06369778353814581 ERIMKAQAL 9 Unmodified _ERIMKAQAL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;ENST00000506915.1_1_4:190395906-190396341:+|nuORF;ENST00000378770.1_1_4:190394307-190396341:+|nuORF;nc|ENSG00000205100|Q58FG1|HSP90AA4P;nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000080824|P07900-2|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.3040161132812 2 530.302601 1058.59065 NaN NaN NaN NaN NaN NaN NaN 23.062 1 23.062 22.562 23.562 0 0 0 0 0.00011452 1 10372 10372 106.94 57.007 1 5501 1127;913 3648 3659 6098 6098 0.06369778353814581 ERIMKAQAL 9 Unmodified _ERIMKAQAL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;ENST00000506915.1_1_4:190395906-190396341:+|nuORF;ENST00000378770.1_1_4:190394307-190396341:+|nuORF;nc|ENSG00000205100|Q58FG1|HSP90AA4P;nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000080824|P07900-2|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 354.2057189941406 3 353.870826 1058.59065 1.9175 0.00067856 -0.17117 -6.0573E-05 1.7464 0.00061798 353.87087835121366 22.043 0.19469 22.63 22.519 22.714 0.58739 61 36 2 0 0 0 0.0063542 2 9804 9761;9804 71.708 44.485 1 4725400 5502 1127;913 3648 3659 6099;6100 6100 0.06369778353814581 ERIMKAQAL 9 Unmodified _ERIMKAQAL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;ENST00000506915.1_1_4:190395906-190396341:+|nuORF;ENST00000378770.1_1_4:190394307-190396341:+|nuORF;nc|ENSG00000205100|Q58FG1|HSP90AA4P;nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000080824|P07900-2|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.3037719726562 2 530.302601 1058.59065 NaN NaN NaN NaN NaN NaN NaN 21.966 1 22.554 22.054 23.054 0.58739 0 0 0 0.025394 1 9759 9759 63.961 22.121 1 5503 1127;913 3648 3659 6101 6101 0.06369778353814581 ERIMKAQAL 9 Unmodified _ERIMKAQAL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;ENST00000506915.1_1_4:190395906-190396341:+|nuORF;ENST00000378770.1_1_4:190394307-190396341:+|nuORF;nc|ENSG00000205100|Q58FG1|HSP90AA4P;nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000080824|P07900-2|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.3056640625 2 530.302601 1058.59065 NaN NaN NaN NaN NaN NaN NaN 22.095 1 22.682 22.182 23.182 0.58739 0 0 0 0.088893 1 9823 9823 43.772 19.752 1 5504 1127;913 3648 3659 6102 6102 0.06369778353814581 ERIMKAQAL 9 Unmodified _ERIMKAQAL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;ENST00000506915.1_1_4:190395906-190396341:+|nuORF;ENST00000378770.1_1_4:190394307-190396341:+|nuORF;nc|ENSG00000205100|Q58FG1|HSP90AA4P;nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000080824|P07900-2|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 353.871826171875 3 353.870826 1058.59065 2.5384 0.00089825 -0.40277 -0.00014253 2.1356 0.00075572 353.870779183812 22.565 0.28091 22.845 22.713 22.994 0.28085 146 64 3 0 0 0 0.0024241 3 10183 10145;10183;10222 80.676 47.231 1 16632000 5505 1127;913 3648 3659 6103;6104;6105 6104 0.06369778353814581 ERIMKAQAL 9 Unmodified _ERIMKAQAL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;ENST00000506915.1_1_4:190395906-190396341:+|nuORF;ENST00000378770.1_1_4:190394307-190396341:+|nuORF;nc|ENSG00000205100|Q58FG1|HSP90AA4P;nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000080824|P07900-2|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.30419921875 2 530.302601 1058.59065 3.1561 0.0016737 0.14695 7.7929E-05 3.303 0.0017516 530.3027038932609 22.559 0.22129 22.84 22.717 22.938 0.28085 70 49 2 0 0 0 0.001731 2 10185 10146;10185 106.94 57.007 1 9675200 5506 1127;913 3648 3659 6106;6107 6107 0.06369778353814581 ERIMKAQAL 9 Unmodified _ERIMKAQAL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;ENST00000506915.1_1_4:190395906-190396341:+|nuORF;ENST00000378770.1_1_4:190394307-190396341:+|nuORF;nc|ENSG00000205100|Q58FG1|HSP90AA4P;nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000080824|P07900-2|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.3036499023438 2 530.302601 1058.59065 NaN NaN NaN NaN NaN NaN NaN 22.674 1 22.955 22.455 23.455 0.28085 0 0 0 0.017165 1 10234 10234 76.825 32.966 1 5507 1127;913 3648 3659 6108 6108 0.06369778353814581 ERIMKAQAL 9 Unmodified _ERIMKAQAL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;ENST00000506915.1_1_4:190395906-190396341:+|nuORF;ENST00000378770.1_1_4:190394307-190396341:+|nuORF;nc|ENSG00000205100|Q58FG1|HSP90AA4P;nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000080824|P07900-2|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 353.8715515136719 3 353.870826 1058.59065 2.5014 0.00088518 -0.31035 -0.00010982 2.1911 0.00077536 353.8707084473928 22.168 0.23129 22.815 22.661 22.893 0.64714 81 50 2 0 0 0 0.0024241 3 10020 10020;10065;10115 80.676 53.453 1 15054000 5508 1127;913 3648 3659 6109;6110;6111 6109 0.06369778353814581 ERIMKAQAL 9 Unmodified _ERIMKAQAL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;ENST00000506915.1_1_4:190395906-190396341:+|nuORF;ENST00000378770.1_1_4:190394307-190396341:+|nuORF;nc|ENSG00000205100|Q58FG1|HSP90AA4P;nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000080824|P07900-2|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.3046264648438 2 530.302601 1058.59065 3.2908 0.0017451 -0.24055 -0.00012756 3.0502 0.0016175 530.3025487435542 22.132 0.21445 22.78 22.661 22.876 0.64714 80 46 2 0 0 0 0.0013314 2 10087 10044;10087 118.07 68.135 1 17219000 5509 1127;913 3648 3659 6112;6113 6113 0.06369778353814581 ERIMKAQAL 9 Unmodified _ERIMKAQAL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;ENST00000506915.1_1_4:190395906-190396341:+|nuORF;ENST00000378770.1_1_4:190394307-190396341:+|nuORF;nc|ENSG00000205100|Q58FG1|HSP90AA4P;nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000080824|P07900-2|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.3037719726562 2 530.302601 1058.59065 NaN NaN NaN NaN NaN NaN NaN 21.999 1 22.646 22.146 23.146 0.64714 0 0 0 0.0026425 1 10002 10002 96.367 46.434 1 5510 1127;913 3648 3659 6114 6114 0.06369778353814581 ERIMKAQAL 9 Oxidation (M) _ERIM(Oxidation (M))KAQAL_ ERIM(1)KAQAL ERIM(51)KAQAL 0 0 1 ENSG00000096384|ENST00000371646|HSP90AB1;ENST00000506915.1_1_4:190395906-190396341:+|nuORF;ENST00000378770.1_1_4:190394307-190396341:+|nuORF;nc|ENSG00000205100|Q58FG1|HSP90AA4P;nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000080824|P07900-2|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.20330810546875 3 359.202465 1074.58556 2.0505 0.00073655 0.3598 0.00012924 2.4103 0.00086579 359.20268086661565 13.165 0.34018 13.472 13.279 13.619 0.30727 67 21 4 0 0 0 0.04013 2 5949 5896;5949 51.415 24.192 1 1638200 5511 1127;913 3648 3660 6115;6116 6116 6 0.051254744912057504 ERIMKAQAL 9 Oxidation (M) _ERIM(Oxidation (M))KAQAL_ ERIM(1)KAQAL ERIM(44)KAQAL 0 0 1 ENSG00000096384|ENST00000371646|HSP90AB1;ENST00000506915.1_1_4:190395906-190396341:+|nuORF;ENST00000378770.1_1_4:190394307-190396341:+|nuORF;nc|ENSG00000205100|Q58FG1|HSP90AA4P;nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000080824|P07900-2|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.202392578125 3 359.202465 1074.58556 2.7829 0.00099963 -0.36243 -0.00013018 2.4205 0.00086945 359.2023819143136 12.787 0.23678 13.43 13.311 13.548 0.64272 18 6 4 0 0 0 0.057456 1 5731 5731 43.982 24.62 1 2994000 5512 1127;913 3648 3660 6117 6117 6 0.051254744912057504 ERIMKAQAL 9 Oxidation (M) _ERIM(Oxidation (M))KAQAL_ ERIM(1)KAQAL ERIM(74)KAQAL 0 0 1 ENSG00000096384|ENST00000371646|HSP90AB1;ENST00000506915.1_1_4:190395906-190396341:+|nuORF;ENST00000378770.1_1_4:190394307-190396341:+|nuORF;nc|ENSG00000205100|Q58FG1|HSP90AA4P;nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000080824|P07900-2|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.3020629882812 2 538.300059 1074.58556 3.5535 0.0019128 0.13742 7.3976E-05 3.6909 0.0019868 538.3001278005295 12.787 0.23655 13.43 13.278 13.514 0.64272 14 6 3 0 0 0 0.015631 1 5749 5749 74.2 36.024 1 2700300 5513 1127;913 3648 3660 6118 6118 6 0.051254744912057504 ERIMKAQAL 9 Oxidation (M) _ERIM(Oxidation (M))KAQAL_ 0 0 1 ENSG00000096384|ENST00000371646|HSP90AB1;ENST00000506915.1_1_4:190395906-190396341:+|nuORF;ENST00000378770.1_1_4:190394307-190396341:+|nuORF;nc|ENSG00000205100|Q58FG1|HSP90AA4P;nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000080824|P07900-2|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 359.202465 1074.58556 2.0751 0.00074537 0.54244 0.00019484 2.6175 0.00094021 359.2027619092479 13.219 0.20947 13.463 13.333 13.542 0.24346 0.007803 0.00022798 NaN 51.415 25 15 2 NaN NaN NaN NaN 0 NaN NaN 0 255690 5514 1127;913 3648 3660 6 0.051254744912057504 ERKAKHARM 9 Unmodified _ERKAKHARM_ 0 0 0 ENSG00000145920|ENST00000393745|CPLX2 ENSG00000145920|ENST00000393745|CPLX2 ENSG00000145920|ENST00000393745|CPLX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.2148132324219 3 376.213586 1125.61893 2.203 0.00082879 0.14092 5.3017E-05 2.3439 0.0008818 376.21364891975765 53.641 0.2759 54.444 54.407 54.683 0.80351 25 14 2 0 0 0 1.0894 1 24575 24575 2.4985 0 1 2405900 5515 3496 3649 3661 6119 6119 0.061145210537461026 ERKAKHARM 9 Unmodified _ERKAKHARM_ 0 0 0 ENSG00000145920|ENST00000393745|CPLX2 ENSG00000145920|ENST00000393745|CPLX2 ENSG00000145920|ENST00000393745|CPLX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.21466064453125 3 376.213586 1125.61893 2.0907 0.00078654 0.71794 0.0002701 2.8086 0.0010566 376.2139303788552 54.451 0.37738 55.247 55.081 55.458 0.79552 66 24 4 0 0 0 0.94779 1 24872 24872 4.897 0.95262 1 1558800 5516 3496 3649 3661 6120 6120 0.061145210537461026 ERKAKHARM 9 Unmodified _ERKAKHARM_ 0 0 0 ENSG00000145920|ENST00000393745|CPLX2 ENSG00000145920|ENST00000393745|CPLX2 ENSG00000145920|ENST00000393745|CPLX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.2148742675781 3 376.213586 1125.61893 2.5002 0.00094062 0.80024 0.00030106 3.3005 0.0012417 376.2138032553641 55.187 0.70216 55.452 55.133 55.835 0.26543 70 39 3 0 0 0 0.94779 1 25308 25308 4.897 1.31 1 3824300 5517 3496 3649 3661 6121 6121 0.061145210537461026 ERKAKHARM 9 Unmodified _ERKAKHARM_ 0 0 0 ENSG00000145920|ENST00000393745|CPLX2 ENSG00000145920|ENST00000393745|CPLX2 ENSG00000145920|ENST00000393745|CPLX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.21441650390625 3 376.213586 1125.61893 NaN NaN NaN NaN NaN NaN NaN 61.96 1 62.212 61.712 62.712 0.25245 0 0 0 0.90431 1 28367 28367 2.4985 0.41248 1 5518 3496 3649 3661 6122 6122 0.061145210537461026 ERKAKHARM 9 Unmodified _ERKAKHARM_ 0 0 0 ENSG00000145920|ENST00000393745|CPLX2 ENSG00000145920|ENST00000393745|CPLX2 ENSG00000145920|ENST00000393745|CPLX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.2143249511719 3 376.213586 1125.61893 2.5775 0.00096969 0.43754 0.00016461 3.015 0.0011343 376.21368818518323 54.447 0.69055 55.114 54.738 55.428 0.6665 85 51 3 0 0 0 0.94779 1 24868 24868 4.897 0.36815 1 4499200 5519 3496 3649 3661 6123 6123 0.061145210537461026 ERKAKHARM 9 Unmodified _ERKAKHARM_ 0 0 0 ENSG00000145920|ENST00000393745|CPLX2 ENSG00000145920|ENST00000393745|CPLX2 ENSG00000145920|ENST00000393745|CPLX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.21478271484375 3 376.213586 1125.61893 2.6815 0.0010088 0.71559 0.00026921 3.3971 0.001278 376.2137500174647 55.32 0.53201 55.988 55.647 56.179 0.66798 58 22 3 0 0 0 0.94779 1 25291 25291 4.897 0.95262 1 2319100 5520 3496 3649 3661 6124 6124 0.061145210537461026 ERKERLESL 9 Unmodified _ERKERLESL_ 0 0 0 ENSG00000107581|ENST00000369144|EIF3A;nc|ENSG00000107581|Q14152-2|EIF3A ENSG00000107581|ENST00000369144|EIF3A ENSG00000107581|ENST00000369144|EIF3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 387.2203063964844 3 387.219172 1158.63569 2.6923 0.0010425 0.29327 0.00011356 2.9855 0.0011561 387.2192887759688 14.419 0.19419 14.419 14.331 14.525 0 29 12 3 0 0 0 0.10277 1 6348 6348 32.037 4.9491 1 722690 5521 1600 3650 3662 6125 6125 0.06271300420712578 ERKERLESL 9 Unmodified _ERKERLESL_ 0 0 0 ENSG00000107581|ENST00000369144|EIF3A;nc|ENSG00000107581|Q14152-2|EIF3A ENSG00000107581|ENST00000369144|EIF3A ENSG00000107581|ENST00000369144|EIF3A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.2195129394531 3 387.219172 1158.63569 NaN NaN NaN NaN NaN NaN NaN 14.098 1 14.405 13.905 14.905 0.3069 0 0 0 0.038154 1 6376 6376 57.108 10.632 1 5522 1600 3650 3662 6126 6126 0.06271300420712578 ERKERLESL 9 Unmodified _ERKERLESL_ 0 0 0 ENSG00000107581|ENST00000369144|EIF3A;nc|ENSG00000107581|Q14152-2|EIF3A ENSG00000107581|ENST00000369144|EIF3A ENSG00000107581|ENST00000369144|EIF3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.2204895019531 3 387.219172 1158.63569 2.9064 0.0011254 0.23289 9.018E-05 3.1393 0.0012156 387.21933839259634 13.428 0.24078 14.07 13.943 14.184 0.64272 52 17 4 0 0 0 0.061685 2 6054 6004;6054 42.312 5.9175 1 1884300 5523 1600 3650 3662 6127;6128 6128 0.06271300420712578 ERKERLESL 9 Unmodified _ERKERLESL_ 0 0 0 ENSG00000107581|ENST00000369144|EIF3A;nc|ENSG00000107581|Q14152-2|EIF3A ENSG00000107581|ENST00000369144|EIF3A ENSG00000107581|ENST00000369144|EIF3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 580.3272094726562 2 580.325119 1158.63569 3.7326 0.0021661 0.32752 0.00019007 4.0601 0.0023562 580.3254708287944 13.438 0.17942 14.081 13.984 14.164 0.64272 23 13 3 0 0 0 1.1138 1 6029 6029 1.4819 0 1 253070 5524 1600 3650 3662 6129 6129 0.06271300420712578 ERKREPRREWP 11 Unmodified _ERKREPRREWP_ 0 0 0 REV__ENST00000544562.5_1_14:23067206-23078652:+|nuORF REV__ENST00000544562.5_1_14:23067206-23078652:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 769.917236328125 2 769.918572 1537.82259 NaN NaN NaN NaN NaN NaN NaN 64.671 1 65.386 64.886 65.886 0.71521 0 0 0 1.008 1 30479 30479 0.26902 0 1 + 5525 17239 3651 3663 6130 6130 0.07519337028952577 ERLKVLYF 8 Unmodified _ERLKVLYF_ 0 0 0 nc|ENSG00000122008|Q9UBT6-2|POLK nc|ENSG00000122008|Q9UBT6-2|POLK nc|ENSG00000122008|Q9UBT6-2|POLK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 356.54718017578125 3 356.546449 1066.61752 2.579 0.00091953 -0.076443 -2.7255E-05 2.5026 0.00089228 356.5463811387863 36.734 0.35997 36.734 36.548 36.908 0 41 16 3 0 0 0 0.23923 1 16659 16659 32.786 10.049 1 1479500 5526 9619 3652 3664 6131 6131 0.08687210236666942 ERLKVLYF 8 Unmodified _ERLKVLYF_ 0 0 0 nc|ENSG00000122008|Q9UBT6-2|POLK nc|ENSG00000122008|Q9UBT6-2|POLK nc|ENSG00000122008|Q9UBT6-2|POLK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 356.546630859375 3 356.546449 1066.61752 2.4795 0.00088407 -0.45921 -0.00016373 2.0203 0.00072034 356.54627109727625 35.742 0.21606 36.534 36.406 36.622 0.79131 16 9 2 0 0 0 0.3435 1 16215 16215 26.268 9.1552 1 2412600 5527 9619 3652 3664 6132 6132 0.08687210236666942 ERLKVLYF 8 Unmodified _ERLKVLYF_ 0 0 0 nc|ENSG00000122008|Q9UBT6-2|POLK nc|ENSG00000122008|Q9UBT6-2|POLK nc|ENSG00000122008|Q9UBT6-2|POLK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 356.5474548339844 3 356.546449 1066.61752 2.6052 0.00092886 -0.03386 -1.2073E-05 2.5713 0.00091679 356.5463998515237 36.608 0.40488 36.865 36.673 37.078 0.25768 44 14 4 0 0 0 0.23923 2 16640 16640;16699 32.786 10.049 1 4711900 5528 9619 3652 3664 6133;6134 6133 0.08687210236666942 ERLKVLYF 8 Unmodified _ERLKVLYF_ 0 0 0 nc|ENSG00000122008|Q9UBT6-2|POLK nc|ENSG00000122008|Q9UBT6-2|POLK nc|ENSG00000122008|Q9UBT6-2|POLK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 356.5472412109375 3 356.546449 1066.61752 2.6039 0.00092841 0.13126 4.6801E-05 2.7352 0.00097521 356.54646296774706 35.992 0.33396 36.618 36.46 36.794 0.62631 26 10 3 0 0 0 0.23923 2 16474 16474;16530 32.786 10.049 1 4571400 5529 9619 3652 3664 6135;6136 6135 0.08687210236666942 ERLLIGILFH 10 Unmodified _ERLLIGILFH_ 0 0 0 REV__ENSG00000135905|ENST00000258390|DOCK10;REV__nc|ENSG00000135905|Q96BY6-3|DOCK10 REV__ENSG00000135905|ENST00000258390|DOCK10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.2498474121094 3 404.248403 1209.72338 2.4016 0.00097084 0.93317 0.00037723 3.3348 0.0013481 404.24869936792953 57.104 0.44711 57.882 57.656 58.103 0.77786 121 45 3 0 0 0 0.82825 1 26049 26049 7.1017 0.90987 1 7043900 + 5530 12043;17951 3653 3665 6137 6137 0.12690546082126275 ERLLIGILFH 10 Unmodified _ERLLIGILFH_ 0 0 0 REV__ENSG00000135905|ENST00000258390|DOCK10;REV__nc|ENSG00000135905|Q96BY6-3|DOCK10 REV__ENSG00000135905|ENST00000258390|DOCK10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.4390869140625 4 303.438121 1209.72338 1.9963 0.00060574 1.0941 0.000332 3.0904 0.00093774 303.43840642999623 57.115 0.47405 57.893 57.612 58.086 0.77786 152 46 4 0 0 0 0.88949 2 26191 26144;26191 4.1895 2.1035 1 9890600 + 5531 12043;17951 3653 3665 6138;6139 6139 0.12690546082126275 ERLLIGILFH 10 Unmodified _ERLLIGILFH_ 0 0 0 REV__ENSG00000135905|ENST00000258390|DOCK10;REV__nc|ENSG00000135905|Q96BY6-3|DOCK10 REV__ENSG00000135905|ENST00000258390|DOCK10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.4393310546875 4 303.438121 1209.72338 1.9893 0.00060363 0.10872 3.299E-05 2.098 0.00063662 303.43805795604743 57.362 0.093796 58.131 58.054 58.148 0.76861 16 10 2 0 0 0 0.93372 1 26247 26247 2.086 2.086 1 7190300 + 5532 12043;17951 3653 3665 6140 6140 0.12690546082126275 ERLLIGILFH 10 Unmodified _ERLLIGILFH_ 0 0 0 REV__ENSG00000135905|ENST00000258390|DOCK10;REV__nc|ENSG00000135905|Q96BY6-3|DOCK10 REV__ENSG00000135905|ENST00000258390|DOCK10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.249755859375 3 404.248403 1209.72338 NaN NaN NaN NaN NaN NaN NaN 57.333 1 58.102 57.602 58.602 0.76861 0 0 0 0.99704 1 26244 26244 4.1895 0.60244 1 + 5533 12043;17951 3653 3665 6141 6141 0.12690546082126275 ERLLIGILFH 10 Unmodified _ERLLIGILFH_ 0 0 0 REV__ENSG00000135905|ENST00000258390|DOCK10;REV__nc|ENSG00000135905|Q96BY6-3|DOCK10 REV__ENSG00000135905|ENST00000258390|DOCK10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.5842590332031 3 404.248403 1209.72338 2.9347 0.0011863 0.9044 0.0003656 3.8391 0.0015519 404.2486472297067 57.06 0.4804 57.324 57.11 57.591 0.26444 89 28 4 0 0 0 0.88949 1 26218 26218 4.1895 0.60244 1 20340000 + 5534 12043;17951 3653 3665 6142 6142 0.12690546082126275 ERLLIGILFH 10 Unmodified _ERLLIGILFH_ 0 0 0 REV__ENSG00000135905|ENST00000258390|DOCK10;REV__nc|ENSG00000135905|Q96BY6-3|DOCK10 REV__ENSG00000135905|ENST00000258390|DOCK10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.4391784667969 4 303.438121 1209.72338 2.1593 0.00065522 0.48907 0.0001484 2.6484 0.00080362 303.43830870087885 57.404 0.29138 57.668 57.508 57.799 0.26444 46 29 3 0 0 0 0.93372 2 26225 26225;26286 2.086 1.3095 1 4358100 + 5535 12043;17951 3653 3665 6143;6144 6143 0.12690546082126275 ERLLIGILFH 10 Unmodified _ERLLIGILFH_ 0 0 0 REV__ENSG00000135905|ENST00000258390|DOCK10;REV__nc|ENSG00000135905|Q96BY6-3|DOCK10 REV__ENSG00000135905|ENST00000258390|DOCK10 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 303.438121 1209.72338 1.9439 0.00058985 1.5353 0.00046587 3.4792 0.0010557 303.4385338247673 57.909 0.65578 57.909 57.591 58.247 0 0.085523 0.00040362 NaN 4.1895 240 64 5 NaN NaN NaN NaN 0 NaN NaN 0 10834000 + 5536 12043;17951 3653 3665 0.12690546082126275 ERLLIGILFH 10 Unmodified _ERLLIGILFH_ 0 0 0 REV__ENSG00000135905|ENST00000258390|DOCK10;REV__nc|ENSG00000135905|Q96BY6-3|DOCK10 REV__ENSG00000135905|ENST00000258390|DOCK10 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 303.438121 1209.72338 2.1593 0.00065522 0.48907 0.0001484 2.6484 0.00080362 303.43830870087885 57.404 0.29138 57.668 57.508 57.799 0.26444 -0.15516 -0.00086624 NaN 4.1895 46 29 3 NaN NaN NaN NaN 0 NaN NaN 0 4358100 + 5537 12043;17951 3653 3665 0.12690546082126275 ERLLKHKL 8 Unmodified _ERLLKHKL_ 0 0 0 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 346.2261962890625 3 346.225709 1035.6553 1.6969 0.00058752 -0.33346 -0.00011545 1.3635 0.00047206 346.2256580955082 12.336 0.023477 12.643 12.63 12.653 0.30727 5 3 2 0 0 0 0.00042513 1 5547 5547 137.42 68.319 1 12551000 5538 4154 3654 3666 6145 6145 0.13889721222130902 ERLLKHKL 8 Unmodified _ERLLKHKL_ 0 0 0 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.22637939453125 3 346.225709 1035.6553 2.79 0.00096597 -0.6712 -0.00023239 2.1188 0.00073358 346.2254403224349 12.327 0.022701 12.964 12.947 12.97 0.63746 6 3 2 0 0 0 0.0069601 1 5507 5507 125.53 56.424 1 9392800 5539 4154 3654 3666 6146 6146 0.13889721222130902 ERLLNRQRRGG 11 Unmodified _ERLLNRQRRGG_ 0 0 0 REV__ENST00000439986.8_1_18:57363908-57364479:-|nuORF REV__ENST00000439986.8_1_18:57363908-57364479:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.2646179199219 3 452.263997 1353.77016 3.0299 0.0013703 -1.2483 -0.00056455 1.7817 0.00080579 452.26364463208915 67.366 0.30132 67.616 67.426 67.728 0.25011 28 18 2 0 0 0 0.85532 1 30843 30843 4.4062 1.7749 1 519420 + 5540 16337 3655 3667 6147 6147 0.10742798685942034 ERLLNRQRRGG 11 Unmodified _ERLLNRQRRGG_ 0 0 0 REV__ENST00000439986.8_1_18:57363908-57364479:-|nuORF REV__ENST00000439986.8_1_18:57363908-57364479:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 452.263997 1353.77016 3.0299 0.0013703 -1.2483 -0.00056455 1.7817 0.00080579 452.26364463208915 67.366 0.30132 67.616 67.426 67.728 0.25011 0.095065 4.5322E-05 NaN 4.4062 28 18 2 NaN NaN NaN NaN 0 NaN NaN 0 519420 + 5541 16337 3655 3667 0.10742798685942034 ERLLRVRRRF 10 Unmodified _ERLLRVRRRF_ 0 0 0 REV__nc|ENSG00000165124|Q4LDE5-2|SVEP1 REV__nc|ENSG00000165124|Q4LDE5-2|SVEP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 700.9381713867188 2 700.939111 1399.86367 NaN NaN NaN NaN NaN NaN NaN 38.382 1 38.382 37.882 38.882 0 0 0 0 1.0015 1 17420 17420 0.45834 0 1 + 5542 13139 3656 3668 6148 6148 0.17973142859045765 ERLRPRKRRR 10 Unmodified _ERLRPRKRRR_ 0 0 0 nc|ENSG00000133193|Q969W3|VCF1;ENSG00000133193|ENST00000405159|FAM104A nc|ENSG00000133193|Q969W3|VCF1 nc|ENSG00000133193|Q969W3|VCF1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.2798156738281 3 474.971148 1421.89161 2.9645 0.0014081 2.0227 0.00096072 4.9872 0.0023688 475.30652144096166 61.453 0.11116 62.116 62.025 62.136 0.66261 8 5 2 0 0 0 0.12676 1 28127 28127 0.69767 0 1 794980 5543 2754 3657 3669 6149 6149 0.19754465839127988 ERLVQSREGVH 11 Unmodified _ERLVQSREGVH_ 0 0 0 ENSG00000167676|ENST00000301286|PLIN4 ENSG00000167676|ENST00000301286|PLIN4 ENSG00000167676|ENST00000301286|PLIN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.3560791015625 2 655.3522 1308.68985 NaN NaN NaN NaN NaN NaN NaN 104.59 1 104.91 104.41 105.41 0.31863 0 0 0 1.0075 1 48283 48283 0.96228 0.36078 1 5544 4571 3658 3670 6150 6150 0.04784892572274657 ERLVQSREGVH 11 Unmodified _ERLVQSREGVH_ 0 0 0 ENSG00000167676|ENST00000301286|PLIN4 ENSG00000167676|ENST00000301286|PLIN4 ENSG00000167676|ENST00000301286|PLIN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 655.3522338867188 2 655.3522 1308.68985 NaN NaN NaN NaN NaN NaN NaN 104.83 1 105.42 104.92 105.92 0.59885 0 0 0 1.0075 1 48423 48423 0.96228 0.36078 1 5545 4571 3658 3670 6151 6151 0.04784892572274657 ERMKPPRGR 9 Unmodified _ERMKPPRGR_ 0 0 0 REV__ASH1L|p.P1413Sfs*29|1|0.04|ENSG00000116539|chr1:155478634-155478635|-/T|frameshift_variant REV__ASH1L|p.P1413Sfs*29|1|0.04|ENSG00000116539|chr1:155478634-155478635|-/T|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.2147216796875 3 376.213586 1125.61893 2.7271 0.001026 -0.27761 -0.00010444 2.4495 0.00092153 376.2136012513024 55.468 0.48521 55.468 55.21 55.695 0 75 39 4 0 0 0 1.0755 1 25563 25563 2.7352 0 1 3373800 + 5546 9971 3659 3671 6152 6152 0.0611452105376884 ERMLLWRRWRP 11 Unmodified _ERMLLWRRWRP_ 0 0 0 REV__ENST00000579248.5_2_18:47017953-47018809:-|nuORF REV__ENST00000579248.5_2_18:47017953-47018809:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 799.9446411132812 2 799.946079 1597.8776 NaN NaN NaN NaN NaN NaN NaN 73.498 1 73.498 72.998 73.998 0 0 0 0 1.008 1 35843 35843 0.30703 0.03801 1 + 5547 17499 3660 3672 6153 6153 0.10258052295853304 ERNLAEQSSM 10 Unmodified _ERNLAEQSSM_ 0 0 0 REV__nc|ENSG00000198216|Q15878-2|CACNA1E REV__nc|ENSG00000198216|Q15878-2|CACNA1E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 582.7713012695312 2 582.769319 1163.52409 3.6146 0.0021065 0.67869 0.00039552 4.2933 0.002502 582.7697677484512 48.775 0.26729 48.775 48.629 48.896 0 24 15 2 0 0 0 0.60841 1 22339 22339 17.113 0.96379 1 511390 + 5548 14328 3661 3673 6154 6154 -0.05113501998744141 ERNLAEQSSM 10 Unmodified _ERNLAEQSSM_ 0 0 0 REV__nc|ENSG00000198216|Q15878-2|CACNA1E REV__nc|ENSG00000198216|Q15878-2|CACNA1E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.7718505859375 2 582.769319 1163.52409 3.5646 0.0020773 0.50694 0.00029543 4.0715 0.0023727 582.769593935625 48.735 0.27174 48.997 48.816 49.088 0.26209 22 10 3 0 0 0 0.60841 2 22258 22258;22318 17.113 0.96379 1 1512300 + 5549 14328 3661 3673 6155;6156 6155 -0.05113501998744141 ERNLAEQSSM 10 Unmodified _ERNLAEQSSM_ 0 0 0 REV__nc|ENSG00000198216|Q15878-2|CACNA1E REV__nc|ENSG00000198216|Q15878-2|CACNA1E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.771240234375 2 582.769319 1163.52409 3.6927 0.002152 0.36642 0.00021354 4.0591 0.0023655 582.7694161065876 48.267 0.35542 48.92 48.704 49.06 0.65356 34 13 3 0 0 0 0.60841 2 22058 22058;22119 17.113 0.96379 1 895370 + 5550 14328 3661 3673 6157;6158 6157 -0.05113501998744141 ERNLAEQSSM 10 Unmodified _ERNLAEQSSM_ 0 0 0 REV__nc|ENSG00000198216|Q15878-2|CACNA1E REV__nc|ENSG00000198216|Q15878-2|CACNA1E MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 582.769319 1163.52409 3.6146 0.0021065 0.67869 0.00039552 4.2933 0.002502 582.7697677484512 48.775 0.26729 48.775 48.629 48.896 0 -0.011321 0.00028353 NaN 17.113 24 15 2 NaN NaN NaN NaN 0 NaN NaN 0 511390 + 5551 14328 3661 3673 -0.05113501998744141 ERNLAEQSSM 10 Unmodified _ERNLAEQSSM_ 0 0 0 REV__nc|ENSG00000198216|Q15878-2|CACNA1E REV__nc|ENSG00000198216|Q15878-2|CACNA1E MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 582.769319 1163.52409 3.1384 0.0018289 0.13528 7.8837E-05 3.2737 0.0019078 582.7692881508716 47.624 0.2625 48.453 48.305 48.567 0.82915 -0.33348 -0.00034983 NaN 17.113 25 15 2 NaN NaN NaN NaN 0 NaN NaN 0 347440 + 5552 14328 3661 3673 -0.05113501998744141 ERNLAEQSSM 10 Unmodified _ERNLAEQSSM_ 0 0 0 REV__nc|ENSG00000198216|Q15878-2|CACNA1E REV__nc|ENSG00000198216|Q15878-2|CACNA1E MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 582.769319 1163.52409 3.5646 0.0020773 0.50694 0.00029543 4.0715 0.0023727 582.769593935625 48.735 0.27174 48.997 48.816 49.088 0.26209 0.21066 8.3357E-05 NaN 17.113 22 10 3 NaN NaN NaN NaN 0 NaN NaN 0 1512300 + 5553 14328 3661 3673 -0.05113501998744141 ERPIRIVAL 9 Unmodified _ERPIRIVAL_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF;ENST00000480242.1_1_2:96948912-96949730:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.8421630859375 2 533.840208 1065.66586 3.0196 0.001612 -0.22695 -0.00012116 2.7927 0.0014908 533.8400837705545 45.909 0.30214 46.175 46.024 46.326 0.26561 18 11 2 0 0 0 0.24524 1 20980 20980 15.847 1.0089 1 879600 5554 3406 3662 3674 6159 6159 0.13565703876543012 ERQEIKLT 8 Unmodified _ERQEIKLT_ 0 0 0 REV__nc|ENSG00000196367|Q9Y4A5-2|TRRAP REV__nc|ENSG00000196367|Q9Y4A5-2|TRRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.5301513671875 3 339.529346 1015.56621 2.4341 0.00082646 -0.33024 -0.00011213 2.1039 0.00071434 339.5293606366368 18.342 0.26563 18.342 18.183 18.448 0 26 14 3 0 0 0 0.042878 1 8124 8124 57.722 3.8892 1 436920 + 5555 14208 3663 3675 6160 6160 0.059048414719427456 ERQKQAVL 8 Unmodified _ERQKQAVL_ 0 0 0 REV__ENST00000532904.5_1_11:62445243-62446247:-|nuORF REV__ENST00000532904.5_1_11:62445243-62446247:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.2864685058594 2 486.285266 970.555979 3.1453 0.0015295 1.318 0.00064095 4.4633 0.0021705 486.28595947716167 32.226 0.32185 32.845 32.7 33.022 0.61831 23 18 2 0 0 0 0.66653 1 14766 14766 8.5933 0.68312 1 192920 + 5556 12926 3664 3676 6161 6161 0.06952278537380607 ERQSRRPRRRR 11 Unmodified _ERQSRRPRRRR_ 0 0 0 ENST00000514738.5_1_5:31193871-31267519:+|nuORF ENST00000514738.5_1_5:31193871-31267519:+|nuORF ENST00000514738.5_1_5:31193871-31267519:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 776.959228515625 2 776.959429 1551.9043 NaN NaN NaN NaN NaN NaN NaN 17.511 1 17.712 17.212 18.212 0.20057 0 0 0 1.0082 1 7750 7750 0 0 1 5557 8586 3665 3677 6162 6162 0.15042877231371676 ERRFKDRRRRD 11 Unmodified _ERRFKDRRRRD_ 0 0 0 REV__SRRT|p.D363Vfs*14|1|0.06|ENSG00000087087|chr7:100884968-100884969|-/TTTTGTCATCATTAGA|frameshift_variant REV__SRRT|p.D363Vfs*14|1|0.06|ENSG00000087087|chr7:100884968-100884969|-/TTTTGTCATCATTAGA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.642822265625 3 530.632972 1588.87709 NaN NaN NaN NaN NaN NaN NaN 86.659 1 86.69 86.19 87.19 0.030289 0 0 0 1.0079 1 43667 43667 0.50596 0.13928 1 + 5558 10662 3666 3678 6163 6163 0.1062034890032919 ERRLRGPV 8 Unmodified _ERRLRGPV_ 0 0 0 REV__CON__Q3SX09 REV__CON__Q3SX09 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.20391845703125 3 328.201675 981.583196 2.4157 0.00079283 0.15766 5.1746E-05 2.5733 0.00084457 328.2021961727649 53.546 0.70398 53.811 53.513 54.217 0.26462 52 33 2 0 0 0 0.14313 1 24597 24597 1.6526 0 1 1198500 + + 5559 10094 3667 3679 6164 6164 0.09166806868427102 ERRLRGPV 8 Unmodified _ERRLRGPV_ 0 0 0 REV__CON__Q3SX09 REV__CON__Q3SX09 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 328.201675 981.583196 2.4837 0.00081515 0.61866 0.00020304 3.1023 0.0010182 328.20268059544964 53.48 0.14188 53.48 53.379 53.521 0 -0.16544 0.00035315 NaN 1.6526 14 9 2 NaN NaN NaN NaN 0 NaN NaN 0 658790 + + 5560 10094 3667 3679 0.09166806868427102 ERRNQPRR 8 Unmodified _ERRNQPRR_ 0 0 0 ENST00000609694.5_1_21:46341180-46342894:+|nuORF ENST00000609694.5_1_21:46341180-46342894:+|nuORF ENST00000609694.5_1_21:46341180-46342894:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.3117065429688 2 556.313212 1110.61187 NaN NaN NaN NaN NaN NaN NaN 102.81 1 103.13 102.63 103.63 0.31863 0 0 0 0.99035 1 47546 47546 0.69038 0 1 5561 9351 3668 3680 6165 6165 0.06098924497541702 ERRRHKKRIQR 11 Unmodified _ERRRHKKRIQR_ 0 0 0 ENST00000461933.1_1_3:169684610-169686205:+|nuORF ENST00000461933.1_1_3:169684610-169686205:+|nuORF ENST00000461933.1_1_3:169684610-169686205:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 782.4869384765625 2 781.982373 1561.95019 3.7063 0.0028982 -0.42207 -0.00033005 3.2842 0.0025682 781.9818674158693 55.338 0.34693 55.338 55.261 55.608 0 66 27 3 0 0 0 0.91403 2 25406 25406;25549 0.26902 0.26902 1 9426600 5562 8090 3669 3681 6166;6167 6166 0.19169522413631057 ERRRHKKRIQR 11 Unmodified _ERRRHKKRIQR_ 0 0 0 ENST00000461933.1_1_3:169684610-169686205:+|nuORF ENST00000461933.1_1_3:169684610-169686205:+|nuORF ENST00000461933.1_1_3:169684610-169686205:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 781.982373 1561.95019 3.7063 0.0028982 -0.42207 -0.00033005 3.2842 0.0025682 781.9818674158693 55.338 0.34693 55.338 55.261 55.608 0 0.00062517 -9.1408E-05 NaN 0.26902 66 27 3 NaN NaN NaN NaN 0 NaN NaN 0 9426600 5563 8090 3669 3681 0.19169522413631057 ERRRHKKRIQR 11 Unmodified _ERRRHKKRIQR_ 0 0 0 ENST00000461933.1_1_3:169684610-169686205:+|nuORF ENST00000461933.1_1_3:169684610-169686205:+|nuORF ENST00000461933.1_1_3:169684610-169686205:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 781.982373 1561.95019 3.2579 0.0025476 -1.6595 -0.0012977 1.5984 0.0012499 782.4820466668394 54.718 0.046764 55.514 55.492 55.538 0.79552 0.17662 -0.0020267 NaN 0.26902 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 1505700 5564 8090 3669 3681 0.19169522413631057 ERRRKRLLPRD 11 Unmodified _ERRRKRLLPRD_ 0 0 0 REV__ENST00000556170.5_1_14:75573136-75593624:-|nuORF REV__ENST00000556170.5_1_14:75573136-75593624:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 748.2774047851562 2 747.958032 1493.90151 NaN NaN NaN NaN NaN NaN NaN 55.554 1 55.819 55.319 56.319 0.26543 0 0 0 1.008 1 25404 25404 0.26902 0.26902 1 + 5565 11507 3670 3682 6168 6168 0.1743160905386958 ERRRKSLRRQW 11 Unmodified _ERRRKSLRRQW_ 0 0 0 ENST00000434055.5_2_2:74592297-74592708:-|nuORF ENST00000434055.5_2_2:74592297-74592708:-|nuORF ENST00000434055.5_2_2:74592297-74592708:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 785.9620361328125 2 785.961106 1569.90766 NaN NaN NaN NaN NaN NaN NaN 69.103 1 69.763 69.263 70.263 0.65924 0 0 0 1.008 1 31677 31677 0.26902 0 1 5566 7880 3671 3683 6169 6169 0.14550127285383496 ERRRLKRMEYF 11 Unmodified _ERRRLKRMEYF_ 0 0 0 REV__nc|ENSG00000115137|Q9NZQ0-2|DNAJC27 REV__nc|ENSG00000115137|Q9NZQ0-2|DNAJC27 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.6233520507812 3 528.624426 1582.85145 NaN NaN NaN NaN NaN NaN NaN 93.89 1 94.147 93.647 94.647 0.25706 0 0 0 1.008 1 43150 43150 0.094841 0 1 + 5567 17901 3672 3684 6170 6170 0.08333738333726615 ERRRRRRHRRR 11 Unmodified _ERRRRRRHRRR_ 0 0 0 REV__ENST00000419807.5_3_2:44395715-44396385:+|nuORF REV__ENST00000419807.5_3_2:44395715-44396385:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.2077026367188 3 564.014633 1689.02207 NaN NaN NaN NaN NaN NaN NaN 62.525 1 62.525 62.025 63.025 0 0 0 0 1.0082 1 29309 29309 0 0 1 + 5568 16162 3673 3685 6171 6171 0.20511874610701852 ERRRRRRRKDE 11 Unmodified _ERRRRRRRKDE_ 0 0 0 REV__ENST00000495703.5_1_1:45808500-45809371:+|nuORF REV__ENST00000495703.5_1_1:45808500-45809371:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 806.9716796875 2 806.969994 1611.92543 NaN NaN NaN NaN NaN NaN NaN 98.303 1 98.369 97.869 98.869 0.066025 0 0 0 1.008 1 52818 52818 0.30703 0 1 + 5569 11911 3674 3686 6172 6172 0.1439484254024137 ERRRRRRRRRP 11 Unmodified _ERRRRRRRRRP_ 0 0 0 REV__ENST00000372324.5_1_1:44444922-44446927:+|nuORF REV__ENST00000372324.5_1_1:44444922-44446927:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.6804809570312 3 550.67925 1649.01592 NaN NaN NaN NaN NaN NaN NaN 104.64 1 104.64 104.14 105.14 0 0 0 0 1.0082 1 57563 57563 0 0 1 5570 15750 3675 3687 6173 6173 0.21737356379185258 ERRWMRLWPFF 11 Unmodified _ERRWMRLWPFF_ 0 0 0 REV__ENSG00000187186|ENST00000421828|unknown REV__ENSG00000187186|ENST00000421828|unknown MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 812.4221801757812 2 812.421905 1622.82926 NaN NaN NaN NaN NaN NaN NaN 27.092 1 27.092 26.592 27.592 0 0 0 0 1.0082 1 12197 12197 0 0 1 + 5571 14091 3676 3688 6174 6174 0.04275558655945133 ERRWPHDKRW 10 Unmodified _ERRWPHDKRW_ 0 0 0 REV__ENSG00000185038|ENST00000389758|MROH2A REV__ENSG00000185038|ENST00000389758|MROH2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 733.381591796875 2 733.381626 1464.7487 NaN NaN NaN NaN NaN NaN NaN 92.056 1 92.309 91.809 92.809 0.25253 0 0 0 1.0015 1 42322 42322 0.40072 0 1 + 5572 14001 3677 3689 6175 6175 0.03491413657229714 ERRWWRRRLWQ 11 Unmodified _ERRWWRRRLWQ_ 0 0 0 ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 864.8589477539062 2 864.476923 1726.93929 3.2994 0.0028523 1.49 0.0012881 4.7894 0.0041403 864.477209648542 88.865 0.044014 88.865 88.831 88.875 0 6 5 2 0 0 0 0.13295 1 46226 46226 0 0 1 17562000 5573 6713 3678 3690 6176 6176 0.1049012003934422 ERRWWRRRLWQ 11 Unmodified _ERRWWRRRLWQ_ 0 0 0 ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 864.10693359375 2 864.476923 1726.93929 3.2784 0.0028341 2.626 0.0022701 5.9045 0.0051043 864.9795495136176 86.617 0.034912 86.617 86.601 86.636 0 6 4 2 0 0 0 0.13295 1 44453 44453 0 0 1 12933000 5574 6713 3678 3690 6177 6177 0.1049012003934422 ERRWWRRRLWQ 11 Unmodified _ERRWWRRRLWQ_ 0 0 0 ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 864.4801025390625 2 864.476923 1726.93929 NaN NaN NaN NaN NaN NaN NaN 75.057 1 75.72 75.22 76.22 0.6635 0 0 0 1.0082 1 36330 36330 0 0 1 5575 6713 3678 3690 6178 6178 0.1049012003934422 ERRWWRRRLWQ 11 Unmodified _ERRWWRRRLWQ_ 0 0 0 ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 864.4803466796875 2 864.476923 1726.93929 NaN NaN NaN NaN NaN NaN NaN 79.313 1 79.973 79.473 80.473 0.66082 0 0 0 1.0082 1 36545 36545 0 0 1 5576 6713 3678 3690 6179 6179 0.1049012003934422 ERWKEVREKRK 11 Unmodified _ERWKEVREKRK_ 0 0 0 REV__nc|ENSG00000145833|Q7L014|DDX46 REV__nc|ENSG00000145833|Q7L014|DDX46 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 772.44189453125 2 772.444423 1542.87429 NaN NaN NaN NaN NaN NaN NaN 82.603 1 82.603 82.103 83.103 0 0 0 0 1.008 1 41411 41411 0.26902 0.26902 1 + 5577 12457 3679 3691 6180 6180 0.12457080722811043 ERWRWPWCARD 11 Unmodified _ERWRWPWCARD_ 0 0 0 REV__ENST00000589087.5_1_19:2806818-2807876:+|nuORF REV__ENST00000589087.5_1_19:2806818-2807876:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 780.8705444335938 2 780.867494 1559.72043 NaN NaN NaN NaN NaN NaN NaN 63.089 1 63.089 62.589 63.589 0 0 0 0 1.0074 1 29638 29638 1.0715 0.67075 1 + 5578 17564 3680 3692 6181 6181 -0.03703652314334249 ERYKRHRQKQK 11 Unmodified _ERYKRHRQKQK_ 0 0 0 ENST00000590234.5_1_18:47810059-47811374:-|nuORF;ENST00000590901.5_1_18:47808965-47812340:-|nuORF;ENSG00000154832|ENST00000285106|CXXC1;nc|ENSG00000154832|Q9P0U4-2|CXXC1 ENST00000590234.5_1_18:47810059-47811374:-|nuORF ENST00000590234.5_1_18:47810059-47811374:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.6732177734375 3 519.634202 1555.88078 NaN NaN NaN NaN NaN NaN NaN 92.82 1 92.82 92.32 93.32 0 0 0 0 1.0073 1 49413 49413 0.40827 0 1 5579 3841 3681 3693 6182 6182 0.1250701867418229 ERYQRWLQYKF 11 Unmodified _ERYQRWLQYKF_ 0 0 0 ENSG00000117000|ENST00000372771|RLF;RLF|p.D1028Afs*6|1|0.23|ENSG00000117000|chr1:40237785-40237786|AT/-|frameshift_variant ENSG00000117000|ENST00000372771|RLF ENSG00000117000|ENST00000372771|RLF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.6143188476562 3 539.615925 1615.82595 NaN NaN NaN NaN NaN NaN NaN 16.153 1 16.459 15.959 16.959 0.306 0 0 0 1.0082 1 7309 7309 0.094841 0.094841 1 5580 2057 3682 3694 6183 6183 0.04266587082929618 ERYTFEIPF 9 Unmodified _ERYTFEIPF_ 0 0 0 ENSG00000103528|ENST00000355377|SYT17 ENSG00000103528|ENST00000355377|SYT17 ENSG00000103528|ENST00000355377|SYT17 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 601.2973022460938 2 601.298039 1200.58152 NaN NaN NaN NaN NaN NaN NaN 91.578 1 91.83 91.33 92.33 0.25163 0 0 0 0.90511 1 42108 42108 2.3027 0 1 5581 1404 3683 3695 6184 6184 -0.010742917308789401 ESAESFLLPF 10 Unmodified _ESAESFLLPF_ 0 0 0 REV__ENSG00000124260|ENST00000370323|MAGEA10 REV__ENSG00000124260|ENST00000370323|MAGEA10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.6886596679688 2 570.284597 1138.55464 NaN NaN NaN NaN NaN NaN NaN 92.243 1 92.243 91.743 92.743 0 0 0 0 0.99225 1 48965 48965 6.7232 1.9672 1 + 5582 11648 3684 3696 6185 6185 -0.009094003420614172 ESAFSFSM 8 Unmodified _ESAFSFSM_ 0 0 0 nc|ENSG00000169884|O00744-2|WNT10B;ENSG00000169884|ENST00000301061|WNT10B nc|ENSG00000169884|O00744-2|WNT10B nc|ENSG00000169884|O00744-2|WNT10B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.18878173828125 2 453.189111 904.363669 NaN NaN NaN NaN NaN NaN NaN 16.731 1 17.036 16.536 17.536 0.30438 0 0 0 0.99035 1 7575 7575 2.5775 0.51773 1 5583 4718 3685 3697 6186 6186 -0.09233804924963351 ESALLRDRMT 10 Unmodified _ESALLRDRMT_ 0 0 0 DENND5B|p.L1254Cfs*9|1|0.33|ENSG00000170456|chr12:31387669-31387669|A/-|frameshift_variant;ENSG00000170456|ENST00000389082|DENND5B;nc|ENSG00000170456|Q6ZUT9-2|DENND5B DENND5B|p.L1254Cfs*9|1|0.33|ENSG00000170456|chr12:31387669-31387669|A/-|frameshift_variant DENND5B|p.L1254Cfs*9|1|0.33|ENSG00000170456|chr12:31387669-31387669|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.87750244140625 3 397.876529 1190.60776 3.097 0.0012322 -2.1501 -0.00085548 0.94684 0.00037672 397.8756586183746 40.875 0.15352 41.519 41.379 41.533 0.64451 10 7 2 0 0 0 0.86398 1 18660 18660 5.4027 2.9679 1 3099400 5584 263 3686 3698 6187 6187 0.02007654168960471 ESCDDNGCDC 10 Unmodified _ESCDDNGCDC_ 0 0 0 ENST00000509537.1_1_4:187511811-187516897:-|nuORF ENST00000509537.1_1_4:187511811-187516897:-|nuORF ENST00000509537.1_1_4:187511811-187516897:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.63720703125 2 530.636256 1059.25796 NaN NaN NaN NaN NaN NaN NaN 69.022 1 69.022 68.522 69.522 0 0 0 0 1.0015 1 33279 33279 0.40072 0.40072 1 5585 8542 3687 3699 6188 6188 -0.2692987689506481 ESCDDNGCDC 10 Unmodified _ESCDDNGCDC_ 0 0 0 ENST00000509537.1_1_4:187511811-187516897:-|nuORF ENST00000509537.1_1_4:187511811-187516897:-|nuORF ENST00000509537.1_1_4:187511811-187516897:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.7218017578125 2 530.636256 1059.25796 NaN NaN NaN NaN NaN NaN NaN 90.112 1 90.112 89.612 90.612 0 0 0 0 1.0015 1 47264 47264 0.45834 0.45834 1 5586 8542 3687 3699 6189 6189 -0.2692987689506481 ESCHYCSC 8 Unmodified _ESCHYCSC_ 0 0 0 REV__nc|ENSG00000138395|Q96Q40-6|CDK15 REV__nc|ENSG00000138395|Q96Q40-6|CDK15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.14019775390625 2 466.140781 930.267008 NaN NaN NaN NaN NaN NaN NaN 73.379 1 74.078 73.578 74.578 0.69881 0 0 0 0.99035 1 35376 35376 0.69038 0 1 + 5587 12162 3688 3700 6190 6190 -0.20091438748079327 ESDGQDKRAE 10 Unmodified _ESDGQDKRAE_ 0 0 0 REV__ARHGAP30|p.G817S|1|0.13|ENSG00000186517|chr1:161048572-161048572|C/T|missense_variant REV__ARHGAP30|p.G817S|1|0.13|ENSG00000186517|chr1:161048572-161048572|C/T|missense_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.2279357910156 3 378.838908 1133.49489 2.7279 0.0010335 -1.0039 -0.00038032 1.724 0.00065313 378.83786222095534 56.438 0.14682 56.703 56.671 56.818 0.26543 12 10 2 0 0 0 0.12676 1 25858 25858 1.7423 0.78 1 639730 + 5588 9969 3689 3701 6191 6191 -0.06651323023379518 ESDIMWCKVM 10 Unmodified _ESDIMWCKVM_ 0 0 0 REV__nc|ENSG00000141736|P04626-3|ERBB2 REV__nc|ENSG00000141736|P04626-3|ERBB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 621.2734375 2 621.271795 1240.52904 NaN NaN NaN NaN NaN NaN NaN 92.268 1 92.268 91.768 92.768 0 0 0 0 0.98866 1 48986 48986 7.2892 0 1 + 5589 12306 3690 3702 6192 6192 -0.08160657452003761 ESDRFLHIMQ 10 Unmodified _ESDRFLHIMQ_ 0 0 0 ENSG00000130227|ENST00000252512|XPO7 ENSG00000130227|ENST00000252512|XPO7 ENSG00000130227|ENST00000252512|XPO7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 638.3130493164062 2 638.311155 1274.60776 2.9965 0.0019127 0.48588 0.00031014 3.4823 0.0022228 638.3116995642177 76.753 0.29216 77.376 77.216 77.509 0.62397 48 19 3 0 0 0 0.22696 1 37177 37177 36.127 0 1 2608000 5590 2578 3691 3703 6193 6193 -0.0185634583101546 ESECDDEDSFD 11 Unmodified _ESECDDEDSFD_ 0 0 0 REV__ENSG00000113600|ENST00000263408|C9 REV__ENSG00000113600|ENST00000263408|C9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 645.7003784179688 2 645.701162 1289.38777 NaN NaN NaN NaN NaN NaN NaN 59.962 1 60.627 60.127 61.127 0.66503 0 0 0 1.0072 1 27447 27447 1.3295 0 1 + 5591 11305 3692 3704 6194 6194 -0.24534705810606283 ESEPDEVPRF 10 Unmodified _ESEPDEVPRF_ 0 0 0 REV__ENSG00000031081|ENST00000264245|ARHGAP31 REV__ENSG00000031081|ENST00000264245|ARHGAP31 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 402.523681640625 3 402.187537 1203.54078 2.8809 0.0011587 1.4337 0.0005766 4.3145 0.0017353 402.1886182842343 64.252 0.22046 64.5 64.379 64.599 0.24802 28 13 3 0 0 0 0.84709 1 29444 29444 3.3196 0 1 508690 + 5592 10290 3693 3705 6195 6195 -0.05284677841154917 ESETCSCEVL 10 Unmodified _ESETCSCEVL_ 0 0 0 ENST00000545606.5_1_12:67696139-67696184:+|nuORF ENST00000545606.5_1_12:67696139-67696184:+|nuORF ENST00000545606.5_1_12:67696139-67696184:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.2196655273438 2 550.21774 1098.42093 NaN NaN NaN NaN NaN NaN NaN 52.569 1 52.832 52.332 53.332 0.26345 0 0 0 0.99464 1 24033 24033 6.2058 1.8765 1 5593 8843 3694 3706 6196 6196 -0.12434750501552116 ESFKKRVI 8 Unmodified _ESFKKRVI_ 0 0 0 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497|SP100;ENSG00000067066|ENST00000340126|SP100;nc|ENSG00000067066|P23497-7|SP100;nc|ENSG00000067066|P23497-6|SP100;nc|ENSG00000067066|P23497-2|SP100;nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-3|SP100 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 336.6737365722656 3 336.206315 1005.59712 2.4003 0.00080698 -0.26614 -8.9477E-05 2.1341 0.0007175 336.2061543135711 13.333 0.17712 13.333 13.25 13.427 0 30 16 2 0 0 0 0.14132 1 5802 5802 3.2813 2.319 1 487050 5594 719;9554 3695 3707 6197 6197 0.09454039576849027 ESFKKRVI 8 Unmodified _ESFKKRVI_ 0 0 0 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497|SP100;ENSG00000067066|ENST00000340126|SP100;nc|ENSG00000067066|P23497-7|SP100;nc|ENSG00000067066|P23497-6|SP100;nc|ENSG00000067066|P23497-2|SP100;nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-3|SP100 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 336.2070007324219 3 336.206315 1005.59712 NaN NaN NaN NaN NaN NaN NaN 12.849 1 13.111 12.611 13.611 0.26154 0 0 0 0.67718 1 5592 5592 37.974 27.9 1 5595 719;9554 3695 3707 6198 6198 0.09454039576849027 ESFKKRVI 8 Unmodified _ESFKKRVI_ 0 0 0 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497|SP100;ENSG00000067066|ENST00000340126|SP100;nc|ENSG00000067066|P23497-7|SP100;nc|ENSG00000067066|P23497-6|SP100;nc|ENSG00000067066|P23497-2|SP100;nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-3|SP100 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.8065490722656 2 503.805834 1005.59712 NaN NaN NaN NaN NaN NaN NaN 12.779 1 13.086 12.586 13.586 0.30727 0 0 0 0.64864 1 5766 5766 24.021 12.38 1 5596 719;9554 3695 3707 6199 6199 0.09454039576849027 ESFKKRVI 8 Unmodified _ESFKKRVI_ 0 0 0 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497|SP100;ENSG00000067066|ENST00000340126|SP100;nc|ENSG00000067066|P23497-7|SP100;nc|ENSG00000067066|P23497-6|SP100;nc|ENSG00000067066|P23497-2|SP100;nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-3|SP100 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.2068176269531 3 336.206315 1005.59712 1.7619 0.00059237 0.80569 0.00027088 2.5676 0.00086325 336.20627888746657 12.765 0.15583 13.072 12.969 13.125 0.30727 5 3 2 0 0 0 0.090802 1 5776 5776 36.506 19.393 1 4077900 5597 719;9554 3695 3707 6200 6200 0.09454039576849027 ESFKKRVI 8 Unmodified _ESFKKRVI_ 0 0 0 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497|SP100;ENSG00000067066|ENST00000340126|SP100;nc|ENSG00000067066|P23497-7|SP100;nc|ENSG00000067066|P23497-6|SP100;nc|ENSG00000067066|P23497-2|SP100;nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-3|SP100 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.8525390625 3 336.206315 1005.59712 2.6112 0.0008779 0.68617 0.0002307 3.2974 0.0011086 336.2063172233738 12.649 0.10099 13.292 13.21 13.311 0.64272 4 2 2 0 0 0 0.17174 2 5674 5674;5686 45.7 24.163 1 3165600 5598 719;9554 3695 3707 6201;6202 6201 0.09454039576849027 ESFWWWNRTWW 11 Unmodified _ESFWWWNRTWW_ 0 0 0 REV__ENST00000573520.5_1_16:4521405-4524561:-|nuORF REV__ENST00000573520.5_1_16:4521405-4524561:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 842.3814086914062 2 842.378217 1682.74188 NaN NaN NaN NaN NaN NaN NaN 109.2 1 109.51 109.01 110.01 0.31104 0 0 0 1.0082 1 50344 50344 0 0 1 + 5599 15096 3696 3708 6203 6203 -0.07217944013996203 ESIRKKRVRK 10 Unmodified _ESIRKKRVRK_ 0 0 0 ENST00000477827.1_1_22:39537236-39548449:-|nuORF;ENSG00000100307|ENST00000216133|CBX7 ENST00000477827.1_1_22:39537236-39548449:-|nuORF ENST00000477827.1_1_22:39537236-39548449:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 650.1198120117188 2 650.42022 1298.82589 NaN NaN NaN NaN NaN NaN NaN 97.885 1 97.956 97.456 98.456 0.070648 0 0 0 0.99733 1 52465 52465 3.9444 0.3479 1 5600 1204 3697 3709 6204 6204 0.18842631873576465 ESKLKTALL 9 Unmodified _ESKLKTALL_ 0 0 0 ENSG00000068366|ENST00000672401|ACSL4;nc|ENSG00000068366|O60488|ACSL4 ENSG00000068366|ENST00000672401|ACSL4 ENSG00000068366|ENST00000672401|ACSL4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.8150939941406 2 501.813325 1001.6121 3.2513 0.0016316 0.42474 0.00021314 3.6761 0.0018447 501.8134392179563 33.744 0.28343 33.998 33.84 34.123 0.25389 30 17 2 0 0 0 0.11458 2 15336 15336;15397 29.082 6.3453 1 535610 5601 733 3698 3710 6205;6206 6205 0.11135486654177384 ESKLKTALL 9 Unmodified _ESKLKTALL_ 0 0 0 ENSG00000068366|ENST00000672401|ACSL4;nc|ENSG00000068366|O60488|ACSL4 ENSG00000068366|ENST00000672401|ACSL4 ENSG00000068366|ENST00000672401|ACSL4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.81475830078125 2 501.813325 1001.6121 3.1159 0.0015636 0.31716 0.00015915 3.4331 0.0017228 501.81339969668505 33.14 0.28614 33.76 33.666 33.952 0.62031 27 16 2 0 0 0 0.099775 1 15205 15205 32.786 5.902 1 258720 5602 733 3698 3710 6207 6207 0.11135486654177384 ESKRFLVKS 9 Unmodified _ESKRFLVKS_ 0 0 0 REV__ENSG00000109182|ENST00000226432|CWH43 REV__ENSG00000109182|ENST00000226432|CWH43 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.20587158203125 3 365.216991 1092.62914 2.4461 0.00089337 3.8329 0.0013998 6.279 0.0022932 365.21882877256974 17.78 0.032375 18.082 18.065 18.097 0.30158 4 2 2 0 0 0 0.11115 1 8059 8059 2.2828 0.3764 1 50068 + 5603 11166 3699 3711 6208 6208 0.08653407259998858 ESKSKLIAL 9 Unmodified _ESKSKLIAL_ 0 0 0 ENSG00000068654|ENST00000263857|POLR1A;ENST00000486964.5_1_2:86305209-86332944:-|nuORF ENSG00000068654|ENST00000263857|POLR1A ENSG00000068654|ENST00000263857|POLR1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.806884765625 2 494.8055 987.596446 3.1924 0.0015796 -0.05509 -2.7259E-05 3.1373 0.0015524 494.8054526911437 34.605 0.23543 34.859 34.728 34.963 0.25389 18 9 2 0 0 0 0.027096 2 15753 15753;15807 55.503 18.997 1 1194000 5604 738 3700 3712 6209;6210 6209 0.10215200137145075 ESKSKLIAL 9 Unmodified _ESKSKLIAL_ 0 0 0 ENSG00000068654|ENST00000263857|POLR1A;ENST00000486964.5_1_2:86305209-86332944:-|nuORF ENSG00000068654|ENST00000263857|POLR1A ENSG00000068654|ENST00000263857|POLR1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.8070373535156 2 494.8055 987.596446 3.1303 0.0015489 -0.46116 -0.00022818 2.6692 0.0013207 494.8053539526243 34.167 0.25965 34.787 34.677 34.937 0.62031 20 12 2 0 0 0 0.028592 1 15652 15652 61.602 19.646 1 935370 5605 738 3700 3712 6211 6211 0.10215200137145075 ESKSKLIAL 9 Unmodified _ESKSKLIAL_ 0 0 0 ENSG00000068654|ENST00000263857|POLR1A;ENST00000486964.5_1_2:86305209-86332944:-|nuORF ENSG00000068654|ENST00000263857|POLR1A ENSG00000068654|ENST00000263857|POLR1A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 494.8055 987.596446 2.8487 0.0014096 -0.22539 -0.00011153 2.6233 0.001298 494.80529271184025 33.957 0.19654 34.746 34.62 34.816 0.78921 -0.051371 3.1433E-05 NaN 55.503 21 12 2 NaN NaN NaN NaN 0 NaN NaN 0 298190 5606 738 3700 3712 0.10215200137145075 ESKWKCYLH 9 Unmodified _ESKWKCYLH_ 0 0 0 REV__nc|ENSG00000168594|Q9UKF5-2|ADAM29 REV__nc|ENSG00000168594|Q9UKF5-2|ADAM29 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 398.5577392578125 3 398.530581 1192.56991 2.7079 0.0010792 -0.60379 -0.00024063 2.1041 0.00083855 398.5305536036268 13.181 0.095292 13.181 13.103 13.199 0 6 5 2 0 0 0 0.11009 1 5724 5724 5.2969 1.4206 1 212800 + 5607 13356 3701 3713 6212 6212 -0.01866812025832587 ESLDVDDYII 10 Unmodified _ESLDVDDYII_ 0 0 0 REV__ENSG00000187889|ENST00000343433|FYB2 REV__ENSG00000187889|ENST00000343433|FYB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.52545166015625 3 394.523926 1180.54995 2.7001 0.0010652 0.85802 0.00033851 3.5581 0.0014038 394.52433112712373 30.253 0.22432 31.043 30.881 31.105 0.78921 32 20 2 0 0 0 0.85597 1 13660 13660 5.7834 2.1964 1 203110 + 5608 14121 3702 3714 6213 6213 -0.033103292754503855 ESLLRRQP 8 Unmodified _ESLLRRQP_ 0 0 0 ENSG00000198746|ENST00000361720|GPATCH3 ENSG00000198746|ENST00000361720|GPATCH3 ENSG00000198746|ENST00000361720|GPATCH3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.7931823730469 2 499.790715 997.566878 3.3083 0.0016534 0.66639 0.00033305 3.9747 0.0019865 499.7911506678958 14.551 0.34339 15.2 15.142 15.486 0.6482 52 34 2 0 0 0 0.7471 1 6666 6666 0.69038 0.088878 1 627630 5609 5927 3703 3715 6214 6214 0.06799680911660744 ESLPLKVVLV 10 Unmodified _ESLPLKVVLV_ 0 0 0 REV__ENSG00000142185|ENST00000397928|TRPM2 REV__ENSG00000142185|ENST00000397928|TRPM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.8532104492188 2 548.85245 1095.69035 NaN NaN NaN NaN NaN NaN NaN 90.753 1 90.753 90.253 91.253 0 0 0 0 0.9754 1 47784 47784 9.3831 5.7866 1 + 5610 12317 3704 3716 6215 6215 0.14632919239420517 ESMPLLIL 8 Unmodified _ESMPLLIL_ 0 0 0 REV__ENST00000598479.1_1_19:52918141-52918324:+|nuORF REV__ENST00000598479.1_1_19:52918141-52918324:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 458.7662048339844 2 458.264622 914.514691 1.4955 0.00068532 -1.3243 -0.0006069 0.17114 7.8427E-05 458.26379374074276 100.62 0.67388 100.68 100.59 101.27 0.059723 60 35 2 0 0 0 0.74071 1 54789 54789 2.5775 0 1 5009000 + 5611 17622 3705 3717 6216 6216 0.05401381453691556 ESPHAMDPFG 10 Unmodified _ESPHAMDPFG_ 0 0 0 REV__ENSG00000261949|ENST00000610896|GFY REV__ENSG00000261949|ENST00000610896|GFY MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.7294921875 2 544.229299 1086.44404 3.3962 0.0018483 -0.79932 -0.00043502 2.5969 0.0014133 544.228967028546 57.456 0.47119 57.72 57.664 58.135 0.26444 52 29 2 0 0 0 0.12645 1 26342 26342 10.074 0.6908 1 2648100 + 5612 14697 3706 3718 6217 6217 -0.09571943601940802 ESPMHKLLMR 10 Unmodified _ESPMHKLLMR_ 0 0 0 REV__nc|ENSG00000146216|Q5TCY1-2|TTBK1 REV__nc|ENSG00000146216|Q5TCY1-2|TTBK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.0264892578125 2 621.328293 1240.64203 NaN NaN NaN NaN NaN NaN NaN 92.23 1 92.313 91.813 92.813 0.082848 0 0 0 0.99774 1 48010 48010 3.5965 0 1 + 5613 12464 3707 3719 6218 6218 0.03133779056224739 ESQRWWCLL 9 Unmodified _ESQRWWCLL_ 0 0 0 nc|ENSG00000290798|Q9H1B4|NXF5 nc|ENSG00000290798|Q9H1B4|NXF5 nc|ENSG00000290798|Q9H1B4|NXF5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 610.8004150390625 2 610.797683 1219.58081 3.3447 0.0020429 2.0998 0.0012825 5.4444 0.0033255 610.7991885914587 37.272 0.24519 38.067 37.917 38.162 0.79552 23 11 3 0 0 0 0.29781 2 16870 16870;16918 16.942 3.0362 1 482360 5614 9881 3708 3720 6219;6220 6219 -0.020194096515524507 ESRETSHVF 9 Unmodified _ESRETSHVF_ 0 0 0 REV__ENSG00000137225|ENST00000398776|CAPN11 REV__ENSG00000137225|ENST00000398776|CAPN11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 364.4658203125 3 364.508722 1090.50434 NaN NaN NaN NaN NaN NaN NaN 60.298 1 60.298 59.798 60.798 0 0 0 0 0.89602 1 27968 27968 4.5289 0.58447 1 + 5615 12104 3709 3721 6221 6221 -0.037295099471975846 ESRKGKQTRQQ 11 Unmodified _ESRKGKQTRQQ_ 0 0 0 nc|ENSG00000197901|Q4U2R8-3|SLC22A6;ENSG00000197901|ENST00000360421|SLC22A6 nc|ENSG00000197901|Q4U2R8-3|SLC22A6 nc|ENSG00000197901|Q4U2R8-3|SLC22A6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 673.3699951171875 2 673.368381 1344.72221 NaN NaN NaN NaN NaN NaN NaN 99.386 1 99.984 99.484 100.48 0.59748 0 0 0 1.0047 1 45954 45954 4.5289 0.93237 1 5616 5848 3710 3722 6222 6222 0.06363679975265768 ESRMRIESL 9 Unmodified _ESRMRIESL_ 0 0 0 ENSG00000113368|ENST00000261366|LMNB1;ENST00000504788.5_1_5:126112928-126171953:+|nuORF ENSG00000113368|ENST00000261366|LMNB1 ENSG00000113368|ENST00000261366|LMNB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.199462890625 3 374.197491 1119.57064 3.0014 0.0011231 -0.92869 -0.00034751 2.0727 0.00077559 374.1972774234139 32.445 0.27028 32.699 32.583 32.853 0.25452 35 14 3 0 0 0 0.04013 1 14761 14761 51.415 5.6754 1 1344600 5617 1849 3711 3723 6223 6223 0.015639826232018095 ESRMRIESL 9 Unmodified _ESRMRIESL_ 0 0 0 ENSG00000113368|ENST00000261366|LMNB1;ENST00000504788.5_1_5:126112928-126171953:+|nuORF ENSG00000113368|ENST00000261366|LMNB1 ENSG00000113368|ENST00000261366|LMNB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.1987609863281 3 374.197491 1119.57064 2.6411 0.0009883 0.14826 5.5479E-05 2.7894 0.0010438 374.1975336516567 31.837 0.32189 32.454 32.345 32.667 0.61737 34 16 3 0 0 0 0.076469 2 14611 14567;14611 38.615 0 1 1027200 5618 1849 3711 3723 6224;6225 6225 0.015639826232018095 ESRMRIESL 9 Unmodified _ESRMRIESL_ 0 0 0 ENSG00000113368|ENST00000261366|LMNB1;ENST00000504788.5_1_5:126112928-126171953:+|nuORF ENSG00000113368|ENST00000261366|LMNB1 ENSG00000113368|ENST00000261366|LMNB1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 374.197491 1119.57064 3.0014 0.0011231 -0.92869 -0.00034751 2.0727 0.00077559 374.1972774234139 32.445 0.27028 32.699 32.583 32.853 0.25452 0.12243 -0.00077608 NaN 51.415 35 14 3 NaN NaN NaN NaN 0 NaN NaN 0 1344600 5619 1849 3711 3723 0.015639826232018095 ESRMRIESL 9 Unmodified _ESRMRIESL_ 0 0 0 ENSG00000113368|ENST00000261366|LMNB1;ENST00000504788.5_1_5:126112928-126171953:+|nuORF ENSG00000113368|ENST00000261366|LMNB1 ENSG00000113368|ENST00000261366|LMNB1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 374.197491 1119.57064 2.6411 0.0009883 0.14826 5.5479E-05 2.7894 0.0010438 374.1975336516567 31.837 0.32189 32.454 32.345 32.667 0.61737 -0.12243 0.00043289 NaN 51.415 34 16 3 NaN NaN NaN NaN 0 NaN NaN 0 1027200 5620 1849 3711 3723 0.015639826232018095 ESRPPSDLCEF 11 Unmodified _ESRPPSDLCEF_ 0 0 0 REV__ENSG00000198924|ENST00000361384|DCLRE1A REV__ENSG00000198924|ENST00000361384|DCLRE1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.28271484375 2 640.284802 1278.55505 NaN NaN NaN NaN NaN NaN NaN 97.563 1 97.633 97.133 98.133 0.070648 0 0 0 1.0059 1 52199 52199 2.9952 0.69251 1 + 5621 14382 3712 3724 6226 6226 -0.0730834868452348 ESRRRLPRRRR 11 Unmodified _ESRRRLPRRRR_ 0 0 0 REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 308.8775939941406 5 308.393235 1536.92979 2.0039 0.00061799 -0.64674 -0.00019945 1.3572 0.00041854 308.59358889817156 56.285 0.35387 57.063 56.959 57.312 0.77786 52 35 2 0 0 0 0.13295 1 25693 25693 0 0 1 1166800 + 5622 15827 3713 3725 6227 6227 0.18280351753787727 ESRRRLPRRRR 11 Unmodified _ESRRRLPRRRR_ 0 0 0 REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 308.59454345703125 5 308.393235 1536.92979 1.8932 0.00058386 -0.063791 -1.9673E-05 1.8295 0.00056419 308.59390967509574 55.035 0.47904 55.822 55.686 56.165 0.78711 43 35 2 0 0 0 0.13295 1 25270 25270 0 0 1 533540 + 5623 15827 3713 3725 6228 6228 0.18280351753787727 ESRRRLPRRRR 11 Unmodified _ESRRRLPRRRR_ 0 0 0 REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.87738037109375 5 308.393235 1536.92979 2.1383 0.00065943 -0.48128 -0.00014842 1.657 0.00051101 308.59353658851387 59.329 0.073742 59.995 59.958 60.032 0.66589 5 3 2 0 0 0 0.13295 1 27174 27174 0.073264 0 1 704600 + 5624 15827 3713 3725 6229 6229 0.18280351753787727 ESRRRLPRRRR 11 Unmodified _ESRRRLPRRRR_ 0 0 0 REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 5 308.393235 1536.92979 2.0575 0.00063451 0.085088 2.6241E-05 2.1426 0.00066075 308.393193691002 57.128 0.26987 57.128 56.981 57.25 0 0.15802 0.00033601 NaN 0 37 30 2 NaN NaN NaN NaN 0 NaN NaN 0 1171100 + 5625 15827 3713 3725 0.18280351753787727 ESRRRLPRRRR 11 Unmodified _ESRRRLPRRRR_ 0 0 0 REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 5 308.393235 1536.92979 1.7909 0.0005523 -0.59382 -0.00018313 1.1971 0.00036917 308.3930596418813 55.821 0.28864 55.821 55.736 56.024 0 0.0021246 -0.00071972 NaN 0 33 22 2 NaN NaN NaN NaN 0 NaN NaN 0 1404500 + 5626 15827 3713 3725 0.18280351753787727 ESRRRLPRRRR 11 Unmodified _ESRRRLPRRRR_ 0 0 0 REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 5 308.393235 1536.92979 2.2487 0.00069348 -0.2984 -9.2025E-05 1.9503 0.00060146 308.3930812977676 59.677 0.30787 59.937 59.647 59.955 0.2593 -0.029287 7.8833E-05 NaN 0.073264 16 14 2 NaN NaN NaN NaN 0 NaN NaN 0 821680 + 5627 15827 3713 3725 0.18280351753787727 ESRRRLPRRRR 11 Unmodified _ESRRRLPRRRR_ 0 0 0 REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 5 308.393235 1536.92979 2.1714 0.00066964 -0.097352 -3.0023E-05 2.074 0.00063961 308.593672460605 56.753 0.41275 57.018 56.817 57.229 0.26444 0.047392 5.4696E-05 NaN 0 41 19 3 NaN NaN NaN NaN 0 NaN NaN 0 1690100 + 5628 15827 3713 3725 0.18280351753787727 ESRRRLPRRRR 11 Unmodified _ESRRRLPRRRR_ 0 0 0 REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 5 308.393235 1536.92979 2.0239 0.00062415 0.23722 7.3157E-05 2.2611 0.0006973 308.3933067987582 55.548 0.27479 55.814 55.577 55.852 0.26543 -0.0055178 0.00056171 NaN 0 27 12 3 NaN NaN NaN NaN 0 NaN NaN 0 1311400 + 5629 15827 3713 3725 0.18280351753787727 ESRRRLPRRRR 11 Unmodified _ESRRRLPRRRR_ 0 0 0 REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 5 308.393235 1536.92979 2.1694 0.00066901 0.18872 5.8199E-05 2.3581 0.00072721 308.59391214708666 56.004 0.62399 56.672 56.316 56.94 0.66798 -0.29784 0.0004958 NaN 0 67 30 3 NaN NaN NaN NaN 0 NaN NaN 0 934930 + 5630 15827 3713 3725 0.18280351753787727 ESSCCTYEQP 10 Unmodified _ESSCCTYEQP_ 0 0 0 REV__ENST00000471717.1_1_7:99772169-99774834:-|nuORF REV__ENST00000471717.1_1_7:99772169-99774834:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.7058715820312 2 573.707539 1145.40053 NaN NaN NaN NaN NaN NaN NaN 98.476 1 98.542 98.042 99.042 0.066025 0 0 0 0.9952 1 52957 52957 5.7319 1.4026 1 + 5631 14493 3714 3726 6230 6230 -0.16635921161378064 ESSKILTAKKE 11 Unmodified _ESSKILTAKKE_ 0 0 0 REV__ENSG00000080986|ENST00000261597|NDC80 REV__ENSG00000080986|ENST00000261597|NDC80 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.359619140625 2 617.356085 1232.69762 NaN NaN NaN NaN NaN NaN NaN 93.203 1 93.203 92.703 93.703 0 0 0 0 1.0047 1 49734 49734 4.5289 0.93237 1 + 5632 10604 3715 3727 6231 6231 0.09057607049157923 ESSLLLFA 8 Unmodified _ESSLLLFA_ 0 0 0 REV__ENSG00000163810|ENST00000296125|TGM4 REV__ENSG00000163810|ENST00000296125|TGM4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 440.2460021972656 2 440.244744 878.474934 2.8729 0.0012648 -0.076991 -3.3895E-05 2.7959 0.0012309 440.2447837323557 39.493 0.22164 39.76 39.684 39.906 0.26696 11 8 2 0 0 0 0.73686 1 18001 18001 2.8892 0.31174 1 154590 + 5633 13030 3716 3728 6232 6232 0.030835777746119675 ESSQLLYLL 9 Unmodified _ESSQLLYLL_ 0 0 0 ENSG00000101868|ENST00000379068|POLA1;nc|ENSG00000101868|P09884|POLA1 ENSG00000101868|ENST00000379068|POLA1 ENSG00000101868|ENST00000379068|POLA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.2963256835938 2 533.294965 1064.57538 2.4924 0.0013292 0.57474 0.00030651 3.0671 0.0016357 533.2952169362313 75.088 0.27584 75.088 74.971 75.247 0 62 25 3 0 0 0 0.029308 1 36785 36785 56.177 7.8312 1 3779100 5634 1316 3717 3729 6233 6233 0.04567190037619184 ESSQLLYLL 9 Unmodified _ESSQLLYLL_ 0 0 0 ENSG00000101868|ENST00000379068|POLA1;nc|ENSG00000101868|P09884|POLA1 ENSG00000101868|ENST00000379068|POLA1 ENSG00000101868|ENST00000379068|POLA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1065.59765625 1 1065.58265 1064.57538 3.0565 0.0032569 1.2598 0.0013424 4.3163 0.0045994 1065.5850357153001 74.157 0.12512 74.843 74.797 74.922 0.68662 17 10 2 0 0 0 0.02234 2 35845 35829;35845 65.235 16.889 1 1531200 5635 1316 3717 3729 6234;6235 6235 0.04567190037619184 ESTLHLVL 8 Unmodified _ESTLHLVL_ 0 0 0 ENSG00000221983|ENST00000442744|UBA52;ENST00000392399.3_1_2:137087013-137087097:-|nuORF;ENST00000578649.1_1_17:16284470-16285908:+|nuORF;ENST00000584755.1_1_17:21731300-21731612:+|nuORF;ENST00000584755.1_1_17:21730896-21731370:+|nuORF;ENSG00000170315|ENST00000302182|UBB;ENSG00000150991|ENST00000339647|UBC;ENST00000478196.6_1_2:55459960-55462152:+|nuORF;ENSG00000143947|ENST00000272317|RPS27A ENSG00000221983|ENST00000442744|UBA52;ENST00000478196.6_1_2:55459960-55462152:+|nuORF ENSG00000221983|ENST00000442744|UBA52 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.2651672363281 2 456.263468 910.512382 NaN NaN NaN NaN NaN NaN NaN 62.49 1 62.739 62.239 63.239 0.24965 0 0 0 0.031002 1 28610 28610 98.807 20.362 1 5636 6156;3402 3718 3730 6236 6236 0.053546690402299646 ESTLHLVL 8 Unmodified _ESTLHLVL_ 0 0 0 ENSG00000221983|ENST00000442744|UBA52;ENST00000392399.3_1_2:137087013-137087097:-|nuORF;ENST00000578649.1_1_17:16284470-16285908:+|nuORF;ENST00000584755.1_1_17:21731300-21731612:+|nuORF;ENST00000584755.1_1_17:21730896-21731370:+|nuORF;ENSG00000170315|ENST00000302182|UBB;ENSG00000150991|ENST00000339647|UBC;ENST00000478196.6_1_2:55459960-55462152:+|nuORF;ENSG00000143947|ENST00000272317|RPS27A ENSG00000221983|ENST00000442744|UBA52;ENST00000478196.6_1_2:55459960-55462152:+|nuORF ENSG00000221983|ENST00000442744|UBA52 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.2642822265625 2 456.263468 910.512382 NaN NaN NaN NaN NaN NaN NaN 61.765 1 62.425 61.925 62.925 0.66008 0 0 0 0.031002 1 28291 28291 98.807 20.362 1 5637 6156;3402 3718 3730 6237 6237 0.053546690402299646 ESVREWEM 8 Unmodified _ESVREWEM_ 0 0 0 ENSG00000164040|ENST00000296425|PGRMC2;nc|ENSG00000164040|O15173-2|PGRMC2 ENSG00000164040|ENST00000296425|PGRMC2 ENSG00000164040|ENST00000296425|PGRMC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.2368774414062 2 533.237124 1064.45969 NaN NaN NaN NaN NaN NaN NaN 43.316 1 43.586 43.086 44.086 0.27021 0 0 0 0.096626 1 19787 19787 55.503 23.386 1 5638 4275 3719 3731 6238 6238 -0.06995657084894447 ESVREWEM 8 Unmodified _ESVREWEM_ 0 0 0 ENSG00000164040|ENST00000296425|PGRMC2;nc|ENSG00000164040|O15173-2|PGRMC2 ENSG00000164040|ENST00000296425|PGRMC2 ENSG00000164040|ENST00000296425|PGRMC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.2391357421875 2 533.237124 1064.45969 NaN NaN NaN NaN NaN NaN NaN 42.712 1 43.359 42.859 43.859 0.64693 0 0 0 0.17885 1 19571 19571 43.772 11.655 1 5639 4275 3719 3731 6239 6239 -0.06995657084894447 ESWTGRYS 8 Unmodified _ESWTGRYS_ 0 0 0 REV__IL21R|p.Q211R|1|0.26|ENSG00000103522|chr16:27444666-27444666|A/G|missense_variant REV__IL21R|p.Q211R|1|0.26|ENSG00000103522|chr16:27444666-27444666|A/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.22454833984375 2 493.222331 984.430109 NaN NaN NaN NaN NaN NaN NaN 96.256 1 96.864 96.364 97.364 0.60769 0 0 0 0.99035 1 44260 44260 2.5775 0 1 + 5640 17747 3720 3732 6240 6240 -0.06272853038717585 ESYCFWRF 8 Unmodified _ESYCFWRF_ 0 0 0 REV__ENSG00000173258|ENST00000309235|ZNF483 REV__ENSG00000173258|ENST00000309235|ZNF483 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.2879028320312 2 569.244752 1136.47495 NaN NaN NaN NaN NaN NaN NaN 92.882 1 92.882 92.382 93.382 0 0 0 0 0.99035 1 49464 49464 5.2307 0.33366 1 + 5641 13593 3721 3733 6241 6241 -0.08782745497046562 ESYRKKYKGQ 10 Unmodified _ESYRKKYKGQ_ 0 0 0 REV__ENST00000263511.8_1_1:16812982-16817701:-|nuORF REV__ENST00000263511.8_1_1:16812982-16817701:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 643.849853515625 2 643.846219 1285.67788 NaN NaN NaN NaN NaN NaN NaN 16.762 1 16.963 16.463 17.463 0.20057 0 0 0 0.96627 1 7410 7410 10.824 1.4408 1 + 5642 14999 3722 3734 6242 6242 0.04647275829074715 ESYTLDQLHKW 11 Unmodified _ESYTLDQLHKW_ 0 0 0 REV__ENSG00000198198|ENST00000634258|SZT2 REV__ENSG00000198198|ENST00000634258|SZT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 710.34912109375 2 710.348791 1418.68303 NaN NaN NaN NaN NaN NaN NaN 92.083 1 92.083 91.583 92.583 0 0 0 0 1.0073 1 48827 48827 1.1933 0 1 + 5643 14326 3723 3735 6243 6243 -0.009564650989887014 ETDSLYLAL 9 Unmodified _ETDSLYLAL_ 0 0 0 REV__LARGE|p.A508T|1|0.19|ENSG00000133424|chr22:33304437-33304437|C/T|missense_variant REV__LARGE|p.A508T|1|0.19|ENSG00000133424|chr22:33304437-33304437|C/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.7664794921875 2 512.763497 1023.51244 3.5565 0.0018236 0.46096 0.00023636 4.0174 0.00206 512.7636587939121 66.288 0.24846 66.536 66.418 66.666 0.24848 27 13 3 0 0 0 0.20384 1 30352 30352 23.148 5.0134 1 1013000 + 5644 17817 3724 3736 6244 6244 0.00162624249549026 ETDSLYLAL 9 Unmodified _ETDSLYLAL_ 0 0 0 REV__LARGE|p.A508T|1|0.19|ENSG00000133424|chr22:33304437-33304437|C/T|missense_variant REV__LARGE|p.A508T|1|0.19|ENSG00000133424|chr22:33304437-33304437|C/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.76513671875 2 512.763497 1023.51244 3.4886 0.0017888 0.038197 1.9586E-05 3.5268 0.0018084 512.7635880974163 65.731 0.27343 66.388 66.24 66.514 0.65672 22 14 2 0 0 0 0.49692 1 30174 30174 12.532 3.9383 1 1006100 + 5645 17817 3724 3736 6245 6245 0.00162624249549026 ETDSLYLAL 9 Unmodified _ETDSLYLAL_ 0 0 0 REV__LARGE|p.A508T|1|0.19|ENSG00000133424|chr22:33304437-33304437|C/T|missense_variant REV__LARGE|p.A508T|1|0.19|ENSG00000133424|chr22:33304437-33304437|C/T|missense_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 512.763497 1023.51244 3.5565 0.0018236 0.46096 0.00023636 4.0174 0.00206 512.7636587939121 66.288 0.24846 66.536 66.418 66.666 0.24848 0.074314 0.00025619 NaN 23.148 27 13 3 NaN NaN NaN NaN 0 NaN NaN 0 1013000 + 5646 17817 3724 3736 0.00162624249549026 ETDSLYLAL 9 Unmodified _ETDSLYLAL_ 0 0 0 REV__LARGE|p.A508T|1|0.19|ENSG00000133424|chr22:33304437-33304437|C/T|missense_variant REV__LARGE|p.A508T|1|0.19|ENSG00000133424|chr22:33304437-33304437|C/T|missense_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 512.763497 1023.51244 3.4886 0.0017888 0.038197 1.9586E-05 3.5268 0.0018084 512.7635880974163 65.731 0.27343 66.388 66.24 66.514 0.65672 -0.074314 -0.00017736 NaN 23.148 22 14 2 NaN NaN NaN NaN 0 NaN NaN 0 1006100 + 5647 17817 3724 3736 0.00162624249549026 ETEAERMKQDL 11 Unmodified _ETEAERMKQDL_ 0 0 0 REV__ENST00000471813.1_1_7:99008715-99013888:+|nuORF REV__ENST00000471813.1_1_7:99008715-99013888:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 675.32763671875 2 675.321916 1348.62928 NaN NaN NaN NaN NaN NaN NaN 73.859 1 74.523 74.023 75.023 0.6644 0 0 0 1.0038 1 33980 33980 5.7319 0 1 + 5648 11076 3725 3737 6246 6246 -0.031090055929780647 ETEHYCSYCYR 11 Unmodified _ETEHYCSYCYR_ 0 0 0 nc|ENSG00000169918|Q8TE49|OTUD7A;ENSG00000169918|ENST00000307050|OTUD7A nc|ENSG00000169918|Q8TE49|OTUD7A nc|ENSG00000169918|Q8TE49|OTUD7A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 727.2765502929688 2 727.279194 1452.54384 NaN NaN NaN NaN NaN NaN NaN 73.076 1 73.74 73.24 74.24 0.66398 0 0 0 1.0072 1 33566 33566 1.3295 0 1 5649 9750 3726 3738 6247 6247 -0.16433494050261288 ETERRVKERRE 11 Unmodified _ETERRVKERRE_ 0 0 0 REV__ENST00000468573.5_1_1:239550009-239550420:+|nuORF REV__ENST00000468573.5_1_1:239550009-239550420:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 744.3782958984375 2 744.405495 1486.79644 NaN NaN NaN NaN NaN NaN NaN 100.57 1 100.57 100.07 101.07 0 0 0 0 1.0047 1 55527 55527 4.5289 0.93237 1 + 5650 16567 3727 3739 6248 6248 0.07251023066783091 ETEWTALI 8 Unmodified _ETEWTALI_ 0 0 0 REV__AluJr4_dup19980|chr22:30629343-30629529:+|1.0592181830142802|0.2646484787598915|2.0|540.0|6|3|sense REV__AluJr4_dup19980|chr22:30629343-30629529:+|1.0592181830142802|0.2646484787598915|2.0|540.0|6|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 962.4849243164062 1 962.482939 961.475663 3.8018 0.0036592 -1.2533 -0.0012063 2.5485 0.0024529 962.4821559355985 67.02 0.41444 67.678 67.475 67.89 0.65777 33 22 2 0 0 0 0.34607 1 30663 30663 32.117 7.4431 1 393120 + 5651 9945 3728 3740 6249 6249 -0.006616275763349222 ETFRRWHRKRR 11 Unmodified _ETFRRWHRKRR_ 0 0 0 ENST00000416673.6_1_2:114369763-114384446:-|nuORF ENST00000416673.6_1_2:114369763-114384446:-|nuORF ENST00000416673.6_1_2:114369763-114384446:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 814.4628295898438 2 814.461273 1626.90799 NaN NaN NaN NaN NaN NaN NaN 54.492 1 54.492 53.992 54.992 0 0 0 0 1.008 1 25004 25004 0.30703 0 1 5652 7716 3729 3741 6250 6250 0.11961547005194006 ETHLKQQL 8 Unmodified _ETHLKQQL_ 0 0 0 ENSG00000084652|ENST00000373610|TXLNA ENSG00000084652|ENST00000373610|TXLNA ENSG00000084652|ENST00000373610|TXLNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.7789001464844 2 498.777274 995.539994 3.3999 0.0016958 0.16397 8.1783E-05 3.5638 0.0017776 498.7773355108557 13.086 0.1661 13.729 13.612 13.778 0.64272 19 8 3 0 0 0 0.0083552 1 5862 5862 120.45 49.735 1 954160 5653 958 3730 3742 6251 6251 0.04204572300466225 ETIHEEQYYQY 11 Unmodified _ETIHEEQYYQY_ 0 0 0 ENST00000513178.1_1_4:47954638-48018683:-|nuORF ENST00000513178.1_1_4:47954638-48018683:-|nuORF ENST00000513178.1_1_4:47954638-48018683:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 751.8284301757812 2 751.825346 1501.63614 NaN NaN NaN NaN NaN NaN NaN 47.779 1 47.779 47.279 48.279 0 0 0 0 1.008 1 21880 21880 0.30703 0.03801 1 5654 8576 3731 3743 6252 6252 -0.09461369440737144 ETKKIQEL 8 Unmodified _ETKKIQEL_ 0 0 0 REV__nc|ENSG00000107581|Q14152-2|EIF3A REV__nc|ENSG00000107581|Q14152-2|EIF3A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 329.8634338378906 3 330.193963 987.560061 1.7875 0.00059022 0.76478 0.00025252 2.5523 0.00084275 330.1942231949634 12.96 0.33729 13.268 13.125 13.463 0.30727 33 14 4 0 0 0 0.1168 1 5833 5833 18.146 1.0335 1 2458500 + 5655 11116 3732 3744 6253 6253 0.06578323240421469 ETLIVIQLFLH 11 Unmodified _ETLIVIQLFLH_ 0 0 0 REV__ENST00000339697.4_1_6:122766184-122766256:-|nuORF REV__ENST00000339697.4_1_6:122766184-122766256:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.6017761230469 3 442.599101 1324.77547 3.305 0.0014628 1.0252 0.00045376 4.3302 0.0019165 442.5994221264095 44.977 1.4106 45.627 45.291 46.702 0.64998 117 53 3 0 0 0 0.89309 1 20750 20750 1.1098 0 1 2286400 + 5656 15452 3733 3745 6254 6254 0.12607664705228672 ETLLLAIF 8 Unmodified _ETLLLAIF_ 0 0 0 REV__ENSG00000255223|ENST00000528616|OR5M11 REV__ENSG00000255223|ENST00000528616|OR5M11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 307.1890563964844 3 307.18815 918.54262 NaN NaN NaN NaN NaN NaN NaN 38.215 1 38.479 37.979 38.979 0.26408 0 0 0 0.99035 1 17401 17401 1.4819 1.0236 1 + 5657 14669 3734 3746 6255 6255 0.08009027705418248 ETLRWRKRWRW 11 Unmodified _ETLRWRKRWRW_ 0 0 0 ENST00000507209.5_1_4:187125362-187125452:+|nuORF ENST00000507209.5_1_4:187125362-187125452:+|nuORF ENST00000507209.5_1_4:187125362-187125452:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 837.0800170898438 2 836.9684 1671.92225 NaN NaN NaN NaN NaN NaN NaN 86.904 1 86.934 86.434 87.434 0.030289 0 0 0 1.008 1 43848 43848 0.26902 0.26902 1 5658 8519 3735 3747 6256 6256 0.11316199433531438 ETLTKTAL 8 Unmodified _ETLTKTAL_ 0 0 0 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 438.7574768066406 2 438.755475 875.496398 NaN NaN NaN NaN NaN NaN NaN 29.24 1 29.5 29 30 0.2602 0 0 0 0.99035 1 13306 13306 4.3292 0 1 5659 5847 3736 3748 6257 6257 0.05366962803316255 ETPIRTWT 8 Unmodified _ETPIRTWT_ 0 0 0 REV__LZTR1|p.C566Afs*26|1|0.36|ENSG00000099949|chr22:20994638-20994638|T/-|frameshift_variant REV__LZTR1|p.C566Afs*26|1|0.36|ENSG00000099949|chr22:20994638-20994638|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.1800231933594 3 335.178425 1002.51345 NaN NaN NaN NaN NaN NaN NaN 18.019 1 18.321 17.821 18.821 0.30158 0 0 0 0.81105 1 8163 8163 13.906 0.86358 1 + 5660 10793 3737 3749 6258 6258 0.012288834091350509 ETPTEIPC 8 Unmodified _ETPTEIPC_ 0 0 0 ENSG00000108576|ENST00000650711|SLC6A4;nc|ENSG00000108576|P31645-2|SLC6A4 ENSG00000108576|ENST00000650711|SLC6A4 ENSG00000108576|ENST00000650711|SLC6A4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 889.4004516601562 1 889.39716 888.389884 3.7589 0.0033431 0.53779 0.00047831 4.2967 0.0038214 889.3976573058919 51.564 0.34455 52.223 52.011 52.355 0.65956 26 18 2 0 0 0 0.23254 1 23594 23594 40.449 8.3316 1 308500 5661 1638 3738 3750 6259 6259 -0.05877535753495522 ETSTFRNQM 9 Unmodified _ETSTFRNQM_ 0 0 0 ENST00000554756.1_1_14:24805383-24807435:-|nuORF;ENSG00000129465|ENST00000216274|RIPK3 ENST00000554756.1_1_14:24805383-24807435:-|nuORF ENST00000554756.1_1_14:24805383-24807435:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.255615234375 2 557.253305 1112.49206 3.7552 0.0020926 -0.33134 -0.00018464 3.4238 0.0019079 557.2531352534098 29.709 0.33321 29.967 29.833 30.166 0.25804 54 29 3 0 0 0 0.83994 1 13536 13536 6.7232 0.51738 1 386970 5662 2550 3739 3751 6260 6260 -0.05968869681896649 ETTTRPLKI 9 Unmodified _ETTTRPLKI_ 0 0 0 REV__ENSG00000100714|ENST00000652337|MTHFD1 REV__ENSG00000100714|ENST00000652337|MTHFD1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.2607421875 2 529.813856 1057.61316 3.2247 0.0017085 0.64907 0.00034389 3.8738 0.0020524 529.814144726789 28.561 0.32651 29.18 28.972 29.299 0.61947 32 17 2 0 0 0 0.10218 1 13025 13025 10.824 3.5347 1 349270 + 5663 10843 3740 3752 6261 6261 0.0866570102307378 ETVVALYFQR 10 Unmodified _ETVVALYFQR_ 0 0 0 ENST00000282096.8_1_11:14665308-14793517:+|nuORF ENST00000282096.8_1_11:14665308-14793517:+|nuORF ENST00000282096.8_1_11:14665308-14793517:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.22650146484375 3 409.224034 1224.65027 2.7883 0.001141 2.5948 0.0010619 5.3831 0.0022029 409.2248289473536 30.127 0.060783 30.916 30.889 30.95 0.78921 6 5 2 0 0 0 0.12676 1 13612 13612 3.3196 0.47636 1 120830 5664 6697 3741 3753 6262 6262 0.04693372568817722 ETYKHSSKLI 10 Unmodified _ETYKHSSKLI_ 0 0 0 ENSG00000129204|ENST00000574788|USP6;nc|ENSG00000129204|P35125-3|USP6;ENST00000357482.5_1_17:5035679-5037292:+|nuORF ENSG00000129204|ENST00000574788|USP6 ENSG00000129204|ENST00000574788|USP6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 603.2919311523438 2 603.32987 1204.64519 3.7831 0.0022824 2.8864 0.0017415 6.6695 0.0040239 603.3314868052546 54.848 0.087063 55.515 55.444 55.531 0.6665 5 3 2 0 0 0 0.099352 1 25094 25094 32.786 13.16 1 280730 5665 2543 3742 3754 6263 6263 0.05105068706257043 EVAKTQAL 8 Unmodified _EVAKTQAL_ 0 0 0 ENSG00000141569|ENST00000269383|TRIM65 ENSG00000141569|ENST00000269383|TRIM65 ENSG00000141569|ENST00000269383|TRIM65 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 430.24981689453125 2 430.247818 858.481082 2.5717 0.0011065 2.2965 0.00098807 4.8683 0.0020946 430.2491379787384 34.368 0.18301 34.368 34.238 34.421 0 12 8 2 0 0 0 0.070862 1 15586 15586 58.679 0 1 513800 5666 3272 3743 3755 6264 6264 0.04618096006140604 EVAKTQAL 8 Unmodified _EVAKTQAL_ 0 0 0 ENSG00000141569|ENST00000269383|TRIM65 ENSG00000141569|ENST00000269383|TRIM65 ENSG00000141569|ENST00000269383|TRIM65 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.2489318847656 2 430.247818 858.481082 2.905 0.0012499 2.2204 0.00095531 5.1254 0.0022052 430.24909368315787 34.218 0.22417 34.472 34.365 34.589 0.25389 18 10 2 0 0 0 0.018424 1 15587 15587 88.904 7.0134 1 1370600 5667 3272 3743 3755 6265 6265 0.04618096006140604 EVCRDFAVL 9 Carbamidomethyl (C) _EVC(Carbamidomethyl (C))RDFAVL_ EVC(1)RDFAVL EVC(54)RDFAVL 0 1 0 ENSG00000152492|ENST00000392455|CCDC50;nc|ENSG00000152492|Q8IVM0|CCDC50 ENSG00000152492|ENST00000392455|CCDC50 ENSG00000152492|ENST00000392455|CCDC50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.7785034179688 2 554.776416 1107.53828 3.2693 0.0018137 0.80843 0.0004485 4.0778 0.0022622 554.7764473037905 55.048 0.20018 55.314 55.178 55.378 0.26543 13 10 2 0 0 0 0.034495 1 25174 25174 53.833 9.4258 1 1727800 5668 3750 3744 3756 6266 6266 68 -0.011188047797986655 EVCRDFAVL 9 Carbamidomethyl (C) _EVC(Carbamidomethyl (C))RDFAVL_ EVC(1)RDFAVL EVC(66)RDFAVL 0 1 0 ENSG00000152492|ENST00000392455|CCDC50;nc|ENSG00000152492|Q8IVM0|CCDC50 ENSG00000152492|ENST00000392455|CCDC50 ENSG00000152492|ENST00000392455|CCDC50 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.7779541015625 2 554.776416 1107.53828 NaN NaN NaN NaN NaN NaN NaN 54.31 1 54.976 54.476 55.476 0.6665 0 0 0 0.024004 1 24842 24842 66.457 22.05 1 5669 3750 3744 3756 6267 6267 68 -0.011188047797986655 EVDDMDEEL 9 Unmodified _EVDDMDEEL_ 0 0 0 REV__ENSG00000134748|ENST00000257181|PRPF38A REV__ENSG00000134748|ENST00000257181|PRPF38A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.7117309570312 2 547.713344 1093.41214 NaN NaN NaN NaN NaN NaN NaN 56.517 1 56.517 56.017 57.017 0 0 0 0 0.90511 1 26008 26008 2.3027 0.4585 1 + 5670 11979 3745 3757 6268 6268 -0.13083400866389638 EVDHGDFEM 9 Unmodified _EVDHGDFEM_ 0 0 0 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;UBR4|p.Q4684Hfs*5|1|0.26|ENSG00000127481|chr1:19093351-19093372|TGCATTCTGGGTGATCCCCTTC/-|frameshift_variant nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.7130737304688 2 539.710939 1077.40732 NaN NaN NaN NaN NaN NaN NaN 38.716 1 38.98 38.48 39.48 0.26408 0 0 0 0.26328 1 17621 17621 28.487 6.7402 1 5671 2481 3746 3758 6269 6269 -0.12828240218505016 EVDLRRQLERR 11 Unmodified _EVDLRRQLERR_ 0 0 0 REV__nc|ENSG00000167641|Q96A00-2|PPP1R14A REV__nc|ENSG00000167641|Q96A00-2|PPP1R14A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 735.3753662109375 2 735.418405 1468.82226 NaN NaN NaN NaN NaN NaN NaN 98.139 1 98.206 97.706 98.706 0.066025 0 0 0 1.0061 1 52676 52676 2.7352 1.0826 1 + 5672 13297 3747 3759 6270 6270 0.10659917309044431 EVDPGSAEL 9 Unmodified _EVDPGSAEL_ 0 0 0 ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 916.4305419921875 1 916.425818 915.418542 3.8145 0.0034957 0.39968 0.00036628 4.2142 0.003862 916.4261354170665 40.375 0.31328 40.375 40.199 40.512 0 17 10 3 0 0 0 0.0012997 1 18316 18316 120.45 56.214 1 1402800 5673 4706 3748 3760 6271 6271 -0.04255094852703678 EVDPGSAEL 9 Unmodified _EVDPGSAEL_ 0 0 0 ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 458.7174377441406 2 458.716547 915.418542 2.8167 0.0012921 0.25807 0.00011838 3.0747 0.0014104 458.7165064355059 40.382 0.26809 40.382 40.225 40.493 0 13 8 2 0 0 0 0.047285 1 18335 18335 48.346 6.2513 1 947140 5674 4706 3748 3760 6272 6272 -0.04255094852703678 EVDPGSAEL 9 Unmodified _EVDPGSAEL_ 0 0 0 ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 916.4290771484375 1 916.425818 915.418542 3.5945 0.0032941 0.44645 0.00040914 4.0409 0.0037032 916.4259071874812 39.608 0.33303 40.408 40.216 40.549 0.80014 35 17 3 0 0 0 0.0014044 3 17930 17879;17930;17976 112.59 45.249 1 1031500 5675 4706 3748 3760 6273;6274;6275 6274 -0.04255094852703678 EVDPGSAEL 9 Unmodified _EVDPGSAEL_ 0 0 0 ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 916.4295043945312 1 916.425818 915.418542 3.9724 0.0036404 0.13959 0.00012792 4.1119 0.0037683 916.4255294827449 40.116 0.22067 40.383 40.295 40.515 0.26696 15 9 2 0 0 0 0.0044949 1 18254 18254 92.822 35.351 1 1020300 5676 4706 3748 3760 6276 6276 -0.04255094852703678 EVDPGSAEL 9 Unmodified _EVDPGSAEL_ 0 0 0 ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 916.4277954101562 1 916.425818 915.418542 4.0763 0.0037356 0.83687 0.00076693 4.9132 0.0045025 916.4256553675042 39.683 0.28843 40.322 40.198 40.486 0.63879 23 13 3 0 0 0 0.0012997 1 18145 18145 120.45 56.214 1 1220800 5677 4706 3748 3760 6277 6277 -0.04255094852703678 EVDPGSAEL 9 Unmodified _EVDPGSAEL_ 0 0 0 ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 458.716547 915.418542 2.7643 0.001268 0.63783 0.00029258 3.4021 0.0015606 458.7166528359847 39.603 0.37334 40.403 40.198 40.571 0.80014 0.017657 -8.6473E-06 NaN 48.346 30 19 2 NaN NaN NaN NaN 0 NaN NaN 0 604080 5678 4706 3748 3760 -0.04255094852703678 EVDSRDWAL 9 Unmodified _EVDSRDWAL_ 0 0 0 ENSG00000145391|ENST00000274031|SETD7 ENSG00000145391|ENST00000274031|SETD7 ENSG00000145391|ENST00000274031|SETD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.7642211914062 2 545.76182 1089.50909 3.5393 0.0019316 0.084023 4.5856E-05 3.6233 0.0019775 545.7619651741402 52.475 0.27422 52.475 52.32 52.594 0 47 24 3 0 0 0 0.021401 1 23993 23993 66.457 30.412 1 2117400 5679 3465 3749 3761 6278 6278 -0.03208625804450094 EVDSRDWAL 9 Unmodified _EVDSRDWAL_ 0 0 0 ENSG00000145391|ENST00000274031|SETD7 ENSG00000145391|ENST00000274031|SETD7 ENSG00000145391|ENST00000274031|SETD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.7631225585938 2 545.76182 1089.50909 2.6417 0.0014417 0.48456 0.00026446 3.1262 0.0017062 545.7620627607414 51.389 0.28566 52.206 52.099 52.384 0.81738 50 20 3 0 0 0 0.018453 2 23419 23377;23419 70.332 70.332 1 2449200 5680 3465 3749 3761 6279;6280 6280 -0.03208625804450094 EVDSRDWAL 9 Unmodified _EVDSRDWAL_ 0 0 0 ENSG00000145391|ENST00000274031|SETD7 ENSG00000145391|ENST00000274031|SETD7 ENSG00000145391|ENST00000274031|SETD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.7642822265625 2 545.76182 1089.50909 3.5338 0.0019286 0.40777 0.00022255 3.9415 0.0021511 545.7620642069902 52.397 0.29746 52.66 52.502 52.8 0.26345 24 14 2 0 0 0 0.018453 1 23958 23958 70.332 39.695 1 2276200 5681 3465 3749 3761 6281 6281 -0.03208625804450094 EVDSRDWAL 9 Unmodified _EVDSRDWAL_ 0 0 0 ENSG00000145391|ENST00000274031|SETD7 ENSG00000145391|ENST00000274031|SETD7 ENSG00000145391|ENST00000274031|SETD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.7640380859375 2 545.76182 1089.50909 3.3492 0.0018279 0.36088 0.00019696 3.7101 0.0020248 545.7620798539059 51.86 0.32307 52.522 52.408 52.731 0.66198 48 18 3 0 0 0 0.021401 3 23723 23669;23723;23776 66.457 24.362 1 1408700 5682 3465 3749 3761 6282;6283;6284 6283 -0.03208625804450094 EVEDEQNVWLR 11 Unmodified _EVEDEQNVWLR_ 0 0 0 REV__nc|ENSG00000131089|O43307|ARHGEF9 REV__nc|ENSG00000131089|O43307|ARHGEF9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.89825439453125 3 472.896646 1415.66811 NaN NaN NaN NaN NaN NaN NaN 64.876 1 65.585 65.085 66.085 0.70891 0 0 0 1.0059 1 30585 30585 2.6312 0.19645 1 + 5683 11844 3750 3762 6285 6285 -0.02309956966973914 EVEDMEYFYRH 11 Unmodified _EVEDMEYFYRH_ 0 0 0 REV__ENST00000444273.6_1_6:56954967-57015704:+|nuORF REV__ENST00000444273.6_1_6:56954967-57015704:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 759.320068359375 2 759.321916 1516.62928 NaN NaN NaN NaN NaN NaN NaN 87.128 1 87.803 87.303 88.303 0.67555 0 0 0 1.0057 1 40133 40133 3.2813 0.28607 1 + 5684 11263 3751 3763 6286 6286 -0.10837005592975402 EVEEETNL 8 Unmodified _EVEEETNL_ 0 0 0 REV__ENSG00000055609|ENST00000262189|KMT2C REV__ENSG00000055609|ENST00000262189|KMT2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.7220153808594 2 481.719287 961.424021 2.7953 0.0013466 -2.7452 -0.0013224 0.050137 2.4152E-05 481.71804126734406 76.205 0.2768 76.868 76.725 77.002 0.66387 26 17 2 0 0 0 0.61796 1 35134 35134 12.532 3.1841 1 388810 + 5685 10372 3752 3764 6287 6287 -0.05823416060911768 EVEFTVVP 8 Unmodified _EVEFTVVP_ 0 0 0 CSDE1|p.T589*|1|0.05|ENSG00000009307|chr1:114723990-114723991|GT/-|frameshift_variant;nc|ENSG00000009307|O75534-2|CSDE1;ENSG00000009307|ENST00000358528|CSDE1;nc|ENSG00000009307|O75534-3|CSDE1;nc|ENSG00000009307|O75534-4|CSDE1 CSDE1|p.T589*|1|0.05|ENSG00000009307|chr1:114723990-114723991|GT/-|frameshift_variant CSDE1|p.T589*|1|0.05|ENSG00000009307|chr1:114723990-114723991|GT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 307.1748046875 3 307.163893 918.469849 NaN NaN NaN NaN NaN NaN NaN 65.545 1 66.201 65.701 66.701 0.65672 0 0 0 0.99035 1 30049 30049 3.9444 0 1 5686 247 3753 3765 6288 6288 0.007352739120165097 EVEHDLKLII 10 Unmodified _EVEHDLKLII_ 0 0 0 REV__ENSG00000134516|ENST00000520908|DOCK2 REV__ENSG00000134516|ENST00000520908|DOCK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.6560668945312 2 604.847896 1207.68124 NaN NaN NaN NaN NaN NaN NaN 77.431 1 77.431 76.931 77.931 0 0 0 0 0.99225 1 37977 37977 6.7232 0.99131 1 + 5687 11966 3754 3766 6289 6289 0.08570525883101254 EVERQPVT 8 Unmodified _EVERQPVT_ 0 0 0 REV__ENST00000484442.5_1_X:110341851-110341947:+|nuORF REV__ENST00000484442.5_1_X:110341851-110341947:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.2549133300781 2 479.253631 956.49271 3.2372 0.0015514 -0.16595 -7.9533E-05 3.0713 0.0014719 479.2535438963608 36.336 0.37609 36.962 36.762 37.138 0.62631 20 11 2 0 0 0 0.36624 1 16620 16620 30.637 0 1 629330 + 5688 16734 3755 3767 6290 6290 0.012722930294785328 EVERQPVT 8 Unmodified _EVERQPVT_ 0 0 0 REV__ENST00000484442.5_1_X:110341851-110341947:+|nuORF REV__ENST00000484442.5_1_X:110341851-110341947:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.97625732421875 2 479.253631 956.49271 3.2372 0.0015514 -0.16595 -7.9533E-05 3.0713 0.0014719 479.2535438963608 36.336 0.37609 36.962 36.762 37.138 0.62631 20 11 2 0 0 0 0.081688 1 16588 16588 37.974 0 1 629330 + 5689 16734 3755 3767 6291 6291 0.012722930294785328 EVFEHEYYK 9 Unmodified _EVFEHEYYK_ 0 0 0 REV__ENSG00000166377|ENST00000426216|ATP9B REV__ENSG00000166377|ENST00000426216|ATP9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 622.3547973632812 2 622.285128 1242.5557 NaN NaN NaN NaN NaN NaN NaN 101.37 1 101.43 100.93 101.93 0.057198 0 0 0 0.90611 1 55046 55046 2.0598 0 1 + 5690 13231 3756 3768 6292 6292 -0.05587185973149644 EVFLPGQKPL 10 Unmodified _EVFLPGQKPL_ 0 0 0 REV__nc|ENSG00000214413|A8MTZ0-2|BBIP1 REV__nc|ENSG00000214413|A8MTZ0-2|BBIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.5774230957031 3 376.553492 1126.63865 2.1396 0.00080567 0.31264 0.00011773 2.4522 0.00092339 376.55371701642986 13.214 0.18835 13.457 13.361 13.549 0.24346 21 13 2 0 0 0 0.89464 1 5796 5796 1.9064 0 1 206600 + 5691 14509 3757 3769 6293 6293 0.08039175545536636 EVHGASAAEM 10 Unmodified _EVHGASAAEM_ 0 0 0 REV__ENSG00000131503|ENST00000360839|ANKHD1 REV__ENSG00000131503|ENST00000360839|ANKHD1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.7862854003906 2 501.221474 1000.42839 3.2891 0.0016485 0.74387 0.00037284 4.0329 0.0020214 501.2220151368787 15.667 0.50799 16.32 16.096 16.604 0.65356 84 65 2 0 0 0 0.12676 1 7176 7176 10.824 2.9138 1 47992 + 5692 11860 3758 3770 6294 6294 -0.07180230118979125 EVHGMVTVEI 10 Unmodified _EVHGMVTVEI_ 0 0 0 REV__CON__P01030 REV__CON__P01030 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.2835693359375 2 557.284074 1112.5536 3.7201 0.0020732 3.2373 0.0018041 6.9575 0.0038773 557.2821972794122 50.936 0.28066 50.936 50.767 51.048 0 25 12 3 0 0 0 0.14785 1 23321 23321 46.021 1.6139 1 1039500 + + 5693 10073 3759 3771 6295 6295 0.0018206201741577388 EVHGPDWHL 9 Unmodified _EVHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.2606811523438 2 545.259248 1088.50394 3.5588 0.0019405 0.085997 4.689E-05 3.6448 0.0019874 545.7609136406004 43.914 0.18071 43.914 43.767 43.948 0 18 11 2 0 0 0 0.0024283 1 20016 20016 125.62 103.88 1 4184000 5694 2385 3760 3772 6296 6296 -0.03676884876381337 EVHGPDWHL 9 Unmodified _EVHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 363.8429870605469 3 363.841924 1088.50394 2.2906 0.00083342 0.045725 1.6637E-05 2.3363 0.00085005 363.84196444192975 42.803 0.21265 43.617 43.523 43.735 0.81444 32 19 2 0 0 0 0.75535 1 19494 19494 8.1555 3.6267 1 3778000 5695 2385 3760 3772 6297 6297 -0.03676884876381337 EVHGPDWHL 9 Unmodified _EVHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.8432312011719 3 363.841924 1088.50394 2.4992 0.00090931 0.43833 0.00015948 2.9375 0.0010688 363.8419452260914 43.777 0.24709 44.046 43.82 44.067 0.26939 19 11 2 0 0 0 0.22824 1 19979 19979 21.537 14.248 1 3420300 5696 2385 3760 3772 6298 6298 -0.03676884876381337 EVHGPDWHL 9 Unmodified _EVHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.2614135742188 2 545.259248 1088.50394 NaN NaN NaN NaN NaN NaN NaN 43.677 1 43.947 43.447 44.447 0.2694 0 0 0 6.3078E-07 1 19949 19949 139.54 87.276 1 5697 2385 3760 3772 6299 6299 -0.03676884876381337 EVHGPDWHL 9 Unmodified _EVHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.84295654296875 3 363.841924 1088.50394 2.7079 0.00098526 0.29264 0.00010648 3.0006 0.0010917 363.84202044064716 43.145 0.38033 43.794 43.641 44.022 0.64872 36 20 2 0 0 0 0.5141 2 19759 19759;19825 12.241 8.0512 1 1558500 5698 2385 3760 3772 6300;6301 6300 -0.03676884876381337 EVHGPDWHL 9 Unmodified _EVHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.260986328125 2 545.259248 1088.50394 3.6545 0.0019926 0.17945 9.7846E-05 3.8339 0.0020905 545.2593833508998 43.194 0.30717 43.842 43.68 43.987 0.64872 28 17 2 0 0 0 0.001731 2 19780 19780;19841 120.45 120.45 1 1554700 5699 2385 3760 3772 6302;6303 6302 -0.03676884876381337 EVHGPDWHL 9 Unmodified _EVHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 363.841924 1088.50394 2.6252 0.00095516 -0.41646 -0.00015152 2.2087 0.00080363 363.8418144859309 43.914 0.17138 43.914 43.776 43.948 0 0.071148 -0.00050316 NaN 21.537 24 10 3 NaN NaN NaN NaN 0 NaN NaN 0 3644800 5700 2385 3760 3772 -0.03676884876381337 EVHKRRGRRRR 11 Unmodified _EVHKRRGRRRR_ 0 0 0 REV__ENSG00000124177|ENST00000373233|CHD6 REV__ENSG00000124177|ENST00000373233|CHD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 753.458984375 2 753.459065 1504.90358 NaN NaN NaN NaN NaN NaN NaN 76.99 1 76.99 76.49 77.49 0 0 0 0 1.0073 1 37740 37740 1.1933 0 1 + 5701 11638 3761 3773 6304 6304 0.17132082582338626 EVILHLPE 8 Unmodified _EVILHLPE_ 0 0 0 REV__ENSG00000086967|ENST00000357701|MYBPC2 REV__ENSG00000086967|ENST00000357701|MYBPC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.2734375 2 475.271293 948.528032 3.0619 0.0014552 0.16607 7.893E-05 3.228 0.0015342 475.271419901373 67.049 0.2728 67.707 67.6 67.873 0.65777 26 15 2 0 0 0 0.29255 2 30732 30732;30785 36.044 0 1 769800 + 5702 10658 3762 3774 6305;6306 6305 0.05170955557287016 EVIMLYLTL 9 Unmodified _EVIMLYLTL_ 0 0 0 ENSG00000232040|ENST00000452236|SCAND3 ENSG00000232040|ENST00000452236|SCAND3 ENSG00000232040|ENST00000452236|SCAND3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.5438232421875 3 365.543716 1093.60932 2.605 0.00095225 -0.99328 -0.00036309 1.6117 0.00058916 365.54354735309704 17.018 0.56043 17.679 17.263 17.824 0.66072 105 47 3 0 0 0 0.46674 2 7693 7649;7693 13.042 13.042 1 190320 5703 6186 3763 3775 6307;6308 6308 0.06625895205002053 EVIMYTGT 8 Unmodified _EVIMYTGT_ 0 0 0 ENST00000390294.2_1_22:22712381-22712603:+|nuORF ENST00000390294.2_1_22:22712381-22712603:+|nuORF ENST00000390294.2_1_22:22712381-22712603:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 457.2222900390625 2 457.220411 912.426269 2.2517 0.0010295 0.9492 0.00043399 3.2009 0.0014635 457.2209870261882 80.857 0.20853 80.857 80.793 81.002 0 22 13 2 0 0 0 0.52777 1 40234 40234 24.674 10.092 1 2055500 5704 7503 3764 3776 6309 6309 -0.033446588567812796 EVIMYTGT 8 Unmodified _EVIMYTGT_ 0 0 0 ENST00000390294.2_1_22:22712381-22712603:+|nuORF ENST00000390294.2_1_22:22712381-22712603:+|nuORF ENST00000390294.2_1_22:22712381-22712603:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.2218933105469 2 457.220411 912.426269 2.5438 0.0011631 0.10806 4.9409E-05 2.6519 0.0012125 457.2205617117485 80.658 0.57951 80.907 80.671 81.251 0.24947 83 34 3 0 0 0 0.58952 2 37089 37089;37186 19.439 19.439 1 1269600 5705 7503 3764 3776 6310;6311 6310 -0.033446588567812796 EVIMYTGT 8 Unmodified _EVIMYTGT_ 0 0 0 ENST00000390294.2_1_22:22712381-22712603:+|nuORF ENST00000390294.2_1_22:22712381-22712603:+|nuORF ENST00000390294.2_1_22:22712381-22712603:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.2218933105469 2 457.220411 912.426269 3.006 0.0013744 -0.003098 -1.4165E-06 3.0029 0.001373 457.2204522842665 80.098 0.58481 80.758 80.541 81.126 0.65998 83 38 3 0 0 0 0.45971 3 36916 36860;36916;36964 30.225 8.2772 1 1070400 5706 7503 3764 3776 6312;6313;6314 6313 -0.033446588567812796 EVIMYTGT 8 Unmodified _EVIMYTGT_ 0 0 0 ENST00000390294.2_1_22:22712381-22712603:+|nuORF ENST00000390294.2_1_22:22712381-22712603:+|nuORF ENST00000390294.2_1_22:22712381-22712603:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 457.220411 912.426269 2.0957 0.00095818 -0.091913 -4.2024E-05 2.0037 0.00091615 457.2204608882748 80.338 0.15346 80.658 80.64 80.794 0.31998 -0.13679 -0.00023614 NaN 30.225 12 12 2 NaN NaN NaN NaN 0 NaN NaN 0 1057700 5707 7503 3764 3776 -0.033446588567812796 EVISKLYAV 9 Unmodified _EVISKLYAV_ 0 0 0 nc|ENSG00000156261|P50990-3|CCT8;nc|ENSG00000156261|P50990-2|CCT8;ENSG00000156261|ENST00000286788|CCT8 nc|ENSG00000156261|P50990-3|CCT8 nc|ENSG00000156261|P50990-3|CCT8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 511.3014221191406 2 511.30005 1020.58555 3.2558 0.0016647 -0.25633 -0.00013106 2.9995 0.0015336 511.29988754886443 51.868 0.2309 52.13 52.02 52.251 0.26227 30 22 2 0 0 0 0.16976 1 23727 23727 25.399 4.9457 1 1144200 5708 3903 3765 3777 6315 6315 0.07607797762841528 EVISKLYAV 9 Unmodified _EVISKLYAV_ 0 0 0 nc|ENSG00000156261|P50990-3|CCT8;nc|ENSG00000156261|P50990-2|CCT8;ENSG00000156261|ENST00000286788|CCT8 nc|ENSG00000156261|P50990-3|CCT8 nc|ENSG00000156261|P50990-3|CCT8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 511.8031311035156 2 511.30005 1020.58555 3.1831 0.0016275 0.090412 4.6227E-05 3.2735 0.0016738 511.30007683648915 51.26 0.20794 51.919 51.831 52.039 0.65956 29 17 2 0 0 0 0.16976 1 23444 23444 25.399 7.253 1 997080 5709 3903 3765 3777 6316 6316 0.07607797762841528 EVITRQKQL 9 Unmodified _EVITRQKQL_ 0 0 0 nc|ENSG00000138161|Q86UP6-2|CUZD1;ENSG00000138161|ENST00000392790|CUZD1 nc|ENSG00000138161|Q86UP6-2|CUZD1 nc|ENSG00000138161|Q86UP6-2|CUZD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.8334350585938 2 557.83258 1113.65061 3.471 0.0019362 0.080467 4.4887E-05 3.5515 0.0019811 557.8325437784814 28.308 0.33984 28.927 28.777 29.117 0.61947 61 23 3 0 0 0 0.091193 1 13038 13038 34.932 0 1 1236400 5710 3078 3766 3778 6317 6317 0.09832792288693781 EVIYGRKVL 9 Unmodified _EVIYGRKVL_ 0 0 0 ENST00000564436.5_1_16:732796-733478:-|nuORF ENST00000564436.5_1_16:732796-733478:-|nuORF ENST00000564436.5_1_16:732796-733478:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.8294067382812 2 538.826766 1075.63898 3.1371 0.0016903 -0.71098 -0.0003831 2.4261 0.0013072 538.8266252721265 41.788 0.22022 41.788 41.622 41.842 0 39 23 2 0 0 0 0.038142 1 19003 19003 52.268 0.63854 1 2006000 5711 9029 3767 3779 6318 6318 0.10418595265377917 EVKEDPLRE 9 Unmodified _EVKEDPLRE_ 0 0 0 REV__nc|ENSG00000078674|Q15154-3|PCM1 REV__nc|ENSG00000078674|Q15154-3|PCM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.7947998046875 2 557.790578 1113.5666 3.4092 0.0019016 1.8209 0.0010157 5.2302 0.0029173 557.7903095054769 49.997 0.27108 50.82 50.658 50.929 0.82285 21 10 3 0 0 0 0.093314 1 22765 22765 34.402 1.616 1 860700 + 5712 10574 3768 3780 6319 6319 0.014362164011345158 EVKLKVDSF 9 Unmodified _EVKLKVDSF_ 0 0 0 ENSG00000131467|ENST00000590720|PSME3;nc|ENSG00000131467|P61289-2|PSME3 ENSG00000131467|ENST00000590720|PSME3 ENSG00000131467|ENST00000590720|PSME3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 532.8048095703125 2 532.802957 1063.59136 3.345 0.0017822 1.0981 0.00058507 4.4431 0.0023673 532.803517749299 41.519 0.1742 41.79 41.716 41.89 0.27021 14 9 2 0 0 0 0.0090098 1 18938 18938 83.429 41.589 1 703880 5713 2660 3769 3781 6320 6320 0.062108962745242025 EVKPFLTAL 9 Unmodified _EVKPFLTAL_ 0 0 0 ENSG00000221968|ENST00000278829|FADS3;ENST00000533676.5_1_11:61641288-61643947:-|nuORF ENSG00000221968|ENST00000278829|FADS3 ENSG00000221968|ENST00000278829|FADS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.3047180175781 2 509.302593 1016.59063 3.3152 0.0016884 0.69278 0.00035284 4.008 0.0020413 509.3030029934808 67.2 0.19815 67.858 67.737 67.936 0.65777 16 10 2 0 0 0 0.16976 1 30797 30797 25.399 0.72543 1 234930 5714 6155 3770 3782 6321 6321 0.08300101625445677 EVKPFLTAL 9 Unmodified _EVKPFLTAL_ 0 0 0 ENSG00000221968|ENST00000278829|FADS3;ENST00000533676.5_1_11:61641288-61643947:-|nuORF ENSG00000221968|ENST00000278829|FADS3 ENSG00000221968|ENST00000278829|FADS3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 509.302593 1016.59063 3.5553 0.0018107 0.16189 8.245E-05 3.7172 0.0018932 509.30264615554864 67.818 0.20866 68.07 67.927 68.136 0.25227 0.10614 -0.00025935 NaN 25.399 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 306670 5715 6155 3770 3782 0.08300101625445677 EVKRLFRP 8 Unmodified _EVKRLFRP_ 0 0 0 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.820068359375 2 522.819276 1043.624 NaN NaN NaN NaN NaN NaN NaN 46.1 1 46.751 46.251 47.251 0.65104 0 0 0 0.95658 1 21117 21117 8.5933 2.3875 1 5716 2211 3771 3783 6322 6322 0.10393148188040868 EVKRRYML 8 Unmodified _EVKRRYML_ 0 0 0 ENSG00000198743|ENST00000381151|SLC5A3 ENSG00000198743|ENST00000381151|SLC5A3 ENSG00000198743|ENST00000381151|SLC5A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.5440368652344 3 365.542821 1093.60663 2.443 0.000893 0.4202 0.0001536 2.8632 0.0010466 365.54319547978554 17.136 0.56422 17.44 17.061 17.625 0.30438 86 44 3 0 0 0 0.5438 2 7784 7739;7784 18.135 4.2289 1 164330 5717 5926 3772 3784 6323;6324 6324 0.0635748459073966 EVKTLRQKLK 10 Unmodified _EVKTLRQKLK_ 0 0 0 REV__ENSG00000198515|ENST00000514170|CNGA1 REV__ENSG00000198515|ENST00000514170|CNGA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.8984375 2 621.898254 1241.78196 NaN NaN NaN NaN NaN NaN NaN 74.861 1 75.524 75.024 76.024 0.6635 0 0 0 1.0003 1 36199 36199 1.4819 0 1 + 5718 14339 3773 3785 6325 6325 0.17073602656591902 EVLKERKVL 9 Unmodified _EVLKERKVL_ 0 0 0 ENSG00000038219|ENST00000040738|BOD1L1 ENSG00000038219|ENST00000040738|BOD1L1 ENSG00000038219|ENST00000040738|BOD1L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.35546875 2 557.353148 1112.69174 3.5736 0.0019918 0.29128 0.00016235 3.8649 0.0021541 557.3533555587625 20.213 0.25246 20.213 20.09 20.343 0 57 23 3 0 0 0 0.26118 1 9068 9068 20.454 0 1 586290 5719 519 3774 3786 6326 6326 0.13990553328176247 EVLKKVKTL 9 Unmodified _EVLKKVKTL_ 0 0 0 nc|ENSG00000115685|Q15435-5|PPP1R7;nc|ENSG00000115685|Q15435-4|PPP1R7;nc|ENSG00000115685|Q15435-3|PPP1R7;nc|ENSG00000115685|Q15435-2|PPP1R7;ENSG00000115685|ENST00000234038|PPP1R7 nc|ENSG00000115685|Q15435-5|PPP1R7 nc|ENSG00000115685|Q15435-5|PPP1R7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.3551025390625 2 529.352617 1056.69068 3.3308 0.0017632 0.73736 0.00039032 4.0682 0.0021535 529.3529342310335 15.367 0.71823 16.021 15.785 16.503 0.65356 145 94 2 0 0 0 0.98132 3 6971 6889;6931;6971 4.3292 2.2695 1 94181 5720 1984 3775 3787 6327;6328;6329 6329 0.16460338959268483 EVLLTIYFP 9 Unmodified _EVLLTIYFP_ 0 0 0 REV__ENSG00000164794|ENST00000524391|KCNV1 REV__ENSG00000164794|ENST00000524391|KCNV1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.543701171875 3 365.542593 1093.60595 2.443 0.000893 1.0453 0.00038209 3.4882 0.0012751 365.54319547978554 17.136 0.56422 17.44 17.061 17.625 0.30438 86 44 3 0 0 0 0.89849 1 7689 7689 5.7319 0.43497 1 164330 + 5721 13113 3776 3788 6330 6330 0.06288968422654762 EVLNKHSL 8 Unmodified _EVLNKHSL_ 0 0 0 ENSG00000099783|ENST00000325495|HNRNPM;ENST00000597813.5_1_19:8528492-8528615:+|nuORF;nc|ENSG00000099783|P52272-2|HNRNPM ENSG00000099783|ENST00000325495|HNRNPM ENSG00000099783|ENST00000325495|HNRNPM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.2679138183594 2 470.266542 938.51853 2.9101 0.0013685 0.28255 0.00013287 3.1927 0.0015014 470.26649846933435 18.54 0.23096 18.54 18.401 18.632 0 20 12 2 0 0 0 0.029809 1 8226 8226 78.149 3.7266 1 368520 5722 1148 3777 3789 6331 6331 0.0468118727176261 EVLNKHSL 8 Unmodified _EVLNKHSL_ 0 0 0 ENSG00000099783|ENST00000325495|HNRNPM;ENST00000597813.5_1_19:8528492-8528615:+|nuORF;nc|ENSG00000099783|P52272-2|HNRNPM ENSG00000099783|ENST00000325495|HNRNPM ENSG00000099783|ENST00000325495|HNRNPM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 313.8478088378906 3 313.846787 938.51853 2.0681 0.00064908 -0.27254 -8.5537E-05 1.7956 0.00056354 313.84666079736013 17.896 0.095608 18.096 18.015 18.111 0.20057 10 6 2 0 0 0 0.29255 1 7918 7918 29.082 3.6823 1 1430800 5723 1148 3777 3789 6332 6332 0.0468118727176261 EVLNKHSL 8 Unmodified _EVLNKHSL_ 0 0 0 ENSG00000099783|ENST00000325495|HNRNPM;ENST00000597813.5_1_19:8528492-8528615:+|nuORF;nc|ENSG00000099783|P52272-2|HNRNPM ENSG00000099783|ENST00000325495|HNRNPM ENSG00000099783|ENST00000325495|HNRNPM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.26788330078125 2 470.266542 938.51853 2.6653 0.0012534 0.78311 0.00036827 3.4484 0.0016217 470.26691375705263 16.731 0.8725 17.035 16.587 17.459 0.30438 129 82 3 0 0 0 0.17174 1 7619 7619 46.021 3.9264 1 216880 5724 1148 3777 3789 6333 6333 0.0468118727176261 EVLNKHSL 8 Unmodified _EVLNKHSL_ 0 0 0 ENSG00000099783|ENST00000325495|HNRNPM;ENST00000597813.5_1_19:8528492-8528615:+|nuORF;nc|ENSG00000099783|P52272-2|HNRNPM ENSG00000099783|ENST00000325495|HNRNPM ENSG00000099783|ENST00000325495|HNRNPM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.268798828125 2 470.266542 938.51853 2.9621 0.001393 0.73654 0.00034637 3.6987 0.0017394 470.2669122676977 16.783 0.90907 17.444 16.914 17.824 0.66072 182 84 3 0 0 0 0.042878 3 7582 7538;7582;7630 68.081 3.9053 1 451120 5725 1148 3777 3789 6334;6335;6336 6335 0.0468118727176261 EVLNKHSL 8 Unmodified _EVLNKHSL_ 0 0 0 ENSG00000099783|ENST00000325495|HNRNPM;ENST00000597813.5_1_19:8528492-8528615:+|nuORF;nc|ENSG00000099783|P52272-2|HNRNPM ENSG00000099783|ENST00000325495|HNRNPM ENSG00000099783|ENST00000325495|HNRNPM MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 470.266542 938.51853 2.9736 0.0013984 1.3723 0.00064537 4.3459 0.0020437 470.2670918960817 16.234 0.066875 16.892 16.841 16.907 0.65798 -0.071536 0.0004478 NaN 46.021 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 20005 5726 1148 3777 3789 0.0468118727176261 EVLPSDPLM 9 Unmodified _EVLPSDPLM_ 0 0 0 REV__nc|ENSG00000116991|Q9P2F8-2|SIPA1L2 REV__nc|ENSG00000116991|Q9P2F8-2|SIPA1L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.75677490234375 2 500.754618 999.494683 3.3665 0.0016858 -0.61221 -0.00030656 2.7543 0.0013792 500.75464448631874 83.501 0.39986 84.163 83.98 84.38 0.66219 63 26 3 0 0 0 0.16976 1 38455 38455 25.399 2.2509 1 1441400 + 5727 11427 3778 3790 6337 6337 -0.0050841427693057994 EVLQKPFI 8 Unmodified _EVLQKPFI_ 0 0 0 ENST00000479939.1_1_7:30062251-30066124:-|nuORF;ENSG00000106080|ENST00000222803|FKBP14 ENST00000479939.1_1_7:30062251-30066124:-|nuORF ENST00000479939.1_1_7:30062251-30066124:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.7899475097656 2 487.289485 972.564418 3.1572 0.0015385 -0.73668 -0.00035898 2.4206 0.0011795 487.28916839996384 60.114 0.62984 60.37 60.041 60.671 0.25578 70 30 3 0 0 0 0.65723 1 27633 27633 9.3474 0.75416 1 2335600 5728 1552 3779 3791 6338 6338 0.07703832454001258 EVLQRGEAL 9 Unmodified _EVLQRGEAL_ 0 0 0 ENSG00000265808|ENST00000578049|SEC22B ENSG00000265808|ENST00000578049|SEC22B ENSG00000265808|ENST00000578049|SEC22B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.784912109375 2 507.782556 1013.55056 3.2657 0.0016583 0.71928 0.00036524 3.985 0.0020235 507.78296181015696 31.375 0.20206 31.375 31.302 31.504 0 26 16 2 0 0 0 0.02812 1 14195 14195 57.722 17.772 1 474160 5729 6320 3780 3792 6339 6339 0.04432554954905754 EVLQRGEAL 9 Unmodified _EVLQRGEAL_ 0 0 0 ENSG00000265808|ENST00000578049|SEC22B ENSG00000265808|ENST00000578049|SEC22B ENSG00000265808|ENST00000578049|SEC22B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.7844543457031 2 507.782556 1013.55056 3.2302 0.0016402 0.27712 0.00014071 3.5073 0.001781 507.78263849755075 30.556 0.27722 31.345 31.188 31.466 0.78921 36 21 2 0 0 0 0.024388 1 13796 13796 62.573 16.552 1 319190 5730 6320 3780 3792 6340 6340 0.04432554954905754 EVLQRGEAL 9 Unmodified _EVLQRGEAL_ 0 0 0 ENSG00000265808|ENST00000578049|SEC22B ENSG00000265808|ENST00000578049|SEC22B ENSG00000265808|ENST00000578049|SEC22B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.7845764160156 2 507.782556 1013.55056 3.8033 0.0019313 -0.0027292 -1.3858E-06 3.8006 0.0019299 507.7825422357437 31.261 0.38516 31.518 31.347 31.732 0.25614 78 27 4 0 0 0 0.00143 2 14260 14209;14260 110.67 38.184 1 2289200 5731 6320 3780 3792 6341;6342 6342 0.04432554954905754 EVLQRGEAL 9 Unmodified _EVLQRGEAL_ 0 0 0 ENSG00000265808|ENST00000578049|SEC22B ENSG00000265808|ENST00000578049|SEC22B ENSG00000265808|ENST00000578049|SEC22B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.7843017578125 2 507.782556 1013.55056 3.3064 0.0016789 0.27681 0.00014056 3.5832 0.0018195 507.78267249968263 30.805 0.3868 31.422 31.25 31.636 0.61737 64 22 4 0 0 0 0.00068611 2 14145 14095;14145 129.77 48.159 1 1914400 5732 6320 3780 3792 6343;6344 6344 0.04432554954905754 EVLRGNQDY 9 Unmodified _EVLRGNQDY_ 0 0 0 REV__THSD7A|p.I1441Pfs*15|1|0.06|ENSG00000005108|chr7:11401885-11401886|-/GGTGAGGATCTAGGCTTTGG|frameshift_variant REV__THSD7A|p.I1441Pfs*15|1|0.06|ENSG00000005108|chr7:11401885-11401886|-/GGTGAGGATCTAGGCTTTGG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.2691650390625 2 547.26727 1092.51999 3.6938 0.0020215 0.049942 2.7332E-05 3.7437 0.0020488 547.2673748348499 14.002 0.12326 14.002 13.935 14.059 0 14 6 3 0 0 0 0.10837 1 6166 6166 30.637 3.0077 1 2250100 + 5733 10174 3781 3793 6345 6345 -0.022572234301378558 EVLRKDSEL 9 Unmodified _EVLRKDSEL_ 0 0 0 REV__ENSG00000171206|ENST00000643721|TRIM8 REV__ENSG00000171206|ENST00000643721|TRIM8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.5375061035156 3 363.536389 1087.58734 2.6859 0.00097643 -0.0040425 -1.4696E-06 2.6819 0.00097496 363.5364289715524 36.271 0.49745 36.897 36.729 37.227 0.62631 62 16 5 0 0 0 0.069974 1 16701 16701 40.239 3.733 1 15262000 + 5734 13482 3782 3794 6346 6346 0.04704806780796389 EVLRMRGTIS 10 Unmodified _EVLRMRGTIS_ 0 0 0 ENST00000402237.1_1_6:114405343-114405799:-|nuORF;ENST00000437336.1_1_1:154350783-154351305:-|nuORF;ENST00000478027.2_1_3:39450050-39453856:+|nuORF;nc|ENSG00000288920|A0A8I5KQE6|RPSA2;ENSG00000168028|ENST00000301821|RPSA ENST00000402237.1_1_6:114405343-114405799:-|nuORF ENST00000402237.1_1_6:114405343-114405799:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.8860168457031 3 387.885135 1160.63358 2.9245 0.0011344 -0.38322 -0.00014865 2.5413 0.00098574 387.8850544668578 19.027 0.32803 19.685 19.501 19.829 0.65829 73 28 3 0 0 0 0.26801 1 8639 8639 21.799 0 1 2791800 5735 4595 3783 3795 6347 6347 0.05968548411260599 EVLRRHRTYRW 11 Unmodified _EVLRRHRTYRW_ 0 0 0 ENSG00000139180|ENST00000266544|NDUFA9 ENSG00000139180|ENST00000266544|NDUFA9 ENSG00000139180|ENST00000266544|NDUFA9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.4487915039062 3 524.627047 1570.85931 NaN NaN NaN NaN NaN NaN NaN 72.68 1 73.344 72.844 73.844 0.66398 0 0 0 1.0061 1 33352 33352 1.1098 0.70149 1 5736 3134 3784 3796 6348 6348 0.09671633645507427 EVMKRIQSL 9 Unmodified _EVMKRIQSL_ 0 0 0 ENST00000565455.5_1_16:8987857-9023250:-|nuORF;nc|ENSG00000187555|Q93009-3|USP7;ENSG00000187555|ENST00000344836|USP7 ENST00000565455.5_1_16:8987857-9023250:-|nuORF ENST00000565455.5_1_16:8987857-9023250:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.3172607421875 2 552.315709 1102.61686 3.8691 0.002137 -0.24327 -0.00013436 3.6258 0.0020026 552.315447998804 30.278 0.26674 30.536 30.41 30.677 0.25804 21 14 2 0 0 0 0.11155 1 13760 13760 29.841 4.4413 1 436520 5737 5622 3785 3797 6349 6349 0.06966047525315844 EVMKRIQSL 9 Unmodified _EVMKRIQSL_ 0 0 0 ENST00000565455.5_1_16:8987857-9023250:-|nuORF;nc|ENSG00000187555|Q93009-3|USP7;ENSG00000187555|ENST00000344836|USP7 ENST00000565455.5_1_16:8987857-9023250:-|nuORF ENST00000565455.5_1_16:8987857-9023250:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 552.315709 1102.61686 3.5495 0.0019604 -0.048954 -2.7038E-05 3.5005 0.0019334 552.8166273444929 30.041 0.046946 30.659 30.638 30.685 0.61737 0.061539 0.00017261 NaN 29.841 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 595500 5738 5622 3785 3797 0.06966047525315844 EVMLRKKHRL 10 Unmodified _EVMLRKKHRL_ 0 0 0 REV__nc|ENSG00000136153|Q8WWI1-5|LMO7 REV__nc|ENSG00000136153|Q8WWI1-5|LMO7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.2034606933594 4 328.202588 1308.78124 2.3465 0.00077013 1.4489 0.00047555 3.7955 0.0012457 328.20332790723836 55.028 0.32942 55.028 54.723 55.052 0 51 33 2 0 0 0 0.94099 1 25120 25120 0.69767 0.1345 1 1333100 + 5739 12065 3786 3798 6350 6350 0.13920484735899663 EVMRKVSKL 9 Unmodified _EVMRKVSKL_ 0 0 0 ENSG00000120800|ENST00000261637|UTP20 ENSG00000120800|ENST00000261637|UTP20 ENSG00000120800|ENST00000261637|UTP20 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.8668212890625 3 363.886476 1088.6376 2.0396 0.0007422 0.30498 0.00011098 2.3446 0.00085317 363.88647320325464 13.01 0.29768 13.317 13.187 13.485 0.30727 31 13 3 0 0 0 0.080874 1 5858 5858 17.443 4.57 1 566410 5740 2213 3787 3799 6351 6351 0.09682637904984404 EVMRKVSKL 9 Unmodified _EVMRKVSKL_ 0 0 0 ENSG00000120800|ENST00000261637|UTP20 ENSG00000120800|ENST00000261637|UTP20 ENSG00000120800|ENST00000261637|UTP20 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 363.886476 1088.6376 2.0575 0.00074869 -0.11902 -4.3309E-05 1.9385 0.00070538 363.88644603924615 13.094 0.17958 13.337 13.244 13.424 0.24346 -0.014338 -0.00022062 NaN 29.437 21 14 2 NaN NaN NaN NaN 0 NaN NaN 0 438620 5741 2213 3787 3799 0.09682637904984404 EVMRRKRAP 9 Unmodified _EVMRRKRAP_ 0 0 0 REV__ENSG00000149428|ENST00000617285|HYOU1 REV__ENSG00000149428|ENST00000617285|HYOU1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.8319091796875 2 571.832391 1141.65023 NaN NaN NaN NaN NaN NaN NaN 27.059 1 27.838 27.338 28.338 0.7787 0 0 0 0.90611 1 12161 12161 2.0598 0 1 + 5742 12567 3788 3800 6352 6352 0.08507094087872247 EVQLQQYRQQI 11 Unmodified _EVQLQQYRQQI_ 0 0 0 nc|ENSG00000139496|Q9BVL2-2|NUP58;ENST00000466694.5_1_13:25875911-25912925:+|nuORF;nc|ENSG00000139496|Q9BVL2-3|NUP58;ENSG00000139496|ENST00000381736|NUP58 nc|ENSG00000139496|Q9BVL2-2|NUP58 nc|ENSG00000139496|Q9BVL2-2|NUP58 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 717.0027465820312 2 716.88079 1431.74703 NaN NaN NaN NaN NaN NaN NaN 56.318 1 57.096 56.596 57.596 0.77786 0 0 0 1.0072 1 25745 25745 1.3295 0.13619 1 5743 3150 3789 3801 6353 6353 0.04842315057999258 EVRDREQRRLR 11 Unmodified _EVRDREQRRLR_ 0 0 0 REV__nc|ENSG00000137216|Q5T3F8-2|TMEM63B REV__nc|ENSG00000137216|Q5T3F8-2|TMEM63B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1513.1046142578125 1 1512.84658 1511.8393 3.2004 0.0048417 1.0648 0.0016109 4.2652 0.0064526 1513.8488545832922 23.475 0.10163 23.751 23.657 23.759 0.27562 36 18 3 0 0 0 0.13295 1 10571 10571 1.3295 1.0225 1 97213000 + 5744 12103 3790 3802 6354 6354 0.10385837914873264 EVRFRNLR 8 Unmodified _EVRFRNLR_ 0 0 0 REV__ENSG00000144015|ENST00000272395|TRIM43 REV__ENSG00000144015|ENST00000272395|TRIM43 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3191528320312 2 545.317432 1088.62031 3.5647 0.0019439 -0.89863 -0.00049004 2.6661 0.0014538 545.316860063632 84.788 0.81857 85.036 84.763 85.582 0.24757 91 48 3 0 0 0 0.7441 1 39033 39033 2.3027 0 1 769400 + 5745 12387 3791 3803 6355 6355 0.07954478414171717 EVRFVIIAF 9 Unmodified _EVRFVIIAF_ 0 0 0 REV__ENSG00000182858|ENST00000330817|ALG12 REV__ENSG00000182858|ENST00000330817|ALG12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.324951171875 2 547.32386 1092.63317 NaN NaN NaN NaN NaN NaN NaN 55.192 1 55.979 55.479 56.479 0.78711 0 0 0 0.82031 1 25194 25194 8.5933 3.8373 1 + 5746 13907 3792 3804 6356 6356 0.09055496753717307 EVRKKTLQL 9 Unmodified _EVRKKTLQL_ 0 0 0 ENSG00000129083|ENST00000439561|COPB1;ENST00000249923.7_1_11:14502548-14502617:-|nuORF ENSG00000129083|ENST00000439561|COPB1 ENSG00000129083|ENST00000439561|COPB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.852783203125 2 557.850773 1113.68699 3.3135 0.0018484 -0.10493 -5.8536E-05 3.2086 0.0017899 557.8508223591583 14.735 0.24644 14.961 14.831 15.078 0.22622 38 14 3 0 0 0 0.025529 3 6467 6457;6467;6509 61.09 30.287 1 972160 5747 2538 3793 3805 6357;6358;6359 6358 0.13469669185428756 EVRKKTLQL 9 Unmodified _EVRKKTLQL_ 0 0 0 ENSG00000129083|ENST00000439561|COPB1;ENST00000249923.7_1_11:14502548-14502617:-|nuORF ENSG00000129083|ENST00000439561|COPB1 ENSG00000129083|ENST00000439561|COPB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 372.2373352050781 3 372.236274 1113.68699 2.414 0.00089857 0.19611 7.2998E-05 2.6101 0.00097157 372.2363552789822 14.74 0.36328 14.966 14.795 15.158 0.22622 90 25 5 0 0 0 0.02812 2 6465 6465;6506 53.317 23.88 1 9745500 5748 2538 3793 3805 6360;6361 6360 0.13469669185428756 EVRKKTLQL 9 Unmodified _EVRKKTLQL_ 0 0 0 ENSG00000129083|ENST00000439561|COPB1;ENST00000249923.7_1_11:14502548-14502617:-|nuORF ENSG00000129083|ENST00000439561|COPB1 ENSG00000129083|ENST00000439561|COPB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 372.2369689941406 3 372.236274 1113.68699 2.481 0.0009235 -0.51021 -0.00018992 1.9707 0.00073358 372.2361191068994 14.33 0.19195 14.637 14.56 14.752 0.3069 26 8 4 0 0 0 0.02812 1 6468 6468 46.022 15.319 1 55617000 5749 2538 3793 3805 6362 6362 0.13469669185428756 EVRKKTLQL 9 Unmodified _EVRKKTLQL_ 0 0 0 ENSG00000129083|ENST00000439561|COPB1;ENST00000249923.7_1_11:14502548-14502617:-|nuORF ENSG00000129083|ENST00000439561|COPB1 ENSG00000129083|ENST00000439561|COPB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.851806640625 2 557.850773 1113.68699 3.3235 0.001854 -0.53321 -0.00029745 2.7903 0.0015566 557.8503206170143 14.33 0.15077 14.637 14.56 14.711 0.3069 15 6 3 0 0 0 0.0060394 1 6481 6481 89.609 40.081 1 3442600 5750 2538 3793 3805 6363 6363 0.13469669185428756 EVRKKTLQL 9 Unmodified _EVRKKTLQL_ 0 0 0 ENSG00000129083|ENST00000439561|COPB1;ENST00000249923.7_1_11:14502548-14502617:-|nuORF ENSG00000129083|ENST00000439561|COPB1 ENSG00000129083|ENST00000439561|COPB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 372.2371826171875 3 372.236274 1113.68699 2.737 0.0010188 0.057473 2.1394E-05 2.7945 0.0010402 372.23627401103886 14.25 0.19889 14.898 14.794 14.993 0.6482 89 28 4 0 0 0 0.063575 2 6419 6377;6419 38.615 12.594 1 50734000 5751 2538 3793 3805 6364;6365 6365 0.13469669185428756 EVRKKTLQL 9 Unmodified _EVRKKTLQL_ 0 0 0 ENSG00000129083|ENST00000439561|COPB1;ENST00000249923.7_1_11:14502548-14502617:-|nuORF ENSG00000129083|ENST00000439561|COPB1 ENSG00000129083|ENST00000439561|COPB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.8528442382812 2 557.850773 1113.68699 3.6133 0.0020157 -0.039396 -2.1977E-05 3.5739 0.0019937 557.8506571846494 14.241 0.16718 14.89 14.815 14.982 0.64819 54 23 3 0 0 0 0.0013791 2 6386 6386;6432 114.5 58.32 1 11371000 5752 2538 3793 3805 6366;6367 6366 0.13469669185428756 EVRKRINVL 9 Unmodified _EVRKRINVL_ 0 0 0 ENST00000487982.5_1_7:65541068-65551857:+|nuORF;nc|ENSG00000126522|P04424-2|ASL;ENSG00000126522|ENST00000304874|ASL ENST00000487982.5_1_7:65541068-65551857:+|nuORF ENST00000487982.5_1_7:65541068-65551857:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.24102783203125 3 376.240018 1125.69823 2.5777 0.00096982 -0.22581 -8.496E-05 2.3518 0.00088486 376.24003891851214 18.942 0.11085 19.239 19.2 19.311 0.29753 26 19 2 0 0 0 0.29523 1 8612 8612 17.113 0.96379 1 3289800 5753 2457 3794 3806 6368 6368 0.14040491279570233 EVRLKKRKRRR 11 Unmodified _EVRLKKRKRRR_ 0 0 0 nc|ENSG00000080503|P51531-2|SMARCA2;ENSG00000080503|ENST00000349721|SMARCA2 nc|ENSG00000080503|P51531-2|SMARCA2 nc|ENSG00000080503|P51531-2|SMARCA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 763.1036987304688 2 763.005316 1523.99608 NaN NaN NaN NaN NaN NaN NaN 98.261 1 98.261 97.761 98.761 0 0 0 0 1.008 1 53749 53749 0.35063 0.35063 1 5754 908 3795 3807 6369 6369 0.2550416759586369 EVRLKKRKRRR 11 Unmodified _EVRLKKRKRRR_ 0 0 0 nc|ENSG00000080503|P51531-2|SMARCA2;ENSG00000080503|ENST00000349721|SMARCA2 nc|ENSG00000080503|P51531-2|SMARCA2 nc|ENSG00000080503|P51531-2|SMARCA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 762.6878051757812 2 763.005316 1523.99608 NaN NaN NaN NaN NaN NaN NaN 103.03 1 103.08 102.58 103.58 0.055092 0 0 0 1.0082 1 55893 55893 0 0 1 5755 908 3795 3807 6370 6370 0.2550416759586369 EVRLTRLLVRV 11 Unmodified _EVRLTRLLVRV_ 0 0 0 ENST00000446425.2_1_2:24222752-24222902:+|nuORF ENST00000446425.2_1_2:24222752-24222902:+|nuORF ENST00000446425.2_1_2:24222752-24222902:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 677.798828125 2 677.438078 1352.8616 NaN NaN NaN NaN NaN NaN NaN 96.121 1 96.728 96.228 97.228 0.60769 0 0 0 1.0072 1 44198 44198 1.3295 0.92882 1 5756 7976 3796 3808 6371 6371 0.19928669330579396 EVRQRALAL 9 Unmodified _EVRQRALAL_ 0 0 0 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;nc|ENSG00000127603|Q9UPN3-5|MACF1;ENST00000469490.1_1_1:39901325-39905041:+|nuORF;ENST00000473843.1_1_1:39900298-39901478:+|nuORF;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.5494384765625 3 352.548852 1054.62473 2.7636 0.0009743 0.41071 0.00014479 3.1743 0.0011191 352.54896885781477 27.777 0.15318 27.777 27.684 27.837 0 17 12 2 0 0 0 0.086415 1 12520 12520 27.223 9.3601 1 319160 5757 2487;9629 3797 3809 6372 6372 0.09959942837076596 EVRQRALAL 9 Unmodified _EVRQRALAL_ 0 0 0 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;nc|ENSG00000127603|Q9UPN3-5|MACF1;ENST00000469490.1_1_1:39901325-39905041:+|nuORF;ENST00000473843.1_1_1:39900298-39901478:+|nuORF;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.550048828125 3 352.548852 1054.62473 2.4676 0.00086994 0.38457 0.00013558 2.8522 0.0010055 352.5489166879782 27.459 0.21221 27.721 27.615 27.827 0.26245 47 21 3 0 0 0 0.025323 2 12464 12464;12508 47.594 13.373 1 1327900 5758 2487;9629 3797 3809 6373;6374 6373 0.09959942837076596 EVRQRALAL 9 Unmodified _EVRQRALAL_ 0 0 0 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;nc|ENSG00000127603|Q9UPN3-5|MACF1;ENST00000469490.1_1_1:39901325-39905041:+|nuORF;ENST00000473843.1_1_1:39900298-39901478:+|nuORF;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.3212280273438 2 528.31964 1054.62473 3.1684 0.0016739 0.56817 0.00030018 3.7366 0.0019741 528.3199678887514 27.466 0.15141 27.729 27.652 27.803 0.26245 25 14 2 0 0 0 0.59776 1 12471 12471 10.824 1.4408 1 944650 5759 2487;9629 3797 3809 6375 6375 0.09959942837076596 EVRQRALAL 9 Unmodified _EVRQRALAL_ 0 0 0 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;nc|ENSG00000127603|Q9UPN3-5|MACF1;ENST00000469490.1_1_1:39901325-39905041:+|nuORF;ENST00000473843.1_1_1:39900298-39901478:+|nuORF;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.5496520996094 3 352.548852 1054.62473 2.352 0.00082919 0.77842 0.00027443 3.1304 0.0011036 352.54905762405724 27.073 0.2762 27.694 27.56 27.836 0.62179 40 18 3 0 0 0 0.017868 2 12384 12384;12433 55.503 14.778 1 1047600 5760 2487;9629 3797 3809 6376;6377 6376 0.09959942837076596 EVRQRALAL 9 Unmodified _EVRQRALAL_ 0 0 0 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;nc|ENSG00000127603|Q9UPN3-5|MACF1;ENST00000469490.1_1_1:39901325-39905041:+|nuORF;ENST00000473843.1_1_1:39900298-39901478:+|nuORF;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.3217163085938 2 528.31964 1054.62473 3.1668 0.0016731 0.25927 0.00013698 3.426 0.00181 528.3199544373659 27.034 0.22764 27.656 27.574 27.802 0.62179 33 15 3 0 0 0 0.64206 2 12435 12385;12435 10.074 1.3285 1 663880 5761 2487;9629 3797 3809 6378;6379 6379 0.09959942837076596 EVSFELLV 8 Unmodified _EVSFELLV_ 0 0 0 nc|ENSG00000087470|O00429-7|DNM1L;nc|ENSG00000087470|O00429-4|DNM1L;nc|ENSG00000087470|O00429-5|DNM1L;nc|ENSG00000087470|O00429-3|DNM1L;nc|ENSG00000087470|O00429-9|DNM1L;nc|ENSG00000087470|O00429-2|DNM1L;ENSG00000087470|ENST00000549701|DNM1L;nc|ENSG00000087470|O00429-8|DNM1L;nc|ENSG00000087470|O00429-6|DNM1L nc|ENSG00000087470|O00429-7|DNM1L nc|ENSG00000087470|O00429-7|DNM1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 468.2594909667969 2 468.257851 934.501149 3.0886 0.0014463 0.72391 0.00033898 3.8125 0.0017852 468.2581966576859 95.489 0.32657 96.096 95.934 96.261 0.60768 37 16 3 0 0 0 0.077224 1 43893 43893 56.541 6.8724 1 676780 5762 1003 3798 3810 6380 6380 0.03127846946097179 EVTKLHKK 8 Unmodified _EVTKLHKK_ 0 0 0 nc|ENSG00000136861|Q96SN8-4|CDK5RAP2;nc|ENSG00000136861|Q96SN8-3|CDK5RAP2;nc|ENSG00000136861|Q96SN8-2|CDK5RAP2;ENSG00000136861|ENST00000349780|CDK5RAP2;ENST00000480467.5_1_9:123151516-123165527:-|nuORF;ENST00000484546.1_1_9:123151516-123165527:-|nuORF nc|ENSG00000136861|Q96SN8-4|CDK5RAP2 nc|ENSG00000136861|Q96SN8-4|CDK5RAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.8071594238281 2 491.805834 981.597115 3.3417 0.0016435 -0.27644 -0.00013596 3.0653 0.0015075 491.80564106710136 19.244 0.14485 19.902 19.814 19.959 0.65829 17 9 2 0 0 0 0.56084 1 8733 8733 16.942 6.1184 1 237330 5763 2982 3799 3811 6381 6381 0.10558039576847023 EVTKLHKK 8 Unmodified _EVTKLHKK_ 0 0 0 nc|ENSG00000136861|Q96SN8-4|CDK5RAP2;nc|ENSG00000136861|Q96SN8-3|CDK5RAP2;nc|ENSG00000136861|Q96SN8-2|CDK5RAP2;ENSG00000136861|ENST00000349780|CDK5RAP2;ENST00000480467.5_1_9:123151516-123165527:-|nuORF;ENST00000484546.1_1_9:123151516-123165527:-|nuORF nc|ENSG00000136861|Q96SN8-4|CDK5RAP2 nc|ENSG00000136861|Q96SN8-4|CDK5RAP2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 491.805834 981.597115 3.208 0.0015777 0.58409 0.00028726 3.7921 0.001865 491.8061965146714 20.215 0.17101 20.215 20.142 20.313 0 0.21749 0.00018533 NaN 16.942 20 15 2 NaN NaN NaN NaN 0 NaN NaN 0 141640 5764 2982 3799 3811 0.10558039576847023 EVTKLHKK 8 Unmodified _EVTKLHKK_ 0 0 0 nc|ENSG00000136861|Q96SN8-4|CDK5RAP2;nc|ENSG00000136861|Q96SN8-3|CDK5RAP2;nc|ENSG00000136861|Q96SN8-2|CDK5RAP2;ENSG00000136861|ENST00000349780|CDK5RAP2;ENST00000480467.5_1_9:123151516-123165527:-|nuORF;ENST00000484546.1_1_9:123151516-123165527:-|nuORF nc|ENSG00000136861|Q96SN8-4|CDK5RAP2 nc|ENSG00000136861|Q96SN8-4|CDK5RAP2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 491.805834 981.597115 3.009 0.0014798 0.80548 0.00039614 3.8144 0.001876 491.8061719654381 19.582 0.17342 19.875 19.771 19.944 0.29239 -0.1226 0.00040309 NaN 16.942 23 14 2 NaN NaN NaN NaN 0 NaN NaN 0 210970 5765 2982 3799 3811 0.10558039576847023 EVVIGPTPL 9 Unmodified _EVVIGPTPL_ 0 0 0 REV__nc|ENSG00000161180|Q8IYX3-3|CCDC116 REV__nc|ENSG00000161180|Q8IYX3-3|CCDC116 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 462.7265930175781 2 462.773668 923.532783 2.7332 0.0012649 -1.368 -0.00063309 1.3652 0.00063178 462.7729014592482 27.053 0.13703 27.675 27.645 27.782 0.62179 12 8 2 0 0 0 0.11288 1 12442 12442 2.0598 0.21551 1 204790 + 5766 18000 3800 3812 6382 6382 0.06795839700043871 EVVKFRLFK 9 Unmodified _EVVKFRLFK_ 0 0 0 REV__ENST00000509378.1_1_4:165109658-165109991:+|nuORF REV__ENST00000509378.1_1_4:165109658-165109991:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.2550354003906 3 389.241248 1164.70191 2.8355 0.0011037 1.2966 0.00050468 4.1321 0.0016084 389.24173256567576 38.989 0.20352 39.626 39.479 39.682 0.63778 10 6 2 0 0 0 1.178 1 17800 17800 1.0715 0 1 195370 + 5767 16963 3801 3813 6383 6383 0.1261516105339524 EVVLPRNR 8 Unmodified _EVVLPRNR_ 0 0 0 REV__ENSG00000183090|ENST00000329798|FREM3 REV__ENSG00000183090|ENST00000329798|FREM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.197265625 3 328.197931 981.571963 NaN NaN NaN NaN NaN NaN NaN 39.08 1 39.344 38.844 39.844 0.26408 0 0 0 0.99035 1 17784 17784 1.4819 0.51963 1 + 5768 13917 3802 3814 6384 6384 0.08043984774280943 EVWEMQGEK 9 Unmodified _EVWEMQGEK_ 0 0 0 REV__CON__Q9TT36 REV__CON__Q9TT36 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.17645263671875 3 379.174463 1134.50156 NaN NaN NaN NaN NaN NaN NaN 68.78 1 69.035 68.535 69.535 0.25443 0 0 0 0.90431 1 31508 31508 2.4985 0 1 + + 5769 10106 3803 3815 6385 6385 -0.060311013963428195 EVWEMQGEK 9 Unmodified _EVWEMQGEK_ 0 0 0 REV__CON__Q9TT36 REV__CON__Q9TT36 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.1753234863281 3 379.174463 1134.50156 NaN NaN NaN NaN NaN NaN NaN 70.865 1 71.122 70.622 71.622 0.25642 0 0 0 0.90431 1 32454 32454 2.4985 0 1 + + 5770 10106 3803 3815 6386 6386 -0.060311013963428195 EVWEMQGEK 9 Unmodified _EVWEMQGEK_ 0 0 0 REV__CON__Q9TT36 REV__CON__Q9TT36 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.23870849609375 3 379.174463 1134.50156 NaN NaN NaN NaN NaN NaN NaN 64.997 1 65.654 65.154 66.154 0.65672 0 0 0 0.90431 1 29798 29798 2.4985 0 1 + + 5771 10106 3803 3815 6387 6387 -0.060311013963428195 EVWEMQGEK 9 Unmodified _EVWEMQGEK_ 0 0 0 REV__CON__Q9TT36 REV__CON__Q9TT36 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.17669677734375 3 379.174463 1134.50156 NaN NaN NaN NaN NaN NaN NaN 81.585 1 82.245 81.745 82.745 0.65998 0 0 0 0.90519 1 37592 37592 2.2828 0 1 + + 5772 10106 3803 3815 6388 6388 -0.060311013963428195 EVYWFIEDEKD 11 Unmodified _EVYWFIEDEKD_ 0 0 0 REV__ENSG00000198722|ENST00000635942|UNC13B REV__ENSG00000198722|ENST00000635942|UNC13B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 736.8320922851562 2 736.83264 1471.65073 NaN NaN NaN NaN NaN NaN NaN 75.097 1 75.761 75.261 76.261 0.6644 0 0 0 1.008 1 34588 34588 0.35063 0 1 + 5773 14352 3804 3816 6389 6389 -0.0662329729261728 EWASRFWLW 9 Unmodified _EWASRFWLW_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 640.8193359375 2 640.81419 1279.61383 4.3606 0.0027943 0.041309 2.6471E-05 4.4019 0.0028208 641.3154230514895 93.33 0.30079 93.585 93.381 93.681 0.25497 24 13 2 0 0 0 0.0095519 1 42861 42861 82.529 48.128 1 738190 5774 2480 3805 3817 6390 6390 -0.01479459537222283 EWASRFWLW 9 Unmodified _EWASRFWLW_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 640.8167114257812 2 640.81419 1279.61383 4.112 0.002635 0.86068 0.00055153 4.9727 0.0031866 640.814868003029 92.705 0.23573 93.352 93.192 93.428 0.64715 22 13 3 0 0 0 0.02631 1 42670 42670 60.074 33.19 1 541070 5775 2480 3805 3817 6391 6391 -0.01479459537222283 EWDELDAL 8 Unmodified _EWDELDAL_ 0 0 0 REV__ENST00000380443.5_1_20:2843179-2847217:+|nuORF REV__ENST00000380443.5_1_20:2843179-2847217:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.72760009765625 2 495.724372 989.434192 NaN NaN NaN NaN NaN NaN NaN 57.483 1 57.747 57.247 58.247 0.26444 0 0 0 0.11945 1 26315 26315 49.669 2.748 1 + 5776 14525 3806 3818 6392 6392 -0.060948083356834104 EWEEWRRRKEK 11 Unmodified _EWEEWRRRKEK_ 0 0 0 nc|ENSG00000142459|Q96CN4|EVI5L;ENSG00000142459|ENST00000538904|EVI5L nc|ENSG00000142459|Q96CN4|EVI5L nc|ENSG00000142459|Q96CN4|EVI5L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.6162109375 3 544.618217 1630.83282 NaN NaN NaN NaN NaN NaN NaN 33.329 1 33.329 32.829 33.829 0 0 0 0 1.0079 1 15102 15102 0.45452 0.35968 1 5777 3310 3807 3819 6393 6393 0.042638999634846186 EWIALKKEIVK 11 Unmodified _EWIALKKEIVK_ 0 0 0 REV__nc|ENSG00000073737|Q9BPW9-2|DHRS9 REV__nc|ENSG00000073737|Q9BPW9-2|DHRS9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.94989013671875 3 452.946501 1355.81767 NaN NaN NaN NaN NaN NaN NaN 109.86 1 110.17 109.67 110.67 0.31015 0 0 0 1.008 1 50635 50635 0.08335 0.010087 1 + 5778 10508 3808 3820 6394 6394 0.1539964011358279 EWKPTKLVKV 10 Unmodified _EWKPTKLVKV_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 307.6930847167969 4 307.69195 1226.73869 2.2665 0.00069739 1.0408 0.00032025 3.3073 0.0010176 307.6921099702628 39.248 1.165 40.046 39.221 40.387 0.79762 64 56 2 0 0 0 0.94134 1 17783 17783 0.62683 0 1 315970 5779 1069;6170 3809 3821 6395 6395 0.13439412879301926 EWKPTKLVKV 10 Unmodified _EWKPTKLVKV_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 307.69195 1226.73869 1.9689 0.00060581 1.0643 0.00032747 3.0332 0.00093328 307.6921016478387 39.87 0.64909 39.87 39.522 40.172 0 -0.087894 2.1211E-05 NaN 0.62683 41 28 2 NaN NaN NaN NaN 0 NaN NaN 0 287670 5780 1069;6170 3809 3821 0.13439412879301926 EWLYFAYERFH 11 Unmodified _EWLYFAYERFH_ 0 0 0 REV__ENST00000258963.7_1_17:56051264-56051366:-|nuORF REV__ENST00000258963.7_1_17:56051264-56051366:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 780.8695678710938 2 780.867151 1559.71975 NaN NaN NaN NaN NaN NaN NaN 62.407 1 63.068 62.568 63.568 0.66008 0 0 0 1.008 1 28598 28598 0.30703 0 1 + 5781 14949 3810 3822 6396 6396 -0.03772168482419147 EWNESMHSL 9 Unmodified _EWNESMHSL_ 0 0 0 nc|ENSG00000171302|Q8WVQ1-2|CANT1;nc|ENSG00000171302|Q8WVQ1-3|CANT1;ENSG00000171302|ENST00000392446|CANT1 nc|ENSG00000171302|Q8WVQ1-2|CANT1 nc|ENSG00000171302|Q8WVQ1-2|CANT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 378.1640319824219 3 378.162446 1131.46551 2.8703 0.0010854 -0.072344 -2.7358E-05 2.7979 0.0010581 378.49675792868925 20.418 0.47956 20.418 20.156 20.635 0 69 43 2 0 0 0 1.1703 1 9092 9092 1.1933 1.1933 1 285780 5782 4797 3811 3823 6397 6397 -0.09496558573209768 EWRRKTKPWRR 11 Unmodified _EWRRKTKPWRR_ 0 0 0 nc|ENSG00000130653|Q6ZV29-4|PNPLA7;ENST00000469998.1_1_9:140355949-140358668:-|nuORF nc|ENSG00000130653|Q6ZV29-4|PNPLA7 nc|ENSG00000130653|Q6ZV29-4|PNPLA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.2240600585938 3 533.642809 1597.9066 NaN NaN NaN NaN NaN NaN NaN 82.129 1 82.213 81.713 82.713 0.084106 0 0 0 1.0079 1 40503 40503 0.40827 0.40827 1 5783 9638 3812 3824 6398 6398 0.131559129164998 EWSPYTKIFQF 11 Unmodified _EWSPYTKIFQF_ 0 0 0 ENST00000480769.5_1_1:185267169-185274781:-|nuORF;ENST00000459929.5_1_1:185267169-185275646:-|nuORF;ENSG00000116679|ENST00000367498|IVNS1ABP ENST00000480769.5_1_1:185267169-185274781:-|nuORF ENST00000480769.5_1_1:185267169-185274781:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 723.3603515625 2 723.358628 1444.7027 3.8229 0.0027654 -0.11676 -8.446E-05 3.7062 0.0026809 723.357924240661 84.321 0.2802 84.569 84.434 84.714 0.24757 38 15 3 0 0 0 3.1377E-06 2 38831 38784;38831 97.741 82.493 1 1262800 5784 2039 3813 3825 6399;6400 6400 -0.0018608908821988734 EWSPYTKIFQF 11 Unmodified _EWSPYTKIFQF_ 0 0 0 ENST00000480769.5_1_1:185267169-185274781:-|nuORF;ENST00000459929.5_1_1:185267169-185275646:-|nuORF;ENSG00000116679|ENST00000367498|IVNS1ABP ENST00000480769.5_1_1:185267169-185274781:-|nuORF ENST00000480769.5_1_1:185267169-185274781:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 723.8655395507812 2 723.358628 1444.7027 4.0862 0.0029558 -0.071892 -5.2004E-05 4.0143 0.0029038 723.859857199205 83.829 0.29797 84.492 84.348 84.646 0.66219 37 18 3 0 0 0 0.0033297 1 38591 38591 71.708 57.802 1 1178100 5785 2039 3813 3825 6401 6401 -0.0018608908821988734 EWSRHWLEIFE 11 Unmodified _EWSRHWLEIFE_ 0 0 0 REV__ENST00000520337.1_1_8:104388144-104390286:+|nuORF REV__ENST00000520337.1_1_8:104388144-104390286:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 766.3695068359375 2 766.370058 1530.72556 NaN NaN NaN NaN NaN NaN NaN 50.685 1 50.946 50.446 51.446 0.26146 0 0 0 1.008 1 23165 23165 0.30703 0.03801 1 + 5786 17044 3814 3826 6402 6402 -0.018570699707424865 EWVRAADIL 9 Unmodified _EWVRAADIL_ 0 0 0 ENST00000477205.2_1_10:75576469-75577313:-|nuORF ENST00000477205.2_1_10:75576469-75577313:-|nuORF ENST00000477205.2_1_10:75576469-75577313:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.79150390625 2 536.792924 1071.57129 NaN NaN NaN NaN NaN NaN NaN 29.636 1 30.425 29.925 30.925 0.78921 0 0 0 0.89509 1 13365 13365 4.756 0 1 5787 8243 3815 3827 6403 6403 0.03837145334568959 EWWRWLLDEWR 11 Unmodified _EWWRWLLDEWR_ 0 0 0 LTR1F1_dup64|chr4:69041687-69042422:+|2.255451106523636|0.1032861701613835|4.45|537.0|21|1|anti-sense LTR1F1_dup64|chr4:69041687-69042422:+|2.255451106523636|0.1032861701613835|4.45|537.0|21|1|anti-sense LTR1F1_dup64|chr4:69041687-69042422:+|2.255451106523636|0.1032861701613835|4.45|537.0|21|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 837.912109375 2 837.912424 1673.8103 NaN NaN NaN NaN NaN NaN NaN 69.259 1 69.259 68.759 69.759 0 0 0 0 1.0082 1 33423 33423 0 0 1 5788 9497 3816 3828 6404 6404 0.00034300565857847687 EWYILRRYWFP 11 Unmodified _EWYILRRYWFP_ 0 0 0 REV__ENSG00000188334|ENST00000344839|BSPH1 REV__ENSG00000188334|ENST00000344839|BSPH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.6162719726562 3 543.617266 1627.82997 NaN NaN NaN NaN NaN NaN NaN 89.79 1 89.79 89.29 90.29 0 0 0 0 1.0082 1 47002 47002 0 0 1 + 5789 14145 3817 3829 6405 6405 0.04116676576632017 EWYILRRYWFP 11 Unmodified _EWYILRRYWFP_ 0 0 0 REV__ENSG00000188334|ENST00000344839|BSPH1 REV__ENSG00000188334|ENST00000344839|BSPH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 815.05078125 2 814.922261 1627.82997 NaN NaN NaN NaN NaN NaN NaN 100.23 1 100.54 100.04 101.04 0.30835 0 0 0 1.008 1 46357 46357 0.26902 0.26902 1 + 5790 14145 3817 3829 6406 6406 0.04116676576632017 EYAKIEETM 9 Unmodified _EYAKIEETM_ 0 0 0 nc|ENSG00000081803|Q86UW7-3|CADPS2;nc|ENSG00000081803|Q86UW7-2|CADPS2;ENSG00000081803|ENST00000449022|CADPS2 nc|ENSG00000081803|Q86UW7-3|CADPS2 nc|ENSG00000081803|Q86UW7-3|CADPS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.2625732421875 2 557.260265 1112.50598 3.5213 0.0019623 0.76838 0.00042819 4.2897 0.0023905 557.2606012033871 35.473 0.22199 35.728 35.62 35.842 0.25524 9 6 2 0 0 0 0.80651 1 16184 16184 7.2892 0.56607 1 195000 5791 922 3818 3830 6407 6407 -0.04577636973453991 EYARRHQWWNR 11 Unmodified _EYARRHQWWNR_ 0 0 0 ENSG00000069509|ENST00000378045|FUNDC1;ENST00000483115.1_1_X:44383446-44401387:-|nuORF ENSG00000069509|ENST00000378045|FUNDC1 ENSG00000069509|ENST00000378045|FUNDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 801.3076782226562 2 801.395264 1600.77598 NaN NaN NaN NaN NaN NaN NaN 99.05 1 99.05 98.55 99.55 0 0 0 0 1.008 1 54368 54368 0.30703 0 1 5792 751 3819 3831 6408 6408 -0.00038102802341200004 EYARRHQWWNR 11 Unmodified _EYARRHQWWNR_ 0 0 0 ENSG00000069509|ENST00000378045|FUNDC1;ENST00000483115.1_1_X:44383446-44401387:-|nuORF ENSG00000069509|ENST00000378045|FUNDC1 ENSG00000069509|ENST00000378045|FUNDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 534.59814453125 3 534.599268 1600.77598 NaN NaN NaN NaN NaN NaN NaN 97.08 1 97.151 96.651 97.651 0.070648 0 0 0 1.0072 1 51784 51784 0.45452 0.37117 1 5793 751 3819 3831 6409 6409 -0.00038102802341200004 EYATKISRF 9 Unmodified _EYATKISRF_ 0 0 0 nc|ENSG00000057757|Q9GZP4-2|PITHD1;ENSG00000057757|ENST00000246151|PITHD1 nc|ENSG00000057757|Q9GZP4-2|PITHD1 nc|ENSG00000057757|Q9GZP4-2|PITHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.3019409179688 2 557.798206 1113.58186 3.5054 0.0019553 1.602 0.00089358 5.1074 0.0028489 558.3006293267797 29.099 0.13727 29.717 29.593 29.73 0.61789 11 7 2 0 0 0 0.19413 1 13335 13335 23.79 6.6769 1 460000 5794 625 3820 3832 6410 6410 0.029611279890104925 EYATKISRF 9 Unmodified _EYATKISRF_ 0 0 0 nc|ENSG00000057757|Q9GZP4-2|PITHD1;ENSG00000057757|ENST00000246151|PITHD1 nc|ENSG00000057757|Q9GZP4-2|PITHD1 nc|ENSG00000057757|Q9GZP4-2|PITHD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 557.798206 1113.58186 3.6664 0.0020451 0.084069 4.6893E-05 3.7505 0.002092 557.7983662211831 29.354 0.17261 29.614 29.502 29.674 0.2602 -0.051537 -0.00067718 NaN 23.79 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 237800 5795 625 3820 3832 0.029611279890104925 EYAYFNFPE 9 Unmodified _EYAYFNFPE_ 0 0 0 ENSG00000137628|ENST00000393743|DDX60 ENSG00000137628|ENST00000393743|DDX60 ENSG00000137628|ENST00000393743|DDX60 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8399658203125 3 393.837957 1178.49204 NaN NaN NaN NaN NaN NaN NaN 4.8274 1 5.4503 4.9503 5.9503 0.62294 0 0 0 0.91356 1 2190 2190 0.23584 0 1 5796 3030 3821 3833 6411 6411 -0.09006546410205374 EYDALAGK 8 Unmodified _EYDALAGK_ 0 0 0 REV__nc|ENSG00000147394|O15231-2|ZNF185 REV__nc|ENSG00000147394|O15231-2|ZNF185 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 433.7170104980469 2 433.71635 865.418148 2.9219 0.0012673 -0.39425 -0.00017099 2.5276 0.0010963 433.71613283881265 14.143 0.11701 14.143 14.059 14.176 0 12 7 2 0 0 0 0.31901 1 6225 6225 34.102 0 1 453490 + 5797 12505 3822 3834 6412 6412 -0.01994469781902808 EYDALAGK 8 Unmodified _EYDALAGK_ 0 0 0 REV__nc|ENSG00000147394|O15231-2|ZNF185 REV__nc|ENSG00000147394|O15231-2|ZNF185 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 433.71635 865.418148 2.9219 0.0012673 -0.39425 -0.00017099 2.5276 0.0010963 433.71613283881265 14.143 0.11701 14.143 14.059 14.176 0 0.17599 -0.00029391 NaN 34.102 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 453490 + 5798 12505 3822 3834 -0.01994469781902808 EYDALAGK 8 Unmodified _EYDALAGK_ 0 0 0 REV__nc|ENSG00000147394|O15231-2|ZNF185 REV__nc|ENSG00000147394|O15231-2|ZNF185 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 433.71635 865.418148 2.5659 0.0011129 0.12172 5.279E-05 2.6876 0.0011657 433.7163726506538 13.548 0.13368 13.791 13.741 13.874 0.24346 -0.17599 0.00015366 NaN 34.102 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 401610 + 5799 12505 3822 3834 -0.01994469781902808 EYDLIVHQL 9 Unmodified _EYDLIVHQL_ 0 0 0 nc|ENSG00000122958|O75436-2|VPS26A;ENSG00000122958|ENST00000263559|VPS26A nc|ENSG00000122958|O75436-2|VPS26A nc|ENSG00000122958|O75436-2|VPS26A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.300537109375 2 565.298039 1128.58152 2.9681 0.0016779 2.1106 0.0011931 5.0787 0.002871 565.2987997830365 63.287 0.17298 63.287 63.201 63.374 0 44 22 3 0 0 0 0.027384 1 29764 29764 58.679 31.795 1 4509400 5800 2287 3823 3835 6413 6413 0.022377082691491523 EYDLIVHQL 9 Unmodified _EYDLIVHQL_ 0 0 0 nc|ENSG00000122958|O75436-2|VPS26A;ENSG00000122958|ENST00000263559|VPS26A nc|ENSG00000122958|O75436-2|VPS26A nc|ENSG00000122958|O75436-2|VPS26A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 565.2999877929688 2 565.298039 1128.58152 3.4329 0.0019406 -0.052588 -2.9728E-05 3.3803 0.0019109 565.2979848475456 63.135 0.29955 63.385 63.222 63.521 0.24965 41 17 3 0 0 0 1.2253E-06 2 28887 28887;28934 149.99 86.879 1 3308300 5801 2287 3823 3835 6414;6415 6414 0.022377082691491523 EYDLIVHQL 9 Unmodified _EYDLIVHQL_ 0 0 0 nc|ENSG00000122958|O75436-2|VPS26A;ENSG00000122958|ENST00000263559|VPS26A nc|ENSG00000122958|O75436-2|VPS26A nc|ENSG00000122958|O75436-2|VPS26A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 565.2998046875 2 565.298039 1128.58152 3.3696 0.0019048 0.07988 4.5156E-05 3.4495 0.00195 565.2980452940823 62.546 0.30676 63.206 63.058 63.365 0.66008 49 18 3 0 0 0 2.9914E-14 2 28669 28625;28669 172.91 91.293 1 3409200 5802 2287 3823 3835 6416;6417 6417 0.022377082691491523 EYDLPKILYL 10 Unmodified _EYDLPKILYL_ 0 0 0 REV__ENSG00000197410|ENST00000357232|DCHS2 REV__ENSG00000197410|ENST00000357232|DCHS2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.570068359375 3 422.90419 1265.69074 2.9439 0.001245 -2.3476 -0.00099279 0.59635 0.0002522 423.2374246289014 34.197 0.16386 34.817 34.773 34.937 0.62031 9 6 2 0 0 0 0.12676 1 15693 15693 0.69767 0 1 546050 + 5803 14276 3824 3836 6418 6418 0.06852294168629669 EYDNFFQHL 9 Unmodified _EYDNFFQHL_ 0 0 0 ENST00000491646.1_1_2:122217554-122217677:-|nuORF;nc|ENSG00000074054|Q7Z460-2|CLASP1;nc|ENSG00000074054|Q7Z460-4|CLASP1;nc|ENSG00000074054|Q7Z460-5|CLASP1;nc|ENSG00000074054|Q7Z460-3|CLASP1;nc|ENSG00000074054|Q7Z460|CLASP1;ENSG00000074054|ENST00000696935|CLASP1 ENST00000491646.1_1_2:122217554-122217677:-|nuORF ENST00000491646.1_1_2:122217554-122217677:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 606.7689819335938 2 606.769645 1211.52474 2.9096 0.0017655 0.58182 0.00035303 3.4915 0.0021185 606.7694314813705 70.456 0.22842 70.456 70.374 70.603 0 56 31 3 0 0 0 0.023109 1 34199 34199 64.236 42.49 1 5174800 5804 815 3825 3837 6419 6419 -0.07256339287368974 EYDNFFQHL 9 Unmodified _EYDNFFQHL_ 0 0 0 ENST00000491646.1_1_2:122217554-122217677:-|nuORF;nc|ENSG00000074054|Q7Z460-2|CLASP1;nc|ENSG00000074054|Q7Z460-4|CLASP1;nc|ENSG00000074054|Q7Z460-5|CLASP1;nc|ENSG00000074054|Q7Z460-3|CLASP1;nc|ENSG00000074054|Q7Z460|CLASP1;ENSG00000074054|ENST00000696935|CLASP1 ENST00000491646.1_1_2:122217554-122217677:-|nuORF ENST00000491646.1_1_2:122217554-122217677:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.7720336914062 2 606.769645 1211.52474 2.8159 0.0017086 0.4112 0.0002495 3.2271 0.0019581 606.7699216317845 69.493 0.27177 70.196 70.045 70.317 0.70302 54 25 3 0 0 0 0.047285 2 33226 33226;33280 48.346 41.623 1 4836900 5805 815 3825 3837 6420;6421 6420 -0.07256339287368974 EYDNFFQHL 9 Unmodified _EYDNFFQHL_ 0 0 0 ENST00000491646.1_1_2:122217554-122217677:-|nuORF;nc|ENSG00000074054|Q7Z460-2|CLASP1;nc|ENSG00000074054|Q7Z460-4|CLASP1;nc|ENSG00000074054|Q7Z460-5|CLASP1;nc|ENSG00000074054|Q7Z460-3|CLASP1;nc|ENSG00000074054|Q7Z460|CLASP1;ENSG00000074054|ENST00000696935|CLASP1 ENST00000491646.1_1_2:122217554-122217677:-|nuORF ENST00000491646.1_1_2:122217554-122217677:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 606.7724609375 2 606.769645 1211.52474 3.4495 0.0020931 0.71048 0.0004311 4.16 0.0025242 606.7698466541557 70.566 0.30675 70.822 70.671 70.977 0.25641 46 18 4 0 0 0 0.0046538 2 32344 32295;32344 92.491 77.243 1 1600100 5806 815 3825 3837 6422;6423 6423 -0.07256339287368974 EYDNFFQHL 9 Unmodified _EYDNFFQHL_ 0 0 0 ENST00000491646.1_1_2:122217554-122217677:-|nuORF;nc|ENSG00000074054|Q7Z460-2|CLASP1;nc|ENSG00000074054|Q7Z460-4|CLASP1;nc|ENSG00000074054|Q7Z460-5|CLASP1;nc|ENSG00000074054|Q7Z460-3|CLASP1;nc|ENSG00000074054|Q7Z460|CLASP1;ENSG00000074054|ENST00000696935|CLASP1 ENST00000491646.1_1_2:122217554-122217677:-|nuORF ENST00000491646.1_1_2:122217554-122217677:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 606.77197265625 2 606.769645 1211.52474 3.3241 0.002017 0.13385 8.1216E-05 3.4579 0.0020982 606.7695679674283 70.08 0.28298 70.741 70.59 70.873 0.66072 47 17 3 0 0 0 0.015468 2 32153 32097;32153 74.423 56.276 1 1994500 5807 815 3825 3837 6424;6425 6425 -0.07256339287368974 EYEFQEWDR 9 Unmodified _EYEFQEWDR_ 0 0 0 REV__NUMA1|p.K122E|1|0.45|ENSG00000137497|chr11:72022347-72022347|T/C|missense_variant REV__NUMA1|p.K122E|1|0.45|ENSG00000137497|chr11:72022347-72022347|T/C|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 651.2747192382812 2 651.275292 1300.53603 NaN NaN NaN NaN NaN NaN NaN 54.192 1 54.988 54.488 55.488 0.79552 0 0 0 0.91206 1 24726 24726 0.6015 0.14316 1 + 5808 18190 3826 3838 6426 6426 -0.10221561983917127 EYEHINSQNF 10 Unmodified _EYEHINSQNF_ 0 0 0 REV__ENST00000418559.5_1_2:183617332-183641856:+|nuORF REV__ENST00000418559.5_1_2:183617332-183641856:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 427.5244140625 3 427.52292 1279.54693 3.0578 0.0013073 -0.48041 -0.00020539 2.5774 0.0011019 427.5228865810209 30.137 0.19381 30.754 30.657 30.851 0.61737 28 12 3 0 0 0 0.85706 1 13817 13817 3.0723 1.8574 1 859270 + 5809 10553 3827 3839 6427 6427 -0.08166159609618262 EYFISNLNN 9 Unmodified _EYFISNLNN_ 0 0 0 REV__nc|ENSG00000197136|Q9H6A9-3|PCNX3;REV__ENSG00000135749|ENST00000258229|PCNX2;REV__nc|ENSG00000100731|Q96RV3-4|PCNX1 REV__nc|ENSG00000100731|Q96RV3-4|PCNX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.2631225585938 2 557.264196 1112.51384 NaN NaN NaN NaN NaN NaN NaN 35.201 1 35.824 35.324 36.324 0.62294 0 0 0 0.87786 1 16130 16130 6.7232 2.3939 1 + 5810 10845;12035;14260 3828 3840 6428 6428 -0.03791741661666492 EYFKSFNF 8 Unmodified _EYFKSFNF_ 0 0 0 ENSG00000151470|ENST00000425929|C4orf33 ENSG00000151470|ENST00000425929|C4orf33 ENSG00000151470|ENST00000425929|C4orf33 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.7560424804688 2 541.2531 1080.49165 3.2729 0.0017715 0.60791 0.00032903 3.8808 0.0021005 541.2532420960093 64.762 0.24717 65.01 64.937 65.184 0.24802 25 15 2 0 0 0 0.18676 1 29678 29678 44.407 29.825 1 688210 5811 3710 3829 3841 6429 6429 -0.045379213394198814 EYFWRIAWRFW 11 Unmodified _EYFWRIAWRFW_ 0 0 0 ENST00000419746.5_1_2:179403628-179404009:+|nuORF ENST00000419746.5_1_2:179403628-179404009:+|nuORF ENST00000419746.5_1_2:179403628-179404009:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.476318359375 3 553.945494 1658.81465 NaN NaN NaN NaN NaN NaN NaN 76.816 1 77.44 76.94 77.94 0.62397 0 0 0 1.0082 1 37244 37244 0 0 1 5812 7744 3830 3842 6430 6430 0.011598097794148998 EYGKVEFVF 9 Unmodified _EYGKVEFVF_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1;nc|ENSG00000079308|Q9HBL0-2|TNS1;ENST00000479185.1_1_2:218746916-218750490:-|nuORF nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.28271484375 2 559.281857 1116.54916 3.8567 0.002157 -0.84913 -0.0004749 3.0076 0.0016821 559.2818126888989 68.699 0.1469 68.952 68.842 68.989 0.25227 11 8 2 0 0 0 0.16976 1 31483 31483 25.399 3.6527 1 390500 5813 892 3831 3843 6431 6431 -0.004450791338513227 EYGPIHILW 9 Unmodified _EYGPIHILW_ 0 0 0 nc|ENSG00000162627|Q9UNH6-2|SNX7;nc|ENSG00000162627|Q9UNH6|SNX7;ENSG00000162627|ENST00000306121|SNX7 nc|ENSG00000162627|Q9UNH6-2|SNX7 nc|ENSG00000162627|Q9UNH6-2|SNX7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.2994384765625 2 564.297842 1126.58113 NaN NaN NaN NaN NaN NaN NaN 79.978 1 79.978 79.478 80.478 0 0 0 0 0.0094858 1 39601 39601 98.807 62.341 1 5814 4151 3832 3844 6432 6432 0.022903333399654002 EYGPIHILW 9 Unmodified _EYGPIHILW_ 0 0 0 nc|ENSG00000162627|Q9UNH6-2|SNX7;nc|ENSG00000162627|Q9UNH6|SNX7;ENSG00000162627|ENST00000306121|SNX7 nc|ENSG00000162627|Q9UNH6-2|SNX7 nc|ENSG00000162627|Q9UNH6-2|SNX7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.2991943359375 2 564.297842 1126.58113 3.3564 0.001894 -0.22013 -0.00012422 3.1363 0.0017698 564.2978369679204 79.775 0.33348 80.024 79.855 80.188 0.24947 42 21 3 0 0 0 0.015098 1 36734 36734 86.121 47.97 1 1077500 5815 4151 3832 3844 6433 6433 0.022903333399654002 EYGPIHILW 9 Unmodified _EYGPIHILW_ 0 0 0 nc|ENSG00000162627|Q9UNH6-2|SNX7;nc|ENSG00000162627|Q9UNH6|SNX7;ENSG00000162627|ENST00000306121|SNX7 nc|ENSG00000162627|Q9UNH6-2|SNX7 nc|ENSG00000162627|Q9UNH6-2|SNX7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.2999267578125 2 564.297842 1126.58113 3.5947 0.0020285 -0.22968 -0.00012961 3.365 0.0018989 564.2977856403679 79.233 0.29344 79.893 79.731 80.024 0.66082 24 17 2 0 0 0 0.02234 1 36520 36520 86.121 47.97 1 1157100 5816 4151 3832 3844 6434 6434 0.022903333399654002 EYGVQILVK 9 Unmodified _EYGVQILVK_ 0 0 0 REV__ENST00000539759.5_1_11:47639025-47663996:-|nuORF REV__ENST00000539759.5_1_11:47639025-47663996:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.1419982910156 3 350.206092 1047.59645 NaN NaN NaN NaN NaN NaN NaN 59.383 1 60.132 59.632 60.632 0.74927 0 0 0 0.90335 1 27285 27285 2.7352 0.82882 1 + 5817 11188 3833 3845 6435 6435 0.07455200137133033 EYHFHREHF 9 Unmodified _EYHFHREHF_ 0 0 0 REV__nc|ENSG00000102760|Q9H4X1-2|RGCC REV__nc|ENSG00000102760|Q9H4X1-2|RGCC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 651.7979736328125 2 651.294153 1300.57375 3.7442 0.0024386 1.8481 0.0012037 5.5923 0.0036423 651.7966133999092 53.785 0.36267 54.049 53.884 54.247 0.26462 21 13 2 0 0 0 0.94779 1 24584 24584 4.3292 0 1 310610 + 5818 10937 3834 3846 6436 6436 -0.0645100620777157 EYIEKPFLM 9 Unmodified _EYIEKPFLM_ 0 0 0 ENST00000472688.5_1_1:84383321-84408355:-|nuORF;nc|ENSG00000137941|Q6ZT98-2|TTLL7;nc|ENSG00000137941|Q6ZT98-3|TTLL7;ENSG00000137941|ENST00000260505|TTLL7 ENST00000472688.5_1_1:84383321-84408355:-|nuORF ENST00000472688.5_1_1:84383321-84408355:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.3003540039062 2 585.299193 1168.58383 NaN NaN NaN NaN NaN NaN NaN 63.52 1 64.178 63.678 64.678 0.65808 0 0 0 0.10934 1 29109 29109 39.957 15.937 1 5819 3055 3835 3847 6437 6437 0.006284206825966976 EYIKFLRSI 9 Unmodified _EYIKFLRSI_ 0 0 0 ENSG00000196591|ENST00000519065|HDAC2;nc|ENSG00000196591|Q92769-3|HDAC2;ENST00000521233.1_1_6:114279792-114292096:-|nuORF ENSG00000196591|ENST00000519065|HDAC2 ENSG00000196591|ENST00000519065|HDAC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.8406982421875 2 584.839874 1167.66519 3.4589 0.0020229 0.20698 0.00012105 3.6659 0.002144 584.8399276628522 58.825 0.19956 58.825 58.74 58.94 0 31 14 3 0 0 0 0.0023358 2 27164 27164;27211 100.71 52.363 1 2301600 5820 5761 3836 3848 6438;6439 6438 0.08806864436837714 EYIKFLRSI 9 Unmodified _EYIKFLRSI_ 0 0 0 ENSG00000196591|ENST00000519065|HDAC2;nc|ENSG00000196591|Q92769-3|HDAC2;ENST00000521233.1_1_6:114279792-114292096:-|nuORF ENSG00000196591|ENST00000519065|HDAC2 ENSG00000196591|ENST00000519065|HDAC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 390.2298583984375 3 390.229008 1167.66519 2.2795 0.00088954 0.3856 0.00015047 2.6651 0.00104 390.2289582733088 57.671 0.2375 58.44 58.296 58.534 0.76861 39 18 3 0 0 0 0.093314 2 26406 26406;26465 32.037 19.165 1 4322500 5821 5761 3836 3848 6440;6441 6440 0.08806864436837714 EYIKFLRSI 9 Unmodified _EYIKFLRSI_ 0 0 0 ENSG00000196591|ENST00000519065|HDAC2;nc|ENSG00000196591|Q92769-3|HDAC2;ENST00000521233.1_1_6:114279792-114292096:-|nuORF ENSG00000196591|ENST00000519065|HDAC2 ENSG00000196591|ENST00000519065|HDAC2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 584.839874 1167.66519 2.9599 0.0017311 -0.48502 -0.00028366 2.4749 0.0014474 584.8391750770433 57.688 0.16847 58.457 58.337 58.505 0.76861 -0.18402 -0.0005778 NaN 100.71 26 13 2 NaN NaN NaN NaN 0 NaN NaN 0 1511100 5822 5761 3836 3848 0.08806864436837714 EYIKFLRSI 9 Unmodified _EYIKFLRSI_ 0 0 0 ENSG00000196591|ENST00000519065|HDAC2;nc|ENSG00000196591|Q92769-3|HDAC2;ENST00000521233.1_1_6:114279792-114292096:-|nuORF ENSG00000196591|ENST00000519065|HDAC2 ENSG00000196591|ENST00000519065|HDAC2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 390.229008 1167.66519 2.8715 0.0011205 -0.95702 -0.00037346 1.9144 0.00074707 390.22844470344234 57.947 0.070232 58.615 58.56 58.63 0.66829 0.08791 -0.0012715 NaN 32.037 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 607820 5823 5761 3836 3848 0.08806864436837714 EYIPKWEQF 9 Unmodified _EYIPKWEQF_ 0 0 0 ENSG00000114405|ENST00000462069|C3orf14 ENSG00000114405|ENST00000462069|C3orf14 ENSG00000114405|ENST00000462069|C3orf14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 620.3082885742188 2 620.305864 1238.59717 3.3899 0.0021028 -0.25954 -0.000161 3.1303 0.0019418 620.3051987348483 63.269 0.19964 63.269 63.217 63.416 0 37 22 2 0 0 0 0.048676 1 29816 29816 47.749 32.91 1 5068300 5824 1903 3837 3849 6442 6442 -0.012580052138218889 EYIPKWEQF 9 Unmodified _EYIPKWEQF_ 0 0 0 ENSG00000114405|ENST00000462069|C3orf14 ENSG00000114405|ENST00000462069|C3orf14 ENSG00000114405|ENST00000462069|C3orf14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 620.3078002929688 2 620.305864 1238.59717 3.4848 0.0021616 -0.53714 -0.00033319 2.9476 0.0018284 620.3053912035235 62.712 0.27828 63.37 63.218 63.496 0.65808 43 17 3 0 0 0 0.0017071 1 28720 28720 107.19 65.347 1 2399000 5825 1903 3837 3849 6443 6443 -0.012580052138218889 EYIPKWEQF 9 Unmodified _EYIPKWEQF_ 0 0 0 ENSG00000114405|ENST00000462069|C3orf14 ENSG00000114405|ENST00000462069|C3orf14 ENSG00000114405|ENST00000462069|C3orf14 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 620.305864 1238.59717 3.4764 0.0021565 0.0056669 3.5152E-06 3.4821 0.00216 620.3058640055658 63.271 0.29172 63.52 63.369 63.661 0.24894 0.1335 0.00032909 NaN 107.19 42 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1709900 5826 1903 3837 3849 -0.012580052138218889 EYIQKNVQL 9 Unmodified _EYIQKNVQL_ 0 0 0 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.8128662109375 2 567.811313 1133.60807 3.4373 0.0019517 -0.2425 -0.0001377 3.1948 0.001814 567.8110571853072 39.351 0.2625 39.351 39.203 39.465 0 19 9 3 0 0 0 0.020338 1 17881 17881 85.272 33.004 1 534700 5827 2443 3838 3850 6444 6444 0.04661397160475644 EYIQKNVQL 9 Unmodified _EYIQKNVQL_ 0 0 0 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.8121337890625 2 567.811313 1133.60807 3.501 0.0019879 -0.7054 -0.00040054 2.7956 0.0015874 567.81090297405 38.233 0.24467 39.028 38.871 39.115 0.79552 13 8 2 0 0 0 0.10584 1 17345 17345 42.095 4.1206 1 459040 5828 2443 3838 3850 6445 6445 0.04661397160475644 EYIQKNVQL 9 Unmodified _EYIQKNVQL_ 0 0 0 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 567.811313 1133.60807 3.44 0.0019532 0.18077 0.00010264 3.6207 0.0020559 568.312955626822 39.092 0.1979 39.356 39.279 39.477 0.26408 0.078866 0.00039636 NaN 85.272 15 8 2 NaN NaN NaN NaN 0 NaN NaN 0 429020 5829 2443 3838 3850 0.04661397160475644 EYIQKNVQL 9 Unmodified _EYIQKNVQL_ 0 0 0 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 ENSG00000126067|ENST00000373237|PSMB2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 567.811313 1133.60807 3.5665 0.0020251 -0.088461 -5.0229E-05 3.4781 0.0019749 567.8114057796367 38.736 0.21691 39.374 39.238 39.455 0.63778 0.096701 9.0611E-05 NaN 85.272 13 7 2 NaN NaN NaN NaN 0 NaN NaN 0 553300 5830 2443 3838 3850 0.04661397160475644 EYIRSLNQF 9 Unmodified _EYIRSLNQF_ 0 0 0 ENST00000591367.5_1_18:21109371-21111665:+|nuORF;ENST00000589215.5_1_18:21087981-21111645:+|nuORF;ENSG00000141452|ENST00000269221|RMC1 ENST00000591367.5_1_18:21109371-21111665:+|nuORF ENST00000591367.5_1_18:21109371-21111665:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.3025512695312 2 585.301113 1168.58767 3.7029 0.0021673 0.82686 0.00048396 4.5298 0.0026513 585.301197650703 50.739 0.24908 50.739 50.661 50.91 0 21 13 2 0 0 0 0.0023958 1 23222 23222 100.09 50.158 1 1130300 5831 3256 3839 3851 6446 6446 0.010122265006657472 EYIRSLNQF 9 Unmodified _EYIRSLNQF_ 0 0 0 ENST00000591367.5_1_18:21109371-21111665:+|nuORF;ENST00000589215.5_1_18:21087981-21111645:+|nuORF;ENSG00000141452|ENST00000269221|RMC1 ENST00000591367.5_1_18:21109371-21111665:+|nuORF ENST00000591367.5_1_18:21109371-21111665:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.302734375 2 585.301113 1168.58767 NaN NaN NaN NaN NaN NaN NaN 50.857 1 50.857 50.357 51.357 0 0 0 0 0.028243 1 23286 23286 60.074 40.817 1 5832 3256 3839 3851 6447 6447 0.010122265006657472 EYIRSLNQF 9 Unmodified _EYIRSLNQF_ 0 0 0 ENST00000591367.5_1_18:21109371-21111665:+|nuORF;ENST00000589215.5_1_18:21087981-21111645:+|nuORF;ENSG00000141452|ENST00000269221|RMC1 ENST00000591367.5_1_18:21109371-21111665:+|nuORF ENST00000591367.5_1_18:21109371-21111665:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.30322265625 2 585.301113 1168.58767 3.3399 0.0019548 0.47839 0.00028 3.8182 0.0022348 585.3014532566506 49.81 0.23029 50.633 50.526 50.756 0.82285 19 10 2 0 0 0 0.0027913 1 22673 22673 96.367 50.667 1 835750 5833 3256 3839 3851 6448 6448 0.010122265006657472 EYIRSLNQF 9 Unmodified _EYIRSLNQF_ 0 0 0 ENST00000591367.5_1_18:21109371-21111665:+|nuORF;ENST00000589215.5_1_18:21087981-21111645:+|nuORF;ENSG00000141452|ENST00000269221|RMC1 ENST00000591367.5_1_18:21109371-21111665:+|nuORF ENST00000591367.5_1_18:21109371-21111665:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 585.303466796875 2 585.301113 1168.58767 3.3744 0.001975 0.52933 0.00030982 3.9037 0.0022848 585.3013126909608 50.747 0.35657 51.008 50.793 51.15 0.26146 48 16 4 0 0 0 1.3294E-08 3 23182 23132;23182;23231 152.89 84.805 1 1751200 5834 3256 3839 3851 6449;6450;6451 6450 0.010122265006657472 EYIRSLNQF 9 Unmodified _EYIRSLNQF_ 0 0 0 ENST00000591367.5_1_18:21109371-21111665:+|nuORF;ENST00000589215.5_1_18:21087981-21111645:+|nuORF;ENSG00000141452|ENST00000269221|RMC1 ENST00000591367.5_1_18:21109371-21111665:+|nuORF ENST00000591367.5_1_18:21109371-21111665:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.3030395507812 2 585.301113 1168.58767 3.4878 0.0020414 0.25601 0.00014984 3.7438 0.0021912 585.3011490407724 50.108 0.38451 50.765 50.532 50.917 0.65735 40 14 4 0 0 0 0.0010698 3 22923 22872;22923;22973 125.53 75.596 1 1669900 5835 3256 3839 3851 6452;6453;6454 6453 0.010122265006657472 EYIYLVIQWRF 11 Unmodified _EYIYLVIQWRF_ 0 0 0 ENSG00000069869|ENST00000435532|NEDD4;nc|ENSG00000069869|P46934-3|NEDD4;nc|ENSG00000069869|P46934-2|NEDD4;nc|ENSG00000069869|P46934|NEDD4 ENSG00000069869|ENST00000435532|NEDD4 ENSG00000069869|ENST00000435532|NEDD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 765.4111328125 2 765.411195 1528.80784 NaN NaN NaN NaN NaN NaN NaN 46.036 1 46.301 45.801 46.801 0.26561 0 0 0 1.0082 1 21043 21043 0 0 1 5836 754 3840 3852 6455 6455 0.06458452108199708 EYLDRAEKL 9 Unmodified _EYLDRAEKL_ 0 0 0 ENST00000591475.5_1_18:61064221-61089576:-|nuORF;ENSG00000119541|ENST00000238497|VPS4B ENST00000591475.5_1_18:61064221-61089576:-|nuORF ENST00000591475.5_1_18:61064221-61089576:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.53759765625 3 379.536389 1135.58734 2.909 0.0011041 0.38529 0.00014623 3.2942 0.0012503 379.53648468558094 31.658 0.2582 31.658 31.529 31.787 0 52 23 3 0 0 0 0.10837 2 14308 14308;14366 28.495 10.121 1 751510 5837 2149 3841 3853 6456;6457 6456 0.02496806780800398 EYLDRAEKL 9 Unmodified _EYLDRAEKL_ 0 0 0 ENST00000591475.5_1_18:61064221-61089576:-|nuORF;ENSG00000119541|ENST00000238497|VPS4B ENST00000591475.5_1_18:61064221-61089576:-|nuORF ENST00000591475.5_1_18:61064221-61089576:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.5373840332031 3 379.536389 1135.58734 2.5775 0.00097824 -0.20007 -7.5936E-05 2.3774 0.00090231 379.53632257465 30.68 0.25032 31.469 31.328 31.578 0.78879 36 19 2 0 0 0 0.14729 2 13878 13826;13878 31.268 16.02 1 644330 5838 2149 3841 3853 6458;6459 6459 0.02496806780800398 EYLEKEKL 8 Unmodified _EYLEKEKL_ 0 0 0 ENSG00000165934|ENST00000298875|CPSF2 ENSG00000165934|ENST00000298875|CPSF2 ENSG00000165934|ENST00000298875|CPSF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.2879028320312 2 526.28714 1050.55973 NaN NaN NaN NaN NaN NaN NaN 48.151 1 48.151 47.651 48.651 0 0 0 0 0.88162 1 22049 22049 13.508 1.8676 1 5839 4435 3842 3854 6460 6460 0.03646903520575506 EYLENALKL 9 Unmodified _EYLENALKL_ 0 0 0 ENSG00000162654|ENST00000355754|GBP4;GBP7|p.Q320Lfs*2|1|0.46|ENSG00000213512|chr1:89149484-89149485|CT/-|frameshift_variant;ENSG00000183347|ENST00000370456|GBP6;ENSG00000213512|ENST00000294671|GBP7 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.8023071289062 2 546.800414 1091.58628 3.3612 0.0018379 0.20463 0.00011189 3.5658 0.0019498 546.8003759386776 63.613 0.30555 63.861 63.684 63.99 0.24803 52 17 4 0 0 0 0.00068611 3 29123 29077;29123;29171 129.77 20.824 1 8235700 5840 4154 3843 3855 6461;6462;6463 6462 0.04414592411899321 EYLENALKL 9 Unmodified _EYLENALKL_ 0 0 0 ENSG00000162654|ENST00000355754|GBP4;GBP7|p.Q320Lfs*2|1|0.46|ENSG00000213512|chr1:89149484-89149485|CT/-|frameshift_variant;ENSG00000183347|ENST00000370456|GBP6;ENSG00000213512|ENST00000294671|GBP7 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.8023681640625 2 546.800414 1091.58628 3.4094 0.0018642 0.5755 0.00031468 3.9849 0.0021789 546.800638639785 62.996 0.34385 63.654 63.51 63.854 0.65808 51 18 4 0 0 0 0.00143 3 28869 28826;28869;28914 110.67 18.569 1 7972400 5841 4154 3843 3855 6464;6465;6466 6465 0.04414592411899321 EYLERAPEL 9 Unmodified _EYLERAPEL_ 0 0 0 ENSG00000114127|ENST00000392981|XRN1;nc|ENSG00000114127|Q8IZH2|XRN1 ENSG00000114127|ENST00000392981|XRN1 ENSG00000114127|ENST00000392981|XRN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.2889404296875 2 560.287671 1118.56079 3.7657 0.0021099 -0.14666 -8.2172E-05 3.6191 0.0020277 560.2875358677237 47.009 0.32689 47.272 47.094 47.421 0.26363 23 10 3 0 0 0 0.0011142 1 21474 21474 125.04 68.861 1 925400 5842 1891 3844 3856 6467 6467 0.0062511788946721936 EYLERAPEL 9 Unmodified _EYLERAPEL_ 0 0 0 ENSG00000114127|ENST00000392981|XRN1;nc|ENSG00000114127|Q8IZH2|XRN1 ENSG00000114127|ENST00000392981|XRN1 ENSG00000114127|ENST00000392981|XRN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.2900390625 2 560.287671 1118.56079 3.7122 0.0020799 0.18956 0.00010621 3.9017 0.0021861 560.2882384530918 46.511 0.2539 47.163 47.004 47.258 0.65219 20 9 3 0 0 0 0.0090098 2 21274 21274;21332 83.429 39.57 1 678710 5843 1891 3844 3856 6468;6469 6468 0.0062511788946721936 EYLERAPEL 9 Unmodified _EYLERAPEL_ 0 0 0 ENSG00000114127|ENST00000392981|XRN1;nc|ENSG00000114127|Q8IZH2|XRN1 ENSG00000114127|ENST00000392981|XRN1 ENSG00000114127|ENST00000392981|XRN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 560.287671 1118.56079 3.271 0.0018327 1.3706 0.00076794 4.6416 0.0026006 560.2882916261356 46.175 0.18767 47.004 46.906 47.094 0.82915 -0.14222 0.0012698 NaN 125.04 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 557920 5844 1891 3844 3856 0.0062511788946721936 EYLFNATRS 9 Unmodified _EYLFNATRS_ 0 0 0 ENST00000507978.5_1_3:130732903-130735843:-|nuORF;ENSG00000034533|ENST00000264992|ASTE1 ENST00000507978.5_1_3:130732903-130735843:-|nuORF ENST00000507978.5_1_3:130732903-130735843:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.772705078125 2 550.772188 1099.52982 3.5596 0.0019605 -2.0313 -0.0011188 1.5283 0.00084175 550.7712201213941 36.434 0.31967 36.692 36.548 36.868 0.25768 20 12 2 0 0 0 0.24465 1 16645 16645 20.454 2.3186 1 453710 5845 507 3845 3857 6470 6470 -0.015960354247681607 EYLFNATRS 9 Unmodified _EYLFNATRS_ 0 0 0 ENST00000507978.5_1_3:130732903-130735843:-|nuORF;ENSG00000034533|ENST00000264992|ASTE1 ENST00000507978.5_1_3:130732903-130735843:-|nuORF ENST00000507978.5_1_3:130732903-130735843:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.774169921875 2 550.772188 1099.52982 3.6248 0.0019964 -1.6865 -0.00092887 1.9383 0.0010676 550.7711981214059 35.894 0.27071 36.52 36.395 36.665 0.62631 16 9 2 0 0 0 0.36069 1 16483 16483 14.838 2.3067 1 428820 5846 507 3845 3857 6471 6471 -0.015960354247681607 EYLGKFRRL 9 Unmodified _EYLGKFRRL_ 0 0 0 nc|ENSG00000155506|Q6PKG0-3|LARP1;LARP1|p.E945Pfs*8|1|0.42|ENSG00000155506|chr5:154811618-154811625|GTCTTGAA/-|frameshift_variant;ENSG00000155506|ENST00000518297|LARP1 nc|ENSG00000155506|Q6PKG0-3|LARP1 nc|ENSG00000155506|Q6PKG0-3|LARP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.5653381347656 3 394.564502 1180.67168 2.6994 0.0010651 -0.32781 -0.00012934 2.3716 0.00093576 394.5644569293346 30.163 0.30004 30.953 30.822 31.122 0.78921 40 27 2 0 0 0 0.5141 2 13640 13597;13640 12.241 6.8379 1 252480 5847 9699 3846 3858 6472;6473 6473 0.08856802388208962 EYLGKFRRL 9 Unmodified _EYLGKFRRL_ 0 0 0 nc|ENSG00000155506|Q6PKG0-3|LARP1;LARP1|p.E945Pfs*8|1|0.42|ENSG00000155506|chr5:154811618-154811625|GTCTTGAA/-|frameshift_variant;ENSG00000155506|ENST00000518297|LARP1 nc|ENSG00000155506|Q6PKG0-3|LARP1 nc|ENSG00000155506|Q6PKG0-3|LARP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 394.564502 1180.67168 2.7921 0.0011017 -0.3068 -0.00012105 2.4853 0.00098063 394.5643805478616 31.294 0.16337 31.294 31.226 31.389 0 0.12461 -1.9665E-05 NaN 12.241 23 16 2 NaN NaN NaN NaN 0 NaN NaN 0 336790 5848 9699 3846 3858 0.08856802388208962 EYLGKFRRL 9 Unmodified _EYLGKFRRL_ 0 0 0 nc|ENSG00000155506|Q6PKG0-3|LARP1;LARP1|p.E945Pfs*8|1|0.42|ENSG00000155506|chr5:154811618-154811625|GTCTTGAA/-|frameshift_variant;ENSG00000155506|ENST00000518297|LARP1 nc|ENSG00000155506|Q6PKG0-3|LARP1 nc|ENSG00000155506|Q6PKG0-3|LARP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 394.564502 1180.67168 2.8822 0.0011372 0.15768 6.2217E-05 3.0399 0.0011994 394.8986358449476 30.644 0.10219 31.261 31.22 31.322 0.61737 0.091958 0.00053014 NaN 12.241 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 210620 5849 9699 3846 3858 0.08856802388208962 EYLGKLVRF 9 Unmodified _EYLGKLVRF_ 0 0 0 ENST00000489749.1_1_2:7018228-7023923:+|nuORF;ENSG00000134321|ENST00000382040|RSAD2 ENST00000489749.1_1_2:7018228-7023923:+|nuORF ENST00000489749.1_1_2:7018228-7023923:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.8280029296875 2 562.826766 1123.63898 3.5468 0.0019962 0.11564 6.5087E-05 3.6624 0.0020613 562.8267018240242 53.764 0.28085 54.029 53.907 54.188 0.26462 31 10 4 0 0 0 0.0020335 2 24577 24577;24634 126.57 84.471 1 1772200 5850 8383 3847 3859 6474;6475 6474 0.08210595265359188 EYLGKLVRF 9 Unmodified _EYLGKLVRF_ 0 0 0 ENST00000489749.1_1_2:7018228-7023923:+|nuORF;ENSG00000134321|ENST00000382040|RSAD2 ENST00000489749.1_1_2:7018228-7023923:+|nuORF ENST00000489749.1_1_2:7018228-7023923:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.8291625976562 2 562.826766 1123.63898 3.3868 0.0019062 -0.11474 -6.4578E-05 3.2721 0.0018416 562.8265229684774 53.225 0.28438 53.889 53.762 54.047 0.6644 30 11 3 0 0 0 0.0020335 2 24378 24330;24378 126.57 84.471 1 1673300 5851 8383 3847 3859 6476;6477 6477 0.08210595265359188 EYLIVFPKL 9 Unmodified _EYLIVFPKL_ 0 0 0 ENSG00000198060|ENST00000358935|MARCHF5 ENSG00000198060|ENST00000358935|MARCHF5 ENSG00000198060|ENST00000358935|MARCHF5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.3361206054688 2 561.333893 1120.65323 3.6594 0.0020542 0.46971 0.00026366 4.1291 0.0023178 561.3340007117179 85.582 0.37874 85.831 85.659 86.038 0.24857 39 15 3 0 0 0 0.015098 2 39375 39375;39435 74.929 74.929 1 2124000 5852 5864 3848 3860 6478;6479 6478 0.09773247693647136 EYLIVFPKL 9 Unmodified _EYLIVFPKL_ 0 0 0 ENSG00000198060|ENST00000358935|MARCHF5 ENSG00000198060|ENST00000358935|MARCHF5 ENSG00000198060|ENST00000358935|MARCHF5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.3359375 2 561.333893 1120.65323 3.6891 0.0020708 0.19668 0.0001104 3.8858 0.0021812 561.3337036127741 84.99 0.37689 85.655 85.441 85.818 0.66566 46 17 4 0 0 0 0.020151 2 39115 39115;39172 68.081 68.081 1 1981800 5853 5864 3848 3860 6480;6481 6480 0.09773247693647136 EYLLKVNEI 9 Unmodified _EYLLKVNEI_ 0 0 0 nc|ENSG00000151693|O43150-2|ASAP2;ENSG00000151693|ENST00000281419|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.8180541992188 2 560.816064 1119.61758 3.1957 0.0017922 -0.62753 -0.00035193 2.5682 0.0014403 560.8155884192901 60.62 0.1699 60.62 60.583 60.753 0 51 20 3 0 0 0 1.5885E-05 1 28216 28216 145.13 0 1 12477000 5854 3724 3849 3861 6482 6482 0.06255165445986677 EYLLKVNEI 9 Unmodified _EYLLKVNEI_ 0 0 0 nc|ENSG00000151693|O43150-2|ASAP2;ENSG00000151693|ENST00000281419|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.8184814453125 2 560.816064 1119.61758 3.1698 0.0017776 0.31741 0.00017801 3.4872 0.0019557 560.8164006387283 61.031 0.22096 61.031 60.936 61.157 0 54 22 3 0 0 0 0.0013314 1 28412 28412 118.07 0 1 5168000 5855 3724 3849 3861 6483 6483 0.06255165445986677 EYLLKVNEI 9 Unmodified _EYLLKVNEI_ 0 0 0 nc|ENSG00000151693|O43150-2|ASAP2;ENSG00000151693|ENST00000281419|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.818115234375 2 560.816064 1119.61758 2.9944 0.0016793 0.2297 0.00012882 3.2241 0.0018081 560.8161311668555 59.686 0.32894 60.435 60.233 60.562 0.74927 74 25 4 0 0 0 4.5982E-22 3 27368 27368;27413;27457 189.73 0 1 5104900 5856 3724 3849 3861 6484;6485;6486 6484 0.06255165445986677 EYLLKVNEI 9 Unmodified _EYLLKVNEI_ 0 0 0 nc|ENSG00000151693|O43150-2|ASAP2;ENSG00000151693|ENST00000281419|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.8169555664062 2 560.816064 1119.61758 3.592 0.0020144 -0.64822 -0.00036353 2.9438 0.0016509 560.8156571235322 60.513 0.26684 60.769 60.602 60.869 0.25578 51 28 2 0 0 0 3.7615999999999996E-21 2 27704 27659;27704 181.69 0 1 7054700 5857 3724 3849 3861 6487;6488 6488 0.06255165445986677 EYLLKVNEI 9 Unmodified _EYLLKVNEI_ 0 0 0 nc|ENSG00000151693|O43150-2|ASAP2;ENSG00000151693|ENST00000281419|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.8182983398438 2 560.816064 1119.61758 3.5838 0.0020099 0.083229 4.6676E-05 3.667 0.0020565 560.816307972172 60.978 0.32787 61.234 61.059 61.387 0.25578 35 13 4 0 0 0 1.4684E-06 2 27896 27896;27953 149.91 0 1 1547700 5858 3724 3849 3861 6489;6490 6489 0.06255165445986677 EYLLKVNEI 9 Unmodified _EYLLKVNEI_ 0 0 0 nc|ENSG00000151693|O43150-2|ASAP2;ENSG00000151693|ENST00000281419|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.8175659179688 2 560.816064 1119.61758 NaN NaN NaN NaN NaN NaN NaN 60.625 1 60.881 60.381 61.381 0.25578 0 0 0 0.021399 1 27764 27764 71.134 0 1 5859 3724 3849 3861 6491 6491 0.06255165445986677 EYLLKVNEI 9 Unmodified _EYLLKVNEI_ 0 0 0 nc|ENSG00000151693|O43150-2|ASAP2;ENSG00000151693|ENST00000281419|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.8179321289062 2 560.816064 1119.61758 3.5593 0.0019961 -0.030388 -1.7042E-05 3.5289 0.0019791 560.8160488168636 59.961 0.25847 60.627 60.441 60.7 0.66503 39 20 3 0 0 0 4.7953E-21 2 27443 27394;27443 179.17 0 1 5146700 5860 3724 3849 3861 6492;6493 6493 0.06255165445986677 EYLLKVNEI 9 Unmodified _EYLLKVNEI_ 0 0 0 nc|ENSG00000151693|O43150-2|ASAP2;ENSG00000151693|ENST00000281419|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.81787109375 2 560.816064 1119.61758 3.5636 0.0019985 0.46451 0.0002605 4.0281 0.002259 560.8164833397896 60.353 0.29879 61.019 60.874 61.173 0.66503 37 14 3 0 0 0 1.5885E-05 2 27617 27617;27672 145.13 0 1 2004600 5861 3724 3849 3861 6494;6495 6494 0.06255165445986677 EYLRFLQTI 9 Unmodified _EYLRFLQTI_ 0 0 0 ENSG00000123104|ENST00000381340|ITPR2 ENSG00000123104|ENST00000381340|ITPR2 ENSG00000123104|ENST00000381340|ITPR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.831298828125 2 591.829506 1181.64446 2.8549 0.0016896 0.39061 0.00023118 3.2455 0.0019208 592.3306256418938 75.896 0.2224 75.896 75.765 75.987 0 20 16 2 0 0 0 0.0014317 1 37190 37190 110.55 54.376 1 1080600 5862 2293 3850 3862 6496 6496 0.06090274057191891 EYLSRHWLF 9 Unmodified _EYLSRHWLF_ 0 0 0 GGCX|p.D614Wfs*7|1|0.08|ENSG00000115486|chr2:85550970-85550973|GGTC/-|frameshift_variant;nc|ENSG00000115486|P38435-2|GGCX;ENSG00000115486|ENST00000233838|GGCX;ENST00000423570.5_1_2:85782605-85785723:-|nuORF GGCX|p.D614Wfs*7|1|0.08|ENSG00000115486|chr2:85550970-85550973|GGTC/-|frameshift_variant GGCX|p.D614Wfs*7|1|0.08|ENSG00000115486|chr2:85550970-85550973|GGTC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 417.5492858886719 3 417.548741 1249.62439 2.791 0.0011654 0.012354 5.1586E-06 2.8033 0.0011705 417.54864310150634 63.19 0.26965 63.44 63.302 63.571 0.24965 33 16 3 0 0 0 0.26277 1 28938 28938 23.79 17.166 1 926030 5863 1973 3851 3863 6497 6497 0.009565231172246058 EYLSRHWLF 9 Unmodified _EYLSRHWLF_ 0 0 0 GGCX|p.D614Wfs*7|1|0.08|ENSG00000115486|chr2:85550970-85550973|GGTC/-|frameshift_variant;nc|ENSG00000115486|P38435-2|GGCX;ENSG00000115486|ENST00000233838|GGCX;ENST00000423570.5_1_2:85782605-85785723:-|nuORF GGCX|p.D614Wfs*7|1|0.08|ENSG00000115486|chr2:85550970-85550973|GGTC/-|frameshift_variant GGCX|p.D614Wfs*7|1|0.08|ENSG00000115486|chr2:85550970-85550973|GGTC/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 417.548741 1249.62439 2.7963 0.0011676 0.28254 0.00011797 3.0788 0.0012856 417.54868050925796 62.587 0.23669 63.246 63.146 63.383 0.65929 -0.096779 0.00019346 NaN 23.79 24 13 2 NaN NaN NaN NaN 0 NaN NaN 0 935730 5864 1973 3851 3863 0.009565231172246058 EYLTKVDKL 9 Unmodified _EYLTKVDKL_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.81787109375 2 554.816064 1107.61758 3.472 0.0019263 0.072942 4.0469E-05 3.545 0.0019668 554.8160773823979 36.311 0.36963 36.311 36.117 36.487 0 59 16 5 0 0 0 6.2995E-15 3 16432 16432;16494;16547 176.43 87.473 1 11753000 5865 3246 3852 3864 6498;6499;6500 6498 0.06807165446002728 EYLTKVDKL 9 Unmodified _EYLTKVDKL_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 370.21429443359375 3 370.213135 1107.61758 2.71 0.0010033 0.085638 3.1704E-05 2.7956 0.001035 370.21317815019216 36.307 0.42667 36.307 36.105 36.532 0 65 19 5 0 0 0 0.024388 2 16453 16453;16502 49.527 25.726 1 16214000 5866 3246 3852 3864 6501;6502 6501 0.06807165446002728 EYLTKVDKL 9 Unmodified _EYLTKVDKL_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.8179931640625 2 554.816064 1107.61758 3.3786 0.0018745 0.17262 9.5771E-05 3.5512 0.0019703 554.816129099181 35.39 0.32273 36.182 36.02 36.342 0.79131 63 19 4 0 0 0 4.7502E-21 3 16024 15980;16024;16069 179.28 96.754 1 9992400 5867 3246 3852 3864 6503;6504;6505 6504 0.06807165446002728 EYLTKVDKL 9 Unmodified _EYLTKVDKL_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 370.2140197753906 3 370.213135 1107.61758 2.4974 0.00092457 0.16333 6.0468E-05 2.6607 0.00098504 370.2131740488847 35.39 0.35579 36.182 36.003 36.359 0.79131 70 21 4 0 0 0 0.017293 2 16018 16018;16067 57.249 27.812 1 12925000 5868 3246 3852 3864 6506;6507 6506 0.06807165446002728 EYLTKVDKL 9 Unmodified _EYLTKVDKL_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.81787109375 2 554.816064 1107.61758 3.5352 0.0019614 0.027962 1.5514E-05 3.5632 0.0019769 554.8160522503844 36.221 0.3898 36.478 36.284 36.673 0.25768 50 16 4 0 0 0 4.7502E-21 3 16504 16450;16504;16564 179.28 96.754 1 5928900 5869 3246 3852 3864 6508;6509;6510 6509 0.06807165446002728 EYLTKVDKL 9 Unmodified _EYLTKVDKL_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 370.2142028808594 3 370.213135 1107.61758 2.6748 0.00099024 0.055566 2.0571E-05 2.7304 0.0010108 370.2131513876042 36.227 0.43585 36.484 36.284 36.719 0.25768 62 18 4 0 0 0 0.017293 2 16525 16481;16525 57.249 27.812 1 9311400 5870 3246 3852 3864 6511;6512 6512 0.06807165446002728 EYLTKVDKL 9 Unmodified _EYLTKVDKL_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.8176879882812 2 554.816064 1107.61758 3.601 0.0019979 0.013492 7.4855E-06 3.6145 0.0020054 554.816011055661 35.698 0.35868 36.325 36.133 36.491 0.62631 43 13 4 0 0 0 4.7502E-21 2 16320 16320;16378 179.28 96.754 1 8920600 5871 3246 3852 3864 6513;6514 6513 0.06807165446002728 EYLTKVDKL 9 Unmodified _EYLTKVDKL_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 370.2140808105469 3 370.213135 1107.61758 2.7132 0.0010044 0.029953 1.1089E-05 2.7431 0.0010155 370.2131026457199 35.691 0.35868 36.317 36.133 36.491 0.62631 43 13 4 0 0 0 0.010018 2 16334 16334;16391 65.474 29.861 1 9656600 5872 3246 3852 3864 6515;6516 6515 0.06807165446002728 EYLTYSLKL 9 Unmodified _EYLTYSLKL_ 0 0 0 ENSG00000117228|ENST00000370473|GBP1;ENST00000459831.1_1_1:89524386-89525013:-|nuORF ENSG00000117228|ENST00000370473|GBP1 ENSG00000117228|ENST00000370473|GBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 565.3134155273438 2 565.310615 1128.60668 3.8079 0.0021526 2.8823 0.0016294 6.6902 0.003782 565.3112941929119 67.55 0.19366 67.801 67.682 67.875 0.2501 22 8 3 0 0 0 0.025529 1 30944 30944 75.761 35.804 1 1252200 5873 2064 3853 3865 6517 6517 0.04751763071703863 EYLVIILIQI 10 Unmodified _EYLVIILIQI_ 0 0 0 ENST00000519289.1_1_8:67716646-67726114:+|nuORF ENST00000519289.1_1_8:67716646-67726114:+|nuORF ENST00000519289.1_1_8:67716646-67726114:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.2554626464844 3 406.256564 1215.74786 NaN NaN NaN NaN NaN NaN NaN 84.872 1 85.538 85.038 86.038 0.66566 0 0 0 0.99976 1 39089 39089 1.9064 1.2087 1 5874 8622 3854 3866 6518 6518 0.14861761445013144 EYLWDFHKYRH 11 Unmodified _EYLWDFHKYRH_ 0 0 0 REV__ENSG00000130340|ENST00000392185|SNX9 REV__ENSG00000130340|ENST00000392185|SNX9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 797.732177734375 2 797.3835 1592.75245 NaN NaN NaN NaN NaN NaN NaN 83.232 1 83.277 82.777 83.777 0.045006 0 0 0 1.008 1 41258 41258 0.35063 0 1 + 5875 11814 3855 3867 6519 6519 -0.020219613595600094 EYLWDFHKYRH 11 Unmodified _EYLWDFHKYRH_ 0 0 0 REV__ENSG00000130340|ENST00000392185|SNX9 REV__ENSG00000130340|ENST00000392185|SNX9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 797.383056640625 2 797.3835 1592.75245 NaN NaN NaN NaN NaN NaN NaN 96.722 1 97 96.5 97.5 0.27778 0 0 0 1.008 1 44438 44438 0.35063 0 1 + 5876 11814 3855 3867 6520 6520 -0.020219613595600094 EYMEHVYLI 9 Unmodified _EYMEHVYLI_ 0 0 0 nc|ENSG00000130703|Q9H1P3-2|OSBPL2;ENSG00000130703|ENST00000313733|OSBPL2 nc|ENSG00000130703|Q9H1P3-2|OSBPL2 nc|ENSG00000130703|Q9H1P3-2|OSBPL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 598.7886962890625 2 598.78645 1195.55835 2.8032 0.0016785 0.091732 5.4928E-05 2.8949 0.0017334 598.7861626438505 65.753 0.24104 65.753 65.607 65.848 0 49 28 2 0 0 0 0.0061269 1 31327 31327 89.427 53.3 1 3201100 5877 2609 3856 3868 6521 6521 -0.03161053839835404 EYMEHVYLI 9 Unmodified _EYMEHVYLI_ 0 0 0 nc|ENSG00000130703|Q9H1P3-2|OSBPL2;ENSG00000130703|ENST00000313733|OSBPL2 nc|ENSG00000130703|Q9H1P3-2|OSBPL2 nc|ENSG00000130703|Q9H1P3-2|OSBPL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 598.7882080078125 2 598.78645 1195.55835 2.9048 0.0017394 0.21035 0.00012595 3.1152 0.0018653 598.7864239871782 64.606 0.2209 65.321 65.201 65.422 0.71522 45 24 2 0 0 0 0.0061269 2 30447 30401;30447 89.427 53.3 1 2436900 5878 2609 3856 3868 6522;6523 6523 -0.03161053839835404 EYMEHVYLI 9 Unmodified _EYMEHVYLI_ 0 0 0 nc|ENSG00000130703|Q9H1P3-2|OSBPL2;ENSG00000130703|ENST00000313733|OSBPL2 nc|ENSG00000130703|Q9H1P3-2|OSBPL2 nc|ENSG00000130703|Q9H1P3-2|OSBPL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.7877807617188 2 598.78645 1195.55835 3.8656 0.0023147 -0.8711 -0.0005216 2.9945 0.0017931 598.7859966781521 65.554 0.31389 65.803 65.588 65.902 0.24848 35 14 3 0 0 0 0.0026885 1 30041 30041 97.075 68.588 1 1658100 5879 2609 3856 3868 6524 6524 -0.03161053839835404 EYMEHVYLI 9 Unmodified _EYMEHVYLI_ 0 0 0 nc|ENSG00000130703|Q9H1P3-2|OSBPL2;ENSG00000130703|ENST00000313733|OSBPL2 nc|ENSG00000130703|Q9H1P3-2|OSBPL2 nc|ENSG00000130703|Q9H1P3-2|OSBPL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 598.7886352539062 2 598.78645 1195.55835 4.084 0.0024454 -0.44172 -0.0002645 3.6422 0.0021809 598.7864079330938 64.895 0.49499 65.551 65.21 65.705 0.65672 53 27 3 0 0 0 0.00147 2 29766 29721;29766 109.63 81.142 1 1763900 5880 2609 3856 3868 6525;6526 6526 -0.03161053839835404 EYMEHVYLI 9 Unmodified _EYMEHVYLI_ 0 0 0 nc|ENSG00000130703|Q9H1P3-2|OSBPL2;ENSG00000130703|ENST00000313733|OSBPL2 nc|ENSG00000130703|Q9H1P3-2|OSBPL2 nc|ENSG00000130703|Q9H1P3-2|OSBPL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 598.7890625 2 598.78645 1195.55835 NaN NaN NaN NaN NaN NaN NaN 65.03 1 65.687 65.187 66.187 0.65672 0 0 0 0.11902 1 29813 29813 38.151 14.131 1 5881 2609 3856 3868 6527 6527 -0.03161053839835404 EYMEVRERI 9 Unmodified _EYMEVRERI_ 0 0 0 ENSG00000086598|ENST00000262225|TMED2 ENSG00000086598|ENST00000262225|TMED2 ENSG00000086598|ENST00000262225|TMED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 408.87396240234375 3 408.872895 1223.59686 2.4007 0.00098157 0.46662 0.00019079 2.8673 0.0011724 408.8730984705375 34.212 0.21524 34.212 34.074 34.29 0 20 12 2 0 0 0 0.093314 1 15505 15505 32.037 11.457 1 2175300 5882 985 3857 3869 6528 6528 -0.005997482053089698 EYMEVRERI 9 Unmodified _EYMEVRERI_ 0 0 0 ENSG00000086598|ENST00000262225|TMED2 ENSG00000086598|ENST00000262225|TMED2 ENSG00000086598|ENST00000262225|TMED2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 612.8059692382812 2 612.805705 1223.59686 NaN NaN NaN NaN NaN NaN NaN 34.164 1 34.164 33.664 34.664 0 0 0 0 0.024551 1 15483 15483 65.474 23.634 1 5883 985 3857 3869 6529 6529 -0.005997482053089698 EYMEVRERI 9 Unmodified _EYMEVRERI_ 0 0 0 ENSG00000086598|ENST00000262225|TMED2 ENSG00000086598|ENST00000262225|TMED2 ENSG00000086598|ENST00000262225|TMED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 612.80810546875 2 612.805705 1223.59686 2.9826 0.0018277 0.98345 0.00060266 3.966 0.0024304 612.8063274598127 33.189 0.29237 33.977 33.829 34.122 0.78795 43 19 3 0 0 0 0.017449 2 15024 14984;15024 71.708 25.534 1 1182400 5884 985 3857 3869 6530;6531 6531 -0.005997482053089698 EYMEVRERI 9 Unmodified _EYMEVRERI_ 0 0 0 ENSG00000086598|ENST00000262225|TMED2 ENSG00000086598|ENST00000262225|TMED2 ENSG00000086598|ENST00000262225|TMED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 408.8742370605469 3 408.872895 1223.59686 2.3338 0.00095424 0.81255 0.00033223 3.1464 0.0012865 408.8732945295723 33.194 0.22211 33.982 33.852 34.074 0.78795 38 15 3 0 0 0 0.17594 1 14997 14997 18.721 8.406 1 752140 5885 985 3857 3869 6532 6532 -0.005997482053089698 EYMEVRERI 9 Unmodified _EYMEVRERI_ 0 0 0 ENSG00000086598|ENST00000262225|TMED2 ENSG00000086598|ENST00000262225|TMED2 ENSG00000086598|ENST00000262225|TMED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 408.8740234375 3 408.872895 1223.59686 2.9728 0.0012155 -0.40289 -0.00016473 2.5699 0.0010508 408.87300527433223 34.177 0.16629 34.431 34.365 34.532 0.25389 12 7 2 0 0 0 0.10584 1 15569 15569 23.801 9.5829 1 1922100 5886 985 3857 3869 6533 6533 -0.005997482053089698 EYMEVRERI 9 Unmodified _EYMEVRERI_ 0 0 0 ENSG00000086598|ENST00000262225|TMED2 ENSG00000086598|ENST00000262225|TMED2 ENSG00000086598|ENST00000262225|TMED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 612.80712890625 2 612.805705 1223.59686 3.3917 0.0020785 0.76166 0.00046675 4.1534 0.0025452 612.8057345934826 33.698 0.27037 34.318 34.137 34.407 0.62031 16 10 2 0 0 0 0.72052 1 15411 15411 8.7454 1.6437 1 340260 5887 985 3857 3869 6534 6534 -0.005997482053089698 EYMEVRERI 9 Unmodified _EYMEVRERI_ 0 0 0 ENSG00000086598|ENST00000262225|TMED2 ENSG00000086598|ENST00000262225|TMED2 ENSG00000086598|ENST00000262225|TMED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 408.8737487792969 3 408.872895 1223.59686 2.8291 0.0011567 0.45023 0.00018409 3.2793 0.0013408 408.87299530828824 33.708 0.31104 34.328 34.137 34.448 0.62032 28 13 3 0 0 0 0.17594 1 15434 15434 18.721 4.5031 1 877000 5888 985 3857 3869 6535 6535 -0.005997482053089698 EYMKALGVGF 10 Unmodified _EYMKALGVGF_ 0 0 0 ENSG00000164434|ENST00000368444|FABP7;nc|ENSG00000164434|O15540-2|FABP7 ENSG00000164434|ENST00000368444|FABP7 ENSG00000164434|ENST00000368444|FABP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.7857666015625 2 557.78371 1113.55287 3.4847 0.0019437 -0.90652 -0.00050564 2.5782 0.0014381 557.783478555715 64.453 0.18493 64.701 64.561 64.746 0.24803 21 11 3 0 0 0 0.0019801 1 29512 29512 99.755 67.45 1 2064900 5889 4315 3858 3870 6536 6536 0.0006326736836399505 EYMKALGVGF 10 Unmodified _EYMKALGVGF_ 0 0 0 ENSG00000164434|ENST00000368444|FABP7;nc|ENSG00000164434|O15540-2|FABP7 ENSG00000164434|ENST00000368444|FABP7 ENSG00000164434|ENST00000368444|FABP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.7853393554688 2 557.78371 1113.55287 3.5475 0.0019787 -0.073136 -4.0794E-05 3.4743 0.0019379 557.7836513406897 63.876 0.26561 64.533 64.384 64.65 0.65672 40 16 3 0 0 0 0.0019801 2 29254 29254;29323 99.755 67.45 1 1348300 5890 4315 3858 3870 6537;6538 6537 0.0006326736836399505 EYMKALGVGF 10 Unmodified _EYMKALGVGF_ 0 0 0 ENSG00000164434|ENST00000368444|FABP7;nc|ENSG00000164434|O15540-2|FABP7 ENSG00000164434|ENST00000368444|FABP7 ENSG00000164434|ENST00000368444|FABP7 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 557.78371 1113.55287 2.9433 0.0016417 1.3215 0.00073712 4.2649 0.0023789 557.7841846193074 64.702 0.073479 64.702 64.661 64.734 0 0.056733 0.0014924 NaN 99.755 15 12 2 NaN NaN NaN NaN 0 NaN NaN 0 6741400 5891 4315 3858 3870 0.0006326736836399505 EYMKHTRLF 9 Unmodified _EYMKHTRLF_ 0 0 0 ENST00000465046.1_1_17:18149056-18149185:-|nuORF;ENST00000487369.5_1_17:18148865-18149298:-|nuORF;nc|ENSG00000177731|Q13045-2|FLII;nc|ENSG00000177731|Q13045-3|FLII;ENST00000578101.5_1_17:18148454-18160363:-|nuORF;ENSG00000177731|ENST00000327031|FLII ENST00000465046.1_1_17:18149056-18149185:-|nuORF ENST00000465046.1_1_17:18149056-18149185:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 408.8793029785156 3 408.877981 1223.61211 2.9542 0.0012079 -0.469 -0.00019176 2.4852 0.0010161 408.8779154644545 29.894 0.3619 29.894 29.713 30.075 0 109 28 5 0 0 0 0.0020727 1 13473 13473 85.764 69.615 1 8919900 5892 5135 3859 3871 6539 6539 0.009251633825215322 EYMKHTRLF 9 Unmodified _EYMKHTRLF_ 0 0 0 ENST00000465046.1_1_17:18149056-18149185:-|nuORF;ENST00000487369.5_1_17:18148865-18149298:-|nuORF;nc|ENSG00000177731|Q13045-2|FLII;nc|ENSG00000177731|Q13045-3|FLII;ENST00000578101.5_1_17:18148454-18160363:-|nuORF;ENSG00000177731|ENST00000327031|FLII ENST00000465046.1_1_17:18149056-18149185:-|nuORF ENST00000465046.1_1_17:18149056-18149185:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 612.8167724609375 2 612.813333 1223.61211 3.9313 0.0024092 0.21702 0.000133 4.1484 0.0025422 612.8133549478063 29.908 0.24326 29.908 29.758 30.001 0 34 19 2 0 0 0 0.030603 1 13492 13492 55.503 38.56 1 649110 5893 5135 3859 3871 6540 6540 0.009251633825215322 EYMKHTRLF 9 Unmodified _EYMKHTRLF_ 0 0 0 ENST00000465046.1_1_17:18149056-18149185:-|nuORF;ENST00000487369.5_1_17:18148865-18149298:-|nuORF;nc|ENSG00000177731|Q13045-2|FLII;nc|ENSG00000177731|Q13045-3|FLII;ENST00000578101.5_1_17:18148454-18160363:-|nuORF;ENSG00000177731|ENST00000327031|FLII ENST00000465046.1_1_17:18149056-18149185:-|nuORF ENST00000465046.1_1_17:18149056-18149185:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 408.87921142578125 3 408.877981 1223.61211 2.7726 0.0011336 -0.25697 -0.00010507 2.5156 0.0010286 408.87800231816743 28.729 0.50459 29.519 29.346 29.851 0.78921 156 41 5 0 0 0 0.0010698 5 12977 12892;12937;12977;13025;13077 104.48 82.947 1 5732300 5894 5135 3859 3871 6541;6542;6543;6544;6545 6543 0.009251633825215322 EYMKHTRLF 9 Unmodified _EYMKHTRLF_ 0 0 0 ENST00000465046.1_1_17:18149056-18149185:-|nuORF;ENST00000487369.5_1_17:18148865-18149298:-|nuORF;nc|ENSG00000177731|Q13045-2|FLII;nc|ENSG00000177731|Q13045-3|FLII;ENST00000578101.5_1_17:18148454-18160363:-|nuORF;ENSG00000177731|ENST00000327031|FLII ENST00000465046.1_1_17:18149056-18149185:-|nuORF ENST00000465046.1_1_17:18149056-18149185:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 612.8162841796875 2 612.813333 1223.61211 3.4216 0.0020968 -0.95807 -0.00058712 2.4635 0.0015097 612.8133072322678 28.694 0.26658 29.484 29.389 29.655 0.78921 45 22 3 0 0 0 0.14214 2 12933 12933;12987 27.223 10.281 1 328770 5895 5135 3859 3871 6546;6547 6546 0.009251633825215322 EYMKHTRLF 9 Unmodified _EYMKHTRLF_ 0 0 0 ENST00000465046.1_1_17:18149056-18149185:-|nuORF;ENST00000487369.5_1_17:18148865-18149298:-|nuORF;nc|ENSG00000177731|Q13045-2|FLII;nc|ENSG00000177731|Q13045-3|FLII;ENST00000578101.5_1_17:18148454-18160363:-|nuORF;ENSG00000177731|ENST00000327031|FLII ENST00000465046.1_1_17:18149056-18149185:-|nuORF ENST00000465046.1_1_17:18149056-18149185:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 612.8154296875 2 612.813333 1223.61211 3.7216 0.0022806 0.021404 1.3117E-05 3.743 0.0022938 612.8135932479556 29.557 0.28347 29.815 29.672 29.956 0.25804 26 19 2 0 0 0 0.33646 1 13463 13463 15.248 7.3383 1 239250 5896 5135 3859 3871 6548 6548 0.009251633825215322 EYMKHTRLF 9 Unmodified _EYMKHTRLF_ 0 0 0 ENST00000465046.1_1_17:18149056-18149185:-|nuORF;ENST00000487369.5_1_17:18148865-18149298:-|nuORF;nc|ENSG00000177731|Q13045-2|FLII;nc|ENSG00000177731|Q13045-3|FLII;ENST00000578101.5_1_17:18148454-18160363:-|nuORF;ENSG00000177731|ENST00000327031|FLII ENST00000465046.1_1_17:18149056-18149185:-|nuORF ENST00000465046.1_1_17:18149056-18149185:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 408.8791198730469 3 408.877981 1223.61211 2.9536 0.0012077 -0.71706 -0.00029319 2.2365 0.00091446 408.87786644443344 29.245 0.42668 29.863 29.675 30.102 0.61789 104 30 5 0 0 0 0.0061394 2 13407 13362;13407 73.196 58.439 1 3212600 5897 5135 3859 3871 6549;6550 6550 0.009251633825215322 EYMKHTRLF 9 Unmodified _EYMKHTRLF_ 0 0 0 ENST00000465046.1_1_17:18149056-18149185:-|nuORF;ENST00000487369.5_1_17:18148865-18149298:-|nuORF;nc|ENSG00000177731|Q13045-2|FLII;nc|ENSG00000177731|Q13045-3|FLII;ENST00000578101.5_1_17:18148454-18160363:-|nuORF;ENSG00000177731|ENST00000327031|FLII ENST00000465046.1_1_17:18149056-18149185:-|nuORF ENST00000465046.1_1_17:18149056-18149185:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 613.3173217773438 2 612.813333 1223.61211 3.5169 0.0021552 0.26702 0.00016363 3.784 0.0023189 612.8136922465709 29.254 0.23519 29.872 29.756 29.991 0.61789 28 17 2 0 0 0 0.26118 1 13397 13397 19.362 7.7216 1 236980 5898 5135 3859 3871 6551 6551 0.009251633825215322 EYMKHTRLF 9 Unmodified _EYMKHTRLF_ 0 0 0 ENST00000465046.1_1_17:18149056-18149185:-|nuORF;ENST00000487369.5_1_17:18148865-18149298:-|nuORF;nc|ENSG00000177731|Q13045-2|FLII;nc|ENSG00000177731|Q13045-3|FLII;ENST00000578101.5_1_17:18148454-18160363:-|nuORF;ENSG00000177731|ENST00000327031|FLII ENST00000465046.1_1_17:18149056-18149185:-|nuORF ENST00000465046.1_1_17:18149056-18149185:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 612.81494140625 2 612.813333 1223.61211 NaN NaN NaN NaN NaN NaN NaN 29.345 1 29.963 29.463 30.463 0.61789 0 0 0 0.73102 1 13458 13458 11.495 3.5846 1 5899 5135 3859 3871 6552 6552 0.009251633825215322 EYMKHTRLF 9 Unmodified _EYMKHTRLF_ 0 0 0 ENST00000465046.1_1_17:18149056-18149185:-|nuORF;ENST00000487369.5_1_17:18148865-18149298:-|nuORF;nc|ENSG00000177731|Q13045-2|FLII;nc|ENSG00000177731|Q13045-3|FLII;ENST00000578101.5_1_17:18148454-18160363:-|nuORF;ENSG00000177731|ENST00000327031|FLII ENST00000465046.1_1_17:18149056-18149185:-|nuORF ENST00000465046.1_1_17:18149056-18149185:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 408.877981 1223.61211 3.1314 0.0012804 -0.59866 -0.00024478 2.5327 0.0010356 408.8778601481035 29.555 0.41708 29.813 29.595 30.012 0.25804 0.041343 -0.00013645 NaN 104.48 97 29 4 NaN NaN NaN NaN 0 NaN NaN 0 2906100 5900 5135 3859 3871 0.009251633825215322 EYMLEKSFYQF 11 Unmodified _EYMLEKSFYQF_ 0 0 0 ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 742.8447875976562 2 742.841953 1483.66935 NaN NaN NaN NaN NaN NaN NaN 72.864 1 73.563 73.063 74.063 0.69881 0 0 0 0.16981 1 35106 35106 38.615 31.513 1 5901 524 3860 3872 6553 6553 -0.05313458922410064 EYMRNFSDL 9 Unmodified _EYMRNFSDL_ 0 0 0 nc|ENSG00000138032|O75688-4|PPM1B;nc|ENSG00000138032|O75688-2|PPM1B;ENSG00000138032|ENST00000282412|PPM1B;nc|ENSG00000138032|O75688-5|PPM1B;ENST00000409486.6_1_2:44428329-44436483:+|nuORF nc|ENSG00000138032|O75688-4|PPM1B nc|ENSG00000138032|O75688-4|PPM1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.7631225585938 2 587.763506 1173.51246 3.4768 0.0020435 -0.88429 -0.00051976 2.5925 0.0015238 587.7632949647747 52.03 0.24481 52.03 51.899 52.144 0 30 16 3 0 0 0 0.0090098 2 23811 23796;23811 83.429 35.68 1 718200 5902 3063 3861 3873 6554;6555 6555 -0.06735699022055996 EYMRNFSDL 9 Unmodified _EYMRNFSDL_ 0 0 0 nc|ENSG00000138032|O75688-4|PPM1B;nc|ENSG00000138032|O75688-2|PPM1B;ENSG00000138032|ENST00000282412|PPM1B;nc|ENSG00000138032|O75688-5|PPM1B;ENST00000409486.6_1_2:44428329-44436483:+|nuORF nc|ENSG00000138032|O75688-4|PPM1B nc|ENSG00000138032|O75688-4|PPM1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.2671508789062 2 587.763506 1173.51246 2.9947 0.0017602 0.25858 0.00015198 3.2533 0.0019122 587.7636174765995 50.99 0.2165 51.808 51.703 51.92 0.81738 21 12 2 0 0 0 0.0061394 1 23223 23223 89.401 41.652 1 1395100 5903 3063 3861 3873 6556 6556 -0.06735699022055996 EYMRNFSDL 9 Unmodified _EYMRNFSDL_ 0 0 0 nc|ENSG00000138032|O75688-4|PPM1B;nc|ENSG00000138032|O75688-2|PPM1B;ENSG00000138032|ENST00000282412|PPM1B;nc|ENSG00000138032|O75688-5|PPM1B;ENST00000409486.6_1_2:44428329-44436483:+|nuORF nc|ENSG00000138032|O75688-4|PPM1B nc|ENSG00000138032|O75688-4|PPM1B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 587.763506 1173.51246 3.3907 0.0019929 0.85706 0.00050375 4.2477 0.0024967 587.7642084672207 51.375 0.15424 52.035 52.001 52.156 0.65956 0.077328 0.00087227 NaN 89.401 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 214850 5904 3063 3861 3873 -0.06735699022055996 EYNKSWQTF 9 Unmodified _EYNKSWQTF_ 0 0 0 ENSG00000198440|ENST00000333201|ZNF583 ENSG00000198440|ENST00000333201|ZNF583 ENSG00000198440|ENST00000333201|ZNF583 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.2820434570312 2 601.77747 1201.54039 3.3514 0.0020168 0.15143 9.113E-05 3.5028 0.0021079 601.7775515526815 44.237 0.26263 45.058 44.887 45.149 0.82075 23 14 2 0 0 0 0.54955 2 20116 20074;20116 11.64 3.7301 1 397330 5905 5890 3862 3874 6557;6558 6558 -0.05232052770338669 EYNNIQHLF 9 Unmodified _EYNNIQHLF_ 0 0 0 ENSG00000164342|ENST00000296795|TLR3;nc|ENSG00000164342|O15455-2|TLR3 ENSG00000164342|ENST00000296795|TLR3 ENSG00000164342|ENST00000296795|TLR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.2885131835938 2 589.285463 1176.55637 3.4077 0.0020081 1.603 0.0009446 5.0106 0.0029527 589.2864535241981 58.742 0.25989 58.742 58.564 58.824 0 30 22 2 0 0 0 0.023109 2 27135 27095;27135 64.236 34.99 1 1663500 5906 4308 3863 3875 6559;6560 6560 -0.024843465334242865 EYNNIQHLF 9 Unmodified _EYNNIQHLF_ 0 0 0 ENSG00000164342|ENST00000296795|TLR3;nc|ENSG00000164342|O15455-2|TLR3 ENSG00000164342|ENST00000296795|TLR3 ENSG00000164342|ENST00000296795|TLR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.2880859375 2 589.285463 1176.55637 3.1141 0.0018351 0.49339 0.00029075 3.6075 0.0021259 589.2852340469643 57.566 0.14984 58.335 58.259 58.409 0.76861 19 10 3 0 0 0 0.062556 1 26382 26382 42.095 18.946 1 1604800 5907 4308 3863 3875 6561 6561 -0.024843465334242865 EYNNIQHLF 9 Unmodified _EYNNIQHLF_ 0 0 0 ENSG00000164342|ENST00000296795|TLR3;nc|ENSG00000164342|O15455-2|TLR3 ENSG00000164342|ENST00000296795|TLR3 ENSG00000164342|ENST00000296795|TLR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.2872314453125 2 589.285463 1176.55637 3.5386 0.0020852 0.33333 0.00019642 3.8719 0.0022817 589.2854380158261 58.484 0.1023 58.746 58.711 58.814 0.26228 29 20 2 0 0 0 1.2253E-06 2 26781 26781;26786 149.99 101.65 1 5887900 5908 4308 3863 3875 6562;6563 6562 -0.024843465334242865 EYNNIQHLF 9 Unmodified _EYNNIQHLF_ 0 0 0 ENSG00000164342|ENST00000296795|TLR3;nc|ENSG00000164342|O15455-2|TLR3 ENSG00000164342|ENST00000296795|TLR3 ENSG00000164342|ENST00000296795|TLR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.2874145507812 2 589.285463 1176.55637 3.7049 0.0021832 -0.15331 -9.0345E-05 3.5516 0.0020929 589.2852560808454 57.932 0.21707 58.6 58.413 58.63 0.66829 33 10 4 0 0 0 0.0019388 1 26470 26470 104.8 81.651 1 2896900 5909 4308 3863 3875 6564 6564 -0.024843465334242865 EYNNIQHLF 9 Unmodified _EYNNIQHLF_ 0 0 0 ENSG00000164342|ENST00000296795|TLR3;nc|ENSG00000164342|O15455-2|TLR3 ENSG00000164342|ENST00000296795|TLR3 ENSG00000164342|ENST00000296795|TLR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.287109375 2 589.285463 1176.55637 NaN NaN NaN NaN NaN NaN NaN 57.986 1 58.654 58.154 59.154 0.66829 0 0 0 2.4046E-07 1 26537 26537 125.62 83.53 1 5910 4308 3863 3875 6565 6565 -0.024843465334242865 EYNNNFHVL 9 Unmodified _EYNNNFHVL_ 0 0 0 ENST00000425988.1_1_13:23411483-23411888:-|nuORF;ENSG00000151151|ENST00000373935|IPMK ENST00000425988.1_1_13:23411483-23411888:-|nuORF ENST00000425988.1_1_13:23411483-23411888:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.2716064453125 2 575.269813 1148.52507 3.5657 0.0020512 -0.3447 -0.0001983 3.221 0.0018529 575.2695637504412 49.898 0.3385 49.898 49.752 50.091 0 38 15 3 0 0 0 0.026068 2 22832 22832;22885 60.39 30.165 1 2569300 5911 3694 3864 3876 6566;6567 6566 -0.0432491956753438 EYNNNFHVL 9 Unmodified _EYNNNFHVL_ 0 0 0 ENST00000425988.1_1_13:23411483-23411888:-|nuORF;ENSG00000151151|ENST00000373935|IPMK ENST00000425988.1_1_13:23411483-23411888:-|nuORF ENST00000425988.1_1_13:23411483-23411888:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.2716064453125 2 575.269813 1148.52507 3.3487 0.0019264 0.475 0.00027326 3.8237 0.0021997 575.270059107405 49.842 0.33741 50.104 49.885 50.223 0.26146 33 13 3 0 0 0 0.017868 2 22792 22733;22792 71.134 31.176 1 1398800 5912 3694 3864 3876 6568;6569 6569 -0.0432491956753438 EYNNNFHVL 9 Unmodified _EYNNNFHVL_ 0 0 0 ENST00000425988.1_1_13:23411483-23411888:-|nuORF;ENSG00000151151|ENST00000373935|IPMK ENST00000425988.1_1_13:23411483-23411888:-|nuORF ENST00000425988.1_1_13:23411483-23411888:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.2720947265625 2 575.269813 1148.52507 3.7611 0.0021636 0.20801 0.00011966 3.9691 0.0022833 575.2699963652783 49.243 0.30301 49.898 49.734 50.037 0.65524 24 9 3 0 0 0 0.035095 2 22508 22508;22572 53.576 23.351 1 1596100 5913 3694 3864 3876 6570;6571 6570 -0.0432491956753438 EYNNNFHVL 9 Unmodified _EYNNNFHVL_ 0 0 0 ENST00000425988.1_1_13:23411483-23411888:-|nuORF;ENSG00000151151|ENST00000373935|IPMK ENST00000425988.1_1_13:23411483-23411888:-|nuORF ENST00000425988.1_1_13:23411483-23411888:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 575.269813 1148.52507 3.5269 0.0020289 0.28842 0.00016592 3.8153 0.0021948 575.2699328662169 48.788 0.34791 49.615 49.459 49.807 0.82705 -0.264 0.0001644 NaN 71.134 36 20 2 NaN NaN NaN NaN 0 NaN NaN 0 2172500 5914 3694 3864 3876 -0.0432491956753438 EYNSDLHQF 9 Unmodified _EYNSDLHQF_ 0 0 0 nc|ENSG00000169679|O43683-2|BUB1;nc|ENSG00000169679|O43683-3|BUB1;ENSG00000169679|ENST00000302759|BUB1;ENST00000465029.5_1_2:111419157-111435602:-|nuORF nc|ENSG00000169679|O43683-2|BUB1 nc|ENSG00000169679|O43683-2|BUB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 576.7542114257812 2 576.751453 1151.48835 3.7211 0.0021462 0.11343 6.542E-05 3.8345 0.0022116 576.7515597929479 37.404 0.26447 37.404 37.244 37.509 0 16 9 2 0 0 0 0.0016284 1 16973 16973 108 73.895 1 992710 5915 4702 3865 3877 6572 6572 -0.08133216184091907 EYNSDLHQF 9 Unmodified _EYNSDLHQF_ 0 0 0 nc|ENSG00000169679|O43683-2|BUB1;nc|ENSG00000169679|O43683-3|BUB1;ENSG00000169679|ENST00000302759|BUB1;ENST00000465029.5_1_2:111419157-111435602:-|nuORF nc|ENSG00000169679|O43683-2|BUB1 nc|ENSG00000169679|O43683-2|BUB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 576.7540893554688 2 576.751453 1151.48835 3.4939 0.0020151 0.31635 0.00018245 3.8102 0.0021975 576.7518572358591 36.255 0.29734 37.049 36.9 37.197 0.79342 30 12 3 0 0 0 0.0014219 1 16449 16449 111.29 77.185 1 836330 5916 4702 3865 3877 6573 6573 -0.08133216184091907 EYNSDLHQF 9 Unmodified _EYNSDLHQF_ 0 0 0 nc|ENSG00000169679|O43683-2|BUB1;nc|ENSG00000169679|O43683-3|BUB1;ENSG00000169679|ENST00000302759|BUB1;ENST00000465029.5_1_2:111419157-111435602:-|nuORF nc|ENSG00000169679|O43683-2|BUB1 nc|ENSG00000169679|O43683-2|BUB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.7538452148438 2 576.751453 1151.48835 3.4671 0.0019997 0.5698 0.00032863 4.0369 0.0023283 576.7516829153216 37.469 0.21718 37.73 37.572 37.789 0.26083 12 6 2 0 0 0 0.029308 1 17064 17064 56.177 35.723 1 314100 5917 4702 3865 3877 6574 6574 -0.08133216184091907 EYNSDLHQF 9 Unmodified _EYNSDLHQF_ 0 0 0 nc|ENSG00000169679|O43683-2|BUB1;nc|ENSG00000169679|O43683-3|BUB1;ENSG00000169679|ENST00000302759|BUB1;ENST00000465029.5_1_2:111419157-111435602:-|nuORF nc|ENSG00000169679|O43683-2|BUB1 nc|ENSG00000169679|O43683-2|BUB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 576.7528686523438 2 576.751453 1151.48835 3.7438 0.0021592 -0.0064498 -3.7199E-06 3.7373 0.0021555 576.7514582396342 36.858 0.29568 37.488 37.303 37.598 0.62999 21 11 2 0 0 0 0.029308 1 16873 16873 56.177 41.339 1 334260 5918 4702 3865 3877 6575 6575 -0.08133216184091907 EYNTVASKF 9 Unmodified _EYNTVASKF_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;nc|ENSG00000173193|Q460N5-5|PARP14;ENST00000475640.1_1_3:122437249-122439770:+|nuORF nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.7637939453125 2 529.761289 1057.50803 3.1774 0.0016833 -0.017978 -9.5238E-06 3.1594 0.0016737 529.7613780353067 36.201 0.15205 36.459 36.396 36.548 0.25768 8 5 2 0 0 0 0.26118 1 16522 16522 19.362 12.639 1 232590 5919 4917 3866 3878 6576 6576 -0.018428401733444844 EYNTVASKF 9 Unmodified _EYNTVASKF_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;nc|ENSG00000173193|Q460N5-5|PARP14;ENST00000475640.1_1_3:122437249-122439770:+|nuORF nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.763427734375 2 529.761289 1057.50803 NaN NaN NaN NaN NaN NaN NaN 35.749 1 36.375 35.875 36.875 0.62631 0 0 0 0.31736 1 16374 16374 26.268 11.686 1 5920 4917 3866 3878 6577 6577 -0.018428401733444844 EYPDRIMNTF 10 Oxidation (M) _EYPDRIM(Oxidation (M))NTF_ EYPDRIM(1)NTF EYPDRIM(120)NTF 0 0 1 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENST00000518096.1_1_8:30209523-30210210:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 651.2975463867188 2 651.29517 1300.57579 3.6366 0.0023685 -0.38583 -0.00025129 3.2507 0.0021172 651.796284704631 44.643 0.42214 44.643 44.571 44.993 0 64 25 3 0 0 0 1.0164E-05 3 20392 20392;20449;20498 121.5 82.889 1 7227100 5921 5660;6301 3867 3879 6578;6579;6580 6578 73 -0.06247758304857598 EYPDRIMNTF 10 Oxidation (M) _EYPDRIM(Oxidation (M))NTF_ EYPDRIM(1)NTF EYPDRIM(140)NTF 0 0 1 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENST00000518096.1_1_8:30209523-30210210:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 651.29736328125 2 651.29517 1300.57579 3.5634 0.0023209 -0.17979 -0.00011709 3.3837 0.0022038 651.2951807085922 43.549 0.5724 44.364 44.095 44.667 0.81444 108 31 4 0 0 0 7.6551E-09 5 19793 19736;19793;19850;19901;19943 143.21 105.04 1 3627300 5922 5660;6301 3867 3879 6581;6582;6583;6584;6585 6582 73 -0.06247758304857598 EYPDRIMNTF 10 Oxidation (M) _EYPDRIM(Oxidation (M))NTF_ EYPDRIM(1)NTF EYPDRIM(150)NTF 0 0 1 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENST00000518096.1_1_8:30209523-30210210:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 651.2971801757812 2 651.29517 1300.57579 3.5911 0.0023389 -0.2969 -0.00019337 3.2942 0.0021455 651.2952151859616 44.697 0.74366 44.965 44.53 45.274 0.26768 122 34 5 0 0 0 2.1718E-13 6 20386 20279;20332;20386;20441;20490;20541 154.75 112.8 1 5831300 5923 5660;6301 3867 3879 6586;6587;6588;6589;6590;6591 6588 73 -0.06247758304857598 EYPDRIMNTF 10 Oxidation (M) _EYPDRIM(Oxidation (M))NTF_ EYPDRIM(1)NTF EYPDRIM(160)NTF 0 0 1 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENST00000518096.1_1_8:30209523-30210210:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 651.2982788085938 2 651.29517 1300.57579 4.0799 0.0026572 -0.22749 -0.00014816 3.8524 0.0025091 651.2951494381107 44.049 0.59972 44.698 44.492 45.092 0.64944 98 30 4 0 0 0 1.3809E-13 4 20183 20122;20183;20231;20280 158.08 112.34 1 8870200 5924 5660;6301 3867 3879 6592;6593;6594;6595 6593 73 -0.06247758304857598 EYPDRIMNTF 10 Unmodified _EYPDRIMNTF_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENST00000518096.1_1_8:30209523-30210210:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.2999877929688 2 643.297713 1284.58087 3.7494 0.002412 -0.79687 -0.00051262 2.9526 0.0018994 643.2973917605075 57.842 0.6998 57.842 57.499 58.199 0 268 72 5 0 0 0 2.1718E-13 7 26661 26526;26571;26619;26661;26710;26756;26801 154.75 110.98 1 49672000 5925 5660;6301 3867 3880 6596;6597;6598;6599;6600;6601;6602 6599 -0.050034544422260296 EYPDRIMNTF 10 Unmodified _EYPDRIMNTF_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENST00000518096.1_1_8:30209523-30210210:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 643.2991943359375 2 643.297713 1284.58087 3.348 0.0021537 -0.94687 -0.00060912 2.4011 0.0015446 643.2972941764249 56.887 0.60207 57.665 57.337 57.94 0.77786 236 61 5 0 0 0 2.3681E-28 6 26016 25877;25920;25967;26016;26059;26107 182.24 134.64 1 44265000 5926 5660;6301 3867 3880 6603;6604;6605;6606;6607;6608 6606 -0.050034544422260296 EYPDRIMNTF 10 Unmodified _EYPDRIMNTF_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENST00000518096.1_1_8:30209523-30210210:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 643.300048828125 2 643.297713 1284.58087 3.7285 0.0023985 -0.47162 -0.00030339 3.2568 0.0020951 643.2976360848048 57.626 0.71584 57.89 57.622 58.338 0.26444 184 46 5 0 0 0 1.5381999999999998E-38 6 26460 26264;26313;26362;26411;26460;26511 195.04 158.53 1 44830000 5927 5660;6301 3867 3880 6609;6610;6611;6612;6613;6614 6613 -0.050034544422260296 EYPDRIMNTF 10 Unmodified _EYPDRIMNTF_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENST00000518096.1_1_8:30209523-30210210:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 643.2999267578125 2 643.297713 1284.58087 3.9953 0.0025702 -0.46023 -0.00029607 3.5351 0.0022741 643.2976581518903 57.076 0.69636 57.744 57.385 58.081 0.66829 154 45 5 0 0 0 2.3681E-28 6 26046 25988;26046;26105;26166;26205;26250 182.24 126.73 1 58472000 5928 5660;6301 3867 3880 6615;6616;6617;6618;6619;6620 6616 -0.050034544422260296 EYPDRIMNTF 10 Unmodified _EYPDRIMNTF_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENST00000518096.1_1_8:30209523-30210210:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 643.297713 1284.58087 3.725 0.0023963 -1.0517 -0.00067653 2.6733 0.0017197 643.7979248030558 57.335 0.012314 57.6 57.591 57.603 0.26444 -0.11283 -0.0003581 NaN 182.24 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 2518800 5929 5660;6301 3867 3880 -0.050034544422260296 EYPTERFGFL 10 Unmodified _EYPTERFGFL_ 0 0 0 ENST00000518547.5_2_8:125740268-125740424:-|nuORF ENST00000518547.5_2_8:125740268-125740424:-|nuORF ENST00000518547.5_2_8:125740268-125740424:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 629.81201171875 2 629.808771 1257.60299 3.9673 0.0024986 0.12913 8.1327E-05 4.0964 0.0025799 629.8086484642232 69.101 0.26806 69.355 69.192 69.46 0.25443 39 16 3 0 0 0 0.21136 1 31620 31620 37.974 14.826 1 1064100 5930 8608 3868 3881 6621 6621 -0.015509067021412193 EYQIKTNQL 9 Unmodified _EYQIKTNQL_ 0 0 0 ENST00000463409.6_1_10:22605382-22615407:+|nuORF;ENSG00000148444|ENST00000376836|COMMD3;ENST00000602395.1_1_10:22607528-22615407:+|nuORF;ENST00000496071.5_1_10:22607528-22608924:+|nuORF;ENST00000602574.5_1_10:22607528-22607842:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.8028564453125 2 568.800946 1135.58734 3.5953 0.002045 -0.34884 -0.00019842 3.2464 0.0018466 568.8003980587371 36.102 0.24384 36.893 36.757 37.001 0.79131 22 8 4 0 0 0 0.0013314 1 16373 16373 118.07 45.1 1 1102000 5931 3606 3869 3882 6622 6622 0.02496806780800398 EYQIKTNQL 9 Unmodified _EYQIKTNQL_ 0 0 0 ENST00000463409.6_1_10:22605382-22615407:+|nuORF;ENSG00000148444|ENST00000376836|COMMD3;ENST00000602395.1_1_10:22607528-22615407:+|nuORF;ENST00000496071.5_1_10:22607528-22608924:+|nuORF;ENST00000602574.5_1_10:22607528-22607842:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.8023681640625 2 568.800946 1135.58734 3.6465 0.0020741 0.53369 0.00030357 4.1802 0.0023777 568.8008637181438 37.192 0.3161 37.453 37.284 37.6 0.26083 19 9 3 0 0 0 0.0029142 1 16955 16955 96.111 36.037 1 508870 5932 3606 3869 3882 6623 6623 0.02496806780800398 EYQIKTNQL 9 Unmodified _EYQIKTNQL_ 0 0 0 ENST00000463409.6_1_10:22605382-22615407:+|nuORF;ENSG00000148444|ENST00000376836|COMMD3;ENST00000602395.1_1_10:22607528-22615407:+|nuORF;ENST00000496071.5_1_10:22607528-22608924:+|nuORF;ENST00000602574.5_1_10:22607528-22607842:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.80322265625 2 568.800946 1135.58734 3.7069 0.0021085 -0.077363 -4.4004E-05 3.6296 0.0020645 568.8006099324981 36.55 0.37267 37.18 36.982 37.354 0.62999 32 14 3 0 0 0 0.020151 2 16731 16731;16779 68.081 20.332 1 504280 5933 3606 3869 3882 6624;6625 6624 0.02496806780800398 EYQIKTNQL 9 Unmodified _EYQIKTNQL_ 0 0 0 ENST00000463409.6_1_10:22605382-22615407:+|nuORF;ENSG00000148444|ENST00000376836|COMMD3;ENST00000602395.1_1_10:22607528-22615407:+|nuORF;ENST00000496071.5_1_10:22607528-22608924:+|nuORF;ENST00000602574.5_1_10:22607528-22607842:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 568.800946 1135.58734 3.4851 0.0019823 -0.35916 -0.00020429 3.1259 0.001778 568.8005884363025 37.227 0.24084 37.227 37.106 37.346 0 0.03889 -0.0002769 NaN 118.07 14 8 2 NaN NaN NaN NaN 0 NaN NaN 0 771010 5934 3606 3869 3882 0.02496806780800398 EYQKVGQSF 9 Unmodified _EYQKVGQSF_ 0 0 0 nc|ENSG00000178996|Q96RF0-3|SNX18;ENSG00000178996|ENST00000381410|SNX18;nc|ENSG00000178996|Q96RF0|SNX18 nc|ENSG00000178996|Q96RF0-3|SNX18 nc|ENSG00000178996|Q96RF0-3|SNX18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.2685546875 2 543.266739 1084.51892 NaN NaN NaN NaN NaN NaN NaN 27.739 1 27.739 27.239 28.239 0 0 0 0 0.62812 1 12496 12496 14.838 5.4908 1 5935 5192 3870 3883 6626 6626 -0.019954377990416106 EYQKVGQSF 9 Unmodified _EYQKVGQSF_ 0 0 0 nc|ENSG00000178996|Q96RF0-3|SNX18;ENSG00000178996|ENST00000381410|SNX18;nc|ENSG00000178996|Q96RF0|SNX18 nc|ENSG00000178996|Q96RF0-3|SNX18 nc|ENSG00000178996|Q96RF0-3|SNX18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.2681274414062 2 543.266739 1084.51892 3.3419 0.0018156 -0.76684 -0.0004166 2.5751 0.001399 543.2657107237621 27.21 0.25454 27.831 27.706 27.96 0.62179 20 13 2 0 0 0 0.093314 1 12443 12443 34.402 12.655 1 319280 5936 5192 3870 3883 6627 6627 -0.019954377990416106 EYQKVGQSF 9 Unmodified _EYQKVGQSF_ 0 0 0 nc|ENSG00000178996|Q96RF0-3|SNX18;ENSG00000178996|ENST00000381410|SNX18;nc|ENSG00000178996|Q96RF0|SNX18 nc|ENSG00000178996|Q96RF0-3|SNX18 nc|ENSG00000178996|Q96RF0-3|SNX18 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 543.266739 1084.51892 3.1466 0.0017095 -0.22158 -0.00012038 2.925 0.0015891 543.2666270164946 26.733 0.17422 27.512 27.398 27.572 0.7787 -0.1616 -0.00032899 NaN 34.402 20 14 2 NaN NaN NaN NaN 0 NaN NaN 0 629240 5937 5192 3870 3883 -0.019954377990416106 EYQKVWNLF 9 Unmodified _EYQKVWNLF_ 0 0 0 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.8155517578125 2 613.813856 1225.61316 3.1155 0.0019123 0.083783 5.1427E-05 3.1993 0.0019638 613.8138103373965 74.891 0.19629 74.891 74.809 75.005 0 46 21 3 0 0 0 0.1229 2 36710 36638;36710 37.974 19.264 1 17400000 5938 635 3871 3884 6628;6629 6629 0.009377010230764427 EYQKVWNLF 9 Unmodified _EYQKVWNLF_ 0 0 0 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 614.3157348632812 2 613.813856 1225.61316 2.8641 0.001758 -0.04928 -3.0249E-05 2.8148 0.0017278 613.8137234248662 73.83 0.31639 74.517 74.325 74.641 0.68662 58 31 2 0 0 0 0.0071692 2 35674 35588;35674 107.19 76.55 1 7175700 5939 635 3871 3884 6630;6631 6631 0.009377010230764427 EYQKVWNLF 9 Unmodified _EYQKVWNLF_ 0 0 0 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.8156127929688 2 613.813856 1225.61316 3.2494 0.0019945 -0.40045 -0.0002458 2.849 0.0017487 613.8135799733891 74.722 0.37754 74.98 74.775 75.153 0.25831 112 35 4 0 0 0 9.5238E-06 4 34348 34305;34348;34399;34441 176.84 135 1 13163000 5940 635 3871 3884 6632;6633;6634;6635 6633 0.009377010230764427 EYQKVWNLF 9 Unmodified _EYQKVWNLF_ 0 0 0 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 613.8156127929688 2 613.813856 1225.61316 3.0512 0.0018729 -0.22569 -0.00013853 2.8255 0.0017343 613.8137233700911 74.184 0.43423 74.848 74.631 75.065 0.6644 153 48 4 0 0 0 1.4994E-08 4 34197 34067;34110;34155;34197 168.66 128.7 1 11979000 5941 635 3871 3884 6636;6637;6638;6639 6639 0.009377010230764427 EYQQAQHKF 9 Unmodified _EYQQAQHKF_ 0 0 0 ENSG00000141002|ENST00000263346|TCF25;ENST00000568870.1_1_16:89958640-89960287:+|nuORF ENSG00000141002|ENST00000263346|TCF25 ENSG00000141002|ENST00000263346|TCF25 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.5250244140625 3 393.524484 1177.55162 NaN NaN NaN NaN NaN NaN NaN 13.174 1 13.174 12.674 13.674 0 0 0 0 0.56337 1 5754 5754 11.495 8.7595 1 5942 3229 3872 3885 6640 6640 -0.03005230676217252 EYREKEYKK 9 Unmodified _EYREKEYKK_ 0 0 0 REV__nc|ENSG00000125257|O15439-4|ABCC4 REV__nc|ENSG00000125257|O15439-4|ABCC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 636.8339233398438 2 636.832777 1271.651 NaN NaN NaN NaN NaN NaN NaN 57.431 1 57.696 57.196 58.196 0.26444 0 0 0 0.90611 1 26290 26290 2.0598 0.40713 1 + 5943 11673 3873 3886 6641 6641 0.026041672178735098 EYRHNTLPVRN 11 Unmodified _EYRHNTLPVRN_ 0 0 0 ENST00000445692.5_1_2:68762461-68805151:+|nuORF;ENST00000529851.5_1_2:68740776-68805151:+|nuORF;ENSG00000169621|ENST00000303795|APLF ENST00000445692.5_1_2:68762461-68805151:+|nuORF ENST00000445692.5_1_2:68762461-68805151:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 699.8639526367188 2 699.865474 1397.7164 NaN NaN NaN NaN NaN NaN NaN 82.616 1 83.276 82.776 83.776 0.66019 0 0 0 1.0074 1 38064 38064 1.0715 0.67075 1 5944 4700 3874 3887 6642 6642 0.03344581463602481 EYRPEFSNF 9 Unmodified _EYRPEFSNF_ 0 0 0 ENSG00000102699|ENST00000381989|PARP4;ENST00000446672.2_1_13:19931694-19949148:+|nuORF ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 594.7718505859375 2 594.769645 1187.52474 3.3213 0.0019754 0.66779 0.00039718 3.9891 0.0023726 594.7699790099529 52.541 0.30957 52.541 52.397 52.706 0 72 29 3 0 0 0 9.5847E-09 2 24072 24031;24072 155.95 102.38 1 3250300 5945 1350 3875 3888 6643;6644 6644 -0.06152339287382347 EYRPEFSNF 9 Unmodified _EYRPEFSNF_ 0 0 0 ENSG00000102699|ENST00000381989|PARP4;ENST00000446672.2_1_13:19931694-19949148:+|nuORF ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 594.7720336914062 2 594.769645 1187.52474 2.9651 0.0017635 0.73906 0.00043957 3.7042 0.0022031 594.7700391377339 51.458 0.2802 52.276 52.173 52.453 0.81738 49 19 3 0 0 0 0.0013355 2 23473 23426;23473 117.76 64.185 1 2380000 5946 1350 3875 3888 6645;6646 6646 -0.06152339287382347 EYRPEFSNF 9 Unmodified _EYRPEFSNF_ 0 0 0 ENSG00000102699|ENST00000381989|PARP4;ENST00000446672.2_1_13:19931694-19949148:+|nuORF ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 594.7710571289062 2 594.769645 1187.52474 3.7175 0.0022111 -0.21713 -0.00012914 3.5004 0.0020819 594.7695958856314 52.468 0.21394 52.732 52.61 52.824 0.26345 20 8 3 0 0 0 0.0013355 2 23973 23973;24026 117.76 64.185 1 1715200 5947 1350 3875 3888 6647;6648 6647 -0.06152339287382347 EYRPEFSNF 9 Unmodified _EYRPEFSNF_ 0 0 0 ENSG00000102699|ENST00000381989|PARP4;ENST00000446672.2_1_13:19931694-19949148:+|nuORF ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 594.7711181640625 2 594.769645 1187.52474 3.7627 0.0022379 -0.033717 -2.0054E-05 3.729 0.0022179 594.7695487395521 51.92 0.3387 52.582 52.462 52.801 0.66198 43 17 3 0 0 0 0.0061394 2 23737 23737;23785 89.401 35.825 1 910850 5948 1350 3875 3888 6649;6650 6649 -0.06152339287382347 EYSIVIQQL 9 Unmodified _EYSIVIQQL_ 0 0 0 nc|ENSG00000244038|P39656-3|DDOST;ENSG00000244038|ENST00000602624|DDOST;nc|ENSG00000244038|P39656|DDOST;nc|ENSG00000244038|P39656-2|DDOST nc|ENSG00000244038|P39656-3|DDOST nc|ENSG00000244038|P39656-3|DDOST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.8007202148438 2 546.800414 1091.58628 3.0894 0.0016893 0.46262 0.00025296 3.552 0.0019422 546.8008801046607 74.994 0.18652 74.994 74.922 75.108 0 41 18 3 0 0 0 0.0019388 1 36736 36736 104.8 37.455 1 3570400 5949 6246 3876 3889 6651 6651 0.04414592411899321 EYSIVIQQL 9 Unmodified _EYSIVIQQL_ 0 0 0 nc|ENSG00000244038|P39656-3|DDOST;ENSG00000244038|ENST00000602624|DDOST;nc|ENSG00000244038|P39656|DDOST;nc|ENSG00000244038|P39656-2|DDOST nc|ENSG00000244038|P39656-3|DDOST nc|ENSG00000244038|P39656-3|DDOST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.8025512695312 2 546.800414 1091.58628 2.7072 0.0014803 0.44774 0.00024482 3.1549 0.0017251 546.8008148098526 74.127 0.2431 74.813 74.767 75.01 0.68662 34 19 2 0 0 0 0.020718 2 35820 35820;35840 67.344 31.3 1 2427200 5950 6246 3876 3889 6652;6653 6652 0.04414592411899321 EYSIVIQQL 9 Unmodified _EYSIVIQQL_ 0 0 0 nc|ENSG00000244038|P39656-3|DDOST;ENSG00000244038|ENST00000602624|DDOST;nc|ENSG00000244038|P39656|DDOST;nc|ENSG00000244038|P39656-2|DDOST nc|ENSG00000244038|P39656-3|DDOST nc|ENSG00000244038|P39656-3|DDOST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.8046875 2 546.800414 1091.58628 3.0415 0.0016631 -0.13347 -7.2983E-05 2.908 0.0015901 546.7999886718345 74.201 0.32088 74.866 74.744 75.065 0.6644 46 35 2 0 0 0 0.20384 1 34166 34166 23.148 8.3102 1 1017600 5951 6246 3876 3889 6654 6654 0.04414592411899321 EYSIVIQQL 9 Unmodified _EYSIVIQQL_ 0 0 0 nc|ENSG00000244038|P39656-3|DDOST;ENSG00000244038|ENST00000602624|DDOST;nc|ENSG00000244038|P39656|DDOST;nc|ENSG00000244038|P39656-2|DDOST nc|ENSG00000244038|P39656-3|DDOST nc|ENSG00000244038|P39656-3|DDOST MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 546.800414 1091.58628 3.2371 0.00177 -0.24697 -0.00013505 2.9901 0.001635 546.8001688832786 74.704 0.26853 74.963 74.829 75.097 0.25831 0.053776 -0.00053047 NaN 104.8 35 23 2 NaN NaN NaN NaN 0 NaN NaN 0 1557900 5952 6246 3876 3889 0.04414592411899321 EYSKQMQRF 9 Unmodified _EYSKQMQRF_ 0 0 0 ENSG00000116478|ENST00000373548|HDAC1;ENST00000463172.5_1_1:32757770-32792715:+|nuORF;ENST00000481281.5_1_1:32757770-32793222:+|nuORF;ENSG00000196591|ENST00000519065|HDAC2;nc|ENSG00000196591|Q92769-3|HDAC2 ENSG00000116478|ENST00000373548|HDAC1;ENSG00000196591|ENST00000519065|HDAC2 ENSG00000196591|ENST00000519065|HDAC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 608.7950439453125 2 608.792598 1215.57064 3.6943 0.0022491 -0.23053 -0.00014035 3.4638 0.0021087 608.7924837551933 21.284 0.25228 21.284 21.156 21.409 0 59 24 4 0 0 0 4.658900000000001E-41 2 9532 9491;9532 208.15 146.79 1 1106200 5953 2029;5761 3877 3890 6655;6656 6656 -0.028520173767901724 EYSKQMQRF 9 Unmodified _EYSKQMQRF_ 0 0 0 ENSG00000116478|ENST00000373548|HDAC1;ENST00000463172.5_1_1:32757770-32792715:+|nuORF;ENST00000481281.5_1_1:32757770-32793222:+|nuORF;ENSG00000196591|ENST00000519065|HDAC2;nc|ENSG00000196591|Q92769-3|HDAC2 ENSG00000116478|ENST00000373548|HDAC1;ENSG00000196591|ENST00000519065|HDAC2 ENSG00000196591|ENST00000519065|HDAC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 406.19866943359375 3 406.197491 1215.57064 2.7831 0.0011305 -0.085726 -3.4822E-05 2.6974 0.0010957 406.19755384908206 21.277 0.33223 21.277 21.098 21.431 0 111 30 5 0 0 0 0.012748 2 9503 9503;9543 61.602 47.197 1 5844100 5954 2029;5761 3877 3890 6657;6658 6657 -0.028520173767901724 EYSKQMQRF 9 Unmodified _EYSKQMQRF_ 0 0 0 ENSG00000116478|ENST00000373548|HDAC1;ENST00000463172.5_1_1:32757770-32792715:+|nuORF;ENST00000481281.5_1_1:32757770-32793222:+|nuORF;ENSG00000196591|ENST00000519065|HDAC2;nc|ENSG00000196591|Q92769-3|HDAC2 ENSG00000116478|ENST00000373548|HDAC1;ENSG00000196591|ENST00000519065|HDAC2 ENSG00000196591|ENST00000519065|HDAC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 406.1986083984375 3 406.197491 1215.57064 2.3433 0.00095184 -0.39373 -0.00015993 1.9496 0.00079191 406.1973353029624 20.054 0.14782 20.32 20.24 20.388 0.26616 57 36 2 0 0 0 0.015468 2 8886 8886;8926 75.761 55.346 1 7000500 5955 2029;5761 3877 3890 6659;6660 6659 -0.028520173767901724 EYSKQMQRF 9 Unmodified _EYSKQMQRF_ 0 0 0 ENSG00000116478|ENST00000373548|HDAC1;ENST00000463172.5_1_1:32757770-32792715:+|nuORF;ENST00000481281.5_1_1:32757770-32793222:+|nuORF;ENSG00000196591|ENST00000519065|HDAC2;nc|ENSG00000196591|Q92769-3|HDAC2 ENSG00000116478|ENST00000373548|HDAC1;ENSG00000196591|ENST00000519065|HDAC2 ENSG00000196591|ENST00000519065|HDAC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 608.7949829101562 2 608.792598 1215.57064 3.7941 0.0023098 -0.20355 -0.00012392 3.5906 0.0021859 608.7926393195368 20.393 0.31903 21.046 20.867 21.186 0.65346 62 26 3 0 0 0 0.019364 2 9278 9225;9278 69.105 32.978 1 589500 5956 2029;5761 3877 3890 6661;6662 6662 -0.028520173767901724 EYSKQMQRF 9 Unmodified _EYSKQMQRF_ 0 0 0 ENSG00000116478|ENST00000373548|HDAC1;ENST00000463172.5_1_1:32757770-32792715:+|nuORF;ENST00000481281.5_1_1:32757770-32793222:+|nuORF;ENSG00000196591|ENST00000519065|HDAC2;nc|ENSG00000196591|Q92769-3|HDAC2 ENSG00000116478|ENST00000373548|HDAC1;ENSG00000196591|ENST00000519065|HDAC2 ENSG00000196591|ENST00000519065|HDAC2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 406.197491 1215.57064 3.0959 0.0012576 -0.16255 -6.6029E-05 2.9334 0.0011915 406.1975061384397 20.404 0.40706 21.057 20.834 21.241 0.65346 -0.10977 -5.2513E-05 NaN 61.602 112 33 5 NaN NaN NaN NaN 0 NaN NaN 0 1870000 5957 2029;5761 3877 3890 -0.028520173767901724 EYSRFVNQI 9 Unmodified _EYSRFVNQI_ 0 0 0 nc|ENSG00000132680|Q7Z7F0-3|KHDC4;nc|ENSG00000132680|Q7Z7F0-2|KHDC4;ENSG00000132680|ENST00000368321|KHDC4;ENST00000483237.1_1_1:155891178-155891799:-|nuORF;ENST00000478002.5_1_1:155885750-155895538:-|nuORF nc|ENSG00000132680|Q7Z7F0-3|KHDC4 nc|ENSG00000132680|Q7Z7F0-3|KHDC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.2948608398438 2 578.293288 1154.57202 3.2839 0.0018991 0.1173 6.7834E-05 3.4012 0.0019669 578.2933335304446 44.402 0.25048 45.222 45.047 45.297 0.82075 24 12 3 0 0 0 0.019364 1 20225 20225 69.105 40.023 1 406810 5958 2719 3878 3891 6663 6663 0.0009193998362206912 EYSRFVNQI 9 Unmodified _EYSRFVNQI_ 0 0 0 nc|ENSG00000132680|Q7Z7F0-3|KHDC4;nc|ENSG00000132680|Q7Z7F0-2|KHDC4;ENSG00000132680|ENST00000368321|KHDC4;ENST00000483237.1_1_1:155891178-155891799:-|nuORF;ENST00000478002.5_1_1:155885750-155895538:-|nuORF nc|ENSG00000132680|Q7Z7F0-3|KHDC4 nc|ENSG00000132680|Q7Z7F0-3|KHDC4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 578.293288 1154.57202 3.5548 0.0020557 -0.064221 -3.7138E-05 3.4906 0.0020186 578.2925667538176 45.466 0.1743 45.466 45.36 45.535 0 0.088694 7.4428E-05 NaN 69.105 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 481490 5959 2719 3878 3891 0.0009193998362206912 EYSRFVNQI 9 Unmodified _EYSRFVNQI_ 0 0 0 nc|ENSG00000132680|Q7Z7F0-3|KHDC4;nc|ENSG00000132680|Q7Z7F0-2|KHDC4;ENSG00000132680|ENST00000368321|KHDC4;ENST00000483237.1_1_1:155891178-155891799:-|nuORF;ENST00000478002.5_1_1:155885750-155895538:-|nuORF nc|ENSG00000132680|Q7Z7F0-3|KHDC4 nc|ENSG00000132680|Q7Z7F0-3|KHDC4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 578.293288 1154.57202 3.8408 0.0022211 -0.85531 -0.00049462 2.9855 0.0017265 578.7946468327909 44.793 0.16963 45.443 45.371 45.541 0.64998 0.066042 -0.00084053 NaN 69.105 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 185220 5960 2719 3878 3891 0.0009193998362206912 EYSTCFTEL 9 Carbamidomethyl (C) _EYSTC(Carbamidomethyl (C))FTEL_ EYSTC(1)FTEL EYSTC(51)FTEL 0 1 0 ENSG00000111331|ENST00000228928|OAS3 ENSG00000111331|ENST00000228928|OAS3 ENSG00000111331|ENST00000228928|OAS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.2437133789062 2 575.242072 1148.46959 3.6263 0.002086 -0.77774 -0.00044739 2.8486 0.0016386 575.2417250910597 63.392 0.30072 64.05 63.918 64.219 0.65808 36 19 3 0 0 0 0.041436 1 29051 29051 50.855 25.456 1 1131900 5961 1756 3879 3892 6664 6664 40 -0.09870513870168907 EYSTCFTEL 9 Carbamidomethyl (C) _EYSTC(Carbamidomethyl (C))FTEL_ 0 1 0 ENSG00000111331|ENST00000228928|OAS3 ENSG00000111331|ENST00000228928|OAS3 ENSG00000111331|ENST00000228928|OAS3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 575.242072 1148.46959 3.173 0.0018253 -0.015752 -9.0613E-06 3.1573 0.0018162 575.2417452723981 63.923 0.27239 64.171 64.035 64.307 0.24802 0.060742 0.00055832 NaN 50.855 30 16 2 NaN NaN NaN NaN 0 NaN NaN 0 1047800 5962 1756 3879 3892 40 -0.09870513870168907 EYTAKIALL 9 Unmodified _EYTAKIALL_ 0 0 0 ENSG00000092820|ENST00000367075|EZR ENSG00000092820|ENST00000367075|EZR ENSG00000092820|ENST00000367075|EZR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.3020935058594 2 511.30005 1020.58555 2.8844 0.0014748 0.14614 7.472E-05 3.0306 0.0015495 511.3001592304283 61.033 0.24078 61.033 60.973 61.213 0 32 23 2 0 0 0 0.043585 1 28451 28451 49.933 7.8384 1 1155500 5963 1101 3880 3893 6665 6665 0.07607797762852897 EYTAKIALL 9 Unmodified _EYTAKIALL_ 0 0 0 ENSG00000092820|ENST00000367075|EZR ENSG00000092820|ENST00000367075|EZR ENSG00000092820|ENST00000367075|EZR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 511.3017272949219 2 511.30005 1020.58555 3.3801 0.0017283 -0.38967 -0.00019924 2.9905 0.001529 511.29985697845615 60.337 0.26765 61.002 60.843 61.111 0.66503 22 13 2 0 0 0 0.017293 2 27604 27604;27656 71.922 21.067 1 1270400 5964 1101 3880 3893 6666;6667 6666 0.07607797762852897 EYTAKIALL 9 Unmodified _EYTAKIALL_ 0 0 0 ENSG00000092820|ENST00000367075|EZR ENSG00000092820|ENST00000367075|EZR ENSG00000092820|ENST00000367075|EZR MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 511.30005 1020.58555 3.3725 0.0017244 -0.30076 -0.00015378 3.0718 0.0015706 511.2999714463158 60.973 0.29082 61.229 61.059 61.35 0.25578 0.14085 -1.9264E-05 NaN 71.922 21 11 2 NaN NaN NaN NaN 0 NaN NaN 0 850140 5965 1101 3880 3893 0.07607797762852897 EYTDVYPEI 9 Unmodified _EYTDVYPEI_ 0 0 0 nc|ENSG00000102316|Q9UNF1-2|MAGED2;ENSG00000102316|ENST00000375068|MAGED2;ENST00000494718.5_1_X:51640434-51640983:+|nuORF;ENST00000485420.5_1_X:51636757-51640983:+|nuORF;ENSG00000179222|ENST00000326587|MAGED1;nc|ENSG00000179222|Q9Y5V3-2|MAGED1 nc|ENSG00000102316|Q9UNF1-2|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.76171875 2 564.758412 1127.50227 NaN NaN NaN NaN NaN NaN NaN 64.44 1 64.688 64.188 65.188 0.24803 0 0 0 0.036939 1 29515 29515 57.471 38.214 1 5966 1340 3881 3894 6668 6668 -0.056379834756626224 EYTDVYPEI 9 Unmodified _EYTDVYPEI_ 0 0 0 nc|ENSG00000102316|Q9UNF1-2|MAGED2;ENSG00000102316|ENST00000375068|MAGED2;ENST00000494718.5_1_X:51640434-51640983:+|nuORF;ENST00000485420.5_1_X:51636757-51640983:+|nuORF;ENSG00000179222|ENST00000326587|MAGED1;nc|ENSG00000179222|Q9Y5V3-2|MAGED1 nc|ENSG00000102316|Q9UNF1-2|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.7608642578125 2 564.758412 1127.50227 NaN NaN NaN NaN NaN NaN NaN 64.487 1 64.736 64.236 65.236 0.24803 0 0 0 0.036939 1 29537 29537 57.471 44.94 1 5967 1340 3881 3894 6669 6669 -0.056379834756626224 EYTLMRATF 9 Unmodified _EYTLMRATF_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.7833862304688 2 566.278792 1130.54303 3.147 0.0017821 0.23475 0.00013293 3.3817 0.001915 566.279013047237 58.896 0.20213 59.655 59.55 59.752 0.75894 32 21 2 0 0 0 0.01463 2 27081 27068;27081 82.529 55.646 1 3488800 5968 5547 3882 3895 6670;6671 6671 -0.017019206370378015 EYTLMRATF 9 Unmodified _EYTLMRATF_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 566.2821044921875 2 566.278792 1130.54303 3.6077 0.002043 -0.49139 -0.00027826 3.1163 0.0017647 566.2789531047271 59.844 0.2905 60.104 59.988 60.279 0.2593 36 14 3 0 0 0 0.0016027 2 27386 27386;27448 117.76 83.658 1 1405900 5969 5547 3882 3895 6672;6673 6672 -0.017019206370378015 EYTLMRATF 9 Unmodified _EYTLMRATF_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.2807006835938 2 566.278792 1130.54303 3.5858 0.0020306 -0.27242 -0.00015427 3.3134 0.0018763 566.2785446467532 59.318 0.29237 59.985 59.811 60.104 0.66692 22 12 2 0 0 0 0.00079405 2 27127 27127;27175 140.63 94.83 1 2085600 5970 5547 3882 3895 6674;6675 6674 -0.017019206370378015 EYTMEIGA 8 Unmodified _EYTMEIGA_ 0 0 0 REV__ENSG00000196074|ENST00000357552|SYCP2 REV__ENSG00000196074|ENST00000357552|SYCP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.1382751464844 3 305.137238 912.389884 NaN NaN NaN NaN NaN NaN NaN 64.197 1 64.445 63.945 64.945 0.24803 0 0 0 0.99035 1 29402 29402 1.6526 0.17072 1 + 5971 14187 3883 3896 6676 6676 -0.06981535753482149 EYTNSGTYEPY 11 Unmodified _EYTNSGTYEPY_ 0 0 0 REV__ENSG00000065135|ENST00000369851|GNAI3 REV__ENSG00000065135|ENST00000369851|GNAI3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.85174560546875 3 441.850702 1322.53028 NaN NaN NaN NaN NaN NaN NaN 57.623 1 57.887 57.387 58.387 0.26444 0 0 0 0.98464 1 26380 26380 4.1166 2.2103 1 + 5972 10426 3884 3897 6677 6677 -0.11808705286216536 EYTPRSWNF 9 Unmodified _EYTPRSWNF_ 0 0 0 ENSG00000156671|ENST00000542569|SAMD8 ENSG00000156671|ENST00000542569|SAMD8 ENSG00000156671|ENST00000542569|SAMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 600.2798461914062 2 600.277638 1198.54072 3.1953 0.0019181 0.83165 0.00049922 4.027 0.0024173 600.2778181591619 53.939 0.36126 54.735 54.558 54.919 0.79552 32 16 3 0 0 0 0.0095519 1 24613 24613 82.529 40.69 1 617570 5973 3920 3885 3898 6678 6678 -0.050606330504933794 EYTRALFLL 9 Unmodified _EYTRALFLL_ 0 0 0 ENSG00000129933|ENST00000262815|MAU2 ENSG00000129933|ENST00000262815|MAU2 ENSG00000129933|ENST00000262815|MAU2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.3201904296875 2 563.318774 1124.623 2.794 0.0015739 1.1204 0.00063115 3.9144 0.0022051 563.821279230816 77.779 0.17901 78.34 78.268 78.448 0.56091 25 16 2 0 0 0 0.020338 1 37784 37784 67.838 21.817 1 2129200 5974 2567 3886 3899 6679 6679 0.06566889028476908 EYTRALFLL 9 Unmodified _EYTRALFLL_ 0 0 0 ENSG00000129933|ENST00000262815|MAU2 ENSG00000129933|ENST00000262815|MAU2 ENSG00000129933|ENST00000262815|MAU2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.8165283203125 2 563.318774 1124.623 3.4134 0.0019228 -1.4505 -0.00081709 1.9629 0.0011057 563.3187063435406 78.48 0.2747 78.733 78.524 78.799 0.25335 21 13 2 0 0 0 0.086415 2 36109 36091;36109 36.127 3.2239 1 428690 5975 2567 3886 3899 6680;6681 6681 0.06566889028476908 EYVEKFYRI 9 Unmodified _EYVEKFYRI_ 0 0 0 nc|ENSG00000113522|Q92878-3|RAD50;ENSG00000113522|ENST00000378823|RAD50;nc|ENSG00000113522|Q92878-2|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 623.8287963867188 2 623.826963 1245.63937 3.6298 0.0022644 0.18447 0.00011508 3.8143 0.0023794 623.8267885999384 46.688 0.2841 46.688 46.558 46.842 0 30 10 4 0 0 0 0.0013791 2 21401 21341;21401 137.42 72.189 1 4347000 5976 1858 3887 3900 6682;6683 6683 0.02637970194564332 EYVEKFYRI 9 Unmodified _EYVEKFYRI_ 0 0 0 nc|ENSG00000113522|Q92878-3|RAD50;ENSG00000113522|ENST00000378823|RAD50;nc|ENSG00000113522|Q92878-2|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 416.22064208984375 3 416.220401 1245.63937 2.5875 0.001077 -0.33866 -0.00014096 2.2488 0.00093601 416.22007529992715 46.688 0.2841 46.688 46.558 46.842 0 35 10 5 0 0 0 0.049036 2 21411 21359;21411 47.594 29.576 1 10592000 5977 1858 3887 3900 6684;6685 6685 0.02637970194564332 EYVEKFYRI 9 Unmodified _EYVEKFYRI_ 0 0 0 nc|ENSG00000113522|Q92878-3|RAD50;ENSG00000113522|ENST00000378823|RAD50;nc|ENSG00000113522|Q92878-2|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 623.8331298828125 2 623.826963 1245.63937 3.3933 0.0021169 0.049736 3.1027E-05 3.4431 0.0021479 623.8269962777975 45.66 0.28123 46.486 46.349 46.631 0.82621 32 14 3 0 0 0 0.0013791 2 20770 20770;20820 125.53 69.352 1 3161300 5978 1858 3887 3900 6686;6687 6686 0.02637970194564332 EYVEKFYRI 9 Unmodified _EYVEKFYRI_ 0 0 0 nc|ENSG00000113522|Q92878-3|RAD50;ENSG00000113522|ENST00000378823|RAD50;nc|ENSG00000113522|Q92878-2|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 416.22003173828125 3 416.220401 1245.63937 2.6734 0.0011127 -0.9822 -0.00040881 1.6912 0.00070389 416.219719198302 45.661 0.36166 46.487 46.313 46.674 0.82621 53 19 5 0 0 0 0.057456 2 20775 20775;20829 43.982 29.576 1 9337900 5979 1858 3887 3900 6688;6689 6688 0.02637970194564332 EYVEKFYRI 9 Unmodified _EYVEKFYRI_ 0 0 0 nc|ENSG00000113522|Q92878-3|RAD50;ENSG00000113522|ENST00000378823|RAD50;nc|ENSG00000113522|Q92878-2|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 624.3308715820312 2 623.826963 1245.63937 3.8521 0.0024031 -0.67331 -0.00042003 3.1788 0.001983 623.8260060704312 46.635 0.2476 46.901 46.703 46.951 0.26561 17 8 3 0 0 0 0.0071692 1 21283 21283 96.111 52.253 1 2259700 5980 1858 3887 3900 6690 6690 0.02637970194564332 EYVEKFYRI 9 Unmodified _EYVEKFYRI_ 0 0 0 nc|ENSG00000113522|Q92878-3|RAD50;ENSG00000113522|ENST00000378823|RAD50;nc|ENSG00000113522|Q92878-2|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 623.82861328125 2 623.826963 1245.63937 NaN NaN NaN NaN NaN NaN NaN 46.722 1 46.988 46.488 47.488 0.26561 0 0 0 0.35116 1 21354 21354 26.268 12.362 1 5981 1858 3887 3900 6691 6691 0.02637970194564332 EYVEKFYRI 9 Unmodified _EYVEKFYRI_ 0 0 0 nc|ENSG00000113522|Q92878-3|RAD50;ENSG00000113522|ENST00000378823|RAD50;nc|ENSG00000113522|Q92878-2|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 416.22119140625 3 416.220401 1245.63937 3.3049 0.0013755 -0.70007 -0.00029138 2.6048 0.0010842 416.21985667655724 45.996 0.35427 46.647 46.501 46.856 0.65104 28 10 4 0 0 0 0.035495 1 21061 21061 53.404 34.042 1 4299300 5982 1858 3887 3900 6692 6692 0.02637970194564332 EYVEKFYRI 9 Unmodified _EYVEKFYRI_ 0 0 0 nc|ENSG00000113522|Q92878-3|RAD50;ENSG00000113522|ENST00000378823|RAD50;nc|ENSG00000113522|Q92878-2|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 623.8299560546875 2 623.826963 1245.63937 4.0403 0.0025204 -0.11783 -7.3505E-05 3.9225 0.0024469 623.8266718222184 46.005 0.36074 46.656 46.468 46.829 0.65104 23 10 3 0 0 0 0.003492 2 21067 21067;21122 114.2 58.025 1 1839500 5983 1858 3887 3900 6693;6694 6693 0.02637970194564332 EYVEKFYRI 9 Unmodified _EYVEKFYRI_ 0 0 0 nc|ENSG00000113522|Q92878-3|RAD50;ENSG00000113522|ENST00000378823|RAD50;nc|ENSG00000113522|Q92878-2|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 416.220401 1245.63937 3.1303 0.0013029 0.29382 0.00012229 3.4241 0.0014252 416.2210371315629 46.637 0.27732 46.902 46.703 46.98 0.26561 0.22131 0.001101 NaN 53.404 24 9 3 NaN NaN NaN NaN 0 NaN NaN 0 5551200 5984 1858 3887 3900 0.02637970194564332 EYVKFLHKF 9 Unmodified _EYVKFLHKF_ 0 0 0 nc|ENSG00000081665|Q5JVG8-2|ZNF506;ENSG00000081665|ENST00000540806|ZNF506 nc|ENSG00000081665|Q5JVG8-2|ZNF506 nc|ENSG00000081665|Q5JVG8-2|ZNF506 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.2266540527344 3 404.225486 1209.65463 2.616 0.0010575 -0.63446 -0.00025647 1.9816 0.00080101 404.5594001708984 40.54 0.13221 41.342 41.243 41.376 0.80161 13 9 2 0 0 0 0.38625 1 18374 18374 14.405 8.2135 1 1825000 5985 921 3888 3901 6695 6695 0.058188817823975114 EYVNDFDLMKF 11 Unmodified _EYVNDFDLMKF_ 0 0 0 ENSG00000129535|ENST00000561028|NRL;ENSG00000182759|ENST00000333480|MAFA;nc|ENSG00000178573|O75444|MAF;ENSG00000178573|ENST00000326043|MAF ENSG00000129535|ENST00000561028|NRL ENSG00000129535|ENST00000561028|NRL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 711.2243041992188 2 710.826303 1419.63805 NaN NaN NaN NaN NaN NaN NaN 80.63 1 80.63 80.13 81.13 0 0 0 0 0.88712 1 40072 40072 17.443 9.8337 1 5986 2554 3889 3902 6696 6696 -0.05498031956540217 EYVNDFDLMKF 11 Unmodified _EYVNDFDLMKF_ 0 0 0 ENSG00000129535|ENST00000561028|NRL;ENSG00000182759|ENST00000333480|MAFA;nc|ENSG00000178573|O75444|MAF;ENSG00000178573|ENST00000326043|MAF ENSG00000129535|ENST00000561028|NRL ENSG00000129535|ENST00000561028|NRL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 711.33203125 2 710.826303 1419.63805 3.0244 0.0021498 0.73879 0.00052515 3.7632 0.002675 711.3281501387701 79.696 0.22314 80.016 79.889 80.112 0.31998 32 14 3 0 0 0 0.23099 1 38963 38963 27.223 18.478 1 2862900 5987 2554 3889 3902 6697 6697 -0.05498031956540217 EYVNDFDLMKF 11 Unmodified _EYVNDFDLMKF_ 0 0 0 ENSG00000129535|ENST00000561028|NRL;ENSG00000182759|ENST00000333480|MAFA;nc|ENSG00000178573|O75444|MAF;ENSG00000178573|ENST00000326043|MAF ENSG00000129535|ENST00000561028|NRL ENSG00000129535|ENST00000561028|NRL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 710.8294067382812 2 710.826303 1419.63805 3.575 0.0025412 -0.1142 -8.1174E-05 3.4608 0.00246 710.8261908756718 80.586 0.24831 80.835 80.743 80.991 0.24947 45 14 4 0 0 0 0.039944 2 37091 37091;37141 53.317 40.274 1 1507800 5988 2554 3889 3902 6698;6699 6698 -0.05498031956540217 EYVNDFDLMKF 11 Unmodified _EYVNDFDLMKF_ 0 0 0 ENSG00000129535|ENST00000561028|NRL;ENSG00000182759|ENST00000333480|MAFA;nc|ENSG00000178573|O75444|MAF;ENSG00000178573|ENST00000326043|MAF ENSG00000129535|ENST00000561028|NRL ENSG00000129535|ENST00000561028|NRL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 711.3319091796875 2 710.826303 1419.63805 4.0087 0.0028495 -0.12191 -8.666E-05 3.8868 0.0027628 710.8260950824248 80.052 0.31123 80.712 80.559 80.87 0.66016 45 19 3 0 0 0 0.070537 2 36866 36866;36917 47.732 38.987 1 1370200 5989 2554 3889 3902 6700;6701 6700 -0.05498031956540217 EYVNDFDLMKF 11 Oxidation (M) _EYVNDFDLM(Oxidation (M))KF_ EYVNDFDLM(1)KF EYVNDFDLM(46)KF 0 0 1 ENSG00000129535|ENST00000561028|NRL;ENSG00000182759|ENST00000333480|MAFA;nc|ENSG00000178573|O75444|MAF;ENSG00000178573|ENST00000326043|MAF ENSG00000129535|ENST00000561028|NRL ENSG00000129535|ENST00000561028|NRL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 718.829833984375 2 718.82376 1435.63297 4.0007 0.0028758 -0.085635 -6.1556E-05 3.9151 0.0028143 718.8235496026645 66.474 0.27243 67.131 67.004 67.276 0.65672 28 14 3 0 0 0 0.079902 1 30480 30480 46.022 25.608 1 542310 5990 2554 3889 3903 6702 6702 37 -0.06742335819149048 EYVRNQQTI 9 Unmodified _EYVRNQQTI_ 0 0 0 ENSG00000082153|ENST00000409600|BZW1;nc|ENSG00000082153|Q7L1Q6-4|BZW1;nc|ENSG00000082153|Q7L1Q6-3|BZW1;nc|ENSG00000082153|Q7L1Q6-2|BZW1 ENSG00000082153|ENST00000409600|BZW1 ENSG00000082153|ENST00000409600|BZW1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.7991943359375 2 575.796195 1149.57784 3.7376 0.0021521 0.12907 7.4317E-05 3.8667 0.0022264 575.7966357307856 22.397 0.18809 22.397 22.284 22.472 0 23 14 2 0 0 0 0.11458 1 10024 10024 29.082 12.139 1 193230 5991 926 3890 3904 6703 6703 0.009030384952893655 EYWRQHEERKR 11 Unmodified _EYWRQHEERKR_ 0 0 0 REV__nc|ENSG00000130396|P55196-2|AFDN REV__nc|ENSG00000130396|P55196-2|AFDN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 808.9056396484375 2 808.905662 1615.79677 NaN NaN NaN NaN NaN NaN NaN 80.684 1 80.684 80.184 81.184 0 0 0 0 1.0082 1 40112 40112 0 0 1 + 5992 11815 3891 3905 6704 6704 0.01350442786633721 EYWRRLRKQN 10 Unmodified _EYWRRLRKQN_ 0 0 0 ENSG00000183617|ENST00000330133|MRPL54 ENSG00000183617|ENST00000330133|MRPL54 ENSG00000183617|ENST00000330133|MRPL54 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 724.8975219726562 2 724.897109 1447.77966 NaN NaN NaN NaN NaN NaN NaN 17.313 1 17.974 17.474 18.474 0.66072 0 0 0 1.0015 1 7809 7809 0.45834 0.10771 1 5993 5391 3892 3906 6705 6705 0.07368566971490509 EYWTKRHVWEW 11 Unmodified _EYWTKRHVWEW_ 0 0 0 nc|ENSG00000135374|Q9UKW6-3|ELF5;ENSG00000135374|ENST00000257832|ELF5;nc|ENSG00000135374|Q9UKW6|ELF5 nc|ENSG00000135374|Q9UKW6-3|ELF5 nc|ENSG00000135374|Q9UKW6-3|ELF5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 810.4559936523438 2 810.391325 1618.7681 NaN NaN NaN NaN NaN NaN NaN 92.651 1 92.651 92.151 93.151 0 0 0 0 1.008 1 49289 49289 0.30703 0.30703 1 5994 2867 3893 3907 6706 6706 -0.016536748424869074 EYYDKHFTEF 10 Unmodified _EYYDKHFTEF_ 0 0 0 nc|ENSG00000114573|P38606-2|ATP6V1A;ENSG00000114573|ENST00000273398|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 460.2043151855469 3 460.203187 1377.58773 2.6713 0.0012293 0.47332 0.00021782 3.1446 0.0014472 460.5376753776434 45.484 0.39927 45.484 45.288 45.687 0 64 18 5 0 0 0 0.81759 1 20767 20767 7.0371 1.1689 1 6068100 5995 1913 3894 3908 6707 6707 -0.08595818290018542 EYYDKHFTEF 10 Unmodified _EYYDKHFTEF_ 0 0 0 nc|ENSG00000114573|P38606-2|ATP6V1A;ENSG00000114573|ENST00000273398|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 689.8047485351562 2 689.801143 1377.58773 3.6015 0.0024843 0.11545 7.964E-05 3.7169 0.002564 689.801363372651 45.476 0.28885 45.476 45.346 45.635 0 33 13 3 0 0 0 1.1312E-08 2 20825 20777;20825 139.78 108.51 1 2180000 5996 1913 3894 3908 6708;6709 6709 -0.08595818290018542 EYYDKHFTEF 10 Unmodified _EYYDKHFTEF_ 0 0 0 nc|ENSG00000114573|P38606-2|ATP6V1A;ENSG00000114573|ENST00000273398|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 689.8036499023438 2 689.801143 1377.58773 3.5861 0.0024737 -0.18642 -0.00012859 3.3997 0.0023451 689.8008273000698 44.344 0.30218 45.165 44.995 45.297 0.82074 42 15 3 0 0 0 2.7388E-05 2 20214 20157;20214 114.19 94.824 1 1713000 5997 1913 3894 3908 6710;6711 6711 -0.08595818290018542 EYYDKHFTEF 10 Unmodified _EYYDKHFTEF_ 0 0 0 nc|ENSG00000114573|P38606-2|ATP6V1A;ENSG00000114573|ENST00000273398|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 689.8033447265625 2 689.801143 1377.58773 3.6887 0.0025445 -0.58733 -0.00040514 3.1014 0.0021393 689.8012028784083 45.44 0.18329 45.707 45.62 45.803 0.26768 15 5 4 0 0 0 0.01901 1 20815 20815 80.676 61.419 1 1313400 5998 1913 3894 3908 6712 6712 -0.08595818290018542 EYYDKHFTEF 10 Unmodified _EYYDKHFTEF_ 0 0 0 nc|ENSG00000114573|P38606-2|ATP6V1A;ENSG00000114573|ENST00000273398|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 689.8040771484375 2 689.801143 1377.58773 4.1298 0.0028487 0.18035 0.00012441 4.3101 0.0029731 689.8011525021249 44.798 0.27257 45.448 45.319 45.592 0.64998 18 9 3 0 0 0 0.00060966 1 20536 20536 106.94 81.949 1 1184600 5999 1913 3894 3908 6713 6713 -0.08595818290018542 EYYPYEYYYTE 11 Unmodified _EYYPYEYYYTE_ 0 0 0 REV__nc|ENSG00000130635|P20908-2|COL5A1 REV__nc|ENSG00000130635|P20908-2|COL5A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 791.8167724609375 2 791.816655 1581.61876 NaN NaN NaN NaN NaN NaN NaN 108.33 1 108.93 108.43 109.43 0.6019 0 0 0 1.0082 1 49982 49982 0 0 1 + 6000 11824 3895 3909 6714 6714 -0.14878709766412612 EYYRGFTLF 9 Unmodified _EYYRGFTLF_ 0 0 0 nc|ENSG00000179335|P49761-3|CLK3;ENSG00000179335|ENST00000395066|CLK3;ENST00000569406.5_1_15:74914809-74922221:+|nuORF;ENST00000562078.5_1_15:74917060-74922221:+|nuORF;ENST00000454830.6_1_15:74914310-74922221:+|nuORF nc|ENSG00000179335|P49761-3|CLK3 nc|ENSG00000179335|P49761-3|CLK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 598.2938842773438 2 598.292756 1194.57096 2.7518 0.0016464 0.36055 0.00021572 3.1124 0.0018621 598.2933996383441 75.204 0.19273 75.204 75.092 75.284 0 25 17 2 0 0 0 0.02812 1 36832 36832 57.722 29.235 1 1420900 6001 5211 3896 3910 6715 6715 -0.018542743852776766 EYYRGFTLF 9 Unmodified _EYYRGFTLF_ 0 0 0 nc|ENSG00000179335|P49761-3|CLK3;ENSG00000179335|ENST00000395066|CLK3;ENST00000569406.5_1_15:74914809-74922221:+|nuORF;ENST00000562078.5_1_15:74917060-74922221:+|nuORF;ENST00000454830.6_1_15:74914310-74922221:+|nuORF nc|ENSG00000179335|P49761-3|CLK3 nc|ENSG00000179335|P49761-3|CLK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 598.2959594726562 2 598.292756 1194.57096 3.012 0.001802 -0.37405 -0.00022379 2.6379 0.0015783 598.2923607406145 74.179 0.16175 74.865 74.776 74.937 0.68662 20 13 2 0 0 0 0.057744 1 35841 35841 43.858 9.7559 1 2252600 6002 5211 3896 3910 6716 6716 -0.018542743852776766 EYYRRWERYSI 11 Unmodified _EYYRRWERYSI_ 0 0 0 REV__ENSG00000118017|ENST00000236709|A4GNT REV__ENSG00000118017|ENST00000236709|A4GNT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 810.8981323242188 2 810.899514 1619.78447 NaN NaN NaN NaN NaN NaN NaN 33.073 1 33.861 33.361 34.361 0.78795 0 0 0 1.008 1 14963 14963 0.35063 0 1 + 6003 11459 3897 3911 6717 6717 -0.0006259367637539981 EYYYKRQKS 9 Unmodified _EYYYKRQKS_ 0 0 0 REV__ENST00000551296.5_1_12:56330167-56330479:+|nuORF REV__ENST00000551296.5_1_12:56330167-56330479:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 632.708984375 2 632.81967 1263.62479 NaN NaN NaN NaN NaN NaN NaN 90.24 1 90.24 89.74 90.74 0 0 0 0 0.86044 1 47366 47366 7.2892 0.65886 1 + 6004 17255 3898 3912 6718 6718 0.003518980464150445 FAAASREVL 9 Unmodified _FAAASREVL_ 0 0 0 nc|ENSG00000006015|Q96EN9-3|REX1BD;nc|ENSG00000006015|Q96EN9-2|REX1BD;ENSG00000006015|ENST00000358607|REX1BD;ENST00000598375.5_1_19:18699887-18701110:+|nuORF;ENST00000600997.5_1_19:18699887-18701744:+|nuORF;ENST00000597371.1_1_19:18699887-18702987:+|nuORF nc|ENSG00000006015|Q96EN9-3|REX1BD nc|ENSG00000006015|Q96EN9-3|REX1BD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.2679138183594 2 482.266542 962.51853 NaN NaN NaN NaN NaN NaN NaN 36.195 1 36.989 36.489 37.489 0.79342 0 0 0 0.40345 1 16404 16404 22.736 3.4793 1 6005 339 3899 3913 6719 6719 0.03577187271753246 FAAASREVL 9 Unmodified _FAAASREVL_ 0 0 0 nc|ENSG00000006015|Q96EN9-3|REX1BD;nc|ENSG00000006015|Q96EN9-2|REX1BD;ENSG00000006015|ENST00000358607|REX1BD;ENST00000598375.5_1_19:18699887-18701110:+|nuORF;ENST00000600997.5_1_19:18699887-18701744:+|nuORF;ENST00000597371.1_1_19:18699887-18702987:+|nuORF nc|ENSG00000006015|Q96EN9-3|REX1BD nc|ENSG00000006015|Q96EN9-3|REX1BD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.2677307128906 2 482.266542 962.51853 3.2777 0.0015807 0.077745 3.7494E-05 3.3555 0.0016182 482.26652230674813 36.401 0.25059 37.027 36.913 37.164 0.62631 13 7 2 0 0 0 0.099775 1 16675 16675 32.786 10.049 1 209180 6006 339 3899 3913 6720 6720 0.03577187271753246 FAAKEDQLL 9 Unmodified _FAAKEDQLL_ 0 0 0 ENSG00000115641|ENST00000530340|FHL2 ENSG00000115641|ENST00000530340|FHL2 ENSG00000115641|ENST00000530340|FHL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.7809448242188 2 517.779482 1033.54441 3.209 0.0016615 0.24295 0.0001258 3.4519 0.0017873 517.7796345932793 44.263 0.23302 44.532 44.465 44.698 0.2694 18 11 2 0 0 0 0.0029142 1 20229 20229 96.111 30.876 1 1294000 6007 1981 3900 3914 6721 6721 0.028980367233771176 FAAKEDQLL 9 Unmodified _FAAKEDQLL_ 0 0 0 ENSG00000115641|ENST00000530340|FHL2 ENSG00000115641|ENST00000530340|FHL2 ENSG00000115641|ENST00000530340|FHL2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 517.779482 1033.54441 3.5436 0.0018348 0.3702 0.00019168 3.9138 0.0020265 517.7797489386106 43.713 0.082703 44.362 44.314 44.397 0.64872 -0.084965 4.5997E-05 NaN 96.111 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 572220 6008 1981 3900 3914 0.028980367233771176 FAALSWVGL 9 Unmodified _FAALSWVGL_ 0 0 0 REV__ENST00000269445.10_1_18:46956775-46987052:-|nuORF REV__ENST00000269445.10_1_18:46956775-46987052:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.2679138183594 2 482.268553 962.522553 NaN NaN NaN NaN NaN NaN NaN 37.127 1 37.387 36.887 37.887 0.26083 0 0 0 0.3934 1 16911 16911 23.148 0.41214 1 + 6009 15056 3901 3915 6722 6722 0.03979276765483064 FAAPCLACHF 10 Unmodified _FAAPCLACHF_ 0 0 0 REV__ENSG00000179922|ENST00000325351|ZNF784 REV__ENSG00000179922|ENST00000325351|ZNF784 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.24560546875 2 540.243698 1078.47284 3.3423 0.0018057 1.7767 0.00095988 5.1191 0.0027655 540.2446170874996 38.796 0.2794 39.434 39.307 39.586 0.63778 15 9 2 0 0 0 0.71407 1 17729 17729 12.532 1.7076 1 249370 + 6010 13814 3902 3916 6723 6723 -0.063254975064865 FAAPCLACHF 10 Unmodified _FAAPCLACHF_ 0 0 0 REV__ENSG00000179922|ENST00000325351|ZNF784 REV__ENSG00000179922|ENST00000325351|ZNF784 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 540.243698 1078.47284 3.1348 0.0016936 1.7017 0.00091934 4.8365 0.0026129 540.2447710691781 39.171 0.23093 39.435 39.344 39.575 0.26408 0.00084563 -4.3109E-05 NaN 12.532 15 8 2 NaN NaN NaN NaN 0 NaN NaN 0 226690 + 6011 13814 3902 3916 -0.063254975064865 FAAQIRLERWS 11 Unmodified _FAAQIRLERWS_ 0 0 0 REV__ENST00000265056.11_2_3:127340913-127341030:+|nuORF REV__ENST00000265056.11_2_3:127340913-127341030:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 688.8742065429688 2 688.875311 1375.73607 NaN NaN NaN NaN NaN NaN NaN 58.14 1 58.809 58.309 59.309 0.66829 0 0 0 0.95688 1 26608 26608 10.8 1.4164 1 + 6012 15028 3903 3917 6724 6724 0.06322957474367286 FACALHAYL 9 Unmodified _FACALHAYL_ 0 0 0 REV__ENSG00000144230|ENST00000486700|GPR17 REV__ENSG00000144230|ENST00000486700|GPR17 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.7551574707031 2 504.752213 1007.48987 NaN NaN NaN NaN NaN NaN NaN 35.289 1 35.912 35.412 36.412 0.62294 0 0 0 0.63602 1 16169 16169 14.582 0.67564 1 + 6013 12395 3904 3918 6725 6725 -0.013572536290325843 FADKHIQVL 9 Unmodified _FADKHIQVL_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.3074340820312 2 535.803291 1069.59203 3.1189 0.0016711 1.6448 0.00088127 4.7636 0.0025524 535.8040811671137 37.548 0.14925 37.548 37.462 37.611 0 10 5 2 0 0 0 0.053453 1 17034 17034 45.7 17.213 1 340990 6014 3406 3905 3919 6726 6726 0.06001735714221468 FADKHIQVL 9 Unmodified _FADKHIQVL_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 535.8042602539062 2 535.803291 1069.59203 3.1429 0.0016839 -0.047701 -2.5559E-05 3.0951 0.0016584 535.8028214654805 36.481 0.25859 37.274 37.08 37.338 0.79342 20 11 2 0 0 0 0.26277 1 16528 16528 19.257 5.3509 1 218830 6015 3406 3905 3919 6727 6727 0.06001735714221468 FADKHIQVL 9 Unmodified _FADKHIQVL_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.1669921875 2 535.803291 1069.59203 3.1271 0.0016755 -1.1208 -0.00060053 2.0063 0.001075 535.8034503929011 37.297 0.18359 37.558 37.447 37.63 0.26083 7 5 2 0 0 0 0.040749 1 16997 16997 36.506 16.092 1 388260 6016 3406 3905 3919 6728 6728 0.06001735714221468 FADQEVRSL 9 Unmodified _FADQEVRSL_ 0 0 0 ENSG00000011405|ENST00000691414|PIK3C2A ENSG00000011405|ENST00000691414|PIK3C2A ENSG00000011405|ENST00000691414|PIK3C2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.7744750976562 2 532.772188 1063.52982 3.1172 0.0016607 0.42834 0.00022821 3.5455 0.0018889 532.7723924002917 39.159 0.35879 39.159 38.962 39.321 0 39 13 4 0 0 0 0.0011142 2 17742 17742;17797 125.04 59.803 1 4573600 6017 414 3906 3920 6729;6730 6729 0.0005996457523451681 FADQEVRSL 9 Unmodified _FADQEVRSL_ 0 0 0 ENSG00000011405|ENST00000691414|PIK3C2A ENSG00000011405|ENST00000691414|PIK3C2A ENSG00000011405|ENST00000691414|PIK3C2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 532.7744750976562 2 532.772188 1063.52982 3.1018 0.0016525 0.49019 0.00026116 3.592 0.0019137 532.7723745981551 38.059 0.31496 38.854 38.691 39.006 0.79552 25 10 3 0 0 0 0.0020335 2 17206 17206;17273 103.82 38.589 1 4108400 6018 414 3906 3920 6731;6732 6731 0.0005996457523451681 FADQEVRSL 9 Unmodified _FADQEVRSL_ 0 0 0 ENSG00000011405|ENST00000691414|PIK3C2A ENSG00000011405|ENST00000691414|PIK3C2A ENSG00000011405|ENST00000691414|PIK3C2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 532.7739868164062 2 532.772188 1063.52982 2.9613 0.0015777 0.28841 0.00015366 3.2497 0.0017313 532.7722927852925 38.987 0.40015 39.251 39.028 39.428 0.26408 44 16 4 0 0 0 6.4275E-06 2 17741 17695;17741 148.27 75.3 1 3942200 6019 414 3906 3920 6733;6734 6734 0.0005996457523451681 FADQEVRSL 9 Unmodified _FADQEVRSL_ 0 0 0 ENSG00000011405|ENST00000691414|PIK3C2A ENSG00000011405|ENST00000691414|PIK3C2A ENSG00000011405|ENST00000691414|PIK3C2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.774169921875 2 532.772188 1063.52982 3.1811 0.0016948 0.65739 0.00035024 3.8385 0.002045 532.7724719090927 38.592 0.45978 39.229 38.974 39.433 0.63723 47 16 4 0 0 0 0.0020335 3 17650 17598;17650;17708 103.82 35.009 1 2193000 6020 414 3906 3920 6735;6736;6737 6736 0.0005996457523451681 FADSKGDVGL 10 Unmodified _FADSKGDVGL_ 0 0 0 ENSG00000197157|ENST00000354725|SND1;ENST00000485871.1_1_7:127729561-127729855:+|nuORF;ENST00000489417.5_1_7:127726971-127732107:+|nuORF ENSG00000197157|ENST00000354725|SND1 ENSG00000197157|ENST00000354725|SND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.75482177734375 2 504.753464 1007.49238 3.1937 0.001612 -0.27534 -0.00013898 2.9184 0.0014731 504.7536332626628 35.597 0.25258 35.852 35.713 35.966 0.25524 13 8 3 0 0 0 0.33566 1 16235 16235 27.223 12.642 1 321580 6021 5798 3907 3921 6738 6738 -0.011071266903741162 FADVTYEKHKN 11 Unmodified _FADVTYEKHKN_ 0 0 0 ENSG00000111817|ENST00000644252|DSE ENSG00000111817|ENST00000644252|DSE ENSG00000111817|ENST00000644252|DSE MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 676.3390502929688 2 676.335684 1350.65681 3.7278 0.0025212 0.1371 9.2726E-05 3.8649 0.002614 676.3357345515443 56.556 0.25698 56.821 56.671 56.928 0.26543 37 17 3 0 0 0 0.52054 2 25842 25842;25890 18.146 6.6516 1 1587500 6022 1777 3908 3922 6739;6740 6739 -0.004487342704578623 FADVTYEKHKN 11 Unmodified _FADVTYEKHKN_ 0 0 0 ENSG00000111817|ENST00000644252|DSE ENSG00000111817|ENST00000644252|DSE ENSG00000111817|ENST00000644252|DSE MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 676.3394165039062 2 676.335684 1350.65681 3.97 0.0026851 0.069539 4.7031E-05 4.0396 0.0027321 676.3359128863594 58.799 0.24631 59.466 59.321 59.568 0.66703 12 9 2 0 0 0 0.78292 1 26915 26915 7.609 1.8771 1 463450 6023 1777 3908 3922 6741 6741 -0.004487342704578623 FADVTYEKHKN 11 Unmodified _FADVTYEKHKN_ 0 0 0 ENSG00000111817|ENST00000644252|DSE ENSG00000111817|ENST00000644252|DSE ENSG00000111817|ENST00000644252|DSE MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 676.335684 1350.65681 3.8006 0.0025705 -1.9581 -0.0013244 1.8424 0.0012461 676.3338963628248 59.433 0.1717 59.692 59.596 59.768 0.2593 0.11289 -0.0018348 NaN 7.609 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 545500 6024 1777 3908 3922 -0.004487342704578623 FAEGFVRAL 9 Unmodified _FAEGFVRAL_ 0 0 0 ENSG00000177606|ENST00000371222|JUN ENSG00000177606|ENST00000371222|JUN ENSG00000177606|ENST00000371222|JUN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.2788391113281 2 505.276909 1008.53927 3.1938 0.0016138 0.029419 1.4865E-05 3.2233 0.0016286 505.2767587605047 62.139 0.22923 62.391 62.277 62.506 0.25245 21 9 3 0 0 0 0.057456 1 28450 28450 56.177 18.203 1 1244100 6025 5126 3909 3923 6742 6742 0.03533777651421133 FAEGFVRAL 9 Unmodified _FAEGFVRAL_ 0 0 0 ENSG00000177606|ENST00000371222|JUN ENSG00000177606|ENST00000371222|JUN ENSG00000177606|ENST00000371222|JUN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.2784118652344 2 505.276909 1008.53927 3.157 0.0015951 -0.18528 -9.3619E-05 2.9717 0.0015015 505.27689883427007 61.488 0.22197 62.151 62.065 62.287 0.66261 18 10 2 0 0 0 0.053359 2 28167 28167;28219 58.679 20.705 1 1046800 6026 5126 3909 3923 6743;6744 6743 0.03533777651421133 FAFNKYFFYRL 11 Unmodified _FAFNKYFFYRL_ 0 0 0 REV__ENSG00000081923|ENST00000648908|ATP8B1 REV__ENSG00000081923|ENST00000648908|ATP8B1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.4664001464844 3 505.930962 1514.77106 NaN NaN NaN NaN NaN NaN NaN 62.255 1 62.255 61.755 62.755 0 0 0 0 1.0079 1 29157 29157 0.50596 0 1 + 6027 10613 3910 3924 6745 6745 0.03426200282319769 FAFYFGESFS 10 Unmodified _FAFYFGESFS_ 0 0 0 REV__nc|ENSG00000095981|Q96T55-5|KCNK16 REV__nc|ENSG00000095981|Q96T55-5|KCNK16 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.0956420898438 2 601.263665 1200.51278 NaN NaN NaN NaN NaN NaN NaN 34.01 1 34.799 34.299 35.299 0.78921 0 0 0 1.0001 1 15398 15398 1.6526 0.32309 1 + 6028 10771 3911 3925 6746 6746 -0.07945956030562229 FAGDIWGEI 9 Unmodified _FAGDIWGEI_ 0 0 0 ENSG00000137955|ENST00000319942|RABGGTB ENSG00000137955|ENST00000319942|RABGGTB ENSG00000137955|ENST00000319942|RABGGTB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.2455749511719 2 504.245275 1006.476 NaN NaN NaN NaN NaN NaN NaN 35.194 1 35.817 35.317 36.317 0.62294 0 0 0 0.84134 1 16127 16127 7.9102 1.5561 1 6029 3059 3912 3926 6747 6747 -0.026982078564628864 FAGVKRVFIT 10 Unmodified _FAGVKRVFIT_ 0 0 0 REV__nc|ENSG00000175224|O75143-4|ATG13 REV__nc|ENSG00000175224|O75143-4|ATG13 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.2331848144531 3 379.897481 1136.67061 2.8014 0.0010642 0.92012 0.00034955 3.7215 0.0014138 379.89787751666626 80.749 0.47339 81.409 81.259 81.733 0.65998 35 23 2 0 0 0 0.12676 1 37342 37342 0.69767 0 1 665780 + 6030 13668 3913 3927 6748 6748 0.10774588019307885 FAHGIHEL 8 Unmodified _FAHGIHEL_ 0 0 0 ENST00000555997.1_1_14:69256252-69257717:-|nuORF;ENSG00000185650|ENST00000439696|ZFP36L1 ENST00000555997.1_1_14:69256252-69257717:-|nuORF ENST00000555997.1_1_14:69256252-69257717:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.24224853515625 2 462.240327 922.466101 2.7384 0.0012658 0.14957 6.9139E-05 2.8879 0.0013349 462.2403395602545 26.559 0.24675 26.824 26.677 26.924 0.26489 28 17 2 0 0 0 0.10962 1 12057 12057 52.693 31.822 1 331380 6031 5521 3914 3928 6749 6749 0.0017664892880020489 FAHGIHEL 8 Unmodified _FAHGIHEL_ 0 0 0 ENST00000555997.1_1_14:69256252-69257717:-|nuORF;ENSG00000185650|ENST00000439696|ZFP36L1 ENST00000555997.1_1_14:69256252-69257717:-|nuORF ENST00000555997.1_1_14:69256252-69257717:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 462.2408752441406 2 462.240327 922.466101 2.7557 0.0012738 0.34706 0.00016042 3.1028 0.0014342 462.2405066256107 26.205 0.21075 26.83 26.7 26.91 0.62505 26 12 3 0 0 0 0.13778 1 11992 11992 49.669 30.23 1 377600 6032 5521 3914 3928 6750 6750 0.0017664892880020489 FAHTNVESL 9 Unmodified _FAHTNVESL_ 0 0 0 ENST00000471856.1_1_1:146649692-146651075:+|nuORF;ENSG00000167004|ENST00000300289|PDIA3;ENST00000434494.5_1_15:44038867-44063413:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.2552795410156 2 509.253631 1016.49271 3.2671 0.0016638 0.31876 0.00016233 3.5859 0.0018261 509.2536720631743 35.083 0.25028 35.339 35.259 35.509 0.25524 16 12 2 0 0 0 0.0016284 1 15999 15999 108 47.607 1 726840 6033 4525 3915 3929 6751 6751 -0.014877069705221402 FAIPLIEKL 9 Unmodified _FAIPLIEKL_ 0 0 0 ENSG00000165732|ENST00000354185|DDX21;nc|ENSG00000165732|Q9NR30-2|DDX21 ENSG00000165732|ENST00000354185|DDX21 ENSG00000165732|ENST00000354185|DDX21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.3302612304688 2 522.328611 1042.64267 3.4743 0.0018148 -0.24283 -0.00012684 3.2315 0.0016879 522.3286407070373 85.739 0.29362 85.987 85.772 86.066 0.24857 21 11 2 0 0 0 0.035698 1 39459 39459 66.457 5.0992 1 1531800 6034 4420 3916 3930 6752 6752 0.12305265039231017 FAIPLIEKL 9 Unmodified _FAIPLIEKL_ 0 0 0 ENSG00000165732|ENST00000354185|DDX21;nc|ENSG00000165732|Q9NR30-2|DDX21 ENSG00000165732|ENST00000354185|DDX21 ENSG00000165732|ENST00000354185|DDX21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.3309326171875 2 522.328611 1042.64267 3.4879 0.0018218 0.19887 0.00010388 3.6868 0.0019257 522.3285272355818 85.133 0.47366 85.799 85.503 85.977 0.66566 48 21 3 0 0 0 0.035698 2 39206 39154;39206 57.722 5.4536 1 1016200 6035 4420 3916 3930 6753;6754 6754 0.12305265039231017 FAKNMYEL 8 Unmodified _FAKNMYEL_ 0 0 0 ENSG00000175390|ENST00000651655|EIF3F ENSG00000175390|ENST00000651655|EIF3F ENSG00000175390|ENST00000651655|EIF3F MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.2490539550781 2 508.249503 1014.48445 3.4909 0.0017743 -2.2843 -0.001161 1.2066 0.00061327 508.2483132153155 47.049 0.3142 47.312 47.151 47.466 0.26363 23 10 3 0 0 0 0.05432 2 21499 21499;21560 64.236 40.216 1 695440 6036 5030 3917 3931 6755;6756 6755 -0.0222097721150476 FAKNMYEL 8 Unmodified _FAKNMYEL_ 0 0 0 ENSG00000175390|ENST00000651655|EIF3F ENSG00000175390|ENST00000651655|EIF3F ENSG00000175390|ENST00000651655|EIF3F MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.2493591308594 2 508.249503 1014.48445 3.4673 0.0017623 -2.2531 -0.0011451 1.2143 0.00061714 508.2480891821475 46.512 0.26166 47.164 47.026 47.287 0.65219 21 9 3 0 0 0 0.05432 1 21303 21303 64.236 40.216 1 733470 6037 5030 3917 3931 6757 6757 -0.0222097721150476 FAKQIKEPI 9 Unmodified _FAKQIKEPI_ 0 0 0 REV__nc|ENSG00000165584|Q99909-2|SSX3 REV__nc|ENSG00000165584|Q99909-2|SSX3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.3192138671875 2 537.321317 1072.62808 NaN NaN NaN NaN NaN NaN NaN 101.96 1 101.96 101.46 102.46 0 0 0 0 0.90777 1 56315 56315 1.6526 0.17072 1 + 6038 13169 3918 3932 6758 6758 0.09467192891088416 FAKRQLVTL 9 Unmodified _FAKRQLVTL_ 0 0 0 nc|ENSG00000172531|P62136-3|PPP1CA;ENSG00000186298|ENST00000335007|PPP1CC;ENSG00000213639|ENST00000395366|PPP1CB;ENSG00000172531|ENST00000376745|PPP1CA;ENST00000526510.5_1_11:67166008-67168740:-|nuORF;nc|ENSG00000186298|P36873-2|PPP1CC;nc|ENSG00000172531|P62136-2|PPP1CA;ENST00000532446.5_1_11:67166008-67168991:-|nuORF;ENST00000462832.5_1_2:29006774-29038903:+|nuORF nc|ENSG00000172531|P62136-3|PPP1CA nc|ENSG00000172531|P62136-3|PPP1CA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.8387451171875 2 538.334759 1074.65496 3.3868 0.0018232 1.2273 0.00066071 4.6141 0.0024839 538.3357813647066 35.837 0.19941 36.463 36.367 36.567 0.62631 12 7 2 0 0 0 0.26277 1 16432 16432 19.257 7.0163 1 412690 6039 4877 3919 3933 6759 6759 0.12062301502282935 FAKRQLVTL 9 Unmodified _FAKRQLVTL_ 0 0 0 nc|ENSG00000172531|P62136-3|PPP1CA;ENSG00000186298|ENST00000335007|PPP1CC;ENSG00000213639|ENST00000395366|PPP1CB;ENSG00000172531|ENST00000376745|PPP1CA;ENST00000526510.5_1_11:67166008-67168740:-|nuORF;nc|ENSG00000186298|P36873-2|PPP1CC;nc|ENSG00000172531|P62136-2|PPP1CA;ENST00000532446.5_1_11:67166008-67168991:-|nuORF;ENST00000462832.5_1_2:29006774-29038903:+|nuORF nc|ENSG00000172531|P62136-3|PPP1CA nc|ENSG00000172531|P62136-3|PPP1CA MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.2264404296875 3 359.225598 1074.65496 2.6187 0.0009407 0.37712 0.00013547 2.9958 0.0010762 359.22571810473454 35.819 0.19941 36.445 36.367 36.567 0.62631 14 7 3 0 0 0 0.1026 1 16430 16430 11.495 6.1978 1 479230 6040 4877 3919 3933 6760 6760 0.12062301502282935 FAKRQLVTL 9 Unmodified _FAKRQLVTL_ 0 0 0 nc|ENSG00000172531|P62136-3|PPP1CA;ENSG00000186298|ENST00000335007|PPP1CC;ENSG00000213639|ENST00000395366|PPP1CB;ENSG00000172531|ENST00000376745|PPP1CA;ENST00000526510.5_1_11:67166008-67168740:-|nuORF;nc|ENSG00000186298|P36873-2|PPP1CC;nc|ENSG00000172531|P62136-2|PPP1CA;ENST00000532446.5_1_11:67166008-67168991:-|nuORF;ENST00000462832.5_1_2:29006774-29038903:+|nuORF nc|ENSG00000172531|P62136-3|PPP1CA nc|ENSG00000172531|P62136-3|PPP1CA MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 359.225598 1074.65496 2.5977 0.00093318 0.1189 4.271E-05 2.7166 0.00097589 359.22554163259343 36.58 0.17767 36.58 36.513 36.691 0 0.0063342 3.2958E-05 NaN 11.495 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 123570 6041 4877 3919 3933 0.12062301502282935 FAKRQLVTL 9 Unmodified _FAKRQLVTL_ 0 0 0 nc|ENSG00000172531|P62136-3|PPP1CA;ENSG00000186298|ENST00000335007|PPP1CC;ENSG00000213639|ENST00000395366|PPP1CB;ENSG00000172531|ENST00000376745|PPP1CA;ENST00000526510.5_1_11:67166008-67168740:-|nuORF;nc|ENSG00000186298|P36873-2|PPP1CC;nc|ENSG00000172531|P62136-2|PPP1CA;ENST00000532446.5_1_11:67166008-67168991:-|nuORF;ENST00000462832.5_1_2:29006774-29038903:+|nuORF nc|ENSG00000172531|P62136-3|PPP1CA nc|ENSG00000172531|P62136-3|PPP1CA MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 538.334759 1074.65496 3.0903 0.0016636 1.0798 0.00058131 4.1701 0.0022449 538.3355697898565 36.447 0.22573 36.705 36.548 36.774 0.25768 0.12064 -3.0494E-05 NaN 19.257 14 8 2 NaN NaN NaN NaN 0 NaN NaN 0 400960 6042 4877 3919 3933 0.12062301502282935 FALIFDVLE 9 Unmodified _FALIFDVLE_ 0 0 0 REV__ENSG00000182083|ENST00000319423|OR6B2 REV__ENSG00000182083|ENST00000319423|OR6B2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 356.5504150390625 3 356.198826 1065.57465 1.8948 0.00067493 -0.51588 -0.00018376 1.3789 0.00049117 356.19861023440404 12.747 0.12198 13.054 12.969 13.091 0.30727 5 3 2 0 0 0 0.1026 1 5735 5735 7.609 3.2797 1 122940 + 6043 13765 3920 3934 6761 6761 0.044483953885674055 FALLPLGIVT 10 Unmodified _FALLPLGIVT_ 0 0 0 REV__nc|ENSG00000291317|P0DTL5|TMEM276 REV__nc|ENSG00000291317|P0DTL5|TMEM276 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.3304443359375 2 522.328611 1042.64267 3.4743 0.0018148 -0.24283 -0.00012684 3.2315 0.0016879 522.3286407070373 85.739 0.29362 85.987 85.772 86.066 0.24857 21 11 2 0 0 0 0.10915 1 39396 39396 61.357 11.803 1 1531800 + 6044 18177 3921 3935 6762 6762 0.12305265039231017 FALLPLGIVT 10 Unmodified _FALLPLGIVT_ 0 0 0 REV__nc|ENSG00000291317|P0DTL5|TMEM276 REV__nc|ENSG00000291317|P0DTL5|TMEM276 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.3310546875 2 522.328611 1042.64267 3.4879 0.0018218 0.19887 0.00010388 3.6868 0.0019257 522.3285272355818 85.133 0.47366 85.799 85.503 85.977 0.66566 48 21 3 0 0 0 0.26151 1 39272 39272 46.021 7.8454 1 1016200 + 6045 18177 3921 3935 6763 6763 0.12305265039231017 FALRQAHKY 9 Unmodified _FALRQAHKY_ 0 0 0 ENSG00000112893|ENST00000261483|MAN2A1 ENSG00000112893|ENST00000261483|MAN2A1 ENSG00000112893|ENST00000261483|MAN2A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.5464782714844 3 378.545331 1132.61416 2.5312 0.00095818 0.43108 0.00016318 2.9623 0.0011214 378.5455905531738 51.441 0.31971 52.101 51.989 52.309 0.65956 26 18 2 0 0 0 0.96953 1 23560 23560 4.5289 1.2092 1 228770 6046 1825 3922 3936 6764 6764 0.05315960182656454 FAMEIDPSL 9 Unmodified _FAMEIDPSL_ 0 0 0 ENSG00000198356|ENST00000357332|GET3;ENST00000590633.1_1_19:12848319-12856427:+|nuORF ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1022.4908447265625 1 1022.48631 1021.47903 3.2531 0.0033262 -0.19164 -0.00019595 3.0614 0.0031303 1022.4863801378644 78.895 0.28532 79.146 79.002 79.287 0.25127 36 21 2 0 0 0 0.028312 2 36343 36297;36343 57.471 25.166 1 767710 6047 5884 3923 3937 6765;6766 6766 -0.030847007939769355 FAMEIDPSL 9 Unmodified _FAMEIDPSL_ 0 0 0 ENSG00000198356|ENST00000357332|GET3;ENST00000590633.1_1_19:12848319-12856427:+|nuORF ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 511.74835205078125 2 511.746793 1021.47903 3.1905 0.0016327 0.068802 3.5209E-05 3.2593 0.001668 511.7467749008194 78.89 0.32967 79.141 78.957 79.287 0.25127 60 26 3 0 0 0 0.012869 1 36331 36331 77.984 41.94 1 1289100 6048 5884 3923 3937 6767 6767 -0.030847007939769355 FAMEIDPSL 9 Unmodified _FAMEIDPSL_ 0 0 0 ENSG00000198356|ENST00000357332|GET3;ENST00000590633.1_1_19:12848319-12856427:+|nuORF ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1022.4896850585938 1 1022.48631 1021.47903 3.5389 0.0036185 0.27519 0.00028138 3.8141 0.0038999 1022.4865361030422 78.395 0.24485 79.057 78.941 79.186 0.66198 27 15 2 0 0 0 0.047285 2 36101 36101;36149 48.346 22.947 1 1148700 6049 5884 3923 3937 6768;6769 6768 -0.030847007939769355 FAMEIDPSL 9 Unmodified _FAMEIDPSL_ 0 0 0 ENSG00000198356|ENST00000357332|GET3;ENST00000590633.1_1_19:12848319-12856427:+|nuORF ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 511.7481994628906 2 511.746793 1021.47903 3.3098 0.0016938 -0.22552 -0.00011541 3.0843 0.0015784 511.7464624073063 78.393 0.33472 79.055 78.896 79.23 0.66198 45 21 3 0 0 0 0.012869 2 36112 36112;36166 77.984 33.577 1 1013500 6050 5884 3923 3937 6770;6771 6770 -0.030847007939769355 FAQQIRLHHF 10 Unmodified _FAQQIRLHHF_ 0 0 0 ENSG00000164976|ENST00000297625|MYORG ENSG00000164976|ENST00000297625|MYORG ENSG00000164976|ENST00000297625|MYORG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.5731506347656 3 432.903518 1295.68872 NaN NaN NaN NaN NaN NaN NaN 34.603 1 35.392 34.892 35.892 0.78921 0 0 0 0.99225 1 15675 15675 3.5871 0.85186 1 6051 4362 3924 3938 6772 6772 0.05270722994009702 FAQRRERL 8 Unmodified _FAQRRERL_ 0 0 0 ENST00000479976.5_1_16:840331-840735:+|nuORF ENST00000479976.5_1_16:840331-840735:+|nuORF ENST00000479976.5_1_16:840331-840735:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.20953369140625 3 359.20883 1074.60466 2.7485 0.00098729 -0.18883 -6.7828E-05 2.5597 0.00091946 359.20879237721994 12.788 0.10352 12.788 12.729 12.833 0 10 4 3 0 0 0 0.70181 1 5597 5597 5.7319 1.7875 1 974980 6052 8271 3925 3939 6773 6773 0.07034191897128039 FARAPRLP 8 Unmodified _FARAPRLP_ 0 0 0 ENSG00000167625|ENST00000301215|ZNF526 ENSG00000167625|ENST00000301215|ZNF526 ENSG00000167625|ENST00000301215|ZNF526 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.2820739746094 2 464.279786 926.54502 NaN NaN NaN NaN NaN NaN NaN 58.474 1 58.474 57.974 58.974 0 0 0 0 0.99035 1 26988 26988 4.756 4.0656 1 6053 4564 3926 3940 6774 6774 0.07880920953743953 FARAPRLP 8 Unmodified _FARAPRLP_ 0 0 0 ENSG00000167625|ENST00000301215|ZNF526 ENSG00000167625|ENST00000301215|ZNF526 ENSG00000167625|ENST00000301215|ZNF526 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.28179931640625 2 464.279786 926.54502 NaN NaN NaN NaN NaN NaN NaN 57.555 1 58.324 57.824 58.824 0.76861 0 0 0 0.99035 1 26364 26364 4.756 0.81161 1 6054 4564 3926 3940 6775 6775 0.07880920953743953 FARYHNQL 8 Unmodified _FARYHNQL_ 0 0 0 REV__ENSG00000066279|ENST00000367409|ASPM REV__ENSG00000066279|ENST00000367409|ASPM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.35888671875 2 524.769783 1047.52501 NaN NaN NaN NaN NaN NaN NaN 56.918 1 56.918 56.418 57.418 0 0 0 0 0.99035 1 26215 26215 2.8892 0 1 + 6055 10440 3927 3941 6776 6776 0.0031512522314187663 FASQVEQLI 9 Unmodified _FASQVEQLI_ 0 0 0 ENSG00000047188|ENST00000161863|YTHDC2;YTHDC2|p.L804*|1|0.43|ENSG00000047188|chr5:113563461-113563468|TAATTGTA/-|frameshift_variant ENSG00000047188|ENST00000161863|YTHDC2 ENSG00000047188|ENST00000161863|YTHDC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.7805786132812 2 517.779482 1033.54441 3.209 0.0016615 0.24295 0.0001258 3.4519 0.0017873 517.7796345932793 44.263 0.23302 44.532 44.465 44.698 0.2694 18 11 2 0 0 0 0.26277 1 20289 20289 19.257 0 1 1294000 6056 554 3928 3942 6777 6777 0.028980367233771176 FATECSWD 8 Unmodified _FATECSWD_ 0 0 0 nc|ENSG00000107518|Q5VV63-2|ATRNL1;nc|ENSG00000088812|O75882-3|ATRN;nc|ENSG00000088812|O75882-2|ATRN;ENSG00000107518|ENST00000355044|ATRNL1;ENSG00000088812|ENST00000262919|ATRN nc|ENSG00000107518|Q5VV63-2|ATRNL1 nc|ENSG00000107518|Q5VV63-2|ATRNL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 319.86370849609375 3 320.125221 957.353833 NaN NaN NaN NaN NaN NaN NaN 33.081 1 33.081 32.581 33.581 0 0 0 0 0.99035 1 14983 14983 1.4819 0.41044 1 6057 1018 3929 3943 6778 6778 -0.12654992930356457 FATECSWD 8 Unmodified _FATECSWD_ 0 0 0 nc|ENSG00000107518|Q5VV63-2|ATRNL1;nc|ENSG00000088812|O75882-3|ATRN;nc|ENSG00000088812|O75882-2|ATRN;ENSG00000107518|ENST00000355044|ATRNL1;ENSG00000088812|ENST00000262919|ATRN nc|ENSG00000107518|Q5VV63-2|ATRNL1 nc|ENSG00000107518|Q5VV63-2|ATRNL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 320.1263122558594 3 320.125221 957.353833 NaN NaN NaN NaN NaN NaN NaN 32.922 1 33.176 32.676 33.676 0.25389 0 0 0 0.99035 1 14992 14992 1.4819 0.41044 1 6058 1018 3929 3943 6779 6779 -0.12654992930356457 FAVHPEPEA 9 Unmodified _FAVHPEPEA_ 0 0 0 ENSG00000111845|ENST00000379568|PAK1IP1 ENSG00000111845|ENST00000379568|PAK1IP1 ENSG00000111845|ENST00000379568|PAK1IP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.7445068359375 2 498.742899 995.471246 NaN NaN NaN NaN NaN NaN NaN 31.331 1 31.948 31.448 32.448 0.61737 0 0 0 0.26328 1 14367 14367 28.487 17.663 1 6059 1779 3930 3944 6780 6780 -0.026670919992398012 FAVLEDHTL 9 Unmodified _FAVLEDHTL_ 0 0 0 ENSG00000152492|ENST00000392455|CCDC50;nc|ENSG00000152492|Q8IVM0|CCDC50 ENSG00000152492|ENST00000392455|CCDC50 ENSG00000152492|ENST00000392455|CCDC50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.7730712890625 2 522.771657 1043.52876 3.265 0.0017069 -0.22088 -0.00011547 3.0441 0.0015914 522.7715683002823 56.82 0.32262 56.82 56.607 56.929 0 57 25 3 0 0 0 0.0026885 2 26155 26155;26209 97.075 61.03 1 6263900 6060 3750 3931 3945 6781;6782 6781 0.008737502063240754 FAVLEDHTL 9 Unmodified _FAVLEDHTL_ 0 0 0 ENSG00000152492|ENST00000392455|CCDC50;nc|ENSG00000152492|Q8IVM0|CCDC50 ENSG00000152492|ENST00000392455|CCDC50 ENSG00000152492|ENST00000392455|CCDC50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.7738037109375 2 522.771657 1043.52876 3.0693 0.0016046 -0.19515 -0.00010202 2.8742 0.0015025 522.771597935873 55.937 0.31244 56.725 56.554 56.866 0.78711 65 24 4 0 0 0 0.00147 2 25538 25538;25587 109.63 58.923 1 5306900 6061 3750 3931 3945 6783;6784 6783 0.008737502063240754 FAVLEDHTL 9 Unmodified _FAVLEDHTL_ 0 0 0 ENSG00000152492|ENST00000392455|CCDC50;nc|ENSG00000152492|Q8IVM0|CCDC50 ENSG00000152492|ENST00000392455|CCDC50 ENSG00000152492|ENST00000392455|CCDC50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.7731323242188 2 522.771657 1043.52876 3.3159 0.0017334 -0.21383 -0.00011179 3.102 0.0016216 522.7716098392217 56.662 0.30794 56.928 56.77 57.078 0.26543 48 16 4 0 0 0 0.0019388 2 25917 25917;25968 104.8 55.132 1 7626400 6062 3750 3931 3945 6785;6786 6785 0.008737502063240754 FAVLEDHTL 9 Unmodified _FAVLEDHTL_ 0 0 0 ENSG00000152492|ENST00000392455|CCDC50;nc|ENSG00000152492|Q8IVM0|CCDC50 ENSG00000152492|ENST00000392455|CCDC50 ENSG00000152492|ENST00000392455|CCDC50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.7732543945312 2 522.771657 1043.52876 3.376 0.0017649 0.1859 9.7184E-05 3.5619 0.0018621 522.7718478196965 55.91 0.63491 56.578 56.122 56.756 0.66798 61 25 4 0 0 0 0.00147 2 25580 25580;25632 109.63 61.283 1 6609600 6063 3750 3931 3945 6787;6788 6787 0.008737502063240754 FAVYPLKRQL 10 Unmodified _FAVYPLKRQL_ 0 0 0 REV__ENSG00000124249|ENST00000372861|KCNK15 REV__ENSG00000124249|ENST00000372861|KCNK15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 412.24713134765625 3 412.248403 1233.72338 NaN NaN NaN NaN NaN NaN NaN 30.111 1 30.111 29.611 30.611 0 0 0 0 0.95328 1 13600 13600 12.873 4.1272 1 + 6064 11647 3932 3946 6789 6789 0.11586546082116911 FAWRRRAL 8 Unmodified _FAWRRRAL_ 0 0 0 REV__ENST00000324679.4_1_14:51134869-51134989:-|nuORF REV__ENST00000324679.4_1_14:51134869-51134989:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.2264404296875 3 359.213915 1074.61992 NaN NaN NaN NaN NaN NaN NaN 35.871 1 36.497 35.997 36.997 0.62631 0 0 0 0.93233 1 16430 16430 7.2892 1.5058 1 + 6065 15343 3933 3947 6790 6790 0.08559103484981279 FAYDGKDYL 9 Unmodified _FAYDGKDYL_ 0 0 0 ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.2576293945312 2 546.25584 1090.49713 3.912 0.0021369 -0.5786 -0.00031606 3.3334 0.0018209 546.2554132255253 50.921 0.44241 50.921 50.767 51.21 0 30 20 3 0 0 0 0.0061394 1 23320 23320 89.401 55.298 1 1317900 6066 6023 3934 3948 6791 6791 -0.04450242547613925 FAYDGKDYL 9 Unmodified _FAYDGKDYL_ 0 0 0 ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.2575073242188 2 546.25584 1090.49713 3.8994 0.00213 -0.29269 -0.00015988 3.6067 0.0019702 546.2555573096682 53.361 0.372 53.361 53.167 53.539 0 63 25 3 0 0 0 0.018453 3 24447 24401;24447;24502 70.332 44.933 1 5995300 6067 6023 3934 3948 6792;6793;6794 6793 -0.04450242547613925 FAYDGKDYL 9 Unmodified _FAYDGKDYL_ 0 0 0 ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.2561645507812 2 546.25584 1090.49713 3.2796 0.0017915 0.51462 0.00028111 3.7943 0.0020726 546.2558809140413 49.959 0.35897 50.782 50.591 50.95 0.82285 32 14 3 0 0 0 0.025135 2 22746 22746;22799 61.602 40.731 1 858330 6068 6023 3934 3948 6795;6796 6795 -0.04450242547613925 FAYDGKDYL 9 Unmodified _FAYDGKDYL_ 0 0 0 ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.2568359375 2 546.25584 1090.49713 2.7836 0.0015206 0.59604 0.00032559 3.3796 0.0018461 546.2560757136874 52.233 0.39618 53.044 52.846 53.242 0.81065 81 27 4 0 0 0 0.0024283 2 23752 23752;23795 99.755 61.781 1 4631600 6069 6023 3934 3948 6797;6798 6797 -0.04450242547613925 FAYDGKDYL 9 Unmodified _FAYDGKDYL_ 0 0 0 ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.2576904296875 2 546.25584 1090.49713 3.4379 0.001878 0.27858 0.00015217 3.7164 0.0020301 546.2559253147078 51.033 0.37352 51.295 51.076 51.449 0.26146 44 16 4 0 0 0 0.0020727 3 23311 23259;23311;23358 103.42 59.561 1 3841700 6070 6023 3934 3948 6799;6800;6801 6800 -0.04450242547613925 FAYDGKDYL 9 Unmodified _FAYDGKDYL_ 0 0 0 ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.258056640625 2 546.25584 1090.49713 3.6749 0.0020075 -0.1516 -8.2815E-05 3.5233 0.0019246 546.2556715173173 53.28 0.48702 53.544 53.309 53.796 0.26345 105 33 4 0 0 0 0.00038954 4 24380 24284;24332;24380;24435 133.05 93.095 1 23840000 6071 6023 3934 3948 6802;6803;6804;6805 6804 -0.04450242547613925 FAYDGKDYL 9 Unmodified _FAYDGKDYL_ 0 0 0 ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.2577514648438 2 546.25584 1090.49713 3.4587 0.0018893 0.19659 0.00010739 3.6552 0.0019967 546.255823818518 50.324 0.47781 50.981 50.758 51.236 0.65735 63 22 4 0 0 0 0.0024283 3 23016 22957;23016;23062 99.755 63.628 1 2941900 6072 6023 3934 3948 6806;6807;6808 6807 -0.04450242547613925 FAYDGKDYL 9 Unmodified _FAYDGKDYL_ 0 0 0 ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.2576293945312 2 546.25584 1090.49713 3.3573 0.0018339 0.23529 0.00012853 3.5926 0.0019625 546.2558686484289 52.852 0.412 53.516 53.319 53.731 0.6644 77 24 4 0 0 0 0.0012852 4 24150 24102;24150;24200;24257 121.53 77.676 1 26673000 6073 6023 3934 3948 6809;6810;6811;6812 6810 -0.04450242547613925 FCANTIEAVTL 11 Unmodified _FCANTIEAVTL_ 0 0 0 REV__ENSG00000167553|ENST00000301072|TUBA1C REV__ENSG00000167553|ENST00000301072|TUBA1C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.5206298828125 3 394.53388 1180.57981 NaN NaN NaN NaN NaN NaN NaN 56.287 1 56.955 56.455 57.455 0.66829 0 0 0 0.98789 1 25749 25749 7.846 0.36898 1 + 6074 13293 3935 3949 6813 6813 -0.003256688111150652 FCCCLCCCCNC 11 Unmodified _FCCCLCCCCNC_ 0 0 0 ENSG00000147570|ENST00000276570|DNAJC5B ENSG00000147570|ENST00000276570|DNAJC5B ENSG00000147570|ENST00000276570|DNAJC5B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 609.3199462890625 2 609.146999 1216.27945 NaN NaN NaN NaN NaN NaN NaN 80.581 1 80.581 80.081 81.081 0 0 0 0 1.0082 1 40028 40028 0 0 1 6075 3573 3936 3950 6814 6814 -0.3200426925920965 FCCCLCCCCNC 11 Unmodified _FCCCLCCCCNC_ 0 0 0 ENSG00000147570|ENST00000276570|DNAJC5B ENSG00000147570|ENST00000276570|DNAJC5B ENSG00000147570|ENST00000276570|DNAJC5B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 609.1478271484375 2 609.146999 1216.27945 NaN NaN NaN NaN NaN NaN NaN 88.842 1 89.52 89.02 90.02 0.67818 0 0 0 1.0082 1 40911 40911 0 0 1 6076 3573 3936 3950 6815 6815 -0.3200426925920965 FCCCLCCCCYC 11 Unmodified _FCCCLCCCCYC_ 0 0 0 REV__nc|ENSG00000101152|Q9H3Z4-2|DNAJC5 REV__nc|ENSG00000101152|Q9H3Z4-2|DNAJC5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.6766357421875 2 633.6572 1265.29985 NaN NaN NaN NaN NaN NaN NaN 93.932 1 94.018 93.518 94.518 0.086212 0 0 0 1.0082 1 49315 49315 0 0 1 + 6077 10869 3937 3951 6816 6816 -0.3221909859939842 FCCCPCCYCC 10 Unmodified _FCCCPCCYCC_ 0 0 0 ENST00000346964.6_2_3:196770181-196770280:-|nuORF ENST00000346964.6_2_3:196770181-196770280:-|nuORF ENST00000346964.6_2_3:196770181-196770280:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 574.139404296875 2 574.136958 1146.25936 NaN NaN NaN NaN NaN NaN NaN 84.076 1 84.738 84.238 85.238 0.66219 0 0 0 1.002 1 38728 38728 0 0 1 6078 7115 3938 3952 6817 6817 -0.30791696927508383 FCCCSCGDSVN 11 Unmodified _FCCCSCGDSVN_ 0 0 0 ENSG00000176723|ENST00000315678|ZNF843 ENSG00000176723|ENST00000315678|ZNF843 ENSG00000176723|ENST00000315678|ZNF843 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.1810913085938 2 569.177037 1136.33952 NaN NaN NaN NaN NaN NaN NaN 97.111 1 97.713 97.213 98.213 0.6019 0 0 0 1.0073 1 44651 44651 1.1933 0.59184 1 6079 5086 3939 3953 6818 6818 -0.22319472736808166 FCCCSNFCSPD 11 Unmodified _FCCCSNFCSPD_ 0 0 0 REV__ENST00000541164.1_19:18553911-18554356:-|nuORF REV__ENST00000541164.1_19:18553911-18554356:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.1309814453125 3 409.130884 1224.37082 NaN NaN NaN NaN NaN NaN NaN 63.645 1 64.367 63.867 64.867 0.72236 0 0 0 1.0082 1 29840 29840 0 0 1 + 6080 17216 3940 3954 6819 6819 -0.23238899702732851 FCCGTCDDQYC 11 Unmodified _FCCGTCDDQYC_ 0 0 0 nc|ENSG00000164054|Q8N114-2|SHISA5;nc|ENSG00000164054|Q8N114-5|SHISA5;ENSG00000164054|ENST00000296444|SHISA5 nc|ENSG00000164054|Q8N114-2|SHISA5 nc|ENSG00000164054|Q8N114-2|SHISA5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 629.1876220703125 2 629.187602 1256.36065 NaN NaN NaN NaN NaN NaN NaN 59.969 1 60.634 60.134 61.134 0.66503 0 0 0 1.0082 1 27450 27450 0 0 1 6081 4278 3941 3955 6820 6820 -0.25727507427950513 FCECDNFS 8 Unmodified _FCECDNFS_ 0 0 0 ENSG00000082781|ENST00000296181|ITGB5 ENSG00000082781|ENST00000296181|ITGB5 ENSG00000082781|ENST00000296181|ITGB5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.6625671386719 2 482.662403 963.310253 NaN NaN NaN NaN NaN NaN NaN 60.567 1 60.822 60.322 61.322 0.25578 0 0 0 0.99035 1 27735 27735 2.5775 1.976 1 6082 932 3942 3956 6821 6821 -0.1728692569914756 FCEMCCDC 8 Unmodified _FCEMCCDC_ 0 0 0 ENST00000285124.12_1_18:9562972-9595043:-|nuORF;nc|ENSG00000154845|Q8TF05-2|PPP4R1;ENSG00000154845|ENST00000400556|PPP4R1 ENST00000285124.12_1_18:9562972-9595043:-|nuORF ENST00000285124.12_1_18:9562972-9595043:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 953.2333984375 1 953.233014 952.225737 3.3039 0.0031494 -1.3548 -0.0012914 1.9492 0.001858 953.2273361269741 100.01 0.049759 100.01 99.984 100.03 0 5 3 2 0 0 0 0.7471 1 55133 55133 0 0 1 4705400 6083 3842 3943 3957 6822 6822 -0.2522865910342489 FCGGPGSG 8 Unmodified _FCGGPGSG_ 0 0 0 REV__ENST00000356387.6_1_7:102088095-102088605:+|nuORF REV__ENST00000356387.6_1_7:102088095-102088605:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 341.13848876953125 2 341.136682 680.25881 NaN NaN NaN NaN NaN NaN NaN 76.22 1 76.844 76.344 77.344 0.62397 0 0 0 0.99035 1 36934 36934 0.79363 0 1 + 6084 15556 3944 3958 6823 6823 -0.09410881610870092 FCITSVLDVFF 11 Unmodified _FCITSVLDVFF_ 0 0 0 REV__RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant REV__RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.8897399902344 3 430.886142 1289.6366 NaN NaN NaN NaN NaN NaN NaN 32.431 1 32.685 32.185 33.185 0.25452 0 0 0 1.0051 1 14770 14770 4.1166 0.52957 1 + 6085 13614 3945 3959 6824 6824 0.003363787453963596 FCLGEAVC 8 Unmodified _FCLGEAVC_ 0 0 0 ENST00000484848.5_1_10:102265793-102268345:-|nuORF ENST00000484848.5_1_10:102265793-102268345:-|nuORF ENST00000484848.5_1_10:102265793-102268345:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.1827697753906 2 421.182774 840.350996 NaN NaN NaN NaN NaN NaN NaN 68.34 1 68.34 67.84 68.84 0 0 0 0 0.99035 1 32900 32900 2.8892 0.31174 1 6086 8326 3946 3960 6825 6825 -0.07556539588870237 FCPCYMCM 8 Unmodified _FCPCYMCM_ 0 0 0 REV__nc|ENSG00000172322|Q5QGZ9-3|CLEC12A REV__nc|ENSG00000172322|Q5QGZ9-3|CLEC12A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.16046142578125 2 499.159073 996.303594 NaN NaN NaN NaN NaN NaN NaN 80.456 1 81.116 80.616 81.616 0.65998 0 0 0 0.99035 1 37075 37075 0.79363 0.10326 1 + 6087 16406 3947 3961 6826 6826 -0.19470601447380886 FCSMAQRA 8 Unmodified _FCSMAQRA_ 0 0 0 ENSG00000185933|ENST00000329905|CALHM1 ENSG00000185933|ENST00000329905|CALHM1 ENSG00000185933|ENST00000329905|CALHM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 305.1391906738281 3 305.138807 912.394592 NaN NaN NaN NaN NaN NaN NaN 49.195 1 49.195 48.695 49.695 0 0 0 0 0.99035 1 22531 22531 1.3295 0.13619 1 6088 5544 3948 3962 6827 6827 -0.06510930091724276 FCVHGHKI 8 Unmodified _FCVHGHKI_ 0 0 0 REV__ENSG00000124491|ENST00000264870|F13A1 REV__ENSG00000124491|ENST00000264870|F13A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.7459411621094 2 470.744722 939.474891 2.7971 0.0013167 -1.1552 -0.00054379 1.6419 0.00077293 470.7442508620663 43.398 0.38415 43.668 43.6 43.984 0.27021 25 14 2 0 0 0 0.59268 1 19893 19893 14.582 2.0501 1 319760 + 6089 11657 3949 3963 6828 6828 0.002732992936444134 FCWMLEWYC 9 Unmodified _FCWMLEWYC_ 0 0 0 REV__ENST00000262676.9_2_1:51767237-51767426:-|nuORF REV__ENST00000262676.9_2_1:51767237-51767426:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 640.7510375976562 2 640.750498 1279.48644 NaN NaN NaN NaN NaN NaN NaN 36.745 1 36.745 36.245 37.245 0 0 0 0 0.91206 1 16677 16677 0.6015 0.14316 1 + 6090 10651 3950 3964 6829 6829 -0.14212007789546988 FDADGCDS 8 Unmodified _FDADGCDS_ 0 0 0 REV__CON__P02672 REV__CON__P02672 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 830.270263671875 1 829.266875 828.259598 3.0775 0.0025521 -1.4271 -0.0011834 1.6505 0.0013687 829.2680308751312 4.3222 0.35958 4.6268 4.473 4.8326 0.30465 86 40 3 0 0 0 0.7471 1 2003 2003 0.69038 0.69038 1 40187 + + 6091 10076 3951 3965 6830 6830 -0.1614013175250193 FDCADGSD 8 Unmodified _FDCADGSD_ 0 0 0 ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 829.2697143554688 1 829.266875 828.259598 3.9085 0.0032412 -0.52256 -0.00043334 3.386 0.0028079 829.2669036586487 5.2593 0.47417 5.2593 4.9101 5.3843 0 81 58 2 0 0 0 0.7471 1 2307 2307 0.69038 0 1 59441 6092 4647 3952 3966 6831 6831 -0.1614013175250193 FDCWHPDN 8 Unmodified _FDCWHPDN_ 0 0 0 REV__ENST00000432137.1_1_9:15527225-15527390:-|nuORF REV__ENST00000432137.1_1_9:15527225-15527390:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.1343994140625 3 345.132598 1032.37597 NaN NaN NaN NaN NaN NaN NaN 68.109 1 68.768 68.268 69.268 0.65924 0 0 0 0.99035 1 31221 31221 1.4819 0.15237 1 + 6093 16270 3953 3967 6832 6832 -0.1389276846193752 FDDDDDDE 8 Unmodified _FDDDDDDE_ 0 0 0 REV__nc|ENSG00000181163|P06748-3|NPM1 REV__nc|ENSG00000181163|P06748-3|NPM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.1512451171875 2 493.148891 984.28323 NaN NaN NaN NaN NaN NaN NaN 79.083 1 79.744 79.244 80.244 0.66082 0 0 0 0.99035 1 36441 36441 2.5775 0 1 + 6094 13845 3954 3968 6833 6833 -0.20954039504988486 FDDENEDCSEC 11 Unmodified _FDDENEDCSEC_ 0 0 0 REV__ENSG00000164188|ENST00000296604|RANBP3L REV__ENSG00000164188|ENST00000296604|RANBP3L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 653.1983642578125 2 653.197732 1304.38091 NaN NaN NaN NaN NaN NaN NaN 100.3 1 100.3 99.804 100.8 0 0 0 0 1.0082 1 55334 55334 0 0 1 + 6095 13074 3955 3969 6834 6834 -0.2591034196277633 FDDGDCCD 8 Unmodified _FDDGDCCD_ 0 0 0 ENSG00000116183|ENST00000367662|PAPPA2;nc|ENSG00000116183|Q9BXP8-2|PAPPA2 ENSG00000116183|ENST00000367662|PAPPA2;nc|ENSG00000116183|Q9BXP8-2|PAPPA2 ENSG00000116183|ENST00000367662|PAPPA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 444.8864440917969 2 445.120568 888.226583 NaN NaN NaN NaN NaN NaN NaN 63.506 1 64.228 63.728 64.728 0.72236 0 0 0 0.99035 1 29752 29752 0 0 1 6096 2018;9610 3956 3970 6835 6835 -0.2220008186685618 FDDGDCCD 8 Unmodified _FDDGDCCD_ 0 0 0 ENSG00000116183|ENST00000367662|PAPPA2;nc|ENSG00000116183|Q9BXP8-2|PAPPA2 ENSG00000116183|ENST00000367662|PAPPA2;nc|ENSG00000116183|Q9BXP8-2|PAPPA2 ENSG00000116183|ENST00000367662|PAPPA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 445.1213684082031 2 445.120568 888.226583 NaN NaN NaN NaN NaN NaN NaN 65.624 1 66.333 65.833 66.833 0.70891 0 0 0 0.99035 1 31052 31052 0 0 1 6097 2018;9610 3956 3970 6836 6836 -0.2220008186685618 FDDGDCCD 8 Unmodified _FDDGDCCD_ 0 0 0 ENSG00000116183|ENST00000367662|PAPPA2;nc|ENSG00000116183|Q9BXP8-2|PAPPA2 ENSG00000116183|ENST00000367662|PAPPA2;nc|ENSG00000116183|Q9BXP8-2|PAPPA2 ENSG00000116183|ENST00000367662|PAPPA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 445.1215515136719 2 445.120568 888.226583 NaN NaN NaN NaN NaN NaN NaN 76.028 1 76.652 76.152 77.152 0.62397 0 0 0 0.99035 1 36830 36830 0 0 1 6098 2018;9610 3956 3970 6837 6837 -0.2220008186685618 FDDGDCCD 8 Unmodified _FDDGDCCD_ 0 0 0 ENSG00000116183|ENST00000367662|PAPPA2;nc|ENSG00000116183|Q9BXP8-2|PAPPA2 ENSG00000116183|ENST00000367662|PAPPA2;nc|ENSG00000116183|Q9BXP8-2|PAPPA2 ENSG00000116183|ENST00000367662|PAPPA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 445.1213684082031 2 445.120568 888.226583 NaN NaN NaN NaN NaN NaN NaN 78.516 1 78.98 78.48 79.48 0.4642 0 0 0 0.99035 1 38180 38180 0 0 1 6099 2018;9610 3956 3970 6838 6838 -0.2220008186685618 FDDGDCCD 8 Unmodified _FDDGDCCD_ 0 0 0 ENSG00000116183|ENST00000367662|PAPPA2;nc|ENSG00000116183|Q9BXP8-2|PAPPA2 ENSG00000116183|ENST00000367662|PAPPA2;nc|ENSG00000116183|Q9BXP8-2|PAPPA2 ENSG00000116183|ENST00000367662|PAPPA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 445.1209411621094 2 445.120568 888.226583 NaN NaN NaN NaN NaN NaN NaN 54.818 1 55.083 54.583 55.583 0.26543 0 0 0 0.99035 1 25057 25057 0 0 1 6100 2018;9610 3956 3970 6839 6839 -0.2220008186685618 FDDGDCCD 8 Unmodified _FDDGDCCD_ 0 0 0 ENSG00000116183|ENST00000367662|PAPPA2;nc|ENSG00000116183|Q9BXP8-2|PAPPA2 ENSG00000116183|ENST00000367662|PAPPA2;nc|ENSG00000116183|Q9BXP8-2|PAPPA2 ENSG00000116183|ENST00000367662|PAPPA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 445.1199035644531 2 445.120568 888.226583 NaN NaN NaN NaN NaN NaN NaN 64.71 1 65.367 64.867 65.867 0.65672 0 0 0 0.99035 1 29664 29664 0 0 1 6101 2018;9610 3956 3970 6840 6840 -0.2220008186685618 FDDKDRHF 8 Unmodified _FDDKDRHF_ 0 0 0 REV__CON__P02672 REV__CON__P02672 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.5027160644531 3 360.501679 1078.48321 2.6936 0.00097104 0.4471 0.00016118 3.1407 0.0011322 360.5018220776206 44.399 0.52647 45.049 44.793 45.319 0.64999 72 24 4 0 0 0 0.66653 1 20440 20440 6.2058 3.4706 1 4311300 + + 6102 10076 3957 3971 6841 6841 -0.052894752560632696 FDEDEEES 8 Unmodified _FDEDEEES_ 0 0 0 REV__nc|ENSG00000170004|Q12873-2|CHD3 REV__nc|ENSG00000170004|Q12873-2|CHD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.1759338378906 2 500.174909 998.335265 2.7781 0.0013895 -0.0765 -3.8263E-05 2.7016 0.0013513 500.17475151683334 32.814 0.34508 33.602 33.414 33.759 0.78795 77 24 5 0 0 0 0.66653 1 14843 14843 8.5933 0 1 2493300 + 6103 13417 3958 3972 6842 6842 -0.16396876091221202 FDEDEEES 8 Unmodified _FDEDEEES_ 0 0 0 REV__nc|ENSG00000170004|Q12873-2|CHD3 REV__nc|ENSG00000170004|Q12873-2|CHD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.1759338378906 2 500.174909 998.335265 3.2732 0.0016372 -0.82666 -0.00041348 2.4465 0.0012237 500.17440787912363 33.424 0.42866 33.678 33.45 33.878 0.25389 89 22 6 0 0 0 0.66653 1 15233 15233 8.5933 0 1 4232900 + 6104 13417 3958 3972 6843 6843 -0.16396876091221202 FDEDEEES 8 Unmodified _FDEDEEES_ 0 0 0 REV__nc|ENSG00000170004|Q12873-2|CHD3 REV__nc|ENSG00000170004|Q12873-2|CHD3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 500.174909 998.335265 2.855 0.001428 -0.48847 -0.00024432 2.3666 0.0011837 500.1745400754688 33.635 0.28162 33.635 33.525 33.807 0 0.0032665 8.3466E-05 NaN 8.5933 83 23 5 NaN NaN NaN NaN 0 NaN NaN 0 6048200 + 6105 13417 3958 3972 -0.16396876091221202 FDEDEEES 8 Unmodified _FDEDEEES_ 0 0 0 REV__nc|ENSG00000170004|Q12873-2|CHD3 REV__nc|ENSG00000170004|Q12873-2|CHD3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 500.174909 998.335265 2.7781 0.0013895 -0.0765 -3.8263E-05 2.7016 0.0013513 500.17475151683334 32.814 0.34508 33.602 33.414 33.759 0.78795 -0.029681 0.00049558 NaN 8.5933 77 24 5 NaN NaN NaN NaN 0 NaN NaN 0 2493300 + 6106 13417 3958 3972 -0.16396876091221202 FDEPGLPQSVI 11 Unmodified _FDEPGLPQSVI_ 0 0 0 REV__ENST00000323851.11_1_8:134249630-134249768:-|nuORF REV__ENST00000323851.11_1_8:134249630-134249768:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 601.3135986328125 2 601.308603 1200.60265 NaN NaN NaN NaN NaN NaN NaN 76.994 1 77.249 76.749 77.749 0.25533 0 0 0 0.92425 1 35455 35455 13.906 3.0821 1 + 6107 15336 3959 3973 6844 6844 0.010376735780027957 FDHMGNYPIVL 11 Unmodified _FDHMGNYPIVL_ 0 0 0 nc|ENSG00000125375|Q99766-2|DMAC2L nc|ENSG00000125375|Q99766-2|DMAC2L nc|ENSG00000125375|Q99766-2|DMAC2L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 653.3170166015625 2 653.318448 1304.62234 NaN NaN NaN NaN NaN NaN NaN 85.721 1 85.75 85.25 86.25 0.028603 0 0 0 1.0072 1 42973 42973 1.3295 0.13619 1 6108 9622 3960 3974 6845 6845 -0.01778273682884901 FDKLVPVW 8 Unmodified _FDKLVPVW_ 0 0 0 REV__ENST00000476898.1_1_X:56259159-56259459:+|nuORF REV__ENST00000476898.1_1_X:56259159-56259459:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.28411865234375 2 502.284203 1002.55385 3.1161 0.0015652 -1.9739 -0.00099144 1.1422 0.00057372 502.2836396892417 62.752 0.28831 63.001 62.95 63.239 0.24965 26 19 2 0 0 0 0.59268 1 28747 28747 14.582 2.0501 1 1018600 + 6109 16659 3961 3975 6846 6846 0.052678497995543694 FDLAGRKR 8 Unmodified _FDLAGRKR_ 0 0 0 nc|ENSG00000164694|Q4ZHG4-2|FNDC1;ENSG00000164694|ENST00000297267|FNDC1 nc|ENSG00000164694|Q4ZHG4-2|FNDC1 nc|ENSG00000164694|Q4ZHG4-2|FNDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.7821350097656 2 481.780151 961.545748 3.1782 0.0015312 0.75661 0.00036452 3.9348 0.0018957 481.7804808982403 16.589 0.56395 17.247 16.994 17.558 0.65798 70 52 2 0 0 0 0.7471 1 7437 7437 0 0 1 145410 6110 4335 3962 3976 6847 6847 0.06343715602804423 FDLRRRPKRRK 11 Unmodified _FDLRRRPKRRK_ 0 0 0 REV__ENST00000575617.1_1_16:3285285-3286042:-|nuORF REV__ENST00000575617.1_1_16:3285285-3286042:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 509.8038024902344 3 509.986687 1526.93823 NaN NaN NaN NaN NaN NaN NaN 91.864 1 91.947 91.447 92.447 0.082848 0 0 0 1.0081 1 47731 47731 0.064406 0 1 + 6111 17475 3963 3977 6848 6848 0.1958390567040169 FDSCKCSRI 9 Unmodified _FDSCKCSRI_ 0 0 0 HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|162|3|sense;HERVK-int_dup102|chr7:4583489-4590929:-|1.365261944516419|0.4463608682754711|1.61|525.0|160|3|sense HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|162|3|sense HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|162|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.4403076171875 2 529.741519 1057.46849 NaN NaN NaN NaN NaN NaN NaN 97.382 1 97.672 97.172 98.172 0.28923 0 0 0 0.90699 1 44730 44730 1.8442 0 1 6112 9408 3964 3978 6849 6849 -0.05795006720040874 FDTIFEVF 8 Unmodified _FDTIFEVF_ 0 0 0 ENSG00000140471|ENST00000314742|LINS1;nc|ENSG00000140471|Q8NG48-3|LINS1;ENST00000559149.5_1_15:101113500-101121059:-|nuORF;nc|ENSG00000140471|Q8NG48-2|LINS1 ENSG00000140471|ENST00000314742|LINS1 ENSG00000140471|ENST00000314742|LINS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.2514343261719 2 509.250026 1016.4855 3.2302 0.001645 1.0793 0.00054963 4.3095 0.0021946 509.2506113655303 21.472 0.15401 21.472 21.393 21.547 0 21 16 2 0 0 0 0.68261 1 9598 9598 2.5775 0 1 148640 6113 3202 3965 3979 6850 6850 -0.022084395709498494 FDWRLTFQWH 10 Unmodified _FDWRLTFQWH_ 0 0 0 ENSG00000257594|ENST00000529983|GALNT4 ENSG00000257594|ENST00000529983|GALNT4 ENSG00000257594|ENST00000529983|GALNT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 718.3492431640625 2 718.348929 1434.6833 NaN NaN NaN NaN NaN NaN NaN 41.071 1 41.34 40.84 41.84 0.26904 0 0 0 1.0016 1 18696 18696 0.35063 0 1 6114 6296 3966 3980 6851 6851 -0.016650005884685015 FEDEEEED 8 Unmodified _FEDEEEED_ 0 0 0 ENSG00000204950|ENST00000378075|LRRC10B ENSG00000204950|ENST00000378075|LRRC10B ENSG00000204950|ENST00000378075|LRRC10B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.8494262695312 2 521.180192 1040.34583 NaN NaN NaN NaN NaN NaN NaN 75.507 1 76.171 75.671 76.671 0.6635 0 0 0 0.99035 1 36562 36562 2.5775 0 1 6115 6035 3967 3981 6852 6852 -0.17272893436779668 FEDEMAMII 9 Unmodified _FEDEMAMII_ 0 0 0 REV__ENSG00000004779|ENST00000007516|NDUFAB1 REV__ENSG00000004779|ENST00000007516|NDUFAB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.0276489257812 2 549.745936 1097.47732 NaN NaN NaN NaN NaN NaN NaN 83.267 1 83.267 82.767 83.767 0 0 0 0 0.90511 1 41906 41906 2.3027 0 1 + 6116 10167 3968 3982 6853 6853 -0.06752077874239149 FEEEEEDEE 9 Unmodified _FEEEEEDEE_ 0 0 0 ENSG00000141456|ENST00000572293|PELP1;ENST00000573523.5_1_17:4574736-4578861:-|nuORF ENSG00000141456|ENST00000572293|PELP1 ENSG00000141456|ENST00000572293|PELP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 592.708984375 2 592.709313 1183.40407 NaN NaN NaN NaN NaN NaN NaN 105.26 1 105.26 104.76 105.76 0 0 0 0 0.91206 1 57851 57851 0.6015 0 1 6117 3257 3969 3983 6854 6854 -0.18029256582167363 FEEEYYRF 8 Unmodified _FEEEYYRF_ 0 0 0 nc|ENSG00000157214|Q8NFT2-2|STEAP2;ENSG00000157214|ENST00000394621|STEAP2 nc|ENSG00000157214|Q8NFT2-2|STEAP2 nc|ENSG00000157214|Q8NFT2-2|STEAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.7588500976562 2 591.758746 1181.50294 NaN NaN NaN NaN NaN NaN NaN 100.7 1 100.76 100.26 101.26 0.059723 0 0 0 0.99035 1 54663 54663 5.2307 0.90143 1 6118 3944 3970 3984 6855 6855 -0.08055144035961348 FEEMWAEYELE 11 Unmodified _FEEMWAEYELE_ 0 0 0 REV__OMA1|p.F477Ifs*10|1|0.05|ENSG00000162600|chr1:58481111-58481112|-/T|frameshift_variant REV__OMA1|p.F477Ifs*10|1|0.05|ENSG00000162600|chr1:58481111-58481112|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 738.3042602539062 2 738.3054 1474.59625 NaN NaN NaN NaN NaN NaN NaN 42.749 1 42.749 42.249 43.249 0 0 0 0 1.008 1 19463 19463 0.30703 0 1 + 6119 12945 3971 3985 6856 6856 -0.12206632435663778 FEGAASEV 8 Unmodified _FEGAASEV_ 0 0 0 nc|ENSG00000168016|O15050|TRANK1;ENSG00000168016|ENST00000645898|TRANK1 nc|ENSG00000168016|O15050|TRANK1 nc|ENSG00000168016|O15050|TRANK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 405.187744140625 2 405.187426 808.360298 NaN NaN NaN NaN NaN NaN NaN 33.427 1 33.427 32.927 33.927 0 0 0 0 0.99035 1 15150 15150 5.7604 0 1 6120 4593 3972 3986 6857 6857 -0.05154731707330029 FEGMYECTNGF 11 Unmodified _FEGMYECTNGF_ 0 0 0 ENSG00000116183|ENST00000367662|PAPPA2 ENSG00000116183|ENST00000367662|PAPPA2 ENSG00000116183|ENST00000367662|PAPPA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 649.2490234375 2 649.246831 1296.47911 NaN NaN NaN NaN NaN NaN NaN 62.942 1 63.191 62.691 63.691 0.24965 0 0 0 1.0038 1 28824 28824 5.7319 1.7875 1 6121 2018 3973 3987 6858 6858 -0.15727068856290316 FEIGFLVLF 9 Unmodified _FEIGFLVLF_ 0 0 0 ENSG00000164411|ENST00000525899|GJB7 ENSG00000164411|ENST00000525899|GJB7 ENSG00000164411|ENST00000525899|GJB7 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.7501220703125 2 542.807511 1083.60047 3.3414 0.0018137 -3.3526 -0.0018198 -0.011193 -6.0758E-06 542.8051525877542 37.965 0.21489 38.226 38.063 38.278 0.26083 10 6 2 0 0 0 0.099794 1 17292 17292 8.5933 0 1 338660 6122 4313 3974 3988 6859 6859 0.06201289630848805 FEKERYREWER 11 Unmodified _FEKERYREWER_ 0 0 0 ENSG00000122257|ENST00000319715|RBBP6;nc|ENSG00000122257|Q7Z6E9-2|RBBP6 ENSG00000122257|ENST00000319715|RBBP6 ENSG00000122257|ENST00000319715|RBBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 814.4395751953125 2 814.402421 1626.79029 NaN NaN NaN NaN NaN NaN NaN 97.719 1 97.719 97.219 98.219 0 0 0 0 1.0082 1 53285 53285 0 0 1 6123 2263 3975 3989 6860 6860 0.001965048352985832 FEKRWPLLYLH 11 Unmodified _FEKRWPLLYLH_ 0 0 0 REV__nc|ENSG00000158792|Q8IUW3-2|SPATA2L REV__nc|ENSG00000158792|Q8IUW3-2|SPATA2L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 751.4849853515625 2 751.419354 1500.82415 NaN NaN NaN NaN NaN NaN NaN 100.03 1 100.34 99.838 100.84 0.30835 0 0 0 1.0059 1 46254 46254 2.9952 0.26005 1 + 6124 12828 3976 3990 6861 6861 0.09377578065004855 FELYKRRWWKK 11 Unmodified _FELYKRRWWKK_ 0 0 0 REV__ENST00000433473.7_1_1:40558092-40558149:-|nuORF REV__ENST00000433473.7_1_1:40558092-40558149:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 820.4613647460938 2 820.464627 1638.9147 NaN NaN NaN NaN NaN NaN NaN 87.344 1 87.384 86.884 87.884 0.039955 0 0 0 1.0082 1 44195 44195 0 0 1 + 6125 16282 3977 3991 6862 6862 0.1208004711322701 FELYKRRWWKK 11 Unmodified _FELYKRRWWKK_ 0 0 0 REV__ENST00000433473.7_1_1:40558092-40558149:-|nuORF REV__ENST00000433473.7_1_1:40558092-40558149:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 820.3956909179688 2 820.464627 1638.9147 NaN NaN NaN NaN NaN NaN NaN 109.43 1 110.03 109.53 110.53 0.60264 0 0 0 1.0082 1 50471 50471 0 0 1 + 6126 16282 3977 3991 6863 6863 0.1208004711322701 FENYFPFQW 9 Unmodified _FENYFPFQW_ 0 0 0 ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENSG00000165102|ENST00000379644|HGSNAT;nc|ENSG00000165102|Q68CP4|HGSNAT ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENSG00000165102|ENST00000379644|HGSNAT ENST00000519705.1_1_8:43052051-43054709:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 639.2852783203125 2 639.284931 1276.55531 NaN NaN NaN NaN NaN NaN NaN 101.99 1 102.05 101.55 102.55 0.057198 0 0 0 0.90611 1 55381 55381 2.0598 0 1 6127 8625;4371 3978 3992 6864 6864 -0.07190560902358811 FERFWRNIE 9 Unmodified _FERFWRNIE_ 0 0 0 REV__nc|ENSG00000163092|A4UGR9-2|XIRP2 REV__nc|ENSG00000163092|A4UGR9-2|XIRP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 433.22283935546875 3 432.887645 1295.64111 3.2636 0.0014128 -3.1062 -0.0013446 0.15737 6.8122E-05 432.88518285553675 102.29 0.40215 102.89 102.7 103.1 0.59759 25 15 2 0 0 0 1.129 1 47368 47368 0.96228 0.33545 1 217200 + 6128 12975 3979 3993 6865 6865 0.005110240031854119 FERFWRNIE 9 Unmodified _FERFWRNIE_ 0 0 0 REV__nc|ENSG00000163092|A4UGR9-2|XIRP2 REV__nc|ENSG00000163092|A4UGR9-2|XIRP2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 432.887645 1295.64111 3.7322 0.0016156 -2.8452 -0.0012316 0.88701 0.00038398 433.22132408153834 102.39 0.76355 102.71 102.37 103.14 0.31736 -0.090359 0.00011076 NaN 0.96228 43 28 2 NaN NaN NaN NaN 0 NaN NaN 0 317080 + 6129 12975 3979 3993 0.005110240031854119 FERFWRNIE 9 Unmodified _FERFWRNIE_ 0 0 0 REV__nc|ENSG00000163092|A4UGR9-2|XIRP2 REV__nc|ENSG00000163092|A4UGR9-2|XIRP2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 432.887645 1295.64111 3.2636 0.0014128 -3.1062 -0.0013446 0.15737 6.8122E-05 432.88518285553675 102.29 0.40215 102.89 102.7 103.1 0.59759 0.090359 -0.00022824 NaN 0.96228 25 15 2 NaN NaN NaN NaN 0 NaN NaN 0 217200 + 6130 12975 3979 3993 0.005110240031854119 FERLANPLFQ 10 Unmodified _FERLANPLFQ_ 0 0 0 REV__ENST00000515664.5_1_4:175158565-175177261:-|nuORF REV__ENST00000515664.5_1_4:175158565-175177261:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.8329467773438 2 617.83258 1233.65061 NaN NaN NaN NaN NaN NaN NaN 88.134 1 88.134 87.634 88.634 0 0 0 0 0.98317 1 45652 45652 8.1555 2.4237 1 + 6131 13064 3980 3994 6866 6866 0.043127922887151726 FERLLKGF 8 Unmodified _FERLLKGF_ 0 0 0 REV__nc|ENSG00000152683|Q6NXT4-3|SLC30A6 REV__nc|ENSG00000152683|Q6NXT4-3|SLC30A6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 337.200927734375 3 337.19916 1008.57565 NaN NaN NaN NaN NaN NaN NaN 16.236 1 16.236 15.736 16.736 0 0 0 0 0.99035 1 7190 7190 1.8442 0 1 + 6132 12656 3981 3995 6867 6867 0.07170654548156108 FERLPVFN 8 Unmodified _FERLPVFN_ 0 0 0 ENSG00000067992|ENST00000379162|PDK3;nc|ENSG00000067992|Q15120-2|PDK3 ENSG00000067992|ENST00000379162|PDK3 ENSG00000067992|ENST00000379162|PDK3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 340.86614990234375 3 341.187032 1020.53927 1.9115 0.00065218 0.77423 0.00026416 2.6857 0.00091634 341.18745237768087 13.129 0.14243 13.436 13.359 13.502 0.30727 10 7 2 0 0 0 0.13877 1 5950 5950 10.824 0.75 1 66715 6133 729 3982 3996 6868 6868 0.029817776514278194 FERRRELRRQK 11 Unmodified _FERRRELRRQK_ 0 0 0 ENST00000475772.5_1_7:134552484-134552556:+|nuORF;ENST00000482470.5_1_7:134552484-134644871:+|nuORF;nc|ENSG00000122786|Q05682-4|CALD1;nc|ENSG00000122786|Q05682-6|CALD1;nc|ENSG00000122786|Q05682-2|CALD1;ENSG00000122786|ENST00000361675|CALD1 ENST00000475772.5_1_7:134552484-134552556:+|nuORF ENST00000475772.5_1_7:134552484-134552556:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.646240234375 3 525.309718 1572.90732 3.5165 0.0018473 0.13645 7.1679E-05 3.653 0.0019189 525.3096450207227 99.62 0.35492 100.22 100.07 100.42 0.59748 45 19 3 0 0 0 0.91459 2 46056 46056;46167 0.094841 0.011491 1 3754800 6134 2284 3983 3997 6869;6870 6869 0.1437870756551547 FETFHKDYYE 10 Unmodified _FETFHKDYYE_ 0 0 0 REV__nc|ENSG00000114573|P38606-2|ATP6V1A REV__nc|ENSG00000114573|P38606-2|ATP6V1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 460.2043762207031 3 460.203187 1377.58773 2.6682 0.0012279 0.1737 7.9936E-05 2.8419 0.0013078 460.20320691952116 44.348 0.39643 45.169 44.953 45.349 0.82074 72 19 5 0 0 0 0.80609 1 20203 20203 4.7159 0.87001 1 5451200 + 6135 11325 3984 3998 6871 6871 -0.08595818290018542 FETSNSNEYAD 11 Unmodified _FETSNSNEYAD_ 0 0 0 REV__ST14|p.G638Afs*124|1|0.24|ENSG00000149418|chr11:130200054-130200054|G/-|frameshift_variant REV__ST14|p.G638Afs*124|1|0.24|ENSG00000149418|chr11:130200054-130200054|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 638.7808227539062 2 638.751847 1275.48914 NaN NaN NaN NaN NaN NaN NaN 97.585 1 97.585 97.085 98.085 0 0 0 0 1.0063 1 53165 53165 2.4985 0.65425 1 + 6136 12566 3985 3999 6872 6872 -0.13758466325680274 FEVVEKLNGK 10 Unmodified _FEVVEKLNGK_ 0 0 0 ENSG00000137975|ENST00000370565|CLCA2 ENSG00000137975|ENST00000370565|CLCA2 ENSG00000137975|ENST00000370565|CLCA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.830810546875 2 581.826963 1161.63937 NaN NaN NaN NaN NaN NaN NaN 48.89 1 48.89 48.39 49.39 0 0 0 0 0.65234 1 22391 22391 26.268 0 1 6137 3062 3986 4000 6873 6873 0.06501970194563 FEVVEKLNGK 10 Unmodified _FEVVEKLNGK_ 0 0 0 ENSG00000137975|ENST00000370565|CLCA2 ENSG00000137975|ENST00000370565|CLCA2 ENSG00000137975|ENST00000370565|CLCA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.827880859375 2 581.826963 1161.63937 3.1919 0.0018571 -2.0262 -0.0011789 1.1657 0.00067822 581.8261065493816 47.787 0.16938 48.616 48.498 48.668 0.82915 11 6 2 0 0 0 0.25519 1 21765 21765 32.786 1.5173 1 413890 6138 3062 3986 4000 6874 6874 0.06501970194563 FEVVEKLNGK 10 Unmodified _FEVVEKLNGK_ 0 0 0 ENSG00000137975|ENST00000370565|CLCA2 ENSG00000137975|ENST00000370565|CLCA2 ENSG00000137975|ENST00000370565|CLCA2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 581.826963 1161.63937 3.6978 0.0021515 -0.39641 -0.00023064 3.3014 0.0019208 581.8266342270418 48.192 0.256 48.845 48.682 48.938 0.65356 0.11478 0.0003622 NaN 32.786 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 206190 6139 3062 3986 4000 0.06501970194563 FEWRREQERGR 11 Unmodified _FEWRREQERGR_ 0 0 0 nc|ENSG00000104081|Q96LC9-3|BMF nc|ENSG00000104081|Q96LC9-3|BMF nc|ENSG00000104081|Q96LC9-3|BMF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 774.8943481445312 2 774.892555 1547.77056 NaN NaN NaN NaN NaN NaN NaN 43.136 1 43.136 42.636 43.636 0 0 0 0 1.0065 1 19645 19645 2.2828 0.95324 1 6140 9580 3987 4001 6875 6875 0.018581736151418227 FEWYGTYLELC 11 Unmodified _FEWYGTYLELC_ 0 0 0 nc|ENSG00000010165|Q8N6R0-1|METTL13;nc|ENSG00000010165|Q8N6R0-4|METTL13;ENSG00000010165|ENST00000361735|METTL13 nc|ENSG00000010165|Q8N6R0-1|METTL13 nc|ENSG00000010165|Q8N6R0-1|METTL13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 712.1985473632812 2 712.315571 1422.61659 NaN NaN NaN NaN NaN NaN NaN 101.54 1 101.6 101.1 102.1 0.057198 0 0 0 1.0057 1 55137 55137 3.2813 1.6287 1 6141 395 3988 4002 6876 6876 -0.0778141698519903 FEYFGPDFKLH 11 Unmodified _FEYFGPDFKLH_ 0 0 0 ENSG00000116478|ENST00000373548|HDAC1;ENSG00000196591|ENST00000519065|HDAC2;nc|ENSG00000196591|Q92769-3|HDAC2 ENSG00000116478|ENST00000373548|HDAC1;ENSG00000196591|ENST00000519065|HDAC2 ENSG00000196591|ENST00000519065|HDAC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 700.3995361328125 2 700.337695 1398.66084 NaN NaN NaN NaN NaN NaN NaN 83.887 1 83.887 83.387 84.387 0 0 0 0 1.0059 1 42346 42346 2.9952 0 1 6142 2029;5761 3989 4003 6877 6877 -0.022546447767126665 FEYFKPKTL 9 Unmodified _FEYFKPKTL_ 0 0 0 CABIN1|p.I1015Lfs*44|1|0.05|ENSG00000099991|chr22:24084710-24084711|-/TTGAAAAAAAG|frameshift_variant;nc|ENSG00000099991|Q9Y6J0-2|CABIN1;ENSG00000099991|ENST00000263119|CABIN1 CABIN1|p.I1015Lfs*44|1|0.05|ENSG00000099991|chr22:24084710-24084711|-/TTGAAAAAAAG|frameshift_variant CABIN1|p.I1015Lfs*44|1|0.05|ENSG00000099991|chr22:24084710-24084711|-/TTGAAAAAAAG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.8193969726562 2 586.82115 1171.62775 NaN NaN NaN NaN NaN NaN NaN 71.836 1 72.499 71.999 72.999 0.66324 0 0 0 0.90699 1 32926 32926 1.8442 0 1 6143 94 3990 4004 6878 6878 0.04879773171251145 FFAWIKIFKF 10 Unmodified _FFAWIKIFKF_ 0 0 0 nc|ENSG00000078795|Q9NZM6-2|PKD2L2;nc|ENSG00000078795|Q9NZM6-7|PKD2L2;nc|ENSG00000078795|Q9NZM6-5|PKD2L2;ENSG00000078795|ENST00000508883|PKD2L2 nc|ENSG00000078795|Q9NZM6-2|PKD2L2 nc|ENSG00000078795|Q9NZM6-2|PKD2L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 673.8865356445312 2 673.886627 1345.7587 NaN NaN NaN NaN NaN NaN NaN 81.873 1 82.12 81.62 82.62 0.24722 0 0 0 1.0001 1 37685 37685 1.6526 0 1 6144 885 3991 4005 6879 6879 0.0996520860990131 FFDEWNDKQ 9 Unmodified _FFDEWNDKQ_ 0 0 0 ENST00000444842.6_1_1:215408667-215408790:+|nuORF ENST00000444842.6_1_1:215408667-215408790:+|nuORF ENST00000444842.6_1_1:215408667-215408790:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.75164794921875 3 410.180494 1227.51965 NaN NaN NaN NaN NaN NaN NaN 103.21 1 103.8 103.3 104.3 0.59821 0 0 0 0.90611 1 47748 47748 1.0715 0.3738 1 6145 7963 3992 4006 6880 6880 -0.08500643150000542 FFDLRRVYR 9 Unmodified _FFDLRRVYR_ 0 0 0 REV__nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3 REV__nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 424.57305908203125 3 424.571768 1270.69348 2.7741 0.0011778 0.46962 0.00019939 3.2437 0.0013772 424.57199594748846 43.038 0.23998 43.038 42.874 43.114 0 21 12 2 0 0 0 0.26118 1 19574 19574 19.362 4.9566 1 2985000 + 6146 11930 3993 4007 6881 6881 0.06895607136789295 FFDNISSEL 9 Unmodified _FFDNISSEL_ 0 0 0 nc|ENSG00000149657|Q9BX40-2|LSM14B;ENSG00000149657|ENST00000279068|LSM14B nc|ENSG00000149657|Q9BX40-2|LSM14B nc|ENSG00000149657|Q9BX40-2|LSM14B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.2551879882812 2 536.253297 1070.49204 2.8128 0.0015084 0.1425 7.6414E-05 2.9553 0.0015848 536.2533108656266 77.012 0.25212 77.268 77.149 77.402 0.25533 40 22 2 0 0 0 0.071101 1 35465 35465 39.957 23.015 1 926360 6147 3655 3994 4008 6882 6882 -0.04038546410242816 FFDNISSEL 9 Unmodified _FFDNISSEL_ 0 0 0 nc|ENSG00000149657|Q9BX40-2|LSM14B;ENSG00000149657|ENST00000279068|LSM14B nc|ENSG00000149657|Q9BX40-2|LSM14B nc|ENSG00000149657|Q9BX40-2|LSM14B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.2529296875 2 536.253297 1070.49204 2.9281 0.0015702 0.27772 0.00014893 3.2058 0.0017191 536.2531085075933 76.645 0.2476 77.309 77.173 77.421 0.66387 26 18 2 0 0 0 0.0014219 1 35302 35302 111.29 26.015 1 1036500 6148 3655 3994 4008 6883 6883 -0.04038546410242816 FFDPSLLHL 9 Unmodified _FFDPSLLHL_ 0 0 0 nc|ENSG00000087111|Q96S52-2|PIGS;ENSG00000087111|ENST00000308360|PIGS;ENST00000487231.5_1_17:26881240-26882135:-|nuORF;ENST00000492429.2_1_17:26881240-26883317:-|nuORF nc|ENSG00000087111|Q96S52-2|PIGS nc|ENSG00000087111|Q96S52-2|PIGS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.79296875 2 544.792392 1087.57023 3.633 0.0019792 0.12525 6.8233E-05 3.7582 0.0020475 544.7924895472247 83.678 0.2359 84.34 84.2 84.436 0.66219 37 15 3 0 0 0 0.026068 1 38527 38527 60.39 38.643 1 854410 6149 996 3995 4009 6884 6884 0.0299493096565584 FFDPSLLHL 9 Unmodified _FFDPSLLHL_ 0 0 0 nc|ENSG00000087111|Q96S52-2|PIGS;ENSG00000087111|ENST00000308360|PIGS;ENST00000487231.5_1_17:26881240-26882135:-|nuORF;ENST00000492429.2_1_17:26881240-26883317:-|nuORF nc|ENSG00000087111|Q96S52-2|PIGS nc|ENSG00000087111|Q96S52-2|PIGS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 544.792392 1087.57023 3.4891 0.0019008 0.1062 5.7858E-05 3.5953 0.0019587 544.7924494362262 84.131 0.29913 84.379 84.235 84.534 0.24757 0.019385 -9.2667E-06 NaN 60.39 33 15 3 NaN NaN NaN NaN 0 NaN NaN 0 968730 6150 996 3995 4009 0.0299493096565584 FFDPSLLHLL 10 Unmodified _FFDPSLLHLL_ 0 0 0 nc|ENSG00000087111|Q96S52-2|PIGS;ENSG00000087111|ENST00000308360|PIGS;ENST00000487231.5_1_17:26881240-26882135:-|nuORF;ENST00000492429.2_1_17:26881240-26883317:-|nuORF nc|ENSG00000087111|Q96S52-2|PIGS nc|ENSG00000087111|Q96S52-2|PIGS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 601.3377685546875 2 601.334424 1200.6543 4.5059 0.0027095 -1.409 -0.00084728 3.0969 0.0018623 601.3343307040074 96.689 0.27176 96.967 96.835 97.107 0.27778 27 15 3 0 0 0 0.042035 1 44427 44427 64.236 44.979 1 1194800 6151 996 3996 4010 6885 6885 0.06199462062568273 FFDPSLLHLL 10 Unmodified _FFDPSLLHLL_ 0 0 0 nc|ENSG00000087111|Q96S52-2|PIGS;ENSG00000087111|ENST00000308360|PIGS;ENST00000487231.5_1_17:26881240-26882135:-|nuORF;ENST00000492429.2_1_17:26881240-26883317:-|nuORF nc|ENSG00000087111|Q96S52-2|PIGS nc|ENSG00000087111|Q96S52-2|PIGS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 601.334424 1200.6543 4.1134 0.0024735 -1.9894 -0.0011963 2.124 0.0012772 601.3336467400304 96.162 0.2395 96.77 96.6 96.84 0.60769 -0.098528 -0.00044082 NaN 64.236 19 12 3 NaN NaN NaN NaN 0 NaN NaN 0 818650 6152 996 3996 4010 0.06199462062568273 FFEDPLEAV 9 Unmodified _FFEDPLEAV_ 0 0 0 REV__ENSG00000198356|ENST00000357332|GET3 REV__ENSG00000198356|ENST00000357332|GET3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.7593994140625 2 533.758215 1065.50188 2.8086 0.0014991 -0.03847 -2.0533E-05 2.7701 0.0014786 533.7581054985329 14.29 0.12722 14.597 14.527 14.654 0.3069 12 6 3 0 0 0 0.056465 1 6470 6470 44.407 2.3125 1 1841900 + 6153 14334 3997 4011 6886 6886 -0.0282535840485707 FFEDPLEAV 9 Unmodified _FFEDPLEAV_ 0 0 0 REV__ENSG00000198356|ENST00000357332|GET3 REV__ENSG00000198356|ENST00000357332|GET3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 533.758215 1065.50188 2.8086 0.0014991 -0.03847 -2.0533E-05 2.7701 0.0014786 533.7581054985329 14.29 0.12722 14.597 14.527 14.654 0.3069 -0.16062 3.2867E-05 NaN 44.407 12 6 3 NaN NaN NaN NaN 0 NaN NaN 0 1841900 + 6154 14334 3997 4011 -0.0282535840485707 FFEEVWQRRWW 11 Unmodified _FFEEVWQRRWW_ 0 0 0 REV__nc|ENSG00000100258|Q9BU23-3|LMF2 REV__nc|ENSG00000100258|Q9BU23-3|LMF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 834.90576171875 2 834.907142 1667.79973 NaN NaN NaN NaN NaN NaN NaN 54.672 1 55.467 54.967 55.967 0.79552 0 0 0 1.0082 1 24949 24949 0 0 1 + 6155 10815 3998 4012 6887 6887 -0.007456820885636262 FFEPTSALM 9 Unmodified _FFEPTSALM_ 0 0 0 REV__nc|ENSG00000133627|Q9P1U1-2|ACTR3B REV__nc|ENSG00000133627|Q9P1U1-2|ACTR3B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.7493286132812 2 521.749336 1041.48412 NaN NaN NaN NaN NaN NaN NaN 31.861 1 31.861 31.361 32.361 0 0 0 0 0.84134 1 14420 14420 7.9102 0 1 + 6156 11938 3999 4013 6888 6888 -0.03496396931382151 FFFFFFFFRPP 11 Unmodified _FFFFFFFFRPP_ 0 0 0 REV__ENST00000527958.5_1_11:117039007-117039196:+|nuORF REV__ENST00000527958.5_1_11:117039007-117039196:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.927734375 3 515.928781 1544.76451 NaN NaN NaN NaN NaN NaN NaN 53.183 1 53.447 52.947 53.947 0.26345 0 0 0 1.0082 1 24318 24318 0.08335 0 1 + 6157 17109 4000 4014 6889 6889 0.013923071215913296 FFFFFFRYQHQ 11 Unmodified _FFFFFFRYQHQ_ 0 0 0 ENST00000555275.5_1_14:58740703-58758361:-|nuORF ENST00000555275.5_1_14:58740703-58758361:-|nuORF ENST00000555275.5_1_14:58740703-58758361:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.4625244140625 2 807.388054 1612.76155 NaN NaN NaN NaN NaN NaN NaN 18.391 1 18.391 17.891 18.891 0 0 0 0 1.0072 1 8171 8171 1.3295 0 1 6158 8915 4001 4015 6890 6890 -0.02031568003189932 FFFFLFSFLFF 11 Unmodified _FFFFLFSFLFF_ 0 0 0 REV__ENST00000392842.5_1_12:106976790-107075774:+|nuORF REV__ENST00000392842.5_1_12:106976790-107075774:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 503.5989074707031 3 503.593287 1507.75803 NaN NaN NaN NaN NaN NaN NaN 61.926 1 61.926 61.426 62.426 0 0 0 0 0.99176 1 28953 28953 7.4771 2.0744 1 + 6159 15936 4002 4016 6891 6891 0.024463691702294454 FFFFLFSFLFF 11 Unmodified _FFFFLFSFLFF_ 0 0 0 REV__ENST00000392842.5_1_12:106976790-107075774:+|nuORF REV__ENST00000392842.5_1_12:106976790-107075774:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.5952453613281 3 503.593287 1507.75803 3.2055 0.0016143 0.11744 5.914E-05 3.323 0.0016734 503.59337082314784 62.024 0.25388 62.276 62.155 62.409 0.25245 35 12 4 0 0 0 0.52957 2 28420 28376;28420 17.863 3.2034 1 2608800 + 6160 15936 4002 4016 6892;6893 6893 0.024463691702294454 FFFFLFSFLFF 11 Unmodified _FFFFLFSFLFF_ 0 0 0 REV__ENST00000392842.5_1_12:106976790-107075774:+|nuORF REV__ENST00000392842.5_1_12:106976790-107075774:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 754.8882446289062 2 754.886293 1507.75803 3.8126 0.0028781 -0.31041 -0.00023433 3.5022 0.0026437 754.8860602061078 62.046 0.22412 62.299 62.184 62.409 0.25245 21 10 3 0 0 0 0.79584 1 28422 28422 5.2969 3.9674 1 1085300 + 6161 15936 4002 4016 6894 6894 0.024463691702294454 FFFFLFSFLFF 11 Unmodified _FFFFLFSFLFF_ 0 0 0 REV__ENST00000392842.5_1_12:106976790-107075774:+|nuORF REV__ENST00000392842.5_1_12:106976790-107075774:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.59454345703125 3 503.593287 1507.75803 3.1629 0.0015928 -0.1069 -5.3835E-05 3.056 0.001539 503.59325171080644 61.386 0.2097 62.049 61.956 62.166 0.66261 37 13 3 0 0 0 0.52957 1 28092 28092 17.863 3.645 1 3399900 + 6162 15936 4002 4016 6895 6895 0.024463691702294454 FFFFLFSFLFF 11 Unmodified _FFFFLFSFLFF_ 0 0 0 REV__ENST00000392842.5_1_12:106976790-107075774:+|nuORF REV__ENST00000392842.5_1_12:106976790-107075774:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 503.593287 1507.75803 3.2055 0.0016143 0.11744 5.914E-05 3.323 0.0016734 503.59337082314784 62.024 0.25388 62.276 62.155 62.409 0.25245 0.11389 0.00015802 NaN 17.863 35 12 4 NaN NaN NaN NaN 0 NaN NaN 0 2608800 + 6163 15936 4002 4016 0.024463691702294454 FFFFLFSFLFF 11 Unmodified _FFFFLFSFLFF_ 0 0 0 REV__ENST00000392842.5_1_12:106976790-107075774:+|nuORF REV__ENST00000392842.5_1_12:106976790-107075774:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 754.886293 1507.75803 3.8667 0.0029189 -0.95019 -0.00071729 2.9165 0.0022017 754.8851708282473 61.375 0.15871 62.037 61.963 62.122 0.66261 -0.13078 -0.00056688 NaN 5.2969 15 9 2 NaN NaN NaN NaN 0 NaN NaN 0 1220500 + 6164 15936 4002 4016 0.024463691702294454 FFFFLFSFLFF 11 Unmodified _FFFFLFSFLFF_ 0 0 0 REV__ENST00000392842.5_1_12:106976790-107075774:+|nuORF REV__ENST00000392842.5_1_12:106976790-107075774:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 503.593287 1507.75803 3.1629 0.0015928 -0.1069 -5.3835E-05 3.056 0.001539 503.59325171080644 61.386 0.2097 62.049 61.956 62.166 0.66261 -0.11389 -0.0001809 NaN 17.863 37 13 3 NaN NaN NaN NaN 0 NaN NaN 0 3399900 + 6165 15936 4002 4016 0.024463691702294454 FFFGVCFKF 9 Unmodified _FFFGVCFKF_ 0 0 0 REV__ENST00000489781.2_1_12:122701002-122701362:-|nuORF REV__ENST00000489781.2_1_12:122701002-122701362:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.2781372070312 2 571.280606 1140.54666 NaN NaN NaN NaN NaN NaN NaN 32.068 1 32.687 32.187 33.187 0.61831 0 0 0 0.89509 1 14705 14705 4.756 0.42677 1 + 6166 16796 4003 4017 6896 6896 -0.017992060724964176 FFFIFIIFYF 10 Unmodified _FFFIFIIFYF_ 0 0 0 REV__ENST00000483298.1_1_10:64953077-64954292:-|nuORF REV__ENST00000483298.1_1_10:64953077-64954292:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 702.3762817382812 2 702.375561 1402.73657 NaN NaN NaN NaN NaN NaN NaN 25.262 1 26.026 25.526 26.526 0.76356 0 0 0 1.0015 1 11335 11335 0.45834 0 1 + 6167 16718 4004 4018 6897 6897 0.05130984141510453 FFFLHIYY 8 Unmodified _FFFLHIYY_ 0 0 0 REV__MER4-int_dup1854|chrY:4104844-4107652:+|1.373527874812219|0.2382143427425708|2.53|399.0|72|3|sense REV__MER4-int_dup1854|chrY:4104844-4107652:+|1.373527874812219|0.2382143427425708|2.53|399.0|72|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.2916870117188 2 575.292028 1148.5695 NaN NaN NaN NaN NaN NaN NaN 69.829 1 70.085 69.585 70.585 0.25573 0 0 0 0.82704 1 31976 31976 17.087 0.14425 1 + 6168 17832 4005 4019 6898 6898 0.0011613631661475665 FFIKRRFRSLR 11 Unmodified _FFIKRRFRSLR_ 0 0 0 ENSG00000091536|ENST00000647165|MYO15A ENSG00000091536|ENST00000647165|MYO15A ENSG00000091536|ENST00000647165|MYO15A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 382.48828125 4 382.236119 1524.91537 2.6944 0.0010299 1.4688 0.00056144 4.1632 0.0015913 382.48746214804225 77.723 0.37067 77.977 77.857 78.228 0.25335 42 21 3 0 0 0 0.91459 1 35808 35808 0.094841 0.021578 1 768070 6169 1079 4006 4020 6899 6899 0.17390886552971097 FFIKRRFRSLR 11 Unmodified _FFIKRRFRSLR_ 0 0 0 ENSG00000091536|ENST00000647165|MYO15A ENSG00000091536|ENST00000647165|MYO15A ENSG00000091536|ENST00000647165|MYO15A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 382.236119 1524.91537 1.9079 0.00072928 1.6909 0.00064633 3.5988 0.0013756 382.2367685181054 77.393 0.16752 77.954 77.859 78.027 0.56091 -0.028751 -0.00021693 NaN 0.094841 21 12 3 NaN NaN NaN NaN 0 NaN NaN 0 818570 6170 1079 4006 4020 0.17390886552971097 FFIKRRFRSLR 11 Unmodified _FFIKRRFRSLR_ 0 0 0 ENSG00000091536|ENST00000647165|MYO15A ENSG00000091536|ENST00000647165|MYO15A ENSG00000091536|ENST00000647165|MYO15A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 382.236119 1524.91537 2.6944 0.0010299 1.4688 0.00056144 4.1632 0.0015913 382.48746214804225 77.723 0.37067 77.977 77.857 78.228 0.25335 -0.0060308 -0.00055649 NaN 0.094841 42 21 3 NaN NaN NaN NaN 0 NaN NaN 0 768070 6171 1079 4006 4020 0.17390886552971097 FFIKRRFRSLR 11 Unmodified _FFIKRRFRSLR_ 0 0 0 ENSG00000091536|ENST00000647165|MYO15A ENSG00000091536|ENST00000647165|MYO15A ENSG00000091536|ENST00000647165|MYO15A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 382.236119 1524.91537 2.5492 0.0009744 2.463 0.00094145 5.0122 0.0019159 382.48784965459345 77.355 0.34526 78.018 77.906 78.252 0.66303 0.034782 0.00096359 NaN 0.094841 54 24 3 NaN NaN NaN NaN 0 NaN NaN 0 549900 6172 1079 4006 4020 0.17390886552971097 FFIPVGTLIII 11 Unmodified _FFIPVGTLIII_ 0 0 0 REV__ENSG00000130876|ENST00000253188|SLC7A10 REV__ENSG00000130876|ENST00000253188|SLC7A10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 411.59466552734375 3 411.593287 1231.75803 NaN NaN NaN NaN NaN NaN NaN 14.629 1 14.629 14.129 15.129 0 0 0 0 1.0073 1 6448 6448 0.40827 0.13925 1 + 6173 11836 4007 4021 6900 6900 0.15142369170234815 FFKDRHWLF 9 Unmodified _FFKDRHWLF_ 0 0 0 nc|ENSG00000165055|Q6P1Q9-2|METTL2B;ENST00000482555.5_1_7:128117100-128141967:+|nuORF;ENST00000333483.14_1_17:60501544-60526087:+|nuORF;ENSG00000165055|ENST00000262432|METTL2B;ENSG00000087995|ENST00000311506|METTL2A nc|ENSG00000165055|Q6P1Q9-2|METTL2B nc|ENSG00000165055|Q6P1Q9-2|METTL2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 432.5625915527344 3 432.560981 1294.66111 NaN NaN NaN NaN NaN NaN NaN 58.339 1 58.339 57.839 58.839 0 0 0 0 0.12106 1 26920 26920 37.771 17.19 1 6174 1006 4008 4022 6901 6901 0.025568197338088794 FFKDRHWLF 9 Unmodified _FFKDRHWLF_ 0 0 0 nc|ENSG00000165055|Q6P1Q9-2|METTL2B;ENST00000482555.5_1_7:128117100-128141967:+|nuORF;ENST00000333483.14_1_17:60501544-60526087:+|nuORF;ENSG00000165055|ENST00000262432|METTL2B;ENSG00000087995|ENST00000311506|METTL2A nc|ENSG00000165055|Q6P1Q9-2|METTL2B nc|ENSG00000165055|Q6P1Q9-2|METTL2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.5619201660156 3 432.560981 1294.66111 2.5057 0.0010839 0.87906 0.00038025 3.3848 0.0014641 432.8961825677485 57.162 0.2156 57.93 57.827 58.043 0.76861 38 22 2 0 0 0 0.14419 1 26161 26161 27.088 5.4982 1 1751200 6175 1006 4008 4022 6902 6902 0.025568197338088794 FFKERVMEI 9 Unmodified _FFKERVMEI_ 0 0 0 ENSG00000092201|ENST00000216297|SUPT16H;ENST00000537175.1_1_12:16554719-16554995:-|nuORF;ENST00000556217.5_1_14:21837875-21852161:-|nuORF ENSG00000092201|ENST00000216297|SUPT16H ENSG00000092201|ENST00000216297|SUPT16H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 599.8203125 2 599.818084 1197.62162 4.0018 0.0024003 -0.9016 -0.0005408 3.1002 0.0018595 600.3193774867558 47.759 0.14187 48.413 48.34 48.482 0.65356 9 6 2 0 0 0 0.24524 1 21885 21885 20.415 9.5906 1 266240 6176 1095 4009 4023 6903 6903 0.0307093166809409 FFKFLAWIYT 10 Unmodified _FFKFLAWIYT_ 0 0 0 ENSG00000014824|ENST00000264451|SLC30A9 ENSG00000014824|ENST00000264451|SLC30A9 ENSG00000014824|ENST00000264451|SLC30A9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 668.3643798828125 2 668.360442 1334.70633 NaN NaN NaN NaN NaN NaN NaN 104.05 1 104.37 103.87 104.87 0.31863 0 0 0 1.0003 1 48080 48080 1.4819 0 1 6177 436 4010 4024 6904 6904 0.05236625476300105 FFKKRVRRWIK 11 Unmodified _FFKKRVRRWIK_ 0 0 0 ENSG00000118515|ENST00000367858|SGK1 ENSG00000118515|ENST00000367858|SGK1 ENSG00000118515|ENST00000367858|SGK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 782.0582885742188 2 782.490979 1562.96741 NaN NaN NaN NaN NaN NaN NaN 30.982 1 31.771 31.271 32.271 0.78879 0 0 0 1.0079 1 13996 13996 1.3295 1.3295 1 6178 2118 4011 4025 6905 6905 0.20844049966717648 FFKPHWDEKF 10 Unmodified _FFKPHWDEKF_ 0 0 0 ENSG00000149257|ENST00000358171|SERPINH1 ENSG00000149257|ENST00000358171|SERPINH1 ENSG00000149257|ENST00000358171|SERPINH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 461.2319641113281 3 460.896029 1379.66626 2.8061 0.0012933 0.11565 5.3301E-05 2.9218 0.0013466 460.8960116372791 48.708 0.41021 48.708 48.466 48.876 0 63 24 3 0 0 0 0.019288 2 22307 22255;22307 78.116 66.484 1 1381500 6179 3635 4012 4026 6906;6907 6907 -0.008389211942812835 FFKPHWDEKF 10 Unmodified _FFKPHWDEKF_ 0 0 0 ENSG00000149257|ENST00000358171|SERPINH1 ENSG00000149257|ENST00000358171|SERPINH1 ENSG00000149257|ENST00000358171|SERPINH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 460.89739990234375 3 460.896029 1379.66626 2.6543 0.0012233 0.15068 6.9447E-05 2.8049 0.0012928 461.23005700117466 47.381 0.36182 48.21 48.013 48.375 0.82915 50 22 3 0 0 0 0.12962 2 21569 21569;21616 48.561 38.246 1 1900300 6180 3635 4012 4026 6908;6909 6908 -0.008389211942812835 FFKPHWDEKF 10 Unmodified _FFKPHWDEKF_ 0 0 0 ENSG00000149257|ENST00000358171|SERPINH1 ENSG00000149257|ENST00000358171|SERPINH1 ENSG00000149257|ENST00000358171|SERPINH1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 460.896029 1379.66626 2.8861 0.0013302 -0.27265 -0.00012566 2.6135 0.0012045 460.89581244386943 48.589 0.23052 48.851 48.725 48.955 0.26209 0.11845 -0.00069773 NaN 78.116 21 9 3 NaN NaN NaN NaN 0 NaN NaN 0 1103100 6181 3635 4012 4026 -0.008389211942812835 FFKPHWDEKF 10 Unmodified _FFKPHWDEKF_ 0 0 0 ENSG00000149257|ENST00000358171|SERPINH1 ENSG00000149257|ENST00000358171|SERPINH1 ENSG00000149257|ENST00000358171|SERPINH1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 460.896029 1379.66626 2.9572 0.0013629 0.54947 0.00025325 3.5066 0.0016162 461.2306173913743 47.986 0.41569 48.64 48.482 48.897 0.65356 -0.093374 0.00043901 NaN 78.116 35 15 3 NaN NaN NaN NaN 0 NaN NaN 0 803690 6182 3635 4012 4026 -0.008389211942812835 FFLDGKEARKG 11 Unmodified _FFLDGKEARKG_ 0 0 0 ENST00000310137.4_1_11:66394378-66394552:+|nuORF ENST00000310137.4_1_11:66394378-66394552:+|nuORF ENST00000310137.4_1_11:66394378-66394552:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.1259765625 2 634.343312 1266.67207 NaN NaN NaN NaN NaN NaN NaN 74.974 1 74.974 74.474 75.474 0 0 0 0 1.0044 1 36722 36722 4.897 0.36815 1 6183 6863 4013 4027 6910 6910 0.04940177317416783 FFLFFLLIRFC 11 Unmodified _FFLFFLLIRFC_ 0 0 0 ENST00000574951.5_1_17:4883690-4883894:-|nuORF ENST00000574951.5_1_17:4883690-4883894:-|nuORF ENST00000574951.5_1_17:4883690-4883894:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 733.5057373046875 2 733.406869 1464.79919 NaN NaN NaN NaN NaN NaN NaN 60.601 1 61.34 60.84 61.84 0.7396 0 0 0 1.0057 1 27991 27991 3.2813 1.9518 1 6184 9115 4014 4028 6911 6911 0.08537806938056747 FFLGPWWHKWR 11 Unmodified _FFLGPWWHKWR_ 0 0 0 REV__ENST00000373115.4_1_10:73771236-73771377:+|nuORF REV__ENST00000373115.4_1_10:73771236-73771377:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.6079711914062 3 520.606813 1558.79861 NaN NaN NaN NaN NaN NaN NaN 68.699 1 68.699 68.199 69.199 0 0 0 0 1.0082 1 33094 33094 0.094841 0 1 + 6185 15763 4015 4029 6912 6912 0.041561483332088756 FFLPIEINK 9 Unmodified _FFLPIEINK_ 0 0 0 REV__OR7G1|p.V172I|1|0.06|ENSG00000161807|chr19:9115250-9115250|C/T|missense_variant REV__OR7G1|p.V172I|1|0.06|ENSG00000161807|chr19:9115250-9115250|C/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.67596435546875 3 374.21822 1119.63283 NaN NaN NaN NaN NaN NaN NaN 95.181 1 95.799 95.299 96.299 0.61736 0 0 0 0.90965 1 43772 43772 1.1933 0.12188 1 + 6186 18194 4016 4030 6913 6913 0.07780077033839916 FFLQIEMADEP 11 Unmodified _FFLQIEMADEP_ 0 0 0 REV__ENSG00000080293|ENST00000019103|SCTR REV__ENSG00000080293|ENST00000019103|SCTR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 670.3133544921875 2 670.315571 1338.61659 NaN NaN NaN NaN NaN NaN NaN 62.448 1 62.448 61.948 62.948 0 0 0 0 0.97175 1 29269 29269 9.3831 2.66 1 + 6187 10591 4017 4031 6914 6914 -0.039174169852003615 FFPWLRMWRRE 11 Unmodified _FFPWLRMWRRE_ 0 0 0 ENSG00000187186|ENST00000421828|unknown ENSG00000187186|ENST00000421828|unknown ENSG00000187186|ENST00000421828|unknown MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.9501953125 3 541.950362 1622.82926 NaN NaN NaN NaN NaN NaN NaN 88.203 1 88.255 87.755 88.755 0.052155 0 0 0 1.0082 1 44865 44865 0 0 1 6188 5608 4018 4032 6915 6915 0.04275558655922396 FFQRLAKH 8 Unmodified _FFQRLAKH_ 0 0 0 REV__nc|ENSG00000168546|O00451-2|GFRA2 REV__nc|ENSG00000168546|O00451-2|GFRA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 349.53515625 3 349.534654 1045.58213 NaN NaN NaN NaN NaN NaN NaN 15.914 1 15.914 15.414 16.414 0 0 0 0 0.99035 1 7043 7043 0.40072 0.050084 1 + 6189 12635 4019 4033 6916 6916 0.061165924995066234 FFRDKFFFIKN 11 Unmodified _FFRDKFFFIKN_ 0 0 0 REV__ENSG00000262406|ENST00000571244|MMP12 REV__ENSG00000262406|ENST00000571244|MMP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 754.9063720703125 2 754.906079 1507.79761 NaN NaN NaN NaN NaN NaN NaN 98.759 1 99.357 98.857 99.857 0.59748 0 0 0 1.0059 1 45577 45577 2.9952 0 1 + 6190 14699 4020 4034 6917 6917 0.06401889173662312 FFRGRLRVYL 10 Unmodified _FFRGRLRVYL_ 0 0 0 REV__ENST00000299084.8_1_15:38643663-38643696:+|nuORF REV__ENST00000299084.8_1_15:38643663-38643696:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.8987426757812 2 663.893306 1325.77206 NaN NaN NaN NaN NaN NaN NaN 92.238 1 92.491 91.991 92.991 0.25253 0 0 0 1.0013 1 42404 42404 1.4819 0.15237 1 + 6191 15174 4021 4035 6918 6918 0.122204594419145 FFRKIYQF 8 Unmodified _FFRKIYQF_ 0 0 0 ENSG00000079101|ENST00000692774|CLUL1 ENSG00000079101|ENST00000692774|CLUL1 ENSG00000079101|ENST00000692774|CLUL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 574.8156127929688 2 574.816202 1147.61785 NaN NaN NaN NaN NaN NaN NaN 14.791 1 15.445 14.945 15.945 0.65356 0 0 0 0.99035 1 6665 6665 0.69038 0.088878 1 6192 887 4022 4036 6919 6919 0.04994629956513563 FFRKKYRI 8 Unmodified _FFRKKYRI_ 0 0 0 nc|ENSG00000113389|P17342-3|NPR3;nc|ENSG00000113389|P17342-2|NPR3;ENSG00000113389|ENST00000265074|NPR3 nc|ENSG00000113389|P17342-3|NPR3 nc|ENSG00000113389|P17342-3|NPR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 579.3538208007812 2 579.350743 1156.68693 NaN NaN NaN NaN NaN NaN NaN 101.8 1 102.12 101.62 102.62 0.31737 0 0 0 0.99035 1 47100 47100 0.69038 0 1 6193 1852 4023 4037 6920 6920 0.11485713976094303 FFRRSFIIFLI 11 Unmodified _FFRRSFIIFLI_ 0 0 0 Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|111|2|anti-sense;Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|118|1|anti-sense Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|111|2|anti-sense Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|111|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2931213378906 3 486.958852 1457.85473 NaN NaN NaN NaN NaN NaN NaN 95.464 1 95.731 95.231 96.231 0.2675 0 0 0 1.0082 1 43863 43863 0.094841 0 1 6194 9383 4024 4038 6921 6921 0.14411356450045787 FFRSFINKC 9 Unmodified _FFRSFINKC_ 0 0 0 REV__ENSG00000116745|ENST00000262340|RPE65 REV__ENSG00000116745|ENST00000262340|RPE65 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.2965698242188 2 581.297319 1160.58008 NaN NaN NaN NaN NaN NaN NaN 35.564 1 35.82 35.32 36.32 0.25524 0 0 0 0.90111 1 16201 16201 3.2813 0.39209 1 + 6195 11417 4025 4039 6922 6922 0.006217956994078122 FFRWVRRAWQR 11 Unmodified _FFRWVRRAWQR_ 0 0 0 ENSG00000185955|ENST00000332375|SPACDR ENSG00000185955|ENST00000332375|SPACDR ENSG00000185955|ENST00000332375|SPACDR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 804.445068359375 2 804.44456 1606.87457 NaN NaN NaN NaN NaN NaN NaN 58.638 1 59.397 58.897 59.897 0.75894 0 0 0 1.0082 1 26907 26907 0 0 1 6196 5548 4026 4040 6923 6923 0.09540545233335251 FFVALRFLLLL 11 Unmodified _FFVALRFLLLL_ 0 0 0 REV__ENST00000465745.6_1_9:35090240-35092764:-|nuORF REV__ENST00000465745.6_1_9:35090240-35092764:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 676.4275512695312 2 676.428659 1350.84277 NaN NaN NaN NaN NaN NaN NaN 90.593 1 90.668 90.168 91.168 0.075279 0 0 0 1.0059 1 46730 46730 2.9952 0 1 + 6197 13150 4027 4041 6924 6924 0.18137739706844513 FFVVFICEYI 10 Unmodified _FFVVFICEYI_ 0 0 0 nc|ENSG00000054611|Q8WUA7-3|TBC1D22A;nc|ENSG00000054611|Q8WUA7-4|TBC1D22A;ENSG00000054611|ENST00000337137|TBC1D22A;nc|ENSG00000054611|Q8WUA7-2|TBC1D22A nc|ENSG00000054611|Q8WUA7-3|TBC1D22A nc|ENSG00000054611|Q8WUA7-3|TBC1D22A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 640.3263549804688 2 640.325211 1278.63587 NaN NaN NaN NaN NaN NaN NaN 78.432 1 78.685 78.185 79.185 0.25335 0 0 0 1.0001 1 36118 36118 1.6526 0.17072 1 6198 609 4028 4042 6925 6925 0.007695840963833689 FGADSPES 8 Unmodified _FGADSPES_ 0 0 0 REV__nc|ENSG00000088812|O75882-3|ATRN REV__nc|ENSG00000088812|O75882-3|ATRN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.1708068847656 2 405.169233 808.323913 NaN NaN NaN NaN NaN NaN NaN 13.585 1 13.828 13.328 14.328 0.24346 0 0 0 0.57268 1 5935 5935 26.341 16.994 1 + 6199 10683 4029 4043 6926 6926 -0.08791608604030898 FGEVMVLML 9 Unmodified _FGEVMVLML_ 0 0 0 REV__ENSG00000163959|ENST00000296327|SLC51A REV__ENSG00000163959|ENST00000296327|SLC51A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1039.5423583984375 1 1038.53624 1037.52896 3.6399 0.0037802 -0.97125 -0.0010087 2.6686 0.0027715 1038.534579918347 65.012 0.18865 65.669 65.558 65.746 0.65672 18 14 2 0 0 0 0.76984 1 29827 29827 7.9102 1.7044 1 492200 + 6200 13048 4030 4044 6927 6927 0.01169710610315633 FGEYCSSE 8 Unmodified _FGEYCSSE_ 0 0 0 nc|ENSG00000135709|O60268-2|KIAA0513;nc|ENSG00000135709|O60268-3|KIAA0513;ENSG00000135709|ENST00000683363|KIAA0513 nc|ENSG00000135709|O60268-2|KIAA0513 nc|ENSG00000135709|O60268-2|KIAA0513 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 461.5921936035156 2 461.168376 920.322198 NaN NaN NaN NaN NaN NaN NaN 58.709 1 58.971 58.471 59.471 0.26227 0 0 0 0.99035 1 26887 26887 2.8892 0 1 6201 2890 4031 4045 6928 6928 -0.1411498568429579 FGFIFYFL 8 Unmodified _FGFIFYFL_ 0 0 0 ENSG00000136048|ENST00000258534|DRAM1 ENSG00000136048|ENST00000258534|DRAM1 ENSG00000136048|ENST00000258534|DRAM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.8545227050781 3 351.85299 1052.53714 NaN NaN NaN NaN NaN NaN NaN 28.016 1 28.016 27.516 28.516 0 0 0 0 0.99035 1 12625 12625 4.3292 0 1 6202 2922 4032 4046 6929 6929 0.012973489135902128 FGHAEVVSL 9 Unmodified _FGHAEVVSL_ 0 0 0 nc|ENSG00000173273|O95271-2|TNKS;ENSG00000173273|ENST00000310430|TNKS nc|ENSG00000173273|O95271-2|TNKS nc|ENSG00000173273|O95271-2|TNKS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 479.7548522949219 2 479.753267 957.491981 2.8477 0.0013662 0.4069 0.00019521 3.2546 0.0015614 479.7533640797363 47.584 0.17052 47.584 47.441 47.611 0 13 8 2 0 0 0 0.018173 1 21779 21779 70.716 28.621 1 1093700 6203 4925 4033 4047 6930 6930 0.01153498380426754 FGHAEVVSL 9 Unmodified _FGHAEVVSL_ 0 0 0 nc|ENSG00000173273|O95271-2|TNKS;ENSG00000173273|ENST00000310430|TNKS nc|ENSG00000173273|O95271-2|TNKS nc|ENSG00000173273|O95271-2|TNKS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.7545166015625 2 479.753267 957.491981 3.2613 0.0015646 -0.20067 -9.6273E-05 3.0606 0.0014683 479.75309989265065 47.383 0.25875 47.647 47.488 47.747 0.26363 22 10 3 0 0 0 0.026068 1 21634 21634 60.39 26.287 1 930680 6204 4925 4033 4047 6931 6931 0.01153498380426754 FGHAEVVSL 9 Unmodified _FGHAEVVSL_ 0 0 0 nc|ENSG00000173273|O95271-2|TNKS;ENSG00000173273|ENST00000310430|TNKS nc|ENSG00000173273|O95271-2|TNKS nc|ENSG00000173273|O95271-2|TNKS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.7550048828125 2 479.753267 957.491981 3.1896 0.0015302 0.04504 2.1608E-05 3.2346 0.0015518 479.753371702193 46.757 0.24548 47.409 47.258 47.503 0.65219 16 7 3 0 0 0 0.018173 1 21425 21425 70.716 36.613 1 809690 6205 4925 4033 4047 6932 6932 0.01153498380426754 FGHAEVVSL 9 Unmodified _FGHAEVVSL_ 0 0 0 nc|ENSG00000173273|O95271-2|TNKS;ENSG00000173273|ENST00000310430|TNKS nc|ENSG00000173273|O95271-2|TNKS nc|ENSG00000173273|O95271-2|TNKS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 479.753267 957.491981 2.9639 0.0014219 0.23381 0.00011217 3.1977 0.0015341 479.7534256913937 46.487 0.14342 47.316 47.209 47.352 0.82915 -0.17257 0.00012065 NaN 70.716 12 6 3 NaN NaN NaN NaN 0 NaN NaN 0 1529800 6206 4925 4033 4047 0.01153498380426754 FGKERLIEITH 11 Unmodified _FGKERLIEITH_ 0 0 0 REV__ENST00000462349.5_1_21:44473992-44479496:-|nuORF REV__ENST00000462349.5_1_21:44473992-44479496:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 671.8794555664062 2 671.877519 1341.74048 NaN NaN NaN NaN NaN NaN NaN 65.783 1 66.492 65.992 66.992 0.70891 0 0 0 1.0065 1 31137 31137 2.2828 0.80087 1 + 6207 12865 4034 4048 6933 6933 0.08328421897249427 FGKLLREF 8 Unmodified _FGKLLREF_ 0 0 0 nc|ENSG00000152683|Q6NXT4-3|SLC30A6;ENSG00000152683|ENST00000282587|SLC30A6;nc|ENSG00000152683|Q6NXT4-2|SLC30A6 nc|ENSG00000152683|Q6NXT4-3|SLC30A6 nc|ENSG00000152683|Q6NXT4-3|SLC30A6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 337.20050048828125 3 337.19916 1008.57565 NaN NaN NaN NaN NaN NaN NaN 16.112 1 16.112 15.612 16.612 0 0 0 0 0.99035 1 7133 7133 1.8442 0.6509 1 6208 3758 4035 4049 6934 6934 0.0717065454813337 FGKPAKYWKL 10 Unmodified _FGKPAKYWKL_ 0 0 0 ENST00000486082.5_1_1:27657613-27661179:+|nuORF;nc|ENSG00000186501|Q9H0R3-2|TMEM222;ENST00000464720.5_1_1:27657613-27661954:+|nuORF;TMEM222|p.S129Lfs*24|1|0.26|ENSG00000186501|chr1:27334029-27334029|C/-|frameshift_variant;ENSG00000186501|ENST00000374076|TMEM222 ENST00000486082.5_1_1:27657613-27661179:+|nuORF ENST00000486082.5_1_1:27657613-27661179:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.7416076660156 3 413.241248 1236.70191 3.1261 0.0012918 -0.072069 -2.9782E-05 3.0541 0.0012621 413.24132515482444 20.361 0.30007 21.015 20.834 21.134 0.65346 32 22 2 0 0 0 0.12676 1 9262 9262 3.8763 1.1411 1 204420 6209 5576 4036 4050 6935 6935 0.09303161053389886 FGLARAKSV 9 Unmodified _FGLARAKSV_ 0 0 0 nc|ENSG00000058091|O94921-3|CDK14;nc|ENSG00000058091|O94921-2|CDK14;ENSG00000058091|ENST00000380050|CDK14;ENST00000506489.1_1_1:205496975-205497827:+|nuORF;ENST00000550971.5_1_12:96677414-96688846:-|nuORF;ENST00000489617.5_1_1:205496852-205498898:+|nuORF;ENSG00000117266|ENST00000429964|CDK18;nc|ENSG00000117266|Q07002-3|CDK18;ENST00000504648.5_1_1:205492597-205500503:+|nuORF;nc|ENSG00000059758|Q00537-2|CDK17;ENSG00000059758|ENST00000261211|CDK17;ENST00000505932.5_1_1:205492708-205498898:+|nuORF nc|ENSG00000058091|O94921-3|CDK14;ENSG00000117266|ENST00000429964|CDK18 ENSG00000117266|ENST00000429964|CDK18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.7860107421875 2 474.784902 947.55525 2.4315 0.0011545 0.5464 0.00025942 2.9779 0.0014139 474.7851272513881 23.044 0.21511 23.729 23.606 23.821 0.68536 48 29 2 0 0 0 0.0027913 2 10266 10223;10266 96.367 54.272 1 1145900 6210 2066;629 4037 4051 6936;6937 6937 0.07937483888326824 FGLARAKSV 9 Unmodified _FGLARAKSV_ 0 0 0 nc|ENSG00000058091|O94921-3|CDK14;nc|ENSG00000058091|O94921-2|CDK14;ENSG00000058091|ENST00000380050|CDK14;ENST00000506489.1_1_1:205496975-205497827:+|nuORF;ENST00000550971.5_1_12:96677414-96688846:-|nuORF;ENST00000489617.5_1_1:205496852-205498898:+|nuORF;ENSG00000117266|ENST00000429964|CDK18;nc|ENSG00000117266|Q07002-3|CDK18;ENST00000504648.5_1_1:205492597-205500503:+|nuORF;nc|ENSG00000059758|Q00537-2|CDK17;ENSG00000059758|ENST00000261211|CDK17;ENST00000505932.5_1_1:205492708-205498898:+|nuORF nc|ENSG00000058091|O94921-3|CDK14;ENSG00000117266|ENST00000429964|CDK18 ENSG00000117266|ENST00000429964|CDK18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.78662109375 2 474.784902 947.55525 3.0175 0.0014326 -0.14493 -6.8809E-05 2.8725 0.0013638 474.784898404053 23.035 0.24403 23.675 23.547 23.791 0.64051 86 35 3 0 0 0 4.2125E-14 3 10505 10463;10505;10551 171.09 100.37 1 5504000 6211 2066;629 4037 4051 6938;6939;6940 6939 0.07937483888326824 FGLARIYSF 9 Unmodified _FGLARIYSF_ 0 0 0 ENST00000473078.1_1_7:92300738-92355023:-|nuORF;ENSG00000105810|ENST00000424848|CDK6 ENST00000473078.1_1_7:92300738-92355023:-|nuORF ENST00000473078.1_1_7:92300738-92355023:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.292236328125 2 537.292559 1072.57057 2.6633 0.001431 0.67621 0.00036332 3.3395 0.0017943 537.2928162808224 71.301 0.21369 71.963 71.879 72.093 0.66209 27 16 2 0 0 0 0.0095519 1 32675 32675 82.529 38.122 1 555780 6212 1531 4038 4052 6941 6941 0.0371835068551718 FGLGKLLQFLF 11 Unmodified _FGLGKLLQFLF_ 0 0 0 REV__ENST00000442838.2_1_8:123781530-123781986:+|nuORF REV__ENST00000442838.2_1_8:123781530-123781986:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.8860473632812 2 641.881542 1281.74853 4.1103 0.0026383 1.5843 0.0010169 5.6946 0.0036553 641.8823640476354 92.382 1.1525 93.029 92.627 93.779 0.64714 85 58 2 0 0 0 0.87362 1 42644 42644 3.5965 0.31518 1 936840 + 6213 13118 4039 4053 6942 6942 0.1189260088467563 FGVTQFQI 8 Unmodified _FGVTQFQI_ 0 0 0 REV__ENST00000497936.5_1_6:84884653-84936120:-|nuORF REV__ENST00000497936.5_1_6:84884653-84936120:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.7536315917969 2 470.25036 938.486168 3.1763 0.0014936 -0.77355 -0.00036376 2.4027 0.0011299 470.24971994447225 45.403 0.3029 46.054 45.911 46.214 0.65104 22 14 2 0 0 0 0.47217 1 20837 20837 23.148 1.4018 1 179770 + 6214 16864 4040 4054 6943 6943 0.01446399868757453 FGVTQFQI 8 Unmodified _FGVTQFQI_ 0 0 0 REV__ENST00000497936.5_1_6:84884653-84936120:-|nuORF REV__ENST00000497936.5_1_6:84884653-84936120:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 470.25036 938.486168 2.6998 0.0012696 0.22051 0.0001037 2.9203 0.0013733 470.25049480918705 46.087 0.24036 46.087 45.982 46.223 0 0.11037 0.00011408 NaN 23.148 14 12 2 NaN NaN NaN NaN 0 NaN NaN 0 542360 + 6215 16864 4040 4054 0.01446399868757453 FGVTQFQI 8 Unmodified _FGVTQFQI_ 0 0 0 REV__ENST00000497936.5_1_6:84884653-84936120:-|nuORF REV__ENST00000497936.5_1_6:84884653-84936120:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 470.25036 938.486168 2.7644 0.0012999 0.31939 0.00015019 3.0838 0.0014501 470.2504034418249 44.965 0.2376 45.789 45.637 45.874 0.82415 -0.18764 0.00020707 NaN 23.148 17 10 2 NaN NaN NaN NaN 0 NaN NaN 0 318330 + 6216 16864 4040 4054 0.01446399868757453 FGVTQFQI 8 Unmodified _FGVTQFQI_ 0 0 0 REV__ENST00000497936.5_1_6:84884653-84936120:-|nuORF REV__ENST00000497936.5_1_6:84884653-84936120:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 470.25036 938.486168 3.1763 0.0014936 -0.77355 -0.00036376 2.4027 0.0011299 470.24971994447225 45.403 0.3029 46.054 45.911 46.214 0.65104 0.077271 -0.00082084 NaN 23.148 22 14 2 NaN NaN NaN NaN 0 NaN NaN 0 179770 + 6217 16864 4040 4054 0.01446399868757453 FGVYGDVHRVK 11 Unmodified _FGVYGDVHRVK_ 0 0 0 nc|ENSG00000119314|O95758-7|PTBP3;nc|ENSG00000119314|O95758-1|PTBP3;ENSG00000119314|ENST00000374257|PTBP3;nc|ENSG00000119314|O95758-2|PTBP3;nc|ENSG00000119314|O95758|PTBP3;nc|ENSG00000119314|O95758-5|PTBP3;nc|ENSG00000119314|O95758-4|PTBP3 nc|ENSG00000119314|O95758-7|PTBP3 nc|ENSG00000119314|O95758-7|PTBP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 638.8447265625 2 638.843479 1275.67241 NaN NaN NaN NaN NaN NaN NaN 39.846 1 40.647 40.147 41.147 0.80014 0 0 0 1.0061 1 18040 18040 2.7352 0.89096 1 6218 2137 4041 4055 6944 6944 0.045595970372460215 FGYYPQLGF 9 Unmodified _FGYYPQLGF_ 0 0 0 REV__nc|ENSG00000185483|Q01973-2|ROR1 REV__nc|ENSG00000185483|Q01973-2|ROR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.2631225585938 2 546.263468 1090.51238 2.8142 0.0015373 -0.92549 -0.00050556 1.8888 0.0010318 546.2627553956535 55.043 0.37923 55.83 55.666 56.046 0.78711 40 25 2 0 0 0 0.76984 1 25188 25188 7.9102 0 1 633530 + 6219 14021 4042 4056 6945 6945 -0.029253309597606858 FHFQKKNYRRR 11 Unmodified _FHFQKKNYRRR_ 0 0 0 ENST00000367179.7_1_1:204507109-204507413:+|nuORF;ENST00000462012.1_1_1:204507254-204507413:+|nuORF ENST00000367179.7_1_1:204507109-204507413:+|nuORF ENST00000367179.7_1_1:204507109-204507413:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 790.450439453125 2 790.439475 1578.8644 NaN NaN NaN NaN NaN NaN NaN 97.195 1 97.195 96.695 97.695 0 0 0 0 1.0082 1 52836 52836 0.30703 0 1 6220 7252 4043 4057 6946 6946 0.09811937508106894 FHIKVKPGL 9 Unmodified _FHIKVKPGL_ 0 0 0 ENST00000237536.8_2_20:35414692-35414812:-|nuORF ENST00000237536.8_2_20:35414692-35414812:-|nuORF ENST00000237536.8_2_20:35414692-35414812:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 346.8877258300781 3 346.886805 1037.63859 1.856 0.00064381 1.0155 0.00035227 2.8715 0.00099608 346.8871129639565 73.845 0.26278 73.845 73.685 73.948 0 40 24 2 0 0 0 1.0755 1 36002 36002 2.7352 0.23671 1 2286500 6221 6464 4044 4058 6947 6947 0.12127220336174105 FHIKVKPGLL 10 Unmodified _FHIKVKPGLL_ 0 0 0 ENST00000237536.8_2_20:35414692-35414812:-|nuORF ENST00000237536.8_2_20:35414692-35414812:-|nuORF ENST00000237536.8_2_20:35414692-35414812:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 576.3717651367188 2 576.368601 1150.72265 NaN NaN NaN NaN NaN NaN NaN 39.23 1 39.867 39.367 40.367 0.63778 0 0 0 1.0003 1 17931 17931 1.4819 0 1 6222 6464 4045 4059 6948 6948 0.15331751433086538 FHKLFERLWQH 11 Unmodified _FHKLFERLWQH_ 0 0 0 REV__ENST00000359193.3_1_6:27101535-27101784:+|nuORF REV__ENST00000359193.3_1_6:27101535-27101784:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 770.9104614257812 2 770.912227 1539.8099 NaN NaN NaN NaN NaN NaN NaN 70.43 1 70.686 70.186 71.186 0.25642 0 0 0 1.0075 1 32255 32255 0.96228 0.65524 1 + 6223 15592 4046 4060 6949 6949 0.061589256366914924 FHMWRIRFL 9 Unmodified _FHMWRIRFL_ 0 0 0 REV__ENST00000393346.7_1_11:85723404-85725959:-|nuORF REV__ENST00000393346.7_1_11:85723404-85725959:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 435.7815856933594 3 435.906094 1304.69645 NaN NaN NaN NaN NaN NaN NaN 58.103 1 58.103 57.603 58.603 0 0 0 0 0.90335 1 26799 26799 2.7352 0.48247 1 + 6224 15949 4047 4061 6950 6950 0.05629158989950156 FHNAYMKL 8 Unmodified _FHNAYMKL_ 0 0 0 REV__ENSG00000010932|ENST00000617670|FMO1 REV__ENSG00000010932|ENST00000617670|FMO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 341.5077209472656 3 341.840867 1022.50077 NaN NaN NaN NaN NaN NaN NaN 23.098 1 23.784 23.284 24.284 0.68536 0 0 0 0.99035 1 10290 10290 4.3292 1.594 1 + 6225 10230 4048 4062 6951 6951 -0.009578512547591345 FHRASVLF 8 Unmodified _FHRASVLF_ 0 0 0 ENST00000533415.5_1_17:45198303-45266605:-|nuORF;ENSG00000004897|ENST00000066544|CDC27;nc|ENSG00000004897|P30260-2|CDC27 ENST00000533415.5_1_17:45198303-45266605:-|nuORF ENST00000533415.5_1_17:45198303-45266605:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.7729797363281 2 488.771794 975.529036 NaN NaN NaN NaN NaN NaN NaN 83.074 1 83.321 82.821 83.821 0.24722 0 0 0 0.967 1 38240 38240 7.9102 0 1 6226 318 4049 4063 6952 6952 0.04029214716842944 FHRLPKKDNPR 11 Unmodified _FHRLPKKDNPR_ 0 0 0 ENSG00000184436|ENST00000215742|THAP7 ENSG00000184436|ENST00000215742|THAP7 ENSG00000184436|ENST00000215742|THAP7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 704.4011840820312 2 704.402027 1406.7895 NaN NaN NaN NaN NaN NaN NaN 91.85 1 92.102 91.602 92.602 0.25253 0 0 0 1.0061 1 42230 42230 2.7352 0 1 6227 5441 4050 4064 6953 6953 0.10237754976878932 FHRMRRICNW 10 Unmodified _FHRMRRICNW_ 0 0 0 REV__ENST00000486051.5_1_1:8930279-8934967:-|nuORF REV__ENST00000486051.5_1_1:8930279-8934967:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 709.8588256835938 2 709.855875 1417.6972 NaN NaN NaN NaN NaN NaN NaN 66.36 1 67.016 66.516 67.516 0.65672 0 0 0 1.0015 1 30423 30423 0.40072 0.050084 1 + 6228 16752 4051 4065 6954 6954 0.005056303673882212 FHRNRRVTRR 10 Unmodified _FHRNRRVTRR_ 0 0 0 ENSG00000162490|ENST00000294485|DRAXIN ENSG00000162490|ENST00000294485|DRAXIN ENSG00000162490|ENST00000294485|DRAXIN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.6097717285156 3 466.608098 1396.80247 3.5635 0.0016628 0.23386 0.00010912 3.7974 0.0017719 466.6081314363555 96.693 0.94424 96.97 96.464 97.409 0.27779 160 50 4 0 0 0 0.94217 2 44445 44445;44493 0.15932 0.064481 1 2923100 6229 4140 4052 4066 6955;6956 6955 0.11993630879624106 FHVPRSLL 8 Unmodified _FHVPRSLL_ 0 0 0 ENST00000587708.6_1_19:36237754-36237895:+|nuORF ENST00000587708.6_1_19:36237754-36237895:+|nuORF ENST00000587708.6_1_19:36237754-36237895:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.78900146484375 2 484.787444 967.560336 3.193 0.0015479 1.0034 0.00048644 4.1964 0.0020344 484.78803689184537 36.974 0.64031 37.232 37.018 37.659 0.25768 49 20 4 0 0 0 0.70799 1 16792 16792 5.2307 0 1 4081100 6230 9198 4053 4067 6957 6957 0.07525787750955715 FHVWFWNRWWL 11 Unmodified _FHVWFWNRWWL_ 0 0 0 REV__ENST00000437634.1_1_2:154277901-154278186:-|nuORF REV__ENST00000437634.1_1_2:154277901-154278186:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 838.9207153320312 2 838.917313 1675.82007 NaN NaN NaN NaN NaN NaN NaN 56.781 1 56.781 56.281 57.281 0 0 0 0 1.0082 1 26142 26142 0 0 1 + 6231 16317 4054 4068 6958 6958 0.009195333619345547 FHVWFWNRWWL 11 Unmodified _FHVWFWNRWWL_ 0 0 0 REV__ENST00000437634.1_1_2:154277901-154278186:-|nuORF REV__ENST00000437634.1_1_2:154277901-154278186:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 838.9174194335938 2 838.917313 1675.82007 NaN NaN NaN NaN NaN NaN NaN 78.331 1 78.331 77.831 78.831 0 0 0 0 1.0082 1 38484 38484 0 0 1 + 6232 16317 4054 4068 6959 6959 0.009195333619345547 FHVWFWNRWWL 11 Unmodified _FHVWFWNRWWL_ 0 0 0 REV__ENST00000437634.1_1_2:154277901-154278186:-|nuORF REV__ENST00000437634.1_1_2:154277901-154278186:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 838.9259033203125 2 838.917313 1675.82007 NaN NaN NaN NaN NaN NaN NaN 89.566 1 89.817 89.317 90.317 0.25137 0 0 0 1.0082 1 41193 41193 0 0 1 + 6233 16317 4054 4068 6960 6960 0.009195333619345547 FHVWFWNRWWL 11 Unmodified _FHVWFWNRWWL_ 0 0 0 REV__ENST00000437634.1_1_2:154277901-154278186:-|nuORF REV__ENST00000437634.1_1_2:154277901-154278186:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 839.2904052734375 2 838.917313 1675.82007 NaN NaN NaN NaN NaN NaN NaN 91.362 1 91.614 91.114 92.114 0.25163 0 0 0 1.0082 1 42012 42012 0 0 1 + 6234 16317 4054 4068 6961 6961 0.009195333619345547 FHVWFWNRWWL 11 Unmodified _FHVWFWNRWWL_ 0 0 0 REV__ENST00000437634.1_1_2:154277901-154278186:-|nuORF REV__ENST00000437634.1_1_2:154277901-154278186:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 838.8547973632812 2 838.917313 1675.82007 NaN NaN NaN NaN NaN NaN NaN 90.027 1 90.7 90.2 91.2 0.67271 0 0 0 1.0082 1 41446 41446 0 0 1 + 6235 16317 4054 4068 6962 6962 0.009195333619345547 FHVWFWNRWWL 11 Unmodified _FHVWFWNRWWL_ 0 0 0 REV__ENST00000437634.1_1_2:154277901-154278186:-|nuORF REV__ENST00000437634.1_1_2:154277901-154278186:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 838.91943359375 2 838.917313 1675.82007 NaN NaN NaN NaN NaN NaN NaN 94.563 1 95.18 94.68 95.68 0.61736 0 0 0 1.0082 1 43489 43489 0 0 1 + 6236 16317 4054 4068 6963 6963 0.009195333619345547 FHWVNVLRVRS 11 Unmodified _FHWVNVLRVRS_ 0 0 0 REV__ENST00000376004.4_1_13:103450841-103451195:-|nuORF REV__ENST00000376004.4_1_13:103450841-103451195:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.6009826660156 3 471.601839 1411.78369 NaN NaN NaN NaN NaN NaN NaN 40.531 1 40.8 40.3 41.3 0.26904 0 0 0 1.0079 1 18440 18440 0.50596 0.051438 1 + 6237 15814 4055 4069 6964 6964 0.09426656465188898 FHYLECWKDMI 11 Unmodified _FHYLECWKDMI_ 0 0 0 ENST00000520817.5_1_8:41367772-41367976:+|nuORF ENST00000520817.5_1_8:41367772-41367976:+|nuORF ENST00000520817.5_1_8:41367772-41367976:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 742.8413696289062 2 742.838691 1483.66283 NaN NaN NaN NaN NaN NaN NaN 69.048 1 69.302 68.802 69.802 0.25443 0 0 0 1.008 1 31630 31630 0.30703 0.03801 1 6238 8635 4056 4070 6965 6965 -0.059656753548097186 FIADVEPIF 9 Unmodified _FIADVEPIF_ 0 0 0 ENSG00000129521|ENST00000250457|EGLN3;chr14:33931215-34092321|509|19.88|0.55|5.18|-|ENST00000487915|EGLN3,EGLN3 ENSG00000129521|ENST00000250457|EGLN3 ENSG00000129521|ENST00000250457|EGLN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1050.5504150390625 1 1050.55062 1049.54335 3.6727 0.0038584 0.17109 0.00017974 3.8438 0.0040381 1050.5506332162022 88.811 0.178 89.489 89.338 89.516 0.67818 13 8 2 0 0 0 0.10245 1 40893 40893 32.117 13.982 1 528180 6239 2552 4057 4071 6966 6966 0.020558223544639986 FIADVEPIF 9 Unmodified _FIADVEPIF_ 0 0 0 ENSG00000129521|ENST00000250457|EGLN3;chr14:33931215-34092321|509|19.88|0.55|5.18|-|ENST00000487915|EGLN3,EGLN3 ENSG00000129521|ENST00000250457|EGLN3 ENSG00000129521|ENST00000250457|EGLN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.7811279296875 2 525.778951 1049.54335 3.4638 0.0018212 0.24171 0.00012708 3.7055 0.0019483 525.7789380734472 88.807 0.18125 89.485 89.361 89.542 0.67818 12 8 2 0 0 0 0.086747 1 40896 40896 36.044 12.896 1 300370 6240 2552 4057 4071 6967 6967 0.020558223544639986 FIADVEPIF 9 Unmodified _FIADVEPIF_ 0 0 0 ENSG00000129521|ENST00000250457|EGLN3;chr14:33931215-34092321|509|19.88|0.55|5.18|-|ENST00000487915|EGLN3,EGLN3 ENSG00000129521|ENST00000250457|EGLN3 ENSG00000129521|ENST00000250457|EGLN3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 525.778951 1049.54335 3.6706 0.0019299 0.44732 0.00023519 4.118 0.0021651 525.7791906218812 89.381 0.19125 89.633 89.516 89.708 0.25118 0.073822 8.5931E-05 NaN 36.044 11 8 2 NaN NaN NaN NaN 0 NaN NaN 0 378600 6241 2552 4057 4071 0.020558223544639986 FIAQKILAL 9 Unmodified _FIAQKILAL_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;PARP14|p.F753Sfs*5|1|0.07|ENSG00000173193|chr3:122700811-122700812|-/C|frameshift_variant nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.8299865722656 2 508.828778 1015.643 3.0645 0.0015593 -0.14819 -7.5404E-05 2.9164 0.0014839 508.8286760549106 71.298 0.29497 71.556 71.434 71.729 0.25785 57 23 3 0 0 0 0.012748 2 32635 32635;32683 78.149 34.377 1 2742600 6242 4917 4058 4072 6968;6969 6968 0.1358068475908567 FIAQKILAL 9 Unmodified _FIAQKILAL_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;PARP14|p.F753Sfs*5|1|0.07|ENSG00000173193|chr3:122700811-122700812|-/C|frameshift_variant nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.83062744140625 2 508.828778 1015.643 2.816 0.0014329 0.27116 0.00013798 3.0872 0.0015708 508.8289778040433 70.747 0.30159 71.409 71.249 71.551 0.66209 46 18 3 0 0 0 0.017868 2 32427 32380;32427 71.134 25.692 1 2568600 6243 4917 4058 4072 6970;6971 6971 0.1358068475908567 FIAVKKKLKIY 11 Unmodified _FIAVKKKLKIY_ 0 0 0 ENST00000527958.5_1_11:117041336-117041564:+|nuORF ENST00000527958.5_1_11:117041336-117041564:+|nuORF ENST00000527958.5_1_11:117041336-117041564:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.5314025878906 4 338.477246 1349.87988 2.4313 0.00082295 1.0505 0.00035556 3.4818 0.0011785 338.72845144358615 36.547 0.57391 37.177 36.917 37.491 0.62999 56 22 3 0 0 0 0.13295 1 16621 16621 0.094841 0.094841 1 438630 6244 8686 4059 4073 6972 6972 0.2189341125260853 FIAVKKKLKIY 11 Unmodified _FIAVKKKLKIY_ 0 0 0 ENST00000527958.5_1_11:117041336-117041564:+|nuORF ENST00000527958.5_1_11:117041336-117041564:+|nuORF ENST00000527958.5_1_11:117041336-117041564:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 338.477246 1349.87988 2.3563 0.00079755 0.46678 0.00015799 2.8231 0.00095554 338.4773176892986 36.667 0.56876 37.46 37.08 37.648 0.79342 0.14173 -0.00047166 NaN 0.094841 44 26 2 NaN NaN NaN NaN 0 NaN NaN 0 265280 6245 8686 4059 4073 0.2189341125260853 FIDLDKVVVH 10 Unmodified _FIDLDKVVVH_ 0 0 0 REV__ENSG00000110917|ENST00000228506|MLEC REV__ENSG00000110917|ENST00000228506|MLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.56292724609375 3 395.560646 1183.66011 2.754 0.0010894 1.407 0.00055656 4.161 0.0016459 395.56105484913013 63 0.25489 63.658 63.542 63.797 0.65808 22 13 2 0 0 0 0.90196 1 28875 28875 3.5871 2.1319 1 689840 + 6246 11217 4060 4074 6973 6973 0.0756256057425162 FIDLDKVVVH 10 Unmodified _FIDLDKVVVH_ 0 0 0 REV__ENSG00000110917|ENST00000228506|MLEC REV__ENSG00000110917|ENST00000228506|MLEC MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 395.560646 1183.66011 2.7657 0.001094 1.4795 0.00058523 4.2452 0.0016792 395.56120103986245 63.608 0.26962 63.856 63.736 64.005 0.24803 0.098851 4.4341E-05 NaN 3.5871 20 14 2 NaN NaN NaN NaN 0 NaN NaN 0 631090 + 6247 11217 4060 4074 0.0756256057425162 FIDLDKVVVH 10 Unmodified _FIDLDKVVVH_ 0 0 0 REV__ENSG00000110917|ENST00000228506|MLEC REV__ENSG00000110917|ENST00000228506|MLEC MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 395.560646 1183.66011 2.754 0.0010894 1.407 0.00055656 4.161 0.0016459 395.56105484913013 63 0.25489 63.658 63.542 63.797 0.65808 -0.098851 -4.1692E-05 NaN 3.5871 22 13 2 NaN NaN NaN NaN 0 NaN NaN 0 689840 + 6248 11217 4060 4074 0.0756256057425162 FIDTTSKF 8 Unmodified _FIDTTSKF_ 0 0 0 ENSG00000100316|ENST00000216146|RPL3;ENST00000417615.1_1_14:99439218-99439536:-|nuORF;ENST00000473638.5_1_22:39708982-39709710:-|nuORF;ENSG00000140986|ENST00000268661|RPL3L ENSG00000100316|ENST00000216146|RPL3 ENSG00000100316|ENST00000216146|RPL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 479.7499084472656 2 479.74765 957.480748 NaN NaN NaN NaN NaN NaN NaN 41.41 1 41.41 40.91 41.91 0 0 0 0 0.093988 1 18824 18824 56.177 27.69 1 6249 1205 4061 4075 6974 6974 0.0003067628629196406 FIFLKILKLLI 11 Unmodified _FIFLKILKLLI_ 0 0 0 ENSG00000065325|ENST00000262441|GLP2R ENSG00000065325|ENST00000262441|GLP2R ENSG00000065325|ENST00000262441|GLP2R MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 680.9722290039062 2 680.97016 1359.92577 NaN NaN NaN NaN NaN NaN NaN 97.825 1 98.115 97.615 98.615 0.28923 0 0 0 1.0082 1 44965 44965 0 0 1 6250 687 4062 4076 6975 6975 0.26020056434845173 FIFNWFKDKLH 11 Unmodified _FIFNWFKDKLH_ 0 0 0 REV__ENST00000568657.1_1_16:56442078-56458825:-|nuORF REV__ENST00000568657.1_1_16:56442078-56458825:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 747.8986206054688 2 747.898254 1493.78196 NaN NaN NaN NaN NaN NaN NaN 81.654 1 81.738 81.238 82.238 0.084106 0 0 0 1.008 1 40180 40180 0.35063 0 1 + 6251 12854 4063 4077 6976 6976 0.054816026565958964 FIFPDEEGLD 10 Unmodified _FIFPDEEGLD_ 0 0 0 REV__ENST00000330636.8_2_6:5216929-5261090:-|nuORF REV__ENST00000330636.8_2_6:5216929-5261090:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.2733764648438 2 591.271687 1180.52882 3.4713 0.0020525 -0.75977 -0.00044923 2.7115 0.0016033 591.2713539440421 13.955 0.12786 13.955 13.878 14.005 0 15 7 3 0 0 0 0.16336 1 6135 6135 43.858 7.7313 1 3343000 + 6252 15372 4064 4078 6977 6977 -0.05422294584332121 FIFPDEEGLD 10 Unmodified _FIFPDEEGLD_ 0 0 0 REV__ENST00000330636.8_2_6:5216929-5261090:-|nuORF REV__ENST00000330636.8_2_6:5216929-5261090:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.2733764648438 2 591.271687 1180.52882 3.1601 0.0018685 -0.32056 -0.00018954 2.8396 0.001679 591.2716522525022 13.232 0.23586 13.475 13.353 13.589 0.24346 52 17 4 0 0 0 0.28649 1 5776 5776 29.082 1.8583 1 1662600 + 6253 15372 4064 4078 6978 6978 -0.05422294584332121 FIFPDEEGLD 10 Unmodified _FIFPDEEGLD_ 0 0 0 REV__ENST00000330636.8_2_6:5216929-5261090:-|nuORF REV__ENST00000330636.8_2_6:5216929-5261090:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 591.2740478515625 2 591.271687 1180.52882 4.0137 0.0023732 -0.48985 -0.00028964 3.5238 0.0020835 591.2715238094551 12.787 0.1692 13.43 13.345 13.514 0.64272 14 4 4 0 0 0 0.16336 1 5751 5751 43.858 3.6191 1 3820300 + 6254 15372 4064 4078 6979 6979 -0.05422294584332121 FIFPDEEGLD 10 Unmodified _FIFPDEEGLD_ 0 0 0 REV__ENST00000330636.8_2_6:5216929-5261090:-|nuORF REV__ENST00000330636.8_2_6:5216929-5261090:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 591.271687 1180.52882 3.4713 0.0020525 -0.75977 -0.00044923 2.7115 0.0016033 591.2713539440421 13.955 0.12786 13.955 13.878 14.005 0 0 0 NaN 43.858 15 7 3 NaN NaN NaN NaN 0 NaN NaN 0 3343000 + 6255 15372 4064 4078 -0.05422294584332121 FIGQKRTL 8 Unmodified _FIGQKRTL_ 0 0 0 REV__ENST00000406175.3_1_2:42513330-42557344:+|nuORF REV__ENST00000406175.3_1_2:42513330-42557344:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 321.53192138671875 3 321.53091 961.5709 2.1425 0.00068888 0.74964 0.00024103 2.8921 0.00092991 321.5309089514626 29.06 0.14092 29.677 29.557 29.698 0.61789 14 8 2 0 0 0 0.45037 1 13306 13306 19.257 3.4098 1 356180 + 6256 12384 4065 4079 6980 6980 0.08857770405370502 FIHGLHNFRVE 11 Unmodified _FIHGLHNFRVE_ 0 0 0 REV__ENSG00000110799|ENST00000261405|VWF REV__ENSG00000110799|ENST00000261405|VWF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 684.8644409179688 2 684.862203 1367.70985 NaN NaN NaN NaN NaN NaN NaN 83.895 1 83.923 83.423 84.423 0.028603 0 0 0 1.0071 1 41732 41732 1.4819 0.15237 1 + 6257 11213 4066 4080 6981 6981 0.040706883028633456 FIHRFGKHAPH 11 Unmodified _FIHRFGKHAPH_ 0 0 0 ENSG00000183251|ENST00000380224|OR51B4 ENSG00000183251|ENST00000380224|OR51B4 ENSG00000183251|ENST00000380224|OR51B4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 673.5555419921875 2 673.86508 1345.71561 NaN NaN NaN NaN NaN NaN NaN 79.454 1 79.454 78.954 79.954 0 0 0 0 1.0038 1 39261 39261 5.7319 0 1 6258 5372 4067 4081 6982 6982 0.0565783160520823 FIISRTQAL 9 Unmodified _FIISRTQAL_ 0 0 0 ENSG00000083312|ENST00000337273|TNPO1;nc|ENSG00000083312|Q92973-2|TNPO1;nc|ENSG00000083312|Q92973-3|TNPO1 ENSG00000083312|ENST00000337273|TNPO1 ENSG00000083312|ENST00000337273|TNPO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.812744140625 2 524.811116 1047.60768 3.253 0.0017072 0.048387 2.5394E-05 3.3014 0.0017326 524.8110652931008 50.672 0.28156 50.933 50.76 51.041 0.26146 22 12 2 0 0 0 0.030603 2 23133 23133;23183 55.503 17.529 1 988550 6259 939 4068 4082 6983;6984 6983 0.08578022231267823 FIISRTQAL 9 Unmodified _FIISRTQAL_ 0 0 0 ENSG00000083312|ENST00000337273|TNPO1;nc|ENSG00000083312|Q92973-2|TNPO1;nc|ENSG00000083312|Q92973-3|TNPO1 ENSG00000083312|ENST00000337273|TNPO1 ENSG00000083312|ENST00000337273|TNPO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.8129272460938 2 524.811116 1047.60768 3.2947 0.0017291 -0.14748 -7.7397E-05 3.1472 0.0016517 524.8111895246391 49.922 0.26836 50.58 50.461 50.729 0.65735 23 9 3 0 0 0 0.016529 1 22839 22839 72.968 20.7 1 1087000 6260 939 4068 4082 6985 6985 0.08578022231267823 FIKEITDFNN 10 Unmodified _FIKEITDFNN_ 0 0 0 ENSG00000182645|ENST00000333254|CCDC172 ENSG00000182645|ENST00000333254|CCDC172 ENSG00000182645|ENST00000333254|CCDC172 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.211669921875 3 414.211794 1239.61355 NaN NaN NaN NaN NaN NaN NaN 32.55 1 32.805 32.305 33.305 0.25452 0 0 0 0.98747 1 14824 14824 7.4771 0.84669 1 6261 5341 4069 4083 6986 6986 0.0033307595226688136 FIKKLWAAV 9 Unmodified _FIKKLWAAV_ 0 0 0 REV__ENST00000591098.1_1_18:43684359-43698283:+|nuORF REV__ENST00000591098.1_1_18:43684359-43698283:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.4841003417969 3 359.226939 1074.65899 2.63 0.00094475 -1.5301 -0.00054965 1.0999 0.0003951 359.5611087835103 36.433 0.46658 37.063 36.95 37.416 0.62999 26 18 2 0 0 0 0.11009 1 16670 16670 2.7352 0 1 287640 + 6262 12643 4070 4084 6987 6987 0.1246439099595591 FIKLHQDL 8 Unmodified _FIKLHQDL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.5315246582031 3 338.530798 1012.57057 2.548 0.00086259 -0.14179 -4.8001E-05 2.4063 0.00081459 338.53073000182513 36.985 0.3348 37.242 37.078 37.413 0.25768 21 10 3 0 0 0 0.29255 1 16848 16848 29.082 2.1979 1 903650 6263 4953 4071 4085 6988 6988 0.06478350685517853 FIKLHQDL 8 Unmodified _FIKLHQDL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.29412841796875 2 507.292559 1012.57057 3.3637 0.0017064 -0.0059843 -3.0358E-06 3.3577 0.0017033 507.29241443410876 37.008 0.24483 37.265 37.102 37.347 0.25768 13 7 2 0 0 0 0.025316 1 16852 16852 82.529 19.957 1 356300 6264 4953 4071 4085 6989 6989 0.06478350685517853 FIKLHQDL 8 Unmodified _FIKLHQDL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.2942810058594 2 507.292559 1012.57057 3.4084 0.001729 -0.29041 -0.00014732 3.1179 0.0015817 507.29238110190266 36.304 0.2221 36.93 36.82 37.042 0.62631 12 6 2 0 0 0 0.025316 1 16627 16627 82.529 19.957 1 649510 6265 4953 4071 4085 6990 6990 0.06478350685517853 FIKRKRRKRVS 11 Unmodified _FIKRKRRKRVS_ 0 0 0 REV__ENST00000451166.5_1_22:46452960-46453002:+|nuORF REV__ENST00000451166.5_1_22:46452960-46453002:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.635009765625 3 491.991549 1472.95282 NaN NaN NaN NaN NaN NaN NaN 87.966 1 88.006 87.506 88.506 0.039955 0 0 0 1.0082 1 44687 44687 0.094841 0.021578 1 + 6266 16411 4072 4086 6991 6991 0.23525977818553656 FIKRLRSNG 9 Unmodified _FIKRLRSNG_ 0 0 0 REV__ENST00000560946.1_1_15:78586999-78587107:-|nuORF REV__ENST00000560946.1_1_15:78586999-78587107:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.82568359375 2 545.827632 1089.64071 NaN NaN NaN NaN NaN NaN NaN 91.655 1 91.655 91.155 92.155 0 0 0 0 0.796 1 48483 48483 9.3831 1.473 1 + 6267 17368 4073 4087 6992 6992 0.09947649073978937 FILFKNKIVI 10 Unmodified _FILFKNKIVI_ 0 0 0 nc|ENSG00000181381|Q5H9U9-2|DDX60L;ENSG00000181381|ENST00000682922|DDX60L nc|ENSG00000181381|Q5H9U9-2|DDX60L nc|ENSG00000181381|Q5H9U9-2|DDX60L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 617.5731811523438 2 617.899734 1233.78492 NaN NaN NaN NaN NaN NaN NaN 98.628 1 98.928 98.428 99.428 0.29987 0 0 0 0.99983 1 45466 45466 1.8442 0 1 6268 5287 4074 4088 6993 6993 0.17737477781406596 FILHIIHTK 9 Unmodified _FILHIIHTK_ 0 0 0 ENST00000373758.4_1_10:65326105-65326144:+|nuORF ENST00000373758.4_1_10:65326105-65326144:+|nuORF ENST00000373758.4_1_10:65326105-65326144:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.56707763671875 3 374.565843 1120.6757 2.4948 0.00093448 1.1726 0.00043921 3.6674 0.0013737 374.5661303546669 62.197 0.29557 62.858 62.786 63.081 0.66008 31 22 2 0 0 0 1.1703 1 28520 28520 1.1933 0.12188 1 766590 6269 7369 4075 4089 6994 6994 0.12018891881916716 FILKKSYMV 9 Unmodified _FILKKSYMV_ 0 0 0 Harlequin-int_dup274|chr7:135172831-135173811:+|1.6690129096142616|0.3270592348791503|2.35|542.0|4|1|sense Harlequin-int_dup274|chr7:135172831-135173811:+|1.6690129096142616|0.3270592348791503|2.35|542.0|4|1|sense Harlequin-int_dup274|chr7:135172831-135173811:+|1.6690129096142616|0.3270592348791503|2.35|542.0|4|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.8309936523438 2 564.827921 1127.64129 3.5934 0.0020297 0.55293 0.00031231 4.1464 0.002342 564.8282490767342 16.924 0.94013 17.585 16.906 17.846 0.66072 128 87 2 0 0 0 1.1703 1 7343 7343 0.6015 0.6015 1 235650 6270 9381 4076 4090 6995 6995 0.08257307678809411 FILLRVRRRRK 11 Unmodified _FILLRVRRRRK_ 0 0 0 nc|ENSG00000130202|Q92692-2|NECTIN2 nc|ENSG00000130202|Q92692-2|NECTIN2 nc|ENSG00000130202|Q92692-2|NECTIN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 757.0067749023438 2 757.007328 1512.0001 NaN NaN NaN NaN NaN NaN NaN 96.358 1 96.435 95.935 96.935 0.076538 0 0 0 1.0082 1 51182 51182 0 0 1 6271 9636 4077 4091 6996 6996 0.26458257089552717 FILWRRFRWAI 11 Unmodified _FILWRRFRWAI_ 0 0 0 nc|ENSG00000135636|O75923-3|DYSF;nc|ENSG00000135636|O75923-9|DYSF;nc|ENSG00000135636|O75923|DYSF;nc|ENSG00000135636|O75923-14|DYSF;nc|ENSG00000135636|O75923-6|DYSF;nc|ENSG00000135636|O75923-12|DYSF;nc|ENSG00000135636|O75923-5|DYSF;nc|ENSG00000135636|O75923-11|DYSF;nc|ENSG00000135636|O75923-4|DYSF;nc|ENSG00000135636|O75923-10|DYSF;nc|ENSG00000135636|O75923-2|DYSF;nc|ENSG00000135636|O75923-8|DYSF;nc|ENSG00000135636|O75923-7|DYSF;ENSG00000135636|ENST00000410020|DYSF nc|ENSG00000135636|O75923-3|DYSF nc|ENSG00000135636|O75923-3|DYSF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 782.1196899414062 2 782.456605 1562.89866 NaN NaN NaN NaN NaN NaN NaN 103.01 1 103.07 102.57 103.57 0.055092 0 0 0 1.008 1 55886 55886 0.30703 0 1 6272 2885 4078 4092 6997 6997 0.13972385667011622 FIMDRAQAL 9 Unmodified _FIMDRAQAL_ 0 0 0 ENST00000588484.1_1_19:12826020-12830096:-|nuORF;nc|ENSG00000105576|O14787-2|TNPO2;ENSG00000105576|ENST00000425528|TNPO2 ENST00000588484.1_1_19:12826020-12830096:-|nuORF ENST00000588484.1_1_19:12826020-12830096:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 532.7828979492188 2 532.781502 1063.54845 2.9763 0.0015857 0.29211 0.00015563 3.2684 0.0017413 532.7817979399257 50.842 0.20397 51.104 50.991 51.195 0.26146 16 10 2 0 0 0 0.02812 1 23258 23258 57.722 17.273 1 377060 6273 1510 4079 4093 6998 6998 0.01921802945435047 FIMDRAQAL 9 Unmodified _FIMDRAQAL_ 0 0 0 ENST00000588484.1_1_19:12826020-12830096:-|nuORF;nc|ENSG00000105576|O14787-2|TNPO2;ENSG00000105576|ENST00000425528|TNPO2 ENST00000588484.1_1_19:12826020-12830096:-|nuORF ENST00000588484.1_1_19:12826020-12830096:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 532.781502 1063.54845 3.1951 0.0017023 3.7063 0.0019746 6.9013 0.0036769 532.781827223157 50.122 0.21924 50.779 50.698 50.917 0.65735 -0.16204 0.0033398 NaN 57.722 15 8 2 NaN NaN NaN NaN 0 NaN NaN 0 393790 6274 1510 4079 4093 0.01921802945435047 FINEKKYHL 9 Unmodified _FINEKKYHL_ 0 0 0 ENSG00000161217|ENST00000431016|PCYT1A ENSG00000161217|ENST00000431016|PCYT1A ENSG00000161217|ENST00000431016|PCYT1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 397.8905029296875 3 397.888874 1190.64479 NaN NaN NaN NaN NaN NaN NaN 26.41 1 26.41 25.91 26.91 0 0 0 0 0.10783 1 11887 11887 40.239 23.191 1 6275 4096 4080 4094 6999 6999 0.05709693777043867 FINEKKYHL 9 Unmodified _FINEKKYHL_ 0 0 0 ENSG00000161217|ENST00000431016|PCYT1A ENSG00000161217|ENST00000431016|PCYT1A ENSG00000161217|ENST00000431016|PCYT1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 397.89007568359375 3 397.888874 1190.64479 2.428 0.00096608 0.31745 0.00012631 2.7455 0.0010924 397.88902280581027 25.275 0.22906 26.038 25.926 26.155 0.76356 23 19 2 0 0 0 0.14214 2 11333 11333;11385 27.223 13.608 1 496360 6276 4096 4080 4094 7000;7001 7000 0.05709693777043867 FINEKKYHL 9 Unmodified _FINEKKYHL_ 0 0 0 ENSG00000161217|ENST00000431016|PCYT1A ENSG00000161217|ENST00000431016|PCYT1A ENSG00000161217|ENST00000431016|PCYT1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.8900146484375 3 397.888874 1190.64479 3.0292 0.0012053 0.26321 0.00010473 3.2924 0.00131 397.88900145091685 26.316 0.37741 26.58 26.426 26.804 0.26489 82 29 4 0 0 0 0.023321 2 11946 11946;11992 63.961 30.516 1 1861900 6277 4096 4080 4094 7002;7003 7002 0.05709693777043867 FINEKKYHL 9 Unmodified _FINEKKYHL_ 0 0 0 ENSG00000161217|ENST00000431016|PCYT1A ENSG00000161217|ENST00000431016|PCYT1A ENSG00000161217|ENST00000431016|PCYT1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.889404296875 3 397.888874 1190.64479 2.811 0.0011185 0.23446 9.3289E-05 3.0455 0.0012118 397.88899013035916 25.936 0.36142 26.561 26.419 26.78 0.62505 62 27 3 0 0 0 0.016529 2 11884 11884;11933 72.968 24.799 1 1726200 6278 4096 4080 4094 7004;7005 7004 0.05709693777043867 FINKKVTV 8 Unmodified _FINKKVTV_ 0 0 0 ENSG00000130147|ENST00000392011|SH3BP4;nc|ENSG00000130147|Q9P0V3-2|SH3BP4 ENSG00000130147|ENST00000392011|SH3BP4 ENSG00000130147|ENST00000392011|SH3BP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.7991943359375 2 474.797478 947.580402 3.0242 0.0014359 0.0040744 1.9345E-06 3.0283 0.0014378 474.79752297439956 22.323 0.22676 22.323 22.212 22.439 0 33 18 2 0 0 0 0.035125 1 10004 10004 47.749 23.728 1 369250 6279 2574 4081 4095 7006 7006 0.10451538690904272 FINSKERHF 9 Unmodified _FINSKERHF_ 0 0 0 REV__nc|ENSG00000116127|Q8TCU4-2|ALMS1 REV__nc|ENSG00000116127|Q8TCU4-2|ALMS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.2081298828125 3 393.208607 1176.60399 NaN NaN NaN NaN NaN NaN NaN 36.17 1 36.17 35.67 36.67 0 0 0 0 0.90335 1 16416 16416 2.7352 0.23671 1 + 6280 11394 4082 4096 7007 7007 0.022753524574227413 FIPKLKSR 8 Unmodified _FIPKLKSR_ 0 0 0 REV__ENSG00000213265|ENST00000356588|TSGA13 REV__ENSG00000213265|ENST00000356588|TSGA13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.2157897949219 3 330.214922 987.622936 2.5025 0.00082637 0.14382 4.7492E-05 2.6464 0.00087387 330.21496349223867 25.332 0.44969 25.599 25.331 25.781 0.26777 114 49 3 0 0 0 0.33696 1 11491 11491 32.786 2.9451 1 3115700 + 6281 14491 4083 4097 7008 7008 0.12862933819133104 FIQEIEHAL 9 Unmodified _FIQEIEHAL_ 0 0 0 ENSG00000131558|ENST00000253861|EXOC4 ENSG00000131558|ENST00000253861|EXOC4 ENSG00000131558|ENST00000253861|EXOC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.2951049804688 2 550.292756 1098.57096 3.532 0.0019436 0.65235 0.00035898 4.1843 0.0023026 550.2930117381777 62.08 0.29729 62.333 62.184 62.482 0.25245 29 13 3 0 0 0 0.015098 2 28454 28398;28454 74.929 34.48 1 1422100 6282 2665 4084 4098 7009;7010 7010 0.025617256147143053 FIQEIEHAL 9 Unmodified _FIQEIEHAL_ 0 0 0 ENSG00000131558|ENST00000253861|EXOC4 ENSG00000131558|ENST00000253861|EXOC4 ENSG00000131558|ENST00000253861|EXOC4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 550.292756 1098.57096 3.4357 0.0018906 -0.22365 -0.00012307 3.212 0.0017676 550.2921941225796 61.446 0.25084 62.109 62.012 62.262 0.66261 -0.11213 -0.00057895 NaN 74.929 27 12 3 NaN NaN NaN NaN 0 NaN NaN 0 2003600 6283 2665 4084 4098 0.025617256147143053 FIRFWLFWKYP 11 Unmodified _FIRFWLFWKYP_ 0 0 0 ENST00000484027.1_1_1:155108806-155110754:+|nuORF;ENST00000368405.7_1_1:155108359-155110754:+|nuORF;nc|ENSG00000169241|Q9BRV3-2|SLC50A1;nc|ENSG00000169241|Q9BRV3-3|SLC50A1;ENSG00000169241|ENST00000368404|SLC50A1 ENST00000484027.1_1_1:155108806-155110754:+|nuORF ENST00000484027.1_1_1:155108806-155110754:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 801.6074829101562 2 801.93464 1601.85473 NaN NaN NaN NaN NaN NaN NaN 81.273 1 81.442 80.942 81.942 0.16862 0 0 0 1.008 1 39930 39930 0.35063 0.043601 1 6284 4678 4085 4099 7011 7011 0.0778735645001234 FIRPKLVTI 9 Unmodified _FIRPKLVTI_ 0 0 0 nc|ENSG00000133083|O15075-2|DCLK1;ENSG00000133083|ENST00000360631|DCLK1 nc|ENSG00000133083|O15075-2|DCLK1 nc|ENSG00000133083|O15075-2|DCLK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.9066162109375 3 362.905977 1085.6961 2.4818 0.00090065 -0.20737 -7.5256E-05 2.2744 0.00082539 362.90586050953993 51.299 0.20983 51.562 51.431 51.641 0.26228 21 9 3 0 0 0 0.14729 1 23442 23442 24.991 13.496 1 1887200 6285 2747 4086 4100 7012 7012 0.1566806254174935 FIRWRTFI 8 Unmodified _FIRWRTFI_ 0 0 0 REV__ENST00000503802.5_1_5:118445954-118451854:+|nuORF REV__ENST00000503802.5_1_5:118445954-118451854:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.2227478027344 3 380.222188 1137.64473 NaN NaN NaN NaN NaN NaN NaN 28.037 1 28.657 28.157 29.157 0.61947 0 0 0 0.99035 1 12857 12857 3.9444 1.2092 1 + 6286 16908 4087 4101 7013 7013 0.08141738567701395 FISRRHLQL 9 Unmodified _FISRRHLQL_ 0 0 0 ENSG00000164916|ENST00000328914|FOXK1 ENSG00000164916|ENST00000328914|FOXK1 ENSG00000164916|ENST00000328914|FOXK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.5695495605469 3 390.568247 1168.68291 2.9826 0.0011649 -0.023774 -9.2855E-06 2.9588 0.0011556 390.9024752190498 25.917 0.21967 26.185 26.081 26.301 0.26777 44 21 3 0 0 0 0.14214 1 11763 11763 27.223 10.11 1 311070 6287 4354 4088 4102 7014 7014 0.10531624482359803 FISRRHLQL 9 Unmodified _FISRRHLQL_ 0 0 0 ENSG00000164916|ENST00000328914|FOXK1 ENSG00000164916|ENST00000328914|FOXK1 ENSG00000164916|ENST00000328914|FOXK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.5694580078125 3 390.568247 1168.68291 2.7418 0.0010709 0.002814 1.099E-06 2.7446 0.001072 390.56824614096826 25.636 0.23476 26.261 26.111 26.346 0.62505 39 24 2 0 0 0 0.22744 2 11731 11731;11787 21.59 9.3495 1 413960 6288 4354 4088 4102 7015;7016 7015 0.10531624482359803 FITLPSMGES 10 Unmodified _FITLPSMGES_ 0 0 0 REV__nc|ENSG00000186335|Q495M3-3|SLC36A2 REV__nc|ENSG00000186335|Q495M3-3|SLC36A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.662841796875 2 541.26535 1080.51615 NaN NaN NaN NaN NaN NaN NaN 83.357 1 83.402 82.902 83.902 0.045006 0 0 0 0.98866 1 41352 41352 7.2892 0 1 + 6289 11622 4089 4103 7017 7017 -0.02089029248213592 FITRHRRKKRK 11 Unmodified _FITRHRRKKRK_ 0 0 0 REV__ENSG00000119614|ENST00000261980|VSX2 REV__ENSG00000119614|ENST00000261980|VSX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 763.4860229492188 2 763.48676 1524.95897 NaN NaN NaN NaN NaN NaN NaN 90.59 1 90.59 90.09 91.09 0 0 0 0 1.0082 1 47655 47655 0 0 1 + 6290 11505 4090 4104 7018 7018 0.21748496050076938 FIYNRVVL 8 Unmodified _FIYNRVVL_ 0 0 0 ENST00000513410.1_1_3:128982773-128985943:+|nuORF;ENSG00000181789|ENST00000314797|COPG1 ENST00000513410.1_1_3:128982773-128985943:+|nuORF ENST00000513410.1_1_3:128982773-128985943:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.8063354492188 2 512.302927 1022.5913 3.415 0.0017495 -0.3786 -0.00019396 3.0364 0.0015556 512.8045028373693 60.155 0.21139 60.411 60.314 60.526 0.25578 19 10 2 0 0 0 0.18676 1 27557 27557 44.407 15.325 1 904210 6291 5301 4091 4105 7019 7019 0.08090941065177049 FIYNRVVL 8 Unmodified _FIYNRVVL_ 0 0 0 ENST00000513410.1_1_3:128982773-128985943:+|nuORF;ENSG00000181789|ENST00000314797|COPG1 ENST00000513410.1_1_3:128982773-128985943:+|nuORF ENST00000513410.1_1_3:128982773-128985943:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.3038940429688 2 512.302927 1022.5913 3.3896 0.0017365 -0.42081 -0.00021558 2.9688 0.0015209 512.3025383349533 59.565 0.24175 60.23 60.102 60.344 0.66503 15 10 2 0 0 0 0.10141 1 27276 27276 53.576 17.449 1 573620 6292 5301 4091 4105 7020 7020 0.08090941065177049 FKDAIRLF 8 Unmodified _FKDAIRLF_ 0 0 0 nc|ENSG00000073921|Q13492-3|PICALM;nc|ENSG00000073921|Q13492-4|PICALM;nc|ENSG00000073921|Q13492-2|PICALM;nc|ENSG00000073921|Q13492-5|PICALM;ENSG00000073921|ENST00000393346|PICALM;ENST00000531771.5_1_11:85718509-85733504:-|nuORF nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 337.2000427246094 3 337.19916 1008.57565 NaN NaN NaN NaN NaN NaN NaN 26.132 1 26.132 25.632 26.632 0 0 0 0 0.99035 1 11749 11749 3.5965 1.9439 1 6293 9560 4092 4106 7021 7021 0.0717065454813337 FKDAIRLF 8 Unmodified _FKDAIRLF_ 0 0 0 nc|ENSG00000073921|Q13492-3|PICALM;nc|ENSG00000073921|Q13492-4|PICALM;nc|ENSG00000073921|Q13492-2|PICALM;nc|ENSG00000073921|Q13492-5|PICALM;ENSG00000073921|ENST00000393346|PICALM;ENST00000531771.5_1_11:85718509-85733504:-|nuORF nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 337.1999816894531 3 337.19916 1008.57565 NaN NaN NaN NaN NaN NaN NaN 24.911 1 25.647 25.147 26.147 0.73623 0 0 0 0.99035 1 11169 11169 3.5965 0 1 6294 9560 4092 4106 7022 7022 0.0717065454813337 FKDAIRLF 8 Unmodified _FKDAIRLF_ 0 0 0 nc|ENSG00000073921|Q13492-3|PICALM;nc|ENSG00000073921|Q13492-4|PICALM;nc|ENSG00000073921|Q13492-2|PICALM;nc|ENSG00000073921|Q13492-5|PICALM;ENSG00000073921|ENST00000393346|PICALM;ENST00000531771.5_1_11:85718509-85733504:-|nuORF nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 337.1999206542969 3 337.19916 1008.57565 NaN NaN NaN NaN NaN NaN NaN 25.012 1 25.748 25.248 26.248 0.73623 0 0 0 0.99035 1 11217 11217 3.5965 1.9439 1 6295 9560 4092 4106 7023 7023 0.0717065454813337 FKDAIRLF 8 Unmodified _FKDAIRLF_ 0 0 0 nc|ENSG00000073921|Q13492-3|PICALM;nc|ENSG00000073921|Q13492-4|PICALM;nc|ENSG00000073921|Q13492-2|PICALM;nc|ENSG00000073921|Q13492-5|PICALM;ENSG00000073921|ENST00000393346|PICALM;ENST00000531771.5_1_11:85718509-85733504:-|nuORF nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 337.2002258300781 3 337.19916 1008.57565 NaN NaN NaN NaN NaN NaN NaN 25.104 1 25.867 25.367 26.367 0.76356 0 0 0 0.99035 1 11261 11261 3.5965 1.9439 1 6296 9560 4092 4106 7024 7024 0.0717065454813337 FKDAIRLF 8 Unmodified _FKDAIRLF_ 0 0 0 nc|ENSG00000073921|Q13492-3|PICALM;nc|ENSG00000073921|Q13492-4|PICALM;nc|ENSG00000073921|Q13492-2|PICALM;nc|ENSG00000073921|Q13492-5|PICALM;ENSG00000073921|ENST00000393346|PICALM;ENST00000531771.5_1_11:85718509-85733504:-|nuORF nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 337.20037841796875 3 337.19916 1008.57565 NaN NaN NaN NaN NaN NaN NaN 25.193 1 25.957 25.457 26.457 0.76356 0 0 0 0.99035 1 11303 11303 3.5965 2.1146 1 6297 9560 4092 4106 7025 7025 0.0717065454813337 FKDAIRLF 8 Unmodified _FKDAIRLF_ 0 0 0 nc|ENSG00000073921|Q13492-3|PICALM;nc|ENSG00000073921|Q13492-4|PICALM;nc|ENSG00000073921|Q13492-2|PICALM;nc|ENSG00000073921|Q13492-5|PICALM;ENSG00000073921|ENST00000393346|PICALM;ENST00000531771.5_1_11:85718509-85733504:-|nuORF nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 337.19964599609375 3 337.19916 1008.57565 NaN NaN NaN NaN NaN NaN NaN 25.346 1 25.975 25.475 26.475 0.62915 0 0 0 0.99035 1 11613 11613 3.5965 1.9439 1 6298 9560 4092 4106 7026 7026 0.0717065454813337 FKFKKKKMLFA 11 Unmodified _FKFKKKKMLFA_ 0 0 0 REV__nc|ENSG00000167106|Q5T9C2-2|EEIG1 REV__nc|ENSG00000167106|Q5T9C2-2|EEIG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.6259460449219 3 472.624704 1414.85228 NaN NaN NaN NaN NaN NaN NaN 31.534 1 32.323 31.823 32.823 0.78879 0 0 0 1.008 1 14243 14243 0.08335 0 1 + 6299 13276 4093 4107 7027 7027 0.16145184720721772 FKFWRKWRRTT 11 Unmodified _FKFWRKWRRTT_ 0 0 0 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.97265625 3 537.972155 1610.89463 NaN NaN NaN NaN NaN NaN NaN 73.185 1 73.185 72.685 73.685 0 0 0 0 1.008 1 35646 35646 0.073264 0.073264 1 + 6300 18017 4094 4108 7028 7028 0.11362296173274444 FKHILFRRRRR 11 Unmodified _FKHILFRRRRR_ 0 0 0 ENSG00000184160|ENST00000330055|ADRA2C ENSG00000184160|ENST00000330055|ADRA2C ENSG00000184160|ENST00000330055|ADRA2C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.7102661132812 3 528.998927 1583.97495 NaN NaN NaN NaN NaN NaN NaN 63.551 1 63.551 63.051 64.051 0 0 0 0 1.0082 1 29912 29912 0.08335 0.08335 1 6301 5423 4095 4109 7029 7029 0.20632202286969914 FKIGPEYKS 9 Unmodified _FKIGPEYKS_ 0 0 0 nc|ENSG00000179889|Q6P996-3|PDXDC1;nc|ENSG00000179889|Q6P996-4|PDXDC1;nc|ENSG00000179889|Q6P996-5|PDXDC1;ENSG00000179889|ENST00000396410|PDXDC1 nc|ENSG00000179889|Q6P996-3|PDXDC1 nc|ENSG00000179889|Q6P996-3|PDXDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 356.8634033203125 3 356.862325 1067.56515 2.3696 0.0008456 0.31648 0.00011294 2.686 0.00095855 356.86242970415987 35.056 0.30646 35.056 34.91 35.217 0 60 25 3 0 0 0 0.076469 2 15891 15844;15891 38.615 6.5773 1 7852000 6302 5233 4096 4110 7030;7031 7031 0.034066271030496864 FKIGPEYKS 9 Unmodified _FKIGPEYKS_ 0 0 0 nc|ENSG00000179889|Q6P996-3|PDXDC1;nc|ENSG00000179889|Q6P996-4|PDXDC1;nc|ENSG00000179889|Q6P996-5|PDXDC1;ENSG00000179889|ENST00000396410|PDXDC1 nc|ENSG00000179889|Q6P996-3|PDXDC1 nc|ENSG00000179889|Q6P996-3|PDXDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 356.86328125 3 356.862325 1067.56515 2.5457 0.00090845 0.0049696 1.7735E-06 2.5506 0.00091022 356.86211746535287 34.908 0.27024 35.163 35.05 35.32 0.25524 41 21 3 0 0 0 0.076469 1 15885 15885 38.615 11.392 1 4615300 6303 5233 4096 4110 7032 7032 0.034066271030496864 FKIGPEYKS 9 Unmodified _FKIGPEYKS_ 0 0 0 nc|ENSG00000179889|Q6P996-3|PDXDC1;nc|ENSG00000179889|Q6P996-4|PDXDC1;nc|ENSG00000179889|Q6P996-5|PDXDC1;ENSG00000179889|ENST00000396410|PDXDC1 nc|ENSG00000179889|Q6P996-3|PDXDC1 nc|ENSG00000179889|Q6P996-3|PDXDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 356.8623046875 3 356.862325 1067.56515 2.463 0.00087897 -0.49982 -0.00017837 1.9632 0.0007006 356.8620742597923 34.479 0.35219 35.102 34.919 35.271 0.62294 32 12 4 0 0 0 0.10277 1 15799 15799 32.037 4.8142 1 2466200 6304 5233 4096 4110 7033 7033 0.034066271030496864 FKIPIKSR 8 Unmodified _FKIPIKSR_ 0 0 0 ENSG00000116668|ENST00000367500|SWT1 ENSG00000116668|ENST00000367500|SWT1 ENSG00000116668|ENST00000367500|SWT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.55035400390625 3 330.214922 987.622936 2.5025 0.00082637 0.14382 4.7492E-05 2.6464 0.00087387 330.21496349223867 25.332 0.44969 25.599 25.331 25.781 0.26777 114 49 3 0 0 0 0.47805 1 11399 11399 22.736 3.4793 1 3115700 6305 2037 4097 4111 7034 7034 0.12862933819133104 FKKAKRVKTE 10 Unmodified _FKKAKRVKTE_ 0 0 0 ENSG00000116478|ENST00000373548|HDAC1 ENSG00000116478|ENST00000373548|HDAC1 ENSG00000116478|ENST00000373548|HDAC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.8851928710938 2 617.885147 1233.75574 NaN NaN NaN NaN NaN NaN NaN 53.684 1 53.684 53.184 54.184 0 0 0 0 0.99464 1 24608 24608 6.2058 2.6093 1 6306 2029 4098 4112 7035 7035 0.14821333485133437 FKKEKDRFKI 10 Unmodified _FKKEKDRFKI_ 0 0 0 ENSG00000187889|ENST00000343433|FYB2 ENSG00000187889|ENST00000343433|FYB2 ENSG00000187889|ENST00000343433|FYB2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 335.2019958496094 4 335.452765 1337.78196 2.2458 0.00075335 -1.5292 -0.00051299 0.71654 0.00024036 335.45223182071635 55.465 0.22692 55.465 55.439 55.666 0 19 17 2 0 0 0 0.12676 1 25532 25532 0.77653 0.27058 1 2511100 6307 5643 4099 4113 7036 7036 0.1265760265659992 FKKEKDRFKI 10 Unmodified _FKKEKDRFKI_ 0 0 0 ENSG00000187889|ENST00000343433|FYB2 ENSG00000187889|ENST00000343433|FYB2 ENSG00000187889|ENST00000343433|FYB2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 335.452765 1337.78196 2.1388 0.00071748 -0.33875 -0.00011364 1.8001 0.00060384 335.45241891990804 55.06 0.16217 55.326 55.178 55.34 0.26543 -0.15881 0.0011304 NaN 0.15932 11 8 2 NaN NaN NaN NaN 0 NaN NaN 0 1771800 6308 5643 4099 4113 0.1265760265659992 FKKIFLRSL 9 Unmodified _FKKIFLRSL_ 0 0 0 REV__ENST00000380888.4_1_20:29523054-29523153:-|nuORF REV__ENST00000380888.4_1_20:29523054-29523153:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 384.2265319824219 3 384.581493 1150.72265 2.6242 0.0010092 1.4063 0.00054084 4.0305 0.0015501 384.91620674082515 58.806 0.14568 58.806 58.758 58.904 0 11 9 2 0 0 0 0.11031 1 27187 27187 3.3196 0 1 491170 + 6309 15888 4100 4114 7037 7037 0.15331751433086538 FKKIRRKREFR 11 Unmodified _FKKIRRKREFR_ 0 0 0 ENST00000465873.5_1_9:138834060-138837107:-|nuORF;ENST00000471163.1_1_9:138834060-138839712:-|nuORF;ENSG00000130560|ENST00000371756|UBAC1 ENST00000465873.5_1_9:138834060-138837107:-|nuORF ENST00000465873.5_1_9:138834060-138837107:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.9525146484375 3 521.995071 1562.96338 NaN NaN NaN NaN NaN NaN NaN 27.948 1 28.734 28.234 29.234 0.78627 0 0 0 1.0082 1 12577 12577 0 0 1 6310 2600 4101 4115 7038 7038 0.20441960473021936 FKKKRKKERKK 11 Unmodified _FKKKRKKERKK_ 0 0 0 ENST00000535284.1_1_16:57095655-57095901:+|nuORF ENST00000535284.1_1_16:57095655-57095901:+|nuORF ENST00000535284.1_1_16:57095655-57095901:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.00506591796875 3 502.003455 1502.98853 NaN NaN NaN NaN NaN NaN NaN 97.393 1 97.682 97.182 98.182 0.28923 0 0 0 1.0082 1 44735 44735 0 0 1 6311 8762 4102 4116 7039 7039 0.2571601527558869 FKKRLFLLT 9 Unmodified _FKKRLFLLT_ 0 0 0 nc|ENSG00000010671|Q06187-2|BTK;ENSG00000010671|ENST00000308731|BTK;ENST00000464567.1_1_X:100629364-100630272:-|nuORF nc|ENSG00000010671|Q06187-2|BTK nc|ENSG00000010671|Q06187-2|BTK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.2548828125 3 389.253376 1164.7383 2.6921 0.0010479 1.0891 0.00042394 3.7812 0.0014718 389.25390095188953 38.512 0.36945 38.776 38.63 38.999 0.26408 60 14 5 0 0 0 1.178 1 17566 17566 1.0715 0.29493 1 128780000 6312 403 4103 4117 7040 7040 0.16252037950107479 FKKRRRRARKY 11 Unmodified _FKKRRRRARKY_ 0 0 0 nc|ENSG00000172403|Q9UMS6-5|SYNPO2;nc|ENSG00000172403|Q9UMS6|SYNPO2;nc|ENSG00000172403|Q9UMS6-3|SYNPO2;nc|ENSG00000172403|Q9UMS6-4|SYNPO2;ENSG00000172403|ENST00000307142|SYNPO2 nc|ENSG00000172403|Q9UMS6-5|SYNPO2 nc|ENSG00000172403|Q9UMS6-5|SYNPO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 783.0589599609375 2 782.992209 1563.96987 NaN NaN NaN NaN NaN NaN NaN 81.196 1 81.196 80.696 81.696 0 0 0 0 1.0082 1 40429 40429 0 0 1 6313 4870 4104 4118 7041 7041 0.21043898424409235 FKKTFKRILHI 11 Unmodified _FKKTFKRILHI_ 0 0 0 ENSG00000196639|ENST00000431010|HRH1 ENSG00000196639|ENST00000431010|HRH1 ENSG00000196639|ENST00000431010|HRH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.63848876953125 3 477.638001 1429.89217 NaN NaN NaN NaN NaN NaN NaN 86.569 1 86.599 86.099 87.099 0.030289 0 0 0 1.0079 1 43597 43597 0.50596 0.051438 1 6314 5763 4105 4119 7042 7042 0.1944244771564172 FKLFESNAL 9 Unmodified _FKLFESNAL_ 0 0 0 REV__nc|ENSG00000139197|P50542-3|PEX5 REV__nc|ENSG00000139197|P50542-3|PEX5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.1974792480469 3 356.862325 1067.56515 2.5457 0.00090845 0.0049696 1.7735E-06 2.5506 0.00091022 356.86211746535287 34.908 0.27024 35.163 35.05 35.32 0.25524 41 21 3 0 0 0 0.14214 1 15932 15932 27.223 0 1 4615300 + 6315 12206 4106 4120 7043 7043 0.034066271030496864 FKLFQASPSVP 11 Unmodified _FKLFQASPSVP_ 0 0 0 nc|ENSG00000104221|Q9HAW0-2|BRF2;ENSG00000104221|ENST00000220659|BRF2 nc|ENSG00000104221|Q9HAW0-2|BRF2 nc|ENSG00000104221|Q9HAW0-2|BRF2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 610.3386840820312 2 610.837331 1219.66011 3.4304 0.0020954 -2.9743 -0.0018168 0.45606 0.00027858 610.8350443809827 35.985 0.26485 36.776 36.66 36.925 0.79131 10 9 2 0 0 0 0.13295 1 16291 16291 4.897 0.70751 1 182770 6316 1430 4107 4121 7044 7044 0.05906560574226205 FKLHNPPI 8 Unmodified _FKLHNPPI_ 0 0 0 REV__nc|ENSG00000189350|Q6ZUX3-3|TOGARAM2 REV__nc|ENSG00000189350|Q6ZUX3-3|TOGARAM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.28350830078125 2 483.281995 964.549437 NaN NaN NaN NaN NaN NaN NaN 50.706 1 50.706 50.206 51.206 0 0 0 0 0.9851 1 23217 23217 9.3474 3.587 1 + 6317 16646 4108 4122 7045 7045 0.06574385376643477 FKNLREFWKQL 11 Unmodified _FKNLREFWKQL_ 0 0 0 nc|ENSG00000128928|P26440|IVD;ENSG00000128928|ENST00000487418|IVD nc|ENSG00000128928|P26440|IVD nc|ENSG00000128928|P26440|IVD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.6191711425781 3 503.617266 1507.82997 NaN NaN NaN NaN NaN NaN NaN 54.469 1 55.265 54.765 55.765 0.79552 0 0 0 1.0072 1 24852 24852 0.45452 0 1 6318 2533 4109 4123 7046 7046 0.09636676576633363 FKRIHEYKPLK 11 Unmodified _FKRIHEYKPLK_ 0 0 0 ENSG00000203872|ENST00000388923|C6orf163 ENSG00000203872|ENST00000388923|C6orf163 ENSG00000203872|ENST00000388923|C6orf163 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.9558410644531 3 486.957511 1457.8507 NaN NaN NaN NaN NaN NaN NaN 77.3 1 77.861 77.361 78.361 0.56091 0 0 0 1.0064 1 37487 37487 2.4348 0.97967 1 6319 5979 4110 4124 7047 7047 0.140092669563046 FKRKLFLKKK 10 Unmodified _FKRKLFLKKK_ 0 0 0 REV__ENST00000342992.10_3_2:179540701-179542581:-|nuORF REV__ENST00000342992.10_3_2:179540701-179542581:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 667.953369140625 2 668.453 1334.89145 4.1019 0.0027419 -1.1045 -0.00073828 2.9974 0.0020036 668.4522668291643 30.291 0.23611 30.549 30.49 30.726 0.25804 15 11 2 0 0 0 0.12676 1 13790 13790 0 0 1 2267900 + 6320 15483 4111 4125 7048 7048 0.23739653066559185 FKSFLRSQGL 10 Unmodified _FKSFLRSQGL_ 0 0 0 ENST00000497388.5_1_7:129933020-129939280:+|nuORF;ENST00000470542.5_1_7:129933020-129945674:+|nuORF;nc|ENSG00000128510|Q9UI42-2|CPA4;ENSG00000128510|ENST00000222482|CPA4 ENST00000497388.5_1_7:129933020-129939280:+|nuORF ENST00000497388.5_1_7:129933020-129939280:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.881591796875 3 394.892507 1181.65569 NaN NaN NaN NaN NaN NaN NaN 19.312 1 19.97 19.47 20.47 0.6583 0 0 0 0.99807 1 8763 8763 3.3196 0.3244 1 6321 2512 4112 4126 7049 7049 0.07213096151349419 FKSLAAEHI 9 Unmodified _FKSLAAEHI_ 0 0 0 REV__PITRM1|p.E283A|1|0.2|ENSG00000107959|chr10:3160274-3160274|T/G|missense_variant REV__PITRM1|p.E283A|1|0.2|ENSG00000107959|chr10:3160274-3160274|T/G|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.1910095214844 3 339.190553 1014.54983 2.5142 0.00085278 -0.035082 -1.1899E-05 2.4791 0.00084088 339.19051151474133 12.533 0.17843 12.533 12.467 12.646 0 45 14 5 0 0 0 0.27958 1 5496 5496 12.873 0 1 128460000 + 6322 18200 4113 4127 7050 7050 0.04313760305853975 FKSLAAEHI 9 Unmodified _FKSLAAEHI_ 0 0 0 REV__PITRM1|p.E283A|1|0.2|ENSG00000107959|chr10:3160274-3160274|T/G|missense_variant REV__PITRM1|p.E283A|1|0.2|ENSG00000107959|chr10:3160274-3160274|T/G|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 339.1908874511719 3 339.190553 1014.54983 1.8122 0.00061466 -0.26314 -8.9253E-05 1.549 0.00052541 339.1904349617636 12.407 0.099098 12.668 12.638 12.737 0.26154 31 9 4 0 0 0 0.10837 1 5356 5356 22.658 1.0679 1 157380000 + 6323 18200 4113 4127 7051 7051 0.04313760305853975 FKSLAAEHI 9 Unmodified _FKSLAAEHI_ 0 0 0 REV__PITRM1|p.E283A|1|0.2|ENSG00000107959|chr10:3160274-3160274|T/G|missense_variant REV__PITRM1|p.E283A|1|0.2|ENSG00000107959|chr10:3160274-3160274|T/G|missense_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 339.190553 1014.54983 1.8122 0.00061466 -0.26314 -8.9253E-05 1.549 0.00052541 339.1904349617636 12.407 0.099098 12.668 12.638 12.737 0.26154 -0.066139 -0.00018502 NaN 22.658 31 9 4 NaN NaN NaN NaN 0 NaN NaN 0 157380000 + 6324 18200 4113 4127 0.04313760305853975 FKSLAAEHI 9 Unmodified _FKSLAAEHI_ 0 0 0 REV__PITRM1|p.E283A|1|0.2|ENSG00000107959|chr10:3160274-3160274|T/G|missense_variant REV__PITRM1|p.E283A|1|0.2|ENSG00000107959|chr10:3160274-3160274|T/G|missense_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 339.190553 1014.54983 2.7101 0.00091926 0.1687 5.722E-05 2.8788 0.00097648 339.19063774465275 12.383 0.10889 13.021 12.978 13.087 0.63746 0.28668 0.0002544 NaN 22.658 16 6 3 NaN NaN NaN NaN 0 NaN NaN 0 180970000 + 6325 18200 4113 4127 0.04313760305853975 FKVKFKQIK 9 Unmodified _FKVKFKQIK_ 0 0 0 REV__ENSG00000157423|ENST00000393567|HYDIN REV__ENSG00000157423|ENST00000393567|HYDIN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.25469970703125 3 389.253376 1164.7383 2.6921 0.0010479 1.0891 0.00042394 3.7812 0.0014718 389.25390095188953 38.512 0.36945 38.776 38.63 38.999 0.26408 60 14 5 0 0 0 1.1703 1 17615 17615 1.1933 0.12188 1 128780000 + 6326 12801 4114 4128 7052 7052 0.16252037950107479 FKVKFKQIK 9 Unmodified _FKVKFKQIK_ 0 0 0 REV__ENSG00000157423|ENST00000393567|HYDIN REV__ENSG00000157423|ENST00000393567|HYDIN MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 389.253376 1164.7383 2.6999 0.0010509 1.5213 0.00059217 4.2212 0.0016431 389.25400356858455 39.16 0.4176 39.16 38.962 39.379 0 0.30597 7.3442E-05 NaN 1.1933 71 15 5 NaN NaN NaN NaN 0 NaN NaN 0 59232000 + 6327 12801 4114 4128 0.16252037950107479 FKVKFKQIK 9 Unmodified _FKVKFKQIK_ 0 0 0 REV__ENSG00000157423|ENST00000393567|HYDIN REV__ENSG00000157423|ENST00000393567|HYDIN MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 389.253376 1164.7383 2.5534 0.00099391 1.7147 0.00066745 4.2681 0.0016614 389.25417003881597 37.97 0.32363 38.766 38.637 38.961 0.79552 -0.087989 0.00029929 NaN 1.1933 52 10 6 NaN NaN NaN NaN 0 NaN NaN 0 43834000 + 6328 12801 4114 4128 0.16252037950107479 FKVKFKQIK 9 Unmodified _FKVKFKQIK_ 0 0 0 REV__ENSG00000157423|ENST00000393567|HYDIN REV__ENSG00000157423|ENST00000393567|HYDIN MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 389.253376 1164.7383 2.6593 0.0010351 1.5167 0.00059037 4.176 0.0016255 389.2540147816852 38.08 0.52896 38.714 38.466 38.995 0.63388 -0.14008 6.8064E-05 NaN 1.1933 98 21 5 NaN NaN NaN NaN 0 NaN NaN 0 54910000 + 6329 12801 4114 4128 0.16252037950107479 FKVNKKITFT 10 Unmodified _FKVNKKITFT_ 0 0 0 ENSG00000178105|ENST00000322536|DDX10 ENSG00000178105|ENST00000322536|DDX10 ENSG00000178105|ENST00000322536|DDX10 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 307.1166076660156 4 307.188037 1224.72304 2.0087 0.00061705 0.6773 0.00020806 2.686 0.00082511 307.18844081505205 44.418 0.18465 44.687 44.581 44.766 0.2694 10 5 3 0 0 0 0.12676 1 20258 20258 0.69767 0.58973 1 187150 6330 5149 4115 4129 7053 7053 0.11967126362242198 FKVRYILAGL 10 Unmodified _FKVRYILAGL_ 0 0 0 REV__nc|ENSG00000137474|Q13402-5|MYO7A;REV__ENST00000481328.7_1_11:76905078-76923312:+|nuORF REV__nc|ENSG00000137474|Q13402-5|MYO7A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.9138488769531 3 393.913131 1178.71756 2.6596 0.0010476 1.4507 0.00057144 4.1103 0.0016191 393.9133350556833 39.35 0.2927 39.35 39.23 39.522 0 17 10 2 0 0 0 0.93628 1 17856 17856 0.69767 0 1 605930 + 6331 12113;16701 4116 4130 7054 7054 0.13535447570484394 FKVRYILAGL 10 Unmodified _FKVRYILAGL_ 0 0 0 REV__nc|ENSG00000137474|Q13402-5|MYO7A;REV__ENST00000481328.7_1_11:76905078-76923312:+|nuORF REV__nc|ENSG00000137474|Q13402-5|MYO7A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.9144592285156 3 393.913131 1178.71756 2.7574 0.0010862 0.44192 0.00017408 3.1993 0.0012603 393.91330574259416 38.657 0.1824 38.921 38.845 39.028 0.26408 14 8 2 0 0 0 0.93628 1 17594 17594 0.69767 0 1 496830 + 6332 12113;16701 4116 4130 7055 7055 0.13535447570484394 FKYCWENFV 9 Unmodified _FKYCWENFV_ 0 0 0 ENSG00000128394|ENST00000308521|APOBEC3F;ENSG00000244509|ENST00000361441|APOBEC3C ENSG00000128394|ENST00000308521|APOBEC3F;ENSG00000244509|ENST00000361441|APOBEC3C ENSG00000128394|ENST00000308521|APOBEC3F MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 412.5243835449219 3 412.523315 1234.54812 NaN NaN NaN NaN NaN NaN NaN 39.888 1 40.688 40.188 41.188 0.80014 0 0 0 0.91206 1 18059 18059 0.26902 0 1 6333 2510;6251 4117 4131 7056 7056 -0.059776167744303166 FKYVRRPI 8 Unmodified _FKYVRRPI_ 0 0 0 SAMD3|p.N438Tfs*14|1|0.23|ENSG00000164483|chr6:130144770-130144770|T/-|frameshift_variant;ENSG00000164483|ENST00000439090|SAMD3;nc|ENSG00000164483|Q8N6K7-3|SAMD3 SAMD3|p.N438Tfs*14|1|0.23|ENSG00000164483|chr6:130144770-130144770|T/-|frameshift_variant SAMD3|p.N438Tfs*14|1|0.23|ENSG00000164483|chr6:130144770-130144770|T/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.5761413574219 3 360.222188 1077.64473 2.489 0.0008966 0.36421 0.0001312 2.8532 0.0010278 360.2225171890854 32.066 0.46466 32.684 32.483 32.948 0.61831 31 23 2 0 0 0 0.14249 1 14661 14661 0.45834 0 1 357810 6334 4318 4118 4132 7057 7057 0.109017385676907 FLAAKKLLKKK 11 Unmodified _FLAAKKLLKKK_ 0 0 0 REV__ENSG00000189132|ENST00000329357|FAM47B REV__ENSG00000189132|ENST00000329357|FAM47B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.447509765625 2 644.447383 1286.88021 NaN NaN NaN NaN NaN NaN NaN 82.316 1 82.316 81.816 82.816 0 0 0 0 1.008 1 41164 41164 0.35063 0.043601 1 + 6335 14173 4119 4133 7058 7058 0.24824830972443124 FLAQRAVEL 9 Unmodified _FLAQRAVEL_ 0 0 0 ENSG00000108465|ENST00000338399|CDK5RAP3;nc|ENSG00000108465|Q96JB5-4|CDK5RAP3;nc|ENSG00000108465|Q96JB5-3|CDK5RAP3;nc|ENSG00000108465|Q96JB5-2|CDK5RAP3 ENSG00000108465|ENST00000338399|CDK5RAP3 ENSG00000108465|ENST00000338399|CDK5RAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.8049926757812 2 523.803291 1045.59203 3.1781 0.0016647 -0.21077 -0.0001104 2.9673 0.0015543 523.8030921556115 50.741 0.17795 51.401 51.34 51.518 0.65956 15 9 2 0 0 0 0.091193 1 23231 23231 34.932 2.1464 1 852810 6336 1633 4120 4134 7059 7059 0.07105735714230832 FLAQRAVEL 9 Unmodified _FLAQRAVEL_ 0 0 0 ENSG00000108465|ENST00000338399|CDK5RAP3;nc|ENSG00000108465|Q96JB5-4|CDK5RAP3;nc|ENSG00000108465|Q96JB5-3|CDK5RAP3;nc|ENSG00000108465|Q96JB5-2|CDK5RAP3 ENSG00000108465|ENST00000338399|CDK5RAP3 ENSG00000108465|ENST00000338399|CDK5RAP3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 523.803291 1045.59203 3.2076 0.0016801 -1.0931 -0.00057256 2.1145 0.0011076 523.8028177087123 51.446 0.15643 51.708 51.566 51.722 0.26227 0.15376 -0.00047945 NaN 34.932 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 1247100 6337 1633 4120 4134 0.07105735714230832 FLAQRAVEL 9 Unmodified _FLAQRAVEL_ 0 0 0 ENSG00000108465|ENST00000338399|CDK5RAP3;nc|ENSG00000108465|Q96JB5-4|CDK5RAP3;nc|ENSG00000108465|Q96JB5-3|CDK5RAP3;nc|ENSG00000108465|Q96JB5-2|CDK5RAP3 ENSG00000108465|ENST00000338399|CDK5RAP3 ENSG00000108465|ENST00000338399|CDK5RAP3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 523.803291 1045.59203 3.1781 0.0016647 -0.21077 -0.0001104 2.9673 0.0015543 523.8030921556115 50.741 0.17795 51.401 51.34 51.518 0.65956 -0.15376 0.00044486 NaN 34.932 15 9 2 NaN NaN NaN NaN 0 NaN NaN 0 852810 6338 1633 4120 4134 0.07105735714230832 FLARKPSAV 9 Unmodified _FLARKPSAV_ 0 0 0 ENST00000312037.5_1_5:149826506-149829126:-|nuORF;ENST00000407193.5_1_5:149826506-149829126:-|nuORF ENST00000312037.5_1_5:149826506-149829126:-|nuORF ENST00000312037.5_1_5:149826506-149829126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.80291748046875 2 494.800552 987.58655 3.3661 0.0016656 0.45091 0.00022311 3.817 0.0018887 494.8007659616235 19.5 0.21949 20.158 20.031 20.25 0.65829 31 14 3 0 0 0 0.044531 1 8838 8838 53.833 21.716 1 592630 6339 6878 4121 4135 7060 7060 0.09226056922420867 FLARKPSAV 9 Unmodified _FLARKPSAV_ 0 0 0 ENST00000312037.5_1_5:149826506-149829126:-|nuORF;ENST00000407193.5_1_5:149826506-149829126:-|nuORF ENST00000312037.5_1_5:149826506-149829126:-|nuORF ENST00000312037.5_1_5:149826506-149829126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.2037658691406 3 330.202793 987.58655 2.418 0.00079844 0.25148 8.3041E-05 2.6695 0.00088148 330.20283335564375 19.494 0.26358 20.152 20.031 20.294 0.65829 37 18 3 0 0 0 0.14214 1 8851 8851 27.223 3.4335 1 956380 6340 6878 4121 4135 7061 7061 0.09226056922420867 FLATGGDITR 10 Unmodified _FLATGGDITR_ 0 0 0 ENST00000426620.5_1_3:38234779-38271948:+|nuORF;ENSG00000172939|ENST00000311806|OXSR1 ENST00000426620.5_1_3:38234779-38271948:+|nuORF ENST00000426620.5_1_3:38234779-38271948:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.8590393066406 3 350.857463 1049.55056 2.4085 0.00084503 2.8905 0.0010141 5.2989 0.0018592 350.85859408964933 34.495 0.23602 35.118 34.987 35.223 0.62294 11 7 2 0 0 0 0.84709 1 15814 15814 3.3196 0.58445 1 395250 6341 4907 4122 4136 7062 7062 0.027765549548803392 FLDGNELTL 9 Unmodified _FLDGNELTL_ 0 0 0 ENSG00000213719|ENST00000375784|CLIC1 ENSG00000213719|ENST00000375784|CLIC1 ENSG00000213719|ENST00000375784|CLIC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1021.5189819335938 1 1021.52005 1020.51278 3.2979 0.0033689 -0.019726 -2.0151E-05 3.2782 0.0033487 1021.5196858519823 77.349 0.1553 77.604 77.514 77.669 0.25533 16 10 2 0 0 0 0.24465 1 35600 35600 20.454 3.5113 1 424010 6342 6096 4123 4137 7063 7063 0.003340439694284214 FLDGNELTL 9 Unmodified _FLDGNELTL_ 0 0 0 ENSG00000213719|ENST00000375784|CLIC1 ENSG00000213719|ENST00000375784|CLIC1 ENSG00000213719|ENST00000375784|CLIC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 511.26580810546875 2 511.263665 1020.51278 3.2187 0.0016456 -0.35636 -0.00018219 2.8624 0.0014634 511.2636003747338 77.347 0.2348 77.603 77.486 77.721 0.25533 37 15 3 0 0 0 0.10837 1 35622 35622 30.637 1.555 1 866280 6343 6096 4123 4137 7064 7064 0.003340439694284214 FLDGNELTL 9 Unmodified _FLDGNELTL_ 0 0 0 ENSG00000213719|ENST00000375784|CLIC1 ENSG00000213719|ENST00000375784|CLIC1 ENSG00000213719|ENST00000375784|CLIC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 511.7668762207031 2 511.263665 1020.51278 3.0973 0.0015835 0.535 0.00027352 3.6323 0.0018571 511.2639299562451 76.88 0.25896 77.543 77.42 77.679 0.66303 48 22 3 0 0 0 0.14729 1 35413 35413 26.884 9.9414 1 805480 6344 6096 4123 4137 7065 7065 0.003340439694284214 FLDGNELTL 9 Unmodified _FLDGNELTL_ 0 0 0 ENSG00000213719|ENST00000375784|CLIC1 ENSG00000213719|ENST00000375784|CLIC1 ENSG00000213719|ENST00000375784|CLIC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1021.52392578125 1 1021.52005 1020.51278 3.3404 0.0034123 -0.10684 -0.00010914 3.2336 0.0033032 1021.519249970647 76.886 0.17847 77.549 77.469 77.647 0.66303 25 15 2 0 0 0 0.24465 1 35424 35424 20.454 3.5113 1 434330 6345 6096 4123 4137 7066 7066 0.003340439694284214 FLDGNELTL 9 Unmodified _FLDGNELTL_ 0 0 0 ENSG00000213719|ENST00000375784|CLIC1 ENSG00000213719|ENST00000375784|CLIC1 ENSG00000213719|ENST00000375784|CLIC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 511.263665 1020.51278 2.6148 0.0013369 -0.37565 -0.00019206 2.2392 0.0011448 511.2634234849763 76.888 0.22166 77.512 77.403 77.625 0.62397 -0.040499 -0.00050297 NaN 30.637 24 14 2 NaN NaN NaN NaN 0 NaN NaN 0 474210 6346 6096 4123 4137 0.003340439694284214 FLDGNEMTL 9 Unmodified _FLDGNEMTL_ 0 0 0 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.743896484375 2 520.241875 1038.4692 2.5878 0.0013463 1.5413 0.00080186 4.1291 0.0021481 520.2416814184352 71.201 0.3457 71.201 71.116 71.462 0 104 35 4 0 0 0 0.071101 2 34590 34590;34649 39.957 15.747 1 2986200 6347 4694 4124 4138 7067;7068 7067 -0.04849888799344626 FLDGNEMTL 9 Unmodified _FLDGNEMTL_ 0 0 0 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.7463989257812 2 520.241875 1038.4692 2.8943 0.0015057 -0.27645 -0.00014382 2.6178 0.0013619 520.2412891857356 70.508 0.32205 71.212 71.036 71.358 0.70386 61 36 2 0 0 0 0.29781 1 33810 33810 16.942 1.1741 1 3570500 6348 4694 4124 4138 7069 7069 -0.04849888799344626 FLDGNEMTL 9 Unmodified _FLDGNEMTL_ 0 0 0 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.2431030273438 2 520.241875 1038.4692 3.1667 0.0016474 1.776 0.00092397 4.9427 0.0025714 520.2415080080422 71.051 0.66669 71.309 71.086 71.753 0.25786 196 59 5 0 0 0 0.010221 3 32518 32471;32518;32562 81.613 26.835 1 4550800 6349 4694 4124 4138 7070;7071;7072 7071 -0.04849888799344626 FLDGNEMTL 9 Unmodified _FLDGNEMTL_ 0 0 0 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1039.4775390625 1 1039.47647 1038.4692 3.1329 0.0032566 0.83968 0.00087282 3.9726 0.0041294 1039.4767468073633 71.047 0.33154 71.305 71.122 71.453 0.25786 73 31 3 0 0 0 0.09451 3 32529 32481;32529;32584 34.102 14.845 1 1653200 6350 4694 4124 4138 7073;7074;7075 7074 -0.04849888799344626 FLDGNEMTL 9 Unmodified _FLDGNEMTL_ 0 0 0 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1039.480712890625 1 1039.47647 1038.4692 3.0732 0.0031945 0.98451 0.0010234 4.0577 0.0042179 1039.476874164703 70.568 0.37126 71.23 71.004 71.375 0.66209 54 21 3 0 0 0 0.057744 2 32329 32329;32379 43.858 24.601 1 1423800 6351 4694 4124 4138 7076;7077 7076 -0.04849888799344626 FLDGNEMTL 9 Oxidation (M) _FLDGNEM(Oxidation (M))TL_ FLDGNEM(1)TL FLDGNEM(71)TL 0 0 1 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.2410278320312 2 528.239332 1054.46411 3.0354 0.0016034 0.22226 0.00011741 3.2576 0.0017208 528.2395244832759 55.412 0.27 55.677 55.537 55.807 0.26543 30 13 3 0 0 0 0.017868 2 25319 25319;25365 71.134 37.031 1 1656000 6352 4694 4124 4139 7078;7079 7078 65 -0.060941926619761944 FLDGNEMTL 9 Oxidation (M) _FLDGNEM(Oxidation (M))TL_ FLDGNEM(1)TL FLDGNEM(44)TL 0 0 1 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.2410888671875 2 528.239332 1054.46411 3.2099 0.0016956 0.11451 6.0488E-05 3.3244 0.0017561 528.2394861492629 54.704 0.29067 55.37 55.292 55.583 0.6665 35 20 2 0 0 0 0.057744 1 25009 25009 43.858 13.222 1 2415800 6353 4694 4124 4139 7080 7080 65 -0.060941926619761944 FLDGNEMTL 9 Oxidation (M) _FLDGNEM(Oxidation (M))TL_ 0 0 1 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 ENSG00000169504|ENST00000374379|CLIC4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 528.239332 1054.46411 2.7913 0.0014745 1.6371 0.00086478 4.4284 0.0023393 528.2402002908465 54.698 0.30262 55.494 55.372 55.675 0.79552 -0.042696 0.0015027 NaN 71.134 19 17 2 NaN NaN NaN NaN 0 NaN NaN 0 915460 6354 4694 4124 4139 65 -0.060941926619761944 FLDLTEQEF 9 Unmodified _FLDLTEQEF_ 0 0 0 nc|ENSG00000100129|Q9Y262-2|EIF3L;ENSG00000100129|ENST00000652021|EIF3L;ENST00000457262.1_1_10:43062145-43062928:+|nuORF;ENST00000495197.1_1_10:38368986-38369799:-|nuORF nc|ENSG00000100129|Q9Y262-2|EIF3L nc|ENSG00000100129|Q9Y262-2|EIF3L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.3533325195312 2 571.274229 1140.53391 2.9121 0.0016636 0.15816 9.0351E-05 3.0702 0.0017539 571.2742589548953 80.475 0.20529 80.643 80.556 80.761 0.16862 28 16 2 0 0 0 0.7295 1 39412 39412 8.5933 0 1 1453300 6355 1179 4125 4140 7081 7081 -0.030739907217139262 FLDLTEQEF 9 Unmodified _FLDLTEQEF_ 0 0 0 nc|ENSG00000100129|Q9Y262-2|EIF3L;ENSG00000100129|ENST00000652021|EIF3L;ENST00000457262.1_1_10:43062145-43062928:+|nuORF;ENST00000495197.1_1_10:38368986-38369799:-|nuORF nc|ENSG00000100129|Q9Y262-2|EIF3L nc|ENSG00000100129|Q9Y262-2|EIF3L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.2764892578125 2 571.274229 1140.53391 3.2401 0.001851 0.095264 5.4422E-05 3.3353 0.0019054 571.2741179515252 81.021 0.34441 81.269 81.063 81.407 0.24803 47 20 3 0 0 0 0.012748 2 37304 37261;37304 78.149 25.881 1 1366900 6356 1179 4125 4140 7082;7083 7083 -0.030739907217139262 FLDLTEQEF 9 Unmodified _FLDLTEQEF_ 0 0 0 nc|ENSG00000100129|Q9Y262-2|EIF3L;ENSG00000100129|ENST00000652021|EIF3L;ENST00000457262.1_1_10:43062145-43062928:+|nuORF;ENST00000495197.1_1_10:38368986-38369799:-|nuORF nc|ENSG00000100129|Q9Y262-2|EIF3L nc|ENSG00000100129|Q9Y262-2|EIF3L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.2765502929688 2 571.274229 1140.53391 3.7053 0.0021168 -0.57362 -0.0003277 3.1317 0.0017891 571.2735175982564 80.438 0.29398 81.098 80.947 81.241 0.65998 37 17 3 0 0 0 0.012748 3 37040 37040;37101;37117 78.149 25.881 1 1545200 6357 1179 4125 4140 7084;7085;7086 7084 -0.030739907217139262 FLDLVPSL 8 Unmodified _FLDLVPSL_ 0 0 0 ENSG00000179750|ENST00000333467|APOBEC3B;nc|ENSG00000128383|P31941-2|APOBEC3A;ENSG00000128383|ENST00000249116|APOBEC3A ENSG00000179750|ENST00000333467|APOBEC3B ENSG00000179750|ENST00000333467|APOBEC3B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.2646484375 2 452.262936 902.51132 NaN NaN NaN NaN NaN NaN NaN 66.436 1 66.684 66.184 67.184 0.24848 0 0 0 0.95658 1 30436 30436 8.5933 0 1 6358 5228 4126 4141 7087 7087 0.056164546713375785 FLEDHLRFS 9 Unmodified _FLEDHLRFS_ 0 0 0 REV__ABCC5|p.S945F|1|0.16|ENSG00000114770|chr3:183951551-183951551|G/A|missense_variant REV__ABCC5|p.S945F|1|0.16|ENSG00000114770|chr3:183951551-183951551|G/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 388.544921875 3 388.532979 1162.57711 NaN NaN NaN NaN NaN NaN NaN 55.886 1 56.673 56.173 57.173 0.78711 0 0 0 0.66577 1 25531 25531 13.615 2.097 1 + 6359 9919 4127 4142 7088 7088 0.002322438462442733 FLEREVYRVKK 11 Unmodified _FLEREVYRVKK_ 0 0 0 nc|ENSG00000285891|A0A3B3IT52|MSANTD5 nc|ENSG00000285891|A0A3B3IT52|MSANTD5 nc|ENSG00000285891|A0A3B3IT52|MSANTD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 733.9280395507812 2 733.927543 1465.84053 NaN NaN NaN NaN NaN NaN NaN 52.356 1 52.356 51.856 52.856 0 0 0 0 1.0073 1 23974 23974 1.1933 0.88631 1 6360 9876 4128 4143 7089 7089 0.1262465923102809 FLERRENE 8 Unmodified _FLERRENE_ 0 0 0 REV__PNN|p.I691Tfs*7|1|0.09|ENSG00000100941|chr14:39181780-39181781|-/CTCTCAC|frameshift_variant REV__PNN|p.I691Tfs*7|1|0.09|ENSG00000100941|chr14:39181780-39181781|-/CTCTCAC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.775390625 2 546.775262 1091.53597 NaN NaN NaN NaN NaN NaN NaN 85.134 1 85.134 84.634 85.634 0 0 0 0 0.95658 1 43260 43260 8.5933 0 1 + 6361 10857 4129 4144 7090 7090 -0.00613517193255575 FLFCSVDIL 9 Carbamidomethyl (C) _FLFC(Carbamidomethyl (C))SVDIL_ FLFC(1)SVDIL FLFC(44)SVDIL 0 1 0 REV__ENSG00000196187|ENST00000366835|TMEM63A REV__ENSG00000196187|ENST00000366835|TMEM63A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.7957153320312 2 557.286085 1112.55762 3.7201 0.0020732 -0.3719 -0.00020725 3.3482 0.0018659 557.2821972794122 50.936 0.28066 50.936 50.767 51.048 0 25 12 3 0 0 0 0.056465 1 23298 23298 44.407 8.3628 1 1039500 + 6362 14194 4130 4145 7091 7091 111 0.005841515111114859 FLFFCCFL 8 Unmodified _FLFFCCFL_ 0 0 0 ENST00000548116.5_1_1:28271947-28285346:+|nuORF ENST00000548116.5_1_1:28271947-28285346:+|nuORF ENST00000548116.5_1_1:28271947-28285346:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.2432250976562 2 520.242635 1038.47072 2.5878 0.0013463 0.080145 4.1695E-05 2.6679 0.001388 520.2416814184352 71.201 0.3457 71.201 71.116 71.462 0 104 35 4 0 0 0 0.63544 1 34703 34703 11.114 0.29054 1 2986200 6363 8854 4131 4146 7092 7092 -0.04697926244307382 FLFFCCFL 8 Unmodified _FLFFCCFL_ 0 0 0 ENST00000548116.5_1_1:28271947-28285346:+|nuORF ENST00000548116.5_1_1:28271947-28285346:+|nuORF ENST00000548116.5_1_1:28271947-28285346:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.738037109375 2 520.242635 1038.47072 2.8954 0.0015063 1.7482 0.0009095 4.6436 0.0024158 520.2419772916712 70.551 0.7182 71.213 70.987 71.705 0.66209 153 43 6 0 0 0 0.63544 2 32259 32259;32262 11.114 0 1 4368200 6364 8854 4131 4146 7093;7094 7093 -0.04697926244307382 FLFHGIRKN 9 Unmodified _FLFHGIRKN_ 0 0 0 REV__ENSG00000105851|ENST00000496166|PIK3CG REV__ENSG00000105851|ENST00000496166|PIK3CG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.3277587890625 2 566.324725 1130.6349 NaN NaN NaN NaN NaN NaN NaN 86.681 1 86.681 86.181 87.181 0 0 0 0 0.84134 1 44499 44499 7.9102 0 1 + 6365 11058 4132 4147 7095 7095 0.074805505623317 FLFLLPRMP 9 Unmodified _FLFLLPRMP_ 0 0 0 ENST00000507667.1_3_4:141445438-141445687:+|nuORF ENST00000507667.1_3_4:141445438-141445687:+|nuORF ENST00000507667.1_3_4:141445438-141445687:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.3319091796875 2 567.33063 1132.64671 2.214 0.0012561 0.53553 0.00030382 2.7495 0.0015599 567.8322413079641 103.57 0.34239 103.62 103.46 103.81 0.055092 40 24 2 0 0 0 1.2078 1 56128 56128 0.6015 0 1 303260 6366 8524 4133 4148 7096 7096 0.08569031261299642 FLFQLKRLLAH 11 Unmodified _FLFQLKRLLAH_ 0 0 0 REV__nc|ENSG00000149823|Q9UID3-2|VPS51 REV__nc|ENSG00000149823|Q9UID3-2|VPS51 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 693.4225463867188 2 693.424439 1384.83433 NaN NaN NaN NaN NaN NaN NaN 83.3 1 83.345 82.845 83.845 0.045006 0 0 0 1.0034 1 41310 41310 6.2058 0.47393 1 + 6367 12581 4134 4149 7097 7097 0.15730185790243922 FLGMVCWI 8 Unmodified _FLGMVCWI_ 0 0 0 ENST00000366996.1_1_1:211966507-212002450:-|nuORF ENST00000366996.1_1_1:211966507-212002450:-|nuORF ENST00000366996.1_1_1:211966507-212002450:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.761962890625 2 484.74026 967.465966 3.1315 0.001518 -0.26624 -0.00012906 2.8653 0.0013889 484.7402807053843 49.569 0.33484 49.831 49.645 49.98 0.26146 18 13 2 0 0 0 0.13779 1 22710 22710 11.114 11.114 1 177360 6368 7243 4135 4150 7098 7098 -0.019068103870722553 FLHRDLVGP 9 Unmodified _FLHRDLVGP_ 0 0 0 ENST00000478995.1_1_X:100611030-100611776:-|nuORF ENST00000478995.1_1_X:100611030-100611776:-|nuORF ENST00000478995.1_1_X:100611030-100611776:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.2970581054688 2 527.295633 1052.57671 NaN NaN NaN NaN NaN NaN NaN 73.045 1 73.709 73.209 74.209 0.66398 0 0 0 0.86044 1 33550 33550 7.2892 0.56607 1 6369 8257 4136 4151 7099 7099 0.052528689170458165 FLIFFGSK 8 Unmodified _FLIFFGSK_ 0 0 0 REV__ENST00000505125.5_1_4:54245288-54325613:+|nuORF REV__ENST00000505125.5_1_4:54245288-54325613:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 320.186279296875 3 320.18474 957.53239 NaN NaN NaN NaN NaN NaN NaN 30.299 1 30.299 29.799 30.799 0 0 0 0 0.99035 1 13686 13686 1.4819 0 1 + 6370 16917 4137 4152 7100 7100 0.05192464770857441 FLIGLSIYKI 10 Unmodified _FLIGLSIYKI_ 0 0 0 REV__ENST00000508157.3_1_5:70790975-70807035:+|nuORF REV__ENST00000508157.3_1_5:70790975-70807035:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.8949890136719 3 389.577637 1165.71108 3.0505 0.0011884 0.014915 5.8105E-06 3.0654 0.0011942 389.912165123479 40.35 0.40384 40.619 40.487 40.891 0.26904 21 13 3 0 0 0 0.12676 1 18365 18365 5.7834 1.5939 1 834470 + 6371 16948 4138 4153 7101 7101 0.13485509619090408 FLIKRLTSIH 10 Unmodified _FLIKRLTSIH_ 0 0 0 REV__ENSG00000087263|ENST00000566157|OGFOD1 REV__ENSG00000087263|ENST00000566157|OGFOD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.260498046875 2 614.38224 1226.74993 NaN NaN NaN NaN NaN NaN NaN 80.041 1 80.041 79.541 80.541 0 0 0 0 0.99733 1 39636 39636 3.9444 0.3479 1 + 6372 10667 4139 4154 7102 7102 0.14562234973459454 FLIRKRIHL 9 Unmodified _FLIRKRIHL_ 0 0 0 ENSG00000170296|ENST00000302386|GABARAP;ENSG00000139112|ENST00000266458|GABARAPL1;nc|ENSG00000139112|Q9H0R8-2|GABARAPL1 ENSG00000170296|ENST00000302386|GABARAP ENSG00000170296|ENST00000302386|GABARAP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.5230407714844 3 399.264387 1194.77133 2.879 0.0011495 0.38019 0.0001518 3.2592 0.0013013 399.2646684862916 28.608 0.24987 29.228 29.071 29.321 0.61947 19 11 2 0 0 0 0.1026 1 13104 13104 4.5289 0 1 217960 6373 3126 4140 4155 7103 7103 0.1817366479285738 FLIRWKRPEW 10 Unmodified _FLIRWKRPEW_ 0 0 0 ENST00000528563.5_1_19:46807167-46825077:+|nuORF ENST00000528563.5_1_19:46807167-46825077:+|nuORF ENST00000528563.5_1_19:46807167-46825077:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 715.9076538085938 2 715.906414 1429.79827 NaN NaN NaN NaN NaN NaN NaN 95.369 1 95.636 95.136 96.136 0.2675 0 0 0 1.0016 1 43820 43820 0.35063 0.043601 1 6374 8690 4141 4156 7104 7104 0.10056728613380983 FLIYAAPFI 9 Unmodified _FLIYAAPFI_ 0 0 0 REV__nc|ENSG00000146276|P24046-3|GABRR1 REV__nc|ENSG00000146276|P24046-3|GABRR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.8064575195312 2 527.802229 1053.5899 3.0673 0.0016189 -1.323 -0.00069829 1.7443 0.00092066 527.801438703087 54.468 0.28893 54.732 54.509 54.798 0.26462 22 13 2 0 0 0 0.37584 1 24838 24838 14.582 2.0501 1 447390 + 6375 12470 4142 4157 7105 7105 0.06525306976413958 FLKALLCL 8 Unmodified _FLKALLCL_ 0 0 0 REV__nc|ENSG00000156650|Q8WYB5-3|KAT6B;REV__ENST00000444292.2_1_X:95228575-95229244:-|nuORF;REV__ENSG00000083168|ENST00000265713|KAT6A REV__nc|ENSG00000156650|Q8WYB5-3|KAT6B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 460.78485107421875 2 460.785524 919.556496 NaN NaN NaN NaN NaN NaN NaN 104.22 1 104.54 104.04 105.04 0.31863 0 0 0 0.99035 1 48156 48156 0.69038 0 1 + 6376 12779;16369;10624 4143 4158 7106 7106 0.0934998193284855 FLKIFHRHLL 10 Unmodified _FLKIFHRHLL_ 0 0 0 REV__ENST00000253247.8_1_17:65739971-65740130:+|nuORF REV__ENST00000253247.8_1_17:65739971-65740130:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.70758056640625 4 331.706663 1322.79755 2.6641 0.0008837 -0.21809 -7.2342E-05 2.446 0.00081136 331.7065386707902 54.008 0.71559 54.008 53.676 54.391 0 131 52 3 0 0 0 0.93713 1 24756 24756 1.7423 1.334 1 2968000 + 6377 14917 4144 4159 7107 7107 0.149059339643145 FLKIFHRHLL 10 Unmodified _FLKIFHRHLL_ 0 0 0 REV__ENST00000253247.8_1_17:65739971-65740130:+|nuORF REV__ENST00000253247.8_1_17:65739971-65740130:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.7070007324219 4 331.706663 1322.79755 2.2163 0.00073517 -0.087734 -2.9102E-05 2.1286 0.00070607 331.7066301833599 55.43 0.43364 55.43 55.261 55.695 0 83 33 3 0 0 0 0.90196 2 25508 25508;25565 3.5871 2.3722 1 3799200 + 6378 14917 4144 4159 7108;7109 7108 0.149059339643145 FLKIFHRHLL 10 Unmodified _FLKIFHRHLL_ 0 0 0 REV__ENST00000253247.8_1_17:65739971-65740130:+|nuORF REV__ENST00000253247.8_1_17:65739971-65740130:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.7072448730469 4 331.706663 1322.79755 2.0698 0.00068656 -0.015556 -5.16E-06 2.0542 0.0006814 331.70648557901126 53.616 0.52607 54.419 54.333 54.86 0.80351 83 31 4 0 0 0 0.90196 1 24487 24487 1.7423 0.52744 1 4256300 + 6379 14917 4144 4159 7110 7110 0.149059339643145 FLKIFHRHLL 10 Unmodified _FLKIFHRHLL_ 0 0 0 REV__ENST00000253247.8_1_17:65739971-65740130:+|nuORF REV__ENST00000253247.8_1_17:65739971-65740130:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.7076721191406 4 331.706663 1322.79755 2.1522 0.00071389 0.42817 0.00014203 2.5803 0.00085591 331.70671931125315 55.266 0.60477 55.531 55.178 55.783 0.26543 89 34 3 0 0 0 0.90196 3 25318 25219;25267;25318 1.7423 1.334 1 5491100 + 6380 14917 4144 4159 7111;7112;7113 7113 0.149059339643145 FLKIFHRHLL 10 Unmodified _FLKIFHRHLL_ 0 0 0 REV__ENST00000253247.8_1_17:65739971-65740130:+|nuORF REV__ENST00000253247.8_1_17:65739971-65740130:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.70721435546875 4 331.706663 1322.79755 2.0986 0.00069611 0.15201 5.0423E-05 2.2506 0.00074653 331.7066399526051 53.085 0.72956 53.749 53.433 54.163 0.6644 79 33 4 0 0 0 0.93713 1 24300 24300 0.62683 0.21856 1 3955800 + 6381 14917 4144 4159 7114 7114 0.149059339643145 FLKIFHRHLL 10 Unmodified _FLKIFHRHLL_ 0 0 0 REV__ENST00000253247.8_1_17:65739971-65740130:+|nuORF REV__ENST00000253247.8_1_17:65739971-65740130:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.7077331542969 4 331.706663 1322.79755 2.1679 0.0007191 0.1719 5.7019E-05 2.3398 0.00077612 331.7066594340209 54.513 0.49326 55.179 54.808 55.301 0.6665 78 33 3 0 0 0 0.90196 2 24899 24899;24951 1.7423 0.52744 1 4327700 + 6382 14917 4144 4159 7115;7116 7115 0.149059339643145 FLKIFHRHLL 10 Unmodified _FLKIFHRHLL_ 0 0 0 REV__ENST00000253247.8_1_17:65739971-65740130:+|nuORF REV__ENST00000253247.8_1_17:65739971-65740130:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.7075500488281 4 331.706663 1322.79755 2.2895 0.00075945 0.37162 0.00012327 2.6612 0.00088272 331.7066874686364 55.439 0.46024 56.107 55.856 56.316 0.66798 46 18 3 0 0 0 0.93713 1 25372 25372 0.62683 0.17231 1 2767600 + 6383 14917 4144 4159 7117 7117 0.149059339643145 FLKIFHRHLL 10 Unmodified _FLKIFHRHLL_ 0 0 0 REV__ENST00000253247.8_1_17:65739971-65740130:+|nuORF REV__ENST00000253247.8_1_17:65739971-65740130:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.7075500488281 4 331.706663 1322.79755 2.2895 0.00075945 0.37162 0.00012327 2.6612 0.00088272 331.7066874686364 55.439 0.46024 56.107 55.856 56.316 0.66798 46 18 3 0 0 0 0.12676 1 25433 25433 0.69767 0.69767 1 2767600 + 6384 14917 4144 4159 7118 7118 0.149059339643145 FLKKMPKKFE 10 Unmodified _FLKKMPKKFE_ 0 0 0 REV__ENST00000427965.6_1_16:29086353-29124388:+|nuORF REV__ENST00000427965.6_1_16:29086353-29124388:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 648.38671875 2 648.380852 1294.74715 NaN NaN NaN NaN NaN NaN NaN 9.1281 1 9.1281 8.6281 9.6281 0 0 0 0 1.0015 1 4120 4120 0.40072 0.050084 1 + 6385 16233 4145 4160 7119 7119 0.11156643524282117 FLKKMPKKFE 10 Unmodified _FLKKMPKKFE_ 0 0 0 REV__ENST00000427965.6_1_16:29086353-29124388:+|nuORF REV__ENST00000427965.6_1_16:29086353-29124388:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.3846435546875 2 648.380852 1294.74715 NaN NaN NaN NaN NaN NaN NaN 5.146 1 5.5093 5.0093 6.0093 0.3633 0 0 0 1.0015 1 2335 2335 0.40072 0 1 + 6386 16233 4145 4160 7120 7120 0.11156643524282117 FLKLIHLLLRR 11 Unmodified _FLKLIHLLLRR_ 0 0 0 nc|ENSG00000142973|P13584|CYP4B1;ENSG00000142973|ENST00000371923|CYP4B1 nc|ENSG00000142973|P13584|CYP4B1 nc|ENSG00000142973|P13584|CYP4B1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.7393493652344 3 474.653763 1420.93946 NaN NaN NaN NaN NaN NaN NaN 71.905 1 72.163 71.663 72.663 0.25786 0 0 0 1.0072 1 32992 32992 1.3296 0.21989 1 6387 3337 4146 4161 7121 7121 0.24582726986636771 FLKPILHGKI 10 Unmodified _FLKPILHGKI_ 0 0 0 nc|ENSG00000179869|Q86UQ4-6|ABCA13;nc|ENSG00000179869|Q86UQ4-7|ABCA13;nc|ENSG00000179869|Q86UQ4-5|ABCA13;nc|ENSG00000179869|Q86UQ4-3|ABCA13;nc|ENSG00000179869|Q86UQ4|ABCA13;ENSG00000179869|ENST00000435803|ABCA13;nc|ENSG00000179869|Q86UQ4-4|ABCA13;ENST00000484268.1_1_7:48352666-48443694:+|nuORF nc|ENSG00000179869|Q86UQ4-6|ABCA13 nc|ENSG00000179869|Q86UQ4-6|ABCA13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.2549743652344 3 389.253376 1164.7383 2.4408 0.00095011 0.80115 0.00031185 3.242 0.001262 389.58813172385305 47.37 0.48733 47.37 47.108 47.595 0 38 25 2 0 0 0 0.94134 1 21705 21705 0.62683 0 1 1224800 6388 5232 4147 4162 7122 7122 0.16252037950130216 FLKPILHGKI 10 Unmodified _FLKPILHGKI_ 0 0 0 nc|ENSG00000179869|Q86UQ4-6|ABCA13;nc|ENSG00000179869|Q86UQ4-7|ABCA13;nc|ENSG00000179869|Q86UQ4-5|ABCA13;nc|ENSG00000179869|Q86UQ4-3|ABCA13;nc|ENSG00000179869|Q86UQ4|ABCA13;ENSG00000179869|ENST00000435803|ABCA13;nc|ENSG00000179869|Q86UQ4-4|ABCA13;ENST00000484268.1_1_7:48352666-48443694:+|nuORF nc|ENSG00000179869|Q86UQ4-6|ABCA13 nc|ENSG00000179869|Q86UQ4-6|ABCA13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 389.2546691894531 3 389.253376 1164.7383 2.502 0.00097391 1.4717 0.00057285 3.9737 0.0015468 389.2538685982005 45.9 0.3602 46.726 46.704 47.064 0.82621 22 16 2 0 0 0 0.94134 1 20972 20972 0.62683 0 1 356070 6389 5232 4147 4162 7123 7123 0.16252037950130216 FLKPKINSF 9 Unmodified _FLKPKINSF_ 0 0 0 ENSG00000164294|ENST00000503787|GPX8 ENSG00000164294|ENST00000503787|GPX8 ENSG00000164294|ENST00000503787|GPX8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.3265380859375 2 547.32386 1092.63317 3.6052 0.0019732 -0.051655 -2.8272E-05 3.5535 0.0019449 547.323803848827 42.358 0.15101 42.358 42.32 42.471 0 25 15 2 0 0 0 7.3583E-09 3 19285 19285;19322;19335 157.8 96.438 1 2190900 6390 4301 4148 4163 7124;7125;7126 7124 0.0905549675369457 FLKPKINSF 9 Unmodified _FLKPKINSF_ 0 0 0 ENSG00000164294|ENST00000503787|GPX8 ENSG00000164294|ENST00000503787|GPX8 ENSG00000164294|ENST00000503787|GPX8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.3258666992188 2 547.32386 1092.63317 3.7231 0.0020377 0.1253 6.8579E-05 3.8484 0.0021063 547.3239027310951 42.137 0.28344 42.408 42.321 42.605 0.27021 60 26 3 0 0 0 1.4597999999999999E-21 3 19237 19188;19237;19290 187.3 118.19 1 3679600 6391 4301 4148 4163 7127;7128;7129 7128 0.0905549675369457 FLKPKINSF 9 Unmodified _FLKPKINSF_ 0 0 0 ENSG00000164294|ENST00000503787|GPX8 ENSG00000164294|ENST00000503787|GPX8 ENSG00000164294|ENST00000503787|GPX8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.3260498046875 2 547.32386 1092.63317 3.6988 0.0020244 0.21449 0.00011739 3.9133 0.0021418 547.3239000336641 41.382 0.1988 42.026 41.902 42.1 0.64451 29 11 3 0 0 0 7.3583E-09 2 18944 18892;18944 157.8 92.56 1 3471500 6392 4301 4148 4163 7130;7131 7131 0.0905549675369457 FLKQKGIQSL 10 Unmodified _FLKQKGIQSL_ 0 0 0 ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.9056396484375 3 387.904524 1160.69174 3.0963 0.0012011 -0.40251 -0.00015614 2.6938 0.0010449 387.9044875776675 32.655 0.2248 32.909 32.827 33.051 0.25401 17 10 3 0 0 0 0.89607 1 14898 14898 3.8763 0.55669 1 347480 6393 1350 4149 4164 7132 7132 0.11782553328202994 FLKQKGIQSL 10 Unmodified _FLKQKGIQSL_ 0 0 0 ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.9055480957031 3 387.904524 1160.69174 2.7605 0.0010708 -0.2131 -8.2661E-05 2.5474 0.00098815 387.9044908787308 32.068 0.29032 32.686 32.553 32.844 0.61831 29 15 3 0 0 0 0.93372 1 14720 14720 2.086 0.87118 1 256370 6394 1350 4149 4164 7133 7133 0.11782553328202994 FLKQRPTKL 9 Unmodified _FLKQRPTKL_ 0 0 0 OAS1|p.P281Lfs*19|1|0.27|ENSG00000089127|chr12:112916626-112916627|-/TCTTGGAATTAGTCATAAACTACCAGCAACTCTGCATCTACTGGACAAAGTATTATGACTTTAAAAA|frameshift_variant;nc|ENSG00000089127|P00973-4|OAS1;nc|ENSG00000089127|P00973-2|OAS1;OAS1|p.K364Ifs*8|1|0.21|ENSG00000089127|chr12:112919440-112919441|AA/-|frameshift_variant;ENSG00000089127|ENST00000202917|OAS1;nc|ENSG00000089127|P00973-3|OAS1 OAS1|p.P281Lfs*19|1|0.27|ENSG00000089127|chr12:112916626-112916627|-/TCTTGGAATTAGTCATAAACTACCAGCAACTCTGCATCTACTGGACAAAGTATTATGACTTTAAAAA|frameshift_variant OAS1|p.P281Lfs*19|1|0.27|ENSG00000089127|chr12:112916626-112916627|-/TCTTGGAATTAGTCATAAACTACCAGCAACTCTGCATCTACTGGACAAAGTATTATGACTTTAAAAA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 377.5738525390625 3 377.572998 1129.69716 2.8297 0.0010684 -0.40642 -0.00015345 2.4233 0.00091497 377.57291665418944 17.409 0.31234 17.409 17.231 17.543 0 32 20 2 0 0 0 0.11458 2 7710 7710;7755 21.59 7.5736 1 301220 6395 1033 4150 4165 7134;7135 7134 0.13750276910650427 FLKQRPTKL 9 Unmodified _FLKQRPTKL_ 0 0 0 OAS1|p.P281Lfs*19|1|0.27|ENSG00000089127|chr12:112916626-112916627|-/TCTTGGAATTAGTCATAAACTACCAGCAACTCTGCATCTACTGGACAAAGTATTATGACTTTAAAAA|frameshift_variant;nc|ENSG00000089127|P00973-4|OAS1;nc|ENSG00000089127|P00973-2|OAS1;OAS1|p.K364Ifs*8|1|0.21|ENSG00000089127|chr12:112919440-112919441|AA/-|frameshift_variant;ENSG00000089127|ENST00000202917|OAS1;nc|ENSG00000089127|P00973-3|OAS1 OAS1|p.P281Lfs*19|1|0.27|ENSG00000089127|chr12:112916626-112916627|-/TCTTGGAATTAGTCATAAACTACCAGCAACTCTGCATCTACTGGACAAAGTATTATGACTTTAAAAA|frameshift_variant OAS1|p.P281Lfs*19|1|0.27|ENSG00000089127|chr12:112916626-112916627|-/TCTTGGAATTAGTCATAAACTACCAGCAACTCTGCATCTACTGGACAAAGTATTATGACTTTAAAAA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 377.57354736328125 3 377.572998 1129.69716 2.538 0.0009583 -0.66147 -0.00024975 1.8766 0.00070854 377.572740379914 14.33 0.20481 14.637 14.527 14.732 0.3069 29 9 4 0 0 0 0.0043297 2 6460 6460;6511 77.049 25.234 1 12542000 6396 1033 4150 4165 7136;7137 7136 0.13750276910650427 FLKQRPTKL 9 Unmodified _FLKQRPTKL_ 0 0 0 OAS1|p.P281Lfs*19|1|0.27|ENSG00000089127|chr12:112916626-112916627|-/TCTTGGAATTAGTCATAAACTACCAGCAACTCTGCATCTACTGGACAAAGTATTATGACTTTAAAAA|frameshift_variant;nc|ENSG00000089127|P00973-4|OAS1;nc|ENSG00000089127|P00973-2|OAS1;OAS1|p.K364Ifs*8|1|0.21|ENSG00000089127|chr12:112919440-112919441|AA/-|frameshift_variant;ENSG00000089127|ENST00000202917|OAS1;nc|ENSG00000089127|P00973-3|OAS1 OAS1|p.P281Lfs*19|1|0.27|ENSG00000089127|chr12:112916626-112916627|-/TCTTGGAATTAGTCATAAACTACCAGCAACTCTGCATCTACTGGACAAAGTATTATGACTTTAAAAA|frameshift_variant OAS1|p.P281Lfs*19|1|0.27|ENSG00000089127|chr12:112916626-112916627|-/TCTTGGAATTAGTCATAAACTACCAGCAACTCTGCATCTACTGGACAAAGTATTATGACTTTAAAAA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.5740051269531 3 377.572998 1129.69716 2.7875 0.0010525 -0.07407 -2.7967E-05 2.7135 0.0010245 377.57291532142034 14.356 0.21416 15.005 14.89 15.104 0.64819 51 20 3 0 0 0 0.004576 2 6472 6427;6472 75.571 20.336 1 11482000 6397 1033 4150 4165 7138;7139 7139 0.13750276910650427 FLKQRPTKL 9 Unmodified _FLKQRPTKL_ 0 0 0 OAS1|p.P281Lfs*19|1|0.27|ENSG00000089127|chr12:112916626-112916627|-/TCTTGGAATTAGTCATAAACTACCAGCAACTCTGCATCTACTGGACAAAGTATTATGACTTTAAAAA|frameshift_variant;nc|ENSG00000089127|P00973-4|OAS1;nc|ENSG00000089127|P00973-2|OAS1;OAS1|p.K364Ifs*8|1|0.21|ENSG00000089127|chr12:112919440-112919441|AA/-|frameshift_variant;ENSG00000089127|ENST00000202917|OAS1;nc|ENSG00000089127|P00973-3|OAS1 OAS1|p.P281Lfs*19|1|0.27|ENSG00000089127|chr12:112916626-112916627|-/TCTTGGAATTAGTCATAAACTACCAGCAACTCTGCATCTACTGGACAAAGTATTATGACTTTAAAAA|frameshift_variant OAS1|p.P281Lfs*19|1|0.27|ENSG00000089127|chr12:112916626-112916627|-/TCTTGGAATTAGTCATAAACTACCAGCAACTCTGCATCTACTGGACAAAGTATTATGACTTTAAAAA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 565.8585815429688 2 565.855858 1129.69716 3.6606 0.0020714 0.07977 4.5138E-05 3.7404 0.0021165 565.8558372465168 14.36 0.11082 15.008 14.944 15.055 0.64819 15 10 2 0 0 0 0.020338 1 6456 6456 67.838 20.089 1 1362800 6398 1033 4150 4165 7140 7140 0.13750276910650427 FLKQRPTKL 9 Unmodified _FLKQRPTKL_ 0 0 0 OAS1|p.P281Lfs*19|1|0.27|ENSG00000089127|chr12:112916626-112916627|-/TCTTGGAATTAGTCATAAACTACCAGCAACTCTGCATCTACTGGACAAAGTATTATGACTTTAAAAA|frameshift_variant;nc|ENSG00000089127|P00973-4|OAS1;nc|ENSG00000089127|P00973-2|OAS1;OAS1|p.K364Ifs*8|1|0.21|ENSG00000089127|chr12:112919440-112919441|AA/-|frameshift_variant;ENSG00000089127|ENST00000202917|OAS1;nc|ENSG00000089127|P00973-3|OAS1 OAS1|p.P281Lfs*19|1|0.27|ENSG00000089127|chr12:112916626-112916627|-/TCTTGGAATTAGTCATAAACTACCAGCAACTCTGCATCTACTGGACAAAGTATTATGACTTTAAAAA|frameshift_variant OAS1|p.P281Lfs*19|1|0.27|ENSG00000089127|chr12:112916626-112916627|-/TCTTGGAATTAGTCATAAACTACCAGCAACTCTGCATCTACTGGACAAAGTATTATGACTTTAAAAA|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 565.855858 1129.69716 3.3422 0.0018912 0.19944 0.00011285 3.5416 0.002004 565.855950493953 14.33 0.089371 14.637 14.593 14.683 0.3069 -0.18556 4.7272E-05 NaN 67.838 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 542680 6399 1033 4150 4165 0.13750276910650427 FLKRKEEEL 9 Unmodified _FLKRKEEEL_ 0 0 0 ENST00000536336.5_1_11:18633859-18655855:-|nuORF;nc|ENSG00000179119|Q68D10-2|SPTY2D1;ENSG00000179119|ENST00000336349|SPTY2D1;nc|ENSG00000179119|Q68D10-3|SPTY2D1 ENST00000536336.5_1_11:18633859-18655855:-|nuORF ENST00000536336.5_1_11:18633859-18655855:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 397.8970031738281 3 397.895917 1190.66592 2.6107 0.0010388 0.22556 8.9747E-05 2.8363 0.0011285 397.89599925769073 14.426 0.22697 14.426 14.314 14.541 0 48 14 4 0 0 0 0.057456 2 6375 6333;6375 43.982 3.7426 1 2056800 6400 5200 4151 4166 7141;7142 7142 0.07821659085902866 FLKRKEEEL 9 Unmodified _FLKRKEEEL_ 0 0 0 ENST00000536336.5_1_11:18633859-18655855:-|nuORF;nc|ENSG00000179119|Q68D10-2|SPTY2D1;ENSG00000179119|ENST00000336349|SPTY2D1;nc|ENSG00000179119|Q68D10-3|SPTY2D1 ENST00000536336.5_1_11:18633859-18655855:-|nuORF ENST00000536336.5_1_11:18633859-18655855:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.3427124023438 2 596.340238 1190.66592 NaN NaN NaN NaN NaN NaN NaN 14.417 1 14.417 13.917 14.917 0 0 0 0 0.48078 1 6350 6350 15.248 0 1 6401 5200 4151 4166 7143 7143 0.07821659085902866 FLKRKEEEL 9 Unmodified _FLKRKEEEL_ 0 0 0 ENST00000536336.5_1_11:18633859-18655855:-|nuORF;nc|ENSG00000179119|Q68D10-2|SPTY2D1;ENSG00000179119|ENST00000336349|SPTY2D1;nc|ENSG00000179119|Q68D10-3|SPTY2D1 ENST00000536336.5_1_11:18633859-18655855:-|nuORF ENST00000536336.5_1_11:18633859-18655855:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 397.89666748046875 3 397.895917 1190.66592 2.4925 0.00099175 -0.58647 -0.00023335 1.906 0.00075839 397.89563292032005 13.863 0.14644 14.107 14.04 14.186 0.24346 35 19 2 0 0 0 0.43294 1 6111 6111 13.615 0.74226 1 3024300 6402 5200 4151 4166 7144 7144 0.07821659085902866 FLKRKEEEL 9 Unmodified _FLKRKEEEL_ 0 0 0 ENST00000536336.5_1_11:18633859-18655855:-|nuORF;nc|ENSG00000179119|Q68D10-2|SPTY2D1;ENSG00000179119|ENST00000336349|SPTY2D1;nc|ENSG00000179119|Q68D10-3|SPTY2D1 ENST00000536336.5_1_11:18633859-18655855:-|nuORF ENST00000536336.5_1_11:18633859-18655855:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.89666748046875 3 397.895917 1190.66592 2.7397 0.0010901 -0.99822 -0.00039719 1.7415 0.00069292 397.89546079888623 14.077 0.073429 14.384 14.337 14.411 0.3069 18 8 3 0 0 0 0.048715 1 6361 6361 47.732 12.12 1 21872000 6403 5200 4151 4166 7145 7145 0.07821659085902866 FLKRKEEEL 9 Unmodified _FLKRKEEEL_ 0 0 0 ENST00000536336.5_1_11:18633859-18655855:-|nuORF;nc|ENSG00000179119|Q68D10-2|SPTY2D1;ENSG00000179119|ENST00000336349|SPTY2D1;nc|ENSG00000179119|Q68D10-3|SPTY2D1 ENST00000536336.5_1_11:18633859-18655855:-|nuORF ENST00000536336.5_1_11:18633859-18655855:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 596.3434448242188 2 596.340238 1190.66592 4.1329 0.0024646 0.18724 0.00011166 4.3202 0.0025763 596.340324651356 13.419 0.2874 14.062 13.958 14.246 0.64272 49 20 4 0 0 0 0.27088 1 6006 6006 19.362 2.4196 1 608540 6404 5200 4151 4166 7146 7146 0.07821659085902866 FLKRKEEEL 9 Unmodified _FLKRKEEEL_ 0 0 0 ENST00000536336.5_1_11:18633859-18655855:-|nuORF;nc|ENSG00000179119|Q68D10-2|SPTY2D1;ENSG00000179119|ENST00000336349|SPTY2D1;nc|ENSG00000179119|Q68D10-3|SPTY2D1 ENST00000536336.5_1_11:18633859-18655855:-|nuORF ENST00000536336.5_1_11:18633859-18655855:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.8973693847656 3 397.895917 1190.66592 3.0141 0.0011993 0.21895 8.712E-05 3.233 0.0012864 397.8960007220236 13.424 0.3895 14.067 13.93 14.32 0.64272 94 28 5 0 0 0 0.068032 2 6035 6035;6090 40.725 5.6452 1 3422300 6405 5200 4151 4166 7147;7148 7147 0.07821659085902866 FLKRKSVRKRI 11 Unmodified _FLKRKSVRKRI_ 0 0 0 ENST00000357337.10_1_13:77671591-77671720:-|nuORF ENST00000357337.10_1_13:77671591-77671720:-|nuORF ENST00000357337.10_1_13:77671591-77671720:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 715.9762573242188 2 715.975162 1429.93577 NaN NaN NaN NaN NaN NaN NaN 91.308 1 91.384 90.884 91.884 0.075279 0 0 0 1.008 1 47285 47285 0.35063 0 1 6406 7175 4152 4167 7149 7149 0.23800057212770298 FLKRNKHGPFL 11 Unmodified _FLKRNKHGPFL_ 0 0 0 ENSG00000157399|ENST00000381134|ARSL ENSG00000157399|ENST00000381134|ARSL ENSG00000157399|ENST00000381134|ARSL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 679.094482421875 2 678.898589 1355.78262 NaN NaN NaN NaN NaN NaN NaN 81.068 1 81.316 80.816 81.816 0.24803 0 0 0 1.0034 1 37326 37326 6.2058 0.47393 1 6407 3949 4153 4168 7150 7150 0.11896442096303872 FLKRRLEQL 9 Unmodified _FLKRRLEQL_ 0 0 0 ENSG00000123933|ENST00000337190|MXD4;ENST00000513372.5_1_4:2252273-2254467:-|nuORF ENSG00000123933|ENST00000337190|MXD4 ENSG00000123933|ENST00000337190|MXD4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 401.5845031738281 3 401.583785 1201.72953 3.1025 0.0012459 -0.41217 -0.00016552 2.6903 0.0010804 401.58356028576713 25.562 0.21834 25.83 25.662 25.88 0.26777 35 23 2 0 0 0 0.15661 1 11561 11561 26.268 9.1552 1 544970 6408 2327 4154 4169 7151 7151 0.1367306431363886 FLKRRWRKRKE 11 Unmodified _FLKRRWRKRKE_ 0 0 0 nc|ENSG00000171804|Q6ZQQ6|WDR87;nc|ENSG00000171804|Q6ZQQ6-2|WDR87;ENSG00000171804|ENST00000447313|WDR87 nc|ENSG00000171804|Q6ZQQ6|WDR87 nc|ENSG00000171804|Q6ZQQ6|WDR87 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 801.9973754882812 2 801.994417 1601.97428 NaN NaN NaN NaN NaN NaN NaN 17.822 1 18.483 17.983 18.983 0.66072 0 0 0 1.0082 1 8051 8051 0 0 1 6409 4834 4155 4170 7152 7152 0.19737362847240547 FLKSKQSFTKR 11 Unmodified _FLKSKQSFTKR_ 0 0 0 REV__ENSG00000227124|ENST00000652011|ZNF717 REV__ENSG00000227124|ENST00000652011|ZNF717 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.3886108398438 2 685.401161 1368.78777 NaN NaN NaN NaN NaN NaN NaN 93.532 1 93.532 93.032 94.032 0 0 0 0 1.0063 1 49951 49951 2.4985 0 1 + 6410 14563 4156 4171 7153 7153 0.11812701168241801 FLKSLRKP 8 Unmodified _FLKSLRKP_ 0 0 0 ENSG00000186951|ENST00000407236|PPARA;ENSG00000132170|ENST00000651735|PPARG;nc|ENSG00000132170|P37231-2|PPARG;nc|ENSG00000132170|P37231|PPARG ENSG00000186951|ENST00000407236|PPARA ENSG00000186951|ENST00000407236|PPARA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.21588134765625 3 330.214922 987.622936 2.5025 0.00082637 0.14382 4.7492E-05 2.6464 0.00087387 330.21496349223867 25.332 0.44969 25.599 25.331 25.781 0.26777 114 49 3 0 0 0 0.49519 1 11535 11535 21.537 2.28 1 3115700 6411 2684 4157 4172 7154 7154 0.12862933819133104 FLKTRQKSARG 11 Unmodified _FLKTRQKSARG_ 0 0 0 REV__ENST00000485400.1_1_10:99219355-99219481:-|nuORF REV__ENST00000485400.1_1_10:99219355-99219481:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 646.0918579101562 2 646.383303 1290.75205 NaN NaN NaN NaN NaN NaN NaN 84.151 1 84.151 83.651 84.651 0 0 0 0 1.0044 1 42541 42541 4.897 1.3005 1 + 6412 16743 4158 4173 7155 7155 0.11830663711248235 FLLAFVQA 8 Unmodified _FLLAFVQA_ 0 0 0 REV__ENSG00000184575|ENST00000332707|XPOT REV__ENSG00000184575|ENST00000332707|XPOT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.7661437988281 2 454.765646 907.516739 NaN NaN NaN NaN NaN NaN NaN 25.35 1 25.618 25.118 26.118 0.26777 0 0 0 0.99035 1 11503 11503 5.7604 0.52976 1 + 6413 13981 4159 4174 7156 7156 0.05928178253805072 FLLGLTWGFAF 11 Unmodified _FLLGLTWGFAF_ 0 0 0 nc|ENSG00000156920|Q8IZF6-2|ADGRG4;nc|ENSG00000156920|Q8IZF6-3|ADGRG4;ENSG00000156920|ENST00000394143|ADGRG4 nc|ENSG00000156920|Q8IZF6-2|ADGRG4 nc|ENSG00000156920|Q8IZF6-2|ADGRG4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 636.3480224609375 2 636.344792 1270.67503 NaN NaN NaN NaN NaN NaN NaN 69.031 1 69.69 69.19 70.19 0.65924 0 0 0 1.0034 1 31644 31644 6.2058 0 1 6414 3930 4160 4175 7157 7157 0.05052052442238164 FLLIALLRSP 10 Unmodified _FLLIALLRSP_ 0 0 0 REV__ENST00000510359.1_1_5:106716958-106724204:-|nuORF REV__ENST00000510359.1_1_5:106716958-106724204:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.5821533203125 3 381.581382 1141.72232 2.1809 0.00083219 1.2663 0.00048319 3.4472 0.0013154 381.9162197260227 78.369 0.19255 78.369 78.26 78.453 0 37 17 3 0 0 0 0.93584 1 38495 38495 1.7423 0 1 3325200 + 6415 13969 4161 4176 7158 7158 0.15712331713234562 FLLIALLRSP 10 Unmodified _FLLIALLRSP_ 0 0 0 REV__ENST00000510359.1_1_5:106716958-106724204:-|nuORF REV__ENST00000510359.1_1_5:106716958-106724204:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.5814208984375 3 381.581382 1141.72232 1.8879 0.00072037 0.80101 0.00030565 2.6889 0.001026 381.5815838590946 77.878 0.40525 78.439 78.238 78.643 0.56091 72 35 3 0 0 0 0.93584 1 37752 37752 1.7423 0 1 2244000 + 6416 13969 4161 4176 7159 7159 0.15712331713234562 FLLISAIIKI 10 Unmodified _FLLISAIIKI_ 0 0 0 REV__ENST00000280871.8_1_12:40151546-40151714:-|nuORF REV__ENST00000280871.8_1_12:40151546-40151714:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 565.880126953125 2 565.88101 1129.74747 NaN NaN NaN NaN NaN NaN NaN 94.886 1 94.968 94.468 95.468 0.082001 0 0 0 0.99733 1 50028 50028 3.9444 1.6417 1 + 6417 15087 4162 4177 7160 7160 0.18778386515782586 FLLKLLLLFL 10 Unmodified _FLLKLLLLFL_ 0 0 0 REV__ENST00000526343.5_1_11:102100776-102101010:+|nuORF REV__ENST00000526343.5_1_11:102100776-102101010:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 616.923828125 2 616.922678 1231.8308 NaN NaN NaN NaN NaN NaN NaN 91.632 1 92.294 91.794 92.794 0.66198 0 0 0 1.002 1 42167 42167 0 0 1 + 6418 17089 4163 4178 7161 7161 0.2241612296365929 FLLLALELRPR 11 Unmodified _FLLLALELRPR_ 0 0 0 ENSG00000135414|ENST00000257868|GDF11 ENSG00000135414|ENST00000257868|GDF11 ENSG00000135414|ENST00000257868|GDF11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 670.92626953125 2 670.924272 1339.83399 NaN NaN NaN NaN NaN NaN NaN 79.12 1 79.12 78.62 79.62 0 0 0 0 1.0038 1 39038 39038 5.7319 2.7366 1 6419 2872 4164 4179 7162 7162 0.1776676607034915 FLLRQSDVTL 10 Unmodified _FLLRQSDVTL_ 0 0 0 REV__ENST00000466787.1_1_21:40763088-40763391:+|nuORF REV__ENST00000466787.1_1_21:40763088-40763391:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.8970642089844 3 397.895917 1190.66592 3.0141 0.0011993 0.21895 8.712E-05 3.233 0.0012864 397.8960007220236 13.424 0.3895 14.067 13.93 14.32 0.64272 94 28 5 0 0 0 0.3084 1 5985 5985 28.234 0 1 3422300 + 6420 16548 4165 4180 7163 7163 0.07821659085902866 FLLRRILEM 9 Unmodified _FLLRRILEM_ 0 0 0 ENST00000524965.5_1_8:145540848-145542370:-|nuORF;ENSG00000185000|ENST00000528718|DGAT1 ENST00000524965.5_1_8:145540848-145542370:-|nuORF ENST00000524965.5_1_8:145540848-145542370:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 595.6907348632812 2 595.857544 1189.70053 NaN NaN NaN NaN NaN NaN NaN 11.417 1 11.417 10.917 11.917 0 0 0 0 0.91238 1 4984 4984 0.52476 0.066424 1 6421 5477 4166 4181 7164 7164 0.11327203692985677 FLLSSKRKPC 10 Unmodified _FLLSSKRKPC_ 0 0 0 REV__ENSG00000134744|ENST00000257177|TUT4 REV__ENSG00000134744|ENST00000257177|TUT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.5635986328125 3 393.561993 1177.66415 2.8381 0.001117 0.49903 0.0001964 3.3372 0.0013134 393.89648351869704 51.853 0.097336 52.116 52.048 52.145 0.26227 14 9 2 0 0 0 0.51934 1 23702 23702 13.519 0 1 1138100 + 6422 11978 4167 4182 7165 7165 0.08242326796312227 FLLVLLLRNL 10 Unmodified _FLLVLLLRNL_ 0 0 0 ENST00000209875.8_1_12:54633972-54634116:-|nuORF ENST00000209875.8_1_12:54633972-54634116:-|nuORF ENST00000209875.8_1_12:54633972-54634116:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.2742614746094 3 405.272548 1212.79581 NaN NaN NaN NaN NaN NaN NaN 36.818 1 37.612 37.112 38.112 0.79342 0 0 0 1.0001 1 16685 16685 0.69767 0 1 6423 6393 4168 4183 7166 7166 0.19792880155728199 FLLWRSRFRKN 11 Unmodified _FLLWRSRFRKN_ 0 0 0 ENST00000447799.5_1_12:104165049-104171017:-|nuORF ENST00000447799.5_1_12:104165049-104171017:-|nuORF ENST00000447799.5_1_12:104165049-104171017:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 761.9426879882812 2 761.941319 1521.86809 NaN NaN NaN NaN NaN NaN NaN 96.319 1 96.596 96.096 97.096 0.27778 0 0 0 1.008 1 44255 44255 0.35063 0 1 6424 7989 4169 4184 7167 7167 0.12802607281969358 FLMILDLKLRS 11 Unmodified _FLMILDLKLRS_ 0 0 0 ENST00000539098.5_1_12:133618053-133624816:+|nuORF;ENST00000543124.1_1_12:133624462-133624816:+|nuORF ENST00000539098.5_1_12:133618053-133624816:+|nuORF ENST00000539098.5_1_12:133618053-133624816:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 674.9054565429688 2 674.904691 1347.79483 NaN NaN NaN NaN NaN NaN NaN 89.355 1 89.607 89.107 90.107 0.25118 0 0 0 1.0073 1 41098 41098 1.1933 0 1 6425 8789 4170 4185 7168 7168 0.13484297724471617 FLMQWYFHRRL 11 Unmodified _FLMQWYFHRRL_ 0 0 0 REV__ENSG00000260903|ENST00000562532|XKR7 REV__ENSG00000260903|ENST00000562532|XKR7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 798.917236328125 2 798.916455 1595.81836 NaN NaN NaN NaN NaN NaN NaN 93.506 1 93.592 93.092 94.092 0.086212 0 0 0 1.008 1 48999 48999 0.35063 0 1 + 6426 14689 4171 4186 7169 7169 0.04428156281642259 FLMRKKMA 8 Unmodified _FLMRKKMA_ 0 0 0 nc|ENSG00000168502|Q9Y4B5-2|MTCL1;nc|ENSG00000168502|Q9Y4B5-3|MTCL1;nc|ENSG00000168502|Q9Y4B5|MTCL1;ENSG00000168502|ENST00000695636|MTCL1;ENSG00000168502.17,MTCL1,chr18,+,I9.1,8784844,8785689|115|9.46|4|intron;ENSG00000168502.17,MTCL1,chr18,+,I9.1,8784844,8785689|115|9.46|3|intron;ENSG00000168502.17,MTCL1,chr18,+,I9.1,8784844,8785689|115|9.46|2|intron;ENSG00000168502.17,MTCL1,chr18,+,I9.1,8784844,8785689|115|9.46|7|intron;ENSG00000168502.17,MTCL1,chr18,+,I9.1,8784844,8785689|115|9.46|1|intron;ENSG00000168502.17,MTCL1,chr18,+,I9.1,8784844,8785689|115|9.46|6|intron;ENSG00000168502.17,MTCL1,chr18,+,I9.1,8784844,8785689|115|9.46|5|intron;ENSG00000168502.17,MTCL1,chr18,+,I9.1,8784844,8785689|115|9.46|8|intron nc|ENSG00000168502|Q9Y4B5-2|MTCL1 nc|ENSG00000168502|Q9Y4B5-2|MTCL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 342.1995849609375 3 342.197997 1023.57216 1.8492 0.0006328 0.12397 4.2423E-05 1.9732 0.00067522 342.19854868565005 12.897 0.15323 13.204 13.125 13.279 0.30727 10 4 3 0 0 0 0.70799 1 5840 5840 3.5965 1.098 1 225050 6427 4629 4172 4187 7170 7170 0.06131945178265141 FLMWFLGL 8 Unmodified _FLMWFLGL_ 0 0 0 REV__ENSG00000165548|ENST00000298351|TMEM63C REV__ENSG00000165548|ENST00000298351|TMEM63C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.779296875 2 513.777699 1025.54085 NaN NaN NaN NaN NaN NaN NaN 68.121 1 68.78 68.28 69.28 0.65924 0 0 0 0.91812 1 31226 31226 11.114 2.5212 1 + 6428 13165 4173 4188 7171 7171 0.029096954158148947 FLNNLYLI 8 Unmodified _FLNNLYLI_ 0 0 0 ENST00000515407.1_1_5:102890375-102890540:-|nuORF ENST00000515407.1_1_5:102890375-102890540:-|nuORF ENST00000515407.1_1_5:102890375-102890540:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.2928161621094 2 505.289485 1008.56442 NaN NaN NaN NaN NaN NaN NaN 93.938 1 93.938 93.438 94.438 0 0 0 0 0.93233 1 50256 50256 10.183 0 1 6429 8596 4174 4189 7172 7172 0.060478324539985806 FLNRRRRRER 10 Unmodified _FLNRRRRRER_ 0 0 0 ENSG00000150637|ENST00000582621|CD226 ENSG00000150637|ENST00000582621|CD226 ENSG00000150637|ENST00000582621|CD226 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.9598693847656 3 486.95902 1457.85523 3.9506 0.0019238 -0.13784 -6.712E-05 3.8128 0.0018567 486.9588778437635 98.308 0.15309 98.608 98.504 98.657 0.29987 20 14 2 0 0 0 0.94374 1 45254 45254 0.13989 0.04505 1 1613000 6430 3672 4175 4190 7173 7173 0.1446158894243581 FLNRRRRRER 10 Unmodified _FLNRRRRRER_ 0 0 0 ENSG00000150637|ENST00000582621|CD226 ENSG00000150637|ENST00000582621|CD226 ENSG00000150637|ENST00000582621|CD226 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.961181640625 3 486.95902 1457.85523 NaN NaN NaN NaN NaN NaN NaN 96.429 1 96.707 96.207 97.207 0.27778 0 0 0 1.0019 1 44305 44305 0.13989 0.04505 1 6431 3672 4175 4190 7174 7174 0.1446158894243581 FLNRRRRRER 10 Unmodified _FLNRRRRRER_ 0 0 0 ENSG00000150637|ENST00000582621|CD226 ENSG00000150637|ENST00000582621|CD226 ENSG00000150637|ENST00000582621|CD226 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 486.95902 1457.85523 3.9506 0.0019238 -0.13784 -6.712E-05 3.8128 0.0018567 486.9588778437635 98.308 0.15309 98.608 98.504 98.657 0.29987 0.048557 0.00035519 NaN 0.13989 20 14 2 NaN NaN NaN NaN 0 NaN NaN 0 1613000 6432 3672 4175 4190 0.1446158894243581 FLNRRRRRER 10 Unmodified _FLNRRRRRER_ 0 0 0 ENSG00000150637|ENST00000582621|CD226 ENSG00000150637|ENST00000582621|CD226 ENSG00000150637|ENST00000582621|CD226 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 486.95902 1457.85523 3.4114 0.0016612 -1.0764 -0.00052414 2.335 0.001137 487.2931822498373 97.912 0.12996 98.511 98.421 98.551 0.59885 -0.048557 -0.0010159 NaN 0.13989 16 11 2 NaN NaN NaN NaN 0 NaN NaN 0 1148900 6433 3672 4175 4190 0.1446158894243581 FLPALWGPRLR 11 Unmodified _FLPALWGPRLR_ 0 0 0 REV__ENSG00000176020|ENST00000320431|AMIGO3 REV__ENSG00000176020|ENST00000320431|AMIGO3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 332.2024230957031 4 332.201479 1324.77681 2.3721 0.00078802 0.32259 0.00010716 2.6947 0.00089519 332.201514358242 45.554 1.4753 45.821 45.507 46.982 0.26768 164 58 4 0 0 0 0.88721 1 20855 20855 1.2148 1.2148 1 7435100 + 6434 13687 4176 4191 7175 7175 0.12741343584639253 FLPALWGPRLR 11 Unmodified _FLPALWGPRLR_ 0 0 0 REV__ENSG00000176020|ENST00000320431|AMIGO3 REV__ENSG00000176020|ENST00000320431|AMIGO3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.2021179199219 4 332.201479 1324.77681 2.4927 0.00082808 0.51947 0.00017257 3.0122 0.0010007 332.201510829835 44.974 1.5724 45.624 45.197 46.769 0.64998 185 59 5 0 0 0 0.91068 3 20771 20771;20875;21063 0.45452 0.45452 1 4843100 + 6435 13687 4176 4191 7176;7177;7178 7176 0.12741343584639253 FLPIWHIEKRI 11 Unmodified _FLPIWHIEKRI_ 0 0 0 REV__nc|ENSG00000214900|Q8WXQ3|LINC01599 REV__nc|ENSG00000214900|Q8WXQ3|LINC01599 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.6219482421875 3 484.62224 1450.84489 NaN NaN NaN NaN NaN NaN NaN 29.227 1 30.016 29.516 30.516 0.78921 0 0 0 1.0082 1 13172 13172 0.094841 0 1 + 6436 18132 4177 4192 7179 7179 0.13750168444630617 FLPKYTRQMD 10 Unmodified _FLPKYTRQMD_ 0 0 0 ENST00000550211.1_1_12:51855003-51860258:+|nuORF ENST00000550211.1_1_12:51855003-51860258:+|nuORF ENST00000550211.1_1_12:51855003-51860258:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 649.831787109375 2 649.831723 1297.64889 NaN NaN NaN NaN NaN NaN NaN 47.112 1 47.112 46.612 47.612 0 0 0 0 0.99812 1 21566 21566 3.2813 0 1 6437 8866 4178 4193 7180 7180 0.01197415208412167 FLPLGRLAEGR 11 Unmodified _FLPLGRLAEGR_ 0 0 0 REV__ENST00000474114.5_1_21:45744937-45745285:+|nuORF REV__ENST00000474114.5_1_21:45744937-45745285:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 410.2447814941406 3 410.24354 1227.70879 NaN NaN NaN NaN NaN NaN NaN 61.816 1 62.476 61.976 62.976 0.66008 0 0 0 1.0043 1 28317 28317 5.0475 0.3316 1 + 6438 16630 4179 4194 7181 7181 0.1040447393395425 FLPPPLLLLL 10 Unmodified _FLPPPLLLLL_ 0 0 0 REV__ENSG00000274209|ENST00000620264|ANTXRL REV__ENSG00000274209|ENST00000620264|ANTXRL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.3795166015625 2 568.378103 1134.74165 NaN NaN NaN NaN NaN NaN NaN 87.827 1 87.867 87.367 88.367 0.039955 0 0 0 0.99983 1 44571 44571 1.8442 0 1 + 6439 14727 4180 4195 7182 7182 0.17967288004160764 FLQRKLASL 9 Unmodified _FLQRKLASL_ 0 0 0 ENSG00000104142|ENST00000220509|VPS18 ENSG00000104142|ENST00000220509|VPS18 ENSG00000104142|ENST00000220509|VPS18 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.4839172363281 3 359.225598 1074.65496 2.7262 0.00097933 0.5151 0.00018504 3.2413 0.0011644 359.225851833055 37.156 0.35117 37.417 37.22 37.572 0.26083 19 10 3 0 0 0 0.11009 1 16920 16920 2.7352 0 1 467010 6440 1428 4181 4196 7183 7183 0.12062301502260198 FLQRKLASL 9 Unmodified _FLQRKLASL_ 0 0 0 ENSG00000104142|ENST00000220509|VPS18 ENSG00000104142|ENST00000220509|VPS18 ENSG00000104142|ENST00000220509|VPS18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.3365478515625 2 538.334759 1074.65496 3.4076 0.0018344 0.79948 0.00043039 4.2071 0.0022648 538.3350026934581 36.441 0.28048 37.071 36.95 37.23 0.62999 14 9 2 0 0 0 0.19064 1 16705 16705 24.021 3.5669 1 187590 6441 1428 4181 4196 7184 7184 0.12062301502260198 FLQRKLASL 9 Unmodified _FLQRKLASL_ 0 0 0 ENSG00000104142|ENST00000220509|VPS18 ENSG00000104142|ENST00000220509|VPS18 ENSG00000104142|ENST00000220509|VPS18 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 538.334759 1074.65496 3.2207 0.0017338 0.86424 0.00046525 4.0849 0.0021991 538.3350957786905 37.139 0.22517 37.4 37.284 37.51 0.26083 0.16436 3.6598E-05 NaN 24.021 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 239550 6442 1428 4181 4196 0.12062301502260198 FLQSIPLII 9 Unmodified _FLQSIPLII_ 0 0 0 REV__HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|257|3|anti-sense REV__HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|257|3|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.3297729492188 2 522.328611 1042.64267 NaN NaN NaN NaN NaN NaN NaN 97.29 1 97.579 97.079 98.079 0.28923 0 0 0 0.10783 1 44687 44687 52.268 4.5197 1 + 6443 17738 4182 4197 7185 7185 0.12305265039231017 FLRDKSGEI 9 Unmodified _FLRDKSGEI_ 0 0 0 ENSG00000215262|ENST00000399881|KCNU1 ENSG00000215262|ENST00000399881|KCNU1 ENSG00000215262|ENST00000399881|KCNU1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.2939453125 2 532.790381 1063.56621 3.06 0.0016303 -0.6847 -0.0003648 2.3753 0.0012655 532.7900758277434 45.656 0.49732 46.482 46.133 46.631 0.82621 47 25 3 0 0 0 0.68285 1 20722 20722 9.3831 1.473 1 2560700 6444 6131 4183 4198 7186 7186 0.036968414719467546 FLRLLKWIDDV 11 Unmodified _FLRLLKWIDDV_ 0 0 0 REV__ENSG00000172986|ENST00000389617|GXYLT2 REV__ENSG00000172986|ENST00000389617|GXYLT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 709.4168701171875 2 709.413737 1416.81292 NaN NaN NaN NaN NaN NaN NaN 51.737 1 51.999 51.499 52.499 0.26227 0 0 0 1.0041 1 23645 23645 5.2969 0.76802 1 + 6445 13578 4184 4199 7187 7187 0.12118755970823258 FLRLWIAVL 9 Unmodified _FLRLWIAVL_ 0 0 0 ENSG00000092068|ENST00000316902|SLC7A8 ENSG00000092068|ENST00000316902|SLC7A8 ENSG00000092068|ENST00000316902|SLC7A8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 565.8579711914062 2 565.85787 1129.70119 NaN NaN NaN NaN NaN NaN NaN 14.384 1 14.691 14.191 15.191 0.3069 0 0 0 0.81563 1 6509 6509 2.0598 0 1 6446 1090 4185 4200 7188 7188 0.14152366404368877 FLRPPSLFL 9 Unmodified _FLRPPSLFL_ 0 0 0 ENSG00000176399|ENST00000325870|DMRTA1 ENSG00000176399|ENST00000325870|DMRTA1 ENSG00000176399|ENST00000325870|DMRTA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.8873291015625 3 363.886694 1088.63825 2.8302 0.0010299 -0.05162 -1.8784E-05 2.7786 0.0010111 363.8864142389138 12.758 0.16912 13.4 13.311 13.48 0.64272 9 4 3 0 0 0 0.46674 1 5746 5746 8.9762 1.3673 1 1069900 6447 5077 4186 4201 7189 7189 0.09747800616310087 FLRRQYWHWLR 11 Unmodified _FLRRQYWHWLR_ 0 0 0 ENST00000513055.1_1_5:92921088-92921313:-|nuORF ENST00000513055.1_1_5:92921088-92921313:-|nuORF ENST00000513055.1_1_5:92921088-92921313:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 831.0572509765625 2 830.952218 1659.88988 NaN NaN NaN NaN NaN NaN NaN 105.74 1 106.06 105.56 106.56 0.31782 0 0 0 1.0082 1 48810 48810 0 0 1 6448 8574 4187 4202 7190 7190 0.08633412030530963 FLRRRKRFKVL 11 Unmodified _FLRRRKRFKVL_ 0 0 0 ENSG00000171956|ENST00000396057|FOXB1;ENSG00000204612|ENST00000376708|FOXB2 ENSG00000171956|ENST00000396057|FOXB1 ENSG00000171956|ENST00000396057|FOXB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.6687927246094 3 507.000045 1517.9783 NaN NaN NaN NaN NaN NaN NaN 50.563 1 51.221 50.721 51.721 0.65735 0 0 0 1.0079 1 23121 23121 0.45452 0.35968 1 6449 4848 4188 4203 7191 7191 0.2400345234100314 FLRRRRRRRR 10 Unmodified _FLRRRRRRRR_ 0 0 0 REV__ENST00000550735.6_1_12:112280040-112280175:+|nuORF REV__ENST00000550735.6_1_12:112280040-112280175:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 764.3469848632812 2 764.493242 1526.97193 NaN NaN NaN NaN NaN NaN NaN 82.953 1 82.998 82.498 83.498 0.045006 0 0 0 1.0015 1 41045 41045 0.45834 0.18932 1 + 6450 17281 4189 4204 7192 7192 0.22952371952828798 FLRVRANR 8 Unmodified _FLRVRANR_ 0 0 0 ENST00000475378.5_1_1:45097966-45116444:+|nuORF;nc|ENSG00000187147|Q5VTB9-3|RNF220;ENSG00000187147|ENST00000361799|RNF220 ENST00000475378.5_1_1:45097966-45116444:+|nuORF ENST00000475378.5_1_1:45097966-45116444:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.316162109375 2 516.314692 1030.61483 3.6308 0.0018746 -1.0474 -0.00054081 2.5834 0.0013338 516.3141770539413 95.204 0.5519 95.821 95.542 96.094 0.61737 112 26 6 0 0 0 0.7471 1 43845 43845 0.69038 0 1 65364000 6451 5604 4190 4205 7193 7193 0.10074799622339015 FLRVRKEVL 9 Unmodified _FLRVRKEVL_ 0 0 0 ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.2497863769531 3 387.248514 1158.72371 2.8591 0.0011072 0.043728 1.6934E-05 2.9028 0.0011241 387.2483371300353 28.769 0.1776 29.03 28.964 29.142 0.2602 22 14 2 0 0 0 0.069974 1 13093 13093 40.239 27.999 1 2082200 6452 1350 4191 4206 7194 7194 0.15069965801990293 FLRVRKEVL 9 Unmodified _FLRVRKEVL_ 0 0 0 ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 387.248514 1158.72371 2.9872 0.0011568 0.024384 9.4426E-06 3.0116 0.0011662 387.2484569668576 29.016 0.21654 29.016 28.971 29.188 0 -0.020575 0.00011352 NaN 40.239 24 16 2 NaN NaN NaN NaN 0 NaN NaN 0 180840 6453 1350 4191 4206 0.15069965801990293 FLRYERFERYR 11 Unmodified _FLRYERFERYR_ 0 0 0 nc|ENSG00000175662|Q6ZVM7-4|TOM1L2;nc|ENSG00000175662|Q6ZVM7-2|TOM1L2;nc|ENSG00000175662|Q6ZVM7-3|TOM1L2;nc|ENSG00000175662|Q6ZVM7-5|TOM1L2;ENSG00000175662|ENST00000379504|TOM1L2 nc|ENSG00000175662|Q6ZVM7-4|TOM1L2 nc|ENSG00000175662|Q6ZVM7-4|TOM1L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 817.9298095703125 2 817.931148 1633.84774 NaN NaN NaN NaN NaN NaN NaN 53.858 1 53.858 53.358 54.358 0 0 0 0 1.0082 1 24692 24692 0 0 1 6454 5041 4192 4207 7195 7195 0.05617391831469831 FLSFNKLF 8 Unmodified _FLSFNKLF_ 0 0 0 REV__L1ME4a_dup4290|chr2:119443233-119443543:+|1.1626009674898368|0.3565523303468222|1.71|533.0|4|1|sense REV__L1ME4a_dup4290|chr2:119443233-119443543:+|1.1626009674898368|0.3565523303468222|1.71|533.0|4|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.2855224609375 2 508.284203 1014.55385 2.556 0.0012992 0.15333 7.7934E-05 2.7093 0.0013771 508.28412505805665 77.006 0.35606 77.629 77.451 77.807 0.62397 63 26 3 0 0 0 0.29255 1 37361 37361 36.044 3.7387 1 2030700 + 6455 17770 4193 4208 7196 7196 0.04715849799572425 FLSFVIFH 8 Unmodified _FLSFVIFH_ 0 0 0 REV__ENSG00000196171|ENST00000359610|OR6K2 REV__ENSG00000196171|ENST00000359610|OR6K2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1010.5528564453125 1 1009.55057 1008.54329 3.6638 0.0036988 -0.60982 -0.00061565 3.054 0.0030831 1009.5518350115848 48.164 0.15791 48.426 48.347 48.505 0.26209 8 5 2 0 0 0 0.70146 1 22025 22025 5.7604 0 1 337450 + 6456 14193 4194 4209 7197 7197 0.039358671451282135 FLSKTVRITF 10 Unmodified _FLSKTVRITF_ 0 0 0 ENSG00000159256|ENST00000400485|MORC3 ENSG00000159256|ENST00000400485|MORC3 ENSG00000159256|ENST00000400485|MORC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 606.3592529296875 2 606.360973 1210.70739 NaN NaN NaN NaN NaN NaN NaN 80.697 1 81.357 80.857 81.857 0.65998 0 0 0 0.95729 1 37184 37184 12.241 4.0851 1 6457 4017 4195 4210 7198 7198 0.11046839845221257 FLSRQSLIL 9 Unmodified _FLSRQSLIL_ 0 0 0 REV__ENSG00000170881|ENST00000303545|RNF139 REV__ENSG00000170881|ENST00000303545|RNF139 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.3305053710938 2 538.826766 1075.63898 3.303 0.0017797 0.18374 9.9003E-05 3.4867 0.0018787 538.8268071536133 53.017 0.32885 53.017 52.838 53.167 0 53 17 4 0 0 0 0.26277 1 24342 24342 19.257 1.122 1 3790500 + 6458 13460 4196 4211 7199 7199 0.10418595265377917 FLSRQSLIL 9 Unmodified _FLSRQSLIL_ 0 0 0 REV__ENSG00000170881|ENST00000303545|RNF139 REV__ENSG00000170881|ENST00000303545|RNF139 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.8280639648438 2 538.826766 1075.63898 3.1839 0.0017156 0.61085 0.00032914 3.7947 0.0020447 538.826916312908 52.661 0.34147 52.924 52.756 53.097 0.26345 41 13 4 0 0 0 0.10169 1 24027 24027 32.305 4.1323 1 3197100 + 6459 13460 4196 4211 7200 7200 0.10418595265377917 FLSRSEREEET 11 Unmodified _FLSRSEREEET_ 0 0 0 REV__ENSG00000136643|ENST00000366960|RPS6KC1 REV__ENSG00000136643|ENST00000366960|RPS6KC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 691.83251953125 2 691.830963 1381.64737 NaN NaN NaN NaN NaN NaN NaN 86.435 1 87.106 86.606 87.606 0.67061 0 0 0 1.0044 1 39803 39803 4.897 1.3005 1 + 6460 12075 4197 4212 7201 7201 -0.02818547346601008 FLSSGLTLM 9 Unmodified _FLSSGLTLM_ 0 0 0 REV__Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|179|2|anti-sense REV__Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|179|2|anti-sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.7618408203125 2 484.759704 967.504854 3.2851 0.0015925 -0.32018 -0.00015521 2.9649 0.0014373 484.75965824127485 49.085 0.24653 49.74 49.604 49.851 0.65525 15 8 3 0 0 0 0.086747 1 22464 22464 36.044 1.9418 1 579350 + 6461 17696 4198 4213 7202 7202 0.01980193448321188 FLSSGLTLM 9 Unmodified _FLSSGLTLM_ 0 0 0 REV__Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|179|2|anti-sense REV__Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|179|2|anti-sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 484.759704 967.504854 3.1261 0.0015154 0.93203 0.00045181 4.0581 0.0019672 484.7602890915752 49.615 0.25238 49.877 49.727 49.98 0.26146 0.068165 0.00046596 NaN 36.044 24 10 3 NaN NaN NaN NaN 0 NaN NaN 0 658490 + 6462 17696 4198 4213 0.01980193448321188 FLSSGLTLM 9 Unmodified _FLSSGLTLM_ 0 0 0 REV__Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|179|2|anti-sense REV__Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|179|2|anti-sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 484.759704 967.504854 3.2851 0.0015925 -0.32018 -0.00015521 2.9649 0.0014373 484.75965824127485 49.085 0.24653 49.74 49.604 49.851 0.65525 -0.068165 -0.00074809 NaN 36.044 15 8 3 NaN NaN NaN NaN 0 NaN NaN 0 579350 + 6463 17696 4198 4213 0.01980193448321188 FLTSHLTLEL 10 Unmodified _FLTSHLTLEL_ 0 0 0 ENST00000561976.5_1_16:89774042-89774219:-|nuORF ENST00000561976.5_1_16:89774042-89774219:-|nuORF ENST00000561976.5_1_16:89774042-89774219:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.332275390625 2 587.329339 1172.64412 3.382 0.0019863 1.4682 0.00086234 4.8502 0.0028487 587.330013548626 35.705 0.3409 35.705 35.543 35.884 0 35 16 3 0 0 0 0.84709 1 16244 16244 6.2058 1.3088 1 1467600 6464 8990 4199 4214 7203 7203 0.06470854337317178 FLVAKEHL 8 Unmodified _FLVAKEHL_ 0 0 0 REV__nc|ENSG00000126217|O15068-5|MCF2L REV__nc|ENSG00000126217|O15068-5|MCF2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.78326416015625 2 478.781828 955.549102 2.9799 0.0014267 -0.51868 -0.00024834 2.4613 0.0011784 478.7815865473606 33.757 0.43044 34.377 34.107 34.537 0.62031 27 19 2 0 0 0 0.56084 1 15413 15413 16.942 0 1 566440 + 6465 11706 4200 4215 7204 7204 0.06954965656791501 FLVKKKNKKKN 11 Unmodified _FLVKKKNKKKN_ 0 0 0 ENST00000379561.5_1_13:41132958-41133663:-|nuORF ENST00000379561.5_1_13:41132958-41133663:-|nuORF ENST00000379561.5_1_13:41132958-41133663:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 687.953857421875 2 687.950821 1373.88709 NaN NaN NaN NaN NaN NaN NaN 83.282 1 83.282 82.782 83.782 0 0 0 0 1.0072 1 41915 41915 1.3295 0.13619 1 6466 7451 4201 4216 7205 7205 0.21510143853015506 FLVLFLKLF 9 Unmodified _FLVLFLKLF_ 0 0 0 ENST00000465124.1_1_9:127634977-127635226:+|nuORF ENST00000465124.1_1_9:127634977-127635226:+|nuORF ENST00000465124.1_1_9:127634977-127635226:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.3626708984375 2 570.364996 1138.71544 NaN NaN NaN NaN NaN NaN NaN 61.237 1 61.899 61.399 62.399 0.66261 0 0 0 0.89315 1 28039 28039 5.2307 0 1 6467 8121 4202 4217 7206 7206 0.15163018832640773 FLWDWPFL 8 Unmodified _FLWDWPFL_ 0 0 0 REV__ENST00000376156.7_1_11:77824966-77825005:-|nuORF REV__ENST00000376156.7_1_11:77824966-77825005:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.283935546875 2 562.284203 1122.55385 NaN NaN NaN NaN NaN NaN NaN 90.57 1 90.822 90.322 91.322 0.25137 0 0 0 0.99035 1 41648 41648 0.69038 0 1 + 6468 15818 4203 4218 7207 7207 -0.00252150200435608 FLWFFPTM 8 Unmodified _FLWFFPTM_ 0 0 0 REV__ENST00000483804.5_1_1:161179060-161183980:+|nuORF REV__ENST00000483804.5_1_1:161179060-161183980:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1088.5347900390625 1 1088.52739 1087.52011 3.2312 0.0035172 3.2079 0.0034919 6.4391 0.0070091 1088.5317014752775 77.719 0.087143 78.382 78.316 78.403 0.66303 6 4 2 0 0 0 0.52517 1 35817 35817 19.439 1.304 1 317260 + 6469 12834 4204 4219 7208 7208 -0.02014894963849656 FLWFLKRERQE 11 Unmodified _FLWFLKRERQE_ 0 0 0 nc|ENSG00000026751|Q9NQ25-2|SLAMF7;nc|ENSG00000026751|Q9NQ25-5|SLAMF7;nc|ENSG00000026751|Q9NQ25-3|SLAMF7;ENSG00000026751|ENST00000368043|SLAMF7 nc|ENSG00000026751|Q9NQ25-2|SLAMF7 nc|ENSG00000026751|Q9NQ25-2|SLAMF7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 517.7473754882812 3 517.952537 1550.83578 NaN NaN NaN NaN NaN NaN NaN 58.827 1 59.586 59.086 60.086 0.75894 0 0 0 1.0082 1 27020 27020 0.094841 0 1 6470 486 4205 4220 7209 7209 0.08239775088304668 FLYREIWI 8 Unmodified _FLYREIWI_ 0 0 0 ENST00000415822.6_2_3:158538073-158539436:+|nuORF ENST00000415822.6_2_3:158538073-158539436:+|nuORF ENST00000415822.6_2_3:158538073-158539436:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.9080200195312 2 570.316035 1138.61752 NaN NaN NaN NaN NaN NaN NaN 86.81 1 86.84 86.34 87.34 0.030289 0 0 0 0.99035 1 43780 43780 5.2307 0 1 6471 7707 4206 4221 7210 7210 0.05375210236661587 FMECEEEE 8 Unmodified _FMECEEEE_ 0 0 0 nc|ENSG00000143442|Q7Z3K3-5|POGZ;nc|ENSG00000143442|Q7Z3K3-7|POGZ;nc|ENSG00000143442|Q7Z3K3-2|POGZ;nc|ENSG00000143442|Q7Z3K3-3|POGZ;nc|ENSG00000143442|Q7Z3K3-6|POGZ;ENSG00000143442|ENST00000271715|POGZ;ENST00000476128.1_1_1:151413368-151414680:-|nuORF;ZNF280C|p.S141Kfs*9|1|0.04|ENSG00000056277|chrX:130239655-130239656|-/TTTCTGTTTT|frameshift_variant;nc|ENSG00000285253|Q6N043-6|ZNF280D;ENST00000467287.5_1_1:151401965-151414680:-|nuORF;nc|ENSG00000143442|Q7Z3K3-4|POGZ;ZNF280C|p.K489Rfs*8|1|0.21|ENSG00000056277|chrX:130220410-130220410|T/-|frameshift_variant;nc|ENSG00000285253|Q6N043-3|ZNF280D;ENSG00000056277|ENST00000370978|ZNF280C;ENSG00000137871|ENST00000267807|ZNF280D;nc|ENSG00000285253|Q6N043-2|ZNF280D nc|ENSG00000143442|Q7Z3K3-5|POGZ;ENSG00000137871|ENST00000267807|ZNF280D nc|ENSG00000143442|Q7Z3K3-5|POGZ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.1795654296875 2 523.178083 1044.34161 3.358 0.0017568 -0.2045 -0.00010699 3.1535 0.0016498 523.1778644162849 38.472 0.17638 39.27 39.221 39.398 0.79762 12 8 2 0 0 0 0.7471 1 17442 17442 0.79363 0 1 199100 6472 3369;3051 4207 4222 7211 7211 -0.17878397455706363 FMEMKTRGVTP 11 Unmodified _FMEMKTRGVTP_ 0 0 0 REV__nc|ENSG00000188167|Q6ZT21-2|TMPPE REV__nc|ENSG00000188167|Q6ZT21-2|TMPPE MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 432.88629150390625 3 432.886148 1295.63661 NaN NaN NaN NaN NaN NaN NaN 70.051 1 70.712 70.212 71.212 0.66071 0 0 0 1.0073 1 32119 32119 1.2148 0.25256 1 + 6473 14136 4208 4223 7212 7212 0.0006205547374520393 FMHLRPIS 8 Unmodified _FMHLRPIS_ 0 0 0 ENST00000591084.5_3_19:36233501-36234996:-|nuORF;ENSG00000161265|ENST00000378975|U2AF1L4;nc|ENSG00000161265|Q8WU68|U2AF1L4;ENST00000587987.5_1_19:36233501-36235544:-|nuORF ENST00000591084.5_3_19:36233501-36234996:-|nuORF ENST00000591084.5_3_19:36233501-36234996:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.1869812011719 3 334.184745 999.532406 NaN NaN NaN NaN NaN NaN NaN 59.224 1 59.484 58.984 59.984 0.2593 0 0 0 0.99035 1 27120 27120 3.2813 0.99853 1 6474 4097 4209 4224 7213 7213 0.03262141499192239 FMHRRFRQ 8 Unmodified _FMHRRFRQ_ 0 0 0 nc|ENSG00000110148|P32239-3|CCKBR;ENSG00000110148|ENST00000334619|CCKBR;nc|ENSG00000110148|P32239-2|CCKBR nc|ENSG00000110148|P32239-3|CCKBR nc|ENSG00000110148|P32239-3|CCKBR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.3145141601562 2 589.311626 1176.6087 4.4018 0.0025941 1.2933 0.00076214 5.6951 0.0033562 589.3117834229437 103.05 0.13631 103.37 103.29 103.42 0.31863 10 4 3 0 0 0 0.7471 1 47676 47676 0.79363 0.10326 1 209830 6475 1702 4210 4225 7214 7214 0.02745958119203351 FMIMQETPQLL 11 Unmodified _FMIMQETPQLL_ 0 0 0 chr8:80042668-80051252|460|24.19|0.95|4.67|-|2|TPD52,TPD52|2 chr8:80042668-80051252|460|24.19|0.95|4.67|-|2|TPD52,TPD52|2 chr8:80042668-80051252|460|24.19|0.95|4.67|-|2|TPD52,TPD52|2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.89923095703125 3 450.898053 1349.67233 2.8899 0.001303 0.1255 5.6586E-05 3.0154 0.0013596 450.8980680566125 51.801 0.33142 51.801 51.53 51.862 0 47 23 3 0 0 0 0.82535 1 23648 23648 2.6312 0.88896 1 872730 6476 191 4211 4226 7215 7215 0.011480929307481347 FMKLLTAV 8 Unmodified _FMKLLTAV_ 0 0 0 REV__nc|ENSG00000213390|Q14CB8-5|ARHGAP19 REV__nc|ENSG00000213390|Q14CB8-5|ARHGAP19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 308.186279296875 3 308.185863 921.53576 NaN NaN NaN NaN NaN NaN NaN 39.317 1 40.114 39.614 40.614 0.79762 0 0 0 0.99035 1 17800 17800 1.6526 0 1 + 6477 9966 4212 4227 7216 7216 0.0718539155320741 FMKLLTAV 8 Unmodified _FMKLLTAV_ 0 0 0 REV__nc|ENSG00000213390|Q14CB8-5|ARHGAP19 REV__nc|ENSG00000213390|Q14CB8-5|ARHGAP19 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 308.1971435546875 3 308.185863 921.53576 NaN NaN NaN NaN NaN NaN NaN 40.486 1 40.755 40.255 41.255 0.26904 0 0 0 0.99035 1 18420 18420 1.6526 0 1 + 6478 9966 4212 4227 7217 7217 0.0718539155320741 FMKPGKVVL 9 Unmodified _FMKPGKVVL_ 0 0 0 ENSG00000131469|ENST00000253788|RPL27;ENST00000587478.1_1_17:41150475-41150953:+|nuORF;ENST00000593262.1_1_17:41150683-41150953:+|nuORF ENSG00000131469|ENST00000253788|RPL27 ENSG00000131469|ENST00000253788|RPL27 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 340.20947265625 3 340.208779 1017.60451 2.4131 0.00082096 -0.11204 -3.8117E-05 2.3011 0.00078284 340.20865470943636 40.361 0.35173 40.361 40.116 40.468 0 25 11 3 0 0 0 0.1026 1 18332 18332 11.495 11.495 1 1345000 6479 2661 4213 4228 7218 7218 0.09641055852932823 FMKPGKVVL 9 Unmodified _FMKPGKVVL_ 0 0 0 ENSG00000131469|ENST00000253788|RPL27;ENST00000587478.1_1_17:41150475-41150953:+|nuORF;ENST00000593262.1_1_17:41150683-41150953:+|nuORF ENSG00000131469|ENST00000253788|RPL27 ENSG00000131469|ENST00000253788|RPL27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 509.8109130859375 2 509.809531 1017.60451 3.1499 0.0016058 -0.030202 -1.5397E-05 3.1197 0.0015904 509.809354550619 39.331 0.40382 40.128 39.873 40.277 0.79762 26 18 2 0 0 0 0.099775 1 17799 17799 28.487 19.139 1 338250 6480 2661 4213 4228 7219 7219 0.09641055852932823 FMKPGKVVL 9 Unmodified _FMKPGKVVL_ 0 0 0 ENSG00000131469|ENST00000253788|RPL27;ENST00000587478.1_1_17:41150475-41150953:+|nuORF;ENST00000593262.1_1_17:41150683-41150953:+|nuORF ENSG00000131469|ENST00000253788|RPL27 ENSG00000131469|ENST00000253788|RPL27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 340.20953369140625 3 340.208779 1017.60451 2.3444 0.00079758 -0.073488 -2.5001E-05 2.2709 0.00077258 340.20872990558144 39.245 0.46123 40.043 39.84 40.301 0.79762 51 21 3 0 0 0 0.78763 1 17824 17824 7.609 7.609 1 1077100 6481 2661 4213 4228 7220 7220 0.09641055852932823 FMKPGKVVL 9 Unmodified _FMKPGKVVL_ 0 0 0 ENSG00000131469|ENST00000253788|RPL27;ENST00000587478.1_1_17:41150475-41150953:+|nuORF;ENST00000593262.1_1_17:41150683-41150953:+|nuORF ENSG00000131469|ENST00000253788|RPL27 ENSG00000131469|ENST00000253788|RPL27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 340.2095642089844 3 340.208779 1017.60451 2.5624 0.00087176 -0.79109 -0.00026914 1.7713 0.00060262 340.2086212785006 40.006 0.4949 40.273 39.99 40.485 0.26696 49 19 3 0 0 0 0.27615 3 18163 18163;18215;18272 18.373 9.5166 1 3793300 6482 2661 4213 4228 7221;7222;7223 7221 0.09641055852932823 FMKPGKVVL 9 Unmodified _FMKPGKVVL_ 0 0 0 ENSG00000131469|ENST00000253788|RPL27;ENST00000587478.1_1_17:41150475-41150953:+|nuORF;ENST00000593262.1_1_17:41150683-41150953:+|nuORF ENSG00000131469|ENST00000253788|RPL27 ENSG00000131469|ENST00000253788|RPL27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.8112487792969 2 509.809531 1017.60451 3.4219 0.0017445 -0.46128 -0.00023516 2.9606 0.0015094 509.8095051757353 40.01 0.36174 40.277 40.071 40.432 0.26696 27 14 2 0 0 0 0.030603 2 18226 18166;18226 52.268 32.513 1 1161900 6483 2661 4213 4228 7224;7225 7225 0.09641055852932823 FMKPGKVVL 9 Unmodified _FMKPGKVVL_ 0 0 0 ENSG00000131469|ENST00000253788|RPL27;ENST00000587478.1_1_17:41150475-41150953:+|nuORF;ENST00000593262.1_1_17:41150683-41150953:+|nuORF ENSG00000131469|ENST00000253788|RPL27 ENSG00000131469|ENST00000253788|RPL27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 340.2095642089844 3 340.208779 1017.60451 2.5079 0.00085319 -0.55665 -0.00018938 1.9512 0.00066382 340.20868733394155 39.562 0.38023 40.2 39.971 40.352 0.63778 46 17 3 0 0 0 0.17594 2 18095 18049;18095 24.991 24.991 1 3555800 6484 2661 4213 4228 7226;7227 7227 0.09641055852932823 FMKPGKVVL 9 Unmodified _FMKPGKVVL_ 0 0 0 ENSG00000131469|ENST00000253788|RPL27;ENST00000587478.1_1_17:41150475-41150953:+|nuORF;ENST00000593262.1_1_17:41150683-41150953:+|nuORF ENSG00000131469|ENST00000253788|RPL27 ENSG00000131469|ENST00000253788|RPL27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.81195068359375 2 509.809531 1017.60451 3.49 0.0017792 -0.61577 -0.00031393 2.8742 0.0014653 509.8094604133159 39.53 0.32261 40.168 40.029 40.352 0.63778 29 15 2 0 0 0 0.069974 2 18061 18061;18116 52.268 38.76 1 1035100 6485 2661 4213 4228 7228;7229 7228 0.09641055852932823 FMKPGKVVL 9 Unmodified _FMKPGKVVL_ 0 0 0 ENSG00000131469|ENST00000253788|RPL27;ENST00000587478.1_1_17:41150475-41150953:+|nuORF;ENST00000593262.1_1_17:41150683-41150953:+|nuORF ENSG00000131469|ENST00000253788|RPL27 ENSG00000131469|ENST00000253788|RPL27 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 509.809531 1017.60451 3.1751 0.0016187 0.55119 0.000281 3.7263 0.0018997 509.8098856095826 40.346 0.26222 40.346 40.172 40.434 0 0.1162 0.00068477 NaN 52.268 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 622470 6486 2661 4213 4228 0.09641055852932823 FMREKQHLL 9 Unmodified _FMREKQHLL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF;nc|ENSG00000173821|Q63HN8-5|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 401.2221984863281 3 401.221859 1200.64375 NaN NaN NaN NaN NaN NaN NaN 21.961 1 22.242 21.742 22.742 0.28085 0 0 0 0.078346 1 9929 9929 45.74 24.15 1 6487 4953 4214 4229 7230 7230 0.05145156136495643 FMREKQHLL 9 Unmodified _FMREKQHLL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF;nc|ENSG00000173821|Q63HN8-5|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 401.22271728515625 3 401.221859 1200.64375 NaN NaN NaN NaN NaN NaN NaN 21.694 1 22.342 21.842 22.842 0.64714 0 0 0 0.15577 1 9851 9851 32.898 14.177 1 6488 4953 4214 4229 7231 7231 0.05145156136495643 FMRHHLPL 8 Unmodified _FMRHHLPL_ 0 0 0 REV__nc|ENSG00000163170|Q53S33-2|BOLA3 REV__nc|ENSG00000163170|Q53S33-2|BOLA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.7905883789062 2 525.786921 1049.55929 3.5576 0.0018706 1.5196 0.00079897 5.0772 0.0026695 525.7879999762936 12.74 0.30232 13.382 13.278 13.58 0.64272 13 8 2 0 0 0 0.68261 1 5765 5765 2.5775 0 1 366780 + 6489 16582 4215 4230 7232 7232 0.03649250110402136 FNDEDEED 8 Unmodified _FNDEDEED_ 0 0 0 nc|ENSG00000114126|Q14188-7|TFDP2;nc|ENSG00000114126|Q14188-6|TFDP2;nc|ENSG00000114126|Q14188-2|TFDP2;nc|ENSG00000114126|Q14188-3|TFDP2;nc|ENSG00000114126|Q14188-4|TFDP2;nc|ENSG00000114126|Q14188-5|TFDP2;nc|ENSG00000114126|Q14188-8|TFDP2;ENSG00000114126|ENST00000489671|TFDP2 nc|ENSG00000114126|Q14188-7|TFDP2 nc|ENSG00000114126|Q14188-7|TFDP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.6722412109375 2 506.672534 1011.33051 NaN NaN NaN NaN NaN NaN NaN 68.21 1 68.462 67.962 68.962 0.25227 0 0 0 0.99035 1 31247 31247 2.5775 0 1 6490 1890 4216 4231 7233 7233 -0.17469760233984744 FNGGPRVG 8 Unmodified _FNGGPRVG_ 0 0 0 REV__ENSG00000105376|ENST00000221980|ICAM5 REV__ENSG00000105376|ENST00000221980|ICAM5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 402.21331787109375 2 402.211569 802.408586 NaN NaN NaN NaN NaN NaN NaN 71.713 1 72.376 71.876 72.876 0.66324 0 0 0 0.99035 1 32870 32870 5.2307 2.6532 1 + 6491 11028 4217 4232 7234 7234 -0.0005219327675831664 FNINRQRYHFK 11 Unmodified _FNINRQRYHFK_ 0 0 0 ENST00000558663.5_1_15:99768880-99791424:-|nuORF;ENST00000394135.7_1_15:99789787-99791379:-|nuORF;ENST00000394129.6_1_15:99785679-99791400:-|nuORF ENST00000558663.5_1_15:99768880-99791424:-|nuORF ENST00000558663.5_1_15:99768880-99791424:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1523.0687255859375 1 1522.80259 1521.79531 3.3607 0.0051177 0.85322 0.0012993 4.2139 0.006417 1523.807782672576 34.46 0.048088 35.249 35.215 35.263 0.78921 5 3 2 0 0 0 0.13295 1 15605 15605 0.30703 0 1 5754000 6492 8956 4218 4233 7235 7235 0.05528853488522145 FNKFRENFIFF 11 Unmodified _FNKFRENFIFF_ 0 0 0 REV__ENSG00000204977|ENST00000378182|TRIM13 REV__ENSG00000204977|ENST00000378182|TRIM13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.59417724609375 3 503.59435 1507.76122 2.6853 0.0013523 -1.6338 -0.00082275 1.0515 0.00052953 503.92774776072963 60.683 0.1657 61.423 61.378 61.544 0.7396 41 19 3 0 0 0 0.78292 1 28068 28068 3.8459 0 1 4690400 + 6493 14448 4219 4234 7236 7236 0.027650122769273366 FNMKKDEV 8 Unmodified _FNMKKDEV_ 0 0 0 nc|ENSG00000166949|P84022-2|SMAD3;ENSG00000166949|ENST00000327367|SMAD3;nc|ENSG00000166949|P84022-3|SMAD3 nc|ENSG00000166949|P84022-2|SMAD3 nc|ENSG00000166949|P84022-2|SMAD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.5052490234375 3 337.504032 1009.49027 2.2838 0.00077078 0.56048 0.00018917 2.8442 0.00095994 337.5042323333495 19.739 0.14139 20.032 19.927 20.068 0.29239 16 10 2 0 0 0 0.71911 1 8981 8981 5.7319 4.0792 1 262220 6494 4521 4220 4235 7237 7237 -0.014098786998374635 FNMKKDEV 8 Unmodified _FNMKKDEV_ 0 0 0 nc|ENSG00000166949|P84022-2|SMAD3;ENSG00000166949|ENST00000327367|SMAD3;nc|ENSG00000166949|P84022-3|SMAD3 nc|ENSG00000166949|P84022-2|SMAD3 nc|ENSG00000166949|P84022-2|SMAD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.7545166015625 2 505.75241 1009.49027 3.4115 0.0017254 0.3843 0.00019436 3.7958 0.0019197 505.7527557574587 19.37 0.096821 20.028 19.959 20.055 0.6583 14 7 3 0 0 0 0.45971 1 8780 8780 24.021 5.8742 1 282240 6495 4521 4220 4235 7238 7238 -0.014098786998374635 FNQLDKRVLE 10 Unmodified _FNQLDKRVLE_ 0 0 0 REV__ENSG00000163220|ENST00000368738|S100A9 REV__ENSG00000163220|ENST00000368738|S100A9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.2351989746094 3 421.234822 1260.68264 NaN NaN NaN NaN NaN NaN NaN 39.804 1 40.071 39.571 40.571 0.26696 0 0 0 0.99466 1 18108 18108 6.1918 1.4759 1 + 6496 12984 4221 4236 7239 7239 0.06272159971854308 FNRKWHYRQFR 11 Unmodified _FNRKWHYRQFR_ 0 0 0 REV__ENST00000548895.1_1_12:69678801-69679005:+|nuORF REV__ENST00000548895.1_1_12:69678801-69679005:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.6235961914062 3 546.623525 1636.84875 NaN NaN NaN NaN NaN NaN NaN 86.686 1 86.716 86.216 87.216 0.030289 0 0 0 1.0082 1 43686 43686 0.08335 0.08335 1 + 6497 17264 4222 4237 7240 7240 0.05579650991035123 FNRRIAEPIK 10 Unmodified _FNRRIAEPIK_ 0 0 0 REV__ENSG00000107566|ENST00000421367|ERLIN1 REV__ENSG00000107566|ENST00000421367|ERLIN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 622.367919921875 2 622.367121 1242.71969 NaN NaN NaN NaN NaN NaN NaN 71.002 1 71.664 71.164 72.164 0.66209 0 0 0 1.0004 1 32540 32540 1.3295 0.36726 1 + 6498 11115 4223 4238 7241 7241 0.10803876308250437 FPAAIEHTI 9 Unmodified _FPAAIEHTI_ 0 0 0 ENSG00000033178|ENST00000322244|UBA6;nc|ENSG00000033178|A0AVT1-2|UBA6 ENSG00000033178|ENST00000322244|UBA6 ENSG00000033178|ENST00000322244|UBA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.77044677734375 2 499.768917 997.523281 3.2052 0.0016018 0.17355 8.6733E-05 3.3787 0.0016886 499.7689735632058 51.409 0.37039 51.409 51.187 51.557 0 48 18 3 0 0 0 4.7721999999999996E-21 2 23500 23500;23546 179.23 130.88 1 3211000 6499 504 4224 4239 7242;7243 7242 0.024420714145321654 FPAAIEHTI 9 Unmodified _FPAAIEHTI_ 0 0 0 ENSG00000033178|ENST00000322244|UBA6;nc|ENSG00000033178|A0AVT1-2|UBA6 ENSG00000033178|ENST00000322244|UBA6 ENSG00000033178|ENST00000322244|UBA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.7700500488281 2 499.768917 997.523281 2.9143 0.0014565 0.1301 6.5022E-05 3.0444 0.0015215 499.7688100271859 50.564 0.35993 51.381 51.139 51.499 0.81738 42 17 3 0 0 0 1.1387E-08 2 23059 23010;23059 154.46 114.01 1 5256200 6500 504 4224 4239 7244;7245 7245 0.024420714145321654 FPAAIEHTI 9 Unmodified _FPAAIEHTI_ 0 0 0 ENSG00000033178|ENST00000322244|UBA6;nc|ENSG00000033178|A0AVT1-2|UBA6 ENSG00000033178|ENST00000322244|UBA6 ENSG00000033178|ENST00000322244|UBA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.7701416015625 2 499.768917 997.523281 3.0835 0.001541 0.1636 8.1761E-05 3.2471 0.0016228 499.76900840785135 51.294 0.28686 51.556 51.378 51.665 0.26227 36 12 4 0 0 0 4.7721999999999996E-21 2 23398 23398;23450 179.23 126.96 1 7449400 6501 504 4224 4239 7246;7247 7246 0.024420714145321654 FPAAIEHTI 9 Unmodified _FPAAIEHTI_ 0 0 0 ENSG00000033178|ENST00000322244|UBA6;nc|ENSG00000033178|A0AVT1-2|UBA6 ENSG00000033178|ENST00000322244|UBA6 ENSG00000033178|ENST00000322244|UBA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.7707214355469 2 499.768917 997.523281 3.1118 0.0015552 0.66618 0.00033294 3.778 0.0018881 499.7692385838883 50.602 0.41117 51.261 51.001 51.412 0.65956 64 20 4 0 0 0 4.7721999999999996E-21 3 23133 23079;23133;23180 179.23 117.87 1 6318400 6502 504 4224 4239 7248;7249;7250 7249 0.024420714145321654 FPAAPAPKM 9 Unmodified _FPAAPAPKM_ 0 0 0 ENST00000510871.5_1_4:40427923-40438677:-|nuORF;nc|ENSG00000163694|A0AV96-2|RBM47;ENSG00000163694|ENST00000295971|RBM47 ENST00000510871.5_1_4:40427923-40438677:-|nuORF ENST00000510871.5_1_4:40427923-40438677:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.2508239746094 2 465.249306 928.484059 3.0124 0.0014015 0.21845 0.00010164 3.2308 0.0015031 465.2494205796283 40.662 0.22287 41.304 41.229 41.452 0.64136 20 14 2 0 0 0 0.047285 1 18611 18611 48.346 28.907 1 374490 6503 4242 4225 4240 7251 7251 0.01695647859287419 FPAAPAPKM 9 Unmodified _FPAAPAPKM_ 0 0 0 ENST00000510871.5_1_4:40427923-40438677:-|nuORF;nc|ENSG00000163694|A0AV96-2|RBM47;ENSG00000163694|ENST00000295971|RBM47 ENST00000510871.5_1_4:40427923-40438677:-|nuORF ENST00000510871.5_1_4:40427923-40438677:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.25079345703125 2 465.249306 928.484059 NaN NaN NaN NaN NaN NaN NaN 40.84 1 41.484 40.984 41.984 0.64451 0 0 0 0.30236 1 18670 18670 26.884 12.302 1 6504 4242 4225 4240 7252 7252 0.01695647859287419 FPAARRCHSC 10 Unmodified _FPAARRCHSC_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10;nc|ENSG00000128607|Q6PID8-2|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 574.26953125 2 574.266027 1146.5175 3.6746 0.0021102 1.5245 0.00087549 5.1991 0.0029857 574.2671898663275 67.077 0.46048 67.735 67.475 67.936 0.65777 72 25 4 0 0 0 0.25519 1 30753 30753 32.786 0.4802 1 4203800 6505 2520 4226 4241 7253 7253 -0.049896736404434705 FPAEAGRDTL 10 Unmodified _FPAEAGRDTL_ 0 0 0 ENSG00000103194|ENST00000219473|USP10;nc|ENSG00000103194|Q14694-3|USP10;nc|ENSG00000103194|Q14694-2|USP10;ENST00000540269.6_1_16:84778297-84793504:+|nuORF ENSG00000103194|ENST00000219473|USP10 ENSG00000103194|ENST00000219473|USP10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.77392578125 2 538.772188 1075.52982 NaN NaN NaN NaN NaN NaN NaN 37.509 1 37.509 37.009 38.009 0 0 0 0 0.75166 1 17022 17022 23.79 1.0535 1 6506 1381 4227 4242 7254 7254 -0.004920354247587966 FPAEAGRDTL 10 Unmodified _FPAEAGRDTL_ 0 0 0 ENSG00000103194|ENST00000219473|USP10;nc|ENSG00000103194|Q14694-3|USP10;nc|ENSG00000103194|Q14694-2|USP10;ENST00000540269.6_1_16:84778297-84793504:+|nuORF ENSG00000103194|ENST00000219473|USP10 ENSG00000103194|ENST00000219473|USP10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.7739868164062 2 538.772188 1075.52982 3.146 0.001695 0.88582 0.00047725 4.0318 0.0021722 538.7726222197218 36.268 1.0715 37.061 36.759 37.831 0.79342 74 47 2 0 0 0 0.57441 2 16425 16425;16489 18.373 4.467 1 271550 6507 1381 4227 4242 7255;7256 7255 -0.004920354247587966 FPAEDWAGL 9 Unmodified _FPAEDWAGL_ 0 0 0 ENSG00000127922|ENST00000248566|SEM1 ENSG00000127922|ENST00000248566|SEM1 ENSG00000127922|ENST00000248566|SEM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.2391662597656 2 503.23745 1004.46035 3.0588 0.0015393 0.53366 0.00026856 3.5924 0.0018078 503.23767746319083 78.582 0.97939 78.835 78.399 79.378 0.25231 99 64 2 0 0 0 0.27976 2 36206 36137;36206 18.135 7.3111 1 330350 6508 2492 4228 4243 7257;7258 7258 -0.04170494373522615 FPAEDWAGL 9 Unmodified _FPAEDWAGL_ 0 0 0 ENSG00000127922|ENST00000248566|SEM1 ENSG00000127922|ENST00000248566|SEM1 ENSG00000127922|ENST00000248566|SEM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1005.4714965820312 1 1005.46762 1004.46035 3.55 0.0035694 -0.16573 -0.00016663 3.3843 0.0034028 1005.4675807801018 78.047 0.19078 78.709 78.633 78.824 0.66198 12 8 2 0 0 0 0.062556 1 35979 35979 42.095 29.563 1 416640 6509 2492 4228 4243 7259 7259 -0.04170494373522615 FPAEDWAGL 9 Unmodified _FPAEDWAGL_ 0 0 0 ENSG00000127922|ENST00000248566|SEM1 ENSG00000127922|ENST00000248566|SEM1 ENSG00000127922|ENST00000248566|SEM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.23968505859375 2 503.23745 1004.46035 3.1513 0.0015859 0.049253 2.4786E-05 3.2006 0.0016107 503.2376222278917 78.137 0.93982 78.799 78.417 79.356 0.66198 90 58 2 0 0 0 0.078322 1 35991 35991 38.151 23.313 1 470340 6510 2492 4228 4243 7260 7260 -0.04170494373522615 FPAEDWAGL 9 Unmodified _FPAEDWAGL_ 0 0 0 ENSG00000127922|ENST00000248566|SEM1 ENSG00000127922|ENST00000248566|SEM1 ENSG00000127922|ENST00000248566|SEM1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 503.23745 1004.46035 2.4717 0.0012438 -0.17286 -8.699E-05 2.2988 0.0011569 503.2371988076196 78.129 0.12283 78.69 78.579 78.702 0.56091 -0.084271 -0.00048423 NaN 38.151 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 758340 6511 2492 4228 4243 -0.04170494373522615 FPAEKESEW 9 Unmodified _FPAEKESEW_ 0 0 0 ENST00000539677.1_1_16:12874994-12897657:-|nuORF;nc|ENSG00000103381|Q9BRF8-3|CPPED1;nc|ENSG00000103381|Q9BRF8-2|CPPED1;ENSG00000103381|ENST00000381774|CPPED1 ENST00000539677.1_1_16:12874994-12897657:-|nuORF ENST00000539677.1_1_16:12874994-12897657:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.7601928710938 2 561.758746 1121.50294 NaN NaN NaN NaN NaN NaN NaN 38.606 1 39.403 38.903 39.903 0.79762 0 0 0 0.70806 1 17488 17488 12.241 0.60036 1 6512 1395 4229 4244 7261 7261 -0.052951440359720436 FPAEKESEW 9 Unmodified _FPAEKESEW_ 0 0 0 ENST00000539677.1_1_16:12874994-12897657:-|nuORF;nc|ENSG00000103381|Q9BRF8-3|CPPED1;nc|ENSG00000103381|Q9BRF8-2|CPPED1;ENSG00000103381|ENST00000381774|CPPED1 ENST00000539677.1_1_16:12874994-12897657:-|nuORF ENST00000539677.1_1_16:12874994-12897657:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.7601318359375 2 561.758746 1121.50294 3.6192 0.0020331 0.36366 0.00020429 3.9829 0.0022374 561.7591288573205 39.923 0.43459 40.19 39.794 40.228 0.26696 18 14 2 0 0 0 0.24524 1 18112 18112 20.415 1.1575 1 471260 6513 1395 4229 4244 7262 7262 -0.052951440359720436 FPAEKESEW 9 Unmodified _FPAEKESEW_ 0 0 0 ENST00000539677.1_1_16:12874994-12897657:-|nuORF;nc|ENSG00000103381|Q9BRF8-3|CPPED1;nc|ENSG00000103381|Q9BRF8-2|CPPED1;ENSG00000103381|ENST00000381774|CPPED1 ENST00000539677.1_1_16:12874994-12897657:-|nuORF ENST00000539677.1_1_16:12874994-12897657:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.7949829101562 2 561.758746 1121.50294 3.6712 0.0020623 1.4093 0.00079168 5.0805 0.002854 561.7583744137385 39.367 0.24971 40.005 39.887 40.137 0.63778 12 8 2 0 0 0 0.10584 1 18040 18040 31.268 2.7815 1 228860 6514 1395 4229 4244 7263 7263 -0.052951440359720436 FPAEKESEW 9 Unmodified _FPAEKESEW_ 0 0 0 ENST00000539677.1_1_16:12874994-12897657:-|nuORF;nc|ENSG00000103381|Q9BRF8-3|CPPED1;nc|ENSG00000103381|Q9BRF8-2|CPPED1;ENSG00000103381|ENST00000381774|CPPED1 ENST00000539677.1_1_16:12874994-12897657:-|nuORF ENST00000539677.1_1_16:12874994-12897657:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 561.758746 1121.50294 3.6335 0.0020412 0.30654 0.0001722 3.9401 0.0022134 561.7597067109621 39.247 0.11116 39.885 39.806 39.917 0.63778 -0.1528 -5.3227E-05 NaN 20.415 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 146980 6515 1395 4229 4244 -0.052951440359720436 FPAESDKDAL 10 Unmodified _FPAESDKDAL_ 0 0 0 ENST00000548263.5_1_12:54105730-54106093:-|nuORF;nc|ENSG00000012822|Q9P1Z2-4|CALCOCO1;nc|ENSG00000012822|Q9P1Z2-3|CALCOCO1;ENSG00000012822|ENST00000550804|CALCOCO1 ENST00000548263.5_1_12:54105730-54106093:-|nuORF ENST00000548263.5_1_12:54105730-54106093:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.7636108398438 2 546.764029 1091.5135 NaN NaN NaN NaN NaN NaN NaN 35.598 1 35.854 35.354 36.354 0.25524 0 0 0 0.91843 1 16216 16216 18.373 1.2865 1 6516 425 4230 4245 7264 7264 -0.02859161381525155 FPAGPPSHSL 10 Unmodified _FPAGPPSHSL_ 0 0 0 ENSG00000141756|ENST00000321562|FKBP10 ENSG00000141756|ENST00000321562|FKBP10 ENSG00000141756|ENST00000321562|FKBP10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.2598876953125 2 505.258717 1008.50288 3.1083 0.0015705 0.063112 3.1888E-05 3.1714 0.0016024 505.25861401776694 39.66 0.61724 39.66 39.522 40.14 0 43 27 2 0 0 0 0.0012185 1 17997 17997 103.75 69.646 1 556920 6517 3285 4231 4246 7265 7265 -0.0010309924527973635 FPAGPPSHSL 10 Unmodified _FPAGPPSHSL_ 0 0 0 ENSG00000141756|ENST00000321562|FKBP10 ENSG00000141756|ENST00000321562|FKBP10 ENSG00000141756|ENST00000321562|FKBP10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.2596435546875 2 505.258717 1008.50288 3.107 0.0015698 -0.34864 -0.00017615 2.7584 0.0013937 505.2584111695949 38.591 0.7632 39.389 39.2 39.963 0.79762 80 36 3 0 0 0 0.019285 2 17476 17425;17476 78.149 51.266 1 334020 6518 3285 4231 4246 7266;7267 7267 -0.0010309924527973635 FPAGPPSHSL 10 Unmodified _FPAGPPSHSL_ 0 0 0 ENSG00000141756|ENST00000321562|FKBP10 ENSG00000141756|ENST00000321562|FKBP10 ENSG00000141756|ENST00000321562|FKBP10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.2601013183594 2 505.258717 1008.50288 3.2148 0.0016243 -0.12153 -6.1405E-05 3.0932 0.0015629 505.2585412710075 39.426 0.73755 39.693 39.431 40.168 0.26696 67 26 3 0 0 0 2.3844E-05 3 17931 17862;17931;17996 115.69 81.59 1 802640 6519 3285 4231 4246 7268;7269;7270 7269 -0.0010309924527973635 FPAGPPSHSL 10 Unmodified _FPAGPPSHSL_ 0 0 0 ENSG00000141756|ENST00000321562|FKBP10 ENSG00000141756|ENST00000321562|FKBP10 ENSG00000141756|ENST00000321562|FKBP10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.2601318359375 2 505.258717 1008.50288 3.312 0.0016734 -0.19906 -0.00010058 3.113 0.0015729 505.258358977222 39.027 0.64412 39.665 39.434 40.078 0.63778 45 23 2 0 0 0 0.00040807 2 17860 17805;17860 108 73.895 1 652500 6520 3285 4231 4246 7271;7272 7272 -0.0010309924527973635 FPAGYMYPSM 10 Unmodified _FPAGYMYPSM_ 0 0 0 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;ENST00000518010.5_1_8:134269105-134296554:-|nuORF;nc|ENSG00000104419|Q92597-3|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.7369384765625 2 582.248646 1162.48274 NaN NaN NaN NaN NaN NaN NaN 72.04 1 72.299 71.799 72.799 0.25876 0 0 0 0.77736 1 33061 33061 23.148 11.508 1 6521 1438 4232 4247 7273 7273 -0.09200354291783697 FPAHILDCL 9 Carbamidomethyl (C) _FPAHILDC(Carbamidomethyl (C))L_ FPAHILDC(1)L FPAHILDC(86)L 0 1 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF;nc|ENSG00000173821|Q63HN8-5|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.2778930664062 2 543.276052 1084.53755 2.5644 0.0013932 -0.46409 -0.00025213 2.1003 0.001141 543.2758480002468 69.686 0.27194 70.389 70.242 70.514 0.70302 57 28 3 0 0 0 0.0077156 2 33341 33341;33398 86.121 41.714 1 2857800 6522 4953 4233 4248 7274;7275 7274 84 -0.001335994288638176 FPAHILDCL 9 Carbamidomethyl (C) _FPAHILDC(Carbamidomethyl (C))L_ FPAHILDC(1)L FPAHILDC(120)L 0 1 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF;nc|ENSG00000173821|Q63HN8-5|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.2779541015625 2 543.276052 1084.53755 3.2746 0.001779 -0.15904 -8.6401E-05 3.1156 0.0016926 543.2762046035302 70.452 0.45012 70.708 70.487 70.937 0.25642 121 31 5 0 0 0 0.0012644 4 32241 32191;32241;32293;32343 123.1 59.533 1 56479000 6523 4953 4233 4248 7276;7277;7278;7279 7277 84 -0.001335994288638176 FPAHILDCL 9 Carbamidomethyl (C) _FPAHILDC(Carbamidomethyl (C))L_ FPAHILDC(1)L FPAHILDC(140)L 0 1 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF;nc|ENSG00000173821|Q63HN8-5|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.2781372070312 2 543.276052 1084.53755 3.0798 0.0016732 0.078082 4.242E-05 3.1579 0.0017156 543.2763569280646 69.981 0.41969 70.642 70.415 70.835 0.66071 115 28 5 0 0 0 3.8618E-05 4 32053 32005;32053;32095;32141 137.59 63.189 1 48994000 6524 4953 4233 4248 7280;7281;7282;7283 7281 84 -0.001335994288638176 FPALHFLAL 9 Unmodified _FPALHFLAL_ 0 0 0 ENSG00000113621|ENST00000358387|TXNDC15;nc|ENSG00000113621|Q96J42-2|TXNDC15;ENST00000506350.1_1_5:134223848-134231723:+|nuORF ENSG00000113621|ENST00000358387|TXNDC15 ENSG00000113621|ENST00000358387|TXNDC15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.8008422851562 2 514.80002 1027.58549 3.4001 0.0017503 -1.4115 -0.00072662 1.9886 0.0010237 514.7991255682759 35.297 0.48537 35.552 35.357 35.842 0.25524 38 18 3 0 0 0 0.37584 1 16101 16101 14.582 3.7578 1 372670 6525 1864 4234 4249 7284 7284 0.07279842553498383 FPALPIRIPVA 11 Unmodified _FPALPIRIPVA_ 0 0 0 ENST00000600406.1_2_19:49378777-49379227:+|nuORF ENST00000600406.1_2_19:49378777-49379227:+|nuORF ENST00000600406.1_2_19:49378777-49379227:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 398.5865478515625 3 398.585015 1192.73321 2.4643 0.00098222 0.75724 0.00030182 3.2215 0.001284 398.5854210515705 46.353 0.34666 46.353 46.132 46.479 0 46 18 3 0 0 0 0.89065 1 21200 21200 2.8433 1.101 1 3183000 6526 9295 4235 4250 7285 7285 0.14455734087505334 FPALPIRIPVA 11 Unmodified _FPALPIRIPVA_ 0 0 0 ENST00000600406.1_2_19:49378777-49379227:+|nuORF ENST00000600406.1_2_19:49378777-49379227:+|nuORF ENST00000600406.1_2_19:49378777-49379227:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.5863342285156 3 398.585015 1192.73321 2.5541 0.001018 0.79469 0.00031675 3.3488 0.0013348 398.5853288186339 44.895 0.61343 45.716 45.349 45.963 0.82075 58 30 2 0 0 0 0.89544 1 20420 20420 2.6312 0.72486 1 1692900 6527 9295 4235 4250 7286 7286 0.14455734087505334 FPANVMDVI 9 Unmodified _FPANVMDVI_ 0 0 0 ENST00000581230.5_1_17:62498125-62502378:-|nuORF;ENSG00000108654|ENST00000225792|DDX5 ENST00000581230.5_1_17:62498125-62502378:-|nuORF ENST00000581230.5_1_17:62498125-62502378:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.260009765625 2 503.257328 1004.5001 3.3459 0.0016839 -0.098587 -4.9615E-05 3.2473 0.0016342 503.2573816482277 85.999 0.50459 86.248 86.085 86.589 0.24857 61 25 3 0 0 0 0.0026885 4 39551 39551;39604;39657;39714 97.075 54.98 1 2413300 6528 1642 4236 4251 7287;7288;7289;7290 7287 -0.001966906944630864 FPANVMDVI 9 Unmodified _FPANVMDVI_ 0 0 0 ENST00000581230.5_1_17:62498125-62502378:-|nuORF;ENSG00000108654|ENST00000225792|DDX5 ENST00000581230.5_1_17:62498125-62502378:-|nuORF ENST00000581230.5_1_17:62498125-62502378:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.259765625 2 503.257328 1004.5001 3.3915 0.0017068 -0.4336 -0.00021821 2.9579 0.0014886 503.2572332824208 85.466 0.60585 86.132 85.884 86.489 0.66566 72 29 4 0 0 0 0.0026885 4 39339 39285;39339;39392;39455 97.075 54.98 1 2383100 6529 1642 4236 4251 7291;7292;7293;7294 7292 -0.001966906944630864 FPANVMDVI 9 Unmodified _FPANVMDVI_ 0 0 0 ENST00000581230.5_1_17:62498125-62502378:-|nuORF;ENSG00000108654|ENST00000225792|DDX5 ENST00000581230.5_1_17:62498125-62502378:-|nuORF ENST00000581230.5_1_17:62498125-62502378:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1005.5106201171875 1 1005.50738 1004.5001 3.799 0.0038199 -2.0259 -0.002037 1.7732 0.0017829 1005.5062117603713 85.474 0.37829 86.14 85.922 86.301 0.66566 25 17 2 0 0 0 0.086747 2 39395 39293;39395 36.044 22.536 1 612510 6530 1642 4236 4251 7295;7296 7296 -0.001966906944630864 FPASGPGVR 9 Unmodified _FPASGPGVR_ 0 0 0 ENST00000426882.5_1_6:30294318-30294846:-|nuORF ENST00000426882.5_1_6:30294318-30294846:-|nuORF ENST00000426882.5_1_6:30294318-30294846:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 444.2419738769531 2 444.240327 886.466101 2.8124 0.0012494 1.3733 0.00061008 4.1857 0.0018594 444.2407765102236 57.079 0.23259 57.343 57.254 57.487 0.26444 22 13 2 0 0 0 1.0041 1 26115 26115 3.9444 0 1 2747300 6531 7814 4237 4252 7297 7297 0.01832648928814251 FPASPWRCL 9 Unmodified _FPASPWRCL_ 0 0 0 ENST00000595881.1_1_19:50016525-50016885:+|nuORF ENST00000595881.1_1_19:50016525-50016885:+|nuORF ENST00000595881.1_1_19:50016525-50016885:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.7745361328125 2 538.770937 1075.52732 3.199 0.0017235 -1.3564 -0.00073078 1.8426 0.00099273 539.2706995399984 37.596 1.2802 37.857 37.252 38.532 0.26083 93 40 3 0 0 0 0.41574 4 17152 17152;17214;17223;17297 13.906 4.5229 1 575780 6532 9272 4238 4253 7298;7299;7300;7301 7298 -0.007421623634172647 FPASPWRCL 9 Unmodified _FPASPWRCL_ 0 0 0 ENST00000595881.1_1_19:50016525-50016885:+|nuORF ENST00000595881.1_1_19:50016525-50016885:+|nuORF ENST00000595881.1_1_19:50016525-50016885:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.7748413085938 2 538.770937 1075.52732 3.3265 0.0017922 -1.9 -0.0010236 1.4265 0.00076858 538.7724896343329 37.063 1.4684 37.693 36.917 38.385 0.62999 106 56 3 0 0 0 0.16976 8 16689 16689;16740;16786;16840;16937;16989;17101;17171 25.399 7.2643 1 400330 6533 9272 4238 4253 7302;7303;7304;7305;7306;7307;7308;7309 7302 -0.007421623634172647 FPAVRNRKRR 10 Unmodified _FPAVRNRKRR_ 0 0 0 REV__ENST00000513541.5_1_5:132334249-132334306:-|nuORF REV__ENST00000513541.5_1_5:132334249-132334306:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 433.93438720703125 3 433.933811 1298.7796 3.2369 0.0014046 -1.7666 -0.00076657 1.4704 0.00063804 433.9328788883974 91.58 0.6711 92.242 91.915 92.586 0.66198 35 32 2 0 0 0 0.93503 1 42206 42206 1.9064 0.83491 1 232280 + 6534 16993 4239 4254 7310 7310 0.1421661176214002 FPAYERVL 8 Unmodified _FPAYERVL_ 0 0 0 nc|ENSG00000119139|Q9UDY2-5|TJP2;nc|ENSG00000119139|Q9UDY2-4|TJP2;nc|ENSG00000119139|Q9UDY2-2|TJP2;nc|ENSG00000119139|Q9UDY2-6|TJP2;nc|ENSG00000119139|Q9UDY2-3|TJP2;ENSG00000119139|ENST00000377245|TJP2;nc|ENSG00000119139|Q9UDY2-7|TJP2 nc|ENSG00000119139|Q9UDY2-5|TJP2 nc|ENSG00000119139|Q9UDY2-5|TJP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.06884765625 2 497.77146 993.528367 NaN NaN NaN NaN NaN NaN NaN 53.631 1 53.631 53.131 54.131 0 0 0 0 0.79394 1 24581 24581 19.257 1.122 1 6535 2134 4240 4255 7311 7311 0.031343752771249456 FPAYERVVL 9 Unmodified _FPAYERVVL_ 0 0 0 nc|ENSG00000104067|Q07157-2|TJP1;nc|ENSG00000104067|Q07157|TJP1;ENSG00000104067|ENST00000614355|TJP1;ENST00000462916.1_1_15:30024631-30025027:-|nuORF nc|ENSG00000104067|Q07157-2|TJP1 nc|ENSG00000104067|Q07157-2|TJP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.3085327148438 2 547.305667 1092.59678 3.5782 0.0019584 0.5363 0.00029352 4.1145 0.0022519 547.3062348155428 60.798 0.54622 61.054 60.916 61.463 0.25578 41 25 2 0 0 0 0.028592 1 27829 27829 53.404 20.618 1 864770 6536 1423 4241 4256 7312 7312 0.05418619857005069 FPAYERVVL 9 Unmodified _FPAYERVVL_ 0 0 0 nc|ENSG00000104067|Q07157-2|TJP1;nc|ENSG00000104067|Q07157|TJP1;ENSG00000104067|ENST00000614355|TJP1;ENST00000462916.1_1_15:30024631-30025027:-|nuORF nc|ENSG00000104067|Q07157-2|TJP1 nc|ENSG00000104067|Q07157-2|TJP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.3095092773438 2 547.305667 1092.59678 3.555 0.0019457 0.56263 0.00030793 4.1177 0.0022536 547.3062577752265 60.245 0.46155 60.91 60.781 61.242 0.66503 39 24 2 0 0 0 0.028592 1 27559 27559 53.404 20.618 1 946560 6537 1423 4241 4256 7313 7313 0.05418619857005069 FPCCCSPRRL 10 Unmodified _FPCCCSPRRL_ 0 0 0 ENST00000556553.5_1_14:88851807-88857770:+|nuORF ENST00000556553.5_1_14:88851807-88857770:+|nuORF ENST00000556553.5_1_14:88851807-88857770:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.5188903808594 3 394.517401 1180.53037 NaN NaN NaN NaN NaN NaN NaN 38.912 1 38.912 38.412 39.412 0 0 0 0 1.0001 1 17661 17661 0.69767 0 1 6538 8927 4242 4257 7314 7314 -0.05266978572581138 FPCCCSPRRL 10 Unmodified _FPCCCSPRRL_ 0 0 0 ENST00000556553.5_1_14:88851807-88857770:+|nuORF ENST00000556553.5_1_14:88851807-88857770:+|nuORF ENST00000556553.5_1_14:88851807-88857770:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.5189514160156 3 394.517401 1180.53037 NaN NaN NaN NaN NaN NaN NaN 40.689 1 40.689 40.189 41.189 0 0 0 0 1.0001 1 18473 18473 0.69767 0.2894 1 6539 8927 4242 4257 7315 7315 -0.05266978572581138 FPCCCSPRRL 10 Unmodified _FPCCCSPRRL_ 0 0 0 ENST00000556553.5_1_14:88851807-88857770:+|nuORF ENST00000556553.5_1_14:88851807-88857770:+|nuORF ENST00000556553.5_1_14:88851807-88857770:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.5186767578125 3 394.517401 1180.53037 NaN NaN NaN NaN NaN NaN NaN 39.544 1 40.181 39.681 40.681 0.63778 0 0 0 1.0001 1 18072 18072 0.69767 0 1 6540 8927 4242 4257 7316 7316 -0.05266978572581138 FPCFDEPAF 9 Carbamidomethyl (C) _FPC(Carbamidomethyl (C))FDEPAF_ FPC(1)FDEPAF FPC(74)FDEPAF 0 1 0 ERAP1|p.P833Hfs*12|1|0.14|ENSG00000164307|chr5:96781150-96781150|A/-|frameshift_variant;ENSG00000164307|ENST00000443439|ERAP1;nc|ENSG00000164307|Q9NZ08-2|ERAP1;nc|ENSG00000113441|Q9UIQ6-3|LNPEP;nc|ENSG00000113441|Q9UIQ6-2|LNPEP;ENSG00000113441|ENST00000231368|LNPEP ERAP1|p.P833Hfs*12|1|0.14|ENSG00000164307|chr5:96781150-96781150|A/-|frameshift_variant;nc|ENSG00000113441|Q9UIQ6-3|LNPEP ERAP1|p.P833Hfs*12|1|0.14|ENSG00000164307|chr5:96781150-96781150|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 565.2381591796875 2 565.236593 1128.45863 3.4313 0.0019395 0.26504 0.00014981 3.6963 0.0020893 565.2366564627761 82.007 1.1473 82.254 81.559 82.707 0.24722 155 73 3 0 0 0 0.015487 6 37670 37571;37617;37670;37719;37758;37804 74.396 29.989 1 1367100 6541 4304;1854 4243 4258 7317;7318;7319;7320;7321;7322 7319 43 -0.10045871453803557 FPCFDEPAF 9 Carbamidomethyl (C) _FPC(Carbamidomethyl (C))FDEPAF_ FPC(1)FDEPAF FPC(78)FDEPAF 0 1 0 ERAP1|p.P833Hfs*12|1|0.14|ENSG00000164307|chr5:96781150-96781150|A/-|frameshift_variant;ENSG00000164307|ENST00000443439|ERAP1;nc|ENSG00000164307|Q9NZ08-2|ERAP1;nc|ENSG00000113441|Q9UIQ6-3|LNPEP;nc|ENSG00000113441|Q9UIQ6-2|LNPEP;ENSG00000113441|ENST00000231368|LNPEP ERAP1|p.P833Hfs*12|1|0.14|ENSG00000164307|chr5:96781150-96781150|A/-|frameshift_variant;nc|ENSG00000113441|Q9UIQ6-3|LNPEP ERAP1|p.P833Hfs*12|1|0.14|ENSG00000164307|chr5:96781150-96781150|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 565.2381591796875 2 565.236593 1128.45863 3.6676 0.002073 -0.22954 -0.00012974 3.438 0.0019433 565.2364110577798 81.284 1.145 81.944 81.378 82.523 0.65998 165 77 3 0 0 0 0.012533 8 37333 37272;37333;37384;37430;37476;37524;37591;37637 78.445 31.524 1 1269100 6542 4304;1854 4243 4258 7323;7324;7325;7326;7327;7328;7329;7330 7324 43 -0.10045871453803557 FPCGWEQAL 9 Carbamidomethyl (C) _FPC(Carbamidomethyl (C))GWEQAL_ FPC(1)GWEQAL FPC(48)GWEQAL 0 1 0 REV__ENSG00000123728|ENST00000370874|RAP2C REV__ENSG00000123728|ENST00000370874|RAP2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.2515258789062 2 554.250034 1106.48552 3.6023 0.0019966 -1.1145 -0.0006177 2.4878 0.0013789 554.2498104152027 57.435 0.71103 57.435 57.242 57.953 0 198 76 3 0 0 0 0.047285 1 26478 26478 48.346 8.3885 1 4247900 + 6543 11624 4244 4259 7331 7331 107 -0.06346762842599674 FPCGWEQAL 9 Carbamidomethyl (C) _FPC(Carbamidomethyl (C))GWEQAL_ FPC(1)GWEQAL FPC(48)GWEQAL 0 1 0 REV__ENSG00000123728|ENST00000370874|RAP2C REV__ENSG00000123728|ENST00000370874|RAP2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.2517700195312 2 554.250034 1106.48552 3.5796 0.001984 -1.0078 -0.00055856 2.5718 0.0014254 554.2498566993767 56.718 0.79958 57.386 57.1 57.899 0.66829 131 40 4 0 0 0 0.047285 1 25961 25961 48.346 10.372 1 6688400 + 6544 11624 4244 4259 7332 7332 107 -0.06346762842599674 FPCSLEHTF 9 Carbamidomethyl (C) _FPC(Carbamidomethyl (C))SLEHTF_ FPC(1)SLEHTF FPC(200)SLEHTF 0 1 0 ENSG00000167165|ENST00000305139|UGT1A6;nc|ENSG00000167165|P19224-3|UGT1A6;UGT1A6|p.R172G|1|0.26|ENSG00000167165|chr2:233693518-233693518|A/G|missense_variant ENSG00000167165|ENST00000305139|UGT1A6 ENSG00000167165|ENST00000305139|UGT1A6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.2577514648438 2 569.255317 1136.49608 3.6843 0.0020973 -0.24755 -0.00014092 3.4368 0.0019564 569.2552606119805 54.517 0.99296 54.517 54.145 55.138 0 245 97 3 0 0 0 2.7959000000000002E-30 8 25084 24881;24938;24986;25038;25084;25130;25176;25264 196.65 73.198 1 6317800 6545 4533 4245 4260 7333;7334;7335;7336;7337;7338;7339;7340 7337 78 -0.06670780188187564 FPCSLEHTF 9 Carbamidomethyl (C) _FPC(Carbamidomethyl (C))SLEHTF_ FPC(1)SLEHTF FPC(180)SLEHTF 0 1 0 ENSG00000167165|ENST00000305139|UGT1A6;nc|ENSG00000167165|P19224-3|UGT1A6;UGT1A6|p.R172G|1|0.26|ENSG00000167165|chr2:233693518-233693518|A/G|missense_variant ENSG00000167165|ENST00000305139|UGT1A6 ENSG00000167165|ENST00000305139|UGT1A6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.2576904296875 2 569.255317 1136.49608 3.349 0.0019064 -1.0838 -0.00061693 2.2653 0.0012895 569.2550470530817 53.259 0.9372 54.062 53.922 54.859 0.8035 174 71 4 0 0 0 4.452E-21 4 24372 24267;24325;24372;24418 180.01 68.723 1 6507100 6546 4533 4245 4260 7341;7342;7343;7344 7343 78 -0.06670780188187564 FPCSLEHTF 9 Carbamidomethyl (C) _FPC(Carbamidomethyl (C))SLEHTF_ FPC(1)SLEHTF FPC(160)SLEHTF 0 1 0 ENSG00000167165|ENST00000305139|UGT1A6;nc|ENSG00000167165|P19224-3|UGT1A6;UGT1A6|p.R172G|1|0.26|ENSG00000167165|chr2:233693518-233693518|A/G|missense_variant ENSG00000167165|ENST00000305139|UGT1A6 ENSG00000167165|ENST00000305139|UGT1A6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.2554931640625 2 569.255317 1136.49608 NaN NaN NaN NaN NaN NaN NaN 53.642 1 54.446 53.946 54.946 0.80351 0 0 0 1.9302E-23 1 24479 24479 156.16 63.664 1 6547 4533 4245 4260 7345 7345 78 -0.06670780188187564 FPCSLEHTF 9 Carbamidomethyl (C) _FPC(Carbamidomethyl (C))SLEHTF_ FPC(1)SLEHTF FPC(120)SLEHTF 0 1 0 ENSG00000167165|ENST00000305139|UGT1A6;nc|ENSG00000167165|P19224-3|UGT1A6;UGT1A6|p.R172G|1|0.26|ENSG00000167165|chr2:233693518-233693518|A/G|missense_variant ENSG00000167165|ENST00000305139|UGT1A6 ENSG00000167165|ENST00000305139|UGT1A6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.2581787109375 2 569.255317 1136.49608 NaN NaN NaN NaN NaN NaN NaN 53.785 1 54.588 54.088 55.088 0.80351 0 0 0 8.2664E-07 1 24544 24544 120.45 55.215 1 6548 4533 4245 4260 7346 7346 78 -0.06670780188187564 FPCSLEHTF 9 Carbamidomethyl (C) _FPC(Carbamidomethyl (C))SLEHTF_ FPC(1)SLEHTF FPC(71)SLEHTF 0 1 0 ENSG00000167165|ENST00000305139|UGT1A6;nc|ENSG00000167165|P19224-3|UGT1A6;UGT1A6|p.R172G|1|0.26|ENSG00000167165|chr2:233693518-233693518|A/G|missense_variant ENSG00000167165|ENST00000305139|UGT1A6 ENSG00000167165|ENST00000305139|UGT1A6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.2570190429688 2 569.255317 1136.49608 NaN NaN NaN NaN NaN NaN NaN 54.005 1 54.8 54.3 55.3 0.79552 0 0 0 0.021399 1 24642 24642 71.134 42.052 1 6549 4533 4245 4260 7347 7347 78 -0.06670780188187564 FPCSLEHTF 9 Carbamidomethyl (C) _FPC(Carbamidomethyl (C))SLEHTF_ FPC(1)SLEHTF FPC(180)SLEHTF 0 1 0 ENSG00000167165|ENST00000305139|UGT1A6;nc|ENSG00000167165|P19224-3|UGT1A6;UGT1A6|p.R172G|1|0.26|ENSG00000167165|chr2:233693518-233693518|A/G|missense_variant ENSG00000167165|ENST00000305139|UGT1A6 ENSG00000167165|ENST00000305139|UGT1A6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.2573852539062 2 569.255317 1136.49608 3.2929 0.0018745 -1.4753 -0.0008398 1.8176 0.0010347 569.2553134004168 54.495 1.6844 54.759 53.634 55.319 0.26462 207 97 5 0 0 0 4.452E-21 10 24900 24730;24737;24788;24845;24900;24960;25003;25045;25092;25146 180.01 68.723 1 6131400 6550 4533 4245 4260 7348;7349;7350;7351;7352;7353;7354;7355;7356;7357 7352 78 -0.06670780188187564 FPCSLEHTF 9 Carbamidomethyl (C) _FPC(Carbamidomethyl (C))SLEHTF_ FPC(1)SLEHTF FPC(180)SLEHTF 0 1 0 ENSG00000167165|ENST00000305139|UGT1A6;nc|ENSG00000167165|P19224-3|UGT1A6;UGT1A6|p.R172G|1|0.26|ENSG00000167165|chr2:233693518-233693518|A/G|missense_variant ENSG00000167165|ENST00000305139|UGT1A6 ENSG00000167165|ENST00000305139|UGT1A6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.2569580078125 2 569.255317 1136.49608 3.4623 0.0019709 -0.30552 -0.00017392 3.1568 0.001797 569.2552600370846 53.911 1.0558 54.578 54.049 55.105 0.6665 178 67 5 0 0 0 4.452E-21 8 24531 24481;24531;24581;24635;24678;24741;24793;24853 180.01 68.723 1 9792000 6551 4533 4245 4260 7358;7359;7360;7361;7362;7363;7364;7365 7359 78 -0.06670780188187564 FPDAREQEI 9 Unmodified _FPDAREQEI_ 0 0 0 nc|ENSG00000147140|Q15233-2|NONO;ENSG00000147140|ENST00000276079|NONO nc|ENSG00000147140|Q15233-2|NONO nc|ENSG00000147140|Q15233-2|NONO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.7720947265625 2 552.769645 1103.52474 3.6126 0.0019969 0.2501 0.00013825 3.8627 0.0021352 552.7697208652165 37.199 1.7357 37.199 36.712 38.447 0 184 68 3 0 0 0 0.00038954 11 16946 16712;16775;16834;16889;16946;17007;17065;17117;17170;17239;17338 133.05 78.279 1 2187100 6552 3549 4246 4261 7366;7367;7368;7369;7370;7371;7372;7373;7374;7375;7376 7370 -0.022883392873836783 FPDAREQEI 9 Unmodified _FPDAREQEI_ 0 0 0 nc|ENSG00000147140|Q15233-2|NONO;ENSG00000147140|ENST00000276079|NONO nc|ENSG00000147140|Q15233-2|NONO nc|ENSG00000147140|Q15233-2|NONO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.7719116210938 2 552.769645 1103.52474 3.3173 0.0018337 0.40278 0.00022264 3.7201 0.0020563 552.7698257677707 36.227 1.7731 37.02 36.587 38.36 0.79342 198 81 3 0 0 0 0.0012852 10 16361 16298;16361;16418;16474;16520;16569;16623;16682;16735;16836 121.53 75.513 1 1600200 6553 3549 4246 4261 7377;7378;7379;7380;7381;7382;7383;7384;7385;7386 7378 -0.022883392873836783 FPDAREQEI 9 Unmodified _FPDAREQEI_ 0 0 0 nc|ENSG00000147140|Q15233-2|NONO;ENSG00000147140|ENST00000276079|NONO nc|ENSG00000147140|Q15233-2|NONO nc|ENSG00000147140|Q15233-2|NONO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.771728515625 2 552.769645 1103.52474 3.6373 0.0020106 0.2659 0.00014698 3.9033 0.0021576 552.7697339386101 37.25 1.7271 37.511 36.899 38.626 0.26083 149 55 3 0 0 0 0.001731 10 16989 16801;16874;16936;16989;17044;17105;17205;17267;17335;17402 106.94 60.919 1 1246400 6554 3549 4246 4261 7387;7388;7389;7390;7391;7392;7393;7394;7395;7396 7390 -0.022883392873836783 FPDAREQEI 9 Unmodified _FPDAREQEI_ 0 0 0 nc|ENSG00000147140|Q15233-2|NONO;ENSG00000147140|ENST00000276079|NONO nc|ENSG00000147140|Q15233-2|NONO nc|ENSG00000147140|Q15233-2|NONO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.771728515625 2 552.769645 1103.52474 3.5688 0.0019727 0.35669 0.00019717 3.9255 0.0021699 552.7698100254114 36.666 1.7649 37.296 36.669 38.434 0.62999 187 66 3 0 0 0 0.0027913 11 16702 16585;16646;16702;16756;16811;16863;16920;16987;17084;17221;17287 96.367 50.346 1 978550 6555 3549 4246 4261 7397;7398;7399;7400;7401;7402;7403;7404;7405;7406;7407 7399 -0.022883392873836783 FPDATETDL 9 Unmodified _FPDATETDL_ 0 0 0 CON__Q3MHN5;CON__ENSEMBL:ENSBTAP00000018229 CON__Q3MHN5 CON__Q3MHN5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.732666015625 2 504.729655 1007.44476 NaN NaN NaN NaN NaN NaN NaN 18.398 1 18.699 18.199 19.199 0.30158 0 0 0 0.56337 1 8341 8341 16.942 2.3606 1 + 6556 209 4247 4262 7408 7408 -0.05866825681221144 FPDEDEIL 8 Unmodified _FPDEDEIL_ 0 0 0 ENSG00000125977|ENST00000374980|EIF2S2 ENSG00000125977|ENST00000374980|EIF2S2 ENSG00000125977|ENST00000374980|EIF2S2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.22723388671875 2 489.226748 976.438943 2.9532 0.0014448 -0.51275 -0.00025085 2.4405 0.001194 489.2265781067613 69.089 0.1234 69.748 69.706 69.829 0.65924 10 7 2 0 0 0 0.59268 1 31688 31688 14.582 2.0501 1 320550 6557 2438 4248 4263 7409 7409 -0.050219241928971314 FPDEFHLQTL 10 Unmodified _FPDEFHLQTL_ 0 0 0 ENSG00000069329|ENST00000299138|VPS35;ENST00000568784.6_1_16:46694386-46722246:-|nuORF;ENST00000568642.5_1_16:46706372-46712929:-|nuORF;ENST00000569950.1_1_16:46710493-46715410:-|nuORF ENSG00000069329|ENST00000299138|VPS35 ENSG00000069329|ENST00000299138|VPS35 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 623.8111572265625 2 623.808771 1245.60299 3.4137 0.0021295 -0.10817 -6.7476E-05 3.3056 0.002062 623.8088727988338 72.079 0.32021 72.338 72.181 72.501 0.25876 47 30 2 0 0 0 0.19222 1 33090 33090 40.239 26.333 1 754950 6558 749 4249 4264 7410 7410 -0.009989067021479059 FPDEFHLQTL 10 Unmodified _FPDEFHLQTL_ 0 0 0 ENSG00000069329|ENST00000299138|VPS35;ENST00000568784.6_1_16:46694386-46722246:-|nuORF;ENST00000568642.5_1_16:46706372-46712929:-|nuORF;ENST00000569950.1_1_16:46710493-46715410:-|nuORF ENSG00000069329|ENST00000299138|VPS35 ENSG00000069329|ENST00000299138|VPS35 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 623.8114624023438 2 623.808771 1245.60299 3.0662 0.0019127 0.48246 0.00030096 3.5486 0.0022137 624.3103890410079 71.766 0.38921 72.429 72.179 72.568 0.66324 40 24 3 0 0 0 0.019824 2 32857 32857;32903 73.196 49.176 1 984460 6559 749 4249 4264 7411;7412 7411 -0.009989067021479059 FPDEKIPTL 9 Unmodified _FPDEKIPTL_ 0 0 0 ENSG00000006007|ENST00000353258|GDE1 ENSG00000006007|ENST00000353258|GDE1 ENSG00000006007|ENST00000353258|GDE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.2921752929688 2 530.289682 1058.56481 3.1895 0.0016914 0.46496 0.00024656 3.6545 0.0019379 530.2897705826483 61.333 0.76222 61.585 61.056 61.818 0.25245 52 34 2 0 0 0 0.021401 2 28084 28084;28147 66.457 32.055 1 689770 6560 338 4250 4265 7413;7414 7413 0.037872073831977104 FPDEKIPTL 9 Unmodified _FPDEKIPTL_ 0 0 0 ENSG00000006007|ENST00000353258|GDE1 ENSG00000006007|ENST00000353258|GDE1 ENSG00000006007|ENST00000353258|GDE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.290771484375 2 530.289682 1058.56481 NaN NaN NaN NaN NaN NaN NaN 61.587 1 61.839 61.339 62.339 0.25245 0 0 0 0.056457 1 28204 28204 51.63 21.405 1 6561 338 4250 4265 7415 7415 0.037872073831977104 FPDEKIPTL 9 Unmodified _FPDEKIPTL_ 0 0 0 ENSG00000006007|ENST00000353258|GDE1 ENSG00000006007|ENST00000353258|GDE1 ENSG00000006007|ENST00000353258|GDE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.2919921875 2 530.289682 1058.56481 3.2531 0.0017251 0.15045 7.9783E-05 3.4036 0.0018049 530.2898116735106 60.742 1.0654 61.405 60.858 61.923 0.66261 75 50 2 0 0 0 0.018453 4 27867 27771;27867;27925;28017 70.332 37.581 1 764900 6562 338 4250 4265 7416;7417;7418;7419 7417 0.037872073831977104 FPDGDQEL 8 Unmodified _FPDGDQEL_ 0 0 0 nc|ENSG00000100461|Q86U06-4|RBM23;nc|ENSG00000100461|Q86U06-5|RBM23;nc|ENSG00000100461|Q86U06-2|RBM23;ENSG00000100461|ENST00000359890|RBM23 nc|ENSG00000100461|Q86U06-4|RBM23 nc|ENSG00000100461|Q86U06-4|RBM23 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 460.7053527832031 2 460.70344 919.392327 NaN NaN NaN NaN NaN NaN NaN 48.461 1 48.461 47.961 48.961 0 0 0 0 0.30079 1 22193 22193 36.044 5.8194 1 6563 1222 4251 4266 7420 7420 -0.07059364024178194 FPDGLAHSDLM 11 Unmodified _FPDGLAHSDLM_ 0 0 0 ENST00000531483.1_1_8:38124719-38125149:-|nuORF;ENST00000527793.1_1_8:38124719-38126401:-|nuORF;nc|ENSG00000147535|Q8NEB5-4|PLPP5;nc|ENSG00000147535|Q8NEB5-2|PLPP5;nc|ENSG00000147535|Q8NEB5-3|PLPP5;ENSG00000147535|ENST00000424479|PLPP5 ENST00000531483.1_1_8:38124719-38125149:-|nuORF ENST00000531483.1_1_8:38124719-38125149:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 601.78125 2 601.779156 1201.54376 NaN NaN NaN NaN NaN NaN NaN 60.207 1 60.463 59.963 60.963 0.25578 0 0 0 0.94174 1 27569 27569 12.241 1.1262 1 6564 3570 4252 4267 7421 7421 -0.04895125987991378 FPDGVDVRV 9 Unmodified _FPDGVDVRV_ 0 0 0 ENST00000565460.1_1_16:68288822-68288945:+|nuORF;ENST00000413021.2_2_16:68279208-68293154:+|nuORF;ENSG00000103066|ENST00000219345|PLA2G15 ENST00000565460.1_1_16:68288822-68288945:+|nuORF ENST00000565460.1_1_16:68288822-68288945:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 502.2671813964844 2 502.263999 1002.51345 2.805 0.0014089 0.52681 0.0002646 3.3318 0.0016735 502.2643718830464 53.656 0.72649 54.46 54.427 55.154 0.80351 54 39 2 0 0 0 0.17594 1 24522 24522 24.991 10.153 1 728710 6565 1373 4253 4268 7422 7422 0.012288834091350509 FPDKVAIQL 9 Unmodified _FPDKVAIQL_ 0 0 0 nc|ENSG00000068976|P11217-2|PYGM;ENSG00000068976|ENST00000164139|PYGM;ENSG00000100994|ENST00000216962|PYGB nc|ENSG00000068976|P11217-2|PYGM;ENSG00000100994|ENST00000216962|PYGB nc|ENSG00000068976|P11217-2|PYGM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.8026123046875 2 515.800217 1029.58588 2.8065 0.0014476 -0.81528 -0.00042052 1.9913 0.0010271 515.7997561806651 63.24 0.25495 63.962 63.739 63.994 0.72236 45 28 2 0 0 0 0.035495 1 29567 29567 53.404 11.448 1 4615000 6566 743;1256 4254 4269 7423 7423 0.07227217482704873 FPDKVAIQL 9 Unmodified _FPDKVAIQL_ 0 0 0 nc|ENSG00000068976|P11217-2|PYGM;ENSG00000068976|ENST00000164139|PYGM;ENSG00000100994|ENST00000216962|PYGB nc|ENSG00000068976|P11217-2|PYGM;ENSG00000100994|ENST00000216962|PYGB nc|ENSG00000068976|P11217-2|PYGM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.8016967773438 2 515.800217 1029.58588 3.29 0.001697 -0.056667 -2.9229E-05 3.2333 0.0016677 515.8001122862273 63.903 0.86974 64.151 63.849 64.719 0.24803 136 53 3 0 0 0 0.0023958 7 29337 29184;29234;29286;29337;29381;29427;29469 100.09 34.617 1 4084600 6567 743;1256 4254 4269 7424;7425;7426;7427;7428;7429;7430 7427 0.07227217482704873 FPDKVAIQL 9 Unmodified _FPDKVAIQL_ 0 0 0 nc|ENSG00000068976|P11217-2|PYGM;ENSG00000068976|ENST00000164139|PYGM;ENSG00000100994|ENST00000216962|PYGB nc|ENSG00000068976|P11217-2|PYGM;ENSG00000100994|ENST00000216962|PYGB nc|ENSG00000068976|P11217-2|PYGM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.8014526367188 2 515.800217 1029.58588 3.3826 0.0017448 -0.19356 -9.9836E-05 3.1891 0.0016449 515.8000196204489 63.357 0.93308 64.015 63.709 64.642 0.65809 152 61 3 0 0 0 0.0076144 8 29114 28925;28973;29025;29070;29114;29165;29220;29269 86.332 23.759 1 2858900 6568 743;1256 4254 4269 7431;7432;7433;7434;7435;7436;7437;7438 7435 0.07227217482704873 FPDLFSEQL 9 Unmodified _FPDLFSEQL_ 0 0 0 ENSG00000198911|ENST00000361204|SREBF2;nc|ENSG00000198911|Q12772-2|SREBF2 ENSG00000198911|ENST00000361204|SREBF2 ENSG00000198911|ENST00000361204|SREBF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.2733154296875 2 548.27149 1094.52843 4.018 0.002203 0.12797 7.0163E-05 4.146 0.0022731 548.2714909565447 91.278 0.46181 91.529 91.272 91.734 0.25163 37 19 3 0 0 0 0.017868 2 42007 41950;42007 71.134 31.176 1 1309700 6569 5961 4255 4270 7439;7440 7440 -0.015056695135399423 FPDLFSEQL 9 Unmodified _FPDLFSEQL_ 0 0 0 ENSG00000198911|ENST00000361204|SREBF2;nc|ENSG00000198911|Q12772-2|SREBF2 ENSG00000198911|ENST00000361204|SREBF2 ENSG00000198911|ENST00000361204|SREBF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.2717895507812 2 548.27149 1094.52843 3.7091 0.0020336 -0.47714 -0.0002616 3.232 0.001772 548.2709456218213 90.64 0.44476 91.312 91.146 91.591 0.67271 62 25 3 0 0 0 0.025323 2 41704 41704;41754 61.357 21.4 1 1084500 6570 5961 4255 4270 7441;7442 7441 -0.015056695135399423 FPDNFVKEI 9 Unmodified _FPDNFVKEI_ 0 0 0 ENSG00000198087|ENST00000359314|CD2AP ENSG00000198087|ENST00000359314|CD2AP ENSG00000198087|ENST00000359314|CD2AP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.5132446289062 2 554.787307 1107.56006 NaN NaN NaN NaN NaN NaN NaN 63.985 1 64.233 63.733 64.733 0.24803 0 0 0 0.29408 1 29305 29305 27.223 14.692 1 6571 5866 4256 4271 7443 7443 0.010583232404314913 FPDPEKPCKM 10 Carbamidomethyl (C) _FPDPEKPC(Carbamidomethyl (C))KM_ FPDPEKPC(1)KM FPDPEKPC(59)KM 0 1 0 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 416.86468505859375 3 416.863232 1247.56787 3.0053 0.0012528 -0.58531 -0.000244 2.42 0.0010088 416.86318624421796 30.269 0.80752 30.269 29.726 30.533 0 169 58 4 0 0 0 0.063736 5 13693 13547;13598;13649;13693;13743 59.013 52.389 1 2012200 6572 5884 4257 4272 7444;7445;7446;7447;7448 7447 96 -0.04601608825987569 FPDPEKPCKM 10 Carbamidomethyl (C) _FPDPEKPC(Carbamidomethyl (C))KM_ FPDPEKPC(1)KM FPDPEKPC(53)KM 0 1 0 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 416.86431884765625 3 416.863232 1247.56787 2.8074 0.0011703 -0.5473 -0.00022815 2.2601 0.00094216 416.8631357033999 29.402 0.94886 30.191 29.372 30.321 0.78921 224 77 4 0 0 0 0.094408 4 13276 13134;13180;13229;13276 53.47 46.846 1 1970300 6573 5884 4257 4272 7449;7450;7451;7452 7452 96 -0.04601608825987569 FPDPEKPCKM 10 Carbamidomethyl (C) _FPDPEKPC(Carbamidomethyl (C))KM_ FPDPEKPC(1)KM FPDPEKPC(42)KM 0 1 0 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 624.7941284179688 2 624.791209 1247.56787 3.5318 0.0022067 0.31444 0.00019646 3.8463 0.0024031 624.7913731988785 29.387 0.56318 30.176 29.683 30.247 0.78921 71 42 2 0 0 0 0.17471 1 13211 13211 42.312 25.2 1 557010 6574 5884 4257 4272 7453 7453 96 -0.04601608825987569 FPDPEKPCKM 10 Carbamidomethyl (C) _FPDPEKPC(Carbamidomethyl (C))KM_ FPDPEKPC(1)KM FPDPEKPC(75)KM 0 1 0 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 416.86444091796875 3 416.863232 1247.56787 3.1642 0.0013191 -0.54833 -0.00022858 2.6159 0.0010905 416.86318592819674 29.908 1.1866 30.166 29.331 30.518 0.25804 304 93 4 0 0 0 0.019652 7 13688 13423;13469;13513;13559;13604;13643;13688 74.772 59.033 1 3049200 6575 5884 4257 4272 7454;7455;7456;7457;7458;7459;7460 7460 96 -0.04601608825987569 FPDPEKPCKM 10 Carbamidomethyl (C) _FPDPEKPC(Carbamidomethyl (C))KM_ FPDPEKPC(1)KM FPDPEKPC(48)KM 0 1 0 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 625.2954711914062 2 624.791209 1247.56787 3.9044 0.0024395 0.24748 0.00015462 4.1519 0.0025941 624.7912769842376 29.983 0.72862 30.241 29.613 30.341 0.25804 85 59 2 0 0 0 0.13557 4 13620 13562;13620;13658;13668 47.732 32.151 1 726440 6576 5884 4257 4272 7461;7462;7463;7464 7462 96 -0.04601608825987569 FPDPEKPCKM 10 Carbamidomethyl (C) _FPDPEKPC(Carbamidomethyl (C))KM_ FPDPEKPC(1)KM FPDPEKPC(63)KM 0 1 0 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 624.792724609375 2 624.791209 1247.56787 3.7503 0.0023432 -0.23042 -0.00014396 3.5199 0.0021992 624.7912545751036 29.808 0.77037 30.426 29.744 30.515 0.61789 125 52 3 0 0 0 0.047717 5 13627 13395;13479;13527;13579;13627 62.869 45.756 1 871690 6577 5884 4257 4272 7465;7466;7467;7468;7469 7469 96 -0.04601608825987569 FPDPEKPCKM 10 Carbamidomethyl (C) _FPDPEKPC(Carbamidomethyl (C))KM_ FPDPEKPC(1)KM FPDPEKPC(61)KM 0 1 0 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 416.8644104003906 3 416.863232 1247.56787 2.998 0.0012498 -0.53584 -0.00022337 2.4622 0.0010264 416.8632019729592 29.768 1.0093 30.386 29.557 30.567 0.61789 227 71 4 0 0 0 0.055899 5 13656 13464;13514;13560;13604;13656 60.899 52.455 1 2188200 6578 5884 4257 4272 7470;7471;7472;7473;7474 7474 96 -0.04601608825987569 FPDPEKPCKMC 11 Oxidation (M) _FPDPEKPCKM(Oxidation (M))C_ FPDPEKPCKM(1)C FPDPEKPCKM(54)C 0 0 1 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.5256652832031 3 437.52411 1309.5505 3.0438 0.0013317 -1.0391 -0.00045464 2.0047 0.00087708 437.52397063304016 26.839 0.82495 26.839 26.424 27.249 0 202 60 5 0 0 0 0.037307 2 12092 12092;12146 53.798 37.289 1 2295300 6579 5884 4258 4273 7475;7476 7475 78 -0.09189272423282091 FPDPEKPCKMC 11 Oxidation (M) _FPDPEKPCKM(Oxidation (M))C_ FPDPEKPCKM(1)C FPDPEKPCKM(68)C 0 0 1 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.5252380371094 3 437.52411 1309.5505 2.6638 0.0011655 -0.70156 -0.00030695 1.9623 0.00085854 437.52409084158137 25.876 1.0522 26.639 25.968 27.02 0.76357 252 77 4 0 0 0 0.0055327 3 11597 11550;11597;11644 68.484 47.613 1 2035400 6580 5884 4258 4273 7477;7478;7479 7478 78 -0.09189272423282091 FPDPEKPCKMC 11 Oxidation (M) _FPDPEKPCKM(Oxidation (M))C_ FPDPEKPCKM(1)C FPDPEKPCKM(41)C 0 0 1 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.5255432128906 3 437.52411 1309.5505 2.8824 0.0012611 -0.78072 -0.00034158 2.1017 0.00091955 437.5240576656278 26.651 1.1867 26.916 26.198 27.385 0.26489 287 91 4 0 0 0 0.10903 1 12210 12210 40.714 23.272 1 1832900 6581 5884 4258 4273 7480 7480 78 -0.09189272423282091 FPDPEKPCKMC 11 Oxidation (M) _FPDPEKPCKM(Oxidation (M))C_ FPDPEKPCKM(1)C FPDPEKPCKM(47)C 0 0 1 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 ENSG00000198356|ENST00000357332|GET3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.525390625 3 437.52411 1309.5505 2.9725 0.0013006 -0.88695 -0.00038806 2.0856 0.0009125 437.52406939657595 26.356 1.0138 26.981 26.357 27.371 0.62505 239 71 5 0 0 0 0.074257 1 12103 12103 47.053 37.289 1 2015600 6582 5884 4258 4273 7481 7481 78 -0.09189272423282091 FPDPNVKYVF 10 Unmodified _FPDPNVKYVF_ 0 0 0 ENST00000529476.1_1_1:161011414-161013065:-|nuORF;USF1|p.G130Vfs*33|1|0.21|ENSG00000158773|chr1:161041734-161041734|C/-|frameshift_variant;ENST00000491629.5_1_1:161011414-161013065:-|nuORF;ENSG00000158773|ENST00000368021|USF1 ENST00000529476.1_1_1:161011414-161013065:-|nuORF ENST00000529476.1_1_1:161011414-161013065:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.3179321289062 2 613.316232 1224.61791 3.794 0.0023269 0.068252 4.186E-05 3.8623 0.0023688 613.3160741973725 67.429 0.90548 67.679 67.324 68.23 0.2501 114 53 3 0 0 0 0.020838 4 30835 30781;30835;30882;30994 69.338 37.033 1 858790 6583 4000 4259 4274 7482;7483;7484;7485 7483 0.014585851658239335 FPDPNVKYVF 10 Unmodified _FPDPNVKYVF_ 0 0 0 ENST00000529476.1_1_1:161011414-161013065:-|nuORF;USF1|p.G130Vfs*33|1|0.21|ENSG00000158773|chr1:161041734-161041734|C/-|frameshift_variant;ENST00000491629.5_1_1:161011414-161013065:-|nuORF;ENSG00000158773|ENST00000368021|USF1 ENST00000529476.1_1_1:161011414-161013065:-|nuORF ENST00000529476.1_1_1:161011414-161013065:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 613.3171997070312 2 613.316232 1224.61791 3.5496 0.002177 -0.2675 -0.00016406 3.2821 0.002013 613.3160038949688 66.812 1.1474 67.468 67.055 68.203 0.65672 119 67 2 0 0 0 0.016901 8 30589 30495;30512;30540;30589;30653;30730;30777;30832 84.522 44.572 1 722290 6584 4000 4259 4274 7486;7487;7488;7489;7490;7491;7492;7493 7489 0.014585851658239335 FPDQNFEVM 9 Unmodified _FPDQNFEVM_ 0 0 0 nc|ENSG00000076108|Q9UIF9-3|BAZ2A;ENSG00000076108|ENST00000549884|BAZ2A;nc|ENSG00000076108|Q9UIF9|BAZ2A nc|ENSG00000076108|Q9UIF9-3|BAZ2A nc|ENSG00000076108|Q9UIF9-3|BAZ2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.8560180664062 2 563.747324 1125.4801 NaN NaN NaN NaN NaN NaN NaN 70.661 1 70.917 70.417 71.417 0.25642 0 0 0 0.87786 1 32361 32361 6.7232 0 1 6585 842 4260 4275 7494 7494 -0.07762486425076531 FPDQVAIQL 9 Unmodified _FPDQVAIQL_ 0 0 0 ENSG00000100504|ENST00000216392|PYGL;nc|ENSG00000100504|P06737-2|PYGL ENSG00000100504|ENST00000216392|PYGL ENSG00000100504|ENST00000216392|PYGL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.7843017578125 2 515.782025 1029.5495 3.2284 0.0016651 0.60396 0.00031151 3.8323 0.0019766 515.7824643267056 77.316 0.539 77.979 77.76 78.299 0.66303 62 39 2 0 0 0 0.15661 2 35594 35594;35702 26.268 4.5215 1 923060 6586 1225 4261 4276 7495;7496 7495 0.035903405860153725 FPDREENAV 9 Unmodified _FPDREENAV_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242174673-242189369:-|nuORF;ENST00000483086.1_1_2:242174984-242179130:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.755615234375 2 538.753995 1075.49344 3.3461 0.0018027 0.38484 0.00020734 3.7309 0.00201 538.7541175865714 26.876 0.53868 26.876 26.795 27.334 0 46 34 2 0 0 0 0.099775 3 12156 12156;12168;12207 32.786 13.529 1 258630 6587 1983 4262 4277 7497;7498;7499 7497 -0.041289123214710344 FPDREENAV 9 Unmodified _FPDREENAV_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242174673-242189369:-|nuORF;ENST00000483086.1_1_2:242174984-242179130:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.7570190429688 2 538.753995 1075.49344 NaN NaN NaN NaN NaN NaN NaN 26.57 1 26.57 26.07 27.07 0 0 0 0 0.31736 1 11964 11964 26.268 9.3258 1 6588 1983 4262 4277 7500 7500 -0.041289123214710344 FPDREENAV 9 Unmodified _FPDREENAV_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242174673-242189369:-|nuORF;ENST00000483086.1_1_2:242174984-242179130:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.7555541992188 2 538.753995 1075.49344 NaN NaN NaN NaN NaN NaN NaN 25.43 1 26.194 25.694 26.694 0.76356 0 0 0 0.31736 1 11414 11414 26.268 12.362 1 6589 1983 4262 4277 7501 7501 -0.041289123214710344 FPDREENAV 9 Unmodified _FPDREENAV_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242174673-242189369:-|nuORF;ENST00000483086.1_1_2:242174984-242179130:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.7565307617188 2 538.753995 1075.49344 NaN NaN NaN NaN NaN NaN NaN 25.683 1 26.447 25.947 26.947 0.76356 0 0 0 0.31736 1 11530 11530 26.268 12.362 1 6590 1983 4262 4277 7502 7502 -0.041289123214710344 FPDREENAV 9 Unmodified _FPDREENAV_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242174673-242189369:-|nuORF;ENST00000483086.1_1_2:242174984-242179130:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.75634765625 2 538.753995 1075.49344 NaN NaN NaN NaN NaN NaN NaN 26.132 1 26.895 26.395 27.395 0.76356 0 0 0 0.6155 1 11733 11733 15.248 1.3424 1 6591 1983 4262 4277 7503 7503 -0.041289123214710344 FPDREENAV 9 Unmodified _FPDREENAV_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242174673-242189369:-|nuORF;ENST00000483086.1_1_2:242174984-242179130:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.75732421875 2 538.753995 1075.49344 NaN NaN NaN NaN NaN NaN NaN 26.336 1 27.115 26.615 27.615 0.7787 0 0 0 0.6155 1 11828 11828 15.248 1.3424 1 6592 1983 4262 4277 7504 7504 -0.041289123214710344 FPDREENAV 9 Unmodified _FPDREENAV_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242174673-242189369:-|nuORF;ENST00000483086.1_1_2:242174984-242179130:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.75537109375 2 538.753995 1075.49344 NaN NaN NaN NaN NaN NaN NaN 25.962 1 26.23 25.73 26.73 0.26777 0 0 0 0.70806 1 11790 11790 12.241 1.4167 1 6593 1983 4262 4277 7505 7505 -0.041289123214710344 FPDREENAV 9 Unmodified _FPDREENAV_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242174673-242189369:-|nuORF;ENST00000483086.1_1_2:242174984-242179130:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.759033203125 2 538.753995 1075.49344 NaN NaN NaN NaN NaN NaN NaN 26.439 1 26.704 26.204 27.204 0.26489 0 0 0 0.24879 1 12013 12013 29.082 9.8246 1 6594 1983 4262 4277 7506 7506 -0.041289123214710344 FPDREENAV 9 Unmodified _FPDREENAV_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242174673-242189369:-|nuORF;ENST00000483086.1_1_2:242174984-242179130:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.7584838867188 2 538.753995 1075.49344 NaN NaN NaN NaN NaN NaN NaN 26.488 1 26.753 26.253 27.253 0.26489 0 0 0 0.31736 1 12035 12035 26.268 12.362 1 6595 1983 4262 4277 7507 7507 -0.041289123214710344 FPDREENAV 9 Unmodified _FPDREENAV_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242174673-242189369:-|nuORF;ENST00000483086.1_1_2:242174984-242179130:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.75634765625 2 538.753995 1075.49344 NaN NaN NaN NaN NaN NaN NaN 26.585 1 26.85 26.35 27.35 0.26489 0 0 0 0.55812 1 12080 12080 17.113 3.2068 1 6596 1983 4262 4277 7508 7508 -0.041289123214710344 FPDREENAV 9 Unmodified _FPDREENAV_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242174673-242189369:-|nuORF;ENST00000483086.1_1_2:242174984-242179130:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.7571411132812 2 538.753995 1075.49344 NaN NaN NaN NaN NaN NaN NaN 26.703 1 26.968 26.468 27.468 0.26489 0 0 0 0.75242 1 12134 12134 10.8 1.4164 1 6597 1983 4262 4277 7509 7509 -0.041289123214710344 FPDREENAV 9 Unmodified _FPDREENAV_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242174673-242189369:-|nuORF;ENST00000483086.1_1_2:242174984-242179130:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.7592163085938 2 538.753995 1075.49344 NaN NaN NaN NaN NaN NaN NaN 25.616 1 26.241 25.741 26.741 0.62505 0 0 0 0.796 1 11742 11742 9.3831 0 1 6598 1983 4262 4277 7510 7510 -0.041289123214710344 FPDREENAV 9 Unmodified _FPDREENAV_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242174673-242189369:-|nuORF;ENST00000483086.1_1_2:242174984-242179130:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.7553100585938 2 538.753995 1075.49344 NaN NaN NaN NaN NaN NaN NaN 26.534 1 27.159 26.659 27.659 0.62505 0 0 0 0.46004 1 12164 12164 20.415 6.5085 1 6599 1983 4262 4277 7511 7511 -0.041289123214710344 FPDRIMNTF 9 Unmodified _FPDRIMNTF_ 0 0 0 ENSG00000104833|ENST00000264071|TUBB4A ENSG00000104833|ENST00000264071|TUBB4A ENSG00000104833|ENST00000264071|TUBB4A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.910888671875 2 570.778959 1139.54336 NaN NaN NaN NaN NaN NaN NaN 62.643 1 62.643 62.143 63.143 0 0 0 0 0.00011206 1 29374 29374 107.1 39.019 1 6600 1452 4263 4278 7512 7512 -0.020825009171858255 FPDRIMNTF 9 Unmodified _FPDRIMNTF_ 0 0 0 ENSG00000104833|ENST00000264071|TUBB4A ENSG00000104833|ENST00000264071|TUBB4A ENSG00000104833|ENST00000264071|TUBB4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 570.7813720703125 2 570.778959 1139.54336 3.3636 0.0019199 -0.36495 -0.00020831 2.9986 0.0017116 570.7788108698843 62.636 0.35546 62.885 62.813 63.169 0.24965 80 39 3 0 0 0 0.0010698 2 28646 28646;28691 125.53 77.183 1 4348700 6601 1452 4263 4278 7513;7514 7513 -0.020825009171858255 FPDRIMNTF 9 Unmodified _FPDRIMNTF_ 0 0 0 ENSG00000104833|ENST00000264071|TUBB4A ENSG00000104833|ENST00000264071|TUBB4A ENSG00000104833|ENST00000264071|TUBB4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.781005859375 2 570.778959 1139.54336 3.4724 0.001982 -0.44299 -0.00025285 3.0294 0.0017291 570.7786222544022 62.023 0.41508 62.683 62.597 63.012 0.66008 70 48 2 0 0 0 0.0013355 3 28432 28390;28432;28481 117.76 69.415 1 6869900 6602 1452 4263 4278 7515;7516;7517 7516 -0.020825009171858255 FPDRIMNTF 9 Unmodified _FPDRIMNTF_ 0 0 0 ENSG00000104833|ENST00000264071|TUBB4A ENSG00000104833|ENST00000264071|TUBB4A ENSG00000104833|ENST00000264071|TUBB4A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 570.778959 1139.54336 3.0987 0.0017687 -0.7293 -0.00041627 2.3694 0.0013524 571.2799576201049 62.758 0.12541 62.758 62.651 62.777 0 -0.017231 -0.00035 NaN 125.53 22 12 2 NaN NaN NaN NaN 0 NaN NaN 0 9043600 6603 1452 4263 4278 -0.020825009171858255 FPDRIMNTF 9 Oxidation (M) _FPDRIM(Oxidation (M))NTF_ FPDRIM(1)NTF FPDRIM(42)NTF 0 0 1 ENSG00000104833|ENST00000264071|TUBB4A ENSG00000104833|ENST00000264071|TUBB4A ENSG00000104833|ENST00000264071|TUBB4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.7777709960938 2 578.776416 1155.53828 3.2452 0.0018782 0.70351 0.00040718 3.9487 0.0022854 578.776799950179 50.856 0.61709 51.117 50.852 51.469 0.26146 42 27 2 0 0 0 0.063112 1 23279 23279 41.956 16.556 1 409840 6604 1452 4263 4279 7518 7518 14 -0.03326804779817394 FPDRIMNTF 9 Oxidation (M) _FPDRIM(Oxidation (M))NTF_ FPDRIM(1)NTF FPDRIM(50)NTF 0 0 1 ENSG00000104833|ENST00000264071|TUBB4A ENSG00000104833|ENST00000264071|TUBB4A ENSG00000104833|ENST00000264071|TUBB4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.7783203125 2 578.776416 1155.53828 3.5934 0.0020798 0.05817 3.3668E-05 3.6516 0.0021135 578.7765522859644 50.268 0.60612 50.926 50.532 51.139 0.65735 43 24 2 0 0 0 0.044468 1 22993 22993 49.554 17.249 1 504050 6605 1452 4263 4279 7519 7519 14 -0.03326804779817394 FPDRIMNTF 9 Oxidation (M) _FPDRIM(Oxidation (M))NTF_ 0 0 1 ENSG00000104833|ENST00000264071|TUBB4A ENSG00000104833|ENST00000264071|TUBB4A ENSG00000104833|ENST00000264071|TUBB4A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 578.776416 1155.53828 3.9088 0.0022623 -0.17882 -0.0001035 3.73 0.0021588 578.7763317349809 50.973 0.25143 50.973 50.879 51.131 0 -0.032363 -0.00059545 NaN 49.554 16 12 2 NaN NaN NaN NaN 0 NaN NaN 0 452890 6606 1452 4263 4279 14 -0.03326804779817394 FPDSGHFNV 9 Unmodified _FPDSGHFNV_ 0 0 0 nc|ENSG00000156261|P50990-3|CCT8;nc|ENSG00000156261|P50990-2|CCT8;ENSG00000156261|ENST00000286788|CCT8 nc|ENSG00000156261|P50990-3|CCT8 nc|ENSG00000156261|P50990-3|CCT8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.23388671875 2 510.232699 1018.45084 NaN NaN NaN NaN NaN NaN NaN 48.167 1 48.167 47.667 48.667 0 0 0 0 0.13912 1 22057 22057 34.402 13.948 1 6607 3903 4264 4280 7520 7520 -0.05764262659045016 FPDSGHFNV 9 Unmodified _FPDSGHFNV_ 0 0 0 nc|ENSG00000156261|P50990-3|CCT8;nc|ENSG00000156261|P50990-2|CCT8;ENSG00000156261|ENST00000286788|CCT8 nc|ENSG00000156261|P50990-3|CCT8 nc|ENSG00000156261|P50990-3|CCT8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.2336120605469 2 510.232699 1018.45084 NaN NaN NaN NaN NaN NaN NaN 47.521 1 48.175 47.675 48.675 0.65356 0 0 0 0.81563 1 21756 21756 8.7454 2.0222 1 6608 3903 4264 4280 7521 7521 -0.05764262659045016 FPDTGSLNL 9 Unmodified _FPDTGSLNL_ 0 0 0 ENSG00000185049|ENST00000382882|NELFA;ENST00000463820.5_1_4:1985048-1993691:-|nuORF ENSG00000185049|ENST00000382882|NELFA ENSG00000185049|ENST00000382882|NELFA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.24456787109375 2 482.242732 962.470912 NaN NaN NaN NaN NaN NaN NaN 68.407 1 69.067 68.567 69.567 0.65924 0 0 0 0.45908 1 31357 31357 20.454 2.3186 1 6609 5485 4265 4281 7522 7522 -0.011825117191051504 FPDTPLAL 8 Unmodified _FPDTPLAL_ 0 0 0 nc|ENSG00000129351|Q12906-5|ILF3;nc|ENSG00000129351|Q12906-4|ILF3;nc|ENSG00000129351|Q12906-2|ILF3;nc|ENSG00000129351|Q12906-6|ILF3;nc|ENSG00000129351|Q12906-3|ILF3;nc|ENSG00000129351|Q12906|ILF3;ENSG00000129351|ENST00000588657|ILF3;ENST00000587928.5_1_19:10792469-10795138:+|nuORF nc|ENSG00000129351|Q12906-5|ILF3 nc|ENSG00000129351|Q12906-5|ILF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.2409973144531 2 437.239461 872.46437 2.1312 0.00093185 0.23201 0.00010144 2.3632 0.0010333 437.2394396998978 79.854 0.55168 80.174 79.859 80.411 0.31998 54 34 2 0 0 0 0.029506 3 38992 38945;38992;39069 78.445 32.695 1 1341400 6610 2548 4266 4282 7523;7524;7525 7524 0.02303595120179125 FPDTPLAL 8 Unmodified _FPDTPLAL_ 0 0 0 nc|ENSG00000129351|Q12906-5|ILF3;nc|ENSG00000129351|Q12906-4|ILF3;nc|ENSG00000129351|Q12906-2|ILF3;nc|ENSG00000129351|Q12906-6|ILF3;nc|ENSG00000129351|Q12906-3|ILF3;nc|ENSG00000129351|Q12906|ILF3;ENSG00000129351|ENST00000588657|ILF3;ENST00000587928.5_1_19:10792469-10795138:+|nuORF nc|ENSG00000129351|Q12906-5|ILF3 nc|ENSG00000129351|Q12906-5|ILF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 873.4749145507812 1 873.471646 872.46437 2.9576 0.0025834 -0.1688 -0.00014744 2.7888 0.0024359 873.4707206313655 79.859 0.49289 80.179 79.889 80.382 0.31998 47 30 2 0 0 0 0.00091731 2 38951 38951;39062 136.08 79.539 1 2921500 6611 2548 4266 4282 7526;7527 7526 0.02303595120179125 FPDTPLAL 8 Unmodified _FPDTPLAL_ 0 0 0 nc|ENSG00000129351|Q12906-5|ILF3;nc|ENSG00000129351|Q12906-4|ILF3;nc|ENSG00000129351|Q12906-2|ILF3;nc|ENSG00000129351|Q12906-6|ILF3;nc|ENSG00000129351|Q12906-3|ILF3;nc|ENSG00000129351|Q12906|ILF3;ENSG00000129351|ENST00000588657|ILF3;ENST00000587928.5_1_19:10792469-10795138:+|nuORF nc|ENSG00000129351|Q12906-5|ILF3 nc|ENSG00000129351|Q12906-5|ILF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.24066162109375 2 437.239461 872.46437 2.6452 0.0011566 0.20255 8.8561E-05 2.8478 0.0012452 437.2394733641813 80.315 0.82278 80.564 80.206 81.029 0.24947 122 52 3 0 0 0 0.016327 6 36953 36852;36905;36953;37001;37049;37103 90.836 45.086 1 2027600 6612 2548 4266 4282 7528;7529;7530;7531;7532;7533 7530 0.02303595120179125 FPDTPLAL 8 Unmodified _FPDTPLAL_ 0 0 0 nc|ENSG00000129351|Q12906-5|ILF3;nc|ENSG00000129351|Q12906-4|ILF3;nc|ENSG00000129351|Q12906-2|ILF3;nc|ENSG00000129351|Q12906-6|ILF3;nc|ENSG00000129351|Q12906-3|ILF3;nc|ENSG00000129351|Q12906|ILF3;ENSG00000129351|ENST00000588657|ILF3;ENST00000587928.5_1_19:10792469-10795138:+|nuORF nc|ENSG00000129351|Q12906-5|ILF3 nc|ENSG00000129351|Q12906-5|ILF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 873.4752807617188 1 873.471646 872.46437 3.6742 0.0032093 -0.11387 -9.9466E-05 3.5603 0.0031098 873.47147980604 80.381 0.84635 80.63 80.218 81.064 0.24947 129 53 3 0 0 0 6.7777E-07 9 36943 36854;36859;36902;36943;36986;37033;37087;37131;37175 152.78 89.391 1 3161900 6613 2548 4266 4282 7534;7535;7536;7537;7538;7539;7540;7541;7542 7537 0.02303595120179125 FPDTPLAL 8 Unmodified _FPDTPLAL_ 0 0 0 nc|ENSG00000129351|Q12906-5|ILF3;nc|ENSG00000129351|Q12906-4|ILF3;nc|ENSG00000129351|Q12906-2|ILF3;nc|ENSG00000129351|Q12906-6|ILF3;nc|ENSG00000129351|Q12906-3|ILF3;nc|ENSG00000129351|Q12906|ILF3;ENSG00000129351|ENST00000588657|ILF3;ENST00000587928.5_1_19:10792469-10795138:+|nuORF nc|ENSG00000129351|Q12906-5|ILF3 nc|ENSG00000129351|Q12906-5|ILF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 873.4755859375 1 873.471646 872.46437 3.9962 0.0034905 0.0013968 1.2201E-06 3.9976 0.0034918 873.4715173381875 79.8 0.8167 80.461 80.105 80.922 0.66082 134 51 3 0 0 0 6.7777E-07 8 36771 36622;36672;36727;36771;36818;36869;36923;36969 152.78 89.391 1 4012000 6614 2548 4266 4282 7543;7544;7545;7546;7547;7548;7549;7550 7546 0.02303595120179125 FPDTPLAL 8 Unmodified _FPDTPLAL_ 0 0 0 nc|ENSG00000129351|Q12906-5|ILF3;nc|ENSG00000129351|Q12906-4|ILF3;nc|ENSG00000129351|Q12906-2|ILF3;nc|ENSG00000129351|Q12906-6|ILF3;nc|ENSG00000129351|Q12906-3|ILF3;nc|ENSG00000129351|Q12906|ILF3;ENSG00000129351|ENST00000588657|ILF3;ENST00000587928.5_1_19:10792469-10795138:+|nuORF nc|ENSG00000129351|Q12906-5|ILF3 nc|ENSG00000129351|Q12906-5|ILF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.24041748046875 2 437.239461 872.46437 3.1185 0.0013635 -0.045617 -1.9946E-05 3.0729 0.0013436 437.2392847019822 79.802 0.80949 80.463 80.091 80.9 0.66082 111 50 3 0 0 0 0.029506 5 36755 36642;36691;36755;36806;36858 78.445 32.695 1 1886600 6615 2548 4266 4282 7551;7552;7553;7554;7555 7553 0.02303595120179125 FPDTVLGF 8 Unmodified _FPDTVLGF_ 0 0 0 REV__ENSG00000185313|ENST00000449082|SCN10A REV__ENSG00000185313|ENST00000449082|SCN10A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.23175048828125 2 448.231636 894.448719 NaN NaN NaN NaN NaN NaN NaN 79.928 1 80.589 80.089 81.089 0.66082 0 0 0 0.95658 1 36829 36829 8.5933 3.8373 1 + 6616 14015 4267 4283 7556 7556 -0.0027269139686723065 FPDWREDVL 9 Unmodified _FPDWREDVL_ 0 0 0 ENSG00000075539|ENST00000358350|FRYL;FRYL|p.E2601Dfs*12|1|0.03|ENSG00000075539|chr4:48515162-48515163|-/TACTTTCA|frameshift_variant ENSG00000075539|ENST00000358350|FRYL ENSG00000075539|ENST00000358350|FRYL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.78955078125 2 588.787838 1175.56112 2.9967 0.0017644 0.98212 0.00057826 3.9788 0.0023427 588.7880017779145 71.351 0.48651 72.014 71.952 72.438 0.66324 50 32 2 0 0 0 0.10584 2 32772 32714;32772 31.268 5.1661 1 444970 6617 830 4268 4284 7557;7558 7558 -0.019634623906767956 FPDWREDVL 9 Unmodified _FPDWREDVL_ 0 0 0 ENSG00000075539|ENST00000358350|FRYL;FRYL|p.E2601Dfs*12|1|0.03|ENSG00000075539|chr4:48515162-48515163|-/TACTTTCA|frameshift_variant ENSG00000075539|ENST00000358350|FRYL ENSG00000075539|ENST00000358350|FRYL MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 588.787838 1175.56112 2.8698 0.0016897 1.4507 0.00085415 4.3205 0.0025438 588.7891120701483 72.189 0.054855 72.189 72.162 72.217 0 0.087302 0.00049113 NaN 31.268 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 1722000 6618 830 4268 4284 -0.019634623906767956 FPDYGKVEL 9 Unmodified _FPDYGKVEL_ 0 0 0 ENSG00000136205|ENST00000311160|TNS3;nc|ENSG00000136205|Q68CZ2-3|TNS3 ENSG00000136205|ENST00000311160|TNS3 ENSG00000136205|ENST00000311160|TNS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.2761840820312 2 534.274032 1066.53351 2.9121 0.0015559 1.2687 0.00067781 4.1808 0.0022337 534.2747208290034 59.303 0.52717 59.303 59.262 59.789 0 76 46 3 0 0 0 0.053359 1 27527 27527 45.74 19.472 1 3571500 6619 2931 4269 4285 7559 7559 0.0029063434908493946 FPDYGKVEL 9 Unmodified _FPDYGKVEL_ 0 0 0 ENSG00000136205|ENST00000311160|TNS3;nc|ENSG00000136205|Q68CZ2-3|TNS3 ENSG00000136205|ENST00000311160|TNS3 ENSG00000136205|ENST00000311160|TNS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 534.2756958007812 2 534.274032 1066.53351 2.8043 0.0014983 0.37067 0.00019804 3.175 0.0016963 534.2742802902425 58.188 0.51186 58.957 58.819 59.33 0.76861 81 51 2 0 0 0 0.013715 2 26743 26743;26797 76.825 29.076 1 2970000 6620 2931 4269 4285 7560;7561 7560 0.0029063434908493946 FPDYGKVEL 9 Unmodified _FPDYGKVEL_ 0 0 0 ENSG00000136205|ENST00000311160|TNS3;nc|ENSG00000136205|Q68CZ2-3|TNS3 ENSG00000136205|ENST00000311160|TNS3 ENSG00000136205|ENST00000311160|TNS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 534.2763061523438 2 534.274032 1066.53351 3.0305 0.0016191 1.208 0.00064541 4.2385 0.0022645 534.274768579183 58.908 0.9645 59.167 59 59.964 0.2593 111 48 3 0 0 0 0.053359 2 27005 27005;27328 45.74 18.856 1 1094800 6621 2931 4269 4285 7562;7563 7562 0.0029063434908493946 FPDYGKVEL 9 Unmodified _FPDYGKVEL_ 0 0 0 ENSG00000136205|ENST00000311160|TNS3;nc|ENSG00000136205|Q68CZ2-3|TNS3 ENSG00000136205|ENST00000311160|TNS3 ENSG00000136205|ENST00000311160|TNS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 534.2758178710938 2 534.274032 1066.53351 3.2595 0.0017415 0.73497 0.00039268 3.9945 0.0021341 534.7757569286644 58.329 0.78032 58.996 58.952 59.732 0.66703 84 41 3 0 0 0 0.17594 1 27017 27017 24.991 9.7425 1 5691200 6622 2931 4269 4285 7564 7564 0.0029063434908493946 FPEALGHVAL 10 Unmodified _FPEALGHVAL_ 0 0 0 nc|ENSG00000110697|O00562-2|PITPNM1;ENSG00000110697|ENST00000356404|PITPNM1 nc|ENSG00000110697|O00562-2|PITPNM1 nc|ENSG00000110697|O00562-2|PITPNM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.29150390625 2 527.290017 1052.56548 NaN NaN NaN NaN NaN NaN NaN 64.49 1 64.738 64.238 65.238 0.24803 0 0 0 0.41039 1 29538 29538 32.305 16.458 1 6623 1724 4270 4286 7565 7565 0.04130046822888289 FPEASPATL 9 Unmodified _FPEASPATL_ 0 0 0 ENST00000504157.5_1_7:102207439-102208488:-|nuORF;ENST00000608621.5_1_7:102202646-102208488:-|nuORF;ENST00000476151.5_1_7:102281096-102307568:-|nuORF;nc|ENSG00000228049|Q9GZM3-2|POLR2J2;ENST00000427076.5_1_7:44027725-44054350:-|nuORF;ENST00000422304.1_1_7:44027725-44058742:-|nuORF;ENST00000454572.1_1_7:44005962-44058742:-|nuORF;ENSG00000168255|ENST00000513506|POLR2J3 ENST00000504157.5_1_7:102207439-102208488:-|nuORF ENST00000504157.5_1_7:102207439-102208488:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.7414855957031 2 466.739825 931.465098 NaN NaN NaN NaN NaN NaN NaN 57.326 1 57.326 56.826 57.826 0 0 0 0 0.13032 1 26419 26419 36.044 13.592 1 6624 4615 4271 4287 7566 7566 -0.0033761023075840058 FPEASPATL 9 Unmodified _FPEASPATL_ 0 0 0 ENST00000504157.5_1_7:102207439-102208488:-|nuORF;ENST00000608621.5_1_7:102202646-102208488:-|nuORF;ENST00000476151.5_1_7:102281096-102307568:-|nuORF;nc|ENSG00000228049|Q9GZM3-2|POLR2J2;ENST00000427076.5_1_7:44027725-44054350:-|nuORF;ENST00000422304.1_1_7:44027725-44058742:-|nuORF;ENST00000454572.1_1_7:44005962-44058742:-|nuORF;ENSG00000168255|ENST00000513506|POLR2J3 ENST00000504157.5_1_7:102207439-102208488:-|nuORF ENST00000504157.5_1_7:102207439-102208488:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.7410888671875 2 466.739825 931.465098 NaN NaN NaN NaN NaN NaN NaN 57.455 1 57.455 56.955 57.955 0 0 0 0 0.3934 1 26483 26483 23.148 6.2061 1 6625 4615 4271 4287 7567 7567 -0.0033761023075840058 FPEASPATL 9 Unmodified _FPEASPATL_ 0 0 0 ENST00000504157.5_1_7:102207439-102208488:-|nuORF;ENST00000608621.5_1_7:102202646-102208488:-|nuORF;ENST00000476151.5_1_7:102281096-102307568:-|nuORF;nc|ENSG00000228049|Q9GZM3-2|POLR2J2;ENST00000427076.5_1_7:44027725-44054350:-|nuORF;ENST00000422304.1_1_7:44027725-44058742:-|nuORF;ENST00000454572.1_1_7:44005962-44058742:-|nuORF;ENSG00000168255|ENST00000513506|POLR2J3 ENST00000504157.5_1_7:102207439-102208488:-|nuORF ENST00000504157.5_1_7:102207439-102208488:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.74237060546875 2 466.739825 931.465098 2.4947 0.0011644 0.089663 4.1849E-05 2.5844 0.0012062 466.7397272629097 56.218 0.77614 56.996 56.686 57.463 0.77786 97 72 2 0 0 0 0.041436 5 25683 25605;25683;25756;25804;25856 50.855 29.108 1 837580 6626 4615 4271 4287 7568;7569;7570;7571;7572 7569 -0.0033761023075840058 FPEASPATL 9 Unmodified _FPEASPATL_ 0 0 0 ENST00000504157.5_1_7:102207439-102208488:-|nuORF;ENST00000608621.5_1_7:102202646-102208488:-|nuORF;ENST00000476151.5_1_7:102281096-102307568:-|nuORF;nc|ENSG00000228049|Q9GZM3-2|POLR2J2;ENST00000427076.5_1_7:44027725-44054350:-|nuORF;ENST00000422304.1_1_7:44027725-44058742:-|nuORF;ENST00000454572.1_1_7:44005962-44058742:-|nuORF;ENSG00000168255|ENST00000513506|POLR2J3 ENST00000504157.5_1_7:102207439-102208488:-|nuORF ENST00000504157.5_1_7:102207439-102208488:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.7410888671875 2 466.739825 931.465098 NaN NaN NaN NaN NaN NaN NaN 56.919 1 57.183 56.683 57.683 0.26444 0 0 0 0.097886 1 26045 26045 42.095 20.348 1 6627 4615 4271 4287 7573 7573 -0.0033761023075840058 FPEASPATL 9 Unmodified _FPEASPATL_ 0 0 0 ENST00000504157.5_1_7:102207439-102208488:-|nuORF;ENST00000608621.5_1_7:102202646-102208488:-|nuORF;ENST00000476151.5_1_7:102281096-102307568:-|nuORF;nc|ENSG00000228049|Q9GZM3-2|POLR2J2;ENST00000427076.5_1_7:44027725-44054350:-|nuORF;ENST00000422304.1_1_7:44027725-44058742:-|nuORF;ENST00000454572.1_1_7:44005962-44058742:-|nuORF;ENSG00000168255|ENST00000513506|POLR2J3 ENST00000504157.5_1_7:102207439-102208488:-|nuORF ENST00000504157.5_1_7:102207439-102208488:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.7411804199219 2 466.739825 931.465098 NaN NaN NaN NaN NaN NaN NaN 57.026 1 57.29 56.79 57.79 0.26444 0 0 0 0.26328 1 26095 26095 28.487 6.7402 1 6628 4615 4271 4287 7574 7574 -0.0033761023075840058 FPEASPATL 9 Unmodified _FPEASPATL_ 0 0 0 ENST00000504157.5_1_7:102207439-102208488:-|nuORF;ENST00000608621.5_1_7:102202646-102208488:-|nuORF;ENST00000476151.5_1_7:102281096-102307568:-|nuORF;nc|ENSG00000228049|Q9GZM3-2|POLR2J2;ENST00000427076.5_1_7:44027725-44054350:-|nuORF;ENST00000422304.1_1_7:44027725-44058742:-|nuORF;ENST00000454572.1_1_7:44005962-44058742:-|nuORF;ENSG00000168255|ENST00000513506|POLR2J3 ENST00000504157.5_1_7:102207439-102208488:-|nuORF ENST00000504157.5_1_7:102207439-102208488:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.7406005859375 2 466.739825 931.465098 2.8875 0.0013477 -0.030548 -1.4258E-05 2.857 0.0013335 466.73965619692376 56.099 0.92217 56.767 56.479 57.401 0.66829 72 51 2 0 0 0 0.041436 3 25611 25611;25673;25782 50.855 24.514 1 763810 6629 4615 4271 4287 7575;7576;7577 7575 -0.0033761023075840058 FPEDHDPTI 9 Unmodified _FPEDHDPTI_ 0 0 0 chr1:155904801-155910450|161|12.85|0.22|5.85|-|2|None,RIT1|1;ENST00000462687.1_1_1:155880190-155880552:-|nuORF;nc|ENSG00000143622|Q92963-2|RIT1;ENSG00000143622|ENST00000368323|RIT1;nc|ENSG00000143622|Q92963-3|RIT1;chr1:155910804-155910878|508|18.34|0.85|4.43|-|ENST00000368322|RIT1,RIT1 chr1:155904801-155910450|161|12.85|0.22|5.85|-|2|None,RIT1|1 chr1:155904801-155910450|161|12.85|0.22|5.85|-|2|None,RIT1|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.7452392578125 2 535.743096 1069.47164 3.0857 0.0016532 0.86822 0.00046514 3.9539 0.0021183 535.7435579832244 39.263 0.6573 39.263 38.865 39.522 0 35 24 2 0 0 0 0.020151 3 17745 17745;17806;17870 68.081 46.334 1 644720 6630 120 4272 4288 7578;7579;7580 7578 -0.060317170700500355 FPEDHDPTI 9 Unmodified _FPEDHDPTI_ 0 0 0 chr1:155904801-155910450|161|12.85|0.22|5.85|-|2|None,RIT1|1;ENST00000462687.1_1_1:155880190-155880552:-|nuORF;nc|ENSG00000143622|Q92963-2|RIT1;ENSG00000143622|ENST00000368323|RIT1;nc|ENSG00000143622|Q92963-3|RIT1;chr1:155910804-155910878|508|18.34|0.85|4.43|-|ENST00000368322|RIT1,RIT1 chr1:155904801-155910450|161|12.85|0.22|5.85|-|2|None,RIT1|1 chr1:155904801-155910450|161|12.85|0.22|5.85|-|2|None,RIT1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.7457885742188 2 535.743096 1069.47164 NaN NaN NaN NaN NaN NaN NaN 39.78 1 39.78 39.28 40.28 0 0 0 0 0.10934 1 18054 18054 39.957 19.086 1 6631 120 4272 4288 7581 7581 -0.060317170700500355 FPEDHDPTI 9 Unmodified _FPEDHDPTI_ 0 0 0 chr1:155904801-155910450|161|12.85|0.22|5.85|-|2|None,RIT1|1;ENST00000462687.1_1_1:155880190-155880552:-|nuORF;nc|ENSG00000143622|Q92963-2|RIT1;ENSG00000143622|ENST00000368323|RIT1;nc|ENSG00000143622|Q92963-3|RIT1;chr1:155910804-155910878|508|18.34|0.85|4.43|-|ENST00000368322|RIT1,RIT1 chr1:155904801-155910450|161|12.85|0.22|5.85|-|2|None,RIT1|1 chr1:155904801-155910450|161|12.85|0.22|5.85|-|2|None,RIT1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.7450561523438 2 535.743096 1069.47164 NaN NaN NaN NaN NaN NaN NaN 40.046 1 40.046 39.546 40.546 0 0 0 0 0.59707 1 18175 18175 15.847 7.2539 1 6632 120 4272 4288 7582 7582 -0.060317170700500355 FPEDHDPTI 9 Unmodified _FPEDHDPTI_ 0 0 0 chr1:155904801-155910450|161|12.85|0.22|5.85|-|2|None,RIT1|1;ENST00000462687.1_1_1:155880190-155880552:-|nuORF;nc|ENSG00000143622|Q92963-2|RIT1;ENSG00000143622|ENST00000368323|RIT1;nc|ENSG00000143622|Q92963-3|RIT1;chr1:155910804-155910878|508|18.34|0.85|4.43|-|ENST00000368322|RIT1,RIT1 chr1:155904801-155910450|161|12.85|0.22|5.85|-|2|None,RIT1|1 chr1:155904801-155910450|161|12.85|0.22|5.85|-|2|None,RIT1|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 535.7459716796875 2 535.743096 1069.47164 3.1033 0.0016626 2.4514 0.0013133 5.5547 0.0029759 535.7445357868985 37.782 1.8338 38.578 38.182 40.016 0.79552 102 81 2 0 0 0 0.025323 7 17169 17169;17211;17276;17328;17408;17440;17494 61.357 35.517 1 709780 6633 120 4272 4288 7583;7584;7585;7586;7587;7588;7589 7583 -0.060317170700500355 FPEDHDPTI 9 Unmodified _FPEDHDPTI_ 0 0 0 chr1:155904801-155910450|161|12.85|0.22|5.85|-|2|None,RIT1|1;ENST00000462687.1_1_1:155880190-155880552:-|nuORF;nc|ENSG00000143622|Q92963-2|RIT1;ENSG00000143622|ENST00000368323|RIT1;nc|ENSG00000143622|Q92963-3|RIT1;chr1:155910804-155910878|508|18.34|0.85|4.43|-|ENST00000368322|RIT1,RIT1 chr1:155904801-155910450|161|12.85|0.22|5.85|-|2|None,RIT1|1 chr1:155904801-155910450|161|12.85|0.22|5.85|-|2|None,RIT1|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.7453002929688 2 535.743096 1069.47164 3.233 0.0017321 0.75909 0.00040668 3.9921 0.0021387 535.7435074260419 38.753 0.97384 39.391 39.163 40.137 0.63778 52 35 2 0 0 0 0.015468 8 17722 17617;17666;17722;17776;17834;17893;17955;18016 74.423 46.25 1 748310 6634 120 4272 4288 7590;7591;7592;7593;7594;7595;7596;7597 7592 -0.060317170700500355 FPEEEAPSTVL 11 Unmodified _FPEEEAPSTVL_ 0 0 0 ENSG00000118705|ENST00000237530|RPN2;nc|ENSG00000118705|P04844-2|RPN2 ENSG00000118705|ENST00000237530|RPN2 ENSG00000118705|ENST00000237530|RPN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 609.5335693359375 2 609.798069 1217.58158 NaN NaN NaN NaN NaN NaN NaN 63.17 1 63.828 63.328 64.328 0.65808 0 0 0 0.93332 1 28946 28946 13.042 1.4022 1 6635 2121 4273 4289 7598 7598 -0.018503365215337908 FPEELTQTF 9 Unmodified _FPEELTQTF_ 0 0 0 ENSG00000254772|ENST00000329251|EEF1G;nc|ENSG00000254772|P26641-2|EEF1G;ENST00000526409.5_1_11:62327153-62342310:-|nuORF ENSG00000254772|ENST00000329251|EEF1G ENSG00000254772|ENST00000329251|EEF1G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.271484375 2 556.268947 1110.52334 2.8738 0.0015986 0.21182 0.00011783 3.0856 0.0017164 556.2689623115584 72.103 1.0832 72.103 71.593 72.676 0 143 106 2 0 0 0 0.0063783 6 34872 34825;34872;34929;34981;35032;35084 88.904 50.93 1 2969400 6636 6279 4274 4290 7599;7600;7601;7602;7603;7604 7600 -0.027499733761487732 FPEELTQTF 9 Unmodified _FPEELTQTF_ 0 0 0 ENSG00000254772|ENST00000329251|EEF1G;nc|ENSG00000254772|P26641-2|EEF1G;ENST00000526409.5_1_11:62327153-62342310:-|nuORF ENSG00000254772|ENST00000329251|EEF1G ENSG00000254772|ENST00000329251|EEF1G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 556.2702026367188 2 556.268947 1110.52334 2.7659 0.0015386 -0.012081 -6.72E-06 2.7538 0.0015318 556.2688264490475 71.185 0.57286 71.889 71.767 72.34 0.70386 122 67 2 0 0 0 0.0063783 5 34196 34148;34196;34245;34296;34372 88.904 42.883 1 3267700 6637 6279 4274 4290 7605;7606;7607;7608;7609 7606 -0.027499733761487732 FPEELTQTF 9 Unmodified _FPEELTQTF_ 0 0 0 ENSG00000254772|ENST00000329251|EEF1G;nc|ENSG00000254772|P26641-2|EEF1G;ENST00000526409.5_1_11:62327153-62342310:-|nuORF ENSG00000254772|ENST00000329251|EEF1G ENSG00000254772|ENST00000329251|EEF1G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.2705078125 2 556.268947 1110.52334 3.3117 0.0018422 0.67527 0.00037563 3.987 0.0022178 556.2694834868483 71.537 0.188 71.795 71.619 71.807 0.25785 22 13 2 0 0 0 0.020151 1 32759 32759 68.081 25.986 1 1796900 6638 6279 4274 4290 7610 7610 -0.027499733761487732 FPEELTQTF 9 Unmodified _FPEELTQTF_ 0 0 0 ENSG00000254772|ENST00000329251|EEF1G;nc|ENSG00000254772|P26641-2|EEF1G;ENST00000526409.5_1_11:62327153-62342310:-|nuORF ENSG00000254772|ENST00000329251|EEF1G ENSG00000254772|ENST00000329251|EEF1G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.2703857421875 2 556.268947 1110.52334 3.3032 0.0018375 -0.67374 -0.00037478 2.6295 0.0014627 556.2685719710644 71.694 0.61092 71.952 71.915 72.526 0.25786 112 66 2 0 0 0 0.0023685 4 33017 32902;32958;33017;33112 100.37 45.844 1 3853500 6639 6279 4274 4290 7611;7612;7613;7614 7613 -0.027499733761487732 FPEELTQTF 9 Unmodified _FPEELTQTF_ 0 0 0 ENSG00000254772|ENST00000329251|EEF1G;nc|ENSG00000254772|P26641-2|EEF1G;ENST00000526409.5_1_11:62327153-62342310:-|nuORF ENSG00000254772|ENST00000329251|EEF1G ENSG00000254772|ENST00000329251|EEF1G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.2708129882812 2 556.268947 1110.52334 2.9144 0.0016212 0.42416 0.00023594 3.3385 0.0018571 556.269151337615 71.363 1.0711 72.026 71.535 72.606 0.66324 185 72 3 0 0 0 0.0023685 9 32570 32521;32570;32619;32665;32713;32770;32826;32885;32932 100.37 62.397 1 2166000 6640 6279 4274 4290 7615;7616;7617;7618;7619;7620;7621;7622;7623 7616 -0.027499733761487732 FPEELTQTF 9 Unmodified _FPEELTQTF_ 0 0 0 ENSG00000254772|ENST00000329251|EEF1G;nc|ENSG00000254772|P26641-2|EEF1G;ENST00000526409.5_1_11:62327153-62342310:-|nuORF ENSG00000254772|ENST00000329251|EEF1G ENSG00000254772|ENST00000329251|EEF1G MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 556.268947 1110.52334 2.7561 0.0015331 -0.67181 -0.00037371 2.0843 0.0011594 556.2689107187679 70.985 0.16174 71.689 71.542 71.704 0.70386 -0.053076 -0.0010387 NaN 68.081 26 19 2 NaN NaN NaN NaN 0 NaN NaN 0 1533600 6641 6279 4274 4290 -0.027499733761487732 FPEERPEVL 9 Unmodified _FPEERPEVL_ 0 0 0 nc|ENSG00000163482|Q9NRP7-2|STK36;ENSG00000163482|ENST00000295709|STK36 nc|ENSG00000163482|Q9NRP7-2|STK36 nc|ENSG00000163482|Q9NRP7-2|STK36 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.2921752929688 2 558.290214 1114.56587 NaN NaN NaN NaN NaN NaN NaN 47.883 1 48.147 47.647 48.647 0.26363 0 0 0 0.796 1 21888 21888 9.3831 1.473 1 6642 4213 4275 4291 7624 7624 0.01317421752082737 FPEEVIATIF 10 Unmodified _FPEEVIATIF_ 0 0 0 ENSG00000186480|ENST00000340368|INSIG1;nc|ENSG00000186480|O15503-2|INSIG1 ENSG00000186480|ENST00000340368|INSIG1 ENSG00000186480|ENST00000340368|INSIG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.3145141601562 2 583.310615 1164.60668 4.2755 0.0024939 -0.60564 -0.00035327 3.6699 0.0021407 583.8114780996442 98.635 0.088928 98.935 98.887 98.976 0.29987 9 5 2 0 0 0 0.28649 1 45489 45489 29.082 13.234 1 1818700 6643 5574 4276 4292 7625 7625 0.030957630717011853 FPEFWDHCWSL 11 Unmodified _FPEFWDHCWSL_ 0 0 0 ENST00000493197.5_1_5:177638946-177656967:-|nuORF ENST00000493197.5_1_5:177638946-177656967:-|nuORF ENST00000493197.5_1_5:177638946-177656967:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 489.54583740234375 3 489.544779 1465.61251 NaN NaN NaN NaN NaN NaN NaN 61.183 1 61.923 61.423 62.423 0.7396 0 0 0 1.0072 1 28337 28337 1.3296 0.11481 1 6644 8414 4277 4293 7626 7626 -0.10167461688251933 FPEGNPAKI 9 Unmodified _FPEGNPAKI_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B;ENST00000494129.1_1_2:192246088-192252282:+|nuORF nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.2652893066406 2 486.761092 971.507631 3.2705 0.0015919 0.53701 0.00026139 3.8075 0.0018533 486.7610677901856 37.682 0.96363 37.682 37.272 38.236 0 50 36 2 0 0 0 0.5141 1 17147 17147 12.241 7.01 1 293950 6645 2521 4278 4294 7627 7627 0.02073784897470432 FPEGNPAKI 9 Unmodified _FPEGNPAKI_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B;ENST00000494129.1_1_2:192246088-192252282:+|nuORF nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.7629699707031 2 486.761092 971.507631 NaN NaN NaN NaN NaN NaN NaN 36.4 1 37.194 36.694 37.694 0.79342 0 0 0 0.55812 1 16497 16497 17.113 7.7655 1 6646 2521 4278 4294 7628 7628 0.02073784897470432 FPEGNPAKI 9 Unmodified _FPEGNPAKI_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B;ENST00000494129.1_1_2:192246088-192252282:+|nuORF nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.76275634765625 2 486.761092 971.507631 NaN NaN NaN NaN NaN NaN NaN 36.531 1 37.324 36.824 37.824 0.79342 0 0 0 0.55812 1 16555 16555 17.113 6.289 1 6647 2521 4278 4294 7629 7629 0.02073784897470432 FPEGNPAKI 9 Unmodified _FPEGNPAKI_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B;ENST00000494129.1_1_2:192246088-192252282:+|nuORF nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.76239013671875 2 486.761092 971.507631 NaN NaN NaN NaN NaN NaN NaN 36.794 1 37.587 37.087 38.087 0.79342 0 0 0 0.58778 1 16674 16674 16.149 10.918 1 6648 2521 4278 4294 7630 7630 0.02073784897470432 FPEGNPAKI 9 Unmodified _FPEGNPAKI_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B;ENST00000494129.1_1_2:192246088-192252282:+|nuORF nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.7631530761719 2 486.761092 971.507631 NaN NaN NaN NaN NaN NaN NaN 37.41 1 37.671 37.171 38.171 0.26083 0 0 0 0.13912 1 17039 17039 34.402 13.531 1 6649 2521 4278 4294 7631 7631 0.02073784897470432 FPEHIFPAL 9 Unmodified _FPEHIFPAL_ 0 0 0 ENSG00000138071|ENST00000260641|ACTR2;nc|ENSG00000138071|P61160-2|ACTR2 ENSG00000138071|ENST00000260641|ACTR2 ENSG00000138071|ENST00000260641|ACTR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.7890625 2 535.78711 1069.55967 2.4782 0.0013278 0.55719 0.00029853 3.0354 0.0016263 535.7873843869105 76.178 1.1309 76.178 75.775 76.905 0 302 83 5 0 0 0 0.0012644 10 37376 37195;37245;37288;37333;37376;37419;37473;37524;37579;37584 123.1 81.002 1 41618000 6650 3068 4279 4295 7632;7633;7634;7635;7636;7637;7638;7639;7640;7641 7636 0.027669483112276794 FPEHIFPAL 9 Unmodified _FPEHIFPAL_ 0 0 0 ENSG00000138071|ENST00000260641|ACTR2;nc|ENSG00000138071|P61160-2|ACTR2 ENSG00000138071|ENST00000260641|ACTR2 ENSG00000138071|ENST00000260641|ACTR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 535.78857421875 2 535.78711 1069.55967 2.5821 0.0013835 0.0087748 4.7014E-06 2.5909 0.0013882 535.7870688675328 75.196 0.87482 75.859 75.619 76.494 0.6635 227 65 5 0 0 0 0.0012644 7 36421 36315;36361;36421;36473;36528;36580;36636 123.1 79.238 1 56159000 6651 3068 4279 4295 7642;7643;7644;7645;7646;7647;7648 7644 0.027669483112276794 FPEHIFPAL 9 Unmodified _FPEHIFPAL_ 0 0 0 ENSG00000138071|ENST00000260641|ACTR2;nc|ENSG00000138071|P61160-2|ACTR2 ENSG00000138071|ENST00000260641|ACTR2 ENSG00000138071|ENST00000260641|ACTR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.7888793945312 2 535.78711 1069.55967 2.7484 0.0014726 0.3889 0.00020837 3.1373 0.0016809 535.7873335905767 76.006 1.0048 76.263 75.882 76.887 0.25704 284 77 5 0 0 0 3.8618E-05 10 34984 34833;34887;34937;34984;35027;35074;35127;35168;35210;35284 137.59 95.491 1 36086000 6652 3068 4279 4295 7649;7650;7651;7652;7653;7654;7655;7656;7657;7658 7652 0.027669483112276794 FPEHIFPAL 9 Unmodified _FPEHIFPAL_ 0 0 0 ENSG00000138071|ENST00000260641|ACTR2;nc|ENSG00000138071|P61160-2|ACTR2 ENSG00000138071|ENST00000260641|ACTR2 ENSG00000138071|ENST00000260641|ACTR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.7890625 2 535.78711 1069.55967 2.8249 0.0015135 0.19284 0.00010332 3.0177 0.0016168 535.7871897984746 75.468 0.99356 76.133 75.758 76.752 0.6644 291 85 4 0 0 0 3.8618E-05 9 34872 34636;34684;34732;34775;34824;34872;34919;34960;34999 137.59 95.491 1 36656000 6653 3068 4279 4295 7659;7660;7661;7662;7663;7664;7665;7666;7667 7664 0.027669483112276794 FPELDSPQL 9 Unmodified _FPELDSPQL_ 0 0 0 ENSG00000102699|ENST00000381989|PARP4;ENST00000446672.2_1_13:19968469-19969442:+|nuORF ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.264892578125 2 523.263665 1044.51278 2.5723 0.001346 0.33491 0.00017524 2.9072 0.0015212 523.2637508171327 72.401 0.47304 72.401 72.251 72.724 0 65 47 2 0 0 0 0.032303 2 35246 35182;35246 54.774 20.671 1 1546400 6654 1350 4280 4296 7668;7669 7669 -0.0076995603058094275 FPELDSPQL 9 Unmodified _FPELDSPQL_ 0 0 0 ENSG00000102699|ENST00000381989|PARP4;ENST00000446672.2_1_13:19968469-19969442:+|nuORF ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.2647094726562 2 523.263665 1044.51278 3.1102 0.0016275 0.11825 6.1875E-05 3.2285 0.0016893 523.2637085732994 71.918 0.64997 72.176 72.041 72.691 0.25786 106 60 2 0 0 0 0.017868 4 33052 32996;33052;33104;33177 71.134 35.089 1 1782100 6655 1350 4280 4296 7670;7671;7672;7673 7671 -0.0076995603058094275 FPELDSPQL 9 Unmodified _FPELDSPQL_ 0 0 0 ENSG00000102699|ENST00000381989|PARP4;ENST00000446672.2_1_13:19968469-19969442:+|nuORF ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.2648315429688 2 523.263665 1044.51278 2.6889 0.001407 0.42331 0.00022151 3.1122 0.0016285 523.2637785795218 71.597 0.63748 72.26 72.024 72.661 0.66324 98 41 3 0 0 0 0.010221 5 32814 32769;32814;32865;32915;32971 81.613 37.206 1 1244000 6656 1350 4280 4296 7674;7675;7676;7677;7678 7675 -0.0076995603058094275 FPENKEYLI 9 Unmodified _FPENKEYLI_ 0 0 0 nc|ENSG00000169679|O43683-2|BUB1;nc|ENSG00000169679|O43683-3|BUB1;ENSG00000169679|ENST00000302759|BUB1;ENST00000465029.5_1_2:111419157-111435602:-|nuORF nc|ENSG00000169679|O43683-2|BUB1 nc|ENSG00000169679|O43683-2|BUB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.8027954101562 2 576.800414 1151.58628 3.1111 0.0017945 0.64123 0.00036986 3.7524 0.0021644 577.3018889879919 54.549 0.49746 54.814 54.413 54.911 0.26543 34 22 2 0 0 0 0.21008 1 24889 24889 22.736 10.496 1 362500 6657 4702 4281 4297 7679 7679 0.01654592411887279 FPENKEYLI 9 Unmodified _FPENKEYLI_ 0 0 0 nc|ENSG00000169679|O43683-2|BUB1;nc|ENSG00000169679|O43683-3|BUB1;ENSG00000169679|ENST00000302759|BUB1;ENST00000465029.5_1_2:111419157-111435602:-|nuORF nc|ENSG00000169679|O43683-2|BUB1 nc|ENSG00000169679|O43683-2|BUB1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 576.800414 1151.58628 3.5367 0.00204 0.0142 8.1906E-06 3.5509 0.0020482 576.8005227238941 53.826 0.20704 54.491 54.309 54.516 0.6644 -0.16186 -0.00033393 NaN 22.736 18 10 2 NaN NaN NaN NaN 0 NaN NaN 0 349400 6658 4702 4281 4297 0.01654592411887279 FPENYVPTVF 10 Unmodified _FPENYVPTVF_ 0 0 0 ENSG00000115963|ENST00000263895|RND3 ENSG00000115963|ENST00000263895|RND3 ENSG00000115963|ENST00000263895|RND3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 606.8036499023438 2 606.800414 1211.58628 3.5986 0.0021836 0.47315 0.00028711 4.0718 0.0024708 606.8007181756419 83.942 1.0242 84.19 83.782 84.806 0.24722 111 61 2 0 0 0 0.16398 4 38674 38539;38601;38674;38728 43.772 33.698 1 744960 6659 2003 4282 4298 7680;7681;7682;7683 7682 -0.011054075881247627 FPENYVPTVF 10 Unmodified _FPENYVPTVF_ 0 0 0 ENSG00000115963|ENST00000263895|RND3 ENSG00000115963|ENST00000263895|RND3 ENSG00000115963|ENST00000263895|RND3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 606.8024291992188 2 606.800414 1211.58628 3.8497 0.002336 0.011718 7.1105E-06 3.8614 0.0023431 606.8002812548254 83.293 0.39352 83.953 83.643 84.036 0.66019 35 23 3 0 0 0 0.26801 1 38368 38368 31.268 21.194 1 663070 6660 2003 4282 4298 7684 7684 -0.011054075881247627 FPENYVPTVF 10 Unmodified _FPENYVPTVF_ 0 0 0 ENSG00000115963|ENST00000263895|RND3 ENSG00000115963|ENST00000263895|RND3 ENSG00000115963|ENST00000263895|RND3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 606.8019409179688 2 606.800414 1211.58628 3.8542 0.0023387 0.048332 2.9328E-05 3.9025 0.002368 606.8001909837834 83.455 0.61252 84.117 83.963 84.575 0.66219 68 40 2 0 0 0 0.059328 2 38422 38422;38518 60.074 45.236 1 500820 6661 2003 4282 4298 7685;7686 7685 -0.011054075881247627 FPEPEHSSF 9 Unmodified _FPEPEHSSF_ 0 0 0 nc|ENSG00000162542|Q5TGY1-2|TMCO4;ENSG00000162542|ENST00000294543|TMCO4 nc|ENSG00000162542|Q5TGY1-2|TMCO4 nc|ENSG00000162542|Q5TGY1-2|TMCO4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.7401123046875 2 538.737814 1075.46108 3.5064 0.001889 0.52963 0.00028533 4.036 0.0021744 538.7380367652922 40.848 0.22999 41.493 41.283 41.513 0.64451 21 13 2 0 0 0 0.032303 1 18654 18654 54.774 30.564 1 624830 6662 4142 4283 4299 7687 7687 -0.0736369972448756 FPEPEHSSF 9 Unmodified _FPEPEHSSF_ 0 0 0 nc|ENSG00000162542|Q5TGY1-2|TMCO4;ENSG00000162542|ENST00000294543|TMCO4 nc|ENSG00000162542|Q5TGY1-2|TMCO4 nc|ENSG00000162542|Q5TGY1-2|TMCO4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 538.737814 1075.46108 3.379 0.0018204 0.33114 0.0001784 3.7101 0.0019988 538.7379405849659 41.521 0.34743 41.791 41.726 42.074 0.27021 0.14932 -7.3742E-05 NaN 54.774 29 15 2 NaN NaN NaN NaN 0 NaN NaN 0 622700 6663 4142 4283 4299 -0.0736369972448756 FPEQIAEKL 9 Unmodified _FPEQIAEKL_ 0 0 0 ENSG00000116212|ENST00000371370|LRRC42 ENSG00000116212|ENST00000371370|LRRC42 ENSG00000116212|ENST00000371370|LRRC42 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.7124633789062 2 537.795132 1073.57571 3.366 0.0018102 0.30103 0.00016189 3.667 0.0019721 537.7951620894988 53.441 0.6428 53.441 53.056 53.698 0 89 45 3 0 0 0 0.0084842 1 24425 24425 84.522 34.589 1 1975700 6664 2020 4284 4300 7688 7688 0.04186609757448423 FPEQIAEKL 9 Unmodified _FPEQIAEKL_ 0 0 0 ENSG00000116212|ENST00000371370|LRRC42 ENSG00000116212|ENST00000371370|LRRC42 ENSG00000116212|ENST00000371370|LRRC42 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.7972412109375 2 537.795132 1073.57571 2.726 0.0014661 0.35234 0.00018949 3.0784 0.0016555 537.7952349274645 52.336 0.78819 53.146 52.777 53.565 0.81065 124 52 3 0 0 0 0.0012856 4 23778 23735;23778;23824;23887 121.5 44.852 1 1799800 6665 2020 4284 4300 7689;7690;7691;7692 7690 0.04186609757448423 FPEQIAEKL 9 Unmodified _FPEQIAEKL_ 0 0 0 ENSG00000116212|ENST00000371370|LRRC42 ENSG00000116212|ENST00000371370|LRRC42 ENSG00000116212|ENST00000371370|LRRC42 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.7963256835938 2 537.795132 1073.57571 3.1795 0.0017099 0.36501 0.0001963 3.5445 0.0019062 537.7951682290212 53.004 1.1296 53.267 52.915 54.044 0.26345 158 66 3 0 0 0 0.00047252 7 24187 24181;24187;24232;24242;24296;24348;24408 132.13 46.493 1 2729300 6666 2020 4284 4300 7693;7694;7695;7696;7697;7698;7699 7694 0.04186609757448423 FPEQIAEKL 9 Unmodified _FPEQIAEKL_ 0 0 0 ENSG00000116212|ENST00000371370|LRRC42 ENSG00000116212|ENST00000371370|LRRC42 ENSG00000116212|ENST00000371370|LRRC42 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.797119140625 2 537.795132 1073.57571 3.0933 0.0016636 0.30427 0.00016363 3.3976 0.0018272 537.7951754973355 52.663 0.75692 53.325 52.987 53.744 0.66198 78 40 2 0 0 0 2.1659E-05 5 24002 23995;24002;24103;24176;24201 143.21 57.572 1 2808700 6667 2020 4284 4300 7700;7701;7702;7703;7704 7701 0.04186609757448423 FPEQNVPEAL 10 Unmodified _FPEQNVPEAL_ 0 0 0 ENSG00000111331|ENST00000228928|OAS3 ENSG00000111331|ENST00000228928|OAS3 ENSG00000111331|ENST00000228928|OAS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.2890014648438 2 572.287671 1142.56079 3.4507 0.0019748 -0.18454 -0.00010561 3.2661 0.0018692 573.2902607277052 60.27 0.56689 60.526 60.082 60.649 0.25578 54 27 3 0 0 0 0.50702 3 27568 27488;27568;27609 23.79 14.407 1 400180 6668 1756 4285 4301 7705;7706;7707 7706 -0.004788821105194074 FPEQNVPEAL 10 Unmodified _FPEQNVPEAL_ 0 0 0 ENSG00000111331|ENST00000228928|OAS3 ENSG00000111331|ENST00000228928|OAS3 ENSG00000111331|ENST00000228928|OAS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 572.28955078125 2 572.287671 1142.56079 NaN NaN NaN NaN NaN NaN NaN 59.815 1 60.48 59.98 60.98 0.66503 0 0 0 0.7512 1 27380 27380 34.402 16.255 1 6669 1756 4285 4301 7708 7708 -0.004788821105194074 FPERKEREM 9 Unmodified _FPERKEREM_ 0 0 0 ENSG00000099795|ENST00000215565|NDUFB7 ENSG00000099795|ENST00000215565|NDUFB7 ENSG00000099795|ENST00000215565|NDUFB7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 407.8737487792969 3 407.873007 1220.59719 NaN NaN NaN NaN NaN NaN NaN 12.349 1 12.611 12.111 13.111 0.26154 0 0 0 0.10783 1 5324 5324 31.636 18.117 1 6670 1149 4286 4302 7709 7709 -0.004283284854636804 FPERKEREM 9 Unmodified _FPERKEREM_ 0 0 0 ENSG00000099795|ENST00000215565|NDUFB7 ENSG00000099795|ENST00000215565|NDUFB7 ENSG00000099795|ENST00000215565|NDUFB7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.8734130859375 3 407.873007 1220.59719 2.1679 0.00088422 -0.72053 -0.00029388 1.4473 0.00059033 407.872460146838 12.336 0.086543 12.643 12.634 12.72 0.30727 9 8 2 0 0 0 0.030603 1 5548 5548 44.392 25.671 1 8372500 6671 1149 4286 4302 7710 7710 -0.004283284854636804 FPERKEREM 9 Unmodified _FPERKEREM_ 0 0 0 ENSG00000099795|ENST00000215565|NDUFB7 ENSG00000099795|ENST00000215565|NDUFB7 ENSG00000099795|ENST00000215565|NDUFB7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 407.87384033203125 3 407.873007 1220.59719 NaN NaN NaN NaN NaN NaN NaN 12.353 1 12.991 12.491 13.491 0.63746 0 0 0 0.46004 1 5522 5522 14.957 8.7228 1 6672 1149 4286 4302 7711 7711 -0.004283284854636804 FPETTEEEL 9 Unmodified _FPETTEEEL_ 0 0 0 ENSG00000023734|ENST00000419869|STRAP;nc|ENSG00000023734|Q9Y3F4-2|STRAP ENSG00000023734|ENST00000419869|STRAP ENSG00000023734|ENST00000419869|STRAP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.7507934570312 2 547.748044 1093.48154 NaN NaN NaN NaN NaN NaN NaN 52.807 1 52.807 52.307 53.307 0 0 0 0 0.42757 1 24186 24186 21.747 5.8995 1 6673 471 4287 4303 7712 7712 -0.06146573855335191 FPETTEEEL 9 Unmodified _FPETTEEEL_ 0 0 0 ENSG00000023734|ENST00000419869|STRAP;nc|ENSG00000023734|Q9Y3F4-2|STRAP ENSG00000023734|ENST00000419869|STRAP ENSG00000023734|ENST00000419869|STRAP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.7493286132812 2 547.748044 1093.48154 NaN NaN NaN NaN NaN NaN NaN 51.556 1 52.374 51.874 52.874 0.81738 0 0 0 0.067429 1 23484 23484 48.346 19.859 1 6674 471 4287 4303 7713 7713 -0.06146573855335191 FPETTEEEL 9 Unmodified _FPETTEEEL_ 0 0 0 ENSG00000023734|ENST00000419869|STRAP;nc|ENSG00000023734|Q9Y3F4-2|STRAP ENSG00000023734|ENST00000419869|STRAP ENSG00000023734|ENST00000419869|STRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.7467651367188 2 547.748044 1093.48154 3.5663 0.0019534 -0.7801 -0.0004273 2.7862 0.0015261 547.7473954867829 52.282 0.63115 52.544 52.465 53.096 0.26227 41 29 2 0 0 0 0.062556 2 23897 23897;24044 42.095 11.87 1 518060 6675 471 4287 4303 7714;7715 7714 -0.06146573855335191 FPETTEEEL 9 Unmodified _FPETTEEEL_ 0 0 0 ENSG00000023734|ENST00000419869|STRAP;nc|ENSG00000023734|Q9Y3F4-2|STRAP ENSG00000023734|ENST00000419869|STRAP ENSG00000023734|ENST00000419869|STRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.7503051757812 2 547.748044 1093.48154 3.3551 0.0018378 -0.38178 -0.00020912 2.9733 0.0016286 547.7478562345493 51.749 0.62785 52.411 51.952 52.58 0.66198 60 37 2 0 0 0 0.12301 1 23586 23586 28.487 3.813 1 756120 6676 471 4287 4303 7716 7716 -0.06146573855335191 FPETTEEEL 9 Unmodified _FPETTEEEL_ 0 0 0 ENSG00000023734|ENST00000419869|STRAP;nc|ENSG00000023734|Q9Y3F4-2|STRAP ENSG00000023734|ENST00000419869|STRAP ENSG00000023734|ENST00000419869|STRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.7506103515625 2 547.748044 1093.48154 3.353 0.0018366 0.21559 0.00011809 3.5685 0.0019547 547.7481222020211 51.955 0.62566 52.617 52.52 53.146 0.66198 50 29 2 0 0 0 0.12301 2 23900 23835;23900 28.487 5.3384 1 249970 6677 471 4287 4303 7717;7718 7718 -0.06146573855335191 FPEYGKVEF 9 Unmodified _FPEYGKVEF_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1;nc|ENSG00000079308|Q9HBL0-2|TNS1;ENST00000479185.1_1_2:218746916-218750490:-|nuORF nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.322021484375 2 558.274032 1114.53351 NaN NaN NaN NaN NaN NaN NaN 59.458 1 59.458 58.958 59.958 0 0 0 0 0.55812 1 27487 27487 17.113 0.026346 1 6678 892 4288 4304 7719 7719 -0.019173656509110515 FPFDETATI 9 Unmodified _FPFDETATI_ 0 0 0 REV__ENSG00000263761|ENST00000581492|GDF2 REV__ENSG00000263761|ENST00000581492|GDF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.7525634765625 2 520.75039 1039.48623 3.3803 0.0017603 0.86226 0.00044902 4.2426 0.0022093 520.7506843756862 83.991 0.38271 84.239 84.033 84.415 0.24722 56 21 3 0 0 0 0.29781 1 38708 38708 16.942 2.3606 1 4168300 + 6679 14702 4289 4305 7720 7720 -0.03193644921907435 FPFDETATI 9 Unmodified _FPFDETATI_ 0 0 0 REV__ENSG00000263761|ENST00000581492|GDF2 REV__ENSG00000263761|ENST00000581492|GDF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.75244140625 2 520.75039 1039.48623 3.4995 0.0018224 0.25747 0.00013408 3.757 0.0019565 520.7504053516559 83.516 0.43372 84.178 83.93 84.363 0.66219 82 28 4 0 0 0 0.29781 1 38461 38461 16.942 16.942 1 3524700 + 6680 14702 4289 4305 7721 7721 -0.03193644921907435 FPFHESIL 8 Unmodified _FPFHESIL_ 0 0 0 nc|ENSG00000120802|P42166|TMPO nc|ENSG00000120802|P42166|TMPO nc|ENSG00000120802|P42166|TMPO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.25885009765625 2 495.258185 988.501818 3.3037 0.0016362 -0.14154 -7.01E-05 3.1622 0.0015661 495.25815433046057 65.259 0.53539 65.916 65.655 66.191 0.65672 47 31 2 0 0 0 0.23254 1 29970 29970 40.449 6.2612 1 417360 6681 9616 4290 4306 7722 7722 0.007106863858211909 FPFHESIL 8 Unmodified _FPFHESIL_ 0 0 0 nc|ENSG00000120802|P42166|TMPO nc|ENSG00000120802|P42166|TMPO nc|ENSG00000120802|P42166|TMPO MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 495.258185 988.501818 3.3601 0.0016641 0.10761 5.3294E-05 3.4677 0.0017174 495.2582647719962 65.741 0.44981 65.989 65.84 66.289 0.24847 0.036777 0.00012148 NaN 40.449 42 24 2 NaN NaN NaN NaN 0 NaN NaN 0 515200 6682 9616 4290 4306 0.007106863858211909 FPFIRDQPTER 11 Unmodified _FPFIRDQPTER_ 0 0 0 nc|ENSG00000141503|Q8N4C8-5|MINK1;nc|ENSG00000141503|Q8N4C8-2|MINK1;nc|ENSG00000141503|Q8N4C8-3|MINK1;nc|ENSG00000141503|Q8N4C8-4|MINK1;ENSG00000141503|ENST00000355280|MINK1;ENST00000572330.5_1_17:4736842-4793277:+|nuORF nc|ENSG00000141503|Q8N4C8-5|MINK1 nc|ENSG00000141503|Q8N4C8-5|MINK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 703.3656616210938 2 703.364776 1404.715 NaN NaN NaN NaN NaN NaN NaN 73.966 1 74.631 74.131 75.131 0.6644 0 0 0 1.0059 1 34035 34035 2.9952 1.151 1 6683 3262 4291 4307 7723 7723 0.028829473748373857 FPFKKSRWCR 10 Unmodified _FPFKKSRWCR_ 0 0 0 REV__ENSG00000122873|ENST00000333926|CISD1 REV__ENSG00000122873|ENST00000333926|CISD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 678.15771484375 2 677.863692 1353.71283 NaN NaN NaN NaN NaN NaN NaN 54.542 1 54.542 54.042 55.042 0 0 0 0 0.99812 1 25030 25030 3.2813 0.28607 1 + 6684 11596 4292 4308 7724 7724 0.050122401560656726 FPFLLHQQQQ 10 Unmodified _FPFLLHQQQQ_ 0 0 0 REV__ENSG00000140836|ENST00000268489|ZFHX3 REV__ENSG00000140836|ENST00000268489|ZFHX3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 429.2289733886719 3 429.227779 1284.66151 2.7231 0.0011688 -0.60095 -0.00025794 2.1222 0.00091089 429.22760286666573 45.861 0.28014 46.687 46.558 46.838 0.82621 38 14 3 0 0 0 0.66557 1 20931 20931 8.9762 0 1 5138200 + 6685 12267 4293 4309 7725 7725 0.03056194662985945 FPFQDIEL 8 Unmodified _FPFQDIEL_ 0 0 0 nc|ENSG00000144036|Q9Y2D4-2|EXOC6B;ENSG00000144036|ENST00000272427|EXOC6B nc|ENSG00000144036|Q9Y2D4-2|EXOC6B nc|ENSG00000144036|Q9Y2D4-2|EXOC6B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.7574768066406 2 504.755475 1007.4964 3.6811 0.001858 0.45597 0.00023015 4.137 0.0020882 504.75543718772485 91.217 0.56586 91.469 91.187 91.752 0.25163 60 24 3 0 0 0 0.045071 4 41920 41870;41920;41981;42039 67.344 22.937 1 1736400 6686 3408 4294 4310 7726;7727;7728;7729 7727 -0.007050371966784041 FPFQDIEL 8 Unmodified _FPFQDIEL_ 0 0 0 nc|ENSG00000144036|Q9Y2D4-2|EXOC6B;ENSG00000144036|ENST00000272427|EXOC6B nc|ENSG00000144036|Q9Y2D4-2|EXOC6B nc|ENSG00000144036|Q9Y2D4-2|EXOC6B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.7568359375 2 504.755475 1007.4964 3.4293 0.0017309 0.23515 0.00011869 3.6644 0.0018496 504.75541500672085 90.587 0.62486 91.26 91.007 91.631 0.67271 82 33 3 0 0 0 0.017856 5 41675 41624;41675;41721;41770;41815 89.427 42.506 1 1661900 6687 3408 4294 4310 7730;7731;7732;7733;7734 7731 -0.007050371966784041 FPFQWQHVY 9 Unmodified _FPFQWQHVY_ 0 0 0 nc|ENSG00000184014|Q6IQ26-2|DENND5A;ENSG00000184014|ENST00000328194|DENND5A;nc|ENSG00000170456|Q6ZUT9-3|DENND5B;nc|ENSG00000170456|Q6ZUT9-4|DENND5B;DENND5B|p.L1254Cfs*9|1|0.33|ENSG00000170456|chr12:31387669-31387669|A/-|frameshift_variant;ENSG00000170456|ENST00000389082|DENND5B;nc|ENSG00000170456|Q6ZUT9-2|DENND5B nc|ENSG00000184014|Q6IQ26-2|DENND5A;DENND5B|p.L1254Cfs*9|1|0.33|ENSG00000170456|chr12:31387669-31387669|A/-|frameshift_variant nc|ENSG00000184014|Q6IQ26-2|DENND5A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 417.8707275390625 3 417.869703 1250.58728 NaN NaN NaN NaN NaN NaN NaN 12.458 1 13.1 12.6 13.6 0.64272 0 0 0 0.90511 1 5584 5584 1.1933 0 1 6688 5418;263 4295 4311 7735 7735 -0.027991484285166734 FPFRKDLRM 9 Unmodified _FPFRKDLRM_ 0 0 0 nc|ENSG00000111880|O60942-3|RNGTT;nc|ENSG00000111880|O60942-4|RNGTT;nc|ENSG00000111880|O60942-2|RNGTT;ENSG00000111880|ENST00000369485|RNGTT nc|ENSG00000111880|O60942-3|RNGTT nc|ENSG00000111880|O60942-3|RNGTT MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 403.9300842285156 3 403.890221 1208.64883 3.1914 0.001289 0.57352 0.00023164 3.7649 0.0015206 404.2250729866756 40.101 0.13797 40.742 40.634 40.772 0.64136 5 4 2 0 0 0 0.094207 1 18335 18335 8.9762 4.4474 1 530540 6689 1784 4296 4312 7736 7736 0.05285459999072373 FPFSRPELL 9 Unmodified _FPFSRPELL_ 0 0 0 nc|ENSG00000041988|Q8WTV1-4|THAP3;nc|ENSG00000041988|Q8WTV1-3|THAP3;ENSG00000041988|ENST00000054650|THAP3 nc|ENSG00000041988|Q8WTV1-4|THAP3 nc|ENSG00000041988|Q8WTV1-4|THAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.3074340820312 2 553.305667 1104.59678 3.332 0.0018436 0.138 7.6356E-05 3.47 0.0019199 553.3058302405982 70.936 0.7126 71.194 70.883 71.596 0.25785 70 57 2 0 0 0 0.053453 4 32522 32355;32420;32472;32522 45.7 15.063 1 578180 6690 541 4297 4313 7737;7738;7739;7740 7740 0.048666198569890184 FPFSRPELL 9 Unmodified _FPFSRPELL_ 0 0 0 nc|ENSG00000041988|Q8WTV1-4|THAP3;nc|ENSG00000041988|Q8WTV1-3|THAP3;ENSG00000041988|ENST00000054650|THAP3 nc|ENSG00000041988|Q8WTV1-4|THAP3 nc|ENSG00000041988|Q8WTV1-4|THAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.3074951171875 2 553.305667 1104.59678 3.0715 0.0016995 0.43834 0.00024254 3.5099 0.001942 553.3059763272012 70.356 0.68678 71.018 70.737 71.424 0.66209 72 40 2 0 0 0 0.078225 5 32295 32184;32251;32295;32339;32384 38.176 10.911 1 671170 6691 541 4297 4313 7741;7742;7743;7744;7745 7743 0.048666198569890184 FPFWYRRLIYW 11 Unmodified _FPFWYRRLIYW_ 0 0 0 ENSG00000188334|ENST00000344839|BSPH1 ENSG00000188334|ENST00000344839|BSPH1 ENSG00000188334|ENST00000344839|BSPH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.626953125 3 549.625873 1645.85579 NaN NaN NaN NaN NaN NaN NaN 92.71 1 92.71 92.21 93.21 0 0 0 0 1.0082 1 49331 49331 0.08335 0.08335 1 6692 5666 4298 4314 7746 7746 0.05869570818936154 FPGAKGGR 8 Unmodified _FPGAKGGR_ 0 0 0 nc|ENSG00000197177|Q86SQ6-1|ADGRA1 nc|ENSG00000197177|Q86SQ6-1|ADGRA1 nc|ENSG00000197177|Q86SQ6-1|ADGRA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.2237243652344 2 395.221937 788.429321 3.1942 0.0012624 1.0931 0.00043203 4.2874 0.0016945 395.22228903685937 32.591 0.45168 32.846 32.649 33.1 0.25452 42 22 2 0 0 0 0.7471 1 14947 14947 0.69038 0 1 900040 6693 9802 4299 4315 7747 7747 0.02664397102910243 FPGEAERVAF 10 Unmodified _FPGEAERVAF_ 0 0 0 ENSG00000188636|ENST00000341255|RTL6 ENSG00000188636|ENST00000341255|RTL6 ENSG00000188636|ENST00000341255|RTL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.784423828125 2 561.782556 1121.55056 3.447 0.0019364 0.062436 3.5075E-05 3.5094 0.0019715 561.7825866145745 52.656 1.0362 52.656 52.38 53.417 0 181 75 3 0 0 0 0.019565 10 24061 24012;24061;24107;24161;24224;24277;24325;24378;24394;24433 75.571 39.444 1 2784500 6694 5672 4300 4316 7748;7749;7750;7751;7752;7753;7754;7755;7756;7757 7749 -0.005354450451022785 FPGEAERVAF 10 Unmodified _FPGEAERVAF_ 0 0 0 ENSG00000188636|ENST00000341255|RTL6 ENSG00000188636|ENST00000341255|RTL6 ENSG00000188636|ENST00000341255|RTL6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.7850341796875 2 561.782556 1121.55056 NaN NaN NaN NaN NaN NaN NaN 53.506 1 53.506 53.006 54.006 0 0 0 0 0.91843 1 24518 24518 18.373 4.467 1 6695 5672 4300 4316 7758 7758 -0.005354450451022785 FPGEAERVAF 10 Unmodified _FPGEAERVAF_ 0 0 0 ENSG00000188636|ENST00000341255|RTL6 ENSG00000188636|ENST00000341255|RTL6 ENSG00000188636|ENST00000341255|RTL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.7847900390625 2 561.782556 1121.55056 2.81 0.0015786 0.56566 0.00031778 3.3757 0.0018964 561.7827042860652 51.654 1.1293 52.465 52.166 53.295 0.81066 156 78 4 0 0 0 0.0056243 9 23474 23428;23474;23517;23560;23607;23664;23709;23759;23830 93.938 54.958 1 2884900 6696 5672 4300 4316 7759;7760;7761;7762;7763;7764;7765;7766;7767 7760 -0.005354450451022785 FPGEAERVAF 10 Unmodified _FPGEAERVAF_ 0 0 0 ENSG00000188636|ENST00000341255|RTL6 ENSG00000188636|ENST00000341255|RTL6 ENSG00000188636|ENST00000341255|RTL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.78515625 2 561.782556 1121.55056 3.6137 0.0020301 -0.75773 -0.00042568 2.856 0.0016044 561.7818872124295 52.5 1.3096 52.763 52.486 53.796 0.26344 122 75 4 0 0 0 0.013625 10 23969 23912;23969;24024;24081;24130;24171;24200;24271;24321;24328 87.258 51.131 1 3144400 6697 5672 4300 4316 7768;7769;7770;7771;7772;7773;7774;7775;7776;7777 7769 -0.005354450451022785 FPGEAERVAF 10 Unmodified _FPGEAERVAF_ 0 0 0 ENSG00000188636|ENST00000341255|RTL6 ENSG00000188636|ENST00000341255|RTL6 ENSG00000188636|ENST00000341255|RTL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.7853393554688 2 561.782556 1121.55056 3.3685 0.0018924 -0.068278 -3.8357E-05 3.3003 0.001854 561.7825157289133 51.877 1.1052 52.539 52.263 53.368 0.66198 138 57 3 0 0 0 0.016901 9 23762 23714;23722;23762;23819;23869;23918;23969;23986;24033 84.522 48.395 1 1976700 6698 5672 4300 4316 7778;7779;7780;7781;7782;7783;7784;7785;7786 7780 -0.005354450451022785 FPGGKEYLM 9 Unmodified _FPGGKEYLM_ 0 0 0 ENSG00000072958|ENST00000291439|AP1M1;nc|ENSG00000072958|Q9BXS5-2|AP1M1;ENSG00000129354|ENST00000250244|AP1M2;nc|ENSG00000129354|Q9Y6Q5-2|AP1M2 ENSG00000072958|ENST00000291439|AP1M1;ENSG00000129354|ENST00000250244|AP1M2 ENSG00000072958|ENST00000291439|AP1M1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.2573852539062 2 521.257328 1040.5001 3.3506 0.0017465 -0.94117 -0.00049059 2.4095 0.0012559 521.2567725841782 51.344 0.59594 51.344 51.187 51.783 0 41 32 2 0 0 0 0.15661 2 23523 23523;23585 26.268 7.0112 1 313120 6699 800;2549 4301 4317 7787;7788 7787 -0.018526906944543953 FPGGKEYLM 9 Unmodified _FPGGKEYLM_ 0 0 0 ENSG00000072958|ENST00000291439|AP1M1;nc|ENSG00000072958|Q9BXS5-2|AP1M1;ENSG00000129354|ENST00000250244|AP1M2;nc|ENSG00000129354|Q9Y6Q5-2|AP1M2 ENSG00000072958|ENST00000291439|AP1M1;ENSG00000129354|ENST00000250244|AP1M2 ENSG00000072958|ENST00000291439|AP1M1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.259765625 2 521.257328 1040.5001 NaN NaN NaN NaN NaN NaN NaN 50.686 1 51.346 50.846 51.846 0.65956 0 0 0 0.40345 1 23176 23176 22.736 3.4793 1 6700 800;2549 4301 4317 7789 7789 -0.018526906944543953 FPGIEVTV 8 Unmodified _FPGIEVTV_ 0 0 0 ENSG00000104889|ENST00000221486|RNASEH2A ENSG00000104889|ENST00000221486|RNASEH2A ENSG00000104889|ENST00000221486|RNASEH2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 861.4732666015625 1 861.471646 860.46437 3.0827 0.0026557 1.0969 0.00094492 4.1796 0.0036006 861.4722659272691 75.819 0.35385 76.482 76.366 76.72 0.6635 45 28 2 0 0 0 0.013019 4 36764 36694;36740;36764;36792 93.883 31.041 1 1289400 6701 1460 4302 4318 7790;7791;7792;7793 7792 0.02855595120183807 FPGIEVTV 8 Unmodified _FPGIEVTV_ 0 0 0 ENSG00000104889|ENST00000221486|RNASEH2A ENSG00000104889|ENST00000221486|RNASEH2A ENSG00000104889|ENST00000221486|RNASEH2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 861.474609375 1 861.471646 860.46437 3.7023 0.0031894 0.23085 0.00019887 3.9332 0.0033883 861.4715448204648 76.45 0.47421 76.705 76.514 76.988 0.25533 50 34 2 0 0 0 0.016327 3 35195 35143;35195;35263 90.836 31.041 1 1114700 6702 1460 4302 4318 7794;7795;7796 7795 0.02855595120183807 FPGIEVTV 8 Unmodified _FPGIEVTV_ 0 0 0 ENSG00000104889|ENST00000221486|RNASEH2A ENSG00000104889|ENST00000221486|RNASEH2A ENSG00000104889|ENST00000221486|RNASEH2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 861.4755249023438 1 861.471646 860.46437 3.5771 0.0030816 0.21775 0.00018758 3.7949 0.0032692 861.4715471311154 75.93 0.46759 76.594 76.441 76.909 0.66387 66 37 2 0 0 0 0.029506 4 34947 34947;34988;35034;35082 78.445 18.65 1 1185000 6703 1460 4302 4318 7797;7798;7799;7800 7797 0.02855595120183807 FPGKKLVL 8 Unmodified _FPGKKLVL_ 0 0 0 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.2995300292969 2 451.297114 900.579674 NaN NaN NaN NaN NaN NaN NaN 38.46 1 38.724 38.224 39.224 0.26408 0 0 0 0.26755 1 17508 17508 38.151 13.477 1 6704 2416 4303 4319 7801 7801 0.12540744041837115 FPGKKLVL 8 Unmodified _FPGKKLVL_ 0 0 0 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.2987060546875 2 451.297114 900.579674 NaN NaN NaN NaN NaN NaN NaN 38.956 1 39.22 38.72 39.72 0.26408 0 0 0 0.57268 1 17728 17728 26.341 5.4701 1 6705 2416 4303 4319 7802 7802 0.12540744041837115 FPGKKLVL 8 Unmodified _FPGKKLVL_ 0 0 0 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.2981262207031 2 451.297114 900.579674 2.9303 0.0013225 0.061985 2.7974E-05 2.9923 0.0013504 451.29711981337846 38.048 1.2791 38.682 38.151 39.43 0.63388 64 48 2 0 0 0 0.42655 3 17402 17336;17402;17470 26.341 6.9023 1 356640 6706 2416 4303 4319 7803;7804;7805 7804 0.12540744041837115 FPGKRRPRG 9 Unmodified _FPGKRRPRG_ 0 0 0 ENSG00000055609|ENST00000262189|KMT2C;nc|ENSG00000055609|Q8NEZ4-2|KMT2C;nc|ENSG00000055609|Q8NEZ4-3|KMT2C ENSG00000055609|ENST00000262189|KMT2C ENSG00000055609|ENST00000262189|KMT2C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.55120849609375 3 357.549186 1069.62573 NaN NaN NaN NaN NaN NaN NaN 51.163 1 51.823 51.323 52.323 0.65956 0 0 0 0.90611 1 23395 23395 1.0715 0 1 6707 616 4304 4320 7806 7806 0.09370201996648575 FPGRKRRRRRR 11 Unmodified _FPGRKRRRRRR_ 0 0 0 nc|ENSG00000135272|Q9P1T7-1|MDFIC nc|ENSG00000135272|Q9P1T7-1|MDFIC nc|ENSG00000135272|Q9P1T7-1|MDFIC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 770.9838256835938 2 770.98525 1539.95595 NaN NaN NaN NaN NaN NaN NaN 28.327 1 29.113 28.613 29.613 0.78627 0 0 0 1.0082 1 12754 12754 0 0 1 6708 9655 4305 4321 7807 7807 0.20756665715930467 FPGSEDVKL 9 Unmodified _FPGSEDVKL_ 0 0 0 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.2600402832031 2 496.258382 990.502212 3.0139 0.0014957 -0.38205 -0.0001896 2.6319 0.0013061 496.2583435844413 49.172 1.3283 49.172 48.94 50.268 0 100 63 3 0 0 0 0.0043297 4 22570 22484;22570;22639;22709 93.166 61.049 1 1426100 6709 1989 4306 4322 7808;7809;7810;7811 7809 0.006580613149935743 FPGSEDVKL 9 Unmodified _FPGSEDVKL_ 0 0 0 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.2598571777344 2 496.258382 990.502212 3.0869 0.0015319 -0.3879 -0.0001925 2.699 0.0013394 496.25817724784054 48.205 1.2795 49.034 48.642 49.921 0.82915 93 65 2 0 0 0 0.019364 5 21929 21874;21929;21985;22042;22170 69.105 40.618 1 914450 6710 1989 4306 4322 7812;7813;7814;7815;7816 7813 0.006580613149935743 FPGSEDVKL 9 Unmodified _FPGSEDVKL_ 0 0 0 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.260498046875 2 496.258382 990.502212 NaN NaN NaN NaN NaN NaN NaN 49.232 1 49.493 48.993 49.993 0.26146 0 0 0 0.1585 1 22505 22505 32.786 8.1118 1 6711 1989 4306 4322 7817 7817 0.006580613149935743 FPGSEDVKL 9 Unmodified _FPGSEDVKL_ 0 0 0 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.26055908203125 2 496.258382 990.502212 NaN NaN NaN NaN NaN NaN NaN 49.354 1 49.615 49.115 50.115 0.26146 0 0 0 0.12987 1 22561 22561 36.127 16.688 1 6712 1989 4306 4322 7818 7818 0.006580613149935743 FPGSEDVKL 9 Unmodified _FPGSEDVKL_ 0 0 0 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.2591857910156 2 496.258382 990.502212 NaN NaN NaN NaN NaN NaN NaN 48.68 1 49.335 48.835 49.835 0.65524 0 0 0 0.1585 1 22274 22274 32.786 8.1118 1 6713 1989 4306 4322 7819 7819 0.006580613149935743 FPGSEDVKL 9 Unmodified _FPGSEDVKL_ 0 0 0 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.2596740722656 2 496.258382 990.502212 NaN NaN NaN NaN NaN NaN NaN 48.844 1 49.499 48.999 49.999 0.65524 0 0 0 0.13912 1 22348 22348 34.402 13.531 1 6714 1989 4306 4322 7820 7820 0.006580613149935743 FPHDAQIWFV 10 Unmodified _FPHDAQIWFV_ 0 0 0 REV__ENST00000342992.10_3_2:179437654-179437981:-|nuORF REV__ENST00000342992.10_3_2:179437654-179437981:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 420.5468444824219 3 420.545108 1258.61349 2.906 0.0012221 -0.20885 -8.7829E-05 2.6972 0.0011343 420.5451667864662 21.674 0.48069 21.674 21.522 22.002 0 100 44 3 0 0 0 0.90196 1 9666 9666 3.5871 0 1 320410 + 6715 15478 4307 4323 7821 7821 -0.005468792570809455 FPHGDLTEF 9 Unmodified _FPHGDLTEF_ 0 0 0 NISCH|p.K921Nfs*45|1|0.17|ENSG00000010322|chr3:52488255-52488262|GGCCGACT/-|frameshift_variant;ENSG00000010322|ENST00000345716|NISCH;ENST00000489895.5_1_3:52514938-52524786:+|nuORF;nc|ENSG00000010322|Q9Y2I1-2|NISCH NISCH|p.K921Nfs*45|1|0.17|ENSG00000010322|chr3:52488255-52488262|GGCCGACT/-|frameshift_variant NISCH|p.K921Nfs*45|1|0.17|ENSG00000010322|chr3:52488255-52488262|GGCCGACT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.7520751953125 2 531.748182 1061.48181 3.0002 0.0015953 0.42632 0.0002267 3.4265 0.001822 531.7483847710157 55.98 0.60267 55.98 55.853 56.455 0 92 46 3 0 0 0 0.010037 2 25807 25751;25807 81.864 45.82 1 1099100 6716 399 4308 4324 7822;7823 7823 -0.046471093448190004 FPHGDLTEF 9 Unmodified _FPHGDLTEF_ 0 0 0 NISCH|p.K921Nfs*45|1|0.17|ENSG00000010322|chr3:52488255-52488262|GGCCGACT/-|frameshift_variant;ENSG00000010322|ENST00000345716|NISCH;ENST00000489895.5_1_3:52514938-52524786:+|nuORF;nc|ENSG00000010322|Q9Y2I1-2|NISCH NISCH|p.K921Nfs*45|1|0.17|ENSG00000010322|chr3:52488255-52488262|GGCCGACT/-|frameshift_variant NISCH|p.K921Nfs*45|1|0.17|ENSG00000010322|chr3:52488255-52488262|GGCCGACT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.7499389648438 2 531.748182 1061.48181 2.7315 0.0014525 0.10871 5.7807E-05 2.8402 0.0015103 531.7483048587205 54.95 0.62985 55.737 55.58 56.21 0.78711 80 45 2 0 0 0 0.026068 4 25150 25102;25150;25192;25259 60.39 30.427 1 1082000 6717 399 4308 4324 7824;7825;7826;7827 7825 -0.046471093448190004 FPHGDLTEF 9 Unmodified _FPHGDLTEF_ 0 0 0 NISCH|p.K921Nfs*45|1|0.17|ENSG00000010322|chr3:52488255-52488262|GGCCGACT/-|frameshift_variant;ENSG00000010322|ENST00000345716|NISCH;ENST00000489895.5_1_3:52514938-52524786:+|nuORF;nc|ENSG00000010322|Q9Y2I1-2|NISCH NISCH|p.K921Nfs*45|1|0.17|ENSG00000010322|chr3:52488255-52488262|GGCCGACT/-|frameshift_variant NISCH|p.K921Nfs*45|1|0.17|ENSG00000010322|chr3:52488255-52488262|GGCCGACT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.7487182617188 2 531.748182 1061.48181 3.0283 0.0016103 0.44917 0.00023885 3.4775 0.0018491 531.7482364196227 56.105 0.49666 56.37 56.071 56.568 0.26543 31 19 2 0 0 0 0.026068 2 25574 25574;25624 60.39 24.345 1 648640 6718 399 4308 4324 7828;7829 7828 -0.046471093448190004 FPHGDLTEF 9 Unmodified _FPHGDLTEF_ 0 0 0 NISCH|p.K921Nfs*45|1|0.17|ENSG00000010322|chr3:52488255-52488262|GGCCGACT/-|frameshift_variant;ENSG00000010322|ENST00000345716|NISCH;ENST00000489895.5_1_3:52514938-52524786:+|nuORF;nc|ENSG00000010322|Q9Y2I1-2|NISCH NISCH|p.K921Nfs*45|1|0.17|ENSG00000010322|chr3:52488255-52488262|GGCCGACT/-|frameshift_variant NISCH|p.K921Nfs*45|1|0.17|ENSG00000010322|chr3:52488255-52488262|GGCCGACT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.74951171875 2 531.748182 1061.48181 3.2538 0.0017302 0.26473 0.00014077 3.5185 0.001871 531.7482590597758 55.324 0.59188 55.992 55.675 56.267 0.66798 31 23 2 0 0 0 0.056465 2 25254 25254;25326 44.407 19.008 1 886210 6719 399 4308 4324 7830;7831 7830 -0.046471093448190004 FPHGGGFVL 9 Unmodified _FPHGGGFVL_ 0 0 0 ENST00000604175.5_1_9:90586022-90589430:-|nuORF;ENST00000459720.5_1_9:90585689-90589466:-|nuORF;nc|ENSG00000156345|Q8IZL9-2|CDK20;nc|ENSG00000156345|Q8IZL9-3|CDK20;nc|ENSG00000156345|Q8IZL9-5|CDK20;ENSG00000156345|ENST00000325303|CDK20;ENST00000603475.1_1_9:90586022-90589145:-|nuORF;nc|ENSG00000156345|Q8IZL9-4|CDK20 ENST00000604175.5_1_9:90586022-90589430:-|nuORF ENST00000604175.5_1_9:90586022-90589430:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.7460021972656 2 465.745245 929.475937 NaN NaN NaN NaN NaN NaN NaN 59.188 1 59.947 59.447 60.447 0.75894 0 0 0 0.89315 1 27203 27203 5.2307 0 1 6720 3907 4309 4325 7832 7832 0.008378369341926373 FPHGGGFVL 9 Unmodified _FPHGGGFVL_ 0 0 0 ENST00000604175.5_1_9:90586022-90589430:-|nuORF;ENST00000459720.5_1_9:90585689-90589466:-|nuORF;nc|ENSG00000156345|Q8IZL9-2|CDK20;nc|ENSG00000156345|Q8IZL9-3|CDK20;nc|ENSG00000156345|Q8IZL9-5|CDK20;ENSG00000156345|ENST00000325303|CDK20;ENST00000603475.1_1_9:90586022-90589145:-|nuORF;nc|ENSG00000156345|Q8IZL9-4|CDK20 ENST00000604175.5_1_9:90586022-90589430:-|nuORF ENST00000604175.5_1_9:90586022-90589430:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.7452087402344 2 465.745245 929.475937 NaN NaN NaN NaN NaN NaN NaN 60.373 1 60.628 60.128 61.128 0.25578 0 0 0 0.44891 1 27643 27643 20.871 2.7362 1 6721 3907 4309 4325 7833 7833 0.008378369341926373 FPHHDNEL 8 Unmodified _FPHHDNEL_ 0 0 0 nc|ENSG00000110619|P49589|CARS1;ENST00000531387.5_1_11:3022346-3069017:-|nuORF;ENSG00000110619|ENST00000380525|CARS1;ENST00000526890.5_1_11:3039642-3048038:-|nuORF;nc|ENSG00000110619|P49589-2|CARS1 nc|ENSG00000110619|P49589|CARS1 nc|ENSG00000110619|P49589|CARS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.73193359375 2 504.730323 1007.44609 NaN NaN NaN NaN NaN NaN NaN 18.496 1 18.794 18.294 19.294 0.29753 0 0 0 0.69067 1 8387 8387 22.736 0.98964 1 6722 1721 4310 4326 7834 7834 -0.057331468018105625 FPHHDNEL 8 Unmodified _FPHHDNEL_ 0 0 0 nc|ENSG00000110619|P49589|CARS1;ENST00000531387.5_1_11:3022346-3069017:-|nuORF;ENSG00000110619|ENST00000380525|CARS1;ENST00000526890.5_1_11:3039642-3048038:-|nuORF;nc|ENSG00000110619|P49589-2|CARS1 nc|ENSG00000110619|P49589|CARS1 nc|ENSG00000110619|P49589|CARS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.73223876953125 2 504.730323 1007.44609 NaN NaN NaN NaN NaN NaN NaN 18.588 1 18.886 18.386 19.386 0.29753 0 0 0 0.29949 1 8431 8431 36.127 12.979 1 6723 1721 4310 4326 7835 7835 -0.057331468018105625 FPHHDNEL 8 Unmodified _FPHHDNEL_ 0 0 0 nc|ENSG00000110619|P49589|CARS1;ENST00000531387.5_1_11:3022346-3069017:-|nuORF;ENSG00000110619|ENST00000380525|CARS1;ENST00000526890.5_1_11:3039642-3048038:-|nuORF;nc|ENSG00000110619|P49589-2|CARS1 nc|ENSG00000110619|P49589|CARS1 nc|ENSG00000110619|P49589|CARS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.73150634765625 2 504.730323 1007.44609 NaN NaN NaN NaN NaN NaN NaN 18.14 1 18.801 18.301 19.301 0.66072 0 0 0 0.19571 1 8204 8204 81.613 39.519 1 6724 1721 4310 4326 7836 7836 -0.057331468018105625 FPHHEFVAL 9 Unmodified _FPHHEFVAL_ 0 0 0 nc|ENSG00000172269|Q9H3H5-2|DPAGT1;ENSG00000172269|ENST00000354202|DPAGT1 nc|ENSG00000172269|Q9H3H5-2|DPAGT1 nc|ENSG00000172269|Q9H3H5-2|DPAGT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.78369140625 2 548.782359 1095.55016 3.7602 0.0020636 -2.2917 -0.0012577 1.4685 0.0008059 548.781700603418 47.213 0.23877 47.477 47.342 47.58 0.26363 14 10 2 0 0 0 0.3144 1 21570 21570 15.847 3.3156 1 233520 6725 4864 4311 4327 7837 7837 0.006211800257005962 FPHHEFVAL 9 Unmodified _FPHHEFVAL_ 0 0 0 nc|ENSG00000172269|Q9H3H5-2|DPAGT1;ENSG00000172269|ENST00000354202|DPAGT1 nc|ENSG00000172269|Q9H3H5-2|DPAGT1 nc|ENSG00000172269|Q9H3H5-2|DPAGT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.1915588378906 3 366.190665 1095.55016 2.8533 0.0010449 -1.8387 -0.00067333 1.0146 0.00037154 366.52377873790056 47.23 0.27145 47.494 47.342 47.613 0.26363 16 11 2 0 0 0 0.98132 1 21589 21589 2.4985 0 1 331540 6726 4864 4311 4327 7838 7838 0.006211800257005962 FPHHEFVAL 9 Unmodified _FPHHEFVAL_ 0 0 0 nc|ENSG00000172269|Q9H3H5-2|DPAGT1;ENSG00000172269|ENST00000354202|DPAGT1 nc|ENSG00000172269|Q9H3H5-2|DPAGT1 nc|ENSG00000172269|Q9H3H5-2|DPAGT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 548.782359 1095.55016 3.4023 0.0018671 -3.953 -0.0021693 -0.55064 -0.00030218 548.7804453345115 47.519 0.17822 47.519 47.37 47.548 0 0.096114 -0.0014021 NaN 15.847 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 273480 6727 4864 4311 4327 0.006211800257005962 FPHHEFVAL 9 Unmodified _FPHHEFVAL_ 0 0 0 nc|ENSG00000172269|Q9H3H5-2|DPAGT1;ENSG00000172269|ENST00000354202|DPAGT1 nc|ENSG00000172269|Q9H3H5-2|DPAGT1 nc|ENSG00000172269|Q9H3H5-2|DPAGT1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 548.782359 1095.55016 3.6387 0.0019968 -2.2306 -0.0012241 1.4081 0.00077273 548.7819125602821 46.62 0.17519 47.272 47.196 47.371 0.65219 -0.15029 0.00048833 NaN 15.847 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 276920 6728 4864 4311 4327 0.006211800257005962 FPHKKRWWLVR 11 Unmodified _FPHKKRWWLVR_ 0 0 0 REV__nc|ENSG00000078269|O15056-3|SYNJ2 REV__nc|ENSG00000078269|O15056-3|SYNJ2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 776.952392578125 2 776.95423 1551.89391 NaN NaN NaN NaN NaN NaN NaN 73.06 1 73.06 72.56 73.56 0 0 0 0 1.0071 1 35572 35572 1.4819 1.1749 1 + 6729 10569 4312 4328 7839 7839 0.14003501524257445 FPHKRLQQL 9 Unmodified _FPHKRLQQL_ 0 0 0 ENSG00000126215|ENST00000555055|XRCC3 ENSG00000126215|ENST00000555055|XRCC3 ENSG00000126215|ENST00000555055|XRCC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.5657043457031 3 389.564614 1165.67201 2.7124 0.0010567 0.70083 0.00027302 3.4132 0.0013297 389.564658707371 18.08 0.27467 18.382 18.357 18.631 0.30159 67 31 3 0 0 0 1.0755 1 8264 8264 2.7352 2.7352 1 277220 6730 2446 4313 4329 7840 7840 0.0958022210809304 FPHKRLQQL 9 Unmodified _FPHKRLQQL_ 0 0 0 ENSG00000126215|ENST00000555055|XRCC3 ENSG00000126215|ENST00000555055|XRCC3 ENSG00000126215|ENST00000555055|XRCC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.9008483886719 3 389.564614 1165.67201 2.8561 0.0011126 0.78414 0.00030547 3.6403 0.0014181 389.8993426100538 17.97 0.13912 18.631 18.54 18.679 0.66072 29 18 2 0 0 0 0.29523 1 8105 8105 17.113 4.9381 1 654620 6731 2446 4313 4329 7841 7841 0.0958022210809304 FPHLQDAQV 9 Unmodified _FPHLQDAQV_ 0 0 0 ENSG00000082898|ENST00000401558|XPO1;XPO1|p.S984P|1|0.22|ENSG00000082898|chr2:61482402-61482402|A/G|missense_variant;ENST00000428210.5_1_2:61705957-61719950:-|nuORF ENSG00000082898|ENST00000401558|XPO1 ENSG00000082898|ENST00000401558|XPO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.7703857421875 2 527.769448 1053.52434 3.4712 0.001832 -0.56535 -0.00029838 2.9059 0.0015336 527.7686046523613 46.856 0.34972 47.121 46.899 47.249 0.26498 15 11 2 0 0 0 0.057744 1 21420 21420 43.858 2.0187 1 419030 6732 934 4314 4330 7842 7842 -0.00027714216571439465 FPHLQDAQV 9 Unmodified _FPHLQDAQV_ 0 0 0 ENSG00000082898|ENST00000401558|XPO1;XPO1|p.S984P|1|0.22|ENSG00000082898|chr2:61482402-61482402|A/G|missense_variant;ENST00000428210.5_1_2:61705957-61719950:-|nuORF ENSG00000082898|ENST00000401558|XPO1 ENSG00000082898|ENST00000401558|XPO1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 527.769448 1053.52434 3.1444 0.0016595 -0.59663 -0.00031488 2.5478 0.0013447 527.769214925003 46.042 0.22755 46.868 46.712 46.94 0.82621 -0.12628 -1.8547E-05 NaN 43.858 12 10 2 NaN NaN NaN NaN 0 NaN NaN 0 398790 6733 934 4314 4330 -0.00027714216571439465 FPHRSEKDML 10 Unmodified _FPHRSEKDML_ 0 0 0 nc|ENSG00000111596|Q9NZN8-4|CNOT2;nc|ENSG00000111596|Q9NZN8-5|CNOT2;ENSG00000111596|ENST00000229195|CNOT2;ENST00000548021.5_1_12:70671967-70729348:+|nuORF;ENST00000547321.5_1_12:70671967-70723393:+|nuORF nc|ENSG00000111596|Q9NZN8-4|CNOT2 nc|ENSG00000111596|Q9NZN8-4|CNOT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 420.5467224121094 3 420.54489 1258.61284 2.906 0.0012221 0.30789 0.00012948 3.2139 0.0013516 420.5451667864662 21.674 0.48069 21.674 21.522 22.002 0 100 44 3 0 0 0 0.60841 2 9711 9711;9758 14.957 10.241 1 320410 6734 1766 4315 4331 7843;7844 7843 -0.006120419684066292 FPHRSEKDML 10 Unmodified _FPHRSEKDML_ 0 0 0 nc|ENSG00000111596|Q9NZN8-4|CNOT2;nc|ENSG00000111596|Q9NZN8-5|CNOT2;ENSG00000111596|ENST00000229195|CNOT2;ENST00000548021.5_1_12:70671967-70729348:+|nuORF;ENST00000547321.5_1_12:70671967-70723393:+|nuORF nc|ENSG00000111596|Q9NZN8-4|CNOT2 nc|ENSG00000111596|Q9NZN8-4|CNOT2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 420.54489 1258.61284 3.13 0.0013163 0.39124 0.00016453 3.5212 0.0014808 420.54510570386157 20.654 0.47506 21.307 21.123 21.598 0.65346 -0.18354 5.2879E-05 NaN 14.957 76 40 2 NaN NaN NaN NaN 0 NaN NaN 0 413020 6735 1766 4315 4331 -0.006120419684066292 FPHSMEPQL 9 Unmodified _FPHSMEPQL_ 0 0 0 ENST00000515049.1_1_17:48016676-48017012:+|nuORF;ENSG00000053372|ENST00000330263|MRTO4 ENST00000515049.1_1_17:48016676-48017012:+|nuORF ENST00000515049.1_1_17:48016676-48017012:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.260009765625 2 543.257859 1084.50117 3.4754 0.001888 -0.33041 -0.0001795 3.145 0.0017085 543.2578140143896 49.268 0.31351 49.268 49.134 49.447 0 27 13 3 0 0 0 0.0044949 2 22549 22549;22607 92.822 52.865 1 3557900 6736 599 4316 4332 7845;7846 7845 -0.03770476325553318 FPHSMEPQL 9 Unmodified _FPHSMEPQL_ 0 0 0 ENST00000515049.1_1_17:48016676-48017012:+|nuORF;ENSG00000053372|ENST00000330263|MRTO4 ENST00000515049.1_1_17:48016676-48017012:+|nuORF ENST00000515049.1_1_17:48016676-48017012:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.2596435546875 2 543.257859 1084.50117 3.1123 0.0016908 -0.31513 -0.00017119 2.7972 0.0015196 543.2577389911315 48.215 0.28973 49.044 48.875 49.165 0.82915 37 14 3 0 0 0 0.0016284 2 21970 21922;21970 108 68.04 1 2288400 6737 599 4316 4332 7847;7848 7848 -0.03770476325553318 FPHSMEPQL 9 Unmodified _FPHSMEPQL_ 0 0 0 ENST00000515049.1_1_17:48016676-48017012:+|nuORF;ENSG00000053372|ENST00000330263|MRTO4 ENST00000515049.1_1_17:48016676-48017012:+|nuORF ENST00000515049.1_1_17:48016676-48017012:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.2599487304688 2 543.257859 1084.50117 3.5015 0.0019022 -0.13375 -7.2662E-05 3.3678 0.0018296 543.2578152976668 49.119 0.36253 49.381 49.199 49.562 0.26146 39 13 4 0 0 0 0.0013377 2 22417 22417;22473 117.6 69.253 1 3471900 6738 599 4316 4332 7849;7850 7849 -0.03770476325553318 FPHSMEPQL 9 Unmodified _FPHSMEPQL_ 0 0 0 ENST00000515049.1_1_17:48016676-48017012:+|nuORF;ENSG00000053372|ENST00000330263|MRTO4 ENST00000515049.1_1_17:48016676-48017012:+|nuORF ENST00000515049.1_1_17:48016676-48017012:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.2593994140625 2 543.257859 1084.50117 3.6011 0.0019563 -0.15199 -8.2568E-05 3.4492 0.0018738 543.2577801547725 48.64 0.34546 49.296 49.108 49.453 0.65524 29 12 3 0 0 0 0.0019388 2 22227 22227;22287 104.8 56.453 1 2673600 6739 599 4316 4332 7851;7852 7851 -0.03770476325553318 FPIAPEIAL 9 Unmodified _FPIAPEIAL_ 0 0 0 nc|ENSG00000154582|Q15369-2|ELOC;ENSG00000154582|ENST00000520242|ELOC nc|ENSG00000154582|Q15369-2|ELOC nc|ENSG00000154582|Q15369-2|ELOC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.7901306152344 2 485.784036 969.553519 NaN NaN NaN NaN NaN NaN NaN 90.568 1 90.819 90.319 91.319 0.25137 0 0 0 0.82031 1 41647 41647 8.5933 0 1 6740 3829 4317 4333 7853 7853 0.06752430079700389 FPIEAGDMF 9 Unmodified _FPIEAGDMF_ 0 0 0 nc|ENSG00000163110|Q96HC4-7|PDLIM5;nc|ENSG00000163110|Q96HC4-4|PDLIM5;ENSG00000163110|ENST00000317968|PDLIM5;nc|ENSG00000163110|Q96HC4-6|PDLIM5 nc|ENSG00000163110|Q96HC4-7|PDLIM5 nc|ENSG00000163110|Q96HC4-7|PDLIM5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.7354736328125 2 513.733686 1025.45282 3.3007 0.0016957 0.004481 2.3021E-06 3.3052 0.001698 513.733727578597 82.441 0.74744 82.688 82.41 83.157 0.24722 66 40 2 0 0 0 0.15661 4 37998 37859;37941;37998;38058 36.044 25.861 1 579710 6741 4191 4318 4334 7854;7855;7856;7857 7856 -0.0588896996546282 FPIEAGDMF 9 Unmodified _FPIEAGDMF_ 0 0 0 nc|ENSG00000163110|Q96HC4-7|PDLIM5;nc|ENSG00000163110|Q96HC4-4|PDLIM5;ENSG00000163110|ENST00000317968|PDLIM5;nc|ENSG00000163110|Q96HC4-6|PDLIM5 nc|ENSG00000163110|Q96HC4-7|PDLIM5 nc|ENSG00000163110|Q96HC4-7|PDLIM5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.736328125 2 513.733686 1025.45282 3.5171 0.0018069 0.032174 1.6529E-05 3.5493 0.0018234 513.7336562250399 81.989 0.87181 82.649 82.156 83.028 0.65998 76 57 2 0 0 0 0.22824 3 37683 37683;37742;37814 30.225 23.871 1 751710 6742 4191 4318 4334 7858;7859;7860 7858 -0.0588896996546282 FPIGPDVEDL 10 Unmodified _FPIGPDVEDL_ 0 0 0 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.0088500976562 2 551.276772 1100.53899 3.5966 0.0019827 0.88216 0.00048631 4.4788 0.002469 551.7789702563899 80.588 0.31212 81.248 81.046 81.358 0.65997 25 17 2 0 0 0 0.42206 1 37064 37064 24.021 3.5669 1 326020 6743 5011 4319 4335 7861 7861 -0.0072568685909573105 FPIHLTDQL 9 Unmodified _FPIHLTDQL_ 0 0 0 ENST00000472414.1_1_1:6698189-6705162:-|nuORF;nc|ENSG00000007923|Q9NVH1-2|DNAJC11;ENSG00000007923|ENST00000377577|DNAJC11 ENST00000472414.1_1_1:6698189-6705162:-|nuORF ENST00000472414.1_1_1:6698189-6705162:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.2966918945312 2 542.295299 1082.57605 3.4426 0.0018669 0.037115 2.0127E-05 3.4797 0.001887 542.2955487265087 66.765 0.23121 67.422 67.29 67.521 0.65672 21 13 2 0 0 0 0.11001 2 30630 30613;30630 30.225 12.078 1 360790 6744 368 4320 4336 7862;7863 7863 0.038060294773458736 FPIHLTDQL 9 Unmodified _FPIHLTDQL_ 0 0 0 ENST00000472414.1_1_1:6698189-6705162:-|nuORF;nc|ENSG00000007923|Q9NVH1-2|DNAJC11;ENSG00000007923|ENST00000377577|DNAJC11 ENST00000472414.1_1_1:6698189-6705162:-|nuORF ENST00000472414.1_1_1:6698189-6705162:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 542.295299 1082.57605 3.5551 0.0019279 -0.061811 -3.352E-05 3.4933 0.0018944 542.2954270998387 67.358 0.2085 67.609 67.544 67.752 0.25011 0.093311 -6.6239E-05 NaN 30.225 17 11 2 NaN NaN NaN NaN 0 NaN NaN 0 473770 6745 368 4320 4336 0.038060294773458736 FPIIDDRNREL 11 Unmodified _FPIIDDRNREL_ 0 0 0 ENSG00000117592|ENST00000340385|PRDX6 ENSG00000117592|ENST00000340385|PRDX6 ENSG00000117592|ENST00000340385|PRDX6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.2512512207031 3 463.249131 1386.72556 2.7319 0.0012655 0.72886 0.00033764 3.4608 0.0016032 463.2494898511293 50.517 0.31395 51.174 50.999 51.313 0.65735 28 16 2 0 0 0 0.41068 1 23066 23066 17.572 10.095 1 363660 6746 2081 4321 4337 7864 7864 0.04766930029268224 FPIIDDRNREL 11 Unmodified _FPIIDDRNREL_ 0 0 0 ENSG00000117592|ENST00000340385|PRDX6 ENSG00000117592|ENST00000340385|PRDX6 ENSG00000117592|ENST00000340385|PRDX6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 463.249131 1386.72556 2.7017 0.0012516 0.96798 0.00044841 3.6697 0.0017 463.25001124525926 50.408 0.26253 51.231 51.107 51.37 0.82285 0.028209 0.00026417 NaN 17.572 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 359650 6747 2081 4321 4337 0.04766930029268224 FPIIPVGQR 9 Unmodified _FPIIPVGQR_ 0 0 0 REV__ENST00000568164.1_1_16:75148885-75149486:-|nuORF REV__ENST00000568164.1_1_16:75148885-75149486:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.8757629394531 3 342.874677 1025.6022 2.2587 0.00077445 1.1648 0.00039937 3.4235 0.0011738 342.8749620037021 44.655 0.45781 45.476 45.324 45.782 0.82075 66 22 4 0 0 0 0.98132 1 20355 20355 2.4985 0.75621 1 5500300 + 6748 13262 4322 4338 7865 7865 0.09042343439477918 FPIIPVGQR 9 Unmodified _FPIIPVGQR_ 0 0 0 REV__ENST00000568164.1_1_16:75148885-75149486:-|nuORF REV__ENST00000568164.1_1_16:75148885-75149486:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 342.874677 1025.6022 2.3234 0.00079665 1.2244 0.00041983 3.5479 0.0012165 342.87496696184564 45.276 0.42582 45.276 45.109 45.535 0 -0.07943 -6.4414E-05 NaN 2.4985 78 22 4 NaN NaN NaN NaN 0 NaN NaN 0 7077300 + 6749 13262 4322 4338 0.09042343439477918 FPIIPVGQR 9 Unmodified _FPIIPVGQR_ 0 0 0 REV__ENST00000568164.1_1_16:75148885-75149486:-|nuORF REV__ENST00000568164.1_1_16:75148885-75149486:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 342.874677 1025.6022 2.3317 0.00079947 1.24 0.00042517 3.5717 0.0012246 342.87495910537103 44.967 0.51083 45.235 45.012 45.523 0.26768 -0.12122 -4.8392E-05 NaN 2.4985 88 26 4 NaN NaN NaN NaN 0 NaN NaN 0 9422700 + 6750 13262 4322 4338 0.09042343439477918 FPIIPVGQR 9 Unmodified _FPIIPVGQR_ 0 0 0 REV__ENST00000568164.1_1_16:75148885-75149486:-|nuORF REV__ENST00000568164.1_1_16:75148885-75149486:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 342.874677 1025.6022 2.5498 0.00087425 1.4943 0.00051237 4.0441 0.0013866 342.8751395556304 44.786 0.36909 45.436 45.197 45.566 0.64998 0.080502 0.00021322 NaN 2.4985 41 13 4 NaN NaN NaN NaN 0 NaN NaN 0 7897000 + 6751 13262 4322 4338 0.09042343439477918 FPIKKVLLLL 10 Unmodified _FPIKKVLLLL_ 0 0 0 nc|ENSG00000128578|Q9ULQ0-2|STRIP2;ENSG00000128578|ENST00000249344|STRIP2 nc|ENSG00000128578|Q9ULQ0-2|STRIP2 nc|ENSG00000128578|Q9ULQ0-2|STRIP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 592.4132080078125 2 592.412478 1182.8104 NaN NaN NaN NaN NaN NaN NaN 81.498 1 81.498 80.998 81.998 0 0 0 0 0.99983 1 40603 40603 1.8442 0 1 6752 2516 4323 4339 7866 7866 0.22630952303848062 FPIKYVNDFF 10 Unmodified _FPIKYVNDFF_ 0 0 0 nc|ENSG00000105976|P08581-3|MET;ENSG00000105976|ENST00000397752|MET;nc|ENSG00000105976|P08581-2|MET nc|ENSG00000105976|P08581-3|MET nc|ENSG00000105976|P08581-3|MET MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 645.334716796875 2 645.331882 1288.64921 NaN NaN NaN NaN NaN NaN NaN 80.735 1 81.395 80.895 81.895 0.65998 0 0 0 0.53959 1 37201 37201 29.082 12.139 1 6753 1545 4324 4340 7867 7867 0.016431581999313494 FPIPGEPGF 9 Unmodified _FPIPGEPGF_ 0 0 0 ENSG00000111229|ENST00000228825|ARPC3;ENST00000467622.2_1_12:110874278-110874939:-|nuORF ENSG00000111229|ENST00000228825|ARPC3 ENSG00000111229|ENST00000228825|ARPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.7451477050781 2 480.744911 959.475269 2.5604 0.0012309 0.27695 0.00013314 2.8374 0.001364 480.74481205522085 79.415 0.23055 79.415 79.271 79.502 0 25 19 2 0 0 0 0.012533 1 39189 39189 78.445 40.294 1 2025100 6754 1747 4325 4341 7868 7868 -0.006090025055186743 FPIPGEPGF 9 Unmodified _FPIPGEPGF_ 0 0 0 ENSG00000111229|ENST00000228825|ARPC3;ENST00000467622.2_1_12:110874278-110874939:-|nuORF ENSG00000111229|ENST00000228825|ARPC3 ENSG00000111229|ENST00000228825|ARPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.744873046875 2 480.744911 959.475269 2.5605 0.001231 -0.68516 -0.00032939 1.8754 0.00090157 480.74443177281114 79.659 0.13399 79.659 79.602 79.736 0 17 11 2 0 0 0 0.012533 1 39416 39416 78.445 46.328 1 3379500 6755 1747 4325 4341 7869 7869 -0.006090025055186743 FPIPGEPGF 9 Unmodified _FPIPGEPGF_ 0 0 0 ENSG00000111229|ENST00000228825|ARPC3;ENST00000467622.2_1_12:110874278-110874939:-|nuORF ENSG00000111229|ENST00000228825|ARPC3 ENSG00000111229|ENST00000228825|ARPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.74566650390625 2 480.744911 959.475269 2.5675 0.0012343 -0.34113 -0.00016399 2.2264 0.0010703 480.74451502364127 79.906 0.24292 79.906 79.802 80.045 0 25 17 2 0 0 0 0.044201 1 39581 39581 49.669 26.52 1 1143900 6756 1747 4325 4341 7870 7870 -0.006090025055186743 FPIPGEPGF 9 Unmodified _FPIPGEPGF_ 0 0 0 ENSG00000111229|ENST00000228825|ARPC3;ENST00000467622.2_1_12:110874278-110874939:-|nuORF ENSG00000111229|ENST00000228825|ARPC3 ENSG00000111229|ENST00000228825|ARPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.7468566894531 2 480.744911 959.475269 2.4569 0.0011811 0.54904 0.00026395 3.0059 0.0014451 480.7449395681252 78.456 0.26708 78.92 78.763 79.03 0.4642 37 24 2 0 0 0 0.012533 1 38160 38160 78.445 40.294 1 1544500 6757 1747 4325 4341 7871 7871 -0.006090025055186743 FPIPGEPGF 9 Unmodified _FPIPGEPGF_ 0 0 0 ENSG00000111229|ENST00000228825|ARPC3;ENST00000467622.2_1_12:110874278-110874939:-|nuORF ENSG00000111229|ENST00000228825|ARPC3 ENSG00000111229|ENST00000228825|ARPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.7463073730469 2 480.744911 959.475269 2.4505 0.0011781 -0.42545 -0.00020453 2.025 0.00097353 480.74480898517965 78.713 0.1905 79.177 79.036 79.227 0.4642 28 19 2 0 0 0 0.012533 1 38321 38321 78.445 40.294 1 2626700 6758 1747 4325 4341 7872 7872 -0.006090025055186743 FPIPGEPGF 9 Unmodified _FPIPGEPGF_ 0 0 0 ENSG00000111229|ENST00000228825|ARPC3;ENST00000467622.2_1_12:110874278-110874939:-|nuORF ENSG00000111229|ENST00000228825|ARPC3 ENSG00000111229|ENST00000228825|ARPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.7465515136719 2 480.744911 959.475269 2.8735 0.0013814 0.20292 9.7552E-05 3.0764 0.001479 480.74487523659764 79.218 1.716 79.469 78.636 80.352 0.25127 259 112 3 0 0 0 0.0054496 13 36431 36156;36236;36292;36337;36382;36431;36480;36525;36589;36643;36688;36742;36786 90.836 50.387 1 2174800 6759 1747 4325 4341 7873;7874;7875;7876;7877;7878;7879;7880;7881;7882;7883;7884;7885 7878 -0.006090025055186743 FPIPGEPGF 9 Unmodified _FPIPGEPGF_ 0 0 0 ENSG00000111229|ENST00000228825|ARPC3;ENST00000467622.2_1_12:110874278-110874939:-|nuORF ENSG00000111229|ENST00000228825|ARPC3 ENSG00000111229|ENST00000228825|ARPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 960.4859008789062 1 960.482545 959.475269 3.4843 0.0033466 0.059146 5.6809E-05 3.5435 0.0034035 960.482579464883 79.369 1.4025 79.621 78.834 80.236 0.25127 172 93 2 0 0 0 0.0039848 10 36289 36232;36289;36335;36377;36426;36473;36544;36642;36727;36791 93.883 61.766 1 1068500 6760 1747 4325 4341 7886;7887;7888;7889;7890;7891;7892;7893;7894;7895 7887 -0.006090025055186743 FPIPGEPGF 9 Unmodified _FPIPGEPGF_ 0 0 0 ENSG00000111229|ENST00000228825|ARPC3;ENST00000467622.2_1_12:110874278-110874939:-|nuORF ENSG00000111229|ENST00000228825|ARPC3 ENSG00000111229|ENST00000228825|ARPC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.7052307128906 2 480.744911 959.475269 NaN NaN NaN NaN NaN NaN NaN 80.321 1 80.571 80.071 81.071 0.24947 0 0 0 0.82031 1 36983 36983 8.5933 2.8329 1 6761 1747 4325 4341 7896 7896 -0.006090025055186743 FPIPGEPGF 9 Unmodified _FPIPGEPGF_ 0 0 0 ENSG00000111229|ENST00000228825|ARPC3;ENST00000467622.2_1_12:110874278-110874939:-|nuORF ENSG00000111229|ENST00000228825|ARPC3 ENSG00000111229|ENST00000228825|ARPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.74639892578125 2 480.744911 959.475269 3.112 0.0014961 0.15414 7.4102E-05 3.2661 0.0015702 480.7448073534863 78.613 1.6501 79.275 78.612 80.262 0.66198 255 106 3 0 0 0 0.012533 13 36102 36011;36056;36102;36151;36196;36236;36280;36325;36370;36413;36466;36514;36569 78.445 46.328 1 2312400 6762 1747 4325 4341 7897;7898;7899;7900;7901;7902;7903;7904;7905;7906;7907;7908;7909 7899 -0.006090025055186743 FPIPGEPGF 9 Unmodified _FPIPGEPGF_ 0 0 0 ENSG00000111229|ENST00000228825|ARPC3;ENST00000467622.2_1_12:110874278-110874939:-|nuORF ENSG00000111229|ENST00000228825|ARPC3 ENSG00000111229|ENST00000228825|ARPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 960.4871826171875 1 960.482545 959.475269 3.783 0.0036335 -0.11781 -0.00011316 3.6652 0.0035203 960.482490895613 78.635 1.452 79.297 78.698 80.15 0.66198 198 94 3 0 0 0 0.0017402 13 36178 36022;36085;36133;36178;36232;36279;36321;36329;36377;36426;36472;36519;36564 106.85 74.729 1 1484600 6763 1747 4325 4341 7910;7911;7912;7913;7914;7915;7916;7917;7918;7919;7920;7921;7922 7913 -0.006090025055186743 FPIPLINRL 9 Unmodified _FPIPLINRL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.8419189453125 2 541.839677 1081.6648 3.2951 0.0017854 0.075266 4.0782E-05 3.3704 0.0018262 541.8397355248654 83.935 0.47218 84.183 83.877 84.349 0.24722 69 28 3 0 0 0 0.00147 3 38617 38563;38617;38663 109.63 38.496 1 2943900 6764 4953 4326 4342 7923;7924;7925 7924 0.1272348950765263 FPIPLINRL 9 Unmodified _FPIPLINRL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.8416748046875 2 541.839677 1081.6648 3.5394 0.0019178 -0.11471 -6.2156E-05 3.4247 0.0018556 541.8395426912518 83.317 0.47902 83.978 83.774 84.253 0.66105 78 29 3 0 0 0 0.020718 4 38386 38341;38386;38432;38482 67.344 21.323 1 1747400 6765 4953 4326 4342 7926;7927;7928;7929 7927 0.1272348950765263 FPIPLREVVEL 11 Unmodified _FPIPLREVVEL_ 0 0 0 REV__ENST00000317204.10_1_11:1297889-1297946:-|nuORF REV__ENST00000317204.10_1_11:1297889-1297946:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.9288330078125 3 437.927218 1310.75982 2.7971 0.0012249 1.0268 0.00044966 3.8239 0.0016746 437.9275896916548 39.072 0.99592 39.87 39.338 40.334 0.79762 100 47 3 0 0 0 0.91111 1 17516 17516 0.40827 0.041592 1 637470 + 6766 15298 4327 4343 7930 7930 0.11687378188184994 FPIRWRDRLHW 11 Unmodified _FPIRWRDRLHW_ 0 0 0 ENST00000544691.6_1_14:24911464-24911732:-|nuORF ENST00000544691.6_1_14:24911464-24911732:-|nuORF ENST00000544691.6_1_14:24911464-24911732:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 791.4315795898438 2 791.431119 1580.84768 NaN NaN NaN NaN NaN NaN NaN 79.419 1 80.08 79.58 80.58 0.66082 0 0 0 1.0082 1 36594 36594 0 0 1 6767 8837 4328 4344 7931 7931 0.08049436622172834 FPISEETIKL 10 Unmodified _FPISEETIKL_ 0 0 0 ENSG00000165732|ENST00000354185|DDX21;nc|ENSG00000165732|Q9NR30-2|DDX21;ENST00000483593.5_1_10:70666544-70673107:+|nuORF;ENSG00000107625|ENST00000373585|DDX50 ENSG00000165732|ENST00000354185|DDX21 ENSG00000165732|ENST00000354185|DDX21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 588.8324584960938 2 588.829172 1175.64379 2.9114 0.0017143 -0.1883 -0.00011087 2.7231 0.0016035 588.8290834319636 67.099 0.19386 67.099 66.949 67.143 0 44 24 2 0 0 0 0.0090416 2 32106 32056;32106 91.085 62.003 1 2181400 6768 4420 4329 4345 7932;7933 7933 0.06299434617471888 FPISEETIKL 10 Unmodified _FPISEETIKL_ 0 0 0 ENSG00000165732|ENST00000354185|DDX21;nc|ENSG00000165732|Q9NR30-2|DDX21;ENST00000483593.5_1_10:70666544-70673107:+|nuORF;ENSG00000107625|ENST00000373585|DDX50 ENSG00000165732|ENST00000354185|DDX21 ENSG00000165732|ENST00000354185|DDX21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.8312377929688 2 588.829172 1175.64379 2.7193 0.0016012 0.20806 0.00012251 2.9274 0.0017237 588.8292138470008 65.926 0.35793 66.635 66.508 66.865 0.7089 69 40 2 0 0 0 0.0056243 2 31295 31187;31295 93.938 55.964 1 3141100 6769 4420 4329 4345 7934;7935 7935 0.06299434617471888 FPISEETIKL 10 Unmodified _FPISEETIKL_ 0 0 0 ENSG00000165732|ENST00000354185|DDX21;nc|ENSG00000165732|Q9NR30-2|DDX21;ENST00000483593.5_1_10:70666544-70673107:+|nuORF;ENSG00000107625|ENST00000373585|DDX50 ENSG00000165732|ENST00000354185|DDX21 ENSG00000165732|ENST00000354185|DDX21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.8314208984375 2 588.829172 1175.64379 3.7466 0.0022061 -0.27994 -0.00016484 3.4667 0.0020413 588.8289998899313 66.721 0.87653 66.971 66.722 67.599 0.25011 146 51 4 0 0 0 6.9134E-09 7 30531 30488;30531;30583;30626;30675;30724;30780 143.91 100.05 1 3523200 6770 4420 4329 4345 7936;7937;7938;7939;7940;7941;7942 7937 0.06299434617471888 FPISEETIKL 10 Unmodified _FPISEETIKL_ 0 0 0 ENSG00000165732|ENST00000354185|DDX21;nc|ENSG00000165732|Q9NR30-2|DDX21;ENST00000483593.5_1_10:70666544-70673107:+|nuORF;ENSG00000107625|ENST00000373585|DDX50 ENSG00000165732|ENST00000354185|DDX21 ENSG00000165732|ENST00000354185|DDX21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.8309936523438 2 588.829172 1175.64379 3.7062 0.0021823 0.11787 6.9404E-05 3.824 0.0022517 588.8292942481734 66.123 0.91371 66.779 66.472 67.386 0.65672 158 55 4 0 0 0 1.886E-13 7 30308 30210;30259;30308;30354;30404;30458;30510 155.95 106.02 1 3428200 6771 4420 4329 4345 7943;7944;7945;7946;7947;7948;7949 7945 0.06299434617471888 FPISREAFQAL 11 Unmodified _FPISREAFQAL_ 0 0 0 nc|ENSG00000151239|Q12792-4|TWF1;ENSG00000151239|ENST00000395510|TWF1;nc|ENSG00000151239|Q12792-3|TWF1 nc|ENSG00000151239|Q12792-4|TWF1 nc|ENSG00000151239|Q12792-4|TWF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 639.84765625 2 639.845687 1277.67682 NaN NaN NaN NaN NaN NaN NaN 67.42 1 67.67 67.17 68.17 0.2501 0 0 0 0.16367 1 30885 30885 39.213 15.423 1 6772 3696 4330 4346 7950 7950 0.0490906146017096 FPISREAFQAL 11 Unmodified _FPISREAFQAL_ 0 0 0 nc|ENSG00000151239|Q12792-4|TWF1;ENSG00000151239|ENST00000395510|TWF1;nc|ENSG00000151239|Q12792-3|TWF1 nc|ENSG00000151239|Q12792-4|TWF1 nc|ENSG00000151239|Q12792-4|TWF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 639.8477783203125 2 639.845687 1277.67682 3.9464 0.0025251 -0.20924 -0.00013388 3.7372 0.0023912 639.8455064491432 66.793 0.39763 67.45 67.263 67.661 0.65672 35 23 2 0 0 0 0.13712 2 30583 30583;30683 35.612 12.641 1 306160 6773 3696 4330 4346 7951;7952 7951 0.0490906146017096 FPKAVSVF 8 Unmodified _FPKAVSVF_ 0 0 0 ENST00000581642.1_1_17:80193878-80194172:+|nuORF;ENST00000584781.5_1_17:80193878-80195055:+|nuORF;ENST00000579572.1_1_17:80193878-80195110:+|nuORF;ENSG00000141526|ENST00000582743|SLC16A3;ENSG00000100156|ENST00000681075|SLC16A8 ENST00000581642.1_1_17:80193878-80194172:+|nuORF ENST00000581642.1_1_17:80193878-80194172:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 447.759521484375 2 447.757821 893.501089 2.9171 0.0013062 0.13765 6.1632E-05 3.0548 0.0013678 447.7578897540928 57.494 0.19395 57.494 57.378 57.572 0 37 24 2 0 0 0 0.090253 1 26475 26475 54.774 26.287 1 485710 6774 3265 4331 4347 7953 7953 0.05007891736761394 FPKAVSVF 8 Unmodified _FPKAVSVF_ 0 0 0 ENST00000581642.1_1_17:80193878-80194172:+|nuORF;ENST00000584781.5_1_17:80193878-80195055:+|nuORF;ENST00000579572.1_1_17:80193878-80195110:+|nuORF;ENSG00000141526|ENST00000582743|SLC16A3;ENSG00000100156|ENST00000681075|SLC16A8 ENST00000581642.1_1_17:80193878-80194172:+|nuORF ENST00000581642.1_1_17:80193878-80194172:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 447.7593078613281 2 447.757821 893.501089 NaN NaN NaN NaN NaN NaN NaN 57.182 1 57.447 56.947 57.947 0.26444 0 0 0 0.0842 1 26172 26172 58.679 20.705 1 6775 3265 4331 4347 7954 7954 0.05007891736761394 FPKAVSVF 8 Unmodified _FPKAVSVF_ 0 0 0 ENST00000581642.1_1_17:80193878-80194172:+|nuORF;ENST00000584781.5_1_17:80193878-80195055:+|nuORF;ENST00000579572.1_1_17:80193878-80195110:+|nuORF;ENSG00000141526|ENST00000582743|SLC16A3;ENSG00000100156|ENST00000681075|SLC16A8 ENST00000581642.1_1_17:80193878-80194172:+|nuORF ENST00000581642.1_1_17:80193878-80194172:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 447.75848388671875 2 447.757821 893.501089 3.1706 0.0014197 -0.0077301 -3.4612E-06 3.1629 0.0014162 447.7577756194407 56.651 0.37819 57.32 57.113 57.491 0.66829 54 19 4 0 0 0 0.070862 3 25875 25875;25925;25980 58.679 30.192 1 4765500 6776 3265 4331 4347 7955;7956;7957 7955 0.05007891736761394 FPKEIQML 8 Unmodified _FPKEIQML_ 0 0 0 nc|ENSG00000215301|O00571-2|DDX3X;nc|ENSG00000067048|O15523-2|DDX3Y;ENSG00000067048|ENST00000336079|DDX3Y;ENSG00000215301|ENST00000644876|DDX3X nc|ENSG00000215301|O00571-2|DDX3X nc|ENSG00000215301|O00571-2|DDX3X MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.27783203125 2 503.275521 1004.53649 3.2611 0.0016413 0.75074 0.00037783 4.0119 0.0020191 503.27583650926306 59.832 0.24254 60.092 59.988 60.231 0.2593 15 12 2 0 0 0 0.31493 1 27414 27414 34.402 0.29928 1 454830 6777 717 4332 4348 7958 7958 0.0344018620226052 FPKFKFMY 8 Unmodified _FPKFKFMY_ 0 0 0 REV__ENST00000299964.3_1_11:114166574-114166922:+|nuORF REV__ENST00000299964.3_1_11:114166574-114166922:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.287841796875 2 554.288431 1106.56231 NaN NaN NaN NaN NaN NaN NaN 27.617 1 28.239 27.739 28.739 0.62179 0 0 0 0.99035 1 12661 12661 2.5775 0 1 + 6778 15180 4333 4349 7959 7959 0.013290804445432514 FPKGVKIL 8 Unmodified _FPKGVKIL_ 0 0 0 ENST00000479002.1_1_2:27457475-27458610:+|nuORF ENST00000479002.1_1_2:27457475-27458610:+|nuORF ENST00000479002.1_1_2:27457475-27458610:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.2985534667969 2 451.297114 900.579674 NaN NaN NaN NaN NaN NaN NaN 38.626 1 38.89 38.39 39.39 0.26408 0 0 0 0.86524 1 17581 17581 14.582 0 1 6779 8259 4334 4350 7960 7960 0.12540744041837115 FPKGVKIL 8 Unmodified _FPKGVKIL_ 0 0 0 ENST00000479002.1_1_2:27457475-27458610:+|nuORF ENST00000479002.1_1_2:27457475-27458610:+|nuORF ENST00000479002.1_1_2:27457475-27458610:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.298095703125 2 451.297114 900.579674 NaN NaN NaN NaN NaN NaN NaN 39.089 1 39.353 38.853 39.853 0.26408 0 0 0 0.86524 1 17788 17788 14.582 0 1 6780 8259 4334 4350 7961 7961 0.12540744041837115 FPKGVKIL 8 Unmodified _FPKGVKIL_ 0 0 0 ENST00000479002.1_1_2:27457475-27458610:+|nuORF ENST00000479002.1_1_2:27457475-27458610:+|nuORF ENST00000479002.1_1_2:27457475-27458610:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.2984619140625 2 451.297114 900.579674 2.9303 0.0013225 0.061985 2.7974E-05 2.9923 0.0013504 451.29711981337846 38.048 1.2791 38.682 38.151 39.43 0.63388 64 48 2 0 0 0 0.52517 1 17275 17275 19.439 0 1 356640 6781 8259 4334 4350 7962 7962 0.12540744041837115 FPKIRWLF 8 Unmodified _FPKIRWLF_ 0 0 0 REV__nc|ENSG00000156687|Q6UXZ4-2|UNC5D REV__nc|ENSG00000156687|Q6UXZ4-2|UNC5D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.8318481445312 2 553.829112 1105.64367 3.6482 0.0020205 0.79049 0.0004378 4.4387 0.0024583 553.8298872609851 83.238 1.3416 83.898 83.123 84.464 0.66019 144 80 2 0 0 0 0.73686 2 38427 38427;38524 2.8892 0.82947 1 2121600 + 6782 12781 4335 4351 7963;7964 7963 0.0950752419876153 FPKRLSKL 8 Unmodified _FPKRLSKL_ 0 0 0 REV__ENSG00000132170|ENST00000651735|PPARG REV__ENSG00000132170|ENST00000651735|PPARG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.2159423828125 3 330.214922 987.622936 2.5025 0.00082637 0.14382 4.7492E-05 2.6464 0.00087387 330.21496349223867 25.332 0.44969 25.599 25.331 25.781 0.26777 114 49 3 0 0 0 0.51123 1 11443 11443 20.415 0 1 3115700 + 6783 11880 4336 4352 7965 7965 0.12862933819133104 FPKRLSKL 8 Unmodified _FPKRLSKL_ 0 0 0 REV__ENSG00000132170|ENST00000651735|PPARG REV__ENSG00000132170|ENST00000651735|PPARG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.5498962402344 3 330.214922 987.622936 2.1821 0.00072055 -0.12001 -3.963E-05 2.0621 0.00068092 330.21493188783563 25.001 0.27637 25.63 25.448 25.724 0.62915 74 53 2 0 0 0 0.29142 1 11462 11462 36.127 1.7253 1 4337300 + 6784 11880 4336 4352 7966 7966 0.12862933819133104 FPLDLDVKM 9 Unmodified _FPLDLDVKM_ 0 0 0 nc|ENSG00000188313|O15162-2|PLSCR1;ENST00000478267.5_1_3:146234735-146251325:-|nuORF;ENSG00000188313|ENST00000342435|PLSCR1;ENST00000484560.1_1_3:146234424-146234930:-|nuORF;nc|ENSG00000114698|Q9NRQ2-2|PLSCR4;ENSG00000114698|ENST00000354952|PLSCR4 nc|ENSG00000188313|O15162-2|PLSCR1;ENSG00000114698|ENST00000354952|PLSCR4 ENSG00000114698|ENST00000354952|PLSCR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.2877197265625 2 539.286085 1076.55762 2.9606 0.0015966 -1.3416 -0.00072349 1.6191 0.00087314 539.7865929890321 76.427 0.98433 76.683 76.361 77.345 0.25533 126 77 2 0 0 0 0.013715 7 35151 35082;35093;35151;35196;35255;35270;35332 76.825 46.188 1 1183300 6785 5664;1919 4337 4353 7967;7968;7969;7970;7971;7972;7973 7969 0.022401515111141634 FPLDLDVKM 9 Unmodified _FPLDLDVKM_ 0 0 0 nc|ENSG00000188313|O15162-2|PLSCR1;ENST00000478267.5_1_3:146234735-146251325:-|nuORF;ENSG00000188313|ENST00000342435|PLSCR1;ENST00000484560.1_1_3:146234424-146234930:-|nuORF;nc|ENSG00000114698|Q9NRQ2-2|PLSCR4;ENSG00000114698|ENST00000354952|PLSCR4 nc|ENSG00000188313|O15162-2|PLSCR1;ENSG00000114698|ENST00000354952|PLSCR4 ENSG00000114698|ENST00000354952|PLSCR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.28759765625 2 539.286085 1076.55762 2.9548 0.0015935 -1.0463 -0.00056426 1.9085 0.0010292 539.285602619609 76 0.89357 76.664 76.267 77.16 0.66387 133 69 2 0 0 0 0.020338 5 34957 34855;34957;35007;35050;35149 67.838 43.628 1 1085100 6786 5664;1919 4337 4353 7974;7975;7976;7977;7978 7975 0.022401515111141634 FPLDLDVKM 9 Oxidation (M) _FPLDLDVKM(Oxidation (M))_ FPLDLDVKM(1) FPLDLDVKM(40) 0 0 1 nc|ENSG00000188313|O15162-2|PLSCR1;ENST00000478267.5_1_3:146234735-146251325:-|nuORF;ENSG00000188313|ENST00000342435|PLSCR1;ENST00000484560.1_1_3:146234424-146234930:-|nuORF;nc|ENSG00000114698|Q9NRQ2-2|PLSCR4;ENSG00000114698|ENST00000354952|PLSCR4 nc|ENSG00000188313|O15162-2|PLSCR1;ENSG00000114698|ENST00000354952|PLSCR4 ENSG00000114698|ENST00000354952|PLSCR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.2843627929688 2 547.283543 1092.55253 NaN NaN NaN NaN NaN NaN NaN 62.934 1 63.184 62.684 63.684 0.24965 0 0 0 0.10783 1 28821 28821 40.239 20.982 1 6787 5664;1919 4337 4354 7979 7979 17 0.009958476484825951 FPLGRWVLPRL 11 Unmodified _FPLGRWVLPRL_ 0 0 0 REV__ENSG00000183134|ENST00000332539|PTGDR2 REV__ENSG00000183134|ENST00000332539|PTGDR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 452.7372131347656 3 451.943313 1352.80811 2.8829 0.0013029 0.17355 7.8436E-05 3.0564 0.0013813 452.2775455219901 50.589 0.24173 50.589 50.367 50.608 0 15 10 2 0 0 0 0.91328 1 23104 23104 0.50596 0 1 256350 + 6788 13920 4338 4355 7980 7980 0.14581916618749347 FPLGRWVLPRL 11 Unmodified _FPLGRWVLPRL_ 0 0 0 REV__ENSG00000183134|ENST00000332539|PTGDR2 REV__ENSG00000183134|ENST00000332539|PTGDR2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 451.943313 1352.80811 2.8829 0.0013029 0.17355 7.8436E-05 3.0564 0.0013813 452.2775455219901 50.589 0.24173 50.589 50.367 50.608 0 -0.14683 -0.00073704 NaN 0.50596 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 256350 + 6789 13920 4338 4355 0.14581916618749347 FPLGRWVLPRL 11 Unmodified _FPLGRWVLPRL_ 0 0 0 REV__ENSG00000183134|ENST00000332539|PTGDR2 REV__ENSG00000183134|ENST00000332539|PTGDR2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 451.943313 1352.80811 2.7152 0.0012271 1.3642 0.00061656 4.0794 0.0018437 451.94383021520446 50.621 0.3904 50.882 50.76 51.15 0.26146 0.14683 0.00087734 NaN 0.50596 25 18 2 NaN NaN NaN NaN 0 NaN NaN 0 289660 + 6790 13920 4338 4355 0.14581916618749347 FPLGTPRLGL 10 Unmodified _FPLGTPRLGL_ 0 0 0 REV__ENST00000595775.5_1_19:42817488-42818494:+|nuORF REV__ENST00000595775.5_1_19:42817488-42818494:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.2157287597656 3 357.550082 1069.62842 2.4717 0.00088374 1.1377 0.00040678 3.6093 0.0012905 357.8847857887766 50.011 0.46569 50.668 50.451 50.917 0.65735 28 18 2 0 0 0 0.12676 1 22821 22821 1.5923 0.52082 1 525420 + 6791 17610 4339 4356 7981 7981 0.09638612610933706 FPLHWWHPF 9 Unmodified _FPLHWWHPF_ 0 0 0 REV__nc|ENSG00000139144|O75747-2|PIK3C2G REV__nc|ENSG00000139144|O75747-2|PIK3C2G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.8802185058594 3 422.878421 1265.61343 3.0695 0.001298 1.3155 0.0005563 4.385 0.0018543 422.8788880132437 39.108 0.27176 39.746 39.559 39.831 0.63778 12 9 2 0 0 0 0.92809 1 17894 17894 2.9952 1.8019 1 325280 + 6792 12202 4340 4357 7982 7982 -0.008748344664127217 FPLHWWHPF 9 Unmodified _FPLHWWHPF_ 0 0 0 REV__nc|ENSG00000139144|O75747-2|PIK3C2G REV__nc|ENSG00000139144|O75747-2|PIK3C2G MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 422.878421 1265.61343 2.9095 0.0012303 0.45377 0.00019189 3.3632 0.0014222 422.8787784100954 39.484 0.30749 39.751 39.546 39.853 0.26696 0.0024946 -0.0004447 NaN 2.9952 22 11 3 NaN NaN NaN NaN 0 NaN NaN 0 299190 + 6793 12202 4340 4357 -0.008748344664127217 FPLHWWHPF 9 Unmodified _FPLHWWHPF_ 0 0 0 REV__nc|ENSG00000139144|O75747-2|PIK3C2G REV__nc|ENSG00000139144|O75747-2|PIK3C2G MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 422.878421 1265.61343 3.0695 0.001298 1.3155 0.0005563 4.385 0.0018543 422.8788880132437 39.108 0.27176 39.746 39.559 39.831 0.63778 -0.0024946 0.00064853 NaN 2.9952 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 325280 + 6794 12202 4340 4357 -0.008748344664127217 FPLLALPQLLL 11 Unmodified _FPLLALPQLLL_ 0 0 0 REV__ENSG00000198853|ENST00000361226|RUSC2 REV__ENSG00000198853|ENST00000361226|RUSC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.3978881835938 2 619.399567 1236.78458 NaN NaN NaN NaN NaN NaN NaN 22.136 1 22.724 22.224 23.224 0.58739 0 0 0 1.0072 1 9842 9842 1.3295 0.13619 1 + 6795 14369 4341 4358 7983 7983 0.17566058061561307 FPLLDLLP 8 Unmodified _FPLLDLLP_ 0 0 0 nc|ENSG00000124574|Q5T3U5-2|ABCC10;ENSG00000124574|ENST00000372530|ABCC10 nc|ENSG00000124574|Q5T3U5-2|ABCC10 nc|ENSG00000124574|Q5T3U5-2|ABCC10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.2818603515625 2 464.281129 926.547705 2.6698 0.0012395 -0.91058 -0.00042277 1.7592 0.00081678 464.2806291854904 57.656 0.4905 57.921 57.705 58.196 0.26444 51 29 2 0 0 0 0.72814 1 26474 26474 2.3027 0 1 1090200 6796 2367 4342 4359 7984 7984 0.08149331568040452 FPLLDLLP 8 Unmodified _FPLLDLLP_ 0 0 0 nc|ENSG00000124574|Q5T3U5-2|ABCC10;ENSG00000124574|ENST00000372530|ABCC10 nc|ENSG00000124574|Q5T3U5-2|ABCC10 nc|ENSG00000124574|Q5T3U5-2|ABCC10 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 464.281129 926.547705 2.743 0.0012735 -0.89616 -0.00041607 1.8469 0.00085747 464.28059707815993 58.18 0.1679 58.18 58.042 58.21 0 0.21445 9.3506E-06 NaN 2.3027 30 17 2 NaN NaN NaN NaN 0 NaN NaN 0 696910 6797 2367 4342 4359 0.08149331568040452 FPLLLKLETHI 11 Unmodified _FPLLLKLETHI_ 0 0 0 USPL1|p.N623Yfs*18|1|0.33|ENSG00000132952|chr13:30657943-30657944|CA/-|frameshift_variant;nc|ENSG00000132952|Q5W0Q7-2|USPL1;ENSG00000132952|ENST00000255304|USPL1 USPL1|p.N623Yfs*18|1|0.33|ENSG00000132952|chr13:30657943-30657944|CA/-|frameshift_variant USPL1|p.N623Yfs*18|1|0.33|ENSG00000132952|chr13:30657943-30657944|CA/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.7765197753906 3 441.939346 1322.79621 2.8002 0.0012375 2.1308 0.00094167 4.931 0.0021792 441.9398428099744 56.155 0.36324 56.421 56.247 56.61 0.26543 25 14 2 0 0 0 0.13295 1 25757 25757 1.4551 1.0006 1 1073100 6798 2736 4343 4360 7985 7985 0.1477225508488118 FPLLPLVL 8 Unmodified _FPLLPLVL_ 0 0 0 ENSG00000198768|ENST00000371149|APCDD1L ENSG00000198768|ENST00000371149|APCDD1L ENSG00000198768|ENST00000371149|APCDD1L MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.7624206542969 2 456.301865 910.589176 2.5666 0.0011711 -0.80554 -0.00036757 1.7611 0.00080357 456.30121880969295 38.528 0.22598 38.792 38.69 38.916 0.26408 10 8 2 0 0 0 0.14249 1 17541 17541 0.79363 0 1 1106700 6799 5932 4344 4361 7986 7986 0.1303051232736152 FPLLPLVL 8 Unmodified _FPLLPLVL_ 0 0 0 ENSG00000198768|ENST00000371149|APCDD1L ENSG00000198768|ENST00000371149|APCDD1L ENSG00000198768|ENST00000371149|APCDD1L MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 456.301865 910.589176 2.8003 0.0012778 -1.4614 -0.00066683 1.3389 0.00061093 456.30120090081243 38.086 0.29447 38.72 38.528 38.822 0.63388 -0.037053 -0.00032312 NaN 2.8892 15 11 2 NaN NaN NaN NaN 0 NaN NaN 0 440820 6800 5932 4344 4361 0.1303051232736152 FPLLPRRRGE 10 Unmodified _FPLLPRRRGE_ 0 0 0 nc|ENSG00000183169|Q3SYA9|POM121L1P nc|ENSG00000183169|Q3SYA9|POM121L1P nc|ENSG00000183169|Q3SYA9|POM121L1P MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.8672485351562 2 620.867289 1239.72002 NaN NaN NaN NaN NaN NaN NaN 29.408 1 30.198 29.698 30.698 0.78921 0 0 0 1.0015 1 13256 13256 0.45834 0 1 6801 9777 4345 4362 7987 7987 0.10975296028118464 FPLLPSLVTIV 11 Unmodified _FPLLPSLVTIV_ 0 0 0 REV__ENST00000573058.1_1_17:79224986-79225223:-|nuORF REV__ENST00000573058.1_1_17:79224986-79225223:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.2561950683594 3 400.253042 1197.7373 NaN NaN NaN NaN NaN NaN NaN 65.418 1 65.666 65.166 66.166 0.24803 0 0 0 1.006 1 29970 29970 2.8433 0.21205 1 + 6802 17457 4346 4363 7988 7988 0.14633778790562246 FPLLRLLYWNR 11 Unmodified _FPLLRLLYWNR_ 0 0 0 nc|ENSG00000104044|Q04671-3|OCA2;nc|ENSG00000104044|Q04671-2|OCA2;ENSG00000104044|ENST00000354638|OCA2 nc|ENSG00000104044|Q04671-3|OCA2 nc|ENSG00000104044|Q04671-3|OCA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 745.9357299804688 2 745.935171 1489.85579 NaN NaN NaN NaN NaN NaN NaN 71.632 1 72.295 71.795 72.795 0.66324 0 0 0 1.008 1 32833 32833 0.35063 0 1 6803 1421 4347 4364 7989 7989 0.13045570818940178 FPLNKLQVDP 10 Unmodified _FPLNKLQVDP_ 0 0 0 REV__nc|ENSG00000078043|O75928-3|PIAS2 REV__nc|ENSG00000078043|O75928-3|PIAS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 390.8898010253906 3 390.888763 1169.64446 2.2661 0.0008858 0.79829 0.00031204 3.0644 0.0011978 390.88902771170694 55.864 0.39021 56.651 56.505 56.896 0.78711 55 30 2 0 0 0 0.9178 1 25563 25563 2.8433 2.8433 1 1914800 + 6804 10566 4348 4365 7990 7990 0.06642274057185205 FPLVFFFLF 9 Unmodified _FPLVFFFLF_ 0 0 0 ENST00000282388.3_2_2:43451126-43451411:-|nuORF ENST00000282388.3_2_2:43451126-43451411:-|nuORF ENST00000282388.3_2_2:43451126-43451411:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.8326416015625 2 588.828246 1175.64194 2.7193 0.0016012 1.7794 0.0010478 4.4987 0.002649 588.8292138470008 65.926 0.35793 66.635 66.508 66.865 0.7089 69 40 2 0 0 0 0.23832 1 31237 31237 20.871 0.41758 1 3141100 6805 6701 4349 4366 7991 7991 0.061144703901618414 FPMVKVNKM 9 Unmodified _FPMVKVNKM_ 0 0 0 REV__ENST00000569787.1_1_16:22328322-22336592:+|nuORF REV__ENST00000569787.1_1_16:22328322-22336592:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.301025390625 2 547.298473 1092.58239 3.6448 0.0019948 0.34885 0.00019093 3.9937 0.0021857 547.2987884823334 46.324 0.28729 46.59 46.387 46.675 0.26561 17 11 2 0 0 0 0.76984 1 21200 21200 7.9102 0.62092 1 327060 + 6806 10383 4350 4367 7992 7992 0.03980508112840653 FPNAIEHTL 9 Unmodified _FPNAIEHTL_ 0 0 0 ENSG00000130985|ENST00000335972|UBA1;nc|ENSG00000130985|P22314-2|UBA1;ENST00000490869.1_1_X:47063082-47065999:+|nuORF ENSG00000130985|ENST00000335972|UBA1 ENSG00000130985|ENST00000335972|UBA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.2740478515625 2 521.271824 1040.5291 3.4824 0.0018153 0.87943 0.00045842 4.3618 0.0022737 521.2724892861065 50.175 1.243 50.998 50.001 51.244 0.82285 148 62 4 0 0 0 1.0217E-09 8 22910 22464;22544;22626;22670;22716;22812;22865;22910 163.04 117.02 1 6316200 6807 2632 4351 4368 7993;7994;7995;7996;7997;7998;7999;8000 8000 0.010451699261921021 FPNAIEHTL 9 Unmodified _FPNAIEHTL_ 0 0 0 ENSG00000130985|ENST00000335972|UBA1;nc|ENSG00000130985|P22314-2|UBA1;ENST00000490869.1_1_X:47063082-47065999:+|nuORF ENSG00000130985|ENST00000335972|UBA1 ENSG00000130985|ENST00000335972|UBA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.2738647460938 2 521.271824 1040.5291 3.2838 0.0017118 1.039 0.00054162 4.3228 0.0022534 521.2725673997264 50.979 1.1874 51.24 50.302 51.489 0.26146 136 54 4 0 0 0 1.4684E-06 9 23248 22920;22983;23036;23087;23144;23195;23248;23291;23348 149.91 96.081 1 8706700 6808 2632 4351 4368 8001;8002;8003;8004;8005;8006;8007;8008;8009 8007 0.010451699261921021 FPNAIEHTL 9 Unmodified _FPNAIEHTL_ 0 0 0 ENSG00000130985|ENST00000335972|UBA1;nc|ENSG00000130985|P22314-2|UBA1;ENST00000490869.1_1_X:47063082-47065999:+|nuORF ENSG00000130985|ENST00000335972|UBA1 ENSG00000130985|ENST00000335972|UBA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.2745971679688 2 521.271824 1040.5291 3.3165 0.0017288 0.97184 0.00050659 4.2884 0.0022354 521.2725068505059 50.268 1.1909 50.926 50.012 51.203 0.65735 130 49 4 0 0 0 5.8409E-14 9 22834 22662;22722;22774;22834;22895;22950;23005;23049;23098 168.66 114.83 1 9240500 6809 2632 4351 4368 8010;8011;8012;8013;8014;8015;8016;8017;8018 8013 0.010451699261921021 FPNIPGKSL 9 Unmodified _FPNIPGKSL_ 0 0 0 ENSG00000143753|ENST00000323699|DEGS1;ENST00000498813.1_1_1:224377853-224378832:+|nuORF ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 486.7811584472656 2 486.779285 971.544017 3.4203 0.0016649 0.03181 1.5484E-05 3.4521 0.0016804 486.77933730135857 51.237 0.66087 51.237 50.963 51.624 0 63 35 2 0 0 0 0.031195 4 23478 23386;23433;23478;23532 67.838 31.794 1 694000 6810 3391 4352 4369 8019;8020;8021;8022 8021 0.057106617941940385 FPNIPGKSL 9 Unmodified _FPNIPGKSL_ 0 0 0 ENSG00000143753|ENST00000323699|DEGS1;ENST00000498813.1_1_1:224377853-224378832:+|nuORF ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.7810363769531 2 486.779285 971.544017 3.1272 0.0015222 0.12751 6.2067E-05 3.2547 0.0015843 486.77937325264173 50.49 0.65897 51.313 50.95 51.609 0.82285 53 33 2 0 0 0 0.060129 2 23024 22899;23024 53.404 23.179 1 539350 6811 3391 4352 4369 8023;8024 8024 0.057106617941940385 FPNIPGKSL 9 Unmodified _FPNIPGKSL_ 0 0 0 ENSG00000143753|ENST00000323699|DEGS1;ENST00000498813.1_1_1:224377853-224378832:+|nuORF ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.78106689453125 2 486.779285 971.544017 3.0999 0.001509 1.0854 0.00052836 4.1853 0.0020373 486.77955617241366 50.556 0.75396 51.213 50.729 51.483 0.65735 73 35 3 0 0 0 0.044031 6 23019 22961;23019;23064;23127;23173;23185 53.404 24.917 1 619980 6812 3391 4352 4369 8025;8026;8027;8028;8029;8030 8026 0.057106617941940385 FPNIPGKSL 9 Unmodified _FPNIPGKSL_ 0 0 0 ENSG00000143753|ENST00000323699|DEGS1;ENST00000498813.1_1_1:224377853-224378832:+|nuORF ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 486.779285 971.544017 2.9812 0.0014512 0.19395 9.4411E-05 3.1751 0.0015456 486.77937266983423 51.199 0.54495 51.46 51.119 51.664 0.26146 0.15444 -9.1872E-05 NaN 67.838 43 24 2 NaN NaN NaN NaN 0 NaN NaN 0 827620 6813 3391 4352 4369 0.057106617941940385 FPNIVIKGSEL 11 Unmodified _FPNIVIKGSEL_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 608.8518676757812 2 608.850438 1215.68632 3.779 0.0023008 -0.24041 -0.00014637 3.5385 0.0021544 608.8504973889073 67.064 0.49895 67.314 67.016 67.515 0.25011 59 30 3 0 0 0 0.0001075 3 30759 30668;30712;30759 88.364 36.948 1 847830 6814 4968 4353 4370 8031;8032;8033 8033 0.08710829745700721 FPNIVIKGSEL 11 Unmodified _FPNIVIKGSEL_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 608.8532104492188 2 608.850438 1215.68632 3.705 0.0022558 0.43736 0.00026629 4.1424 0.0025221 608.8506431004777 66.386 0.46387 67.043 66.826 67.29 0.65672 45 26 2 0 0 0 3.1377E-06 3 30460 30405;30460;30511 97.741 35.331 1 905780 6815 4968 4353 4370 8034;8035;8036 8035 0.08710829745700721 FPNIVIKGSEL 11 Unmodified _FPNIVIKGSEL_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 608.850438 1215.68632 2.715 0.001653 1.3014 0.00079238 4.0164 0.0024454 608.851516100315 66.297 0.16673 67.002 66.971 67.138 0.7047 -0.1175 0.0015141 NaN 97.741 25 19 2 NaN NaN NaN NaN 0 NaN NaN 0 2006900 6816 4968 4353 4370 0.08710829745700721 FPNKQGYVL 9 Unmodified _FPNKQGYVL_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3 ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.2908935546875 2 533.290017 1064.56548 2.9841 0.0015914 0.55535 0.00029616 3.5394 0.0018875 533.2904709597515 45.378 0.87915 45.378 45.087 45.967 0 73 44 2 0 0 0 0.052704 1 20750 20750 46.021 24.484 1 639590 6817 3825 4354 4371 8037 8037 0.03578046822894976 FPNKQGYVL 9 Unmodified _FPNKQGYVL_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3 ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.2937622070312 2 533.290017 1064.56548 NaN NaN NaN NaN NaN NaN NaN 46.252 1 46.252 45.752 46.752 0 0 0 0 0.33854 1 21166 21166 25.399 7.2643 1 6818 3825 4354 4371 8038 8038 0.03578046822894976 FPNKQGYVL 9 Unmodified _FPNKQGYVL_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3 ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.2916870117188 2 533.290017 1064.56548 3.0007 0.0016003 0.51341 0.0002738 3.5141 0.0018741 533.2902951652839 44.652 0.82034 45.473 44.792 45.612 0.82075 74 44 2 0 0 0 0.032303 2 20131 20131;20253 54.774 27.89 1 746560 6819 3825 4354 4371 8039;8040 8039 0.03578046822894976 FPNKQGYVL 9 Unmodified _FPNKQGYVL_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3 ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.2913818359375 2 533.290017 1064.56548 3.0108 0.0016056 0.8141 0.00043415 3.8249 0.0020398 533.2903461024874 45.902 1.2285 46.167 45.369 46.598 0.26561 109 50 3 0 0 0 0.017868 2 20803 20803;20920 71.134 44.792 1 1328300 6820 3825 4354 4371 8041;8042 8041 0.03578046822894976 FPNKQGYVL 9 Unmodified _FPNKQGYVL_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3 ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.2926025390625 2 533.290017 1064.56548 3.4586 0.0018445 1.0923 0.0005825 4.5509 0.002427 533.2904275658598 45.2 1.3116 45.851 45.124 46.435 0.65104 115 52 3 0 0 0 0.14729 1 20857 20857 26.884 9.9414 1 782400 6821 3825 4354 4371 8043 8043 0.03578046822894976 FPNQGEVKL 9 Unmodified _FPNQGEVKL_ 0 0 0 ENSG00000013392|ENST00000369724|RWDD2A ENSG00000013392|ENST00000369724|RWDD2A ENSG00000013392|ENST00000369724|RWDD2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.2817993164062 2 516.279649 1030.54475 3.2418 0.0016737 -0.44814 -0.00023137 2.7937 0.0014423 516.2793322505707 44.444 0.40722 44.714 44.532 44.939 0.26939 22 14 2 0 0 0 0.2095 1 20371 20371 29.841 8.9694 1 281180 6822 431 4355 4372 8044 8044 0.030694564432451443 FPNQGEVKL 9 Unmodified _FPNQGEVKL_ 0 0 0 ENSG00000013392|ENST00000369724|RWDD2A ENSG00000013392|ENST00000369724|RWDD2A ENSG00000013392|ENST00000369724|RWDD2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.2816772460938 2 516.279649 1030.54475 NaN NaN NaN NaN NaN NaN NaN 44.058 1 44.707 44.207 45.207 0.64978 0 0 0 0.64721 1 20193 20193 19.362 9.288 1 6823 431 4355 4372 8045 8045 0.030694564432451443 FPNVEIVTI 9 Unmodified _FPNVEIVTI_ 0 0 0 nc|ENSG00000183337|Q6W2J9-4|BCOR;nc|ENSG00000183337|Q6W2J9-2|BCOR;ENSG00000183337|ENST00000378444|BCOR;ENST00000442018.5_2_X:39911364-39913101:-|nuORF nc|ENSG00000183337|Q6W2J9-4|BCOR nc|ENSG00000183337|Q6W2J9-4|BCOR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.294921875 2 516.292225 1030.5699 NaN NaN NaN NaN NaN NaN NaN 85.737 1 86.408 85.908 86.908 0.67061 0 0 0 0.13912 1 39481 39481 34.402 4.2034 1 6824 5376 4356 4373 8046 8046 0.05583511245822592 FPPAWGYMCHC 11 Unmodified _FPPAWGYMCHC_ 0 0 0 REV__nc|ENSG00000134249|Q9UKF2-2|ADAM30 REV__nc|ENSG00000134249|Q9UKF2-2|ADAM30 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 656.2672119140625 2 656.259022 1310.50349 NaN NaN NaN NaN NaN NaN NaN 51.966 1 52.628 52.128 53.128 0.66198 0 0 0 1.0071 1 23764 23764 1.4819 0.28856 1 + 6825 11958 4357 4374 8047 8047 -0.1393408718374758 FPPHLDVYIED 11 Unmodified _FPPHLDVYIED_ 0 0 0 ENST00000578537.1_1_17:8133236-8135054:-|nuORF;ENST00000578240.1_1_17:8133610-8135926:-|nuORF;nc|ENSG00000178971|Q2NKJ3-2|CTC1;ENSG00000178971|ENST00000651323|CTC1 ENST00000578537.1_1_17:8133236-8135054:-|nuORF ENST00000578537.1_1_17:8133236-8135054:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 672.82421875 2 672.82716 1343.63977 NaN NaN NaN NaN NaN NaN NaN 50.383 1 51.206 50.706 51.706 0.82285 0 0 0 1.0059 1 22950 22950 2.9952 0.49676 1 6826 5189 4358 4375 8048 8048 -0.018306548762211605 FPPILRVRV 9 Unmodified _FPPILRVRV_ 0 0 0 ENST00000274276.7_1_5:38876329-38876419:+|nuORF ENST00000274276.7_1_5:38876329-38876419:+|nuORF ENST00000274276.7_1_5:38876329-38876419:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.2397155761719 3 366.237838 1095.69168 2.3105 0.00084617 0.91327 0.00033447 3.2237 0.0011806 366.2381319193368 41.61 0.18402 42.414 42.38 42.564 0.80351 33 18 2 0 0 0 1.178 1 18882 18882 1.0715 1.0715 1 2459600 6827 6665 4359 4376 8049 8049 0.14766598118831098 FPPILRVRV 9 Unmodified _FPPILRVRV_ 0 0 0 ENST00000274276.7_1_5:38876329-38876419:+|nuORF ENST00000274276.7_1_5:38876329-38876419:+|nuORF ENST00000274276.7_1_5:38876329-38876419:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 366.237838 1095.69168 2.6422 0.00096768 1.6146 0.00059134 4.2569 0.001559 366.2384147453381 42.521 0.28971 42.521 42.383 42.673 0 0.053765 0.00020519 NaN 1.0715 51 20 3 NaN NaN NaN NaN 0 NaN NaN 0 2628200 6828 6665 4359 4376 0.14766598118831098 FPPILRVRV 9 Unmodified _FPPILRVRV_ 0 0 0 ENST00000274276.7_1_5:38876329-38876419:+|nuORF ENST00000274276.7_1_5:38876329-38876419:+|nuORF ENST00000274276.7_1_5:38876329-38876419:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 366.237838 1095.69168 2.3105 0.00084617 0.91327 0.00033447 3.2237 0.0011806 366.2381319193368 41.61 0.18402 42.414 42.38 42.564 0.80351 -0.053765 -0.00056542 NaN 1.0715 33 18 2 NaN NaN NaN NaN 0 NaN NaN 0 2459600 6829 6665 4359 4376 0.14766598118831098 FPPKGRPK 8 Unmodified _FPPKGRPK_ 0 0 0 nc|ENSG00000104723|Q13454-2|TUSC3;ENSG00000104723|ENST00000503731|TUSC3 nc|ENSG00000104723|Q13454-2|TUSC3 nc|ENSG00000104723|Q13454-2|TUSC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 309.52471923828125 3 309.523867 925.549771 NaN NaN NaN NaN NaN NaN NaN 29.656 1 30.445 29.945 30.945 0.78921 0 0 0 0.99035 1 13375 13375 3.5965 1.9439 1 6830 9582 4360 4377 8050 8050 0.08401805096514181 FPPLLWYRMKR 11 Unmodified _FPPLLWYRMKR_ 0 0 0 REV__nc|ENSG00000187955|Q05707-3|COL14A1 REV__nc|ENSG00000187955|Q05707-3|COL14A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 753.9263916015625 2 753.923749 1505.83295 NaN NaN NaN NaN NaN NaN NaN 56.117 1 56.117 55.617 56.617 0 0 0 0 1.0072 1 25815 25815 1.3295 0.9789 1 + 6831 18084 4361 4378 8051 8051 0.10026228429774164 FPPRYTNT 8 Unmodified _FPPRYTNT_ 0 0 0 ENST00000399640.3_1_8:134488611-134488734:-|nuORF ENST00000399640.3_1_8:134488611-134488734:-|nuORF ENST00000399640.3_1_8:134488611-134488734:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.2537536621094 2 498.250892 994.48723 NaN NaN NaN NaN NaN NaN NaN 34.476 1 35.099 34.599 35.599 0.62294 0 0 0 0.99035 1 15793 15793 4.756 0 1 6832 7603 4362 4379 8052 8052 -0.010233857623461518 FPPVPYDLE 9 Unmodified _FPPVPYDLE_ 0 0 0 nc|ENSG00000196748|Q6UWE3-2|CLPSL2 nc|ENSG00000196748|Q6UWE3-2|CLPSL2 nc|ENSG00000196748|Q6UWE3-2|CLPSL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.2705688476562 2 538.768583 1075.52261 3.3265 0.0017922 2.4695 0.0013305 5.796 0.0031227 538.7724896343329 37.063 1.4684 37.693 36.917 38.385 0.62999 106 56 3 0 0 0 0.22507 1 16977 16977 21.747 2.4897 1 400330 6833 9800 4363 4380 8053 8053 -0.012127680251751372 FPQDRVFML 9 Unmodified _FPQDRVFML_ 0 0 0 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.7997436523438 2 576.797152 1151.57975 NaN NaN NaN NaN NaN NaN NaN 71.212 1 71.47 70.97 71.97 0.25786 0 0 0 0.37777 1 32619 32619 23.79 2.9186 1 6834 1990 4364 4381 8054 8054 0.010023759795558362 FPQEVKDLL 9 Unmodified _FPQEVKDLL_ 0 0 0 SDAD1|p.E120Nfs*23|1|0.27|ENSG00000198301|chr4:75977693-75977693|C/-|frameshift_variant;ENST00000395710.5_1_4:76871905-76902632:-|nuORF;ENSG00000198301|ENST00000356260|SDAD1 SDAD1|p.E120Nfs*23|1|0.27|ENSG00000198301|chr4:75977693-75977693|C/-|frameshift_variant SDAD1|p.E120Nfs*23|1|0.27|ENSG00000198301|chr4:75977693-75977693|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.8046875 2 544.802957 1087.59136 3.4705 0.0018908 -0.2404 -0.00013097 3.2301 0.0017598 544.8028445343632 64.691 0.27322 64.939 64.857 65.13 0.24802 62 24 3 0 0 0 0.014013 3 29653 29605;29653;29704 91.085 91.085 1 5103900 6835 5882 4365 4382 8055;8056;8057 8056 0.05106896274514838 FPQEVKDLL 9 Unmodified _FPQEVKDLL_ 0 0 0 SDAD1|p.E120Nfs*23|1|0.27|ENSG00000198301|chr4:75977693-75977693|C/-|frameshift_variant;ENST00000395710.5_1_4:76871905-76902632:-|nuORF;ENSG00000198301|ENST00000356260|SDAD1 SDAD1|p.E120Nfs*23|1|0.27|ENSG00000198301|chr4:75977693-75977693|C/-|frameshift_variant SDAD1|p.E120Nfs*23|1|0.27|ENSG00000198301|chr4:75977693-75977693|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.8046875 2 544.802957 1087.59136 3.5756 0.001948 -0.46286 -0.00025217 3.1128 0.0016959 544.8028490643799 64.185 0.2672 64.842 64.71 64.978 0.65672 52 30 3 0 0 0 0.0060394 2 29409 29409;29455 96.936 45.419 1 8097900 6836 5882 4365 4382 8058;8059 8058 0.05106896274514838 FPQKFIDLL 9 Unmodified _FPQKFIDLL_ 0 0 0 ENST00000462159.1_1_1:100573356-100598412:-|nuORF;ENSG00000156876|ENST00000287482|SASS6 ENST00000462159.1_1_1:100573356-100598412:-|nuORF ENST00000462159.1_1_1:100573356-100598412:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.826416015625 2 560.823692 1119.63283 3.3601 0.0018844 2.3215 0.001302 5.6816 0.0031864 560.8250016323213 81.04 0.25655 81.288 81.12 81.376 0.24803 20 15 2 0 0 0 0.22744 1 37345 37345 29.082 10.935 1 439800 6837 3929 4366 4383 8060 8060 0.07780077033862653 FPQKRLFH 8 Unmodified _FPQKRLFH_ 0 0 0 nc|ENSG00000164741|Q96QB1-3|DLC1 nc|ENSG00000164741|Q96QB1-3|DLC1 nc|ENSG00000164741|Q96QB1-3|DLC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 358.20989990234375 3 358.206538 1071.59778 NaN NaN NaN NaN NaN NaN NaN 36.973 1 36.973 36.473 37.473 0 0 0 0 0.99035 1 16779 16779 1.6526 0.17072 1 6838 9728 4367 4384 8061 8061 0.06484879016556988 FPQYAPPVM 9 Unmodified _FPQYAPPVM_ 0 0 0 nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.2684936523438 2 525.259871 1048.50519 NaN NaN NaN NaN NaN NaN NaN 69.585 1 69.839 69.339 70.339 0.25443 0 0 0 0.72654 1 31865 31865 11.64 0 1 6839 9560 4368 4385 8062 8062 -0.01712386831832191 FPQYAPPVM 9 Unmodified _FPQYAPPVM_ 0 0 0 nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.261474609375 2 525.259871 1048.50519 NaN NaN NaN NaN NaN NaN NaN 68.82 1 69.479 68.979 69.979 0.65924 0 0 0 0.42757 1 31547 31547 21.747 8.2388 1 6840 9560 4368 4385 8063 8063 -0.01712386831832191 FPQYAPPVM 9 Unmodified _FPQYAPPVM_ 0 0 0 nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.2613525390625 2 525.259871 1048.50519 NaN NaN NaN NaN NaN NaN NaN 68.94 1 69.599 69.099 70.099 0.65924 0 0 0 0.42757 1 31602 31602 21.747 7.8406 1 6841 9560 4368 4385 8064 8064 -0.01712386831832191 FPQYPDKEL 9 Unmodified _FPQYPDKEL_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;ENST00000569732.1_1_16:58585686-58592512:-|nuORF CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.7875366210938 2 568.784764 1135.55498 NaN NaN NaN NaN NaN NaN NaN 46.616 1 46.616 46.116 47.116 0 0 0 0 0.00011206 1 21338 21338 107.1 44.527 1 6842 196 4369 4386 8065 8065 -0.0073798062219339045 FPQYPDKEL 9 Unmodified _FPQYPDKEL_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;ENST00000569732.1_1_16:58585686-58592512:-|nuORF CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.7869262695312 2 568.784764 1135.55498 NaN NaN NaN NaN NaN NaN NaN 46.997 1 46.997 46.497 47.497 0 0 0 0 3.0694E-07 1 21513 21513 125.04 64.964 1 6843 196 4369 4386 8066 8066 -0.0073798062219339045 FPQYPDKEL 9 Unmodified _FPQYPDKEL_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;ENST00000569732.1_1_16:58585686-58592512:-|nuORF CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.787353515625 2 568.784764 1135.55498 NaN NaN NaN NaN NaN NaN NaN 47.094 1 47.094 46.594 47.594 0 0 0 0 0.0076802 1 21558 21558 87.258 43.4 1 6844 196 4369 4386 8067 8067 -0.0073798062219339045 FPQYPDKEL 9 Unmodified _FPQYPDKEL_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;ENST00000569732.1_1_16:58585686-58592512:-|nuORF CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.7865600585938 2 568.784764 1135.55498 NaN NaN NaN NaN NaN NaN NaN 47.259 1 47.259 46.759 47.759 0 0 0 0 0.017165 1 21634 21634 76.825 30.804 1 6845 196 4369 4386 8068 8068 -0.0073798062219339045 FPQYPDKEL 9 Unmodified _FPQYPDKEL_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;ENST00000569732.1_1_16:58585686-58592512:-|nuORF CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.7869873046875 2 568.784764 1135.55498 NaN NaN NaN NaN NaN NaN NaN 46.597 1 46.863 46.363 47.363 0.26561 0 0 0 0.011162 1 21296 21296 83.429 29.596 1 6846 196 4369 4386 8069 8069 -0.0073798062219339045 FPQYPDKEL 9 Unmodified _FPQYPDKEL_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;ENST00000569732.1_1_16:58585686-58592512:-|nuORF CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.7870483398438 2 568.784764 1135.55498 NaN NaN NaN NaN NaN NaN NaN 46.824 1 47.09 46.59 47.59 0.26561 0 0 0 2.0091E-10 1 21401 21401 128.93 63.697 1 6847 196 4369 4386 8070 8070 -0.0073798062219339045 FPQYPDKEL 9 Unmodified _FPQYPDKEL_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;ENST00000569732.1_1_16:58585686-58592512:-|nuORF CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.78662109375 2 568.784764 1135.55498 NaN NaN NaN NaN NaN NaN NaN 46.97 1 47.234 46.734 47.734 0.26363 0 0 0 0.00016887 1 21467 21467 103.42 44.741 1 6848 196 4369 4386 8071 8071 -0.0073798062219339045 FPQYPDKEL 9 Unmodified _FPQYPDKEL_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;ENST00000569732.1_1_16:58585686-58592512:-|nuORF CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.786376953125 2 568.784764 1135.55498 NaN NaN NaN NaN NaN NaN NaN 47.102 1 47.366 46.866 47.866 0.26363 0 0 0 0.019551 1 21526 21526 74.2 33.96 1 6849 196 4369 4386 8072 8072 -0.0073798062219339045 FPQYPDKEL 9 Unmodified _FPQYPDKEL_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;ENST00000569732.1_1_16:58585686-58592512:-|nuORF CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.7863159179688 2 568.784764 1135.55498 NaN NaN NaN NaN NaN NaN NaN 47.223 1 47.487 46.987 47.987 0.26363 0 0 0 0.063391 1 21580 21580 49.554 24.563 1 6850 196 4369 4386 8073 8073 -0.0073798062219339045 FPQYPDKEL 9 Unmodified _FPQYPDKEL_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;ENST00000569732.1_1_16:58585686-58592512:-|nuORF CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.7874145507812 2 568.784764 1135.55498 NaN NaN NaN NaN NaN NaN NaN 46.006 1 46.657 46.157 47.157 0.65104 0 0 0 0.00011206 1 21075 21075 107.1 37.995 1 6851 196 4369 4386 8074 8074 -0.0073798062219339045 FPQYPDKEL 9 Unmodified _FPQYPDKEL_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;ENST00000569732.1_1_16:58585686-58592512:-|nuORF CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.787109375 2 568.784764 1135.55498 NaN NaN NaN NaN NaN NaN NaN 46.269 1 46.921 46.421 47.421 0.65219 0 0 0 3.0694E-07 1 21193 21193 125.04 64.964 1 6852 196 4369 4386 8075 8075 -0.0073798062219339045 FPQYPDKEL 9 Unmodified _FPQYPDKEL_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;ENST00000569732.1_1_16:58585686-58592512:-|nuORF CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.7871704101562 2 568.784764 1135.55498 NaN NaN NaN NaN NaN NaN NaN 46.392 1 47.044 46.544 47.544 0.65219 0 0 0 0.0060814 1 21250 21250 90.135 36.302 1 6853 196 4369 4386 8076 8076 -0.0073798062219339045 FPQYPDKEL 9 Unmodified _FPQYPDKEL_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;ENST00000569732.1_1_16:58585686-58592512:-|nuORF CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.787353515625 2 568.784764 1135.55498 NaN NaN NaN NaN NaN NaN NaN 46.54 1 47.192 46.692 47.692 0.65219 0 0 0 0.017165 1 21317 21317 76.825 38.851 1 6854 196 4369 4386 8077 8077 -0.0073798062219339045 FPQYVMDVL 9 Unmodified _FPQYVMDVL_ 0 0 0 ENST00000432525.5_1_22:38886367-38903636:-|nuORF;ENST00000216019.11_1_22:38888049-38902242:-|nuORF;nc|ENSG00000100201|Q92841-1|DDX17;nc|ENSG00000100201|Q92841-3|DDX17;nc|ENSG00000100201|Q92841-2|DDX17;ENSG00000100201|ENST00000403230|DDX17 ENST00000432525.5_1_22:38886367-38903636:-|nuORF ENST00000432525.5_1_22:38886367-38903636:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.2799072265625 2 556.27826 1110.54197 3.9246 0.0021832 -0.12594 -7.0058E-05 3.7987 0.0021131 556.2780219284498 89.955 0.42299 90.206 89.925 90.348 0.25137 29 17 2 0 0 0 0.057744 2 41371 41319;41371 43.858 19.648 1 684300 6855 1186 4370 4387 8078;8079 8079 -0.008881350059255055 FPQYVMDVL 9 Unmodified _FPQYVMDVL_ 0 0 0 ENST00000432525.5_1_22:38886367-38903636:-|nuORF;ENST00000216019.11_1_22:38888049-38902242:-|nuORF;nc|ENSG00000100201|Q92841-1|DDX17;nc|ENSG00000100201|Q92841-3|DDX17;nc|ENSG00000100201|Q92841-2|DDX17;ENSG00000100201|ENST00000403230|DDX17 ENST00000432525.5_1_22:38886367-38903636:-|nuORF ENST00000432525.5_1_22:38886367-38903636:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.2808227539062 2 556.27826 1110.54197 3.6802 0.0020472 0.64764 0.00036027 4.3278 0.0024075 556.2787486340973 89.349 0.41309 90.027 89.785 90.198 0.67818 29 18 2 0 0 0 0.047285 2 41117 41117;41171 48.346 24.136 1 819500 6856 1186 4370 4387 8080;8081 8080 -0.008881350059255055 FPRDPEIEM 9 Unmodified _FPRDPEIEM_ 0 0 0 nc|ENSG00000162692|P19320-2|VCAM1;nc|ENSG00000162692|P19320-3|VCAM1;ENSG00000162692|ENST00000294728|VCAM1 nc|ENSG00000162692|P19320-2|VCAM1 nc|ENSG00000162692|P19320-2|VCAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.2714233398438 2 567.268424 1132.5223 3.6389 0.0020642 0.18296 0.00010379 3.8218 0.002168 567.2684802571065 50.973 0.55356 50.973 50.733 51.287 0 45 26 2 0 0 0 0.049036 2 23348 23295;23348 47.594 16.958 1 1090500 6857 4158 4371 4388 8082;8083 8083 -0.038665110166903105 FPRDPEIEM 9 Unmodified _FPRDPEIEM_ 0 0 0 nc|ENSG00000162692|P19320-2|VCAM1;nc|ENSG00000162692|P19320-3|VCAM1;ENSG00000162692|ENST00000294728|VCAM1 nc|ENSG00000162692|P19320-2|VCAM1 nc|ENSG00000162692|P19320-2|VCAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.2705688476562 2 567.268424 1132.5223 3.554 0.002016 0.24055 0.00013646 3.7945 0.0021525 567.2684075628624 50.045 0.57168 50.868 50.636 51.207 0.82285 47 26 2 0 0 0 0.030603 2 22778 22778;22833 55.503 24.866 1 635050 6858 4158 4371 4388 8084;8085 8084 -0.038665110166903105 FPRDPEIEM 9 Unmodified _FPRDPEIEM_ 0 0 0 nc|ENSG00000162692|P19320-2|VCAM1;nc|ENSG00000162692|P19320-3|VCAM1;ENSG00000162692|ENST00000294728|VCAM1 nc|ENSG00000162692|P19320-2|VCAM1 nc|ENSG00000162692|P19320-2|VCAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.270751953125 2 567.268424 1132.5223 3.433 0.0019474 -1.1384 -0.00064575 2.2947 0.0013017 567.268533642257 50.844 0.69128 51.106 50.835 51.527 0.26146 79 31 3 0 0 0 0.0023958 4 23240 23187;23240;23292;23354 100.09 56.232 1 1789500 6859 4158 4371 4388 8086;8087;8088;8089 8087 -0.038665110166903105 FPRDPEIEM 9 Unmodified _FPRDPEIEM_ 0 0 0 nc|ENSG00000162692|P19320-2|VCAM1;nc|ENSG00000162692|P19320-3|VCAM1;ENSG00000162692|ENST00000294728|VCAM1 nc|ENSG00000162692|P19320-2|VCAM1 nc|ENSG00000162692|P19320-2|VCAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.2703857421875 2 567.268424 1132.5223 3.5235 0.0019987 -1.7817 -0.0010107 1.7418 0.00098807 567.2684354296758 50.256 0.80322 50.913 50.563 51.366 0.65735 90 35 4 0 0 0 0.0090098 3 22952 22901;22952;23007 83.429 47.302 1 1564200 6860 4158 4371 4388 8090;8091;8092 8091 -0.038665110166903105 FPRFRNREL 9 Unmodified _FPRFRNREL_ 0 0 0 nc|ENSG00000091490|Q68CR1-3|SEL1L3;nc|ENSG00000091490|Q68CR1-2|SEL1L3;ENSG00000091490|ENST00000399878|SEL1L3 nc|ENSG00000091490|Q68CR1-3|SEL1L3 nc|ENSG00000091490|Q68CR1-3|SEL1L3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.56707763671875 3 412.231634 1233.67307 3.005 0.0012388 0.13883 5.7231E-05 3.1438 0.001296 412.2316744805728 29.054 0.32609 29.314 29.164 29.49 0.2602 48 21 3 0 0 0 0.26118 1 13212 13212 19.362 8.5624 1 620030 6861 1078 4372 4389 8093 8093 0.06558436476984753 FPRHIEPEL 9 Unmodified _FPRHIEPEL_ 0 0 0 ENSG00000146574|ENST00000316731|CCZ1B;ENSG00000122674|ENST00000325974|CCZ1 ENSG00000146574|ENST00000316731|CCZ1B ENSG00000146574|ENST00000316731|CCZ1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.874267578125 3 379.873224 1136.59784 2.7391 0.0010405 -0.63619 -0.00024167 2.1029 0.00079884 379.87306589606084 41.186 0.23749 41.186 41.044 41.281 0 50 26 2 0 0 0 0.063112 2 18685 18685;18733 41.956 0 1 6003500 6862 2275 4373 4390 8094;8095 8094 0.035008342259061465 FPRHIEPEL 9 Unmodified _FPRHIEPEL_ 0 0 0 ENSG00000146574|ENST00000316731|CCZ1B;ENSG00000122674|ENST00000325974|CCZ1 ENSG00000146574|ENST00000316731|CCZ1B ENSG00000146574|ENST00000316731|CCZ1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.3086547851562 2 569.306198 1136.59784 3.4323 0.001954 -0.48019 -0.00027337 2.9521 0.0016807 569.3061876425877 41.215 0.20726 41.215 41.074 41.281 0 42 24 2 0 0 0 0.01 2 18691 18691;18745 99.755 0 1 4673500 6863 2275 4373 4390 8096;8097 8096 0.035008342259061465 FPRHIEPEL 9 Unmodified _FPRHIEPEL_ 0 0 0 ENSG00000146574|ENST00000316731|CCZ1B;ENSG00000122674|ENST00000325974|CCZ1 ENSG00000146574|ENST00000316731|CCZ1B ENSG00000146574|ENST00000316731|CCZ1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.8741455078125 3 379.873224 1136.59784 2.4292 0.00092277 -0.74415 -0.00028268 1.685 0.00064009 379.87304556003284 40.352 0.27467 41.152 41.051 41.325 0.80014 43 17 3 0 0 0 0.063112 1 18251 18251 41.956 0 1 4321000 6864 2275 4373 4390 8098 8098 0.035008342259061465 FPRHIEPEL 9 Unmodified _FPRHIEPEL_ 0 0 0 ENSG00000146574|ENST00000316731|CCZ1B;ENSG00000122674|ENST00000325974|CCZ1 ENSG00000146574|ENST00000316731|CCZ1B ENSG00000146574|ENST00000316731|CCZ1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.80712890625 2 569.306198 1136.59784 3.4914 0.0019877 -1.1862 -0.0006753 2.3052 0.0013124 569.3061154016988 40.372 0.25108 41.172 41.059 41.31 0.80014 25 15 2 0 0 0 0.028592 2 18263 18263;18316 70.332 0 1 2971400 6865 2275 4373 4390 8099;8100 8099 0.035008342259061465 FPRHIEPEL 9 Unmodified _FPRHIEPEL_ 0 0 0 ENSG00000146574|ENST00000316731|CCZ1B;ENSG00000122674|ENST00000325974|CCZ1 ENSG00000146574|ENST00000316731|CCZ1B ENSG00000146574|ENST00000316731|CCZ1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.3079833984375 2 569.306198 1136.59784 3.7052 0.0021094 -0.63504 -0.00036153 3.0701 0.0017479 569.3058169145363 41.022 0.24152 41.291 41.096 41.337 0.26904 45 27 2 0 0 0 0.0026238 2 18662 18612;18662 118.07 0 1 4559800 6866 2275 4373 4390 8101;8102 8102 0.035008342259061465 FPRHIEPEL 9 Unmodified _FPRHIEPEL_ 0 0 0 ENSG00000146574|ENST00000316731|CCZ1B;ENSG00000122674|ENST00000325974|CCZ1 ENSG00000146574|ENST00000316731|CCZ1B ENSG00000146574|ENST00000316731|CCZ1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.87445068359375 3 379.873224 1136.59784 3.0046 0.0011414 -0.79695 -0.00030274 2.2076 0.00083862 379.87295358958426 41.005 0.30992 41.274 41.082 41.392 0.26904 60 35 2 0 0 0 0.030603 2 18671 18624;18671 55.503 0 1 4935600 6867 2275 4373 4390 8103;8104 8104 0.035008342259061465 FPRHIEPEL 9 Unmodified _FPRHIEPEL_ 0 0 0 ENSG00000146574|ENST00000316731|CCZ1B;ENSG00000122674|ENST00000325974|CCZ1 ENSG00000146574|ENST00000316731|CCZ1B ENSG00000146574|ENST00000316731|CCZ1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.3075561523438 2 569.306198 1136.59784 NaN NaN NaN NaN NaN NaN NaN 41.095 1 41.364 40.864 41.864 0.26904 0 0 0 0.014799 1 18708 18708 86.332 0 1 6868 2275 4373 4390 8105 8105 0.035008342259061465 FPRHIEPEL 9 Unmodified _FPRHIEPEL_ 0 0 0 ENSG00000146574|ENST00000316731|CCZ1B;ENSG00000122674|ENST00000325974|CCZ1 ENSG00000146574|ENST00000316731|CCZ1B ENSG00000146574|ENST00000316731|CCZ1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.8746032714844 3 379.873224 1136.59784 2.9522 0.0011215 -0.39942 -0.00015173 2.5528 0.00096974 379.87308115344666 40.368 0.19823 41.01 40.977 41.175 0.64136 51 22 3 0 0 0 0.044468 2 18449 18449;18492 49.554 0 1 5515500 6869 2275 4373 4390 8106;8107 8106 0.035008342259061465 FPRHIEPEL 9 Unmodified _FPRHIEPEL_ 0 0 0 ENSG00000146574|ENST00000316731|CCZ1B;ENSG00000122674|ENST00000325974|CCZ1 ENSG00000146574|ENST00000316731|CCZ1B ENSG00000146574|ENST00000316731|CCZ1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.3093872070312 2 569.306198 1136.59784 3.8421 0.0021873 -0.040748 -2.3198E-05 3.8014 0.0021641 569.3059772658519 40.363 0.20511 41.005 40.959 41.165 0.64136 50 23 3 0 0 0 0.0013791 2 18451 18451;18498 137.42 0 1 6066900 6870 2275 4373 4390 8108;8109 8108 0.035008342259061465 FPRLKEDL 8 Unmodified _FPRLKEDL_ 0 0 0 ENSG00000221963|ENST00000409652|APOL6 ENSG00000221963|ENST00000409652|APOL6 ENSG00000221963|ENST00000409652|APOL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.86376953125 3 339.862437 1016.56548 2.6296 0.00089369 -0.17371 -5.9039E-05 2.4559 0.00083465 339.8622798923738 40.659 0.60063 40.928 40.435 41.035 0.26904 61 24 3 0 0 0 0.21358 2 18421 18421;18477 49.554 5.7819 1 3523700 6871 6154 4374 4391 8110;8111 8110 0.05786046822890967 FPRLKEDL 8 Unmodified _FPRLKEDL_ 0 0 0 ENSG00000221963|ENST00000409652|APOL6 ENSG00000221963|ENST00000409652|APOL6 ENSG00000221963|ENST00000409652|APOL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.2925109863281 2 509.290017 1016.56548 3.4816 0.0017731 -0.038234 -1.9472E-05 3.4433 0.0017537 509.2899649995247 40.657 0.65345 40.926 40.382 41.035 0.26904 52 26 3 0 0 0 0.0092728 3 18480 18424;18480;18533 107.19 25.478 1 1697000 6872 6154 4374 4391 8112;8113;8114 8113 0.05786046822890967 FPRLKEDL 8 Unmodified _FPRLKEDL_ 0 0 0 ENSG00000221963|ENST00000409652|APOL6 ENSG00000221963|ENST00000409652|APOL6 ENSG00000221963|ENST00000409652|APOL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.2919616699219 2 509.290017 1016.56548 3.5685 0.0018174 0.035825 1.8246E-05 3.6043 0.0018357 509.79143640859616 40.167 0.46305 40.808 40.411 40.874 0.64135 34 20 2 0 0 0 0.0081505 3 18366 18261;18308;18366 123.45 25.033 1 2631200 6873 6154 4374 4391 8115;8116;8117 8117 0.05786046822890967 FPRLKEDL 8 Unmodified _FPRLKEDL_ 0 0 0 ENSG00000221963|ENST00000409652|APOL6 ENSG00000221963|ENST00000409652|APOL6 ENSG00000221963|ENST00000409652|APOL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.86322021484375 3 339.862437 1016.56548 2.5899 0.00088022 0.066415 2.2572E-05 2.6563 0.00090279 339.86239111801814 40.158 0.65317 40.799 40.221 40.874 0.64135 47 28 3 0 0 0 0.40815 1 18364 18364 28.495 1.2713 1 2364400 6874 6154 4374 4391 8118 8118 0.05786046822890967 FPRLKSEL 8 Unmodified _FPRLKSEL_ 0 0 0 nc|ENSG00000100342|O14791-3|APOL1;ENSG00000100342|ENST00000397278|APOL1;nc|ENSG00000100342|O14791-2|APOL1 nc|ENSG00000100342|O14791-3|APOL1 nc|ENSG00000100342|O14791-3|APOL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.29443359375 2 495.292559 988.570566 3.0526 0.0015119 1.0586 0.00052432 4.1112 0.0020362 495.2931012027476 38.443 0.57702 38.707 38.216 38.793 0.26408 24 17 2 0 0 0 0.103 1 17459 17459 53.833 6.0841 1 940860 6875 1206 4375 4392 8119 8119 0.07582350685515848 FPRRHSVTL 9 Unmodified _FPRRHSVTL_ 0 0 0 ENST00000555997.1_1_14:69256252-69257717:-|nuORF;ENSG00000185650|ENST00000439696|ZFP36L1 ENST00000555997.1_1_14:69256252-69257717:-|nuORF ENST00000555997.1_1_14:69256252-69257717:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.290283203125 2 556.819807 1111.62506 3.2271 0.0017969 1.678 0.00093436 4.9052 0.0027313 556.821093595867 47.699 0.13511 48.528 48.459 48.595 0.82915 8 5 2 0 0 0 0.83994 1 21761 21761 6.7232 0.51738 1 261900 6876 5521 4376 4393 8120 8120 0.07371362556955319 FPRTIDPFL 9 Unmodified _FPRTIDPFL_ 0 0 0 REV__ENSG00000237136|ENST00000438731|C4orf51 REV__ENSG00000237136|ENST00000438731|C4orf51 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.3096923828125 2 553.305667 1104.59678 3.332 0.0018436 0.138 7.6356E-05 3.47 0.0019199 553.3058302405982 70.936 0.7126 71.194 70.883 71.596 0.25785 70 57 2 0 0 0 0.21008 1 32647 32647 22.736 0 1 578180 + 6877 14597 4377 4394 8121 8121 0.048666198569890184 FPRWTPTLRPV 11 Unmodified _FPRWTPTLRPV_ 0 0 0 REV__ENSG00000147689|ENST00000690554|FAM83A REV__ENSG00000147689|ENST00000690554|FAM83A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.3927001953125 2 685.390596 1368.76664 NaN NaN NaN NaN NaN NaN NaN 36.642 1 36.642 36.142 37.142 0 0 0 0 1.0073 1 16631 16631 1.1933 0 1 + 6878 12515 4378 4395 8122 8122 0.0970073585940554 FPRWTPTLRPV 11 Unmodified _FPRWTPTLRPV_ 0 0 0 REV__ENSG00000147689|ENST00000690554|FAM83A REV__ENSG00000147689|ENST00000690554|FAM83A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 685.3925170898438 2 685.390596 1368.76664 NaN NaN NaN NaN NaN NaN NaN 49.099 1 49.926 49.426 50.426 0.82705 0 0 0 1.0073 1 22368 22368 1.1933 0 1 + 6879 12515 4378 4395 8123 8123 0.0970073585940554 FPRWTPTLRPV 11 Unmodified _FPRWTPTLRPV_ 0 0 0 REV__ENSG00000147689|ENST00000690554|FAM83A REV__ENSG00000147689|ENST00000690554|FAM83A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.4573364257812 2 685.390596 1368.76664 NaN NaN NaN NaN NaN NaN NaN 59.47 1 59.73 59.23 60.23 0.2593 0 0 0 1.0073 1 27233 27233 1.1933 0 1 + 6880 12515 4378 4395 8124 8124 0.0970073585940554 FPRWTPTLRPV 11 Unmodified _FPRWTPTLRPV_ 0 0 0 REV__ENSG00000147689|ENST00000690554|FAM83A REV__ENSG00000147689|ENST00000690554|FAM83A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.38916015625 2 685.390596 1368.76664 NaN NaN NaN NaN NaN NaN NaN 65.174 1 65.422 64.922 65.922 0.24803 0 0 0 1.0073 1 29858 29858 1.1933 0 1 + 6881 12515 4378 4395 8125 8125 0.0970073585940554 FPRWTPTLRPV 11 Unmodified _FPRWTPTLRPV_ 0 0 0 REV__ENSG00000147689|ENST00000690554|FAM83A REV__ENSG00000147689|ENST00000690554|FAM83A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.391845703125 2 685.390596 1368.76664 NaN NaN NaN NaN NaN NaN NaN 68.436 1 68.688 68.188 69.188 0.25227 0 0 0 1.0073 1 31351 31351 1.1933 0 1 + 6882 12515 4378 4395 8126 8126 0.0970073585940554 FPRWTPTLRPV 11 Unmodified _FPRWTPTLRPV_ 0 0 0 REV__ENSG00000147689|ENST00000690554|FAM83A REV__ENSG00000147689|ENST00000690554|FAM83A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.3922119140625 2 685.390596 1368.76664 NaN NaN NaN NaN NaN NaN NaN 71.081 1 71.339 70.839 71.839 0.25786 0 0 0 1.0073 1 32558 32558 1.1933 0 1 + 6883 12515 4378 4395 8127 8127 0.0970073585940554 FPRWTPTLRPV 11 Unmodified _FPRWTPTLRPV_ 0 0 0 REV__ENSG00000147689|ENST00000690554|FAM83A REV__ENSG00000147689|ENST00000690554|FAM83A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.3942260742188 2 685.390596 1368.76664 NaN NaN NaN NaN NaN NaN NaN 79.114 1 79.365 78.865 79.865 0.25127 0 0 0 1.0073 1 36432 36432 1.1933 0 1 + 6884 12515 4378 4395 8128 8128 0.0970073585940554 FPRWTPTLRPV 11 Unmodified _FPRWTPTLRPV_ 0 0 0 REV__ENSG00000147689|ENST00000690554|FAM83A REV__ENSG00000147689|ENST00000690554|FAM83A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.395751953125 2 685.390596 1368.76664 NaN NaN NaN NaN NaN NaN NaN 55.013 1 55.681 55.181 56.181 0.66798 0 0 0 1.0073 1 25175 25175 1.1933 0 1 + 6885 12515 4378 4395 8129 8129 0.0970073585940554 FPRWTPTLRPV 11 Unmodified _FPRWTPTLRPV_ 0 0 0 REV__ENSG00000147689|ENST00000690554|FAM83A REV__ENSG00000147689|ENST00000690554|FAM83A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.3936157226562 2 685.390596 1368.76664 NaN NaN NaN NaN NaN NaN NaN 55.264 1 55.932 55.432 56.432 0.66798 0 0 0 1.0073 1 25286 25286 1.1933 0 1 + 6886 12515 4378 4395 8130 8130 0.0970073585940554 FPRWTPTLRPV 11 Unmodified _FPRWTPTLRPV_ 0 0 0 REV__ENSG00000147689|ENST00000690554|FAM83A REV__ENSG00000147689|ENST00000690554|FAM83A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.393310546875 2 685.390596 1368.76664 NaN NaN NaN NaN NaN NaN NaN 56.316 1 56.985 56.485 57.485 0.66829 0 0 0 1.0073 1 25762 25762 1.1933 0 1 + 6887 12515 4378 4395 8131 8131 0.0970073585940554 FPRWTPTLRPV 11 Unmodified _FPRWTPTLRPV_ 0 0 0 REV__ENSG00000147689|ENST00000690554|FAM83A REV__ENSG00000147689|ENST00000690554|FAM83A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.3949584960938 2 685.390596 1368.76664 NaN NaN NaN NaN NaN NaN NaN 64.321 1 64.978 64.478 65.478 0.65672 0 0 0 1.0073 1 29487 29487 1.1933 0 1 + 6888 12515 4378 4395 8132 8132 0.0970073585940554 FPRWTPTLRPV 11 Unmodified _FPRWTPTLRPV_ 0 0 0 REV__ENSG00000147689|ENST00000690554|FAM83A REV__ENSG00000147689|ENST00000690554|FAM83A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.3922119140625 2 685.390596 1368.76664 NaN NaN NaN NaN NaN NaN NaN 66.085 1 66.742 66.242 67.242 0.65672 0 0 0 1.0073 1 30298 30298 1.1933 0 1 + 6889 12515 4378 4395 8133 8133 0.0970073585940554 FPRWTPTLRPV 11 Unmodified _FPRWTPTLRPV_ 0 0 0 REV__ENSG00000147689|ENST00000690554|FAM83A REV__ENSG00000147689|ENST00000690554|FAM83A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.3927001953125 2 685.390596 1368.76664 NaN NaN NaN NaN NaN NaN NaN 68.571 1 69.23 68.73 69.73 0.65924 0 0 0 1.0073 1 31432 31432 1.1933 0 1 + 6890 12515 4378 4395 8134 8134 0.0970073585940554 FPRWTPTLRPV 11 Unmodified _FPRWTPTLRPV_ 0 0 0 REV__ENSG00000147689|ENST00000690554|FAM83A REV__ENSG00000147689|ENST00000690554|FAM83A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.3930053710938 2 685.390596 1368.76664 NaN NaN NaN NaN NaN NaN NaN 69.101 1 69.76 69.26 70.26 0.65924 0 0 0 1.0073 1 31676 31676 1.1933 0 1 + 6891 12515 4378 4395 8135 8135 0.0970073585940554 FPRWTPTLRPV 11 Unmodified _FPRWTPTLRPV_ 0 0 0 REV__ENSG00000147689|ENST00000690554|FAM83A REV__ENSG00000147689|ENST00000690554|FAM83A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.3924560546875 2 685.390596 1368.76664 NaN NaN NaN NaN NaN NaN NaN 70.114 1 70.775 70.275 71.275 0.66071 0 0 0 1.0073 1 32148 32148 1.1933 0 1 + 6892 12515 4378 4395 8136 8136 0.0970073585940554 FPSAPDVKA 9 Unmodified _FPSAPDVKA_ 0 0 0 ENSG00000023734|ENST00000419869|STRAP;nc|ENSG00000023734|Q9Y3F4-2|STRAP ENSG00000023734|ENST00000419869|STRAP ENSG00000023734|ENST00000419869|STRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.2491455078125 2 466.247818 930.481082 2.8119 0.0013111 0.59912 0.00027934 3.4111 0.0015904 466.2478392898959 38.651 0.49839 38.651 38.491 38.989 0 46 22 3 0 0 0 0.021401 3 17530 17530;17583;17637 66.457 26.507 1 677570 6893 471 4379 4396 8137;8138;8139 8137 0.013060960061352489 FPSAPDVKA 9 Unmodified _FPSAPDVKA_ 0 0 0 ENSG00000023734|ENST00000419869|STRAP;nc|ENSG00000023734|Q9Y3F4-2|STRAP ENSG00000023734|ENST00000419869|STRAP ENSG00000023734|ENST00000419869|STRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.2492980957031 2 466.247818 930.481082 2.7613 0.0012874 -0.089722 -4.1833E-05 2.6716 0.0012456 466.2475928047482 37.709 0.41188 38.504 38.341 38.752 0.79552 24 17 2 0 0 0 0.014491 2 17077 17077;17134 75.761 28.012 1 666330 6894 471 4379 4396 8140;8141 8140 0.013060960061352489 FPSAPDVKA 9 Unmodified _FPSAPDVKA_ 0 0 0 ENSG00000023734|ENST00000419869|STRAP;nc|ENSG00000023734|Q9Y3F4-2|STRAP ENSG00000023734|ENST00000419869|STRAP ENSG00000023734|ENST00000419869|STRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.24932861328125 2 466.247818 930.481082 2.5485 0.0011882 0.074938 3.494E-05 2.6235 0.0012232 466.24763629662596 38.49 0.50339 38.754 38.471 38.974 0.26408 34 18 3 0 0 0 0.004576 2 17492 17492;17548 92.653 36.476 1 1668800 6895 471 4379 4396 8142;8143 8142 0.013060960061352489 FPSAPDVKA 9 Unmodified _FPSAPDVKA_ 0 0 0 ENSG00000023734|ENST00000419869|STRAP;nc|ENSG00000023734|Q9Y3F4-2|STRAP ENSG00000023734|ENST00000419869|STRAP ENSG00000023734|ENST00000419869|STRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.24932861328125 2 466.247818 930.481082 2.6845 0.0012516 0.53377 0.00024887 3.2183 0.0015005 466.24782928383655 37.987 0.68182 38.621 38.212 38.894 0.63388 59 26 3 0 0 0 0.0079462 4 17380 17320;17380;17435;17493 85.642 29.464 1 972660 6896 471 4379 4396 8144;8145;8146;8147 8145 0.013060960061352489 FPSEITDTV 9 Unmodified _FPSEITDTV_ 0 0 0 nc|ENSG00000060237|Q9H4A3-7|WNK1;nc|ENSG00000060237|Q9H4A3-4|WNK1;nc|ENSG00000060237|Q9H4A3-2|WNK1;ENSG00000060237|ENST00000315939|WNK1;nc|ENSG00000060237|Q9H4A3-5|WNK1;nc|ENSG00000060237|Q9H4A3-6|WNK1 nc|ENSG00000060237|Q9H4A3-7|WNK1 nc|ENSG00000060237|Q9H4A3-7|WNK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.7491760253906 2 504.747847 1007.48114 3.263 0.001647 0.72957 0.00036825 3.9926 0.0020152 504.7476637084669 59.361 0.27076 60.026 59.957 60.228 0.66503 17 11 3 0 0 0 0.59776 1 27232 27232 10.824 3.5347 1 711150 6897 9551 4380 4397 8148 8148 -0.022299487845316435 FPSFAQLTM 9 Unmodified _FPSFAQLTM_ 0 0 0 ENST00000565149.5_1_16:88718935-88722722:-|nuORF;ENSG00000167508|ENST00000301012|MVD ENST00000565149.5_1_16:88718935-88722722:-|nuORF ENST00000565149.5_1_16:88718935-88722722:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.7753295898438 2 521.257328 1040.5001 3.3506 0.0017465 -0.94117 -0.00049059 2.4095 0.0012559 521.2567725841782 51.344 0.59594 51.344 51.187 51.783 0 41 32 2 0 0 0 0.26277 1 23473 23473 19.257 0 1 313120 6898 4556 4381 4398 8149 8149 -0.018526906944543953 FPSFFTTVM 9 Unmodified _FPSFFTTVM_ 0 0 0 ENSG00000183695|ENST00000329773|MRGPRX2 ENSG00000183695|ENST00000329773|MRGPRX2 ENSG00000183695|ENST00000329773|MRGPRX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.7611083984375 2 538.759704 1075.50485 3.1898 0.0017185 0.26127 0.00014076 3.451 0.0018593 538.75962824941 53.45 0.31573 53.715 53.552 53.868 0.26462 23 16 2 0 0 0 0.26001 1 24402 24402 19.439 0.18201 1 656220 6899 5399 4382 4399 8150 8150 -0.029878065516868446 FPSFQSWQ 8 Unmodified _FPSFQSWQ_ 0 0 0 ENSG00000188691|ENST00000532411|OR56A5 ENSG00000188691|ENST00000532411|OR56A5 ENSG00000188691|ENST00000532411|OR56A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.7376098632812 2 513.737617 1025.46068 NaN NaN NaN NaN NaN NaN NaN 31.52 1 31.52 31.02 32.02 0 0 0 0 0.72306 1 14260 14260 21.747 0.20967 1 6900 5678 4383 4400 8151 8151 -0.05103074653675321 FPSFQSWQ 8 Unmodified _FPSFQSWQ_ 0 0 0 ENSG00000188691|ENST00000532411|OR56A5 ENSG00000188691|ENST00000532411|OR56A5 ENSG00000188691|ENST00000532411|OR56A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.7376098632812 2 513.737617 1025.46068 NaN NaN NaN NaN NaN NaN NaN 30.202 1 30.992 30.492 31.492 0.78921 0 0 0 0.92256 1 13635 13635 10.824 0.024421 1 6901 5678 4383 4400 8152 8152 -0.05103074653675321 FPSNLVTEM 9 Unmodified _FPSNLVTEM_ 0 0 0 ENST00000546352.1_1_17:79244758-79256003:-|nuORF;nc|ENSG00000157637|Q9HBR0-3|SLC38A10;nc|ENSG00000157637|Q9HBR0-2|SLC38A10;ENSG00000157637|ENST00000374759|SLC38A10 ENST00000546352.1_1_17:79244758-79256003:-|nuORF ENST00000546352.1_1_17:79244758-79256003:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 519.7549438476562 2 519.252243 1036.48993 3.3439 0.0017363 0.43635 0.00022658 3.7802 0.0019629 519.2525863723293 70.307 0.59824 70.563 70.251 70.849 0.25641 58 42 2 0 0 0 0.1229 1 32224 32224 28.495 10.348 1 638260 6902 3958 4384 4401 8153 8153 -0.02685298419692117 FPSNLVTEM 9 Unmodified _FPSNLVTEM_ 0 0 0 ENST00000546352.1_1_17:79244758-79256003:-|nuORF;nc|ENSG00000157637|Q9HBR0-3|SLC38A10;nc|ENSG00000157637|Q9HBR0-2|SLC38A10;ENSG00000157637|ENST00000374759|SLC38A10 ENST00000546352.1_1_17:79244758-79256003:-|nuORF ENST00000546352.1_1_17:79244758-79256003:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 519.2542114257812 2 519.252243 1036.48993 NaN NaN NaN NaN NaN NaN NaN 70.389 1 70.646 70.146 71.146 0.25642 0 0 0 0.19548 1 32236 32236 31.268 2.7815 1 6903 3958 4384 4401 8154 8154 -0.02685298419692117 FPSNLVTEM 9 Unmodified _FPSNLVTEM_ 0 0 0 ENST00000546352.1_1_17:79244758-79256003:-|nuORF;nc|ENSG00000157637|Q9HBR0-3|SLC38A10;nc|ENSG00000157637|Q9HBR0-2|SLC38A10;ENSG00000157637|ENST00000374759|SLC38A10 ENST00000546352.1_1_17:79244758-79256003:-|nuORF ENST00000546352.1_1_17:79244758-79256003:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 519.2537841796875 2 519.252243 1036.48993 3.0315 0.0015741 0.79752 0.00041411 3.829 0.0019882 519.2528421537045 69.822 0.82391 70.482 70.145 70.969 0.66071 84 57 2 0 0 0 0.22824 2 32003 32003;32117 21.537 10.341 1 622240 6904 3958 4384 4401 8155;8156 8155 -0.02685298419692117 FPSNLVTEM 9 Unmodified _FPSNLVTEM_ 0 0 0 ENST00000546352.1_1_17:79244758-79256003:-|nuORF;nc|ENSG00000157637|Q9HBR0-3|SLC38A10;nc|ENSG00000157637|Q9HBR0-2|SLC38A10;ENSG00000157637|ENST00000374759|SLC38A10 ENST00000546352.1_1_17:79244758-79256003:-|nuORF ENST00000546352.1_1_17:79244758-79256003:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 519.252243 1036.48993 2.8589 0.0014845 0.75423 0.00039163 3.6132 0.0018761 519.754858467446 69.791 0.064438 70.494 70.475 70.54 0.70302 -0.019536 0.00013058 NaN 28.495 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 649380 6905 3958 4384 4401 -0.02685298419692117 FPSNSGDRF 9 Unmodified _FPSNSGDRF_ 0 0 0 ENSG00000115084|ENST00000245680|SLC35F5 ENSG00000115084|ENST00000245680|SLC35F5 ENSG00000115084|ENST00000245680|SLC35F5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.7373046875 2 513.735606 1025.45666 3.8113 0.001958 -0.075066 -3.8564E-05 3.7362 0.0019194 513.7354672282648 32.074 0.55519 32.329 31.889 32.444 0.25452 52 39 2 0 0 0 0.21008 1 14591 14591 22.736 6.8891 1 275330 6906 1942 4385 4402 8157 8157 -0.05505164147371033 FPSNSGDRF 9 Unmodified _FPSNSGDRF_ 0 0 0 ENSG00000115084|ENST00000245680|SLC35F5 ENSG00000115084|ENST00000245680|SLC35F5 ENSG00000115084|ENST00000245680|SLC35F5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.736328125 2 513.735606 1025.45666 NaN NaN NaN NaN NaN NaN NaN 31.2 1 31.457 30.957 31.957 0.25614 0 0 0 0.48891 1 14203 14203 19.362 7.7216 1 6907 1942 4385 4402 8158 8158 -0.05505164147371033 FPSNSGDRF 9 Unmodified _FPSNSGDRF_ 0 0 0 ENSG00000115084|ENST00000245680|SLC35F5 ENSG00000115084|ENST00000245680|SLC35F5 ENSG00000115084|ENST00000245680|SLC35F5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.73828125 2 513.735606 1025.45666 NaN NaN NaN NaN NaN NaN NaN 31.337 1 31.593 31.093 32.093 0.25614 0 0 0 0.6155 1 14266 14266 15.248 4.4246 1 6908 1942 4385 4402 8159 8159 -0.05505164147371033 FPSNSGDRF 9 Unmodified _FPSNSGDRF_ 0 0 0 ENSG00000115084|ENST00000245680|SLC35F5 ENSG00000115084|ENST00000245680|SLC35F5 ENSG00000115084|ENST00000245680|SLC35F5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.7371826171875 2 513.735606 1025.45666 NaN NaN NaN NaN NaN NaN NaN 31.446 1 31.702 31.202 32.202 0.25614 0 0 0 0.73102 1 14316 14316 11.495 4.2055 1 6909 1942 4385 4402 8160 8160 -0.05505164147371033 FPSNSGDRF 9 Unmodified _FPSNSGDRF_ 0 0 0 ENSG00000115084|ENST00000245680|SLC35F5 ENSG00000115084|ENST00000245680|SLC35F5 ENSG00000115084|ENST00000245680|SLC35F5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.7367553710938 2 513.735606 1025.45666 3.3984 0.0017459 0.076318 3.9207E-05 3.4747 0.0017851 513.7355907522488 31.294 0.60782 31.912 31.625 32.232 0.61737 76 41 2 0 0 0 0.10584 1 14433 14433 31.268 15.421 1 257420 6910 1942 4385 4402 8161 8161 -0.05505164147371033 FPSNSGDRF 9 Unmodified _FPSNSGDRF_ 0 0 0 ENSG00000115084|ENST00000245680|SLC35F5 ENSG00000115084|ENST00000245680|SLC35F5 ENSG00000115084|ENST00000245680|SLC35F5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.7376708984375 2 513.735606 1025.45666 NaN NaN NaN NaN NaN NaN NaN 30.661 1 31.279 30.779 31.779 0.61737 0 0 0 0.48891 1 14068 14068 19.362 7.7216 1 6911 1942 4385 4402 8162 8162 -0.05505164147371033 FPSNSGDRF 9 Unmodified _FPSNSGDRF_ 0 0 0 ENSG00000115084|ENST00000245680|SLC35F5 ENSG00000115084|ENST00000245680|SLC35F5 ENSG00000115084|ENST00000245680|SLC35F5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.7367553710938 2 513.735606 1025.45666 NaN NaN NaN NaN NaN NaN NaN 30.947 1 31.564 31.064 32.064 0.61737 0 0 0 0.48891 1 14198 14198 19.362 7.7216 1 6912 1942 4385 4402 8163 8163 -0.05505164147371033 FPSNSGDRF 9 Unmodified _FPSNSGDRF_ 0 0 0 ENSG00000115084|ENST00000245680|SLC35F5 ENSG00000115084|ENST00000245680|SLC35F5 ENSG00000115084|ENST00000245680|SLC35F5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.7376098632812 2 513.735606 1025.45666 NaN NaN NaN NaN NaN NaN NaN 32.119 1 32.738 32.238 33.238 0.61831 0 0 0 0.83378 1 14728 14728 8.1555 0.8663 1 6913 1942 4385 4402 8164 8164 -0.05505164147371033 FPSNSGDRF 9 Unmodified _FPSNSGDRF_ 0 0 0 ENSG00000115084|ENST00000245680|SLC35F5 ENSG00000115084|ENST00000245680|SLC35F5 ENSG00000115084|ENST00000245680|SLC35F5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 513.735606 1025.45666 3.3255 0.0017084 -0.12164 -6.249E-05 3.2039 0.0016459 513.7354253612851 31.955 0.27757 31.955 31.864 32.141 0 -0.11006 -0.00011478 NaN 31.268 37 26 2 NaN NaN NaN NaN 0 NaN NaN 0 276890 6914 1942 4385 4402 -0.05505164147371033 FPSPEYETF 9 Unmodified _FPSPEYETF_ 0 0 0 ENSG00000100697|ENST00000343455|DICER1;nc|ENSG00000100697|Q9UPY3-2|DICER1 ENSG00000100697|ENST00000343455|DICER1 ENSG00000100697|ENST00000343455|DICER1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.34814453125 2 558.747847 1115.48114 NaN NaN NaN NaN NaN NaN NaN 66.834 1 67.084 66.584 67.584 0.2501 0 0 0 0.86044 1 30616 30616 7.2892 1.0834 1 6915 1237 4386 4403 8165 8165 -0.07197948784528307 FPSTAEHTL 9 Unmodified _FPSTAEHTL_ 0 0 0 ENSG00000182179|ENST00000333486|UBA7;ENST00000483751.5_1_3:49846965-49847449:-|nuORF ENSG00000182179|ENST00000333486|UBA7 ENSG00000182179|ENST00000333486|UBA7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.750732421875 2 501.748182 1001.48181 3.1835 0.0015973 0.2651 0.00013301 3.4486 0.0017303 501.7484665614494 35.034 0.56659 35.29 35.244 35.811 0.25524 42 23 2 0 0 0 0.0023685 2 15979 15979;16032 100.37 58.277 1 607200 6916 5316 4387 4404 8166;8167 8166 -0.0188710934479559 FPSTAEHTL 9 Unmodified _FPSTAEHTL_ 0 0 0 ENSG00000182179|ENST00000333486|UBA7;ENST00000483751.5_1_3:49846965-49847449:-|nuORF ENSG00000182179|ENST00000333486|UBA7 ENSG00000182179|ENST00000333486|UBA7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.7507629394531 2 501.748182 1001.48181 3.2087 0.00161 0.33402 0.00016759 3.5427 0.0017776 501.74835225302576 34.654 0.3661 35.277 34.962 35.328 0.62294 22 15 2 0 0 0 0.010221 2 15845 15788;15845 81.613 50.345 1 1123600 6917 5316 4387 4404 8168;8169 8169 -0.0188710934479559 FPSTAEHTL 9 Unmodified _FPSTAEHTL_ 0 0 0 ENSG00000182179|ENST00000333486|UBA7;ENST00000483751.5_1_3:49846965-49847449:-|nuORF ENSG00000182179|ENST00000333486|UBA7 ENSG00000182179|ENST00000333486|UBA7 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 501.748182 1001.48181 2.8633 0.0014366 -0.22864 -0.00011472 2.6346 0.0013219 501.74828889118857 34.219 0.25246 35.009 34.911 35.163 0.78921 -0.18312 -0.00036205 NaN 100.37 19 13 2 NaN NaN NaN NaN 0 NaN NaN 0 232580 6918 5316 4387 4404 -0.0188710934479559 FPSTYPAL 8 Unmodified _FPSTYPAL_ 0 0 0 ENST00000396954.7_1_5:52405227-52405491:-|nuORF ENST00000396954.7_1_5:52405227-52405491:-|nuORF ENST00000396954.7_1_5:52405227-52405491:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.23248291015625 2 448.231636 894.448719 NaN NaN NaN NaN NaN NaN NaN 79.817 1 80.478 79.978 80.978 0.66082 0 0 0 0.95658 1 36778 36778 8.5933 0 1 6919 7574 4388 4405 8170 8170 -0.0027269139686723065 FPTGDSKVVL 10 Unmodified _FPTGDSKVVL_ 0 0 0 nc|ENSG00000181222|P24928|POLR2A;ENSG00000181222|ENST00000674977|POLR2A nc|ENSG00000181222|P24928|POLR2A nc|ENSG00000181222|P24928|POLR2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.7980346679688 2 531.795132 1061.57571 3.2583 0.0017328 -0.53598 -0.00028503 2.7223 0.0014477 531.7946857814759 49.757 0.72204 50.414 50.111 50.833 0.65735 47 27 2 0 0 0 0.26801 1 22815 22815 31.268 14.155 1 647520 6920 5284 4389 4406 8171 8171 0.04738609757487211 FPTIVEREP 9 Unmodified _FPTIVEREP_ 0 0 0 nc|ENSG00000143870|Q15084-3|PDIA6;ENSG00000143870|ENST00000272227|PDIA6;nc|ENSG00000143870|Q15084-4|PDIA6;nc|ENSG00000143870|Q15084-5|PDIA6;nc|ENSG00000143870|Q15084-2|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.2944946289062 2 544.292756 1086.57096 3.4433 0.0018742 -0.38579 -0.00020998 3.0575 0.0016642 544.2924849249786 47.954 0.5443 47.954 47.725 48.269 0 42 25 2 0 0 0 0.026853 4 21971 21916;21971;22016;22067 59.368 25.266 1 1056600 6921 3399 4390 4407 8172;8173;8174;8175 8173 0.031137256147076187 FPTIVEREP 9 Unmodified _FPTIVEREP_ 0 0 0 nc|ENSG00000143870|Q15084-3|PDIA6;ENSG00000143870|ENST00000272227|PDIA6;nc|ENSG00000143870|Q15084-4|PDIA6;nc|ENSG00000143870|Q15084-5|PDIA6;nc|ENSG00000143870|Q15084-2|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.2943115234375 2 544.292756 1086.57096 3.0249 0.0016464 0.26942 0.00014665 3.2943 0.0017931 544.2928856345868 46.788 0.52143 47.618 47.456 47.977 0.82915 57 28 3 0 0 0 0.031228 4 21390 21261;21342;21390;21437 55.235 17.261 1 921690 6922 3399 4390 4407 8176;8177;8178;8179 8178 0.031137256147076187 FPTIVEREP 9 Unmodified _FPTIVEREP_ 0 0 0 nc|ENSG00000143870|Q15084-3|PDIA6;ENSG00000143870|ENST00000272227|PDIA6;nc|ENSG00000143870|Q15084-4|PDIA6;nc|ENSG00000143870|Q15084-5|PDIA6;nc|ENSG00000143870|Q15084-2|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.7958374023438 2 544.292756 1086.57096 3.6526 0.0019881 0.2244 0.00012214 3.877 0.0021102 544.2927976320457 47.709 0.5457 47.972 47.913 48.459 0.26363 36 25 2 0 0 0 0.04013 2 21842 21842;21910 51.415 17.313 1 889100 6923 3399 4390 4407 8180;8181 8180 0.031137256147076187 FPTIVEREP 9 Unmodified _FPTIVEREP_ 0 0 0 nc|ENSG00000143870|Q15084-3|PDIA6;ENSG00000143870|ENST00000272227|PDIA6;nc|ENSG00000143870|Q15084-4|PDIA6;nc|ENSG00000143870|Q15084-5|PDIA6;nc|ENSG00000143870|Q15084-2|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.2949829101562 2 544.292756 1086.57096 3.44 0.0018723 -0.14379 -7.8266E-05 3.2962 0.0017941 544.2926010916206 47.086 0.45639 47.738 47.689 48.145 0.65219 41 22 2 0 0 0 0.053359 3 21622 21573;21622;21684 45.74 22.445 1 574680 6924 3399 4390 4407 8182;8183;8184 8183 0.031137256147076187 FPTKQESQL 9 Unmodified _FPTKQESQL_ 0 0 0 ENSG00000105287|ENST00000291281|PRKD2;nc|ENSG00000105287|Q9BZL6-3|PRKD2;ENSG00000184304|ENST00000331968|PRKD1;nc|ENSG00000105287|Q9BZL6-2|PRKD2;PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant;PRKD3|p.L812Sfs*13|1|0.05|ENSG00000115825|chr2:37254269-37254270|-/A|frameshift_variant;ENSG00000115825|ENST00000234179|PRKD3;ENST00000597589.5_1_19:47177782-47200527:-|nuORF;ENST00000599019.5_1_19:47177782-47200527:-|nuORF ENSG00000105287|ENST00000291281|PRKD2;PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant;ENST00000597589.5_1_19:47177782-47200527:-|nuORF PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.2853393554688 2 539.282389 1076.55022 3.4939 0.0018842 -0.68382 -0.00036877 2.8101 0.0015154 539.2824957169377 28.175 0.19575 28.175 28.062 28.258 0 20 16 2 0 0 0 0.21008 1 12694 12694 22.736 0.078198 1 326990 6925 1992;1483;9287 4391 4408 8185 8185 0.01501135235048423 FPTKQESQL 9 Unmodified _FPTKQESQL_ 0 0 0 ENSG00000105287|ENST00000291281|PRKD2;nc|ENSG00000105287|Q9BZL6-3|PRKD2;ENSG00000184304|ENST00000331968|PRKD1;nc|ENSG00000105287|Q9BZL6-2|PRKD2;PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant;PRKD3|p.L812Sfs*13|1|0.05|ENSG00000115825|chr2:37254269-37254270|-/A|frameshift_variant;ENSG00000115825|ENST00000234179|PRKD3;ENST00000597589.5_1_19:47177782-47200527:-|nuORF;ENST00000599019.5_1_19:47177782-47200527:-|nuORF ENSG00000105287|ENST00000291281|PRKD2;PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant;ENST00000597589.5_1_19:47177782-47200527:-|nuORF PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.2847900390625 2 539.282389 1076.55022 3.0472 0.0016433 0.42079 0.00022692 3.468 0.0018702 539.2825690315094 27.702 0.68818 27.964 27.603 28.291 0.26245 68 53 2 0 0 0 0.025135 4 12527 12437;12527;12585;12713 61.602 28.157 1 347260 6926 1992;1483;9287 4391 4408 8186;8187;8188;8189 8187 0.01501135235048423 FPTKQESQL 9 Unmodified _FPTKQESQL_ 0 0 0 ENSG00000105287|ENST00000291281|PRKD2;nc|ENSG00000105287|Q9BZL6-3|PRKD2;ENSG00000184304|ENST00000331968|PRKD1;nc|ENSG00000105287|Q9BZL6-2|PRKD2;PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant;PRKD3|p.L812Sfs*13|1|0.05|ENSG00000115825|chr2:37254269-37254270|-/A|frameshift_variant;ENSG00000115825|ENST00000234179|PRKD3;ENST00000597589.5_1_19:47177782-47200527:-|nuORF;ENST00000599019.5_1_19:47177782-47200527:-|nuORF ENSG00000105287|ENST00000291281|PRKD2;PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant;ENST00000597589.5_1_19:47177782-47200527:-|nuORF PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.2820434570312 2 539.282389 1076.55022 NaN NaN NaN NaN NaN NaN NaN 28.044 1 28.307 27.807 28.807 0.26245 0 0 0 0.40345 1 12753 12753 22.736 1.8651 1 6927 1992;1483;9287 4391 4408 8190 8190 0.01501135235048423 FPTKQESQL 9 Unmodified _FPTKQESQL_ 0 0 0 ENSG00000105287|ENST00000291281|PRKD2;nc|ENSG00000105287|Q9BZL6-3|PRKD2;ENSG00000184304|ENST00000331968|PRKD1;nc|ENSG00000105287|Q9BZL6-2|PRKD2;PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant;PRKD3|p.L812Sfs*13|1|0.05|ENSG00000115825|chr2:37254269-37254270|-/A|frameshift_variant;ENSG00000115825|ENST00000234179|PRKD3;ENST00000597589.5_1_19:47177782-47200527:-|nuORF;ENST00000599019.5_1_19:47177782-47200527:-|nuORF ENSG00000105287|ENST00000291281|PRKD2;PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant;ENST00000597589.5_1_19:47177782-47200527:-|nuORF PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.2840576171875 2 539.282389 1076.55022 3.2178 0.0017353 0.88701 0.00047835 4.1048 0.0022136 539.2827622680505 27.132 0.6614 27.754 27.429 28.09 0.62179 72 46 2 0 0 0 0.11155 4 12456 12351;12397;12456;12512 29.841 8.2504 1 325110 6928 1992;1483;9287 4391 4408 8191;8192;8193;8194 8193 0.01501135235048423 FPTKQESQL 9 Unmodified _FPTKQESQL_ 0 0 0 ENSG00000105287|ENST00000291281|PRKD2;nc|ENSG00000105287|Q9BZL6-3|PRKD2;ENSG00000184304|ENST00000331968|PRKD1;nc|ENSG00000105287|Q9BZL6-2|PRKD2;PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant;PRKD3|p.L812Sfs*13|1|0.05|ENSG00000115825|chr2:37254269-37254270|-/A|frameshift_variant;ENSG00000115825|ENST00000234179|PRKD3;ENST00000597589.5_1_19:47177782-47200527:-|nuORF;ENST00000599019.5_1_19:47177782-47200527:-|nuORF ENSG00000105287|ENST00000291281|PRKD2;PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant;ENST00000597589.5_1_19:47177782-47200527:-|nuORF PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.284423828125 2 539.282389 1076.55022 NaN NaN NaN NaN NaN NaN NaN 27.604 1 28.226 27.726 28.726 0.62179 0 0 0 0.1585 1 12655 12655 32.786 13.347 1 6929 1992;1483;9287 4391 4408 8195 8195 0.01501135235048423 FPTKQESQL 9 Unmodified _FPTKQESQL_ 0 0 0 ENSG00000105287|ENST00000291281|PRKD2;nc|ENSG00000105287|Q9BZL6-3|PRKD2;ENSG00000184304|ENST00000331968|PRKD1;nc|ENSG00000105287|Q9BZL6-2|PRKD2;PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant;PRKD3|p.L812Sfs*13|1|0.05|ENSG00000115825|chr2:37254269-37254270|-/A|frameshift_variant;ENSG00000115825|ENST00000234179|PRKD3;ENST00000597589.5_1_19:47177782-47200527:-|nuORF;ENST00000599019.5_1_19:47177782-47200527:-|nuORF ENSG00000105287|ENST00000291281|PRKD2;PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant;ENST00000597589.5_1_19:47177782-47200527:-|nuORF PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.2830810546875 2 539.282389 1076.55022 NaN NaN NaN NaN NaN NaN NaN 27.744 1 28.363 27.863 28.863 0.61947 0 0 0 0.31736 1 12719 12719 26.268 5.3969 1 6930 1992;1483;9287 4391 4408 8196 8196 0.01501135235048423 FPTSMELLL 9 Unmodified _FPTSMELLL_ 0 0 0 REV__ENSG00000182372|ENST00000331222|CLN8 REV__ENSG00000182372|ENST00000331222|CLN8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.7869262695312 2 525.780636 1049.54672 NaN NaN NaN NaN NaN NaN NaN 69.007 1 69.262 68.762 69.762 0.25443 0 0 0 0.22092 1 31612 31612 30.225 1.738 1 + 6931 13889 4392 4409 8197 8197 0.02392749136834027 FPTVLSEHLF 10 Unmodified _FPTVLSEHLF_ 0 0 0 REV__ENST00000484432.1_1_7:129683626-129691088:-|nuORF REV__ENST00000484432.1_1_7:129683626-129691088:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 595.317626953125 2 595.316232 1188.61791 NaN NaN NaN NaN NaN NaN NaN 57.041 1 57.709 57.209 58.209 0.66829 0 0 0 0.66225 1 26098 26098 24.021 1.2843 1 + 6932 16733 4393 4410 8198 8198 0.03114585165826611 FPTVQHQEL 9 Unmodified _FPTVQHQEL_ 0 0 0 nc|ENSG00000117523|Q9Y520-2|PRRC2C;nc|ENSG00000117523|Q9Y520-3|PRRC2C;nc|ENSG00000117523|Q9Y520-6|PRRC2C;nc|ENSG00000117523|Q9Y520-4|PRRC2C;nc|ENSG00000117523|Q9Y520-5|PRRC2C;nc|ENSG00000117523|Q9Y520|PRRC2C;ENSG00000117523|ENST00000647382|PRRC2C nc|ENSG00000117523|Q9Y520-2|PRRC2C nc|ENSG00000117523|Q9Y520-2|PRRC2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.7852783203125 2 549.782556 1097.55056 3.1942 0.0017561 0.18247 0.00010032 3.3767 0.0018564 549.7825965019666 40.412 0.1875 41.212 41.104 41.291 0.80014 19 11 2 0 0 0 0.013715 1 18325 18325 76.825 36.875 1 566920 6933 2078 4394 4411 8199 8199 0.005685549549070856 FPTVQHQEL 9 Unmodified _FPTVQHQEL_ 0 0 0 nc|ENSG00000117523|Q9Y520-2|PRRC2C;nc|ENSG00000117523|Q9Y520-3|PRRC2C;nc|ENSG00000117523|Q9Y520-6|PRRC2C;nc|ENSG00000117523|Q9Y520-4|PRRC2C;nc|ENSG00000117523|Q9Y520-5|PRRC2C;nc|ENSG00000117523|Q9Y520|PRRC2C;ENSG00000117523|ENST00000647382|PRRC2C nc|ENSG00000117523|Q9Y520-2|PRRC2C nc|ENSG00000117523|Q9Y520-2|PRRC2C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.7849731445312 2 549.782556 1097.55056 NaN NaN NaN NaN NaN NaN NaN 40.623 1 41.264 40.764 41.764 0.64136 0 0 0 0.0085224 1 18571 18571 86.332 32.499 1 6934 2078 4394 4411 8200 8200 0.005685549549070856 FPVEVNSQK 9 Unmodified _FPVEVNSQK_ 0 0 0 REV__ENSG00000136381|ENST00000258886|IREB2 REV__ENSG00000136381|ENST00000258886|IREB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.2784423828125 2 524.277106 1046.53966 3.2842 0.0017218 0.096469 5.0576E-05 3.3807 0.0017724 524.2771686594845 45.647 0.62499 45.915 45.745 46.37 0.26768 52 25 3 0 0 0 0.053453 2 20858 20858;20916 45.7 3.86 1 2286300 + 6935 12068 4395 4412 8201;8202 8201 0.01825152580613576 FPVEVNSQK 9 Unmodified _FPVEVNSQK_ 0 0 0 REV__ENSG00000136381|ENST00000258886|IREB2 REV__ENSG00000136381|ENST00000258886|IREB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.279052734375 2 524.277106 1046.53966 3.5257 0.0018484 -0.088837 -4.6575E-05 3.4368 0.0018019 524.2771299883627 45.071 0.69729 45.721 45.515 46.212 0.64998 69 29 3 0 0 0 0.17594 2 20779 20779;20836 24.991 3.2068 1 1716300 + 6936 12068 4395 4412 8203;8204 8203 0.01825152580613576 FPVEVNTVL 9 Unmodified _FPVEVNTVL_ 0 0 0 nc|ENSG00000100462|O14744-4|PRMT5;nc|ENSG00000100462|O14744-3|PRMT5;nc|ENSG00000100462|O14744-5|PRMT5;nc|ENSG00000100462|O14744-2|PRMT5;ENSG00000100462|ENST00000324366|PRMT5;ENST00000557758.1_1_14:23391634-23392032:-|nuORF nc|ENSG00000100462|O14744-4|PRMT5 nc|ENSG00000100462|O14744-4|PRMT5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.28594970703125 2 509.2844 1016.55425 3.1724 0.0016157 0.29077 0.00014808 3.4632 0.0017637 509.28446046530826 77.97 0.84169 78.223 77.957 78.799 0.25335 83 46 3 0 0 0 0.03963 4 35924 35877;35924;35981;36028 57.471 34.323 1 1265100 6937 1223 4396 4413 8205;8206;8207;8208 8206 0.04663224728756177 FPVEVNTVL 9 Unmodified _FPVEVNTVL_ 0 0 0 nc|ENSG00000100462|O14744-4|PRMT5;nc|ENSG00000100462|O14744-3|PRMT5;nc|ENSG00000100462|O14744-5|PRMT5;nc|ENSG00000100462|O14744-2|PRMT5;ENSG00000100462|ENST00000324366|PRMT5;ENST00000557758.1_1_14:23391634-23392032:-|nuORF nc|ENSG00000100462|O14744-4|PRMT5 nc|ENSG00000100462|O14744-4|PRMT5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.2866516113281 2 509.2844 1016.55425 3.1609 0.0016098 0.32324 0.00016462 3.4841 0.0017744 509.28459644207044 77.609 0.78291 78.272 77.96 78.743 0.66303 104 49 3 0 0 0 0.02631 5 35763 35718;35763;35809;35855;35898 67.344 38.857 1 1455500 6938 1223 4396 4413 8209;8210;8211;8212;8213 8210 0.04663224728756177 FPVEVNTVL 9 Unmodified _FPVEVNTVL_ 0 0 0 nc|ENSG00000100462|O14744-4|PRMT5;nc|ENSG00000100462|O14744-3|PRMT5;nc|ENSG00000100462|O14744-5|PRMT5;nc|ENSG00000100462|O14744-2|PRMT5;ENSG00000100462|ENST00000324366|PRMT5;ENST00000557758.1_1_14:23391634-23392032:-|nuORF nc|ENSG00000100462|O14744-4|PRMT5 nc|ENSG00000100462|O14744-4|PRMT5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 509.2844 1016.55425 2.5406 0.0012939 0.84577 0.00043074 3.3863 0.0017246 509.2855345255737 77.773 0.091415 78.334 78.309 78.4 0.56091 0.057569 0.00053932 NaN 67.344 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 883840 6939 1223 4396 4413 0.04663224728756177 FPVIWVLW 8 Unmodified _FPVIWVLW_ 0 0 0 ENST00000274979.12_2_2:242163924-242164206:+|nuORF ENST00000274979.12_2_2:242163924-242164206:+|nuORF ENST00000274979.12_2_2:242163924-242164206:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.305419921875 2 530.304939 1058.59532 NaN NaN NaN NaN NaN NaN NaN 56.762 1 56.762 56.262 57.262 0 0 0 0 0.91812 1 26132 26132 11.114 3.2043 1 6940 6670 4397 4414 8214 8214 0.06837030558881452 FPVLEGQRL 9 Unmodified _FPVLEGQRL_ 0 0 0 ENSG00000116260|ENST00000367602|QSOX1;nc|ENSG00000116260|O00391-2|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.807373046875 2 529.803291 1057.59203 2.8262 0.0014973 0.11949 6.3307E-05 2.9457 0.0015606 529.803429262879 55.931 0.20893 56.718 56.568 56.777 0.78711 24 16 2 0 0 0 0.093314 1 25566 25566 34.402 5.3201 1 801590 6941 2023 4398 4415 8215 8215 0.06553735714260256 FPVLEGQRL 9 Unmodified _FPVLEGQRL_ 0 0 0 ENSG00000116260|ENST00000367602|QSOX1;nc|ENSG00000116260|O00391-2|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.3056640625 2 529.803291 1057.59203 3.1386 0.0016628 -0.087003 -4.6094E-05 3.0516 0.0016167 529.8033050004733 56.647 0.20177 56.913 56.786 56.988 0.26543 15 11 2 0 0 0 0.136 1 25910 25910 27.629 1.3607 1 842680 6942 2023 4398 4415 8216 8216 0.06553735714260256 FPVLEGQRL 9 Unmodified _FPVLEGQRL_ 0 0 0 ENSG00000116260|ENST00000367602|QSOX1;nc|ENSG00000116260|O00391-2|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.8048706054688 2 529.803291 1057.59203 3.3039 0.0017504 -0.063324 -3.3549E-05 3.2406 0.0017169 529.8035052648984 55.866 0.28928 56.534 56.393 56.682 0.66797 19 10 2 0 0 0 0.043585 1 25573 25573 49.933 9.9833 1 738720 6943 2023 4398 4415 8217 8217 0.06553735714260256 FPVLEGQRL 9 Unmodified _FPVLEGQRL_ 0 0 0 ENSG00000116260|ENST00000367602|QSOX1;nc|ENSG00000116260|O00391-2|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 529.803291 1057.59203 2.8262 0.0014973 0.11949 6.3307E-05 2.9457 0.0015606 529.803429262879 55.931 0.20893 56.718 56.568 56.777 0.78711 -0.003369 0.00016919 NaN 49.933 24 16 2 NaN NaN NaN NaN 0 NaN NaN 0 801590 6944 2023 4398 4415 0.06553735714260256 FPVLEGQRL 9 Unmodified _FPVLEGQRL_ 0 0 0 ENSG00000116260|ENST00000367602|QSOX1;nc|ENSG00000116260|O00391-2|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 529.803291 1057.59203 3.1386 0.0016628 -0.087003 -4.6094E-05 3.0516 0.0016167 529.8033050004733 56.647 0.20177 56.913 56.786 56.988 0.26543 0.19081 -4.9614E-05 NaN 49.933 15 11 2 NaN NaN NaN NaN 0 NaN NaN 0 842680 6945 2023 4398 4415 0.06553735714260256 FPVLEGQRL 9 Unmodified _FPVLEGQRL_ 0 0 0 ENSG00000116260|ENST00000367602|QSOX1;nc|ENSG00000116260|O00391-2|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 529.803291 1057.59203 3.3039 0.0017504 -0.063324 -3.3549E-05 3.2406 0.0017169 529.8035052648984 55.866 0.28928 56.534 56.393 56.682 0.66797 -0.18744 -2.4524E-05 NaN 49.933 19 10 2 NaN NaN NaN NaN 0 NaN NaN 0 738720 6946 2023 4398 4415 0.06553735714260256 FPVLHHECM 9 Unmodified _FPVLHHECM_ 0 0 0 REV__nc|ENSG00000131979|P30793-3|GCH1 REV__nc|ENSG00000131979|P30793-3|GCH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.75244140625 2 556.75443 1111.49431 NaN NaN NaN NaN NaN NaN NaN 68.466 1 68.719 68.219 69.219 0.25227 0 0 0 0.89315 1 31365 31365 5.2307 0.47466 1 + 6947 11872 4399 4416 8218 8218 -0.05698112477784889 FPVLVEYM 8 Unmodified _FPVLVEYM_ 0 0 0 REV__nc|ENSG00000290691|A6NGW2|STRCP1 REV__nc|ENSG00000290691|A6NGW2|STRCP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.258544921875 2 499.256797 996.499041 NaN NaN NaN NaN NaN NaN NaN 71.087 1 71.749 71.249 72.249 0.66209 0 0 0 0.99035 1 32579 32579 5.7604 2.1639 1 + 6948 14624 4400 4417 8219 8219 0.000650949366331588 FPVMNYMR 8 Unmodified _FPVMNYMR_ 0 0 0 REV__ENSG00000080166|ENST00000377028|DCT REV__ENSG00000080166|ENST00000377028|DCT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.2501831054688 2 529.251523 1056.48849 NaN NaN NaN NaN NaN NaN NaN 52.098 1 52.36 51.86 52.86 0.26227 0 0 0 0.86524 1 23815 23815 14.582 2.0501 1 + 6949 10589 4401 4418 8220 8220 -0.03749210989440144 FPVNKDVTL 9 Unmodified _FPVNKDVTL_ 0 0 0 NCOA6|p.V1638Kfs*30|1|0.04|ENSG00000198646|chr20:34741344-34741345|-/TT|frameshift_variant;ENSG00000198646|ENST00000359003|NCOA6 NCOA6|p.V1638Kfs*30|1|0.04|ENSG00000198646|chr20:34741344-34741345|-/TT|frameshift_variant NCOA6|p.V1638Kfs*30|1|0.04|ENSG00000198646|chr20:34741344-34741345|-/TT|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.9871826171875 2 516.78985 1031.56515 3.5301 0.0018243 -0.076808 -3.9693E-05 3.4533 0.0017846 516.789611145322 48.263 0.47278 48.917 48.562 49.035 0.65356 23 17 2 0 0 0 0.081012 1 22038 22038 21.537 2.28 1 147910 6950 5909 4402 4419 8221 8221 0.05062627103052364 FPVPELHMF 9 Unmodified _FPVPELHMF_ 0 0 0 ZNF592|p.G1223Ffs*3|1|0.12|ENSG00000166716|chr15:84802255-84802256|-/TTTT|frameshift_variant;ENSG00000166716|ENST00000560079|ZNF592 ZNF592|p.G1223Ffs*3|1|0.12|ENSG00000166716|chr15:84802255-84802256|-/TTTT|frameshift_variant ZNF592|p.G1223Ffs*3|1|0.12|ENSG00000166716|chr15:84802255-84802256|-/TTTT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.8329467773438 2 558.78097 1115.54739 3.4474 0.0019263 1.0359 0.00057884 4.4833 0.0025052 558.7813280394355 82.436 0.24332 82.683 82.58 82.823 0.24722 21 12 2 0 0 0 0.041436 1 37982 37982 50.855 40.031 1 491950 6951 4501 4403 4420 8222 8222 -0.00576411423458012 FPVPPERAL 9 Unmodified _FPVPPERAL_ 0 0 0 nc|ENSG00000110697|O00562-2|PITPNM1;ENSG00000110697|ENST00000356404|PITPNM1;ENST00000526450.1_1_11:67261391-67262403:-|nuORF;ENST00000527370.5_1_11:67259506-67263940:-|nuORF nc|ENSG00000110697|O00562-2|PITPNM1 nc|ENSG00000110697|O00562-2|PITPNM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.2717895507812 2 513.292559 1024.57057 3.4733 0.0017828 -0.21105 -0.00010833 3.2623 0.0016745 513.292609506248 52.804 0.57453 53.067 52.651 53.226 0.26345 48 25 3 0 0 0 0.41574 1 23992 23992 13.906 3.0821 1 3440300 6952 1724 4404 4421 8223 8223 0.05926350685513171 FPVRDGKIKL 10 Unmodified _FPVRDGKIKL_ 0 0 0 nc|ENSG00000117139|Q9UGL1-2|KDM5B;ENSG00000117139|ENST00000367265|KDM5B;KDM5B|p.D895Vfs*26|1|0.35|ENSG00000117139|chr1:202741628-202741628|T/-|frameshift_variant nc|ENSG00000117139|Q9UGL1-2|KDM5B nc|ENSG00000117139|Q9UGL1-2|KDM5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 391.5777587890625 3 391.576519 1171.70773 2.4456 0.00095762 0.41725 0.00016338 2.8628 0.001121 391.57666839358296 35.091 0.75407 35.091 34.85 35.604 0 157 56 3 0 0 0 0.018875 7 16057 15828;15876;15921;15966;16011;16057;16109 72.276 31.662 1 8955400 6953 2061 4405 4422 8224;8225;8226;8227;8228;8229;8230 8229 0.1287425956509196 FPVRDGKIKL 10 Unmodified _FPVRDGKIKL_ 0 0 0 nc|ENSG00000117139|Q9UGL1-2|KDM5B;ENSG00000117139|ENST00000367265|KDM5B;KDM5B|p.D895Vfs*26|1|0.35|ENSG00000117139|chr1:202741628-202741628|T/-|frameshift_variant nc|ENSG00000117139|Q9UGL1-2|KDM5B nc|ENSG00000117139|Q9UGL1-2|KDM5B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.8634033203125 2 586.861141 1171.70773 NaN NaN NaN NaN NaN NaN NaN 35.084 1 35.084 34.584 35.584 0 0 0 0 0.31692 1 15912 15912 37.075 4.289 1 6954 2061 4405 4422 8231 8231 0.1287425956509196 FPVRDGKIKL 10 Unmodified _FPVRDGKIKL_ 0 0 0 nc|ENSG00000117139|Q9UGL1-2|KDM5B;ENSG00000117139|ENST00000367265|KDM5B;KDM5B|p.D895Vfs*26|1|0.35|ENSG00000117139|chr1:202741628-202741628|T/-|frameshift_variant nc|ENSG00000117139|Q9UGL1-2|KDM5B nc|ENSG00000117139|Q9UGL1-2|KDM5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 391.5774841308594 3 391.576519 1171.70773 2.3675 0.00092706 0.31538 0.0001235 2.6829 0.0010506 391.57662436871897 34.195 0.58771 34.984 34.687 35.275 0.78921 119 36 4 0 0 0 0.019986 5 15507 15405;15457;15507;15555;15598 55.467 27.233 1 6123800 6955 2061 4405 4422 8232;8233;8234;8235;8236 8234 0.1287425956509196 FPVRDGKIKL 10 Unmodified _FPVRDGKIKL_ 0 0 0 nc|ENSG00000117139|Q9UGL1-2|KDM5B;ENSG00000117139|ENST00000367265|KDM5B;KDM5B|p.D895Vfs*26|1|0.35|ENSG00000117139|chr1:202741628-202741628|T/-|frameshift_variant nc|ENSG00000117139|Q9UGL1-2|KDM5B nc|ENSG00000117139|Q9UGL1-2|KDM5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.5776062011719 3 391.576519 1171.70773 2.8877 0.0011308 -0.03221 -1.2613E-05 2.8555 0.0011182 391.57653284364676 34.87 0.81211 35.125 34.87 35.683 0.25524 123 47 3 0 0 0 0.01901 6 15965 15817;15866;15912;15965;16007;16064 70.496 40.064 1 7636400 6956 2061 4405 4422 8237;8238;8239;8240;8241;8242 8240 0.1287425956509196 FPVRDGKIKL 10 Unmodified _FPVRDGKIKL_ 0 0 0 nc|ENSG00000117139|Q9UGL1-2|KDM5B;ENSG00000117139|ENST00000367265|KDM5B;KDM5B|p.D895Vfs*26|1|0.35|ENSG00000117139|chr1:202741628-202741628|T/-|frameshift_variant nc|ENSG00000117139|Q9UGL1-2|KDM5B nc|ENSG00000117139|Q9UGL1-2|KDM5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.5775146484375 3 391.576519 1171.70773 2.81 0.0011003 -0.16493 -6.4584E-05 2.6451 0.0010357 391.5764161757788 34.474 0.62138 35.097 34.847 35.468 0.62294 89 36 4 0 0 0 0.0123 3 15809 15752;15809;15869 72.59 40.954 1 5468300 6957 2061 4405 4422 8243;8244;8245 8244 0.1287425956509196 FPVRDGVVL 9 Unmodified _FPVRDGVVL_ 0 0 0 nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1;ENSG00000108175|ENST00000334512|ZMIZ1;ENST00000463056.5_1_7:44799906-44807219:+|nuORF;nc|ENSG00000122515|Q8NF64-3|ZMIZ2;nc|ENSG00000122515|Q8NF64-2|ZMIZ2;ENSG00000122515|ENST00000309315|ZMIZ2;ENST00000478045.5_1_7:44799906-44801193:+|nuORF nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1 nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.29437255859375 2 501.292559 1000.57057 NaN NaN NaN NaN NaN NaN NaN 55.133 1 55.92 55.42 56.42 0.78711 0 0 0 0.55812 1 25167 25167 17.113 0 1 6958 1623 4406 4423 8246 8246 0.07030350685522535 FPVRDGVVL 9 Unmodified _FPVRDGVVL_ 0 0 0 nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1;ENSG00000108175|ENST00000334512|ZMIZ1;ENST00000463056.5_1_7:44799906-44807219:+|nuORF;nc|ENSG00000122515|Q8NF64-3|ZMIZ2;nc|ENSG00000122515|Q8NF64-2|ZMIZ2;ENSG00000122515|ENST00000309315|ZMIZ2;ENST00000478045.5_1_7:44799906-44801193:+|nuORF nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1 nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.2943420410156 2 501.292559 1000.57057 3.0932 0.0015506 -0.6201 -0.00031085 2.4731 0.0012398 501.2921924617483 55.704 0.37609 55.969 55.925 56.301 0.26543 28 17 2 0 0 0 0.15661 2 25526 25526;25612 26.268 3.1197 1 721900 6959 1623 4406 4423 8247;8248 8247 0.07030350685522535 FPVRDGVVL 9 Unmodified _FPVRDGVVL_ 0 0 0 nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1;ENSG00000108175|ENST00000334512|ZMIZ1;ENST00000463056.5_1_7:44799906-44807219:+|nuORF;nc|ENSG00000122515|Q8NF64-3|ZMIZ2;nc|ENSG00000122515|Q8NF64-2|ZMIZ2;ENSG00000122515|ENST00000309315|ZMIZ2;ENST00000478045.5_1_7:44799906-44801193:+|nuORF nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1 nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.2941589355469 2 501.292559 1000.57057 3.2103 0.0016093 -0.26622 -0.00013346 2.9441 0.0014759 501.2926396605767 55.229 0.58942 55.897 55.483 56.073 0.66798 44 23 3 0 0 0 0.11155 2 25165 25165;25218 29.841 6.6922 1 508030 6960 1623 4406 4423 8249;8250 8249 0.07030350685522535 FPVRDGVVL 9 Unmodified _FPVRDGVVL_ 0 0 0 nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1;ENSG00000108175|ENST00000334512|ZMIZ1;ENST00000463056.5_1_7:44799906-44807219:+|nuORF;nc|ENSG00000122515|Q8NF64-3|ZMIZ2;nc|ENSG00000122515|Q8NF64-2|ZMIZ2;ENSG00000122515|ENST00000309315|ZMIZ2;ENST00000478045.5_1_7:44799906-44801193:+|nuORF nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1 nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 501.292559 1000.57057 2.7061 0.0013565 0.59145 0.00029649 3.2975 0.001653 501.29289432478544 55.252 0.12057 56.039 55.981 56.101 0.78711 0.070476 0.00081295 NaN 29.841 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 231670 6961 1623 4406 4423 0.07030350685522535 FPVSEAQVHL 10 Unmodified _FPVSEAQVHL_ 0 0 0 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.8005981445312 2 563.798206 1125.58186 3.5077 0.0019776 1.5556 0.00087707 5.0633 0.0028547 563.7987814632278 56.167 0.53903 56.432 56.279 56.818 0.26543 42 28 2 0 0 0 1.0535E-05 4 25714 25655;25714;25772;25830 121.35 77.488 1 1539500 6962 1057 4407 4424 8251;8252;8253;8254 8252 0.024091279889944417 FPVSEAQVHL 10 Unmodified _FPVSEAQVHL_ 0 0 0 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.8001708984375 2 563.798206 1125.58186 3.5853 0.0020214 1.1625 0.00065542 4.7478 0.0026768 563.7991256604688 55.438 0.66901 56.106 55.922 56.591 0.66798 54 26 3 0 0 0 0.0056243 3 25338 25338;25392;25456 93.938 57.811 1 1186100 6963 1057 4407 4424 8255;8256;8257 8255 0.024091279889944417 FPVSEARVL 9 Unmodified _FPVSEARVL_ 0 0 0 nc|ENSG00000259207|P05106-2|ITGB3;nc|ENSG00000259207|P05106-3|ITGB3;ENSG00000259207|ENST00000559488|ITGB3 nc|ENSG00000259207|P05106-2|ITGB3 nc|ENSG00000259207|P05106-2|ITGB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 509.2909851074219 2 509.290017 1016.56548 3.0458 0.0015512 -0.33234 -0.00016926 2.7134 0.0013819 509.2898411570051 50.514 0.47796 51.332 51.102 51.58 0.81802 34 23 2 0 0 0 0.063575 3 22957 22957;23035;23085 41.84 3.6082 1 539370 6964 6302 4408 4425 8258;8259;8260 8258 0.05786046822890967 FPVSEARVL 9 Unmodified _FPVSEARVL_ 0 0 0 nc|ENSG00000259207|P05106-2|ITGB3;nc|ENSG00000259207|P05106-3|ITGB3;ENSG00000259207|ENST00000559488|ITGB3 nc|ENSG00000259207|P05106-2|ITGB3 nc|ENSG00000259207|P05106-2|ITGB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.291748046875 2 509.290017 1016.56548 3.2306 0.0016453 0.15076 7.678E-05 3.3813 0.0017221 509.2899503107392 50.372 0.60815 51.03 50.783 51.391 0.65735 52 28 3 0 0 0 0.15661 1 23033 23033 26.268 8.1218 1 468660 6965 6302 4408 4425 8261 8261 0.05786046822890967 FPVSEARVL 9 Unmodified _FPVSEARVL_ 0 0 0 nc|ENSG00000259207|P05106-2|ITGB3;nc|ENSG00000259207|P05106-3|ITGB3;ENSG00000259207|ENST00000559488|ITGB3 nc|ENSG00000259207|P05106-2|ITGB3 nc|ENSG00000259207|P05106-2|ITGB3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 509.290017 1016.56548 3.315 0.0016883 -0.2618 -0.00013333 3.0532 0.001555 509.2898692332891 51.245 0.64455 51.245 51.048 51.692 0 -0.0079844 -2.3685E-06 NaN 41.84 53 34 2 NaN NaN NaN NaN 0 NaN NaN 0 494330 6966 6302 4408 4425 0.05786046822890967 FPVSEARVL 9 Unmodified _FPVSEARVL_ 0 0 0 nc|ENSG00000259207|P05106-2|ITGB3;nc|ENSG00000259207|P05106-3|ITGB3;ENSG00000259207|ENST00000559488|ITGB3 nc|ENSG00000259207|P05106-2|ITGB3 nc|ENSG00000259207|P05106-2|ITGB3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 509.290017 1016.56548 3.1783 0.0016187 -0.97179 -0.00049492 2.2065 0.0011237 509.28976398393235 51.146 0.424 51.407 51.216 51.64 0.26146 0.15351 -0.00072555 NaN 41.84 26 18 2 NaN NaN NaN NaN 0 NaN NaN 0 599870 6967 6302 4408 4425 0.05786046822890967 FPVSIPAVL 9 Unmodified _FPVSIPAVL_ 0 0 0 ENSG00000151353|ENST00000281017|TMEM18 ENSG00000151353|ENST00000281017|TMEM18 ENSG00000151353|ENST00000281017|TMEM18 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.983154296875 2 471.786579 941.558604 NaN NaN NaN NaN NaN NaN NaN 94.063 1 94.322 93.822 94.822 0.25975 0 0 0 0.11902 1 43228 43228 38.151 18.894 1 6968 3703 4409 4426 8262 8262 0.0854873394232527 FPVSIPAVL 9 Unmodified _FPVSIPAVL_ 0 0 0 ENSG00000151353|ENST00000281017|TMEM18 ENSG00000151353|ENST00000281017|TMEM18 ENSG00000151353|ENST00000281017|TMEM18 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.78851318359375 2 471.786579 941.558604 NaN NaN NaN NaN NaN NaN NaN 94.184 1 94.444 93.944 94.944 0.25975 0 0 0 0.07219 1 43282 43282 46.921 10.877 1 6969 3703 4409 4426 8263 8263 0.0854873394232527 FPVSIPAVL 9 Unmodified _FPVSIPAVL_ 0 0 0 ENSG00000151353|ENST00000281017|TMEM18 ENSG00000151353|ENST00000281017|TMEM18 ENSG00000151353|ENST00000281017|TMEM18 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.78802490234375 2 471.786579 941.558604 NaN NaN NaN NaN NaN NaN NaN 93.576 1 94.207 93.707 94.707 0.63115 0 0 0 0.07219 1 43045 43045 46.921 21.522 1 6970 3703 4409 4426 8264 8264 0.0854873394232527 FPVSYNDKF 9 Unmodified _FPVSYNDKF_ 0 0 0 ENST00000467022.1_1_3:113442441-113464796:-|nuORF;nc|ENSG00000121579|Q9GZZ1-2|NAA50;ENSG00000121579|ENST00000240922|NAA50 ENST00000467022.1_1_3:113442441-113464796:-|nuORF ENST00000467022.1_1_3:113442441-113464796:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.77294921875 2 558.771657 1115.52876 NaN NaN NaN NaN NaN NaN NaN 50.878 1 51.538 51.038 52.038 0.65956 0 0 0 0.34849 1 23265 23265 24.991 10.153 1 6971 2234 4410 4427 8265 8265 -0.024382497936812797 FPVTDAVNKG 10 Unmodified _FPVTDAVNKG_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.2791137695312 2 524.277106 1046.53966 3.0537 0.001601 -0.45282 -0.0002374 2.6009 0.0013636 524.2769215186238 45.928 0.53167 45.928 45.659 46.19 0 42 26 3 0 0 0 0.25519 1 20949 20949 32.786 1.5173 1 1387700 6972 5155 4411 4428 8266 8266 0.01825152580613576 FPVTNNGSVL 10 Unmodified _FPVTNNGSVL_ 0 0 0 REV__ENSG00000184500|ENST00000394236|PROS1 REV__ENSG00000184500|ENST00000394236|PROS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.279296875 2 524.277106 1046.53966 3.2842 0.0017218 0.096469 5.0576E-05 3.3807 0.0017724 524.2771686594845 45.647 0.62499 45.915 45.745 46.37 0.26768 52 25 3 0 0 0 0.24154 2 20964 20964;21041 34.402 1.8644 1 2286300 + 6973 13976 4412 4429 8267;8268 8267 0.018251525806363134 FPVTNNGSVL 10 Unmodified _FPVTNNGSVL_ 0 0 0 REV__ENSG00000184500|ENST00000394236|PROS1 REV__ENSG00000184500|ENST00000394236|PROS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.279052734375 2 524.277106 1046.53966 3.5257 0.0018484 -0.088837 -4.6575E-05 3.4368 0.0018019 524.2771299883627 45.071 0.69729 45.721 45.515 46.212 0.64998 69 29 3 0 0 0 0.1787 1 20666 20666 41.84 1.8899 1 1716300 + 6974 13976 4412 4429 8269 8269 0.018251525806363134 FPVYAHCKL 9 Unmodified _FPVYAHCKL_ 0 0 0 nc|ENSG00000115840|O75746-2|SLC25A12;ENSG00000115840|ENST00000422440|SLC25A12 nc|ENSG00000115840|O75746-2|SLC25A12 nc|ENSG00000115840|O75746-2|SLC25A12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.2818603515625 2 539.281137 1076.54772 NaN NaN NaN NaN NaN NaN NaN 28.102 1 28.364 27.864 28.864 0.26245 0 0 0 0.26328 1 12780 12780 28.487 2.1456 1 6975 1995 4413 4430 8270 8270 0.01251008296389955 FPWEKPTTL 9 Unmodified _FPWEKPTTL_ 0 0 0 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.7993774414062 2 559.797675 1117.5808 3.5849 0.0020068 -0.5948 -0.00033297 2.9901 0.0016739 559.7974330079873 60.807 0.38267 61.063 60.892 61.274 0.25578 37 18 3 0 0 0 0.012326 2 27808 27808;27874 78.728 38.771 1 1144200 6976 5936 4414 4431 8271;8272 8271 0.02670913620090687 FPWEKPTTL 9 Unmodified _FPWEKPTTL_ 0 0 0 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.7998046875 2 559.797675 1117.5808 3.5553 0.0019902 -0.67093 -0.00037558 2.8843 0.0016146 559.7973299890945 60.102 0.34216 60.767 60.748 61.09 0.66503 35 21 2 0 0 0 0.016529 2 27553 27553;27605 72.968 33.018 1 2141900 6977 5936 4414 4431 8273;8274 8273 0.02670913620090687 FPWFAWSL 8 Unmodified _FPWFAWSL_ 0 0 0 REV__ENST00000551111.1_1_12:50024390-50026982:+|nuORF REV__ENST00000551111.1_1_12:50024390-50026982:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.2640991210938 2 527.263271 1052.51199 3.1547 0.0016634 -0.71135 -0.00037507 2.4434 0.0012883 527.2628392147357 77.795 0.32698 78.048 77.901 78.228 0.25335 54 18 4 0 0 0 0.42655 2 35791 35791;35834 26.341 2.3207 1 5456700 + 6978 17284 4415 4432 8275;8276 8275 -0.012167058889644977 FPWFAWSL 8 Unmodified _FPWFAWSL_ 0 0 0 REV__ENST00000551111.1_1_12:50024390-50026982:+|nuORF REV__ENST00000551111.1_1_12:50024390-50026982:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.2644653320312 2 527.263271 1052.51199 3.0841 0.0016261 -0.41322 -0.00021787 2.6709 0.0014083 527.2630323190928 77.35 0.33635 78.013 77.842 78.179 0.66302 64 24 3 0 0 0 0.31786 2 35655 35609;35655 34.187 3.5508 1 5344700 + 6979 17284 4415 4432 8277;8278 8278 -0.012167058889644977 FPWHSLLCI 9 Unmodified _FPWHSLLCI_ 0 0 0 REV__DENND4A|p.L560Ffs*9|1|0.16|ENSG00000174485|chr15:65717887-65717905|AAATGCCTCTTGGATTTCC/-|frameshift_variant;REV__DENND4C|p.Y474Ffs*30|1|0.33|ENSG00000137145|chr9:19305461-19305461|A/-|frameshift_variant REV__DENND4A|p.L560Ffs*9|1|0.16|ENSG00000174485|chr15:65717887-65717905|AAATGCCTCTTGGATTTCC/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.7554321289062 2 558.288963 1114.56337 3.4812 0.0019435 2.3176 0.0012939 5.7988 0.0032374 558.2901545323076 47.134 0.24657 47.786 47.74 47.986 0.65219 15 11 2 0 0 0 0.10063 1 21601 21601 11.64 0 1 421920 + 6980 10124;10125 4416 4433 8279 8279 0.010672948134470062 FPWILNVL 8 Unmodified _FPWILNVL_ 0 0 0 ENSG00000139687|ENST00000267163|RB1;RB1|p.K640Ifs*22|1|0.06|ENSG00000139687|chr13:48456307-48456308|-/TACATCTTGTCTATTTAATTGGTATTAT|frameshift_variant ENSG00000139687|ENST00000267163|RB1 ENSG00000139687|ENST00000267163|RB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.2948913574219 2 501.294571 1000.57459 NaN NaN NaN NaN NaN NaN NaN 56.036 1 56.302 55.802 56.802 0.26543 0 0 0 0.37748 1 25629 25629 24.674 3.8027 1 6981 3160 4417 4434 8280 8280 0.07432440179240984 FPWLRMWRRER 11 Unmodified _FPWLRMWRRER_ 0 0 0 ENSG00000187186|ENST00000421828|unknown ENSG00000187186|ENST00000421828|unknown ENSG00000187186|ENST00000421828|unknown MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 816.9381103515625 2 816.938254 1631.86195 NaN NaN NaN NaN NaN NaN NaN 71.965 1 72.223 71.723 72.723 0.25786 0 0 0 1.0082 1 33024 33024 0 0 1 6982 5608 4418 4435 8281 8281 0.0712976577876816 FPWWLWLLH 9 Unmodified _FPWWLWLLH_ 0 0 0 ENST00000294072.8_2_11:61117466-61117760:-|nuORF ENST00000294072.8_2_11:61117466-61117760:-|nuORF ENST00000294072.8_2_11:61117466-61117760:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.8991394042969 3 433.234205 1296.68079 2.7158 0.0011766 -1.1238 -0.00048687 1.592 0.00068971 433.23353649306614 50.392 0.22495 51.214 51.145 51.37 0.82285 11 9 2 0 0 0 0.11236 1 22980 22980 0.26902 0 1 569290 6983 6745 4419 4436 8282 8282 0.0443119574456432 FPYFWICF 8 Unmodified _FPYFWICF_ 0 0 0 THE1B-int_dup2461|chr9:39963661-39965204:+|1.814289323776622|0.4033997191753589|2.17|537.0|87|3|anti-sense THE1B-int_dup2461|chr9:39963661-39965204:+|1.814289323776622|0.4033997191753589|2.17|537.0|87|3|anti-sense THE1B-int_dup2461|chr9:39963661-39965204:+|1.814289323776622|0.4033997191753589|2.17|537.0|87|3|anti-sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.7604370117188 2 561.759507 1121.50446 3.6192 0.0020331 -0.98952 -0.00055587 2.6297 0.0014773 561.7591288573205 39.923 0.43459 40.19 39.794 40.228 0.26696 18 14 2 0 0 0 0.55878 1 18049 18049 17.087 3.1805 1 471260 6984 18266 4420 4437 8283 8283 -0.05143181480889325 FPYPTQAEL 9 Unmodified _FPYPTQAEL_ 0 0 0 ENSG00000178764|ENST00000314393|ZHX2 ENSG00000178764|ENST00000314393|ZHX2 ENSG00000178764|ENST00000314393|ZHX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.268798828125 2 533.266207 1064.51786 3.2924 0.0017557 0.75034 0.00040013 4.0428 0.0021559 533.2665290006926 67.426 0.62289 67.676 67.443 68.066 0.2501 56 35 2 0 0 0 0.079031 3 30898 30845;30898;30949 37.974 13.3 1 670490 6985 5180 4421 4438 8284;8285;8286 8285 -0.01181652167952052 FPYPTQAEL 9 Unmodified _FPYPTQAEL_ 0 0 0 ENSG00000178764|ENST00000314393|ZHX2 ENSG00000178764|ENST00000314393|ZHX2 ENSG00000178764|ENST00000314393|ZHX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.2681274414062 2 533.266207 1064.51786 3.257 0.0017368 0.23382 0.00012469 3.4908 0.0018615 533.266666906487 66.869 0.60428 67.526 67.248 67.852 0.65672 70 35 3 0 0 0 0.032303 3 30676 30626;30676;30727 54.774 16.8 1 817600 6986 5180 4421 4438 8287;8288;8289 8288 -0.01181652167952052 FPYPTQAEL 9 Unmodified _FPYPTQAEL_ 0 0 0 ENSG00000178764|ENST00000314393|ZHX2 ENSG00000178764|ENST00000314393|ZHX2 ENSG00000178764|ENST00000314393|ZHX2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 533.266207 1064.51786 2.4566 0.00131 0.16108 8.59E-05 2.6177 0.0013959 533.2659764482898 66.979 0.047356 67.684 67.653 67.701 0.7047 0.05511 -0.00027728 NaN 54.774 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 1402900 6987 5180 4421 4438 -0.01181652167952052 FPYSYEVAL 9 Unmodified _FPYSYEVAL_ 0 0 0 ENSG00000075420|ENST00000415807|FNDC3B;nc|ENSG00000075420|Q53EP0-2|FNDC3B;ENST00000469491.5_1_3:171830269-172055226:+|nuORF ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.7697143554688 2 544.768583 1087.52261 3.3229 0.0018102 0.34811 0.00018964 3.671 0.0019998 544.7686827671054 78.437 0.85749 78.69 78.241 79.099 0.25335 94 51 2 0 0 0 0.015487 6 36095 36002;36054;36095;36143;36204;36253 74.396 51.248 1 823960 6988 829 4422 4439 8290;8291;8292;8293;8294;8295 8292 -0.01764768025191188 FPYSYEVAL 9 Unmodified _FPYSYEVAL_ 0 0 0 ENSG00000075420|ENST00000415807|FNDC3B;nc|ENSG00000075420|Q53EP0-2|FNDC3B;ENST00000469491.5_1_3:171830269-172055226:+|nuORF ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.7704467773438 2 544.768583 1087.52261 3.3784 0.0018404 0.24397 0.00013291 3.6224 0.0019734 544.7686330594171 77.914 0.85629 78.576 78.259 79.115 0.66197 92 51 2 0 0 0 0.018173 3 35949 35821;35869;35949 70.716 53.773 1 886470 6989 829 4422 4439 8296;8297;8298 8298 -0.01764768025191188 FPYVELFGNRC 11 Unmodified _FPYVELFGNRC_ 0 0 0 REV__nc|ENSG00000163565|Q16666-8|IFI16 REV__nc|ENSG00000163565|Q16666-8|IFI16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 448.8863220214844 3 448.885024 1343.63324 3.0312 0.0013607 -0.25236 -0.00011328 2.7788 0.0012474 448.88493205595427 51.3 0.30449 51.3 51.113 51.418 0 37 15 3 0 0 0 0.77056 1 23447 23447 6.6235 3.0308 1 651440 + 6990 13006 4423 4440 8299 8299 -0.02482871308598078 FPYVELFGNRC 11 Unmodified _FPYVELFGNRC_ 0 0 0 REV__nc|ENSG00000163565|Q16666-8|IFI16 REV__nc|ENSG00000163565|Q16666-8|IFI16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 448.88623046875 3 448.885024 1343.63324 2.7429 0.0012312 -0.27341 -0.00012273 2.4695 0.0011085 448.8850267721753 50.358 0.30202 51.181 51.044 51.346 0.82285 29 14 3 0 0 0 0.67822 1 22931 22931 13.519 5.0744 1 661480 + 6991 13006 4423 4440 8300 8300 -0.02482871308598078 FPYVRDFVM 9 Unmodified _FPYVRDFVM_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-3|COL6A3;nc|ENSG00000163359|P12111-5|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.7955322265625 2 587.291702 1172.56885 2.9086 0.0017082 -0.15851 -9.3092E-05 2.7501 0.0016151 587.2918688434578 73.95 0.28574 73.95 73.819 74.105 0 61 31 3 0 0 0 0.053359 2 36134 36078;36134 45.74 30.902 1 3877000 6992 4204 4424 4441 8301;8302 8302 -0.010530263947657659 FPYVRDFVM 9 Unmodified _FPYVRDFVM_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-3|COL6A3;nc|ENSG00000163359|P12111-5|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.293701171875 2 587.291702 1172.56885 2.8279 0.0016608 0.28585 0.00016788 3.1138 0.0018287 587.2920013560183 72.83 0.26038 73.529 73.432 73.693 0.69881 54 23 3 0 0 0 0.030603 2 35127 35075;35127 55.503 38.56 1 2512000 6993 4204 4424 4441 8303;8304 8304 -0.010530263947657659 FPYVRDFVM 9 Unmodified _FPYVRDFVM_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-3|COL6A3;nc|ENSG00000163359|P12111-5|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.2928466796875 2 587.291702 1172.56885 3.2146 0.0018879 -0.32 -0.00018794 2.8946 0.0017 587.2915456850625 73.616 0.33784 73.875 73.699 74.037 0.25876 59 32 2 0 0 0 0.069974 4 33827 33752;33827;33879;33882 40.239 25.401 1 1368500 6994 4204 4424 4441 8305;8306;8307;8308 8306 -0.010530263947657659 FPYVRDFVM 9 Unmodified _FPYVRDFVM_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-3|COL6A3;nc|ENSG00000163359|P12111-5|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.2938842773438 2 587.291702 1172.56885 2.9663 0.0017421 -0.41496 -0.0002437 2.5514 0.0014984 587.2916347909744 73.062 0.28732 73.726 73.595 73.883 0.66398 43 27 2 0 0 0 0.097139 2 33557 33557;33608 33.445 22.621 1 1703100 6995 4204 4424 4441 8309;8310 8309 -0.010530263947657659 FQAAVLPRPLV 11 Unmodified _FQAAVLPRPLV_ 0 0 0 REV__ENST00000427140.5_1_20:57194011-57194113:+|nuORF REV__ENST00000427140.5_1_20:57194011-57194113:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.2497863769531 3 404.248403 1209.72338 2.9347 0.0011863 0.9044 0.0003656 3.8391 0.0015519 404.2486472297067 57.06 0.4804 57.324 57.11 57.591 0.26444 89 28 4 0 0 0 0.81399 1 26064 26064 6.2344 6.2344 1 20340000 + 6996 16224 4425 4442 8311 8311 0.12690546082103538 FQAAVLPRPLV 11 Unmodified _FQAAVLPRPLV_ 0 0 0 REV__ENST00000427140.5_1_20:57194011-57194113:+|nuORF REV__ENST00000427140.5_1_20:57194011-57194113:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 404.248403 1209.72338 3.0036 0.0012142 1.1012 0.00044516 4.1048 0.0016594 404.2487638244932 56.668 0.60976 57.336 57.064 57.674 0.66829 0.0061452 0.00010748 NaN 6.2344 105 33 4 NaN NaN NaN NaN 0 NaN NaN 0 11261000 + 6997 16224 4425 4442 0.12690546082103538 FQGNYISYLD 10 Unmodified _FQGNYISYLD_ 0 0 0 ENSG00000185158|ENST00000543378|LRRC37B;nc|ENSG00000185158|Q96QE4-2|LRRC37B;nc|ENSG00000185158|Q96QE4|LRRC37B;ENST00000581786.5_1_17:30349314-30355958:+|nuORF;ENST00000583204.5_1_17:30348129-30360999:+|nuORF ENSG00000185158|ENST00000543378|LRRC37B ENSG00000185158|ENST00000543378|LRRC37B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 610.284423828125 2 610.285128 1218.5557 NaN NaN NaN NaN NaN NaN NaN 87.454 1 87.705 87.205 88.205 0.25064 0 0 0 1.0001 1 40250 40250 1.6526 0 1 6998 5493 4426 4443 8312 8312 -0.044831859731630175 FQKEKEEL 8 Unmodified _FQKEKEEL_ 0 0 0 ENST00000591248.5_1_19:10506000-10514173:-|nuORF;ENSG00000105401|ENST00000222005|CDC37 ENST00000591248.5_1_19:10506000-10514173:-|nuORF ENST00000591248.5_1_19:10506000-10514173:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 525.77880859375 2 525.776939 1049.53933 3.1774 0.0016706 -1.0866 -0.00057129 2.0908 0.0010993 525.7760546467221 14.102 0.12994 14.102 14.021 14.151 0 11 7 2 0 0 0 0.34715 1 6209 6209 31.268 3.6395 1 457050 6999 1494 4427 4444 8313 8313 0.016537328607682866 FQKEKEEL 8 Unmodified _FQKEKEEL_ 0 0 0 ENST00000591248.5_1_19:10506000-10514173:-|nuORF;ENSG00000105401|ENST00000222005|CDC37 ENST00000591248.5_1_19:10506000-10514173:-|nuORF ENST00000591248.5_1_19:10506000-10514173:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.7782592773438 2 525.776939 1049.53933 3.4827 0.0018311 -0.86847 -0.00045662 2.6143 0.0013745 525.7764533846535 13.07 0.17933 13.713 13.58 13.759 0.64272 17 7 3 0 0 0 0.0007389 2 5848 5848;5884 118.07 29.115 1 1768500 7000 1494 4427 4444 8314;8315 8314 0.016537328607682866 FQKEQALW 8 Unmodified _FQKEQALW_ 0 0 0 ENSG00000138587|ENST00000260453|MNS1 ENSG00000138587|ENST00000260453|MNS1 ENSG00000138587|ENST00000260453|MNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.8543395996094 3 350.51867 1048.53418 2.1275 0.00074572 0.88314 0.00030956 3.0106 0.0010553 350.8535626753706 13.59 0.34986 13.898 13.7 14.05 0.30727 71 30 3 0 0 0 0.60592 1 6148 6148 10.074 1.9184 1 1295200 7001 3097 4428 4445 8316 8316 0.01185473788791569 FQKKYKWLLRI 11 Unmodified _FQKKYKWLLRI_ 0 0 0 REV__ENST00000449237.4_1_Y:2803717-2829201:+|nuORF REV__ENST00000449237.4_1_Y:2803717-2829201:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 761.9683837890625 2 761.966471 1521.91839 NaN NaN NaN NaN NaN NaN NaN 83.534 1 83.579 83.079 84.079 0.045006 0 0 0 1.008 1 41475 41475 0.30703 0 1 + 7002 16401 4429 4446 8317 8317 0.17830716887124254 FQKTKNLL 8 Unmodified _FQKTKNLL_ 0 0 0 nc|ENSG00000104853|O96005-3|CLPTM1;nc|ENSG00000104853|O96005-4|CLPTM1;ENSG00000104853|ENST00000337392|CLPTM1;ENST00000587537.5_1_19:45480680-45489871:+|nuORF nc|ENSG00000104853|O96005-3|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.3017883300781 2 496.300384 990.586216 3.1915 0.0015839 0.3751 0.00018616 3.5666 0.0017701 496.3005346182578 22.835 0.18755 23.476 23.385 23.572 0.64051 36 26 2 0 0 0 0.0089887 1 10390 10390 114.65 29.292 1 1797200 7003 1453 4430 4447 8318 8318 0.09054637202575577 FQKVKEWSL 9 Unmodified _FQKVKEWSL_ 0 0 0 nc|ENSG00000145495|O60337-6|MARCHF6;nc|ENSG00000145495|O60337-5|MARCHF6;ENSG00000145495|ENST00000274140|MARCHF6;ENST00000514312.1_1_5:10415712-10417549:+|nuORF;ENST00000505253.1_1_5:10413496-10422048:+|nuORF nc|ENSG00000145495|O60337-6|MARCHF6 nc|ENSG00000145495|O60337-6|MARCHF6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.8272705078125 2 582.824224 1163.63389 3.3224 0.0019364 1.4076 0.00082038 4.73 0.0027568 582.8249106203245 43.616 0.22424 43.885 43.759 43.983 0.2694 12 6 2 0 0 0 0.074077 1 19910 19910 41.956 15.687 1 373870 7004 3471 4431 4448 8319 8319 0.05862291402763731 FQLSNTEVI 9 Unmodified _FQLSNTEVI_ 0 0 0 nc|ENSG00000140538|Q16288-5|NTRK3;nc|ENSG00000140538|Q16288-3|NTRK3;nc|ENSG00000140538|Q16288-4|NTRK3;ENSG00000140538|ENST00000629765|NTRK3 nc|ENSG00000140538|Q16288-5|NTRK3 nc|ENSG00000140538|Q16288-5|NTRK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 525.7771606445312 2 525.776939 1049.53933 3.0306 0.0015934 -0.21729 -0.00011424 2.8133 0.0014792 525.7764939579586 13.485 0.13457 13.728 13.647 13.781 0.24346 18 15 2 0 0 0 0.81759 1 5909 5909 6.7232 0 1 341210 7005 3206 4432 4449 8320 8320 0.016537328607682866 FQRLDSDI 8 Unmodified _FQRLDSDI_ 0 0 0 ENSG00000172840|ENST00000311765|PDP2 ENSG00000172840|ENST00000311765|PDP2 ENSG00000172840|ENST00000311765|PDP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.2547302246094 2 497.253631 992.49271 3.1882 0.0015854 0.36143 0.00017972 3.5496 0.0017651 497.2539071068226 38.719 0.36842 39.357 39.163 39.532 0.63778 23 13 2 0 0 0 0.16336 1 17696 17696 46.921 0 1 934030 7006 4898 4433 4450 8321 8321 -0.003837069705241447 FQRSRFDF 8 Unmodified _FQRSRFDF_ 0 0 0 ENST00000496390.5_1_X:153904852-153905050:-|nuORF ENST00000496390.5_1_X:153904852-153905050:-|nuORF ENST00000496390.5_1_X:153904852-153905050:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.7760620117188 2 551.775065 1101.53558 NaN NaN NaN NaN NaN NaN NaN 69.501 1 70.162 69.662 70.662 0.66071 0 0 0 0.95658 1 31862 31862 8.5933 0.68312 1 7007 8443 4434 4451 8322 8322 -0.011128921224326405 FQRYRRYILYK 11 Unmodified _FQRYRRYILYK_ 0 0 0 REV__ENSG00000100365|ENST00000248899|NCF4 REV__ENSG00000100365|ENST00000248899|NCF4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 803.533203125 2 803.454259 1604.89397 NaN NaN NaN NaN NaN NaN NaN 83.149 1 83.194 82.694 83.694 0.045006 0 0 0 1.008 1 41194 41194 0.30703 0.30703 1 + 7008 10825 4435 4452 8323 8323 0.11571456733622654 FQVKLLYRMR 10 Unmodified _FQVKLLYRMR_ 0 0 0 REV__ENSG00000129484|ENST00000429687|PARP2 REV__ENSG00000129484|ENST00000429687|PARP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.4020385742188 2 677.394825 1352.7751 4.5522 0.0030836 0.64727 0.00043846 5.1995 0.0035221 677.8963105564338 96.034 0.56177 96.301 96.097 96.659 0.26751 64 29 3 0 0 0 0.12676 1 44038 44038 0.40072 0.050084 1 1311400 + 7009 11788 4436 4453 8324 8324 0.112819665043844 FQVKLLYRMR 10 Unmodified _FQVKLLYRMR_ 0 0 0 REV__ENSG00000129484|ENST00000429687|PARP2 REV__ENSG00000129484|ENST00000429687|PARP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.933837890625 3 451.932309 1352.7751 3.2464 0.0014672 0.95289 0.00043064 4.1993 0.0018978 451.93265349334877 94.937 1.5993 95.555 94.942 96.541 0.61736 220 88 5 0 0 0 0.94374 1 43892 43892 0.13989 0.04505 1 3238400 + 7010 11788 4436 4453 8325 8325 0.112819665043844 FQVPGVRI 8 Unmodified _FQVPGVRI_ 0 0 0 REV__ENST00000548811.5_1_12:51818730-51834771:+|nuORF REV__ENST00000548811.5_1_12:51818730-51834771:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 458.2763366699219 2 458.27417 914.533787 NaN NaN NaN NaN NaN NaN NaN 55.865 1 56.131 55.631 56.631 0.26543 0 0 0 0.99035 1 25551 25551 5.2307 0 1 + 7011 17249 4437 4454 8326 8326 0.07310098859625214 FQYPERPI 8 Unmodified _FQYPERPI_ 0 0 0 ENSG00000188763|ENST00000344575|FZD9 ENSG00000188763|ENST00000344575|FZD9 ENSG00000188763|ENST00000344575|FZD9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.8533630371094 3 350.51867 1048.53418 2.1275 0.00074572 0.88314 0.00030956 3.0106 0.0010553 350.8535626753706 13.59 0.34986 13.898 13.7 14.05 0.30727 71 30 3 0 0 0 0.64692 1 6079 6079 7.2892 3.0997 1 1295200 7012 5681 4438 4455 8327 8327 0.01185473788791569 FRALVLLDLL 10 Unmodified _FRALVLLDLL_ 0 0 0 ENST00000461118.5_1_1:40778123-40778256:-|nuORF;ENST00000372748.7_1_1:40776930-40778265:-|nuORF ENST00000461118.5_1_1:40778123-40778256:-|nuORF ENST00000461118.5_1_1:40778123-40778256:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.8749389648438 2 586.873717 1171.73288 NaN NaN NaN NaN NaN NaN NaN 79.655 1 79.906 79.406 80.406 0.25127 0 0 0 0.99733 1 36678 36678 3.9444 0 1 7013 7344 4439 4456 8328 8328 0.1538831436766941 FRDTYRLWRLW 11 Unmodified _FRDTYRLWRLW_ 0 0 0 ENSG00000175264|ENST00000308064|CHST1 ENSG00000175264|ENST00000308064|CHST1 ENSG00000175264|ENST00000308064|CHST1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 806.4309692382812 2 806.430784 1610.84702 NaN NaN NaN NaN NaN NaN NaN 61.569 1 62.3 61.8 62.8 0.73077 0 0 0 1.008 1 28574 28574 0.30703 0 1 7014 5024 4440 4457 8329 8329 0.06602597182450154 FRDVGYFWSV 10 Unmodified _FRDVGYFWSV_ 0 0 0 REV__nc|ENSG00000103546|P23975-3|SLC6A2 REV__nc|ENSG00000103546|P23975-3|SLC6A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 638.31396484375 2 638.31148 1274.60841 2.9965 0.0019127 -0.024784 -1.582E-05 2.9717 0.0018969 638.3116995642177 76.753 0.29216 77.376 77.216 77.509 0.62397 48 19 3 0 0 0 0.58053 1 37258 37258 18.146 1.0335 1 2608000 + 7015 10972 4441 4458 8330 8330 -0.01791183119667039 FRDYDHSKF 9 Unmodified _FRDYDHSKF_ 0 0 0 ENST00000478601.1_1_3:122478069-122496706:-|nuORF;nc|ENSG00000169087|Q96EW2-2|HSPBAP1;ENST00000467643.5_1_3:122474254-122512599:-|nuORF;nc|ENSG00000169087|Q96EW2-3|HSPBAP1;ENST00000465044.5_1_3:122473819-122512560:-|nuORF;ENSG00000169087|ENST00000306103|HSPBAP1 ENST00000478601.1_1_3:122478069-122496706:-|nuORF ENST00000478601.1_1_3:122478069-122496706:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.5378112792969 3 405.524484 1213.55162 NaN NaN NaN NaN NaN NaN NaN 38.478 1 39.275 38.775 39.775 0.79762 0 0 0 0.88072 1 17429 17429 6.6304 0.43853 1 7016 4670 4442 4459 8331 8331 -0.046612306762199296 FREARRDFWRR 11 Unmodified _FREARRDFWRR_ 0 0 0 ACAP1|p.G130R|1|0.21|ENSG00000072818|chr17:7343422-7343422|G/A|missense_variant ACAP1|p.G130R|1|0.21|ENSG00000072818|chr17:7343422-7343422|G/A|missense_variant ACAP1|p.G130R|1|0.21|ENSG00000072818|chr17:7343422-7343422|G/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 797.9697875976562 2 797.926732 1593.83891 NaN NaN NaN NaN NaN NaN NaN 100.65 1 100.65 100.15 101.15 0 0 0 0 1.0073 1 55575 55575 1.1933 0 1 7017 5 4443 4460 8332 8332 0.06574462985668106 FRFARRPH 8 Unmodified _FRFARRPH_ 0 0 0 nc|ENSG00000072518|Q7KZI7-10|MARK2;nc|ENSG00000072518|Q7KZI7-5|MARK2;nc|ENSG00000072518|Q7KZI7-12|MARK2;nc|ENSG00000072518|Q7KZI7-11|MARK2 nc|ENSG00000072518|Q7KZI7-10|MARK2 nc|ENSG00000072518|Q7KZI7-10|MARK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.808837890625 2 543.807034 1085.59952 3.5116 0.0019096 -0.21883 -0.000119 3.2927 0.0017906 543.8069697226359 33.179 0.32381 33.433 33.318 33.642 0.25389 17 14 2 0 0 0 0.70799 1 15150 15150 5.2307 0.47466 1 197850 7018 9559 4444 4461 8333 8333 0.060139328251807456 FRFKMKVKAIH 11 Unmodified _FRFKMKVKAIH_ 0 0 0 REV__nc|ENSG00000153827|Q14669-4|TRIP12 REV__nc|ENSG00000153827|Q14669-4|TRIP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 468.9488525390625 3 468.94807 1403.82238 NaN NaN NaN NaN NaN NaN NaN 44.462 1 44.462 43.962 44.962 0 0 0 0 1.0079 1 20313 20313 0.45452 0.046251 1 + 7019 12686 4445 4462 8334 8334 0.13662245775390147 FRFVARPV 8 Unmodified _FRFVARPV_ 0 0 0 ENST00000482153.1_1_10:135122453-135123793:+|nuORF;ENSG00000198546|ENST00000361518|ZNF511;nc|ENSG00000198546|Q8NB15-1|ZNF511 ENST00000482153.1_1_10:135122453-135123793:+|nuORF ENST00000482153.1_1_10:135122453-135123793:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.1998291015625 3 331.199383 990.57632 2.4879 0.00082398 1.0105 0.00033469 3.4984 0.0011587 331.19918057772287 29.22 0.55455 29.48 29.255 29.809 0.2602 85 33 4 0 0 0 0.72385 1 13356 13356 3.9444 2.4625 1 863950 7020 5898 4446 4463 8335 8335 0.08065493987851369 FRGTTLSRFV 10 Unmodified _FRGTTLSRFV_ 0 0 0 ENST00000396045.7_1_7:37025570-37025621:-|nuORF ENST00000396045.7_1_7:37025570-37025621:-|nuORF ENST00000396045.7_1_7:37025570-37025621:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.22332763671875 3 395.224257 1182.65094 NaN NaN NaN NaN NaN NaN NaN 33.694 1 34.314 33.814 34.814 0.62031 0 0 0 0.99837 1 15438 15438 3.0723 1.1659 1 7021 7564 4447 4464 8336 8336 0.06692212008556453 FRIRREFKKRR 11 Unmodified _FRIRREFKKRR_ 0 0 0 ENST00000457348.5_1_1:203269502-203269697:-|nuORF ENST00000457348.5_1_1:203269502-203269697:-|nuORF ENST00000457348.5_1_1:203269502-203269697:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 796.4911499023438 2 796.492042 1590.96953 NaN NaN NaN NaN NaN NaN NaN 76.845 1 76.845 76.345 77.345 0 0 0 0 1.0082 1 37669 37669 0 0 1 7022 8058 4448 4465 8337 8337 0.19768478704509107 FRKLMRKTWIR 11 Unmodified _FRKLMRKTWIR_ 0 0 0 REV__TSHZ2|p.A262Lfs*14|1|0.28|ENSG00000182463|chr20:53254240-53254240|G/-|frameshift_variant REV__TSHZ2|p.A262Lfs*14|1|0.28|ENSG00000182463|chr20:53254240-53254240|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 767.961669921875 2 767.961197 1533.90784 NaN NaN NaN NaN NaN NaN NaN 70.686 1 70.942 70.442 71.442 0.25642 0 0 0 1.0082 1 32372 32372 0 0 1 + 7023 18240 4449 4466 8338 8338 0.1622441096105831 FRKLRQQDL 9 Unmodified _FRKLRQQDL_ 0 0 0 ENSG00000096401|ENST00000371477|CDC5L ENSG00000096401|ENST00000371477|CDC5L ENSG00000096401|ENST00000371477|CDC5L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 401.9044189453125 3 401.903406 1202.68839 2.7631 0.0011105 -0.15384 -6.1827E-05 2.6093 0.0010487 401.903344174374 14.847 0.40595 15.154 15.003 15.409 0.3069 75 37 3 0 0 0 0.59921 1 6715 6715 10.8 3.6978 1 189830 7024 1128 4450 4467 8339 8339 0.0951530327420187 FRKPIPSTV 9 Unmodified _FRKPIPSTV_ 0 0 0 ENSG00000169031|ENST00000396578|COL4A3 ENSG00000169031|ENST00000396578|COL4A3 ENSG00000169031|ENST00000396578|COL4A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 348.8785095214844 3 348.878198 1043.61277 NaN NaN NaN NaN NaN NaN NaN 17.974 1 17.974 17.474 18.474 0 0 0 0 0.45908 1 7981 7981 19.362 1.9193 1 7025 4666 4451 4468 8340 8340 0.09270326093883341 FRKPLQCKI 9 Unmodified _FRKPLQCKI_ 0 0 0 REV__ENST00000594243.1_1_19:18965730-18966052:+|nuORF REV__ENST00000594243.1_1_19:18965730-18966052:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.8383178710938 2 566.836611 1131.65867 NaN NaN NaN NaN NaN NaN NaN 7.5475 1 7.8734 7.3734 8.3734 0.32587 0 0 0 0.91238 1 3393 3393 0.52476 0 1 + 7026 10173 4452 4469 8341 8341 0.09810648004486211 FRKRHRYLWKN 11 Unmodified _FRKRHRYLWKN_ 0 0 0 ENST00000438724.5_1_13:79951611-79952941:-|nuORF ENST00000438724.5_1_13:79951611-79952941:-|nuORF ENST00000438724.5_1_13:79951611-79952941:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 802.457763671875 2 802.457668 1602.90078 NaN NaN NaN NaN NaN NaN NaN 13.066 1 13.066 12.566 13.566 0 0 0 0 1.0082 1 5705 5705 0 0 1 7027 7920 4453 4470 8342 8342 0.12344814404855242 FRKRHRYLWKN 11 Unmodified _FRKRHRYLWKN_ 0 0 0 ENST00000438724.5_1_13:79951611-79952941:-|nuORF ENST00000438724.5_1_13:79951611-79952941:-|nuORF ENST00000438724.5_1_13:79951611-79952941:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 802.4594116210938 2 802.457668 1602.90078 NaN NaN NaN NaN NaN NaN NaN 71.134 1 71.392 70.892 71.892 0.25786 0 0 0 1.0082 1 32582 32582 0 0 1 7028 7920 4453 4470 8343 8343 0.12344814404855242 FRLLRWWRRQL 11 Unmodified _FRLLRWWRRQL_ 0 0 0 ENST00000393313.5_1_7:127032353-127032743:-|nuORF ENST00000393313.5_1_7:127032353-127032743:-|nuORF ENST00000393313.5_1_7:127032353-127032743:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.9915771484375 3 543.991549 1628.95282 NaN NaN NaN NaN NaN NaN NaN 22.674 1 23.262 22.762 23.762 0.58739 0 0 0 1.0082 1 10091 10091 0 0 1 7029 7530 4454 4471 8344 8344 0.16349977818595107 FRLRRRRQIM 10 Unmodified _FRLRRRRQIM_ 0 0 0 ENST00000292524.5_1_8:145748060-145748543:+|nuORF ENST00000292524.5_1_8:145748060-145748543:+|nuORF ENST00000292524.5_1_8:145748060-145748543:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.9613037109375 3 477.957851 1430.85172 2.6654 0.0012739 3.0252 0.0014459 5.6906 0.0027199 477.9593144976964 105.92 0.1352 105.92 105.83 105.97 0 9 5 2 0 0 0 0.94364 1 58204 58204 0.15932 0.064481 1 942310 7030 6739 4455 4472 8345 8345 0.15353202844221414 FRMREPLSRI 10 Unmodified _FRMREPLSRI_ 0 0 0 S1PR4|p.S377R|1|0.08|ENSG00000125910|chr19:3179923-3179923|C/A|missense_variant S1PR4|p.S377R|1|0.08|ENSG00000125910|chr19:3179923-3179923|C/A|missense_variant S1PR4|p.S377R|1|0.08|ENSG00000125910|chr19:3179923-3179923|C/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 435.580322265625 3 435.580046 1303.71831 NaN NaN NaN NaN NaN NaN NaN 62.172 1 62.172 61.672 62.672 0 0 0 0 1.0001 1 29111 29111 1.5923 0 1 7031 18255 4456 4473 8346 8346 0.07859918947860933 FRMRHLQSL 9 Unmodified _FRMRHLQSL_ 0 0 0 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 396.5548400878906 3 396.55372 1186.63933 2.8406 0.0011264 -0.18915 -7.5006E-05 2.6514 0.0010514 396.55370277261477 28.447 0.27068 29.066 28.948 29.219 0.61947 24 15 2 0 0 0 0.72052 1 13028 13028 8.7454 1.6437 1 172210 7032 2487 4457 4474 8347 8347 0.05347691713586755 FRPLYTHEY 9 Unmodified _FRPLYTHEY_ 0 0 0 ENSG00000008952|ENST00000337002|SEC62 ENSG00000008952|ENST00000337002|SEC62 ENSG00000008952|ENST00000337002|SEC62 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 409.20599365234375 3 409.204862 1224.59276 NaN NaN NaN NaN NaN NaN NaN 34.666 1 34.666 34.166 35.166 0 0 0 0 0.17021 1 15716 15716 23.79 16.753 1 7033 386 4458 4475 8348 8348 -0.010554696367080396 FRPLYTHEY 9 Unmodified _FRPLYTHEY_ 0 0 0 ENSG00000008952|ENST00000337002|SEC62 ENSG00000008952|ENST00000337002|SEC62 ENSG00000008952|ENST00000337002|SEC62 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.53997802734375 3 409.204862 1224.59276 2.9032 0.001188 0.10476 4.2867E-05 3.008 0.0012309 409.5390204564638 34.294 0.23109 34.917 34.82 35.051 0.62294 18 8 3 0 0 0 0.11458 1 15720 15720 27.223 23.034 1 528330 7034 386 4458 4475 8349 8349 -0.010554696367080396 FRPLYTHEY 9 Unmodified _FRPLYTHEY_ 0 0 0 ENSG00000008952|ENST00000337002|SEC62 ENSG00000008952|ENST00000337002|SEC62 ENSG00000008952|ENST00000337002|SEC62 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 613.3055419921875 2 613.303655 1224.59276 3.4743 0.0021308 -0.36419 -0.00022336 3.1101 0.0019074 613.303491438144 34.294 0.23109 34.917 34.82 35.051 0.62294 10 8 2 0 0 0 0.078225 1 15736 15736 38.176 31.97 1 248050 7035 386 4458 4475 8350 8350 -0.010554696367080396 FRPYRFYFYMW 11 Unmodified _FRPYRFYFYMW_ 0 0 0 ENSG00000197106|ENST00000331565|SLC6A17 ENSG00000197106|ENST00000331565|SLC6A17 ENSG00000197106|ENST00000331565|SLC6A17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 838.398681640625 2 838.397564 1674.78058 NaN NaN NaN NaN NaN NaN NaN 63.637 1 64.359 63.859 64.859 0.72236 0 0 0 1.0082 1 29835 29835 0 0 1 7036 5796 4459 4476 8351 8351 -0.029823547037949538 FRQQRPLEF 9 Unmodified _FRQQRPLEF_ 0 0 0 ENSG00000089693|ENST00000203630|MLF2 ENSG00000089693|ENST00000203630|MLF2 ENSG00000089693|ENST00000203630|MLF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 407.5572814941406 3 407.556007 1219.64619 2.7088 0.001104 0.07612 3.1023E-05 2.7849 0.001135 407.5560592354841 36.922 0.27853 36.922 36.801 37.08 0 18 11 2 0 0 0 0.81759 1 16776 16776 7.1017 2.9122 1 366090 7037 1048 4460 4477 8352 8352 0.04515327865783547 FRQQRPLEF 9 Unmodified _FRQQRPLEF_ 0 0 0 ENSG00000089693|ENST00000203630|MLF2 ENSG00000089693|ENST00000203630|MLF2 ENSG00000089693|ENST00000203630|MLF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 407.55694580078125 3 407.556007 1219.64619 3.0734 0.0012526 -0.37746 -0.00015384 2.696 0.0010988 407.55569590840213 36.2 0.34519 36.826 36.665 37.01 0.62631 19 10 3 0 0 0 0.21127 1 16590 16590 22.658 16.926 1 710490 7038 1048 4460 4477 8353 8353 0.04515327865783547 FRQRFRRFHYQ 11 Unmodified _FRQRFRRFHYQ_ 0 0 0 nc|ENSG00000140265|Q8IWY8-4|ZSCAN29;ENSG00000140265|ENST00000684362|ZSCAN29;nc|ENSG00000140265|Q8IWY8-3|ZSCAN29 nc|ENSG00000140265|Q8IWY8-4|ZSCAN29 nc|ENSG00000140265|Q8IWY8-4|ZSCAN29 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 820.9368286132812 2 820.937099 1639.85965 NaN NaN NaN NaN NaN NaN NaN 105.57 1 105.88 105.38 106.38 0.31782 0 0 0 1.008 1 48728 48728 0.35063 0.35063 1 7039 3187 4461 4478 8354 8354 0.06531053365347361 FRQWERQYIWL 11 Unmodified _FRQWERQYIWL_ 0 0 0 REV__nc|ENSG00000113812|Q9H981-3|ACTR8 REV__nc|ENSG00000113812|Q9H981-3|ACTR8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 812.8643188476562 2 812.922792 1623.83103 NaN NaN NaN NaN NaN NaN NaN 96.645 1 96.721 96.221 97.221 0.076538 0 0 0 1.0082 1 51427 51427 0 0 1 + 7040 11310 4462 4479 8355 8355 0.0440689094557456 FRRAWRKLWPS 11 Unmodified _FRRAWRKLWPS_ 0 0 0 nc|ENSG00000234616|O75564|JRK;ENSG00000234616|ENST00000612905|JRK nc|ENSG00000234616|O75564|JRK nc|ENSG00000234616|O75564|JRK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1503.619140625 1 1502.84915 1501.84187 3.1683 0.0047615 1.2938 0.0019444 4.4621 0.0067059 1503.8514848503437 14.295 0.049191 14.295 14.265 14.314 0 4 2 2 0 0 0 0.91391 1 6289 6289 0.30703 0.03801 1 160490 7041 6197 4463 4480 8356 8356 0.11102338110504206 FRRKRERNRRL 11 Unmodified _FRRKRERNRRL_ 0 0 0 ENST00000453426.1_1_6:32811873-32813517:+|nuORF ENST00000453426.1_1_6:32811873-32813517:+|nuORF ENST00000453426.1_1_6:32811873-32813517:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 793.7717895507812 2 793.982373 1585.95019 NaN NaN NaN NaN NaN NaN NaN 82.116 1 82.2 81.7 82.7 0.084106 0 0 0 1.008 1 40494 40494 0.26902 0.26902 1 7042 8033 4464 4481 8357 8357 0.1806552241364443 FRRQNQRRQFQ 11 Unmodified _FRRQNQRRQFQ_ 0 0 0 REV__chr1:205523297-205523546|511|23.31|0.94|4.63|+|ENST00000443813|CDK18,CDK18 REV__chr1:205523297-205523546|511|23.31|0.94|4.63|+|ENST00000443813|CDK18,CDK18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 782.3526000976562 2 782.421814 1562.82907 NaN NaN NaN NaN NaN NaN NaN 24.86 1 25.597 25.097 26.097 0.73623 0 0 0 1.008 1 11144 11144 0.30703 0 1 + 7043 10009 4465 4482 8358 8358 0.07017274980307775 FRRRKKLILLR 11 Unmodified _FRRRKKLILLR_ 0 0 0 ENST00000395954.3_1_20:52773958-52774087:-|nuORF ENST00000395954.3_1_20:52773958-52774087:-|nuORF ENST00000395954.3_1_20:52773958-52774087:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 750.0171508789062 2 750.012079 1498.0096 NaN NaN NaN NaN NaN NaN NaN 104.41 1 105.01 104.51 105.51 0.59885 0 0 0 1.0082 1 48249 48249 0 0 1 7044 7562 4466 4483 8359 8359 0.28052025375109224 FRRRRWRRRME 11 Unmodified _FRRRRWRRRME_ 0 0 0 nc|ENSG00000135636|O75923-3|DYSF;nc|ENSG00000135636|O75923-9|DYSF;nc|ENSG00000135636|O75923|DYSF;nc|ENSG00000135636|O75923-14|DYSF;nc|ENSG00000135636|O75923-6|DYSF;nc|ENSG00000135636|O75923-12|DYSF;nc|ENSG00000135636|O75923-5|DYSF;nc|ENSG00000135636|O75923-11|DYSF;nc|ENSG00000135636|O75923-4|DYSF;nc|ENSG00000135636|O75923-10|DYSF;nc|ENSG00000135636|O75923-2|DYSF;nc|ENSG00000135636|O75923-8|DYSF;nc|ENSG00000135636|O75923-7|DYSF;ENSG00000135636|ENST00000410020|DYSF;nc|ENSG00000135636|O75923-15|DYSF nc|ENSG00000135636|O75923-3|DYSF nc|ENSG00000135636|O75923-3|DYSF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.0288696289062 3 568.990325 1703.94915 NaN NaN NaN NaN NaN NaN NaN 86.468 1 86.468 85.968 86.968 0 0 0 0 1.0082 1 44336 44336 0 0 1 7045 2885 4467 4484 8360 8360 0.125329847730427 FRRRRWRRRME 11 Unmodified _FRRRRWRRRME_ 0 0 0 nc|ENSG00000135636|O75923-3|DYSF;nc|ENSG00000135636|O75923-9|DYSF;nc|ENSG00000135636|O75923|DYSF;nc|ENSG00000135636|O75923-14|DYSF;nc|ENSG00000135636|O75923-6|DYSF;nc|ENSG00000135636|O75923-12|DYSF;nc|ENSG00000135636|O75923-5|DYSF;nc|ENSG00000135636|O75923-11|DYSF;nc|ENSG00000135636|O75923-4|DYSF;nc|ENSG00000135636|O75923-10|DYSF;nc|ENSG00000135636|O75923-2|DYSF;nc|ENSG00000135636|O75923-8|DYSF;nc|ENSG00000135636|O75923-7|DYSF;ENSG00000135636|ENST00000410020|DYSF;nc|ENSG00000135636|O75923-15|DYSF nc|ENSG00000135636|O75923-3|DYSF nc|ENSG00000135636|O75923-3|DYSF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 852.9814453125 2 852.98185 1703.94915 NaN NaN NaN NaN NaN NaN NaN 81.461 1 81.583 81.083 82.083 0.12255 0 0 0 1.0082 1 40045 40045 0 0 1 7046 2885 4467 4484 8361 8361 0.125329847730427 FRRRRWRRRME 11 Unmodified _FRRRRWRRRME_ 0 0 0 nc|ENSG00000135636|O75923-3|DYSF;nc|ENSG00000135636|O75923-9|DYSF;nc|ENSG00000135636|O75923|DYSF;nc|ENSG00000135636|O75923-14|DYSF;nc|ENSG00000135636|O75923-6|DYSF;nc|ENSG00000135636|O75923-12|DYSF;nc|ENSG00000135636|O75923-5|DYSF;nc|ENSG00000135636|O75923-11|DYSF;nc|ENSG00000135636|O75923-4|DYSF;nc|ENSG00000135636|O75923-10|DYSF;nc|ENSG00000135636|O75923-2|DYSF;nc|ENSG00000135636|O75923-8|DYSF;nc|ENSG00000135636|O75923-7|DYSF;ENSG00000135636|ENST00000410020|DYSF;nc|ENSG00000135636|O75923-15|DYSF nc|ENSG00000135636|O75923-3|DYSF nc|ENSG00000135636|O75923-3|DYSF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.989501953125 3 568.990325 1703.94915 3.8217 0.0021745 -2.7891 -0.001587 1.0326 0.00058754 568.9886639612575 106.26 0.13555 106.86 106.78 106.91 0.60075 11 4 3 0 0 0 0.91489 1 49074 49074 0 0 1 854720 7047 2885 4467 4484 8362 8362 0.125329847730427 FRRWHRKRRKL 11 Unmodified _FRRWHRKRRKL_ 0 0 0 ENST00000416673.6_1_2:114369763-114384446:-|nuORF ENST00000416673.6_1_2:114369763-114384446:-|nuORF ENST00000416673.6_1_2:114369763-114384446:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 820.0067749023438 2 820.005651 1637.99675 NaN NaN NaN NaN NaN NaN NaN 93.75 1 94.381 93.881 94.881 0.63115 0 0 0 1.0082 1 43122 43122 0 0 1 7048 7716 4468 4485 8363 8363 0.20327007035552924 FRSLFRKVL 9 Unmodified _FRSLFRKVL_ 0 0 0 REV__ENST00000557388.1_1_14:67864733-67878776:-|nuORF REV__ENST00000557388.1_1_14:67864733-67878776:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.3638916015625 2 583.36385 1164.71315 NaN NaN NaN NaN NaN NaN NaN 103.92 1 104.52 104.02 105.02 0.59821 0 0 0 0.90699 1 48062 48062 1.8442 0 1 + 7049 17333 4469 4486 8364 8364 0.13737983147552768 FRSRLLAG 8 Unmodified _FRSRLLAG_ 0 0 0 REV__ENSG00000135925|ENST00000258411|WNT10A REV__ENSG00000135925|ENST00000258411|WNT10A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 307.1891174316406 3 307.187255 918.539935 NaN NaN NaN NaN NaN NaN NaN 35.766 1 36.557 36.057 37.057 0.79131 0 0 0 0.99035 1 16210 16210 0.45834 0 1 + 7050 12046 4470 4487 8365 8365 0.07740617091144486 FRVGNVQEL 9 Unmodified _FRVGNVQEL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.2930297851562 2 531.290548 1060.56654 3.0834 0.0016382 1.9995 0.0010623 5.0829 0.0027005 531.2915492895319 48.365 0.50677 49.193 48.849 49.355 0.82705 43 25 2 0 0 0 0.052704 1 22040 22040 46.021 18.392 1 821480 7051 4204 4471 4488 8366 8366 0.03868261191814781 FRVGNVQEL 9 Unmodified _FRVGNVQEL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 531.290548 1060.56654 3.3886 0.0018003 1.6579 0.00088083 5.0465 0.0026812 531.2915088980335 48.666 0.47205 49.321 49.132 49.604 0.65524 0.003171 -0.0003261 NaN 46.021 21 17 2 NaN NaN NaN NaN 0 NaN NaN 0 328380 7052 4204 4471 4488 0.03868261191814781 FRWWRRRWNPR 11 Unmodified _FRWWRRRWNPR_ 0 0 0 ENST00000463462.5_1_7:148982563-148988696:+|nuORF;ENST00000426347.5_1_7:148982610-148985528:+|nuORF;ENST00000481817.5_1_7:148984700-148990670:+|nuORF ENST00000463462.5_1_7:148982563-148988696:+|nuORF ENST00000463462.5_1_7:148982563-148988696:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 858.5470581054688 2 858.466358 1714.91816 NaN NaN NaN NaN NaN NaN NaN 108.77 1 108.77 108.27 109.27 0 0 0 0 1.0082 1 59535 59535 0 0 1 7053 8104 4472 4489 8367 8367 0.08930154730501272 FRWWRRRWNPR 11 Unmodified _FRWWRRRWNPR_ 0 0 0 ENST00000463462.5_1_7:148982563-148988696:+|nuORF;ENST00000426347.5_1_7:148982610-148985528:+|nuORF;ENST00000481817.5_1_7:148984700-148990670:+|nuORF ENST00000463462.5_1_7:148982563-148988696:+|nuORF ENST00000463462.5_1_7:148982563-148988696:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 858.4669189453125 2 858.466358 1714.91816 NaN NaN NaN NaN NaN NaN NaN 93.196 1 93.827 93.327 94.327 0.63115 0 0 0 1.0082 1 42874 42874 0 0 1 7054 8104 4472 4489 8368 8368 0.08930154730501272 FRYSGLRSPL 10 Unmodified _FRYSGLRSPL_ 0 0 0 chr16:53765923-53810140|139|17.22|0.04|8.93|+|2|TE_info:L2a,L2a_dup145821,L2,LINE,donor,-,53765577,53765923|None,FTO|5 chr16:53765923-53810140|139|17.22|0.04|8.93|+|2|TE_info:L2a,L2a_dup145821,L2,LINE,donor,-,53765577,53765923|None,FTO|5 chr16:53765923-53810140|139|17.22|0.04|8.93|+|2|TE_info:L2a,L2a_dup145821,L2,LINE,donor,-,53765577,53765923|None,FTO|5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.2592468261719 3 399.224257 1194.65094 3.043 0.0012148 -0.22891 -9.1388E-05 2.8141 0.0011235 399.2243182113763 36.339 0.29271 36.965 36.845 37.138 0.62631 13 8 2 0 0 0 0.12676 1 16716 16716 3.0723 0.57378 1 127050 7055 155 4473 4490 8369 8369 0.061402120085631395 FSAFIKNP 8 Unmodified _FSAFIKNP_ 0 0 0 ENST00000480181.1_1_9:139889560-139890188:-|nuORF;ENSG00000169583|ENST00000494426|CLIC3 ENST00000480181.1_1_9:139889560-139890188:-|nuORF ENST00000480181.1_1_9:139889560-139890188:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 462.2564697265625 2 462.252903 922.491253 NaN NaN NaN NaN NaN NaN NaN 42.954 1 43.602 43.102 44.102 0.64817 0 0 0 0.99035 1 19683 19683 4.756 0 1 7056 4697 4474 4491 8370 8370 0.026907037313776527 FSARFENM 8 Unmodified _FSARFENM_ 0 0 0 REV__nc|ENSG00000072110|P12814-4|ACTN1 REV__nc|ENSG00000072110|P12814-4|ACTN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.2303771972656 2 501.229102 1000.44365 3.1068 0.0015572 0.035329 1.7708E-05 3.1421 0.0015749 501.2290751711763 37.83 0.19189 37.83 37.718 37.91 0 11 7 2 0 0 0 0.23923 1 17183 17183 39.957 0 1 358380 + 7057 17868 4475 4492 8371 8371 -0.05655318531114517 FSARFENM 8 Unmodified _FSARFENM_ 0 0 0 REV__nc|ENSG00000072110|P12814-4|ACTN1 REV__nc|ENSG00000072110|P12814-4|ACTN1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 501.229102 1000.44365 3.1068 0.0015572 0.035329 1.7708E-05 3.1421 0.0015749 501.2290751711763 37.83 0.19189 37.83 37.718 37.91 0 0.16486 -0.00011308 NaN 39.957 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 358380 + 7058 17868 4475 4492 -0.05655318531114517 FSARFENM 8 Unmodified _FSARFENM_ 0 0 0 REV__nc|ENSG00000072110|P12814-4|ACTN1 REV__nc|ENSG00000072110|P12814-4|ACTN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 501.229102 1000.44365 3.0772 0.0015424 0.25124 0.00012593 3.3285 0.0016683 501.2288258466752 36.707 0.24265 37.501 37.371 37.614 0.79342 -0.16486 0.00010337 NaN 39.957 17 11 3 NaN NaN NaN NaN 0 NaN NaN 0 335340 + 7059 17868 4475 4492 -0.05655318531114517 FSCFSKFAKS 10 Unmodified _FSCFSKFAKS_ 0 0 0 REV__nc|ENSG00000128815|Q6ZS81-5|WDFY4 REV__nc|ENSG00000128815|Q6ZS81-5|WDFY4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 576.155029296875 2 576.281334 1150.54812 NaN NaN NaN NaN NaN NaN NaN 91.398 1 91.398 90.898 91.898 0 0 0 0 0.9952 1 48274 48274 5.7319 0.83484 1 + 7060 11771 4476 4493 8372 8372 -0.021136167744089107 FSCVKNEL 8 Carbamidomethyl (C) _FSC(Carbamidomethyl (C))VKNEL_ FSC(1)VKNEL FSC(130)VKNEL 0 1 0 ENSG00000132963|ENST00000380842|POMP ENSG00000132963|ENST00000380842|POMP ENSG00000132963|ENST00000380842|POMP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.7450866699219 2 498.744585 995.474617 3.5249 0.001758 -0.53114 -0.00026491 2.9937 0.0014931 498.74444654946143 32.295 0.31673 32.55 32.406 32.723 0.25452 42 23 2 0 0 0 0.0063663 2 14683 14683;14726 126.57 15.279 1 2086800 7061 2738 4477 4494 8373;8374 8373 57 -0.023301652168811415 FSCVKNEL 8 Carbamidomethyl (C) _FSC(Carbamidomethyl (C))VKNEL_ FSC(1)VKNEL FSC(110)VKNEL 0 1 0 ENSG00000132963|ENST00000380842|POMP ENSG00000132963|ENST00000380842|POMP ENSG00000132963|ENST00000380842|POMP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.7460632324219 2 498.744585 995.474617 3.2088 0.0016004 -0.31825 -0.00015872 2.8906 0.0014416 498.74448682859537 31.683 0.32837 32.3 32.175 32.504 0.61736 59 28 3 0 0 0 0.0089809 2 14528 14528;14577 110.67 14.564 1 2275400 7062 2738 4477 4494 8375;8376 8375 57 -0.023301652168811415 FSDDSDLQL 9 Unmodified _FSDDSDLQL_ 0 0 0 ENSG00000025800|ENST00000373625|KPNA6 ENSG00000025800|ENST00000373625|KPNA6 ENSG00000025800|ENST00000373625|KPNA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.2337036132812 2 520.232561 1038.45057 3.4229 0.0017807 -2.6186 -0.0013623 0.80432 0.00041843 520.2307839729347 59.583 0.58957 59.842 59.375 59.964 0.2593 35 27 2 0 0 0 0.023109 1 27265 27265 64.236 32.119 1 499240 7063 482 4478 4495 8377 8377 -0.06711727169545156 FSDDSDLQL 9 Unmodified _FSDDSDLQL_ 0 0 0 ENSG00000025800|ENST00000373625|KPNA6 ENSG00000025800|ENST00000373625|KPNA6 ENSG00000025800|ENST00000373625|KPNA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.2340087890625 2 520.232561 1038.45057 3.3857 0.0017614 -0.63546 -0.00033059 2.7503 0.0014308 520.2323597185011 59.083 0.33821 59.75 59.501 59.839 0.66703 34 18 2 0 0 0 0.023109 1 27038 27038 64.236 32.119 1 576060 7064 482 4478 4495 8378 8378 -0.06711727169545156 FSEETPVVL 9 Unmodified _FSEETPVVL_ 0 0 0 ENSG00000182220|ENST00000636580|ATP6AP2 ENSG00000182220|ENST00000636580|ATP6AP2 ENSG00000182220|ENST00000636580|ATP6AP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.7679748535156 2 510.76604 1019.51753 3.5658 0.0018213 0.25183 0.00012863 3.8177 0.0019499 510.76601022974273 67.448 0.23729 67.698 67.561 67.798 0.2501 20 12 2 0 0 0 0.041436 1 30900 30900 50.855 24.514 1 548730 7065 5321 4479 4496 8379 8379 0.008549281121986496 FSEETPVVL 9 Unmodified _FSEETPVVL_ 0 0 0 ENSG00000182220|ENST00000636580|ATP6AP2 ENSG00000182220|ENST00000636580|ATP6AP2 ENSG00000182220|ENST00000636580|ATP6AP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.7666015625 2 510.76604 1019.51753 3.3689 0.0017207 -0.52553 -0.00026842 2.8433 0.0014523 510.7658668192524 66.85 0.27814 67.507 67.353 67.631 0.65672 24 15 2 0 0 0 0.028312 1 30667 30667 57.471 39.336 1 517620 7066 5321 4479 4496 8380 8380 0.008549281121986496 FSEYMKRKK 9 Unmodified _FSEYMKRKK_ 0 0 0 REV__ENSG00000005249|ENST00000265717|PRKAR2B REV__ENSG00000005249|ENST00000265717|PRKAR2B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 608.8307495117188 2 608.828983 1215.64341 NaN NaN NaN NaN NaN NaN NaN 32.208 1 32.462 31.962 32.962 0.25452 0 0 0 0.91059 1 14666 14666 0.45834 0 1 + 7067 10178 4480 4497 8381 8381 0.04421736416634303 FSFKKELIIMF 11 Unmodified _FSFKKELIIMF_ 0 0 0 REV__nc|ENSG00000022567|Q5BKX6-3|SLC45A4 REV__nc|ENSG00000022567|Q5BKX6-3|SLC45A4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 701.8963012695312 2 701.893792 1401.77303 NaN NaN NaN NaN NaN NaN NaN 53.326 1 54.129 53.629 54.629 0.80351 0 0 0 1.0057 1 24322 24322 3.2813 0.54611 1 + 7068 17854 4481 4498 8382 8382 0.08821492975903311 FSHAENFL 8 Unmodified _FSHAENFL_ 0 0 0 REV__ENSG00000112290|ENST00000392589|WASF1 REV__ENSG00000112290|ENST00000392589|WASF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.7332763671875 2 482.729792 963.445031 2.9539 0.0014259 2.1666 0.0010459 5.1205 0.0024718 482.7318471936132 38.263 0.31788 38.527 38.312 38.63 0.26408 21 9 3 0 0 0 0.3435 1 17455 17455 32.305 15.363 1 1710700 + 7069 11268 4482 4499 8383 8383 -0.0381536117071164 FSHAENFL 8 Unmodified _FSHAENFL_ 0 0 0 REV__ENSG00000112290|ENST00000392589|WASF1 REV__ENSG00000112290|ENST00000392589|WASF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.73345947265625 2 482.729792 963.445031 3.0703 0.0014821 3.2706 0.0015788 6.3409 0.003061 482.7318536237047 37.634 0.51824 38.268 37.919 38.438 0.63388 34 17 3 0 0 0 0.062889 2 17216 17216;17269 61.357 10.502 1 1037800 + 7070 11268 4482 4499 8384;8385 8384 -0.0381536117071164 FSHAENFL 8 Unmodified _FSHAENFL_ 0 0 0 REV__ENSG00000112290|ENST00000392589|WASF1 REV__ENSG00000112290|ENST00000392589|WASF1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 482.729792 963.445031 2.9539 0.0014259 2.1666 0.0010459 5.1205 0.0024718 482.7318471936132 38.263 0.31788 38.527 38.312 38.63 0.26408 0.12964 -0.00077295 NaN 61.357 21 9 3 NaN NaN NaN NaN 0 NaN NaN 0 1710700 + 7071 11268 4482 4499 -0.0381536117071164 FSHAENFL 8 Unmodified _FSHAENFL_ 0 0 0 REV__ENSG00000112290|ENST00000392589|WASF1 REV__ENSG00000112290|ENST00000392589|WASF1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 482.729792 963.445031 3.0703 0.0014821 3.2706 0.0015788 6.3409 0.003061 482.7318536237047 37.634 0.51824 38.268 37.919 38.438 0.63388 -0.12964 0.00029297 NaN 61.357 34 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1037800 + 7072 11268 4482 4499 -0.0381536117071164 FSHEEIAM 8 Unmodified _FSHEEIAM_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 482.21728515625 2 482.21566 962.416767 NaN NaN NaN NaN NaN NaN NaN 37.445 1 37.445 36.945 37.945 0 0 0 0 0.44558 1 16992 16992 30.225 10.786 1 7073 3661 4483 4500 8386 8386 -0.06594427142306358 FSHEEIAM 8 Unmodified _FSHEEIAM_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.21771240234375 2 482.21566 962.416767 3.1567 0.0015222 1.1515 0.00055528 4.3083 0.0020775 482.2161971582943 36.271 0.22213 37.064 36.927 37.149 0.79342 15 9 2 0 0 0 0.26384 1 16454 16454 38.151 18.712 1 257150 7074 3661 4483 4500 8387 8387 -0.06594427142306358 FSHEEIAM 8 Unmodified _FSHEEIAM_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.2172546386719 2 482.21566 962.416767 3.2352 0.0015601 0.47679 0.00022991 3.712 0.00179 482.21662979542856 37.319 0.21845 37.58 37.51 37.728 0.26083 10 6 2 0 0 0 0.16336 1 17018 17018 46.921 20.58 1 356420 7075 3661 4483 4500 8388 8388 -0.06594427142306358 FSHEEIAM 8 Unmodified _FSHEEIAM_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.217529296875 2 482.21566 962.416767 3.2246 0.0015549 0.39813 0.00019198 3.6227 0.0017469 482.21585865379785 36.744 0.34936 37.374 37.167 37.517 0.62999 23 15 2 0 0 0 0.26384 1 16813 16813 38.151 20.016 1 249450 7076 3661 4483 4500 8389 8389 -0.06594427142306358 FSHGDDGHYGY 11 Unmodified _FSHGDDGHYGY_ 0 0 0 REV__ENST00000602638.5_1_16:67765330-67839352:-|nuORF REV__ENST00000602638.5_1_16:67765330-67839352:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 627.71533203125 2 627.744159 1253.47377 NaN NaN NaN NaN NaN NaN NaN 99.475 1 99.783 99.283 100.28 0.30835 0 0 0 1.0059 1 45960 45960 2.9952 0.93549 1 + 7077 10220 4484 4501 8390 8390 -0.14283288332217126 FSHPREPAL 9 Unmodified _FSHPREPAL_ 0 0 0 nc|ENSG00000161847|Q8IY67-2|RAVER1;ENSG00000161847|ENST00000617231|RAVER1 nc|ENSG00000161847|Q8IY67-2|RAVER1 nc|ENSG00000161847|Q8IY67-2|RAVER1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.8549499511719 3 351.854053 1052.54033 2.4267 0.00085385 -0.28448 -0.00010009 2.1422 0.00075376 351.85410278554906 27.885 0.51895 28.148 27.803 28.322 0.26245 51 33 2 0 0 0 0.26118 2 12619 12619;12678 19.362 9.8337 1 279710 7078 4105 4485 4502 8391;8392 8391 0.016159920203108413 FSHPREPAL 9 Unmodified _FSHPREPAL_ 0 0 0 nc|ENSG00000161847|Q8IY67-2|RAVER1;ENSG00000161847|ENST00000617231|RAVER1 nc|ENSG00000161847|Q8IY67-2|RAVER1 nc|ENSG00000161847|Q8IY67-2|RAVER1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.8545837402344 3 351.854053 1052.54033 2.3622 0.00083115 0.47966 0.00016877 2.8419 0.00099992 351.85425015561583 27.529 0.57712 28.15 27.747 28.324 0.62179 51 36 2 0 0 0 0.38625 1 12595 12595 14.405 3.6059 1 322380 7079 4105 4485 4502 8393 8393 0.016159920203108413 FSHVSEAG 8 Unmodified _FSHVSEAG_ 0 0 0 REV__nc|ENSG00000006283|O43497-34|CACNA1G REV__nc|ENSG00000006283|O43497-34|CACNA1G MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 417.1943664550781 2 417.193042 832.371532 NaN NaN NaN NaN NaN NaN NaN 29.116 1 29.116 28.616 29.616 0 0 0 0 0.95658 1 13138 13138 8.5933 3.3626 1 + 7080 17852 4486 4503 8394 8394 -0.05135909613181866 FSIKKRRI 8 Unmodified _FSIKKRRI_ 0 0 0 REV__nc|ENSG00000138688|Q2LD37-6|BLTP1 REV__nc|ENSG00000138688|Q2LD37-6|BLTP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.3414916992188 2 524.342918 1046.67128 NaN NaN NaN NaN NaN NaN NaN 83.349 1 83.349 82.849 83.849 0 0 0 0 0.99035 1 41965 41965 4.756 0 1 + 7081 17960 4487 4504 8395 8395 0.1498142745901987 FSKMKALAV 9 Unmodified _FSKMKALAV_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;SPTBN1|p.E1055Gfs*20|1|0.19|ENSG00000115306|chr2:54631208-54631224|GAGAGGCCTCCCTGGGA/-|frameshift_variant;ENSG00000160460|ENST00000598249|SPTBN4;nc|ENSG00000160460|Q9H254-4|SPTBN4;nc|ENSG00000160460|Q9H254-2|SPTBN4;nc|ENSG00000173898|O15020-2|SPTBN2;ENSG00000173898|ENST00000533211|SPTBN2;SPTBN2|p.S1719Pfs*11|1|0.21|ENSG00000173898|chr11:66692572-66692572|G/-|frameshift_variant ENSG00000115306|ENST00000356805|SPTBN1;ENSG00000160460|ENST00000598249|SPTBN4;nc|ENSG00000173898|O15020-2|SPTBN2 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 497.79290771484375 2 497.791338 993.568123 2.7614 0.0013746 0.6138 0.00030554 3.3752 0.0016802 497.7913950127835 33.017 0.23787 33.805 33.65 33.888 0.78795 19 13 2 0 0 0 0.047921 1 14926 14926 43.982 19.772 1 408820 7082 1960;4061;4957 4488 4505 8396 8396 0.07108178956184474 FSKMKALAV 9 Unmodified _FSKMKALAV_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;SPTBN1|p.E1055Gfs*20|1|0.19|ENSG00000115306|chr2:54631208-54631224|GAGAGGCCTCCCTGGGA/-|frameshift_variant;ENSG00000160460|ENST00000598249|SPTBN4;nc|ENSG00000160460|Q9H254-4|SPTBN4;nc|ENSG00000160460|Q9H254-2|SPTBN4;nc|ENSG00000173898|O15020-2|SPTBN2;ENSG00000173898|ENST00000533211|SPTBN2;SPTBN2|p.S1719Pfs*11|1|0.21|ENSG00000173898|chr11:66692572-66692572|G/-|frameshift_variant ENSG00000115306|ENST00000356805|SPTBN1;ENSG00000160460|ENST00000598249|SPTBN4;nc|ENSG00000173898|O15020-2|SPTBN2 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.79266357421875 2 497.791338 993.568123 3.2449 0.0016153 0.039906 1.9865E-05 3.2848 0.0016352 497.7913752122428 33.839 0.35976 34.093 33.891 34.25 0.25389 60 19 4 0 0 0 0.0022548 2 15430 15377;15430 110.55 58.218 1 3502900 7083 1960;4061;4957 4488 4505 8397;8398 8398 0.07108178956184474 FSKMKALAV 9 Unmodified _FSKMKALAV_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;SPTBN1|p.E1055Gfs*20|1|0.19|ENSG00000115306|chr2:54631208-54631224|GAGAGGCCTCCCTGGGA/-|frameshift_variant;ENSG00000160460|ENST00000598249|SPTBN4;nc|ENSG00000160460|Q9H254-4|SPTBN4;nc|ENSG00000160460|Q9H254-2|SPTBN4;nc|ENSG00000173898|O15020-2|SPTBN2;ENSG00000173898|ENST00000533211|SPTBN2;SPTBN2|p.S1719Pfs*11|1|0.21|ENSG00000173898|chr11:66692572-66692572|G/-|frameshift_variant ENSG00000115306|ENST00000356805|SPTBN1;ENSG00000160460|ENST00000598249|SPTBN4;nc|ENSG00000173898|O15020-2|SPTBN2 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 332.19732666015625 3 332.196651 993.568123 2.4278 0.00080651 -0.21017 -6.9817E-05 2.2176 0.0007367 332.1966835391951 33.86 0.37051 34.114 33.906 34.277 0.25389 42 19 3 0 0 0 0.38625 2 15387 15387;15439 14.405 3.6059 1 1262000 7084 1960;4061;4957 4488 4505 8399;8400 8399 0.07108178956184474 FSKMKALAV 9 Unmodified _FSKMKALAV_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;SPTBN1|p.E1055Gfs*20|1|0.19|ENSG00000115306|chr2:54631208-54631224|GAGAGGCCTCCCTGGGA/-|frameshift_variant;ENSG00000160460|ENST00000598249|SPTBN4;nc|ENSG00000160460|Q9H254-4|SPTBN4;nc|ENSG00000160460|Q9H254-2|SPTBN4;nc|ENSG00000173898|O15020-2|SPTBN2;ENSG00000173898|ENST00000533211|SPTBN2;SPTBN2|p.S1719Pfs*11|1|0.21|ENSG00000173898|chr11:66692572-66692572|G/-|frameshift_variant ENSG00000115306|ENST00000356805|SPTBN1;ENSG00000160460|ENST00000598249|SPTBN4;nc|ENSG00000173898|O15020-2|SPTBN2 ENSG00000115306|ENST00000356805|SPTBN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.7934875488281 2 497.791338 993.568123 NaN NaN NaN NaN NaN NaN NaN 33.998 1 34.252 33.752 34.752 0.25389 0 0 0 0.64145 1 15482 15482 20.454 8.8133 1 7085 1960;4061;4957 4488 4505 8401 8401 0.07108178956184474 FSKMKALAV 9 Unmodified _FSKMKALAV_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;SPTBN1|p.E1055Gfs*20|1|0.19|ENSG00000115306|chr2:54631208-54631224|GAGAGGCCTCCCTGGGA/-|frameshift_variant;ENSG00000160460|ENST00000598249|SPTBN4;nc|ENSG00000160460|Q9H254-4|SPTBN4;nc|ENSG00000160460|Q9H254-2|SPTBN4;nc|ENSG00000173898|O15020-2|SPTBN2;ENSG00000173898|ENST00000533211|SPTBN2;SPTBN2|p.S1719Pfs*11|1|0.21|ENSG00000173898|chr11:66692572-66692572|G/-|frameshift_variant ENSG00000115306|ENST00000356805|SPTBN1;ENSG00000160460|ENST00000598249|SPTBN4;nc|ENSG00000173898|O15020-2|SPTBN2 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.7930908203125 2 497.791338 993.568123 3.0911 0.0015387 0.16875 8.4001E-05 3.2599 0.0016227 497.7914645414062 33.28 0.35189 33.9 33.727 34.079 0.62031 55 17 4 0 0 0 0.0022548 3 15250 15204;15250;15302 110.55 68.735 1 2451600 7086 1960;4061;4957 4488 4505 8402;8403;8404 8403 0.07108178956184474 FSKMKALAV 9 Unmodified _FSKMKALAV_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;SPTBN1|p.E1055Gfs*20|1|0.19|ENSG00000115306|chr2:54631208-54631224|GAGAGGCCTCCCTGGGA/-|frameshift_variant;ENSG00000160460|ENST00000598249|SPTBN4;nc|ENSG00000160460|Q9H254-4|SPTBN4;nc|ENSG00000160460|Q9H254-2|SPTBN4;nc|ENSG00000173898|O15020-2|SPTBN2;ENSG00000173898|ENST00000533211|SPTBN2;SPTBN2|p.S1719Pfs*11|1|0.21|ENSG00000173898|chr11:66692572-66692572|G/-|frameshift_variant ENSG00000115306|ENST00000356805|SPTBN1;ENSG00000160460|ENST00000598249|SPTBN4;nc|ENSG00000173898|O15020-2|SPTBN2 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.1973876953125 3 332.196651 993.568123 2.1497 0.00071412 0.066401 2.2058E-05 2.2161 0.00073618 332.19679046400944 33.241 0.35469 33.862 33.698 34.052 0.62031 44 18 3 0 0 0 0.38625 2 15236 15236;15286 14.405 6.4952 1 877970 7087 1960;4061;4957 4488 4505 8405;8406 8405 0.07108178956184474 FSLFRRRRERR 11 Unmodified _FSLFRRRRERR_ 0 0 0 ENSG00000147912|ENST00000432825|FBXO10 ENSG00000147912|ENST00000432825|FBXO10 ENSG00000147912|ENST00000432825|FBXO10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 789.9842529296875 2 789.963649 1577.91274 NaN NaN NaN NaN NaN NaN NaN 104.93 1 104.98 104.48 105.48 0.050888 0 0 0 1.008 1 56774 56774 0.30703 0.03801 1 7088 3586 4489 4506 8407 8407 0.146904311480057 FSLKEIQL 8 Unmodified _FSLKEIQL_ 0 0 0 ENSG00000117266|ENST00000429964|CDK18;nc|ENSG00000117266|Q07002-3|CDK18;ENST00000504648.5_1_1:205492597-205500503:+|nuORF;nc|ENSG00000059758|Q00537-2|CDK17;ENSG00000059758|ENST00000261211|CDK17;ENST00000489617.5_1_1:205499248-205500503:+|nuORF;ENST00000459862.1_1_1:205499484-205500503:+|nuORF ENSG00000117266|ENST00000429964|CDK18 ENSG00000117266|ENST00000429964|CDK18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.28857421875 2 489.286943 976.559333 3.1662 0.0015492 -0.40652 -0.00019891 2.7597 0.0013503 489.28683490130845 59.462 0.31107 59.722 59.569 59.88 0.2593 34 13 3 0 0 0 0.070862 1 27263 27263 58.679 0 1 2629100 7089 2066 4490 4507 8408 8408 0.07011528591374372 FSLWWWRLHKF 11 Unmodified _FSLWWWRLHKF_ 0 0 0 REV__ENST00000575955.1_1_17:4120189-4167236:-|nuORF REV__ENST00000575955.1_1_17:4120189-4167236:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 803.4275512695312 2 803.427513 1604.84047 NaN NaN NaN NaN NaN NaN NaN 48.262 1 48.262 47.762 48.762 0 0 0 0 1.0082 1 22100 22100 0 0 1 + 7090 17477 4491 4508 8409 8409 0.06224704021724392 FSPMLNRLL 9 Unmodified _FSPMLNRLL_ 0 0 0 REV__ENSG00000151748|ENST00000324679|SAV1 REV__ENSG00000151748|ENST00000324679|SAV1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.8069458007812 2 545.807519 1089.60049 NaN NaN NaN NaN NaN NaN NaN 68.644 1 69.303 68.803 69.803 0.65924 0 0 0 0.82031 1 31466 31466 8.5933 2.2392 1 + 7091 12629 4492 4509 8410 8410 0.05926966359220387 FSQFLPLL 8 Unmodified _FSQFLPLL_ 0 0 0 REV__ENST00000396355.5_1_16:15818059-15818287:+|nuORF REV__ENST00000396355.5_1_16:15818059-15818287:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.77728271484375 2 482.778754 963.542954 NaN NaN NaN NaN NaN NaN NaN 50.411 1 50.672 50.172 51.172 0.26146 0 0 0 0.60351 1 23038 23038 25.399 3.6527 1 + 7092 16002 4493 4510 8411 8411 0.05972447425290284 FSQPRHISV 9 Unmodified _FSQPRHISV_ 0 0 0 nc|ENSG00000086062|P15291-2|B4GALT1;ENSG00000086062|ENST00000379731|B4GALT1 nc|ENSG00000086062|P15291-2|B4GALT1 nc|ENSG00000086062|P15291-2|B4GALT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.8646545410156 3 357.529569 1069.56688 2.6021 0.00093033 -0.15039 -5.3769E-05 2.4517 0.00087656 357.86376815840305 26.475 0.31258 26.74 26.554 26.867 0.26489 44 24 3 0 0 0 0.47677 1 12031 12031 12.873 10.029 1 346280 7093 980 4494 4511 8412 8412 0.0348768091164402 FSQPRHISV 9 Unmodified _FSQPRHISV_ 0 0 0 nc|ENSG00000086062|P15291-2|B4GALT1;ENSG00000086062|ENST00000379731|B4GALT1 nc|ENSG00000086062|P15291-2|B4GALT1 nc|ENSG00000086062|P15291-2|B4GALT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.86492919921875 3 357.529569 1069.56688 2.4117 0.00086224 0.07461 2.6675E-05 2.4863 0.00088891 357.52950916270635 26.136 0.22394 26.761 26.624 26.848 0.62505 26 15 2 0 0 0 0.84542 1 12003 12003 6.6304 4.724 1 321460 7094 980 4494 4511 8413 8413 0.0348768091164402 FSRDCYDCF 9 Unmodified _FSRDCYDCF_ 0 0 0 REV__ENST00000489010.1_1_22:30144317-30144539:-|nuORF REV__ENST00000489010.1_1_22:30144317-30144539:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.2178344726562 2 578.215334 1154.41612 3.8285 0.0022137 -0.029019 -1.6779E-05 3.7995 0.0021969 578.2154499575611 44.569 0.43793 45.219 44.933 45.371 0.64998 28 17 2 0 0 0 1.101 1 20361 20361 2.3027 0.24298 1 275830 + 7095 10820 4495 4512 8414 8414 -0.15491589853695586 FSRIVKVTSV 10 Unmodified _FSRIVKVTSV_ 0 0 0 ENST00000372706.5_1_1:40944843-40944963:+|nuORF ENST00000372706.5_1_1:40944843-40944963:+|nuORF ENST00000372706.5_1_1:40944843-40944963:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.2347412109375 3 379.232641 1134.67609 NaN NaN NaN NaN NaN NaN NaN 31.829 1 32.446 31.946 32.946 0.61736 0 0 0 0.99733 1 14596 14596 1.9064 0.1641 1 7096 7341 4496 4513 8415 8415 0.11414266811129892 FSSVLINF 8 Unmodified _FSSVLINF_ 0 0 0 REV__ENST00000320583.9_3_7:99162026-99162146:+|nuORF REV__ENST00000320583.9_3_7:99162026-99162146:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 926.5022583007812 1 926.498195 925.490919 3.6197 0.0033536 -0.25937 -0.00024031 3.3603 0.0031133 926.4983598669338 81.186 0.21342 81.434 81.314 81.527 0.24803 16 12 2 0 0 0 0.23254 2 37373 37365;37373 40.449 2.2974 1 654830 + 7097 15313 4497 4514 8416;8417 8417 0.025192840115323634 FSSVLINF 8 Unmodified _FSSVLINF_ 0 0 0 REV__ENST00000320583.9_3_7:99162026-99162146:+|nuORF REV__ENST00000320583.9_3_7:99162026-99162146:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 926.6552734375 1 926.498195 925.490919 3.6197 0.0033536 -0.25937 -0.00024031 3.3603 0.0031133 926.4983598669338 81.186 0.21342 81.434 81.314 81.527 0.24803 16 12 2 0 0 0 0.10619 1 37365 37365 26.341 1.6674 1 654830 + 7098 15313 4497 4514 8418 8418 0.025192840115323634 FSSVLINF 8 Unmodified _FSSVLINF_ 0 0 0 REV__ENST00000320583.9_3_7:99162026-99162146:+|nuORF REV__ENST00000320583.9_3_7:99162026-99162146:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 926.5035400390625 1 926.498195 925.490919 3.9408 0.0036511 0.17648 0.00016351 4.1172 0.0038146 926.4982918345363 80.613 0.23265 81.273 81.126 81.358 0.65998 20 12 2 0 0 0 0.23254 1 37128 37128 40.449 8.3316 1 596160 + 7099 15313 4497 4514 8419 8419 0.025192840115323634 FSSVLYCEI 9 Unmodified _FSSVLYCEI_ 0 0 0 ENST00000339438.10_1_1:115292566-115292629:-|nuORF ENST00000339438.10_1_1:115292566-115292629:-|nuORF ENST00000339438.10_1_1:115292566-115292629:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.7577514648438 2 530.754618 1059.49468 3.3523 0.0017792 -0.59172 -0.00031406 2.7606 0.0014652 530.7541453055218 27.693 0.5973 27.693 27.604 28.201 0 99 51 2 0 0 0 0.028312 2 12501 12456;12501 57.471 2.3249 1 1992500 7100 7056 4498 4515 8420;8421 8421 -0.03268414276931253 FSSVVPPPP 9 Unmodified _FSSVVPPPP_ 0 0 0 REV__nc|ENSG00000124587|Q13608-2|PEX6 REV__nc|ENSG00000124587|Q13608-2|PEX6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 926.5005493164062 1 926.498195 925.490919 3.6197 0.0033536 -0.25937 -0.00024031 3.3603 0.0031133 926.4983598669338 81.186 0.21342 81.434 81.314 81.527 0.24803 16 12 2 0 0 0 0.49692 1 37421 37421 12.532 0 1 654830 + 7101 11662 4499 4516 8422 8422 0.025192840115209947 FSTEWKAKFF 10 Unmodified _FSTEWKAKFF_ 0 0 0 REV__ENST00000556730.1_1_14:95047745-95056676:+|nuORF REV__ENST00000556730.1_1_14:95047745-95056676:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.8895568847656 3 430.888763 1289.64446 NaN NaN NaN NaN NaN NaN NaN 31.862 1 32.479 31.979 32.979 0.61737 0 0 0 0.99837 1 14612 14612 3.0723 0 1 + + 7102 17328 4500 4517 8423 8423 0.011222740571611212 FSVKKHAPL 9 Unmodified _FSVKKHAPL_ 0 0 0 REV__ENST00000508449.1_1_10:61842291-61844452:-|nuORF REV__ENST00000508449.1_1_10:61842291-61844452:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8106689453125 2 513.808377 1025.6022 NaN NaN NaN NaN NaN NaN NaN 49.651 1 50.308 49.808 50.808 0.65735 0 0 0 0.82031 1 22711 22711 8.5933 2.8329 1 + 7103 16953 4501 4518 8424 8424 0.0904234343945518 FSWEYAMMY 9 Unmodified _FSWEYAMMY_ 0 0 0 ENSG00000101464|ENST00000217446|PIGU;nc|ENSG00000101464|Q9H490-2|PIGU;ENST00000480175.1_1_20:33167126-33176390:-|nuORF ENSG00000101464|ENST00000217446|PIGU ENSG00000101464|ENST00000217446|PIGU MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.2487182617188 2 614.246103 1226.47765 NaN NaN NaN NaN NaN NaN NaN 20.458 1 20.458 19.958 20.958 0 0 0 0 0.90611 1 9148 9148 2.0598 0 1 7104 1298 4502 4519 8425 8425 -0.12652658154388519 FSWFWFRLYWF 11 Unmodified _FSWFWFRLYWF_ 0 0 0 nc|ENSG00000223802|P27544-2|CERS1;ENSG00000223802|ENST00000623882|CERS1 nc|ENSG00000223802|P27544-2|CERS1 nc|ENSG00000223802|P27544-2|CERS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 842.912109375 2 842.908622 1683.80269 NaN NaN NaN NaN NaN NaN NaN 91.336 1 91.411 90.911 91.911 0.075279 0 0 0 1.0082 1 47307 47307 0 0 1 7105 6162 4503 4520 8426 8426 -0.011858069637355584 FSYEEIAFAH 10 Unmodified _FSYEEIAFAH_ 0 0 0 REV__nc|ENSG00000154265|Q8WWZ7-3|ABCA5 REV__nc|ENSG00000154265|Q8WWZ7-3|ABCA5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.2743225097656 3 405.188989 1212.54514 2.9415 0.0011919 1.7829 0.00072242 4.7244 0.0019143 405.5242334288434 35.223 0.42028 35.478 35.357 35.777 0.25524 26 16 2 0 0 0 0.12676 1 16051 16051 0.15932 0 1 2108800 + 7106 12704 4504 4521 8427 8427 -0.05263168627561754 FSYGPEKI 8 Unmodified _FSYGPEKI_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1;nc|ENSG00000079308|Q9HBL0-2|TNS1;ENST00000479185.1_1_2:218746916-218750490:-|nuORF nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.74542236328125 2 470.742368 939.470183 NaN NaN NaN NaN NaN NaN NaN 42.929 1 43.576 43.076 44.076 0.64693 0 0 0 0.60351 1 19672 19672 25.399 8.457 1 7107 892 4505 4522 8428 8428 -0.001973063681361964 FSYWHQYTQRE 11 Unmodified _FSYWHQYTQRE_ 0 0 0 nc|ENSG00000163803|Q6P1J6-5|PLB1;nc|ENSG00000163803|Q6P1J6-3|PLB1;ENSG00000163803|ENST00000327757|PLB1 nc|ENSG00000163803|Q6P1J6-5|PLB1 nc|ENSG00000163803|Q6P1J6-5|PLB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.4359741210938 3 515.568752 1543.68443 NaN NaN NaN NaN NaN NaN NaN 85.64 1 85.64 85.14 86.14 0 0 0 0 1.008 1 43669 43669 0.094841 0 1 7108 4251 4506 4523 8429 8429 -0.06566831010218266 FTDPFNRCG 9 Unmodified _FTDPFNRCG_ 0 0 0 REV__ENST00000483208.5_2_15:42646603-42694336:+|nuORF REV__ENST00000483208.5_2_15:42646603-42694336:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.8257751464844 3 352.823765 1055.44946 NaN NaN NaN NaN NaN NaN NaN 83.94 1 84.188 83.688 84.688 0.24722 0 0 0 0.59707 1 38636 38636 10.8 0 1 + 7109 10744 4507 4524 8430 8430 -0.07604220019447894 FTEKTEFAL 9 Unmodified _FTEKTEFAL_ 0 0 0 nc|ENSG00000173611|Q8N9R8-2|SCAI nc|ENSG00000173611|Q8N9R8-2|SCAI nc|ENSG00000173611|Q8N9R8-2|SCAI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.2850341796875 2 543.279315 1084.54408 3.4902 0.0018962 3.3714 0.0018316 6.8616 0.0037278 543.2812060477111 56.091 0.51744 56.759 56.368 56.886 0.66829 47 25 2 0 0 0 0.043585 1 25610 25610 49.933 2.1843 1 1204900 7110 9755 4508 4525 8431 8431 0.005186170035130999 FTELWGPFTC 10 Unmodified _FTELWGPFTC_ 0 0 0 MRPL14|p.G6E|1|0.31|ENSG00000180992|chr6:44116595-44116595|C/T|missense_variant MRPL14|p.G6E|1|0.31|ENSG00000180992|chr6:44116595-44116595|C/T|missense_variant MRPL14|p.G6E|1|0.31|ENSG00000180992|chr6:44116595-44116595|C/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 400.85247802734375 3 400.85132 1199.53213 2.5394 0.0010179 -0.87354 -0.00035016 1.6659 0.00066778 401.18532069319133 43.305 0.2545 44.12 44.082 44.336 0.81444 31 15 3 0 0 0 0.74998 1 19721 19721 6.1918 0.66855 1 1086000 7111 9524 4509 4526 8432 8432 -0.059653230112871825 FTKKKATV 8 Unmodified _FTKKKATV_ 0 0 0 REV__ENST00000488567.5_1_2:242028765-242034027:-|nuORF REV__ENST00000488567.5_1_2:242028765-242034027:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 308.19683837890625 3 308.195527 921.564752 NaN NaN NaN NaN NaN NaN NaN 38.674 1 38.674 38.174 39.174 0 0 0 0 0.99035 1 17553 17553 1.6526 0.58116 1 + 7112 16442 4510 4527 8433 8433 0.10083252173842538 FTKVKPLL 8 Unmodified _FTKVKPLL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000105357|Q7Z406|MYH14;nc|ENSG00000105357|Q7Z406-6|MYH14;ENSG00000105357|ENST00000642316|MYH14;nc|ENSG00000105357|Q7Z406-5|MYH14;nc|ENSG00000133026|P35580|MYH10;nc|ENSG00000133026|P35580-5|MYH10;nc|ENSG00000133026|P35580-2|MYH10;nc|ENSG00000133026|P35580-3|MYH10;ENSG00000133026|ENST00000360416|MYH10 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000133026|P35580|MYH10 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.3111877441406 2 473.310221 944.605889 2.9108 0.0013777 0.16567 7.8413E-05 3.0765 0.0014561 473.3102174196344 37.03 0.32794 37.03 36.84 37.168 0 30 12 3 0 0 0 0.036418 2 16774 16774;16835 82.529 51.893 1 1014900 7113 1207;2759;1487;2742 4511 4528 8434;8435 8434 0.1313701321331564 FTKVKPLL 8 Unmodified _FTKVKPLL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000105357|Q7Z406|MYH14;nc|ENSG00000105357|Q7Z406-6|MYH14;ENSG00000105357|ENST00000642316|MYH14;nc|ENSG00000105357|Q7Z406-5|MYH14;nc|ENSG00000133026|P35580|MYH10;nc|ENSG00000133026|P35580-5|MYH10;nc|ENSG00000133026|P35580-2|MYH10;nc|ENSG00000133026|P35580-3|MYH10;ENSG00000133026|ENST00000360416|MYH10 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000133026|P35580|MYH10 ENSG00000100345|ENST00000216181|MYH9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 315.8764953613281 3 315.875906 944.605889 NaN NaN NaN NaN NaN NaN NaN 35.987 1 36.778 36.278 37.278 0.79131 0 0 0 0.41142 1 16311 16311 31.268 7.2478 1 7114 1207;2759;1487;2742 4511 4528 8436 8436 0.1313701321331564 FTKVKPLL 8 Unmodified _FTKVKPLL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000105357|Q7Z406|MYH14;nc|ENSG00000105357|Q7Z406-6|MYH14;ENSG00000105357|ENST00000642316|MYH14;nc|ENSG00000105357|Q7Z406-5|MYH14;nc|ENSG00000133026|P35580|MYH10;nc|ENSG00000133026|P35580-5|MYH10;nc|ENSG00000133026|P35580-2|MYH10;nc|ENSG00000133026|P35580-3|MYH10;ENSG00000133026|ENST00000360416|MYH10 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000133026|P35580|MYH10 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.3113098144531 2 473.310221 944.605889 3.0198 0.0014293 -0.056264 -2.663E-05 2.9636 0.0014027 473.31014360364134 36.776 0.42045 37.034 36.797 37.217 0.25768 40 14 4 0 0 0 0.017087 2 16707 16707;16768 103.35 48.58 1 5593700 7115 1207;2759;1487;2742 4511 4528 8437;8438 8437 0.1313701321331564 FTKVKPLL 8 Unmodified _FTKVKPLL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000105357|Q7Z406|MYH14;nc|ENSG00000105357|Q7Z406-6|MYH14;ENSG00000105357|ENST00000642316|MYH14;nc|ENSG00000105357|Q7Z406-5|MYH14;nc|ENSG00000133026|P35580|MYH10;nc|ENSG00000133026|P35580-5|MYH10;nc|ENSG00000133026|P35580-2|MYH10;nc|ENSG00000133026|P35580-3|MYH10;ENSG00000133026|ENST00000360416|MYH10 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000133026|P35580|MYH10 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 315.8765869140625 3 315.875906 944.605889 2.351 0.00074264 0.70435 0.00022249 3.0554 0.00096512 315.8758876266386 36.777 1.3708 37.035 36.719 38.09 0.25768 62 45 2 0 0 0 0.19267 2 16713 16713;16766 43.772 14.691 1 10691000 7116 1207;2759;1487;2742 4511 4528 8439;8440 8439 0.1313701321331564 FTKVKPLL 8 Unmodified _FTKVKPLL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000105357|Q7Z406|MYH14;nc|ENSG00000105357|Q7Z406-6|MYH14;ENSG00000105357|ENST00000642316|MYH14;nc|ENSG00000105357|Q7Z406-5|MYH14;nc|ENSG00000133026|P35580|MYH10;nc|ENSG00000133026|P35580-5|MYH10;nc|ENSG00000133026|P35580-2|MYH10;nc|ENSG00000133026|P35580-3|MYH10;ENSG00000133026|ENST00000360416|MYH10 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000133026|P35580|MYH10 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 315.8765869140625 3 315.875906 944.605889 2.2355 0.00070614 1.0256 0.00032397 3.2611 0.0010301 315.87596557980794 36.12 1.3652 36.746 36.52 37.885 0.62631 66 52 2 0 0 0 0.19267 2 16513 16513;16572 43.772 13.136 1 8120900 7117 1207;2759;1487;2742 4511 4528 8441;8442 8441 0.1313701321331564 FTKVKPLL 8 Unmodified _FTKVKPLL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000105357|Q7Z406|MYH14;nc|ENSG00000105357|Q7Z406-6|MYH14;ENSG00000105357|ENST00000642316|MYH14;nc|ENSG00000105357|Q7Z406-5|MYH14;nc|ENSG00000133026|P35580|MYH10;nc|ENSG00000133026|P35580-5|MYH10;nc|ENSG00000133026|P35580-2|MYH10;nc|ENSG00000133026|P35580-3|MYH10;ENSG00000133026|ENST00000360416|MYH10 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000133026|P35580|MYH10 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.31158447265625 2 473.310221 944.605889 3.1237 0.0014785 0.020803 9.8462E-06 3.1445 0.0014883 473.3101686674433 36.116 0.34665 36.742 36.567 36.913 0.62631 32 10 4 0 0 0 0.0089887 2 16529 16529;16583 126.57 62.33 1 5271700 7118 1207;2759;1487;2742 4511 4528 8443;8444 8443 0.1313701321331564 FTKVKPLL 8 Unmodified _FTKVKPLL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000105357|Q7Z406|MYH14;nc|ENSG00000105357|Q7Z406-6|MYH14;ENSG00000105357|ENST00000642316|MYH14;nc|ENSG00000105357|Q7Z406-5|MYH14;nc|ENSG00000133026|P35580|MYH10;nc|ENSG00000133026|P35580-5|MYH10;nc|ENSG00000133026|P35580-2|MYH10;nc|ENSG00000133026|P35580-3|MYH10;ENSG00000133026|ENST00000360416|MYH10 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000133026|P35580|MYH10 ENSG00000100345|ENST00000216181|MYH9 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 473.310221 944.605889 2.9908 0.0014156 -0.21605 -0.00010226 2.7748 0.0013133 473.3101526757047 36.009 0.26485 36.8 36.66 36.925 0.79131 -0.10155 -0.00018116 NaN 126.57 20 9 3 NaN NaN NaN NaN 0 NaN NaN 0 1144000 7119 1207;2759;1487;2742 4511 4528 0.1313701321331564 FTLKKNIM 8 Unmodified _FTLKKNIM_ 0 0 0 ENST00000435989.6_1_19:58385349-58385952:-|nuORF ENST00000435989.6_1_19:58385349-58385952:-|nuORF ENST00000435989.6_1_19:58385349-58385952:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 332.19769287109375 3 332.196651 993.568123 2.7146 0.00090178 -0.50467 -0.00016765 2.2099 0.00073413 332.196566968602 32.255 0.31355 32.51 32.335 32.649 0.25452 62 24 3 0 0 0 0.33696 1 14669 14669 32.786 0.4802 1 3107900 7120 7893 4512 4529 8445 8445 0.07108178956195843 FTLKKNIM 8 Unmodified _FTLKKNIM_ 0 0 0 ENST00000435989.6_1_19:58385349-58385952:-|nuORF ENST00000435989.6_1_19:58385349-58385952:-|nuORF ENST00000435989.6_1_19:58385349-58385952:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 332.196651 993.568123 2.3359 0.00077599 -0.011575 -3.8453E-06 2.3244 0.00077215 332.19656683755954 32.307 0.21735 32.307 32.198 32.415 0 -0.062369 0.00018679 NaN 32.786 29 20 2 NaN NaN NaN NaN 0 NaN NaN 0 512650 7121 7893 4512 4529 0.07108178956195843 FTPHVMRFCKL 11 Unmodified _FTPHVMRFCKL_ 0 0 0 REV__nc|ENSG00000148187|Q96E11-5|MRRF REV__nc|ENSG00000148187|Q96E11-5|MRRF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 689.8601684570312 2 689.85976 1377.70497 4.0686 0.0028067 -1.5153 -0.0010454 2.5532 0.0017614 689.8587105214597 48.904 0.28049 49.559 49.432 49.713 0.65525 26 10 4 0 0 0 0.77056 1 22432 22432 8.1555 3.6267 1 1863500 + 7122 12524 4513 4530 8446 8446 0.031223448442688095 FTPRQHYKRY 10 Unmodified _FTPRQHYKRY_ 0 0 0 REV__FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant REV__FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.9156799316406 3 465.914194 1394.72075 NaN NaN NaN NaN NaN NaN NaN 65.496 1 66.153 65.653 66.653 0.65672 0 0 0 1.0003 1 30026 30026 0.62683 0 1 + 7123 12059 4514 4531 8447 8447 0.039180906771662194 FTPVRFKNFQL 11 Unmodified _FTPVRFKNFQL_ 0 0 0 REV__ENSG00000109576|ENST00000337664|AADAT REV__ENSG00000109576|ENST00000337664|AADAT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 698.8533935546875 2 698.890429 1395.76631 NaN NaN NaN NaN NaN NaN NaN 97.655 1 97.944 97.444 98.444 0.28923 0 0 0 1.0063 1 44876 44876 2.4985 0.21571 1 + 7124 11172 4515 4532 8448 8448 0.08425316139573624 FTQLNALQRHR 11 Unmodified _FTQLNALQRHR_ 0 0 0 nc|ENSG00000125812|Q9H116-4|GZF1;ENSG00000125812|ENST00000338121|GZF1 nc|ENSG00000125812|Q9H116-4|GZF1 nc|ENSG00000125812|Q9H116-4|GZF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 692.3821411132812 2 692.383834 1382.75312 NaN NaN NaN NaN NaN NaN NaN 37.552 1 37.552 37.052 38.052 0 0 0 0 1.0074 1 17041 17041 1.0715 0.67075 1 7125 2422 4516 4533 8449 8449 0.07704878080153321 FTWRKRNYRRL 11 Unmodified _FTWRKRNYRRL_ 0 0 0 REV__ENST00000443361.1_1_9:108287470-108288637:+|nuORF REV__ENST00000443361.1_1_9:108287470-108288637:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 798.4555053710938 2 798.455125 1594.8957 NaN NaN NaN NaN NaN NaN NaN 106.33 1 106.65 106.15 107.15 0.31628 0 0 0 1.0082 1 49072 49072 0 0 1 + 7126 16362 4517 4534 8450 8450 0.122045105422103 FVACQHSK 8 Unmodified _FVACQHSK_ 0 0 0 REV__L1PA3_dup8093|chr11:58696286-58700694:-|8.889446604907338|0.3518458624306171|4.66|529.0|89|3|sense REV__L1PA3_dup8093|chr11:58696286-58700694:-|8.889446604907338|0.3518458624306171|4.66|529.0|89|3|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 919.3150024414062 1 919.445448 918.438172 3.313 0.0030462 -2.2532 -0.0020717 1.0598 0.00097442 919.4444572765608 89.51 0.064911 89.51 89.451 89.516 0 11 8 2 0 0 0 0.12327 1 46720 46720 0.52476 0 1 20254000 + 7127 17785 4518 4535 8451 8451 -0.024309973229378556 FVAEYEPVL 9 Unmodified _FVAEYEPVL_ 0 0 0 ENSG00000197746|ENST00000394936|PSAP;nc|ENSG00000197746|P07602-2|PSAP;nc|ENSG00000197746|P07602-3|PSAP ENSG00000197746|ENST00000394936|PSAP ENSG00000197746|ENST00000394936|PSAP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.7779541015625 2 533.776408 1065.53826 NaN NaN NaN NaN NaN NaN NaN 72.394 1 72.653 72.153 73.153 0.25876 0 0 0 0.56337 1 33233 33233 16.942 6.7589 1 7128 5839 4519 4536 8452 8452 0.008115184918551677 FVARVMHCYF 10 Unmodified _FVARVMHCYF_ 0 0 0 REV__ENST00000374500.9_1_6:33385885-33386053:-|nuORF REV__ENST00000374500.9_1_6:33385885-33386053:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 636.7201538085938 2 636.804454 1271.59435 NaN NaN NaN NaN NaN NaN NaN 82.379 1 82.379 81.879 82.879 0 0 0 0 0.99733 1 41222 41222 3.9444 0.3479 1 + 7129 15787 4520 4537 8453 8453 -0.03057875143963429 FVAYRLIF 8 Unmodified _FVAYRLIF_ 0 0 0 ENST00000374994.8_2_9:101912450-101912660:+|nuORF ENST00000374994.8_2_9:101912450-101912660:+|nuORF ENST00000374994.8_2_9:101912450-101912660:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.799560546875 2 514.80002 1027.58549 NaN NaN NaN NaN NaN NaN NaN 83.545 1 83.59 83.09 84.09 0.045006 0 0 0 0.99035 1 41484 41484 6.3541 0.62225 1 7130 7388 4521 4538 8454 8454 0.07279842553521121 FVCWWRYWWHY 11 Unmodified _FVCWWRYWWHY_ 0 0 0 ENST00000410111.7_1_2:86406577-86422494:-|nuORF ENST00000410111.7_1_2:86406577-86422494:-|nuORF ENST00000410111.7_1_2:86406577-86422494:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 866.388916015625 2 866.387531 1730.76051 NaN NaN NaN NaN NaN NaN NaN 76.495 1 77.119 76.619 77.619 0.62397 0 0 0 1.0082 1 37081 37081 0 0 1 7131 7669 4522 4539 8455 8455 -0.07564105643768926 FVDEHEPSM 9 Unmodified _FVDEHEPSM_ 0 0 0 ENSG00000165030|ENST00000297689|NFIL3 ENSG00000165030|ENST00000297689|NFIL3 ENSG00000165030|ENST00000297689|NFIL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.7313842773438 2 545.729132 1089.44371 3.7867 0.0020665 0.062122 3.3902E-05 3.8488 0.0021004 545.7293267693145 31.695 0.60888 31.695 31.484 32.093 0 127 58 3 0 0 0 0.0013631 5 14300 14300;14348;14398;14419;14449 115.69 85.467 1 1643100 7132 4365 4523 4540 8456;8457;8458;8459;8460 8456 -0.09743363321786092 FVDEHEPSM 9 Unmodified _FVDEHEPSM_ 0 0 0 ENSG00000165030|ENST00000297689|NFIL3 ENSG00000165030|ENST00000297689|NFIL3 ENSG00000165030|ENST00000297689|NFIL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.7312622070312 2 545.729132 1089.44371 3.288 0.0017943 0.11283 6.1573E-05 3.4008 0.0018559 545.7293709348871 30.825 0.55953 31.614 31.392 31.951 0.78879 101 42 3 0 0 0 0.0020408 4 13897 13848;13897;13947;14023 103.75 69.646 1 2011200 7133 4365 4523 4540 8461;8462;8463;8464 8462 -0.09743363321786092 FVDEHEPSM 9 Unmodified _FVDEHEPSM_ 0 0 0 ENSG00000165030|ENST00000297689|NFIL3 ENSG00000165030|ENST00000297689|NFIL3 ENSG00000165030|ENST00000297689|NFIL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.731201171875 2 545.729132 1089.44371 3.9995 0.0021827 -0.095757 -5.2258E-05 3.9038 0.0021304 545.7292613737003 31.536 0.75626 31.792 31.53 32.286 0.25614 153 55 4 0 0 0 0.0028306 6 14332 14290;14332;14379;14420;14467;14515 96.285 69.343 1 1611500 7134 4365 4523 4540 8465;8466;8467;8468;8469;8470 8466 -0.09743363321786092 FVDEHEPSM 9 Unmodified _FVDEHEPSM_ 0 0 0 ENSG00000165030|ENST00000297689|NFIL3 ENSG00000165030|ENST00000297689|NFIL3 ENSG00000165030|ENST00000297689|NFIL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.7315673828125 2 545.729132 1089.44371 3.5304 0.0019266 0.3266 0.00017824 3.857 0.0021049 545.7293880850664 31.082 0.58549 31.699 31.435 32.021 0.61737 105 37 4 0 0 0 0.0046538 4 14277 14178;14224;14277;14325 92.491 65.608 1 2017700 7135 4365 4523 4540 8471;8472;8473;8474 8473 -0.09743363321786092 FVDETWQQL 9 Unmodified _FVDETWQQL_ 0 0 0 ENSG00000132669|ENST00000255006|RIN2;nc|ENSG00000132669|Q8WYP3-2|RIN2 ENSG00000132669|ENST00000255006|RIN2 ENSG00000132669|ENST00000255006|RIN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.2828369140625 2 583.279846 1164.54514 3.3778 0.0019702 0.27075 0.00015792 3.6486 0.0021281 583.2798198069705 68.724 0.23006 69.383 69.205 69.435 0.65924 27 17 2 0 0 0 0.11001 1 31469 31469 30.225 18.585 1 452070 7136 2718 4524 4541 8475 8475 -0.03055168627565763 FVDPAQITM 9 Unmodified _FVDPAQITM_ 0 0 0 ENSG00000167325|ENST00000300738|RRM1 ENSG00000167325|ENST00000300738|RRM1 ENSG00000167325|ENST00000300738|RRM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 511.2568054199219 2 511.254785 1020.49502 3.4363 0.0017568 -0.54772 -0.00028002 2.8886 0.0014768 511.2544564973313 69.655 0.52578 69.909 69.708 70.233 0.25443 68 34 3 0 0 0 0.086415 3 31875 31830;31875;31922 36.127 19.185 1 1048000 7137 4544 4525 4542 8476;8477;8478 8477 -0.014409945570719174 FVDPAQITM 9 Unmodified _FVDPAQITM_ 0 0 0 ENSG00000167325|ENST00000300738|RRM1 ENSG00000167325|ENST00000300738|RRM1 ENSG00000167325|ENST00000300738|RRM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 511.2558288574219 2 511.254785 1020.49502 3.1028 0.0015863 -0.669 -0.00034203 2.4338 0.0012443 511.2543799833301 69.161 0.447 69.822 69.618 70.065 0.66072 69 31 3 0 0 0 0.11458 2 31684 31684;31748 29.082 15.574 1 1193000 7138 4544 4525 4542 8479;8480 8479 -0.014409945570719174 FVDPNGKISL 10 Unmodified _FVDPNGKISL_ 0 0 0 nc|ENSG00000107862|Q92538-3|GBF1;nc|ENSG00000107862|Q92538-2|GBF1;nc|ENSG00000107862|Q92538-1|GBF1;ENSG00000107862|ENST00000369983|GBF1 nc|ENSG00000107862|Q92538-3|GBF1 nc|ENSG00000107862|Q92538-3|GBF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.3018798828125 2 545.300581 1088.58661 2.7965 0.0015249 0.48843 0.00026634 3.2849 0.0017913 545.3008358255331 52.335 0.44707 53.145 52.834 53.281 0.81065 69 30 4 0 0 0 0.019824 1 23846 23846 73.196 31.357 1 2606000 7139 1611 4526 4543 8481 8481 0.045860121317673475 FVDPNGKISL 10 Unmodified _FVDPNGKISL_ 0 0 0 nc|ENSG00000107862|Q92538-3|GBF1;nc|ENSG00000107862|Q92538-2|GBF1;nc|ENSG00000107862|Q92538-1|GBF1;ENSG00000107862|ENST00000369983|GBF1 nc|ENSG00000107862|Q92538-3|GBF1 nc|ENSG00000107862|Q92538-3|GBF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3026123046875 2 545.300581 1088.58661 3.63 0.0019794 -0.31905 -0.00017398 3.3109 0.0018054 545.3004101692305 52.968 0.33314 53.231 53.077 53.41 0.26345 66 23 4 0 0 0 0.0010781 2 24240 24192;24240 104.48 41.912 1 5758200 7140 1611 4526 4543 8482;8483 8483 0.045860121317673475 FVDPNGKISL 10 Unmodified _FVDPNGKISL_ 0 0 0 nc|ENSG00000107862|Q92538-3|GBF1;nc|ENSG00000107862|Q92538-2|GBF1;nc|ENSG00000107862|Q92538-1|GBF1;ENSG00000107862|ENST00000369983|GBF1 nc|ENSG00000107862|Q92538-3|GBF1 nc|ENSG00000107862|Q92538-3|GBF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.302490234375 2 545.300581 1088.58661 3.3325 0.0018172 -0.035029 -1.9101E-05 3.2975 0.0017981 545.3005045815261 52.599 0.35809 53.26 53.026 53.384 0.66198 42 18 3 0 0 0 0.0123 3 24051 23998;24051;24098 88.364 25.791 1 5982000 7141 1611 4526 4543 8484;8485;8486 8485 0.045860121317673475 FVDPNGKISL 10 Unmodified _FVDPNGKISL_ 0 0 0 nc|ENSG00000107862|Q92538-3|GBF1;nc|ENSG00000107862|Q92538-2|GBF1;nc|ENSG00000107862|Q92538-1|GBF1;ENSG00000107862|ENST00000369983|GBF1 nc|ENSG00000107862|Q92538-3|GBF1 nc|ENSG00000107862|Q92538-3|GBF1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 545.300581 1088.58661 3.8356 0.0020915 -0.22847 -0.00012458 3.6071 0.001967 545.30060135887 53.339 0.33436 53.339 53.112 53.446 0 0.095069 -0.00019378 NaN 104.48 49 22 3 NaN NaN NaN NaN 0 NaN NaN 0 2429600 7142 1611 4526 4543 0.045860121317673475 FVDPSQDHAL 10 Unmodified _FVDPSQDHAL_ 0 0 0 nc|ENSG00000130396|P55196-6|AFDN;nc|ENSG00000130396|P55196|AFDN;ENSG00000130396|ENST00000683244|AFDN;nc|ENSG00000130396|P55196-5|AFDN;nc|ENSG00000130396|P55196-2|AFDN;nc|ENSG00000130396|P55196-3|AFDN;nc|ENSG00000130396|P55196-1|AFDN nc|ENSG00000130396|P55196-6|AFDN nc|ENSG00000130396|P55196-6|AFDN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.7734375 2 564.769645 1127.52474 3.4381 0.0019417 0.9632 0.00054398 4.4013 0.0024857 564.7705277481598 39.383 0.18941 39.383 39.276 39.465 0 12 6 2 0 0 0 0.16398 1 17862 17862 43.772 25.626 1 295320 7143 2593 4527 4544 8487 8487 -0.03392339287370305 FVDPSQDHAL 10 Unmodified _FVDPSQDHAL_ 0 0 0 nc|ENSG00000130396|P55196-6|AFDN;nc|ENSG00000130396|P55196|AFDN;ENSG00000130396|ENST00000683244|AFDN;nc|ENSG00000130396|P55196-5|AFDN;nc|ENSG00000130396|P55196-2|AFDN;nc|ENSG00000130396|P55196-3|AFDN;nc|ENSG00000130396|P55196-1|AFDN nc|ENSG00000130396|P55196-6|AFDN nc|ENSG00000130396|P55196-6|AFDN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.7720947265625 2 564.769645 1127.52474 3.4291 0.0019367 -0.12094 -6.8304E-05 3.3082 0.0018683 564.7697752130351 38.341 0.26196 39.138 38.937 39.199 0.79663 16 10 2 0 0 0 0.13656 1 17358 17358 47.594 16.958 1 346650 7144 2593 4527 4544 8488 8488 -0.03392339287370305 FVDPSQDHAL 10 Unmodified _FVDPSQDHAL_ 0 0 0 nc|ENSG00000130396|P55196-6|AFDN;nc|ENSG00000130396|P55196|AFDN;ENSG00000130396|ENST00000683244|AFDN;nc|ENSG00000130396|P55196-5|AFDN;nc|ENSG00000130396|P55196-2|AFDN;nc|ENSG00000130396|P55196-3|AFDN;nc|ENSG00000130396|P55196-1|AFDN nc|ENSG00000130396|P55196-6|AFDN nc|ENSG00000130396|P55196-6|AFDN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.772216796875 2 564.769645 1127.52474 3.4888 0.0019704 0.52803 0.00029822 4.0168 0.0022686 564.7699215626337 39.107 0.32705 39.371 39.279 39.606 0.26408 27 12 3 0 0 0 0.079821 2 17799 17799;17855 55.503 31.482 1 618600 7145 2593 4527 4544 8489;8490 8489 -0.03392339287370305 FVDPSQDHAL 10 Unmodified _FVDPSQDHAL_ 0 0 0 nc|ENSG00000130396|P55196-6|AFDN;nc|ENSG00000130396|P55196|AFDN;ENSG00000130396|ENST00000683244|AFDN;nc|ENSG00000130396|P55196-5|AFDN;nc|ENSG00000130396|P55196-2|AFDN;nc|ENSG00000130396|P55196-3|AFDN;nc|ENSG00000130396|P55196-1|AFDN nc|ENSG00000130396|P55196-6|AFDN nc|ENSG00000130396|P55196-6|AFDN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.7718505859375 2 564.769645 1127.52474 3.5499 0.0020049 -0.23303 -0.00013161 3.3168 0.0018733 564.7698266642271 38.764 0.34052 39.402 39.218 39.559 0.63778 26 12 3 0 0 0 0.13656 2 17745 17699;17745 47.594 16.958 1 598720 7146 2593 4527 4544 8491;8492 8492 -0.03392339287370305 FVDQCYQLL 9 Unmodified _FVDQCYQLL_ 0 0 0 ENSG00000175105|ENST00000636215|ZNF654;ENST00000473136.4_2_3:88108451-88184391:+|nuORF;ZNF654|p.N73Efs*5|1|0.06|ENSG00000175105|chr3:88139526-88139527|-/GAAC|frameshift_variant ENSG00000175105|ENST00000636215|ZNF654 ENSG00000175105|ENST00000636215|ZNF654 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.772216796875 2 564.773342 1127.53213 NaN NaN NaN NaN NaN NaN NaN 39.503 1 39.503 39.003 40.003 0 0 0 0 0.75166 1 17925 17925 10.824 0 1 7147 5014 4528 4545 8493 8493 -0.02653323011327302 FVDQCYQLL 9 Unmodified _FVDQCYQLL_ 0 0 0 ENSG00000175105|ENST00000636215|ZNF654;ENST00000473136.4_2_3:88108451-88184391:+|nuORF;ZNF654|p.N73Efs*5|1|0.06|ENSG00000175105|chr3:88139526-88139527|-/GAAC|frameshift_variant ENSG00000175105|ENST00000636215|ZNF654 ENSG00000175105|ENST00000636215|ZNF654 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.7720336914062 2 564.773342 1127.53213 NaN NaN NaN NaN NaN NaN NaN 38.953 1 39.591 39.091 40.091 0.63778 0 0 0 0.86044 1 17807 17807 7.2892 0.56607 1 7148 5014 4528 4545 8494 8494 -0.02653323011327302 FVEIKGSV 8 Unmodified _FVEIKGSV_ 0 0 0 ENST00000507425.5_1_4:16181029-16193070:-|nuORF;nc|ENSG00000169762|Q6NXT6-2|TAPT1;ENSG00000169762|ENST00000405303|TAPT1 ENST00000507425.5_1_4:16181029-16193070:-|nuORF ENST00000507425.5_1_4:16181029-16193070:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 440.2555236816406 2 439.752736 877.490919 2.9879 0.0013139 0.50731 0.00022309 3.4952 0.001537 439.7529031178528 20.224 0.14469 20.224 20.147 20.292 0 19 13 2 0 0 0 0.66653 1 9049 9049 8.5933 3.3626 1 143960 7149 4709 4529 4546 8495 8495 0.04727284011528354 FVEIKGSV 8 Unmodified _FVEIKGSV_ 0 0 0 ENST00000507425.5_1_4:16181029-16193070:-|nuORF;nc|ENSG00000169762|Q6NXT6-2|TAPT1;ENSG00000169762|ENST00000405303|TAPT1 ENST00000507425.5_1_4:16181029-16193070:-|nuORF ENST00000507425.5_1_4:16181029-16193070:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 439.752736 877.490919 3.2219 0.0014168 0.31415 0.00013815 3.536 0.001555 439.75274170573846 19.309 0.078476 19.967 19.918 19.996 0.6583 -0.12819 -0.00013609 NaN 8.5933 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 203960 7150 4709 4529 4546 0.04727284011528354 FVFEVSAQF 9 Unmodified _FVFEVSAQF_ 0 0 0 REV__nc|ENSG00000111077|Q63HR2-4|TNS2 REV__nc|ENSG00000111077|Q63HR2-4|TNS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.265869140625 2 537.26875 1072.52295 3.1573 0.0016963 0.27478 0.00014763 3.4321 0.001844 537.2687623798614 49.111 1.8441 49.938 49.089 50.933 0.82705 309 95 4 0 0 0 0.12301 1 22133 22133 28.487 1.6032 1 3693200 + 7151 17892 4530 4547 8496 8496 -0.010413483053298478 FVGRDWVF 8 Unmodified _FVGRDWVF_ 0 0 0 nc|ENSG00000170921|Q9HCD6-3|TANC2;nc|ENSG00000170921|Q9HCD6-4|TANC2;nc|ENSG00000170921|Q9HCD6|TANC2;nc|ENSG00000170921|Q9HCD6-2|TANC2;ENSG00000170921|ENST00000689528|TANC2 nc|ENSG00000170921|Q9HCD6-3|TANC2 nc|ENSG00000170921|Q9HCD6-3|TANC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.2657470703125 2 513.263802 1024.51305 NaN NaN NaN NaN NaN NaN NaN 68.517 1 68.77 68.27 69.27 0.25227 0 0 0 0.69067 1 31388 31388 22.736 1.8651 1 7152 4775 4531 4548 8497 8497 0.0017750847994193464 FVHFYRRYFWL 11 Unmodified _FVHFYRRYFWL_ 0 0 0 ENSG00000188582|ENST00000340634|PAQR9 ENSG00000188582|ENST00000340634|PAQR9 ENSG00000188582|ENST00000340634|PAQR9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 817.4281005859375 2 817.424971 1632.83539 NaN NaN NaN NaN NaN NaN NaN 75.468 1 76.132 75.632 76.632 0.6635 0 0 0 1.0079 1 36541 36541 1.3295 1.3295 1 7153 5670 4532 4549 8498 8498 0.04428400159122248 FVHPRLLS 8 Unmodified _FVHPRLLS_ 0 0 0 ENSG00000141699|ENST00000309428|RETREG3 ENSG00000141699|ENST00000309428|RETREG3 ENSG00000141699|ENST00000309428|RETREG3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.7894287109375 2 484.787444 967.560336 3.2875 0.0015938 0.91552 0.00044383 4.2031 0.0020376 484.7879286444985 37.182 0.38943 37.182 36.989 37.378 0 33 14 3 0 0 0 0.70799 1 16896 16896 5.2307 0 1 3428400 7154 3283 4533 4550 8499 8499 0.07525787750955715 FVHPRLLS 8 Unmodified _FVHPRLLS_ 0 0 0 ENSG00000141699|ENST00000309428|RETREG3 ENSG00000141699|ENST00000309428|RETREG3 ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.78900146484375 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 40.721 1 40.99 40.49 41.49 0.26904 0 0 0 0.99035 1 18528 18528 5.2307 0 1 7155 3283 4533 4550 8500 8500 0.07525787750955715 FVHPRLLS 8 Unmodified _FVHPRLLS_ 0 0 0 ENSG00000141699|ENST00000309428|RETREG3 ENSG00000141699|ENST00000309428|RETREG3 ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.78985595703125 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 58.956 1 59.215 58.715 59.715 0.2593 0 0 0 0.94507 1 27000 27000 9.3474 0 1 7156 3283 4533 4550 8501 8501 0.07525787750955715 FVHQGETEL 9 Unmodified _FVHQGETEL_ 0 0 0 ENSG00000105447|ENST00000253237|GRWD1 ENSG00000105447|ENST00000253237|GRWD1 ENSG00000105447|ENST00000253237|GRWD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.2614135742188 2 530.258914 1058.50327 3.4236 0.0018154 -0.16513 -8.7564E-05 3.2585 0.0017278 530.2590840937505 28.873 0.27947 28.873 28.775 29.054 0 61 24 3 0 0 0 0.043585 2 13016 13016;13066 49.933 23.049 1 797650 7157 1498 4534 4551 8502;8503 8502 -0.023637243160919752 FVHQGETEL 9 Unmodified _FVHQGETEL_ 0 0 0 ENSG00000105447|ENST00000253237|GRWD1 ENSG00000105447|ENST00000253237|GRWD1 ENSG00000105447|ENST00000253237|GRWD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.7615356445312 2 530.258914 1058.50327 3.1848 0.0016888 -0.93402 -0.00049527 2.2508 0.0011935 530.2587138220845 28.119 0.25915 28.905 28.716 28.976 0.78627 34 22 2 0 0 0 0.043585 1 12625 12625 49.933 28.186 1 1231900 7158 1498 4534 4551 8504 8504 -0.023637243160919752 FVHQGETEL 9 Unmodified _FVHQGETEL_ 0 0 0 ENSG00000105447|ENST00000253237|GRWD1 ENSG00000105447|ENST00000253237|GRWD1 ENSG00000105447|ENST00000253237|GRWD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.2608032226562 2 530.258914 1058.50327 3.1608 0.0016761 0.53106 0.0002816 3.6919 0.0019577 530.259293735479 28.789 0.21559 29.049 28.926 29.142 0.2602 28 18 2 0 0 0 0.0013631 1 13091 13091 115.69 54.335 1 1690100 7159 1498 4534 4551 8505 8505 -0.023637243160919752 FVHQGETEL 9 Unmodified _FVHQGETEL_ 0 0 0 ENSG00000105447|ENST00000253237|GRWD1 ENSG00000105447|ENST00000253237|GRWD1 ENSG00000105447|ENST00000253237|GRWD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.2607421875 2 530.258914 1058.50327 3.2154 0.001705 -0.11915 -6.3182E-05 3.0962 0.0016418 530.2589998066057 28.423 0.39183 29.042 28.845 29.237 0.61947 66 24 4 0 0 0 0.010018 3 13025 12980;13025;13076 81.89 35.869 1 1065300 7160 1498 4534 4551 8506;8507;8508 8507 -0.023637243160919752 FVIKKHEL 8 Unmodified _FVIKKHEL_ 0 0 0 ENST00000544802.5_1_7:72593260-72619478:+|nuORF;nc|ENSG00000263001|P78347-2|GTF2I;nc|ENSG00000263001|P78347-4|GTF2I;nc|ENSG00000263001|P78347-3|GTF2I;ENSG00000263001|ENST00000573035|GTF2I ENST00000544802.5_1_7:72593260-72619478:+|nuORF ENST00000544802.5_1_7:72593260-72619478:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 338.5439453125 3 338.542927 1012.60695 2.4518 0.00083005 0.30079 0.00010183 2.7526 0.00093188 338.54296888281743 20.54 0.36207 20.54 20.378 20.74 0 91 36 3 0 0 0 0.31901 2 9173 9128;9173 34.402 1.616 1 926470 7161 6316 4535 4552 8509;8510 8510 0.10115227582218722 FVIKKHEL 8 Unmodified _FVIKKHEL_ 0 0 0 ENST00000544802.5_1_7:72593260-72619478:+|nuORF;nc|ENSG00000263001|P78347-2|GTF2I;nc|ENSG00000263001|P78347-4|GTF2I;nc|ENSG00000263001|P78347-3|GTF2I;ENSG00000263001|ENST00000573035|GTF2I ENST00000544802.5_1_7:72593260-72619478:+|nuORF ENST00000544802.5_1_7:72593260-72619478:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.3121032714844 2 507.310752 1012.60695 3.1936 0.0016202 0.49999 0.00025365 3.6936 0.0018738 507.3107943192566 20.57 0.26271 20.57 20.437 20.7 0 38 26 2 0 0 0 0.4188 1 9187 9187 26.884 5.137 1 144700 7162 6316 4535 4552 8511 8511 0.10115227582218722 FVIKKHEL 8 Unmodified _FVIKKHEL_ 0 0 0 ENST00000544802.5_1_7:72593260-72619478:+|nuORF;nc|ENSG00000263001|P78347-2|GTF2I;nc|ENSG00000263001|P78347-4|GTF2I;nc|ENSG00000263001|P78347-3|GTF2I;ENSG00000263001|ENST00000573035|GTF2I ENST00000544802.5_1_7:72593260-72619478:+|nuORF ENST00000544802.5_1_7:72593260-72619478:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.5436096191406 3 338.542927 1012.60695 2.2981 0.00077799 -0.3322 -0.00011246 1.9659 0.00066553 338.5428220157002 19.867 0.22069 20.16 20.008 20.229 0.29239 80 35 3 0 0 0 0.037007 2 9039 8999;9039 60.074 14.374 1 6962200 7163 6316 4535 4552 8512;8513 8513 0.10115227582218722 FVIKKHEL 8 Unmodified _FVIKKHEL_ 0 0 0 ENST00000544802.5_1_7:72593260-72619478:+|nuORF;nc|ENSG00000263001|P78347-2|GTF2I;nc|ENSG00000263001|P78347-4|GTF2I;nc|ENSG00000263001|P78347-3|GTF2I;ENSG00000263001|ENST00000573035|GTF2I ENST00000544802.5_1_7:72593260-72619478:+|nuORF ENST00000544802.5_1_7:72593260-72619478:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.3122253417969 2 507.310752 1012.60695 3.1123 0.0015789 -0.29207 -0.00014817 2.8202 0.0014307 507.3105642602052 19.857 0.065033 20.149 20.116 20.181 0.29239 18 12 2 0 0 0 0.059272 1 9041 9041 62.573 26.528 1 1943200 7164 6316 4535 4552 8514 8514 0.10115227582218722 FVIKKHEL 8 Unmodified _FVIKKHEL_ 0 0 0 ENST00000544802.5_1_7:72593260-72619478:+|nuORF;nc|ENSG00000263001|P78347-2|GTF2I;nc|ENSG00000263001|P78347-4|GTF2I;nc|ENSG00000263001|P78347-3|GTF2I;ENSG00000263001|ENST00000573035|GTF2I ENST00000544802.5_1_7:72593260-72619478:+|nuORF ENST00000544802.5_1_7:72593260-72619478:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.3124084472656 2 507.310752 1012.60695 3.4481 0.0017493 -0.16075 -8.1551E-05 3.2873 0.0016677 507.3105894549497 19.496 0.21022 20.154 20.055 20.266 0.6583 40 13 4 0 0 0 0.018369 2 8835 8835;8885 88.954 56.648 1 1557900 7165 6316 4535 4552 8515;8516 8515 0.10115227582218722 FVIKKHEL 8 Unmodified _FVIKKHEL_ 0 0 0 ENST00000544802.5_1_7:72593260-72619478:+|nuORF;nc|ENSG00000263001|P78347-2|GTF2I;nc|ENSG00000263001|P78347-4|GTF2I;nc|ENSG00000263001|P78347-3|GTF2I;ENSG00000263001|ENST00000573035|GTF2I ENST00000544802.5_1_7:72593260-72619478:+|nuORF ENST00000544802.5_1_7:72593260-72619478:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.5439453125 3 338.542927 1012.60695 2.4947 0.00084455 0.11324 3.8338E-05 2.6079 0.00088289 338.54294269099216 19.492 0.27422 20.151 20.02 20.294 0.6583 56 19 4 0 0 0 0.045071 1 8871 8871 65.235 25.285 1 4426300 7166 6316 4535 4552 8517 8517 0.10115227582218722 FVKGRQAVL 9 Unmodified _FVKGRQAVL_ 0 0 0 ENSG00000204344|ENST00000685781|STK19;nc|ENSG00000204344|P49842-3|STK19;ENST00000466132.5_1_6:31939873-31948823:+|nuORF;ENST00000492583.5_1_6:31939873-31948823:+|nuORF;nc|ENSG00000204344|P49842-2|STK19;nc|ENSG00000204344|P49842-1|STK19;ENST00000473983.5_1_6:31948159-31948823:+|nuORF;ENST00000491861.5_1_6:31940339-31948823:+|nuORF;ENST00000469907.1_1_6:31940369-31948823:+|nuORF ENSG00000204344|ENST00000685781|STK19 ENSG00000204344|ENST00000685781|STK19 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 340.1875 3 339.87831 1016.6131 2.4994 0.00084949 -0.0038504 -1.3087E-06 2.4955 0.00084818 339.8784470559442 20.272 0.36117 20.925 20.743 21.104 0.65346 46 27 2 0 0 0 0.10477 1 9213 9213 9.3831 3.6513 1 188840 7167 6001 4536 4553 8518 8518 0.10545745813737994 FVKPKNTQPVA 11 Unmodified _FVKPKNTQPVA_ 0 0 0 ENSG00000049323|ENST00000404816|LTBP1;nc|ENSG00000049323|Q14766-4|LTBP1;nc|ENSG00000049323|Q14766-2|LTBP1;nc|ENSG00000049323|Q14766-5|LTBP1 ENSG00000049323|ENST00000404816|LTBP1 ENSG00000049323|ENST00000404816|LTBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 614.8584594726562 2 614.856055 1227.69756 NaN NaN NaN NaN NaN NaN NaN 89.15 1 89.202 88.702 89.702 0.052155 0 0 0 0.94958 1 45615 45615 11.495 0.6952 1 7168 576 4537 4554 8519 8519 0.09281651839842198 FVKRKVIIFL 10 Unmodified _FVKRKVIIFL_ 0 0 0 ENSG00000140471|ENST00000314742|LINS1;nc|ENSG00000140471|Q8NG48-3|LINS1;ENST00000559149.5_1_15:101113500-101121059:-|nuORF;nc|ENSG00000140471|Q8NG48-2|LINS1 ENSG00000140471|ENST00000314742|LINS1 ENSG00000140471|ENST00000314742|LINS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.61767578125 3 421.616426 1261.82745 2.9685 0.0012516 0.023324 9.8338E-06 2.9918 0.0012614 421.61647181536676 49.566 0.26514 49.827 49.698 49.963 0.26146 18 10 2 0 0 0 0.62316 1 22649 22649 16.566 10.374 1 828550 7169 3202 4538 4555 8520 8520 0.2070087290965148 FVKRKVIIFL 10 Unmodified _FVKRKVIIFL_ 0 0 0 ENSG00000140471|ENST00000314742|LINS1;nc|ENSG00000140471|Q8NG48-3|LINS1;ENST00000559149.5_1_15:101113500-101121059:-|nuORF;nc|ENSG00000140471|Q8NG48-2|LINS1 ENSG00000140471|ENST00000314742|LINS1 ENSG00000140471|ENST00000314742|LINS1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.9521179199219 3 421.616426 1261.82745 3.1117 0.0013119 -0.18132 -7.6446E-05 2.9303 0.0012355 421.95077835878465 49.025 0.24015 49.68 49.551 49.791 0.65524 15 8 2 0 0 0 0.12676 1 22466 22466 9.544 7.458 1 441110 7170 3202 4538 4555 8521 8521 0.2070087290965148 FVLKHDELSP 10 Unmodified _FVLKHDELSP_ 0 0 0 REV__ENST00000566455.1_1_16:77227993-77232202:+|nuORF REV__ENST00000566455.1_1_16:77227993-77232202:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.8835144042969 3 395.548518 1183.62372 2.7878 0.0011027 0.035311 1.3967E-05 2.8232 0.0011167 395.54853038188963 25.923 0.28098 26.549 26.419 26.7 0.62505 62 22 4 0 0 0 0.72019 1 11856 11856 7.4771 0 1 1482200 + 7171 17423 4539 4556 8522 8522 0.03925683677516645 FVLLIVINVP 10 Unmodified _FVLLIVINVP_ 0 0 0 ENST00000403096.7_1_2:3653453-3653594:+|nuORF ENST00000403096.7_1_2:3653453-3653594:+|nuORF ENST00000403096.7_1_2:3653453-3653594:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.8649291992188 2 563.86536 1125.71617 NaN NaN NaN NaN NaN NaN NaN 89.286 1 89.286 88.786 89.786 0 0 0 0 0.99687 1 46589 46589 4.3292 0 1 7172 7618 4540 4557 8523 8523 0.15833813481708603 FVLLLPYRIWR 11 Unmodified _FVLLLPYRIWR_ 0 0 0 ENSG00000178401|ENST00000549441|DNAJC22 ENSG00000178401|ENST00000549441|DNAJC22 ENSG00000178401|ENST00000549441|DNAJC22 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.63531494140625 3 492.634368 1474.88128 NaN NaN NaN NaN NaN NaN NaN 92.934 1 92.934 92.434 93.434 0 0 0 0 1.0072 1 49503 49503 0.45452 0 1 7173 5164 4541 4558 8524 8524 0.16283045341356228 FVLVSRFPTLV 11 Unmodified _FVLVSRFPTLV_ 0 0 0 REV__ENST00000489200.5_1_X:153626749-153627742:+|nuORF REV__ENST00000489200.5_1_X:153626749-153627742:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 639.2174072265625 2 639.384448 1276.75434 NaN NaN NaN NaN NaN NaN NaN 97.288 1 97.577 97.077 98.077 0.28923 0 0 0 1.0044 1 44686 44686 4.897 0.95262 1 + 7174 16788 4542 4559 8525 8525 0.12703699396365664 FVNDDRHVM 9 Unmodified _FVNDDRHVM_ 0 0 0 nc|ENSG00000129351|Q12906-5|ILF3;nc|ENSG00000129351|Q12906-4|ILF3;nc|ENSG00000129351|Q12906-2|ILF3;nc|ENSG00000129351|Q12906-6|ILF3;nc|ENSG00000129351|Q12906-3|ILF3;nc|ENSG00000129351|Q12906|ILF3;ENSG00000129351|ENST00000588657|ILF3;ENST00000587928.5_1_19:10781281-10792148:+|nuORF nc|ENSG00000129351|Q12906-5|ILF3 nc|ENSG00000129351|Q12906-5|ILF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.765869140625 2 566.76384 1131.51313 3.4959 0.0019814 0.09466 5.365E-05 3.5906 0.002035 566.7638950061541 21.841 0.26913 21.841 21.7 21.969 0 57 23 3 0 0 0 0.063112 2 9768 9768;9827 41.956 31.132 1 361020 7175 2548 4543 4560 8526;8527 8526 -0.0473685958236274 FVNDDRHVM 9 Unmodified _FVNDDRHVM_ 0 0 0 nc|ENSG00000129351|Q12906-5|ILF3;nc|ENSG00000129351|Q12906-4|ILF3;nc|ENSG00000129351|Q12906-2|ILF3;nc|ENSG00000129351|Q12906-6|ILF3;nc|ENSG00000129351|Q12906-3|ILF3;nc|ENSG00000129351|Q12906|ILF3;ENSG00000129351|ENST00000588657|ILF3;ENST00000587928.5_1_19:10781281-10792148:+|nuORF nc|ENSG00000129351|Q12906-5|ILF3 nc|ENSG00000129351|Q12906-5|ILF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.1792907714844 3 378.178319 1131.51313 2.8227 0.0010675 -0.27377 -0.00010353 2.5489 0.00096395 378.1783003236077 20.824 0.36098 21.478 21.259 21.62 0.65346 80 27 4 0 0 0 0.093314 3 9442 9402;9442;9486 38.615 33.899 1 1316800 7176 2548 4543 4560 8528;8529;8530 8529 -0.0473685958236274 FVNDDRHVM 9 Unmodified _FVNDDRHVM_ 0 0 0 nc|ENSG00000129351|Q12906-5|ILF3;nc|ENSG00000129351|Q12906-4|ILF3;nc|ENSG00000129351|Q12906-2|ILF3;nc|ENSG00000129351|Q12906-6|ILF3;nc|ENSG00000129351|Q12906-3|ILF3;nc|ENSG00000129351|Q12906|ILF3;ENSG00000129351|ENST00000588657|ILF3;ENST00000587928.5_1_19:10781281-10792148:+|nuORF nc|ENSG00000129351|Q12906-5|ILF3 nc|ENSG00000129351|Q12906-5|ILF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.765869140625 2 566.76384 1131.51313 3.7005 0.0020973 -1.0152 -0.00057538 2.6853 0.0015219 566.7633040455964 20.829 0.25815 21.483 21.34 21.598 0.65346 48 18 3 0 0 0 0.057945 1 9455 9455 43.772 32.948 1 460210 7177 2548 4543 4560 8531 8531 -0.0473685958236274 FVNDDRHVM 9 Unmodified _FVNDDRHVM_ 0 0 0 nc|ENSG00000129351|Q12906-5|ILF3;nc|ENSG00000129351|Q12906-4|ILF3;nc|ENSG00000129351|Q12906-2|ILF3;nc|ENSG00000129351|Q12906-6|ILF3;nc|ENSG00000129351|Q12906-3|ILF3;nc|ENSG00000129351|Q12906|ILF3;ENSG00000129351|ENST00000588657|ILF3;ENST00000587928.5_1_19:10781281-10792148:+|nuORF nc|ENSG00000129351|Q12906-5|ILF3 nc|ENSG00000129351|Q12906-5|ILF3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 378.178319 1131.51313 2.8762 0.0010877 -0.10366 -3.9201E-05 2.7726 0.0010485 378.1784138870605 21.838 0.34339 21.838 21.659 22.002 0 0.17997 8.7902E-05 NaN 38.615 82 28 4 NaN NaN NaN NaN 0 NaN NaN 0 1231500 7178 2548 4543 4560 -0.0473685958236274 FVNELLSLVH 10 Unmodified _FVNELLSLVH_ 0 0 0 REV__SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant REV__SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.8904724121094 3 390.888763 1169.64446 2.8646 0.0011197 1.0145 0.00039655 3.8791 0.0015163 390.8890983703943 57.088 0.52077 57.353 56.987 57.508 0.26444 60 26 3 0 0 0 0.90778 1 26077 26077 3.3196 0.47636 1 6075500 + 7179 12008 4544 4561 8532 8532 0.06642274057185205 FVNELLSLVH 10 Unmodified _FVNELLSLVH_ 0 0 0 REV__SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant REV__SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.89013671875 3 390.888763 1169.64446 2.8444 0.0011118 1.0638 0.00041584 3.9082 0.0015277 390.8891218874227 60.492 0.74876 61.154 60.778 61.527 0.66261 98 39 3 0 0 0 0.90778 1 27623 27623 3.3196 0.24738 1 1871500 + 7180 12008 4544 4561 8533 8533 0.06642274057185205 FVNNVVNEFN 10 Unmodified _FVNNVVNEFN_ 0 0 0 ENSG00000188738|ENST00000424728|FSIP2 ENSG00000188738|ENST00000424728|FSIP2 ENSG00000188738|ENST00000424728|FSIP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 598.292236328125 2 598.290745 1194.56694 NaN NaN NaN NaN NaN NaN NaN 83.154 1 83.199 82.699 83.699 0.045006 0 0 0 0.99733 1 41197 41197 3.9444 0 1 7181 5679 4545 4562 8534 8534 -0.02256363878996126 FVPLEVKMEL 10 Unmodified _FVPLEVKMEL_ 0 0 0 REV__ENST00000553968.1_1_14:80678184-80678244:-|nuORF REV__ENST00000553968.1_1_14:80678184-80678244:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 402.228271484375 3 402.226387 1203.65733 3.1592 0.0012707 0.53402 0.0002148 3.6932 0.0014855 402.2267751063579 66.366 0.1883 66.615 66.512 66.701 0.24848 16 9 2 0 0 0 0.85597 1 30430 30430 5.7834 1.0675 1 288560 + 7182 17305 4546 4563 8535 8535 0.06364969125070274 FVPLKRPQW 9 Unmodified _FVPLKRPQW_ 0 0 0 REV__FLCN|p.F417Sfs*51|1|0.32|ENSG00000154803|chr17:17216430-17216430|A/-|frameshift_variant REV__FLCN|p.F417Sfs*51|1|0.32|ENSG00000154803|chr17:17216430-17216430|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.843017578125 2 585.842751 1169.67095 NaN NaN NaN NaN NaN NaN NaN 48.821 1 49.648 49.148 50.148 0.82705 0 0 0 0.90699 1 22242 22242 1.8442 0.36234 1 + 7183 12724 4547 4564 8536 8536 0.09290007739173234 FVPVLVFVL 9 Unmodified _FVPVLVFVL_ 0 0 0 ENST00000474637.5_1_9:128108952-128125022:+|nuORF;nc|ENSG00000165219|Q14C86-3|GAPVD1;nc|ENSG00000165219|Q14C86-4|GAPVD1;nc|ENSG00000165219|Q14C86-5|GAPVD1;ENSG00000165219|ENST00000297933|GAPVD1;nc|ENSG00000165219|Q14C86|GAPVD1;nc|ENSG00000165219|Q14C86-6|GAPVD1 ENST00000474637.5_1_9:128108952-128125022:+|nuORF ENST00000474637.5_1_9:128108952-128125022:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.8286743164062 2 516.828246 1031.64194 3.4678 0.0017923 -3.5346 -0.0018268 -0.066835 -3.4542E-05 516.8260543271944 35.226 0.16691 35.849 35.767 35.934 0.62294 7 5 2 0 0 0 0.08506 1 16140 16140 36.466 8.2929 1 343230 7184 4382 4548 4565 8537 8537 0.1273847039019529 FVPVLVFVL 9 Unmodified _FVPVLVFVL_ 0 0 0 ENST00000474637.5_1_9:128108952-128125022:+|nuORF;nc|ENSG00000165219|Q14C86-3|GAPVD1;nc|ENSG00000165219|Q14C86-4|GAPVD1;nc|ENSG00000165219|Q14C86-5|GAPVD1;ENSG00000165219|ENST00000297933|GAPVD1;nc|ENSG00000165219|Q14C86|GAPVD1;nc|ENSG00000165219|Q14C86-6|GAPVD1 ENST00000474637.5_1_9:128108952-128125022:+|nuORF ENST00000474637.5_1_9:128108952-128125022:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 516.828246 1031.64194 3.4066 0.0017606 -3.8751 -0.0020028 -0.46856 -0.00024216 516.8260921601911 35.573 0.25258 35.829 35.713 35.966 0.25524 -0.010255 -3.607E-05 NaN 36.466 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 227340 7185 4382 4548 4565 0.1273847039019529 FVQNEEPLC 9 Unmodified _FVQNEEPLC_ 0 0 0 REV__ENSG00000154646|ENST00000284885|TMPRSS15 REV__ENSG00000154646|ENST00000284885|TMPRSS15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.6900634765625 2 539.747324 1077.4801 NaN NaN NaN NaN NaN NaN NaN 82.539 1 82.623 82.123 83.123 0.084106 0 0 0 0.89315 1 40773 40773 5.2307 0.47466 1 + 7186 12715 4549 4566 8538 8538 -0.05554486425057803 FVRLLALAL 9 Unmodified _FVRLLALAL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000504185.5_1_5:135364744-135380547:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.3382568359375 2 508.33677 1014.65899 3.4979 0.0017781 0.0069999 3.5583E-06 3.5049 0.0017817 508.3365747014152 87.372 0.38358 87.622 87.439 87.822 0.25065 46 17 4 0 0 0 0.021401 1 40229 40229 74.423 30.016 1 2400800 7187 2210 4550 4567 8539 8539 0.1522439099597932 FVRLLALAL 9 Unmodified _FVRLLALAL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000504185.5_1_5:135364744-135380547:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.3388366699219 2 508.33677 1014.65899 3.4611 0.0017594 -0.073922 -3.7577E-05 3.3872 0.0017218 508.3367177924712 86.789 0.35058 87.465 87.309 87.659 0.67555 36 14 3 0 0 0 0.021401 2 39963 39963;40026 64.236 19.829 1 2800800 7188 2210 4550 4567 8540;8541 8540 0.1522439099597932 FVSEEDSLQL 10 Unmodified _FVSEEDSLQL_ 0 0 0 REV__nc|ENSG00000144824|Q86SQ0-2|PHLDB2 REV__nc|ENSG00000144824|Q86SQ0-2|PHLDB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.7830810546875 2 583.782418 1165.55028 NaN NaN NaN NaN NaN NaN NaN 69.149 1 69.404 68.904 69.904 0.25443 0 0 0 0.83354 1 31676 31676 21.747 10.947 1 + 7189 12416 4551 4568 8542 8542 -0.025869095556117827 FVSTWLHELV 10 Unmodified _FVSTWLHELV_ 0 0 0 REV__ENST00000430246.6_1_14:21730999-21731299:-|nuORF REV__ENST00000430246.6_1_14:21730999-21731299:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 615.8289794921875 2 615.829506 1229.64446 NaN NaN NaN NaN NaN NaN NaN 81.094 1 81.094 80.594 81.594 0 0 0 0 0.99733 1 40367 40367 3.9444 0 1 + 7190 16251 4552 4569 8543 8543 0.03882274057173163 FVVDEVHLIGG 11 Unmodified _FVVDEVHLIGG_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF;ENST00000480242.1_1_2:96950056-96950410:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.549560546875 3 395.548518 1183.62372 3.006 0.001189 0.028045 1.1093E-05 3.0341 0.0012001 395.5484267734367 26.261 0.34877 26.526 26.372 26.721 0.26489 82 29 4 0 0 0 0.64057 1 11967 11967 14.957 6.8016 1 1417300 7191 3406 4553 4570 8544 8544 0.03925683677516645 FVVEHDFIM 9 Unmodified _FVVEHDFIM_ 0 0 0 ENST00000510321.1_1_4:146044588-146044753:+|nuORF;ENST00000515678.5_1_4:146042303-146044753:+|nuORF;ENST00000444025.1_1_7:23602199-23602811:-|nuORF;ENSG00000164163|ENST00000296577|ABCE1 ENST00000510321.1_1_4:146044588-146044753:+|nuORF ENST00000510321.1_1_4:146044588-146044753:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.2792358398438 2 568.775885 1135.53722 3.739 0.0021267 0.36416 0.00020713 4.1032 0.0023338 568.7761946253326 67.503 0.21738 67.753 67.639 67.856 0.25011 19 10 2 0 0 0 0.071101 1 30935 30935 39.957 29.883 1 594470 7192 4290 4554 4571 8545 8545 -0.02513019148705098 FVVEHDFIM 9 Unmodified _FVVEHDFIM_ 0 0 0 ENST00000510321.1_1_4:146044588-146044753:+|nuORF;ENST00000515678.5_1_4:146042303-146044753:+|nuORF;ENST00000444025.1_1_7:23602199-23602811:-|nuORF;ENSG00000164163|ENST00000296577|ABCE1 ENST00000510321.1_1_4:146044588-146044753:+|nuORF ENST00000510321.1_1_4:146044588-146044753:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.7769165039062 2 568.775885 1135.53722 3.6278 0.0020634 -0.97276 -0.00055328 2.655 0.0015101 568.7757764370106 66.847 0.24513 67.504 67.386 67.631 0.65672 28 13 3 0 0 0 0.071101 1 30660 30660 39.957 28.317 1 689930 7193 4290 4554 4571 8546 8546 -0.02513019148705098 FVVFKLIK 8 Unmodified _FVVFKLIK_ 0 0 0 REV__ENSG00000173530|ENST00000312584|TNFRSF10D REV__ENSG00000173530|ENST00000312584|TNFRSF10D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.27227783203125 2 497.328414 992.642274 NaN NaN NaN NaN NaN NaN NaN 75.532 1 76.197 75.697 76.697 0.6644 0 0 0 0.99035 1 34800 34800 0.69038 0 1 + 7194 13601 4555 4572 8547 8547 0.14565890110054625 FVVFQIGLLPV 11 Unmodified _FVVFQIGLLPV_ 0 0 0 REV__ENST00000423724.5_1_7:93055670-93072938:-|nuORF REV__ENST00000423724.5_1_7:93055670-93072938:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.2568359375 2 616.376092 1230.73763 NaN NaN NaN NaN NaN NaN NaN 87.733 1 87.773 87.273 88.273 0.039955 0 0 0 1.0034 1 44503 44503 6.2058 1.3088 1 + 7195 10170 4556 4573 8548 8548 0.13149198510404858 FVVLIKVLI 9 Unmodified _FVVLIKVLI_ 0 0 0 ENST00000344337.10_1_3:122144740-122144905:-|nuORF ENST00000344337.10_1_3:122144740-122144905:-|nuORF ENST00000344337.10_1_3:122144740-122144905:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.3640747070312 2 522.364996 1042.71544 NaN NaN NaN NaN NaN NaN NaN 97.475 1 97.475 96.975 97.975 0 0 0 0 0.91206 1 53069 53069 0.6015 0.14316 1 7196 7099 4557 4574 8549 8549 0.19579018832655493 FVVSLRKF 8 Unmodified _FVVSLRKF_ 0 0 0 REV__ENSG00000188186|ENST00000341942|LAMTOR4 REV__ENSG00000188186|ENST00000341942|LAMTOR4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.73724365234375 2 498.30547 994.596387 3.2084 0.0015988 2.6416 0.0013163 5.85 0.0029151 498.30597410148545 36.369 0.26955 36.627 36.45 36.719 0.25768 17 10 2 0 0 0 0.14021 1 16531 16531 7.9102 0 1 272260 + 7197 14137 4558 4575 8550 8550 0.09887244927813299 FVVYLKRKTLI 11 Unmodified _FVVYLKRKTLI_ 0 0 0 ENSG00000148848|ENST00000448723|ADAM12;nc|ENSG00000148848|O43184|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.72601318359375 4 345.724787 1378.87004 2.2165 0.0007663 1.0201 0.00035266 3.2366 0.001119 345.72510433292484 47.345 0.31726 47.345 47.123 47.441 0 46 16 4 0 0 0 0.91328 1 21703 21703 0.50596 0.41111 1 2596800 7198 3619 4559 4576 8551 8551 0.1957622324721342 FVVYLKRKTLI 11 Unmodified _FVVYLKRKTLI_ 0 0 0 ENSG00000148848|ENST00000448723|ADAM12;nc|ENSG00000148848|O43184|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 345.7255859375 4 345.724787 1378.87004 2.2628 0.00078229 0.99393 0.00034363 3.2567 0.0011259 345.72509858797457 44.59 0.58002 45.411 45.149 45.729 0.82075 87 28 4 0 0 0 0.91068 2 20391 20239;20391 1.3296 1.1098 1 2636800 7199 3619 4559 4576 8552;8553 8553 0.1957622324721342 FVVYLKRKTLI 11 Unmodified _FVVYLKRKTLI_ 0 0 0 ENSG00000148848|ENST00000448723|ADAM12;nc|ENSG00000148848|O43184|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.7259521484375 4 345.724787 1378.87004 2.3584 0.00081534 1.0184 0.0003521 3.3768 0.0011674 345.7251385276819 45.053 0.82317 45.321 44.764 45.587 0.26768 79 40 4 0 0 0 0.89988 2 20549 20549;20600 2.4348 1.22 1 3431500 7200 3619 4559 4576 8554;8555 8554 0.1957622324721342 FVVYLKRKTLI 11 Unmodified _FVVYLKRKTLI_ 0 0 0 ENSG00000148848|ENST00000448723|ADAM12;nc|ENSG00000148848|O43184|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 460.63238525390625 3 460.630624 1378.87004 2.8722 0.001323 0.94996 0.00043758 3.8221 0.0017606 460.6311772424351 46.412 0.18701 46.678 46.598 46.785 0.26561 11 6 2 0 0 0 0.91028 1 21221 21221 1.4551 1.0006 1 896040 7201 3619 4559 4576 8556 8556 0.1957622324721342 FVVYLKRKTLI 11 Unmodified _FVVYLKRKTLI_ 0 0 0 ENSG00000148848|ENST00000448723|ADAM12;nc|ENSG00000148848|O43184|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.9764709472656 4 345.724787 1378.87004 2.6879 0.00092928 0.76163 0.00026331 3.4496 0.0011926 345.9757477174433 46.644 0.19581 46.91 46.785 46.98 0.26561 15 6 3 0 0 0 0.91328 1 21319 21319 0.50596 0.051438 1 10907000 7202 3619 4559 4576 8557 8557 0.1957622324721342 FVVYLKRKTLI 11 Unmodified _FVVYLKRKTLI_ 0 0 0 ENSG00000148848|ENST00000448723|ADAM12;nc|ENSG00000148848|O43184|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.72589111328125 4 345.724787 1378.87004 2.5197 0.00087112 1.3197 0.00045626 3.8394 0.0013274 345.72524802378496 46.697 0.61073 47.35 46.96 47.57 0.65219 53 21 3 0 0 0 0.91068 1 21328 21328 1.3296 0.87513 1 1861400 7203 3619 4559 4576 8558 8558 0.1957622324721342 FVVYLKRKTLI 11 Unmodified _FVVYLKRKTLI_ 0 0 0 ENSG00000148848|ENST00000448723|ADAM12;nc|ENSG00000148848|O43184|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 345.724787 1378.87004 2.3482 0.00081184 1.364 0.00047156 3.7122 0.0012834 345.7252022051797 45.377 0.70904 45.377 45.226 45.935 0 0.0072095 0.00032941 NaN 2.4348 76 34 4 NaN NaN NaN NaN 0 NaN NaN 0 1746400 7204 3619 4559 4576 0.1957622324721342 FVVYLKRKTLI 11 Unmodified _FVVYLKRKTLI_ 0 0 0 ENSG00000148848|ENST00000448723|ADAM12;nc|ENSG00000148848|O43184|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 345.724787 1378.87004 2.2963 0.00079389 1.2936 0.00044725 3.59 0.0012411 345.97597584392986 45.985 0.25176 46.811 46.763 47.015 0.82621 -0.049375 0.0002957 NaN 0.50596 28 10 3 NaN NaN NaN NaN 0 NaN NaN 0 2305100 7205 3619 4559 4576 0.1957622324721342 FVVYLKRKTLI 11 Unmodified _FVVYLKRKTLI_ 0 0 0 ENSG00000148848|ENST00000448723|ADAM12;nc|ENSG00000148848|O43184|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 345.724787 1378.87004 2.6879 0.00092928 0.76163 0.00026331 3.4496 0.0011926 345.9757477174433 46.644 0.19581 46.91 46.785 46.98 0.26561 0.049375 -0.00044003 NaN 0.50596 15 6 3 NaN NaN NaN NaN 0 NaN NaN 0 10907000 7206 3619 4559 4576 0.1957622324721342 FVVYLKRKTLI 11 Unmodified _FVVYLKRKTLI_ 0 0 0 ENSG00000148848|ENST00000448723|ADAM12;nc|ENSG00000148848|O43184|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 460.630624 1378.87004 3.1953 0.0014719 0.56496 0.00026024 3.7603 0.0017321 460.63052580695154 46.058 0.4389 46.709 46.39 46.829 0.65104 0.015375 -0.00033367 NaN 1.4551 15 13 2 NaN NaN NaN NaN 0 NaN NaN 0 600730 7207 3619 4559 4576 0.1957622324721342 FVWDMCNYVVP 11 Unmodified _FVWDMCNYVVP_ 0 0 0 ENSG00000165029|ENST00000374736|ABCA1 ENSG00000165029|ENST00000374736|ABCA1 ENSG00000165029|ENST00000374736|ABCA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 686.4501953125 2 686.806859 1371.59917 NaN NaN NaN NaN NaN NaN NaN 83.841 1 83.841 83.341 84.341 0 0 0 0 1.0055 1 42313 42313 3.5965 0.60125 1 7208 4364 4560 4577 8559 8559 -0.07177035791892195 FVWETFKKLK 10 Unmodified _FVWETFKKLK_ 0 0 0 REV__nc|ENSG00000197555|O43166-3|SIPA1L1 REV__nc|ENSG00000197555|O43166-3|SIPA1L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.3816528320312 2 663.384448 1324.75434 NaN NaN NaN NaN NaN NaN NaN 63.674 1 63.922 63.422 64.422 0.24803 0 0 0 1.0001 1 29162 29162 1.6526 0.17072 1 + 7209 14287 4561 4578 8560 8560 0.10495699396346936 FVYRNARRAF 10 Unmodified _FVYRNARRAF_ 0 0 0 nc|ENSG00000101624|Q8TAP6-2|CEP76;ENST00000590143.5_1_18:12662154-12700964:-|nuORF;ENSG00000101624|ENST00000262127|CEP76 nc|ENSG00000101624|Q8TAP6-2|CEP76 nc|ENSG00000101624|Q8TAP6-2|CEP76 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 650.35595703125 2 650.357088 1298.69962 NaN NaN NaN NaN NaN NaN NaN 84.878 1 85.543 85.043 86.043 0.66566 0 0 0 0.99687 1 39092 39092 4.3292 0 1 7210 1305 4562 4579 8561 8561 0.06222125368299203 FWAAILKICL 10 Unmodified _FWAAILKICL_ 0 0 0 REV__nc|ENSG00000185101|A1A5B4-2|ANO9 REV__nc|ENSG00000185101|A1A5B4-2|ANO9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.3444213867188 2 589.343738 1176.67292 4.3992 0.0025926 -2.3847 -0.0014054 2.0145 0.0011872 589.3418103418002 103.41 0.18556 103.73 103.59 103.78 0.31863 26 14 2 0 0 0 0.94217 1 47814 47814 0.45834 0.057624 1 416690 + 7211 14005 4563 4580 8562 8562 0.09165300432778167 FWAAILKICL 10 Unmodified _FWAAILKICL_ 0 0 0 REV__nc|ENSG00000185101|A1A5B4-2|ANO9 REV__nc|ENSG00000185101|A1A5B4-2|ANO9 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 589.343738 1176.67292 4.3992 0.0025926 -2.3847 -0.0014054 2.0145 0.0011872 589.3418103418002 103.41 0.18556 103.73 103.59 103.78 0.31863 -0.10851 -0.00060949 NaN 0.45834 26 14 2 NaN NaN NaN NaN 0 NaN NaN 0 416690 + 7212 14005 4563 4580 0.09165300432778167 FWAAILKICL 10 Unmodified _FWAAILKICL_ 0 0 0 REV__nc|ENSG00000185101|A1A5B4-2|ANO9 REV__nc|ENSG00000185101|A1A5B4-2|ANO9 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 589.343738 1176.67292 3.8673 0.0022791 -1.5738 -0.00092749 2.2935 0.0013517 589.3425715603616 103.35 0.20534 103.95 103.84 104.05 0.59822 0.10851 0.00034634 NaN 0.45834 26 15 3 NaN NaN NaN NaN 0 NaN NaN 0 479320 + 7213 14005 4563 4580 0.09165300432778167 FWFFFQRHKLK 11 Unmodified _FWFFFQRHKLK_ 0 0 0 ENSG00000174567|ENST00000308302|GOLT1A ENSG00000174567|ENST00000308302|GOLT1A ENSG00000174567|ENST00000308302|GOLT1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 792.4378051757812 2 792.435338 1582.85612 NaN NaN NaN NaN NaN NaN NaN 65.372 1 65.372 64.872 65.872 0 0 0 0 1.008 1 31139 31139 0.30703 0.30703 1 7214 4985 4564 4581 8563 8563 0.08800990538770748 FWGFASASF 9 Unmodified _FWGFASASF_ 0 0 0 REV__ENST00000378026.4_3_12:106632574-106632730:-|nuORF REV__ENST00000378026.4_3_12:106632574-106632730:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.2357482910156 2 510.23471 1018.45487 3.329 0.0016986 -0.84904 -0.00043321 2.48 0.0012654 510.2344367483146 37.876 0.51069 38.137 37.889 38.4 0.26083 65 16 5 0 0 0 0.3144 1 17365 17365 15.847 1.2655 1 15840000 + 7215 15844 4565 4582 8564 8564 -0.053621731653379356 FWGFASASF 9 Unmodified _FWGFASASF_ 0 0 0 REV__ENST00000378026.4_3_12:106632574-106632730:-|nuORF REV__ENST00000378026.4_3_12:106632574-106632730:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.80853271484375 2 510.23471 1018.45487 3.3137 0.0016907 -0.7138 -0.00036421 2.5999 0.0013265 510.2344932623547 37.312 0.55492 37.942 37.653 38.208 0.62999 79 21 5 0 0 0 0.59776 1 17186 17186 10.824 1.4765 1 14217000 + 7216 15844 4565 4582 8565 8565 -0.053621731653379356 FWLFWKYP 8 Unmodified _FWLFWKYP_ 0 0 0 ENST00000484027.1_1_1:155108806-155110754:+|nuORF;ENST00000368405.7_1_1:155108359-155110754:+|nuORF;nc|ENSG00000169241|Q9BRV3-2|SLC50A1;nc|ENSG00000169241|Q9BRV3-3|SLC50A1;ENSG00000169241|ENST00000368404|SLC50A1 ENST00000484027.1_1_1:155108806-155110754:+|nuORF ENST00000484027.1_1_1:155108806-155110754:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 593.3158569335938 2 593.807845 1185.60114 4.1029 0.0024363 1.9467 0.001156 6.0496 0.0035923 593.8089613885431 102.73 0.13463 103.33 103.25 103.38 0.59759 16 6 3 0 0 0 0.14337 1 47564 47564 0.69038 0.088878 1 823270 7217 4678 4566 4583 8566 8566 0.015761290705540887 FWLLFIEINQP 11 Unmodified _FWLLFIEINQP_ 0 0 0 REV__ENST00000502346.1_1_5:82350650-82350776:-|nuORF REV__ENST00000502346.1_1_5:82350650-82350776:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 710.6455078125 2 710.387188 1418.75982 NaN NaN NaN NaN NaN NaN NaN 60.735 1 60.735 60.235 61.235 0 0 0 0 1.0041 1 28262 28262 5.2969 1.1074 1 + 7218 16886 4567 4584 8567 8567 0.06719378188199698 FWLRHRLQWWR 11 Unmodified _FWLRHRLQWWR_ 0 0 0 ENST00000585141.5_1_17:62481823-62493086:-|nuORF;ENST00000580893.5_1_17:62486773-62489133:-|nuORF;ENSG00000256525|ENST00000539111|POLG2 ENST00000585141.5_1_17:62481823-62493086:-|nuORF ENST00000585141.5_1_17:62481823-62493086:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 842.4608154296875 2 842.46021 1682.90587 NaN NaN NaN NaN NaN NaN NaN 84.107 1 84.107 83.607 84.607 0 0 0 0 1.0082 1 42507 42507 0.30703 0.30703 1 7219 9175 4568 4585 8568 8568 0.09173118267426617 FWRFRQRFSE 10 Unmodified _FWRFRQRFSE_ 0 0 0 REV__ENSG00000173258|ENST00000309235|ZNF483 REV__ENSG00000173258|ENST00000309235|ZNF483 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 729.8748168945312 2 729.873102 1457.73165 NaN NaN NaN NaN NaN NaN NaN 54.11 1 54.375 53.875 54.875 0.26462 0 0 0 1.0003 1 24743 24743 1.4819 0 1 + 7220 13593 4569 4586 8569 8569 0.021094930514436783 FWRRKQLRAH 10 Unmodified _FWRRKQLRAH_ 0 0 0 nc|ENSG00000214022|Q9BWE0|REPIN1;ENSG00000214022|ENST00000489432|REPIN1 nc|ENSG00000214022|Q9BWE0|REPIN1 nc|ENSG00000214022|Q9BWE0|REPIN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 699.4034423828125 2 699.404904 1396.79525 NaN NaN NaN NaN NaN NaN NaN 71.175 1 71.433 70.933 71.933 0.25786 0 0 0 1.0015 1 32602 32602 0.40072 0.050084 1 7221 6107 4570 4587 8570 8570 0.11272898279207766 FWRWRIKLIQK 11 Unmodified _FWRWRIKLIQK_ 0 0 0 REV__KLHL5|p.M210Sfs*9|1|0.03|ENSG00000109790|chr4:39076071-39076072|-/GTCT|frameshift_variant REV__KLHL5|p.M210Sfs*9|1|0.03|ENSG00000109790|chr4:39076071-39076072|-/GTCT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 787.8128051757812 2 787.477537 1572.94052 NaN NaN NaN NaN NaN NaN NaN 100.73 1 100.73 100.23 101.23 0 0 0 0 1.008 1 55638 55638 0.30703 0 1 + 7222 11179 4571 4588 8571 8571 0.17696941355529816 FWWYWQKEKIP 11 Unmodified _FWWYWQKEKIP_ 0 0 0 nc|ENSG00000001036|Q9BTY2-2|FUCA2;ENST00000367585.1_1_6:143823176-143832783:-|nuORF;ENSG00000001036|ENST00000002165|FUCA2 nc|ENSG00000001036|Q9BTY2-2|FUCA2 nc|ENSG00000001036|Q9BTY2-2|FUCA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.9200439453125 3 537.61 1609.80817 NaN NaN NaN NaN NaN NaN NaN 78.091 1 78.091 77.591 78.591 0 0 0 0 1.0079 1 38338 38338 0.40827 0.31342 1 7223 295 4572 4589 8572 8572 0.027658718280690664 FWYLRFWFWSF 11 Unmodified _FWYLRFWFWSF_ 0 0 0 REV__ENSG00000223802|ENST00000623882|CERS1 REV__ENSG00000223802|ENST00000623882|CERS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 842.9094848632812 2 842.908622 1683.80269 NaN NaN NaN NaN NaN NaN NaN 21.055 1 21.055 20.555 21.555 0 0 0 0 1.0082 1 9422 9422 0 0 1 7224 14549 4573 4590 8573 8573 -0.011858069637582958 FWYLRFWFWSF 11 Unmodified _FWYLRFWFWSF_ 0 0 0 REV__ENSG00000223802|ENST00000623882|CERS1 REV__ENSG00000223802|ENST00000623882|CERS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 842.9061889648438 2 842.908622 1683.80269 NaN NaN NaN NaN NaN NaN NaN 28.117 1 28.38 27.88 28.88 0.26245 0 0 0 1.0082 1 12787 12787 0 0 1 7225 14549 4573 4590 8574 8574 -0.011858069637582958 FYAELYHII 9 Unmodified _FYAELYHII_ 0 0 0 ENST00000559005.2_1_14:24612620-24612898:-|nuORF;ENST00000442824.1_1_5:97549420-97549822:+|nuORF;ENSG00000100911|ENST00000216802|PSME2 ENST00000559005.2_1_14:24612620-24612898:-|nuORF ENST00000559005.2_1_14:24612620-24612898:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.807373046875 2 584.8055 1167.59645 3.3152 0.0019387 -0.045233 -2.6453E-05 3.2699 0.0019123 585.3071874130117 77.164 0.23698 77.42 77.299 77.536 0.25533 27 18 2 0 0 0 0.050606 1 35525 35525 46.921 33.413 1 791050 7226 1249 4574 4591 8575 8575 0.0193520013710895 FYAKKVTMI 9 Unmodified _FYAKKVTMI_ 0 0 0 REV__TCTN2|p.N495Mfs*18|1|0.22|ENSG00000168778|chr12:123697176-123697176|A/-|frameshift_variant REV__TCTN2|p.N495Mfs*18|1|0.22|ENSG00000168778|chr12:123697176-123697176|A/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.786865234375 2 550.81227 1099.60999 3.2621 0.0017968 -1.7638 -0.00097154 1.4982 0.00082524 550.8102385836661 38.485 0.093662 39.283 39.244 39.338 0.79762 7 4 2 0 0 0 0.10986 1 17423 17423 4.756 0.81161 1 88180 + 7227 13366 4575 4592 8576 8576 0.06416734644722055 FYAKKWLRLTN 11 Unmodified _FYAKKWLRLTN_ 0 0 0 REV__nc|ENSG00000197653|Q8IVF4|DNAH10 REV__nc|ENSG00000197653|Q8IVF4|DNAH10 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.51318359375 4 360.709403 1438.8085 2.4618 0.00088799 1.4353 0.00051773 3.8971 0.0014057 360.7098908382459 51.356 0.13762 51.618 51.528 51.665 0.26228 6 5 2 0 0 0 0.13295 1 23476 23476 2.6312 0.37851 1 439720 + 7228 14297 4576 4593 8577 8577 0.1066529154793443 FYDDKVSAL 9 Unmodified _FYDDKVSAL_ 0 0 0 ENSG00000136205|ENST00000311160|TNS3;nc|ENSG00000136205|Q68CZ2-3|TNS3;nc|ENSG00000136205|Q68CZ2-4|TNS3;nc|ENSG00000136205|Q68CZ2-2|TNS3 ENSG00000136205|ENST00000311160|TNS3 ENSG00000136205|ENST00000311160|TNS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.2645263671875 2 529.263665 1056.51278 3.1756 0.0016807 0.14245 7.5393E-05 3.3181 0.0017561 529.2636401741186 45.863 0.30954 46.128 45.983 46.292 0.26561 24 11 3 0 0 0 0.020338 2 20950 20950;21009 67.838 19.492 1 1410900 7229 2931 4577 4594 8578;8579 8578 -0.013219560305742561 FYDDKVSAL 9 Unmodified _FYDDKVSAL_ 0 0 0 ENSG00000136205|ENST00000311160|TNS3;nc|ENSG00000136205|Q68CZ2-3|TNS3;nc|ENSG00000136205|Q68CZ2-4|TNS3;nc|ENSG00000136205|Q68CZ2-2|TNS3 ENSG00000136205|ENST00000311160|TNS3 ENSG00000136205|ENST00000311160|TNS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.266357421875 2 529.263665 1056.51278 3.4961 0.0018504 0.18981 0.00010046 3.6859 0.0019508 529.2638305433867 45.263 0.34603 45.914 45.751 46.097 0.65104 29 14 3 0 0 0 0.0057865 2 20730 20730;20778 90.135 40.202 1 991390 7230 2931 4577 4594 8580;8581 8580 -0.013219560305742561 FYDDKVSAL 9 Unmodified _FYDDKVSAL_ 0 0 0 ENSG00000136205|ENST00000311160|TNS3;nc|ENSG00000136205|Q68CZ2-3|TNS3;nc|ENSG00000136205|Q68CZ2-4|TNS3;nc|ENSG00000136205|Q68CZ2-2|TNS3 ENSG00000136205|ENST00000311160|TNS3 ENSG00000136205|ENST00000311160|TNS3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 529.263665 1056.51278 2.9939 0.0015845 0.36335 0.00019231 3.3572 0.0017768 529.2631615100635 46.053 0.14477 46.053 45.967 46.111 0 0.02145 0.00020259 NaN 90.135 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 381630 7231 2931 4577 4594 -0.013219560305742561 FYEQWRERWPF 11 Unmodified _FYEQWRERWPF_ 0 0 0 REV__ENST00000367103.3_1_1:206907394-206907589:+|nuORF REV__ENST00000367103.3_1_1:206907394-206907589:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.9011840820312 3 548.596642 1642.7681 NaN NaN NaN NaN NaN NaN NaN 65.709 1 66.418 65.918 66.918 0.70891 0 0 0 1.0082 1 31099 31099 0.094841 0 1 + 7232 15648 4578 4595 8582 8582 -0.02757674842519009 FYFFSCIWGTF 11 Unmodified _FYFFSCIWGTF_ 0 0 0 ENSG00000174599|ENST00000310754|TRAM1L1 ENSG00000174599|ENST00000310754|TRAM1L1 ENSG00000174599|ENST00000310754|TRAM1L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 709.8226928710938 2 709.317917 1416.62128 4.0693 0.0028864 -1.017 -0.00072136 3.0524 0.0021651 709.8190698149718 82.081 0.17632 82.741 82.639 82.815 0.65998 16 10 2 0 0 0 0.82535 1 37836 37836 5.7319 0.43497 1 453520 7233 4989 4579 4596 8583 8583 -0.07036488051812739 FYFLWLIF 8 Unmodified _FYFLWLIF_ 0 0 0 HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|417|3|anti-sense HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|417|3|anti-sense HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|417|3|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 574.817626953125 2 574.812596 1147.61064 NaN NaN NaN NaN NaN NaN NaN 14.924 1 15.577 15.077 16.077 0.65356 0 0 0 0.99035 1 6720 6720 0.79363 0 1 7234 9415 4580 4597 8584 8584 0.04273897356097223 FYGDKMNLF 9 Unmodified _FYGDKMNLF_ 0 0 0 ENSG00000119408|ENST00000320246|NEK6;nc|ENSG00000119408|Q9HC98-3|NEK6;nc|ENSG00000119408|Q9HC98-4|NEK6;nc|ENSG00000119408|Q9HC98-2|NEK6 ENSG00000119408|ENST00000320246|NEK6 ENSG00000119408|ENST00000320246|NEK6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.722900390625 2 567.76806 1133.52157 3.698 0.0020996 0.026683 1.515E-05 3.7247 0.0021148 567.7676626953235 65.652 0.22188 66.308 66.205 66.427 0.65672 17 11 2 0 0 0 0.26277 1 30068 30068 19.257 2.3147 1 518260 7235 2143 4581 4598 8585 8585 -0.03985305665764827 FYGDKMNLF 9 Unmodified _FYGDKMNLF_ 0 0 0 ENSG00000119408|ENST00000320246|NEK6;nc|ENSG00000119408|Q9HC98-3|NEK6;nc|ENSG00000119408|Q9HC98-4|NEK6;nc|ENSG00000119408|Q9HC98-2|NEK6 ENSG00000119408|ENST00000320246|NEK6 ENSG00000119408|ENST00000320246|NEK6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 567.76806 1133.52157 3.7014 0.0021015 -0.62367 -0.0003541 3.0778 0.0017475 567.767534146489 66.294 0.19678 66.542 66.47 66.666 0.24847 0.11688 -0.00050302 NaN 19.257 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 527900 7236 2143 4581 4598 -0.03985305665764827 FYHKYFNYL 9 Unmodified _FYHKYFNYL_ 0 0 0 ENSG00000151348|ENST00000533608|EXT2;nc|ENSG00000151348|Q93063-2|EXT2;nc|ENSG00000151348|Q93063-3|EXT2;ENST00000528159.1_1_11:44228449-44265767:+|nuORF ENSG00000151348|ENST00000533608|EXT2 ENSG00000151348|ENST00000533608|EXT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 432.2148742675781 3 432.213358 1293.61824 3.0351 0.0013118 0.23639 0.00010217 3.2715 0.001414 432.21320738093806 53.097 0.7499 53.097 52.62 53.369 0 107 48 5 0 0 0 0.056465 3 24278 24278;24322;24375 39.95 24.993 1 9376900 7237 3702 4582 4599 8586;8587;8588 8586 -0.016819951142906575 FYHKYFNYL 9 Unmodified _FYHKYFNYL_ 0 0 0 ENSG00000151348|ENST00000533608|EXT2;nc|ENSG00000151348|Q93063-2|EXT2;nc|ENSG00000151348|Q93063-3|EXT2;ENST00000528159.1_1_11:44228449-44265767:+|nuORF ENSG00000151348|ENST00000533608|EXT2 ENSG00000151348|ENST00000533608|EXT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.818603515625 2 647.816399 1293.61824 3.8373 0.0024859 0.19757 0.00012799 4.0349 0.0026138 647.8163183046466 53.097 0.38266 53.097 52.916 53.299 0 63 20 4 0 0 0 3.2716E-05 2 24330 24282;24330 139.54 91.95 1 9550000 7238 3702 4582 4599 8589;8590 8590 -0.016819951142906575 FYHKYFNYL 9 Unmodified _FYHKYFNYL_ 0 0 0 ENSG00000151348|ENST00000533608|EXT2;nc|ENSG00000151348|Q93063-2|EXT2;nc|ENSG00000151348|Q93063-3|EXT2;ENST00000528159.1_1_11:44228449-44265767:+|nuORF ENSG00000151348|ENST00000533608|EXT2 ENSG00000151348|ENST00000533608|EXT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.21435546875 3 432.213358 1293.61824 2.2577 0.00097579 0.64768 0.00027993 2.9053 0.0012557 432.21342203107895 51.901 0.81153 52.712 52.215 53.026 0.81065 131 54 5 0 0 0 0.056465 3 23632 23590;23632;23677 39.95 24.993 1 16012000 7239 3702 4582 4599 8591;8592;8593 8592 -0.016819951142906575 FYHKYFNYL 9 Unmodified _FYHKYFNYL_ 0 0 0 ENSG00000151348|ENST00000533608|EXT2;nc|ENSG00000151348|Q93063-2|EXT2;nc|ENSG00000151348|Q93063-3|EXT2;ENST00000528159.1_1_11:44228449-44265767:+|nuORF ENSG00000151348|ENST00000533608|EXT2 ENSG00000151348|ENST00000533608|EXT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 647.818115234375 2 647.816399 1293.61824 3.1321 0.002029 0.16306 0.00010563 3.2951 0.0021346 647.8164892907893 51.903 0.35299 52.713 52.54 52.893 0.81065 64 24 3 0 0 0 0.00054818 2 23657 23609;23657 131.3 91.059 1 6687700 7240 3702 4582 4599 8594;8595 8595 -0.016819951142906575 FYHKYFNYL 9 Unmodified _FYHKYFNYL_ 0 0 0 ENSG00000151348|ENST00000533608|EXT2;nc|ENSG00000151348|Q93063-2|EXT2;nc|ENSG00000151348|Q93063-3|EXT2;ENST00000528159.1_1_11:44228449-44265767:+|nuORF ENSG00000151348|ENST00000533608|EXT2 ENSG00000151348|ENST00000533608|EXT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 432.21435546875 3 432.213358 1293.61824 2.9879 0.0012914 0.10536 4.5536E-05 3.0933 0.001337 432.21293489922243 52.844 0.88132 53.107 52.502 53.384 0.26345 86 47 3 0 0 0 0.086747 3 24221 24121;24170;24221 32.786 21.887 1 5062600 7241 3702 4582 4599 8596;8597;8598 8598 -0.016819951142906575 FYHKYFNYL 9 Unmodified _FYHKYFNYL_ 0 0 0 ENSG00000151348|ENST00000533608|EXT2;nc|ENSG00000151348|Q93063-2|EXT2;nc|ENSG00000151348|Q93063-3|EXT2;ENST00000528159.1_1_11:44228449-44265767:+|nuORF ENSG00000151348|ENST00000533608|EXT2 ENSG00000151348|ENST00000533608|EXT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 647.8187866210938 2 647.816399 1293.61824 3.8647 0.0025036 -0.34117 -0.00022102 3.5235 0.0022826 647.816093866557 52.879 0.43504 53.142 52.915 53.35 0.26345 60 25 3 0 0 0 0.0019388 3 24185 24133;24185;24234 104.8 64.849 1 4664300 7242 3702 4582 4599 8599;8600;8601 8600 -0.016819951142906575 FYHKYFNYL 9 Unmodified _FYHKYFNYL_ 0 0 0 ENSG00000151348|ENST00000533608|EXT2;nc|ENSG00000151348|Q93063-2|EXT2;nc|ENSG00000151348|Q93063-3|EXT2;ENST00000528159.1_1_11:44228449-44265767:+|nuORF ENSG00000151348|ENST00000533608|EXT2 ENSG00000151348|ENST00000533608|EXT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 647.8192749023438 2 647.816399 1293.61824 3.7489 0.0024286 0.30021 0.00019448 4.0491 0.0026231 647.8165214373397 52.494 0.31932 53.156 52.987 53.306 0.66198 37 13 4 0 0 0 0.0019388 2 23970 23970;24030 104.8 74.103 1 3054400 7243 3702 4582 4599 8602;8603 8602 -0.016819951142906575 FYHKYFNYL 9 Unmodified _FYHKYFNYL_ 0 0 0 ENSG00000151348|ENST00000533608|EXT2;nc|ENSG00000151348|Q93063-2|EXT2;nc|ENSG00000151348|Q93063-3|EXT2;ENST00000528159.1_1_11:44228449-44265767:+|nuORF ENSG00000151348|ENST00000533608|EXT2 ENSG00000151348|ENST00000533608|EXT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 432.2149963378906 3 432.213358 1293.61824 2.8685 0.0012398 0.88816 0.00038387 3.7566 0.0016237 432.2132300219745 52.493 0.92265 53.155 52.408 53.331 0.66198 76 46 4 0 0 0 0.056465 2 23971 23971;24031 39.95 24.993 1 3438600 7244 3702 4582 4599 8604;8605 8604 -0.016819951142906575 FYISPVNKL 9 Unmodified _FYISPVNKL_ 0 0 0 nc|ENSG00000105778|Q8NBF6-2|AVL9;ENSG00000105778|ENST00000318709|AVL9 nc|ENSG00000105778|Q8NBF6-2|AVL9 nc|ENSG00000105778|Q8NBF6-2|AVL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.8095703125 2 540.808042 1079.60153 3.1366 0.0016963 0.21548 0.00011653 3.3521 0.0018128 540.8082493828557 59.821 0.17694 59.821 59.669 59.846 0 21 13 2 0 0 0 0.0028306 1 27651 27651 96.285 52.426 1 1526800 7245 1530 4583 4600 8606 8606 0.06491503999745873 FYISPVNKL 9 Unmodified _FYISPVNKL_ 0 0 0 nc|ENSG00000105778|Q8NBF6-2|AVL9;ENSG00000105778|ENST00000318709|AVL9 nc|ENSG00000105778|Q8NBF6-2|AVL9 nc|ENSG00000105778|Q8NBF6-2|AVL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.809326171875 2 540.808042 1079.60153 3.2714 0.0017692 0.30339 0.00016408 3.5748 0.0019333 540.8077821114123 59.431 0.23552 59.69 59.569 59.804 0.2593 22 9 3 0 0 0 0.0028306 1 27205 27205 96.285 52.426 1 1232800 7246 1530 4583 4600 8607 8607 0.06491503999745873 FYISPVNKL 9 Unmodified _FYISPVNKL_ 0 0 0 nc|ENSG00000105778|Q8NBF6-2|AVL9;ENSG00000105778|ENST00000318709|AVL9 nc|ENSG00000105778|Q8NBF6-2|AVL9 nc|ENSG00000105778|Q8NBF6-2|AVL9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.8099365234375 2 540.808042 1079.60153 NaN NaN NaN NaN NaN NaN NaN 59.549 1 59.808 59.308 60.308 0.2593 0 0 0 0.24879 1 27269 27269 29.082 11.969 1 7247 1530 4583 4600 8608 8608 0.06491503999745873 FYISPVNKL 9 Unmodified _FYISPVNKL_ 0 0 0 nc|ENSG00000105778|Q8NBF6-2|AVL9;ENSG00000105778|ENST00000318709|AVL9 nc|ENSG00000105778|Q8NBF6-2|AVL9 nc|ENSG00000105778|Q8NBF6-2|AVL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.8086547851562 2 540.808042 1079.60153 3.3928 0.0018349 0.73856 0.00039942 4.1314 0.0022343 540.8081675059557 58.773 0.43413 59.44 59.153 59.587 0.66703 30 16 3 0 0 0 0.0016284 2 26898 26898;26961 108 64.139 1 1205100 7248 1530 4583 4600 8609;8610 8609 0.06491503999745873 FYKMWGFL 8 Unmodified _FYKMWGFL_ 0 0 0 ENST00000415075.5_1_9:134378361-134382761:+|nuORF ENST00000415075.5_1_9:134378361-134382761:+|nuORF ENST00000415075.5_1_9:134378361-134382761:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.7744140625 2 546.272781 1090.53101 3.5364 0.0019318 1.8666 0.0010197 5.403 0.0029515 546.2741787264803 46.086 0.15808 46.086 45.953 46.111 0 13 8 2 0 0 0 0.45037 1 21098 21098 24.674 1.9376 1 495520 7249 7701 4584 4601 8611 8611 -0.010634925895601555 FYKMWGFL 8 Unmodified _FYKMWGFL_ 0 0 0 ENST00000415075.5_1_9:134378361-134382761:+|nuORF ENST00000415075.5_1_9:134378361-134382761:+|nuORF ENST00000415075.5_1_9:134378361-134382761:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.2745361328125 2 546.272781 1090.53101 NaN NaN NaN NaN NaN NaN NaN 46.006 1 46.272 45.772 46.772 0.26561 0 0 0 0.88162 1 21030 21030 13.508 4.1604 1 7250 7701 4584 4601 8612 8612 -0.010634925895601555 FYKMWGFL 8 Unmodified _FYKMWGFL_ 0 0 0 ENST00000415075.5_1_9:134378361-134382761:+|nuORF ENST00000415075.5_1_9:134378361-134382761:+|nuORF ENST00000415075.5_1_9:134378361-134382761:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.7775268554688 2 546.272781 1090.53101 3.7744 0.0020618 2.1647 0.0011825 5.9391 0.0032444 546.2737769870498 45.337 0.26059 45.988 45.858 46.119 0.65104 17 11 2 0 0 0 0.59268 1 20783 20783 14.582 3.7578 1 260220 7251 7701 4584 4601 8613 8613 -0.010634925895601555 FYKMWGFL 8 Unmodified _FYKMWGFL_ 0 0 0 ENST00000415075.5_1_9:134378361-134382761:+|nuORF ENST00000415075.5_1_9:134378361-134382761:+|nuORF ENST00000415075.5_1_9:134378361-134382761:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 546.272781 1090.53101 3.5401 0.0019339 1.3875 0.00075795 4.9276 0.0026918 546.2735994365564 45.961 0.16211 46.226 46.103 46.265 0.26561 0.12611 -0.00054275 NaN 24.674 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 319870 7252 7701 4584 4601 -0.010634925895601555 FYKQCGDWS 9 Unmodified _FYKQCGDWS_ 0 0 0 REV__ENSG00000112159|ENST00000369393|MDN1 REV__ENSG00000112159|ENST00000369393|MDN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.2372436523438 2 567.239667 1132.46478 NaN NaN NaN NaN NaN NaN NaN 88.328 1 88.579 88.079 89.079 0.25064 0 0 0 0.89683 1 40642 40642 4.3292 0.38484 1 + 7253 11262 4585 4602 8614 8614 -0.09615353222261547 FYLPHGLSI 9 Unmodified _FYLPHGLSI_ 0 0 0 nc|ENSG00000145730|P19021-2|PAM;nc|ENSG00000145730|P19021-4|PAM;nc|ENSG00000145730|P19021-3|PAM;PAM|p.F927Lfs*11|1|0.07|ENSG00000145730|chr5:103028923-103028924|-/AAATGATAAAGTCAGAAGG|frameshift_variant;nc|ENSG00000145730|P19021-6|PAM;ENSG00000145730|ENST00000438793|PAM;nc|ENSG00000145730|P19021-5|PAM nc|ENSG00000145730|P19021-2|PAM nc|ENSG00000145730|P19021-2|PAM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.2899780273438 2 523.78711 1045.55967 2.8387 0.0014869 -0.44797 -0.00023464 2.3908 0.0012523 523.7869610946578 73.122 0.21458 73.821 73.736 73.951 0.69881 40 21 2 0 0 0 0.0026885 2 35237 35237;35283 97.075 62.972 1 1483200 7254 3484 4586 4603 8615;8616 8615 0.038709483112370435 FYLPHGLSI 9 Unmodified _FYLPHGLSI_ 0 0 0 nc|ENSG00000145730|P19021-2|PAM;nc|ENSG00000145730|P19021-4|PAM;nc|ENSG00000145730|P19021-3|PAM;PAM|p.F927Lfs*11|1|0.07|ENSG00000145730|chr5:103028923-103028924|-/AAATGATAAAGTCAGAAGG|frameshift_variant;nc|ENSG00000145730|P19021-6|PAM;ENSG00000145730|ENST00000438793|PAM;nc|ENSG00000145730|P19021-5|PAM nc|ENSG00000145730|P19021-2|PAM nc|ENSG00000145730|P19021-2|PAM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.78759765625 2 523.78711 1045.55967 3.0578 0.0016016 -0.31146 -0.00016314 2.7463 0.0014385 523.7867372657128 73.853 0.15413 74.112 74.037 74.191 0.25876 24 15 2 0 0 0 0.020718 2 33952 33952;33964 67.344 35.227 1 678330 7255 3484 4586 4603 8617;8618 8617 0.038709483112370435 FYLPHGLSI 9 Unmodified _FYLPHGLSI_ 0 0 0 nc|ENSG00000145730|P19021-2|PAM;nc|ENSG00000145730|P19021-4|PAM;nc|ENSG00000145730|P19021-3|PAM;PAM|p.F927Lfs*11|1|0.07|ENSG00000145730|chr5:103028923-103028924|-/AAATGATAAAGTCAGAAGG|frameshift_variant;nc|ENSG00000145730|P19021-6|PAM;ENSG00000145730|ENST00000438793|PAM;nc|ENSG00000145730|P19021-5|PAM nc|ENSG00000145730|P19021-2|PAM nc|ENSG00000145730|P19021-2|PAM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.7882080078125 2 523.78711 1045.55967 NaN NaN NaN NaN NaN NaN NaN 73.337 1 74.001 73.501 74.501 0.66398 0 0 0 0.30236 1 33699 33699 26.884 3.7352 1 7256 3484 4586 4603 8619 8619 0.038709483112370435 FYLQRYNFRWW 11 Unmodified _FYLQRYNFRWW_ 0 0 0 REV__ENST00000460870.1_1_1:208383501-208390355:-|nuORF REV__ENST00000460870.1_1_1:208383501-208390355:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 839.9171142578125 2 839.91751 1677.82047 NaN NaN NaN NaN NaN NaN NaN 65.476 1 66.185 65.685 66.685 0.70891 0 0 0 1.0082 1 30974 30974 0 0 1 + 7257 16485 4587 4604 8620 8620 0.008669082910955694 FYLQRYNFRWW 11 Unmodified _FYLQRYNFRWW_ 0 0 0 REV__ENST00000460870.1_1_1:208383501-208390355:-|nuORF REV__ENST00000460870.1_1_1:208383501-208390355:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 839.7326049804688 2 839.91751 1677.82047 NaN NaN NaN NaN NaN NaN NaN 89.912 1 89.976 89.476 90.476 0.064346 0 0 0 1.0082 1 46196 46196 0 0 1 + 7258 16485 4587 4604 8621 8621 0.008669082910955694 FYLVRQFRM 9 Unmodified _FYLVRQFRM_ 0 0 0 REV__nc|ENSG00000004809|Q86VW1-2|SLC22A16 REV__nc|ENSG00000004809|Q86VW1-2|SLC22A16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 630.3411254882812 2 630.339518 1258.66448 NaN NaN NaN NaN NaN NaN NaN 70.523 1 71.185 70.685 71.685 0.66209 0 0 0 0.91238 1 32325 32325 0.52476 0 1 + 7259 17850 4588 4605 8622 8622 0.045497465161361106 FYLYLCTWFP 10 Unmodified _FYLYLCTWFP_ 0 0 0 ENST00000248104.11_1_16:1413820-1414120:-|nuORF ENST00000248104.11_1_16:1413820-1414120:-|nuORF ENST00000248104.11_1_16:1413820-1414120:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 676.8229370117188 2 676.822835 1351.63112 NaN NaN NaN NaN NaN NaN NaN 82.461 1 83.122 82.622 83.622 0.66019 0 0 0 1.0015 1 37994 37994 0.45834 0 1 7260 6497 4589 4606 8623 8623 -0.030633000464149518 FYMKARKL 8 Unmodified _FYMKARKL_ 0 0 0 ENST00000330137.11_1_17:57188831-57189044:-|nuORF ENST00000330137.11_1_17:57188831-57189044:-|nuORF ENST00000330137.11_1_17:57188831-57189044:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.2666625976562 2 528.80478 1055.59501 3.3814 0.0017881 3.2404 0.0017136 6.6219 0.0035017 528.8057939830984 48.557 0.20731 48.82 48.725 48.932 0.2621 12 8 2 0 0 0 0.13917 1 22206 22206 9.3474 0 1 311770 7261 6981 4590 4607 8624 8624 0.06943287567401057 FYNLLTRTF 9 Unmodified _FYNLLTRTF_ 0 0 0 nc|ENSG00000124155|Q969N2-3|PIGT;nc|ENSG00000124155|Q969N2-2|PIGT;nc|ENSG00000124155|Q969N2-4|PIGT;nc|ENSG00000124155|Q969N2-6|PIGT;nc|ENSG00000124155|Q969N2-5|PIGT;ENSG00000124155|ENST00000279036|PIGT nc|ENSG00000124155|Q969N2-3|PIGT nc|ENSG00000124155|Q969N2-3|PIGT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.8174438476562 2 587.816399 1173.61824 2.8998 0.0017045 0.67265 0.0003954 3.5724 0.0020999 587.8167665879386 73.743 0.21269 73.743 73.607 73.819 0 26 17 2 0 0 0 0.0020727 1 35935 35935 103.42 63.462 1 3575000 7262 2341 4591 4608 8625 8625 0.038380048857106885 FYNLLTRTF 9 Unmodified _FYNLLTRTF_ 0 0 0 nc|ENSG00000124155|Q969N2-3|PIGT;nc|ENSG00000124155|Q969N2-2|PIGT;nc|ENSG00000124155|Q969N2-4|PIGT;nc|ENSG00000124155|Q969N2-6|PIGT;nc|ENSG00000124155|Q969N2-5|PIGT;ENSG00000124155|ENST00000279036|PIGT nc|ENSG00000124155|Q969N2-3|PIGT nc|ENSG00000124155|Q969N2-3|PIGT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.81640625 2 587.816399 1173.61824 2.8343 0.001666 -0.3141 -0.00018463 2.5202 0.0014814 587.8158921074777 72.63 0.20641 73.328 73.214 73.42 0.69881 33 21 2 0 0 0 0.026853 1 34974 34974 59.368 35.348 1 3398400 7263 2341 4591 4608 8626 8626 0.038380048857106885 FYNLLTRTF 9 Unmodified _FYNLLTRTF_ 0 0 0 nc|ENSG00000124155|Q969N2-3|PIGT;nc|ENSG00000124155|Q969N2-2|PIGT;nc|ENSG00000124155|Q969N2-4|PIGT;nc|ENSG00000124155|Q969N2-6|PIGT;nc|ENSG00000124155|Q969N2-5|PIGT;ENSG00000124155|ENST00000279036|PIGT nc|ENSG00000124155|Q969N2-3|PIGT nc|ENSG00000124155|Q969N2-3|PIGT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.818603515625 2 587.816399 1173.61824 3.2361 0.0019023 0.12037 7.0755E-05 3.3565 0.001973 587.8166782730357 73.429 0.27806 73.688 73.54 73.818 0.25876 52 24 3 0 0 0 0.015631 2 33744 33697;33744 74.2 36.226 1 1157900 7264 2341 4591 4608 8627;8628 8628 0.038380048857106885 FYNLLTRTF 9 Unmodified _FYNLLTRTF_ 0 0 0 nc|ENSG00000124155|Q969N2-3|PIGT;nc|ENSG00000124155|Q969N2-2|PIGT;nc|ENSG00000124155|Q969N2-4|PIGT;nc|ENSG00000124155|Q969N2-6|PIGT;nc|ENSG00000124155|Q969N2-5|PIGT;ENSG00000124155|ENST00000279036|PIGT nc|ENSG00000124155|Q969N2-3|PIGT nc|ENSG00000124155|Q969N2-3|PIGT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.8192749023438 2 587.816399 1173.61824 2.9912 0.0017583 -1.2795 -0.00075211 1.7117 0.0010062 587.8160656361399 72.896 0.20157 73.56 73.46 73.661 0.66398 41 20 3 0 0 0 0.0010698 1 33465 33465 125.53 87.555 1 1652200 7265 2341 4591 4608 8629 8629 0.038380048857106885 FYPAIADLF 9 Unmodified _FYPAIADLF_ 0 0 0 ENSG00000141696|ENST00000393928|P3H4 ENSG00000141696|ENST00000393928|P3H4 ENSG00000141696|ENST00000393928|P3H4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.775634765625 2 528.773668 1055.53278 4.0674 0.0021507 -0.15607 -8.2527E-05 3.9113 0.0020682 528.7732807585887 99.404 0.10236 99.712 99.652 99.754 0.30835 9 5 2 0 0 0 0.026525 1 45927 45927 59.795 35.121 1 2390300 7266 3282 4592 4609 8630 8630 0.00723839700026474 FYPAIADLF 9 Unmodified _FYPAIADLF_ 0 0 0 ENSG00000141696|ENST00000393928|P3H4 ENSG00000141696|ENST00000393928|P3H4 ENSG00000141696|ENST00000393928|P3H4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 528.773668 1055.53278 1.9028 0.0010061 1.0544 0.00055753 2.9571 0.0015637 528.7739892295613 99.437 0.052505 99.499 99.463 99.516 0.062241 -0.20568 0.0010597 NaN 59.795 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 3557900 7267 3282 4592 4609 0.00723839700026474 FYPAIADLF 9 Unmodified _FYPAIADLF_ 0 0 0 ENSG00000141696|ENST00000393928|P3H4 ENSG00000141696|ENST00000393928|P3H4 ENSG00000141696|ENST00000393928|P3H4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 528.773668 1055.53278 3.4864 0.0018435 -0.17543 -9.2761E-05 3.311 0.0017508 528.7737108486034 99.306 0.088318 99.904 99.853 99.941 0.59748 0.19865 -0.00024085 NaN 59.795 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 793060 7268 3282 4592 4609 0.00723839700026474 FYPPHPDYTW 10 Unmodified _FYPPHPDYTW_ 0 0 0 ENSG00000130309|ENST00000252599|COLGALT1 ENSG00000130309|ENST00000252599|COLGALT1 ENSG00000130309|ENST00000252599|COLGALT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 661.80224609375 2 661.795663 1321.57677 NaN NaN NaN NaN NaN NaN NaN 59.633 1 60.382 59.882 60.882 0.74927 0 0 0 0.47727 1 27399 27399 30.637 21.253 1 7269 2586 4593 4610 8631 8631 -0.07115175873650514 FYPPKVELF 9 Unmodified _FYPPKVELF_ 0 0 0 ENSG00000128050|ENST00000512576|PAICS;nc|ENSG00000128050|P22234-2|PAICS ENSG00000128050|ENST00000512576|PAICS ENSG00000128050|ENST00000512576|PAICS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.3118896484375 2 570.310418 1138.60628 2.8706 0.0016371 -0.095487 -5.4457E-05 2.7751 0.0015827 570.310324848976 73.174 0.70131 73.174 72.645 73.347 0 140 71 3 0 0 0 0.071132 3 35668 35562;35616;35668 39.95 20.588 1 6392300 7270 2500 4594 4611 8632;8633;8634 8634 0.0425238814250406 FYPPKVELF 9 Unmodified _FYPPKVELF_ 0 0 0 ENSG00000128050|ENST00000512576|PAICS;nc|ENSG00000128050|P22234-2|PAICS ENSG00000128050|ENST00000512576|PAICS ENSG00000128050|ENST00000512576|PAICS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.3111572265625 2 570.310418 1138.60628 3.0477 0.0017381 -0.85572 -0.00048803 2.192 0.0012501 570.3097152830496 72.206 0.62277 72.91 72.456 73.079 0.70386 100 65 3 0 0 0 0.11458 1 34771 34771 29.082 14.5 1 6244800 7271 2500 4594 4611 8635 8635 0.0425238814250406 FYPPKVELF 9 Unmodified _FYPPKVELF_ 0 0 0 ENSG00000128050|ENST00000512576|PAICS;nc|ENSG00000128050|P22234-2|PAICS ENSG00000128050|ENST00000512576|PAICS ENSG00000128050|ENST00000512576|PAICS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 570.3119506835938 2 570.310418 1138.60628 3.2016 0.0018259 -0.41227 -0.00023512 2.7893 0.0015908 570.3100804170434 72.686 0.87662 72.945 72.315 73.192 0.25875 186 77 3 0 0 0 0.03963 6 33394 33141;33254;33302;33346;33394;33442 51.63 31.215 1 4276000 7272 2500 4594 4611 8636;8637;8638;8639;8640;8641 8640 0.0425238814250406 FYPPKVELF 9 Unmodified _FYPPKVELF_ 0 0 0 ENSG00000128050|ENST00000512576|PAICS;nc|ENSG00000128050|P22234-2|PAICS ENSG00000128050|ENST00000512576|PAICS ENSG00000128050|ENST00000512576|PAICS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.3126220703125 2 570.310418 1138.60628 2.9907 0.0017056 0.24512 0.00013979 3.2358 0.0018454 570.3104264207113 72.308 0.82767 72.971 72.33 73.158 0.66324 166 76 3 0 0 0 0.053453 5 33098 32988;33052;33098;33154;33205 45.7 25.637 1 4008900 7273 2500 4594 4611 8642;8643;8644;8645;8646 8644 0.0425238814250406 FYQEHPDL 8 Unmodified _FYQEHPDL_ 0 0 0 ENST00000581230.5_1_17:62498125-62502378:-|nuORF;ENSG00000108654|ENST00000225792|DDX5;ENST00000585223.1_1_17:62500698-62502378:-|nuORF;nc|ENSG00000108654|P17844-2|DDX5 ENST00000581230.5_1_17:62498125-62502378:-|nuORF ENST00000581230.5_1_17:62498125-62502378:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.2703247070312 2 524.740357 1047.46616 3.3607 0.0017635 4.2639 0.0022375 7.6247 0.004001 525.2450418049095 36.203 0.12863 36.996 36.874 37.003 0.79342 8 4 2 0 0 0 0.11999 1 16390 16390 21.747 12.399 1 200330 7274 1642 4595 4612 8647 8647 -0.055673958618626784 FYQEHPDL 8 Unmodified _FYQEHPDL_ 0 0 0 ENST00000581230.5_1_17:62498125-62502378:-|nuORF;ENSG00000108654|ENST00000225792|DDX5;ENST00000585223.1_1_17:62500698-62502378:-|nuORF;nc|ENSG00000108654|P17844-2|DDX5 ENST00000581230.5_1_17:62498125-62502378:-|nuORF ENST00000581230.5_1_17:62498125-62502378:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.267822265625 2 524.740357 1047.46616 3.4983 0.0018357 3.5296 0.0018521 7.028 0.0036879 524.7414925205545 37.297 0.44362 37.558 37.284 37.728 0.26083 21 13 2 0 0 0 0.090294 1 16978 16978 34.102 7.7612 1 416550 7275 1642 4595 4612 8648 8648 -0.055673958618626784 FYQEHPDL 8 Unmodified _FYQEHPDL_ 0 0 0 ENST00000581230.5_1_17:62498125-62502378:-|nuORF;ENSG00000108654|ENST00000225792|DDX5;ENST00000585223.1_1_17:62500698-62502378:-|nuORF;nc|ENSG00000108654|P17844-2|DDX5 ENST00000581230.5_1_17:62498125-62502378:-|nuORF ENST00000581230.5_1_17:62498125-62502378:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 524.740357 1047.46616 3.2367 0.0016984 4.8587 0.0025496 8.0954 0.004248 524.7424732036194 37.344 0.080429 37.344 37.298 37.378 0 0.050096 0.00067381 NaN 42.095 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 142950 7276 1642 4595 4612 -0.055673958618626784 FYQPISHQW 9 Unmodified _FYQPISHQW_ 0 0 0 ENST00000561483.5_1_15:84323016-84694242:+|nuORF;nc|ENSG00000156218|P82987-2|ADAMTSL3;ENSG00000156218|ENST00000286744|ADAMTSL3 ENST00000561483.5_1_15:84323016-84694242:+|nuORF ENST00000561483.5_1_15:84323016-84694242:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 603.2921752929688 2 603.290548 1204.56654 3.1454 0.0018976 0.54921 0.00033133 3.6946 0.0022289 603.290235874073 50.928 0.1404 51.745 51.643 51.783 0.81738 10 7 2 0 0 0 0.10169 2 23189 23181;23189 32.305 23.712 1 571760 7277 3899 4596 4613 8649;8650 8650 -0.02755738808195929 FYQPKIQQF 9 Unmodified _FYQPKIQQF_ 0 0 0 nc|ENSG00000140525|Q9NVI1-2|FANCI;nc|ENSG00000140525|Q9NVI1-1|FANCI;ENSG00000140525|ENST00000310775|FANCI nc|ENSG00000140525|Q9NVI1-2|FANCI nc|ENSG00000140525|Q9NVI1-2|FANCI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 599.8189086914062 2 599.816399 1197.61824 3.6397 0.0021832 0.9978 0.0005985 4.6375 0.0027817 599.8166235484089 53.439 0.1894 53.439 53.349 53.539 0 22 13 2 0 0 0 0.028312 1 24473 24473 57.471 34.323 1 1101200 7278 3205 4597 4614 8651 8651 0.027340048857013244 FYQPKIQQF 9 Unmodified _FYQPKIQQF_ 0 0 0 nc|ENSG00000140525|Q9NVI1-2|FANCI;nc|ENSG00000140525|Q9NVI1-1|FANCI;ENSG00000140525|ENST00000310775|FANCI nc|ENSG00000140525|Q9NVI1-2|FANCI nc|ENSG00000140525|Q9NVI1-2|FANCI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 599.8181762695312 2 599.816399 1197.61824 3.1177 0.00187 0.76972 0.00046169 3.8874 0.0023317 599.8169155197044 52.355 0.26512 53.166 53.047 53.312 0.81065 47 19 3 0 0 0 0.00033079 1 23854 23854 133.7 95.728 1 1238300 7279 3205 4597 4614 8652 8652 0.027340048857013244 FYQPKIQQF 9 Unmodified _FYQPKIQQF_ 0 0 0 nc|ENSG00000140525|Q9NVI1-2|FANCI;nc|ENSG00000140525|Q9NVI1-1|FANCI;ENSG00000140525|ENST00000310775|FANCI nc|ENSG00000140525|Q9NVI1-2|FANCI nc|ENSG00000140525|Q9NVI1-2|FANCI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 599.5917358398438 2 599.816399 1197.61824 3.8486 0.0023085 -0.16247 -9.745E-05 3.6861 0.002211 599.816363173752 53.203 0.23283 53.466 53.384 53.617 0.26345 31 17 2 0 0 0 0.028312 2 24306 24306;24334 57.471 44.94 1 757160 7280 3205 4597 4614 8653;8654 8653 0.027340048857013244 FYQPKIQQF 9 Unmodified _FYQPKIQQF_ 0 0 0 nc|ENSG00000140525|Q9NVI1-2|FANCI;nc|ENSG00000140525|Q9NVI1-1|FANCI;ENSG00000140525|ENST00000310775|FANCI nc|ENSG00000140525|Q9NVI1-2|FANCI nc|ENSG00000140525|Q9NVI1-2|FANCI MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 599.820068359375 2 599.816399 1197.61824 NaN NaN NaN NaN NaN NaN NaN 53.105 1 53.368 52.868 53.868 0.26345 0 0 0 0.22092 1 24281 24281 30.225 7.0764 1 7281 3205 4597 4614 8655 8655 0.027340048857013244 FYQPKIQQF 9 Unmodified _FYQPKIQQF_ 0 0 0 nc|ENSG00000140525|Q9NVI1-2|FANCI;nc|ENSG00000140525|Q9NVI1-1|FANCI;ENSG00000140525|ENST00000310775|FANCI nc|ENSG00000140525|Q9NVI1-2|FANCI nc|ENSG00000140525|Q9NVI1-2|FANCI MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 599.8185424804688 2 599.816399 1197.61824 NaN NaN NaN NaN NaN NaN NaN 52.828 1 53.493 52.993 53.993 0.6644 0 0 0 0.012812 1 24158 24158 81.613 56.214 1 7282 3205 4597 4614 8656 8656 0.027340048857013244 FYRKKWRKWVK 11 Unmodified _FYRKKWRKWVK_ 0 0 0 REV__CADPS2|p.G629Vfs*31|1|0.27|ENSG00000081803|chr7:122474493-122474493|C/-|frameshift_variant REV__CADPS2|p.G629Vfs*31|1|0.27|ENSG00000081803|chr7:122474493-122474493|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 812.9822998046875 2 812.982987 1623.95142 NaN NaN NaN NaN NaN NaN NaN 96.74 1 96.816 96.316 97.316 0.076538 0 0 0 1.0082 1 51499 51499 0 0 1 + 7283 9984 4598 4615 8657 8657 0.1644034372977785 FYRKKWRKWVK 11 Unmodified _FYRKKWRKWVK_ 0 0 0 REV__CADPS2|p.G629Vfs*31|1|0.27|ENSG00000081803|chr7:122474493-122474493|C/-|frameshift_variant REV__CADPS2|p.G629Vfs*31|1|0.27|ENSG00000081803|chr7:122474493-122474493|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 812.733642578125 2 812.982987 1623.95142 NaN NaN NaN NaN NaN NaN NaN 84.074 1 84.736 84.236 85.236 0.66219 0 0 0 1.0082 1 38727 38727 0 0 1 + 7284 9984 4598 4615 8658 8658 0.1644034372977785 FYRPYFRIVRF 11 Unmodified _FYRPYFRIVRF_ 0 0 0 nc|ENSG00000092969|P61812-2|TGFB2;ENSG00000092969|ENST00000366930|TGFB2 nc|ENSG00000092969|P61812-2|TGFB2 nc|ENSG00000092969|P61812-2|TGFB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 782.43896484375 2 782.432796 1562.85104 NaN NaN NaN NaN NaN NaN NaN 89.068 1 89.068 88.568 89.568 0 0 0 0 1.008 1 46408 46408 0.30703 0 1 7285 1103 4599 4616 8659 8659 0.09212686676141857 FYSRLLQKF 9 Unmodified _FYSRLLQKF_ 0 0 0 ENSG00000174442|ENST00000307897|ZWILCH ENSG00000174442|ENST00000307897|ZWILCH ENSG00000174442|ENST00000307897|ZWILCH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 601.3421630859375 2 601.340041 1200.66553 3.4793 0.0020922 0.72957 0.00043872 4.2089 0.002531 601.3403579185116 52.943 0.16798 52.943 52.819 52.987 0 16 8 2 0 0 0 0.10919 1 24235 24235 32.037 16.19 1 475140 7286 4977 4600 4617 8660 8660 0.07322284156703063 FYSRLLQKF 9 Unmodified _FYSRLLQKF_ 0 0 0 ENSG00000174442|ENST00000307897|ZWILCH ENSG00000174442|ENST00000307897|ZWILCH ENSG00000174442|ENST00000307897|ZWILCH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.8453979492188 2 601.340041 1200.66553 2.9096 0.0017497 0.99596 0.00059891 3.9056 0.0023486 601.8426042112123 51.769 0.16904 52.58 52.497 52.666 0.81065 14 10 2 0 0 0 0.11316 1 23584 23584 31.268 14.326 1 381790 7287 4977 4600 4617 8661 8661 0.07322284156703063 FYSRLLQKF 9 Unmodified _FYSRLLQKF_ 0 0 0 ENSG00000174442|ENST00000307897|ZWILCH ENSG00000174442|ENST00000307897|ZWILCH ENSG00000174442|ENST00000307897|ZWILCH MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 401.2307434082031 3 401.229119 1200.66553 2.1031 0.00084384 0.65209 0.00026164 2.7552 0.0011055 401.22927498290454 51.779 0.26442 52.59 52.446 52.711 0.81065 46 17 4 0 0 0 0.099014 1 23569 23569 10.151 0 1 864020 7288 4977 4600 4617 8662 8662 0.07322284156703063 FYTACVVE 8 Unmodified _FYTACVVE_ 0 0 0 PRKG1|p.G545Efs*3|1|0.19|ENSG00000185532|chr10:52282284-52282284|G/-|frameshift_variant;ENSG00000185532|ENST00000373980|PRKG1;nc|ENSG00000185532|Q13976-3|PRKG1;ENST00000373975.2_1_10:53822369-54053657:+|nuORF;nc|ENSG00000185532|Q13976|PRKG1 PRKG1|p.G545Efs*3|1|0.19|ENSG00000185532|chr10:52282284-52282284|G/-|frameshift_variant PRKG1|p.G545Efs*3|1|0.19|ENSG00000185532|chr10:52282284-52282284|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 311.1487121582031 3 311.145845 930.415705 NaN NaN NaN NaN NaN NaN NaN 55.766 1 56.434 55.934 56.934 0.66798 0 0 0 0.99035 1 25512 25512 1.6526 0.58116 1 7289 5515 4601 4618 8663 8663 -0.052286415112121176 FYTAYLQRL 9 Unmodified _FYTAYLQRL_ 0 0 0 ENSG00000116260|ENST00000367602|QSOX1;nc|ENSG00000116260|O00391-2|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.8181762695312 2 587.816399 1173.61824 3.6511 0.0021462 -1.0138 -0.0005959 2.6374 0.0015503 587.8161831394566 65.513 0.24345 65.762 65.616 65.86 0.24848 21 11 2 0 0 0 0.015098 2 30025 30025;30047 74.929 34.972 1 1134900 7290 2023 4602 4619 8664;8665 8664 0.038380048857106885 FYTAYLQRL 9 Unmodified _FYTAYLQRL_ 0 0 0 ENSG00000116260|ENST00000367602|QSOX1;nc|ENSG00000116260|O00391-2|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.275390625 2 587.816399 1173.61824 3.6663 0.0021551 -0.22865 -0.0001344 3.4376 0.0020207 587.8164324726363 64.908 0.22911 65.564 65.426 65.655 0.65672 36 15 3 0 0 0 0.027384 1 29709 29709 41.84 16.44 1 1219200 7291 2023 4602 4619 8666 8666 0.038380048857106885 FYTDPSYFF 9 Unmodified _FYTDPSYFF_ 0 0 0 nc|ENSG00000132970|Q9UPY6-2|WASF3;ENSG00000132970|ENST00000335327|WASF3;nc|ENSG00000158195|Q9Y6W5-2|WASF2;ENSG00000158195|ENST00000618852|WASF2 nc|ENSG00000132970|Q9UPY6-2|WASF3 nc|ENSG00000132970|Q9UPY6-2|WASF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 593.7608642578125 2 593.758215 1185.50188 4.0237 0.0023891 0.7168 0.0004256 4.7405 0.0028147 593.7586220088164 89.526 0.21822 89.777 89.684 89.902 0.25136 19 12 2 0 0 0 0.11001 1 41178 41178 30.225 22.315 1 314820 7292 2740 4603 4620 8667 8667 -0.08345358404858416 FYTDPSYFF 9 Unmodified _FYTDPSYFF_ 0 0 0 nc|ENSG00000132970|Q9UPY6-2|WASF3;ENSG00000132970|ENST00000335327|WASF3;nc|ENSG00000158195|Q9Y6W5-2|WASF2;ENSG00000158195|ENST00000618852|WASF2 nc|ENSG00000132970|Q9UPY6-2|WASF3 nc|ENSG00000132970|Q9UPY6-2|WASF3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 593.758215 1185.50188 4.0487 0.002404 0.22876 0.00013583 4.2775 0.0025398 593.7587014838824 88.938 0.15689 89.616 89.565 89.721 0.67818 -0.080324 -0.00050293 NaN 30.225 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 297360 7293 2740 4603 4620 -0.08345358404858416 FYTERLERL 9 Unmodified _FYTERLERL_ 0 0 0 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2;ENSG00000130640|ENST00000252936|TUBGCP2;nc|ENSG00000130640|Q9BSJ2-4|TUBGCP2;ENST00000477923.1_1_10:135093272-135094982:-|nuORF nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.5568542480469 3 409.555784 1225.64552 2.5916 0.0010614 -0.10596 -4.3398E-05 2.4857 0.001018 409.55582988257305 41.868 0.14044 42.676 42.61 42.751 0.80855 15 8 2 0 0 0 0.044468 1 19013 19013 39.213 16.555 1 922550 7294 2604 4604 4621 8668 8668 0.04172488426070231 FYTKRFQEL 9 Unmodified _FYTKRFQEL_ 0 0 0 ENST00000580356.5_1_17:8159124-8159921:+|nuORF;ENSG00000178921|ENST00000314666|PFAS ENST00000580356.5_1_17:8159124-8159921:+|nuORF ENST00000580356.5_1_17:8159124-8159921:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 411.221923828125 3 411.220513 1230.63971 2.7605 0.0011352 0.5214 0.00021441 3.2819 0.0013496 411.22089122263895 38.397 0.23144 38.397 38.332 38.563 0 19 10 3 0 0 0 0.071132 1 17438 17438 43.982 27.416 1 814070 7295 5185 4605 4622 8669 8669 0.03361389914425672 FYTKRFQEL 9 Unmodified _FYTKRFQEL_ 0 0 0 ENST00000580356.5_1_17:8159124-8159921:+|nuORF;ENSG00000178921|ENST00000314666|PFAS ENST00000580356.5_1_17:8159124-8159921:+|nuORF ENST00000580356.5_1_17:8159124-8159921:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 411.220513 1230.63971 2.8475 0.0011709 0.21782 8.957E-05 3.0653 0.0012605 411.22095441056257 37.785 0.24857 38.419 38.304 38.553 0.63388 0.095417 5.3058E-05 NaN 43.982 17 8 3 NaN NaN NaN NaN 0 NaN NaN 0 144100 7296 5185 4605 4622 0.03361389914425672 FYTLSFYVRHW 11 Unmodified _FYTLSFYVRHW_ 0 0 0 REV__ENST00000458578.6_1_22:21976298-21976487:+|nuORF REV__ENST00000458578.6_1_22:21976298-21976487:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 759.7145385742188 2 759.880062 1517.74557 3.404 0.0025866 -2.8192 -0.0021423 0.58475 0.00044434 759.8790835620682 56.741 0.041687 57.519 57.503 57.545 0.77786 6 4 2 0 0 0 0.88075 1 25946 25946 3.2813 0 1 1188800 + 7297 16471 4606 4623 8670 8670 0.0074072575987429445 FYTVIPHNF 9 Unmodified _FYTVIPHNF_ 0 0 0 ENSG00000041880|ENST00000398755|PARP3;nc|ENSG00000041880|Q9Y6F1-2|PARP3 ENSG00000041880|ENST00000398755|PARP3 ENSG00000041880|ENST00000398755|PARP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.2933959960938 2 569.290017 1136.56548 2.9099 0.0016566 -1.3147 -0.00074842 1.5952 0.00090815 569.7907835185889 65.575 0.20112 65.575 65.506 65.708 0 36 21 3 0 0 0 0.079031 1 31285 31285 37.974 29.381 1 2379300 7298 539 4607 4624 8671 8671 0.0026604682288962067 FYTVIPHNF 9 Unmodified _FYTVIPHNF_ 0 0 0 ENSG00000041880|ENST00000398755|PARP3;nc|ENSG00000041880|Q9Y6F1-2|PARP3 ENSG00000041880|ENST00000398755|PARP3 ENSG00000041880|ENST00000398755|PARP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.2915649414062 2 569.290017 1136.56548 2.9559 0.0016828 -0.11678 -6.648E-05 2.8392 0.0016163 569.2897004823365 64.468 0.1954 65.183 65.115 65.311 0.71522 34 18 3 0 0 0 0.019364 1 30376 30376 69.105 53.258 1 2378900 7299 539 4607 4624 8672 8672 0.0026604682288962067 FYTVIPHNF 9 Unmodified _FYTVIPHNF_ 0 0 0 ENSG00000041880|ENST00000398755|PARP3;nc|ENSG00000041880|Q9Y6F1-2|PARP3 ENSG00000041880|ENST00000398755|PARP3 ENSG00000041880|ENST00000398755|PARP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.2921142578125 2 569.290017 1136.56548 3.6152 0.0020581 0.23486 0.0001337 3.8501 0.0021918 569.2900591529204 65.396 0.33891 65.644 65.457 65.796 0.24802 41 16 4 0 0 0 0.0013204 2 29980 29924;29980 118.89 96.158 1 3442300 7300 539 4607 4624 8673;8674 8674 0.0026604682288962067 FYTVIPHNF 9 Unmodified _FYTVIPHNF_ 0 0 0 ENSG00000041880|ENST00000398755|PARP3;nc|ENSG00000041880|Q9Y6F1-2|PARP3 ENSG00000041880|ENST00000398755|PARP3 ENSG00000041880|ENST00000398755|PARP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.2921142578125 2 569.290017 1136.56548 3.7047 0.0021091 -0.33256 -0.00018932 3.3722 0.0019197 569.2898059988859 64.795 0.30961 65.451 65.294 65.604 0.65672 49 17 4 0 0 0 0.0012577 2 29681 29681;29735 123.45 99.43 1 4206200 7301 539 4607 4624 8675;8676 8675 0.0026604682288962067 FYVPAEPKLAF 11 Unmodified _FYVPAEPKLAF_ 0 0 0 ENSG00000147604|ENST00000352983|RPL7;ENST00000461190.1_1_3:123871117-123871351:-|nuORF;ENST00000449200.1_1_22:40502501-40502987:-|nuORF ENSG00000147604|ENST00000352983|RPL7 ENSG00000147604|ENST00000352983|RPL7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.3497924804688 2 641.347532 1280.68051 3.1407 0.0020143 0.72865 0.00046732 3.8693 0.0024816 641.8488772534271 75.274 0.23196 75.274 75.175 75.407 0 34 22 2 0 0 0 0.027969 1 36882 36882 55.503 37.356 1 1356700 7302 3576 4608 4625 8677 8677 0.05139731234021383 FYVPAEPKLAF 11 Unmodified _FYVPAEPKLAF_ 0 0 0 ENSG00000147604|ENST00000352983|RPL7;ENST00000461190.1_1_3:123871117-123871351:-|nuORF;ENST00000449200.1_1_22:40502501-40502987:-|nuORF ENSG00000147604|ENST00000352983|RPL7 ENSG00000147604|ENST00000352983|RPL7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.3494873046875 2 641.347532 1280.68051 NaN NaN NaN NaN NaN NaN NaN 74.524 1 75.211 74.711 75.711 0.68662 0 0 0 0.51359 1 36021 36021 27.223 9.0769 1 7303 3576 4608 4625 8678 8678 0.05139731234021383 FYVPAEPKLAF 11 Unmodified _FYVPAEPKLAF_ 0 0 0 ENSG00000147604|ENST00000352983|RPL7;ENST00000461190.1_1_3:123871117-123871351:-|nuORF;ENST00000449200.1_1_22:40502501-40502987:-|nuORF ENSG00000147604|ENST00000352983|RPL7 ENSG00000147604|ENST00000352983|RPL7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.3500366210938 2 641.347532 1280.68051 NaN NaN NaN NaN NaN NaN NaN 74.504 1 75.168 74.668 75.668 0.6644 0 0 0 0.45345 1 34297 34297 28.495 4.4739 1 7304 3576 4608 4625 8679 8679 0.05139731234021383 FYVPWFDYCF 10 Unmodified _FYVPWFDYCF_ 0 0 0 REV__ENST00000579188.1_1_17:80358582-80358996:-|nuORF REV__ENST00000579188.1_1_17:80358582-80358996:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 693.79931640625 2 693.796817 1385.57908 NaN NaN NaN NaN NaN NaN NaN 79.576 1 80.237 79.737 80.737 0.66082 0 0 0 1.0015 1 36665 36665 0.45834 0.057624 1 + 7305 17496 4609 4626 8680 8680 -0.09828463460189596 FYYIYWVDWFY 11 Unmodified _FYYIYWVDWFY_ 0 0 0 REV__TLR7|p.H872Y|1|0.49|ENSG00000196664|chrX:12888122-12888122|C/T|missense_variant REV__TLR7|p.H872Y|1|0.49|ENSG00000196664|chrX:12888122-12888122|C/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.2963256835938 3 555.586861 1663.73875 NaN NaN NaN NaN NaN NaN NaN 69.48 1 69.48 68.98 69.98 0 0 0 0 1.0082 1 33552 33552 0 0 1 + 7306 18236 4610 4627 8681 8681 -0.06656631911346267 FYYMDYLMFNY 11 Unmodified _FYYMDYLMFNY_ 0 0 0 ENSG00000124302|ENST00000650847|CHST8 ENSG00000124302|ENST00000650847|CHST8 ENSG00000124302|ENST00000650847|CHST8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.885009765625 3 523.885813 1568.63561 NaN NaN NaN NaN NaN NaN NaN 89.153 1 89.205 88.705 89.705 0.052155 0 0 0 1.008 1 45618 45618 0.094841 0.011491 1 7307 2355 4611 4628 8682 8682 -0.12596203685825458 FYYYFSYMYVY 11 Unmodified _FYYYFSYMYVY_ 0 0 0 REV__ENSG00000077147|ENST00000371142|TM9SF3 REV__ENSG00000077147|ENST00000371142|TM9SF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 804.8443603515625 2 804.841422 1607.66829 NaN NaN NaN NaN NaN NaN NaN 103.03 1 103.03 102.53 103.53 0 0 0 0 1.008 1 56826 56826 0.35063 0.35063 1 + 7308 10551 4612 4629 8683 8683 -0.11123673291308478 GAAVKKLEEI 10 Unmodified _GAAVKKLEEI_ 0 0 0 REV__nc|ENSG00000084734|Q14397|GCKR REV__nc|ENSG00000084734|Q14397|GCKR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 353.2142333984375 3 353.213246 1056.61791 2.6692 0.00094281 0.11453 4.0454E-05 2.7838 0.00098327 353.21329172094596 25.352 0.35921 25.62 25.455 25.814 0.26777 112 36 4 0 0 0 0.19461 1 11534 11534 27.223 5.6331 1 9070800 + 7309 10637 4613 4630 8684 8684 0.09186585165844008 GAAVKKLEEI 10 Unmodified _GAAVKKLEEI_ 0 0 0 REV__nc|ENSG00000084734|Q14397|GCKR REV__nc|ENSG00000084734|Q14397|GCKR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 353.2140197753906 3 353.213246 1056.61791 2.3925 0.00084506 -0.31526 -0.00011135 2.0772 0.00073371 353.21318571244325 25.028 0.26763 25.657 25.521 25.789 0.62915 109 51 3 0 0 0 0.19461 2 11456 11414;11456 27.223 3.8278 1 7391400 + 7310 10637 4613 4630 8685;8686 8686 0.09186585165844008 GACSQCQH 8 Unmodified _GACSQCQH_ 0 0 0 ENSG00000142798|ENST00000374695|HSPG2 ENSG00000142798|ENST00000374695|HSPG2 ENSG00000142798|ENST00000374695|HSPG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 417.1559753417969 2 417.15508 832.295606 NaN NaN NaN NaN NaN NaN NaN 87.518 1 88.194 87.694 88.694 0.67555 0 0 0 0.99035 1 40311 40311 2.5775 0 1 7311 3331 4614 4631 8687 8687 -0.127249530566246 GAGCGCAC 8 Unmodified _GAGCGCAC_ 0 0 0 REV__ENST00000430210.1_1_1:227681388-227682478:-|nuORF REV__ENST00000430210.1_1_1:227681388-227682478:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.002685546875 1 641.184013 640.176737 2.4381 0.0015633 -1.6375 -0.0010499 0.80061 0.00051334 641.185634968634 95.867 0.038345 95.944 95.931 95.969 0.076538 7 5 2 0 0 0 0.14355 1 50809 50809 0 0 1 13497000 + 7312 16249 4615 4632 8688 8688 -0.15774443285852158 GAGQKPAAGP 10 Unmodified _GAGQKPAAGP_ 0 0 0 REV__nc|ENSG00000153956|P54289-4|CACNA2D1 REV__nc|ENSG00000153956|P54289-4|CACNA2D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 427.2314147949219 2 427.229959 852.445365 3.1145 0.0013306 -0.075239 -3.2145E-05 3.0393 0.0012985 427.2299097138186 14.436 0.27369 15.084 14.973 15.246 0.64819 40 26 2 0 0 0 0.83621 1 6462 6462 6.7232 0.96273 1 1094100 + 7313 12690 4616 4633 8689 8689 0.013240585491303136 GAKRHSGL 8 Unmodified _GAKRHSGL_ 0 0 0 REV__nc|ENSG00000080823|Q9UQ07-6|MOK REV__nc|ENSG00000080823|Q9UQ07-6|MOK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.2389221191406 2 413.238119 824.461684 2.9725 0.0012284 0.17452 7.2117E-05 3.147 0.0013005 413.2381196409272 84.398 0.4193 84.646 84.416 84.835 0.24758 63 25 3 0 0 0 0.7441 1 38792 38792 2.3027 0 1 2202000 + 7314 10600 4617 4634 8690 8690 0.04243184505912723 GAKRVRRWRRK 11 Unmodified _GAKRVRRWRRK_ 0 0 0 REV__ENSG00000283093|ENST00000634648|CENPVL2 REV__ENSG00000283093|ENST00000634648|CENPVL2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 735.042724609375 2 734.963452 1467.91235 3.341 0.0024555 3.8052 0.0027967 7.1463 0.0052522 735.466309034517 97.849 0.056389 97.849 97.817 97.873 0 6 4 2 0 0 0 0.13295 1 53415 53415 0.35063 0.35063 1 14030000 + 7315 14547 4618 4635 8691 8691 0.19711056218807244 GALKGRPR 8 Unmodified _GALKGRPR_ 0 0 0 REV__nc|ENSG00000004777|O14559-10|ARHGAP33 REV__nc|ENSG00000004777|O14559-10|ARHGAP33 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 428.0174865722656 2 427.769586 853.524619 3.7478 0.0016032 -0.83009 -0.00035509 2.9177 0.0012481 427.76930279185177 101.78 0.2049 102.1 101.98 102.19 0.31736 8 6 2 0 0 0 0.14337 1 47078 47078 0.69038 0 1 94194 + 7316 10166 4619 4636 8692 8692 0.0919975029393072 GALLFVLFLIR 11 Unmodified _GALLFVLFLIR_ 0 0 0 REV__ENSG00000261949|ENST00000610896|GFY REV__ENSG00000261949|ENST00000610896|GFY MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 631.4046630859375 2 631.405184 1260.79581 NaN NaN NaN NaN NaN NaN NaN 39.082 1 39.72 39.22 40.22 0.63778 0 0 0 1.008 1 17865 17865 0.35063 0 1 + 7317 14697 4620 4637 8693 8693 0.17584880155686733 GALLSLRRL 9 Unmodified _GALLSLRRL_ 0 0 0 REV__ENST00000546810.1_1_12:56367874-56383936:+|nuORF REV__ENST00000546810.1_1_12:56367874-56383936:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 333.5545959472656 3 333.553826 997.639649 2.6434 0.00088172 -0.07253 -2.4192E-05 2.5709 0.00085753 333.5537033545065 12.438 0.088041 13.081 13.033 13.121 0.64272 7 3 3 0 0 0 0.92809 1 5590 5590 5.7319 1.7875 1 24752000 + 7318 17251 4621 4638 8694 8694 0.14073434705096588 GAQRLTDLGI 10 Unmodified _GAQRLTDLGI_ 0 0 0 REV__ENST00000300057.4_1_15:90293148-90293199:-|nuORF REV__ENST00000300057.4_1_15:90293148-90293199:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 348.53350830078125 3 348.532979 1042.57711 NaN NaN NaN NaN NaN NaN NaN 18.571 1 18.571 18.071 19.071 0 0 0 0 0.98866 1 8252 8252 3.8763 0.28927 1 + 7319 15181 4622 4639 8695 8695 0.057522438462456194 GAQRLTDLGI 10 Unmodified _GAQRLTDLGI_ 0 0 0 REV__ENST00000300057.4_1_15:90293148-90293199:-|nuORF REV__ENST00000300057.4_1_15:90293148-90293199:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.5338134765625 3 348.532979 1042.57711 2.318 0.00080789 0.31179 0.00010867 2.6297 0.00091655 348.53315371403795 17.071 0.49876 17.376 17.075 17.574 0.30438 64 39 2 0 0 0 0.82431 2 7680 7680;7731 3.8763 0.28927 1 149210 + 7320 15181 4622 4639 8696;8697 8696 0.057522438462456194 GAQRLTDLGI 10 Unmodified _GAQRLTDLGI_ 0 0 0 REV__ENST00000300057.4_1_15:90293148-90293199:-|nuORF REV__ENST00000300057.4_1_15:90293148-90293199:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.5342712402344 3 348.532979 1042.57711 2.4472 0.00085294 0.66237 0.00023086 3.1096 0.0010838 348.5332037737777 17.024 0.42902 17.685 17.417 17.846 0.66072 67 35 2 0 0 0 0.82431 4 7645 7599;7645;7687;7742 3.8763 0.28927 1 169640 + 7321 15181 4622 4639 8698;8699;8700;8701 8699 0.057522438462456194 GAQRLTDLGI 10 Unmodified _GAQRLTDLGI_ 0 0 0 REV__ENST00000300057.4_1_15:90293148-90293199:-|nuORF REV__ENST00000300057.4_1_15:90293148-90293199:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 348.532979 1042.57711 2.4472 0.00085294 0.66237 0.00023086 3.1096 0.0010838 348.5332037737777 17.024 0.42902 17.685 17.417 17.846 0.66072 0.15466 0.00018246 NaN 3.8763 67 35 2 NaN NaN NaN NaN 0 NaN NaN 0 169640 + 7322 15181 4622 4639 0.057522438462456194 GARARITP 8 Unmodified _GARARITP_ 0 0 0 ENST00000443449.1_2_7:56019735-56019936:+|nuORF ENST00000443449.1_2_7:56019735-56019936:+|nuORF ENST00000443449.1_2_7:56019735-56019936:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.2546081542969 2 421.253769 840.492984 2.5532 0.0010755 -0.41941 -0.00017668 2.1338 0.00089886 421.25354022253066 13.691 0.19657 13.935 13.837 14.033 0.24346 29 21 2 0 0 0 0.29142 1 5973 5973 36.127 2.0246 1 3729100 7323 7953 4623 4640 8702 8702 0.06635757539982023 GARFKGGP 8 Unmodified _GARFKGGP_ 0 0 0 REV__ENST00000550536.5_2_12:70133307-70133607:+|nuORF REV__ENST00000550536.5_2_12:70133307-70133607:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.22357177734375 2 395.221937 788.429321 3.1942 0.0012624 1.0931 0.00043203 4.2874 0.0016945 395.22228903685937 32.591 0.45168 32.846 32.649 33.1 0.25452 42 22 2 0 0 0 0.7471 1 14884 14884 0.69038 0 1 900040 + 7324 17280 4624 4641 8703 8703 0.02664397102910243 GARFKGGP 8 Unmodified _GARFKGGP_ 0 0 0 REV__ENST00000550536.5_2_12:70133307-70133607:+|nuORF REV__ENST00000550536.5_2_12:70133307-70133607:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 395.221937 788.429321 2.5892 0.0010233 1.6566 0.00065473 4.2458 0.001678 395.22242206077226 32.771 0.59839 32.771 32.489 33.087 0 0.046584 0.00010411 NaN 0.69038 68 38 2 NaN NaN NaN NaN 0 NaN NaN 0 553110 + 7325 17280 4624 4641 0.02664397102910243 GARFKGGP 8 Unmodified _GARFKGGP_ 0 0 0 REV__ENST00000550536.5_2_12:70133307-70133607:+|nuORF REV__ENST00000550536.5_2_12:70133307-70133607:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 395.221937 788.429321 2.839 0.0011221 1.8205 0.0007195 4.6595 0.0018415 395.2224802820656 31.939 0.47957 32.556 32.381 32.861 0.61737 -0.16823 0.00023364 NaN 0.69038 57 26 3 NaN NaN NaN NaN 0 NaN NaN 0 635220 + 7326 17280 4624 4641 0.02664397102910243 GARIYHTI 8 Unmodified _GARIYHTI_ 0 0 0 ENSG00000008394|ENST00000396210|MGST1;ENST00000539708.5_1_12:16513351-16516972:+|nuORF ENSG00000008394|ENST00000396210|MGST1 ENSG00000008394|ENST00000396210|MGST1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.7626953125 2 465.761426 929.5083 NaN NaN NaN NaN NaN NaN NaN 26.161 1 26.161 25.661 26.661 0 0 0 0 0.16884 1 11764 11764 44.407 12.29 1 7327 378 4625 4642 8704 8704 0.040726243371977944 GARIYHTI 8 Unmodified _GARIYHTI_ 0 0 0 ENSG00000008394|ENST00000396210|MGST1;ENST00000539708.5_1_12:16513351-16516972:+|nuORF ENSG00000008394|ENST00000396210|MGST1 ENSG00000008394|ENST00000396210|MGST1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.7624816894531 2 465.761426 929.5083 2.5501 0.0011877 0.74478 0.00034689 3.2949 0.0015346 465.76168124450646 25.175 0.22382 25.939 25.81 26.034 0.76356 31 20 2 0 0 0 0.029979 2 11306 11264;11306 77.984 33.577 1 878670 7328 378 4625 4642 8705;8706 8706 0.040726243371977944 GARIYHTI 8 Unmodified _GARIYHTI_ 0 0 0 ENSG00000008394|ENST00000396210|MGST1;ENST00000539708.5_1_12:16513351-16516972:+|nuORF ENSG00000008394|ENST00000396210|MGST1 ENSG00000008394|ENST00000396210|MGST1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.7633361816406 2 465.761426 929.5083 2.8036 0.0013058 0.327 0.00015231 3.1306 0.0014581 465.76157414360466 25.874 0.28497 26.142 25.999 26.284 0.26777 42 27 2 0 0 0 0.29255 2 11728 11728;11776 36.044 11.37 1 692250 7329 378 4625 4642 8707;8708 8707 0.040726243371977944 GARIYHTI 8 Unmodified _GARIYHTI_ 0 0 0 ENSG00000008394|ENST00000396210|MGST1;ENST00000539708.5_1_12:16513351-16516972:+|nuORF ENSG00000008394|ENST00000396210|MGST1 ENSG00000008394|ENST00000396210|MGST1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.76312255859375 2 465.761426 929.5083 2.7299 0.0012715 0.89996 0.00041917 3.6298 0.0016906 465.7616888352509 25.548 0.17545 26.173 26.091 26.267 0.62505 32 18 2 0 0 0 0.29255 1 11707 11707 36.044 36.044 1 531890 7330 378 4625 4642 8709 8709 0.040726243371977944 GARKRQAA 8 Unmodified _GARKRQAA_ 0 0 0 ENST00000464728.5_1_16:838624-839690:+|nuORF ENST00000464728.5_1_16:838624-839690:+|nuORF ENST00000464728.5_1_16:838624-839690:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 429.2574157714844 2 429.256843 856.499132 2.2696 0.00097425 0.0040148 1.7234E-06 2.2736 0.00097598 429.25666954329085 73.488 0.21373 73.488 73.407 73.62 0 41 25 2 0 0 0 0.71384 1 35889 35889 4.756 0 1 1879900 7331 8119 4626 4643 8710 8710 0.06514275771507982 GARKRQAA 8 Unmodified _GARKRQAA_ 0 0 0 ENST00000464728.5_1_16:838624-839690:+|nuORF ENST00000464728.5_1_16:838624-839690:+|nuORF ENST00000464728.5_1_16:838624-839690:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 429.256843 856.499132 2.2696 0.00097425 0.0040148 1.7234E-06 2.2736 0.00097598 429.25666954329085 73.488 0.21373 73.488 73.407 73.62 0 0.16726 4.4084E-05 NaN 4.756 41 25 2 NaN NaN NaN NaN 0 NaN NaN 0 1879900 7332 8119 4626 4643 0.06514275771507982 GARKRQAA 8 Unmodified _GARKRQAA_ 0 0 0 ENST00000464728.5_1_16:838624-839690:+|nuORF ENST00000464728.5_1_16:838624-839690:+|nuORF ENST00000464728.5_1_16:838624-839690:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 429.256843 856.499132 2.2583 0.00096939 -0.056017 -2.4046E-05 2.2023 0.00094535 429.2567188065523 72.757 0.23219 73.456 73.352 73.584 0.69881 0.13468 -7.4539E-06 NaN 4.756 37 20 2 NaN NaN NaN NaN 0 NaN NaN 0 1680600 7333 8119 4626 4643 0.06514275771507982 GARKRQAA 8 Unmodified _GARKRQAA_ 0 0 0 ENST00000464728.5_1_16:838624-839690:+|nuORF ENST00000464728.5_1_16:838624-839690:+|nuORF ENST00000464728.5_1_16:838624-839690:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 429.256843 856.499132 2.4249 0.0010409 -0.25893 -0.00011115 2.166 0.00092976 429.25670948219226 72.547 0.25431 73.211 73.06 73.314 0.66398 -0.11004 -0.00018165 NaN 4.756 62 33 2 NaN NaN NaN NaN 0 NaN NaN 0 2533600 7334 8119 4626 4643 0.06514275771507982 GASLGYREYHS 11 Unmodified _GASLGYREYHS_ 0 0 0 ENST00000547344.5_1_12:58159017-58160836:-|nuORF;ENSG00000111012|ENST00000228606|CYP27B1 ENST00000547344.5_1_12:58159017-58160836:-|nuORF ENST00000547344.5_1_12:58159017-58160836:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 620.4865112304688 2 620.291276 1238.568 NaN NaN NaN NaN NaN NaN NaN 54.596 1 54.596 54.096 55.096 0 0 0 0 1.0059 1 25057 25057 2.9952 0 1 7335 1739 4627 4644 8711 8711 -0.04174149510117786 GCCFCCCCCF 10 Unmodified _GCCFCCCCCF_ 0 0 0 REV__ENSG00000163793|ENST00000296097|DNAJC5G REV__ENSG00000163793|ENST00000296097|DNAJC5G MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.0003662109375 2 546.12385 1090.23315 NaN NaN NaN NaN NaN NaN NaN 79.597 1 79.917 79.417 80.417 0.31998 0 0 0 1.002 1 38885 38885 0 0 1 + 7336 13027 4628 4645 8712 8712 -0.3083596609901633 GCCFCCCCCFC 11 Unmodified _GCCFCCCCCFC_ 0 0 0 REV__ENSG00000163793|ENST00000296097|DNAJC5G REV__ENSG00000163793|ENST00000296097|DNAJC5G MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.631103515625 2 597.628442 1193.24233 NaN NaN NaN NaN NaN NaN NaN 76.71 1 76.965 76.465 77.465 0.25533 0 0 0 1.0082 1 35322 35322 0 0 1 + 7337 13027 4629 4646 8713 8713 -0.3465594080498704 GCCGCCQCDGC 11 Unmodified _GCCGCCQCDGC_ 0 0 0 REV__ENSG00000169903|ENST00000305354|TM4SF4 REV__ENSG00000169903|ENST00000305354|TM4SF4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 525.696044921875 2 526.115068 1050.21558 NaN NaN NaN NaN NaN NaN NaN 61.578 1 61.578 61.078 62.078 0 0 0 0 1.0082 1 28737 28737 0 0 1 + 7338 13405 4630 4647 8714 8714 -0.3075159010029438 GCCGQTYDD 9 Unmodified _GCCGQTYDD_ 0 0 0 nc|ENSG00000167395|O15015-1|ZNF646;ENSG00000167395|ENST00000300850|ZNF646 nc|ENSG00000167395|O15015-1|ZNF646 nc|ENSG00000167395|O15015-1|ZNF646 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.1567077636719 2 481.154942 960.295332 NaN NaN NaN NaN NaN NaN NaN 10.577 1 10.884 10.384 11.384 0.307 0 0 0 0.91452 1 4793 4793 0 0 1 7339 4550 4631 4648 8715 8715 -0.1864041756715551 GCCSSGCCSS 10 Unmodified _GCCSSGCCSS_ 0 0 0 REV__ENSG00000186860|ENST00000334202|KRTAP17-1 REV__ENSG00000186860|ENST00000334202|KRTAP17-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 447.1186218261719 2 447.116448 892.218344 NaN NaN NaN NaN NaN NaN NaN 84.484 1 84.731 84.231 85.231 0.24757 0 0 0 1.002 1 38883 38883 0 0 1 + 7340 14074 4632 4649 8716 8716 -0.23207675379467219 GCDMDCPCNCD 11 Unmodified _GCDMDCPCNCD_ 0 0 0 REV__nc|ENSG00000135272|Q9P1T7-1|MDFIC REV__nc|ENSG00000135272|Q9P1T7-1|MDFIC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.1499633789062 2 588.150162 1174.28577 NaN NaN NaN NaN NaN NaN NaN 94.701 1 95.319 94.819 95.819 0.61736 0 0 0 1.0082 1 43552 43552 0 0 1 + 7341 17948 4633 4650 8717 8717 -0.29440013230851036 GCEQELGLDL 10 Unmodified _GCEQELGLDL_ 0 0 0 nc|ENSG00000169635|Q96JB3-2|HIC2;ENSG00000169635|ENST00000407464|HIC2 nc|ENSG00000169635|Q96JB3-2|HIC2 nc|ENSG00000169635|Q96JB3-2|HIC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.7530517578125 2 538.750064 1075.48558 NaN NaN NaN NaN NaN NaN NaN 28.536 1 28.797 28.297 29.297 0.2602 0 0 0 0.94673 1 12980 12980 13.906 0 1 7342 4701 4634 4651 8718 8718 -0.04914807633258533 GCGDRPRG 8 Unmodified _GCGDRPRG_ 0 0 0 REV__ENST00000216129.6_1_22:43563456-43563771:-|nuORF REV__ENST00000216129.6_1_22:43563456-43563771:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.1917419433594 2 409.190311 816.366069 3.133 0.001282 0.17605 7.2039E-05 3.309 0.001354 409.19036441745084 89.902 0.43208 90.574 90.371 90.803 0.67271 29 19 2 0 0 0 0.7471 1 41393 41393 0.69038 0 1 524450 + 7343 14804 4635 4652 8719 8719 -0.04945911676634296 GCGQCYAA 8 Unmodified _GCGQCYAA_ 0 0 0 REV__ENST00000453177.2_1_9:22748031-22748136:+|nuORF REV__ENST00000453177.2_1_9:22748031-22748136:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 772.2789916992188 1 772.275271 771.267995 3.8893 0.0030036 -1.9325 -0.0014924 1.9568 0.0015112 772.274652169428 1.6258 0.56597 1.6258 1.3365 1.9024 0 68 51 2 0 0 0 0.7471 1 724 724 0 0 1 23775 + 7344 16424 4636 4653 8720 8720 -0.12678856316881593 GCGQCYAA 8 Unmodified _GCGQCYAA_ 0 0 0 REV__ENST00000453177.2_1_9:22748031-22748136:+|nuORF REV__ENST00000453177.2_1_9:22748031-22748136:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 772.2787475585938 1 772.275271 771.267995 3.0384 0.0023465 -0.77517 -0.00059864 2.2633 0.0017479 772.2754991165922 6.7874 0.78864 7.0931 6.7831 7.5718 0.30573 100 69 2 0 0 0 0.7471 1 3151 3151 0 0 1 25769 + 7345 16424 4636 4653 8721 8721 -0.12678856316881593 GCGQCYAA 8 Unmodified _GCGQCYAA_ 0 0 0 REV__ENST00000453177.2_1_9:22748031-22748136:+|nuORF REV__ENST00000453177.2_1_9:22748031-22748136:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 772.275271 771.267995 3.8893 0.0030036 -1.9325 -0.0014924 1.9568 0.0015112 772.274652169428 1.6258 0.56597 1.6258 1.3365 1.9024 0 0.020148 0.0004646 NaN 0 68 51 2 NaN NaN NaN NaN 0 NaN NaN 0 23775 + 7346 16424 4636 4653 -0.12678856316881593 GCGQCYAA 8 Unmodified _GCGQCYAA_ 0 0 0 REV__ENST00000453177.2_1_9:22748031-22748136:+|nuORF REV__ENST00000453177.2_1_9:22748031-22748136:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 772.275271 771.267995 3.1203 0.0024097 -1.1216 -0.00086619 1.9987 0.0015435 772.2753112757517 6.719 0.2468 7.0588 6.8919 7.1387 0.33974 -0.017182 -0.00015509 NaN 0 47 34 2 NaN NaN NaN NaN 0 NaN NaN 0 25013 + 7347 16424 4636 4653 -0.12678856316881593 GCGQCYAA 8 Unmodified _GCGQCYAA_ 0 0 0 REV__ENST00000453177.2_1_9:22748031-22748136:+|nuORF REV__ENST00000453177.2_1_9:22748031-22748136:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 772.275271 771.267995 3.0384 0.0023465 -0.77517 -0.00059864 2.2633 0.0017479 772.2754991165922 6.7874 0.78864 7.0931 6.7831 7.5718 0.30573 0.017182 0.00011246 NaN 0 100 69 2 NaN NaN NaN NaN 0 NaN NaN 0 25769 + 7348 16424 4636 4653 -0.12678856316881593 GCGQCYAA 8 Unmodified _GCGQCYAA_ 0 0 0 REV__ENST00000453177.2_1_9:22748031-22748136:+|nuORF REV__ENST00000453177.2_1_9:22748031-22748136:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 772.275271 771.267995 4.338 0.0033501 -3.6453 -0.0028152 0.69272 0.00053497 772.2750865764353 0.96405 0.31997 1.5855 1.4434 1.7633 0.62142 -0.020148 -0.00085816 NaN 0 54 27 3 NaN NaN NaN NaN 0 NaN NaN 0 64260 + 7349 16424 4636 4653 -0.12678856316881593 GCIKLGLK 8 Unmodified _GCIKLGLK_ 0 0 0 REV__ENSG00000128683|ENST00000358196|GAD1 REV__ENSG00000128683|ENST00000358196|GAD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 416.2595520019531 2 416.259674 830.504795 NaN NaN NaN NaN NaN NaN NaN 71.072 1 71.776 71.276 72.276 0.70386 0 0 0 0.99035 1 34111 34111 2.3027 0 1 + 7350 11768 4637 4654 8722 8722 0.08276238238954647 GCIKPRRKS 9 Unmodified _GCIKPRRKS_ 0 0 0 REV__nc|ENSG00000065883|Q14004-2|CDK13 REV__nc|ENSG00000065883|Q14004-2|CDK13 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.8090209960938 2 522.808385 1043.60222 NaN NaN NaN NaN NaN NaN NaN 63.133 1 63.791 63.291 64.291 0.65808 0 0 0 0.86044 1 28929 28929 7.2892 1.5288 1 + 7351 10436 4638 4655 8723 8723 0.08216020167810711 GCKNEKIAFI 10 Unmodified _GCKNEKIAFI_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.871826171875 3 374.870715 1121.59032 2.7253 0.0010216 -0.19096 -7.1587E-05 2.5343 0.00095004 374.87069736127233 26.799 0.2367 27.064 26.952 27.189 0.26489 24 14 2 0 0 0 0.12676 1 12178 12178 3.8763 0.28927 1 320280 7352 282 4639 4656 8724 8724 0.0343835863395725 GCMDCATN 8 Unmodified _GCMDCATN_ 0 0 0 REV__SALL1|p.I1005M|1|0.36|ENSG00000103449|chr16:51139207-51139207|A/C|missense_variant REV__SALL1|p.I1005M|1|0.36|ENSG00000103449|chr16:51139207-51139207|A/C|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 814.2550659179688 1 814.252821 813.245545 4.2424 0.0034544 -1.213 -0.00098767 3.0294 0.0024667 814.2514125899651 30.502 0.38563 30.758 30.564 30.95 0.25614 37 21 2 0 0 0 0.7441 1 13848 13848 2.3027 0 1 366920 + 7353 18208 4640 4657 8725 8725 -0.16854823776805006 GCMFPGIC 8 Unmodified _GCMFPGIC_ 0 0 0 chr10:89462624-89506310|321|10.73|0.6|4.16|-|0|TE_info:L1PA7,L1PA7_dup9423,L1,LINE,donor,+,89506310,89511743|SLC16A12,None|52 chr10:89462624-89506310|321|10.73|0.6|4.16|-|0|TE_info:L1PA7,L1PA7_dup9423,L1,LINE,donor,+,89506310,89511743|SLC16A12,None|52 chr10:89462624-89506310|321|10.73|0.6|4.16|-|0|TE_info:L1PA7,L1PA7_dup9423,L1,LINE,donor,+,89506310,89511743|SLC16A12,None|52 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 827.3275146484375 1 827.324864 826.317587 4.1599 0.0034415 0.020186 1.67E-05 4.18 0.0034582 827.3247998703706 103.42 0.074448 104.01 103.97 104.05 0.59821 15 7 3 0 0 0 0.7471 1 47847 47847 0 0 1 1089300 7354 131 4641 4658 8726 8726 -0.10251864632402885 GCNEHGCCGCC 11 Unmodified _GCNEHGCCGCC_ 0 0 0 REV__ENSG00000169908|ENST00000305366|TM4SF1 REV__ENSG00000169908|ENST00000305366|TM4SF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.1407470703125 2 543.139932 1084.26531 NaN NaN NaN NaN NaN NaN NaN 40.59 1 40.59 40.09 41.09 0 0 0 0 1.0082 1 18425 18425 0 0 1 + 7355 13407 4642 4659 8727 8727 -0.27345139099975313 GCQNFKDCEQD 11 Unmodified _GCQNFKDCEQD_ 0 0 0 REV__ENST00000488395.1_1_20:57572656-57581383:-|nuORF REV__ENST00000488395.1_1_20:57572656-57581383:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 643.8777465820312 2 643.742444 1285.47034 NaN NaN NaN NaN NaN NaN NaN 49.37 1 50.197 49.697 50.697 0.82705 0 0 0 1.0072 1 22491 22491 1.3295 0 1 + 7356 10870 4643 4660 8728 8728 -0.16098042492762943 GCSLDGKFKF 10 Unmodified _GCSLDGKFKF_ 0 0 0 ENST00000442909.2_1:146374131-146378624:+|nuORF;ENST00000446760.2_1:146374131-146378624:+|nuORF ENST00000442909.2_1:146374131-146378624:+|nuORF ENST00000442909.2_1:146374131-146378624:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 551.732177734375 2 551.273509 1100.53247 3.8491 0.0021219 -0.47303 -0.00026077 3.3761 0.0018612 551.2733180454471 68.852 0.28387 69.107 68.927 69.211 0.25443 28 16 2 0 0 0 0.12452 1 31481 31481 6.7232 0 1 490230 7357 7950 4644 4661 8729 8729 -0.013779032914499112 GCSSCSCAPVC 11 Unmodified _GCSSCSCAPVC_ 0 0 0 REV__ENSG00000185940|ENST00000399676|KRTAP5-5 REV__ENSG00000185940|ENST00000399676|KRTAP5-5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 339.4500732421875 3 339.448324 1015.32314 NaN NaN NaN NaN NaN NaN NaN 66.243 1 66.947 66.447 67.447 0.7047 0 0 0 1.008 1 31391 31391 0.094841 0 1 + 7358 14035 4645 4662 8730 8730 -0.1839055390290696 GCVDPGDS 8 Unmodified _GCVDPGDS_ 0 0 0 ENSG00000160999|ENST00000444095|SH2B2;nc|ENSG00000160999|O14492-2|SH2B2 ENSG00000160999|ENST00000444095|SH2B2 ENSG00000160999|ENST00000444095|SH2B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 375.1435241699219 2 375.142161 748.269769 NaN NaN NaN NaN NaN NaN NaN 73.25 1 73.949 73.449 74.449 0.69881 0 0 0 0.99035 1 35303 35303 2.3027 0 1 7359 4089 4646 4663 8731 8731 -0.1144352402725417 GCYAGGDD 8 Unmodified _GCYAGGDD_ 0 0 0 REV__ENSG00000149596|ENST00000372980|JPH2 REV__ENSG00000149596|ENST00000372980|JPH2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 757.25 1 757.245745 756.238469 3.8833 0.0029406 0.87712 0.00066419 4.7605 0.0036048 757.2470177265548 3.8124 0.94913 3.8124 3.3465 4.2956 0 141 102 2 0 0 0 0.7471 1 1869 1869 0.79363 0.79363 1 63580 + 7360 12576 4647 4664 8732 8732 -0.14940097061366941 GCYAGGDD 8 Unmodified _GCYAGGDD_ 0 0 0 REV__ENSG00000149596|ENST00000372980|JPH2 REV__ENSG00000149596|ENST00000372980|JPH2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 757.245745 756.238469 3.8833 0.0029406 0.87712 0.00066419 4.7605 0.0036048 757.2470177265548 3.8124 0.94913 3.8124 3.3465 4.2956 0 0 0 NaN 0.79363 141 102 2 NaN NaN NaN NaN 0 NaN NaN 0 63580 + 7361 12576 4647 4664 -0.14940097061366941 GDCCFDYD 8 Unmodified _GDCCFDYD_ 0 0 0 ENSG00000164764|ENST00000297354|SBSPON ENSG00000164764|ENST00000297354|SBSPON ENSG00000164764|ENST00000297354|SBSPON MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 937.2738037109375 1 937.270245 936.262969 2.4347 0.002282 -0.1558 -0.00014603 2.2789 0.002136 937.2717120742138 96.179 0.021484 96.256 96.246 96.268 0.076538 5 3 2 0 0 0 0.7471 1 51039 51039 0 0 1 12834000 7362 4343 4648 4665 8733 8733 -0.20771204970151302 GDCECFCA 8 Unmodified _GDCECFCA_ 0 0 0 nc|ENSG00000188162|Q6ZRI0-2|OTOG;ENSG00000188162|ENST00000399397|OTOG;nc|ENSG00000188162|Q6ZRI0|OTOG nc|ENSG00000188162|Q6ZRI0-2|OTOG nc|ENSG00000188162|Q6ZRI0-2|OTOG MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 424.12451171875 2 424.124599 846.234646 NaN NaN NaN NaN NaN NaN NaN 77.746 1 78.409 77.909 78.909 0.66303 0 0 0 0.99035 1 35829 35829 0 0 1 7363 5656 4649 4666 8734 8734 -0.19462226151085815 GDCLCCCCCF 10 Unmodified _GDCLCCCCCF_ 0 0 0 REV__ENST00000538918.5_1_12:133707252-133707324:+|nuORF REV__ENST00000538918.5_1_12:133707252-133707324:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.1399536132812 2 535.140555 1068.26656 NaN NaN NaN NaN NaN NaN NaN 66.337 1 66.337 65.837 66.837 0 0 0 0 1.002 1 31694 31694 0 0 1 + 7364 17195 4650 4667 8735 8735 -0.2648464105545827 GDCNIFHV 8 Unmodified _GDCNIFHV_ 0 0 0 REV__ENST00000449115.1_1_20:33063817-33064123:-|nuORF REV__ENST00000449115.1_1_20:33063817-33064123:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 452.7020568847656 2 452.70272 903.390887 NaN NaN NaN NaN NaN NaN NaN 74.223 1 74.91 74.41 75.41 0.68662 0 0 0 0.99035 1 35870 35870 2.5775 0.51773 1 + 7365 16399 4651 4668 8736 8736 -0.06467276593923543 GDDDDDDDDE 10 Unmodified _GDDDDDDDDE_ 0 0 0 REV__ENSG00000230667|ENST00000596516|SETSIP REV__ENSG00000230667|ENST00000596516|SETSIP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.6190185546875 2 563.152359 1124.29017 NaN NaN NaN NaN NaN NaN NaN 76.943 1 77.606 77.106 78.106 0.66303 0 0 0 1.002 1 35456 35456 0 0 1 + 7366 14576 4652 4669 8737 8737 -0.26700771415085 GDGFGEDD 8 Unmodified _GDGFGEDD_ 0 0 0 REV__ENST00000545396.5_1_12:123463599-123463890:+|nuORF REV__ENST00000545396.5_1_12:123463599-123463890:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.27685546875 1 811.274068 810.266792 3.2814 0.0026621 -0.60139 -0.0004879 2.68 0.0021742 811.2748817779415 88.796 0.2162 88.796 88.689 88.905 0 46 33 2 0 0 0 0.7471 1 46253 46253 0 0 1 51563000 + 7367 11228 4653 4670 8738 8738 -0.1459307588042975 GDGFGEDD 8 Unmodified _GDGFGEDD_ 0 0 0 REV__ENST00000545396.5_1_12:123463599-123463890:+|nuORF REV__ENST00000545396.5_1_12:123463599-123463890:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.2764282226562 1 811.274068 810.266792 3.2923 0.002671 0.035647 2.892E-05 3.3279 0.0026999 811.2745119177965 89.896 0.23798 89.896 89.803 90.041 0 57 36 2 0 0 0 0.7471 1 47109 47109 0.69038 0.69038 1 26451000 + 7368 11228 4653 4670 8739 8739 -0.1459307588042975 GDGFGEDD 8 Unmodified _GDGFGEDD_ 0 0 0 REV__ENST00000545396.5_1_12:123463599-123463890:+|nuORF REV__ENST00000545396.5_1_12:123463599-123463890:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 811.274068 810.266792 2.6718 0.0021676 -0.18808 -0.00015258 2.4838 0.002015 811.2747011266837 89.983 0.21946 90.047 89.917 90.136 0.064346 0.075303 -0.00012129 NaN 0.69038 43 31 2 NaN NaN NaN NaN 0 NaN NaN 0 28085000 + 7369 11228 4653 4670 -0.1459307588042975 GDGSFCED 8 Unmodified _GDGSFCED_ 0 0 0 REV__ENSG00000225968|ENST00000424383|ELFN1 REV__ENSG00000225968|ENST00000424383|ELFN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 830.2705078125 1 829.266875 828.259598 4.3335 0.0035936 -0.62016 -0.00051428 3.7133 0.0030794 829.2678121798052 11.259 0.21377 11.892 11.812 12.025 0.63304 53 30 2 0 0 0 0.7471 1 5094 5094 0.69038 0 1 45215 + 7370 14557 4654 4671 8740 8740 -0.1614013175250193 GDNDDDDDCED 11 Unmodified _GDNDDDDDCED_ 0 0 0 REV__ENSG00000113296|ENST00000350881|THBS4 REV__ENSG00000113296|ENST00000350881|THBS4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 614.164794921875 2 614.164944 1226.31533 NaN NaN NaN NaN NaN NaN NaN 57.149 1 57.917 57.417 58.417 0.76861 0 0 0 1.0082 1 26150 26150 0 0 1 + 7371 11294 4655 4672 8741 8741 -0.2887703988415069 GDNGDPGD 8 Unmodified _GDNGDPGD_ 0 0 0 ENSG00000114270|ENST00000681320|COL7A1;nc|ENSG00000114270|Q02388-2|COL7A1;ENST00000467985.1_1_3:48605632-48607063:-|nuORF ENSG00000114270|ENST00000681320|COL7A1 ENSG00000114270|ENST00000681320|COL7A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.6337890625 2 373.633015 745.251476 NaN NaN NaN NaN NaN NaN NaN 48.364 1 48.626 48.126 49.126 0.26209 0 0 0 0.99035 1 22108 22108 0 0 1 7372 1894 4656 4673 8742 8742 -0.13133942677609411 GDNGDPGD 8 Unmodified _GDNGDPGD_ 0 0 0 ENSG00000114270|ENST00000681320|COL7A1;nc|ENSG00000114270|Q02388-2|COL7A1;ENST00000467985.1_1_3:48605632-48607063:-|nuORF ENSG00000114270|ENST00000681320|COL7A1 ENSG00000114270|ENST00000681320|COL7A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.63409423828125 2 373.633015 745.251476 NaN NaN NaN NaN NaN NaN NaN 48.384 1 48.646 48.146 49.146 0.26209 0 0 0 0.99035 1 22118 22118 0 0 1 7373 1894 4656 4673 8743 8743 -0.13133942677609411 GDNGDPGD 8 Unmodified _GDNGDPGD_ 0 0 0 ENSG00000114270|ENST00000681320|COL7A1;nc|ENSG00000114270|Q02388-2|COL7A1;ENST00000467985.1_1_3:48605632-48607063:-|nuORF ENSG00000114270|ENST00000681320|COL7A1 ENSG00000114270|ENST00000681320|COL7A1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.9948425292969 2 373.633015 745.251476 2.9316 0.0010953 -3.5428 -0.0013237 -0.61118 -0.00022836 373.6328469811771 46.954 0.38873 47.218 47.009 47.398 0.26363 17 12 2 0 0 0 0.14341 1 21386 21386 0 0 1 220040 7374 1894 4656 4673 8744 8744 -0.13133942677609411 GDSDGEFC 8 Unmodified _GDSDGEFC_ 0 0 0 REV__ENSG00000176095|ENST00000321599|IP6K1 REV__ENSG00000176095|ENST00000321599|IP6K1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 829.2720336914062 1 829.266875 828.259598 3.0994 0.0025702 -1.58 -0.0013102 1.5195 0.00126 829.267689959335 4.3636 0.78858 4.7286 4.3723 5.1609 0.36497 167 84 3 0 0 0 0.7471 1 2036 2036 0.69038 0.69038 1 85422 + 7375 13689 4657 4674 8745 8745 -0.1614013175249056 GDSDGEFC 8 Unmodified _GDSDGEFC_ 0 0 0 REV__ENSG00000176095|ENST00000321599|IP6K1 REV__ENSG00000176095|ENST00000321599|IP6K1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 829.266875 828.259598 3.9106 0.0032429 -2.414 -0.0020018 1.4966 0.0012411 829.2672696291099 4.7358 0.55378 4.7358 4.3563 4.9101 0 0.038734 -0.00051764 NaN 0.69038 114 57 3 NaN NaN NaN NaN 0 NaN NaN 0 71741 + 7376 13689 4657 4674 -0.1614013175249056 GDSFLLVVKGQ 11 Unmodified _GDSFLLVVKGQ_ 0 0 0 REV__COL6A6|p.R1295Q|1|0.08|ENSG00000206384|chr3:130581897-130581897|G/A|missense_variant REV__COL6A6|p.R1295Q|1|0.08|ENSG00000206384|chr3:130581897-130581897|G/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.3305053710938 2 581.826963 1161.63937 3.6978 0.0021515 -0.39641 -0.00023064 3.3014 0.0019208 581.8266342270418 48.192 0.256 48.845 48.682 48.938 0.65356 16 9 2 0 0 0 0.41238 1 22030 22030 21.537 3.1639 1 206190 + 7377 10071 4658 4675 8746 8746 0.06501970194585738 GDSSPLIR 8 Unmodified _GDSSPLIR_ 0 0 0 ENSG00000083312|ENST00000337273|TNPO1;nc|ENSG00000083312|Q92973-2|TNPO1 ENSG00000083312|ENST00000337273|TNPO1 ENSG00000083312|ENST00000337273|TNPO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.7308654785156 2 422.729792 843.445031 NaN NaN NaN NaN NaN NaN NaN 62.829 1 63.079 62.579 63.579 0.24965 0 0 0 0.99035 1 28773 28773 4.756 0 1 7378 939 4659 4676 8747 8747 0.01704638829301075 GECCAVCP 8 Unmodified _GECCAVCP_ 0 0 0 ENST00000470167.1_1_2:189839215-189849763:+|nuORF;COL3A1|p.E832Dfs*7|1|0.07|ENSG00000168542|chr2:189003004-189003005|-/CACTCTTTAT|frameshift_variant;nc|ENSG00000168542|P02461-2|COL3A1;COL3A1|p.V1326Ffs*61|1|0.15|ENSG00000168542|chr2:189010330-189010330|G/-|frameshift_variant;ENSG00000168542|ENST00000304636|COL3A1;CON__P04258 ENST00000470167.1_1_2:189839215-189849763:+|nuORF ENST00000470167.1_1_2:189839215-189849763:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.7892761230469 2 391.13751 780.260466 NaN NaN NaN NaN NaN NaN NaN 67.724 1 67.977 67.477 68.477 0.25227 0 0 0 0.99035 1 31023 31023 0.79363 0 1 + 7379 205 4660 4677 8748 8748 -0.13845331908794378 GECCINCSK 9 Unmodified _GECCINCSK_ 0 0 0 ENST00000526582.1_1_11:90848103-90848802:-|nuORF ENST00000526582.1_1_11:90848103-90848802:-|nuORF ENST00000526582.1_1_11:90848103-90848802:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.68450927734375 2 478.685355 955.356158 NaN NaN NaN NaN NaN NaN NaN 94.309 1 94.395 93.895 94.895 0.086212 0 0 0 0.59707 1 49583 49583 15.847 3.3156 1 7380 8678 4661 4678 8749 8749 -0.12330603788564076 GEDDDDDECG 10 Unmodified _GEDDDDDECG_ 0 0 0 nc|ENSG00000183023|P32418-2|SLC8A1;nc|ENSG00000183023|P32418-3|SLC8A1;nc|ENSG00000183023|P32418-4|SLC8A1;nc|ENSG00000183023|P32418-5|SLC8A1;ENSG00000183023|ENST00000332839|SLC8A1 nc|ENSG00000183023|P32418-2|SLC8A1 nc|ENSG00000183023|P32418-2|SLC8A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.2312622070312 2 535.148565 1068.28258 NaN NaN NaN NaN NaN NaN NaN 63.539 1 63.539 63.039 64.039 0 0 0 0 1.002 1 29906 29906 0 0 1 7381 5359 4662 4679 8750 8750 -0.24883202216346945 GEDDDDDECG 10 Unmodified _GEDDDDDECG_ 0 0 0 nc|ENSG00000183023|P32418-2|SLC8A1;nc|ENSG00000183023|P32418-3|SLC8A1;nc|ENSG00000183023|P32418-4|SLC8A1;nc|ENSG00000183023|P32418-5|SLC8A1;ENSG00000183023|ENST00000332839|SLC8A1 nc|ENSG00000183023|P32418-2|SLC8A1 nc|ENSG00000183023|P32418-2|SLC8A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.1482543945312 2 535.148565 1068.28258 NaN NaN NaN NaN NaN NaN NaN 90.762 1 90.762 90.262 91.262 0 0 0 0 1.002 1 47790 47790 0 0 1 7382 5359 4662 4679 8751 8751 -0.24883202216346945 GEDGDGDF 8 Unmodified _GEDGDGDF_ 0 0 0 ENSG00000008300|ENST00000164024|CELSR3;nc|ENSG00000008300|Q9NYQ7-2|CELSR3 ENSG00000008300|ENST00000164024|CELSR3 ENSG00000008300|ENST00000164024|CELSR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.278076171875 1 811.274068 810.266792 3.2601 0.0026448 0.013404 1.0875E-05 3.2735 0.0026557 811.2758296440171 86.505 0.19908 86.505 86.468 86.667 0 45 27 2 0 0 0 0.7471 1 44466 44466 0 0 1 39151000 7383 376 4663 4680 8752 8752 -0.14593075880407014 GEEAVDAVT 9 Unmodified _GEEAVDAVT_ 0 0 0 REV__nc|ENSG00000154358|Q5VST9|OBSCN REV__nc|ENSG00000154358|Q5VST9|OBSCN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 890.4122924804688 1 890.410168 889.402892 3.744 0.0033337 -0.46661 -0.00041547 3.2774 0.0029182 890.4100418637393 50.323 0.26132 50.323 50.199 50.461 0 17 11 2 0 0 0 0.015468 1 23030 23030 74.423 0 1 585060 + 7384 12706 4664 4681 8753 8753 -0.046233813697654114 GEECWYCG 8 Unmodified _GEECWYCG_ 0 0 0 REV__ENSG00000099139|ENST00000674117|PCSK5 REV__ENSG00000099139|ENST00000674117|PCSK5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 316.0974426269531 3 316.107173 945.299689 NaN NaN NaN NaN NaN NaN NaN 46.851 1 47.503 47.003 48.003 0.65219 0 0 0 0.99035 1 21457 21457 0.40072 0 1 + 7385 10779 4665 4682 8754 8754 -0.1751490835357572 GEECWYCG 8 Unmodified _GEECWYCG_ 0 0 0 REV__ENSG00000099139|ENST00000674117|PCSK5 REV__ENSG00000099139|ENST00000674117|PCSK5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 316.0971374511719 3 316.107173 945.299689 NaN NaN NaN NaN NaN NaN NaN 65.788 1 66.445 65.945 66.945 0.65672 0 0 0 0.99035 1 30160 30160 0.40072 0 1 + 7386 10779 4665 4682 8755 8755 -0.1751490835357572 GEEEEEDY 8 Unmodified _GEEEEEDY_ 0 0 0 ENST00000433596.1_1_2:43908485-43908692:-|nuORF;ZNF106|p.K377Nfs*8|1|0.04|ENSG00000103994|chr15:42451072-42451073|-/GGTGAGACAG|frameshift_variant;ENSG00000103994|ENST00000564754|ZNF106;nc|ENSG00000103994|Q9H2Y7|ZNF106 REV__nc|ENSG00000157510|Q8TED9-2|AFAP1L1;ENSG00000103994|ENST00000564754|ZNF106 REV__nc|ENSG00000157510|Q8TED9-2|AFAP1L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.1757507324219 2 500.174909 998.335265 3.1257 0.0015634 -0.87061 -0.00043546 2.2551 0.0011279 500.17439049131127 32.994 0.40469 33.612 33.376 33.781 0.61831 77 19 7 0 0 0 0.74071 1 15176 15176 2.5775 0 1 2187000 7387 12804;1418 4666 4683 8756 8756 -0.16396876091221202 GEEIPPDCEEE 11 Unmodified _GEEIPPDCEEE_ 0 0 0 REV__nc|ENSG00000185024|Q92994-2|BRF1 REV__nc|ENSG00000185024|Q92994-2|BRF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 623.7431030273438 2 623.742633 1245.47071 NaN NaN NaN NaN NaN NaN NaN 58.767 1 59.434 58.934 59.934 0.66703 0 0 0 1.0061 1 26899 26899 2.7352 0.67545 1 + 7388 18075 4667 4684 8757 8757 -0.1422034429190262 GEEYYVACDNT 11 Unmodified _GEEYYVACDNT_ 0 0 0 nc|ENSG00000009694|Q9UKZ4-2|TENM1;ENSG00000009694|ENST00000371130|TENM1 nc|ENSG00000009694|Q9UKZ4-2|TENM1 nc|ENSG00000009694|Q9UKZ4-2|TENM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.8345642089844 3 421.832654 1262.47613 NaN NaN NaN NaN NaN NaN NaN 4.9324 1 4.9324 4.4324 5.4324 0 0 0 0 1.008 1 2240 2240 0.073264 0 1 7389 389 4668 4685 8758 8758 -0.1446062070942844 GEEYYVACDNT 11 Unmodified _GEEYYVACDNT_ 0 0 0 nc|ENSG00000009694|Q9UKZ4-2|TENM1;ENSG00000009694|ENST00000371130|TENM1 nc|ENSG00000009694|Q9UKZ4-2|TENM1 nc|ENSG00000009694|Q9UKZ4-2|TENM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.8341979980469 3 421.832654 1262.47613 NaN NaN NaN NaN NaN NaN NaN 6.2874 1 6.6272 6.1272 7.1272 0.33974 0 0 0 1.008 1 2844 2844 0.073264 0 1 7390 389 4668 4685 8759 8759 -0.1446062070942844 GEGLLAALSL 10 Unmodified _GEGLLAALSL_ 0 0 0 REV__ENST00000518629.7_2_19:15791179-15807110:+|nuORF REV__ENST00000518629.7_2_19:15791179-15807110:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.2774658203125 2 472.276575 942.538597 3.1447 0.0014852 -0.74644 -0.00035253 2.3982 0.0011326 472.275934591956 44.409 0.76403 45.059 44.751 45.515 0.64999 61 33 3 0 0 0 0.14785 1 20408 20408 46.021 0.32134 1 1117300 + 7391 17031 4669 4686 8760 8760 0.06502938211713172 GEGTWGSLFEI 11 Unmodified _GEGTWGSLFEI_ 0 0 0 ENST00000517309.5_1_8:97345868-97346075:+|nuORF;nc|ENSG00000156471|P48651-3|PTDSS1 ENST00000517309.5_1_8:97345868-97346075:+|nuORF ENST00000517309.5_1_8:97345868-97346075:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 598.787109375 2 598.285128 1194.5557 4.1468 0.002481 -0.4695 -0.0002809 3.6773 0.0022001 598.2849797395806 83.575 0.17906 84.237 84.169 84.348 0.66219 18 10 2 0 0 0 0.69508 1 38526 38526 11.495 4.7715 1 463670 7392 8602 4670 4687 8761 8761 -0.03379185973130916 GEGTWGSLFEI 11 Unmodified _GEGTWGSLFEI_ 0 0 0 ENST00000517309.5_1_8:97345868-97346075:+|nuORF;nc|ENSG00000156471|P48651-3|PTDSS1 ENST00000517309.5_1_8:97345868-97346075:+|nuORF ENST00000517309.5_1_8:97345868-97346075:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 598.285128 1194.5557 3.7409 0.0022381 -0.26563 -0.00015892 3.4752 0.0020792 598.2853396634172 84.148 0.26503 84.395 84.25 84.515 0.24757 0.079305 0.00013733 NaN 11.495 19 13 2 NaN NaN NaN NaN 0 NaN NaN 0 382810 7393 8602 4670 4687 -0.03379185973130916 GEHKGTHL 8 Unmodified _GEHKGTHL_ 0 0 0 REV__ENSG00000215421|ENST00000299687|ZNF407 REV__ENSG00000215421|ENST00000299687|ZNF407 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 439.7289123535156 2 439.727584 877.440614 NaN NaN NaN NaN NaN NaN NaN 26.982 1 27.761 27.261 28.261 0.7787 0 0 0 0.88162 1 12125 12125 13.508 0 1 + 7394 14526 4671 4688 8762 8762 -0.00300825593603804 GEIEEGWKLVK 11 Unmodified _GEIEEGWKLVK_ 0 0 0 REV__nc|ENSG00000100483|Q9H867-2|VCPKMT REV__nc|ENSG00000100483|Q9H867-2|VCPKMT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 644.352783203125 2 644.350803 1286.68705 NaN NaN NaN NaN NaN NaN NaN 95.044 1 95.312 94.812 95.812 0.2675 0 0 0 1.0072 1 43672 43672 1.3295 0.13619 1 + 7395 10833 4672 4689 8763 8763 0.05517624394747145 GEKKLLWK 8 Unmodified _GEKKLLWK_ 0 0 0 REV__ENSG00000266412|ENST00000581486|NCOA4 REV__ENSG00000266412|ENST00000581486|NCOA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.3099365234375 2 501.310752 1000.60695 NaN NaN NaN NaN NaN NaN NaN 14.416 1 14.722 14.222 15.222 0.3069 0 0 0 0.99035 1 6523 6523 0.69038 0 1 + 7396 14708 4673 4690 8764 8764 0.10667227582234773 GEKLLRPSL 9 Unmodified _GEKLLRPSL_ 0 0 0 nc|ENSG00000064651|P55011-3|SLC12A2;ENSG00000064651|ENST00000262461|SLC12A2 nc|ENSG00000064651|P55011-3|SLC12A2 nc|ENSG00000064651|P55011-3|SLC12A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.8131103515625 2 506.811116 1011.60768 3.1267 0.0015846 0.47813 0.00024232 3.6048 0.001827 506.81138758114207 40.318 0.29407 40.318 40.14 40.434 0 23 9 3 0 0 0 0.034495 1 18269 18269 53.833 1.5644 1 1071100 7397 674 4674 4691 8765 8765 0.10234022231270501 GEKLLRPSL 9 Unmodified _GEKLLRPSL_ 0 0 0 nc|ENSG00000064651|P55011-3|SLC12A2;ENSG00000064651|ENST00000262461|SLC12A2 nc|ENSG00000064651|P55011-3|SLC12A2 nc|ENSG00000064651|P55011-3|SLC12A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.8117980957031 2 506.811116 1011.60768 3.1254 0.001584 0.21377 0.00010834 3.3392 0.0016923 506.811168350646 39.209 0.37346 40.007 39.84 40.213 0.79762 33 17 3 0 0 0 0.071132 1 17772 17772 39.95 1.9757 1 524760 7398 674 4674 4691 8766 8766 0.10234022231270501 GEKLLRPSL 9 Unmodified _GEKLLRPSL_ 0 0 0 nc|ENSG00000064651|P55011-3|SLC12A2;ENSG00000064651|ENST00000262461|SLC12A2 nc|ENSG00000064651|P55011-3|SLC12A2 nc|ENSG00000064651|P55011-3|SLC12A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.81256103515625 2 506.811116 1011.60768 3.43 0.0017384 0.14486 7.3419E-05 3.5748 0.0018118 506.81117553214756 39.524 0.38023 40.161 39.971 40.352 0.63778 36 17 3 0 0 0 0.034495 1 18022 18022 53.833 0.42879 1 2579500 7399 674 4674 4691 8767 8767 0.10234022231270501 GELKKRNL 8 Unmodified _GELKKRNL_ 0 0 0 REV__ENSG00000184897|ENST00000333762|H1-10 REV__ENSG00000184897|ENST00000333762|H1-10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 319.8667907714844 3 319.866181 956.576714 1.6871 0.00053963 0.33889 0.0001084 2.0259 0.00064803 319.86637141497835 12.891 0.3506 13.198 12.969 13.32 0.30727 35 11 5 0 0 0 0.71911 1 5859 5859 4.3292 0 1 11242000 + 7400 13991 4675 4692 8768 8768 0.09668868917037798 GELKKRNL 8 Unmodified _GELKKRNL_ 0 0 0 REV__ENSG00000184897|ENST00000333762|H1-10 REV__ENSG00000184897|ENST00000333762|H1-10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 319.86700439453125 3 319.866181 956.576714 2.4172 0.00077317 0.58664 0.00018765 3.0038 0.00096081 319.8664073488727 12.753 0.23655 13.396 13.278 13.514 0.64272 12 6 3 0 0 0 0.13532 1 5727 5727 49.933 4.2334 1 11805000 + 7401 13991 4675 4692 8769 8769 0.09668868917037798 GELRLRVRRVL 11 Unmodified _GELRLRVRRVL_ 0 0 0 nc|ENSG00000178950|O14976-2|GAK;ENSG00000178950|ENST00000314167|GAK;ENST00000513935.1_1_4:906456-925975:-|nuORF nc|ENSG00000178950|O14976-2|GAK nc|ENSG00000178950|O14976-2|GAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.3000183105469 3 456.296638 1365.86809 NaN NaN NaN NaN NaN NaN NaN 103.55 1 103.87 103.37 104.37 0.31863 0 0 0 1.008 1 47871 47871 0.073264 0 1 7402 5186 4676 4693 8770 8770 0.19978607281973382 GEMGKPVVI 9 Unmodified _GEMGKPVVI_ 0 0 0 ENSG00000141429|ENST00000269195|GALNT1;nc|ENSG00000141429|Q10472-2|GALNT1 ENSG00000141429|ENST00000269195|GALNT1 ENSG00000141429|ENST00000269195|GALNT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.2578125 2 465.259871 928.505189 NaN NaN NaN NaN NaN NaN NaN 15.69 1 15.996 15.496 16.496 0.306 0 0 0 0.91238 1 7096 7096 0.52476 0 1 7403 3249 4677 4694 8771 8771 0.03807613168157786 GEPPYLIL 8 Unmodified _GEPPYLIL_ 0 0 0 REV__ENST00000534326.5_1_6:44102470-44104118:+|nuORF REV__ENST00000534326.5_1_6:44102470-44104118:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.2562255859375 2 451.255111 900.49567 NaN NaN NaN NaN NaN NaN NaN 71.036 1 71.036 70.536 71.536 0 0 0 0 0.82924 1 34515 34515 16.942 3.4344 1 + 7404 17166 4678 4695 8772 8772 0.04144168154300587 GEPPYLIL 8 Unmodified _GEPPYLIL_ 0 0 0 REV__ENST00000534326.5_1_6:44102470-44104118:+|nuORF REV__ENST00000534326.5_1_6:44102470-44104118:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.25616455078125 2 451.255111 900.49567 NaN NaN NaN NaN NaN NaN NaN 70.186 1 70.847 70.347 71.347 0.66071 0 0 0 0.82924 1 32181 32181 16.942 3.4344 1 + 7405 17166 4678 4695 8773 8773 0.04144168154300587 GERKRGDL 8 Unmodified _GERKRGDL_ 0 0 0 nc|ENSG00000140688|Q96GQ5-2|RUSF1;ENST00000568491.1_1_16:31502158-31504599:-|nuORF nc|ENSG00000140688|Q96GQ5-2|RUSF1 nc|ENSG00000140688|Q96GQ5-2|RUSF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.75958251953125 2 465.759415 929.504277 NaN NaN NaN NaN NaN NaN NaN 36.003 1 36.795 36.295 37.295 0.79131 0 0 0 0.99035 1 16318 16318 2.8892 0 1 7406 9067 4679 4696 8774 8774 0.03670534843467976 GERRLGAAL 9 Unmodified _GERRLGAAL_ 0 0 0 REV__ENST00000314833.10_1_1:242511449-242612731:-|nuORF REV__ENST00000314833.10_1_1:242511449-242612731:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.8548889160156 3 314.854164 941.540663 2.0552 0.0006471 0.50731 0.00015973 2.5626 0.00080683 314.85430965080485 14.973 0.56198 15.28 15.045 15.607 0.3069 151 55 4 0 0 0 0.029308 1 6786 6786 43.982 0 1 852960 + 7407 15284 4680 4697 8775 8775 0.06755411740175532 GFCCDMLP 8 Unmodified _GFCCDMLP_ 0 0 0 ENST00000593011.5_1_1:152140679-152287408:+|nuORF ENST00000593011.5_1_1:152140679-152287408:+|nuORF ENST00000593011.5_1_1:152140679-152287408:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 443.17279052734375 2 443.16881 884.323067 3.702 0.0016406 2.3205 0.0010284 6.0225 0.002669 443.1712580735347 104.15 0.051468 104.47 104.44 104.49 0.31863 18 5 4 0 0 0 0.7471 1 48125 48125 0.79363 0.10326 1 2506700 7408 9252 4681 4698 8776 8776 -0.1237218584059292 GFCCDMLP 8 Unmodified _GFCCDMLP_ 0 0 0 ENST00000593011.5_1_1:152140679-152287408:+|nuORF ENST00000593011.5_1_1:152140679-152287408:+|nuORF ENST00000593011.5_1_1:152140679-152287408:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 443.1722717285156 2 443.16881 884.323067 3.3062 0.0014652 2.4411 0.0010818 5.7473 0.002547 443.171021510535 104.1 0.051537 104.7 104.68 104.73 0.59885 21 7 4 0 0 0 0.7471 1 48133 48133 0.79363 0.10326 1 3002400 7409 9252 4681 4698 8777 8777 -0.1237218584059292 GFGFGAGG 8 Unmodified _GFGFGAGG_ 0 0 0 REV__CON__Q6IFZ6 REV__CON__Q6IFZ6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 669.3027954101562 1 669.299101 668.291825 4.0917 0.0027386 1.0736 0.00071853 5.1653 0.0034571 669.2997756020703 84.667 0.69446 85.333 84.963 85.658 0.66566 69 39 2 0 0 0 0.7471 1 38910 38910 0 0 1 968200 + + 7410 10099 4682 4699 8778 8778 -0.05558931496511832 GFGFGAGG 8 Unmodified _GFGFGAGG_ 0 0 0 REV__CON__Q6IFZ6 REV__CON__Q6IFZ6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 669.299101 668.291825 3.8125 0.0025517 1.2524 0.00083825 5.0649 0.00339 669.3000719640213 84.704 0.72865 84.952 84.584 85.312 0.24758 -0.19061 7.3499E-05 NaN 0 59 41 2 NaN NaN NaN NaN 0 NaN NaN 0 922890 + + 7411 10099 4682 4699 -0.05558931496511832 GFGFGAGG 8 Unmodified _GFGFGAGG_ 0 0 0 REV__CON__Q6IFZ6 REV__CON__Q6IFZ6 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 669.299101 668.291825 4.0917 0.0027386 1.0736 0.00071853 5.1653 0.0034571 669.2997756020703 84.667 0.69446 85.333 84.963 85.658 0.66566 0.19061 -4.6224E-05 NaN 0 69 39 2 NaN NaN NaN NaN 0 NaN NaN 0 968200 + + 7412 10099 4682 4699 -0.05558931496511832 GFGIRRIRD 9 Unmodified _GFGIRRIRD_ 0 0 0 REV__nc|ENSG00000038295|O43897-2|TLL1 REV__nc|ENSG00000038295|O43897-2|TLL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.31884765625 2 545.317432 1088.62031 3.6481 0.0019894 -1.0829 -0.00059054 2.5652 0.0013988 545.3167571998881 83.226 1.6957 83.886 83.094 84.79 0.66019 259 100 4 0 0 0 1.0246 1 38154 38154 3.5965 1.2938 1 2968300 + 7413 10306 4683 4700 8779 8779 0.07954478414194455 GFITCSPYHIH 11 Unmodified _GFITCSPYHIH_ 0 0 0 REV__ENST00000503065.1_1_5:39269825-39270805:-|nuORF REV__ENST00000503065.1_1_5:39269825-39270805:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 425.5386657714844 3 425.537736 1273.59138 3.0853 0.0013129 -0.28547 -0.00012148 2.7998 0.0011914 425.5374057387606 30.04 0.1179 30.04 29.974 30.092 0 10 7 2 0 0 0 0.91068 1 13590 13590 1.3296 0.1363 1 264970 + 7414 16900 4684 4701 8780 8780 -0.03447426997126968 GFITCSPYHIH 11 Unmodified _GFITCSPYHIH_ 0 0 0 REV__ENST00000503065.1_1_5:39269825-39270805:-|nuORF REV__ENST00000503065.1_1_5:39269825-39270805:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 425.537736 1273.59138 3.0853 0.0013129 -0.28547 -0.00012148 2.7998 0.0011914 425.5374057387606 30.04 0.1179 30.04 29.974 30.092 0 -0.019281 -0.00029185 NaN 1.3296 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 264970 + 7415 16900 4684 4701 -0.03447426997126968 GFITCSPYHIH 11 Unmodified _GFITCSPYHIH_ 0 0 0 REV__ENST00000503065.1_1_5:39269825-39270805:-|nuORF REV__ENST00000503065.1_1_5:39269825-39270805:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 425.537736 1273.59138 3.0295 0.0012892 0.042088 1.791E-05 3.0716 0.0013071 425.5378479646112 29.461 0.27984 30.079 30.007 30.287 0.61789 0.019281 0.00012632 NaN 1.3296 22 17 2 NaN NaN NaN NaN 0 NaN NaN 0 150270 + 7416 16900 4684 4701 -0.03447426997126968 GFLVWRYLLRR 11 Unmodified _GFLVWRYLLRR_ 0 0 0 nc|ENSG00000276043|Q96T88-2|UHRF1;ENSG00000276043|ENST00000650932|UHRF1;ENST00000540175.1_1_12:20704556-20705942:+|nuORF;ENSG00000147854|ENST00000276893|UHRF2 nc|ENSG00000276043|Q96T88-2|UHRF1;ENSG00000147854|ENST00000276893|UHRF2 nc|ENSG00000276043|Q96T88-2|UHRF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 739.9423828125 2 739.940788 1477.86702 NaN NaN NaN NaN NaN NaN NaN 52.246 1 52.508 52.008 53.008 0.26227 0 0 0 1.008 1 23883 23883 0.35063 0 1 7417 6349;3584 4685 4702 8781 8781 0.14720392913045544 GFMFLLVG 8 Unmodified _GFMFLLVG_ 0 0 0 nc|ENSG00000198797|Q9C0B6-2|BRINP2;ENST00000478325.1_1_1:177226076-177250661:+|nuORF nc|ENSG00000198797|Q9C0B6-2|BRINP2 nc|ENSG00000198797|Q9C0B6-2|BRINP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.2419128417969 2 442.24095 882.467346 3.2504 0.0014375 0.051202 2.2644E-05 3.3016 0.0014601 442.24086386424335 88.277 0.44981 88.956 88.703 89.153 0.67818 46 18 3 0 0 0 0.7471 1 40620 40620 0.79363 0 1 2861100 7418 8251 4686 4703 8782 8782 0.02141146973360719 GFPSCVPC 8 Unmodified _GFPSCVPC_ 0 0 0 ENSG00000130702|ENST00000252999|LAMA5 ENSG00000130702|ENST00000252999|LAMA5 ENSG00000130702|ENST00000252999|LAMA5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 405.17144775390625 2 405.169667 808.324781 NaN NaN NaN NaN NaN NaN NaN 13.995 1 13.995 13.495 14.495 0 0 0 0 0.99035 1 6156 6156 5.7604 0 1 7419 2608 4687 4704 8783 8783 -0.08704808760342075 GFSTFSEM 8 Unmodified _GFSTFSEM_ 0 0 0 REV__ENST00000468710.1_1_3:197265729-197273314:-|nuORF REV__ENST00000468710.1_1_3:197265729-197273314:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.188232421875 2 453.189111 904.363669 NaN NaN NaN NaN NaN NaN NaN 16.56 1 16.865 16.365 17.365 0.30438 0 0 0 0.99035 1 7496 7496 2.5775 0 1 + 7420 16571 4688 4705 8784 8784 -0.0923380492497472 GGCEECCCCCC 11 Unmodified _GGCEECCCCCC_ 0 0 0 REV__ENSG00000170075|ENST00000367282|GPR37L1 REV__ENSG00000170075|ENST00000367282|GPR37L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.7207641601562 2 556.608761 1111.20297 NaN NaN NaN NaN NaN NaN NaN 64.116 1 64.116 63.616 64.616 0 0 0 0 1.0082 1 30301 30301 0 0 1 + 7421 13420 4689 4706 8785 8785 -0.3481836955484141 GGDCACFG 8 Unmodified _GGDCACFG_ 0 0 0 REV__ENSG00000197565|ENST00000334504|COL4A6 REV__ENSG00000197565|ENST00000334504|COL4A6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.1219787597656 2 365.120174 728.225796 2.8223 0.0010305 -2.6952 -0.00098406 0.12712 4.6413E-05 365.12104749639263 66.653 0.58702 66.903 66.514 67.101 0.2501 36 31 2 0 0 0 0.7471 1 30535 30535 0 0 1 358760 + 7422 14288 4690 4707 8786 8786 -0.1491883172523103 GGDNSKRS 8 Unmodified _GGDNSKRS_ 0 0 0 REV__ENSG00000173258|ENST00000309235|ZNF483 REV__ENSG00000173258|ENST00000309235|ZNF483 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 410.70025634765625 2 410.699023 819.383493 NaN NaN NaN NaN NaN NaN NaN 50.498 1 50.76 50.26 51.26 0.26146 0 0 0 0.99035 1 23080 23080 2.3027 1.5091 1 + 7423 13593 4691 4708 8787 8787 -0.03342292870001984 GGDNSKRS 8 Unmodified _GGDNSKRS_ 0 0 0 REV__ENSG00000173258|ENST00000309235|ZNF483 REV__ENSG00000173258|ENST00000309235|ZNF483 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 410.7001037597656 2 410.699023 819.383493 2.9575 0.0012146 0.16129 6.624E-05 3.1187 0.0012809 410.69903400469934 49.897 0.26169 50.554 50.436 50.698 0.65735 15 10 2 0 0 0 0.7441 1 22826 22826 2.3027 1.6124 1 295200 + 7424 13593 4691 4708 8788 8788 -0.03342292870001984 GGDNSKRS 8 Unmodified _GGDNSKRS_ 0 0 0 REV__ENSG00000173258|ENST00000309235|ZNF483 REV__ENSG00000173258|ENST00000309235|ZNF483 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 410.699023 819.383493 2.7746 0.0011395 -0.23557 -9.6749E-05 2.539 0.0010428 410.69890590351014 49.769 0.24094 50.592 50.515 50.756 0.82285 0.019093 -0.00022941 NaN 2.3027 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 312800 + 7425 13593 4691 4708 -0.03342292870001984 GGDNSKRS 8 Unmodified _GGDNSKRS_ 0 0 0 REV__ENSG00000173258|ENST00000309235|ZNF483 REV__ENSG00000173258|ENST00000309235|ZNF483 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 410.699023 819.383493 2.9575 0.0012146 0.16129 6.624E-05 3.1187 0.0012809 410.69903400469934 49.897 0.26169 50.554 50.436 50.698 0.65735 -0.019093 9.6564E-05 NaN 2.3027 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 295200 + 7426 13593 4691 4708 -0.03342292870001984 GGEDGDTDDDG 11 Unmodified _GGEDGDTDDDG_ 0 0 0 nc|ENSG00000106278|P23471-2|PTPRZ1;ENSG00000106278|ENST00000393386|PTPRZ1 nc|ENSG00000106278|P23471-2|PTPRZ1 nc|ENSG00000106278|P23471-2|PTPRZ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.667724609375 2 526.66798 1051.32141 NaN NaN NaN NaN NaN NaN NaN 92.193 1 92.276 91.776 92.776 0.082848 0 0 0 1.0082 1 47982 47982 0 0 1 7427 1561 4692 4709 8789 8789 -0.20220153590344125 GGFGKRAA 8 Unmodified _GGFGKRAA_ 0 0 0 ENST00000360614.7_1_19:5719818-5720154:-|nuORF ENST00000360614.7_1_19:5719818-5720154:-|nuORF ENST00000360614.7_1_19:5719818-5720154:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.88134765625 2 382.214112 762.413671 2.7448 0.0010491 -0.18361 -7.0177E-05 2.5612 0.00097894 382.21410098416436 14.13 0.18532 14.13 13.99 14.176 0 15 11 2 0 0 0 0.14355 1 6193 6193 0 0 1 226010 7428 7216 4693 4710 8790 8790 0.02296110585837141 GGFGKRAA 8 Unmodified _GGFGKRAA_ 0 0 0 ENST00000360614.7_1_19:5719818-5720154:-|nuORF ENST00000360614.7_1_19:5719818-5720154:-|nuORF ENST00000360614.7_1_19:5719818-5720154:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 382.214112 762.413671 2.8924 0.0011055 -0.91838 -0.00035102 1.974 0.00075451 382.21382508128494 13.168 0.12824 13.811 13.778 13.906 0.64272 -0.15944 -0.00031761 NaN 0 15 9 2 NaN NaN NaN NaN 0 NaN NaN 0 237950 7429 7216 4693 4710 0.02296110585837141 GGGASPRG 8 Unmodified _GGGASPRG_ 0 0 0 ENST00000551727.5_1_12:104531302-104531635:-|nuORF ENST00000551727.5_1_12:104531302-104531635:-|nuORF ENST00000551727.5_1_12:104531302-104531635:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 329.6668701171875 2 329.666995 657.319437 2.6277 0.00086628 -0.95744 -0.00031564 1.6703 0.00055065 329.66632233317927 69.082 0.24334 69.336 69.192 69.436 0.25443 28 15 3 0 0 0 0.72385 1 31680 31680 3.9444 1.8846 1 503780 7430 8882 4694 4711 8791 8791 -0.022930282362835896 GGGASPRG 8 Unmodified _GGGASPRG_ 0 0 0 ENST00000551727.5_1_12:104531302-104531635:-|nuORF ENST00000551727.5_1_12:104531302-104531635:-|nuORF ENST00000551727.5_1_12:104531302-104531635:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.1694030761719 2 329.666995 657.319437 2.0635 0.00068028 -1.1069 -0.00036492 0.95661 0.00031536 329.6665099670242 68.669 0.28677 69.329 69.165 69.452 0.65924 33 21 2 0 0 0 0.72385 1 31496 31496 3.9444 1.8846 1 366640 7431 8882 4694 4711 8792 8792 -0.022930282362835896 GGGCCCCC 8 Unmodified _GGGCCCCC_ 0 0 0 REV__nc|ENSG00000138650|Q9P2E7-2|PCDH10 REV__nc|ENSG00000138650|Q9P2E7-2|PCDH10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 704.7633666992188 1 705.128155 704.120878 3.3328 0.00235 -0.76061 -0.00053633 2.5722 0.0018137 705.122798972922 97.924 0.072281 97.924 97.903 97.975 0 7 5 2 0 0 0 0.7471 1 53461 53461 0 0 1 8527900 + 7432 12179 4695 4712 8793 8793 -0.24301735789333634 GGGFGFGG 8 Unmodified _GGGFGFGG_ 0 0 0 REV__CON__Q922U2 REV__CON__Q922U2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 655.286865234375 1 655.283451 654.276175 3.7856 0.0024806 0.98557 0.00064583 4.7711 0.0031265 655.2839062821047 77.709 0.60723 78.372 78.092 78.699 0.66303 56 37 2 0 0 0 0.7471 1 35695 35695 0 0 1 714910 + + 7433 10102 4696 4713 8794 8794 -0.0647921801355551 GGGGCCCG 8 Unmodified _GGGGCCCG_ 0 0 0 ENST00000431489.5_1_2:62932928-62934072:+|nuORF ENST00000431489.5_1_2:62932928-62934072:+|nuORF ENST00000431489.5_1_2:62932928-62934072:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 306.69464111328125 2 307.079995 612.145437 NaN NaN NaN NaN NaN NaN NaN 45.971 1 46.237 45.737 46.737 0.26561 0 0 0 0.99035 1 21014 21014 0 0 1 7434 7854 4697 4714 8795 8795 -0.17615016319928145 GGGGCCCG 8 Unmodified _GGGGCCCG_ 0 0 0 ENST00000431489.5_1_2:62932928-62934072:+|nuORF ENST00000431489.5_1_2:62932928-62934072:+|nuORF ENST00000431489.5_1_2:62932928-62934072:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 306.650390625 2 307.079995 612.145437 NaN NaN NaN NaN NaN NaN NaN 50.501 1 50.762 50.262 51.262 0.26146 0 0 0 0.99035 1 23081 23081 0 0 1 7435 7854 4697 4714 8796 8796 -0.17615016319928145 GGGGGDWAGG 10 Unmodified _GGGGGDWAGG_ 0 0 0 ENSG00000185668|ENST00000373012|POU3F1 ENSG00000185668|ENST00000373012|POU3F1 ENSG00000185668|ENST00000373012|POU3F1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 395.65875244140625 2 395.659367 789.304181 NaN NaN NaN NaN NaN NaN NaN 65.029 1 65.029 64.529 65.529 0 0 0 0 1.0015 1 30910 30910 0.45834 0.45834 1 7436 5524 4698 4715 8797 8797 -0.09889939824131488 GGGVPVTL 8 Unmodified _GGGVPVTL_ 0 0 0 REV__ENSG00000134690|ENST00000373055|CDCA8 REV__ENSG00000134690|ENST00000373055|CDCA8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.20782470703125 2 350.205421 698.39629 NaN NaN NaN NaN NaN NaN NaN 41.229 1 41.874 41.374 42.374 0.64451 0 0 0 0.99035 1 18859 18859 2.3027 0 1 + 7437 11976 4699 4716 8798 8798 0.03502770260183752 GGGVVASL 8 Unmodified _GGGVVASL_ 0 0 0 nc|ENSG00000156920|Q8IZF6-2|ADGRG4;nc|ENSG00000156920|Q8IZF6-3|ADGRG4;ENSG00000156920|ENST00000394143|ADGRG4;ADGRG4|p.K2380Nfs*2|1|0.45|ENSG00000156920|chrX:136359446-136359446|A/-|frameshift_variant nc|ENSG00000156920|Q8IZF6-2|ADGRG4 nc|ENSG00000156920|Q8IZF6-2|ADGRG4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 330.47174072265625 2 330.189771 658.36499 2.2791 0.00075255 -1.1269 -0.0003721 1.1522 0.00038045 330.1910316863781 39.58 0.81933 39.58 39.379 40.199 0 46 34 2 0 0 0 0.14267 1 17918 17918 2.5775 0 1 356830 7438 3930 4700 4717 8799 8799 0.022141972260783405 GGKCDYREEEN 11 Unmodified _GGKCDYREEEN_ 0 0 0 REV__ENST00000493361.5_1_7:107384608-107394453:+|nuORF REV__ENST00000493361.5_1_7:107384608-107394453:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 433.820068359375 3 433.847186 1298.51973 NaN NaN NaN NaN NaN NaN NaN 65.935 1 66.644 66.144 67.144 0.70891 0 0 0 1.0073 1 31222 31222 0.40827 0 1 + 7439 11064 4701 4718 8800 8800 -0.11759011212325277 GGKCGESR 8 Unmodified _GGKCGESR_ 0 0 0 ENST00000510032.5_1_4:15683386-15683548:+|nuORF;ENST00000502502.5_1_4:15683386-15686526:+|nuORF ENST00000510032.5_1_4:15683386-15683548:+|nuORF ENST00000510032.5_1_4:15683386-15683548:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 397.25457763671875 2 397.184694 792.354836 NaN NaN NaN NaN NaN NaN NaN 70.952 1 70.952 70.452 71.452 0 0 0 0 0.99035 1 34472 34472 2.3027 1.5091 1 7440 8480 4702 4719 8801 8801 -0.04964733770782459 GGKCRPVS 8 Unmodified _GGKCRPVS_ 0 0 0 ENST00000480900.1_1_1:22204836-22205548:-|nuORF ENST00000480900.1_1_1:22204836-22205548:-|nuORF ENST00000480900.1_1_1:22204836-22205548:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 402.2129211425781 2 402.213255 802.411957 NaN NaN NaN NaN NaN NaN NaN 72.151 1 72.41 71.91 72.91 0.25876 0 0 0 0.99035 1 33116 33116 2.3027 1.5091 1 7441 8285 4703 4720 8802 8802 0.0028473350558897437 GGKCRPVS 8 Unmodified _GGKCRPVS_ 0 0 0 ENST00000480900.1_1_1:22204836-22205548:-|nuORF ENST00000480900.1_1_1:22204836-22205548:-|nuORF ENST00000480900.1_1_1:22204836-22205548:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 402.2581787109375 2 402.213255 802.411957 NaN NaN NaN NaN NaN NaN NaN 72.252 1 72.51 72.01 73.01 0.25876 0 0 0 0.99035 1 33165 33165 2.3027 1.5091 1 7442 8285 4703 4720 8803 8803 0.0028473350558897437 GGKCRPVS 8 Unmodified _GGKCRPVS_ 0 0 0 ENST00000480900.1_1_1:22204836-22205548:-|nuORF ENST00000480900.1_1_1:22204836-22205548:-|nuORF ENST00000480900.1_1_1:22204836-22205548:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 402.2128601074219 2 402.213255 802.411957 NaN NaN NaN NaN NaN NaN NaN 62.696 1 63.354 62.854 63.854 0.65808 0 0 0 0.99035 1 28733 28733 2.3027 1.5091 1 7443 8285 4703 4720 8804 8804 0.0028473350558897437 GGKEGRVARP 10 Unmodified _GGKEGRVARP_ 0 0 0 ENST00000588708.5_1_19:38900682-38904049:-|nuORF ENST00000588708.5_1_19:38900682-38904049:-|nuORF ENST00000588708.5_1_19:38900682-38904049:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.2103271484375 3 342.864952 1025.57303 2.3329 0.00079986 -2.0635 -0.00070752 0.26932 9.2339E-05 343.198391559247 47.184 0.18439 47.836 47.753 47.938 0.65219 11 8 2 0 0 0 0.93584 1 21617 21617 1.7423 0.26037 1 124010 7444 9208 4704 4721 8805 8805 0.061261991431820206 GGKGKGKK 8 Unmodified _GGKGKGKK_ 0 0 0 ENSG00000184867|ENST00000356824|ARMCX2 ENSG00000184867|ENST00000356824|ARMCX2 ENSG00000184867|ENST00000356824|ARMCX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.6950378417969 2 380.245412 758.476272 NaN NaN NaN NaN NaN NaN NaN 74.66 1 74.918 74.418 75.418 0.25831 0 0 0 0.99035 1 34343 34343 2.3027 0 1 7445 5465 4705 4722 8806 8806 0.08737256654023895 GGKGKGRR 8 Unmodified _GGKGKGRR_ 0 0 0 ENST00000426538.6_1_16:58439143-58439287:+|nuORF ENST00000426538.6_1_16:58439143-58439287:+|nuORF ENST00000426538.6_1_16:58439143-58439287:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 408.2527160644531 2 408.25156 814.488568 2.7994 0.0011429 0.022619 9.2343E-06 2.822 0.0011521 408.25147049576253 81.504 0.40161 81.752 81.56 81.962 0.24803 24 19 2 0 0 0 0.7441 1 37515 37515 2.3027 2.3027 1 1333200 7446 7806 4706 4723 8807 8807 0.07390293117066449 GGKGKGRR 8 Unmodified _GGKGKGRR_ 0 0 0 ENST00000426538.6_1_16:58439143-58439287:+|nuORF ENST00000426538.6_1_16:58439143-58439287:+|nuORF ENST00000426538.6_1_16:58439143-58439287:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 408.2527770996094 2 408.25156 814.488568 3.5663 0.0014559 -0.25779 -0.00010524 3.3085 0.0013507 408.2513790178456 93.365 0.76768 93.62 93.235 94.002 0.25497 95 37 3 0 0 0 0.7441 4 42904 42796;42904;42962;43013 2.3027 2.3027 1 3634200 7447 7806 4706 4723 8808;8809;8810;8811 8809 0.07390293117066449 GGKGKGRR 8 Unmodified _GGKGKGRR_ 0 0 0 ENST00000426538.6_1_16:58439143-58439287:+|nuORF ENST00000426538.6_1_16:58439143-58439287:+|nuORF ENST00000426538.6_1_16:58439143-58439287:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 408.25238037109375 2 408.25156 814.488568 3.0471 0.001244 -0.15226 -6.2161E-05 2.8948 0.0011818 408.2514575108796 81.085 0.40143 81.745 81.528 81.929 0.65998 38 19 3 0 0 0 0.7441 1 37352 37352 2.3027 1.6124 1 1527600 7448 7806 4706 4723 8812 8812 0.07390293117066449 GGKGKGRR 8 Unmodified _GGKGKGRR_ 0 0 0 ENST00000426538.6_1_16:58439143-58439287:+|nuORF ENST00000426538.6_1_16:58439143-58439287:+|nuORF ENST00000426538.6_1_16:58439143-58439287:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 408.252685546875 2 408.25156 814.488568 3.151 0.0012864 -0.21973 -8.9704E-05 2.9313 0.0011967 408.2513739060246 93.349 0.78383 93.98 93.542 94.326 0.63115 108 36 4 0 0 0 0.7441 5 42851 42801;42851;42955;43003;43060 2.3027 1.6124 1 3931200 7449 7806 4706 4723 8813;8814;8815;8816;8817 8814 0.07390293117066449 GGKGKGSK 8 Unmodified _GGKGKGSK_ 0 0 0 REV__nc|ENSG00000102531|Q9Y2H6-2|FNDC3A REV__nc|ENSG00000102531|Q9Y2H6-2|FNDC3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.7138977050781 2 359.713945 717.413337 2.3064 0.00082964 -1.3508 -0.0004859 0.95558 0.00034374 359.71332496042265 73.511 0.2575 73.769 73.627 73.885 0.25876 28 21 2 0 0 0 0.7441 2 33753 33753;33770 2.3027 1.6124 1 1518000 + 7450 10931 4707 4724 8818;8819 8818 0.04332690865987843 GGKGKGSK 8 Unmodified _GGKGKGSK_ 0 0 0 REV__nc|ENSG00000102531|Q9Y2H6-2|FNDC3A REV__nc|ENSG00000102531|Q9Y2H6-2|FNDC3A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 359.713945 717.413337 2.3064 0.00082964 -1.3508 -0.0004859 0.95558 0.00034374 359.71332496042265 73.511 0.2575 73.769 73.627 73.885 0.25876 -0.017528 6.1422E-06 NaN 2.3027 28 21 2 NaN NaN NaN NaN 0 NaN NaN 0 1518000 + 7451 10931 4707 4724 0.04332690865987843 GGKGKGSK 8 Unmodified _GGKGKGSK_ 0 0 0 REV__nc|ENSG00000102531|Q9Y2H6-2|FNDC3A REV__nc|ENSG00000102531|Q9Y2H6-2|FNDC3A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 359.713945 717.413337 1.9599 0.00070499 -1.3657 -0.00049125 0.59421 0.00021374 359.7133978624402 73.14 0.34255 73.804 73.708 74.051 0.66398 0.017528 -4.5507E-06 NaN 2.3027 59 36 2 NaN NaN NaN NaN 0 NaN NaN 0 1581500 + 7452 10931 4707 4724 0.04332690865987843 GGKGRKRT 8 Unmodified _GGKGRKRT_ 0 0 0 ENST00000257663.3_1_7:77423607-77427674:-|nuORF ENST00000257663.3_1_7:77423607-77427674:-|nuORF ENST00000257663.3_1_7:77423607-77427674:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.26568603515625 2 430.264668 858.514782 3.6968 0.0015906 -0.42906 -0.00018461 3.2678 0.001406 430.26441765643125 96.469 0.57417 96.747 96.402 96.976 0.27778 68 30 3 0 0 0 0.7471 2 44284 44284;44339 0.69038 0 1 2453800 7453 6532 4708 4725 8820;8821 8820 0.07986562288544974 GGKGRKRT 8 Unmodified _GGKGRKRT_ 0 0 0 ENST00000257663.3_1_7:77423607-77427674:-|nuORF ENST00000257663.3_1_7:77423607-77427674:-|nuORF ENST00000257663.3_1_7:77423607-77427674:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.2655029296875 2 430.264668 858.514782 3.253 0.0013996 -0.4171 -0.00017946 2.8359 0.0012202 430.2644173782772 96.294 0.64359 96.902 96.6 97.244 0.60769 74 31 3 0 0 0 0.7471 2 44273 44273;44327 0.69038 0 1 2681200 7454 6532 4708 4725 8822;8823 8822 0.07986562288544974 GGKHGRLA 8 Unmodified _GGKHGRLA_ 0 0 0 nc|ENSG00000152076|Q96LY2|CCDC74B;ENST00000496704.1_1_2:130899553-130900555:-|nuORF nc|ENSG00000152076|Q96LY2|CCDC74B nc|ENSG00000152076|Q96LY2|CCDC74B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.2342529296875 2 398.232836 794.45112 3.4949 0.0013918 0.00084032 3.3464E-07 3.4958 0.0013921 398.2327840847896 91.847 0.39844 92.099 91.908 92.306 0.25254 40 18 3 0 0 0 0.70799 1 42284 42284 5.2307 2.6532 1 445870 7455 9692 4709 4726 8824 8824 0.04567201851455138 GGKHGRLA 8 Unmodified _GGKHGRLA_ 0 0 0 nc|ENSG00000152076|Q96LY2|CCDC74B;ENST00000496704.1_1_2:130899553-130900555:-|nuORF nc|ENSG00000152076|Q96LY2|CCDC74B nc|ENSG00000152076|Q96LY2|CCDC74B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 398.232836 794.45112 3.0903 0.0012307 0.013851 5.5161E-06 3.1042 0.0012362 398.2325615020506 91.432 0.34071 92.094 91.915 92.256 0.66198 -0.0028684 6.4228E-06 NaN 5.2307 27 14 3 NaN NaN NaN NaN 0 NaN NaN 0 494050 7456 9692 4709 4726 0.04567201851455138 GGKIRHFV 8 Unmodified _GGKIRHFV_ 0 0 0 nc|ENSG00000284762|O95263-3|PDE8B;nc|ENSG00000284762|O95263-6|PDE8B;nc|ENSG00000284762|O95263-4|PDE8B;ENSG00000113231|ENST00000264917|PDE8B nc|ENSG00000284762|O95263-3|PDE8B nc|ENSG00000284762|O95263-3|PDE8B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 305.1849060058594 3 305.183733 912.52937 2.1574 0.0006584 1.4863 0.00045359 3.6437 0.001112 305.18409202534565 44.276 0.32361 45.097 44.887 45.21 0.82075 38 17 3 0 0 0 0.74071 1 20174 20174 1.6526 1.1943 1 674910 7457 1839 4710 4727 8825 8825 0.06960634436700275 GGKIRHFV 8 Unmodified _GGKIRHFV_ 0 0 0 nc|ENSG00000284762|O95263-3|PDE8B;nc|ENSG00000284762|O95263-6|PDE8B;nc|ENSG00000284762|O95263-4|PDE8B;ENSG00000113231|ENST00000264917|PDE8B nc|ENSG00000284762|O95263-3|PDE8B nc|ENSG00000284762|O95263-3|PDE8B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 305.1844482421875 3 305.183733 912.52937 2.2018 0.00067196 1.2135 0.00037034 3.4153 0.0010423 305.18401179488455 45.233 0.22177 46.059 45.926 46.147 0.82621 26 14 2 0 0 0 0.70799 1 20600 20600 3.5965 1.9439 1 521120 7458 1839 4710 4727 8826 8826 0.06960634436700275 GGKIRHFV 8 Unmodified _GGKIRHFV_ 0 0 0 nc|ENSG00000284762|O95263-3|PDE8B;nc|ENSG00000284762|O95263-6|PDE8B;nc|ENSG00000284762|O95263-4|PDE8B;ENSG00000113231|ENST00000264917|PDE8B nc|ENSG00000284762|O95263-3|PDE8B nc|ENSG00000284762|O95263-3|PDE8B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 305.1849670410156 3 305.183733 912.52937 2.325 0.00070956 1.5952 0.00048683 3.9202 0.0011964 305.1842606191036 45.027 0.23991 45.677 45.566 45.806 0.64998 15 8 2 0 0 0 0.74071 1 20651 20651 1.6526 1.6526 1 1047800 7459 1839 4710 4727 8827 8827 0.06960634436700275 GGKIRHFV 8 Unmodified _GGKIRHFV_ 0 0 0 nc|ENSG00000284762|O95263-3|PDE8B;nc|ENSG00000284762|O95263-6|PDE8B;nc|ENSG00000284762|O95263-4|PDE8B;ENSG00000113231|ENST00000264917|PDE8B nc|ENSG00000284762|O95263-3|PDE8B nc|ENSG00000284762|O95263-3|PDE8B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 305.183733 912.52937 1.7993 0.00054913 1.6646 0.00050801 3.464 0.0010571 305.18412824898274 45.838 0.18042 45.838 45.755 45.935 0 0.10492 -8.0816E-05 NaN 1.6526 14 8 2 NaN NaN NaN NaN 0 NaN NaN 0 372840 7460 1839 4710 4727 0.06960634436700275 GGKIRHFV 8 Unmodified _GGKIRHFV_ 0 0 0 nc|ENSG00000284762|O95263-3|PDE8B;nc|ENSG00000284762|O95263-6|PDE8B;nc|ENSG00000284762|O95263-4|PDE8B;ENSG00000113231|ENST00000264917|PDE8B nc|ENSG00000284762|O95263-3|PDE8B nc|ENSG00000284762|O95263-3|PDE8B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 305.183733 912.52937 1.7769 0.00054227 2.3416 0.00071461 4.1184 0.0012569 305.184403947384 46.2 0.22232 46.2 46.085 46.307 0 0.12297 0.00035791 NaN 3.5965 18 10 2 NaN NaN NaN NaN 0 NaN NaN 0 596640 7461 1839 4710 4727 0.06960634436700275 GGKIRHFV 8 Unmodified _GGKIRHFV_ 0 0 0 nc|ENSG00000284762|O95263-3|PDE8B;nc|ENSG00000284762|O95263-6|PDE8B;nc|ENSG00000284762|O95263-4|PDE8B;ENSG00000113231|ENST00000264917|PDE8B nc|ENSG00000284762|O95263-3|PDE8B nc|ENSG00000284762|O95263-3|PDE8B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 305.183733 912.52937 2.1846 0.00066672 1.8591 0.00056737 4.0438 0.0012341 305.1842457954602 44.863 0.27733 45.684 45.505 45.782 0.82075 -0.048938 9.7256E-05 NaN 1.6526 24 12 3 NaN NaN NaN NaN 0 NaN NaN 0 350510 7462 1839 4710 4727 0.06960634436700275 GGKIRHFV 8 Unmodified _GGKIRHFV_ 0 0 0 nc|ENSG00000284762|O95263-3|PDE8B;nc|ENSG00000284762|O95263-6|PDE8B;nc|ENSG00000284762|O95263-4|PDE8B;ENSG00000113231|ENST00000264917|PDE8B nc|ENSG00000284762|O95263-3|PDE8B nc|ENSG00000284762|O95263-3|PDE8B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 305.183733 912.52937 2.1315 0.00065049 2.2735 0.00069385 4.405 0.0013443 305.184302979975 45.705 0.28796 45.972 45.837 46.125 0.26768 -0.10497 0.00029561 NaN 3.5965 17 11 2 NaN NaN NaN NaN 0 NaN NaN 0 1225000 7463 1839 4710 4727 0.06960634436700275 GGKKNGRI 8 Unmodified _GGKKNGRI_ 0 0 0 nc|ENSG00000171105|P06213-2|INSR;ENSG00000171105|ENST00000302850|INSR nc|ENSG00000171105|P06213-2|INSR nc|ENSG00000171105|P06213-2|INSR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 415.253173828125 2 415.253769 828.492984 NaN NaN NaN NaN NaN NaN NaN 65.955 1 66.664 66.164 67.164 0.70891 0 0 0 0.99035 1 31232 31232 4.756 0 1 7464 4786 4711 4728 8828 8828 0.07187757539986706 GGKLIVAVHF 10 Unmodified _GGKLIVAVHF_ 0 0 0 ENSG00000051382|ENST00000674063|PIK3CB ENSG00000051382|ENST00000674063|PIK3CB ENSG00000051382|ENST00000674063|PIK3CB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 347.5475158691406 3 347.54656 1039.61785 2.0135 0.0006998 1.2771 0.00044383 3.2906 0.0011436 347.54692470710415 52.421 0.20613 53.231 53.141 53.347 0.81065 24 14 2 0 0 0 0.93503 1 23905 23905 1.9064 0.83491 1 573180 7465 588 4712 4729 8829 8829 0.09962629956521596 GGKLIVAVHF 10 Unmodified _GGKLIVAVHF_ 0 0 0 ENSG00000051382|ENST00000674063|PIK3CB ENSG00000051382|ENST00000674063|PIK3CB ENSG00000051382|ENST00000674063|PIK3CB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.5473937988281 3 347.54656 1039.61785 2.318 0.00080562 0.5348 0.00018587 2.8528 0.00099148 347.54674944745733 54.491 0.05748 55.157 55.139 55.196 0.6665 9 6 2 0 0 0 0.93503 1 24935 24935 1.9064 0.062138 1 2038500 7466 588 4712 4729 8830 8830 0.09962629956521596 GGKLIVAVHF 10 Unmodified _GGKLIVAVHF_ 0 0 0 ENSG00000051382|ENST00000674063|PIK3CB ENSG00000051382|ENST00000674063|PIK3CB ENSG00000051382|ENST00000674063|PIK3CB MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 347.54656 1039.61785 2.5419 0.00088341 0.87858 0.00030535 3.4204 0.0011888 347.54674698057323 55.084 0.21514 55.084 54.981 55.196 0 -0.033456 -3.6881E-05 NaN 1.9064 29 20 2 NaN NaN NaN NaN 0 NaN NaN 0 2099000 7467 588 4712 4729 0.09962629956521596 GGKLIVAVHF 10 Unmodified _GGKLIVAVHF_ 0 0 0 ENSG00000051382|ENST00000674063|PIK3CB ENSG00000051382|ENST00000674063|PIK3CB ENSG00000051382|ENST00000674063|PIK3CB MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 347.54656 1039.61785 2.6352 0.00091585 1.374 0.00047753 4.0092 0.0013934 347.5468805804153 53.033 0.24955 53.297 53.184 53.434 0.26345 0.032678 5.41E-05 NaN 1.9064 30 19 3 NaN NaN NaN NaN 0 NaN NaN 0 959290 7468 588 4712 4729 0.09962629956521596 GGKMCCCS 8 Unmodified _GGKMCCCS_ 0 0 0 REV__ENST00000374140.6_1_9:116279839-116285210:+|nuORF REV__ENST00000374140.6_1_9:116279839-116285210:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.4953918457031 2 394.631537 787.248522 NaN NaN NaN NaN NaN NaN NaN 60.457 1 61.119 60.619 61.619 0.66261 0 0 0 0.99035 1 27680 27680 0.69038 0.69038 1 + 7469 15780 4713 4730 8831 8831 -0.15361271923632103 GGKMCCCS 8 Unmodified _GGKMCCCS_ 0 0 0 REV__ENST00000374140.6_1_9:116279839-116285210:+|nuORF REV__ENST00000374140.6_1_9:116279839-116285210:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.5072937011719 2 394.631537 787.248522 2.8784 0.0011359 -0.26751 -0.00010557 2.6109 0.0010303 394.6314111852265 59.084 0.51409 59.751 59.407 59.921 0.66703 37 25 2 0 0 0 0.14337 1 26925 26925 0.69038 0.69038 1 3008800 + 7470 15780 4713 4730 8832 8832 -0.15361271923632103 GGKNKPAW 8 Unmodified _GGKNKPAW_ 0 0 0 REV__ENSG00000159387|ENST00000290552|IRX6 REV__ENSG00000159387|ENST00000290552|IRX6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 429.236083984375 2 429.235045 856.455536 2.3305 0.0010003 0.0073047 3.1354E-06 2.3378 0.0010035 429.2348187291513 65.562 0.30917 65.562 65.347 65.656 0 88 35 3 0 0 0 0.70799 1 31270 31270 5.2307 0.47466 1 9797500 + 7471 12850 4714 4731 8833 8833 0.021566662743680354 GGKPARAA 8 Unmodified _GGKPARAA_ 0 0 0 REV__ENSG00000149596|ENST00000372980|JPH2 REV__ENSG00000149596|ENST00000372980|JPH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 364.213623046875 2 364.214112 726.413671 NaN NaN NaN NaN NaN NaN NaN 57.697 1 57.697 57.197 58.197 0 0 0 0 0.99035 1 26602 26602 5.2307 0 1 + 7472 12576 4715 4732 8834 8834 0.03952110585839819 GGKRRKQGEPC 11 Unmodified _GGKRRKQGEPC_ 0 0 0 REV__nc|ENSG00000169218|Q2MKA7-2|RSPO1 REV__nc|ENSG00000169218|Q2MKA7-2|RSPO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 406.2197570800781 3 405.884017 1214.63022 2.068 0.00083935 0.85112 0.00034546 2.9191 0.0011848 405.8842261265511 73.136 0.32341 73.136 73.023 73.347 0 75 35 3 0 0 0 0.83518 1 35597 35597 2.4348 0 1 2267700 + 7473 13382 4716 4733 8835 8835 0.031492983572661615 GGKRRKQGEPC 11 Unmodified _GGKRRKQGEPC_ 0 0 0 REV__nc|ENSG00000169218|Q2MKA7-2|RSPO1 REV__nc|ENSG00000169218|Q2MKA7-2|RSPO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.8853759765625 3 405.884017 1214.63022 2.7044 0.0010977 0.82326 0.00033415 3.5276 0.0014318 405.88415011981533 72.779 0.29987 73.037 72.923 73.223 0.25876 63 26 3 0 0 0 0.88721 1 33378 33378 1.2148 0 1 1299900 + 7474 13382 4716 4733 8836 8836 0.031492983572661615 GGKRRKQGEPC 11 Unmodified _GGKRRKQGEPC_ 0 0 0 REV__nc|ENSG00000169218|Q2MKA7-2|RSPO1 REV__nc|ENSG00000169218|Q2MKA7-2|RSPO1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 405.884017 1214.63022 2.1611 0.00087715 0.59831 0.00024284 2.7594 0.00112 405.88410226271674 72.363 0.205 73.067 72.94 73.145 0.70387 0.0043954 -6.1403E-05 NaN 2.4348 42 21 3 NaN NaN NaN NaN 0 NaN NaN 0 1099800 + 7475 13382 4716 4733 0.031492983572661615 GGKRRKQGEPC 11 Unmodified _GGKRRKQGEPC_ 0 0 0 REV__nc|ENSG00000169218|Q2MKA7-2|RSPO1 REV__nc|ENSG00000169218|Q2MKA7-2|RSPO1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 405.884017 1214.63022 2.3239 0.00094322 0.31097 0.00012622 2.6348 0.0010694 405.8840967275908 72.346 0.22523 73.009 72.948 73.173 0.66325 -0.052801 -0.00041128 NaN 2.4348 55 29 2 NaN NaN NaN NaN 0 NaN NaN 0 1829100 + 7476 13382 4716 4733 0.031492983572661615 GGKRRRPRPGG 11 Unmodified _GGKRRRPRPGG_ 0 0 0 ENST00000377264.7_2_11:64681608-64684680:-|nuORF ENST00000377264.7_2_11:64681608-64684680:-|nuORF ENST00000377264.7_2_11:64681608-64684680:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.5755920410156 3 398.574395 1192.70135 3.1179 0.0012427 1.038 0.00041371 4.1559 0.0016564 398.5747684599356 95.378 0.55137 95.986 95.804 96.356 0.60769 67 29 4 0 0 0 0.91345 1 43988 43988 0.45452 0.45452 1 1084600 7477 7410 4717 4734 8837 8837 0.11271179176901569 GGKTRKGR 8 Unmodified _GGKTRKGR_ 0 0 0 REV__ENST00000411753.1_1_3:31495669-31495876:+|nuORF REV__ENST00000411753.1_1_3:31495669-31495876:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.2662048339844 2 430.264668 858.514782 2.9205 0.0012566 0.2558 0.00011006 3.1763 0.0013666 430.2648175566514 84.42 0.32294 84.668 84.496 84.819 0.24758 38 20 3 0 0 0 0.74709 1 38885 38885 2.0598 0 1 793650 + 7478 16108 4718 4735 8838 8838 0.07986562288556343 GGKTRKGR 8 Unmodified _GGKTRKGR_ 0 0 0 REV__ENST00000411753.1_1_3:31495669-31495876:+|nuORF REV__ENST00000411753.1_1_3:31495669-31495876:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 430.264668 858.514782 2.9205 0.0012566 0.2558 0.00011006 3.1763 0.0013666 430.2648175566514 84.42 0.32294 84.668 84.496 84.819 0.24758 -0.026616 2.0286E-05 NaN 2.0598 38 20 3 NaN NaN NaN NaN 0 NaN NaN 0 793650 + 7479 16108 4718 4735 0.07986562288556343 GGKVFLGI 8 Unmodified _GGKVFLGI_ 0 0 0 REV__ENST00000440314.6_1_12:3806177-3862241:-|nuORF REV__ENST00000440314.6_1_12:3806177-3862241:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 395.74554443359375 2 395.744714 789.474875 NaN NaN NaN NaN NaN NaN NaN 47.927 1 47.927 47.427 48.427 0 0 0 0 0.99035 1 21949 21949 2.3027 0.24298 1 + 7480 16341 4719 4736 8839 8839 0.07171622565272173 GGKVFLGI 8 Unmodified _GGKVFLGI_ 0 0 0 REV__ENST00000440314.6_1_12:3806177-3862241:-|nuORF REV__ENST00000440314.6_1_12:3806177-3862241:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 395.7445373535156 2 395.744714 789.474875 NaN NaN NaN NaN NaN NaN NaN 44.987 1 45.814 45.314 46.314 0.82621 0 0 0 0.99035 1 20487 20487 2.3027 0 1 + 7481 16341 4719 4736 8840 8840 0.07171622565272173 GGKVFLGI 8 Unmodified _GGKVFLGI_ 0 0 0 REV__ENST00000440314.6_1_12:3806177-3862241:-|nuORF REV__ENST00000440314.6_1_12:3806177-3862241:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.74517822265625 2 395.744714 789.474875 NaN NaN NaN NaN NaN NaN NaN 45.028 1 45.296 44.796 45.796 0.26768 0 0 0 0.99035 1 20582 20582 2.3027 0 1 + 7482 16341 4719 4736 8841 8841 0.07171622565272173 GGKVLLLF 8 Unmodified _GGKVLLLF_ 0 0 0 nc|ENSG00000148634|Q5GLZ8-6|HERC4;nc|ENSG00000148634|Q5GLZ8-3|HERC4;ENSG00000148634|ENST00000373700|HERC4;nc|ENSG00000148634|Q5GLZ8|HERC4;ENST00000427635.6_1_10:69682690-69747802:-|nuORF nc|ENSG00000148634|Q5GLZ8-6|HERC4 nc|ENSG00000148634|Q5GLZ8-6|HERC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 423.7762756347656 2 423.776014 845.537475 NaN NaN NaN NaN NaN NaN NaN 83.616 1 83.616 83.116 84.116 0 0 0 0 0.99035 1 42149 42149 0.69038 0.088878 1 7483 3611 4720 4737 8842 8842 0.10852768633458254 GGLAGRGT 8 Unmodified _GGLAGRGT_ 0 0 0 REV__ENSG00000174206|ENST00000398055|KICS2 REV__ENSG00000174206|ENST00000398055|KICS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 344.691162109375 2 344.69047 687.366387 NaN NaN NaN NaN NaN NaN NaN 82.589 1 83.249 82.749 83.749 0.66019 0 0 0 0.99035 1 38052 38052 2.5775 0 1 + 7484 13625 4721 4738 8843 8843 0.010198313148634952 GGLGFLVK 8 Unmodified _GGLGFLVK_ 0 0 0 nc|ENSG00000089250|P29475-4|NOS1;nc|ENSG00000089250|P29475-2|NOS1;ENSG00000089250|ENST00000317775|NOS1;nc|ENSG00000089250|P29475-5|NOS1 nc|ENSG00000089250|P29475-4|NOS1 nc|ENSG00000089250|P29475-4|NOS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 395.7453308105469 2 395.744714 789.474875 NaN NaN NaN NaN NaN NaN NaN 49.354 1 50.181 49.681 50.681 0.82705 0 0 0 0.99035 1 22484 22484 0.79363 0 1 7485 1042 4722 4739 8844 8844 0.07171622565272173 GGLKKKKKKLF 11 Unmodified _GGLKKKKKKLF_ 0 0 0 REV__ENST00000375664.8_2_10:28908866-28909124:+|nuORF REV__ENST00000375664.8_2_10:28908866-28909124:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 425.6277770996094 3 425.627214 1273.85981 NaN NaN NaN NaN NaN NaN NaN 61.726 1 61.726 61.226 62.226 0 0 0 0 1.0072 1 28828 28828 0.45452 0.21867 1 + 7486 15809 4723 4740 8845 8845 0.23383660312629218 GGLSHPLSHRG 11 Unmodified _GGLSHPLSHRG_ 0 0 0 REV__ENST00000608055.1_1_11:128628003-128638319:+|nuORF REV__ENST00000608055.1_1_11:128628003-128638319:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.21392822265625 3 373.200223 1116.57884 NaN NaN NaN NaN NaN NaN NaN 76.889 1 77.145 76.645 77.645 0.25533 0 0 0 1.0048 1 35406 35406 4.4062 1.0865 1 + 7487 17675 4724 4741 8846 8846 0.025212976548345978 GGNSFFFFI 9 Unmodified _GGNSFFFFI_ 0 0 0 REV__ENST00000284037.9_1_5:65375163-65375247:+|nuORF REV__ENST00000284037.9_1_5:65375163-65375247:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.252685546875 2 518.25036 1034.48617 3.2401 0.0016792 0.87615 0.00045406 4.1162 0.0021332 518.2507890672845 53.572 0.48469 54.237 53.916 54.401 0.6644 61 24 3 0 0 0 0.80651 1 24564 24564 7.2892 7.2892 1 1620800 + 7488 15100 4725 4742 8847 8847 -0.029696001312458975 GGRKAGRP 8 Unmodified _GGRKAGRP_ 0 0 0 ENST00000606662.1_1_5:115420534-115420723:-|nuORF ENST00000606662.1_1_5:115420534-115420723:-|nuORF ENST00000606662.1_1_5:115420534-115420723:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.7390441894531 2 399.738286 797.462019 3.0125 0.0012042 0.20245 8.0929E-05 3.2149 0.0012851 399.7381463692526 81.096 0.44768 81.756 81.503 81.951 0.65997 49 21 3 0 0 0 0.71384 1 37319 37319 4.756 0 1 2795000 7489 9326 4726 4743 8848 8848 0.055186042257560075 GGRQSRRGPR 10 Unmodified _GGRQSRRGPR_ 0 0 0 ENST00000579334.5_1_17:79995052-79995552:-|nuORF ENST00000579334.5_1_17:79995052-79995552:-|nuORF ENST00000579334.5_1_17:79995052-79995552:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.4844360351562 2 563.818661 1125.62277 NaN NaN NaN NaN NaN NaN NaN 55.79 1 56.055 55.555 56.555 0.26543 0 0 0 0.99807 1 25516 25516 3.2813 0 1 7490 9142 4727 4744 8849 8849 0.0649832687183789 GGRRWSWQWWW 11 Unmodified _GGRRWSWQWWW_ 0 0 0 ENST00000320785.9_1_17:4925760-4925838:+|nuORF ENST00000320785.9_1_17:4925760-4925838:+|nuORF ENST00000320785.9_1_17:4925760-4925838:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.9216918945312 3 530.921571 1589.74288 NaN NaN NaN NaN NaN NaN NaN 93.177 1 93.432 92.932 93.932 0.25497 0 0 0 1.0082 1 42827 42827 0 0 1 7491 6923 4728 4745 8850 8850 -0.028396848544161912 GGSELFHLAHI 11 Unmodified _GGSELFHLAHI_ 0 0 0 REV__ENSG00000143811|ENST00000343818|PYCR2 REV__ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 590.808349609375 2 590.809105 1179.60366 NaN NaN NaN NaN NaN NaN NaN 81.257 1 81.505 81.005 82.005 0.24803 0 0 0 1.0057 1 37412 37412 3.2813 0 1 + 7492 12379 4729 4746 8851 8851 0.021039327375319772 GGSNAGGAANA 11 Unmodified _GGSNAGGAANA_ 0 0 0 REV__ENSG00000134595|ENST00000370536|SOX3 REV__ENSG00000134595|ENST00000370536|SOX3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 846.3743896484375 1 846.370035 845.362758 4.7293 0.0040028 -0.48462 -0.00041017 4.2447 0.0035926 846.3692481088993 103.46 0.034264 103.78 103.76 103.79 0.31863 9 4 3 0 0 0 0.91489 1 47831 47831 0 0 1 1341600 + 7493 11972 4730 4747 8852 8852 -0.06610883249686594 GGSNAGGAANA 11 Unmodified _GGSNAGGAANA_ 0 0 0 REV__ENSG00000134595|ENST00000370536|SOX3 REV__ENSG00000134595|ENST00000370536|SOX3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 846.370035 845.362758 4.7293 0.0040028 -0.48462 -0.00041017 4.2447 0.0035926 846.3692481088993 103.46 0.034264 103.78 103.76 103.79 0.31863 -0.11402 0.00046612 NaN 0 9 4 3 NaN NaN NaN NaN 0 NaN NaN 0 1341600 + 7494 11972 4730 4747 -0.06610883249686594 GGSNAGGAANA 11 Unmodified _GGSNAGGAANA_ 0 0 0 REV__ENSG00000134595|ENST00000370536|SOX3 REV__ENSG00000134595|ENST00000370536|SOX3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 846.370035 845.362758 4.1585 0.0035196 -1.4277 -0.0012084 2.7308 0.0023113 846.3684271544319 103.41 0.061218 104.01 103.97 104.04 0.59821 0.11402 -0.00033207 NaN 0 9 5 3 NaN NaN NaN NaN 0 NaN NaN 0 1932800 + 7495 11972 4730 4747 -0.06610883249686594 GGVPDLLVL 9 Unmodified _GGVPDLLVL_ 0 0 0 REV__ENSG00000198205|ENST00000358697|ZXDA REV__ENSG00000198205|ENST00000358697|ZXDA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.7702331542969 2 441.768386 881.522219 3.225 0.0014247 0.25393 0.00011218 3.4789 0.0015369 441.7683473812971 84.366 0.38593 85.028 84.856 85.242 0.66219 48 22 3 0 0 0 0.54955 1 38929 38929 11.64 3.047 1 732730 + 7496 14327 4731 4748 8853 8853 0.07671857045602337 GHCCDCYC 8 Unmodified _GHCCDCYC_ 0 0 0 ENST00000471987.1_1_1:207958419-207959036:+|nuORF;ENST00000367041.5_1_1:207958419-207963612:+|nuORF;ENST00000480003.5_1_1:207958419-207966884:+|nuORF ENST00000471987.1_1_1:207958419-207959036:+|nuORF ENST00000471987.1_1_1:207958419-207959036:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 903.3799438476562 1 903.225226 902.21795 4.076 0.0036816 -3.7937 -0.0034265 0.28236 0.00025504 903.2227812138719 88.894 0.35258 89.572 89.317 89.67 0.67818 23 15 2 0 0 0 0.14355 1 40862 40862 0 0 1 5900400 7497 7246 4732 4749 8854 8854 -0.2370705030868976 GHCCDCYC 8 Unmodified _GHCCDCYC_ 0 0 0 ENST00000471987.1_1_1:207958419-207959036:+|nuORF;ENST00000367041.5_1_1:207958419-207963612:+|nuORF;ENST00000480003.5_1_1:207958419-207966884:+|nuORF ENST00000471987.1_1_1:207958419-207959036:+|nuORF ENST00000471987.1_1_1:207958419-207959036:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 903.225226 902.21795 4.21 0.0038026 -4.1825 -0.0037777 0.027577 2.4908E-05 903.2224199968455 88.928 0.52927 89.179 88.813 89.342 0.25118 -0.19655 -4.7555E-05 NaN 0 32 20 3 NaN NaN NaN NaN 0 NaN NaN 0 4416500 7498 7246 4732 4749 -0.2370705030868976 GHGRGGCA 8 Unmodified _GHGRGGCA_ 0 0 0 ENST00000463462.5_1_7:148982505-148984696:+|nuORF ENST00000463462.5_1_7:148982505-148984696:+|nuORF ENST00000463462.5_1_7:148982505-148984696:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.6587829589844 2 357.658647 713.302741 NaN NaN NaN NaN NaN NaN NaN 70.846 1 71.508 71.008 72.008 0.66209 0 0 0 0.99035 1 32469 32469 0 0 1 7499 8103 4733 4750 8855 8855 -0.06537852393898902 GHHTRSCPSL 10 Unmodified _GHHTRSCPSL_ 0 0 0 ENST00000405805.5_1_13:31191437-31191626:-|nuORF ENST00000405805.5_1_13:31191437-31191626:-|nuORF ENST00000405805.5_1_13:31191437-31191626:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.2613525390625 2 547.761632 1093.50871 3.6527 0.0020008 -0.7767 -0.00042545 2.876 0.0015754 547.7611412350268 58.237 0.19557 58.237 58.052 58.247 0 33 20 2 0 0 0 0.12212 1 26854 26854 13.042 0 1 3693300 7500 7639 4734 4751 8856 8856 -0.03430324005262264 GHKQRHRRERE 11 Unmodified _GHKQRHRRERE_ 0 0 0 REV__ENSG00000188910|ENST00000373366|GJB3 REV__ENSG00000188910|ENST00000373366|GJB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 744.9010009765625 2 744.903788 1487.79302 NaN NaN NaN NaN NaN NaN NaN 88.658 1 89.336 88.836 89.836 0.67818 0 0 0 1.0072 1 40829 40829 1.3295 0 1 + 7501 14166 4735 4752 8857 8857 0.06863817803423444 GHLRVWETANN 11 Unmodified _GHLRVWETANN_ 0 0 0 ENSG00000163811|ENST00000407426|WDR43;WDR43|p.A657Gfs*4|1|0.01|ENSG00000163811|chr2:28946714-28946715|-/GGAA|frameshift_variant ENSG00000163811|ENST00000407426|WDR43 ENSG00000163811|ENST00000407426|WDR43 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.9336242675781 3 432.886304 1295.63708 NaN NaN NaN NaN NaN NaN NaN 104.38 1 104.43 103.93 104.93 0.052994 0 0 0 1.0079 1 56517 56517 0.45452 0.29519 1 7502 4254 4736 4753 8858 8858 0.0010893450948969985 GHNIWVILV 9 Unmodified _GHNIWVILV_ 0 0 0 ENSG00000104689|ENST00000221132|TNFRSF10A ENSG00000104689|ENST00000221132|TNFRSF10A ENSG00000104689|ENST00000221132|TNFRSF10A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.2441101074219 3 350.874677 1049.6022 2.6375 0.00092544 -1.2771 -0.00044809 1.3604 0.00047734 350.8741826852305 33.156 0.32254 33.41 33.255 33.578 0.25389 22 14 2 0 0 0 0.11293 1 15079 15079 2.4985 2.4985 1 224590 7503 1444 4737 4754 8859 8859 0.07938343439445816 GHQWRWWWRQ 10 Unmodified _GHQWRWWWRQ_ 0 0 0 REV__ENST00000305123.5_1_2:227663257-227663680:-|nuORF REV__ENST00000305123.5_1_2:227663257-227663680:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 763.3729858398438 2 763.371061 1524.72757 NaN NaN NaN NaN NaN NaN NaN 46.032 1 46.683 46.183 47.183 0.65104 0 0 0 1.0015 1 21086 21086 0.40072 0.093686 1 + 7504 15225 4738 4755 8860 8860 -0.013805516515958516 GHSEPGEV 8 Unmodified _GHSEPGEV_ 0 0 0 ENST00000564508.2_1_16:72461754-72462081:+|nuORF ENST00000564508.2_1_16:72461754-72462081:+|nuORF ENST00000564508.2_1_16:72461754-72462081:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 406.18377685546875 2 406.182675 810.350796 2.7132 0.0011021 -0.34928 -0.00014187 2.3639 0.00096019 406.1825892610225 13.836 0.087637 13.836 13.8 13.888 0 11 9 2 0 0 0 0.59268 1 6086 6086 14.582 0 1 1282300 7505 9034 4739 4756 8861 8861 -0.06196499992847748 GHSEPGEV 8 Unmodified _GHSEPGEV_ 0 0 0 ENST00000564508.2_1_16:72461754-72462081:+|nuORF ENST00000564508.2_1_16:72461754-72462081:+|nuORF ENST00000564508.2_1_16:72461754-72462081:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 406.182675 810.350796 2.4113 0.00097943 0.26473 0.00010753 2.676 0.001087 406.18276167248865 13.378 0.20501 13.621 13.496 13.701 0.24346 -0.06243 0.00014016 NaN 14.582 29 16 2 NaN NaN NaN NaN 0 NaN NaN 0 427480 7506 9034 4739 4756 -0.06196499992847748 GHSEPGEV 8 Unmodified _GHSEPGEV_ 0 0 0 ENST00000564508.2_1_16:72461754-72462081:+|nuORF ENST00000564508.2_1_16:72461754-72462081:+|nuORF ENST00000564508.2_1_16:72461754-72462081:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 406.182675 810.350796 3.1583 0.0012829 0.32846 0.00013341 3.4868 0.0014163 406.1828993168452 12.952 0.098261 13.595 13.548 13.646 0.64272 -0.089184 0.00019192 NaN 14.582 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 75454 7507 9034 4739 4756 -0.06196499992847748 GHTLLLDVI 9 Unmodified _GHTLLLDVI_ 0 0 0 REV__nc|ENSG00000170921|Q9HCD6|TANC2 REV__nc|ENSG00000170921|Q9HCD6|TANC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 490.79437255859375 2 490.792392 979.570232 3.0259 0.0014851 -0.21843 -0.0001072 2.8075 0.0013779 490.7922252631817 78.014 0.25971 78.267 78.125 78.384 0.25335 38 14 3 0 0 0 0.24465 1 35967 35967 20.454 0 1 1025000 + 7508 13462 4740 4757 8862 8862 0.07962930965641135 GIALQQKKRLA 11 Unmodified _GIALQQKKRLA_ 0 0 0 REV__nc|ENSG00000133612|Q96P47-3|AGAP3 REV__nc|ENSG00000133612|Q96P47-3|AGAP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.3539428710938 2 613.390596 1224.76664 NaN NaN NaN NaN NaN NaN NaN 95.823 1 95.905 95.405 96.405 0.082001 0 0 0 1.0057 1 50755 50755 3.2813 0 1 + 7509 11937 4741 4758 8863 8863 0.1632473585941625 GIARIKNRIV 10 Unmodified _GIARIKNRIV_ 0 0 0 REV__nc|ENSG00000138814|Q08209-4|PPP3CA REV__nc|ENSG00000138814|Q08209-4|PPP3CA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.6549682617188 2 570.372207 1138.72986 NaN NaN NaN NaN NaN NaN NaN 97.227 1 97.227 96.727 97.727 0 0 0 0 0.99983 1 52863 52863 1.8442 0 1 + 7510 12196 4742 4759 8864 8864 0.16604484033473454 GIDFRRIYQWH 11 Unmodified _GIDFRRIYQWH_ 0 0 0 nc|ENSG00000138472|O95843-2|GUCA1C nc|ENSG00000138472|O95843-2|GUCA1C nc|ENSG00000138472|O95843-2|GUCA1C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 745.886962890625 2 745.88621 1489.75787 NaN NaN NaN NaN NaN NaN NaN 72.749 1 73.008 72.508 73.508 0.25876 0 0 0 1.0073 1 33399 33399 1.1933 0 1 7511 9664 4743 4760 8865 8865 0.03257762222938254 GIEKAFLFDVV 11 Unmodified _GIEKAFLFDVV_ 0 0 0 nc|ENSG00000025039|Q9NQL2-2|RRAGD;ENSG00000116954|ENST00000373001|RRAGC;ENSG00000025039|ENST00000369415|RRAGD;ENST00000496778.1_1_1:39317285-39318153:-|nuORF nc|ENSG00000025039|Q9NQL2-2|RRAGD nc|ENSG00000025039|Q9NQL2-2|RRAGD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.346435546875 2 619.344989 1236.67542 NaN NaN NaN NaN NaN NaN NaN 95.717 1 95.799 95.299 96.299 0.082001 0 0 0 1.0038 1 50665 50665 5.7319 0 1 7512 476 4744 4761 8866 8866 0.06655427371401856 GIEPPIEKLKN 11 Unmodified _GIEPPIEKLKN_ 0 0 0 REV__ENST00000479187.5_1_12:40692272-40758932:+|nuORF REV__ENST00000479187.5_1_12:40692272-40758932:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.3633422851562 2 619.36117 1236.70779 3.9568 0.0024507 -0.004313 -2.6713E-06 3.9525 0.002448 619.8623302550359 32.213 0.22296 32.468 32.267 32.489 0.25452 33 15 3 0 0 0 0.44818 1 14621 14621 20.415 6.5085 1 1088100 + 7513 14165 4745 4762 8867 8867 0.09890214774418382 GIGKHLCGMA 10 Unmodified _GIGKHLCGMA_ 0 0 0 ENST00000493651.1_1_1:100608680-100609704:+|nuORF;ENST00000482437.5_1_1:100606401-100609704:+|nuORF;TRMT13|p.N394Kfs*34|1|0.27|ENSG00000122435|chr1:100148258-100148258|T/-|frameshift_variant;ENSG00000122435|ENST00000370141|TRMT13 ENST00000493651.1_1_1:100608680-100609704:+|nuORF ENST00000493651.1_1_1:100608680-100609704:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.75048828125 2 493.749147 985.483742 NaN NaN NaN NaN NaN NaN NaN 86.729 1 86.759 86.259 87.259 0.030289 0 0 0 0.94083 1 43719 43719 14.838 2.3067 1 7514 2268 4746 4763 8868 8868 -0.009580951322050169 GIGRMNAAIQR 11 Unmodified _GIGRMNAAIQR_ 0 0 0 REV__ENST00000587044.1_1_17:41568567-41594747:+|nuORF REV__ENST00000587044.1_1_17:41568567-41594747:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 396.2218322753906 3 396.22063 1185.64006 2.8651 0.0011352 0.37052 0.00014681 3.2356 0.001282 396.22071377454347 54.421 0.6805 54.421 54.138 54.819 0 96 65 2 0 0 0 0.89544 1 24949 24949 2.6312 0.88896 1 1481600 + 7515 10456 4747 4764 8869 8869 0.05466486362615797 GIHFLLHPKV 10 Unmodified _GIHFLLHPKV_ 0 0 0 nc|ENSG00000176225|Q86VV8-3|RTTN;ENSG00000176225|ENST00000640769|RTTN;RTTN|p.I720Sfs*22|1|0.17|ENSG00000176225|chr18:70149986-70149987|-/AC|frameshift_variant;nc|ENSG00000176225|Q86VV8-4|RTTN nc|ENSG00000176225|Q86VV8-3|RTTN nc|ENSG00000176225|Q86VV8-3|RTTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.0294189453125 2 580.850576 1159.6866 NaN NaN NaN NaN NaN NaN NaN 88.021 1 88.061 87.561 88.561 0.039955 0 0 0 0.99733 1 44733 44733 3.9444 0.66309 1 7516 5068 4748 4765 8870 8870 0.11314294256203539 GIIDKWTCCSK 11 Unmodified _GIIDKWTCCSK_ 0 0 0 OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant;OTOGL|p.M2037Kfs*21|1|0.04|ENSG00000165899|chr12:80358721-80358722|-/AAACAAT|frameshift_variant;ENSG00000165899|ENST00000547103|OTOGL OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 627.759765625 2 627.304484 1252.59441 3.3465 0.0020993 -2.1935 -0.001376 1.153 0.00072325 627.8050075845932 90.246 0.1174 90.246 90.207 90.324 0 33 17 3 0 0 0 0.13251 1 47386 47386 10.151 3.0488 1 18864000 7517 4433 4749 4766 8871 8871 -0.021779199346610767 GIIDKWTCCSK 11 Unmodified _GIIDKWTCCSK_ 0 0 0 OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant;OTOGL|p.M2037Kfs*21|1|0.04|ENSG00000165899|chr12:80358721-80358722|-/AAACAAT|frameshift_variant;ENSG00000165899|ENST00000547103|OTOGL OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 627.1708984375 2 627.304484 1252.59441 2.4577 0.0015417 0.46402 0.00029108 2.9217 0.0018328 627.3053479104293 91.179 0.083061 91.254 91.234 91.317 0.075272 20 12 3 0 0 0 0.13251 1 47169 47169 6.6304 0 1 13924000 7518 4433 4749 4766 8872 8872 -0.021779199346610767 GIIDKWTCCSK 11 Unmodified _GIIDKWTCCSK_ 0 0 0 OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant;OTOGL|p.M2037Kfs*21|1|0.04|ENSG00000165899|chr12:80358721-80358722|-/AAACAAT|frameshift_variant;ENSG00000165899|ENST00000547103|OTOGL OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 626.9893188476562 2 627.304484 1252.59441 2.4751 0.0015526 1.3794 0.0008653 3.8545 0.0024179 627.8055193880033 90.597 0.12051 90.672 90.632 90.753 0.075279 18 13 2 0 0 0 0.13295 1 46770 46770 8.1555 0.54658 1 16981000 7519 4433 4749 4766 8873 8873 -0.021779199346610767 GIIDKWTCCSK 11 Unmodified _GIIDKWTCCSK_ 0 0 0 OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant;OTOGL|p.M2037Kfs*21|1|0.04|ENSG00000165899|chr12:80358721-80358722|-/AAACAAT|frameshift_variant;ENSG00000165899|ENST00000547103|OTOGL OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 627.304484 1252.59441 3.3504 0.0021017 -2.1921 -0.0013751 1.1583 0.00072658 627.8043995634674 90.687 0.047302 90.687 90.651 90.698 0 0.0075799 -0.0021132 NaN 8.1555 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 18449000 7520 4433 4749 4766 -0.021779199346610767 GIIDLRRLRWY 11 Unmodified _GIIDLRRLRWY_ 0 0 0 REV__ENST00000375592.7_1_1:16632408-16678758:-|nuORF REV__ENST00000375592.7_1_1:16632408-16678758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 730.8973388671875 2 730.927877 1459.8412 NaN NaN NaN NaN NaN NaN NaN 89.763 1 89.763 89.263 90.263 0 0 0 0 1.0071 1 46980 46980 1.4819 0 1 + 7521 15805 4750 4767 8874 8874 0.1296749867078688 GIIYFLSYVP 10 Unmodified _GIIYFLSYVP_ 0 0 0 ENST00000459850.5_1_9:139905575-139923366:-|nuORF;nc|ENSG00000107331|Q9BZC7-2|ABCA2;nc|ENSG00000107331|Q9BZC7|ABCA2;ENSG00000107331|ENST00000341511|ABCA2;nc|ENSG00000107331|Q9BZC7-4|ABCA2 ENST00000459850.5_1_9:139905575-139923366:-|nuORF ENST00000459850.5_1_9:139905575-139923366:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 586.2965698242188 2 586.323525 1170.6325 NaN NaN NaN NaN NaN NaN NaN 95.489 1 95.571 95.071 96.071 0.082001 0 0 0 0.98473 1 50480 50480 7.9102 0 1 7522 1596 4751 4768 8875 8875 0.05400657313998636 GIIYYSQEKYF 11 Unmodified _GIIYYSQEKYF_ 0 0 0 ENST00000490036.5_1_3:39149250-39151755:+|nuORF;ENST00000459702.1_1_3:39149250-39159704:+|nuORF;ENST00000479954.5_1_3:39149250-39159704:+|nuORF;nc|ENSG00000168026|Q8NDW8-6|TTC21A;nc|ENSG00000168026|Q8NDW8-5|TTC21A;ENSG00000168026|ENST00000683103|TTC21A;nc|ENSG00000168026|Q8NDW8|TTC21A;nc|ENSG00000168026|Q8NDW8-7|TTC21A ENST00000490036.5_1_3:39149250-39151755:+|nuORF ENST00000490036.5_1_3:39149250-39151755:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 705.9038696289062 2 705.850635 1409.68672 NaN NaN NaN NaN NaN NaN NaN 98.314 1 98.913 98.413 99.413 0.59885 0 0 0 1.0055 1 45311 45311 3.5965 2.1146 1 7523 4594 4752 4769 8876 8876 -0.0017379532509949058 GIKKPVRRKLK 11 Unmodified _GIKKPVRRKLK_ 0 0 0 ENSG00000145362|ENST00000357077|ANK2;ANK2|p.H3647Ifs*128|1|0.14|ENSG00000145362|chr4:113365089-113365089|C/-|frameshift_variant;ANK2|p.L2536Ffs*22|1|0.26|ENSG00000145362|chr4:113356220-113356220|C/-|frameshift_variant ENSG00000145362|ENST00000357077|ANK2 ENSG00000145362|ENST00000357077|ANK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 661.9562377929688 2 661.958981 1321.90341 NaN NaN NaN NaN NaN NaN NaN 69.218 1 69.218 68.718 69.718 0 0 0 0 1.0071 1 33395 33395 1.4819 0 1 7524 3462 4753 4770 8877 8877 0.25533269809761805 GIKWSCGN 8 Unmodified _GIKWSCGN_ 0 0 0 ENST00000574951.5_1_17:4872053-4885503:-|nuORF;nc|ENSG00000108509|O94983-2|CAMTA2;nc|ENSG00000108509|O94983-3|CAMTA2;nc|ENSG00000108509|O94983-4|CAMTA2;ENSG00000108509|ENST00000348066|CAMTA2;CAMTA2|p.V1054Pfs*43|1|0.05|ENSG00000108509|chr17:4969932-4969933|-/GGATGGC|frameshift_variant;nc|ENSG00000108509|O94983-6|CAMTA2 ENST00000574951.5_1_17:4872053-4885503:-|nuORF ENST00000574951.5_1_17:4872053-4885503:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 432.7052307128906 2 432.705263 863.395972 2.8216 0.0012209 -0.61604 -0.00026656 2.2056 0.00095437 432.70419473686866 83.012 0.34487 83.259 83.072 83.417 0.24722 40 18 3 0 0 0 0.72385 1 38204 38204 3.9444 3.9444 1 1727700 7525 1634 4754 4771 8878 8878 -0.04118972731316717 GIKWSCGN 8 Unmodified _GIKWSCGN_ 0 0 0 ENST00000574951.5_1_17:4872053-4885503:-|nuORF;nc|ENSG00000108509|O94983-2|CAMTA2;nc|ENSG00000108509|O94983-3|CAMTA2;nc|ENSG00000108509|O94983-4|CAMTA2;ENSG00000108509|ENST00000348066|CAMTA2;CAMTA2|p.V1054Pfs*43|1|0.05|ENSG00000108509|chr17:4969932-4969933|-/GGATGGC|frameshift_variant;nc|ENSG00000108509|O94983-6|CAMTA2 ENST00000574951.5_1_17:4872053-4885503:-|nuORF ENST00000574951.5_1_17:4872053-4885503:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 432.7055358886719 2 432.705263 863.395972 3.1806 0.0013763 -1.4195 -0.00061421 1.7612 0.00076207 432.70395697377637 82.638 0.40606 83.298 83.085 83.491 0.66019 59 23 3 0 0 0 0.74709 1 38103 38103 2.0598 0 1 1012800 7526 1634 4754 4771 8879 8879 -0.04118972731316717 GIKWTCSN 8 Unmodified _GIKWTCSN_ 0 0 0 nc|ENSG00000171735|Q9Y6Y1-2|CAMTA1;ENSG00000171735|ENST00000303635|CAMTA1 nc|ENSG00000171735|Q9Y6Y1-2|CAMTA1 nc|ENSG00000171735|Q9Y6Y1-2|CAMTA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 454.71868896484375 2 454.71837 907.422187 3.1312 0.0014238 -1.3424 -0.00061042 1.7888 0.00081341 454.7173728945264 85.473 0.35812 86.138 85.943 86.301 0.66566 66 16 6 0 0 0 0.72385 1 39371 39371 3.9444 3.9444 1 1975700 7527 4828 4755 4772 8880 8880 -0.035227035598495604 GILKKLIDFI 10 Unmodified _GILKKLIDFI_ 0 0 0 REV__ENSG00000146909|ENST00000275820|NOM1 REV__ENSG00000146909|ENST00000275820|NOM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 580.7145385742188 2 580.376092 1158.73763 NaN NaN NaN NaN NaN NaN NaN 98.578 1 98.878 98.378 99.378 0.29987 0 0 0 0.99733 1 45433 45433 3.9444 0.3479 1 + 7528 12487 4756 4773 8881 8881 0.16461198510410213 GILKLLILT 9 Unmodified _GILKLLILT_ 0 0 0 ENST00000530023.5_2_11:31484759-31531097:-|nuORF ENST00000530023.5_2_11:31484759-31531097:-|nuORF ENST00000530023.5_2_11:31484759-31531097:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.3489990234375 2 492.346803 982.679054 NaN NaN NaN NaN NaN NaN NaN 87.908 1 87.948 87.448 88.448 0.039955 0 0 0 0.90965 1 44644 44644 2.3027 0 1 7529 8707 4757 4774 8882 8882 0.18702141935955297 GILLYRKWKRR 11 Unmodified _GILLYRKWKRR_ 0 0 0 REV__nc|ENSG00000162542|Q5TGY1-2|TMCO4 REV__nc|ENSG00000162542|Q5TGY1-2|TMCO4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 744.9686279296875 2 744.967337 1487.92012 NaN NaN NaN NaN NaN NaN NaN 102.35 1 102.41 101.91 102.91 0.057198 0 0 0 1.0071 1 55567 55567 1.4819 0.15237 1 + 7530 12941 4758 4775 8883 8883 0.19567770695698528 GILPKPNLLRK 11 Unmodified _GILPKPNLLRK_ 0 0 0 PBRM1|p.M1038Sfs*121|1|0.03|ENSG00000163939|chr3:52587363-52587363|A/-|frameshift_variant PBRM1|p.M1038Sfs*121|1|0.03|ENSG00000163939|chr3:52587363-52587363|A/-|frameshift_variant PBRM1|p.M1038Sfs*121|1|0.03|ENSG00000163939|chr3:52587363-52587363|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 625.2288818359375 2 624.911165 1247.80778 NaN NaN NaN NaN NaN NaN NaN 98.615 1 98.915 98.415 99.415 0.29987 0 0 0 1.0057 1 45459 45459 3.2813 0.54611 1 7531 9905 4759 4776 8884 8884 0.19378496898866615 GILRKGAKLFF 11 Unmodified _GILRKGAKLFF_ 0 0 0 nc|ENSG00000157617|Q9Y426-2|C2CD2;C2CD2|p.D643Tfs*4|1|0.22|ENSG00000157617|chr21:41889289-41889289|T/-|frameshift_variant;nc|ENSG00000157617|Q9Y426-3|C2CD2;ENSG00000157617|ENST00000380486|C2CD2 nc|ENSG00000157617|Q9Y426-2|C2CD2 nc|ENSG00000157617|Q9Y426-2|C2CD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 625.3975830078125 2 625.392608 1248.77066 NaN NaN NaN NaN NaN NaN NaN 100.64 1 100.95 100.45 101.45 0.31412 0 0 0 1.0034 1 46561 46561 6.2058 1.8765 1 7532 93 4760 4777 8885 8885 0.15622825353125336 GIMMVVECDKK 11 Unmodified _GIMMVVECDKK_ 0 0 0 REV__ENSG00000153187|ENST00000640218|HNRNPU REV__ENSG00000153187|ENST00000640218|HNRNPU MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 626.4437866210938 2 626.808545 1251.60254 2.3633 0.0014814 -3.1595 -0.0019804 -0.79619 -0.00049906 627.3081186643257 94.147 0.079437 94.233 94.187 94.266 0.086212 12 8 2 0 0 0 0.13295 1 49461 49461 1.3295 0 1 5029700 + 7533 12672 4761 4778 8886 8886 -0.013201090095208201 GIQCRDVRTR 10 Unmodified _GIQCRDVRTR_ 0 0 0 nc|ENSG00000134014|Q9H9T3-4|ELP3;nc|ENSG00000134014|Q9H9T3-5|ELP3;nc|ENSG00000134014|Q9H9T3-2|ELP3;ENSG00000134014|ENST00000256398|ELP3 nc|ENSG00000134014|Q9H9T3-4|ELP3 nc|ENSG00000134014|Q9H9T3-4|ELP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.322998046875 2 602.322388 1202.63022 2.1764 0.0013109 -0.89893 -0.00054145 1.2775 0.00076947 602.32142266104 103.17 0.17612 103.22 103.1 103.28 0.055092 11 7 2 0 0 0 0.93628 1 55972 55972 1.6526 0.17072 1 456140 7534 2782 4762 4779 8887 8887 0.037012983572367375 GIQHECQDLHR 11 Unmodified _GIQHECQDLHR_ 0 0 0 REV__ENSG00000100078|ENST00000215885|PLA2G3 REV__ENSG00000100078|ENST00000215885|PLA2G3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.3499145507812 2 668.31476 1334.61497 NaN NaN NaN NaN NaN NaN NaN 109.45 1 109.49 108.99 109.99 0.041008 0 0 0 1.0059 1 59034 59034 2.9952 0 1 + 7535 10801 4763 4780 8888 8888 -0.038956132306338986 GIQPKRRRRHM 11 Unmodified _GIQPKRRRRHM_ 0 0 0 nc|ENSG00000166436|O15016-2|TRIM66;nc|ENSG00000166436|O15016|TRIM66;ENSG00000166436|ENST00000646038|TRIM66;ENST00000525788.1_1_11:8639545-8642109:-|nuORF nc|ENSG00000166436|O15016-2|TRIM66 nc|ENSG00000166436|O15016-2|TRIM66 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 717.9209594726562 2 717.920395 1433.82624 NaN NaN NaN NaN NaN NaN NaN 87.817 1 87.817 87.317 88.317 0 0 0 0 1.0071 1 45399 45399 1.4819 0 1 7536 4484 4764 4781 8889 8889 0.12667728321798677 GIQRKMKCMWE 11 Unmodified _GIQRKMKCMWE_ 0 0 0 ARID2|p.G1274Efs*21|1|0.55|ENSG00000189079|chr12:45851943-45851943|G/-|frameshift_variant ARID2|p.G1274Efs*21|1|0.55|ENSG00000189079|chr12:45851943-45851943|G/-|frameshift_variant ARID2|p.G1274Efs*21|1|0.55|ENSG00000189079|chr12:45851943-45851943|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 705.3998413085938 2 705.34616 1408.67777 NaN NaN NaN NaN NaN NaN NaN 90.853 1 90.853 90.353 91.353 0 0 0 0 1.0038 1 47841 47841 5.7319 2.1354 1 7537 67 4765 4782 8890 8890 -0.010225067584315184 GIRDHITL 8 Unmodified _GIRDHITL_ 0 0 0 ENST00000285208.8_1_3:133547410-133547644:-|nuORF ENST00000285208.8_1_3:133547410-133547644:-|nuORF ENST00000285208.8_1_3:133547410-133547644:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.7684020996094 2 462.766709 923.518865 2.3063 0.0010673 1.7606 0.00081473 4.0668 0.001882 462.767511964759 13.577 0.16004 13.884 13.767 13.927 0.30727 22 13 2 0 0 0 0.61166 1 6113 6113 11.64 0.81637 1 366670 7538 6714 4766 4783 8891 8891 0.054046069916125816 GIRETEEKFYY 11 Unmodified _GIRETEEKFYY_ 0 0 0 ENSG00000184374|ENST00000332843|COLEC10 ENSG00000184374|ENST00000332843|COLEC10 ENSG00000184374|ENST00000332843|COLEC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 717.8484497070312 2 717.848624 1433.6827 NaN NaN NaN NaN NaN NaN NaN 92.18 1 92.263 91.763 92.763 0.082848 0 0 0 1.0071 1 47970 47970 1.4819 0 1 7539 5437 4767 4784 8892 8892 -0.016798848187818294 GIRIRRRCKTV 11 Unmodified _GIRIRRRCKTV_ 0 0 0 REV__ENST00000436868.5_1_7:16744271-16745703:+|nuORF REV__ENST00000436868.5_1_7:16744271-16745703:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 678.921142578125 2 679.419697 1356.82484 4.619 0.0031383 0.21226 0.00014422 4.8313 0.0032825 679.4193963904677 100.78 0.15029 101.1 101.03 101.18 0.31412 6 4 2 0 0 0 0.13295 1 46659 46659 0.35063 0 1 1366000 + 7540 16312 4768 4785 8893 8893 0.1607009423303225 GIRNVFLKKLT 11 Unmodified _GIRNVFLKKLT_ 0 0 0 REV__HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|82|2|sense REV__HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|82|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 645.320556640625 2 644.908622 1287.80269 NaN NaN NaN NaN NaN NaN NaN 97.791 1 98.39 97.89 98.89 0.59885 0 0 0 1.0057 1 44995 44995 3.2813 0.28607 1 + 7541 17740 4769 4786 8894 8894 0.17030193036271157 GIRRKIRIKKE 11 Unmodified _GIRRKIRIKKE_ 0 0 0 REV__L1MEf_dup4433|chr6:106769503-106769719:-|1.7818743051446626|0.0926202861753642|4.27|530.0|3|2|sense REV__L1MEf_dup4433|chr6:106769503-106769719:-|1.7818743051446626|0.0926202861753642|4.27|530.0|3|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 698.9627075195312 2 698.964794 1395.91504 NaN NaN NaN NaN NaN NaN NaN 57.093 1 57.871 57.371 58.371 0.77786 0 0 0 1.0071 1 26122 26122 1.4819 1.0236 1 + 7542 17775 4770 4787 8895 8895 0.2329146683309773 GIRVYLKEKK 10 Unmodified _GIRVYLKEKK_ 0 0 0 ENSG00000177047|ENST00000380229|IFNW1 ENSG00000177047|ENST00000380229|IFNW1 ENSG00000177047|ENST00000380229|IFNW1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.779541015625 2 617.387522 1232.76049 NaN NaN NaN NaN NaN NaN NaN 88.627 1 88.627 88.127 89.127 0 0 0 0 0.99733 1 46039 46039 3.9444 1.2092 1 7543 5098 4771 4788 8896 8896 0.15342217627880927 GIRYDDYDYGE 11 Unmodified _GIRYDDYDYGE_ 0 0 0 ENSG00000130766|ENST00000253063|SESN2;ENST00000520364.1_1_6:109309715-109314184:-|nuORF;nc|ENSG00000149212|P58005-4|SESN3;nc|ENSG00000080546|Q9Y6P5-3|SESN1;nc|ENSG00000080546|Q9Y6P5|SESN1;ENSG00000149212|ENST00000536441|SESN3;ENSG00000080546|ENST00000436639|SESN1 ENSG00000130766|ENST00000253063|SESN2 ENSG00000130766|ENST00000253063|SESN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 683.2850952148438 2 683.283314 1364.55207 3.7562 0.0025666 -0.81469 -0.00055667 2.9415 0.0020099 683.2826595740013 35.67 0.45045 35.926 35.713 36.164 0.25524 41 15 3 0 0 0 0.82535 3 16222 16222;16276;16340 5.7319 0.43497 1 875050 7544 2619 4772 4789 8897;8898;8899 8897 -0.11561900537685688 GISIVISIELM 11 Unmodified _GISIVISIELM_ 0 0 0 REV__ENST00000339600.5_1_7:10973108-10973165:-|nuORF REV__ENST00000339600.5_1_7:10973108-10973165:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.8416748046875 2 587.841225 1173.6679 NaN NaN NaN NaN NaN NaN NaN 48.236 1 48.236 47.736 48.736 0 0 0 0 1.0059 1 22087 22087 2.9952 0.49676 1 + 7545 15451 4773 4790 8900 8900 0.08800951779471688 GISSAEVQLW 10 Unmodified _GISSAEVQLW_ 0 0 0 ENST00000488829.1_1_9:89626569-89628063:+|nuORF ENST00000488829.1_1_9:89626569-89628063:+|nuORF ENST00000488829.1_1_9:89626569-89628063:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.2835693359375 2 545.282389 1088.55022 NaN NaN NaN NaN NaN NaN NaN 107.52 1 107.52 107.02 108.02 0 0 0 0 0.99774 1 58965 58965 3.5965 1.5367 1 7546 8373 4774 4791 8901 8901 0.009491352350551097 GITEDNENSK 10 Unmodified _GITEDNENSK_ 0 0 0 nc|ENSG00000151322|Q8IXF0-4|NPAS3;nc|ENSG00000151322|Q8IXF0-2|NPAS3;nc|ENSG00000151322|Q8IXF0-3|NPAS3;ENSG00000151322|ENST00000356141|NPAS3 nc|ENSG00000151322|Q8IXF0-4|NPAS3 nc|ENSG00000151322|Q8IXF0-4|NPAS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.8314208984375 2 553.75165 1105.48875 NaN NaN NaN NaN NaN NaN NaN 87.53 1 87.57 87.07 88.07 0.039955 0 0 0 0.99225 1 44337 44337 6.7232 1.9672 1 7547 3699 4775 4792 8902 8902 -0.05977841254912164 GITQRKESL 9 Unmodified _GITQRKESL_ 0 0 0 ENSG00000164061|ENST00000296452|BSN ENSG00000164061|ENST00000296452|BSN ENSG00000164061|ENST00000296452|BSN MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.5337219238281 3 344.532979 1030.57711 1.9558 0.00067383 0.52095 0.00017948 2.4767 0.00085332 344.53311510870697 13.192 0.31667 13.499 13.32 13.637 0.30727 46 21 3 0 0 0 0.099794 1 5917 5917 8.7454 1.1365 1 1220500 7548 4279 4776 4793 8903 8903 0.06304243846238933 GITTIKVNIRN 11 Unmodified _GITTIKVNIRN_ 0 0 0 nc|ENSG00000171766|P50440-2|GATM;ENSG00000171766|ENST00000396659|GATM nc|ENSG00000171766|P50440-2|GATM nc|ENSG00000171766|P50440-2|GATM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 614.8746948242188 2 614.872237 1227.72992 NaN NaN NaN NaN NaN NaN NaN 86.434 1 86.684 86.184 87.184 0.24974 0 0 0 1.0041 1 39779 39779 5.2969 1.3525 1 7549 4830 4777 4794 8904 8904 0.12516439242835986 GIVIRKPVPV 10 Unmodified _GIVIRKPVPV_ 0 0 0 REV__ATP4A|p.L681Gfs*50|1|0.16|ENSG00000105675|chr19:35555553-35555557|TCAGC/-|frameshift_variant REV__ATP4A|p.L681Gfs*50|1|0.16|ENSG00000105675|chr19:35555553-35555557|TCAGC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.353515625 2 539.360776 1076.707 NaN NaN NaN NaN NaN NaN NaN 93.888 1 93.974 93.474 94.474 0.086212 0 0 0 0.99687 1 49284 49284 4.3292 2.485 1 + 7550 9975 4778 4795 8905 8905 0.17171464916009427 GIVNLNIHMN 10 Unmodified _GIVNLNIHMN_ 0 0 0 ENSG00000146411|ENST00000275230|SLC2A12 ENSG00000146411|ENST00000275230|SLC2A12 ENSG00000146411|ENST00000275230|SLC2A12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.1265258789062 2 562.797683 1123.58081 NaN NaN NaN NaN NaN NaN NaN 85.648 1 85.648 85.148 86.148 0 0 0 0 0.97102 1 43676 43676 10.074 1.9184 1 7551 3515 4779 4796 8906 8906 0.02396590348416794 GIVYIFCWFN 10 Unmodified _GIVYIFCWFN_ 0 0 0 ENSG00000171044|ENST00000416569|XKR6;nc|ENSG00000171044|Q5GH73-2|XKR6 ENSG00000171044|ENST00000416569|XKR6 ENSG00000171044|ENST00000416569|XKR6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 631.3110961914062 2 631.307352 1260.60015 3.2988 0.0020826 -1.167 -0.00073676 2.1318 0.0013458 631.3075724061817 87.166 0.056213 87.166 87.141 87.197 0 10 8 2 0 0 0 0.89464 1 44890 44890 3.9444 0.3479 1 15947000 7552 4784 4780 4797 8907 8907 -0.01972453360667714 GIWKPRKIPN 10 Unmodified _GIWKPRKIPN_ 0 0 0 nc|ENSG00000127022|P27824-3|CANX;ENSG00000127022|ENST00000247461|CANX;nc|ENSG00000127022|P27824-2|CANX nc|ENSG00000127022|P27824-3|CANX nc|ENSG00000127022|P27824-3|CANX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.8368530273438 2 604.866757 1207.71896 NaN NaN NaN NaN NaN NaN NaN 85.839 1 85.839 85.339 86.339 0 0 0 0 0.99774 1 43822 43822 3.5965 0 1 7553 2472 4781 4798 8908 8908 0.12341081659224074 GIWLRRQMRRK 11 Unmodified _GIWLRRQMRRK_ 0 0 0 REV__HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|111|2|anti-sense REV__HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|111|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 750.4490966796875 2 750.446246 1498.87794 NaN NaN NaN NaN NaN NaN NaN 56.126 1 56.392 55.892 56.892 0.26543 0 0 0 1.008 1 25670 25670 0.35063 0.043601 1 + 7554 17727 4782 4799 8909 8909 0.14845472015667838 GIWVPRWQRWQ 11 Unmodified _GIWVPRWQRWQ_ 0 0 0 ENST00000314412.6_1_9:139927066-139927180:-|nuORF ENST00000314412.6_1_9:139927066-139927180:-|nuORF ENST00000314412.6_1_9:139927066-139927180:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.60418701171875 3 504.605472 1510.79459 NaN NaN NaN NaN NaN NaN NaN 26.247 1 26.873 26.373 27.373 0.62505 0 0 0 1.0071 1 12035 12035 1.4551 1.0469 1 7555 6892 4783 4800 8910 8910 0.05962058839486417 GKAANFVH 8 Unmodified _GKAANFVH_ 0 0 0 ENSG00000152495|ENST00000282356|CAMK4 ENSG00000152495|ENST00000282356|CAMK4 ENSG00000152495|ENST00000282356|CAMK4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.5933532714844 2 422.22722 842.439886 2.4022 0.0010143 1.4095 0.00059515 3.8117 0.0016094 422.2275456277871 52.435 0.17891 53.246 53.19 53.369 0.81065 11 10 2 0 0 0 0.14267 1 23907 23907 2.5775 0 1 145510 7556 3751 4784 4801 8911 8911 0.012363797573243573 GKAANFVH 8 Unmodified _GKAANFVH_ 0 0 0 ENSG00000152495|ENST00000282356|CAMK4 ENSG00000152495|ENST00000282356|CAMK4 ENSG00000152495|ENST00000282356|CAMK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.228759765625 2 422.22722 842.439886 2.8279 0.001194 0.30504 0.00012879 3.1329 0.0013228 422.22782887558554 62.291 0.20211 62.951 62.856 63.058 0.66008 17 14 2 0 0 0 0.74071 1 28567 28567 2.5775 2.5775 1 504930 7557 3751 4784 4801 8912 8912 0.012363797573243573 GKAAPRRG 8 Unmodified _GKAAPRRG_ 0 0 0 ENST00000541638.5_1_15:74275513-74275969:-|nuORF ENST00000541638.5_1_15:74275513-74275969:-|nuORF ENST00000541638.5_1_15:74275513-74275969:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.7474670410156 2 406.746111 811.477669 3.1335 0.0012745 0.026789 1.0896E-05 3.1603 0.0012854 406.7460933260508 91.443 0.42921 92.105 91.896 92.325 0.66198 42 19 3 0 0 0 0.7471 2 42035 42035;42142 0.69038 0 1 1509700 7558 8810 4785 4802 8913;8914 8913 0.06438890742799686 GKAKPIKIKL 10 Unmodified _GKAKPIKIKL_ 0 0 0 ENSG00000171467|ENST00000361428|ZNF318;ZNF318|p.P1493Sfs*2|1|0.15|ENSG00000171467|chr6:43339522-43339523|-/C|frameshift_variant ENSG00000171467|ENST00000361428|ZNF318 ENSG00000171467|ENST00000361428|ZNF318 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.9201049804688 2 548.384251 1094.75395 NaN NaN NaN NaN NaN NaN NaN 84.525 1 84.553 84.053 85.053 0.028603 0 0 0 1.0001 1 42186 42186 1.6526 0 1 7559 4805 4786 4803 8915 8915 0.21036324467149825 GKAPRGRG 8 Unmodified _GKAPRGRG_ 0 0 0 REV__ENSG00000225614|ENST00000565624|ZNF469 REV__ENSG00000225614|ENST00000565624|ZNF469 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.7392883300781 2 399.738286 797.462019 2.8249 0.0011292 0.048703 1.9468E-05 2.8736 0.0011487 399.73815748170074 81.497 0.43599 81.745 81.54 81.976 0.24802 49 22 3 0 0 0 0.7441 1 37523 37523 2.3027 0 1 3193800 + 7560 14553 4787 4804 8916 8916 0.05518604225767376 GKARKLFY 8 Unmodified _GKARKLFY_ 0 0 0 ENSG00000182095|ENST00000430969|TNRC18;ENSG00000266074|ENST00000675386|BAHCC1;nc|ENSG00000266074|Q9P281|BAHCC1 ENSG00000182095|ENST00000430969|TNRC18;ENSG00000266074|ENST00000675386|BAHCC1 ENSG00000182095|ENST00000430969|TNRC18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.2005920410156 3 328.199272 981.575986 2.4061 0.00078969 1.6599 0.00054477 4.066 0.0013345 328.19976593187016 59.704 0.33527 59.963 59.768 60.103 0.2593 28 21 2 0 0 0 0.74071 1 27307 27307 1.6526 0 1 1105900 7561 5310;6322 4788 4805 8917 8917 0.08446074267999393 GKARKLFY 8 Unmodified _GKARKLFY_ 0 0 0 ENSG00000182095|ENST00000430969|TNRC18;ENSG00000266074|ENST00000675386|BAHCC1;nc|ENSG00000266074|Q9P281|BAHCC1 ENSG00000182095|ENST00000430969|TNRC18;ENSG00000266074|ENST00000675386|BAHCC1 ENSG00000182095|ENST00000430969|TNRC18 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.2016296386719 3 328.199272 981.575986 NaN NaN NaN NaN NaN NaN NaN 59.753 1 60.013 59.513 60.513 0.2593 0 0 0 0.99035 1 27364 27364 1.6526 0 1 7562 5310;6322 4788 4805 8918 8918 0.08446074267999393 GKARKLFY 8 Unmodified _GKARKLFY_ 0 0 0 ENSG00000182095|ENST00000430969|TNRC18;ENSG00000266074|ENST00000675386|BAHCC1;nc|ENSG00000266074|Q9P281|BAHCC1 ENSG00000182095|ENST00000430969|TNRC18;ENSG00000266074|ENST00000675386|BAHCC1 ENSG00000182095|ENST00000430969|TNRC18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.19989013671875 3 328.199272 981.575986 2.2494 0.00073824 1.28 0.00042009 3.5293 0.0011583 328.19956770897966 59.195 0.73398 59.862 59.245 59.979 0.66703 47 34 2 0 0 0 0.74071 1 27135 27135 1.6526 0 1 1852600 7563 5310;6322 4788 4805 8919 8919 0.08446074267999393 GKARKLFY 8 Unmodified _GKARKLFY_ 0 0 0 ENSG00000182095|ENST00000430969|TNRC18;ENSG00000266074|ENST00000675386|BAHCC1;nc|ENSG00000266074|Q9P281|BAHCC1 ENSG00000182095|ENST00000430969|TNRC18;ENSG00000266074|ENST00000675386|BAHCC1 ENSG00000182095|ENST00000430969|TNRC18 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 328.199272 981.575986 1.9615 0.00064376 2.2129 0.00072627 4.1744 0.00137 328.20005285576747 59.538 0.34084 60.288 60.181 60.522 0.74927 0.16234 0.00029589 NaN 1.6526 51 24 3 NaN NaN NaN NaN 0 NaN NaN 0 817020 7564 5310;6322 4788 4805 0.08446074267999393 GKARLVPW 8 Unmodified _GKARLVPW_ 0 0 0 ENST00000356387.6_1_7:102087640-102088213:+|nuORF ENST00000356387.6_1_7:102087640-102088213:+|nuORF ENST00000356387.6_1_7:102087640-102088213:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 309.52484130859375 3 309.523867 925.549771 2.0177 0.00062452 2.5385 0.00078572 4.5561 0.0014102 309.52433907813577 33.029 0.87379 33.648 33.038 33.912 0.61831 77 42 3 0 0 0 0.65723 2 15117 15117;15167 6.7232 2.7788 1 2009300 7565 7156 4789 4806 8920;8921 8920 0.08401805096502812 GKARLVPW 8 Unmodified _GKARLVPW_ 0 0 0 ENST00000356387.6_1_7:102087640-102088213:+|nuORF ENST00000356387.6_1_7:102087640-102088213:+|nuORF ENST00000356387.6_1_7:102087640-102088213:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 309.523867 925.549771 1.7296 0.00053537 3.0686 0.00094981 4.7982 0.0014852 309.5245017261247 33.823 0.24856 33.823 33.682 33.931 0 0.11266 0.00049854 NaN 6.7232 40 14 4 NaN NaN NaN NaN 0 NaN NaN 0 2004300 7566 7156 4789 4806 0.08401805096502812 GKARLVPW 8 Unmodified _GKARLVPW_ 0 0 0 ENST00000356387.6_1_7:102087640-102088213:+|nuORF ENST00000356387.6_1_7:102087640-102088213:+|nuORF ENST00000356387.6_1_7:102087640-102088213:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 309.523867 925.549771 1.9984 0.00061854 2.3292 0.00072095 4.3276 0.0013395 309.52438061173234 32.756 0.33575 33.544 33.405 33.741 0.78795 -0.16638 -0.00018804 NaN 6.7232 58 24 3 NaN NaN NaN NaN 0 NaN NaN 0 1426300 7567 7156 4789 4806 0.08401805096502812 GKARLVPW 8 Unmodified _GKARLVPW_ 0 0 0 ENST00000356387.6_1_7:102087640-102088213:+|nuORF ENST00000356387.6_1_7:102087640-102088213:+|nuORF ENST00000356387.6_1_7:102087640-102088213:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 309.523867 925.549771 2.2678 0.00070194 2.4858 0.00076943 4.7536 0.0014714 309.5243499486391 33.573 0.69853 33.827 33.578 34.277 0.25389 0.11662 -4.2593E-05 NaN 6.7232 76 38 3 NaN NaN NaN NaN 0 NaN NaN 0 2489500 7568 7156 4789 4806 0.08401805096502812 GKARRRRTKK 10 Unmodified _GKARRRRTKK_ 0 0 0 REV__ENSG00000109685|ENST00000508803|NSD2 REV__ENSG00000109685|ENST00000508803|NSD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 628.9097900390625 2 628.910353 1255.80615 NaN NaN NaN NaN NaN NaN NaN 106.65 1 106.97 106.47 107.47 0.31628 0 0 0 1.0003 1 49214 49214 1.4819 0.95714 1 + 7569 11175 4790 4807 8922 8922 0.1884830065348524 GKASLRTL 8 Unmodified _GKASLRTL_ 0 0 0 REV__ENSG00000244607|ENST00000310232|CCDC13 REV__ENSG00000244607|ENST00000310232|CCDC13 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.5970458984375 2 423.263802 844.513051 NaN NaN NaN NaN NaN NaN NaN 13.429 1 13.737 13.237 14.237 0.30727 0 0 0 0.99035 1 6058 6058 4.756 0.42677 1 + 7570 14639 4791 4808 8923 8923 0.08457508479943954 GKEEPDLLIQF 11 Unmodified _GKEEPDLLIQF_ 0 0 0 REV__ENST00000486253.1_1_15:91479504-91483847:+|nuORF REV__ENST00000486253.1_1_15:91479504-91483847:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.092529296875 2 644.84281 1287.67107 NaN NaN NaN NaN NaN NaN NaN 85.462 1 85.49 84.99 85.99 0.028603 0 0 0 0.99038 1 42788 42788 7.609 1.4032 1 + 7571 12257 4792 4809 8924 8924 0.03873918157842127 GKEEWEWLYF 10 Unmodified _GKEEWEWLYF_ 0 0 0 REV__nc|ENSG849|O42043|ERVK-18_env REV__nc|ENSG849|O42043|ERVK-18_env MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 693.8202514648438 2 693.821878 1385.6292 NaN NaN NaN NaN NaN NaN NaN 80.522 1 81.182 80.682 81.682 0.65998 0 0 0 1.0001 1 37104 37104 1.6526 0.17072 1 + 7572 18180 4793 4810 8925 8925 -0.048186375306841 GKEKEDPGVP 10 Unmodified _GKEKEDPGVP_ 0 0 0 REV__ENSG00000176165|ENST00000313071|FOXG1 REV__ENSG00000176165|ENST00000313071|FOXG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.2734375 2 528.272021 1054.52949 NaN NaN NaN NaN NaN NaN NaN 105.65 1 106.25 105.75 106.75 0.59969 0 0 0 0.99733 1 48789 48789 3.9444 0.66309 1 + 7573 13693 4794 4811 8926 8926 0.0044054485538254085 GKEVKKLL 8 Unmodified _GKEVKKLL_ 0 0 0 REV__nc|ENSG00000007174|Q9NYC9-2|DNAH9 REV__nc|ENSG00000007174|Q9NYC9-2|DNAH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.5401916503906 3 305.539294 913.596052 2.016 0.00061597 0.67798 0.00020715 2.694 0.00082312 305.5394867879119 17.852 0.40899 18.153 17.902 18.311 0.30159 85 34 3 0 0 0 0.52517 1 8101 8101 14.838 0 1 600930 + 7574 10198 4795 4812 8927 8927 0.1357982520794394 GKFNPRIRADY 11 Unmodified _GKFNPRIRADY_ 0 0 0 REV__ENSG00000145888|ENST00000274576|GLRA1 REV__ENSG00000145888|ENST00000274576|GLRA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.52294921875 2 668.85966 1335.70477 NaN NaN NaN NaN NaN NaN NaN 79.132 1 79.596 79.096 80.096 0.4642 0 0 0 1.0044 1 38619 38619 4.897 0.95262 1 + 7575 12459 4796 4813 8928 8928 0.05034384440273243 GKGAPRRG 8 Unmodified _GKGAPRRG_ 0 0 0 ENSG00000070193|ENST00000264664|FGF10 ENSG00000070193|ENST00000264664|FGF10 ENSG00000070193|ENST00000264664|FGF10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.7389221191406 2 399.738286 797.462019 2.8249 0.0011292 0.048703 1.9468E-05 2.8736 0.0011487 399.73815748170074 81.497 0.43599 81.745 81.54 81.976 0.24802 49 22 3 0 0 0 0.7441 1 37474 37474 2.3027 0 1 3193800 7576 761 4797 4814 8929 8929 0.055186042257560075 GKGCESCMY 9 Unmodified _GKGCESCMY_ 0 0 0 REV__ENSG00000142556|ENST00000270649|ZNF614 REV__ENSG00000142556|ENST00000270649|ZNF614 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.1795959472656 2 489.179906 976.345259 NaN NaN NaN NaN NaN NaN NaN 60.324 1 60.324 59.824 60.824 0 0 0 0 0.86044 1 27983 27983 7.2892 0 1 + 7577 12332 4798 4815 8930 8930 -0.14386006162840204 GKGCESCT 8 Unmodified _GKGCESCT_ 0 0 0 REV__ENSG00000198093|ENST00000354957|ZNF649 REV__ENSG00000198093|ENST00000354957|ZNF649 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 392.6527099609375 2 392.651839 783.289124 2.8223 0.0011082 -1.2305 -0.00048317 1.5917 0.000625 392.6508931483167 82.387 0.64336 82.634 82.372 83.016 0.24722 53 36 2 0 0 0 0.7441 1 37946 37946 2.3027 1.6124 1 417950 + 7578 14293 4799 4816 8931 8931 -0.11118891008015908 GKGCESCT 8 Unmodified _GKGCESCT_ 0 0 0 REV__ENSG00000198093|ENST00000354957|ZNF649 REV__ENSG00000198093|ENST00000354957|ZNF649 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 392.651839 783.289124 2.8223 0.0011082 -1.2305 -0.00048317 1.5917 0.000625 392.6508931483167 82.387 0.64336 82.634 82.372 83.016 0.24722 0 0 NaN 2.3027 53 36 2 NaN NaN NaN NaN 0 NaN NaN 0 417950 + 7579 14293 4799 4816 -0.11118891008015908 GKGCFECVF 9 Unmodified _GKGCFECVF_ 0 0 0 REV__nc|ENSG00000128610|A0PJY2-2|FEZF1 REV__nc|ENSG00000128610|A0PJY2-2|FEZF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.2130126953125 2 495.214606 988.414659 NaN NaN NaN NaN NaN NaN NaN 79.435 1 79.435 78.935 79.935 0 0 0 0 0.86044 1 39247 39247 7.2892 2.0586 1 + 7580 11766 4800 4817 8932 8932 -0.08001179151767701 GKGCHNCE 8 Unmodified _GKGCHNCE_ 0 0 0 REV__ENSG00000278129|ENST00000621650|ZNF8 REV__ENSG00000278129|ENST00000621650|ZNF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 424.1615905761719 2 424.162905 846.311257 NaN NaN NaN NaN NaN NaN NaN 73.831 1 74.09 73.59 74.59 0.25876 0 0 0 0.99035 1 33922 33922 2.3027 0 1 + 7581 14748 4801 4818 8933 8933 -0.11804666539580921 GKGCRGPS 8 Unmodified _GKGCRGPS_ 0 0 0 ENST00000314412.6_1_9:139924917-139925142:-|nuORF ENST00000314412.6_1_9:139924917-139925142:-|nuORF ENST00000314412.6_1_9:139924917-139925142:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.190673828125 2 381.18978 760.365007 NaN NaN NaN NaN NaN NaN NaN 68.242 1 68.494 67.994 68.994 0.25227 0 0 0 0.99035 1 31261 31261 4.3292 1.7518 1 7582 6891 4802 4819 8934 8934 -0.024761260455534284 GKGCRGPS 8 Unmodified _GKGCRGPS_ 0 0 0 ENST00000314412.6_1_9:139924917-139925142:-|nuORF ENST00000314412.6_1_9:139924917-139925142:-|nuORF ENST00000314412.6_1_9:139924917-139925142:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.1905212402344 2 381.18978 760.365007 NaN NaN NaN NaN NaN NaN NaN 67.874 1 68.531 68.031 69.031 0.65777 0 0 0 0.99035 1 31112 31112 4.3292 1.7518 1 7583 6891 4802 4819 8935 8935 -0.024761260455534284 GKGCSSCSC 9 Unmodified _GKGCSSCSC_ 0 0 0 REV__ENSG00000185940|ENST00000399676|KRTAP5-5 REV__ENSG00000185940|ENST00000399676|KRTAP5-5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 416.1429748535156 2 416.143323 830.272094 NaN NaN NaN NaN NaN NaN NaN 64.316 1 65.032 64.532 65.532 0.71521 0 0 0 0.90699 1 30295 30295 1.8442 1.1539 1 + 7584 14035 4803 4820 8936 8936 -0.14983134885460458 GKGCSSCSCA 10 Unmodified _GKGCSSCSCA_ 0 0 0 REV__ENSG00000185940|ENST00000399676|KRTAP5-5 REV__ENSG00000185940|ENST00000399676|KRTAP5-5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.4891662597656 2 451.66188 901.309208 NaN NaN NaN NaN NaN NaN NaN 58.439 1 59.198 58.698 59.698 0.75894 0 0 0 1.0003 1 26803 26803 1.4819 0.68827 1 + 7585 14035 4804 4821 8937 8937 -0.14539463339701797 GKGCYFVQ 8 Unmodified _GKGCYFVQ_ 0 0 0 REV__ENST00000419303.5_1_22:22348995-22398182:-|nuORF REV__ENST00000419303.5_1_22:22348995-22398182:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.8869323730469 2 451.215463 900.416374 NaN NaN NaN NaN NaN NaN NaN 62.686 1 62.686 62.186 63.186 0 0 0 0 0.99035 1 29395 29395 4.756 0.42677 1 + 7586 16157 4805 4822 8938 8938 -0.03781802071512175 GKGCYFVQ 8 Unmodified _GKGCYFVQ_ 0 0 0 REV__ENST00000419303.5_1_22:22348995-22398182:-|nuORF REV__ENST00000419303.5_1_22:22348995-22398182:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.276123046875 2 451.215463 900.416374 NaN NaN NaN NaN NaN NaN NaN 68.812 1 68.812 68.312 69.312 0 0 0 0 0.89651 1 33156 33156 12.532 3.1841 1 + 7587 16157 4805 4822 8939 8939 -0.03781802071512175 GKGCYFVQ 8 Unmodified _GKGCYFVQ_ 0 0 0 REV__ENST00000419303.5_1_22:22348995-22398182:-|nuORF REV__ENST00000419303.5_1_22:22348995-22398182:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.3538818359375 2 451.215463 900.416374 NaN NaN NaN NaN NaN NaN NaN 68.824 1 68.824 68.324 69.324 0 0 0 0 0.89651 1 33162 33162 12.532 3.1841 1 + 7588 16157 4805 4822 8940 8940 -0.03781802071512175 GKGCYFVQ 8 Unmodified _GKGCYFVQ_ 0 0 0 REV__ENST00000419303.5_1_22:22348995-22398182:-|nuORF REV__ENST00000419303.5_1_22:22348995-22398182:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.27020263671875 2 451.215463 900.416374 NaN NaN NaN NaN NaN NaN NaN 69.302 1 69.302 68.802 69.802 0 0 0 0 0.89651 1 33458 33458 12.532 3.1841 1 + 7589 16157 4805 4822 8941 8941 -0.03781802071512175 GKGCYFVQ 8 Unmodified _GKGCYFVQ_ 0 0 0 REV__ENST00000419303.5_1_22:22348995-22398182:-|nuORF REV__ENST00000419303.5_1_22:22348995-22398182:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.2171325683594 2 451.215463 900.416374 NaN NaN NaN NaN NaN NaN NaN 70.461 1 71.165 70.665 71.665 0.70386 0 0 0 0.967 1 33763 33763 7.9102 1.5561 1 + 7590 16157 4805 4822 8942 8942 -0.03781802071512175 GKGFQACDEHS 11 Unmodified _GKGFQACDEHS_ 0 0 0 ENST00000454181.6_1_15:52043499-52043646:-|nuORF ENST00000454181.6_1_15:52043499-52043646:-|nuORF ENST00000454181.6_1_15:52043499-52043646:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.7476196289062 2 589.748387 1177.48222 NaN NaN NaN NaN NaN NaN NaN 75.381 1 75.381 74.881 75.881 0 0 0 0 1.0041 1 36937 36937 5.2969 0.96765 1 7591 8037 4806 4823 8943 8943 -0.09942057687248962 GKGFQRKV 8 Unmodified _GKGFQRKV_ 0 0 0 ENSG00000162676|ENST00000294702|GFI1 ENSG00000162676|ENST00000294702|GFI1 ENSG00000162676|ENST00000294702|GFI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 307.1895446777344 3 307.187255 918.539935 NaN NaN NaN NaN NaN NaN NaN 39.905 1 39.905 39.405 40.405 0 0 0 0 0.99035 1 18111 18111 1.6526 0 1 7592 4157 4807 4824 8944 8944 0.07740617091133117 GKGFVALV 8 Unmodified _GKGFVALV_ 0 0 0 REV__nc|ENSG00000149452|Q8TCC7-5|SLC22A8 REV__nc|ENSG00000149452|Q8TCC7-5|SLC22A8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.74481201171875 2 395.744714 789.474875 NaN NaN NaN NaN NaN NaN NaN 47.517 1 47.781 47.281 48.281 0.26363 0 0 0 0.99035 1 21713 21713 2.3027 0 1 + 7593 12569 4808 4825 8945 8945 0.07171622565283542 GKGGAIRM 8 Unmodified _GKGGAIRM_ 0 0 0 nc|ENSG00000120697|Q9Y673-2|ALG5;ENSG00000120697|ENST00000239891|ALG5 nc|ENSG00000120697|Q9Y673-2|ALG5 nc|ENSG00000120697|Q9Y673-2|ALG5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.22283935546875 2 395.223623 788.432692 NaN NaN NaN NaN NaN NaN NaN 34.871 1 35.126 34.626 35.626 0.25524 0 0 0 0.99035 1 15886 15886 2.3027 1.5091 1 7594 2208 4809 4826 8946 8946 0.030013238852461654 GKGGCVGC 8 Unmodified _GKGGCVGC_ 0 0 0 REV__ENST00000531752.1_1_11:130275455-130281537:-|nuORF REV__ENST00000531752.1_1_11:130275455-130281537:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 340.6468505859375 2 340.646359 679.278165 NaN NaN NaN NaN NaN NaN NaN 68.138 1 68.138 67.638 68.638 0 0 0 0 0.99035 1 32774 32774 0.69038 0.69038 1 + 7595 11990 4810 4827 8947 8947 -0.07430248591629152 GKGGGKGP 8 Unmodified _GKGGGKGP_ 0 0 0 REV__nc|ENSG00000163214|Q6P158-2|DHX57 REV__nc|ENSG00000163214|Q6P158-2|DHX57 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 329.1876525878906 2 329.187563 656.360573 2.3914 0.00078723 -1.4122 -0.00046489 0.97919 0.00032234 329.1868729227399 69.987 0.507 70.243 69.901 70.408 0.25642 69 32 3 0 0 0 0.7441 1 32095 32095 2.3027 1.6124 1 2465000 + 7596 10129 4811 4828 8948 8948 0.018647328031875077 GKGGGKGP 8 Unmodified _GKGGGKGP_ 0 0 0 REV__nc|ENSG00000163214|Q6P158-2|DHX57 REV__nc|ENSG00000163214|Q6P158-2|DHX57 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 329.18792724609375 2 329.187563 656.360573 1.939 0.00063829 -1.0007 -0.00032943 0.93824 0.00030886 329.1870164945071 69.573 0.42732 70.233 70.025 70.452 0.66071 79 31 3 0 0 0 0.7441 3 31846 31846;31895;31945 2.3027 1.6124 1 2808500 + 7597 10129 4811 4828 8949;8950;8951 8949 0.018647328031875077 GKGGGKIR 8 Unmodified _GKGGGKIR_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242174673-242189369:-|nuORF;ENST00000479169.5_1_2:242177863-242181895:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 386.744384765625 2 386.743037 771.471521 2.6396 0.0010209 -1.4515 -0.00056135 1.1881 0.0004595 386.7427708684692 71.065 0.073929 71.323 71.269 71.343 0.25786 10 6 2 0 0 0 0.7441 1 32554 32554 2.3027 0 1 449620 7598 1983 4812 4829 8952 8952 0.07664372511271722 GKGGGKIR 8 Unmodified _GKGGGKIR_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242174673-242189369:-|nuORF;ENST00000479169.5_1_2:242177863-242181895:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 386.7433776855469 2 386.743037 771.471521 NaN NaN NaN NaN NaN NaN NaN 77.151 1 77.406 76.906 77.906 0.25533 0 0 0 0.99035 1 35528 35528 2.3027 1.6124 1 7599 1983 4812 4829 8953 8953 0.07664372511271722 GKGGGKIR 8 Unmodified _GKGGGKIR_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242174673-242189369:-|nuORF;ENST00000479169.5_1_2:242177863-242181895:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 386.743037 771.471521 2.2809 0.00088212 -1.2647 -0.00048911 1.0162 0.00039301 386.74382100325835 70.77 0.13335 71.432 71.375 71.508 0.66209 0.054344 9.3714E-05 NaN 2.3027 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 210390 7600 1983 4812 4829 0.07664372511271722 GKGGLIDD 8 Unmodified _GKGGLIDD_ 0 0 0 ENST00000526766.1_1_11:112051504-112052349:+|nuORF;ENSG00000104756|ENST00000221200|KCTD9;ENST00000521458.5_1_8:25298091-25315747:-|nuORF ENST00000526766.1_1_11:112051504-112052349:+|nuORF ENST00000526766.1_1_11:112051504-112052349:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.70562744140625 2 387.703243 773.391933 NaN NaN NaN NaN NaN NaN NaN 64.243 1 64.491 63.991 64.991 0.24803 0 0 0 0.99035 1 29423 29423 2.3027 1.6124 1 7601 1448 4813 4830 8954 8954 -0.003827389533967107 GKGGLPAK 8 Unmodified _GKGGLPAK_ 0 0 0 ENSG00000214102|ENST00000397541|WEE2 ENSG00000214102|ENST00000397541|WEE2 ENSG00000214102|ENST00000397541|WEE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 364.2261047363281 2 364.226688 726.438824 NaN NaN NaN NaN NaN NaN NaN 75.532 1 75.532 75.032 76.032 0 0 0 0 0.99035 1 37011 37011 2.3027 0 1 7602 6109 4814 4831 8955 8955 0.06466165388417267 GKGGRGWG 8 Unmodified _GKGGRGWG_ 0 0 0 ENST00000494593.1_1_11:67351648-67351816:+|nuORF ENST00000494593.1_1_11:67351648-67351816:+|nuORF ENST00000494593.1_1_11:67351648-67351816:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.63836669921875 2 387.703912 773.39327 NaN NaN NaN NaN NaN NaN NaN 70.394 1 70.651 70.151 71.151 0.25642 0 0 0 0.99035 1 32238 32238 0.69038 0 1 7603 8424 4815 4832 8956 8956 -0.002490600739633919 GKGHCLMGT 9 Unmodified _GKGHCLMGT_ 0 0 0 ENST00000520448.5_1_8:24181385-24209525:+|nuORF;nc|ENSG00000042980|Q9UKQ2-2|ADAM28;ENSG00000042980|ENST00000265769|ADAM28 ENST00000520448.5_1_8:24181385-24209525:+|nuORF ENST00000520448.5_1_8:24181385-24209525:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 452.21099853515625 2 452.212398 902.410242 NaN NaN NaN NaN NaN NaN NaN 72.629 1 73.328 72.828 73.828 0.69881 0 0 0 0.84134 1 34984 34984 7.9102 1.187 1 7604 546 4816 4833 8957 8957 -0.04486643574671234 GKGIALRPRG 10 Unmodified _GKGIALRPRG_ 0 0 0 REV__ENST00000598755.1_1_19:52104581-52104959:+|nuORF REV__ENST00000598755.1_1_19:52104581-52104959:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.8668823242188 2 512.82235 1023.63015 NaN NaN NaN NaN NaN NaN NaN 62.679 1 63.401 62.901 63.901 0.72236 0 0 0 0.95729 1 29274 29274 12.241 2.1667 1 + 7605 12331 4817 4834 8958 8958 0.11927666419569505 GKGKGIKP 8 Unmodified _GKGKGIKP_ 0 0 0 REV__ENST00000239446.5_1_5:140571989-140572043:+|nuORF REV__ENST00000239446.5_1_5:140571989-140572043:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 392.77020263671875 2 392.755613 783.496673 NaN NaN NaN NaN NaN NaN NaN 59.681 1 60.43 59.93 60.93 0.74927 0 0 0 0.99035 1 27422 27422 2.3027 0 1 + 7606 14875 4818 4835 8959 8959 0.09626427313844488 GKGKNGIG 8 Unmodified _GKGKNGIG_ 0 0 0 ENSG00000169340|ENST00000302451|PDILT ENSG00000169340|ENST00000302451|PDILT ENSG00000169340|ENST00000302451|PDILT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 365.7146301269531 2 365.713945 729.413337 NaN NaN NaN NaN NaN NaN NaN 34.851 1 34.851 34.351 35.351 0 0 0 0 0.99035 1 15801 15801 2.3027 0 1 7607 4684 4819 4836 8960 8960 0.03780690866005898 GKGKRKRRKL 10 Unmodified _GKGKRKRRKL_ 0 0 0 REV__chr16:53765923-53810140|139|17.22|0.04|8.93|+|2|TE_info:L2a,L2a_dup145821,L2,LINE,donor,-,53765577,53765923|None,FTO|8 REV__chr16:53765923-53810140|139|17.22|0.04|8.93|+|2|TE_info:L2a,L2a_dup145821,L2,LINE,donor,-,53765577,53765923|None,FTO|8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.9196166992188 2 613.917647 1225.82074 NaN NaN NaN NaN NaN NaN NaN 82.654 1 82.654 82.154 83.154 0 0 0 0 0.99774 1 41455 41455 3.5965 1.9439 1 + 7608 10031 4820 4837 8961 8961 0.2168637280162784 GKGKTSTK 8 Unmodified _GKGKTSTK_ 0 0 0 REV__nc|ENSG00000150672|Q15700-4|DLG2 REV__nc|ENSG00000150672|Q15700-4|DLG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 403.74029541015625 2 403.74016 805.465767 NaN NaN NaN NaN NaN NaN NaN 80.533 1 80.533 80.033 81.033 0 0 0 0 0.99035 1 39994 39994 0.69038 0.088878 1 + 7609 17982 4821 4838 8962 8962 0.05525229208944893 GKGLAPIV 8 Unmodified _GKGLAPIV_ 0 0 0 ENST00000422124.1_1_1:17215066-17215138:-|nuORF ENST00000422124.1_1_1:17215066-17215138:-|nuORF ENST00000422124.1_1_1:17215066-17215138:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 377.7457275390625 2 377.744714 753.474875 NaN NaN NaN NaN NaN NaN NaN 79.721 1 79.721 79.221 80.221 0 0 0 0 0.99035 1 39425 39425 2.3027 0 1 7610 7764 4822 4839 8963 8963 0.0882762256528622 GKGLAPIV 8 Unmodified _GKGLAPIV_ 0 0 0 ENST00000422124.1_1_1:17215066-17215138:-|nuORF ENST00000422124.1_1_1:17215066-17215138:-|nuORF ENST00000422124.1_1_1:17215066-17215138:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 377.7470397949219 2 377.744714 753.474875 NaN NaN NaN NaN NaN NaN NaN 78.723 1 79.187 78.687 79.687 0.4642 0 0 0 0.99035 1 38311 38311 2.3027 0 1 7611 7764 4822 4839 8964 8964 0.0882762256528622 GKGLAPIV 8 Unmodified _GKGLAPIV_ 0 0 0 ENST00000422124.1_1_1:17215066-17215138:-|nuORF ENST00000422124.1_1_1:17215066-17215138:-|nuORF ENST00000422124.1_1_1:17215066-17215138:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 377.74627685546875 2 377.744714 753.474875 3.0848 0.0011652 1.3904 0.0005252 4.4751 0.0016905 377.7450359037578 88.914 0.51 89.165 89.006 89.516 0.25118 31 20 2 0 0 0 0.7441 2 40980 40924;40980 2.3027 0 1 762260 7612 7764 4822 4839 8965;8966 8966 0.0882762256528622 GKGLAPIV 8 Unmodified _GKGLAPIV_ 0 0 0 ENST00000422124.1_1_1:17215066-17215138:-|nuORF ENST00000422124.1_1_1:17215066-17215138:-|nuORF ENST00000422124.1_1_1:17215066-17215138:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 377.7469787597656 2 377.744714 753.474875 NaN NaN NaN NaN NaN NaN NaN 77.319 1 77.574 77.074 78.074 0.25533 0 0 0 0.99035 1 35608 35608 0.69038 0 1 7613 7764 4822 4839 8967 8967 0.0882762256528622 GKGLAPIV 8 Unmodified _GKGLAPIV_ 0 0 0 ENST00000422124.1_1_1:17215066-17215138:-|nuORF ENST00000422124.1_1_1:17215066-17215138:-|nuORF ENST00000422124.1_1_1:17215066-17215138:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.74725341796875 2 377.744714 753.474875 2.8649 0.0010822 2.2501 0.00084996 5.115 0.0019322 377.7452980928827 88.549 0.81942 89.227 88.723 89.542 0.67818 55 35 2 0 0 0 0.7471 2 40664 40664;40887 0.69038 0 1 461570 7614 7764 4822 4839 8968;8969 8968 0.0882762256528622 GKGLAVLILA 10 Unmodified _GKGLAVLILA_ 0 0 0 ENST00000528540.5_1_11:118215138-118220479:+|nuORF;ENST00000532903.1_1_11:118215138-118219992:+|nuORF;ENSG00000160654|ENST00000532917|CD3G ENST00000528540.5_1_11:118215138-118220479:+|nuORF ENST00000528540.5_1_11:118215138-118220479:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.82440185546875 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 54.372 1 54.372 53.872 54.872 0 0 0 0 1.0003 1 24940 24940 1.4819 0.79152 1 7615 4070 4823 4840 8970 8970 0.14868398242037983 GKGLAVLILA 10 Unmodified _GKGLAVLILA_ 0 0 0 ENST00000528540.5_1_11:118215138-118220479:+|nuORF;ENST00000532903.1_1_11:118215138-118219992:+|nuORF;ENSG00000160654|ENST00000532917|CD3G ENST00000528540.5_1_11:118215138-118220479:+|nuORF ENST00000528540.5_1_11:118215138-118220479:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 477.8239440917969 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 54.731 1 54.996 54.496 55.496 0.26543 0 0 0 1.0003 1 25017 25017 1.4819 0.68827 1 7616 4070 4823 4840 8971 8971 0.14868398242037983 GKGLAVLILA 10 Unmodified _GKGLAVLILA_ 0 0 0 ENST00000528540.5_1_11:118215138-118220479:+|nuORF;ENST00000532903.1_1_11:118215138-118219992:+|nuORF;ENSG00000160654|ENST00000532917|CD3G ENST00000528540.5_1_11:118215138-118220479:+|nuORF ENST00000528540.5_1_11:118215138-118220479:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.82537841796875 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 61.064 1 61.727 61.227 62.227 0.66261 0 0 0 1.0003 1 27961 27961 1.4819 0.68827 1 7617 4070 4823 4840 8972 8972 0.14868398242037983 GKGNKSLD 8 Unmodified _GKGNKSLD_ 0 0 0 nc|ENSG00000089057|Q9UGH3-2|SLC23A2;ENSG00000089057|ENST00000338244|SLC23A2 nc|ENSG00000089057|Q9UGH3-2|SLC23A2 nc|ENSG00000089057|Q9UGH3-2|SLC23A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.7225341796875 2 409.721967 817.429381 3.0516 0.0012503 -1.1554 -0.00047341 1.8961 0.00077689 409.7213831958266 69.634 0.26863 69.888 69.751 70.02 0.25443 22 15 2 0 0 0 0.71911 1 31894 31894 4.3292 2.0265 1 398910 7618 1029 4824 4841 8973 8973 0.01336352312227973 GKGNKSLD 8 Unmodified _GKGNKSLD_ 0 0 0 nc|ENSG00000089057|Q9UGH3-2|SLC23A2;ENSG00000089057|ENST00000338244|SLC23A2 nc|ENSG00000089057|Q9UGH3-2|SLC23A2 nc|ENSG00000089057|Q9UGH3-2|SLC23A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.72222900390625 2 409.721967 817.429381 2.6958 0.0011045 -1.3807 -0.00056571 1.3151 0.00053882 409.7213404427054 69.23 0.29034 69.891 69.734 70.025 0.66071 31 19 2 0 0 0 0.71911 1 31772 31772 4.3292 2.0265 1 585960 7619 1029 4824 4841 8974 8974 0.01336352312227973 GKGNPLPRR 9 Unmodified _GKGNPLPRR_ 0 0 0 REV__L1PA6_dup5640|chr19:20482443-20488575:+|1.1762487912993795|0.3545951168651645|1.73|529.0|151|3|sense REV__L1PA6_dup5640|chr19:20482443-20488575:+|1.1762487912993795|0.3545951168651645|1.73|529.0|151|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 332.2022399902344 3 332.201675 993.583196 NaN NaN NaN NaN NaN NaN NaN 46.453 1 46.718 46.218 47.218 0.26561 0 0 0 0.90431 1 21231 21231 2.4985 0.84587 1 + 7620 17799 4825 4842 8975 8975 0.0861480686842242 GKGPCLPG 8 Unmodified _GKGPCLPG_ 0 0 0 REV__ENST00000302424.11_1_10:104417711-104417816:+|nuORF REV__ENST00000302424.11_1_10:104417711-104417816:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 364.6932678222656 2 364.691624 727.368695 NaN NaN NaN NaN NaN NaN NaN 64.38 1 64.628 64.128 65.128 0.24803 0 0 0 0.99035 1 29487 29487 0.69038 0 1 + 7621 15198 4826 4843 8976 8976 -0.005894562716889595 GKGPGGAQ 8 Unmodified _GKGPGGAQ_ 0 0 0 ENST00000518895.1_1_8:621944-623322:-|nuORF ENST00000518895.1_1_8:621944-623322:-|nuORF ENST00000518895.1_1_8:621944-623322:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.1779479980469 2 336.177195 670.339838 2.3241 0.0007813 -0.0038724 -1.3018E-06 2.3202 0.00078 336.1772149591265 82.435 0.58183 82.682 82.434 83.016 0.24722 50 31 2 0 0 0 0.14282 1 37955 37955 2.3027 0 1 558520 7622 8613 4827 4844 8977 8977 -0.008518575764810521 GKGPRPRG 8 Unmodified _GKGPRPRG_ 0 0 0 REV__ENST00000372718.7_1_1:40839538-40839793:+|nuORF REV__ENST00000372718.7_1_1:40839538-40839793:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.7469787597656 2 412.746111 823.477669 2.8668 0.0011832 0.44746 0.00018469 3.3142 0.0013679 412.7462119167956 78.033 0.55912 78.695 78.368 78.927 0.66198 81 33 4 0 0 0 0.7441 1 35903 35903 2.3027 0 1 5418100 + 7623 15758 4828 4845 8978 8978 0.05886890742806372 GKGRKKIRKIL 11 Unmodified _GKGRKKIRKIL_ 0 0 0 nc|ENSG00000085224|P46100-2|ATRX;nc|ENSG00000085224|P46100-5|ATRX;nc|ENSG00000085224|P46100-3|ATRX;nc|ENSG00000085224|P46100-4|ATRX;ENSG00000085224|ENST00000373344|ATRX nc|ENSG00000085224|P46100-2|ATRX nc|ENSG00000085224|P46100-2|ATRX MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 648.953125 2 648.951156 1295.88776 NaN NaN NaN NaN NaN NaN NaN 90.141 1 90.392 89.892 90.892 0.25137 0 0 0 1.008 1 41452 41452 0.30703 0.30703 1 7624 965 4829 4846 8979 8979 0.25164983292756915 GKGRLFVK 8 Unmodified _GKGRLFVK_ 0 0 0 REV__ENST00000478002.5_1_1:155885750-155895538:-|nuORF REV__ENST00000478002.5_1_1:155885750-155895538:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 302.1962585449219 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 63.522 1 63.77 63.27 64.27 0.24803 0 0 0 0.99035 1 29092 29092 0.40072 0 1 + 7625 11906 4830 4847 8980 8980 0.10978091613571905 GKGRQIPPL 9 Unmodified _GKGRQIPPL_ 0 0 0 ENST00000577284.1_1_18:9856263-9859319:+|nuORF ENST00000577284.1_1_18:9856263-9859319:+|nuORF ENST00000577284.1_1_18:9856263-9859319:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.2978820800781 2 483.298176 964.581799 NaN NaN NaN NaN NaN NaN NaN 74.985 1 74.985 74.485 75.485 0 0 0 0 0.86044 1 36727 36727 7.2892 2.0586 1 7626 9128 4831 4848 8981 8981 0.09809172779660003 GKGRRRGSQ 9 Unmodified _GKGRRRGSQ_ 0 0 0 ENST00000463083.1_2_6:34214793-34215048:-|nuORF ENST00000463083.1_2_6:34214793-34215048:-|nuORF ENST00000463083.1_2_6:34214793-34215048:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.9957275390625 2 501.289205 1000.56386 2.4346 0.0012204 0.84631 0.00042424 3.2809 0.0016447 501.2892167344003 78.661 0.1052 79.125 79.096 79.201 0.4642 12 9 2 0 0 0 0.80651 1 38310 38310 7.2892 2.96 1 1513800 7627 8099 4832 4849 8982 8982 0.06359850577518955 GKGSGKTK 8 Unmodified _GKGSGKTK_ 0 0 0 REV__nc|ENSG00000187624|Q6ZQX7-2|LIAT1 REV__nc|ENSG00000187624|Q6ZQX7-2|LIAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.7273254394531 2 381.727052 761.439552 NaN NaN NaN NaN NaN NaN NaN 77.515 1 77.515 77.015 78.015 0 0 0 0 0.99035 1 38021 38021 0.69038 0 1 + 7628 14105 4833 4850 8983 8983 0.04928960037466368 GKGSGKTK 8 Unmodified _GKGSGKTK_ 0 0 0 REV__nc|ENSG00000187624|Q6ZQX7-2|LIAT1 REV__nc|ENSG00000187624|Q6ZQX7-2|LIAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.7275390625 2 381.727052 761.439552 NaN NaN NaN NaN NaN NaN NaN 87.216 1 87.466 86.966 87.966 0.24974 0 0 0 0.99035 1 40143 40143 0.69038 0 1 + 7629 14105 4833 4850 8984 8984 0.04928960037466368 GKGSSGWL 8 Unmodified _GKGSSGWL_ 0 0 0 MER21A_dup1924|chr21:42596367-42597211:-|1.1454877344273586|0.0472559580865997|4.6|530.0|19|3|sense MER21A_dup1924|chr21:42596367-42597211:-|1.1454877344273586|0.0472559580865997|4.6|530.0|19|3|sense MER21A_dup1924|chr21:42596367-42597211:-|1.1454877344273586|0.0472559580865997|4.6|530.0|19|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 396.2215881347656 2 396.205953 790.397353 NaN NaN NaN NaN NaN NaN NaN 53.697 1 54.501 54.001 55.001 0.80351 0 0 0 0.95658 1 24505 24505 8.5933 3.8373 1 7630 9514 4834 4851 8985 8985 -0.006230153708997932 GKGTKLSVI 9 Unmodified _GKGTKLSVI_ 0 0 0 chr14:22515688-22547506|366|15.3|0.0|20.55|+|2|TRAJ28,TRAC|1 chr14:22515688-22547506|366|15.3|0.0|20.55|+|2|TRAJ28,TRAC|1 chr14:22515688-22547506|366|15.3|0.0|20.55|+|2|TRAJ28,TRAC|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.7871398925781 2 451.78711 901.559667 NaN NaN NaN NaN NaN NaN NaN 67.882 1 68.584 68.084 69.084 0.70218 0 0 0 0.87786 1 32321 32321 6.7232 0.96273 1 7631 150 4835 4852 8986 8986 0.10494948311225016 GKGTRARP 8 Unmodified _GKGTRARP_ 0 0 0 nc|ENSG00000160117|Q8NAG6-1|ANKLE1;ENSG00000160117|ENST00000404085|ANKLE1;ENST00000404085.5_1_19:17392508-17397358:+|nuORF nc|ENSG00000160117|Q8NAG6-1|ANKLE1 nc|ENSG00000160117|Q8NAG6-1|ANKLE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.753173828125 2 421.751393 841.488233 3.1399 0.0013243 -0.010253 -4.3244E-06 3.1297 0.0013199 421.75137224322685 83.186 0.353 83.846 83.625 83.978 0.66019 32 19 2 0 0 0 0.7441 1 38339 38339 2.3027 1.5091 1 392010 7632 4042 4836 4853 8987 8987 0.06114873397223164 GKGVRRPG 8 Unmodified _GKGVRRPG_ 0 0 0 BAHCC1|p.E451V|1|0.75|ENSG00000266074|chr17:81442701-81442701|A/T|missense_variant BAHCC1|p.E451V|1|0.75|ENSG00000266074|chr17:81442701-81442701|A/T|missense_variant BAHCC1|p.E451V|1|0.75|ENSG00000266074|chr17:81442701-81442701|A/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.7554016113281 2 413.753936 825.493319 2.7259 0.0011279 -0.50385 -0.00020847 2.2221 0.00091939 413.7536117950939 80.069 0.90204 80.319 79.882 80.784 0.24947 97 57 2 0 0 0 0.7441 2 36896 36896;36956 2.3027 0 1 575860 7633 83 4837 4854 8988;8989 8988 0.07359177259854732 GKGVRRPG 8 Unmodified _GKGVRRPG_ 0 0 0 BAHCC1|p.E451V|1|0.75|ENSG00000266074|chr17:81442701-81442701|A/T|missense_variant BAHCC1|p.E451V|1|0.75|ENSG00000266074|chr17:81442701-81442701|A/T|missense_variant BAHCC1|p.E451V|1|0.75|ENSG00000266074|chr17:81442701-81442701|A/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 413.75482177734375 2 413.753936 825.493319 3.0248 0.0012515 -0.25338 -0.00010484 2.7715 0.0011467 413.75376611122846 79.676 1.0024 80.337 79.91 80.912 0.66082 109 64 2 0 0 0 0.71384 3 36716 36616;36716;36774 4.756 0 1 667940 7634 83 4837 4854 8990;8991;8992 8991 0.07359177259854732 GKHFVKQLRMW 11 Unmodified _GKHFVKQLRMW_ 0 0 0 ENSG00000196208|ENST00000381486|GREB1 ENSG00000196208|ENST00000381486|GREB1 ENSG00000196208|ENST00000381486|GREB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 715.3995361328125 2 715.397899 1428.78124 NaN NaN NaN NaN NaN NaN NaN 82.786 1 82.786 82.286 83.286 0 0 0 0 1.0059 1 41550 41550 2.9952 1.5133 1 7635 5725 4838 4855 8993 8993 0.0840048473587558 GKHIIFIAQ 9 Unmodified _GKHIIFIAQ_ 0 0 0 ENST00000415804.2_1_4:4508806-4509291:+|nuORF ENST00000415804.2_1_4:4508806-4509291:+|nuORF ENST00000415804.2_1_4:4508806-4509291:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.2099304199219 3 342.874677 1025.6022 2.6647 0.00091365 -0.58095 -0.00019919 2.0837 0.00071446 342.87465891851537 48.189 0.84837 48.451 47.967 48.816 0.2621 67 44 2 0 0 0 0.11383 1 21966 21966 1.1933 0.12188 1 809350 7636 7706 4839 4856 8994 8994 0.0904234343945518 GKIFRWRVNF 10 Unmodified _GKIFRWRVNF_ 0 0 0 ENSG00000162714|ENST00000682384|ZNF496;nc|ENSG00000162714|Q96IT1-2|ZNF496 ENSG00000162714|ENST00000682384|ZNF496 ENSG00000162714|ENST00000682384|ZNF496 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 661.8765869140625 2 661.877656 1321.74076 NaN NaN NaN NaN NaN NaN NaN 85.87 1 85.87 85.37 86.37 0 0 0 0 0.99774 1 43846 43846 3.5965 0.31518 1 7637 4160 4840 4857 8995 8995 0.09275886407795042 GKIPRFRVPN 10 Unmodified _GKIPRFRVPN_ 0 0 0 REV__ENSG00000110066|ENST00000304363|KMT5B REV__ENSG00000110066|ENST00000304363|KMT5B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.9367065429688 2 592.356557 1182.69856 NaN NaN NaN NaN NaN NaN NaN 81.683 1 81.683 81.183 82.183 0 0 0 0 0.9952 1 40719 40719 5.7319 0.43497 1 + 7638 11193 4841 4858 8996 8996 0.11451910999426218 GKIVFWLKKW 10 Unmodified _GKIVFWLKKW_ 0 0 0 REV__ENSG00000154783|ENST00000285046|FGD5 REV__ENSG00000154783|ENST00000285046|FGD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 652.897216796875 2 652.897526 1303.7805 NaN NaN NaN NaN NaN NaN NaN 70.796 1 71.5 71 72 0.70386 0 0 0 0.99812 1 33955 33955 3.2813 0 1 + 7639 12723 4842 4859 8997 8997 0.1407601335849904 GKIWKVRLP 9 Unmodified _GKIWKVRLP_ 0 0 0 REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|11|1|sense REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|11|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.2396240234375 3 366.237838 1095.69168 2.7292 0.00099952 1.0547 0.00038628 3.7839 0.0013858 366.23816678966796 40.59 0.47054 40.59 40.434 40.904 0 54 27 3 0 0 0 0.96953 2 18396 18396;18452 4.5289 3.047 1 5193500 + 7640 18223 4843 4860 8998;8999 8998 0.14766598118831098 GKIWKVRLP 9 Unmodified _GKIWKVRLP_ 0 0 0 REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|11|1|sense REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|11|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.5734558105469 3 366.237838 1095.69168 2.6537 0.00097188 0.99323 0.00036376 3.6469 0.0013356 366.2382054202639 43.768 0.24502 43.768 43.593 43.838 0 30 19 2 0 0 0 1.0894 1 19983 19983 2.4985 2.4985 1 2649000 + 7641 18223 4843 4860 9000 9000 0.14766598118831098 GKIWKVRLP 9 Unmodified _GKIWKVRLP_ 0 0 0 REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|11|1|sense REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|11|1|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.5491638183594 3 366.237838 1095.69168 2.7292 0.00099952 1.0547 0.00038628 3.7839 0.0013858 366.23816678966796 40.59 0.47054 40.59 40.434 40.904 0 54 27 3 0 0 0 0.11115 1 18499 18499 4.5289 3.1993 1 5193500 + 7642 18223 4843 4860 9001 9001 0.14766598118831098 GKIWKVRLP 9 Unmodified _GKIWKVRLP_ 0 0 0 REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|11|1|sense REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|11|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.23919677734375 3 366.237838 1095.69168 2.3728 0.00086903 0.90345 0.00033088 3.2763 0.0011999 366.2382618491036 40.081 0.19596 40.881 40.754 40.95 0.80014 18 14 2 0 0 0 0.96953 1 18124 18124 4.5289 3.047 1 2025900 + 7643 18223 4843 4860 9002 9002 0.14766598118831098 GKIWKVRLP 9 Unmodified _GKIWKVRLP_ 0 0 0 REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|11|1|sense REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|11|1|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.54913330078125 3 366.237838 1095.69168 2.3728 0.00086903 0.90345 0.00033088 3.2763 0.0011999 366.2382618491036 40.081 0.19596 40.881 40.754 40.95 0.80014 18 14 2 0 0 0 0.11316 1 18097 18097 2.2828 2.2828 1 2025900 + 7644 18223 4843 4860 9003 9003 0.14766598118831098 GKIWKVRLP 9 Unmodified _GKIWKVRLP_ 0 0 0 REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|11|1|sense REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|11|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.5736083984375 3 366.237838 1095.69168 2.7703 0.0010146 1.1659 0.000427 3.9363 0.0014416 366.2381490108304 40.094 0.59635 40.361 40.135 40.731 0.26696 51 22 3 0 0 0 0.96953 3 18201 18201;18258;18313 4.5289 3.047 1 3307800 + 7645 18223 4843 4860 9004;9005;9006 9004 0.14766598118831098 GKIWKVRLP 9 Unmodified _GKIWKVRLP_ 0 0 0 REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|11|1|sense REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|11|1|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.5736083984375 3 366.237838 1095.69168 2.7703 0.0010146 1.1659 0.000427 3.9363 0.0014416 366.2381490108304 40.094 0.59635 40.361 40.135 40.731 0.26696 51 22 3 0 0 0 0.11115 1 18201 18201 4.5289 2.0304 1 3307800 + 7646 18223 4843 4860 9007 9007 0.14766598118831098 GKIWKVRLP 9 Unmodified _GKIWKVRLP_ 0 0 0 REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|11|1|sense REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|11|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.2392883300781 3 366.237838 1095.69168 2.7554 0.0010091 1.1895 0.00043563 3.9449 0.0014448 366.23818480212515 39.584 0.51506 40.222 40.029 40.544 0.63778 55 24 3 0 0 0 0.96953 3 18059 18059;18112;18177 4.5289 3.047 1 3965300 + 7647 18223 4843 4860 9008;9009;9010 9008 0.14766598118831098 GKIWKVRLP 9 Unmodified _GKIWKVRLP_ 0 0 0 REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|11|1|sense REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|11|1|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 366.237838 1095.69168 2.7554 0.0010091 1.1895 0.00043563 3.9449 0.0014448 366.23818480212515 39.584 0.51506 40.222 40.029 40.544 0.63778 -0.29154 8.4832E-05 NaN 4.5289 55 24 3 NaN NaN NaN NaN 0 NaN NaN 0 3965300 + 7648 18223 4843 4860 0.14766598118831098 GKKALKKRLLR 11 Unmodified _GKKALKKRLLR_ 0 0 0 REV__ENST00000477693.1_1_2:122488402-122494426:-|nuORF REV__ENST00000477693.1_1_2:122488402-122494426:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 655.9611206054688 2 655.958981 1309.90341 NaN NaN NaN NaN NaN NaN NaN 64.342 1 64.342 63.842 64.842 0 0 0 0 1.0073 1 30460 30460 1.1933 0 1 + 7649 12739 4844 4861 9011 9011 0.26085269809777856 GKKARTKA 8 Unmodified _GKKARTKA_ 0 0 0 ENSG00000010292|ENST00000315579|NCAPD2 ENSG00000010292|ENST00000315579|NCAPD2 ENSG00000010292|ENST00000315579|NCAPD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 430.2783508300781 2 430.277244 858.539935 NaN NaN NaN NaN NaN NaN NaN 43.666 1 43.666 43.166 44.166 0 0 0 0 0.99035 1 19913 19913 2.5775 0.27475 1 7650 397 4845 4862 9012 9012 0.10500617091122422 GKKIASLH 8 Unmodified _GKKIASLH_ 0 0 0 nc|ENSG00000112053|Q96RN1-4|SLC26A8;nc|ENSG00000112053|Q96RN1-2|SLC26A8;ENSG00000112053|ENST00000490799|SLC26A8;ENST00000486155.1_1_6:35928714-35992326:-|nuORF nc|ENSG00000112053|Q96RN1-4|SLC26A8 nc|ENSG00000112053|Q96RN1-4|SLC26A8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 427.2655944824219 2 427.266345 852.518136 NaN NaN NaN NaN NaN NaN NaN 76.227 1 76.484 75.984 76.984 0.25704 0 0 0 0.99035 1 35094 35094 4.756 1.8668 1 7651 1790 4846 4863 9013 9013 0.08597812342566158 GKKKKKKKKTE 11 Unmodified _GKKKKKKKKTE_ 0 0 0 REV__ENSG00000204967|ENST00000530339|PCDHA4;REV__ENSG00000243232|ENST00000289269|PCDHAC2 REV__ENSG00000204967|ENST00000530339|PCDHA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 665.9510498046875 2 665.948279 1329.882 NaN NaN NaN NaN NaN NaN NaN 60.146 1 60.896 60.396 61.396 0.74927 0 0 0 1.0072 1 27687 27687 1.3295 0.87119 1 + 7652 14447;14628 4847 4864 9014 9014 0.2302583999039598 GKKKKKKKVR 10 Unmodified _GKKKKKKKVR_ 0 0 0 ENST00000444188.1_1_6:169613405-169614351:+|nuORF ENST00000444188.1_1_6:169613405-169614351:+|nuORF ENST00000444188.1_1_6:169613405-169614351:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 614.4426879882812 2 614.440424 1226.86629 NaN NaN NaN NaN NaN NaN NaN 87.988 1 88.028 87.528 88.528 0.039955 0 0 0 1.0001 1 44705 44705 1.6526 1.6526 1 7653 7957 4848 4865 9015 9015 0.2619359826398977 GKKKKKKSLK 10 Unmodified _GKKKKKKSLK_ 0 0 0 REV__ENSG00000136045|ENST00000412830|PWP1 REV__ENSG00000136045|ENST00000412830|PWP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.5817260742188 2 586.913707 1171.81286 NaN NaN NaN NaN NaN NaN NaN 75.439 1 75.696 75.196 76.196 0.25704 0 0 0 1.0001 1 34713 34713 1.6526 0 1 + 7654 12057 4849 4866 9016 9016 0.23382800761487488 GKKKKKRVKRK 11 Unmodified _GKKKKKRVKRK_ 0 0 0 REV__nc|ENSG00000137941|Q6ZT98-2|TTLL7 REV__nc|ENSG00000137941|Q6ZT98-2|TTLL7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 692.4901733398438 2 692.490979 1382.96741 NaN NaN NaN NaN NaN NaN NaN 69.693 1 69.693 69.193 70.193 0 0 0 0 1.0061 1 33695 33695 2.7352 2.4282 1 + 7655 12136 4850 4867 9017 9017 0.291240499667083 GKKKKKRVKRK 11 Unmodified _GKKKKKRVKRK_ 0 0 0 REV__nc|ENSG00000137941|Q6ZT98-2|TTLL7 REV__nc|ENSG00000137941|Q6ZT98-2|TTLL7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 692.49365234375 2 692.490979 1382.96741 NaN NaN NaN NaN NaN NaN NaN 62.086 1 62.817 62.317 63.317 0.73077 0 0 0 1.0072 1 28887 28887 1.3295 0.92882 1 + 7656 12136 4850 4867 9018 9018 0.291240499667083 GKKKLYLKKKK 11 Unmodified _GKKKLYLKKKK_ 0 0 0 ENST00000237530.10_1_20:35869751-35869895:+|nuORF ENST00000237530.10_1_20:35869751-35869895:+|nuORF ENST00000237530.10_1_20:35869751-35869895:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 681.5139770507812 2 681.471389 1360.92823 NaN NaN NaN NaN NaN NaN NaN 45.169 1 45.169 44.669 45.669 0 0 0 0 1.008 1 20658 20658 0.30703 0.30703 1 7657 6463 4851 4868 9019 9019 0.2621990489246855 GKKKRKKKRL 10 Unmodified _GKKKRKKKRL_ 0 0 0 nc|ENSG00000170703|Q8N841-3|TTLL6;ENSG00000170703|ENST00000393382|TTLL6 nc|ENSG00000170703|Q8N841-3|TTLL6 nc|ENSG00000170703|Q8N841-3|TTLL6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.9946899414062 2 635.451323 1268.88809 NaN NaN NaN NaN NaN NaN NaN 97.724 1 97.724 97.224 98.224 0 0 0 0 1.0015 1 53289 53289 0.40072 0.40072 1 7658 4766 4852 4869 9020 9020 0.2644040301258883 GKKKRQKKRK 10 Unmodified _GKKKRQKKRK_ 0 0 0 nc|ENSG00000107562|P48061-3|CXCL12 nc|ENSG00000107562|P48061-3|CXCL12 nc|ENSG00000107562|P48061-3|CXCL12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 642.9367065429688 2 642.93858 1283.86261 NaN NaN NaN NaN NaN NaN NaN 88.343 1 88.395 87.895 88.895 0.052155 0 0 0 1.0001 1 44969 44969 1.6526 0.45928 1 7659 9588 4853 4870 9021 9021 0.23202928490150043 GKKLLKRLVKV 11 Unmodified _GKKLLKRLVKV_ 0 0 0 REV__ENSG00000115239|ENST00000263634|ASB3 REV__ENSG00000115239|ENST00000263634|ASB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.8615112304688 2 641.458282 1280.90201 NaN NaN NaN NaN NaN NaN NaN 88.05 1 88.09 87.59 88.59 0.039955 0 0 0 1.0072 1 44755 44755 1.3295 1.3295 1 + 7660 11348 4854 4871 9022 9022 0.272796357209927 GKKMLPRQ 8 Unmodified _GKKMLPRQ_ 0 0 0 ENST00000523883.5_1_8:23399285-23400705:+|nuORF ENST00000523883.5_1_8:23399285-23400705:+|nuORF ENST00000523883.5_1_8:23399285-23400705:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 319.8600158691406 3 319.860262 956.558955 2.0173 0.00064525 -1.2603 -0.00040313 0.75695 0.00024212 319.85955743111884 47.973 0.53089 47.973 47.758 48.289 0 41 24 3 0 0 0 0.66653 1 21961 21961 6.2058 2.6093 1 2796200 7661 8659 4855 4872 9023 9023 0.0789383039053746 GKKMLPRQ 8 Unmodified _GKKMLPRQ_ 0 0 0 ENST00000523883.5_1_8:23399285-23400705:+|nuORF ENST00000523883.5_1_8:23399285-23400705:+|nuORF ENST00000523883.5_1_8:23399285-23400705:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 319.8601379394531 3 319.860262 956.558955 2.108 0.00067428 -1.3498 -0.00043176 0.7582 0.00024252 319.85962369497634 46.999 0.31017 47.651 47.589 47.899 0.65219 45 24 2 0 0 0 0.70799 1 21528 21528 3.5965 1.9439 1 3595000 7662 8659 4855 4872 9024 9024 0.0789383039053746 GKKMLPRQ 8 Unmodified _GKKMLPRQ_ 0 0 0 ENST00000523883.5_1_8:23399285-23400705:+|nuORF ENST00000523883.5_1_8:23399285-23400705:+|nuORF ENST00000523883.5_1_8:23399285-23400705:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 319.860262 956.558955 2.1822 0.00069799 -1.8459 -0.00059042 0.3363 0.00010757 319.85955889369893 47.446 0.76241 48.275 47.93 48.692 0.82915 0.067516 -0.00030559 NaN 6.2058 95 42 4 NaN NaN NaN NaN 0 NaN NaN 0 1603100 7663 8659 4855 4872 0.0789383039053746 GKKMLPRQ 8 Unmodified _GKKMLPRQ_ 0 0 0 ENST00000523883.5_1_8:23399285-23400705:+|nuORF ENST00000523883.5_1_8:23399285-23400705:+|nuORF ENST00000523883.5_1_8:23399285-23400705:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 319.860262 956.558955 2.1957 0.00070231 -1.2825 -0.00041021 0.9132 0.0002921 319.85977541096815 47.721 0.83878 48.374 48.172 49.011 0.65356 0.16676 0.00023505 NaN 6.2058 92 34 4 NaN NaN NaN NaN 0 NaN NaN 0 2923500 7664 8659 4855 4872 0.0789383039053746 GKKQIKKKKK 10 Unmodified _GKKQIKKKKK_ 0 0 0 REV__ENST00000587928.5_1_19:10781281-10792148:+|nuORF REV__ENST00000587928.5_1_19:10781281-10792148:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 607.425048828125 2 607.426982 1212.83941 NaN NaN NaN NaN NaN NaN NaN 81.667 1 81.751 81.251 82.251 0.084106 0 0 0 1.0015 1 40189 40189 0.40072 0 1 + 7665 17555 4856 4873 9025 9025 0.24150489652811302 GKKQREKERER 11 Unmodified _GKKQREKERER_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 722.41015625 2 722.41058 1442.80661 NaN NaN NaN NaN NaN NaN NaN 97.348 1 97.638 97.138 98.138 0.28923 0 0 0 1.0059 1 44714 44714 2.9952 0 1 + 7666 14485 4857 4874 9026 9026 0.10291630792016804 GKKRKRKRLK 10 Unmodified _GKKRKRKRLK_ 0 0 0 nc|ENSG00000197461|P04085|PDGFA nc|ENSG00000197461|P04085|PDGFA nc|ENSG00000197461|P04085|PDGFA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 649.3211669921875 2 649.454397 1296.89424 NaN NaN NaN NaN NaN NaN NaN 56.862 1 56.862 56.362 57.362 0 0 0 0 1.0015 1 26187 26187 0.40072 0.40072 1 7667 9806 4858 4875 9027 9027 0.2576692124409874 GKKRKRKRLK 10 Unmodified _GKKRKRKRLK_ 0 0 0 nc|ENSG00000197461|P04085|PDGFA nc|ENSG00000197461|P04085|PDGFA nc|ENSG00000197461|P04085|PDGFA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 649.268798828125 2 649.454397 1296.89424 NaN NaN NaN NaN NaN NaN NaN 96.002 1 96.079 95.579 96.579 0.076538 0 0 0 1.0015 1 50903 50903 0.40072 0.40072 1 7668 9806 4858 4875 9028 9028 0.2576692124409874 GKKRRKWFPRR 11 Unmodified _GKKRRKWFPRR_ 0 0 0 REV__nc|ENSG00000116698|Q92540-4|SMG7 REV__nc|ENSG00000116698|Q92540-4|SMG7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 757.9707641601562 2 757.968203 1513.92185 NaN NaN NaN NaN NaN NaN NaN 90.325 1 90.325 89.825 90.825 0 0 0 0 1.0073 1 47437 47437 1.1933 0.88631 1 + 7669 17906 4859 4876 9029 9029 0.18544824504306234 GKKRRWRKK 9 Unmodified _GKKRRWRKK_ 0 0 0 nc|ENSG00000290320|P0DW85|H2BN1 nc|ENSG00000290320|P0DW85|H2BN1 nc|ENSG00000290320|P0DW85|H2BN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 621.9039306640625 2 621.90454 1241.79453 NaN NaN NaN NaN NaN NaN NaN 83.37 1 83.37 82.87 83.87 0 0 0 0 0.90611 1 41979 41979 2.0598 0.21551 1 7670 9879 4860 4877 9030 9030 0.18330103630137273 GKKSFGKIA 9 Unmodified _GKKSFGKIA_ 0 0 0 REV__nc|ENSG00000179397|Q5SY80-3|CATSPERE REV__nc|ENSG00000179397|Q5SY80-3|CATSPERE MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 312.5279235839844 3 312.527277 934.560001 1.8276 0.00057118 0.28163 8.8019E-05 2.1093 0.0006592 312.5273278906707 13.516 0.28382 13.824 13.668 13.952 0.30727 66 22 4 0 0 0 0.21008 2 6110 6071;6110 16.566 0.82726 1 3844400 + 7671 13796 4861 4878 9031;9032 9032 0.09010368031090366 GKKSFGKIA 9 Unmodified _GKKSFGKIA_ 0 0 0 REV__nc|ENSG00000179397|Q5SY80-3|CATSPERE REV__nc|ENSG00000179397|Q5SY80-3|CATSPERE MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 312.527277 934.560001 1.8276 0.00057118 0.28163 8.8019E-05 2.1093 0.0006592 312.5273278906707 13.516 0.28382 13.824 13.668 13.952 0.30727 0.0078534 -0.00013386 NaN 16.566 66 22 4 NaN NaN NaN NaN 0 NaN NaN 0 3844400 + 7672 13796 4861 4878 0.09010368031090366 GKKSKLIRLIS 11 Unmodified _GKKSKLIRLIS_ 0 0 0 REV__ENST00000458227.1_1_2:25191966-25192092:-|nuORF REV__ENST00000458227.1_1_2:25191966-25192092:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.8212890625 2 621.916447 1241.81834 NaN NaN NaN NaN NaN NaN NaN 87.204 1 87.244 86.744 87.744 0.039955 0 0 0 1.0061 1 44086 44086 2.7352 1.0826 1 + 7673 16467 4862 4879 9033 9033 0.20710479553326877 GKKVRFGI 8 Unmodified _GKKVRFGI_ 0 0 0 ENSG00000112992|ENST00000344920|NNT ENSG00000112992|ENST00000344920|NNT ENSG00000112992|ENST00000344920|NNT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 302.1968688964844 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 18.845 1 18.845 18.345 19.345 0 0 0 0 0.99035 1 8377 8377 3.9444 2.1002 1 7674 1829 4863 4880 9034 9034 0.10978091613560537 GKKWWWGILLK 11 Unmodified _GKKWWWGILLK_ 0 0 0 REV__ENST00000336798.11_2_1:31345724-31346039:-|nuORF REV__ENST00000336798.11_2_1:31345724-31346039:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 707.9237670898438 2 707.921532 1413.82851 4.5077 0.0031911 -0.08578 -6.0726E-05 4.422 0.0031304 707.9211412970639 95.097 0.68578 95.365 94.922 95.608 0.2675 60 41 3 0 0 0 0.91345 1 43573 43573 1.3295 1.3295 1 712340 + 7675 15423 4864 4881 9035 9035 0.13815087278544524 GKLIMFVVSKL 11 Unmodified _GKLIMFVVSKL_ 0 0 0 REV__ENST00000445273.6_1_13:31711130-31711382:-|nuORF REV__ENST00000445273.6_1_13:31711130-31711382:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 618.3392333984375 2 617.883227 1233.7519 NaN NaN NaN NaN NaN NaN NaN 84.544 1 84.544 84.044 85.044 0 0 0 0 1.0059 1 42824 42824 2.9952 0.26005 1 + 7676 16376 4865 4882 9036 9036 0.14437527667064387 GKLKHRKK 8 Unmodified _GKLKHRKK_ 0 0 0 nc|ENSG00000166432|Q5H9K5|ZMAT1;ENSG00000166432|ENST00000651725|ZMAT1;nc|ENSG00000166432|Q5H9K5-2|ZMAT1 nc|ENSG00000166432|Q5H9K5|ZMAT1 nc|ENSG00000166432|Q5H9K5|ZMAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.83642578125 2 497.83526 993.655967 NaN NaN NaN NaN NaN NaN NaN 83.178 1 83.838 83.338 84.338 0.66019 0 0 0 0.99035 1 38313 38313 0.69038 0.69038 1 7677 4482 4866 4883 9037 9037 0.15888560661835527 GKLKMRGEKF 10 Unmodified _GKLKMRGEKF_ 0 0 0 REV__ENST00000248564.5_1_7:93555597-93555714:+|nuORF REV__ENST00000248564.5_1_7:93555597-93555714:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.3461303710938 2 597.3448 1192.67505 NaN NaN NaN NaN NaN NaN NaN 89.525 1 89.777 89.277 90.277 0.25137 0 0 0 1.0001 1 41175 41175 1.6526 0.17072 1 + 7678 14903 4867 4884 9038 9038 0.08641729170585677 GKLLLLQEILD 11 Unmodified _GKLLLLQEILD_ 0 0 0 ENSG00000118997|ENST00000312428|DNAH7 ENSG00000118997|ENST00000312428|DNAH7 ENSG00000118997|ENST00000312428|DNAH7 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 627.5221557617188 2 627.887021 1253.75949 4.0117 0.0025189 -2.2207 -0.0013943 1.791 0.0011246 627.8853020479776 96.837 0.45332 97.439 97.267 97.72 0.60191 40 20 4 0 0 0 0.13295 1 44646 44646 1.0715 1.0715 1 2089300 7679 2130 4868 4885 9039 9039 0.1427595846830627 GKLLLLRYLLF 11 Unmodified _GKLLLLRYLLF_ 0 0 0 REV__ENSG00000143315|ENST00000368090|PIGM REV__ENSG00000143315|ENST00000368090|PIGM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 674.9418334960938 2 674.939391 1347.86423 NaN NaN NaN NaN NaN NaN NaN 75.435 1 76.098 75.598 76.598 0.6635 0 0 0 1.0072 1 36524 36524 1.3295 0.13619 1 + 7680 12360 4869 4886 9040 9040 0.204211247355488 GKLLLTLPLL 10 Unmodified _GKLLLTLPLL_ 0 0 0 nc|ENSG00000119715|O95718|ESRRB;ENSG00000119715|ENST00000644823|ESRRB;nc|ENSG00000119715|O95718-2|ESRRB;nc|ENSG00000119715|O95718-1|ESRRB nc|ENSG00000119715|O95718|ESRRB nc|ENSG00000119715|O95718|ESRRB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.2691040039062 2 540.873185 1079.73182 NaN NaN NaN NaN NaN NaN NaN 87.094 1 87.094 86.594 87.594 0 0 0 0 1.0003 1 44811 44811 1.4819 0.15237 1 7681 2162 4870 4887 9041 9041 0.19514099998764323 GKLLMLSPEV 10 Unmodified _GKLLMLSPEV_ 0 0 0 REV__nc|ENSG00000139144|O75747-2|PIK3C2G REV__nc|ENSG00000139144|O75747-2|PIK3C2G MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.8162841796875 2 543.81501 1085.61547 NaN NaN NaN NaN NaN NaN NaN 78.827 1 79.291 78.791 79.791 0.4642 0 0 0 0.99464 1 38379 38379 6.2058 1.3088 1 + 7682 12202 4871 4888 9042 9042 0.07608413436537376 GKLRFRWRQLV 11 Unmodified _GKLRFRWRQLV_ 0 0 0 ENST00000546536.5_1_14:105957646-105963882:+|nuORF;nc|ENSG00000185347|Q86SX3-5|TEDC1;nc|ENSG00000185347|Q86SX3-3|TEDC1;nc|ENSG00000185347|Q86SX3-2|TEDC1;nc|ENSG00000185347|Q86SX3-6|TEDC1;ENSG00000185347|ENST00000392523|TEDC1 ENST00000546536.5_1_14:105957646-105963882:+|nuORF ENST00000546536.5_1_14:105957646-105963882:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 729.9423828125 2 729.943862 1457.87317 NaN NaN NaN NaN NaN NaN NaN 63.968 1 63.968 63.468 64.468 0 0 0 0 1.0072 1 30191 30191 1.3295 0.13619 1 7683 5504 4872 4889 9043 9043 0.16254911144596917 GKLRYQLYHWL 11 Unmodified _GKLRYQLYHWL_ 0 0 0 nc|ENSG00000172869|Q9Y485|DMXL1;ENSG00000172869|ENST00000539542|DMXL1 nc|ENSG00000172869|Q9Y485|DMXL1 nc|ENSG00000172869|Q9Y485|DMXL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 493.1503601074219 3 492.941861 1475.80375 NaN NaN NaN NaN NaN NaN NaN 73.379 1 73.379 72.879 73.879 0 0 0 0 1.0073 1 35760 35760 0.40827 0 1 7684 4900 4873 4890 9044 9044 0.08488407405184262 GKLSKLSL 8 Unmodified _GKLSKLSL_ 0 0 0 nc|ENSG00000116138|Q9Y2G8-2|DNAJC16;ENSG00000116138|ENST00000375847|DNAJC16;ENST00000475133.5_1_1:15892828-15894669:+|nuORF;ENST00000479480.5_1_1:41450594-41453082:+|nuORF nc|ENSG00000116138|Q9Y2G8-2|DNAJC16 nc|ENSG00000116138|Q9Y2G8-2|DNAJC16 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 423.2776794433594 2 423.276378 844.538203 NaN NaN NaN NaN NaN NaN NaN 35.211 1 36.002 35.502 36.502 0.79131 0 0 0 0.84594 1 15956 15956 15.847 1.0089 1 7685 2015 4874 4891 9045 9045 0.10971563282521402 GKLSVWYHKWK 11 Unmodified _GKLSVWYHKWK_ 0 0 0 REV__ENST00000469412.5_1_21:32585686-32624433:-|nuORF REV__ENST00000469412.5_1_21:32585686-32624433:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 716.3414306640625 2 716.398422 1430.78229 NaN NaN NaN NaN NaN NaN NaN 77.319 1 77.319 76.819 77.819 0 0 0 0 1.0044 1 37913 37913 4.897 0.36815 1 + 7686 12770 4875 4892 9046 9046 0.0841302237643049 GKLTEPLWWV 10 Unmodified _GKLTEPLWWV_ 0 0 0 REV__L1MA4_dup8801|chr15:84897523-84898213:-|4.909709430609491|0.2819414872085645|4.12|528.0|14|2|sense REV__L1MA4_dup8801|chr15:84897523-84898213:-|4.909709430609491|0.2819414872085645|4.12|528.0|14|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 614.8397216796875 2 614.839874 1227.66519 NaN NaN NaN NaN NaN NaN NaN 16.792 1 16.992 16.492 17.492 0.20057 0 0 0 1.0003 1 7424 7424 1.4819 0.15237 1 + 7687 17758 4876 4893 9047 9047 0.06046864436848409 GKLWTTTCS 9 Unmodified _GKLWTTTCS_ 0 0 0 ENST00000378192.2_1_9:35724919-35725570:-|nuORF ENST00000378192.2_1_9:35724919-35725570:-|nuORF ENST00000378192.2_1_9:35724919-35725570:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.7468566894531 2 498.744585 995.474617 3.6615 0.0018262 -0.13699 -6.8324E-05 3.5245 0.0017578 498.74390891393796 90.962 0.40112 91.214 91.022 91.423 0.25163 55 22 3 0 0 0 1.129 1 41778 41778 1.8442 0 1 1355900 7688 7429 4877 4894 9048 9048 -0.02330165216903879 GKNFRKMARRL 11 Unmodified _GKNFRKMARRL_ 0 0 0 REV__ENSG00000154767|ENST00000285021|XPC REV__ENSG00000154767|ENST00000285021|XPC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 688.9082641601562 2 688.906422 1375.79829 NaN NaN NaN NaN NaN NaN NaN 76.08 1 76.704 76.204 77.204 0.62397 0 0 0 1.0059 1 36856 36856 2.9952 0 1 + 7689 12721 4878 4895 9049 9049 0.12542405341696394 GKNIVKKQWH 10 Unmodified _GKNIVKKQWH_ 0 0 0 REV__nc|ENSG00000117009|O15229-3|KMO REV__nc|ENSG00000117009|O15229-3|KMO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.3636474609375 2 619.361839 1236.70913 3.6354 0.0022517 -0.9017 -0.00055848 2.7338 0.0016932 619.3611055261636 31.545 0.25343 32.162 32.021 32.274 0.61737 48 19 3 0 0 0 0.55057 1 14432 14432 19.257 7.7623 1 1303900 + 7690 11429 4879 4896 9050 9050 0.10023893653851701 GKNVEPTLIEI 11 Unmodified _GKNVEPTLIEI_ 0 0 0 REV__ENSG00000165630|ENST00000378572|PRPF18 REV__ENSG00000165630|ENST00000378572|PRPF18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.843994140625 2 606.845353 1211.67615 NaN NaN NaN NaN NaN NaN NaN 88.993 1 89.046 88.546 89.546 0.052155 0 0 0 0.91016 1 45496 45496 15.248 8.5253 1 + 7691 13171 4880 4897 9051 9051 0.07878222020508474 GKNVILKTI 9 Unmodified _GKNVILKTI_ 0 0 0 ENST00000550917.1_1_12:32879649-32880297:-|nuORF ENST00000550917.1_1_12:32879649-32880297:-|nuORF ENST00000550917.1_1_12:32879649-32880297:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.32623291015625 2 493.32386 984.633166 3.2419 0.0015993 0.89851 0.00044326 4.1405 0.0020426 493.32437118599006 33.446 0.31195 33.7 33.506 33.818 0.25389 35 14 3 0 0 0 0.02234 1 15202 15202 65.235 3.8776 1 1521800 7692 8874 4881 4898 9052 9052 0.1402349675371397 GKPFTIISC 9 Unmodified _GKPFTIISC_ 0 0 0 ENSG00000124818|ENST00000371211|OPN5 ENSG00000124818|ENST00000371211|OPN5 ENSG00000124818|ENST00000371211|OPN5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.5101013183594 3 322.509006 964.505189 2.1297 0.00068685 0.42663 0.00013759 2.5563 0.00082444 322.5091444280471 16.883 1.1655 17.188 16.336 17.501 0.30438 207 119 2 0 0 0 1.129 1 7339 7339 0.96228 0 1 167140 7693 2383 4882 4899 9053 9053 0.021516131681664774 GKPKGREPP 9 Unmodified _GKPKGREPP_ 0 0 0 REV__ENST00000405659.5_2_22:30765540-30766382:+|nuORF REV__ENST00000405659.5_2_22:30765540-30766382:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.5234375 3 322.522414 964.545414 2.136 0.00068892 -0.13725 -4.4265E-05 1.9988 0.00064465 322.5223694851372 17.256 0.47268 17.56 17.206 17.679 0.30438 56 35 2 0 0 0 1.129 1 7769 7769 0.96228 0 1 83168 + 7694 16064 4883 4900 9054 9054 0.061722958829250274 GKPNTRQQLRR 11 Unmodified _GKPNTRQQLRR_ 0 0 0 REV__ENST00000485073.5_1_1:6713895-6761860:-|nuORF REV__ENST00000485073.5_1_1:6713895-6761860:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.399169921875 2 677.394733 1352.77491 4.5055 0.003052 0.97297 0.00065908 5.4784 0.0037111 677.3952872764893 95.336 1.0246 95.603 95.107 96.131 0.2675 193 60 4 0 0 0 0.91359 1 43779 43779 1.1933 0.92432 1 3364300 + 7695 10201 4884 4901 9055 9055 0.11263682828712263 GKPQNPRV 8 Unmodified _GKPQNPRV_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;nc|ENSG00000155657|Q8WZ42-5|TTN;nc|ENSG00000155657|Q8WZ42-9|TTN;nc|ENSG00000155657|Q8WZ42-10|TTN;nc|ENSG00000155657|Q8WZ42-3|TTN ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 448.2603759765625 2 448.259051 894.503549 2.8418 0.0012739 0.27991 0.00012547 3.1217 0.0013993 448.2590767657083 84.159 0.41122 84.407 84.193 84.604 0.24757 56 22 4 0 0 0 0.7441 1 38737 38737 2.3027 0.4585 1 2930300 7696 3871 4885 4902 9056 9056 0.05207740194418875 GKPQNPRV 8 Unmodified _GKPQNPRV_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;nc|ENSG00000155657|Q8WZ42-5|TTN;nc|ENSG00000155657|Q8WZ42-9|TTN;nc|ENSG00000155657|Q8WZ42-10|TTN;nc|ENSG00000155657|Q8WZ42-3|TTN ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.2603759765625 2 448.259051 894.503549 3.2451 0.0014546 -0.27116 -0.00012155 2.9739 0.0013331 448.25879506902527 83.847 0.42058 84.509 84.254 84.675 0.66219 56 26 3 0 0 0 0.7441 1 38610 38610 2.3027 0.4585 1 2753500 7697 3871 4885 4902 9057 9057 0.05207740194418875 GKPREKRETWR 11 Unmodified _GKPREKRETWR_ 0 0 0 HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|165|3|anti-sense HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|165|3|anti-sense HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|165|3|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 721.7831420898438 2 721.902391 1441.79023 NaN NaN NaN NaN NaN NaN NaN 84.289 1 84.318 83.818 84.818 0.028603 0 0 0 1.0041 1 42016 42016 5.2969 0.39987 1 7698 9401 4886 4903 9058 9058 0.08700549625928033 GKPRKSKN 8 Unmodified _GKPRKSKN_ 0 0 0 REV__nc|ENSG00000163806|Q5MJ70-1|SPDYA REV__nc|ENSG00000163806|Q5MJ70-1|SPDYA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.7814025878906 2 457.780151 913.545748 NaN NaN NaN NaN NaN NaN NaN 85.629 1 85.877 85.377 86.377 0.24857 0 0 0 0.99035 1 39403 39403 4.3292 1.7518 1 + 7699 13028 4887 4904 9059 9059 0.08551715602800414 GKPRKSKN 8 Unmodified _GKPRKSKN_ 0 0 0 REV__nc|ENSG00000163806|Q5MJ70-1|SPDYA REV__nc|ENSG00000163806|Q5MJ70-1|SPDYA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.78173828125 2 457.780151 913.545748 3.0812 0.0014105 -0.2236 -0.00010236 2.8576 0.0013082 457.7803135309366 85.44 0.9507 86.106 85.575 86.526 0.66566 55 45 2 0 0 0 0.71911 2 39237 39237;39283 4.3292 0.38484 1 614960 + 7700 13028 4887 4904 9060;9061 9060 0.08551715602800414 GKPRSRRSRR 10 Unmodified _GKPRSRRSRR_ 0 0 0 ENST00000299952.4_1_16:71660520-71674304:+|nuORF;ENST00000268485.7_1_16:71660520-71668122:+|nuORF ENST00000299952.4_1_16:71660520-71674304:+|nuORF ENST00000299952.4_1_16:71660520-71674304:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 628.3832397460938 2 628.38196 1254.74937 4.5516 0.0028602 0.37982 0.00023867 4.9314 0.0030988 628.3821504291313 103.94 0.20714 104.26 104.21 104.42 0.31863 60 40 2 0 0 0 0.94246 1 48038 48038 0.40072 0.050084 1 927880 7701 6634 4888 4905 9062 9062 0.13218253096965782 GKPTPLPSGR 10 Unmodified _GKPTPLPSGR_ 0 0 0 REV__nc|ENSG00000174672|Q8IWQ3-6|BRSK2 REV__nc|ENSG00000174672|Q8IWQ3-6|BRSK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.1997985839844 3 337.197819 1008.57163 NaN NaN NaN NaN NaN NaN NaN 25.175 1 25.443 24.943 25.943 0.26777 0 0 0 1.0006 1 11423 11423 0.50596 0.17668 1 + 7702 13640 4889 4906 9063 9063 0.06768565054414921 GKPYILTV 8 Unmodified _GKPYILTV_ 0 0 0 nc|ENSG00000244731|P0C0L4-2|C4A;ENSG00000244731|ENST00000428956|C4A;ENSG00000224389|ENST00000435363|C4B nc|ENSG00000244731|P0C0L4-2|C4A nc|ENSG00000244731|P0C0L4-2|C4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 445.7728576660156 2 445.770929 889.527304 2.5022 0.0011154 2.143 0.00095531 4.6452 0.0020707 445.771726014281 101.87 0.063324 101.87 101.84 101.9 0 4 2 2 0 0 0 0.7441 1 56284 56284 2.3027 0 1 2901500 7703 6164 4890 4907 9064 9064 0.0781216090823591 GKQKKIFGWLH 11 Unmodified _GKQKKIFGWLH_ 0 0 0 REV__nc|ENSG00000170836|O15297-2|PPM1D REV__nc|ENSG00000170836|O15297-2|PPM1D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 671.3945922851562 2 671.393139 1340.77173 NaN NaN NaN NaN NaN NaN NaN 40.713 1 40.713 40.213 41.213 0 0 0 0 1.0059 1 18484 18484 2.9952 1.3426 1 + 7704 13456 4891 4908 9065 9065 0.11497039722030422 GKQLRRDKELL 11 Unmodified _GKQLRRDKELL_ 0 0 0 REV__ENST00000370396.6_1_X:149828940-149831939:+|nuORF REV__ENST00000370396.6_1_X:149828940-149831939:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 678.5458374023438 2 678.409518 1354.80448 NaN NaN NaN NaN NaN NaN NaN 86.056 1 86.056 85.556 86.556 0 0 0 0 1.0061 1 44001 44001 2.7352 1.2533 1 + 7705 15724 4892 4909 9066 9066 0.14127202054237387 GKRCIKKGPKR 11 Unmodified _GKRCIKKGPKR_ 0 0 0 REV__nc|ENSG00000169760|Q8N2Q7|NLGN1 REV__nc|ENSG00000169760|Q8N2Q7|NLGN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 424.26739501953125 3 424.267803 1269.78158 NaN NaN NaN NaN NaN NaN NaN 76.072 1 76.736 76.236 77.236 0.66387 0 0 0 1.0059 1 35046 35046 1.2148 0 1 + 7706 13401 4893 4910 9067 9067 0.1574790445574763 GKRCILLPGIL 11 Unmodified _GKRCILLPGIL_ 0 0 0 REV__CON__Q28107 REV__CON__Q28107 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.6483764648438 2 591.873194 1181.73183 NaN NaN NaN NaN NaN NaN NaN 86.748 1 86.778 86.278 87.278 0.030289 0 0 0 0.98464 1 43732 43732 8.1555 2.8586 1 + + 7707 10088 4894 4911 9068 9068 0.14823776727098448 GKRGRRKRPRR 11 Unmodified _GKRGRRKRPRR_ 0 0 0 REV__ENST00000600059.5_1_19:48988799-49002658:-|nuORF REV__ENST00000600059.5_1_19:48988799-49002658:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 711.9599609375 2 711.958701 1421.90285 NaN NaN NaN NaN NaN NaN NaN 89.071 1 89.123 88.623 89.623 0.052155 0 0 0 1.0072 1 45556 45556 1.3295 0.9789 1 + 7708 17631 4895 4912 9069 9069 0.20877287933262778 GKRIKRKVV 9 Unmodified _GKRIKRKVV_ 0 0 0 ENST00000427240.1_1_1:40011515-40014603:-|nuORF ENST00000427240.1_1_1:40011515-40014603:-|nuORF ENST00000427240.1_1_1:40011515-40014603:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.377197265625 2 542.377292 1082.74003 NaN NaN NaN NaN NaN NaN NaN 84.661 1 84.909 84.409 85.409 0.24757 0 0 0 0.90611 1 38965 38965 2.0598 1.4583 1 7709 7816 4896 4913 9070 9070 0.20197091758723218 GKRKAKVL 8 Unmodified _GKRKAKVL_ 0 0 0 REV__ENSG00000121058|ENST00000240316|COIL REV__ENSG00000121058|ENST00000240316|COIL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.099853515625 2 450.311087 898.60762 NaN NaN NaN NaN NaN NaN NaN 63.549 1 64.271 63.771 64.771 0.72236 0 0 0 0.99035 1 29779 29779 4.756 0 1 + 7710 11549 4897 4914 9071 9071 0.15426067021928702 GKRKDWIRLL 10 Unmodified _GKRKDWIRLL_ 0 0 0 DDX3X|p.G307Wfs*42|1|0.62|ENSG00000215301|chrX:41344290-41344291|-/T|frameshift_variant DDX3X|p.G307Wfs*42|1|0.62|ENSG00000215301|chrX:41344290-41344291|-/T|frameshift_variant DDX3X|p.G307Wfs*42|1|0.62|ENSG00000215301|chrX:41344290-41344291|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 428.935302734375 3 428.934818 1283.78262 NaN NaN NaN NaN NaN NaN NaN 14.068 1 14.375 13.875 14.875 0.3069 0 0 0 0.22117 1 6362 6362 43.982 4.5691 1 7711 260 4898 4915 9072 9072 0.15208442096309227 GKRKKKKKLP 10 Unmodified _GKRKKKKKLP_ 0 0 0 REV__ENST00000515726.1_1_4:124318844-124319012:+|nuORF REV__ENST00000515726.1_1_4:124318844-124319012:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 605.9304809570312 2 605.927149 1209.83975 NaN NaN NaN NaN NaN NaN NaN 60.642 1 61.381 60.881 61.881 0.7396 0 0 0 1.0003 1 28017 28017 1.4819 1.0236 1 + 7712 17022 4899 4916 9073 9073 0.24321909372702066 GKRKRFKFWRK 11 Unmodified _GKRKRFKFWRK_ 0 0 0 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.9873657226562 3 512.984395 1535.93135 3.6032 0.0018484 0.64499 0.00033087 4.2482 0.0021793 512.9847308224433 106.12 0.17599 106.72 106.6 106.78 0.59969 18 5 4 0 0 0 0.91391 2 48991 48975;48991 0.45452 0.45452 1 3447400 + 7713 18017 4900 4917 9074;9075 9075 0.18482592789860064 GKRKRKKKKRP 11 Unmodified _GKRKRKKKKRP_ 0 0 0 ENSG00000055483|ENST00000449938|USP36 ENSG00000055483|ENST00000449938|USP36 ENSG00000055483|ENST00000449938|USP36 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 705.4891357421875 2 705.486228 1408.9579 NaN NaN NaN NaN NaN NaN NaN 75.1 1 75.763 75.263 76.263 0.6635 0 0 0 1.0079 1 36351 36351 1.3295 0 1 7714 615 4901 4918 9076 9076 0.26978281681181215 GKRKRREL 8 Unmodified _GKRKRREL_ 0 0 0 ENSG00000176714|ENST00000324364|CCDC121;nc|ENSG00000176714|Q6ZUS5-2|CCDC121 ENSG00000176714|ENST00000324364|CCDC121 ENSG00000176714|ENST00000324364|CCDC121 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.8347778320312 2 521.833249 1041.65194 NaN NaN NaN NaN NaN NaN NaN 78.462 1 78.462 77.962 78.962 0 0 0 0 0.95658 1 38564 38564 8.5933 1.304 1 7715 5085 4902 4919 9077 9077 0.13278471168109718 GKRKRRQILLL 11 Unmodified _GKRKRRQILLL_ 0 0 0 ENST00000378962.3_1_X:30578303-30578414:-|nuORF ENST00000378962.3_1_X:30578303-30578414:-|nuORF ENST00000378962.3_1_X:30578303-30578414:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 690.9736328125 2 690.967337 1379.92012 NaN NaN NaN NaN NaN NaN NaN 74.972 1 75.636 75.136 76.136 0.6635 0 0 0 1.008 1 36275 36275 0.30703 0 1 7716 7442 4903 4920 9078 9078 0.24535770695752035 GKRKRRRKL 9 Unmodified _GKRKRRRKL_ 0 0 0 ENST00000471229.6_1_X:100878151-100878811:+|nuORF;ENST00000491568.6_1_X:100878151-100878310:+|nuORF;ENST00000341189.8_1_X:100878151-100879155:+|nuORF ENST00000471229.6_1_X:100878151-100878811:+|nuORF ENST00000471229.6_1_X:100878151-100878811:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 599.4107055664062 2 599.409989 1196.80543 NaN NaN NaN NaN NaN NaN NaN 79.875 1 80.195 79.695 80.695 0.31998 0 0 0 0.91238 1 39029 39029 0.52476 0 1 7717 7072 4904 4921 9079 9079 0.21489506004445502 GKRKRRRKLSR 11 Unmodified _GKRKRRRKLSR_ 0 0 0 ENST00000471229.6_1_X:100878151-100878811:+|nuORF;ENST00000491568.6_1_X:100878151-100878310:+|nuORF;ENST00000341189.8_1_X:100878151-100879155:+|nuORF ENST00000471229.6_1_X:100878151-100878811:+|nuORF ENST00000471229.6_1_X:100878151-100878811:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 720.975341796875 2 720.976559 1439.93856 NaN NaN NaN NaN NaN NaN NaN 74.189 1 74.875 74.375 75.375 0.68662 0 0 0 1.0072 1 35851 35851 1.3295 1.3295 1 7718 7072 4905 4922 9080 9080 0.23619325390291124 GKRKYSRF 8 Unmodified _GKRKYSRF_ 0 0 0 REV__ENST00000547411.1_1_12:29302213-29449968:+|nuORF REV__ENST00000547411.1_1_12:29302213-29449968:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.5433349609375 2 521.30125 1040.58795 3.3971 0.0017709 -1.4087 -0.00073435 1.9884 0.0010365 521.3005963674508 34.973 0.20534 35.763 35.67 35.876 0.78922 19 12 2 0 0 0 0.14111 1 15892 15892 5.7604 3.4577 1 180880 + 7719 17256 4906 4923 9081 9081 0.0692769101117392 GKRLKQRRFRR 11 Unmodified _GKRLKQRRFRR_ 0 0 0 nc|nan|Q5SNV9-3|C1orf167 nc|nan|Q5SNV9-3|C1orf167 nc|nan|Q5SNV9-3|C1orf167 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.332763671875 3 500.986798 1499.93856 NaN NaN NaN NaN NaN NaN NaN 60.93 1 60.93 60.43 61.43 0 0 0 0 1.0073 1 28378 28378 1.2148 0.76031 1 7720 9892 4907 4924 9082 9082 0.20859325390256345 GKRRGKYVVT 10 Unmodified _GKRRGKYVVT_ 0 0 0 REV__ENSG00000168038|ENST00000301831|ULK4 REV__ENSG00000168038|ENST00000301831|ULK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.526611328125 2 582.354014 1162.69348 NaN NaN NaN NaN NaN NaN NaN 11.79 1 12.069 11.569 12.569 0.2792 0 0 0 1.0012 1 5094 5094 0.40072 0 1 + 7721 13325 4908 4925 9083 9083 0.1186360713677459 GKRRKLRLGLP 11 Unmodified _GKRRKLRLGLP_ 0 0 0 nc|ENSG00000267493|Q8TBR5|CIRBP-AS1 nc|ENSG00000267493|Q8TBR5|CIRBP-AS1 nc|ENSG00000267493|Q8TBR5|CIRBP-AS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 647.413818359375 2 647.43313 1292.85171 NaN NaN NaN NaN NaN NaN NaN 83.824 1 83.852 83.352 84.352 0.028603 0 0 0 1.0072 1 41684 41684 1.3295 0 1 7722 9862 4909 4926 9084 9084 0.2169952611586723 GKRRRQLLKQL 11 Unmodified _GKRRRQLLKQL_ 0 0 0 REV__ENST00000503078.5_1_5:176938794-176943460:-|nuORF REV__ENST00000503078.5_1_5:176938794-176943460:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 698.4525756835938 2 698.454594 1394.89463 NaN NaN NaN NaN NaN NaN NaN 86.784 1 86.784 86.284 87.284 0 0 0 0 1.0072 1 44575 44575 1.3295 0.9789 1 + 7723 13925 4910 4927 9085 9085 0.2129829617329051 GKRRRRRRKR 10 Unmodified _GKRRRRRRKR_ 0 0 0 REV__nc|ENSG00000135272|Q9P1T7-1|MDFIC REV__nc|ENSG00000135272|Q9P1T7-1|MDFIC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 713.5313110351562 2 712.972142 1423.92973 3.229 0.0023022 -1.3031 -0.00092905 1.926 0.0013732 712.9689679825976 86.917 0.028793 86.917 86.897 86.925 0 4 2 2 0 0 0 0.93628 1 44673 44673 1.6526 0 1 8787700 + 7724 17948 4911 4928 9086 9086 0.23472396544457297 GKRRRRRRKR 10 Unmodified _GKRRRRRRKR_ 0 0 0 REV__nc|ENSG00000135272|Q9P1T7-1|MDFIC REV__nc|ENSG00000135272|Q9P1T7-1|MDFIC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 712.7203369140625 2 712.972142 1423.92973 NaN NaN NaN NaN NaN NaN NaN 86.301 1 86.331 85.831 86.831 0.030289 0 0 0 1.0015 1 43386 43386 0.40072 0 1 + 7725 17948 4911 4928 9087 9087 0.23472396544457297 GKRRRRRRRSR 11 Unmodified _GKRRRRRRRSR_ 0 0 0 ENST00000370010.6_1_6:76311739-76312006:+|nuORF ENST00000370010.6_1_6:76311739-76312006:+|nuORF ENST00000370010.6_1_6:76311739-76312006:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.5608520507812 3 513.996579 1538.96791 NaN NaN NaN NaN NaN NaN NaN 74.197 1 74.197 73.697 74.697 0 0 0 0 1.008 1 36223 36223 0.08335 0 1 7726 7296 4912 4929 9088 9088 0.21998282459139773 GKRTLHRRGP 10 Unmodified _GKRTLHRRGP_ 0 0 0 REV__ENST00000533050.5_2_11:126081479-126104922:+|nuORF REV__ENST00000533050.5_2_11:126081479-126104922:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.35498046875 2 589.35488 1176.69521 NaN NaN NaN NaN NaN NaN NaN 84.498 1 84.527 84.027 85.027 0.028603 0 0 0 0.97102 1 42164 42164 10.074 0 1 + 7727 17155 4913 4930 9089 9089 0.11392660945398347 GKRVIVVFH 9 Unmodified _GKRVIVVFH_ 0 0 0 nc|ENSG00000164045|P30304-2|CDC25A;ENSG00000164045|ENST00000302506|CDC25A nc|ENSG00000164045|P30304-2|CDC25A nc|ENSG00000164045|P30304-2|CDC25A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.2316589355469 3 352.222188 1053.64473 NaN NaN NaN NaN NaN NaN NaN 71.99 1 72.654 72.154 73.154 0.66324 0 0 0 0.90965 1 32997 32997 1.1933 0.23107 1 7728 4276 4914 4931 9090 9090 0.12005738567700064 GKRVRLHLKKK 11 Unmodified _GKRVRLHLKKK_ 0 0 0 AluSx3_dup9866|chr5:139548844-139549146:-|1.519075499608694|0.1210908915224006|3.65|519.0|9|2|sense AluSx3_dup9866|chr5:139548844-139549146:-|1.519075499608694|0.1210908915224006|3.65|519.0|9|2|sense AluSx3_dup9866|chr5:139548844-139549146:-|1.519075499608694|0.1210908915224006|3.65|519.0|9|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 681.7989501953125 2 681.962055 1361.90956 NaN NaN NaN NaN NaN NaN NaN 78.444 1 78.444 77.944 78.944 0 0 0 0 1.0073 1 38553 38553 1.1933 0 1 7729 47 4915 4932 9091 9091 0.243077880412784 GKRVRLHLKKK 11 Unmodified _GKRVRLHLKKK_ 0 0 0 AluSx3_dup9866|chr5:139548844-139549146:-|1.519075499608694|0.1210908915224006|3.65|519.0|9|2|sense AluSx3_dup9866|chr5:139548844-139549146:-|1.519075499608694|0.1210908915224006|3.65|519.0|9|2|sense AluSx3_dup9866|chr5:139548844-139549146:-|1.519075499608694|0.1210908915224006|3.65|519.0|9|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 681.9625244140625 2 681.962055 1361.90956 NaN NaN NaN NaN NaN NaN NaN 76.258 1 76.922 76.422 77.422 0.66387 0 0 0 1.0072 1 35130 35130 1.3295 1.3295 1 7730 47 4915 4932 9092 9092 0.243077880412784 GKSKRKKDL 9 Unmodified _GKSKRKKDL_ 0 0 0 MAP2K3|p.H188Tfs*4|1|0.25|ENSG00000034152|chr17:21303227-21303227|C/-|frameshift_variant;ENSG00000034152|ENST00000342679|MAP2K3;nc|ENSG00000034152|P46734-3|MAP2K3 MAP2K3|p.H188Tfs*4|1|0.25|ENSG00000034152|chr17:21303227-21303227|C/-|frameshift_variant MAP2K3|p.H188Tfs*4|1|0.25|ENSG00000034152|chr17:21303227-21303227|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.2955932617188 2 530.33529 1058.65603 NaN NaN NaN NaN NaN NaN NaN 84.264 1 84.293 83.793 84.793 0.028603 0 0 0 0.86044 1 41997 41997 7.2892 0.56607 1 7731 506 4916 4933 9093 9093 0.12904515871173317 GKSMLIIHQ 9 Unmodified _GKSMLIIHQ_ 0 0 0 ENSG00000256087|ENST00000221315|ZNF432 ENSG00000256087|ENST00000221315|ZNF432 ENSG00000256087|ENST00000221315|ZNF432 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 343.1990051269531 3 342.863672 1025.56919 2.4449 0.00083826 -0.34445 -0.0001181 2.1004 0.00072016 342.8630545873714 39.936 0.60871 39.936 39.616 40.225 0 62 26 4 0 0 0 1.1022 1 18106 18106 2.2828 2.2828 1 3012400 7732 6287 4917 4934 9094 9094 0.05742393325112971 GKSMLIIHQ 9 Unmodified _GKSMLIIHQ_ 0 0 0 ENSG00000256087|ENST00000221315|ZNF432 ENSG00000256087|ENST00000221315|ZNF432 ENSG00000256087|ENST00000221315|ZNF432 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.1988830566406 3 342.863672 1025.56919 2.512 0.00086128 -0.40497 -0.00013885 2.107 0.00072243 342.8629086245594 39.734 0.87918 40.001 39.32 40.199 0.26696 70 32 4 0 0 0 1.1022 1 18043 18043 2.2828 0.43854 1 2953800 7733 6287 4917 4934 9095 9095 0.05742393325112971 GKSMLIIHQ 9 Unmodified _GKSMLIIHQ_ 0 0 0 ENSG00000256087|ENST00000221315|ZNF432 ENSG00000256087|ENST00000221315|ZNF432 ENSG00000256087|ENST00000221315|ZNF432 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.19970703125 3 342.863672 1025.56919 2.477 0.00084927 0.21509 7.3745E-05 2.6921 0.00092302 342.86299463804204 39.344 0.75461 39.981 39.434 40.188 0.63778 53 28 3 0 0 0 1.1022 1 17948 17948 2.2828 0.43854 1 2452900 7734 6287 4917 4934 9096 9096 0.05742393325112971 GKSPPHHSGF 10 Unmodified _GKSPPHHSGF_ 0 0 0 nc|ENSG00000116698|Q92540-2|SMG7;nc|ENSG00000116698|Q92540|SMG7;nc|ENSG00000116698|Q92540-5|SMG7;nc|ENSG00000116698|Q92540-4|SMG7;ENSG00000116698|ENST00000688051|SMG7 nc|ENSG00000116698|Q92540-2|SMG7 nc|ENSG00000116698|Q92540-2|SMG7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.8438415527344 3 350.842036 1049.50428 NaN NaN NaN NaN NaN NaN NaN 12.865 1 12.865 12.365 13.365 0 0 0 0 0.99733 1 5614 5614 1.9064 0 1 7735 2043 4918 4935 9097 9097 -0.018494651565333697 GKSTRRKLFE 10 Unmodified _GKSTRRKLFE_ 0 0 0 ENST00000584746.5_1_17:55944697-55948725:-|nuORF;nc|ENSG00000180891|Q9NWM3-2|CUEDC1;ENSG00000180891|ENST00000577830|CUEDC1 ENST00000584746.5_1_17:55944697-55948725:-|nuORF ENST00000584746.5_1_17:55944697-55948725:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.90679931640625 3 407.906928 1220.69895 NaN NaN NaN NaN NaN NaN NaN 100.25 1 100.56 100.06 101.06 0.30835 0 0 0 1.0001 1 46368 46368 0.69767 0 1 7736 5268 4919 4936 9098 9098 0.09743285928561818 GKSVTVREKAS 11 Unmodified _GKSVTVREKAS_ 0 0 0 REV__ENSG00000188324|ENST00000358433|OR6C6 REV__ENSG00000188324|ENST00000358433|OR6C6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.5765380859375 2 581.332944 1160.65134 NaN NaN NaN NaN NaN NaN NaN 85.696 1 85.696 85.196 86.196 0 0 0 0 0.96369 1 43709 43709 10.151 2.8613 1 + 7737 14144 4920 4937 9099 9099 0.07743586937749569 GKTAHHAHGDP 11 Unmodified _GKTAHHAHGDP_ 0 0 0 ENST00000361488.7_1_8:59058710-59058815:+|nuORF ENST00000361488.7_1_8:59058710-59058815:+|nuORF ENST00000361488.7_1_8:59058710-59058815:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.9210815429688 2 564.270678 1126.5268 NaN NaN NaN NaN NaN NaN NaN 91.725 1 91.808 91.308 92.308 0.082848 0 0 0 1.0044 1 47616 47616 4.897 0.56777 1 7738 7225 4921 4938 9100 9100 -0.03139865758907945 GKTVRGRP 8 Unmodified _GKTVRGRP_ 0 0 0 ENST00000468758.1_1_2:134877558-135010718:+|nuORF ENST00000468758.1_1_2:134877558-135010718:+|nuORF ENST00000468758.1_1_2:134877558-135010718:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 435.7679443359375 2 435.767043 869.519533 2.8086 0.0012239 0.1321 5.7566E-05 2.9407 0.0012814 435.7669815464213 83.045 0.86427 83.292 82.734 83.598 0.24722 60 43 2 0 0 0 0.74709 1 38191 38191 2.0598 0 1 491800 7739 8158 4922 4939 9101 9101 0.07955446431333257 GKVKERRERIV 11 Unmodified _GKVKERRERIV_ 0 0 0 nc|ENSG00000162931|Q9Y577-2|TRIM17;ENSG00000162931|ENST00000366698|TRIM17 nc|ENSG00000162931|Q9Y577-2|TRIM17 nc|ENSG00000162931|Q9Y577-2|TRIM17 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.4229125976562 2 685.422959 1368.83137 NaN NaN NaN NaN NaN NaN NaN 97.136 1 97.413 96.913 97.913 0.27778 0 0 0 1.0072 1 44617 44617 1.3295 0 1 7740 4180 4923 4940 9102 9102 0.16170310665393117 GKVRSLLP 8 Unmodified _GKVRSLLP_ 0 0 0 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2;nc|ENSG00000054179|Q9Y5L3-2|ENTPD2;ENSG00000054179|ENST00000355097|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 435.28302001953125 2 435.281995 868.549437 NaN NaN NaN NaN NaN NaN NaN 52.726 1 53.53 53.03 54.03 0.80351 0 0 0 0.99035 1 24025 24025 4.3292 1.7518 1 7741 603 4924 4941 9103 9103 0.10990385376669565 GKVRSLLP 8 Unmodified _GKVRSLLP_ 0 0 0 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2;nc|ENSG00000054179|Q9Y5L3-2|ENTPD2;ENSG00000054179|ENST00000355097|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 435.28204345703125 2 435.281995 868.549437 NaN NaN NaN NaN NaN NaN NaN 58.791 1 59.054 58.554 59.554 0.26227 0 0 0 0.967 1 26926 26926 7.9102 5.0209 1 7742 603 4924 4941 9104 9104 0.10990385376669565 GKVRSLLP 8 Unmodified _GKVRSLLP_ 0 0 0 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2;nc|ENSG00000054179|Q9Y5L3-2|ENTPD2;ENSG00000054179|ENST00000355097|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 435.2833557128906 2 435.281995 868.549437 NaN NaN NaN NaN NaN NaN NaN 61.094 1 61.347 60.847 61.847 0.25245 0 0 0 0.99035 1 27978 27978 4.3292 1.44 1 7743 603 4924 4941 9105 9105 0.10990385376669565 GKVRSLLP 8 Unmodified _GKVRSLLP_ 0 0 0 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2;nc|ENSG00000054179|Q9Y5L3-2|ENTPD2;ENSG00000054179|ENST00000355097|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.2486267089844 2 435.281995 868.549437 NaN NaN NaN NaN NaN NaN NaN 55.229 1 55.897 55.397 56.397 0.66798 0 0 0 0.99035 1 25271 25271 4.3292 1.44 1 7744 603 4924 4941 9106 9106 0.10990385376669565 GKVRSLLP 8 Unmodified _GKVRSLLP_ 0 0 0 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2;nc|ENSG00000054179|Q9Y5L3-2|ENTPD2;ENSG00000054179|ENST00000355097|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.28125 2 435.281995 868.549437 NaN NaN NaN NaN NaN NaN NaN 55.733 1 56.401 55.901 56.901 0.66798 0 0 0 0.99035 1 25496 25496 4.3292 1.44 1 7745 603 4924 4941 9107 9107 0.10990385376669565 GKVRSLLP 8 Unmodified _GKVRSLLP_ 0 0 0 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2;nc|ENSG00000054179|Q9Y5L3-2|ENTPD2;ENSG00000054179|ENST00000355097|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.2824401855469 2 435.281995 868.549437 NaN NaN NaN NaN NaN NaN NaN 59.48 1 60.146 59.646 60.646 0.66503 0 0 0 0.967 1 27229 27229 7.9102 2.6795 1 7746 603 4924 4941 9108 9108 0.10990385376669565 GKVRSLLP 8 Unmodified _GKVRSLLP_ 0 0 0 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2;nc|ENSG00000054179|Q9Y5L3-2|ENTPD2;ENSG00000054179|ENST00000355097|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.2817077636719 2 435.281995 868.549437 NaN NaN NaN NaN NaN NaN NaN 59.753 1 60.418 59.918 60.918 0.66503 0 0 0 0.967 1 27352 27352 7.9102 1.5561 1 7747 603 4924 4941 9109 9109 0.10990385376669565 GKVRSLLP 8 Unmodified _GKVRSLLP_ 0 0 0 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2;nc|ENSG00000054179|Q9Y5L3-2|ENTPD2;ENSG00000054179|ENST00000355097|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.2818298339844 2 435.281995 868.549437 NaN NaN NaN NaN NaN NaN NaN 66.664 1 67.321 66.821 67.821 0.65672 0 0 0 0.99035 1 30561 30561 4.3292 1.7518 1 7748 603 4924 4941 9110 9110 0.10990385376669565 GKVRSLLP 8 Unmodified _GKVRSLLP_ 0 0 0 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2;nc|ENSG00000054179|Q9Y5L3-2|ENTPD2;ENSG00000054179|ENST00000355097|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.2850036621094 2 435.281995 868.549437 NaN NaN NaN NaN NaN NaN NaN 69.24 1 69.9 69.4 70.4 0.66071 0 0 0 0.99035 1 31739 31739 4.3292 1.7518 1 7749 603 4924 4941 9111 9111 0.10990385376669565 GKVRSLLP 8 Unmodified _GKVRSLLP_ 0 0 0 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2;nc|ENSG00000054179|Q9Y5L3-2|ENTPD2;ENSG00000054179|ENST00000355097|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 nc|ENSG00000054179|Q9Y5L3-3|ENTPD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.2841796875 2 435.281995 868.549437 NaN NaN NaN NaN NaN NaN NaN 69.446 1 70.107 69.607 70.607 0.66071 0 0 0 0.99035 1 31836 31836 4.3292 1.7518 1 7750 603 4924 4941 9112 9112 0.10990385376669565 GKVRWLLG 8 Unmodified _GKVRWLLG_ 0 0 0 ENST00000533188.1_1_1:201457913-201476204:-|nuORF;ENST00000532313.5_1_1:201457913-201465398:-|nuORF ENST00000533188.1_1_1:201457913-201476204:-|nuORF ENST00000533188.1_1_1:201457913-201476204:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 310.1969299316406 3 310.19575 927.565421 2.3342 0.00072407 0.49769 0.00015438 2.8319 0.00087845 310.1961742734525 25.789 0.76112 26.057 25.549 26.31 0.26777 250 74 5 0 0 0 0.7471 1 11696 11696 0.45834 0 1 3245700 7751 8732 4925 4942 9113 9113 0.09874091613562541 GKVSGRPR 8 Unmodified _GKVSGRPR_ 0 0 0 ENST00000490764.5_1_2:234327938-234366271:+|nuORF ENST00000490764.5_1_2:234327938-234366271:+|nuORF ENST00000490764.5_1_2:234327938-234366271:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 428.760498046875 2 428.759218 855.503883 3.2348 0.0013869 -0.029769 -1.2764E-05 3.205 0.0013742 428.7591149306419 94.188 0.47649 94.819 94.581 95.057 0.63115 63 27 3 0 0 0 0.74709 1 43369 43369 2.0598 1.3694 1 1516400 7752 8392 4926 4943 9114 9114 0.07035159914266842 GKWLRYLFAR 10 Unmodified _GKWLRYLFAR_ 0 0 0 REV__nc|ENSG00000144057|Q96JF0-2|ST6GAL2 REV__nc|ENSG00000144057|Q96JF0-2|ST6GAL2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.2010803222656 4 328.193654 1308.74551 2.379 0.00078077 -0.34103 -0.00011192 2.038 0.00066884 328.444533120266 43.422 0.24028 44.071 43.851 44.091 0.64872 11 8 2 0 0 0 0.12676 1 19823 19823 1.7423 1.3756 1 410560 + 7753 12391 4927 4944 9115 9115 0.10348770550535846 GKWLRYLFAR 10 Unmodified _GKWLRYLFAR_ 0 0 0 REV__nc|ENSG00000144057|Q96JF0-2|ST6GAL2 REV__nc|ENSG00000144057|Q96JF0-2|ST6GAL2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 328.193654 1308.74551 2.2044 0.00072347 -0.12142 -3.9851E-05 2.083 0.00068362 328.444795985483 43.961 0.080002 44.23 44.207 44.287 0.2694 0.079696 0.00015141 NaN 1.7423 9 5 2 NaN NaN NaN NaN 0 NaN NaN 0 557120 + 7754 12391 4927 4944 0.10348770550535846 GKWRVRARPRG 11 Unmodified _GKWRVRARPRG_ 0 0 0 ENST00000552014.5_1_12:113770667-113772302:-|nuORF ENST00000552014.5_1_12:113770667-113772302:-|nuORF ENST00000552014.5_1_12:113770667-113772302:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 446.93878173828125 3 446.937444 1337.7905 NaN NaN NaN NaN NaN NaN NaN 70.868 1 71.572 71.072 72.072 0.70386 0 0 0 1.0073 1 33993 33993 1.2148 0 1 7755 8886 4928 4945 9116 9116 0.13512014136426842 GKWWWWWFSFY 11 Unmodified _GKWWWWWFSFY_ 0 0 0 REV__ENST00000300134.7_1_12:57504946-57505147:-|nuORF REV__ENST00000300134.7_1_12:57504946-57505147:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 840.1915283203125 2 839.885147 1677.75574 NaN NaN NaN NaN NaN NaN NaN 90.342 1 90.342 89.842 90.842 0 0 0 0 1.0072 1 47452 47452 1.3295 1.3295 1 + 7756 15182 4929 4946 9117 9117 -0.056026665148920074 GKYKDKRRKKK 11 Unmodified _GKYKDKRRKKK_ 0 0 0 nc|ENSG00000182196|Q66PJ3-5|ARL6IP4;nc|ENSG00000182196|Q66PJ3-10|ARL6IP4;nc|ENSG00000182196|Q66PJ3-9|ARL6IP4;nc|ENSG00000182196|Q66PJ3-7|ARL6IP4;ENSG00000182196|ENST00000315580|ARL6IP4;nc|ENSG00000182196|Q66PJ3-4|ARL6IP4;nc|ENSG00000182196|Q66PJ3-3|ARL6IP4;nc|ENSG00000182196|Q66PJ3-2|ARL6IP4;nc|ENSG00000182196|Q66PJ3-1|ARL6IP4;ENST00000442210.2_1_12:123465790-123467130:+|nuORF;ENST00000539576.5_1_12:123465834-123466670:+|nuORF nc|ENSG00000182196|Q66PJ3-5|ARL6IP4 nc|ENSG00000182196|Q66PJ3-5|ARL6IP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 717.9576416015625 2 717.954427 1433.8943 NaN NaN NaN NaN NaN NaN NaN 83.126 1 83.126 82.626 83.626 0 0 0 0 1.0072 1 41801 41801 1.3295 1.0225 1 7757 5319 4930 4947 9118 9118 0.19470876453419805 GLAELRHLNL 10 Unmodified _GLAELRHLNL_ 0 0 0 ENSG00000174004|ENST00000328557|NRROS ENSG00000174004|ENST00000328557|NRROS ENSG00000174004|ENST00000328557|NRROS MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.90936279296875 3 379.224257 1134.65094 2.7962 0.0010604 0.66114 0.00025072 3.4573 0.0013111 379.2245838572776 14.59 0.23276 15.243 15.181 15.414 0.65256 35 24 2 0 0 0 0.12676 1 6626 6626 3.5871 2.3937 1 380800 7758 4962 4931 4948 9119 9119 0.08900212008552444 GLAERVSAIH 10 Unmodified _GLAERVSAIH_ 0 0 0 REV__ENSG00000100154|ENST00000397906|TTC28 REV__ENSG00000100154|ENST00000397906|TTC28 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.7946166992188 2 526.795998 1051.57744 NaN NaN NaN NaN NaN NaN NaN 89.206 1 89.27 88.77 89.77 0.064346 0 0 0 0.74241 1 45659 45659 24.021 7.8715 1 + 7759 10808 4932 4949 9120 9120 0.05371663566097595 GLAHPSSSGPE 11 Unmodified _GLAHPSSSGPE_ 0 0 0 ENSG00000119686|ENST00000238667|FLVCR2 ENSG00000119686|ENST00000238667|FLVCR2 ENSG00000119686|ENST00000238667|FLVCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.7449951171875 2 519.74617 1037.47779 NaN NaN NaN NaN NaN NaN NaN 91.423 1 91.506 91.006 92.006 0.082848 0 0 0 1.0034 1 47378 47378 6.2058 0.44535 1 7760 2158 4933 4950 9121 9121 -0.039451988385280856 GLAIRVPV 8 Unmodified _GLAIRVPV_ 0 0 0 REV__ENSG00000182670|ENST00000418766|TTC3 REV__ENSG00000182670|ENST00000418766|TTC3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 824.7122192382812 1 824.535249 823.527973 4.7159 0.0038884 -3.9723 -0.0032753 0.74361 0.00061313 824.5342895158948 98.472 0.12649 98.772 98.71 98.836 0.29987 15 10 2 0 0 0 0.13779 1 45362 45362 2.8892 2.0956 1 18011000 + 7761 13902 4934 4951 9122 9122 0.10915000347949899 GLAKRRLKW 9 Unmodified _GLAKRRLKW_ 0 0 0 REV__ENST00000473429.5_1_1:110584140-110584332:+|nuORF REV__ENST00000473429.5_1_1:110584140-110584332:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.3989868164062 2 564.361642 1126.70873 NaN NaN NaN NaN NaN NaN NaN 97.453 1 97.524 97.024 98.024 0.070648 0 0 0 0.89315 1 52109 52109 5.2307 0.90143 1 + 7762 16627 4935 4952 9123 9123 0.15044518724653244 GLALLRLLLLL 11 Unmodified _GLALLRLLLLL_ 0 0 0 REV__ENSG00000188986|ENST00000343053|NELFB REV__ENSG00000188986|ENST00000343053|NELFB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.426025390625 2 604.428659 1206.84277 NaN NaN NaN NaN NaN NaN NaN 102.69 1 102.69 102.19 103.19 0 0 0 0 1.0071 1 56669 56669 1.4819 0 1 + 7763 14169 4936 4953 9124 9124 0.24761739706855224 GLAPYRLKLRV 11 Unmodified _GLAPYRLKLRV_ 0 0 0 ENSG00000007944|ENST00000356840|MYLIP ENSG00000007944|ENST00000356840|MYLIP ENSG00000007944|ENST00000356840|MYLIP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 643.4099731445312 2 643.408789 1284.80303 4.6071 0.0029642 -4.2065 -0.0027065 0.40062 0.00025777 643.4065471196847 100.29 0.13753 100.59 100.53 100.67 0.30835 7 4 3 0 0 0 0.13295 1 46409 46409 1.3295 0 1 1505800 7764 369 4937 4954 9125 9125 0.1720161275609371 GLAPYRLKLRV 11 Unmodified _GLAPYRLKLRV_ 0 0 0 ENSG00000007944|ENST00000356840|MYLIP ENSG00000007944|ENST00000356840|MYLIP ENSG00000007944|ENST00000356840|MYLIP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 643.408789 1284.80303 3.3679 0.0021669 -6.3438 -0.0040817 -2.976 -0.0019148 643.4054236871092 100.45 0.055305 100.45 100.4 100.45 0 -0.15689 -0.002149 NaN 1.3295 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 5718500 7765 369 4937 4954 0.1720161275609371 GLAPYRLKLRV 11 Unmodified _GLAPYRLKLRV_ 0 0 0 ENSG00000007944|ENST00000356840|MYLIP ENSG00000007944|ENST00000356840|MYLIP ENSG00000007944|ENST00000356840|MYLIP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 643.408789 1284.80303 4.1371 0.0026619 -3.9241 -0.0025248 0.21307 0.00013709 643.9079450098745 100.17 0.13911 100.77 100.68 100.82 0.59717 0.16575 0.00096482 NaN 1.3295 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 2120800 7766 369 4937 4954 0.1720161275609371 GLARAKSV 8 Unmodified _GLARAKSV_ 0 0 0 nc|ENSG00000058091|O94921-3|CDK14;nc|ENSG00000058091|O94921-2|CDK14;ENSG00000058091|ENST00000380050|CDK14;ENST00000506489.1_1_1:205496975-205497827:+|nuORF;ENST00000550971.5_1_12:96677414-96688846:-|nuORF;ENST00000489617.5_1_1:205496852-205498898:+|nuORF;ENSG00000117266|ENST00000429964|CDK18;nc|ENSG00000117266|Q07002-3|CDK18;ENST00000504648.5_1_1:205492597-205500503:+|nuORF;nc|ENSG00000059758|Q00537-2|CDK17;ENSG00000059758|ENST00000261211|CDK17;ENST00000505932.5_1_1:205492708-205498898:+|nuORF nc|ENSG00000058091|O94921-3|CDK14;ENSG00000117266|ENST00000429964|CDK18 ENSG00000117266|ENST00000429964|CDK18 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 401.2515869140625 2 401.250695 800.486836 NaN NaN NaN NaN NaN NaN NaN 23 1 23.64 23.14 24.14 0.64051 0 0 0 0.0077579 1 10487 10487 104.8 23.186 1 7767 2066;629 4938 4955 9126 9126 0.07861239308465429 GLARPFQDMPV 11 Unmodified _GLARPFQDMPV_ 0 0 0 REV__nc|ENSG00000170190|O15375-2|SLC16A5 REV__nc|ENSG00000170190|O15375-2|SLC16A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 615.8668212890625 2 615.818615 1229.62268 NaN NaN NaN NaN NaN NaN NaN 92.465 1 92.547 92.047 93.047 0.082848 0 0 0 0.99968 1 48197 48197 6.7232 0 1 + 7768 13425 4939 4956 9127 9127 0.01705146036943006 GLARPRKVVRK 11 Unmodified _GLARPRKVVRK_ 0 0 0 REV__ENST00000360822.7_1_9:123151210-123151465:-|nuORF REV__ENST00000360822.7_1_9:123151210-123151465:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.8637084960938 2 640.425305 1278.83606 NaN NaN NaN NaN NaN NaN NaN 105.96 1 106 105.5 106.5 0.04837 0 0 0 1.0071 1 57336 57336 1.4819 0 1 + 7769 15617 4940 4957 9128 9128 0.2077923959882355 GLARRWLDRPQ 11 Unmodified _GLARRWLDRPQ_ 0 0 0 ENST00000426595.1_1_7:55955154-55973975:+|nuORF ENST00000426595.1_1_7:55955154-55973975:+|nuORF ENST00000426595.1_1_7:55955154-55973975:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 684.6895141601562 2 684.386377 1366.7582 NaN NaN NaN NaN NaN NaN NaN 98.204 1 98.493 97.993 98.993 0.28923 0 0 0 1.0055 1 45200 45200 3.5965 0 1 7770 7808 4941 4958 9129 9129 0.0894918194278489 GLATRFSRPWN 11 Unmodified _GLATRFSRPWN_ 0 0 0 ENST00000367330.5_1_1:201123059-201123311:-|nuORF ENST00000367330.5_1_1:201123059-201123311:-|nuORF ENST00000367330.5_1_1:201123059-201123311:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 652.84619140625 2 652.846553 1303.67855 NaN NaN NaN NaN NaN NaN NaN 106.83 1 106.83 106.33 107.33 0 0 0 0 1.0038 1 58638 58638 5.7319 0.43497 1 7771 7256 4942 4959 9130 9130 0.038861152688014045 GLCIIWSK 8 Unmodified _GLCIIWSK_ 0 0 0 REV__ENST00000523980.1_1_8:1891806-1893946:+|nuORF REV__ENST00000523980.1_1_8:1891806-1893946:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 919.2464599609375 1 919.506986 918.499709 3.2892 0.0030245 4.2091 0.0038703 7.4984 0.0068948 919.511587338444 87.029 0.031982 87.029 87.008 87.04 0 6 4 2 0 0 0 0.12327 1 44759 44759 8.5933 0 1 11283000 + 7772 17071 4943 4960 9131 9131 0.0371993437635183 GLCKLFCLTLH 11 Unmodified _GLCKLFCLTLH_ 0 0 0 ENSG00000089154|ENST00000300648|GCN1 ENSG00000089154|ENST00000300648|GCN1 ENSG00000089154|ENST00000300648|GCN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 624.33935546875 2 624.335587 1246.65662 NaN NaN NaN NaN NaN NaN NaN 103.47 1 103.47 102.97 103.97 0 0 0 0 1.0057 1 57025 57025 3.2813 0 1 7773 1034 4944 4961 9132 9132 0.043158512043646624 GLCKRWRQVRW 11 Unmodified _GLCKRWRQVRW_ 0 0 0 ENST00000588737.5_1_18:33573043-33573142:-|nuORF ENST00000588737.5_1_18:33573043-33573142:-|nuORF ENST00000588737.5_1_18:33573043-33573142:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 744.8948974609375 2 744.411872 1486.80919 NaN NaN NaN NaN NaN NaN NaN 90.574 1 90.65 90.15 91.15 0.075279 0 0 0 1.0072 1 46716 46716 1.3295 0.13619 1 7774 9209 4945 4962 9133 9133 0.08525807715955125 GLCKRWRQVRW 11 Unmodified _GLCKRWRQVRW_ 0 0 0 ENST00000588737.5_1_18:33573043-33573142:-|nuORF ENST00000588737.5_1_18:33573043-33573142:-|nuORF ENST00000588737.5_1_18:33573043-33573142:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 744.4129638671875 2 744.411872 1486.80919 NaN NaN NaN NaN NaN NaN NaN 91.854 1 91.937 91.437 92.437 0.082848 0 0 0 1.0072 1 47720 47720 1.3295 0 1 7775 9209 4945 4962 9134 9134 0.08525807715955125 GLDDKTNIKTV 11 Unmodified _GLDDKTNIKTV_ 0 0 0 ENSG00000124785|ENST00000244766|NRN1;ENST00000495850.1_1_6:5999211-6003125:-|nuORF ENSG00000124785|ENST00000244766|NRN1 ENSG00000124785|ENST00000244766|NRN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.880615234375 2 602.33261 1202.65067 NaN NaN NaN NaN NaN NaN NaN 102.81 1 102.87 102.37 103.37 0.055092 0 0 0 1.0038 1 55794 55794 5.7319 1.4026 1 7776 2381 4946 4963 9135 9135 0.057447474980335755 GLDGLEGAP 9 Unmodified _GLDGLEGAP_ 0 0 0 REV__ENST00000597025.1_1_19:15567220-15568129:-|nuORF REV__ENST00000597025.1_1_19:15567220-15568129:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 828.4140014648438 1 828.409774 827.402498 4.3468 0.0036009 -0.14096 -0.00011677 4.2058 0.0034841 828.4098288578782 31.489 0.5134 31.745 31.588 32.101 0.25614 59 39 2 0 0 0 0.49692 1 14307 14307 12.532 2.3482 1 259230 + 7777 17617 4947 4964 9136 9136 -0.01810756298959859 GLDGLEGAP 9 Unmodified _GLDGLEGAP_ 0 0 0 REV__ENST00000597025.1_1_19:15567220-15568129:-|nuORF REV__ENST00000597025.1_1_19:15567220-15568129:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 828.4155883789062 1 828.409774 827.402498 3.9483 0.0032708 0.17508 0.00014504 4.1234 0.0034159 828.4101933761411 31.073 0.45304 31.691 31.505 31.958 0.61737 40 29 2 0 0 0 0.27976 1 14291 14291 18.135 1.1927 1 319230 + 7778 17617 4947 4964 9137 9137 -0.01810756298959859 GLDLLLRRP 9 Unmodified _GLDLLLRRP_ 0 0 0 REV__ENSG00000140067|ENST00000556222|FAM181A REV__ENSG00000140067|ENST00000556222|FAM181A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.8346557617188 2 526.832383 1051.65021 NaN NaN NaN NaN NaN NaN NaN 88.561 1 88.613 88.113 89.113 0.052155 0 0 0 0.72654 1 45143 45143 11.64 1.5664 1 + 7779 12230 4948 4965 9138 9138 0.12645417359499334 GLDNKLCPTNK 11 Unmodified _GLDNKLCPTNK_ 0 0 0 REV__ENSG00000132464|ENST00000396073|ENAM REV__ENSG00000132464|ENST00000396073|ENAM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 601.9917602539062 2 601.81353 1201.61251 NaN NaN NaN NaN NaN NaN NaN 91.306 1 91.306 90.806 91.806 0 0 0 0 1.0041 1 48192 48192 5.2969 0.96765 1 + 7780 11891 4949 4966 9139 9139 0.019765383117146484 GLDRRRSRRHS 11 Unmodified _GLDRRRSRRHS_ 0 0 0 ENST00000591635.5_1_18:34124550-34298500:+|nuORF;ENST00000589114.5_1_18:33877702-34289359:+|nuORF;FHOD3|p.S1039Lfs*29|1|0.07|ENSG00000134775|chr18:36740769-36740770|-/CTTCAATGTTATAAAATTCATATTATAATTT|frameshift_variant;nc|ENSG00000134775|Q2V2M9-2|FHOD3;nc|ENSG00000134775|Q2V2M9|FHOD3;nc|ENSG00000134775|Q2V2M9-3|FHOD3;ENSG00000134775|ENST00000590592|FHOD3 ENST00000591635.5_1_18:34124550-34298500:+|nuORF ENST00000591635.5_1_18:34124550-34298500:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 698.297607421875 2 698.393056 1394.77156 NaN NaN NaN NaN NaN NaN NaN 95.847 1 95.923 95.423 96.423 0.076538 0 0 0 1.0073 1 50772 50772 1.1933 0.735 1 7781 9239 4950 4967 9140 9140 0.08996432774756613 GLEECFGG 8 Unmodified _GLEECFGG_ 0 0 0 REV__ENSG00000178597|ENST00000319098|PSAPL1 REV__ENSG00000178597|ENST00000319098|PSAPL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.39599609375 1 811.329081 810.321804 2.7814 0.0022566 -0.32854 -0.00026655 2.4529 0.0019901 811.3278737100151 86.397 0.08017 86.427 86.37 86.45 0.030281 18 12 2 0 0 0 0.14069 1 43448 43448 2.8892 0 1 26751000 + 7782 13766 4951 4968 9141 9141 -0.09094360613494246 GLEHSHPKRPF 11 Unmodified _GLEHSHPKRPF_ 0 0 0 ENST00000375754.8_1_9:93657936-93658308:+|nuORF ENST00000375754.8_1_9:93657936-93658308:+|nuORF ENST00000375754.8_1_9:93657936-93658308:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 652.8467407226562 2 652.846553 1303.67855 NaN NaN NaN NaN NaN NaN NaN 96.173 1 96.173 95.673 96.673 0 0 0 0 1.0034 1 51978 51978 6.2058 0 1 7783 7393 4952 4969 9142 9142 0.03886115268778667 GLELFRWQW 9 Unmodified _GLELFRWQW_ 0 0 0 ENSG00000135740|ENST00000299798|SLC9A5 ENSG00000135740|ENST00000299798|SLC9A5 ENSG00000135740|ENST00000299798|SLC9A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 617.8215942382812 2 617.822015 1233.62948 NaN NaN NaN NaN NaN NaN NaN 108.48 1 109.08 108.58 109.58 0.60264 0 0 0 0.91206 1 50048 50048 0.6015 0 1 7784 2893 4953 4970 9143 9143 0.022008269798334368 GLERQRSSK 9 Unmodified _GLERQRSSK_ 0 0 0 REV__ENSG00000126107|ENST00000372172|HECTD3 REV__ENSG00000126107|ENST00000372172|HECTD3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.3375854492188 2 530.796529 1059.5785 2.2325 0.001185 0.054904 2.9143E-05 2.2874 0.0012141 531.2977455303026 86.663 0.059753 86.693 86.647 86.707 0.030289 14 9 2 0 0 0 0.096132 1 43643 43643 3.2813 3.2813 1 7893400 + 7785 11704 4954 4971 9144 9144 0.05109877934978613 GLERQRSSK 9 Unmodified _GLERQRSSK_ 0 0 0 REV__ENSG00000126107|ENST00000372172|HECTD3 REV__ENSG00000126107|ENST00000372172|HECTD3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 530.796529 1059.5785 2.6323 0.0013972 0.20443 0.00010851 2.8367 0.0015057 530.7972158294144 86.726 0.05555 86.726 86.686 86.742 0 0.016602 0.00013282 NaN 3.2813 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 25768000 + 7786 11704 4954 4971 0.05109877934978613 GLEYALLV 8 Unmodified _GLEYALLV_ 0 0 0 ENSG00000169359|ENST00000643144|SLC33A1 ENSG00000169359|ENST00000643144|SLC33A1 ENSG00000169359|ENST00000643144|SLC33A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 877.5059814453125 1 877.502946 876.49567 3.8834 0.0034077 -1.4392 -0.0012629 2.4442 0.0021448 877.5019087727918 83.731 0.21148 83.978 83.851 84.062 0.24722 19 13 2 0 0 0 0.5438 1 38575 38575 18.135 4.6271 1 321980 7787 4686 4955 4972 9145 9145 0.05248168154287214 GLFSVTGVL 9 Unmodified _GLFSVTGVL_ 0 0 0 ENSG00000147155|ENST00000495186|EBP ENSG00000147155|ENST00000495186|EBP ENSG00000147155|ENST00000495186|EBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 446.7619934082031 2 446.760561 891.506569 2.8917 0.0012919 0.22469 0.00010038 3.1164 0.0013923 446.76061174448415 59.853 0.29891 60.112 59.98 60.279 0.2593 36 15 3 0 0 0 0.80651 1 27474 27474 7.2892 0 1 2348700 7788 3551 4956 4973 9146 9146 0.05647570528583401 GLFVVLILRL 10 Unmodified _GLFVVLILRL_ 0 0 0 REV__ENST00000554660.1_1_15:91542823-91543794:-|nuORF REV__ENST00000554660.1_1_15:91542823-91543794:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.8349609375 2 571.886627 1141.7587 NaN NaN NaN NaN NaN NaN NaN 68.331 1 68.331 67.831 68.831 0 0 0 0 0.99687 1 32895 32895 4.3292 1.0479 1 + 7789 13955 4957 4974 9147 9147 0.193492086099468 GLGALTRH 8 Unmodified _GLGALTRH_ 0 0 0 REV__ABCA7|p.P1501Qfs*17|1|0.44|ENSG00000064687|chr19:1056411-1056411|C/-|frameshift_variant REV__ABCA7|p.P1501Qfs*17|1|0.44|ENSG00000064687|chr19:1056411-1056411|C/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 824.8241577148438 1 824.473712 823.466435 2.5345 0.0020896 -1.9425 -0.0016015 0.59204 0.00048812 824.4723030455999 94.333 0.14047 94.42 94.34 94.48 0.086205 27 19 2 0 0 0 0.13779 1 49554 49554 6.3541 1.1234 1 16845000 + 7790 9917 4958 4975 9148 9148 0.047640686486602135 GLGFDHRWVLF 11 Unmodified _GLGFDHRWVLF_ 0 0 0 ENST00000592061.1_1_19:19738235-19738493:-|nuORF ENST00000592061.1_1_19:19738235-19738493:-|nuORF ENST00000592061.1_1_19:19738235-19738493:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 673.7841796875 2 673.853847 1345.69314 NaN NaN NaN NaN NaN NaN NaN 89.722 1 89.722 89.222 90.222 0 0 0 0 1.0057 1 46944 46944 3.2813 0 1 7791 9242 4959 4976 9149 9149 0.03412187416915913 GLGFKAKLFKF 11 Unmodified _GLGFKAKLFKF_ 0 0 0 REV__nc|ENSG00000178904|Q6ZPD9-2|DPY19L3 REV__nc|ENSG00000178904|Q6ZPD9-2|DPY19L3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 628.38623046875 2 628.381709 1254.74886 3.9803 0.0025012 2.3334 0.0014663 6.3137 0.0039674 628.3835007682659 90.551 0.46114 91.224 90.979 91.44 0.67271 33 21 2 0 0 0 0.9102 1 41669 41669 1.4819 0.41044 1 748630 + 7792 13774 4960 4977 9150 9150 0.13168020604530284 GLGFKAKLFKF 11 Unmodified _GLGFKAKLFKF_ 0 0 0 REV__nc|ENSG00000178904|Q6ZPD9-2|DPY19L3 REV__nc|ENSG00000178904|Q6ZPD9-2|DPY19L3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 628.381709 1254.74886 3.9803 0.0025012 2.3334 0.0014663 6.3137 0.0039674 628.3835007682659 90.551 0.46114 91.224 90.979 91.44 0.67271 0.10746 0.0006386 NaN 1.4819 33 21 2 NaN NaN NaN NaN 0 NaN NaN 0 748630 + 7793 13774 4960 4977 0.13168020604530284 GLGLLKQLHIN 11 Unmodified _GLGLLKQLHIN_ 0 0 0 ENSG00000184564|ENST00000647374|SLITRK6 ENSG00000184564|ENST00000647374|SLITRK6 ENSG00000184564|ENST00000647374|SLITRK6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 603.7166137695312 2 603.371872 1204.72919 NaN NaN NaN NaN NaN NaN NaN 83.203 1 83.248 82.748 83.748 0.045006 0 0 0 1.0059 1 41239 41239 2.9952 0 1 7794 5449 4961 4978 9151 9151 0.13501644593793571 GLGQAHPRL 9 Unmodified _GLGQAHPRL_ 0 0 0 REV__ENST00000405546.7_1_2:242612072-242612480:+|nuORF REV__ENST00000405546.7_1_2:242612072-242612480:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 316.8510437011719 3 316.850643 947.530098 2.0916 0.00066273 -0.9165 -0.00029039 1.1751 0.00037234 316.85032025352297 16.741 0.94591 17.046 16.49 17.435 0.30438 199 92 3 0 0 0 1.0755 2 7560 7560;7648 2.7352 0.89096 1 203120 + 7795 16063 4962 4979 9152;9153 9152 0.05423429085760745 GLGVTVLEGPI 11 Unmodified _GLGVTVLEGPI_ 0 0 0 ENSG00000150361|ENST00000377844|KLHL1 ENSG00000150361|ENST00000377844|KLHL1 ENSG00000150361|ENST00000377844|KLHL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.8097534179688 2 527.810782 1053.60701 NaN NaN NaN NaN NaN NaN NaN 58.308 1 59.067 58.567 59.567 0.75894 0 0 0 1.0041 1 26740 26740 5.2969 1.7004 1 7796 3666 4963 4980 9154 9154 0.08235182791577245 GLHARLTQAS 10 Unmodified _GLHARLTQAS_ 0 0 0 REV__ENST00000523568.1_7:102228019-102246337:-|nuORF REV__ENST00000523568.1_7:102228019-102246337:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.2947998046875 2 527.293622 1052.57269 NaN NaN NaN NaN NaN NaN NaN 37.772 1 38.567 38.067 39.067 0.79552 0 0 0 0.99846 1 17113 17113 2.9952 0.69251 1 + 7797 11055 4964 4981 9155 9155 0.0485077942330463 GLHGRRRF 8 Unmodified _GLHGRRRF_ 0 0 0 REV__ENSG00000196196|ENST00000354323|HRCT1 REV__ENSG00000196196|ENST00000354323|HRCT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 333.5306091308594 3 333.530015 997.568215 2.3456 0.00078232 -0.93963 -0.0003134 1.4059 0.00046892 333.5297110926558 17.589 0.31137 17.589 17.462 17.773 0 48 19 3 0 0 0 0.64827 2 7848 7793;7848 10.074 3.5965 1 296990 + 7798 14195 4965 4982 9156;9157 9157 0.06933359791071325 GLHGYTEQMVD 11 Unmodified _GLHGYTEQMVD_ 0 0 0 REV__ENST00000563665.3_1_16:30582701-30582962:-|nuORF REV__ENST00000563665.3_1_16:30582701-30582962:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 417.18988037109375 3 417.188772 1248.54449 2.804 0.0011698 0.38025 0.00015864 3.1842 0.0013284 417.1888471435677 40.533 0.3169 40.533 40.311 40.628 0 35 16 4 0 0 0 0.74281 1 18421 18421 4.7159 0.59929 1 4901600 + 7799 14571 4966 4983 9158 9158 -0.0698433133893559 GLHKRRLYQRR 11 Unmodified _GLHKRRLYQRR_ 0 0 0 REV__nc|ENSG00000033627|Q93050-1|ATP6V0A1 REV__nc|ENSG00000033627|Q93050-1|ATP6V0A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 741.9472045898438 2 741.947467 1481.88038 NaN NaN NaN NaN NaN NaN NaN 87.943 1 87.983 87.483 88.483 0.039955 0 0 0 1.008 1 44669 44669 0.35063 0.043601 1 + 7800 10297 4967 4984 9159 9159 0.1587164374502663 GLIFLLKLLLL 11 Unmodified _GLIFLLKLLLL_ 0 0 0 REV__ENST00000526343.5_1_11:102100776-102101010:+|nuORF REV__ENST00000526343.5_1_11:102100776-102101010:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 628.442138671875 2 628.441235 1254.86792 NaN NaN NaN NaN NaN NaN NaN 93.33 1 93.416 92.916 93.916 0.086212 0 0 0 1.0071 1 48865 48865 1.4819 0.15237 1 + 7801 17089 4968 4985 9160 9160 0.2506779450943668 GLIKKKRKRK 10 Unmodified _GLIKKKRKRK_ 0 0 0 REV__ENST00000415226.1_1_2:237168173-237186074:+|nuORF REV__ENST00000415226.1_1_2:237168173-237186074:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 627.9454345703125 2 627.945873 1253.87719 NaN NaN NaN NaN NaN NaN NaN 56.797 1 57.575 57.075 58.075 0.77786 0 0 0 1.0015 1 25979 25979 0.45834 0.45834 1 + 7802 16128 4969 4986 9161 9161 0.26041000638292644 GLIKTKRKRKK 11 Unmodified _GLIKTKRKRKK_ 0 0 0 ENSG00000003436|ENST00000233156|TFPI ENSG00000003436|ENST00000233156|TFPI ENSG00000003436|ENST00000233156|TFPI MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 678.3432006835938 2 678.469712 1354.92487 NaN NaN NaN NaN NaN NaN NaN 97.646 1 97.717 97.217 98.217 0.070648 0 0 0 1.0071 1 52274 52274 1.4819 0 1 7803 309 4970 4987 9162 9162 0.2616065483848615 GLILLAILKMY 11 Unmodified _GLILLAILKMY_ 0 0 0 ENSG00000181718|ENST00000641661|OR5T2;nc|ENSG00000181718|Q8NGG2|OR5T2 ENSG00000181718|ENST00000641661|OR5T2 ENSG00000181718|ENST00000641661|OR5T2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 624.59423828125 2 624.393428 1246.7723 NaN NaN NaN NaN NaN NaN NaN 99.878 1 100.19 99.686 100.69 0.30835 0 0 0 1.0034 1 46173 46173 6.2058 0 1 7804 5297 4971 4988 9163 9163 0.15878698326878293 GLILPCHKWRL 11 Unmodified _GLILPCHKWRL_ 0 0 0 REV__ENST00000553142.5_1_12:58020024-58020282:-|nuORF REV__ENST00000553142.5_1_12:58020024-58020282:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 668.0792846679688 2 668.389542 1334.76453 NaN NaN NaN NaN NaN NaN NaN 101.29 1 101.29 100.79 101.79 0 0 0 0 0.97175 1 55964 55964 9.3831 0.63772 1 + 7805 17300 4972 4989 9164 9164 0.11053983849933502 GLILPRRLRRQ 11 Unmodified _GLILPRRLRRQ_ 0 0 0 REV__ENST00000587411.5_1_19:5925055-5932565:-|nuORF REV__ENST00000587411.5_1_19:5925055-5932565:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 689.3474731445312 2 689.449311 1376.88407 NaN NaN NaN NaN NaN NaN NaN 102.49 1 102.49 101.99 102.99 0 0 0 0 1.0071 1 56580 56580 1.4819 1.1749 1 + 7806 17551 4973 4990 9165 9165 0.2107031351886235 GLILPRRLRRQ 11 Unmodified _GLILPRRLRRQ_ 0 0 0 REV__ENST00000587411.5_1_19:5925055-5932565:-|nuORF REV__ENST00000587411.5_1_19:5925055-5932565:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 689.25244140625 2 689.449311 1376.88407 NaN NaN NaN NaN NaN NaN NaN 102.52 1 102.52 102.02 103.02 0 0 0 0 1.0071 1 56594 56594 1.4819 0.28856 1 + 7807 17551 4973 4990 9166 9166 0.2107031351886235 GLIMYKWWRRR 11 Unmodified _GLIMYKWWRRR_ 0 0 0 REV__nc|ENSG00000196376|Q5T1Q4-2|SLC35F1 REV__nc|ENSG00000196376|Q5T1Q4-2|SLC35F1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 782.9363403320312 2 782.937722 1563.86089 NaN NaN NaN NaN NaN NaN NaN 87.51 1 87.55 87.05 88.05 0.039955 0 0 0 1.0071 1 44324 44324 1.4819 1.1749 1 + 7808 14210 4974 4991 9167 9167 0.10151551409876447 GLINEHRLMV 10 Unmodified _GLINEHRLMV_ 0 0 0 REV__ACVR1B|p.K337Vfs*24|1|0.28|ENSG00000135503|chr12:51985220-51985221|AA/-|frameshift_variant REV__ACVR1B|p.K337Vfs*24|1|0.28|ENSG00000135503|chr12:51985220-51985221|AA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.3394165039062 2 591.326608 1180.63866 NaN NaN NaN NaN NaN NaN NaN 90.667 1 90.667 90.167 91.167 0 0 0 0 0.99687 1 47713 47713 4.3292 0.73274 1 + 7809 9921 4975 4992 9168 9168 0.055568522738667525 GLIQLVHIR 9 Unmodified _GLIQLVHIR_ 0 0 0 REV__nc|ENSG00000151779|A2RRP1-2|NBAS REV__nc|ENSG00000151779|A2RRP1-2|NBAS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.835693359375 2 524.834926 1047.6553 NaN NaN NaN NaN NaN NaN NaN 93.05 1 93.136 92.636 93.636 0.086212 0 0 0 0.66907 1 48661 48661 13.508 0.97634 1 + 7810 12630 4976 4993 9169 9169 0.1333772122211485 GLIWNIILHWQ 11 Unmodified _GLIWNIILHWQ_ 0 0 0 nc|ENSG00000198947|P11532-4|DMD;nc|ENSG00000198947|P11532-11|DMD;nc|ENSG00000198947|P11532|DMD;ENSG00000198947|ENST00000357033|DMD nc|ENSG00000198947|P11532-4|DMD nc|ENSG00000198947|P11532-4|DMD MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 696.9888305664062 2 696.892972 1391.77139 3.2947 0.002296 0.64293 0.00044805 3.9376 0.0027441 697.3964640048963 94.318 0.034218 94.318 94.297 94.331 0 6 4 2 0 0 0 0.13295 1 50570 50570 3.2813 0 1 16587000 7811 5967 4977 4994 9170 9170 0.09117620002189142 GLKKATEVVFL 11 Unmodified _GLKKATEVVFL_ 0 0 0 REV__ENST00000591146.2_1_19:1203384-1203819:+|nuORF REV__ENST00000591146.2_1_19:1203384-1203819:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 603.066650390625 2 602.868631 1203.72271 NaN NaN NaN NaN NaN NaN NaN 92.256 1 92.256 91.756 92.756 0 0 0 0 1.0059 1 48975 48975 2.9952 0.26005 1 + 7812 17580 4978 4995 9171 9171 0.1289970664242901 GLKKKEVL 8 Unmodified _GLKKKEVL_ 0 0 0 REV__nc|ENSG00000154358|Q5VST9|OBSCN REV__nc|ENSG00000154358|Q5VST9|OBSCN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.5403137207031 3 305.539294 913.596052 2.0077 0.00061343 0.88786 0.00027128 2.8956 0.00088471 305.53953190351996 17.17 0.64401 17.474 17.114 17.758 0.30438 133 51 3 0 0 0 0.52517 3 7730 7681;7730;7873 20.454 2.7788 1 900110 + 7813 12706 4979 4996 9172;9173;9174 9173 0.1357982520794394 GLKKKEVL 8 Unmodified _GLKKKEVL_ 0 0 0 REV__nc|ENSG00000154358|Q5VST9|OBSCN REV__nc|ENSG00000154358|Q5VST9|OBSCN MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 305.539294 913.596052 2.1525 0.00065767 0.97809 0.00029885 3.1306 0.00095652 305.53956575822446 16.971 0.62803 17.632 17.256 17.884 0.66072 0.078995 4.0268E-05 NaN 20.454 147 52 4 NaN NaN NaN NaN 0 NaN NaN 0 874730 + 7814 12706 4979 4996 0.1357982520794394 GLKLKRTRRY 10 Unmodified _GLKLKRTRRY_ 0 0 0 ENSG00000070778|ENST00000556564|PTPN21;ENST00000554178.1_1_14:88978906-89016761:-|nuORF;ENST00000554628.5_1_14:88959357-89016761:-|nuORF;ENST00000554270.5_1_14:88936247-89016761:-|nuORF ENSG00000070778|ENST00000556564|PTPN21 ENSG00000070778|ENST00000556564|PTPN21 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 646.36376953125 2 645.909488 1289.80442 NaN NaN NaN NaN NaN NaN NaN 96.398 1 96.398 95.898 96.898 0 0 0 0 0.99774 1 52158 52158 3.5965 0 1 7815 771 4980 4997 9175 9175 0.17111246844888228 GLKMTAPLWW 10 Unmodified _GLKMTAPLWW_ 0 0 0 REV__ENST00000579434.5_1_18:51796255-51800364:+|nuORF REV__ENST00000579434.5_1_18:51796255-51800364:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 601.8251342773438 2 601.823169 1201.63179 NaN NaN NaN NaN NaN NaN NaN 92.418 1 92.671 92.171 93.171 0.25253 0 0 0 0.99774 1 42485 42485 3.5965 0.31518 1 + 7816 17500 4981 4998 9176 9176 0.03903539393286337 GLKQKKAKVHL 11 Unmodified _GLKQKKAKVHL_ 0 0 0 REV__nc|ENSG00000039600|O94993-2|SOX30 REV__nc|ENSG00000039600|O94993-2|SOX30 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 625.4118041992188 2 625.408789 1248.80303 NaN NaN NaN NaN NaN NaN NaN 64.648 1 65.363 64.863 65.863 0.71521 0 0 0 1.0041 1 30467 30467 5.2969 2.5617 1 + 7817 10313 4982 4999 9177 9177 0.18857612756141862 GLKRKQRKLKE 11 Unmodified _GLKRKQRKLKE_ 0 0 0 nc|ENSG00000117139|Q9UGL1-2|KDM5B;ENSG00000117139|ENST00000367265|KDM5B nc|ENSG00000117139|Q9UGL1-2|KDM5B nc|ENSG00000117139|Q9UGL1-2|KDM5B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 692.082763671875 2 692.448977 1382.8834 NaN NaN NaN NaN NaN NaN NaN 102.98 1 102.98 102.48 103.48 0 0 0 0 1.008 1 56802 56802 0.35063 0 1 7818 2061 4983 5000 9178 9178 0.20727474079149033 GLKRRKRTKLK 11 Unmodified _GLKRRKRTKLK_ 0 0 0 REV__ENST00000301624.8_1_17:76104411-76104549:+|nuORF REV__ENST00000301624.8_1_17:76104411-76104549:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 692.6861572265625 2 692.472786 1382.93102 NaN NaN NaN NaN NaN NaN NaN 93.666 1 93.753 93.253 94.253 0.086212 0 0 0 1.008 1 49126 49126 0.35063 0.043601 1 + 7819 15193 4984 5001 9179 9179 0.2548717306999606 GLKRRKRTKLK 11 Unmodified _GLKRRKRTKLK_ 0 0 0 REV__ENST00000301624.8_1_17:76104411-76104549:+|nuORF REV__ENST00000301624.8_1_17:76104411-76104549:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 692.3985595703125 2 692.472786 1382.93102 NaN NaN NaN NaN NaN NaN NaN 97.703 1 97.774 97.274 98.274 0.070648 0 0 0 1.0072 1 52323 52323 1.3295 1.0937 1 + 7820 15193 4984 5001 9180 9180 0.2548717306999606 GLKRRRWHRRK 11 Unmodified _GLKRRRWHRRK_ 0 0 0 REV__ENST00000478577.1_1_17:54650436-54650553:+|nuORF REV__ENST00000478577.1_1_17:54650436-54650553:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 774.9885864257812 2 774.982176 1547.9498 NaN NaN NaN NaN NaN NaN NaN 90.712 1 90.712 90.212 91.212 0 0 0 0 1.0071 1 47751 47751 1.4819 1.1749 1 + 7821 16672 4985 5002 9181 9181 0.1977414748441788 GLKRRRWHRRK 11 Unmodified _GLKRRRWHRRK_ 0 0 0 REV__ENST00000478577.1_1_17:54650436-54650553:+|nuORF REV__ENST00000478577.1_1_17:54650436-54650553:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 774.9815063476562 2 774.982176 1547.9498 NaN NaN NaN NaN NaN NaN NaN 100.35 1 100.95 100.45 101.45 0.59717 0 0 0 1.0071 1 46447 46447 1.4819 1.4819 1 + 7822 16672 4985 5002 9182 9182 0.1977414748441788 GLKTRRRHR 9 Unmodified _GLKTRRRHR_ 0 0 0 REV__ENST00000453780.1_1_1:26215480-26215597:+|nuORF REV__ENST00000453780.1_1_1:26215480-26215597:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.267822265625 3 393.91464 1178.72209 2.6631 0.001049 -1.4564 -0.00057368 1.2067 0.00047535 393.9136103396038 38.562 0.40438 38.562 38.402 38.807 0 46 19 3 0 0 0 0.11402 1 17604 17604 0.96228 0.96228 1 651020 + 7823 16430 4986 5003 9183 9183 0.13987769556592866 GLKTRRRHR 9 Unmodified _GLKTRRRHR_ 0 0 0 REV__ENST00000453780.1_1_1:26215480-26215597:+|nuORF REV__ENST00000453780.1_1_1:26215480-26215597:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.2679748535156 3 393.91464 1178.72209 2.6554 0.001046 -1.5077 -0.00059391 1.1477 0.0004521 393.91351525670717 38.937 0.43877 38.937 38.636 39.075 0 34 17 3 0 0 0 0.11293 1 17719 17719 2.4985 0.21571 1 812960 + 7824 16430 4986 5003 9184 9184 0.13987769556592866 GLKTRRRHR 9 Unmodified _GLKTRRRHR_ 0 0 0 REV__ENST00000453780.1_1_1:26215480-26215597:+|nuORF REV__ENST00000453780.1_1_1:26215480-26215597:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8913879394531 3 393.91464 1178.72209 2.7868 0.0010978 -2.4289 -0.00095679 0.35791 0.00014099 393.9130206991899 37.501 0.63316 38.135 37.919 38.553 0.63388 39 21 3 0 0 0 0.11115 1 17180 17180 4.5289 0.33936 1 415350 + 7825 16430 4986 5003 9185 9185 0.13987769556592866 GLKTRRRHR 9 Unmodified _GLKTRRRHR_ 0 0 0 REV__ENST00000453780.1_1_1:26215480-26215597:+|nuORF REV__ENST00000453780.1_1_1:26215480-26215597:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 393.91464 1178.72209 2.594 0.0010218 -1.8325 -0.00072186 0.76148 0.00029996 393.91348925289304 38.14 0.27165 38.936 38.815 39.087 0.79552 -0.00050821 -0.00018285 NaN 2.4985 25 9 3 NaN NaN NaN NaN 0 NaN NaN 0 329480 + 7826 16430 4986 5003 0.13987769556592866 GLKTRRRHR 9 Unmodified _GLKTRRRHR_ 0 0 0 REV__ENST00000453780.1_1_1:26215480-26215597:+|nuORF REV__ENST00000453780.1_1_1:26215480-26215597:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 393.91464 1178.72209 2.7364 0.0010779 -2.7446 -0.0010812 -0.0082208 -3.2383E-06 393.91363392409 37.848 0.2155 38.482 38.337 38.553 0.63388 0.0073095 -0.00087969 NaN 0.96228 14 7 2 NaN NaN NaN NaN 0 NaN NaN 0 365990 + 7827 16430 4986 5003 0.13987769556592866 GLKVAPIG 8 Unmodified _GLKVAPIG_ 0 0 0 REV__ENSG00000189139|ENST00000340446|FSCB REV__ENSG00000189139|ENST00000340446|FSCB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 377.7461853027344 2 377.744714 753.474875 2.7888 0.0010534 0.090506 3.4188E-05 2.8793 0.0010876 377.744627308788 23.325 0.10421 23.6 23.51 23.614 0.27562 21 16 2 0 0 0 0.31786 1 10521 10521 34.187 2.0704 1 4018300 + 7828 14175 4987 5004 9186 9186 0.0882762256528622 GLKVGPLL 8 Unmodified _GLKVGPLL_ 0 0 0 REV__nc|ENSG00000173612|Q5T6X5-3|GPRC6A REV__nc|ENSG00000173612|Q5T6X5-3|GPRC6A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.77093505859375 2 398.768189 795.521825 NaN NaN NaN NaN NaN NaN NaN 29.232 1 29.492 28.992 29.992 0.2602 0 0 0 0.99035 1 13302 13302 2.5775 0 1 + 7829 13606 4988 5005 9187 9187 0.11588482116428622 GLKVGPLL 8 Unmodified _GLKVGPLL_ 0 0 0 REV__nc|ENSG00000173612|Q5T6X5-3|GPRC6A REV__nc|ENSG00000173612|Q5T6X5-3|GPRC6A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.7703857421875 2 398.768189 795.521825 NaN NaN NaN NaN NaN NaN NaN 27.172 1 27.794 27.294 28.294 0.62179 0 0 0 0.99035 1 12457 12457 0.79363 0 1 + 7830 13606 4988 5005 9188 9188 0.11588482116428622 GLKVREYEL 9 Unmodified _GLKVREYEL_ 0 0 0 nc|ENSG00000142676|P62913-2|RPL11;ENSG00000142676|ENST00000643754|RPL11;ENST00000482370.1_1_1:24019089-24022860:+|nuORF nc|ENSG00000142676|P62913-2|RPL11 nc|ENSG00000142676|P62913-2|RPL11 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.7468872070312 2 553.813856 1105.61316 3.5914 0.001989 0.14135 7.8284E-05 3.7328 0.0020673 553.8137829321107 38.095 0.18601 38.095 37.987 38.173 0 9 6 2 0 0 0 0.084747 1 17286 17286 20.415 2.2682 1 379240 7831 3326 4989 5006 9189 9189 0.06457701023077789 GLKVREYEL 9 Unmodified _GLKVREYEL_ 0 0 0 nc|ENSG00000142676|P62913-2|RPL11;ENSG00000142676|ENST00000643754|RPL11;ENST00000482370.1_1_1:24019089-24022860:+|nuORF nc|ENSG00000142676|P62913-2|RPL11 nc|ENSG00000142676|P62913-2|RPL11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.8156127929688 2 553.813856 1105.61316 3.5167 0.0019476 0.264 0.00014621 3.7807 0.0020938 553.813719700012 37.988 0.30657 38.248 38.093 38.4 0.26083 21 9 4 0 0 0 0.030603 1 17312 17312 55.503 3.8729 1 833640 7832 3326 4989 5006 9190 9190 0.06457701023077789 GLKVREYEL 9 Unmodified _GLKVREYEL_ 0 0 0 nc|ENSG00000142676|P62913-2|RPL11;ENSG00000142676|ENST00000643754|RPL11;ENST00000482370.1_1_1:24019089-24022860:+|nuORF nc|ENSG00000142676|P62913-2|RPL11 nc|ENSG00000142676|P62913-2|RPL11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.8157348632812 2 553.813856 1105.61316 3.4705 0.001922 -0.34771 -0.00019257 3.1227 0.0017294 553.8137208616799 37.396 0.22582 38.026 37.889 38.115 0.62999 16 7 3 0 0 0 0.025135 1 17113 17113 61.602 11.669 1 756220 7833 3326 4989 5006 9191 9191 0.06457701023077789 GLKWRRTTE 9 Unmodified _GLKWRRTTE_ 0 0 0 REV__nc|ENSG00000163703|Q96HD1-2|CRELD1 REV__nc|ENSG00000163703|Q96HD1-2|CRELD1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.5694274902344 3 382.884123 1145.63054 2.881 0.0011031 -1.1197 -0.00042872 1.7613 0.00067436 383.218015397142 20.647 0.037121 21.301 21.271 21.308 0.65345 5 3 2 0 0 0 0.11267 1 9365 9365 2.7352 1.9587 1 41944 + 7834 18009 4990 5007 9192 9192 0.06355041348729173 GLLCVWRSGPE 11 Unmodified _GLLCVWRSGPE_ 0 0 0 ENST00000468778.5_1_2:74650926-74652825:+|nuORF;ENSG00000005448|ENST00000348227|WDR54;nc|ENSG00000005448|Q9H977-4|WDR54;ENST00000482605.1_1_2:74652007-74652103:+|nuORF;nc|ENSG00000005448|Q9H977-3|WDR54 ENST00000468778.5_1_2:74650926-74652825:+|nuORF ENST00000468778.5_1_2:74650926-74652825:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 609.2099609375 2 608.81079 1215.60703 NaN NaN NaN NaN NaN NaN NaN 96.846 1 96.846 96.346 97.346 0 0 0 0 1.0034 1 52531 52531 6.2058 0.47393 1 7835 330 4991 5008 9193 9193 0.007848595199448027 GLLELLKLLK 10 Unmodified _GLLELLKLLK_ 0 0 0 REV__DDX46|p.F606L|1|0.24|ENSG00000145833|chr5:134796014-134796014|C/A|missense_variant REV__DDX46|p.F606L|1|0.24|ENSG00000145833|chr5:134796014-134796014|C/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.1414794921875 2 570.391742 1138.76893 NaN NaN NaN NaN NaN NaN NaN 96.402 1 96.402 95.902 96.902 0 0 0 0 1.0001 1 52161 52161 1.6526 0.17072 1 + 7836 10123 4992 5009 9194 9194 0.20509771544516298 GLLGYLLFRYK 11 Unmodified _GLLGYLLFRYK_ 0 0 0 REV__nc|ENSG00000168477|P22105-1|TNXB REV__nc|ENSG00000168477|P22105-1|TNXB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 672.3845825195312 2 671.897723 1341.78089 NaN NaN NaN NaN NaN NaN NaN 88.753 1 88.753 88.253 89.253 0 0 0 0 1.0057 1 46144 46144 3.2813 0.28607 1 + 7837 13350 4993 5010 9195 9195 0.12367388287702852 GLLKKKIKII 10 Unmodified _GLLKKKIKII_ 0 0 0 Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|37|2|sense Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|37|2|sense Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|37|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.3685913085938 2 577.423377 1152.8322 NaN NaN NaN NaN NaN NaN NaN 98.613 1 98.913 98.413 99.413 0.29987 0 0 0 0.99983 1 45458 45458 1.8442 0.19162 1 7838 9391 4994 5011 9196 9196 0.26189757052407003 GLLKYFKKQ 9 Unmodified _GLLKYFKKQ_ 0 0 0 chr9:124313985-124326330|112|12.0|0.23|5.72|+|0|NEK6,NEK6|1 chr9:124313985-124326330|112|12.0|0.23|5.72|+|0|NEK6,NEK6|1 chr9:124313985-124326330|112|12.0|0.23|5.72|+|0|NEK6,NEK6|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.871337890625 2 562.844959 1123.67537 NaN NaN NaN NaN NaN NaN NaN 98.429 1 98.729 98.229 99.229 0.29987 0 0 0 0.82031 1 45335 45335 8.5933 1.8701 1 7839 192 4995 5012 9197 9197 0.11847472162094164 GLLLIKVLRKV 11 Unmodified _GLLLIKVLRKV_ 0 0 0 REV__ENSG00000120063|ENST00000439174|GNA13 REV__ENSG00000120063|ENST00000439174|GNA13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 626.4896850585938 2 626.447383 1250.88021 NaN NaN NaN NaN NaN NaN NaN 92.817 1 92.903 92.403 93.403 0.086212 0 0 0 1.0071 1 48480 48480 1.4819 1.4819 1 + 7840 11528 4996 5013 9198 9198 0.264808309724458 GLLLKILSK 9 Unmodified _GLLLKILSK_ 0 0 0 REV__nc|ENSG00000144554|Q9BXW9-4|FANCD2 REV__nc|ENSG00000144554|Q9BXW9-4|FANCD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.8362121582031 2 492.844428 983.674303 NaN NaN NaN NaN NaN NaN NaN 87.237 1 87.277 86.777 87.777 0.039955 0 0 0 0.86044 1 44112 44112 7.2892 1.5288 1 + 7841 12406 4997 5014 9199 9199 0.181812577931737 GLLLMLWIPGI 11 Unmodified _GLLLMLWIPGI_ 0 0 0 REV__nc|ENSG00000006576|Q8N3S3-7|PHTF2 REV__nc|ENSG00000006576|Q8N3S3-7|PHTF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.375244140625 2 613.372495 1224.73044 NaN NaN NaN NaN NaN NaN NaN 66.694 1 66.944 66.444 67.444 0.2501 0 0 0 1.0055 1 30553 30553 3.5965 0.31518 1 + 7842 10191 4998 5015 9200 9200 0.12706142638330675 GLLLPVLLPRL 11 Unmodified _GLLLPVLLPRL_ 0 0 0 ENSG00000003393|ENST00000264276|ALS2 ENSG00000003393|ENST00000264276|ALS2 ENSG00000003393|ENST00000264276|ALS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 602.4132080078125 2 602.413009 1202.81146 NaN NaN NaN NaN NaN NaN NaN 100.93 1 100.93 100.43 101.43 0 0 0 0 1.008 1 55772 55772 0.35063 0 1 7843 307 4999 5016 9201 9201 0.21817166672735766 GLLLVVLLLTK 11 Unmodified _GLLLVVLLLTK_ 0 0 0 REV__ENST00000531745.1_1_11:68029115-68030737:-|nuORF REV__ENST00000531745.1_1_11:68029115-68030737:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.4797973632812 2 591.415217 1180.81588 NaN NaN NaN NaN NaN NaN NaN 93.66 1 93.66 93.16 94.16 0 0 0 0 1.0071 1 50048 50048 1.4819 1.4819 1 + 7844 13470 5000 5017 9202 9202 0.23270631095647332 GLLLWHTRTHL 11 Unmodified _GLLLWHTRTHL_ 0 0 0 REV__CSGALNACT2|p.K238*|1|0.17|ENSG00000169826|chr10:43158758-43158759|-/T|frameshift_variant REV__CSGALNACT2|p.K238*|1|0.17|ENSG00000169826|chr10:43158758-43158759|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 673.8910522460938 2 673.888221 1345.76189 NaN NaN NaN NaN NaN NaN NaN 92.59 1 92.59 92.09 93.09 0 0 0 0 0.78256 1 49239 49239 21.537 12.154 1 + 7845 10113 5001 5018 9203 9203 0.10283851716644676 GLLPATQEKPR 11 Unmodified _GLLPATQEKPR_ 0 0 0 REV__ENST00000351773.7_1_10:38384123-38384379:+|nuORF REV__ENST00000351773.7_1_10:38384123-38384379:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 605.3509521484375 2 605.351137 1208.68772 NaN NaN NaN NaN NaN NaN NaN 90.991 1 91.067 90.567 91.567 0.075279 0 0 0 0.97845 1 47030 47030 8.7454 0.58988 1 + 7846 15524 5002 5019 9204 9204 0.09172463834443079 GLLPLRRHKVI 11 Unmodified _GLLPLRRHKVI_ 0 0 0 ENST00000230990.6_1_5:139713740-139714264:-|nuORF ENST00000230990.6_1_5:139713740-139714264:-|nuORF ENST00000230990.6_1_5:139713740-139714264:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 651.8317260742188 2 651.430056 1300.84556 NaN NaN NaN NaN NaN NaN NaN 96.313 1 96.389 95.889 96.889 0.076538 0 0 0 1.0071 1 51144 51144 1.4819 0 1 7847 6444 5003 5020 9205 9205 0.20717007884331906 GLLQRRRKWR 10 Unmodified _GLLQRRRKWR_ 0 0 0 ENSG00000142182|ENST00000628202|DNMT3L;nc|ENSG00000142182|Q9UJW3-2|DNMT3L ENSG00000142182|ENST00000628202|DNMT3L ENSG00000142182|ENST00000628202|DNMT3L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.9527587890625 3 456.953094 1367.83745 NaN NaN NaN NaN NaN NaN NaN 9.5112 1 9.5112 9.0112 10.011 0 0 0 0 1.0015 1 4280 4280 0.15932 0.064481 1 7848 3297 5004 5021 9206 9206 0.16824873687573927 GLLQRRRKWRS 11 Unmodified _GLLQRRRKWRS_ 0 0 0 ENSG00000142182|ENST00000628202|DNMT3L;nc|ENSG00000142182|Q9UJW3-2|DNMT3L ENSG00000142182|ENST00000628202|DNMT3L ENSG00000142182|ENST00000628202|DNMT3L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 728.5180053710938 2 728.442018 1454.86948 NaN NaN NaN NaN NaN NaN NaN 102.69 1 102.74 102.24 103.24 0.055092 0 0 0 1.0055 1 55734 55734 3.5965 0.31518 1 7849 3297 5005 5022 9207 9207 0.16024241370723757 GLLRRRKVLPP 11 Unmodified _GLLRRRKVLPP_ 0 0 0 REV__ENSG00000198883|ENST00000535214|PNMA5 REV__ENSG00000198883|ENST00000535214|PNMA5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 652.7241821289062 2 652.935506 1303.85646 NaN NaN NaN NaN NaN NaN NaN 94.025 1 94.111 93.611 94.611 0.086212 0 0 0 1.0071 1 49378 49378 1.4819 0 1 + 7850 14375 5006 5023 9208 9208 0.21668410258644144 GLLRRRPRWPR 11 Unmodified _GLLRRRPRWPR_ 0 0 0 REV__ENST00000262435.13_1_17:62658063-62658153:-|nuORF REV__ENST00000262435.13_1_17:62658063-62658153:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 731.9497680664062 2 731.952553 1461.89055 NaN NaN NaN NaN NaN NaN NaN 85.921 1 85.921 85.421 86.421 0 0 0 0 1.0071 1 43890 43890 1.4819 0.15237 1 + 7851 14983 5007 5024 9209 9209 0.1780825147025098 GLLRRRPRWPR 11 Unmodified _GLLRRRPRWPR_ 0 0 0 REV__ENST00000262435.13_1_17:62658063-62658153:-|nuORF REV__ENST00000262435.13_1_17:62658063-62658153:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 732.1307983398438 2 731.952553 1461.89055 NaN NaN NaN NaN NaN NaN NaN 87.028 1 87.068 86.568 87.568 0.039955 0 0 0 1.008 1 43944 43944 0.35063 0 1 + 7852 14983 5007 5024 9210 9210 0.1780825147025098 GLLRSFFRRRR 11 Unmodified _GLLRSFFRRRR_ 0 0 0 nc|ENSG00000196730|P53355-2|DAPK1;nc|ENSG00000196730|P53355-4|DAPK1;ENSG00000196730|ENST00000408954|DAPK1;nc|ENSG00000196730|P53355-3|DAPK1 nc|ENSG00000196730|P53355-2|DAPK1 nc|ENSG00000196730|P53355-2|DAPK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 732.4263305664062 2 732.44456 1462.87457 NaN NaN NaN NaN NaN NaN NaN 94.385 1 94.385 93.885 94.885 0 0 0 0 1.0071 1 50615 50615 1.4819 0.15237 1 7853 5774 5008 5025 9211 9211 0.16164545233345962 GLLSLEKRRL 10 Unmodified _GLLSLEKRRL_ 0 0 0 ENST00000379987.6_1_4:106891525-106891783:+|nuORF ENST00000379987.6_1_4:106891525-106891783:+|nuORF ENST00000379987.6_1_4:106891525-106891783:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 592.876220703125 2 592.877322 1183.74009 NaN NaN NaN NaN NaN NaN NaN 95.84 1 95.84 95.34 96.34 0 0 0 0 1.0001 1 51722 51722 1.6526 0.17072 1 7854 7461 5009 5026 9212 9212 0.15557046968092436 GLLSLSKKRPL 11 Unmodified _GLLSLSKKRPL_ 0 0 0 ENST00000524501.1_1_11:89867926-89868807:+|nuORF ENST00000524501.1_1_11:89867926-89868807:+|nuORF ENST00000524501.1_1_11:89867926-89868807:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.7831420898438 2 606.395348 1210.77614 NaN NaN NaN NaN NaN NaN NaN 90.466 1 90.541 90.041 91.041 0.075279 0 0 0 1.0057 1 46625 46625 3.2813 0 1 7855 8663 5010 5027 9213 9213 0.1791850414495002 GLLSRLPAPC 10 Unmodified _GLLSRLPAPC_ 0 0 0 REV__nc|ENSG00000087495|Q96KR7-4|PHACTR3 REV__nc|ENSG00000087495|Q96KR7-4|PHACTR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.7926635742188 2 513.791869 1025.56919 NaN NaN NaN NaN NaN NaN NaN 40.227 1 40.493 39.993 40.993 0.26696 0 0 0 0.99776 1 18302 18302 3.5965 1.2938 1 + 7856 17874 5011 5028 9214 9214 0.05742393325112971 GLLTKQPLGKV 11 Unmodified _GLLTKQPLGKV_ 0 0 0 REV__ENSG00000167895|ENST00000318430|TMC8 REV__ENSG00000167895|ENST00000318430|TMC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.369140625 2 577.368798 1152.72304 NaN NaN NaN NaN NaN NaN NaN 98.288 1 98.887 98.387 99.387 0.59885 0 0 0 1.0059 1 45298 45298 2.9952 0.93549 1 + 7857 13313 5012 5029 9215 9215 0.1527912636227029 GLLTVFSLRFL 11 Unmodified _GLLTVFSLRFL_ 0 0 0 ENST00000480367.1_1_7:154677243-154681360:+|nuORF ENST00000480367.1_1_7:154677243-154681360:+|nuORF ENST00000480367.1_1_7:154677243-154681360:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.3876953125 2 633.384448 1264.75434 3.594 0.0022764 1.3935 0.00088262 4.9875 0.003159 633.3851266407678 46.588 0.46846 46.588 46.407 46.876 0 31 18 2 0 0 0 0.89309 1 21402 21402 2.7352 0 1 1095900 7858 8276 5013 5030 9216 9216 0.13255699396381715 GLLVRRRKKK 10 Unmodified _GLLVRRRKKK_ 0 0 0 ENST00000533560.5_1_6:130339750-130343411:+|nuORF ENST00000533560.5_1_6:130339750-130343411:+|nuORF ENST00000533560.5_1_6:130339750-130343411:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 627.5221557617188 2 627.435673 1252.85679 NaN NaN NaN NaN NaN NaN NaN 97.1 1 97.702 97.202 98.202 0.6019 0 0 0 1.0015 1 44646 44646 0.45834 0 1 7859 8747 5014 5031 9217 9217 0.24047829978485424 GLLWRPRFRC 10 Unmodified _GLLWRPRFRC_ 0 0 0 REV__ENST00000332783.11_1_15:101152449-101152524:+|nuORF REV__ENST00000332783.11_1_15:101152449-101152524:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 652.3659057617188 2 652.363859 1302.71316 NaN NaN NaN NaN NaN NaN NaN 81.962 1 82.622 82.122 83.122 0.65998 0 0 0 1.0001 1 37766 37766 1.6526 0.32309 1 + 7860 15391 5015 5032 9218 9218 0.07391659875906953 GLLWWWWCCC 10 Unmodified _GLLWWWWCCC_ 0 0 0 ENSG00000144583|ENST00000273067|MARCHF4 ENSG00000144583|ENST00000273067|MARCHF4 ENSG00000144583|ENST00000273067|MARCHF4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 678.2793579101562 2 678.279757 1354.54496 NaN NaN NaN NaN NaN NaN NaN 21.548 1 21.548 21.048 22.048 0 0 0 0 1.0015 1 9650 9650 0.45834 0 1 7861 3435 5016 5033 9219 9219 -0.11812906424415814 GLMKGKHYYE 10 Unmodified _GLMKGKHYYE_ 0 0 0 ENSG00000079785|ENST00000233084|DDX1;nc|ENSG00000079785|Q92499-2|DDX1 ENSG00000079785|ENST00000233084|DDX1 ENSG00000079785|ENST00000233084|DDX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.3988037109375 2 613.305341 1224.59613 NaN NaN NaN NaN NaN NaN NaN 90.397 1 90.472 89.972 90.972 0.075279 0 0 0 0.99225 1 46572 46572 6.7232 0 1 7862 898 5017 5034 9220 9220 -0.00718542854383486 GLMRMQFWKKT 11 Unmodified _GLMRMQFWKKT_ 0 0 0 ENST00000520632.5_1_8:96044323-96048661:+|nuORF;ENST00000518608.5_1_8:96037415-96056782:+|nuORF;nc|ENSG00000156170|Q330K2-2|NDUFAF6;ENSG00000156170|ENST00000396124|NDUFAF6 ENST00000520632.5_1_8:96044323-96048661:+|nuORF ENST00000520632.5_1_8:96044323-96048661:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 713.381103515625 2 713.378317 1424.74208 NaN NaN NaN NaN NaN NaN NaN 96.31 1 96.387 95.887 96.887 0.076538 0 0 0 1.0059 1 51143 51143 2.9952 0.49676 1 7863 3898 5018 5035 9221 9221 0.04670016390014098 GLNDWDLWFYF 11 Unmodified _GLNDWDLWFYF_ 0 0 0 REV__SLC35G2|p.T290Yfs*59|1|0.04|ENSG00000168917|chr3:136855324-136855325|-/T|frameshift_variant REV__SLC35G2|p.T290Yfs*59|1|0.04|ENSG00000168917|chr3:136855324-136855325|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.55902099609375 3 492.559194 1474.65575 NaN NaN NaN NaN NaN NaN NaN 60.341 1 60.341 59.841 60.841 0 0 0 0 1.0082 1 27995 27995 0.094841 0 1 + 7864 18211 5019 5036 9222 9222 -0.06258948639356277 GLNHIEQDQY 10 Unmodified _GLNHIEQDQY_ 0 0 0 REV__ENST00000444431.1_1_10:88754657-88759349:+|nuORF REV__ENST00000444431.1_1_10:88754657-88759349:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 608.7859497070312 2 608.783284 1215.55202 NaN NaN NaN NaN NaN NaN NaN 107.38 1 107.38 106.88 107.88 0 0 0 0 1.0001 1 58900 58900 1.6526 0.17072 1 + 7865 16279 5020 5037 9223 9223 -0.04713855746990703 GLPAKMRIRL 10 Unmodified _GLPAKMRIRL_ 0 0 0 nc|ENSG00000138079|Q07837-4|SLC3A1;nc|ENSG00000138079|Q07837-2|SLC3A1;ENSG00000138079|ENST00000260649|SLC3A1 nc|ENSG00000138079|Q07837-4|SLC3A1 nc|ENSG00000138079|Q07837-4|SLC3A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.8201904296875 2 577.86316 1153.71177 NaN NaN NaN NaN NaN NaN NaN 97.813 1 98.412 97.912 98.912 0.59885 0 0 0 0.99225 1 45011 45011 6.7232 1.9672 1 7866 3069 5021 5038 9224 9224 0.14106025787123144 GLPAKVWGI 9 Unmodified _GLPAKVWGI_ 0 0 0 ENST00000354179.8_2_5:176721804-176722098:+|nuORF ENST00000354179.8_2_5:176721804-176722098:+|nuORF ENST00000354179.8_2_5:176721804-176722098:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.7851257324219 2 470.78437 939.554188 2.9857 0.0014056 -0.64627 -0.00030425 2.3394 0.0011014 470.7839682148911 39.989 0.44447 40.256 40.071 40.515 0.26696 45 17 3 0 0 0 0.12301 1 18176 18176 28.487 0 1 13056000 7867 7141 5022 5039 9225 9225 0.081992695194117 GLPEPVLRKVE 11 Unmodified _GLPEPVLRKVE_ 0 0 0 nc|ENSG00000105364|Q9BYD3-2|MRPL4;ENSG00000105364|ENST00000253099|MRPL4;ENST00000588963.1_1_19:10363075-10363378:+|nuORF;ENST00000592071.1_1_19:10363204-10365325:+|nuORF nc|ENSG00000105364|Q9BYD3-2|MRPL4 nc|ENSG00000105364|Q9BYD3-2|MRPL4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 412.91619873046875 3 412.915201 1235.72377 2.7334 0.0011287 0.14677 6.0605E-05 2.8802 0.0011893 412.91516628052926 26.892 0.16549 27.671 27.604 27.769 0.7787 27 11 3 0 0 0 0.26146 1 12068 12068 16.275 7.8302 1 1019300 7868 1488 5023 5040 9226 9226 0.11533921011300663 GLPEPVLRKVE 11 Unmodified _GLPEPVLRKVE_ 0 0 0 nc|ENSG00000105364|Q9BYD3-2|MRPL4;ENSG00000105364|ENST00000253099|MRPL4;ENST00000588963.1_1_19:10363075-10363378:+|nuORF;ENST00000592071.1_1_19:10363204-10365325:+|nuORF nc|ENSG00000105364|Q9BYD3-2|MRPL4 nc|ENSG00000105364|Q9BYD3-2|MRPL4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.9165344238281 3 412.915201 1235.72377 2.858 0.0011801 -0.032576 -1.3451E-05 2.8255 0.0011667 412.9151961321835 27.643 0.22947 27.905 27.803 28.033 0.26245 35 14 3 0 0 0 0.61022 2 12547 12547;12598 12.228 7.1801 1 771410 7869 1488 5023 5040 9227;9228 9227 0.11533921011300663 GLPEPVLRKVE 11 Unmodified _GLPEPVLRKVE_ 0 0 0 nc|ENSG00000105364|Q9BYD3-2|MRPL4;ENSG00000105364|ENST00000253099|MRPL4;ENST00000588963.1_1_19:10363075-10363378:+|nuORF;ENST00000592071.1_1_19:10363204-10365325:+|nuORF nc|ENSG00000105364|Q9BYD3-2|MRPL4 nc|ENSG00000105364|Q9BYD3-2|MRPL4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 412.915201 1235.72377 2.9839 0.0012321 0.087429 3.6101E-05 3.0713 0.0012682 412.91515899991333 27.893 0.21492 27.893 27.789 28.004 0 0.061395 -1.5023E-05 NaN 16.275 43 16 3 NaN NaN NaN NaN 0 NaN NaN 0 874700 7870 1488 5023 5040 0.11533921011300663 GLPGKRLLLS 10 Unmodified _GLPGKRLLLS_ 0 0 0 REV__ENST00000601870.1_3_19:7598512-7599667:+|nuORF REV__ENST00000601870.1_3_19:7598512-7599667:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.8985290527344 3 351.897481 1052.67061 NaN NaN NaN NaN NaN NaN NaN 25.819 1 26.087 25.587 26.587 0.26777 0 0 0 0.99807 1 11723 11723 3.3196 0.3244 1 + 7871 15012 5024 5041 9229 9229 0.1463858801932929 GLPKPCLP 8 Unmodified _GLPKPCLP_ 0 0 0 ENSG00000135451|ENST00000257909|TROAP ENSG00000135451|ENST00000257909|TROAP ENSG00000135451|ENST00000257909|TROAP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 824.5941162109375 1 824.469872 823.462595 3.3488 0.002761 2.7698 0.0022836 6.1186 0.0050446 824.4749753130502 95.393 0.16277 95.393 95.267 95.429 0 24 17 2 0 0 0 0.13853 1 51272 51272 10.183 3.8293 1 8370200 7872 2874 5025 5042 9230 9230 0.043802628305684266 GLPKPWEERRK 11 Unmodified _GLPKPWEERRK_ 0 0 0 nc|ENSG00000259956|Q8NDT2-2|RBM15B;ENSG00000259956|ENST00000563281|RBM15B nc|ENSG00000259956|Q8NDT2-2|RBM15B nc|ENSG00000259956|Q8NDT2-2|RBM15B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 698.4989013671875 2 698.39641 1394.77827 NaN NaN NaN NaN NaN NaN NaN 90.386 1 90.386 89.886 90.886 0 0 0 0 1.0057 1 47486 47486 3.2813 1.6287 1 7873 6303 5026 5043 9231 9231 0.09666932882714718 GLPLLTNAPK 10 Unmodified _GLPLLTNAPK_ 0 0 0 REV__ADAMTS12|p.Q1343Hfs*4|1|0.49|ENSG00000151388|chr5:33561122-33561123|TC/-|frameshift_variant REV__ADAMTS12|p.Q1343Hfs*4|1|0.49|ENSG00000151388|chr5:33561122-33561123|TC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.3115234375 2 512.313492 1022.61243 NaN NaN NaN NaN NaN NaN NaN 102.22 1 102.28 101.78 102.78 0.057198 0 0 0 0.99774 1 55503 55503 3.5965 0.70727 1 + 7874 9924 5027 5044 9232 9232 0.10202906374024678 GLPPLILVLLP 11 Unmodified _GLPPLILVLLP_ 0 0 0 ENST00000521323.1_1_8:79710258-79717217:-|nuORF;nc|ENSG00000104432|P13232-2|IL7;ENSG00000104432|ENST00000263851|IL7 ENST00000521323.1_1_8:79710258-79717217:-|nuORF ENST00000521323.1_1_8:79710258-79717217:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 572.8906860351562 2 572.888835 1143.76312 NaN NaN NaN NaN NaN NaN NaN 14.247 1 14.247 13.747 14.747 0 0 0 0 1.008 1 6272 6272 0.35063 0 1 7875 1439 5028 5045 9233 9233 0.19698673032849 GLPPRTRVLL 10 Unmodified _GLPPRTRVLL_ 0 0 0 REV__ENST00000592284.5_1_19:55593146-55593922:+|nuORF REV__ENST00000592284.5_1_19:55593146-55593922:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.1276245117188 2 561.361308 1120.70806 NaN NaN NaN NaN NaN NaN NaN 99.469 1 100.07 99.566 100.57 0.59748 0 0 0 0.99774 1 45998 45998 3.5965 1.2938 1 + 7876 17591 5029 5046 9234 9234 0.15253679284933241 GLPSNEPIQVK 11 Unmodified _GLPSNEPIQVK_ 0 0 0 REV__ENSG00000272674|ENST00000609684|PCDHB16 REV__ENSG00000272674|ENST00000609684|PCDHB16 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.3350219726562 2 591.32987 1180.64519 NaN NaN NaN NaN NaN NaN NaN 97.342 1 97.342 96.842 97.842 0 0 0 0 1.0038 1 52960 52960 5.7319 0 1 + 7877 14720 5030 5047 9235 9235 0.06209068706198195 GLPSTALLHLA 11 Unmodified _GLPSTALLHLA_ 0 0 0 ENST00000334512.9_1_10:81073174-81073993:+|nuORF ENST00000334512.9_1_10:81073174-81073993:+|nuORF ENST00000334512.9_1_10:81073174-81073993:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.82666015625 2 546.824224 1091.63389 NaN NaN NaN NaN NaN NaN NaN 87.758 1 87.798 87.298 88.298 0.039955 0 0 0 0.97175 1 44520 44520 9.3831 0.035688 1 7878 7019 5031 5048 9236 9236 0.09174291402769086 GLPSVFDEYKR 11 Unmodified _GLPSVFDEYKR_ 0 0 0 chr2:69817057-69818599|211|18.0|0.72|4.63|+|2|None,ANXA4|1 chr2:69817057-69818599|211|18.0|0.72|4.63|+|2|None,ANXA4|1 chr2:69817057-69818599|211|18.0|0.72|4.63|+|2|None,ANXA4|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 656.3432006835938 2 655.840602 1309.66665 3.4739 0.0022783 2.7298 0.0017903 6.2037 0.0040686 656.3436934713629 47.149 0.1977 47.149 47.054 47.252 0 14 10 2 0 0 0 0.82535 1 21578 21578 5.7319 0 1 1867900 7879 166 5032 5049 9237 9237 0.02420453734930561 GLQCHACDCDS 11 Unmodified _GLQCHACDCDS_ 0 0 0 ENSG00000172037|ENST00000305544|LAMB2 ENSG00000172037|ENST00000305544|LAMB2 ENSG00000172037|ENST00000305544|LAMB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.9989624023438 2 576.199358 1150.38416 NaN NaN NaN NaN NaN NaN NaN 92.954 1 93.04 92.54 93.54 0.086212 0 0 0 1.0057 1 48580 48580 3.2813 1.2216 1 7880 4852 5033 5050 9238 9238 -0.1850132559911799 GLQEFPFP 8 Unmodified _GLQEFPFP_ 0 0 0 REV__nc|ENSG00000272886|Q9NPI6-2|DCP1A REV__nc|ENSG00000272886|Q9NPI6-2|DCP1A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 934.4059448242188 1 934.466895 933.459619 3.3184 0.0031009 1.7606 0.0016452 5.0789 0.0047461 934.4704337743427 95.176 0.13266 95.176 95.076 95.209 0 28 16 2 0 0 0 0.13057 1 51139 51139 5.7604 0 1 15920000 + 7881 14721 5034 5051 9239 9239 -0.00977289022569039 GLQEFPFP 8 Unmodified _GLQEFPFP_ 0 0 0 REV__nc|ENSG00000272886|Q9NPI6-2|DCP1A REV__nc|ENSG00000272886|Q9NPI6-2|DCP1A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 934.466895 933.459619 2.4646 0.0023031 2.9897 0.0027938 5.4543 0.0050969 934.4706531913602 95.239 0.17749 95.321 95.226 95.403 0.082008 0.072661 0.0003913 NaN 5.7604 25 19 2 NaN NaN NaN NaN 0 NaN NaN 0 19533000 + 7882 14721 5034 5051 -0.00977289022569039 GLQILISVLKY 11 Unmodified _GLQILISVLKY_ 0 0 0 ENSG00000174502|ENST00000367135|SLC26A9;nc|ENSG00000174502|Q7LBE3-2|SLC26A9 ENSG00000174502|ENST00000367135|SLC26A9 ENSG00000174502|ENST00000367135|SLC26A9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 623.631103515625 2 623.892106 1245.76966 NaN NaN NaN NaN NaN NaN NaN 90.225 1 90.289 89.789 90.789 0.064346 0 0 0 1.0061 1 46440 46440 2.7352 1.0826 1 7883 4982 5035 5052 9240 9240 0.15660566193560044 GLQKPKYKI 9 Unmodified _GLQKPKYKI_ 0 0 0 REV__SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant REV__SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 358.8949279785156 3 358.893848 1073.65972 2.675 0.00096004 -0.075948 -2.7257E-05 2.599 0.00093278 358.89391145012274 17.817 0.21694 17.817 17.714 17.931 0 27 13 3 0 0 0 0.54955 1 7917 7917 7.609 4.8738 1 249340 + 7884 12008 5036 5053 9241 9241 0.12583185645030426 GLQLLGYFLAL 11 Unmodified _GLQLLGYFLAL_ 0 0 0 nc|ENSG00000164007|Q8N6F1-2|CLDN19;nc|ENSG00000164007|Q8N6F1-3|CLDN19;ENSG00000164007|ENST00000296387|CLDN19 nc|ENSG00000164007|Q8N6F1-2|CLDN19 nc|ENSG00000164007|Q8N6F1-2|CLDN19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 604.3598022460938 2 604.357899 1206.70125 NaN NaN NaN NaN NaN NaN NaN 101.08 1 101.14 100.64 101.64 0.059723 0 0 0 1.0034 1 54882 54882 6.2058 0.9089 1 7885 4271 5037 5054 9242 9242 0.10616321613701984 GLQVARGM 8 Unmodified _GLQVARGM_ 0 0 0 nc|ENSG00000164078|Q04912-7|MST1R;nc|ENSG00000164078|Q04912-2|MST1R;ENSG00000164078|ENST00000296474|MST1R nc|ENSG00000164078|Q04912-7|MST1R nc|ENSG00000164078|Q04912-7|MST1R MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 416.2294921875 2 416.228905 830.443257 2.8974 0.001206 1.5873 0.00066068 4.4847 0.0018667 416.22804428842994 27.144 0.33122 27.409 27.216 27.547 0.26489 46 22 3 0 0 0 0.69414 2 12362 12308;12362 6.3541 0 1 762940 7886 4282 5038 5055 9243;9244 9244 0.02125306539687699 GLQVARGM 8 Unmodified _GLQVARGM_ 0 0 0 nc|ENSG00000164078|Q04912-7|MST1R;nc|ENSG00000164078|Q04912-2|MST1R;ENSG00000164078|ENST00000296474|MST1R nc|ENSG00000164078|Q04912-7|MST1R nc|ENSG00000164078|Q04912-7|MST1R MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 416.2294921875 2 416.228905 830.443257 2.8832 0.0012001 1.273 0.00052987 4.1562 0.0017299 416.2280571964576 26.739 0.31342 27.361 27.211 27.525 0.62179 48 23 3 0 0 0 0.69414 2 12236 12236;12287 6.3541 0 1 762870 7887 4282 5038 5055 9245;9246 9245 0.02125306539687699 GLRAALGLLL 10 Unmodified _GLRAALGLLL_ 0 0 0 REV__ENST00000483055.1_1_9:135116842-135117495:+|nuORF REV__ENST00000483055.1_1_9:135116842-135117495:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 332.89111328125 3 332.890327 995.649151 2.346 0.00078095 0.3901 0.00012986 2.7361 0.00091081 332.8903785480255 36.575 0.72115 37.368 36.927 37.648 0.79342 75 33 4 0 0 0 0.24407 1 16580 16580 28.495 0 1 2103500 + 7888 14206 5039 5056 9247 9247 0.15115202990614307 GLRAALGLLL 10 Unmodified _GLRAALGLLL_ 0 0 0 REV__ENST00000483055.1_1_9:135116842-135117495:+|nuORF REV__ENST00000483055.1_1_9:135116842-135117495:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.8912048339844 3 332.890327 995.649151 2.3598 0.00078554 0.60605 0.00020175 2.9658 0.00098729 332.8905030442319 36.679 0.67571 37.309 37.077 37.752 0.62999 78 27 4 0 0 0 0.24407 1 16860 16860 28.495 0 1 4811900 + 7889 14206 5039 5056 9248 9248 0.15115202990614307 GLRARLRGRKP 11 Unmodified _GLRARLRGRKP_ 0 0 0 ENST00000547315.5_2_14:105452460-105452724:+|nuORF ENST00000547315.5_2_14:105452460-105452724:+|nuORF ENST00000547315.5_2_14:105452460-105452724:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 640.3656616210938 2 640.412729 1278.8109 NaN NaN NaN NaN NaN NaN NaN 95.209 1 95.209 94.709 95.709 0 0 0 0 1.0057 1 51220 51220 3.2813 1.6287 1 7890 8851 5040 5057 9249 9249 0.18265184796246103 GLREWVTRYC 10 Unmodified _GLREWVTRYC_ 0 0 0 REV__nc|ENSG00000070610|Q9HCG7-3|GBA2 REV__nc|ENSG00000070610|Q9HCG7-3|GBA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.8203735351562 2 641.821689 1281.62883 NaN NaN NaN NaN NaN NaN NaN 84.168 1 84.168 83.668 84.668 0 0 0 0 0.96627 1 42554 42554 10.824 1.4408 1 + 7891 10479 5041 5058 9250 9250 -0.0007233573151097517 GLRFRDGL 8 Unmodified _GLRFRDGL_ 0 0 0 REV__ENST00000564294.5_1_16:2256050-2256778:+|nuORF REV__ENST00000564294.5_1_16:2256050-2256778:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 467.2680358886719 2 467.266876 932.519199 2.8515 0.0013324 -0.35214 -0.00016455 2.4993 0.0011679 467.2664285800776 33.321 0.28883 33.574 33.376 33.665 0.25389 19 12 2 0 0 0 0.59268 1 15161 15161 14.582 1.0738 1 197150 + 7892 17398 5042 5059 9251 9251 0.050240267114645576 GLRHITILKL 10 Unmodified _GLRHITILKL_ 0 0 0 ENSG00000091986|ENST00000206423|CCDC80;nc|ENSG00000091986|Q76M96-2|CCDC80 ENSG00000091986|ENST00000206423|CCDC80 ENSG00000091986|ENST00000206423|CCDC80 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.3865356445312 2 582.384783 1162.75501 NaN NaN NaN NaN NaN NaN NaN 44.734 1 45.555 45.055 46.055 0.82075 0 0 0 1.0015 1 20372 20372 0.45834 0 1 7893 1087 5043 5060 9252 9252 0.18014538836087013 GLRHPKLRIKP 11 Unmodified _GLRHPKLRIKP_ 0 0 0 REV__nc|ENSG00000171813|Q6NUJ5-2|PWWP2B REV__nc|ENSG00000171813|Q6NUJ5-2|PWWP2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 657.9283447265625 2 657.92768 1313.84081 NaN NaN NaN NaN NaN NaN NaN 99.394 1 99.456 98.956 99.956 0.062241 0 0 0 1.0071 1 53725 53725 1.4819 0 1 + 7894 13520 5044 5061 9253 9253 0.19644123741568364 GLRHRPPAGNR 11 Unmodified _GLRHRPPAGNR_ 0 0 0 REV__ENST00000568121.1_1_16:34213335-34213557:-|nuORF REV__ENST00000568121.1_1_16:34213335-34213557:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 615.9321899414062 2 615.849961 1229.68537 NaN NaN NaN NaN NaN NaN NaN 103.17 1 103.17 102.67 103.67 0 0 0 0 1.0059 1 56888 56888 2.9952 0 1 + 7895 17433 5045 5062 9254 9254 0.0797147294001661 GLRKLIFIKKK 11 Unmodified _GLRKLIFIKKK_ 0 0 0 ENSG00000184363|ENST00000331563|PKP3;nc|ENSG00000184363|Q9Y446-2|PKP3 ENSG00000184363|ENST00000331563|PKP3 ENSG00000184363|ENST00000331563|PKP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 672.6458129882812 2 672.466107 1342.91766 NaN NaN NaN NaN NaN NaN NaN 97.704 1 97.704 97.204 98.204 0 0 0 0 1.008 1 53272 53272 0.35063 0.35063 1 7896 5436 5046 5063 9255 9255 0.2599192223804039 GLRKLIFIKKK 11 Unmodified _GLRKLIFIKKK_ 0 0 0 ENSG00000184363|ENST00000331563|PKP3;nc|ENSG00000184363|Q9Y446-2|PKP3 ENSG00000184363|ENST00000331563|PKP3 ENSG00000184363|ENST00000331563|PKP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 672.4689331054688 2 672.466107 1342.91766 NaN NaN NaN NaN NaN NaN NaN 65.493 1 66.202 65.702 66.702 0.70891 0 0 0 1.008 1 30983 30983 0.35063 0.043601 1 7897 5436 5046 5063 9256 9256 0.2599192223804039 GLRKLILRLHK 11 Unmodified _GLRKLILRLHK_ 0 0 0 nc|ENSG00000085511|Q9Y6R4-2|MAP3K4;ENSG00000085511|ENST00000392142|MAP3K4 nc|ENSG00000085511|Q9Y6R4-2|MAP3K4 nc|ENSG00000085511|Q9Y6R4-2|MAP3K4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 673.9612426757812 2 673.958981 1345.90341 NaN NaN NaN NaN NaN NaN NaN 81.906 1 81.906 81.406 82.406 0 0 0 0 1.008 1 40846 40846 0.35063 0.043601 1 7898 969 5047 5064 9257 9257 0.24429269809775178 GLRKRRRKRK 10 Unmodified _GLRKRRRKRK_ 0 0 0 ENST00000318121.7_1_1:36216963-36217002:-|nuORF ENST00000318121.7_1_1:36216963-36217002:-|nuORF ENST00000318121.7_1_1:36216963-36217002:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.0916137695312 2 677.460545 1352.90654 NaN NaN NaN NaN NaN NaN NaN 88.78 1 88.832 88.332 89.332 0.052155 0 0 0 1.0001 1 45330 45330 1.6526 0.32309 1 7899 6915 5048 5065 9258 9258 0.24419957707141293 GLRKRRRKRKK 11 Unmodified _GLRKRRRKRKK_ 0 0 0 ENST00000318121.7_1_1:36216963-36217002:-|nuORF ENST00000318121.7_1_1:36216963-36217002:-|nuORF ENST00000318121.7_1_1:36216963-36217002:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 741.5077514648438 2 741.508026 1481.0015 NaN NaN NaN NaN NaN NaN NaN 63.863 1 64.578 64.078 65.078 0.71521 0 0 0 1.008 1 29973 29973 0.30703 0 1 7900 6915 5049 5066 9259 9259 0.2802389117830444 GLRKRVPLHFR 11 Unmodified _GLRKRVPLHFR_ 0 0 0 ENST00000377304.6_1_10:18940268-18940346:-|nuORF ENST00000377304.6_1_10:18940268-18940346:-|nuORF ENST00000377304.6_1_10:18940268-18940346:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 689.8782348632812 2 689.930754 1377.84696 NaN NaN NaN NaN NaN NaN NaN 42.881 1 43.695 43.195 44.195 0.81444 0 0 0 1.008 1 19496 19496 0.35063 0 1 7901 7413 5050 5067 9260 9260 0.17314641973098333 GLRLLPMLGLL 11 Unmodified _GLRLLPMLGLL_ 0 0 0 nc|ENSG00000148358|Q5VW38-3|GPR107;ENSG00000148358|ENST00000347136|GPR107;nc|ENSG00000148358|Q5VW38|GPR107 nc|ENSG00000148358|Q5VW38-3|GPR107 nc|ENSG00000148358|Q5VW38-3|GPR107 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 598.3843383789062 2 598.383394 1194.75224 3.2803 0.0019629 -0.019192 -1.1484E-05 3.2611 0.0019514 598.3826338738197 36.165 0.2238 36.165 36.072 36.296 0 27 10 3 0 0 0 0.91068 1 16403 16403 1.3295 0.87119 1 561660 7902 3602 5051 5068 9261 9261 0.16264947386912354 GLRLRLLLLLF 11 Unmodified _GLRLRLLLLLF_ 0 0 0 ENST00000536781.1_1_11:115270226-115375130:-|nuORF;nc|ENSG00000182985|Q9BY67-2|CADM1;ENST00000537140.5_1_11:115040311-115375169:-|nuORF;nc|ENSG00000182985|Q9BY67-5|CADM1;nc|ENSG00000182985|Q9BY67|CADM1;nc|ENSG00000182985|Q9BY67-4|CADM1;ENSG00000182985|ENST00000331581|CADM1 ENST00000536781.1_1_11:115270226-115375130:-|nuORF ENST00000536781.1_1_11:115270226-115375130:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.6726684570312 2 663.952833 1325.89111 NaN NaN NaN NaN NaN NaN NaN 101.2 1 101.51 101.01 102.01 0.31412 0 0 0 1.008 1 46830 46830 0.35063 0 1 7903 5358 5052 5069 9262 9262 0.24120233346752684 GLRMIRKKRK 10 Unmodified _GLRMIRKKRK_ 0 0 0 ENST00000434027.2_1_5:98106159-98115843:+|nuORF ENST00000434027.2_1_5:98106159-98115843:+|nuORF ENST00000434027.2_1_5:98106159-98115843:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 643.5137939453125 2 643.421708 1284.82886 NaN NaN NaN NaN NaN NaN NaN 87.691 1 87.731 87.231 88.231 0.039955 0 0 0 1.0001 1 44470 44470 1.6526 0.32309 1 7904 7878 5053 5070 9263 9263 0.19784183726756055 GLRPRGIRWRW 11 Unmodified _GLRPRGIRWRW_ 0 0 0 ENST00000446750.1_3_X:53707646-53710946:-|nuORF;ENST00000342160.7_2_X:53707120-53710946:-|nuORF ENST00000446750.1_3_X:53707646-53710946:-|nuORF ENST00000446750.1_3_X:53707646-53710946:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 726.9281005859375 2 726.926003 1451.83745 NaN NaN NaN NaN NaN NaN NaN 83.429 1 83.429 82.929 83.929 0 0 0 0 1.0071 1 42023 42023 1.4819 0.15237 1 7905 7080 5054 5071 9264 9264 0.12960873687575258 GLRQDRPPRWR 11 Unmodified _GLRQDRPPRWR_ 0 0 0 REV__ENST00000472949.1_2_13:77589696-77601209:-|nuORF REV__ENST00000472949.1_2_13:77589696-77601209:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 718.9033203125 2 718.902725 1435.7909 NaN NaN NaN NaN NaN NaN NaN 95.801 1 95.801 95.301 96.301 0 0 0 0 1.0057 1 51689 51689 3.2813 0.54611 1 + 7906 16621 5055 5072 9265 9265 0.0904338906564135 GLRQHRRTHSS 11 Unmodified _GLRQHRRTHSS_ 0 0 0 ENSG00000174586|ENST00000311044|ZNF497 ENSG00000174586|ENST00000311044|ZNF497 ENSG00000174586|ENST00000311044|ZNF497 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 667.4262084960938 2 667.861057 1333.70756 NaN NaN NaN NaN NaN NaN NaN 88.068 1 88.068 87.568 88.568 0 0 0 0 1.0057 1 45600 45600 3.2813 0 1 7907 4988 5056 5073 9266 9266 0.05405652617787382 GLRQLRRPLL 10 Unmodified _GLRQLRRPLL_ 0 0 0 nc|ENSG00000144406|Q8N2C7-7|UNC80;nc|ENSG00000144406|Q8N2C7|UNC80;ENSG00000144406|ENST00000673920|UNC80;nc|ENSG00000144406|Q8N2C7-5|UNC80 nc|ENSG00000144406|Q8N2C7-7|UNC80 nc|ENSG00000144406|Q8N2C7-7|UNC80 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.400634765625 2 611.398756 1220.78296 NaN NaN NaN NaN NaN NaN NaN 22.533 1 22.533 22.033 23.033 0 0 0 0 1.0015 1 10104 10104 0.45834 0 1 7908 3424 5057 5074 9267 9267 0.18139861816189295 GLRRALRRLLP 11 Unmodified _GLRRALRRLLP_ 0 0 0 REV__ENSG00000262179|ENST00000573382|MYMX REV__ENSG00000262179|ENST00000573382|MYMX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 660.94091796875 2 660.93858 1319.86261 NaN NaN NaN NaN NaN NaN NaN 60.004 1 60.004 59.504 60.504 0 0 0 0 1.0071 1 27790 27790 1.4819 0 1 + 7909 14698 5058 5075 9268 9268 0.21546928490170103 GLRRLGIFRPL 11 Unmodified _GLRRLGIFRPL_ 0 0 0 ENST00000461947.5_1_16:460332-462083:+|nuORF ENST00000461947.5_1_16:460332-462083:+|nuORF ENST00000461947.5_1_16:460332-462083:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 649.4180908203125 2 649.414406 1296.81426 NaN NaN NaN NaN NaN NaN NaN 87.698 1 87.738 87.238 88.238 0.039955 0 0 0 1.0057 1 44475 44475 3.2813 0 1 7910 8092 5059 5076 9269 9269 0.17772434850257923 GLRRRRRRARH 11 Unmodified _GLRRRRRRARH_ 0 0 0 ENSG00000165684|ENST00000684778|SNAPC4 ENSG00000165684|ENST00000684778|SNAPC4 ENSG00000165684|ENST00000684778|SNAPC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 745.4668579101562 2 745.467224 1488.9199 NaN NaN NaN NaN NaN NaN NaN 97.546 1 97.835 97.335 98.335 0.28923 0 0 0 1.008 1 44818 44818 0.35063 0.043601 1 7911 4416 5060 5077 9270 9270 0.19499208539104984 GLRRRRRRRQG 11 Unmodified _GLRRRRRRRQG_ 0 0 0 REV__ENST00000460976.5_1_10:126727718-126848581:-|nuORF REV__ENST00000460976.5_1_10:126727718-126848581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 733.65869140625 2 733.959232 1465.90391 NaN NaN NaN NaN NaN NaN NaN 105.58 1 105.58 105.08 106.08 0 0 0 0 1.008 1 58009 58009 0.35063 0.043601 1 + 7912 16488 5061 5078 9271 9271 0.18959502302186593 GLRRRWRRWRR 11 Unmodified _GLRRRWRRWRR_ 0 0 0 UNC80|p.G758Lfs*13|1|0.04|ENSG00000144406|chr2:209820618-209820619|-/ATTA|frameshift_variant UNC80|p.G758Lfs*13|1|0.04|ENSG00000144406|chr2:209820618-209820619|-/ATTA|frameshift_variant UNC80|p.G758Lfs*13|1|0.04|ENSG00000144406|chr2:209820618-209820619|-/ATTA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.9151000976562 3 552.001442 1652.9825 NaN NaN NaN NaN NaN NaN NaN 60.399 1 60.399 59.899 60.899 0 0 0 0 1.008 1 28037 28037 0.094841 0.011491 1 7913 18287 5062 5079 9272 9272 0.18212354607271664 GLRRVVLRHFR 11 Unmodified _GLRRVVLRHFR_ 0 0 0 REV__ENST00000265748.6_2_7:36429459-36435956:+|nuORF REV__ENST00000265748.6_2_7:36429459-36435956:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 705.0245361328125 2 704.941654 1407.86875 NaN NaN NaN NaN NaN NaN NaN 101.14 1 101.2 100.7 101.7 0.059723 0 0 0 1.0057 1 54918 54918 3.2813 1.7994 1 + 7914 15036 5063 5080 9273 9273 0.18113446721645232 GLRTRRRRRRR 11 Unmodified _GLRTRRRRRRR_ 0 0 0 ENST00000333602.10_1_3:195635568-195635940:-|nuORF ENST00000333602.10_1_3:195635568-195635940:-|nuORF ENST00000333602.10_1_3:195635568-195635940:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 769.9970092773438 2 769.993606 1537.97266 NaN NaN NaN NaN NaN NaN NaN 95.797 1 96.064 95.564 96.564 0.2675 0 0 0 1.008 1 44017 44017 0.35063 0.35063 1 7915 7014 5064 5081 9274 9274 0.22519166601887264 GLRWFRRFQE 10 Unmodified _GLRWFRRFQE_ 0 0 0 nc|ENSG00000251692|Q96A99-2|PTX4 nc|ENSG00000251692|Q96A99-2|PTX4 nc|ENSG00000251692|Q96A99-2|PTX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.5862731933594 3 465.586189 1393.73674 NaN NaN NaN NaN NaN NaN NaN 9.5721 1 9.8832 9.3832 10.383 0.31115 0 0 0 1.0018 1 4267 4267 0.15932 0.064481 1 7916 9851 5065 5082 9275 9275 0.05561796914093975 GLRWRLTDLC 10 Unmodified _GLRWRLTDLC_ 0 0 0 ENST00000552433.1_1_12:51449621-51449846:+|nuORF;nc|ENSG00000050426|Q6P1Q0-4|LETMD1;nc|ENSG00000050426|Q6P1Q0-2|LETMD1;ENSG00000050426|ENST00000262055|LETMD1;nc|ENSG00000050426|Q6P1Q0-7|LETMD1 ENST00000552433.1_1_12:51449621-51449846:+|nuORF ENST00000552433.1_1_12:51449621-51449846:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.8327026367188 2 616.832057 1231.64956 NaN NaN NaN NaN NaN NaN NaN 86.102 1 86.132 85.632 86.632 0.030289 0 0 0 1.0001 1 43238 43238 1.6526 0 1 7917 585 5066 5083 9276 9276 0.04300254648137525 GLRWRRRRRS 10 Unmodified _GLRWRRRRRS_ 0 0 0 REV__ENST00000507139.5_1_5:139028301-139059434:+|nuORF REV__ENST00000507139.5_1_5:139028301-139059434:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 699.9244384765625 2 699.924326 1397.8341 NaN NaN NaN NaN NaN NaN NaN 71.532 1 72.236 71.736 72.736 0.70386 0 0 0 1.0001 1 34361 34361 1.6526 0.17072 1 + 7918 15199 5067 5084 9277 9277 0.15109623633588853 GLRYRNPVSQC 11 Unmodified _GLRYRNPVSQC_ 0 0 0 ENSG00000120948|ENST00000240185|TARDBP ENSG00000120948|ENST00000240185|TARDBP ENSG00000120948|ENST00000240185|TARDBP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 646.8215942382812 2 646.830046 1291.64554 NaN NaN NaN NaN NaN NaN NaN 93.994 1 94.08 93.58 94.58 0.086212 0 0 0 1.0038 1 49359 49359 5.7319 0.43497 1 7919 2220 5068 5085 9278 9278 0.011381651544525084 GLRYWEYWQVR 11 Unmodified _GLRYWEYWQVR_ 0 0 0 ENST00000367558.5_1_1:182572378-182573464:-|nuORF ENST00000367558.5_1_1:182572378-182573464:-|nuORF ENST00000367558.5_1_1:182572378-182573464:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 778.393310546875 2 778.393867 1554.77318 NaN NaN NaN NaN NaN NaN NaN 84.436 1 84.465 83.965 84.965 0.028603 0 0 0 1.008 1 42119 42119 0.35063 0.043601 1 7920 7263 5069 5086 9279 9279 0.01798629020095177 GLSHITLRNH 10 Unmodified _GLSHITLRNH_ 0 0 0 ENST00000220597.4_1_8:81883711-81883855:-|nuORF ENST00000220597.4_1_8:81883711-81883855:-|nuORF ENST00000220597.4_1_8:81883711-81883855:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.7149047851562 2 574.320171 1146.62579 3.2056 0.001841 0.78452 0.00045057 3.9901 0.0022916 574.3209906120061 96.718 0.020348 96.718 96.703 96.723 0 4 2 2 0 0 0 0.12676 1 52414 52414 10.074 0.6908 1 10320000 7921 6420 5070 5087 9280 9280 0.058341572059816826 GLSPSDELLP 10 Unmodified _GLSPSDELLP_ 0 0 0 ENSG00000178233|ENST00000451188|TMEM151B ENSG00000178233|ENST00000451188|TMEM151B ENSG00000178233|ENST00000451188|TMEM151B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.2701416015625 2 514.268947 1026.52334 3.2099 0.0016508 -0.35477 -0.00018245 2.8552 0.0014683 514.268718040613 44.274 0.41275 44.543 44.419 44.832 0.2694 51 21 3 0 0 0 0.19461 1 20211 20211 39.957 1.7818 1 3686500 7922 5158 5071 5088 9281 9281 0.011140266238726326 GLSRKTFK 8 Unmodified _GLSRKTFK_ 0 0 0 ENST00000371471.6_1_20:52193194-52193284:-|nuORF ENST00000371471.6_1_20:52193194-52193284:-|nuORF ENST00000371471.6_1_20:52193194-52193284:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 468.7868957519531 2 468.784902 935.55525 NaN NaN NaN NaN NaN NaN NaN 9.6929 1 9.6929 9.1929 10.193 0 0 0 0 0.99035 1 4353 4353 5.7604 0 1 7923 7319 5072 5089 9282 9282 0.08489483888331506 GLSRRLFFFF 10 Unmodified _GLSRRLFFFF_ 0 0 0 REV__ENST00000352410.8_1_15:75190564-75190915:+|nuORF REV__ENST00000352410.8_1_15:75190564-75190915:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 645.361328125 2 645.361308 1288.70806 NaN NaN NaN NaN NaN NaN NaN 94.267 1 94.526 94.026 95.026 0.25975 0 0 0 1.0015 1 43319 43319 0.45834 0 1 + 7924 15526 5073 5090 9283 9283 0.07525679284913167 GLSTRLSGRSP 11 Unmodified _GLSTRLSGRSP_ 0 0 0 REV__nc|ENSG00000144283|Q99569-2|PKP4 REV__nc|ENSG00000144283|Q99569-2|PKP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.8171997070312 2 565.817461 1129.62037 NaN NaN NaN NaN NaN NaN NaN 75.453 1 75.453 74.953 75.953 0 0 0 0 0.93332 1 36973 36973 13.042 1.5478 1 + 7925 12396 5074 5091 9284 9284 0.0607443362353024 GLSVKKKKRM 10 Unmodified _GLSVKKKKRM_ 0 0 0 REV__ENSG00000182013|ENST00000313683|PNMA8A REV__ENSG00000182013|ENST00000313683|PNMA8A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.8772583007812 2 587.876268 1173.73798 NaN NaN NaN NaN NaN NaN NaN 91.738 1 91.738 91.238 92.238 0 0 0 0 0.99983 1 48555 48555 1.8442 0 1 + 7926 13869 5075 5092 9285 9285 0.15806294958611034 GLSYKAEAL 9 Unmodified _GLSYKAEAL_ 0 0 0 nc|ENSG00000185379|O75771-3|RAD51D nc|ENSG00000185379|O75771-3|RAD51D nc|ENSG00000185379|O75771-3|RAD51D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 317.84381103515625 3 317.843042 950.507297 2.1476 0.0006826 0.20895 6.6414E-05 2.3565 0.00074901 317.84312599981564 17.893 0.2607 17.893 17.686 17.947 0 31 16 3 0 0 0 0.15661 1 7908 7908 26.268 1.2772 1 461340 7927 9785 5076 5093 9286 9286 0.030063651776117695 GLSYKAEAL 9 Unmodified _GLSYKAEAL_ 0 0 0 nc|ENSG00000185379|O75771-3|RAD51D nc|ENSG00000185379|O75771-3|RAD51D nc|ENSG00000185379|O75771-3|RAD51D MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 317.843042 950.507297 2.1133 0.00067169 0.0023791 7.5619E-07 2.1156 0.00067244 317.8430039027011 17.387 0.15678 17.588 17.499 17.656 0.20057 -0.15269 -0.00012068 NaN 26.268 23 13 2 NaN NaN NaN NaN 0 NaN NaN 0 281830 7928 9785 5076 5093 0.030063651776117695 GLTRSRQPLQW 11 Unmodified _GLTRSRQPLQW_ 0 0 0 REV__ENST00000529721.5_1_11:75190388-75201776:-|nuORF REV__ENST00000529721.5_1_11:75190388-75201776:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 671.373779296875 2 671.372935 1340.73132 NaN NaN NaN NaN NaN NaN NaN 96.562 1 96.84 96.34 97.34 0.27778 0 0 0 1.0072 1 44365 44365 1.3295 0 1 + 7929 17128 5077 5094 9287 9287 0.07458073331622472 GLTSEPVNYLI 11 Unmodified _GLTSEPVNYLI_ 0 0 0 ENST00000289816.9_2_16:89806133-89806292:+|nuORF ENST00000289816.9_2_16:89806133-89806292:+|nuORF ENST00000289816.9_2_16:89806133-89806292:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 402.55340576171875 3 402.551928 1204.63395 2.8858 0.0011617 1.3448 0.00054135 4.2306 0.001703 402.5527198491437 27.669 0.26812 27.932 27.813 28.081 0.26245 34 16 3 0 0 0 0.71079 1 12601 12601 5.8681 0.46543 1 406000 7930 6733 5078 5095 9288 9288 0.03982246612099516 GLTVTGRPR 9 Unmodified _GLTVTGRPR_ 0 0 0 ANKRD34A|p.L280V|1|0.42|ENSG00000272031|chr1:145960922-145960922|G/C|missense_variant ANKRD34A|p.L280V|1|0.42|ENSG00000272031|chr1:145960922-145960922|G/C|missense_variant ANKRD34A|p.L280V|1|0.42|ENSG00000272031|chr1:145960922-145960922|G/C|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.787841796875 2 478.785433 955.556313 3.2183 0.0015409 0.18364 8.7925E-05 3.402 0.0016288 478.7853855490124 86.746 0.34213 86.996 86.88 87.222 0.24974 31 16 3 0 0 0 1.0601 1 39927 39927 2.9952 0.69251 1 1955600 7931 58 5079 5096 9289 9289 0.07675698257230579 GLVCVWRI 8 Unmodified _GLVCVWRI_ 0 0 0 ENSG00000103657|ENST00000443617|HERC1 ENSG00000103657|ENST00000443617|HERC1 ENSG00000103657|ENST00000443617|HERC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.2737121582031 2 473.270573 944.526593 NaN NaN NaN NaN NaN NaN NaN 30.513 1 31.13 30.63 31.63 0.61737 0 0 0 0.91812 1 13999 13999 11.114 1.767 1 7932 1412 5080 5097 9290 9290 0.05211042987525616 GLVIMLYVFHR 11 Unmodified _GLVIMLYVFHR_ 0 0 0 ENSG00000140443|ENST00000650285|IGF1R ENSG00000140443|ENST00000650285|IGF1R ENSG00000140443|ENST00000650285|IGF1R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 674.384521484375 2 674.383926 1346.7533 NaN NaN NaN NaN NaN NaN NaN 67.022 1 67.022 66.522 67.522 0 0 0 0 1.0034 1 32077 32077 6.2058 0.9089 1 7933 3198 5081 5098 9291 9291 0.09379161755805399 GLVLELVLPL 10 Unmodified _GLVLELVLPL_ 0 0 0 SIAE|p.G9E|1|0.27|ENSG00000110013|chr11:124673683-124673683|C/T|missense_variant SIAE|p.G9E|1|0.27|ENSG00000110013|chr11:124673683-124673683|C/T|missense_variant SIAE|p.G9E|1|0.27|ENSG00000110013|chr11:124673683-124673683|C/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.3511352539062 2 533.349543 1064.68453 NaN NaN NaN NaN NaN NaN NaN 95.391 1 95.473 94.973 95.973 0.082001 0 0 0 0.99983 1 50407 50407 1.8442 0 1 7934 18259 5082 5099 9292 9292 0.15477820727755898 GLVLLPGPGRL 11 Unmodified _GLVLLPGPGRL_ 0 0 0 REV__ENST00000394275.6_1_15:91477270-91478348:+|nuORF REV__ENST00000394275.6_1_15:91477270-91478348:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.3493041992188 2 546.350409 1090.68626 NaN NaN NaN NaN NaN NaN NaN 92.114 1 92.114 91.614 92.614 0 0 0 0 1.0034 1 48855 48855 6.2058 0.97511 1 + 7935 15963 5083 5100 9293 9293 0.14454874536386342 GLVQGTTPVLQ 11 Unmodified _GLVQGTTPVLQ_ 0 0 0 ENST00000482968.1_1_1:120282927-120286660:+|nuORF;ENSG00000092621|ENST00000641023|PHGDH ENST00000482968.1_1_1:120282927-120286660:+|nuORF ENST00000482968.1_1_1:120282927-120286660:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.81884765625 2 556.819138 1111.62372 NaN NaN NaN NaN NaN NaN NaN 44.575 1 44.575 44.075 45.075 0 0 0 0 1.0063 1 20375 20375 2.4985 0 1 7936 1100 5084 5101 9294 9294 0.07237683677522 GLVRILKLKK 10 Unmodified _GLVRILKLKK_ 0 0 0 REV__nc|ENSG00000155886|Q9UI40-2|SLC24A2 REV__nc|ENSG00000155886|Q9UI40-2|SLC24A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.4204711914062 2 584.418626 1166.8227 NaN NaN NaN NaN NaN NaN NaN 91.153 1 91.153 90.653 91.653 0 0 0 0 1.0015 1 48070 48070 0.45834 0 1 + 7937 12754 5085 5102 9295 9295 0.24595988766850496 GLVRILKLKK 10 Unmodified _GLVRILKLKK_ 0 0 0 REV__nc|ENSG00000155886|Q9UI40-2|SLC24A2 REV__nc|ENSG00000155886|Q9UI40-2|SLC24A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.42431640625 2 584.418626 1166.8227 NaN NaN NaN NaN NaN NaN NaN 95.536 1 95.536 95.036 96.036 0 0 0 0 0.99983 1 51466 51466 1.8442 0.36234 1 + 7938 12754 5085 5102 9296 9296 0.24595988766850496 GLVRQQRLRLR 11 Unmodified _GLVRQQRLRLR_ 0 0 0 ENST00000282388.3_2_2:43451527-43452328:-|nuORF ENST00000282388.3_2_2:43451527-43452328:-|nuORF ENST00000282388.3_2_2:43451527-43452328:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 697.947021484375 2 697.944393 1393.87423 NaN NaN NaN NaN NaN NaN NaN 94.781 1 94.863 94.363 95.363 0.082001 0 0 0 1.0071 1 49950 49950 1.4819 0 1 7939 6702 5086 5103 9297 9297 0.1930512551348329 GLVRRRRRYAL 11 Unmodified _GLVRRRRRYAL_ 0 0 0 ENSG00000008516|ENST00000336577|MMP25;ENST00000570755.1_1_16:3097544-3105874:+|nuORF ENSG00000008516|ENST00000336577|MMP25 ENSG00000008516|ENST00000336577|MMP25 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 708.4464721679688 2 708.44456 1414.87457 NaN NaN NaN NaN NaN NaN NaN 44.183 1 45.003 44.503 45.503 0.82075 0 0 0 1.008 1 20118 20118 0.35063 0 1 7940 380 5087 5104 9298 9298 0.1837254523336469 GLVSRLWVLYK 11 Unmodified _GLVSRLWVLYK_ 0 0 0 ENST00000472637.5_1_3:112724385-112732818:-|nuORF;ENSG00000163608|ENST00000314400|NEPRO ENST00000472637.5_1_3:112724385-112732818:-|nuORF ENST00000472637.5_1_3:112724385-112732818:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 667.33984375 2 667.403173 1332.79179 NaN NaN NaN NaN NaN NaN NaN 109.1 1 109.1 108.6 109.6 0 0 0 0 1.0057 1 59690 59690 3.2813 0 1 7941 4229 5088 5105 9299 9299 0.13870790661962928 GLVYLFARLRY 11 Unmodified _GLVYLFARLRY_ 0 0 0 ENST00000503050.5_1_5:179222787-179223024:+|nuORF;ENST00000486713.1_1_5:179221081-179223024:+|nuORF;nc|ENSG00000213316|Q16873|LTC4S ENST00000503050.5_1_5:179222787-179223024:+|nuORF ENST00000503050.5_1_5:179222787-179223024:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.89990234375 2 685.900797 1369.78704 NaN NaN NaN NaN NaN NaN NaN 57.405 1 57.405 56.905 57.905 0 0 0 0 1.0055 1 26458 26458 3.5965 0.31518 1 7942 8338 5089 5106 9300 9300 0.1169390651921276 GLWDRSLPK 9 Unmodified _GLWDRSLPK_ 0 0 0 nc|ENSG00000183117|Q96PZ7-2|CSMD1;ENSG00000183117|ENST00000635120|CSMD1 nc|ENSG00000183117|Q96PZ7-2|CSMD1 nc|ENSG00000183117|Q96PZ7-2|CSMD1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.7140197753906 3 357.869703 1070.58728 2.4418 0.00087384 1.2559 0.00044944 3.6977 0.0013233 358.2049197463546 27.974 0.047729 28.594 28.553 28.601 0.61947 4 2 2 0 0 0 0.1026 1 12810 12810 4.5289 0 1 63385 7943 5364 5090 5107 9301 9301 0.054808515714512396 GLWHHHWWLHQ 11 Unmodified _GLWHHHWWLHQ_ 0 0 0 REV__ENST00000505325.1_1_5:60642967-60643258:+|nuORF REV__ENST00000505325.1_1_5:60642967-60643258:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 768.759765625 2 768.873437 1535.73232 NaN NaN NaN NaN NaN NaN NaN 82.407 1 82.491 81.991 82.991 0.084106 0 0 0 1.0079 1 40706 40706 1.4819 1.1313 1 + 7944 16920 5091 5108 9302 9302 -0.014116675088189368 GLWLLSLRLLR 11 Unmodified _GLWLLSLRLLR_ 0 0 0 REV__ENSG00000120210|ENST00000381641|INSL6 REV__ENSG00000120210|ENST00000381641|INSL6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.7178955078125 2 670.432264 1338.84998 NaN NaN NaN NaN NaN NaN NaN 104.17 1 104.22 103.72 104.72 0.052994 0 0 0 1.008 1 56419 56419 0.30703 0.03801 1 + 7945 11532 5092 5109 9303 9303 0.19410472307254167 GLWNGCEYF 9 Unmodified _GLWNGCEYF_ 0 0 0 ENSG00000165810|ENST00000327705|BTNL9 ENSG00000165810|ENST00000327705|BTNL9 ENSG00000165810|ENST00000327705|BTNL9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.892578125 2 544.728935 1087.44332 NaN NaN NaN NaN NaN NaN NaN 93.973 1 94.059 93.559 94.559 0.086212 0 0 0 0.89315 1 49343 49343 5.2307 0.47466 1 7946 4425 5093 5110 9304 9304 -0.09690738250992581 GLWPWVLGL 9 Unmodified _GLWPWVLGL_ 0 0 0 ENSG00000188886|ENST00000342380|ASTL ENSG00000188886|ENST00000342380|ASTL ENSG00000188886|ENST00000342380|ASTL MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.17230224609375 3 347.535772 1039.58549 2.651 0.00092132 -0.12149 -4.2223E-05 2.5295 0.0008791 347.53566182321237 12.83 0.23278 13.473 13.379 13.612 0.64272 11 6 2 0 0 0 0.10945 1 5810 5810 2.9952 0.26005 1 144650 7947 5688 5094 5111 9305 9305 0.0672784255350507 GLWRLRSRRRH 11 Unmodified _GLWRLRSRRRH_ 0 0 0 ENST00000575312.1_1_17:79670028-79670313:-|nuORF ENST00000575312.1_1_17:79670028-79670313:-|nuORF ENST00000575312.1_1_17:79670028-79670313:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 746.9461059570312 2 746.945259 1491.87596 NaN NaN NaN NaN NaN NaN NaN 92.766 1 92.766 92.266 93.266 0 0 0 0 1.0071 1 49370 49370 1.4819 0.28856 1 7948 9119 5095 5112 9306 9306 0.1497017932210838 GLYKRGSVRSL 11 Unmodified _GLYKRGSVRSL_ 0 0 0 nc|ENSG00000277363|Q9C0H9-2|SRCIN1;ENSG00000277363|ENST00000617146|SRCIN1 nc|ENSG00000277363|Q9C0H9-2|SRCIN1 nc|ENSG00000277363|Q9C0H9-2|SRCIN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 618.035888671875 2 618.364579 1234.7146 NaN NaN NaN NaN NaN NaN NaN 85.378 1 85.407 84.907 85.907 0.028603 0 0 0 0.95688 1 42727 42727 10.8 1.4164 1 7949 6352 5096 5113 9307 9307 0.1066357244565097 GLYRVINK 8 Unmodified _GLYRVINK_ 0 0 0 REV__nc|ENSG00000142733|O95382-2|MAP3K6 REV__nc|ENSG00000142733|O95382-2|MAP3K6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 321.5317687988281 3 321.53091 961.5709 2.4333 0.00078237 0.86161 0.00027703 3.2949 0.0010594 321.53093748010275 29.328 0.25344 29.588 29.45 29.704 0.2602 32 16 3 0 0 0 0.74071 1 13388 13388 1.6526 0 1 443570 + 7950 12346 5097 5114 9308 9308 0.08857770405370502 GMAGRVVN 8 Unmodified _GMAGRVVN_ 0 0 0 ENST00000556439.1_1_14:20920437-20922842:-|nuORF ENST00000556439.1_1_14:20920437-20922842:-|nuORF ENST00000556439.1_1_14:20920437-20922842:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 402.2167053222656 2 402.213255 802.411957 NaN NaN NaN NaN NaN NaN NaN 93.161 1 93.416 92.916 93.916 0.25497 0 0 0 0.99035 1 42820 42820 2.3027 1.5091 1 7951 8924 5098 5115 9309 9309 0.0028473350558897437 GMCFSSFCWHI 11 Unmodified _GMCFSSFCWHI_ 0 0 0 nc|ENSG00000117139|Q9UGL1-2|KDM5B;ENSG00000117139|ENST00000367265|KDM5B;KDM5B|p.D895Vfs*26|1|0.35|ENSG00000117139|chr1:202741628-202741628|T/-|frameshift_variant;ENSG00000073614|ENST00000399788|KDM5A;nc|ENSG00000073614|P29375-2|KDM5A nc|ENSG00000117139|Q9UGL1-2|KDM5B;ENSG00000073614|ENST00000399788|KDM5A ENSG00000073614|ENST00000399788|KDM5A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 439.50390625 3 439.845295 1316.51406 NaN NaN NaN NaN NaN NaN NaN 17.861 1 18.163 17.663 18.663 0.30158 0 0 0 1.008 1 8090 8090 0.094841 0.011491 1 7952 810;2061 5099 5116 9310 9310 -0.13154104529326105 GMRVSAAPV 9 Unmodified _GMRVSAAPV_ 0 0 0 ENST00000424720.2_12:132824120-132905933:-|nuORF ENST00000424720.2_12:132824120-132905933:-|nuORF ENST00000424720.2_12:132824120-132905933:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 444.24188232421875 2 444.242012 886.469472 NaN NaN NaN NaN NaN NaN NaN 57.027 1 57.805 57.305 58.305 0.77786 0 0 0 0.77475 1 26089 26089 10.074 0.6908 1 7953 7785 5100 5117 9311 9311 0.021695757111501734 GNAKRRRNV 9 Unmodified _GNAKRRRNV_ 0 0 0 REV__ENST00000252674.8_2_19:6210599-6210812:-|nuORF REV__ENST00000252674.8_2_19:6210599-6210812:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.820068359375 2 535.81813 1069.62171 3.4283 0.001837 -0.46523 -0.00024928 2.9631 0.0015877 535.817793468573 95.189 0.37721 95.806 95.591 95.968 0.61736 47 18 3 0 0 0 1.1154 1 43723 43723 2.0598 0.57785 1 4312900 + 7954 14912 5101 5118 9312 9312 0.08968112502930126 GNCGTRRA 8 Unmodified _GNCGTRRA_ 0 0 0 ENST00000607222.1_1_1:1550749-1550920:-|nuORF ENST00000607222.1_1_1:1550749-1550920:-|nuORF ENST00000607222.1_1_1:1550749-1550920:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 417.7046203613281 2 417.703586 833.392618 3.1656 0.0013223 0.34966 0.00014606 3.5153 0.0014683 417.70353734530374 89.916 0.4641 90.588 90.371 90.835 0.67271 30 20 2 0 0 0 0.7441 1 41395 41395 2.3027 0 1 585500 7955 9335 5102 5119 9313 9313 -0.030742227853238546 GNFCCEWC 8 Unmodified _GNFCCEWC_ 0 0 0 ENSG00000148143|ENST00000277225|ZNF462;nc|ENSG00000148143|Q96JM2-3|ZNF462 ENSG00000148143|ENST00000277225|ZNF462 ENSG00000148143|ENST00000277225|ZNF462 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 481.15570068359375 2 481.153691 960.292829 NaN NaN NaN NaN NaN NaN NaN 15.937 1 16.149 15.649 16.649 0.21108 0 0 0 0.99035 1 7036 7036 0 0 1 7956 3589 5103 5120 9314 9314 -0.1889054450579124 GNGGGQRR 8 Unmodified _GNGGGQRR_ 0 0 0 ENST00000356392.8_1_19:11531334-11531415:-|nuORF ENST00000356392.8_1_19:11531334-11531415:-|nuORF ENST00000356392.8_1_19:11531334-11531415:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 801.4137573242188 1 801.407423 800.400147 4.699 0.0037658 1.6596 0.00133 6.3586 0.0050958 801.40892661102 103.45 0.034264 103.77 103.76 103.79 0.31863 7 4 2 0 0 0 0.7471 1 47826 47826 0.69038 0 1 593690 7957 7158 5104 5121 9315 9315 -0.008037471933903362 GNKGGACG 8 Unmodified _GNKGGACG_ 0 0 0 ENST00000286713.6_1_9:124110368-124110401:-|nuORF ENST00000286713.6_1_9:124110368-124110401:-|nuORF ENST00000286713.6_1_9:124110368-124110401:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.2449951171875 1 663.287885 662.280608 4.0533 0.0026885 -3.8724 -0.0025685 0.18093 0.00012001 663.2816517029945 81.691 0.057678 82.351 82.317 82.375 0.65997 7 4 2 0 0 0 0.14355 1 37630 37630 0 0 1 293260 7958 6723 5105 5122 9316 9316 -0.06404076862315833 GNKHATKAI 9 Unmodified _GNKHATKAI_ 0 0 0 REV__ENST00000442741.1_1_13:42830025-42830667:+|nuORF REV__ENST00000442741.1_1_13:42830025-42830667:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.2736511230469 2 470.272158 938.529764 3.0381 0.0014287 0.25327 0.00011911 3.2914 0.0015478 470.2721327054437 86.742 0.29778 86.992 86.907 87.204 0.24974 29 13 3 0 0 0 1.0894 1 39918 39918 1.8442 0 1 1812300 + 7959 10732 5106 5123 9317 9317 0.05804009365908769 GNLVGNDD 8 Unmodified _GNLVGNDD_ 0 0 0 REV__nc|ENSG00000104055|O43548-2|TGM5 REV__nc|ENSG00000104055|O43548-2|TGM5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 402.1804504394531 2 402.180132 802.345711 NaN NaN NaN NaN NaN NaN NaN 107.64 1 108.24 107.74 108.74 0.6019 0 0 0 0.99035 1 49678 49678 0.6015 0.6015 1 + 7960 10982 5107 5124 9318 9318 -0.06336803855469952 GNRLPANRR 9 Unmodified _GNRLPANRR_ 0 0 0 ENSG00000243811|ENST00000216099|APOBEC3D ENSG00000243811|ENST00000216099|APOBEC3D ENSG00000243811|ENST00000216099|APOBEC3D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.306884765625 2 527.304855 1052.59516 4.0284 0.0021242 -0.054297 -2.8631E-05 3.9741 0.0020955 527.3045757359506 95.695 0.43085 95.962 95.748 96.179 0.2675 64 23 3 0 0 0 1.1154 1 43905 43905 2.0598 2.0598 1 2768600 7961 6241 5108 5125 9319 9319 0.07096423611619684 GNRLPANRR 9 Unmodified _GNRLPANRR_ 0 0 0 ENSG00000243811|ENST00000216099|APOBEC3D ENSG00000243811|ENST00000216099|APOBEC3D ENSG00000243811|ENST00000216099|APOBEC3D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.3068237304688 2 527.304855 1052.59516 3.4891 0.0018398 0.014576 7.6859E-06 3.5037 0.0018475 527.3046399844162 95.181 0.45387 95.799 95.514 95.968 0.61737 63 22 4 0 0 0 1.1154 1 43719 43719 2.0598 2.0598 1 3530700 7962 6241 5108 5125 9320 9320 0.07096423611619684 GNVLGRPR 8 Unmodified _GNVLGRPR_ 0 0 0 ENST00000577698.1_1_17:66243842-66243974:-|nuORF ENST00000577698.1_1_17:66243842-66243974:-|nuORF ENST00000577698.1_1_17:66243842-66243974:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.7606201171875 2 434.759218 867.503883 2.7113 0.0011787 0.094424 4.1052E-05 2.8057 0.0012198 434.7592129682691 81.398 0.41379 81.646 81.466 81.88 0.24803 55 22 3 0 0 0 0.74071 1 37512 37512 2.5775 0.27475 1 4010200 7963 9132 5109 5126 9321 9321 0.06483159914284897 GNVLGRPR 8 Unmodified _GNVLGRPR_ 0 0 0 ENST00000577698.1_1_17:66243842-66243974:-|nuORF ENST00000577698.1_1_17:66243842-66243974:-|nuORF ENST00000577698.1_1_17:66243842-66243974:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7608642578125 2 434.759218 867.503883 3.145 0.0013673 -0.23946 -0.00010411 2.9055 0.0012632 434.7590543893977 80.962 0.45827 81.622 81.394 81.852 0.65998 50 22 3 0 0 0 0.74071 3 37242 37242;37297;37350 2.5775 1.7838 1 4176500 7964 9132 5109 5126 9322;9323;9324 9322 0.06483159914284897 GNWFWEGD 8 Unmodified _GNWFWEGD_ 0 0 0 ENSG00000198908|ENST00000457056|GPRASP3 ENSG00000198908|ENST00000457056|GPRASP3 ENSG00000198908|ENST00000457056|GPRASP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.705810546875 2 505.703774 1009.393 3.2615 0.0016493 0.27523 0.00013919 3.5367 0.0017885 505.70357774062785 59.721 0.34673 59.98 59.804 60.151 0.2593 40 21 2 0 0 0 0.74071 1 27415 27415 2.5775 0 1 2186600 7965 5959 5110 5127 9325 9325 -0.11132524584468229 GPADCSEE 8 Unmodified _GPADCSEE_ 0 0 0 ENSG00000167394|ENST00000300849|ZNF668;nc|ENSG00000167394|Q96K58-2|ZNF668 ENSG00000167394|ENST00000300849|ZNF668 ENSG00000167394|ENST00000300849|ZNF668 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 807.2862548828125 1 807.282525 806.275248 4.0941 0.0033051 1.4312 0.0011554 5.5254 0.0044605 807.2834604022746 42.854 0.2614 43.501 43.397 43.658 0.64693 22 16 2 0 0 0 0.69414 1 19632 19632 6.3541 3.4649 1 1244900 7966 4549 5111 5128 9326 9326 -0.13563845235444205 GPAGLQHPLAP 11 Unmodified _GPAGLQHPLAP_ 0 0 0 REV__ENST00000309424.7_1_19:45909804-45909867:+|nuORF REV__ENST00000309424.7_1_19:45909804-45909867:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1058.5875244140625 1 1057.57891 1056.57163 3.5172 0.0037197 0.63994 0.00067679 4.1571 0.0043965 1058.58537497048 35.086 0.1081 35.709 35.681 35.789 0.62294 5 4 2 0 0 0 0.87362 1 16088 16088 3.5965 1.2938 1 407050 + 7967 15252 5112 5129 9327 9327 0.04560565054430299 GPAKSLRHFLF 11 Unmodified _GPAKSLRHFLF_ 0 0 0 REV__ENST00000430792.1_1_21:38444584-38444998:-|nuORF REV__ENST00000430792.1_1_21:38444584-38444998:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 636.862548828125 2 636.864215 1271.71388 NaN NaN NaN NaN NaN NaN NaN 58.138 1 58.806 58.306 59.306 0.66829 0 0 0 1.0055 1 26607 26607 3.5965 1.7523 1 + 7968 16259 5113 5130 9328 9328 0.08888777796619252 GPAQRVWHMTY 11 Unmodified _GPAQRVWHMTY_ 0 0 0 REV__nc|ENSG00000232216|A0A0B4J1X8|IGHV3-43 REV__nc|ENSG00000232216|A0A0B4J1X8|IGHV3-43 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 672.904541015625 2 673.327139 1344.63972 NaN NaN NaN NaN NaN NaN NaN 61.191 1 61.854 61.354 62.354 0.66261 0 0 0 1.0055 1 28018 28018 3.5965 0 1 + 7969 18145 5114 5131 9329 9329 -0.01880933357210779 GPARHSLPFHR 11 Unmodified _GPARHSLPFHR_ 0 0 0 REV__nc|ENSG00000096264|O95944-3|NCR2 REV__nc|ENSG00000096264|O95944-3|NCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 637.8486328125 2 637.846887 1273.67922 NaN NaN NaN NaN NaN NaN NaN 90.188 1 90.439 89.939 90.939 0.25137 0 0 0 1.0055 1 41473 41473 3.5965 0 1 + 7970 17877 5115 5132 9330 9330 0.05332954708524085 GPARMRKRIKR 11 Unmodified _GPARMRKRIKR_ 0 0 0 nc|ENSG00000128815|Q6ZS81-5|WDFY4;nc|ENSG00000128815|Q6ZS81-4|WDFY4;ENSG00000128815|ENST00000325239|WDFY4 nc|ENSG00000128815|Q6ZS81-5|WDFY4 nc|ENSG00000128815|Q6ZS81-5|WDFY4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 684.92724609375 2 684.927689 1367.84082 NaN NaN NaN NaN NaN NaN NaN 39.638 1 40.276 39.776 40.776 0.63778 0 0 0 1.0071 1 18118 18118 3.5965 2.4032 1 7971 2528 5116 5133 9331 9331 0.17161800469943955 GPASFCCHMF 10 Unmodified _GPASFCCHMF_ 0 0 0 ENST00000526240.5_1_11:6416766-6417497:-|nuORF;nc|ENSG00000166313|O00213-4|APBB1;nc|ENSG00000166313|O00213-6|APBB1;nc|ENSG00000166313|O00213-3|APBB1;nc|ENSG00000166313|O00213-5|APBB1;nc|ENSG00000166313|O00213-2|APBB1;ENSG00000166313|ENST00000609360|APBB1 ENST00000526240.5_1_11:6416766-6417497:-|nuORF ENST00000526240.5_1_11:6416766-6417497:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.2102661132812 2 550.21154 1098.40853 NaN NaN NaN NaN NaN NaN NaN 81.7 1 81.7 81.2 82.2 0 0 0 0 0.99983 1 40728 40728 1.8442 0.19162 1 7972 4471 5117 5134 9332 9332 -0.13674020654934793 GPAWLLLAR 9 Unmodified _GPAWLLLAR_ 0 0 0 REV__ENST00000347230.8_2_14:68282722-68283293:-|nuORF REV__ENST00000347230.8_2_14:68282722-68283293:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 996.6025390625 1 996.598912 995.591636 3.5063 0.0034944 1.4109 0.0014061 4.9172 0.0049004 996.6003809427407 51.259 0.10098 51.918 51.888 51.989 0.65956 11 8 2 0 0 0 0.92809 1 23437 23437 5.2307 0.47466 1 2122500 + 7973 15513 5118 5135 9333 9333 0.09366360785031702 GPDKKLLKVQN 11 Unmodified _GPDKKLLKVQN_ 0 0 0 REV__ENST00000464057.5_1_6:4126367-4135774:-|nuORF REV__ENST00000464057.5_1_6:4126367-4135774:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 620.3762817382812 2 620.374612 1238.73467 3.4835 0.0021611 0.32534 0.00020184 3.8088 0.0023629 620.3749983843123 51.477 0.22111 52.136 52.039 52.26 0.65956 20 11 2 0 0 0 0.82535 1 23529 23529 5.7319 0.43497 1 310710 + 7974 10145 5119 5136 9334 9334 0.12485323385635638 GPDPSSPAF 9 Unmodified _GPDPSSPAF_ 0 0 0 ENSG00000137801|ENST00000260356|THBS1;CON__Q28194 ENSG00000137801|ENST00000260356|THBS1 ENSG00000137801|ENST00000260356|THBS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 874.3963623046875 1 874.394124 873.386848 3.7707 0.0032971 -0.31477 -0.00027523 3.456 0.0030219 874.3939434110508 40.81 0.24924 40.81 40.729 40.978 0 17 15 2 0 0 0 0.0012644 1 18545 18545 123.1 62.707 1 656870 + 7975 229 5120 5137 9335 9335 -0.054910428159928415 GPDPSSPAF 9 Unmodified _GPDPSSPAF_ 0 0 0 ENSG00000137801|ENST00000260356|THBS1;CON__Q28194 ENSG00000137801|ENST00000260356|THBS1 ENSG00000137801|ENST00000260356|THBS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.92889404296875 2 437.7007 873.386848 NaN NaN NaN NaN NaN NaN NaN 40.759 1 40.759 40.259 41.259 0 0 0 0 0.13032 1 18507 18507 36.044 11.37 1 + 7976 229 5120 5137 9336 9336 -0.054910428159928415 GPDPSSPAF 9 Unmodified _GPDPSSPAF_ 0 0 0 ENSG00000137801|ENST00000260356|THBS1;CON__Q28194 ENSG00000137801|ENST00000260356|THBS1 ENSG00000137801|ENST00000260356|THBS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.9294128417969 2 437.7007 873.386848 NaN NaN NaN NaN NaN NaN NaN 39.936 1 40.736 40.236 41.236 0.80014 0 0 0 0.72654 1 18080 18080 11.64 3.7301 1 + 7977 229 5120 5137 9337 9337 -0.054910428159928415 GPDPSTAIL 9 Unmodified _GPDPSTAIL_ 0 0 0 ENSG00000008394|ENST00000396210|MGST1;ENST00000539708.5_1_12:16513351-16516972:+|nuORF ENSG00000008394|ENST00000396210|MGST1 ENSG00000008394|ENST00000396210|MGST1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 870.4600219726562 1 870.456724 869.449448 4.1113 0.0035787 -0.52971 -0.00046109 3.5816 0.0031176 870.4563041245939 54.258 0.43803 54.258 54 54.438 0 84 33 3 0 0 0 0.0019388 4 24843 24795;24843;24887;24936 104.8 33.666 1 8940700 7978 378 5121 5138 9338;9339;9340;9341 9339 0.009501032521825437 GPDPSTAIL 9 Unmodified _GPDPSTAIL_ 0 0 0 ENSG00000008394|ENST00000396210|MGST1;ENST00000539708.5_1_12:16513351-16516972:+|nuORF ENSG00000008394|ENST00000396210|MGST1 ENSG00000008394|ENST00000396210|MGST1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 870.4589233398438 1 870.456724 869.449448 3.4313 0.0029868 -0.70236 -0.00061137 2.729 0.0023754 870.4560135376761 53.317 0.37391 54.121 53.96 54.333 0.80351 87 35 3 0 0 0 0.0019388 4 24348 24254;24302;24348;24389 104.8 37.455 1 9891400 7979 378 5121 5138 9342;9343;9344;9345 9344 0.009501032521825437 GPDPSTAIL 9 Unmodified _GPDPSTAIL_ 0 0 0 ENSG00000008394|ENST00000396210|MGST1;ENST00000539708.5_1_12:16513351-16516972:+|nuORF ENSG00000008394|ENST00000396210|MGST1 ENSG00000008394|ENST00000396210|MGST1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 870.460205078125 1 870.456724 869.449448 3.8413 0.0033437 -0.090362 -7.8657E-05 3.7509 0.003265 870.4566620068895 53.928 0.52347 54.193 53.932 54.456 0.26462 55 21 3 0 0 0 0.0026885 4 24589 24589;24641;24692;24736 97.075 29.731 1 4363100 7980 378 5121 5138 9346;9347;9348;9349 9346 0.009501032521825437 GPDPSTAIL 9 Unmodified _GPDPSTAIL_ 0 0 0 ENSG00000008394|ENST00000396210|MGST1;ENST00000539708.5_1_12:16513351-16516972:+|nuORF ENSG00000008394|ENST00000396210|MGST1 ENSG00000008394|ENST00000396210|MGST1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 870.4598999023438 1 870.456724 869.449448 3.7821 0.0032921 0.32369 0.00028176 4.1058 0.0035739 870.4567316498358 53.441 0.47808 54.105 53.841 54.319 0.6644 58 22 4 0 0 0 0.0026885 4 24407 24358;24407;24457;24506 97.075 27.885 1 5523200 7981 378 5121 5138 9350;9351;9352;9353 9351 0.009501032521825437 GPDSLTVH 8 Unmodified _GPDSLTVH_ 0 0 0 nc|ENSG00000089597|Q14697-2|GANAB;ENSG00000089597|ENST00000356638|GANAB;ENST00000524437.5_1_11:62402291-62406896:-|nuORF nc|ENSG00000089597|Q14697-2|GANAB nc|ENSG00000089597|Q14697-2|GANAB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 413.2099914550781 2 413.208692 824.402832 NaN NaN NaN NaN NaN NaN NaN 20.298 1 20.298 19.798 20.798 0 0 0 0 0.91812 1 9073 9073 11.114 0.93107 1 7982 1044 5122 5139 9354 9354 -0.016393365790918324 GPDYAHAEARK 11 Unmodified _GPDYAHAEARK_ 0 0 0 ENSG00000145725|ENST00000358359|PPIP5K2;nc|ENSG00000145725|O43314-2|PPIP5K2;nc|ENSG00000168781|Q6PFW1-6|PPIP5K1;ENST00000488768.5_1_15:43865553-43876720:-|nuORF;nc|ENSG00000168781|Q6PFW1-5|PPIP5K1;nc|ENSG00000168781|Q6PFW1-7|PPIP5K1;nc|ENSG00000168781|Q6PFW1-4|PPIP5K1;nc|ENSG00000168781|Q6PFW1-3|PPIP5K1;nc|ENSG00000168781|Q6PFW1-2|PPIP5K1;nc|ENSG00000168781|Q6PFW1|PPIP5K1;ENSG00000168781|ENST00000420765|PPIP5K1 ENSG00000145725|ENST00000358359|PPIP5K2;nc|ENSG00000168781|Q6PFW1-6|PPIP5K1 nc|ENSG00000168781|Q6PFW1-6|PPIP5K1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 607.8003540039062 2 607.799269 1213.58398 3.7862 0.0023013 -2.0406 -0.0012402 1.7456 0.001061 607.7979983716425 35.893 0.16634 36.519 36.434 36.601 0.62631 8 5 2 0 0 0 0.64715 1 16449 16449 13.615 2.1202 1 330270 7983 4650;3483 5123 5140 9355 9355 -0.014264432732261412 GPDYAHAEARK 11 Unmodified _GPDYAHAEARK_ 0 0 0 ENSG00000145725|ENST00000358359|PPIP5K2;nc|ENSG00000145725|O43314-2|PPIP5K2;nc|ENSG00000168781|Q6PFW1-6|PPIP5K1;ENST00000488768.5_1_15:43865553-43876720:-|nuORF;nc|ENSG00000168781|Q6PFW1-5|PPIP5K1;nc|ENSG00000168781|Q6PFW1-7|PPIP5K1;nc|ENSG00000168781|Q6PFW1-4|PPIP5K1;nc|ENSG00000168781|Q6PFW1-3|PPIP5K1;nc|ENSG00000168781|Q6PFW1-2|PPIP5K1;nc|ENSG00000168781|Q6PFW1|PPIP5K1;ENSG00000168781|ENST00000420765|PPIP5K1 ENSG00000145725|ENST00000358359|PPIP5K2;nc|ENSG00000168781|Q6PFW1-6|PPIP5K1 nc|ENSG00000168781|Q6PFW1-6|PPIP5K1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 607.799269 1213.58398 3.5386 0.0021508 -0.39704 -0.00024132 3.1416 0.0019094 607.7991268864787 36.547 0.20206 36.547 36.438 36.64 0 -0.046815 0.00031062 NaN 13.615 14 9 2 NaN NaN NaN NaN 0 NaN NaN 0 270880 7984 4650;3483 5123 5140 -0.014264432732261412 GPDYAHAEARK 11 Unmodified _GPDYAHAEARK_ 0 0 0 ENSG00000145725|ENST00000358359|PPIP5K2;nc|ENSG00000145725|O43314-2|PPIP5K2;nc|ENSG00000168781|Q6PFW1-6|PPIP5K1;ENST00000488768.5_1_15:43865553-43876720:-|nuORF;nc|ENSG00000168781|Q6PFW1-5|PPIP5K1;nc|ENSG00000168781|Q6PFW1-7|PPIP5K1;nc|ENSG00000168781|Q6PFW1-4|PPIP5K1;nc|ENSG00000168781|Q6PFW1-3|PPIP5K1;nc|ENSG00000168781|Q6PFW1-2|PPIP5K1;nc|ENSG00000168781|Q6PFW1|PPIP5K1;ENSG00000168781|ENST00000420765|PPIP5K1 ENSG00000145725|ENST00000358359|PPIP5K2;nc|ENSG00000168781|Q6PFW1-6|PPIP5K1 nc|ENSG00000168781|Q6PFW1-6|PPIP5K1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 607.799269 1213.58398 3.5886 0.0021812 -0.3954 -0.00024032 3.1932 0.0019409 607.7989323124781 36.458 0.22126 36.716 36.576 36.797 0.25768 0.12166 0.00031262 NaN 13.615 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 365830 7985 4650;3483 5123 5140 -0.014264432732261412 GPDYAHAEARK 11 Unmodified _GPDYAHAEARK_ 0 0 0 ENSG00000145725|ENST00000358359|PPIP5K2;nc|ENSG00000145725|O43314-2|PPIP5K2;nc|ENSG00000168781|Q6PFW1-6|PPIP5K1;ENST00000488768.5_1_15:43865553-43876720:-|nuORF;nc|ENSG00000168781|Q6PFW1-5|PPIP5K1;nc|ENSG00000168781|Q6PFW1-7|PPIP5K1;nc|ENSG00000168781|Q6PFW1-4|PPIP5K1;nc|ENSG00000168781|Q6PFW1-3|PPIP5K1;nc|ENSG00000168781|Q6PFW1-2|PPIP5K1;nc|ENSG00000168781|Q6PFW1|PPIP5K1;ENSG00000168781|ENST00000420765|PPIP5K1 ENSG00000145725|ENST00000358359|PPIP5K2;nc|ENSG00000168781|Q6PFW1-6|PPIP5K1 nc|ENSG00000168781|Q6PFW1-6|PPIP5K1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 607.799269 1213.58398 3.7862 0.0023013 -2.0406 -0.0012402 1.7456 0.001061 607.7979983716425 35.893 0.16634 36.519 36.434 36.601 0.62631 -0.074847 -0.0016872 NaN 13.615 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 330270 7986 4650;3483 5123 5140 -0.014264432732261412 GPEDSDDDDDE 11 Unmodified _GPEDSDDDDDE_ 0 0 0 REV__ENSG00000188613|ENST00000425699|NANOS1 REV__ENSG00000188613|ENST00000425699|NANOS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 604.6876220703125 2 604.689109 1207.36367 NaN NaN NaN NaN NaN NaN NaN 32.648 1 32.903 32.403 33.403 0.2542 0 0 0 1.008 1 14869 14869 0.35063 0.35063 1 + 7987 14154 5124 5141 9356 9356 -0.23172222972607415 GPESRLRAPL 10 Unmodified _GPESRLRAPL_ 0 0 0 REV__ENST00000468365.1_1_1:1178822-1179616:-|nuORF REV__ENST00000468365.1_1_1:1178822-1179616:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.8821105957031 3 365.88049 1094.61964 2.6524 0.00097046 -0.55247 -0.00020214 2.0999 0.00076832 365.8802965058951 15.027 0.46205 15.681 15.538 16 0.65356 78 48 2 0 0 0 0.93503 1 6733 6733 1.9064 0 1 215490 + 7988 15370 5125 5142 9357 9357 0.07611638974481139 GPFFYFCLLF 10 Unmodified _GPFFYFCLLF_ 0 0 0 REV__ENST00000310137.4_1_11:66394378-66394552:+|nuORF REV__ENST00000310137.4_1_11:66394378-66394552:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 627.307373046875 2 627.306821 1252.59909 NaN NaN NaN NaN NaN NaN NaN 46.413 1 46.678 46.178 47.178 0.26561 0 0 0 0.99983 1 21213 21213 1.8442 0 1 + 7989 15257 5126 5143 9358 9358 -0.01710667729571469 GPFLHKLKLFL 11 Unmodified _GPFLHKLKLFL_ 0 0 0 REV__ENST00000336735.8_1_14:81942345-81942543:-|nuORF REV__ENST00000336735.8_1_14:81942345-81942543:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 656.9080200195312 2 656.910633 1311.80671 NaN NaN NaN NaN NaN NaN NaN 100.72 1 100.72 100.22 101.22 0 0 0 0 1.0057 1 55636 55636 3.2813 0 1 + 7990 15422 5127 5144 9359 9359 0.16328282529957505 GPFSRYFDYED 11 Unmodified _GPFSRYFDYED_ 0 0 0 REV__nc|ENSG00000171824|Q01780-2|EXOSC10 REV__nc|ENSG00000171824|Q01780-2|EXOSC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 698.197509765625 2 698.296224 1394.5779 NaN NaN NaN NaN NaN NaN NaN 45.927 1 46.578 46.078 47.078 0.65104 0 0 0 1.0071 1 21040 21040 1.4819 0 1 + 7991 13521 5128 5145 9360 9360 -0.10361006295374864 GPFWRKKRHRW 11 Unmodified _GPFWRKKRHRW_ 0 0 0 REV__THE1B-int_dup38|chr1:59888735-59890293:-|2.5909301945492014|0.1975042163789512|3.71|511.0|27|2|sense REV__THE1B-int_dup38|chr1:59888735-59890293:-|2.5909301945492014|0.1975042163789512|3.71|511.0|27|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.6301879882812 3 518.628611 1552.864 NaN NaN NaN NaN NaN NaN NaN 83.99 1 84.652 84.152 85.152 0.66219 0 0 0 1.0079 1 38686 38686 0.40827 0.31342 1 + 7992 18232 5129 5146 9361 9361 0.10968562578909768 GPGAESCD 8 Unmodified _GPGAESCD_ 0 0 0 REV__FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant REV__FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 735.2644653320312 1 735.261395 734.254119 3.9947 0.0029372 0.86671 0.00063726 4.8614 0.0035744 735.2621579424158 56.162 0.48994 56.831 56.531 57.021 0.66829 36 26 2 0 0 0 0.73686 1 25672 25672 2.8892 0.31174 1 545350 + 7993 12059 5130 5147 9362 9362 -0.12363810544309217 GPGCGGHDC 9 Unmodified _GPGCGGHDC_ 0 0 0 REV__ENST00000445902.2_1_6:33238004-33239525:-|nuORF REV__ENST00000445902.2_1_6:33238004-33239525:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 802.2611694335938 1 802.260684 801.253407 3.6806 0.0029528 -1.4252 -0.0011434 2.2553 0.0018094 802.260153199347 18.484 0.060299 18.782 18.761 18.821 0.29753 5 4 2 0 0 0 1.2459 1 8392 8392 0 0 1 260740 + 7994 16380 5131 5148 9363 9363 -0.15516928465012825 GPGEDAGD 8 Unmodified _GPGEDAGD_ 0 0 0 REV__nc|ENSG00000197558|A2VEC9|SSPOP REV__nc|ENSG00000197558|A2VEC9|SSPOP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.14990234375 2 359.137933 716.261313 NaN NaN NaN NaN NaN NaN NaN 53.123 1 53.123 52.623 53.623 0 0 0 0 0.99035 1 24331 24331 2.5775 0 1 + 7995 18096 5132 5149 9364 9364 -0.10816754672237039 GPGGGGGF 8 Unmodified _GPGGGGGF_ 0 0 0 REV__ENST00000409035.1_1_19:16738827-16739007:-|nuORF REV__ENST00000409035.1_1_19:16738827-16739007:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 605.2684936523438 1 605.267801 604.260525 3.6238 0.0021934 -3.6178 -0.0021897 0.0060345 3.6525E-06 605.2654364744229 53.863 0.11611 54.53 54.426 54.542 0.6663 6 4 2 0 0 0 0.7471 1 24616 24616 0 0 1 1534000 + 7996 16087 5133 5150 9365 9365 -0.05743504530619248 GPGLDRQR 8 Unmodified _GPGLDRQR_ 0 0 0 REV__ENST00000409858.7_1_9:139977361-139977631:+|nuORF REV__ENST00000409858.7_1_9:139977361-139977631:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 898.4906005859375 1 898.485339 897.478063 2.3469 0.0021086 1.7303 0.0015546 4.0772 0.0036633 898.4876501929394 99.567 0.11597 99.629 99.546 99.662 0.062248 13 8 2 0 0 0 0.13779 1 53870 53870 6.3541 0 1 44303000 + 7997 16104 5134 5151 9366 9366 0.025222656719961378 GPGLDRQR 8 Unmodified _GPGLDRQR_ 0 0 0 REV__ENST00000409858.7_1_9:139977361-139977631:+|nuORF REV__ENST00000409858.7_1_9:139977361-139977631:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 898.485339 897.478063 3.4142 0.0030676 1.8691 0.0016793 5.2833 0.0047469 898.4878141553312 99.671 0.24852 99.671 99.543 99.791 0 0.020813 6.9668E-05 NaN 6.3541 21 19 2 NaN NaN NaN NaN 0 NaN NaN 0 57888000 + 7998 16104 5134 5151 0.025222656719961378 GPGLLCPTGSL 11 Unmodified _GPGLLCPTGSL_ 0 0 0 REV__nc|ENSG00000102854|Q13421-4|MSLN REV__nc|ENSG00000102854|Q13421-4|MSLN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.7701721191406 2 507.76806 1013.52157 3.1351 0.0015919 -0.21672 -0.00011004 2.9184 0.0014819 507.767943686566 38.086 0.34093 38.72 38.553 38.894 0.63389 34 14 3 0 0 0 0.74281 1 17482 17482 9.3831 1.473 1 926430 + 7999 10945 5135 5152 9367 9367 0.015346943342706254 GPGLVKLL 8 Unmodified _GPGLVKLL_ 0 0 0 REV__ENST00000573175.1_1_17:4451225-4453465:-|nuORF REV__ENST00000573175.1_1_17:4451225-4453465:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.7709045410156 2 398.768189 795.521825 NaN NaN NaN NaN NaN NaN NaN 25.983 1 26.251 25.751 26.751 0.26777 0 0 0 0.99035 1 11800 11800 0.79363 0 1 + 8000 17460 5136 5153 9368 9368 0.11588482116428622 GPGRRVRRKRR 11 Unmodified _GPGRRVRRKRR_ 0 0 0 ENST00000338639.9_1_1:8021799-8022840:+|nuORF ENST00000338639.9_1_1:8021799-8022840:+|nuORF ENST00000338639.9_1_1:8021799-8022840:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 697.4432373046875 2 697.445426 1392.8763 NaN NaN NaN NaN NaN NaN NaN 99.35 1 99.412 98.912 99.912 0.062241 0 0 0 1.0071 1 53688 53688 1.4819 0.15237 1 8001 7047 5137 5154 9369 9369 0.1955759904194565 GPGTEGEAP 9 Unmodified _GPGTEGEAP_ 0 0 0 ENST00000440005.6_2_22:18958062-18978324:+|nuORF ENST00000440005.6_2_22:18958062-18978324:+|nuORF ENST00000440005.6_2_22:18958062-18978324:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.6838684082031 2 407.682507 813.350462 2.7696 0.0011291 0.61145 0.00024928 3.3811 0.0013784 407.6826408982621 16.898 0.47065 17.203 17.014 17.484 0.30438 47 38 2 0 0 0 0.43926 1 7672 7672 13.508 0 1 77973 8002 7928 5138 5155 9370 9370 -0.06367919712704406 GPGVAPAVLNP 11 Unmodified _GPGVAPAVLNP_ 0 0 0 ENST00000513190.1_1_3:129233175-129239105:+|nuORF ENST00000513190.1_1_3:129233175-129239105:+|nuORF ENST00000513190.1_1_3:129233175-129239105:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.2832336425781 2 496.282192 990.549831 NaN NaN NaN NaN NaN NaN NaN 94.842 1 94.842 94.342 95.342 0 0 0 0 1.0043 1 50965 50965 6.2058 1.8765 1 8003 8577 5139 5156 9371 9371 0.05417760305851971 GPGYAAGR 8 Unmodified _GPGYAAGR_ 0 0 0 REV__ENSG00000182612|ENST00000611590|TSPAN10 REV__ENSG00000182612|ENST00000611590|TSPAN10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.6915588378906 2 374.69047 747.366387 NaN NaN NaN NaN NaN NaN NaN 13.25 1 13.893 13.393 14.393 0.64272 0 0 0 0.95658 1 5949 5949 8.5933 0.68312 1 + 8004 13899 5140 5157 9372 9372 -0.017401686851371778 GPHQRIWSWYY 11 Unmodified _GPHQRIWSWYY_ 0 0 0 REV__nc|ENSG00000231475|P0DP07|IGHV4-31 REV__nc|ENSG00000231475|P0DP07|IGHV4-31 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 746.8611450195312 2 746.85966 1491.70477 NaN NaN NaN NaN NaN NaN NaN 46.53 1 46.795 46.295 47.295 0.26561 0 0 0 1.0071 1 21266 21266 1.4819 1.0812 1 + 8005 18143 5141 5158 9373 9373 -0.021416155597080433 GPHSPDPLL 9 Unmodified _GPHSPDPLL_ 0 0 0 nc|ENSG00000179604|Q9H3Q1-2|CDC42EP4;ENSG00000179604|ENST00000335793|CDC42EP4 nc|ENSG00000179604|Q9H3Q1-2|CDC42EP4 nc|ENSG00000179604|Q9H3Q1-2|CDC42EP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.7467956542969 2 466.745442 931.476331 NaN NaN NaN NaN NaN NaN NaN 40.749 1 40.749 40.249 41.249 0 0 0 0 0.027384 1 18503 18503 60.39 14.369 1 8006 5225 5142 5159 9374 9374 0.00785211863387758 GPHSPDPLL 9 Unmodified _GPHSPDPLL_ 0 0 0 nc|ENSG00000179604|Q9H3Q1-2|CDC42EP4;ENSG00000179604|ENST00000335793|CDC42EP4 nc|ENSG00000179604|Q9H3Q1-2|CDC42EP4 nc|ENSG00000179604|Q9H3Q1-2|CDC42EP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.7464599609375 2 466.745442 931.476331 2.7462 0.0012818 0.26923 0.00012566 3.0154 0.0014074 466.74553847172433 39.83 0.25194 40.63 40.477 40.729 0.80014 19 11 2 0 0 0 0.018173 2 18022 18022;18075 70.716 28.621 1 509550 8007 5225 5142 5159 9375;9376 9375 0.00785211863387758 GPHSPDPLL 9 Unmodified _GPHSPDPLL_ 0 0 0 nc|ENSG00000179604|Q9H3Q1-2|CDC42EP4;ENSG00000179604|ENST00000335793|CDC42EP4 nc|ENSG00000179604|Q9H3Q1-2|CDC42EP4 nc|ENSG00000179604|Q9H3Q1-2|CDC42EP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.7467346191406 2 466.745442 931.476331 2.9191 0.0013625 0.43117 0.00020124 3.3503 0.0015637 466.7457558985011 40.495 0.3503 40.764 40.581 40.931 0.26904 21 12 3 0 0 0 0.0039848 2 18452 18406;18452 93.883 43.028 1 1651100 8008 5225 5142 5159 9377;9378 9378 0.00785211863387758 GPHSPDPLL 9 Unmodified _GPHSPDPLL_ 0 0 0 nc|ENSG00000179604|Q9H3Q1-2|CDC42EP4;ENSG00000179604|ENST00000335793|CDC42EP4 nc|ENSG00000179604|Q9H3Q1-2|CDC42EP4 nc|ENSG00000179604|Q9H3Q1-2|CDC42EP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.7472229003906 2 466.745442 931.476331 3.0945 0.0014444 0.03922 1.8306E-05 3.1337 0.0014627 466.74547466633294 40.026 0.24515 40.667 40.527 40.772 0.64136 13 8 2 0 0 0 0.0039848 1 18289 18289 93.883 37.342 1 936950 8009 5225 5142 5159 9379 9379 0.00785211863387758 GPILFVPRTVL 11 Unmodified _GPILFVPRTVL_ 0 0 0 REV__ENST00000550078.2_2_1:203764919-203765303:+|nuORF REV__ENST00000550078.2_2_1:203764919-203765303:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.5903015136719 3 404.588536 1210.74378 2.4959 0.0010098 0.89015 0.00036015 3.3861 0.00137 404.58871737361653 35.302 0.48066 35.302 35.239 35.72 0 53 31 2 0 0 0 0.89544 2 16053 16009;16053 2.6312 1.4164 1 1369600 + 8010 17277 5143 5160 9380;9381 9381 0.14683716741933495 GPILFVPRTVL 11 Unmodified _GPILFVPRTVL_ 0 0 0 REV__ENST00000550078.2_2_1:203764919-203765303:+|nuORF REV__ENST00000550078.2_2_1:203764919-203765303:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.5897216796875 3 404.588536 1210.74378 NaN NaN NaN NaN NaN NaN NaN 33.943 1 34.732 34.232 35.232 0.78921 0 0 0 1.0062 1 15368 15368 2.6312 0 1 + 8011 17277 5143 5160 9382 9382 0.14683716741933495 GPILFVPRTVL 11 Unmodified _GPILFVPRTVL_ 0 0 0 REV__ENST00000550078.2_2_1:203764919-203765303:+|nuORF REV__ENST00000550078.2_2_1:203764919-203765303:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.6945495605469 4 303.693221 1210.74378 2.5116 0.00076277 0.87559 0.00026591 3.3872 0.0010287 303.69347671023047 32.269 0.28865 32.523 32.379 32.668 0.25452 56 22 3 0 0 0 0.91104 1 14670 14670 1.2148 0 1 4151400 + 8012 17277 5143 5160 9383 9383 0.14683716741933495 GPILFVPRTVL 11 Unmodified _GPILFVPRTVL_ 0 0 0 REV__ENST00000550078.2_2_1:203764919-203765303:+|nuORF REV__ENST00000550078.2_2_1:203764919-203765303:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.59002685546875 3 404.588536 1210.74378 2.975 0.0012036 0.93527 0.0003784 3.9102 0.001582 404.58876047475337 34.239 0.61135 34.493 34.391 35.002 0.25389 62 27 3 0 0 0 0.89544 1 15697 15697 2.6312 1.4164 1 1375100 + 8013 17277 5143 5160 9384 9384 0.14683716741933495 GPILFVPRTVL 11 Unmodified _GPILFVPRTVL_ 0 0 0 REV__ENST00000550078.2_2_1:203764919-203765303:+|nuORF REV__ENST00000550078.2_2_1:203764919-203765303:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 404.5901184082031 3 404.588536 1210.74378 2.9165 0.00118 0.90962 0.00036802 3.8261 0.001548 404.5887410745076 31.845 0.51869 32.463 32.287 32.806 0.61736 79 32 4 0 0 0 0.91104 1 14652 14652 1.2148 1.2148 1 1257900 + 8014 17277 5143 5160 9385 9385 0.14683716741933495 GPILFVPRTVL 11 Unmodified _GPILFVPRTVL_ 0 0 0 REV__ENST00000550078.2_2_1:203764919-203765303:+|nuORF REV__ENST00000550078.2_2_1:203764919-203765303:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 404.588536 1210.74378 2.9218 0.0011821 0.35264 0.00014268 3.2745 0.0013248 404.58874547118677 34.676 0.20565 35.298 35.115 35.32 0.62294 -0.0018238 -0.00048906 NaN 2.6312 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 974300 + 8015 17277 5143 5160 0.14683716741933495 GPILFVPRTVL 11 Unmodified _GPILFVPRTVL_ 0 0 0 REV__ENST00000550078.2_2_1:203764919-203765303:+|nuORF REV__ENST00000550078.2_2_1:203764919-203765303:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 303.693221 1210.74378 2.1006 0.00063793 1.5795 0.00047968 3.6801 0.0011176 303.6936576048844 31.851 0.69293 32.468 32.267 32.96 0.61736 0.12619 0.00031139 NaN 1.2148 122 44 4 NaN NaN NaN NaN 0 NaN NaN 0 2942100 + 8016 17277 5143 5160 0.14683716741933495 GPIYFTTFVFF 11 Unmodified _GPIYFTTFVFF_ 0 0 0 nc|ENSG00000118762|Q13563-3|PKD2;ENSG00000118762|ENST00000237596|PKD2;nc|ENSG00000118762|Q13563-5|PKD2 nc|ENSG00000118762|Q13563-3|PKD2 nc|ENSG00000118762|Q13563-3|PKD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 669.8422241210938 2 669.842082 1337.66961 NaN NaN NaN NaN NaN NaN NaN 58.542 1 58.804 58.304 59.304 0.26227 0 0 0 1.0071 1 26811 26811 1.4819 0 1 8017 2123 5144 5161 9386 9386 0.01428328859742578 GPKKTKRE 8 Unmodified _GPKKTKRE_ 0 0 0 nc|ENSG00000154767|Q01831-2|XPC;ENSG00000154767|ENST00000285021|XPC nc|ENSG00000154767|Q01831-2|XPC nc|ENSG00000154767|Q01831-2|XPC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.28955078125 2 472.287808 942.561064 3.3695 0.0015914 0.84535 0.00039925 4.2148 0.0019906 472.28831019479253 90.943 0.82042 91.195 90.913 91.734 0.25163 135 39 5 0 0 0 0.7471 2 41788 41788;41837 0.69038 0 1 68593000 8018 3839 5145 5162 9387;9388 9387 0.0874858239999412 GPKQLMTVPR 10 Unmodified _GPKQLMTVPR_ 0 0 0 REV__ENST00000216629.10_1_14:96730083-96730179:+|nuORF REV__ENST00000216629.10_1_14:96730083-96730179:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.2205810546875 3 376.218226 1125.63285 NaN NaN NaN NaN NaN NaN NaN 88.536 1 89.214 88.714 89.714 0.67818 0 0 0 1.0003 1 40774 40774 0.62683 0 1 + 8019 14815 5146 5163 9389 9389 0.07505753762211498 GPKQLPFIDI 10 Unmodified _GPKQLPFIDI_ 0 0 0 ENST00000532159.1_1_11:35006119-35006326:+|nuORF;nc|ENSG00000110435|O00330-2|PDHX;nc|ENSG00000110435|O00330-3|PDHX;ENSG00000110435|ENST00000227868|PDHX ENST00000532159.1_1_11:35006119-35006326:+|nuORF ENST00000532159.1_1_11:35006119-35006326:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.55438232421875 3 376.553492 1126.63865 2.1396 0.00080567 0.31264 0.00011773 2.4522 0.00092339 376.55371701642986 13.214 0.18835 13.457 13.361 13.549 0.24346 21 13 2 0 0 0 0.83621 1 5769 5769 3.5871 0 1 206600 8020 1716 5147 5164 9390 9390 0.08039175545513899 GPKQQYWRIWF 11 Unmodified _GPKQQYWRIWF_ 0 0 0 REV__nc|ENSG00000211643|A0A0A0MRZ9|IGLV5-52 REV__nc|ENSG00000211643|A0A0A0MRZ9|IGLV5-52 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 754.8914184570312 2 754.893503 1507.77245 NaN NaN NaN NaN NaN NaN NaN 57.18 1 57.848 57.348 58.348 0.66829 0 0 0 1.0071 1 26163 26163 1.4819 1.1313 1 + 8021 18118 5148 5165 9391 9391 0.038878343710621266 GPKRKPVKS 9 Unmodified _GPKRKPVKS_ 0 0 0 ENSG00000159761|ENST00000403458|C16orf86 ENSG00000159761|ENST00000403458|C16orf86 ENSG00000159761|ENST00000403458|C16orf86 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 332.87249755859375 3 332.881943 995.623999 1.7034 0.00056702 1.3015 0.00043324 3.0048 0.0010003 332.8824985354148 51.55 0.082886 52.368 52.319 52.402 0.81738 5 3 2 0 0 0 1.1022 1 23496 23496 2.2828 1.3205 1 166520 8022 4034 5149 5166 9392 9392 0.1260114818803686 GPKRTPLP 8 Unmodified _GPKRTPLP_ 0 0 0 REV__ENST00000467243.5_1_9:140449560-140449680:-|nuORF REV__ENST00000467243.5_1_9:140449560-140449680:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 432.90478515625 2 433.266345 864.518136 2.16 0.00093585 0.1012 4.3848E-05 2.2612 0.0009797 433.2664659256691 12.558 0.20232 12.865 12.794 12.996 0.30727 9 6 2 0 0 0 0.075603 1 5642 5642 30.225 0 1 3717100 + 8023 16553 5150 5167 9393 9393 0.08045812342561476 GPKVRPPPLD 10 Unmodified _GPKVRPPPLD_ 0 0 0 REV__ENST00000380775.3_7:74298902-74299554:-|nuORF REV__ENST00000380775.3_7:74298902-74299554:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.9222412109375 2 538.316566 1074.61858 NaN NaN NaN NaN NaN NaN NaN 12.878 1 13.139 12.639 13.639 0.26154 0 0 0 0.99733 1 5605 5605 3.9444 0.3479 1 + 8024 15885 5151 5168 9394 9394 0.0842542460554796 GPKYEYRWQDD 11 Unmodified _GPKYEYRWQDD_ 0 0 0 ENSG00000120162|ENST00000262244|MOB3B ENSG00000120162|ENST00000262244|MOB3B ENSG00000120162|ENST00000262244|MOB3B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 728.90380859375 2 728.828223 1455.64189 NaN NaN NaN NaN NaN NaN NaN 41.716 1 41.986 41.486 42.486 0.27021 0 0 0 1.0071 1 19006 19006 1.4819 0.95714 1 8025 2182 5152 5169 9395 9395 -0.0677022613842837 GPLDIMGPLDP 11 Unmodified _GPLDIMGPLDP_ 0 0 0 REV__ENST00000528205.1_1_11:57472131-57479651:-|nuORF REV__ENST00000528205.1_1_11:57472131-57479651:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.322021484375 2 562.78645 1123.55835 3.7674 0.0021203 0.27042 0.00015219 4.0378 0.0022724 563.288541132232 45.142 0.27678 45.793 45.661 45.938 0.65092 12 9 2 0 0 0 0.13295 1 20653 20653 13.042 0.80181 1 279020 + 8026 17113 5153 5170 9396 9396 0.0015094616016995133 GPLLLIEGV 9 Unmodified _GPLLLIEGV_ 0 0 0 REV__ENSG00000111452|ENST00000261654|ADGRD1 REV__ENSG00000111452|ENST00000261654|ADGRD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.19305419921875 3 304.191783 909.553519 NaN NaN NaN NaN NaN NaN NaN 40.876 1 41.68 41.18 42.18 0.80351 0 0 0 0.90431 1 18529 18529 2.4985 0 1 + 8027 11236 5154 5171 9397 9397 0.0951243007971243 GPLLPWRRRDR 11 Unmodified _GPLLPWRRRDR_ 0 0 0 REV__ENST00000372022.5_1_9:136197973-136198507:-|nuORF REV__ENST00000372022.5_1_9:136197973-136198507:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 711.4581909179688 2 711.415469 1420.81638 NaN NaN NaN NaN NaN NaN NaN 54.564 1 54.829 54.329 55.329 0.26543 0 0 0 1.0071 1 24942 24942 1.4819 0 1 + 8028 15743 5155 5172 9398 9398 0.12280863588034663 GPLLRRRWEW 10 Unmodified _GPLLRRRWEW_ 0 0 0 REV__ENST00000333503.7_1_16:2263066-2263321:-|nuORF REV__ENST00000333503.7_1_16:2263066-2263321:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 684.8841552734375 2 684.886013 1367.75747 NaN NaN NaN NaN NaN NaN NaN 43.38 1 44.029 43.529 44.529 0.64872 0 0 0 0.99983 1 19877 19877 1.8442 0.19162 1 + 8029 15397 5156 5173 9399 9399 0.08830387293755848 GPLPRLRLRKA 11 Unmodified _GPLPRLRLRKA_ 0 0 0 nc|ENSG00000106868|Q6UWL2-3|SUSD1;ENSG00000106868|ENST00000374270|SUSD1;nc|ENSG00000106868|Q6UWL2-2|SUSD1 nc|ENSG00000106868|Q6UWL2-3|SUSD1 nc|ENSG00000106868|Q6UWL2-3|SUSD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 638.9204711914062 2 638.919855 1275.82516 NaN NaN NaN NaN NaN NaN NaN 27.821 1 28.083 27.583 28.583 0.26245 0 0 0 1.008 1 12651 12651 0.35063 0.043601 1 8030 1587 5157 5174 9400 9400 0.1982783722453405 GPLRGRVEELK 11 Unmodified _GPLRGRVEELK_ 0 0 0 ENSG00000125998|ENST00000374408|FAM83C ENSG00000125998|ENST00000374408|FAM83C ENSG00000125998|ENST00000374408|FAM83C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 627.2957153320312 2 627.369861 1252.72517 NaN NaN NaN NaN NaN NaN NaN 59.811 1 60.56 60.06 61.06 0.74927 0 0 0 0.89058 1 27484 27484 17.113 4.0704 1 8031 2439 5158 5175 9401 9401 0.10891555100079131 GPLSTEPQ 8 Unmodified _GPLSTEPQ_ 0 0 0 REV__ENST00000491136.6_1_1:52823963-52826194:-|nuORF REV__ENST00000491136.6_1_1:52823963-52826194:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 828.4131469726562 1 828.409774 827.402498 3.9483 0.0032708 0.17508 0.00014504 4.1234 0.0034159 828.4101933761411 31.073 0.45304 31.691 31.505 31.958 0.61737 40 29 2 0 0 0 0.59268 1 14207 14207 14.582 2.0501 1 319230 + 8032 9989 5159 5176 9402 9402 -0.01810756298959859 GPMKEPTIKFY 11 Unmodified _GPMKEPTIKFY_ 0 0 0 nc|ENSG00000180815|Q6ZN16-2|MAP3K15;nc|ENSG00000180815|Q6ZN16-3|MAP3K15;ENST00000518578.5_1_X:19378869-19431499:-|nuORF;MAP3K15|p.E1259*|1|0.27|ENSG00000180815|chrX:19361498-19361499|-/A|frameshift_variant;ENSG00000180815|ENST00000338883|MAP3K15 nc|ENSG00000180815|Q6ZN16-2|MAP3K15 nc|ENSG00000180815|Q6ZN16-2|MAP3K15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.8455810546875 2 655.844299 1309.67404 3.9764 0.0026079 -2.4728 -0.0016218 1.5035 0.00098609 655.8423640968251 46.954 0.18753 47.218 47.124 47.312 0.26363 11 5 3 0 0 0 0.80294 1 21491 21491 6.7232 0.51738 1 364530 8033 5264 5160 5177 9403 9403 0.03159470011019039 GPMRRRRKRRS 11 Unmodified _GPMRRRRKRRS_ 0 0 0 REV__ENST00000502669.5_1_4:8230233-8239327:+|nuORF REV__ENST00000502669.5_1_4:8230233-8239327:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 728.4385375976562 2 728.436744 1454.85893 NaN NaN NaN NaN NaN NaN NaN 52.022 1 52.684 52.184 53.184 0.66198 0 0 0 1.0071 1 23789 23789 1.4819 1.1749 1 + 8034 14889 5161 5178 9404 9404 0.1496993544462839 GPNAKRIAQL 10 Unmodified _GPNAKRIAQL_ 0 0 0 REV__MTMR7|p.K393Nfs*5|1|0.19|ENSG00000003987|chr8:17305923-17305930|AGATTTCT/-|frameshift_variant REV__MTMR7|p.K393Nfs*5|1|0.19|ENSG00000003987|chr8:17305923-17305930|AGATTTCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 356.5504150390625 3 356.548852 1066.62473 1.8776 0.00066946 2.3164 0.0008259 4.194 0.0014954 356.5498239070121 12.679 0.11395 12.987 12.909 13.023 0.30727 6 3 2 0 0 0 0.78883 1 5735 5735 8.9762 1.8745 1 1423300 + 8035 10160 5162 5179 9405 9405 0.09407942837083283 GPNEEEYFINT 11 Unmodified _GPNEEEYFINT_ 0 0 0 REV__ENSG00000160445|ENST00000291900|ZER1 REV__ENSG00000160445|ENST00000291900|ZER1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 656.7896118164062 2 656.788232 1311.56191 NaN NaN NaN NaN NaN NaN NaN 52.247 1 52.908 52.408 53.408 0.66198 0 0 0 1.0059 1 23889 23889 2.9952 1.5133 1 + 8036 12880 5163 5180 9406 9406 -0.08140712532258476 GPPGLTTT 8 Unmodified _GPPGLTTT_ 0 0 0 ENSG00000108557|ENST00000353383|RAI1;nc|ENSG00000258436|Q7Z5J4-2|RAI1;nc|ENSG00000258436|Q7Z5J4-3|RAI1 ENSG00000108557|ENST00000353383|RAI1 ENSG00000108557|ENST00000353383|RAI1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 372.20233154296875 2 372.200336 742.386119 2.7249 0.0010142 2.265 0.00084302 4.9898 0.0018572 372.20091840275 36.656 0.43632 37.286 37.109 37.545 0.62999 33 18 2 0 0 0 0.7471 1 16821 16821 0.79363 0 1 5719400 8037 1637 5164 5181 9407 9407 0.004621625349386704 GPPGLTTT 8 Unmodified _GPPGLTTT_ 0 0 0 ENSG00000108557|ENST00000353383|RAI1;nc|ENSG00000258436|Q7Z5J4-2|RAI1;nc|ENSG00000258436|Q7Z5J4-3|RAI1 ENSG00000108557|ENST00000353383|RAI1 ENSG00000108557|ENST00000353383|RAI1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 372.200336 742.386119 2.7999 0.0010421 1.91 0.00071091 4.7099 0.001753 372.2007022850397 36.914 0.41756 37.172 36.929 37.347 0.25768 -0.057037 -0.00013491 NaN 0.79363 36 13 4 NaN NaN NaN NaN 0 NaN NaN 0 5876100 8038 1637 5164 5181 0.004621625349386704 GPPGPLQLSD 10 Unmodified _GPPGPLQLSD_ 0 0 0 REV__ENST00000451179.5_1_2:114013122-114020997:+|nuORF REV__ENST00000451179.5_1_2:114013122-114020997:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 327.50848388671875 3 327.50643 979.497461 NaN NaN NaN NaN NaN NaN NaN 27.293 1 27.556 27.056 28.056 0.26245 0 0 0 0.99976 1 12405 12405 1.9064 0.25375 1 + 8039 16187 5165 5182 9408 9408 0.006891771722393969 GPPRVPRRHRP 11 Unmodified _GPPRVPRRHRP_ 0 0 0 REV__ENST00000445498.5_1_10:11936426-11936693:-|nuORF REV__ENST00000445498.5_1_10:11936426-11936693:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 662.8944091796875 2 662.894703 1323.77485 NaN NaN NaN NaN NaN NaN NaN 46.525 1 46.79 46.29 47.29 0.26561 0 0 0 1.0071 1 21264 21264 1.4819 0 1 + 8040 16377 5166 5183 9409 9409 0.125917276194059 GPPTRRATRRH 11 Unmodified _GPPTRRATRRH_ 0 0 0 REV__ENSG00000206181|ENST00000332567|ELOA2 REV__ENSG00000206181|ENST00000332567|ELOA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 652.87548828125 2 652.873968 1303.73338 NaN NaN NaN NaN NaN NaN NaN 104.69 1 105.01 104.51 105.51 0.31863 0 0 0 1.0061 1 48328 48328 2.7352 0.89096 1 + 8041 14474 5167 5184 9410 9410 0.0936654686008751 GPPYRFDRYR 10 Unmodified _GPPYRFDRYR_ 0 0 0 REV__AFF1-ANO6|1|fusion REV__AFF1-ANO6|1|fusion MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.8362426757812 2 663.838728 1325.6629 NaN NaN NaN NaN NaN NaN NaN 65.996 1 66.244 65.744 66.744 0.24848 0 0 0 0.99983 1 30233 30233 1.8442 0.19162 1 + 8042 9931 5168 5185 9411 9411 0.013098287517550489 GPQILKLLIKF 11 Unmodified _GPQILKLLIKF_ 0 0 0 nc|ENSG00000103222|P33527-5|ABCC1;nc|ENSG00000103222|P33527-2|ABCC1;nc|ENSG00000103222|P33527-3|ABCC1;ENSG00000103222|ENST00000399410|ABCC1;nc|ENSG00000103222|P33527-9|ABCC1;nc|ENSG00000103222|P33527-8|ABCC1;nc|ENSG00000103222|P33527-6|ABCC1;nc|ENSG00000103222|P33527-7|ABCC1;nc|ENSG00000103222|P33527-4|ABCC1;ENST00000574224.1_1_16:16108407-16150188:+|nuORF nc|ENSG00000103222|P33527-5|ABCC1 nc|ENSG00000103222|P33527-5|ABCC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 635.4197998046875 2 635.418291 1268.82203 NaN NaN NaN NaN NaN NaN NaN 67.174 1 67.424 66.924 67.924 0.2501 0 0 0 1.0071 1 30772 30772 1.4819 1.0236 1 8043 1383 5169 5186 9412 9412 0.19837149327145198 GPQLFIPRLSL 11 Unmodified _GPQLFIPRLSL_ 0 0 0 REV__ENSG00000148843|ENST00000369797|PDCD11 REV__ENSG00000148843|ENST00000369797|PDCD11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 620.8776245117188 2 620.874248 1239.73394 3.622 0.0022488 2.164 0.0013436 5.7861 0.0035924 620.8752465992151 49.945 0.14342 50.206 50.133 50.277 0.26146 7 4 2 0 0 0 0.88721 1 22845 22845 2.9952 0 1 406480 + 8044 12552 5170 5187 9413 9413 0.12366528736561122 GPQSFWYKYRQ 11 Unmodified _GPQSFWYKYRQ_ 0 0 0 REV__nc|ENSG00000100258|Q9BU23-3|LMF2 REV__nc|ENSG00000100258|Q9BU23-3|LMF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 730.3571166992188 2 730.359493 1458.70443 NaN NaN NaN NaN NaN NaN NaN 63.285 1 63.533 63.033 64.033 0.24803 0 0 0 1.0071 1 28982 28982 1.4819 0 1 + 8045 10815 5171 5188 9414 9414 -0.006570352795961298 GPRAAECLD 9 Unmodified _GPRAAECLD_ 0 0 0 LTBP4|p.V1269Cfs*3|1|0.26|ENSG00000090006|chr19:40623651-40623651|G/-|frameshift_variant;ENSG00000090006|ENST00000396819|LTBP4;nc|ENSG00000090006|Q8N2S1-3|LTBP4;nc|ENSG00000090006|Q8N2S1|LTBP4 LTBP4|p.V1269Cfs*3|1|0.26|ENSG00000090006|chr19:40623651-40623651|G/-|frameshift_variant LTBP4|p.V1269Cfs*3|1|0.26|ENSG00000090006|chr19:40623651-40623651|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 311.1480407714844 3 311.148248 930.422915 NaN NaN NaN NaN NaN NaN NaN 59.488 1 59.748 59.248 60.248 0.2593 0 0 0 0.90431 1 27242 27242 2.4985 0 1 8046 1053 5172 5189 9415 9415 -0.04507908910807146 GPREPPPYQEP 11 Unmodified _GPREPPPYQEP_ 0 0 0 nc|ENSG00000204580|Q08345-2|DDR1;nc|ENSG00000204580|Q08345-6|DDR1;ENSG00000204580|ENST00000376568|DDR1;nc|ENSG00000204580|Q08345-5|DDR1;ENST00000465966.4_1_6:30861134-30864801:+|nuORF;ENST00000417521.5_1_6:30861115-30864801:+|nuORF nc|ENSG00000204580|Q08345-2|DDR1 nc|ENSG00000204580|Q08345-2|DDR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 634.19677734375 2 633.809302 1265.60405 NaN NaN NaN NaN NaN NaN NaN 81.305 1 81.474 80.974 81.974 0.16862 0 0 0 1.0059 1 39951 39951 2.9952 0 1 8047 6021 5173 5190 9416 9416 -0.01812692333260202 GPRMDTYVYVD 11 Unmodified _GPRMDTYVYVD_ 0 0 0 REV__nc|ENSG00000150275|Q96QU1-3|PCDH15 REV__nc|ENSG00000150275|Q96QU1-3|PCDH15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 658.764404296875 2 658.302995 1314.59144 NaN NaN NaN NaN NaN NaN NaN 53.931 1 54.196 53.696 54.696 0.26462 0 0 0 1.0061 1 24662 24662 2.7352 1.2533 1 + 8048 12586 5174 5191 9417 9417 -0.053274717877911826 GPRQRRQKRDR 11 Unmodified _GPRQRRQKRDR_ 0 0 0 REV__ENSG00000075213|ENST00000265362|SEMA3A REV__ENSG00000075213|ENST00000265362|SEMA3A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 726.9215698242188 2 726.921981 1451.82941 NaN NaN NaN NaN NaN NaN NaN 38.352 1 38.617 38.117 39.117 0.26408 0 0 0 1.0071 1 17462 17462 1.4819 1.1749 1 + 8049 10524 5175 5192 9418 9418 0.1215669470013836 GPRRERFRLDE 11 Unmodified _GPRRERFRLDE_ 0 0 0 REV__ENST00000498308.1_1_7:5111775-5112846:+|nuORF REV__ENST00000498308.1_1_7:5111775-5112846:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 715.88427734375 2 715.884198 1429.75384 NaN NaN NaN NaN NaN NaN NaN 40.357 1 40.626 40.126 41.126 0.26904 0 0 0 1.0071 1 18360 18360 1.4819 0 1 + 8050 16869 5176 5193 9419 9419 0.05615672729209109 GPRRRNFPRR 10 Unmodified _GPRRRNFPRR_ 0 0 0 REV__ENST00000423432.6_1_X:71483217-71483493:+|nuORF REV__ENST00000423432.6_1_X:71483217-71483493:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 656.3837890625 2 656.384503 1310.75445 NaN NaN NaN NaN NaN NaN NaN 51.832 1 52.094 51.594 52.594 0.26227 0 0 0 0.99983 1 23691 23691 1.8442 0 1 + 8051 16192 5177 5194 9420 9420 0.11150556959569258 GPRSRWCGCS 10 Unmodified _GPRSRWCGCS_ 0 0 0 ENST00000382788.7_1_4:3433164-3433590:+|nuORF ENST00000382788.7_1_4:3433164-3433590:+|nuORF ENST00000382788.7_1_4:3433164-3433590:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.079345703125 2 554.742385 1107.47022 NaN NaN NaN NaN NaN NaN NaN 19.358 1 19.656 19.156 20.156 0.29753 0 0 0 1.0001 1 8803 8803 1.6526 0.85899 1 8052 7495 5178 5195 9421 9421 -0.07921952911442531 GPSRRLQLQQH 11 Unmodified _GPSRRLQLQQH_ 0 0 0 ENST00000541337.5_1_5:139422034-139422808:-|nuORF ENST00000541337.5_1_5:139422034-139422808:-|nuORF ENST00000541337.5_1_5:139422034-139422808:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 660.3690795898438 2 660.368184 1318.72182 NaN NaN NaN NaN NaN NaN NaN 46.665 1 46.93 46.43 47.43 0.26561 0 0 0 1.0057 1 21327 21327 3.2813 1.4371 1 8053 8808 5179 5196 9422 9422 0.07520305046068643 GPSTPPLLTF 10 Unmodified _GPSTPPLLTF_ 0 0 0 REV__ENST00000489655.1_1_2:74689957-74690534:-|nuORF REV__ENST00000489655.1_1_2:74689957-74690534:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.2862548828125 2 515.2844 1028.55425 3.5003 0.0018037 0.039424 2.0315E-05 3.5398 0.001824 515.2843307216986 84.998 0.33986 85.245 85.131 85.471 0.24757 27 20 2 0 0 0 0.68517 1 39141 39141 13.906 0.86358 1 460980 + 8054 11353 5180 5197 9423 9423 0.04111224728740126 GPSTYQRRSRW 11 Unmodified _GPSTYQRRSRW_ 0 0 0 ENSG00000137860|ENST00000347644|SLC28A2 ENSG00000137860|ENST00000347644|SLC28A2 ENSG00000137860|ENST00000347644|SLC28A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 697.358154296875 2 697.357816 1392.70108 NaN NaN NaN NaN NaN NaN NaN 55.608 1 55.874 55.374 56.374 0.26543 0 0 0 1.0057 1 25430 25430 3.2813 1.4371 1 8055 3050 5181 5198 9424 9424 0.020437146663880412 GPTCDPAA 8 Unmodified _GPTCDPAA_ 0 0 0 REV__nc|ENSG00000249471|Q6AW86-2|ZNF324B REV__nc|ENSG00000249471|Q6AW86-2|ZNF324B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 365.881591796875 2 366.155071 730.29559 NaN NaN NaN NaN NaN NaN NaN 17.804 1 17.804 17.304 18.304 0 0 0 0 0.99035 1 7905 7905 2.5775 0 1 + 8056 14647 5182 5199 9425 9425 -0.0803462978499283 GPTPPRYFRHK 11 Unmodified _GPTPPRYFRHK_ 0 0 0 REV__ENSG00000104237|ENST00000220676|RP1 REV__ENSG00000104237|ENST00000220676|RP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 678.3701171875 2 678.370195 1354.72584 NaN NaN NaN NaN NaN NaN NaN 53.577 1 54.241 53.741 54.741 0.6644 0 0 0 1.0071 1 24501 24501 1.4819 0 1 + 8057 10985 5183 5200 9426 9426 0.06266394539784415 GPVKKRRRTKR 11 Unmodified _GPVKKRRRTKR_ 0 0 0 REV__nc|ENSG00000070047|Q9P1Y6-2|PHRF1 REV__nc|ENSG00000070047|Q9P1Y6-2|PHRF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 691.4497680664062 2 691.452385 1380.89022 NaN NaN NaN NaN NaN NaN NaN 43.561 1 43.831 43.331 44.331 0.27021 0 0 0 1.0071 1 19897 19897 1.4819 1.4819 1 + 8058 10474 5184 5201 9427 9427 0.21500831750381622 GPVLGKRRKK 10 Unmodified _GPVLGKRRKK_ 0 0 0 REV__ENSG00000135093|ENST00000257548|USP30 REV__ENSG00000135093|ENST00000257548|USP30 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.2763671875 2 569.880199 1137.74584 NaN NaN NaN NaN NaN NaN NaN 81.129 1 81.298 80.798 81.798 0.16862 0 0 0 1.0015 1 39832 39832 0.45834 0 1 + 8059 11998 5185 5202 9428 9428 0.1824819027040121 GPVLLRKLP 9 Unmodified _GPVLLRKLP_ 0 0 0 REV__nc|ENSG00000126456|Q14653-2|IRF3 REV__nc|ENSG00000126456|Q14653-2|IRF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.8327331542969 2 496.834394 991.654236 NaN NaN NaN NaN NaN NaN NaN 91.257 1 91.257 90.757 91.757 0 0 0 0 0.89315 1 48152 48152 5.2307 0 1 + 8060 11709 5186 5203 9429 9429 0.15807506853207087 GPVRLSRTRTK 11 Unmodified _GPVRLSRTRTK_ 0 0 0 nc|ENSG00000166016|Q8N961-2|ABTB2;ENSG00000166016|ENST00000435224|ABTB2 nc|ENSG00000166016|Q8N961-2|ABTB2 nc|ENSG00000166016|Q8N961-2|ABTB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 635.869873046875 2 635.888752 1269.76295 NaN NaN NaN NaN NaN NaN NaN 45.972 1 46.798 46.298 47.298 0.82621 0 0 0 1.0057 1 20938 20938 3.2813 0 1 8061 4446 5187 5204 9430 9430 0.13886066085524362 GPVRRRRWRWE 11 Unmodified _GPVRRRRWRWE_ 0 0 0 REV__ENST00000574710.1_1_17:4843168-4843264:-|nuORF REV__ENST00000574710.1_1_17:4843168-4843264:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 777.4347534179688 2 777.437267 1552.85998 NaN NaN NaN NaN NaN NaN NaN 46.543 1 46.808 46.308 47.308 0.26561 0 0 0 1.0071 1 21272 21272 1.4819 1.1749 1 + 8062 17468 5188 5205 9431 9431 0.10566473085191319 GPWLLRERWW 10 Unmodified _GPWLLRERWW_ 0 0 0 REV__ENST00000314138.10_1_11:8709525-8709774:+|nuORF REV__ENST00000314138.10_1_11:8709525-8709774:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 699.8748779296875 2 699.875114 1397.73567 NaN NaN NaN NaN NaN NaN NaN 66.523 1 66.771 66.271 67.271 0.24848 0 0 0 1.0015 1 30476 30476 0.45834 0 1 + 8063 15281 5189 5206 9432 9432 0.052715825451741694 GPWQETSCD 9 Unmodified _GPWQETSCD_ 0 0 0 REV__nc|ENSG00000008226|Q9Y238-3|DLEC1 REV__nc|ENSG00000008226|Q9Y238-3|DLEC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 341.4784240722656 3 341.467647 1021.38111 NaN NaN NaN NaN NaN NaN NaN 38.216 1 38.216 37.716 38.716 0 0 0 0 0.91206 1 17343 17343 0.26902 0 1 + 8064 10206 5190 5207 9433 9433 -0.1287250938996749 GPWQETSCD 9 Unmodified _GPWQETSCD_ 0 0 0 REV__nc|ENSG00000008226|Q9Y238-3|DLEC1 REV__nc|ENSG00000008226|Q9Y238-3|DLEC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 341.4782409667969 3 341.467647 1021.38111 NaN NaN NaN NaN NaN NaN NaN 38.328 1 38.328 37.828 38.828 0 0 0 0 0.91206 1 17395 17395 0.26902 0.033176 1 + 8065 10206 5190 5207 9434 9434 -0.1287250938996749 GPWQETSCD 9 Unmodified _GPWQETSCD_ 0 0 0 REV__nc|ENSG00000008226|Q9Y238-3|DLEC1 REV__nc|ENSG00000008226|Q9Y238-3|DLEC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 341.47845458984375 3 341.467647 1021.38111 NaN NaN NaN NaN NaN NaN NaN 38.441 1 38.441 37.941 38.941 0 0 0 0 0.91206 1 17447 17447 0.26902 0.033176 1 + 8066 10206 5190 5207 9435 9435 -0.1287250938996749 GPWRRRRRMMT 11 Unmodified _GPWRRRRRMMT_ 0 0 0 CLEC17A|p.S55Ffs*66|1|0.33|ENSG00000187912|chr19:14587654-14587655|-/TT|frameshift_variant CLEC17A|p.S55Ffs*66|1|0.33|ENSG00000187912|chr19:14587654-14587655|-/TT|frameshift_variant CLEC17A|p.S55Ffs*66|1|0.33|ENSG00000187912|chr19:14587654-14587655|-/TT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 751.9034423828125 2 751.90643 1501.79831 NaN NaN NaN NaN NaN NaN NaN 55.299 1 55.565 55.065 56.065 0.26543 0 0 0 1.0071 1 25287 25287 1.4819 0.41044 1 8067 195 5191 5208 9436 9436 0.06748082070043893 GPWWHKWRRWG 11 Unmodified _GPWWHKWRRWG_ 0 0 0 REV__ENST00000373115.4_1_10:73771236-73771377:+|nuORF REV__ENST00000373115.4_1_10:73771236-73771377:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 776.3944702148438 2 776.397079 1550.7796 NaN NaN NaN NaN NaN NaN NaN 97.05 1 97.328 96.828 97.828 0.27778 0 0 0 1.008 1 44579 44579 0.35063 0.043601 1 + 8068 15763 5192 5209 9437 9437 0.026246117621440135 GPYDCYHIRRK 11 Unmodified _GPYDCYHIRRK_ 0 0 0 REV__nc|ENSG00000102554|Q13887-2|KLF5 REV__nc|ENSG00000102554|Q13887-2|KLF5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 704.3507080078125 2 704.351145 1406.68774 NaN NaN NaN NaN NaN NaN NaN 52.314 1 52.576 52.076 53.076 0.26227 0 0 0 1.0071 1 23915 23915 1.4819 0 1 + 8069 10932 5193 5210 9438 9438 0.0006614056276248448 GPYIQLEWFWF 11 Unmodified _GPYIQLEWFWF_ 0 0 0 REV__ENST00000238497.9_1_18:61064415-61066538:-|nuORF REV__ENST00000238497.9_1_18:61064415-61066538:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 743.3668212890625 2 743.363713 1484.71287 NaN NaN NaN NaN NaN NaN NaN 51.98 1 52.242 51.742 52.742 0.26227 0 0 0 1.0071 1 23761 23761 1.4819 1.1313 1 + 8070 14873 5194 5211 9439 9439 -0.010094813629621058 GPYLWFYMLR 10 Unmodified _GPYLWFYMLR_ 0 0 0 nc|ENSG00000151327|Q8N128|FAM177A1;ENSG00000151327|ENST00000280987|FAM177A1 nc|ENSG00000151327|Q8N128|FAM177A1 nc|ENSG00000151327|Q8N128|FAM177A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 673.3388671875 2 673.341726 1344.6689 NaN NaN NaN NaN NaN NaN NaN 55.331 1 55.597 55.097 56.097 0.26543 0 0 0 0.99983 1 25302 25302 1.8442 0.36234 1 8071 3700 5195 5212 9440 9440 0.010352109390396436 GPYTVIKRRK 10 Unmodified _GPYTVIKRRK_ 0 0 0 REV__ENSG00000146386|ENST00000367660|ABRACL REV__ENSG00000146386|ENST00000367660|ABRACL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 609.3800659179688 2 609.377489 1216.74043 NaN NaN NaN NaN NaN NaN NaN 12.485 1 13.128 12.628 13.628 0.64272 0 0 0 0.99774 1 5600 5600 3.5965 1.7523 1 + 8072 12473 5196 5213 9441 9441 0.1407246668791231 GQFCWLHHSH 10 Unmodified _GQFCWLHHSH_ 0 0 0 REV__ENST00000525598.1_1_11:118984241-118984860:+|nuORF REV__ENST00000525598.1_1_11:118984241-118984860:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 625.800048828125 2 626.277449 1250.54035 NaN NaN NaN NaN NaN NaN NaN 89.504 1 89.755 89.255 90.255 0.25118 0 0 0 0.99774 1 41165 41165 3.5965 0.31518 1 + 8073 17084 5197 5214 9442 9442 -0.07490331251347015 GQIKNVLIPKM 11 Unmodified _GQIKNVLIPKM_ 0 0 0 ENSG00000213186|ENST00000309784|TRIM59;nc|ENSG00000068885|Q9P2H3-3|IFT80 ENSG00000213186|ENST00000309784|TRIM59 ENSG00000213186|ENST00000309784|TRIM59 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 310.94158935546875 4 310.941605 1239.73731 1.8329 0.00056993 -1.1088 -0.00034476 0.72414 0.00022516 310.9410706666289 47.784 0.33841 47.784 47.686 48.025 0 50 20 3 0 0 0 0.91068 1 21885 21885 1.3296 0.11481 1 4068600 8074 6084 5198 5215 9443 9443 0.12703455518908413 GQLIRTRNL 9 Unmodified _GQLIRTRNL_ 0 0 0 REV__ENST00000558616.1_1_15:40062782-40093530:-|nuORF REV__ENST00000558616.1_1_15:40062782-40093530:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.8812561035156 3 357.552485 1069.63563 1.8406 0.00065813 -3.8404 -0.0013732 -1.9998 -0.00071503 357.5510836337824 12.545 0.11149 12.852 12.77 12.882 0.30727 5 3 2 0 0 0 0.10043 1 5618 5618 9.544 0 1 1929400 + 8075 17349 5199 5216 9444 9444 0.10359345211372784 GQLLTKKYFLL 11 Unmodified _GQLLTKKYFLL_ 0 0 0 PLXNA1|p.H1366Y|1|0.21|ENSG00000114554|chr3:127022142-127022142|C/T|missense_variant PLXNA1|p.H1366Y|1|0.21|ENSG00000114554|chr3:127022142-127022142|C/T|missense_variant PLXNA1|p.H1366Y|1|0.21|ENSG00000114554|chr3:127022142-127022142|C/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.27520751953125 3 441.939346 1322.79621 2.9305 0.0012951 1.1611 0.00051314 4.0917 0.0018083 441.939710843427 53.713 0.32924 54.378 54.186 54.516 0.6644 48 18 3 0 0 0 0.89309 1 24526 24526 1.1098 0.24538 1 1620700 8076 9909 5200 5217 9445 9445 0.1477225508488118 GQLNHFHI 8 Unmodified _GQLNHFHI_ 0 0 0 REV__nc|ENSG00000072042|Q8TC12-2|RDH11 REV__nc|ENSG00000072042|Q8TC12-2|RDH11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.2545471191406 2 483.251226 964.487899 3.1334 0.0015142 0.13069 6.3154E-05 3.2641 0.0015774 483.25142630090863 39.022 0.51654 39.82 39.465 39.981 0.79762 46 24 3 0 0 0 0.5438 1 17618 17618 18.135 0 1 833480 + 8077 10487 5201 5218 9446 9446 0.004234536773651598 GQLRFWWRPWR 11 Unmodified _GQLRFWWRPWR_ 0 0 0 REV__ENST00000389301.7_1_16:89804327-89804663:-|nuORF REV__ENST00000389301.7_1_16:89804327-89804663:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 794.427490234375 2 794.425836 1586.83712 NaN NaN NaN NaN NaN NaN NaN 100.72 1 101.04 100.54 101.54 0.31412 0 0 0 1.0061 1 46606 46606 2.7352 0.23671 1 + 8078 15911 5202 5219 9447 9447 0.06717453967712572 GQPEIFYTF 9 Unmodified _GQPEIFYTF_ 0 0 0 nc|ENSG00000164597|Q9UP83-3|COG5;ENSG00000164597|ENST00000297135|COG5;nc|ENSG00000164597|Q9UP83-1|COG5;nc|ENSG00000164597|Q9UP83|COG5 nc|ENSG00000164597|Q9UP83-3|COG5 nc|ENSG00000164597|Q9UP83-3|COG5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.1241455078125 2 551.266207 1100.51786 NaN NaN NaN NaN NaN NaN NaN 81.396 1 81.565 81.065 82.065 0.16862 0 0 0 0.84134 1 40009 40009 7.9102 3.1541 1 8079 4325 5203 5220 9448 9448 -0.02837652167977467 GQPGERGM 8 Unmodified _GQPGERGM_ 0 0 0 REV__nc|ENSG00000133466|Q9BXI9-1|C1QTNF6 REV__nc|ENSG00000133466|Q9BXI9-1|C1QTNF6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 416.1931457519531 2 416.192519 830.370486 NaN NaN NaN NaN NaN NaN NaN 72.922 1 73.181 72.681 73.681 0.25876 0 0 0 0.99035 1 33482 33482 2.5775 0 1 + 8080 11935 5204 5221 9449 9449 -0.051484472537367765 GQPQDEDEE 9 Unmodified _GQPQDEDEE_ 0 0 0 ENSG00000197386|ENST00000355072|HTT;ENST00000510626.5_1_4:3131650-3131884:+|nuORF;HTT|p.L739Pfs*14|1|0.1|ENSG00000197386|chr4:3131752-3131758|CTCTTGA/-|frameshift_variant ENSG00000197386|ENST00000355072|HTT ENSG00000197386|ENST00000355072|HTT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.697021484375 2 523.699083 1045.38361 NaN NaN NaN NaN NaN NaN NaN 93.725 1 93.811 93.311 94.311 0.086212 0 0 0 0.89683 1 49167 49167 4.3292 0 1 8081 5813 5205 5222 9450 9450 -0.13726382451318386 GQPRLRRERK 10 Unmodified _GQPRLRRERK_ 0 0 0 REV__ENST00000424225.1_1_3:25705804-25706396:-|nuORF REV__ENST00000424225.1_1_3:25705804-25706396:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.5991516113281 3 432.597088 1294.76943 NaN NaN NaN NaN NaN NaN NaN 104.27 1 104.32 103.82 104.82 0.052994 0 0 0 1.0019 1 56465 56465 0.12286 0.039514 1 + 8082 16201 5206 5223 9451 9451 0.13384004036925035 GQQKTRKPKL 10 Unmodified _GQQKTRKPKL_ 0 0 0 ENSG00000048405|ENST00000265827|ZNF800;ZNF800|p.P577Lfs*26|1|0.43|ENSG00000048405|chr7:127373606-127373606|G/-|frameshift_variant ENSG00000048405|ENST00000265827|ZNF800 ENSG00000048405|ENST00000265827|ZNF800 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.5830383300781 3 395.247173 1182.71969 2.7472 0.0010858 -0.16079 -6.3552E-05 2.5864 0.0010223 395.2471477272661 15.527 0.89386 15.833 15.455 16.349 0.306 211 100 3 0 0 0 0.93713 1 6888 6888 0.62683 0 1 119180 8083 568 5207 5224 9452 9452 0.1356387630826248 GQRKKKRRRRR 11 Unmodified _GQRKKKRRRRR_ 0 0 0 ENST00000557589.1_1_12:56815505-56817595:-|nuORF ENST00000557589.1_1_12:56815505-56817595:-|nuORF ENST00000557589.1_1_12:56815505-56817595:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 762.998046875 2 762.998357 1523.98216 NaN NaN NaN NaN NaN NaN NaN 43.058 1 43.873 43.373 44.373 0.81444 0 0 0 1.0082 1 19593 19593 0 0 1 8084 8941 5208 5225 9453 9453 0.24112934887398296 GQRLSSWVL 9 Unmodified _GQRLSSWVL_ 0 0 0 ENST00000312234.6_1_11:65767899-65769464:-|nuORF ENST00000312234.6_1_11:65767899-65769464:-|nuORF ENST00000312234.6_1_11:65767899-65769464:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 348.86688232421875 3 349.197819 1044.57163 NaN NaN NaN NaN NaN NaN NaN 24.343 1 24.343 23.843 24.843 0 0 0 0 0.48891 1 10938 10938 19.362 0.10495 1 8085 6879 5209 5226 9454 9454 0.05112565054423612 GQRQRGHPI 9 Unmodified _GQRQRGHPI_ 0 0 0 ENST00000563934.1_1_16:20873882-20880295:-|nuORF;ENST00000324344.8_1_16:20873882-20911664:-|nuORF ENST00000563934.1_1_16:20873882-20880295:-|nuORF ENST00000563934.1_1_16:20873882-20880295:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.519287109375 3 350.196813 1047.56861 NaN NaN NaN NaN NaN NaN NaN 13.551 1 13.794 13.294 14.294 0.24346 0 0 0 0.82031 1 5919 5919 5.2969 0 1 8086 6948 5210 5227 9455 9455 0.04672734720270455 GQRRREPLVE 10 Unmodified _GQRRREPLVE_ 0 0 0 REV__ENST00000369239.9_1_6:99864293-99873181:-|nuORF REV__ENST00000369239.9_1_6:99864293-99873181:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.3490600585938 2 620.34946 1238.68437 NaN NaN NaN NaN NaN NaN NaN 34.095 1 34.884 34.384 35.384 0.78921 0 0 0 1.0015 1 15438 15438 0.45834 0 1 + 8087 15703 5211 5228 9456 9456 0.07457213780435268 GQSCGCTDTL 10 Unmodified _GQSCGCTDTL_ 0 0 0 REV__ENSG00000188162|ENST00000399397|OTOG REV__ENSG00000188162|ENST00000399397|OTOG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.693603515625 2 492.691692 983.368831 3.2334 0.0015931 0.56138 0.00027659 3.7948 0.0018697 492.69207692743583 33.432 0.33858 33.686 33.527 33.866 0.25389 40 17 3 0 0 0 0.74998 1 15190 15190 10.824 3.5347 1 1458700 + 8088 14135 5212 5229 9457 9457 -0.1235186912467725 GQSCGCTDTL 10 Unmodified _GQSCGCTDTL_ 0 0 0 REV__ENSG00000188162|ENST00000399397|OTOG REV__ENSG00000188162|ENST00000399397|OTOG MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 492.691692 983.368831 2.8963 0.001427 0.26816 0.00013212 3.1645 0.0015591 492.691795444214 33.626 0.23507 33.626 33.534 33.769 0 -0.012793 -0.00046784 NaN 10.824 38 20 3 NaN NaN NaN NaN 0 NaN NaN 0 1354200 + 8089 14135 5212 5229 -0.1235186912467725 GQSCGCTDTL 10 Unmodified _GQSCGCTDTL_ 0 0 0 REV__ENSG00000188162|ENST00000399397|OTOG REV__ENSG00000188162|ENST00000399397|OTOG MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 492.691692 983.368831 2.8923 0.001425 1.2668 0.00062414 4.1591 0.0020492 492.692284541696 32.819 0.26568 33.607 33.475 33.741 0.78795 -0.032639 0.00051621 NaN 10.824 28 17 2 NaN NaN NaN NaN 0 NaN NaN 0 456120 + 8090 14135 5212 5229 -0.1235186912467725 GQSCGCTDTL 10 Unmodified _GQSCGCTDTL_ 0 0 0 REV__ENSG00000188162|ENST00000399397|OTOG REV__ENSG00000188162|ENST00000399397|OTOG MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 492.691692 983.368831 3.2334 0.0015931 0.56138 0.00027659 3.7948 0.0018697 492.69207692743583 33.432 0.33858 33.686 33.527 33.866 0.25389 0.046754 -0.0001789 NaN 10.824 40 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1458700 + 8091 14135 5212 5229 -0.1235186912467725 GQSCGCTDTL 10 Unmodified _GQSCGCTDTL_ 0 0 0 REV__ENSG00000188162|ENST00000399397|OTOG REV__ENSG00000188162|ENST00000399397|OTOG MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 492.691692 983.368831 3.0972 0.0015259 0.88012 0.00043363 3.9773 0.0019596 492.6921572507701 33.02 0.36104 33.638 33.407 33.768 0.61831 -0.0013214 0.00013518 NaN 10.824 37 17 3 NaN NaN NaN NaN 0 NaN NaN 0 831340 + 8092 14135 5212 5229 -0.1235186912467725 GQSPCCFNQ 9 Unmodified _GQSPCCFNQ_ 0 0 0 REV__ENSG00000236980|ENST00000545770|C3orf84 REV__ENSG00000236980|ENST00000545770|C3orf84 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.191650390625 2 492.189119 982.363686 2.9589 0.0014563 1.0355 0.00050965 3.9943 0.001966 492.1896332859715 80.632 0.59134 80.881 80.671 81.263 0.24947 125 35 5 0 0 0 0.98132 1 37191 37191 4.3292 1.7518 1 2147600 + 8093 14596 5213 5230 9458 9458 -0.1282012819663123 GQVPELQEW 9 Unmodified _GQVPELQEW_ 0 0 0 REV__ENST00000590685.5_1_19:11305471-11305579:-|nuORF REV__ENST00000590685.5_1_19:11305471-11305579:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.2685546875 2 543.266739 1084.51892 3.7001 0.0020101 0.87076 0.00047305 4.5708 0.0024832 543.2671198795654 27.677 0.17501 27.677 27.58 27.755 0 22 14 2 0 0 0 0.11315 1 12496 12496 1.8442 0.19162 1 650460 + 8094 17577 5214 5231 9459 9459 -0.01995437799064348 GQYANNITL 9 Unmodified _GQYANNITL_ 0 0 0 nc|ENSG00000196950|Q9ULF5-2|SLC39A10;ENST00000430412.5_1_2:196521853-196599762:+|nuORF;ENSG00000196950|ENST00000359634|SLC39A10 nc|ENSG00000196950|Q9ULF5-2|SLC39A10 nc|ENSG00000196950|Q9ULF5-2|SLC39A10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.25567626953125 2 497.253631 992.49271 3.1882 0.0015854 0.36143 0.00017972 3.5496 0.0017651 497.2539071068226 38.719 0.36842 39.357 39.163 39.532 0.63778 23 13 2 0 0 0 0.49692 1 17768 17768 12.532 1.7076 1 934030 8095 5788 5215 5232 9460 9460 -0.003837069705241447 GRERLHLF 8 Unmodified _GRERLHLF_ 0 0 0 ENST00000492010.1_1_3:137834300-137834606:-|nuORF ENST00000492010.1_1_3:137834300-137834606:-|nuORF ENST00000492010.1_1_3:137834300-137834606:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.20989990234375 3 343.198042 1026.5723 NaN NaN NaN NaN NaN NaN NaN 47.972 1 48.234 47.734 48.734 0.26209 0 0 0 0.99035 1 21929 21929 6.2058 2.0163 1 8096 8401 5216 5233 9461 9461 0.06007404494130242 GRERLHLF 8 Unmodified _GRERLHLF_ 0 0 0 ENST00000492010.1_1_3:137834300-137834606:-|nuORF ENST00000492010.1_1_3:137834300-137834606:-|nuORF ENST00000492010.1_1_3:137834300-137834606:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.20953369140625 3 343.198042 1026.5723 NaN NaN NaN NaN NaN NaN NaN 48.001 1 48.264 47.764 48.764 0.26209 0 0 0 0.99035 1 21942 21942 3.5965 1.9439 1 8097 8401 5216 5233 9462 9462 0.06007404494130242 GRERLHLF 8 Unmodified _GRERLHLF_ 0 0 0 ENST00000492010.1_1_3:137834300-137834606:-|nuORF ENST00000492010.1_1_3:137834300-137834606:-|nuORF ENST00000492010.1_1_3:137834300-137834606:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.2099304199219 3 343.198042 1026.5723 NaN NaN NaN NaN NaN NaN NaN 48.054 1 48.316 47.816 48.816 0.26209 0 0 0 0.99035 1 21966 21966 3.5965 1.9439 1 8098 8401 5216 5233 9463 9463 0.06007404494130242 GRGPLLLLL 9 Unmodified _GRGPLLLLL_ 0 0 0 REV__ENST00000266682.9_1_12:85306306-85306633:-|nuORF REV__ENST00000266682.9_1_12:85306306-85306633:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 317.88250732421875 3 317.883172 950.627687 NaN NaN NaN NaN NaN NaN NaN 40.958 1 41.761 41.261 42.261 0.80351 0 0 0 0.90965 1 18570 18570 1.1933 0.23107 1 + 8099 15042 5217 5234 9464 9464 0.1503981796190601 GRGPPVSRSTL 11 Unmodified _GRGPPVSRSTL_ 0 0 0 REV__nc|ENSG00000134222|Q6PGN9-4|PSRC1 REV__nc|ENSG00000134222|Q6PGN9-4|PSRC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.8182373046875 2 563.820004 1125.62546 NaN NaN NaN NaN NaN NaN NaN 55.2 1 55.466 54.966 55.966 0.26543 0 0 0 1.0041 1 25239 25239 5.2969 0.54088 1 + 8100 11956 5218 5235 9465 9465 0.06766737486145757 GRGRRRRQWGL 11 Unmodified _GRGRRRRQWGL_ 0 0 0 REV__ENST00000369756.3_2_6:82461889-82462327:-|nuORF REV__ENST00000369756.3_2_6:82461889-82462327:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 699.4100341796875 2 699.408509 1396.80247 4.4455 0.0031092 0.17176 0.00012013 4.6172 0.0032293 699.4083486239869 94.186 0.48756 94.446 94.171 94.658 0.25975 39 24 2 0 0 0 0.91068 1 43271 43271 1.3295 0.13619 1 416740 + 8101 15711 5219 5236 9466 9466 0.11993630879624106 GRGRRRRQWGL 11 Unmodified _GRGRRRRQWGL_ 0 0 0 REV__ENST00000369756.3_2_6:82461889-82462327:-|nuORF REV__ENST00000369756.3_2_6:82461889-82462327:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.6094970703125 3 466.608098 1396.80247 3.4705 0.0016194 0.17861 8.3339E-05 3.6491 0.0017027 466.6080544002431 95.098 1.5811 95.365 94.733 96.314 0.2675 210 92 3 0 0 0 0.91378 3 43664 43664;43709;43760 0.094841 0.094841 1 1258600 + 8102 15711 5219 5236 9467;9468;9469 9467 0.11993630879624106 GRGRRRRQWGL 11 Unmodified _GRGRRRRQWGL_ 0 0 0 REV__ENST00000369756.3_2_6:82461889-82462327:-|nuORF REV__ENST00000369756.3_2_6:82461889-82462327:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.6087951660156 3 466.608098 1396.80247 3.5635 0.0016628 0.23386 0.00010912 3.7974 0.0017719 466.6081314363555 96.693 0.94424 96.97 96.464 97.409 0.27779 160 50 4 0 0 0 0.91378 2 44230 44230;44340 0.094841 0 1 2923100 + 8103 15711 5219 5236 9470;9471 9470 0.11993630879624106 GRGRRRRQWGL 11 Unmodified _GRGRRRRQWGL_ 0 0 0 REV__ENST00000369756.3_2_6:82461889-82462327:-|nuORF REV__ENST00000369756.3_2_6:82461889-82462327:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.94317626953125 3 466.608098 1396.80247 3.0323 0.0014149 0.041565 1.9394E-05 3.0738 0.0014343 466.6080187663361 93.783 0.51923 94.415 94.124 94.644 0.63115 42 23 2 0 0 0 0.91378 1 43086 43086 0.094841 0 1 452440 + 8104 15711 5219 5236 9472 9472 0.11993630879624106 GRGRRRRQWGL 11 Unmodified _GRGRRRRQWGL_ 0 0 0 REV__ENST00000369756.3_2_6:82461889-82462327:-|nuORF REV__ENST00000369756.3_2_6:82461889-82462327:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 699.412353515625 2 699.408509 1396.80247 4.1523 0.0029041 0.069135 4.8354E-05 4.2214 0.0029525 699.4084603654914 94.624 1.3387 95.241 94.696 96.035 0.61737 128 73 3 0 0 0 0.91378 1 43351 43351 0.35063 0 1 973420 + 8105 15711 5219 5236 9473 9473 0.11993630879624106 GRGRRRRQWGL 11 Unmodified _GRGRRRRQWGL_ 0 0 0 REV__ENST00000369756.3_2_6:82461889-82462327:-|nuORF REV__ENST00000369756.3_2_6:82461889-82462327:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.60888671875 3 466.608098 1396.80247 3.0406 0.0014188 0.52057 0.0002429 3.5611 0.0016617 466.6081590019679 94.624 1.561 95.241 94.606 96.167 0.61736 176 85 3 0 0 0 0.91378 5 43445 43445;43492;43532;43582;43667 0.094841 0.094841 1 985270 + 8106 15711 5219 5236 9474;9475;9476;9477;9478 9474 0.11993630879624106 GRGRRRRQWGL 11 Unmodified _GRGRRRRQWGL_ 0 0 0 REV__ENST00000369756.3_2_6:82461889-82462327:-|nuORF REV__ENST00000369756.3_2_6:82461889-82462327:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.60986328125 3 466.608098 1396.80247 3.0492 0.0014228 0.46949 0.00021907 3.5186 0.0016418 466.6082444436972 95.92 0.53236 96.528 96.158 96.69 0.60769 76 31 4 0 0 0 0.91378 2 44082 44082;44127 0.094841 0 1 1778500 + 8107 15711 5219 5236 9479;9480 9479 0.11993630879624106 GRGRRRRQWGL 11 Unmodified _GRGRRRRQWGL_ 0 0 0 REV__ENST00000369756.3_2_6:82461889-82462327:-|nuORF REV__ENST00000369756.3_2_6:82461889-82462327:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 699.4108276367188 2 699.408509 1396.80247 4.1613 0.0029104 -0.49844 -0.00034861 3.6628 0.0025618 699.4081716937332 96.206 0.92647 96.814 96.294 97.22 0.60769 86 49 3 0 0 0 0.91068 1 44292 44292 1.3295 0.92882 1 2662200 + 8108 15711 5219 5236 9481 9481 0.11993630879624106 GRGRRRRQWGL 11 Unmodified _GRGRRRRQWGL_ 0 0 0 REV__ENST00000369756.3_2_6:82461889-82462327:-|nuORF REV__ENST00000369756.3_2_6:82461889-82462327:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 699.408509 1396.80247 4.4455 0.0031092 0.17176 0.00012013 4.6172 0.0032293 699.4083486239869 94.186 0.48756 94.446 94.171 94.658 0.25975 0.047885 -0.00021912 NaN 1.3295 39 24 2 NaN NaN NaN NaN 0 NaN NaN 0 416740 + 8109 15711 5219 5236 0.11993630879624106 GRHAQIVTI 9 Unmodified _GRHAQIVTI_ 0 0 0 REV__ENSG00000164171|ENST00000296585|ITGA2 REV__ENSG00000164171|ENST00000296585|ITGA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 332.1974182128906 3 332.197931 993.571963 NaN NaN NaN NaN NaN NaN NaN 31.425 1 32.213 31.713 32.713 0.78879 0 0 0 0.81563 1 14192 14192 8.7454 0 1 + 8110 13071 5220 5237 9482 9482 0.07491984774298999 GRHRRRRRWWW 11 Unmodified _GRHRRRRRWWW_ 0 0 0 REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.2796630859375 3 569.985792 1706.93555 NaN NaN NaN NaN NaN NaN NaN 89.384 1 89.384 88.884 89.884 0 0 0 0 1.0082 1 46662 46662 0 0 1 + 8111 15733 5221 5238 9483 9483 0.1103549505612591 GRKARAPA 8 Unmodified _GRKARAPA_ 0 0 0 ENST00000489702.6_2_7:128588962-128589106:+|nuORF ENST00000489702.6_2_7:128588962-128589106:+|nuORF ENST00000489702.6_2_7:128588962-128589106:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.7549743652344 2 413.753936 825.493319 2.7259 0.0011279 -0.50385 -0.00020847 2.2221 0.00091939 413.7536117950939 80.069 0.90204 80.319 79.882 80.784 0.24947 97 57 2 0 0 0 0.7441 2 36749 36749;36825 2.3027 0 1 575860 8112 8382 5222 5239 9484;9485 9484 0.07359177259831995 GRKNWILHF 9 Unmodified _GRKNWILHF_ 0 0 0 REV__ENST00000578942.5_1_18:211328-211490:+|nuORF REV__ENST00000578942.5_1_18:211328-211490:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.89044189453125 3 390.889209 1169.6458 2.8444 0.0011118 -0.076661 -2.9966E-05 2.7677 0.0010819 390.8891218874227 60.492 0.74876 61.154 60.778 61.527 0.66261 98 39 3 0 0 0 0.92418 1 27673 27673 5.2969 1.9772 1 1871500 + 8113 17495 5223 5240 9486 9486 0.06775952936595786 GRPGERKPGRR 11 Unmodified _GRPGERKPGRR_ 0 0 0 REV__ENSG00000248767|ENST00000506382|FOXL3 REV__ENSG00000248767|ENST00000506382|FOXL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.5828552246094 3 422.581438 1264.72248 3.1951 0.0013502 0.86576 0.00036585 4.0609 0.0017161 422.5816651782566 91.57 1.2504 92.232 91.621 92.871 0.66198 123 59 3 0 0 0 0.91111 1 42106 42106 0.40827 0.20141 1 907500 + 8114 14642 5224 5241 9487 9487 0.1007114448577795 GRPKVQVEY 9 Unmodified _GRPKVQVEY_ 0 0 0 ENST00000527983.5_1_11:122930124-122932032:-|nuORF;nc|ENSG00000109971|P11142-2|HSPA8;ENSG00000109971|ENST00000534624|HSPA8;HSPA8|p.V139Gfs*50|1|0.11|ENSG00000109971|chr11:123060264-123060265|-/CAGTCTAC|frameshift_variant;ENST00000532780.5_1_11:122930757-122933127:-|nuORF ENST00000527983.5_1_11:122930124-122932032:-|nuORF ENST00000527983.5_1_11:122930124-122932032:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.3006591796875 2 538.298373 1074.58219 3.2628 0.0017564 0.63074 0.00033953 3.8935 0.0020959 538.2986963751652 22.063 0.2491 22.063 21.944 22.193 0 27 17 2 0 0 0 0.80651 1 9904 9904 7.2892 2.96 1 101060 8115 1694 5225 5242 9488 9488 0.047885477088584594 GRPRKWLRAQA 11 Unmodified _GRPRKWLRAQA_ 0 0 0 nc|ENSG00000149948|P52926-5|HMGA2 nc|ENSG00000149948|P52926-5|HMGA2 nc|ENSG00000149948|P52926-5|HMGA2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 335.2024841308594 4 335.452094 1337.77927 1.9479 0.00065343 0.74567 0.00025014 2.6936 0.00090357 335.45223787363454 54.867 0.47503 55.663 55.607 56.082 0.79552 46 31 2 0 0 0 0.13295 1 25087 25087 0.45452 0 1 797220 8116 9687 5226 5243 9489 9489 0.1238919204231479 GRRARALQLL 10 Unmodified _GRRARALQLL_ 0 0 0 ENST00000395782.5_1_17:17412858-17480243:-|nuORF;ENST00000472446.1_1_17:17412858-17494940:-|nuORF ENST00000395782.5_1_17:17412858-17480243:-|nuORF ENST00000395782.5_1_17:17412858-17480243:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.3693237304688 2 577.367456 1152.72036 4.1658 0.0024052 -1.1687 -0.00067479 2.9971 0.0017304 577.366626385363 98.302 0.14302 98.602 98.514 98.657 0.29987 37 13 4 0 0 0 0.90196 1 45263 45263 3.5965 0.60125 1 27221000 8117 7560 5227 5244 9490 9490 0.1501071574798516 GRRARALQLL 10 Unmodified _GRRARALQLL_ 0 0 0 ENST00000395782.5_1_17:17412858-17480243:-|nuORF;ENST00000472446.1_1_17:17412858-17494940:-|nuORF ENST00000395782.5_1_17:17412858-17480243:-|nuORF ENST00000395782.5_1_17:17412858-17480243:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 577.367456 1152.72036 4.1658 0.0024052 -1.1687 -0.00067479 2.9971 0.0017304 577.366626385363 98.302 0.14302 98.602 98.514 98.657 0.29987 -0.03504 0.00013393 NaN 3.5965 37 13 4 NaN NaN NaN NaN 0 NaN NaN 0 27221000 8118 7560 5227 5244 0.1501071574798516 GRRGRLGPLP 10 Unmodified _GRRGRLGPLP_ 0 0 0 REV__ENST00000355280.10_1_17:4736705-4736843:+|nuORF REV__ENST00000355280.10_1_17:4736705-4736843:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.8347778320312 2 539.833249 1077.65194 3.5122 0.001896 -0.19257 -0.00010396 3.3196 0.001792 539.8329956643092 89.417 0.68742 90.095 89.91 90.597 0.67818 74 33 3 0 0 0 0.90196 1 41180 41180 3.5965 0.31518 1 1999900 + 8119 15538 5228 5245 9491 9491 0.1162247116810704 GRRGRRQRRQ 10 Unmodified _GRRGRRQRRQ_ 0 0 0 ENST00000255977.6_2_7:140178977-140179166:-|nuORF ENST00000255977.6_2_7:140178977-140179166:-|nuORF ENST00000255977.6_2_7:140178977-140179166:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 332.20245361328125 4 332.201605 1324.77731 2.3721 0.00078802 -0.055611 -1.8474E-05 2.3165 0.00076955 332.201514358242 45.554 1.4753 45.821 45.507 46.982 0.26768 164 58 4 0 0 0 0.90859 1 20963 20963 1.5923 0 1 7435100 8120 6520 5229 5246 9492 9492 0.12791576077052014 GRRGRRQRRQ 10 Unmodified _GRRGRRQRRQ_ 0 0 0 ENST00000255977.6_2_7:140178977-140179166:-|nuORF ENST00000255977.6_2_7:140178977-140179166:-|nuORF ENST00000255977.6_2_7:140178977-140179166:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.6004638671875 3 442.599714 1324.77731 3.305 0.0014628 -0.36052 -0.00015956 2.9445 0.0013032 442.5994221264095 44.977 1.4106 45.627 45.291 46.702 0.64998 117 53 3 0 0 0 0.93628 1 20989 20989 0.69767 0.69767 1 2286400 8121 6520 5229 5246 9493 9493 0.12791576077052014 GRRLLVLIPV 10 Unmodified _GRRLLVLIPV_ 0 0 0 ENSG00000139641|ENST00000394048|ESYT1;nc|ENSG00000139641|Q9BSJ8-2|ESYT1 ENSG00000139641|ENST00000394048|ESYT1 ENSG00000139641|ENST00000394048|ESYT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.3857421875 2 568.387326 1134.7601 NaN NaN NaN NaN NaN NaN NaN 33.024 1 33.024 32.524 33.524 0 0 0 0 1.0015 1 14957 14957 0.45834 0.45834 1 8122 3157 5230 5247 9494 9494 0.19810842698689157 GRRPKGPQRR 10 Unmodified _GRRPKGPQRR_ 0 0 0 REV__ENST00000473958.1_1_3:128208233-128208692:+|nuORF REV__ENST00000473958.1_1_3:128208233-128208692:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 403.2474365234375 3 403.246278 1206.717 2.3027 0.00092855 0.33382 0.00013461 2.6365 0.0010632 403.24635591494706 100.06 0.11736 100.06 99.984 100.1 0 22 8 4 0 0 0 0.94099 1 55151 55151 0.69767 0.46182 1 11961000 + 8123 16563 5231 5248 9495 9495 0.12191465693967984 GRRPKGPQRR 10 Unmodified _GRRPKGPQRR_ 0 0 0 REV__ENST00000473958.1_1_3:128208233-128208692:+|nuORF REV__ENST00000473958.1_1_3:128208233-128208692:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 403.246278 1206.717 2.3027 0.00092855 0.33382 0.00013461 2.6365 0.0010632 403.24635591494706 100.06 0.11736 100.06 99.984 100.1 0 -0.1644 -9.6136E-06 NaN 0.69767 22 8 4 NaN NaN NaN NaN 0 NaN NaN 0 11961000 + 8124 16563 5231 5248 0.12191465693967984 GRRPKGPQRR 10 Unmodified _GRRPKGPQRR_ 0 0 0 REV__ENST00000473958.1_1_3:128208233-128208692:+|nuORF REV__ENST00000473958.1_1_3:128208233-128208692:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 403.246278 1206.717 3.8228 0.0015415 -0.022021 -8.8798E-06 3.8008 0.0015327 403.2461308511828 99.925 0.16979 100.23 100.13 100.3 0.30835 0.01103 -0.00044009 NaN 0.69767 25 7 5 NaN NaN NaN NaN 0 NaN NaN 0 18019000 + 8125 16563 5231 5248 0.12191465693967984 GRRPKGPQRR 10 Unmodified _GRRPKGPQRR_ 0 0 0 REV__ENST00000473958.1_1_3:128208233-128208692:+|nuORF REV__ENST00000473958.1_1_3:128208233-128208692:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 403.246278 1206.717 3.151 0.0012706 0.67283 0.00027131 3.8238 0.0015419 403.24642865006285 99.779 0.16935 100.38 100.29 100.46 0.59717 0.15337 0.0004005 NaN 0.69767 25 8 4 NaN NaN NaN NaN 0 NaN NaN 0 17485000 + 8126 16563 5231 5248 0.12191465693967984 GRRRGLPPGL 10 Unmodified _GRRRGLPPGL_ 0 0 0 ENST00000381440.4_1_16:19125712-19125829:+|nuORF ENST00000381440.4_1_16:19125712-19125829:+|nuORF ENST00000381440.4_1_16:19125712-19125829:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.8344116210938 2 539.833249 1077.65194 3.5598 0.0019217 -0.73026 -0.00039422 2.8296 0.0015275 539.8326990306359 89.793 0.5903 90.045 89.848 90.438 0.25136 68 25 4 0 0 0 0.90196 1 41297 41297 3.5965 0 1 1875700 8127 7485 5232 5249 9496 9496 0.1162247116810704 GRRRKLRRLND 11 Unmodified _GRRRKLRRLND_ 0 0 0 nc|ENSG00000123965|A8MQ11|PMS2P5 nc|ENSG00000123965|A8MQ11|PMS2P5 nc|ENSG00000123965|A8MQ11|PMS2P5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.74945068359375 3 480.630791 1438.87055 NaN NaN NaN NaN NaN NaN NaN 66.49 1 66.49 65.99 66.99 0 0 0 0 1.0073 1 31787 31787 0.40827 0 1 8128 9621 5233 5250 9497 9497 0.16866455739636876 GRRRKPRE 8 Unmodified _GRRRKPRE_ 0 0 0 ENST00000331483.8_1_17:79801761-79801845:-|nuORF ENST00000331483.8_1_17:79801761-79801845:-|nuORF ENST00000331483.8_1_17:79801761-79801845:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.9809875488281 3 352.216207 1053.62679 2.525 0.00088934 -0.70325 -0.0002477 1.8217 0.00064164 352.2161806589413 45.916 0.37147 46.182 45.954 46.326 0.26561 19 14 2 0 0 0 0.14225 1 20954 20954 3.9444 3.9444 1 1496800 8129 6991 5234 5251 9498 9498 0.10212416365538957 GRRRMRRRRRR 11 Unmodified _GRRRMRRRRRR_ 0 0 0 REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.0016479492188 3 538.001447 1610.98251 NaN NaN NaN NaN NaN NaN NaN 79.544 1 79.544 79.044 80.044 0 0 0 0 1.0082 1 39319 39319 0.094841 0 1 + 8130 17761 5235 5252 9499 9499 0.201460313356165 GRRRRRRRRPF 11 Unmodified _GRRRRRRRRPF_ 0 0 0 REV__ENST00000222747.7_1_7:120497939-120498116:-|nuORF REV__ENST00000222747.7_1_7:120497939-120498116:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 784.98876953125 2 784.988324 1567.96209 NaN NaN NaN NaN NaN NaN NaN 81.912 1 81.912 81.412 82.412 0 0 0 0 1.0082 1 40851 40851 0 0 1 + 8131 14830 5236 5253 9500 9500 0.20083183947463112 GRRWRRRGLW 10 Unmodified _GRRWRRRGLW_ 0 0 0 ENST00000306729.11_2_17:79973003-79974861:+|nuORF ENST00000306729.11_2_17:79973003-79974861:+|nuORF ENST00000306729.11_2_17:79973003-79974861:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 699.9140625 2 699.908145 1397.80174 NaN NaN NaN NaN NaN NaN NaN 94.757 1 95.017 94.517 95.517 0.25975 0 0 0 1.0015 1 43541 43541 0.45834 0.057624 1 8132 6843 5237 5254 9501 9501 0.11874836230595065 GRRYRFVLL 9 Unmodified _GRRYRFVLL_ 0 0 0 REV__ENST00000216259.7_1_22:41972942-41973245:-|nuORF REV__ENST00000216259.7_1_22:41972942-41973245:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.9081115722656 3 393.908492 1178.70365 NaN NaN NaN NaN NaN NaN NaN 12.58 1 12.888 12.388 13.388 0.30727 0 0 0 0.90611 1 5674 5674 1.0715 0 1 + 8133 14807 5238 5255 9502 9502 0.12144214862018998 GRSEAVVEY 9 Unmodified _GRSEAVVEY_ 0 0 0 ENSG00000197157|ENST00000354725|SND1 ENSG00000197157|ENST00000354725|SND1 ENSG00000197157|ENST00000354725|SND1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.25299072265625 2 505.251089 1008.48762 NaN NaN NaN NaN NaN NaN NaN 25.693 1 26.457 25.957 26.957 0.76356 0 0 0 0.83378 1 11535 11535 8.1555 0.24537 1 8134 5798 5239 5256 9503 9503 -0.016280108331443444 GRTLLFLFFF 10 Unmodified _GRTLLFLFFF_ 0 0 0 REV__ENSG00000204140|ENST00000373861|CLPSL1 REV__ENSG00000204140|ENST00000373861|CLPSL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 630.8633422851562 2 630.860609 1259.70667 4.5764 0.0028871 -0.58969 -0.00037201 3.9867 0.002515 630.860084708312 104.02 0.10146 104.34 104.3 104.4 0.31863 30 21 2 0 0 0 0.93534 1 48060 48060 1.8442 0 1 388820 + 8135 14401 5240 5257 9504 9504 0.08720045196173487 GRTLLFLFFF 10 Unmodified _GRTLLFLFFF_ 0 0 0 REV__ENSG00000204140|ENST00000373861|CLPSL1 REV__ENSG00000204140|ENST00000373861|CLPSL1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 630.860609 1259.70667 3.424 0.00216 -0.60334 -0.00038062 2.8206 0.0017794 630.8601997926933 104.48 0.30894 104.48 104.33 104.64 0 0.018763 -0.00013473 NaN 1.8442 28 21 2 NaN NaN NaN NaN 0 NaN NaN 0 477920 + 8136 14401 5240 5257 0.08720045196173487 GRTLLFLFFF 10 Unmodified _GRTLLFLFFF_ 0 0 0 REV__ENSG00000204140|ENST00000373861|CLPSL1 REV__ENSG00000204140|ENST00000373861|CLPSL1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 630.860609 1259.70667 4.5764 0.0028871 -0.58969 -0.00037201 3.9867 0.002515 630.860084708312 104.02 0.10146 104.34 104.3 104.4 0.31863 -0.12252 -0.00011751 NaN 1.8442 30 21 2 NaN NaN NaN NaN 0 NaN NaN 0 388820 + 8137 14401 5240 5257 0.08720045196173487 GRVGHFIL 8 Unmodified _GRVGHFIL_ 0 0 0 REV__nc|ENSG00000073146|Q9BXT6-5|MOV10L1 REV__nc|ENSG00000073146|Q9BXT6-5|MOV10L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 449.7682189941406 2 449.766512 897.518471 3.2626 0.0014674 0.91859 0.00041315 4.1812 0.0018805 449.766340991785 90.857 0.33703 91.53 91.357 91.694 0.67271 24 20 2 0 0 0 0.73686 1 41812 41812 2.8892 0.58649 1 191400 + 8138 10501 5241 5258 9505 9505 0.06561232062415456 GRVRPRRPRRR 11 Unmodified _GRVRPRRPRRR_ 0 0 0 ENST00000371873.9_1_1:47799697-47834181:+|nuORF ENST00000371873.9_1_1:47799697-47834181:+|nuORF ENST00000371873.9_1_1:47799697-47834181:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.9793701171875 3 487.978526 1460.91375 NaN NaN NaN NaN NaN NaN NaN 45.172 1 45.44 44.94 45.94 0.26768 0 0 0 1.0082 1 20648 20648 0.094841 0.094841 1 8139 7327 5242 5259 9506 9506 0.201726903075496 GRVTRRGP 8 Unmodified _GRVTRRGP_ 0 0 0 ENST00000570276.5_1_15:75132809-75135659:-|nuORF ENST00000570276.5_1_15:75132809-75135659:-|nuORF ENST00000570276.5_1_15:75132809-75135659:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 449.7693176269531 2 449.770117 897.525681 NaN NaN NaN NaN NaN NaN NaN 88.713 1 89.391 88.891 89.891 0.67818 0 0 0 0.99035 1 40853 40853 2.0598 0 1 8140 9084 5243 5260 9507 9507 0.07281964662843166 GRWKKGWLWLP 11 Unmodified _GRWKKGWLWLP_ 0 0 0 ENST00000418281.5_1_3:184063372-184063615:+|nuORF ENST00000418281.5_1_3:184063372-184063615:+|nuORF ENST00000418281.5_1_3:184063372-184063615:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 713.9148559570312 2 713.908956 1425.80336 NaN NaN NaN NaN NaN NaN NaN 104.07 1 104.39 103.89 104.89 0.31863 0 0 0 1.008 1 48087 48087 0.35063 0.043601 1 8141 7728 5244 5261 9508 9508 0.10749032475973763 GRWRRWRRRRR 11 Unmodified _GRWRRWRRRRR_ 0 0 0 ENST00000396912.1_1_7:5085705-5085882:+|nuORF ENST00000396912.1_1_7:5085705-5085882:+|nuORF ENST00000396912.1_1_7:5085705-5085882:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 849.0045776367188 2 849.007048 1695.99954 NaN NaN NaN NaN NaN NaN NaN 68.961 1 69.215 68.715 69.715 0.25443 0 0 0 1.0082 1 31590 31590 0 0 1 8142 7573 5245 5262 9509 9509 0.17938275213055022 GRWRRWRRRRR 11 Unmodified _GRWRRWRRRRR_ 0 0 0 ENST00000396912.1_1_7:5085705-5085882:+|nuORF ENST00000396912.1_1_7:5085705-5085882:+|nuORF ENST00000396912.1_1_7:5085705-5085882:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 849.0048217773438 2 849.007048 1695.99954 NaN NaN NaN NaN NaN NaN NaN 106.45 1 106.77 106.27 107.27 0.31628 0 0 0 1.0082 1 49124 49124 0 0 1 8143 7573 5245 5262 9510 9510 0.17938275213055022 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.2180786132812 1 811.21677 810.209494 3.2676 0.0026507 -3.6574 -0.0029669 -0.38981 -0.00031622 811.2168024947081 87.102 0.13041 87.102 87.048 87.179 0 33 18 3 0 0 0 0.7471 1 44821 44821 0 0 1 48586000 + 8144 13896 5246 5263 9511 9511 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.2176513671875 1 811.21677 810.209494 3.2818 0.0026622 -3.0839 -0.0025017 0.19782 0.00016047 811.2159222309714 88.789 0.11211 88.789 88.763 88.875 0 31 17 2 0 0 0 0.7471 1 46182 46182 0 0 1 52077000 + 8145 13896 5246 5263 9512 9512 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.2178955078125 1 811.21677 810.209494 3.2845 0.0026644 -2.2168 -0.0017983 1.0677 0.00086616 811.2157795365416 89.126 0.37988 89.126 89.002 89.382 0 70 55 2 0 0 0 0.7471 4 46413 46413;46473;46510;46601 0 0 1 50296000 + 8146 13896 5246 5263 9513;9514;9515;9516 9513 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.2191772460938 1 811.21677 810.209494 3.288 0.0026673 -2.5952 -0.0021053 0.69278 0.000562 811.2148260799734 89.48 0.15474 89.48 89.382 89.536 0 25 21 2 0 0 0 0.7471 1 46702 46702 0 0 1 36603000 + 8147 13896 5246 5263 9517 9517 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.3909912109375 1 811.21677 810.209494 3.3 0.002677 -3.4308 -0.0027831 -0.13084 -0.00010614 811.2146481168014 90.696 0.15215 90.696 90.618 90.77 0 33 23 2 0 0 0 0.14355 1 47778 47778 0 0 1 21327000 + 8148 13896 5246 5263 9518 9518 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.2789306640625 1 811.21677 810.209494 3.288 0.0026673 -2.5952 -0.0021053 0.69278 0.000562 811.2148260799734 89.48 0.15474 89.48 89.382 89.536 0 25 21 2 0 0 0 0.14355 1 46709 46709 0 0 1 36603000 + 8149 13896 5246 5263 9519 9519 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.2794799804688 1 811.21677 810.209494 3.3419 0.002711 -3.3817 -0.0027433 -0.039871 -3.2344E-05 811.215439919934 95.139 0.15327 95.139 95.043 95.196 0 23 17 2 0 0 0 0.14355 1 51145 51145 0 0 1 16746000 + 8150 13896 5246 5263 9520 9520 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.27685546875 1 811.21677 810.209494 3.2832 0.0026633 -3.1686 -0.0025704 0.11459 9.2959E-05 811.2157285760336 88.975 0.21152 88.975 88.875 89.086 0 44 29 2 0 0 0 0.14355 1 46253 46253 0 0 1 41685000 + 8151 13896 5246 5263 9521 9521 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.159912109375 1 811.21677 810.209494 3.2965 0.0026742 -2.8875 -0.0023424 0.40901 0.0003318 811.21588500777 90.349 0.24417 90.349 90.252 90.496 0 42 35 2 0 0 0 0.14355 1 47536 47536 0 0 1 37788000 + 8152 13896 5246 5263 9522 9522 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.158935546875 1 811.21677 810.209494 3.2818 0.0026622 -3.0839 -0.0025017 0.19782 0.00016047 811.2159222309714 88.789 0.11211 88.789 88.763 88.875 0 31 17 2 0 0 0 0.14355 1 46169 46169 0 0 1 52077000 + 8153 13896 5246 5263 9523 9523 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.2784423828125 1 811.21677 810.209494 3.2676 0.0026507 -3.6574 -0.0029669 -0.38981 -0.00031622 811.2168024947081 87.102 0.13041 87.102 87.048 87.179 0 33 18 3 0 0 0 0.14355 1 44863 44863 0 0 1 48586000 + 8154 13896 5246 5263 9524 9524 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.1011962890625 1 811.21677 810.209494 3.2667 0.00265 -2.318 -0.0018804 0.94872 0.00076961 811.2162138098364 87.258 0.1452 87.258 87.185 87.331 0 37 20 2 0 0 0 0.14355 1 44917 44917 0 0 1 46084000 + 8155 13896 5246 5263 9525 9525 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.1625366210938 1 811.21677 810.209494 3.2845 0.0026644 -2.2168 -0.0017983 1.0677 0.00086616 811.2157795365416 89.126 0.37988 89.126 89.002 89.382 0 70 55 2 0 0 0 0.14355 1 46442 46442 0 0 1 50296000 + 8156 13896 5246 5263 9526 9526 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.2760620117188 1 811.21677 810.209494 3.2702 0.0026528 -2.1859 -0.0017732 1.0843 0.0008796 811.2160416830143 87.637 0.19626 87.637 87.512 87.708 0 45 30 2 0 0 0 0.14355 1 45261 45261 0 0 1 70725000 + 8157 13896 5246 5263 9527 9527 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.277587890625 1 811.21677 810.209494 3.3071 0.0026827 -2.0163 -0.0016356 1.2908 0.0010471 811.2160082321327 91.323 0.11436 91.323 91.291 91.406 0 27 16 3 0 0 0 0.14355 1 48243 48243 0 0 1 19741000 + 8158 13896 5246 5263 9528 9528 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.2781982421875 1 811.21677 810.209494 3.3027 0.0026792 -2.0648 -0.001675 1.2379 0.0010042 811.2155175020982 91.039 0.10623 91.039 90.985 91.091 0 23 15 2 0 0 0 0.14355 1 48000 48000 0 0 1 17313000 + 8159 13896 5246 5263 9529 9529 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.2156372070312 1 811.21677 810.209494 2.7526 0.002233 -2.3714 -0.0019237 0.38122 0.00030925 811.2158316468134 87.308 0.13908 87.348 87.288 87.427 0.039955 34 19 2 0 0 0 0.7471 1 44218 44218 0 0 1 40317000 + 8160 13896 5246 5263 9530 9530 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.2185668945312 1 811.21677 810.209494 2.7444 0.0022263 -2.2258 -0.0018056 0.51859 0.00042069 811.2157810316533 87.635 0.23041 87.675 87.51 87.74 0.039963 58 32 2 0 0 0 0.7471 2 44350 44350;44443 0 0 1 74698000 + 8161 13896 5246 5263 9531;9532 9531 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.21533203125 1 811.21677 810.209494 2.7401 0.0022228 -2.5575 -0.0020747 0.18263 0.00014816 811.2155254741793 87.731 0.10914 87.77 87.726 87.835 0.039955 25 16 2 0 0 0 0.7471 1 44533 44533 0 0 1 42276000 + 8162 13896 5246 5263 9533 9533 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.2161254882812 1 811.21677 810.209494 2.7098 0.0021982 -3.0661 -0.0024872 -0.35631 -0.00028904 811.2158741705242 88.75 0.13721 88.802 88.728 88.865 0.052147 33 20 2 0 0 0 0.7471 1 45301 45301 0 0 1 52785000 + 8163 13896 5246 5263 9534 9534 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.2168579101562 1 811.21677 810.209494 2.7029 0.0021926 -2.1687 -0.0017593 0.5342 0.00043335 811.2154811077147 88.972 0.14725 89.024 88.936 89.083 0.052147 31 22 2 0 0 0 0.7471 1 45509 45509 0 0 1 42494000 + 8164 13896 5246 5263 9535 9535 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.2188110351562 1 811.21677 810.209494 2.6769 0.0021716 -2.9183 -0.0023673 -0.24135 -0.00019579 811.2149128371224 89.838 0.26028 89.902 89.759 90.02 0.064346 56 35 2 0 0 0 0.7471 1 46142 46142 0 0 1 22253000 + 8165 13896 5246 5263 9536 9536 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.2169799804688 1 811.21677 810.209494 2.6606 0.0021583 -2.4052 -0.0019512 0.25533 0.00020713 811.2156087841228 90.409 0.2293 90.484 90.335 90.564 0.075272 48 31 2 0 0 0 0.7471 1 46574 46574 0 0 1 25816000 + 8166 13896 5246 5263 9537 9537 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.2177124023438 1 811.21677 810.209494 2.6376 0.0021397 -1.5933 -0.0012926 1.0443 0.00084711 811.2156452305778 91.108 0.059631 91.183 91.153 91.212 0.075272 10 8 2 0 0 0 0.7471 1 47129 47129 0 0 1 26292000 + 8167 13896 5246 5263 9538 9538 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.21337890625 1 811.21677 810.209494 2.5209 0.002045 -3.1177 -0.0025291 -0.59679 -0.00048413 811.2148150238717 94.917 0.18416 94.999 94.92 95.104 0.082001 36 26 2 0 0 0 0.7471 1 50129 50129 0 0 1 22003000 + 8168 13896 5246 5263 9539 9539 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.2191772460938 1 811.21677 810.209494 2.4909 0.0020207 -2.8453 -0.0023082 -0.35437 -0.00028747 811.2163603859033 95.922 0.097969 95.999 95.969 96.067 0.076546 16 13 2 0 0 0 0.7471 1 50851 50851 0 0 1 27195000 + 8169 13896 5246 5263 9540 9540 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.2183837890625 1 811.21677 810.209494 2.4694 0.0020032 -1.0858 -0.00088079 1.3836 0.0011224 811.2167595814557 96.67 0.16538 96.747 96.603 96.768 0.076538 26 18 2 0 0 0 0.7471 1 51410 51410 0 0 1 32180000 + 8170 13896 5246 5263 9541 9541 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.2122192382812 1 811.21677 810.209494 2.4608 0.0019962 -1.871 -0.0015178 0.58978 0.00047844 811.2155261629849 96.902 0.12585 96.979 96.92 97.046 0.076538 21 15 2 0 0 0 0.7471 1 51652 51652 0 0 1 31714000 + 8171 13896 5246 5263 9542 9542 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.2780151367188 1 811.21677 810.209494 2.4558 0.0019922 -3.6 -0.0029204 -1.1442 -0.0009282 811.2150599623584 97.068 0.089653 97.139 97.101 97.19 0.070656 13 11 2 0 0 0 0.7471 1 51777 51777 0 0 1 22608000 + 8172 13896 5246 5263 9543 9543 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.1611938476562 1 811.21677 810.209494 2.7029 0.0021926 -2.1687 -0.0017593 0.5342 0.00043335 811.2154811077147 88.972 0.14725 89.024 88.936 89.083 0.052147 31 22 2 0 0 0 0.14355 1 45436 45436 0 0 1 42494000 + 8173 13896 5246 5263 9544 9544 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.275146484375 1 811.21677 810.209494 2.7444 0.0022263 -2.2258 -0.0018056 0.51859 0.00042069 811.2157810316533 87.635 0.23041 87.675 87.51 87.74 0.039963 58 32 2 0 0 0 0.14355 1 44448 44448 0 0 1 74698000 + 8174 13896 5246 5263 9545 9545 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.1596069335938 1 811.21677 810.209494 2.7526 0.002233 -2.3714 -0.0019237 0.38122 0.00030925 811.2158316468134 87.308 0.13908 87.348 87.288 87.427 0.039955 34 19 2 0 0 0 0.14355 1 44152 44152 0 0 1 40317000 + 8175 13896 5246 5263 9546 9546 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.158935546875 1 811.21677 810.209494 2.5209 0.002045 -3.1177 -0.0025291 -0.59679 -0.00048413 811.2148150238717 94.917 0.18416 94.999 94.92 95.104 0.082001 36 26 2 0 0 0 0.14355 1 50060 50060 0 0 1 22003000 + 8176 13896 5246 5263 9547 9547 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.4507446289062 1 811.21677 810.209494 2.6671 0.0021636 -2.2532 -0.0018279 0.41384 0.00033571 811.2156801896415 90.107 0.24332 90.172 90.091 90.334 0.064346 57 33 2 0 0 0 0.14355 1 46385 46385 0 0 1 34544000 + 8177 13896 5246 5263 9548 9548 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.3952026367188 1 811.21677 810.209494 2.6769 0.0021716 -2.9183 -0.0023673 -0.24135 -0.00019579 811.2149128371224 89.838 0.26028 89.902 89.759 90.02 0.064346 56 35 2 0 0 0 0.14355 1 46085 46085 0 0 1 22253000 + 8178 13896 5246 5263 9549 9549 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.397216796875 1 811.21677 810.209494 2.6606 0.0021583 -2.4052 -0.0019512 0.25533 0.00020713 811.2156087841228 90.409 0.2293 90.484 90.335 90.564 0.075272 48 31 2 0 0 0 0.14355 1 46632 46632 0 0 1 25816000 + 8179 13896 5246 5263 9550 9550 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.3966064453125 1 811.21677 810.209494 2.5884 0.0020997 -3.7791 -0.0030657 -1.1908 -0.00096597 811.2132999458377 92.729 0.075409 92.816 92.78 92.855 0.086205 13 11 2 0 0 0 0.14355 1 48411 48411 0 0 1 12322000 + 8180 13896 5246 5263 9551 9551 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.1611328125 1 811.21677 810.209494 2.6045 0.0021128 -0.51592 -0.00041852 2.0886 0.0016943 811.2176498401307 92.21 0.21784 92.293 92.189 92.406 0.082848 35 25 2 0 0 0 0.14355 1 47925 47925 0 0 1 15690000 + 8181 13896 5246 5263 9552 9552 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.1027221679688 1 811.21677 810.209494 2.4608 0.0019962 -1.871 -0.0015178 0.58978 0.00047844 811.2155261629849 96.902 0.12585 96.979 96.92 97.046 0.076538 21 15 2 0 0 0 0.14355 1 51583 51583 0 0 1 31714000 + 8182 13896 5246 5263 9553 9553 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.3343505859375 1 811.21677 810.209494 2.4949 0.0020239 -0.79787 -0.00064724 1.697 0.0013767 811.216828787085 95.784 0.12871 95.866 95.793 95.922 0.082008 22 17 2 0 0 0 0.14355 1 50733 50733 0 0 1 22759000 + 8183 13896 5246 5263 9554 9554 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.0975952148438 1 811.21677 810.209494 2.7061 0.0021953 -0.71453 -0.00057964 1.9916 0.0016156 811.2159087209382 88.85 0.083527 88.902 88.853 88.936 0.052155 17 11 2 0 0 0 0.14355 1 45371 45371 0 0 1 54253000 + 8184 13896 5246 5263 9555 9555 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.100341796875 1 811.21677 810.209494 2.7098 0.0021982 -3.0661 -0.0024872 -0.35631 -0.00028904 811.2158741705242 88.75 0.13721 88.802 88.728 88.865 0.052147 33 20 2 0 0 0 0.14355 1 45270 45270 0 0 1 52785000 + 8185 13896 5246 5263 9556 9556 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.3373413085938 1 811.21677 810.209494 2.6217 0.0021268 -3.0884 -0.0025054 -0.46667 -0.00037857 811.2157322984934 91.684 0.20338 91.767 91.602 91.805 0.082848 33 27 3 0 0 0 0.14355 1 47603 47603 0 0 1 15046000 + 8186 13896 5246 5263 9557 9557 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 811.1599731445312 1 811.21677 810.209494 4.1599 0.0033746 -4.0259 -0.0032659 0.13398 0.00010868 811.2145791151028 97.803 0.10852 98.402 98.353 98.461 0.59885 19 11 2 0 0 0 0.14355 1 45036 45036 0 0 1 27401000 + 8187 13896 5246 5263 9558 9558 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 811.3958740234375 1 811.21677 810.209494 4.1592 0.003374 -3.0093 -0.0024412 1.15 0.00093286 811.2151295559688 98.025 0.21039 98.624 98.461 98.672 0.59885 31 17 2 0 0 0 0.14355 1 45153 45153 0 0 1 23785000 + 8188 13896 5246 5263 9559 9559 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 811.21677 810.209494 3.2725 0.0026547 -4.0466 -0.0032827 -0.77411 -0.00062797 811.2142616644749 87.871 0.18112 87.871 87.792 87.974 0 0.050335 -0.00034774 NaN 0 33 24 2 NaN NaN NaN NaN 0 NaN NaN 0 52392000 + 8189 13896 5246 5263 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 811.21677 810.209494 3.291 0.0026698 -3.6158 -0.0029332 -0.3248 -0.00026348 811.215188289613 89.651 0.18638 89.651 89.595 89.782 0 -0.12569 -0.00027213 NaN 0 42 26 3 NaN NaN NaN NaN 0 NaN NaN 0 32619000 + 8190 13896 5246 5263 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 811.21677 810.209494 3.3229 0.0026956 -1.6698 -0.0013546 1.6531 0.001341 811.217018327572 93.153 0.075356 93.153 93.118 93.193 0 0.16872 0.0013026 NaN 0 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 21818000 + 8191 13896 5246 5263 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 811.21677 810.209494 3.3134 0.0026879 -3.4954 -0.0028355 -0.18199 -0.00014764 811.2148605179532 92.154 0.063232 92.154 92.122 92.185 0 -0.069762 -0.0020957 NaN 0 11 9 2 NaN NaN NaN NaN 0 NaN NaN 0 14471000 + 8192 13896 5246 5263 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 811.21677 810.209494 2.7401 0.0022228 -2.5575 -0.0020747 0.18263 0.00014816 811.2155254741793 87.731 0.10914 87.77 87.726 87.835 0.039955 -0.050335 0.00086026 NaN 0 25 16 2 NaN NaN NaN NaN 0 NaN NaN 0 42276000 + 8193 13896 5246 5263 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 811.21677 810.209494 2.6376 0.0021397 -1.5933 -0.0012926 1.0443 0.00084711 811.2156452305778 91.108 0.059631 91.183 91.153 91.212 0.075272 -0.069971 0.00016629 NaN 0 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 26292000 + 8194 13896 5246 5263 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 811.21677 810.209494 4.7064 0.0038179 -2.5435 -0.0020633 2.1629 0.0017546 811.2126772042476 98.233 0.049911 98.522 98.484 98.533 0.28923 0.060334 0.0011046 NaN 0 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 2502700 + 8195 13896 5246 5263 -0.20320280953660586 GSCCSHCD 8 Unmodified _GSCCSHCD_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 811.21677 810.209494 4.6774 0.0037944 -4.5229 -0.0036691 0.15443 0.00012528 811.2144160426184 96.642 0.081825 96.92 96.881 96.963 0.27778 -0.029477 -0.0010095 NaN 0 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 788480 + 8196 13896 5246 5263 -0.20320280953660586 GSCGACWA 8 Unmodified _GSCGACWA_ 0 0 0 ENSG00000163131|ENST00000368985|CTSS;nc|ENSG00000163131|P25774-2|CTSS;ENST00000480760.1_1_1:150720322-150737170:-|nuORF ENSG00000163131|ENST00000368985|CTSS ENSG00000163131|ENST00000368985|CTSS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.69683837890625 2 377.635991 753.25743 NaN NaN NaN NaN NaN NaN NaN 66.817 1 67.474 66.974 67.974 0.65672 0 0 0 0.99035 1 30631 30631 0 0 1 8197 4196 5247 5264 9560 9560 -0.12906838971298384 GSCHCDWM 8 Unmodified _GSCHCDWM_ 0 0 0 ENST00000361193.7_2_17:78226526-78226595:+|nuORF ENST00000361193.7_2_17:78226526-78226595:+|nuORF ENST00000361193.7_2_17:78226526-78226595:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.6513671875 2 469.651316 937.288078 NaN NaN NaN NaN NaN NaN NaN 57.069 1 57.069 56.569 57.569 0 0 0 0 0.99035 1 26292 26292 0.79363 0 1 8198 7220 5248 5265 9561 9561 -0.18307428648552104 GSCRGKKP 8 Unmodified _GSCRGKKP_ 0 0 0 REV__nc|ENSG00000141441|Q9H706-2|GAREM1 REV__nc|ENSG00000141441|Q9H706-2|GAREM1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 416.22979736328125 2 416.726529 831.438506 3.1873 0.0013282 -1.4334 -0.00059733 1.7539 0.00073089 416.7253649155364 67.764 0.39542 68.017 67.779 68.174 0.25227 37 23 2 0 0 0 0.14267 1 31029 31029 2.5775 1.8871 1 450830 + 8199 12286 5249 5266 9562 9562 0.016044223969061022 GSCRGKKP 8 Unmodified _GSCRGKKP_ 0 0 0 REV__nc|ENSG00000141441|Q9H706-2|GAREM1 REV__nc|ENSG00000141441|Q9H706-2|GAREM1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 416.726529 831.438506 2.9893 0.0012457 -2.2793 -0.00094984 0.71003 0.00029589 416.7254941788836 67.145 0.514 67.803 67.501 68.015 0.65777 -0.10687 -0.00023848 NaN 2.5775 48 29 2 NaN NaN NaN NaN 0 NaN NaN 0 443290 + 8200 12286 5249 5266 0.016044223969061022 GSEWMRMRM 9 Unmodified _GSEWMRMRM_ 0 0 0 nc|ENSG00000013573|Q96FC9-5|DDX11 nc|ENSG00000013573|Q96FC9-5|DDX11 nc|ENSG00000013573|Q96FC9-5|DDX11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.2656860351562 2 592.262096 1182.50964 NaN NaN NaN NaN NaN NaN NaN 51.973 1 52.635 52.135 53.135 0.66198 0 0 0 0.89683 1 23767 23767 4.3292 0 1 8201 9538 5250 5267 9563 9563 -0.07431568952233647 GSFTQPMFQR 10 Unmodified _GSFTQPMFQR_ 0 0 0 REV__ENSG00000162413|ENST00000377658|KLHL21 REV__ENSG00000162413|ENST00000377658|KLHL21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 400.19525146484375 3 400.193969 1197.56008 2.7314 0.0010931 0.23268 9.3117E-05 2.9641 0.0011862 400.19406118400707 21.284 0.24387 21.284 21.156 21.4 0 56 23 3 0 0 0 0.36142 2 9505 9505;9549 17.863 2.1245 1 823210 + 8202 12933 5251 5268 9564;9565 9564 -0.030800000312410702 GSFTQPMFQR 10 Unmodified _GSFTQPMFQR_ 0 0 0 REV__ENSG00000162413|ENST00000377658|KLHL21 REV__ENSG00000162413|ENST00000377658|KLHL21 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 400.193969 1197.56008 2.7314 0.0010931 0.23268 9.3117E-05 2.9641 0.0011862 400.19406118400707 21.284 0.24387 21.284 21.156 21.4 0 0.12304 -0.0001076 NaN 17.863 56 23 3 NaN NaN NaN NaN 0 NaN NaN 0 823210 + 8203 12933 5251 5268 -0.030800000312410702 GSFTQPMFQR 10 Unmodified _GSFTQPMFQR_ 0 0 0 REV__ENSG00000162413|ENST00000377658|KLHL21 REV__ENSG00000162413|ENST00000377658|KLHL21 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 400.193969 1197.56008 3.0722 0.0012295 0.4226 0.00016912 3.4948 0.0013986 400.1941332636813 20.384 0.27117 21.038 20.909 21.18 0.65346 -0.12304 0.00012042 NaN 17.863 51 22 3 NaN NaN NaN NaN 0 NaN NaN 0 232090 + 8204 12933 5251 5268 -0.030800000312410702 GSGCGKCDC 9 Unmodified _GSGCGKCDC_ 0 0 0 ENSG00000187498|ENST00000375820|COL4A1;nc|ENSG00000187498|P02462-2|COL4A1 ENSG00000187498|ENST00000375820|COL4A1 ENSG00000187498|ENST00000375820|COL4A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 830.2708129882812 1 829.26372 828.256444 3.9125 0.0032445 -0.37508 -0.00031104 3.5374 0.0029334 829.2665247573523 7.2839 0.5494 7.2839 7.0322 7.5816 0 165 66 4 0 0 0 1.2459 8 3188 3188;3222;3256;3275;3298;3312;3351;3384 0 0 1 63839 8205 5616 5252 5269 9566;9567;9568;9569;9570;9571;9572;9573 9566 -0.16455421402520187 GSGGCGDEDDC 11 Unmodified _GSGGCGDEDDC_ 0 0 0 REV__ENSG00000179399|ENST00000377067|GPC5 REV__ENSG00000179399|ENST00000377067|GPC5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.7365417480469 2 507.642396 1013.27024 NaN NaN NaN NaN NaN NaN NaN 14.611 1 14.837 14.337 15.337 0.22622 0 0 0 1.0082 1 6425 6425 0 0 1 + 8206 13797 5253 5270 9574 9574 -0.23586517160379117 GSHTHTGSLI 10 Unmodified _GSHTHTGSLI_ 0 0 0 REV__nc|ENSG00000188611|Q9NR71-2|ASAH2 REV__nc|ENSG00000188611|Q9NR71-2|ASAH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 337.1757507324219 3 337.173562 1008.49886 NaN NaN NaN NaN NaN NaN NaN 32.519 1 33.307 32.807 33.807 0.78795 0 0 0 0.96627 1 14710 14710 9.544 4.647 1 + 8207 14153 5254 5271 9575 9575 -0.005051887389981857 GSIVPLEDSL 10 Unmodified _GSIVPLEDSL_ 0 0 0 nc|ENSG00000040199|Q6ZVD8-3|PHLPP2;ENSG00000040199|ENST00000568954|PHLPP2 nc|ENSG00000040199|Q6ZVD8-3|PHLPP2 nc|ENSG00000040199|Q6ZVD8-3|PHLPP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.2792358398438 2 515.276772 1028.53899 3.2719 0.0016859 0.61098 0.00031482 3.8828 0.0020007 515.2772477317267 38.132 0.36148 38.765 38.581 38.943 0.63388 27 15 2 0 0 0 0.38486 1 17475 17475 25.399 2.2509 1 878830 8208 531 5255 5272 9576 9576 0.02586313140909624 GSKKPYHS 8 Unmodified _GSKKPYHS_ 0 0 0 REV__ENST00000360184.8_1_14:102452783-102452858:+|nuORF REV__ENST00000360184.8_1_14:102452783-102452858:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 452.2396240234375 2 452.237784 902.461016 NaN NaN NaN NaN NaN NaN NaN 52.904 1 53.708 53.208 54.208 0.80351 0 0 0 0.97647 1 24110 24110 7.2892 2.5332 1 + 8209 15604 5256 5273 9577 9577 0.005883450661826828 GSKKPYHS 8 Unmodified _GSKKPYHS_ 0 0 0 REV__ENST00000360184.8_1_14:102452783-102452858:+|nuORF REV__ENST00000360184.8_1_14:102452783-102452858:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 452.2398681640625 2 452.237784 902.461016 NaN NaN NaN NaN NaN NaN NaN 53.008 1 53.812 53.312 54.312 0.80351 0 0 0 0.97647 1 24159 24159 7.2892 2.5332 1 + 8210 15604 5256 5273 9578 9578 0.005883450661826828 GSLIEPPK 8 Unmodified _GSLIEPPK_ 0 0 0 ENSG00000198722|ENST00000635942|UNC13B ENSG00000198722|ENST00000635942|UNC13B ENSG00000198722|ENST00000635942|UNC13B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 420.7445983886719 2 420.744911 839.475269 NaN NaN NaN NaN NaN NaN NaN 72.939 1 73.198 72.698 73.698 0.25876 0 0 0 0.99035 1 33490 33490 5.2307 0 1 8211 5920 5257 5274 9579 9579 0.04910997494482672 GSNCACSGM 9 Unmodified _GSNCACSGM_ 0 0 0 REV__ENSG00000218336|ENST00000511685|TENM3 REV__ENSG00000218336|ENST00000511685|TENM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 829.2698974609375 1 829.26372 828.256444 3.0997 0.0025705 1.8294 0.001517 4.9291 0.0040875 829.2677698019867 2.4413 0.60798 2.8277 2.6287 3.2367 0.38641 111 66 3 0 0 0 1.2126 1 1089 1089 0.52476 0 1 65418 + 8212 14534 5258 5275 9580 9580 -0.1645542140249745 GSQKGYHHFV 10 Unmodified _GSQKGYHHFV_ 0 0 0 nc|ENSG00000244482|Q6PI73-2|LILRA6;ENST00000444199.1_1_19:55208384-55209490:+|nuORF;nc|ENSG00000244482|Q6PI73|LILRA6;ENSG00000244482|ENST00000396365|LILRA6;nc|ENSG00000204577|O75022|LILRB3;ENSG00000204577|ENST00000445347|LILRB3;nc|ENSG00000204577|O75022-3|LILRB3;nc|ENSG00000204577|O75022-2|LILRB3 nc|ENSG00000244482|Q6PI73-2|LILRA6 nc|ENSG00000244482|Q6PI73-2|LILRA6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.1938171386719 3 387.192957 1158.55704 NaN NaN NaN NaN NaN NaN NaN 79.487 1 80.148 79.648 80.648 0.66082 0 0 0 0.99983 1 36624 36624 0.77653 0.36827 1 8213 6020 5259 5276 9581 9581 -0.015895070937403943 GSRKFAKLIM 10 Unmodified _GSRKFAKLIM_ 0 0 0 ENSG00000116984|ENST00000366577|MTR;nc|ENSG00000116984|Q99707-2|MTR ENSG00000116984|ENST00000366577|MTR ENSG00000116984|ENST00000366577|MTR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.8439331054688 2 575.841894 1149.66923 3.8342 0.0022079 0.86034 0.00049542 4.6946 0.0027033 575.8429567145848 85.461 1.5858 86.127 85.344 86.93 0.66566 128 85 2 0 0 0 0.93658 1 39078 39078 3.2813 1.2216 1 2449700 8214 2055 5260 5277 9582 9582 0.10038630658914371 GSYSGCSG 8 Unmodified _GSYSGCSG_ 0 0 0 REV__nc|ENSG00000143028|Q5VXT5-2|SYPL2 REV__nc|ENSG00000143028|Q5VXT5-2|SYPL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 717.1309204101562 1 717.250831 716.243554 3.5996 0.0025818 1.3663 0.00097997 4.9658 0.0035618 717.2519483382096 63.733 0.17207 63.981 63.897 64.069 0.24803 11 10 2 0 0 0 0.7471 1 29189 29189 0 0 1 363810 + 8215 12351 5261 5278 9583 9583 -0.1259179319871464 GSYSGCSG 8 Unmodified _GSYSGCSG_ 0 0 0 REV__nc|ENSG00000143028|Q5VXT5-2|SYPL2 REV__nc|ENSG00000143028|Q5VXT5-2|SYPL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 717.2557373046875 1 717.250831 716.243554 3.9635 0.0028429 1.5099 0.001083 5.4734 0.0039258 717.2517328598923 58.95 0.28576 59.617 59.501 59.787 0.66703 23 16 2 0 0 0 0.7471 1 27011 27011 0.69038 0 1 366010 + 8216 12351 5261 5278 9584 9584 -0.1259179319871464 GSYSGCSG 8 Unmodified _GSYSGCSG_ 0 0 0 REV__nc|ENSG00000143028|Q5VXT5-2|SYPL2 REV__nc|ENSG00000143028|Q5VXT5-2|SYPL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 717.2547607421875 1 717.250831 716.243554 3.7598 0.0026967 1.5189 0.0010895 5.2787 0.0037862 717.2515083785815 62.6 0.41686 63.258 63.079 63.496 0.65808 41 26 2 0 0 0 0.7471 1 28745 28745 0 0 1 687730 + 8217 12351 5261 5278 9585 9585 -0.1259179319871464 GSYSGCSG 8 Unmodified _GSYSGCSG_ 0 0 0 REV__nc|ENSG00000143028|Q5VXT5-2|SYPL2 REV__nc|ENSG00000143028|Q5VXT5-2|SYPL2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 717.250831 716.243554 3.6702 0.0026324 0.90532 0.00064934 4.5755 0.0032818 717.2512419246822 63.06 0.46654 63.31 63.081 63.547 0.24965 0.026079 -0.00021839 NaN 0 41 26 2 NaN NaN NaN NaN 0 NaN NaN 0 1003900 + 8218 12351 5261 5278 -0.1259179319871464 GSYSGCSG 8 Unmodified _GSYSGCSG_ 0 0 0 REV__nc|ENSG00000143028|Q5VXT5-2|SYPL2 REV__nc|ENSG00000143028|Q5VXT5-2|SYPL2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 717.250831 716.243554 3.5996 0.0025818 1.3663 0.00097997 4.9658 0.0035618 717.2519483382096 63.733 0.17207 63.981 63.897 64.069 0.24803 0 0 NaN 0 11 10 2 NaN NaN NaN NaN 0 NaN NaN 0 363810 + 8219 12351 5261 5278 -0.1259179319871464 GSYSGCSG 8 Unmodified _GSYSGCSG_ 0 0 0 REV__nc|ENSG00000143028|Q5VXT5-2|SYPL2 REV__nc|ENSG00000143028|Q5VXT5-2|SYPL2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 717.250831 716.243554 3.7598 0.0026967 1.5189 0.0010895 5.2787 0.0037862 717.2515083785815 62.6 0.41686 63.258 63.079 63.496 0.65808 -0.026079 0.00022171 NaN 0 41 26 2 NaN NaN NaN NaN 0 NaN NaN 0 687730 + 8220 12351 5261 5278 -0.1259179319871464 GTAIFSFESI 10 Unmodified _GTAIFSFESI_ 0 0 0 nc|ENSG00000186335|Q495M3-2|SLC36A2;ENSG00000186335|ENST00000335244|SLC36A2 nc|ENSG00000186335|Q495M3-2|SLC36A2 nc|ENSG00000186335|Q495M3-2|SLC36A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.2747192382812 2 536.27149 1070.52843 NaN NaN NaN NaN NaN NaN NaN 52.263 1 53.074 52.574 53.574 0.81065 0 0 0 0.92641 1 23810 23810 17.113 0.96379 1 8221 5564 5262 5279 9586 9586 -0.0040166951350784075 GTAPFEAVL 9 Unmodified _GTAPFEAVL_ 0 0 0 REV__nc|ENSG00000078795|Q9NZM6-6|PKD2L2 REV__nc|ENSG00000078795|Q9NZM6-6|PKD2L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 452.7430419921875 2 452.742368 903.470183 NaN NaN NaN NaN NaN NaN NaN 54.113 1 54.78 54.28 55.28 0.6665 0 0 0 0.69911 1 24751 24751 12.532 0 1 + 8222 10575 5263 5280 9587 9587 0.014586936318437438 GTFAMAWTM 9 Unmodified _GTFAMAWTM_ 0 0 0 ENST00000353917.9_1_20:43929601-43932870:-|nuORF ENST00000353917.9_1_20:43929601-43932870:-|nuORF ENST00000353917.9_1_20:43929601-43932870:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.286865234375 2 508.222431 1014.43031 3.1826 0.0016175 0.34238 0.00017401 3.525 0.0017915 508.2223908094208 50.77 0.15899 51.031 50.937 51.096 0.26146 11 7 2 0 0 0 0.080899 1 23164 23164 20.454 5.8719 1 244050 8223 7140 5264 5281 9588 9588 -0.07632892634728705 GTGIGVHF 8 Unmodified _GTGIGVHF_ 0 0 0 ENSG00000188000|ENST00000641288|OR7D2 ENSG00000188000|ENST00000641288|OR7D2 ENSG00000188000|ENST00000641288|OR7D2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.20928955078125 2 394.208495 786.402438 NaN NaN NaN NaN NaN NaN NaN 12.991 1 13.234 12.734 13.734 0.24346 0 0 0 0.99035 1 5658 5658 5.7604 0 1 8224 5646 5265 5282 9589 9589 0.0006928849170435569 GTHVDPILL 9 Unmodified _GTHVDPILL_ 0 0 0 nc|ENSG00000006715|P49754-2|VPS41;nc|ENSG00000006715|P49754-3|VPS41;ENSG00000006715|ENST00000310301|VPS41 nc|ENSG00000006715|P49754-2|VPS41 nc|ENSG00000006715|P49754-2|VPS41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 482.7788391113281 2 482.776742 963.538931 3.2844 0.0015856 0.46768 0.00022579 3.7521 0.0018114 482.7766537918731 50.624 0.25891 50.624 50.461 50.72 0 24 15 2 0 0 0 0.03963 1 23168 23168 48.346 0 1 1304000 8225 356 5266 5283 9590 9590 0.05570357931560466 GTHVDPILL 9 Unmodified _GTHVDPILL_ 0 0 0 nc|ENSG00000006715|P49754-2|VPS41;nc|ENSG00000006715|P49754-3|VPS41;ENSG00000006715|ENST00000310301|VPS41 nc|ENSG00000006715|P49754-2|VPS41 nc|ENSG00000006715|P49754-2|VPS41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.7779541015625 2 482.776742 963.538931 3.0096 0.001453 0.10926 5.2747E-05 3.1189 0.0015057 482.7767018877806 50.31 0.23014 50.571 50.438 50.668 0.26146 14 7 2 0 0 0 0.057945 1 22972 22972 39.957 11.47 1 1050400 8226 356 5266 5283 9591 9591 0.05570357931560466 GTHVDPILL 9 Unmodified _GTHVDPILL_ 0 0 0 nc|ENSG00000006715|P49754-2|VPS41;nc|ENSG00000006715|P49754-3|VPS41;ENSG00000006715|ENST00000310301|VPS41 nc|ENSG00000006715|P49754-2|VPS41 nc|ENSG00000006715|P49754-2|VPS41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.77923583984375 2 482.776742 963.538931 3.1901 0.0015401 0.78085 0.00037697 3.9709 0.0019171 482.77718687658336 49.699 0.23387 50.356 50.167 50.4 0.65735 13 7 2 0 0 0 0.057945 2 22694 22694;22749 39.957 1.8061 1 1003200 8227 356 5266 5283 9592;9593 9592 0.05570357931560466 GTIRVSAETKL 11 Unmodified _GTIRVSAETKL_ 0 0 0 ENST00000519759.1_1_5:156649807-156665140:+|nuORF;ENST00000422843.7_1_5:156638304-156665140:+|nuORF ENST00000519759.1_1_5:156649807-156665140:+|nuORF ENST00000519759.1_1_5:156649807-156665140:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.8416748046875 2 587.843145 1173.67174 NaN NaN NaN NaN NaN NaN NaN 57.271 1 57.271 56.771 57.771 0 0 0 0 0.98464 1 26392 26392 8.1555 2.8586 1 8228 7772 5267 5284 9594 9594 0.09184757597563475 GTKRRPLKKRE 11 Unmodified _GTKRRPLKKRE_ 0 0 0 REV__ENST00000483405.5_2_16:29911961-29916194:+|nuORF REV__ENST00000483405.5_2_16:29911961-29916194:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 684.68603515625 2 684.930951 1367.84735 NaN NaN NaN NaN NaN NaN NaN 23.402 1 24.088 23.588 24.588 0.68536 0 0 0 1.0061 1 10442 10442 2.7352 1.4057 1 + 8229 16720 5268 5285 9595 9595 0.17814016902298135 GTLTSFDIHIL 11 Unmodified _GTLTSFDIHIL_ 0 0 0 nc|ENSG00000187243|Q96JG8-3|MAGED4;ENST00000470594.5_1_X:51809762-51812242:-|nuORF;nc|ENSG00000187243|Q96JG8-2|MAGED4;ENSG00000187243|ENST00000335504|MAGED4B;ENSG00000154545|ENST00000471932|MAGED4;nc|ENSG00000187243|Q96JG8-4|MAGED4 nc|ENSG00000187243|Q96JG8-3|MAGED4 nc|ENSG00000187243|Q96JG8-3|MAGED4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 608.7214965820312 2 608.832246 1215.64994 NaN NaN NaN NaN NaN NaN NaN 24.988 1 25.724 25.224 26.224 0.73623 0 0 0 1.0061 1 11205 11205 2.7352 0.23671 1 8230 3827 5269 5286 9596 9596 0.05073952848988483 GTPCCSARE 9 Unmodified _GTPCCSARE_ 0 0 0 ENSG00000168135|ENST00000303592|KCNJ4 ENSG00000168135|ENST00000303592|KCNJ4 ENSG00000168135|ENST00000303592|KCNJ4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.1896667480469 2 462.189119 922.363686 2.6639 0.0012312 -0.55036 -0.00025437 2.1135 0.00097684 462.18865774366117 53.93 0.33341 54.195 54.016 54.349 0.26462 22 13 2 0 0 0 1.0246 1 24635 24635 3.5965 0.70727 1 290860 8231 4609 5270 5287 9597 9597 -0.10060128196630558 GTRRLSELRVI 11 Unmodified _GTRRLSELRVI_ 0 0 0 ENSG00000130254|ENST00000252542|SAFB2;nc|ENSG00000130254|Q14151-2|SAFB2 ENSG00000130254|ENST00000252542|SAFB2 ENSG00000130254|ENST00000252542|SAFB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 650.3988037109375 2 650.39641 1298.77827 4.2799 0.0027836 -0.45446 -0.00029558 3.8254 0.002488 650.3962701297736 91.809 1.5567 92.061 91.527 93.084 0.25253 141 77 3 0 0 0 0.91328 1 42378 42378 0 0 1 1576200 8232 2580 5271 5288 9598 9598 0.14082932882729438 GTTRTRPPM 9 Unmodified _GTTRTRPPM_ 0 0 0 ENST00000528995.5_1_11:6629688-6630555:+|nuORF ENST00000528995.5_1_11:6629688-6630555:+|nuORF ENST00000528995.5_1_11:6629688-6630555:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.77105712890625 2 508.768926 1015.5233 NaN NaN NaN NaN NaN NaN NaN 19.914 1 20.572 20.072 21.072 0.6583 0 0 0 0.8984 1 9039 9039 3.9444 0 1 8233 8695 5272 5289 9599 9599 0.016157481428763276 GTVRLRLDTL 10 Unmodified _GTVRLRLDTL_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.90155029296875 3 381.899662 1142.67716 2.6441 0.0010098 0.057294 2.1881E-05 2.7014 0.0010317 381.8998117211252 19.421 0.17973 19.718 19.617 19.797 0.29753 28 15 2 0 0 0 0.54061 1 8828 8828 19.626 0 1 722850 + 8234 12747 5273 5290 9600 9600 0.11152481180033647 GTVRLRLDTL 10 Unmodified _GTVRLRLDTL_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 381.899662 1142.67716 2.8349 0.0010826 -0.37537 -0.00014335 2.4595 0.0009393 381.8995602414769 19.999 0.054514 19.999 19.97 20.025 0 0.1883 -0.00038304 NaN 19.626 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 160150 + 8235 12747 5273 5290 0.11152481180033647 GTVRLRLDTL 10 Unmodified _GTVRLRLDTL_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 381.899662 1142.67716 2.6441 0.0010098 0.057294 2.1881E-05 2.7014 0.0010317 381.8998117211252 19.421 0.17973 19.718 19.617 19.797 0.29753 -0.092679 0.00011266 NaN 19.626 28 15 2 NaN NaN NaN NaN 0 NaN NaN 0 722850 + 8236 12747 5273 5290 0.11152481180033647 GTVRLRLDTL 10 Unmodified _GTVRLRLDTL_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 381.899662 1142.67716 2.8642 0.0010939 0.35956 0.00013732 3.2238 0.0012312 381.8999225931959 19.057 0.20499 19.715 19.574 19.779 0.6583 -0.09562 0.00045897 NaN 19.626 28 17 2 NaN NaN NaN NaN 0 NaN NaN 0 692780 + 8237 12747 5273 5290 0.11152481180033647 GTVVVLEVL 9 Unmodified _GTVVVLEVL_ 0 0 0 nc|ENSG00000174227|Q5H8A4-3|PIGG;ENSG00000174227|ENST00000453061|PIGG nc|ENSG00000174227|Q5H8A4-3|PIGG nc|ENSG00000174227|Q5H8A4-3|PIGG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.7906799316406 2 464.789318 927.564084 2.8933 0.0013448 -1.0489 -0.00048753 1.8444 0.00085725 464.78942131022006 66.055 0.46887 66.712 66.408 66.877 0.65672 64 30 4 0 0 0 0.020718 1 30314 30314 67.344 7.27 1 1508900 8238 4967 5274 5291 9601 9601 0.09740412734140591 GTWCRWNFF 9 Unmodified _GTWCRWNFF_ 0 0 0 ENST00000608872.5_1_9:123523932-123524193:-|nuORF ENST00000608872.5_1_9:123523932-123524193:-|nuORF ENST00000608872.5_1_9:123523932-123524193:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 608.7738647460938 2 608.771468 1215.52838 NaN NaN NaN NaN NaN NaN NaN 24.724 1 25.46 24.96 25.96 0.73623 0 0 0 0.91206 1 11080 11080 0.6015 0.076735 1 8239 9346 5275 5292 9602 9602 -0.07075947994530907 GTWFGDSFE 9 Unmodified _GTWFGDSFE_ 0 0 0 REV__ENST00000463674.5_1_21:42613685-42647548:+|nuORF REV__ENST00000463674.5_1_21:42613685-42647548:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.2196044921875 2 523.216714 1044.41888 3.4638 0.0018123 1.7696 0.00092586 5.2333 0.0027382 523.2172502989471 33.16 0.32147 33.414 33.297 33.618 0.25389 23 14 2 0 0 0 0.98132 1 15106 15106 4.3292 0.73274 1 304880 + 8240 13881 5276 5293 9603 9603 -0.1015567513284168 GTYPVYILP 9 Unmodified _GTYPVYILP_ 0 0 0 ENST00000390542.6_1_14:106207704-106207758:-|nuORF;ENST00000390545.2_1_14:106109437-106109539:-|nuORF ENST00000390542.6_1_14:106207704-106207758:-|nuORF ENST00000390542.6_1_14:106207704-106207758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.5225524902344 3 341.523421 1021.54843 NaN NaN NaN NaN NaN NaN NaN 17.758 1 18.06 17.56 18.56 0.30158 0 0 0 0.90965 1 8043 8043 1.1933 0 1 8241 7504 5277 5294 9604 9604 0.03852126217077512 GVAAATTTLLM 11 Unmodified _GVAAATTTLLM_ 0 0 0 nc|ENSG00000126259|Q6UWL6-3|KIRREL2;nc|ENSG00000126259|Q6UWL6-2|KIRREL2;ENSG00000126259|ENST00000360202|KIRREL2 nc|ENSG00000126259|Q6UWL6-3|KIRREL2 nc|ENSG00000126259|Q6UWL6-3|KIRREL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.1960144042969 3 350.195087 1047.56343 2.5009 0.00087581 -0.79293 -0.00027768 1.708 0.00059813 350.194658821857 15.444 1.0111 16.098 15.735 16.746 0.65356 357 131 4 0 0 0 0.91028 1 7093 7093 1.4551 1.4551 1 364320 8242 2448 5278 5295 9605 9605 0.04155250022790824 GVADFIRRR 9 Unmodified _GVADFIRRR_ 0 0 0 REV__nc|ENSG00000020129|Q9UBB6-2|NCDN REV__nc|ENSG00000020129|Q9UBB6-2|NCDN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3184814453125 2 545.317432 1088.62031 3.5647 0.0019439 -0.89863 -0.00049004 2.6661 0.0014538 545.316860063632 84.788 0.81857 85.036 84.763 85.582 0.24757 91 48 3 0 0 0 1.101 1 38993 38993 2.3027 2.3027 1 769400 + 8243 10262 5279 5296 9606 9606 0.07954478414171717 GVADFIRRR 9 Unmodified _GVADFIRRR_ 0 0 0 REV__nc|ENSG00000020129|Q9UBB6-2|NCDN REV__nc|ENSG00000020129|Q9UBB6-2|NCDN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.3197631835938 2 545.317432 1088.62031 3.6481 0.0019894 -1.0829 -0.00059054 2.5652 0.0013988 545.3167571998881 83.226 1.6957 83.886 83.094 84.79 0.66019 259 100 4 0 0 0 1.101 1 38633 38633 2.3027 2.3027 1 2968300 + 8244 10262 5279 5296 9607 9607 0.07954478414171717 GVAFAKLFV 9 Unmodified _GVAFAKLFV_ 0 0 0 REV__ENSG00000205339|ENST00000379719|IPO7 REV__ENSG00000205339|ENST00000379719|IPO7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.8595275878906 3 317.860256 950.558939 NaN NaN NaN NaN NaN NaN NaN 12.628 1 12.935 12.435 13.435 0.30727 0 0 0 0.89315 1 5698 5698 2.9952 1.151 1 + 8245 14458 5280 5297 9608 9608 0.08168153662177247 GVAHRLTNYVK 11 Unmodified _GVAHRLTNYVK_ 0 0 0 REV__ENSG00000125454|ENST00000416858|SLC25A19 REV__ENSG00000125454|ENST00000416858|SLC25A19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 629.3547973632812 2 629.356754 1256.69895 NaN NaN NaN NaN NaN NaN NaN 18.716 1 18.716 18.216 19.216 0 0 0 0 1.0055 1 8321 8321 3.5965 0.31518 1 + 8246 11681 5281 5298 9609 9609 0.08087285928581878 GVAIRHNRE 9 Unmodified _GVAIRHNRE_ 0 0 0 REV__nc|ENSG00000091157|Q9Y4E6-2|WDR7 REV__nc|ENSG00000091157|Q9Y4E6-2|WDR7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.2443542480469 3 351.196701 1050.56827 NaN NaN NaN NaN NaN NaN NaN 28.585 1 28.585 28.085 29.085 0 0 0 0 0.90431 1 12891 12891 2.4985 0.41248 1 + 8247 10729 5282 5299 9610 9610 0.04501315000402428 GVAKLTTFIF 10 Unmodified _GVAKLTTFIF_ 0 0 0 REV__nc|ENSG00000163749|Q5M9N0-3|CCDC158 REV__nc|ENSG00000163749|Q5M9N0-3|CCDC158 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.8212280273438 2 548.823692 1095.63283 NaN NaN NaN NaN NaN NaN NaN 40.468 1 41.268 40.768 41.768 0.80014 0 0 0 0.99983 1 18329 18329 1.8442 0.51471 1 + 8248 18010 5283 5300 9611 9611 0.08884077033826543 GVALALQWRPL 11 Unmodified _GVALALQWRPL_ 0 0 0 REV__ENSG00000154174|ENST00000284320|TOMM70 REV__ENSG00000154174|ENST00000284320|TOMM70 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 612.3682861328125 2 612.36659 1222.71863 NaN NaN NaN NaN NaN NaN NaN 78.47 1 78.723 78.223 79.223 0.25335 0 0 0 1.0072 1 36136 36136 1.3295 0.13619 1 + 8249 12699 5284 5301 9612 9612 0.11617661939362733 GVALFFLFPPY 11 Unmodified _GVALFFLFPPY_ 0 0 0 REV__ENST00000477450.1_1_1:165619084-165623023:+|nuORF REV__ENST00000477450.1_1_1:165619084-165623023:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 635.84765625 2 635.847167 1269.67978 NaN NaN NaN NaN NaN NaN NaN 67.197 1 67.855 67.355 68.355 0.65777 0 0 0 1.0071 1 30803 30803 1.4819 0.95714 1 + 8250 12356 5285 5302 9613 9613 0.05572936585008392 GVALRMKRTRR 11 Unmodified _GVALRMKRTRR_ 0 0 0 REV__ENST00000474287.5_1_3:133465176-133472639:+|nuORF REV__ENST00000474287.5_1_3:133465176-133472639:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 672.4111938476562 2 672.411872 1342.80919 NaN NaN NaN NaN NaN NaN NaN 90.034 1 90.285 89.785 90.785 0.25137 0 0 0 1.0071 1 41404 41404 1.4819 0 1 + 8251 16634 5286 5303 9614 9614 0.15149807715988572 GVALTFIFRLR 11 Unmodified _GVALTFIFRLR_ 0 0 0 nc|ENSG00000120217|Q9NZQ7-2|CD274;ENSG00000120217|ENST00000381577|CD274;ENST00000492923.1_1_9:5462961-5465689:+|nuORF nc|ENSG00000120217|Q9NZQ7-2|CD274 nc|ENSG00000120217|Q9NZQ7-2|CD274 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 647.119384765625 2 646.895515 1291.77648 NaN NaN NaN NaN NaN NaN NaN 95.734 1 95.816 95.316 96.316 0.082001 0 0 0 1.0057 1 50682 50682 3.2813 0.28607 1 8252 2183 5287 5304 9615 9615 0.1422592386479664 GVAMLRHMLQL 11 Unmodified _GVAMLRHMLQL_ 0 0 0 ENSG00000186532|ENST00000305513|SMYD4 ENSG00000186532|ENST00000305513|SMYD4 ENSG00000186532|ENST00000305513|SMYD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 634.8514404296875 2 634.851935 1267.68932 NaN NaN NaN NaN NaN NaN NaN 22.904 1 23.589 23.089 24.089 0.68536 0 0 0 1.0072 1 10197 10197 1.3295 0.87119 1 8253 5578 5288 5305 9616 9616 0.06618058327239851 GVAPKAVL 8 Unmodified _GVAPKAVL_ 0 0 0 nc|ENSG00000160856|Q96P31-4|FCRL3;ENST00000480682.5_1_1:157667440-157670285:-|nuORF;nc|ENSG00000160856|Q96P31-5|FCRL3;ENST00000494724.5_1_1:157667081-157670285:-|nuORF;nc|ENSG00000160856|Q96P31-2|FCRL3;nc|ENSG00000160856|Q96P31-7|FCRL3;ENSG00000160856|ENST00000368184|FCRL3;nc|ENSG00000160856|Q96P31-3|FCRL3;nc|ENSG00000160856|Q96P31-6|FCRL3 nc|ENSG00000160856|Q96P31-4|FCRL3 nc|ENSG00000160856|Q96P31-4|FCRL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 377.74627685546875 2 377.744714 753.474875 NaN NaN NaN NaN NaN NaN NaN 68.844 1 68.844 68.344 69.344 0 0 0 0 0.99035 1 33176 33176 2.5775 0.27475 1 8254 4083 5289 5306 9617 9617 0.08827622565274851 GVARARHR 8 Unmodified _GVARARHR_ 0 0 0 ENSG00000162896|ENST00000356495|PIGR ENSG00000162896|ENST00000356495|PIGR ENSG00000162896|ENST00000356495|PIGR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 308.19683837890625 3 308.186248 921.536915 NaN NaN NaN NaN NaN NaN NaN 20.608 1 20.608 20.108 21.108 0 0 0 0 0.99035 1 9217 9217 0.45834 0 1 8255 4178 5290 5307 9618 9618 0.07300786756991329 GVAREHHVL 9 Unmodified _GVAREHHVL_ 0 0 0 nc|ENSG00000148357|Q8NDA2-4|HMCN2;nc|ENSG00000148357|Q8NDA2-1|HMCN2;ENSG00000148357|ENST00000683500|HMCN2 nc|ENSG00000148357|Q8NDA2-4|HMCN2 nc|ENSG00000148357|Q8NDA2-4|HMCN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.85870361328125 3 339.857797 1016.55156 2.0162 0.00068524 0.39285 0.00013351 2.4091 0.00081875 339.85782807130596 13.497 0.18265 13.804 13.686 13.868 0.30727 20 13 2 0 0 0 0.94779 1 6098 6098 4.897 1.3005 1 133800 8256 3601 5291 5308 9619 9619 0.043948141144596775 GVARLPHVNH 10 Unmodified _GVARLPHVNH_ 0 0 0 REV__ENSG00000213699|ENST00000344420|SLC35F6 REV__ENSG00000213699|ENST00000344420|SLC35F6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.311279296875 2 550.309606 1098.60466 NaN NaN NaN NaN NaN NaN NaN 26.065 1 26.065 25.565 26.565 0 0 0 0 1.0001 1 11718 11718 1.6526 0.17072 1 + 8257 14499 5292 5309 9620 9620 0.05930191897118675 GVARRGLVPR 10 Unmodified _GVARRGLVPR_ 0 0 0 REV__nc|ENSG00000103253|Q6PII5-4|HAGHL REV__nc|ENSG00000103253|Q6PII5-4|HAGHL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.8418579101562 2 540.841074 1079.66759 NaN NaN NaN NaN NaN NaN NaN 93.255 1 93.51 93.01 94.01 0.25497 0 0 0 1.0001 1 42862 42862 1.6526 1.0511 1 + 8258 17884 5293 5310 9621 9621 0.13094757685189506 GVARRPWLWR 10 Unmodified _GVARRPWLWR_ 0 0 0 REV__nc|ENSG00000112031|Q9UGC7-4|MTRF1L REV__nc|ENSG00000112031|Q9UGC7-4|MTRF1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.8740234375 2 648.875448 1295.73634 NaN NaN NaN NaN NaN NaN NaN 50.652 1 51.47 50.97 51.97 0.81738 0 0 0 1.0015 1 23071 23071 0.45834 0 1 + 8259 11257 5294 5311 9622 9622 0.1003042198485673 GVARRRRLELR 11 Unmodified _GVARRRRLELR_ 0 0 0 nc|ENSG00000114812|P32241-2|VIPR1 nc|ENSG00000114812|P32241-2|VIPR1 nc|ENSG00000114812|P32241-2|VIPR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 691.4315795898438 2 691.434193 1380.85383 NaN NaN NaN NaN NaN NaN NaN 54.287 1 55.082 54.582 55.582 0.79552 0 0 0 1.008 1 24769 24769 0.35063 0 1 8260 9603 5295 5312 9623 9623 0.1786395485369212 GVARRWRRRQG 11 Unmodified _GVARRWRRRQG_ 0 0 0 REV__ENST00000367330.5_1_1:201123337-201123409:-|nuORF REV__ENST00000367330.5_1_1:201123337-201123409:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 699.408447265625 2 699.408509 1396.80247 NaN NaN NaN NaN NaN NaN NaN 51.522 1 52.339 51.839 52.839 0.81738 0 0 0 1.008 1 23469 23469 0.35063 0 1 + 8261 15655 5296 5313 9624 9624 0.11993630879601369 GVARRWRRRQG 11 Unmodified _GVARRWRRRQG_ 0 0 0 REV__ENST00000367330.5_1_1:201123337-201123409:-|nuORF REV__ENST00000367330.5_1_1:201123337-201123409:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.6100769042969 3 466.608098 1396.80247 3.4053 0.0015889 0.1495 6.9756E-05 3.5548 0.0016587 466.60806622908734 94.245 0.56345 94.505 94.247 94.81 0.25974 43 28 2 0 0 0 0.91378 1 43325 43325 0.094841 0.011491 1 405010 + 8262 15655 5296 5313 9625 9625 0.11993630879601369 GVARRWRRRQG 11 Unmodified _GVARRWRRRQG_ 0 0 0 REV__ENST00000367330.5_1_1:201123337-201123409:-|nuORF REV__ENST00000367330.5_1_1:201123337-201123409:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.6087951660156 3 466.608098 1396.80247 3.4705 0.0016194 0.17861 8.3339E-05 3.6491 0.0017027 466.6080544002431 95.098 1.5811 95.365 94.733 96.314 0.2675 210 92 3 0 0 0 0.91378 5 43481 43481;43802;43887;44001;44056 0.094841 0.094841 1 1258600 + 8263 15655 5296 5313 9626;9627;9628;9629;9630 9626 0.11993630879601369 GVARRWRRRQG 11 Unmodified _GVARRWRRRQG_ 0 0 0 REV__ENST00000367330.5_1_1:201123337-201123409:-|nuORF REV__ENST00000367330.5_1_1:201123337-201123409:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.6087646484375 3 466.608098 1396.80247 3.5929 0.0016765 -0.65089 -0.00030371 2.9421 0.0013728 466.6075772384415 105.92 0.14559 106.24 106.15 106.3 0.31712 17 5 4 0 0 0 0.91378 1 48888 48888 0.094841 0.094841 1 1308400 + 8264 15655 5296 5313 9631 9631 0.11993630879601369 GVARRWRRRQG 11 Unmodified _GVARRWRRRQG_ 0 0 0 REV__ENST00000367330.5_1_1:201123337-201123409:-|nuORF REV__ENST00000367330.5_1_1:201123337-201123409:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.6091003417969 3 466.608098 1396.80247 3.0323 0.0014149 0.041565 1.9394E-05 3.0738 0.0014343 466.6080187663361 93.783 0.51923 94.415 94.124 94.644 0.63115 42 23 2 0 0 0 0.91378 1 43136 43136 0.094841 0.011491 1 452440 + 8265 15655 5296 5313 9632 9632 0.11993630879601369 GVARRWRRRQG 11 Unmodified _GVARRWRRRQG_ 0 0 0 REV__ENST00000367330.5_1_1:201123337-201123409:-|nuORF REV__ENST00000367330.5_1_1:201123337-201123409:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.60870361328125 3 466.608098 1396.80247 3.0406 0.0014188 0.52057 0.0002429 3.5611 0.0016617 466.6081590019679 94.624 1.561 95.241 94.606 96.167 0.61736 176 85 3 0 0 0 0.91378 5 43298 43298;43399;43717;43821;43869 0.094841 0.094841 1 985270 + 8266 15655 5296 5313 9633;9634;9635;9636;9637 9633 0.11993630879601369 GVARRWRRRQG 11 Unmodified _GVARRWRRRQG_ 0 0 0 REV__ENST00000367330.5_1_1:201123337-201123409:-|nuORF REV__ENST00000367330.5_1_1:201123337-201123409:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 699.4112548828125 2 699.408509 1396.80247 4.1523 0.0029041 0.069135 4.8354E-05 4.2214 0.0029525 699.4084603654914 94.624 1.3387 95.241 94.696 96.035 0.61737 128 73 3 0 0 0 0.91378 1 43813 43813 0.35063 0.043601 1 973420 + 8267 15655 5296 5313 9638 9638 0.11993630879601369 GVARRWRRRQG 11 Unmodified _GVARRWRRRQG_ 0 0 0 REV__ENST00000367330.5_1_1:201123337-201123409:-|nuORF REV__ENST00000367330.5_1_1:201123337-201123409:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.61029052734375 3 466.608098 1396.80247 3.0492 0.0014228 0.46949 0.00021907 3.5186 0.0016418 466.6082444436972 95.92 0.53236 96.528 96.158 96.69 0.60769 76 31 4 0 0 0 0.91378 1 44037 44037 0.094841 0.011491 1 1778500 + 8268 15655 5296 5313 9639 9639 0.11993630879601369 GVASDGYQWRD 11 Unmodified _GVASDGYQWRD_ 0 0 0 REV__ENSG00000101966|ENST00000371199|XIAP REV__ENSG00000101966|ENST00000371199|XIAP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 418.52490234375 3 418.523031 1252.54726 NaN NaN NaN NaN NaN NaN NaN 73.439 1 74.103 73.603 74.603 0.66398 0 0 0 1.0072 1 33749 33749 0.45452 0.046251 1 + 8269 10913 5297 5314 9640 9640 -0.06890739889763609 GVASSRQPASR 11 Unmodified _GVASSRQPASR_ 0 0 0 REV__ENST00000396137.4_1_5:78532250-78532358:+|nuORF REV__ENST00000396137.4_1_5:78532250-78532358:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.2980346679688 2 558.299436 1114.58432 NaN NaN NaN NaN NaN NaN NaN 102.09 1 102.68 102.18 103.18 0.59759 0 0 0 1.0075 1 47259 47259 0.96228 0.16864 1 + 8270 15999 5298 5315 9641 9641 0.03160976446656605 GVATATRVVQ 10 Unmodified _GVATATRVVQ_ 0 0 0 REV__ENST00000341394.8_1_11:34073366-34074044:+|nuORF REV__ENST00000341394.8_1_11:34073366-34074044:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.2920227050781 2 501.290548 1000.56654 3.9078 0.001959 -0.20162 -0.00010107 3.7062 0.0018579 501.2903429392223 94.736 0.43542 94.995 94.779 95.215 0.25975 68 24 4 0 0 0 0.93628 2 43558 43516;43558 1.6526 0.96225 1 1656900 + 8271 15464 5299 5316 9642;9643 9643 0.06628261191804086 GVATATRVVQ 10 Unmodified _GVATATRVVQ_ 0 0 0 REV__ENST00000341394.8_1_11:34073366-34074044:+|nuORF REV__ENST00000341394.8_1_11:34073366-34074044:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.2922668457031 2 501.290548 1000.56654 3.4345 0.0017217 0.52812 0.00026474 3.9626 0.0019864 501.29062869035965 94.288 0.45177 94.906 94.677 95.129 0.61736 75 26 4 0 0 0 0.90196 2 43309 43309;43361 3.5965 1.5367 1 1685100 + 8272 15464 5299 5316 9644;9645 9644 0.06628261191804086 GVATLPLSYR 10 Unmodified _GVATLPLSYR_ 0 0 0 ENST00000592560.1_1_17:42436899-42441082:-|nuORF;ENSG00000161682|ENST00000293443|FAM171A2 ENST00000592560.1_1_17:42436899-42441082:-|nuORF ENST00000592560.1_1_17:42436899-42441082:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.3125610351562 2 538.808574 1075.60259 3.9727 0.0021405 -1.4746 -0.00079453 2.498 0.001346 539.3100980917477 97.761 0.22334 98.05 97.871 98.095 0.28923 33 14 3 0 0 0 0.89464 1 44864 44864 3.9444 0.3479 1 9752300 8273 4101 5300 5317 9646 9646 0.06781718368665679 GVATLPLSYR 10 Unmodified _GVATLPLSYR_ 0 0 0 ENST00000592560.1_1_17:42436899-42441082:-|nuORF;ENSG00000161682|ENST00000293443|FAM171A2 ENST00000592560.1_1_17:42436899-42441082:-|nuORF ENST00000592560.1_1_17:42436899-42441082:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 538.808574 1075.60259 3.523 0.0018982 -4.0412 -0.0021775 -0.51826 -0.00027924 538.806379112845 97.34 0.31145 97.942 97.765 98.076 0.60191 -0.053732 -0.00017742 NaN 3.9444 36 16 3 NaN NaN NaN NaN 0 NaN NaN 0 1500800 8274 4101 5300 5317 0.06781718368665679 GVAVRDRLF 9 Unmodified _GVAVRDRLF_ 0 0 0 REV__ENST00000476718.1_1_1:1289695-1290347:-|nuORF REV__ENST00000476718.1_1_1:1289695-1290347:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 344.8706970214844 3 344.869814 1031.58761 NaN NaN NaN NaN NaN NaN NaN 15.445 1 15.656 15.156 16.156 0.21108 0 0 0 0.90511 1 6811 6811 1.1933 0 1 + 8275 12943 5301 5318 9647 9647 0.07308271291321944 GVAVRFVFHNT 11 Unmodified _GVAVRFVFHNT_ 0 0 0 nc|ENSG00000122126|Q01968-2|OCRL;ENSG00000122126|ENST00000371113|OCRL nc|ENSG00000122126|Q01968-2|OCRL nc|ENSG00000122126|Q01968-2|OCRL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 623.7457275390625 2 623.838197 1245.66184 NaN NaN NaN NaN NaN NaN NaN 54.918 1 54.918 54.418 55.418 0 0 0 0 1.0055 1 25214 25214 3.5965 0 1 8276 2256 5302 5319 9648 9648 0.04883614382856649 GVAWRLKN 8 Unmodified _GVAWRLKN_ 0 0 0 nc|ENSG00000160200|P35520-2|CBS;ENSG00000160200|ENST00000398165|CBS nc|ENSG00000160200|P35520-2|CBS nc|ENSG00000160200|P35520-2|CBS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.2990417480469 2 472.277244 942.539935 NaN NaN NaN NaN NaN NaN NaN 68.291 1 68.95 68.45 69.45 0.65924 0 0 0 0.94507 1 31304 31304 9.3474 2.6243 1 8277 4045 5303 5320 9649 9649 0.06636617091123753 GVCAFHFW 8 Unmodified _GVCAFHFW_ 0 0 0 REV__ENST00000484795.5_1_12:6760363-6761595:-|nuORF REV__ENST00000484795.5_1_12:6760363-6761595:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.7180480957031 2 483.718173 965.421793 NaN NaN NaN NaN NaN NaN NaN 56.133 1 56.399 55.899 56.899 0.26543 0 0 0 0.99035 1 25673 25673 0.79363 0 1 + 8278 11243 5304 5321 9650 9650 -0.062300784890339855 GVCAMRRC 8 Unmodified _GVCAMRRC_ 0 0 0 REV__ENST00000431339.1_1_X:73326627-73327404:+|nuORF REV__ENST00000431339.1_1_X:73326627-73327404:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 448.42730712890625 2 448.206592 894.398632 NaN NaN NaN NaN NaN NaN NaN 96.353 1 96.631 96.131 97.131 0.27778 0 0 0 0.99035 1 44271 44271 0.79363 0 1 + 8279 16264 5305 5322 9651 9651 -0.05279163869658987 GVCCSTTT 8 Unmodified _GVCCSTTT_ 0 0 0 REV__ENST00000256412.8_1_8:24241976-24249777:+|nuORF REV__ENST00000256412.8_1_8:24241976-24249777:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 386.155517578125 2 386.154214 770.293875 NaN NaN NaN NaN NaN NaN NaN 75.209 1 75.467 74.967 75.967 0.25831 0 0 0 0.99035 1 34599 34599 0.79363 0 1 + 8280 14935 5306 5323 9652 9652 -0.10046006865263735 GVCLAWLVLL 10 Unmodified _GVCLAWLVLL_ 0 0 0 REV__ENSG00000160539|ENST00000372264|PLPP7 REV__ENSG00000160539|ENST00000372264|PLPP7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.8211669921875 2 543.822638 1085.63072 NaN NaN NaN NaN NaN NaN NaN 39.938 1 40.205 39.705 40.705 0.26696 0 0 0 0.98473 1 18169 18169 7.9102 2.6795 1 + 8281 12882 5307 5324 9653 9653 0.09133325024390615 GVCNNNQNCHC 11 Unmodified _GVCNNNQNCHC_ 0 0 0 ENST00000517951.5_1_5:156822576-156936463:-|nuORF;ENSG00000135074|ENST00000257527|ADAM19;nc|ENSG00000135074|Q9H013|ADAM19 ENST00000517951.5_1_5:156822576-156936463:-|nuORF ENST00000517951.5_1_5:156822576-156936463:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 603.2160034179688 2 603.215874 1204.41719 NaN NaN NaN NaN NaN NaN NaN 29.225 1 29.225 28.725 29.725 0 0 0 0 1.008 1 13188 13188 0.35063 0.35063 1 8282 2846 5308 5325 9654 9654 -0.1768369875640019 GVCQSKFHFF 10 Unmodified _GVCQSKFHFF_ 0 0 0 ENSG00000145247|ENST00000508632|OCIAD2 ENSG00000145247|ENST00000508632|OCIAD2 ENSG00000145247|ENST00000508632|OCIAD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 400.5279541015625 3 400.52706 1198.55935 2.6123 0.0010463 -0.31611 -0.00012661 2.2962 0.00091969 400.5268983383607 49.447 0.32174 49.447 49.324 49.646 0 26 12 3 0 0 0 0.59951 1 22656 22656 17.443 1.2935 1 906260 8283 3459 5309 5326 9655 9655 -0.03198794680292849 GVDDCHDNS 9 Unmodified _GVDDCHDNS_ 0 0 0 ENSG00000081479|ENST00000649046|LRP2;LRP2|p.N4549Kfs*8|1|0.33|ENSG00000081479|chr2:169132655-169132655|A/-|frameshift_variant ENSG00000081479|ENST00000649046|LRP2 ENSG00000081479|ENST00000649046|LRP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 481.17218017578125 2 481.169438 960.324324 NaN NaN NaN NaN NaN NaN NaN 40.377 1 40.377 39.877 40.877 0 0 0 0 0.89509 1 18324 18324 4.756 1.8668 1 8284 920 5310 5327 9656 9656 -0.15742556946497643 GVDDDDDD 8 Unmodified _GVDDDDDD_ 0 0 0 REV__nc|ENSG00000108883|Q15029-2|EFTUD2 REV__nc|ENSG00000108883|Q15029-2|EFTUD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 432.84765625 2 433.138327 864.262101 NaN NaN NaN NaN NaN NaN NaN 68.113 1 68.113 67.613 68.613 0 0 0 0 0.99035 1 32758 32758 0.79363 0.79363 1 + 8285 11162 5311 5328 9657 9657 -0.1754600481384614 GVDDDDDDD 9 Unmodified _GVDDDDDDD_ 0 0 0 REV__nc|ENSG00000108883|Q15029-2|EFTUD2 REV__nc|ENSG00000108883|Q15029-2|EFTUD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.6531677246094 2 490.651798 979.289044 NaN NaN NaN NaN NaN NaN NaN 26.531 1 26.531 26.031 27.031 0 0 0 0 0.91206 1 11945 11945 0.6015 0 1 + 8286 11162 5312 5329 9658 9658 -0.2014294099332119 GVDDDDDDDD 10 Unmodified _GVDDDDDDDD_ 0 0 0 REV__nc|ENSG00000108883|Q15029-2|EFTUD2 REV__nc|ENSG00000108883|Q15029-2|EFTUD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.1529541015625 2 548.16527 1094.31599 NaN NaN NaN NaN NaN NaN NaN 54.409 1 54.409 53.909 54.909 0 0 0 0 1.0015 1 24958 24958 0.45834 0 1 + 8287 11162 5313 5330 9659 9659 -0.22739877172784873 GVDFESSEDDD 11 Unmodified _GVDFESSEDDD_ 0 0 0 nc|ENSG00000020922|P49959-2|MRE11;ENSG00000020922|ENST00000323929|MRE11;nc|ENSG00000020922|P49959-3|MRE11 nc|ENSG00000020922|P49959-2|MRE11 nc|ENSG00000020922|P49959-2|MRE11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 607.7203979492188 2 607.720212 1213.42587 NaN NaN NaN NaN NaN NaN NaN 18.635 1 18.932 18.432 19.432 0.29753 0 0 0 1.008 1 8454 8454 0.35063 0 1 8288 456 5314 5331 9660 9660 -0.17230451833597726 GVDKKRKR 8 Unmodified _GVDKKRKR_ 0 0 0 ENST00000509229.1_1_19:45535724-45537626:+|nuORF;ENSG00000104856|ENST00000221452|RELB ENST00000509229.1_1_19:45535724-45537626:+|nuORF ENST00000509229.1_1_19:45535724-45537626:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.8135681152344 2 493.814525 985.614496 NaN NaN NaN NaN NaN NaN NaN 33.886 1 34.674 34.174 35.174 0.78795 0 0 0 0.99035 1 15342 15342 0.79363 0.19213 1 8289 1454 5315 5332 9661 9661 0.12111379902512454 GVDPVLLK 8 Unmodified _GVDPVLLK_ 0 0 0 nc|ENSG00000134874|Q86YF9-2|DZIP1;ENSG00000134874|ENST00000376829|DZIP1;ENST00000466027.1_1_13:96289346-96294343:-|nuORF;nc|ENSG00000134874|Q86YF9-3|DZIP1 nc|ENSG00000134874|Q86YF9-2|DZIP1 nc|ENSG00000134874|Q86YF9-2|DZIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 420.76611328125 2 420.763104 839.511654 NaN NaN NaN NaN NaN NaN NaN 29.09 1 29.708 29.208 30.208 0.61789 0 0 0 0.99035 1 13338 13338 0.79363 0 1 8290 2833 5316 5333 9662 9662 0.0854787439119491 GVDPVWPWWR 10 Unmodified _GVDPVWPWWR_ 0 0 0 REV__ENST00000395474.7_2_3:49052717-49052906:+|nuORF REV__ENST00000395474.7_2_3:49052717-49052906:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 649.3275756835938 2 649.327465 1296.64038 NaN NaN NaN NaN NaN NaN NaN 49.723 1 49.723 49.223 50.223 0 0 0 0 1.0015 1 22766 22766 0.45834 0 1 + 8291 15987 5317 5334 9663 9663 0.0039222935411089566 GVDQVHKKS 9 Unmodified _GVDQVHKKS_ 0 0 0 REV__nc|ENSG00000070476|Q2QGD7-3|ZXDC REV__nc|ENSG00000070476|Q2QGD7-3|ZXDC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.2759704589844 2 499.274898 996.535243 NaN NaN NaN NaN NaN NaN NaN 50.363 1 51.186 50.686 51.686 0.82285 0 0 0 0.90699 1 22941 22941 1.8442 0 1 + 8292 10477 5318 5335 9664 9664 0.03683688157718734 GVDRAPWLL 9 Unmodified _GVDRAPWLL_ 0 0 0 ENST00000374409.5_1_1:24684664-24685051:-|nuORF ENST00000374409.5_1_1:24684664-24685051:-|nuORF ENST00000374409.5_1_1:24684664-24685051:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.79345703125 2 513.790184 1025.56581 3.275 0.0016827 1.8433 0.00094707 5.1183 0.0026297 513.7907415023499 38.839 0.33389 39.636 39.465 39.799 0.79762 35 15 3 0 0 0 1.101 2 17559 17559;17608 2.3027 1.5091 1 411480 8293 7379 5319 5336 9665;9666 9665 0.05405466542742943 GVDRFRRGKR 10 Unmodified _GVDRFRRGKR_ 0 0 0 REV__ENST00000282388.3_2_2:43451217-43451442:-|nuORF REV__ENST00000282388.3_2_2:43451217-43451442:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 623.8661499023438 2 623.865612 1245.71667 NaN NaN NaN NaN NaN NaN NaN 33.776 1 33.776 33.276 34.276 0 0 0 0 1.0015 1 15316 15316 0.45834 0.057624 1 + 8294 15093 5320 5337 9667 9667 0.10364045974120017 GVDRILRE 8 Unmodified _GVDRILRE_ 0 0 0 REV__nc|ENSG00000084710|Q9Y2G0-3|EFR3B REV__nc|ENSG00000084710|Q9Y2G0-3|EFR3B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 479.2789611816406 2 479.277441 956.540328 NaN NaN NaN NaN NaN NaN NaN 102.26 1 102.26 101.76 102.76 0 0 0 0 0.99035 1 56465 56465 0.79363 0 1 + 8295 10636 5321 5338 9668 9668 0.06031992020336929 GVDRILRE 8 Unmodified _GVDRILRE_ 0 0 0 REV__nc|ENSG00000084710|Q9Y2G0-3|EFR3B REV__nc|ENSG00000084710|Q9Y2G0-3|EFR3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.27911376953125 2 479.277441 956.540328 3.5817 0.0017166 0.08709 4.174E-05 3.6688 0.0017584 479.27737618362744 92.316 0.43465 92.568 92.343 92.778 0.25254 63 22 4 0 0 0 0.7471 2 42403 42403;42479 0.79363 0 1 2324000 + 8296 10636 5321 5338 9669;9670 9669 0.06031992020336929 GVDYFDYCP 9 Unmodified _GVDYFDYCP_ 0 0 0 ENST00000578830.5_1_17:73221901-73228130:+|nuORF;nc|ENSG00000125450|Q9BW27-2|NUP85;ENST00000581104.5_1_17:73208151-73231006:+|nuORF;nc|ENSG00000125450|Q9BW27-3|NUP85;ENSG00000125450|ENST00000245544|NUP85 ENST00000578830.5_1_17:73221901-73228130:+|nuORF ENST00000578830.5_1_17:73221901-73228130:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.2158813476562 2 539.71295 1077.41135 3.5522 0.0019172 1.1634 0.00062792 4.7157 0.0025451 540.2161599265431 54.421 0.072422 54.421 54.375 54.447 0 6 5 2 0 0 0 1.101 1 24962 24962 2.3027 0 1 1332800 8297 2399 5322 5339 9671 9671 -0.12426150724809304 GVEAGPDLL 9 Unmodified _GVEAGPDLL_ 0 0 0 nc|ENSG00000271793|O60506-5|SYNCRIP;nc|ENSG00000271793|O60506-4|SYNCRIP;nc|ENSG00000271793|O60506-3|SYNCRIP nc|ENSG00000271793|O60506-5|SYNCRIP nc|ENSG00000271793|O60506-5|SYNCRIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 435.7326965332031 2 435.732 869.449448 NaN NaN NaN NaN NaN NaN NaN 53.328 1 54.131 53.631 54.631 0.80351 0 0 0 0.049956 1 24323 24323 53.576 2.7205 1 8298 9863 5323 5340 9672 9672 0.00950103252205281 GVEAGPDLL 9 Unmodified _GVEAGPDLL_ 0 0 0 nc|ENSG00000271793|O60506-5|SYNCRIP;nc|ENSG00000271793|O60506-4|SYNCRIP;nc|ENSG00000271793|O60506-3|SYNCRIP nc|ENSG00000271793|O60506-5|SYNCRIP nc|ENSG00000271793|O60506-5|SYNCRIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 435.7330017089844 2 435.732 869.449448 NaN NaN NaN NaN NaN NaN NaN 53.434 1 54.238 53.738 54.738 0.80351 0 0 0 0.35622 1 24374 24374 24.674 6.5389 1 8299 9863 5323 5340 9673 9673 0.00950103252205281 GVEAGPDLL 9 Unmodified _GVEAGPDLL_ 0 0 0 nc|ENSG00000271793|O60506-5|SYNCRIP;nc|ENSG00000271793|O60506-4|SYNCRIP;nc|ENSG00000271793|O60506-3|SYNCRIP nc|ENSG00000271793|O60506-5|SYNCRIP nc|ENSG00000271793|O60506-5|SYNCRIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 435.7332458496094 2 435.732 869.449448 2.8225 0.0012299 0.38335 0.00016704 3.2059 0.0013969 435.7321841630377 53.92 0.40767 54.185 53.962 54.369 0.26462 35 16 3 0 0 0 0.041436 1 24646 24646 50.855 0 1 694440 8300 9863 5323 5340 9674 9674 0.00950103252205281 GVEAGPDLL 9 Unmodified _GVEAGPDLL_ 0 0 0 nc|ENSG00000271793|O60506-5|SYNCRIP;nc|ENSG00000271793|O60506-4|SYNCRIP;nc|ENSG00000271793|O60506-3|SYNCRIP nc|ENSG00000271793|O60506-5|SYNCRIP nc|ENSG00000271793|O60506-5|SYNCRIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.7330017089844 2 435.732 869.449448 2.8986 0.001263 0.045023 1.9618E-05 2.9436 0.0012826 435.73208983186606 53.403 0.37307 54.067 53.892 54.265 0.6644 21 16 2 0 0 0 0.086747 1 24434 24434 36.044 1.9418 1 628020 8301 9863 5323 5340 9675 9675 0.00950103252205281 GVEDSGEDMD 10 Unmodified _GVEDSGEDMD_ 0 0 0 REV__nc|ENSG00000187243|Q96JG8-3|MAGED4 REV__nc|ENSG00000187243|Q96JG8-3|MAGED4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.1905517578125 2 527.187494 1052.36043 NaN NaN NaN NaN NaN NaN NaN 86.738 1 87.414 86.914 87.914 0.67555 0 0 0 1.0015 1 39957 39957 0.45834 0.057624 1 + 8302 12712 5324 5341 9676 9676 -0.16365144560268163 GVEEERDHWQ 10 Unmodified _GVEEERDHWQ_ 0 0 0 ENST00000471501.1_1_1:11709834-11710766:-|nuORF;ENST00000466919.1_1_1:11710000-11714093:-|nuORF;ENSG00000116661|ENST00000354287|FBXO2 ENST00000471501.1_1_1:11709834-11710766:-|nuORF ENST00000471501.1_1_1:11709834-11710766:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 642.7832641601562 2 642.783815 1283.55308 NaN NaN NaN NaN NaN NaN NaN 19.262 1 19.92 19.42 20.42 0.6583 0 0 0 1.0015 1 8740 8740 0.45834 0 1 8303 2036 5325 5342 9677 9677 -0.0773564137809899 GVEELRRRRR 10 Unmodified _GVEELRRRRR_ 0 0 0 ENST00000514449.5_1_5:140019112-140019241:+|nuORF;ENST00000511410.5_1_5:140019112-140021405:+|nuORF;ENSG00000113119|ENST00000394671|TMCO6;nc|ENSG00000113119|Q96DC7-2|TMCO6 ENST00000514449.5_1_5:140019112-140019241:+|nuORF ENST00000514449.5_1_5:140019112-140019241:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.8989868164062 2 663.8949 1325.77525 4.1261 0.0027393 0.28964 0.00019229 4.4157 0.0029316 663.8951214576948 91.271 1.2233 91.933 91.419 92.642 0.66198 98 62 2 0 0 0 0.94364 1 42188 42188 0.45834 0.45834 1 1499700 8304 1835 5326 5343 9678 9678 0.12539102548589653 GVEIEKTSGE 10 Unmodified _GVEIEKTSGE_ 0 0 0 nc|ENSG00000163673|Q9C098|DCLK3;ENSG00000163673|ENST00000636136|DCLK3 nc|ENSG00000163673|Q9C098|DCLK3 nc|ENSG00000163673|Q9C098|DCLK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.7612915039062 2 524.761486 1047.50842 NaN NaN NaN NaN NaN NaN NaN 93.229 1 93.861 93.361 94.361 0.63115 0 0 0 1.0001 1 42889 42889 1.6526 0.85899 1 8305 4240 5327 5344 9679 9679 -0.013434652441219441 GVEIIKPL 8 Unmodified _GVEIIKPL_ 0 0 0 REV__nc|ENSG00000005810|O75592-2|MYCBP2 REV__nc|ENSG00000005810|O75592-2|MYCBP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.7812194824219 2 434.778754 867.542954 3.0125 0.0013098 0.19438 8.4511E-05 3.2069 0.0013943 434.78008068772994 37.286 1.129 37.547 36.994 38.123 0.26083 84 36 4 0 0 0 0.73686 1 17006 17006 2.8892 0.31174 1 692050 + 8306 10183 5328 5345 9680 9680 0.10388447425270897 GVEIIKPL 8 Unmodified _GVEIIKPL_ 0 0 0 REV__nc|ENSG00000005810|O75592-2|MYCBP2 REV__nc|ENSG00000005810|O75592-2|MYCBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.78192138671875 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 36.916 1 37.546 37.046 38.046 0.62999 0 0 0 0.99035 1 16899 16899 2.8892 0.31174 1 + 8307 10183 5328 5345 9681 9681 0.10388447425270897 GVELGEPA 8 Unmodified _GVELGEPA_ 0 0 0 ENSG00000198793|ENST00000361445|MTOR;ENST00000490931.1_1_1:11167544-11171580:-|nuORF ENSG00000198793|ENST00000361445|MTOR ENSG00000198793|ENST00000361445|MTOR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 771.3916015625 1 771.38831 770.381034 3.8239 0.0029497 -0.73466 -0.00056671 3.0892 0.002383 771.3874962451806 33.253 0.41331 33.873 33.666 34.079 0.62031 32 21 2 0 0 0 0.65723 1 15180 15180 9.3474 3.587 1 291420 8308 5935 5329 5346 9682 9682 -0.013341413276748426 GVELGEPA 8 Unmodified _GVELGEPA_ 0 0 0 ENSG00000198793|ENST00000361445|MTOR;ENST00000490931.1_1_1:11167544-11171580:-|nuORF ENSG00000198793|ENST00000361445|MTOR ENSG00000198793|ENST00000361445|MTOR MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 771.38831 770.381034 3.8743 0.0029886 0.14881 0.00011479 4.0231 0.0031034 771.3882138579645 33.744 0.38065 33.998 33.76 34.14 0.25389 0.062264 0.00018429 NaN 9.3474 35 23 2 NaN NaN NaN NaN 0 NaN NaN 0 325680 8309 5935 5329 5346 -0.013341413276748426 GVELPHNLLF 10 Unmodified _GVELPHNLLF_ 0 0 0 ENST00000294507.3_1_1:31206511-31206652:-|nuORF ENST00000294507.3_1_1:31206511-31206652:-|nuORF ENST00000294507.3_1_1:31206511-31206652:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.8185424804688 2 569.816399 1137.61824 3.6951 0.0021055 -0.86141 -0.00049084 2.8336 0.0016147 569.8157900771794 14.762 0.14163 15.415 15.37 15.511 0.65356 11 9 2 0 0 0 0.93628 1 6667 6667 1.6526 0.96225 1 92471 8310 6749 5330 5347 9683 9683 0.05494004885713366 GVELRLLL 8 Unmodified _GVELRLLL_ 0 0 0 REV__ENST00000486064.5_1_1:44460678-44461829:+|nuORF REV__ENST00000486064.5_1_1:44460678-44461829:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.79901123046875 2 456.797478 911.580402 2.706 0.0012361 0.61389 0.00028042 3.3198 0.0015165 456.7978371927698 15.831 0.69025 16.042 15.632 16.323 0.21108 174 105 2 0 0 0 0.7471 1 6810 6810 0.79363 0 1 82362 + 8311 16753 5331 5348 9684 9684 0.1210753869090695 GVEMCLVDVPA 11 Unmodified _GVEMCLVDVPA_ 0 0 0 ENSG00000173250|ENST00000311104|GPR151 ENSG00000173250|ENST00000311104|GPR151 ENSG00000173250|ENST00000311104|GPR151 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.3681640625 2 566.772485 1131.53042 NaN NaN NaN NaN NaN NaN NaN 17.192 1 17.853 17.353 18.353 0.66072 0 0 0 1.0072 1 7753 7753 1.3295 0.5359 1 8312 4922 5332 5349 9685 9685 -0.030087000915727913 GVEPSLTPE 9 Unmodified _GVEPSLTPE_ 0 0 0 ENSG00000197070|ENST00000371421|ARRDC1;ENST00000491911.5_1_9:140509449-140509587:+|nuORF ENSG00000197070|ENST00000371421|ARRDC1 ENSG00000197070|ENST00000371421|ARRDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 929.4673461914062 1 928.462204 927.454927 3.7688 0.0034992 0.28849 0.00026786 4.0573 0.003767 928.4625544923149 52.746 0.40675 52.746 52.649 53.056 0 37 24 2 0 0 0 0.76984 1 24151 24151 7.9102 1.187 1 575930 8313 5795 5333 5350 9686 9686 -0.01170217956007491 GVEPYECSC 9 Unmodified _GVEPYECSC_ 0 0 0 REV__ENST00000373616.9_1_6:36935975-36936125:-|nuORF REV__ENST00000373616.9_1_6:36935975-36936125:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 493.6840515136719 2 493.683336 985.352118 3.1639 0.001562 -1.5995 -0.00078966 1.5644 0.00077231 493.6823151094269 19.815 0.18013 19.815 19.729 19.909 0 31 12 3 0 0 0 1.101 1 8877 8877 2.3027 0.4585 1 1037300 + 8314 15771 5334 5351 9687 9687 -0.1411437001062268 GVERENHYFY 10 Unmodified _GVERENHYFY_ 0 0 0 REV__ENST00000525281.5_1_10:4868459-4888008:+|nuORF REV__ENST00000525281.5_1_10:4868459-4888008:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 657.2981567382812 2 657.299101 1312.58365 NaN NaN NaN NaN NaN NaN NaN 38.561 1 39.359 38.859 39.859 0.79762 0 0 0 1.0015 1 17467 17467 0.45834 0 1 + 8315 13167 5335 5352 9688 9688 -0.06013862993040675 GVERILLWVLW 11 Unmodified _GVERILLWVLW_ 0 0 0 ENST00000568176.5_2_15:74988272-74988338:-|nuORF ENST00000568176.5_2_15:74988272-74988338:-|nuORF ENST00000568176.5_2_15:74988272-74988338:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 692.41259765625 2 692.410998 1382.80744 NaN NaN NaN NaN NaN NaN NaN 71.258 1 71.516 71.016 72.016 0.25786 0 0 0 1.008 1 32641 32641 0.35063 0 1 8316 9065 5336 5353 9689 9689 0.13135077179026666 GVERLGDKKSL 11 Unmodified _GVERLGDKKSL_ 0 0 0 REV__ENSG00000174236|ENST00000310791|REP15 REV__ENSG00000174236|ENST00000310791|REP15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 601.8009643554688 2 601.348594 1200.68264 NaN NaN NaN NaN NaN NaN NaN 66.01 1 66.666 66.166 67.166 0.65672 0 0 0 1.0057 1 30264 30264 3.2813 0.28607 1 + 8317 13628 5337 5354 9690 9690 0.09032159971843612 GVERVKRKLKL 11 Unmodified _GVERVKRKLKL_ 0 0 0 ENST00000502782.5_1_5:34845647-34845701:+|nuORF ENST00000502782.5_1_5:34845647-34845701:+|nuORF ENST00000502782.5_1_5:34845647-34845701:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 663.1677856445312 2 663.440621 1324.86669 NaN NaN NaN NaN NaN NaN NaN 17.763 1 17.763 17.263 18.263 0 0 0 0 1.008 1 7894 7894 0.35063 0 1 8318 8484 5338 5355 9691 9691 0.21724973193227015 GVERVKRKLKL 11 Unmodified _GVERVKRKLKL_ 0 0 0 ENST00000502782.5_1_5:34845647-34845701:+|nuORF ENST00000502782.5_1_5:34845647-34845701:+|nuORF ENST00000502782.5_1_5:34845647-34845701:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.443115234375 2 663.440621 1324.86669 NaN NaN NaN NaN NaN NaN NaN 58.688 1 59.356 58.856 59.856 0.66703 0 0 0 1.008 1 26864 26864 0.35063 0 1 8319 8484 5338 5355 9692 9692 0.21724973193227015 GVETKIRNL 9 Unmodified _GVETKIRNL_ 0 0 0 REV__ENST00000527306.1_1_8:42752256-42852891:+|nuORF REV__ENST00000527306.1_1_8:42752256-42852891:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.3087768554688 2 515.306198 1028.59784 3.6236 0.0018672 2.4202 0.0012471 6.0437 0.0031144 515.8079807983354 92.793 0.075882 93.44 93.405 93.481 0.64715 7 4 2 0 0 0 1.0041 1 42695 42695 3.9444 0.3479 1 216060 + 8320 13335 5339 5356 9693 9693 0.08468834225891442 GVETLTRGPA 10 Unmodified _GVETLTRGPA_ 0 0 0 REV__ENST00000506708.1_1_5:180236582-180236729:-|nuORF REV__ENST00000506708.1_1_5:180236582-180236729:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.773681640625 2 500.774731 999.534909 NaN NaN NaN NaN NaN NaN NaN 15.321 1 15.532 15.032 16.032 0.21108 0 0 0 1.0001 1 6754 6754 1.6526 0.17072 1 + 8321 16936 5340 5357 9694 9694 0.035122684378507074 GVETVQHIYQF 11 Unmodified _GVETVQHIYQF_ 0 0 0 REV__Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|94|3|sense REV__Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|94|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 660.6119384765625 2 660.832777 1319.651 NaN NaN NaN NaN NaN NaN NaN 82.851 1 83.098 82.598 83.598 0.24722 0 0 0 1.0038 1 38136 38136 5.7319 2.7366 1 + 8322 10010 5341 5358 9695 9695 0.003961672179002562 GVEYPSFECW 10 Unmodified _GVEYPSFECW_ 0 0 0 REV__ENST00000491746.5_1_15:42137807-42138397:+|nuORF REV__ENST00000491746.5_1_15:42137807-42138397:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.1730651855469 3 406.17083 1215.49066 2.9401 0.0011942 2.9653 0.0012044 5.9054 0.0023986 406.1713761352465 27.013 0.2445 27.278 27.14 27.385 0.26489 18 16 2 0 0 0 0.93372 1 12290 12290 2.086 0 1 186140 + 8323 14631 5342 5359 9696 9696 -0.10846503770630989 GVFAFWKLIR 10 Unmodified _GVFAFWKLIR_ 0 0 0 ENST00000460089.1_1_10:7803378-7811304:-|nuORF ENST00000460089.1_1_10:7803378-7811304:-|nuORF ENST00000460089.1_1_10:7803378-7811304:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 618.8689575195312 2 618.866226 1235.7179 NaN NaN NaN NaN NaN NaN NaN 51.912 1 52.574 52.074 53.074 0.66198 0 0 0 1.0015 1 23739 23739 0.45834 0.10771 1 8324 8066 5343 5360 9697 9697 0.10946867290317641 GVFDLDHIP 9 Unmodified _GVFDLDHIP_ 0 0 0 REV__ENST00000593157.5_1_19:13216299-13227549:-|nuORF REV__ENST00000593157.5_1_19:13216299-13227549:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.7586975097656 2 506.758549 1011.50255 NaN NaN NaN NaN NaN NaN NaN 21.833 1 21.833 21.333 22.333 0 0 0 0 0.82031 1 9781 9781 8.5933 0.68312 1 + 8325 11007 5344 5361 9698 9698 -0.0027451896515913177 GVFEEYRDWWT 11 Unmodified _GVFEEYRDWWT_ 0 0 0 REV__ENST00000442740.1_2_3:48475374-48481489:-|nuORF REV__ENST00000442740.1_2_3:48475374-48481489:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 744.3338012695312 2 744.333141 1486.65173 NaN NaN NaN NaN NaN NaN NaN 63.204 1 63.862 63.362 64.362 0.65808 0 0 0 1.008 1 28961 28961 0.35063 0 1 + 8326 9992 5345 5362 9699 9699 -0.07213038133045302 GVFFFFFFFF 10 Unmodified _GVFFFFFFFF_ 0 0 0 REV__ENST00000323460.9_1_3:196659561-196659759:+|nuORF REV__ENST00000323460.9_1_3:196659561-196659759:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 676.32958984375 2 676.331153 1350.64775 NaN NaN NaN NaN NaN NaN NaN 94.022 1 94.282 93.782 94.782 0.25975 0 0 0 1.0015 1 43210 43210 0.45834 0 1 + 8327 15333 5346 5363 9700 9700 -0.013544310981615126 GVFFFFFFFFF 11 Unmodified _GVFFFFFFFFF_ 0 0 0 REV__ENST00000323460.9_1_3:196659561-196659759:+|nuORF REV__ENST00000323460.9_1_3:196659561-196659759:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 749.8677368164062 2 749.86536 1497.71617 NaN NaN NaN NaN NaN NaN NaN 37.552 1 38.348 37.848 38.848 0.79552 0 0 0 1.008 1 17014 17014 0.35063 0.043601 1 + 8328 15333 5347 5364 9701 9701 -0.01278186518311486 GVFIEWWR 8 Unmodified _GVFIEWWR_ 0 0 0 LTR1F1_dup64|chr4:69041687-69042422:+|2.255451106523636|0.1032861701613835|4.45|537.0|21|1|anti-sense LTR1F1_dup64|chr4:69041687-69042422:+|2.255451106523636|0.1032861701613835|4.45|537.0|21|1|anti-sense LTR1F1_dup64|chr4:69041687-69042422:+|2.255451106523636|0.1032861701613835|4.45|537.0|21|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.7835693359375 2 546.784902 1091.55525 NaN NaN NaN NaN NaN NaN NaN 40.085 1 40.727 40.227 41.227 0.64136 0 0 0 0.99035 1 18315 18315 2.5775 0.73324 1 8329 9497 5348 5365 9702 9702 0.013134838883161137 GVFIEWWRWLL 11 Unmodified _GVFIEWWRWLL_ 0 0 0 LTR1F1_dup64|chr4:69041687-69042422:+|2.255451106523636|0.1032861701613835|4.45|537.0|21|1|anti-sense LTR1F1_dup64|chr4:69041687-69042422:+|2.255451106523636|0.1032861701613835|4.45|537.0|21|1|anti-sense LTR1F1_dup64|chr4:69041687-69042422:+|2.255451106523636|0.1032861701613835|4.45|537.0|21|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 752.9087524414062 2 752.908622 1503.80269 NaN NaN NaN NaN NaN NaN NaN 18.99 1 19.648 19.148 20.148 0.6583 0 0 0 1.008 1 8611 8611 0.35063 0.35063 1 8330 9497 5349 5366 9703 9703 0.07094193036255092 GVFILALLWVA 11 Unmodified _GVFILALLWVA_ 0 0 0 ENST00000527257.1_1_11:124972023-124972236:-|nuORF;TMEM218|p.P58Ifs*19|1|0.26|ENSG00000150433|chr11:125101243-125101244|-/AAAAGCAACAGAACTGATGTGATGATCACAGCACCGAAGAATA|frameshift_variant;ENSG00000150433|ENST00000682305|TMEM218 ENST00000527257.1_1_11:124972023-124972236:-|nuORF ENST00000527257.1_1_11:124972023-124972236:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 601.70703125 2 601.37081 1200.72707 NaN NaN NaN NaN NaN NaN NaN 19.811 1 19.811 19.311 20.311 0 0 0 0 1.0071 1 8845 8845 1.4819 0.15237 1 8331 3667 5350 5367 9704 9704 0.1347321585597001 GVFKKYWTR 9 Unmodified _GVFKKYWTR_ 0 0 0 REV__ENST00000497021.1_1_3:100471523-100484734:-|nuORF REV__ENST00000497021.1_1_3:100471523-100484734:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.8309936523438 2 592.832383 1183.65021 NaN NaN NaN NaN NaN NaN NaN 19.099 1 19.396 18.896 19.896 0.29753 0 0 0 0.91206 1 8679 8679 0.6015 0.076735 1 + 8332 12700 5351 5368 9705 9705 0.06573417359481937 GVFLFYFYIL 10 Unmodified _GVFLFYFYIL_ 0 0 0 REV__ENST00000438423.6_1_15:57578992-57579037:+|nuORF REV__ENST00000438423.6_1_15:57578992-57579037:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.350830078125 2 641.349543 1280.68453 NaN NaN NaN NaN NaN NaN NaN 15.803 1 15.803 15.303 16.303 0 0 0 0 1.0015 1 6991 6991 0.45834 0 1 + 8333 16326 5352 5369 9706 9706 0.055418207277398324 GVFLKKVK 8 Unmodified _GVFLKKVK_ 0 0 0 REV__ENSG00000177733|ENST00000314940|HNRNPA0 REV__ENSG00000177733|ENST00000314940|HNRNPA0 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 460.3138732910156 2 459.810388 917.606223 2.4926 0.0011461 2.016 0.000927 4.5087 0.0020731 459.81232194322615 71.967 0.61462 72.225 71.994 72.608 0.25786 111 59 3 0 0 0 0.7471 1 33060 33060 0.79363 0.10326 1 754000 + 8334 13743 5353 5370 9707 9707 0.14412432933170294 GVFLKKVK 8 Unmodified _GVFLKKVK_ 0 0 0 REV__ENSG00000177733|ENST00000314940|HNRNPA0 REV__ENSG00000177733|ENST00000314940|HNRNPA0 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 459.81317138671875 2 459.810388 917.606223 NaN NaN NaN NaN NaN NaN NaN 76.238 1 76.495 75.995 76.995 0.25704 0 0 0 0.99035 1 35099 35099 0.79363 0.10326 1 + 8335 13743 5353 5370 9708 9708 0.14412432933170294 GVFLKKVK 8 Unmodified _GVFLKKVK_ 0 0 0 REV__ENSG00000177733|ENST00000314940|HNRNPA0 REV__ENSG00000177733|ENST00000314940|HNRNPA0 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 459.81402587890625 2 459.810388 917.606223 NaN NaN NaN NaN NaN NaN NaN 76.275 1 76.532 76.032 77.032 0.25704 0 0 0 0.99035 1 35116 35116 0.79363 0.10326 1 + 8336 13743 5353 5370 9709 9709 0.14412432933170294 GVFLKKVK 8 Unmodified _GVFLKKVK_ 0 0 0 REV__ENSG00000177733|ENST00000314940|HNRNPA0 REV__ENSG00000177733|ENST00000314940|HNRNPA0 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 459.81317138671875 2 459.810388 917.606223 NaN NaN NaN NaN NaN NaN NaN 76.486 1 76.741 76.241 77.241 0.25533 0 0 0 0.99035 1 35215 35215 0.79363 0.10326 1 + 8337 13743 5353 5370 9710 9710 0.14412432933170294 GVFLKKVK 8 Unmodified _GVFLKKVK_ 0 0 0 REV__ENSG00000177733|ENST00000314940|HNRNPA0 REV__ENSG00000177733|ENST00000314940|HNRNPA0 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 459.8138427734375 2 459.810388 917.606223 NaN NaN NaN NaN NaN NaN NaN 80.828 1 81.488 80.988 81.988 0.65998 0 0 0 0.99035 1 37243 37243 0.79363 0.79363 1 + 8338 13743 5353 5370 9711 9711 0.14412432933170294 GVFLKKVK 8 Unmodified _GVFLKKVK_ 0 0 0 REV__ENSG00000177733|ENST00000314940|HNRNPA0 REV__ENSG00000177733|ENST00000314940|HNRNPA0 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 459.81427001953125 2 459.810388 917.606223 NaN NaN NaN NaN NaN NaN NaN 89.522 1 90.201 89.701 90.701 0.67818 0 0 0 0.99035 1 41217 41217 0.79363 0.79363 1 + 8339 13743 5353 5370 9712 9712 0.14412432933170294 GVFLLREQN 9 Unmodified _GVFLLREQN_ 0 0 0 REV__KLHL36|p.V342Cfs*42|1|0.33|ENSG00000135686|chr16:84657830-84657830|G/-|frameshift_variant REV__KLHL36|p.V342Cfs*42|1|0.33|ENSG00000135686|chr16:84657830-84657830|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.3005981445312 2 538.298373 1074.58219 2.4683 0.0013287 1.3085 0.00070434 3.7767 0.002033 538.2993954569143 12.891 0.15323 13.199 13.125 13.279 0.30727 7 4 2 0 0 0 1.129 1 5849 5849 1.8442 0.19162 1 247800 + 8340 12031 5354 5371 9713 9713 0.047885477088584594 GVFMEDFESGS 11 Unmodified _GVFMEDFESGS_ 0 0 0 REV__nc|ENSG00000136758|Q96TA2-3|YME1L1 REV__nc|ENSG00000136758|Q96TA2-3|YME1L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.7428588867188 2 602.744979 1203.4754 NaN NaN NaN NaN NaN NaN NaN 32.468 1 33.256 32.756 33.756 0.78795 0 0 0 1.0071 1 14687 14687 1.4819 0.8804 1 + 8341 12079 5355 5372 9714 9714 -0.11819415358513652 GVFQQDVG 8 Unmodified _GVFQQDVG_ 0 0 0 REV__nc|ENSG00000006283|O43497-34|CACNA1G REV__nc|ENSG00000006283|O43497-34|CACNA1G MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 425.21173095703125 2 425.208692 848.402832 NaN NaN NaN NaN NaN NaN NaN 70.87 1 70.87 70.37 71.37 0 0 0 0 0.99035 1 34431 34431 4.756 2.1785 1 + 8342 17852 5356 5373 9715 9715 -0.02743336579089828 GVFQSMKNRTE 11 Unmodified _GVFQSMKNRTE_ 0 0 0 REV__ENST00000469537.1_1_1:156168901-156169084:+|nuORF REV__ENST00000469537.1_1_1:156168901-156169084:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 432.8863525390625 3 432.883683 1295.62922 NaN NaN NaN NaN NaN NaN NaN 17.714 1 18.015 17.515 18.515 0.30158 0 0 0 1.0079 1 8023 8023 0.50596 0 1 + 8343 16579 5357 5374 9716 9716 -0.006769608023432738 GVFRKNREK 9 Unmodified _GVFRKNREK_ 0 0 0 REV__ENST00000470112.1_1_3:71345519-71349010:-|nuORF REV__ENST00000470112.1_1_3:71345519-71349010:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.9179077148438 2 567.330539 1132.64652 3.7225 0.0021119 -1.3295 -0.00075429 2.393 0.0013576 567.32965142827 83.203 1.0842 83.864 83.341 84.425 0.66019 144 64 3 0 0 0 1.2078 2 38509 38509;38547 0.6015 0 1 955650 + 8344 16587 5358 5375 9717;9718 9717 0.08550747585650242 GVFRNMYWRQE 11 Unmodified _GVFRNMYWRQE_ 0 0 0 REV__ENSG00000101337|ENST00000398022|TM9SF4 REV__ENSG00000101337|ENST00000398022|TM9SF4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 743.357421875 2 743.356428 1484.6983 NaN NaN NaN NaN NaN NaN NaN 68.97 1 69.63 69.13 70.13 0.65924 0 0 0 1.008 1 31616 31616 0.35063 0.081612 1 + 8345 10888 5359 5376 9719 9719 -0.024658767827986594 GVFSFSRLTWQ 11 Unmodified _GVFSFSRLTWQ_ 0 0 0 ENSG00000070269|ENST00000261556|TMEM260;nc|ENSG00000070269|Q9NX78-2|TMEM260;ENST00000557657.5_1_14:57046563-57079004:+|nuORF;ENST00000557626.5_1_14:57046563-57082746:+|nuORF;nc|ENSG00000070269|Q9NX78-3|TMEM260 ENSG00000070269|ENST00000261556|TMEM260 ENSG00000070269|ENST00000261556|TMEM260 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 664.3431396484375 2 664.343312 1326.67207 NaN NaN NaN NaN NaN NaN NaN 87.368 1 88.044 87.544 88.544 0.67555 0 0 0 1.0072 1 40244 40244 1.3295 0.87119 1 8346 762 5360 5377 9720 9720 0.021801773174047412 GVFTKRQRK 9 Unmodified _GVFTKRQRK_ 0 0 0 ENSG00000121053|ENST00000225371|EPX ENSG00000121053|ENST00000225371|EPX ENSG00000121053|ENST00000225371|EPX MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.6464233398438 2 560.340907 1118.66726 NaN NaN NaN NaN NaN NaN NaN 109.37 1 109.68 109.18 110.18 0.31015 0 0 0 0.91206 1 50419 50419 0.6015 0 1 8347 2221 5361 5378 9721 9721 0.11267337965296065 GVFYDAND 8 Unmodified _GVFYDAND_ 0 0 0 ENST00000494378.1_1_1:235643345-235647829:-|nuORF;nc|ENSG00000162885|Q8NCR0-2|B3GALNT2;ENSG00000162885|ENST00000366600|B3GALNT2 ENST00000494378.1_1_1:235643345-235647829:-|nuORF ENST00000494378.1_1_1:235643345-235647829:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.6903076171875 2 450.690333 899.366112 NaN NaN NaN NaN NaN NaN NaN 16.481 1 16.681 16.181 17.181 0.20057 0 0 0 0.99035 1 7279 7279 0.79363 0 1 8348 4176 5362 5379 9722 9722 -0.08759633195677452 GVGAQRYKVR 10 Unmodified _GVGAQRYKVR_ 0 0 0 HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|129|2|anti-sense HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|129|2|anti-sense HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|129|2|anti-sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.8340454101562 2 567.330539 1132.64652 3.501 0.0019862 -1.0063 -0.00057089 2.4947 0.0014153 567.3299289660972 83.43 1.0396 83.678 83.242 84.282 0.24722 143 62 3 0 0 0 0.93628 1 38307 38307 1.6526 1.0511 1 950650 8349 9399 5363 5380 9723 9723 0.08550747585650242 GVGEQDGGLI 10 Unmodified _GVGEQDGGLI_ 0 0 0 ENST00000533860.5_1_11:130009456-130013340:+|nuORF;nc|ENSG00000084234|Q06481-5|APLP2;nc|ENSG00000084234|Q06481-4|APLP2;nc|ENSG00000084234|Q06481-2|APLP2;ENSG00000084234|ENST00000338167|APLP2;nc|ENSG00000084234|Q06481-6|APLP2;nc|ENSG00000084234|Q06481|APLP2 ENST00000533860.5_1_11:130009456-130013340:+|nuORF ENST00000533860.5_1_11:130009456-130013340:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.73883056640625 2 472.737814 943.461075 NaN NaN NaN NaN NaN NaN NaN 48.89 1 49.153 48.653 49.653 0.26209 0 0 0 0.92641 1 22349 22349 17.113 0.1706 1 8350 954 5364 5381 9724 9724 -0.012916997244587947 GVGERAWPR 9 Unmodified _GVGERAWPR_ 0 0 0 REV__ENST00000310924.6_1_17:77914508-77914631:-|nuORF REV__ENST00000310924.6_1_17:77914508-77914631:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.27490234375 2 514.275232 1026.53591 NaN NaN NaN NaN NaN NaN NaN 25.461 1 26.225 25.725 26.725 0.76356 0 0 0 0.90611 1 11429 11429 2.0598 1.2661 1 + 8351 15265 5365 5382 9725 9725 0.023705275973952666 GVGFPTEDLAL 11 Unmodified _GVGFPTEDLAL_ 0 0 0 ENST00000327155.9_1_18:20513373-20513421:+|nuORF ENST00000327155.9_1_18:20513373-20513421:+|nuORF ENST00000327155.9_1_18:20513373-20513421:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.7886352539062 2 559.790047 1117.56554 NaN NaN NaN NaN NaN NaN NaN 32.041 1 32.659 32.159 33.159 0.61823 0 0 0 1.0057 1 14692 14692 3.2813 0.97858 1 8352 6961 5366 5383 9726 9726 0.011460020322147102 GVGKGVRAFSR 11 Unmodified _GVGKGVRAFSR_ 0 0 0 REV__ENST00000408011.7_1_18:24129203-24129335:-|nuORF REV__ENST00000408011.7_1_18:24129203-24129335:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.3314819335938 2 567.330539 1132.64652 3.7225 0.0021119 -1.3295 -0.00075429 2.393 0.0013576 567.32965142827 83.203 1.0842 83.864 83.341 84.425 0.66019 144 64 3 0 0 0 0.91068 1 38501 38501 1.3295 0.72803 1 955650 + 8353 16085 5367 5384 9727 9727 0.08550747585650242 GVGKPLWAKGP 11 Unmodified _GVGKPLWAKGP_ 0 0 0 REV__ENST00000512712.2_1_4:2942425-2942722:+|nuORF REV__ENST00000512712.2_1_4:2942425-2942722:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.3291625976562 2 555.326934 1108.63931 NaN NaN NaN NaN NaN NaN NaN 78.769 1 78.769 78.269 79.269 0 0 0 0 0.78256 1 38795 38795 21.537 5.3879 1 + 8354 16984 5368 5385 9728 9728 0.08934014985220529 GVGLLEVIWPR 11 Unmodified _GVGLLEVIWPR_ 0 0 0 nc|ENSG00000104894|P11049-3|CD37 nc|ENSG00000104894|P11049-3|CD37 nc|ENSG00000104894|P11049-3|CD37 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.874755859375 2 619.866423 1237.71829 NaN NaN NaN NaN NaN NaN NaN 91.039 1 91.701 91.201 92.201 0.66198 0 0 0 1.0071 1 41899 41899 1.4819 0 1 8355 9583 5369 5386 9729 9729 0.10894242219501393 GVGLVCIMAL 10 Unmodified _GVGLVCIMAL_ 0 0 0 ENSG00000171942|ENST00000305899|OR10H2 ENSG00000171942|ENST00000305899|OR10H2 ENSG00000171942|ENST00000305899|OR10H2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.2730712890625 2 488.271924 974.529295 NaN NaN NaN NaN NaN NaN NaN 75.918 1 76.175 75.675 76.675 0.25704 0 0 0 0.99687 1 34946 34946 4.3292 2.0265 1 8356 4843 5370 5387 9730 9730 0.04101130330184333 GVGLVPLLAF 10 Unmodified _GVGLVPLLAF_ 0 0 0 REV__nc|ENSG00000050628|P43115-6|PTGER3 REV__nc|ENSG00000050628|P43115-6|PTGER3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.31036376953125 2 493.307678 984.600803 NaN NaN NaN NaN NaN NaN NaN 32.12 1 32.908 32.408 33.408 0.78795 0 0 0 0.91994 1 14522 14522 18.135 4.6271 1 + 8357 17860 5371 5388 9731 9731 0.10788709350697445 GVGNTRPLN 9 Unmodified _GVGNTRPLN_ 0 0 0 REV__ENSG00000155850|ENST00000286298|SLC26A2 REV__ENSG00000155850|ENST00000286298|SLC26A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.25567626953125 2 464.253966 926.493378 3.1734 0.0014733 0.44 0.00020427 3.6134 0.0016775 464.2540993711806 91.273 0.4247 91.524 91.328 91.752 0.25163 44 17 4 0 0 0 0.98132 1 41932 41932 4.3292 0.73274 1 3301800 + 8358 12751 5372 5389 9732 9732 0.02719132469167107 GVGNVGLRPPM 11 Unmodified _GVGNVGLRPPM_ 0 0 0 ENST00000566911.1_1_16:55543042-55559560:+|nuORF;ENSG00000087253|ENST00000262134|LPCAT2 ENST00000566911.1_1_16:55543042-55559560:+|nuORF ENST00000566911.1_1_16:55543042-55559560:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.7996826171875 2 548.800226 1095.5859 NaN NaN NaN NaN NaN NaN NaN 24.77 1 25.506 25.006 26.006 0.73623 0 0 0 1.0071 1 11102 11102 1.4819 0.79152 1 8359 999 5373 5390 9733 9733 0.041928942110416756 GVGPAQRR 8 Unmodified _GVGPAQRR_ 0 0 0 REV__nc|ENSG00000068308|Q96G74-2|OTUD5 REV__nc|ENSG00000068308|Q96G74-2|OTUD5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 420.7443542480469 2 420.743568 839.472583 2.3926 0.0010067 -0.30705 -0.00012919 2.0856 0.00087749 420.74349971658353 72.522 0.29373 73.186 73.044 73.337 0.66398 68 38 2 0 0 0 0.73686 1 33235 33235 2.8892 0 1 1863600 + 8360 10460 5374 5391 9734 9734 0.04642586880174804 GVGQLWPL 8 Unmodified _GVGQLWPL_ 0 0 0 nc|ENSG00000182698|Q5W5W9-3|RESP18;ENSG00000182698|ENST00000333527|RESP18 nc|ENSG00000182698|Q5W5W9-3|RESP18 nc|ENSG00000182698|Q5W5W9-3|RESP18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 435.2488708496094 2 435.247621 868.480688 2.7687 0.0012051 -0.73408 -0.00031951 2.0346 0.00088557 435.24722891460107 55.855 0.20598 55.855 55.793 55.999 0 23 15 2 0 0 0 0.73686 1 25719 25719 2.8892 2.8892 1 731890 8361 5345 5375 5392 9735 9735 0.04118721076940801 GVGQLWPL 8 Unmodified _GVGQLWPL_ 0 0 0 nc|ENSG00000182698|Q5W5W9-3|RESP18;ENSG00000182698|ENST00000333527|RESP18 nc|ENSG00000182698|Q5W5W9-3|RESP18 nc|ENSG00000182698|Q5W5W9-3|RESP18 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 435.247621 868.480688 2.4053 0.0010469 -0.37709 -0.00016413 2.0282 0.00088279 435.247277520647 54.702 0.41488 55.498 55.237 55.652 0.79552 -0.22243 2.6829E-05 NaN 2.8892 34 26 2 NaN NaN NaN NaN 0 NaN NaN 0 1056500 8362 5345 5375 5392 0.04118721076940801 GVGRDPDSPL 10 Unmodified _GVGRDPDSPL_ 0 0 0 REV__ENSG00000138031|ENST00000679454|ADCY3 REV__ENSG00000138031|ENST00000679454|ADCY3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.7587585449219 2 506.756538 1011.49852 3.3879 0.0017168 0.43222 0.00021903 3.8201 0.0019358 506.7565690074167 20.951 0.24304 21.605 21.395 21.638 0.65346 30 16 2 0 0 0 0.42206 1 9496 9496 24.021 7.0783 1 437930 + 8363 12142 5376 5393 9736 9736 -0.006766084588548438 GVGRGRRPRR 10 Unmodified _GVGRGRRPRR_ 0 0 0 REV__ENST00000335154.9_1_12:50100981-50101167:-|nuORF REV__ENST00000335154.9_1_12:50100981-50101167:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.86083984375 2 583.858121 1165.70169 4.0937 0.0023901 1.1475 0.00066996 5.2412 0.0030601 583.8586512834531 94.126 0.77798 94.386 94.114 94.892 0.25975 87 39 3 0 0 0 0.93628 1 43299 43299 1.6526 0.17072 1 2074200 + 8364 15412 5377 5394 9737 9737 0.1254659889677896 GVGRGRRPRR 10 Unmodified _GVGRGRRPRR_ 0 0 0 REV__ENST00000335154.9_1_12:50100981-50101167:-|nuORF REV__ENST00000335154.9_1_12:50100981-50101167:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.86083984375 2 583.858121 1165.70169 3.7498 0.0021894 1.2968 0.00075717 5.0467 0.0029465 583.8586852341052 93.651 0.64449 94.282 94.082 94.726 0.63115 76 30 4 0 0 0 0.93628 1 43201 43201 1.6526 1.1279 1 2733900 + 8365 15412 5377 5394 9738 9738 0.1254659889677896 GVGRRKKH 8 Unmodified _GVGRRKKH_ 0 0 0 REV__ENSG00000143373|ENST00000336715|ZNF687 REV__ENSG00000143373|ENST00000336715|ZNF687 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 469.29302978515625 2 469.293759 936.572966 NaN NaN NaN NaN NaN NaN NaN 83.448 1 84.11 83.61 84.61 0.66219 0 0 0 0.99035 1 38436 38436 2.5775 0.27475 1 + 8366 12364 5378 5395 9739 9739 0.10214243933842226 GVGRRQAP 8 Unmodified _GVGRRQAP_ 0 0 0 ENST00000498682.2_3_7:150105369-150107277:+|nuORF ENST00000498682.2_3_7:150105369-150107277:+|nuORF ENST00000498682.2_3_7:150105369-150107277:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 420.74468994140625 2 420.743568 839.472583 2.1971 0.00092444 -0.040213 -1.6919E-05 2.1569 0.00090752 420.74350447200203 73.48 0.20885 73.48 73.407 73.615 0 40 24 2 0 0 0 0.70799 1 35897 35897 5.2307 0.47466 1 2541400 8367 8466 5379 5396 9740 9740 0.04642586880174804 GVGRRQAP 8 Unmodified _GVGRRQAP_ 0 0 0 ENST00000498682.2_3_7:150105369-150107277:+|nuORF ENST00000498682.2_3_7:150105369-150107277:+|nuORF ENST00000498682.2_3_7:150105369-150107277:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 420.7443542480469 2 420.743568 839.472583 2.3926 0.0010067 -0.30705 -0.00012919 2.0856 0.00087749 420.74349971658353 72.522 0.29373 73.186 73.044 73.337 0.66398 68 38 2 0 0 0 0.74071 1 33345 33345 2.5775 0 1 1863600 8368 8466 5379 5396 9741 9741 0.04642586880174804 GVGRRRHQ 8 Unmodified _GVGRRRHQ_ 0 0 0 ENST00000302174.8_1_4:88343985-88344027:+|nuORF ENST00000302174.8_1_4:88343985-88344027:+|nuORF ENST00000302174.8_1_4:88343985-88344027:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.2800598144531 2 483.278641 964.542729 3.5212 0.0017017 0.38705 0.00018706 3.9082 0.0018888 483.2785879962439 90.965 0.77222 91.217 90.837 91.61 0.25163 83 38 3 0 0 0 0.74071 1 41875 41875 2.5775 2.5775 1 3251300 8369 6808 5380 5397 9742 9742 0.059038852686512655 GVGRRRHQ 8 Unmodified _GVGRRRHQ_ 0 0 0 ENST00000302174.8_1_4:88343985-88344027:+|nuORF ENST00000302174.8_1_4:88343985-88344027:+|nuORF ENST00000302174.8_1_4:88343985-88344027:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.2808532714844 2 483.278641 964.542729 3.3451 0.0016166 0.254 0.00012275 3.5991 0.0017394 483.27857799282293 90.555 0.60237 91.228 91.007 91.609 0.67271 74 32 4 0 0 0 0.74071 1 41632 41632 2.5775 0.51773 1 6034100 8370 6808 5380 5397 9743 9743 0.059038852686512655 GVGWRLLRARG 11 Unmodified _GVGWRLLRARG_ 0 0 0 ENST00000379942.4_1_X:19002209-19002593:-|nuORF ENST00000379942.4_1_X:19002209-19002593:-|nuORF ENST00000379942.4_1_X:19002209-19002593:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 621.37939453125 2 620.872905 1239.73126 3.6859 0.0022885 0.3253 0.00020197 4.0112 0.0024904 620.8717741633513 47.843 0.14507 47.843 47.785 47.93 0 8 6 2 0 0 0 0.9102 1 21939 21939 1.4819 0 1 1015200 8371 7459 5381 5398 9744 9744 0.12098118122253254 GVGWWKYEF 9 Unmodified _GVGWWKYEF_ 0 0 0 nc|ENSG00000068912|Q96DZ1-2|ERLEC1;nc|ENSG00000068912|Q96DZ1-3|ERLEC1;ENSG00000068912|ENST00000185150|ERLEC1 nc|ENSG00000068912|Q96DZ1-2|ERLEC1 nc|ENSG00000068912|Q96DZ1-2|ERLEC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.2813720703125 2 586.282192 1170.54983 NaN NaN NaN NaN NaN NaN NaN 26.405 1 27.031 26.531 27.531 0.62505 0 0 0 0.90699 1 12106 12106 1.8442 1.0506 1 8372 742 5382 5399 9745 9745 -0.028622396941727857 GVHDAHARTRD 11 Unmodified _GVHDAHARTRD_ 0 0 0 REV__RSBN1|p.N713Mfs*14|1|0.06|ENSG00000081019|chr1:113766251-113766252|-/GATATGTACATATTCAAACACA|frameshift_variant REV__RSBN1|p.N713Mfs*14|1|0.06|ENSG00000081019|chr1:113766251-113766252|-/GATATGTACATATTCAAACACA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 617.9177856445312 2 617.805417 1233.59628 NaN NaN NaN NaN NaN NaN NaN 50.129 1 50.952 50.452 51.452 0.82285 0 0 0 1.0059 1 22834 22834 2.9952 0 1 + 8373 10606 5383 5400 9746 9746 -0.011174068101809098 GVHDNFFCLSS 11 Unmodified _GVHDNFFCLSS_ 0 0 0 REV__ENSG00000129317|ENST00000344862|PUS7L REV__ENSG00000129317|ENST00000344862|PUS7L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.1836853027344 3 409.181729 1224.52336 NaN NaN NaN NaN NaN NaN NaN 75.281 1 75.945 75.445 76.445 0.6635 0 0 0 1.0057 1 36447 36447 1.3296 0.11481 1 + 8374 11784 5384 5401 9747 9747 -0.07992296647785224 GVHDNFFCLSS 11 Unmodified _GVHDNFFCLSS_ 0 0 0 REV__ENSG00000129317|ENST00000344862|PUS7L REV__ENSG00000129317|ENST00000344862|PUS7L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.1838684082031 3 409.181729 1224.52336 NaN NaN NaN NaN NaN NaN NaN 75.42 1 76.083 75.583 76.583 0.6635 0 0 0 1.0059 1 36517 36517 1.2148 0.51716 1 + 8375 11784 5384 5401 9748 9748 -0.07992296647785224 GVHDNFFCLSS 11 Unmodified _GVHDNFFCLSS_ 0 0 0 REV__ENSG00000129317|ENST00000344862|PUS7L REV__ENSG00000129317|ENST00000344862|PUS7L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.1842956542969 3 409.181729 1224.52336 NaN NaN NaN NaN NaN NaN NaN 74.146 1 74.405 73.905 74.905 0.25876 0 0 0 1.0059 1 34084 34084 1.2148 0 1 + 8376 11784 5384 5401 9749 9749 -0.07992296647785224 GVHFCPLEL 9 Unmodified _GVHFCPLEL_ 0 0 0 REV__ENSG00000148606|ENST00000372371|POLR3A REV__ENSG00000148606|ENST00000372371|POLR3A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.75994873046875 2 507.757495 1013.50044 NaN NaN NaN NaN NaN NaN NaN 38.972 1 39.61 39.11 40.11 0.63778 0 0 0 0.7971 1 17816 17816 9.3474 0.75416 1 + 8377 12544 5385 5402 9750 9750 -0.005772709746111104 GVHFVSNILLR 11 Unmodified _GVHFVSNILLR_ 0 0 0 REV__ENST00000598118.1_1_19:35506495-35517042:+|nuORF REV__ENST00000598118.1_1_19:35506495-35517042:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 627.8670654296875 2 627.869497 1253.72444 NaN NaN NaN NaN NaN NaN NaN 29.576 1 29.576 29.076 30.076 0 0 0 0 1.0072 1 13350 13350 1.3295 0.13619 1 + 8378 10697 5386 5403 9751 9751 0.10772760451027352 GVHLKLVLRF 10 Unmodified _GVHLKLVLRF_ 0 0 0 ENSG00000108950|ENST00000592554|FAM20A;ENST00000592847.1_1_17:66537075-66551874:-|nuORF ENSG00000108950|ENST00000592554|FAM20A ENSG00000108950|ENST00000592554|FAM20A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.302978515625 2 591.3795 1180.74445 NaN NaN NaN NaN NaN NaN NaN 94.715 1 94.975 94.475 95.475 0.25975 0 0 0 1.0015 1 43522 43522 0.45834 0.057624 1 8379 1660 5387 5404 9752 9752 0.161305561816107 GVHLLHRA 8 Unmodified _GVHLLHRA_ 0 0 0 nc|ENSG00000160117|Q8NAG6-1|ANKLE1;ENSG00000160117|ENST00000404085|ANKLE1;ENST00000404085.5_1_19:17392508-17397358:+|nuORF nc|ENSG00000160117|Q8NAG6-1|ANKLE1 nc|ENSG00000160117|Q8NAG6-1|ANKLE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.7710876464844 2 451.769586 901.524619 NaN NaN NaN NaN NaN NaN NaN 18.168 1 18.47 17.97 18.97 0.30158 0 0 0 0.99035 1 8234 8234 2.5775 0 1 8380 4042 5388 5405 9753 9753 0.06991750293946097 GVHLLHRA 8 Unmodified _GVHLLHRA_ 0 0 0 nc|ENSG00000160117|Q8NAG6-1|ANKLE1;ENSG00000160117|ENST00000404085|ANKLE1;ENST00000404085.5_1_19:17392508-17397358:+|nuORF nc|ENSG00000160117|Q8NAG6-1|ANKLE1 nc|ENSG00000160117|Q8NAG6-1|ANKLE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.7708435058594 2 451.769586 901.524619 NaN NaN NaN NaN NaN NaN NaN 18.242 1 18.544 18.044 19.044 0.30158 0 0 0 0.99035 1 8268 8268 2.8892 0 1 8381 4042 5388 5405 9754 9754 0.06991750293946097 GVHLRKELTF 10 Unmodified _GVHLRKELTF_ 0 0 0 REV__HERVK-int_dup102|chr7:4583489-4590929:-|1.365261944516419|0.4463608682754711|1.61|525.0|295|1|anti-sense REV__HERVK-int_dup102|chr7:4583489-4590929:-|1.365261944516419|0.4463608682754711|1.61|525.0|295|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 600.347900390625 2 600.348397 1198.68224 NaN NaN NaN NaN NaN NaN NaN 84.693 1 85.359 84.859 85.859 0.66566 0 0 0 1.0011 1 39009 39009 1.8442 0 1 + 8382 17734 5389 5406 9755 9755 0.09084785042637122 GVHMKILP 8 Unmodified _GVHMKILP_ 0 0 0 nc|ENSG00000154258|Q8IUA7-2|ABCA9;nc|ENSG00000154258|Q8IUA7-5|ABCA9;ENST00000461623.1_1_17:67029858-67045457:-|nuORF;nc|ENSG00000154258|Q8IUA7-4|ABCA9;nc|ENSG00000154258|Q8IUA7-3|ABCA9;ENSG00000154258|ENST00000340001|ABCA9 nc|ENSG00000154258|Q8IUA7-2|ABCA9 nc|ENSG00000154258|Q8IUA7-2|ABCA9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.24530029296875 2 447.765123 893.515694 3.2554 0.0014576 0.94203 0.00042181 4.1974 0.0018795 447.7656019786828 85.455 0.59849 86.12 85.729 86.327 0.66566 88 27 5 0 0 0 0.7471 1 39348 39348 0.69038 0 1 3895300 8383 3813 5390 5407 9756 9756 0.06467640613254844 GVHPMGLFW 9 Unmodified _GVHPMGLFW_ 0 0 0 ENSG00000136881|ENST00000259407|BAAT ENSG00000136881|ENST00000259407|BAAT ENSG00000136881|ENST00000259407|BAAT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.2672119140625 2 522.260205 1042.50586 NaN NaN NaN NaN NaN NaN NaN 93.275 1 93.53 93.03 94.03 0.25497 0 0 0 0.90511 1 42871 42871 2.3027 0 1 8384 2984 5391 5408 9757 9757 -0.01369547392118875 GVHQQYVQRI 10 Unmodified _GVHQQYVQRI_ 0 0 0 ENSG00000062716|ENST00000262291|VMP1 ENSG00000062716|ENST00000262291|VMP1 ENSG00000062716|ENST00000262291|VMP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.8928527832031 3 409.891278 1226.652 2.7475 0.0011262 -0.068911 -2.8246E-05 2.6786 0.0010979 409.8911606415021 15.583 0.99096 15.889 15.552 16.543 0.306 152 114 2 0 0 0 0.9406 2 7012 7012;7062 0.77653 0 1 172260 8385 655 5392 5409 9758;9759 9758 0.0477442637745753 GVHRGFGRRRR 11 Unmodified _GVHRGFGRRRR_ 0 0 0 REV__ENST00000283429.10_1_16:4524572-4524719:-|nuORF REV__ENST00000283429.10_1_16:4524572-4524719:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.3969116210938 2 677.395402 1352.77625 4.387 0.0029717 0.23327 0.00015801 4.6203 0.0031297 677.3954164200313 93.571 1.2453 93.826 93.02 94.265 0.25497 130 64 3 0 0 0 0.91345 3 42947 42947;42994;43176 1.3295 1.0225 1 1020800 + 8386 15097 5393 5410 9760;9761;9762 9760 0.11397361708145581 GVHRGFGRRRR 11 Unmodified _GVHRGFGRRRR_ 0 0 0 REV__ENST00000283429.10_1_16:4524572-4524719:-|nuORF REV__ENST00000283429.10_1_16:4524572-4524719:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.398681640625 2 677.395402 1352.77625 4.5055 0.003052 -0.014199 -9.6182E-06 4.4913 0.0030424 677.3952872764893 95.336 1.0246 95.603 95.107 96.131 0.2675 193 60 4 0 0 0 0.91345 2 43682 43682;43825 1.3295 1.0225 1 3364300 + 8387 15097 5393 5410 9763;9764 9763 0.11397361708145581 GVHRGFGRRRR 11 Unmodified _GVHRGFGRRRR_ 0 0 0 REV__ENST00000283429.10_1_16:4524572-4524719:-|nuORF REV__ENST00000283429.10_1_16:4524572-4524719:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 677.3982543945312 2 677.395402 1352.77625 4.1545 0.0028142 0.038534 2.6103E-05 4.193 0.0028403 677.395353917968 94.916 1.4515 95.533 94.852 96.304 0.61736 201 78 3 0 0 0 0.91345 3 43479 43479;43684;43729 1.3295 1.0605 1 4206500 + 8388 15097 5393 5410 9765;9766;9767 9765 0.11397361708145581 GVHRGFGRRRR 11 Unmodified _GVHRGFGRRRR_ 0 0 0 REV__ENST00000283429.10_1_16:4524572-4524719:-|nuORF REV__ENST00000283429.10_1_16:4524572-4524719:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 677.3987426757812 2 677.395402 1352.77625 NaN NaN NaN NaN NaN NaN NaN 95.438 1 96.045 95.545 96.545 0.60769 0 0 0 1.0079 1 43889 43889 1.3295 0.13619 1 + 8389 15097 5393 5410 9768 9768 0.11397361708145581 GVHRSGVL 8 Unmodified _GVHRSGVL_ 0 0 0 REV__ENST00000479506.1_1_1:245517197-245533964:+|nuORF REV__ENST00000479506.1_1_1:245517197-245533964:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.7414855957031 2 412.740494 823.466435 NaN NaN NaN NaN NaN NaN NaN 20.278 1 20.932 20.432 21.432 0.65346 0 0 0 0.99035 1 9207 9207 2.8892 0 1 + 8390 12966 5394 5411 9769 9769 0.047640686486602135 GVHRYKWL 8 Unmodified _GVHRYKWL_ 0 0 0 ENST00000562687.6_3_16:32769598-32772029:+|nuORF ENST00000562687.6_3_16:32769598-32772029:+|nuORF ENST00000562687.6_3_16:32769598-32772029:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.7980346679688 2 529.798343 1057.58213 NaN NaN NaN NaN NaN NaN NaN 51.937 1 52.747 52.247 53.247 0.81065 0 0 0 0.99035 1 23660 23660 2.8892 0.58649 1 8391 8998 5395 5412 9770 9770 0.05564592499490573 GVHSCCCCCCC 11 Unmodified _GVHSCCCCCCC_ 0 0 0 REV__nc|ENSG00000231721|A0A455ZAR2|LINC-PINT REV__nc|ENSG00000231721|A0A455ZAR2|LINC-PINT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.6329956054688 2 560.635113 1119.25567 NaN NaN NaN NaN NaN NaN NaN 82.702 1 83.362 82.862 83.862 0.66019 0 0 0 1.008 1 38105 38105 0.35063 0.35063 1 + 8392 16417 5396 5413 9771 9771 -0.29918366701394916 GVHVHIMQVCY 11 Unmodified _GVHVHIMQVCY_ 0 0 0 chr10:89462624-89506310|321|10.73|0.6|4.16|-|1|TE_info:L1PA7,L1PA7_dup9423,L1,LINE,donor,+,89506310,89511743|SLC16A12,None|1 chr10:89462624-89506310|321|10.73|0.6|4.16|-|1|TE_info:L1PA7,L1PA7_dup9423,L1,LINE,donor,+,89506310,89511743|SLC16A12,None|1 chr10:89462624-89506310|321|10.73|0.6|4.16|-|1|TE_info:L1PA7,L1PA7_dup9423,L1,LINE,donor,+,89506310,89511743|SLC16A12,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 643.3118286132812 2 643.312643 1284.61073 NaN NaN NaN NaN NaN NaN NaN 90.412 1 91.085 90.585 91.585 0.67271 0 0 0 1.0071 1 41613 41613 1.4819 1.0236 1 8393 132 5397 5414 9772 9772 -0.02018793977867972 GVHYLIGFLL 10 Unmodified _GVHYLIGFLL_ 0 0 0 REV__ENST00000215906.5_1_22:26839251-26839425:+|nuORF REV__ENST00000215906.5_1_22:26839251-26839425:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.3328247070312 2 566.331685 1130.64882 NaN NaN NaN NaN NaN NaN NaN 31.278 1 32.067 31.567 32.567 0.78879 0 0 0 0.99983 1 14124 14124 1.8442 0.6509 1 + 8394 14800 5398 5415 9773 9773 0.08871783270774358 GVIASFLII 9 Unmodified _GVIASFLII_ 0 0 0 REV__nc|ENSG00000114902|Q9Y6A9|SPCS1 REV__nc|ENSG00000114902|Q9Y6A9|SPCS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.7960510253906 2 466.794404 931.574254 NaN NaN NaN NaN NaN NaN NaN 64.022 1 64.27 63.77 64.77 0.24803 0 0 0 0.52667 1 29322 29322 18.135 0 1 + 8395 11337 5399 5416 9774 9774 0.10573020459389681 GVIASFLII 9 Unmodified _GVIASFLII_ 0 0 0 REV__nc|ENSG00000114902|Q9Y6A9|SPCS1 REV__nc|ENSG00000114902|Q9Y6A9|SPCS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.7961730957031 2 466.794404 931.574254 NaN NaN NaN NaN NaN NaN NaN 63.32 1 63.978 63.478 64.478 0.65808 0 0 0 0.22092 1 29016 29016 30.225 7.0764 1 + 8396 11337 5399 5416 9775 9775 0.10573020459389681 GVICEEEC 8 Unmodified _GVICEEEC_ 0 0 0 chrX:155046584-155054595|161|30.4|0.99|4.94|+|2|FUNDC2,FUNDC2|1 chrX:155046584-155054595|161|30.4|0.99|4.94|+|2|FUNDC2,FUNDC2|1 chrX:155046584-155054595|161|30.4|0.99|4.94|+|2|FUNDC2,FUNDC2|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 441.1719055175781 2 441.172604 880.330655 NaN NaN NaN NaN NaN NaN NaN 68.876 1 69.578 69.078 70.078 0.70218 0 0 0 0.99035 1 32876 32876 0.79363 0 1 8397 194 5400 5417 9776 9776 -0.11429755039341671 GVIDPQFEEV 10 Unmodified _GVIDPQFEEV_ 0 0 0 ENST00000372291.3_1_20:44698963-44718582:-|nuORF ENST00000372291.3_1_20:44698963-44718582:-|nuORF ENST00000372291.3_1_20:44698963-44718582:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.7802734375 2 566.779679 1131.5448 NaN NaN NaN NaN NaN NaN NaN 14.729 1 15.383 14.883 15.883 0.65356 0 0 0 1.0001 1 6636 6636 1.6526 0.58116 1 8398 7333 5401 5418 9777 9777 -0.015705883474311122 GVIDPSSLL 9 Unmodified _GVIDPSSLL_ 0 0 0 REV__ENST00000274542.6_1_5:158585447-158585522:-|nuORF REV__ENST00000274542.6_1_5:158585447-158585522:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.7579040527344 2 450.755475 899.496398 2.9778 0.0013423 1.3914 0.00062719 4.3692 0.0019695 450.75607306784053 32.74 0.18957 33.358 33.246 33.435 0.61831 11 8 2 0 0 0 0.95612 1 15021 15021 4.756 0 1 120180 + 8399 15073 5402 5419 9778 9778 0.04262962803340997 GVIDVVYLIY 10 Unmodified _GVIDVVYLIY_ 0 0 0 Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|241|3|anti-sense Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|241|3|anti-sense Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|241|3|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.3280029296875 2 577.328808 1152.64306 NaN NaN NaN NaN NaN NaN NaN 67.425 1 68.083 67.583 68.583 0.65777 0 0 0 0.98866 1 30907 30907 7.2892 1.5288 1 8400 9378 5403 5420 9779 9779 0.07284639968429474 GVIFITCSI 9 Unmodified _GVIFITCSI_ 0 0 0 REV__ENST00000514245.1_1_4:148407001-148453720:+|nuORF REV__ENST00000514245.1_1_4:148407001-148453720:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 317.84332275390625 3 318.177256 951.50994 NaN NaN NaN NaN NaN NaN NaN 17.458 1 17.658 17.158 18.158 0.20057 0 0 0 0.82031 1 7725 7725 5.2969 0 1 + 8401 12622 5404 5421 9780 9780 0.032244973109072816 GVIFRKAH 8 Unmodified _GVIFRKAH_ 0 0 0 ENST00000409697.7_1_3:123675607-123680045:-|nuORF ENST00000409697.7_1_3:123675607-123680045:-|nuORF ENST00000409697.7_1_3:123675607-123680045:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 927.5565185546875 1 927.552296 926.54502 3.5734 0.0033145 1.322 0.0012263 4.8954 0.0045408 927.5535258704041 55.266 0.2522 55.531 55.466 55.718 0.26543 24 15 2 0 0 0 0.72385 1 25282 25282 2.5775 0 1 2327100 8402 7664 5405 5422 9781 9781 0.07880920953743953 GVIFRKAH 8 Unmodified _GVIFRKAH_ 0 0 0 ENST00000409697.7_1_3:123675607-123680045:-|nuORF ENST00000409697.7_1_3:123675607-123680045:-|nuORF ENST00000409697.7_1_3:123675607-123680045:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 927.5577392578125 1 927.552296 926.54502 3.7669 0.003494 1.12 0.0010389 4.8869 0.0045329 927.5531324958255 54.482 0.24482 55.148 55.019 55.264 0.6665 31 19 2 0 0 0 0.72385 2 24892 24892;24942 2.5775 0.27475 1 2134800 8403 7664 5405 5422 9782;9783 9782 0.07880920953743953 GVIKSLKIKY 10 Unmodified _GVIKSLKIKY_ 0 0 0 ENSG00000169989|ENST00000304337|TIGD4 ENSG00000169989|ENST00000304337|TIGD4 ENSG00000169989|ENST00000304337|TIGD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.9359741210938 2 574.873717 1147.73288 NaN NaN NaN NaN NaN NaN NaN 16.343 1 16.343 15.843 16.843 0 0 0 0 1.0015 1 7238 7238 0.45834 0 1 8404 4725 5406 5423 9784 9784 0.16492314367633298 GVILHIDR 8 Unmodified _GVILHIDR_ 0 0 0 ENST00000420503.1_1_1:22352034-22356862:+|nuORF ENST00000420503.1_1_1:22352034-22356862:+|nuORF ENST00000420503.1_1_1:22352034-22356862:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 308.18695068359375 3 308.187143 921.5396 NaN NaN NaN NaN NaN NaN NaN 39.299 1 39.299 38.799 39.799 0 0 0 0 0.99035 1 17834 17834 1.4819 0.28856 1 8405 7750 5407 5424 9785 9785 0.07569197371287828 GVIMLHGL 8 Unmodified _GVIMLHGL_ 0 0 0 REV__ENSG00000169567|ENST00000304043|HINT1 REV__ENSG00000169567|ENST00000304043|HINT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 420.24224853515625 2 420.244024 838.473494 NaN NaN NaN NaN NaN NaN NaN 12.682 1 13.325 12.825 13.825 0.64272 0 0 0 0.82704 1 5693 5693 17.087 5.9721 1 + 8406 13395 5408 5425 9786 9786 0.04779665204864614 GVIQFTGEKV 10 Unmodified _GVIQFTGEKV_ 0 0 0 REV__ENST00000556643.1_1_14:96858491-96871207:+|nuORF REV__ENST00000556643.1_1_14:96858491-96871207:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.2991943359375 2 539.300581 1076.58661 NaN NaN NaN NaN NaN NaN NaN 33.637 1 33.891 33.391 34.391 0.25389 0 0 0 1.0001 1 15316 15316 1.6526 0.32309 1 + 8407 12229 5409 5426 9787 9787 0.05138012131783398 GVIQMHYKKPM 11 Unmodified _GVIQMHYKKPM_ 0 0 0 REV__ENSG00000174502|ENST00000367135|SLC26A9 REV__ENSG00000174502|ENST00000367135|SLC26A9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 666.3526000976562 2 666.351768 1330.68898 NaN NaN NaN NaN NaN NaN NaN 64.614 1 64.863 64.363 65.363 0.24803 0 0 0 1.0072 1 29599 29599 1.3295 0.87119 1 + 8408 13635 5410 5427 9788 9788 0.03686638607359782 GVIRKNSIS 9 Unmodified _GVIRKNSIS_ 0 0 0 REV__ENSG00000135940|ENST00000258424|COX5B REV__ENSG00000135940|ENST00000258424|COX5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2958068847656 2 487.293091 972.571629 3.1877 0.0015533 0.06083 2.9642E-05 3.2485 0.001583 487.29298025470536 85.121 0.72693 85.369 85.174 85.901 0.24758 87 41 3 0 0 0 1.1154 1 39370 39370 2.0598 0.40713 1 967810 + 8409 12048 5411 5428 9789 9789 0.08424565054417599 GVIRKNSIS 9 Unmodified _GVIRKNSIS_ 0 0 0 REV__ENSG00000135940|ENST00000258424|COX5B REV__ENSG00000135940|ENST00000258424|COX5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.2951965332031 2 487.293091 972.571629 3.3417 0.0016284 -0.075854 -3.6963E-05 3.2659 0.0015914 487.2930300654955 84.841 0.6169 85.506 85.267 85.884 0.66566 69 30 3 0 0 0 1.1154 1 39183 39183 2.0598 0.21551 1 1152200 + 8410 12048 5411 5428 9790 9790 0.08424565054417599 GVIRRLYLPRK 11 Unmodified _GVIRRLYLPRK_ 0 0 0 REV__ENSG00000155465|ENST00000674313|SLC7A7 REV__ENSG00000155465|ENST00000674313|SLC7A7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.9384155273438 2 685.940788 1369.86702 NaN NaN NaN NaN NaN NaN NaN 41.175 1 41.444 40.944 41.944 0.26904 0 0 0 1.008 1 18749 18749 0.35063 0.043601 1 + 8411 12740 5412 5429 9791 9791 0.19688392913053576 GVISGARSTL 10 Unmodified _GVISGARSTL_ 0 0 0 REV__ENST00000564184.1_1_15:72455114-72459029:-|nuORF REV__ENST00000564184.1_1_15:72455114-72459029:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 320.8549499511719 3 320.853941 959.539994 2.1511 0.00069018 0.48101 0.00015433 2.6321 0.00084451 320.8540201179334 15.875 0.98688 15.875 15.377 16.363 0 301 119 3 0 0 0 0.83621 1 7122 7122 6.1918 2.6048 1 430910 + 8412 17397 5413 5430 9792 9792 0.0586057230049164 GVITFVFLVW 10 Unmodified _GVITFVFLVW_ 0 0 0 REV__nc|ENSG00000187258|Q6W5P4-9|NPSR1 REV__nc|ENSG00000187258|Q6W5P4-9|NPSR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.2311096191406 3 394.230349 1179.66922 2.7546 0.001086 -0.57475 -0.00022658 2.1799 0.00085938 394.23024969753243 17.392 0.42081 17.693 17.482 17.902 0.30158 72 30 3 0 0 0 0.94099 1 7813 7813 0.69767 0.19171 1 249900 + 8413 14096 5414 5431 9793 9793 0.08656953930540112 GVITRGPR 8 Unmodified _GVITRGPR_ 0 0 0 ENST00000544594.5_1_11:71808415-71808610:-|nuORF ENST00000544594.5_1_11:71808415-71808610:-|nuORF ENST00000544594.5_1_11:71808415-71808610:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 428.2629699707031 2 428.261594 854.508634 1.9165 0.00082075 0.1592 6.8177E-05 2.0757 0.00088893 428.2615861215599 85.789 0.4025 85.818 85.626 86.029 0.028603 105 47 3 0 0 0 0.71384 1 42929 42929 4.756 2.1785 1 27055000 8414 8835 5415 5432 9794 9794 0.0755604405703707 GVIVIFYY 8 Unmodified _GVIVIFYY_ 0 0 0 REV__Harlequin-int_dup446|chr19:20426579-20429510:-|1.2092047156725605|0.0242048410209908|5.64|525.0|47|2|sense REV__Harlequin-int_dup446|chr19:20426579-20429510:-|1.2092047156725605|0.0242048410209908|5.64|525.0|47|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.2753601074219 2 487.273304 972.532055 3.4115 0.0016623 1.4067 0.00068543 4.8182 0.0023478 487.2737717647973 100.45 0.10694 101.05 101 101.11 0.59717 5 3 2 0 0 0 0.73686 1 46516 46516 2.8892 0.31174 1 972770 + 8415 17720 5416 5433 9795 9795 0.044690450509847324 GVIVIFYY 8 Unmodified _GVIVIFYY_ 0 0 0 REV__Harlequin-int_dup446|chr19:20426579-20429510:-|1.2092047156725605|0.0242048410209908|5.64|525.0|47|2|sense REV__Harlequin-int_dup446|chr19:20426579-20429510:-|1.2092047156725605|0.0242048410209908|5.64|525.0|47|2|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 487.273304 972.532055 3.955 0.0019272 0.52096 0.00025385 4.4759 0.002181 487.27332102444944 100.58 0.12138 100.9 100.85 100.98 0.31412 -0.074875 -0.00053332 NaN 2.8892 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1083000 + 8416 17720 5416 5433 0.044690450509847324 GVIVIFYY 8 Unmodified _GVIVIFYY_ 0 0 0 REV__Harlequin-int_dup446|chr19:20426579-20429510:-|1.2092047156725605|0.0242048410209908|5.64|525.0|47|2|sense REV__Harlequin-int_dup446|chr19:20426579-20429510:-|1.2092047156725605|0.0242048410209908|5.64|525.0|47|2|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 487.273304 972.532055 3.4115 0.0016623 1.4067 0.00068543 4.8182 0.0023478 487.2737717647973 100.45 0.10694 101.05 101 101.11 0.59717 0.074875 0.00032985 NaN 2.8892 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 972770 + 8417 17720 5416 5433 0.044690450509847324 GVIVKLGP 8 Unmodified _GVIVKLGP_ 0 0 0 REV__ENSG00000185313|ENST00000449082|SCN10A REV__ENSG00000185313|ENST00000449082|SCN10A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.7630310058594 2 391.760364 781.506175 NaN NaN NaN NaN NaN NaN NaN 27.215 1 27.478 26.978 27.978 0.26245 0 0 0 0.99035 1 12369 12369 2.8892 0 1 + 8418 14015 5417 5434 9796 9796 0.10668195599384944 GVIWKRRPGWK 11 Unmodified _GVIWKRRPGWK_ 0 0 0 ENST00000286201.2_1_2:202901244-202901346:+|nuORF ENST00000286201.2_1_2:202901244-202901346:+|nuORF ENST00000286201.2_1_2:202901244-202901346:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 691.9135131835938 2 691.91203 1381.80951 NaN NaN NaN NaN NaN NaN NaN 90.733 1 91.405 90.905 91.905 0.67271 0 0 0 1.008 1 41760 41760 0.35063 0 1 8419 6720 5418 5435 9797 9797 0.13387550707489027 GVIWLWWLWWH 11 Unmodified _GVIWLWWLWWH_ 0 0 0 REV__ENST00000361229.8_1_X:101976007-102003782:+|nuORF REV__ENST00000361229.8_1_X:101976007-102003782:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 790.9603881835938 2 791.411332 1580.80811 NaN NaN NaN NaN NaN NaN NaN 107.89 1 108.21 107.71 108.71 0.31421 0 0 0 1.008 1 49766 49766 0.35063 0.043601 1 + 8420 15622 5419 5436 9798 9798 0.04093916618739968 GVKATGTVRE 10 Unmodified _GVKATGTVRE_ 0 0 0 ENSG00000185220|ENST00000329291|PGBD2;nc|ENSG00000185220|Q6P3X8-2|PGBD2 ENSG00000185220|ENST00000329291|PGBD2 ENSG00000185220|ENST00000329291|PGBD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.28692626953125 2 509.288005 1016.56146 NaN NaN NaN NaN NaN NaN NaN 100.53 1 100.84 100.34 101.34 0.31412 0 0 0 1.0003 1 46506 46506 1.4819 0.68827 1 8421 5496 5420 5437 9799 9799 0.05383957329183886 GVKDAREKLL 10 Unmodified _GVKDAREKLL_ 0 0 0 ENSG00000100227|ENST00000252115|POLDIP3;nc|ENSG00000100227|Q9BY77-2|POLDIP3 ENSG00000100227|ENST00000252115|POLDIP3 ENSG00000100227|ENST00000252115|POLDIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.8974304199219 3 376.896029 1127.66626 2.5723 0.0009695 0.31244 0.00011776 2.8848 0.0010873 376.8961513557593 17.884 0.25237 18.186 18.083 18.335 0.30158 31 21 2 0 0 0 0.90196 1 8083 8083 1.7423 0.96574 1 160450 8422 1191 5421 5438 9800 9800 0.1075307880573746 GVKDKVTL 8 Unmodified _GVKDKVTL_ 0 0 0 ENSG00000093010|ENST00000361682|COMT;nc|ENSG00000093010|P21964-2|COMT ENSG00000093010|ENST00000361682|COMT ENSG00000093010|ENST00000361682|COMT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 430.2677001953125 2 430.26601 858.517468 NaN NaN NaN NaN NaN NaN NaN 75.436 1 76.1 75.6 76.6 0.6635 0 0 0 0.99035 1 36525 36525 4.3292 0.38484 1 8423 1106 5422 5439 9801 9801 0.08254972902852842 GVKELFCLAPD 11 Unmodified _GVKELFCLAPD_ 0 0 0 REV__ENSG00000124177|ENST00000373233|CHD6 REV__ENSG00000124177|ENST00000373233|CHD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.3072509765625 2 596.307549 1190.60055 NaN NaN NaN NaN NaN NaN NaN 52.126 1 52.126 51.626 52.626 0 0 0 0 1.0073 1 23868 23868 1.1933 0.12188 1 + 8424 11638 5423 5440 9802 9802 0.012869215685441304 GVKFLRRFKQ 10 Unmodified _GVKFLRRFKQ_ 0 0 0 ENST00000490764.5_1_2:234327938-234366271:+|nuORF;nc|ENSG00000077044|Q16760-2|DGKD;ENSG00000077044|ENST00000264057|DGKD;ENST00000474488.1_1_2:234343429-234350860:+|nuORF;ENST00000498255.6_1_13:42728006-42769963:+|nuORF;nc|ENSG00000102780|Q86XP1-5|DGKH;nc|ENSG00000102780|Q86XP1-3|DGKH;nc|ENSG00000102780|Q86XP1-2|DGKH;ENSG00000102780|ENST00000337343|DGKH ENST00000490764.5_1_2:234327938-234366271:+|nuORF ENST00000490764.5_1_2:234327938-234366271:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 639.894287109375 2 639.893306 1277.77206 NaN NaN NaN NaN NaN NaN NaN 66.262 1 66.511 66.011 67.011 0.24848 0 0 0 1.0015 1 30358 30358 0.45834 0.057624 1 8425 8392 5424 5441 9803 9803 0.14428459441887753 GVKFLRRFKQ 10 Unmodified _GVKFLRRFKQ_ 0 0 0 ENST00000490764.5_1_2:234327938-234366271:+|nuORF;nc|ENSG00000077044|Q16760-2|DGKD;ENSG00000077044|ENST00000264057|DGKD;ENST00000474488.1_1_2:234343429-234350860:+|nuORF;ENST00000498255.6_1_13:42728006-42769963:+|nuORF;nc|ENSG00000102780|Q86XP1-5|DGKH;nc|ENSG00000102780|Q86XP1-3|DGKH;nc|ENSG00000102780|Q86XP1-2|DGKH;ENSG00000102780|ENST00000337343|DGKH ENST00000490764.5_1_2:234327938-234366271:+|nuORF ENST00000490764.5_1_2:234327938-234366271:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 639.892578125 2 639.893306 1277.77206 NaN NaN NaN NaN NaN NaN NaN 70.068 1 70.325 69.825 70.825 0.25642 0 0 0 1.0015 1 32088 32088 0.45834 0.057624 1 8426 8392 5424 5441 9804 9804 0.14428459441887753 GVKFSNYI 8 Unmodified _GVKFSNYI_ 0 0 0 REV__ENST00000369405.7_1_10:114205145-114205280:-|nuORF REV__ENST00000369405.7_1_10:114205145-114205280:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.2860107421875 2 464.25036 926.486168 NaN NaN NaN NaN NaN NaN NaN 12.54 1 13.183 12.683 13.683 0.64272 0 0 0 0.95658 1 5628 5628 8.5933 2.8329 1 + 8427 15704 5425 5442 9805 9805 0.01998399868762135 GVKIKLHK 8 Unmodified _GVKIKLHK_ 0 0 0 ENSG00000085760|ENST00000263629|MTIF2 ENSG00000085760|ENST00000263629|MTIF2 ENSG00000085760|ENST00000263629|MTIF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 461.6459655761719 2 461.813462 921.612371 NaN NaN NaN NaN NaN NaN NaN 107.55 1 107.86 107.36 108.36 0.31421 0 0 0 0.99035 1 49612 49612 0.79363 0 1 8428 974 5426 5443 9806 9806 0.14842951164678198 GVKIKLHKI 9 Unmodified _GVKIKLHKI_ 0 0 0 ENSG00000085760|ENST00000263629|MTIF2 ENSG00000085760|ENST00000263629|MTIF2 ENSG00000085760|ENST00000263629|MTIF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 518.35498046875 2 518.355494 1034.69644 NaN NaN NaN NaN NaN NaN NaN 79.847 1 80.096 79.596 80.596 0.24947 0 0 0 0.91206 1 36765 36765 0.6015 0 1 8429 974 5427 5444 9807 9807 0.18047482261567893 GVKKKKGVK 9 Unmodified _GVKKKKGVK_ 0 0 0 REV__nc|ENSG00000167962|Q86UK7-4|ZNF598 REV__nc|ENSG00000167962|Q86UK7-4|ZNF598 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.33917236328125 2 486.339844 970.665135 NaN NaN NaN NaN NaN NaN NaN 92.634 1 93.281 92.781 93.781 0.64714 0 0 0 0.91206 1 42618 42618 0.6015 0.6015 1 + 8430 13317 5428 5445 9808 9808 0.1786290922751732 GVKKKKKKQR 10 Unmodified _GVKKKKKKQR_ 0 0 0 REV__ENST00000454171.1_1_7:84657519-84657798:+|nuORF REV__ENST00000454171.1_1_7:84657519-84657798:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 614.2319946289062 2 614.422231 1226.82991 NaN NaN NaN NaN NaN NaN NaN 79.32 1 79.981 79.481 80.481 0.66082 0 0 0 1.0015 1 36548 36548 0.45834 0.057624 1 + 8431 16433 5429 5446 9809 9809 0.2255672136730027 GVKKKKKKQRF 11 Unmodified _GVKKKKKKQRF_ 0 0 0 REV__ENST00000454171.1_1_7:84657519-84657798:+|nuORF REV__ENST00000454171.1_1_7:84657519-84657798:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 687.958984375 2 687.956438 1373.89832 NaN NaN NaN NaN NaN NaN NaN 32.608 1 33.396 32.896 33.896 0.78795 0 0 0 1.008 1 14750 14750 0.35063 0.35063 1 + 8432 16433 5430 5447 9810 9810 0.22632965947150296 GVKKKLRPP 9 Unmodified _GVKKKLRPP_ 0 0 0 nc|ENSG00000186635|Q96P48-7|ARAP1;nc|ENSG00000186635|Q96P48-2|ARAP1;nc|ENSG00000186635|Q96P48-4|ARAP1;nc|ENSG00000186635|Q96P48-1|ARAP1;nc|ENSG00000186635|Q96P48-3|ARAP1;ENSG00000186635|ENST00000393609|ARAP1;ENST00000542612.1_1_11:72398360-72400579:-|nuORF;ENST00000544721.5_1_11:72396711-72399699:-|nuORF;ENST00000465814.5_1_11:72396711-72407721:-|nuORF;nc|ENSG00000186635|Q96P48-5|ARAP1;ENST00000541623.5_1_11:72398731-72399534:-|nuORF nc|ENSG00000186635|Q96P48-7|ARAP1 nc|ENSG00000186635|Q96P48-7|ARAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.84375 2 511.845294 1021.67603 NaN NaN NaN NaN NaN NaN NaN 103.54 1 103.54 103.04 104.04 0 0 0 0 0.91206 1 57058 57058 0.6015 0 1 8433 5580 5431 5448 9811 9811 0.16606311601788093 GVKKKRKK 8 Unmodified _GVKKKRKK_ 0 0 0 ENSG00000124177|ENST00000373233|CHD6;nc|ENSG00000124177|Q8TD26-2|CHD6;nc|ENSG00000124177|Q8TD26-3|CHD6 ENSG00000124177|ENST00000373233|CHD6 ENSG00000124177|ENST00000373233|CHD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 486.3435974121094 2 486.345461 970.676368 NaN NaN NaN NaN NaN NaN NaN 73.299 1 73.299 72.799 73.799 0 0 0 0 0.99035 1 35710 35710 0.79363 0.10326 1 8434 2344 5432 5449 9812 9812 0.1898573132165211 GVKKLHRER 9 Unmodified _GVKKLHRER_ 0 0 0 REV__ENST00000471231.6_1_16:30937150-30941463:+|nuORF REV__ENST00000471231.6_1_16:30937150-30941463:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.8475952148438 2 561.846356 1121.67816 3.7313 0.0020964 -0.9833 -0.00055246 2.748 0.001544 561.8456646548796 91.569 0.70294 92.231 91.995 92.698 0.66198 101 35 4 0 0 0 1.2078 2 42195 42195;42245 0.6015 0 1 3339000 + 8435 16601 5433 5450 9813;9814 9813 0.12218740339585565 GVKKPPKPLKL 11 Unmodified _GVKKPPKPLKL_ 0 0 0 REV__ENST00000082468.11_1_6:26410172-26413917:+|nuORF REV__ENST00000082468.11_1_6:26410172-26413917:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 602.9083251953125 2 602.910633 1203.80671 NaN NaN NaN NaN NaN NaN NaN 57.757 1 58.426 57.926 58.926 0.66829 0 0 0 1.008 1 26431 26431 0.35063 0.35063 1 + 8436 10279 5434 5451 9815 9815 0.21296282529965538 GVKKRRKK 8 Unmodified _GVKKRRKK_ 0 0 0 REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.35064697265625 2 500.348535 998.682516 NaN NaN NaN NaN NaN NaN NaN 79.909 1 80.229 79.729 80.729 0.31998 0 0 0 0.99035 1 39049 39049 0.79363 0 1 + 8437 16641 5435 5452 9816 9816 0.18312249553173388 GVKKRRKK 8 Unmodified _GVKKRRKK_ 0 0 0 REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.8062438964844 2 500.348535 998.682516 NaN NaN NaN NaN NaN NaN NaN 102.12 1 102.18 101.68 102.68 0.057198 0 0 0 0.99035 1 55448 55448 0.79363 0 1 + 8438 16641 5435 5452 9817 9817 0.18312249553173388 GVKKRRKKKK 10 Unmodified _GVKKRRKKKK_ 0 0 0 REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 628.4415283203125 2 628.443498 1254.87244 NaN NaN NaN NaN NaN NaN NaN 60.553 1 61.292 60.792 61.792 0.7396 0 0 0 1.0003 1 27958 27958 1.4819 1.0812 1 + 8439 16641 5436 5453 9818 9818 0.25520116495522416 GVKKRRKKKK 10 Unmodified _GVKKRRKKKK_ 0 0 0 REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 628.4415283203125 2 628.443498 1254.87244 NaN NaN NaN NaN NaN NaN NaN 72.254 1 72.917 72.417 73.417 0.66324 0 0 0 1.0015 1 33132 33132 0.45834 0.057624 1 + 8440 16641 5436 5453 9819 9819 0.25520116495522416 GVKKRRKKKKK 11 Unmodified _GVKKRRKKKKK_ 0 0 0 REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 692.7396850585938 2 692.490979 1382.96741 NaN NaN NaN NaN NaN NaN NaN 100.32 1 100.32 99.821 100.82 0 0 0 0 1.008 1 55344 55344 0.35063 0.043601 1 + 8441 16641 5437 5454 9820 9820 0.291240499667083 GVKKRRKKKKK 11 Unmodified _GVKKRRKKKKK_ 0 0 0 REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 692.4923706054688 2 692.490979 1382.96741 NaN NaN NaN NaN NaN NaN NaN 105.21 1 105.53 105.03 106.03 0.31782 0 0 0 1.008 1 48568 48568 0.35063 0.35063 1 + 8442 16641 5437 5454 9821 9821 0.291240499667083 GVKKRRKKKKK 11 Unmodified _GVKKRRKKKKK_ 0 0 0 REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 692.4895629882812 2 692.490979 1382.96741 NaN NaN NaN NaN NaN NaN NaN 79.231 1 79.892 79.392 80.392 0.66082 0 0 0 1.008 1 36508 36508 0.35063 0.35063 1 + 8443 16641 5437 5454 9822 9822 0.291240499667083 GVKLIKSLKWK 11 Unmodified _GVKLIKSLKWK_ 0 0 0 ENST00000287218.8_1_6:38120424-38120514:+|nuORF ENST00000287218.8_1_6:38120424-38120514:+|nuORF ENST00000287218.8_1_6:38120424-38120514:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 650.4296264648438 2 650.42919 1298.84383 NaN NaN NaN NaN NaN NaN NaN 92.441 1 92.694 92.194 93.194 0.25253 0 0 0 1.008 1 42495 42495 0.35063 0.043601 1 8444 6725 5438 5455 9823 9823 0.20635954075737573 GVKLKKDKL 9 Unmodified _GVKLKKDKL_ 0 0 0 ENSG00000099250|ENST00000374867|NRP1 ENSG00000099250|ENST00000374867|NRP1 ENSG00000099250|ENST00000374867|NRP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.5584411621094 3 343.565732 1027.67537 2.6102 0.00089678 0.5504 0.0001891 3.1606 0.0010859 343.5658786138898 12.892 0.26055 13.535 13.413 13.673 0.64272 13 7 3 0 0 0 1.101 1 5750 5750 1.1933 1.1933 1 511430 8445 1136 5439 5456 9824 9824 0.16263472162063408 GVKLKKDKL 9 Unmodified _GVKLKKDKL_ 0 0 0 ENSG00000099250|ENST00000374867|NRP1 ENSG00000099250|ENST00000374867|NRP1 ENSG00000099250|ENST00000374867|NRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.8453979492188 2 514.844959 1027.67537 NaN NaN NaN NaN NaN NaN NaN 89.232 1 89.91 89.41 90.41 0.67818 0 0 0 0.91206 1 41086 41086 0.6015 0 1 8446 1136 5439 5456 9825 9825 0.16263472162063408 GVKLPLVA 8 Unmodified _GVKLPLVA_ 0 0 0 ENST00000590347.5_1_19:1271297-1272439:+|nuORF;ENST00000590704.5_1_19:1271297-1272439:+|nuORF;nc|ENSG00000099622|Q14011-3|CIRBP;ENST00000591097.5_1_19:1271671-1272439:+|nuORF;nc|ENSG00000099622|Q14011-2|CIRBP;ENSG00000099622|ENST00000587896|CIRBP ENST00000590347.5_1_19:1271297-1272439:+|nuORF ENST00000590347.5_1_19:1271297-1272439:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.769287109375 2 398.768189 795.521825 NaN NaN NaN NaN NaN NaN NaN 27.65 1 27.913 27.413 28.413 0.26245 0 0 0 0.99035 1 12573 12573 5.7604 2.8712 1 8447 1145 5440 5457 9826 9826 0.11588482116405885 GVKLSKSSI 9 Unmodified _GVKLSKSSI_ 0 0 0 REV__ENST00000598240.1_1_19:19105804-19136912:-|nuORF REV__ENST00000598240.1_1_19:19105804-19136912:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 306.8597717285156 3 306.858804 917.554582 1.9877 0.00060995 0.53601 0.00016448 2.5237 0.00077443 306.85906485887267 15.033 0.35997 15.34 15.174 15.534 0.3069 64 37 2 0 0 0 1.0601 1 6793 6793 2.9952 1.8019 1 77843 + 8448 10413 5441 5458 9827 9827 0.09250644448604817 GVKLSKSSI 9 Unmodified _GVKLSKSSI_ 0 0 0 REV__ENST00000598240.1_1_19:19105804-19136912:-|nuORF REV__ENST00000598240.1_1_19:19105804-19136912:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 306.858804 917.554582 1.9877 0.00060995 0.53601 0.00016448 2.5237 0.00077443 306.85906485887267 15.033 0.35997 15.34 15.174 15.534 0.3069 -0.16973 -0.00029797 NaN 2.9952 64 37 2 NaN NaN NaN NaN 0 NaN NaN 0 77843 + 8449 10413 5441 5458 0.09250644448604817 GVKLSKSSI 9 Unmodified _GVKLSKSSI_ 0 0 0 REV__ENST00000598240.1_1_19:19105804-19136912:-|nuORF REV__ENST00000598240.1_1_19:19105804-19136912:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 306.858804 917.554582 2.1983 0.00067456 1.1853 0.00036372 3.3836 0.0010383 306.8591920747068 15.026 0.27017 15.679 15.576 15.846 0.65356 0.16973 0.00029976 NaN 2.9952 34 22 2 NaN NaN NaN NaN 0 NaN NaN 0 102850 + 8450 10413 5441 5458 0.09250644448604817 GVKLVIFA 8 Unmodified _GVKLVIFA_ 0 0 0 ENST00000581715.1_1_18:52051821-52051902:+|nuORF ENST00000581715.1_1_18:52051821-52051902:+|nuORF ENST00000581715.1_1_18:52051821-52051902:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 423.7759094238281 2 423.776014 845.537475 NaN NaN NaN NaN NaN NaN NaN 69.495 1 69.495 68.995 69.995 0 0 0 0 0.99035 1 33561 33561 0.79363 0 1 8451 9153 5442 5459 9828 9828 0.10852768633446885 GVKLVRKKKKI 11 Unmodified _GVKLVRKKKKI_ 0 0 0 ENSG00000175809|ENST00000323684|CBLL2 ENSG00000175809|ENST00000323684|CBLL2 ENSG00000175809|ENST00000323684|CBLL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 649.32373046875 2 648.963732 1295.91291 NaN NaN NaN NaN NaN NaN NaN 98.249 1 98.848 98.348 99.348 0.59885 0 0 0 1.008 1 45275 45275 0.35063 0.35063 1 8452 5047 5443 5460 9829 9829 0.2767903809528889 GVKNRELIHIS 11 Unmodified _GVKNRELIHIS_ 0 0 0 ENST00000521800.1_1_5:78180947-78181633:-|nuORF;nc|ENSG00000113273|P15848-2|ARSB;ENSG00000113273|ENST00000264914|ARSB ENST00000521800.1_1_5:78180947-78181633:-|nuORF ENST00000521800.1_1_5:78180947-78181633:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3706665039062 2 633.369861 1264.72517 4.0646 0.0025744 -0.70728 -0.00044797 3.3573 0.0021264 633.369310370016 89.385 1.5481 90.063 89.107 90.655 0.67818 130 71 3 0 0 0 0.91068 1 41400 41400 1.3295 0.87119 1 1256400 8453 1843 5444 5461 9830 9830 0.10339555100085818 GVKQHERISRF 11 Unmodified _GVKQHERISRF_ 0 0 0 REV__ENST00000461181.1_1_2:219610358-219610996:+|nuORF REV__ENST00000461181.1_1_2:219610358-219610996:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 678.8798217773438 2 678.878385 1355.74222 NaN NaN NaN NaN NaN NaN NaN 52.86 1 53.123 52.623 53.623 0.26345 0 0 0 1.0073 1 24165 24165 1.1933 0.735 1 + 8454 16490 5445 5462 9831 9831 0.07857475705873185 GVKQQRIA 8 Unmodified _GVKQQRIA_ 0 0 0 REV__nc|ENSG00000142621|B1AJZ9-4|FHAD1 REV__nc|ENSG00000142621|B1AJZ9-4|FHAD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.27508544921875 2 450.274701 898.534849 2.3708 0.0010675 0.26678 0.00012013 2.6376 0.0011876 450.2747576375502 89.089 0.40902 89.089 88.882 89.291 0 127 60 3 0 0 0 0.74071 1 46474 46474 2.5775 0.51773 1 41634000 + 8455 17969 5446 5463 9832 9832 0.08152313228515595 GVKQRQPRAK 10 Unmodified _GVKQRQPRAK_ 0 0 0 ENST00000473782.1_1_22:26878136-26879745:-|nuORF;ENST00000479064.5_1_22:26878136-26879789:-|nuORF ENST00000473782.1_1_22:26878136-26879745:-|nuORF ENST00000473782.1_1_22:26878136-26879745:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.3594360351562 2 584.357088 1166.69962 3.2045 0.0018726 -0.54474 -0.00031832 2.6597 0.0015542 584.3565960956815 103.46 0.16226 103.46 103.36 103.52 0 19 10 3 0 0 0 0.93628 1 57023 57023 1.6526 0.17072 1 1042300 8456 8202 5447 5464 9833 9833 0.12294125368293862 GVKQRQPRAK 10 Unmodified _GVKQRQPRAK_ 0 0 0 ENST00000473782.1_1_22:26878136-26879745:-|nuORF;ENST00000479064.5_1_22:26878136-26879789:-|nuORF ENST00000473782.1_1_22:26878136-26879745:-|nuORF ENST00000473782.1_1_22:26878136-26879745:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 584.357088 1166.69962 4.2931 0.0025087 -0.97619 -0.00057045 3.3169 0.0019382 584.3563138329143 103.02 0.16711 103.34 103.26 103.42 0.31863 -0.12326 -0.00027541 NaN 1.6526 13 5 3 NaN NaN NaN NaN 0 NaN NaN 0 1681800 8457 8202 5447 5464 0.12294125368293862 GVKQRQPRAK 10 Unmodified _GVKQRQPRAK_ 0 0 0 ENST00000473782.1_1_22:26878136-26879745:-|nuORF;ENST00000479064.5_1_22:26878136-26879789:-|nuORF ENST00000473782.1_1_22:26878136-26879745:-|nuORF ENST00000473782.1_1_22:26878136-26879745:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 584.357088 1166.69962 3.7582 0.0021961 -0.57333 -0.00033503 3.1849 0.0018611 584.3566216391512 103 0.15319 103.6 103.5 103.65 0.59821 0.13439 0.00019542 NaN 1.6526 14 4 4 NaN NaN NaN NaN 0 NaN NaN 0 3089200 8458 8202 5447 5464 0.12294125368293862 GVKQTVGPKI 10 Unmodified _GVKQTVGPKI_ 0 0 0 REV__ENSG00000106688|ENST00000262352|SLC1A1 REV__ENSG00000106688|ENST00000262352|SLC1A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.8211669921875 2 513.818941 1025.62333 NaN NaN NaN NaN NaN NaN NaN 108.23 1 108.54 108.04 109.04 0.31168 0 0 0 0.99812 1 49914 49914 3.2813 1.4371 1 + 8459 11093 5448 5465 9834 9834 0.11154308748336916 GVKRALHIQL 10 Unmodified _GVKRALHIQL_ 0 0 0 REV__ENSG00000177992|ENST00000325643|SPATA31E1 REV__ENSG00000177992|ENST00000325643|SPATA31E1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.8613891601562 2 567.858932 1133.70331 NaN NaN NaN NaN NaN NaN NaN 35.037 1 35.66 35.16 36.16 0.62294 0 0 0 0.99466 1 16056 16056 3.5965 1.7523 1 + 8460 13748 5449 5466 9835 9835 0.141807951421697 GVKRDQPLWTR 11 Unmodified _GVKRDQPLWTR_ 0 0 0 ENST00000392161.3_1_19:36900716-36909439:-|nuORF ENST00000392161.3_1_19:36900716-36909439:-|nuORF ENST00000392161.3_1_19:36900716-36909439:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 678.3795166015625 2 678.38076 1354.74697 NaN NaN NaN NaN NaN NaN NaN 21.066 1 21.066 20.566 21.566 0 0 0 0 1.0073 1 9427 9427 1.1933 0.735 1 8461 7512 5450 5467 9836 9836 0.08378359848643413 GVKREKGELL 10 Unmodified _GVKREKGELL_ 0 0 0 REV__ENST00000494788.1_1_2:27245086-27245308:+|nuORF REV__ENST00000494788.1_1_2:27245086-27245308:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.89703369140625 3 376.896029 1127.66626 2.5723 0.0009695 0.31244 0.00011776 2.8848 0.0010873 376.8961513557593 17.884 0.25237 18.186 18.083 18.335 0.30158 31 21 2 0 0 0 0.90196 1 8127 8127 1.7423 0 1 160450 + 8462 16831 5451 5468 9837 9837 0.10753078805760197 GVKRFREFLKK 11 Unmodified _GVKRFREFLKK_ 0 0 0 nc|ENSG00000148908|O43665-2|RGS10;nc|ENSG00000148908|O43665-1|RGS10;ENSG00000148908|ENST00000369103|RGS10 nc|ENSG00000148908|O43665-2|RGS10 nc|ENSG00000148908|O43665-2|RGS10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 704.3777465820312 2 704.432796 1406.85104 NaN NaN NaN NaN NaN NaN NaN 73.897 1 74.584 74.084 75.084 0.68662 0 0 0 1.008 1 35683 35683 0.35063 0.043601 1 8463 3620 5452 5469 9838 9838 0.1638868667614588 GVKRFREFLKK 11 Unmodified _GVKRFREFLKK_ 0 0 0 nc|ENSG00000148908|O43665-2|RGS10;nc|ENSG00000148908|O43665-1|RGS10;ENSG00000148908|ENST00000369103|RGS10 nc|ENSG00000148908|O43665-2|RGS10 nc|ENSG00000148908|O43665-2|RGS10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 704.4321899414062 2 704.432796 1406.85104 NaN NaN NaN NaN NaN NaN NaN 81.557 1 82.217 81.717 82.717 0.65998 0 0 0 1.008 1 37579 37579 0.35063 0.35063 1 8464 3620 5452 5469 9839 9839 0.1638868667614588 GVKRRRKRGP 10 Unmodified _GVKRRRKRGP_ 0 0 0 ENSG00000204344|ENST00000685781|STK19;nc|ENSG00000204344|P49842-3|STK19;ENST00000466132.5_1_6:31939873-31948823:+|nuORF;ENST00000492583.5_1_6:31939873-31948823:+|nuORF;nc|ENSG00000204344|P49842-2|STK19;nc|ENSG00000204344|P49842-1|STK19;ENST00000466336.5_1_6:31940188-31948320:+|nuORF;ENST00000473983.5_1_6:31940188-31947331:+|nuORF;ENST00000478486.5_1_6:31940188-31947331:+|nuORF;ENST00000479644.1_1_6:31939773-31940810:+|nuORF ENSG00000204344|ENST00000685781|STK19 ENSG00000204344|ENST00000685781|STK19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 605.04248046875 2 605.391796 1208.76904 NaN NaN NaN NaN NaN NaN NaN 57.537 1 57.537 57.037 58.037 0 0 0 0 1.0012 1 26523 26523 1.6526 1.6526 1 8465 6001 5453 5470 9840 9840 0.1730062910773995 GVKRRWRL 8 Unmodified _GVKRRWRL_ 0 0 0 ENST00000498253.1_1_1:174980847-174983915:-|nuORF;ENSG00000120333|ENST00000476371|MRPS14 ENST00000498253.1_1_1:174980847-174983915:-|nuORF ENST00000498253.1_1_1:174980847-174983915:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.0670471191406 3 357.561315 1069.66212 2.3621 0.00084459 0.70566 0.00025232 3.0677 0.0010969 357.5616681924743 15.341 1.0814 15.647 15.239 16.32 0.306 243 106 3 0 0 0 0.14304 1 6835 6835 1.8442 1.8442 1 424040 8466 2190 5454 5471 9841 9841 0.13007078893360813 GVKRRWRLSRI 11 Unmodified _GVKRRWRLSRI_ 0 0 0 ENST00000498253.1_1_1:174980847-174983915:-|nuORF;ENSG00000120333|ENST00000476371|MRPS14 ENST00000498253.1_1_1:174980847-174983915:-|nuORF ENST00000498253.1_1_1:174980847-174983915:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 713.9488525390625 2 713.946936 1425.87932 NaN NaN NaN NaN NaN NaN NaN 68.868 1 69.528 69.028 70.028 0.65924 0 0 0 1.008 1 31569 31569 0.35063 0.35063 1 8467 2190 5455 5472 9842 9842 0.18341429376118867 GVKSSGSGRVP 11 Unmodified _GVKSSGSGRVP_ 0 0 0 nc|ENSG00000242372|P56537-2|EIF6 nc|ENSG00000242372|P56537-2|EIF6 nc|ENSG00000242372|P56537-2|EIF6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.1148071289062 2 515.78563 1029.55671 NaN NaN NaN NaN NaN NaN NaN 27.614 1 28.4 27.9 28.9 0.78627 0 0 0 1.0073 1 12421 12421 1.1933 0.39971 1 8468 9846 5456 5473 9843 9843 0.043110731864544505 GVKTKQIRD 9 Unmodified _GVKTKQIRD_ 0 0 0 ENSG00000181616|ENST00000322653|OR52H1;ENSG00000171944|ENST00000307388|OR52A5;ENSG00000181074|ENST00000641350|OR52N4 ENSG00000181616|ENST00000322653|OR52H1 ENSG00000181616|ENST00000322653|OR52H1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.8134765625 2 522.811648 1043.60874 3.8561 0.002016 0.11344 5.9309E-05 3.9695 0.0020753 522.8115278912679 91.691 0.25978 91.943 91.805 92.065 0.25197 23 13 2 0 0 0 1.1154 1 42188 42188 2.0598 0 1 547220 8469 4845 5457 5474 9844 9844 0.08868236600187629 GVKTKQIRD 9 Unmodified _GVKTKQIRD_ 0 0 0 ENSG00000181616|ENST00000322653|OR52H1;ENSG00000171944|ENST00000307388|OR52A5;ENSG00000181074|ENST00000641350|OR52N4 ENSG00000181616|ENST00000322653|OR52H1 ENSG00000181616|ENST00000322653|OR52H1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 522.811648 1043.60874 3.5198 0.0018402 -0.082756 -4.3266E-05 3.4371 0.0017969 522.8114194765546 91.295 0.35359 91.957 91.753 92.107 0.66198 0.0067525 -0.00010376 NaN 2.0598 19 14 2 NaN NaN NaN NaN 0 NaN NaN 0 813470 8470 4845 5457 5474 0.08868236600187629 GVKTKQIRKS 10 Unmodified _GVKTKQIRKS_ 0 0 0 ENSG00000181009|ENST00000641181|OR52N5 ENSG00000181009|ENST00000641181|OR52N5 ENSG00000181009|ENST00000641181|OR52N5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 572.8622436523438 2 572.861672 1143.70879 NaN NaN NaN NaN NaN NaN NaN 27.669 1 27.669 27.169 28.169 0 0 0 0 1.0015 1 12463 12463 0.45834 0 1 8471 5275 5458 5475 9845 9845 0.14268473933998393 GVKTSGKVVW 10 Unmodified _GVKTSGKVVW_ 0 0 0 ENSG00000142319|ENST00000270349|SLC6A3;chr5:1420703-1421876|471|113.24|0.92|6.95|-|0|SLC6A3,SLC6A3|1;nc|ENSG00000103546|P23975-3|SLC6A2;ENSG00000103546|ENST00000568943|SLC6A2;nc|ENSG00000103546|P23975-2|SLC6A2;ENSG00000108576|ENST00000650711|SLC6A4;nc|ENSG00000108576|P31645-2|SLC6A4 ENSG00000142319|ENST00000270349|SLC6A3;ENSG00000108576|ENST00000650711|SLC6A4 ENSG00000108576|ENST00000650711|SLC6A4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.810546875 2 530.811116 1059.60768 NaN NaN NaN NaN NaN NaN NaN 26.433 1 27.058 26.558 27.558 0.62505 0 0 0 1.0001 1 12118 12118 1.6526 0 1 8472 3305;1638 5459 5476 9846 9846 0.0802602223127451 GVKVDSLGK 9 Unmodified _GVKVDSLGK_ 0 0 0 ENSG00000172671|ENST00000344646|ZFAND4 ENSG00000172671|ENST00000344646|ZFAND4 ENSG00000172671|ENST00000344646|ZFAND4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.7704162597656 2 451.768917 901.523281 NaN NaN NaN NaN NaN NaN NaN 49.822 1 50.645 50.145 51.145 0.82285 0 0 0 0.90699 1 22696 22696 1.8442 0 1 8473 4883 5460 5477 9847 9847 0.06858071414524147 GVKVKRIIKVN 11 Unmodified _GVKVKRIIKVN_ 0 0 0 nc|ENSG00000131951|Q6ZRR7-2|LRRC9;nc|ENSG00000131951|Q6ZRR7|LRRC9;ENSG00000131951|ENST00000570145|LRRC9 nc|ENSG00000131951|Q6ZRR7-2|LRRC9 nc|ENSG00000131951|Q6ZRR7-2|LRRC9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 627.4252319335938 2 627.424439 1252.83433 NaN NaN NaN NaN NaN NaN NaN 50.853 1 51.513 51.013 52.013 0.65956 0 0 0 1.008 1 23253 23253 0.35063 0 1 8474 2677 5461 5478 9848 9848 0.21802185790215844 GVKVLKQEL 9 Unmodified _GVKVLKQEL_ 0 0 0 ENST00000519177.5_1_8:121583594-121823792:-|nuORF;nc|ENSG00000172164|Q13884-2|SNTB1;ENSG00000172164|ENST00000517992|SNTB1 ENST00000519177.5_1_8:121583594-121823792:-|nuORF ENST00000519177.5_1_8:121583594-121823792:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.55126953125 3 338.54997 1012.62808 2.2243 0.00075302 1.2045 0.00040778 3.4287 0.0011608 338.5505971232673 27.065 0.16355 27.687 27.599 27.763 0.62178 24 11 3 0 0 0 0.95612 1 12425 12425 2.7352 0.82882 1 289260 8475 4859 5462 5479 9849 9849 0.12227192891100458 GVKVLKQEL 9 Unmodified _GVKVLKQEL_ 0 0 0 ENST00000519177.5_1_8:121583594-121823792:-|nuORF;nc|ENSG00000172164|Q13884-2|SNTB1;ENSG00000172164|ENST00000517992|SNTB1 ENST00000519177.5_1_8:121583594-121823792:-|nuORF ENST00000519177.5_1_8:121583594-121823792:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 338.54997 1012.62808 2.3685 0.00080184 0.21823 7.388E-05 2.5867 0.00087572 338.5498201699833 27.478 0.087767 27.741 27.671 27.759 0.26245 0.026841 -0.00071707 NaN 2.7352 9 7 2 NaN NaN NaN NaN 0 NaN NaN 0 251420 8476 4859 5462 5479 0.12227192891100458 GVKVRAQSY 9 Unmodified _GVKVRAQSY_ 0 0 0 ENSG00000073614|ENST00000399788|KDM5A;nc|ENSG00000073614|P29375-2|KDM5A ENSG00000073614|ENST00000399788|KDM5A ENSG00000073614|ENST00000399788|KDM5A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1007.7395629882812 1 1007.56326 1006.55598 3.3125 0.0033376 4.1284 0.0041597 7.441 0.0074973 1007.571583876068 19.041 0.031061 19.339 19.327 19.358 0.29753 4 2 2 0 0 0 0.11288 1 8647 8647 2.0598 1.2661 1 1231600 8477 810 5463 5480 9850 9850 0.05296278537366561 GVKWRILG 8 Unmodified _GVKWRILG_ 0 0 0 ENST00000466526.1_1_1:160147295-160152563:+|nuORF;ENST00000418334.5_1_1:160144048-160152563:+|nuORF ENST00000466526.1_1_1:160147295-160152563:+|nuORF ENST00000466526.1_1_1:160147295-160152563:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.79180908203125 2 464.789987 927.565421 2.9035 0.0013495 1.7041 0.00079205 4.6076 0.0021416 464.79055315902485 26.918 0.361 26.918 26.765 27.126 0 36 21 2 0 0 0 0.7471 2 12099 12099;12179 0.79363 0 1 362840 8478 7731 5464 5481 9851;9852 9851 0.09874091613562541 GVKWRILG 8 Unmodified _GVKWRILG_ 0 0 0 ENST00000466526.1_1_1:160147295-160152563:+|nuORF;ENST00000418334.5_1_1:160144048-160152563:+|nuORF ENST00000466526.1_1_1:160147295-160152563:+|nuORF ENST00000466526.1_1_1:160147295-160152563:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.7919921875 2 464.789987 927.565421 NaN NaN NaN NaN NaN NaN NaN 26.551 1 26.551 26.051 27.051 0 0 0 0 0.99035 1 11955 11955 0.79363 0 1 8479 7731 5464 5481 9853 9853 0.09874091613562541 GVKWRILG 8 Unmodified _GVKWRILG_ 0 0 0 ENST00000466526.1_1_1:160147295-160152563:+|nuORF;ENST00000418334.5_1_1:160144048-160152563:+|nuORF ENST00000466526.1_1_1:160147295-160152563:+|nuORF ENST00000466526.1_1_1:160147295-160152563:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.7923583984375 2 464.789987 927.565421 NaN NaN NaN NaN NaN NaN NaN 25.705 1 26.469 25.969 26.969 0.76356 0 0 0 0.99035 1 11540 11540 0.79363 0 1 8480 7731 5464 5481 9854 9854 0.09874091613562541 GVKWRILG 8 Unmodified _GVKWRILG_ 0 0 0 ENST00000466526.1_1_1:160147295-160152563:+|nuORF;ENST00000418334.5_1_1:160144048-160152563:+|nuORF ENST00000466526.1_1_1:160147295-160152563:+|nuORF ENST00000466526.1_1_1:160147295-160152563:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.792236328125 2 464.789987 927.565421 NaN NaN NaN NaN NaN NaN NaN 25.867 1 26.63 26.13 27.13 0.76356 0 0 0 0.99035 1 11613 11613 0.79363 0 1 8481 7731 5464 5481 9855 9855 0.09874091613562541 GVKWRILG 8 Unmodified _GVKWRILG_ 0 0 0 ENST00000466526.1_1_1:160147295-160152563:+|nuORF;ENST00000418334.5_1_1:160144048-160152563:+|nuORF ENST00000466526.1_1_1:160147295-160152563:+|nuORF ENST00000466526.1_1_1:160147295-160152563:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 464.789987 927.565421 2.7159 0.0012623 1.7686 0.00082203 4.4845 0.0020844 464.7906926115723 26.545 0.30275 26.81 26.69 26.993 0.26489 0.01564 -0.0002006 NaN 0.79363 38 21 2 NaN NaN NaN NaN 0 NaN NaN 0 504590 8482 7731 5464 5481 0.09874091613562541 GVKWRILG 8 Unmodified _GVKWRILG_ 0 0 0 ENST00000466526.1_1_1:160147295-160152563:+|nuORF;ENST00000418334.5_1_1:160144048-160152563:+|nuORF ENST00000466526.1_1_1:160147295-160152563:+|nuORF ENST00000466526.1_1_1:160147295-160152563:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 464.789987 927.565421 2.7112 0.0012602 2.2572 0.0010491 4.9685 0.0023093 464.79080025321747 26.031 0.60482 26.656 26.398 27.003 0.62505 -0.1388 0.00025362 NaN 0.79363 64 43 2 NaN NaN NaN NaN 0 NaN NaN 0 468510 8483 7731 5464 5481 0.09874091613562541 GVLAARVPLEV 11 Unmodified _GVLAARVPLEV_ 0 0 0 REV__ENST00000354694.11_1_22:30987806-30987881:-|nuORF REV__ENST00000354694.11_1_22:30987806-30987881:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.3480834960938 2 562.345323 1122.67609 NaN NaN NaN NaN NaN NaN NaN 65.4 1 66.057 65.557 66.557 0.65672 0 0 0 1.0072 1 29983 29983 1.3295 0.72803 1 + 8484 15533 5465 5482 9856 9856 0.11966266811123205 GVLADVILL 9 Unmodified _GVLADVILL_ 0 0 0 ENSG00000100350|ENST00000397224|FOXRED2;nc|ENSG00000100350|Q8IWF2-2|FOXRED2;ENST00000366463.6_1_22:36886057-36894231:-|nuORF ENSG00000100350|ENST00000397224|FOXRED2 ENSG00000100350|ENST00000397224|FOXRED2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.7946472167969 2 456.791861 911.569169 NaN NaN NaN NaN NaN NaN NaN 27.342 1 28.129 27.629 28.629 0.78627 0 0 0 0.89509 1 12291 12291 4.756 2.1785 1 8485 1209 5466 5483 9857 9857 0.10984716596760791 GVLALIPY 8 Unmodified _GVLALIPY_ 0 0 0 REV__nc|ENSG00000165810|Q6UXG8-2|BTNL9 REV__nc|ENSG00000165810|Q6UXG8-2|BTNL9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.2622985839844 2 423.260197 844.50584 NaN NaN NaN NaN NaN NaN NaN 30.408 1 30.666 30.166 31.166 0.25804 0 0 0 0.99035 1 13839 13839 2.8892 0 1 + 8486 13190 5467 5484 9858 9858 0.07736775879504876 GVLAYFICFLR 11 Unmodified _GVLAYFICFLR_ 0 0 0 REV__ENSG00000182450|ENST00000422670|KCNK4 REV__ENSG00000182450|ENST00000422670|KCNK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 651.3593139648438 2 651.357376 1300.7002 NaN NaN NaN NaN NaN NaN NaN 85.659 1 86.33 85.83 86.83 0.67061 0 0 0 1.0072 1 39446 39446 1.3295 0.13619 1 + 8487 13892 5468 5485 9859 9859 0.06187783973132355 GVLCRVLSIP 10 Unmodified _GVLCRVLSIP_ 0 0 0 ENST00000487162.1_1_22:50966877-50967150:-|nuORF ENST00000487162.1_1_22:50966877-50967150:-|nuORF ENST00000487162.1_1_22:50966877-50967150:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.8145141601562 2 528.815344 1055.61614 NaN NaN NaN NaN NaN NaN NaN 67.125 1 67.782 67.282 68.282 0.65777 0 0 0 0.99733 1 30770 30770 3.9444 1.6417 1 8488 8345 5469 5486 9860 9860 0.09055252876260056 GVLDCEWC 8 Unmodified _GVLDCEWC_ 0 0 0 nc|ENSG00000158966|Q5VU97-2|CACHD1;ENSG00000158966|ENST00000651257|CACHD1 nc|ENSG00000158966|Q5VU97-2|CACHD1 nc|ENSG00000158966|Q5VU97-2|CACHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 462.6823425292969 2 462.683139 923.351724 NaN NaN NaN NaN NaN NaN NaN 58.712 1 58.712 58.212 59.212 0 0 0 0 0.99035 1 27105 27105 0.79363 0 1 8489 4005 5470 5487 9861 9861 -0.11301744939817127 GVLFIVMMFSN 11 Unmodified _GVLFIVMMFSN_ 0 0 0 REV__ENSG00000077147|ENST00000371142|TM9SF3;REV__TM9SF3|p.R249Kfs*19|1|0.08|ENSG00000077147|chr10:96552971-96552974|TTTC/-|frameshift_variant REV__TM9SF3|p.R249Kfs*19|1|0.08|ENSG00000077147|chr10:96552971-96552974|TTTC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 629.32275390625 2 629.322145 1256.62974 2.2042 0.0013871 0.15781 9.9314E-05 2.362 0.0014864 629.3218865889588 104.31 0.44595 104.37 104.09 104.54 0.052986 62 47 2 0 0 0 0.9102 1 56522 56522 1.4819 0 1 440710 + 8490 10551;18237 5471 5488 9862 9862 0.011687425931995676 GVLFLLPKLEY 11 Unmodified _GVLFLLPKLEY_ 0 0 0 ENST00000399702.5_1_16:2653454-2660566:+|nuORF ENST00000399702.5_1_16:2653454-2660566:+|nuORF ENST00000399702.5_1_16:2653454-2660566:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 646.3860473632812 2 646.386657 1290.75876 NaN NaN NaN NaN NaN NaN NaN 52.029 1 52.691 52.191 53.191 0.66198 0 0 0 1.008 1 23792 23792 0.35063 0 1 8491 7604 5472 5489 9863 9863 0.12501163819274552 GVLGKPPK 8 Unmodified _GVLGKPPK_ 0 0 0 REV__ENST00000533086.5_1_19:15228578-15234387:-|nuORF REV__ENST00000533086.5_1_19:15228578-15234387:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.2572021484375 2 398.257988 794.501424 NaN NaN NaN NaN NaN NaN NaN 65.729 1 66.438 65.938 66.938 0.70891 0 0 0 0.99035 1 31109 31109 2.5775 0.27475 1 + 8492 11014 5473 5490 9864 9864 0.09595311456598665 GVLGRERRKI 10 Unmodified _GVLGRERRKI_ 0 0 0 ENST00000422154.6_1_X:102931954-102933554:-|nuORF ENST00000422154.6_1_X:102931954-102933554:-|nuORF ENST00000422154.6_1_X:102931954-102933554:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.374267578125 2 592.372738 1182.73092 4.2857 0.0025387 -1.1336 -0.0006715 3.1521 0.0018672 592.3718323025862 94.109 0.54446 94.369 94.114 94.658 0.25975 45 27 2 0 0 0 0.93534 1 43204 43204 1.8442 0.19162 1 551290 8493 7765 5474 5491 9865 9865 0.1468669840239727 GVLILLNRRLY 11 Unmodified _GVLILLNRRLY_ 0 0 0 REV__ENSG00000203933|ENST00000370540|CXorf66 REV__ENSG00000203933|ENST00000370540|CXorf66 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 665.4220581054688 2 665.421897 1328.82924 NaN NaN NaN NaN NaN NaN NaN 104.4 1 104.45 103.95 104.95 0.052994 0 0 0 1.0082 1 56527 56527 0.35063 0 1 + 8494 14395 5475 5492 9866 9866 0.17797881927594972 GVLISTKRK 9 Unmodified _GVLISTKRK_ 0 0 0 ENST00000450288.3_1_16:15100258-15100348:+|nuORF ENST00000450288.3_1_16:15100258-15100348:+|nuORF ENST00000450288.3_1_16:15100258-15100348:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.3264465332031 2 501.326934 1000.63931 NaN NaN NaN NaN NaN NaN NaN 82.528 1 82.612 82.112 83.112 0.084106 0 0 0 0.90611 1 40768 40768 2.0598 1.4583 1 8495 8006 5476 5493 9867 9867 0.1390201498522856 GVLIVVPRRQ 10 Unmodified _GVLIVVPRRQ_ 0 0 0 REV__ENST00000494062.2_1_13:36910437-36920524:-|nuORF REV__ENST00000494062.2_1_13:36910437-36920524:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.8670043945312 2 568.866757 1135.71896 NaN NaN NaN NaN NaN NaN NaN 24.745 1 25.481 24.981 25.981 0.73623 0 0 0 1.0015 1 11090 11090 0.45834 0.10771 1 + 8496 16821 5477 5494 9868 9868 0.1565308165920669 GVLKFWHFRD 10 Unmodified _GVLKFWHFRD_ 0 0 0 REV__nc|ENSG00000054523|O60333-2|KIF1B REV__nc|ENSG00000054523|O60333-2|KIF1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 652.849365234375 2 652.848564 1303.68258 NaN NaN NaN NaN NaN NaN NaN 68.445 1 69.104 68.604 69.604 0.65924 0 0 0 1.0015 1 31374 31374 0.45834 0 1 + 8497 10363 5478 5495 9869 9869 0.042882047624971165 GVLKIHRKERR 11 Unmodified _GVLKIHRKERR_ 0 0 0 ENST00000436126.5_1_2:177043793-177052894:-|nuORF ENST00000436126.5_1_2:177043793-177052894:-|nuORF ENST00000436126.5_1_2:177043793-177052894:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 696.4412841796875 2 696.438944 1390.86333 NaN NaN NaN NaN NaN NaN NaN 90.997 1 91.248 90.748 91.748 0.25163 0 0 0 1.008 1 41843 41843 0.35063 0 1 8498 7896 5479 5496 9870 9870 0.1835372313919379 GVLLIILIVLL 11 Unmodified _GVLLIILIVLL_ 0 0 0 ENSG00000168899|ENST00000306384|VAMP5 ENSG00000168899|ENST00000306384|VAMP5 ENSG00000168899|ENST00000306384|VAMP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.9285888671875 2 589.927961 1177.84137 NaN NaN NaN NaN NaN NaN NaN 57.404 1 58.073 57.573 58.573 0.66829 0 0 0 1.008 1 26268 26268 0.35063 0.35063 1 8499 4658 5480 5497 9871 9871 0.2595610561807007 GVLLISRILP 10 Unmodified _GVLLISRILP_ 0 0 0 REV__ENSG00000278685|ENST00000615129|IQCA1L REV__ENSG00000278685|ENST00000615129|IQCA1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.90960693359375 3 360.909498 1079.70667 NaN NaN NaN NaN NaN NaN NaN 34.345 1 34.968 34.468 35.468 0.62294 0 0 0 0.99774 1 15735 15735 1.7423 0 1 + 8500 14753 5481 5498 9872 9872 0.17000045196186875 GVLLISRILP 10 Unmodified _GVLLISRILP_ 0 0 0 REV__ENSG00000278685|ENST00000615129|IQCA1L REV__ENSG00000278685|ENST00000615129|IQCA1L MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.5761413574219 3 360.909498 1079.70667 2.5019 0.00090296 -0.25073 -9.0491E-05 2.2512 0.00081247 360.9093237226192 31.93 0.54572 32.547 32.381 32.927 0.61737 37 29 2 0 0 0 0.12676 1 14661 14661 1.7423 0.28716 1 698220 + 8501 14753 5481 5498 9873 9873 0.17000045196186875 GVLLLKMLF 9 Unmodified _GVLLLKMLF_ 0 0 0 REV__ENST00000356218.8_1_14:51955989-52156529:+|nuORF REV__ENST00000356218.8_1_14:51955989-52156529:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.3268432617188 2 517.327556 1032.64056 NaN NaN NaN NaN NaN NaN NaN 101.32 1 101.92 101.42 102.42 0.59717 0 0 0 0.91206 1 46914 46914 0.6015 0 1 + 8502 15552 5482 5499 9874 9874 0.12554513029749614 GVLLRASAE 9 Unmodified _GVLLRASAE_ 0 0 0 REV__ENST00000519756.1_2_10:102732774-102738941:+|nuORF REV__ENST00000519756.1_2_10:102732774-102738941:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.5242614746094 3 305.846787 914.51853 1.9838 0.00060673 -0.26202 -8.0137E-05 1.7218 0.00052659 305.84691553096826 15.122 0.24244 15.429 15.254 15.497 0.3069 31 23 2 0 0 0 0.11393 1 6787 6787 1.0715 0 1 41766 + 8503 10764 5483 5500 9875 9875 0.05785187271749237 GVLLRWWQPRH 11 Unmodified _GVLLRWWQPRH_ 0 0 0 nc|ENSG00000189056|P78509-3|RELN;nc|ENSG00000189056|P78509-2|RELN;ENSG00000189056|ENST00000428762|RELN;ENST00000473945.1_1_7:103122632-103126663:-|nuORF nc|ENSG00000189056|P78509-3|RELN nc|ENSG00000189056|P78509-3|RELN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 724.4056396484375 2 724.407112 1446.79967 NaN NaN NaN NaN NaN NaN NaN 63.488 1 64.21 63.71 64.71 0.72236 0 0 0 1.008 1 29742 29742 0.35063 0 1 8504 5700 5484 5501 9876 9876 0.09414362702091239 GVLLTIWLLP 10 Unmodified _GVLLTIWLLP_ 0 0 0 LTR46-int_dup15|chr6:25836289-25836601:-|1.146732329958959|0.031853035304567|5.17|503.0|15|3|anti-sense LTR46-int_dup15|chr6:25836289-25836601:-|1.146732329958959|0.031853035304567|5.17|503.0|15|3|anti-sense LTR46-int_dup15|chr6:25836289-25836601:-|1.146732329958959|0.031853035304567|5.17|503.0|15|3|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.8579711914062 2 562.857535 1123.70052 NaN NaN NaN NaN NaN NaN NaN 51.366 1 51.366 50.866 51.866 0 0 0 0 1.0015 1 23517 23517 0.45834 0 1 8505 9503 5485 5502 9877 9877 0.14361526964671611 GVLLTRPVI 9 Unmodified _GVLLTRPVI_ 0 0 0 nc|ENSG00000113763|Q6ZN44-3|UNC5A;ENSG00000113763|ENST00000329542|UNC5A nc|ENSG00000113763|Q6ZN44-3|UNC5A nc|ENSG00000113763|Q6ZN44-3|UNC5A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.3163146972656 2 484.318577 966.622602 NaN NaN NaN NaN NaN NaN NaN 44.863 1 45.683 45.183 46.183 0.82075 0 0 0 0.8984 1 20431 20431 3.9444 0 1 8506 1873 5486 5503 9878 9878 0.13795514099274442 GVLLYRRRPE 10 Unmodified _GVLLYRRRPE_ 0 0 0 nc|ENSG00000183023|P32418-2|SLC8A1;nc|ENSG00000183023|P32418-3|SLC8A1;nc|ENSG00000183023|P32418-4|SLC8A1;nc|ENSG00000183023|P32418-5|SLC8A1;ENSG00000183023|ENST00000332839|SLC8A1 nc|ENSG00000183023|P32418-2|SLC8A1 nc|ENSG00000183023|P32418-2|SLC8A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 629.8704833984375 2 629.872571 1257.73059 NaN NaN NaN NaN NaN NaN NaN 23.144 1 23.785 23.285 24.285 0.64051 0 0 0 1.0015 1 10557 10557 0.45834 0.057624 1 8507 5359 5487 5504 9879 9879 0.11203278682569362 GVLMVLFLL 9 Unmodified _GVLMVLFLL_ 0 0 0 ENST00000530991.5_1_11:8740001-8740307:-|nuORF ENST00000530991.5_1_11:8740001-8740307:-|nuORF ENST00000530991.5_1_11:8740001-8740307:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.8155822753906 2 502.814282 1003.61401 2.6516 0.0013333 0.2236 0.00011243 2.8752 0.0014457 502.8142179940185 93.964 0.40002 93.964 93.766 94.166 0 142 53 4 0 0 0 1.101 1 50319 50319 2.3027 0 1 31138000 8508 8720 5488 5505 9880 9880 0.11234824138443855 GVLQKVLG 8 Unmodified _GVLQKVLG_ 0 0 0 REV__ENSG00000169340|ENST00000302451|PDILT REV__ENSG00000169340|ENST00000302451|PDILT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 407.26617431640625 2 407.263271 812.511988 NaN NaN NaN NaN NaN NaN NaN 33.068 1 33.856 33.356 34.356 0.78795 0 0 0 0.99035 1 14961 14961 0.79363 0 1 + 8509 13389 5489 5506 9881 9881 0.09823294111049563 GVLRAAAARSA 11 Unmodified _GVLRAAAARSA_ 0 0 0 REV__ENST00000506477.5_1_5:137906647-137911007:-|nuORF REV__ENST00000506477.5_1_5:137906647-137911007:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.810791015625 2 521.809439 1041.60433 NaN NaN NaN NaN NaN NaN NaN 59.812 1 60.071 59.571 60.571 0.2593 0 0 0 1.0059 1 27391 27391 2.9952 0.69251 1 + 8510 11287 5490 5507 9882 9882 0.0851877217726269 GVLRFQYPSC 10 Unmodified _GVLRFQYPSC_ 0 0 0 REV__ENSG00000007933|ENST00000367755|FMO3 REV__ENSG00000007933|ENST00000367755|FMO3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.296630859375 2 585.292233 1168.56991 3.1902 0.0018672 3.9022 0.0022839 7.0924 0.0041511 585.293966865951 103.11 0.19839 103.11 103 103.2 0 14 8 3 0 0 0 0.93628 1 56855 56855 1.6526 0.58116 1 646890 + 8511 10202 5491 5508 9883 9883 -0.007628120258459603 GVLRGLTGKV 10 Unmodified _GVLRGLTGKV_ 0 0 0 REV__ENSG00000272325|ENST00000607016|NUDT3 REV__ENSG00000272325|ENST00000607016|NUDT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.31939697265625 2 500.319109 998.623664 2.7199 0.0013608 1.1063 0.00055351 3.8262 0.0019143 500.3195767665941 13.278 0.2372 13.585 13.463 13.7 0.30727 29 17 2 0 0 0 0.9406 1 6037 6037 0.45834 0.45834 1 155640 + 8512 14718 5492 5509 9884 9884 0.1242972846819157 GVLRGSKR 8 Unmodified _GVLRGSKR_ 0 0 0 ENST00000311604.7_1_11:1902696-1904704:+|nuORF ENST00000311604.7_1_11:1902696-1904704:+|nuORF ENST00000311604.7_1_11:1902696-1904704:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 436.776123046875 2 436.774868 871.535184 3.2788 0.0014321 -0.27218 -0.00011888 3.0066 0.0013132 436.77472225343325 96.97 0.49235 97.572 97.332 97.824 0.6019 38 23 2 0 0 0 0.74071 1 44516 44516 2.5775 1.7838 1 573060 8513 6872 5493 5510 9885 9885 0.09427732948370249 GVLRHPGGPR 10 Unmodified _GVLRHPGGPR_ 0 0 0 ENST00000473262.5_1_3:124837626-124909342:-|nuORF ENST00000473262.5_1_3:124837626-124909342:-|nuORF ENST00000473262.5_1_3:124837626-124909342:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.305419921875 2 523.304324 1044.5941 3.1871 0.0016678 -0.69548 -0.00036395 2.4916 0.0013039 523.3038944277339 78.776 0.97421 79.027 78.657 79.631 0.25127 105 65 2 0 0 0 0.90196 1 36355 36355 3.5965 1.2938 1 425110 8514 8196 5494 5511 9886 9886 0.0735820924271593 GVLRHPGGPR 10 Unmodified _GVLRHPGGPR_ 0 0 0 ENST00000473262.5_1_3:124837626-124909342:-|nuORF ENST00000473262.5_1_3:124837626-124909342:-|nuORF ENST00000473262.5_1_3:124837626-124909342:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.304931640625 2 523.304324 1044.5941 3.2863 0.0017197 -0.21971 -0.00011497 3.0666 0.0016047 523.3041180473004 78.488 0.97118 79.15 78.761 79.732 0.66198 84 63 2 0 0 0 0.90196 1 36119 36119 3.5965 1.2938 1 593950 8515 8196 5494 5511 9887 9887 0.0735820924271593 GVLRHPGGPR 10 Unmodified _GVLRHPGGPR_ 0 0 0 ENST00000473262.5_1_3:124837626-124909342:-|nuORF ENST00000473262.5_1_3:124837626-124909342:-|nuORF ENST00000473262.5_1_3:124837626-124909342:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.3057250976562 2 523.304324 1044.5941 3.4122 0.0017856 -0.8424 -0.00044083 2.5698 0.0013448 523.3038839446587 80.776 1.6208 81.436 80.742 82.363 0.65998 229 108 3 0 0 0 0.90196 1 37121 37121 3.5965 1.2938 1 1677500 8516 8196 5494 5511 9888 9888 0.0735820924271593 GVLRIMLSA 9 Unmodified _GVLRIMLSA_ 0 0 0 REV__ENST00000474783.2_2_11:31811484-31812594:-|nuORF REV__ENST00000474783.2_2_11:31811484-31812594:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.7962646484375 2 480.288963 958.563372 3.3304 0.0015995 0.62896 0.00030208 3.9593 0.0019016 480.2892799571635 88.382 0.14436 88.633 88.514 88.658 0.25064 10 6 2 0 0 0 0.11288 1 40678 40678 2.0598 0 1 294080 + 8517 16640 5495 5512 9889 9889 0.08243294813428292 GVLRKGGV 8 Unmodified _GVLRKGGV_ 0 0 0 ENST00000564439.5_1_15:66795703-66797150:-|nuORF ENST00000564439.5_1_15:66795703-66797150:-|nuORF ENST00000564439.5_1_15:66795703-66797150:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.4804992675781 2 393.253237 784.491922 NaN NaN NaN NaN NaN NaN NaN 63.296 1 63.296 62.796 63.796 0 0 0 0 0.99035 1 29766 29766 5.7604 0 1 8518 9030 5496 5513 9890 9890 0.09105543171096997 GVLRLLQLLA 10 Unmodified _GVLRLLQLLA_ 0 0 0 ENSG00000155254|ENST00000285605|MARVELD1 ENSG00000155254|ENST00000285605|MARVELD1 ENSG00000155254|ENST00000285605|MARVELD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.3663330078125 2 548.366059 1094.71756 NaN NaN NaN NaN NaN NaN NaN 56.977 1 57.645 57.145 58.145 0.66829 0 0 0 1.0015 1 26068 26068 0.45834 0 1 8519 3855 5497 5514 9891 9891 0.17399447570483062 GVLRLRLLL 9 Unmodified _GVLRLRLLL_ 0 0 0 ENST00000479273.1_1_6:3118974-3124008:+|nuORF;ENST00000490918.5_1_6:3118974-3138432:+|nuORF;ENSG00000137274|ENST00000380379|BPHL ENST00000479273.1_1_6:3118974-3124008:+|nuORF ENST00000479273.1_1_6:3118974-3124008:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.8665771484375 2 526.868769 1051.72298 NaN NaN NaN NaN NaN NaN NaN 24.144 1 24.416 23.916 24.916 0.27129 0 0 0 0.91206 1 10932 10932 0.6015 0.076735 1 8520 3009 5498 5515 9892 9892 0.1991917115292381 GVLRPAWAI 9 Unmodified _GVLRPAWAI_ 0 0 0 ENST00000486698.1_1_7:91948745-91949191:+|nuORF ENST00000486698.1_1_7:91948745-91949191:+|nuORF ENST00000486698.1_1_7:91948745-91949191:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.797607421875 2 491.795269 981.575986 3.0546 0.0015022 1.1289 0.0005552 4.1835 0.0020574 491.79579094563087 45.426 0.72413 45.694 45.205 45.93 0.26768 49 29 2 0 0 0 0.95612 1 20583 20583 4.756 2.1785 1 1692200 8521 8337 5499 5516 9893 9893 0.08446074267976655 GVLRQGIR 8 Unmodified _GVLRQGIR_ 0 0 0 ENSG00000142207|ENST00000382751|URB1 ENSG00000142207|ENST00000382751|URB1 ENSG00000142207|ENST00000382751|URB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 449.7828063964844 2 449.782693 897.550834 NaN NaN NaN NaN NaN NaN NaN 76.643 1 77.307 76.807 77.807 0.66387 0 0 0 0.99035 1 35311 35311 2.5775 0 1 8522 3302 5500 5517 9894 9894 0.09796019465431982 GVLRQHQLR 9 Unmodified _GVLRQHQLR_ 0 0 0 ENST00000319836.7_1_10:45956824-45959774:-|nuORF ENST00000319836.7_1_10:45956824-45959774:-|nuORF ENST00000319836.7_1_10:45956824-45959774:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.83251953125 2 553.830706 1105.64686 3.6003 0.001994 -1.1371 -0.00062974 2.4633 0.0013642 553.8299142132245 80.723 0.62788 81.383 81.259 81.887 0.65998 44 32 2 0 0 0 1.1154 1 37232 37232 2.0598 0.21551 1 433040 8523 6918 5501 5518 9895 9895 0.09826167305504896 GVLRQHQLR 9 Unmodified _GVLRQHQLR_ 0 0 0 ENST00000319836.7_1_10:45956824-45959774:-|nuORF ENST00000319836.7_1_10:45956824-45959774:-|nuORF ENST00000319836.7_1_10:45956824-45959774:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.8323364257812 2 553.830706 1105.64686 NaN NaN NaN NaN NaN NaN NaN 84.11 1 84.772 84.272 85.272 0.66219 0 0 0 0.90611 1 38744 38744 2.0598 0.21551 1 8524 6918 5501 5518 9896 9896 0.09826167305504896 GVLRRGSLRGP 11 Unmodified _GVLRRGSLRGP_ 0 0 0 ENST00000597346.1_1_11:2720620-2721142:-|nuORF ENST00000597346.1_1_11:2720620-2721142:-|nuORF ENST00000597346.1_1_11:2720620-2721142:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.3590698242188 2 584.357088 1166.69962 3.6914 0.0021571 -0.88943 -0.00051975 2.8019 0.0016373 584.356510902898 85.392 1.0548 86.057 85.471 86.526 0.66566 91 50 2 0 0 0 0.91111 1 39359 39359 1.1933 0.50296 1 1243800 8525 9283 5502 5519 9897 9897 0.122941253683166 GVLRRLLRHL 10 Unmodified _GVLRRLLRHL_ 0 0 0 ENST00000405430.5_1_2:263285-264143:-|nuORF ENST00000405430.5_1_2:263285-264143:-|nuORF ENST00000405430.5_1_2:263285-264143:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 616.908447265625 2 616.906748 1231.79894 NaN NaN NaN NaN NaN NaN NaN 52.641 1 52.641 52.141 53.141 0 0 0 0 1.0015 1 24108 24108 0.45834 0.45834 1 8526 7635 5503 5520 9898 9898 0.19231568053078263 GVLRWQQRL 9 Unmodified _GVLRWQQRL_ 0 0 0 ENST00000467936.5_1_3:45542057-45579920:+|nuORF;ENSG00000011376|ENST00000645846|LARS2 ENST00000467936.5_1_3:45542057-45579920:+|nuORF ENST00000467936.5_1_3:45542057-45579920:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.3402099609375 2 578.340907 1154.66726 NaN NaN NaN NaN NaN NaN NaN 66.472 1 66.721 66.221 67.221 0.24848 0 0 0 0.90611 1 30453 30453 2.0598 0.21551 1 8527 413 5504 5521 9899 9899 0.09611337965316125 GVLSEEELAWP 11 Unmodified _GVLSEEELAWP_ 0 0 0 REV__LAD1|p.M354Nfs*77|1|0.32|ENSG00000159166|chr1:201385771-201385772|-/T|frameshift_variant REV__LAD1|p.M354Nfs*77|1|0.32|ENSG00000159166|chr1:201385771-201385772|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 615.3074340820312 2 615.306061 1228.59757 NaN NaN NaN NaN NaN NaN NaN 78.281 1 78.535 78.035 79.035 0.25335 0 0 0 1.0072 1 36050 36050 1.3295 0 1 + 8528 12844 5505 5522 9900 9900 -0.00758630284622086 GVLSYWRKPRN 11 Unmodified _GVLSYWRKPRN_ 0 0 0 nc|ENSG00000158683|Q8TDX9-2|PKD1L1;ENSG00000158683|ENST00000289672|PKD1L1 nc|ENSG00000158683|Q8TDX9-2|PKD1L1 nc|ENSG00000158683|Q8TDX9-2|PKD1L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 688.3880615234375 2 688.383303 1374.75205 NaN NaN NaN NaN NaN NaN NaN 15.192 1 15.403 14.903 15.903 0.21108 0 0 0 1.0072 1 6694 6694 1.3295 0.13619 1 8529 3995 5506 5523 9901 9901 0.07966663711272304 GVLTGRSSSLL 11 Unmodified _GVLTGRSSSLL_ 0 0 0 REV__ENST00000333651.10_1_19:3578522-3579050:+|nuORF REV__ENST00000333651.10_1_19:3578522-3579050:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.318603515625 2 545.316763 1088.61897 3.4792 0.0018973 0.41297 0.0002252 3.8922 0.0021225 545.3169124440693 83.541 1.7312 83.788 83.088 84.819 0.24722 279 102 3 0 0 0 0.91068 1 38839 38839 1.3295 0 1 2574300 + 8530 15399 5507 5524 9902 9902 0.07820799534783873 GVLTLRAKPP 10 Unmodified _GVLTLRAKPP_ 0 0 0 ENST00000535734.5_1_12:15811000-15814989:-|nuORF;nc|ENSG00000151491|Q12929-2|EPS8;ENSG00000151491|ENST00000281172|EPS8 ENST00000535734.5_1_12:15811000-15814989:-|nuORF ENST00000535734.5_1_12:15811000-15814989:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.3348388671875 2 526.334759 1050.65496 NaN NaN NaN NaN NaN NaN NaN 87.687 1 87.938 87.438 88.438 0.25064 0 0 0 1.0001 1 40353 40353 1.6526 0.32309 1 8531 3713 5508 5525 9903 9903 0.13166301502269562 GVLTMLLH 8 Unmodified _GVLTMLLH_ 0 0 0 REV__nc|ENSG00000114631|Q9NZ53-2|PODXL2 REV__nc|ENSG00000114631|Q9NZ53-2|PODXL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 442.2602233886719 2 442.257131 882.499709 NaN NaN NaN NaN NaN NaN NaN 97.324 1 97.613 97.113 98.113 0.28923 0 0 0 0.99035 1 44702 44702 5.2307 0.47466 1 + 8532 11326 5509 5526 9904 9904 0.05375934376343139 GVLTQLSPLA 10 Unmodified _GVLTQLSPLA_ 0 0 0 REV__ENST00000482162.1_1_3:119176866-119180963:-|nuORF REV__ENST00000482162.1_1_3:119176866-119180963:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.79901123046875 2 499.797675 997.580796 NaN NaN NaN NaN NaN NaN NaN 104.75 1 104.8 104.3 105.3 0.050888 0 0 0 0.99812 1 56688 56688 3.2813 0.28607 1 + 8533 13690 5510 5527 9905 9905 0.08190913620092033 GVLTRLRAD 9 Unmodified _GVLTRLRAD_ 0 0 0 nc|ENSG00000095752|P20809-2|IL11;ENSG00000095752|ENST00000264563|IL11 nc|ENSG00000095752|P20809-2|IL11 nc|ENSG00000095752|P20809-2|IL11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.7998962402344 2 500.79854 999.582528 3.3979 0.0017017 0.20837 0.00010435 3.6063 0.001806 500.79858293442203 88.884 0.3623 89.562 89.423 89.785 0.67818 25 15 2 0 0 0 1.1154 1 40949 40949 2.0598 0.21551 1 1353500 8534 1122 5511 5528 9906 9906 0.08271967428686366 GVLTRSDV 8 Unmodified _GVLTRSDV_ 0 0 0 ENSG00000214237|ENST00000465419|MINDY4B ENSG00000214237|ENST00000465419|MINDY4B ENSG00000214237|ENST00000465419|MINDY4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 423.7386169433594 2 423.737617 845.460681 2.9084 0.0012324 -0.78806 -0.00033393 2.1203 0.00089846 423.7373246946916 78.04 0.25044 78.702 78.573 78.824 0.66198 20 13 2 0 0 0 0.7441 1 35961 35961 2.3027 0 1 435690 8535 6111 5512 5529 9907 9907 0.03176925346326698 GVLTYLVYKLA 11 Unmodified _GVLTYLVYKLA_ 0 0 0 REV__nc|ENSG00000100731|Q96RV3-4|PCNX1 REV__nc|ENSG00000100731|Q96RV3-4|PCNX1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.8720703125 2 620.371007 1238.72746 4.0026 0.0024831 -1.2014 -0.00074531 2.8012 0.0017378 620.3697952540223 90.021 1.2241 90.272 89.54 90.764 0.25136 98 57 2 0 0 0 0.13295 1 41167 41167 2.9952 1.5133 1 1856200 + 8536 10845 5513 5530 9908 9908 0.1176459078519656 GVLVVSILLL 10 Unmodified _GVLVVSILLL_ 0 0 0 ENST00000470943.1_1_19:55177267-55178470:+|nuORF;nc|ENSG00000186818|Q8NHJ6-2|LILRB4;nc|ENSG00000186818|Q8NHJ6|LILRB4;ENSG00000186818|ENST00000695418|LILRB4;nc|ENSG00000186818|Q8NHJ6-3|LILRB4 ENST00000470943.1_1_19:55177267-55178470:+|nuORF ENST00000470943.1_1_19:55177267-55178470:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.3554077148438 2 513.352086 1024.68962 NaN NaN NaN NaN NaN NaN NaN 20.078 1 20.078 19.578 20.578 0 0 0 0 1.0018 1 8970 8970 0.45834 0 1 8537 5587 5514 5531 9909 9909 0.1782612459039683 GVLVVSILLL 10 Unmodified _GVLVVSILLL_ 0 0 0 ENST00000470943.1_1_19:55177267-55178470:+|nuORF;nc|ENSG00000186818|Q8NHJ6-2|LILRB4;nc|ENSG00000186818|Q8NHJ6|LILRB4;ENSG00000186818|ENST00000695418|LILRB4;nc|ENSG00000186818|Q8NHJ6-3|LILRB4 ENST00000470943.1_1_19:55177267-55178470:+|nuORF ENST00000470943.1_1_19:55177267-55178470:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.3547973632812 2 513.352086 1024.68962 NaN NaN NaN NaN NaN NaN NaN 20.223 1 20.223 19.723 20.723 0 0 0 0 1.0018 1 9039 9039 0.45834 0 1 8538 5587 5514 5531 9910 9910 0.1782612459039683 GVLWCLLWLWD 11 Unmodified _GVLWCLLWLWD_ 0 0 0 ENST00000609742.2_1_10:33177235-33177406:-|nuORF ENST00000609742.2_1_10:33177235-33177406:-|nuORF ENST00000609742.2_1_10:33177235-33177406:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 702.364013671875 2 702.362659 1402.71076 NaN NaN NaN NaN NaN NaN NaN 77.077 1 77.638 77.138 78.138 0.56091 0 0 0 1.0071 1 37371 37371 1.4819 0 1 8539 9352 5515 5532 9911 9911 0.025517666275618467 GVLWLRLFK 9 Unmodified _GVLWLRLFK_ 0 0 0 REV__ENST00000313219.8_1_8:23116582-23116627:+|nuORF REV__ENST00000313219.8_1_8:23116582-23116627:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.2747802734375 2 566.355494 1130.69644 NaN NaN NaN NaN NaN NaN NaN 17.437 1 17.437 16.937 17.937 0 0 0 0 0.91206 1 7746 7746 0.6015 0 1 + 8540 15277 5516 5533 9912 9912 0.1363148226159865 GVLWSEQCPC 10 Unmodified _GVLWSEQCPC_ 0 0 0 ENST00000515359.6_1_3:49572424-49572799:+|nuORF ENST00000515359.6_1_3:49572424-49572799:+|nuORF ENST00000515359.6_1_3:49572424-49572799:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.2421875 2 561.241352 1120.46815 NaN NaN NaN NaN NaN NaN NaN 33.001 1 33.001 32.501 33.501 0 0 0 0 0.99733 1 14947 14947 3.9444 1.8846 1 8541 8595 5517 5534 9913 9913 -0.08726426439898205 GVLYLCLLFRR 11 Unmodified _GVLYLCLLFRR_ 0 0 0 REV__ENST00000462099.1_1_2:103348834-103353269:-|nuORF REV__ENST00000462099.1_1_2:103348834-103353269:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 677.2864990234375 2 676.8972 1351.77985 NaN NaN NaN NaN NaN NaN NaN 69.887 1 70.548 70.048 71.048 0.66071 0 0 0 1.0071 1 32043 32043 1.4819 0.15237 1 + 8542 12050 5518 5535 9914 9914 0.11802850647109153 GVLYRLRFQSS 11 Unmodified _GVLYRLRFQSS_ 0 0 0 REV__ENSG00000136891|ENST00000374902|TEX10 REV__ENSG00000136891|ENST00000374902|TEX10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 663.3727416992188 2 663.369861 1324.72517 NaN NaN NaN NaN NaN NaN NaN 104.77 1 104.77 104.27 105.27 0 0 0 0 1.0072 1 57623 57623 1.3295 0.87119 1 + 8543 12086 5519 5536 9915 9915 0.07579555100096513 GVMEIKQKRR 10 Unmodified _GVMEIKQKRR_ 0 0 0 ENST00000540054.5_1_11:95523392-95523434:-|nuORF ENST00000540054.5_1_11:95523392-95523434:-|nuORF ENST00000540054.5_1_11:95523392-95523434:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 622.46533203125 2 622.866431 1243.71831 NaN NaN NaN NaN NaN NaN NaN 32.873 1 33.661 33.161 34.161 0.78795 0 0 0 1.0015 1 14873 14873 0.45834 0 1 8544 8800 5520 5537 9916 9916 0.10619918947850238 GVMIKLIPR 9 Unmodified _GVMIKLIPR_ 0 0 0 ENST00000509378.1_1_4:165110527-165110881:+|nuORF ENST00000509378.1_1_4:165110527-165110881:+|nuORF ENST00000509378.1_1_4:165110527-165110881:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.9640502929688 2 513.828255 1025.64196 NaN NaN NaN NaN NaN NaN NaN 45.122 1 45.948 45.448 46.448 0.82621 0 0 0 0.90611 1 20548 20548 2.0598 0.21551 1 8545 8541 5521 5538 9917 9917 0.1301614711851471 GVMKEQTK 8 Unmodified _GVMKEQTK_ 0 0 0 REV__ENSG00000140450|ENST00000268042|ARRDC4 REV__ENSG00000140450|ENST00000268042|ARRDC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 460.74908447265625 2 460.747127 919.479702 2.7511 0.0012676 0.019656 9.0565E-06 2.7708 0.0012766 460.747726111778 84.28 0.39453 84.528 84.369 84.763 0.24757 53 22 3 0 0 0 0.74071 1 38815 38815 2.5775 0.27475 1 388390 + 8546 12247 5522 5539 9918 9918 0.01674138645739731 GVMKKIHSL 9 Unmodified _GVMKKIHSL_ 0 0 0 REV__ENST00000510666.1_1_5:68840710-68849495:+|nuORF REV__ENST00000510666.1_1_5:68840710-68849495:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.8022766113281 2 506.802237 1011.58992 3.39 0.0017181 -1.9912 -0.0010091 1.3988 0.00070892 506.80117518910345 37.482 0.25557 37.743 37.6 37.856 0.26083 11 7 2 0 0 0 0.89849 1 17078 17078 5.2307 0 1 398530 + 8547 14301 5523 5540 9919 9919 0.08458983704770162 GVMKYFSFVN 10 Unmodified _GVMKYFSFVN_ 0 0 0 ENST00000534336.1_1_11:65268519-65268612:+|nuORF ENST00000534336.1_1_11:65268519-65268612:+|nuORF ENST00000534336.1_1_11:65268519-65268612:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 596.2976684570312 2 596.296985 1190.57942 NaN NaN NaN NaN NaN NaN NaN 15.38 1 15.591 15.091 16.091 0.21108 0 0 0 1.0001 1 6782 6782 1.6526 0.17072 1 8548 8753 5524 5541 9920 9920 -0.00825043740314868 GVMLKRKP 8 Unmodified _GVMLKRKP_ 0 0 0 REV__ENST00000452510.6_2_5:134102740-134109419:+|nuORF REV__ENST00000452510.6_2_5:134102740-134109419:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.7921447753906 2 464.791672 927.568792 NaN NaN NaN NaN NaN NaN NaN 25.575 1 26.339 25.839 26.839 0.76356 0 0 0 0.99035 1 11481 11481 2.5775 0.27475 1 + 8549 16419 5525 5542 9921 9921 0.10211018395909832 GVMQQIQRHC 10 Unmodified _GVMQQIQRHC_ 0 0 0 ENSG00000102781|ENST00000380615|KATNAL1 ENSG00000102781|ENST00000380615|KATNAL1 ENSG00000102781|ENST00000380615|KATNAL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 600.2940063476562 2 600.292242 1198.56993 NaN NaN NaN NaN NaN NaN NaN 18.207 1 18.407 17.907 18.907 0.20057 0 0 0 1.0001 1 8080 8080 1.6526 0.17072 1 8550 1353 5526 5543 9922 9922 -0.0214113529750648 GVMVARRKREH 11 Unmodified _GVMVARRKREH_ 0 0 0 NOTCH3|p.E1812Rfs*13|1|0.35|ENSG00000074181|chr19:15166020-15166020|C/-|frameshift_variant;ENSG00000074181|ENST00000263388|NOTCH3 NOTCH3|p.E1812Rfs*13|1|0.35|ENSG00000074181|chr19:15166020-15166020|C/-|frameshift_variant NOTCH3|p.E1812Rfs*13|1|0.35|ENSG00000074181|chr19:15166020-15166020|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 669.8783569335938 2 669.880404 1337.74626 NaN NaN NaN NaN NaN NaN NaN 85.765 1 86.014 85.514 86.514 0.24857 0 0 0 1.0071 1 39465 39465 1.4819 0.15237 1 8551 816 5527 5544 9923 9923 0.09089241927949843 GVMWCYVYFRS 11 Unmodified _GVMWCYVYFRS_ 0 0 0 REV__ENST00000473145.5_1_3:52445201-52445348:+|nuORF REV__ENST00000473145.5_1_3:52445201-52445348:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 705.8192138671875 2 705.820301 1409.62605 NaN NaN NaN NaN NaN NaN NaN 26.207 1 26.207 25.707 26.707 0 0 0 0 1.008 1 11786 11786 0.35063 0 1 + 8552 16624 5528 5545 9924 9924 -0.06237927180700353 GVNFLFFFF 9 Unmodified _GVNFLFFFF_ 0 0 0 ENST00000588617.1_1_17:57915376-57915481:+|nuORF ENST00000588617.1_1_17:57915376-57915481:+|nuORF ENST00000588617.1_1_17:57915376-57915481:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.4254150390625 2 569.292028 1136.5695 NaN NaN NaN NaN NaN NaN NaN 15.682 1 15.893 15.393 16.393 0.21108 0 0 0 0.91206 1 6921 6921 0.6015 0 1 8553 9207 5529 5546 9925 9925 0.0066813631660807005 GVNHIKSLLRE 11 Unmodified _GVNHIKSLLRE_ 0 0 0 REV__nc|ENSG00000116062|P52701-2|MSH6 REV__nc|ENSG00000116062|P52701-2|MSH6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3726806640625 2 633.369861 1264.72517 4.0646 0.0025744 -0.70728 -0.00044797 3.3573 0.0021264 633.369310370016 89.385 1.5481 90.063 89.107 90.655 0.67818 130 71 3 0 0 0 0.91111 1 41213 41213 1.1933 0.735 1 1256400 + 8554 17905 5530 5547 9926 9926 0.10339555100085818 GVNHNTWL 8 Unmodified _GVNHNTWL_ 0 0 0 chr2:27104377-27110622|367|10.8|0.61|4.15|-|2|TE_info:L1MEd,L1MEd_dup2077,L1,LINE,donor,+,27110622,27110684|CGREF1,None|1 chr2:27104377-27110622|367|10.8|0.61|4.15|-|2|TE_info:L1MEd,L1MEd_dup2077,L1,LINE,donor,+,27110622,27110684|CGREF1,None|1 chr2:27104377-27110622|367|10.8|0.61|4.15|-|2|TE_info:L1MEd,L1MEd_dup2077,L1,LINE,donor,+,27110622,27110684|CGREF1,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 313.85986328125 3 314.159365 939.456264 NaN NaN NaN NaN NaN NaN NaN 12.716 1 13.359 12.859 13.859 0.64272 0 0 0 0.99035 1 5708 5708 1.8442 0 1 8555 162 5531 5548 9927 9927 -0.015885390765674856 GVNKKRGLRT 10 Unmodified _GVNKKRGLRT_ 0 0 0 nc|ENSG00000084693|Q8NDL9-3|AGBL5;nc|ENSG00000084693|Q8NDL9-2|AGBL5;ENSG00000084693|ENST00000360131|AGBL5 nc|ENSG00000084693|Q8NDL9-3|AGBL5 nc|ENSG00000084693|Q8NDL9-3|AGBL5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.8513793945312 2 564.851638 1127.68872 NaN NaN NaN NaN NaN NaN NaN 10.096 1 10.392 9.8918 10.892 0.2956 0 0 0 1.0015 1 4460 4460 0.45834 0 1 8556 960 5532 5549 9928 9928 0.1299872299400704 GVNPRVGI 8 Unmodified _GVNPRVGI_ 0 0 0 ENSG00000176399|ENST00000325870|DMRTA1 ENSG00000176399|ENST00000325870|DMRTA1 ENSG00000176399|ENST00000325870|DMRTA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.55413818359375 2 406.24287 810.471186 NaN NaN NaN NaN NaN NaN NaN 14.404 1 14.711 14.211 15.211 0.3069 0 0 0 0.99035 1 6518 6518 2.8892 0 1 8557 5077 5533 5550 9929 9929 0.05836952791423755 GVNQPKRI 8 Unmodified _GVNQPKRI_ 0 0 0 nc|ENSG00000166226|P78371-2|CCT2;ENSG00000166226|ENST00000299300|CCT2 nc|ENSG00000166226|P78371-2|CCT2 nc|ENSG00000166226|P78371-2|CCT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.276611328125 2 456.274701 910.534849 2.8038 0.0012793 0.61072 0.00027866 3.4145 0.0015579 456.2750747987906 14.89 0.40531 14.89 14.755 15.161 0 66 46 2 0 0 0 0.70146 1 6583 6583 5.7604 0 1 141110 8558 4462 5534 5551 9930 9930 0.07600313228499544 GVNQPKRI 8 Unmodified _GVNQPKRI_ 0 0 0 nc|ENSG00000166226|P78371-2|CCT2;ENSG00000166226|ENST00000299300|CCT2 nc|ENSG00000166226|P78371-2|CCT2 nc|ENSG00000166226|P78371-2|CCT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.2759704589844 2 456.274701 910.534849 2.7807 0.0012687 -0.14133 -6.4484E-05 2.6393 0.0012043 456.2746269654658 14.553 0.19409 14.78 14.674 14.868 0.22622 24 14 2 0 0 0 0.70146 1 6375 6375 5.7604 0 1 280590 8559 4462 5534 5551 9931 9931 0.07600313228499544 GVNRVNLPN 9 Unmodified _GVNRVNLPN_ 0 0 0 REV__ENSG00000128000|ENST00000434248|ZNF780B REV__ENSG00000128000|ENST00000434248|ZNF780B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.77752685546875 2 491.775065 981.535577 3.2744 0.0016103 1.0187 0.00050096 4.2931 0.0021112 491.77548194449366 15.005 0.27988 15.659 15.551 15.831 0.65356 39 25 2 0 0 0 1.1154 1 6829 6829 2.0598 1.2661 1 80460 + 8560 11756 5535 5552 9932 9932 0.04407107877557337 GVNRVNLPN 9 Unmodified _GVNRVNLPN_ 0 0 0 REV__ENSG00000128000|ENST00000434248|ZNF780B REV__ENSG00000128000|ENST00000434248|ZNF780B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 491.775065 981.535577 2.9476 0.0014495 0.42207 0.00020756 3.3696 0.0016571 491.77544574144326 15.003 0.21204 15.31 15.174 15.386 0.3069 -0.17432 -0.00019037 NaN 2.0598 35 22 2 NaN NaN NaN NaN 0 NaN NaN 0 66394 + 8561 11756 5535 5552 0.04407107877557337 GVNRVNLPN 9 Unmodified _GVNRVNLPN_ 0 0 0 REV__ENSG00000128000|ENST00000434248|ZNF780B REV__ENSG00000128000|ENST00000434248|ZNF780B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 491.775065 981.535577 3.2744 0.0016103 1.0187 0.00050096 4.2931 0.0021112 491.77548194449366 15.005 0.27988 15.659 15.551 15.831 0.65356 0.17432 0.00039642 NaN 2.0598 39 25 2 NaN NaN NaN NaN 0 NaN NaN 0 80460 + 8562 11756 5535 5552 0.04407107877557337 GVNWHAKP 8 Unmodified _GVNWHAKP_ 0 0 0 nc|ENSG00000060491|Q9NZT2-2|OGFR;ENSG00000060491|ENST00000290291|OGFR nc|ENSG00000060491|Q9NZT2-2|OGFR nc|ENSG00000060491|Q9NZT2-2|OGFR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 454.74139404296875 2 454.740494 907.466435 NaN NaN NaN NaN NaN NaN NaN 93.91 1 94.541 94.041 95.041 0.63115 0 0 0 0.99035 1 43194 43194 0.79363 0 1 8563 641 5536 5553 9933 9933 0.00900068648661545 GVPFSRPPL 9 Unmodified _GVPFSRPPL_ 0 0 0 nc|ENSG00000172824|Q5XG92-5|CES4A;nc|ENSG00000172824|Q5XG92-8|CES4A;nc|ENSG00000172824|Q5XG92-2|CES4A;ENSG00000172824|ENST00000648724|CES4A nc|ENSG00000172824|Q5XG92-5|CES4A nc|ENSG00000172824|Q5XG92-5|CES4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.8438415527344 2 485.279452 968.544351 3.4884 0.0016929 3.4029 0.0016514 6.8914 0.0033442 485.2813048233997 12.644 0.16859 13.287 13.176 13.345 0.64272 7 4 3 0 0 0 1.178 1 5644 5644 2.0598 1.3694 1 1245500 8564 4894 5537 5554 9934 9934 0.05882081514039328 GVPHRRRL 8 Unmodified _GVPHRRRL_ 0 0 0 REV__ENST00000562859.5_2_15:42565693-42566462:+|nuORF REV__ENST00000562859.5_2_15:42565693-42566462:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.80859375 2 495.807034 989.599515 3.3507 0.0016613 -0.551 -0.00027319 2.7997 0.0013881 495.8066718820362 84.801 0.71986 85.466 85.257 85.977 0.66566 70 36 3 0 0 0 0.73686 1 39104 39104 2.8892 0 1 694480 + 8565 17376 5538 5555 9935 9935 0.10429932825161359 GVPICHQTQ 9 Unmodified _GVPICHQTQ_ 0 0 0 ENSG00000203782|ENST00000368742|LORICRIN ENSG00000203782|ENST00000368742|LORICRIN ENSG00000203782|ENST00000368742|LORICRIN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.742431640625 2 491.742376 981.4702 NaN NaN NaN NaN NaN NaN NaN 36.508 1 37.302 36.802 37.802 0.79342 0 0 0 0.90511 1 16545 16545 2.3027 1.5091 1 8566 5975 5539 5556 9936 9936 -0.021276296397900296 GVPIIAKLIK 10 Unmodified _GVPIIAKLIK_ 0 0 0 ENSG00000126947|ENST00000372829|ARMCX1 ENSG00000126947|ENST00000372829|ARMCX1 ENSG00000126947|ENST00000372829|ARMCX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.363525390625 2 526.365527 1050.7165 NaN NaN NaN NaN NaN NaN NaN 29.818 1 30.076 29.576 30.576 0.25804 0 0 0 1.0015 1 13573 13573 0.45834 0.057624 1 8567 2471 5540 5557 9937 9937 0.19317233201559247 GVPKYRGRR 9 Unmodified _GVPKYRGRR_ 0 0 0 ENST00000322313.8_1_2:128458880-128459129:-|nuORF ENST00000322313.8_1_2:128458880-128459129:-|nuORF ENST00000322313.8_1_2:128458880-128459129:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.8267211914062 2 544.825424 1087.63629 NaN NaN NaN NaN NaN NaN NaN 94.106 1 94.366 93.866 94.866 0.25975 0 0 0 0.90611 1 43247 43247 2.0598 0.21551 1 8568 6939 5541 5558 9938 9938 0.09598184651076735 GVPLRLSVS 9 Unmodified _GVPLRLSVS_ 0 0 0 REV__ENSG00000183090|ENST00000329798|FREM3 REV__ENSG00000183090|ENST00000329798|FREM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 309.8597106933594 3 309.858915 926.554916 2.0921 0.00064824 0.42844 0.00013276 2.5205 0.000781 309.85908915613203 12.786 0.10352 12.786 12.729 12.833 0 10 4 3 0 0 0 0.95612 1 5596 5596 2.7352 1.2533 1 1123500 + 8569 13917 5542 5559 9939 9939 0.08870064168468161 GVPLSLPY 8 Unmodified _GVPLSLPY_ 0 0 0 ENST00000295488.7_1_4:84376870-84377002:-|nuORF ENST00000295488.7_1_4:84376870-84377002:-|nuORF ENST00000295488.7_1_4:84376870-84377002:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.2418518066406 2 423.242004 844.469455 NaN NaN NaN NaN NaN NaN NaN 75.363 1 75.62 75.12 76.12 0.25704 0 0 0 0.99035 1 34676 34676 2.5775 0 1 8570 6759 5543 5560 9940 9940 0.04099898982804007 GVPQRSRRQVR 11 Unmodified _GVPQRSRRQVR_ 0 0 0 REV__ENST00000252597.7_2_19:17374874-17375065:-|nuORF REV__ENST00000252597.7_2_19:17374874-17375065:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 669.894287109375 2 669.8949 1337.77525 NaN NaN NaN NaN NaN NaN NaN 21.759 1 21.759 21.259 22.259 0 0 0 0 1.008 1 9748 9748 0.35063 0 1 + 8571 14911 5544 5561 9941 9941 0.11987102548573603 GVPRFPRT 8 Unmodified _GVPRFPRT_ 0 0 0 nc|ENSG00000221990|Q8N2X6|EXOC3-AS1 nc|ENSG00000221990|Q8N2X6|EXOC3-AS1 nc|ENSG00000221990|Q8N2X6|EXOC3-AS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.2715759277344 2 465.269419 928.524284 3.5467 0.0016502 1.1077 0.00051538 4.6544 0.0021656 465.26976633002647 99.386 0.10236 99.694 99.652 99.754 0.30835 6 5 2 0 0 0 0.70799 1 45929 45929 5.2307 2.6532 1 1231600 8572 9834 5545 5562 9942 9942 0.05716330574091444 GVPRFPRT 8 Unmodified _GVPRFPRT_ 0 0 0 nc|ENSG00000221990|Q8N2X6|EXOC3-AS1 nc|ENSG00000221990|Q8N2X6|EXOC3-AS1 nc|ENSG00000221990|Q8N2X6|EXOC3-AS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 465.269419 928.524284 3.0155 0.001403 0.78529 0.00036537 3.8008 0.0017684 465.2698628754215 99.281 0.12585 99.878 99.815 99.941 0.59748 0.092031 -0.00020046 NaN 5.2307 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 843020 8573 9834 5545 5562 0.05716330574091444 GVPRKAEERW 10 Unmodified _GVPRKAEERW_ 0 0 0 ENSG00000147485|ENST00000356297|PXDNL ENSG00000147485|ENST00000356297|PXDNL ENSG00000147485|ENST00000356297|PXDNL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 614.3353271484375 2 614.333279 1226.652 NaN NaN NaN NaN NaN NaN NaN 14.29 1 14.938 14.438 15.438 0.6482 0 0 0 1.0012 1 6430 6430 1.6526 1.1943 1 8574 3568 5546 5563 9943 9943 0.0477442637745753 GVPRLRQLKV 10 Unmodified _GVPRLRQLKV_ 0 0 0 nc|ENSG00000107593|Q9P0L9-4|PKD2L1;nc|ENSG00000107593|Q9P0L9-3|PKD2L1;nc|ENSG00000107593|Q9P0L9-2|PKD2L1;nc|ENSG00000107593|Q9P0L9-5|PKD2L1;ENSG00000107593|ENST00000318222|PKD2L1 nc|ENSG00000107593|Q9P0L9-4|PKD2L1 nc|ENSG00000107593|Q9P0L9-4|PKD2L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 583.3797607421875 2 583.380032 1164.74551 NaN NaN NaN NaN NaN NaN NaN 38.495 1 39.293 38.793 39.793 0.79762 0 0 0 1.0015 1 17437 17437 0.45834 0 1 8575 1601 5547 5564 9944 9944 0.1697277055052382 GVPRLRQLKV 10 Unmodified _GVPRLRQLKV_ 0 0 0 nc|ENSG00000107593|Q9P0L9-4|PKD2L1;nc|ENSG00000107593|Q9P0L9-3|PKD2L1;nc|ENSG00000107593|Q9P0L9-2|PKD2L1;nc|ENSG00000107593|Q9P0L9-5|PKD2L1;ENSG00000107593|ENST00000318222|PKD2L1 nc|ENSG00000107593|Q9P0L9-4|PKD2L1 nc|ENSG00000107593|Q9P0L9-4|PKD2L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.3789672851562 2 583.380032 1164.74551 NaN NaN NaN NaN NaN NaN NaN 41.201 1 41.845 41.345 42.345 0.64451 0 0 0 1.0015 1 18846 18846 0.45834 0 1 8576 1601 5547 5564 9945 9945 0.1697277055052382 GVPRRLGRRRR 11 Unmodified _GVPRRLGRRRR_ 0 0 0 REV__ENST00000221265.7_1_19:39880905-39881811:-|nuORF REV__ENST00000221265.7_1_19:39880905-39881811:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 689.9387817382812 2 689.939976 1377.8654 NaN NaN NaN NaN NaN NaN NaN 44.834 1 45.102 44.602 45.602 0.26768 0 0 0 1.008 1 20492 20492 0.35063 0 1 + 8577 14823 5548 5565 9946 9946 0.191581966676722 GVPTRARRLR 10 Unmodified _GVPTRARRLR_ 0 0 0 ENST00000436072.6_1_7:37955747-37956332:-|nuORF ENST00000436072.6_1_7:37955747-37956332:-|nuORF ENST00000436072.6_1_7:37955747-37956332:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.441162109375 2 591.37053 1180.72651 NaN NaN NaN NaN NaN NaN NaN 79.842 1 79.842 79.342 80.342 0 0 0 0 0.98866 1 39521 39521 7.2892 4.0079 1 8578 7895 5549 5566 9947 9947 0.14337233979495068 GVPTVALSLHF 11 Unmodified _GVPTVALSLHF_ 0 0 0 nc|ENSG00000121716|Q9UKJ0-3|PILRB nc|ENSG00000121716|Q9UKJ0-3|PILRB nc|ENSG00000121716|Q9UKJ0-3|PILRB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 380.88616943359375 3 380.885241 1139.63389 1.9898 0.0007579 0.72072 0.00027451 2.7106 0.0010324 380.8855311784742 62.631 0.26902 63.362 63.186 63.455 0.73077 75 41 2 0 0 0 0.88075 1 29155 29155 1.3296 0 1 5966500 8579 9618 5550 5567 9948 9948 0.06966291402750358 GVPVEKVRLT 10 Unmodified _GVPVEKVRLT_ 0 0 0 nc|ENSG00000101251|Q5TEA6-2|SEL1L2;ENSG00000101251|ENST00000284951|SEL1L2 nc|ENSG00000101251|Q5TEA6-2|SEL1L2 nc|ENSG00000101251|Q5TEA6-2|SEL1L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.5602111816406 3 366.560758 1096.66044 2.7053 0.00099165 -0.72319 -0.00026509 1.9821 0.00072655 366.5602478980726 20.796 0.22229 21.449 21.353 21.576 0.65346 29 16 2 0 0 0 0.76068 1 9445 9445 10.315 4.1234 1 216310 8580 1276 5551 5568 9949 9949 0.1159798029407284 GVPVLHLISTP 11 Unmodified _GVPVLHLISTP_ 0 0 0 nc|ENSG00000011478|Q9NXS2-3|QPCTL;ENSG00000011478|ENST00000012049|QPCTL nc|ENSG00000011478|Q9NXS2-3|QPCTL nc|ENSG00000011478|Q9NXS2-3|QPCTL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.8399658203125 2 566.839874 1131.66519 NaN NaN NaN NaN NaN NaN NaN 95.62 1 96.228 95.728 96.728 0.60769 0 0 0 1.0072 1 43971 43971 1.3295 0.63916 1 8581 418 5552 5569 9950 9950 0.10462864436840391 GVPVPGSPFPL 11 Unmodified _GVPVPGSPFPL_ 0 0 0 ENSG00000196924|ENST00000369850|FLNA;nc|ENSG00000196924|P21333-2|FLNA ENSG00000196924|ENST00000369850|FLNA ENSG00000196924|ENST00000369850|FLNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1067.759765625 1 1066.59316 1065.58588 3.5402 0.003776 0.044436 4.7395E-05 3.5847 0.0038234 1066.5952418138588 37.702 0.058472 38.497 38.471 38.529 0.79552 4 2 2 0 0 0 0.9102 1 17070 17070 1.4819 0.15237 1 424030 8582 5785 5553 5570 9951 9951 0.055712174827021954 GVPWGLPLR 9 Unmodified _GVPWGLPLR_ 0 0 0 nc|ENSG00000156521|Q2T9J0-2|TYSND1;ENSG00000156521|ENST00000287078|TYSND1 nc|ENSG00000156521|Q2T9J0-2|TYSND1 nc|ENSG00000156521|Q2T9J0-2|TYSND1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 497.7973937988281 2 497.795269 993.575986 NaN NaN NaN NaN NaN NaN NaN 49.11 1 49.11 48.61 49.61 0 0 0 0 0.90511 1 22491 22491 2.3027 0.24298 1 8583 3915 5554 5571 9952 9952 0.07894074267983342 GVPWGLPLR 9 Unmodified _GVPWGLPLR_ 0 0 0 nc|ENSG00000156521|Q2T9J0-2|TYSND1;ENSG00000156521|ENST00000287078|TYSND1 nc|ENSG00000156521|Q2T9J0-2|TYSND1 nc|ENSG00000156521|Q2T9J0-2|TYSND1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.7978210449219 2 497.795269 993.575986 NaN NaN NaN NaN NaN NaN NaN 47.929 1 48.582 48.082 49.082 0.65356 0 0 0 0.90511 1 21939 21939 2.3027 0.24298 1 8584 3915 5554 5571 9953 9953 0.07894074267983342 GVPWHFQF 8 Unmodified _GVPWHFQF_ 0 0 0 REV__ENST00000454741.5_1_22:28396868-28397276:+|nuORF REV__ENST00000454741.5_1_22:28396868-28397276:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.83709716796875 3 339.836222 1016.48684 2.4871 0.00084521 0.031039 1.0548E-05 2.5182 0.00085576 339.83625353306553 20.43 0.26571 21.084 20.967 21.233 0.65346 51 22 3 0 0 0 0.71911 1 9288 9288 4.3292 0 1 292450 + 8585 16437 5555 5572 9954 9954 -0.02074760691539268 GVPWHFQF 8 Unmodified _GVPWHFQF_ 0 0 0 REV__ENST00000454741.5_1_22:28396868-28397276:+|nuORF REV__ENST00000454741.5_1_22:28396868-28397276:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 339.836222 1016.48684 2.4871 0.00084521 0.031039 1.0548E-05 2.5182 0.00085576 339.83625353306553 20.43 0.26571 21.084 20.967 21.233 0.65346 -0.19782 0.0003195 NaN 4.3292 51 22 3 NaN NaN NaN NaN 0 NaN NaN 0 292450 + 8586 16437 5555 5572 -0.02074760691539268 GVPWRFSPLRD 11 Unmodified _GVPWRFSPLRD_ 0 0 0 REV__ENST00000560334.5_1_15:79271198-79356973:-|nuORF REV__ENST00000560334.5_1_15:79271198-79356973:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 665.3546752929688 2 665.356754 1328.69895 NaN NaN NaN NaN NaN NaN NaN 29.851 1 30.64 30.14 31.14 0.78921 0 0 0 1.0073 1 13467 13467 1.1933 0.735 1 + 8587 17364 5556 5573 9955 9955 0.0477528592859926 GVQAGRGACS 10 Unmodified _GVQAGRGACS_ 0 0 0 ENST00000464994.5_1_2:102608489-102626165:+|nuORF;ENST00000332549.7_1_2:102608419-102626165:+|nuORF ENST00000464994.5_1_2:102608489-102626165:+|nuORF ENST00000464994.5_1_2:102608489-102626165:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.21759033203125 2 453.216526 904.418499 3.5948 0.0016292 -0.5978 -0.00027093 2.997 0.0013583 453.2162896218789 96.433 0.40938 96.711 96.499 96.909 0.27778 45 19 3 0 0 0 0.93628 1 44266 44266 1.6526 0 1 654390 8588 7003 5557 5574 9956 9956 -0.03753373333711352 GVQARVIYQIP 11 Unmodified _GVQARVIYQIP_ 0 0 0 nc|ENSG00000155287|Q96A46-3|SLC25A28;nc|ENSG00000155287|Q96A46-2|SLC25A28;ENSG00000155287|ENST00000370495|SLC25A28 nc|ENSG00000155287|Q96A46-3|SLC25A28 nc|ENSG00000155287|Q96A46-3|SLC25A28 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 415.2442626953125 3 415.243429 1242.70846 2.7649 0.0011481 0.073965 3.0714E-05 2.8388 0.0011788 415.24341845791065 35.273 0.46678 36.064 35.784 36.251 0.79131 55 27 3 0 0 0 0.7859 1 15970 15970 7.4771 1.2852 1 677480 8589 3858 5558 5575 9957 9957 0.09681054214115647 GVQEAVFFRH 10 Unmodified _GVQEAVFFRH_ 0 0 0 REV__ENSG00000143512|ENST00000343410|HHIPL2 REV__ENSG00000143512|ENST00000343410|HHIPL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.2087097167969 3 397.208607 1188.60399 NaN NaN NaN NaN NaN NaN NaN 12.791 1 13.098 12.598 13.598 0.30727 0 0 0 0.99983 1 5771 5771 0.77653 0 1 + 8590 12372 5559 5576 9958 9958 0.01723352457429428 GVQESEPVI 9 Unmodified _GVQESEPVI_ 0 0 0 nc|ENSG00000150275|Q96QU1-3|PCDH15;nc|ENSG00000150275|Q96QU1-6|PCDH15;ENSG00000150275|ENST00000644397|PCDH15;nc|ENSG00000150275|Q96QU1-4|PCDH15;nc|ENSG00000150275|Q96QU1|PCDH15 nc|ENSG00000150275|Q96QU1-3|PCDH15 nc|ENSG00000150275|Q96QU1-3|PCDH15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.2494201660156 2 479.248015 956.481476 3.0859 0.0014789 -0.18966 -9.0894E-05 2.8962 0.001388 479.2478927806493 59.716 0.48088 59.975 59.75 60.231 0.2593 73 27 3 0 0 0 0.76984 1 27454 27454 7.9102 0.62092 1 14829000 8591 3664 5560 5577 9959 9959 0.001494709353323742 GVQFEYKL 8 Unmodified _GVQFEYKL_ 0 0 0 REV__ENST00000505306.5_1_17:48154319-48165696:+|nuORF REV__ENST00000505306.5_1_17:48154319-48165696:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.5103454589844 3 328.511404 982.512382 NaN NaN NaN NaN NaN NaN NaN 13.57 1 13.813 13.313 14.313 0.24346 0 0 0 0.99035 1 5928 5928 1.8442 0.19162 1 + 8592 10184 5561 5578 9960 9960 0.02042669040235978 GVQGAYLKHTP 11 Unmodified _GVQGAYLKHTP_ 0 0 0 REV__ENST00000506793.5_1_4:44680541-44700695:+|nuORF REV__ENST00000506793.5_1_4:44680541-44700695:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.818115234375 2 585.81693 1169.61931 NaN NaN NaN NaN NaN NaN NaN 19.852 1 20.118 19.618 20.618 0.26616 0 0 0 1.0072 1 8827 8827 1.3295 0.5359 1 + 8593 12632 5562 5579 9961 9961 0.04128219254607757 GVQGPPGPPG 10 Unmodified _GVQGPPGPPG_ 0 0 0 ENSG00000188153|ENST00000328300|COL4A5;nc|ENSG00000188153|P29400|COL4A5;ENST00000483338.1_1_X:107826116-107869594:+|nuORF;nc|ENSG00000065618|Q9UMD9-2|COL17A1;ENSG00000065618|ENST00000648076|COL17A1 ENSG00000188153|ENST00000328300|COL4A5;nc|ENSG00000065618|Q9UMD9-2|COL17A1 nc|ENSG00000065618|Q9UMD9-2|COL17A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 862.443603515625 1 862.441743 861.434466 2.3454 0.0020228 -1.0323 -0.00089027 1.3131 0.0011325 862.4419395285099 103.85 0.041443 103.9 103.88 103.92 0.052994 4 2 2 0 0 0 0.93534 1 56274 56274 1.8442 0 1 508750 8594 695;5654 5563 5580 9962 9962 -0.0017934382515250036 GVQHAWWVML 10 Unmodified _GVQHAWWVML_ 0 0 0 REV__nc|ENSG00000155886|Q9UI40-2|SLC24A2;REV__nc|ENSG00000074621|O60721-2|SLC24A1 REV__nc|ENSG00000155886|Q9UI40-2|SLC24A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 410.2489318847656 3 409.542821 1225.60663 2.3811 0.00097518 2.6098 0.0010688 4.991 0.002044 409.54445421361055 13.021 0.058138 13.328 13.301 13.359 0.30727 4 2 2 0 0 0 0.94217 1 5864 5864 0.15932 0 1 55224 + 8595 12754;10517 5564 5581 9963 9963 0.0028548459069952514 GVQHAWWVML 10 Unmodified _GVQHAWWVML_ 0 0 0 REV__nc|ENSG00000155886|Q9UI40-2|SLC24A2;REV__nc|ENSG00000074621|O60721-2|SLC24A1 REV__nc|ENSG00000155886|Q9UI40-2|SLC24A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.8558654785156 3 409.542821 1225.60663 NaN NaN NaN NaN NaN NaN NaN 12.452 1 13.095 12.595 13.595 0.64272 0 0 0 0.99687 1 5581 5581 2.086 0 1 + 8596 12754;10517 5564 5581 9964 9964 0.0028548459069952514 GVQIEFGF 8 Unmodified _GVQIEFGF_ 0 0 0 REV__ENST00000462109.1_1_2:158290860-158300532:-|nuORF REV__ENST00000462109.1_1_2:158290860-158300532:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 448.7287292480469 2 448.729261 895.443968 NaN NaN NaN NaN NaN NaN NaN 26.328 1 27.107 26.607 27.607 0.7787 0 0 0 0.86524 1 11824 11824 14.582 4.3983 1 + 8597 16500 5565 5582 9965 9965 -0.007935755396260902 GVQIIWFLRRM 11 Unmodified _GVQIIWFLRRM_ 0 0 0 REV__ENST00000419694.1_1_21:26888499-26888697:-|nuORF REV__ENST00000419694.1_1_21:26888499-26888697:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 709.9081420898438 2 709.908099 1417.80165 NaN NaN NaN NaN NaN NaN NaN 66.2 1 66.857 66.357 67.357 0.65672 0 0 0 1.008 1 30351 30351 0.35063 0.081612 1 + 8598 16159 5566 5583 9966 9966 0.10945655395676113 GVQIRLPPRRG 11 Unmodified _GVQIRLPPRRG_ 0 0 0 ENSG00000011451|ENST00000673675|WIZ;nc|ENSG00000011451|O95785-3|WIZ ENSG00000011451|ENST00000673675|WIZ ENSG00000011451|ENST00000673675|WIZ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 624.582275390625 2 624.886013 1247.75747 NaN NaN NaN NaN NaN NaN NaN 54.632 1 54.632 54.132 55.132 0 0 0 0 1.0072 1 25075 25075 1.3295 0 1 8599 416 5567 5584 9967 9967 0.1435038729371172 GVQKSYKCEEC 11 Unmodified _GVQKSYKCEEC_ 0 0 0 ENSG00000180532|ENST00000318203|ZSCAN4 ENSG00000180532|ENST00000318203|ZSCAN4 ENSG00000180532|ENST00000318203|ZSCAN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 637.2839965820312 2 637.281205 1272.54786 NaN NaN NaN NaN NaN NaN NaN 89.479 1 89.73 89.23 90.23 0.25118 0 0 0 1.0072 1 41154 41154 1.3295 0 1 8600 5254 5568 5585 9968 9968 -0.07751404556574926 GVQKYEVSESD 11 Unmodified _GVQKYEVSESD_ 0 0 0 ENSG00000198146|ENST00000356321|ZNF770 ENSG00000198146|ENST00000356321|ZNF770 ENSG00000198146|ENST00000356321|ZNF770 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 620.78662109375 2 620.788232 1239.56191 NaN NaN NaN NaN NaN NaN NaN 80.214 1 80.464 79.964 80.964 0.24947 0 0 0 1.0072 1 36934 36934 1.3295 0.13619 1 8601 5869 5569 5586 9969 9969 -0.04828712532298596 GVQLKPPA 8 Unmodified _GVQLKPPA_ 0 0 0 nc|ENSG00000196935|Q7Z6B7-2|SRGAP1;ENSG00000196935|ENST00000355086|SRGAP1 nc|ENSG00000196935|Q7Z6B7-2|SRGAP1 nc|ENSG00000196935|Q7Z6B7-2|SRGAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 405.2460632324219 2 405.247621 808.480688 NaN NaN NaN NaN NaN NaN NaN 76.998 1 76.998 76.498 77.498 0 0 0 0 0.99035 1 37745 37745 2.5775 1.7838 1 8602 5787 5570 5587 9970 9970 0.06878721076930105 GVQLLPSK 8 Unmodified _GVQLLPSK_ 0 0 0 ENSG00000276581|ENST00000437823|SPATA31A5;ENSG00000276040|ENST00000619167|SPATA31A7;ENSG00000275969|ENST00000428649|SPATA31A3;ENSG00000204849|ENST00000377647|SPATA31A1;nc|ENSG00000177910|B4DYI2|SPATA31C2;nc|ENSG00000230246|P0DKV0|SPATA31C1;ENSG00000185775|ENST00000332857|SPATA31A6 ENSG00000276581|ENST00000437823|SPATA31A5 ENSG00000276581|ENST00000437823|SPATA31A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.04400634765625 2 421.260728 840.506903 NaN NaN NaN NaN NaN NaN NaN 70.922 1 70.922 70.422 71.422 0 0 0 0 0.99035 1 34457 34457 2.5775 0 1 8603 6033 5571 5588 9971 9971 0.08026990248424681 GVQPEVSPI 9 Unmodified _GVQPEVSPI_ 0 0 0 REV__ENSG00000171456|ENST00000375687|ASXL1 REV__ENSG00000171456|ENST00000375687|ASXL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.25537109375 2 463.2531 924.491647 3.0317 0.0014044 1.2554 0.00058159 4.2871 0.001986 463.25366800807154 93.893 0.31769 94.524 94.326 94.644 0.63115 28 15 2 0 0 0 1.1154 1 43166 43166 2.0598 0 1 297920 + 8604 13494 5572 5589 9972 9972 0.026380786605727735 GVQPLPLLPLL 11 Unmodified _GVQPLPLLPLL_ 0 0 0 REV__ENST00000378598.4_1_1:1849323-1850689:-|nuORF REV__ENST00000378598.4_1_1:1849323-1850689:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 580.19677734375 2 580.376092 1158.73763 NaN NaN NaN NaN NaN NaN NaN 89.733 1 89.797 89.297 90.297 0.064346 0 0 0 1.0072 1 46050 46050 1.3295 0.72803 1 + 8605 15852 5573 5590 9973 9973 0.1646119851043295 GVQPPLRDRL 10 Unmodified _GVQPPLRDRL_ 0 0 0 REV__L1P2_dup354|chr3:177908608-177914071:+|1.579459827711941|0.1324791782257567|3.58|528.0|6|1|sense REV__L1P2_dup354|chr3:177908608-177914071:+|1.579459827711941|0.1324791782257567|3.58|528.0|6|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 384.22882080078125 3 384.22789 1149.66184 NaN NaN NaN NaN NaN NaN NaN 12.508 1 12.815 12.315 13.315 0.30727 0 0 0 0.99976 1 5640 5640 1.9064 0 1 + 8606 17778 5574 5591 9974 9974 0.09299614382848631 GVQPTRRR 8 Unmodified _GVQPTRRR_ 0 0 0 ENST00000531072.1_1_11:64808545-64809015:+|nuORF ENST00000531072.1_1_11:64808545-64809015:+|nuORF ENST00000531072.1_1_11:64808545-64809015:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.28790283203125 2 485.288674 968.562795 NaN NaN NaN NaN NaN NaN NaN 32.721 1 32.974 32.474 33.474 0.25389 0 0 0 0.99035 1 14901 14901 0.79363 0 1 8607 8724 5575 5592 9975 9975 0.07725636208601827 GVQQLRRRRRP 11 Unmodified _GVQQLRRRRRP_ 0 0 0 REV__ENSG00000117791|ENST00000366913|MTARC2 REV__ENSG00000117791|ENST00000366913|MTARC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 711.4387817382812 2 711.437267 1420.85998 NaN NaN NaN NaN NaN NaN NaN 26.017 1 26.642 26.142 27.142 0.62505 0 0 0 1.008 1 11929 11929 0.35063 0 1 + 8608 11454 5576 5593 9976 9976 0.16638473085208716 GVQQRFII 8 Unmodified _GVQQRFII_ 0 0 0 REV__ENSG00000080572|ENST00000372453|DNAAF6 REV__ENSG00000080572|ENST00000372453|DNAAF6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.3462829589844 2 480.784902 959.55525 NaN NaN NaN NaN NaN NaN NaN 15.263 1 15.474 14.974 15.974 0.21108 0 0 0 0.99035 1 6727 6727 0.79363 0 1 + 8609 10595 5577 5594 9977 9977 0.0738548388833351 GVQRRRPPTI 10 Unmodified _GVQRRRPPTI_ 0 0 0 REV__ENST00000471600.6_1_1:21924475-21926051:-|nuORF REV__ENST00000471600.6_1_1:21924475-21926051:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.3580932617188 2 590.357088 1178.69962 NaN NaN NaN NaN NaN NaN NaN 38.105 1 38.739 38.239 39.239 0.63388 0 0 0 1.0015 1 17428 17428 0.45834 0 1 + 8610 16605 5578 5595 9978 9978 0.11742125368323286 GVQRRRRRRGG 11 Unmodified _GVQRRRRRRGG_ 0 0 0 REV__ENST00000373647.8_1_9:125703301-125719293:+|nuORF REV__ENST00000373647.8_1_9:125703301-125719293:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.2100830078125 4 339.20943 1352.80861 2.4092 0.00081721 -0.11203 -3.8003E-05 2.2971 0.00077921 339.2093836155969 50.431 1.5091 50.692 49.587 51.096 0.26146 142 64 3 0 0 0 0.91345 1 22919 22919 0.45452 0.45452 1 1528500 + 8611 15773 5579 5596 9979 9979 0.1463214911113937 GVQSKFVPH 9 Unmodified _GVQSKFVPH_ 0 0 0 REV__ENST00000361545.9_1_7:73818529-73818865:+|nuORF REV__ENST00000361545.9_1_7:73818529-73818865:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.77520751953125 2 499.774534 997.534515 NaN NaN NaN NaN NaN NaN NaN 79.412 1 79.732 79.232 80.232 0.31998 0 0 0 0.89683 1 38794 38794 4.3292 0.38484 1 + 8612 15626 5580 5597 9980 9980 0.03564893508666955 GVQVGRRGCAW 11 Unmodified _GVQVGRRGCAW_ 0 0 0 ENST00000488620.5_1_9:116353701-116353836:+|nuORF ENST00000488620.5_1_9:116353701-116353836:+|nuORF ENST00000488620.5_1_9:116353701-116353836:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 396.8736267089844 3 396.873341 1187.59819 2.4987 0.00099167 -0.91367 -0.00036261 1.585 0.00062906 396.87282612442124 43.848 0.18356 44.664 44.502 44.686 0.8163 16 11 2 0 0 0 0.91328 1 19965 19965 0.50596 0.23694 1 166090 8613 8370 5581 5598 9981 9981 0.011899306741042892 GVQVILRRM 9 Unmodified _GVQVILRRM_ 0 0 0 ENSG00000130312|ENST00000252602|MRPL34 ENSG00000130312|ENST00000252602|MRPL34 ENSG00000130312|ENST00000252602|MRPL34 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.3294067382812 2 536.326411 1070.63827 NaN NaN NaN NaN NaN NaN NaN 53.566 1 54.369 53.869 54.869 0.80351 0 0 0 0.90511 1 24439 24439 2.3027 0.65011 1 8614 2587 5582 5599 9982 9982 0.10577477344668296 GVQVWTDNYEC 11 Unmodified _GVQVWTDNYEC_ 0 0 0 REV__nc|ENSG00000293419|Q7Z5A4|PRSS42P REV__nc|ENSG00000293419|Q7Z5A4|PRSS42P MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 438.5205078125 3 438.52041 1312.5394 NaN NaN NaN NaN NaN NaN NaN 11.089 1 11.089 10.589 11.589 0 0 0 0 1.008 1 4862 4862 0.094841 0 1 + 8615 18178 5583 5600 9983 9983 -0.10436635201540412 GVQWRVLSSL 10 Unmodified _GVQWRVLSSL_ 0 0 0 ENST00000426572.5_1_7:99613286-99616934:+|nuORF ENST00000426572.5_1_7:99613286-99616934:+|nuORF ENST00000426572.5_1_7:99613286-99616934:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 572.8274536132812 2 572.827298 1143.64004 NaN NaN NaN NaN NaN NaN NaN 19.478 1 19.478 18.978 19.978 0 0 0 0 1.0001 1 8685 8685 1.6526 0 1 8616 7807 5584 5601 9984 9984 0.07396809634292367 GVRAHLHLLRA 11 Unmodified _GVRAHLHLLRA_ 0 0 0 chr17:18959663-18969052|442|25.54|0.52|5.61|+|2|SLC5A10,SLC5A10|1 chr17:18959663-18969052|442|25.54|0.52|5.61|+|2|SLC5A10,SLC5A10|1 chr17:18959663-18969052|442|25.54|0.52|5.61|+|2|SLC5A10,SLC5A10|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 621.8810424804688 2 621.88073 1241.74691 NaN NaN NaN NaN NaN NaN NaN 68.851 1 69.51 69.01 70.01 0.65924 0 0 0 1.008 1 31561 31561 0.35063 0 1 8617 156 5585 5602 9985 9985 0.13570404639312983 GVRARHQR 8 Unmodified _GVRARHQR_ 0 0 0 ENST00000378024.8_2_11:62300900-62300945:-|nuORF ENST00000378024.8_2_11:62300900-62300945:-|nuORF ENST00000378024.8_2_11:62300900-62300945:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.2862854003906 2 490.286466 978.558379 NaN NaN NaN NaN NaN NaN NaN 109.46 1 110.06 109.56 110.56 0.60264 0 0 0 0.99035 1 50484 50484 0.79363 0.19213 1 8618 7424 5586 5603 9986 9986 0.06824171785694944 GVRARLTR 8 Unmodified _GVRARLTR_ 0 0 0 REV__ENST00000253233.5_1_12:123718030-123718069:+|nuORF REV__ENST00000253233.5_1_12:123718030-123718069:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.7918701171875 2 464.793592 927.572632 NaN NaN NaN NaN NaN NaN NaN 29.647 1 29.905 29.405 30.405 0.25804 0 0 0 0.99035 1 13492 13492 0.79363 0 1 + 8619 14916 5587 5604 9987 9987 0.10594824213967513 GVRCSLLRLQ 10 Unmodified _GVRCSLLRLQ_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 382.22674560546875 3 382.225492 1143.65465 2.7613 0.0010554 -0.20546 -7.853E-05 2.5558 0.0009769 382.2252830859624 15.796 0.36904 15.796 15.615 15.984 0 59 43 2 0 0 0 0.9406 1 7052 7052 0.77653 0 1 58284 8620 6272 5588 5605 9988 9988 0.08856558510774448 GVRDREKWRT 10 Unmodified _GVRDREKWRT_ 0 0 0 REV__ENST00000541682.6_1_17:8024336-8024711:-|nuORF REV__ENST00000541682.6_1_17:8024336-8024711:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 651.8548583984375 2 651.854909 1301.69527 NaN NaN NaN NaN NaN NaN NaN 48.143 1 48.797 48.297 49.297 0.65356 0 0 0 1.0015 1 22033 22033 0.45834 0 1 + 8621 17223 5589 5606 9989 9989 0.05648616154735464 GVRDWQLR 8 Unmodified _GVRDWQLR_ 0 0 0 REV__ENST00000414287.5_1_22:49809434-49809545:-|nuORF REV__ENST00000414287.5_1_22:49809434-49809545:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.28173828125 2 515.283057 1028.55156 NaN NaN NaN NaN NaN NaN NaN 26.726 1 27.347 26.847 27.847 0.62179 0 0 0 0.99035 1 12252 12252 2.5775 1.0956 1 + 8622 16121 5590 5607 9990 9990 0.03842814114432258 GVREFTRRYEK 11 Unmodified _GVREFTRRYEK_ 0 0 0 REV__ENSG00000186020|ENST00000591340|ZNF529 REV__ENSG00000186020|ENST00000591340|ZNF529 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 720.8873291015625 2 720.888949 1439.76335 NaN NaN NaN NaN NaN NaN NaN 29.57 1 30.359 29.859 30.859 0.78921 0 0 0 1.0073 1 13333 13333 1.1933 0.79263 1 + 8623 14041 5591 5608 9991 9991 0.06105441014756252 GVRELFEKERQ 11 Unmodified _GVRELFEKERQ_ 0 0 0 nc|ENSG00000240682|Q9ULR0-2|ISY1 nc|ENSG00000240682|Q9ULR0-2|ISY1 nc|ENSG00000240682|Q9ULR0-2|ISY1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 695.8756713867188 2 695.875508 1389.73646 NaN NaN NaN NaN NaN NaN NaN 108.59 1 108.9 108.4 109.4 0.31168 0 0 0 1.0073 1 50074 50074 1.1933 0 1 8624 9844 5592 5609 9992 9992 0.05718332403557724 GVRFGQRRG 9 Unmodified _GVRFGQRRG_ 0 0 0 ENST00000422625.5_1_3:190231879-190272481:+|nuORF;ENST00000072516.7_2_3:190231855-190282134:+|nuORF;ENST00000439062.5_2_3:190231855-190268205:+|nuORF;ENST00000447382.5_2_3:190231879-190282131:+|nuORF ENST00000422625.5_1_3:190231879-190272481:+|nuORF ENST00000422625.5_1_3:190231879-190272481:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.796142578125 2 516.794124 1031.57369 3.6268 0.0018743 -1.0602 -0.00054792 2.5666 0.0013264 516.7934409657776 95.584 0.39906 96.192 95.997 96.396 0.60769 66 21 4 0 0 0 1.0755 1 43957 43957 2.0598 2.0598 1 3079500 8625 6380 5593 5610 9993 9993 0.05917038582902023 GVRFMWIKHNN 11 Unmodified _GVRFMWIKHNN_ 0 0 0 ENSG00000072958|ENST00000291439|AP1M1;nc|ENSG00000072958|Q9BXS5-2|AP1M1 ENSG00000072958|ENST00000291439|AP1M1 ENSG00000072958|ENST00000291439|AP1M1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 701.8692016601562 2 701.364056 1400.71356 4.6341 0.0032502 0.82531 0.00057884 5.4594 0.003829 701.3646030007571 104.74 0.10509 105.06 105.01 105.12 0.31862 26 20 2 0 0 0 0.91068 1 48350 48350 1.3295 0.36726 1 734290 8626 800 5594 5611 9994 9994 0.02923034805098723 GVRFMWIKHNN 11 Unmodified _GVRFMWIKHNN_ 0 0 0 ENSG00000072958|ENST00000291439|AP1M1;nc|ENSG00000072958|Q9BXS5-2|AP1M1 ENSG00000072958|ENST00000291439|AP1M1 ENSG00000072958|ENST00000291439|AP1M1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 701.8703002929688 2 701.364056 1400.71356 4.1629 0.0029197 1.3569 0.00095167 5.5197 0.0038713 701.3644752945163 104.73 0.12618 105.33 105.3 105.42 0.59885 18 13 2 0 0 0 0.91378 1 48398 48398 0.35063 0.043601 1 441680 8627 800 5594 5611 9995 9995 0.02923034805098723 GVRFNQPRRRR 11 Unmodified _GVRFNQPRRRR_ 0 0 0 REV__ENST00000262646.11_1_8:61429433-61429637:+|nuORF REV__ENST00000262646.11_1_8:61429433-61429637:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.2849426269531 3 481.283503 1440.82868 3.3456 0.0016102 -0.23705 -0.00011409 3.1085 0.0014961 481.2833751209737 95.099 0.52116 95.717 95.542 96.063 0.61737 49 24 3 0 0 0 0.91459 1 43865 43865 0.094841 0.011491 1 613050 + 8628 14986 5595 5612 9996 9996 0.12589900051079894 GVRFNQPRRRR 11 Unmodified _GVRFNQPRRRR_ 0 0 0 REV__ENST00000262646.11_1_8:61429433-61429637:+|nuORF REV__ENST00000262646.11_1_8:61429433-61429637:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.2852783203125 3 481.283503 1440.82868 3.3551 0.0016147 -0.22808 -0.00010977 3.127 0.001505 481.2832703773041 106.01 0.16568 106.61 106.52 106.68 0.59969 17 6 4 0 0 0 0.91459 1 48957 48957 0.094841 0 1 1646500 + 8629 14986 5595 5612 9997 9997 0.12589900051079894 GVRFVEHVRE 10 Unmodified _GVRFVEHVRE_ 0 0 0 REV__ENST00000393094.6_1_11:107879697-107879871:+|nuORF REV__ENST00000393094.6_1_11:107879697-107879871:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.8923645019531 3 409.891278 1226.652 2.7475 0.0011262 -0.068911 -2.8246E-05 2.6786 0.0010979 409.8911606415021 15.583 0.99096 15.889 15.552 16.543 0.306 152 114 2 0 0 0 0.93658 1 7110 7110 1.5923 0.48253 1 172260 + 8630 15942 5596 5613 9998 9998 0.047744263774802675 GVRFWRHFPSR 11 Unmodified _GVRFWRHFPSR_ 0 0 0 ENST00000543774.6_1_16:31128962-31129094:+|nuORF ENST00000543774.6_1_16:31128962-31129094:+|nuORF ENST00000543774.6_1_16:31128962-31129094:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 722.8914184570312 2 722.889087 1443.76362 NaN NaN NaN NaN NaN NaN NaN 36.81 1 37.44 36.94 37.94 0.62999 0 0 0 1.0082 1 16852 16852 0.35063 0 1 8631 8828 5597 5614 9999 9999 0.05948905525247028 GVRFYHLLK 9 Unmodified _GVRFYHLLK_ 0 0 0 REV__ENST00000549866.5_1_12:100377893-100378199:-|nuORF REV__ENST00000549866.5_1_12:100377893-100378199:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.4089965820312 2 566.834926 1131.6553 NaN NaN NaN NaN NaN NaN NaN 16.138 1 16.138 15.638 16.638 0 0 0 0 0.91206 1 7144 7144 0.6015 0 1 + 8632 17276 5598 5615 10000 10000 0.09473721222116183 GVRFYHLLK 9 Unmodified _GVRFYHLLK_ 0 0 0 REV__ENST00000549866.5_1_12:100377893-100378199:-|nuORF REV__ENST00000549866.5_1_12:100377893-100378199:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.7144775390625 2 566.834926 1131.6553 NaN NaN NaN NaN NaN NaN NaN 14.962 1 15.189 14.689 15.689 0.22622 0 0 0 0.91206 1 6586 6586 0.6015 0 1 + 8633 17276 5598 5615 10001 10001 0.09473721222116183 GVRGITHSWR 10 Unmodified _GVRGITHSWR_ 0 0 0 ENST00000301454.8_1_19:6440495-6440663:-|nuORF ENST00000301454.8_1_19:6440495-6440663:-|nuORF ENST00000301454.8_1_19:6440495-6440663:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.8182373046875 2 584.820338 1167.62612 NaN NaN NaN NaN NaN NaN NaN 28.924 1 29.713 29.213 30.213 0.78921 0 0 0 1.0003 1 13034 13034 1.4819 0.15237 1 8634 6803 5599 5616 10002 10002 0.04901576925840345 GVRGPGYL 8 Unmodified _GVRGPGYL_ 0 0 0 ENSG00000112139|ENST00000434837|MDGA1;nc|ENSG00000112139|Q8NFP4-2|MDGA1;ENST00000373401.2_1_6:37605146-37606471:-|nuORF ENSG00000112139|ENST00000434837|MDGA1 ENSG00000112139|ENST00000434837|MDGA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 818.3084716796875 1 818.451914 817.444637 3.372 0.0027598 -2.313 -0.0018931 1.0589 0.00086668 818.4509655242321 97.909 0.040817 97.909 97.873 97.914 0 6 2 3 0 0 0 0.7471 1 53449 53449 0.79363 0 1 19968000 8635 1794 5600 5617 10003 10003 0.028612639000698437 GVRGRFKEKG 10 Unmodified _GVRGRFKEKG_ 0 0 0 ENST00000272647.9_1_2:128619854-128619971:-|nuORF ENST00000272647.9_1_2:128619854-128619971:-|nuORF ENST00000272647.9_1_2:128619854-128619971:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3319702148438 2 567.330539 1132.64652 3.6436 0.0020671 -0.87711 -0.00049761 2.7665 0.0015695 567.3299142838137 85.817 1.6519 86.066 85.213 86.865 0.24857 189 85 3 0 0 0 0.93628 1 39620 39620 1.6526 0.17072 1 2716600 8636 6657 5601 5618 10004 10004 0.08550747585650242 GVRGRVRK 8 Unmodified _GVRGRVRK_ 0 0 0 ENST00000513724.1_1_4:47916222-47916543:+|nuORF ENST00000513724.1_1_4:47916222-47916543:+|nuORF ENST00000513724.1_1_4:47916222-47916543:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.30279541015625 2 464.301585 926.588616 NaN NaN NaN NaN NaN NaN NaN 40.354 1 40.623 40.123 41.123 0.26904 0 0 0 0.99035 1 18359 18359 2.5775 0 1 8637 8580 5602 5619 10005 10005 0.122385304508839 GVRGRVRKVP 10 Unmodified _GVRGRVRKVP_ 0 0 0 ENST00000513724.1_1_4:47916222-47916543:+|nuORF ENST00000513724.1_1_4:47916222-47916543:+|nuORF ENST00000513724.1_1_4:47916222-47916543:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.3602294921875 2 562.362173 1122.70979 NaN NaN NaN NaN NaN NaN NaN 12.786 1 13.093 12.593 13.593 0.30727 0 0 0 1.0015 1 5769 5769 0.45834 0.10771 1 8638 8580 5603 5620 10006 10006 0.15334733093550312 GVRGRWRP 8 Unmodified _GVRGRWRP_ 0 0 0 ENST00000556922.1_1_16:90002208-90002319:+|nuORF ENST00000556922.1_1_16:90002208-90002319:+|nuORF ENST00000556922.1_1_16:90002208-90002319:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.2870788574219 2 492.285934 982.557316 3.5115 0.0017286 -1.7777 -0.00087513 1.7338 0.0008535 492.2849230853694 89.302 0.32195 89.553 89.373 89.695 0.25118 20 15 2 0 0 0 0.74071 1 41048 41048 2.5775 0 1 1138600 8639 8932 5604 5621 10007 10007 0.06533957416786507 GVRHQQHQQWH 11 Unmodified _GVRHQQHQQWH_ 0 0 0 REV__YLPM1|p.D2015Vfs*40|1|0.15|ENSG00000119596|chr14:74821070-74821070|A/-|frameshift_variant REV__YLPM1|p.D2015Vfs*40|1|0.15|ENSG00000119596|chr14:74821070-74821070|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 720.854248046875 2 720.853232 1439.69191 NaN NaN NaN NaN NaN NaN NaN 46.423 1 46.423 45.923 46.923 0 0 0 0 1.008 1 21248 21248 0.35063 0 1 + 8640 18249 5605 5622 10008 10008 -0.01034633899257642 GVRHSQYQP 9 Unmodified _GVRHSQYQP_ 0 0 0 REV__ENSG00000101463|ENST00000376862|SYNDIG1 REV__ENSG00000101463|ENST00000376862|SYNDIG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.6710815429688 2 536.270147 1070.52574 NaN NaN NaN NaN NaN NaN NaN 82.78 1 83.44 82.94 83.94 0.66019 0 0 0 0.89683 1 38142 38142 4.3292 1.7518 1 + 8641 10896 5606 5623 10009 10009 -0.006700801278157087 GVRIDTSHRSL 11 Unmodified _GVRIDTSHRSL_ 0 0 0 nc|ENSG00000129219|O14939-3|PLD2;ENST00000575246.6_1_17:4711576-4721404:+|nuORF;nc|ENSG00000129219|O14939-4|PLD2;ENSG00000129219|ENST00000263088|PLD2 nc|ENSG00000129219|O14939-3|PLD2 nc|ENSG00000129219|O14939-3|PLD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.2314758300781 3 414.230071 1239.66838 NaN NaN NaN NaN NaN NaN NaN 18.209 1 18.51 18.01 19.01 0.30158 0 0 0 0.98464 1 8253 8253 4.1166 0.27072 1 8642 2544 5607 5624 10010 10010 0.058135075435757244 GVRIDTSHRSL 11 Unmodified _GVRIDTSHRSL_ 0 0 0 nc|ENSG00000129219|O14939-3|PLD2;ENST00000575246.6_1_17:4711576-4721404:+|nuORF;nc|ENSG00000129219|O14939-4|PLD2;ENSG00000129219|ENST00000263088|PLD2 nc|ENSG00000129219|O14939-3|PLD2 nc|ENSG00000129219|O14939-3|PLD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.2310485839844 3 414.230071 1239.66838 NaN NaN NaN NaN NaN NaN NaN 17.973 1 18.634 18.134 19.134 0.66072 0 0 0 0.98464 1 8123 8123 4.1166 0.27072 1 8643 2544 5607 5624 10011 10011 0.058135075435757244 GVRIRSKWLK 10 Unmodified _GVRIRSKWLK_ 0 0 0 ENSG00000144229|ENST00000409968|THSD7B ENSG00000144229|ENST00000409968|THSD7B ENSG00000144229|ENST00000409968|THSD7B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 621.8983764648438 2 621.893306 1241.77206 NaN NaN NaN NaN NaN NaN NaN 109.93 1 110.24 109.74 110.74 0.31015 0 0 0 1.0015 1 50668 50668 0.45834 0 1 8644 3413 5608 5625 10012 10012 0.16084459441867693 GVRIRSKWLKE 11 Unmodified _GVRIRSKWLKE_ 0 0 0 ENSG00000144229|ENST00000409968|THSD7B ENSG00000144229|ENST00000409968|THSD7B ENSG00000144229|ENST00000409968|THSD7B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 686.4166870117188 2 686.414603 1370.81465 NaN NaN NaN NaN NaN NaN NaN 101.16 1 101.76 101.26 102.26 0.59717 0 0 0 1.0059 1 46839 46839 2.9952 1.6657 1 8645 3413 5609 5626 10013 10013 0.1440780977943632 GVRITLKD 8 Unmodified _GVRITLKD_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.2781982421875 2 451.276909 900.539266 NaN NaN NaN NaN NaN NaN NaN 11.453 1 11.732 11.232 12.232 0.2792 0 0 0 0.99035 1 4964 4964 0.79363 0 1 + 8646 12747 5610 5627 10014 10014 0.08501777651406428 GVRITLKD 8 Unmodified _GVRITLKD_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.0273132324219 2 451.276909 900.539266 NaN NaN NaN NaN NaN NaN NaN 11.504 1 11.783 11.283 12.283 0.2792 0 0 0 0.99035 1 4986 4986 0.79363 0 1 + 8647 12747 5610 5627 10015 10015 0.08501777651406428 GVRKKRFTR 9 Unmodified _GVRKKRFTR_ 0 0 0 REV__ENST00000393802.6_1_5:171326080-171326947:-|nuORF REV__ENST00000393802.6_1_5:171326080-171326947:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.7000732421875 2 574.362173 1146.70979 NaN NaN NaN NaN NaN NaN NaN 92.902 1 93.157 92.657 93.657 0.25497 0 0 0 0.91206 1 42702 42702 0.6015 0.14316 1 + 8648 15959 5611 5628 10016 10016 0.14230733093540948 GVRKVIKLV 9 Unmodified _GVRKVIKLV_ 0 0 0 REV__nc|ENSG00000096060|Q13451-2|FKBP5 REV__nc|ENSG00000096060|Q13451-2|FKBP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.35394287109375 2 506.355494 1010.69644 NaN NaN NaN NaN NaN NaN NaN 57.755 1 58.524 58.024 59.024 0.76861 0 0 0 0.91206 1 26467 26467 0.6015 0 1 + 8649 10772 5612 5629 10017 10017 0.19151482261588626 GVRLAFLLL 9 Unmodified _GVRLAFLLL_ 0 0 0 ENST00000433831.5_1_22:20940997-20941165:+|nuORF ENST00000433831.5_1_22:20940997-20941165:+|nuORF ENST00000433831.5_1_22:20940997-20941165:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.328857421875 2 501.328945 1000.64334 NaN NaN NaN NaN NaN NaN NaN 80.961 1 81.209 80.709 81.709 0.24803 0 0 0 0.82031 1 37276 37276 8.5933 2.8329 1 8650 7877 5613 5630 10018 10018 0.14304104478935642 GVRLEGHLPR 10 Unmodified _GVRLEGHLPR_ 0 0 0 ENST00000572615.1_1_17:1372344-1373609:-|nuORF ENST00000572615.1_1_17:1372344-1373609:-|nuORF ENST00000572615.1_1_17:1372344-1373609:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3323974609375 2 567.330539 1132.64652 3.6436 0.0020671 -0.87711 -0.00049761 2.7665 0.0015695 567.3299142838137 85.817 1.6519 86.066 85.213 86.865 0.24857 189 85 3 0 0 0 0.93628 2 39360 39360;39408 1.6526 0.45928 1 2716600 8651 9100 5614 5631 10019;10020 10019 0.08550747585650242 GVRLEGHLPR 10 Unmodified _GVRLEGHLPR_ 0 0 0 ENST00000572615.1_1_17:1372344-1373609:-|nuORF ENST00000572615.1_1_17:1372344-1373609:-|nuORF ENST00000572615.1_1_17:1372344-1373609:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.3316650390625 2 567.330539 1132.64652 3.738 0.0021207 -0.80606 -0.0004573 2.9319 0.0016634 567.329888988863 85.423 1.7358 86.089 85.344 87.08 0.66566 236 91 4 0 0 0 0.93628 2 39505 39505;39553 1.6526 0.45928 1 3198100 8652 9100 5614 5631 10021;10022 10021 0.08550747585650242 GVRLEGHLPR 10 Unmodified _GVRLEGHLPR_ 0 0 0 ENST00000572615.1_1_17:1372344-1373609:-|nuORF ENST00000572615.1_1_17:1372344-1373609:-|nuORF ENST00000572615.1_1_17:1372344-1373609:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.3323974609375 2 567.330539 1132.64652 3.7408 0.0021223 -0.81538 -0.00046259 2.9254 0.0016597 567.3301166415114 86.622 0.6205 87.298 87.113 87.733 0.67555 51 30 2 0 0 0 0.93628 1 39952 39952 1.6526 0.45928 1 1578000 8653 9100 5614 5631 10023 10023 0.08550747585650242 GVRLEGHLPR 10 Unmodified _GVRLEGHLPR_ 0 0 0 ENST00000572615.1_1_17:1372344-1373609:-|nuORF ENST00000572615.1_1_17:1372344-1373609:-|nuORF ENST00000572615.1_1_17:1372344-1373609:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 567.330539 1132.64652 3.7251 0.0021133 -1.2689 -0.0007199 2.4561 0.0013934 567.3297413726835 86.782 0.75046 87.031 86.891 87.642 0.24974 -0.13337 -0.00011152 NaN 1.6526 75 36 3 NaN NaN NaN NaN 0 NaN NaN 0 1561000 8654 9100 5614 5631 0.08550747585650242 GVRLLECLLVT 11 Unmodified _GVRLLECLLVT_ 0 0 0 REV__nc|ENSG00000102890|Q96BJ8-2|ELMO3 REV__nc|ENSG00000102890|Q96BJ8-2|ELMO3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 608.5027465820312 2 608.360116 1214.70568 NaN NaN NaN NaN NaN NaN NaN 79.096 1 79.561 79.061 80.061 0.4642 0 0 0 1.0044 1 38594 38594 4.897 0.36815 1 + 8655 10948 5615 5632 10024 10024 0.1069146276495303 GVRLLKNILFP 11 Unmodified _GVRLLKNILFP_ 0 0 0 ENST00000532402.5_1_11:62392602-62392905:-|nuORF ENST00000532402.5_1_11:62392602-62392905:-|nuORF ENST00000532402.5_1_11:62392602-62392905:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 635.4083251953125 2 635.405715 1268.79688 NaN NaN NaN NaN NaN NaN NaN 59.005 1 59.005 58.505 59.505 0 0 0 0 1.0057 1 27260 27260 3.2813 1.9518 1 8656 8735 5616 5633 10025 10025 0.17323094524590488 GVRLLRLQR 9 Unmodified _GVRLLRLQR_ 0 0 0 ENST00000470294.5_1_1:155058014-155058898:+|nuORF ENST00000470294.5_1_1:155058014-155058898:+|nuORF ENST00000470294.5_1_1:155058014-155058898:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.8214111328125 2 555.864549 1109.71454 NaN NaN NaN NaN NaN NaN NaN 58.124 1 58.124 57.624 58.624 0 0 0 0 0.91206 1 26810 26810 0.6015 0 1 8657 8172 5617 5634 10026 10026 0.16407617236291117 GVRLQGPGRR 10 Unmodified _GVRLQGPGRR_ 0 0 0 REV__ENST00000586582.5_1_19:4543368-4543554:-|nuORF REV__ENST00000586582.5_1_19:4543368-4543554:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.843505859375 2 548.328331 1094.64211 NaN NaN NaN NaN NaN NaN NaN 68.139 1 68.391 67.891 68.891 0.25227 0 0 0 0.99774 1 31214 31214 3.5965 0 1 + 8658 17542 5618 5635 10027 10027 0.09857283162750718 GVRLQPGDFY 10 Unmodified _GVRLQPGDFY_ 0 0 0 ENSG00000153404|ENST00000637938|PLEKHG4B ENSG00000153404|ENST00000637938|PLEKHG4B ENSG00000153404|ENST00000637938|PLEKHG4B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.294921875 2 576.29583 1150.57711 NaN NaN NaN NaN NaN NaN NaN 66.852 1 67.102 66.602 67.602 0.2501 0 0 0 1.0001 1 30624 30624 1.6526 0 1 8659 3787 5619 5636 10028 10028 0.007842438462375867 GVRLRGRTM 9 Unmodified _GVRLRGRTM_ 0 0 0 ENST00000586568.1_1_18:47809883-47810144:-|nuORF ENST00000586568.1_1_18:47809883-47810144:-|nuORF ENST00000586568.1_1_18:47809883-47810144:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.2294311523438 2 523.30601 1044.59747 NaN NaN NaN NaN NaN NaN NaN 80.132 1 80.381 79.881 80.881 0.24947 0 0 0 0.90611 1 36897 36897 2.0598 0 1 8660 9188 5620 5637 10029 10029 0.07695136025040483 GVRLRRVGF 9 Unmodified _GVRLRRVGF_ 0 0 0 REV__ENST00000443739.6_1_7:143051732-143052089:-|nuORF REV__ENST00000443739.6_1_7:143051732-143052089:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.3289184570312 2 530.330342 1058.64613 NaN NaN NaN NaN NaN NaN NaN 65.87 1 66.527 66.027 67.027 0.65672 0 0 0 0.90611 1 30199 30199 2.0598 1.2661 1 + 8661 16363 5621 5638 10030 10030 0.11915372656449108 GVRLVFLLL 9 Unmodified _GVRLVFLLL_ 0 0 0 ENSG00000163285|ENST00000295452|GABRG1 ENSG00000163285|ENST00000295452|GABRG1 ENSG00000163285|ENST00000295452|GABRG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.3450317382812 2 515.344595 1028.67464 NaN NaN NaN NaN NaN NaN NaN 91.365 1 91.616 91.116 92.116 0.25163 0 0 0 0.90611 1 42013 42013 2.0598 1.4583 1 8662 4201 5622 5639 10031 10031 0.16144677513034367 GVRPEGVLL 9 Unmodified _GVRPEGVLL_ 0 0 0 REV__nc|ENSG00000126858|Q8IXI2-6|RHOT1 REV__nc|ENSG00000126858|Q8IXI2-6|RHOT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.5227355957031 3 313.858915 938.554916 1.5957 0.00050081 1.4533 0.00045613 3.0489 0.00095694 313.85931805988287 12.733 0.15583 13.04 12.969 13.125 0.30727 6 4 2 0 0 0 1.0601 1 5759 5759 2.9952 0 1 255150 + 8663 11723 5623 5640 10032 10032 0.08318064168486217 GVRPQSFR 8 Unmodified _GVRPQSFR_ 0 0 0 ENST00000536140.5_1_12:6939022-6940400:+|nuORF;nc|ENSG00000110811|Q8IVL6-2|P3H3;ENSG00000110811|ENST00000290510|P3H3 ENST00000536140.5_1_12:6939022-6940400:+|nuORF ENST00000536140.5_1_12:6939022-6940400:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.26495361328125 2 473.764501 945.514448 3.1225 0.0014793 -1.1986 -0.00056786 1.9239 0.00091145 473.7638572360151 13.727 0.20066 14.376 14.239 14.44 0.6482 23 15 2 0 0 0 0.14282 1 6134 6134 2.3027 1.5091 1 332620 8664 1730 5624 5641 10033 10033 0.03951142568712385 GVRPRRWKL 9 Unmodified _GVRPRRWKL_ 0 0 0 ENSG00000280267|ENST00000624207|PRAMEF26;ENSG00000243073|ENST00000235349|PRAMEF4;ENSG00000239810|ENST00000619922|PRAMEF11;ENSG00000229571|ENST00000619661|PRAMEF25;ENSG00000204501|ENST00000376152|PRAMEF15 ENSG00000280267|ENST00000624207|PRAMEF26 ENSG00000280267|ENST00000624207|PRAMEF26 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.3670043945312 2 584.364716 1166.71488 NaN NaN NaN NaN NaN NaN NaN 91.773 1 92.435 91.935 92.935 0.66198 0 0 0 0.90511 1 42231 42231 2.3027 0.65011 1 8665 6013 5625 5642 10034 10034 0.1381903695616984 GVRQMHQNA 9 Unmodified _GVRQMHQNA_ 0 0 0 nc|ENSG00000185658|Q9NSI6-3|BRWD1;ENSG00000185658|ENST00000342449|BRWD1;nc|ENSG00000185658|Q9NSI6|BRWD1 nc|ENSG00000185658|Q9NSI6-3|BRWD1 nc|ENSG00000185658|Q9NSI6-3|BRWD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.7587280273438 2 520.75635 1039.49815 3.9877 0.0020766 1.765 0.00091915 5.7527 0.0029958 520.7568083687434 93.365 0.38419 93.62 93.394 93.778 0.25497 34 17 3 0 0 0 1.1154 1 42949 42949 2.0598 0.21551 1 1312000 8666 5522 5626 5643 10035 10035 -0.020023066597104844 GVRRARERLEQ 11 Unmodified _GVRRARERLEQ_ 0 0 0 ENSG00000130299|ENST00000324894|GTPBP3;nc|ENSG00000130299|Q969Y2-4|GTPBP3;nc|ENSG00000130299|Q969Y2-2|GTPBP3 ENSG00000130299|ENST00000324894|GTPBP3 ENSG00000130299|ENST00000324894|GTPBP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.3948364257812 2 685.39219 1368.76983 NaN NaN NaN NaN NaN NaN NaN 40.441 1 40.441 39.941 40.941 0 0 0 0 1.0073 1 18354 18354 1.1933 0.79263 1 8667 2583 5627 5644 10036 10036 0.10019378966148906 GVRRARERLEQ 11 Unmodified _GVRRARERLEQ_ 0 0 0 ENSG00000130299|ENST00000324894|GTPBP3;nc|ENSG00000130299|Q969Y2-4|GTPBP3;nc|ENSG00000130299|Q969Y2-2|GTPBP3 ENSG00000130299|ENST00000324894|GTPBP3 ENSG00000130299|ENST00000324894|GTPBP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.3939208984375 2 685.39219 1368.76983 NaN NaN NaN NaN NaN NaN NaN 39.529 1 39.796 39.296 40.296 0.26696 0 0 0 1.0057 1 17986 17986 3.2813 0 1 8668 2583 5627 5644 10037 10037 0.10019378966148906 GVRRGGKV 8 Unmodified _GVRRGGKV_ 0 0 0 REV__ENST00000344529.4_1_1:172411401-172411473:-|nuORF REV__ENST00000344529.4_1_1:172411401-172411473:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 414.76287841796875 2 414.761761 827.508969 1.9523 0.00080975 0.44502 0.00018458 2.3974 0.00099433 414.7619030961067 82.957 0.38953 83.002 82.803 83.193 0.045006 110 45 3 0 0 0 0.74071 1 40959 40959 2.5775 2.5775 1 24199000 + 8669 15495 5628 5645 10038 10038 0.08831463776903092 GVRRHIRKVHK 11 Unmodified _GVRRHIRKVHK_ 0 0 0 ENSG00000048405|ENST00000265827|ZNF800;ZNF800|p.P577Lfs*26|1|0.43|ENSG00000048405|chr7:127373606-127373606|G/-|frameshift_variant;ZNF800|p.L431Ifs*9|1|0.35|ENSG00000048405|chr7:127374045-127374046|-/T|frameshift_variant ENSG00000048405|ENST00000265827|ZNF800 ENSG00000048405|ENST00000265827|ZNF800 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 693.4403686523438 2 693.439278 1384.864 NaN NaN NaN NaN NaN NaN NaN 30.641 1 30.641 30.141 31.141 0 0 0 0 1.008 1 13845 13845 0.35063 0.081612 1 8670 568 5629 5646 10039 10039 0.18696562578907105 GVRRHLVK 8 Unmodified _GVRRHLVK_ 0 0 0 nc|ENSG00000114923|P48751-3|SLC4A3;ENSG00000114923|ENST00000358055|SLC4A3 nc|ENSG00000114923|P48751-3|SLC4A3 nc|ENSG00000114923|P48751-3|SLC4A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.2109069824219 3 322.210282 963.609017 NaN NaN NaN NaN NaN NaN NaN 14.248 1 14.555 14.055 15.055 0.3069 0 0 0 0.99035 1 6447 6447 3.9444 0.3479 1 8671 1930 5630 5647 10040 10040 0.1257570111069981 GVRRKRVSPV 10 Unmodified _GVRRKRVSPV_ 0 0 0 ENSG00000095015|ENST00000399503|MAP3K1 ENSG00000095015|ENST00000399503|MAP3K1 ENSG00000095015|ENST00000399503|MAP3K1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.3695678710938 2 577.367456 1152.72036 3.8925 0.0022474 0.32682 0.0001887 4.2193 0.0024361 577.3674073576369 102.64 0.10918 103.24 103.17 103.28 0.59759 8 3 3 0 0 0 0.94217 1 47514 47514 0.45834 0 1 780970 8672 1114 5631 5648 10041 10041 0.1501071574798516 GVRRPGSC 8 Unmodified _GVRRPGSC_ 0 0 0 ENST00000263056.5_1_10:30722942-30726138:+|nuORF ENST00000263056.5_1_10:30722942-30726138:+|nuORF ENST00000263056.5_1_10:30722942-30726138:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 416.2167663574219 2 416.216329 830.418105 2.3307 0.00097008 0.45431 0.00018909 2.785 0.0011592 416.2163357418213 63.294 0.32187 63.294 63.141 63.463 0 68 37 2 0 0 0 0.74071 1 29777 29777 2.5775 0 1 3020500 8673 6581 5632 5649 10042 10042 -0.0038874826288974873 GVRRPGSRLPA 11 Unmodified _GVRRPGSRLPA_ 0 0 0 ENST00000533608.5_1_11:44117206-44117353:+|nuORF ENST00000533608.5_1_11:44117206-44117353:+|nuORF ENST00000533608.5_1_11:44117206-44117353:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.3505859375 2 583.349263 1164.68397 3.8958 0.0022726 -0.79181 -0.0004619 3.104 0.0018107 583.3487748016289 91.267 0.23482 91.519 91.423 91.658 0.25164 13 8 2 0 0 0 0.91111 1 41998 41998 1.1933 0.66858 1 538850 8674 8748 5633 5650 10043 10043 0.10821838851279608 GVRRPGSRLPA 11 Unmodified _GVRRPGSRLPA_ 0 0 0 ENST00000533608.5_1_11:44117206-44117353:+|nuORF ENST00000533608.5_1_11:44117206-44117353:+|nuORF ENST00000533608.5_1_11:44117206-44117353:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.3512573242188 2 583.349263 1164.68397 3.7446 0.0021844 -0.58594 -0.00034181 3.1586 0.0018426 583.3486685963442 90.817 0.2944 91.49 91.357 91.652 0.67271 32 18 2 0 0 0 0.91111 1 41790 41790 1.1933 0.66858 1 463300 8675 8748 5633 5650 10044 10044 0.10821838851279608 GVRRPGSRLPA 11 Unmodified _GVRRPGSRLPA_ 0 0 0 ENST00000533608.5_1_11:44117206-44117353:+|nuORF ENST00000533608.5_1_11:44117206-44117353:+|nuORF ENST00000533608.5_1_11:44117206-44117353:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 583.349263 1164.68397 3.8958 0.0022726 -0.79181 -0.0004619 3.104 0.0018107 583.3487748016289 91.267 0.23482 91.519 91.423 91.658 0.25164 0.014428 -0.00013012 NaN 1.1933 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 538850 8676 8748 5633 5650 0.10821838851279608 GVRRPGSRLPA 11 Unmodified _GVRRPGSRLPA_ 0 0 0 ENST00000533608.5_1_11:44117206-44117353:+|nuORF ENST00000533608.5_1_11:44117206-44117353:+|nuORF ENST00000533608.5_1_11:44117206-44117353:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 583.349263 1164.68397 3.7446 0.0021844 -0.58594 -0.00034181 3.1586 0.0018426 583.3486685963442 90.817 0.2944 91.49 91.357 91.652 0.67271 -0.014428 0.00011007 NaN 1.1933 32 18 2 NaN NaN NaN NaN 0 NaN NaN 0 463300 8677 8748 5633 5650 0.10821838851279608 GVRRPRRRA 9 Unmodified _GVRRPRRRA_ 0 0 0 ENST00000496793.1_1_9:140513165-140513324:-|nuORF ENST00000496793.1_1_9:140513165-140513324:-|nuORF ENST00000496793.1_1_9:140513165-140513324:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 375.2391357421875 3 375.239235 1122.69588 NaN NaN NaN NaN NaN NaN NaN 29.078 1 29.696 29.196 30.196 0.61789 0 0 0 0.91014 1 13333 13333 1.0715 0 1 8678 8450 5634 5651 10045 10045 0.13943500385107654 GVRRQQRRR 9 Unmodified _GVRRQQRRR_ 0 0 0 ENST00000523367.1_1_8:63161359-63775831:+|nuORF ENST00000523367.1_1_8:63161359-63775831:+|nuORF ENST00000523367.1_1_8:63161359-63775831:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 606.8742065429688 2 606.368853 1210.72315 3.178 0.0019271 1.2306 0.00074618 4.4086 0.0026732 606.3692649082368 103.91 0.36208 103.91 103.71 104.07 0 41 28 2 0 0 0 1.2078 2 57182 57182;57287 0.6015 0.14316 1 648250 8679 8657 5635 5652 10046;10047 10046 0.12621983925487257 GVRRQQRRR 9 Unmodified _GVRRQQRRR_ 0 0 0 ENST00000523367.1_1_8:63161359-63775831:+|nuORF ENST00000523367.1_1_8:63161359-63775831:+|nuORF ENST00000523367.1_1_8:63161359-63775831:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.3709716796875 2 606.368853 1210.72315 NaN NaN NaN NaN NaN NaN NaN 43.978 1 44.799 44.299 45.299 0.82075 0 0 0 0.91206 1 20022 20022 0.6015 0.14316 1 8680 8657 5635 5652 10048 10048 0.12621983925487257 GVRRRKPKP 9 Unmodified _GVRRRKPKP_ 0 0 0 REV__ENSG00000198064|ENST00000697092|NPIPB13 REV__ENSG00000198064|ENST00000697092|NPIPB13 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.8995361328125 2 547.356891 1092.69923 NaN NaN NaN NaN NaN NaN NaN 107.3 1 107.9 107.4 108.4 0.60074 0 0 0 0.91206 1 49526 49526 0.6015 0.076735 1 + 8681 14318 5636 5653 10049 10049 0.15658750439115465 GVRRRKTKLV 10 Unmodified _GVRRRKTKLV_ 0 0 0 REV__nc|ENSG00000180592|Q1XH10-2|SKIDA1 REV__nc|ENSG00000180592|Q1XH10-2|SKIDA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 606.8803100585938 2 606.904205 1211.79386 NaN NaN NaN NaN NaN NaN NaN 12.689 1 12.996 12.496 13.496 0.30727 0 0 0 1.0015 1 5725 5725 0.45834 0 1 + 8682 13826 5637 5654 10050 10050 0.19643264190426635 GVRRRKTKLVR 11 Unmodified _GVRRRKTKLVR_ 0 0 0 REV__nc|ENSG00000180592|Q1XH10-2|SKIDA1 REV__nc|ENSG00000180592|Q1XH10-2|SKIDA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 684.9736328125 2 684.954761 1367.89497 NaN NaN NaN NaN NaN NaN NaN 84.252 1 84.5 84 85 0.24757 0 0 0 1.008 1 38778 38778 0.35063 0.043601 1 + 8683 13826 5638 5655 10051 10051 0.22573715893122426 GVRRRKTKLVR 11 Unmodified _GVRRRKTKLVR_ 0 0 0 REV__nc|ENSG00000180592|Q1XH10-2|SKIDA1 REV__nc|ENSG00000180592|Q1XH10-2|SKIDA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 684.8948974609375 2 684.954761 1367.89497 NaN NaN NaN NaN NaN NaN NaN 78.711 1 79.373 78.873 79.873 0.66198 0 0 0 1.008 1 36271 36271 0.35063 0.043601 1 + 8684 13826 5638 5655 10052 10052 0.22573715893122426 GVRRRLLRAL 10 Unmodified _GVRRRLLRAL_ 0 0 0 ENST00000291574.8_1_21:45523422-45523842:+|nuORF ENST00000291574.8_1_21:45523422-45523842:+|nuORF ENST00000291574.8_1_21:45523422-45523842:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 605.4086303710938 2 605.404373 1208.79419 NaN NaN NaN NaN NaN NaN NaN 104.6 1 104.65 104.15 105.15 0.052994 0 0 0 1.0015 1 56619 56619 0.45834 0 1 8685 6738 5639 5656 10053 10053 0.198146839103174 GVRRRLLRAL 10 Unmodified _GVRRRLLRAL_ 0 0 0 ENST00000291574.8_1_21:45523422-45523842:+|nuORF ENST00000291574.8_1_21:45523422-45523842:+|nuORF ENST00000291574.8_1_21:45523422-45523842:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1209.407470703125 1 1209.80147 1208.79419 3.4957 0.0042291 1.6176 0.001957 5.1133 0.006186 1209.803347876553 88.267 0.14261 88.945 88.845 88.988 0.67818 6 5 2 0 0 0 0.94217 1 40648 40648 0.45834 0 1 582760 8686 6738 5639 5656 10054 10054 0.198146839103174 GVRRRLWE 8 Unmodified _GVRRRLWE_ 0 0 0 REV__ENST00000482665.1_1_16:334415-335240:+|nuORF REV__ENST00000482665.1_1_16:334415-335240:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.3137817382812 2 536.312149 1070.60975 3.4247 0.0018367 -0.21561 -0.00011563 3.2091 0.0017211 536.813702145494 93.522 0.20893 94.153 94.064 94.273 0.63115 13 8 2 0 0 0 0.7471 1 43013 43013 0.79363 0 1 407600 + 8687 14023 5640 5657 10055 10055 0.0772649575972082 GVRRRLWE 8 Unmodified _GVRRRLWE_ 0 0 0 REV__ENST00000482665.1_1_16:334415-335240:+|nuORF REV__ENST00000482665.1_1_16:334415-335240:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 536.312149 1070.60975 3.4247 0.0018367 -0.21561 -0.00011563 3.2091 0.0017211 536.813702145494 93.522 0.20893 94.153 94.064 94.273 0.63115 -0.044854 0.00088041 NaN 0.79363 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 407600 + 8688 14023 5640 5657 0.0772649575972082 GVRRRRRRRRR 11 Unmodified _GVRRRRRRRRR_ 0 0 0 REV__ENST00000554879.5_1_14:71374480-71476401:+|nuORF REV__ENST00000554879.5_1_14:71374480-71476401:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 790.51171875 2 790.512497 1579.01044 NaN NaN NaN NaN NaN NaN NaN 73.638 1 74.302 73.802 74.802 0.6644 0 0 0 1.008 1 33855 33855 0.35063 0.35063 1 + 8689 17315 5641 5658 10056 10056 0.24409677587368606 GVRRTRRRGK 10 Unmodified _GVRRTRRRGK_ 0 0 0 ENST00000324771.12_1_6:30867402-30867627:+|nuORF ENST00000324771.12_1_6:30867402-30867627:+|nuORF ENST00000324771.12_1_6:30867402-30867627:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 621.3943481445312 2 621.392328 1240.7701 NaN NaN NaN NaN NaN NaN NaN 103.17 1 103.49 102.99 103.99 0.31863 0 0 0 1.002 1 47705 47705 0 0 1 8690 6952 5642 5659 10057 10057 0.15934843476611604 GVRRTRTRR 9 Unmodified _GVRRTRTRR_ 0 0 0 REV__ENST00000369206.5_1_10:118894093-118897515:-|nuORF REV__ENST00000369206.5_1_10:118894093-118897515:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 579.3587646484375 2 579.357954 1156.70135 NaN NaN NaN NaN NaN NaN NaN 92.798 1 93.051 92.551 93.551 0.25327 0 0 0 0.91206 1 42655 42655 0.6015 0 1 + 8691 15702 5643 5660 10058 10058 0.12927179176926984 GVRRVAEL 8 Unmodified _GVRRVAEL_ 0 0 0 ENSG00000165118|ENST00000376344|C9orf64 ENSG00000165118|ENST00000376344|C9orf64 ENSG00000165118|ENST00000376344|C9orf64 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.2755432128906 2 450.274701 898.534849 3.6624 0.0016491 -1.4256 -0.00064192 2.2367 0.0010071 450.2740241236553 98.635 0.088928 98.935 98.887 98.976 0.29987 8 5 2 0 0 0 0.74071 1 45482 45482 2.5775 0 1 1125300 8692 4373 5644 5661 10059 10059 0.08152313228504227 GVRRVLRVH 9 Unmodified _GVRRVLRVH_ 0 0 0 ENST00000536901.1_1_4:1720289-1722919:-|nuORF;ENST00000303277.6_1_4:1720289-1722919:-|nuORF ENST00000536901.1_1_4:1720289-1722919:-|nuORF ENST00000536901.1_1_4:1720289-1722919:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.349853515625 2 546.349066 1090.68358 NaN NaN NaN NaN NaN NaN NaN 92.272 1 92.919 92.419 93.419 0.64714 0 0 0 0.90611 1 42454 42454 2.0598 0.21551 1 8693 6821 5645 5662 10060 10060 0.14186463922078474 GVRRVRKPL 9 Unmodified _GVRRVRKPL_ 0 0 0 ENST00000327906.7_1_3:52445075-52445192:+|nuORF ENST00000327906.7_1_3:52445075-52445192:+|nuORF ENST00000327906.7_1_3:52445075-52445192:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 360.5753173828125 3 360.908603 1079.70398 NaN NaN NaN NaN NaN NaN NaN 31.906 1 32.694 32.194 33.194 0.78795 0 0 0 0.89509 1 14418 14418 2.7352 0.99292 1 8694 6968 5646 5663 10061 10061 0.16731634581879007 GVRSQMREQ 9 Unmodified _GVRSQMREQ_ 0 0 0 REV__nc|ENSG00000196498|Q9Y618-5|NCOR2 REV__nc|ENSG00000196498|Q9Y618-5|NCOR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.7750244140625 2 545.774739 1089.53493 NaN NaN NaN NaN NaN NaN NaN 32.665 1 32.665 32.165 33.165 0 0 0 0 0.90699 1 14793 14793 1.8442 0 1 + 8695 14222 5647 5664 10062 10062 -0.006260548337877481 GVRTAPGW 8 Unmodified _GVRTAPGW_ 0 0 0 ENST00000522153.1_1_5:149786338-149792312:-|nuORF ENST00000522153.1_1_5:149786338-149792312:-|nuORF ENST00000522153.1_1_5:149786338-149792312:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.2288818359375 2 422.22722 842.439886 2.9889 0.001262 1.5778 0.00066621 4.5668 0.0019282 422.2278493760823 54.769 0.19702 54.769 54.694 54.891 0 32 20 2 0 0 0 0.7441 1 25148 25148 2.3027 0 1 833030 8696 8647 5648 5665 10063 10063 0.012363797573243573 GVRTARWR 8 Unmodified _GVRTARWR_ 0 0 0 ENST00000586590.5_2_19:11456273-11456894:-|nuORF;ENST00000394705.2_1_2:54081954-54087114:-|nuORF ENST00000586590.5_2_19:11456273-11456894:-|nuORF ENST00000586590.5_2_19:11456273-11456894:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.29119873046875 2 501.291217 1000.56788 3.0511 0.0015295 -0.69492 -0.00034835 2.3562 0.0011812 501.2907932816766 78.748 1.673 78.999 78.211 79.884 0.25127 201 105 2 0 0 0 0.7441 1 36418 36418 2.3027 0.24298 1 1159000 8697 7545 5649 5666 10064 10064 0.06761940071226036 GVRTARWR 8 Unmodified _GVRTARWR_ 0 0 0 ENST00000586590.5_2_19:11456273-11456894:-|nuORF;ENST00000394705.2_1_2:54081954-54087114:-|nuORF ENST00000586590.5_2_19:11456273-11456894:-|nuORF ENST00000586590.5_2_19:11456273-11456894:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.2930908203125 2 501.291217 1000.56788 3.009 0.0015084 0.25927 0.00012997 3.2682 0.0016383 501.29146390903406 79.675 0.27818 79.925 79.837 80.115 0.24947 28 17 2 0 0 0 0.7441 1 36698 36698 2.3027 0.24298 1 541810 8698 7545 5649 5666 10065 10065 0.06761940071226036 GVRTARWR 8 Unmodified _GVRTARWR_ 0 0 0 ENST00000586590.5_2_19:11456273-11456894:-|nuORF;ENST00000394705.2_1_2:54081954-54087114:-|nuORF ENST00000586590.5_2_19:11456273-11456894:-|nuORF ENST00000586590.5_2_19:11456273-11456894:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.28912353515625 2 501.291217 1000.56788 3.8527 0.0019313 -1.7034 -0.00085388 2.1493 0.0010774 501.2900821720229 93.915 0.36482 94.174 93.959 94.324 0.25975 31 19 2 0 0 0 0.7441 1 43158 43158 2.3027 1.5091 1 311900 8699 7545 5649 5666 10066 10066 0.06761940071226036 GVRTARWR 8 Unmodified _GVRTARWR_ 0 0 0 ENST00000586590.5_2_19:11456273-11456894:-|nuORF;ENST00000394705.2_1_2:54081954-54087114:-|nuORF ENST00000586590.5_2_19:11456273-11456894:-|nuORF ENST00000586590.5_2_19:11456273-11456894:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.2916564941406 2 501.291217 1000.56788 3.1802 0.0015942 -0.80682 -0.00040445 2.3733 0.0011897 501.2907464807802 78.42 2.0239 79.082 78.283 80.307 0.66198 237 131 2 0 0 0 0.7441 2 36282 36282;36393 2.3027 0.4585 1 1407600 8700 7545 5649 5666 10067;10068 10067 0.06761940071226036 GVRTARWR 8 Unmodified _GVRTARWR_ 0 0 0 ENST00000586590.5_2_19:11456273-11456894:-|nuORF;ENST00000394705.2_1_2:54081954-54087114:-|nuORF ENST00000586590.5_2_19:11456273-11456894:-|nuORF ENST00000586590.5_2_19:11456273-11456894:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.2923583984375 2 501.291217 1000.56788 3.4277 0.0017183 -1.2268 -0.00061497 2.201 0.0011033 501.2904950735237 93.464 0.30402 94.095 93.936 94.24 0.63115 25 14 2 0 0 0 0.7471 1 43051 43051 0.79363 0.10326 1 421980 8701 7545 5649 5666 10069 10069 0.06761940071226036 GVRTARWR 8 Unmodified _GVRTARWR_ 0 0 0 ENST00000586590.5_2_19:11456273-11456894:-|nuORF;ENST00000394705.2_1_2:54081954-54087114:-|nuORF ENST00000586590.5_2_19:11456273-11456894:-|nuORF ENST00000586590.5_2_19:11456273-11456894:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 501.291217 1000.56788 3.4277 0.0017183 -1.2268 -0.00061497 2.201 0.0011033 501.2904950735237 93.464 0.30402 94.095 93.936 94.24 0.63115 -0.039595 0.00021319 NaN 2.3027 25 14 2 NaN NaN NaN NaN 0 NaN NaN 0 421980 8702 7545 5649 5666 0.06761940071226036 GVRVKFRKAQY 11 Unmodified _GVRVKFRKAQY_ 0 0 0 REV__ENSG00000126218|ENST00000375559|F10 REV__ENSG00000126218|ENST00000375559|F10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 676.4020385742188 2 676.401496 1350.78844 NaN NaN NaN NaN NaN NaN NaN 69.114 1 69.368 68.868 69.868 0.25443 0 0 0 1.008 1 31660 31660 0.35063 0 1 + 8703 11707 5650 5667 10070 10070 0.12707540607993906 GVRVQWYEW 9 Unmodified _GVRVQWYEW_ 0 0 0 REV__ENST00000367558.5_1_1:182572378-182573464:-|nuORF REV__ENST00000367558.5_1_1:182572378-182573464:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.8048095703125 2 611.803823 1221.59309 NaN NaN NaN NaN NaN NaN NaN 14.221 1 14.528 14.028 15.028 0.3069 0 0 0 0.91206 1 6435 6435 0.6015 0 1 + 8704 15663 5651 5668 10071 10071 -0.008840499168627503 GVRVQWYEWYR 11 Unmodified _GVRVQWYEWYR_ 0 0 0 REV__ENST00000367558.5_1_1:182572378-182573464:-|nuORF REV__ENST00000367558.5_1_1:182572378-182573464:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 771.38720703125 2 771.386042 1540.75753 NaN NaN NaN NaN NaN NaN NaN 41.157 1 41.802 41.302 42.302 0.64451 0 0 0 1.0072 1 18825 18825 1.3295 0 1 + 8705 15663 5652 5669 10072 10072 0.008783425030742364 GVRVRLRAVQ 10 Unmodified _GVRVRLRAVQ_ 0 0 0 REV__ENST00000392894.7_1_3:149530688-149531075:+|nuORF REV__ENST00000392894.7_1_3:149530688-149531075:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.3690795898438 2 577.367456 1152.72036 4.1639 0.0024041 -1.6984 -0.00098058 2.4655 0.0014235 577.366098196576 108.96 1.0289 109.27 108.87 109.9 0.31168 67 42 2 0 0 0 0.94217 2 50079 50079;50298 0.45834 0 1 113190 + 8706 15939 5653 5670 10073;10074 10073 0.15010715747962422 GVRVRLRAVQ 10 Unmodified _GVRVRLRAVQ_ 0 0 0 REV__ENST00000392894.7_1_3:149530688-149531075:+|nuORF REV__ENST00000392894.7_1_3:149530688-149531075:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.3678588867188 2 577.367456 1152.72036 NaN NaN NaN NaN NaN NaN NaN 108.43 1 108.74 108.24 109.24 0.31168 0 0 0 1.0015 1 50005 50005 0.45834 0 1 + 8707 15939 5653 5670 10075 10075 0.15010715747962422 GVRVRPHLLGK 11 Unmodified _GVRVRPHLLGK_ 0 0 0 REV__ENSG00000078814|ENST00000262873|MYH7B REV__ENSG00000078814|ENST00000262873|MYH7B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 411.26239013671875 3 411.263046 1230.76731 NaN NaN NaN NaN NaN NaN NaN 51.751 1 52.561 52.061 53.061 0.81065 0 0 0 1.0074 1 23573 23573 1.1098 0.95043 1 + 8708 10576 5654 5671 10076 10076 0.16115575299090779 GVRVRRTLRK 10 Unmodified _GVRVRRTLRK_ 0 0 0 ENSG00000066279|ENST00000367409|ASPM ENSG00000066279|ENST00000367409|ASPM ENSG00000066279|ENST00000367409|ASPM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 620.9057006835938 2 620.907279 1239.80001 NaN NaN NaN NaN NaN NaN NaN 78.921 1 79.583 79.083 80.083 0.66198 0 0 0 1.0015 1 36367 36367 0.45834 0 1 8709 703 5655 5672 10077 10077 0.1896978242195928 GVRWYLIE 8 Unmodified _GVRWYLIE_ 0 0 0 chr10:89462624-89506310|321|10.73|0.6|4.16|-|2|TE_info:L1PA7,L1PA7_dup9423,L1,LINE,donor,+,89506310,89511743|SLC16A12,None|6 chr10:89462624-89506310|321|10.73|0.6|4.16|-|2|TE_info:L1PA7,L1PA7_dup9423,L1,LINE,donor,+,89506310,89511743|SLC16A12,None|6 chr10:89462624-89506310|321|10.73|0.6|4.16|-|2|TE_info:L1PA7,L1PA7_dup9423,L1,LINE,donor,+,89506310,89511743|SLC16A12,None|6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.85992431640625 3 345.858915 1034.55492 2.7878 0.0009642 0.2397 8.2901E-05 3.0275 0.0010471 345.85895230705233 8.2161 0.65227 8.8427 8.4456 9.0978 0.62663 79 42 3 0 0 0 0.7471 1 3616 3616 0.45834 0 1 86158 8710 133 5656 5673 10078 10078 0.03902064168482866 GVRYIWFQH 9 Unmodified _GVRYIWFQH_ 0 0 0 ENSG00000132879|ENST00000251547|FBXO44 ENSG00000132879|ENST00000251547|FBXO44 ENSG00000132879|ENST00000251547|FBXO44 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 603.31689453125 2 603.314358 1204.61416 NaN NaN NaN NaN NaN NaN NaN 76.966 1 77.629 77.129 78.129 0.66303 0 0 0 0.90611 1 35467 35467 2.0598 0.40713 1 8711 2733 5657 5674 10079 10079 0.02003960182651099 GVRYRCKDVV 10 Unmodified _GVRYRCKDVV_ 0 0 0 ENST00000573165.1_2_16:4475609-4475657:-|nuORF ENST00000573165.1_2_16:4475609-4475657:-|nuORF ENST00000573165.1_2_16:4475609-4475657:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 597.8253173828125 2 597.824232 1193.63391 NaN NaN NaN NaN NaN NaN NaN 26.237 1 26.237 25.737 26.737 0 0 0 0 1.0001 1 11801 11801 1.6526 0.17072 1 8712 9105 5658 5675 10080 10080 0.044839681310804735 GVSAKGKRKPR 11 Unmodified _GVSAKGKRKPR_ 0 0 0 ENST00000505973.1_1_2:27805995-27824299:+|nuORF;nc|ENSG00000243943|Q96ME7-2|ZNF512;nc|ENSG00000243943|Q96ME7-3|ZNF512;ENSG00000243943|ENST00000355467|ZNF512 ENST00000505973.1_1_2:27805995-27824299:+|nuORF ENST00000505973.1_1_2:27805995-27824299:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 592.3721313476562 2 592.372738 1182.73092 NaN NaN NaN NaN NaN NaN NaN 99.469 1 99.469 98.969 99.969 0 0 0 0 0.99571 1 54712 54712 7.1017 2.7725 1 8713 6243 5659 5676 10081 10081 0.1468669840239727 GVSALVPS 8 Unmodified _GVSALVPS_ 0 0 0 REV__nc|ENSG00000165689|Q96C92-3|ENTR1 REV__nc|ENSG00000165689|Q96C92-3|ENTR1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.885986328125 2 365.210704 728.406855 2.6879 0.00098165 1.2323 0.00045003 3.9201 0.0014317 365.2105088054785 36.052 0.35355 36.678 36.491 36.845 0.62631 21 11 3 0 0 0 0.13917 1 16519 16519 9.3474 3.587 1 1113100 + 8714 13181 5660 5677 10082 10082 0.0317875291460723 GVSAQRVPN 9 Unmodified _GVSAQRVPN_ 0 0 0 REV__ENSG00000120437|ENST00000367048|ACAT2 REV__ENSG00000120437|ENST00000367048|ACAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.25506591796875 2 464.253966 926.493378 2.9937 0.0013898 -0.0012932 -6.0039E-07 2.9924 0.0013892 464.2538367504069 90.861 0.45721 91.534 91.307 91.764 0.67271 74 25 4 0 0 0 1.1154 1 41908 41908 2.0598 0.21551 1 2775500 + 8715 11536 5661 5678 10083 10083 0.027191324691784757 GVSFRARLL 9 Unmodified _GVSFRARLL_ 0 0 0 ENSG00000115155|ENST00000272371|OTOF;nc|ENSG00000115155|Q9HC10-5|OTOF ENSG00000115155|ENST00000272371|OTOF ENSG00000115155|ENST00000272371|OTOF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 340.526611328125 3 340.210059 1017.60835 NaN NaN NaN NaN NaN NaN NaN 12.841 1 12.841 12.341 13.341 0 0 0 0 0.90511 1 5603 5603 1.1933 0 1 8716 1946 5662 5679 10084 10084 0.10024861670990504 GVSFSLAASI 10 Unmodified _GVSFSLAASI_ 0 0 0 ENSG00000204424|ENST00000375832|LY6G6F;nc|ENSG00000204424|Q5SQ64-2|LY6G6F ENSG00000204424|ENST00000375832|LY6G6F ENSG00000204424|ENST00000375832|LY6G6F MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.8436279296875 3 317.843042 950.507297 2.0858 0.00066297 0.47052 0.00014955 2.5563 0.00081252 317.843107066125 15.609 0.77356 15.915 15.575 16.349 0.306 150 86 2 0 0 0 0.82825 1 7091 7091 7.1017 2.7725 1 137590 8717 6009 5663 5680 10085 10085 0.030063651776117695 GVSFSLAASI 10 Unmodified _GVSFSLAASI_ 0 0 0 ENSG00000204424|ENST00000375832|LY6G6F;nc|ENSG00000204424|Q5SQ64-2|LY6G6F ENSG00000204424|ENST00000375832|LY6G6F ENSG00000204424|ENST00000375832|LY6G6F MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 317.843042 950.507297 2.1901 0.00069612 1.0957 0.00034826 3.2858 0.0010444 317.8432833646429 15.513 0.68498 16.166 15.94 16.625 0.65356 0.1256 0.00028434 NaN 7.1017 210 93 3 NaN NaN NaN NaN 0 NaN NaN 0 177060 8718 6009 5663 5680 0.030063651776117695 GVSGELLHM 9 Unmodified _GVSGELLHM_ 0 0 0 REV__nc|ENSG00000121270|Q96J66-2|ABCC11 REV__nc|ENSG00000121270|Q96J66-2|ABCC11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.8293762207031 3 314.828627 941.464052 1.803 0.00056764 0.63843 0.000201 2.4414 0.00076863 314.8287948131436 13.399 0.24023 13.706 13.536 13.776 0.30727 31 19 2 0 0 0 0.89849 1 6035 6035 5.7319 1.4026 1 133310 + 8719 11552 5664 5681 10086 10086 -0.009021478713179931 GVSHEPKQH 9 Unmodified _GVSHEPKQH_ 0 0 0 ENSG00000151490|ENST00000281171|PTPRO;nc|ENSG00000151490|Q16827-5|PTPRO;nc|ENSG00000151490|Q16827-2|PTPRO ENSG00000151490|ENST00000281171|PTPRO ENSG00000151490|ENST00000281171|PTPRO MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.7579040527344 2 509.756872 1017.49919 NaN NaN NaN NaN NaN NaN NaN 88.91 1 89.161 88.661 89.661 0.25118 0 0 0 0.90611 1 40898 40898 2.0598 0 1 8720 3712 5665 5682 10087 10087 -0.008857690191462098 GVSIYYGT 8 Unmodified _GVSIYYGT_ 0 0 0 ENSG00000181718|ENST00000641661|OR5T2;nc|ENSG00000181718|Q8NGG2|OR5T2 ENSG00000181718|ENST00000641661|OR5T2 ENSG00000181718|ENST00000641661|OR5T2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 859.3778076171875 1 859.41961 858.412334 2.3596 0.0020279 1.8459 0.0015864 4.2055 0.0036143 859.4221201236611 99.642 0.26067 99.704 99.546 99.806 0.062241 33 21 2 0 0 0 0.14111 1 53877 53877 5.7604 0 1 64412000 8721 5297 5666 5683 10088 10088 -0.022535682935654222 GVSKIRLLTIR 11 Unmodified _GVSKIRLLTIR_ 0 0 0 ENSG00000120800|ENST00000261637|UTP20;UTP20|p.F1622Lfs*17|1|0.09|ENSG00000120800|chr12:101346566-101346567|-/TTTAGTATCGTATTCTC|frameshift_variant ENSG00000120800|ENST00000261637|UTP20 ENSG00000120800|ENST00000261637|UTP20 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 628.4136962890625 2 628.414072 1254.81359 NaN NaN NaN NaN NaN NaN NaN 54.324 1 54.588 54.088 55.088 0.26462 0 0 0 1.008 1 24840 24840 0.35063 0 1 8722 2213 5667 5684 10089 10089 0.19637595410540598 GVSKMKRRKRI 11 Unmodified _GVSKMKRRKRI_ 0 0 0 REV__HIVEP1|p.S2208Qfs*19|1|0.2|ENSG00000095951|chr6:12161570-12161570|C/-|frameshift_variant REV__HIVEP1|p.S2208Qfs*19|1|0.2|ENSG00000095951|chr6:12161570-12161570|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 679.6845092773438 2 679.929897 1357.84524 NaN NaN NaN NaN NaN NaN NaN 78.568 1 79.032 78.532 79.532 0.4642 0 0 0 1.0057 1 38210 38210 3.2813 0.28607 1 + 8723 10770 5668 5685 10090 10090 0.18063264892862207 GVSKRTIPKFP 11 Unmodified _GVSKRTIPKFP_ 0 0 0 REV__ENSG00000166902|ENST00000300151|MRPL16 REV__ENSG00000166902|ENST00000300151|MRPL16 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 615.3713989257812 2 615.371872 1228.72919 NaN NaN NaN NaN NaN NaN NaN 30.709 1 30.709 30.209 31.209 0 0 0 0 1.0073 1 13877 13877 1.1933 0.23107 1 + 8724 13267 5669 5686 10091 10091 0.12397644593784207 GVSLEVKSL 9 Unmodified _GVSLEVKSL_ 0 0 0 REV__nc|ENSG00000154654|O15394-2|NCAM2 REV__nc|ENSG00000154654|O15394-2|NCAM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.27886962890625 2 466.276575 930.538597 2.7516 0.001283 0.88945 0.00041473 3.6411 0.0016977 466.27707191839926 32.612 0.28278 33.23 33.069 33.352 0.61831 28 12 3 0 0 0 0.3144 1 14997 14997 15.847 1.0089 1 470660 + 8725 12716 5670 5687 10092 10092 0.07054938211717854 GVSLLHQFI 9 Unmodified _GVSLLHQFI_ 0 0 0 ENST00000283131.3_1_4:144434858-144434999:+|nuORF ENST00000283131.3_1_4:144434858-144434999:+|nuORF ENST00000283131.3_1_4:144434858-144434999:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 338.53192138671875 3 338.530798 1012.57057 NaN NaN NaN NaN NaN NaN NaN 16.627 1 16.828 16.328 17.328 0.20057 0 0 0 0.89509 1 7346 7346 2.7352 0.82882 1 8726 6704 5671 5688 10093 10093 0.06478350685517853 GVSLRSLYKRS 11 Unmodified _GVSLRSLYKRS_ 0 0 0 ENSG00000142185|ENST00000397928|TRPM2;nc|ENSG00000142185|O94759-2|TRPM2;nc|ENSG00000142185|O94759-3|TRPM2 ENSG00000142185|ENST00000397928|TRPM2 ENSG00000142185|ENST00000397928|TRPM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.3718872070312 2 633.369861 1264.72517 4.2694 0.0027041 -0.9001 -0.0005701 3.3693 0.002134 633.3692298680046 91.899 1.3015 92.152 91.424 92.725 0.25253 203 62 4 0 0 0 0.91068 2 42401 42401;42446 1.3295 0.13619 1 4722900 8727 3298 5672 5689 10094;10095 10094 0.1033955510006308 GVSLRSLYKRS 11 Unmodified _GVSLRSLYKRS_ 0 0 0 ENSG00000142185|ENST00000397928|TRPM2;nc|ENSG00000142185|O94759-2|TRPM2;nc|ENSG00000142185|O94759-3|TRPM2 ENSG00000142185|ENST00000397928|TRPM2 ENSG00000142185|ENST00000397928|TRPM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.37158203125 2 633.369861 1264.72517 4.0646 0.0025744 -0.70728 -0.00044797 3.3573 0.0021264 633.369310370016 89.385 1.5481 90.063 89.107 90.655 0.67818 130 71 3 0 0 0 0.91068 1 41166 41166 1.3295 0.13619 1 1256400 8728 3298 5672 5689 10096 10096 0.1033955510006308 GVSLRSLYKRS 11 Unmodified _GVSLRSLYKRS_ 0 0 0 ENSG00000142185|ENST00000397928|TRPM2;nc|ENSG00000142185|O94759-2|TRPM2;nc|ENSG00000142185|O94759-3|TRPM2 ENSG00000142185|ENST00000397928|TRPM2 ENSG00000142185|ENST00000397928|TRPM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.371826171875 2 633.369861 1264.72517 4.079 0.0025835 -0.99884 -0.00063264 3.0801 0.0019509 633.3691578354671 91.522 1.3285 92.184 91.419 92.747 0.66198 211 67 4 0 0 0 0.91068 2 42042 42042;42141 1.3295 0.13619 1 5118200 8729 3298 5672 5689 10097;10098 10097 0.1033955510006308 GVSRFPEEDG 10 Unmodified _GVSRFPEEDG_ 0 0 0 REV__MYOM2|p.Y715Ifs*15|2|0.11|ENSG00000036448|chr8:2096254-2096255|-/TCCCA|frameshift_variant REV__MYOM2|p.Y715Ifs*15|2|0.11|ENSG00000036448|chr8:2096254-2096255|-/TCCCA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.1528930664062 2 546.751453 1091.48835 NaN NaN NaN NaN NaN NaN NaN 54.515 1 54.515 54.015 55.015 0 0 0 0 1.0003 1 25015 25015 1.4819 0.68827 1 + 8730 10302 5673 5690 10099 10099 -0.05373216184102603 GVSRGLILSHR 11 Unmodified _GVSRGLILSHR_ 0 0 0 REV__ENST00000489018.1_1_1:109813196-109815028:+|nuORF REV__ENST00000489018.1_1_1:109813196-109815028:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.8587036132812 2 597.856921 1193.69929 3.9924 0.0023869 -0.84278 -0.00050386 3.1496 0.001883 597.8562840729154 88.049 1.5851 88.3 87.389 88.974 0.25064 150 71 3 0 0 0 0.91068 1 40549 40549 1.3295 0.13619 1 2539600 + 8731 16785 5674 5691 10100 10100 0.11018705648439209 GVSRGLILSHR 11 Unmodified _GVSRGLILSHR_ 0 0 0 REV__ENST00000489018.1_1_1:109813196-109815028:+|nuORF REV__ENST00000489018.1_1_1:109813196-109815028:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.859619140625 2 597.856921 1193.69929 4.0643 0.0024299 -0.53944 -0.00032251 3.5248 0.0021073 597.8564602953894 88.979 0.97191 89.23 88.792 89.763 0.25118 64 42 3 0 0 0 0.91068 1 40990 40990 1.3295 0 1 853210 + 8732 16785 5674 5691 10101 10101 0.11018705648439209 GVSRGLILSHR 11 Unmodified _GVSRGLILSHR_ 0 0 0 REV__ENST00000489018.1_1_1:109813196-109815028:+|nuORF REV__ENST00000489018.1_1_1:109813196-109815028:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.8580322265625 2 597.856921 1193.69929 4.1819 0.0025002 -1.1487 -0.00068674 3.0332 0.0018134 597.856047462573 87.599 1.5253 88.275 87.488 89.013 0.67554 152 70 4 0 0 0 0.91111 1 40576 40576 1.1933 0.735 1 3695000 + 8733 16785 5674 5691 10102 10102 0.11018705648439209 GVSRKPPC 8 Unmodified _GVSRKPPC_ 0 0 0 ENST00000539243.6_1_19:1086416-1086608:+|nuORF ENST00000539243.6_1_19:1086416-1086608:+|nuORF ENST00000539243.6_1_19:1086416-1086608:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.2288818359375 2 422.228905 842.443257 2.671 0.0011278 -1.5867 -0.00066993 1.0843 0.00045782 422.22813664353066 54.656 0.23768 54.921 54.74 54.977 0.26543 20 14 3 0 0 0 0.70799 1 24965 24965 5.2307 0 1 2013800 8734 8791 5675 5692 10103 10103 0.015733065396716484 GVSRKPPC 8 Unmodified _GVSRKPPC_ 0 0 0 ENST00000539243.6_1_19:1086416-1086608:+|nuORF ENST00000539243.6_1_19:1086416-1086608:+|nuORF ENST00000539243.6_1_19:1086416-1086608:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 422.228905 842.443257 2.9889 0.001262 -2.4139 -0.0010192 0.57506 0.00024281 422.2278493760823 54.769 0.19702 54.769 54.694 54.891 0 -0.089011 -0.0001598 NaN 5.2307 32 20 2 NaN NaN NaN NaN 0 NaN NaN 0 833030 8735 8791 5675 5692 0.015733065396716484 GVSRKPPC 8 Unmodified _GVSRKPPC_ 0 0 0 ENST00000539243.6_1_19:1086416-1086608:+|nuORF ENST00000539243.6_1_19:1086416-1086608:+|nuORF ENST00000539243.6_1_19:1086416-1086608:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 422.228905 842.443257 2.4556 0.0010368 -2.2192 -0.000937 0.23647 9.9846E-05 422.2278675399633 53.949 0.46379 54.745 54.477 54.94 0.79552 -0.1134 4.611E-06 NaN 5.2307 52 21 3 NaN NaN NaN NaN 0 NaN NaN 0 1991000 8736 8791 5675 5692 0.015733065396716484 GVSRKPPC 8 Unmodified _GVSRKPPC_ 0 0 0 ENST00000539243.6_1_19:1086416-1086608:+|nuORF ENST00000539243.6_1_19:1086416-1086608:+|nuORF ENST00000539243.6_1_19:1086416-1086608:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 422.228905 842.443257 2.8925 0.0012213 -2.4283 -0.0010253 0.46414 0.00019597 422.2277793058748 54.331 0.35894 54.997 54.78 55.139 0.6665 0.13915 -0.00017203 NaN 5.2307 43 20 3 NaN NaN NaN NaN 0 NaN NaN 0 4727000 8737 8791 5675 5692 0.015733065396716484 GVSRLRNLRP 10 Unmodified _GVSRLRNLRP_ 0 0 0 ENSG00000128268|ENST00000341184|MGAT3 ENSG00000128268|ENST00000341184|MGAT3 ENSG00000128268|ENST00000341184|MGAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.3575439453125 2 584.357088 1166.69962 3.5428 0.0020703 -0.65702 -0.00038394 2.8858 0.0016864 584.3565834047538 85.728 0.64976 85.976 85.416 86.066 0.24857 47 33 2 0 0 0 0.94217 1 39276 39276 0.45834 0 1 868700 8738 2504 5676 5693 10104 10104 0.12294125368293862 GVSRLRNLRP 10 Unmodified _GVSRLRNLRP_ 0 0 0 ENSG00000128268|ENST00000341184|MGAT3 ENSG00000128268|ENST00000341184|MGAT3 ENSG00000128268|ENST00000341184|MGAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.360107421875 2 584.357088 1166.69962 3.6914 0.0021571 -0.88943 -0.00051975 2.8019 0.0016373 584.356510902898 85.392 1.0548 86.057 85.471 86.526 0.66566 91 50 2 0 0 0 0.94217 1 39166 39166 0.45834 0 1 1243800 8739 2504 5676 5693 10105 10105 0.12294125368293862 GVSRPSLRAKG 11 Unmodified _GVSRPSLRAKG_ 0 0 0 REV__ENSG00000155363|ENST00000369645|MOV10 REV__ENSG00000155363|ENST00000369645|MOV10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.3336181640625 2 564.335821 1126.65709 NaN NaN NaN NaN NaN NaN NaN 17.883 1 18.084 17.584 18.584 0.20057 0 0 0 1.0063 1 7927 7927 2.4985 0.19575 1 + 8740 12738 5677 5694 10106 10106 0.0988273024006503 GVSRQGNSLH 10 Unmodified _GVSRQGNSLH_ 0 0 0 REV__ENSG00000148429|ENST00000609104|USP6NL REV__ENSG00000148429|ENST00000609104|USP6NL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.7708129882812 2 527.773054 1053.53155 NaN NaN NaN NaN NaN NaN NaN 101.56 1 101.88 101.38 102.38 0.31737 0 0 0 0.9952 1 46993 46993 5.7319 0.97584 1 + 8741 12538 5678 5695 10107 10107 0.006930183838449011 GVSRRAVNKF 10 Unmodified _GVSRRAVNKF_ 0 0 0 REV__nc|ENSG00000108406|Q8IX18-4|DHX40 REV__nc|ENSG00000108406|Q8IX18-4|DHX40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.33154296875 2 567.330539 1132.64652 3.6436 0.0020671 -0.87711 -0.00049761 2.7665 0.0015695 567.3299142838137 85.817 1.6519 86.066 85.213 86.865 0.24857 189 85 3 0 0 0 0.93628 1 39687 39687 1.6526 0 1 2716600 + 8742 11143 5679 5696 10108 10108 0.08550747585650242 GVSRRAVNKF 10 Unmodified _GVSRRAVNKF_ 0 0 0 REV__nc|ENSG00000108406|Q8IX18-4|DHX40 REV__nc|ENSG00000108406|Q8IX18-4|DHX40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.33154296875 2 567.330539 1132.64652 3.738 0.0021207 -0.80606 -0.0004573 2.9319 0.0016634 567.329888988863 85.423 1.7358 86.089 85.344 87.08 0.66566 236 91 4 0 0 0 0.93628 1 39147 39147 1.6526 0 1 3198100 + 8743 11143 5679 5696 10109 10109 0.08550747585650242 GVSSLCDDMCL 11 Unmodified _GVSSLCDDMCL_ 0 0 0 REV__ENST00000537298.5_1_12:65952522-65981187:-|nuORF REV__ENST00000537298.5_1_12:65952522-65981187:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.15631103515625 3 381.489065 1141.44537 NaN NaN NaN NaN NaN NaN NaN 18.371 1 18.673 18.173 19.173 0.30158 0 0 0 1.0071 1 8329 8329 0.50596 0 1 + 8744 17187 5680 5697 10110 10110 -0.1196981361968028 GVSSSTDGTMK 11 Unmodified _GVSSSTDGTMK_ 0 0 0 ENST00000546039.5_1_11:73589845-73611421:+|nuORF;nc|ENSG00000175575|Q9BRP4-2|PAAF1;ENSG00000175575|ENST00000310571|PAAF1 ENST00000546039.5_1_11:73589845-73611421:+|nuORF ENST00000546039.5_1_11:73589845-73611421:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.7448120117188 2 535.245146 1068.47574 2.8146 0.0015065 -0.64485 -0.00034515 2.1698 0.0011614 535.2465874935707 38.542 1.5627 38.806 38.603 40.165 0.26408 88 60 3 0 0 0 0.75723 2 17951 17951;18012 8.7454 0 1 1920900 8745 5037 5681 5698 10111;10112 10111 -0.05575995638628228 GVSSYEGSMA 10 Unmodified _GVSSYEGSMA_ 0 0 0 nc|ENSG00000148498|Q8TEW0-5|PARD3;nc|ENSG00000148498|Q8TEW0-3|PARD3;nc|ENSG00000148498|Q8TEW0-7|PARD3;nc|ENSG00000148498|Q8TEW0-6|PARD3;nc|ENSG00000148498|Q8TEW0-4|PARD3;nc|ENSG00000148498|Q8TEW0-11|PARD3;ENSG00000148498|ENST00000374788|PARD3;nc|ENSG00000148498|Q8TEW0|PARD3 nc|ENSG00000148498|Q8TEW0-5|PARD3 nc|ENSG00000148498|Q8TEW0-5|PARD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.20703125 2 494.208032 986.401511 NaN NaN NaN NaN NaN NaN NaN 74.03 1 74.03 73.53 74.53 0 0 0 0 0.99733 1 36128 36128 3.9444 1.3669 1 8746 3608 5682 5699 10113 10113 -0.09223338730157593 GVSTPVTPLV 10 Unmodified _GVSTPVTPLV_ 0 0 0 REV__nc|ENSG00000256463|Q9BXA9-3|SALL3 REV__nc|ENSG00000256463|Q9BXA9-3|SALL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2879333496094 2 485.2844 968.554247 NaN NaN NaN NaN NaN NaN NaN 48.716 1 48.978 48.478 49.478 0.26209 0 0 0 0.99774 1 22270 22270 3.5965 0 1 + 8747 14677 5683 5700 10114 10114 0.06871224728763536 GVSVKIKSK 9 Unmodified _GVSVKIKSK_ 0 0 0 REV__MLT1B_dup5245|chr5:1440525-1440922:+|1.024937348100123|0.0159006092153761|6.01|482.0|23|2|anti-sense REV__MLT1B_dup5245|chr5:1440525-1440922:+|1.024937348100123|0.0159006092153761|6.01|482.0|23|2|anti-sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 315.87567138671875 3 315.874565 944.601866 2.2206 0.00070143 0.98111 0.00030991 3.2017 0.0010113 315.8748618777117 5.4673 0.70406 5.4673 4.9675 5.6716 0 149 85 2 0 0 0 1.2289 1 2484 2484 0.26902 0 1 121010 + 8748 17837 5684 5701 10115 10115 0.12734923719619928 GVSVKIKSK 9 Unmodified _GVSVKIKSK_ 0 0 0 REV__MLT1B_dup5245|chr5:1440525-1440922:+|1.024937348100123|0.0159006092153761|6.01|482.0|23|2|anti-sense REV__MLT1B_dup5245|chr5:1440525-1440922:+|1.024937348100123|0.0159006092153761|6.01|482.0|23|2|anti-sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 315.874565 944.601866 1.4824 0.00046826 1.4767 0.00046644 2.9591 0.0009347 315.87503589673844 5.2594 0.57823 5.564 5.2848 5.863 0.30465 0.048398 0.00024491 NaN 0.26902 131 79 2 NaN NaN NaN NaN 0 NaN NaN 0 124900 + 8749 17837 5684 5701 0.12734923719619928 GVSVPVPLL 9 Unmodified _GVSVPVPLL_ 0 0 0 ENST00000368680.3_1_1:153651402-153651519:+|nuORF ENST00000368680.3_1_1:153651402-153651519:+|nuORF ENST00000368680.3_1_1:153651402-153651519:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 440.7818298339844 2 440.778754 879.542954 NaN NaN NaN NaN NaN NaN NaN 51.782 1 52.592 52.092 53.092 0.81065 0 0 0 0.90511 1 23587 23587 2.3027 0 1 8750 7284 5685 5702 10116 10116 0.09836447425288952 GVSWESSF 8 Unmodified _GVSWESSF_ 0 0 0 REV__ENSG00000140254|ENST00000560572|DUOXA1 REV__ENSG00000140254|ENST00000560572|DUOXA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 449.6997985839844 2 449.7007 897.386848 NaN NaN NaN NaN NaN NaN NaN 13.18 1 13.424 12.924 13.924 0.24346 0 0 0 0.99035 1 5746 5746 2.5775 0.51773 1 + 8751 12233 5686 5703 10117 10117 -0.06595042815990837 GVSWWFRPWW 10 Unmodified _GVSWWFRPWW_ 0 0 0 REV__ENST00000254351.8_1_2:20401609-20401801:-|nuORF REV__ENST00000254351.8_1_2:20401609-20401801:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 703.8457641601562 2 703.843282 1405.67201 4.1627 0.0029299 -1.5485 -0.0010899 2.6141 0.0018399 703.841975275003 104.75 0.25986 105.35 105.2 105.46 0.59885 41 35 2 0 0 0 0.94217 1 48389 48389 0.45834 0 1 476100 + 8752 14923 5687 5704 10118 10118 -0.0145977789193239 GVTGYEQF 8 Unmodified _GVTGYEQF_ 0 0 0 REV__ENSG00000124098|ENST00000371384|FAM210B REV__ENSG00000124098|ENST00000371384|FAM210B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.71026611328125 2 450.708525 899.402498 NaN NaN NaN NaN NaN NaN NaN 76.64 1 77.264 76.764 77.764 0.62397 0 0 0 0.99035 1 37155 37155 2.5775 0.27475 1 + 8753 11632 5688 5705 10119 10119 -0.05122756298942477 GVTITRQSLA 10 Unmodified _GVTITRQSLA_ 0 0 0 REV__ENST00000460575.1_1_1:68151090-68151810:+|nuORF REV__ENST00000460575.1_1_1:68151090-68151810:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.3062744140625 2 523.303655 1044.59276 3.1749 0.0016614 0.49552 0.00025931 3.6704 0.0019207 523.3038771301912 81.305 1.8213 81.553 80.719 82.541 0.24803 235 115 3 0 0 0 0.93628 3 37358 37358;37514;37797 1.6526 0 1 2183000 + 8754 11415 5689 5706 10120;10121;10122 10120 0.07224530363305348 GVTITRQSLA 10 Unmodified _GVTITRQSLA_ 0 0 0 REV__ENST00000460575.1_1_1:68151090-68151810:+|nuORF REV__ENST00000460575.1_1_1:68151090-68151810:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.3067626953125 2 523.303655 1044.59276 3.4513 0.0018061 0.20911 0.00010943 3.6604 0.0019155 523.3036196323739 82.09 0.94951 82.75 82.307 83.256 0.65998 101 57 2 0 0 0 0.93628 1 37933 37933 1.6526 0 1 723780 + 8755 11415 5689 5706 10123 10123 0.07224530363305348 GVTKRKKKKK 10 Unmodified _GVTKRKKKKK_ 0 0 0 nc|ENSG00000105058|Q9Y421-2|FAM32A;ENSG00000105058|ENST00000263384|FAM32A nc|ENSG00000105058|Q9Y421-2|FAM32A nc|ENSG00000105058|Q9Y421-2|FAM32A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 600.9153442382812 2 600.916781 1199.81901 NaN NaN NaN NaN NaN NaN NaN 46.714 1 46.714 46.214 47.214 0 0 0 0 1.0015 1 21382 21382 0.45834 0.45834 1 8756 1467 5690 5707 10124 10124 0.22709318993020133 GVTLALLPLLQ 11 Unmodified _GVTLALLPLLQ_ 0 0 0 ENST00000551946.5_3_12:56112967-56115732:+|nuORF;ENST00000553187.5_1_12:56114279-56115732:+|nuORF;ENST00000550608.1_1_12:56114968-56115732:+|nuORF;ENSG00000135437|ENST00000257895|RDH5 ENST00000551946.5_3_12:56112967-56115732:+|nuORF ENST00000551946.5_3_12:56112967-56115732:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.3670654296875 2 569.365724 1136.7169 NaN NaN NaN NaN NaN NaN NaN 20.969 1 20.969 20.469 21.469 0 0 0 0 1.008 1 9383 9383 0.35063 0 1 8757 2873 5691 5708 10125 10125 0.15400608130767068 GVTLLRAAAK 10 Unmodified _GVTLLRAAAK_ 0 0 0 ENST00000427397.5_1_2:216176945-216197107:+|nuORF;ATIC|p.G276Efs*66|1|0.09|ENSG00000138363|chr2:215333361-215333361|G/-|frameshift_variant;nc|ENSG00000138363|P31939-2|ATIC;ENSG00000138363|ENST00000236959|ATIC;ENST00000443953.5_1_2:216177073-216214375:+|nuORF ENST00000427397.5_1_2:216176945-216197107:+|nuORF ENST00000427397.5_1_2:216176945-216197107:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.31903076171875 2 500.319109 998.623664 NaN NaN NaN NaN NaN NaN NaN 26.44 1 27.218 26.718 27.718 0.7787 0 0 0 1.0011 1 11876 11876 0.45834 0 1 8758 74 5692 5709 10126 10126 0.12429728468168832 GVTLTIIQNDP 11 Unmodified _GVTLTIIQNDP_ 0 0 0 REV__nc|ENSG00000145934|Q9NT68-2|TENM2 REV__nc|ENSG00000145934|Q9NT68-2|TENM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.8226928710938 2 585.821878 1169.6292 NaN NaN NaN NaN NaN NaN NaN 42.958 1 43.607 43.107 44.107 0.64851 0 0 0 1.0059 1 19685 19685 2.9952 0 1 + 8759 12460 5693 5710 10127 10127 0.05117362469331965 GVTLVYSL 8 Unmodified _GVTLVYSL_ 0 0 0 REV__nc|ENSG00000166881|O14524-2|NEMP1 REV__nc|ENSG00000166881|O14524-2|NEMP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 426.2467346191406 2 426.247286 850.48002 NaN NaN NaN NaN NaN NaN NaN 81.87 1 81.87 81.37 82.37 0 0 0 0 0.99035 1 40823 40823 2.5775 0 1 + 8760 13265 5694 5711 10128 10128 0.04879881637236849 GVTPDPVF 8 Unmodified _GVTPDPVF_ 0 0 0 REV__nc|ENSG00000113721|P09619-2|PDGFRB REV__nc|ENSG00000113721|P09619-2|PDGFRB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 416.2182312011719 2 416.215986 830.417419 2.3307 0.00097008 1.2778 0.00053183 3.6085 0.0015019 416.2163357418213 63.294 0.32187 63.294 63.141 63.463 0 68 37 2 0 0 0 0.70146 1 29721 29721 5.7604 0 1 3020500 + 8761 11307 5695 5712 10129 10129 -0.004572644309519092 GVTPHALSSPL 11 Unmodified _GVTPHALSSPL_ 0 0 0 REV__ENST00000536835.2_1_15:29967218-29969404:+|nuORF REV__ENST00000536835.2_1_15:29967218-29969404:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.2026672363281 3 360.201229 1077.58186 NaN NaN NaN NaN NaN NaN NaN 27.717 1 27.979 27.479 28.479 0.26245 0 0 0 1.0057 1 12603 12603 1.3296 0 1 + 8762 17182 5696 5713 10130 10130 0.0461712798901317 GVTRARQL 8 Unmodified _GVTRARQL_ 0 0 0 nc|ENSG00000104343|Q96B02-3|UBE2W nc|ENSG00000104343|Q96B02-3|UBE2W nc|ENSG00000104343|Q96B02-3|UBE2W MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.7743835449219 2 450.772326 899.530098 3.2775 0.0014774 0.12824 5.7809E-05 3.4058 0.0015352 450.77236668241886 96.832 0.42313 97.434 97.238 97.661 0.6019 34 18 3 0 0 0 0.7441 2 44477 44477;44532 2.3027 0 1 1233300 8763 9581 5697 5714 10131;10132 10131 0.07631429085756736 GVTRSVLVAV 10 Unmodified _GVTRSVLVAV_ 0 0 0 REV__ENSG00000137207|ENST00000372422|YIPF3 REV__ENSG00000137207|ENST00000372422|YIPF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.8123779296875 2 500.811116 999.60768 3.0218 0.0015133 0.73775 0.00036947 3.7595 0.0018828 500.81141004726936 17.107 0.47676 17.412 17.114 17.591 0.30438 57 36 2 0 0 0 0.94134 1 7666 7666 1.4819 0.68827 1 102060 + 8764 12102 5698 5715 10133 10133 0.10786022231275183 GVTRVRTK 8 Unmodified _GVTRVRTK_ 0 0 0 REV__ENST00000358502.9_1_22:36622686-36622779:-|nuORF REV__ENST00000358502.9_1_22:36622686-36622779:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 458.7888488769531 2 458.787976 915.561398 1.8458 0.00084682 0.4922 0.00022581 2.338 0.0010726 458.78808683603944 88.561 0.30602 88.613 88.443 88.749 0.052155 91 41 3 0 0 0 0.7441 1 45110 45110 2.3027 1.5091 1 30935000 + 8765 15581 5699 5716 10134 10134 0.10024002119848774 GVTTDQFHL 9 Unmodified _GVTTDQFHL_ 0 0 0 REV__ENSG00000136011|ENST00000388887|STAB2 REV__ENSG00000136011|ENST00000388887|STAB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.25518798828125 2 509.253631 1016.49271 3.5441 0.0018049 0.96641 0.00049215 4.5105 0.002297 509.2540496157527 12.918 0.22703 13.561 13.446 13.673 0.64272 10 6 2 0 0 0 0.98132 1 5806 5806 4.3292 1.334 1 161970 + 8766 12055 5700 5717 10135 10135 -0.014877069705221402 GVTTDQFHL 9 Unmodified _GVTTDQFHL_ 0 0 0 REV__ENSG00000136011|ENST00000388887|STAB2 REV__ENSG00000136011|ENST00000388887|STAB2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 509.253631 1016.49271 2.7661 0.0014086 1.0242 0.00052159 3.7903 0.0019302 509.25391275562544 13.178 0.16628 13.486 13.388 13.554 0.30727 -0.037566 1.0671E-05 NaN 4.3292 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 79448 + 8767 12055 5700 5717 -0.014877069705221402 GVTTDQFHL 9 Unmodified _GVTTDQFHL_ 0 0 0 REV__ENSG00000136011|ENST00000388887|STAB2 REV__ENSG00000136011|ENST00000388887|STAB2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 509.253631 1016.49271 3.5441 0.0018049 0.96641 0.00049215 4.5105 0.002297 509.2540496157527 12.918 0.22703 13.561 13.446 13.673 0.64272 0.037566 -4.8207E-05 NaN 4.3292 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 161970 + 8768 12055 5700 5717 -0.014877069705221402 GVTTNRRE 8 Unmodified _GVTTNRRE_ 0 0 0 ENST00000467588.1_1_1:117575773-117576720:+|nuORF;ENSG00000134256|ENST00000682167|CD101 ENST00000467588.1_1_1:117575773-117576720:+|nuORF ENST00000467588.1_1_1:117575773-117576720:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.7485046386719 2 466.749047 931.483542 NaN NaN NaN NaN NaN NaN NaN 16.615 1 16.815 16.315 17.315 0.20057 0 0 0 0.99035 1 7340 7340 0.79363 0 1 8769 2793 5701 5718 10136 10136 0.015059444638040986 GVTTWLQFLFC 11 Unmodified _GVTTWLQFLFC_ 0 0 0 ENSG00000040531|ENST00000046640|CTNS;nc|ENSG00000040531|O60931-2|CTNS ENSG00000040531|ENST00000046640|CTNS ENSG00000040531|ENST00000046640|CTNS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 657.975341796875 2 657.831191 1313.64783 NaN NaN NaN NaN NaN NaN NaN 64.899 1 65.556 65.056 66.056 0.65672 0 0 0 1.0072 1 29752 29752 1.3295 0 1 8770 534 5702 5719 10137 10137 0.0035520083954452275 GVTVLSRIHA 10 Unmodified _GVTVLSRIHA_ 0 0 0 ENST00000530908.5_1_21:37444388-37445177:+|nuORF;ENSG00000159228|ENST00000290349|CBR1 ENST00000530908.5_1_21:37444388-37445177:+|nuORF ENST00000530908.5_1_21:37444388-37445177:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.5458679199219 3 351.545219 1051.61383 NaN NaN NaN NaN NaN NaN NaN 17.113 1 17.417 16.917 17.917 0.30438 0 0 0 1.0011 1 7749 7749 0.77653 0.50751 1 8771 4016 5703 5720 10138 10138 0.09008540462809833 GVTVLVYARIY 11 Unmodified _GVTVLVYARIY_ 0 0 0 nc|ENSG00000151577|P35462-3|DRD3;ENSG00000151577|ENST00000383673|DRD3 nc|ENSG00000151577|P35462-3|DRD3 nc|ENSG00000151577|P35462-3|DRD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 627.6932983398438 2 627.366256 1252.71796 NaN NaN NaN NaN NaN NaN NaN 85.905 1 86.153 85.653 86.653 0.24857 0 0 0 1.0057 1 39537 39537 3.2813 0.28607 1 8772 3717 5704 5721 10139 10139 0.10170822499640053 GVTVNVNGYLF 11 Unmodified _GVTVNVNGYLF_ 0 0 0 ENSG00000183690|ENST00000420999|EFHC2 ENSG00000183690|ENST00000420999|EFHC2 ENSG00000183690|ENST00000420999|EFHC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.810791015625 2 591.811313 1181.60807 NaN NaN NaN NaN NaN NaN NaN 52.088 1 52.088 51.588 52.588 0 0 0 0 1.0055 1 23850 23850 3.5965 0 1 8773 5398 5705 5722 10140 10140 0.02453397160456916 GVTWRYFWRT 10 Unmodified _GVTWRYFWRT_ 0 0 0 REV__ENST00000302937.8_1_19:54694186-54695312:+|nuORF REV__ENST00000302937.8_1_19:54694186-54695312:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 686.4799194335938 2 686.351471 1370.68839 NaN NaN NaN NaN NaN NaN NaN 107.62 1 108.22 107.72 108.72 0.6019 0 0 0 1.0015 1 49669 49669 0.45834 0.057624 1 + 8774 15206 5706 5723 10141 10141 0.017873032741590578 GVTYMVQFS 9 Unmodified _GVTYMVQFS_ 0 0 0 REV__ENSG00000215644|ENST00000400723|GCGR REV__ENSG00000215644|ENST00000400723|GCGR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.2466430664062 2 516.24696 1030.47937 NaN NaN NaN NaN NaN NaN NaN 101.78 1 101.84 101.34 102.34 0.057198 0 0 0 0.90611 1 55267 55267 2.0598 0.57785 1 + 8775 14528 5707 5724 10142 10142 -0.03465281074136328 GVVAIKVLRR 10 Unmodified _GVVAIKVLRR_ 0 0 0 REV__ENST00000515677.1_1_4:53728674-53729580:+|nuORF REV__ENST00000515677.1_1_4:53728674-53729580:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.6774291992188 2 555.877125 1109.7397 NaN NaN NaN NaN NaN NaN NaN 101.61 1 102.21 101.71 102.71 0.59717 0 0 0 1.0015 1 47047 47047 0.45834 0 1 + 8776 11757 5708 5725 10143 10143 0.18921672038868564 GVVAPPPHRL 10 Unmodified _GVVAPPPHRL_ 0 0 0 REV__ENST00000429172.5_2_2:171627798-171634191:+|nuORF REV__ENST00000429172.5_2_2:171627798-171634191:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.8121337890625 2 521.811451 1041.60835 NaN NaN NaN NaN NaN NaN NaN 92.181 1 92.181 91.681 92.681 0 0 0 0 0.99464 1 48911 48911 6.2058 0.44535 1 + 8777 16238 5709 5726 10144 10144 0.0892086167098114 GVVASVPKLN 10 Unmodified _GVVASVPKLN_ 0 0 0 REV__ENST00000541967.1_1_12:49349986-49350821:-|nuORF REV__ENST00000541967.1_1_12:49349986-49350821:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.3009948730469 2 492.297842 982.581131 NaN NaN NaN NaN NaN NaN NaN 71.13 1 71.792 71.292 72.292 0.66209 0 0 0 0.99846 1 32598 32598 2.9952 0.41776 1 + 8778 17225 5710 5727 10145 10145 0.08914333339942004 GVVAVKFRNKF 11 Unmodified _GVVAVKFRNKF_ 0 0 0 REV__ENSG00000091138|ENST00000340010|SLC26A3 REV__ENSG00000091138|ENST00000340010|SLC26A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.2447509765625 2 632.879865 1263.74518 NaN NaN NaN NaN NaN NaN NaN 66.016 1 66.016 65.516 66.516 0 0 0 0 1.0034 1 31494 31494 6.2058 0.9089 1 + 8779 10728 5711 5728 10146 10146 0.12385350830686548 GVVAVLLLF 9 Unmodified _GVVAVLLLF_ 0 0 0 ENST00000569969.5_2_16:28986191-28992937:+|nuORF;nc|ENSG00000169682|Q9H2V7-3|SPNS1;nc|ENSG00000169682|Q9H2V7-4|SPNS1;nc|ENSG00000169682|Q9H2V7-2|SPNS1;ENSG00000169682|ENST00000311008|SPNS1 ENST00000569969.5_2_16:28986191-28992937:+|nuORF ENST00000569969.5_2_16:28986191-28992937:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.80517578125 2 465.804771 929.59499 NaN NaN NaN NaN NaN NaN NaN 79.197 1 79.448 78.948 79.948 0.25127 0 0 0 0.90511 1 36470 36470 2.3027 0 1 8780 4703 5712 5729 10147 10147 0.1273761083904219 GVVAVRTSSVA 11 Unmodified _GVVAVRTSSVA_ 0 0 0 REV__ENST00000515144.5_1_5:14488550-14489156:+|nuORF REV__ENST00000515144.5_1_5:14488550-14489156:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.3060302734375 2 523.303655 1044.59276 3.1749 0.0016614 0.49552 0.00025931 3.6704 0.0019207 523.3038771301912 81.305 1.8213 81.553 80.719 82.541 0.24803 235 115 3 0 0 0 0.87362 4 37274 37274;37406;37462;37658 3.5965 1.9439 1 2183000 + 8781 17013 5713 5730 10148;10149;10150;10151 10148 0.07224530363282611 GVVAVRTSSVA 11 Unmodified _GVVAVRTSSVA_ 0 0 0 REV__ENST00000515144.5_1_5:14488550-14489156:+|nuORF REV__ENST00000515144.5_1_5:14488550-14489156:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.3050537109375 2 523.303655 1044.59276 3.4122 0.0017856 0.43544 0.00022787 3.8477 0.0020135 523.3038839446587 80.776 1.6208 81.436 80.742 82.363 0.65998 229 108 3 0 0 0 0.87362 2 37255 37255;37483 3.5965 3.5965 1 1677500 + 8782 17013 5713 5730 10152;10153 10152 0.07224530363282611 GVVAVRTSSVA 11 Unmodified _GVVAVRTSSVA_ 0 0 0 REV__ENST00000515144.5_1_5:14488550-14489156:+|nuORF REV__ENST00000515144.5_1_5:14488550-14489156:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.3037719726562 2 523.303655 1044.59276 3.4513 0.0018061 0.20911 0.00010943 3.6604 0.0019155 523.3036196323739 82.09 0.94951 82.75 82.307 83.256 0.65998 101 57 2 0 0 0 0.9102 1 37863 37863 1.4819 0 1 723780 + 8783 17013 5713 5730 10154 10154 0.07224530363282611 GVVEKRYAPCL 11 Unmodified _GVVEKRYAPCL_ 0 0 0 REV__nc|ENSG00000175040|Q9Y4C5-2|CHST2 REV__nc|ENSG00000175040|Q9Y4C5-2|CHST2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 617.8336791992188 2 617.834265 1233.65398 NaN NaN NaN NaN NaN NaN NaN 23.883 1 24.569 24.069 25.069 0.68536 0 0 0 1.0059 1 10688 10688 2.9952 1.151 1 + 8784 13654 5714 5731 10155 10155 0.046497190710624636 GVVEPEVIK 9 Unmodified _GVVEPEVIK_ 0 0 0 REV__ENSG00000140259|ENST00000267812|MFAP1 REV__ENSG00000140259|ENST00000267812|MFAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2250061035156 2 485.2844 968.554247 NaN NaN NaN NaN NaN NaN NaN 69.775 1 70.029 69.529 70.529 0.25443 0 0 0 0.89683 1 31951 31951 4.3292 0 1 + 8785 12234 5715 5732 10156 10156 0.06871224728763536 GVVFAQRAFDY 11 Unmodified _GVVFAQRAFDY_ 0 0 0 nc|ENSG00000276547|Q9Y5G0-2|PCDHGB5;ENSG00000276547|ENST00000617380|PCDHGB5 nc|ENSG00000276547|Q9Y5G0-2|PCDHGB5 nc|ENSG00000276547|Q9Y5G0-2|PCDHGB5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 636.8236694335938 2 636.822212 1271.62987 NaN NaN NaN NaN NaN NaN NaN 26.177 1 26.177 25.677 26.677 0 0 0 0 1.0072 1 11771 11771 1.3295 0.25807 1 8786 6350 5716 5733 10157 10157 0.004922019090372487 GVVFGRGL 8 Unmodified _GVVFGRGL_ 0 0 0 ENST00000339083.11_2_1:113243771-113243864:-|nuORF ENST00000339083.11_2_1:113243771-113243864:-|nuORF ENST00000339083.11_2_1:113243771-113243864:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 402.7406311035156 2 402.739963 803.465373 NaN NaN NaN NaN NaN NaN NaN 13.53 1 13.837 13.337 14.337 0.30727 0 0 0 0.99035 1 6104 6104 5.7604 0 1 8787 7053 5717 5734 10158 10158 0.05577854279761141 GVVGMIRTKRE 11 Unmodified _GVVGMIRTKRE_ 0 0 0 REV__nc|ENSG00000148814|Q9C0I9-3|LRRC27 REV__nc|ENSG00000148814|Q9C0I9-3|LRRC27 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 623.3560180664062 2 623.358439 1244.70233 NaN NaN NaN NaN NaN NaN NaN 95.859 1 95.936 95.436 96.436 0.076538 0 0 0 1.0041 1 50784 50784 5.2969 0.76802 1 + 8788 17977 5718 5735 10159 10159 0.08976212710967957 GVVHRARRF 9 Unmodified _GVVHRARRF_ 0 0 0 REV__ENSG00000108479|ENST00000588479|GALK1 REV__ENSG00000108479|ENST00000588479|GALK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.3273315429688 2 549.325591 1096.63663 NaN NaN NaN NaN NaN NaN NaN 103.24 1 103.24 102.74 103.74 0 0 0 0 0.91206 1 56922 56922 0.6015 0.14316 1 + 8789 11145 5719 5736 10160 10160 0.09217604370928711 GVVKGIKKV 9 Unmodified _GVVKGIKKV_ 0 0 0 REV__nc|ENSG00000173612|Q5T6X5-3|GPRC6A REV__nc|ENSG00000173612|Q5T6X5-3|GPRC6A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.32452392578125 2 464.32112 926.627687 NaN NaN NaN NaN NaN NaN NaN 19.06 1 19.718 19.218 20.218 0.6583 0 0 0 0.91206 1 8645 8645 0.6015 0.6015 1 + 8790 13606 5720 5737 10161 10161 0.16143817961892637 GVVKIPLIV 9 Unmodified _GVVKIPLIV_ 0 0 0 REV__ENSG00000157423|ENST00000393567|HYDIN REV__ENSG00000157423|ENST00000393567|HYDIN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.3287353515625 2 469.325871 936.637189 NaN NaN NaN NaN NaN NaN NaN 19.672 1 19.672 19.172 20.172 0 0 0 0 0.91206 1 8780 8780 0.6015 0 1 + 8791 12801 5721 5738 10162 10162 0.1663358624742841 GVVKLPID 8 Unmodified _GVVKLPID_ 0 0 0 REV__ENSG00000162851|ENST00000366514|TFB2M REV__ENSG00000162851|ENST00000366514|TFB2M MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 420.76568603515625 2 420.763104 839.511654 NaN NaN NaN NaN NaN NaN NaN 29.538 1 29.538 29.038 30.038 0 0 0 0 0.99035 1 13333 13333 2.5775 0 1 + 8792 12967 5722 5739 10163 10163 0.08547874391183541 GVVKLQRRH 9 Unmodified _GVVKLQRRH_ 0 0 0 ENST00000558588.5_1_15:40581558-40583812:-|nuORF;nc|ENSG00000137841|Q00722-3|PLCB2;nc|ENSG00000137841|Q00722-2|PLCB2;ENSG00000137841|ENST00000260402|PLCB2 ENST00000558588.5_1_15:40581558-40583812:-|nuORF ENST00000558588.5_1_15:40581558-40583812:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.8418579101562 2 546.841074 1091.66759 1.9994 0.0010933 -0.42514 -0.00023249 1.5742 0.00086086 546.8407923578018 97.44 0.22587 97.51 97.383 97.608 0.070648 50 30 2 0 0 0 1.178 1 52084 52084 2.0598 0.21551 1 16708000 8793 3046 5723 5740 10164 10164 0.12542757685173456 GVVKLQRRH 9 Unmodified _GVVKLQRRH_ 0 0 0 ENST00000558588.5_1_15:40581558-40583812:-|nuORF;nc|ENSG00000137841|Q00722-3|PLCB2;nc|ENSG00000137841|Q00722-2|PLCB2;ENSG00000137841|ENST00000260402|PLCB2 ENST00000558588.5_1_15:40581558-40583812:-|nuORF ENST00000558588.5_1_15:40581558-40583812:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.84326171875 2 546.841074 1091.66759 4.3954 0.0024036 -1.5661 -0.00085641 2.8293 0.0015472 546.8400914505606 102.36 0.12911 102.68 102.62 102.75 0.31736 8 4 3 0 0 0 1.2289 1 47364 47364 0.6015 0.076735 1 271160 8794 3046 5723 5740 10165 10165 0.12542757685173456 GVVKLQRRH 9 Unmodified _GVVKLQRRH_ 0 0 0 ENST00000558588.5_1_15:40581558-40583812:-|nuORF;nc|ENSG00000137841|Q00722-3|PLCB2;nc|ENSG00000137841|Q00722-2|PLCB2;ENSG00000137841|ENST00000260402|PLCB2 ENST00000558588.5_1_15:40581558-40583812:-|nuORF ENST00000558588.5_1_15:40581558-40583812:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.8447875976562 2 546.841074 1091.66759 3.7479 0.0020495 0.79857 0.00043669 4.5464 0.0024862 546.8414017120853 102.32 0.15885 102.92 102.85 103.01 0.59759 13 6 3 0 0 0 1.2289 1 47382 47382 0.6015 0 1 246890 8795 3046 5723 5740 10166 10166 0.12542757685173456 GVVLPKPV 8 Unmodified _GVVLPKPV_ 0 0 0 ENSG00000136448|ENST00000258960|NMT1;ENST00000543908.5_1_17:43163921-43175921:+|nuORF;ENST00000590310.1_1_17:43174544-43177067:+|nuORF;nc|ENSG00000136448|P30419-2|NMT1 ENSG00000136448|ENST00000258960|NMT1 ENSG00000136448|ENST00000258960|NMT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 808.5306396484375 1 808.529101 807.521825 2.3661 0.0019131 -2.2509 -0.00182 0.1152 9.3141E-05 808.5272973497403 103.31 0.13065 103.36 103.26 103.39 0.055092 9 5 3 0 0 0 0.7471 1 56015 56015 0.79363 0 1 1366300 8796 2950 5724 5741 10167 10167 0.11036482116412571 GVVLPKPV 8 Unmodified _GVVLPKPV_ 0 0 0 ENSG00000136448|ENST00000258960|NMT1;ENST00000543908.5_1_17:43163921-43175921:+|nuORF;ENST00000590310.1_1_17:43174544-43177067:+|nuORF;nc|ENSG00000136448|P30419-2|NMT1 ENSG00000136448|ENST00000258960|NMT1 ENSG00000136448|ENST00000258960|NMT1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 808.529101 807.521825 4.7055 0.0038045 -1.9746 -0.0015965 2.7309 0.002208 808.5267489828944 103.3 0.1944 103.62 103.55 103.74 0.31863 0.12796 0.000104 NaN 0.79363 22 10 3 NaN NaN NaN NaN 0 NaN NaN 0 439530 8797 2950 5724 5741 0.11036482116412571 GVVLTDPNRNR 11 Unmodified _GVVLTDPNRNR_ 0 0 0 REV__L1MB2_dup749|chr2:44323724-44324421:+|1.0395160121082108|0.2532040997752226|2.04|541.0|9|2|sense REV__L1MB2_dup749|chr2:44323724-44324421:+|1.0395160121082108|0.2532040997752226|2.04|541.0|9|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.2320251464844 3 414.230071 1239.66838 NaN NaN NaN NaN NaN NaN NaN 18.316 1 18.618 18.118 19.118 0.30158 0 0 0 0.99038 1 8303 8303 3.8459 0.52627 1 + 8798 17760 5725 5742 10168 10168 0.05813507543552987 GVVPNRFYW 9 Unmodified _GVVPNRFYW_ 0 0 0 nc|ENSG00000108018|Q8WY21-3|SORCS1;nc|ENSG00000108018|Q8WY21-2|SORCS1;nc|ENSG00000108018|Q8WY21-4|SORCS1;ENSG00000108018|ENST00000263054|SORCS1 nc|ENSG00000108018|Q8WY21-3|SORCS1 nc|ENSG00000108018|Q8WY21-3|SORCS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.2957763671875 2 569.295633 1136.57671 NaN NaN NaN NaN NaN NaN NaN 14.769 1 14.769 14.269 15.269 0 0 0 0 0.91206 1 6513 6513 0.6015 0 1 8799 9589 5726 5743 10169 10169 0.013888689170244106 GVVQRFVKF 9 Unmodified _GVVQRFVKF_ 0 0 0 ENSG00000196911|ENST00000368564|KPNA5 ENSG00000196911|ENST00000368564|KPNA5 ENSG00000196911|ENST00000368564|KPNA5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.3212280273438 2 540.321651 1078.62875 NaN NaN NaN NaN NaN NaN NaN 28.261 1 29.048 28.548 29.548 0.78627 0 0 0 0.90611 1 12723 12723 2.0598 0.21551 1 8800 5782 5727 5744 10170 10170 0.09258032330808419 GVVRAQSRTEQ 11 Unmodified _GVVRAQSRTEQ_ 0 0 0 nc|ENSG00000152049|Q8WWG9|KCNE4 nc|ENSG00000152049|Q8WWG9|KCNE4 nc|ENSG00000152049|Q8WWG9|KCNE4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 615.8299560546875 2 615.8311 1229.64765 NaN NaN NaN NaN NaN NaN NaN 26.988 1 26.988 26.488 27.488 0 0 0 0 1.0072 1 12151 12151 1.3295 0 1 8801 9691 5728 5745 10171 10171 0.04200917163871054 GVVRLWDRR 9 Unmodified _GVVRLWDRR_ 0 0 0 ENST00000470093.5_1_10:103371050-103384578:-|nuORF;nc|ENSG00000107829|P57775|FBXW4;ENSG00000107829|ENST00000331272|FBXW4 ENST00000470093.5_1_10:103371050-103384578:-|nuORF ENST00000470093.5_1_10:103371050-103384578:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.8382568359375 2 578.838531 1155.66251 NaN NaN NaN NaN NaN NaN NaN 41.723 1 42.532 42.032 43.032 0.80855 0 0 0 0.91206 1 18937 18937 0.6015 0 1 8802 1609 5729 5746 10172 10172 0.09090453822545896 GVVRNPLW 8 Unmodified _GVVRNPLW_ 0 0 0 nc|ENSG00000187848|Q9UBL9-4|P2RX2 nc|ENSG00000187848|Q9UBL9-4|P2RX2 nc|ENSG00000187848|Q9UBL9-4|P2RX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.77398681640625 2 470.771794 939.529036 3.0733 0.0014468 2.6959 0.0012692 5.7692 0.002716 470.77257993782666 32.761 0.21855 33.015 32.902 33.121 0.25389 12 9 2 0 0 0 0.74071 1 14951 14951 2.5775 0.51773 1 130120 8803 9789 5730 5747 10173 10173 0.056852147168342526 GVVRNPLW 8 Unmodified _GVVRNPLW_ 0 0 0 nc|ENSG00000187848|Q9UBL9-4|P2RX2 nc|ENSG00000187848|Q9UBL9-4|P2RX2 nc|ENSG00000187848|Q9UBL9-4|P2RX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.77337646484375 2 470.771794 939.529036 NaN NaN NaN NaN NaN NaN NaN 33.223 1 33.844 33.344 34.344 0.62031 0 0 0 0.99035 1 15227 15227 2.5775 0.27475 1 8804 9789 5730 5747 10174 10174 0.056852147168342526 GVVRNPLW 8 Unmodified _GVVRNPLW_ 0 0 0 nc|ENSG00000187848|Q9UBL9-4|P2RX2 nc|ENSG00000187848|Q9UBL9-4|P2RX2 nc|ENSG00000187848|Q9UBL9-4|P2RX2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 470.771794 939.529036 2.8962 0.0013635 2.1809 0.0010267 5.0771 0.0023902 470.7728129949106 32.157 0.21488 32.775 32.668 32.883 0.61831 -0.11993 -9.8208E-05 NaN 2.5775 21 12 2 NaN NaN NaN NaN 0 NaN NaN 0 205280 8805 9789 5730 5747 0.056852147168342526 GVVRRELT 8 Unmodified _GVVRRELT_ 0 0 0 ENST00000554897.5_1_9:34647205-34648116:+|nuORF;ENST00000554139.5_1_9:34647742-34648116:+|nuORF;ENST00000555214.5_1_9:34646701-34648116:+|nuORF ENST00000554897.5_1_9:34647205-34648116:+|nuORF ENST00000554897.5_1_9:34647205-34648116:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.2807922363281 2 465.279983 928.545414 2.6544 0.0012351 0.81646 0.00037988 3.4709 0.0016149 465.2803733192143 83.239 0.21016 83.486 83.388 83.598 0.24722 14 10 2 0 0 0 0.74071 1 38329 38329 2.5775 0.73324 1 170990 8806 8904 5731 5748 10175 10175 0.07828295882939074 GVVRRELT 8 Unmodified _GVVRRELT_ 0 0 0 ENST00000554897.5_1_9:34647205-34648116:+|nuORF;ENST00000554139.5_1_9:34647742-34648116:+|nuORF;ENST00000555214.5_1_9:34646701-34648116:+|nuORF ENST00000554897.5_1_9:34647205-34648116:+|nuORF ENST00000554897.5_1_9:34647205-34648116:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.2828063964844 2 465.279983 928.545414 2.9325 0.0013644 0.31423 0.0001462 3.2467 0.0015106 465.27986971230877 82.269 0.52599 82.93 82.73 83.256 0.66019 66 31 3 0 0 0 0.74071 4 37856 37856;37908;37956;38012 2.5775 0.27475 1 1007300 8807 8904 5731 5748 10176;10177;10178;10179 10176 0.07828295882939074 GVVRRGPR 8 Unmodified _GVVRRGPR_ 0 0 0 REV__ENST00000370520.3_1_20:61273322-61274596:-|nuORF REV__ENST00000370520.3_1_20:61273322-61274596:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 448.779052734375 2 448.780485 895.546417 2.8017 0.0012574 -4.1919 -0.0018813 -1.3902 -0.00062389 448.7777809649457 35.397 0.27335 35.652 35.537 35.811 0.25524 15 8 3 0 0 0 0.74071 1 16146 16146 2.5775 1.7838 1 140950 + 8808 15728 5732 5749 10180 10180 0.09446555042518412 GVVRRGPR 8 Unmodified _GVVRRGPR_ 0 0 0 REV__ENST00000370520.3_1_20:61273322-61274596:-|nuORF REV__ENST00000370520.3_1_20:61273322-61274596:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 448.77935791015625 2 448.780485 895.546417 NaN NaN NaN NaN NaN NaN NaN 32.92 1 33.174 32.674 33.674 0.25389 0 0 0 0.99035 1 14991 14991 2.5775 1.7838 1 + 8809 15728 5732 5749 10181 10181 0.09446555042518412 GVVRRGPR 8 Unmodified _GVVRRGPR_ 0 0 0 REV__ENST00000370520.3_1_20:61273322-61274596:-|nuORF REV__ENST00000370520.3_1_20:61273322-61274596:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 448.780485 895.546417 2.8017 0.0012574 -4.1919 -0.0018813 -1.3902 -0.00062389 448.7777809649457 35.397 0.27335 35.652 35.537 35.811 0.25524 0 0 NaN 2.5775 15 8 3 NaN NaN NaN NaN 0 NaN NaN 0 140950 + 8810 15728 5732 5749 0.09446555042518412 GVVRSFRYL 9 Unmodified _GVVRSFRYL_ 0 0 0 ENST00000428670.7_1_12:90028812-90028872:-|nuORF ENST00000428670.7_1_12:90028812-90028872:-|nuORF ENST00000428670.7_1_12:90028812-90028872:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.21405029296875 3 366.213581 1095.61891 NaN NaN NaN NaN NaN NaN NaN 16.786 1 16.786 16.286 17.286 0 0 0 0 0.90965 1 7444 7444 1.1933 0.41681 1 8811 7826 5733 5750 10182 10182 0.07492844325406622 GVVRSFRYL 9 Unmodified _GVVRSFRYL_ 0 0 0 ENST00000428670.7_1_12:90028812-90028872:-|nuORF ENST00000428670.7_1_12:90028812-90028872:-|nuORF ENST00000428670.7_1_12:90028812-90028872:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.2142028808594 3 366.213581 1095.61891 2.3789 0.00087119 -0.0014073 -5.1536E-07 2.3775 0.00087068 366.2135003312875 15.012 0.42364 15.238 15.078 15.501 0.22622 74 52 2 0 0 0 1.1703 1 6677 6677 1.1933 0.68739 1 109420 8812 7826 5733 5750 10183 10183 0.07492844325406622 GVVSIGTRR 9 Unmodified _GVVSIGTRR_ 0 0 0 REV__ENST00000571657.5_1_17:19281216-19286541:+|nuORF REV__ENST00000571657.5_1_17:19281216-19286541:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.78680419921875 2 472.785433 943.556313 3.2117 0.0015184 0.49736 0.00023515 3.7091 0.0017536 472.78535381623874 98.384 0.14679 98.983 98.914 99.061 0.59885 22 11 3 0 0 0 1.101 1 45359 45359 2.3027 0 1 2780700 + 8813 17452 5734 5751 10184 10184 0.08227698257235261 GVVSWGEN 8 Unmodified _GVVSWGEN_ 0 0 0 ENSG00000205403|ENST00000394634|CFI;CON__Q32PI4 ENSG00000205403|ENST00000394634|CFI ENSG00000205403|ENST00000394634|CFI MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 424.20166015625 2 424.200867 846.387182 NaN NaN NaN NaN NaN NaN NaN 65.944 1 65.944 65.444 66.444 0 0 0 0 0.99035 1 31446 31446 2.8892 0 1 + 8814 233 5735 5752 10185 10185 -0.04215623096138188 GVVVGIKKIKK 11 Unmodified _GVVVGIKKIKK_ 0 0 0 REV__nc|ENSG00000113790|Q08426-2|EHHADH REV__nc|ENSG00000113790|Q08426-2|EHHADH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.9085693359375 2 584.910633 1167.80671 NaN NaN NaN NaN NaN NaN NaN 18.65 1 18.65 18.15 19.15 0 0 0 0 1.008 1 8289 8289 0.35063 0.35063 1 + 8815 11308 5736 5753 10186 10186 0.22952282529968215 GVVVGIKKIKK 11 Unmodified _GVVVGIKKIKK_ 0 0 0 REV__nc|ENSG00000113790|Q08426-2|EHHADH REV__nc|ENSG00000113790|Q08426-2|EHHADH MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.9099731445312 2 584.910633 1167.80671 NaN NaN NaN NaN NaN NaN NaN 88.108 1 88.358 87.858 88.858 0.25064 0 0 0 1.008 1 40543 40543 0.35063 0.35063 1 + 8816 11308 5736 5753 10187 10187 0.22952282529968215 GVVVYRLV 8 Unmodified _GVVVYRLV_ 0 0 0 nc|ENSG00000134343|Q9BYT9-2|ANO3;ENSG00000134343|ENST00000256737|ANO3 nc|ENSG00000134343|Q9BYT9-2|ANO3 nc|ENSG00000134343|Q9BYT9-2|ANO3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 452.78692626953125 2 452.78437 903.554188 NaN NaN NaN NaN NaN NaN NaN 72.875 1 73.574 73.074 74.074 0.69881 0 0 0 0.99035 1 35111 35111 2.8892 0.58649 1 8817 2804 5737 5754 10188 10188 0.09855269519425747 GVVVYRRN 8 Unmodified _GVVVYRRN_ 0 0 0 nc|ENSG00000107731|Q8IZJ1-2|UNC5B;ENSG00000107731|ENST00000335350|UNC5B nc|ENSG00000107731|Q8IZJ1-2|UNC5B nc|ENSG00000107731|Q8IZJ1-2|UNC5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.781005859375 2 481.780151 961.545748 3.1782 0.0015312 0.75661 0.00036452 3.9348 0.0018957 481.7804808982403 16.589 0.56395 17.247 16.994 17.558 0.65798 70 52 2 0 0 0 0.7471 1 7496 7496 0.79363 0 1 145410 8818 1607 5738 5755 10189 10189 0.06343715602793054 GVWEKPRR 8 Unmodified _GVWEKPRR_ 0 0 0 ENST00000261965.7_1_13:113140005-113140284:-|nuORF;ENST00000440735.2_2_13:111642507-111642792:+|nuORF ENST00000261965.7_1_13:113140005-113140284:-|nuORF ENST00000261965.7_1_13:113140005-113140284:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.1997375488281 3 343.198042 1026.5723 NaN NaN NaN NaN NaN NaN NaN 37.398 1 37.659 37.159 38.159 0.26083 0 0 0 0.99035 1 17034 17034 1.8442 0.88196 1 8819 6567 5739 5756 10190 10190 0.06007404494130242 GVWFQNRRTKW 11 Unmodified _GVWFQNRRTKW_ 0 0 0 nc|ENSG00000165066|A6NJ46-2|NKX6-3 nc|ENSG00000165066|A6NJ46-2|NKX6-3 nc|ENSG00000165066|A6NJ46-2|NKX6-3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 739.3959350585938 2 739.394202 1476.77385 NaN NaN NaN NaN NaN NaN NaN 34.34 1 35.129 34.629 35.629 0.78921 0 0 0 1.008 1 15550 15550 0.35063 0.081612 1 8820 9729 5740 5757 10191 10191 0.05453468459813848 GVWGRRNRL 9 Unmodified _GVWGRRNRL_ 0 0 0 ENST00000312990.10_1_12:58145961-58146090:-|nuORF ENST00000312990.10_1_12:58145961-58146090:-|nuORF ENST00000312990.10_1_12:58145961-58146090:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.3255615234375 2 557.323048 1112.63154 NaN NaN NaN NaN NaN NaN NaN 15.289 1 15.943 15.443 16.443 0.65356 0 0 0 0.91206 1 6884 6884 0.6015 0 1 8821 6882 5741 5758 10192 10192 0.0797330050831988 GVWLKRKHAYI 11 Unmodified _GVWLKRKHAYI_ 0 0 0 ENSG00000124818|ENST00000371211|OPN5 ENSG00000124818|ENST00000371211|OPN5 ENSG00000124818|ENST00000371211|OPN5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 685.9077758789062 2 685.906414 1369.79827 NaN NaN NaN NaN NaN NaN NaN 32.059 1 32.847 32.347 33.347 0.78795 0 0 0 1.008 1 14492 14492 0.35063 0 1 8822 2383 5742 5759 10193 10193 0.12816728613370287 GVWLLTRLAIR 11 Unmodified _GVWLLTRLAIR_ 0 0 0 REV__nc|ENSG00000141485|Q86YT5-2|SLC13A5 REV__nc|ENSG00000141485|Q86YT5-2|SLC13A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 649.1105346679688 2 649.408789 1296.80303 NaN NaN NaN NaN NaN NaN NaN 96.653 1 96.653 96.153 97.153 0 0 0 0 1.0059 1 52365 52365 2.9952 1.5133 1 + 8823 12293 5743 5760 10194 10194 0.16649612756123133 GVWLRRLE 8 Unmodified _GVWLRRLE_ 0 0 0 REV__ENST00000300571.6_1_16:19871173-19871527:-|nuORF REV__ENST00000300571.6_1_16:19871173-19871527:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.801513671875 2 514.803626 1027.5927 NaN NaN NaN NaN NaN NaN NaN 81.113 1 81.773 81.273 82.273 0.65998 0 0 0 0.99035 1 37371 37371 2.5775 0.51773 1 + 8824 15184 5744 5761 10195 10195 0.08000575153960199 GVWLRRLPLCP 11 Unmodified _GVWLRRLPLCP_ 0 0 0 REV__ENST00000381418.8_2_8:21972362-21972542:-|nuORF REV__ENST00000381418.8_2_8:21972362-21972542:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.25885009765625 3 437.256904 1308.74888 3.559 0.0015562 0.33006 0.00014432 3.8891 0.0017005 437.2569287342316 94.44 0.9575 94.699 94.569 95.527 0.25975 86 55 2 0 0 0 0.91328 1 43684 43684 0.50596 0.34663 1 643350 + 8825 15893 5745 5762 10196 10196 0.10685697332928612 GVWLRRLPLCP 11 Unmodified _GVWLRRLPLCP_ 0 0 0 REV__ENST00000381418.8_2_8:21972362-21972542:-|nuORF REV__ENST00000381418.8_2_8:21972362-21972542:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.25787353515625 3 437.256904 1308.74888 3.2502 0.0014212 0.51648 0.00022584 3.7666 0.001647 437.25701269589587 91.413 0.98799 92.075 91.598 92.586 0.66198 86 46 3 0 0 0 0.91345 1 42144 42144 0.45452 0 1 578490 + 8826 15893 5745 5762 10197 10197 0.10685697332928612 GVWLRRLPLCP 11 Unmodified _GVWLRRLPLCP_ 0 0 0 REV__ENST00000381418.8_2_8:21972362-21972542:-|nuORF REV__ENST00000381418.8_2_8:21972362-21972542:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.25897216796875 3 437.256904 1308.74888 3.2815 0.0014349 0.76097 0.00033274 4.0425 0.0017676 437.2570881326235 105.55 0.43119 106.15 105.83 106.26 0.59969 42 20 4 0 0 0 0.91328 1 48747 48747 0.50596 0.34663 1 1204200 + 8827 15893 5745 5762 10198 10198 0.10685697332928612 GVWMIPTSDPA 11 Unmodified _GVWMIPTSDPA_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.13427734375 2 587.284074 1172.5536 NaN NaN NaN NaN NaN NaN NaN 107.11 1 107.43 106.93 107.93 0.31421 0 0 0 1.0071 1 49418 49418 1.4819 0.8804 1 8828 6272 5746 5763 10199 10199 -0.025779379826190052 GVWMKMYSD 9 Unmodified _GVWMKMYSD_ 0 0 0 STAG1|p.S637Kfs*4|1|0.27|ENSG00000118007|chr3:136422536-136422537|AC/-|frameshift_variant;STAG1|p.F1146Yfs*11|1|0.33|ENSG00000118007|chr3:136343838-136343841|AAAA/-|frameshift_variant;nc|ENSG00000118007|Q8WVM7-2|STAG1;ENSG00000118007|ENST00000383202|STAG1 STAG1|p.S637Kfs*4|1|0.27|ENSG00000118007|chr3:136422536-136422537|AC/-|frameshift_variant STAG1|p.S637Kfs*4|1|0.27|ENSG00000118007|chr3:136422536-136422537|AC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.74560546875 2 558.74627 1115.47799 NaN NaN NaN NaN NaN NaN NaN 19.994 1 20.652 20.152 21.152 0.6583 0 0 0 0.91206 1 9076 9076 0.6015 0 1 8829 2100 5747 5764 10200 10200 -0.07513238434535197 GVWNQHSR 8 Unmodified _GVWNQHSR_ 0 0 0 nc|ENSG00000141956|P57071|PRDM15 nc|ENSG00000141956|P57071|PRDM15 nc|ENSG00000141956|P57071|PRDM15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.8150329589844 2 492.243932 982.473312 NaN NaN NaN NaN NaN NaN NaN 102.06 1 102.38 101.88 102.88 0.31737 0 0 0 0.99035 1 47218 47218 2.8892 0.58649 1 8830 9673 5748 5765 10201 10201 -0.01862618470772759 GVWPRTRR 8 Unmodified _GVWPRTRR_ 0 0 0 REV__ENST00000608825.1_3_7:99954396-99956429:+|nuORF REV__ENST00000608825.1_3_7:99954396-99956429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.3001708984375 2 514.299042 1026.58353 3.9085 0.0020101 -1.5532 -0.00079882 2.3552 0.0012113 514.2981458051223 91.676 0.31081 91.927 91.786 92.096 0.25163 30 16 2 0 0 0 0.7471 2 42132 42132;42187 0.79363 0 1 560210 + 8831 16418 5749 5766 10202;10203 10202 0.07130226588265032 GVWPRTRR 8 Unmodified _GVWPRTRR_ 0 0 0 REV__ENST00000608825.1_3_7:99954396-99956429:+|nuORF REV__ENST00000608825.1_3_7:99954396-99956429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.30029296875 2 514.299042 1026.58353 3.5942 0.0018485 -1.9132 -0.00098398 1.6809 0.00086451 514.2980348209477 91.279 0.25543 91.941 91.851 92.107 0.66198 20 10 3 0 0 0 0.7471 1 42019 42019 0.79363 0 1 703470 + 8832 16418 5749 5766 10204 10204 0.07130226588265032 GVWPRTRR 8 Unmodified _GVWPRTRR_ 0 0 0 REV__ENST00000608825.1_3_7:99954396-99956429:+|nuORF REV__ENST00000608825.1_3_7:99954396-99956429:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 514.299042 1026.58353 3.9085 0.0020101 -1.5532 -0.00079882 2.3552 0.0012113 514.2981458051223 91.676 0.31081 91.927 91.786 92.096 0.25163 -0.006812 0.00014217 NaN 0.79363 30 16 2 NaN NaN NaN NaN 0 NaN NaN 0 560210 + 8833 16418 5749 5766 0.07130226588265032 GVWPRTRR 8 Unmodified _GVWPRTRR_ 0 0 0 REV__ENST00000608825.1_3_7:99954396-99956429:+|nuORF REV__ENST00000608825.1_3_7:99954396-99956429:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 514.299042 1026.58353 3.5942 0.0018485 -1.9132 -0.00098398 1.6809 0.00086451 514.2980348209477 91.279 0.25543 91.941 91.851 92.107 0.66198 0.006812 -0.00022816 NaN 0.79363 20 10 3 NaN NaN NaN NaN 0 NaN NaN 0 703470 + 8834 16418 5749 5766 0.07130226588265032 GVWQYMIMRMW 11 Unmodified _GVWQYMIMRMW_ 0 0 0 REV__ENST00000297338.6_1_8:117868470-117868917:-|nuORF REV__ENST00000297338.6_1_8:117868470-117868917:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 751.2551879882812 2 750.851078 1499.6876 NaN NaN NaN NaN NaN NaN NaN 58.517 1 59.276 58.776 59.776 0.75894 0 0 0 1.0071 1 26841 26841 1.4819 0 1 + 8835 15165 5750 5767 10205 10205 -0.04225318753083229 GVWQYYEAR 9 Unmodified _GVWQYYEAR_ 0 0 0 REV__ENSG00000158156|ENST00000373884|XKR8 REV__ENSG00000158156|ENST00000373884|XKR8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.2807006835938 2 586.28018 1170.54581 NaN NaN NaN NaN NaN NaN NaN 26.904 1 26.904 26.404 27.404 0 0 0 0 0.90699 1 12117 12117 1.8442 0.6509 1 + 8836 12814 5751 5768 10206 10206 -0.03264329187891235 GVWRGPCLEL 10 Unmodified _GVWRGPCLEL_ 0 0 0 REV__ENST00000480925.1_1_9:100819090-100823312:+|nuORF REV__ENST00000480925.1_1_9:100819090-100823312:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 377.2001953125 3 377.198943 1128.575 2.2245 0.00083909 0.17262 6.5113E-05 2.3972 0.0009042 377.1989600950003 34.132 0.27466 34.921 34.816 35.091 0.78921 21 15 2 0 0 0 0.89464 1 15522 15522 1.9064 0.25375 1 387590 + 8837 10761 5752 5769 10207 10207 0.015854918367494975 GVWRGRKREY 10 Unmodified _GVWRGRKREY_ 0 0 0 ENST00000538336.5_1_7:33028199-33035805:+|nuORF ENST00000538336.5_1_7:33028199-33035805:+|nuORF ENST00000538336.5_1_7:33028199-33035805:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1307.114501953125 1 1306.71271 1305.70544 3.155 0.0041227 -4.121 -0.0053849 -0.96596 -0.0012622 1306.707885224669 59.812 0.037006 60.561 60.532 60.569 0.74927 5 4 2 0 0 0 0.12676 1 27488 27488 0.45834 0.10771 1 2006400 8838 8781 5753 5770 10208 10208 0.06481223879995923 GVWRGVGG 8 Unmodified _GVWRGVGG_ 0 0 0 ENST00000526177.5_1_11:75161715-75162177:-|nuORF ENST00000526177.5_1_11:75161715-75162177:-|nuORF ENST00000526177.5_1_11:75161715-75162177:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.2156677246094 2 394.214112 786.413671 NaN NaN NaN NaN NaN NaN NaN 36.864 1 37.658 37.158 38.158 0.79342 0 0 0 0.99035 1 16705 16705 2.5775 0 1 8839 8673 5754 5771 10209 10209 0.01192110585861883 GVWRIKWH 8 Unmodified _GVWRIKWH_ 0 0 0 ENST00000497237.5_1_9:140451208-140459646:-|nuORF;ENST00000467243.5_1_9:140449693-140459078:-|nuORF;ENST00000479650.5_1_9:140449693-140459532:-|nuORF;DPH7|p.W409Cfs*14|1|0.16|ENSG00000148399|chr9:137555371-137555371|C/-|frameshift_variant;ENSG00000148399|ENST00000277540|DPH7 ENST00000497237.5_1_9:140451208-140459646:-|nuORF ENST00000497237.5_1_9:140451208-140459646:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.3056030273438 2 541.306336 1080.59812 NaN NaN NaN NaN NaN NaN NaN 71.201 1 71.459 70.959 71.959 0.25786 0 0 0 0.99035 1 32614 32614 2.8892 0.31174 1 8840 277 5755 5772 10210 10210 0.06104298736386227 GVWRRRFKK 9 Unmodified _GVWRRRFKK_ 0 0 0 REV__nc|ENSG00000106484|Q5EB52-3|MEST REV__nc|ENSG00000106484|Q5EB52-3|MEST MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 616.876708984375 2 616.877991 1231.74143 NaN NaN NaN NaN NaN NaN NaN 82.877 1 83.537 83.037 84.037 0.66019 0 0 0 0.91206 1 38186 38186 0.6015 0.076735 1 + 8841 11085 5756 5773 10211 10211 0.1348272584748429 GVWRVKSI 8 Unmodified _GVWRVKSI_ 0 0 0 ENST00000488901.5_1_1:155581342-155581721:+|nuORF;ENST00000483734.5_1_1:155580745-155584061:+|nuORF;nc|ENSG00000125459|Q9BUK6-3|MSTO1;nc|ENSG00000125459|Q9BUK6-2|MSTO1;ENSG00000125459|ENST00000245564|MSTO1 ENST00000488901.5_1_1:155581342-155581721:+|nuORF ENST00000488901.5_1_1:155581342-155581721:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.78857421875 2 472.787444 943.560336 2.8896 0.0013662 0.40771 0.00019276 3.2973 0.0015589 472.7876054968521 15.112 0.56798 15.112 14.87 15.438 0 92 66 2 0 0 0 0.74071 1 6728 6728 2.5775 0.27475 1 90753 8842 2400 5757 5774 10212 10212 0.08629787750930973 GVWRWPGQSP 10 Unmodified _GVWRWPGQSP_ 0 0 0 REV__ENST00000601528.1_1_19:17738777-17738981:-|nuORF REV__ENST00000601528.1_1_19:17738777-17738981:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.296875 2 585.296165 1168.57778 1.9852 0.0011619 -0.62639 -0.00036662 1.3588 0.00079532 585.2955737402053 103.17 0.19676 103.22 103.13 103.33 0.055092 17 8 3 0 0 0 0.93534 1 55961 55961 1.8442 1.1539 1 857240 + 8843 17640 5758 5775 10213 10213 0.00023083285941538634 GVWTPRLL 8 Unmodified _GVWTPRLL_ 0 0 0 ENST00000586546.5_1_18:44662813-44676772:-|nuORF ENST00000586546.5_1_18:44662813-44676772:-|nuORF ENST00000586546.5_1_18:44662813-44676772:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 471.2826232910156 2 471.281995 940.549437 NaN NaN NaN NaN NaN NaN NaN 40.347 1 41.147 40.647 41.647 0.80014 0 0 0 0.99035 1 18272 18272 0.79363 0 1 8844 9187 5759 5776 10214 10214 0.0767838537666421 GVWWDEYRRGN 11 Unmodified _GVWWDEYRRGN_ 0 0 0 ENST00000373538.7_1_9:127996186-127996231:+|nuORF ENST00000373538.7_1_9:127996186-127996231:+|nuORF ENST00000373538.7_1_9:127996186-127996231:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 719.3367919921875 2 719.33655 1436.65855 NaN NaN NaN NaN NaN NaN NaN 23.027 1 23.713 23.213 24.213 0.68536 0 0 0 1.008 1 10256 10256 0.35063 0 1 8845 7363 5760 5777 10215 10215 -0.0423168046183946 GVWWFFTL 8 Unmodified _GVWWFFTL_ 0 0 0 ENSG00000152578|ENST00000282499|GRIA4;nc|ENSG00000125675|P42263|GRIA3;ENSG00000125675|ENST00000620443|GRIA3;nc|ENSG00000155511|P42261-3|GRIA1;nc|ENSG00000120251|P42262-4|GRIA2;nc|ENSG00000155511|P42261-4|GRIA1;nc|ENSG00000120251|P42262-2|GRIA2;ENSG00000120251|ENST00000264426|GRIA2;nc|ENSG00000120251|P42262-3|GRIA2;ENSG00000155511|ENST00000285900|GRIA1;nc|ENSG00000155511|P42261-5|GRIA1;nc|ENSG00000155511|P42261-2|GRIA1;nc|ENSG00000155511|P42261-6|GRIA1 ENSG00000152578|ENST00000282499|GRIA4 ENSG00000152578|ENST00000282499|GRIA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.2716674804688 2 528.271096 1054.52764 NaN NaN NaN NaN NaN NaN NaN 96.414 1 96.691 96.191 97.191 0.27778 0 0 0 0.99035 1 44298 44298 2.8892 0.31174 1 8846 3753 5761 5778 10216 10216 0.002555806280724937 GVWWKNKPKWL 11 Unmodified _GVWWKNKPKWL_ 0 0 0 ENSG00000103257|ENST00000261622|SLC7A5;ENST00000563489.1_1_16:87866578-87870352:-|nuORF ENSG00000103257|ENST00000261622|SLC7A5 ENSG00000103257|ENST00000261622|SLC7A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 721.4080200195312 2 721.408789 1440.80303 NaN NaN NaN NaN NaN NaN NaN 52.504 1 53.314 52.814 53.814 0.81065 0 0 0 1.0071 1 23922 23922 1.4819 0.28856 1 8847 1387 5762 5779 10217 10217 0.10025612756112423 GVWWPQTKF 9 Unmodified _GVWWPQTKF_ 0 0 0 ENSG00000008300|ENST00000164024|CELSR3;nc|ENSG00000008300|Q9NYQ7-2|CELSR3 ENSG00000008300|ENST00000164024|CELSR3 ENSG00000008300|ENST00000164024|CELSR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.7991943359375 2 574.798009 1147.58147 NaN NaN NaN NaN NaN NaN NaN 69.29 1 69.544 69.044 70.044 0.25443 0 0 0 0.90511 1 31733 31733 2.3027 0.4585 1 8848 376 5763 5780 10218 10218 0.01357753059778588 GVWWQRVRRKC 11 Unmodified _GVWWQRVRRKC_ 0 0 0 REV__ENST00000496700.5_1_14:105954396-105954633:+|nuORF REV__ENST00000496700.5_1_14:105954396-105954633:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 736.9625854492188 2 737.404047 1472.79354 NaN NaN NaN NaN NaN NaN NaN 17.478 1 17.678 17.178 18.178 0.20057 0 0 0 1.0072 1 7734 7734 1.3295 0.36726 1 + 8849 16853 5764 5781 10219 10219 0.07605521198934184 GVWYIWHNEWN 11 Unmodified _GVWYIWHNEWN_ 0 0 0 REV__nc|ENSG00000171885|P55087-2|AQP4 REV__nc|ENSG00000171885|P55087-2|AQP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 752.3450927734375 2 752.343843 1502.67313 NaN NaN NaN NaN NaN NaN NaN 44.094 1 44.094 43.594 44.594 0 0 0 0 1.008 1 20127 20127 0.35063 0 1 + 8850 13526 5765 5782 10220 10220 -0.058096083136661036 GVWYLKPKLGK 11 Unmodified _GVWYLKPKLGK_ 0 0 0 nc|ENSG00000174678|A6NHR8|FAM47DP nc|ENSG00000174678|A6NHR8|FAM47DP nc|ENSG00000174678|A6NHR8|FAM47DP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 644.89306640625 2 644.892441 1287.77033 NaN NaN NaN NaN NaN NaN NaN 16.874 1 17.535 17.035 18.035 0.66072 0 0 0 1.008 1 7608 7608 0.35063 0 1 8851 9757 5766 5783 10221 10221 0.13795405633254632 GVWYLLRKHWI 11 Unmodified _GVWYLLRKHWI_ 0 0 0 ENST00000464173.5_1_20:30136866-30137929:+|nuORF;ENST00000483310.5_1_20:30136863-30150236:+|nuORF;ENST00000492709.5_1_20:30132820-30157019:+|nuORF;ENST00000460389.5_1_20:30136650-30157019:+|nuORF;nc|ENSG00000101294|Q8TCT9|HM13;nc|ENSG00000101294|Q8TCT9-4|HM13;ENSG00000101294|ENST00000398174|HM13 ENST00000464173.5_1_20:30136866-30137929:+|nuORF ENST00000464173.5_1_20:30136866-30137929:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 735.924560546875 2 735.922064 1469.82957 NaN NaN NaN NaN NaN NaN NaN 104.76 1 105.08 104.58 105.58 0.31863 0 0 0 1.0082 1 48359 48359 0.35063 0.081612 1 8852 1281 5767 5784 10222 10222 0.11345301647475026 GVWYWYLRQM 10 Unmodified _GVWYWYLRQM_ 0 0 0 ENST00000606723.2_1_6:25998815-25999043:+|nuORF ENST00000606723.2_1_6:25998815-25999043:+|nuORF ENST00000606723.2_1_6:25998815-25999043:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 701.58544921875 2 701.342258 1400.66996 NaN NaN NaN NaN NaN NaN NaN 46.408 1 46.673 46.173 47.173 0.26561 0 0 0 0.99983 1 21211 21211 1.8442 0.36234 1 8853 9327 5768 5785 10223 10223 -0.0143457469207533 GVYAPPTVRI 10 Unmodified _GVYAPPTVRI_ 0 0 0 nc|ENSG00000139915|Q7Z553|MDGA2;ENSG00000139915|ENST00000399232|MDGA2 nc|ENSG00000139915|Q7Z553|MDGA2 nc|ENSG00000139915|Q7Z553|MDGA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 358.2106628417969 3 358.209836 1071.60768 2.6153 0.00093683 0.22073 7.9066E-05 2.836 0.0010159 358.20979059200266 65.804 0.22913 66.461 66.348 66.577 0.65672 21 14 2 0 0 0 0.90196 1 30181 30181 1.7423 0 1 427360 8854 3171 5769 5786 10224 10224 0.07474022231281197 GVYDIGFFYFY 11 Unmodified _GVYDIGFFYFY_ 0 0 0 REV__ENST00000528485.1_1_11:59496051-59496324:+|nuORF REV__ENST00000528485.1_1_11:59496051-59496324:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 695.8213500976562 2 695.821347 1389.62814 NaN NaN NaN NaN NaN NaN NaN 52.711 1 53.517 53.017 54.017 0.80603 0 0 0 1.008 1 24018 24018 0.35063 0 1 + 8855 17117 5770 5787 10225 10225 -0.05108851899558431 GVYECECVCM 10 Unmodified _GVYECECVCM_ 0 0 0 ENST00000427177.5_1_17:75496090-75496291:+|nuORF ENST00000427177.5_1_17:75496090-75496291:+|nuORF ENST00000427177.5_1_17:75496090-75496291:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.199951171875 2 568.199981 1134.38541 NaN NaN NaN NaN NaN NaN NaN 41.082 1 41.885 41.385 42.385 0.80351 0 0 0 1.0015 1 18635 18635 0.45834 0.45834 1 8856 7815 5771 5788 10226 10226 -0.1764082755457821 GVYFIARI 8 Unmodified _GVYFIARI_ 0 0 0 REV__nc|ENSG00000160117|Q8NAG6-1|ANKLE1 REV__nc|ENSG00000160117|Q8NAG6-1|ANKLE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.77606201171875 2 469.776545 937.538538 NaN NaN NaN NaN NaN NaN NaN 50.419 1 51.242 50.742 51.742 0.82285 0 0 0 0.99035 1 22966 22966 6.3541 1.1234 1 + 8857 12863 5772 5789 10227 10227 0.06726983002374709 GVYFQAPF 8 Unmodified _GVYFQAPF_ 0 0 0 ENST00000310430.10_1_8:9637662-9637818:+|nuORF ENST00000310430.10_1_8:9637662-9637818:+|nuORF ENST00000310430.10_1_8:9637662-9637818:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.7333068847656 2 464.731803 927.449054 NaN NaN NaN NaN NaN NaN NaN 14.895 1 15.202 14.702 15.702 0.3069 0 0 0 0.99035 1 6733 6733 0.79363 0 1 8858 6865 5773 5790 10228 10228 -0.017572716770018815 GVYLSILIVTF 11 Unmodified _GVYLSILIVTF_ 0 0 0 REV__ENSG00000142319|ENST00000270349|SLC6A3 REV__ENSG00000142319|ENST00000270349|SLC6A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 612.8653564453125 2 612.865557 1223.71656 NaN NaN NaN NaN NaN NaN NaN 61.176 1 61.429 60.929 61.929 0.25245 0 0 0 1.0071 1 28016 28016 1.4819 0 1 + 8859 12322 5774 5791 10229 10229 0.11365188410900373 GVYMRFMRSHK 11 Unmodified _GVYMRFMRSHK_ 0 0 0 ENST00000488258.5_1_7:151265789-151372578:-|nuORF;nc|ENSG00000106617|Q9UGJ0-2|PRKAG2;nc|ENSG00000106617|Q9UGJ0-3|PRKAG2;ENSG00000106617|ENST00000287878|PRKAG2;ENST00000483775.1_1_7:151273415-151329218:-|nuORF;ENST00000491938.5_1_7:151269720-151329218:-|nuORF ENST00000488258.5_1_7:151265789-151372578:-|nuORF ENST00000488258.5_1_7:151265789-151372578:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 706.3603515625 2 706.357916 1410.70128 NaN NaN NaN NaN NaN NaN NaN 57.571 1 57.836 57.336 58.336 0.26444 0 0 0 1.0072 1 26356 26356 1.3295 0.87119 1 8860 1578 5775 5792 10230 10230 0.01235675070392972 GVYNFNGSR 9 Unmodified _GVYNFNGSR_ 0 0 0 nc|ENSG00000163521|Q6UWU2-2|GLB1L;ENSG00000163521|ENST00000295759|GLB1L nc|ENSG00000163521|Q6UWU2-2|GLB1L nc|ENSG00000163521|Q6UWU2-2|GLB1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.7518615722656 2 507.243598 1012.47264 3.4959 0.0017733 1.0764 0.00054599 4.5723 0.0023193 507.24393732923977 12.952 0.24494 13.595 13.48 13.725 0.64272 16 7 3 0 0 0 1.101 1 5767 5767 2.3027 0 1 407410 8861 4218 5776 5793 10231 10231 -0.03309457910472702 GVYRGHLVL 9 Unmodified _GVYRGHLVL_ 0 0 0 ENSG00000131067|ENST00000336431|GGT7;GGT7|p.Q511Lfs*68|1|0.09|ENSG00000131067|chr20:34852210-34852211|-/TCTAGTATAAGGAA|frameshift_variant ENSG00000131067|ENST00000336431|GGT7 ENSG00000131067|ENST00000336431|GGT7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.5348815917969 3 338.534543 1012.5818 NaN NaN NaN NaN NaN NaN NaN 12.481 1 12.788 12.288 13.288 0.30727 0 0 0 0.89315 1 5626 5626 2.9952 0 1 8862 2638 5777 5794 10232 10232 0.07601172779664012 GVYSPHRFWA 10 Unmodified _GVYSPHRFWA_ 0 0 0 REV__ENSG00000116237|ENST00000343813|ICMT REV__ENSG00000116237|ENST00000343813|ICMT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.2298278808594 3 407.205085 1218.59343 NaN NaN NaN NaN NaN NaN NaN 46.84 1 47.106 46.606 47.606 0.26561 0 0 0 0.99733 1 21408 21408 1.9064 0 1 + 8863 11401 5778 5795 10233 10233 -0.007126301969947235 GVYTGQWR 8 Unmodified _GVYTGQWR_ 0 0 0 REV__nc|ENSG00000187492|A6H8M9-2|CDHR4 REV__nc|ENSG00000187492|A6H8M9-2|CDHR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.7438049316406 2 483.743234 965.471915 2.5545 0.0012357 0.73202 0.00035411 3.2865 0.0015898 483.74355512527035 13.202 0.38665 13.509 13.25 13.637 0.30727 41 24 3 0 0 0 0.7471 1 5882 5882 0.79363 0 1 322120 + 8864 14099 5779 5796 10234 10234 -0.012202525595284897 GVYYDQSDDVC 11 Unmodified _GVYYDQSDDVC_ 0 0 0 REV__ENSG00000167653|ENST00000301258|PSCA REV__ENSG00000167653|ENST00000301258|PSCA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.8343811035156 3 421.832654 1262.47613 NaN NaN NaN NaN NaN NaN NaN 6.213 1 6.213 5.713 6.713 0 0 0 0 1.008 1 2819 2819 0.094841 0 1 + 8865 13298 5780 5797 10235 10235 -0.1446062070942844 GVYYEQYWEYM 11 Unmodified _GVYYEQYWEYM_ 0 0 0 REV__ENSG00000115365|ENST00000450366|LANCL1 REV__ENSG00000115365|ENST00000450366|LANCL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 765.8134765625 2 765.815935 1529.61732 NaN NaN NaN NaN NaN NaN NaN 28.141 1 28.141 27.641 28.641 0 0 0 0 1.008 1 12684 12684 0.35063 0.35063 1 + 8866 11360 5781 5798 10236 10236 -0.12630622336155284 GVYYEQYWEYM 11 Unmodified _GVYYEQYWEYM_ 0 0 0 REV__ENSG00000115365|ENST00000450366|LANCL1 REV__ENSG00000115365|ENST00000450366|LANCL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 765.8170166015625 2 765.815935 1529.61732 NaN NaN NaN NaN NaN NaN NaN 59.508 1 59.508 59.008 60.008 0 0 0 0 1.008 1 27512 27512 0.35063 0.35063 1 + 8867 11360 5781 5798 10237 10237 -0.12630622336155284 GWAGGNAK 8 Unmodified _GWAGGNAK_ 0 0 0 nc|ENSG00000151552|P09417-2|QDPR;ENSG00000151552|ENST00000281243|QDPR nc|ENSG00000151552|P09417-2|QDPR nc|ENSG00000151552|P09417-2|QDPR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.6920471191406 2 380.69047 759.366387 2.7524 0.0010478 -1.2364 -0.00047067 1.5161 0.00057716 380.6912399528424 58.661 0.69535 59.328 59.052 59.748 0.66703 43 31 2 0 0 0 0.7471 1 26902 26902 0.69038 0 1 356410 8868 3715 5782 5799 10238 10238 -0.022921686851532286 GWCLLLLL 8 Unmodified _GWCLLLLL_ 0 0 0 REV__ENSG00000119147|ENST00000238044|ECRG4 REV__ENSG00000119147|ENST00000238044|ECRG4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.7783508300781 2 465.777699 929.540846 3.5647 0.0016604 -0.70726 -0.00032943 2.8575 0.0013309 465.77731645184383 100.56 0.32037 100.88 100.66 100.98 0.31412 21 13 2 0 0 0 0.7471 1 46528 46528 0.79363 0.79363 1 1121100 + 8869 11492 5783 5800 10239 10239 0.07325695415829614 GWCLLLLL 8 Unmodified _GWCLLLLL_ 0 0 0 REV__ENSG00000119147|ENST00000238044|ECRG4 REV__ENSG00000119147|ENST00000238044|ECRG4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 465.777699 929.540846 3.0281 0.0014104 -0.1157 -5.3891E-05 2.9124 0.0013565 465.777671378507 100.47 0.18912 101.07 100.98 101.17 0.59717 0.094483 0.00025061 NaN 0.79363 11 6 2 NaN NaN NaN NaN 0 NaN NaN 0 1029700 + 8870 11492 5783 5800 0.07325695415829614 GWDVAVIV 8 Unmodified _GWDVAVIV_ 0 0 0 REV__ENST00000452075.7_1_10:43047647-43047931:-|nuORF REV__ENST00000452075.7_1_10:43047647-43047931:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 858.4752807617188 1 858.47198 857.464704 3.8726 0.0033245 -0.79186 -0.00067979 3.0807 0.0026447 858.4710715923417 83.757 0.28365 84.004 83.851 84.135 0.24722 27 17 2 0 0 0 0.5438 1 38505 38505 18.135 0 1 675810 + 8871 16300 5784 5801 10240 10240 0.03027014840040465 GWFHFSHFD 9 Unmodified _GWFHFSHFD_ 0 0 0 REV__ENST00000395719.7_1_4:76568681-76568741:-|nuORF REV__ENST00000395719.7_1_4:76568681-76568741:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8399963378906 3 393.838403 1178.49338 NaN NaN NaN NaN NaN NaN NaN 2.0045 1 2.6261 2.1261 3.1261 0.62157 0 0 0 0.91452 1 913 913 0 0 1 + 8872 15991 5785 5802 10241 10241 -0.0887286753081753 GWFHFSHFD 9 Unmodified _GWFHFSHFD_ 0 0 0 REV__ENST00000395719.7_1_4:76568681-76568741:-|nuORF REV__ENST00000395719.7_1_4:76568681-76568741:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8393249511719 3 393.838403 1178.49338 NaN NaN NaN NaN NaN NaN NaN 4.3908 1 5.0133 4.5133 5.5133 0.62252 0 0 0 0.91452 1 1992 1992 0 0 1 + 8873 15991 5785 5802 10242 10242 -0.0887286753081753 GWFHFSHFD 9 Unmodified _GWFHFSHFD_ 0 0 0 REV__ENST00000395719.7_1_4:76568681-76568741:-|nuORF REV__ENST00000395719.7_1_4:76568681-76568741:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8398742675781 3 393.838403 1178.49338 NaN NaN NaN NaN NaN NaN NaN 4.5713 1 5.1938 4.6938 5.6938 0.62252 0 0 0 0.91452 1 2074 2074 0 0 1 + 8874 15991 5785 5802 10243 10243 -0.0887286753081753 GWFHFSHFD 9 Unmodified _GWFHFSHFD_ 0 0 0 REV__ENST00000395719.7_1_4:76568681-76568741:-|nuORF REV__ENST00000395719.7_1_4:76568681-76568741:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.839599609375 3 393.838403 1178.49338 NaN NaN NaN NaN NaN NaN NaN 4.6709 1 5.2934 4.7934 5.7934 0.62252 0 0 0 0.91452 1 2119 2119 0 0 1 + 8875 15991 5785 5802 10244 10244 -0.0887286753081753 GWFHFSHFD 9 Unmodified _GWFHFSHFD_ 0 0 0 REV__ENST00000395719.7_1_4:76568681-76568741:-|nuORF REV__ENST00000395719.7_1_4:76568681-76568741:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8395690917969 3 393.838403 1178.49338 NaN NaN NaN NaN NaN NaN NaN 5.6834 1 6.3063 5.8063 6.8063 0.62294 0 0 0 0.91452 1 2580 2580 0 0 1 + 8876 15991 5785 5802 10245 10245 -0.0887286753081753 GWFHFSHFD 9 Unmodified _GWFHFSHFD_ 0 0 0 REV__ENST00000395719.7_1_4:76568681-76568741:-|nuORF REV__ENST00000395719.7_1_4:76568681-76568741:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8389587402344 3 393.838403 1178.49338 NaN NaN NaN NaN NaN NaN NaN 5.9081 1 6.5317 6.0317 7.0317 0.62357 0 0 0 0.91452 1 2681 2681 0 0 1 + 8877 15991 5785 5802 10246 10246 -0.0887286753081753 GWFHFSHFD 9 Unmodified _GWFHFSHFD_ 0 0 0 REV__ENST00000395719.7_1_4:76568681-76568741:-|nuORF REV__ENST00000395719.7_1_4:76568681-76568741:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8391418457031 3 393.838403 1178.49338 NaN NaN NaN NaN NaN NaN NaN 6.6839 1 7.3075 6.8075 7.8075 0.62357 0 0 0 0.91452 1 3028 3028 0 0 1 + 8878 15991 5785 5802 10247 10247 -0.0887286753081753 GWFHFSHFD 9 Unmodified _GWFHFSHFD_ 0 0 0 REV__ENST00000395719.7_1_4:76568681-76568741:-|nuORF REV__ENST00000395719.7_1_4:76568681-76568741:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8397521972656 3 393.838403 1178.49338 NaN NaN NaN NaN NaN NaN NaN 7.1721 1 7.7968 7.2968 8.2968 0.62473 0 0 0 0.91452 1 3246 3246 0 0 1 + 8879 15991 5785 5802 10248 10248 -0.0887286753081753 GWFHFSHFD 9 Unmodified _GWFHFSHFD_ 0 0 0 REV__ENST00000395719.7_1_4:76568681-76568741:-|nuORF REV__ENST00000395719.7_1_4:76568681-76568741:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8395690917969 3 393.838403 1178.49338 NaN NaN NaN NaN NaN NaN NaN 7.5089 1 8.1336 7.6336 8.6336 0.62473 0 0 0 0.91452 1 3397 3397 0 0 1 + 8880 15991 5785 5802 10249 10249 -0.0887286753081753 GWKLLSPTSES 11 Unmodified _GWKLLSPTSES_ 0 0 0 ENST00000449914.5_1_3:4856090-4927450:-|nuORF ENST00000449914.5_1_3:4856090-4927450:-|nuORF ENST00000449914.5_1_3:4856090-4927450:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 402.21368408203125 3 402.211794 1203.61355 NaN NaN NaN NaN NaN NaN NaN 70.992 1 71.25 70.75 71.75 0.25786 0 0 0 1.0061 1 32515 32515 1.1098 0.096179 1 8881 8003 5786 5803 10250 10250 0.01989075952269559 GWLLLQRR 8 Unmodified _GWLLLQRR_ 0 0 0 nc|ENSG00000169126|Q5T2S8-2|ODAD2 nc|ENSG00000169126|Q5T2S8-2|ODAD2 nc|ENSG00000169126|Q5T2S8-2|ODAD2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.5478820800781 3 347.882054 1040.62433 2.2664 0.00078843 -0.25235 -8.7787E-05 2.014 0.00070064 347.88154631670125 53.85 0.17905 54.516 54.362 54.541 0.66536 12 7 2 0 0 0 0.14244 1 24623 24623 3.5965 0 1 990180 8882 9747 5787 5804 10251 10251 0.10564567907886158 GWPEITTSL 9 Unmodified _GWPEITTSL_ 0 0 0 REV__ENSG00000106624|ENST00000223357|AEBP1 REV__ENSG00000106624|ENST00000223357|AEBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.1751708984375 3 335.17468 1002.50221 2.6338 0.00088278 -1.061 -0.00035563 1.5728 0.00052715 335.1742539252064 12.519 0.089035 13.162 13.121 13.21 0.64272 6 2 3 0 0 0 0.94779 1 5637 5637 4.897 0.56777 1 2256400 + 8883 11090 5788 5805 10252 10252 0.0010606131498889226 GWTPAARA 8 Unmodified _GWTPAARA_ 0 0 0 ENST00000488975.1_1_22:21354968-21355770:-|nuORF;ENST00000466670.1_1_22:21355515-21356385:-|nuORF;ENST00000399133.2_1_22:21355062-21356439:-|nuORF;ENST00000215742.8_1_22:21355062-21356370:-|nuORF;ENST00000476667.5_1_22:21355515-21356370:-|nuORF;ENST00000498406.1_1_22:21355062-21355995:-|nuORF;ENST00000471073.1_1_22:21355515-21355995:-|nuORF ENST00000488975.1_1_22:21354968-21355770:-|nuORF ENST00000488975.1_1_22:21354968-21355770:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 415.2209167480469 2 415.219395 828.424236 2.8516 0.001184 1.5838 0.00065764 4.4354 0.0018417 415.21993398575853 45.518 0.2444 45.786 45.649 45.893 0.26768 12 7 2 0 0 0 0.7441 1 20812 20812 2.3027 0 1 1074800 8884 6397 5789 5806 10253 10253 0.003160932402806793 GWTPAARA 8 Unmodified _GWTPAARA_ 0 0 0 ENST00000488975.1_1_22:21354968-21355770:-|nuORF;ENST00000466670.1_1_22:21355515-21356385:-|nuORF;ENST00000399133.2_1_22:21355062-21356439:-|nuORF;ENST00000215742.8_1_22:21355062-21356370:-|nuORF;ENST00000476667.5_1_22:21355515-21356370:-|nuORF;ENST00000498406.1_1_22:21355062-21355995:-|nuORF;ENST00000471073.1_1_22:21355515-21355995:-|nuORF ENST00000488975.1_1_22:21354968-21355770:-|nuORF ENST00000488975.1_1_22:21354968-21355770:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 415.219395 828.424236 2.6217 0.0010886 1.5702 0.00065198 4.1919 0.0017406 415.21996959713636 46.03 0.15808 46.03 45.953 46.111 0 0.1777 -0.00016935 NaN 2.3027 15 8 2 NaN NaN NaN NaN 0 NaN NaN 0 765880 8885 6397 5789 5806 0.003160932402806793 GWTPAARA 8 Unmodified _GWTPAARA_ 0 0 0 ENST00000488975.1_1_22:21354968-21355770:-|nuORF;ENST00000466670.1_1_22:21355515-21356385:-|nuORF;ENST00000399133.2_1_22:21355062-21356439:-|nuORF;ENST00000215742.8_1_22:21355062-21356370:-|nuORF;ENST00000476667.5_1_22:21355515-21356370:-|nuORF;ENST00000498406.1_1_22:21355062-21355995:-|nuORF;ENST00000471073.1_1_22:21355515-21355995:-|nuORF ENST00000488975.1_1_22:21354968-21355770:-|nuORF ENST00000488975.1_1_22:21354968-21355770:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 415.219395 828.424236 2.6317 0.0010927 2.0543 0.00085298 4.6859 0.0019457 415.2202211638052 44.869 0.25482 45.69 45.555 45.809 0.82075 -0.16255 0.00023265 NaN 2.3027 20 11 2 NaN NaN NaN NaN 0 NaN NaN 0 478980 8886 6397 5789 5806 0.003160932402806793 GWTPAARA 8 Unmodified _GWTPAARA_ 0 0 0 ENST00000488975.1_1_22:21354968-21355770:-|nuORF;ENST00000466670.1_1_22:21355515-21356385:-|nuORF;ENST00000399133.2_1_22:21355062-21356439:-|nuORF;ENST00000215742.8_1_22:21355062-21356370:-|nuORF;ENST00000476667.5_1_22:21355515-21356370:-|nuORF;ENST00000498406.1_1_22:21355062-21355995:-|nuORF;ENST00000471073.1_1_22:21355515-21355995:-|nuORF ENST00000488975.1_1_22:21354968-21355770:-|nuORF ENST00000488975.1_1_22:21354968-21355770:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 415.219395 828.424236 3.2077 0.0013319 2.0887 0.00086728 5.2964 0.0021992 415.2200492150578 45.253 0.29115 45.904 45.751 46.042 0.65104 0.051559 0.00026126 NaN 2.3027 20 11 2 NaN NaN NaN NaN 0 NaN NaN 0 607310 8887 6397 5789 5806 0.003160932402806793 GWVVRPSIL 9 Unmodified _GWVVRPSIL_ 0 0 0 ENST00000475754.5_2_3:168851253-168864300:-|nuORF ENST00000475754.5_2_3:168851253-168864300:-|nuORF ENST00000475754.5_2_3:168851253-168864300:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 342.8753356933594 3 342.874677 1025.6022 2.7869 0.00095555 0.64229 0.00022022 3.4292 0.0011758 342.8747714767415 54.156 0.64225 54.156 53.822 54.464 0 86 50 2 0 0 0 0.98132 1 24870 24870 2.4985 0 1 688060 8888 8224 5790 5807 10254 10254 0.09042343439477918 GWVVRPSIL 9 Unmodified _GWVVRPSIL_ 0 0 0 ENST00000475754.5_2_3:168851253-168864300:-|nuORF ENST00000475754.5_2_3:168851253-168864300:-|nuORF ENST00000475754.5_2_3:168851253-168864300:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.8755187988281 3 342.874677 1025.6022 2.138 0.00073306 0.69451 0.00023813 2.8325 0.00097119 342.8748098641898 53.441 0.22581 54.244 54.142 54.368 0.8035 35 21 2 0 0 0 0.98132 1 24364 24364 2.4985 0.65425 1 505680 8889 8224 5790 5807 10255 10255 0.09042343439477918 GWVVRPSIL 9 Unmodified _GWVVRPSIL_ 0 0 0 ENST00000475754.5_2_3:168851253-168864300:-|nuORF ENST00000475754.5_2_3:168851253-168864300:-|nuORF ENST00000475754.5_2_3:168851253-168864300:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.8109741210938 2 513.808377 1025.6022 3.4186 0.0017565 0.92946 0.00047757 4.3481 0.0022341 513.8088069919469 49.816 0.29954 50.078 49.923 50.223 0.26146 27 11 3 0 0 0 0.76984 2 22752 22752;22806 7.9102 0 1 777000 8890 8224 5790 5807 10256;10257 10256 0.09042343439477918 GWVVRPSIL 9 Unmodified _GWVVRPSIL_ 0 0 0 ENST00000475754.5_2_3:168851253-168864300:-|nuORF ENST00000475754.5_2_3:168851253-168864300:-|nuORF ENST00000475754.5_2_3:168851253-168864300:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 342.8758850097656 3 342.874677 1025.6022 NaN NaN NaN NaN NaN NaN NaN 53.231 1 53.494 52.994 53.994 0.26345 0 0 0 0.89683 1 24341 24341 2.4985 0.21571 1 8891 8224 5790 5807 10258 10258 0.09042343439477918 GWVVRPSIL 9 Unmodified _GWVVRPSIL_ 0 0 0 ENST00000475754.5_2_3:168851253-168864300:-|nuORF ENST00000475754.5_2_3:168851253-168864300:-|nuORF ENST00000475754.5_2_3:168851253-168864300:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 342.87579345703125 3 342.874677 1025.6022 2.2052 0.00075611 0.96556 0.00033107 3.1708 0.0010872 342.87482634775745 53.256 0.77155 53.921 53.494 54.265 0.6644 66 34 3 0 0 0 0.98132 1 24329 24329 2.4985 0.65425 1 1048900 8892 8224 5790 5807 10259 10259 0.09042343439477918 GWVVRPSIL 9 Unmodified _GWVVRPSIL_ 0 0 0 ENST00000475754.5_2_3:168851253-168864300:-|nuORF ENST00000475754.5_2_3:168851253-168864300:-|nuORF ENST00000475754.5_2_3:168851253-168864300:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.810791015625 2 513.808377 1025.6022 NaN NaN NaN NaN NaN NaN NaN 49.2 1 49.855 49.355 50.355 0.65524 0 0 0 0.89683 1 22507 22507 4.3292 0 1 8893 8224 5790 5807 10260 10260 0.09042343439477918 GWVVRPSIL 9 Unmodified _GWVVRPSIL_ 0 0 0 ENST00000475754.5_2_3:168851253-168864300:-|nuORF ENST00000475754.5_2_3:168851253-168864300:-|nuORF ENST00000475754.5_2_3:168851253-168864300:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8109741210938 2 513.808377 1025.6022 NaN NaN NaN NaN NaN NaN NaN 49.449 1 50.104 49.604 50.604 0.65524 0 0 0 0.89683 1 22620 22620 4.3292 0 1 8894 8224 5790 5807 10261 10261 0.09042343439477918 GYCKKKKK 8 Unmodified _GYCKKKKK_ 0 0 0 ENST00000393214.2_1_X:73596333-73596534:-|nuORF ENST00000393214.2_1_X:73596333-73596534:-|nuORF ENST00000393214.2_1_X:73596333-73596534:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.79742431640625 2 491.796955 981.579357 3.1964 0.001572 -0.85973 -0.00042281 2.3367 0.0011492 491.79593784349476 48.618 0.36598 49.445 49.296 49.662 0.82705 40 20 3 0 0 0 0.73686 1 22206 22206 2.8892 0.31174 1 1013900 8895 7529 5791 5808 10262 10262 0.08783001050346684 GYGSHTFKL 9 Unmodified _GYGSHTFKL_ 0 0 0 ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.2608642578125 2 505.258717 1008.50288 2.8635 0.0014468 0.093636 4.731E-05 2.9571 0.0014941 505.2587273928148 33.734 0.17115 33.734 33.635 33.807 0 18 12 2 0 0 0 0.012326 1 15307 15307 78.728 54.054 1 469770 8896 2238 5792 5809 10263 10263 -0.0010309924527973635 GYIERPQLI 9 Unmodified _GYIERPQLI_ 0 0 0 nc|ENSG00000164329|Q6PIY7-2|TENT2;ENSG00000164329|ENST00000453514|TENT2 nc|ENSG00000164329|Q6PIY7-2|TENT2 nc|ENSG00000164329|Q6PIY7-2|TENT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.8107299804688 2 544.808574 1087.60259 3.5116 0.0019131 -0.12641 -6.887E-05 3.3852 0.0018443 544.8083548936664 52.547 0.37405 52.547 52.366 52.74 0 77 33 3 0 0 0 0.0024283 3 24029 24029;24068;24115 99.755 65.474 1 3036800 8897 4307 5793 5810 10264;10265;10266 10264 0.062297183686723656 GYIERPQLI 9 Unmodified _GYIERPQLI_ 0 0 0 nc|ENSG00000164329|Q6PIY7-2|TENT2;ENSG00000164329|ENST00000453514|TENT2 nc|ENSG00000164329|Q6PIY7-2|TENT2 nc|ENSG00000164329|Q6PIY7-2|TENT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.8101806640625 2 544.808574 1087.60259 2.5714 0.0014009 0.55746 0.00030371 3.1289 0.0017046 544.8088283238327 51.567 0.32174 52.384 52.198 52.52 0.81738 53 21 3 0 0 0 0.0024241 2 23491 23448;23491 99.799 55.941 1 2757600 8898 4307 5793 5810 10267;10268 10268 0.062297183686723656 GYIERPQLI 9 Unmodified _GYIERPQLI_ 0 0 0 nc|ENSG00000164329|Q6PIY7-2|TENT2;ENSG00000164329|ENST00000453514|TENT2 nc|ENSG00000164329|Q6PIY7-2|TENT2 nc|ENSG00000164329|Q6PIY7-2|TENT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.81005859375 2 544.808574 1087.60259 3.4716 0.0018913 0.020946 1.1412E-05 3.4925 0.0019028 544.8084589176241 52.297 0.24594 52.56 52.454 52.7 0.26227 37 14 3 0 0 0 0.0061394 2 23924 23879;23924 89.401 53.274 1 1830200 8899 4307 5793 5810 10269;10270 10270 0.062297183686723656 GYIERPQLI 9 Unmodified _GYIERPQLI_ 0 0 0 nc|ENSG00000164329|Q6PIY7-2|TENT2;ENSG00000164329|ENST00000453514|TENT2 nc|ENSG00000164329|Q6PIY7-2|TENT2 nc|ENSG00000164329|Q6PIY7-2|TENT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.810302734375 2 544.808574 1087.60259 3.3223 0.00181 0.18222 9.9274E-05 3.5045 0.0019093 544.8085982062539 51.749 0.36976 52.411 52.223 52.593 0.66198 51 21 3 0 0 0 0.0017071 2 23675 23628;23675 107.19 63.329 1 2050800 8900 4307 5793 5810 10271;10272 10272 0.062297183686723656 GYKELLKI 8 Unmodified _GYKELLKI_ 0 0 0 REV__ENSG00000151458|ENST00000504087|ANKRD50 REV__ENSG00000151458|ENST00000504087|ANKRD50 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 321.8681640625 3 321.867299 962.580068 NaN NaN NaN NaN NaN NaN NaN 39.9 1 39.9 39.4 40.4 0 0 0 0 0.86524 1 18109 18109 10.824 3.5347 1 + 8901 12613 5794 5811 10273 10273 0.09728118971031563 GYKELLKI 8 Unmodified _GYKELLKI_ 0 0 0 REV__ENSG00000151458|ENST00000504087|ANKRD50 REV__ENSG00000151458|ENST00000504087|ANKRD50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 321.8681335449219 3 321.867299 962.580068 2.357 0.00075864 0.34283 0.00011035 2.6998 0.00086899 321.86729450606936 39.673 0.44548 39.94 39.723 40.168 0.26696 35 15 3 0 0 0 0.59268 1 18046 18046 10.824 3.5347 1 810550 + 8902 12613 5794 5811 10274 10274 0.09728118971031563 GYLADPAKF 9 Unmodified _GYLADPAKF_ 0 0 0 ENSG00000137547|ENST00000260102|MRPL15 ENSG00000137547|ENST00000260102|MRPL15 ENSG00000137547|ENST00000260102|MRPL15 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.59381103515625 2 491.255643 980.496732 3.2237 0.0015836 0.41355 0.00020316 3.6372 0.0017868 491.25602860516585 48.795 0.199 49.622 49.476 49.675 0.82705 18 11 2 0 0 0 0.076934 1 22248 22248 22.736 4.6013 1 254720 8903 3024 5795 5812 10275 10275 0.005703825231876181 GYLASVLLRT 10 Unmodified _GYLASVLLRT_ 0 0 0 URB2|p.K790Rfs*14|1|0.09|ENSG00000135763|chr1:229636981-229636982|-/GAGAGGGCTATGAAGG|frameshift_variant;ENSG00000135763|ENST00000258243|URB2 URB2|p.K790Rfs*14|1|0.09|ENSG00000135763|chr1:229636981-229636982|-/GAGAGGGCTATGAAGG|frameshift_variant URB2|p.K790Rfs*14|1|0.09|ENSG00000135763|chr1:229636981-229636982|-/GAGAGGGCTATGAAGG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 364.8981628417969 3 364.885241 1091.63389 NaN NaN NaN NaN NaN NaN NaN 14.907 1 15.214 14.714 15.714 0.3069 0 0 0 0.39115 1 6739 6739 22.775 0 1 8904 2897 5796 5813 10276 10276 0.09174291402769086 GYLPNQLFRTF 11 Unmodified _GYLPNQLFRTF_ 0 0 0 ENSG00000079785|ENST00000233084|DDX1;nc|ENSG00000079785|Q92499-3|DDX1 ENSG00000079785|ENST00000233084|DDX1 ENSG00000079785|ENST00000233084|DDX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 678.3610229492188 2 678.358962 1354.70337 3.6165 0.0024533 -0.4047 -0.00027453 3.2118 0.0021788 678.3585552809957 78.641 0.30836 78.893 78.754 79.063 0.25127 43 19 3 0 0 0 0.039944 2 36194 36194;36262 53.317 42.493 1 730030 8905 898 5797 5814 10277;10278 10277 0.040207503515148346 GYLPNQLFRTF 11 Unmodified _GYLPNQLFRTF_ 0 0 0 ENSG00000079785|ENST00000233084|DDX1;nc|ENSG00000079785|Q92499-3|DDX1 ENSG00000079785|ENST00000233084|DDX1 ENSG00000079785|ENST00000233084|DDX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 678.3618774414062 2 678.358962 1354.70337 3.8571 0.0026165 0.11273 7.6469E-05 3.9698 0.0026929 678.3587505762889 78.128 0.2766 78.79 78.651 78.927 0.66198 24 14 2 0 0 0 0.020426 1 36009 36009 59.052 46.812 1 866220 8906 898 5797 5814 10279 10279 0.040207503515148346 GYMEGYYTF 9 Unmodified _GYMEGYYTF_ 0 0 0 ENST00000527772.1_1_11:33767599-33770353:-|nuORF;nc|ENSG00000110429|Q9UK99-3|FBXO3;nc|ENSG00000110429|Q9UK99-2|FBXO3;ENSG00000110429|ENST00000265651|FBXO3 ENST00000527772.1_1_11:33767599-33770353:-|nuORF ENST00000527772.1_1_11:33767599-33770353:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.7311401367188 2 565.7286 1129.44265 2.7715 0.0015679 1.7923 0.0010139 4.5637 0.0025818 565.72931309589 71.21 0.20474 71.21 71.134 71.339 0 30 21 2 0 0 0 0.27976 1 34639 34639 18.135 10.846 1 1354300 8907 1715 5798 5815 10280 10280 -0.11689577690708575 GYMEGYYTF 9 Unmodified _GYMEGYYTF_ 0 0 0 ENST00000527772.1_1_11:33767599-33770353:-|nuORF;nc|ENSG00000110429|Q9UK99-3|FBXO3;nc|ENSG00000110429|Q9UK99-2|FBXO3;ENSG00000110429|ENST00000265651|FBXO3 ENST00000527772.1_1_11:33767599-33770353:-|nuORF ENST00000527772.1_1_11:33767599-33770353:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 566.2318115234375 2 565.7286 1129.44265 3.3427 0.001891 0.52458 0.00029677 3.8672 0.0021878 565.7292307391644 71.147 0.13138 71.405 71.374 71.505 0.25786 13 9 2 0 0 0 0.7295 1 32605 32605 8.5933 1.304 1 421760 8908 1715 5798 5815 10281 10281 -0.11689577690708575 GYMEGYYTF 9 Unmodified _GYMEGYYTF_ 0 0 0 ENST00000527772.1_1_11:33767599-33770353:-|nuORF;nc|ENSG00000110429|Q9UK99-3|FBXO3;nc|ENSG00000110429|Q9UK99-2|FBXO3;ENSG00000110429|ENST00000265651|FBXO3 ENST00000527772.1_1_11:33767599-33770353:-|nuORF ENST00000527772.1_1_11:33767599-33770353:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 565.7286 1129.44265 2.8868 0.0016332 -0.1957 -0.00011072 2.6911 0.0015225 565.7283036675796 70.348 0.20986 71.051 70.905 71.115 0.70302 -0.19612 -0.0010912 NaN 18.135 29 22 2 NaN NaN NaN NaN 0 NaN NaN 0 1114300 8909 1715 5798 5815 -0.11689577690708575 GYMEGYYTF 9 Unmodified _GYMEGYYTF_ 0 0 0 ENST00000527772.1_1_11:33767599-33770353:-|nuORF;nc|ENSG00000110429|Q9UK99-3|FBXO3;nc|ENSG00000110429|Q9UK99-2|FBXO3;ENSG00000110429|ENST00000265651|FBXO3 ENST00000527772.1_1_11:33767599-33770353:-|nuORF ENST00000527772.1_1_11:33767599-33770353:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 565.7286 1129.44265 3.0869 0.0017463 1.032 0.00058385 4.1189 0.0023302 565.7292256091855 70.661 0.22598 71.323 71.178 71.404 0.66209 0.076053 0.00029788 NaN 18.135 19 14 2 NaN NaN NaN NaN 0 NaN NaN 0 642350 8910 1715 5798 5815 -0.11689577690708575 GYMHKTIK 8 Unmodified _GYMHKTIK_ 0 0 0 ENSG00000165370|ENST00000651716|GPR101 ENSG00000165370|ENST00000651716|GPR101 ENSG00000165370|ENST00000651716|GPR101 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.2655029296875 2 489.265487 976.516422 3.0667 0.0015004 -0.30765 -0.00015052 2.7591 0.0013499 489.2653937217985 50.45 0.54836 50.712 50.415 50.964 0.26146 76 24 4 0 0 0 0.34607 1 23022 23022 32.117 3.6301 1 7295000 8911 4396 5799 5816 10282 10282 0.027224352623193226 GYMHKTIK 8 Unmodified _GYMHKTIK_ 0 0 0 ENSG00000165370|ENST00000651716|GPR101 ENSG00000165370|ENST00000651716|GPR101 ENSG00000165370|ENST00000651716|GPR101 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.2670593261719 2 489.265487 976.516422 3.2103 0.0015707 -0.40566 -0.00019847 2.8047 0.0013722 489.2653248679415 49.784 0.55643 50.441 50.141 50.698 0.65735 65 21 4 0 0 0 0.23254 1 22780 22780 40.449 10.224 1 6705300 8912 4396 5799 5816 10283 10283 0.027224352623193226 GYMLRLGAP 9 Unmodified _GYMLRLGAP_ 0 0 0 ENSG00000133048|ENST00000255409|CHI3L1;ENST00000472064.1_1_1:203149576-203151929:-|nuORF ENSG00000133048|ENST00000255409|CHI3L1 ENSG00000133048|ENST00000255409|CHI3L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.2668151855469 2 489.265487 976.516422 3.0667 0.0015004 -0.30765 -0.00015052 2.7591 0.0013499 489.2653937217985 50.45 0.54836 50.712 50.415 50.964 0.26146 76 24 4 0 0 0 0.069137 1 23071 23071 40.449 11.962 1 7295000 8913 2744 5800 5817 10284 10284 0.02722435262307954 GYMLRLGAP 9 Unmodified _GYMLRLGAP_ 0 0 0 ENSG00000133048|ENST00000255409|CHI3L1;ENST00000472064.1_1_1:203149576-203151929:-|nuORF ENSG00000133048|ENST00000255409|CHI3L1 ENSG00000133048|ENST00000255409|CHI3L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.26568603515625 2 489.265487 976.516422 3.2103 0.0015707 -0.40566 -0.00019847 2.8047 0.0013722 489.2653248679415 49.784 0.55643 50.441 50.141 50.698 0.65735 65 21 4 0 0 0 0.11001 1 22737 22737 30.225 5.5509 1 6705300 8914 2744 5800 5817 10285 10285 0.02722435262307954 GYMPSASMTRL 11 Unmodified _GYMPSASMTRL_ 0 0 0 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;nc|ENSG00000104419|Q92597-3|NDRG1;ENST00000519278.5_1_8:134251123-134266883:-|nuORF;nc|ENSG00000103034|Q9ULP0-2|NDRG4;nc|ENSG00000103034|Q9ULP0-8|NDRG4;nc|ENSG00000103034|Q9ULP0-5|NDRG4;nc|ENSG00000103034|Q9ULP0-7|NDRG4;nc|ENSG00000103034|Q9ULP0-3|NDRG4;nc|ENSG00000103034|Q9ULP0-6|NDRG4 ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 607.2930297851562 2 607.288834 1212.56311 NaN NaN NaN NaN NaN NaN NaN 52.028 1 52.028 51.528 52.528 0 0 0 0 0.11056 1 23823 23823 44.392 18.124 1 8915 1438 5801 5818 10286 10286 -0.03466492968732382 GYNCAEHLP 9 Unmodified _GYNCAEHLP_ 0 0 0 REV__ENSG00000133302|ENST00000265140|SLF1 REV__ENSG00000133302|ENST00000265140|SLF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.1480712890625 3 335.148248 1002.42292 NaN NaN NaN NaN NaN NaN NaN 76.454 1 76.71 76.21 77.21 0.25533 0 0 0 0.90965 1 35200 35200 1.1933 0.735 1 + 8916 11931 5802 5819 10287 10287 -0.07819908910801132 GYNVKFDMF 9 Unmodified _GYNVKFDMF_ 0 0 0 ENST00000589115.5_1_19:1105440-1106426:+|nuORF;ENST00000588919.5_1_19:1105440-1106636:+|nuORF;nc|ENSG00000167468|P36969-2|GPX4;ENSG00000167468|ENST00000354171|GPX4 ENST00000589115.5_1_19:1105440-1106426:+|nuORF ENST00000589115.5_1_19:1105440-1106426:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.7620239257812 2 560.760235 1119.50592 3.8317 0.0021486 0.046228 2.5923E-05 3.8779 0.0021746 561.262052569262 68.167 0.22369 68.42 68.316 68.54 0.25226 26 15 2 0 0 0 0.084899 1 31224 31224 36.506 20.659 1 598170 8917 4553 5803 5820 10288 10288 -0.049055921827857674 GYNVKFDMF 9 Unmodified _GYNVKFDMF_ 0 0 0 ENST00000589115.5_1_19:1105440-1106426:+|nuORF;ENST00000588919.5_1_19:1105440-1106636:+|nuORF;nc|ENSG00000167468|P36969-2|GPX4;ENSG00000167468|ENST00000354171|GPX4 ENST00000589115.5_1_19:1105440-1106426:+|nuORF ENST00000589115.5_1_19:1105440-1106426:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.7625732421875 2 560.760235 1119.50592 3.4931 0.0019588 1.1095 0.00062216 4.6026 0.0025809 560.7606495847615 67.62 0.2283 68.278 68.146 68.375 0.65777 25 15 2 0 0 0 0.11458 2 31028 30945;31028 29.082 17.441 1 482920 8918 4553 5803 5820 10289;10290 10290 -0.049055921827857674 GYPEVALHF 9 Unmodified _GYPEVALHF_ 0 0 0 COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant;ENSG00000122218|ENST00000241704|COPA;nc|ENSG00000122218|P53621-2|COPA COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.763916015625 2 516.761092 1031.50763 NaN NaN NaN NaN NaN NaN NaN 65.821 1 66.069 65.569 66.569 0.24848 0 0 0 0.1748 1 30153 30153 32.117 22.734 1 8919 242 5804 5821 10291 10291 -0.006862151025416097 GYPEVALHF 9 Unmodified _GYPEVALHF_ 0 0 0 COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant;ENSG00000122218|ENST00000241704|COPA;nc|ENSG00000122218|P53621-2|COPA COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.7626953125 2 516.761092 1031.50763 NaN NaN NaN NaN NaN NaN NaN 65.883 1 66.131 65.631 66.631 0.24848 0 0 0 0.1748 1 30182 30182 32.117 23.524 1 8920 242 5804 5821 10292 10292 -0.006862151025416097 GYPEVALHF 9 Unmodified _GYPEVALHF_ 0 0 0 COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant;ENSG00000122218|ENST00000241704|COPA;nc|ENSG00000122218|P53621-2|COPA COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.7631225585938 2 516.761092 1031.50763 3.5182 0.0018181 -0.81998 -0.00042373 2.6983 0.0013944 516.7607096239199 65.232 0.22089 65.889 65.774 65.995 0.65672 16 12 2 0 0 0 0.069137 1 29919 29919 40.449 31.065 1 627140 8921 242 5804 5821 10293 10293 -0.006862151025416097 GYPLWKVTF 9 Unmodified _GYPLWKVTF_ 0 0 0 ENSG00000198805|ENST00000361505|PNP ENSG00000198805|ENST00000361505|PNP ENSG00000198805|ENST00000361505|PNP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.8038940429688 2 555.80276 1109.59097 2.9259 0.0016262 -1.4843 -0.00082496 1.4416 0.00080124 555.8015714601071 76.649 0.26497 76.649 76.551 76.816 0 42 19 3 0 0 0 0.048676 1 37557 37557 47.749 18.667 1 3061700 8922 5938 5805 5822 10294 10294 0.04055521345298985 GYPLWKVTF 9 Unmodified _GYPLWKVTF_ 0 0 0 ENSG00000198805|ENST00000361505|PNP ENSG00000198805|ENST00000361505|PNP ENSG00000198805|ENST00000361505|PNP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 556.2235717773438 2 555.80276 1109.59097 2.7734 0.0015415 -0.7588 -0.00042174 2.0146 0.0011197 555.8020929678505 75.523 0.26164 76.186 76.059 76.321 0.66349 43 20 3 0 0 0 0.02234 2 36534 36534;36611 65.235 32.93 1 2316500 8923 5938 5805 5822 10295;10296 10295 0.04055521345298985 GYPLWKVTF 9 Unmodified _GYPLWKVTF_ 0 0 0 ENSG00000198805|ENST00000361505|PNP ENSG00000198805|ENST00000361505|PNP ENSG00000198805|ENST00000361505|PNP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.3187866210938 2 555.80276 1109.59097 3.3561 0.0018653 -1.7727 -0.00098529 1.5834 0.00088006 555.8012321711713 76.511 0.24774 76.767 76.624 76.872 0.25533 37 19 3 0 0 0 0.063903 1 35205 35205 27.629 13.723 1 1019700 8924 5938 5805 5822 10297 10297 0.04055521345298985 GYPLWKVTF 9 Unmodified _GYPLWKVTF_ 0 0 0 ENSG00000198805|ENST00000361505|PNP ENSG00000198805|ENST00000361505|PNP ENSG00000198805|ENST00000361505|PNP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.8026733398438 2 555.80276 1109.59097 3.1435 0.0017472 -1.4834 -0.0008245 1.66 0.00092265 555.8008624635346 75.956 0.26249 76.62 76.516 76.778 0.66387 45 22 3 0 0 0 0.063575 1 34989 34989 41.84 12.758 1 948120 8925 5938 5805 5822 10298 10298 0.04055521345298985 GYQLILHHRFH 11 Unmodified _GYQLILHHRFH_ 0 0 0 nc|ENSG00000189144|Q86YE8-2|ZNF573;nc|ENSG00000189144|Q86YE8-4|ZNF573;nc|ENSG00000189144|Q86YE8-3|ZNF573;ENSG00000189144|ENST00000536220|ZNF573 nc|ENSG00000189144|Q86YE8-2|ZNF573 nc|ENSG00000189144|Q86YE8-2|ZNF573 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 710.8471069335938 2 710.88347 1419.75239 NaN NaN NaN NaN NaN NaN NaN 99.263 1 99.263 98.763 99.763 0 0 0 0 0.98464 1 54542 54542 8.1555 0.54658 1 8926 5706 5806 5823 10299 10299 0.05930083431098865 GYRFLYNQ 8 Unmodified _GYRFLYNQ_ 0 0 0 REV__ENSG00000167548|ENST00000301067|KMT2D REV__ENSG00000167548|ENST00000301067|KMT2D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.57275390625 2 530.764166 1059.51378 NaN NaN NaN NaN NaN NaN NaN 27.477 1 27.477 26.977 27.977 0 0 0 0 0.99035 1 12373 12373 2.5775 0.27475 1 + 8927 13292 5807 5824 10300 10300 -0.01359696871008964 GYRSLDWLCSN 11 Unmodified _GYRSLDWLCSN_ 0 0 0 REV__nc|ENSG00000132635|Q9H1Q7-3|PCED1A REV__nc|ENSG00000132635|Q9H1Q7-3|PCED1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 438.5381164550781 3 438.536283 1312.58702 NaN NaN NaN NaN NaN NaN NaN 27.812 1 28.431 27.931 28.931 0.61947 0 0 0 1.008 1 12751 12751 0.094841 0 1 + 8928 11902 5808 5825 10301 10301 -0.05676936210670647 GYSEHFVEF 9 Unmodified _GYSEHFVEF_ 0 0 0 ENST00000559606.1_1_14:24704927-24706289:+|nuORF;ENST00000559287.5_1_14:24702733-24706289:+|nuORF;nc|ENSG00000100938|Q9P2T1-3|GMPR2;ENSG00000137198|ENST00000259727|GMPR;ENSG00000100938|ENST00000399440|GMPR2;nc|ENSG00000100938|Q9P2T1-2|GMPR2 ENST00000559606.1_1_14:24704927-24706289:+|nuORF ENST00000559606.1_1_14:24704927-24706289:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.748046875 2 557.745639 1113.47673 3.5799 0.0019967 0.152 8.4777E-05 3.7319 0.0020815 557.7458387793333 57.207 0.29356 57.207 57.064 57.358 0 57 30 2 0 0 0 0.0044949 1 26359 26359 92.822 49.854 1 7620200 8929 1252 5809 5826 10302 10302 -0.07547413207407772 GYSEHFVEF 9 Unmodified _GYSEHFVEF_ 0 0 0 ENST00000559606.1_1_14:24704927-24706289:+|nuORF;ENST00000559287.5_1_14:24702733-24706289:+|nuORF;nc|ENSG00000100938|Q9P2T1-3|GMPR2;ENSG00000137198|ENST00000259727|GMPR;ENSG00000100938|ENST00000399440|GMPR2;nc|ENSG00000100938|Q9P2T1-2|GMPR2 ENST00000559606.1_1_14:24704927-24706289:+|nuORF ENST00000559606.1_1_14:24704927-24706289:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.7463989257812 2 557.745639 1113.47673 3.0443 0.001698 0.65891 0.0003675 3.7032 0.0020655 557.7459409433815 56.179 0.30442 56.956 56.789 57.094 0.77786 67 25 4 0 0 0 0.020718 1 25640 25640 67.344 52.506 1 7058800 8930 1252 5809 5826 10303 10303 -0.07547413207407772 GYSEHFVEF 9 Unmodified _GYSEHFVEF_ 0 0 0 ENST00000559606.1_1_14:24704927-24706289:+|nuORF;ENST00000559287.5_1_14:24702733-24706289:+|nuORF;nc|ENSG00000100938|Q9P2T1-3|GMPR2;ENSG00000137198|ENST00000259727|GMPR;ENSG00000100938|ENST00000399440|GMPR2;nc|ENSG00000100938|Q9P2T1-2|GMPR2 ENST00000559606.1_1_14:24704927-24706289:+|nuORF ENST00000559606.1_1_14:24704927-24706289:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.7474365234375 2 557.745639 1113.47673 3.5093 0.0019573 -0.58353 -0.00032546 2.9257 0.0016318 557.745331731789 57.12 0.29097 57.385 57.229 57.52 0.26444 44 17 3 0 0 0 0.0044949 2 26168 26116;26168 92.822 60.517 1 5264400 8931 1252 5809 5826 10304;10305 10305 -0.07547413207407772 GYSEHFVEF 9 Unmodified _GYSEHFVEF_ 0 0 0 ENST00000559606.1_1_14:24704927-24706289:+|nuORF;ENST00000559287.5_1_14:24702733-24706289:+|nuORF;nc|ENSG00000100938|Q9P2T1-3|GMPR2;ENSG00000137198|ENST00000259727|GMPR;ENSG00000100938|ENST00000399440|GMPR2;nc|ENSG00000100938|Q9P2T1-2|GMPR2 ENST00000559606.1_1_14:24704927-24706289:+|nuORF ENST00000559606.1_1_14:24704927-24706289:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.7474365234375 2 557.745639 1113.47673 3.5783 0.0019958 -0.48591 -0.00027101 3.0924 0.0017247 557.7453067672031 56.536 0.38234 57.204 57.002 57.385 0.66829 56 22 3 0 0 0 0.0044949 3 25853 25803;25853;25914 92.822 62.186 1 4293800 8932 1252 5809 5826 10306;10307;10308 10307 -0.07547413207407772 GYVQSLIR 8 Unmodified _GYVQSLIR_ 0 0 0 ENSG00000132549|ENST00000357162|VPS13B;nc|ENSG00000132549|Q7Z7G8-6|VPS13B;nc|ENSG00000132549|Q7Z7G8|VPS13B;nc|ENSG00000132549|Q7Z7G8-5|VPS13B;nc|ENSG00000132549|Q7Z7G8-4|VPS13B;nc|ENSG00000132549|Q7Z7G8-3|VPS13B ENSG00000132549|ENST00000357162|VPS13B ENSG00000132549|ENST00000357162|VPS13B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 468.2709655761719 2 468.269084 934.523616 NaN NaN NaN NaN NaN NaN NaN 3.507 1 3.507 3.007 4.007 0 0 0 0 0.99035 1 1595 1595 0.79363 0 1 8933 2710 5810 5827 10309 10309 0.053734911343894964 GYVQSLIR 8 Unmodified _GYVQSLIR_ 0 0 0 ENSG00000132549|ENST00000357162|VPS13B;nc|ENSG00000132549|Q7Z7G8-6|VPS13B;nc|ENSG00000132549|Q7Z7G8|VPS13B;nc|ENSG00000132549|Q7Z7G8-5|VPS13B;nc|ENSG00000132549|Q7Z7G8-4|VPS13B;nc|ENSG00000132549|Q7Z7G8-3|VPS13B ENSG00000132549|ENST00000357162|VPS13B ENSG00000132549|ENST00000357162|VPS13B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 468.2709045410156 2 468.269084 934.523616 NaN NaN NaN NaN NaN NaN NaN 4.1859 1 4.1859 3.6859 4.6859 0 0 0 0 0.99035 1 1903 1903 0.79363 0 1 8934 2710 5810 5827 10310 10310 0.053734911343894964 GYVQSLIR 8 Unmodified _GYVQSLIR_ 0 0 0 ENSG00000132549|ENST00000357162|VPS13B;nc|ENSG00000132549|Q7Z7G8-6|VPS13B;nc|ENSG00000132549|Q7Z7G8|VPS13B;nc|ENSG00000132549|Q7Z7G8-5|VPS13B;nc|ENSG00000132549|Q7Z7G8-4|VPS13B;nc|ENSG00000132549|Q7Z7G8-3|VPS13B ENSG00000132549|ENST00000357162|VPS13B ENSG00000132549|ENST00000357162|VPS13B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 468.2705993652344 2 468.269084 934.523616 NaN NaN NaN NaN NaN NaN NaN 5.5056 1 5.5056 5.0056 6.0056 0 0 0 0 0.99035 1 2502 2502 0.79363 0 1 8935 2710 5810 5827 10311 10311 0.053734911343894964 GYVWGHGRPP 10 Unmodified _GYVWGHGRPP_ 0 0 0 REV__ENST00000481338.1_1_14:105182091-105185384:+|nuORF REV__ENST00000481338.1_1_14:105182091-105185384:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.28369140625 2 563.283057 1124.55156 3.0687 0.0017286 -1.1814 -0.00066547 1.8873 0.0010631 563.2824905986106 102.83 0.14197 102.83 102.76 102.9 0 11 5 3 0 0 0 0.93534 1 56747 56747 1.8442 0.51471 1 447940 + 8936 16702 5811 5828 10312 10312 -0.005731858855142491 GYVWGHGRPP 10 Unmodified _GYVWGHGRPP_ 0 0 0 REV__ENST00000481338.1_1_14:105182091-105185384:+|nuORF REV__ENST00000481338.1_1_14:105182091-105185384:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 563.283057 1124.55156 3.0687 0.0017286 -1.1814 -0.00066547 1.8873 0.0010631 563.2824905986106 102.83 0.14197 102.83 102.76 102.9 0 -0.096342 -0.00011529 NaN 1.8442 11 5 3 NaN NaN NaN NaN 0 NaN NaN 0 447940 + 8937 16702 5811 5828 -0.005731858855142491 GYVWGHGRPP 10 Unmodified _GYVWGHGRPP_ 0 0 0 REV__ENST00000481338.1_1_14:105182091-105185384:+|nuORF REV__ENST00000481338.1_1_14:105182091-105185384:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 563.283057 1124.55156 2.1181 0.0011931 -0.87274 -0.0004916 1.2454 0.00070151 563.2830447427921 102.88 0.13181 102.94 102.87 103 0.055099 0.011465 0.00023245 NaN 1.8442 9 4 3 NaN NaN NaN NaN 0 NaN NaN 0 760340 + 8938 16702 5811 5828 -0.005731858855142491 GYVWGHGRPP 10 Unmodified _GYVWGHGRPP_ 0 0 0 REV__ENST00000481338.1_1_14:105182091-105185384:+|nuORF REV__ENST00000481338.1_1_14:105182091-105185384:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 563.283057 1124.55156 3.7697 0.0021234 -0.98747 -0.00055623 2.7822 0.0015672 563.2827376118461 102.41 0.19482 103.01 102.91 103.1 0.59759 0.084877 0.0001032 NaN 1.8442 14 6 3 NaN NaN NaN NaN 0 NaN NaN 0 817300 + 8939 16702 5811 5828 -0.005731858855142491 GYWYFRRTWCE 11 Unmodified _GYWYFRRTWCE_ 0 0 0 ENSG00000274286|ENST00000620793|ADRA2B ENSG00000274286|ENST00000620793|ADRA2B ENSG00000274286|ENST00000620793|ADRA2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.9046630859375 3 522.903078 1565.6874 NaN NaN NaN NaN NaN NaN NaN 23.261 1 23.946 23.446 24.446 0.68536 0 0 0 1.0082 1 10368 10368 0.094841 0 1 8940 6341 5812 5829 10313 10313 -0.07281279157041354 HAAADGVAL 9 Unmodified _HAAADGVAL_ 0 0 0 nc|ENSG00000029364|Q9NUM3-3|SLC39A9;ENST00000555245.5_1_14:69865254-69925307:+|nuORF;ENSG00000029364|ENST00000336643|SLC39A9 nc|ENSG00000029364|Q9NUM3-3|SLC39A9 nc|ENSG00000029364|Q9NUM3-3|SLC39A9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.7181701660156 2 412.716685 823.418816 NaN NaN NaN NaN NaN NaN NaN 28.127 1 28.747 28.247 29.247 0.61947 0 0 0 0.69911 1 12898 12898 12.532 3.9383 1 8941 490 5813 5830 10314 10314 4.369657813185768E-05 HAAGVLAQEDL 11 Unmodified _HAAGVLAQEDL_ 0 0 0 nc|ENSG00000178922|Q5T013-2|HYI;ENST00000372427.5_1_1:43917099-43918100:-|nuORF;nc|ENSG00000178922|Q5T013-4|HYI;nc|ENSG00000178922|Q5T013-3|HYI;nc|ENSG00000178922|Q5T013|HYI nc|ENSG00000178922|Q5T013-2|HYI nc|ENSG00000178922|Q5T013-2|HYI MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.2929077148438 2 562.290745 1122.56694 NaN NaN NaN NaN NaN NaN NaN 41.233 1 42.037 41.537 42.537 0.80351 0 0 0 0.55876 1 18706 18706 26.268 14.773 1 8942 7336 5814 5831 10315 10315 0.010556361209864917 HAAGVLAQEDL 11 Unmodified _HAAGVLAQEDL_ 0 0 0 nc|ENSG00000178922|Q5T013-2|HYI;ENST00000372427.5_1_1:43917099-43918100:-|nuORF;nc|ENSG00000178922|Q5T013-4|HYI;nc|ENSG00000178922|Q5T013-3|HYI;nc|ENSG00000178922|Q5T013|HYI nc|ENSG00000178922|Q5T013-2|HYI nc|ENSG00000178922|Q5T013-2|HYI MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.2930297851562 2 562.290745 1122.56694 NaN NaN NaN NaN NaN NaN NaN 41.333 1 41.977 41.477 42.477 0.64451 0 0 0 0.050669 1 18907 18907 53.833 26.204 1 8943 7336 5814 5831 10316 10316 0.010556361209864917 HACGVIATI 9 Carbamidomethyl (C) _HAC(Carbamidomethyl (C))GVIATI_ HAC(1)GVIATI HAC(78)GVIATI 0 1 0 ENST00000480937.5_1_1:25666968-25687193:+|nuORF;ENSG00000183726|ENST00000374358|TMEM50A ENST00000480937.5_1_1:25666968-25687193:+|nuORF ENST00000480937.5_1_1:25666968-25687193:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 471.2488098144531 2 471.247295 940.480036 2.7826 0.0013113 0.045576 2.1478E-05 2.8281 0.0013328 471.2474251114712 42.112 0.25023 42.112 41.933 42.183 0 28 13 3 0 0 0 0.012533 2 19184 19130;19184 78.445 34.038 1 3347600 8944 5401 5815 5832 10317;10318 10318 88 0.00741558365587025 HACGVIATI 9 Carbamidomethyl (C) _HAC(Carbamidomethyl (C))GVIATI_ HAC(1)GVIATI HAC(78)GVIATI 0 1 0 ENST00000480937.5_1_1:25666968-25687193:+|nuORF;ENSG00000183726|ENST00000374358|TMEM50A ENST00000480937.5_1_1:25666968-25687193:+|nuORF ENST00000480937.5_1_1:25666968-25687193:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 471.2486267089844 2 471.247295 940.480036 2.7844 0.0013121 -0.16936 -7.9812E-05 2.615 0.0012323 471.2472678401899 41.109 0.27634 41.913 41.831 42.108 0.8035 51 21 3 0 0 0 0.012533 2 18676 18630;18676 78.445 30.099 1 3130800 8945 5401 5815 5832 10319;10320 10320 88 0.00741558365587025 HACGVIATI 9 Carbamidomethyl (C) _HAC(Carbamidomethyl (C))GVIATI_ HAC(1)GVIATI HAC(71)GVIATI 0 1 0 ENST00000480937.5_1_1:25666968-25687193:+|nuORF;ENSG00000183726|ENST00000374358|TMEM50A ENST00000480937.5_1_1:25666968-25687193:+|nuORF ENST00000480937.5_1_1:25666968-25687193:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.2491760253906 2 471.247295 940.480036 3.1249 0.0014726 -0.5356 -0.0002524 2.5893 0.0012202 471.2467899844483 41.835 0.23257 42.105 41.89 42.123 0.27021 18 9 3 0 0 0 0.018064 1 19030 19030 70.865 26.458 1 4610900 8946 5401 5815 5832 10321 10321 88 0.00741558365587025 HACGVIATI 9 Carbamidomethyl (C) _HAC(Carbamidomethyl (C))GVIATI_ HAC(1)GVIATI HAC(78)GVIATI 0 1 0 ENST00000480937.5_1_1:25666968-25687193:+|nuORF;ENSG00000183726|ENST00000374358|TMEM50A ENST00000480937.5_1_1:25666968-25687193:+|nuORF ENST00000480937.5_1_1:25666968-25687193:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.249267578125 2 471.247295 940.480036 3.1316 0.0014757 0.36704 0.00017297 3.4986 0.0016487 471.24741265305784 41.143 0.20902 41.787 41.74 41.949 0.64451 19 11 2 0 0 0 0.012533 2 18816 18816;18865 78.445 34.038 1 2484500 8947 5401 5815 5832 10322;10323 10322 88 0.00741558365587025 HACTHQISL 9 Carbamidomethyl (C) _HAC(Carbamidomethyl (C))THQISL_ HAC(1)THQISL HAC(86)THQISL 0 1 0 AGRN|p.G616Vfs*7|1|0.26|ENSG00000188157|chr1:1043867-1043871|GCAGG/-|frameshift_variant;nc|ENSG00000188157|O00468-2|AGRN;ENSG00000188157|ENST00000379370|AGRN;nc|ENSG00000188157|O00468-3|AGRN;nc|ENSG00000188157|O00468-5|AGRN;nc|ENSG00000188157|O00468-4|AGRN;nc|ENSG00000188157|O00468-7|AGRN;nc|ENSG00000188157|O00468|AGRN AGRN|p.G616Vfs*7|1|0.26|ENSG00000188157|chr1:1043867-1043871|GCAGG/-|frameshift_variant AGRN|p.G616Vfs*7|1|0.26|ENSG00000188157|chr1:1043867-1043871|GCAGG/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.7604370117188 2 533.758558 1065.50256 3.1831 0.001699 0.2052 0.00010953 3.3883 0.0018086 533.7588539767406 21.846 0.31752 21.846 21.67 21.987 0 73 26 3 0 0 0 0.0076144 2 9805 9755;9805 86.332 56.107 1 931610 8948 17 5816 5833 10324;10325 10325 0 -0.027568422367949097 HACTHQISL 9 Carbamidomethyl (C) _HAC(Carbamidomethyl (C))THQISL_ HAC(1)THQISL HAC(130)THQISL 0 1 0 AGRN|p.G616Vfs*7|1|0.26|ENSG00000188157|chr1:1043867-1043871|GCAGG/-|frameshift_variant;nc|ENSG00000188157|O00468-2|AGRN;ENSG00000188157|ENST00000379370|AGRN;nc|ENSG00000188157|O00468-3|AGRN;nc|ENSG00000188157|O00468-5|AGRN;nc|ENSG00000188157|O00468-4|AGRN;nc|ENSG00000188157|O00468-7|AGRN;nc|ENSG00000188157|O00468|AGRN AGRN|p.G616Vfs*7|1|0.26|ENSG00000188157|chr1:1043867-1043871|GCAGG/-|frameshift_variant AGRN|p.G616Vfs*7|1|0.26|ENSG00000188157|chr1:1043867-1043871|GCAGG/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.7603149414062 2 533.758558 1065.50256 3.351 0.0017886 0.16148 8.6189E-05 3.5125 0.0018748 533.7587620627575 20.865 0.2798 21.518 21.34 21.62 0.65346 52 19 3 0 0 0 0.00068611 2 9444 9444;9493 129.77 95.67 1 1650500 8949 17 5816 5833 10326;10327 10326 0 -0.027568422367949097 HADDFIQEM 9 Unmodified _HADDFIQEM_ 0 0 0 nc|ENSG00000204267|Q03519-2|TAP2;ENSG00000204267|ENST00000374897|TAP2 nc|ENSG00000204267|Q03519-2|TAP2 nc|ENSG00000204267|Q03519-2|TAP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.8256225585938 2 553.234581 1104.45461 3.3881 0.0018744 0.28298 0.00015656 3.6711 0.002031 553.2348415741931 50.666 0.29308 51.325 51.158 51.451 0.65956 23 14 2 0 0 0 0.08872 1 23123 23123 18.146 7.3224 1 824400 8950 5996 5817 5834 10328 10328 -0.09343960947489904 HADDFIQEM 9 Unmodified _HADDFIQEM_ 0 0 0 nc|ENSG00000204267|Q03519-2|TAP2;ENSG00000204267|ENST00000374897|TAP2 nc|ENSG00000204267|Q03519-2|TAP2 nc|ENSG00000204267|Q03519-2|TAP2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 553.234581 1104.45461 3.4148 0.0018892 -0.55202 -0.00030539 2.8627 0.0015838 553.2342444981582 51.274 0.23579 51.536 51.405 51.641 0.26227 0.10548 -0.00038173 NaN 18.146 18 10 2 NaN NaN NaN NaN 0 NaN NaN 0 772950 8951 5996 5817 5834 -0.09343960947489904 HADLSEYNM 9 Unmodified _HADLSEYNM_ 0 0 0 nc|ENSG00000101782|O14730-2|RIOK3;ENSG00000101782|ENST00000339486|RIOK3;ENST00000581302.5_1_18:21033283-21057068:+|nuORF;ENST00000581339.1_1_18:21053400-21057068:+|nuORF nc|ENSG00000101782|O14730-2|RIOK3 nc|ENSG00000101782|O14730-2|RIOK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.72998046875 2 540.226756 1078.43896 2.9111 0.0015727 0.47704 0.00025771 3.3882 0.0018304 540.2269449046662 34.304 0.25246 35.093 34.911 35.163 0.78922 25 13 3 0 0 0 0.017868 1 15519 15519 71.134 42.647 1 246130 8952 1313 5818 5835 10329 10329 -0.09712247464540269 HADLSEYNM 9 Unmodified _HADLSEYNM_ 0 0 0 nc|ENSG00000101782|O14730-2|RIOK3;ENSG00000101782|ENST00000339486|RIOK3;ENST00000581302.5_1_18:21033283-21057068:+|nuORF;ENST00000581339.1_1_18:21053400-21057068:+|nuORF nc|ENSG00000101782|O14730-2|RIOK3 nc|ENSG00000101782|O14730-2|RIOK3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.3650512695312 2 540.226756 1078.43896 3.1746 0.001715 0.12623 6.8193E-05 3.3008 0.0017832 540.2270755396642 35.209 0.22659 35.464 35.339 35.566 0.25524 19 10 3 0 0 0 0.01929 1 16073 16073 46.021 27.886 1 505410 8953 1313 5818 5835 10330 10330 -0.09712247464540269 HADPSIFTVL 10 Unmodified _HADPSIFTVL_ 0 0 0 ENSG00000113924|ENST00000283871|HGD ENSG00000113924|ENST00000283871|HGD ENSG00000113924|ENST00000283871|HGD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.2952270507812 2 550.292756 1098.57096 3.0297 0.0016672 0.53838 0.00029627 3.5681 0.0019635 550.2928258741498 75.952 0.31726 75.952 75.8 76.118 0 50 21 3 0 0 0 0.020048 2 37254 37185;37254 71.134 50.68 1 2107800 8954 1882 5819 5836 10331;10332 10332 0.025617256147143053 HADPSIFTVL 10 Unmodified _HADPSIFTVL_ 0 0 0 ENSG00000113924|ENST00000283871|HGD ENSG00000113924|ENST00000283871|HGD ENSG00000113924|ENST00000283871|HGD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.2942504882812 2 550.292756 1098.57096 2.7358 0.0015055 -0.22369 -0.0001231 2.5121 0.0013824 550.2924957683775 75.026 0.1888 75.689 75.604 75.792 0.6635 18 14 2 0 0 0 0.020048 2 36347 36347;36358 71.134 44.25 1 2515700 8955 1882 5819 5836 10333;10334 10333 0.025617256147143053 HADPSIFTVL 10 Unmodified _HADPSIFTVL_ 0 0 0 ENSG00000113924|ENST00000283871|HGD ENSG00000113924|ENST00000283871|HGD ENSG00000113924|ENST00000283871|HGD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.2944946289062 2 550.292756 1098.57096 3.3102 0.0018216 0.22695 0.00012489 3.5372 0.0019465 550.2929422289259 75.787 0.29381 76.044 75.904 76.198 0.25704 55 22 3 0 0 0 0.018908 2 34915 34870;34915 81.613 50.977 1 1448600 8956 1882 5819 5836 10335;10336 10336 0.025617256147143053 HADPSIFTVL 10 Unmodified _HADPSIFTVL_ 0 0 0 ENSG00000113924|ENST00000283871|HGD ENSG00000113924|ENST00000283871|HGD ENSG00000113924|ENST00000283871|HGD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.2941284179688 2 550.292756 1098.57096 3.1105 0.0017117 -0.01428 -7.8582E-06 3.0962 0.0017038 550.2928853364431 75.286 0.30149 75.95 75.802 76.104 0.6644 55 23 3 0 0 0 0.018908 1 34672 34672 81.613 52.531 1 1397200 8957 1882 5819 5836 10337 10337 0.025617256147143053 HADPTELAL 9 Unmodified _HADPTELAL_ 0 0 0 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2;ENSG00000130640|ENST00000252936|TUBGCP2;nc|ENSG00000130640|Q9BSJ2-4|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.74951171875 2 483.748182 965.481811 3.0268 0.0014642 0.084465 4.086E-05 3.1113 0.0015051 483.7481369138546 46.755 0.32388 46.755 46.585 46.909 0 27 11 3 0 0 0 0.012869 2 21393 21393;21455 77.984 47.76 1 1628200 8958 2604 5820 5837 10338;10339 10338 -0.002311093448156498 HADPTELAL 9 Unmodified _HADPTELAL_ 0 0 0 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2;ENSG00000130640|ENST00000252936|TUBGCP2;nc|ENSG00000130640|Q9BSJ2-4|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.7503356933594 2 483.748182 965.481811 3.0953 0.0014974 0.20008 9.6789E-05 3.2954 0.0015942 483.7482088634225 45.835 0.26716 46.661 46.496 46.763 0.82621 25 14 2 0 0 0 0.026068 1 20856 20856 60.39 37.241 1 1801700 8959 2604 5820 5837 10340 10340 -0.002311093448156498 HADPTELAL 9 Unmodified _HADPTELAL_ 0 0 0 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2;ENSG00000130640|ENST00000252936|TUBGCP2;nc|ENSG00000130640|Q9BSJ2-4|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.7491455078125 2 483.748182 965.481811 3.2616 0.0015778 0.15704 7.5968E-05 3.4187 0.0016538 483.7481194151158 46.628 0.30574 46.894 46.675 46.98 0.26561 18 10 2 0 0 0 0.018173 2 21273 21273;21335 70.716 40.491 1 1367000 8960 2604 5820 5837 10341;10342 10341 -0.002311093448156498 HADPTELAL 9 Unmodified _HADPTELAL_ 0 0 0 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2;ENSG00000130640|ENST00000252936|TUBGCP2;nc|ENSG00000130640|Q9BSJ2-4|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.7493591308594 2 483.748182 965.481811 3.4883 0.0016875 0.064456 3.118E-05 3.5528 0.0017186 483.748164157288 45.998 0.39347 46.649 46.435 46.829 0.65104 22 11 4 0 0 0 0.026068 2 21045 21045;21111 60.39 37.241 1 1179300 8961 2604 5820 5837 10343;10344 10343 -0.002311093448156498 HADQAEIRSL 10 Unmodified _HADQAEIRSL_ 0 0 0 ENSG00000119917|ENST00000371818|IFIT3;IFIT3|p.F457Sfs*33|1|0.36|ENSG00000119917|chr10:89340022-89340022|T/-|frameshift_variant;IFIT3|p.G98Efs*20|1|0.27|ENSG00000119917|chr10:89338945-89338945|G/-|frameshift_variant;ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119917|ENST00000371818|IFIT3;ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119922|ENST00000371826|IFIT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 570.2950439453125 2 570.293819 1138.57309 3.4753 0.001982 -0.72554 -0.00041377 2.7498 0.0015682 570.293395425813 23.031 0.18596 23.307 23.228 23.414 0.27562 45 34 2 0 0 0 2.3805E-13 2 10406 10366;10406 161.44 71.31 1 5903200 8962 2173;2172 5821 5838 10345;10346 10346 0.009341543525124507 HADQAEIRSL 10 Unmodified _HADQAEIRSL_ 0 0 0 ENSG00000119917|ENST00000371818|IFIT3;IFIT3|p.F457Sfs*33|1|0.36|ENSG00000119917|chr10:89340022-89340022|T/-|frameshift_variant;IFIT3|p.G98Efs*20|1|0.27|ENSG00000119917|chr10:89338945-89338945|G/-|frameshift_variant;ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119917|ENST00000371818|IFIT3;ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119922|ENST00000371826|IFIT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.5323791503906 3 380.531638 1138.57309 2.8051 0.0010674 -1.1779 -0.00044825 1.6272 0.00061919 380.53122533009446 23.057 0.089104 23.332 23.284 23.373 0.27562 27 15 2 0 0 0 0.020118 1 10402 10402 70.496 41.214 1 5646000 8963 2173;2172 5821 5838 10347 10347 0.009341543525124507 HADQAEIRSL 10 Unmodified _HADQAEIRSL_ 0 0 0 ENSG00000119917|ENST00000371818|IFIT3;IFIT3|p.F457Sfs*33|1|0.36|ENSG00000119917|chr10:89340022-89340022|T/-|frameshift_variant;IFIT3|p.G98Efs*20|1|0.27|ENSG00000119917|chr10:89338945-89338945|G/-|frameshift_variant;ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119917|ENST00000371818|IFIT3;ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119922|ENST00000371826|IFIT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.295654296875 2 570.293819 1138.57309 3.6243 0.0020669 -0.59183 -0.00033752 3.0325 0.0017294 570.2936342094551 22.541 0.21853 23.182 23.084 23.303 0.64051 47 30 2 0 0 0 1.5083E-13 2 10239 10239;10280 188.38 98.242 1 8870500 8964 2173;2172 5821 5838 10348;10349 10348 0.009341543525124507 HADQAEIRSL 10 Unmodified _HADQAEIRSL_ 0 0 0 ENSG00000119917|ENST00000371818|IFIT3;IFIT3|p.F457Sfs*33|1|0.36|ENSG00000119917|chr10:89340022-89340022|T/-|frameshift_variant;IFIT3|p.G98Efs*20|1|0.27|ENSG00000119917|chr10:89338945-89338945|G/-|frameshift_variant;ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119917|ENST00000371818|IFIT3;ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119922|ENST00000371826|IFIT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.5328369140625 3 380.531638 1138.57309 2.7282 0.0010382 -0.4522 -0.00017208 2.276 0.00086611 380.531412322037 22.557 0.14836 23.197 23.117 23.266 0.64051 32 19 2 0 0 0 0.019235 1 10260 10260 78.61 52.613 1 3076200 8965 2173;2172 5821 5838 10350 10350 0.009341543525124507 HADQEYVL 8 Unmodified _HADQEYVL_ 0 0 0 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.73492431640625 2 487.732532 973.45051 3.1662 0.0015443 0.77464 0.00037782 3.9408 0.0019221 487.7334386470472 36.493 0.65521 36.493 36.185 36.84 0 62 29 3 0 0 0 0.21011 1 16618 16618 42.095 22.656 1 835450 8966 1798 5822 5839 10351 10351 -0.03727682378894315 HADQEYVL 8 Unmodified _HADQEYVL_ 0 0 0 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.734619140625 2 487.732532 973.45051 3.3134 0.0016161 1.4234 0.00069425 4.7369 0.0023103 487.73347539224045 35.651 0.4894 36.442 36.095 36.585 0.79131 37 25 2 0 0 0 0.06577 1 16185 16185 60.39 34.048 1 756460 8967 1798 5822 5839 10352 10352 -0.03727682378894315 HADQEYVL 8 Unmodified _HADQEYVL_ 0 0 0 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.73394775390625 2 487.732532 973.45051 3.1547 0.0015387 -0.67659 -0.00033 2.4781 0.0012087 487.73252103085906 36.626 0.60003 36.884 36.502 37.102 0.25768 44 22 3 0 0 0 0.05432 3 16715 16654;16715;16730 64.236 42.49 1 864050 8968 1798 5822 5839 10353;10354;10355 10354 -0.03727682378894315 HADQEYVL 8 Unmodified _HADQEYVL_ 0 0 0 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.7348327636719 2 487.732532 973.45051 3.3084 0.0016136 -0.081171 -3.959E-05 3.2272 0.001574 487.7325785004901 36.036 0.38462 36.663 36.46 36.845 0.62631 24 12 3 0 0 0 0.022274 1 16504 16504 85.357 56.87 1 697600 8969 1798 5822 5839 10356 10356 -0.03727682378894315 HAEDLASKL 9 Unmodified _HAEDLASKL_ 0 0 0 nc|ENSG00000058091|O94921-3|CDK14;nc|ENSG00000058091|O94921-2|CDK14;ENSG00000058091|ENST00000380050|CDK14 nc|ENSG00000058091|O94921-3|CDK14 nc|ENSG00000058091|O94921-3|CDK14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.5108947753906 3 328.510063 982.50836 1.7413 0.00057204 0.52263 0.00017169 2.264 0.00074373 328.51015019696524 12.869 0.15865 13.176 13.091 13.25 0.30727 10 4 3 0 0 0 0.7295 1 5819 5819 5.2969 0 1 612980 8970 629 5823 5840 10357 10357 0.01640579546540266 HAEDLASKL 9 Unmodified _HAEDLASKL_ 0 0 0 nc|ENSG00000058091|O94921-3|CDK14;nc|ENSG00000058091|O94921-2|CDK14;ENSG00000058091|ENST00000380050|CDK14 nc|ENSG00000058091|O94921-3|CDK14 nc|ENSG00000058091|O94921-3|CDK14 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 328.510063 982.50836 2.5228 0.00082878 -0.34257 -0.00011254 2.1803 0.00071624 328.51011406642965 12.719 0.10155 13.362 13.278 13.379 0.64272 0.092992 -0.00050404 NaN 5.2969 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 333170 8971 629 5823 5840 0.01640579546540266 HAEEKKYI 8 Unmodified _HAEEKKYI_ 0 0 0 REV__nc|ENSG00000183117|Q96PZ7-2|CSMD1 REV__nc|ENSG00000183117|Q96PZ7-2|CSMD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.27392578125 2 509.271824 1016.5291 3.235 0.0016475 0.29799 0.00015176 3.533 0.0017993 509.2719372249257 21.899 0.32797 21.899 21.72 22.048 0 87 26 4 0 0 0 0.49219 1 9756 9756 21.747 0.20967 1 1968700 + 8972 13919 5824 5841 10358 10358 0.02149169926178729 HAETDWQM 8 Unmodified _HAETDWQM_ 0 0 0 ENSG00000138792|ENST00000265162|ENPEP ENSG00000138792|ENST00000265162|ENPEP ENSG00000138792|ENST00000265162|ENPEP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 509.2090759277344 2 509.208366 1016.40218 3.131 0.0015943 -0.10758 -5.4779E-05 3.0234 0.0015395 509.208444970723 35.082 0.22787 35.873 35.688 35.916 0.79131 20 13 2 0 0 0 0.42655 1 15891 15891 26.341 22.012 1 167690 8973 3119 5825 5842 10359 10359 -0.10536499290446955 HAETLKII 8 Unmodified _HAETLKII_ 0 0 0 ENST00000493134.1_1_3:44840780-44854740:+|nuORF;nc|ENSG00000163808|Q9NS87-4|KIF15;nc|ENSG00000163808|Q9NS87-2|KIF15;ENSG00000163808|ENST00000326047|KIF15 ENST00000493134.1_1_3:44840780-44854740:+|nuORF ENST00000493134.1_1_3:44840780-44854740:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.8560791015625 3 308.855282 923.544017 2.0537 0.00063428 0.66006 0.00020386 2.7137 0.00083815 308.8555357263438 32.528 0.36701 33.147 32.961 33.328 0.61831 46 18 4 0 0 0 0.68261 1 14951 14951 7.2892 1.0834 1 1590700 8974 4252 5826 5843 10360 10360 0.0791866179419003 HAFSEDPML 9 Unmodified _HAFSEDPML_ 0 0 0 ENSG00000184083|ENST00000375180|FAM120C ENSG00000184083|ENST00000375180|FAM120C ENSG00000184083|ENST00000375180|FAM120C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.7366943359375 2 523.734217 1045.45388 3.5558 0.0018623 0.13761 7.207E-05 3.6934 0.0019344 523.7347400540289 48.02 0.19402 48.282 48.181 48.375 0.2621 11 7 2 0 0 0 0.11001 1 21977 21977 30.225 30.225 1 243030 8975 5420 5827 5844 10361 10361 -0.06702755596552379 HAFSEDPML 9 Unmodified _HAFSEDPML_ 0 0 0 ENSG00000184083|ENST00000375180|FAM120C ENSG00000184083|ENST00000375180|FAM120C ENSG00000184083|ENST00000375180|FAM120C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.7357177734375 2 523.734217 1045.45388 NaN NaN NaN NaN NaN NaN NaN 47.496 1 48.149 47.649 48.649 0.65356 0 0 0 0.52667 1 21745 21745 18.135 11.412 1 8976 5420 5827 5844 10362 10362 -0.06702755596552379 HAFSEDPML 9 Unmodified _HAFSEDPML_ 0 0 0 ENSG00000184083|ENST00000375180|FAM120C ENSG00000184083|ENST00000375180|FAM120C ENSG00000184083|ENST00000375180|FAM120C MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 523.734217 1045.45388 3.3184 0.001738 -0.043031 -2.2537E-05 3.2754 0.0017154 523.7342235438089 47.407 0.18521 48.061 47.962 48.147 0.65356 -0.11091 -7.5784E-05 NaN 30.225 13 7 2 NaN NaN NaN NaN 0 NaN NaN 0 212630 8977 5420 5827 5844 -0.06702755596552379 HAFSVEPLL 9 Unmodified _HAFSVEPLL_ 0 0 0 ENSG00000130309|ENST00000252599|COLGALT1;ENST00000593832.1_1_19:17691448-17692250:+|nuORF ENSG00000130309|ENST00000252599|COLGALT1 ENSG00000130309|ENST00000252599|COLGALT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.7789306640625 2 506.776742 1011.53893 3.4084 0.0017273 -0.11575 -5.866E-05 3.2927 0.0016686 506.77680414709374 66.077 0.27886 66.325 66.191 66.47 0.24848 25 15 2 0 0 0 0.010037 2 30273 30256;30273 81.864 45.82 1 1162800 8978 2586 5828 5845 10363;10364 10364 0.03362357931564475 HAFSVEPLL 9 Unmodified _HAFSVEPLL_ 0 0 0 ENSG00000130309|ENST00000252599|COLGALT1;ENST00000593832.1_1_19:17691448-17692250:+|nuORF ENSG00000130309|ENST00000252599|COLGALT1 ENSG00000130309|ENST00000252599|COLGALT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.2799377441406 2 506.776742 1011.53893 3.3785 0.0017121 0.13324 6.7521E-05 3.5117 0.0017797 506.776883095016 65.456 0.29472 66.113 65.995 66.29 0.65672 31 15 3 0 0 0 0.015487 2 30008 30008;30060 74.396 52.65 1 1148200 8979 2586 5828 5845 10365;10366 10365 0.03362357931564475 HAHGRHFNL 9 Unmodified _HAHGRHFNL_ 0 0 0 ENSG00000137845|ENST00000260408|ADAM10;ENST00000558733.5_1_15:58947546-59041769:-|nuORF ENSG00000137845|ENST00000260408|ADAM10;ENST00000558733.5_1_15:58947546-59041769:-|nuORF ENSG00000137845|ENST00000260408|ADAM10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.52227783203125 3 363.521408 1087.54239 2.8329 0.0010298 -0.4257 -0.00015475 2.4072 0.00087506 363.52116311492966 12.441 0.048922 12.441 12.418 12.467 0 13 7 2 0 0 0 0.034495 1 5406 5406 53.833 35.112 1 6990800 8980 3048;8957 5829 5846 10367 10367 0.002124655487932614 HAHGRHFNL 9 Unmodified _HAHGRHFNL_ 0 0 0 ENSG00000137845|ENST00000260408|ADAM10;ENST00000558733.5_1_15:58947546-59041769:-|nuORF ENSG00000137845|ENST00000260408|ADAM10;ENST00000558733.5_1_15:58947546-59041769:-|nuORF ENSG00000137845|ENST00000260408|ADAM10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 363.5216369628906 3 363.521408 1087.54239 1.8611 0.00067656 -0.84869 -0.00030852 1.0124 0.00036804 363.5211776148764 12.36 0.044487 12.621 12.607 12.651 0.26154 7 5 2 0 0 0 0.03963 1 5337 5337 51.63 26.23 1 8814800 8981 3048;8957 5829 5846 10368 10368 0.002124655487932614 HAHGRHFNL 9 Unmodified _HAHGRHFNL_ 0 0 0 ENSG00000137845|ENST00000260408|ADAM10;ENST00000558733.5_1_15:58947546-59041769:-|nuORF ENSG00000137845|ENST00000260408|ADAM10;ENST00000558733.5_1_15:58947546-59041769:-|nuORF ENSG00000137845|ENST00000260408|ADAM10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.5213928222656 3 363.521408 1087.54239 1.8256 0.00066364 -0.5372 -0.00019528 1.2884 0.00046835 363.5213859573565 12.359 0.051534 12.667 12.64 12.691 0.30727 9 5 2 0 0 0 0.084899 1 5559 5559 36.506 13.77 1 12944000 8982 3048;8957 5829 5846 10369 10369 0.002124655487932614 HAHGRHFNL 9 Unmodified _HAHGRHFNL_ 0 0 0 ENSG00000137845|ENST00000260408|ADAM10;ENST00000558733.5_1_15:58947546-59041769:-|nuORF ENSG00000137845|ENST00000260408|ADAM10;ENST00000558733.5_1_15:58947546-59041769:-|nuORF ENSG00000137845|ENST00000260408|ADAM10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.5221252441406 3 363.521408 1087.54239 2.9429 0.0010698 -0.41442 -0.00015065 2.5285 0.00091916 363.5213025900761 12.345 0.04196 12.983 12.961 13.003 0.63746 8 3 3 0 0 0 0.057945 1 5521 5521 43.772 19.983 1 6269700 8983 3048;8957 5829 5846 10370 10370 0.002124655487932614 HAHLDIEAF 9 Unmodified _HAHLDIEAF_ 0 0 0 ENSG00000130707|ENST00000352480|ASS1;ENST00000372386.6_1_9:133355254-133376405:+|nuORF ENSG00000130707|ENST00000352480|ASS1 ENSG00000130707|ENST00000352480|ASS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.762451171875 2 526.761623 1051.50869 2.9731 0.0015661 -0.040833 -2.1509E-05 2.9323 0.0015446 526.7615692684376 46.755 0.33942 46.755 46.603 46.943 0 19 11 2 0 0 0 0.015487 2 21390 21390;21457 74.396 48.997 1 1326600 8984 2611 5830 5847 10371;10372 10371 -0.015000007336311683 HAHLDIEAF 9 Unmodified _HAHLDIEAF_ 0 0 0 ENSG00000130707|ENST00000352480|ASS1;ENST00000372386.6_1_9:133355254-133376405:+|nuORF ENSG00000130707|ENST00000352480|ASS1 ENSG00000130707|ENST00000352480|ASS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.7626953125 2 526.761623 1051.50869 3.1886 0.0016796 -0.65775 -0.00034648 2.5309 0.0013332 526.7611332674051 45.689 0.24395 46.516 46.387 46.631 0.82621 24 11 3 0 0 0 0.023627 1 20782 20782 63.563 38.164 1 1018600 8985 2611 5830 5847 10373 10373 -0.015000007336311683 HAHLDIEAF 9 Unmodified _HAHLDIEAF_ 0 0 0 ENSG00000130707|ENST00000352480|ASS1;ENST00000372386.6_1_9:133355254-133376405:+|nuORF ENSG00000130707|ENST00000352480|ASS1 ENSG00000130707|ENST00000352480|ASS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.76416015625 2 526.761623 1051.50869 3.4937 0.0018404 1.2266 0.00064614 4.7204 0.0024865 526.7625797787101 46.644 0.25549 46.91 46.756 47.011 0.26561 15 8 2 0 0 0 0.018173 1 21286 21286 70.716 43.087 1 1694100 8986 2611 5830 5847 10374 10374 -0.015000007336311683 HAHLDIEAF 9 Unmodified _HAHLDIEAF_ 0 0 0 ENSG00000130707|ENST00000352480|ASS1;ENST00000372386.6_1_9:133355254-133376405:+|nuORF ENSG00000130707|ENST00000352480|ASS1 ENSG00000130707|ENST00000352480|ASS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.7630615234375 2 526.761623 1051.50869 3.6062 0.0018996 0.17213 9.0673E-05 3.7783 0.0019903 526.761492352867 46.031 0.32764 46.682 46.501 46.829 0.65104 21 9 3 0 0 0 0.023627 1 21097 21097 63.563 44.124 1 1119200 8987 2611 5830 5847 10375 10375 -0.015000007336311683 HAHVKPLL 8 Unmodified _HAHVKPLL_ 0 0 0 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.52484130859375 3 305.523867 913.549771 1.979 0.00060464 0.81597 0.0002493 2.795 0.00085394 305.52410305111795 14.82 0.44036 15.127 14.896 15.337 0.3069 60 42 2 0 0 0 0.69414 1 6692 6692 4.3292 2.485 1 79290 8988 1989 5831 5848 10376 10376 0.08953805096518863 HAHVKPLL 8 Unmodified _HAHVKPLL_ 0 0 0 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 305.52484130859375 3 305.523867 913.549771 2.2033 0.00067316 0.94624 0.0002891 3.1495 0.00096225 305.5242473268033 14.731 0.47387 15.384 15.322 15.796 0.65356 55 41 2 0 0 0 0.73686 1 6765 6765 1.8442 0 1 123520 8989 1989 5831 5848 10377 10377 0.08953805096518863 HAIEESVVL 9 Unmodified _HAIEESVVL_ 0 0 0 ENSG00000147677|ENST00000521861|EIF3H;ENST00000517974.1_1_8:117671049-117768052:-|nuORF;ENST00000518034.5_1_8:117671049-117768048:-|nuORF ENSG00000147677|ENST00000521861|EIF3H ENSG00000147677|ENST00000521861|EIF3H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.7738037109375 2 498.771657 995.528761 2.8631 0.0014281 1.3528 0.00067474 4.2159 0.0021028 498.7722877360713 46.602 0.22926 46.602 46.558 46.787 0 15 8 2 0 0 0 0.041436 1 21378 21378 50.855 27.707 1 615720 8990 3578 5832 5849 10378 10378 0.030817502063428037 HAIEESVVL 9 Unmodified _HAIEESVVL_ 0 0 0 ENSG00000147677|ENST00000521861|EIF3H;ENST00000517974.1_1_8:117671049-117768052:-|nuORF;ENST00000518034.5_1_8:117671049-117768048:-|nuORF ENSG00000147677|ENST00000521861|EIF3H ENSG00000147677|ENST00000521861|EIF3H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.7728271484375 2 498.771657 995.528761 3.3645 0.0016781 0.13025 6.4963E-05 3.4948 0.0017431 498.7715172297629 46.461 0.30438 46.726 46.568 46.872 0.26561 16 10 2 0 0 0 0.010037 1 21233 21233 81.864 45.737 1 934590 8991 3578 5832 5849 10379 10379 0.030817502063428037 HAIEESVVL 9 Unmodified _HAIEESVVL_ 0 0 0 ENSG00000147677|ENST00000521861|EIF3H;ENST00000517974.1_1_8:117671049-117768052:-|nuORF;ENST00000518034.5_1_8:117671049-117768048:-|nuORF ENSG00000147677|ENST00000521861|EIF3H ENSG00000147677|ENST00000521861|EIF3H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.7735595703125 2 498.771657 995.528761 3.522 0.0017567 0.39499 0.00019701 3.917 0.0019537 498.77165624841314 45.845 0.30862 46.496 46.36 46.668 0.65104 22 9 3 0 0 0 0.018173 1 21020 21020 70.716 41.634 1 758570 8992 3578 5832 5849 10380 10380 0.030817502063428037 HAIQKLYSL 9 Unmodified _HAIQKLYSL_ 0 0 0 nc|ENSG00000132842|O00203-3|AP3B1;ENSG00000132842|ENST00000255194|AP3B1;AP3B1|p.K923Nfs*4|1|0.36|ENSG00000132842|chr5:78039083-78039083|T/-|frameshift_variant nc|ENSG00000132842|O00203-3|AP3B1 nc|ENSG00000132842|O00203-3|AP3B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.8129272460938 2 536.811116 1071.60768 3.2704 0.0017556 0.63719 0.00034205 3.9076 0.0020976 536.811270458891 36.995 0.34847 37.625 37.44 37.788 0.62999 27 13 3 0 0 0 0.053453 1 16936 16936 45.7 27.553 1 392000 8993 2729 5833 5850 10381 10381 0.07474022231258459 HAIQKLYSL 9 Unmodified _HAIQKLYSL_ 0 0 0 nc|ENSG00000132842|O00203-3|AP3B1;ENSG00000132842|ENST00000255194|AP3B1;AP3B1|p.K923Nfs*4|1|0.36|ENSG00000132842|chr5:78039083-78039083|T/-|frameshift_variant nc|ENSG00000132842|O00203-3|AP3B1 nc|ENSG00000132842|O00203-3|AP3B1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 536.811116 1071.60768 3.0986 0.0016634 1.2813 0.00068784 4.38 0.0023512 536.8118588793767 37.63 0.34245 37.891 37.696 38.038 0.26083 0.13318 0.00039303 NaN 45.7 20 10 3 NaN NaN NaN NaN 0 NaN NaN 0 473760 8994 2729 5833 5850 0.07474022231258459 HAKEENLSM 9 Unmodified _HAKEENLSM_ 0 0 0 nc|ENSG00000140416|P09493-9|TPM1;nc|ENSG00000140416|P09493-3|TPM1;ENST00000558264.5_1_15:63353458-63363368:+|nuORF;nc|ENSG00000140416|P09493-2|TPM1;nc|ENSG00000140416|P09493-8|TPM1;nc|ENSG00000140416|P09493-7|TPM1 nc|ENSG00000140416|P09493-9|TPM1 nc|ENSG00000140416|P09493-9|TPM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.751220703125 2 529.750398 1057.48624 3.1259 0.0016559 -0.75829 -0.0004017 2.3676 0.0012542 529.7499061873807 14.493 0.18052 14.493 14.406 14.587 0 49 15 4 0 0 0 0.0024283 2 6374 6374;6413 99.755 45.922 1 1558600 + 8995 9670 5834 5851 10382;10383 10382 -0.04019968193551904 HAKEENLSM 9 Unmodified _HAKEENLSM_ 0 0 0 nc|ENSG00000140416|P09493-9|TPM1;nc|ENSG00000140416|P09493-3|TPM1;ENST00000558264.5_1_15:63353458-63363368:+|nuORF;nc|ENSG00000140416|P09493-2|TPM1;nc|ENSG00000140416|P09493-8|TPM1;nc|ENSG00000140416|P09493-7|TPM1 nc|ENSG00000140416|P09493-9|TPM1 nc|ENSG00000140416|P09493-9|TPM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.7520141601562 2 529.750398 1057.48624 3.0395 0.0016102 -0.49039 -0.00025979 2.5491 0.0013504 529.7501873825345 14.018 0.24227 14.245 14.146 14.389 0.22622 44 21 3 0 0 0 0.0057865 2 6136 6136;6179 90.135 48.179 1 1217800 + 8996 9670 5834 5851 10384;10385 10384 -0.04019968193551904 HAKEENLSM 9 Unmodified _HAKEENLSM_ 0 0 0 nc|ENSG00000140416|P09493-9|TPM1;nc|ENSG00000140416|P09493-3|TPM1;ENST00000558264.5_1_15:63353458-63363368:+|nuORF;nc|ENSG00000140416|P09493-2|TPM1;nc|ENSG00000140416|P09493-8|TPM1;nc|ENSG00000140416|P09493-7|TPM1 nc|ENSG00000140416|P09493-9|TPM1 nc|ENSG00000140416|P09493-9|TPM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.750732421875 2 529.750398 1057.48624 2.9586 0.0015673 -1.3122 -0.00069515 1.6463 0.00087214 529.7494965757161 14.134 0.058605 14.441 14.421 14.48 0.3069 12 7 2 0 0 0 0.0027913 1 6397 6397 96.367 33.794 1 2919800 + 8997 9670 5834 5851 10386 10386 -0.04019968193551904 HAKEENLSM 9 Unmodified _HAKEENLSM_ 0 0 0 nc|ENSG00000140416|P09493-9|TPM1;nc|ENSG00000140416|P09493-3|TPM1;ENST00000558264.5_1_15:63353458-63363368:+|nuORF;nc|ENSG00000140416|P09493-2|TPM1;nc|ENSG00000140416|P09493-8|TPM1;nc|ENSG00000140416|P09493-7|TPM1 nc|ENSG00000140416|P09493-9|TPM1 nc|ENSG00000140416|P09493-9|TPM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.751708984375 2 529.750398 1057.48624 3.3702 0.0017854 -1.0685 -0.00056606 2.3017 0.0012193 529.7496010173455 13.657 0.27086 14.305 14.169 14.44 0.64819 50 19 3 0 0 0 0.011692 1 6125 6125 79.596 33.897 1 715640 + 8998 9670 5834 5851 10387 10387 -0.04019968193551904 HAKPHGGA 8 Unmodified _HAKPHGGA_ 0 0 0 REV__ENSG00000105997|ENST00000612286|HOXA3 REV__ENSG00000105997|ENST00000612286|HOXA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.7057189941406 2 387.703912 773.39327 NaN NaN NaN NaN NaN NaN NaN 63.951 1 64.199 63.699 64.699 0.24803 0 0 0 0.99035 1 29289 29289 0.79363 0 1 + 8999 11067 5835 5852 10388 10388 -0.002490600739633919 HALEEISLQ 9 Unmodified _HALEEISLQ_ 0 0 0 nc|ENSG00000205213|Q9BXB1-2|LGR4;ENSG00000205213|ENST00000379214|LGR4 nc|ENSG00000205213|Q9BXB1-2|LGR4 nc|ENSG00000205213|Q9BXB1-2|LGR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.18548583984375 3 347.185468 1038.53457 NaN NaN NaN NaN NaN NaN NaN 71.435 1 71.693 71.193 72.193 0.25786 0 0 0 0.90431 1 32724 32724 2.4985 0.21571 1 9000 6044 5836 5853 10389 10389 0.016848487180141092 HALIKSLF 8 Unmodified _HALIKSLF_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B;ENST00000494129.1_1_2:192246088-192252282:+|nuORF nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.7855529785156 2 464.78437 927.554188 2.7711 0.001288 0.14803 6.8802E-05 2.9191 0.0013568 464.7844201989504 49.441 0.19474 49.702 49.587 49.782 0.26146 12 6 3 0 0 0 0.57761 1 22623 22623 15.768 4.6538 1 327850 9001 2521 5837 5854 10390 10390 0.08751269519427751 HALIKSLF 8 Unmodified _HALIKSLF_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B;ENST00000494129.1_1_2:192246088-192252282:+|nuORF nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.7862243652344 2 464.78437 927.554188 2.9288 0.0013613 1.7834 0.00082889 4.7122 0.0021902 464.78472920959865 48.886 0.17184 49.542 49.432 49.604 0.65524 12 6 2 0 0 0 0.34607 1 22375 22375 32.117 15.175 1 356100 9002 2521 5837 5854 10391 10391 0.08751269519427751 HALKDKALI 9 Unmodified _HALKDKALI_ 0 0 0 ENSG00000094804|ENST00000209728|CDC6 ENSG00000094804|ENST00000209728|CDC6 ENSG00000094804|ENST00000209728|CDC6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.8790588378906 3 336.878198 1007.61277 2.391 0.00080549 0.23645 7.9656E-05 2.6275 0.00088515 336.87831998702785 27.123 0.19695 27.388 27.258 27.455 0.26489 16 12 2 0 0 0 0.92418 1 12324 12324 5.2969 0.39987 1 399500 9003 1109 5838 5855 10392 10392 0.10926326093886018 HALVVHGG 8 Unmodified _HALVVHGG_ 0 0 0 REV__nc|ENSG00000053747|Q16787-3|LAMA3 REV__nc|ENSG00000053747|Q16787-3|LAMA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.2228698730469 2 395.221937 788.429321 NaN NaN NaN NaN NaN NaN NaN 38.257 1 38.891 38.391 39.391 0.63388 0 0 0 0.99035 1 17498 17498 0.79363 0 1 + 9004 10357 5839 5856 10393 10393 0.02664397102910243 HANTKVGL 8 Unmodified _HANTKVGL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 420.24151611328125 2 420.240327 838.466101 2.8816 0.001211 -0.24897 -0.00010463 2.6326 0.0011063 420.2401892348415 13.288 0.19156 13.288 13.199 13.39 0 28 16 2 0 0 0 0.018369 1 5803 5803 88.954 58.317 1 794800 9005 4204 5840 5857 10394 10394 0.040406489287988734 HANTKVGL 8 Unmodified _HANTKVGL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 420.240478515625 2 420.240327 838.466101 2.3105 0.00097096 -0.15348 -6.45E-05 2.157 0.00090646 420.24034716543116 12.798 0.10923 13.06 12.996 13.105 0.26154 15 8 2 0 0 0 0.0063663 1 5566 5566 126.57 74.298 1 1318100 9006 4204 5840 5857 10395 10395 0.040406489287988734 HANTKVGL 8 Unmodified _HANTKVGL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 420.241455078125 2 420.240327 838.466101 2.2571 0.00094853 0.079219 3.3291E-05 2.3363 0.00098182 420.24025960529093 12.733 0.15583 13.04 12.969 13.125 0.30727 10 4 3 0 0 0 0.0096139 1 5753 5753 103.35 61.514 1 2311100 9007 4204 5840 5857 10396 10396 0.040406489287988734 HANTKVGL 8 Unmodified _HANTKVGL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 420.24224853515625 2 420.240327 838.466101 3.3022 0.0013877 -0.35329 -0.00014847 2.9489 0.0012392 420.2404797384879 12.652 0.13474 13.295 13.21 13.345 0.64272 7 3 3 0 0 0 0.11901 1 5693 5693 20.871 11.524 1 2345800 9008 4204 5840 5857 10397 10397 0.040406489287988734 HAPPQGKA 8 Unmodified _HAPPQGKA_ 0 0 0 ENSG00000172985|ENST00000309415|SH3RF3 ENSG00000172985|ENST00000309415|SH3RF3 ENSG00000172985|ENST00000309415|SH3RF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.22149658203125 2 403.219395 804.424236 2.8701 0.0011573 0.79019 0.00031862 3.6603 0.0014759 403.2193719035899 28.225 0.80165 28.488 28.156 28.957 0.26245 75 57 2 0 0 0 0.7471 2 12795 12795;12845 0.79363 0 1 564820 9009 4909 5841 5858 10398;10399 10398 0.014200932402786748 HAPPQGKA 8 Unmodified _HAPPQGKA_ 0 0 0 ENSG00000172985|ENST00000309415|SH3RF3 ENSG00000172985|ENST00000309415|SH3RF3 ENSG00000172985|ENST00000309415|SH3RF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 403.22125244140625 2 403.219395 804.424236 2.8652 0.0011553 0.77224 0.00031138 3.6375 0.0014667 403.21945372729465 27.799 0.83295 28.418 28.126 28.959 0.61947 90 55 2 0 0 0 0.7471 2 12701 12701;12759 0.79363 0.10326 1 736260 9010 4909 5841 5858 10400;10401 10400 0.014200932402786748 HAPPQGKA 8 Unmodified _HAPPQGKA_ 0 0 0 ENSG00000172985|ENST00000309415|SH3RF3 ENSG00000172985|ENST00000309415|SH3RF3 ENSG00000172985|ENST00000309415|SH3RF3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 403.219395 804.424236 2.9575 0.0011925 1.6438 0.00066283 4.6013 0.0018553 403.2199699331826 28.409 0.53296 28.409 28.186 28.719 0 0.012531 0.00021207 NaN 0.79363 61 38 2 NaN NaN NaN NaN 0 NaN NaN 0 587310 9011 4909 5841 5858 0.014200932402786748 HAPPQGKA 8 Unmodified _HAPPQGKA_ 0 0 0 ENSG00000172985|ENST00000309415|SH3RF3 ENSG00000172985|ENST00000309415|SH3RF3 ENSG00000172985|ENST00000309415|SH3RF3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 403.219395 804.424236 2.7362 0.0011033 1.5 0.00060485 4.2362 0.0017081 403.2198707895235 27.484 0.75839 28.27 27.958 28.716 0.78627 -0.1262 9.6103E-05 NaN 0.79363 98 69 2 NaN NaN NaN NaN 0 NaN NaN 0 699980 9012 4909 5841 5858 0.014200932402786748 HAQIKTSL 8 Unmodified _HAQIKTSL_ 0 0 0 ENSG00000130513|ENST00000252809|GDF15 ENSG00000130513|ENST00000252809|GDF15 ENSG00000130513|ENST00000252809|GDF15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 449.2628173828125 2 449.261259 896.507966 2.904 0.0013046 0.11311 5.0816E-05 3.0171 0.0013555 449.26134483372925 18.395 0.19201 18.395 18.294 18.486 0 18 10 2 0 0 0 0.19187 1 8177 8177 43.858 15.371 1 282130 9013 2595 5842 5859 10402 10402 0.055572046173210765 HAQIKTSL 8 Unmodified _HAQIKTSL_ 0 0 0 ENSG00000130513|ENST00000252809|GDF15 ENSG00000130513|ENST00000252809|GDF15 ENSG00000130513|ENST00000252809|GDF15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 449.2623596191406 2 449.261259 896.507966 2.621 0.0011775 0.6492 0.00029166 3.2702 0.0014692 449.2614934898126 16.078 1.3215 16.384 15.766 17.088 0.306 334 153 3 0 0 0 0.21358 9 7202 7117;7160;7202;7244;7291;7338;7380;7423;7473 41.84 20.093 1 197930 9014 2595 5842 5859 10403;10404;10405;10406;10407;10408;10409;10410;10411 10405 0.055572046173210765 HAQIKTSL 8 Unmodified _HAQIKTSL_ 0 0 0 ENSG00000130513|ENST00000252809|GDF15 ENSG00000130513|ENST00000252809|GDF15 ENSG00000130513|ENST00000252809|GDF15 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 449.261259 896.507966 3.1373 0.0014095 1.025 0.00046051 4.1623 0.00187 449.2616111459867 16.032 1.298 16.69 16.132 17.43 0.65798 0.15307 0.00013082 NaN 41.84 466 155 4 NaN NaN NaN NaN 0 NaN NaN 0 270650 9015 2595 5842 5859 0.055572046173210765 HAQRRWQKRRR 11 Unmodified _HAQRRWQKRRR_ 0 0 0 ASTN2|p.Y228H|1|0.28|ENSG00000148219|chr9:117214691-117214691|A/G|missense_variant ASTN2|p.Y228H|1|0.28|ENSG00000148219|chr9:117214691-117214691|A/G|missense_variant ASTN2|p.Y228H|1|0.28|ENSG00000148219|chr9:117214691-117214691|A/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 789.4600219726562 2 789.459065 1576.90358 NaN NaN NaN NaN NaN NaN NaN 92.655 1 92.741 92.241 93.241 0.086212 0 0 0 1.008 1 48355 48355 0.30703 0 1 9016 71 5843 5860 10412 10412 0.13820082582310533 HARFLARAGLS 11 Unmodified _HARFLARAGLS_ 0 0 0 ENST00000296149.8_1_3:47552709-47555223:-|nuORF ENST00000296149.8_1_3:47552709-47555223:-|nuORF ENST00000296149.8_1_3:47552709-47555223:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.2357482910156 3 400.231634 1197.67307 NaN NaN NaN NaN NaN NaN NaN 81.732 1 81.98 81.48 82.48 0.24803 0 0 0 1.0059 1 37620 37620 1.2148 0 1 9017 6764 5844 5861 10413 10413 0.0821443647698743 HARIDYLT 8 Unmodified _HARIDYLT_ 0 0 0 REV__nc|ENSG00000234616|O75564|JRK REV__nc|ENSG00000234616|O75564|JRK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.7660827636719 2 494.764166 987.513779 3.1084 0.0015379 0.26751 0.00013235 3.3759 0.0016703 494.76414020136895 27.685 0.21998 27.948 27.813 28.033 0.26245 21 13 2 0 0 0 0.26351 1 12563 12563 37.974 11.09 1 332130 + 9018 14587 5845 5862 10414 10414 0.019523031289850223 HARIDYLT 8 Unmodified _HARIDYLT_ 0 0 0 REV__nc|ENSG00000234616|O75564|JRK REV__nc|ENSG00000234616|O75564|JRK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.765380859375 2 494.764166 987.513779 3.1036 0.0015356 0.28984 0.0001434 3.3935 0.001679 494.76438787927776 27.287 0.22194 27.909 27.763 27.985 0.62178 23 12 2 0 0 0 0.52627 1 12533 12533 24.021 12.38 1 364030 + 9019 14587 5845 5862 10415 10415 0.019523031289850223 HARIDYLT 8 Unmodified _HARIDYLT_ 0 0 0 REV__nc|ENSG00000234616|O75564|JRK REV__nc|ENSG00000234616|O75564|JRK MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 494.764166 987.513779 3.1084 0.0015379 0.26751 0.00013235 3.3759 0.0016703 494.76414020136895 27.685 0.21998 27.948 27.813 28.033 0.26245 0.019292 -1.3231E-05 NaN 37.974 21 13 2 NaN NaN NaN NaN 0 NaN NaN 0 332130 + 9020 14587 5845 5862 0.019523031289850223 HARIDYLT 8 Unmodified _HARIDYLT_ 0 0 0 REV__nc|ENSG00000234616|O75564|JRK REV__nc|ENSG00000234616|O75564|JRK MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 494.764166 987.513779 3.1036 0.0015356 0.28984 0.0001434 3.3935 0.001679 494.76438787927776 27.287 0.22194 27.909 27.763 27.985 0.62178 -0.019292 8.8714E-06 NaN 37.974 23 12 2 NaN NaN NaN NaN 0 NaN NaN 0 364030 + 9021 14587 5845 5862 0.019523031289850223 HARLRTATL 9 Unmodified _HARLRTATL_ 0 0 0 ENST00000580980.1_1_17:38142938-38146259:+|nuORF;nc|ENSG00000108344|O43242-2|PSMD3;ENST00000415039.7_1_17:38140716-38152959:+|nuORF;ENSG00000108344|ENST00000264639|PSMD3 ENST00000580980.1_1_17:38142938-38146259:+|nuORF ENST00000580980.1_1_17:38142938-38146259:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 346.8776550292969 3 346.87708 1037.60941 2.5883 0.00089783 -0.80988 -0.00028093 1.7785 0.0006169 346.8769296585892 12.802 0.11832 12.802 12.747 12.865 0 10 4 3 0 0 0 0.091193 1 5598 5598 34.932 6.4376 1 644750 9022 1628 5846 5863 10416 10416 0.09211076039900945 HARTITVAL 9 Unmodified _HARTITVAL_ 0 0 0 ENSG00000090861|ENST00000261772|AARS1;nc|ENSG00000090861|P49588-2|AARS1 ENSG00000090861|ENST00000261772|AARS1 ENSG00000090861|ENST00000261772|AARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.2972412109375 2 491.295633 980.576714 2.9009 0.0014252 0.32186 0.00015813 3.2228 0.0015833 491.2957572176426 33.874 0.18727 34.662 34.599 34.786 0.78795 19 12 2 0 0 0 0.11458 1 15340 15340 29.082 9.8246 1 350880 9023 1068 5847 5864 10417 10417 0.08564868917039803 HARTITVAL 9 Unmodified _HARTITVAL_ 0 0 0 ENSG00000090861|ENST00000261772|AARS1;nc|ENSG00000090861|P49588-2|AARS1 ENSG00000090861|ENST00000261772|AARS1 ENSG00000090861|ENST00000261772|AARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.29779052734375 2 491.295633 980.576714 3.151 0.0015481 0.23493 0.00011542 3.3859 0.0016635 491.2957573432677 34.59 0.28513 34.844 34.699 34.984 0.25389 28 11 3 0 0 0 0.035495 2 15748 15748;15806 53.404 16.053 1 2293900 9024 1068 5847 5864 10418;10419 10418 0.08564868917039803 HARTITVAL 9 Unmodified _HARTITVAL_ 0 0 0 ENSG00000090861|ENST00000261772|AARS1;nc|ENSG00000090861|P49588-2|AARS1 ENSG00000090861|ENST00000261772|AARS1 ENSG00000090861|ENST00000261772|AARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.2972412109375 2 491.295633 980.576714 3.1273 0.0015364 -0.23482 -0.00011537 2.8925 0.0014211 491.29568703838083 34.185 0.2824 34.805 34.677 34.96 0.62031 28 13 3 0 0 0 0.026853 2 15674 15626;15674 59.368 27.063 1 2389500 9025 1068 5847 5864 10420;10421 10421 0.08564868917039803 HARTITVAL 9 Unmodified _HARTITVAL_ 0 0 0 ENSG00000090861|ENST00000261772|AARS1;nc|ENSG00000090861|P49588-2|AARS1 ENSG00000090861|ENST00000261772|AARS1 ENSG00000090861|ENST00000261772|AARS1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 491.295633 980.576714 2.9009 0.0014252 0.32186 0.00015813 3.2228 0.0015833 491.2957572176426 33.874 0.18727 34.662 34.599 34.786 0.78795 -0.10832 0.00021629 NaN 59.368 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 350880 9026 1068 5847 5864 0.08564868917039803 HASDRIIAL 9 Unmodified _HASDRIIAL_ 0 0 0 ENST00000461139.5_1_3:53259774-53265639:-|nuORF;ENSG00000163931|ENST00000462138|TKT;nc|ENSG00000163931|P29401-2|TKT;ENST00000469678.1_1_3:53259917-53265542:-|nuORF;ENST00000460343.5_1_3:53261754-53265639:-|nuORF ENST00000461139.5_1_3:53259774-53265639:-|nuORF ENST00000461139.5_1_3:53259774-53265639:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.28643798828125 2 498.285266 994.555979 3.0802 0.0015348 0.12216 6.0871E-05 3.2024 0.0015957 498.2852185608265 36.765 0.2863 37.559 37.388 37.674 0.79342 20 12 2 0 0 0 0.10277 1 16683 16683 32.037 16.19 1 351410 9027 4263 5848 5865 10422 10422 0.058482785373598745 HASDRIIAL 9 Unmodified _HASDRIIAL_ 0 0 0 ENST00000461139.5_1_3:53259774-53265639:-|nuORF;ENSG00000163931|ENST00000462138|TKT;nc|ENSG00000163931|P29401-2|TKT;ENST00000469678.1_1_3:53259917-53265542:-|nuORF;ENST00000460343.5_1_3:53261754-53265639:-|nuORF ENST00000461139.5_1_3:53259774-53265639:-|nuORF ENST00000461139.5_1_3:53259774-53265639:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.2869873046875 2 498.285266 994.555979 3.3366 0.0016626 0.19686 9.8094E-05 3.5334 0.0017607 498.28534709638257 37.558 0.32074 37.819 37.63 37.951 0.26083 20 9 3 0 0 0 0.0076144 1 17104 17104 86.332 46.382 1 988640 9028 4263 5848 5865 10423 10423 0.058482785373598745 HASDRIIAL 9 Unmodified _HASDRIIAL_ 0 0 0 ENST00000461139.5_1_3:53259774-53265639:-|nuORF;ENSG00000163931|ENST00000462138|TKT;nc|ENSG00000163931|P29401-2|TKT;ENST00000469678.1_1_3:53259917-53265542:-|nuORF;ENST00000460343.5_1_3:53261754-53265639:-|nuORF ENST00000461139.5_1_3:53259774-53265639:-|nuORF ENST00000461139.5_1_3:53259774-53265639:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.2869873046875 2 498.285266 994.555979 3.265 0.0016269 0.48209 0.00024022 3.7471 0.0018671 498.2854733902678 36.873 0.37858 37.503 37.303 37.681 0.62999 36 14 3 0 0 0 0.0090098 1 16885 16885 83.429 50.643 1 1074800 9029 4263 5848 5865 10424 10424 0.058482785373598745 HASDRIIAL 9 Unmodified _HASDRIIAL_ 0 0 0 ENST00000461139.5_1_3:53259774-53265639:-|nuORF;ENSG00000163931|ENST00000462138|TKT;nc|ENSG00000163931|P29401-2|TKT;ENST00000469678.1_1_3:53259917-53265542:-|nuORF;ENST00000460343.5_1_3:53261754-53265639:-|nuORF ENST00000461139.5_1_3:53259774-53265639:-|nuORF ENST00000461139.5_1_3:53259774-53265639:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 498.285266 994.555979 3.0936 0.0015415 0.11092 5.5268E-05 3.2045 0.0015967 498.2853028857093 37.738 0.2752 37.738 37.611 37.886 0 0.083138 -0.00019915 NaN 86.332 25 10 3 NaN NaN NaN NaN 0 NaN NaN 0 462440 9030 4263 5848 5865 0.058482785373598745 HASIVEVLL 9 Unmodified _HASIVEVLL_ 0 0 0 nc|ENSG00000104064|Q06547-4|GABPB1;nc|ENSG00000104064|Q06547-3|GABPB1;ENSG00000104064|ENST00000380877|GABPB1;nc|ENSG00000104064|Q06547|GABPB1 nc|ENSG00000104064|Q06547-4|GABPB1 nc|ENSG00000104064|Q06547-4|GABPB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.2946472167969 2 490.792392 979.570232 2.9077 0.0014271 -0.11622 -5.7038E-05 2.7915 0.00137 490.7925248874164 72.07 0.26349 72.329 72.238 72.501 0.25876 65 25 3 0 0 0 0.020718 2 33064 33064;33111 67.344 31.3 1 1312200 9031 1422 5849 5866 10425;10426 10425 0.07962930965663872 HASIVEVLL 9 Unmodified _HASIVEVLL_ 0 0 0 nc|ENSG00000104064|Q06547-4|GABPB1;nc|ENSG00000104064|Q06547-3|GABPB1;ENSG00000104064|ENST00000380877|GABPB1;nc|ENSG00000104064|Q06547|GABPB1 nc|ENSG00000104064|Q06547-4|GABPB1 nc|ENSG00000104064|Q06547-4|GABPB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.7938232421875 2 490.792392 979.570232 2.56 0.0012564 0.28675 0.00014074 2.8467 0.0013971 490.79229664049905 71.607 0.37692 72.27 72.079 72.456 0.66324 62 22 4 0 0 0 0.012869 2 32856 32807;32856 77.984 35.89 1 1283600 9032 1422 5849 5866 10427;10428 10428 0.07962930965663872 HATFNDPVM 9 Unmodified _HATFNDPVM_ 0 0 0 nc|ENSG00000113761|Q9UL40-3|ZNF346;ENSG00000113761|ENST00000358149|ZNF346;nc|ENSG00000113761|Q9UL40-2|ZNF346 nc|ENSG00000113761|Q9UL40-3|ZNF346 nc|ENSG00000113761|Q9UL40-3|ZNF346 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.23681640625 2 516.234384 1030.45422 3.2822 0.0016944 -0.29836 -0.00015402 2.9839 0.0015404 516.2342923657822 40.027 0.27149 40.027 39.9 40.172 0 28 10 3 0 0 0 0.048676 2 18151 18151;18207 47.749 27.295 1 477780 9033 1872 5850 5867 10429;10430 10429 -0.05979335876713776 HATFNDPVM 9 Unmodified _HATFNDPVM_ 0 0 0 nc|ENSG00000113761|Q9UL40-3|ZNF346;ENSG00000113761|ENST00000358149|ZNF346;nc|ENSG00000113761|Q9UL40-2|ZNF346 nc|ENSG00000113761|Q9UL40-3|ZNF346 nc|ENSG00000113761|Q9UL40-3|ZNF346 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.235595703125 2 516.234384 1030.45422 3.3505 0.0017296 -0.20102 -0.00010377 3.1494 0.0016258 516.2342671180124 38.994 0.36292 39.792 39.581 39.944 0.79762 40 17 3 0 0 0 0.048676 3 17624 17613;17624;17675 47.749 25.111 1 541700 9034 1872 5850 5867 10431;10432;10433 10432 -0.05979335876713776 HATFNDPVM 9 Unmodified _HATFNDPVM_ 0 0 0 nc|ENSG00000113761|Q9UL40-3|ZNF346;ENSG00000113761|ENST00000358149|ZNF346;nc|ENSG00000113761|Q9UL40-2|ZNF346 nc|ENSG00000113761|Q9UL40-3|ZNF346 nc|ENSG00000113761|Q9UL40-3|ZNF346 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.2354736328125 2 516.234384 1030.45422 NaN NaN NaN NaN NaN NaN NaN 39.962 1 40.229 39.729 40.729 0.26696 0 0 0 0.024684 1 18180 18180 65.235 32.93 1 9035 1872 5850 5867 10434 10434 -0.05979335876713776 HATFNDPVM 9 Unmodified _HATFNDPVM_ 0 0 0 nc|ENSG00000113761|Q9UL40-3|ZNF346;ENSG00000113761|ENST00000358149|ZNF346;nc|ENSG00000113761|Q9UL40-2|ZNF346 nc|ENSG00000113761|Q9UL40-3|ZNF346 nc|ENSG00000113761|Q9UL40-3|ZNF346 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.2363891601562 2 516.234384 1030.45422 3.5676 0.0018417 0.017596 9.0835E-06 3.5852 0.0018508 516.2343396883967 39.519 0.27996 40.157 39.917 40.197 0.63778 17 11 2 0 0 0 0.029308 1 18051 18051 56.177 35.723 1 1002500 9036 1872 5850 5867 10435 10435 -0.05979335876713776 HATFNDPVM 9 Unmodified _HATFNDPVM_ 0 0 0 nc|ENSG00000113761|Q9UL40-3|ZNF346;ENSG00000113761|ENST00000358149|ZNF346;nc|ENSG00000113761|Q9UL40-2|ZNF346 nc|ENSG00000113761|Q9UL40-3|ZNF346 nc|ENSG00000113761|Q9UL40-3|ZNF346 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 516.234384 1030.45422 3.5166 0.0018154 0.031168 1.609E-05 3.5478 0.0018315 516.2342686606125 39.938 0.23811 40.205 39.99 40.228 0.26696 0.15949 0.000212 NaN 56.177 16 7 3 NaN NaN NaN NaN 0 NaN NaN 0 960800 9037 1872 5850 5867 -0.05979335876713776 HATVATENEVF 11 Unmodified _HATVATENEVF_ 0 0 0 nc|ENSG00000163565|Q16666-8|IFI16;nc|ENSG00000163565|Q16666-3|IFI16;ENST00000493884.5_1_1:158984458-159022017:+|nuORF;nc|ENSG00000163565|Q16666-6|IFI16;nc|ENSG00000163565|Q16666-2|IFI16;ENSG00000163565|ENST00000295809|IFI16 nc|ENSG00000163565|Q16666-8|IFI16 nc|ENSG00000163565|Q16666-8|IFI16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 609.2964477539062 2 609.293485 1216.57242 3.5686 0.0021743 0.50348 0.00030677 4.0721 0.0024811 609.293594557556 37.861 0.23218 38.122 38.011 38.243 0.26083 20 7 3 0 0 0 9.4169E-05 2 17239 17239;17294 89.401 61.772 1 739470 9038 4225 5851 5868 10436;10437 10436 -0.02720685087183483 HATVATENEVF 11 Unmodified _HATVATENEVF_ 0 0 0 nc|ENSG00000163565|Q16666-8|IFI16;nc|ENSG00000163565|Q16666-3|IFI16;ENST00000493884.5_1_1:158984458-159022017:+|nuORF;nc|ENSG00000163565|Q16666-6|IFI16;nc|ENSG00000163565|Q16666-2|IFI16;ENSG00000163565|ENST00000295809|IFI16 nc|ENSG00000163565|Q16666-8|IFI16 nc|ENSG00000163565|Q16666-8|IFI16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 609.2953491210938 2 609.293485 1216.57242 3.6018 0.0021946 0.2447 0.00014909 3.8465 0.0023437 609.293530193095 37.299 0.28263 37.929 37.771 38.054 0.62999 24 11 3 0 0 0 9.4169E-05 2 17085 17032;17085 89.401 61.772 1 870030 9039 4225 5851 5868 10438;10439 10439 -0.02720685087183483 HAVAEGAKNVL 11 Unmodified _HAVAEGAKNVL_ 0 0 0 nc|ENSG00000123143|Q16512-3|PKN1;ENST00000585839.5_1_19:14544333-14578454:+|nuORF;ENSG00000123143|ENST00000242783|PKN1;nc|ENSG00000123143|Q16512-2|PKN1 nc|ENSG00000123143|Q16512-3|PKN1 nc|ENSG00000123143|Q16512-3|PKN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.3121948242188 2 554.809105 1107.60366 3.6974 0.0020514 2.8633 0.0015886 6.5607 0.0036399 554.8081631091871 19.811 0.26643 20.469 20.329 20.595 0.65829 62 19 4 0 0 0 0.027969 1 8988 8988 55.503 32.354 1 480670 9040 2295 5852 5869 10440 10440 0.0541593273756007 HAVGEGADQTL 11 Unmodified _HAVGEGADQTL_ 0 0 0 ENSG00000157483|ENST00000288235|MYO1E ENSG00000157483|ENST00000288235|MYO1E ENSG00000157483|ENST00000288235|MYO1E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.266845703125 2 549.264727 1096.5149 3.7391 0.0020537 -0.55094 -0.00030261 3.1881 0.0017511 549.2642525335622 22.069 0.26931 22.069 21.933 22.202 0 41 19 3 0 0 0 9.4169E-05 1 9886 9886 89.401 51.225 1 482660 9041 3952 5853 5870 10441 10441 -0.029495272927761107 HAVIQEYML 9 Unmodified _HAVIQEYML_ 0 0 0 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.2806396484375 2 552.281334 1102.54812 NaN NaN NaN NaN NaN NaN NaN 56.682 1 57.46 56.96 57.96 0.77786 0 0 0 0.11997 1 25921 25921 37.974 23.136 1 9042 720 5854 5871 10442 10442 0.0009438322556434287 HAVVQEYIL 9 Unmodified _HAVVQEYIL_ 0 0 0 ENSG00000065308|ENST00000182527|TRAM2 ENSG00000065308|ENST00000182527|TRAM2 ENSG00000065308|ENST00000182527|TRAM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.2963256835938 2 536.295299 1070.57605 2.8035 0.0015035 1.0699 0.00057379 3.8734 0.0020773 536.2958795944413 54.108 0.33779 54.904 54.697 55.035 0.79552 41 19 3 0 0 0 0.14729 1 24717 24717 26.884 15.243 1 617840 9043 686 5855 5872 10443 10443 0.04358029477339187 HAVVQEYIL 9 Unmodified _HAVVQEYIL_ 0 0 0 ENSG00000065308|ENST00000182527|TRAM2 ENSG00000065308|ENST00000182527|TRAM2 ENSG00000065308|ENST00000182527|TRAM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.2970581054688 2 536.295299 1070.57605 2.7033 0.0014498 0.73342 0.00039333 3.4367 0.0018431 536.2955745789753 55.125 0.12313 55.39 55.32 55.443 0.26543 9 6 2 0 0 0 0.052704 1 25220 25220 46.021 20.622 1 1402700 9044 686 5855 5872 10444 10444 0.04358029477339187 HAVVQEYIL 9 Unmodified _HAVVQEYIL_ 0 0 0 ENSG00000065308|ENST00000182527|TRAM2 ENSG00000065308|ENST00000182527|TRAM2 ENSG00000065308|ENST00000182527|TRAM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.29638671875 2 536.295299 1070.57605 3.1156 0.0016709 -0.49971 -0.00026799 2.6159 0.0014029 536.2953102229284 54.437 0.21593 55.103 54.903 55.119 0.6665 20 11 2 0 0 0 0.032303 1 24877 24877 54.774 16.8 1 1040700 9045 686 5855 5872 10445 10445 0.04358029477339187 HCCCCCFWCF 10 Unmodified _HCCCCCFWCF_ 0 0 0 ENST00000316660.6_1_18:57570359-57570470:+|nuORF ENST00000316660.6_1_18:57570359-57570470:+|nuORF ENST00000316660.6_1_18:57570359-57570470:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 627.5501098632812 2 627.677639 1253.34072 NaN NaN NaN NaN NaN NaN NaN 97.914 1 97.985 97.485 98.485 0.070648 0 0 0 1.0015 1 52491 52491 0.45834 0.45834 1 9046 6907 5856 5873 10446 10446 -0.2758125317325266 HCDCSHADGCD 11 Unmodified _HCDCSHADGCD_ 0 0 0 nc|ENSG00000157890|A6BM72-3|MEGF11;nc|ENSG00000157890|A6BM72-2|MEGF11;nc|ENSG00000157890|A6BM72|MEGF11;ENSG00000157890|ENST00000395614|MEGF11 nc|ENSG00000157890|A6BM72-3|MEGF11 nc|ENSG00000157890|A6BM72-3|MEGF11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.6712036132812 2 581.670965 1161.32738 NaN NaN NaN NaN NaN NaN NaN 89.077 1 89.077 88.577 89.577 0 0 0 0 1.0082 1 46417 46417 0 0 1 9047 3967 5857 5874 10447 10447 -0.2468337315563076 HCDGDDDCGDW 11 Unmodified _HCDGDDDCGDW_ 0 0 0 ENSG00000134569|ENST00000378623|LRP4 ENSG00000134569|ENST00000378623|LRP4 ENSG00000134569|ENST00000378623|LRP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.1223449707031 3 413.12221 1236.3448 NaN NaN NaN NaN NaN NaN NaN 84.737 1 84.984 84.484 85.484 0.24757 0 0 0 1.0082 1 38999 38999 0.08335 0.08335 1 9048 2815 5858 5875 10448 10448 -0.26391754348992436 HCDGDDDCGDW 11 Unmodified _HCDGDDDCGDW_ 0 0 0 ENSG00000134569|ENST00000378623|LRP4 ENSG00000134569|ENST00000378623|LRP4 ENSG00000134569|ENST00000378623|LRP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.76824951171875 3 413.12221 1236.3448 NaN NaN NaN NaN NaN NaN NaN 55.344 1 56.012 55.512 56.512 0.66798 0 0 0 1.0082 1 25317 25317 0.08335 0.08335 1 9049 2815 5858 5875 10449 10449 -0.26391754348992436 HCDPGCCA 8 Unmodified _HCDPGCCA_ 0 0 0 ENST00000456210.5_1_3:50310607-50311978:+|nuORF;ENST00000434030.1_1_3:50310607-50311493:+|nuORF ENST00000456210.5_1_3:50310607-50311978:+|nuORF ENST00000456210.5_1_3:50310607-50311978:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 805.324462890625 1 805.242591 804.235314 2.8588 0.002302 0.55618 0.00044786 3.415 0.0027499 805.2436037888981 83.921 0.038521 83.95 83.935 83.974 0.02861 6 4 2 0 0 0 0.7471 1 41755 41755 0 0 1 14154000 9050 7879 5859 5876 10450 10450 -0.17463386711358453 HCDSDDDC 8 Unmodified _HCDSDDDC_ 0 0 0 ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 455.1959228515625 2 455.121099 908.227646 NaN NaN NaN NaN NaN NaN NaN 76.398 1 76.398 75.898 76.898 0 0 0 0 0.99035 1 37439 37439 0 0 1 9051 4647 5860 5877 10451 10451 -0.2301386749794574 HCEDKEDDGDS 11 Unmodified _HCEDKEDDGDS_ 0 0 0 GGNBP2|p.K578Nfs*47|1|0.1|ENSG00000278311|chr17:36587088-36587094|AAGATAC/-|frameshift_variant;ENSG00000278311|ENST00000613102|GGNBP2 GGNBP2|p.K578Nfs*47|1|0.1|ENSG00000278311|chr17:36587088-36587094|AAGATAC/-|frameshift_variant GGNBP2|p.K578Nfs*47|1|0.1|ENSG00000278311|chr17:36587088-36587094|AAGATAC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 625.217529296875 2 625.217314 1248.42007 NaN NaN NaN NaN NaN NaN NaN 27.593 1 28.379 27.879 28.879 0.78627 0 0 0 1.008 1 12411 12411 0.30703 0.30703 1 9052 6359 5861 5878 10452 10452 -0.19419873616925543 HCGPGCCH 8 Unmodified _HCGPGCCH_ 0 0 0 REV__ENST00000491113.1_1_20:35236140-35236335:+|nuORF REV__ENST00000491113.1_1_20:35236140-35236335:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 407.1361999511719 2 407.133093 812.251633 NaN NaN NaN NaN NaN NaN NaN 20.147 1 20.147 19.647 20.647 0 0 0 0 0.99035 1 9003 9003 0.79363 0 1 + 9053 16802 5862 5879 10453 10453 -0.1620026075460146 HCLEALQELYN 11 Unmodified _HCLEALQELYN_ 0 0 0 ENST00000472415.1_1_X:153043961-153044491:+|nuORF;ENST00000469190.1_1_X:153043658-153044491:+|nuORF;ENSG00000198753|ENST00000361971|PLXNB3;nc|ENSG00000198753|Q9ULL4-2|PLXNB3 ENST00000472415.1_1_X:153043961-153044491:+|nuORF ENST00000472415.1_1_X:153043961-153044491:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 666.8179931640625 2 666.81627 1331.61799 NaN NaN NaN NaN NaN NaN NaN 47.7 1 47.7 47.2 48.2 0 0 0 0 0.98464 1 21842 21842 8.1555 2.4237 1 9054 5929 5863 5880 10454 10454 -0.034557828964352666 HCLVDLPGL 9 Unmodified _HCLVDLPGL_ 0 0 0 ENSG00000117983|ENST00000529681|MUC5B ENSG00000117983|ENST00000529681|MUC5B ENSG00000117983|ENST00000529681|MUC5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.7586975097656 2 483.757495 965.500437 3.1514 0.0015245 -0.77635 -0.00037557 2.375 0.0011489 483.75726392689364 41.86 0.33649 41.86 41.66 41.997 0 55 30 3 0 0 0 0.26001 1 19100 19100 19.439 1.304 1 3557000 9055 2099 5864 5881 10455 10455 0.016307290253848805 HCPFSFSF 8 Unmodified _HCPFSFSF_ 0 0 0 REV__ENSG00000160883|ENST00000292432|HK3 REV__ENSG00000160883|ENST00000292432|HK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.2081604003906 2 486.207638 970.400723 NaN NaN NaN NaN NaN NaN NaN 84.681 1 84.929 84.429 85.429 0.24757 0 0 0 0.99035 1 38974 38974 0.79363 0 1 + 9056 12897 5865 5882 10456 10456 -0.08566088588543153 HCRGRGGDQ 9 Unmodified _HCRGRGGDQ_ 0 0 0 nc|ENSG00000166348|Q70EL1-6|USP54;ENST00000498143.5_1_10:75279553-75335416:-|nuORF;nc|ENSG00000166348|Q70EL1-7|USP54;ENSG00000166348|ENST00000687698|USP54 nc|ENSG00000166348|Q70EL1-6|USP54 nc|ENSG00000166348|Q70EL1-6|USP54 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 493.22369384765625 2 493.222674 984.430795 NaN NaN NaN NaN NaN NaN NaN 26.99 1 26.99 26.49 27.49 0 0 0 0 0.8984 1 12152 12152 3.9444 1.6417 1 9057 4477 5866 5883 10457 10457 -0.06204336870655425 HCSCYHCEDCE 11 Unmodified _HCSCYHCEDCE_ 0 0 0 GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 664.6947021484375 2 664.693583 1327.37261 NaN NaN NaN NaN NaN NaN NaN 72.525 1 72.525 72.025 73.025 0 0 0 0 1.008 1 35282 35282 0.30703 0.30703 1 9058 9365 5867 5884 10458 10458 -0.277978906847693 HCVQLRRKS 9 Unmodified _HCVQLRRKS_ 0 0 0 REV__ENST00000474094.1_1_6:74502386-74513776:+|nuORF REV__ENST00000474094.1_1_6:74502386-74513776:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.21429443359375 3 376.213586 1125.61893 2.0537 0.00077264 0.25056 9.4265E-05 2.3043 0.00086691 376.21367077281855 54.861 0.25121 55.657 55.538 55.79 0.79552 27 15 2 0 0 0 1.0894 1 25070 25070 2.4985 0.41248 1 1292900 + 9059 16629 5868 5885 10459 10459 0.061145210537461026 HDDDDEDDMD 10 Unmodified _HDDDDEDDMD_ 0 0 0 REV__nc|ENSG00000118785|P10451-3|SPP1 REV__nc|ENSG00000118785|P10451-3|SPP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.1779174804688 2 611.177854 1220.34116 NaN NaN NaN NaN NaN NaN NaN 72.217 1 72.217 71.717 72.717 0 0 0 0 1.002 1 35120 35120 0 0 1 + 9060 11481 5869 5886 10460 10460 -0.26020145641859926 HDDDDEDDMDD 11 Unmodified _HDDDDEDDMDD_ 0 0 0 REV__nc|ENSG00000118785|P10451-3|SPP1 REV__nc|ENSG00000118785|P10451-3|SPP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 668.9935302734375 2 668.691326 1335.3681 NaN NaN NaN NaN NaN NaN NaN 21.538 1 21.538 21.038 22.038 0 0 0 0 1.0082 1 9645 9645 0 0 1 + 9061 11481 5870 5887 10461 10461 -0.2861708182133498 HDDDDEDDMDD 11 Unmodified _HDDDDEDDMDD_ 0 0 0 REV__nc|ENSG00000118785|P10451-3|SPP1 REV__nc|ENSG00000118785|P10451-3|SPP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.6908569335938 2 668.691326 1335.3681 NaN NaN NaN NaN NaN NaN NaN 67.075 1 67.78 67.28 68.28 0.7047 0 0 0 1.0082 1 31838 31838 0 0 1 + 9062 11481 5870 5887 10462 10462 -0.2861708182133498 HDDDEDEEM 9 Unmodified _HDDDEDEEM_ 0 0 0 ENSG00000184203|ENST00000618156|PPP1R2;ENSG00000231989|ENST00000522232|PPP1R2B ENSG00000184203|ENST00000618156|PPP1R2 ENSG00000184203|ENST00000618156|PPP1R2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.681396484375 2 567.680033 1133.34551 NaN NaN NaN NaN NaN NaN NaN 78.559 1 79.023 78.523 79.523 0.4642 0 0 0 0.91238 1 38205 38205 0.52476 0 1 9063 5425 5871 5888 10463 10463 -0.2158263642829752 HDDHDDDDDD 10 Unmodified _HDDHDDDDDD_ 0 0 0 REV__nc|ENSG00000197183|Q96MY1-2|NOL4L REV__nc|ENSG00000197183|Q96MY1-2|NOL4L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 607.1817626953125 2 607.179243 1212.34393 NaN NaN NaN NaN NaN NaN NaN 52.94 1 53.604 53.104 54.104 0.6644 0 0 0 1.002 1 24210 24210 0 0 1 + 9064 14266 5872 5889 10464 10464 -0.2537455419269463 HDIFKGWSL 9 Unmodified _HDIFKGWSL_ 0 0 0 ENSG00000144229|ENST00000409968|THSD7B ENSG00000144229|ENST00000409968|THSD7B ENSG00000144229|ENST00000409968|THSD7B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 551.7886352539062 2 551.787641 1101.56073 NaN NaN NaN NaN NaN NaN NaN 24.753 1 25.025 24.525 25.525 0.27129 0 0 0 0.59707 1 11222 11222 15.847 0 1 9065 3413 5873 5890 10465 10465 0.014011626801448074 HDIKILAIDAK 11 Unmodified _HDIKILAIDAK_ 0 0 0 REV__ENSG00000166033|ENST00000368984|HTRA1 REV__ENSG00000166033|ENST00000368984|HTRA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 618.872314453125 2 618.869163 1235.72377 4.0729 0.0025206 0.45371 0.00028079 4.5266 0.0028013 618.869665960088 27.891 0.14204 27.891 27.819 27.961 0 17 11 2 0 0 0 0.71079 1 12581 12581 10.8 0 1 331340 + 9066 13206 5874 5891 10466 10466 0.115339210113234 HDIKILAIDAK 11 Unmodified _HDIKILAIDAK_ 0 0 0 REV__ENSG00000166033|ENST00000368984|HTRA1 REV__ENSG00000166033|ENST00000368984|HTRA1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 618.869163 1235.72377 4.0729 0.0025206 0.45371 0.00028079 4.5266 0.0028013 618.869665960088 27.891 0.14204 27.891 27.819 27.961 0 0.009519 2.0369E-06 NaN 10.8 17 11 2 NaN NaN NaN NaN 0 NaN NaN 0 331340 + 9067 13206 5874 5891 0.115339210113234 HDIKILAIDAK 11 Unmodified _HDIKILAIDAK_ 0 0 0 REV__ENSG00000166033|ENST00000368984|HTRA1 REV__ENSG00000166033|ENST00000368984|HTRA1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 618.869163 1235.72377 3.5211 0.0021791 0.67943 0.00042048 4.2005 0.0025996 618.8690411235788 27.619 0.17369 27.881 27.813 27.986 0.26245 -0.00043505 0.00028142 NaN 10.8 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 224380 + 9068 13206 5874 5891 0.115339210113234 HDKELAAED 9 Unmodified _HDKELAAED_ 0 0 0 ENST00000565532.5_1_16:66762088-66770076:-|nuORF;nc|ENSG00000135720|O43237-2|DYNC1LI2;ENSG00000135720|ENST00000258198|DYNC1LI2 ENST00000565532.5_1_16:66762088-66770076:-|nuORF ENST00000565532.5_1_16:66762088-66770076:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.2444458007812 2 514.238178 1026.4618 3.2998 0.0016969 1.3557 0.00069716 4.6555 0.002394 514.7391557884216 39.138 0.39904 39.936 39.776 40.175 0.79762 55 18 4 0 0 0 0.36069 1 17750 17750 14.838 4.0143 1 874340 9069 2891 5875 5892 10467 10467 -0.050369050754397904 HDLPGHVL 8 Unmodified _HDLPGHVL_ 0 0 0 REV__nc|ENSG00000277399|Q6PRD1|GPR179 REV__nc|ENSG00000277399|Q6PRD1|GPR179 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 444.2417297363281 2 444.240327 886.466101 2.8098 0.0012482 1.1917 0.00052938 4.0015 0.0017776 444.24070177841867 56.862 0.30763 57.127 56.964 57.272 0.26444 21 12 2 0 0 0 0.70146 1 26049 26049 5.7604 0.52976 1 2807700 + 9070 14744 5876 5893 10468 10468 0.018326489288028824 HDLPGHVL 8 Unmodified _HDLPGHVL_ 0 0 0 REV__nc|ENSG00000277399|Q6PRD1|GPR179 REV__nc|ENSG00000277399|Q6PRD1|GPR179 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 444.240327 886.466101 2.9796 0.0013237 1.42 0.00063082 4.3996 0.0019545 444.2408742880697 57.076 0.3475 57.076 56.88 57.228 0 0.047605 0.00028712 NaN 5.7604 74 39 2 NaN NaN NaN NaN 0 NaN NaN 0 1645000 + 9071 14744 5876 5893 0.018326489288028824 HDLPGHVL 8 Unmodified _HDLPGHVL_ 0 0 0 REV__nc|ENSG00000277399|Q6PRD1|GPR179 REV__nc|ENSG00000277399|Q6PRD1|GPR179 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 444.240327 886.466101 2.5276 0.0011229 0.89823 0.00039903 3.4258 0.0015219 444.24059927025144 56.377 0.22982 57.155 57.047 57.277 0.77786 0.12612 -0.00017646 NaN 5.7604 43 25 2 NaN NaN NaN NaN 0 NaN NaN 0 924470 + 9072 14744 5876 5893 0.018326489288028824 HDLRQKFPEVP 11 Unmodified _HDLRQKFPEVP_ 0 0 0 TAB2|p.N274Ifs*30|1|0.2|ENSG00000055208|chr6:149378735-149378736|-/T|frameshift_variant;nc|ENSG00000055208|Q9NYJ8-2|TAB2;ENSG00000055208|ENST00000637181|TAB2 TAB2|p.N274Ifs*30|1|0.2|ENSG00000055208|chr6:149378735-149378736|-/T|frameshift_variant TAB2|p.N274Ifs*30|1|0.2|ENSG00000055208|chr6:149378735-149378736|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 683.6813354492188 2 683.367318 1364.72008 NaN NaN NaN NaN NaN NaN NaN 81.297 1 81.466 80.966 81.966 0.16862 0 0 0 1.0057 1 39944 39944 3.2813 0.28607 1 9073 614 5877 5894 10469 10469 0.05231251237478318 HDRKSKRL 8 Unmodified _HDRKSKRL_ 0 0 0 ENST00000565932.5_1_16:28734455-28746831:+|nuORF;nc|ENSG00000184110|Q99613-2|EIF3C;ENSG00000184110|ENST00000331666|EIF3C;ENSG00000205609|ENST00000380876|EIF3CL ENST00000565932.5_1_16:28734455-28746831:+|nuORF ENST00000565932.5_1_16:28734455-28746831:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.17230224609375 3 347.20883 1038.60466 2.6023 0.00090353 -0.92197 -0.00032012 1.6803 0.00058341 347.20841447829747 13.073 0.14535 13.715 13.58 13.725 0.64272 8 4 2 0 0 0 0.14225 1 5810 5810 3.9444 3.5938 1 274030 9074 5422 5878 5895 10470 10470 0.08690191897130717 HDSFHTDAIH 10 Unmodified _HDSFHTDAIH_ 0 0 0 REV__ENSG00000121864|ENST00000496856|ZNF639 REV__ENSG00000121864|ENST00000496856|ZNF639 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.17919921875 3 393.844105 1178.51048 2.5706 0.0010124 -0.91434 -0.00036011 1.6563 0.00065233 393.84408396935027 50.332 0.33831 51.155 50.989 51.327 0.82285 39 16 4 0 0 0 0.82431 2 22904 22904;22955 3.8763 2.7666 1 675960 + 9075 11564 5879 5896 10471;10472 10471 -0.0716299171567698 HDSFHTDAIH 10 Unmodified _HDSFHTDAIH_ 0 0 0 REV__ENSG00000121864|ENST00000496856|ZNF639 REV__ENSG00000121864|ENST00000496856|ZNF639 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.17919921875 3 393.844105 1178.51048 2.5706 0.0010124 -0.91434 -0.00036011 1.6563 0.00065233 393.84408396935027 50.332 0.33831 51.155 50.989 51.327 0.82285 39 16 4 0 0 0 0.12676 1 22904 22904 3.8763 1.3778 1 675960 + 9076 11564 5879 5896 10473 10473 -0.0716299171567698 HDSFHTDAIH 10 Unmodified _HDSFHTDAIH_ 0 0 0 REV__ENSG00000121864|ENST00000496856|ZNF639 REV__ENSG00000121864|ENST00000496856|ZNF639 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 393.844105 1178.51048 2.8713 0.0011308 0.38182 0.00015038 3.2531 0.0012812 393.84494985460105 51.13 0.33401 51.13 50.996 51.33 0 -0.039439 0.00053961 NaN 3.8763 34 17 3 NaN NaN NaN NaN 0 NaN NaN 0 754430 + 9077 11564 5879 5896 -0.0716299171567698 HDSFHTDAIH 10 Unmodified _HDSFHTDAIH_ 0 0 0 REV__ENSG00000121864|ENST00000496856|ZNF639 REV__ENSG00000121864|ENST00000496856|ZNF639 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 393.844105 1178.51048 2.8182 0.0011099 0.84387 0.00033235 3.662 0.0014423 393.8446590510647 51.087 0.21535 51.348 51.234 51.449 0.26146 0.17872 0.0010855 NaN 3.8763 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 713310 + 9078 11564 5879 5896 -0.0716299171567698 HDSFHTDAIH 10 Unmodified _HDSFHTDAIH_ 0 0 0 REV__ENSG00000121864|ENST00000496856|ZNF639 REV__ENSG00000121864|ENST00000496856|ZNF639 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 393.844105 1178.51048 2.7717 0.0010916 0.61107 0.00024067 3.3828 0.0013323 393.8446636848079 50.388 0.30001 51.045 50.917 51.217 0.65735 -0.12428 0.00081048 NaN 3.8763 21 14 2 NaN NaN NaN NaN 0 NaN NaN 0 449320 + 9079 11564 5879 5896 -0.0716299171567698 HDVSMLFPGS 10 Unmodified _HDVSMLFPGS_ 0 0 0 REV__nc|ENSG00000132394|P57772-2|EEFSEC REV__nc|ENSG00000132394|P57772-2|EEFSEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.2515869140625 2 545.255317 1088.49608 3.4731 0.0018937 -0.97234 -0.00053018 2.5007 0.0013635 545.255276119797 28.526 0.63014 29.146 28.727 29.358 0.61947 93 38 4 0 0 0 0.84709 1 12986 12986 6.2058 1.4498 1 2439200 + 9080 11888 5880 5897 10474 10474 -0.044627801881688356 HDWKMLRNRMM 11 Unmodified _HDWKMLRNRMM_ 0 0 0 nc|ENSG00000172824|Q5XG92-5|CES4A;nc|ENSG00000172824|Q5XG92-8|CES4A;nc|ENSG00000172824|Q5XG92-2|CES4A;ENSG00000172824|ENST00000648724|CES4A;nc|ENSG00000172824|Q5XG92-7|CES4A;nc|ENSG00000172824|Q5XG92-6|CES4A;ENST00000543561.1_1_16:67039172-67039418:+|nuORF;ENST00000544986.1_1_16:67039172-67040586:+|nuORF;nc|ENSG00000172824|Q5XG92-4|CES4A;ENST00000535543.5_1_16:67034893-67043042:+|nuORF nc|ENSG00000172824|Q5XG92-5|CES4A nc|ENSG00000172824|Q5XG92-5|CES4A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 759.3683471679688 2 759.367958 1516.72136 NaN NaN NaN NaN NaN NaN NaN 75.682 1 76.346 75.846 76.846 0.6635 0 0 0 1.008 1 36651 36651 0.30703 0 1 9081 4894 5881 5898 10475 10475 -0.0163289726133371 HDYCCDHTQCC 11 Unmodified _HDYCCDHTQCC_ 0 0 0 REV__ENSG00000117215|ENST00000375105|PLA2G2D REV__ENSG00000117215|ENST00000375105|PLA2G2D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 664.4306640625 2 664.201575 1326.3886 NaN NaN NaN NaN NaN NaN NaN 92.949 1 92.949 92.449 93.449 0 0 0 0 1.0082 1 49513 49513 0 0 1 + 9082 11436 5882 5899 10476 10476 -0.26154184447841544 HDYCCDHTQCC 11 Unmodified _HDYCCDHTQCC_ 0 0 0 REV__ENSG00000117215|ENST00000375105|PLA2G2D REV__ENSG00000117215|ENST00000375105|PLA2G2D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 664.2026977539062 2 664.201575 1326.3886 NaN NaN NaN NaN NaN NaN NaN 61.857 1 62.588 62.088 63.088 0.73077 0 0 0 1.0082 1 28744 28744 0 0 1 + 9083 11436 5882 5899 10477 10477 -0.26154184447841544 HEALEAADHL 10 Unmodified _HEALEAADHL_ 0 0 0 ENSG00000151005|ENST00000280605|TKTL2 ENSG00000151005|ENST00000280605|TKTL2 ENSG00000151005|ENST00000280605|TKTL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.2689819335938 2 553.26727 1104.51999 3.5535 0.001966 0.33661 0.00018623 3.8901 0.0021523 553.2673586000009 14.243 0.34968 14.243 14.163 14.512 0 73 25 4 0 0 0 0.12269 1 6259 6259 68.081 22.06 1 13335000 9084 3686 5883 5900 10478 10478 -0.028092234301539065 HEALEAADHL 10 Unmodified _HEALEAADHL_ 0 0 0 ENSG00000151005|ENST00000280605|TKTL2 ENSG00000151005|ENST00000280605|TKTL2 ENSG00000151005|ENST00000280605|TKTL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 369.1813049316406 3 369.180605 1104.51999 2.4016 0.00088661 -0.51718 -0.00019093 1.8844 0.00069567 369.18038591201173 13.985 0.094276 14.292 14.256 14.351 0.30727 40 20 3 0 0 0 0.48762 1 6317 6317 21.59 0 1 12536000 9085 3686 5883 5900 10479 10479 -0.028092234301539065 HEALEAADHL 10 Unmodified _HEALEAADHL_ 0 0 0 ENSG00000151005|ENST00000280605|TKTL2 ENSG00000151005|ENST00000280605|TKTL2 ENSG00000151005|ENST00000280605|TKTL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.2696533203125 2 553.26727 1104.51999 3.6338 0.0020105 0.42311 0.00023409 4.057 0.0022446 553.2675480901007 13.322 0.65291 13.965 13.769 14.422 0.64272 179 49 5 0 0 0 0.12269 2 5961 5914;5961 68.081 12.578 1 14647000 9086 3686 5883 5900 10480;10481 10481 -0.028092234301539065 HEALEAADHL 10 Unmodified _HEALEAADHL_ 0 0 0 ENSG00000151005|ENST00000280605|TKTL2 ENSG00000151005|ENST00000280605|TKTL2 ENSG00000151005|ENST00000280605|TKTL2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 553.26727 1104.51999 3.1626 0.0017498 0.64845 0.00035876 3.8111 0.0021085 553.2676191138831 13.911 0.39212 14.154 14.045 14.437 0.24346 0.033576 0.000207 NaN 68.081 98 40 4 NaN NaN NaN NaN 0 NaN NaN 0 8038800 9087 3686 5883 5900 -0.028092234301539065 HEATAPHPE 9 Unmodified _HEATAPHPE_ 0 0 0 REV__ENST00000534164.5_1_16:15012355-15014181:+|nuORF REV__ENST00000534164.5_1_16:15012355-15014181:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.7293701171875 2 494.727781 987.441008 3.1375 0.0015522 0.25689 0.00012709 3.3944 0.0016793 494.7277340875774 19.5 0.28097 19.5 19.412 19.693 0 71 36 3 0 0 0 0.032303 2 8721 8676;8721 54.774 14.816 1 5363100 + 9088 10211 5884 5901 10482;10483 10483 -0.053214506644280846 HEATAPHPE 9 Unmodified _HEATAPHPE_ 0 0 0 REV__ENST00000534164.5_1_16:15012355-15014181:+|nuORF REV__ENST00000534164.5_1_16:15012355-15014181:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.72900390625 2 494.727781 987.441008 3.0319 0.0015 -0.14705 -7.2751E-05 2.8848 0.0014272 494.7276397511921 18.98 0.359 19.278 19.169 19.528 0.29753 94 50 2 0 0 0 0.052704 2 8626 8583;8626 46.021 1.6139 1 8338700 + 9089 10211 5884 5901 10484;10485 10485 -0.053214506644280846 HEATAPHPE 9 Unmodified _HEATAPHPE_ 0 0 0 REV__ENST00000534164.5_1_16:15012355-15014181:+|nuORF REV__ENST00000534164.5_1_16:15012355-15014181:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.72955322265625 2 494.727781 987.441008 3.2921 0.0016287 -0.11598 -5.7379E-05 3.1761 0.0015713 494.7277143874092 18.532 0.3652 19.192 19.112 19.478 0.66072 92 39 3 0 0 0 0.023109 2 8454 8366;8454 64.236 24.279 1 4736000 + 9090 10211 5884 5901 10486;10487 10487 -0.053214506644280846 HECLGRWNTYI 11 Unmodified _HECLGRWNTYI_ 0 0 0 ENSG00000118804|ENST00000237642|STBD1 ENSG00000118804|ENST00000237642|STBD1 ENSG00000118804|ENST00000237642|STBD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 696.336181640625 2 696.329879 1390.6452 NaN NaN NaN NaN NaN NaN NaN 18.532 1 18.532 18.032 19.032 0 0 0 0 1.005 1 8234 8234 4.1895 1.4543 1 9091 2124 5885 5902 10488 10488 -0.034492545654075 HEEAMDVSL 9 Unmodified _HEEAMDVSL_ 0 0 0 ENST00000473515.5_1_6:108067761-108070999:-|nuORF ENST00000473515.5_1_6:108067761-108070999:-|nuORF ENST00000473515.5_1_6:108067761-108070999:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.7308959960938 2 515.729132 1029.44371 3.3922 0.0017494 0.076129 3.9262E-05 3.4683 0.0017887 515.7290372237434 28.518 0.3855 29.138 28.972 29.358 0.61947 36 20 2 0 0 0 0.3144 1 13100 13100 15.847 0 1 219310 9092 8199 5886 5903 10489 10489 -0.0698336332177405 HEEAMDVSL 9 Unmodified _HEEAMDVSL_ 0 0 0 ENST00000473515.5_1_6:108067761-108070999:-|nuORF ENST00000473515.5_1_6:108067761-108070999:-|nuORF ENST00000473515.5_1_6:108067761-108070999:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 515.729132 1029.44371 3.4506 0.0017796 1.0503 0.00054169 4.5009 0.0023213 515.7295753735649 28.869 0.07427 29.129 29.068 29.142 0.2602 -0.012992 0.00069695 NaN 15.847 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 297700 9093 8199 5886 5903 -0.0698336332177405 HEEDDDDS 8 Unmodified _HEEDDDDS_ 0 0 0 REV__ENSG00000118096|ENST00000264021|IFT46 REV__ENSG00000118096|ENST00000264021|IFT46 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 481.1549072265625 2 481.154508 960.294463 NaN NaN NaN NaN NaN NaN NaN 11.537 1 11.537 11.037 12.037 0 0 0 0 0.99035 1 5031 5031 0 0 1 + 9094 11462 5887 5904 10490 10490 -0.18727217410844332 HEFEYLYV 8 Unmodified _HEFEYLYV_ 0 0 0 REV__ENST00000544986.1_1_16:67039172-67040586:+|nuORF REV__ENST00000544986.1_1_16:67039172-67040586:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.2200317382812 2 550.258382 1098.50221 3.5206 0.0019372 -2.5723 -0.0014154 0.94828 0.0005218 550.2569609250276 35.411 0.23969 35.667 35.537 35.777 0.25524 11 7 2 0 0 0 0.13853 1 16170 16170 10.183 0 1 220110 + 9095 13565 5888 5905 10491 10491 -0.04309938685014458 HEILLLRLP 9 Unmodified _HEILLLRLP_ 0 0 0 ENSG00000221989|ENST00000408979|OR2A2 ENSG00000221989|ENST00000408979|OR2A2 ENSG00000221989|ENST00000408979|OR2A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.5316162109375 2 552.350409 1102.68626 NaN NaN NaN NaN NaN NaN NaN 73.122 1 73.122 72.622 73.622 0 0 0 0 0.89683 1 35610 35610 4.3292 0 1 9096 6157 5889 5906 10492 10492 0.13902874536347554 HEKINIFI 8 Unmodified _HEKINIFI_ 0 0 0 REV__ENSG00000198908|ENST00000457056|GPRASP3 REV__ENSG00000198908|ENST00000457056|GPRASP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 338.53125 3 338.530798 1012.57057 NaN NaN NaN NaN NaN NaN NaN 16.877 1 17.078 16.578 17.578 0.20057 0 0 0 0.93233 1 7465 7465 7.2892 0 1 + 9097 14379 5890 5907 10493 10493 0.06478350685495116 HEKPKYVL 8 Unmodified _HEKPKYVL_ 0 0 0 ENST00000588000.5_1_19:46124203-46142634:-|nuORF;ENSG00000125746|ENST00000245925|EML2;nc|ENSG00000125746|O95834-2|EML2;nc|ENSG00000125746|O95834-3|EML2 ENST00000588000.5_1_19:46124203-46142634:-|nuORF ENST00000588000.5_1_19:46124203-46142634:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 338.5316467285156 3 338.530798 1012.57057 2.4075 0.00081502 0.788 0.00026676 3.1955 0.0010818 338.53109663643687 17.492 0.28033 17.492 17.383 17.664 0 41 17 3 0 0 0 0.36624 1 7779 7779 24.991 3.454 1 572180 9098 2418 5891 5908 10494 10494 0.06478350685517853 HEKPKYVL 8 Unmodified _HEKPKYVL_ 0 0 0 ENST00000588000.5_1_19:46124203-46142634:-|nuORF;ENSG00000125746|ENST00000245925|EML2;nc|ENSG00000125746|O95834-2|EML2;nc|ENSG00000125746|O95834-3|EML2 ENST00000588000.5_1_19:46124203-46142634:-|nuORF ENST00000588000.5_1_19:46124203-46142634:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 338.5315856933594 3 338.530798 1012.57057 NaN NaN NaN NaN NaN NaN NaN 16.735 1 16.936 16.436 17.436 0.20057 0 0 0 0.82924 1 7397 7397 18.146 8.0724 1 9099 2418 5891 5908 10495 10495 0.06478350685517853 HEKPKYVL 8 Unmodified _HEKPKYVL_ 0 0 0 ENST00000588000.5_1_19:46124203-46142634:-|nuORF;ENSG00000125746|ENST00000245925|EML2;nc|ENSG00000125746|O95834-2|EML2;nc|ENSG00000125746|O95834-3|EML2 ENST00000588000.5_1_19:46124203-46142634:-|nuORF ENST00000588000.5_1_19:46124203-46142634:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.5317077636719 3 338.530798 1012.57057 2.2222 0.00075227 0.70127 0.0002374 2.9234 0.00098967 338.53101465980416 14.761 0.40717 15.068 14.917 15.324 0.3069 109 38 5 0 0 0 0.13532 3 6678 6637;6678;6718 41.956 15.687 1 1303200 9100 2418 5891 5908 10496;10497;10498 10497 0.06478350685517853 HEKPKYVL 8 Unmodified _HEKPKYVL_ 0 0 0 ENST00000588000.5_1_19:46124203-46142634:-|nuORF;ENSG00000125746|ENST00000245925|EML2;nc|ENSG00000125746|O95834-2|EML2;nc|ENSG00000125746|O95834-3|EML2 ENST00000588000.5_1_19:46124203-46142634:-|nuORF ENST00000588000.5_1_19:46124203-46142634:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.2942199707031 2 507.292559 1012.57057 3.0348 0.0015395 0.26607 0.00013498 3.3009 0.0016745 507.29274388234154 14.771 0.23392 15.078 14.965 15.199 0.3069 29 17 2 0 0 0 0.63902 1 6663 6663 10.824 2.9138 1 144280 9101 2418 5891 5908 10499 10499 0.06478350685517853 HEKPKYVL 8 Unmodified _HEKPKYVL_ 0 0 0 ENST00000588000.5_1_19:46124203-46142634:-|nuORF;ENSG00000125746|ENST00000245925|EML2;nc|ENSG00000125746|O95834-2|EML2;nc|ENSG00000125746|O95834-3|EML2 ENST00000588000.5_1_19:46124203-46142634:-|nuORF ENST00000588000.5_1_19:46124203-46142634:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.5318603515625 3 338.530798 1012.57057 2.4119 0.00081651 0.53523 0.00018119 2.9472 0.0009977 338.5309246794267 14.769 0.33472 15.423 15.275 15.61 0.65356 91 30 4 0 0 0 0.17174 2 6657 6615;6657 38.176 13.185 1 1427900 9102 2418 5891 5908 10500;10501 10501 0.06478350685517853 HEKPKYVL 8 Unmodified _HEKPKYVL_ 0 0 0 ENST00000588000.5_1_19:46124203-46142634:-|nuORF;ENSG00000125746|ENST00000245925|EML2;nc|ENSG00000125746|O95834-2|EML2;nc|ENSG00000125746|O95834-3|EML2 ENST00000588000.5_1_19:46124203-46142634:-|nuORF ENST00000588000.5_1_19:46124203-46142634:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.293701171875 2 507.292559 1012.57057 3.3645 0.0017068 0.78953 0.00040052 4.154 0.0021073 507.29294896616864 14.775 0.27322 15.429 15.303 15.576 0.65356 50 24 3 0 0 0 0.17473 2 6677 6629;6677 45.7 13.394 1 347950 9103 2418 5891 5908 10502;10503 10503 0.06478350685517853 HELAVAFLV 9 Unmodified _HELAVAFLV_ 0 0 0 REV__nc|ENSG00000121486|Q7Z2T5-2|TRMT1L REV__nc|ENSG00000121486|Q7Z2T5-2|TRMT1L MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.7707824707031 2 499.78711 997.559667 3.0763 0.0015375 -0.029902 -1.4945E-05 3.0464 0.0015225 500.28888311789063 51.404 0.16088 51.666 51.528 51.688 0.26227 9 6 2 0 0 0 0.10063 1 23450 23450 11.64 2.2929 1 607920 + 9104 11559 5892 5909 10504 10504 0.060789483112330345 HELWRRRRTRR 11 Unmodified _HELWRRRRTRR_ 0 0 0 REV__ENST00000507701.1_1_4:76587113-76598433:-|nuORF REV__ENST00000507701.1_1_4:76587113-76598433:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.3427124023438 2 811.472172 1620.92979 NaN NaN NaN NaN NaN NaN NaN 107.95 1 108 107.5 108.5 0.045425 0 0 0 1.0082 1 58314 58314 0 0 1 + 9105 16943 5893 5910 10505 10505 0.14416351753789058 HEMPFLTL 8 Unmodified _HEMPFLTL_ 0 0 0 REV__nc|ENSG00000139278|P48060-2|GLIPR1 REV__nc|ENSG00000139278|P48060-2|GLIPR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.2547607421875 2 494.252046 986.489538 2.9973 0.0014814 -0.80484 -0.00039779 2.1924 0.0010836 494.2534823592213 36.255 0.89471 36.255 35.845 36.74 0 117 46 5 0 0 0 0.34607 1 16537 16537 32.117 0 1 1255600 + 9106 17965 5894 5911 10506 10506 -0.004246733488798782 HEPEQWSL 8 Unmodified _HEPEQWSL_ 0 0 0 REV__EPHA3|p.K662Sfs*35|1|0.22|ENSG00000044524|chr3:89419298-89419298|A/-|frameshift_variant REV__EPHA3|p.K662Sfs*35|1|0.22|ENSG00000044524|chr3:89419298-89419298|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.2396850585938 2 513.237981 1024.46141 3.1087 0.0015955 0.18574 9.5326E-05 3.2945 0.0016909 513.2380284022523 58.811 0.26897 58.811 58.671 58.94 0 46 20 3 0 0 0 0.31901 2 27150 27150;27198 34.102 3.4659 1 2620300 + 9107 10332 5895 5912 10507;10508 10507 -0.049842800046235425 HEPEQWSL 8 Unmodified _HEPEQWSL_ 0 0 0 REV__EPHA3|p.K662Sfs*35|1|0.22|ENSG00000044524|chr3:89419298-89419298|A/-|frameshift_variant REV__EPHA3|p.K662Sfs*35|1|0.22|ENSG00000044524|chr3:89419298-89419298|A/-|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 513.237981 1024.46141 3.1087 0.0015955 0.18574 9.5326E-05 3.2945 0.0016909 513.2380284022523 58.811 0.26897 58.811 58.671 58.94 0 0.13755 2.8789E-06 NaN 34.102 46 20 3 NaN NaN NaN NaN 0 NaN NaN 0 2620300 + 9108 10332 5895 5912 -0.049842800046235425 HEPEQWSL 8 Unmodified _HEPEQWSL_ 0 0 0 REV__EPHA3|p.K662Sfs*35|1|0.22|ENSG00000044524|chr3:89419298-89419298|A/-|frameshift_variant REV__EPHA3|p.K662Sfs*35|1|0.22|ENSG00000044524|chr3:89419298-89419298|A/-|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 513.237981 1024.46141 2.9576 0.0015179 0.1689 8.6684E-05 3.1265 0.0016046 513.2380338385003 57.768 0.1334 58.536 58.424 58.557 0.76861 -0.13755 -1.4407E-05 NaN 34.102 16 12 2 NaN NaN NaN NaN 0 NaN NaN 0 4391000 + 9109 10332 5895 5912 -0.049842800046235425 HERKEKWERRL 11 Unmodified _HERKEKWERRL_ 0 0 0 ENSG00000112787|ENST00000680143|FBRSL1;nc|ENSG00000112787|Q9HCM7|FBRSL1 ENSG00000112787|ENST00000680143|FBRSL1 ENSG00000112787|ENST00000680143|FBRSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 783.9338989257812 2 783.934222 1565.85389 NaN NaN NaN NaN NaN NaN NaN 105.22 1 105.54 105.04 106.04 0.31782 0 0 0 1.0082 1 48573 48573 0 0 1 9110 1821 5896 5913 10509 10509 0.09359910062994459 HETTRLLRLQ 10 Unmodified _HETTRLLRLQ_ 0 0 0 ENST00000379052.9_1_6:17293352-17293406:+|nuORF ENST00000379052.9_1_6:17293352-17293406:+|nuORF ENST00000379052.9_1_6:17293352-17293406:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 423.2483215332031 3 422.914083 1265.72042 2.5108 0.0010618 -1.5167 -0.00064144 0.99405 0.0004204 422.9133163583332 34.224 0.10641 34.224 34.183 34.29 0 10 6 2 0 0 0 0.60841 1 15527 15527 10.899 5.0308 1 1613100 9111 7445 5897 5914 10510 10510 0.0981867095731559 HETTRLLRLQ 10 Unmodified _HETTRLLRLQ_ 0 0 0 ENST00000379052.9_1_6:17293352-17293406:+|nuORF ENST00000379052.9_1_6:17293352-17293406:+|nuORF ENST00000379052.9_1_6:17293352-17293406:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 422.914083 1265.72042 2.9337 0.0012407 -1.7475 -0.00073903 1.1862 0.00050168 422.91366873980166 34.138 0.14098 34.392 34.277 34.418 0.25389 0.09944 -0.00062686 NaN 10.899 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 925450 9112 7445 5897 5914 0.0981867095731559 HEVHDQETLL 10 Unmodified _HEVHDQETLL_ 0 0 0 REV__ENSG00000172497|ENST00000307624|ACOT12 REV__ENSG00000172497|ENST00000307624|ACOT12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 610.8013916015625 2 610.798934 1219.58332 3.5026 0.0021394 0.31922 0.00019498 3.8218 0.0023344 610.7989825399155 37.522 0.39344 38.156 37.97 38.363 0.63388 30 12 4 0 0 0 0.27335 1 17165 17165 30.637 1.555 1 670610 + 9113 13552 5898 5915 10511 10511 -0.017692827128939825 HEVQIEGVH 9 Unmodified _HEVQIEGVH_ 0 0 0 ENSG00000166111|ENST00000610966|SVOP ENSG00000166111|ENST00000610966|SVOP ENSG00000166111|ENST00000610966|SVOP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 349.8464660644531 3 349.845446 1046.51451 NaN NaN NaN NaN NaN NaN NaN 12.81 1 13.072 12.572 13.572 0.26154 0 0 0 0.69911 1 5574 5574 8.1555 0 1 9114 4450 5899 5916 10512 10512 -0.0068890222196387185 HFDDFVTNL 9 Unmodified _HFDDFVTNL_ 0 0 0 ENSG00000057252|ENST00000367619|SOAT1;nc|ENSG00000057252|P35610-3|SOAT1;nc|ENSG00000057252|P35610-2|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.2606811523438 2 554.258914 1106.50327 3.7248 0.0020645 -0.21484 -0.00011907 3.51 0.0019454 554.2587756778261 66.361 0.37667 66.61 66.453 66.829 0.24848 52 21 3 0 0 0 0.0012997 2 30425 30376;30425 120.45 64.273 1 2479200 9115 622 5900 5917 10513;10514 10514 -0.045717243161107035 HFDDFVTNL 9 Unmodified _HFDDFVTNL_ 0 0 0 ENSG00000057252|ENST00000367619|SOAT1;nc|ENSG00000057252|P35610-3|SOAT1;nc|ENSG00000057252|P35610-2|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.260009765625 2 554.258914 1106.50327 3.6194 0.0020061 -0.37778 -0.00020939 3.2416 0.0017967 554.2586339416209 65.786 0.32217 66.443 66.29 66.612 0.65672 52 19 4 0 0 0 7.7444E-06 2 30140 30140;30190 147.83 89.152 1 2860800 9116 622 5900 5917 10515;10516 10515 -0.045717243161107035 HFDDFVTNL 9 Unmodified _HFDDFVTNL_ 0 0 0 ENSG00000057252|ENST00000367619|SOAT1;nc|ENSG00000057252|P35610-3|SOAT1;nc|ENSG00000057252|P35610-2|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 554.258914 1106.50327 2.9747 0.0016487 -0.97489 -0.00054034 1.9998 0.0011084 554.260088969088 66.297 0.034515 66.297 66.28 66.314 0 -0.1531 -0.0007494 NaN 147.83 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 786800 9117 622 5900 5917 -0.045717243161107035 HFDIVIRNL 9 Unmodified _HFDIVIRNL_ 0 0 0 nc|ENSG00000129317|Q9H0K6-2|PUS7L;ENSG00000129317|ENST00000344862|PUS7L nc|ENSG00000129317|Q9H0K6-2|PUS7L nc|ENSG00000129317|Q9H0K6-2|PUS7L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.824462890625 2 563.822015 1125.62948 NaN NaN NaN NaN NaN NaN NaN 58.836 1 59.504 59.004 60.004 0.66703 0 0 0 0.12987 1 26932 26932 36.127 9.8589 1 9118 2546 5901 5918 10517 10517 0.0716882697984147 HFDMAVYL 8 Unmodified _HFDMAVYL_ 0 0 0 ENSG00000172037|ENST00000305544|LAMB2;ENSG00000091136|ENST00000222399|LAMB1 ENSG00000172037|ENST00000305544|LAMB2;ENSG00000091136|ENST00000222399|LAMB1 ENSG00000091136|ENST00000222399|LAMB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.2383117675781 2 498.236396 994.458238 3.0245 0.0015069 0.45964 0.00022901 3.4842 0.0017359 498.2367621685422 70.711 0.23394 70.968 70.869 71.103 0.25642 30 13 3 0 0 0 0.077224 2 32368 32368;32418 56.541 38.406 1 1128800 9119 1073;4852 5902 5919 10518;10519 10518 -0.039212463829812805 HFDMAVYL 8 Unmodified _HFDMAVYL_ 0 0 0 ENSG00000172037|ENST00000305544|LAMB2;ENSG00000091136|ENST00000222399|LAMB1 ENSG00000172037|ENST00000305544|LAMB2;ENSG00000091136|ENST00000222399|LAMB1 ENSG00000091136|ENST00000222399|LAMB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.2376403808594 2 498.236396 994.458238 2.806 0.001398 -0.14696 -7.3219E-05 2.659 0.0013248 498.23645387092546 70.209 0.26696 70.87 70.735 71.002 0.66072 34 15 3 0 0 0 0.077224 2 32169 32169;32215 56.541 43.033 1 929300 9120 1073;4852 5902 5919 10520;10521 10520 -0.039212463829812805 HFDTIFEVF 9 Unmodified _HFDTIFEVF_ 0 0 0 ENSG00000140471|ENST00000314742|LINS1;nc|ENSG00000140471|Q8NG48-3|LINS1;ENST00000559149.5_1_15:101113500-101121059:-|nuORF;nc|ENSG00000140471|Q8NG48-2|LINS1 ENSG00000140471|ENST00000314742|LINS1 ENSG00000140471|ENST00000314742|LINS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.6126098632812 2 577.779482 1153.54441 NaN NaN NaN NaN NaN NaN NaN 78.455 1 79.117 78.617 79.617 0.66198 0 0 0 0.26328 1 36153 36153 28.487 0 1 9121 3202 5903 5920 10522 10522 -0.026219632766242285 HFEEWHSRWLE 11 Unmodified _HFEEWHSRWLE_ 0 0 0 ENSG00000127511|ENST00000248054|SIN3B;nc|ENSG00000127511|O75182|SIN3B ENSG00000127511|ENST00000248054|SIN3B ENSG00000127511|ENST00000248054|SIN3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 778.3614501953125 2 778.357482 1554.70041 3.8696 0.0030119 0.018586 1.4466E-05 3.8881 0.0030264 778.358866896595 32.603 0.11944 33.221 33.126 33.246 0.61831 5 4 2 0 0 0 0.91489 1 14947 14947 0 0 1 111310 9122 2483 5904 5921 10523 10523 -0.05475124773283824 HFHEKKDLPLD 11 Unmodified _HFHEKKDLPLD_ 0 0 0 ENST00000513020.5_1_4:2824751-2826924:+|nuORF;ENST00000515737.5_1_4:2825262-2835558:+|nuORF;ENSG00000087266|ENST00000503393|SH3BP2;nc|ENSG00000087266|P78314-3|SH3BP2;nc|ENSG00000087266|P78314-4|SH3BP2 ENST00000513020.5_1_4:2824751-2826924:+|nuORF ENST00000513020.5_1_4:2824751-2826924:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 689.8619995117188 2 689.859326 1377.7041 3.6703 0.002532 -0.78465 -0.0005413 2.8856 0.0019907 689.8590048482528 49.607 0.36434 49.607 49.357 49.722 0 29 14 3 0 0 0 0.37662 2 22687 22687;22739 22.658 11.859 1 1567700 9123 1000 5905 5922 10524;10525 10524 0.030355450005572493 HFHEKKDLPLD 11 Unmodified _HFHEKKDLPLD_ 0 0 0 ENST00000513020.5_1_4:2824751-2826924:+|nuORF;ENST00000515737.5_1_4:2825262-2835558:+|nuORF;ENSG00000087266|ENST00000503393|SH3BP2;nc|ENSG00000087266|P78314-3|SH3BP2;nc|ENSG00000087266|P78314-4|SH3BP2 ENST00000513020.5_1_4:2824751-2826924:+|nuORF ENST00000513020.5_1_4:2824751-2826924:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 689.8622436523438 2 689.859326 1377.7041 3.7124 0.002561 -0.5636 -0.0003888 3.1488 0.0021722 689.8590898832095 48.711 0.27327 49.538 49.415 49.688 0.82705 37 15 3 0 0 0 0.48176 1 22182 22182 19.362 4.1135 1 1235600 9124 1000 5905 5922 10526 10526 0.030355450005572493 HFHEKKDLPLD 11 Unmodified _HFHEKKDLPLD_ 0 0 0 ENST00000513020.5_1_4:2824751-2826924:+|nuORF;ENST00000515737.5_1_4:2825262-2835558:+|nuORF;ENSG00000087266|ENST00000503393|SH3BP2;nc|ENSG00000087266|P78314-3|SH3BP2;nc|ENSG00000087266|P78314-4|SH3BP2 ENST00000513020.5_1_4:2824751-2826924:+|nuORF ENST00000513020.5_1_4:2824751-2826924:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 690.3637084960938 2 689.859326 1377.7041 3.8611 0.0026636 -1.1829 -0.00081606 2.6782 0.0018476 689.8588133294357 49.364 0.2589 49.625 49.496 49.755 0.26146 24 8 4 0 0 0 0.37662 2 22551 22551;22610 22.658 6.509 1 2030500 9125 1000 5905 5922 10527;10528 10527 0.030355450005572493 HFHEKKDLPLD 11 Unmodified _HFHEKKDLPLD_ 0 0 0 ENST00000513020.5_1_4:2824751-2826924:+|nuORF;ENST00000515737.5_1_4:2825262-2835558:+|nuORF;ENSG00000087266|ENST00000503393|SH3BP2;nc|ENSG00000087266|P78314-3|SH3BP2;nc|ENSG00000087266|P78314-4|SH3BP2 ENST00000513020.5_1_4:2824751-2826924:+|nuORF ENST00000513020.5_1_4:2824751-2826924:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 689.8610229492188 2 689.859326 1377.7041 4.0686 0.0028067 -0.88592 -0.00061116 3.1826 0.0021956 689.8587105214597 48.904 0.28049 49.559 49.432 49.713 0.65525 26 10 4 0 0 0 0.15681 1 22372 22372 32.037 16.789 1 1863500 9126 1000 5905 5922 10529 10529 0.030355450005572493 HFHRYNYYRLH 11 Unmodified _HFHRYNYYRLH_ 0 0 0 REV__ENST00000457379.1_1_2:50815958-50816216:-|nuORF REV__ENST00000457379.1_1_2:50815958-50816216:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 803.3980712890625 2 803.394733 1604.77491 NaN NaN NaN NaN NaN NaN NaN 31.306 1 31.923 31.423 32.423 0.61737 0 0 0 1.0082 1 14356 14356 0 0 1 + 9127 16460 5906 5923 10530 10530 -0.0032831717126100557 HFIAEHYMF 9 Unmodified _HFIAEHYMF_ 0 0 0 ENSG00000143753|ENST00000323699|DEGS1;ENST00000498813.1_1_1:224377853-224378832:+|nuORF ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 597.7766723632812 2 597.773677 1193.5328 3.1756 0.0018983 -0.57447 -0.0003434 2.6012 0.0015549 597.7734741500241 52.487 0.27612 53.298 53.141 53.417 0.81065 45 18 4 0 0 0 0.0026885 2 23896 23896;23956 97.075 81.227 1 1590400 9128 3391 5907 5924 10531;10532 10531 -0.05622483571619341 HFIAEHYMF 9 Unmodified _HFIAEHYMF_ 0 0 0 ENSG00000143753|ENST00000323699|DEGS1;ENST00000498813.1_1_1:224377853-224378832:+|nuORF ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.7750854492188 2 597.773677 1193.5328 3.8272 0.0022878 -0.12185 -7.2836E-05 3.7053 0.0022149 597.7736518506586 53.427 0.23003 53.692 53.567 53.797 0.26462 23 11 3 0 0 0 0.018173 2 24473 24416;24473 70.716 54.868 1 910860 9129 3391 5907 5924 10533;10534 10534 -0.05622483571619341 HFIAEHYMF 9 Unmodified _HFIAEHYMF_ 0 0 0 ENSG00000143753|ENST00000323699|DEGS1;ENST00000498813.1_1_1:224377853-224378832:+|nuORF ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 598.2772216796875 2 597.773677 1193.5328 3.8515 0.0023023 1.3317 0.00079607 5.1832 0.0030984 597.7743884041984 52.916 0.21492 53.58 53.468 53.683 0.6644 14 10 2 0 0 0 0.0061269 1 24204 24204 89.427 72.314 1 1395900 9130 3391 5907 5924 10535 10535 -0.05622483571619341 HFIAEHYMF 9 Unmodified _HFIAEHYMF_ 0 0 0 ENSG00000143753|ENST00000323699|DEGS1;ENST00000498813.1_1_1:224377853-224378832:+|nuORF ENSG00000143753|ENST00000323699|DEGS1 ENSG00000143753|ENST00000323699|DEGS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 597.773677 1193.5328 3.6513 0.0021826 0.81673 0.00048822 4.468 0.0026709 597.774133649684 53.601 0.26318 53.601 53.446 53.709 0 0.058573 0.00072296 NaN 97.075 26 19 2 NaN NaN NaN NaN 0 NaN NaN 0 2550100 9131 3391 5907 5924 -0.05622483571619341 HFIAEYDTSTQ 11 Unmodified _HFIAEYDTSTQ_ 0 0 0 nc|ENSG00000134283|Q8NEY8-6|PPHLN1;nc|ENSG00000134283|Q8NEY8-9|PPHLN1;ENSG00000134283|ENST00000358314|PPHLN1;nc|ENSG00000134283|Q8NEY8-2|PPHLN1 nc|ENSG00000134283|Q8NEY8-6|PPHLN1 nc|ENSG00000134283|Q8NEY8-6|PPHLN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 656.2982788085938 2 656.296224 1310.5779 NaN NaN NaN NaN NaN NaN NaN 5.938 1 6.2907 5.7907 6.7907 0.35278 0 0 0 1.008 1 2688 2688 0.26902 0 1 9132 2796 5908 5925 10536 10536 -0.06497006295376195 HFIEEWQH 8 Unmodified _HFIEEWQH_ 0 0 0 REV__ENSG00000099822|ENST00000251287|HCN2;REV__ENSG00000143630|ENST00000368358|HCN3 REV__ENSG00000143630|ENST00000368358|HCN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.2619018554688 2 563.259248 1124.50394 NaN NaN NaN NaN NaN NaN NaN 3.362 1 3.7383 3.2383 4.2383 0.37632 0 0 0 0.99035 1 1526 1526 0.79363 0 1 + 9133 10788;12374 5909 5926 10537 10537 -0.05332884876384014 HFIPYNAKF 9 Unmodified _HFIPYNAKF_ 0 0 0 nc|ENSG00000144366|Q9UBP9-2|GULP1;GULP1|p.T237Ifs*13|1|0.07|ENSG00000144366|chr2:188584362-188584363|-/AATTAGGGTAATATTT|frameshift_variant;nc|ENSG00000144366|Q9UBP9-4|GULP1;ENSG00000144366|ENST00000409830|GULP1 nc|ENSG00000144366|Q9UBP9-2|GULP1 nc|ENSG00000144366|Q9UBP9-2|GULP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.7987060546875 2 568.798009 1135.58147 3.454 0.0019646 0.77888 0.00044302 4.2328 0.0024076 568.7988287341158 45.002 0.28967 45.828 45.678 45.968 0.82621 21 13 2 0 0 0 0.030603 1 20499 20499 71.134 58.091 1 429020 9134 3420 5910 5927 10538 10538 0.01909753059794639 HFIPYNAKF 9 Unmodified _HFIPYNAKF_ 0 0 0 nc|ENSG00000144366|Q9UBP9-2|GULP1;GULP1|p.T237Ifs*13|1|0.07|ENSG00000144366|chr2:188584362-188584363|-/AATTAGGGTAATATTT|frameshift_variant;nc|ENSG00000144366|Q9UBP9-4|GULP1;ENSG00000144366|ENST00000409830|GULP1 nc|ENSG00000144366|Q9UBP9-2|GULP1 nc|ENSG00000144366|Q9UBP9-2|GULP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.7991333007812 2 568.798009 1135.58147 3.462 0.0019692 -0.094766 -5.3903E-05 3.3673 0.0019153 568.797649722224 45.838 0.2779 46.103 45.954 46.232 0.26561 17 10 2 0 0 0 0.0061394 1 20947 20947 112.59 87.194 1 560120 9135 3420 5910 5927 10539 10539 0.01909753059794639 HFIPYNAKF 9 Unmodified _HFIPYNAKF_ 0 0 0 nc|ENSG00000144366|Q9UBP9-2|GULP1;GULP1|p.T237Ifs*13|1|0.07|ENSG00000144366|chr2:188584362-188584363|-/AATTAGGGTAATATTT|frameshift_variant;nc|ENSG00000144366|Q9UBP9-4|GULP1;ENSG00000144366|ENST00000409830|GULP1 nc|ENSG00000144366|Q9UBP9-2|GULP1 nc|ENSG00000144366|Q9UBP9-2|GULP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.8005981445312 2 568.798009 1135.58147 3.8253 0.0021758 0.19551 0.00011121 4.0208 0.002287 568.7983072960126 45.163 0.31053 45.814 45.691 46.001 0.65104 23 11 3 0 0 0 0.004576 2 20706 20706;20764 104.8 72.494 1 806910 9136 3420 5910 5927 10540;10541 10540 0.01909753059794639 HFIPYNAKF 9 Unmodified _HFIPYNAKF_ 0 0 0 nc|ENSG00000144366|Q9UBP9-2|GULP1;GULP1|p.T237Ifs*13|1|0.07|ENSG00000144366|chr2:188584362-188584363|-/AATTAGGGTAATATTT|frameshift_variant;nc|ENSG00000144366|Q9UBP9-4|GULP1;ENSG00000144366|ENST00000409830|GULP1 nc|ENSG00000144366|Q9UBP9-2|GULP1 nc|ENSG00000144366|Q9UBP9-2|GULP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 568.798009 1135.58147 3.2953 0.0018743 -0.10819 -6.1536E-05 3.1871 0.0018128 568.7980303027578 46.124 0.20822 46.124 45.982 46.19 0 0.15689 -0.00024084 NaN 104.8 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 889210 9137 3420 5910 5927 0.01909753059794639 HFIRPISL 8 Unmodified _HFIRPISL_ 0 0 0 REV__nc|ENSG00000160563|Q6P2C8-4|MED27 REV__nc|ENSG00000160563|Q6P2C8-4|MED27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.79779052734375 2 491.795269 981.575986 3.2172 0.0015822 1.4403 0.00070832 4.6575 0.0022905 491.79603342402265 59.031 0.6944 59.698 59.245 59.939 0.66703 50 32 2 0 0 0 0.70799 1 26889 26889 5.2307 0.47466 1 755990 + 9138 17998 5911 5928 10542 10542 0.08446074267999393 HFKSHVYYF 9 Unmodified _HFKSHVYYF_ 0 0 0 nc|ENSG00000152767|Q9Y4F1-2|FARP1;ENSG00000152767|ENST00000319562|FARP1;ENST00000594346.1_1_13:99098688-99099072:+|nuORF nc|ENSG00000152767|Q9Y4F1-2|FARP1 nc|ENSG00000152767|Q9Y4F1-2|FARP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.5375061035156 3 409.869703 1226.58728 NaN NaN NaN NaN NaN NaN NaN 22.284 1 22.871 22.371 23.371 0.58739 0 0 0 0.72654 1 9913 9913 7.609 0 1 9139 9693 5912 5929 10543 10543 -0.01695148428552784 HFLDRHLVF 9 Unmodified _HFLDRHLVF_ 0 0 0 ENST00000519030.5_1_8:109252301-109260916:-|nuORF;ENST00000518442.5_1_8:109247181-109261015:-|nuORF;ENSG00000104408|ENST00000220849|EIF3E ENST00000519030.5_1_8:109252301-109260916:-|nuORF ENST00000519030.5_1_8:109252301-109260916:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.21807861328125 3 395.217214 1182.62981 2.8682 0.0011336 0.067655 2.6738E-05 2.9359 0.0011603 395.21713076710506 49.854 0.31024 50.511 50.419 50.729 0.65735 25 12 3 0 0 0 0.10837 1 22825 22825 22.658 16.875 1 522870 9140 1436 5913 5930 10544 10544 0.04580246699674717 HFLDRHLVF 9 Unmodified _HFLDRHLVF_ 0 0 0 ENST00000519030.5_1_8:109252301-109260916:-|nuORF;ENST00000518442.5_1_8:109247181-109261015:-|nuORF;ENSG00000104408|ENST00000220849|EIF3E ENST00000519030.5_1_8:109252301-109260916:-|nuORF ENST00000519030.5_1_8:109252301-109260916:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 395.217214 1182.62981 2.8111 0.001111 -0.2075 -8.2008E-05 2.6036 0.001029 395.21714805230204 50.831 0.29401 50.831 50.702 50.996 0 0.13226 -9.967E-05 NaN 22.658 30 13 4 NaN NaN NaN NaN 0 NaN NaN 0 1998800 9141 1436 5913 5930 0.04580246699674717 HFLDRHLVF 9 Unmodified _HFLDRHLVF_ 0 0 0 ENST00000519030.5_1_8:109252301-109260916:-|nuORF;ENST00000518442.5_1_8:109247181-109261015:-|nuORF;ENSG00000104408|ENST00000220849|EIF3E ENST00000519030.5_1_8:109252301-109260916:-|nuORF ENST00000519030.5_1_8:109252301-109260916:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 395.217214 1182.62981 2.6928 0.0010642 -0.14447 -5.7095E-05 2.5483 0.0010071 395.2170742234489 49.931 0.31715 50.754 50.612 50.929 0.82285 0.055499 -2.4931E-05 NaN 22.658 33 12 3 NaN NaN NaN NaN 0 NaN NaN 0 1403700 9142 1436 5913 5930 0.04580246699674717 HFLLQLTEL 9 Unmodified _HFLLQLTEL_ 0 0 0 nc|ENSG00000221887|P0C7T4|HMSD nc|ENSG00000221887|P0C7T4|HMSD nc|ENSG00000221887|P0C7T4|HMSD MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 372.2026672363281 3 371.881608 1112.623 2.7533 0.0010239 -0.48038 -0.00017864 2.2729 0.00084526 371.8816621579632 36.12 0.27864 36.746 36.541 36.82 0.62631 11 8 2 0 0 0 0.11236 1 16455 16455 2.9952 0.26005 1 465850 9143 9833 5914 5931 10545 10545 0.07118889028447484 HFLLQLTEL 9 Unmodified _HFLLQLTEL_ 0 0 0 nc|ENSG00000221887|P0C7T4|HMSD nc|ENSG00000221887|P0C7T4|HMSD nc|ENSG00000221887|P0C7T4|HMSD MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 371.881608 1112.623 2.765 0.0010283 -1.2763 -0.00047462 1.4887 0.00055363 371.8815834326988 36.731 0.28375 36.989 36.868 37.152 0.25768 0.12141 -0.00056098 NaN 2.9952 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 310220 9144 9833 5914 5931 0.07118889028447484 HFLRLIHFQL 10 Unmodified _HFLRLIHFQL_ 0 0 0 REV__ENSG00000173572|ENST00000342929|NLRP13 REV__ENSG00000173572|ENST00000342929|NLRP13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.6984558105469 4 331.697567 1322.76116 2.3248 0.00077113 0.16744 5.5541E-05 2.4922 0.00082667 331.6974547428054 50.391 0.41154 50.652 50.497 50.909 0.26146 56 19 4 0 0 0 0.9406 1 23011 23011 0.77653 0 1 2395600 + 9145 13604 5915 5932 10546 10546 0.11269057067602262 HFLRLIHFQL 10 Unmodified _HFLRLIHFQL_ 0 0 0 REV__ENSG00000173572|ENST00000342929|NLRP13 REV__ENSG00000173572|ENST00000342929|NLRP13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.6983642578125 4 331.697567 1322.76116 2.2878 0.00075886 0.65227 0.00021636 2.9401 0.00097521 331.6976504289259 49.748 0.31049 50.405 50.222 50.532 0.65735 24 12 2 0 0 0 0.9406 1 22739 22739 0.77653 0.078866 1 2085300 + 9146 13604 5915 5932 10547 10547 0.11269057067602262 HFLRLIHFQL 10 Unmodified _HFLRLIHFQL_ 0 0 0 REV__ENSG00000173572|ENST00000342929|NLRP13 REV__ENSG00000173572|ENST00000342929|NLRP13 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.6983642578125 4 331.697567 1322.76116 2.3226 0.00077039 0.50763 0.00016838 2.8302 0.00093876 331.6976901239594 49.468 0.48391 50.123 49.95 50.434 0.65524 42 17 4 0 0 0 0.12676 1 22739 22739 0.77653 0.078866 1 2123100 + 9147 13604 5915 5932 10548 10548 0.11269057067602262 HFLRLIHFQL 10 Unmodified _HFLRLIHFQL_ 0 0 0 REV__ENSG00000173572|ENST00000342929|NLRP13 REV__ENSG00000173572|ENST00000342929|NLRP13 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 331.697567 1322.76116 2.333 0.00077386 0.69784 0.00023147 3.0309 0.0010053 331.6976595478234 50.584 0.34868 50.584 50.312 50.661 0 0.089572 3.4685E-05 NaN 0.77653 46 15 4 NaN NaN NaN NaN 0 NaN NaN 0 1554500 + 9148 13604 5915 5932 0.11269057067602262 HFMGKKSL 8 Unmodified _HFMGKKSL_ 0 0 0 ENSG00000197696|ENST00000360476|NMB;nc|ENSG00000197696|P08949-2|NMB ENSG00000197696|ENST00000360476|NMB ENSG00000197696|ENST00000360476|NMB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 316.5098571777344 3 316.509229 946.505857 2.2159 0.00070136 -0.033462 -1.0591E-05 2.1825 0.00069077 316.5091496937183 12.592 0.074348 12.592 12.542 12.617 0 11 6 2 0 0 0 0.35763 1 5490 5490 31.268 15.421 1 2517000 9149 5835 5916 5933 10549 10549 0.030464526078617382 HFMGKKSL 8 Unmodified _HFMGKKSL_ 0 0 0 ENSG00000197696|ENST00000360476|NMB;nc|ENSG00000197696|P08949-2|NMB ENSG00000197696|ENST00000360476|NMB ENSG00000197696|ENST00000360476|NMB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 316.5098571777344 3 316.509229 946.505857 1.761 0.00055738 0.1183 3.7442E-05 1.8793 0.00059482 316.5091252192056 12.438 0.047129 12.7 12.674 12.721 0.26154 5 3 2 0 0 0 0.40815 1 5391 5391 27.629 11.782 1 2760800 9150 5835 5916 5933 10550 10550 0.030464526078617382 HFMGKKSL 8 Unmodified _HFMGKKSL_ 0 0 0 ENSG00000197696|ENST00000360476|NMB;nc|ENSG00000197696|P08949-2|NMB ENSG00000197696|ENST00000360476|NMB ENSG00000197696|ENST00000360476|NMB MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 316.509229 946.505857 1.5176 0.00048032 -0.74598 -0.00023611 0.77157 0.00024421 316.5090992439177 12.433 0.059488 12.74 12.691 12.751 0.30727 -0.031182 -0.00065269 NaN 31.268 7 3 3 NaN NaN NaN NaN 0 NaN NaN 0 5699400 9151 5835 5916 5933 0.030464526078617382 HFMGKKSL 8 Unmodified _HFMGKKSL_ 0 0 0 ENSG00000197696|ENST00000360476|NMB;nc|ENSG00000197696|P08949-2|NMB ENSG00000197696|ENST00000360476|NMB ENSG00000197696|ENST00000360476|NMB MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 316.509229 946.505857 2.4922 0.00078881 0.26343 8.3379E-05 2.7557 0.00087219 316.5093528737689 12.411 0.047505 13.054 13.02 13.067 0.64272 0.28236 0.00030578 NaN 31.268 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 6143800 9152 5835 5916 5933 0.030464526078617382 HFNRISLL 8 Unmodified _HFNRISLL_ 0 0 0 nc|ENSG00000162594|Q5VWK5-7|IL23R;nc|ENSG00000162594|Q5VWK5-5|IL23R;nc|ENSG00000162594|Q5VWK5-6|IL23R;nc|ENSG00000162594|Q5VWK5-2|IL23R;ENSG00000162594|ENST00000347310|IL23R nc|ENSG00000162594|Q5VWK5-7|IL23R nc|ENSG00000162594|Q5VWK5-7|IL23R MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.2910461425781 2 500.290351 998.566149 2.7937 0.0013977 -1.2057 -0.00060319 1.5881 0.00079449 500.2896228429871 70.327 0.28402 70.99 70.853 71.137 0.66208 27 15 2 0 0 0 0.5438 1 32297 32297 18.135 3.2967 1 559850 9153 4145 5917 5934 10551 10551 0.06680886262620334 HFRNLEALAL 10 Unmodified _HFRNLEALAL_ 0 0 0 nc|ENSG00000196419|P12956-2|XRCC6;ENSG00000196419|ENST00000360079|XRCC6;ENST00000478914.1_1_22:42052971-42057696:+|nuORF nc|ENSG00000196419|P12956-2|XRCC6 nc|ENSG00000196419|P12956-2|XRCC6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.22528076171875 3 395.224257 1182.65094 NaN NaN NaN NaN NaN NaN NaN 27.984 1 28.247 27.747 28.747 0.26245 0 0 0 0.99954 1 12725 12725 2.086 0 1 9154 5743 5918 5935 10552 10552 0.0669221200857919 HFRYKNRQRLY 11 Unmodified _HFRYKNRQRLY_ 0 0 0 REV__ENSG00000165312|ENST00000376495|OTUD1 REV__ENSG00000165312|ENST00000376495|OTUD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 790.9336547851562 2 790.931483 1579.84841 NaN NaN NaN NaN NaN NaN NaN 83.93 1 84.177 83.677 84.677 0.24722 0 0 0 1.008 1 38631 38631 0.30703 0.30703 1 + 9155 13152 5919 5936 10553 10553 0.08168231271201876 HFTLDLHNK 9 Unmodified _HFTLDLHNK_ 0 0 0 REV__ENST00000508784.5_1_4:146681933-146682710:-|nuORF REV__ENST00000508784.5_1_4:146681933-146682710:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.533935546875 3 375.533091 1123.57744 2.7198 0.0010214 -0.070753 -2.657E-05 2.649 0.0009948 375.5329855082333 35.663 0.45045 35.918 35.713 36.164 0.25524 41 15 3 0 0 0 0.41574 2 16210 16210;16263 9.544 1.3884 1 761460 + 9156 16957 5920 5937 10554;10555 10554 0.020596635660922402 HFTLDLHNK 9 Unmodified _HFTLDLHNK_ 0 0 0 REV__ENST00000508784.5_1_4:146681933-146682710:-|nuORF REV__ENST00000508784.5_1_4:146681933-146682710:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 375.533091 1123.57744 2.7198 0.0010214 -0.070753 -2.657E-05 2.649 0.0009948 375.5329855082333 35.663 0.45045 35.918 35.713 36.164 0.25524 0.1718 -0.00020963 NaN 9.544 41 15 3 NaN NaN NaN NaN 0 NaN NaN 0 761460 + 9157 16957 5920 5937 0.020596635660922402 HFTSDKEPM 9 Unmodified _HFTSDKEPM_ 0 0 0 REV__ENSG00000204301|ENST00000375023|NOTCH4 REV__ENSG00000204301|ENST00000375023|NOTCH4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.2496948242188 2 546.244949 1090.47534 3.5488 0.0019385 -0.6011 -0.00032835 2.9477 0.0016102 546.245664363099 66.907 1.079 67.563 67.055 68.134 0.65672 134 62 3 0 0 0 0.36069 3 30545 30498;30545;30711 14.838 4.0143 1 673450 + 9158 14411 5921 5938 10556;10557;10558 10557 -0.06627370567844082 HFVDEVEWTWW 11 Unmodified _HFVDEVEWTWW_ 0 0 0 REV__nc|ENSG00000197653|Q8IVF4|DNAH10 REV__nc|ENSG00000197653|Q8IVF4|DNAH10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.8985290527344 3 511.898098 1532.67246 NaN NaN NaN NaN NaN NaN NaN 26.293 1 26.293 25.793 26.793 0 0 0 0 1.0082 1 11829 11829 0.094841 0 1 + 9159 14297 5922 5939 10559 10559 -0.07256447753388784 HFVFFFFFNWI 11 Unmodified _HFVFFFFFNWI_ 0 0 0 ENST00000393913.7_1_2:75719495-75719630:-|nuORF ENST00000393913.7_1_2:75719495-75719630:-|nuORF ENST00000393913.7_1_2:75719495-75719630:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 775.8870849609375 2 775.884616 1549.75468 NaN NaN NaN NaN NaN NaN NaN 32.099 1 32.099 31.599 32.599 0 0 0 0 1.008 1 14530 14530 0.35063 0.043601 1 9160 7537 5923 5940 10560 10560 0.0017911911625105859 HFVRAILVP 9 Unmodified _HFVRAILVP_ 0 0 0 REV__ENST00000552415.1_1_12:107109174-107109339:-|nuORF REV__ENST00000552415.1_1_12:107109174-107109339:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.2191162109375 3 351.218555 1050.63383 2.2624 0.00079461 1.5843 0.00055643 3.8467 0.001351 351.2187280417066 47.512 0.15915 48.341 48.248 48.407 0.82915 13 11 2 0 0 0 1.1703 1 21653 21653 1.1933 0.12188 1 279400 + 9161 17295 5924 5941 10561 10561 0.11054336193410563 HFVRAILVP 9 Unmodified _HFVRAILVP_ 0 0 0 REV__ENST00000552415.1_1_12:107109174-107109339:-|nuORF REV__ENST00000552415.1_1_12:107109174-107109339:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 351.218555 1050.63383 2.5685 0.00090209 1.3172 0.00046262 3.8856 0.0013647 351.21860878002997 48.515 0.1021 48.515 48.452 48.554 0 0.086922 -0.00024303 NaN 1.1933 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 232870 + 9162 17295 5924 5941 0.11054336193410563 HFVRAILVP 9 Unmodified _HFVRAILVP_ 0 0 0 REV__ENST00000552415.1_1_12:107109174-107109339:-|nuORF REV__ENST00000552415.1_1_12:107109174-107109339:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 351.218555 1050.63383 2.2624 0.00079461 1.5843 0.00055643 3.8467 0.001351 351.2187280417066 47.512 0.15915 48.341 48.248 48.407 0.82915 -0.086922 3.8404E-05 NaN 1.1933 13 11 2 NaN NaN NaN NaN 0 NaN NaN 0 279400 + 9163 17295 5924 5941 0.11054336193410563 HGCCCNCCCCL 11 Unmodified _HGCCCNCCCCL_ 0 0 0 REV__ENSG00000147570|ENST00000276570|DNAJC5B REV__ENSG00000147570|ENST00000276570|DNAJC5B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.1471557617188 2 581.148388 1160.28222 NaN NaN NaN NaN NaN NaN NaN 68.912 1 69.572 69.072 70.072 0.65924 0 0 0 1.008 1 31589 31589 0.35063 0.35063 1 + 9164 12511 5925 5942 10562 10562 -0.29150677810048364 HGFLRQAL 8 Unmodified _HGFLRQAL_ 0 0 0 nc|ENSG00000140464|P29590-2|PML;ENST00000569161.1_1_15:74315283-74324931:+|nuORF;ENST00000564725.1_1_15:74290377-74317280:+|nuORF;nc|ENSG00000140464|P29590-14|PML;nc|ENSG00000140464|P29590-10|PML;nc|ENSG00000140464|P29590-4|PML;nc|ENSG00000140464|P29590-12|PML;nc|ENSG00000140464|P29590-5|PML;nc|ENSG00000140464|P29590-9|PML;nc|ENSG00000140464|P29590-13|PML;nc|ENSG00000140464|P29590-3|PML;nc|ENSG00000140464|P29590-8|PML;nc|ENSG00000140464|P29590-11|PML;ENSG00000140464|ENST00000268058|PML nc|ENSG00000140464|P29590-2|PML nc|ENSG00000140464|P29590-2|PML MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.27178955078125 2 471.269419 940.524284 3.2651 0.0015388 0.57845 0.00027261 3.8436 0.0018114 471.2697544459076 32.001 0.22931 32.255 32.15 32.379 0.25452 28 12 3 0 0 0 0.52517 2 14554 14554;14606 19.439 3.5918 1 232410 9165 9671 5926 5943 10563;10564 10563 0.05164330574086762 HGFLRQAL 8 Unmodified _HGFLRQAL_ 0 0 0 nc|ENSG00000140464|P29590-2|PML;ENST00000569161.1_1_15:74315283-74324931:+|nuORF;ENST00000564725.1_1_15:74290377-74317280:+|nuORF;nc|ENSG00000140464|P29590-14|PML;nc|ENSG00000140464|P29590-10|PML;nc|ENSG00000140464|P29590-4|PML;nc|ENSG00000140464|P29590-12|PML;nc|ENSG00000140464|P29590-5|PML;nc|ENSG00000140464|P29590-9|PML;nc|ENSG00000140464|P29590-13|PML;nc|ENSG00000140464|P29590-3|PML;nc|ENSG00000140464|P29590-8|PML;nc|ENSG00000140464|P29590-11|PML;ENSG00000140464|ENST00000268058|PML nc|ENSG00000140464|P29590-2|PML nc|ENSG00000140464|P29590-2|PML MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.2703552246094 2 471.269419 940.524284 2.9501 0.0013903 0.6644 0.00031311 3.6145 0.0017034 471.26997451139306 31.411 0.23561 32.029 31.926 32.161 0.61737 24 15 2 0 0 0 0.16336 2 14393 14393;14445 46.921 21.522 1 406370 9166 9671 5926 5943 10565;10566 10565 0.05164330574086762 HGGEDYVF 8 Unmodified _HGGEDYVF_ 0 0 0 ENST00000533444.1_1_8:145150729-145152236:+|nuORF;ENSG00000179091|ENST00000318911|CYC1 ENST00000533444.1_1_8:145150729-145152236:+|nuORF ENST00000533444.1_1_8:145150729-145152236:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 462.20025634765625 2 462.198325 922.382096 NaN NaN NaN NaN NaN NaN NaN 41.104 1 41.104 40.604 41.604 0 0 0 0 0.11945 1 18669 18669 49.669 26.52 1 9167 5195 5927 5944 10567 10567 -0.08219926958747692 HGGGGGGG 8 Unmodified _HGGGGGGG_ 0 0 0 ENSG00000104824|ENST00000221419|HNRNPL;ENSG00000124766|ENST00000244745|SOX4;ENSG00000152784|ENST00000415738|PRDM8;ENSG00000101331|ENST00000452892|CCM2L;ENSG00000054598|ENST00000645831|FOXC1;ENSG00000183783|ENST00000360029|KCTD8;ENST00000601673.1_7:6523004-6523760:+|nuORF;ENSG00000184486|ENST00000328345|POU3F2;nc|ENSG00000101331|Q9NUG4-2|CCM2L;ENSG00000103241|ENST00000262426|FOXF1;SUZ12|p.R331Kfs*9|1|0.33|ENSG00000178691|chr17:31983068-31983069|-/A|frameshift_variant;nc|ENSG00000152784|Q9NQV8-2|PRDM8;ENST00000492220.1_1_1:150381497-150445807:+|nuORF;nc|ENSG00000163125|Q5VT52-2|RPRD2;nc|ENSG00000163125|Q5VT52-3|RPRD2;ENSG00000163125|ENST00000369068|RPRD2;ENSG00000178691|ENST00000322652|SUZ12 ENSG00000104824|ENST00000221419|HNRNPL;REV__nc|ENSG00000171634|Q12830-4|BPTF;ENST00000492220.1_1_1:150381497-150445807:+|nuORF;ENSG00000178691|ENST00000322652|SUZ12 REV__nc|ENSG00000171634|Q12830-4|BPTF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.3551025390625 1 555.226999 554.219723 3.7265 0.002069 0.34241 0.00019012 4.0689 0.0022592 555.2293523192672 97.131 0.090233 97.733 97.675 97.765 0.6019 5 3 2 0 0 0 0.14355 1 44650 44650 0 0 1 151180 9168 9981;1451;4194;5177 5928 5945 10568 10568 -0.07521845850237696 HGGVLLRR 8 Unmodified _HGGVLLRR_ 0 0 0 REV__ENST00000513704.5_1_5:88185236-88201048:+|nuORF REV__ENST00000513704.5_1_5:88185236-88201048:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.1991882324219 3 303.190999 906.551168 NaN NaN NaN NaN NaN NaN NaN 44.608 1 45.258 44.758 45.758 0.64998 0 0 0 0.99035 1 20447 20447 0.45834 0 1 + 9169 16994 5929 5946 10569 10569 0.0941543918527259 HGHKRFFVL 9 Unmodified _HGHKRFFVL_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 380.8866882324219 3 380.885687 1139.63523 2.477 0.00094344 0.20233 7.7064E-05 2.6793 0.0010205 380.88582437807963 34.041 0.25769 34.041 33.888 34.145 0 39 15 3 0 0 0 0.078225 2 15433 15384;15433 38.176 38.176 1 2998900 9170 5547 5930 5947 10570;10571 10571 0.07099970282183676 HGHKRFFVL 9 Unmodified _HGHKRFFVL_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 380.8867492675781 3 380.885687 1139.63523 2.1886 0.00083361 0.59201 0.00022549 2.7806 0.0010591 380.88587708383506 32.886 0.38957 33.674 33.498 33.888 0.78795 68 24 4 0 0 0 0.099775 3 14880 14831;14880;14931 32.786 14.064 1 1943400 9171 5547 5930 5947 10572;10573;10574 10573 0.07099970282183676 HGHKRFFVL 9 Unmodified _HGHKRFFVL_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.8868408203125 3 380.885687 1139.63523 2.8269 0.0010767 -0.047929 -1.8255E-05 2.7789 0.0010585 380.88568947673775 33.893 0.51149 34.147 33.906 34.418 0.25389 90 25 5 0 0 0 0.053453 4 15475 15378;15429;15475;15532 45.7 45.7 1 9089300 9172 5547 5930 5947 10575;10576;10577;10578 10577 0.07099970282183676 HGHKRFFVL 9 Unmodified _HGHKRFFVL_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.3280639648438 2 570.824892 1139.63523 3.4755 0.0019839 0.17002 9.7054E-05 3.6455 0.002081 570.8247603859805 33.896 0.34226 34.15 33.976 34.318 0.25389 50 16 4 0 0 0 0.021401 2 15403 15403;15453 74.423 74.423 1 1908500 9173 5547 5930 5947 10579;10580 10579 0.07099970282183676 HGHKRFFVL 9 Unmodified _HGHKRFFVL_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.8868103027344 3 380.885687 1139.63523 2.6027 0.00099135 0.18538 7.0609E-05 2.7881 0.001062 380.8857909376646 33.326 0.6068 33.946 33.698 34.304 0.62031 102 27 5 0 0 0 0.078225 4 15266 15214;15266;15330;15383 38.176 29.199 1 6731600 9174 5547 5930 5947 10581;10582;10583;10584 10582 0.07099970282183676 HGHKRFFVL 9 Unmodified _HGHKRFFVL_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.8268432617188 2 570.824892 1139.63523 3.502 0.001999 0.25056 0.00014303 3.7525 0.002142 570.8247231436947 33.311 0.42772 33.931 33.738 34.166 0.62031 61 19 4 0 0 0 0.011692 3 15268 15218;15268;15333 88.904 69.647 1 1503700 9175 5547 5930 5947 10585;10586;10587 10586 0.07099970282183676 HGHLKVVEL 9 Unmodified _HGHLKVVEL_ 0 0 0 nc|ENSG00000138376|Q99728-3|BARD1;nc|ENSG00000138376|Q99728-2|BARD1;ENSG00000138376|ENST00000260947|BARD1 nc|ENSG00000138376|Q99728-3|BARD1 nc|ENSG00000138376|Q99728-3|BARD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.5388488769531 3 344.538064 1030.59236 NaN NaN NaN NaN NaN NaN NaN 24.99 1 25.26 24.76 25.76 0.26964 0 0 0 0.58778 1 11335 11335 16.149 6.766 1 9176 3087 5931 5948 10588 10588 0.07829155434069435 HGIVEVDPM 9 Unmodified _HGIVEVDPM_ 0 0 0 ENST00000533860.5_1_11:130009456-130013340:+|nuORF;nc|ENSG00000084234|Q06481-5|APLP2;nc|ENSG00000084234|Q06481-4|APLP2;nc|ENSG00000084234|Q06481-2|APLP2;ENSG00000084234|ENST00000338167|APLP2;nc|ENSG00000084234|Q06481-6|APLP2;nc|ENSG00000084234|Q06481|APLP2 ENST00000533860.5_1_11:130009456-130013340:+|nuORF ENST00000533860.5_1_11:130009456-130013340:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.7687683105469 2 498.744585 995.474617 2.808 0.0014005 0.55049 0.00027455 3.3585 0.001675 498.7447285791214 47.328 0.28735 47.328 47.193 47.481 0 27 15 3 0 0 0 0.019666 1 21631 21631 36.044 25.22 1 914040 9177 954 5932 5949 10589 10589 -0.023301652168811415 HGKGLAGR 8 Unmodified _HGKGLAGR_ 0 0 0 REV__ENST00000370069.5_1_20:62219030-62219531:-|nuORF REV__ENST00000370069.5_1_20:62219030-62219531:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.2335205078125 2 398.232836 794.45112 3.0903 0.0012307 0.013851 5.5161E-06 3.1042 0.0012362 398.2325615020506 91.432 0.34071 92.094 91.915 92.256 0.66198 27 14 3 0 0 0 0.74071 1 42130 42130 2.5775 0 1 494050 + 9178 15718 5933 5950 10590 10590 0.04567201851466507 HGKVKSVEL 9 Unmodified _HGKVKSVEL_ 0 0 0 nc|ENSG00000166783|Q9Y4F3-3|MARF1;nc|ENSG00000166783|Q9Y4F3-4|MARF1;nc|ENSG00000166783|Q9Y4F3-5|MARF1;ENSG00000166783|ENST00000396368|MARF1;ENST00000551678.1_1_16:15715588-15716832:-|nuORF;ENST00000546864.2_1_16:15710907-15716997:-|nuORF nc|ENSG00000166783|Q9Y4F3-3|MARF1 nc|ENSG00000166783|Q9Y4F3-3|MARF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 333.20123291015625 3 332.86607 995.57638 2.419 0.00080521 0.26111 8.6915E-05 2.6801 0.00089212 332.866040185929 12.69 0.083515 12.69 12.646 12.729 0 12 5 3 0 0 0 0.26118 1 5539 5539 19.362 8.5624 1 892060 9179 4506 5934 5951 10591 10591 0.07841449197189831 HGKVKSVEL 9 Unmodified _HGKVKSVEL_ 0 0 0 nc|ENSG00000166783|Q9Y4F3-3|MARF1;nc|ENSG00000166783|Q9Y4F3-4|MARF1;nc|ENSG00000166783|Q9Y4F3-5|MARF1;ENSG00000166783|ENST00000396368|MARF1;ENST00000551678.1_1_16:15715588-15716832:-|nuORF;ENST00000546864.2_1_16:15710907-15716997:-|nuORF nc|ENSG00000166783|Q9Y4F3-3|MARF1 nc|ENSG00000166783|Q9Y4F3-3|MARF1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 332.86607 995.57638 1.6506 0.00054942 1.5382 0.00051202 3.1888 0.0010614 332.86665394182484 12.5 0.085861 12.807 12.733 12.819 0.30727 0.05874 0.0005937 NaN 19.362 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1656700 9180 4506 5934 5951 0.07841449197189831 HGLFKSTL 8 Unmodified _HGLFKSTL_ 0 0 0 nc|ENSG00000135655|Q9Y4E8-2|USP15;nc|ENSG00000135655|Q9Y4E8-3|USP15;ENSG00000135655|ENST00000280377|USP15;USP11|p.R494Gfs*47|1|0.21|ENSG00000102226|chrX:47242253-47242253|A/-|frameshift_variant;ENST00000485450.5_1_3:49315728-49349110:-|nuORF;nc|ENSG00000114316|Q13107-2|USP4;ENSG00000114316|ENST00000265560|USP4;ENST00000469080.5_1_X:47092634-47106681:+|nuORF;ENSG00000102226|ENST00000377107|USP11;nc|ENSG00000102226|P51784|USP11 nc|ENSG00000135655|Q9Y4E8-2|USP15;ENST00000485450.5_1_3:49315728-49349110:-|nuORF;ENST00000469080.5_1_X:47092634-47106681:+|nuORF nc|ENSG00000135655|Q9Y4E8-2|USP15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.75982666015625 2 451.758352 901.502152 NaN NaN NaN NaN NaN NaN NaN 32.179 1 32.433 31.933 32.933 0.25452 0 0 0 0.50246 1 14652 14652 28.487 12.64 1 9181 2886;1896;1337 5935 5952 10592 10592 0.047461061056765175 HGLIHNVL 8 Unmodified _HGLIHNVL_ 0 0 0 nc|ENSG00000118564|Q9UKA1-2|FBXL5;ENSG00000118564|ENST00000341285|FBXL5 nc|ENSG00000118564|Q9UKA1-2|FBXL5 nc|ENSG00000118564|Q9UKA1-2|FBXL5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.766357421875 2 451.763969 901.513385 2.8057 0.0012675 0.51033 0.00023055 3.316 0.0014981 451.76427562567636 34.434 0.24457 34.688 34.567 34.812 0.25389 15 9 2 0 0 0 0.13778 1 15668 15668 49.669 30.23 1 818370 9182 2119 5936 5953 10593 10593 0.05868928199799939 HGLIHNVL 8 Unmodified _HGLIHNVL_ 0 0 0 nc|ENSG00000118564|Q9UKA1-2|FBXL5;ENSG00000118564|ENST00000341285|FBXL5 nc|ENSG00000118564|Q9UKA1-2|FBXL5 nc|ENSG00000118564|Q9UKA1-2|FBXL5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.7656555175781 2 451.763969 901.513385 2.951 0.0013331 0.24458 0.00011049 3.1956 0.0014436 451.7641219789032 33.983 0.21089 34.603 34.499 34.709 0.62031 15 10 2 0 0 0 0.20016 2 15556 15556;15606 42.968 28.386 1 436720 9183 2119 5936 5953 10594;10595 10594 0.05868928199799939 HGPKEQGPKHH 11 Unmodified _HGPKEQGPKHH_ 0 0 0 ENSG00000188816|ENST00000339992|HMX2 ENSG00000188816|ENST00000339992|HMX2 ENSG00000188816|ENST00000339992|HMX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 626.3224487304688 2 626.320703 1250.62685 NaN NaN NaN NaN NaN NaN NaN 49.534 1 50.356 49.856 50.856 0.82285 0 0 0 1.0065 1 22564 22564 2.2828 0.22302 1 9184 5685 5937 5954 10596 10596 0.011563715748934555 HGPSTWEVL 9 Unmodified _HGPSTWEVL_ 0 0 0 REV__nc|ENSG00000197641|Q9UIV8-2|SERPINB13 REV__nc|ENSG00000197641|Q9UIV8-2|SERPINB13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.2595825195312 2 513.256174 1024.49779 2.7414 0.001407 0.21105 0.00010832 2.9524 0.0015153 513.2562767105865 72.712 0.33219 73.411 73.308 73.64 0.69881 50 29 2 0 0 0 0.54955 1 35084 35084 11.64 0 1 1857700 + 9185 14295 5938 5955 10597 10597 -0.013474031079113047 HGPSTWEVL 9 Unmodified _HGPSTWEVL_ 0 0 0 REV__nc|ENSG00000197641|Q9UIV8-2|SERPINB13 REV__nc|ENSG00000197641|Q9UIV8-2|SERPINB13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.2570190429688 2 513.256174 1024.49779 2.8128 0.0014437 0.11773 6.0424E-05 2.9305 0.0015041 513.2561899687533 72.975 0.32718 73.639 73.491 73.818 0.66398 56 32 2 0 0 0 0.54955 1 33552 33552 11.64 0 1 1514400 + 9186 14295 5938 5955 10598 10598 -0.013474031079113047 HGRGFSGL 8 Unmodified _HGRGFSGL_ 0 0 0 ENST00000492354.1_1_1:16722157-16722196:+|nuORF ENST00000492354.1_1_1:16722157-16722196:+|nuORF ENST00000492354.1_1_1:16722157-16722196:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 415.7183532714844 2 415.717019 829.419485 3.1558 0.0013119 0.84272 0.00035033 3.9985 0.0016623 415.7172053812492 20.024 0.23932 20.682 20.56 20.799 0.6583 40 23 2 0 0 0 0.56084 2 9070 9070;9119 16.942 0 1 126820 9187 8403 5939 5956 10599;10600 10599 -0.002047909024781802 HGSDEDDDEE 10 Unmodified _HGSDEDDDEE_ 0 0 0 REV__ENST00000512858.1_1_4:88986866-88996843:+|nuORF REV__ENST00000512858.1_1_4:88986866-88996843:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.0202026367188 2 574.186537 1146.35852 NaN NaN NaN NaN NaN NaN NaN 10.994 1 11.273 10.773 11.773 0.2792 0 0 0 1.002 1 4773 4773 0 0 1 + 9188 11479 5940 5957 10601 10601 -0.20880482044549353 HGSEDFLLV 9 Unmodified _HGSEDFLLV_ 0 0 0 nc|ENSG00000148120|Q8N6M6-4|AOPEP;nc|ENSG00000148120|Q8N6M6-2|AOPEP;ENSG00000148120|ENST00000375315|AOPEP;nc|ENSG00000148120|Q8N6M6-3|AOPEP nc|ENSG00000148120|Q8N6M6-4|AOPEP nc|ENSG00000148120|Q8N6M6-4|AOPEP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.7569885253906 2 508.756007 1015.49746 NaN NaN NaN NaN NaN NaN NaN 68.559 1 69.218 68.718 69.718 0.65924 0 0 0 0.26328 1 31426 31426 28.487 0 1 9189 3588 5941 5958 10602 10602 -0.009668228277405433 HGSSRKCS 8 Unmodified _HGSSRKCS_ 0 0 0 REV__nc|ENSG00000175764|Q8NHH1-2|TTLL11 REV__nc|ENSG00000175764|Q8NHH1-2|TTLL11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 431.2048034667969 2 431.203418 860.392284 2.6652 0.0011492 0.33003 0.00014231 2.9952 0.0012915 431.203594657816 46.533 0.32587 47.362 47.259 47.585 0.82915 53 28 2 0 0 0 0.5438 1 21265 21265 18.135 18.135 1 5213900 + 9190 13679 5942 5959 10603 10603 -0.04349642505178508 HGSSRKCS 8 Unmodified _HGSSRKCS_ 0 0 0 REV__nc|ENSG00000175764|Q8NHH1-2|TTLL11 REV__nc|ENSG00000175764|Q8NHH1-2|TTLL11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 431.2055358886719 2 431.203418 860.392284 3.1057 0.0013392 0.73345 0.00031627 3.8392 0.0016555 431.2037513785292 47.607 0.36712 47.87 47.692 48.06 0.26363 48 26 2 0 0 0 0.5438 3 21719 21719;21762;21828 18.135 18.135 1 4077500 + 9191 13679 5942 5959 10604;10605;10606 10604 -0.04349642505178508 HGSVHVTL 8 Unmodified _HGSVHVTL_ 0 0 0 ENSG00000104419|ENST00000323851|NDRG1;ENST00000518010.5_1_8:134269105-134296554:-|nuORF ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 425.2340393066406 2 425.232502 848.450451 NaN NaN NaN NaN NaN NaN NaN 23.002 1 23.278 22.778 23.778 0.27562 0 0 0 2.0218E-05 1 10382 10382 114.94 51.381 1 9192 1438 5943 5960 10607 10607 0.020163624117685686 HGSVHVTL 8 Unmodified _HGSVHVTL_ 0 0 0 ENSG00000104419|ENST00000323851|NDRG1;ENST00000518010.5_1_8:134269105-134296554:-|nuORF ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 425.2344055175781 2 425.232502 848.450451 3.0244 0.0012861 -0.11491 -4.8865E-05 2.9095 0.0012372 425.2324461087852 22.481 0.15599 23.122 23.084 23.24 0.64051 24 21 2 0 0 0 0.0093032 1 10241 10241 106.85 47.05 1 3572900 9193 1438 5943 5960 10608 10608 0.020163624117685686 HGTAAAAV 8 Unmodified _HGTAAAAV_ 0 0 0 REV__nc|ENSG00000151718|Q6AWC2-5|WWC2 REV__nc|ENSG00000151718|Q6AWC2-5|WWC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 349.1854553222656 2 349.18502 696.355488 2.335 0.00081534 -1.0686 -0.00037315 1.2663 0.00044219 349.1846131372679 67.971 0.23584 68.628 68.506 68.742 0.65777 21 15 2 0 0 0 0.7471 1 31160 31160 0.79363 0 1 432490 + 9194 12627 5944 5961 10609 10609 -0.004835710594420561 HGYDKDPVL 9 Unmodified _HGYDKDPVL_ 0 0 0 ENSG00000147123|ENST00000377811|NDUFB11;nc|ENSG00000147123|Q9NX14-2|NDUFB11 ENSG00000147123|ENST00000377811|NDUFB11 ENSG00000147123|ENST00000377811|NDUFB11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.2623901367188 2 522.261456 1042.50836 NaN NaN NaN NaN NaN NaN NaN 24.194 1 24.194 23.694 24.694 0 0 0 0 0.00077239 1 10877 10877 99.755 25.333 1 9195 3546 5945 5962 10610 10610 -0.011194204534831442 HGYGYGEG 8 Unmodified _HGYGYGEG_ 0 0 0 REV__nc|ENSG00000239306|Q96PK6-5|RBM14 REV__nc|ENSG00000239306|Q96PK6-5|RBM14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 420.17034912109375 2 420.169567 838.324582 2.9685 0.0012473 -0.25809 -0.00010844 2.7104 0.0011388 420.1693588235557 31.295 0.32534 31.295 31.137 31.462 0 44 27 2 0 0 0 0.7471 1 14183 14183 0.79363 0 1 569000 + 9196 13619 5946 5963 10611 10611 -0.1010476916432026 HGYGYGEG 8 Unmodified _HGYGYGEG_ 0 0 0 REV__nc|ENSG00000239306|Q96PK6-5|RBM14 REV__nc|ENSG00000239306|Q96PK6-5|RBM14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 420.1703186035156 2 420.169567 838.324582 2.8371 0.0011921 -0.59711 -0.00025089 2.24 0.00094117 420.1693597412834 32.467 0.23307 32.467 32.316 32.549 0 19 15 2 0 0 0 0.7471 1 14720 14720 0.79363 0 1 162460 + 9197 13619 5946 5963 10612 10612 -0.1010476916432026 HGYGYGEG 8 Unmodified _HGYGYGEG_ 0 0 0 REV__nc|ENSG00000239306|Q96PK6-5|RBM14 REV__nc|ENSG00000239306|Q96PK6-5|RBM14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 420.1700744628906 2 420.169567 838.324582 3.0116 0.0012654 -0.61632 -0.00025896 2.3953 0.0010064 420.16915666781534 30.795 0.47211 31.412 31.207 31.679 0.61736 40 28 2 0 0 0 0.7471 1 14154 14154 0.79363 0 1 307850 + 9198 13619 5946 5963 10613 10613 -0.1010476916432026 HGYGYGEG 8 Unmodified _HGYGYGEG_ 0 0 0 REV__nc|ENSG00000239306|Q96PK6-5|RBM14 REV__nc|ENSG00000239306|Q96PK6-5|RBM14 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 420.169567 838.324582 2.9685 0.0012473 -0.25809 -0.00010844 2.7104 0.0011388 420.1693588235557 31.295 0.32534 31.295 31.137 31.462 0 -0.037636 8.6868E-05 NaN 0.79363 44 27 2 NaN NaN NaN NaN 0 NaN NaN 0 569000 + 9199 13619 5946 5963 -0.1010476916432026 HGYGYGEG 8 Unmodified _HGYGYGEG_ 0 0 0 REV__nc|ENSG00000239306|Q96PK6-5|RBM14 REV__nc|ENSG00000239306|Q96PK6-5|RBM14 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 420.169567 838.324582 2.8371 0.0011921 -0.59711 -0.00025089 2.24 0.00094117 420.1693597412834 32.467 0.23307 32.467 32.316 32.549 0 -0.13588 -0.00029872 NaN 0.79363 19 15 2 NaN NaN NaN NaN 0 NaN NaN 0 162460 + 9200 13619 5946 5963 -0.1010476916432026 HGYGYGEG 8 Unmodified _HGYGYGEG_ 0 0 0 REV__nc|ENSG00000239306|Q96PK6-5|RBM14 REV__nc|ENSG00000239306|Q96PK6-5|RBM14 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 420.169567 838.324582 2.8317 0.0011898 -0.43863 -0.0001843 2.3931 0.0010055 420.16936186671586 30.315 0.37817 31.104 30.95 31.328 0.78921 -0.22875 -6.4848E-05 NaN 0.79363 49 31 2 NaN NaN NaN NaN 0 NaN NaN 0 196300 + 9201 13619 5946 5963 -0.1010476916432026 HGYGYGEG 8 Unmodified _HGYGYGEG_ 0 0 0 REV__nc|ENSG00000239306|Q96PK6-5|RBM14 REV__nc|ENSG00000239306|Q96PK6-5|RBM14 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 420.169567 838.324582 3.4539 0.0014512 -0.16337 -6.8645E-05 3.2905 0.0013826 420.169394966241 31.263 0.45493 31.519 31.277 31.732 0.25614 0.18678 0.00016646 NaN 0.79363 46 33 2 NaN NaN NaN NaN 0 NaN NaN 0 297780 + 9202 13619 5946 5963 -0.1010476916432026 HGYGYGEG 8 Unmodified _HGYGYGEG_ 0 0 0 REV__nc|ENSG00000239306|Q96PK6-5|RBM14 REV__nc|ENSG00000239306|Q96PK6-5|RBM14 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 420.169567 838.324582 3.198 0.0013437 0.30654 0.0001288 3.5045 0.0014725 420.169501812455 32.484 0.13091 32.739 32.649 32.78 0.25452 0.13588 0.00046065 NaN 0.79363 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 243890 + 9203 13619 5946 5963 -0.1010476916432026 HGYKKYLL 8 Unmodified _HGYKKYLL_ 0 0 0 nc|ENSG00000151239|Q12792-4|TWF1;ENSG00000151239|ENST00000395510|TWF1;nc|ENSG00000151239|Q12792-3|TWF1 nc|ENSG00000151239|Q12792-4|TWF1 nc|ENSG00000151239|Q12792-4|TWF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 341.2000427246094 3 341.19916 1020.57565 2.4941 0.000851 -0.090198 -3.0775E-05 2.4039 0.00082022 341.19911787474854 22.375 0.28539 22.375 22.225 22.51 0 53 21 3 0 0 0 0.15009 3 10027 9986;10027;10083 48.346 29.089 1 1092600 9204 3696 5947 5964 10614;10615;10616 10615 0.06618654548140057 HGYKKYLL 8 Unmodified _HGYKKYLL_ 0 0 0 nc|ENSG00000151239|Q12792-4|TWF1;ENSG00000151239|ENST00000395510|TWF1;nc|ENSG00000151239|Q12792-3|TWF1 nc|ENSG00000151239|Q12792-4|TWF1 nc|ENSG00000151239|Q12792-4|TWF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.199462890625 3 341.19916 1020.57565 NaN NaN NaN NaN NaN NaN NaN 21.321 1 21.607 21.107 22.107 0.28662 0 0 0 0.55493 1 9654 9654 26.884 11.036 1 9205 3696 5947 5964 10617 10617 0.06618654548140057 HGYKKYLL 8 Unmodified _HGYKKYLL_ 0 0 0 nc|ENSG00000151239|Q12792-4|TWF1;ENSG00000151239|ENST00000395510|TWF1;nc|ENSG00000151239|Q12792-3|TWF1 nc|ENSG00000151239|Q12792-4|TWF1 nc|ENSG00000151239|Q12792-4|TWF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.1996765136719 3 341.19916 1020.57565 NaN NaN NaN NaN NaN NaN NaN 21.406 1 21.692 21.192 22.192 0.28662 0 0 0 0.12463 1 9693 9693 48.346 22.947 1 9206 3696 5947 5964 10618 10618 0.06618654548140057 HGYKKYLL 8 Unmodified _HGYKKYLL_ 0 0 0 nc|ENSG00000151239|Q12792-4|TWF1;ENSG00000151239|ENST00000395510|TWF1;nc|ENSG00000151239|Q12792-3|TWF1 nc|ENSG00000151239|Q12792-4|TWF1 nc|ENSG00000151239|Q12792-4|TWF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.1993713378906 3 341.19916 1020.57565 NaN NaN NaN NaN NaN NaN NaN 21.492 1 21.779 21.279 22.279 0.28662 0 0 0 0.27034 1 9729 9729 37.974 20.861 1 9207 3696 5947 5964 10619 10619 0.06618654548140057 HGYKKYLL 8 Unmodified _HGYKKYLL_ 0 0 0 nc|ENSG00000151239|Q12792-4|TWF1;ENSG00000151239|ENST00000395510|TWF1;nc|ENSG00000151239|Q12792-3|TWF1 nc|ENSG00000151239|Q12792-4|TWF1 nc|ENSG00000151239|Q12792-4|TWF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.2004089355469 3 341.19916 1020.57565 NaN NaN NaN NaN NaN NaN NaN 21.612 1 21.898 21.398 22.398 0.28662 0 0 0 0.55493 1 9779 9779 26.884 11.036 1 9208 3696 5947 5964 10620 10620 0.06618654548140057 HGYVKQSL 8 Unmodified _HGYVKQSL_ 0 0 0 ENSG00000115365|ENST00000450366|LANCL1 ENSG00000115365|ENST00000450366|LANCL1 ENSG00000115365|ENST00000450366|LANCL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.25482177734375 2 466.253434 930.492316 2.8085 0.0013095 -0.23972 -0.00011177 2.5688 0.0011977 466.2531920533905 13.923 0.10693 13.923 13.865 13.971 0 17 7 3 0 0 0 0.0084548 1 6117 6117 118.89 64.121 1 1548700 9209 1965 5948 5965 10621 10621 0.024289181002814075 HGYVKQSL 8 Unmodified _HGYVKQSL_ 0 0 0 ENSG00000115365|ENST00000450366|LANCL1 ENSG00000115365|ENST00000450366|LANCL1 ENSG00000115365|ENST00000450366|LANCL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.2547607421875 2 466.253434 930.492316 2.4368 0.0011362 -1.7687 -0.00082467 0.66812 0.00031151 466.25197964056747 13.127 0.19983 13.37 13.285 13.485 0.24346 31 14 3 0 0 0 0.05432 2 5707 5707;5756 64.236 28.192 1 1304600 9210 1965 5948 5965 10622;10623 10622 0.024289181002814075 HGYVKQSL 8 Unmodified _HGYVKQSL_ 0 0 0 ENSG00000115365|ENST00000450366|LANCL1 ENSG00000115365|ENST00000450366|LANCL1 ENSG00000115365|ENST00000450366|LANCL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.254638671875 2 466.253434 930.492316 2.1834 0.001018 -1.0986 -0.00051222 1.0848 0.00050579 466.2526028880444 13.092 0.25758 13.399 13.279 13.536 0.30727 35 13 4 0 0 0 0.0092728 1 5914 5914 107.19 61.166 1 1822800 9211 1965 5948 5965 10624 10624 0.024289181002814075 HGYVKQSL 8 Unmodified _HGYVKQSL_ 0 0 0 ENSG00000115365|ENST00000450366|LANCL1 ENSG00000115365|ENST00000450366|LANCL1 ENSG00000115365|ENST00000450366|LANCL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.254638671875 2 466.253434 930.492316 3.081 0.0014365 -0.669 -0.00031192 2.412 0.0011246 466.252787836024 12.82 0.20303 13.463 13.345 13.548 0.64272 7 5 2 0 0 0 0.046053 1 5774 5774 39.957 32.668 1 3145400 9212 1965 5948 5965 10625 10625 0.024289181002814075 HHCCCCPCCHC 11 Unmodified _HHCCCCPCCHC_ 0 0 0 ENSG00000197191|ENST00000650725|CYSRT1 ENSG00000197191|ENST00000650725|CYSRT1 ENSG00000197191|ENST00000650725|CYSRT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 624.9555053710938 2 624.659454 1247.30436 NaN NaN NaN NaN NaN NaN NaN 66.878 1 67.583 67.083 68.083 0.7047 0 0 0 1.0082 1 31730 31730 0 0 1 9213 5799 5949 5966 10626 10626 -0.3094045334162274 HHCCVNRG 8 Unmodified _HHCCVNRG_ 0 0 0 REV__nc|ENSG00000144381|P10809-2|HSPD1 REV__nc|ENSG00000144381|P10809-2|HSPD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.8652648925781 2 463.197613 924.380673 NaN NaN NaN NaN NaN NaN NaN 95.984 1 96.252 95.752 96.752 0.2675 0 0 0 0.99035 1 44103 44103 2.3027 1.5091 1 + 9214 16489 5950 5967 10627 10627 -0.08454162800160248 HHDSSTFT 8 Unmodified _HHDSSTFT_ 0 0 0 ENSG00000106397|ENST00000223127|PLOD3 ENSG00000106397|ENST00000223127|PLOD3 ENSG00000106397|ENST00000223127|PLOD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 311.1356506347656 3 311.134996 930.383159 NaN NaN NaN NaN NaN NaN NaN 69.905 1 70.161 69.661 70.661 0.25642 0 0 0 0.99035 1 32012 32012 1.8442 0 1 9215 1568 5951 5968 10628 10628 -0.08481712589843937 HHDSSTFT 8 Unmodified _HHDSSTFT_ 0 0 0 ENSG00000106397|ENST00000223127|PLOD3 ENSG00000106397|ENST00000223127|PLOD3 ENSG00000106397|ENST00000223127|PLOD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 311.13519287109375 3 311.134996 930.383159 NaN NaN NaN NaN NaN NaN NaN 63.496 1 64.154 63.654 64.654 0.65809 0 0 0 0.99035 1 29098 29098 1.8442 0 1 9216 1568 5951 5968 10629 10629 -0.08481712589843937 HHDVVACDF 9 Unmodified _HHDVVACDF_ 0 0 0 nc|ENSG00000109046|Q9Y6I7-4|WSB1;ENST00000467843.6_1_17:25636020-25639392:+|nuORF;nc|ENSG00000109046|Q9Y6I7-2|WSB1;ENSG00000109046|ENST00000262394|WSB1 nc|ENSG00000109046|Q9Y6I7-4|WSB1 nc|ENSG00000109046|Q9Y6I7-4|WSB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.7258911132812 2 521.724184 1041.43381 3.2189 0.0016794 0.14562 7.5975E-05 3.3645 0.0017554 521.7243111594676 15.267 0.43629 15.267 15.031 15.467 0 97 52 2 0 0 0 1.101 1 6666 6666 2.3027 1.5091 1 102040 9217 1663 5952 5969 10630 10630 -0.08524506536514309 HHEAIPIC 8 Unmodified _HHEAIPIC_ 0 0 0 ENSG00000264717|ENST00000576178|NPY4R2;ENSG00000204174|ENST00000374312|NPY4R ENSG00000264717|ENST00000576178|NPY4R2 ENSG00000264717|ENST00000576178|NPY4R2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 307.15362548828125 3 307.153334 918.438172 NaN NaN NaN NaN NaN NaN NaN 64.818 1 65.475 64.975 65.975 0.65672 0 0 0 0.99035 1 29714 29714 1.8442 0 1 9218 5988 5953 5970 10631 10631 -0.024309973229492243 HHFRKILIAM 10 Unmodified _HHFRKILIAM_ 0 0 0 REV__ENSG00000144452|ENST00000272895|ABCA12 REV__ENSG00000144452|ENST00000272895|ABCA12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5824890136719 3 422.581499 1264.72267 3.7637 0.0015905 0.033697 1.424E-05 3.7974 0.0016047 422.5814382082145 104.66 0.46444 104.98 104.81 105.28 0.31863 193 90 3 0 0 0 0.94217 1 48291 48291 0.15932 0 1 1187400 + 9219 12404 5954 5971 10632 10632 0.10089428161450087 HHFRKILIAM 10 Unmodified _HHFRKILIAM_ 0 0 0 REV__ENSG00000144452|ENST00000272895|ABCA12 REV__ENSG00000144452|ENST00000272895|ABCA12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.58306884765625 3 422.581499 1264.72267 3.1951 0.0013502 0.72147 0.00030488 3.9166 0.0016551 422.5816651782566 91.57 1.2504 92.232 91.621 92.871 0.66198 123 59 3 0 0 0 0.94217 5 41946 41946;42156;42203;42255;42317 0.15932 0 1 907500 + 9220 12404 5954 5971 10633;10634;10635;10636;10637 10633 0.10089428161450087 HHFRKILIAM 10 Unmodified _HHFRKILIAM_ 0 0 0 REV__ENSG00000144452|ENST00000272895|ABCA12 REV__ENSG00000144452|ENST00000272895|ABCA12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.5828857421875 3 422.581499 1264.72267 3.2252 0.0013629 0.26434 0.0001117 3.4895 0.0014746 422.5815009918258 104.71 0.39699 105.31 105.12 105.51 0.59885 141 60 3 0 0 0 0.94217 2 48326 48326;48368 0.15932 0.01943 1 1132800 + 9221 12404 5954 5971 10638;10639 10638 0.10089428161450087 HHGLVPQI 8 Unmodified _HHGLVPQI_ 0 0 0 ENSG00000010327|ENST00000321725|STAB1 ENSG00000010327|ENST00000321725|STAB1 ENSG00000010327|ENST00000321725|STAB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.75787353515625 2 450.756144 899.497735 3.131 0.0014113 0.70032 0.00031567 3.8313 0.001727 450.7563338978544 36.799 0.21786 37.429 37.248 37.466 0.62999 11 9 2 0 0 0 0.65723 1 16854 16854 9.3474 0 1 92630 9222 400 5955 5972 10640 10640 0.043966416827515786 HHGLVPQI 8 Unmodified _HHGLVPQI_ 0 0 0 ENSG00000010327|ENST00000321725|STAB1 ENSG00000010327|ENST00000321725|STAB1 ENSG00000010327|ENST00000321725|STAB1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 450.756144 899.497735 2.9833 0.0013448 1.0196 0.00045958 4.0029 0.0018043 450.7564301242885 37.376 0.18599 37.637 37.572 37.758 0.26083 0.10414 0.00013947 NaN 9.3474 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 179400 9223 400 5955 5972 0.043966416827515786 HHGNYDCFDMY 11 Unmodified _HHGNYDCFDMY_ 0 0 0 REV__LRP2|p.N4549Kfs*8|1|0.33|ENSG00000081479|chr2:169132655-169132655|A/-|frameshift_variant REV__LRP2|p.N4549Kfs*8|1|0.33|ENSG00000081479|chr2:169132655-169132655|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.8399963378906 3 467.837745 1400.49141 NaN NaN NaN NaN NaN NaN NaN 14.594 1 14.594 14.094 15.094 0 0 0 0 1.008 1 6432 6432 0.094841 0 1 + 9224 10609 5956 5973 10641 10641 -0.19282032393243753 HHIKQHLC 8 Unmodified _HHIKQHLC_ 0 0 0 REV__ZNF404|p.E527Dfs*25|1|0.44|ENSG00000176222|chr19:43872633-43872633|T/-|frameshift_variant REV__ZNF404|p.E527Dfs*25|1|0.44|ENSG00000176222|chr19:43872633-43872633|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.1805725097656 3 339.179994 1014.51815 NaN NaN NaN NaN NaN NaN NaN 79.103 1 79.764 79.264 80.264 0.66082 0 0 0 0.99035 1 36450 36450 1.8442 0 1 + 9225 13698 5957 5974 10642 10642 0.0114748907089961 HHKTHLWVIAL 11 Unmodified _HHKTHLWVIAL_ 0 0 0 REV__ENST00000423427.1_2_3:173114403-173322094:+|nuORF REV__ENST00000423427.1_2_3:173114403-173322094:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.4490966796875 4 339.44902 1353.76697 2.0791 0.00070574 0.83138 0.00028221 2.9104 0.00098795 339.4492440757583 69.21 0.34081 69.871 69.746 70.087 0.66071 50 23 3 0 0 0 0.13295 1 31820 31820 0.094841 0.011491 1 779010 + 9226 16191 5958 5975 10643 10643 0.1042415557926688 HHKTHLWVIAL 11 Unmodified _HHKTHLWVIAL_ 0 0 0 REV__ENST00000423427.1_2_3:173114403-173322094:+|nuORF REV__ENST00000423427.1_2_3:173114403-173322094:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 339.44902 1353.76697 2.5119 0.00085266 0.46582 0.00015812 2.9777 0.0010108 339.44902087269725 69.728 0.42773 69.982 69.781 70.209 0.25443 0.05556 -0.00023414 NaN 0.094841 52 26 3 NaN NaN NaN NaN 0 NaN NaN 0 752660 + 9227 16191 5958 5975 0.1042415557926688 HHLLHHYG 8 Unmodified _HHLLHHYG_ 0 0 0 ENST00000261167.6_1_12:14942052-14943608:-|nuORF ENST00000261167.6_1_12:14942052-14943608:-|nuORF ENST00000261167.6_1_12:14942052-14943608:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.26580810546875 2 507.256843 1012.49913 NaN NaN NaN NaN NaN NaN NaN 44.876 1 45.697 45.197 46.197 0.82075 0 0 0 0.99035 1 20437 20437 2.8892 0.31174 1 9228 6550 5959 5976 10644 10644 -0.006617242284846725 HHLQPPPWWHR 11 Unmodified _HHLQPPPWWHR_ 0 0 0 ENST00000588984.5_1_19:3751262-3752524:-|nuORF;ENST00000586991.1_1_19:3751262-3751582:-|nuORF ENST00000588984.5_1_19:3751262-3752524:-|nuORF ENST00000588984.5_1_19:3751262-3752524:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 497.5898742675781 3 497.589933 1489.74797 NaN NaN NaN NaN NaN NaN NaN 25.964 1 25.964 25.464 26.464 0 0 0 0 1.0082 1 11669 11669 0.094841 0 1 9229 9191 5960 5977 10645 10645 0.022686190081913082 HHLRKHLRWKL 11 Unmodified _HHLRKHLRWKL_ 0 0 0 ENST00000342992.10_3_2:179396097-179396157:-|nuORF ENST00000342992.10_3_2:179396097-179396157:-|nuORF ENST00000342992.10_3_2:179396097-179396157:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.9874267578125 4 381.735015 1522.91095 2.5749 0.00098293 1.4966 0.00057132 4.0715 0.0015543 381.73537532588387 49.846 0.5009 50.669 50.428 50.929 0.82285 48 23 3 0 0 0 0.13295 1 22691 22691 0.094841 0.094841 1 882320 9230 7085 5961 5978 10646 10646 0.17041422130046158 HHLRKHLRWKL 11 Unmodified _HHLRKHLRWKL_ 0 0 0 ENST00000342992.10_3_2:179396097-179396157:-|nuORF ENST00000342992.10_3_2:179396097-179396157:-|nuORF ENST00000342992.10_3_2:179396097-179396157:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.9872741699219 4 381.735015 1522.91095 2.8086 0.0010721 1.7059 0.0006512 4.5144 0.0017233 381.7353658468333 52.409 0.36863 52.672 52.455 52.824 0.26344 48 19 3 0 0 0 0.91391 1 23953 23953 0.08335 0.08335 1 1141600 9231 7085 5961 5978 10647 10647 0.17041422130046158 HHLRKHLRWKL 11 Unmodified _HHLRKHLRWKL_ 0 0 0 ENST00000342992.10_3_2:179396097-179396157:-|nuORF ENST00000342992.10_3_2:179396097-179396157:-|nuORF ENST00000342992.10_3_2:179396097-179396157:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 381.735015 1522.91095 2.7937 0.0010665 1.3777 0.00052591 4.1714 0.0015924 381.73538308646954 52.907 0.4137 52.907 52.698 53.112 0 0.15029 -3.5679E-05 NaN 0.08335 63 24 3 NaN NaN NaN NaN 0 NaN NaN 0 607880 9232 7085 5961 5978 0.17041422130046158 HHLRKHLRWKL 11 Unmodified _HHLRKHLRWKL_ 0 0 0 ENST00000342992.10_3_2:179396097-179396157:-|nuORF ENST00000342992.10_3_2:179396097-179396157:-|nuORF ENST00000342992.10_3_2:179396097-179396157:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 381.735015 1522.91095 2.0636 0.00078774 1.2416 0.00047396 3.3052 0.0012617 381.7353945562841 52.177 0.16496 52.988 52.869 53.034 0.81065 0.23082 -0.00024349 NaN 0.08335 14 9 3 NaN NaN NaN NaN 0 NaN NaN 0 237150 9233 7085 5961 5978 0.17041422130046158 HHLRKHLRWKL 11 Unmodified _HHLRKHLRWKL_ 0 0 0 ENST00000342992.10_3_2:179396097-179396157:-|nuORF ENST00000342992.10_3_2:179396097-179396157:-|nuORF ENST00000342992.10_3_2:179396097-179396157:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 381.735015 1522.91095 2.8086 0.0010721 1.7059 0.0006512 4.5144 0.0017233 381.7353658468333 52.409 0.36863 52.672 52.455 52.824 0.26344 -0.085076 0.00046547 NaN 0.08335 48 19 3 NaN NaN NaN NaN 0 NaN NaN 0 1141600 9234 7085 5961 5978 0.17041422130046158 HHLRKHLRWKL 11 Unmodified _HHLRKHLRWKL_ 0 0 0 ENST00000342992.10_3_2:179396097-179396157:-|nuORF ENST00000342992.10_3_2:179396097-179396157:-|nuORF ENST00000342992.10_3_2:179396097-179396157:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 381.735015 1522.91095 2.5611 0.00097767 1.3315 0.00050827 3.8926 0.0014859 381.7354122811009 51.799 0.57899 52.461 52.178 52.757 0.66198 -0.29603 -0.00010626 NaN 0.08335 40 31 2 NaN NaN NaN NaN 0 NaN NaN 0 449870 9235 7085 5961 5978 0.17041422130046158 HHLSEPDP 8 Unmodified _HHLSEPDP_ 0 0 0 REV__ENST00000265012.4_2_6:10586440-10586533:+|nuORF REV__ENST00000265012.4_2_6:10586440-10586533:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 311.14801025390625 3 311.147125 930.419545 NaN NaN NaN NaN NaN NaN NaN 57.873 1 58.542 58.042 59.042 0.66829 0 0 0 0.99035 1 26484 26484 1.8442 0 1 + 9236 15026 5962 5979 10648 10648 -0.04844835693154437 HHLVVPLLIRR 11 Unmodified _HHLVVPLLIRR_ 0 0 0 REV__DOCK3|p.N1302Rfs*23|1|0.22|ENSG00000088538|chr3:51341374-51341378|AACAA/-|frameshift_variant REV__DOCK3|p.N1302Rfs*23|1|0.22|ENSG00000088538|chr3:51341374-51341378|AACAA/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.3858642578125 4 338.971391 1351.85646 2.4502 0.00083055 1.2815 0.00043438 3.7317 0.0012649 339.2234232822159 48.933 0.11304 49.588 49.551 49.664 0.65524 5 3 2 0 0 0 0.13295 1 22393 22393 0.50596 0 1 172580 + 9237 10135 5963 5980 10649 10649 0.19460410258625416 HHMETEEEDD 10 Unmodified _HHMETEEEDD_ 0 0 0 nc|ENSG00000069020|O15021-2|MAST4;nc|ENSG00000069020|O15021-3|MAST4;nc|ENSG00000069020|O15021-6|MAST4;ENSG00000069020|ENST00000403625|MAST4;ENST00000485768.1_1_5:66437998-66438421:+|nuORF nc|ENSG00000069020|O15021-2|MAST4 nc|ENSG00000069020|O15021-2|MAST4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 635.9412231445312 2 636.227681 1270.44081 NaN NaN NaN NaN NaN NaN NaN 63.523 1 64.181 63.681 64.681 0.65809 0 0 0 0.99774 1 29110 29110 3.5965 1.098 1 9238 745 5964 5981 10650 10650 -0.1835928323725966 HHPALGVG 8 Unmodified _HHPALGVG_ 0 0 0 REV__nc|ENSG00000073614|P29375-2|KDM5A REV__nc|ENSG00000073614|P29375-2|KDM5A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.51861572265625 2 394.214112 786.413671 2.5928 0.0010221 1.8909 0.00074542 4.4837 0.0017675 394.214700420689 37.722 0.1957 38.517 38.419 38.614 0.79552 10 8 2 0 0 0 0.14333 1 17093 17093 0 0 1 262390 + 9239 10505 5965 5982 10651 10651 0.01192110585861883 HHPCRRCCRPF 11 Unmodified _HHPCRRCCRPF_ 0 0 0 REV__ENST00000542038.5_1_12:21654733-21661326:+|nuORF REV__ENST00000542038.5_1_12:21654733-21661326:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 706.3238525390625 2 706.323885 1410.63322 NaN NaN NaN NaN NaN NaN NaN 104.47 1 105.07 104.57 105.57 0.59885 0 0 0 1.0082 1 48271 48271 0 0 1 + 9240 17176 5966 5983 10652 10652 -0.05567473061273631 HHPEEPEG 8 Unmodified _HHPEEPEG_ 0 0 0 nc|ENSG00000132016|Q0VDD7-2|BRME1;ENSG00000132016|ENST00000586783|BRME1 nc|ENSG00000132016|Q0VDD7-2|BRME1 nc|ENSG00000132016|Q0VDD7-2|BRME1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 311.1349182128906 3 311.134996 930.383159 NaN NaN NaN NaN NaN NaN NaN 75.331 1 75.996 75.496 76.496 0.6644 0 0 0 0.99035 1 34702 34702 1.8442 0 1 9241 2680 5967 5984 10653 10653 -0.08481712589855306 HHRACLLR 8 Unmodified _HHRACLLR_ 0 0 0 nc|ENSG00000006534|P43353-2|ALDH3B1;ENSG00000006534|ENST00000342456|ALDH3B1 nc|ENSG00000006534|P43353-2|ALDH3B1 nc|ENSG00000006534|P43353-2|ALDH3B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 335.8559265136719 3 335.855622 1004.54504 1.789 0.00060084 0.26901 9.0349E-05 2.058 0.00069119 335.85580531485647 4.5275 0.3744 4.8924 4.7604 5.1348 0.36497 55 39 2 0 0 0 0.7471 1 2031 2031 0.40072 0.40072 1 45178 9242 350 5968 5985 10654 10654 0.04294597682098811 HHSDVYSS 8 Unmodified _HHSDVYSS_ 0 0 0 REV__nc|ENSG00000140009|Q92731-3|ESR2 REV__nc|ENSG00000140009|Q92731-3|ESR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 311.13519287109375 3 311.134996 930.383159 NaN NaN NaN NaN NaN NaN NaN 71.936 1 72.194 71.694 72.694 0.25786 0 0 0 0.99035 1 33009 33009 1.8442 0 1 + 9243 12227 5969 5986 10655 10655 -0.08481712589855306 HHTEWARLAL 10 Unmodified _HHTEWARLAL_ 0 0 0 ENST00000434206.1_1_3:43020805-43095327:+|nuORF;ENSG00000144649|ENST00000430121|GASK1A ENST00000434206.1_1_3:43020805-43095327:+|nuORF ENST00000434206.1_1_3:43020805-43095327:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 617.3289794921875 2 617.327996 1232.64144 3.0471 0.001881 -1.4357 -0.00088629 1.6114 0.00099475 617.3268966985446 54.272 0.32615 55.067 54.894 55.22 0.79552 36 19 2 0 0 0 0.4567 1 24746 24746 22.736 2.3217 1 394530 9244 7883 5970 5987 10656 10656 0.03442443723042743 HIDLEDES 8 Unmodified _HIDLEDES_ 0 0 0 ENSG00000204186|ENST00000374423|ZDBF2 ENSG00000204186|ENST00000374423|ZDBF2 ENSG00000204186|ENST00000374423|ZDBF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 479.2137451171875 2 479.211629 956.408705 3.1443 0.0015068 1.0094 0.00048371 4.1537 0.0019905 479.21198227009796 52.974 0.29247 52.974 52.819 53.112 0 20 15 2 0 0 0 0.5047 1 24256 24256 20.871 8.3397 1 347680 9245 5990 5971 5988 10657 10657 -0.07124282858080733 HIDLEDES 8 Unmodified _HIDLEDES_ 0 0 0 ENSG00000204186|ENST00000374423|ZDBF2 ENSG00000204186|ENST00000374423|ZDBF2 ENSG00000204186|ENST00000374423|ZDBF2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 479.211629 956.408705 2.5558 0.0012248 -0.28745 -0.00013775 2.2683 0.001087 479.21131154703687 51.956 0.15896 52.767 52.711 52.869 0.81065 -0.12692 -0.0011408 NaN 20.871 16 11 2 NaN NaN NaN NaN 0 NaN NaN 0 536210 9246 5990 5971 5988 -0.07124282858080733 HIDLEDES 8 Unmodified _HIDLEDES_ 0 0 0 ENSG00000204186|ENST00000374423|ZDBF2 ENSG00000204186|ENST00000374423|ZDBF2 ENSG00000204186|ENST00000374423|ZDBF2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 479.211629 956.408705 3.1022 0.0014866 1.4339 0.00068715 4.5362 0.0021738 479.2120469698839 52.657 0.21138 52.92 52.8 53.011 0.26345 0.026025 0.00050903 NaN 20.871 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 377620 9247 5990 5971 5988 -0.07124282858080733 HIDLEDES 8 Unmodified _HIDLEDES_ 0 0 0 ENSG00000204186|ENST00000374423|ZDBF2 ENSG00000204186|ENST00000374423|ZDBF2 ENSG00000204186|ENST00000374423|ZDBF2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 479.211629 956.408705 2.9333 0.0014057 1.2591 0.00060336 4.1924 0.002009 479.2121626302276 52.253 0.27151 52.915 52.778 53.049 0.66198 0.020681 0.00034144 NaN 20.871 16 11 2 NaN NaN NaN NaN 0 NaN NaN 0 189160 9248 5990 5971 5988 -0.07124282858080733 HIEQLARRLPA 11 Unmodified _HIEQLARRLPA_ 0 0 0 nc|ENSG00000111912|Q8NI08-7|NCOA7;nc|ENSG00000111912|Q8NI08-2|NCOA7;ENSG00000111912|ENST00000392477|NCOA7;nc|ENSG00000111912|Q8NI08-5|NCOA7 nc|ENSG00000111912|Q8NI08-7|NCOA7 nc|ENSG00000111912|Q8NI08-7|NCOA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 652.3838500976562 2 652.383303 1302.75205 NaN NaN NaN NaN NaN NaN NaN 72.446 1 73.15 72.65 73.65 0.70386 0 0 0 0.9645 1 34875 34875 10.074 3.8681 1 9249 1786 5972 5989 10658 10658 0.11278663711277659 HIESRTLAI 9 Unmodified _HIESRTLAI_ 0 0 0 ENSG00000147872|ENST00000276914|PLIN2 ENSG00000147872|ENST00000276914|PLIN2 ENSG00000147872|ENST00000276914|PLIN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.2996826171875 2 520.298373 1038.58219 3.3964 0.0017671 -0.531 -0.00027628 2.8654 0.0014908 520.2980416724049 30.244 0.19851 30.862 30.754 30.952 0.61737 11 8 2 0 0 0 0.099775 1 13888 13888 32.786 2.5609 1 477350 9250 3585 5973 5990 10659 10659 0.06444547708861137 HIESRTLAI 9 Unmodified _HIESRTLAI_ 0 0 0 ENSG00000147872|ENST00000276914|PLIN2 ENSG00000147872|ENST00000276914|PLIN2 ENSG00000147872|ENST00000276914|PLIN2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 520.298373 1038.58219 3.7938 0.0019739 -0.044064 -2.2927E-05 3.7497 0.001951 520.2980405750419 30.611 0.23877 30.867 30.76 30.999 0.25614 0.0027816 0.00017922 NaN 32.786 26 17 2 NaN NaN NaN NaN 0 NaN NaN 0 296910 9251 3585 5973 5990 0.06444547708861137 HIEYEWNLRQ 10 Unmodified _HIEYEWNLRQ_ 0 0 0 ASAP1|p.V703I|1|0.09|ENSG00000153317|chr8:130115693-130115693|C/T|missense_variant ASAP1|p.V703I|1|0.09|ENSG00000153317|chr8:130115693-130115693|C/T|missense_variant ASAP1|p.V703I|1|0.09|ENSG00000153317|chr8:130115693-130115693|C/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 694.448486328125 2 694.341301 1386.66805 NaN NaN NaN NaN NaN NaN NaN 73.435 1 73.435 72.935 73.935 0 0 0 0 0.96627 1 35801 35801 10.824 1.4408 1 9252 69 5974 5991 10660 10660 -0.009819121763030125 HIFILPRKRLI 11 Unmodified _HIFILPRKRLI_ 0 0 0 REV__ENSG00000119915|ENST00000370005|ELOVL3 REV__ENSG00000119915|ENST00000370005|ELOVL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 703.4617309570312 2 703.461356 1404.90816 NaN NaN NaN NaN NaN NaN NaN 60.289 1 61.038 60.538 61.538 0.74927 0 0 0 1.008 1 27790 27790 0.35063 0 1 + 9253 11520 5975 5992 10661 10661 0.22190153952556102 HIFLIKPLELG 11 Unmodified _HIFLIKPLELG_ 0 0 0 REV__ENST00000342992.10_3_2:179458001-179458124:-|nuORF REV__ENST00000342992.10_3_2:179458001-179458124:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 640.3955078125 2 640.392273 1278.76999 3.8794 0.0024843 0.91133 0.00058361 4.7907 0.003068 640.3927004764116 52.844 0.90569 53.107 52.824 53.73 0.26345 145 55 3 0 0 0 0.84422 3 24295 24295;24396;24442 4.897 2.1618 1 5890600 + 9254 15479 5976 5993 10662;10663;10664 10662 0.14175985913425393 HIFLIKPLELG 11 Unmodified _HIFLIKPLELG_ 0 0 0 REV__ENST00000342992.10_3_2:179458001-179458124:-|nuORF REV__ENST00000342992.10_3_2:179458001-179458124:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 640.3956298828125 2 640.392273 1278.76999 3.8167 0.0024442 1.3271 0.00084988 5.1438 0.0032941 640.392760895856 53.592 0.40958 53.857 53.552 53.962 0.26462 49 20 3 0 0 0 0.82535 1 24489 24489 5.7319 2.7366 1 3483400 + 9255 15479 5976 5993 10665 10665 0.14175985913425393 HIFLIKPLELG 11 Unmodified _HIFLIKPLELG_ 0 0 0 REV__ENST00000342992.10_3_2:179458001-179458124:-|nuORF REV__ENST00000342992.10_3_2:179458001-179458124:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 640.39501953125 2 640.392273 1278.76999 3.7417 0.0023962 1.0051 0.00064363 4.7468 0.0030398 640.3927736894027 52.756 0.78955 53.418 53.049 53.839 0.66198 115 41 3 0 0 0 0.84422 3 24101 24101;24151;24213 4.897 2.1618 1 10073000 + 9256 15479 5976 5993 10666;10667;10668 10666 0.14175985913425393 HIFLIKPLELG 11 Unmodified _HIFLIKPLELG_ 0 0 0 REV__ENST00000342992.10_3_2:179458001-179458124:-|nuORF REV__ENST00000342992.10_3_2:179458001-179458124:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 640.392273 1278.76999 3.8167 0.0024442 1.3271 0.00084988 5.1438 0.0032941 640.392760895856 53.592 0.40958 53.857 53.552 53.962 0.26462 -0.089749 0.00053854 NaN 5.7319 49 20 3 NaN NaN NaN NaN 0 NaN NaN 0 3483400 + 9257 15479 5976 5993 0.14175985913425393 HIFLLILRA 9 Unmodified _HIFLLILRA_ 0 0 0 nc|ENSG00000154767|Q01831-2|XPC;ENSG00000154767|ENST00000285021|XPC nc|ENSG00000154767|Q01831-2|XPC nc|ENSG00000154767|Q01831-2|XPC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.90753173828125 3 365.906088 1094.69644 2.4053 0.00088012 0.73414 0.00026863 3.1395 0.0011488 365.90670660615217 75.863 0.19762 76.12 76.022 76.219 0.25704 26 14 2 0 0 0 1.178 1 34951 34951 1.0715 1.0715 1 466610 9258 3839 5977 5994 10669 10669 0.15287482261624064 HIHQYKKHH 9 Unmodified _HIHQYKKHH_ 0 0 0 REV__nc|ENSG00000171163|Q9BU19-2|ZNF692 REV__nc|ENSG00000171163|Q9BU19-2|ZNF692 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.8891296386719 3 409.887979 1226.64211 NaN NaN NaN NaN NaN NaN NaN 13.498 1 14.144 13.644 14.644 0.64597 0 0 0 0.90699 1 6064 6064 0.96228 0.33545 1 + 9259 13480 5978 5995 10670 10670 0.03785283162756059 HIHVRDLR 8 Unmodified _HIHVRDLR_ 0 0 0 REV__ENSG00000172270|ENST00000333511|BSG REV__ENSG00000172270|ENST00000333511|BSG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.3057861328125 2 523.304324 1044.5941 3.5438 0.0018545 -0.049689 -2.6002E-05 3.4941 0.0018285 523.3042113717171 102.4 0.17698 103 102.93 103.1 0.59759 14 5 4 0 0 0 0.7471 1 47398 47398 0.79363 0 1 988800 + 9260 13543 5979 5996 10671 10671 0.07358209242693192 HIHVRDLR 8 Unmodified _HIHVRDLR_ 0 0 0 REV__ENSG00000172270|ENST00000333511|BSG REV__ENSG00000172270|ENST00000333511|BSG MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 523.304324 1044.5941 3.5438 0.0018545 -0.049689 -2.6002E-05 3.4941 0.0018285 523.3042113717171 102.4 0.17698 103 102.93 103.1 0.59759 0.071429 0.00011266 NaN 0.79363 14 5 4 NaN NaN NaN NaN 0 NaN NaN 0 988800 + 9261 13543 5979 5996 0.07358209242693192 HIIEHTTL 8 Unmodified _HIIEHTTL_ 0 0 0 REV__nc|ENSG00000213096|O75437-2|ZNF254 REV__nc|ENSG00000213096|O75437-2|ZNF254 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.3101501464844 2 482.266542 962.51853 3.2104 0.0015483 -0.52968 -0.00025545 2.6808 0.0012928 482.2662308927014 49.419 0.29579 50.074 49.95 50.246 0.65524 16 10 2 0 0 0 0.63544 1 22553 22553 11.114 1.767 1 382550 + 9262 14487 5980 5997 10672 10672 0.03577187271753246 HIKEKALM 8 Unmodified _HIKEKALM_ 0 0 0 ENSG00000184867|ENST00000356824|ARMCX2 ENSG00000184867|ENST00000356824|ARMCX2 ENSG00000184867|ENST00000356824|ARMCX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 323.8573303222656 3 323.856517 968.547722 2.2549 0.00073027 -0.0084261 -2.7288E-06 2.2465 0.00072755 323.8565165888843 13.214 0.19117 13.214 13.103 13.295 0 31 12 3 0 0 0 0.49519 1 5763 5763 21.537 3.3906 1 640530 9263 5465 5981 5998 10673 10673 0.06219008296386619 HIKEKALM 8 Unmodified _HIKEKALM_ 0 0 0 ENSG00000184867|ENST00000356824|ARMCX2 ENSG00000184867|ENST00000356824|ARMCX2 ENSG00000184867|ENST00000356824|ARMCX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 323.8571472167969 3 323.856517 968.547722 1.8842 0.0006102 0.31917 0.00010337 2.2033 0.00071357 323.85659411667666 12.82 0.088176 13.081 13.036 13.124 0.26154 12 6 2 0 0 0 0.31493 1 5579 5579 34.402 3.7652 1 818230 9264 5465 5981 5998 10674 10674 0.06219008296386619 HIKEKALM 8 Unmodified _HIKEKALM_ 0 0 0 ENSG00000184867|ENST00000356824|ARMCX2 ENSG00000184867|ENST00000356824|ARMCX2 ENSG00000184867|ENST00000356824|ARMCX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.85711669921875 3 323.856517 968.547722 1.6837 0.00054526 -0.054919 -1.7786E-05 1.6287 0.00052748 323.85661216776083 12.767 0.34422 13.075 12.996 13.34 0.30727 22 11 4 0 0 0 0.31493 1 5764 5764 34.402 3.7652 1 3685200 9265 5465 5981 5998 10675 10675 0.06219008296386619 HIKPHIDSV 9 Unmodified _HIKPHIDSV_ 0 0 0 nc|ENSG00000108828|Q99536-2|VAT1;nc|ENSG00000108828|Q99536-3|VAT1;ENSG00000108828|ENST00000355653|VAT1 nc|ENSG00000108828|Q99536-2|VAT1 nc|ENSG00000108828|Q99536-2|VAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 349.53326416015625 3 349.197819 1044.57163 NaN NaN NaN NaN NaN NaN NaN 12.94 1 13.582 13.082 14.082 0.64272 0 0 0 0.8911 1 5808 5808 5.7319 1.4026 1 9266 1652 5982 5999 10676 10676 0.05112565054423612 HIKRRGERR 9 Unmodified _HIKRRGERR_ 0 0 0 REV__ENST00000403821.6_2_12:57735146-57735218:-|nuORF REV__ENST00000403821.6_2_12:57735146-57735218:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.2478332519531 3 403.246278 1206.717 3.8228 0.0015415 -0.022021 -8.8798E-06 3.8008 0.0015327 403.2461308511828 99.925 0.16979 100.23 100.13 100.3 0.30835 25 7 5 0 0 0 1.1703 1 46188 46188 1.1933 0.41681 1 18019000 + 9267 16059 5983 6000 10677 10677 0.12191465693967984 HIKRYKAL 8 Unmodified _HIKRYKAL_ 0 0 0 REV__ENST00000472392.1_1_3:100058773-100064548:+|nuORF REV__ENST00000472392.1_1_3:100058773-100064548:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.2076110839844 3 343.550304 1027.62908 1.7524 0.00060204 -0.58276 -0.00020021 1.1697 0.00040184 343.55017057695017 12.558 0.14209 12.865 12.794 12.936 0.30727 10 4 3 0 0 0 0.62895 1 5678 5678 11.64 1.5664 1 9909000 + 9268 11314 5984 6001 10678 10678 0.11637452050649699 HIKTEALL 8 Unmodified _HIKTEALL_ 0 0 0 REV__ENST00000343411.7_1_16:84135452-84135485:-|nuORF REV__ENST00000343411.7_1_16:84135452-84135485:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 308.8564453125 3 308.855282 923.544017 NaN NaN NaN NaN NaN NaN NaN 33.284 1 33.284 32.784 33.784 0 0 0 0 0.86133 1 15078 15078 14.838 3.198 1 + 9269 15487 5985 6002 10679 10679 0.0791866179419003 HIKYFDNWY 9 Unmodified _HIKYFDNWY_ 0 0 0 REV__nc|ENSG00000165055|Q6P1Q9-2|METTL2B REV__nc|ENSG00000165055|Q6P1Q9-2|METTL2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 643.3063354492188 2 643.303655 1284.59276 3.6777 0.0023659 0.90894 0.00058472 4.5867 0.0029506 643.3043726016225 43.565 0.35591 43.835 43.628 43.984 0.27021 39 12 4 0 0 0 0.68285 1 19852 19852 9.3831 9.3831 1 5807800 + 9270 10672 5986 6003 10680 10680 -0.03815469636697344 HILFQKGMLKR 11 Unmodified _HILFQKGMLKR_ 0 0 0 nc|ENSG00000168016|O15050|TRANK1;ENSG00000168016|ENST00000645898|TRANK1 nc|ENSG00000168016|O15050|TRANK1 nc|ENSG00000168016|O15050|TRANK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.9107666015625 2 685.908099 1369.80165 4.1423 0.0028412 0.97008 0.00066539 5.1124 0.0035066 685.9086503027535 93.124 0.98734 93.769 93.171 94.158 0.64504 87 51 2 0 0 0 0.91068 1 42859 42859 1.3295 0.92882 1 850080 9271 4593 5987 6004 10681 10681 0.13153655395717578 HILFQKGMLKR 11 Unmodified _HILFQKGMLKR_ 0 0 0 nc|ENSG00000168016|O15050|TRANK1;ENSG00000168016|ENST00000645898|TRANK1 nc|ENSG00000168016|O15050|TRANK1 nc|ENSG00000168016|O15050|TRANK1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 685.908099 1369.80165 4.3936 0.0030136 0.85825 0.00058868 5.2519 0.0036023 685.908545510543 93.592 1.1827 93.847 93.255 94.437 0.25497 0.039136 -6.5506E-05 NaN 1.3295 94 57 2 NaN NaN NaN NaN 0 NaN NaN 0 715590 9272 4593 5987 6004 0.13153655395717578 HINEGETAM 9 Unmodified _HINEGETAM_ 0 0 0 nc|ENSG00000172270|P35613-3|BSG;nc|ENSG00000172270|P35613-4|BSG;nc|ENSG00000172270|P35613-2|BSG;ENSG00000172270|ENST00000333511|BSG nc|ENSG00000172270|P35613-3|BSG nc|ENSG00000172270|P35613-3|BSG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.22308349609375 2 501.221474 1000.42839 NaN NaN NaN NaN NaN NaN NaN 18.1 1 18.1 17.6 18.6 0 0 0 0 0.026167 1 8039 8039 62.573 22.623 1 9273 4865 5988 6005 10682 10682 -0.07180230118967756 HINKIIEMP 9 Unmodified _HINKIIEMP_ 0 0 0 ENSG00000188316|ENST00000341276|ENO4;nc|ENSG00000188316|A6NNW6-4|ENO4 ENSG00000188316|ENST00000341276|ENO4 ENSG00000188316|ENST00000341276|ENO4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 365.4624938964844 3 365.539077 1093.5954 2.4746 0.00090456 -0.13498 -4.934E-05 2.3396 0.00085522 365.53906228307994 36.07 0.36381 36.861 36.66 37.024 0.79131 19 13 2 0 0 0 0.11009 1 16278 16278 2.7352 2.7352 1 361430 9274 5665 5989 6006 10683 10683 0.05234662496582132 HIRDKLAAI 9 Unmodified _HIRDKLAAI_ 0 0 0 nc|ENSG00000111596|Q9NZN8-4|CNOT2;nc|ENSG00000111596|Q9NZN8-5|CNOT2;ENSG00000111596|ENST00000229195|CNOT2;nc|ENSG00000111596|Q9NZN8-3|CNOT2;nc|ENSG00000111596|Q9NZN8-2|CNOT2 nc|ENSG00000111596|Q9NZN8-4|CNOT2 nc|ENSG00000111596|Q9NZN8-4|CNOT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.54852294921875 3 346.213581 1035.61891 2.3724 0.00082136 -0.76526 -0.00026494 1.6071 0.00055641 346.2131757015911 23.001 0.15874 23.641 23.567 23.725 0.64051 33 24 2 0 0 0 0.097139 1 10498 10498 33.445 13.03 1 1074900 9275 1766 5990 6007 10684 10684 0.10252844325418664 HIRDRAHIL 9 Unmodified _HIRDRAHIL_ 0 0 0 ENSG00000089693|ENST00000203630|MLF2 ENSG00000089693|ENST00000203630|MLF2 ENSG00000089693|ENST00000203630|MLF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 377.5567321777344 3 377.55623 1129.64686 NaN NaN NaN NaN NaN NaN NaN 13.567 1 13.567 13.067 14.067 0 0 0 0 0.057174 1 5942 5942 51.415 18.63 1 9276 1048 5991 6008 10685 10685 0.08722167305518269 HIRDRAHIL 9 Unmodified _HIRDRAHIL_ 0 0 0 ENSG00000089693|ENST00000203630|MLF2 ENSG00000089693|ENST00000203630|MLF2 ENSG00000089693|ENST00000203630|MLF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 377.8916015625 3 377.55623 1129.64686 2.0382 0.00076952 -0.22152 -8.3635E-05 1.8166 0.00068588 377.55619863170836 12.804 0.15223 13.065 13.005 13.157 0.26154 24 11 3 0 0 0 0.044031 1 5563 5563 49.742 25.952 1 2766600 9277 1048 5991 6008 10686 10686 0.08722167305518269 HIRDRAHIL 9 Unmodified _HIRDRAHIL_ 0 0 0 ENSG00000089693|ENST00000203630|MLF2 ENSG00000089693|ENST00000203630|MLF2 ENSG00000089693|ENST00000203630|MLF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 377.5566101074219 3 377.55623 1129.64686 NaN NaN NaN NaN NaN NaN NaN 12.77 1 13.077 12.577 13.577 0.30727 0 0 0 0.12479 1 5762 5762 37.075 13.285 1 9278 1048 5991 6008 10687 10687 0.08722167305518269 HIRDRAHIL 9 Unmodified _HIRDRAHIL_ 0 0 0 ENSG00000089693|ENST00000203630|MLF2 ENSG00000089693|ENST00000203630|MLF2 ENSG00000089693|ENST00000203630|MLF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.55718994140625 3 377.55623 1129.64686 3.0035 0.001134 -0.57465 -0.00021696 2.4288 0.00091701 377.55607063663837 12.618 0.16859 13.261 13.176 13.345 0.64272 10 4 3 0 0 0 0.27615 1 5683 5683 18.373 7.5736 1 4721400 9279 1048 5991 6008 10688 10688 0.08722167305518269 HIRHKFFL 8 Unmodified _HIRHKFFL_ 0 0 0 ENSG00000114127|ENST00000392981|XRN1;nc|ENSG00000114127|Q8IZH2|XRN1;ENST00000472697.5_1_3:142095319-142144369:-|nuORF ENSG00000114127|ENST00000392981|XRN1 ENSG00000114127|ENST00000392981|XRN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.8858337402344 3 366.550416 1096.62942 2.7593 0.0010114 0.024418 8.9503E-06 2.7838 0.0010204 366.55046736272675 25.152 0.14672 25.42 25.375 25.522 0.26777 23 18 2 0 0 0 0.63902 1 11452 11452 10.824 8.3254 1 827300 9280 1891 5992 6009 10689 10689 0.08496871770512371 HIRKPVIK 8 Unmodified _HIRKPVIK_ 0 0 0 nc|ENSG00000135205|Q8IYE0-2|CCDC146;ENSG00000135205|ENST00000285871|CCDC146 nc|ENSG00000135205|Q8IYE0-2|CCDC146 nc|ENSG00000135205|Q8IYE0-2|CCDC146 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.8353576660156 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 26.185 1 26.964 26.464 27.464 0.7787 0 0 0 0.99035 1 11757 11757 4.756 0 1 9281 2853 5993 6010 10690 10690 0.15458042430327623 HISDIARNY 9 Unmodified _HISDIARNY_ 0 0 0 REV__ENSG00000104885|ENST00000398665|DOT1L REV__ENSG00000104885|ENST00000398665|DOT1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 363.8669738769531 3 363.520962 1087.54106 1.8611 0.00067656 0.37765 0.00013729 2.2388 0.00081384 363.5211776148764 12.36 0.044487 12.621 12.607 12.651 0.26154 7 5 2 0 0 0 0.55815 1 5347 5347 11.495 0 1 8814800 + 9282 11006 5994 6011 10691 10691 0.0007878666935994261 HISELHIHWRD 11 Unmodified _HISELHIHWRD_ 0 0 0 ENSG00000179195|ENST00000337815|ZNF664 ENSG00000179195|ENST00000337815|ZNF664 ENSG00000179195|ENST00000337815|ZNF664 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 721.866455078125 2 721.868017 1441.72148 NaN NaN NaN NaN NaN NaN NaN 81.034 1 81.034 80.534 81.534 0 0 0 0 0.98464 1 40327 40327 8.1555 0.54658 1 9283 5204 5995 6012 10692 10692 0.018288853262220073 HISNLEPEL 9 Unmodified _HISNLEPEL_ 0 0 0 ENST00000466982.1_1_10:102799195-102799339:+|nuORF;ENSG00000107819|ENST00000393459|SFXN3 ENST00000466982.1_1_10:102799195-102799339:+|nuORF ENST00000466982.1_1_10:102799195-102799339:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.2760009765625 2 526.274564 1050.53457 3.5287 0.0018571 0.16201 8.5264E-05 3.6908 0.0019424 526.274682984693 47.441 0.2422 47.704 47.505 47.747 0.26363 15 9 2 0 0 0 0.024388 1 21653 21653 62.573 26.446 1 419420 9284 1608 5996 6013 10693 10693 0.011328487180207958 HISNLEPEL 9 Unmodified _HISNLEPEL_ 0 0 0 ENST00000466982.1_1_10:102799195-102799339:+|nuORF;ENSG00000107819|ENST00000393459|SFXN3 ENST00000466982.1_1_10:102799195-102799339:+|nuORF ENST00000466982.1_1_10:102799195-102799339:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.2766723632812 2 526.274564 1050.53457 3.3424 0.001759 0.2319 0.00012204 3.5743 0.001881 526.2743377188866 46.8 0.21863 47.452 47.318 47.537 0.65219 14 6 3 0 0 0 0.0046538 1 21438 21438 92.491 50.652 1 557330 9285 1608 5996 6013 10694 10694 0.011328487180207958 HISQHHVSTH 10 Unmodified _HISQHHVSTH_ 0 0 0 REV__nc|ENSG00000172493|P51825|AFF1 REV__nc|ENSG00000172493|P51825|AFF1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.2161865234375 3 394.863611 1181.569 2.799 0.0011052 -0.07556 -2.9836E-05 2.7234 0.0010754 394.8637056874168 19.694 0.15119 19.986 19.895 20.046 0.29239 17 10 2 0 0 0 0.12676 1 8957 8957 3.5871 0 1 148930 + 9286 13551 5997 6014 10695 10695 -0.01451890350517715 HISVKQCLL 9 Unmodified _HISVKQCLL_ 0 0 0 ENSG00000110876|ENST00000550948|SELPLG;nc|ENSG00000110876|Q14242-2|SELPLG ENSG00000110876|ENST00000550948|SELPLG ENSG00000110876|ENST00000550948|SELPLG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.8709411621094 3 347.535555 1039.58484 2.0158 0.00070056 -1.0182 -0.00035385 0.99762 0.00034671 347.870110515953 13.288 0.54306 13.595 13.279 13.822 0.30727 67 36 3 0 0 0 0.68496 1 6036 6036 5.7319 1.4026 1 137170 9287 1733 5998 6015 10696 10696 0.06662679842179386 HITILLKWILL 11 Unmodified _HITILLKWILL_ 0 0 0 REV__nc|ENSG00000259207|P05106-2|ITGB3 REV__nc|ENSG00000259207|P05106-2|ITGB3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 455.3033142089844 3 454.967236 1361.87988 2.8404 0.0012923 1.4151 0.00064381 4.2554 0.0019361 454.96774351217545 38.356 0.35881 38.356 38.204 38.563 0 26 15 3 0 0 0 0.13295 1 17465 17465 0.50596 0.34663 1 853370 + 9288 14685 5999 6016 10697 10697 0.2134141125259248 HITNGQFVI 9 Unmodified _HITNGQFVI_ 0 0 0 REV__ENSG00000181333|ENST00000315765|HEPHL1 REV__ENSG00000181333|ENST00000315765|HEPHL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.7807006835938 2 514.779816 1027.54508 NaN NaN NaN NaN NaN NaN NaN 18.503 1 18.801 18.301 19.301 0.29753 0 0 0 0.82031 1 8390 8390 8.5933 2.2392 1 + 9289 13851 6000 6017 10698 10698 0.03240876163090434 HIVEKRVL 8 Unmodified _HIVEKRVL_ 0 0 0 ENSG00000143624|ENST00000318967|INTS3;nc|ENSG00000143624|Q68E01|INTS3;ENST00000491790.1_1_1:153733326-153733395:+|nuORF;nc|ENSG00000143624|Q68E01-3|INTS3 ENSG00000143624|ENST00000318967|INTS3 ENSG00000143624|ENST00000318967|INTS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.8234558105469 3 331.87831 992.613099 NaN NaN NaN NaN NaN NaN NaN 12.655 1 12.962 12.462 13.462 0.30727 0 0 0 0.20935 1 5710 5710 41.84 5.7126 1 9290 3383 6001 6018 10699 10699 0.11649745813758727 HIVLSPRQR 9 Unmodified _HIVLSPRQR_ 0 0 0 REV__ENSG00000173275|ENST00000339249|ZNF449 REV__ENSG00000173275|ENST00000339249|ZNF449 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.3346557617188 2 553.333082 1104.65161 4.0649 0.0022492 -1.1229 -0.00062133 2.942 0.0016279 553.3323549519359 91.982 0.8366 92.234 91.988 92.825 0.25254 111 41 4 0 0 0 1.1154 1 42293 42293 2.0598 1.3694 1 3503500 + 9291 13594 6002 6019 10700 10700 0.10347051448275124 HIVLSPRQR 9 Unmodified _HIVLSPRQR_ 0 0 0 REV__ENSG00000173275|ENST00000339249|ZNF449 REV__ENSG00000173275|ENST00000339249|ZNF449 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.3350830078125 2 553.333082 1104.65161 3.7014 0.0020481 -1.0256 -0.00056748 2.6759 0.0014806 553.3324941925989 91.565 0.87646 92.226 91.995 92.871 0.66198 122 43 4 0 0 0 0.95612 1 42126 42126 4.756 2.4533 1 4138000 + 9292 13594 6002 6019 10701 10701 0.10347051448275124 HIWEQWCWWPP 11 Unmodified _HIWEQWCWWPP_ 0 0 0 REV__ENST00000552329.1_3_12:102111123-102117010:+|nuORF REV__ENST00000552329.1_3_12:102111123-102117010:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 784.350830078125 2 784.350614 1566.68668 NaN NaN NaN NaN NaN NaN NaN 65.093 1 65.75 65.25 66.25 0.65672 0 0 0 1.0082 1 29842 29842 0 0 1 + 9293 17293 6003 6020 10702 10702 -0.07400073806093133 HIWKLDVV 8 Unmodified _HIWKLDVV_ 0 0 0 REV__nc|ENSG00000188596|Q96N23-2|CFAP54 REV__nc|ENSG00000188596|Q96N23-2|CFAP54 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.2012634277344 3 337.19916 1008.57565 NaN NaN NaN NaN NaN NaN NaN 79.355 1 79.606 79.106 80.106 0.25127 0 0 0 0.99035 1 36542 36542 1.6526 0 1 + 9294 14152 6004 6021 10703 10703 0.07170654548144739 HIYIYIYIDC 10 Unmodified _HIYIYIYIDC_ 0 0 0 REV__L1PB1_dup3128|chr4:69113520-69114297:-|1.5247760769272896|0.0367122813862255|5.38|530.0|5|1|sense REV__L1PB1_dup3128|chr4:69113520-69114297:-|1.5247760769272896|0.0367122813862255|5.38|530.0|5|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 658.323974609375 2 658.323199 1314.63185 3.6188 0.0023824 -1.0322 -0.00067952 2.5866 0.0017028 658.3223830071641 38.322 0.21939 38.586 38.471 38.69 0.26408 9 6 2 0 0 0 0.64255 1 17468 17468 15.847 0.5987 1 549270 + 9295 17803 6005 6022 10704 10704 -0.012885053973832328 HKAKHIRSIL 10 Unmodified _HKAKHIRSIL_ 0 0 0 REV__nc|ENSG00000132676|P51398-2|DAP3 REV__nc|ENSG00000132676|P51398-2|DAP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 601.9442138671875 2 601.877656 1201.74076 NaN NaN NaN NaN NaN NaN NaN 104.13 1 104.44 103.94 104.94 0.31863 0 0 0 1.0015 1 48113 48113 0.40072 0.050084 1 + 9296 17943 6006 6023 10705 10705 0.14795886407796388 HKAKVFCV 8 Unmodified _HKAKVFCV_ 0 0 0 ENST00000494720.5_1_2:219129258-219130297:-|nuORF;ENST00000475678.5_1_2:219129258-219130549:-|nuORF;ENSG00000127837|ENST00000248450|AAMP ENST00000494720.5_1_2:219129258-219130297:-|nuORF ENST00000494720.5_1_2:219129258-219130297:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 311.1788635253906 3 311.177591 930.510943 NaN NaN NaN NaN NaN NaN NaN 14.008 1 14.241 13.741 14.741 0.2337 0 0 0 0.92256 1 6146 6146 10.824 0 1 9297 2490 6007 6024 10706 10706 0.04290756470481938 HKARLIPS 8 Unmodified _HKARLIPS_ 0 0 0 REV__nc|ENSG00000145246|Q9P241-2|ATP10D REV__nc|ENSG00000145246|Q9P241-2|ATP10D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 461.28466796875 2 461.285069 920.555585 NaN NaN NaN NaN NaN NaN NaN 56.834 1 56.834 56.334 57.334 0 0 0 0 0.99035 1 26173 26173 2.3027 0 1 + 9298 12436 6008 6025 10707 10707 0.09212903608181477 HKCKLKVA 8 Unmodified _HKCKLKVA_ 0 0 0 REV__nc|ENSG00000170264|Q3B820-2|FAM161A REV__nc|ENSG00000170264|Q3B820-2|FAM161A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 309.5371398925781 3 309.52499 925.553142 NaN NaN NaN NaN NaN NaN NaN 37.298 1 38.094 37.594 38.594 0.79552 0 0 0 0.99035 1 16901 16901 0.45834 0 1 + 9299 13431 6009 6026 10708 10708 0.08738731878861472 HKESNEDLKVK 11 Unmodified _HKESNEDLKVK_ 0 0 0 REV__CDK12|p.S1017Ffs*5|1|0.07|ENSG00000167258|chr17:39520040-39520041|-/TTCTCAAATTTGTA|frameshift_variant REV__CDK12|p.S1017Ffs*5|1|0.07|ENSG00000167258|chr17:39520040-39520041|-/TTCTCAAATTTGTA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 663.8544921875 2 663.854241 1325.69393 NaN NaN NaN NaN NaN NaN NaN 34.231 1 34.231 33.731 34.731 0 0 0 0 0.99038 1 15514 15514 7.609 0.88579 1 + 9300 9998 6010 6027 10709 10709 0.04410937275292781 HKGISQAAR 9 Unmodified _HKGISQAAR_ 0 0 0 ENST00000454738.5_1_7:6456256-6487444:-|nuORF;ENST00000462934.5_1_7:6449470-6461666:-|nuORF;nc|ENSG00000164535|Q8NCG7-2|DAGLB;nc|ENSG00000164535|Q8NCG7-4|DAGLB;ENSG00000164535|ENST00000297056|DAGLB ENST00000454738.5_1_7:6456256-6487444:-|nuORF ENST00000454738.5_1_7:6456256-6487444:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.1867980957031 3 323.185914 966.535912 NaN NaN NaN NaN NaN NaN NaN 86.283 1 86.954 86.454 87.454 0.67061 0 0 0 0.91059 1 39734 39734 0.96228 0.0979 1 9301 4321 6011 6028 10710 10710 0.05130527597418677 HKGPKRKG 8 Unmodified _HKGPKRKG_ 0 0 0 REV__ENSG00000153930|ENST00000682825|ANKFN1 REV__ENSG00000153930|ENST00000682825|ANKFN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 303.19927978515625 3 303.190999 906.551168 NaN NaN NaN NaN NaN NaN NaN 44.752 1 44.752 44.252 45.252 0 0 0 0 0.99035 1 20462 20462 1.6526 1.1943 1 + 9302 12689 6012 6029 10711 10711 0.0941543918527259 HKGPKRKG 8 Unmodified _HKGPKRKG_ 0 0 0 REV__ENSG00000153930|ENST00000682825|ANKFN1 REV__ENSG00000153930|ENST00000682825|ANKFN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.1994323730469 3 303.190999 906.551168 NaN NaN NaN NaN NaN NaN NaN 43.214 1 43.863 43.363 44.363 0.64872 0 0 0 0.99035 1 19804 19804 1.6526 0 1 + 9303 12689 6012 6029 10712 10712 0.0941543918527259 HKGPTPMLL 9 Unmodified _HKGPTPMLL_ 0 0 0 REV__ENSG00000171094|ENST00000389048|ALK REV__ENSG00000171094|ENST00000389048|ALK MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.8877258300781 3 331.856517 992.547722 2.1633 0.00071792 0.30489 0.00010118 2.4682 0.0008191 331.8566574598042 25.578 0.35675 26.342 26.244 26.601 0.76356 26 23 2 0 0 0 0.11009 1 11545 11545 0.23584 0 1 248110 9304 13471 6013 6030 10713 10713 0.05115008296399992 HKHNLRHRY 9 Unmodified _HKHNLRHRY_ 0 0 0 ENSG00000163545|ENST00000367157|NUAK2 ENSG00000163545|ENST00000367157|NUAK2 ENSG00000163545|ENST00000367157|NUAK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 630.8468627929688 2 630.844679 1259.67481 NaN NaN NaN NaN NaN NaN NaN 102.93 1 103.53 103.03 104.03 0.59759 0 0 0 0.91238 1 47633 47633 0.52476 0.066424 1 9305 4223 6014 6031 10714 10714 0.05535490285592459 HKIICKLPKG 10 Unmodified _HKIICKLPKG_ 0 0 0 REV__ENSG00000100412|ENST00000216254|ACO2 REV__ENSG00000100412|ENST00000216254|ACO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.572265625 3 379.5706 1135.68997 2.9303 0.0011122 0.98758 0.00037486 3.9178 0.0014871 379.57099338237526 98.28 0.18041 98.879 98.814 98.995 0.59885 18 14 2 0 0 0 0.94246 1 45307 45307 0.13989 0.13989 1 1550000 + 9306 10829 6015 6032 10715 10715 0.12755221038537456 HKIICKLPKG 10 Unmodified _HKIICKLPKG_ 0 0 0 REV__ENSG00000100412|ENST00000216254|ACO2 REV__ENSG00000100412|ENST00000216254|ACO2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 379.5706 1135.68997 3.6292 0.0013776 1.4724 0.00055886 5.1016 0.0019364 379.5710091902224 98.314 0.16652 98.614 98.504 98.671 0.29987 -0.13248 0.0001793 NaN 0.13989 36 15 3 NaN NaN NaN NaN 0 NaN NaN 0 7274000 + 9307 10829 6015 6032 0.12755221038537456 HKIICKLPKG 10 Unmodified _HKIICKLPKG_ 0 0 0 REV__ENSG00000100412|ENST00000216254|ACO2 REV__ENSG00000100412|ENST00000216254|ACO2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 379.5706 1135.68997 2.9303 0.0011122 0.98758 0.00037486 3.9178 0.0014871 379.57099338237526 98.28 0.18041 98.879 98.814 98.995 0.59885 0.13248 -0.00037273 NaN 0.13989 18 14 2 NaN NaN NaN NaN 0 NaN NaN 0 1550000 + 9308 10829 6015 6032 0.12755221038537456 HKKIHTTT 8 Unmodified _HKKIHTTT_ 0 0 0 ENST00000354911.8_2_10:28822518-28879725:+|nuORF ENST00000354911.8_2_10:28822518-28879725:+|nuORF ENST00000354911.8_2_10:28822518-28879725:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.5235290527344 3 322.522414 964.545414 2.136 0.00068892 -0.13725 -4.4265E-05 1.9988 0.00064465 322.5223694851372 17.256 0.47268 17.56 17.206 17.679 0.30438 56 35 2 0 0 0 0.74071 1 7864 7864 1.6526 0.58116 1 83168 9309 7146 6016 6033 10716 10716 0.06172295882913659 HKKILELI 8 Unmodified _HKKILELI_ 0 0 0 REV__ENST00000464072.1_1_2:191843483-191848388:-|nuORF REV__ENST00000464072.1_1_2:191843483-191848388:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.88739013671875 3 331.886694 992.638252 2.434 0.00080781 0.040721 1.3515E-05 2.4747 0.00082132 331.88669476015 26.334 0.40004 26.599 26.426 26.826 0.26489 96 31 4 0 0 0 0.29255 2 11955 11955;12005 36.127 5.061 1 5570400 + 9310 11363 6017 6034 10717;10718 10717 0.14163800616313438 HKKIRRRRRRR 11 Unmodified _HKKIRRRRRRR_ 0 0 0 L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 809.5301513671875 2 809.532898 1617.05124 NaN NaN NaN NaN NaN NaN NaN 63.796 1 63.796 63.296 64.296 0 0 0 0 1.0082 1 30075 30075 0 0 1 9311 9436 6018 6035 10719 10719 0.2674001890698037 HKKKIQPRK 9 Unmodified _HKKKIQPRK_ 0 0 0 ENSG00000178804|ENST00000324382|H1-8 ENSG00000178804|ENST00000324382|H1-8 ENSG00000178804|ENST00000324382|H1-8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 388.24285888671875 3 388.255891 1161.74584 NaN NaN NaN NaN NaN NaN NaN 53.697 1 53.962 53.462 54.462 0.26462 0 0 0 0.91014 1 24558 24558 1.0715 0.56551 1 9312 5182 6019 6036 10720 10720 0.17144190270391846 HKKKIQPRK 9 Unmodified _HKKKIQPRK_ 0 0 0 ENSG00000178804|ENST00000324382|H1-8 ENSG00000178804|ENST00000324382|H1-8 ENSG00000178804|ENST00000324382|H1-8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 388.2426452636719 3 388.255891 1161.74584 NaN NaN NaN NaN NaN NaN NaN 54.063 1 54.328 53.828 54.828 0.26462 0 0 0 0.91014 1 24722 24722 1.0715 0 1 9313 5182 6019 6036 10721 10721 0.17144190270391846 HKKKIQPRK 9 Unmodified _HKKKIQPRK_ 0 0 0 ENSG00000178804|ENST00000324382|H1-8 ENSG00000178804|ENST00000324382|H1-8 ENSG00000178804|ENST00000324382|H1-8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 388.2425231933594 3 388.255891 1161.74584 NaN NaN NaN NaN NaN NaN NaN 53.147 1 53.812 53.312 54.312 0.6644 0 0 0 0.91014 1 24306 24306 1.0715 0.10919 1 9314 5182 6019 6036 10722 10722 0.17144190270391846 HKKKKKKKIKK 11 Unmodified _HKKKKKKKIKK_ 0 0 0 REV__RSBN1|p.N713Mfs*14|1|0.06|ENSG00000081019|chr1:113766251-113766252|-/GATATGTACATATTCAAACACA|frameshift_variant REV__RSBN1|p.N713Mfs*14|1|0.06|ENSG00000081019|chr1:113766251-113766252|-/GATATGTACATATTCAAACACA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 711.5126342773438 2 711.51138 1421.00821 NaN NaN NaN NaN NaN NaN NaN 58.36 1 58.36 57.86 58.86 0 0 0 0 1.0082 1 26930 26930 0 0 1 + 9315 10606 6020 6037 10723 10723 0.314543912863428 HKKKKKKKKP 10 Unmodified _HKKKKKKKKP_ 0 0 0 REV__ENSG00000105849|ENST00000222567|POLR1F REV__ENSG00000105849|ENST00000222567|POLR1F MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 426.7651672363281 3 426.634591 1276.88194 NaN NaN NaN NaN NaN NaN NaN 73.017 1 73.276 72.776 73.776 0.25876 0 0 0 1.0019 1 33529 33529 0.13989 0.04505 1 + 9316 11057 6021 6038 10724 10724 0.2545788478105351 HKKKKKKKKRH 11 Unmodified _HKKKKKKKKRH_ 0 0 0 ENST00000521713.1_1_7:6179681-6199085:+|nuORF;ENSG00000106346|ENST00000306177|USP42;nc|ENSG00000106346|Q9H9J4|USP42;ENST00000479544.6_1_7:6150764-6196715:+|nuORF ENST00000521713.1_1_7:6179681-6199085:+|nuORF ENST00000521713.1_1_7:6179681-6199085:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.1213073730469 3 492.003678 1472.9892 NaN NaN NaN NaN NaN NaN NaN 46.276 1 46.276 45.776 46.776 0 0 0 0 1.008 1 21177 21177 0.08335 0.08335 1 9317 1564 6022 6039 10725 10725 0.2716285471528863 HKKQLQLHI 9 Unmodified _HKKQLQLHI_ 0 0 0 REV__ENST00000457262.1_1_10:43062145-43062928:+|nuORF REV__ENST00000457262.1_1_10:43062145-43062928:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.2369689941406 3 382.236497 1143.68766 3.1333 0.0011977 -0.39347 -0.0001504 2.7398 0.0010473 382.2364251050236 6.6496 0.45556 7.2732 7.0427 7.4982 0.62357 107 41 3 0 0 0 0.89849 1 2952 2952 5.7319 0.83484 1 95435 + 9318 16458 6023 6040 10726 10726 0.12156508625139395 HKKVLLLI 8 Unmodified _HKKVLLLI_ 0 0 0 REV__nc|ENSG00000138764|Q16589-2|CCNG2 REV__nc|ENSG00000138764|Q16589-2|CCNG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 482.3404235839844 2 482.339313 962.664072 NaN NaN NaN NaN NaN NaN NaN 16.488 1 16.488 15.988 16.988 0 0 0 0 0.99035 1 7305 7305 0 0 1 + 9319 12189 6024 6041 10727 10727 0.18124694858624935 HKLKQRKPKLM 11 Unmodified _HKLKQRKPKLM_ 0 0 0 REV__ENST00000395468.8_1_14:55534598-55534688:+|nuORF REV__ENST00000395468.8_1_14:55534598-55534688:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.5469055175781 4 352.474875 1405.87039 2.5467 0.00089764 -0.38254 -0.00013484 2.1641 0.00076281 352.47460488875225 34.295 0.13398 34.549 34.474 34.608 0.25389 15 6 3 0 0 0 0.13295 1 15607 15607 1.1098 1.1098 1 970670 + 9320 15985 6025 6042 10728 10728 0.1836931969539819 HKLKQRKPKLM 11 Unmodified _HKLKQRKPKLM_ 0 0 0 REV__ENST00000395468.8_1_14:55534598-55534688:+|nuORF REV__ENST00000395468.8_1_14:55534598-55534688:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 352.474875 1405.87039 2.3567 0.00083067 -0.097748 -3.4454E-05 2.2589 0.00079622 352.47468559019876 33.958 0.21051 34.578 34.448 34.658 0.62031 0.014771 0.00022977 NaN 1.1098 17 10 2 NaN NaN NaN NaN 0 NaN NaN 0 545470 + 9321 15985 6025 6042 0.1836931969539819 HKLLVKKLLI 10 Unmodified _HKLLVKKLLI_ 0 0 0 REV__ENSG00000111254|ENST00000228850|AKAP3 REV__ENSG00000111254|ENST00000228850|AKAP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.956787109375 2 602.928826 1203.8431 NaN NaN NaN NaN NaN NaN NaN 97.196 1 97.267 96.767 97.767 0.070648 0 0 0 1.0015 1 51889 51889 0.40072 0.40072 1 + 9322 11226 6026 6043 10729 10729 0.24933159426700513 HKNKKKPL 8 Unmodified _HKNKKKPL_ 0 0 0 REV__ENSG00000131398|ENST00000477616|KCNC3;REV__nc|ENSG00000123575|Q6PEV8-2|FAM199X REV__ENSG00000131398|ENST00000477616|KCNC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.55157470703125 3 331.550304 991.629084 2.6572 0.00088101 1.1997 0.00039778 3.857 0.0012788 331.5506534188887 10.262 0.49419 10.895 10.665 11.16 0.63304 101 45 3 0 0 0 0.7471 1 4633 4633 1.6526 0.17072 1 136350 + 9323 11858;11620 6027 6044 10730 10730 0.13293452050652377 HKNQTIERL 9 Unmodified _HKNQTIERL_ 0 0 0 ENSG00000115274|ENST00000233331|INO80B ENSG00000115274|ENST00000233331|INO80B ENSG00000115274|ENST00000233331|INO80B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.2184143066406 3 380.215761 1137.62546 NaN NaN NaN NaN NaN NaN NaN 14.993 1 15.646 15.146 16.146 0.65356 0 0 0 0.90611 1 6751 6751 1.0715 0.29493 1 9324 1957 6028 6045 10731 10731 0.06214737486152444 HKQRMALIRK 10 Unmodified _HKQRMALIRK_ 0 0 0 nc|ENSG00000120656|Q16514-2|TAF12;ENSG00000120656|ENST00000373824|TAF12 nc|ENSG00000120656|Q16514-2|TAF12 nc|ENSG00000120656|Q16514-2|TAF12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 640.8904418945312 2 640.890241 1279.76593 NaN NaN NaN NaN NaN NaN NaN 66.944 1 67.194 66.694 67.694 0.2501 0 0 0 1.0003 1 30666 30666 1.4819 0 1 9325 2201 6029 6046 10732 10732 0.13723617938694588 HKRIALRMVL 10 Unmodified _HKRIALRMVL_ 0 0 0 nc|ENSG00000164707|Q9UKG4|SLC13A4;ENSG00000164707|ENST00000682651|SLC13A4 nc|ENSG00000164707|Q9UKG4|SLC13A4 nc|ENSG00000164707|Q9UKG4|SLC13A4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.7416076660156 3 412.928898 1235.76487 3.1192 0.001288 1.6444 0.00067903 4.7636 0.001967 413.26479147049736 20.497 0.24328 21.15 20.922 21.165 0.65346 27 19 2 0 0 0 0.12676 1 9262 9262 2.086 0.34373 1 143030 9326 4336 6030 6047 10733 10733 0.1564140356979351 HKRKRIMKER 10 Unmodified _HKRKRIMKER_ 0 0 0 ENSG00000108239|ENST00000225235|TBC1D12 ENSG00000108239|ENST00000225235|TBC1D12 ENSG00000108239|ENST00000225235|TBC1D12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 691.420654296875 2 691.419697 1380.82484 NaN NaN NaN NaN NaN NaN NaN 38.358 1 39.156 38.656 39.656 0.79762 0 0 0 1.0016 1 17374 17374 0.35063 0.043601 1 9327 1625 6031 6048 10734 10734 0.14966094233045624 HKTTLLELQKM 11 Unmodified _HKTTLLELQKM_ 0 0 0 nc|ENSG00000115464|Q70CQ2-2|USP34;ENSG00000115464|ENST00000398571|USP34;nc|ENSG00000115464|Q70CQ2-3|USP34 nc|ENSG00000115464|Q70CQ2-2|USP34 nc|ENSG00000115464|Q70CQ2-2|USP34 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 671.3812255859375 2 671.38158 1340.74861 NaN NaN NaN NaN NaN NaN NaN 90.836 1 90.836 90.336 91.336 0 0 0 0 0.99571 1 47828 47828 7.1017 0.89594 1 9328 1972 6032 6049 10735 10735 0.09186232822366946 HKVMLVIILPL 11 Unmodified _HKVMLVIILPL_ 0 0 0 REV__ENST00000438435.6_1_1:181003152-181006146:+|nuORF REV__ENST00000438435.6_1_1:181003152-181006146:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 638.41552734375 2 638.414694 1274.81484 NaN NaN NaN NaN NaN NaN NaN 87.282 1 87.532 87.032 88.032 0.24974 0 0 0 1.008 1 40173 40173 0.35063 0.35063 1 + 9329 12666 6033 6050 10736 10736 0.18842093455123177 HKVQETTRRWI 11 Unmodified _HKVQETTRRWI_ 0 0 0 ENST00000307602.8_1_8:42885180-42885507:+|nuORF ENST00000307602.8_1_8:42885180-42885507:+|nuORF ENST00000307602.8_1_8:42885180-42885507:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 727.3438110351562 2 727.404766 1452.79498 NaN NaN NaN NaN NaN NaN NaN 93.777 1 94.032 93.532 94.532 0.25497 0 0 0 1.0061 1 43099 43099 2.7352 0 1 9330 6845 6034 6051 10737 10737 0.08669433768704948 HLAFKRQV 8 Unmodified _HLAFKRQV_ 0 0 0 ENST00000576359.1_1_17:80616295-80616565:-|nuORF;ENST00000561781.1_1_16:675886-677619:+|nuORF;ENSG00000172476|ENST00000304236|RAB40A;ENSG00000141542|ENST00000571995|RAB40B;ENSG00000102128|ENST00000218249|RAB40AL;ENSG00000197562|ENST00000248139|RAB40C ENST00000576359.1_1_17:80616295-80616565:-|nuORF ENST00000576359.1_1_17:80616295-80616565:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 333.8826904296875 3 333.534654 997.582134 2.0443 0.00068186 2.3318 0.00077774 4.3762 0.0014596 333.53470668878276 13.358 0.10331 13.601 13.53 13.634 0.24346 10 7 2 0 0 0 0.14063 1 5826 5826 7.2892 0 1 119960 9331 1331 6035 6052 10738 10738 0.08324592499513983 HLAFKRQV 8 Unmodified _HLAFKRQV_ 0 0 0 ENST00000576359.1_1_17:80616295-80616565:-|nuORF;ENST00000561781.1_1_16:675886-677619:+|nuORF;ENSG00000172476|ENST00000304236|RAB40A;ENSG00000141542|ENST00000571995|RAB40B;ENSG00000102128|ENST00000218249|RAB40AL;ENSG00000197562|ENST00000248139|RAB40C ENST00000576359.1_1_17:80616295-80616565:-|nuORF ENST00000576359.1_1_17:80616295-80616565:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 333.534654 997.582134 1.9044 0.00063517 1.7603 0.00058711 3.6647 0.0012223 333.5349353176142 13.263 0.25976 13.57 13.426 13.686 0.30727 0.011834 0.00034621 NaN 7.2892 41 18 3 NaN NaN NaN NaN 0 NaN NaN 0 176560 9332 1331 6035 6052 0.08324592499513983 HLAKETRVS 9 Unmodified _HLAKETRVS_ 0 0 0 ENST00000481707.5_1_1:192127767-192130605:+|nuORF;ENSG00000150681|ENST00000367460|RGS18 ENST00000481707.5_1_1:192127767-192130605:+|nuORF ENST00000481707.5_1_1:192127767-192130605:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 347.5340576171875 3 347.533091 1039.57744 2.628 0.00091332 0.5136 0.00017849 3.1416 0.0010918 347.5332873653956 27.033 0.23831 27.033 26.902 27.14 0 30 13 3 0 0 0 0.54955 1 12176 12176 11.495 0 1 328790 9333 3673 6036 6053 10739 10739 0.05923663566090909 HLAVKHFSV 9 Unmodified _HLAVKHFSV_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;HSP90AB1|p.R449Pfs*5|1|0.33|ENSG00000096384|chr6:44251765-44251766|-/C|frameshift_variant;HSP90AB1|p.I483Hfs*7|1|0.32|ENSG00000096384|chr6:44251866-44251867|-/C|frameshift_variant;nc|ENSG00000224411|Q14568|HSP90AA2P;nc|ENSG00000205955|Q58FG0|HSP90AA5P;nc|ENSG00000183199|Q58FF7|HSP90AB3P;nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1;ENST00000554401.1_1_14:102549349-102551760:-|nuORF ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000183199|Q58FF7|HSP90AB3P;nc|ENSG00000080824|P07900-2|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 346.5350341796875 3 346.534543 1036.5818 NaN NaN NaN NaN NaN NaN NaN 24.578 1 25.314 24.814 25.814 0.73623 0 0 0 0.68339 1 11014 11014 13.042 9.1661 1 9334 1127;9778;913 6037 6054 10740 10740 0.06497172779654647 HLDQRRLL 8 Unmodified _HLDQRRLL_ 0 0 0 ENST00000607058.1_1_8:24771141-24771990:-|nuORF ENST00000607058.1_1_8:24771141-24771990:-|nuORF ENST00000607058.1_1_8:24771141-24771990:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.8785095214844 3 350.87708 1049.60941 2.6144 0.00091732 0.066556 2.3353E-05 2.6809 0.00094068 350.87708156687773 21.914 0.23587 21.914 21.794 22.03 0 33 19 2 0 0 0 0.68959 1 9809 9809 6.7232 1.8262 1 171000 9335 9333 6038 6055 10741 10741 0.08659076039884894 HLDQRRLL 8 Unmodified _HLDQRRLL_ 0 0 0 ENST00000607058.1_1_8:24771141-24771990:-|nuORF ENST00000607058.1_1_8:24771141-24771990:-|nuORF ENST00000607058.1_1_8:24771141-24771990:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.8776550292969 3 350.87708 1049.60941 2.5615 0.00089877 0.13595 4.7703E-05 2.6975 0.00094647 350.877137828453 20.842 0.2798 21.496 21.34 21.62 0.65346 33 19 2 0 0 0 0.70181 1 9447 9447 5.7319 1.5423 1 251920 9336 9333 6038 6055 10742 10742 0.08659076039884894 HLDVKLVPS 9 Unmodified _HLDVKLVPS_ 0 0 0 nc|ENSG00000058668|P23634-5|ATP2B4;nc|ENSG00000058668|P23634-4|ATP2B4;nc|ENSG00000058668|P23634-3|ATP2B4;nc|ENSG00000058668|P23634-2|ATP2B4;nc|ENSG00000058668|P23634-8|ATP2B4;nc|ENSG00000058668|P23634|ATP2B4 nc|ENSG00000058668|P23634-5|ATP2B4 nc|ENSG00000058668|P23634-5|ATP2B4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.2999572753906 2 504.297842 1006.58113 3.0957 0.0015612 0.64644 0.000326 3.7421 0.0018872 504.29818694230676 39.024 0.15816 39.024 38.942 39.1 0 9 5 2 0 0 0 0.46674 1 17725 17725 13.042 1.4022 1 307290 9337 9550 6039 6056 10743 10743 0.07810333339944009 HLDVKLVPS 9 Unmodified _HLDVKLVPS_ 0 0 0 nc|ENSG00000058668|P23634-5|ATP2B4;nc|ENSG00000058668|P23634-4|ATP2B4;nc|ENSG00000058668|P23634-3|ATP2B4;nc|ENSG00000058668|P23634-2|ATP2B4;nc|ENSG00000058668|P23634-8|ATP2B4;nc|ENSG00000058668|P23634|ATP2B4 nc|ENSG00000058668|P23634-5|ATP2B4 nc|ENSG00000058668|P23634-5|ATP2B4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 504.297842 1006.58113 3.0894 0.001558 -0.0087091 -4.392E-06 3.0807 0.0015536 504.29821909998725 37.943 0.20577 38.739 38.637 38.843 0.79552 -0.18115 -0.00049378 NaN 13.042 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 308520 9338 9550 6039 6056 0.07810333339944009 HLEEHLFCPYF 11 Unmodified _HLEEHLFCPYF_ 0 0 0 nc|ENSG00000244122|Q9HAW7-2|UGT1A7;ENSG00000244122|ENST00000373426|UGT1A7 nc|ENSG00000244122|Q9HAW7-2|UGT1A7 nc|ENSG00000244122|Q9HAW7-2|UGT1A7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 717.7708740234375 2 717.82918 1433.64381 NaN NaN NaN NaN NaN NaN NaN 72.297 1 73.001 72.501 73.501 0.70386 0 0 0 1.0034 1 34794 34794 6.2058 0 1 9339 6247 6040 6057 10744 10744 -0.05566888654175273 HLEEKKRKRKK 11 Unmodified _HLEEKKRKRKK_ 0 0 0 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.2349548339844 3 493.979198 1478.91576 2.8777 0.0014215 1.7694 0.00087403 4.6471 0.0022956 493.98050802489166 74.732 0.043526 74.991 74.959 75.002 0.25831 5 3 2 0 0 0 0.13295 1 34370 34370 0.50596 0.41111 1 423450 9340 683 6041 6058 10745 10745 0.19546261482128102 HLEKLYLRNRR 11 Unmodified _HLEKLYLRNRR_ 0 0 0 REV__ENST00000502490.1_1_5:14390521-14397340:+|nuORF REV__ENST00000502490.1_1_5:14390521-14397340:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.96343994140625 3 499.963548 1496.86881 NaN NaN NaN NaN NaN NaN NaN 106.01 1 106.61 106.11 107.11 0.59969 0 0 0 1.008 1 48955 48955 0.36667 0.22678 1 + 9341 16891 6042 6059 10746 10746 0.14025401930985026 HLESVKEIINE 11 Unmodified _HLESVKEIINE_ 0 0 0 ENSG00000283528|ENST00000636941|TCAF2C;nc|ENSG00000170379|A6NFQ2-3|TCAF2;nc|ENSG00000170379|A6NFQ2-2|TCAF2;ENSG00000170379|ENST00000684770|TCAF2 ENSG00000283528|ENST00000636941|TCAF2C ENSG00000283528|ENST00000636941|TCAF2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.571044921875 3 437.56987 1309.68778 3.0088 0.0013165 0.10023 4.3859E-05 3.109 0.0013604 437.5698485232526 22.054 0.3316 22.054 21.871 22.202 0 65 24 3 0 0 0 0.66009 1 9877 9877 7.0371 0.41363 1 819140 9342 4746 6043 6060 10747 10747 0.04532419043835034 HLFIKFVIF 9 Unmodified _HLFIKFVIF_ 0 0 0 REV__ENSG00000165182|ENST00000379211|CXorf58 REV__ENSG00000165182|ENST00000379211|CXorf58 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 582.3554077148438 2 582.35242 1162.69029 NaN NaN NaN NaN NaN NaN NaN 99.648 1 99.648 99.148 100.15 0 0 0 0 0.90228 1 54841 54841 5.2307 3.3864 1 + 9343 13144 6044 6061 10748 10748 0.11544964030076699 HLFLASILE 9 Unmodified _HLFLASILE_ 0 0 0 ENST00000557364.5_1_14:21899920-21899953:-|nuORF ENST00000557364.5_1_14:21899920-21899953:-|nuORF ENST00000557364.5_1_14:21899920-21899953:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.2054138183594 3 348.20257 1041.58588 NaN NaN NaN NaN NaN NaN NaN 12.803 1 13.446 12.946 13.946 0.64272 0 0 0 0.89315 1 5748 5748 2.9952 0 1 9344 8935 6045 6062 10749 10749 0.06675217482734297 HLFNLQKIHFL 11 Unmodified _HLFNLQKIHFL_ 0 0 0 REV__ENST00000535179.1_1_12:14619386-14628955:+|nuORF REV__ENST00000535179.1_1_12:14619386-14628955:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.60833740234375 3 470.60659 1408.79794 2.8923 0.0013611 0.33101 0.00015578 3.2233 0.0015169 470.6065623333013 54.738 0.74872 55.405 55.337 56.085 0.6665 58 36 3 0 0 0 0.88075 1 25174 25174 1.3296 0.82369 1 1481200 + 9345 17171 6046 6063 10750 10750 0.10989308893499583 HLFQKELAA 9 Unmodified _HLFQKELAA_ 0 0 0 ENSG00000117228|ENST00000370473|GBP1;ENST00000394662.2_1_1:89887573-89889825:+|nuORF ENSG00000117228|ENST00000370473|GBP1 ENSG00000117228|ENST00000370473|GBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.7971801757812 2 528.795466 1055.57638 3.5948 0.0019009 0.41667 0.00022034 4.0115 0.0021212 528.795663368831 30.466 0.31908 30.722 30.564 30.883 0.25614 26 16 2 0 0 0 0.41574 1 13846 13846 13.906 3.0821 1 308730 9346 2064 6047 6064 10751 10751 0.0508144919717779 HLFQKELAA 9 Unmodified _HLFQKELAA_ 0 0 0 ENSG00000117228|ENST00000370473|GBP1;ENST00000394662.2_1_1:89887573-89889825:+|nuORF ENSG00000117228|ENST00000370473|GBP1 ENSG00000117228|ENST00000370473|GBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.7977905273438 2 528.795466 1055.57638 3.2992 0.0017446 0.3223 0.00017043 3.6215 0.0019151 528.7954309170882 30.18 0.24948 30.797 30.673 30.923 0.61736 13 13 2 0 0 0 0.091193 1 13854 13854 34.932 21.89 1 412320 9347 2064 6047 6064 10752 10752 0.0508144919717779 HLFTRIPV 8 Unmodified _HLFTRIPV_ 0 0 0 nc|ENSG00000242802|O43299-3|AP5Z1;ENST00000477680.5_1_7:4815294-4829561:+|nuORF;nc|ENSG00000242802|O43299-2|AP5Z1;ENST00000496303.5_1_7:4815289-4829878:+|nuORF;ENSG00000242802|ENST00000649063|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.7972106933594 2 491.795269 981.575986 3.0719 0.0015107 1.5793 0.0007767 4.6512 0.0022874 491.7958923117878 43.289 0.25931 44.104 44.057 44.317 0.81444 40 18 3 0 0 0 0.71911 1 19744 19744 4.3292 1.7518 1 2865400 9348 6232 6048 6065 10753 10753 0.08446074267988024 HLFTRIPV 8 Unmodified _HLFTRIPV_ 0 0 0 nc|ENSG00000242802|O43299-3|AP5Z1;ENST00000477680.5_1_7:4815294-4829561:+|nuORF;nc|ENSG00000242802|O43299-2|AP5Z1;ENST00000496303.5_1_7:4815289-4829878:+|nuORF;ENSG00000242802|ENST00000649063|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.2001953125 3 328.199272 981.575986 2.2299 0.00073186 1.2714 0.00041727 3.5013 0.0011491 328.1996640712646 44.874 0.4064 45.695 45.484 45.891 0.82075 37 18 4 0 0 0 0.70799 1 20451 20451 3.5965 2.1146 1 477610 9349 6232 6048 6065 10754 10754 0.08446074267988024 HLFTRIPV 8 Unmodified _HLFTRIPV_ 0 0 0 nc|ENSG00000242802|O43299-3|AP5Z1;ENST00000477680.5_1_7:4815294-4829561:+|nuORF;nc|ENSG00000242802|O43299-2|AP5Z1;ENST00000496303.5_1_7:4815289-4829878:+|nuORF;ENSG00000242802|ENST00000649063|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7964782714844 2 491.795269 981.575986 3.0546 0.0015022 1.1289 0.0005552 4.1835 0.0020574 491.79579094563087 45.426 0.72413 45.694 45.205 45.93 0.26768 49 29 2 0 0 0 0.49219 1 20757 20757 21.747 9.2151 1 1692200 9350 6232 6048 6065 10755 10755 0.08446074267988024 HLFTRIPV 8 Unmodified _HLFTRIPV_ 0 0 0 nc|ENSG00000242802|O43299-3|AP5Z1;ENST00000477680.5_1_7:4815294-4829561:+|nuORF;nc|ENSG00000242802|O43299-2|AP5Z1;ENST00000496303.5_1_7:4815289-4829878:+|nuORF;ENSG00000242802|ENST00000649063|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.79718017578125 2 491.795269 981.575986 3.2921 0.001619 1.0381 0.00051055 4.3303 0.0021296 491.7957215533566 46.393 0.50193 46.659 46.449 46.951 0.26561 39 18 3 0 0 0 0.71911 1 21247 21247 4.3292 2.0265 1 1332700 9351 6232 6048 6065 10756 10756 0.08446074267988024 HLFTRIPV 8 Unmodified _HLFTRIPV_ 0 0 0 nc|ENSG00000242802|O43299-3|AP5Z1;ENST00000477680.5_1_7:4815294-4829561:+|nuORF;nc|ENSG00000242802|O43299-2|AP5Z1;ENST00000496303.5_1_7:4815289-4829878:+|nuORF;ENSG00000242802|ENST00000649063|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7973937988281 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 66.991 1 67.241 66.741 67.741 0.2501 0 0 0 0.967 1 30688 30688 7.9102 2.1497 1 9352 6232 6048 6065 10757 10757 0.08446074267988024 HLFTRIPV 8 Unmodified _HLFTRIPV_ 0 0 0 nc|ENSG00000242802|O43299-3|AP5Z1;ENST00000477680.5_1_7:4815294-4829561:+|nuORF;nc|ENSG00000242802|O43299-2|AP5Z1;ENST00000496303.5_1_7:4815289-4829878:+|nuORF;ENSG00000242802|ENST00000649063|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7977294921875 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 68.311 1 68.97 68.47 69.47 0.65924 0 0 0 0.99035 1 31313 31313 4.3292 2.0265 1 9353 6232 6048 6065 10758 10758 0.08446074267988024 HLFTRIPV 8 Unmodified _HLFTRIPV_ 0 0 0 nc|ENSG00000242802|O43299-3|AP5Z1;ENST00000477680.5_1_7:4815294-4829561:+|nuORF;nc|ENSG00000242802|O43299-2|AP5Z1;ENST00000496303.5_1_7:4815289-4829878:+|nuORF;ENSG00000242802|ENST00000649063|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.82525634765625 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 68.952 1 69.612 69.112 70.112 0.65924 0 0 0 0.99035 1 31608 31608 4.3292 0.38484 1 9354 6232 6048 6065 10759 10759 0.08446074267988024 HLFTRIPV 8 Unmodified _HLFTRIPV_ 0 0 0 nc|ENSG00000242802|O43299-3|AP5Z1;ENST00000477680.5_1_7:4815294-4829561:+|nuORF;nc|ENSG00000242802|O43299-2|AP5Z1;ENST00000496303.5_1_7:4815289-4829878:+|nuORF;ENSG00000242802|ENST00000649063|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.79827880859375 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 69.518 1 70.179 69.679 70.679 0.66071 0 0 0 0.99035 1 31870 31870 4.3292 2.0265 1 9355 6232 6048 6065 10760 10760 0.08446074267988024 HLFTRIPV 8 Unmodified _HLFTRIPV_ 0 0 0 nc|ENSG00000242802|O43299-3|AP5Z1;ENST00000477680.5_1_7:4815294-4829561:+|nuORF;nc|ENSG00000242802|O43299-2|AP5Z1;ENST00000496303.5_1_7:4815289-4829878:+|nuORF;ENSG00000242802|ENST00000649063|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 491.795269 981.575986 3.1083 0.0015286 2.0021 0.00098462 5.1104 0.0025133 491.79580888255066 44.885 0.25845 45.706 45.577 45.835 0.82075 -0.0062212 0.00053673 NaN 21.747 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 488510 9356 6232 6048 6065 0.08446074267988024 HLFTRIPV 8 Unmodified _HLFTRIPV_ 0 0 0 nc|ENSG00000242802|O43299-3|AP5Z1;ENST00000477680.5_1_7:4815294-4829561:+|nuORF;nc|ENSG00000242802|O43299-2|AP5Z1;ENST00000496303.5_1_7:4815289-4829878:+|nuORF;ENSG00000242802|ENST00000649063|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 491.795269 981.575986 3.4161 0.00168 1.6467 0.00080982 5.0627 0.0024898 491.79605320181315 45.087 0.60883 45.737 45.487 46.096 0.64998 0.024459 0.00018713 NaN 21.747 39 24 2 NaN NaN NaN NaN 0 NaN NaN 0 1140700 9357 6232 6048 6065 0.08446074267988024 HLGDRPIP 8 Unmodified _HLGDRPIP_ 0 0 0 nc|ENSG00000170638|Q9H4I3-2|TRABD;ENSG00000170638|ENST00000380909|TRABD;ENST00000463233.1_1_22:50624392-50636456:+|nuORF;ENST00000472677.1_1_22:50635751-50636018:+|nuORF nc|ENSG00000170638|Q9H4I3-2|TRABD nc|ENSG00000170638|Q9H4I3-2|TRABD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 452.7543640136719 2 452.753601 903.49265 NaN NaN NaN NaN NaN NaN NaN 18.359 1 19.02 18.52 19.52 0.66072 0 0 0 0.11481 1 8310 8310 50.855 2.5092 1 9358 4762 6049 6066 10761 10761 0.03704337820136061 HLGGKEYTL 9 Unmodified _HLGGKEYTL_ 0 0 0 nc|ENSG00000143839|P00797-2|REN;ENSG00000143839|ENST00000272190|REN nc|ENSG00000143839|P00797-2|REN nc|ENSG00000143839|P00797-2|REN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.27337646484375 2 509.271824 1016.5291 3.235 0.0016475 0.29799 0.00015176 3.533 0.0017993 509.2719372249257 21.899 0.32797 21.899 21.72 22.048 0 87 26 4 0 0 0 0.02812 2 9802 9802;9850 57.722 9.3761 1 1968700 9359 3396 6050 6067 10762;10763 10762 0.021491699262014663 HLGGKEYTL 9 Unmodified _HLGGKEYTL_ 0 0 0 nc|ENSG00000143839|P00797-2|REN;ENSG00000143839|ENST00000272190|REN nc|ENSG00000143839|P00797-2|REN nc|ENSG00000143839|P00797-2|REN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 509.2732238769531 2 509.271824 1016.5291 NaN NaN NaN NaN NaN NaN NaN 20.739 1 21.144 20.644 21.644 0.40533 0 0 0 0.024004 1 9208 9208 66.457 8.9853 1 9360 3396 6050 6067 10764 10764 0.021491699262014663 HLGGKEYTL 9 Unmodified _HLGGKEYTL_ 0 0 0 nc|ENSG00000143839|P00797-2|REN;ENSG00000143839|ENST00000272190|REN nc|ENSG00000143839|P00797-2|REN nc|ENSG00000143839|P00797-2|REN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.27264404296875 2 509.271824 1016.5291 NaN NaN NaN NaN NaN NaN NaN 20.918 1 21.205 20.705 21.705 0.28662 0 0 0 0.024004 1 9489 9489 66.457 8.9853 1 9361 3396 6050 6067 10765 10765 0.021491699262014663 HLGGKEYTL 9 Unmodified _HLGGKEYTL_ 0 0 0 nc|ENSG00000143839|P00797-2|REN;ENSG00000143839|ENST00000272190|REN nc|ENSG00000143839|P00797-2|REN nc|ENSG00000143839|P00797-2|REN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.2735595703125 2 509.271824 1016.5291 3.4357 0.0017497 0.05074 2.584E-05 3.4865 0.0017756 509.27184587625175 20.91 0.27521 21.564 21.377 21.652 0.65346 57 18 4 0 0 0 0.021401 2 9503 9450;9503 66.457 9.597 1 2460500 9362 3396 6050 6067 10766;10767 10767 0.021491699262014663 HLGVKVFSV 9 Unmodified _HLGVKVFSV_ 0 0 0 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.2969055175781 2 493.295102 984.575651 NaN NaN NaN NaN NaN NaN NaN 46.793 1 47.445 46.945 47.945 0.65219 0 0 0 0.24879 1 21430 21430 29.082 21.171 1 9363 3293 6051 6068 10768 10768 0.08274654548142735 HLHIHHVI 8 Unmodified _HLHIHHVI_ 0 0 0 nc|ENSG00000071054|O95819-4|MAP4K4;nc|ENSG00000071054|O95819|MAP4K4;nc|ENSG00000071054|O95819-5|MAP4K4;nc|ENSG00000071054|O95819-2|MAP4K4;nc|ENSG00000071054|O95819-6|MAP4K4;nc|ENSG00000071054|O95819-3|MAP4K4;ENSG00000071054|ENST00000324219|MAP4K4;ENST00000489490.1_1_2:102441786-102446061:+|nuORF;ENST00000476609.1_1_2:102441885-102476398:+|nuORF nc|ENSG00000071054|O95819-4|MAP4K4 nc|ENSG00000071054|O95819-4|MAP4K4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.8636779785156 3 335.862882 1004.56682 2.4178 0.00081204 0.80113 0.00026907 3.2189 0.0010811 335.86297473066696 13.539 0.30404 14.187 14.042 14.346 0.6482 47 20 4 0 0 0 0.5438 2 6051 6051;6099 18.135 5.6034 1 452040 9364 9558 6052 6069 10769;10770 10769 0.0647172570230623 HLHIHHVI 8 Unmodified _HLHIHHVI_ 0 0 0 nc|ENSG00000071054|O95819-4|MAP4K4;nc|ENSG00000071054|O95819|MAP4K4;nc|ENSG00000071054|O95819-5|MAP4K4;nc|ENSG00000071054|O95819-2|MAP4K4;nc|ENSG00000071054|O95819-6|MAP4K4;nc|ENSG00000071054|O95819-3|MAP4K4;ENSG00000071054|ENST00000324219|MAP4K4;ENST00000489490.1_1_2:102441786-102446061:+|nuORF;ENST00000476609.1_1_2:102441885-102476398:+|nuORF nc|ENSG00000071054|O95819-4|MAP4K4 nc|ENSG00000071054|O95819-4|MAP4K4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 335.862882 1004.56682 2.3188 0.00077879 0.64964 0.00021819 2.9684 0.00099698 335.8631543091885 14.401 0.18895 14.401 14.314 14.503 0 0.082691 0.00014967 NaN 18.135 15 11 2 NaN NaN NaN NaN 0 NaN NaN 0 188170 9365 9558 6052 6069 0.0647172570230623 HLHIHHVI 8 Unmodified _HLHIHHVI_ 0 0 0 nc|ENSG00000071054|O95819-4|MAP4K4;nc|ENSG00000071054|O95819|MAP4K4;nc|ENSG00000071054|O95819-5|MAP4K4;nc|ENSG00000071054|O95819-2|MAP4K4;nc|ENSG00000071054|O95819-6|MAP4K4;nc|ENSG00000071054|O95819-3|MAP4K4;ENSG00000071054|ENST00000324219|MAP4K4;ENST00000489490.1_1_2:102441786-102446061:+|nuORF;ENST00000476609.1_1_2:102441885-102476398:+|nuORF nc|ENSG00000071054|O95819-4|MAP4K4 nc|ENSG00000071054|O95819-4|MAP4K4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 335.862882 1004.56682 2.2715 0.00076291 -0.33069 -0.00011107 1.9408 0.00065185 335.8627923414618 14.141 0.19244 14.367 14.286 14.479 0.22622 0.048341 -0.0008381 NaN 18.135 26 16 2 NaN NaN NaN NaN 0 NaN NaN 0 194120 9366 9558 6052 6069 0.0647172570230623 HLHIKIKL 8 Unmodified _HLHIKIKL_ 0 0 0 ENST00000562813.1_1_16:56531612-56532525:-|nuORF;ENSG00000125124|ENST00000245157|BBS2 ENST00000562813.1_1_16:56531612-56532525:-|nuORF ENST00000562813.1_1_16:56531612-56532525:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.4795227050781 3 334.5588 1000.65457 2.4212 0.00081004 0.094185 3.151E-05 2.5154 0.00084155 334.5587500781433 29.899 0.14854 30.688 30.608 30.757 0.78921 23 13 2 0 0 0 0.14202 1 13471 13471 1.8442 1.3859 1 495250 9367 2388 6053 6070 10771 10771 0.15426926573059063 HLHIKIKL 8 Unmodified _HLHIKIKL_ 0 0 0 ENST00000562813.1_1_16:56531612-56532525:-|nuORF;ENSG00000125124|ENST00000245157|BBS2 ENST00000562813.1_1_16:56531612-56532525:-|nuORF ENST00000562813.1_1_16:56531612-56532525:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.55938720703125 3 334.5588 1000.65457 2.8015 0.00093726 0.2548 8.5246E-05 3.0563 0.0010225 334.55888210381437 30.527 0.37096 30.783 30.628 30.999 0.25614 46 23 2 0 0 0 0.045989 1 13932 13932 54.774 18.647 1 1261300 9368 2388 6053 6070 10772 10772 0.15426926573059063 HLHIKIKL 8 Unmodified _HLHIKIKL_ 0 0 0 ENST00000562813.1_1_16:56531612-56532525:-|nuORF;ENSG00000125124|ENST00000245157|BBS2 ENST00000562813.1_1_16:56531612-56532525:-|nuORF ENST00000562813.1_1_16:56531612-56532525:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.5596618652344 3 334.5588 1000.65457 2.321 0.00077652 0.38112 0.00012751 2.7022 0.00090403 334.55891844203194 30.203 0.26179 30.82 30.714 30.976 0.61737 20 11 2 0 0 0 0.017856 1 13876 13876 74.929 18.752 1 1345800 9369 2388 6053 6070 10773 10773 0.15426926573059063 HLIAAFWAPV 10 Unmodified _HLIAAFWAPV_ 0 0 0 ENSG00000185156|ENST00000329805|MFSD6L ENSG00000185156|ENST00000329805|MFSD6L ENSG00000185156|ENST00000329805|MFSD6L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.817138671875 2 562.816202 1123.61785 NaN NaN NaN NaN NaN NaN NaN 85.439 1 85.439 84.939 85.939 0 0 0 0 0.91994 1 43506 43506 18.135 3.2967 1 9370 5492 6054 6071 10774 10774 0.0609862995650019 HLIAIVKVLCV 11 Unmodified _HLIAIVKVLCV_ 0 0 0 REV__chr19:18402796-18427351|370|10.19|0.59|4.11|+|1|TE_info:LTR5B,LTR5B_dup345,ERVK,LTR,donor,+,18402468,18402796|None,SSBP4|4 REV__chr19:18402796-18427351|370|10.19|0.59|4.11|+|1|TE_info:LTR5B,LTR5B_dup345,ERVK,LTR,donor,+,18402468,18402796|None,SSBP4|4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 302.6953125 4 302.695335 1206.75224 1.8668 0.00056508 0.51111 0.00015471 2.3779 0.00071979 302.6949183661526 48.032 0.60571 48.032 47.758 48.364 0 74 31 4 0 0 0 0.91328 1 22110 22110 0.50596 0.27011 1 1022800 + 9371 10036 6055 6072 10775 10775 0.1571294738691904 HLIAIVKVLCV 11 Unmodified _HLIAIVKVLCV_ 0 0 0 REV__chr19:18402796-18427351|370|10.19|0.59|4.11|+|1|TE_info:LTR5B,LTR5B_dup345,ERVK,LTR,donor,+,18402468,18402796|None,SSBP4|4 REV__chr19:18402796-18427351|370|10.19|0.59|4.11|+|1|TE_info:LTR5B,LTR5B_dup345,ERVK,LTR,donor,+,18402468,18402796|None,SSBP4|4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 302.6954345703125 4 302.695335 1206.75224 2.1259 0.00064351 -0.58784 -0.00017794 1.5381 0.00046557 302.6949042195863 47.109 0.7111 47.938 47.468 48.179 0.82915 76 38 3 0 0 0 0.13295 1 21524 21524 0.50596 0.27011 1 679740 + 9372 10036 6055 6072 10776 10776 0.1571294738691904 HLIAIVKVLCV 11 Unmodified _HLIAIVKVLCV_ 0 0 0 REV__chr19:18402796-18427351|370|10.19|0.59|4.11|+|1|TE_info:LTR5B,LTR5B_dup345,ERVK,LTR,donor,+,18402468,18402796|None,SSBP4|4 REV__chr19:18402796-18427351|370|10.19|0.59|4.11|+|1|TE_info:LTR5B,LTR5B_dup345,ERVK,LTR,donor,+,18402468,18402796|None,SSBP4|4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 302.695335 1206.75224 1.8668 0.00056508 0.51111 0.00015471 2.3779 0.00071979 302.6949183661526 48.032 0.60571 48.032 47.758 48.364 0 0.046877 0.00084626 NaN 0.50596 74 31 4 NaN NaN NaN NaN 0 NaN NaN 0 1022800 + 9373 10036 6055 6072 0.1571294738691904 HLIFSKLH 8 Unmodified _HLIFSKLH_ 0 0 0 REV__ENST00000462285.5_1_1:63919396-63919471:-|nuORF REV__ENST00000462285.5_1_1:63919396-63919471:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.7974853515625 2 497.795269 993.575986 3.355 0.0016701 1.1846 0.00058968 4.5396 0.0022598 497.7957377620385 48.744 0.18515 49.006 48.902 49.088 0.26209 12 7 2 0 0 0 0.73686 1 22289 22289 2.8892 0 1 769820 + 9374 16503 6056 6073 10777 10777 0.0789407426799471 HLIFSKLH 8 Unmodified _HLIFSKLH_ 0 0 0 REV__ENST00000462285.5_1_1:63919396-63919471:-|nuORF REV__ENST00000462285.5_1_1:63919396-63919471:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 497.795269 993.575986 3.0288 0.0015077 1.3777 0.0006858 4.4065 0.0021935 497.79580503049743 49.255 0.15372 49.255 49.171 49.324 0 0.25433 -8.7698E-06 NaN 2.8892 9 5 2 NaN NaN NaN NaN 0 NaN NaN 0 486620 + 9375 16503 6056 6073 0.0789407426799471 HLIFSKLH 8 Unmodified _HLIFSKLH_ 0 0 0 REV__ENST00000462285.5_1_1:63919396-63919471:-|nuORF REV__ENST00000462285.5_1_1:63919396-63919471:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 497.795269 993.575986 3.0368 0.0015117 1.1085 0.00055182 4.1453 0.0020635 497.7954570321695 48.131 0.1545 48.96 48.829 48.983 0.82915 -0.040278 -0.00027672 NaN 2.8892 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 201530 + 9376 16503 6056 6073 0.0789407426799471 HLIFSKLH 8 Unmodified _HLIFSKLH_ 0 0 0 REV__ENST00000462285.5_1_1:63919396-63919471:-|nuORF REV__ENST00000462285.5_1_1:63919396-63919471:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 497.795269 993.575986 3.355 0.0016701 1.1846 0.00058968 4.5396 0.0022598 497.7957377620385 48.744 0.18515 49.006 48.902 49.088 0.26209 0.0050563 -0.000201 NaN 2.8892 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 769820 + 9377 16503 6056 6073 0.0789407426799471 HLIFSKLH 8 Unmodified _HLIFSKLH_ 0 0 0 REV__ENST00000462285.5_1_1:63919396-63919471:-|nuORF REV__ENST00000462285.5_1_1:63919396-63919471:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 497.795269 993.575986 3.3184 0.0016519 2.3771 0.0011833 5.6955 0.0028352 497.79621342848714 48.128 0.24538 48.782 48.652 48.897 0.65356 -0.21911 0.00098622 NaN 2.8892 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 237820 + 9378 16503 6056 6073 0.0789407426799471 HLILKIHFI 9 Unmodified _HLILKIHFI_ 0 0 0 HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|63|3|sense HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|63|3|sense HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|63|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 378.5795593261719 3 378.577972 1132.71209 2.569 0.00097256 0.80646 0.00030531 3.3755 0.0012779 378.5781961571665 44.238 0.45496 44.508 44.377 44.832 0.2694 67 27 3 0 0 0 1.2078 1 20280 20280 0.26902 0.26902 1 42042000 9379 9402 6057 6074 10778 10778 0.1510376877863564 HLILKIHFI 9 Unmodified _HLILKIHFI_ 0 0 0 HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|63|3|sense HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|63|3|sense HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|63|3|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 378.577972 1132.71209 2.348 0.00088891 1.4639 0.00055421 3.8119 0.0014431 378.57845559055477 43.481 0.40861 44.295 44.127 44.536 0.81444 -0.067899 0.00029392 NaN 0.26902 51 19 4 NaN NaN NaN NaN 0 NaN NaN 0 2851600 9380 9402 6057 6074 0.1510376877863564 HLILKIHFI 9 Unmodified _HLILKIHFI_ 0 0 0 HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|63|3|sense HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|63|3|sense HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|63|3|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 378.577972 1132.71209 2.8483 0.0010783 1.3267 0.00050227 4.1751 0.0015806 378.5783776866904 43.638 0.22473 44.287 44.172 44.397 0.64872 -0.076361 0.0001381 NaN 0.26902 51 16 4 NaN NaN NaN NaN 0 NaN NaN 0 24459000 9381 9402 6057 6074 0.1510376877863564 HLIRRKWS 8 Unmodified _HLIRRKWS_ 0 0 0 ENSG00000140470|ENST00000268070|ADAMTS17;ENST00000378898.8_1_15:100603866-100879329:-|nuORF ENSG00000140470|ENST00000268070|ADAMTS17 ENSG00000140470|ENST00000268070|ADAMTS17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.330810546875 2 548.330342 1094.64613 2.6159 0.0014344 -0.9838 -0.00053945 1.6321 0.00089492 548.3292184834347 77.939 0.508 78.5 78.228 78.736 0.56091 71 43 2 0 0 0 0.59268 2 37789 37789;37920 14.582 5.2343 1 2740000 9382 3201 6058 6075 10779;10780 10779 0.1025937265644643 HLITKPVL 8 Unmodified _HLITKPVL_ 0 0 0 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 460.80181884765625 2 460.80002 919.585488 2.7393 0.0012622 0.065713 3.0281E-05 2.805 0.0012925 460.7999769477107 34.264 0.25632 34.518 34.443 34.699 0.25389 28 12 3 0 0 0 0.0089417 1 15592 15592 111.29 26.015 1 2087200 9383 2962 6059 6076 10781 10781 0.12247842553506416 HLITKPVL 8 Unmodified _HLITKPVL_ 0 0 0 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 460.80181884765625 2 460.80002 919.585488 2.7618 0.0012727 0.21188 9.7634E-05 2.9737 0.0013703 460.8000926746863 33.786 0.36389 34.407 34.249 34.612 0.62031 43 18 3 0 0 0 0.0092008 2 15515 15461;15515 108 22.725 1 1971700 9384 2962 6059 6076 10782;10783 10783 0.12247842553506416 HLIVLIKMKL 10 Unmodified _HLIVLIKMKL_ 0 0 0 REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 302.955810546875 4 302.704432 1206.78862 2.2432 0.00067903 -0.86997 -0.00026334 1.3732 0.00041569 302.70404981785003 59.857 0.26582 60.116 60.013 60.279 0.2593 26 12 3 0 0 0 0.94364 1 27426 27426 0.15932 0.01943 1 765770 + 9385 14846 6060 6077 10784 10784 0.1934982428360854 HLIVLIKMKL 10 Unmodified _HLIVLIKMKL_ 0 0 0 REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.955810546875 4 302.704432 1206.78862 2.2001 0.00066597 -0.78341 -0.00023714 1.4167 0.00042883 302.9548960196969 57.066 0.37962 57.735 57.507 57.887 0.66829 37 17 3 0 0 0 0.94364 2 26094 26094;26152 0.15932 0.01943 1 2241600 + 9386 14846 6060 6077 10785;10786 10785 0.1934982428360854 HLIVLIKMKL 10 Unmodified _HLIVLIKMKL_ 0 0 0 REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.70489501953125 4 302.704432 1206.78862 2.1504 0.00065095 -0.70404 -0.00021311 1.4464 0.00043783 302.70412117100267 58.704 0.30453 59.371 59.217 59.521 0.66703 27 11 4 0 0 0 0.94364 1 26885 26885 0.15932 0.15932 1 1199500 + 9387 14846 6060 6077 10787 10787 0.1934982428360854 HLIVLIKMKL 10 Unmodified _HLIVLIKMKL_ 0 0 0 REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.955810546875 4 302.704432 1206.78862 2.2001 0.00066597 -0.78341 -0.00023714 1.4167 0.00042883 302.9548960196969 57.066 0.37962 57.735 57.507 57.887 0.66829 37 17 3 0 0 0 0.12676 1 26094 26094 0.15932 0.15932 1 2241600 + 9388 14846 6060 6077 10788 10788 0.1934982428360854 HLIVLIKMKL 10 Unmodified _HLIVLIKMKL_ 0 0 0 REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 302.704432 1206.78862 1.951 0.00059057 -1.2159 -0.00036806 0.73507 0.00022251 302.70394471910964 57.84 0.20164 57.84 57.745 57.947 0 -0.011297 0.00013355 NaN 0.15932 46 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1530800 + 9389 14846 6060 6077 0.1934982428360854 HLIVLIKMKL 10 Unmodified _HLIVLIKMKL_ 0 0 0 REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 302.704432 1206.78862 1.993 0.0006033 -1.612 -0.00048795 0.38108 0.00011535 302.70386690079846 57.238 0.21887 58.007 57.888 58.106 0.76861 0.1552 -0.00034598 NaN 0.15932 48 22 3 NaN NaN NaN NaN 0 NaN NaN 0 955010 + 9390 14846 6060 6077 0.1934982428360854 HLIVLIKMKL 10 Unmodified _HLIVLIKMKL_ 0 0 0 REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 302.704432 1206.78862 1.9473 0.00058945 -2.4796 -0.00075059 -0.53233 -0.00016114 302.9543790748859 58.921 0.033009 59.68 59.657 59.69 0.75894 0.11016 -0.0015545 NaN 0.15932 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1145400 + 9391 14846 6060 6077 0.1934982428360854 HLIVLIKMKL 10 Unmodified _HLIVLIKMKL_ 0 0 0 REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 302.704432 1206.78862 2.1614 0.00065428 -1.5563 -0.00047109 0.60518 0.00018319 302.7038459423414 57.56 0.31485 57.825 57.71 58.025 0.26444 -0.026928 -0.00027854 NaN 0.15932 56 19 4 NaN NaN NaN NaN 0 NaN NaN 0 1716200 + 9392 14846 6060 6077 0.1934982428360854 HLIVLIKMKL 10 Unmodified _HLIVLIKMKL_ 0 0 0 REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 302.704432 1206.78862 2.2227 0.00067283 -1.4484 -0.00043844 0.77429 0.00023438 302.7038275131202 59.4 0.2496 59.66 59.518 59.768 0.2593 0.089322 -0.00030597 NaN 0.15932 20 9 3 NaN NaN NaN NaN 0 NaN NaN 0 1040700 + 9393 14846 6060 6077 0.1934982428360854 HLIVLIKMKL 10 Unmodified _HLIVLIKMKL_ 0 0 0 REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF REV__ENST00000229179.8_1_12:69082797-69084434:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 302.704432 1206.78862 2.1504 0.00065095 -0.70404 -0.00021311 1.4464 0.00043783 302.70412117100267 58.704 0.30453 59.371 59.217 59.521 0.66703 -0.19948 0.00059535 NaN 0.15932 27 11 4 NaN NaN NaN NaN 0 NaN NaN 0 1199500 + 9394 14846 6060 6077 0.1934982428360854 HLKALTSEL 9 Unmodified _HLKALTSEL_ 0 0 0 ENSG00000147065|ENST00000360270|MSN;ENST00000511640.1_1_5:25910858-25911257:+|nuORF ENSG00000147065|ENST00000360270|MSN ENSG00000147065|ENST00000360270|MSN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.2967834472656 2 506.295299 1010.57605 3.2027 0.0016215 -0.080536 -4.0775E-05 3.1222 0.0015807 506.29508589764697 35.214 0.36247 35.469 35.32 35.683 0.25524 33 15 3 0 0 0 0.0020791 2 16028 16028;16088 103.35 51.724 1 1288800 9395 3543 6061 6078 10789;10790 10789 0.07118029477317123 HLKALTSEL 9 Unmodified _HLKALTSEL_ 0 0 0 ENSG00000147065|ENST00000360270|MSN;ENST00000511640.1_1_5:25910858-25911257:+|nuORF ENSG00000147065|ENST00000360270|MSN ENSG00000147065|ENST00000360270|MSN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.2966613769531 2 506.295299 1010.57605 NaN NaN NaN NaN NaN NaN NaN 34.803 1 35.426 34.926 35.926 0.62294 0 0 0 0.00077239 1 15946 15946 99.755 37.183 1 9396 3543 6061 6078 10791 10791 0.07118029477317123 HLKAPKISM 9 Unmodified _HLKAPKISM_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 342.20458984375 3 342.203917 1023.58992 2.2717 0.00077739 0.18938 6.4805E-05 2.4611 0.00084219 342.20391818600456 26.104 0.34793 26.729 26.54 26.888 0.62505 36 24 2 0 0 0 0.10043 1 11979 11979 9.544 5.6676 1 477820 9397 2385 6062 6079 10792 10792 0.07906983704788217 HLKAPKISM 9 Unmodified _HLKAPKISM_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 342.203917 1023.58992 2.4976 0.00085467 -0.069177 -2.3673E-05 2.4284 0.000831 342.20379791547055 26.487 0.40594 26.752 26.461 26.867 0.26489 0.011222 -0.00012697 NaN 18.373 50 31 2 NaN NaN NaN NaN 0 NaN NaN 0 234790 9398 2385 6062 6079 0.07906983704788217 HLKAVKMTL 9 Unmodified _HLKAVKMTL_ 0 0 0 ENSG00000167088|ENST00000300413|SNRPD1 ENSG00000167088|ENST00000300413|SNRPD1 ENSG00000167088|ENST00000300413|SNRPD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 347.54718017578125 3 347.547684 1039.62122 2.6365 0.0009163 -0.17715 -6.1567E-05 2.4593 0.00085473 347.5474535310777 27.099 0.20879 27.099 27.001 27.21 0 25 12 3 0 0 0 0.55815 1 12195 12195 11.495 6.1978 1 232680 9399 4529 6063 6080 10793 10793 0.10299556738868887 HLKAVKMTL 9 Unmodified _HLKAVKMTL_ 0 0 0 ENSG00000167088|ENST00000300413|SNRPD1 ENSG00000167088|ENST00000300413|SNRPD1 ENSG00000167088|ENST00000300413|SNRPD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 347.54901123046875 3 347.547684 1039.62122 2.2874 0.00079498 0.29573 0.00010278 2.5831 0.00089776 347.54776604763157 26.227 0.1434 27.006 26.882 27.025 0.7787 18 9 2 0 0 0 0.72052 1 11774 11774 8.7454 0.83525 1 181690 9400 4529 6063 6080 10794 10794 0.10299556738868887 HLKAVKMTL 9 Unmodified _HLKAVKMTL_ 0 0 0 ENSG00000167088|ENST00000300413|SNRPD1 ENSG00000167088|ENST00000300413|SNRPD1 ENSG00000167088|ENST00000300413|SNRPD1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.53411865234375 3 347.547684 1039.62122 2.4981 0.0008682 -0.44646 -0.00015517 2.0516 0.00071304 347.54761598417133 26.786 0.22363 27.05 26.952 27.176 0.26489 29 13 3 0 0 0 0.094207 1 12192 12192 17.443 17.443 1 434930 9401 4529 6063 6080 10795 10795 0.10299556738868887 HLKAVKMTL 9 Unmodified _HLKAVKMTL_ 0 0 0 ENSG00000167088|ENST00000300413|SNRPD1 ENSG00000167088|ENST00000300413|SNRPD1 ENSG00000167088|ENST00000300413|SNRPD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.5489807128906 3 347.547684 1039.62122 2.3155 0.00080475 -0.26484 -9.2044E-05 2.0507 0.0007127 347.547654606356 26.436 0.24187 27.061 26.91 27.152 0.62505 22 12 2 0 0 0 0.5141 1 12131 12131 12.241 7.9114 1 419330 9402 4529 6063 6080 10796 10796 0.10299556738868887 HLKFLNVL 8 Unmodified _HLKFLNVL_ 0 0 0 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.3074951171875 2 492.30547 982.596387 2.8141 0.0013854 0.80631 0.00039695 3.6205 0.0017824 492.30602171294635 61.168 0.19976 61.168 61.054 61.254 0 34 18 3 0 0 0 0.056325 1 28512 28512 63.563 20.595 1 1641500 9403 3527 6064 6081 10797 10797 0.10439244927806612 HLKFLNVL 8 Unmodified _HLKFLNVL_ 0 0 0 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.8087158203125 2 492.30547 982.596387 3.195 0.0015729 0.18595 9.1544E-05 3.381 0.0016645 492.3055260633938 61.16 0.45231 61.413 61.224 61.676 0.25245 65 21 4 0 0 0 0.025999 3 27976 27976;28028;28093 81.864 31.446 1 7432800 9404 3527 6064 6081 10798;10799;10800 10798 0.10439244927806612 HLKFLNVL 8 Unmodified _HLKFLNVL_ 0 0 0 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.3069152832031 2 492.30547 982.596387 3.2124 0.0015815 -0.451 -0.00022203 2.7614 0.0013594 492.30514303408347 60.515 0.46112 61.178 60.957 61.418 0.66261 62 23 4 0 0 0 0.037436 3 27718 27671;27718;27763 70.716 17.366 1 8051600 9405 3527 6064 6081 10801;10802;10803 10802 0.10439244927806612 HLKILFRKRKF 11 Unmodified _HLKILFRKRKF_ 0 0 0 REV__ENSG00000006607|ENST00000264042|FARP2 REV__ENSG00000006607|ENST00000264042|FARP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.98858642578125 3 495.989146 1484.94561 NaN NaN NaN NaN NaN NaN NaN 62.355 1 62.355 61.855 62.855 0 0 0 0 1.008 1 29216 29216 0.45452 0.35968 1 + 9406 10192 6065 6082 10804 10804 0.22253245218144002 HLKKIRKFW 9 Unmodified _HLKKIRKFW_ 0 0 0 ENST00000340535.11_1_1:222824030-222824207:+|nuORF ENST00000340535.11_1_1:222824030-222824207:+|nuORF ENST00000340535.11_1_1:222824030-222824207:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 314.21820068359375 4 314.700109 1254.77133 2.146 0.00067535 0.92712 0.00029177 3.0731 0.00096712 314.7003851949924 36.949 0.37318 37.579 37.466 37.839 0.62999 21 15 2 0 0 0 0.11434 1 16882 16882 0.26902 0 1 147420 9407 7065 6066 6083 10805 10805 0.154136647928226 HLKKKAVIDF 10 Unmodified _HLKKKAVIDF_ 0 0 0 nc|ENSG00000147162|O15294-4|OGT;nc|ENSG00000147162|O15294-2|OGT;nc|ENSG00000147162|O15294-3|OGT;ENSG00000147162|ENST00000373719|OGT nc|ENSG00000147162|O15294-4|OGT nc|ENSG00000147162|O15294-4|OGT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.2489013671875 3 400.248403 1197.72338 2.8399 0.0011367 -0.49159 -0.00019676 2.3484 0.00093992 400.2480927636471 19.785 0.11671 20.078 19.987 20.104 0.29239 21 11 2 0 0 0 0.51485 1 9005 9005 20.581 14.798 1 825500 9408 3552 6067 6084 10806 10806 0.13242546082119588 HLKKKAVIDF 10 Unmodified _HLKKKAVIDF_ 0 0 0 nc|ENSG00000147162|O15294-4|OGT;nc|ENSG00000147162|O15294-2|OGT;nc|ENSG00000147162|O15294-3|OGT;ENSG00000147162|ENST00000373719|OGT nc|ENSG00000147162|O15294-4|OGT nc|ENSG00000147162|O15294-4|OGT MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 400.248403 1197.72338 3.0819 0.0012335 0.39021 0.00015618 3.4721 0.0013897 400.2484779727472 19.424 0.22996 20.082 19.996 20.226 0.65829 0.0020339 0.00047911 NaN 20.581 32 15 3 NaN NaN NaN NaN 0 NaN NaN 0 475280 9409 3552 6067 6084 0.13242546082119588 HLKKLWKAL 9 Unmodified _HLKKLWKAL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.58245849609375 3 379.581605 1135.72298 2.8579 0.0010848 -0.26481 -0.00010052 2.5931 0.00098429 379.5814422857472 25.973 0.44978 26.24 26.071 26.52 0.26777 91 43 3 0 0 0 0.038142 3 11794 11740;11794;11838 47.594 31.029 1 715180 9410 4953 6068 6085 10807;10808;10809 10808 0.1605517115292514 HLKKLWKAL 9 Unmodified _HLKKLWKAL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.91668701171875 3 379.581605 1135.72298 2.6336 0.00099966 0.15352 5.8274E-05 2.7871 0.0010579 379.5815800385513 25.643 0.35235 26.268 26.085 26.438 0.62505 79 38 3 0 0 0 0.038142 3 11747 11703;11747;11796 55.503 33.913 1 695960 9411 4953 6068 6085 10810;10811;10812 10811 0.1605517115292514 HLKKTVTML 9 Unmodified _HLKKTVTML_ 0 0 0 ENSG00000140743|ENST00000268383|CDR2 ENSG00000140743|ENST00000268383|CDR2 ENSG00000140743|ENST00000268383|CDR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.5519714355469 3 357.551205 1069.63179 2.4105 0.00086187 0.27161 9.7113E-05 2.6821 0.00095898 357.55122252470454 19.33 0.15353 19.628 19.541 19.694 0.29753 29 15 3 0 0 0 0.59921 1 8793 8793 10.8 3.1906 1 973250 9412 3216 6069 6086 10813 10813 0.09975539393303734 HLKKTVTML 9 Unmodified _HLKKTVTML_ 0 0 0 ENSG00000140743|ENST00000268383|CDR2 ENSG00000140743|ENST00000268383|CDR2 ENSG00000140743|ENST00000268383|CDR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.5525817871094 3 357.551205 1069.63179 2.6242 0.00093828 0.62644 0.00022399 3.2506 0.0011623 357.5512986249081 18.931 0.20778 19.591 19.503 19.711 0.66072 34 16 3 0 0 0 0.33646 1 8597 8597 15.248 9.5166 1 785680 9413 3216 6069 6086 10814 10814 0.09975539393303734 HLKKTVTML 9 Unmodified _HLKKTVTML_ 0 0 0 ENSG00000140743|ENST00000268383|CDR2 ENSG00000140743|ENST00000268383|CDR2 ENSG00000140743|ENST00000268383|CDR2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 357.551205 1069.63179 2.6931 0.00096291 0.40251 0.00014392 3.0956 0.0011068 357.5512140725451 19.908 0.16264 19.908 19.808 19.97 0 0.19898 -7.5146E-06 NaN 15.248 22 10 3 NaN NaN NaN NaN 0 NaN NaN 0 638770 9414 3216 6069 6086 0.09975539393303734 HLKPISREL 9 Unmodified _HLKPISREL_ 0 0 0 ENST00000478282.1_1_21:44514579-44514991:-|nuORF;nc|ENSG00000160201|Q01081-4|U2AF1;nc|ENSG00000160201|Q01081-2|U2AF1;ENSG00000160201|ENST00000291552|U2AF1 ENST00000478282.1_1_21:44514579-44514991:-|nuORF ENST00000478282.1_1_21:44514579-44514991:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 365.2241516113281 3 364.888986 1091.64513 2.782 0.0010151 -0.32976 -0.00012033 2.4523 0.00089481 364.8887573967427 19.596 0.16737 19.596 19.502 19.67 0 40 20 3 0 0 0 0.016363 1 8729 8729 73.196 39.751 1 4360600 9415 4046 6070 6087 10815 10815 0.10297113496903876 HLKPISREL 9 Unmodified _HLKPISREL_ 0 0 0 ENST00000478282.1_1_21:44514579-44514991:-|nuORF;nc|ENSG00000160201|Q01081-4|U2AF1;nc|ENSG00000160201|Q01081-2|U2AF1;ENSG00000160201|ENST00000291552|U2AF1 ENST00000478282.1_1_21:44514579-44514991:-|nuORF ENST00000478282.1_1_21:44514579-44514991:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 364.88983154296875 3 364.888986 1091.64513 NaN NaN NaN NaN NaN NaN NaN 18.887 1 19.185 18.685 19.685 0.29753 0 0 0 0.013664 1 8577 8577 80.676 38.72 1 9416 4046 6070 6087 10816 10816 0.10297113496903876 HLKQHYIDL 9 Unmodified _HLKQHYIDL_ 0 0 0 ENST00000570801.1_1_17:49245578-49248962:+|nuORF;nc|ENSG00000123009|O60361|NME2P1;ENSG00000243678|ENST00000512737|NME2;nc|ENSG00000243678|P22392-2|NME2 ENST00000570801.1_1_17:49245578-49248962:+|nuORF ENST00000570801.1_1_17:49245578-49248962:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.5498962402344 3 389.548741 1165.62439 2.9129 0.0011347 -0.1624 -6.3264E-05 2.7504 0.0010714 389.54871351734477 29.979 0.22709 29.979 29.865 30.092 0 22 16 2 0 0 0 0.099775 1 13550 13550 32.786 18.38 1 533590 9417 6238 6071 6088 10817 10817 0.04820523117223274 HLKQHYIDL 9 Unmodified _HLKQHYIDL_ 0 0 0 ENST00000570801.1_1_17:49245578-49248962:+|nuORF;nc|ENSG00000123009|O60361|NME2P1;ENSG00000243678|ENST00000512737|NME2;nc|ENSG00000243678|P22392-2|NME2 ENST00000570801.1_1_17:49245578-49248962:+|nuORF ENST00000570801.1_1_17:49245578-49248962:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 389.5498352050781 3 389.548741 1165.62439 2.6428 0.0010295 0.084025 3.2732E-05 2.7268 0.0010622 389.5487957229913 28.962 0.36557 29.751 29.557 29.923 0.78921 47 27 2 0 0 0 0.15661 1 13053 13053 26.268 12.653 1 320830 9418 6238 6071 6088 10818 10818 0.04820523117223274 HLKQHYIDL 9 Unmodified _HLKQHYIDL_ 0 0 0 ENST00000570801.1_1_17:49245578-49248962:+|nuORF;nc|ENSG00000123009|O60361|NME2P1;ENSG00000243678|ENST00000512737|NME2;nc|ENSG00000243678|P22392-2|NME2 ENST00000570801.1_1_17:49245578-49248962:+|nuORF ENST00000570801.1_1_17:49245578-49248962:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.54998779296875 3 389.548741 1165.62439 3.099 0.0012072 0.009358 3.6454E-06 3.1084 0.0012109 389.54868011704735 29.729 0.31894 29.987 29.833 30.152 0.25804 75 27 3 0 0 0 0.10584 2 13516 13516;13558 31.268 14.702 1 1047800 9419 6238 6071 6088 10819;10820 10819 0.04820523117223274 HLKQHYIDL 9 Unmodified _HLKQHYIDL_ 0 0 0 ENST00000570801.1_1_17:49245578-49248962:+|nuORF;nc|ENSG00000123009|O60361|NME2P1;ENSG00000243678|ENST00000512737|NME2;nc|ENSG00000243678|P22392-2|NME2 ENST00000570801.1_1_17:49245578-49248962:+|nuORF ENST00000570801.1_1_17:49245578-49248962:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.5500793457031 3 389.548741 1165.62439 2.823 0.0010997 0.27685 0.00010785 3.0999 0.0012075 389.5488462448536 29.465 0.41763 30.083 29.884 30.302 0.61789 74 27 4 0 0 0 0.21127 2 13495 13495;13549 22.658 13.114 1 779480 9420 6238 6071 6088 10821;10822 10821 0.04820523117223274 HLKQQVSGL 9 Unmodified _HLKQQVSGL_ 0 0 0 ENSG00000187608|ENST00000649529|ISG15 ENSG00000187608|ENST00000649529|ISG15 ENSG00000187608|ENST00000649529|ISG15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.29461669921875 2 505.293091 1008.57163 3.0324 0.0015322 0.62433 0.00031547 3.6567 0.0018477 505.29339688498857 17.619 0.39676 17.921 17.724 18.121 0.30159 61 27 3 0 0 0 0.02234 2 7993 7942;7993 65.235 36.153 1 520030 9421 5624 6072 6089 10823;10824 10824 0.06768565054437659 HLKQQVSGL 9 Unmodified _HLKQQVSGL_ 0 0 0 ENSG00000187608|ENST00000649529|ISG15 ENSG00000187608|ENST00000649529|ISG15 ENSG00000187608|ENST00000649529|ISG15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.2944641113281 2 505.293091 1008.57163 3.2639 0.0016492 -0.057109 -2.8857E-05 3.2068 0.0016204 505.29310511098373 17.517 0.30237 18.178 18.005 18.307 0.66072 55 31 2 0 0 0 0.0079462 2 7913 7870;7913 85.642 45.684 1 1368300 9422 5624 6072 6089 10825;10826 10826 0.06768565054437659 HLKRNQSF 8 Unmodified _HLKRNQSF_ 0 0 0 ENSG00000166441|ENST00000314138|RPL27A ENSG00000166441|ENST00000314138|RPL27A ENSG00000166441|ENST00000314138|RPL27A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.7846069335938 2 515.283057 1028.55156 3.4554 0.0017805 -1.5393 -0.00079315 1.9162 0.00098738 515.7828960019232 59.185 0.26261 59.444 59.233 59.496 0.2593 16 12 2 0 0 0 0.5047 1 27071 27071 20.871 1.4322 1 435640 9423 4485 6073 6090 10827 10827 0.038428141144549954 HLKRNQSF 8 Unmodified _HLKRNQSF_ 0 0 0 ENSG00000166441|ENST00000314138|RPL27A ENSG00000166441|ENST00000314138|RPL27A ENSG00000166441|ENST00000314138|RPL27A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 515.283057 1028.55156 3.0199 0.0015561 -2.3825 -0.0012277 0.63742 0.00032845 515.7823611511059 58.337 0.15505 59.096 58.994 59.149 0.75894 -0.13714 -0.00053336 NaN 20.871 27 12 3 NaN NaN NaN NaN 0 NaN NaN 0 709900 9424 4485 6073 6090 0.038428141144549954 HLKRNQSF 8 Unmodified _HLKRNQSF_ 0 0 0 ENSG00000166441|ENST00000314138|RPL27A ENSG00000166441|ENST00000314138|RPL27A ENSG00000166441|ENST00000314138|RPL27A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 515.283057 1028.55156 3.4629 0.0017844 -2.1298 -0.0010974 1.3331 0.00068692 515.7825449485455 58.492 0.1726 59.159 59.072 59.245 0.66703 -0.073914 -0.00027287 NaN 20.871 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 514450 9425 4485 6073 6090 0.038428141144549954 HLKRVKDL 8 Unmodified _HLKRVKDL_ 0 0 0 ENST00000481474.5_1_6:28876558-28891553:-|nuORF;nc|ENSG00000204713|P14373-2|TRIM27;ENSG00000204713|ENST00000377199|TRIM27 ENST00000481474.5_1_6:28876558-28891553:-|nuORF;ENSG00000204713|ENST00000377199|TRIM27 ENSG00000204713|ENST00000377199|TRIM27 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.8829345703125 3 336.881943 1007.624 NaN NaN NaN NaN NaN NaN NaN 17.619 1 17.92 17.42 18.42 0.30158 0 0 0 0.967 1 7979 7979 7.9102 3.5809 1 9426 8293;6030 6074 6091 10828 10828 0.12049148188032177 HLKTKRILRRN 11 Unmodified _HLKTKRILRRN_ 0 0 0 nc|ENSG00000163714|O15042-3|U2SURP nc|ENSG00000163714|O15042-3|U2SURP nc|ENSG00000163714|O15042-3|U2SURP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.483154296875 4 359.48366 1433.90553 2.5051 0.00090053 -2.3742 -0.00085349 0.13085 4.7038E-05 359.7335943738851 50.606 0.34565 50.868 50.73 51.076 0.26146 34 16 3 0 0 0 0.91391 1 23123 23123 0.45452 0.38125 1 518480 9427 9717 6075 6092 10829 10829 0.2059369854760007 HLKVVQSL 8 Unmodified _HLKVVQSL_ 0 0 0 ENSG00000145780|ENST00000274457|FEM1C ENSG00000145780|ENST00000274457|FEM1C ENSG00000145780|ENST00000274457|FEM1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.288818359375 2 462.287277 922.560001 2.6859 0.0012416 0.54441 0.00025168 3.2303 0.0014933 462.28740304856575 28.669 0.14459 28.929 28.82 28.964 0.2602 20 12 2 0 0 0 0.23923 1 13024 13024 39.957 9.7325 1 421430 9428 3487 6076 6093 10830 10830 0.09562368031106416 HLKVVQSL 8 Unmodified _HLKVVQSL_ 0 0 0 ENSG00000145780|ENST00000274457|FEM1C ENSG00000145780|ENST00000274457|FEM1C ENSG00000145780|ENST00000274457|FEM1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 462.2887878417969 2 462.287277 922.560001 2.797 0.001293 0.42412 0.00019606 3.2212 0.0014891 462.2874396493096 28.209 0.27993 28.828 28.705 28.985 0.61947 32 19 2 0 0 0 0.42655 1 12971 12971 26.341 5.4701 1 381710 9429 3487 6076 6093 10831 10831 0.09562368031106416 HLLAIISFL 9 Unmodified _HLLAIISFL_ 0 0 0 REV__ENST00000539664.2_1_7:28993099-28993321:-|nuORF REV__ENST00000539664.2_1_7:28993099-28993321:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.7479248046875 2 513.820953 1025.62735 NaN NaN NaN NaN NaN NaN NaN 91.085 1 91.337 90.837 91.837 0.25163 0 0 0 0.44891 1 41883 41883 20.871 0 1 + 9430 17200 6077 6094 10832 10832 0.11556398242055366 HLLEELYCRIV 11 Unmodified _HLLEELYCRIV_ 0 0 0 REV__nc|ENSG00000213672|Q9NZQ3-5|NCKIPSD REV__nc|ENSG00000213672|Q9NZQ3-5|NCKIPSD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 694.2086791992188 2 694.373755 1386.73296 NaN NaN NaN NaN NaN NaN NaN 71.812 1 72.516 72.016 73.016 0.70386 0 0 0 1.0038 1 34528 34528 5.7319 0.43497 1 + 9431 14497 6078 6095 10833 10833 0.05505946305333964 HLLHLDASIH 10 Unmodified _HLLHLDASIH_ 0 0 0 nc|ENSG00000180259|Q86SH4|PRNT nc|ENSG00000180259|Q86SH4|PRNT nc|ENSG00000180259|Q86SH4|PRNT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.8214721679688 2 578.317097 1154.61964 3.7562 0.0021723 -0.06838 -3.9545E-05 3.6878 0.0021327 578.3170270209977 22.018 0.25229 22.018 21.882 22.135 0 41 17 3 0 0 0 0.73282 1 9836 9836 11.64 0 1 297320 9432 9768 6079 6096 10834 10834 0.048516389744463595 HLLLLLLIIIL 11 Unmodified _HLLLLLLIIIL_ 0 0 0 ENSG00000172927|ENST00000441339|MYEOV ENSG00000172927|ENST00000441339|MYEOV ENSG00000172927|ENST00000441339|MYEOV MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 644.1923828125 2 643.962335 1285.91012 NaN NaN NaN NaN NaN NaN NaN 60.359 1 61.109 60.609 61.609 0.74927 0 0 0 1.0082 1 27833 27833 0 0 1 9433 4904 6080 6097 10835 10835 0.27859769917813537 HLLLLLLIIIL 11 Unmodified _HLLLLLLIIIL_ 0 0 0 ENSG00000172927|ENST00000441339|MYEOV ENSG00000172927|ENST00000441339|MYEOV ENSG00000172927|ENST00000441339|MYEOV MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 643.963623046875 2 643.962335 1285.91012 NaN NaN NaN NaN NaN NaN NaN 90.314 1 90.987 90.487 91.487 0.67271 0 0 0 1.0082 1 41571 41571 0 0 1 9434 4904 6080 6097 10836 10836 0.27859769917813537 HLLLLQLLLL 10 Unmodified _HLLLLQLLLL_ 0 0 0 ENST00000484016.1_1_12:56226082-56226935:+|nuORF ENST00000484016.1_1_12:56226082-56226935:+|nuORF ENST00000484016.1_1_12:56226082-56226935:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 594.7432861328125 2 594.907559 1187.80057 2.9407 0.0017495 1.4428 0.00085835 4.3836 0.0026078 595.4124977315864 90.121 0.02037 90.121 90.107 90.127 0 4 2 2 0 0 0 0.94217 1 47273 47273 0.45834 0 1 6802200 9435 8321 6081 6098 10837 10837 0.21417764298485054 HLLLVLVQL 9 Unmodified _HLLLVLVQL_ 0 0 0 nc|ENSG00000198732|Q9H4F8|SMOC1;ENSG00000198732|ENST00000361956|SMOC1 nc|ENSG00000198732|Q9H4F8|SMOC1 nc|ENSG00000198732|Q9H4F8|SMOC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 349.9024963378906 3 349.902344 1046.6852 1.7228 0.00060281 -1.0358 -0.00036241 0.68703 0.00024039 349.9018422806477 6.2824 0.30518 6.5876 6.4954 6.8006 0.30519 29 24 2 0 0 0 1.178 1 2850 2850 1.0715 0 1 23238 9436 5922 6082 6099 10838 10838 0.16372660167462527 HLLRRRAR 8 Unmodified _HLLRRRAR_ 0 0 0 REV__ENSG00000153822|ENST00000392671|KCNJ16 REV__ENSG00000153822|ENST00000392671|KCNJ16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.350341796875 2 539.346858 1076.67916 3.2172 0.0017352 2.1019 0.0011336 5.3191 0.0028688 539.3485325409864 37.728 0.19992 38.361 38.238 38.438 0.63388 8 6 2 0 0 0 0.65723 1 17279 17279 9.3474 1.4373 1 118880 + 9437 12685 6083 6100 10839 10839 0.14388999499146848 HLLSRKVRGF 10 Unmodified _HLLSRKVRGF_ 0 0 0 REV__nc|ENSG00000085382|Q8IYU2-4|HACE1 REV__nc|ENSG00000085382|Q8IYU2-4|HACE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 606.8744506835938 2 606.869831 1211.72511 4.4441 0.002697 0.12661 7.6837E-05 4.5707 0.0027738 606.8716683409256 103.49 0.038811 103.81 103.78 103.82 0.31863 7 4 2 0 0 0 0.93788 1 47844 47844 1.3295 0 1 262750 + 9438 10645 6084 6101 10840 10840 0.12771599890743346 HLNDRKFVF 9 Unmodified _HLNDRKFVF_ 0 0 0 ENSG00000174243|ENST00000308025|DDX23 ENSG00000174243|ENST00000308025|DDX23 ENSG00000174243|ENST00000308025|DDX23 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 392.55029296875 3 392.548852 1174.62473 2.9246 0.001148 -0.32623 -0.00012806 2.5984 0.00102 392.5486873886542 34.355 0.29633 34.609 34.516 34.812 0.25389 28 12 3 0 0 0 0.27615 1 15699 15699 18.373 3.9677 1 1826400 9439 4969 6085 6102 10841 10841 0.0443994283707525 HLNEIKVYI 9 Unmodified _HLNEIKVYI_ 0 0 0 ENSG00000163751|ENST00000296046|CPA3 ENSG00000163751|ENST00000296046|CPA3 ENSG00000163751|ENST00000296046|CPA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.8872375488281 3 376.885241 1127.63389 NaN NaN NaN NaN NaN NaN NaN 50.37 1 51.193 50.693 51.693 0.82285 0 0 0 0.86621 1 22944 22944 7.1017 1.699 1 9440 4245 6086 6103 10842 10842 0.07518291402743671 HLNLRKIAL 9 Unmodified _HLNLRKIAL_ 0 0 0 ENSG00000028839|ENST00000237264|TBPL1 ENSG00000028839|ENST00000237264|TBPL1 ENSG00000028839|ENST00000237264|TBPL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.3502197265625 2 539.3482 1076.68185 NaN NaN NaN NaN NaN NaN NaN 38.361 1 38.625 38.125 39.125 0.26408 0 0 0 0.26328 1 17466 17466 28.487 8.0332 1 9441 488 6087 6104 10843 10843 0.1465741011343198 HLNYRKAF 8 Unmodified _HLNYRKAF_ 0 0 0 REV__ENST00000527145.1_1_11:44071584-44081467:+|nuORF REV__ENST00000527145.1_1_11:44071584-44081467:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.1949768066406 3 350.194409 1047.5614 2.5462 0.00089168 0.73023 0.00025572 3.2765 0.0011474 350.19473461812004 13.526 0.31825 14.175 14.042 14.361 0.64819 36 21 2 0 0 0 0.71911 1 6057 6057 4.3292 0 1 220620 + 9442 14454 6088 6105 10844 10844 0.03952002119831377 HLPLVVWR 8 Unmodified _HLPLVVWR_ 0 0 0 REV__ENSG00000134815|ENST00000328771|DHX34 REV__ENSG00000134815|ENST00000328771|DHX34 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 340.22357177734375 3 340.54315 1018.60762 2.4293 0.00082727 -0.95802 -0.00032625 1.4712 0.00050102 340.54251886059006 14.727 0.20283 15.38 15.335 15.538 0.65356 23 15 2 0 0 0 0.14304 1 6660 6660 1.8442 0 1 169420 + 9443 11983 6089 6106 10845 10845 0.09906067021938725 HLPPAALHL 9 Unmodified _HLPPAALHL_ 0 0 0 ENSG00000009954|ENST00000339594|BAZ1B;nc|ENSG00000009954|Q9UIG0-2|BAZ1B ENSG00000009954|ENST00000339594|BAZ1B ENSG00000009954|ENST00000339594|BAZ1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.79034423828125 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 60.969 1 61.632 61.132 62.132 0.66261 0 0 0 0.63602 1 27916 27916 14.582 5.2343 1 9444 392 6090 6107 10846 10846 0.07525787750932977 HLQKDFII 8 Unmodified _HLQKDFII_ 0 0 0 ENSG00000149923|ENST00000279387|PPP4C;ENST00000566749.5_1_16:30094185-30096380:+|nuORF ENSG00000149923|ENST00000279387|PPP4C ENSG00000149923|ENST00000279387|PPP4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.5314025878906 3 338.530798 1012.57057 2.4583 0.0008322 -0.27404 -9.2772E-05 2.1842 0.00073943 338.5307337014224 36.304 0.31144 36.93 36.762 37.073 0.62631 19 9 3 0 0 0 0.34607 1 16621 16621 25.399 8.2864 1 890450 9445 3660 6091 6108 10847 10847 0.06478350685517853 HLQRLKRIQKV 11 Unmodified _HLQRLKRIQKV_ 0 0 0 REV__nc|ENSG00000107789|Q9UNW1-3|MINPP1 REV__nc|ENSG00000107789|Q9UNW1-3|MINPP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 709.4598999023438 2 709.956969 1417.89939 3.7634 0.0026719 0.94939 0.00067402 4.7128 0.0033459 709.9565229644483 50.111 0.1387 50.372 50.277 50.415 0.26146 7 5 2 0 0 0 0.13295 1 22898 22898 0.30703 0.30703 1 509690 + 9446 11122 6092 6109 10848 10848 0.2071518031607411 HLQTSKRIISL 11 Unmodified _HLQTSKRIISL_ 0 0 0 REV__ENST00000487832.6_1_6:116895272-116901503:+|nuORF REV__ENST00000487832.6_1_6:116895272-116901503:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 432.5978088378906 3 432.597983 1294.77212 2.5512 0.0011037 -1.2755 -0.00055177 1.2757 0.00055188 432.5973643220168 100.69 0.088432 100.69 100.65 100.73 0 11 5 3 0 0 0 0.91328 1 55624 55624 0.50596 0.051438 1 10090000 + 9447 16771 6093 6110 10849 10849 0.13652414651232903 HLQWRGTEL 9 Unmodified _HLQWRGTEL_ 0 0 0 REV__ENST00000544117.6_2_12:48739250-48741824:-|nuORF REV__ENST00000544117.6_2_12:48739250-48741824:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.2134094238281 3 380.536724 1138.58834 2.5705 0.00097815 -0.04966 -1.8897E-05 2.5208 0.00095925 380.53658373378687 14.457 0.16667 14.764 14.683 14.849 0.3069 13 7 3 0 0 0 1.0755 1 6520 6520 2.7352 0 1 488920 + 9448 17237 6094 6111 10850 10850 0.024590659404111648 HLQYQLKWKNL 11 Unmodified _HLQYQLKWKNL_ 0 0 0 ENST00000382990.1_1_16:281340-281454:+|nuORF ENST00000382990.1_1_16:281340-281454:+|nuORF ENST00000382990.1_1_16:281340-281454:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 735.9164428710938 2 735.914436 1469.81432 NaN NaN NaN NaN NaN NaN NaN 29.937 1 29.937 29.437 30.437 0 0 0 0 1.008 1 13520 13520 0.30703 0 1 9449 7496 6095 6112 10851 10851 0.09820390059599049 HLRFKKVKEFL 11 Unmodified _HLRFKKVKEFL_ 0 0 0 REV__LRRC8C|p.D786Vfs*18|1|0.03|ENSG00000171488|chr1:89714926-89714927|-/TAGAGTTC|frameshift_variant REV__LRRC8C|p.D786Vfs*18|1|0.03|ENSG00000171488|chr1:89714926-89714927|-/TAGAGTTC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.3006896972656 3 482.297756 1443.87144 3.9095 0.0018856 1.705 0.0008223 5.6145 0.0027079 482.29851627574317 109.94 0.48666 110.25 109.82 110.3 0.31015 30 18 2 0 0 0 0.91391 1 50686 50686 0.08335 0 1 173490 + 9450 13498 6096 6113 10852 10852 0.16725857335995897 HLRHRESW 8 Unmodified _HLRHRESW_ 0 0 0 PCF11|p.M1348Rfs*8|1|0.06|ENSG00000165494|chr11:83181066-83181067|-/GATGGAGCCTGTCTTCTTAT|frameshift_variant;nc|ENSG00000165494|O94913|PCF11;ENSG00000165494|ENST00000690938|PCF11 PCF11|p.M1348Rfs*8|1|0.06|ENSG00000165494|chr11:83181066-83181067|-/GATGGAGCCTGTCTTCTTAT|frameshift_variant PCF11|p.M1348Rfs*8|1|0.06|ENSG00000165494|chr11:83181066-83181067|-/GATGGAGCCTGTCTTCTTAT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.7890625 2 560.791581 1119.56861 NaN NaN NaN NaN NaN NaN NaN 12.813 1 13.455 12.955 13.955 0.64272 0 0 0 0.99035 1 5752 5752 5.7604 0.52976 1 9451 4402 6097 6114 10853 10853 0.013607347202878373 HLRKQKTRT 9 Unmodified _HLRKQKTRT_ 0 0 0 nc|ENSG00000083937|Q9UQN3-2|CHMP2B;ENSG00000083937|ENST00000263780|CHMP2B nc|ENSG00000083937|Q9UQN3-2|CHMP2B nc|ENSG00000083937|Q9UQN3-2|CHMP2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.3590698242188 2 584.357088 1166.69962 3.7582 0.0021961 -0.57333 -0.00033503 3.1849 0.0018611 584.3566216391512 103 0.15319 103.6 103.5 103.65 0.59821 14 4 4 0 0 0 1.2078 1 47667 47667 0.6015 0 1 3089200 9452 948 6098 6115 10854 10854 0.12294125368293862 HLRKRIHRPRR 11 Unmodified _HLRKRIHRPRR_ 0 0 0 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.9916076660156 3 508.990543 1523.9498 NaN NaN NaN NaN NaN NaN NaN 86.567 1 86.597 86.097 87.097 0.030289 0 0 0 1.0079 1 43596 43596 0.45452 0.35968 1 9453 9726 6099 6116 10855 10855 0.20878147484427245 HLRKYNEAL 9 Unmodified _HLRKYNEAL_ 0 0 0 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.881591796875 3 381.88049 1142.61964 2.3305 0.00088996 0.13429 5.1284E-05 2.4647 0.00094124 381.8805692177623 13.332 0.31995 13.639 13.502 13.822 0.30727 70 24 4 0 0 0 0.062556 3 6017 5974;6017;6063 31.268 11.906 1 554880 9454 1956 6100 6117 10856;10857;10858 10857 0.054036389744851476 HLRKYNEAL 9 Unmodified _HLRKYNEAL_ 0 0 0 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.8818054199219 3 381.88049 1142.61964 2.9606 0.0011306 -0.0012193 -4.6561E-07 2.9594 0.0011301 381.88054247862937 12.922 0.25297 13.565 13.446 13.699 0.64272 17 7 3 0 0 0 0.047285 1 5815 5815 36.506 13.848 1 1565900 9455 1956 6100 6117 10859 10859 0.054036389744851476 HLRKYNEAL 9 Unmodified _HLRKYNEAL_ 0 0 0 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 572.3192138671875 2 572.317097 1142.61964 3.867 0.0022132 0.39519 0.00022617 4.2622 0.0024394 572.3176203335461 12.922 0.16592 13.565 13.48 13.646 0.64272 11 4 3 0 0 0 0.68285 1 5823 5823 9.3831 1.473 1 236010 9456 1956 6100 6117 10860 10860 0.054036389744851476 HLRKYNEAL 9 Unmodified _HLRKYNEAL_ 0 0 0 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 381.88049 1142.61964 2.2271 0.0008505 -0.086274 -3.2946E-05 2.1409 0.00081755 381.88044509208316 13.388 0.17072 13.632 13.518 13.689 0.24346 0.019791 -0.00015561 NaN 36.506 19 13 2 NaN NaN NaN NaN 0 NaN NaN 0 214940 9457 1956 6100 6117 0.054036389744851476 HLRLGRRP 8 Unmodified _HLRLGRRP_ 0 0 0 ENST00000397661.6_1_19:13206434-13206683:+|nuORF ENST00000397661.6_1_19:13206434-13206683:+|nuORF ENST00000397661.6_1_19:13206434-13206683:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.8154296875 2 502.814859 1003.61517 2.6516 0.0013333 -0.92442 -0.00046481 1.7272 0.00086847 502.8142179940185 93.964 0.40002 93.964 93.766 94.166 0 142 53 4 0 0 0 0.74071 1 50183 50183 2.5775 2.5775 1 31138000 9458 7583 6101 6118 10861 10861 0.11350219342239143 HLRLGRRP 8 Unmodified _HLRLGRRP_ 0 0 0 ENST00000397661.6_1_19:13206434-13206683:+|nuORF ENST00000397661.6_1_19:13206434-13206683:+|nuORF ENST00000397661.6_1_19:13206434-13206683:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 502.814859 1003.61517 2.0001 0.0010057 -0.4074 -0.00020485 1.5927 0.00080084 502.81450333293236 93.487 0.3465 93.573 93.438 93.784 0.086212 -0.19542 0.00025548 NaN 2.5775 104 45 3 NaN NaN NaN NaN 0 NaN NaN 0 31519000 9459 7583 6101 6118 0.11350219342239143 HLRLLVVP 8 Unmodified _HLRLLVVP_ 0 0 0 REV__ENST00000380752.9_1_13:30087987-30088110:-|nuORF REV__ENST00000380752.9_1_13:30087987-30088110:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 316.2130126953125 3 316.2114 945.612371 NaN NaN NaN NaN NaN NaN NaN 17.569 1 17.871 17.371 18.371 0.30158 0 0 0 0.99035 1 7957 7957 0.45834 0 1 + 9460 15882 6102 6119 10862 10862 0.13738951164714308 HLRTLRHLSL 10 Unmodified _HLRTLRHLSL_ 0 0 0 nc|ENSG00000239732|Q9NR96-2|TLR9;nc|ENSG00000239732|Q9NR96-5|TLR9;ENSG00000239732|ENST00000360658|TLR9;nc|ENSG00000239732|Q9NR96-3|TLR9;nc|ENSG00000239732|Q9NR96-4|TLR9 nc|ENSG00000239732|Q9NR96-2|TLR9 nc|ENSG00000239732|Q9NR96-2|TLR9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 416.5723876953125 3 415.922801 1244.74657 3.2413 0.0013481 -0.15408 -6.4084E-05 3.0873 0.0012841 415.9225418239958 12.8 0.10118 13.443 13.379 13.48 0.64272 4 2 2 0 0 0 0.89607 1 5754 5754 3.8763 1.7903 1 107300 9461 6212 6103 6120 10863 10863 0.13398984919467694 HLRVRRFWSQR 11 Unmodified _HLRVRRFWSQR_ 0 0 0 ENST00000441423.1_1:144301300-144301480:-|nuORF ENST00000441423.1_1:144301300-144301480:-|nuORF ENST00000441423.1_1:144301300-144301480:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 770.5330810546875 2 770.939642 1539.86473 NaN NaN NaN NaN NaN NaN NaN 100.36 1 100.36 99.859 100.86 0 0 0 0 1.008 1 55370 55370 0.26902 0.26902 1 9462 7935 6104 6121 10864 10864 0.11639357227977598 HLSGRKLSL 9 Unmodified _HLSGRKLSL_ 0 0 0 ENST00000542540.5_1_12:121708713-121712128:-|nuORF;ENST00000535524.1_1_12:121691250-121712353:-|nuORF;nc|ENSG00000110931|Q96RR4-6|CAMKK2;nc|ENSG00000110931|Q96RR4-5|CAMKK2;nc|ENSG00000110931|Q96RR4-2|CAMKK2;nc|ENSG00000110931|Q96RR4-3|CAMKK2;nc|ENSG00000110931|Q96RR4-4|CAMKK2;nc|ENSG00000110931|Q96RR4-7|CAMKK2;ENSG00000110931|ENST00000404169|CAMKK2 ENST00000542540.5_1_12:121708713-121712128:-|nuORF ENST00000542540.5_1_12:121708713-121712128:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.54302978515625 3 337.541697 1009.60326 2.2512 0.00075988 0.66256 0.00022364 2.9138 0.00098352 337.5420010277527 17.929 0.16515 18.231 18.137 18.302 0.30159 17 13 2 0 0 0 0.54955 1 8133 8133 11.495 4.393 1 118260 9463 1735 6105 6122 10865 10865 0.098845578083683 HLSHLLHL 8 Unmodified _HLSHLLHL_ 0 0 0 nc|ENSG00000180259|Q86SH4|PRNT nc|ENSG00000180259|Q86SH4|PRNT nc|ENSG00000180259|Q86SH4|PRNT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.28790283203125 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 61.222 1 61.474 60.974 61.974 0.25245 0 0 0 0.91812 1 28037 28037 11.114 0 1 9464 9768 6106 6123 10866 10866 0.07004903608185487 HLSHLLHL 8 Unmodified _HLSHLLHL_ 0 0 0 nc|ENSG00000180259|Q86SH4|PRNT nc|ENSG00000180259|Q86SH4|PRNT nc|ENSG00000180259|Q86SH4|PRNT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2868957519531 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 60.718 1 61.38 60.88 61.88 0.66261 0 0 0 0.91812 1 27800 27800 11.114 0 1 9465 9768 6106 6123 10867 10867 0.07004903608185487 HLSLRRLP 8 Unmodified _HLSLRRLP_ 0 0 0 REV__ENST00000419007.5_1_3:50313561-50314134:+|nuORF REV__ENST00000419007.5_1_3:50313561-50314134:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.2123107910156 3 331.210171 990.608683 NaN NaN NaN NaN NaN NaN NaN 70.994 1 71.698 71.198 72.198 0.70386 0 0 0 0.99035 1 34059 34059 3.2813 0 1 + 9466 10242 6107 6124 10868 10868 0.11300281390845157 HLSPEEISL 9 Unmodified _HLSPEEISL_ 0 0 0 ENSG00000189362|ENST00000409150|NEMP2 ENSG00000189362|ENST00000409150|NEMP2 ENSG00000189362|ENST00000409150|NEMP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.7709350585938 2 512.769114 1023.52368 3.146 0.0016132 -1.0387 -0.00053263 2.1073 0.0010805 512.7684445340618 55.273 0.19706 55.539 55.443 55.64 0.26543 19 13 2 0 0 0 0.020718 1 25250 25250 67.344 5.9864 1 1697400 9467 5711 6108 6125 10869 10869 0.01285446343717922 HLSPEEISL 9 Unmodified _HLSPEEISL_ 0 0 0 ENSG00000189362|ENST00000409150|NEMP2 ENSG00000189362|ENST00000409150|NEMP2 ENSG00000189362|ENST00000409150|NEMP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.7716064453125 2 512.769114 1023.52368 NaN NaN NaN NaN NaN NaN NaN 54.528 1 55.195 54.695 55.695 0.6665 0 0 0 0.02351 1 24947 24947 67.344 5.9864 1 9468 5711 6108 6125 10870 10870 0.01285446343717922 HLSQKEIL 8 Unmodified _HLSQKEIL_ 0 0 0 REV__ENST00000396403.8_1_19:53994954-53995710:+|nuORF REV__ENST00000396403.8_1_19:53994954-53995710:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.2848205566406 2 484.282192 966.549831 3.4183 0.0016554 1.2363 0.00059871 4.6546 0.0022542 484.28271224129145 30.325 0.21142 30.583 30.49 30.702 0.25804 15 10 2 0 0 0 0.29142 1 13814 13814 36.127 0 1 237420 + 9469 16004 6109 6126 10871 10871 0.06521760305861335 HLSRIVGE 8 Unmodified _HLSRIVGE_ 0 0 0 nc|ENSG00000163793|Q8N7S2-2|DNAJC5G nc|ENSG00000163793|Q8N7S2-2|DNAJC5G nc|ENSG00000163793|Q8N7S2-2|DNAJC5G MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 304.1765441894531 3 304.175015 909.503215 NaN NaN NaN NaN NaN NaN NaN 15.269 1 15.923 15.423 16.423 0.65356 0 0 0 0.99035 1 6875 6875 0.40072 0 1 9470 9719 6110 6127 10872 10872 0.04484320474580272 HLSRIVGE 8 Unmodified _HLSRIVGE_ 0 0 0 nc|ENSG00000163793|Q8N7S2-2|DNAJC5G nc|ENSG00000163793|Q8N7S2-2|DNAJC5G nc|ENSG00000163793|Q8N7S2-2|DNAJC5G MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 304.5375061035156 3 304.175015 909.503215 NaN NaN NaN NaN NaN NaN NaN 26.848 1 27.469 26.969 27.969 0.62179 0 0 0 0.99035 1 12308 12308 1.6526 0 1 9471 9719 6110 6127 10873 10873 0.04484320474580272 HLSSAACLH 9 Unmodified _HLSSAACLH_ 0 0 0 ENST00000463846.5_1_1:44461379-44461848:+|nuORF ENST00000463846.5_1_1:44461379-44461848:+|nuORF ENST00000463846.5_1_1:44461379-44461848:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.72894287109375 2 469.729269 937.443985 NaN NaN NaN NaN NaN NaN NaN 53.724 1 54.528 54.028 55.028 0.80351 0 0 0 0.89315 1 24517 24517 5.2307 0 1 9472 8108 6111 6128 10874 10874 -0.027238988112685547 HLTLFQPHDR 10 Unmodified _HLTLFQPHDR_ 0 0 0 REV__nc|ENSG00000138399|Q53R41-2|FASTKD1 REV__nc|ENSG00000138399|Q53R41-2|FASTKD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.8923645019531 3 421.891278 1262.652 2.9174 0.0012308 0.55816 0.00023548 3.4756 0.0014663 421.8914807579271 21.962 0.21845 21.962 21.829 22.048 0 25 16 2 0 0 0 0.92007 1 9828 9828 1.3296 0 1 108640 + 9473 12164 6112 6129 10875 10875 0.031184263774548526 HLTLQQKH 8 Unmodified _HLTLQQKH_ 0 0 0 REV__ENSG00000196453|ENST00000247930|ZNF777 REV__ENSG00000196453|ENST00000247930|ZNF777 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.5271301269531 3 335.526047 1003.55631 2.4411 0.00081906 0.20611 6.9154E-05 2.6472 0.00088822 335.5261004592064 13.226 0.098775 13.869 13.822 13.921 0.64272 9 6 2 0 0 0 0.68959 1 5954 5954 6.7232 0.99131 1 143020 + 9474 14216 6113 6130 10876 10876 0.05467698257234588 HLTQQKEI 8 Unmodified _HLTQQKEI_ 0 0 0 nc|ENSG00000142621|B1AJZ9|FHAD1;nc|ENSG00000142621|B1AJZ9-3|FHAD1;ENSG00000142621|ENST00000688493|FHAD1 nc|ENSG00000142621|B1AJZ9|FHAD1 nc|ENSG00000142621|B1AJZ9|FHAD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 332.8551330566406 3 332.853941 995.539994 2.0265 0.00067451 0.65743 0.00021883 2.6839 0.00089334 332.8541365164452 13.68 0.15127 13.988 13.898 14.05 0.30727 19 13 2 0 0 0 0.59268 1 6160 6160 15.847 7.6917 1 417830 9475 3320 6114 6131 10877 10877 0.04204572300466225 HLTQQKEI 8 Unmodified _HLTQQKEI_ 0 0 0 nc|ENSG00000142621|B1AJZ9|FHAD1;nc|ENSG00000142621|B1AJZ9-3|FHAD1;ENSG00000142621|ENST00000688493|FHAD1 nc|ENSG00000142621|B1AJZ9|FHAD1 nc|ENSG00000142621|B1AJZ9|FHAD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.8547668457031 3 332.853941 995.539994 2.4576 0.00081802 0.065351 2.1752E-05 2.523 0.00083978 332.8540307802462 13.099 0.1793 13.741 13.612 13.791 0.64272 20 9 3 0 0 0 0.45037 1 5869 5869 19.257 8.4331 1 1276100 9476 3320 6114 6131 10878 10878 0.04204572300466225 HLVLPPRP 8 Unmodified _HLVLPPRP_ 0 0 0 REV__ENST00000565074.1_1_15:75501395-75501497:+|nuORF REV__ENST00000565074.1_1_15:75501395-75501497:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.7921447753906 2 464.789987 927.565421 NaN NaN NaN NaN NaN NaN NaN 25.504 1 25.772 25.272 26.272 0.26777 0 0 0 0.99035 1 11576 11576 2.8892 0 1 + 9477 17411 6115 6132 10879 10879 0.09874091613562541 HLVPFLKKSV 10 Unmodified _HLVPFLKKSV_ 0 0 0 ENSG00000141384|ENST00000269142|TAF4B;nc|ENSG00000141384|Q92750-2|TAF4B ENSG00000141384|ENST00000269142|TAF4B ENSG00000141384|ENST00000269142|TAF4B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.89520263671875 3 389.913131 1166.71756 3.0566 0.0011918 0.95459 0.00037221 4.0112 0.001564 389.9130044035502 39.915 0.079884 40.556 40.489 40.569 0.64136 5 3 2 0 0 0 0.12676 1 18219 18219 4.1895 1.1172 1 376630 9478 3247 6116 6133 10880 10880 0.1408744757045497 HLVPFLKKSV 10 Unmodified _HLVPFLKKSV_ 0 0 0 ENSG00000141384|ENST00000269142|TAF4B;nc|ENSG00000141384|Q92750-2|TAF4B ENSG00000141384|ENST00000269142|TAF4B ENSG00000141384|ENST00000269142|TAF4B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 389.913131 1166.71756 3.0257 0.0011798 1.5137 0.00059022 4.5394 0.00177 389.9134754432193 40.178 0.14788 40.445 40.337 40.485 0.26696 -0.05578 8.1504E-05 NaN 4.1895 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 280790 9479 3247 6116 6133 0.1408744757045497 HLWFSVFA 8 Unmodified _HLWFSVFA_ 0 0 0 REV__ENST00000264990.10_1_3:132295858-132322086:-|nuORF REV__ENST00000264990.10_1_3:132295858-132322086:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.17767333984375 3 336.176356 1005.50724 NaN NaN NaN NaN NaN NaN NaN 71.446 1 71.704 71.204 72.204 0.25786 0 0 0 0.99035 1 32729 32729 1.8442 0 1 + 9480 15025 6117 6134 10881 10881 0.004704099682840024 HLWFSVFA 8 Unmodified _HLWFSVFA_ 0 0 0 REV__ENST00000264990.10_1_3:132295858-132322086:-|nuORF REV__ENST00000264990.10_1_3:132295858-132322086:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.17767333984375 3 336.176356 1005.50724 NaN NaN NaN NaN NaN NaN NaN 71.041 1 71.703 71.203 72.203 0.66209 0 0 0 0.99035 1 32558 32558 1.8442 0 1 + 9481 15025 6117 6134 10882 10882 0.004704099682840024 HLWVKLRNML 10 Unmodified _HLWVKLRNML_ 0 0 0 ENST00000475582.5_1_2:27590224-27590551:-|nuORF ENST00000475582.5_1_2:27590224-27590551:-|nuORF ENST00000475582.5_1_2:27590224-27590551:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2579650878906 3 437.256904 1308.74888 3.2815 0.0014349 0.76097 0.00033274 4.0425 0.0017676 437.2570881326235 105.55 0.43119 106.15 105.83 106.26 0.59969 42 20 4 0 0 0 0.94364 1 48697 48697 0.15932 0.01943 1 1204200 9482 8221 6118 6135 10883 10883 0.10685697332905875 HLYARQLTL 9 Unmodified _HLYARQLTL_ 0 0 0 ENSG00000168101|ENST00000304301|NUDT16L1;nc|ENSG00000168101|Q9BRJ7-2|NUDT16L1 ENSG00000168101|ENST00000304301|NUDT16L1 ENSG00000168101|ENST00000304301|NUDT16L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.8239135742188 2 557.822015 1113.62948 NaN NaN NaN NaN NaN NaN NaN 38.896 1 39.534 39.034 40.034 0.63778 0 0 0 0.796 1 17782 17782 9.3831 0 1 9483 4607 6119 6136 10884 10884 0.0772082697985752 HLYHFHKTK 9 Unmodified _HLYHFHKTK_ 0 0 0 ENST00000453424.6_1_10:45952026-45952551:-|nuORF ENST00000453424.6_1_10:45952026-45952551:-|nuORF ENST00000453424.6_1_10:45952026-45952551:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.2196350097656 3 404.220847 1209.64071 NaN NaN NaN NaN NaN NaN NaN 103.97 1 104.29 103.79 104.79 0.31863 0 0 0 0.90431 1 48050 48050 2.4985 1.427 1 9484 8032 6120 6137 10885 10885 0.04427649073977591 HMFKLRSL 8 Unmodified _HMFKLRSL_ 0 0 0 REV__nc|ENSG00000137817|Q2NL67-2|PARP6 REV__nc|ENSG00000137817|Q2NL67-2|PARP6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.7987060546875 2 516.294579 1030.57461 3.6436 0.0018811 2.1746 0.0011228 5.8182 0.0030039 516.2956405689143 12.9 0.33929 13.542 13.413 13.752 0.64272 24 11 3 0 0 0 0.68261 1 5859 5859 7.2892 0.56607 1 1170700 + 9485 12131 6121 6138 10886 10886 0.060541169075804646 HMIKKRRRWWF 11 Unmodified _HMIKKRRRWWF_ 0 0 0 ENST00000229634.13_1_6:126136448-126199430:+|nuORF ENST00000229634.13_1_6:126136448-126199430:+|nuORF ENST00000229634.13_1_6:126136448-126199430:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 822.1213989257812 2 822.464439 1642.91432 NaN NaN NaN NaN NaN NaN NaN 91.314 1 91.389 90.889 91.889 0.075279 0 0 0 1.0082 1 47290 47290 0 0 1 9486 6441 6122 6139 10887 10887 0.1185834891241484 HMLNNREN 8 Unmodified _HMLNNREN_ 0 0 0 ENST00000296468.7_1_4:128841613-128841757:-|nuORF ENST00000296468.7_1_4:128841613-128841757:-|nuORF ENST00000296468.7_1_4:128841613-128841757:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.7404174804688 2 514.240532 1026.46651 3.6314 0.0018674 -1.2465 -0.00064102 2.3849 0.0012264 514.2427646176277 39.843 0.29216 40.484 40.277 40.569 0.64136 23 12 3 0 0 0 0.61796 1 18229 18229 12.532 3.1841 1 675050 9487 6766 6123 6140 10888 10888 -0.04566299413636443 HMRRGFFPVK 10 Unmodified _HMRRGFFPVK_ 0 0 0 REV__nc|ENSG00000163421|Q9HC23-2|PROK2 REV__nc|ENSG00000163421|Q9HC23-2|PROK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 425.5708923339844 3 425.569482 1273.68662 NaN NaN NaN NaN NaN NaN NaN 12.793 1 13.101 12.601 13.601 0.30727 0 0 0 1.0001 1 5772 5772 0.69767 0.19171 1 + 9488 18006 6124 6141 10889 10889 0.060719709845443504 HNCPKPVL 8 Carbamidomethyl (C) _HNC(Carbamidomethyl (C))PKPVL_ HNC(1)PKPVL HNC(46)PKPVL 0 1 0 ENST00000581230.5_1_17:62498125-62502378:-|nuORF;ENSG00000108654|ENST00000225792|DDX5 ENST00000581230.5_1_17:62498125-62502378:-|nuORF ENST00000581230.5_1_17:62498125-62502378:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 482.7568664550781 2 482.755287 963.496021 NaN NaN NaN NaN NaN NaN NaN 17.247 1 17.247 16.747 17.747 0 0 0 0 0.14338 1 7659 7659 46.021 20.622 1 9489 1642 6125 6142 10890 10890 39 0.01281264602482679 HNCPKPVL 8 Carbamidomethyl (C) _HNC(Carbamidomethyl (C))PKPVL_ HNC(1)PKPVL HNC(130)PKPVL 0 1 0 ENST00000581230.5_1_17:62498125-62502378:-|nuORF;ENSG00000108654|ENST00000225792|DDX5 ENST00000581230.5_1_17:62498125-62502378:-|nuORF ENST00000581230.5_1_17:62498125-62502378:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.7564392089844 2 482.755287 963.496021 2.8468 0.0013743 -0.046432 -2.2415E-05 2.8004 0.0013519 482.7553945979323 14.457 0.25387 14.764 14.654 14.908 0.3069 29 12 4 0 0 0 0.0036564 1 6534 6534 131.3 67.061 1 1826500 9490 1642 6125 6142 10891 10891 39 0.01281264602482679 HNCPKPVL 8 Carbamidomethyl (C) _HNC(Carbamidomethyl (C))PKPVL_ HNC(1)PKPVL HNC(130)PKPVL 0 1 0 ENST00000581230.5_1_17:62498125-62502378:-|nuORF;ENSG00000108654|ENST00000225792|DDX5 ENST00000581230.5_1_17:62498125-62502378:-|nuORF ENST00000581230.5_1_17:62498125-62502378:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.75653076171875 2 482.755287 963.496021 3.2481 0.001568 -0.087924 -4.2446E-05 3.1602 0.0015256 482.75523781377825 14.423 0.16367 15.071 14.993 15.156 0.64819 30 13 3 0 0 0 0.0036564 1 6483 6483 131.3 67.061 1 3688200 9491 1642 6125 6142 10892 10892 39 0.01281264602482679 HNFVKIAL 8 Unmodified _HNFVKIAL_ 0 0 0 ENSG00000012983|ENST00000682126|MAP4K5 ENSG00000012983|ENST00000682126|MAP4K5 ENSG00000012983|ENST00000682126|MAP4K5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.28338623046875 2 471.281995 940.549437 NaN NaN NaN NaN NaN NaN NaN 46.442 1 46.708 46.208 47.208 0.26561 0 0 0 0.44558 1 21226 21226 30.225 5.5509 1 9492 427 6126 6143 10893 10893 0.07678385376641472 HNKLGWVL 8 Unmodified _HNKLGWVL_ 0 0 0 ENSG00000162032|ENST00000566339|SPSB3;ENST00000569380.5_1_16:1827100-1828231:-|nuORF;ENST00000564709.5_1_16:1827100-1828401:-|nuORF ENSG00000162032|ENST00000566339|SPSB3 ENSG00000162032|ENST00000566339|SPSB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.7809753417969 2 483.779619 965.544686 3.224 0.0015597 0.039563 1.914E-05 3.2635 0.0015788 483.7795887981219 49.436 0.3616 50.092 50.01 50.371 0.65524 17 12 2 0 0 0 0.39589 1 22635 22635 28.487 10.352 1 502250 9493 4116 6127 6144 10894 10894 0.06053501233895986 HNKRKIFL 8 Unmodified _HNKRKIFL_ 0 0 0 ENSG00000113583|ENST00000231512|C5orf15 ENSG00000113583|ENST00000231512|C5orf15 ENSG00000113583|ENST00000231512|C5orf15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 352.5547180175781 3 352.553937 1054.63998 1.9683 0.00069392 0.11383 4.013E-05 2.0821 0.00073405 352.55399780604534 12.867 0.15118 13.128 13.05 13.201 0.26154 23 12 2 0 0 0 0.36624 1 5587 5587 30.637 7.9003 1 1818200 9494 1861 6128 6145 10895 10895 0.11484854424929836 HNKRKIFL 8 Unmodified _HNKRKIFL_ 0 0 0 ENSG00000113583|ENST00000231512|C5orf15 ENSG00000113583|ENST00000231512|C5orf15 ENSG00000113583|ENST00000231512|C5orf15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.5545654296875 3 352.553937 1054.63998 1.888 0.00066562 0.25795 9.0943E-05 2.1459 0.00075656 352.55395429329025 12.799 0.19134 13.106 12.996 13.187 0.30727 16 5 4 0 0 0 0.062889 1 5778 5778 61.357 32.276 1 4530000 9495 1861 6128 6145 10896 10896 0.11484854424929836 HNKRKIFL 8 Unmodified _HNKRKIFL_ 0 0 0 ENSG00000113583|ENST00000231512|C5orf15 ENSG00000113583|ENST00000231512|C5orf15 ENSG00000113583|ENST00000231512|C5orf15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.55499267578125 3 352.553937 1054.63998 2.7515 0.00097005 0.51576 0.00018183 3.2673 0.0011519 352.5541821390226 12.685 0.13507 13.328 13.244 13.379 0.64272 9 3 3 0 0 0 0.037007 1 5699 5699 71.134 31.184 1 5582300 9496 1861 6128 6145 10897 10897 0.11484854424929836 HNKRKIFLL 9 Unmodified _HNKRKIFLL_ 0 0 0 ENSG00000113583|ENST00000231512|C5orf15 ENSG00000113583|ENST00000231512|C5orf15 ENSG00000113583|ENST00000231512|C5orf15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.2494812011719 3 390.248625 1167.72405 2.7702 0.0010811 -0.16801 -6.5566E-05 2.6022 0.0010155 390.2485771366601 28.232 0.33528 28.495 28.335 28.67 0.26245 65 25 3 0 0 0 0.071101 2 12850 12807;12850 29.841 13.691 1 1652000 9497 1861 6129 6146 10898;10899 10899 0.1468938552184227 HNKRKIFLL 9 Unmodified _HNKRKIFLL_ 0 0 0 ENSG00000113583|ENST00000231512|C5orf15 ENSG00000113583|ENST00000231512|C5orf15 ENSG00000113583|ENST00000231512|C5orf15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.249755859375 3 390.248625 1167.72405 2.7522 0.001074 0.061185 2.3877E-05 2.8133 0.0010979 390.24852803490455 27.824 0.34193 28.443 28.322 28.664 0.61947 57 23 3 0 0 0 0.047285 2 12741 12741;12787 36.506 14.969 1 2306700 9498 1861 6129 6146 10900;10901 10900 0.1468938552184227 HNKRKIFLL 9 Unmodified _HNKRKIFLL_ 0 0 0 ENSG00000113583|ENST00000231512|C5orf15 ENSG00000113583|ENST00000231512|C5orf15 ENSG00000113583|ENST00000231512|C5orf15 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 390.248625 1167.72405 2.6338 0.0010279 0.24872 9.7061E-05 2.8826 0.0011249 390.24873745737955 27.678 0.2576 28.465 28.341 28.598 0.78627 -0.056201 0.00028643 NaN 36.506 36 22 2 NaN NaN NaN NaN 0 NaN NaN 0 322540 9499 1861 6129 6146 0.1468938552184227 HNKRKIIAF 9 Unmodified _HNKRKIIAF_ 0 0 0 TGOLN2|p.V413D|1|0.28|ENSG00000152291|chr2:85324985-85324985|A/T|missense_variant;nc|ENSG00000152291|O43493-6|TGOLN2;nc|ENSG00000152291|O43493-4|TGOLN2;ENSG00000152291|ENST00000377386|TGOLN2;nc|ENSG00000152291|O43493-5|TGOLN2;nc|ENSG00000152291|O43493-3|TGOLN2;nc|ENSG00000152291|O43493-7|TGOLN2 TGOLN2|p.V413D|1|0.28|ENSG00000152291|chr2:85324985-85324985|A/T|missense_variant TGOLN2|p.V413D|1|0.28|ENSG00000152291|chr2:85324985-85324985|A/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.2336120605469 3 376.232975 1125.6771 2.8397 0.0010684 -0.25229 -9.4921E-05 2.5874 0.00097346 376.23281694920826 17.298 0.20837 17.298 17.147 17.355 0 25 17 2 0 0 0 0.5141 2 7652 7652;7699 12.241 6.5088 1 314010 9500 3745 6130 6147 10902;10903 10902 0.11928525970688497 HNKRKIIAF 9 Unmodified _HNKRKIIAF_ 0 0 0 TGOLN2|p.V413D|1|0.28|ENSG00000152291|chr2:85324985-85324985|A/T|missense_variant;nc|ENSG00000152291|O43493-6|TGOLN2;nc|ENSG00000152291|O43493-4|TGOLN2;ENSG00000152291|ENST00000377386|TGOLN2;nc|ENSG00000152291|O43493-5|TGOLN2;nc|ENSG00000152291|O43493-3|TGOLN2;nc|ENSG00000152291|O43493-7|TGOLN2 TGOLN2|p.V413D|1|0.28|ENSG00000152291|chr2:85324985-85324985|A/T|missense_variant TGOLN2|p.V413D|1|0.28|ENSG00000152291|chr2:85324985-85324985|A/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.23406982421875 3 376.232975 1125.6771 2.5251 0.00095001 0.46078 0.00017336 2.9858 0.0011234 376.23317558612086 14.464 0.20024 14.771 14.683 14.883 0.3069 21 9 3 0 0 0 0.19413 1 6538 6538 23.79 17.598 1 1195500 9501 3745 6130 6147 10904 10904 0.11928525970688497 HNKRKIIAF 9 Unmodified _HNKRKIIAF_ 0 0 0 TGOLN2|p.V413D|1|0.28|ENSG00000152291|chr2:85324985-85324985|A/T|missense_variant;nc|ENSG00000152291|O43493-6|TGOLN2;nc|ENSG00000152291|O43493-4|TGOLN2;ENSG00000152291|ENST00000377386|TGOLN2;nc|ENSG00000152291|O43493-5|TGOLN2;nc|ENSG00000152291|O43493-3|TGOLN2;nc|ENSG00000152291|O43493-7|TGOLN2 TGOLN2|p.V413D|1|0.28|ENSG00000152291|chr2:85324985-85324985|A/T|missense_variant TGOLN2|p.V413D|1|0.28|ENSG00000152291|chr2:85324985-85324985|A/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.2341613769531 3 376.232975 1125.6771 2.769 0.0010418 -0.015496 -5.8302E-06 2.7535 0.001036 376.23299686961366 14.481 0.29468 15.129 15.035 15.33 0.6482 43 30 2 0 0 0 0.11155 2 6504 6504;6550 29.841 23.649 1 2089800 9502 3745 6130 6147 10905;10906 10905 0.11928525970688497 HNQWAEQAVEQ 11 Unmodified _HNQWAEQAVEQ_ 0 0 0 REV__ENST00000469080.5_1_X:47092634-47106681:+|nuORF REV__ENST00000469080.5_1_X:47092634-47106681:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 670.3070678710938 2 670.304915 1338.59528 3.7483 0.0025125 1.8199 0.0012199 5.5682 0.0037324 670.3058171988561 17.52 0.26601 17.52 17.369 17.635 0 38 16 4 0 0 0 0.30569 1 7780 7780 24.882 2.2235 1 622980 + 9503 10924 6131 6148 10907 10907 -0.06047665969731497 HNQWAEQAVEQ 11 Unmodified _HNQWAEQAVEQ_ 0 0 0 REV__ENST00000469080.5_1_X:47092634-47106681:+|nuORF REV__ENST00000469080.5_1_X:47092634-47106681:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.3091430664062 2 670.304915 1338.59528 NaN NaN NaN NaN NaN NaN NaN 16.436 1 16.637 16.137 17.137 0.20057 0 0 0 1.0066 1 7259 7259 2.086 0.75648 1 + 9504 10924 6131 6148 10908 10908 -0.06047665969731497 HNQWAEQAVEQ 11 Unmodified _HNQWAEQAVEQ_ 0 0 0 REV__ENST00000469080.5_1_X:47092634-47106681:+|nuORF REV__ENST00000469080.5_1_X:47092634-47106681:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 670.304915 1338.59528 3.7483 0.0025125 1.8199 0.0012199 5.5682 0.0037324 670.3058171988561 17.52 0.26601 17.52 17.369 17.635 0 0 0 NaN 24.882 38 16 4 NaN NaN NaN NaN 0 NaN NaN 0 622980 + 9505 10924 6131 6148 -0.06047665969731497 HNRVRQILM 9 Unmodified _HNRVRQILM_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.5393371582031 3 389.557353 1165.65023 2.9633 0.0011544 -1.2531 -0.00048817 1.7102 0.00066622 389.556214589312 19.316 0.11513 19.974 19.905 20.02 0.65829 13 8 2 0 0 0 0.10127 1 8774 8774 12.241 6.9438 1 197760 9506 4968 6132 6149 10909 10909 0.07403094087862883 HNRVRQRLLLR 11 Unmodified _HNRVRQRLLLR_ 0 0 0 ENST00000492047.1_1_2:74686007-74686662:+|nuORF ENST00000492047.1_1_2:74686007-74686662:+|nuORF ENST00000492047.1_1_2:74686007-74686662:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 730.9558715820312 2 730.955292 1459.89603 NaN NaN NaN NaN NaN NaN NaN 55.474 1 55.474 54.974 55.974 0 0 0 0 1.008 1 25495 25495 0.30703 0.30703 1 9507 8402 6133 6150 10910 10910 0.18447930262072987 HNRYTITAY 9 Unmodified _HNRYTITAY_ 0 0 0 ENSG00000124491|ENST00000264870|F13A1 ENSG00000124491|ENST00000264870|F13A1 ENSG00000124491|ENST00000264870|F13A1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.859130859375 3 380.192845 1137.55671 2.7863 0.0010593 -1.0298 -0.00039152 1.7565 0.00066781 380.1924220101804 16.207 0.42448 16.207 15.952 16.377 0 67 52 2 0 0 0 0.11393 1 7207 7207 1.0715 0.29493 1 88172 9508 2361 6134 6151 10911 10911 -0.006569268135990569 HNVKLTVYI 9 Unmodified _HNVKLTVYI_ 0 0 0 REV__ENSG00000166801|ENST00000675163|FAM111A REV__ENSG00000166801|ENST00000675163|FAM111A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.88275146484375 3 362.88172 1085.62333 2.7026 0.00098073 0.022026 7.9928E-06 2.7246 0.00098872 362.8816663511331 40.064 0.38054 40.064 39.845 40.225 0 38 14 4 0 0 0 0.12301 1 18211 18211 20.415 2.9719 1 1969000 + 9509 13260 6135 6152 10912 10912 0.08394308748324875 HPADKDYGL 9 Unmodified _HPADKDYGL_ 0 0 0 ENSG00000184203|ENST00000618156|PPP1R2;ENST00000462906.1_1_3:195256593-195269923:-|nuORF;ENST00000393023.2_1_13:64385317-64385740:-|nuORF ENSG00000184203|ENST00000618156|PPP1R2 ENSG00000184203|ENST00000618156|PPP1R2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.2474365234375 2 508.245806 1014.47706 3.2094 0.0016311 0.244 0.00012401 3.4534 0.0017552 508.24588754218723 20.052 0.61975 20.052 19.935 20.555 0 143 58 3 0 0 0 0.0020727 5 8968 8924;8968;9017;9060;9109 103.42 67.292 1 2292400 9510 5425 6136 6153 10913;10914;10915;10916;10917 10914 -0.029599934875591316 HPADKDYGL 9 Unmodified _HPADKDYGL_ 0 0 0 ENSG00000184203|ENST00000618156|PPP1R2;ENST00000462906.1_1_3:195256593-195269923:-|nuORF;ENST00000393023.2_1_13:64385317-64385740:-|nuORF ENSG00000184203|ENST00000618156|PPP1R2 ENSG00000184203|ENST00000618156|PPP1R2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.2481994628906 2 508.245806 1014.47706 3.1281 0.0015898 0.63035 0.00032037 3.7584 0.0019102 508.24600489958357 19.679 0.29322 19.971 19.826 20.12 0.29239 52 27 3 0 0 0 0.0027913 2 8959 8911;8959 96.367 60.24 1 1138800 9511 5425 6136 6153 10918;10919 10919 -0.029599934875591316 HPADKDYGL 9 Unmodified _HPADKDYGL_ 0 0 0 ENSG00000184203|ENST00000618156|PPP1R2;ENST00000462906.1_1_3:195256593-195269923:-|nuORF;ENST00000393023.2_1_13:64385317-64385740:-|nuORF ENSG00000184203|ENST00000618156|PPP1R2 ENSG00000184203|ENST00000618156|PPP1R2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.2474365234375 2 508.245806 1014.47706 3.4503 0.0017536 0.1566 7.9593E-05 3.6069 0.0018332 508.24584226543 19.292 0.50452 19.951 19.79 20.294 0.65829 75 36 3 0 0 0 0.011692 3 8755 8712;8755;8803 79.596 43.469 1 1483300 9512 5425 6136 6153 10920;10921;10922 10921 -0.029599934875591316 HPAFIKYVF 9 Unmodified _HPAFIKYVF_ 0 0 0 ENSG00000008513|ENST00000522652|ST3GAL1 ENSG00000008513|ENST00000522652|ST3GAL1 ENSG00000008513|ENST00000522652|ST3GAL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.3135375976562 2 561.310752 1120.60695 NaN NaN NaN NaN NaN NaN NaN 81.646 1 81.646 81.146 82.146 0 0 0 0 0.84134 1 40699 40699 7.9102 3.1541 1 9513 379 6137 6154 10923 10923 0.051472275822106894 HPAGAPLLH 9 Unmodified _HPAGAPLLH_ 0 0 0 ENST00000433688.2_2_11:63531028-63531832:-|nuORF ENST00000433688.2_2_11:63531028-63531832:-|nuORF ENST00000433688.2_2_11:63531028-63531832:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.7574768066406 2 456.756144 911.497735 2.8963 0.0013229 0.81856 0.00037388 3.7149 0.0016968 456.75641570731193 22.169 0.26741 22.169 22.066 22.333 0 34 21 2 0 0 0 0.37584 1 9973 9973 14.582 5.2343 1 154040 9514 7875 6138 6155 10924 10924 0.03844641682758265 HPAGDNVI 8 Unmodified _HPAGDNVI_ 0 0 0 nc|ENSG00000261236|Q14137-2|BOP1;ENSG00000261236|ENST00000569669|BOP1 nc|ENSG00000261236|Q14137-2|BOP1 nc|ENSG00000261236|Q14137-2|BOP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 411.71002197265625 2 411.70886 821.403166 2.8255 0.0011633 0.2776 0.00011429 3.1031 0.0012776 411.7088944716946 20.569 0.38354 20.569 20.427 20.811 0 45 36 2 0 0 0 0.47217 3 9174 9174;9219;9288 23.148 17.918 1 117470 9515 6308 6139 6156 10925;10926;10927 10925 -0.01467916859246543 HPAGDNVI 8 Unmodified _HPAGDNVI_ 0 0 0 nc|ENSG00000261236|Q14137-2|BOP1;ENSG00000261236|ENST00000569669|BOP1 nc|ENSG00000261236|Q14137-2|BOP1 nc|ENSG00000261236|Q14137-2|BOP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 411.7102966308594 2 411.70886 821.403166 3.1427 0.0012939 0.014976 6.1657E-06 3.1576 0.0013 411.708923333894 19.694 0.27145 20.352 20.226 20.498 0.6583 24 19 2 0 0 0 0.37185 1 8909 8909 30.225 20.877 1 144060 9516 6308 6139 6156 10928 10928 -0.01467916859246543 HPAGRYVL 8 Unmodified _HPAGRYVL_ 0 0 0 ENSG00000167601|ENST00000301178|AXL;nc|ENSG00000167601|P30530-2|AXL ENSG00000167601|ENST00000301178|AXL ENSG00000167601|ENST00000301178|AXL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.75732421875 2 456.756144 911.497735 2.8963 0.0013229 0.81856 0.00037388 3.7149 0.0016968 456.75641570731193 22.169 0.26741 22.169 22.066 22.333 0 34 21 2 0 0 0 0.61796 1 9924 9924 12.532 3.1841 1 154040 9517 4562 6140 6157 10929 10929 0.03844641682758265 HPAQGLWN 8 Unmodified _HPAQGLWN_ 0 0 0 ENST00000398598.7_2_21:42798176-42799748:+|nuORF;ENST00000478268.1_1_21:42799112-42799748:+|nuORF ENST00000398598.7_2_21:42798176-42799748:+|nuORF ENST00000398598.7_2_21:42798176-42799748:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 461.7314453125 2 461.730126 921.4457 3.0741 0.0014194 -0.55626 -0.00025684 2.5179 0.0011626 461.72967867601733 96.293 0.5281 96.901 96.672 97.2 0.60769 39 25 2 0 0 0 0.74071 1 44308 44308 2.5775 0.27475 1 554460 9518 7593 6141 6158 10930 10930 -0.018165217310183834 HPARKERR 8 Unmodified _HPARKERR_ 0 0 0 ENSG00000031081|ENST00000264245|ARHGAP31 ENSG00000031081|ENST00000264245|ARHGAP31 ENSG00000031081|ENST00000264245|ARHGAP31 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.3087768554688 2 525.307398 1048.60024 4.1139 0.002161 -2.1572 -0.0011332 1.9567 0.0010279 525.3060886890756 96.114 0.3344 96.391 96.189 96.523 0.27778 25 16 2 0 0 0 0.73686 2 44129 44129;44182 2.8892 0 1 1166000 9519 495 6142 6159 10931;10932 10931 0.07788727474212465 HPARKERR 8 Unmodified _HPARKERR_ 0 0 0 ENSG00000031081|ENST00000264245|ARHGAP31 ENSG00000031081|ENST00000264245|ARHGAP31 ENSG00000031081|ENST00000264245|ARHGAP31 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.3085327148438 2 525.307398 1048.60024 3.5109 0.0018443 -0.53072 -0.00027879 2.9802 0.0015655 525.3068932883531 95.559 0.39906 96.166 95.997 96.396 0.60769 46 21 3 0 0 0 0.73686 3 43916 43916;43967;44014 2.8892 0 1 1758800 9520 495 6142 6159 10933;10934;10935 10933 0.07788727474212465 HPASAEFVL 9 Unmodified _HPASAEFVL_ 0 0 0 ENSG00000132423|ENST00000254759|COQ3 ENSG00000132423|ENST00000254759|COQ3 ENSG00000132423|ENST00000254759|COQ3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.7547607421875 2 485.753267 969.491981 3.2911 0.0015986 0.39964 0.00019413 3.6907 0.0017928 485.7534070611309 51.804 0.24891 51.804 51.598 51.847 0 25 17 2 0 0 0 0.078322 2 23669 23659;23669 38.151 14.298 1 921070 9521 2699 6143 6160 10936;10937 10937 0.006014983804220719 HPASAEFVL 9 Unmodified _HPASAEFVL_ 0 0 0 ENSG00000132423|ENST00000254759|COQ3 ENSG00000132423|ENST00000254759|COQ3 ENSG00000132423|ENST00000254759|COQ3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.7544250488281 2 485.753267 969.491981 2.9505 0.0014332 0.26986 0.00013109 3.2204 0.0015643 485.75330865353897 50.779 0.26906 51.597 51.434 51.703 0.81738 23 14 2 0 0 0 0.056465 1 23131 23131 44.407 15.92 1 314370 9522 2699 6143 6160 10938 10938 0.006014983804220719 HPASAEFVL 9 Unmodified _HPASAEFVL_ 0 0 0 ENSG00000132423|ENST00000254759|COQ3 ENSG00000132423|ENST00000254759|COQ3 ENSG00000132423|ENST00000254759|COQ3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 485.753267 969.491981 2.9571 0.0014364 0.05453 2.6488E-05 3.0116 0.0014629 485.7531627098229 51.696 0.19081 51.958 51.792 51.982 0.26228 0.17172 -0.00024107 NaN 44.407 11 9 2 NaN NaN NaN NaN 0 NaN NaN 0 359980 9523 2699 6143 6160 0.006014983804220719 HPASSDPRF 9 Unmodified _HPASSDPRF_ 0 0 0 ENSG00000008086|ENST00000623535|CDKL5;nc|ENSG00000008086|O76039-1|CDKL5 ENSG00000008086|ENST00000623535|CDKL5 ENSG00000008086|ENST00000623535|CDKL5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.24530029296875 2 507.243598 1012.47264 3.108 0.0015765 0.47165 0.00023924 3.5796 0.0018158 507.2439400983563 14.028 0.21113 14.028 13.951 14.163 0 20 12 2 0 0 0 0.11458 1 6183 6183 29.082 12.139 1 665500 9524 372 6144 6161 10939 10939 -0.033094579104840705 HPASSDPRF 9 Unmodified _HPASSDPRF_ 0 0 0 ENSG00000008086|ENST00000623535|CDKL5;nc|ENSG00000008086|O76039-1|CDKL5 ENSG00000008086|ENST00000623535|CDKL5 ENSG00000008086|ENST00000623535|CDKL5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.24517822265625 2 507.243598 1012.47264 2.8651 0.0014533 0.23578 0.0001196 3.1009 0.0015729 507.24379971030504 13.422 0.25678 13.666 13.496 13.753 0.24346 45 24 3 0 0 0 0.093314 1 5827 5827 34.402 21.87 1 491280 9525 372 6144 6161 10940 10940 -0.033094579104840705 HPASSDPRF 9 Unmodified _HPASSDPRF_ 0 0 0 ENSG00000008086|ENST00000623535|CDKL5;nc|ENSG00000008086|O76039-1|CDKL5 ENSG00000008086|ENST00000623535|CDKL5 ENSG00000008086|ENST00000623535|CDKL5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.7479248046875 2 507.243598 1012.47264 2.8031 0.0014219 0.84179 0.00042699 3.6449 0.0018488 507.2438971161952 13.457 0.29031 13.764 13.594 13.884 0.30727 33 22 2 0 0 0 0.26277 2 6034 6034;6080 19.257 6.7254 1 197820 9526 372 6144 6161 10941;10942 10941 -0.033094579104840705 HPASSDPRF 9 Unmodified _HPASSDPRF_ 0 0 0 ENSG00000008086|ENST00000623535|CDKL5;nc|ENSG00000008086|O76039-1|CDKL5 ENSG00000008086|ENST00000623535|CDKL5 ENSG00000008086|ENST00000623535|CDKL5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.24566650390625 2 507.243598 1012.47264 3.4959 0.0017733 1.0764 0.00054599 4.5723 0.0023193 507.24393732923977 12.952 0.24494 13.595 13.48 13.725 0.64272 16 7 3 0 0 0 0.11458 1 5819 5819 29.082 16.55 1 407410 9527 372 6144 6161 10943 10943 -0.033094579104840705 HPATRTVL 8 Unmodified _HPATRTVL_ 0 0 0 ENSG00000136052|ENST00000258538|SLC41A2 ENSG00000136052|ENST00000258538|SLC41A2 ENSG00000136052|ENST00000258538|SLC41A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 447.76287841796875 2 447.761426 893.5083 2.8498 0.001276 -0.20967 -9.388E-05 2.6402 0.0011822 447.7613970922477 14.141 0.16363 14.141 14.059 14.222 0 27 11 3 0 0 0 0.062889 1 6213 6213 61.357 19.263 1 2662600 9528 2924 6145 6162 10944 10944 0.057286243371777346 HPATRTVL 8 Unmodified _HPATRTVL_ 0 0 0 ENSG00000136052|ENST00000258538|SLC41A2 ENSG00000136052|ENST00000258538|SLC41A2 ENSG00000136052|ENST00000258538|SLC41A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 447.7626953125 2 447.761426 893.5083 2.6255 0.0011756 -0.28483 -0.00012754 2.3406 0.001048 447.76123028301487 13.764 0.13802 14.008 13.959 14.097 0.24346 25 19 2 0 0 0 0.15565 1 6010 6010 47.749 15.443 1 2347600 9529 2924 6145 6162 10945 10945 0.057286243371777346 HPATRTVL 8 Unmodified _HPATRTVL_ 0 0 0 ENSG00000136052|ENST00000258538|SLC41A2 ENSG00000136052|ENST00000258538|SLC41A2 ENSG00000136052|ENST00000258538|SLC41A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 447.7624206542969 2 447.761426 893.5083 2.5004 0.0011196 -0.21027 -9.4153E-05 2.2901 0.0010254 447.7613676114016 13.797 0.14558 14.105 14.012 14.157 0.30727 27 15 2 0 0 0 0.033113 1 6246 6246 74.929 34.972 1 2652800 9530 2924 6145 6162 10946 10946 0.057286243371777346 HPATRTVL 8 Unmodified _HPATRTVL_ 0 0 0 ENSG00000136052|ENST00000258538|SLC41A2 ENSG00000136052|ENST00000258538|SLC41A2 ENSG00000136052|ENST00000258538|SLC41A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 447.7629089355469 2 447.761426 893.5083 3.2637 0.0014613 -0.37232 -0.00016671 2.8913 0.0012946 447.7613189022778 13.153 0.39126 13.796 13.612 14.003 0.64272 64 26 3 0 0 0 0.078308 2 5889 5889;5936 56.177 23.872 1 3213200 9531 2924 6145 6162 10947;10948 10947 0.057286243371777346 HPAVVFSVQL 10 Unmodified _HPAVVFSVQL_ 0 0 0 ENSG00000244165|ENST00000321826|P2RY11 ENSG00000244165|ENST00000321826|P2RY11 ENSG00000244165|ENST00000321826|P2RY11 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.7890625 2 548.811116 1095.60768 3.5771 0.0019632 -0.3249 -0.00017831 3.2522 0.0017849 548.8110619143115 52.199 0.22391 52.199 52.026 52.25 0 18 15 2 0 0 0 0.090504 1 23885 23885 38.176 3.7738 1 516300 9532 6248 6146 6163 10949 10949 0.0637002223129457 HPAVVIRQR 9 Unmodified _HPAVVIRQR_ 0 0 0 ENSG00000125691|ENST00000479035|RPL23;ENST00000584912.5_1_17:37006588-37006753:-|nuORF;ENST00000584583.1_1_17:37006387-37006753:-|nuORF ENSG00000125691|ENST00000479035|RPL23 ENSG00000125691|ENST00000479035|RPL23 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.3295288085938 2 538.327799 1074.64105 3.508 0.0018884 -0.86763 -0.00046707 2.6404 0.0014214 538.3272323033806 97.003 0.42202 97.605 97.358 97.78 0.6019 79 19 5 0 0 0 1.2289 1 44575 44575 0 0 1 35189000 9533 2415 6147 6164 10950 10950 0.10671068793840277 HPAWYGDTL 9 Unmodified _HPAWYGDTL_ 0 0 0 nc|ENSG00000007202|Q14667-2|BLTP2;ENSG00000007202|ENST00000528896|BLTP2 nc|ENSG00000007202|Q14667-2|BLTP2 nc|ENSG00000007202|Q14667-2|BLTP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.2508544921875 2 530.248349 1058.48214 3.049 0.0016167 0.39372 0.00020877 3.4427 0.0018255 530.2485738706392 50.17 0.28186 50.17 50.054 50.336 0 20 14 2 0 0 0 0.020956 1 22957 22957 67.035 30.908 1 475160 9534 362 6148 6165 10951 10951 -0.04475689624950974 HPAWYGDTL 9 Unmodified _HPAWYGDTL_ 0 0 0 nc|ENSG00000007202|Q14667-2|BLTP2;ENSG00000007202|ENST00000528896|BLTP2 nc|ENSG00000007202|Q14667-2|BLTP2 nc|ENSG00000007202|Q14667-2|BLTP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.2500610351562 2 530.248349 1058.48214 NaN NaN NaN NaN NaN NaN NaN 48.997 1 49.824 49.324 50.324 0.82705 0 0 0 0.023681 1 22322 22322 67.035 36.399 1 9535 362 6148 6165 10952 10952 -0.04475689624950974 HPAWYGDTL 9 Unmodified _HPAWYGDTL_ 0 0 0 nc|ENSG00000007202|Q14667-2|BLTP2;ENSG00000007202|ENST00000528896|BLTP2 nc|ENSG00000007202|Q14667-2|BLTP2 nc|ENSG00000007202|Q14667-2|BLTP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.2506713867188 2 530.248349 1058.48214 NaN NaN NaN NaN NaN NaN NaN 49.022 1 49.849 49.349 50.349 0.82705 0 0 0 0.023681 1 22334 22334 67.035 24.941 1 9536 362 6148 6165 10953 10953 -0.04475689624950974 HPAWYGDTL 9 Unmodified _HPAWYGDTL_ 0 0 0 nc|ENSG00000007202|Q14667-2|BLTP2;ENSG00000007202|ENST00000528896|BLTP2 nc|ENSG00000007202|Q14667-2|BLTP2 nc|ENSG00000007202|Q14667-2|BLTP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.249267578125 2 530.248349 1058.48214 NaN NaN NaN NaN NaN NaN NaN 49.125 1 49.952 49.452 50.452 0.82705 0 0 0 0.07219 1 22380 22380 46.921 20.58 1 9537 362 6148 6165 10954 10954 -0.04475689624950974 HPAYTEEEL 9 Unmodified _HPAYTEEEL_ 0 0 0 ENST00000485798.5_1_19:49403599-49425678:+|nuORF;ENST00000492367.1_1_19:49422384-49425678:+|nuORF;ENSG00000104805|ENST00000405315|NUCB1 ENST00000485798.5_1_19:49403599-49425678:+|nuORF ENST00000485798.5_1_19:49403599-49425678:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.7509765625 2 544.748379 1087.4822 NaN NaN NaN NaN NaN NaN NaN 30.767 1 31.023 30.523 31.523 0.25614 0 0 0 0.22092 1 14002 14002 30.225 0 1 9538 1450 6149 6166 10955 10955 -0.05803734415621875 HPAYTEEEL 9 Unmodified _HPAYTEEEL_ 0 0 0 ENST00000485798.5_1_19:49403599-49425678:+|nuORF;ENST00000492367.1_1_19:49422384-49425678:+|nuORF;ENSG00000104805|ENST00000405315|NUCB1 ENST00000485798.5_1_19:49403599-49425678:+|nuORF ENST00000485798.5_1_19:49403599-49425678:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.7510986328125 2 544.748379 1087.4822 3.5127 0.0019135 0.32713 0.0001782 3.8398 0.0020917 544.7486395310993 30.443 0.29737 31.06 30.892 31.189 0.61737 31 21 2 0 0 0 0.020718 2 13995 13947;13995 67.344 40.414 1 446500 9539 1450 6149 6166 10956;10957 10957 -0.05803734415621875 HPCCQCWCI 9 Unmodified _HPCCQCWCI_ 0 0 0 REV__nc|ENSG00000105699|Q86X29-2|LSR REV__nc|ENSG00000105699|Q86X29-2|LSR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.6982421875 2 546.697743 1091.38093 NaN NaN NaN NaN NaN NaN NaN 27.825 1 27.825 27.325 28.325 0 0 0 0 0.90511 1 12536 12536 2.3027 0 1 + 9540 11049 6150 6167 10958 10958 -0.16110247186838933 HPCLPQLAHPR 11 Unmodified _HPCLPQLAHPR_ 0 0 0 ENST00000265854.11_1_7:1855586-1937851:-|nuORF ENST00000265854.11_1_7:1855586-1937851:-|nuORF ENST00000265854.11_1_7:1855586-1937851:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 634.8360595703125 2 634.837674 1267.66079 NaN NaN NaN NaN NaN NaN NaN 36.55 1 36.808 36.308 37.308 0.25768 0 0 0 1.0034 1 16649 16649 6.2058 2.6093 1 9541 6624 6151 6168 10959 10959 0.037670767422923745 HPDDELVL 8 Unmodified _HPDDELVL_ 0 0 0 ENST00000461116.1_1_7:44157158-44161472:-|nuORF;ENST00000470867.5_1_7:44156819-44163110:-|nuORF;ENST00000463464.5_1_7:44156730-44161694:-|nuORF;ENSG00000106628|ENST00000610533|POLD2 ENST00000461116.1_1_7:44157158-44161472:-|nuORF ENST00000461116.1_1_7:44157158-44161472:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.2362976074219 2 469.234907 936.455261 2.8531 0.0013388 0.20891 9.8029E-05 3.062 0.0014368 469.2349669611742 48.802 0.51041 48.802 48.567 49.078 0 48 28 2 0 0 0 0.067539 3 22347 22295;22347;22402 59.795 19.347 1 799790 9542 1580 6152 6169 10960;10961;10962 10961 -0.015507982361441464 HPDDELVL 8 Unmodified _HPDDELVL_ 0 0 0 ENST00000461116.1_1_7:44157158-44161472:-|nuORF;ENST00000470867.5_1_7:44156819-44163110:-|nuORF;ENST00000463464.5_1_7:44156730-44161694:-|nuORF;ENSG00000106628|ENST00000610533|POLD2 ENST00000461116.1_1_7:44157158-44161472:-|nuORF ENST00000461116.1_1_7:44157158-44161472:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.236328125 2 469.234907 936.455261 2.7361 0.0012839 0.30668 0.00014391 3.0427 0.0014278 469.2346336842892 47.719 0.5458 48.548 48.305 48.851 0.82915 47 27 2 0 0 0 0.13778 2 21701 21701;21757 49.669 15.482 1 651450 9543 1580 6152 6169 10963;10964 10963 -0.015507982361441464 HPDDELVL 8 Unmodified _HPDDELVL_ 0 0 0 ENST00000461116.1_1_7:44157158-44161472:-|nuORF;ENST00000470867.5_1_7:44156819-44163110:-|nuORF;ENST00000463464.5_1_7:44156730-44161694:-|nuORF;ENSG00000106628|ENST00000610533|POLD2 ENST00000461116.1_1_7:44157158-44161472:-|nuORF ENST00000461116.1_1_7:44157158-44161472:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 469.2354736328125 2 469.234907 936.455261 2.974 0.0013955 -0.77167 -0.0003621 2.2024 0.0010334 469.2345586616933 48.704 0.28513 48.966 48.775 49.06 0.26209 16 11 2 0 0 0 0.067539 1 22267 22267 59.795 19.347 1 687140 9544 1580 6152 6169 10965 10965 -0.015507982361441464 HPDDELVL 8 Unmodified _HPDDELVL_ 0 0 0 ENST00000461116.1_1_7:44157158-44161472:-|nuORF;ENST00000470867.5_1_7:44156819-44163110:-|nuORF;ENST00000463464.5_1_7:44156730-44161694:-|nuORF;ENSG00000106628|ENST00000610533|POLD2 ENST00000461116.1_1_7:44157158-44161472:-|nuORF ENST00000461116.1_1_7:44157158-44161472:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 469.23687744140625 2 469.234907 936.455261 2.9971 0.0014064 -0.082078 -3.8514E-05 2.915 0.0013678 469.23486251540584 48.042 0.50279 48.695 48.508 49.011 0.65356 30 19 2 0 0 0 0.13778 2 21983 21983;22042 49.669 15.482 1 411620 9545 1580 6152 6169 10966;10967 10966 -0.015507982361441464 HPDEDISL 8 Unmodified _HPDEDISL_ 0 0 0 ENST00000584696.1_1_17:30693734-30695045:+|nuORF;nc|ENSG00000010244|O43670-3|ZNF207;nc|ENSG00000010244|O43670-2|ZNF207;nc|ENSG00000010244|O43670|ZNF207;ENSG00000010244|ENST00000394670|ZNF207 ENST00000584696.1_1_17:30693734-30695045:+|nuORF ENST00000584696.1_1_17:30693734-30695045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.2182312011719 2 463.216714 924.418876 2.8009 0.0012974 0.21845 0.00010119 3.0194 0.0013986 463.21680187954075 37.186 0.89862 37.186 36.886 37.784 0 96 34 4 0 0 0 0.021444 6 16846 16792;16846;16895;16943;16999;17068 86.121 36.452 1 10021000 9546 396 6153 6170 10968;10969;10970;10971;10972;10973 10969 -0.04635675132851702 HPDEDISL 8 Unmodified _HPDEDISL_ 0 0 0 ENST00000584696.1_1_17:30693734-30695045:+|nuORF;nc|ENSG00000010244|O43670-3|ZNF207;nc|ENSG00000010244|O43670-2|ZNF207;nc|ENSG00000010244|O43670|ZNF207;ENSG00000010244|ENST00000394670|ZNF207 ENST00000584696.1_1_17:30693734-30695045:+|nuORF ENST00000584696.1_1_17:30693734-30695045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 925.43115234375 1 925.426152 924.418876 3.7975 0.0035143 -1.3359 -0.0012363 2.4616 0.0022781 925.4236937554838 37.197 0.75431 37.197 37.01 37.765 0 39 28 2 0 0 0 0.025999 2 16860 16860;16919 81.864 34.943 1 738210 9547 396 6153 6170 10974;10975 10974 -0.04635675132851702 HPDEDISL 8 Unmodified _HPDEDISL_ 0 0 0 ENST00000584696.1_1_17:30693734-30695045:+|nuORF;nc|ENSG00000010244|O43670-3|ZNF207;nc|ENSG00000010244|O43670-2|ZNF207;nc|ENSG00000010244|O43670|ZNF207;ENSG00000010244|ENST00000394670|ZNF207 ENST00000584696.1_1_17:30693734-30695045:+|nuORF ENST00000584696.1_1_17:30693734-30695045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.21893310546875 2 463.216714 924.418876 2.8287 0.0013103 0.3346 0.00015499 3.1633 0.0014653 463.21687283756506 36.096 0.95172 36.887 36.66 37.612 0.79131 120 42 4 0 0 0 0.021444 6 16304 16304;16360;16415;16473;16519;16626 86.121 36.452 1 8326100 9548 396 6153 6170 10976;10977;10978;10979;10980;10981 10976 -0.04635675132851702 HPDEDISL 8 Unmodified _HPDEDISL_ 0 0 0 ENST00000584696.1_1_17:30693734-30695045:+|nuORF;nc|ENSG00000010244|O43670-3|ZNF207;nc|ENSG00000010244|O43670-2|ZNF207;nc|ENSG00000010244|O43670|ZNF207;ENSG00000010244|ENST00000394670|ZNF207 ENST00000584696.1_1_17:30693734-30695045:+|nuORF ENST00000584696.1_1_17:30693734-30695045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 925.4265747070312 1 925.426152 924.418876 3.6646 0.0033913 -0.062123 -5.749E-05 3.6025 0.0033338 925.4255298807161 36.102 0.26716 36.894 36.757 37.024 0.79132 17 9 2 0 0 0 0.056325 1 16370 16370 63.563 31.446 1 414540 9549 396 6153 6170 10982 10982 -0.04635675132851702 HPDEDISL 8 Unmodified _HPDEDISL_ 0 0 0 ENST00000584696.1_1_17:30693734-30695045:+|nuORF;nc|ENSG00000010244|O43670-3|ZNF207;nc|ENSG00000010244|O43670-2|ZNF207;nc|ENSG00000010244|O43670|ZNF207;ENSG00000010244|ENST00000394670|ZNF207 ENST00000584696.1_1_17:30693734-30695045:+|nuORF ENST00000584696.1_1_17:30693734-30695045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.21795654296875 2 463.216714 924.418876 2.8402 0.0013156 0.22048 0.00010213 3.0607 0.0014178 463.2168075413291 37.077 0.90122 37.338 37.022 37.923 0.26083 79 28 4 0 0 0 0.021444 4 16859 16793;16859;16918;16975 86.121 36.452 1 6163600 9550 396 6153 6170 10983;10984;10985;10986 10984 -0.04635675132851702 HPDEDISL 8 Unmodified _HPDEDISL_ 0 0 0 ENST00000584696.1_1_17:30693734-30695045:+|nuORF;nc|ENSG00000010244|O43670-3|ZNF207;nc|ENSG00000010244|O43670-2|ZNF207;nc|ENSG00000010244|O43670|ZNF207;ENSG00000010244|ENST00000394670|ZNF207 ENST00000584696.1_1_17:30693734-30695045:+|nuORF ENST00000584696.1_1_17:30693734-30695045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 925.4329223632812 1 925.426152 924.418876 3.9346 0.0036412 0.17592 0.0001628 4.1106 0.003804 925.4261809837467 37.042 0.41479 37.302 37.126 37.541 0.26083 19 12 2 0 0 0 0.10141 2 16855 16855;16917 53.576 28.902 1 310600 9551 396 6153 6170 10987;10988 10987 -0.04635675132851702 HPDEDISL 8 Unmodified _HPDEDISL_ 0 0 0 ENST00000584696.1_1_17:30693734-30695045:+|nuORF;nc|ENSG00000010244|O43670-3|ZNF207;nc|ENSG00000010244|O43670-2|ZNF207;nc|ENSG00000010244|O43670|ZNF207;ENSG00000010244|ENST00000394670|ZNF207 ENST00000584696.1_1_17:30693734-30695045:+|nuORF ENST00000584696.1_1_17:30693734-30695045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.218505859375 2 463.216714 924.418876 2.9407 0.0013622 0.26282 0.00012174 3.2035 0.0014839 463.21682857994216 36.45 1.0228 37.08 36.765 37.788 0.62999 111 39 4 0 0 0 0.021444 5 16617 16617;16685;16735;16785;16939 86.121 36.452 1 4745400 9552 396 6153 6170 10989;10990;10991;10992;10993 10989 -0.04635675132851702 HPDEDISL 8 Unmodified _HPDEDISL_ 0 0 0 ENST00000584696.1_1_17:30693734-30695045:+|nuORF;nc|ENSG00000010244|O43670-3|ZNF207;nc|ENSG00000010244|O43670-2|ZNF207;nc|ENSG00000010244|O43670|ZNF207;ENSG00000010244|ENST00000394670|ZNF207 ENST00000584696.1_1_17:30693734-30695045:+|nuORF ENST00000584696.1_1_17:30693734-30695045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 925.4320678710938 1 925.426152 924.418876 3.9823 0.0036853 0.47916 0.00044343 4.4615 0.0041288 925.4264174735026 36.41 0.4541 37.038 36.846 37.3 0.62746 27 16 2 0 0 0 0.10141 3 16711 16654;16711;16770 53.576 21.459 1 254640 9553 396 6153 6170 10994;10995;10996 10995 -0.04635675132851702 HPDEPLYSF 9 Unmodified _HPDEPLYSF_ 0 0 0 ENSG00000119041|ENST00000263956|GTF3C3 ENSG00000119041|ENST00000263956|GTF3C3 ENSG00000119041|ENST00000263956|GTF3C3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.7559814453125 2 552.753464 1103.49238 3.6882 0.0020387 0.11218 6.2009E-05 3.8004 0.0021007 552.7535662093294 54.931 0.48864 54.931 54.707 55.196 0 86 49 2 0 0 0 0.0019388 4 25192 25145;25192;25237;25282 104.8 62.705 1 2944100 9554 2132 6154 6171 10997;10998;10999;11000 10998 -0.05523126690377467 HPDEPLYSF 9 Unmodified _HPDEPLYSF_ 0 0 0 ENSG00000119041|ENST00000263956|GTF3C3 ENSG00000119041|ENST00000263956|GTF3C3 ENSG00000119041|ENST00000263956|GTF3C3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.7552490234375 2 552.753464 1103.49238 3.0435 0.0016823 0.18206 0.00010063 3.2255 0.0017829 552.7533367877286 53.627 0.57646 54.43 54.213 54.79 0.80351 87 38 3 0 0 0 0.0010612 4 24478 24408;24478;24529;24581 125.62 83.53 1 6694800 9555 2132 6154 6171 11001;11002;11003;11004 11002 -0.05523126690377467 HPDEPLYSF 9 Unmodified _HPDEPLYSF_ 0 0 0 ENSG00000119041|ENST00000263956|GTF3C3 ENSG00000119041|ENST00000263956|GTF3C3 ENSG00000119041|ENST00000263956|GTF3C3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.7555541992188 2 552.753464 1103.49238 3.2534 0.0017983 0.52897 0.00029239 3.7824 0.0020907 552.753580326001 54.895 0.42842 55.16 54.972 55.401 0.26543 57 37 2 0 0 0 0.0014044 3 25038 25038;25085;25135 112.59 70.499 1 2204800 9556 2132 6154 6171 11005;11006;11007 11005 -0.05523126690377467 HPDEPLYSF 9 Unmodified _HPDEPLYSF_ 0 0 0 ENSG00000119041|ENST00000263956|GTF3C3 ENSG00000119041|ENST00000263956|GTF3C3 ENSG00000119041|ENST00000263956|GTF3C3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.7552490234375 2 552.753464 1103.49238 3.3862 0.0018717 0.087904 4.8589E-05 3.4741 0.0019203 552.7533884774048 54.113 0.46555 54.78 54.654 55.119 0.6665 64 25 3 0 0 0 0.0019388 3 24827 24718;24769;24827 104.8 62.705 1 2182500 9557 2132 6154 6171 11008;11009;11010 11010 -0.05523126690377467 HPDFDASTL 9 Unmodified _HPDFDASTL_ 0 0 0 nc|ENSG00000116062|P52701-2|MSH6;ENSG00000116062|ENST00000234420|MSH6;nc|ENSG00000116062|P52701-4|MSH6;nc|ENSG00000116062|P52701-3|MSH6 nc|ENSG00000116062|P52701-2|MSH6 nc|ENSG00000116062|P52701-2|MSH6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.7320861816406 2 501.729989 1001.44543 2.9879 0.0014991 1.3616 0.00068317 4.3495 0.0021823 501.73080097143963 42.417 0.49805 42.417 42.362 42.86 0 44 33 2 0 0 0 0.22507 1 19353 19353 21.747 12.399 1 754830 9558 2011 6155 6172 11011 11011 -0.055239862415191965 HPDFDASTL 9 Unmodified _HPDFDASTL_ 0 0 0 nc|ENSG00000116062|P52701-2|MSH6;ENSG00000116062|ENST00000234420|MSH6;nc|ENSG00000116062|P52701-4|MSH6;nc|ENSG00000116062|P52701-3|MSH6 nc|ENSG00000116062|P52701-2|MSH6 nc|ENSG00000116062|P52701-2|MSH6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.1607360839844 2 501.729989 1001.44543 3.3402 0.0016759 0.67272 0.00033752 4.0129 0.0020134 502.2315364745631 42.439 0.23921 42.709 42.571 42.81 0.27021 17 11 2 0 0 0 0.024236 1 19326 19326 34.102 12.356 1 290940 9559 2011 6155 6172 11012 11012 -0.055239862415191965 HPDFPTVL 8 Unmodified _HPDFPTVL_ 0 0 0 ENSG00000163029|ENST00000448223|SMC6;nc|ENSG00000163029|Q96SB8-2|SMC6 ENSG00000163029|ENST00000448223|SMC6 ENSG00000163029|ENST00000448223|SMC6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.2438049316406 2 463.242535 924.470518 NaN NaN NaN NaN NaN NaN NaN 59.27 1 60.029 59.529 60.529 0.75894 0 0 0 0.33009 1 27242 27242 34.187 7.8461 1 9560 4186 6156 6173 11013 11013 0.005261133517024064 HPDFPTVL 8 Unmodified _HPDFPTVL_ 0 0 0 ENSG00000163029|ENST00000448223|SMC6;nc|ENSG00000163029|Q96SB8-2|SMC6 ENSG00000163029|ENST00000448223|SMC6 ENSG00000163029|ENST00000448223|SMC6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.2439880371094 2 463.242535 924.470518 2.7582 0.0012777 0.535 0.00024784 3.2932 0.0015256 463.2426944539375 60.066 0.38236 60.322 60.121 60.503 0.25578 28 17 2 0 0 0 0.42655 1 27517 27517 26.341 6.9023 1 299780 9561 4186 6156 6173 11014 11014 0.005261133517024064 HPDFSPCSF 9 Carbamidomethyl (C) _HPDFSPC(Carbamidomethyl (C))SF_ HPDFSPC(1)SF HPDFSPC(61)SF 0 1 0 ENSG00000078399|ENST00000343483|HOXA9 ENSG00000078399|ENST00000343483|HOXA9 ENSG00000078399|ENST00000343483|HOXA9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.2254638671875 2 547.224017 1092.43348 3.7175 0.0020343 -0.053789 -2.9435E-05 3.6637 0.0020049 547.2237221176091 48.499 0.67289 48.499 48.349 49.022 0 84 40 3 0 0 0 0.025323 4 22203 22203;22254;22385;22405 61.357 44.415 1 742450 9562 878 6157 6174 11015;11016;11017;11018 11015 18 -0.1090392625635559 HPDFSPCSF 9 Carbamidomethyl (C) _HPDFSPC(Carbamidomethyl (C))SF_ HPDFSPC(1)SF HPDFSPC(48)SF 0 1 0 ENSG00000078399|ENST00000343483|HOXA9 ENSG00000078399|ENST00000343483|HOXA9 ENSG00000078399|ENST00000343483|HOXA9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.226318359375 2 547.224017 1092.43348 3.0907 0.0016913 0.19997 0.00010943 3.2907 0.0018007 547.224225618733 47.337 0.71069 48.166 47.957 48.668 0.82915 62 39 2 0 0 0 0.047285 2 21692 21634;21692 48.346 33.489 1 1009900 9563 878 6157 6174 11019;11020 11020 18 -0.1090392625635559 HPDFSPCSF 9 Carbamidomethyl (C) _HPDFSPC(Carbamidomethyl (C))SF_ HPDFSPC(1)SF HPDFSPC(71)SF 0 1 0 ENSG00000078399|ENST00000343483|HOXA9 ENSG00000078399|ENST00000343483|HOXA9 ENSG00000078399|ENST00000343483|HOXA9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.2261352539062 2 547.224017 1092.43348 3.708 0.0020291 -0.1581 -8.6515E-05 3.5499 0.0019426 547.2240001445413 48.541 0.64716 48.803 48.552 49.2 0.26209 54 34 2 0 0 0 0.017868 4 22133 22133;22178;22232;22300 71.134 50.68 1 926770 9564 878 6157 6174 11021;11022;11023;11024 11021 18 -0.1090392625635559 HPDFSPCSF 9 Carbamidomethyl (C) _HPDFSPC(Carbamidomethyl (C))SF_ HPDFSPC(1)SF HPDFSPC(74)SF 0 1 0 ENSG00000078399|ENST00000343483|HOXA9 ENSG00000078399|ENST00000343483|HOXA9 ENSG00000078399|ENST00000343483|HOXA9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.2258911132812 2 547.224017 1092.43348 3.6129 0.0019771 0.22983 0.00012577 3.8427 0.0021028 547.2241139979968 47.931 0.81049 48.584 48.34 49.15 0.65356 65 33 3 0 0 0 0.015468 4 21964 21902;21964;22024;22080 74.423 52.676 1 788900 9565 878 6157 6174 11025;11026;11027;11028 11026 18 -0.1090392625635559 HPDHQDIL 8 Unmodified _HPDHQDIL_ 0 0 0 nc|ENSG00000129675|Q15052-2|ARHGEF6;ENSG00000129675|ENST00000250617|ARHGEF6 nc|ENSG00000129675|Q15052-2|ARHGEF6 nc|ENSG00000129675|Q15052-2|ARHGEF6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.9761657714844 2 487.738148 973.461744 3.293 0.0016061 0.37961 0.00018515 3.6726 0.0017913 487.7381195038664 20.721 0.61479 20.721 20.542 21.156 0 108 48 3 0 0 0 0.090294 1 9264 9264 34.102 34.102 1 291180 9566 2561 6158 6175 11029 11029 -0.026048602847708935 HPDHQDIL 8 Unmodified _HPDHQDIL_ 0 0 0 nc|ENSG00000129675|Q15052-2|ARHGEF6;ENSG00000129675|ENST00000250617|ARHGEF6 nc|ENSG00000129675|Q15052-2|ARHGEF6 nc|ENSG00000129675|Q15052-2|ARHGEF6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 487.738148 973.461744 3.3753 0.0016463 0.38261 0.00018661 3.7579 0.0018329 487.7381819743839 19.707 0.57711 20.365 20.196 20.773 0.65829 -0.17759 1.678E-06 NaN 34.102 71 48 2 NaN NaN NaN NaN 0 NaN NaN 0 283100 9567 2561 6158 6175 -0.026048602847708935 HPDKDVRL 8 Unmodified _HPDKDVRL_ 0 0 0 PDS5B|p.R112Dfs*3|1|0.28|ENSG00000083642|chr13:32658259-32658259|A/-|frameshift_variant;nc|ENSG00000083642|Q9NTI5-4|PDS5B;ENST00000493653.1_1_13:33222909-33226198:+|nuORF;nc|ENSG00000083642|Q9NTI5-3|PDS5B;ENST00000498550.5_1_13:33222909-33262824:+|nuORF;nc|ENSG00000083642|Q9NTI5-2|PDS5B;ENSG00000083642|ENST00000315596|PDS5B PDS5B|p.R112Dfs*3|1|0.28|ENSG00000083642|chr13:32658259-32658259|A/-|frameshift_variant PDS5B|p.R112Dfs*3|1|0.28|ENSG00000083642|chr13:32658259-32658259|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 327.1826477050781 3 327.182169 978.524678 2.3531 0.0007699 -0.15377 -5.0311E-05 2.1994 0.00071959 327.18220307498234 12.606 0.1911 12.606 12.508 12.699 0 23 15 3 0 0 0 0.033633 1 5492 5492 62.573 20.733 1 2401700 9568 941 6159 6176 11030 11030 0.03455705503279205 HPDKDVRL 8 Unmodified _HPDKDVRL_ 0 0 0 PDS5B|p.R112Dfs*3|1|0.28|ENSG00000083642|chr13:32658259-32658259|A/-|frameshift_variant;nc|ENSG00000083642|Q9NTI5-4|PDS5B;ENST00000493653.1_1_13:33222909-33226198:+|nuORF;nc|ENSG00000083642|Q9NTI5-3|PDS5B;ENST00000498550.5_1_13:33222909-33262824:+|nuORF;nc|ENSG00000083642|Q9NTI5-2|PDS5B;ENSG00000083642|ENST00000315596|PDS5B PDS5B|p.R112Dfs*3|1|0.28|ENSG00000083642|chr13:32658259-32658259|A/-|frameshift_variant PDS5B|p.R112Dfs*3|1|0.28|ENSG00000083642|chr13:32658259-32658259|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 327.18304443359375 3 327.182169 978.524678 1.7915 0.00058614 0.30401 9.9467E-05 2.0955 0.00068561 327.18225854151945 12.452 0.051232 12.714 12.686 12.737 0.26154 6 3 2 0 0 0 0.033633 1 5400 5400 62.573 20.733 1 2988100 9569 941 6159 6176 11031 11031 0.03455705503279205 HPDKDVRL 8 Unmodified _HPDKDVRL_ 0 0 0 PDS5B|p.R112Dfs*3|1|0.28|ENSG00000083642|chr13:32658259-32658259|A/-|frameshift_variant;nc|ENSG00000083642|Q9NTI5-4|PDS5B;ENST00000493653.1_1_13:33222909-33226198:+|nuORF;nc|ENSG00000083642|Q9NTI5-3|PDS5B;ENST00000498550.5_1_13:33222909-33262824:+|nuORF;nc|ENSG00000083642|Q9NTI5-2|PDS5B;ENSG00000083642|ENST00000315596|PDS5B PDS5B|p.R112Dfs*3|1|0.28|ENSG00000083642|chr13:32658259-32658259|A/-|frameshift_variant PDS5B|p.R112Dfs*3|1|0.28|ENSG00000083642|chr13:32658259-32658259|A/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 326.84869384765625 3 327.182169 978.524678 2.5892 0.00084715 -0.10213 -3.3415E-05 2.4871 0.00081373 327.1822377142052 12.399 0.072753 13.038 13.015 13.088 0.63828 5 3 2 0 0 0 0.071866 1 5566 5566 34.402 3.7652 1 2424200 9570 941 6159 6176 11032 11032 0.03455705503279205 HPDLQSNLL 9 Unmodified _HPDLQSNLL_ 0 0 0 ENSG00000131067|ENST00000336431|GGT7 ENSG00000131067|ENST00000336431|GGT7 ENSG00000131067|ENST00000336431|GGT7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 518.7750854492188 2 518.774731 1035.53491 NaN NaN NaN NaN NaN NaN NaN 47.876 1 48.14 47.64 48.64 0.26363 0 0 0 0.13912 1 21885 21885 34.402 8.1336 1 9571 2638 6160 6177 11033 11033 0.018562684378593985 HPDPDAEL 8 Unmodified _HPDPDAEL_ 0 0 0 ENST00000532483.5_1_14:73572990-73578268:+|nuORF;ENST00000527449.1_1_14:73574437-73577964:+|nuORF;ENST00000532683.5_1_14:73569902-73577964:+|nuORF;ENSG00000119707|ENST00000261973|RBM25 ENST00000532483.5_1_14:73572990-73578268:+|nuORF ENST00000532483.5_1_14:73572990-73578268:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 447.70599365234375 2 447.203607 892.392661 2.9604 0.0013239 0.22317 9.9804E-05 3.1835 0.0014237 447.2037130094102 25.165 0.37577 25.433 25.366 25.742 0.26777 48 39 2 0 0 0 0.13778 1 11441 11441 49.669 27.922 1 526010 9572 8736 6161 6178 11034 11034 -0.057839443043235406 HPDPFANKSL 10 Unmodified _HPDPFANKSL_ 0 0 0 ENST00000505226.1_1_6:83748090-83767722:-|nuORF;ENST00000237186.10_1_6:83602743-83775466:-|nuORF;ENSG00000118420|ENST00000369747|UBE3D ENST00000505226.1_1_6:83748090-83767722:-|nuORF ENST00000505226.1_1_6:83748090-83767722:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.2908325195312 2 563.288005 1124.56146 3.4151 0.0019237 -0.031688 -1.7849E-05 3.3834 0.0019059 563.2880161819636 32.684 0.35517 32.684 32.504 32.86 0 35 23 2 0 0 0 0.65694 1 14802 14802 15.248 9.0427 1 251170 9573 2112 6162 6179 11035 11035 0.004159573291644847 HPDPFANKSL 10 Unmodified _HPDPFANKSL_ 0 0 0 ENST00000505226.1_1_6:83748090-83767722:-|nuORF;ENST00000237186.10_1_6:83602743-83775466:-|nuORF;ENSG00000118420|ENST00000369747|UBE3D ENST00000505226.1_1_6:83748090-83767722:-|nuORF ENST00000505226.1_1_6:83748090-83767722:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.2898559570312 2 563.288005 1124.56146 3.5264 0.0019864 -0.09683 -5.4543E-05 3.4296 0.0019319 563.2882430741486 31.864 0.27311 32.481 32.41 32.683 0.61737 16 13 2 0 0 0 0.39588 1 14644 14644 24.991 18.268 1 194840 9574 2112 6162 6179 11036 11036 0.004159573291644847 HPDQAQAIL 9 Unmodified _HPDQAQAIL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;SPTBN1|p.E1055Gfs*20|1|0.19|ENSG00000115306|chr2:54631208-54631224|GAGAGGCCTCCCTGGGA/-|frameshift_variant ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.7629699707031 2 496.761623 991.508694 2.8806 0.001431 0.22391 0.00011123 3.1045 0.0015422 496.76163439181454 33.352 0.52382 33.352 33.19 33.714 0 106 58 2 0 0 0 0.0046538 4 15116 15064;15116;15158;15210 92.491 40.223 1 8427800 9575 1960 6163 6180 11037;11038;11039;11040 11038 0.012599992663695048 HPDQAQAIL 9 Unmodified _HPDQAQAIL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;SPTBN1|p.E1055Gfs*20|1|0.19|ENSG00000115306|chr2:54631208-54631224|GAGAGGCCTCCCTGGGA/-|frameshift_variant ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.7631530761719 2 496.761623 991.508694 2.8939 0.0014376 0.26836 0.00013331 3.1622 0.0015709 496.76172875728537 32.395 0.65665 33.183 32.975 33.632 0.78795 149 53 4 0 0 0 0.0020408 6 14632 14585;14632;14677;14723;14768;14816 103.75 42.391 1 7622500 9576 1960 6163 6180 11041;11042;11043;11044;11045;11046 11042 0.012599992663695048 HPDQAQAIL 9 Unmodified _HPDQAQAIL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;SPTBN1|p.E1055Gfs*20|1|0.19|ENSG00000115306|chr2:54631208-54631224|GAGAGGCCTCCCTGGGA/-|frameshift_variant ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.7634582519531 2 496.761623 991.508694 3.3179 0.0016482 0.24251 0.00012047 3.5604 0.0017687 496.7617848696479 33.178 0.69561 33.431 33.144 33.84 0.25389 106 32 5 0 0 0 0.0013631 4 15146 15046;15101;15146;15197 115.69 44.558 1 8684000 9577 1960 6163 6180 11047;11048;11049;11050 11049 0.012599992663695048 HPDQAQAIL 9 Unmodified _HPDQAQAIL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;SPTBN1|p.E1055Gfs*20|1|0.19|ENSG00000115306|chr2:54631208-54631224|GAGAGGCCTCCCTGGGA/-|frameshift_variant ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.76324462890625 2 496.761623 991.508694 3.1268 0.0015533 0.51125 0.00025397 3.638 0.0018072 496.76190331655437 32.675 0.77645 33.294 33.005 33.781 0.61831 105 37 4 0 0 0 0.0020408 5 14976 14929;14976;15026;15080;15133 103.75 42.391 1 7259600 9578 1960 6163 6180 11051;11052;11053;11054;11055 11052 0.012599992663695048 HPDRSQPAF 9 Unmodified _HPDRSQPAF_ 0 0 0 ENSG00000213676|ENST00000375203|ATF6B;nc|ENSG00000213676|Q99941-2|ATF6B;ENST00000494022.1_1_6:32065974-32085368:-|nuORF ENSG00000213676|ENST00000375203|ATF6B ENSG00000213676|ENST00000375203|ATF6B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.7587890625 2 527.756872 1053.49919 3.1672 0.0016715 0.39084 0.00020627 3.558 0.0018778 527.7570428154961 15.363 1.6853 15.363 14.881 16.566 0 482 203 3 0 0 0 0.084899 13 6761 6638;6679;6719;6761;6810;6851;6893;6937;6980;7026;7106;7151;7202 36.506 22.6 1 339890 9579 6094 6164 6181 11056;11057;11058;11059;11060;11061;11062;11063;11064;11065;11066;11067;11068 11059 -0.025417690191488873 HPDRSQPAF 9 Unmodified _HPDRSQPAF_ 0 0 0 ENSG00000213676|ENST00000375203|ATF6B;nc|ENSG00000213676|Q99941-2|ATF6B;ENST00000494022.1_1_6:32065974-32085368:-|nuORF ENSG00000213676|ENST00000375203|ATF6B ENSG00000213676|ENST00000375203|ATF6B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.7581176757812 2 527.756872 1053.49919 3.1862 0.0016816 -0.20486 -0.00010811 2.9814 0.0015734 527.7567959525774 14.669 0.82561 14.895 14.719 15.545 0.22622 156 84 3 0 0 0 0.023321 7 6438 6390;6438;6485;6526;6569;6610;6657 63.961 55.503 1 923110 9580 6094 6164 6181 11069;11070;11071;11072;11073;11074;11075 11070 -0.025417690191488873 HPDRSQPAF 9 Unmodified _HPDRSQPAF_ 0 0 0 ENSG00000213676|ENST00000375203|ATF6B;nc|ENSG00000213676|Q99941-2|ATF6B;ENST00000494022.1_1_6:32065974-32085368:-|nuORF ENSG00000213676|ENST00000375203|ATF6B ENSG00000213676|ENST00000375203|ATF6B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.7592163085938 2 527.756872 1053.49919 3.0364 0.0016025 0.44449 0.00023458 3.4809 0.0018371 527.7571399638147 14.324 0.52468 14.631 14.56 15.085 0.3069 49 33 2 0 0 0 0.016529 3 6490 6490;6536;6586 72.968 44.481 1 1084600 9581 6094 6164 6181 11076;11077;11078 11076 -0.025417690191488873 HPDRSQPAF 9 Unmodified _HPDRSQPAF_ 0 0 0 ENSG00000213676|ENST00000375203|ATF6B;nc|ENSG00000213676|Q99941-2|ATF6B;ENST00000494022.1_1_6:32065974-32085368:-|nuORF ENSG00000213676|ENST00000375203|ATF6B ENSG00000213676|ENST00000375203|ATF6B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.75927734375 2 527.756872 1053.49919 3.37 0.0017785 0.40194 0.00021213 3.772 0.0019907 528.2586181759813 14.268 0.40429 14.916 14.85 15.255 0.6482 61 45 2 0 0 0 0.0095519 3 6413 6413;6461;6519 82.529 57.13 1 2341000 9582 6094 6164 6181 11079;11080;11081 11079 -0.025417690191488873 HPDRSQPAF 9 Unmodified _HPDRSQPAF_ 0 0 0 ENSG00000213676|ENST00000375203|ATF6B;nc|ENSG00000213676|Q99941-2|ATF6B;ENST00000494022.1_1_6:32065974-32085368:-|nuORF ENSG00000213676|ENST00000375203|ATF6B ENSG00000213676|ENST00000375203|ATF6B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 527.756872 1053.49919 3.1506 0.0016628 0.9004 0.00047519 4.051 0.002138 527.75722637834 15.385 0.12575 15.596 15.538 15.664 0.21108 0.11658 0.00047629 NaN 36.506 21 17 2 NaN NaN NaN NaN 0 NaN NaN 0 67487 9583 6094 6164 6181 -0.025417690191488873 HPDSEHILA 9 Unmodified _HPDSEHILA_ 0 0 0 WDR59|p.H425Pfs*25|1|0.07|ENSG00000103091|chr16:74912315-74912316|-/A|frameshift_variant;nc|ENSG00000103091|Q6PJI9-2|WDR59;ENSG00000103091|ENST00000262144|WDR59 WDR59|p.H425Pfs*25|1|0.07|ENSG00000103091|chr16:74912315-74912316|-/A|frameshift_variant WDR59|p.H425Pfs*25|1|0.07|ENSG00000103091|chr16:74912315-74912316|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.7527770996094 2 509.751256 1017.48796 3.0945 0.0015774 0.80879 0.00041228 3.9033 0.0019897 509.75168410403273 14.952 0.70711 15.259 15.06 15.767 0.3069 122 69 2 0 0 0 0.98132 1 6841 6841 4.3292 0.38484 1 136800 9584 1376 6165 6182 11082 11082 -0.020085911132809997 HPDSEHILA 9 Unmodified _HPDSEHILA_ 0 0 0 WDR59|p.H425Pfs*25|1|0.07|ENSG00000103091|chr16:74912315-74912316|-/A|frameshift_variant;nc|ENSG00000103091|Q6PJI9-2|WDR59;ENSG00000103091|ENST00000262144|WDR59 WDR59|p.H425Pfs*25|1|0.07|ENSG00000103091|chr16:74912315-74912316|-/A|frameshift_variant WDR59|p.H425Pfs*25|1|0.07|ENSG00000103091|chr16:74912315-74912316|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.75421142578125 2 509.751256 1017.48796 3.3987 0.0017325 1.0389 0.0005296 4.4376 0.0022621 509.7517097094463 14.992 0.80265 15.646 15.473 16.275 0.65356 148 92 2 0 0 0 0.54955 1 6741 6741 11.64 0 1 166470 9585 1376 6165 6182 11083 11083 -0.020085911132809997 HPDSEHILA 9 Unmodified _HPDSEHILA_ 0 0 0 WDR59|p.H425Pfs*25|1|0.07|ENSG00000103091|chr16:74912315-74912316|-/A|frameshift_variant;nc|ENSG00000103091|Q6PJI9-2|WDR59;ENSG00000103091|ENST00000262144|WDR59 WDR59|p.H425Pfs*25|1|0.07|ENSG00000103091|chr16:74912315-74912316|-/A|frameshift_variant WDR59|p.H425Pfs*25|1|0.07|ENSG00000103091|chr16:74912315-74912316|-/A|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 509.751256 1017.48796 3.0945 0.0015774 0.80879 0.00041228 3.9033 0.0019897 509.75168410403273 14.952 0.70711 15.259 15.06 15.767 0.3069 -0.19331 -0.00010849 NaN 11.64 122 69 2 NaN NaN NaN NaN 0 NaN NaN 0 136800 9586 1376 6165 6182 -0.020085911132809997 HPDSLRAIY 9 Unmodified _HPDSLRAIY_ 0 0 0 ENST00000508252.1_1_5:137463382-137465094:-|nuORF;ENSG00000112981|ENST00000265191|NME5 ENST00000508252.1_1_5:137463382-137465094:-|nuORF ENST00000508252.1_1_5:137463382-137465094:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.2832641601562 2 536.282723 1070.55089 3.4428 0.0018463 0.75223 0.00040341 4.195 0.0022497 536.2829304239432 101.46 0.15659 102.05 101.98 102.14 0.59717 11 5 3 0 0 0 1.1154 1 46974 46974 2.0598 0 1 672550 9587 1827 6166 6183 11084 11084 0.01843974674761739 HPDSLRAIY 9 Unmodified _HPDSLRAIY_ 0 0 0 ENST00000508252.1_1_5:137463382-137465094:-|nuORF;ENSG00000112981|ENST00000265191|NME5 ENST00000508252.1_1_5:137463382-137465094:-|nuORF ENST00000508252.1_1_5:137463382-137465094:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 536.282723 1070.55089 3.8071 0.0020417 0.05373 2.8814E-05 3.8608 0.0020705 536.2823339766418 101.48 0.16792 101.8 101.7 101.87 0.31412 -0.12817 -0.00037075 NaN 2.0598 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 301750 9588 1827 6166 6183 0.01843974674761739 HPDSLRAIY 9 Unmodified _HPDSLRAIY_ 0 0 0 ENST00000508252.1_1_5:137463382-137465094:-|nuORF;ENSG00000112981|ENST00000265191|NME5 ENST00000508252.1_1_5:137463382-137465094:-|nuORF ENST00000508252.1_1_5:137463382-137465094:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 536.282723 1070.55089 3.4428 0.0018463 0.75223 0.00040341 4.195 0.0022497 536.2829304239432 101.46 0.15659 102.05 101.98 102.14 0.59717 0.12817 0.00037845 NaN 2.0598 11 5 3 NaN NaN NaN NaN 0 NaN NaN 0 672550 9589 1827 6166 6183 0.01843974674761739 HPDSLVPS 8 Unmodified _HPDSLVPS_ 0 0 0 REV__ENSG00000116199|ENST00000263733|FAM20B REV__ENSG00000116199|ENST00000263733|FAM20B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 426.21820068359375 2 426.216517 850.418482 NaN NaN NaN NaN NaN NaN NaN 90.064 1 90.316 89.816 90.816 0.25137 0 0 0 0.99035 1 41418 41418 5.7604 3.1829 1 + 9590 11399 6167 6184 11085 11085 -0.012710500620528364 HPDSLVPS 8 Unmodified _HPDSLVPS_ 0 0 0 REV__ENSG00000116199|ENST00000263733|FAM20B REV__ENSG00000116199|ENST00000263733|FAM20B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 426.21868896484375 2 426.216517 850.418482 3.198 0.001363 0.86483 0.00036861 4.0628 0.0017316 426.216897224612 89.914 0.54002 90.586 90.295 90.835 0.67271 39 24 2 0 0 0 0.74071 2 41363 41363;41457 2.5775 1.7838 1 635670 + 9591 11399 6167 6184 11086;11087 11086 -0.012710500620528364 HPDTVDDLF 9 Unmodified _HPDTVDDLF_ 0 0 0 nc|ENSG00000064419|Q9Y5L0-3|TNPO3;ENSG00000064419|ENST00000265388|TNPO3;nc|ENSG00000064419|Q9Y5L0-1|TNPO3;nc|ENSG00000064419|Q9Y5L0-5|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.7452392578125 2 529.743096 1057.47164 NaN NaN NaN NaN NaN NaN NaN 56.632 1 56.632 56.132 57.132 0 0 0 0 0.02351 1 26067 26067 67.344 44.195 1 9592 671 6168 6185 11088 11088 -0.05479717070056722 HPDTVDDLF 9 Unmodified _HPDTVDDLF_ 0 0 0 nc|ENSG00000064419|Q9Y5L0-3|TNPO3;ENSG00000064419|ENST00000265388|TNPO3;nc|ENSG00000064419|Q9Y5L0-1|TNPO3;nc|ENSG00000064419|Q9Y5L0-5|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.7445068359375 2 529.743096 1057.47164 NaN NaN NaN NaN NaN NaN NaN 55.613 1 56.401 55.901 56.901 0.78711 0 0 0 0.021631 1 25395 25395 70.716 42.229 1 9593 671 6168 6185 11089 11089 -0.05479717070056722 HPDTVDDLF 9 Unmodified _HPDTVDDLF_ 0 0 0 nc|ENSG00000064419|Q9Y5L0-3|TNPO3;ENSG00000064419|ENST00000265388|TNPO3;nc|ENSG00000064419|Q9Y5L0-1|TNPO3;nc|ENSG00000064419|Q9Y5L0-5|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.5064086914062 2 529.743096 1057.47164 NaN NaN NaN NaN NaN NaN NaN 55.644 1 56.431 55.931 56.931 0.78711 0 0 0 0.021631 1 25410 25410 70.716 43.832 1 9594 671 6168 6185 11090 11090 -0.05479717070056722 HPDTVDDLF 9 Unmodified _HPDTVDDLF_ 0 0 0 nc|ENSG00000064419|Q9Y5L0-3|TNPO3;ENSG00000064419|ENST00000265388|TNPO3;nc|ENSG00000064419|Q9Y5L0-1|TNPO3;nc|ENSG00000064419|Q9Y5L0-5|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.745849609375 2 529.743096 1057.47164 3.1413 0.0016641 0.23063 0.00012217 3.3719 0.0017863 529.7432425309091 56.494 0.48177 56.76 56.483 56.965 0.26543 37 29 2 0 0 0 0.0061269 2 25840 25777;25840 89.427 60.94 1 715130 9595 671 6168 6185 11091;11092 11092 -0.05479717070056722 HPDTVDDLF 9 Unmodified _HPDTVDDLF_ 0 0 0 nc|ENSG00000064419|Q9Y5L0-3|TNPO3;ENSG00000064419|ENST00000265388|TNPO3;nc|ENSG00000064419|Q9Y5L0-1|TNPO3;nc|ENSG00000064419|Q9Y5L0-5|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.7454833984375 2 529.743096 1057.47164 3.3027 0.0017496 0.3325 0.00017614 3.6352 0.0019257 529.7430236052022 55.741 0.54008 56.409 56.238 56.778 0.66798 31 22 2 0 0 0 0.026068 1 25518 25518 60.39 18.295 1 813450 9596 671 6168 6185 11093 11093 -0.05479717070056722 HPDTVDDLF 9 Unmodified _HPDTVDDLF_ 0 0 0 nc|ENSG00000064419|Q9Y5L0-3|TNPO3;ENSG00000064419|ENST00000265388|TNPO3;nc|ENSG00000064419|Q9Y5L0-1|TNPO3;nc|ENSG00000064419|Q9Y5L0-5|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 529.743096 1057.47164 2.8191 0.0014934 1.1934 0.00063218 4.0125 0.0021256 529.7439591823179 55.814 0.056412 56.601 56.568 56.625 0.78711 0.011034 0.00088048 NaN 89.427 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 388390 9597 671 6168 6185 -0.05479717070056722 HPDVATML 8 Unmodified _HPDVATML_ 0 0 0 nc|ENSG00000126214|Q07866-8|KLC1;nc|ENSG00000126214|Q07866-2|KLC1;nc|ENSG00000126214|Q07866-3|KLC1;nc|ENSG00000126214|Q07866|KLC1;nc|ENSG00000126214|Q07866-7|KLC1;nc|ENSG00000126214|Q07866-5|KLC1;nc|ENSG00000126214|Q07866-10|KLC1;nc|ENSG00000126214|Q07866-6|KLC1;nc|ENSG00000126214|Q07866-4|KLC1;ENSG00000126214|ENST00000334553|KLC1;ENST00000534023.1_1_11:66029401-66030508:+|nuORF;nc|ENSG00000137171|Q9NSK0-4|KLC4;ENST00000467906.5_1_6:43030654-43039600:+|nuORF;nc|ENSG00000104892|Q6P597-2|KLC3;ENSG00000104892|ENST00000391946|KLC3;nc|ENSG00000104892|Q6P597-3|KLC3;nc|ENSG00000137171|Q9NSK0-5|KLC4;nc|ENSG00000174996|Q9H0B6-2|KLC2;ENSG00000137171|ENST00000347162|KLC4;ENSG00000174996|ENST00000394067|KLC2;nc|ENSG00000137171|Q9NSK0-3|KLC4 nc|ENSG00000126214|Q07866-8|KLC1;nc|ENSG00000137171|Q9NSK0-5|KLC4 nc|ENSG00000126214|Q07866-8|KLC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 442.22174072265625 2 442.220746 882.426938 NaN NaN NaN NaN NaN NaN NaN 45.741 1 45.741 45.241 46.241 0 0 0 0 0.33009 1 20924 20924 34.187 11.039 1 9598 2445;3000 6169 6186 11094 11094 -0.018978194170813367 HPDVATQM 8 Unmodified _HPDVATQM_ 0 0 0 nc|ENSG00000138674|O94979-3|SEC31A;nc|ENSG00000138674|O94979-9|SEC31A;nc|ENSG00000138674|O94979-2|SEC31A;ENSG00000138674|ENST00000395310|SEC31A;nc|ENSG00000138674|O94979-8|SEC31A;nc|ENSG00000138674|O94979-6|SEC31A;nc|ENSG00000138674|O94979-10|SEC31A;nc|ENSG00000138674|O94979-4|SEC31A;nc|ENSG00000138674|O94979-5|SEC31A;ENST00000436790.6_1_4:83784452-83812260:-|nuORF nc|ENSG00000138674|O94979-3|SEC31A nc|ENSG00000138674|O94979-3|SEC31A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 449.7092590332031 2 449.708002 897.401452 2.9332 0.0013191 1.5477 0.00069601 4.4809 0.0020151 449.708361848696 21.121 0.27082 21.121 20.982 21.253 0 29 19 2 0 0 0 0.52517 1 9452 9452 19.439 9.2556 1 136030 9599 3111 6170 6187 11095 11095 -0.05135293939497387 HPDVATQMVL 10 Unmodified _HPDVATQMVL_ 0 0 0 nc|ENSG00000138674|O94979-3|SEC31A;nc|ENSG00000138674|O94979-9|SEC31A;nc|ENSG00000138674|O94979-2|SEC31A;ENSG00000138674|ENST00000395310|SEC31A;nc|ENSG00000138674|O94979-8|SEC31A;nc|ENSG00000138674|O94979-6|SEC31A;nc|ENSG00000138674|O94979-10|SEC31A;nc|ENSG00000138674|O94979-4|SEC31A;nc|ENSG00000138674|O94979-5|SEC31A;ENST00000436790.6_1_4:83784452-83812260:-|nuORF nc|ENSG00000138674|O94979-3|SEC31A nc|ENSG00000138674|O94979-3|SEC31A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.7855834960938 2 555.784241 1109.55393 3.5731 0.0019859 0.3846 0.00021375 3.9577 0.0021996 555.784484860597 50.588 0.47594 50.588 50.291 50.767 0 33 25 2 0 0 0 0.021807 3 23131 23083;23131;23183 69.105 33.379 1 1794500 9600 3111 6171 6188 11096;11097;11098 11097 0.0035348173726106324 HPDVATQMVL 10 Unmodified _HPDVATQMVL_ 0 0 0 nc|ENSG00000138674|O94979-3|SEC31A;nc|ENSG00000138674|O94979-9|SEC31A;nc|ENSG00000138674|O94979-2|SEC31A;ENSG00000138674|ENST00000395310|SEC31A;nc|ENSG00000138674|O94979-8|SEC31A;nc|ENSG00000138674|O94979-6|SEC31A;nc|ENSG00000138674|O94979-10|SEC31A;nc|ENSG00000138674|O94979-4|SEC31A;nc|ENSG00000138674|O94979-5|SEC31A;ENST00000436790.6_1_4:83784452-83812260:-|nuORF nc|ENSG00000138674|O94979-3|SEC31A nc|ENSG00000138674|O94979-3|SEC31A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.78662109375 2 555.784241 1109.55393 NaN NaN NaN NaN NaN NaN NaN 50.807 1 50.807 50.307 51.307 0 0 0 0 0.47727 1 23263 23263 30.637 11.38 1 9601 3111 6171 6188 11099 11099 0.0035348173726106324 HPDVATQMVL 10 Unmodified _HPDVATQMVL_ 0 0 0 nc|ENSG00000138674|O94979-3|SEC31A;nc|ENSG00000138674|O94979-9|SEC31A;nc|ENSG00000138674|O94979-2|SEC31A;ENSG00000138674|ENST00000395310|SEC31A;nc|ENSG00000138674|O94979-8|SEC31A;nc|ENSG00000138674|O94979-6|SEC31A;nc|ENSG00000138674|O94979-10|SEC31A;nc|ENSG00000138674|O94979-4|SEC31A;nc|ENSG00000138674|O94979-5|SEC31A;ENST00000436790.6_1_4:83784452-83812260:-|nuORF nc|ENSG00000138674|O94979-3|SEC31A nc|ENSG00000138674|O94979-3|SEC31A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 555.7850952148438 2 555.784241 1109.55393 3.3769 0.0018768 0.094003 5.2245E-05 3.4709 0.0019291 555.7840171597124 49.656 0.63582 50.479 50.167 50.803 0.82285 66 31 3 0 0 0 0.091802 4 22580 22533;22580;22637;22688 53.833 26.785 1 1465600 9602 3111 6171 6188 11100;11101;11102;11103 11101 0.0035348173726106324 HPDVATQMVL 10 Unmodified _HPDVATQMVL_ 0 0 0 nc|ENSG00000138674|O94979-3|SEC31A;nc|ENSG00000138674|O94979-9|SEC31A;nc|ENSG00000138674|O94979-2|SEC31A;ENSG00000138674|ENST00000395310|SEC31A;nc|ENSG00000138674|O94979-8|SEC31A;nc|ENSG00000138674|O94979-6|SEC31A;nc|ENSG00000138674|O94979-10|SEC31A;nc|ENSG00000138674|O94979-4|SEC31A;nc|ENSG00000138674|O94979-5|SEC31A;ENST00000436790.6_1_4:83784452-83812260:-|nuORF nc|ENSG00000138674|O94979-3|SEC31A nc|ENSG00000138674|O94979-3|SEC31A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.7860107421875 2 555.784241 1109.55393 3.4846 0.0019367 0.1857 0.00010321 3.6702 0.0020399 555.784297482495 50.344 0.42902 50.606 50.364 50.793 0.26146 39 19 3 0 0 0 0.048946 3 22945 22945;23013;23065 62.573 32.086 1 987870 9603 3111 6171 6188 11104;11105;11106 11104 0.0035348173726106324 HPDVATQMVL 10 Unmodified _HPDVATQMVL_ 0 0 0 nc|ENSG00000138674|O94979-3|SEC31A;nc|ENSG00000138674|O94979-9|SEC31A;nc|ENSG00000138674|O94979-2|SEC31A;ENSG00000138674|ENST00000395310|SEC31A;nc|ENSG00000138674|O94979-8|SEC31A;nc|ENSG00000138674|O94979-6|SEC31A;nc|ENSG00000138674|O94979-10|SEC31A;nc|ENSG00000138674|O94979-4|SEC31A;nc|ENSG00000138674|O94979-5|SEC31A;ENST00000436790.6_1_4:83784452-83812260:-|nuORF nc|ENSG00000138674|O94979-3|SEC31A nc|ENSG00000138674|O94979-3|SEC31A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.78662109375 2 555.784241 1109.55393 3.5338 0.001964 0.073572 4.089E-05 3.6073 0.0020049 555.7841478214709 49.707 0.50079 50.364 50.141 50.642 0.65735 42 19 3 0 0 0 0.059328 3 22684 22684;22751;22824 60.074 30.992 1 1328400 9604 3111 6171 6188 11107;11108;11109 11107 0.0035348173726106324 HPDVAWDLM 9 Unmodified _HPDVAWDLM_ 0 0 0 nc|ENSG00000165801|Q8TER5-4|ARHGEF40;nc|ENSG00000165801|Q8TER5-3|ARHGEF40;ENSG00000165801|ENST00000298694|ARHGEF40;ENST00000555052.1_1_14:21542936-21543858:+|nuORF nc|ENSG00000165801|Q8TER5-4|ARHGEF40 nc|ENSG00000165801|Q8TER5-4|ARHGEF40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.7538452148438 2 542.250034 1082.48552 3.5201 0.0019088 0.22092 0.00011979 3.7411 0.0020286 542.249613854766 66.758 0.26283 67.008 66.852 67.115 0.2501 23 13 2 0 0 0 0.062556 1 30577 30577 42.095 29.563 1 303850 9605 4422 6172 6189 11110 11110 -0.05242762842635784 HPDVAWDLM 9 Unmodified _HPDVAWDLM_ 0 0 0 nc|ENSG00000165801|Q8TER5-4|ARHGEF40;nc|ENSG00000165801|Q8TER5-3|ARHGEF40;ENSG00000165801|ENST00000298694|ARHGEF40;ENST00000555052.1_1_14:21542936-21543858:+|nuORF nc|ENSG00000165801|Q8TER5-4|ARHGEF40 nc|ENSG00000165801|Q8TER5-4|ARHGEF40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.2525634765625 2 542.250034 1082.48552 3.4943 0.0018948 0.17701 9.5985E-05 3.6713 0.0019908 542.250310658809 66.157 0.32167 66.814 66.626 66.948 0.65672 31 19 2 0 0 0 0.062556 2 30362 30310;30362 42.095 34.102 1 350890 9606 4422 6172 6189 11111;11112 11112 -0.05242762842635784 HPDVDEHSV 9 Unmodified _HPDVDEHSV_ 0 0 0 FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant;nc|ENSG00000136068|O75369-5|FLNB;nc|ENSG00000136068|O75369-4|FLNB;nc|ENSG00000136068|O75369-7|FLNB;nc|ENSG00000136068|O75369-6|FLNB;nc|ENSG00000136068|O75369-3|FLNB;nc|ENSG00000136068|O75369-2|FLNB;nc|ENSG00000136068|O75369-9|FLNB;ENSG00000136068|ENST00000295956|FLNB;nc|ENSG00000136068|O75369-8|FLNB FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.7316284179688 2 517.73052 1033.44649 3.2787 0.0016975 -0.52024 -0.00026935 2.7584 0.0014281 517.7302535161313 13.758 0.41551 13.758 13.662 14.077 0 70 50 2 0 0 0 2.3822E-21 3 6080 6035;6080;6133 214.7 144.07 1 9239500 9607 2926 6173 6190 11113;11114;11115 11114 -0.06889771872624806 HPDVDEHSV 9 Unmodified _HPDVDEHSV_ 0 0 0 FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant;nc|ENSG00000136068|O75369-5|FLNB;nc|ENSG00000136068|O75369-4|FLNB;nc|ENSG00000136068|O75369-7|FLNB;nc|ENSG00000136068|O75369-6|FLNB;nc|ENSG00000136068|O75369-3|FLNB;nc|ENSG00000136068|O75369-2|FLNB;nc|ENSG00000136068|O75369-9|FLNB;ENSG00000136068|ENST00000295956|FLNB;nc|ENSG00000136068|O75369-8|FLNB FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.4902038574219 3 345.489439 1033.44649 NaN NaN NaN NaN NaN NaN NaN 13.953 1 13.953 13.453 14.453 0 0 0 0 0.46004 1 6137 6137 20.415 9.5906 1 9608 2926 6173 6190 11116 11116 -0.06889771872624806 HPDVDEHSV 9 Unmodified _HPDVDEHSV_ 0 0 0 FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant;nc|ENSG00000136068|O75369-5|FLNB;nc|ENSG00000136068|O75369-4|FLNB;nc|ENSG00000136068|O75369-7|FLNB;nc|ENSG00000136068|O75369-6|FLNB;nc|ENSG00000136068|O75369-3|FLNB;nc|ENSG00000136068|O75369-2|FLNB;nc|ENSG00000136068|O75369-9|FLNB;ENSG00000136068|ENST00000295956|FLNB;nc|ENSG00000136068|O75369-8|FLNB FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 517.731689453125 2 517.73052 1033.44649 3.017 0.001562 -0.30188 -0.00015629 2.7151 0.0014057 517.7303301263092 12.925 0.72011 13.168 13.071 13.791 0.24346 155 62 3 0 0 0 2.3822E-21 5 5695 5602;5651;5695;5744;5792 214.7 170.85 1 13069000 9609 2926 6173 6190 11117;11118;11119;11120;11121 11119 -0.06889771872624806 HPDVDEHSV 9 Unmodified _HPDVDEHSV_ 0 0 0 FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant;nc|ENSG00000136068|O75369-5|FLNB;nc|ENSG00000136068|O75369-4|FLNB;nc|ENSG00000136068|O75369-7|FLNB;nc|ENSG00000136068|O75369-6|FLNB;nc|ENSG00000136068|O75369-3|FLNB;nc|ENSG00000136068|O75369-2|FLNB;nc|ENSG00000136068|O75369-9|FLNB;ENSG00000136068|ENST00000295956|FLNB;nc|ENSG00000136068|O75369-8|FLNB FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 345.4901428222656 3 345.489439 1033.44649 1.9752 0.00068241 0.17722 6.1227E-05 2.1524 0.00074364 345.4894679058365 12.933 0.47181 13.176 13.087 13.559 0.24346 55 38 2 0 0 0 0.021401 2 5623 5623;5670 66.457 46.042 1 1610700 9610 2926 6173 6190 11122;11123 11122 -0.06889771872624806 HPDVDEHSV 9 Unmodified _HPDVDEHSV_ 0 0 0 FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant;nc|ENSG00000136068|O75369-5|FLNB;nc|ENSG00000136068|O75369-4|FLNB;nc|ENSG00000136068|O75369-7|FLNB;nc|ENSG00000136068|O75369-6|FLNB;nc|ENSG00000136068|O75369-3|FLNB;nc|ENSG00000136068|O75369-2|FLNB;nc|ENSG00000136068|O75369-9|FLNB;ENSG00000136068|ENST00000295956|FLNB;nc|ENSG00000136068|O75369-8|FLNB FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.73193359375 2 517.73052 1033.44649 2.8278 0.001464 0.42204 0.00021851 3.2499 0.0016825 517.7307138909174 12.869 0.89397 13.176 13.058 13.952 0.30727 118 55 3 0 0 0 4.2125E-14 2 5806 5806;5856 214.7 144.07 1 7837300 9611 2926 6173 6190 11124;11125 11124 -0.06889771872624806 HPDVDEHSV 9 Unmodified _HPDVDEHSV_ 0 0 0 FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant;nc|ENSG00000136068|O75369-5|FLNB;nc|ENSG00000136068|O75369-4|FLNB;nc|ENSG00000136068|O75369-7|FLNB;nc|ENSG00000136068|O75369-6|FLNB;nc|ENSG00000136068|O75369-3|FLNB;nc|ENSG00000136068|O75369-2|FLNB;nc|ENSG00000136068|O75369-9|FLNB;ENSG00000136068|ENST00000295956|FLNB;nc|ENSG00000136068|O75369-8|FLNB FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.4900817871094 3 345.489439 1033.44649 1.8769 0.00064845 0.13918 4.8086E-05 2.0161 0.00069653 345.4894275990572 12.869 0.33433 13.176 13.091 13.426 0.30727 22 13 2 0 0 0 0.02812 2 5817 5817;5871 57.722 42.474 1 815060 9612 2926 6173 6190 11126;11127 11126 -0.06889771872624806 HPDVDEHSV 9 Unmodified _HPDVDEHSV_ 0 0 0 FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant;nc|ENSG00000136068|O75369-5|FLNB;nc|ENSG00000136068|O75369-4|FLNB;nc|ENSG00000136068|O75369-7|FLNB;nc|ENSG00000136068|O75369-6|FLNB;nc|ENSG00000136068|O75369-3|FLNB;nc|ENSG00000136068|O75369-2|FLNB;nc|ENSG00000136068|O75369-9|FLNB;ENSG00000136068|ENST00000295956|FLNB;nc|ENSG00000136068|O75369-8|FLNB FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.7326049804688 2 517.73052 1033.44649 3.6784 0.0019044 0.18921 9.7959E-05 3.8676 0.0020024 517.7305624906752 12.719 0.44767 13.362 13.278 13.725 0.64272 36 13 3 0 0 0 4.2125E-14 3 5713 5713;5779;5835 214.7 125.8 1 11772000 9613 2926 6173 6190 11128;11129;11130 11128 -0.06889771872624806 HPDVDEHSVM 10 Unmodified _HPDVDEHSVM_ 0 0 0 FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant;nc|ENSG00000136068|O75369-5|FLNB;nc|ENSG00000136068|O75369-4|FLNB;nc|ENSG00000136068|O75369-7|FLNB;nc|ENSG00000136068|O75369-6|FLNB;nc|ENSG00000136068|O75369-3|FLNB;nc|ENSG00000136068|O75369-2|FLNB;nc|ENSG00000136068|O75369-9|FLNB;ENSG00000136068|ENST00000295956|FLNB;nc|ENSG00000136068|O75369-8|FLNB FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.2532348632812 2 583.250763 1164.48697 3.6812 0.002147 0.066636 3.8865E-05 3.7478 0.0021859 583.250979252279 22.308 0.23303 22.308 22.183 22.416 0 29 19 2 0 0 0 0.84709 1 10025 10025 6.2058 3.903 1 120050 9614 2926 6174 6191 11131 11131 -0.08869173544508158 HPDVEVDGF 9 Unmodified _HPDVEVDGF_ 0 0 0 ENSG00000143799|ENST00000366794|PARP1 ENSG00000143799|ENST00000366794|PARP1 ENSG00000143799|ENST00000366794|PARP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.73193359375 2 507.729989 1013.44543 2.9365 0.0014909 0.0071286 3.6194E-06 2.9436 0.0014946 507.72992145188175 46.449 0.70865 46.449 46.258 46.967 0 69 29 3 0 0 0 0.00147 3 21242 21242;21292;21337 109.63 59.696 1 2590800 9615 3393 6175 6192 11132;11133;11134 11132 -0.0607598624151251 HPDVEVDGF 9 Unmodified _HPDVEVDGF_ 0 0 0 ENSG00000143799|ENST00000366794|PARP1 ENSG00000143799|ENST00000366794|PARP1 ENSG00000143799|ENST00000366794|PARP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.7320861816406 2 507.729989 1013.44543 3.0794 0.0015635 -0.11821 -6.0019E-05 2.9612 0.0015035 507.72984277267267 45.473 0.79826 46.299 46.105 46.903 0.82621 80 42 3 0 0 0 0.00147 4 20690 20690;20733;20781;20833 109.63 59.696 1 1975500 9616 3393 6175 6192 11135;11136;11137;11138 11135 -0.0607598624151251 HPDVEVDGF 9 Unmodified _HPDVEVDGF_ 0 0 0 ENSG00000143799|ENST00000366794|PARP1 ENSG00000143799|ENST00000366794|PARP1 ENSG00000143799|ENST00000366794|PARP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.731201171875 2 507.729989 1013.44543 3.4211 0.001737 0.055173 2.8013E-05 3.4763 0.001765 507.7299295426054 46.454 0.7018 46.72 46.424 47.126 0.26561 53 25 3 0 0 0 0.00147 3 21206 21151;21206;21269 109.63 59.696 1 1870000 9617 3393 6175 6192 11139;11140;11141 11140 -0.0607598624151251 HPDVEVDGF 9 Unmodified _HPDVEVDGF_ 0 0 0 ENSG00000143799|ENST00000366794|PARP1 ENSG00000143799|ENST00000366794|PARP1 ENSG00000143799|ENST00000366794|PARP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.73187255859375 2 507.729989 1013.44543 3.5981 0.0018269 0.15256 7.7459E-05 3.7507 0.0019043 507.7300177710788 45.887 0.65363 46.538 46.269 46.922 0.65104 51 21 3 0 0 0 0.00147 3 21019 20960;21019;21076 109.63 59.696 1 1754500 9618 3393 6175 6192 11142;11143;11144 11143 -0.0607598624151251 HPDVLPFAL 9 Unmodified _HPDVLPFAL_ 0 0 0 ENSG00000112159|ENST00000369393|MDN1;MDN1|p.L3673Pfs*5|1|0.33|ENSG00000112159|chr6:89689875-89689876|-/G|frameshift_variant ENSG00000112159|ENST00000369393|MDN1 ENSG00000112159|ENST00000369393|MDN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.7823486328125 2 504.779285 1007.54402 2.5047 0.0012643 0.38804 0.00019587 2.8927 0.0014602 504.77974553713517 77.579 0.25583 78.139 77.903 78.159 0.56091 27 17 2 0 0 0 0.018173 1 37588 37588 70.716 42.229 1 1621700 9619 1795 6176 6193 11145 11145 0.04054661794191361 HPDVLPFAL 9 Unmodified _HPDVLPFAL_ 0 0 0 ENSG00000112159|ENST00000369393|MDN1;MDN1|p.L3673Pfs*5|1|0.33|ENSG00000112159|chr6:89689875-89689876|-/G|frameshift_variant ENSG00000112159|ENST00000369393|MDN1 ENSG00000112159|ENST00000369393|MDN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.7812194824219 2 504.779285 1007.54402 3.0813 0.0015554 -0.30613 -0.00015453 2.7752 0.0014009 504.7790597221722 78.09 0.73 78.343 78.125 78.855 0.25335 94 40 3 0 0 0 0.0061269 5 35951 35902;35951;36000;36065;36128 89.427 53.383 1 1007400 9620 1795 6176 6193 11146;11147;11148;11149;11150 11147 0.04054661794191361 HPDVLPFAL 9 Unmodified _HPDVLPFAL_ 0 0 0 ENSG00000112159|ENST00000369393|MDN1;MDN1|p.L3673Pfs*5|1|0.33|ENSG00000112159|chr6:89689875-89689876|-/G|frameshift_variant ENSG00000112159|ENST00000369393|MDN1 ENSG00000112159|ENST00000369393|MDN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.7804870605469 2 504.779285 1007.54402 3.0976 0.0015636 -0.49865 -0.00025171 2.5989 0.0013119 504.77896663399696 77.621 0.67021 78.284 78.073 78.743 0.66303 84 40 3 0 0 0 0.0061269 4 35768 35721;35768;35816;35886 89.427 57.31 1 984540 9621 1795 6176 6193 11151;11152;11153;11154 11152 0.04054661794191361 HPDVTEAML 9 Unmodified _HPDVTEAML_ 0 0 0 nc|ENSG00000070756|P11940-2|PABPC1;ENSG00000070756|ENST00000318607|PABPC1;nc|ENSG00000101104|Q4VXU2-2|PABPC1L;nc|ENSG00000101104|Q4VXU2|PABPC1L;ENSG00000101104|ENST00000217073|PABPC1L;PABPC3|p.S464Lfs*77|1|0.19|ENSG00000151846|chr13:25097587-25097587|T/-|frameshift_variant;ENSG00000151846|ENST00000281589|PABPC3 nc|ENSG00000070756|P11940-2|PABPC1 nc|ENSG00000070756|P11940-2|PABPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.74267578125 2 506.742042 1011.46953 2.9999 0.0015202 -1.3992 -0.00070906 1.6006 0.0008111 506.7414173547498 43.482 0.58632 44.296 44.142 44.729 0.81444 74 31 4 0 0 0 0.035095 1 19829 19829 53.576 21.27 1 1238700 9622 770 6177 6194 11155 11155 -0.0357446907951271 HPDYGSHIQAL 11 Unmodified _HPDYGSHIQAL_ 0 0 0 ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 413.2046203613281 3 413.203522 1236.58874 2.6897 0.0011114 0.32883 0.00013588 3.0186 0.0012473 413.20363099482546 32.857 0.49791 32.857 32.676 33.174 0 96 31 4 0 0 0 0.0035478 4 14912 14828;14870;14912;14961 70.929 60.03 1 1878900 9623 2238 6178 6195 11156;11157;11158;11159 11158 -0.02009559130397065 HPDYGSHIQAL 11 Unmodified _HPDYGSHIQAL_ 0 0 0 ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.3036499023438 2 619.301644 1236.58874 3.7766 0.0023389 0.0019032 1.1787E-06 3.7785 0.00234 619.3016891523058 32.857 0.50727 32.857 32.683 33.19 0 87 31 4 0 0 0 3.0445000000000003E-20 4 14893 14848;14893;14941;14985 174.48 134.53 1 1564600 9624 2238 6178 6195 11160;11161;11162;11163 11161 -0.02009559130397065 HPDYGSHIQAL 11 Unmodified _HPDYGSHIQAL_ 0 0 0 ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.3037109375 2 619.301644 1236.58874 NaN NaN NaN NaN NaN NaN NaN 33.182 1 33.182 32.682 33.682 0 0 0 0 0.012704 1 15029 15029 70.332 46.311 1 9625 2238 6178 6195 11164 11164 -0.02009559130397065 HPDYGSHIQAL 11 Unmodified _HPDYGSHIQAL_ 0 0 0 ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 413.2044677734375 3 413.203522 1236.58874 2.6345 0.0010886 -0.345 -0.00014256 2.2895 0.00094604 413.2034076662581 31.763 0.37096 32.551 32.436 32.807 0.78795 76 34 3 0 0 0 0.020488 2 14367 14316;14367 59.013 59.013 1 3787000 9626 2238 6178 6195 11165;11166 11166 -0.02009559130397065 HPDYGSHIQAL 11 Unmodified _HPDYGSHIQAL_ 0 0 0 ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.304443359375 2 619.301644 1236.58874 3.3277 0.0020608 0.091972 5.6959E-05 3.4196 0.0021178 619.3016525121781 31.752 0.30108 32.54 32.436 32.737 0.78795 46 28 2 0 0 0 1.7633E-09 2 14387 14324;14387 143.21 106.71 1 3355700 9627 2238 6178 6195 11167;11168 11168 -0.02009559130397065 HPDYGSHIQAL 11 Unmodified _HPDYGSHIQAL_ 0 0 0 ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.3048095703125 2 619.301644 1236.58874 3.8326 0.0023735 -0.22772 -0.00014103 3.6049 0.0022325 619.3014800495795 32.684 0.53918 32.938 32.779 33.318 0.25389 59 24 4 0 0 0 1.5369999999999999E-21 3 14897 14846;14897;14955 179.28 144.88 1 1896400 9628 2238 6178 6195 11169;11170;11171 11170 -0.02009559130397065 HPDYGSHIQAL 11 Unmodified _HPDYGSHIQAL_ 0 0 0 ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.2044372558594 3 413.203522 1236.58874 3.1599 0.0013057 -0.16612 -6.8641E-05 2.9938 0.0012371 413.20347173927706 32.725 0.61312 32.979 32.763 33.376 0.25389 66 28 3 0 0 0 0.0144 3 14908 14859;14908;14967 62.869 48.65 1 2296500 9629 2238 6178 6195 11172;11173;11174 11173 -0.02009559130397065 HPDYGSHIQAL 11 Unmodified _HPDYGSHIQAL_ 0 0 0 ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.303955078125 2 619.301644 1236.58874 3.5992 0.002229 0.54186 0.00033558 4.1411 0.0025646 619.3018160806496 32.1 0.70876 32.719 32.505 33.214 0.61831 110 35 5 0 0 0 1.3758E-09 5 14709 14663;14709;14757;14811;14879 135.86 99.357 1 1677100 9630 2238 6178 6195 11175;11176;11177;11178;11179 11176 -0.02009559130397065 HPDYGSHIQAL 11 Unmodified _HPDYGSHIQAL_ 0 0 0 ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT ENSG00000121691|ENST00000241052|CAT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 413.20489501953125 3 413.203522 1236.58874 2.9284 0.00121 0.16695 6.8983E-05 3.0954 0.001279 413.20356220101667 32.096 0.7621 32.715 32.483 33.246 0.61831 102 38 3 0 0 0 0.0144 5 14749 14701;14749;14802;14851;14936 62.869 51.97 1 1730000 9631 2238 6178 6195 11180;11181;11182;11183;11184 11181 -0.02009559130397065 HPEARGHLS 9 Unmodified _HPEARGHLS_ 0 0 0 ENSG00000111913|ENST00000643898|RIPOR2;nc|ENSG00000111913|Q9Y4F9|RIPOR2 ENSG00000111913|ENST00000643898|RIPOR2 ENSG00000111913|ENST00000643898|RIPOR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.2596740722656 2 502.25704 1002.49953 3.5693 0.0017927 1.7494 0.00087867 5.3188 0.0026714 502.25784755835645 12.517 0.089035 13.16 13.121 13.21 0.64272 4 2 2 0 0 0 0.63753 1 5638 5638 10.074 5.3179 1 1788000 9632 1787 6179 6196 11185 11185 -0.0016234929929623831 HPEARGHLS 9 Unmodified _HPEARGHLS_ 0 0 0 ENSG00000111913|ENST00000643898|RIPOR2;nc|ENSG00000111913|Q9Y4F9|RIPOR2 ENSG00000111913|ENST00000643898|RIPOR2 ENSG00000111913|ENST00000643898|RIPOR2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 502.25704 1002.49953 3.1825 0.0015984 0.89948 0.00045177 4.082 0.0020502 502.2573877287009 12.817 0.15822 12.817 12.77 12.929 0 -0.12346 -0.0010787 NaN 10.074 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 558550 9633 1787 6179 6196 -0.0016234929929623831 HPEARGHLS 9 Unmodified _HPEARGHLS_ 0 0 0 ENSG00000111913|ENST00000643898|RIPOR2;nc|ENSG00000111913|Q9Y4F9|RIPOR2 ENSG00000111913|ENST00000643898|RIPOR2 ENSG00000111913|ENST00000643898|RIPOR2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 502.25704 1002.49953 2.6024 0.0013071 0.64596 0.00032444 3.2484 0.0016315 502.2580613442941 12.624 0.074479 12.885 12.835 12.909 0.26154 -0.054821 -0.0013333 NaN 10.074 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 1413100 9634 1787 6179 6196 -0.0016234929929623831 HPEARGHLS 9 Unmodified _HPEARGHLS_ 0 0 0 ENSG00000111913|ENST00000643898|RIPOR2;nc|ENSG00000111913|Q9Y4F9|RIPOR2 ENSG00000111913|ENST00000643898|RIPOR2 ENSG00000111913|ENST00000643898|RIPOR2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 502.25704 1002.49953 2.4971 0.0012542 2.2909 0.0011506 4.7879 0.0024048 502.2582475969626 12.592 0.11663 12.899 12.819 12.936 0.30727 -0.041365 0.00031899 NaN 10.074 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1318100 9635 1787 6179 6196 -0.0016234929929623831 HPEARGHLS 9 Unmodified _HPEARGHLS_ 0 0 0 ENSG00000111913|ENST00000643898|RIPOR2;nc|ENSG00000111913|Q9Y4F9|RIPOR2 ENSG00000111913|ENST00000643898|RIPOR2 ENSG00000111913|ENST00000643898|RIPOR2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 502.25704 1002.49953 3.5693 0.0017927 1.7494 0.00087867 5.3188 0.0026714 502.25784755835645 12.517 0.089035 13.16 13.121 13.21 0.64272 0.21965 -0.00022488 NaN 10.074 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 1788000 9636 1787 6179 6196 -0.0016234929929623831 HPEDVEPAL 9 Unmodified _HPEDVEPAL_ 0 0 0 ENSG00000117448|ENST00000351829|AKR1A1;ENST00000496999.5_1_1:46016755-46032693:+|nuORF;ENST00000497973.5_1_1:46032543-46034819:+|nuORF ENSG00000117448|ENST00000351829|AKR1A1 ENSG00000117448|ENST00000351829|AKR1A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 503.7471618652344 2 503.745639 1005.47673 2.7647 0.0013927 0.90149 0.00045412 3.6662 0.0018468 503.74601870062946 34.401 0.32817 34.401 34.271 34.599 0 30 17 2 0 0 0 0.010018 2 15635 15585;15635 81.864 45.82 1 1563000 9637 2072 6180 6197 11186;11187 11187 -0.025794132074452136 HPEDVEPAL 9 Unmodified _HPEDVEPAL_ 0 0 0 ENSG00000117448|ENST00000351829|AKR1A1;ENST00000496999.5_1_1:46016755-46032693:+|nuORF;ENST00000497973.5_1_1:46032543-46034819:+|nuORF ENSG00000117448|ENST00000351829|AKR1A1 ENSG00000117448|ENST00000351829|AKR1A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.7487487792969 2 503.745639 1005.47673 2.7301 0.0013753 0.062055 3.126E-05 2.7922 0.0014065 503.74559226804695 33.692 0.25316 34.48 34.302 34.556 0.78795 31 20 2 0 0 0 0.029308 2 15208 15208;15260 63.563 27.519 1 1413400 9638 2072 6180 6197 11188;11189 11188 -0.025794132074452136 HPEDVEPAL 9 Unmodified _HPEDVEPAL_ 0 0 0 ENSG00000117448|ENST00000351829|AKR1A1;ENST00000496999.5_1_1:46016755-46032693:+|nuORF;ENST00000497973.5_1_1:46032543-46034819:+|nuORF ENSG00000117448|ENST00000351829|AKR1A1 ENSG00000117448|ENST00000351829|AKR1A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.7471923828125 2 503.745639 1005.47673 3.2219 0.001623 0.48644 0.00024504 3.7083 0.0018681 503.7459040496802 34.321 0.34829 34.575 34.443 34.791 0.25389 28 15 3 0 0 0 0.029308 2 15612 15612;15663 63.563 27.519 1 1057500 9639 2072 6180 6197 11190;11191 11190 -0.025794132074452136 HPEDVEPAL 9 Unmodified _HPEDVEPAL_ 0 0 0 ENSG00000117448|ENST00000351829|AKR1A1;ENST00000496999.5_1_1:46016755-46032693:+|nuORF;ENST00000497973.5_1_1:46032543-46034819:+|nuORF ENSG00000117448|ENST00000351829|AKR1A1 ENSG00000117448|ENST00000351829|AKR1A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.7467956542969 2 503.745639 1005.47673 3.1348 0.0015791 0.56628 0.00028526 3.7011 0.0018644 503.74587204409187 33.871 0.32687 34.491 34.332 34.658 0.62031 32 17 2 0 0 0 0.029308 3 15528 15481;15528;15576 63.563 27.519 1 1211300 9640 2072 6180 6197 11192;11193;11194 11193 -0.025794132074452136 HPEEGDLDL 9 Unmodified _HPEEGDLDL_ 0 0 0 ENSG00000130254|ENST00000252542|SAFB2;nc|ENSG00000160633|Q15424-2|SAFB;nc|ENSG00000160633|Q15424|SAFB;nc|ENSG00000160633|Q15424-4|SAFB;ENSG00000160633|ENST00000588852|SAFB ENSG00000130254|ENST00000252542|SAFB2;nc|ENSG00000160633|Q15424-2|SAFB ENSG00000130254|ENST00000252542|SAFB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.7355346679688 2 512.732729 1023.4509 3.2256 0.0016539 0.33311 0.00017079 3.5587 0.0018247 512.7327886175383 38.359 0.89855 38.359 38.122 39.021 0 95 38 3 0 0 0 0.0026885 5 17350 17350;17404;17457;17508;17614 97.075 66.85 1 3495900 9641 2580;4069 6181 6198 11195;11196;11197;11198;11199 11195 -0.05988307449695185 HPEEGDLDL 9 Unmodified _HPEEGDLDL_ 0 0 0 ENSG00000130254|ENST00000252542|SAFB2;nc|ENSG00000160633|Q15424-2|SAFB;nc|ENSG00000160633|Q15424|SAFB;nc|ENSG00000160633|Q15424-4|SAFB;ENSG00000160633|ENST00000588852|SAFB ENSG00000130254|ENST00000252542|SAFB2;nc|ENSG00000160633|Q15424-2|SAFB ENSG00000130254|ENST00000252542|SAFB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.734619140625 2 512.732729 1023.4509 3.2257 0.0016539 -0.15248 -7.8182E-05 3.0732 0.0015757 512.7325895211729 37.326 0.83619 38.122 37.886 38.722 0.79552 96 38 3 0 0 0 0.0019388 6 16894 16839;16894;16946;17001;17052;17109 104.8 72.013 1 2935900 9642 2580;4069 6181 6198 11200;11201;11202;11203;11204;11205 11201 -0.05988307449695185 HPEEGDLDL 9 Unmodified _HPEEGDLDL_ 0 0 0 ENSG00000130254|ENST00000252542|SAFB2;nc|ENSG00000160633|Q15424-2|SAFB;nc|ENSG00000160633|Q15424|SAFB;nc|ENSG00000160633|Q15424-4|SAFB;ENSG00000160633|ENST00000588852|SAFB ENSG00000130254|ENST00000252542|SAFB2;nc|ENSG00000160633|Q15424-2|SAFB ENSG00000130254|ENST00000252542|SAFB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.7341918945312 2 512.732729 1023.4509 3.2428 0.0016627 0.23683 0.00012143 3.4797 0.0017841 512.7327621621188 38.246 0.9289 38.51 38.216 39.144 0.26408 66 32 3 0 0 0 0.0026885 4 17394 17394;17452;17506;17567 97.075 66.85 1 3699000 9643 2580;4069 6181 6198 11206;11207;11208;11209 11206 -0.05988307449695185 HPEEGDLDL 9 Unmodified _HPEEGDLDL_ 0 0 0 ENSG00000130254|ENST00000252542|SAFB2;nc|ENSG00000160633|Q15424-2|SAFB;nc|ENSG00000160633|Q15424|SAFB;nc|ENSG00000160633|Q15424-4|SAFB;ENSG00000160633|ENST00000588852|SAFB ENSG00000130254|ENST00000252542|SAFB2;nc|ENSG00000160633|Q15424-2|SAFB ENSG00000130254|ENST00000252542|SAFB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.7343139648438 2 512.732729 1023.4509 3.2739 0.0016786 0.15663 8.0311E-05 3.4306 0.001759 512.7328066370102 37.685 1.067 38.319 38.031 39.098 0.63388 106 40 4 0 0 0 0.0026885 5 17194 17194;17246;17292;17342;17400 97.075 66.85 1 3337600 9644 2580;4069 6181 6198 11210;11211;11212;11213;11214 11210 -0.05988307449695185 HPEFGQVL 8 Unmodified _HPEFGQVL_ 0 0 0 nc|ENSG00000085415|Q96EE3|SEH1L;ENSG00000085415|ENST00000399892|SEH1L nc|ENSG00000085415|Q96EE3|SEH1L nc|ENSG00000085415|Q96EE3|SEH1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.74212646484375 2 463.74016 925.465767 2.5117 0.0011648 0.76161 0.00035319 3.2733 0.001518 463.74031107210317 47.51 0.24156 47.51 47.37 47.611 0 22 13 2 0 0 0 0.037436 1 21758 21758 70.716 26.309 1 729800 9645 967 6182 6199 11215 11215 5.229208954915521E-05 HPEFGQVL 8 Unmodified _HPEFGQVL_ 0 0 0 nc|ENSG00000085415|Q96EE3|SEH1L;ENSG00000085415|ENST00000399892|SEH1L nc|ENSG00000085415|Q96EE3|SEH1L nc|ENSG00000085415|Q96EE3|SEH1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.7425537109375 2 463.74016 925.465767 2.6803 0.001243 -0.075596 -3.5057E-05 2.6047 0.0012079 463.74066610254573 46.359 0.28788 47.188 47.042 47.33 0.82915 24 15 2 0 0 0 0.025999 2 21119 21119;21177 81.864 28.288 1 674090 9646 967 6182 6199 11216;11217 11216 5.229208954915521E-05 HPEFGQVL 8 Unmodified _HPEFGQVL_ 0 0 0 nc|ENSG00000085415|Q96EE3|SEH1L;ENSG00000085415|ENST00000399892|SEH1L nc|ENSG00000085415|Q96EE3|SEH1L nc|ENSG00000085415|Q96EE3|SEH1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.7414245605469 2 463.74016 925.465767 2.9205 0.0013543 0.29919 0.00013875 3.2197 0.0014931 463.74012380929855 47.458 0.3311 47.721 47.441 47.772 0.26363 21 13 2 0 0 0 0.06577 2 21623 21623;21684 60.39 24.345 1 466140 9647 967 6182 6199 11218;11219 11218 5.229208954915521E-05 HPEFGQVL 8 Unmodified _HPEFGQVL_ 0 0 0 nc|ENSG00000085415|Q96EE3|SEH1L;ENSG00000085415|ENST00000399892|SEH1L nc|ENSG00000085415|Q96EE3|SEH1L nc|ENSG00000085415|Q96EE3|SEH1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.7417907714844 2 463.74016 925.465767 2.8988 0.0013443 -0.14599 -6.77E-05 2.7528 0.0012766 463.7401801570446 46.682 0.3112 47.334 47.226 47.537 0.65219 15 9 2 0 0 0 0.037436 1 21399 21399 70.716 26.309 1 353180 9648 967 6182 6199 11220 11220 5.229208954915521E-05 HPEFGQVL 8 Unmodified _HPEFGQVL_ 0 0 0 nc|ENSG00000085415|Q96EE3|SEH1L;ENSG00000085415|ENST00000399892|SEH1L nc|ENSG00000085415|Q96EE3|SEH1L nc|ENSG00000085415|Q96EE3|SEH1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.74151611328125 2 463.74016 925.465767 NaN NaN NaN NaN NaN NaN NaN 46.896 1 47.548 47.048 48.048 0.65219 0 0 0 0.82924 1 21477 21477 16.942 2.3606 1 9649 967 6182 6199 11221 11221 5.229208954915521E-05 HPEGGASW 8 Unmodified _HPEGGASW_ 0 0 0 nc|ENSG00000104442|Q9NVT9-2|ARMC1;ENSG00000104442|ENST00000276569|ARMC1 nc|ENSG00000104442|Q9NVT9-2|ARMC1 nc|ENSG00000104442|Q9NVT9-2|ARMC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 420.6859436035156 2 420.685385 839.356216 NaN NaN NaN NaN NaN NaN NaN 70.744 1 71.406 70.906 71.906 0.66209 0 0 0 0.99035 1 32423 32423 2.5775 0 1 9650 1440 6183 6200 11222 11222 -0.06988776410389619 HPEGPDSTIL 10 Unmodified _HPEGPDSTIL_ 0 0 0 nc|ENSG00000144455|Q8NBK3-2|SUMF1;nc|ENSG00000144455|Q8NBK3-4|SUMF1;nc|ENSG00000144455|Q8NBK3-5|SUMF1;ENSG00000144455|ENST00000272902|SUMF1;nc|ENSG00000144455|Q8NBK3-3|SUMF1 nc|ENSG00000144455|Q8NBK3-2|SUMF1 nc|ENSG00000144455|Q8NBK3-2|SUMF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.2659301757812 2 533.264196 1064.51384 3.132 0.0016702 -0.1148 -6.1217E-05 3.0172 0.0016089 533.7657421447616 38.099 0.2691 38.099 37.935 38.204 0 15 9 2 0 0 0 0.21136 1 17294 17294 37.974 12.575 1 355420 9651 3427 6184 6201 11223 11223 -0.015837416616705013 HPEGSRLPY 9 Unmodified _HPEGSRLPY_ 0 0 0 REV__ENST00000302517.7_1_5:139063133-139063247:+|nuORF REV__ENST00000302517.7_1_5:139063133-139063247:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.2677612304688 2 528.267073 1054.51959 NaN NaN NaN NaN NaN NaN NaN 58.93 1 58.93 58.43 59.43 0 0 0 0 0.88916 1 27219 27219 6.2058 0.44535 1 + 9652 15202 6185 6202 11224 11224 -0.005485983593416677 HPEIISVLL 9 Unmodified _HPEIISVLL_ 0 0 0 ENST00000587974.1_1_18:43487913-43547205:-|nuORF;nc|ENSG00000152223|Q9HCE0-2|EPG5;ENSG00000152223|ENST00000282041|EPG5 ENST00000587974.1_1_18:43487913-43547205:-|nuORF ENST00000587974.1_1_18:43487913-43547205:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.6994934082031 2 510.808042 1019.60153 NaN NaN NaN NaN NaN NaN NaN 75.583 1 76.247 75.747 76.747 0.6644 0 0 0 0.3934 1 34825 34825 23.148 5.0021 1 9653 3744 6186 6203 11225 11225 0.09251503999769284 HPEKLATVL 9 Unmodified _HPEKLATVL_ 0 0 0 ENSG00000164934|ENST00000612750|DCAF13;nc|ENSG00000164934|Q9NV06-2|DCAF13;ENST00000521716.1_1_8:104427674-104432721:+|nuORF ENSG00000164934|ENST00000612750|DCAF13 ENSG00000164934|ENST00000612750|DCAF13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.2991027832031 2 504.297842 1006.58113 3.1488 0.0015879 -0.35851 -0.0001808 2.7902 0.0014071 504.2977421085552 32.227 0.61553 32.227 31.995 32.611 0 153 53 4 0 0 0 0.0090098 5 14567 14520;14567;14609;14654;14701 83.429 31.16 1 9447900 9654 4357 6187 6204 11226;11227;11228;11229;11230 11227 0.0781033333993264 HPEKLATVL 9 Unmodified _HPEKLATVL_ 0 0 0 ENSG00000164934|ENST00000612750|DCAF13;nc|ENSG00000164934|Q9NV06-2|DCAF13;ENST00000521716.1_1_8:104427674-104432721:+|nuORF ENSG00000164934|ENST00000612750|DCAF13 ENSG00000164934|ENST00000612750|DCAF13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.2992858886719 2 504.297842 1006.58113 3.1064 0.0015666 -0.051399 -2.5921E-05 3.055 0.0015406 504.29787751363915 31.359 0.51825 32.148 31.91 32.428 0.78879 133 44 4 0 0 0 0.0090098 4 14216 14127;14172;14216;14261 83.429 31.16 1 9436000 9655 4357 6187 6204 11231;11232;11233;11234 11233 0.0781033333993264 HPEKLATVL 9 Unmodified _HPEKLATVL_ 0 0 0 ENSG00000164934|ENST00000612750|DCAF13;nc|ENSG00000164934|Q9NV06-2|DCAF13;ENST00000521716.1_1_8:104427674-104432721:+|nuORF ENSG00000164934|ENST00000612750|DCAF13 ENSG00000164934|ENST00000612750|DCAF13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.29998779296875 2 504.297842 1006.58113 3.5713 0.001801 0.12903 6.5068E-05 3.7003 0.0018661 504.2979400161852 32.08 0.50433 32.334 32.071 32.576 0.25452 88 35 4 0 0 0 0.0090098 4 14595 14547;14595;14637;14679 83.429 31.16 1 4274200 9656 4357 6187 6204 11235;11236;11237;11238 11236 0.0781033333993264 HPEKLATVL 9 Unmodified _HPEKLATVL_ 0 0 0 ENSG00000164934|ENST00000612750|DCAF13;nc|ENSG00000164934|Q9NV06-2|DCAF13;ENST00000521716.1_1_8:104427674-104432721:+|nuORF ENSG00000164934|ENST00000612750|DCAF13 ENSG00000164934|ENST00000612750|DCAF13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.2997131347656 2 504.297842 1006.58113 3.2423 0.0016351 0.36933 0.00018625 3.6116 0.0018213 504.29801667253486 31.45 0.49591 32.067 31.858 32.354 0.61737 103 39 4 0 0 0 0.011692 4 14423 14378;14423;14467;14550 79.596 27.328 1 5531300 9657 4357 6187 6204 11239;11240;11241;11242 11240 0.0781033333993264 HPELIDAAF 9 Unmodified _HPELIDAAF_ 0 0 0 ENSG00000134901|ENST00000376004|POGLUT2;ENST00000460338.5_1_13:103436847-103443499:-|nuORF ENSG00000134901|ENST00000376004|POGLUT2 ENSG00000134901|ENST00000376004|POGLUT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.2622375488281 2 506.758549 1011.50255 3.2787 0.0016615 0.11881 6.021E-05 3.3975 0.0017217 506.7585137083452 59.71 0.32654 59.97 59.647 59.974 0.2593 24 16 2 0 0 0 0.020718 1 27267 27267 67.344 38.857 1 889920 9658 2837 6188 6205 11243 11243 -0.0027451896515913177 HPELIDAAF 9 Unmodified _HPELIDAAF_ 0 0 0 ENSG00000134901|ENST00000376004|POGLUT2;ENST00000460338.5_1_13:103436847-103443499:-|nuORF ENSG00000134901|ENST00000376004|POGLUT2 ENSG00000134901|ENST00000376004|POGLUT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.7619934082031 2 506.758549 1011.50255 3.2911 0.0016678 2.8536 0.0014461 6.1447 0.0031139 506.7601926849339 58.937 0.51812 59.604 59.321 59.839 0.66703 44 25 2 0 0 0 0.020718 1 26970 26970 67.344 38.857 1 417650 9659 2837 6188 6205 11244 11244 -0.0027451896515913177 HPELSNSQL 9 Unmodified _HPELSNSQL_ 0 0 0 SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant;nc|ENSG00000135317|Q9Y5W7-3|SNX14;nc|ENSG00000135317|Q9Y5W7-4|SNX14;ENSG00000135317|ENST00000314673|SNX14;nc|ENSG00000135317|Q9Y5W7-2|SNX14;ENST00000503608.5_1_6:86227446-86235949:-|nuORF SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.1000366210938 2 512.756538 1023.49852 3.2503 0.0016666 0.2696 0.00013824 3.5199 0.0018049 512.7568221022898 26.833 0.10727 27.611 27.551 27.658 0.7787 12 7 2 0 0 0 0.012748 1 12045 12045 78.149 36.055 1 711970 9660 2863 6189 6206 11245 11245 -0.012286084588595259 HPELSNSQL 9 Unmodified _HPELSNSQL_ 0 0 0 SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant;nc|ENSG00000135317|Q9Y5W7-3|SNX14;nc|ENSG00000135317|Q9Y5W7-4|SNX14;ENSG00000135317|ENST00000314673|SNX14;nc|ENSG00000135317|Q9Y5W7-2|SNX14;ENST00000503608.5_1_6:86227446-86235949:-|nuORF SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 512.756538 1023.49852 3.4217 0.0017545 0.42146 0.00021611 3.8432 0.0019706 512.7569584220147 27.8 0.15911 27.8 27.705 27.864 0 0.010609 0.00023224 NaN 78.149 23 12 2 NaN NaN NaN NaN 0 NaN NaN 0 487650 9661 2863 6189 6206 -0.012286084588595259 HPELSNSQL 9 Unmodified _HPELSNSQL_ 0 0 0 SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant;nc|ENSG00000135317|Q9Y5W7-3|SNX14;nc|ENSG00000135317|Q9Y5W7-4|SNX14;ENSG00000135317|ENST00000314673|SNX14;nc|ENSG00000135317|Q9Y5W7-2|SNX14;ENST00000503608.5_1_6:86227446-86235949:-|nuORF SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 512.756538 1023.49852 3.2901 0.001687 -0.15182 -7.7847E-05 3.1383 0.0016092 512.7561675849779 27.59 0.18317 27.853 27.803 27.986 0.26245 0.063005 -0.00035567 NaN 78.149 15 11 2 NaN NaN NaN NaN 0 NaN NaN 0 230570 9662 2863 6189 6206 -0.012286084588595259 HPELSNSQL 9 Unmodified _HPELSNSQL_ 0 0 0 SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant;nc|ENSG00000135317|Q9Y5W7-3|SNX14;nc|ENSG00000135317|Q9Y5W7-4|SNX14;ENSG00000135317|ENST00000314673|SNX14;nc|ENSG00000135317|Q9Y5W7-2|SNX14;ENST00000503608.5_1_6:86227446-86235949:-|nuORF SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 512.756538 1023.49852 3.2812 0.0016825 0.16846 8.6381E-05 3.4497 0.0017688 512.75680245829 27.273 0.23443 27.894 27.726 27.96 0.62179 0.1047 -2.7211E-05 NaN 78.149 18 12 2 NaN NaN NaN NaN 0 NaN NaN 0 246950 9663 2863 6189 6206 -0.012286084588595259 HPEPASGLAAL 11 Unmodified _HPEPASGLAAL_ 0 0 0 ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.7847900390625 2 531.782556 1061.55056 2.961 0.0015746 0.669 0.00035576 3.63 0.0019304 531.7827865432628 46.113 0.34059 46.113 45.967 46.307 0 41 17 3 0 0 0 5.4432E-05 2 21076 21076;21124 92.491 52.542 1 5229100 9664 4706 6190 6207 11246;11247 11246 0.022245549549097632 HPEPASGLAAL 11 Unmodified _HPEPASGLAAL_ 0 0 0 ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.7838745117188 2 531.782556 1061.55056 3.0349 0.0016139 0.4898 0.00026046 3.5247 0.0018744 531.7825675668515 45.091 0.65759 45.918 45.49 46.147 0.82621 105 35 5 0 0 0 5.4432E-05 3 20483 20483;20529;20582 92.491 52.542 1 3404200 9665 4706 6190 6207 11248;11249;11250 11248 0.022245549549097632 HPEPASGLAAL 11 Unmodified _HPEPASGLAAL_ 0 0 0 ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.7841796875 2 531.782556 1061.55056 3.0944 0.0016456 -0.20732 -0.00011025 2.8871 0.0015353 531.7825591211829 45.902 0.43296 46.167 45.954 46.387 0.26561 34 18 2 0 0 0 0.00014725 3 20945 20945;20995;21045 85.272 45.322 1 4130700 9666 4706 6190 6207 11251;11252;11253 11251 0.022245549549097632 HPEPASGLAAL 11 Unmodified _HPEPASGLAAL_ 0 0 0 ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.7846069335938 2 531.782556 1061.55056 3.4791 0.0018501 0.20611 0.00010961 3.6852 0.0019598 531.7826931210084 45.233 0.5188 45.884 45.721 46.24 0.65104 55 22 3 0 0 0 5.4432E-05 3 20704 20704;20761;20804 92.491 52.542 1 3264500 9667 4706 6190 6207 11254;11255;11256 11254 0.022245549549097632 HPEPGTWDSF 10 Unmodified _HPEPGTWDSF_ 0 0 0 ENST00000562941.1_1_16:29473130-29474884:+|nuORF;ENST00000562257.5_1_16:30212387-30214357:+|nuORF;nc|ENSG00000261052|P0DMM9-2|SULT1A3;ENST00000569959.5_1_16:30212049-30214229:+|nuORF;nc|ENSG00000289755|P50225-2|SULT1A1;ENSG00000261052|ENST00000338971|SULT1A3;ENSG00000213648|ENST00000360423|SULT1A4;ENSG00000196502|ENST00000314752|SULT1A1;nc|ENSG00000261052|P0DMM9-3|SULT1A3 ENST00000562941.1_1_16:29473130-29474884:+|nuORF ENST00000562941.1_1_16:29473130-29474884:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.7559204101562 2 586.753995 1171.49344 3.4307 0.002013 -0.15264 -8.9563E-05 3.2781 0.0019234 586.7540090878449 50.302 0.32303 50.959 50.833 51.156 0.65735 21 14 2 0 0 0 0.16248 2 23020 23020;23080 61.357 39.82 1 349880 9668 5749 6191 6208 11257;11258 11257 -0.08544912321485754 HPEPGTWDSF 10 Unmodified _HPEPGTWDSF_ 0 0 0 ENST00000562941.1_1_16:29473130-29474884:+|nuORF;ENST00000562257.5_1_16:30212387-30214357:+|nuORF;nc|ENSG00000261052|P0DMM9-2|SULT1A3;ENST00000569959.5_1_16:30212049-30214229:+|nuORF;nc|ENSG00000289755|P50225-2|SULT1A1;ENSG00000261052|ENST00000338971|SULT1A3;ENSG00000213648|ENST00000360423|SULT1A4;ENSG00000196502|ENST00000314752|SULT1A1;nc|ENSG00000261052|P0DMM9-3|SULT1A3 ENST00000562941.1_1_16:29473130-29474884:+|nuORF ENST00000562941.1_1_16:29473130-29474884:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 586.753995 1171.49344 3.7418 0.0021955 0.40246 0.00023614 4.1442 0.0024316 586.7545944409673 50.918 0.26332 50.918 50.733 50.996 0 -0.020257 0.00045721 NaN 61.357 13 10 2 NaN NaN NaN NaN 0 NaN NaN 0 369850 9669 5749 6191 6208 -0.08544912321485754 HPEQEIHCV 9 Unmodified _HPEQEIHCV_ 0 0 0 REV__ENST00000550211.1_1_12:51855003-51860258:+|nuORF REV__ENST00000550211.1_1_12:51855003-51860258:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.2515869140625 2 546.250566 1090.48658 NaN NaN NaN NaN NaN NaN NaN 41.781 1 42.051 41.551 42.551 0.27021 0 0 0 0.84134 1 19036 19036 7.9102 0 1 + 9670 10349 6192 6209 11259 11259 -0.05504548473709292 HPERPDSV 8 Unmodified _HPERPDSV_ 0 0 0 ENSG00000184178|ENST00000401642|SCFD2 ENSG00000184178|ENST00000401642|SCFD2 ENSG00000184178|ENST00000401642|SCFD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 468.7320251464844 2 468.730323 935.446094 2.89 0.0013546 0.1392 6.5245E-05 3.0292 0.0014199 468.7303139311866 18.689 0.28603 18.689 18.422 18.708 0 39 19 3 0 0 0 0.49219 1 8285 8285 21.747 1.293 1 1561800 9671 5424 6193 6210 11260 11260 -0.024211468018052074 HPERPDSV 8 Unmodified _HPERPDSV_ 0 0 0 ENSG00000184178|ENST00000401642|SCFD2 ENSG00000184178|ENST00000401642|SCFD2 ENSG00000184178|ENST00000401642|SCFD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.731689453125 2 468.730323 935.446094 2.6226 0.0012293 0.55331 0.00025935 3.1759 0.0014887 468.7305329787057 17.274 0.76533 17.578 17.114 17.879 0.30438 118 58 3 0 0 0 0.63902 1 7807 7807 10.824 0 1 253940 9672 5424 6193 6210 11261 11261 -0.024211468018052074 HPERPDSV 8 Unmodified _HPERPDSV_ 0 0 0 ENSG00000184178|ENST00000401642|SCFD2 ENSG00000184178|ENST00000401642|SCFD2 ENSG00000184178|ENST00000401642|SCFD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 468.7315673828125 2 468.730323 935.446094 2.9095 0.0013638 0.3552 0.00016649 3.2647 0.0015303 468.7304676537244 17.219 0.63947 17.88 17.441 18.081 0.66072 84 50 2 0 0 0 0.57648 2 7748 7692;7748 15.847 2.3393 1 402680 9673 5424 6193 6210 11262;11263 11263 -0.024211468018052074 HPERPDSV 8 Unmodified _HPERPDSV_ 0 0 0 ENSG00000184178|ENST00000401642|SCFD2 ENSG00000184178|ENST00000401642|SCFD2 ENSG00000184178|ENST00000401642|SCFD2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 468.730323 935.446094 2.89 0.0013546 0.1392 6.5245E-05 3.0292 0.0014199 468.7303139311866 18.689 0.28603 18.689 18.422 18.708 0 0 0 NaN 21.747 39 19 3 NaN NaN NaN NaN 0 NaN NaN 0 1561800 9674 5424 6193 6210 -0.024211468018052074 HPERPDSV 8 Unmodified _HPERPDSV_ 0 0 0 ENSG00000184178|ENST00000401642|SCFD2 ENSG00000184178|ENST00000401642|SCFD2 ENSG00000184178|ENST00000401642|SCFD2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 468.730323 935.446094 2.6226 0.0012293 0.55331 0.00025935 3.1759 0.0014887 468.7305329787057 17.274 0.76533 17.578 17.114 17.879 0.30438 -0.15103 9.4254E-05 NaN 15.847 118 58 3 NaN NaN NaN NaN 0 NaN NaN 0 253940 9675 5424 6193 6210 -0.024211468018052074 HPERPDSV 8 Unmodified _HPERPDSV_ 0 0 0 ENSG00000184178|ENST00000401642|SCFD2 ENSG00000184178|ENST00000401642|SCFD2 ENSG00000184178|ENST00000401642|SCFD2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 468.730323 935.446094 2.9095 0.0013638 0.3552 0.00016649 3.2647 0.0015303 468.7304676537244 17.219 0.63947 17.88 17.441 18.081 0.66072 0.15103 -9.1467E-05 NaN 15.847 84 50 2 NaN NaN NaN NaN 0 NaN NaN 0 402680 9676 5424 6193 6210 -0.024211468018052074 HPERVSYVL 9 Unmodified _HPERVSYVL_ 0 0 0 ENST00000559180.1_1_10:135086915-135090354:-|nuORF;ENST00000537099.5_1_10:135085588-135089062:-|nuORF;nc|ENSG00000151651|P78325-3|ADAM8;ENSG00000151651|ENST00000445355|ADAM8 ENST00000559180.1_1_10:135086915-135090354:-|nuORF ENST00000559180.1_1_10:135086915-135090354:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.2822875976562 2 550.298373 1098.58219 3.5329 0.0019441 -0.41227 -0.00022687 3.1206 0.0017173 550.2982047881148 60.56 0.30764 61.222 61.051 61.359 0.66261 31 15 3 0 0 0 0.3144 1 27649 27649 15.847 1.9411 1 1089500 9677 3721 6194 6211 11264 11264 0.03684547708849095 HPESERISM 9 Unmodified _HPESERISM_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.258544921875 2 543.255848 1084.49714 3.5595 0.0019337 -0.69154 -0.00037568 2.868 0.001558 543.2556722888021 18.673 0.50651 18.673 18.348 18.854 0 150 58 5 0 0 0 1.0706E-08 5 8284 8190;8239;8284;8326;8365 155.03 109.01 1 29758000 9678 1960 6195 6212 11265;11266;11267;11268;11269 11267 -0.041725658192717674 HPESERISM 9 Unmodified _HPESERISM_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.5071716308594 3 362.506324 1084.49714 2.7358 0.00099173 -0.55456 -0.00020103 2.1812 0.0007907 362.50619102007994 18.69 0.41151 18.69 18.376 18.788 0 89 39 4 0 0 0 0.02812 3 8309 8218;8265;8309 46.022 22.647 1 6816300 9679 1960 6195 6212 11270;11271;11272 11272 -0.041725658192717674 HPESERISM 9 Unmodified _HPESERISM_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.2571411132812 2 543.255848 1084.49714 2.9407 0.0015975 -0.33392 -0.0001814 2.6067 0.0014161 543.2558246938744 17.933 0.27762 18.133 17.963 18.241 0.20057 96 32 4 0 0 0 0.0027913 3 7996 7899;7950;7996 96.367 58.393 1 56253000 9680 1960 6195 6212 11273;11274;11275 11275 -0.041725658192717674 HPESERISM 9 Unmodified _HPESERISM_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.5071716308594 3 362.506324 1084.49714 2.192 0.00079463 -0.15312 -5.5506E-05 2.0389 0.00073912 362.50623966907585 17.946 0.2029 18.147 17.987 18.19 0.20057 39 21 2 0 0 0 0.057945 1 7930 7930 34.222 11.564 1 7908400 9681 1960 6195 6212 11276 11276 -0.041725658192717674 HPESERISM 9 Unmodified _HPESERISM_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.25830078125 2 543.255848 1084.49714 3.1997 0.0017383 0.44141 0.0002398 3.6412 0.0019781 543.2563240403707 17.212 1.3676 17.516 16.772 18.139 0.30438 390 116 5 0 0 0 0.00038954 12 7819 7500;7543;7591;7636;7686;7729;7772;7819;7866;7909;7954;7999 133.05 88.645 1 6390300 9682 1960 6195 6212 11277;11278;11279;11280;11281;11282;11283;11284;11285;11286;11287;11288 11284 -0.041725658192717674 HPESERISM 9 Unmodified _HPESERISM_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.5074462890625 3 362.506324 1084.49714 2.4201 0.00087728 0.42973 0.00015578 2.8498 0.0010331 362.5065730723688 17.239 1.0066 17.543 16.995 18.002 0.30438 267 79 4 0 0 0 0.053453 5 7837 7708;7751;7797;7837;7881 40.239 30.695 1 1430700 9683 1960 6195 6212 11289;11290;11291;11292;11293 11292 -0.041725658192717674 HPESERISM 9 Unmodified _HPESERISM_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.2578125 2 543.255848 1084.49714 3.4719 0.0018861 0.27282 0.00014821 3.7447 0.0020343 543.2562286858315 17.214 1.0081 17.874 17.228 18.236 0.66072 320 85 5 0 0 0 0.00068611 10 7635 7500;7543;7588;7635;7676;7727;7767;7814;7861;7903 129.77 83.751 1 11199000 9684 1960 6195 6212 11294;11295;11296;11297;11298;11299;11300;11301;11302;11303 11297 -0.041725658192717674 HPESERISM 9 Unmodified _HPESERISM_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.50750732421875 3 362.506324 1084.49714 2.5731 0.00093278 0.35527 0.00012879 2.9284 0.0010616 362.50655241357737 17.186 0.86409 17.847 17.305 18.169 0.66072 212 69 4 0 0 0 0.038142 4 7648 7648;7691;7747;7795 47.594 32.697 1 1510700 9685 1960 6195 6212 11304;11305;11306;11307 11304 -0.041725658192717674 HPESGEEAVAL 11 Unmodified _HPESGEEAVAL_ 0 0 0 ENST00000530891.3_1_15:85175130-85175559:+|nuORF;nc|ENSG00000176700|Q9GZW5-2|SCAND2P;ENST00000348993.9_1_15:85175130-85180634:+|nuORF;ENST00000427525.2_1_15:85175388-85177573:+|nuORF;nc|ENSG00000176700|Q9GZW5|SCAND2P;nc|ENSG00000121903|P17040-4|ZSCAN20;nc|ENSG00000121903|P17040-2|ZSCAN20;nc|ENSG00000121903|P17040-3|ZSCAN20;ENSG00000121903|ENST00000684572|ZSCAN20 ENST00000530891.3_1_15:85175130-85175559:+|nuORF ENST00000530891.3_1_15:85175130-85175559:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.7745361328125 2 569.772385 1137.53022 NaN NaN NaN NaN NaN NaN NaN 31.936 1 32.553 32.053 33.053 0.61737 0 0 0 0.93332 1 14645 14645 13.042 2.243 1 9686 2248 6196 6213 11308 11308 -0.03304660495564349 HPESGEVTV 9 Unmodified _HPESGEVTV_ 0 0 0 ENSG00000100393|ENST00000263253|EP300 ENSG00000100393|ENST00000263253|EP300 ENSG00000100393|ENST00000263253|EP300 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.7305603027344 2 477.729989 953.445425 3.1119 0.0014867 -0.97517 -0.00046587 2.1368 0.0010208 477.72917538222794 19.925 0.33954 19.925 19.808 20.147 0 67 30 3 0 0 0 0.020718 1 8908 8908 67.344 31.3 1 1415100 9687 1214 6197 6214 11309 11309 -0.03315986241500468 HPESGEVTV 9 Unmodified _HPESGEVTV_ 0 0 0 ENSG00000100393|ENST00000263253|EP300 ENSG00000100393|ENST00000263253|EP300 ENSG00000100393|ENST00000263253|EP300 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 477.7304382324219 2 477.729989 953.445425 2.8748 0.0013734 -0.83724 -0.00039997 2.0376 0.00097341 477.7293230891955 19.505 0.28574 19.802 19.717 20.003 0.29753 57 24 3 0 0 0 0.020718 1 8886 8886 67.344 31.3 1 999770 9688 1214 6197 6214 11310 11310 -0.03315986241500468 HPESGEVTV 9 Unmodified _HPESGEVTV_ 0 0 0 ENSG00000100393|ENST00000263253|EP300 ENSG00000100393|ENST00000263253|EP300 ENSG00000100393|ENST00000263253|EP300 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.7298278808594 2 477.729989 953.445425 3.2291 0.0015426 -1.9661 -0.00093927 1.263 0.00060335 477.72901272043885 19.154 0.29222 19.813 19.728 20.02 0.6583 50 23 3 0 0 0 0.041436 1 8680 8680 50.855 16.753 1 1052900 9689 1214 6197 6214 11311 11311 -0.03315986241500468 HPESHVLVL 9 Unmodified _HPESHVLVL_ 0 0 0 ENSG00000128274|ENST00000642412|A4GALT ENSG00000128274|ENST00000642412|A4GALT ENSG00000128274|ENST00000642412|A4GALT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.7897338867188 2 515.787641 1029.56073 3.5561 0.0018342 0.31609 0.00016304 3.8722 0.0019972 515.787475055745 36.279 0.37596 36.906 36.729 37.105 0.62631 17 11 2 0 0 0 0.078225 1 16619 16619 50.855 8.7605 1 469070 9690 2506 6198 6215 11312 11312 0.04713162680127425 HPESHVLVL 9 Unmodified _HPESHVLVL_ 0 0 0 ENSG00000128274|ENST00000642412|A4GALT ENSG00000128274|ENST00000642412|A4GALT ENSG00000128274|ENST00000642412|A4GALT MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 515.787641 1029.56073 3.2818 0.0016927 0.87184 0.00044968 4.1536 0.0021424 515.7876259515123 37.165 0.33614 37.165 37.01 37.346 0 0.1246 0.0007402 NaN 50.855 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 393630 9691 2506 6198 6215 0.04713162680127425 HPESVSQSL 9 Unmodified _HPESVSQSL_ 0 0 0 FOXJ3|p.S307Hfs*7|1|0.14|ENSG00000198815|chr1:42194905-42194905|A/-|frameshift_variant;nc|ENSG00000198815|Q9UPW0-2|FOXJ3;ENSG00000198815|ENST00000361346|FOXJ3 FOXJ3|p.S307Hfs*7|1|0.14|ENSG00000198815|chr1:42194905-42194905|A/-|frameshift_variant FOXJ3|p.S307Hfs*7|1|0.14|ENSG00000198815|chr1:42194905-42194905|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.2450256347656 2 492.243264 982.471974 3.2056 0.001578 2.1422 0.0010545 5.3479 0.0026324 492.2436849672178 22.491 0.13793 22.491 22.372 22.51 0 26 9 4 0 0 0 0.0063783 1 10088 10088 88.904 42.883 1 674950 9692 5940 6199 6216 11313 11313 -0.019962973501833403 HPEVAPDVRL 10 Unmodified _HPEVAPDVRL_ 0 0 0 ENSG00000137076|ENST00000314888|TLN1;nc|ENSG00000137076|Q9Y490-2|TLN1 ENSG00000137076|ENST00000314888|TLN1 ENSG00000137076|ENST00000314888|TLN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.81103515625 2 566.809105 1131.60366 3.4264 0.0019421 -0.29542 -0.00016744 3.131 0.0017747 566.808950850234 38.516 0.32147 38.516 38.402 38.724 0 32 15 3 0 0 0 0.12269 2 17477 17477;17527 49.527 33.378 1 691480 9693 2996 6200 6217 11314;11315 11314 0.04311932737573443 HPEVAPDVRL 10 Unmodified _HPEVAPDVRL_ 0 0 0 ENSG00000137076|ENST00000314888|TLN1;nc|ENSG00000137076|Q9Y490-2|TLN1 ENSG00000137076|ENST00000314888|TLN1 ENSG00000137076|ENST00000314888|TLN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.8109130859375 2 566.809105 1131.60366 3.4709 0.0019673 -0.5463 -0.00030965 2.9246 0.0016577 566.8088567083935 37.566 0.32486 38.362 38.182 38.507 0.79552 27 15 2 0 0 0 0.055107 1 17031 17031 61.09 39.553 1 600920 9694 2996 6200 6217 11316 11316 0.04311932737573443 HPEVAPDVRL 10 Unmodified _HPEVAPDVRL_ 0 0 0 ENSG00000137076|ENST00000314888|TLN1;nc|ENSG00000137076|Q9Y490-2|TLN1 ENSG00000137076|ENST00000314888|TLN1 ENSG00000137076|ENST00000314888|TLN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 566.810302734375 2 566.809105 1131.60366 NaN NaN NaN NaN NaN NaN NaN 38.3 1 38.564 38.064 39.064 0.26408 0 0 0 0.13417 1 17439 17439 84.522 62.985 1 9695 2996 6200 6217 11317 11317 0.04311932737573443 HPEVAPDVRL 10 Unmodified _HPEVAPDVRL_ 0 0 0 ENSG00000137076|ENST00000314888|TLN1;nc|ENSG00000137076|Q9Y490-2|TLN1 ENSG00000137076|ENST00000314888|TLN1 ENSG00000137076|ENST00000314888|TLN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.810302734375 2 566.809105 1131.60366 3.4906 0.0019785 0.11183 6.3387E-05 3.6024 0.0020419 566.8092618161562 37.653 0.31931 38.287 38.118 38.438 0.63388 23 10 3 0 0 0 0.13557 2 17220 17220;17274 47.732 34.69 1 606900 9696 2996 6200 6217 11318;11319 11318 0.04311932737573443 HPEYGEVIQL 10 Unmodified _HPEYGEVIQL_ 0 0 0 ENST00000488260.1_1_3:40351432-40353086:+|nuORF;ENSG00000173812|ENST00000469257|EIF1;ENSG00000114784|ENST00000232905|EIF1B;ENST00000487533.1_1_2:9411463-9411580:-|nuORF;ENST00000462917.1_1_17:39846204-39847075:+|nuORF;ENST00000310837.8_1_17:39845180-39847075:+|nuORF ENST00000488260.1_1_3:40351432-40353086:+|nuORF ENST00000488260.1_1_3:40351432-40353086:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.3067626953125 2 592.800946 1183.58734 3.5422 0.0020998 0.48362 0.00028669 4.0258 0.0023865 592.8010566846091 57.078 0.27244 57.078 56.955 57.228 0 49 32 2 0 0 0 0.011594 3 26258 26258;26330;26335 88.954 48.997 1 3184400 9697 1922 6201 6218 11320;11321;11322 11320 0.002888067808271444 HPEYGEVIQL 10 Unmodified _HPEYGEVIQL_ 0 0 0 ENST00000488260.1_1_3:40351432-40353086:+|nuORF;ENSG00000173812|ENST00000469257|EIF1;ENSG00000114784|ENST00000232905|EIF1B;ENST00000487533.1_1_2:9411463-9411580:-|nuORF;ENST00000462917.1_1_17:39846204-39847075:+|nuORF;ENST00000310837.8_1_17:39845180-39847075:+|nuORF ENST00000488260.1_1_3:40351432-40353086:+|nuORF ENST00000488260.1_1_3:40351432-40353086:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.8023071289062 2 592.800946 1183.58734 3.2322 0.0019161 0.45228 0.00026811 3.6845 0.0021842 592.8011962258785 56.152 0.32742 56.929 56.781 57.108 0.77786 43 28 2 0 0 0 3.4213E-05 2 25626 25626;25675 111.29 63.538 1 2313100 9698 1922 6201 6218 11323;11324 11323 0.002888067808271444 HPEYGEVIQL 10 Unmodified _HPEYGEVIQL_ 0 0 0 ENST00000488260.1_1_3:40351432-40353086:+|nuORF;ENSG00000173812|ENST00000469257|EIF1;ENSG00000114784|ENST00000232905|EIF1B;ENST00000487533.1_1_2:9411463-9411580:-|nuORF;ENST00000462917.1_1_17:39846204-39847075:+|nuORF;ENST00000310837.8_1_17:39845180-39847075:+|nuORF ENST00000488260.1_1_3:40351432-40353086:+|nuORF ENST00000488260.1_1_3:40351432-40353086:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.8031005859375 2 592.800946 1183.58734 3.6059 0.0021376 -0.20034 -0.00011876 3.4055 0.0020188 592.8005573528137 56.945 0.35181 57.21 57.031 57.383 0.26444 29 14 3 0 0 0 3.4213E-05 1 26051 26051 111.29 67.429 1 1703000 9699 1922 6201 6218 11325 11325 0.002888067808271444 HPEYGEVIQL 10 Unmodified _HPEYGEVIQL_ 0 0 0 ENST00000488260.1_1_3:40351432-40353086:+|nuORF;ENSG00000173812|ENST00000469257|EIF1;ENSG00000114784|ENST00000232905|EIF1B;ENST00000487533.1_1_2:9411463-9411580:-|nuORF;ENST00000462917.1_1_17:39846204-39847075:+|nuORF;ENST00000310837.8_1_17:39845180-39847075:+|nuORF ENST00000488260.1_1_3:40351432-40353086:+|nuORF ENST00000488260.1_1_3:40351432-40353086:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.8028564453125 2 592.800946 1183.58734 3.8863 0.0023038 -0.061698 -3.6575E-05 3.8246 0.0022672 592.8007987830663 56.296 0.4625 56.964 56.73 57.192 0.66829 64 30 3 0 0 0 0.018878 2 25776 25776;25840 81.89 51.254 1 1658000 9700 1922 6201 6218 11326;11327 11326 0.002888067808271444 HPFATKHCS 9 Unmodified _HPFATKHCS_ 0 0 0 REV__ENST00000367463.4_1_6:149395342-149395558:+|nuORF REV__ENST00000367463.4_1_6:149395342-149395558:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.79296875 2 514.242544 1026.47053 NaN NaN NaN NaN NaN NaN NaN 40.47 1 40.47 39.97 40.97 0 0 0 0 0.87786 1 18368 18368 6.7232 0.36906 1 + 9701 15657 6202 6219 11328 11328 -0.04164209919940731 HPFEDGAKL 9 Unmodified _HPFEDGAKL_ 0 0 0 nc|ENSG00000178950|O14976-2|GAK;ENSG00000178950|ENST00000314167|GAK;ENST00000504435.1_1_4:882633-887812:-|nuORF nc|ENSG00000178950|O14976-2|GAK nc|ENSG00000178950|O14976-2|GAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.258056640625 2 507.256174 1012.49779 3.2655 0.0016564 -0.47188 -0.00023936 2.7936 0.0014171 507.25593129048656 27.154 0.25153 27.154 27.046 27.297 0 19 16 2 0 0 0 0.27958 1 12242 12242 18.146 9.5531 1 132910 9702 5186 6203 6220 11329 11329 -0.007954031079066226 HPFFKDMSL 9 Unmodified _HPFFKDMSL_ 0 0 0 ENSG00000097046|ENST00000234626|CDC7 ENSG00000097046|ENST00000234626|CDC7 ENSG00000097046|ENST00000234626|CDC7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.27783203125 2 561.276052 1120.53755 NaN NaN NaN NaN NaN NaN NaN 52.708 1 53.37 52.87 53.87 0.66198 0 0 0 0.13628 1 24099 24099 34.932 8.0484 1 9703 1133 6204 6221 11330 11330 -0.017895994288437578 HPFFLAQKCHT 11 Unmodified _HPFFLAQKCHT_ 0 0 0 nc|ENSG00000137814|Q9NVX0-3|HAUS2;ENSG00000137814|ENST00000260372|HAUS2 nc|ENSG00000137814|Q9NVX0-3|HAUS2 nc|ENSG00000137814|Q9NVX0-3|HAUS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 664.8367309570312 2 664.832057 1327.64956 3.7844 0.002516 1.7258 0.0011474 5.5102 0.0036634 664.8330747219125 26.549 0.15909 26.814 26.721 26.88 0.26489 17 11 2 0 0 0 0.61022 1 12059 12059 15.248 8.5253 1 247650 9704 3042 6205 6222 11331 11331 -0.0011574535185445711 HPFFLAQKCHT 11 Unmodified _HPFFLAQKCHT_ 0 0 0 nc|ENSG00000137814|Q9NVX0-3|HAUS2;ENSG00000137814|ENST00000260372|HAUS2 nc|ENSG00000137814|Q9NVX0-3|HAUS2 nc|ENSG00000137814|Q9NVX0-3|HAUS2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 664.832057 1327.64956 3.5951 0.0023901 2.4028 0.0015975 5.9979 0.0039876 664.8337074428355 25.881 0.12442 26.645 26.551 26.675 0.76356 -0.11032 8.5284E-05 NaN 15.248 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 189420 9705 3042 6205 6222 -0.0011574535185445711 HPFHILIAL 9 Unmodified _HPFHILIAL_ 0 0 0 nc|ENSG00000116747|P10155-3|RO60;nc|ENSG00000116747|P10155-5|RO60;nc|ENSG00000116747|P10155-4|RO60;ENSG00000116747|ENST00000400968|RO60 nc|ENSG00000116747|P10155-3|RO60 nc|ENSG00000116747|P10155-3|RO60 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.8206176757812 2 530.818744 1059.62294 NaN NaN NaN NaN NaN NaN NaN 69.558 1 70.218 69.718 70.718 0.66071 0 0 0 0.27093 1 31889 31889 28.173 7.302 1 9706 2046 6206 6223 11332 11332 0.09550933819127749 HPFHPKNEKP 10 Unmodified _HPFHPKNEKP_ 0 0 0 nc|ENSG00000133121|Q9Y3M8-3|STARD13;nc|ENSG00000133121|Q9Y3M8-4|STARD13;nc|ENSG00000133121|Q9Y3M8-2|STARD13;ENSG00000133121|ENST00000336934|STARD13;nc|ENSG00000133121|Q9Y3M8-5|STARD13 nc|ENSG00000133121|Q9Y3M8-3|STARD13 nc|ENSG00000133121|Q9Y3M8-3|STARD13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 615.8237915039062 2 615.822547 1229.63054 4.426 0.0027256 -1.7946 -0.0011051 2.6314 0.0016205 615.821446625484 103.02 0.13631 103.34 103.29 103.42 0.31863 10 4 3 0 0 0 0.90196 1 47654 47654 3.5965 1.2938 1 403130 9707 2752 6207 6224 11333 11333 0.024910413487532423 HPFHPKNEKP 10 Unmodified _HPFHPKNEKP_ 0 0 0 nc|ENSG00000133121|Q9Y3M8-3|STARD13;nc|ENSG00000133121|Q9Y3M8-4|STARD13;nc|ENSG00000133121|Q9Y3M8-2|STARD13;ENSG00000133121|ENST00000336934|STARD13;nc|ENSG00000133121|Q9Y3M8-5|STARD13 nc|ENSG00000133121|Q9Y3M8-3|STARD13 nc|ENSG00000133121|Q9Y3M8-3|STARD13 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 615.822547 1229.63054 3.7926 0.0023356 -1.4188 -0.00087372 2.3738 0.0014619 615.8217416773832 103 0.1874 103.6 103.5 103.69 0.59821 0.12883 0.00025823 NaN 3.5965 11 5 3 NaN NaN NaN NaN 0 NaN NaN 0 808440 9708 2752 6207 6224 0.024910413487532423 HPFKDLVQL 9 Unmodified _HPFKDLVQL_ 0 0 0 nc|ENSG00000113615|O95486-2|SEC24A;ENSG00000113615|ENST00000398844|SEC24A nc|ENSG00000113615|O95486-2|SEC24A nc|ENSG00000113615|O95486-2|SEC24A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.8124389648438 2 548.811116 1095.60768 2.7772 0.0015242 -0.58484 -0.00032097 2.1924 0.0012032 548.8109251139248 51.194 0.17753 52.012 51.938 52.115 0.81738 21 14 2 0 0 0 0.043585 1 23334 23334 49.933 8.0934 1 615560 9709 1863 6208 6225 11334 11334 0.06370022231271832 HPFLVKGGEDL 11 Unmodified _HPFLVKGGEDL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.3271484375 2 606.324588 1210.63462 3.4118 0.0020686 0.87301 0.00052933 4.2848 0.002598 606.3250947345947 38.763 0.34038 39.561 39.359 39.699 0.79762 21 15 2 0 0 0 0.70855 1 17594 17594 10.899 4.1758 1 191930 9710 6272 6209 6226 11335 11335 0.03773086051842256 HPFLVKGGEDL 11 Unmodified _HPFLVKGGEDL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 606.324588 1210.63462 3.6257 0.0021984 -0.43553 -0.00026407 3.1902 0.0019343 606.3237418229007 39.603 0.28825 39.87 39.702 39.99 0.26696 0.15456 -0.0010034 NaN 10.899 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 196990 9711 6272 6209 6226 0.03773086051842256 HPFPDHEL 8 Unmodified _HPFPDHEL_ 0 0 0 ENSG00000159842|ENST00000302538|ABR;nc|ENSG00000159842|Q12979-4|ABR;nc|ENSG00000159842|Q12979-2|ABR ENSG00000159842|ENST00000302538|ABR ENSG00000159842|ENST00000302538|ABR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.2370910644531 2 496.235242 990.45593 3.3375 0.0016562 0.15304 7.5944E-05 3.4905 0.0017321 496.2352891264681 28.538 0.68016 28.538 28.34 29.02 0 102 55 3 0 0 0 0.009759 1 12884 12884 101.72 48.146 1 664040 9712 4036 6210 6227 11336 11336 -0.03967958796442872 HPFPDHEL 8 Unmodified _HPFPDHEL_ 0 0 0 ENSG00000159842|ENST00000302538|ABR;nc|ENSG00000159842|Q12979-4|ABR;nc|ENSG00000159842|Q12979-2|ABR ENSG00000159842|ENST00000302538|ABR ENSG00000159842|ENST00000302538|ABR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.23785400390625 2 496.235242 990.45593 3.1483 0.0015623 0.33109 0.0001643 3.4794 0.0017266 496.2353797506026 28.592 0.47269 28.852 28.492 28.964 0.2602 59 32 2 0 0 0 0.013019 1 12999 12999 93.883 46.963 1 752580 9713 4036 6210 6227 11337 11337 -0.03967958796442872 HPFPDHEL 8 Unmodified _HPFPDHEL_ 0 0 0 ENSG00000159842|ENST00000302538|ABR;nc|ENSG00000159842|Q12979-4|ABR;nc|ENSG00000159842|Q12979-2|ABR ENSG00000159842|ENST00000302538|ABR ENSG00000159842|ENST00000302538|ABR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.237060546875 2 496.235242 990.45593 3.1488 0.0015625 0.28535 0.0001416 3.4341 0.0017041 496.2352964353895 28.106 0.74275 28.725 28.441 29.184 0.61947 92 49 3 0 0 0 0.025999 2 12878 12878;12926 81.864 38.599 1 409050 9714 4036 6210 6227 11338;11339 11338 -0.03967958796442872 HPFPDHEL 8 Unmodified _HPFPDHEL_ 0 0 0 ENSG00000159842|ENST00000302538|ABR;nc|ENSG00000159842|Q12979-4|ABR;nc|ENSG00000159842|Q12979-2|ABR ENSG00000159842|ENST00000302538|ABR ENSG00000159842|ENST00000302538|ABR MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 496.235242 990.45593 3.1782 0.0015772 0.35939 0.00017834 3.5376 0.0017555 496.23534665164766 27.595 0.65466 28.381 28.211 28.866 0.78627 -0.24273 7.6368E-05 NaN 101.72 105 61 2 NaN NaN NaN NaN 0 NaN NaN 0 377790 9715 4036 6210 6227 -0.03967958796442872 HPGAEVAL 8 Unmodified _HPGAEVAL_ 0 0 0 nc|ENSG00000174606|Q5VTE6-2|ANGEL2;ENSG00000174606|ENST00000366962|ANGEL2 nc|ENSG00000174606|Q5VTE6-2|ANGEL2 nc|ENSG00000174606|Q5VTE6-2|ANGEL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.2142333984375 2 397.213778 792.413003 2.9081 0.0011551 -0.20004 -7.9461E-05 2.7081 0.0010757 397.2135088639301 29.66 0.28633 30.278 30.117 30.403 0.61789 22 16 2 0 0 0 0.20016 1 13606 13606 42.968 2.5194 1 195250 9716 4990 6211 6228 11340 11340 0.00849271146148567 HPGAEVAL 8 Unmodified _HPGAEVAL_ 0 0 0 nc|ENSG00000174606|Q5VTE6-2|ANGEL2;ENSG00000174606|ENST00000366962|ANGEL2 nc|ENSG00000174606|Q5VTE6-2|ANGEL2 nc|ENSG00000174606|Q5VTE6-2|ANGEL2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 397.213778 792.413003 2.8286 0.0011236 -0.29571 -0.00011746 2.5329 0.0010061 397.2136968384617 30.309 0.19552 30.309 30.191 30.387 0 0.015393 -3.8637E-05 NaN 42.968 17 11 2 NaN NaN NaN NaN 0 NaN NaN 0 494010 9717 4990 6211 6228 0.00849271146148567 HPGEADSVL 9 Unmodified _HPGEADSVL_ 0 0 0 nc|ENSG00000064607|Q8IX01-4|SUGP2;nc|ENSG00000064607|Q8IX01-3|SUGP2;ENSG00000064607|ENST00000452918|SUGP2 nc|ENSG00000064607|Q8IX01-4|SUGP2 nc|ENSG00000064607|Q8IX01-4|SUGP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 462.7257995605469 2 462.724707 923.43486 2.9874 0.0013823 0.376 0.00017398 3.3634 0.0015563 462.72479520556436 27.781 0.20055 27.781 27.675 27.876 0 27 16 2 0 0 0 0.035095 1 12495 12495 53.576 23.351 1 504720 9718 673 6212 6229 11341 11341 -0.029919688959580526 HPGEADSVL 9 Unmodified _HPGEADSVL_ 0 0 0 nc|ENSG00000064607|Q8IX01-4|SUGP2;nc|ENSG00000064607|Q8IX01-3|SUGP2;ENSG00000064607|ENST00000452918|SUGP2 nc|ENSG00000064607|Q8IX01-4|SUGP2 nc|ENSG00000064607|Q8IX01-4|SUGP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 462.7261657714844 2 462.724707 923.43486 NaN NaN NaN NaN NaN NaN NaN 26.881 1 27.66 27.16 28.16 0.7787 0 0 0 0.085491 1 12078 12078 44.407 10.22 1 9719 673 6212 6229 11342 11342 -0.029919688959580526 HPGEADSVL 9 Unmodified _HPGEADSVL_ 0 0 0 nc|ENSG00000064607|Q8IX01-4|SUGP2;nc|ENSG00000064607|Q8IX01-3|SUGP2;ENSG00000064607|ENST00000452918|SUGP2 nc|ENSG00000064607|Q8IX01-4|SUGP2 nc|ENSG00000064607|Q8IX01-4|SUGP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.7261962890625 2 462.724707 923.43486 NaN NaN NaN NaN NaN NaN NaN 27.537 1 27.8 27.3 28.3 0.26245 0 0 0 0.085491 1 12521 12521 44.407 10.22 1 9720 673 6212 6229 11343 11343 -0.029919688959580526 HPGEADSVL 9 Unmodified _HPGEADSVL_ 0 0 0 nc|ENSG00000064607|Q8IX01-4|SUGP2;nc|ENSG00000064607|Q8IX01-3|SUGP2;ENSG00000064607|ENST00000452918|SUGP2 nc|ENSG00000064607|Q8IX01-4|SUGP2 nc|ENSG00000064607|Q8IX01-4|SUGP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 462.7265930175781 2 462.724707 923.43486 2.7363 0.0012662 0.75431 0.00034904 3.4906 0.0016152 462.7248858991737 27.128 0.2254 27.75 27.645 27.871 0.62178 23 13 2 0 0 0 0.035095 1 12442 12442 53.576 28.902 1 319450 9721 673 6212 6229 11344 11344 -0.029919688959580526 HPGGEEVL 8 Unmodified _HPGGEEVL_ 0 0 0 nc|ENSG00000166347|P00167-3|CYB5A;ENSG00000166347|ENST00000340533|CYB5A;chr18:74263477-74289221|138|32.54|1.0|5.03|-|0|CYB5A,None|2;CYB5B|p.D82Efs*7|1|0.16|ENSG00000103018|chr16:69447231-69447232|-/AA|frameshift_variant;CYB5B|p.A83Qfs*11|1|0.16|ENSG00000103018|chr16:69447234-69447235|GC/-|frameshift_variant;nc|ENSG00000166347|P00167-2|CYB5A;ENST00000583418.1_1_18:71928104-71959110:-|nuORF;ENST00000514123.5_1_16:69458586-69482095:+|nuORF;ENSG00000103018|ENST00000307892|CYB5B nc|ENSG00000166347|P00167-3|CYB5A nc|ENSG00000166347|P00167-3|CYB5A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 419.2085876464844 2 419.208692 836.402832 2.9057 0.0012181 -0.55836 -0.00023407 2.3473 0.00098403 419.20840264959855 24.182 0.1814 24.182 24.076 24.257 0 49 40 2 0 0 0 0.056828 2 10836 10836;10876 63.394 31.277 1 9706500 9722 4476 6213 6230 11345;11346 11345 -0.021913365790965145 HPGGEEVL 8 Unmodified _HPGGEEVL_ 0 0 0 nc|ENSG00000166347|P00167-3|CYB5A;ENSG00000166347|ENST00000340533|CYB5A;chr18:74263477-74289221|138|32.54|1.0|5.03|-|0|CYB5A,None|2;CYB5B|p.D82Efs*7|1|0.16|ENSG00000103018|chr16:69447231-69447232|-/AA|frameshift_variant;CYB5B|p.A83Qfs*11|1|0.16|ENSG00000103018|chr16:69447234-69447235|GC/-|frameshift_variant;nc|ENSG00000166347|P00167-2|CYB5A;ENST00000583418.1_1_18:71928104-71959110:-|nuORF;ENST00000514123.5_1_16:69458586-69482095:+|nuORF;ENSG00000103018|ENST00000307892|CYB5B nc|ENSG00000166347|P00167-3|CYB5A nc|ENSG00000166347|P00167-3|CYB5A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 419.20977783203125 2 419.208692 836.402832 NaN NaN NaN NaN NaN NaN NaN 23.907 1 24.178 23.678 24.678 0.27129 0 0 0 0.11969 1 10823 10823 63.394 29.206 1 9723 4476 6213 6230 11347 11347 -0.021913365790965145 HPGGEEVL 8 Unmodified _HPGGEEVL_ 0 0 0 nc|ENSG00000166347|P00167-3|CYB5A;ENSG00000166347|ENST00000340533|CYB5A;chr18:74263477-74289221|138|32.54|1.0|5.03|-|0|CYB5A,None|2;CYB5B|p.D82Efs*7|1|0.16|ENSG00000103018|chr16:69447231-69447232|-/AA|frameshift_variant;CYB5B|p.A83Qfs*11|1|0.16|ENSG00000103018|chr16:69447234-69447235|GC/-|frameshift_variant;nc|ENSG00000166347|P00167-2|CYB5A;ENST00000583418.1_1_18:71928104-71959110:-|nuORF;ENST00000514123.5_1_16:69458586-69482095:+|nuORF;ENSG00000103018|ENST00000307892|CYB5B nc|ENSG00000166347|P00167-3|CYB5A nc|ENSG00000166347|P00167-3|CYB5A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 419.2096862792969 2 419.208692 836.402832 NaN NaN NaN NaN NaN NaN NaN 23.389 1 24.023 23.523 24.523 0.63441 0 0 0 0.11969 1 10683 10683 63.394 31.277 1 9724 4476 6213 6230 11348 11348 -0.021913365790965145 HPGGEEVL 8 Unmodified _HPGGEEVL_ 0 0 0 nc|ENSG00000166347|P00167-3|CYB5A;ENSG00000166347|ENST00000340533|CYB5A;chr18:74263477-74289221|138|32.54|1.0|5.03|-|0|CYB5A,None|2;CYB5B|p.D82Efs*7|1|0.16|ENSG00000103018|chr16:69447231-69447232|-/AA|frameshift_variant;CYB5B|p.A83Qfs*11|1|0.16|ENSG00000103018|chr16:69447234-69447235|GC/-|frameshift_variant;nc|ENSG00000166347|P00167-2|CYB5A;ENST00000583418.1_1_18:71928104-71959110:-|nuORF;ENST00000514123.5_1_16:69458586-69482095:+|nuORF;ENSG00000103018|ENST00000307892|CYB5B nc|ENSG00000166347|P00167-3|CYB5A nc|ENSG00000166347|P00167-3|CYB5A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 419.2102355957031 2 419.208692 836.402832 NaN NaN NaN NaN NaN NaN NaN 23.476 1 24.11 23.61 24.61 0.63441 0 0 0 0.11969 1 10727 10727 63.394 31.277 1 9725 4476 6213 6230 11349 11349 -0.021913365790965145 HPHAALQRRRR 11 Unmodified _HPHAALQRRRR_ 0 0 0 REV__ENST00000264712.7_1_2:26204855-26205287:-|nuORF REV__ENST00000264712.7_1_2:26204855-26205287:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.60919189453125 3 466.608098 1396.80247 2.4325 0.001135 0.66958 0.00031243 3.1021 0.0014475 466.60820054930804 105.93 0.14185 105.93 105.85 105.99 0 13 5 3 0 0 0 0.91378 1 58191 58191 0.094841 0 1 1779700 + 9726 15023 6214 6231 11350 11350 0.11993630879601369 HPHAVNEIAL 10 Unmodified _HPHAVNEIAL_ 0 0 0 ENST00000492942.1_1_2:153435413-153463948:+|nuORF;nc|ENSG00000161791|Q8IVF7-2|FMNL3;ENSG00000161791|ENST00000335154|FMNL3;nc|ENSG00000161791|Q8IVF7|FMNL3;nc|ENSG00000157827|Q96PY5|FMNL2;ENSG00000157827|ENST00000288670|FMNL2 ENST00000492942.1_1_2:153435413-153463948:+|nuORF ENST00000492942.1_1_2:153435413-153463948:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.7977294921875 2 550.795998 1099.57744 NaN NaN NaN NaN NaN NaN NaN 33.59 1 33.59 33.09 34.09 0 0 0 0 0.062901 1 15228 15228 58.679 10.93 1 9727 3963 6215 6232 11351 11351 0.031636635660561296 HPHAVNEIAL 10 Unmodified _HPHAVNEIAL_ 0 0 0 ENST00000492942.1_1_2:153435413-153463948:+|nuORF;nc|ENSG00000161791|Q8IVF7-2|FMNL3;ENSG00000161791|ENST00000335154|FMNL3;nc|ENSG00000161791|Q8IVF7|FMNL3;nc|ENSG00000157827|Q96PY5|FMNL2;ENSG00000157827|ENST00000288670|FMNL2 ENST00000492942.1_1_2:153435413-153463948:+|nuORF ENST00000492942.1_1_2:153435413-153463948:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.7979125976562 2 550.795998 1099.57744 3.0358 0.0016721 0.27822 0.00015324 3.3141 0.0018254 550.7963183468657 32.553 0.35458 33.341 33.155 33.51 0.78795 48 27 3 0 0 0 0.11978 2 14693 14693;14741 49.933 15.531 1 873150 9728 3963 6215 6232 11352;11353 11352 0.031636635660561296 HPHAVNEIAL 10 Unmodified _HPHAVNEIAL_ 0 0 0 ENST00000492942.1_1_2:153435413-153463948:+|nuORF;nc|ENSG00000161791|Q8IVF7-2|FMNL3;ENSG00000161791|ENST00000335154|FMNL3;nc|ENSG00000161791|Q8IVF7|FMNL3;nc|ENSG00000157827|Q96PY5|FMNL2;ENSG00000157827|ENST00000288670|FMNL2 ENST00000492942.1_1_2:153435413-153463948:+|nuORF ENST00000492942.1_1_2:153435413-153463948:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.7984619140625 2 550.795998 1099.57744 3.6152 0.0019913 -1.2144 -0.00066889 2.4008 0.0013224 550.7960957051182 33.378 0.374 33.632 33.425 33.799 0.25389 68 17 5 0 0 0 0.065124 3 15189 15140;15189;15236 58.679 18.729 1 1561700 9729 3963 6215 6232 11354;11355;11356 11355 0.031636635660561296 HPHAVNEIAL 10 Unmodified _HPHAVNEIAL_ 0 0 0 ENST00000492942.1_1_2:153435413-153463948:+|nuORF;nc|ENSG00000161791|Q8IVF7-2|FMNL3;ENSG00000161791|ENST00000335154|FMNL3;nc|ENSG00000161791|Q8IVF7|FMNL3;nc|ENSG00000157827|Q96PY5|FMNL2;ENSG00000157827|ENST00000288670|FMNL2 ENST00000492942.1_1_2:153435413-153463948:+|nuORF ENST00000492942.1_1_2:153435413-153463948:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.798095703125 2 550.795998 1099.57744 3.4278 0.001888 -0.75869 -0.00041789 2.6691 0.0014701 550.7963459623749 32.835 0.35441 33.453 33.287 33.641 0.61831 46 14 4 0 0 0 0.065124 3 15071 15018;15071;15119 58.679 10.93 1 1153100 9730 3963 6215 6232 11357;11358;11359 11358 0.031636635660561296 HPHDLVILM 9 Unmodified _HPHDLVILM_ 0 0 0 nc|ENSG00000052841|Q96AE7-2|TTC17;ENSG00000052841|ENST00000039989|TTC17 nc|ENSG00000052841|Q96AE7-2|TTC17 nc|ENSG00000052841|Q96AE7-2|TTC17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.7926635742188 2 537.791869 1073.56919 NaN NaN NaN NaN NaN NaN NaN 55.642 1 55.642 55.142 56.142 0 0 0 0 0.049956 1 25584 25584 53.576 24.494 1 9731 595 6216 6233 11360 11360 0.03534393325094243 HPHDLVILM 9 Unmodified _HPHDLVILM_ 0 0 0 nc|ENSG00000052841|Q96AE7-2|TTC17;ENSG00000052841|ENST00000039989|TTC17 nc|ENSG00000052841|Q96AE7-2|TTC17 nc|ENSG00000052841|Q96AE7-2|TTC17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.7930908203125 2 537.791869 1073.56919 2.8667 0.0015417 0.12631 6.793E-05 2.993 0.0016096 537.7920859368888 55.46 0.27541 55.726 55.56 55.835 0.26543 30 12 3 0 0 0 0.018173 2 25325 25325;25376 70.716 38.262 1 1414700 9732 595 6216 6233 11361;11362 11361 0.03534393325094243 HPHDLVILM 9 Unmodified _HPHDLVILM_ 0 0 0 nc|ENSG00000052841|Q96AE7-2|TTC17;ENSG00000052841|ENST00000039989|TTC17 nc|ENSG00000052841|Q96AE7-2|TTC17 nc|ENSG00000052841|Q96AE7-2|TTC17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.7933349609375 2 537.791869 1073.56919 3.1978 0.0017198 0.30107 0.00016191 3.4989 0.0018817 537.7919744858447 54.622 0.28583 55.289 55.196 55.482 0.6665 36 23 2 0 0 0 0.010037 2 25003 25003;25051 81.864 45.737 1 2179700 9733 595 6216 6233 11363;11364 11363 0.03534393325094243 HPHDLVILM 9 Unmodified _HPHDLVILM_ 0 0 0 nc|ENSG00000052841|Q96AE7-2|TTC17;ENSG00000052841|ENST00000039989|TTC17 nc|ENSG00000052841|Q96AE7-2|TTC17 nc|ENSG00000052841|Q96AE7-2|TTC17 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 537.791869 1073.56919 2.7273 0.0014667 0.090804 4.8834E-05 2.8181 0.0015156 537.7917214431336 54.631 0.30166 55.427 55.237 55.538 0.79552 -0.053671 -0.00010692 NaN 81.864 35 19 2 NaN NaN NaN NaN 0 NaN NaN 0 1493900 9734 595 6216 6233 0.03534393325094243 HPHGLEFLF 9 Unmodified _HPHGLEFLF_ 0 0 0 nc|ENSG00000101782|O14730-2|RIOK3;ENSG00000101782|ENST00000339486|RIOK3 nc|ENSG00000101782|O14730-2|RIOK3 nc|ENSG00000101782|O14730-2|RIOK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.785400390625 2 548.782359 1095.55016 3.7475 0.0020566 -0.4933 -0.00027072 3.2542 0.0017859 548.7820178764732 66.789 0.20361 67.04 66.928 67.132 0.2501 15 10 2 0 0 0 0.11001 1 30594 30594 30.225 7.0764 1 280270 9735 1313 6217 6234 11365 11365 0.006211800256778588 HPHGLEFLF 9 Unmodified _HPHGLEFLF_ 0 0 0 nc|ENSG00000101782|O14730-2|RIOK3;ENSG00000101782|ENST00000339486|RIOK3 nc|ENSG00000101782|O14730-2|RIOK3 nc|ENSG00000101782|O14730-2|RIOK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.7847900390625 2 548.782359 1095.55016 3.6068 0.0019794 -0.14479 -7.9456E-05 3.462 0.0018999 548.7825860949223 66.177 0.26376 66.834 66.664 66.928 0.65672 22 16 2 0 0 0 0.050606 1 30325 30325 46.921 10.877 1 382980 9736 1313 6217 6234 11366 11366 0.006211800256778588 HPIDFETSL 9 Unmodified _HPIDFETSL_ 0 0 0 PSD3|p.Q887Yfs*33|1|0.05|ENSG00000156011|chr8:18572656-18572657|-/GGAAAAAGTA|frameshift_variant;ENSG00000156011|ENST00000327040|PSD3;nc|ENSG00000156011|Q9NYI0|PSD3;PSD3|p.S380Pfs*102|1|0.12|ENSG00000156011|chr8:18871726-18871726|A/-|frameshift_variant PSD3|p.Q887Yfs*33|1|0.05|ENSG00000156011|chr8:18572656-18572657|-/GGAAAAAGTA|frameshift_variant PSD3|p.Q887Yfs*33|1|0.05|ENSG00000156011|chr8:18572656-18572657|-/GGAAAAAGTA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.7634887695312 2 529.761289 1057.50803 2.8299 0.0014992 -0.44842 -0.00023755 2.3815 0.0012616 529.7611773296296 54.046 0.34286 54.842 54.675 55.018 0.79552 30 19 2 0 0 0 0.041436 1 24704 24704 50.855 20.218 1 267620 9737 3891 6218 6235 11367 11367 -0.01842840173321747 HPIETLVDIF 10 Unmodified _HPIETLVDIF_ 0 0 0 nc|ENSG00000112715|P15692-10|VEGFA;ENST00000476772.5_1_6:43738443-43746274:+|nuORF;ENSG00000112715|ENST00000672860|VEGFA;nc|ENSG00000112715|P15692-16|VEGFA;nc|ENSG00000112715|P15692-11|VEGFA;nc|ENSG00000112715|P15692-15|VEGFA;nc|ENSG00000112715|P15692-17|VEGFA;nc|ENSG00000112715|P15692-12|VEGFA;nc|ENSG00000112715|P15692-18|VEGFA;nc|ENSG00000112715|P15692-1|VEGFA;ENST00000518538.5_1_6:43738983-43746656:+|nuORF;nc|ENSG00000112715|P15692-2|VEGFA;nc|ENSG00000112715|P15692-3|VEGFA;nc|ENSG00000112715|P15692-8|VEGFA;nc|ENSG00000112715|P15692-4|VEGFA;nc|ENSG00000112715|P15692-5|VEGFA;nc|ENSG00000112715|P15692-6|VEGFA;nc|ENSG00000112715|P15692-9|VEGFA;nc|ENSG00000112715|P15692-14|VEGFA nc|ENSG00000112715|P15692-10|VEGFA nc|ENSG00000112715|P15692-10|VEGFA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.3236694335938 2 592.321514 1182.62847 3.5599 0.0021086 -0.11686 -6.9219E-05 3.443 0.0020394 592.3215794615779 82.848 0.29366 83.096 82.948 83.242 0.24722 32 14 3 0 0 0 0.0069609 1 38149 38149 92.822 60.036 1 2082400 9738 1818 6219 6236 11368 11368 0.04446567820264136 HPIETLVDIF 10 Unmodified _HPIETLVDIF_ 0 0 0 nc|ENSG00000112715|P15692-10|VEGFA;ENST00000476772.5_1_6:43738443-43746274:+|nuORF;ENSG00000112715|ENST00000672860|VEGFA;nc|ENSG00000112715|P15692-16|VEGFA;nc|ENSG00000112715|P15692-11|VEGFA;nc|ENSG00000112715|P15692-15|VEGFA;nc|ENSG00000112715|P15692-17|VEGFA;nc|ENSG00000112715|P15692-12|VEGFA;nc|ENSG00000112715|P15692-18|VEGFA;nc|ENSG00000112715|P15692-1|VEGFA;ENST00000518538.5_1_6:43738983-43746656:+|nuORF;nc|ENSG00000112715|P15692-2|VEGFA;nc|ENSG00000112715|P15692-3|VEGFA;nc|ENSG00000112715|P15692-8|VEGFA;nc|ENSG00000112715|P15692-4|VEGFA;nc|ENSG00000112715|P15692-5|VEGFA;nc|ENSG00000112715|P15692-6|VEGFA;nc|ENSG00000112715|P15692-9|VEGFA;nc|ENSG00000112715|P15692-14|VEGFA nc|ENSG00000112715|P15692-10|VEGFA nc|ENSG00000112715|P15692-10|VEGFA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.3234252929688 2 592.321514 1182.62847 3.935 0.0023308 -0.036675 -2.1723E-05 3.8983 0.002309 592.3213224682193 82.175 0.35437 82.835 82.707 83.061 0.65997 47 19 3 0 0 0 0.0069609 2 37846 37846;37899 92.822 72.369 1 1919900 9739 1818 6219 6236 11369;11370 11369 0.04446567820264136 HPIHADNCL 9 Carbamidomethyl (C) _HPIHADNC(Carbamidomethyl (C))L_ HPIHADNC(1)L HPIHADNC(160)L 0 1 0 nc|ENSG00000090530|Q8IVL5-2|P3H2;ENSG00000090530|ENST00000319332|P3H2 nc|ENSG00000090530|Q8IVL5-2|P3H2 nc|ENSG00000090530|Q8IVL5-2|P3H2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.752685546875 2 538.750733 1075.48691 3.1948 0.0017212 0.24061 0.00012963 3.4354 0.0018508 538.7508977654533 14.419 0.22697 14.419 14.314 14.541 0 35 14 3 0 0 0 6.8656E-09 1 6340 6340 158.2 105.93 1 1218100 9740 1060 6220 6237 11371 11371 22 -0.04781128753847952 HPIHADNCL 9 Carbamidomethyl (C) _HPIHADNC(Carbamidomethyl (C))L_ HPIHADNC(1)L HPIHADNC(89)L 0 1 0 nc|ENSG00000090530|Q8IVL5-2|P3H2;ENSG00000090530|ENST00000319332|P3H2 nc|ENSG00000090530|Q8IVL5-2|P3H2 nc|ENSG00000090530|Q8IVL5-2|P3H2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.7525024414062 2 538.750733 1075.48691 3.0438 0.0016399 0.40926 0.00022049 3.4531 0.0018604 538.7509201927746 14.11 0.26745 14.336 14.233 14.5 0.22622 51 23 3 0 0 0 0.0063783 2 6216 6170;6216 88.904 56.598 1 852250 9741 1060 6220 6237 11372;11373 11373 22 -0.04781128753847952 HPIHADNCL 9 Carbamidomethyl (C) _HPIHADNC(Carbamidomethyl (C))L_ HPIHADNC(1)L HPIHADNC(140)L 0 1 0 nc|ENSG00000090530|Q8IVL5-2|P3H2;ENSG00000090530|ENST00000319332|P3H2 nc|ENSG00000090530|Q8IVL5-2|P3H2 nc|ENSG00000090530|Q8IVL5-2|P3H2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.7515258789062 2 538.750733 1075.48691 NaN NaN NaN NaN NaN NaN NaN 14.082 1 14.389 13.889 14.889 0.3069 0 0 0 3.4176E-11 1 6369 6369 139.14 70.034 1 9742 1060 6220 6237 11374 11374 22 -0.04781128753847952 HPIHADNCL 9 Carbamidomethyl (C) _HPIHADNC(Carbamidomethyl (C))L_ HPIHADNC(1)L HPIHADNC(100)L 0 1 0 nc|ENSG00000090530|Q8IVL5-2|P3H2;ENSG00000090530|ENST00000319332|P3H2 nc|ENSG00000090530|Q8IVL5-2|P3H2 nc|ENSG00000090530|Q8IVL5-2|P3H2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.7529296875 2 538.750733 1075.48691 3.4129 0.0018387 0.043796 2.3595E-05 3.4567 0.0018623 538.7508626060079 13.669 0.34181 14.318 14.115 14.456 0.64819 54 25 3 0 0 0 0.0020408 2 6142 6142;6187 103.75 73.112 1 614830 9743 1060 6220 6237 11375;11376 11375 22 -0.04781128753847952 HPIHADNCLL 10 Carbamidomethyl (C) _HPIHADNC(Carbamidomethyl (C))LL_ HPIHADNC(1)LL HPIHADNC(63)LL 0 1 0 nc|ENSG00000090530|Q8IVL5-2|P3H2;ENSG00000090530|ENST00000319332|P3H2 nc|ENSG00000090530|Q8IVL5-2|P3H2 nc|ENSG00000090530|Q8IVL5-2|P3H2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 595.2937622070312 2 595.292765 1188.57098 3.9921 0.0023765 -0.41684 -0.00024814 3.5753 0.0021283 595.2925638493813 30.098 0.17803 30.356 30.259 30.437 0.25804 27 18 2 0 0 0 0.048946 1 13674 13674 62.573 36.305 1 805960 9744 1060 6221 6238 11377 11377 22 -0.01576597656935519 HPIHADNCLL 10 Carbamidomethyl (C) _HPIHADNC(Carbamidomethyl (C))LL_ HPIHADNC(1)LL HPIHADNC(54)LL 0 1 0 nc|ENSG00000090530|Q8IVL5-2|P3H2;ENSG00000090530|ENST00000319332|P3H2 nc|ENSG00000090530|Q8IVL5-2|P3H2 nc|ENSG00000090530|Q8IVL5-2|P3H2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 595.2940063476562 2 595.292765 1188.57098 3.9882 0.0023741 -0.76896 -0.00045776 3.2192 0.0019164 595.2922885073021 29.814 0.29581 30.432 30.211 30.507 0.61789 36 18 3 0 0 0 0.091802 1 13666 13666 53.833 31.097 1 702590 9745 1060 6221 6238 11378 11378 22 -0.01576597656935519 HPIKQVDVL 9 Unmodified _HPIKQVDVL_ 0 0 0 ENSG00000107960|ENST00000224950|STN1 ENSG00000107960|ENST00000224950|STN1 ENSG00000107960|ENST00000224950|STN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.812744140625 2 524.811116 1047.60768 3.3659 0.0017664 -0.095855 -5.0306E-05 3.27 0.0017161 524.8110936575807 30.924 0.30839 30.924 30.759 31.067 0 70 30 3 0 0 0 0.018453 2 13945 13945;13988 70.332 21.986 1 4282400 9746 1617 6222 6239 11379;11380 11379 0.08578022231290561 HPIKQVDVL 9 Unmodified _HPIKQVDVL_ 0 0 0 ENSG00000107960|ENST00000224950|STN1 ENSG00000107960|ENST00000224950|STN1 ENSG00000107960|ENST00000224950|STN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.8126220703125 2 524.811116 1047.60768 3.3957 0.0017821 -0.77513 -0.0004068 2.6206 0.0013753 524.8110678348255 29.953 0.35057 30.742 30.623 30.974 0.78921 85 33 3 0 0 0 0.0061394 2 13518 13518;13569 89.401 45.542 1 3111000 9747 1617 6222 6239 11381;11382 11381 0.08578022231290561 HPIKQVDVL 9 Unmodified _HPIKQVDVL_ 0 0 0 ENSG00000107960|ENST00000224950|STN1 ENSG00000107960|ENST00000224950|STN1 ENSG00000107960|ENST00000224950|STN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.8132934570312 2 524.811116 1047.60768 3.7233 0.001954 0.82376 0.00043232 4.5471 0.0023864 524.8115946751598 30.529 0.37006 30.785 30.604 30.974 0.25614 55 22 3 0 0 0 0.012326 3 13903 13854;13903;13947 78.728 34.87 1 1886700 9748 1617 6222 6239 11383;11384;11385 11384 0.08578022231290561 HPIKQVDVL 9 Unmodified _HPIKQVDVL_ 0 0 0 ENSG00000107960|ENST00000224950|STN1 ENSG00000107960|ENST00000224950|STN1 ENSG00000107960|ENST00000224950|STN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.8125610351562 2 524.811116 1047.60768 3.3351 0.0017503 0.29781 0.0001563 3.6329 0.0019066 524.8112912555943 30.194 0.25568 30.811 30.697 30.952 0.61737 32 12 3 0 0 0 0.014491 2 13875 13826;13875 75.761 39.634 1 1828800 9749 1617 6222 6239 11386;11387 11387 0.08578022231290561 HPIRVFTL 8 Unmodified _HPIRVFTL_ 0 0 0 ENSG00000145975|ENST00000274673|FAM217A ENSG00000145975|ENST00000274673|FAM217A ENSG00000145975|ENST00000274673|FAM217A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.79779052734375 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 51.115 1 51.774 51.274 52.274 0.65956 0 0 0 0.93399 1 23373 23373 10.074 1.4806 1 9750 3498 6223 6240 11388 11388 0.08446074267999393 HPIRVVNAL 9 Unmodified _HPIRVVNAL_ 0 0 0 ENST00000470043.1_1_10:103792731-103793132:-|nuORF;ENSG00000120029|ENST00000370033|ARMH3 ENST00000470043.1_1_10:103792731-103793132:-|nuORF ENST00000470043.1_1_10:103792731-103793132:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.18695068359375 2 509.811451 1017.60835 3.2598 0.0016619 0.23758 0.00012112 3.4974 0.001783 509.8114254914484 32.502 0.27166 33.12 32.961 33.232 0.61831 20 12 2 0 0 0 0.068676 1 14908 14908 21.747 10.106 1 230560 9751 2178 6224 6241 11389 11389 0.10024861670990504 HPIRVVNAL 9 Unmodified _HPIRVVNAL_ 0 0 0 ENST00000470043.1_1_10:103792731-103793132:-|nuORF;ENSG00000120029|ENST00000370033|ARMH3 ENST00000470043.1_1_10:103792731-103793132:-|nuORF ENST00000470043.1_1_10:103792731-103793132:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 509.811451 1017.60835 3.455 0.0017614 -0.25531 -0.00013016 3.1997 0.0016312 509.8113242500291 33.006 0.18343 33.26 33.174 33.357 0.25389 0.069808 -0.00034071 NaN 21.747 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 429450 9752 2178 6224 6241 0.10024861670990504 HPISSEELL 9 Unmodified _HPISSEELL_ 0 0 0 nc|ENSG00000134954|P14921-5|ETS1;nc|ENSG00000134954|P14921-2|ETS1;ETS1|p.G302Hfs*11|1|0.05|ENSG00000134954|chr11:128480277-128480278|CC/-|frameshift_variant;nc|ENSG00000134954|P14921|ETS1;ENSG00000134954|ENST00000392668|ETS1 nc|ENSG00000134954|P14921-5|ETS1 nc|ENSG00000134954|P14921-5|ETS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.2718505859375 2 512.769114 1023.52368 3.1374 0.0016088 -0.1897 -9.7274E-05 2.9477 0.0015115 512.768959469138 43.905 0.41057 43.905 43.67 44.08 0 69 32 3 0 0 0 0.010037 3 19958 19958;20008;20053 81.864 31.009 1 9780400 9753 2839 6225 6242 11390;11391;11392 11390 0.01285446343717922 HPISSEELL 9 Unmodified _HPISSEELL_ 0 0 0 nc|ENSG00000134954|P14921-5|ETS1;nc|ENSG00000134954|P14921-2|ETS1;ETS1|p.G302Hfs*11|1|0.05|ENSG00000134954|chr11:128480277-128480278|CC/-|frameshift_variant;nc|ENSG00000134954|P14921|ETS1;ENSG00000134954|ENST00000392668|ETS1 nc|ENSG00000134954|P14921-5|ETS1 nc|ENSG00000134954|P14921-5|ETS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.7704467773438 2 512.769114 1023.52368 3.1283 0.0016041 0.013119 6.7269E-06 3.1414 0.0016108 512.7689687960548 42.84 0.33039 43.655 43.529 43.859 0.81444 59 35 4 0 0 0 0.010037 2 19504 19445;19504 81.864 21.474 1 12682000 9754 2839 6225 6242 11393;11394 11394 0.01285446343717922 HPISSEELL 9 Unmodified _HPISSEELL_ 0 0 0 nc|ENSG00000134954|P14921-5|ETS1;nc|ENSG00000134954|P14921-2|ETS1;ETS1|p.G302Hfs*11|1|0.05|ENSG00000134954|chr11:128480277-128480278|CC/-|frameshift_variant;nc|ENSG00000134954|P14921|ETS1;ENSG00000134954|ENST00000392668|ETS1 nc|ENSG00000134954|P14921-5|ETS1 nc|ENSG00000134954|P14921-5|ETS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.7708129882812 2 512.769114 1023.52368 3.2672 0.0016753 0.24091 0.00012353 3.5082 0.0017989 512.7691103490127 43.723 0.52179 43.993 43.636 44.158 0.26939 71 30 4 0 0 0 0.010037 3 19866 19866;19929;19987 81.864 34.943 1 9379600 9755 2839 6225 6242 11395;11396;11397 11395 0.01285446343717922 HPISSEELL 9 Unmodified _HPISSEELL_ 0 0 0 nc|ENSG00000134954|P14921-5|ETS1;nc|ENSG00000134954|P14921-2|ETS1;ETS1|p.G302Hfs*11|1|0.05|ENSG00000134954|chr11:128480277-128480278|CC/-|frameshift_variant;nc|ENSG00000134954|P14921|ETS1;ENSG00000134954|ENST00000392668|ETS1 nc|ENSG00000134954|P14921-5|ETS1 nc|ENSG00000134954|P14921-5|ETS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.7706298828125 2 512.769114 1023.52368 3.5308 0.0018105 -0.10874 -5.5761E-05 3.4221 0.0017547 512.7689911445107 43.108 0.57713 43.757 43.514 44.091 0.64872 81 29 3 0 0 0 0.010037 5 19678 19678;19724;19771;19824;19885 81.864 41.415 1 9909200 9756 2839 6225 6242 11398;11399;11400;11401;11402 11398 0.01285446343717922 HPISSEELLSL 11 Unmodified _HPISSEELLSL_ 0 0 0 nc|ENSG00000134954|P14921-5|ETS1;nc|ENSG00000134954|P14921-2|ETS1;ETS1|p.G302Hfs*11|1|0.05|ENSG00000134954|chr11:128480277-128480278|CC/-|frameshift_variant;nc|ENSG00000134954|P14921|ETS1;ENSG00000134954|ENST00000392668|ETS1 nc|ENSG00000134954|P14921-5|ETS1 nc|ENSG00000134954|P14921-5|ETS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 612.8286743164062 2 612.82716 1223.63977 3.567 0.0021859 -0.27854 -0.0001707 3.2884 0.0020152 612.8269041274424 64.829 0.34408 65.077 64.937 65.281 0.24803 50 19 3 0 0 0 1.3021E-09 2 29666 29666;29714 118.89 43.966 1 2301700 9757 2839 6226 6243 11403;11404 11403 0.036893451237801855 HPISSEELLSL 11 Unmodified _HPISSEELLSL_ 0 0 0 nc|ENSG00000134954|P14921-5|ETS1;nc|ENSG00000134954|P14921-2|ETS1;ETS1|p.G302Hfs*11|1|0.05|ENSG00000134954|chr11:128480277-128480278|CC/-|frameshift_variant;nc|ENSG00000134954|P14921|ETS1;ENSG00000134954|ENST00000392668|ETS1 nc|ENSG00000134954|P14921-5|ETS1 nc|ENSG00000134954|P14921-5|ETS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 612.8286743164062 2 612.82716 1223.63977 3.6091 0.0022117 0.14234 8.7231E-05 3.7514 0.002299 612.8269949659109 64.227 0.27351 64.884 64.834 65.108 0.65672 43 21 3 0 0 0 0.0001075 2 29493 29442;29493 118.89 62.718 1 3422300 9758 2839 6226 6243 11405;11406 11406 0.036893451237801855 HPIVLIWIEKL 11 Unmodified _HPIVLIWIEKL_ 0 0 0 REV__nc|ENSG00000030066|Q12769-2|NUP160 REV__nc|ENSG00000030066|Q12769-2|NUP160 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.2856750488281 3 454.283224 1359.82784 3.6298 0.0016489 1.1425 0.00051901 4.7722 0.0021679 454.2837681699146 105.57 0.33856 105.89 105.65 105.99 0.31782 23 13 2 0 0 0 0.91378 1 48717 48717 0.094841 0.011491 1 937620 + 9759 17857 6227 6244 11407 11407 0.1623224783884325 HPIVLIWIEKL 11 Unmodified _HPIVLIWIEKL_ 0 0 0 REV__nc|ENSG00000030066|Q12769-2|NUP160 REV__nc|ENSG00000030066|Q12769-2|NUP160 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 454.6199951171875 3 454.283224 1359.82784 3.2131 0.0014596 1.3383 0.00060798 4.5514 0.0020676 454.2836365842573 105.49 0.27024 106.09 105.99 106.26 0.59969 28 11 3 0 0 0 0.91378 1 48708 48708 0.094841 0.011491 1 1949000 + 9760 17857 6227 6244 11408 11408 0.1623224783884325 HPKAKLVL 8 Unmodified _HPKAKLVL_ 0 0 0 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.3016052246094 2 453.300188 904.585822 2.6084 0.0011824 0.53922 0.00024443 3.1476 0.0014268 453.3004421893863 17.73 0.36537 18.032 17.839 18.205 0.30158 53 28 2 0 0 0 0.29255 3 8028 7985;8028;8069 36.044 21.463 1 287130 9761 1989 6228 6245 11409;11410;11411 11410 0.12971262273367756 HPKAKLVL 8 Unmodified _HPKAKLVL_ 0 0 0 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 302.19708251953125 3 302.535884 904.585822 2.0111 0.00060844 0.58076 0.0001757 2.5919 0.00078414 302.53603407287306 17.754 0.51583 18.055 17.755 18.271 0.30159 75 39 2 0 0 0 0.14225 1 8052 8052 3.9444 2.1002 1 1161500 9762 1989 6228 6245 11412 11412 0.12971262273367756 HPKAKLVL 8 Unmodified _HPKAKLVL_ 0 0 0 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 453.3015441894531 2 453.300188 904.585822 3.0273 0.0013723 0.55739 0.00025266 3.5847 0.001625 453.30032253307394 17.573 0.27969 18.233 18.053 18.333 0.66072 61 31 3 0 0 0 0.21011 2 7931 7889;7931 42.095 18.946 1 991590 9763 1989 6228 6245 11413;11414 11414 0.12971262273367756 HPKRLSDL 8 Unmodified _HPKRLSDL_ 0 0 0 nc|ENSG00000087460|P84996|GNAS nc|ENSG00000087460|P84996|GNAS nc|ENSG00000087460|P84996|GNAS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.8575744628906 3 322.522414 964.545414 2.136 0.00068892 -0.13725 -4.4265E-05 1.9988 0.00064465 322.5223694851372 17.256 0.47268 17.56 17.206 17.679 0.30438 56 35 2 0 0 0 0.74071 1 7846 7846 1.6526 0.69035 1 83168 9764 9570 6229 6246 11415 11415 0.06172295882936396 HPKRNNLH 8 Unmodified _HPKRNNLH_ 0 0 0 ENST00000358303.8_1_7:129680937-129691088:-|nuORF;ENST00000484432.1_1_7:129683626-129691088:-|nuORF ENST00000358303.8_1_7:129680937-129691088:-|nuORF ENST00000358303.8_1_7:129680937-129691088:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.28204345703125 2 508.280849 1014.54715 3.513 0.0017856 -1.0787 -0.00054826 2.4344 0.0012373 508.28017554743656 95.586 0.45586 96.194 95.997 96.453 0.60769 70 24 4 0 0 0 0.73686 1 43911 43911 2.8892 2.0956 1 2781800 9765 7190 6230 6247 11416 11416 0.040453496915461074 HPKYKTEL 8 Unmodified _HPKYKTEL_ 0 0 0 ENSG00000128016|ENST00000597629|ZFP36;ENSG00000152518|ENST00000282388|ZFP36L2;ENST00000555997.1_1_14:69256252-69257717:-|nuORF;ENSG00000185650|ENST00000439696|ZFP36L1 ENSG00000128016|ENST00000597629|ZFP36;ENST00000555997.1_1_14:69256252-69257717:-|nuORF ENST00000555997.1_1_14:69256252-69257717:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.191162109375 3 339.190553 1014.54983 2.5142 0.00085278 -0.035082 -1.1899E-05 2.4791 0.00084088 339.19051151474133 12.533 0.17843 12.533 12.467 12.646 0 45 14 5 0 0 0 0.38743 1 5447 5447 23.79 2.1996 1 128460000 9766 5521;2499 6231 6248 11417 11417 0.04313760305831238 HPKYKTEL 8 Unmodified _HPKYKTEL_ 0 0 0 ENSG00000128016|ENST00000597629|ZFP36;ENSG00000152518|ENST00000282388|ZFP36L2;ENST00000555997.1_1_14:69256252-69257717:-|nuORF;ENSG00000185650|ENST00000439696|ZFP36L1 ENSG00000128016|ENST00000597629|ZFP36;ENST00000555997.1_1_14:69256252-69257717:-|nuORF ENST00000555997.1_1_14:69256252-69257717:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.2835998535156 2 508.282192 1014.54983 3.265 0.0016596 -0.042629 -2.1668E-05 3.2224 0.0016379 508.2821722483736 12.535 0.14775 12.535 12.482 12.63 0 25 12 3 0 0 0 0.0082446 1 5452 5452 122.18 54.098 1 26598000 9767 5521;2499 6231 6248 11418 11418 0.04313760305831238 HPKYKTEL 8 Unmodified _HPKYKTEL_ 0 0 0 ENSG00000128016|ENST00000597629|ZFP36;ENSG00000152518|ENST00000282388|ZFP36L2;ENST00000555997.1_1_14:69256252-69257717:-|nuORF;ENSG00000185650|ENST00000439696|ZFP36L1 ENSG00000128016|ENST00000597629|ZFP36;ENST00000555997.1_1_14:69256252-69257717:-|nuORF ENST00000555997.1_1_14:69256252-69257717:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.28338623046875 2 508.282192 1014.54983 2.6081 0.0013256 0.0044825 2.2784E-06 2.6126 0.0013279 508.28195966198365 12.41 0.11008 12.671 12.627 12.737 0.26154 23 10 4 0 0 0 0.0019396 1 5360 5360 134.3 66.215 1 36304000 9768 5521;2499 6231 6248 11419 11419 0.04313760305831238 HPKYKTEL 8 Unmodified _HPKYKTEL_ 0 0 0 ENSG00000128016|ENST00000597629|ZFP36;ENSG00000152518|ENST00000282388|ZFP36L2;ENST00000555997.1_1_14:69256252-69257717:-|nuORF;ENSG00000185650|ENST00000439696|ZFP36L1 ENSG00000128016|ENST00000597629|ZFP36;ENST00000555997.1_1_14:69256252-69257717:-|nuORF ENST00000555997.1_1_14:69256252-69257717:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.2835693359375 2 508.282192 1014.54983 2.5019 0.0012717 -0.1942 -9.8711E-05 2.3077 0.0011729 508.2821185340911 12.407 0.089337 12.715 12.661 12.751 0.30727 15 6 3 0 0 0 0.01453 1 5589 5589 92.491 44.146 1 31060000 9769 5521;2499 6231 6248 11420 11420 0.04313760305831238 HPKYKTEL 8 Unmodified _HPKYKTEL_ 0 0 0 ENSG00000128016|ENST00000597629|ZFP36;ENSG00000152518|ENST00000282388|ZFP36L2;ENST00000555997.1_1_14:69256252-69257717:-|nuORF;ENSG00000185650|ENST00000439696|ZFP36L1 ENSG00000128016|ENST00000597629|ZFP36;ENST00000555997.1_1_14:69256252-69257717:-|nuORF ENST00000555997.1_1_14:69256252-69257717:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.1914978027344 3 339.190553 1014.54983 NaN NaN NaN NaN NaN NaN NaN 17.28 1 17.585 17.085 18.085 0.30438 0 0 0 0.99035 1 7826 7826 1.8442 0 1 9770 5521;2499 6231 6248 11421 11421 0.04313760305831238 HPKYKTEL 8 Unmodified _HPKYKTEL_ 0 0 0 ENSG00000128016|ENST00000597629|ZFP36;ENSG00000152518|ENST00000282388|ZFP36L2;ENST00000555997.1_1_14:69256252-69257717:-|nuORF;ENSG00000185650|ENST00000439696|ZFP36L1 ENSG00000128016|ENST00000597629|ZFP36;ENST00000555997.1_1_14:69256252-69257717:-|nuORF ENST00000555997.1_1_14:69256252-69257717:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.1914367675781 3 339.190553 1014.54983 2.7101 0.00091926 0.1687 5.722E-05 2.8788 0.00097648 339.19063774465275 12.383 0.10889 13.021 12.978 13.087 0.63746 16 6 3 0 0 0 0.36624 1 5542 5542 24.991 3.4008 1 180970000 9771 5521;2499 6231 6248 11422 11422 0.04313760305831238 HPKYKTEL 8 Unmodified _HPKYKTEL_ 0 0 0 ENSG00000128016|ENST00000597629|ZFP36;ENSG00000152518|ENST00000282388|ZFP36L2;ENST00000555997.1_1_14:69256252-69257717:-|nuORF;ENSG00000185650|ENST00000439696|ZFP36L1 ENSG00000128016|ENST00000597629|ZFP36;ENST00000555997.1_1_14:69256252-69257717:-|nuORF ENST00000555997.1_1_14:69256252-69257717:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.28375244140625 2 508.282192 1014.54983 3.6758 0.0018684 0.088271 4.4867E-05 3.7641 0.0019132 508.28217671149775 12.383 0.083646 13.021 12.978 13.062 0.63746 14 5 3 0 0 0 0.0082446 1 5544 5544 122.18 54.098 1 73560000 9772 5521;2499 6231 6248 11423 11423 0.04313760305831238 HPLCEGSSATL 11 Carbamidomethyl (C) _HPLC(Carbamidomethyl (C))EGSSATL_ HPLC(1)EGSSATL HPLC(56)EGSSATL 0 1 0 ENST00000492535.1_1_22:32875160-32883832:+|nuORF;nc|ENSG00000100225|Q9Y3I1-3|FBXO7;nc|ENSG00000100225|Q9Y3I1-2|FBXO7;ENSG00000100225|ENST00000266087|FBXO7 ENST00000492535.1_1_22:32875160-32883832:+|nuORF ENST00000492535.1_1_22:32875160-32883832:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 586.2763671875 2 586.274238 1170.53392 3.3501 0.0019641 1.1072 0.00064913 4.4573 0.0026132 586.275145085097 27.088 0.19114 27.867 27.802 27.993 0.7787 22 14 2 0 0 0 0.024966 1 12181 12181 56.177 27.095 1 246310 9773 1190 6232 6249 11424 11424 25 -0.044523139933517086 HPLCEGSSATL 11 Carbamidomethyl (C) _HPLC(Carbamidomethyl (C))EGSSATL_ HPLC(1)EGSSATL HPLC(48)EGSSATL 0 1 0 ENST00000492535.1_1_22:32875160-32883832:+|nuORF;nc|ENSG00000100225|Q9Y3I1-3|FBXO7;nc|ENSG00000100225|Q9Y3I1-2|FBXO7;ENSG00000100225|ENST00000266087|FBXO7 ENST00000492535.1_1_22:32875160-32883832:+|nuORF ENST00000492535.1_1_22:32875160-32883832:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.2763061523438 2 586.274238 1170.53392 NaN NaN NaN NaN NaN NaN NaN 27.782 1 28.045 27.545 28.545 0.26245 0 0 0 0.080959 1 12633 12633 47.749 9.7747 1 9774 1190 6232 6249 11425 11425 25 -0.044523139933517086 HPLEEKDLWSL 11 Unmodified _HPLEEKDLWSL_ 0 0 0 ENST00000502426.5_1_17:48736553-48755440:+|nuORF;nc|ENSG00000108846|O15438-2|ABCC3;ENSG00000108846|ENST00000285238|ABCC3;nc|ENSG00000108846|O15438-4|ABCC3;nc|ENSG00000108846|O15438-5|ABCC3 ENST00000502426.5_1_17:48736553-48755440:+|nuORF ENST00000502426.5_1_17:48736553-48755440:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.2398681640625 3 456.238232 1365.69287 2.8171 0.0012852 0.55969 0.00025535 3.3767 0.0015406 456.2383862323916 59.975 0.32315 60.234 60.063 60.386 0.2593 20 14 2 0 0 0 0.30328 1 27452 27452 24.957 15.193 1 389540 9775 1656 6233 6250 11426 11426 0.0246472290643851 HPLEEKDLWSL 11 Unmodified _HPLEEKDLWSL_ 0 0 0 ENST00000502426.5_1_17:48736553-48755440:+|nuORF;nc|ENSG00000108846|O15438-2|ABCC3;ENSG00000108846|ENST00000285238|ABCC3;nc|ENSG00000108846|O15438-4|ABCC3;nc|ENSG00000108846|O15438-5|ABCC3 ENST00000502426.5_1_17:48736553-48755440:+|nuORF ENST00000502426.5_1_17:48736553-48755440:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 683.8561401367188 2 683.853709 1365.69287 3.826 0.0026164 0.43102 0.00029475 4.257 0.0029112 683.8539771686126 59.926 0.29073 60.185 60.045 60.335 0.2593 18 12 2 0 0 0 0.1162 1 27460 27460 40.725 16.935 1 431020 9776 1656 6233 6250 11427 11427 0.0246472290643851 HPLEEKDLWSL 11 Unmodified _HPLEEKDLWSL_ 0 0 0 ENST00000502426.5_1_17:48736553-48755440:+|nuORF;nc|ENSG00000108846|O15438-2|ABCC3;ENSG00000108846|ENST00000285238|ABCC3;nc|ENSG00000108846|O15438-4|ABCC3;nc|ENSG00000108846|O15438-5|ABCC3 ENST00000502426.5_1_17:48736553-48755440:+|nuORF ENST00000502426.5_1_17:48736553-48755440:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 683.8549194335938 2 683.853709 1365.69287 3.9622 0.0027096 -0.42399 -0.00028994 3.5382 0.0024196 684.3549893429011 59.394 0.244 60.059 59.957 60.201 0.66503 17 10 2 0 0 0 0.0016054 1 27219 27219 74.772 41.327 1 759660 9777 1656 6233 6250 11428 11428 0.0246472290643851 HPLEEKDLWSL 11 Unmodified _HPLEEKDLWSL_ 0 0 0 ENST00000502426.5_1_17:48736553-48755440:+|nuORF;nc|ENSG00000108846|O15438-2|ABCC3;ENSG00000108846|ENST00000285238|ABCC3;nc|ENSG00000108846|O15438-4|ABCC3;nc|ENSG00000108846|O15438-5|ABCC3 ENST00000502426.5_1_17:48736553-48755440:+|nuORF ENST00000502426.5_1_17:48736553-48755440:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.24005126953125 3 456.238232 1365.69287 NaN NaN NaN NaN NaN NaN NaN 59.395 1 60.06 59.56 60.56 0.66503 0 0 0 0.96775 1 27191 27191 9.7643 3.1408 1 9778 1656 6233 6250 11429 11429 0.0246472290643851 HPLEGTHEL 9 Unmodified _HPLEGTHEL_ 0 0 0 ENSG00000122299|ENST00000355758|ZC3H7A;ZC3H7A|p.K783Nfs*23|1|0.37|ENSG00000122299|chr16:11758510-11758510|T/-|frameshift_variant;ENST00000571676.5_1_16:11858892-11864657:-|nuORF ENSG00000122299|ENST00000355758|ZC3H7A ENSG00000122299|ENST00000355758|ZC3H7A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.7615966796875 2 516.759081 1031.50361 3.3441 0.0017281 0.65596 0.00033897 4.0001 0.0020671 516.7594457363181 19.885 0.31904 19.885 19.766 20.085 0 42 25 2 0 0 0 0.0023685 2 8868 8868;8917 100.37 52.026 1 468700 9779 2264 6234 6251 11430;11431 11430 -0.010883045962373217 HPLEGTHEL 9 Unmodified _HPLEGTHEL_ 0 0 0 ENSG00000122299|ENST00000355758|ZC3H7A;ZC3H7A|p.K783Nfs*23|1|0.37|ENSG00000122299|chr16:11758510-11758510|T/-|frameshift_variant;ENST00000571676.5_1_16:11858892-11864657:-|nuORF ENSG00000122299|ENST00000355758|ZC3H7A ENSG00000122299|ENST00000355758|ZC3H7A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.7609252929688 2 516.759081 1031.50361 3.2671 0.0016883 0.48938 0.00025289 3.7565 0.0019412 516.7591665774152 19.421 0.2495 19.719 19.617 19.867 0.29753 33 23 2 0 0 0 0.010221 1 8815 8815 81.613 47.511 1 405560 9780 2264 6234 6251 11432 11432 -0.010883045962373217 HPLEGTHEL 9 Unmodified _HPLEGTHEL_ 0 0 0 ENSG00000122299|ENST00000355758|ZC3H7A;ZC3H7A|p.K783Nfs*23|1|0.37|ENSG00000122299|chr16:11758510-11758510|T/-|frameshift_variant;ENST00000571676.5_1_16:11858892-11864657:-|nuORF ENSG00000122299|ENST00000355758|ZC3H7A ENSG00000122299|ENST00000355758|ZC3H7A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.7611694335938 2 516.759081 1031.50361 3.54 0.0018293 0.48681 0.00025156 4.0268 0.0020809 516.7593393521256 19.026 0.16107 19.684 19.548 19.709 0.65829 21 11 2 0 0 0 0.0063783 1 8602 8602 88.904 54.801 1 506400 9781 2264 6234 6251 11433 11433 -0.010883045962373217 HPLEGTHEL 9 Unmodified _HPLEGTHEL_ 0 0 0 ENSG00000122299|ENST00000355758|ZC3H7A;ZC3H7A|p.K783Nfs*23|1|0.37|ENSG00000122299|chr16:11758510-11758510|T/-|frameshift_variant;ENST00000571676.5_1_16:11858892-11864657:-|nuORF ENSG00000122299|ENST00000355758|ZC3H7A ENSG00000122299|ENST00000355758|ZC3H7A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.7609252929688 2 516.759081 1031.50361 NaN NaN NaN NaN NaN NaN NaN 19.084 1 19.742 19.242 20.242 0.6583 0 0 0 0.067429 1 8657 8657 48.346 26.599 1 9782 2264 6234 6251 11434 11434 -0.010883045962373217 HPLFIFLPRNR 11 Unmodified _HPLFIFLPRNR_ 0 0 0 REV__ENST00000591893.1_1_17:73781840-73781957:-|nuORF REV__ENST00000591893.1_1_17:73781840-73781957:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.61273193359375 3 470.610334 1408.80917 3.7138 0.0017477 0.56354 0.00026521 4.2773 0.002013 470.61044191454096 105.78 0.18566 106.1 105.99 106.17 0.31782 17 7 3 0 0 0 0.91328 1 48834 48834 0.50596 0.051438 1 865430 + 9783 17588 6235 6252 11435 11435 0.12112130987634373 HPLFIFLPRNR 11 Unmodified _HPLFIFLPRNR_ 0 0 0 REV__ENST00000591893.1_1_17:73781840-73781957:-|nuORF REV__ENST00000591893.1_1_17:73781840-73781957:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.9463806152344 3 470.610334 1408.80917 3.1571 0.0014857 1.3032 0.00061328 4.4602 0.002099 470.9452636432384 105.75 0.14986 106.35 106.26 106.41 0.59969 13 4 4 0 0 0 0.91068 1 48863 48863 1.3296 1.1703 1 1032800 + 9784 17588 6235 6252 11436 11436 0.12112130987634373 HPLFIFLPRNR 11 Unmodified _HPLFIFLPRNR_ 0 0 0 REV__ENST00000591893.1_1_17:73781840-73781957:-|nuORF REV__ENST00000591893.1_1_17:73781840-73781957:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 470.610334 1408.80917 3.1571 0.0014857 1.3032 0.00061328 4.4602 0.002099 470.9452636432384 105.75 0.14986 106.35 106.26 106.41 0.59969 0.12507 0.00033667 NaN 1.3296 13 4 4 NaN NaN NaN NaN 0 NaN NaN 0 1032800 + 9785 17588 6235 6252 0.12112130987634373 HPLGDIVAF 9 Unmodified _HPLGDIVAF_ 0 0 0 ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.76446533203125 2 484.763635 967.512717 3.119 0.001512 0.14678 7.1155E-05 3.2658 0.0015831 484.76365328377585 64.971 0.36426 65.219 64.987 65.352 0.24803 31 18 2 0 0 0 0.035095 1 29758 29758 53.576 13.618 1 604070 9786 4706 6236 6253 11437 11437 0.027660887600973183 HPLGDIVAF 9 Unmodified _HPLGDIVAF_ 0 0 0 ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.76580810546875 2 484.763635 967.512717 3.2708 0.0015856 0.38072 0.00018456 3.6515 0.0017701 484.76373611977925 64.38 0.36127 65.037 64.883 65.244 0.65672 29 18 2 0 0 0 0.035095 2 29485 29485;29539 53.576 13.618 1 647160 9787 4706 6236 6253 11438;11439 11438 0.027660887600973183 HPLGPPCP 8 Unmodified _HPLGPPCP_ 0 0 0 REV__ENST00000343638.9_1_17:42283916-42284555:-|nuORF REV__ENST00000343638.9_1_17:42283916-42284555:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.20611572265625 2 409.204899 816.395244 2.8898 0.0011825 1.6242 0.00066462 4.514 0.0018472 409.20551457742823 82.966 0.21684 83.213 83.1 83.317 0.24722 15 11 2 0 0 0 0.73686 1 38206 38206 2.8892 0 1 392320 + 9788 15489 6237 6254 11440 11440 -0.02029767380361136 HPLGRWEVK 9 Unmodified _HPLGRWEVK_ 0 0 0 nc|ENSG00000153246|Q13018-2|PLA2R1;ENSG00000153246|ENST00000283243|PLA2R1 nc|ENSG00000153246|Q13018-2|PLA2R1 nc|ENSG00000153246|Q13018-2|PLA2R1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.61669921875 2 561.314358 1120.61416 NaN NaN NaN NaN NaN NaN NaN 81.677 1 81.677 81.177 82.177 0 0 0 0 0.89509 1 40716 40716 4.756 0.81161 1 9789 3781 6238 6255 11441 11441 0.058679601826497674 HPLHDFIL 8 Unmodified _HPLHDFIL_ 0 0 0 nc|ENSG00000088930|Q9H0D6-2|XRN2;ENSG00000088930|ENST00000377191|XRN2 nc|ENSG00000088930|Q9H0D6-2|XRN2 nc|ENSG00000088930|Q9H0D6-2|XRN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.2732238769531 2 496.271627 990.528701 3.1304 0.0015535 0.50473 0.00025048 3.6351 0.001804 496.2718915741095 51.523 0.52879 51.523 51.308 51.837 0 57 31 2 0 0 0 0.037283 1 23581 23581 70.865 30.416 1 803320 9790 1021 6239 6256 11442 11442 0.03305794997004341 HPLHDFIL 8 Unmodified _HPLHDFIL_ 0 0 0 nc|ENSG00000088930|Q9H0D6-2|XRN2;ENSG00000088930|ENST00000377191|XRN2 nc|ENSG00000088930|Q9H0D6-2|XRN2 nc|ENSG00000088930|Q9H0D6-2|XRN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.27288818359375 2 496.271627 990.528701 2.9377 0.0014579 0.32209 0.00015985 3.2598 0.0016178 496.2717205313706 50.575 0.54095 51.393 51.202 51.743 0.81738 48 27 2 0 0 0 0.037283 2 23033 23033;23091 70.865 30.416 1 1009900 9791 1021 6239 6256 11443;11444 11443 0.03305794997004341 HPLHDFIL 8 Unmodified _HPLHDFIL_ 0 0 0 nc|ENSG00000088930|Q9H0D6-2|XRN2;ENSG00000088930|ENST00000377191|XRN2 nc|ENSG00000088930|Q9H0D6-2|XRN2 nc|ENSG00000088930|Q9H0D6-2|XRN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.2734069824219 2 496.271627 990.528701 3.0737 0.0015254 0.81816 0.00040603 3.8919 0.0019314 496.2720398207454 51.41 0.46593 51.673 51.431 51.897 0.26227 31 22 2 0 0 0 0.037283 2 23454 23454;23509 70.865 42.378 1 1128900 9792 1021 6239 6256 11445;11446 11445 0.03305794997004341 HPLHDFIL 8 Unmodified _HPLHDFIL_ 0 0 0 nc|ENSG00000088930|Q9H0D6-2|XRN2;ENSG00000088930|ENST00000377191|XRN2 nc|ENSG00000088930|Q9H0D6-2|XRN2 nc|ENSG00000088930|Q9H0D6-2|XRN2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 496.271627 990.528701 3.0807 0.0015288 0.87924 0.00043634 3.9599 0.0019652 496.2719577178236 50.746 0.55749 51.406 51.083 51.64 0.65956 -0.092637 0.00022948 NaN 70.865 57 31 3 NaN NaN NaN NaN 0 NaN NaN 0 884560 9793 1021 6239 6256 0.03305794997004341 HPLHNDPNL 9 Unmodified _HPLHNDPNL_ 0 0 0 ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.7666015625 2 528.764697 1055.51484 3.1357 0.0016581 0.42792 0.00022627 3.5637 0.0018843 528.7648789833735 14.366 0.52637 14.366 14.241 14.767 0 123 47 4 0 0 0 1.0217E-09 4 6336 6291;6336;6411;6455 163.04 110.77 1 2840200 9794 524 6240 6257 11447;11448;11449;11450 11448 -0.010694825021118959 HPLHNDPNL 9 Unmodified _HPLHNDPNL_ 0 0 0 ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.8466796875 3 352.845557 1055.51484 2.5376 0.0008954 0.22335 7.8808E-05 2.761 0.0009742 352.84542371035826 14.394 0.49137 14.394 14.228 14.719 0 72 44 2 0 0 0 0.11001 3 6357 6310;6357;6415 21.537 9.2454 1 782090 9795 524 6240 6257 11451;11452;11453 11452 -0.010694825021118959 HPLHNDPNL 9 Unmodified _HPLHNDPNL_ 0 0 0 ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.766357421875 2 528.764697 1055.51484 3.1228 0.0016512 0.13328 7.0473E-05 3.256 0.0017217 528.7646871927811 14.204 0.41498 14.43 14.271 14.686 0.22622 102 36 4 0 0 0 4.0157E-30 3 6244 6196;6244;6294 193.29 138.52 1 3022600 9796 524 6240 6257 11454;11455;11456 11455 -0.010694825021118959 HPLHNDPNL 9 Unmodified _HPLHNDPNL_ 0 0 0 ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 352.84613037109375 3 352.845557 1055.51484 2.3334 0.00082334 0.061272 2.1619E-05 2.3947 0.00084496 352.8454898906518 14.196 0.33831 14.423 14.29 14.629 0.22622 69 28 3 0 0 0 0.11001 3 6197 6197;6245;6311 27.629 16.829 1 908330 9797 524 6240 6257 11457;11458;11459 11457 -0.010694825021118959 HPLHNDPNL 9 Unmodified _HPLHNDPNL_ 0 0 0 ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.7664794921875 2 528.764697 1055.51484 2.9675 0.0015691 -0.56606 -0.00029931 2.4014 0.0012698 528.764365596918 14.033 0.14494 14.341 14.297 14.442 0.30727 37 22 2 0 0 0 1.4684E-06 1 6341 6341 149.91 92.192 1 8337900 9798 524 6240 6257 11460 11460 -0.010694825021118959 HPLHNDPNL 9 Unmodified _HPLHNDPNL_ 0 0 0 ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.7660522460938 2 528.764697 1055.51484 3.3744 0.0017843 0.1854 9.8033E-05 3.5598 0.0018823 528.7646316136799 13.841 0.38962 14.489 14.21 14.599 0.64819 77 43 3 0 0 0 1.0217E-09 2 6206 6161;6206 163.04 114.69 1 3968300 9799 524 6240 6257 11461;11462 11462 -0.010694825021118959 HPLHNDPNL 9 Unmodified _HPLHNDPNL_ 0 0 0 ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.8460998535156 3 352.845557 1055.51484 2.5659 0.00090535 0.22912 8.0843E-05 2.795 0.0009862 352.8455763312778 13.815 0.21902 14.463 14.258 14.477 0.6482 30 17 2 0 0 0 0.20384 1 6172 6172 21.537 12.154 1 606280 9800 524 6240 6257 11463 11463 -0.010694825021118959 HPLIHSKL 8 Unmodified _HPLIHSKL_ 0 0 0 REV__ENSG00000142207|ENST00000382751|URB1 REV__ENSG00000142207|ENST00000382751|URB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 315.5283203125 3 315.527388 943.560336 2.0705 0.0006533 0.55364 0.00017469 2.6241 0.00082799 315.52754013869173 15.121 1.0565 15.121 14.63 15.687 0 287 122 3 0 0 0 0.39589 5 6648 6648;6690;6734;6776;6826 22.736 3.3743 1 397330 + 9801 12319 6241 6258 11464;11465;11466;11467;11468 11464 0.08629787750930973 HPLIHSKL 8 Unmodified _HPLIHSKL_ 0 0 0 REV__ENSG00000142207|ENST00000382751|URB1 REV__ENSG00000142207|ENST00000382751|URB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 315.5279846191406 3 315.527388 943.560336 2.2751 0.00071786 0.0091571 2.8893E-06 2.2843 0.00072075 315.52737407346297 14.663 0.30897 14.889 14.702 15.011 0.22622 56 21 4 0 0 0 0.39589 1 6480 6480 22.736 0 1 1454900 + 9802 12319 6241 6258 11469 11469 0.08629787750930973 HPLLPLKVI 9 Unmodified _HPLLPLKVI_ 0 0 0 REV__ENSG00000198356|ENST00000357332|GET3 REV__ENSG00000198356|ENST00000357332|GET3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.3477172851562 2 515.344595 1028.67464 NaN NaN NaN NaN NaN NaN NaN 92.024 1 92.277 91.777 92.777 0.25253 0 0 0 0.44891 1 42308 42308 20.871 10.688 1 + 9803 14334 6242 6259 11470 11470 0.16144677513034367 HPLPFPSL 8 Unmodified _HPLPFPSL_ 0 0 0 ENST00000396359.1_1_8:82193222-82195661:+|nuORF ENST00000396359.1_1_8:82193222-82195661:+|nuORF ENST00000396359.1_1_8:82193222-82195661:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.2568359375 2 454.255446 906.496338 NaN NaN NaN NaN NaN NaN NaN 60.424 1 60.679 60.179 61.179 0.25578 0 0 0 0.51272 1 27666 27666 28.173 8.7342 1 9804 7568 6243 6260 11471 11471 0.039350075939978524 HPLPLKLLLSW 11 Unmodified _HPLPLKLLLSW_ 0 0 0 REV__ENST00000429732.5_2_10:102758162-102762380:+|nuORF REV__ENST00000429732.5_2_10:102758162-102762380:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 439.6092529296875 3 439.607819 1315.80163 3.7112 0.0016315 0.41311 0.00018161 4.1243 0.0018131 439.6078244336274 104.65 0.2351 104.96 104.88 105.11 0.31863 60 48 2 0 0 0 0.91459 1 48297 48297 0.094841 0 1 699460 + 9805 15720 6244 6261 11472 11472 0.15635978667364725 HPLPVILC 8 Unmodified _HPLPVILC_ 0 0 0 ENST00000560958.1_1_15:83395576-83395759:-|nuORF ENST00000560958.1_1_15:83395576-83395759:-|nuORF ENST00000560958.1_1_15:83395576-83395759:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 446.2611083984375 2 446.259674 890.504795 NaN NaN NaN NaN NaN NaN NaN 62.559 1 62.559 62.059 63.059 0 0 0 0 0.99035 1 29325 29325 6.3541 0 1 9806 8977 6245 6262 11473 11473 0.05516238238976712 HPLPVILC 8 Unmodified _HPLPVILC_ 0 0 0 ENST00000560958.1_1_15:83395576-83395759:-|nuORF ENST00000560958.1_1_15:83395576-83395759:-|nuORF ENST00000560958.1_1_15:83395576-83395759:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 446.2601623535156 2 446.259674 890.504795 NaN NaN NaN NaN NaN NaN NaN 69.12 1 69.12 68.62 69.62 0 0 0 0 0.99035 1 33335 33335 2.8892 0 1 9807 8977 6245 6262 11474 11474 0.05516238238976712 HPLPVILC 8 Unmodified _HPLPVILC_ 0 0 0 ENST00000560958.1_1_15:83395576-83395759:-|nuORF ENST00000560958.1_1_15:83395576-83395759:-|nuORF ENST00000560958.1_1_15:83395576-83395759:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 446.2767028808594 2 446.259674 890.504795 NaN NaN NaN NaN NaN NaN NaN 70.56 1 70.56 70.06 71.06 0 0 0 0 0.99035 1 34259 34259 2.8892 0 1 9808 8977 6245 6262 11475 11475 0.05516238238976712 HPLQRFFARR 10 Unmodified _HPLQRFFARR_ 0 0 0 nc|ENSG00000218109|Q8N7Y1|KIRREL3-AS3;ENST00000404882.3_1_11:126873339-126874064:+|nuORF nc|ENSG00000218109|Q8N7Y1|KIRREL3-AS3 nc|ENSG00000218109|Q8N7Y1|KIRREL3-AS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 664.3771362304688 2 664.378355 1326.74216 NaN NaN NaN NaN NaN NaN NaN 78.485 1 78.95 78.45 79.45 0.4642 0 0 0 0.99733 1 38165 38165 3.9444 0.94915 1 9809 7632 6246 6263 11476 11476 0.09185520496544086 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.2771606445312 2 560.275095 1118.53564 3.538 0.0019822 -0.22067 -0.00012364 3.3173 0.0018586 560.2749649621439 19.504 0.6015 19.504 19.381 19.982 0 203 62 5 0 0 0 1.186E-38 6 8793 8656;8705;8750;8793;8841;8911 197.17 0 1 104690000 9810 6014 6247 6264 11477;11478;11479;11480;11481;11482 11480 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 373.8529052734375 3 373.852489 1118.53564 2.8988 0.0010837 -0.22311 -8.3411E-05 2.6757 0.0010003 373.8523460327662 19.505 0.34228 19.505 19.412 19.755 0 104 41 3 0 0 0 0.085053 2 8666 8666;8712 38.615 0 1 15250000 9811 6014 6247 6264 11483;11484 11483 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 373.8533935546875 3 373.852489 1118.53564 2.9149 0.0010897 -0.0057646 -2.1551E-06 2.9091 0.0010876 373.8524110917482 21.919 0.58594 21.919 21.713 22.299 0 105 47 3 0 0 0 0.51828 1 9814 9814 17.443 0 1 420410 9812 6014 6247 6264 11485 11485 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.27880859375 2 560.275095 1118.53564 NaN NaN NaN NaN NaN NaN NaN 20.202 1 20.202 19.702 20.702 0 0 0 0 0.9754 1 9029 9029 9.3831 0 1 9813 6014 6247 6264 11486 11486 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.2781982421875 2 560.275095 1118.53564 NaN NaN NaN NaN NaN NaN NaN 21.717 1 21.717 21.217 22.217 0 0 0 0 0.062901 1 9729 9729 58.679 0 1 9814 6014 6247 6264 11487 11487 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.2771606445312 2 560.275095 1118.53564 NaN NaN NaN NaN NaN NaN NaN 21.802 1 21.802 21.302 22.302 0 0 0 0 3.8103E-25 1 9767 9767 164.52 0 1 9815 6014 6247 6264 11488 11488 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.2775268554688 2 560.275095 1118.53564 NaN NaN NaN NaN NaN NaN NaN 22.154 1 22.154 21.654 22.654 0 0 0 0 0.10791 1 9928 9928 81.89 0 1 9816 6014 6247 6264 11489 11489 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.2767944335938 2 560.275095 1118.53564 NaN NaN NaN NaN NaN NaN NaN 22.264 1 22.264 21.764 22.764 0 0 0 0 0.79388 1 9979 9979 22.736 0 1 9817 6014 6247 6264 11490 11490 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.27734375 2 560.275095 1118.53564 3.0827 0.0017272 -0.27237 -0.0001526 2.8103 0.0015746 560.2748986395371 18.801 0.20023 19.016 18.905 19.106 0.21445 87 40 3 0 0 0 6.2518E-29 2 8349 8349;8391 188.58 0 1 130850000 9818 6014 6247 6264 11491;11492 11491 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 373.8527526855469 3 373.852489 1118.53564 NaN NaN NaN NaN NaN NaN NaN 18.785 1 19 18.5 19.5 0.21445 0 0 0 0.10205 1 8375 8375 38.615 0 1 9819 6014 6247 6264 11493 11493 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.2774047851562 2 560.275095 1118.53564 NaN NaN NaN NaN NaN NaN NaN 20.773 1 21.178 20.678 21.678 0.40533 0 0 0 4.3105E-05 1 9224 9224 115.69 0 1 9820 6014 6247 6264 11494 11494 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.2767333984375 2 560.275095 1118.53564 3.3859 0.001897 -0.30295 -0.00016973 3.0829 0.0017273 560.2749188685641 18.971 0.5778 19.269 19.139 19.717 0.29753 274 75 5 0 0 0 2.5733E-64 6 8610 8567;8610;8652;8698;8741;8789 222.91 0 1 117830000 9821 6014 6247 6264 11495;11496;11497;11498;11499;11500 11496 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.853515625 3 373.852489 1118.53564 2.5538 0.00095475 -0.16886 -6.3127E-05 2.385 0.00089162 373.8524091477262 18.989 0.4535 19.287 19.152 19.605 0.29753 159 63 3 0 0 0 0.085053 4 8619 8574;8619;8663;8706 38.615 0 1 23885000 9822 6014 6247 6264 11501;11502;11503;11504 11502 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.2772827148438 2 560.275095 1118.53564 NaN NaN NaN NaN NaN NaN NaN 19.454 1 19.751 19.251 20.251 0.29753 0 0 0 0.35397 1 8848 8848 34.402 0 1 9823 6014 6247 6264 11505 11505 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.27685546875 2 560.275095 1118.53564 NaN NaN NaN NaN NaN NaN NaN 19.543 1 19.836 19.336 20.336 0.29239 0 0 0 0.79388 1 8892 8892 22.736 0 1 9824 6014 6247 6264 11506 11506 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.2772216796875 2 560.275095 1118.53564 NaN NaN NaN NaN NaN NaN NaN 20.725 1 21.011 20.511 21.511 0.28662 0 0 0 2.14E-35 1 9405 9405 172.91 0 1 9825 6014 6247 6264 11507 11507 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.276611328125 2 560.275095 1118.53564 NaN NaN NaN NaN NaN NaN NaN 20.824 1 21.111 20.611 21.611 0.28662 0 0 0 8.7318E-37 1 9448 9448 181.33 0 1 9826 6014 6247 6264 11508 11508 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.27685546875 2 560.275095 1118.53564 NaN NaN NaN NaN NaN NaN NaN 20.921 1 21.207 20.707 21.707 0.28662 0 0 0 2.3162E-16 1 9490 9490 149.99 0 1 9827 6014 6247 6264 11509 11509 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.778076171875 2 560.275095 1118.53564 3.6457 0.0020426 -0.15962 -8.9433E-05 3.486 0.0019531 560.2749971893584 13.57 0.32846 14.218 14.018 14.346 0.6482 35 22 2 0 0 0 0.76575 2 6032 6032;6086 10.074 0 1 186500 9828 6014 6247 6264 11510;11511 11510 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.277099609375 2 560.275095 1118.53564 3.6239 0.0020304 -0.3764 -0.00021089 3.2475 0.0018195 560.2749283581884 18.538 0.65492 19.199 19.056 19.711 0.66072 249 68 5 0 0 0 1.9635E-50 7 8436 8344;8388;8436;8486;8537;8580;8630 205.78 0 1 146840000 9829 6014 6247 6264 11512;11513;11514;11515;11516;11517;11518 11514 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 373.8534851074219 3 373.852489 1118.53564 2.7479 0.0010273 -0.21339 -7.9778E-05 2.5345 0.00094753 373.852383913548 18.532 0.41957 19.193 19.098 19.518 0.66072 144 45 4 0 0 0 0.085053 4 8399 8353;8399;8445;8491 38.615 0 1 20550000 9830 6014 6247 6264 11519;11520;11521;11522 11520 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.277587890625 2 560.275095 1118.53564 3.7051 0.0020759 -0.6084 -0.00034087 3.0967 0.001735 560.2747390420908 19.526 0.62254 20.185 20.009 20.632 0.6583 64 47 2 0 0 0 0.68517 2 8860 8860;8908 13.906 0 1 213370 9831 6014 6247 6264 11523;11524 11523 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.277099609375 2 560.275095 1118.53564 3.6559 0.0020483 0.14682 8.226E-05 3.8027 0.0021305 560.2752073033483 20.978 0.49643 21.631 21.173 21.669 0.65346 135 41 4 0 0 0 6.2518E-29 5 9395 9347;9395;9441;9484;9528 188.58 0 1 3585300 9832 6014 6247 6264 11525;11526;11527;11528;11529 11526 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 373.8533935546875 3 373.852489 1118.53564 2.7801 0.0010393 0.19198 7.1774E-05 2.9721 0.0011111 373.85246339234664 20.79 0.39697 21.443 21.241 21.638 0.65346 82 30 3 0 0 0 0.25925 2 9459 9426;9459 22.658 0 1 502420 9833 6014 6247 6264 11530;11531 11531 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.27587890625 2 560.275095 1118.53564 NaN NaN NaN NaN NaN NaN NaN 19.17 1 19.828 19.328 20.328 0.6583 0 0 0 0.39115 1 8698 8698 32.786 0 1 9834 6014 6247 6264 11532 11532 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 560.275095 1118.53564 3.4044 0.0019074 0.29928 0.00016768 3.7037 0.0020751 560.2747176086577 19.715 0.046278 20.007 19.987 20.033 0.29239 -0.088795 0.00096477 NaN 13.906 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 109700 9835 6014 6247 6264 -0.01888936913087491 HPLSDHEATL 10 Unmodified _HPLSDHEATL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 373.852489 1118.53564 2.5572 0.00095602 0.34078 0.0001274 2.898 0.0010834 373.85300193267045 19.339 0.062574 19.637 19.605 19.668 0.29753 0.065868 0.00058513 NaN 38.615 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 187630 9836 6014 6247 6264 -0.01888936913087491 HPLTDEHIF 9 Unmodified _HPLTDEHIF_ 0 0 0 nc|ENSG00000170921|Q9HCD6-3|TANC2;nc|ENSG00000170921|Q9HCD6-4|TANC2;nc|ENSG00000170921|Q9HCD6|TANC2;nc|ENSG00000170921|Q9HCD6-2|TANC2;ENSG00000170921|ENST00000689528|TANC2;ENST00000583545.1_1_17:61432467-61466989:+|nuORF nc|ENSG00000170921|Q9HCD6-3|TANC2 nc|ENSG00000170921|Q9HCD6-3|TANC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.280517578125 2 554.774731 1107.53491 3.8 0.0021081 2.4673 0.0013688 6.2673 0.0034769 554.7742849582414 41.757 0.25586 42.027 41.818 42.074 0.27021 14 9 2 0 0 0 0.071101 1 19022 19022 39.957 18.211 1 492030 9837 4775 6248 6265 11533 11533 -0.014557315621459566 HPLTSHTSG 9 Unmodified _HPLTSHTSG_ 0 0 0 REV__ENST00000564785.5_1_15:75650962-75651301:-|nuORF REV__ENST00000564785.5_1_15:75650962-75651301:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.73193359375 2 468.730323 935.446094 2.6226 0.0012293 0.55331 0.00025935 3.1759 0.0014887 468.7305329787057 17.274 0.76533 17.578 17.114 17.879 0.30438 118 58 3 0 0 0 0.76984 2 7718 7718;7867 7.9102 0 1 253940 + 9838 17405 6249 6266 11534;11535 11534 -0.024211468017938387 HPMAHHHRP 9 Unmodified _HPMAHHHRP_ 0 0 0 REV__nc|ENSG00000224287|P0C860|MSL3B REV__nc|ENSG00000224287|P0C860|MSL3B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.2757568359375 2 560.272501 1118.53045 NaN NaN NaN NaN NaN NaN NaN 20.084 1 20.084 19.584 20.584 0 0 0 0 0.90611 1 8973 8973 2.0598 0.21551 1 + 9839 18137 6250 6267 11536 11536 -0.024074744660538272 HPMPRVNEI 9 Unmodified _HPMPRVNEI_ 0 0 0 ENSG00000084774|ENST00000264705|CAD ENSG00000084774|ENST00000264705|CAD ENSG00000084774|ENST00000264705|CAD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.7866821289062 2 546.784576 1091.5546 3.4598 0.0018918 -0.37483 -0.00020495 3.085 0.0016868 546.7844533452062 27.612 0.2247 27.875 27.827 28.052 0.26245 18 13 2 0 0 0 0.68285 1 12564 12564 9.3831 2.66 1 212570 9840 963 6251 6268 11537 11537 0.012483211769676927 HPMPRVNEI 9 Unmodified _HPMPRVNEI_ 0 0 0 ENSG00000084774|ENST00000264705|CAD ENSG00000084774|ENST00000264705|CAD ENSG00000084774|ENST00000264705|CAD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.7864379882812 2 546.784576 1091.5546 3.4338 0.0018775 -1.6088 -0.00087964 1.825 0.0009979 546.7840207740144 27.256 0.29307 27.878 27.726 28.019 0.62179 26 17 3 0 0 0 0.68285 1 12493 12493 9.3831 0.63772 1 272800 9841 963 6251 6268 11538 11538 0.012483211769676927 HPNDDDVHF 9 Unmodified _HPNDDDVHF_ 0 0 0 ENSG00000114127|ENST00000392981|XRN1;nc|ENSG00000114127|Q8IZH2|XRN1;nc|ENSG00000114127|Q8IZH2-3|XRN1;XRN1|p.Y149Ffs*3|1|0.24|ENSG00000114127|chr3:142425499-142425499|T/-|frameshift_variant ENSG00000114127|ENST00000392981|XRN1 ENSG00000114127|ENST00000392981|XRN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.22900390625 2 548.228145 1094.44174 3.5009 0.0019193 0.21737 0.00011917 3.7183 0.0020385 548.228114375393 23.025 0.25818 23.666 23.52 23.778 0.64051 59 38 2 0 0 0 0.0079462 2 10508 10465;10508 85.642 69.794 1 1334200 9842 1891 6252 6269 11539;11540 11540 -0.10170656015384338 HPNWPNHTL 9 Unmodified _HPNWPNHTL_ 0 0 0 ENSG00000154451|ENST00000370459|GBP5;nc|ENSG00000154451|Q96PP8-2|GBP5 ENSG00000154451|ENST00000370459|GBP5 ENSG00000154451|ENST00000370459|GBP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.2747192382812 2 558.27269 1114.53083 NaN NaN NaN NaN NaN NaN NaN 30.186 1 30.444 29.944 30.944 0.25804 0 0 0 0.028243 1 13739 13739 60.074 40.817 1 9843 3824 6253 6270 11541 11541 -0.02185776265196182 HPNWPNHTL 9 Unmodified _HPNWPNHTL_ 0 0 0 ENSG00000154451|ENST00000370459|GBP5;nc|ENSG00000154451|Q96PP8-2|GBP5 ENSG00000154451|ENST00000370459|GBP5 ENSG00000154451|ENST00000370459|GBP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.276123046875 2 558.27269 1114.53083 NaN NaN NaN NaN NaN NaN NaN 30.318 1 30.576 30.076 31.076 0.25804 0 0 0 0.65681 1 13798 13798 13.906 1.3745 1 9844 3824 6253 6270 11542 11542 -0.02185776265196182 HPNYLGDLIM 10 Unmodified _HPNYLGDLIM_ 0 0 0 ENST00000441022.1_1_1:225591007-225592250:-|nuORF;nc|ENSG00000149809|O76062-2|TM7SF2;ENST00000529601.5_1_11:64879444-64883522:+|nuORF;ENSG00000149809|ENST00000279263|TM7SF2;ENST00000530650.5_1_11:64879967-64883522:+|nuORF;ENSG00000143815|ENST00000272163|LBR ENST00000441022.1_1_1:225591007-225592250:-|nuORF ENST00000441022.1_1_1:225591007-225592250:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.8316650390625 2 586.792066 1171.56958 2.8908 0.0016963 -0.59304 -0.00034799 2.2977 0.0013483 586.7914323894827 70.989 0.085724 70.989 70.974 71.06 0 14 10 2 0 0 0 0.42206 1 34514 34514 24.021 5.8856 1 1069900 9845 3395 6254 6271 11543 11543 -0.009342317456912497 HPNYLGDLIM 10 Unmodified _HPNYLGDLIM_ 0 0 0 ENST00000441022.1_1_1:225591007-225592250:-|nuORF;nc|ENSG00000149809|O76062-2|TM7SF2;ENST00000529601.5_1_11:64879444-64883522:+|nuORF;ENSG00000149809|ENST00000279263|TM7SF2;ENST00000530650.5_1_11:64879967-64883522:+|nuORF;ENSG00000143815|ENST00000272163|LBR ENST00000441022.1_1_1:225591007-225592250:-|nuORF ENST00000441022.1_1_1:225591007-225592250:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.7926025390625 2 586.792066 1171.56958 NaN NaN NaN NaN NaN NaN NaN 70.972 1 71.23 70.73 71.73 0.25786 0 0 0 0.59781 1 32505 32505 27.629 2.2295 1 9846 3395 6254 6271 11544 11544 -0.009342317456912497 HPNYLGDLIM 10 Unmodified _HPNYLGDLIM_ 0 0 0 ENST00000441022.1_1_1:225591007-225592250:-|nuORF;nc|ENSG00000149809|O76062-2|TM7SF2;ENST00000529601.5_1_11:64879444-64883522:+|nuORF;ENSG00000149809|ENST00000279263|TM7SF2;ENST00000530650.5_1_11:64879967-64883522:+|nuORF;ENSG00000143815|ENST00000272163|LBR ENST00000441022.1_1_1:225591007-225592250:-|nuORF ENST00000441022.1_1_1:225591007-225592250:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.7943115234375 2 586.792066 1171.56958 NaN NaN NaN NaN NaN NaN NaN 71.035 1 71.293 70.793 71.793 0.25786 0 0 0 0.39115 1 32536 32536 32.786 2.1491 1 9847 3395 6254 6271 11545 11545 -0.009342317456912497 HPNYLGDLIM 10 Unmodified _HPNYLGDLIM_ 0 0 0 ENST00000441022.1_1_1:225591007-225592250:-|nuORF;nc|ENSG00000149809|O76062-2|TM7SF2;ENST00000529601.5_1_11:64879444-64883522:+|nuORF;ENSG00000149809|ENST00000279263|TM7SF2;ENST00000530650.5_1_11:64879967-64883522:+|nuORF;ENSG00000143815|ENST00000272163|LBR ENST00000441022.1_1_1:225591007-225592250:-|nuORF ENST00000441022.1_1_1:225591007-225592250:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.79443359375 2 586.792066 1171.56958 3.0616 0.0017966 -0.60623 -0.00035573 2.4554 0.0014408 586.7915620051882 70.408 0.4268 71.07 70.948 71.375 0.66208 28 24 2 0 0 0 0.19467 1 32302 32302 39.95 1.9757 1 348640 9848 3395 6254 6271 11546 11546 -0.009342317456912497 HPPKKKKK 8 Unmodified _HPPKKKKK_ 0 0 0 ENST00000357731.9_1_1:72748195-72748351:-|nuORF ENST00000357731.9_1_1:72748195-72748351:-|nuORF ENST00000357731.9_1_1:72748195-72748351:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.83538818359375 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 27.641 1 27.641 27.141 28.141 0 0 0 0 0.99035 1 12450 12450 0.79363 0.10326 1 9849 7183 6255 6272 11547 11547 0.15458042430316254 HPPLARTRT 9 Unmodified _HPPLARTRT_ 0 0 0 ENSG00000185800|ENST00000270223|DMWD ENSG00000185800|ENST00000270223|DMWD ENSG00000185800|ENST00000270223|DMWD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.2076110839844 3 350.205197 1047.59376 NaN NaN NaN NaN NaN NaN NaN 41.209 1 42.012 41.512 42.512 0.80351 0 0 0 0.90228 1 18695 18695 2.9952 0.26005 1 9850 5533 6256 6273 11548 11548 0.07186789522847903 HPPLLHGS 8 Unmodified _HPPLLHGS_ 0 0 0 ENST00000540534.5_1_20:62271485-62272211:-|nuORF ENST00000540534.5_1_20:62271485-62272211:-|nuORF ENST00000540534.5_1_20:62271485-62272211:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 429.2344055175781 2 429.235045 856.455536 NaN NaN NaN NaN NaN NaN NaN 64.113 1 64.828 64.328 65.328 0.71521 0 0 0 0.99035 1 30161 30161 6.3541 0 1 9851 8805 6257 6274 11549 11549 0.02156666274379404 HPPMILPL 8 Unmodified _HPPMILPL_ 0 0 0 nc|ENSG00000152076|Q96LY2|CCDC74B;ENST00000496704.1_1_2:130897130-130898075:-|nuORF;ENSG00000163040|ENST00000409856|CCDC74A;ENSG00000152076|ENST00000409943|CCDC74B;nc|ENSG00000163040|Q96AQ1|CCDC74A nc|ENSG00000152076|Q96LY2|CCDC74B nc|ENSG00000152076|Q96LY2|CCDC74B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 458.78955078125 2 459.267499 916.520445 3.0435 0.0013978 0.99396 0.00045649 4.0375 0.0018543 459.2677974871111 88.671 0.30347 88.922 88.752 89.056 0.25118 29 13 3 0 0 0 0.14333 1 40770 40770 0 0 1 1852200 9852 9692 6258 6275 11550 11550 0.058845247560270764 HPPMILPL 8 Unmodified _HPPMILPL_ 0 0 0 nc|ENSG00000152076|Q96LY2|CCDC74B;ENST00000496704.1_1_2:130897130-130898075:-|nuORF;ENSG00000163040|ENST00000409856|CCDC74A;ENSG00000152076|ENST00000409943|CCDC74B;nc|ENSG00000163040|Q96AQ1|CCDC74A nc|ENSG00000152076|Q96LY2|CCDC74B nc|ENSG00000152076|Q96LY2|CCDC74B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 458.7897033691406 2 459.267499 916.520445 3.0703 0.0014101 0.60702 0.00027878 3.6774 0.0016889 459.2676153488943 88.265 0.37535 88.943 88.778 89.153 0.67818 39 15 3 0 0 0 0.14249 1 40656 40656 0.79363 0.79363 1 2739800 9853 9692 6258 6275 11551 11551 0.058845247560270764 HPPNRRGIS 9 Unmodified _HPPNRRGIS_ 0 0 0 ENSG00000025293|ENST00000374012|PHF20;ENST00000481202.5_1_20:34389438-34450945:+|nuORF;nc|ENSG00000025293|Q9BVI0-2|PHF20;ENST00000461405.1_1_20:34389438-34389564:+|nuORF ENSG00000025293|ENST00000374012|PHF20 ENSG00000025293|ENST00000374012|PHF20 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 517.2890625 2 517.286131 1032.55771 NaN NaN NaN NaN NaN NaN NaN 78.5 1 78.965 78.465 79.465 0.4642 0 0 0 0.90228 1 38173 38173 2.3027 0 1 9854 477 6259 6276 11552 11552 0.04273332345997005 HPPPHLKTQL 10 Unmodified _HPPPHLKTQL_ 0 0 0 nc|ENSG00000152601|Q9NR56-6|MBNL1;nc|ENSG00000152601|Q9NR56-2|MBNL1;nc|ENSG00000076770|Q9NUK0-4|MBNL3;nc|ENSG00000152601|Q9NR56-3|MBNL1;nc|ENSG00000076770|Q9NUK0-3|MBNL3;nc|ENSG00000152601|Q9NR56-4|MBNL1;nc|ENSG00000076770|Q9NUK0-2|MBNL3;nc|ENSG00000152601|Q9NR56-7|MBNL1;nc|ENSG00000152601|Q9NR56|MBNL1;ENSG00000076770|ENST00000370853|MBNL3;ENSG00000152601|ENST00000324210|MBNL1 nc|ENSG00000152601|Q9NR56-6|MBNL1 nc|ENSG00000152601|Q9NR56-6|MBNL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.8929443359375 3 389.892619 1166.65603 NaN NaN NaN NaN NaN NaN NaN 14.347 1 14.654 14.154 15.154 0.3069 0 0 0 0.30726 1 6493 6493 37.771 10.548 1 9855 850 6260 6277 11553 11553 0.07936515871188021 HPPPHLKTQL 10 Unmodified _HPPPHLKTQL_ 0 0 0 nc|ENSG00000152601|Q9NR56-6|MBNL1;nc|ENSG00000152601|Q9NR56-2|MBNL1;nc|ENSG00000076770|Q9NUK0-4|MBNL3;nc|ENSG00000152601|Q9NR56-3|MBNL1;nc|ENSG00000076770|Q9NUK0-3|MBNL3;nc|ENSG00000152601|Q9NR56-4|MBNL1;nc|ENSG00000076770|Q9NUK0-2|MBNL3;nc|ENSG00000152601|Q9NR56-7|MBNL1;nc|ENSG00000152601|Q9NR56|MBNL1;ENSG00000076770|ENST00000370853|MBNL3;ENSG00000152601|ENST00000324210|MBNL1 nc|ENSG00000152601|Q9NR56-6|MBNL1 nc|ENSG00000152601|Q9NR56-6|MBNL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.8937683105469 3 389.892619 1166.65603 NaN NaN NaN NaN NaN NaN NaN 14.469 1 15.117 14.617 15.617 0.6482 0 0 0 0.98985 1 6513 6513 7.1017 1.8048 1 9856 850 6260 6277 11554 11554 0.07936515871188021 HPPQNKTD 8 Unmodified _HPPQNKTD_ 0 0 0 REV__ENST00000391694.4_1_19:58989172-58992090:+|nuORF REV__ENST00000391694.4_1_19:58989172-58992090:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.7317810058594 2 468.730323 935.446094 2.6226 0.0012293 0.55331 0.00025935 3.1759 0.0014887 468.7305329787057 17.274 0.76533 17.578 17.114 17.879 0.30438 118 58 3 0 0 0 0.66653 1 7766 7766 8.5933 0.68312 1 253940 + 9857 15923 6261 6278 11555 11555 -0.024211468018052074 HPQAPRAA 8 Unmodified _HPQAPRAA_ 0 0 0 REV__ENST00000368408.3_1_1:155051524-155058895:+|nuORF REV__ENST00000368408.3_1_1:155051524-155058895:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 424.2303161621094 2 424.230294 846.446034 NaN NaN NaN NaN NaN NaN NaN 84.427 1 84.675 84.175 85.175 0.24757 0 0 0 0.99035 1 38857 38857 5.2307 0 1 + 9858 15684 6262 6279 11556 11556 0.01666897988832261 HPQIEPANQEL 11 Unmodified _HPQIEPANQEL_ 0 0 0 ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 638.322509765625 2 638.320034 1274.62551 3.442 0.0021971 -0.13432 -8.5741E-05 3.3077 0.0021114 638.3200834695789 34.198 0.21524 34.198 34.074 34.29 0 24 12 2 0 0 0 1.4044E-06 1 15473 15473 104.48 54.93 1 3988000 9859 557 6263 6280 11557 11557 -0.0008130730452649004 HPQIEPANQEL 11 Unmodified _HPQIEPANQEL_ 0 0 0 ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 638.3221435546875 2 638.320034 1274.62551 3.1841 0.0020325 0.53355 0.00034058 3.7177 0.0023731 638.3203220695887 33.307 0.32458 34.095 33.948 34.273 0.78795 58 20 4 0 0 0 1.0062E-14 1 15073 15073 124.95 58.496 1 2054900 9860 557 6263 6280 11558 11558 -0.0008130730452649004 HPQIEPANQEL 11 Unmodified _HPQIEPANQEL_ 0 0 0 ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 638.8233642578125 2 638.320034 1274.62551 3.7797 0.0024127 -0.53836 -0.00034364 3.2414 0.002069 638.3196580534612 34.072 0.24237 34.326 34.175 34.418 0.25389 26 9 3 0 0 0 3.033E-10 2 15542 15483;15542 121.35 38.028 1 4727200 9861 557 6263 6280 11559;11560 11560 -0.0008130730452649004 HPQIEPANQEL 11 Unmodified _HPQIEPANQEL_ 0 0 0 ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 638.322509765625 2 638.320034 1274.62551 3.7773 0.0024111 0.22708 0.00014495 4.0044 0.0025561 638.3200608627808 33.555 0.37368 34.176 33.992 34.366 0.62031 37 13 4 0 0 0 8.8136E-16 2 15392 15342;15392 135.86 60.103 1 2587800 9862 557 6263 6280 11561;11562 11562 -0.0008130730452649004 HPQKVKVF 8 Unmodified _HPQKVKVF_ 0 0 0 FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant;nc|ENSG00000136068|O75369-5|FLNB;nc|ENSG00000136068|O75369-4|FLNB;nc|ENSG00000136068|O75369-7|FLNB;nc|ENSG00000136068|O75369-6|FLNB;nc|ENSG00000136068|O75369-3|FLNB;nc|ENSG00000136068|O75369-2|FLNB;nc|ENSG00000136068|O75369-9|FLNB;ENSG00000136068|ENST00000295956|FLNB;nc|ENSG00000136068|O75369-8|FLNB FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.7973327636719 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 50.86 1 51.678 51.178 52.178 0.81738 0 0 0 0.88162 1 23166 23166 13.508 2.684 1 9863 2926 6264 6281 11563 11563 0.08446074267999393 HPQPKRRRKP 10 Unmodified _HPQPKRRRKP_ 0 0 0 REV__ENSG00000170468|ENST00000304061|RIOX1 REV__ENSG00000170468|ENST00000304061|RIOX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 650.3980102539062 2 650.397079 1298.7796 NaN NaN NaN NaN NaN NaN NaN 104.58 1 105.18 104.68 105.68 0.59885 0 0 0 1.0018 1 48310 48310 0.45834 0.057624 1 + 9864 13436 6265 6282 11564 11564 0.1421661176214002 HPQPKRRRKP 10 Unmodified _HPQPKRRRKP_ 0 0 0 REV__ENSG00000170468|ENST00000304061|RIOX1 REV__ENSG00000170468|ENST00000304061|RIOX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 650.398193359375 2 650.397079 1298.7796 NaN NaN NaN NaN NaN NaN NaN 104.66 1 105.26 104.76 105.76 0.59885 0 0 0 1.0011 1 48347 48347 1.8442 1.8442 1 + 9865 13436 6265 6282 11565 11565 0.1421661176214002 HPQPKRRRKP 10 Unmodified _HPQPKRRRKP_ 0 0 0 REV__ENSG00000170468|ENST00000304061|RIOX1 REV__ENSG00000170468|ENST00000304061|RIOX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 650.3977661132812 2 650.397079 1298.7796 NaN NaN NaN NaN NaN NaN NaN 104.77 1 105.37 104.87 105.87 0.59885 0 0 0 1.0011 1 48397 48397 1.8442 1.4435 1 + 9866 13436 6265 6282 11566 11566 0.1421661176214002 HPQRQRRRRRQ 11 Unmodified _HPQRQRRRRRQ_ 0 0 0 ENST00000338745.10_3_3:18466531-18466693:-|nuORF;ENST00000450898.1_1_3:18465198-18466693:-|nuORF ENST00000338745.10_3_3:18466531-18466693:-|nuORF ENST00000338745.10_3_3:18466531-18466693:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.3110961914062 3 525.308823 1572.90464 4.177 0.0021942 1.2107 0.000636 5.3877 0.0028302 525.3092105163715 99.754 0.4091 100.06 99.812 100.22 0.30835 50 22 3 0 0 0 0.91391 1 46106 46106 0.08335 0 1 3197300 9867 7049 6266 6283 11567 11567 0.1411029695123034 HPQTHETAL 9 Unmodified _HPQTHETAL_ 0 0 0 TNKS2|p.E1150Sfs*3|1|0.23|ENSG00000107854|chr10:91862946-91862946|G/-|frameshift_variant;ENSG00000107854|ENST00000371627|TNKS2 TNKS2|p.E1150Sfs*3|1|0.23|ENSG00000107854|chr10:91862946-91862946|G/-|frameshift_variant TNKS2|p.E1150Sfs*3|1|0.23|ENSG00000107854|chr10:91862946-91862946|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.2578735351562 2 517.256705 1032.49886 3.3986 0.001758 -0.76481 -0.0003956 2.6338 0.0013624 517.256132446245 12.502 0.074984 12.502 12.467 12.542 0 11 5 3 0 0 0 0.0014317 1 5440 5440 110.55 39.419 1 5432100 9868 1610 6267 6284 11568 11568 -0.0160918873900755 HPQTHETAL 9 Unmodified _HPQTHETAL_ 0 0 0 TNKS2|p.E1150Sfs*3|1|0.23|ENSG00000107854|chr10:91862946-91862946|G/-|frameshift_variant;ENSG00000107854|ENST00000371627|TNKS2 TNKS2|p.E1150Sfs*3|1|0.23|ENSG00000107854|chr10:91862946-91862946|G/-|frameshift_variant TNKS2|p.E1150Sfs*3|1|0.23|ENSG00000107854|chr10:91862946-91862946|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 517.2578735351562 2 517.256705 1032.49886 2.8456 0.0014719 0.21708 0.00011229 3.0627 0.0015842 517.2568080802693 12.406 0.047866 12.668 12.638 12.686 0.26154 9 5 2 0 0 0 0.0090098 1 5362 5362 83.429 31.16 1 8145200 9869 1610 6267 6284 11569 11569 -0.0160918873900755 HPQTHETAL 9 Unmodified _HPQTHETAL_ 0 0 0 TNKS2|p.E1150Sfs*3|1|0.23|ENSG00000107854|chr10:91862946-91862946|G/-|frameshift_variant;ENSG00000107854|ENST00000371627|TNKS2 TNKS2|p.E1150Sfs*3|1|0.23|ENSG00000107854|chr10:91862946-91862946|G/-|frameshift_variant TNKS2|p.E1150Sfs*3|1|0.23|ENSG00000107854|chr10:91862946-91862946|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.2579956054688 2 517.256705 1032.49886 2.6452 0.0013683 -0.72236 -0.00037365 1.9229 0.00099462 517.2566402316364 12.388 0.061019 12.695 12.672 12.733 0.30727 10 4 3 0 0 0 0.0076144 1 5587 5587 86.332 24.974 1 7755700 9870 1610 6267 6284 11570 11570 -0.0160918873900755 HPQTHETAL 9 Unmodified _HPQTHETAL_ 0 0 0 TNKS2|p.E1150Sfs*3|1|0.23|ENSG00000107854|chr10:91862946-91862946|G/-|frameshift_variant;ENSG00000107854|ENST00000371627|TNKS2 TNKS2|p.E1150Sfs*3|1|0.23|ENSG00000107854|chr10:91862946-91862946|G/-|frameshift_variant TNKS2|p.E1150Sfs*3|1|0.23|ENSG00000107854|chr10:91862946-91862946|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.2583618164062 2 517.256705 1032.49886 3.7855 0.0019581 -0.26469 -0.00013691 3.5208 0.0018212 517.2565186818103 12.383 0.072437 13.021 12.989 13.062 0.63746 7 4 2 0 0 0 0.086415 1 5555 5555 36.127 2.0246 1 10313000 9871 1610 6267 6284 11571 11571 -0.0160918873900755 HPQYEVVEI 9 Unmodified _HPQYEVVEI_ 0 0 0 nc|ENSG00000064419|Q9Y5L0-3|TNPO3;ENSG00000064419|ENST00000265388|TNPO3;nc|ENSG00000064419|Q9Y5L0-1|TNPO3;nc|ENSG00000064419|Q9Y5L0-5|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.2836303710938 2 557.282389 1112.55022 NaN NaN NaN NaN NaN NaN NaN 50.109 1 50.932 50.432 51.432 0.82285 0 0 0 0.24879 1 22825 22825 29.082 3.6823 1 9872 671 6268 6285 11572 11572 -0.001548647649542545 HPQYEVVEI 9 Unmodified _HPQYEVVEI_ 0 0 0 nc|ENSG00000064419|Q9Y5L0-3|TNPO3;ENSG00000064419|ENST00000265388|TNPO3;nc|ENSG00000064419|Q9Y5L0-1|TNPO3;nc|ENSG00000064419|Q9Y5L0-5|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.2833862304688 2 557.282389 1112.55022 3.4696 0.0019335 0.93271 0.00051979 4.4023 0.0024533 557.2823383073592 50.171 0.27488 50.829 50.642 50.917 0.65735 16 10 2 0 0 0 0.043585 1 22938 22938 49.933 11.959 1 560540 9873 671 6268 6285 11573 11573 -0.001548647649542545 HPQYEVVEI 9 Unmodified _HPQYEVVEI_ 0 0 0 nc|ENSG00000064419|Q9Y5L0-3|TNPO3;ENSG00000064419|ENST00000265388|TNPO3;nc|ENSG00000064419|Q9Y5L0-1|TNPO3;nc|ENSG00000064419|Q9Y5L0-5|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 557.282389 1112.55022 3.7201 0.0020732 6.2617 0.0034895 9.9818 0.0055627 557.2821972794122 50.936 0.28066 50.936 50.767 51.048 0 -0.02814 0.0045175 NaN 49.933 25 12 3 NaN NaN NaN NaN 0 NaN NaN 0 1039500 9874 671 6268 6285 -0.001548647649542545 HPQYEVVEI 9 Unmodified _HPQYEVVEI_ 0 0 0 nc|ENSG00000064419|Q9Y5L0-3|TNPO3;ENSG00000064419|ENST00000265388|TNPO3;nc|ENSG00000064419|Q9Y5L0-1|TNPO3;nc|ENSG00000064419|Q9Y5L0-5|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 557.282389 1112.55022 3.4479 0.0019214 2.8594 0.0015935 6.3073 0.0035149 557.2823830603428 50.867 0.34512 51.129 50.909 51.254 0.26146 0.16424 0.00072539 NaN 49.933 31 16 3 NaN NaN NaN NaN 0 NaN NaN 0 595250 9875 671 6268 6285 -0.001548647649542545 HPRAKVTL 8 Unmodified _HPRAKVTL_ 0 0 0 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 307.8596496582031 3 307.859138 920.555585 2.0899 0.00064339 0.52472 0.00016154 2.6146 0.00080493 307.85918457312533 12.536 0.078744 12.536 12.496 12.575 0 15 6 3 0 0 0 0.099011 1 5454 5454 53.833 23.196 1 6640600 9876 1057 6269 6286 11574 11574 0.09212903608181477 HPRAKVTL 8 Unmodified _HPRAKVTL_ 0 0 0 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 307.8595275878906 3 307.859138 920.555585 1.7407 0.0005359 -0.19733 -6.0749E-05 1.5434 0.00047515 307.8590394086032 12.419 0.044119 12.681 12.651 12.695 0.26154 8 4 2 0 0 0 0.35763 1 5366 5366 31.268 2.1868 1 9843400 9877 1057 6269 6286 11575 11575 0.09212903608181477 HPRAKVTL 8 Unmodified _HPRAKVTL_ 0 0 0 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 307.85980224609375 3 307.859138 920.555585 1.4336 0.00044135 0.1514 4.6609E-05 1.585 0.00048796 307.85914835917015 12.407 0.089337 12.715 12.661 12.751 0.30727 16 6 4 0 0 0 0.099011 1 5578 5578 53.833 19.431 1 86659000 9878 1057 6269 6286 11576 11576 0.09212903608181477 HPRAKVTL 8 Unmodified _HPRAKVTL_ 0 0 0 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 461.28631591796875 2 461.285069 920.555585 1.9499 0.00089944 0.38837 0.00017915 2.3382 0.0010786 461.2852105501224 12.407 0.061019 12.715 12.672 12.733 0.30727 10 4 3 0 0 0 0.212 1 5590 5590 49.933 11.782 1 13723000 9879 1057 6269 6286 11577 11577 0.09212903608181477 HPRAKVTL 8 Unmodified _HPRAKVTL_ 0 0 0 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 307.8600158691406 3 307.859138 920.555585 2.4987 0.00076925 0.35672 0.00010982 2.8554 0.00087907 307.8592262538756 12.383 0.083646 13.021 12.978 13.062 0.63746 14 5 4 0 0 0 0.099011 1 5543 5543 53.833 53.833 1 93614000 9880 1057 6269 6286 11578 11578 0.09212903608181477 HPRAKVTL 8 Unmodified _HPRAKVTL_ 0 0 0 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 461.2861022949219 2 461.285069 920.555585 3.2404 0.0014947 0.48769 0.00022496 3.7281 0.0017197 461.28507274651815 12.383 0.052208 13.021 12.989 13.042 0.63746 11 3 4 0 0 0 0.050638 1 5546 5546 75.761 33.666 1 30777000 9881 1057 6269 6286 11579 11579 0.09212903608181477 HPRAKVTL 8 Unmodified _HPRAKVTL_ 0 0 0 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 461.285069 920.555585 2.9159 0.001345 0.044191 2.0385E-05 2.9601 0.0013654 461.28526392405325 12.535 0.06078 12.535 12.496 12.557 0 -0.20083 1.033E-05 NaN 75.761 8 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1965200 9882 1057 6269 6286 0.09212903608181477 HPRAKVTL 8 Unmodified _HPRAKVTL_ 0 0 0 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 461.285069 920.555585 2.2473 0.0010366 -1.0652 -0.00049135 1.1821 0.00054528 461.28462083771865 12.411 0.03821 12.672 12.657 12.695 0.26154 -0.063205 -0.0010131 NaN 75.761 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1989300 9883 1057 6269 6286 0.09212903608181477 HPRDPFLCY 9 Unmodified _HPRDPFLCY_ 0 0 0 ENSG00000120696|ENST00000379483|KBTBD7 ENSG00000120696|ENST00000379483|KBTBD7 ENSG00000120696|ENST00000379483|KBTBD7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.2747192382812 2 574.271301 1146.52805 NaN NaN NaN NaN NaN NaN NaN 22.286 1 22.286 21.786 22.786 0 0 0 0 0.8911 1 9989 9989 5.7319 1.4026 1 9884 2207 6270 6287 11580 11580 -0.03935367714370841 HPREPLYRY 9 Unmodified _HPREPLYRY_ 0 0 0 REV__nc|ENSG00000146373|Q8TC41-2|RNF217 REV__nc|ENSG00000146373|Q8TC41-2|RNF217 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 615.824462890625 2 615.822547 1229.63054 3.7926 0.0023356 -1.4188 -0.00087372 2.3738 0.0014619 615.8217416773832 103 0.1874 103.6 103.5 103.69 0.59821 11 5 3 0 0 0 1.2078 1 47674 47674 0.6015 0.14316 1 808440 + 9885 12472 6271 6288 11581 11581 0.024910413487532423 HPRFCRLL 8 Unmodified _HPRFCRLL_ 0 0 0 ENSG00000204702|ENST00000641659|OR2J1 ENSG00000204702|ENST00000641659|OR2J1 ENSG00000204702|ENST00000641659|OR2J1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1042.428466796875 1 1041.57747 1040.57019 3.4627 0.0036067 -0.94082 -0.00097993 2.5219 0.0026267 1042.5799994897645 24.865 0.019493 25.494 25.48 25.499 0.62915 5 3 2 0 0 0 0.73686 1 11384 11384 2.8892 0 1 2292800 9886 6029 6272 6289 11582 11582 0.051526524846622124 HPRWRQGKDR 10 Unmodified _HPRWRQGKDR_ 0 0 0 REV__ENST00000528667.5_1_1:110162570-110163847:+|nuORF REV__ENST00000528667.5_1_1:110162570-110163847:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 668.3621826171875 2 668.360693 1334.70683 3.3393 0.0022318 0.77799 0.00051998 4.1172 0.0027518 668.3610046097641 104.47 0.33258 104.47 104.32 104.65 0 33 23 2 0 0 0 0.94217 2 57493 57493;57514 0.45834 0 1 474350 + 9887 17120 6273 6290 11583;11584 11583 0.05286857968735603 HPRWRQGKDR 10 Unmodified _HPRWRQGKDR_ 0 0 0 REV__ENST00000528667.5_1_1:110162570-110163847:+|nuORF REV__ENST00000528667.5_1_1:110162570-110163847:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 668.3637084960938 2 668.360693 1334.70683 4.1623 0.0027819 0.53661 0.00035865 4.6989 0.0031406 668.360856678192 103.86 0.10217 104.45 104.36 104.46 0.59821 24 17 2 0 0 0 0.94217 1 48013 48013 0.45834 0 1 552420 + 9888 17120 6273 6290 11585 11585 0.05286857968735603 HPRWRQGKDR 10 Unmodified _HPRWRQGKDR_ 0 0 0 REV__ENST00000528667.5_1_1:110162570-110163847:+|nuORF REV__ENST00000528667.5_1_1:110162570-110163847:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 668.360693 1334.70683 3.3393 0.0022318 0.77799 0.00051998 4.1172 0.0027518 668.3610046097641 104.47 0.33258 104.47 104.32 104.65 0 -0.039851 0.00024925 NaN 0.45834 33 23 2 NaN NaN NaN NaN 0 NaN NaN 0 474350 + 9889 17120 6273 6290 0.05286857968735603 HPSAHDVIL 9 Unmodified _HPSAHDVIL_ 0 0 0 nc|ENSG00000058085|Q13753-2|LAMC2;ENSG00000058085|ENST00000264144|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.7662353515625 2 494.764166 987.513779 3.3485 0.0016567 0.20412 0.00010099 3.5526 0.0017577 494.7642702070456 28.339 1.3573 28.339 28.075 29.432 0 247 108 3 0 0 0 0.014491 7 12854 12705;12755;12808;12854;12902;12951;12995 85.357 40.95 1 5301500 9890 628 6274 6291 11586;11587;11588;11589;11590;11591;11592 11589 0.019523031289850223 HPSAHDVIL 9 Unmodified _HPSAHDVIL_ 0 0 0 nc|ENSG00000058085|Q13753-2|LAMC2;ENSG00000058085|ENST00000264144|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 330.17938232421875 3 330.178536 987.513779 2.5431 0.00083966 0.41147 0.00013586 2.9545 0.00097552 330.1786744830371 28.317 0.62968 28.317 28.124 28.753 0 83 47 2 0 0 0 0.071132 4 12731 12731;12783;12829;12874 39.95 32.786 1 1854300 9891 628 6274 6291 11593;11594;11595;11596 11593 0.019523031289850223 HPSAHDVIL 9 Unmodified _HPSAHDVIL_ 0 0 0 nc|ENSG00000058085|Q13753-2|LAMC2;ENSG00000058085|ENST00000264144|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.7659912109375 2 494.764166 987.513779 3.2015 0.001584 0.025674 1.2702E-05 3.2271 0.0015967 494.76414510355664 27.302 1.1907 28.088 27.81 29 0.78627 251 105 3 0 0 0 0.0079462 10 12283 12199;12241;12283;12328;12379;12427;12477;12520;12568;12612 97.075 54.98 1 4441600 9892 628 6274 6291 11597;11598;11599;11600;11601;11602;11603;11604;11605;11606 11599 0.019523031289850223 HPSAHDVIL 9 Unmodified _HPSAHDVIL_ 0 0 0 nc|ENSG00000058085|Q13753-2|LAMC2;ENSG00000058085|ENST00000264144|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 330.17919921875 3 330.178536 987.513779 2.382 0.00078648 -0.028415 -9.382E-06 2.3536 0.0007771 330.178605553561 27.338 0.94556 28.125 27.905 28.85 0.78627 161 84 3 0 0 0 0.071132 4 12269 12269;12315;12377;12449 39.95 27.709 1 1029000 9893 628 6274 6291 11607;11608;11609;11610 11607 0.019523031289850223 HPSAHDVIL 9 Unmodified _HPSAHDVIL_ 0 0 0 nc|ENSG00000058085|Q13753-2|LAMC2;ENSG00000058085|ENST00000264144|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.7660827636719 2 494.764166 987.513779 3.0835 0.0015256 0.30885 0.00015281 3.3924 0.0016784 494.76431003619973 28.034 0.95514 28.296 28.012 28.967 0.26245 147 67 3 0 0 0 0.019364 7 12738 12692;12738;12784;12825;12880;12928;13013 77.984 35.725 1 2098000 9894 628 6274 6291 11611;11612;11613;11614;11615;11616;11617 11612 0.019523031289850223 HPSAHDVIL 9 Unmodified _HPSAHDVIL_ 0 0 0 nc|ENSG00000058085|Q13753-2|LAMC2;ENSG00000058085|ENST00000264144|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.179443359375 3 330.178536 987.513779 2.2611 0.00074656 0.70313 0.00023216 2.9642 0.00097872 330.1787810334489 28.019 0.84458 28.282 28.052 28.896 0.26245 77 58 2 0 0 0 0.15661 1 12723 12723 26.268 18.113 1 658770 9895 628 6274 6291 11618 11618 0.019523031289850223 HPSAHDVIL 9 Unmodified _HPSAHDVIL_ 0 0 0 nc|ENSG00000058085|Q13753-2|LAMC2;ENSG00000058085|ENST00000264144|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.7655944824219 2 494.764166 987.513779 3.1284 0.0015478 0.44224 0.00021881 3.5706 0.0017666 494.76443187762754 27.58 1.1456 28.202 27.999 29.144 0.62179 191 77 3 0 0 0 0.02812 8 12617 12617;12666;12714;12758;12808;12859;12949;12994 74.423 28.273 1 2132800 9896 628 6274 6291 11619;11620;11621;11622;11623;11624;11625;11626 11619 0.019523031289850223 HPSAHDVIL 9 Unmodified _HPSAHDVIL_ 0 0 0 nc|ENSG00000058085|Q13753-2|LAMC2;ENSG00000058085|ENST00000264144|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 nc|ENSG00000058085|Q13753-2|LAMC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.17950439453125 3 330.178536 987.513779 NaN NaN NaN NaN NaN NaN NaN 27.574 1 28.196 27.696 28.696 0.62179 0 0 0 0.31736 1 12642 12642 26.268 11.43 1 9897 628 6274 6291 11627 11627 0.019523031289850223 HPSDHENI 8 Unmodified _HPSDHENI_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;nc|ENSG00000173193|Q460N5-5|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.7120056152344 2 474.712131 947.409708 NaN NaN NaN NaN NaN NaN NaN 68.776 1 69.03 68.53 69.53 0.25443 0 0 0 0.81105 1 31506 31506 18.135 2.2878 1 9898 4917 6275 6292 11628 11628 -0.06610023698533496 HPSDIEVDL 9 Unmodified _HPSDIEVDL_ 0 0 0 ENSG00000166710|ENST00000648006|B2M;ENST00000559720.5_1_15:45003705-45007919:+|nuORF ENSG00000166710|ENST00000648006|B2M ENSG00000166710|ENST00000648006|B2M MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.7526245117188 2 512.750921 1023.48729 3.5789 0.0018351 -0.10649 -5.4601E-05 3.4724 0.0017805 512.7507293262655 48.082 0.30233 48.344 48.181 48.484 0.2621 22 11 2 0 0 0 0.020718 1 21955 21955 67.344 23.486 1 595210 9899 4500 6276 6293 11629 11629 -0.023514305530056845 HPSDIEVDL 9 Unmodified _HPSDIEVDL_ 0 0 0 ENSG00000166710|ENST00000648006|B2M;ENST00000559720.5_1_15:45003705-45007919:+|nuORF ENSG00000166710|ENST00000648006|B2M ENSG00000166710|ENST00000648006|B2M MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.7523803710938 2 512.750921 1023.48729 3.3856 0.001736 -0.32995 -0.00016918 3.0557 0.0015668 512.7507387422139 47.497 0.33559 48.151 47.962 48.297 0.65356 24 13 2 0 0 0 0.0080831 1 21729 21729 85.357 26.678 1 492090 9900 4500 6276 6293 11630 11630 -0.023514305530056845 HPSDIEVDLL 10 Unmodified _HPSDIEVDLL_ 0 0 0 ENSG00000166710|ENST00000648006|B2M;ENST00000559720.5_1_15:45003705-45007919:+|nuORF ENSG00000166710|ENST00000648006|B2M ENSG00000166710|ENST00000648006|B2M MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.2943725585938 2 569.292953 1136.57135 3.3024 0.0018801 0.29581 0.0001684 3.5982 0.0020485 569.2928984163076 63.528 0.41785 63.776 63.587 64.005 0.24803 63 23 4 0 0 0 0.018908 2 29083 29083;29137 81.613 41.656 1 4141600 9901 4500 6277 6294 11631;11632 11631 0.008531005438953798 HPSDIEVDLL 10 Unmodified _HPSDIEVDLL_ 0 0 0 ENSG00000166710|ENST00000648006|B2M;ENST00000559720.5_1_15:45003705-45007919:+|nuORF ENSG00000166710|ENST00000648006|B2M ENSG00000166710|ENST00000648006|B2M MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 569.292953 1136.57135 3.4795 0.0019809 0.94088 0.00053564 4.4204 0.0025165 569.293372842115 62.976 0.39022 63.634 63.464 63.854 0.65808 -0.070724 0.00037096 NaN 81.613 38 21 2 NaN NaN NaN NaN 0 NaN NaN 0 4450600 9902 4500 6277 6294 0.008531005438953798 HPSEDEIL 8 Unmodified _HPSEDEIL_ 0 0 0 ENSG00000197386|ENST00000355072|HTT;ENST00000513806.1_1_4:3230649-3237073:+|nuORF ENSG00000197386|ENST00000355072|HTT ENSG00000197386|ENST00000355072|HTT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.2257995605469 2 470.224539 938.434526 NaN NaN NaN NaN NaN NaN NaN 32.909 1 33.528 33.028 34.028 0.61831 0 0 0 0.86524 1 15085 15085 14.582 5.2343 1 9903 5813 6278 6295 11633 11633 -0.03715388615808024 HPSERSFEL 9 Unmodified _HPSERSFEL_ 0 0 0 nc|ENSG00000156030|Q6PJG2|MIDEAS;ENSG00000156030|ENST00000423556|MIDEAS nc|ENSG00000156030|Q6PJG2|MIDEAS nc|ENSG00000156030|Q6PJG2|MIDEAS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.26904296875 2 551.269813 1100.52507 NaN NaN NaN NaN NaN NaN NaN 30.316 1 31.105 30.605 31.605 0.78921 0 0 0 0.65681 1 13688 13688 13.906 1.3745 1 9904 3893 6279 6296 11634 11634 -0.021169195675156516 HPSERSFEL 9 Unmodified _HPSERSFEL_ 0 0 0 nc|ENSG00000156030|Q6PJG2|MIDEAS;ENSG00000156030|ENST00000423556|MIDEAS nc|ENSG00000156030|Q6PJG2|MIDEAS nc|ENSG00000156030|Q6PJG2|MIDEAS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 551.774658203125 2 551.269813 1100.52507 4.0653 0.0022411 0.37346 0.00020588 4.4388 0.002447 551.2700662592804 31.402 0.34071 31.659 31.471 31.811 0.25614 41 24 2 0 0 0 0.29523 2 14315 14265;14315 17.113 5.9984 1 258710 9905 3893 6279 6296 11635;11636 11636 -0.021169195675156516 HPSERSFEL 9 Unmodified _HPSERSFEL_ 0 0 0 nc|ENSG00000156030|Q6PJG2|MIDEAS;ENSG00000156030|ENST00000423556|MIDEAS nc|ENSG00000156030|Q6PJG2|MIDEAS nc|ENSG00000156030|Q6PJG2|MIDEAS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.2720947265625 2 551.269813 1100.52507 3.5301 0.0019461 0.26276 0.00014485 3.7929 0.0020909 551.2699311755397 30.914 0.33675 31.531 31.354 31.691 0.61737 35 20 2 0 0 0 0.29523 2 14163 14163;14210 17.113 9.3831 1 359300 9906 3893 6279 6296 11637;11638 11637 -0.021169195675156516 HPSHIAPH 8 Unmodified _HPSHIAPH_ 0 0 0 ENST00000526269.2_1_11:128561788-128562594:-|nuORF ENST00000526269.2_1_11:128561788-128562594:-|nuORF ENST00000526269.2_1_11:128561788-128562594:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 448.2315368652344 2 448.230294 894.446034 3.4384 0.0015412 -0.56653 -0.00025393 2.8719 0.0012873 448.22998911105424 93.365 0.62154 93.62 93.308 93.929 0.25497 52 29 2 0 0 0 0.73686 1 42873 42873 2.8892 0 1 890530 9907 8674 6280 6297 11639 11639 -0.005411020111637299 HPSIVKETL 9 Unmodified _HPSIVKETL_ 0 0 0 nc|ENSG00000155229|Q96T76-5|MMS19;ENSG00000155229|ENST00000438925|MMS19;nc|ENSG00000155229|Q96T76-8|MMS19;nc|ENSG00000155229|Q96T76-9|MMS19 nc|ENSG00000155229|Q96T76-5|MMS19 nc|ENSG00000155229|Q96T76-5|MMS19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.2970581054688 2 512.295299 1022.57605 3.3608 0.0017217 1.9735 0.001011 5.3343 0.0027327 512.2954438804303 27.221 0.26462 27.221 27.046 27.31 0 51 17 4 0 0 0 0.0023958 1 12255 12255 100.09 54.07 1 616010 9908 3854 6281 6298 11640 11640 0.06566029477335178 HPSIVKETL 9 Unmodified _HPSIVKETL_ 0 0 0 nc|ENSG00000155229|Q96T76-5|MMS19;ENSG00000155229|ENST00000438925|MMS19;nc|ENSG00000155229|Q96T76-8|MMS19;nc|ENSG00000155229|Q96T76-9|MMS19 nc|ENSG00000155229|Q96T76-5|MMS19 nc|ENSG00000155229|Q96T76-5|MMS19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.2973022460938 2 512.295299 1022.57605 3.1605 0.0016191 1.0938 0.00056037 4.2544 0.0021795 512.2955777791304 26.232 0.27747 27.01 26.865 27.143 0.7787 54 21 3 0 0 0 0.0043297 1 11799 11799 93.166 47.145 1 726000 9909 3854 6281 6298 11641 11641 0.06566029477335178 HPSIVKETL 9 Unmodified _HPSIVKETL_ 0 0 0 nc|ENSG00000155229|Q96T76-5|MMS19;ENSG00000155229|ENST00000438925|MMS19;nc|ENSG00000155229|Q96T76-8|MMS19;nc|ENSG00000155229|Q96T76-9|MMS19 nc|ENSG00000155229|Q96T76-5|MMS19 nc|ENSG00000155229|Q96T76-5|MMS19 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.29736328125 2 512.295299 1022.57605 NaN NaN NaN NaN NaN NaN NaN 26.874 1 27.139 26.639 27.639 0.26489 0 0 0 0.016042 1 12212 12212 78.06 41.933 1 9910 3854 6281 6298 11642 11642 0.06566029477335178 HPSIVKETL 9 Unmodified _HPSIVKETL_ 0 0 0 nc|ENSG00000155229|Q96T76-5|MMS19;ENSG00000155229|ENST00000438925|MMS19;nc|ENSG00000155229|Q96T76-8|MMS19;nc|ENSG00000155229|Q96T76-9|MMS19 nc|ENSG00000155229|Q96T76-5|MMS19 nc|ENSG00000155229|Q96T76-5|MMS19 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.2975463867188 2 512.295299 1022.57605 NaN NaN NaN NaN NaN NaN NaN 26.48 1 27.105 26.605 27.605 0.62505 0 0 0 0.088893 1 12140 12140 43.772 21.036 1 9911 3854 6281 6298 11643 11643 0.06566029477335178 HPSQTVELF 9 Unmodified _HPSQTVELF_ 0 0 0 nc|ENSG00000196367|Q9Y4A5-2|TRRAP;nc|ENSG00000196367|Q9Y4A5|TRRAP;ENSG00000196367|ENST00000456197|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.2696533203125 2 529.269281 1056.52401 3.2172 0.0017028 1.1173 0.00059136 4.3346 0.0022941 529.2704069521242 49.616 0.24135 50.438 50.22 50.461 0.82285 17 12 2 0 0 0 0.057744 1 22588 22588 43.858 16.975 1 828210 9912 5739 6282 6299 11644 11644 -0.0019913393641672883 HPSVDSSVL 9 Unmodified _HPSVDSSVL_ 0 0 0 ENSG00000134107|ENST00000256495|BHLHE40 ENSG00000134107|ENST00000256495|BHLHE40 ENSG00000134107|ENST00000256495|BHLHE40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.7424011230469 2 470.740357 939.46616 2.6939 0.0012681 -0.031704 -1.4924E-05 2.6622 0.0012532 470.7403624334779 33.423 0.18518 33.423 33.327 33.512 0 35 23 2 0 0 0 0.0061269 2 15124 15124;15180 89.427 29.037 1 1844700 9913 2784 6283 6300 11645;11646 11645 -0.005993958618546458 HPSVDSSVL 9 Unmodified _HPSVDSSVL_ 0 0 0 ENSG00000134107|ENST00000256495|BHLHE40 ENSG00000134107|ENST00000256495|BHLHE40 ENSG00000134107|ENST00000256495|BHLHE40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.7417907714844 2 470.740357 939.46616 2.6596 0.001252 0.73123 0.00034422 3.3909 0.0015962 470.7406006734849 32.395 0.36897 33.183 33.024 33.393 0.78795 54 26 3 0 0 0 0.0061269 3 14657 14616;14657;14707 89.427 31.955 1 1189000 9914 2784 6283 6300 11647;11648;11649 11648 -0.005993958618546458 HPSVDSSVL 9 Unmodified _HPSVDSSVL_ 0 0 0 ENSG00000134107|ENST00000256495|BHLHE40 ENSG00000134107|ENST00000256495|BHLHE40 ENSG00000134107|ENST00000256495|BHLHE40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.7412414550781 2 470.740357 939.46616 2.9848 0.0014051 0.86935 0.00040924 3.8541 0.0018143 470.7407651009485 33.179 0.4104 33.433 33.232 33.642 0.25389 46 18 3 0 0 0 0.0061269 3 15067 15067;15124;15191 89.427 29.037 1 2042400 9915 2784 6283 6300 11650;11651;11652 11650 -0.005993958618546458 HPSVDSSVL 9 Unmodified _HPSVDSSVL_ 0 0 0 ENSG00000134107|ENST00000256495|BHLHE40 ENSG00000134107|ENST00000256495|BHLHE40 ENSG00000134107|ENST00000256495|BHLHE40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.7418518066406 2 470.740357 939.46616 2.8601 0.0013464 0.93931 0.00044217 3.7994 0.0017885 470.7407716367571 32.676 0.42964 33.294 33.097 33.526 0.61831 46 18 3 0 0 0 0.0061269 3 14983 14935;14983;15040 89.427 31.955 1 1623700 9916 2784 6283 6300 11653;11654;11655 11654 -0.005993958618546458 HPSVDSSVLL 10 Unmodified _HPSVDSSVLL_ 0 0 0 ENSG00000134107|ENST00000256495|BHLHE40 ENSG00000134107|ENST00000256495|BHLHE40 ENSG00000134107|ENST00000256495|BHLHE40 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.7037353515625 2 527.282389 1052.55022 3.1524 0.0016622 -1.1069 -0.00058365 2.0454 0.0010785 527.2819082795173 49.168 0.1798 49.168 49.118 49.297 0 10 7 2 0 0 0 0.075913 1 22515 22515 39.957 10.876 1 491650 9917 2784 6284 6301 11656 11656 0.026051352350577872 HPSVDSSVLL 10 Unmodified _HPSVDSSVLL_ 0 0 0 ENSG00000134107|ENST00000256495|BHLHE40 ENSG00000134107|ENST00000256495|BHLHE40 ENSG00000134107|ENST00000256495|BHLHE40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.2850341796875 2 527.282389 1052.55022 3.4013 0.0017934 -0.56547 -0.00029816 2.8358 0.0014953 527.281938975836 48.974 0.24876 49.236 49.113 49.362 0.26209 13 8 2 0 0 0 0.33566 2 22400 22400;22430 39.957 10.876 1 491220 9918 2784 6284 6301 11657;11658 11657 0.026051352350577872 HPSVDSSVLL 10 Unmodified _HPSVDSSVLL_ 0 0 0 ENSG00000134107|ENST00000256495|BHLHE40 ENSG00000134107|ENST00000256495|BHLHE40 ENSG00000134107|ENST00000256495|BHLHE40 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.283203125 2 527.282389 1052.55022 NaN NaN NaN NaN NaN NaN NaN 48.379 1 49.033 48.533 49.533 0.65356 0 0 0 0.79701 1 22139 22139 26.884 7.6267 1 9919 2784 6284 6301 11659 11659 0.026051352350577872 HPSVDSSVLL 10 Unmodified _HPSVDSSVLL_ 0 0 0 ENSG00000134107|ENST00000256495|BHLHE40 ENSG00000134107|ENST00000256495|BHLHE40 ENSG00000134107|ENST00000256495|BHLHE40 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 527.282389 1052.55022 3.1776 0.0016755 -0.14888 -7.8499E-05 3.0288 0.001597 527.7838725622327 48.186 0.25652 49.015 48.875 49.132 0.82915 -0.12433 0.00034817 NaN 39.957 15 12 2 NaN NaN NaN NaN 0 NaN NaN 0 244140 9920 2784 6284 6301 0.026051352350577872 HPTADVQTF 9 Unmodified _HPTADVQTF_ 0 0 0 nc|ENSG00000054523|O60333-3|KIF1B nc|ENSG00000054523|O60333-3|KIF1B nc|ENSG00000054523|O60333-3|KIF1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.2474365234375 2 508.245806 1014.47706 3.354 0.0017047 0.0042347 2.1523E-06 3.3583 0.0017068 508.24571792527894 30.045 0.31535 30.045 29.876 30.191 0 51 22 3 0 0 0 0.025323 2 13587 13536;13587 61.357 15.337 1 2260600 9921 9546 6285 6302 11660;11661 11661 -0.029599934875705003 HPTADVQTF 9 Unmodified _HPTADVQTF_ 0 0 0 nc|ENSG00000054523|O60333-3|KIF1B nc|ENSG00000054523|O60333-3|KIF1B nc|ENSG00000054523|O60333-3|KIF1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.2474670410156 2 508.245806 1014.47706 3.2204 0.0016368 -0.10428 -5.2998E-05 3.1162 0.0015838 508.2457099230812 29.167 0.37177 29.957 29.754 30.126 0.78921 72 27 3 0 0 0 0.025323 3 13105 13105;13145;13193 61.357 19.263 1 1405900 9922 9546 6285 6302 11662;11663;11664 11662 -0.029599934875705003 HPTADVQTF 9 Unmodified _HPTADVQTF_ 0 0 0 nc|ENSG00000054523|O60333-3|KIF1B nc|ENSG00000054523|O60333-3|KIF1B nc|ENSG00000054523|O60333-3|KIF1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.2481689453125 2 508.245806 1014.47706 3.4993 0.0017785 0.27564 0.00014009 3.7749 0.0019186 508.2458744303643 29.817 0.31319 30.075 29.877 30.19 0.25804 68 28 3 0 0 0 0.023109 2 13560 13560;13615 64.236 17.16 1 615170 9923 9546 6285 6302 11665;11666 11665 -0.029599934875705003 HPTADVQTF 9 Unmodified _HPTADVQTF_ 0 0 0 nc|ENSG00000054523|O60333-3|KIF1B nc|ENSG00000054523|O60333-3|KIF1B nc|ENSG00000054523|O60333-3|KIF1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.24810791015625 2 508.245806 1014.47706 3.3089 0.0016817 0.21616 0.00010986 3.525 0.0017916 508.24580077563604 29.472 0.35204 30.09 29.918 30.27 0.61789 55 23 3 0 0 0 0.023109 2 13505 13505;13553 64.236 18.215 1 585390 9924 9546 6285 6302 11667;11668 11667 -0.029599934875705003 HPTAREEP 8 Unmodified _HPTAREEP_ 0 0 0 REV__ENSG00000126705|ENST00000673934|AHDC1 REV__ENSG00000126705|ENST00000673934|AHDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.7318420410156 2 468.730323 935.446094 2.6226 0.0012293 0.55331 0.00025935 3.1759 0.0014887 468.7305329787057 17.274 0.76533 17.578 17.114 17.879 0.30438 118 58 3 0 0 0 0.70799 1 7927 7927 5.2307 0 1 253940 + 9925 11716 6286 6303 11669 11669 -0.024211468018052074 HPTDDTTTL 9 Unmodified _HPTDDTTTL_ 0 0 0 ENST00000591716.6_1_19:35651643-35657154:+|nuORF;nc|ENSG00000089327|Q96DB9-2|FXYD5;ENSG00000089327|ENST00000392219|FXYD5 ENST00000591716.6_1_19:35651643-35657154:+|nuORF ENST00000591716.6_1_19:35651643-35657154:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.7344665527344 2 500.732729 999.450904 3.1398 0.0015722 0.066549 3.3323E-05 3.2063 0.0016055 500.73274303903963 19.556 0.32044 19.556 19.454 19.775 0 91 37 3 0 0 0 0.0080831 3 8742 8692;8742;8786 85.357 44.908 1 17467000 9926 1043 6287 6304 11670;11671;11672 11671 -0.04884307449719927 HPTDDTTTL 9 Unmodified _HPTDDTTTL_ 0 0 0 ENST00000591716.6_1_19:35651643-35657154:+|nuORF;nc|ENSG00000089327|Q96DB9-2|FXYD5;ENSG00000089327|ENST00000392219|FXYD5 ENST00000591716.6_1_19:35651643-35657154:+|nuORF ENST00000591716.6_1_19:35651643-35657154:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.7344970703125 2 500.732729 999.450904 3.0481 0.0015263 0.023656 1.1845E-05 3.0718 0.0015381 500.7327170044594 19.197 0.32425 19.495 19.358 19.682 0.29753 102 34 4 0 0 0 0.0080831 3 8728 8682;8728;8773 85.357 37.536 1 14484000 9927 1043 6287 6304 11673;11674;11675 11674 -0.04884307449719927 HPTDDTTTL 9 Unmodified _HPTDDTTTL_ 0 0 0 ENST00000591716.6_1_19:35651643-35657154:+|nuORF;nc|ENSG00000089327|Q96DB9-2|FXYD5;ENSG00000089327|ENST00000392219|FXYD5 ENST00000591716.6_1_19:35651643-35657154:+|nuORF ENST00000591716.6_1_19:35651643-35657154:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.7347412109375 2 500.732729 999.450904 3.3367 0.0016708 0.24719 0.00012378 3.5839 0.0017946 500.73280734488685 18.786 0.38871 19.447 19.299 19.687 0.66072 94 30 4 0 0 0 0.0080831 4 8563 8474;8522;8563;8615 85.357 34.502 1 12749000 9928 1043 6287 6304 11676;11677;11678;11679 11678 -0.04884307449719927 HPTDERVAL 9 Unmodified _HPTDERVAL_ 0 0 0 nc|ENSG00000115919|Q16719-2|KYNU;ENSG00000115919|ENST00000264170|KYNU nc|ENSG00000115919|Q16719-2|KYNU nc|ENSG00000115919|Q16719-2|KYNU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 519.2742309570312 2 519.272355 1036.53016 3.4981 0.0018165 0.59486 0.0003089 4.093 0.0021254 519.2726321459741 20.913 0.2609 21.566 21.377 21.638 0.65346 45 17 3 0 0 0 0.03963 1 9506 9506 51.63 28.894 1 911050 9929 1997 6288 6305 11680 11680 0.013353842950891703 HPTDERVAL 9 Unmodified _HPTDERVAL_ 0 0 0 nc|ENSG00000115919|Q16719-2|KYNU;ENSG00000115919|ENST00000264170|KYNU nc|ENSG00000115919|Q16719-2|KYNU nc|ENSG00000115919|Q16719-2|KYNU MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 519.272355 1036.53016 3.3305 0.0017294 0.19431 0.0001009 3.5248 0.0018303 519.2722855882673 21.933 0.33945 21.933 21.771 22.111 0 0.18331 -0.00020833 NaN 51.63 62 26 3 NaN NaN NaN NaN 0 NaN NaN 0 549730 9930 1997 6288 6305 0.013353842950891703 HPTDPSFTYK 10 Unmodified _HPTDPSFTYK_ 0 0 0 REV__nc|ENSG00000183091|P20929-4|NEB REV__nc|ENSG00000183091|P20929-4|NEB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 596.7847900390625 2 596.785296 1191.55604 NaN NaN NaN NaN NaN NaN NaN 39.928 1 40.569 40.069 41.069 0.64136 0 0 0 0.92641 1 18249 18249 17.113 3.2068 1 + 9931 13918 6289 6306 11681 11681 -0.032077662532856266 HPTDVDYRV 9 Unmodified _HPTDVDYRV_ 0 0 0 nc|ENSG00000100029|O00541-2|PES1;ENSG00000100029|ENST00000354694|PES1 nc|ENSG00000100029|O00541-2|PES1 nc|ENSG00000100029|O00541-2|PES1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.271728515625 2 551.269813 1100.52507 NaN NaN NaN NaN NaN NaN NaN 21.736 1 22.141 21.641 22.641 0.40533 0 0 0 0.088893 1 9655 9655 43.772 24.515 1 9932 1168 6290 6307 11682 11682 -0.021169195675156516 HPTDVDYRVM 10 Unmodified _HPTDVDYRVM_ 0 0 0 nc|ENSG00000100029|O00541-2|PES1;ENSG00000100029|ENST00000354694|PES1 nc|ENSG00000100029|O00541-2|PES1 nc|ENSG00000100029|O00541-2|PES1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 616.792724609375 2 616.790055 1231.56556 3.9567 0.0024405 -0.17522 -0.00010807 3.7815 0.0023324 616.7898375174011 31.11 0.29204 31.11 30.984 31.276 0 45 27 2 0 0 0 0.13313 2 14052 14052;14119 55.503 41.597 1 795530 9933 1168 6291 6308 11683;11684 11683 -0.04096321239421741 HPTDVDYRVM 10 Unmodified _HPTDVDYRVM_ 0 0 0 nc|ENSG00000100029|O00541-2|PES1;ENSG00000100029|ENST00000354694|PES1 nc|ENSG00000100029|O00541-2|PES1 nc|ENSG00000100029|O00541-2|PES1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.7913208007812 2 616.790055 1231.56556 3.472 0.0021415 -0.12599 -7.7707E-05 3.346 0.0020638 616.7900418922509 30.098 0.3895 30.887 30.732 31.122 0.78921 82 35 3 0 0 0 0.13313 3 13590 13547;13590;13645 40.239 26.333 1 833740 9934 1168 6291 6308 11685;11686;11687 11686 -0.04096321239421741 HPTDVDYRVM 10 Unmodified _HPTDVDYRVM_ 0 0 0 nc|ENSG00000100029|O00541-2|PES1;ENSG00000100029|ENST00000354694|PES1 nc|ENSG00000100029|O00541-2|PES1 nc|ENSG00000100029|O00541-2|PES1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 411.530029296875 3 411.529129 1231.56556 NaN NaN NaN NaN NaN NaN NaN 30.119 1 30.908 30.408 31.408 0.78921 0 0 0 0.91049 1 13596 13596 19.626 14.223 1 9935 1168 6291 6308 11688 11688 -0.04096321239421741 HPTDVDYRVM 10 Unmodified _HPTDVDYRVM_ 0 0 0 nc|ENSG00000100029|O00541-2|PES1;ENSG00000100029|ENST00000354694|PES1 nc|ENSG00000100029|O00541-2|PES1 nc|ENSG00000100029|O00541-2|PES1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 616.7935791015625 2 616.790055 1231.56556 4.0512 0.0024988 0.15831 9.7644E-05 4.2095 0.0025964 616.7900079163289 30.864 0.34072 31.12 30.983 31.324 0.25614 64 37 2 0 0 0 0.42358 3 14027 14027;14072;14125 33.445 24.062 1 656480 9936 1168 6291 6308 11689;11690;11691 11689 -0.04096321239421741 HPTDVDYRVM 10 Unmodified _HPTDVDYRVM_ 0 0 0 nc|ENSG00000100029|O00541-2|PES1;ENSG00000100029|ENST00000354694|PES1 nc|ENSG00000100029|O00541-2|PES1 nc|ENSG00000100029|O00541-2|PES1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 616.792236328125 2 616.790055 1231.56556 3.6166 0.0022307 0.22603 0.00013942 3.8426 0.0023701 616.790353678944 30.467 0.27707 31.084 30.993 31.27 0.61737 44 22 3 0 0 0 0.23581 2 14003 13959;14003 40.239 30.856 1 804820 9937 1168 6291 6308 11692;11693 11693 -0.04096321239421741 HPTERCFVF 9 Carbamidomethyl (C) _HPTERC(Carbamidomethyl (C))FVF_ HPTERC(1)FVF HPTERC(63)FVF 0 1 0 nc|ENSG00000100243|P00387-2|CYB5R3;ENSG00000100243|ENST00000352397|CYB5R3;nc|ENSG00000100243|P00387-3|CYB5R3;ENST00000470741.1_1_22:43015781-43027088:-|nuORF nc|ENSG00000100243|P00387-2|CYB5R3 nc|ENSG00000100243|P00387-2|CYB5R3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.783935546875 2 596.782033 1191.54951 NaN NaN NaN NaN NaN NaN NaN 40.333 1 40.333 39.833 40.833 0 0 0 0 0.026167 1 18305 18305 62.573 39.836 1 9938 1195 6292 6309 11694 11694 26 -0.03859982685639807 HPTERCFVF 9 Carbamidomethyl (C) _HPTERC(Carbamidomethyl (C))FVF_ HPTERC(1)FVF HPTERC(72)FVF 0 1 0 nc|ENSG00000100243|P00387-2|CYB5R3;ENSG00000100243|ENST00000352397|CYB5R3;nc|ENSG00000100243|P00387-3|CYB5R3;ENST00000470741.1_1_22:43015781-43027088:-|nuORF nc|ENSG00000100243|P00387-2|CYB5R3 nc|ENSG00000100243|P00387-2|CYB5R3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.7838745117188 2 596.782033 1191.54951 NaN NaN NaN NaN NaN NaN NaN 40.458 1 40.458 39.958 40.958 0 0 0 0 0.020959 1 18362 18362 71.922 35.795 1 9939 1195 6292 6309 11695 11695 26 -0.03859982685639807 HPTERCFVF 9 Carbamidomethyl (C) _HPTERC(Carbamidomethyl (C))FVF_ HPTERC(1)FVF HPTERC(72)FVF 0 1 0 nc|ENSG00000100243|P00387-2|CYB5R3;ENSG00000100243|ENST00000352397|CYB5R3;nc|ENSG00000100243|P00387-3|CYB5R3;ENST00000470741.1_1_22:43015781-43027088:-|nuORF nc|ENSG00000100243|P00387-2|CYB5R3 nc|ENSG00000100243|P00387-2|CYB5R3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 596.783935546875 2 596.782033 1191.54951 3.5261 0.0021043 -0.03346 -1.9968E-05 3.4927 0.0020844 596.7819529715063 39.215 0.45608 40.013 39.776 40.232 0.79762 55 21 3 0 0 0 0.017293 3 17739 17693;17739;17793 71.922 42.841 1 2064400 9940 1195 6292 6309 11696;11697;11698 11697 26 -0.03859982685639807 HPTERCFVF 9 Carbamidomethyl (C) _HPTERC(Carbamidomethyl (C))FVF_ HPTERC(1)FVF HPTERC(72)FVF 0 1 0 nc|ENSG00000100243|P00387-2|CYB5R3;ENSG00000100243|ENST00000352397|CYB5R3;nc|ENSG00000100243|P00387-3|CYB5R3;ENST00000470741.1_1_22:43015781-43027088:-|nuORF nc|ENSG00000100243|P00387-2|CYB5R3 nc|ENSG00000100243|P00387-2|CYB5R3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 596.7849731445312 2 596.782033 1191.54951 3.8938 0.0023238 0.004031 2.4056E-06 3.8979 0.0023262 596.7820584628585 40.292 0.39976 40.559 40.357 40.757 0.26696 29 13 3 0 0 0 0.017293 1 18316 18316 71.922 42.841 1 2162600 9941 1195 6292 6309 11699 11699 26 -0.03859982685639807 HPTERCFVF 9 Carbamidomethyl (C) _HPTERC(Carbamidomethyl (C))FVF_ HPTERC(1)FVF HPTERC(79)FVF 0 1 0 nc|ENSG00000100243|P00387-2|CYB5R3;ENSG00000100243|ENST00000352397|CYB5R3;nc|ENSG00000100243|P00387-3|CYB5R3;ENST00000470741.1_1_22:43015781-43027088:-|nuORF nc|ENSG00000100243|P00387-2|CYB5R3 nc|ENSG00000100243|P00387-2|CYB5R3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 596.7846069335938 2 596.782033 1191.54951 4.2495 0.002536 -0.65346 -0.00038997 3.5961 0.0021461 596.7817503579097 39.769 0.33258 40.41 40.236 40.569 0.64136 36 14 3 0 0 0 0.012326 2 18193 18147;18193 78.728 49.646 1 1702900 9942 1195 6292 6309 11700;11701 11701 26 -0.03859982685639807 HPTEVLCLM 9 Carbamidomethyl (C) _HPTEVLC(Carbamidomethyl (C))LM_ HPTEVLC(1)LM HPTEVLC(82)LM 0 1 0 nc|ENSG00000063244|P26368-2|U2AF2;ENSG00000063244|ENST00000308924|U2AF2 nc|ENSG00000063244|P26368-2|U2AF2 nc|ENSG00000063244|P26368-2|U2AF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.2680053710938 2 550.26737 1098.52019 2.932 0.0016134 -0.78229 -0.00043047 2.1497 0.0011829 550.768032268186 59.013 0.2636 59.772 59.717 59.981 0.75894 27 20 2 0 0 0 0.010037 1 27132 27132 81.864 45.82 1 1152800 9943 659 6293 6310 11702 11702 11 -0.02513263026162349 HPTEVLCLM 9 Carbamidomethyl (C) _HPTEVLC(Carbamidomethyl (C))LM_ HPTEVLC(1)LM HPTEVLC(82)LM 0 1 0 nc|ENSG00000063244|P26368-2|U2AF2;ENSG00000063244|ENST00000308924|U2AF2 nc|ENSG00000063244|P26368-2|U2AF2 nc|ENSG00000063244|P26368-2|U2AF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.2694702148438 2 550.26737 1098.52019 3.5959 0.0019787 0.2859 0.00015732 3.8818 0.002136 550.26735343365 59.92 0.29073 60.179 60.045 60.335 0.2593 18 12 2 0 0 0 0.010037 1 27449 27449 81.864 47.677 1 456930 9944 659 6293 6310 11703 11703 11 -0.02513263026162349 HPTEVLCLM 9 Carbamidomethyl (C) _HPTEVLC(Carbamidomethyl (C))LM_ HPTEVLC(1)LM HPTEVLC(71)LM 0 1 0 nc|ENSG00000063244|P26368-2|U2AF2;ENSG00000063244|ENST00000308924|U2AF2 nc|ENSG00000063244|P26368-2|U2AF2 nc|ENSG00000063244|P26368-2|U2AF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.2691650390625 2 550.26737 1098.52019 NaN NaN NaN NaN NaN NaN NaN 59.333 1 59.999 59.499 60.499 0.66552 0 0 0 0.021631 1 27162 27162 70.716 26.309 1 9945 659 6293 6310 11704 11704 11 -0.02513263026162349 HPTEVLCLM 9 Carbamidomethyl (C) _HPTEVLC(Carbamidomethyl (C))LM_ 0 1 0 nc|ENSG00000063244|P26368-2|U2AF2;ENSG00000063244|ENST00000308924|U2AF2 nc|ENSG00000063244|P26368-2|U2AF2 nc|ENSG00000063244|P26368-2|U2AF2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 550.26737 1098.52019 3.5401 0.001948 0.25717 0.00014151 3.7973 0.0020895 550.2671803125891 59.619 0.13924 60.284 60.228 60.367 0.66503 0.052435 -1.7565E-05 NaN 81.864 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 311750 9946 659 6293 6310 11 -0.02513263026162349 HPTGKMFIL 9 Unmodified _HPTGKMFIL_ 0 0 0 ENSG00000106399|ENST00000223129|RPA3;ENST00000462723.1_1_7:7678661-7680049:-|nuORF;ENST00000463632.1_1_7:7678661-7680452:-|nuORF ENSG00000106399|ENST00000223129|RPA3 ENSG00000106399|ENST00000223129|RPA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.2913818359375 2 522.288963 1042.56337 3.1169 0.0016279 0.041296 2.1568E-05 3.1582 0.0016495 522.289207740274 48.001 0.33997 48.001 47.852 48.192 0 34 14 3 0 0 0 0.048676 2 21970 21970;22014 47.749 22.349 1 1016400 9947 1569 6294 6311 11705;11706 11705 0.04379294813429624 HPTGKMFIL 9 Unmodified _HPTGKMFIL_ 0 0 0 ENSG00000106399|ENST00000223129|RPA3;ENST00000462723.1_1_7:7678661-7680049:-|nuORF;ENST00000463632.1_1_7:7678661-7680452:-|nuORF ENSG00000106399|ENST00000223129|RPA3 ENSG00000106399|ENST00000223129|RPA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.2909545898438 2 522.288963 1042.56337 3.2513 0.0016981 -0.17054 -8.907E-05 3.0807 0.001609 522.2889774307467 46.85 0.36107 47.679 47.528 47.889 0.82915 28 16 3 0 0 0 0.014491 1 21351 21351 75.761 39.634 1 909230 9948 1569 6294 6311 11707 11707 0.04379294813429624 HPTGKMFIL 9 Unmodified _HPTGKMFIL_ 0 0 0 ENSG00000106399|ENST00000223129|RPA3;ENST00000462723.1_1_7:7678661-7680049:-|nuORF;ENST00000463632.1_1_7:7678661-7680452:-|nuORF ENSG00000106399|ENST00000223129|RPA3 ENSG00000106399|ENST00000223129|RPA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.2909545898438 2 522.288963 1042.56337 3.5801 0.0018699 -0.3185 -0.00016635 3.2616 0.0017035 522.2888831262972 47.863 0.24637 48.127 48.019 48.265 0.26363 23 10 3 0 0 0 0.10837 1 21861 21861 30.637 8.8899 1 483520 9949 1569 6294 6311 11708 11708 0.04379294813429624 HPTGKMFIL 9 Unmodified _HPTGKMFIL_ 0 0 0 ENSG00000106399|ENST00000223129|RPA3;ENST00000462723.1_1_7:7678661-7680049:-|nuORF;ENST00000463632.1_1_7:7678661-7680452:-|nuORF ENSG00000106399|ENST00000223129|RPA3 ENSG00000106399|ENST00000223129|RPA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.290771484375 2 522.288963 1042.56337 3.2991 0.0017231 -0.04945 -2.5827E-05 3.2496 0.0016972 522.2888140914627 47.105 0.3149 47.757 47.7 48.015 0.65219 26 15 2 0 0 0 0.27958 1 21595 21595 18.146 3.5647 1 647760 9950 1569 6294 6311 11709 11709 0.04379294813429624 HPTHEWQAL 9 Unmodified _HPTHEWQAL_ 0 0 0 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.5564575195312 2 559.772522 1117.53049 3.7624 0.0021061 0.54762 0.00030654 4.31 0.0024126 559.7728659115982 28.829 0.21883 28.829 28.764 28.983 0 31 19 2 0 0 0 0.072475 1 13040 13040 24.021 10.978 1 400840 9951 2211 6295 6312 11710 11710 -0.023571959850414714 HPTHEWQAL 9 Unmodified _HPTHEWQAL_ 0 0 0 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.7755737304688 2 559.772522 1117.53049 3.4081 0.0019078 0.42638 0.00023868 3.8345 0.0021465 559.7726333464898 27.86 0.27593 28.647 28.508 28.784 0.78627 44 24 2 0 0 0 0.038142 1 12530 12530 52.268 31.815 1 384880 9952 2211 6295 6312 11711 11711 -0.023571959850414714 HPTHEWQAL 9 Unmodified _HPTHEWQAL_ 0 0 0 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.7758178710938 2 559.772522 1117.53049 NaN NaN NaN NaN NaN NaN NaN 28.866 1 29.127 28.627 29.627 0.2602 0 0 0 0.11997 1 13134 13134 37.974 19.839 1 9953 2211 6295 6312 11712 11712 -0.023571959850414714 HPTHEWQAL 9 Unmodified _HPTHEWQAL_ 0 0 0 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.7760009765625 2 559.772522 1117.53049 NaN NaN NaN NaN NaN NaN NaN 28.983 1 29.243 28.743 29.743 0.2602 0 0 0 0.49214 1 13189 13189 19.257 6.7254 1 9954 2211 6295 6312 11713 11713 -0.023571959850414714 HPTHEWQAL 9 Unmodified _HPTHEWQAL_ 0 0 0 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.77490234375 2 559.772522 1117.53049 3.4911 0.0019542 -0.22505 -0.00012598 3.266 0.0018282 559.7722861036915 28.449 0.38431 29.069 28.937 29.321 0.61947 39 21 2 0 0 0 0.10169 2 13087 13026;13087 32.305 17.467 1 233800 9955 2211 6295 6312 11714;11715 11715 -0.023571959850414714 HPTSGVIVL 9 Unmodified _HPTSGVIVL_ 0 0 0 ENSG00000083857|ENST00000441802|FAT1;FAT1|p.S1928Lfs*17|1|0.08|ENSG00000083857|chr4:186620804-186620804|A/-|frameshift_variant ENSG00000083857|ENST00000441802|FAT1 ENSG00000083857|ENST00000441802|FAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 462.28912353515625 2 461.77146 921.528367 2.793 0.0012897 -0.67397 -0.00031122 2.1191 0.00097852 461.77152842497463 48.756 0.2313 48.756 48.665 48.896 0 18 13 2 0 0 0 0.18075 1 22368 22368 24.674 2.9272 1 334510 9956 946 6296 6313 11716 11716 0.064463752771303 HPTSGVIVL 9 Unmodified _HPTSGVIVL_ 0 0 0 ENSG00000083857|ENST00000441802|FAT1;FAT1|p.S1928Lfs*17|1|0.08|ENSG00000083857|chr4:186620804-186620804|A/-|frameshift_variant ENSG00000083857|ENST00000441802|FAT1 ENSG00000083857|ENST00000441802|FAT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 461.77146 921.528367 2.6878 0.0012412 -1.0172 -0.00046971 1.6707 0.00077146 461.77160500270986 47.719 0.23455 48.548 48.407 48.642 0.82915 -0.1039 -0.00020708 NaN 24.674 13 10 2 NaN NaN NaN NaN 0 NaN NaN 0 212530 9957 946 6296 6313 0.064463752771303 HPVAGQDAGL 10 Unmodified _HPVAGQDAGL_ 0 0 0 REV__ENST00000492877.1_1_1:28210997-28211207:+|nuORF REV__ENST00000492877.1_1_1:28210997-28211207:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.747802734375 2 482.745973 963.477394 3.1732 0.0015318 -1.0919 -0.00052709 2.0813 0.0010047 482.74545419975334 29.641 0.38103 30.259 30.054 30.435 0.61789 48 22 3 0 0 0 0.81125 1 13532 13532 7.9102 0.62092 1 379500 + 9958 16811 6297 6314 11717 11717 -0.0058057376772922 HPVDVSFGDLL 11 Unmodified _HPVDVSFGDLL_ 0 0 0 nc|ENSG00000145730|P19021-2|PAM;nc|ENSG00000145730|P19021-4|PAM;nc|ENSG00000145730|P19021-3|PAM;PAM|p.F927Lfs*11|1|0.07|ENSG00000145730|chr5:103028923-103028924|-/AAATGATAAAGTCAGAAGG|frameshift_variant;nc|ENSG00000145730|P19021-6|PAM;ENSG00000145730|ENST00000438793|PAM;nc|ENSG00000145730|P19021-5|PAM;PAM|p.L580Cfs*5|1|0.35|ENSG00000145730|chr5:103005161-103005161|T/-|frameshift_variant nc|ENSG00000145730|P19021-2|PAM nc|ENSG00000145730|P19021-2|PAM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 599.8101806640625 2 599.808771 1197.60299 2.7915 0.0016744 -0.62935 -0.00037749 2.1622 0.0012969 599.8083707652052 75.628 0.20966 75.628 75.565 75.775 0 36 20 2 0 0 0 5.4432E-05 3 37076 37076;37089;37113 92.491 54.517 1 1254000 9959 3484 6298 6315 11718;11719;11720 11718 0.01209093297848085 HPVDVSFGDLL 11 Unmodified _HPVDVSFGDLL_ 0 0 0 nc|ENSG00000145730|P19021-2|PAM;nc|ENSG00000145730|P19021-4|PAM;nc|ENSG00000145730|P19021-3|PAM;PAM|p.F927Lfs*11|1|0.07|ENSG00000145730|chr5:103028923-103028924|-/AAATGATAAAGTCAGAAGG|frameshift_variant;nc|ENSG00000145730|P19021-6|PAM;ENSG00000145730|ENST00000438793|PAM;nc|ENSG00000145730|P19021-5|PAM;PAM|p.L580Cfs*5|1|0.35|ENSG00000145730|chr5:103005161-103005161|T/-|frameshift_variant nc|ENSG00000145730|P19021-2|PAM nc|ENSG00000145730|P19021-2|PAM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 600.1654052734375 2 599.808771 1197.60299 3.4527 0.0020709 -0.19133 -0.00011476 3.2613 0.0019562 599.8088975610181 75.52 0.26835 75.777 75.636 75.904 0.25704 43 24 2 0 0 0 1.5936E-06 3 34714 34714;34719;34771 103.75 59.976 1 1232300 9960 3484 6298 6315 11721;11722;11723 11721 0.01209093297848085 HPVDVSFGDLL 11 Unmodified _HPVDVSFGDLL_ 0 0 0 nc|ENSG00000145730|P19021-2|PAM;nc|ENSG00000145730|P19021-4|PAM;nc|ENSG00000145730|P19021-3|PAM;PAM|p.F927Lfs*11|1|0.07|ENSG00000145730|chr5:103028923-103028924|-/AAATGATAAAGTCAGAAGG|frameshift_variant;nc|ENSG00000145730|P19021-6|PAM;ENSG00000145730|ENST00000438793|PAM;nc|ENSG00000145730|P19021-5|PAM;PAM|p.L580Cfs*5|1|0.35|ENSG00000145730|chr5:103005161-103005161|T/-|frameshift_variant nc|ENSG00000145730|P19021-2|PAM nc|ENSG00000145730|P19021-2|PAM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 599.809326171875 2 599.808771 1197.60299 3.5173 0.0021097 -0.13665 -8.1965E-05 3.3807 0.0020278 599.8086278161934 74.993 0.33337 75.657 75.494 75.828 0.6644 51 26 3 0 0 0 5.4432E-05 2 34539 34492;34539 92.491 55.985 1 1065000 9961 3484 6298 6315 11724;11725 11725 0.01209093297848085 HPVGEASIL 9 Unmodified _HPVGEASIL_ 0 0 0 ENSG00000085760|ENST00000263629|MTIF2 ENSG00000085760|ENST00000263629|MTIF2 ENSG00000085760|ENST00000263629|MTIF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 461.7553405761719 2 461.753267 921.491981 2.7886 0.0012877 0.4695 0.00021679 3.2581 0.0015045 461.7534170877758 38.762 0.30554 38.762 38.636 38.942 0 20 12 2 0 0 0 0.056465 1 17595 17595 44.407 0 1 297060 9962 974 6299 6316 11726 11726 0.028094983804294316 HPVGEASIL 9 Unmodified _HPVGEASIL_ 0 0 0 ENSG00000085760|ENST00000263629|MTIF2 ENSG00000085760|ENST00000263629|MTIF2 ENSG00000085760|ENST00000263629|MTIF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 461.75604248046875 2 461.753267 921.491981 2.7064 0.0012497 1.5233 0.0007034 4.2297 0.0019531 461.75376640673875 37.975 0.3493 38.609 38.438 38.787 0.63388 17 12 2 0 0 0 0.056465 1 17370 17370 44.407 0 1 237180 9963 974 6299 6316 11727 11727 0.028094983804294316 HPVGEASIL 9 Unmodified _HPVGEASIL_ 0 0 0 ENSG00000085760|ENST00000263629|MTIF2 ENSG00000085760|ENST00000263629|MTIF2 ENSG00000085760|ENST00000263629|MTIF2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 461.753267 921.491981 2.7673 0.0012778 0.89908 0.00041516 3.6664 0.001693 461.7536108387413 37.806 0.26997 38.601 38.452 38.722 0.79552 -0.056126 1.1282E-05 NaN 44.407 14 10 3 NaN NaN NaN NaN 0 NaN NaN 0 191630 9964 974 6299 6316 0.028094983804294316 HPVHPDIKL 9 Unmodified _HPVHPDIKL_ 0 0 0 nc|ENSG00000033800|O75925-3|PIAS1;ENSG00000033800|ENST00000249636|PIAS1;nc|ENSG00000033800|O75925-2|PIAS1 nc|ENSG00000033800|O75925-3|PIAS1 nc|ENSG00000033800|O75925-3|PIAS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.5388488769531 3 352.538064 1054.59236 2.6996 0.00095171 -0.25357 -8.9394E-05 2.446 0.00086231 352.5379828987148 27.099 0.40827 27.099 26.902 27.31 0 81 24 4 0 0 0 0.0028306 3 12157 12157;12212;12254 79.596 37.641 1 8672800 9965 505 6300 6317 11728;11729;11730 11728 0.06725155434082808 HPVHPDIKL 9 Unmodified _HPVHPDIKL_ 0 0 0 nc|ENSG00000033800|O75925-3|PIAS1;ENSG00000033800|ENST00000249636|PIAS1;nc|ENSG00000033800|O75925-2|PIAS1 nc|ENSG00000033800|O75925-3|PIAS1 nc|ENSG00000033800|O75925-3|PIAS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.8054809570312 2 528.303458 1054.59236 3.3049 0.001746 0.40872 0.00021593 3.7136 0.0019619 528.3033809621184 27.084 0.23535 27.084 26.953 27.188 0 25 13 2 0 0 0 0.048676 1 12191 12191 47.749 18.667 1 359170 9966 505 6300 6317 11731 11731 0.06725155434082808 HPVHPDIKL 9 Unmodified _HPVHPDIKL_ 0 0 0 nc|ENSG00000033800|O75925-3|PIAS1;ENSG00000033800|ENST00000249636|PIAS1;nc|ENSG00000033800|O75925-2|PIAS1 nc|ENSG00000033800|O75925-3|PIAS1 nc|ENSG00000033800|O75925-3|PIAS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 352.5388488769531 3 352.538064 1054.59236 2.2998 0.00081077 0.1253 4.4173E-05 2.4251 0.00085495 352.5381278566192 26.163 0.43541 26.932 26.711 27.147 0.76891 101 32 4 0 0 0 0.0063542 2 11744 11694;11744 80.676 41.463 1 7361100 9967 505 6300 6317 11732;11733 11733 0.06725155434082808 HPVHPDIKL 9 Unmodified _HPVHPDIKL_ 0 0 0 nc|ENSG00000033800|O75925-3|PIAS1;ENSG00000033800|ENST00000249636|PIAS1;nc|ENSG00000033800|O75925-2|PIAS1 nc|ENSG00000033800|O75925-3|PIAS1 nc|ENSG00000033800|O75925-3|PIAS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.5392761230469 3 352.538064 1054.59236 2.5387 0.00089499 -0.18805 -6.6297E-05 2.3507 0.0008287 352.538099366852 26.767 0.3757 27.032 26.813 27.189 0.26489 114 24 7 0 0 0 0.0028306 2 12185 12137;12185 86.332 44.376 1 9775100 9968 505 6300 6317 11734;11735 11735 0.06725155434082808 HPVHPDIKL 9 Unmodified _HPVHPDIKL_ 0 0 0 nc|ENSG00000033800|O75925-3|PIAS1;ENSG00000033800|ENST00000249636|PIAS1;nc|ENSG00000033800|O75925-2|PIAS1 nc|ENSG00000033800|O75925-3|PIAS1 nc|ENSG00000033800|O75925-3|PIAS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.3057861328125 2 528.303458 1054.59236 3.2382 0.0017107 0.60116 0.00031759 3.8393 0.0020283 528.3036631556047 26.771 0.22089 27.036 26.898 27.119 0.26489 22 13 2 0 0 0 0.023321 1 12170 12170 63.961 22.121 1 514690 9969 505 6300 6317 11736 11736 0.06725155434082808 HPVHPDIKL 9 Unmodified _HPVHPDIKL_ 0 0 0 nc|ENSG00000033800|O75925-3|PIAS1;ENSG00000033800|ENST00000249636|PIAS1;nc|ENSG00000033800|O75925-2|PIAS1 nc|ENSG00000033800|O75925-3|PIAS1 nc|ENSG00000033800|O75925-3|PIAS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.53900146484375 3 352.538064 1054.59236 2.3632 0.0008331 -0.059093 -2.0833E-05 2.3041 0.00081227 352.5381127724791 26.405 0.37803 27.03 26.817 27.195 0.62505 82 19 6 0 0 0 0.0024241 2 12078 12078;12127 90.135 39.268 1 8367900 9970 505 6300 6317 11737;11738 11737 0.06725155434082808 HPVHPDIKL 9 Unmodified _HPVHPDIKL_ 0 0 0 nc|ENSG00000033800|O75925-3|PIAS1;ENSG00000033800|ENST00000249636|PIAS1;nc|ENSG00000033800|O75925-2|PIAS1 nc|ENSG00000033800|O75925-3|PIAS1 nc|ENSG00000033800|O75925-3|PIAS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.3058471679688 2 528.303458 1054.59236 3.1777 0.0016788 0.31151 0.00016457 3.4893 0.0018434 528.3032601662869 26.368 0.20036 26.993 26.888 27.088 0.62505 26 10 3 0 0 0 0.02631 1 12094 12094 60.074 22.1 1 353890 9971 505 6300 6317 11739 11739 0.06725155434082808 HPVHPDIKL 9 Unmodified _HPVHPDIKL_ 0 0 0 nc|ENSG00000033800|O75925-3|PIAS1;ENSG00000033800|ENST00000249636|PIAS1;nc|ENSG00000033800|O75925-2|PIAS1 nc|ENSG00000033800|O75925-3|PIAS1 nc|ENSG00000033800|O75925-3|PIAS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 528.303458 1054.59236 3.1072 0.0016415 0.94729 0.00050045 4.0545 0.002142 528.3036548616356 26.191 0.21141 26.969 26.83 27.041 0.7787 -0.051118 0.00034958 NaN 63.961 22 14 2 NaN NaN NaN NaN 0 NaN NaN 0 284920 9972 505 6300 6317 0.06725155434082808 HPVKIGDLF 9 Unmodified _HPVKIGDLF_ 0 0 0 ENSG00000135250|ENST00000393651|SRPK2;nc|ENSG00000135250|P78362|SRPK2;ENST00000476117.1_1_7:104800923-104844162:-|nuORF ENSG00000135250|ENST00000393651|SRPK2 ENSG00000135250|ENST00000393651|SRPK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.294189453125 2 513.292559 1024.57057 3.341 0.0017149 -0.16935 -8.6928E-05 3.1716 0.001628 513.2925331471621 53.133 0.44079 53.133 52.895 53.336 0 57 24 4 0 0 0 0.004576 2 24348 24297;24348 92.653 50.814 1 4264000 9973 2858 6301 6318 11740;11741 11741 0.059263506854904335 HPVKIGDLF 9 Unmodified _HPVKIGDLF_ 0 0 0 ENSG00000135250|ENST00000393651|SRPK2;nc|ENSG00000135250|P78362|SRPK2;ENST00000476117.1_1_7:104800923-104844162:-|nuORF ENSG00000135250|ENST00000393651|SRPK2 ENSG00000135250|ENST00000393651|SRPK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.2938232421875 2 513.292559 1024.57057 2.769 0.0014213 -0.50265 -0.00025801 2.2664 0.0011633 513.2923825430124 51.999 0.50033 52.81 52.653 53.154 0.81065 69 35 3 0 0 0 0.004576 3 23698 23648;23698;23761 92.653 50.814 1 4269400 9974 2858 6301 6318 11742;11743;11744 11743 0.059263506854904335 HPVKIGDLF 9 Unmodified _HPVKIGDLF_ 0 0 0 ENSG00000135250|ENST00000393651|SRPK2;nc|ENSG00000135250|P78362|SRPK2;ENST00000476117.1_1_7:104800923-104844162:-|nuORF ENSG00000135250|ENST00000393651|SRPK2 ENSG00000135250|ENST00000393651|SRPK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.294189453125 2 513.292559 1024.57057 3.4733 0.0017828 -0.21105 -0.00010833 3.2623 0.0016745 513.292609506248 52.804 0.57453 53.067 52.651 53.226 0.26345 48 25 3 0 0 0 0.014491 3 24129 24075;24129;24179 75.761 41.658 1 3440300 9975 2858 6301 6318 11745;11746;11747 11746 0.059263506854904335 HPVKIGDLF 9 Unmodified _HPVKIGDLF_ 0 0 0 ENSG00000135250|ENST00000393651|SRPK2;nc|ENSG00000135250|P78362|SRPK2;ENST00000476117.1_1_7:104800923-104844162:-|nuORF ENSG00000135250|ENST00000393651|SRPK2 ENSG00000135250|ENST00000393651|SRPK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.2938842773438 2 513.292559 1024.57057 3.217 0.0016513 0.23263 0.00011941 3.4496 0.0017707 513.2926122659833 52.351 0.47003 53.013 52.731 53.201 0.66198 51 19 4 0 0 0 0.021401 3 23929 23884;23929;23985 66.457 32.354 1 2320300 9976 2858 6301 6318 11748;11749;11750 11749 0.059263506854904335 HPVRLHAHP 9 Unmodified _HPVRLHAHP_ 0 0 0 REV__ENSG00000023171|ENST00000635736|GRAMD1B REV__ENSG00000023171|ENST00000635736|GRAMD1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1064.265625 1 1063.59081 1062.58353 3.414 0.0036311 -1.417 -0.0015072 1.997 0.002124 1064.592176420693 24.044 0.023174 24.044 24.028 24.052 0 6 5 2 0 0 0 0.92809 1 10808 10808 5.2307 0 1 12239000 + 9977 10269 6302 6319 11751 11751 0.05474226588239617 HPVRLHAHP 9 Unmodified _HPVRLHAHP_ 0 0 0 REV__ENSG00000023171|ENST00000635736|GRAMD1B REV__ENSG00000023171|ENST00000635736|GRAMD1B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 1063.59081 1062.58353 3.414 0.0036311 -1.417 -0.0015072 1.997 0.002124 1064.592176420693 24.044 0.023174 24.044 24.028 24.052 0 0 0 NaN 5.2307 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 12239000 + 9978 10269 6302 6319 0.05474226588239617 HPVSLEQYL 9 Unmodified _HPVSLEQYL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8;ENST00000592001.5_1_19:38865430-38871817:+|nuORF ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.2867431640625 2 543.284931 1084.55531 NaN NaN NaN NaN NaN NaN NaN 60.394 1 60.65 60.15 61.15 0.25578 0 0 0 0.025241 1 27653 27653 64.236 35.749 1 9979 1141 6303 6320 11752 11752 0.016414390976706272 HPVSLEQYL 9 Unmodified _HPVSLEQYL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8;ENST00000592001.5_1_19:38865430-38871817:+|nuORF ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.2871704101562 2 543.284931 1084.55531 3.4631 0.0018815 0.49952 0.00027138 3.9626 0.0021528 543.2849455185584 59.962 0.22818 60.627 60.418 60.646 0.66503 19 11 2 0 0 0 0.015468 2 27388 27388;27406 74.423 45.936 1 2329300 9980 1141 6303 6320 11753;11754 11753 0.016414390976706272 HPVSREWTL 9 Unmodified _HPVSREWTL_ 0 0 0 ENST00000474964.5_1_3:127323572-127340613:+|nuORF;ENSG00000073111|ENST00000265056|MCM2;ENST00000477668.5_1_3:127323572-127337961:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.7974853515625 2 562.795998 1123.57744 3.3075 0.0018614 0.18098 0.00010186 3.4885 0.0019633 562.7961661554841 35.757 0.45585 35.757 35.543 35.999 0 59 24 4 0 0 0 0.02812 2 16205 16205;16264 57.722 33.701 1 2196600 9981 802 6304 6321 11755;11756 11755 0.020596635660922402 HPVSREWTL 9 Unmodified _HPVSREWTL_ 0 0 0 ENST00000474964.5_1_3:127323572-127340613:+|nuORF;ENSG00000073111|ENST00000265056|MCM2;ENST00000477668.5_1_3:127323572-127337961:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.7981567382812 2 562.795998 1123.57744 3.2905 0.0018519 0.26268 0.00014784 3.5532 0.0019997 562.7962218135503 34.647 0.33929 35.436 35.371 35.71 0.78921 69 28 3 0 0 0 0.0079462 3 15695 15695;15745;15792 85.642 47.668 1 2757600 9982 802 6304 6321 11757;11758;11759 11757 0.020596635660922402 HPVSREWTL 9 Unmodified _HPVSREWTL_ 0 0 0 ENST00000474964.5_1_3:127323572-127340613:+|nuORF;ENSG00000073111|ENST00000265056|MCM2;ENST00000477668.5_1_3:127323572-127337961:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.7976684570312 2 562.795998 1123.57744 3.5398 0.0019922 0.3006 0.00016918 3.8404 0.0021614 562.7958939116344 35.664 0.57018 35.919 35.651 36.221 0.25524 59 20 4 0 0 0 0.0061394 4 16228 16182;16228;16288;16341 89.401 55.298 1 2210100 9983 802 6304 6321 11760;11761;11762;11763 11761 0.020596635660922402 HPVSREWTL 9 Unmodified _HPVSREWTL_ 0 0 0 ENST00000474964.5_1_3:127323572-127340613:+|nuORF;ENSG00000073111|ENST00000265056|MCM2;ENST00000477668.5_1_3:127323572-127337961:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.7984619140625 2 562.795998 1123.57744 3.6028 0.0020277 0.46626 0.00026241 4.0691 0.0022901 562.7961087110322 35.223 0.45992 35.846 35.669 36.129 0.62294 41 16 3 0 0 0 0.0061394 3 16145 16093;16145;16200 89.401 53.274 1 2671800 9984 802 6304 6321 11764;11765;11766 11765 0.020596635660922402 HPWDKRES 8 Unmodified _HPWDKRES_ 0 0 0 REV__ENST00000274498.8_1_5:142601944-142601986:+|nuORF REV__ENST00000274498.8_1_5:142601944-142601986:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.7589721679688 2 527.756872 1053.49919 3.1672 0.0016715 0.39084 0.00020627 3.558 0.0018778 527.7570428154961 15.363 1.6853 15.363 14.881 16.566 0 482 203 3 0 0 0 0.7441 1 7248 7248 2.3027 0 1 339890 + 9985 15071 6305 6322 11767 11767 -0.025417690191488873 HPWDKRES 8 Unmodified _HPWDKRES_ 0 0 0 REV__ENST00000274498.8_1_5:142601944-142601986:+|nuORF REV__ENST00000274498.8_1_5:142601944-142601986:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.75927734375 2 527.756872 1053.49919 3.1862 0.0016816 -0.20486 -0.00010811 2.9814 0.0015734 527.7567959525774 14.669 0.82561 14.895 14.719 15.545 0.22622 156 84 3 0 0 0 0.71911 1 6751 6751 4.3292 0 1 923110 + 9986 15071 6305 6322 11768 11768 -0.025417690191488873 HPWKPGGRV 9 Unmodified _HPWKPGGRV_ 0 0 0 ENST00000357681.9_1_1:203596058-203651919:+|nuORF ENST00000357681.9_1_1:203596058-203651919:+|nuORF ENST00000357681.9_1_1:203596058-203651919:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.2875366210938 2 517.288143 1032.56173 NaN NaN NaN NaN NaN NaN NaN 56.938 1 57.607 57.107 58.107 0.66829 0 0 0 0.89509 1 26051 26051 4.756 1.8668 1 9987 7181 6306 6323 11769 11769 0.046754218397154546 HPYEVAEVI 9 Unmodified _HPYEVAEVI_ 0 0 0 ENST00000465956.1_1_6:33384429-33385110:-|nuORF;nc|ENSG00000112514|O60888-3|CUTA;ENSG00000112514|ENST00000488034|CUTA;nc|ENSG00000112514|O60888-2|CUTA ENST00000465956.1_1_6:33384429-33385110:-|nuORF ENST00000465956.1_1_6:33384429-33385110:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.2709350585938 2 528.771657 1055.52876 3.2545 0.0017209 -1.8012 -0.0009524 1.4533 0.00076848 529.2710671250759 50.652 0.28198 50.652 50.485 50.767 0 44 17 3 0 0 0 0.0061269 3 23167 23152;23167;23216 89.427 45.02 1 2237100 9988 1810 6307 6324 11770;11771;11772 11771 0.003217502063534994 HPYEVAEVI 9 Unmodified _HPYEVAEVI_ 0 0 0 ENST00000465956.1_1_6:33384429-33385110:-|nuORF;nc|ENSG00000112514|O60888-3|CUTA;ENSG00000112514|ENST00000488034|CUTA;nc|ENSG00000112514|O60888-2|CUTA ENST00000465956.1_1_6:33384429-33385110:-|nuORF ENST00000465956.1_1_6:33384429-33385110:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.2720336914062 2 528.771657 1055.52876 3.2395 0.001713 -0.75728 -0.00040043 2.4823 0.0013126 528.7715082864066 49.685 0.29116 50.508 50.382 50.674 0.82285 24 16 2 0 0 0 0.018173 2 22636 22636;22687 70.716 30.758 1 996890 9989 1810 6307 6324 11773;11774 11773 0.003217502063534994 HPYEVAEVI 9 Unmodified _HPYEVAEVI_ 0 0 0 ENST00000465956.1_1_6:33384429-33385110:-|nuORF;nc|ENSG00000112514|O60888-3|CUTA;ENSG00000112514|ENST00000488034|CUTA;nc|ENSG00000112514|O60888-2|CUTA ENST00000465956.1_1_6:33384429-33385110:-|nuORF ENST00000465956.1_1_6:33384429-33385110:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.2737426757812 2 528.771657 1055.52876 3.148 0.0016645 -1.8112 -0.0009577 1.3368 0.00070685 528.7713222851987 50.461 0.32185 50.723 50.557 50.879 0.26146 40 16 3 0 0 0 0.010037 2 23079 23025;23079 81.864 41.907 1 1711300 9990 1810 6307 6324 11775;11776 11776 0.003217502063534994 HPYEVAEVI 9 Unmodified _HPYEVAEVI_ 0 0 0 ENST00000465956.1_1_6:33384429-33385110:-|nuORF;nc|ENSG00000112514|O60888-3|CUTA;ENSG00000112514|ENST00000488034|CUTA;nc|ENSG00000112514|O60888-2|CUTA ENST00000465956.1_1_6:33384429-33385110:-|nuORF ENST00000465956.1_1_6:33384429-33385110:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.7736206054688 2 528.771657 1055.52876 3.2786 0.0017336 -1.425 -0.00075351 1.8536 0.00098012 529.2719407799759 49.784 0.36456 50.441 50.277 50.642 0.65735 34 14 3 0 0 0 0.018173 2 22777 22777;22840 70.716 30.758 1 1828200 9991 1810 6307 6324 11777;11778 11777 0.003217502063534994 HPYHTEPGL 9 Unmodified _HPYHTEPGL_ 0 0 0 nc|ENSG00000214655|A7E2V4-5|ZSWIM8;ENSG00000214655|ENST00000604729|ZSWIM8;nc|ENSG00000214655|A7E2V4|ZSWIM8;nc|ENSG00000214655|A7E2V4-3|ZSWIM8;nc|ENSG00000214655|A7E2V4-4|ZSWIM8;nc|ENSG00000214655|A7E2V4-2|ZSWIM8;ENST00000603195.5_1_10:75559086-75560534:+|nuORF;ENST00000433366.6_1_10:75557251-75561274:+|nuORF nc|ENSG00000214655|A7E2V4-5|ZSWIM8 nc|ENSG00000214655|A7E2V4-5|ZSWIM8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.7562255859375 2 525.753798 1049.49304 3.1431 0.0016525 0.44187 0.00023231 3.5849 0.0018848 525.7539378913348 17.803 0.51458 18.105 17.771 18.285 0.30159 46 39 2 0 0 0 0.7295 1 8038 8038 8.5933 1.8701 1 102070 9992 6116 6308 6325 11779 11779 -0.029722872506681597 HPYPHNHYM 9 Unmodified _HPYPHNHYM_ 0 0 0 nc|ENSG00000164442|Q99967-2|CITED2;ENSG00000164442|ENST00000367651|CITED2 nc|ENSG00000164442|Q99967-2|CITED2 nc|ENSG00000164442|Q99967-2|CITED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.1758117675781 3 399.174909 1194.5029 2.7383 0.0010931 -0.26049 -0.00010398 2.4778 0.00098909 399.1748740211155 12.911 0.29781 12.911 12.806 13.103 0 39 14 4 0 0 0 0.00073782 2 5638 5638;5685 99.799 86.28 1 4550200 9993 4316 6309 6326 11780;11781 11780 -0.08657422516967017 HPYPHNHYM 9 Unmodified _HPYPHNHYM_ 0 0 0 nc|ENSG00000164442|Q99967-2|CITED2;ENSG00000164442|ENST00000367651|CITED2 nc|ENSG00000164442|Q99967-2|CITED2 nc|ENSG00000164442|Q99967-2|CITED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.1755676269531 3 399.174909 1194.5029 2.1705 0.00086642 -0.2084 -8.3188E-05 1.9621 0.00078323 399.509242588102 12.606 0.11178 12.868 12.826 12.938 0.26154 25 12 3 0 0 0 0.0012644 1 5471 5471 107.19 92.23 1 7550600 9994 4316 6309 6326 11782 11782 -0.08657422516967017 HPYPHNHYM 9 Unmodified _HPYPHNHYM_ 0 0 0 nc|ENSG00000164442|Q99967-2|CITED2;ENSG00000164442|ENST00000367651|CITED2 nc|ENSG00000164442|Q99967-2|CITED2 nc|ENSG00000164442|Q99967-2|CITED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.1757507324219 3 399.174909 1194.5029 2.2765 0.00090873 -0.46758 -0.00018665 1.8089 0.00072209 399.17487194953935 12.592 0.17507 12.899 12.848 13.023 0.30727 13 5 4 0 0 0 0.00073782 1 5692 5692 99.799 88.304 1 6849900 9995 4316 6309 6326 11783 11783 -0.08657422516967017 HPYPHNHYM 9 Unmodified _HPYPHNHYM_ 0 0 0 nc|ENSG00000164442|Q99967-2|CITED2;ENSG00000164442|ENST00000367651|CITED2 nc|ENSG00000164442|Q99967-2|CITED2 nc|ENSG00000164442|Q99967-2|CITED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.1759948730469 3 399.174909 1194.5029 3.2535 0.0012987 -0.98023 -0.00039128 2.2732 0.00090741 399.17465830184034 12.517 0.11782 13.16 13.092 13.21 0.64272 10 3 4 0 0 0 0.035095 1 5634 5634 65.235 56.791 1 7482300 9996 4316 6309 6326 11784 11784 -0.08657422516967017 HPYQPDPKM 9 Unmodified _HPYQPDPKM_ 0 0 0 ENSG00000141582|ENST00000269397|CBX4 ENSG00000141582|ENST00000269397|CBX4 ENSG00000141582|ENST00000269397|CBX4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.7645263671875 2 556.763309 1111.51206 3.3592 0.0018703 0.098252 5.4703E-05 3.4575 0.001925 556.763138364238 17.454 0.77337 17.756 17.284 18.057 0.30159 114 57 3 0 0 0 0.10584 2 7903 7903;7948 31.268 21.885 1 381750 9997 3275 6310 6327 11785;11786 11785 -0.039230739512731816 HPYQPDPKM 9 Unmodified _HPYQPDPKM_ 0 0 0 ENSG00000141582|ENST00000269397|CBX4 ENSG00000141582|ENST00000269397|CBX4 ENSG00000141582|ENST00000269397|CBX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.7655029296875 2 556.763309 1111.51206 NaN NaN NaN NaN NaN NaN NaN 16.944 1 17.249 16.749 17.749 0.30438 0 0 0 0.86044 1 7673 7673 7.2892 1.5574 1 9998 3275 6310 6327 11787 11787 -0.039230739512731816 HPYQPDPKM 9 Unmodified _HPYQPDPKM_ 0 0 0 ENSG00000141582|ENST00000269397|CBX4 ENSG00000141582|ENST00000269397|CBX4 ENSG00000141582|ENST00000269397|CBX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.7657470703125 2 556.763309 1111.51206 NaN NaN NaN NaN NaN NaN NaN 17.08 1 17.385 16.885 17.885 0.30438 0 0 0 0.75166 1 7734 7734 10.824 2.9138 1 9999 3275 6310 6327 11788 11788 -0.039230739512731816 HPYQPDPKM 9 Unmodified _HPYQPDPKM_ 0 0 0 ENSG00000141582|ENST00000269397|CBX4 ENSG00000141582|ENST00000269397|CBX4 ENSG00000141582|ENST00000269397|CBX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.7647705078125 2 556.763309 1111.51206 NaN NaN NaN NaN NaN NaN NaN 17.178 1 17.482 16.982 17.982 0.30438 0 0 0 0.62812 1 7779 7779 14.838 6.9281 1 10000 3275 6310 6327 11789 11789 -0.039230739512731816 HPYQPDPKM 9 Unmodified _HPYQPDPKM_ 0 0 0 ENSG00000141582|ENST00000269397|CBX4 ENSG00000141582|ENST00000269397|CBX4 ENSG00000141582|ENST00000269397|CBX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.7642211914062 2 556.763309 1111.51206 NaN NaN NaN NaN NaN NaN NaN 17.296 1 17.6 17.1 18.1 0.30438 0 0 0 0.2842 1 7833 7833 27.629 12.791 1 10001 3275 6310 6327 11790 11790 -0.039230739512731816 HPYQPDPKM 9 Unmodified _HPYQPDPKM_ 0 0 0 ENSG00000141582|ENST00000269397|CBX4 ENSG00000141582|ENST00000269397|CBX4 ENSG00000141582|ENST00000269397|CBX4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.7647094726562 2 556.763309 1111.51206 3.5283 0.0019645 0.034872 1.9416E-05 3.5632 0.0019839 556.7630993484993 17.477 0.35683 18.137 17.895 18.252 0.66072 64 30 3 0 0 0 0.10584 2 7818 7818;7923 31.268 21.885 1 786250 10002 3275 6310 6327 11791;11792 11791 -0.039230739512731816 HPYVLTEDTL 10 Unmodified _HPYVLTEDTL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 594.3028564453125 2 594.300778 1186.587 3.4399 0.0020443 -0.34704 -0.00020625 3.0929 0.0018381 594.3006803884904 51.802 0.26263 51.802 51.624 51.886 0 41 19 3 0 0 0 0.015902 2 23671 23671;23718 85.357 53.051 1 1269200 10003 4204 6311 6328 11793;11794 11793 0.001173870609363803 HPYVLTEDTL 10 Unmodified _HPYVLTEDTL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 594.3025512695312 2 594.300778 1186.587 3.2642 0.0019399 0.13131 7.8035E-05 3.3955 0.0020179 594.300783898485 50.883 0.22615 51.701 51.557 51.783 0.81738 27 11 3 0 0 0 0.015902 2 23148 23148;23204 85.357 49.23 1 1136000 10004 4204 6311 6328 11795;11796 11795 0.001173870609363803 HPYVLTEDTL 10 Unmodified _HPYVLTEDTL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 594.30224609375 2 594.300778 1186.587 3.545 0.0021068 0.19837 0.00011789 3.7433 0.0022247 594.3005524142012 51.607 0.18913 51.869 51.761 51.95 0.26228 20 9 3 0 0 0 0.015902 1 23573 23573 85.357 47.383 1 624630 10005 4204 6311 6328 11797 11797 0.001173870609363803 HPYVLTEDTL 10 Unmodified _HPYVLTEDTL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 594.803955078125 2 594.300778 1186.587 3.7355 0.00222 -0.42586 -0.00025309 3.3097 0.0019669 594.3005496654506 51.085 0.21326 51.744 51.565 51.778 0.65956 17 9 2 0 0 0 0.17655 1 23305 23305 42.095 21.641 1 517160 10006 4204 6311 6328 11798 11798 0.001173870609363803 HPYVLTEDTL 10 Unmodified _HPYVLTEDTL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 594.3032836914062 2 594.300778 1186.587 NaN NaN NaN NaN NaN NaN NaN 51.133 1 51.792 51.292 52.292 0.65956 0 0 0 0.16647 1 23381 23381 48.346 31.233 1 10007 4204 6311 6328 11799 11799 0.001173870609363803 HPYYYERDLL 10 Unmodified _HPYYYERDLL_ 0 0 0 REV__ENST00000496527.1_1_3:184098136-184098919:+|nuORF REV__ENST00000496527.1_1_3:184098136-184098919:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 684.8357543945312 2 684.832777 1367.651 3.57 0.0024449 -0.63385 -0.00043408 2.9362 0.0020108 684.8320756334059 43.942 0.19936 44.763 44.576 44.775 0.82074 23 14 2 0 0 0 0.88655 1 19962 19962 4.3292 0 1 970050 + 10008 16850 6312 6329 11800 11800 -0.018118327820957347 HQERYCGQY 9 Unmodified _HQERYCGQY_ 0 0 0 ENST00000308020.5_1_11:460222-473945:+|nuORF ENST00000308020.5_1_11:460222-473945:+|nuORF ENST00000308020.5_1_11:460222-473945:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.2427062988281 3 395.169823 1182.48764 NaN NaN NaN NaN NaN NaN NaN 84.885 1 85.133 84.633 85.633 0.24757 0 0 0 0.90699 1 39066 39066 0.96228 0 1 10009 6848 6313 6330 11801 11801 -0.09630334104781468 HQFQRHRA 8 Unmodified _HQFQRHRA_ 0 0 0 REV__ENST00000379656.7_1_19:18124000-18124147:+|nuORF REV__ENST00000379656.7_1_19:18124000-18124147:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.2862548828125 2 540.283923 1078.55329 NaN NaN NaN NaN NaN NaN NaN 29.735 1 29.735 29.235 30.235 0 0 0 0 0.99035 1 13425 13425 0.69038 0.088878 1 + 10010 15872 6314 6331 11802 11802 0.017158679230988128 HQGRTKILH 9 Unmodified _HQGRTKILH_ 0 0 0 REV__nc|ENSG00000211731|A0A0A0MS05|TRBV5-7 REV__nc|ENSG00000211731|A0A0A0MS05|TRBV5-7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.318115234375 2 545.317432 1088.62031 3.6481 0.0019894 -1.0829 -0.00059054 2.5652 0.0013988 545.3167571998881 83.226 1.6957 83.886 83.094 84.79 0.66019 259 100 4 0 0 0 1.101 2 38514 38514;38580 2.3027 0 1 2968300 + 10011 18123 6315 6332 11803;11804 11803 0.07954478414171717 HQHLLIFRLF 10 Unmodified _HQHLLIFRLF_ 0 0 0 REV__ENSG00000164142|ENST00000435205|FHIP1A REV__ENSG00000164142|ENST00000435205|FHIP1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.69830322265625 4 331.697567 1322.76116 2.3304 0.00077299 0.45237 0.00015005 2.7828 0.00092304 331.9484052324468 48.606 0.39192 49.433 49.296 49.688 0.82705 53 22 3 0 0 0 0.94099 1 22193 22193 0.69767 0.07084 1 1798700 + 10012 13067 6316 6333 11805 11805 0.11269057067602262 HQHLLIFRLF 10 Unmodified _HQHLLIFRLF_ 0 0 0 REV__ENSG00000164142|ENST00000435205|FHIP1A REV__ENSG00000164142|ENST00000435205|FHIP1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.6980285644531 4 331.697567 1322.76116 2.5023 0.00083002 0.1545 5.1247E-05 2.6568 0.00088126 331.6974908931608 49.068 0.36253 49.329 49.199 49.562 0.26146 33 13 3 0 0 0 0.94099 1 22492 22492 0.69767 0.1345 1 1921100 + 10013 13067 6316 6333 11806 11806 0.11269057067602262 HQHLLIFRLF 10 Unmodified _HQHLLIFRLF_ 0 0 0 REV__ENSG00000164142|ENST00000435205|FHIP1A REV__ENSG00000164142|ENST00000435205|FHIP1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.698486328125 4 331.697567 1322.76116 2.3601 0.00078283 0.5063 0.00016794 2.8664 0.00095076 331.6976653133425 50.12 0.33597 50.382 50.193 50.529 0.26146 38 12 5 0 0 0 0.93503 1 22917 22917 1.9064 0.1641 1 2003700 + 10014 13067 6316 6333 11807 11807 0.11269057067602262 HQILQYHYRFA 11 Unmodified _HQILQYHYRFA_ 0 0 0 REV__ENSG00000128000|ENST00000434248|ZNF780B REV__ENSG00000128000|ENST00000434248|ZNF780B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.5913391113281 3 492.589599 1474.74697 NaN NaN NaN NaN NaN NaN NaN 84.645 1 84.645 84.145 85.145 0 0 0 0 1.0059 1 42899 42899 1.2148 0.10508 1 + 10015 11756 6317 6334 11808 11808 0.02858359848642067 HQKFHISL 8 Unmodified _HQKFHISL_ 0 0 0 ENSG00000180182|ENST00000324817|MED14 ENSG00000180182|ENST00000324817|MED14 ENSG00000180182|ENST00000324817|MED14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.1920471191406 3 337.190776 1008.5505 2.7889 0.0009404 -0.18728 -6.3151E-05 2.6017 0.00087725 337.19061341771345 32.124 0.27329 32.378 32.171 32.444 0.25452 33 15 3 0 0 0 0.5438 1 14622 14622 13.906 4.5229 1 385230 10016 5240 6318 6335 11809 11809 0.046565997455672914 HQKFHISL 8 Unmodified _HQKFHISL_ 0 0 0 ENSG00000180182|ENST00000324817|MED14 ENSG00000180182|ENST00000324817|MED14 ENSG00000180182|ENST00000324817|MED14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 337.19110107421875 3 337.190776 1008.5505 2.3132 0.00077998 0.27111 9.1417E-05 2.5843 0.0008714 337.190784643782 31.485 0.24692 32.103 31.972 32.219 0.61736 29 16 2 0 0 0 0.45037 1 14439 14439 19.257 9.8739 1 456000 10017 5240 6318 6335 11810 11810 0.046565997455672914 HQKFHISL 8 Unmodified _HQKFHISL_ 0 0 0 ENSG00000180182|ENST00000324817|MED14 ENSG00000180182|ENST00000324817|MED14 ENSG00000180182|ENST00000324817|MED14 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 337.190776 1008.5505 2.4445 0.00082426 -0.19532 -6.5862E-05 2.2492 0.0007584 337.190746064947 32.113 0.16381 32.113 31.978 32.141 0 -0.0045448 -0.00020547 NaN 19.257 18 15 2 NaN NaN NaN NaN 0 NaN NaN 0 186070 10018 5240 6318 6335 0.046565997455672914 HQKFHISL 8 Unmodified _HQKFHISL_ 0 0 0 ENSG00000180182|ENST00000324817|MED14 ENSG00000180182|ENST00000324817|MED14 ENSG00000180182|ENST00000324817|MED14 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 337.190776 1008.5505 2.406 0.00081129 0.14214 4.7928E-05 2.5482 0.00085922 337.19052869300464 31.086 0.15995 31.875 31.78 31.94 0.78879 -0.24233 0.00013589 NaN 19.257 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 150960 10019 5240 6318 6335 0.046565997455672914 HQKKNNKTK 9 Unmodified _HQKKNNKTK_ 0 0 0 REV__ENST00000399916.5_1_1:25291100-25291430:-|nuORF REV__ENST00000399916.5_1_1:25291100-25291430:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.3286743164062 2 563.327996 1124.64144 NaN NaN NaN NaN NaN NaN NaN 58.918 1 59.585 59.085 60.085 0.66703 0 0 0 0.89983 1 26969 26969 3.5965 0 1 + 10020 16037 6319 6336 11811 11811 0.08410443723028038 HQKRKKRRKRQ 11 Unmodified _HQKRKKRRKRQ_ 0 0 0 nc|ENSG00000151322|Q8IXF0-4|NPAS3;nc|ENSG00000151322|Q8IXF0-2|NPAS3;nc|ENSG00000151322|Q8IXF0-3|NPAS3;ENSG00000151322|ENST00000356141|NPAS3 nc|ENSG00000151322|Q8IXF0-4|NPAS3 nc|ENSG00000151322|Q8IXF0-4|NPAS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 774.9905395507812 2 774.99274 1547.97093 NaN NaN NaN NaN NaN NaN NaN 95.037 1 95.119 94.619 95.619 0.082001 0 0 0 1.0082 1 50148 50148 0 0 1 10021 3699 6320 6337 11812 11812 0.2188611279327688 HQKRRKLLLIL 11 Unmodified _HQKRRKLLLIL_ 0 0 0 ENST00000467796.5_1_22:51221718-51237143:+|nuORF;ENST00000480246.1_1_22:51222460-51237143:+|nuORF ENST00000467796.5_1_22:51221718-51237143:+|nuORF ENST00000467796.5_1_22:51221718-51237143:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 709.4776000976562 2 709.477537 1416.94052 NaN NaN NaN NaN NaN NaN NaN 81.561 1 81.561 81.061 82.061 0 0 0 0 1.0082 1 40648 40648 0 0 1 10022 8148 6321 6338 11813 11813 0.24872941355556577 HQKSELHQ 8 Unmodified _HQKSELHQ_ 0 0 0 REV__nc|ENSG00000172667|Q9HA38-2|ZMAT3 REV__nc|ENSG00000172667|Q9HA38-2|ZMAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.7592468261719 2 503.756872 1005.49919 3.3936 0.0017095 0.77305 0.00038943 4.1666 0.002099 503.75718708133974 20.371 0.25731 21.025 20.877 21.134 0.65346 30 19 2 0 0 0 0.74709 1 9263 9263 2.0598 0.73022 1 159740 + 10023 13557 6322 6339 11814 11814 -0.0033376901915289636 HQLRRQQLRRQ 11 Unmodified _HQLRRQQLRRQ_ 0 0 0 REV__ENSG00000106624|ENST00000223357|AEBP1 REV__ENSG00000106624|ENST00000223357|AEBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 759.9432373046875 2 759.945456 1517.87636 NaN NaN NaN NaN NaN NaN NaN 74.914 1 74.914 74.414 75.414 0 0 0 0 1.0044 1 36684 36684 4.897 3.4151 1 + 10024 11090 6323 6340 11815 11815 0.13813554251282767 HQPKHLPI 8 Unmodified _HQPKHLPI_ 0 0 0 ENST00000581487.1_1_16:66655025-66655589:-|nuORF ENST00000581487.1_1_16:66655025-66655589:-|nuORF ENST00000581487.1_1_16:66655025-66655589:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.286865234375 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 57.894 1 58.157 57.657 58.657 0.26227 0 0 0 0.99035 1 26506 26506 2.5775 0 1 10025 9151 6324 6341 11816 11816 0.07004903608185487 HQPKHLPI 8 Unmodified _HQPKHLPI_ 0 0 0 ENST00000581487.1_1_16:66655025-66655589:-|nuORF ENST00000581487.1_1_16:66655025-66655589:-|nuORF ENST00000581487.1_1_16:66655025-66655589:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.287841796875 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 69.509 1 69.763 69.263 70.263 0.25443 0 0 0 0.99035 1 31831 31831 5.7604 1.0044 1 10026 9151 6324 6341 11817 11817 0.07004903608185487 HQRLIMQS 8 Unmodified _HQRLIMQS_ 0 0 0 REV__ENST00000444292.2_1_X:95228575-95229244:-|nuORF REV__ENST00000444292.2_1_X:95228575-95229244:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1012.5368041992188 1 1012.53566 1011.52838 3.2445 0.0032851 -1.5204 -0.0015395 1.724 0.0017456 1012.5340578174546 79.955 0.20578 80.205 80.129 80.335 0.24947 19 14 2 0 0 0 0.39589 1 36817 36817 28.487 3.813 1 533160 + 10027 16369 6325 6342 11818 11818 0.02308052005503214 HQRMKKLFW 9 Unmodified _HQRMKKLFW_ 0 0 0 nc|ENSG00000116678|P48357-2|LEPR;nc|ENSG00000116678|P48357-4|LEPR;nc|ENSG00000116678|P48357-3|LEPR;ENSG00000116678|ENST00000349533|LEPR;ENST00000471762.1_1_1:66085660-66088754:+|nuORF nc|ENSG00000116678|P48357-2|LEPR nc|ENSG00000116678|P48357-2|LEPR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 637.3530883789062 2 637.35296 1272.69137 NaN NaN NaN NaN NaN NaN NaN 16.419 1 16.62 16.12 17.12 0.20057 0 0 0 0.91238 1 7251 7251 0.52476 0.066424 1 10028 2038 6326 6343 11819 11819 0.06592855127314579 HQRSRLLPS 9 Unmodified _HQRSRLLPS_ 0 0 0 REV__nc|ENSG00000197774|A4GXA9-2|EME2 REV__nc|ENSG00000197774|A4GXA9-2|EME2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.2127685546875 3 365.212351 1092.61522 2.6429 0.00096522 -2.1744 -0.00079413 0.46847 0.00017109 365.2120037480699 35.411 0.52491 36.038 35.771 36.296 0.62631 24 17 3 0 0 0 0.11157 1 16275 16275 4.1895 2.4472 1 1049500 + 10029 18099 6327 6344 11820 11820 0.072621745515562 HQSFFLYLL 9 Unmodified _HQSFFLYLL_ 0 0 0 nc|ENSG00000197858|O43292-2|GPAA1;ENSG00000197858|ENST00000355091|GPAA1;ENST00000531593.1_1_8:145139661-145140095:+|nuORF;ENST00000527653.1_1_8:145139258-145139832:+|nuORF;ENST00000529638.1_1_8:145139098-145139832:+|nuORF nc|ENSG00000197858|O43292-2|GPAA1 nc|ENSG00000197858|O43292-2|GPAA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.315185546875 2 584.313492 1166.61243 3.0218 0.0017657 0.4567 0.00026685 3.4785 0.0020325 584.3135580511804 80.913 0.22752 80.913 80.774 81.002 0 35 15 3 0 0 0 0.027384 1 40222 40222 58.679 1.2075 1 8248300 10030 5844 6328 6345 11821 11821 0.035789063740367055 HQSFFLYLL 9 Unmodified _HQSFFLYLL_ 0 0 0 nc|ENSG00000197858|O43292-2|GPAA1;ENSG00000197858|ENST00000355091|GPAA1;ENST00000531593.1_1_8:145139661-145140095:+|nuORF;ENST00000527653.1_1_8:145139258-145139832:+|nuORF;ENST00000529638.1_1_8:145139098-145139832:+|nuORF nc|ENSG00000197858|O43292-2|GPAA1 nc|ENSG00000197858|O43292-2|GPAA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.3146362304688 2 584.313492 1166.61243 3.2521 0.0019003 0.016496 9.6388E-06 3.2686 0.0019099 584.3133635835528 80.943 0.33256 81.191 81.044 81.376 0.24802 56 19 4 0 0 0 0.024388 1 37241 37241 62.573 14.227 1 3415300 10031 5844 6328 6345 11822 11822 0.035789063740367055 HQTTLKNWK 9 Unmodified _HQTTLKNWK_ 0 0 0 ENST00000540638.6_2_18:5433923-5434031:-|nuORF ENST00000540638.6_2_18:5433923-5434031:-|nuORF ENST00000540638.6_2_18:5433923-5434031:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.31494140625 2 578.317097 1154.61964 NaN NaN NaN NaN NaN NaN NaN 55.609 1 56.277 55.777 56.777 0.66798 0 0 0 0.88916 1 25437 25437 6.2058 1.8765 1 10032 8806 6329 6346 11823 11823 0.048516389744463595 HRDYETATL 9 Unmodified _HRDYETATL_ 0 0 0 ENST00000588618.5_1_19:39138385-39212431:+|nuORF;ACTN4|p.D874Rfs*17|1|0.4|ENSG00000130402|chr19:38729309-38729310|-/C|frameshift_variant;ENSG00000130402|ENST00000252699|ACTN4;nc|ENSG00000130402|O43707-2|ACTN4 ENST00000588618.5_1_19:39138385-39212431:+|nuORF ENST00000588618.5_1_19:39138385-39212431:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.2698364257812 2 553.26727 1104.51999 3.5535 0.001966 0.33661 0.00018623 3.8901 0.0021523 553.2673586000009 14.243 0.34968 14.243 14.163 14.512 0 73 25 4 0 0 0 0.057456 1 6307 6307 56.177 3.9087 1 13335000 10033 9 6330 6347 11824 11824 -0.028092234301539065 HRDYETATL 9 Unmodified _HRDYETATL_ 0 0 0 ENST00000588618.5_1_19:39138385-39212431:+|nuORF;ACTN4|p.D874Rfs*17|1|0.4|ENSG00000130402|chr19:38729309-38729310|-/C|frameshift_variant;ENSG00000130402|ENST00000252699|ACTN4;nc|ENSG00000130402|O43707-2|ACTN4 ENST00000588618.5_1_19:39138385-39212431:+|nuORF ENST00000588618.5_1_19:39138385-39212431:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.2685546875 2 553.26727 1104.51999 3.2742 0.0018115 -0.30013 -0.00016605 2.9741 0.0016454 553.2670705744789 13.988 0.18388 14.295 14.227 14.411 0.30727 88 34 4 0 0 0 0.057456 2 6299 6299;6340 56.177 18.203 1 48967000 10034 9 6330 6347 11825;11826 11825 -0.028092234301539065 HRDYETATL 9 Unmodified _HRDYETATL_ 0 0 0 ENST00000588618.5_1_19:39138385-39212431:+|nuORF;ACTN4|p.D874Rfs*17|1|0.4|ENSG00000130402|chr19:38729309-38729310|-/C|frameshift_variant;ENSG00000130402|ENST00000252699|ACTN4;nc|ENSG00000130402|O43707-2|ACTN4 ENST00000588618.5_1_19:39138385-39212431:+|nuORF ENST00000588618.5_1_19:39138385-39212431:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.2694702148438 2 553.26727 1104.51999 3.6338 0.0020105 0.42311 0.00023409 4.057 0.0022446 553.2675480901007 13.322 0.65291 13.965 13.769 14.422 0.64272 179 49 5 0 0 0 0.057456 2 6002 6002;6048 56.177 18.203 1 14647000 10035 9 6330 6347 11827;11828 11827 -0.028092234301539065 HRFFKNAL 8 Unmodified _HRFFKNAL_ 0 0 0 nc|ENSG00000241119|O60656-2|UGT1A9;ENSG00000241119|ENST00000354728|UGT1A9 nc|ENSG00000241119|O60656-2|UGT1A9 nc|ENSG00000241119|O60656-2|UGT1A9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 344.8638610839844 3 344.862771 1031.56648 NaN NaN NaN NaN NaN NaN NaN 22.652 1 23.239 22.739 23.739 0.58739 0 0 0 0.26755 1 10080 10080 37.974 31.251 1 10036 6222 6331 6348 11829 11829 0.051963059824629454 HRFFKNAL 8 Unmodified _HRFFKNAL_ 0 0 0 nc|ENSG00000241119|O60656-2|UGT1A9;ENSG00000241119|ENST00000354728|UGT1A9 nc|ENSG00000241119|O60656-2|UGT1A9 nc|ENSG00000241119|O60656-2|UGT1A9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 344.8634948730469 3 344.862771 1031.56648 NaN NaN NaN NaN NaN NaN NaN 22.76 1 23.348 22.848 23.848 0.58739 0 0 0 0.38365 1 10130 10130 32.305 21.506 1 10037 6222 6331 6348 11830 11830 0.051963059824629454 HRFFKNAL 8 Unmodified _HRFFKNAL_ 0 0 0 nc|ENSG00000241119|O60656-2|UGT1A9;ENSG00000241119|ENST00000354728|UGT1A9 nc|ENSG00000241119|O60656-2|UGT1A9 nc|ENSG00000241119|O60656-2|UGT1A9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.1976623535156 3 344.862771 1031.56648 NaN NaN NaN NaN NaN NaN NaN 23.339 1 23.614 23.114 24.114 0.27562 0 0 0 0.1302 1 10544 10544 46.021 31.064 1 10038 6222 6331 6348 11831 11831 0.051963059824629454 HRFFKNAL 8 Unmodified _HRFFKNAL_ 0 0 0 nc|ENSG00000241119|O60656-2|UGT1A9;ENSG00000241119|ENST00000354728|UGT1A9 nc|ENSG00000241119|O60656-2|UGT1A9 nc|ENSG00000241119|O60656-2|UGT1A9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 344.86358642578125 3 344.862771 1031.56648 2.3658 0.00081586 0.18548 6.3966E-05 2.5512 0.00087983 344.86287868458305 22.912 0.18586 23.552 23.469 23.655 0.64051 45 28 2 0 0 0 0.056325 2 10459 10413;10459 52.268 37.43 1 1769400 10039 6222 6331 6348 11832;11833 11833 0.051963059824629454 HRGALVQRD 9 Unmodified _HRGALVQRD_ 0 0 0 REV__nc|ENSG00000187260|Q86TI4-4|WDR86 REV__nc|ENSG00000187260|Q86TI4-4|WDR86 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.1977233886719 3 351.196701 1050.56827 NaN NaN NaN NaN NaN NaN NaN 27.711 1 28.33 27.83 28.83 0.61947 0 0 0 0.90431 1 12704 12704 2.4985 1.427 1 + 10040 18082 6332 6349 11834 11834 0.045013150004251656 HRGRRRRRRR 10 Unmodified _HRGRRRRRRR_ 0 0 0 REV__ENST00000288502.8_2_9:117373626-117379440:+|nuORF REV__ENST00000288502.8_2_9:117373626-117379440:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.97576904296875 3 487.973886 1460.89983 NaN NaN NaN NaN NaN NaN NaN 21.258 1 21.258 20.758 21.758 0 0 0 0 1.0018 1 9515 9515 0.15932 0 1 + 10041 15118 6333 6350 11835 11835 0.1878145759912968 HRGRRRRRRRR 11 Unmodified _HRGRRRRRRRR_ 0 0 0 REV__ENST00000288502.8_2_9:117373626-117379440:+|nuORF REV__ENST00000288502.8_2_9:117373626-117379440:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.0448608398438 3 540.00759 1617.00094 NaN NaN NaN NaN NaN NaN NaN 93.79 1 93.876 93.376 94.376 0.086212 0 0 0 1.0082 1 49219 49219 0 0 1 + 10042 15118 6334 6351 11836 11836 0.21711909301825472 HRGRRRRRRRR 11 Unmodified _HRGRRRRRRRR_ 0 0 0 REV__ENST00000288502.8_2_9:117373626-117379440:+|nuORF REV__ENST00000288502.8_2_9:117373626-117379440:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.927001953125 3 540.00759 1617.00094 NaN NaN NaN NaN NaN NaN NaN 96.372 1 96.448 95.948 96.948 0.076538 0 0 0 1.0082 1 51193 51193 0 0 1 + 10043 15118 6334 6351 11837 11837 0.21711909301825472 HRHELDTF 8 Unmodified _HRHELDTF_ 0 0 0 ENSG00000184083|ENST00000375180|FAM120C ENSG00000184083|ENST00000375180|FAM120C ENSG00000184083|ENST00000375180|FAM120C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.7587890625 2 527.756872 1053.49919 3.1672 0.0016715 0.39084 0.00020627 3.558 0.0018778 527.7570428154961 15.363 1.6853 15.363 14.881 16.566 0 482 203 3 0 0 0 0.74709 1 7324 7324 2.0598 0 1 339890 10044 5420 6335 6352 11838 11838 -0.025417690191716247 HRIAIIFIL 9 Unmodified _HRIAIIFIL_ 0 0 0 ENST00000590168.5_1_17:74467717-74469013:-|nuORF;ENSG00000129667|ENST00000675367|RHBDF2;nc|ENSG00000129667|Q6PJF5|RHBDF2 ENST00000590168.5_1_17:74467717-74469013:-|nuORF ENST00000590168.5_1_17:74467717-74469013:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 365.9073181152344 3 365.906088 1094.69644 2.1309 0.00077971 0.63333 0.00023174 2.7642 0.0010114 365.9063500322918 76.985 0.21669 76.985 76.865 77.081 0 22 14 2 0 0 0 1.0755 1 37747 37747 2.7352 0 1 1156200 10045 2560 6336 6353 11839 11839 0.15287482261601326 HRILSKRMILW 11 Unmodified _HRILSKRMILW_ 0 0 0 REV__ENSG00000102886|ENST00000406256|GDPD3 REV__ENSG00000102886|ENST00000406256|GDPD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 726.9121704101562 2 726.934648 1451.85474 NaN NaN NaN NaN NaN NaN NaN 97.527 1 98.126 97.626 98.626 0.59885 0 0 0 1.0072 1 44850 44850 1.3295 0 1 + 10046 10947 6337 6354 11840 11840 0.14689033178387945 HRKAKYLL 8 Unmodified _HRKAKYLL_ 0 0 0 ENSG00000164754|ENST00000297338|RAD21 ENSG00000164754|ENST00000297338|RAD21 ENSG00000164754|ENST00000297338|RAD21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 343.55084228515625 3 343.550304 1027.62908 2.545 0.00087434 -0.72196 -0.00024803 1.8231 0.00062631 343.55005948858786 12.813 0.14893 12.813 12.716 12.865 0 19 6 4 0 0 0 0.63902 1 5608 5608 10.824 1.28 1 3492500 10047 4342 6338 6355 11841 11841 0.11637452050649699 HRKAKYLL 8 Unmodified _HRKAKYLL_ 0 0 0 ENSG00000164754|ENST00000297338|RAD21 ENSG00000164754|ENST00000297338|RAD21 ENSG00000164754|ENST00000297338|RAD21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 343.5503845214844 3 343.550304 1027.62908 1.8678 0.00064168 -0.73692 -0.00025317 1.1309 0.00038851 343.5501574314893 12.581 0.085396 12.843 12.793 12.879 0.26154 15 10 2 0 0 0 0.47805 1 5459 5459 22.736 12.586 1 5039100 10048 4342 6338 6355 11842 11842 0.11637452050649699 HRKAKYLL 8 Unmodified _HRKAKYLL_ 0 0 0 ENSG00000164754|ENST00000297338|RAD21 ENSG00000164754|ENST00000297338|RAD21 ENSG00000164754|ENST00000297338|RAD21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.5509033203125 3 343.550304 1027.62908 1.7524 0.00060204 -0.58276 -0.00020021 1.1697 0.00040184 343.55017057695017 12.558 0.14209 12.865 12.794 12.936 0.30727 10 4 3 0 0 0 0.38743 1 5681 5681 29.082 6.3453 1 9909000 10049 4342 6338 6355 11843 11843 0.11637452050649699 HRKAKYLL 8 Unmodified _HRKAKYLL_ 0 0 0 ENSG00000164754|ENST00000297338|RAD21 ENSG00000164754|ENST00000297338|RAD21 ENSG00000164754|ENST00000297338|RAD21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.5509338378906 3 343.550304 1027.62908 2.715 0.00093276 -0.91099 -0.00031297 1.8041 0.00061978 343.54998980122906 12.517 0.11782 13.159 13.092 13.21 0.64272 10 3 4 0 0 0 0.36624 1 5623 5623 30.637 11.915 1 9771500 10050 4342 6338 6355 11844 11844 0.11637452050649699 HRKFRKRRRLF 11 Unmodified _HRKFRKRRRLF_ 0 0 0 REV__ENSG00000273514|ENST00000622588|FOXD4L6 REV__ENSG00000273514|ENST00000622588|FOXD4L6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.0823364257812 3 534.00256 1598.98585 NaN NaN NaN NaN NaN NaN NaN 72.313 1 72.313 71.813 72.813 0 0 0 0 1.0082 1 35175 35175 0.08335 0.08335 1 + 10051 14103 6339 6356 11845 11845 0.210316046612661 HRKFRKRRRLF 11 Unmodified _HRKFRKRRRLF_ 0 0 0 REV__ENSG00000273514|ENST00000622588|FOXD4L6 REV__ENSG00000273514|ENST00000622588|FOXD4L6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 800.50244140625 2 800.500201 1598.98585 NaN NaN NaN NaN NaN NaN NaN 17.039 1 17.24 16.74 17.74 0.20057 0 0 0 1.0082 1 7542 7542 0 0 1 + 10052 14103 6339 6356 11846 11846 0.210316046612661 HRKFRKRRRLF 11 Unmodified _HRKFRKRRRLF_ 0 0 0 REV__ENSG00000273514|ENST00000622588|FOXD4L6 REV__ENSG00000273514|ENST00000622588|FOXD4L6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 800.5020141601562 2 800.500201 1598.98585 NaN NaN NaN NaN NaN NaN NaN 56.087 1 56.864 56.364 57.364 0.77786 0 0 0 1.0082 1 25631 25631 0 0 1 + 10053 14103 6339 6356 11847 11847 0.210316046612661 HRKFRKRRRLF 11 Unmodified _HRKFRKRRRLF_ 0 0 0 REV__ENSG00000273514|ENST00000622588|FOXD4L6 REV__ENSG00000273514|ENST00000622588|FOXD4L6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 800.5009155273438 2 800.500201 1598.98585 NaN NaN NaN NaN NaN NaN NaN 55.068 1 55.736 55.236 56.236 0.66798 0 0 0 1.0082 1 25199 25199 0 0 1 + 10054 14103 6339 6356 11848 11848 0.210316046612661 HRLDLPALYS 10 Unmodified _HRLDLPALYS_ 0 0 0 nc|ENSG00000119778|Q9ULI0-2|ATAD2B;ENSG00000119778|ENST00000238789|ATAD2B;ENST00000474583.5_1_2:24032019-24046413:-|nuORF nc|ENSG00000119778|Q9ULI0-2|ATAD2B nc|ENSG00000119778|Q9ULI0-2|ATAD2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.55267333984375 3 395.552262 1183.63496 2.8769 0.001138 -2.0699 -0.00081874 0.80708 0.00031924 395.55142078105257 50.576 0.24487 50.837 50.777 51.021 0.26146 14 10 2 0 0 0 0.87461 1 23115 23115 2.6312 0.72486 1 407580 10055 2168 6340 6357 11849 11849 0.05048505771674172 HRLLARLIKKK 11 Unmodified _HRLLARLIKKK_ 0 0 0 L1PA2_dup678|chr2:208811622-208817648:+|1.9073773458579988|0.2448110861201761|2.96|525.0|82|2|sense L1PA2_dup678|chr2:208811622-208817648:+|1.9073773458579988|0.2448110861201761|2.96|525.0|82|2|sense L1PA2_dup678|chr2:208811622-208817648:+|1.9073773458579988|0.2448110861201761|2.96|525.0|82|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 688.469482421875 2 688.472255 1374.92996 NaN NaN NaN NaN NaN NaN NaN 67.509 1 67.759 67.259 68.259 0.2501 0 0 0 1.0082 1 30925 30925 0 0 1 10056 9463 6341 6358 11850 11850 0.2574895870106957 HRLMKHDLK 9 Unmodified _HRLMKHDLK_ 0 0 0 ENST00000517617.1_1_8:68864752-69023167:+|nuORF;nc|ENSG00000046889|Q70Z35-3|PREX2;ENST00000529398.5_1_8:68864629-69017594:+|nuORF;nc|ENSG00000046889|Q70Z35-4|PREX2;ENSG00000046889|ENST00000288368|PREX2 ENST00000517617.1_1_8:68864752-69023167:+|nuORF ENST00000517617.1_1_8:68864752-69023167:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.2279357910156 3 393.225603 1176.65498 NaN NaN NaN NaN NaN NaN NaN 103.19 1 103.51 103.01 104.01 0.31863 0 0 0 0.90699 1 47710 47710 0.96228 0 1 10057 553 6342 6359 11851 11851 0.07371978230594323 HRLRQRGLW 9 Unmodified _HRLRQRGLW_ 0 0 0 ENST00000528797.5_1_11:57413095-57413371:-|nuORF ENST00000528797.5_1_11:57413095-57413371:-|nuORF ENST00000528797.5_1_11:57413095-57413371:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.3612670898438 2 611.357422 1220.70029 3.8321 0.0023428 -1.4273 -0.0008726 2.4048 0.0014702 611.3567573465588 88.719 0.87858 88.97 88.494 89.373 0.25118 55 36 3 0 0 0 0.92809 1 40690 40690 5.2307 0.47466 1 514300 10058 8694 6343 6360 11852 11852 0.09876964808040611 HRLWRSRRRRR 11 Unmodified _HRLWRSRRRRR_ 0 0 0 ENST00000389561.6_1_12:132551999-132562003:+|nuORF ENST00000389561.6_1_12:132551999-132562003:+|nuORF ENST00000389561.6_1_12:132551999-132562003:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 817.9927368164062 2 817.993606 1633.97266 NaN NaN NaN NaN NaN NaN NaN 92.881 1 93.136 92.636 93.636 0.25497 0 0 0 1.0082 1 42692 42692 0 0 1 10059 7501 6344 6361 11853 11853 0.18103166601872545 HRNEVTVEL 9 Unmodified _HRNEVTVEL_ 0 0 0 ENSG00000102753|ENST00000261667|KPNA3 ENSG00000102753|ENST00000261667|KPNA3 ENSG00000102753|ENST00000261667|KPNA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.79296875 2 548.790912 1095.56727 3.5503 0.0019484 -0.080412 -4.413E-05 3.4699 0.0019042 548.7911364231708 30.408 0.19764 31.025 30.851 31.048 0.61737 15 10 2 0 0 0 0.17594 1 13942 13942 24.991 5.734 1 386810 10060 1352 6345 6362 11854 11854 0.023310558408638826 HRPELIEY 8 Unmodified _HRPELIEY_ 0 0 0 ENST00000588618.5_1_19:39138385-39212431:+|nuORF;ACTN4|p.D874Rfs*17|1|0.4|ENSG00000130402|chr19:38729309-38729310|-/C|frameshift_variant;ENSG00000130402|ENST00000252699|ACTN4 ENST00000588618.5_1_19:39138385-39212431:+|nuORF ENST00000588618.5_1_19:39138385-39212431:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.7786865234375 2 528.777274 1055.53999 3.3972 0.0017964 -0.30426 -0.00016089 3.093 0.0016355 528.7769918631357 32.878 0.21347 33.132 33.018 33.232 0.25389 17 8 3 0 0 0 0.38743 1 14952 14952 29.082 3.6823 1 380320 10061 9 6346 6363 11855 11855 0.01444572300465552 HRPELIEY 8 Unmodified _HRPELIEY_ 0 0 0 ENST00000588618.5_1_19:39138385-39212431:+|nuORF;ACTN4|p.D874Rfs*17|1|0.4|ENSG00000130402|chr19:38729309-38729310|-/C|frameshift_variant;ENSG00000130402|ENST00000252699|ACTN4 ENST00000588618.5_1_19:39138385-39212431:+|nuORF ENST00000588618.5_1_19:39138385-39212431:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.779052734375 2 528.777274 1055.53999 3.2131 0.001699 -0.085964 -4.5456E-05 3.1271 0.0016536 528.7775304092746 32.357 0.26211 32.975 32.807 33.069 0.61831 25 15 2 0 0 0 0.38743 2 14845 14797;14845 29.082 3.6823 1 337220 10062 9 6346 6363 11856;11857 11857 0.01444572300465552 HRPPLLVF 8 Unmodified _HRPPLLVF_ 0 0 0 nc|ENSG00000041515|Q9Y6X6|MYO16;ENSG00000041515|ENST00000457511|MYO16;nc|ENSG00000144460|Q9P242|NYAP2;ENSG00000144460|ENST00000272907|NYAP2 nc|ENSG00000041515|Q9Y6X6|MYO16 nc|ENSG00000041515|Q9Y6X6|MYO16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.79925537109375 2 489.797812 977.581071 3.0224 0.0014803 0.37002 0.00018123 3.3924 0.0016616 489.79772844065934 55.869 0.43289 56.134 55.925 56.357 0.26543 31 19 2 0 0 0 0.16336 1 25570 25570 46.921 26.05 1 1015200 10063 538 6347 6364 11858 11858 0.0913837813061491 HRPPLLVF 8 Unmodified _HRPPLLVF_ 0 0 0 nc|ENSG00000041515|Q9Y6X6|MYO16;ENSG00000041515|ENST00000457511|MYO16;nc|ENSG00000144460|Q9P242|NYAP2;ENSG00000144460|ENST00000272907|NYAP2 nc|ENSG00000041515|Q9Y6X6|MYO16 nc|ENSG00000041515|Q9Y6X6|MYO16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.7992858886719 2 489.797812 977.581071 3.17 0.0015526 1.3067 0.00064 4.4766 0.0021926 489.7980422402424 55.061 0.53479 55.729 55.413 55.948 0.66798 46 22 3 0 0 0 0.16336 1 25207 25207 46.921 20.58 1 937500 10064 538 6347 6364 11859 11859 0.0913837813061491 HRPPLLVF 8 Unmodified _HRPPLLVF_ 0 0 0 nc|ENSG00000041515|Q9Y6X6|MYO16;ENSG00000041515|ENST00000457511|MYO16;nc|ENSG00000144460|Q9P242|NYAP2;ENSG00000144460|ENST00000272907|NYAP2 nc|ENSG00000041515|Q9Y6X6|MYO16 nc|ENSG00000041515|Q9Y6X6|MYO16 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 489.797812 977.581071 3.0388 0.0014884 1.2997 0.00063658 4.3385 0.002125 489.7980513238122 56.058 0.27395 56.058 55.908 56.182 0 0.084547 0.00037141 NaN 46.921 24 18 2 NaN NaN NaN NaN 0 NaN NaN 0 373050 10065 538 6347 6364 0.0913837813061491 HRPRPWKHRRR 11 Unmodified _HRPRPWKHRRR_ 0 0 0 REV__ENST00000375640.7_1_6:31802385-31802835:+|nuORF REV__ENST00000375640.7_1_6:31802385-31802835:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 791.4607543945312 2 791.46415 1580.91375 NaN NaN NaN NaN NaN NaN NaN 82.687 1 82.732 82.232 83.232 0.045006 0 0 0 1.008 1 40865 40865 0.30703 0.30703 1 + 10066 15807 6348 6365 11860 11860 0.14652690307548255 HRQKRGWMWNQ 11 Unmodified _HRQKRGWMWNQ_ 0 0 0 ENSG00000040731|ENST00000264463|CDH10;CDH10|p.E641Rfs*18|1|0.34|ENSG00000040731|chr5:24488109-24488110|-/T|frameshift_variant ENSG00000040731|ENST00000264463|CDH10 ENSG00000040731|ENST00000264463|CDH10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 763.88134765625 2 763.880936 1525.74732 NaN NaN NaN NaN NaN NaN NaN 82.197 1 82.281 81.781 82.781 0.084106 0 0 0 1.008 1 40551 40551 0.30703 0.30703 1 10067 535 6349 6366 11861 11861 0.005474562968856844 HRQQEEQRRRE 11 Unmodified _HRQQEEQRRRE_ 0 0 0 REV__ENST00000598636.1_1_19:47725061-47730093:-|nuORF REV__ENST00000598636.1_1_19:47725061-47730093:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 776.3959350585938 2 776.395993 1550.77743 NaN NaN NaN NaN NaN NaN NaN 83.337 1 83.999 83.499 84.499 0.66219 0 0 0 1.0082 1 38384 38384 0 0 1 + 10068 11025 6350 6367 11862 11862 0.02407486495712874 HRRHYDLKIWE 11 Unmodified _HRRHYDLKIWE_ 0 0 0 REV__nc|ENSG00000164675|Q8NA54-2|IQUB REV__nc|ENSG00000164675|Q8NA54-2|IQUB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 776.91259765625 2 776.910216 1551.80588 NaN NaN NaN NaN NaN NaN NaN 63.373 1 64.031 63.531 64.531 0.65809 0 0 0 1.008 1 29040 29040 0.26902 0.26902 1 + 10069 13107 6351 6368 11863 11863 0.052048361429797296 HRRKKSKKKHK 11 Unmodified _HRRKKSKKKHK_ 0 0 0 REV__nc|ENSG00000196504|O75400-2|PRPF40A REV__nc|ENSG00000196504|O75400-2|PRPF40A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 730.6226196289062 2 730.973485 1459.93242 NaN NaN NaN NaN NaN NaN NaN 106.17 1 106.22 105.72 106.72 0.04837 0 0 0 1.008 1 57443 57443 0.26902 0 1 + 10070 14223 6352 6369 11864 11864 0.22084807158762487 HRRKRRRRRRR 11 Unmodified _HRRKRRRRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 845.0468139648438 2 845.044496 1688.07444 NaN NaN NaN NaN NaN NaN NaN 49.138 1 49.138 48.638 49.638 0 0 0 0 1.0082 1 22505 22505 0 0 1 10071 9552 6353 6370 11865 11865 0.2579245774429637 HRRKRRRRRRR 11 Unmodified _HRRKRRRRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 845.047607421875 2 845.044496 1688.07444 NaN NaN NaN NaN NaN NaN NaN 49.303 1 49.303 48.803 49.803 0 0 0 0 1.0082 1 22576 22576 0 0 1 10072 9552 6353 6370 11866 11866 0.2579245774429637 HRRKRRRRRRR 11 Unmodified _HRRKRRRRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 845.0411376953125 2 845.044496 1688.07444 NaN NaN NaN NaN NaN NaN NaN 57.442 1 57.442 56.942 57.942 0 0 0 0 1.0082 1 26477 26477 0 0 1 10073 9552 6353 6370 11867 11867 0.2579245774429637 HRRRKQERRRQ 11 Unmodified _HRRRKQERRRQ_ 0 0 0 REV__ENST00000474370.1_1_7:33138787-33148984:-|nuORF REV__ENST00000474370.1_1_7:33138787-33148984:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.8602294921875 3 535.984228 1604.93085 NaN NaN NaN NaN NaN NaN NaN 61.696 1 61.696 61.196 62.196 0 0 0 0 1.0082 1 28806 28806 0.094841 0.094841 1 + 10074 13100 6354 6371 11868 11868 0.15258566122702177 HRRRRRRRRRR 11 Unmodified _HRRRRRRRRRR_ 0 0 0 REV__ENST00000337565.9_1_2:111878510-111881339:+|nuORF REV__ENST00000337565.9_1_2:111878510-111881339:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 573.0328369140625 3 573.034139 1716.08059 NaN NaN NaN NaN NaN NaN NaN 96.884 1 96.884 96.384 97.384 0 0 0 0 1.0082 1 52563 52563 0 0 1 + 10075 15431 6355 6372 11869 11869 0.2511897597580628 HRRRRRRRRRR 11 Unmodified _HRRRRRRRRRR_ 0 0 0 REV__ENST00000337565.9_1_2:111878510-111881339:+|nuORF REV__ENST00000337565.9_1_2:111878510-111881339:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 859.0465087890625 2 859.04757 1716.08059 NaN NaN NaN NaN NaN NaN NaN 58.564 1 59.323 58.823 59.823 0.75894 0 0 0 1.0082 1 26864 26864 0 0 1 + 10076 15431 6355 6372 11870 11870 0.2511897597580628 HRRRRRRRRRV 11 Unmodified _HRRRRRRRRRV_ 0 0 0 REV__ENST00000356978.8_1_14:90863393-90866410:+|nuORF REV__ENST00000356978.8_1_14:90863393-90866410:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 830.5294189453125 2 830.531221 1659.04789 NaN NaN NaN NaN NaN NaN NaN 92.479 1 92.479 91.979 92.979 0 0 0 0 1.0082 1 49150 49150 0 0 1 + 10077 15561 6356 6373 11871 11871 0.24472768852956506 HRRRSSRRRRC 11 Unmodified _HRRRSSRRRRC_ 0 0 0 ENST00000605386.1_1_12:90102939-90103125:+|nuORF ENST00000605386.1_1_12:90102939-90103125:+|nuORF ENST00000605386.1_1_12:90102939-90103125:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 763.4331665039062 2 763.432524 1524.8505 NaN NaN NaN NaN NaN NaN NaN 100.31 1 100.31 99.815 100.81 0 0 0 0 1.0061 1 55340 55340 2.7352 0 1 10078 9311 6357 6374 11872 11872 0.1090638152804786 HRRRWYWCRDS 11 Unmodified _HRRRWYWCRDS_ 0 0 0 ENST00000399627.3_1_22:50905837-50906184:-|nuORF ENST00000399627.3_1_22:50905837-50906184:-|nuORF ENST00000399627.3_1_22:50905837-50906184:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 810.8897705078125 2 810.889292 1619.76403 NaN NaN NaN NaN NaN NaN NaN 88.14 1 88.818 88.318 89.318 0.67818 0 0 0 1.0082 1 40597 40597 0 0 1 10079 7602 6358 6375 11873 11873 -0.021060428171949752 HRRVPVTMKK 10 Unmodified _HRRVPVTMKK_ 0 0 0 REV__ENST00000543813.1_1_15:101717595-101728206:-|nuORF REV__ENST00000543813.1_1_15:101717595-101728206:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 313.6927490234375 4 313.692121 1250.73938 2.4694 0.00077463 0.14915 4.6787E-05 2.6185 0.00082142 313.69209602885826 46.75 0.68077 47.016 46.809 47.49 0.26561 36 23 2 0 0 0 0.9406 1 21440 21440 0.77653 0.32202 1 798950 + 10080 11868 6359 6376 11874 11874 0.1240392904737746 HRRVPVTMKK 10 Unmodified _HRRVPVTMKK_ 0 0 0 REV__ENST00000543813.1_1_15:101717595-101728206:-|nuORF REV__ENST00000543813.1_1_15:101717595-101728206:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 313.692121 1250.73938 2.1826 0.00068467 -1.0069 -0.00031587 1.1757 0.0003688 313.9426943497517 46.357 0.10203 47.186 47.138 47.24 0.82915 0.13548 -0.0011185 NaN 0.77653 9 7 2 NaN NaN NaN NaN 0 NaN NaN 0 359530 + 10081 11868 6359 6376 0.1240392904737746 HRRWIIKLWRK 11 Unmodified _HRRWIIKLWRK_ 0 0 0 REV__ENSG00000205856|ENST00000382097|C22orf42 REV__ENSG00000205856|ENST00000382097|C22orf42 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 796.6537475585938 2 796.494053 1590.97355 NaN NaN NaN NaN NaN NaN NaN 73.918 1 73.918 73.418 74.418 0 0 0 0 1.0072 1 36069 36069 1.3295 1.3295 1 + 10082 14469 6360 6377 11875 11875 0.20170568198227556 HRRWNLKKWRR 11 Unmodified _HRRWNLKKWRR_ 0 0 0 REV__ENST00000550078.2_2_1:203816644-203816719:+|nuORF REV__ENST00000550078.2_2_1:203816644-203816719:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.00048828125 3 545.990431 1634.94946 NaN NaN NaN NaN NaN NaN NaN 33.403 1 34.191 33.691 34.691 0.78795 0 0 0 1.0082 1 15115 15115 0 0 1 + 10083 17278 6361 6378 11876 11876 0.15738727764573923 HRRWNLKKWRR 11 Unmodified _HRRWNLKKWRR_ 0 0 0 REV__ENST00000550078.2_2_1:203816644-203816719:+|nuORF REV__ENST00000550078.2_2_1:203816644-203816719:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 818.48486328125 2 818.482008 1634.94946 NaN NaN NaN NaN NaN NaN NaN 88.21 1 88.46 87.96 88.96 0.25064 0 0 0 1.0082 1 40589 40589 0 0 1 + 10084 17278 6361 6378 11877 11877 0.15738727764573923 HRRWNLKKWRR 11 Unmodified _HRRWNLKKWRR_ 0 0 0 REV__ENST00000550078.2_2_1:203816644-203816719:+|nuORF REV__ENST00000550078.2_2_1:203816644-203816719:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.9918823242188 3 545.990431 1634.94946 NaN NaN NaN NaN NaN NaN NaN 62.854 1 63.512 63.012 64.012 0.65808 0 0 0 1.0082 1 28803 28803 0 0 1 + 10085 17278 6361 6378 11878 11878 0.15738727764573923 HRWHWRARRRE 11 Unmodified _HRWHWRARRRE_ 0 0 0 REV__ENST00000607222.1_1_1:1550199-1550712:-|nuORF REV__ENST00000607222.1_1_1:1550199-1550712:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 823.442626953125 2 823.443415 1644.87228 NaN NaN NaN NaN NaN NaN NaN 89.978 1 90.229 89.729 90.729 0.25137 0 0 0 1.0082 1 41377 41377 0 0 1 + 10086 17671 6362 6379 11879 11879 0.07563509548231195 HRWRLWLYYYL 11 Unmodified _HRWRLWLYYYL_ 0 0 0 REV__ENST00000306621.7_1_4:76955462-76955498:-|nuORF REV__ENST00000306621.7_1_4:76955462-76955498:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 834.9445190429688 2 834.943528 1667.8725 NaN NaN NaN NaN NaN NaN NaN 64.316 1 64.316 63.816 64.816 0 0 0 0 1.0082 1 30445 30445 0 0 1 + 10087 15234 6363 6380 11880 11880 0.06528071704906324 HRWRLWLYYYL 11 Unmodified _HRWRLWLYYYL_ 0 0 0 REV__ENST00000306621.7_1_4:76955462-76955498:-|nuORF REV__ENST00000306621.7_1_4:76955462-76955498:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.865966796875 3 556.964777 1667.8725 NaN NaN NaN NaN NaN NaN NaN 68.933 1 68.933 68.433 69.433 0 0 0 0 1.0082 1 33229 33229 0 0 1 + 10088 15234 6363 6380 11881 11881 0.06528071704906324 HRWWFRKFLIH 11 Unmodified _HRWWFRKFLIH_ 0 0 0 REV__ENST00000354179.8_2_5:176671236-176673694:+|nuORF REV__ENST00000354179.8_2_5:176671236-176673694:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 813.6898193359375 2 813.451854 1624.88916 NaN NaN NaN NaN NaN NaN NaN 96.973 1 97.251 96.751 97.751 0.27778 0 0 0 1.008 1 44552 44552 0.35063 0.35063 1 + 10089 15529 6364 6381 11882 11882 0.10170617381481861 HSADDFWPL 9 Unmodified _HSADDFWPL_ 0 0 0 ENST00000489888.1_1_6:131948430-131949201:-|nuORF ENST00000489888.1_1_6:131948430-131949201:-|nuORF ENST00000489888.1_1_6:131948430-131949201:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.2457275390625 2 544.245806 1086.47706 NaN NaN NaN NaN NaN NaN NaN 68.083 1 68.335 67.835 68.835 0.25227 0 0 0 0.89315 1 31189 31189 5.2307 0.90143 1 10090 8384 6365 6382 11883 11883 -0.06271993487575855 HSDEGCGA 8 Unmodified _HSDEGCGA_ 0 0 0 ENST00000377658.8_1_1:6651099-6651537:-|nuORF ENST00000377658.8_1_1:6651099-6651537:-|nuORF ENST00000377658.8_1_1:6651099-6651537:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 388.1402587890625 2 388.13741 774.260267 NaN NaN NaN NaN NaN NaN NaN 76.112 1 76.776 76.276 77.276 0.66387 0 0 0 0.99035 1 35064 35064 2.5775 0 1 10091 7416 6366 6383 11884 11884 -0.13589292312781254 HSHESVRRDTD 11 Unmodified _HSHESVRRDTD_ 0 0 0 ENST00000521347.1_1_7:143054447-143056506:-|nuORF;nc|ENSG00000159784|Q86XD5|FAM131B;ENST00000410085.5_1_7:143053645-143056840:-|nuORF;nc|ENSG00000159784|Q86XD5-2|FAM131B;ENSG00000159784|ENST00000443739|FAM131B ENST00000521347.1_1_7:143054447-143056506:-|nuORF ENST00000521347.1_1_7:143054447-143056506:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 446.87493896484375 3 446.876356 1337.60724 NaN NaN NaN NaN NaN NaN NaN 94.166 1 94.166 93.666 94.666 0 0 0 0 1.0062 1 50435 50435 2.6312 0 1 10092 4035 6367 6384 11885 11885 -0.04806049226522191 HSHIRGLGL 9 Unmodified _HSHIRGLGL_ 0 0 0 ENST00000594017.5_1_19:49497156-49513425:+|nuORF;ENSG00000183207|ENST00000595090|RUVBL2 ENST00000594017.5_1_19:49497156-49513425:+|nuORF ENST00000594017.5_1_19:49497156-49513425:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.5269775390625 3 330.526159 988.556647 NaN NaN NaN NaN NaN NaN NaN 23.075 1 23.35 22.85 23.85 0.27562 0 0 0 0.020959 1 10417 10417 57.249 18.634 1 10093 5369 6368 6385 11886 11886 0.06191117977084559 HSHIRGLGL 9 Unmodified _HSHIRGLGL_ 0 0 0 ENST00000594017.5_1_19:49497156-49513425:+|nuORF;ENSG00000183207|ENST00000595090|RUVBL2 ENST00000594017.5_1_19:49497156-49513425:+|nuORF ENST00000594017.5_1_19:49497156-49513425:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.5265197753906 3 330.526159 988.556647 NaN NaN NaN NaN NaN NaN NaN 22.544 1 23.185 22.685 23.685 0.64051 0 0 0 0.015435 1 10265 10265 63.227 19.246 1 10094 5369 6368 6385 11887 11887 0.06191117977084559 HSKDTVLPL 9 Unmodified _HSKDTVLPL_ 0 0 0 REV__nc|ENSG00000196208|Q4ZG55-4|GREB1 REV__nc|ENSG00000196208|Q4ZG55-4|GREB1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.77191162109375 2 505.287474 1008.5604 2.791 0.0014103 2.2605 0.0011422 5.0516 0.0025525 505.7903460930116 61.166 0.031078 61.166 61.145 61.176 0 4 2 2 0 0 0 0.10461 1 28505 28505 4.756 0.42677 1 532400 + 10095 14197 6369 6386 11888 11888 0.056457429602687625 HSLENISH 8 Unmodified _HSLENISH_ 0 0 0 REV__ENSG00000150867|ENST00000376573|PIP4K2A REV__ENSG00000150867|ENST00000376573|PIP4K2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 468.7318115234375 2 468.730323 935.446094 2.89 0.0013546 0.1392 6.5245E-05 3.0292 0.0014199 468.7303139311866 18.689 0.28603 18.689 18.422 18.708 0 39 19 3 0 0 0 0.60101 1 8241 8241 13.906 0 1 1561800 + 10096 12596 6370 6387 11889 11889 -0.024211468018052074 HSLLPGRRPG 10 Unmodified _HSLLPGRRPG_ 0 0 0 ENST00000476402.1_1_3:183685269-183689578:-|nuORF ENST00000476402.1_1_3:183685269-183689578:-|nuORF ENST00000476402.1_1_3:183685269-183689578:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3186645507812 2 545.317432 1088.62031 3.4792 0.0018973 -0.81329 -0.0004435 2.6659 0.0014538 545.3169124440693 83.541 1.7312 83.788 83.088 84.819 0.24722 279 102 3 0 0 0 0.84709 1 38716 38716 6.2058 6.2058 1 2574300 10097 8230 6371 6388 11890 11890 0.07954478414194455 HSLMMKRL 8 Unmodified _HSLMMKRL_ 0 0 0 REV__nc|ENSG00000163749|Q5M9N0-3|CCDC158 REV__nc|ENSG00000163749|Q5M9N0-3|CCDC158 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.19024658203125 3 339.189502 1014.54668 2.4102 0.0008175 0.17162 5.8213E-05 2.5818 0.00087571 339.18963510923305 17.189 0.16698 17.189 17.147 17.314 0 20 14 2 0 0 0 0.59268 1 7647 7647 10.824 5.527 1 239960 + 10098 18010 6372 6389 11891 11891 0.03998470655847086 HSLMMKRL 8 Unmodified _HSLMMKRL_ 0 0 0 REV__nc|ENSG00000163749|Q5M9N0-3|CCDC158 REV__nc|ENSG00000163749|Q5M9N0-3|CCDC158 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 339.189502 1014.54668 2.4102 0.0008175 0.17162 5.8213E-05 2.5818 0.00087571 339.18963510923305 17.189 0.16698 17.189 17.147 17.314 0 0 0 NaN 10.824 20 14 2 NaN NaN NaN NaN 0 NaN NaN 0 239960 + 10099 18010 6372 6389 0.03998470655847086 HSQDPRFAP 9 Unmodified _HSQDPRFAP_ 0 0 0 REV__ENSG00000124181|ENST00000685551|PLCG1 REV__ENSG00000124181|ENST00000685551|PLCG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.758544921875 2 527.756872 1053.49919 3.1672 0.0016715 0.39084 0.00020627 3.558 0.0018778 527.7570428154961 15.363 1.6853 15.363 14.881 16.566 0 482 203 3 0 0 0 1.129 1 6593 6593 1.8442 0 1 339890 + 10100 11639 6373 6390 11892 11892 -0.025417690191488873 HSRAYQQAL 9 Unmodified _HSRAYQQAL_ 0 0 0 ENSG00000147872|ENST00000276914|PLIN2 ENSG00000147872|ENST00000276914|PLIN2 ENSG00000147872|ENST00000276914|PLIN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.2797241210938 2 537.277972 1072.54139 3.4488 0.0018529 0.090641 4.8699E-05 3.5394 0.0019016 537.2778283891741 13.041 0.14535 13.684 13.58 13.725 0.64272 10 4 3 0 0 0 0.15661 1 5860 5860 26.268 4.7312 1 496090 10101 3585 6374 6391 11893 11893 0.008022063892212827 HSRVKLIL 8 Unmodified _HSRVKLIL_ 0 0 0 ENSG00000168090|ENST00000303904|COPS6 ENSG00000168090|ENST00000303904|COPS6 ENSG00000168090|ENST00000303904|COPS6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 322.8817443847656 3 322.546671 964.618185 2.3479 0.00075731 -0.19516 -6.2948E-05 2.1527 0.00069436 322.5465582903026 27.035 0.19754 27.814 27.729 27.927 0.7787 24 14 2 0 0 0 0.52627 1 12160 12160 19.362 7.1213 1 289100 10102 4604 6375 6392 11894 11894 0.1344604967638361 HSRVKLIL 8 Unmodified _HSRVKLIL_ 0 0 0 ENSG00000168090|ENST00000303904|COPS6 ENSG00000168090|ENST00000303904|COPS6 ENSG00000168090|ENST00000303904|COPS6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 322.1943054199219 3 322.546671 964.618185 2.0676 0.00066688 0.00033648 1.0853E-07 2.0679 0.00066699 322.5467151785049 27.185 0.29546 27.807 27.677 27.973 0.62179 34 16 3 0 0 0 0.14326 1 12447 12447 0.30703 0.30703 1 876250 10103 4604 6375 6392 11895 11895 0.1344604967638361 HSVREWVSM 9 Unmodified _HSVREWVSM_ 0 0 0 ENST00000474964.5_1_3:127323572-127340613:+|nuORF;ENSG00000073111|ENST00000265056|MCM2;ENST00000477668.5_1_3:127323572-127337961:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.7763671875 2 565.774208 1129.53386 3.4356 0.0019438 -1.1385 -0.00064411 2.2971 0.0012997 565.7730819809124 40.11 0.18663 40.11 39.985 40.172 0 11 6 2 0 0 0 0.27615 1 18221 18221 18.373 10.218 1 243580 10104 802 6376 6393 11896 11896 -0.025722692026874938 HSVREWVSM 9 Unmodified _HSVREWVSM_ 0 0 0 ENST00000474964.5_1_3:127323572-127340613:+|nuORF;ENSG00000073111|ENST00000265056|MCM2;ENST00000477668.5_1_3:127323572-127337961:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 377.5196533203125 3 377.518564 1129.53386 NaN NaN NaN NaN NaN NaN NaN 40.154 1 40.154 39.654 40.654 0 0 0 0 0.88916 1 18223 18223 6.6304 2.4409 1 10105 802 6376 6393 11897 11897 -0.025722692026874938 HSVREWVSM 9 Unmodified _HSVREWVSM_ 0 0 0 ENST00000474964.5_1_3:127323572-127340613:+|nuORF;ENSG00000073111|ENST00000265056|MCM2;ENST00000477668.5_1_3:127323572-127337961:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 565.7760620117188 2 565.774208 1129.53386 3.4567 0.0019557 -1.3727 -0.00077661 2.0841 0.0011791 565.7734635190598 38.921 0.28195 39.718 39.558 39.84 0.79762 20 13 2 0 0 0 0.33646 1 17619 17619 15.248 7.093 1 149110 10106 802 6376 6393 11898 11898 -0.025722692026874938 HTAGFSGGTGP 11 Unmodified _HTAGFSGGTGP_ 0 0 0 ENST00000390548.6_1_14:106202899-106203544:-|nuORF ENST00000390548.6_1_14:106202899-106203544:-|nuORF ENST00000390548.6_1_14:106202899-106203544:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.7291259765625 2 494.727781 987.441008 3.0319 0.0015 -0.14705 -7.2751E-05 2.8848 0.0014272 494.7276397511921 18.98 0.359 19.278 19.169 19.528 0.29753 94 50 2 0 0 0 0.14379 1 8673 8673 34.402 0.29928 1 8338700 10107 7505 6377 6394 11899 11899 -0.05321450664416716 HTGRTRCAF 9 Unmodified _HTGRTRCAF_ 0 0 0 ENST00000313285.12_1_19:6751225-6751516:+|nuORF ENST00000313285.12_1_19:6751225-6751516:+|nuORF ENST00000313285.12_1_19:6751225-6751516:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.7604370117188 2 524.758892 1047.50323 NaN NaN NaN NaN NaN NaN NaN 67.678 1 68.336 67.836 68.836 0.65777 0 0 0 0.59707 1 31023 31023 15.847 1.2655 1 10108 6883 6378 6395 11900 11900 -0.018620027970882802 HTHIDTYLK 9 Unmodified _HTHIDTYLK_ 0 0 0 REV__ENSG00000127418|ENST00000510644|FGFRL1 REV__ENSG00000127418|ENST00000510644|FGFRL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.5339660644531 3 376.532979 1126.57711 NaN NaN NaN NaN NaN NaN NaN 28.965 1 28.965 28.465 29.465 0 0 0 0 0.90699 1 13068 13068 0.96228 0 1 + 10109 11738 6379 6396 11901 11901 0.01888243846201476 HTICMYRL 8 Unmodified _HTICMYRL_ 0 0 0 REV__ENSG00000162763|ENST00000294818|LRRC52 REV__ENSG00000162763|ENST00000294818|LRRC52 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.8074951171875 2 518.756972 1035.49939 NaN NaN NaN NaN NaN NaN NaN 45.303 1 46.129 45.629 46.629 0.82621 0 0 0 0.99035 1 20634 20634 2.3027 0.4585 1 + 10110 12959 6380 6397 11902 11902 -0.016938086151640164 HTKIGARRE 9 Unmodified _HTKIGARRE_ 0 0 0 REV__ENST00000444644.1_1_1:79215537-79215930:+|nuORF REV__ENST00000444644.1_1_1:79215537-79215930:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.3093872070312 2 534.307064 1066.59957 NaN NaN NaN NaN NaN NaN NaN 92.38 1 92.38 91.88 92.88 0 0 0 0 0.88922 1 49075 49075 9.3831 2.0939 1 + 10111 10839 6381 6398 11903 11903 0.06893888034528572 HTKQLLID 8 Unmodified _HTKQLLID_ 0 0 0 nc|ENSG00000179242|P55283-2|CDH4;ENSG00000179242|ENST00000614565|CDH4 nc|ENSG00000179242|P55283-2|CDH4 nc|ENSG00000179242|P55283-2|CDH4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.1914367675781 3 323.190553 966.549831 2.1033 0.00067976 0.9119 0.00029472 3.0152 0.00097448 323.1908305773557 32.537 0.3271 33.156 32.977 33.304 0.61831 38 16 3 0 0 0 0.4188 1 14915 14915 27.629 6.0918 1 879890 10112 5206 6382 6399 11904 11904 0.06521760305861335 HTKYMMWFQRH 11 Unmodified _HTKYMMWFQRH_ 0 0 0 ENSG00000088038|ENST00000221232|CNOT3 ENSG00000088038|ENST00000221232|CNOT3 ENSG00000088038|ENST00000221232|CNOT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 782.8674926757812 2 782.868648 1563.72274 NaN NaN NaN NaN NaN NaN NaN 52.512 1 53.174 52.674 53.674 0.66198 0 0 0 1.008 1 24008 24008 0.30703 0.03801 1 10113 1007 6383 6400 11905 11905 -0.036569399008840264 HTLGYQAHDQP 11 Unmodified _HTLGYQAHDQP_ 0 0 0 ENST00000453996.6_1_16:88779262-88780065:+|nuORF ENST00000453996.6_1_16:88779262-88780065:+|nuORF ENST00000453996.6_1_16:88779262-88780065:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.7984008789062 2 633.796726 1265.5789 3.8223 0.0024226 -1.2005 -0.00076089 2.6218 0.0016617 633.7958500863532 37.567 0.24612 38.201 38.058 38.304 0.63388 14 7 2 0 0 0 0.54298 1 17172 17172 17.443 2.1942 1 257050 10114 8036 6384 6401 11906 11906 -0.04326747135814912 HTLGYQAHDQP 11 Unmodified _HTLGYQAHDQP_ 0 0 0 ENST00000453996.6_1_16:88779262-88780065:+|nuORF ENST00000453996.6_1_16:88779262-88780065:+|nuORF ENST00000453996.6_1_16:88779262-88780065:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 633.796726 1265.5789 3.6883 0.0023376 -1.2024 -0.00076207 2.4859 0.0015755 633.7956971531133 38.107 0.2831 38.37 38.186 38.469 0.26267 0.084782 -1.1064E-06 NaN 17.443 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 278320 10115 8036 6384 6401 -0.04326747135814912 HTLGYQAHDQP 11 Unmodified _HTLGYQAHDQP_ 0 0 0 ENST00000453996.6_1_16:88779262-88780065:+|nuORF ENST00000453996.6_1_16:88779262-88780065:+|nuORF ENST00000453996.6_1_16:88779262-88780065:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 633.796726 1265.5789 3.8223 0.0024226 -1.2005 -0.00076089 2.6218 0.0016617 633.7958500863532 37.567 0.24612 38.201 38.058 38.304 0.63388 -0.084782 1.2449E-06 NaN 17.443 14 7 2 NaN NaN NaN NaN 0 NaN NaN 0 257050 10116 8036 6384 6401 -0.04326747135814912 HTLLRASRM 9 Unmodified _HTLLRASRM_ 0 0 0 REV__ENST00000324803.5_1_4:1388316-1389516:+|nuORF REV__ENST00000324803.5_1_4:1388316-1389516:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.1688232421875 3 362.20632 1083.59713 2.7049 0.00097973 -1.1479 -0.00041578 1.557 0.00056394 362.20608960957554 38.042 0.10833 38.042 37.987 38.096 0 5 3 2 0 0 0 0.11065 1 17263 17263 4.897 0.95262 1 220340 + 10117 15345 6385 6402 11907 11907 0.05867716305192516 HTLLRASRM 9 Unmodified _HTLLRASRM_ 0 0 0 REV__ENST00000324803.5_1_4:1388316-1389516:+|nuORF REV__ENST00000324803.5_1_4:1388316-1389516:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.1689147949219 3 362.20632 1083.59713 2.5893 0.00093787 -0.12819 -4.6431E-05 2.4611 0.00089143 362.2062599073756 37.955 0.15462 38.216 38.123 38.278 0.26083 8 4 2 0 0 0 0.11065 1 17291 17291 4.897 0.95262 1 212040 + 10118 15345 6385 6402 11908 11908 0.05867716305192516 HTLLVVAGCL 10 Unmodified _HTLLVVAGCL_ 0 0 0 REV__ENST00000558590.1_1_14:103395319-103397951:+|nuORF REV__ENST00000558590.1_1_14:103395319-103397951:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.2921752929688 2 513.294245 1024.57394 NaN NaN NaN NaN NaN NaN NaN 94.716 1 94.716 94.216 95.216 0 0 0 0 0.99225 1 50878 50878 6.7232 0 1 + 10119 13211 6386 6403 11909 11909 0.06263277467883199 HTLWLPWDRFF 11 Unmodified _HTLWLPWDRFF_ 0 0 0 ENSG00000149256|ENST00000278550|TENM4;TENM4|p.I1369Cfs*22|1|0.07|ENSG00000149256|chr11:78708465-78708466|-/AAGCCTTTAAAGAGCA|frameshift_variant ENSG00000149256|ENST00000278550|TENM4 ENSG00000149256|ENST00000278550|TENM4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 759.3914794921875 2 759.388054 1516.76155 3.8441 0.0029191 1.4843 0.0011271 5.3283 0.0040463 759.8913683391748 33.949 0.27006 34.57 34.407 34.677 0.62031 20 14 2 0 0 0 0.91111 1 15537 15537 1.1933 0.23107 1 585770 10120 3634 6387 6404 11910 11910 0.023844319967793126 HTPLRRQK 8 Unmodified _HTPLRRQK_ 0 0 0 ENSG00000156466|ENST00000287020|GDF6 ENSG00000156466|ENST00000287020|GDF6 ENSG00000156466|ENST00000287020|GDF6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.4900817871094 3 345.877192 1034.60975 1.883 0.0006513 0.013063 4.5182E-06 1.8961 0.00065582 345.8771741092467 12.933 0.1418 13.24 13.159 13.301 0.30727 9 4 3 0 0 0 0.14225 1 5817 5817 1.6526 1.6526 1 200590 10121 3910 6388 6405 11911 11911 0.09382495759746234 HTRKVRIWQFK 11 Unmodified _HTRKVRIWQFK_ 0 0 0 REV__nc|ENSG00000150687|O95084-2|PRSS23 REV__nc|ENSG00000150687|O95084-2|PRSS23 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.96343994140625 3 500.296638 1497.86809 3.4415 0.0017218 -1.7679 -0.00088449 1.6736 0.00083728 500.295674668722 106.01 0.13608 106.61 106.55 106.68 0.59969 12 5 3 0 0 0 0.13295 1 48955 48955 0.40827 0.078994 1 732960 + 10122 12591 6389 6406 11912 11912 0.13906607281978722 HTVSGQHFAA 10 Unmodified _HTVSGQHFAA_ 0 0 0 nc|ENSG00000074410|O43570-2|CA12;ENSG00000074410|ENST00000178638|CA12 nc|ENSG00000074410|O43570-2|CA12 nc|ENSG00000074410|O43570-2|CA12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.2609252929688 2 527.756872 1053.49919 3.1672 0.0016715 0.39084 0.00020627 3.558 0.0018778 527.7570428154961 15.363 1.6853 15.363 14.881 16.566 0 482 203 3 0 0 0 0.93713 1 7066 7066 1.4819 0 1 339890 10123 817 6390 6407 11913 11913 -0.025417690191488873 HTWNRLWRWRH 11 Unmodified _HTWNRLWRWRH_ 0 0 0 nc|ENSG00000198089|A8K8P3-2|SFI1;ENSG00000198089|ENST00000400288|SFI1;nc|ENSG00000198089|A8K8P3-4|SFI1;nc|ENSG00000198089|A8K8P3-10|SFI1;nc|ENSG00000198089|A8K8P3-3|SFI1;nc|ENSG00000198089|A8K8P3-9|SFI1;ENST00000382162.7_1_22:31904270-32000328:+|nuORF;nc|ENSG00000198089|A8K8P3-5|SFI1 nc|ENSG00000198089|A8K8P3-2|SFI1 nc|ENSG00000198089|A8K8P3-2|SFI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 824.3809814453125 2 824.429442 1646.84433 NaN NaN NaN NaN NaN NaN NaN 101.9 1 101.96 101.46 102.46 0.057198 0 0 0 1.0082 1 55333 55333 0 0 1 10124 5867 6391 6408 11914 11914 0.046781865681396084 HTWNRLWRWRH 11 Unmodified _HTWNRLWRWRH_ 0 0 0 nc|ENSG00000198089|A8K8P3-2|SFI1;ENSG00000198089|ENST00000400288|SFI1;nc|ENSG00000198089|A8K8P3-4|SFI1;nc|ENSG00000198089|A8K8P3-10|SFI1;nc|ENSG00000198089|A8K8P3-3|SFI1;nc|ENSG00000198089|A8K8P3-9|SFI1;ENST00000382162.7_1_22:31904270-32000328:+|nuORF;nc|ENSG00000198089|A8K8P3-5|SFI1 nc|ENSG00000198089|A8K8P3-2|SFI1 nc|ENSG00000198089|A8K8P3-2|SFI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 824.4297485351562 2 824.429442 1646.84433 NaN NaN NaN NaN NaN NaN NaN 56.721 1 56.986 56.486 57.486 0.26444 0 0 0 1.0082 1 25952 25952 0 0 1 10125 5867 6391 6408 11915 11915 0.046781865681396084 HTWVLHLL 8 Unmodified _HTWVLHLL_ 0 0 0 REV__nc|ENSG00000124422|Q9UPT9-2|USP22 REV__nc|ENSG00000124422|Q9UPT9-2|USP22 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 340.20947265625 3 340.199272 1017.57599 NaN NaN NaN NaN NaN NaN NaN 40.391 1 40.391 39.891 40.891 0 0 0 0 0.967 1 18332 18332 7.9102 2.5074 1 + 10126 11655 6392 6409 11916 11916 0.06790074267996715 HVAKRLIDK 9 Unmodified _HVAKRLIDK_ 0 0 0 REV__ENSG00000126461|ENST00000360565|SCAF1 REV__ENSG00000126461|ENST00000360565|SCAF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.3399658203125 2 540.337833 1078.66111 NaN NaN NaN NaN NaN NaN NaN 54.915 1 55.707 55.207 56.207 0.79134 0 0 0 0.90511 1 25064 25064 2.3027 0 1 + 10127 11710 6393 6410 11917 11917 0.1249281973377947 HVAPSDTVL 9 Unmodified _HVAPSDTVL_ 0 0 0 ENSG00000198730|ENST00000361367|CTR9 ENSG00000198730|ENST00000361367|CTR9 ENSG00000198730|ENST00000361367|CTR9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.75225830078125 2 469.750724 937.486896 2.8625 0.0013447 -0.046687 -2.1931E-05 2.8158 0.0013227 469.7506659723175 32.488 0.31018 32.488 32.337 32.648 0 43 20 3 0 0 0 0.015487 2 14727 14679;14727 74.396 34.439 1 862580 10128 5921 6394 6411 11918;11919 11919 0.01565194517809232 HVAPSDTVL 9 Unmodified _HVAPSDTVL_ 0 0 0 ENSG00000198730|ENST00000361367|CTR9 ENSG00000198730|ENST00000361367|CTR9 ENSG00000198730|ENST00000361367|CTR9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.7524719238281 2 469.750724 937.486896 2.7853 0.0013084 0.57905 0.00027201 3.3643 0.0015804 469.7508914660258 31.672 0.18432 32.46 32.336 32.52 0.78879 25 13 2 0 0 0 0.023627 1 14280 14280 63.563 31.257 1 946120 10129 5921 6394 6411 11920 11920 0.01565194517809232 HVAPSDTVL 9 Unmodified _HVAPSDTVL_ 0 0 0 ENSG00000198730|ENST00000361367|CTR9 ENSG00000198730|ENST00000361367|CTR9 ENSG00000198730|ENST00000361367|CTR9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.75128173828125 2 469.750724 937.486896 NaN NaN NaN NaN NaN NaN NaN 31.739 1 32.527 32.027 33.027 0.78795 0 0 0 0.019373 1 14339 14339 74.396 34.439 1 10130 5921 6394 6411 11921 11921 0.01565194517809232 HVAPSDTVL 9 Unmodified _HVAPSDTVL_ 0 0 0 ENSG00000198730|ENST00000361367|CTR9 ENSG00000198730|ENST00000361367|CTR9 ENSG00000198730|ENST00000361367|CTR9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 469.75177001953125 2 469.750724 937.486896 3.1525 0.0014809 -1.4544 -0.00068319 1.6981 0.00079769 469.75028198427594 32.254 0.299 32.508 32.406 32.705 0.25452 34 22 2 0 0 0 0.015487 2 14686 14686;14742 74.396 34.439 1 1407300 10131 5921 6394 6411 11922;11923 11922 0.01565194517809232 HVAPSDTVL 9 Unmodified _HVAPSDTVL_ 0 0 0 ENSG00000198730|ENST00000361367|CTR9 ENSG00000198730|ENST00000361367|CTR9 ENSG00000198730|ENST00000361367|CTR9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.2528076171875 2 469.750724 937.486896 2.9048 0.0013645 -1.4251 -0.00066945 1.4797 0.00069508 469.7504676337742 31.681 0.25315 32.298 32.175 32.429 0.61736 40 23 2 0 0 0 0.015487 2 14548 14500;14548 74.396 34.439 1 1114500 10132 5921 6394 6411 11924;11925 11925 0.01565194517809232 HVAQKFVM 8 Unmodified _HVAQKFVM_ 0 0 0 ENSG00000221968|ENST00000278829|FADS3;ENST00000414624.6_1_11:61645294-61658904:-|nuORF ENSG00000221968|ENST00000278829|FADS3 ENSG00000221968|ENST00000278829|FADS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.2621765136719 2 480.260205 958.505857 3.1531 0.0015143 -0.099296 -4.7688E-05 3.0538 0.0014666 480.26025463172306 25.714 0.20446 25.982 25.866 26.071 0.26777 30 19 2 0 0 0 0.10141 1 11655 11655 53.576 38.994 1 334610 10133 6155 6395 6412 11926 11926 0.024944526078797935 HVAQKFVM 8 Unmodified _HVAQKFVM_ 0 0 0 ENSG00000221968|ENST00000278829|FADS3;ENST00000414624.6_1_11:61645294-61658904:-|nuORF ENSG00000221968|ENST00000278829|FADS3 ENSG00000221968|ENST00000278829|FADS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.26190185546875 2 480.260205 958.505857 NaN NaN NaN NaN NaN NaN NaN 25.389 1 26.018 25.518 26.518 0.62915 0 0 0 0.75172 1 11633 11633 20.871 11.524 1 10134 6155 6395 6412 11927 11927 0.024944526078797935 HVDDRERM 8 Unmodified _HVDDRERM_ 0 0 0 ENSG00000183421|ENST00000332512|RIPK4;nc|ENSG00000183421|P57078|RIPK4 ENSG00000183421|ENST00000332512|RIPK4 ENSG00000183421|ENST00000332512|RIPK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 353.1666564941406 3 353.166302 1056.47708 2.4448 0.00086342 0.54681 0.00019312 2.9916 0.0010565 353.16662598846716 46.952 0.29927 47.605 47.537 47.836 0.65219 38 23 2 0 0 0 0.60101 1 21507 21507 13.906 3.0821 1 2843000 10135 5379 6396 6413 11928 11928 -0.048903167592243335 HVDDRERM 8 Unmodified _HVDDRERM_ 0 0 0 ENSG00000183421|ENST00000332512|RIPK4;nc|ENSG00000183421|P57078|RIPK4 ENSG00000183421|ENST00000332512|RIPK4 ENSG00000183421|ENST00000332512|RIPK4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 353.166302 1056.47708 2.3491 0.00082962 0.62024 0.00021905 2.9693 0.0010487 353.166658772743 47.688 0.2824 47.688 47.548 47.83 0 0.048394 -0.00024096 NaN 13.906 35 24 2 NaN NaN NaN NaN 0 NaN NaN 0 3297400 10136 5379 6396 6413 -0.048903167592243335 HVDDRERM 8 Unmodified _HVDDRERM_ 0 0 0 ENSG00000183421|ENST00000332512|RIPK4;nc|ENSG00000183421|P57078|RIPK4 ENSG00000183421|ENST00000332512|RIPK4 ENSG00000183421|ENST00000332512|RIPK4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 353.166302 1056.47708 2.7572 0.00097374 1.3084 0.00046209 4.0656 0.0014358 353.1668191317589 47.622 0.33955 47.885 47.72 48.06 0.26363 0.24615 0.00048816 NaN 13.906 34 25 2 NaN NaN NaN NaN 0 NaN NaN 0 4105000 10137 5379 6396 6413 -0.048903167592243335 HVDIFEGHL 9 Unmodified _HVDIFEGHL_ 0 0 0 ENST00000558801.1_1_15:84960100-84962592:-|nuORF;ENST00000558282.5_1_15:85734698-85737265:+|nuORF;ENST00000333235.3_1_Y:27624438-27626982:+|nuORF;ENST00000560634.1_1_15:84855599-84858179:+|nuORF ENST00000558801.1_1_15:84960100-84962592:-|nuORF ENST00000558801.1_1_15:84960100-84962592:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.771484375 2 533.769448 1065.52434 2.9222 0.0015598 0.48064 0.00025655 3.4029 0.0018164 533.7698498978107 46.356 0.26194 46.356 46.24 46.502 0 32 13 3 0 0 0 0.099775 1 21209 21209 36.044 13.308 1 2529700 10138 7012 6397 6414 11929 11929 -0.005797142165647529 HVDIFEGHL 9 Unmodified _HVDIFEGHL_ 0 0 0 ENST00000558801.1_1_15:84960100-84962592:-|nuORF;ENST00000558282.5_1_15:85734698-85737265:+|nuORF;ENST00000333235.3_1_Y:27624438-27626982:+|nuORF;ENST00000560634.1_1_15:84855599-84858179:+|nuORF ENST00000558801.1_1_15:84960100-84962592:-|nuORF ENST00000558801.1_1_15:84960100-84962592:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.7728881835938 2 533.769448 1065.52434 3.0451 0.0016254 0.71031 0.00037914 3.7555 0.0020045 533.7699770323438 45.286 0.30186 46.113 45.995 46.297 0.82621 40 17 3 0 0 0 0.24524 1 20610 20610 28.487 13.649 1 1501800 10139 7012 6397 6414 11930 11930 -0.005797142165647529 HVDIFEGHL 9 Unmodified _HVDIFEGHL_ 0 0 0 ENST00000558801.1_1_15:84960100-84962592:-|nuORF;ENST00000558282.5_1_15:85734698-85737265:+|nuORF;ENST00000333235.3_1_Y:27624438-27626982:+|nuORF;ENST00000560634.1_1_15:84855599-84858179:+|nuORF ENST00000558801.1_1_15:84960100-84962592:-|nuORF ENST00000558801.1_1_15:84960100-84962592:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 533.769448 1065.52434 3.0451 0.0016254 0.71031 0.00037914 3.7555 0.0020045 533.7699770323438 45.286 0.30186 46.113 45.995 46.297 0.82621 -0.19099 6.8696E-05 NaN 36.044 40 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1501800 10140 7012 6397 6414 -0.005797142165647529 HVEPETTL 8 Unmodified _HVEPETTL_ 0 0 0 ENST00000565844.1_1_16:19721758-19726357:-|nuORF;ENSG00000103550|ENST00000219837|KNOP1 ENST00000565844.1_1_16:19721758-19726357:-|nuORF ENST00000565844.1_1_16:19721758-19726357:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.2367858886719 2 463.234907 924.455261 2.7238 0.0012618 0.69455 0.00032174 3.4184 0.0015835 463.23513242606134 38.339 0.58237 38.973 38.754 39.336 0.63388 51 24 3 0 0 0 0.65723 1 17684 17684 9.3474 0 1 420400 10141 1409 6398 6415 11931 11931 -0.00998798236150833 HVETGEIVAL 10 Unmodified _HVETGEIVAL_ 0 0 0 ENST00000604175.5_1_9:90586022-90589430:-|nuORF;ENST00000459720.5_1_9:90585689-90589466:-|nuORF;nc|ENSG00000156345|Q8IZL9-2|CDK20;nc|ENSG00000156345|Q8IZL9-3|CDK20;nc|ENSG00000156345|Q8IZL9-5|CDK20;ENSG00000156345|ENST00000325303|CDK20 ENST00000604175.5_1_9:90586022-90589430:-|nuORF ENST00000604175.5_1_9:90586022-90589430:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.7932739257812 2 534.290214 1066.56587 3.2016 0.0017106 -0.24131 -0.00012893 2.9603 0.0015817 534.2898219037965 51.494 0.25426 51.494 51.382 51.637 0 21 13 2 0 0 0 0.51828 1 23571 23571 20.454 9.6297 1 536430 10142 3907 6399 6416 11932 11932 0.03525421752101465 HVETGEIVAL 10 Unmodified _HVETGEIVAL_ 0 0 0 ENST00000604175.5_1_9:90586022-90589430:-|nuORF;ENST00000459720.5_1_9:90585689-90589466:-|nuORF;nc|ENSG00000156345|Q8IZL9-2|CDK20;nc|ENSG00000156345|Q8IZL9-3|CDK20;nc|ENSG00000156345|Q8IZL9-5|CDK20;ENSG00000156345|ENST00000325303|CDK20 ENST00000604175.5_1_9:90586022-90589430:-|nuORF ENST00000604175.5_1_9:90586022-90589430:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 534.2904052734375 2 534.290214 1066.56587 2.8854 0.0015416 -0.10543 -5.6329E-05 2.78 0.0014853 534.2896906699837 51.354 0.19524 51.617 51.47 51.665 0.26227 14 8 2 0 0 0 0.16336 1 23480 23480 43.858 24.601 1 704690 10143 3907 6399 6416 11933 11933 0.03525421752101465 HVETGEIVAL 10 Unmodified _HVETGEIVAL_ 0 0 0 ENST00000604175.5_1_9:90586022-90589430:-|nuORF;ENST00000459720.5_1_9:90585689-90589466:-|nuORF;nc|ENSG00000156345|Q8IZL9-2|CDK20;nc|ENSG00000156345|Q8IZL9-3|CDK20;nc|ENSG00000156345|Q8IZL9-5|CDK20;ENSG00000156345|ENST00000325303|CDK20 ENST00000604175.5_1_9:90586022-90589430:-|nuORF ENST00000604175.5_1_9:90586022-90589430:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 534.29052734375 2 534.290214 1066.56587 3.1029 0.0016578 -0.69816 -0.00037302 2.4047 0.0012848 534.2894069236223 50.703 0.21558 51.363 51.219 51.435 0.65956 15 9 2 0 0 0 0.28649 1 23186 23186 29.082 12.932 1 479880 10144 3907 6399 6416 11934 11934 0.03525421752101465 HVETGEIVAL 10 Unmodified _HVETGEIVAL_ 0 0 0 ENST00000604175.5_1_9:90586022-90589430:-|nuORF;ENST00000459720.5_1_9:90585689-90589466:-|nuORF;nc|ENSG00000156345|Q8IZL9-2|CDK20;nc|ENSG00000156345|Q8IZL9-3|CDK20;nc|ENSG00000156345|Q8IZL9-5|CDK20;ENSG00000156345|ENST00000325303|CDK20 ENST00000604175.5_1_9:90586022-90589430:-|nuORF ENST00000604175.5_1_9:90586022-90589430:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 534.290214 1066.56587 2.9286 0.0015647 0.29241 0.00015623 3.221 0.0017209 534.2903345443904 50.627 0.23552 51.445 51.322 51.557 0.81738 -0.035082 0.00047706 NaN 43.858 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 665740 10145 3907 6399 6416 0.03525421752101465 HVEWLWSE 8 Unmodified _HVEWLWSE_ 0 0 0 REV__ENSG00000106804|ENST00000223642|C5 REV__ENSG00000106804|ENST00000223642|C5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.258056640625 2 543.256174 1084.49779 NaN NaN NaN NaN NaN NaN NaN 16.535 1 17.193 16.693 17.693 0.65798 0 0 0 0.99035 1 7451 7451 2.3027 0.4585 1 + + 10146 11099 6400 6417 11935 11935 -0.04107403107900609 HVGSRLYSV 9 Unmodified _HVGSRLYSV_ 0 0 0 ENSG00000196924|ENST00000369850|FLNA;nc|ENSG00000196924|P21333-2|FLNA;ENST00000490936.5_1_X:153577219-153578780:-|nuORF ENSG00000196924|ENST00000369850|FLNA ENSG00000196924|ENST00000369850|FLNA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.2788391113281 2 509.277441 1016.54033 NaN NaN NaN NaN NaN NaN NaN 24.498 1 24.498 23.998 24.998 0 0 0 0 0.078562 1 11014 11014 45.7 15.063 1 10147 5785 6401 6418 11936 11936 0.032719920203248876 HVGSRLYSV 9 Unmodified _HVGSRLYSV_ 0 0 0 ENSG00000196924|ENST00000369850|FLNA;nc|ENSG00000196924|P21333-2|FLNA;ENST00000490936.5_1_X:153577219-153578780:-|nuORF ENSG00000196924|ENST00000369850|FLNA ENSG00000196924|ENST00000369850|FLNA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.2795104980469 2 509.277441 1016.54033 NaN NaN NaN NaN NaN NaN NaN 24.181 1 24.453 23.953 24.953 0.27129 0 0 0 0.0060814 1 10949 10949 90.135 57.829 1 10148 5785 6401 6418 11937 11937 0.032719920203248876 HVGSRLYSV 9 Unmodified _HVGSRLYSV_ 0 0 0 ENSG00000196924|ENST00000369850|FLNA;nc|ENSG00000196924|P21333-2|FLNA;ENST00000490936.5_1_X:153577219-153578780:-|nuORF ENSG00000196924|ENST00000369850|FLNA ENSG00000196924|ENST00000369850|FLNA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.27935791015625 2 509.277441 1016.54033 NaN NaN NaN NaN NaN NaN NaN 23.759 1 24.393 23.893 24.893 0.63441 0 0 0 0.0044088 1 10866 10866 93.166 53.209 1 10149 5785 6401 6418 11938 11938 0.032719920203248876 HVGSRLYSV 9 Unmodified _HVGSRLYSV_ 0 0 0 ENSG00000196924|ENST00000369850|FLNA;nc|ENSG00000196924|P21333-2|FLNA;ENST00000490936.5_1_X:153577219-153578780:-|nuORF ENSG00000196924|ENST00000369850|FLNA ENSG00000196924|ENST00000369850|FLNA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.2788391113281 2 509.277441 1016.54033 NaN NaN NaN NaN NaN NaN NaN 23.859 1 24.493 23.993 24.993 0.63441 0 0 0 0.098631 1 10909 10909 41.956 13.469 1 10150 5785 6401 6418 11939 11939 0.032719920203248876 HVIHHRTL 8 Unmodified _HVIHHRTL_ 0 0 0 REV__ENSG00000187187|ENST00000347077|ZNF546 REV__ENSG00000187187|ENST00000347077|ZNF546 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.1984558105469 3 338.198154 1011.57263 1.8155 0.000614 -0.80803 -0.00027328 1.0075 0.00034072 338.1979559081286 12.884 0.25557 13.192 13.023 13.279 0.30727 10 7 2 0 0 0 0.63544 1 5834 5834 7.9102 0.62092 1 371730 + 10151 14092 6402 6419 11940 11940 0.0673082421400295 HVITKTMEL 9 Unmodified _HVITKTMEL_ 0 0 0 ENSG00000153201|ENST00000283195|RANBP2 ENSG00000153201|ENST00000283195|RANBP2 ENSG00000153201|ENST00000283195|RANBP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.2991943359375 2 536.296985 1070.57942 3.3862 0.001816 0.18531 9.9383E-05 3.5715 0.0019154 536.2971809274379 30.712 0.2806 30.968 30.793 31.074 0.25614 41 22 2 0 0 0 0.084899 3 13976 13934;13976;14020 36.506 17.067 1 435940 10152 3777 6403 6420 11941;11942;11943 11942 0.04694956259686478 HVITKTMEL 9 Unmodified _HVITKTMEL_ 0 0 0 ENSG00000153201|ENST00000283195|RANBP2 ENSG00000153201|ENST00000283195|RANBP2 ENSG00000153201|ENST00000283195|RANBP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.2987670898438 2 536.296985 1070.57942 3.2448 0.0017402 0.6866 0.00036822 3.9314 0.0021084 536.2972414327224 30.348 0.26432 30.966 30.814 31.078 0.61737 21 16 2 0 0 0 0.025135 1 13902 13902 61.602 37.581 1 561960 10153 3777 6403 6420 11944 11944 0.04694956259686478 HVKEQRLAL 9 Unmodified _HVKEQRLAL_ 0 0 0 nc|ENSG00000151718|Q6AWC2-4|WWC2;ENSG00000151718|ENST00000403733|WWC2;nc|ENSG00000151718|Q6AWC2-6|WWC2;WWC2|p.E372Dfs*3|1|0.68|ENSG00000151718|chr4:183253918-183253918|A/-|frameshift_variant;nc|ENSG00000151718|Q6AWC2-5|WWC2 nc|ENSG00000151718|Q6AWC2-4|WWC2 nc|ENSG00000151718|Q6AWC2-4|WWC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.22186279296875 3 365.220735 1092.64038 2.4449 0.00089292 -0.22466 -8.2051E-05 2.2202 0.00081087 365.220689342911 17.667 0.32631 17.968 17.738 18.065 0.30158 40 21 2 0 0 0 0.29781 1 8018 8018 21.537 14.435 1 256040 10154 3727 6404 6421 11945 11945 0.0977622935411091 HVKEQRLAL 9 Unmodified _HVKEQRLAL_ 0 0 0 nc|ENSG00000151718|Q6AWC2-4|WWC2;ENSG00000151718|ENST00000403733|WWC2;nc|ENSG00000151718|Q6AWC2-6|WWC2;WWC2|p.E372Dfs*3|1|0.68|ENSG00000151718|chr4:183253918-183253918|A/-|frameshift_variant;nc|ENSG00000151718|Q6AWC2-5|WWC2 nc|ENSG00000151718|Q6AWC2-4|WWC2 nc|ENSG00000151718|Q6AWC2-4|WWC2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.20587158203125 3 365.220735 1092.64038 2.587 0.00094484 -0.47365 -0.00017298 2.1134 0.00077186 365.2205441920454 17.53 0.23693 18.191 18.037 18.274 0.66072 34 24 2 0 0 0 0.051743 1 7934 7934 27.223 15.729 1 574760 10155 3727 6404 6421 11946 11946 0.0977622935411091 HVKEVQQL 8 Unmodified _HVKEVQQL_ 0 0 0 nc|ENSG00000125844|Q9P2E9-3|RRBP1;ENSG00000125844|ENST00000377813|RRBP1 nc|ENSG00000125844|Q9P2E9-3|RRBP1 nc|ENSG00000125844|Q9P2E9-3|RRBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.7811584472656 2 490.779816 979.545079 NaN NaN NaN NaN NaN NaN NaN 13.165 1 13.808 13.308 14.308 0.64272 0 0 0 0.84594 1 5910 5910 15.847 5.0233 1 10156 2427 6405 6422 11947 11947 0.054488761630864246 HVKGLSNFI 9 Unmodified _HVKGLSNFI_ 0 0 0 PARPBP|p.D261Tfs*3|1|0.27|ENSG00000185480|chr12:102165843-102165843|G/-|frameshift_variant;nc|ENSG00000185480|Q9NWS1-6|PARPBP;nc|ENSG00000185480|Q9NWS1-7|PARPBP;nc|ENSG00000185480|Q9NWS1-2|PARPBP;ENSG00000185480|ENST00000327680|PARPBP PARPBP|p.D261Tfs*3|1|0.27|ENSG00000185480|chr12:102165843-102165843|G/-|frameshift_variant PARPBP|p.D261Tfs*3|1|0.27|ENSG00000185480|chr12:102165843-102165843|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.8631896972656 3 338.862548 1013.56581 2.4723 0.00083776 0.78889 0.00026732 3.2611 0.0011051 338.8628222088125 13.263 0.21557 13.906 13.769 13.984 0.64272 39 16 4 0 0 0 0.76984 1 5918 5918 4.897 0.56777 1 848950 10157 5508 6406 6423 11948 11948 0.05957466542747625 HVKIVKLLL 9 Unmodified _HVKIVKLLL_ 0 0 0 nc|ENSG00000132466|O75179-5|ANKRD17;nc|ENSG00000132466|O75179-3|ANKRD17;nc|ENSG00000132466|O75179-4|ANKRD17;nc|ENSG00000132466|O75179-6|ANKRD17;nc|ENSG00000132466|O75179-7|ANKRD17;nc|ENSG00000132466|O75179-2|ANKRD17;ENSG00000132466|ENST00000358602|ANKRD17 nc|ENSG00000132466|O75179-5|ANKRD17 nc|ENSG00000132466|O75179-5|ANKRD17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.4917602539062 2 531.87352 1061.73249 NaN NaN NaN NaN NaN NaN NaN 93.594 1 93.594 93.094 94.094 0 0 0 0 0.91206 1 49997 49997 0.6015 0 1 10158 2703 6407 6424 11949 11949 0.20408939438470952 HVKRKKVTF 9 Unmodified _HVKRKKVTF_ 0 0 0 ENSG00000158615|ENST00000367188|PPP1R15B ENSG00000158615|ENST00000367188|PPP1R15B ENSG00000158615|ENST00000367188|PPP1R15B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.5779113769531 3 381.576742 1141.7084 3.1255 0.0011926 0.83861 0.00032 3.9641 0.0015126 381.577057746441 6.9554 0.46611 7.5801 7.4386 7.9047 0.62473 67 41 2 0 0 0 1.101 2 3124 3124;3164 1.1933 0.92432 1 74508 10159 3991 6408 6425 11950;11951 11950 0.14321099004791904 HVKTYEVSL 9 Unmodified _HVKTYEVSL_ 0 0 0 DDB1|p.W1047Cfs*15|1|0.04|ENSG00000167986|chr11:61302331-61302332|-/AGAA|frameshift_variant;ENSG00000167986|ENST00000301764|DDB1;ENST00000545930.5_1_11:61091835-61095006:-|nuORF;ENST00000537120.5_1_11:61091345-61100440:-|nuORF DDB1|p.W1047Cfs*15|1|0.04|ENSG00000167986|chr11:61302331-61302332|-/AGAA|frameshift_variant DDB1|p.W1047Cfs*15|1|0.04|ENSG00000167986|chr11:61302331-61302332|-/AGAA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.2952270507812 2 538.292756 1074.57096 3.1347 0.0016874 1.6733 0.0009007 4.8079 0.0025881 538.2935200858626 33.73 0.30538 33.984 33.777 34.083 0.25389 33 19 3 0 0 0 0.27958 1 15370 15370 18.146 2.2992 1 267650 10160 259 6409 6426 11952 11952 0.036657256147236694 HVKTYEVSL 9 Unmodified _HVKTYEVSL_ 0 0 0 DDB1|p.W1047Cfs*15|1|0.04|ENSG00000167986|chr11:61302331-61302332|-/AGAA|frameshift_variant;ENSG00000167986|ENST00000301764|DDB1;ENST00000545930.5_1_11:61091835-61095006:-|nuORF;ENST00000537120.5_1_11:61091345-61100440:-|nuORF DDB1|p.W1047Cfs*15|1|0.04|ENSG00000167986|chr11:61302331-61302332|-/AGAA|frameshift_variant DDB1|p.W1047Cfs*15|1|0.04|ENSG00000167986|chr11:61302331-61302332|-/AGAA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.2943115234375 2 538.292756 1074.57096 3.1805 0.001712 1.6202 0.00087216 4.8007 0.0025842 538.7951483422129 33.093 0.19656 33.711 33.664 33.86 0.61831 24 11 3 0 0 0 0.24465 1 15169 15169 20.454 3.5113 1 249850 10161 259 6409 6426 11953 11953 0.036657256147236694 HVKVLNTSL 9 Unmodified _HVKVLNTSL_ 0 0 0 nc|ENSG00000163565|Q16666-8|IFI16;nc|ENSG00000163565|Q16666-3|IFI16;ENST00000493884.5_1_1:158984458-159022017:+|nuORF;nc|ENSG00000163565|Q16666-6|IFI16;nc|ENSG00000163565|Q16666-2|IFI16;ENSG00000163565|ENST00000295809|IFI16;IFI16|p.F441Sfs*13|1|0.06|ENSG00000163565|chr1:159032683-159032684|-/CGGGTTTGTTTTTTTCTTTATC|frameshift_variant nc|ENSG00000163565|Q16666-8|IFI16 nc|ENSG00000163565|Q16666-8|IFI16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.80450439453125 2 505.803291 1009.59203 3.2055 0.0016214 -0.16849 -8.5225E-05 3.037 0.0015361 505.8031415563231 35.865 0.38856 36.12 35.939 36.328 0.25524 42 17 3 0 0 0 0.0020791 3 16349 16290;16349;16395 103.35 41.996 1 1905200 10162 4225 6410 6427 11954;11955;11956 11955 0.08761735714244878 HVKVLNTSL 9 Unmodified _HVKVLNTSL_ 0 0 0 nc|ENSG00000163565|Q16666-8|IFI16;nc|ENSG00000163565|Q16666-3|IFI16;ENST00000493884.5_1_1:158984458-159022017:+|nuORF;nc|ENSG00000163565|Q16666-6|IFI16;nc|ENSG00000163565|Q16666-2|IFI16;ENSG00000163565|ENST00000295809|IFI16;IFI16|p.F441Sfs*13|1|0.06|ENSG00000163565|chr1:159032683-159032684|-/CGGGTTTGTTTTTTTCTTTATC|frameshift_variant nc|ENSG00000163565|Q16666-8|IFI16 nc|ENSG00000163565|Q16666-8|IFI16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.8050537109375 2 505.803291 1009.59203 3.3281 0.0016833 0.3902 0.00019736 3.7183 0.0018807 505.8034878216037 35.407 0.32425 36.034 35.842 36.167 0.62631 27 9 4 0 0 0 0.00068611 2 16244 16193;16244 129.77 58.639 1 1886100 10163 4225 6410 6427 11957;11958 11958 0.08761735714244878 HVKVRFKFF 9 Unmodified _HVKVRFKFF_ 0 0 0 ENST00000524718.5_1_11:130059967-130066600:+|nuORF;ST14|p.G638Afs*124|1|0.24|ENSG00000149418|chr11:130200054-130200054|G/-|frameshift_variant;ENSG00000149418|ENST00000278742|ST14 ENST00000524718.5_1_11:130059967-130066600:+|nuORF ENST00000524718.5_1_11:130059967-130066600:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.360107421875 2 604.358568 1206.70258 3.1329 0.0018934 -0.99107 -0.00059896 2.1418 0.0012944 604.3579807006727 100.78 0.53903 100.78 100.72 101.26 0 61 27 3 0 0 0 1.1154 1 55744 55744 2.0598 0.57785 1 5237300 10164 3642 6411 6428 11959 11959 0.10750000493135303 HVLFLFFVSAM 11 Unmodified _HVLFLFFVSAM_ 0 0 0 nc|ENSG00000180776|Q5W0Z9-4|ZDHHC20;nc|ENSG00000180776|Q5W0Z9-3|ZDHHC20;ENSG00000180776|ENST00000400590|ZDHHC20 nc|ENSG00000180776|Q5W0Z9-4|ZDHHC20 nc|ENSG00000180776|Q5W0Z9-4|ZDHHC20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.5718078613281 3 437.570377 1309.6893 3.0088 0.0013165 -1.0579 -0.00046292 1.9508 0.00085363 437.5698485232526 22.054 0.3316 22.054 21.871 22.202 0 65 24 3 0 0 0 0.87362 1 9831 9831 1.4551 0 1 819140 10165 5261 6412 6429 11960 11960 0.04684381598872278 HVLFLFFVSAM 11 Unmodified _HVLFLFFVSAM_ 0 0 0 nc|ENSG00000180776|Q5W0Z9-4|ZDHHC20;nc|ENSG00000180776|Q5W0Z9-3|ZDHHC20;ENSG00000180776|ENST00000400590|ZDHHC20 nc|ENSG00000180776|Q5W0Z9-4|ZDHHC20 nc|ENSG00000180776|Q5W0Z9-4|ZDHHC20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 655.85302734375 2 655.851927 1309.6893 3.7942 0.0024884 -1.0696 -0.00070152 2.7246 0.0017869 655.8510317383466 22.045 0.27181 22.045 21.911 22.183 0 43 19 3 0 0 0 0.74281 2 9845 9845;9913 9.3831 0 1 349510 10166 5261 6412 6429 11961;11962 11961 0.04684381598872278 HVLHQLIVWL 10 Unmodified _HVLHQLIVWL_ 0 0 0 REV__nc|ENSG00000164168|Q9NVA4-2|TMEM184C REV__nc|ENSG00000164168|Q9NVA4-2|TMEM184C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 419.9208679199219 3 419.920397 1256.73936 3.0395 0.0012763 -1.2674 -0.00053221 1.7721 0.00074412 420.2543423207201 40.015 0.38041 40.282 40.135 40.515 0.26696 27 15 2 0 0 0 0.7769 1 18263 18263 9.544 0.56773 1 2123200 + 10167 13070 6413 6430 11963 11963 0.12126252319012565 HVLLHRLL 8 Unmodified _HVLLHRLL_ 0 0 0 REV__nc|ENSG00000130182|Q96SZ4-2|ZSCAN10 REV__nc|ENSG00000130182|Q96SZ4-2|ZSCAN10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.2196960449219 3 334.218666 999.634169 2.2109 0.00073892 0.51823 0.0001732 2.7291 0.00091212 334.2188550788607 25.461 0.2304 26.09 25.977 26.207 0.62915 48 25 2 0 0 0 0.63902 1 11628 11628 10.824 0 1 935320 + 10168 11804 6414 6431 11964 11964 0.1343375591327458 HVLRRRTAPRK 11 Unmodified _HVLRRRTAPRK_ 0 0 0 REV__ENSG00000198354|ENST00000360028|DCAF12L2 REV__ENSG00000198354|ENST00000360028|DCAF12L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 695.37841796875 2 695.436735 1388.85892 NaN NaN NaN NaN NaN NaN NaN 26.539 1 26.539 26.039 27.039 0 0 0 0 1.0073 1 11949 11949 1.1933 0.88631 1 + 10169 14333 6415 6432 11965 11965 0.1800425871626885 HVLVACGF 8 Unmodified _HVLVACGF_ 0 0 0 REV__ENST00000543302.6_1_18:13726679-13731545:+|nuORF REV__ENST00000543302.6_1_18:13726679-13731545:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 423.22161865234375 2 423.220549 844.426544 NaN NaN NaN NaN NaN NaN NaN 37.307 1 37.307 36.807 37.807 0 0 0 0 0.99035 1 16929 16929 2.8892 0 1 + 10170 17232 6416 6433 11966 11966 -0.0018919434627377996 HVNHRRAPGK 10 Unmodified _HVNHRRAPGK_ 0 0 0 ENST00000355508.3_1_7:2966407-2969665:-|nuORF;ENST00000396946.8_1_7:2966407-2969665:-|nuORF ENST00000355508.3_1_7:2966407-2969665:-|nuORF ENST00000355508.3_1_7:2966407-2969665:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.890380859375 3 391.223362 1170.64826 2.8888 0.0011302 0.27685 0.00010831 3.1656 0.0012385 391.22336238142765 57.755 0.5692 58.424 58.061 58.63 0.66829 57 34 2 0 0 0 0.12676 1 26428 26428 1.9064 1.9064 1 1801900 10171 7150 6417 6434 11967 11967 0.06975801394241898 HVNNIYGL 8 Unmodified _HVNNIYGL_ 0 0 0 ENSG00000167359|ENST00000380211|OR51I1 ENSG00000167359|ENST00000380211|OR51I1 ENSG00000167359|ENST00000380211|OR51I1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.32281494140625 2 465.245609 928.476666 NaN NaN NaN NaN NaN NaN NaN 102.99 1 103.59 103.09 104.09 0.59821 0 0 0 0.99035 1 47658 47658 2.5775 0.27475 1 10172 4547 6418 6435 11968 11968 0.009566315832444161 HVNWPWRG 8 Unmodified _HVNWPWRG_ 0 0 0 ENST00000360416.7_1_17:8378430-8378556:-|nuORF ENST00000360416.7_1_17:8378430-8378556:-|nuORF ENST00000360416.7_1_17:8378430-8378556:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.1805725097656 3 351.178871 1050.51478 NaN NaN NaN NaN NaN NaN NaN 72.853 1 73.112 72.612 73.612 0.25876 0 0 0 0.99035 1 33448 33448 1.4819 0 1 10173 7214 6419 6436 11969 11969 -0.008454377114503586 HVPVSTNGL 9 Unmodified _HVPVSTNGL_ 0 0 0 REV__ENST00000539664.2_1_7:28994294-28994399:-|nuORF REV__ENST00000539664.2_1_7:28994294-28994399:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 308.50396728515625 3 308.50302 922.48723 2.0287 0.00062586 0.57667 0.0001779 2.6054 0.00080376 308.5032155341468 17.548 0.61305 17.85 17.498 18.111 0.30159 103 46 3 0 0 0 0.68496 2 7854 7854;8033 5.7319 1.4026 1 440670 + 10174 17201 6420 6437 11970;11971 11970 0.022886142376819407 HVQRRRRRRRP 11 Unmodified _HVQRRRRRRRP_ 0 0 0 REV__ENST00000453677.1_1_7:104654330-104654752:-|nuORF REV__ENST00000453677.1_1_7:104654330-104654752:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.9944458007812 3 524.992946 1571.95701 NaN NaN NaN NaN NaN NaN NaN 74.35 1 75.014 74.514 75.514 0.6644 0 0 0 1.0073 1 34224 34224 0.40827 0.32491 1 + 10175 16429 6421 6438 11972 11972 0.19390880084847595 HVRRRRRLYFH 11 Unmodified _HVRRRRRLYFH_ 0 0 0 REV__ENSG00000112996|ENST00000507110|MRPS30 REV__ENSG00000112996|ENST00000507110|MRPS30 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.4146728515625 3 532.646664 1594.91816 NaN NaN NaN NaN NaN NaN NaN 90.65 1 90.65 90.15 91.15 0 0 0 0 1.0082 1 47701 47701 0.08335 0 1 + 10176 11286 6422 6439 11973 11973 0.14450154730502618 HVSGNRAQKL 10 Unmodified _HVSGNRAQKL_ 0 0 0 nc|ENSG00000110514|Q8WXG6-7|MADD;nc|ENSG00000110514|Q8WXG6-3|MADD;nc|ENSG00000110514|Q8WXG6-2|MADD;nc|ENSG00000110514|Q8WXG6|MADD;ENSG00000110514|ENST00000706887|MADD nc|ENSG00000110514|Q8WXG6-7|MADD nc|ENSG00000110514|Q8WXG6-7|MADD MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 370.51708984375 3 370.54399 1108.61014 2.8704 0.0010636 2.9134 0.0010796 5.7838 0.0021432 370.87999316963425 21.055 0.27892 21.055 20.867 21.146 0 29 15 3 0 0 0 0.12676 1 9437 9437 0.62683 0.62683 1 221590 10177 1720 6423 6440 11974 11974 0.06017870688947369 HVTQEDFEM 9 Unmodified _HVTQEDFEM_ 0 0 0 nc|ENSG00000087191|P62195-2|PSMC5;ENSG00000087191|ENST00000310144|PSMC5;ENST00000584657.1_1_17:61909038-61909326:+|nuORF;ENST00000579147.5_1_17:61906826-61909326:+|nuORF nc|ENSG00000087191|P62195-2|PSMC5 nc|ENSG00000087191|P62195-2|PSMC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.241943359375 2 568.239864 1134.46517 3.4509 0.0019609 0.35367 0.00020097 3.8045 0.0021619 568.2399511051117 38.707 0.31746 38.707 38.548 38.865 0 34 14 3 0 0 0 0.012326 2 17571 17571;17621 78.728 48.092 1 1054900 10178 998 6424 6441 11975;11976 11975 -0.09667978293077795 HVTQEDFEM 9 Unmodified _HVTQEDFEM_ 0 0 0 nc|ENSG00000087191|P62195-2|PSMC5;ENSG00000087191|ENST00000310144|PSMC5;ENST00000584657.1_1_17:61909038-61909326:+|nuORF;ENST00000579147.5_1_17:61906826-61909326:+|nuORF nc|ENSG00000087191|P62195-2|PSMC5 nc|ENSG00000087191|P62195-2|PSMC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.2432250976562 2 568.239864 1134.46517 3.5103 0.0019947 0.62633 0.00035591 4.1366 0.0023506 568.2403464770557 37.66 0.31525 38.456 38.273 38.588 0.79552 34 14 3 0 0 0 0.0063542 1 17054 17054 88.954 50.98 1 1007200 10179 998 6424 6441 11977 11977 -0.09667978293077795 HVTQEDFEM 9 Unmodified _HVTQEDFEM_ 0 0 0 nc|ENSG00000087191|P62195-2|PSMC5;ENSG00000087191|ENST00000310144|PSMC5;ENST00000584657.1_1_17:61909038-61909326:+|nuORF;ENST00000579147.5_1_17:61906826-61909326:+|nuORF nc|ENSG00000087191|P62195-2|PSMC5 nc|ENSG00000087191|P62195-2|PSMC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.2416381835938 2 568.239864 1134.46517 3.3282 0.0018912 -0.21275 -0.00012089 3.1154 0.0017703 568.239755759913 38.631 0.36454 38.895 38.724 39.089 0.26408 35 14 3 0 0 0 0.00055091 2 17606 17559;17606 131.27 73.313 1 2322400 10180 998 6424 6441 11978;11979 11979 -0.09667978293077795 HVTQEDFEM 9 Unmodified _HVTQEDFEM_ 0 0 0 nc|ENSG00000087191|P62195-2|PSMC5;ENSG00000087191|ENST00000310144|PSMC5;ENST00000584657.1_1_17:61909038-61909326:+|nuORF;ENST00000579147.5_1_17:61906826-61909326:+|nuORF nc|ENSG00000087191|P62195-2|PSMC5 nc|ENSG00000087191|P62195-2|PSMC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.2421875 2 568.239864 1134.46517 3.4503 0.0019606 0.17794 0.00010111 3.6282 0.0020617 568.2399908532357 38.143 0.49089 38.777 38.581 39.072 0.63388 49 20 3 0 0 0 0.0024241 3 17446 17403;17446;17496 99.799 61.825 1 2061900 10181 998 6424 6441 11980;11981;11982 11981 -0.09667978293077795 HVTSDAVEL 9 Unmodified _HVTSDAVEL_ 0 0 0 ENSG00000166012|ENST00000448108|TAF1D;ENST00000529508.1_1_11:93472401-93472473:-|nuORF;ENST00000532235.1_1_11:93470365-93472473:-|nuORF ENSG00000166012|ENST00000448108|TAF1D ENSG00000166012|ENST00000448108|TAF1D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.75482177734375 2 485.745639 969.476725 3.0945 0.0015032 1.7174 0.00083423 4.812 0.0023374 485.7463193878954 32.971 0.23423 33.59 33.407 33.641 0.61831 14 9 2 0 0 0 0.76984 1 15057 15057 7.9102 0.62092 1 179020 10182 4445 6425 6442 11983 11983 -0.00923413207442536 HVVDGFRLS 9 Unmodified _HVVDGFRLS_ 0 0 0 REV__nc|ENSG00000104299|Q9NV88-3|INTS9 REV__nc|ENSG00000104299|Q9NV88-3|INTS9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.2780151367188 2 515.277441 1028.54033 3.2576 0.0016785 -1.2339 -0.00063579 2.0237 0.0010428 515.277015526986 38.896 0.42078 38.896 38.679 39.1 0 35 16 3 0 0 0 0.64206 1 17721 17721 10.074 1.4806 1 1051500 + 10183 10986 6426 6443 11984 11984 0.02719992020342943 HVVILFQPVTL 11 Unmodified _HVVILFQPVTL_ 0 0 0 nc|ENSG00000105699|Q86X29-6|LSR;nc|ENSG00000105699|Q86X29-5|LSR;nc|ENSG00000105699|Q86X29-2|LSR;ENSG00000105699|ENST00000605618|LSR;nc|ENSG00000105699|Q86X29-3|LSR;nc|ENSG00000105699|Q86X29-4|LSR;nc|ENSG00000105699|Q86X29|LSR nc|ENSG00000105699|Q86X29-6|LSR nc|ENSG00000105699|Q86X29-6|LSR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.5933532714844 3 422.592058 1264.75434 2.8503 0.0012045 1.3477 0.00056954 4.1981 0.0017741 422.59249374216097 48.739 0.53342 48.739 48.466 49 0 40 29 2 0 0 0 0.9102 1 22393 22393 0.50596 0.051438 1 508570 10184 1522 6427 6444 11985 11985 0.13255699396381715 HVVILFQPVTL 11 Unmodified _HVVILFQPVTL_ 0 0 0 nc|ENSG00000105699|Q86X29-6|LSR;nc|ENSG00000105699|Q86X29-5|LSR;nc|ENSG00000105699|Q86X29-2|LSR;ENSG00000105699|ENST00000605618|LSR;nc|ENSG00000105699|Q86X29-3|LSR;nc|ENSG00000105699|Q86X29-4|LSR;nc|ENSG00000105699|Q86X29|LSR nc|ENSG00000105699|Q86X29-6|LSR nc|ENSG00000105699|Q86X29-6|LSR MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 422.592058 1264.75434 2.6659 0.0011266 0.97757 0.00041311 3.6435 0.0015397 422.59210961309293 47.826 0.30187 48.655 48.459 48.761 0.82915 -0.041873 -0.00031185 NaN 0.50596 16 12 2 NaN NaN NaN NaN 0 NaN NaN 0 237420 10185 1522 6427 6444 0.13255699396381715 HVVLLRKGYK 10 Unmodified _HVVLLRKGYK_ 0 0 0 REV__ENSG00000179314|ENST00000317744|WSCD1 REV__ENSG00000179314|ENST00000317744|WSCD1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.58990478515625 3 404.92403 1211.75026 2.649 0.0010726 -1.3665 -0.00055331 1.2825 0.00051932 404.92341973183636 31.605 0.1658 32.393 32.271 32.437 0.78879 18 13 2 0 0 0 0.12676 1 14278 14278 0.15932 0 1 497740 + 10186 13794 6428 6445 11986 11986 0.15285654693320794 HVYNFLAR 8 Unmodified _HVYNFLAR_ 0 0 0 REV__nc|ENSG00000149212|P58005-4|SESN3 REV__nc|ENSG00000149212|P58005-4|SESN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.2737731933594 2 510.274701 1018.53485 NaN NaN NaN NaN NaN NaN NaN 28.22 1 29.006 28.506 29.506 0.78627 0 0 0 0.99035 1 12704 12704 2.3027 0.24298 1 + 10187 12561 6429 6446 11987 11987 0.026323132285028805 HWDPGHVEV 9 Unmodified _HWDPGHVEV_ 0 0 0 REV__ENSG00000124942|ENST00000378024|AHNAK REV__ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.1709899902344 3 359.170041 1074.48829 2.5008 0.00089821 -0.14909 -5.355E-05 2.3517 0.00084467 359.17020282030546 46.965 0.90257 47.617 47.371 48.273 0.65219 176 47 5 0 0 0 0.12301 1 21641 21641 20.415 1.0526 1 490570000 + 10188 11669 6430 6447 11988 11988 -0.04597171393447752 HWERRGAWC 9 Unmodified _HWERRGAWC_ 0 0 0 ENST00000533100.5_1_8:38089049-38090580:+|nuORF ENST00000533100.5_1_8:38089049-38090580:+|nuORF ENST00000533100.5_1_8:38089049-38090580:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 600.77685546875 2 600.777616 1199.54068 NaN NaN NaN NaN NaN NaN NaN 44.508 1 44.778 44.278 45.278 0.2694 0 0 0 0.90511 1 20343 20343 2.3027 0 1 10189 8741 6431 6448 11989 11989 -0.051109115314602604 HWFRWLIWFWM 11 Unmodified _HWFRWLIWFWM_ 0 0 0 REV__ENSG00000090266|ENST00000247866|NDUFB2 REV__ENSG00000090266|ENST00000247866|NDUFB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 854.4234619140625 2 854.423916 1706.83328 NaN NaN NaN NaN NaN NaN NaN 90.851 1 90.926 90.426 91.426 0.075279 0 0 0 1.008 1 46916 46916 0.30703 0.30703 1 + 10190 10708 6432 6449 11990 11990 0.008136481496421766 HWFYTRWKDWE 11 Unmodified _HWFYTRWKDWE_ 0 0 0 ENSG00000019995|ENST00000359653|ZRANB1 ENSG00000019995|ENST00000359653|ZRANB1 ENSG00000019995|ENST00000359653|ZRANB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 827.3834228515625 2 827.3835 1652.75245 NaN NaN NaN NaN NaN NaN NaN 25.681 1 26.444 25.944 26.944 0.76356 0 0 0 1.0082 1 11529 11529 0 0 1 10191 450 6433 6450 11991 11991 -0.04781961359549314 HWGLIVRRSL 10 Unmodified _HWGLIVRRSL_ 0 0 0 ENST00000264595.6_1_4:178363422-178363623:-|nuORF ENST00000264595.6_1_4:178363422-178363623:-|nuORF ENST00000264595.6_1_4:178363422-178363623:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 618.8700561523438 2 618.869831 1235.72511 3.533 0.0021865 -0.75188 -0.00046532 2.7812 0.0017212 618.8695344814552 27.251 0.28475 27.872 27.726 28.011 0.62179 24 16 3 0 0 0 0.78028 1 12492 12492 9.3831 1.2276 1 276960 10192 6607 6434 6451 11992 11992 0.11667599890733982 HWGLIVRRSL 10 Unmodified _HWGLIVRRSL_ 0 0 0 ENST00000264595.6_1_4:178363422-178363623:-|nuORF ENST00000264595.6_1_4:178363422-178363623:-|nuORF ENST00000264595.6_1_4:178363422-178363623:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.9163818359375 3 412.915646 1235.72511 2.8726 0.0011861 -0.86349 -0.00035655 2.0091 0.0008296 412.9152167988642 27.234 0.32029 27.856 27.69 28.011 0.62179 43 18 3 0 0 0 0.38486 1 12502 12502 16.566 0 1 718220 10193 6607 6434 6451 11993 11993 0.11667599890733982 HWHWRRRRRRE 11 Unmodified _HWHWRRRRRRE_ 0 0 0 REV__ENST00000321582.9_1_9:124855435-124855555:-|nuORF REV__ENST00000321582.9_1_9:124855435-124855555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 866.422607421875 2 865.975413 1729.93627 NaN NaN NaN NaN NaN NaN NaN 97.656 1 97.656 97.156 98.156 0 0 0 0 1.0082 1 53228 53228 0 0 1 + 10194 15322 6435 6452 11994 11994 0.10050289705191062 HWSHGSAY 8 Unmodified _HWSHGSAY_ 0 0 0 REV__ENST00000507366.1_1_5:79596158-79596224:-|nuORF REV__ENST00000507366.1_1_5:79596158-79596224:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.70538330078125 2 472.704109 943.393664 NaN NaN NaN NaN NaN NaN NaN 47.067 1 47.72 47.22 48.22 0.65219 0 0 0 0.99035 1 21558 21558 5.2307 0 1 + 10195 16940 6436 6453 11995 11995 -0.08029685144765608 HWWWKLHFVWE 11 Unmodified _HWWWKLHFVWE_ 0 0 0 ENSG00000168282|ENST00000305386|MGAT2 ENSG00000168282|ENST00000305386|MGAT2 ENSG00000168282|ENST00000305386|MGAT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 827.4092407226562 2 827.409321 1652.80409 NaN NaN NaN NaN NaN NaN NaN 83.865 1 83.865 83.365 84.365 0 0 0 0 1.0082 1 42330 42330 0 0 1 10196 4617 6437 6454 11996 11996 0.0037982712501616334 HYAHLIKTF 9 Unmodified _HYAHLIKTF_ 0 0 0 ENST00000495574.1_1_10:129046289-129055694:+|nuORF;ENST00000484400.5_1_10:129046280-129142589:+|nuORF;nc|ENSG00000150760|Q14185|DOCK1;ENSG00000150760|ENST00000623213|DOCK1 ENST00000495574.1_1_10:129046289-129055694:+|nuORF ENST00000495574.1_1_10:129046289-129055694:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 377.21160888671875 3 377.209948 1128.60801 3.0226 0.0011401 -0.60407 -0.00022786 2.4185 0.00091228 377.2096869597904 30.027 0.34378 30.027 29.876 30.22 0 55 24 3 0 0 0 0.0079462 2 13526 13526;13572 85.642 66.016 1 3397800 10197 3678 6438 6455 11997;11998 11997 0.048854419511371816 HYAHLIKTF 9 Unmodified _HYAHLIKTF_ 0 0 0 ENST00000495574.1_1_10:129046289-129055694:+|nuORF;ENST00000484400.5_1_10:129046280-129142589:+|nuORF;nc|ENSG00000150760|Q14185|DOCK1;ENSG00000150760|ENST00000623213|DOCK1 ENST00000495574.1_1_10:129046289-129055694:+|nuORF ENST00000495574.1_1_10:129046289-129055694:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 377.2110290527344 3 377.209948 1128.60801 2.5407 0.00095839 -0.15155 -5.7167E-05 2.3892 0.00090122 377.2098416865355 29.047 0.46053 29.836 29.637 30.098 0.78921 100 35 4 0 0 0 0.018453 4 13073 13027;13073;13118;13159 70.332 51.959 1 1469400 10198 3678 6438 6455 11999;12000;12001;12002 12000 0.048854419511371816 HYAHLIKTF 9 Unmodified _HYAHLIKTF_ 0 0 0 ENST00000495574.1_1_10:129046289-129055694:+|nuORF;ENST00000484400.5_1_10:129046280-129142589:+|nuORF;nc|ENSG00000150760|Q14185|DOCK1;ENSG00000150760|ENST00000623213|DOCK1 ENST00000495574.1_1_10:129046289-129055694:+|nuORF ENST00000495574.1_1_10:129046289-129055694:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 377.5446472167969 3 377.209948 1128.60801 2.954 0.0011143 -0.41744 -0.00015746 2.5365 0.00095681 377.2098147627419 29.68 0.36176 29.938 29.758 30.12 0.25804 55 29 2 0 0 0 0.053453 2 13518 13470;13518 45.7 31.689 1 665560 10199 3678 6438 6455 12003;12004 12004 0.048854419511371816 HYAHLIKTF 9 Unmodified _HYAHLIKTF_ 0 0 0 ENST00000495574.1_1_10:129046289-129055694:+|nuORF;ENST00000484400.5_1_10:129046280-129142589:+|nuORF;nc|ENSG00000150760|Q14185|DOCK1;ENSG00000150760|ENST00000623213|DOCK1 ENST00000495574.1_1_10:129046289-129055694:+|nuORF ENST00000495574.1_1_10:129046289-129055694:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.2110900878906 3 377.209948 1128.60801 2.6952 0.0010167 -0.17353 -6.5456E-05 2.5217 0.00095121 377.20986631776236 29.347 0.43213 29.965 29.826 30.258 0.61789 65 28 3 0 0 0 0.078225 2 13488 13433;13488 38.176 30.02 1 831820 10200 3678 6438 6455 12005;12006 12006 0.048854419511371816 HYAYSFKYL 9 Unmodified _HYAYSFKYL_ 0 0 0 ENSG00000109111|ENST00000314616|SUPT6H ENSG00000109111|ENST00000314616|SUPT6H ENSG00000109111|ENST00000314616|SUPT6H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.7990112304688 2 596.295299 1190.57605 3.3393 0.0019912 -0.071877 -4.286E-05 3.2674 0.0019483 596.7969589466148 50.323 0.21254 50.323 50.227 50.439 0 12 8 2 0 0 0 0.057744 1 23057 23057 43.858 34.475 1 410250 10201 1668 6439 6456 12007 12007 -0.01161970522662159 HYAYSFKYL 9 Unmodified _HYAYSFKYL_ 0 0 0 ENSG00000109111|ENST00000314616|SUPT6H ENSG00000109111|ENST00000314616|SUPT6H ENSG00000109111|ENST00000314616|SUPT6H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 596.29638671875 2 596.295299 1190.57605 3.5811 0.0021354 -0.4892 -0.00029171 3.0919 0.0018437 596.2947560921529 49.201 0.23037 50.028 49.893 50.124 0.82705 21 11 2 0 0 0 0.032303 2 22412 22363;22412 54.774 43.133 1 418970 10202 1668 6439 6456 12008;12009 12009 -0.01161970522662159 HYAYSFKYL 9 Unmodified _HYAYSFKYL_ 0 0 0 ENSG00000109111|ENST00000314616|SUPT6H ENSG00000109111|ENST00000314616|SUPT6H ENSG00000109111|ENST00000314616|SUPT6H MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 596.2968139648438 2 596.295299 1190.57605 NaN NaN NaN NaN NaN NaN NaN 49.728 1 50.385 49.885 50.885 0.65735 0 0 0 0.82031 1 22745 22745 8.5933 4.6489 1 10203 1668 6439 6456 12010 12010 -0.01161970522662159 HYAYSFKYL 9 Unmodified _HYAYSFKYL_ 0 0 0 ENSG00000109111|ENST00000314616|SUPT6H ENSG00000109111|ENST00000314616|SUPT6H ENSG00000109111|ENST00000314616|SUPT6H MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 596.295299 1190.57605 4.0426 0.0024106 0.17529 0.00010452 4.2179 0.0025151 596.2952832216042 49.662 0.17765 50.319 50.196 50.373 0.65735 0.0957 0.00035148 NaN 54.774 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 255320 10204 1668 6439 6456 -0.01161970522662159 HYCVLSAFL 9 Carbamidomethyl (C) _HYC(Carbamidomethyl (C))VLSAFL_ HYC(1)VLSAFL HYC(78)VLSAFL 0 1 0 nc|ENSG00000092969|P61812-2|TGFB2;ENSG00000092969|ENST00000366930|TGFB2 nc|ENSG00000092969|P61812-2|TGFB2 nc|ENSG00000092969|P61812-2|TGFB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.2791137695312 2 555.276052 1108.53755 2.946 0.0016358 -0.2661 -0.00014776 2.6799 0.0014881 555.2757510653971 77.521 0.29045 77.521 77.378 77.668 0 47 20 3 0 0 0 0.012533 2 38005 38005;38061 78.445 44.342 1 2289500 10205 1103 6440 6457 12011;12012 12011 23 -0.012375994288504444 HYCVLSAFL 9 Carbamidomethyl (C) _HYC(Carbamidomethyl (C))VLSAFL_ HYC(1)VLSAFL HYC(67)VLSAFL 0 1 0 nc|ENSG00000092969|P61812-2|TGFB2;ENSG00000092969|ENST00000366930|TGFB2 nc|ENSG00000092969|P61812-2|TGFB2 nc|ENSG00000092969|P61812-2|TGFB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 555.7780151367188 2 555.276052 1108.53755 2.7408 0.0015219 -0.35712 -0.0001983 2.3836 0.0013236 555.2754353189126 76.412 0.28996 77.036 76.892 77.182 0.62397 32 19 2 0 0 0 0.020956 2 37047 37047;37054 67.035 40.152 1 2800500 10206 1103 6440 6457 12013;12014 12013 23 -0.012375994288504444 HYCVLSAFL 9 Carbamidomethyl (C) _HYC(Carbamidomethyl (C))VLSAFL_ HYC(1)VLSAFL HYC(57)VLSAFL 0 1 0 nc|ENSG00000092969|P61812-2|TGFB2;ENSG00000092969|ENST00000366930|TGFB2 nc|ENSG00000092969|P61812-2|TGFB2 nc|ENSG00000092969|P61812-2|TGFB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.2783813476562 2 555.276052 1108.53755 3.4176 0.0018977 -0.027475 -1.5256E-05 3.3902 0.0018825 555.2759126766216 77.364 0.2348 77.619 77.486 77.721 0.25533 25 15 2 0 0 0 0.029028 1 35627 35627 56.541 29.658 1 646390 10207 1103 6440 6457 12015 12015 23 -0.012375994288504444 HYDEFFEEFYR 11 Unmodified _HYDEFFEEFYR_ 0 0 0 ENST00000393668.3_1_11:71991299-71991795:+|nuORF ENST00000393668.3_1_11:71991299-71991795:+|nuORF ENST00000393668.3_1_11:71991299-71991795:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 791.3356323242188 2 791.335881 1580.65721 NaN NaN NaN NaN NaN NaN NaN 55.576 1 56.244 55.744 56.744 0.66798 0 0 0 1.0082 1 25422 25422 0 0 1 10208 7534 6441 6458 12016 12016 -0.10989359341238014 HYDPATEEF 9 Unmodified _HYDPATEEF_ 0 0 0 ENSG00000087008|ENST00000356406|ACOX3;nc|ENSG00000087008|O15254-2|ACOX3;ENST00000510365.5_1_4:8376552-8417570:-|nuORF ENSG00000087008|ENST00000356406|ACOX3 ENSG00000087008|ENST00000356406|ACOX3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.8176879882812 2 554.732729 1107.4509 3.5388 0.0019631 0.1285 7.1286E-05 3.6673 0.0020344 554.7329395542787 36.329 0.24344 36.587 36.476 36.719 0.25768 11 9 2 0 0 0 0.056326 1 16564 16564 28.487 19.104 1 266470 10209 991 6442 6459 12017 12017 -0.0985230744972796 HYDPPRKLMA 10 Unmodified _HYDPPRKLMA_ 0 0 0 HNRNPH1|p.H338Rfs*56|1|0.06|ENSG00000169045|chr5:179617557-179617558|AT/-|frameshift_variant;ENSG00000169045|ENST00000393432|HNRNPH1;ENST00000515481.5_1_5:179044503-179045371:-|nuORF;ENST00000502904.5_1_5:179043989-179045371:-|nuORF;ENSG00000126945|ENST00000316594|HNRNPH2;ENST00000504549.5_1_5:179044963-179045371:-|nuORF HNRNPH1|p.H338Rfs*56|1|0.06|ENSG00000169045|chr5:179617557-179617558|AT/-|frameshift_variant HNRNPH1|p.H338Rfs*56|1|0.06|ENSG00000169045|chr5:179617557-179617558|AT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 409.8831481933594 3 409.881614 1226.62301 2.8157 0.0011541 0.20574 8.433E-05 3.0214 0.0012384 409.88161190033514 21.988 0.16726 21.988 21.898 22.066 0 16 11 2 0 0 0 0.90216 1 9873 9873 3.5871 1.9948 1 80270 10210 4667 6443 6460 12018 12018 0.018765657568110328 HYDPTINKW 9 Unmodified _HYDPTINKW_ 0 0 0 nc|ENSG00000171617|O14682-2|ENC1;ENSG00000171617|ENST00000302351|ENC1 nc|ENSG00000171617|O14682-2|ENC1 nc|ENSG00000171617|O14682-2|ENC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.2891235351562 2 587.288005 1172.56146 3.2728 0.0019221 -1.1161 -0.00065545 2.1567 0.0012666 587.2872803360826 34.898 0.34467 34.898 34.684 35.028 0 41 25 2 0 0 0 2.2133E-30 2 15784 15784;15836 198.25 152.23 1 5127500 10211 4821 6444 6461 12019;12020 12019 -0.01792042670808769 HYDPTINKW 9 Unmodified _HYDPTINKW_ 0 0 0 nc|ENSG00000171617|O14682-2|ENC1;ENSG00000171617|ENST00000302351|ENC1 nc|ENSG00000171617|O14682-2|ENC1 nc|ENSG00000171617|O14682-2|ENC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.289794921875 2 587.288005 1172.56146 3.0506 0.0017916 -1.1946 -0.0007016 1.8559 0.00109 587.2871365356938 33.929 0.49135 34.718 34.6 35.091 0.78921 66 30 3 0 0 0 5.331300000000001E-41 3 15372 15327;15372;15421 206.75 160.73 1 2447700 10212 4821 6444 6461 12021;12022;12023 12022 -0.01792042670808769 HYDVQSLLF 9 Unmodified _HYDVQSLLF_ 0 0 0 ENSG00000213445|ENST00000534313|SIPA1 ENSG00000213445|ENST00000534313|SIPA1 ENSG00000213445|ENST00000534313|SIPA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.2866821289062 2 561.284931 1120.55531 NaN NaN NaN NaN NaN NaN NaN 71.384 1 71.641 71.141 72.141 0.25786 0 0 0 0.21088 1 32700 32700 30.637 0 1 10213 6090 6445 6462 12024 12024 -0.00014560902332050318 HYEFQNQRF 9 Unmodified _HYEFQNQRF_ 0 0 0 ENST00000481860.6_1_11:119043673-119051967:+|nuORF;nc|ENSG00000160703|Q86UT6-2|NLRX1;ENSG00000160703|ENST00000409109|NLRX1 ENST00000481860.6_1_11:119043673-119051967:+|nuORF ENST00000481860.6_1_11:119043673-119051967:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.5323486328125 3 423.53175 1267.57342 NaN NaN NaN NaN NaN NaN NaN 32.806 1 33.06 32.56 33.56 0.25389 0 0 0 0.90228 1 14940 14940 2.9952 0 1 10214 4071 6446 6463 12025 12025 -0.049664259276369194 HYFDPQYFEF 10 Unmodified _HYFDPQYFEF_ 0 0 0 ENSG00000084623|ENST00000677711|EIF3I ENSG00000084623|ENST00000677711|EIF3I ENSG00000084623|ENST00000677711|EIF3I MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 696.7989501953125 2 696.798403 1391.58225 NaN NaN NaN NaN NaN NaN NaN 78.382 1 78.382 77.882 78.882 0 0 0 0 0.93252 1 38515 38515 16.149 11.82 1 10215 957 6447 6464 12026 12026 -0.09787497081833862 HYFDPQYFEF 10 Unmodified _HYFDPQYFEF_ 0 0 0 ENSG00000084623|ENST00000677711|EIF3I ENSG00000084623|ENST00000677711|EIF3I ENSG00000084623|ENST00000677711|EIF3I MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 696.800537109375 2 696.798403 1391.58225 3.0993 0.0021596 -0.176 -0.00012263 2.9233 0.0020369 696.7984115247393 77.388 0.29185 77.949 77.823 78.115 0.56091 48 19 3 0 0 0 0.0012938 2 37585 37524;37585 103.35 85.207 1 3621300 10216 957 6447 6464 12027;12028 12028 -0.09787497081833862 HYFDPQYFEF 10 Unmodified _HYFDPQYFEF_ 0 0 0 ENSG00000084623|ENST00000677711|EIF3I ENSG00000084623|ENST00000677711|EIF3I ENSG00000084623|ENST00000677711|EIF3I MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 696.8009643554688 2 696.798403 1391.58225 3.6522 0.0025448 0.099805 6.9544E-05 3.752 0.0026144 696.798272745631 78.116 0.32268 78.369 78.228 78.55 0.25335 47 18 3 0 0 0 0.019849 4 35993 35940;35946;35993;36048 72.968 59.925 1 1355100 10217 957 6447 6464 12029;12030;12031;12032 12031 -0.09787497081833862 HYFDPQYFEF 10 Unmodified _HYFDPQYFEF_ 0 0 0 ENSG00000084623|ENST00000677711|EIF3I ENSG00000084623|ENST00000677711|EIF3I ENSG00000084623|ENST00000677711|EIF3I MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 696.800048828125 2 696.798403 1391.58225 3.7946 0.0026441 -0.19286 -0.00013438 3.6017 0.0025097 696.798359140947 77.67 0.28394 78.333 78.197 78.481 0.66303 39 17 3 0 0 0 0.019849 2 35818 35765;35818 72.968 61.473 1 1210300 10218 957 6447 6464 12033;12034 12034 -0.09787497081833862 HYGKVYLL 8 Unmodified _HYGKVYLL_ 0 0 0 nc|ENSG00000006715|P49754-2|VPS41;nc|ENSG00000006715|P49754-3|VPS41;ENSG00000006715|ENST00000310301|VPS41 nc|ENSG00000006715|P49754-2|VPS41 nc|ENSG00000006715|P49754-2|VPS41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.7829895019531 2 496.781828 991.549102 3.0211 0.0015008 0.21598 0.00010729 3.2371 0.0016081 496.78190562327234 41.077 0.21981 41.077 40.934 41.153 0 36 16 3 0 0 0 0.10141 1 18640 18640 53.576 17.109 1 1750300 10219 356 6448 6465 12035 12035 0.052989656568115606 HYGKVYLL 8 Unmodified _HYGKVYLL_ 0 0 0 nc|ENSG00000006715|P49754-2|VPS41;nc|ENSG00000006715|P49754-3|VPS41;ENSG00000006715|ENST00000310301|VPS41 nc|ENSG00000006715|P49754-2|VPS41 nc|ENSG00000006715|P49754-2|VPS41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.7833557128906 2 496.781828 991.549102 3.0611 0.0015207 -0.38259 -0.00019006 2.6785 0.0013306 496.7816061600559 40.158 0.19999 40.958 40.869 41.069 0.80014 21 18 2 0 0 0 0.18676 1 18161 18161 44.407 16.234 1 2029000 10220 356 6448 6465 12036 12036 0.052989656568115606 HYGKVYLL 8 Unmodified _HYGKVYLL_ 0 0 0 nc|ENSG00000006715|P49754-2|VPS41;nc|ENSG00000006715|P49754-3|VPS41;ENSG00000006715|ENST00000310301|VPS41 nc|ENSG00000006715|P49754-2|VPS41 nc|ENSG00000006715|P49754-2|VPS41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.7835388183594 2 496.781828 991.549102 3.4147 0.0016964 -0.17457 -8.6725E-05 3.2402 0.0016097 496.78170714734955 40.873 0.16713 41.142 41.006 41.173 0.26904 21 12 2 0 0 0 0.10141 1 18574 18574 53.576 32.704 1 732880 10221 356 6448 6465 12037 12037 0.052989656568115606 HYHIDRKFFFF 11 Unmodified _HYHIDRKFFFF_ 0 0 0 REV__ENST00000595082.1_1_19:39727075-39727930:-|nuORF REV__ENST00000595082.1_1_19:39727075-39727930:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 778.8922119140625 2 778.893503 1555.77245 NaN NaN NaN NaN NaN NaN NaN 55.236 1 55.904 55.404 56.404 0.66798 0 0 0 1.008 1 25274 25274 0.35063 0.043601 1 + 10222 17608 6449 6466 12038 12038 0.016798343710433983 HYIDAGYLGF 10 Unmodified _HYIDAGYLGF_ 0 0 0 ENSG00000115207|ENST00000264720|GTF3C2 ENSG00000115207|ENST00000264720|GTF3C2 ENSG00000115207|ENST00000264720|GTF3C2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.2804565429688 2 578.277106 1154.53966 NaN NaN NaN NaN NaN NaN NaN 68.742 1 69.401 68.901 69.901 0.65924 0 0 0 0.68715 1 31511 31511 25.399 15.325 1 10223 1951 6450 6467 12039 12039 -0.03142847419394457 HYIERIQKL 9 Unmodified _HYIERIQKL_ 0 0 0 ENST00000354485.5_1_9:676972-730286:+|nuORF;ENST00000489369.5_1_9:676972-732786:+|nuORF;nc|ENSG00000107104|Q14678-2|KANK1;ENSG00000107104|ENST00000382297|KANK1 ENST00000354485.5_1_9:676972-730286:+|nuORF ENST00000354485.5_1_9:676972-730286:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 400.5689697265625 3 400.568024 1198.68224 2.7514 0.0011021 -0.51055 -0.00020451 2.2409 0.00089762 400.5678314750736 25.346 0.22673 25.346 25.237 25.464 0 86 51 2 0 0 0 0.0026238 2 11378 11343;11378 97.741 46.253 1 10737000 10224 1589 6451 6468 12040;12041 12041 0.0908478504265986 HYIERIQKL 9 Unmodified _HYIERIQKL_ 0 0 0 ENST00000354485.5_1_9:676972-730286:+|nuORF;ENST00000489369.5_1_9:676972-732786:+|nuORF;nc|ENSG00000107104|Q14678-2|KANK1;ENSG00000107104|ENST00000382297|KANK1 ENST00000354485.5_1_9:676972-730286:+|nuORF ENST00000354485.5_1_9:676972-730286:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 400.5686340332031 3 400.568024 1198.68224 2.3337 0.00093482 -0.25459 -0.00010198 2.0792 0.00083284 400.56792196164287 24.44 0.2688 25.176 25.057 25.326 0.73623 114 44 3 0 0 0 0.0016705 3 10998 10908;10954;10998 107.56 35.748 1 10190000 10225 1589 6451 6468 12042;12043;12044 12044 0.0908478504265986 HYIERIQKL 9 Unmodified _HYIERIQKL_ 0 0 0 ENST00000354485.5_1_9:676972-730286:+|nuORF;ENST00000489369.5_1_9:676972-732786:+|nuORF;nc|ENSG00000107104|Q14678-2|KANK1;ENSG00000107104|ENST00000382297|KANK1 ENST00000354485.5_1_9:676972-730286:+|nuORF ENST00000354485.5_1_9:676972-730286:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.5689697265625 3 400.568024 1198.68224 3.0995 0.0012416 -0.46771 -0.00018735 2.6318 0.0010542 400.56784459824763 25.151 0.33213 25.419 25.284 25.616 0.26777 95 38 3 0 0 0 0.0026238 3 11396 11353;11396;11439 97.741 46.253 1 4459000 10226 1589 6451 6468 12045;12046;12047 12046 0.0908478504265986 HYIERIQKL 9 Unmodified _HYIERIQKL_ 0 0 0 ENST00000354485.5_1_9:676972-730286:+|nuORF;ENST00000489369.5_1_9:676972-732786:+|nuORF;nc|ENSG00000107104|Q14678-2|KANK1;ENSG00000107104|ENST00000382297|KANK1 ENST00000354485.5_1_9:676972-730286:+|nuORF ENST00000354485.5_1_9:676972-730286:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 400.5693359375 3 400.568024 1198.68224 2.8547 0.0011435 -0.50968 -0.00020416 2.3451 0.00093936 400.5677804133889 24.798 0.12643 25.427 25.369 25.496 0.62915 35 22 2 0 0 0 0.0066378 2 11382 11332;11382 88.364 36.876 1 5872600 10227 1589 6451 6468 12048;12049 12049 0.0908478504265986 HYILHNSFF 9 Unmodified _HYILHNSFF_ 0 0 0 ENSG00000163659|ENST00000295924|TIPARP ENSG00000163659|ENST00000295924|TIPARP ENSG00000163659|ENST00000295924|TIPARP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.3334350585938 2 589.293091 1176.57163 3.7101 0.0021863 0.56146 0.00033086 4.2716 0.0025172 589.2935237633741 54.609 0.15945 54.609 54.528 54.687 0 26 16 2 0 0 0 0.0017071 2 25051 25051;25068 107.19 74.882 1 1626900 10228 4239 6452 6469 12050;12051 12050 -0.009594349455710471 HYILHNSFF 9 Unmodified _HYILHNSFF_ 0 0 0 ENSG00000163659|ENST00000295924|TIPARP ENSG00000163659|ENST00000295924|TIPARP ENSG00000163659|ENST00000295924|TIPARP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.294921875 2 589.293091 1176.57163 3.1969 0.0018839 0.36518 0.0002152 3.5621 0.0020991 589.2930482944888 53.386 0.21336 54.189 54.098 54.312 0.8035 44 19 3 0 0 0 0.0029142 1 24349 24349 96.111 70.712 1 2234400 10229 4239 6452 6469 12052 12052 -0.009594349455710471 HYILHNSFF 9 Unmodified _HYILHNSFF_ 0 0 0 ENSG00000163659|ENST00000295924|TIPARP ENSG00000163659|ENST00000295924|TIPARP ENSG00000163659|ENST00000295924|TIPARP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.294677734375 2 589.293091 1176.57163 3.3436 0.0019703 0.69058 0.00040695 4.0341 0.0023773 589.2934964781556 54.514 0.26601 54.779 54.617 54.883 0.26506 20 11 2 0 0 0 0.012748 2 24895 24895;24945 78.149 61.036 1 717590 10230 4239 6452 6469 12053;12054 12053 -0.009594349455710471 HYILHNSFF 9 Unmodified _HYILHNSFF_ 0 0 0 ENSG00000163659|ENST00000295924|TIPARP ENSG00000163659|ENST00000295924|TIPARP ENSG00000163659|ENST00000295924|TIPARP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.2954711914062 2 589.293091 1176.57163 3.4983 0.0020615 0.49662 0.00029266 3.995 0.0023542 589.2932239120054 53.819 0.1666 54.484 54.349 54.516 0.6644 18 7 3 0 0 0 0.0017071 1 24594 24594 107.19 74.882 1 864190 10231 4239 6452 6469 12055 12055 -0.009594349455710471 HYIPRAVLL 9 Unmodified _HYIPRAVLL_ 0 0 0 ENST00000589613.1_1_17:40761741-40762767:+|nuORF;ENST00000588056.1_1_17:40761755-40764233:+|nuORF;ENST00000588870.1_1_17:40811874-40817754:+|nuORF;ENST00000418303.1_1_7:43958366-43959461:+|nuORF;ENSG00000131462|ENST00000251413|TUBG1;ENSG00000037042|ENST00000251412|TUBG2 ENST00000589613.1_1_17:40761741-40762767:+|nuORF ENST00000589613.1_1_17:40761741-40762767:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.3306884765625 2 541.329476 1080.6444 2.983 0.0016148 1.1386 0.00061634 4.1216 0.0022311 541.3298677042179 47.273 0.25785 48.102 47.957 48.215 0.82915 22 13 2 0 0 0 0.062556 1 21557 21557 42.095 13.608 1 661540 10232 515 6453 6470 12056 12056 0.1073031884784541 HYIPRAVLL 9 Unmodified _HYIPRAVLL_ 0 0 0 ENST00000589613.1_1_17:40761741-40762767:+|nuORF;ENST00000588056.1_1_17:40761755-40764233:+|nuORF;ENST00000588870.1_1_17:40811874-40817754:+|nuORF;ENST00000418303.1_1_7:43958366-43959461:+|nuORF;ENSG00000131462|ENST00000251413|TUBG1;ENSG00000037042|ENST00000251412|TUBG2 ENST00000589613.1_1_17:40761741-40762767:+|nuORF ENST00000589613.1_1_17:40761741-40762767:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.3309936523438 2 541.329476 1080.6444 3.4704 0.0018786 -1.4475 -0.00078357 2.0229 0.0010951 541.3292194364053 48.014 0.32315 48.276 48.134 48.457 0.26209 22 12 2 0 0 0 0.062556 1 21969 21969 42.095 13.608 1 543770 10233 515 6453 6470 12057 12057 0.1073031884784541 HYIPRAVLL 9 Unmodified _HYIPRAVLL_ 0 0 0 ENST00000589613.1_1_17:40761741-40762767:+|nuORF;ENST00000588056.1_1_17:40761755-40764233:+|nuORF;ENST00000588870.1_1_17:40811874-40817754:+|nuORF;ENST00000418303.1_1_7:43958366-43959461:+|nuORF;ENSG00000131462|ENST00000251413|TUBG1;ENSG00000037042|ENST00000251412|TUBG2 ENST00000589613.1_1_17:40761741-40762767:+|nuORF ENST00000589613.1_1_17:40761741-40762767:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.3313598632812 2 541.329476 1080.6444 3.3726 0.0018257 -1.5347 -0.00083077 1.8379 0.00099492 541.3288362202472 47.368 0.31683 48.021 47.855 48.172 0.65356 20 13 2 0 0 0 0.086747 2 21686 21686;21753 36.044 12.896 1 344510 10234 515 6453 6470 12058;12059 12058 0.1073031884784541 HYIRKYNRF 9 Unmodified _HYIRKYNRF_ 0 0 0 ENSG00000142534|ENST00000270625|RPS11 ENSG00000142534|ENST00000270625|RPS11 ENSG00000142534|ENST00000270625|RPS11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 432.9045715332031 3 432.903518 1295.68872 3.0421 0.0013169 -0.35121 -0.00015204 2.6909 0.0011649 432.9033527142444 12.72 0.11014 12.72 12.66 12.77 0 12 6 2 0 0 0 0.041436 1 5547 5547 45.7 32.844 1 1539500 10235 3314 6454 6471 12060 12060 0.05270722994009702 HYISDVYDI 9 Unmodified _HYISDVYDI_ 0 0 0 nc|ENSG00000135913|Q86T82-2|USP37;ENSG00000135913|ENST00000258399|USP37 nc|ENSG00000135913|Q86T82-2|USP37 nc|ENSG00000135913|Q86T82-2|USP37 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.7666015625 2 562.766571 1123.51859 3.0783 0.0017324 -1.0094 -0.00056804 2.069 0.0011643 562.7657093491054 54.064 0.25859 54.86 54.751 55.009 0.79552 21 14 2 0 0 0 0.29781 2 24692 24692;24705 16.942 4.4107 1 270010 10236 2907 6455 6472 12061;12062 12061 -0.03822857518912315 HYKPTPLYF 9 Unmodified _HYKPTPLYF_ 0 0 0 ENST00000462668.5_1_3:160131924-160151594:+|nuORF;nc|ENSG00000113810|Q9NTJ3-2|SMC4;SMC4|p.N1243Mfs*5|1|0.2|ENSG00000113810|chr3:160433665-160433665|A/-|frameshift_variant;ENSG00000113810|ENST00000357388|SMC4 ENST00000462668.5_1_3:160131924-160151594:+|nuORF ENST00000462668.5_1_3:160131924-160151594:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.3075561523438 2 583.305667 1164.59678 3.3872 0.0019758 0.092595 5.4011E-05 3.4798 0.0020298 583.3057052148597 46.788 0.34628 46.788 46.62 46.967 0 29 11 3 0 0 0 0.016529 2 21377 21377;21438 72.968 51.221 1 2521000 10237 1875 6456 6473 12063;12064 12063 0.02106619856999714 HYKPTPLYF 9 Unmodified _HYKPTPLYF_ 0 0 0 ENST00000462668.5_1_3:160131924-160151594:+|nuORF;nc|ENSG00000113810|Q9NTJ3-2|SMC4;SMC4|p.N1243Mfs*5|1|0.2|ENSG00000113810|chr3:160433665-160433665|A/-|frameshift_variant;ENSG00000113810|ENST00000357388|SMC4 ENST00000462668.5_1_3:160131924-160151594:+|nuORF ENST00000462668.5_1_3:160131924-160151594:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 583.3069458007812 2 583.305667 1164.59678 3.1745 0.0018517 -0.077874 -4.5424E-05 3.0967 0.0018063 583.305459361083 45.663 0.31465 46.489 46.332 46.647 0.82621 38 16 3 0 0 0 0.014491 2 20813 20759;20813 75.761 39.717 1 2169000 10238 1875 6456 6473 12065;12066 12066 0.02106619856999714 HYKPTPLYF 9 Unmodified _HYKPTPLYF_ 0 0 0 ENST00000462668.5_1_3:160131924-160151594:+|nuORF;nc|ENSG00000113810|Q9NTJ3-2|SMC4;SMC4|p.N1243Mfs*5|1|0.2|ENSG00000113810|chr3:160433665-160433665|A/-|frameshift_variant;ENSG00000113810|ENST00000357388|SMC4 ENST00000462668.5_1_3:160131924-160151594:+|nuORF ENST00000462668.5_1_3:160131924-160151594:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.3076171875 2 583.305667 1164.59678 3.6288 0.0021167 0.11138 6.4971E-05 3.7402 0.0021817 583.305825258433 46.655 0.36844 46.921 46.728 47.096 0.26561 28 12 3 0 0 0 0.019364 2 21289 21289;21348 69.105 33.061 1 2476700 10239 1875 6456 6473 12067;12068 12067 0.02106619856999714 HYKPTPLYF 9 Unmodified _HYKPTPLYF_ 0 0 0 ENST00000462668.5_1_3:160131924-160151594:+|nuORF;nc|ENSG00000113810|Q9NTJ3-2|SMC4;SMC4|p.N1243Mfs*5|1|0.2|ENSG00000113810|chr3:160433665-160433665|A/-|frameshift_variant;ENSG00000113810|ENST00000357388|SMC4 ENST00000462668.5_1_3:160131924-160151594:+|nuORF ENST00000462668.5_1_3:160131924-160151594:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.3075561523438 2 583.305667 1164.59678 3.8792 0.0022628 -0.022881 -1.3346E-05 3.8563 0.0022494 583.3056382146855 46.027 0.44361 46.678 46.435 46.879 0.65104 35 13 4 0 0 0 0.0095519 2 21049 21049;21107 82.529 54.042 1 1528100 10240 1875 6456 6473 12069;12070 12069 0.02106619856999714 HYLDETEQW 9 Unmodified _HYLDETEQW_ 0 0 0 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 610.7665405273438 2 610.76456 1219.51457 3.7455 0.0022876 -0.020004 -1.2218E-05 3.7254 0.0022754 610.7641784270791 46.887 0.23807 47.151 47.009 47.247 0.26363 12 7 2 0 0 0 0.032303 1 21460 21460 54.774 39.935 1 336370 10241 2416 6457 6474 12071 12071 -0.08640947012622746 HYLDETEQW 9 Unmodified _HYLDETEQW_ 0 0 0 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.2682495117188 2 610.76456 1219.51457 3.7996 0.0023206 -0.80199 -0.00048983 2.9976 0.0018308 610.763699410083 46.372 0.17345 47.024 46.939 47.113 0.65219 10 7 2 0 0 0 0.047285 1 21265 21265 48.346 40.19 1 384350 10242 2416 6457 6474 12072 12072 -0.08640947012622746 HYLNHWNHF 9 Unmodified _HYLNHWNHF_ 0 0 0 ENSG00000141560|ENST00000269373|FN3KRP ENSG00000141560|ENST00000269373|FN3KRP ENSG00000141560|ENST00000269373|FN3KRP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 423.19757080078125 3 423.196701 1266.56827 2.7557 0.0011662 0.44556 0.00018856 3.2012 0.0013548 423.19690285672704 33.019 0.25733 33.019 32.842 33.099 0 26 15 2 0 0 0 0.15661 1 14917 14917 26.268 17.523 1 243960 10243 3270 6458 6475 12073 12073 -0.054346849995909 HYLNHWNHF 9 Unmodified _HYLNHWNHF_ 0 0 0 ENSG00000141560|ENST00000269373|FN3KRP ENSG00000141560|ENST00000269373|FN3KRP ENSG00000141560|ENST00000269373|FN3KRP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 423.1982727050781 3 423.196701 1266.56827 2.9639 0.0012543 0.54844 0.0002321 3.5124 0.0014864 423.19704787828607 32.15 0.24431 32.768 32.684 32.928 0.61832 24 13 2 0 0 0 0.46674 1 14777 14777 13.042 8.853 1 134710 10244 3270 6458 6475 12074 12074 -0.054346849995909 HYLPDLHHL 9 Unmodified _HYLPDLHHL_ 0 0 0 ENSG00000130702|ENST00000252999|LAMA5 ENSG00000130702|ENST00000252999|LAMA5 ENSG00000130702|ENST00000252999|LAMA5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.20257568359375 3 382.201452 1143.58253 2.954 0.001129 0.10806 4.13E-05 3.0621 0.0011703 382.5359148761055 40.642 0.22287 41.283 41.229 41.452 0.64135 24 14 2 0 0 0 0.050606 2 18596 18596;18650 41.84 29.599 1 423980 10245 2608 6459 6476 12075;12076 12075 0.01647967428721131 HYLPDLHHL 9 Unmodified _HYLPDLHHL_ 0 0 0 ENSG00000130702|ENST00000252999|LAMA5 ENSG00000130702|ENST00000252999|LAMA5 ENSG00000130702|ENST00000252999|LAMA5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 382.201452 1143.58253 2.4352 0.00093074 -0.16059 -6.1379E-05 2.2746 0.00086936 382.20137026693794 40.636 0.10269 41.44 41.353 41.456 0.8035 0.078263 -0.00017472 NaN 41.84 9 7 2 NaN NaN NaN NaN 0 NaN NaN 0 3147300 10246 2608 6459 6476 0.01647967428721131 HYLREVQAF 9 Unmodified _HYLREVQAF_ 0 0 0 nc|ENSG00000100852|Q13017-2|ARHGAP5;ENSG00000100852|ENST00000345122|ARHGAP5;ENST00000407916.2_1_7:55001700-55002231:+|nuORF;ARHGAP5|p.N234Tfs*50|1|0.41|ENSG00000100852|chr14:32091369-32091369|A/-|frameshift_variant nc|ENSG00000100852|Q13017-2|ARHGAP5 nc|ENSG00000100852|Q13017-2|ARHGAP5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 387.85125732421875 3 388.204974 1161.59309 2.5418 0.00098673 -0.45869 -0.00017806 2.0831 0.00080867 388.20514190921926 36.898 0.11601 37.692 37.614 37.73 0.79342 5 4 2 0 0 0 0.11236 1 16701 16701 2.9952 2.2187 1 108400 10247 1245 6460 6477 12077 12077 0.01875950083126554 HYMPPPYASL 10 Unmodified _HYMPPPYASL_ 0 0 0 ENSG00000157450|ENST00000348370|RNF111;nc|ENSG00000157450|Q6ZNA4|RNF111;nc|ENSG00000157450|Q6ZNA4-4|RNF111;nc|ENSG00000157450|Q6ZNA4-3|RNF111 ENSG00000157450|ENST00000348370|RNF111 ENSG00000157450|ENST00000348370|RNF111 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 588.2852783203125 2 588.281334 1174.54812 3.7553 0.0022092 -0.0035518 -2.0894E-06 3.7518 0.0022071 588.2812588177732 53.45 0.52966 53.45 53.112 53.641 0 48 36 2 0 0 0 4.7265E-14 2 24494 24414;24494 161.89 129.11 1 1269800 10248 3951 6461 6478 12078;12079 12079 -0.03217616774418275 HYMPPPYASL 10 Unmodified _HYMPPPYASL_ 0 0 0 ENSG00000157450|ENST00000348370|RNF111;nc|ENSG00000157450|Q6ZNA4|RNF111;nc|ENSG00000157450|Q6ZNA4-4|RNF111;nc|ENSG00000157450|Q6ZNA4-3|RNF111 ENSG00000157450|ENST00000348370|RNF111 ENSG00000157450|ENST00000348370|RNF111 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.2830200195312 2 588.281334 1174.54812 3.0007 0.0017652 0.064658 3.8037E-05 3.0653 0.0018033 588.2814232566164 52.307 0.75945 53.118 52.834 53.593 0.81065 117 50 3 0 0 0 4.7265E-14 4 23819 23767;23819;23861;23919 161.89 129.11 1 1466700 10249 3951 6461 6478 12080;12081;12082;12083 12081 -0.03217616774418275 HYMPPPYASL 10 Unmodified _HYMPPPYASL_ 0 0 0 ENSG00000157450|ENST00000348370|RNF111;nc|ENSG00000157450|Q6ZNA4|RNF111;nc|ENSG00000157450|Q6ZNA4-4|RNF111;nc|ENSG00000157450|Q6ZNA4-3|RNF111 ENSG00000157450|ENST00000348370|RNF111 ENSG00000157450|ENST00000348370|RNF111 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.2835083007812 2 588.281334 1174.54812 3.6521 0.0021485 0.25629 0.00015077 3.9084 0.0022992 588.783213981881 53.077 0.37247 53.34 53.011 53.384 0.26344 29 24 2 0 0 0 1.3653E-08 1 24236 24236 137.59 104.8 1 1152300 10250 3951 6461 6478 12084 12084 -0.03217616774418275 HYMPPPYASL 10 Unmodified _HYMPPPYASL_ 0 0 0 ENSG00000157450|ENST00000348370|RNF111;nc|ENSG00000157450|Q6ZNA4|RNF111;nc|ENSG00000157450|Q6ZNA4-4|RNF111;nc|ENSG00000157450|Q6ZNA4-3|RNF111 ENSG00000157450|ENST00000348370|RNF111 ENSG00000157450|ENST00000348370|RNF111 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.2890014648438 2 588.281334 1174.54812 3.6549 0.0021501 0.14041 8.2601E-05 3.7953 0.0022327 588.7829586556267 53.174 0.43528 53.437 53.36 53.796 0.26345 46 28 2 0 0 0 6.4149E-06 4 24305 24305;24326;24372;24422 123.1 101.35 1 1620700 10251 3951 6461 6478 12085;12086;12087;12088 12085 -0.03217616774418275 HYMPPPYASL 10 Unmodified _HYMPPPYASL_ 0 0 0 ENSG00000157450|ENST00000348370|RNF111;nc|ENSG00000157450|Q6ZNA4|RNF111;nc|ENSG00000157450|Q6ZNA4-4|RNF111;nc|ENSG00000157450|Q6ZNA4-3|RNF111 ENSG00000157450|ENST00000348370|RNF111 ENSG00000157450|ENST00000348370|RNF111 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.2842407226562 2 588.281334 1174.54812 3.4112 0.0020068 0.44132 0.00025962 3.8526 0.0022664 588.2818812390183 52.712 0.55466 53.374 53.126 53.681 0.66198 37 31 2 0 0 0 6.4149E-06 3 24107 24058;24107;24208 123.1 101.35 1 1467700 10252 3951 6461 6478 12089;12090;12091 12090 -0.03217616774418275 HYNSHYEKF 9 Unmodified _HYNSHYEKF_ 0 0 0 nc|ENSG00000148219|O75129-2|ASTN2;nc|ENSG00000148219|O75129-3|ASTN2;ENSG00000148219|ENST00000313400|ASTN2;nc|ENSG00000148219|O75129-6|ASTN2;nc|ENSG00000148219|O75129-4|ASTN2 nc|ENSG00000148219|O75129-2|ASTN2 nc|ENSG00000148219|O75129-2|ASTN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.18756103515625 3 408.8526 1223.53597 2.3449 0.00095872 -0.056425 -2.3069E-05 2.2885 0.00093565 408.8524819465054 13.095 0.195 13.339 13.244 13.439 0.24346 26 15 2 0 0 0 0.17594 2 5682 5682;5728 24.991 19.694 1 363380 10253 3594 6462 6479 12092;12093 12092 -0.06685517193250234 HYNSHYEKF 9 Unmodified _HYNSHYEKF_ 0 0 0 nc|ENSG00000148219|O75129-2|ASTN2;nc|ENSG00000148219|O75129-3|ASTN2;ENSG00000148219|ENST00000313400|ASTN2;nc|ENSG00000148219|O75129-6|ASTN2;nc|ENSG00000148219|O75129-4|ASTN2 nc|ENSG00000148219|O75129-2|ASTN2 nc|ENSG00000148219|O75129-2|ASTN2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 408.8526 1223.53597 2.3894 0.00097692 0.21693 8.8692E-05 2.6063 0.0010656 408.8529075926224 13.045 0.14725 13.353 13.279 13.426 0.30727 0.0068686 0.00023081 NaN 24.991 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 77442 10254 3594 6462 6479 -0.06685517193250234 HYNWLIYHL 9 Unmodified _HYNWLIYHL_ 0 0 0 nc|ENSG00000174953|Q9H2U1-3|DHX36;nc|ENSG00000174953|Q9H2U1-2|DHX36;ENSG00000174953|ENST00000496811|DHX36;ENST00000477549.1_1_3:153994520-153995479:-|nuORF nc|ENSG00000174953|Q9H2U1-3|DHX36 nc|ENSG00000174953|Q9H2U1-3|DHX36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 629.8248291015625 2 629.822015 1257.62948 4.0145 0.0025284 -0.077451 -4.878E-05 3.9371 0.0024797 629.8220227724912 68.465 0.23864 68.718 68.603 68.842 0.25227 29 18 2 0 0 0 0.012869 1 31375 31375 77.984 67.185 1 564460 10255 5005 6463 6480 12094 12094 0.0109682697984681 HYNWLIYHL 9 Unmodified _HYNWLIYHL_ 0 0 0 nc|ENSG00000174953|Q9H2U1-3|DHX36;nc|ENSG00000174953|Q9H2U1-2|DHX36;ENSG00000174953|ENST00000496811|DHX36;ENST00000477549.1_1_3:153994520-153995479:-|nuORF nc|ENSG00000174953|Q9H2U1-3|DHX36 nc|ENSG00000174953|Q9H2U1-3|DHX36 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 629.822015 1257.62948 3.7355 0.0023527 -0.84779 -0.00053396 2.8877 0.0018187 629.8211690447908 67.954 0.17177 68.612 68.524 68.696 0.65777 -0.052928 -0.00053804 NaN 77.984 14 11 2 NaN NaN NaN NaN 0 NaN NaN 0 464120 10256 5005 6463 6480 0.0109682697984681 HYPLNTVTF 9 Unmodified _HYPLNTVTF_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1;ENST00000490566.1_1_2:218669184-218678576:-|nuORF nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.2825927734375 2 546.279649 1090.54475 3.5735 0.0019521 0.12862 7.0263E-05 3.7021 0.0020224 546.2796336255877 55.699 0.35091 55.699 55.459 55.81 0 61 27 3 0 0 0 0.025323 2 25533 25533;25582 61.357 23.383 1 4417400 10257 892 6464 6481 12095;12096 12095 0.003094564432331026 HYPLNTVTF 9 Unmodified _HYPLNTVTF_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1;ENST00000490566.1_1_2:218669184-218678576:-|nuORF nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.2810668945312 2 546.279649 1090.54475 2.8195 0.0015402 -0.15782 -8.6216E-05 2.6617 0.001454 546.2794121118917 54.606 0.58386 55.402 55.035 55.619 0.79552 89 36 3 0 0 0 0.017868 3 24869 24819;24869;24935 71.134 27.275 1 2848000 10258 892 6464 6481 12097;12098;12099 12098 0.003094564432331026 HYPLNTVTF 9 Unmodified _HYPLNTVTF_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1;ENST00000490566.1_1_2:218669184-218678576:-|nuORF nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.2811279296875 2 546.279649 1090.54475 3.3817 0.0018473 -0.16915 -9.2402E-05 3.2125 0.0017549 546.2794495667347 55.646 0.47471 55.912 55.596 56.071 0.26543 49 26 2 0 0 0 0.017868 4 25395 25346;25395;25441;25507 71.134 27.275 1 4446100 10259 892 6464 6481 12100;12101;12102;12103 12101 0.003094564432331026 HYPLNTVTF 9 Unmodified _HYPLNTVTF_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1;ENST00000490566.1_1_2:218669184-218678576:-|nuORF nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.2808837890625 2 546.279649 1090.54475 3.4739 0.0018977 -0.512 -0.0002797 2.9618 0.001618 546.2791559732133 54.783 0.36152 55.449 55.312 55.674 0.6665 58 23 3 0 0 0 0.017868 3 25138 25021;25080;25138 71.134 27.275 1 3221000 10260 892 6464 6481 12104;12105;12106 12106 0.003094564432331026 HYPPVQVLF 9 Unmodified _HYPPVQVLF_ 0 0 0 nc|ENSG00000116062|P52701-2|MSH6;ENSG00000116062|ENST00000234420|MSH6;nc|ENSG00000116062|P52701-4|MSH6;nc|ENSG00000116062|P52701-3|MSH6 nc|ENSG00000116062|P52701-2|MSH6 nc|ENSG00000116062|P52701-2|MSH6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.301025390625 2 550.300384 1098.58622 3.0024 0.0016522 -0.29799 -0.00016398 2.7044 0.0014882 550.3002769204794 68.867 0.55521 68.867 68.467 69.022 0 87 66 2 0 0 0 0.056465 3 33209 33050;33136;33209 44.407 27.465 1 3089200 10261 2011 6465 6482 12107;12108;12109 12109 0.040866372025675446 HYPPVQVLF 9 Unmodified _HYPPVQVLF_ 0 0 0 nc|ENSG00000116062|P52701-2|MSH6;ENSG00000116062|ENST00000234420|MSH6;nc|ENSG00000116062|P52701-4|MSH6;nc|ENSG00000116062|P52701-3|MSH6 nc|ENSG00000116062|P52701-2|MSH6 nc|ENSG00000116062|P52701-2|MSH6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.8032836914062 2 550.300384 1098.58622 2.6261 0.0014451 -0.34561 -0.00019019 2.2805 0.0012549 550.3000585350754 67.8 0.23292 68.502 68.437 68.67 0.70218 55 31 2 0 0 0 0.10245 1 32307 32307 32.117 15.175 1 3093300 10262 2011 6465 6482 12110 12110 0.040866372025675446 HYPPVQVLF 9 Unmodified _HYPPVQVLF_ 0 0 0 nc|ENSG00000116062|P52701-2|MSH6;ENSG00000116062|ENST00000234420|MSH6;nc|ENSG00000116062|P52701-4|MSH6;nc|ENSG00000116062|P52701-3|MSH6 nc|ENSG00000116062|P52701-2|MSH6 nc|ENSG00000116062|P52701-2|MSH6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.3017578125 2 550.300384 1098.58622 3.8375 0.0021118 0.10997 6.0517E-05 3.9475 0.0021723 550.3002170205767 68.505 0.63029 68.758 68.316 68.946 0.25227 117 44 3 0 0 0 0.050606 6 31253 31206;31253;31300;31349;31394;31442 46.921 29.979 1 1059600 10263 2011 6465 6482 12111;12112;12113;12114;12115;12116 12112 0.040866372025675446 HYPPVQVLF 9 Unmodified _HYPPVQVLF_ 0 0 0 nc|ENSG00000116062|P52701-2|MSH6;ENSG00000116062|ENST00000234420|MSH6;nc|ENSG00000116062|P52701-4|MSH6;nc|ENSG00000116062|P52701-3|MSH6 nc|ENSG00000116062|P52701-2|MSH6 nc|ENSG00000116062|P52701-2|MSH6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.3031005859375 2 550.300384 1098.58622 3.4457 0.0018962 0.57414 0.00031595 4.0199 0.0022121 550.3006258448937 67.972 0.59494 68.63 68.177 68.772 0.65777 91 38 3 0 0 0 0.050606 5 31136 30985;31036;31087;31136;31183 46.921 30.899 1 1242600 10264 2011 6465 6482 12117;12118;12119;12120;12121 12120 0.040866372025675446 HYQDVSCLQF 10 Carbamidomethyl (C) _HYQDVSC(Carbamidomethyl (C))LQF_ HYQDVSC(1)LQF HYQDVSC(68)LQF 0 1 0 ENSG00000065268|ENST00000585809|WDR18 ENSG00000065268|ENST00000585809|WDR18 ENSG00000065268|ENST00000585809|WDR18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 648.7899780273438 2 648.787512 1295.56047 3.8798 0.0025172 0.0089624 5.8147E-06 3.8888 0.002523 648.7874339341096 53.229 0.24358 53.229 53.097 53.341 0 28 14 3 0 0 0 0.02707 1 24383 24383 67.838 46.301 1 1636100 10265 685 6466 6483 12122 12122 12 -0.075486251020493 HYQDVSCLQF 10 Carbamidomethyl (C) _HYQDVSC(Carbamidomethyl (C))LQF_ HYQDVSC(1)LQF HYQDVSC(86)LQF 0 1 0 ENSG00000065268|ENST00000585809|WDR18 ENSG00000065268|ENST00000585809|WDR18 ENSG00000065268|ENST00000585809|WDR18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.789306640625 2 648.787512 1295.56047 3.2273 0.0020939 0.55834 0.00036224 3.7857 0.0024561 648.7877008811056 52.158 0.2714 52.968 52.834 53.105 0.81066 45 18 3 0 0 0 0.014734 2 23757 23715;23757 86.332 60.064 1 1230100 10266 685 6466 6483 12123;12124 12124 12 -0.075486251020493 HYQDVSCLQF 10 Carbamidomethyl (C) _HYQDVSC(Carbamidomethyl (C))LQF_ HYQDVSC(1)LQF HYQDVSC(48)LQF 0 1 0 ENSG00000065268|ENST00000585809|WDR18 ENSG00000065268|ENST00000585809|WDR18 ENSG00000065268|ENST00000585809|WDR18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 649.2913208007812 2 648.787512 1295.56047 3.8914 0.0025247 0.94603 0.00061377 4.8375 0.0031385 648.7880928903154 53.035 0.18427 53.299 53.2 53.384 0.26345 24 14 2 0 0 0 0.13656 1 24258 24258 47.594 30.481 1 1198500 10267 685 6466 6483 12125 12125 12 -0.075486251020493 HYQDVSCLQF 10 Carbamidomethyl (C) _HYQDVSC(Carbamidomethyl (C))LQF_ HYQDVSC(1)LQF HYQDVSC(59)LQF 0 1 0 ENSG00000065268|ENST00000585809|WDR18 ENSG00000065268|ENST00000585809|WDR18 ENSG00000065268|ENST00000585809|WDR18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 648.791748046875 2 648.787512 1295.56047 3.7479 0.0024316 0.24512 0.00015903 3.993 0.0025906 648.7876348065246 52.641 0.24208 53.303 53.099 53.341 0.66198 21 12 2 0 0 0 0.062259 1 24068 24068 59.368 33.1 1 1205500 10268 685 6466 6483 12126 12126 12 -0.075486251020493 HYQFHRFRQYF 11 Unmodified _HYQFHRFRQYF_ 0 0 0 REV__ENSG00000196652|ENST00000326775|ZKSCAN5 REV__ENSG00000196652|ENST00000326775|ZKSCAN5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 814.8960571289062 2 814.897109 1627.77966 NaN NaN NaN NaN NaN NaN NaN 35.418 1 36.045 35.545 36.545 0.62631 0 0 0 1.0082 1 16226 16226 0 0 1 + 10269 14237 6467 6484 12127 12127 -0.009114330285228789 HYQFRSSELIA 11 Unmodified _HYQFRSSELIA_ 0 0 0 REV__ENSG00000138653|ENST00000264363|NDST4 REV__ENSG00000138653|ENST00000264363|NDST4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 675.8474731445312 2 675.843676 1349.6728 3.6332 0.0024555 -0.0046846 -3.166E-06 3.6286 0.0024523 675.8441057270239 51.582 0.20831 51.844 51.761 51.969 0.26227 18 10 2 0 0 0 0.89844 1 23630 23630 2.4985 1.0166 1 581560 + 10270 12180 6468 6485 12128 12128 0.011949719664926306 HYSEHEAALL 10 Unmodified _HYSEHEAALL_ 0 0 0 ENSG00000120658|ENST00000690772|ENOX1;nc|ENSG00000120658|Q8TC92-2|ENOX1 ENSG00000120658|ENST00000690772|ENOX1 ENSG00000120658|ENST00000690772|ENOX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 390.1907958984375 3 390.524372 1168.55129 NaN NaN NaN NaN NaN NaN NaN 22.247 1 22.834 22.334 23.334 0.58739 0 0 0 0.83354 1 9896 9896 13.615 4.8695 1 10271 2202 6469 6486 12129 12129 -0.026246503960464906 HYSRWHERP 9 Unmodified _HYSRWHERP_ 0 0 0 ENST00000488484.1_1_22:20105172-20110015:+|nuORF ENST00000488484.1_1_22:20105172-20110015:+|nuORF ENST00000488484.1_1_22:20105172-20110015:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 634.30517578125 2 634.307595 1266.60064 NaN NaN NaN NaN NaN NaN NaN 49.021 1 49.676 49.176 50.176 0.65524 0 0 0 0.87786 1 22427 22427 6.7232 0.51738 1 10272 8367 6470 6487 12130 12130 -0.021998975965971113 HYSTLVHMF 9 Unmodified _HYSTLVHMF_ 0 0 0 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.7752075195312 2 567.773677 1133.5328 3.3874 0.0019233 -0.19297 -0.00010956 3.1944 0.0018137 567.7737345109592 52.015 0.29202 52.015 51.871 52.163 0 37 19 3 0 0 0 0.078322 1 23878 23878 38.151 32.391 1 1031900 10273 1540 6471 6488 12131 12131 -0.028624835716072994 HYSTLVHMF 9 Unmodified _HYSTLVHMF_ 0 0 0 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.775390625 2 567.773677 1133.5328 NaN NaN NaN NaN NaN NaN NaN 51.794 1 52.057 51.557 52.557 0.26227 0 0 0 0.0064722 1 23673 23673 89.427 58.79 1 10274 1540 6471 6488 12132 12132 -0.028624835716072994 HYSTLVHMF 9 Unmodified _HYSTLVHMF_ 0 0 0 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.775146484375 2 567.773677 1133.5328 NaN NaN NaN NaN NaN NaN NaN 51.197 1 51.857 51.357 52.357 0.65956 0 0 0 0.027384 1 23411 23411 60.39 41.133 1 10275 1540 6471 6488 12133 12133 -0.028624835716072994 HYSTLVHMF 9 Unmodified _HYSTLVHMF_ 0 0 0 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 567.773677 1133.5328 3.1617 0.0017951 -0.15562 -8.8355E-05 3.0061 0.0017068 567.7736520539393 51.004 0.25264 51.821 51.667 51.92 0.81738 -0.096977 1.6239E-05 NaN 38.151 33 14 3 NaN NaN NaN NaN 0 NaN NaN 0 1433500 10276 1540 6471 6488 -0.028624835716072994 HYTLIVKAL 9 Unmodified _HYTLIVKAL_ 0 0 0 ENSG00000083857|ENST00000441802|FAT1;FAT1|p.S1928Lfs*17|1|0.08|ENSG00000083857|chr4:186620804-186620804|A/-|frameshift_variant ENSG00000083857|ENST00000441802|FAT1 ENSG00000083857|ENST00000441802|FAT1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.7528686523438 2 529.32386 1056.63317 3.0653 0.0016225 0.00071523 3.7859E-07 3.066 0.0016229 529.3239952435299 50.04 0.09885 50.04 49.973 50.072 0 6 4 2 0 0 0 0.0022751 1 22906 22906 60.074 33.19 1 256510 10277 946 6472 6489 12134 12134 0.10711496753697247 HYTRLIFVF 9 Unmodified _HYTRLIFVF_ 0 0 0 ENST00000438124.2_1_11:68505178-68506175:-|nuORF ENST00000438124.2_1_11:68505178-68506175:-|nuORF ENST00000438124.2_1_11:68505178-68506175:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 598.3369750976562 2 598.334759 1194.65496 2.7373 0.0016378 -0.067859 -4.0603E-05 2.6695 0.0015972 598.3349637624938 68.762 0.28613 68.762 68.577 68.863 0 79 33 3 0 0 0 0.01463 2 33101 33051;33101 92.653 73.396 1 5312200 10278 7914 6473 6490 12135;12136 12136 0.06542301502281589 HYTRLIFVF 9 Unmodified _HYTRLIFVF_ 0 0 0 ENST00000438124.2_1_11:68505178-68506175:-|nuORF ENST00000438124.2_1_11:68505178-68506175:-|nuORF ENST00000438124.2_1_11:68505178-68506175:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.2261657714844 3 399.225598 1194.65496 2.0105 0.00080265 -0.67108 -0.00026791 1.3394 0.00053474 399.22522232849053 68.766 0.15804 68.766 68.627 68.785 0 23 15 2 0 0 0 0.51799 1 33126 33126 12.175 3.1985 1 1327100 10279 7914 6473 6490 12137 12137 0.06542301502281589 HYTRLIFVF 9 Unmodified _HYTRLIFVF_ 0 0 0 ENST00000438124.2_1_11:68505178-68506175:-|nuORF ENST00000438124.2_1_11:68505178-68506175:-|nuORF ENST00000438124.2_1_11:68505178-68506175:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.337158203125 2 598.334759 1194.65496 4.0315 0.0024122 -0.26922 -0.00016109 3.7623 0.0022511 598.3347376602791 68.537 0.23241 68.789 68.643 68.875 0.25227 35 18 2 0 0 0 0.039961 1 31395 31395 63.961 46.848 1 1084400 10280 7914 6473 6490 12138 12138 0.06542301502281589 HYTRLIFVF 9 Unmodified _HYTRLIFVF_ 0 0 0 ENST00000438124.2_1_11:68505178-68506175:-|nuORF ENST00000438124.2_1_11:68505178-68506175:-|nuORF ENST00000438124.2_1_11:68505178-68506175:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 598.334759 1194.65496 3.9182 0.0023444 -0.44659 -0.00026721 3.4716 0.0020772 598.3343125843337 67.929 0.26764 68.587 68.416 68.684 0.65777 -0.12589 -0.0002642 NaN 92.653 33 16 3 NaN NaN NaN NaN 0 NaN NaN 0 1023700 10281 7914 6473 6490 0.06542301502281589 HYTYILEVF 9 Unmodified _HYTYILEVF_ 0 0 0 ENSG00000151012|ENST00000280612|SLC7A11 ENSG00000151012|ENST00000280612|SLC7A11 ENSG00000151012|ENST00000280612|SLC7A11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.8030395507812 2 592.802957 1183.59136 3.4116 0.0020224 0.32966 0.00019542 3.7413 0.0022178 593.3045035033267 80.418 0.15623 80.668 80.547 80.703 0.24947 16 10 2 0 0 0 0.026068 1 37029 37029 60.39 29.753 1 518070 10282 3687 6474 6491 12139 12139 0.006908962745228564 HYVCESCDKQF 11 Unmodified _HYVCESCDKQF_ 0 0 0 nc|ENSG00000102935|Q2M1K9-2|ZNF423;nc|ENSG00000102935|Q2M1K9|ZNF423;ENSG00000102935|ENST00000563137|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 679.78173828125 2 679.77883 1357.54311 3.6278 0.0024661 -0.16039 -0.00010903 3.4674 0.0023571 680.2802224893392 50.119 0.23592 50.119 49.991 50.227 0 29 12 3 0 0 0 0.52054 1 22921 22921 18.146 5.1039 1 981750 10283 1363 6475 6492 12140 12140 -0.1213628869936656 HYVCESCDKQF 11 Unmodified _HYVCESCDKQF_ 0 0 0 nc|ENSG00000102935|Q2M1K9-2|ZNF423;nc|ENSG00000102935|Q2M1K9|ZNF423;ENSG00000102935|ENST00000563137|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 679.781005859375 2 679.77883 1357.54311 3.7429 0.0025443 -0.66415 -0.00045148 3.0787 0.0020928 679.7788724931859 49.046 0.26107 49.873 49.782 50.043 0.82705 31 13 3 0 0 0 0.66009 2 22353 22353;22404 13.042 4.2971 1 667690 10284 1363 6475 6492 12141;12142 12141 -0.1213628869936656 HYVCESCDKQF 11 Unmodified _HYVCESCDKQF_ 0 0 0 nc|ENSG00000102935|Q2M1K9-2|ZNF423;nc|ENSG00000102935|Q2M1K9|ZNF423;ENSG00000102935|ENST00000563137|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 680.2843627929688 2 679.77883 1357.54311 3.7539 0.0025519 -0.76809 -0.00052213 2.9859 0.0020297 679.7786502540032 50.037 0.27523 50.298 50.162 50.438 0.26146 20 10 3 0 0 0 0.66009 1 22889 22889 13.042 4.2971 1 801260 10285 1363 6475 6492 12143 12143 -0.1213628869936656 HYVCESCDKQF 11 Unmodified _HYVCESCDKQF_ 0 0 0 nc|ENSG00000102935|Q2M1K9-2|ZNF423;nc|ENSG00000102935|Q2M1K9|ZNF423;ENSG00000102935|ENST00000563137|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 453.52276611328125 3 453.521645 1357.54311 3.0654 0.0013902 -0.062938 -2.8544E-05 3.0025 0.0013617 453.5217484319398 49.486 0.26575 50.142 50.01 50.275 0.65525 20 9 3 0 0 0 0.81464 1 22661 22661 2.8433 0.75728 1 639090 10286 1363 6475 6492 12144 12144 -0.1213628869936656 HYVCESCDKQF 11 Unmodified _HYVCESCDKQF_ 0 0 0 nc|ENSG00000102935|Q2M1K9-2|ZNF423;nc|ENSG00000102935|Q2M1K9|ZNF423;ENSG00000102935|ENST00000563137|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 453.521645 1357.54311 2.7403 0.0012428 -0.74541 -0.00033806 1.9949 0.00090474 453.5215865794679 50.122 0.3091 50.122 49.935 50.245 0 -0.0059392 -0.00053677 NaN 2.8433 41 16 4 NaN NaN NaN NaN 0 NaN NaN 0 806130 10287 1363 6475 6492 -0.1213628869936656 HYVCESCDKQF 11 Unmodified _HYVCESCDKQF_ 0 0 0 nc|ENSG00000102935|Q2M1K9-2|ZNF423;nc|ENSG00000102935|Q2M1K9|ZNF423;ENSG00000102935|ENST00000563137|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 453.521645 1357.54311 2.8304 0.0012836 -0.7208 -0.0003269 2.1096 0.00095673 453.52161238588087 49.112 0.28117 49.939 49.762 50.043 0.82705 -0.18865 -0.00050329 NaN 2.8433 38 14 4 NaN NaN NaN NaN 0 NaN NaN 0 507200 10288 1363 6475 6492 -0.1213628869936656 HYVCESCDKQF 11 Unmodified _HYVCESCDKQF_ 0 0 0 nc|ENSG00000102935|Q2M1K9-2|ZNF423;nc|ENSG00000102935|Q2M1K9|ZNF423;ENSG00000102935|ENST00000563137|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 453.521645 1357.54311 2.7698 0.0012562 0.16319 7.4012E-05 2.933 0.0013302 453.8561048643344 50.048 0.25307 50.309 50.162 50.415 0.26146 0.18093 0.00069944 NaN 2.8433 23 9 3 NaN NaN NaN NaN 0 NaN NaN 0 716460 10289 1363 6475 6492 -0.1213628869936656 HYVEKPSTF 9 Unmodified _HYVEKPSTF_ 0 0 0 ENST00000481170.1_1_2:220366576-220368936:+|nuORF;ENSG00000144591|ENST00000313597|GMPPA;nc|ENSG00000144591|Q96IJ6-2|GMPPA ENST00000481170.1_1_2:220366576-220368936:+|nuORF ENST00000481170.1_1_2:220366576-220368936:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.2789916992188 2 554.277106 1106.53966 3.6402 0.0020177 0.41077 0.00022768 4.0509 0.0022453 554.2771001171362 22.273 0.24011 22.273 22.123 22.363 0 41 19 3 0 0 0 0.053453 2 9994 9945;9994 45.7 29.852 1 352970 10290 3436 6476 6493 12145;12146 12146 -0.009348474193984657 HYVEKPSTF 9 Unmodified _HYVEKPSTF_ 0 0 0 ENST00000481170.1_1_2:220366576-220368936:+|nuORF;ENSG00000144591|ENST00000313597|GMPPA;nc|ENSG00000144591|Q96IJ6-2|GMPPA ENST00000481170.1_1_2:220366576-220368936:+|nuORF ENST00000481170.1_1_2:220366576-220368936:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.2772216796875 2 554.277106 1106.53966 NaN NaN NaN NaN NaN NaN NaN 21.18 1 21.467 20.967 21.967 0.28662 0 0 0 0.11889 1 9600 9600 38.176 23.77 1 10291 3436 6476 6493 12147 12147 -0.009348474193984657 HYVVEVKLPAR 11 Unmodified _HYVVEVKLPAR_ 0 0 0 ENST00000512630.5_1_4:143007384-143094853:-|nuORF;ENSG00000109452|ENST00000262992|INPP4B ENST00000512630.5_1_4:143007384-143094853:-|nuORF ENST00000512630.5_1_4:143007384-143094853:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.2012939453125 4 328.44494 1309.75066 2.2917 0.00075269 -0.7441 -0.0002444 1.5476 0.00050829 328.44461151214176 43.522 0.36886 43.792 43.615 43.984 0.27021 26 13 3 0 0 0 0.13295 1 19918 19918 0.40827 0.26837 1 397510 10292 1677 6477 6494 12148 12148 0.10817029622512564 IAASMLIK 8 Unmodified _IAASMLIK_ 0 0 0 REV__ENSG00000064270|ENST00000262429|ATP2C2 REV__ENSG00000064270|ENST00000262429|ATP2C2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.7609558105469 2 423.759507 845.50446 NaN NaN NaN NaN NaN NaN NaN 101.75 1 102.07 101.57 102.57 0.31737 0 0 0 0.99035 1 47077 47077 0.69038 0 1 + 10293 10409 6478 6495 12149 12149 0.07552818519127413 IAAYRDVNILM 11 Unmodified _IAAYRDVNILM_ 0 0 0 REV__ENSG00000184574|ENST00000329858|LPAR5 REV__ENSG00000184574|ENST00000329858|LPAR5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.1917114257812 2 639.847373 1277.68019 NaN NaN NaN NaN NaN NaN NaN 108.62 1 108.67 108.17 109.17 0.04248 0 0 0 1.0061 1 58642 58642 2.7352 0.23671 1 + 10294 13980 6479 6496 12150 12150 0.052459882425182514 IACHEEPVM 9 Carbamidomethyl (C) _IAC(Carbamidomethyl (C))HEEPVM_ IAC(1)HEEPVM IAC(54)HEEPVM 0 1 0 ENST00000460402.5_1_22:19776234-19842274:-|nuORF;ENSG00000185838|ENST00000329517|GNB1L ENST00000460402.5_1_22:19776234-19842274:-|nuORF ENST00000460402.5_1_22:19776234-19842274:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.2435302734375 2 543.241352 1084.46815 3.6378 0.0019762 0.030607 1.6627E-05 3.6684 0.0019928 543.241576519605 26.973 0.2168 26.973 26.875 27.091 0 20 11 3 0 0 0 0.035095 1 12164 12164 53.576 30.839 1 317520 10295 5535 6480 6497 12151 12151 90 -0.07070426439918265 IACHEEPVM 9 Carbamidomethyl (C) _IAC(Carbamidomethyl (C))HEEPVM_ IAC(1)HEEPVM IAC(44)HEEPVM 0 1 0 ENST00000460402.5_1_22:19776234-19842274:-|nuORF;ENSG00000185838|ENST00000329517|GNB1L ENST00000460402.5_1_22:19776234-19842274:-|nuORF ENST00000460402.5_1_22:19776234-19842274:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.2434692382812 2 543.241352 1084.46815 3.3833 0.0018379 -0.21491 -0.00011675 3.1683 0.0017212 543.2412974780231 26.76 0.27358 27.025 26.867 27.14 0.26489 30 16 3 0 0 0 0.056465 1 12154 12154 44.407 27.294 1 387120 10296 5535 6480 6497 12152 12152 90 -0.07070426439918265 IADEEQKAL 9 Unmodified _IADEEQKAL_ 0 0 0 ENST00000532066.1_1_11:35745832-35827932:+|nuORF;ENSG00000166326|ENST00000299413|TRIM44 ENST00000532066.1_1_11:35745832-35827932:+|nuORF ENST00000532066.1_1_11:35745832-35827932:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.7681884765625 2 508.766571 1015.51859 3.2275 0.0016421 -0.3054 -0.00015538 2.9221 0.0014867 508.76629423004624 23.065 0.10849 23.065 23.004 23.112 0 26 20 2 0 0 0 0.0012852 1 10363 10363 121.53 25.423 1 16321000 10297 4472 6481 6498 12153 12153 0.011451424810957178 IADEEQKAL 9 Unmodified _IADEEQKAL_ 0 0 0 ENST00000532066.1_1_11:35745832-35827932:+|nuORF;ENSG00000166326|ENST00000299413|TRIM44 ENST00000532066.1_1_11:35745832-35827932:+|nuORF ENST00000532066.1_1_11:35745832-35827932:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.7674255371094 2 508.766571 1015.51859 2.6748 0.0013609 -0.080009 -4.0706E-05 2.5948 0.0013202 508.7665237090455 22.144 0.21761 22.732 22.618 22.836 0.58739 80 39 3 0 0 0 0.00038954 2 9855 9815;9855 133.05 44.149 1 6019600 10298 4472 6481 6498 12154;12155 12155 0.011451424810957178 IADEEQKAL 9 Unmodified _IADEEQKAL_ 0 0 0 ENST00000532066.1_1_11:35745832-35827932:+|nuORF;ENSG00000166326|ENST00000299413|TRIM44 ENST00000532066.1_1_11:35745832-35827932:+|nuORF ENST00000532066.1_1_11:35745832-35827932:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.7687683105469 2 508.766571 1015.51859 NaN NaN NaN NaN NaN NaN NaN 22.763 1 23.044 22.544 23.544 0.28085 0 0 0 7.0387E-07 1 10271 10271 121.53 35.893 1 10299 4472 6481 6498 12156 12156 0.011451424810957178 IADEEQKAL 9 Unmodified _IADEEQKAL_ 0 0 0 ENST00000532066.1_1_11:35745832-35827932:+|nuORF;ENSG00000166326|ENST00000299413|TRIM44 ENST00000532066.1_1_11:35745832-35827932:+|nuORF ENST00000532066.1_1_11:35745832-35827932:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.76800537109375 2 508.766571 1015.51859 NaN NaN NaN NaN NaN NaN NaN 22.301 1 22.941 22.441 23.441 0.64051 0 0 0 9.7567E-12 1 10144 10144 140.63 64.872 1 10300 4472 6481 6498 12157 12157 0.011451424810957178 IADEGTWTL 9 Unmodified _IADEGTWTL_ 0 0 0 ENSG00000170584|ENST00000302764|NUDCD2 ENSG00000170584|ENST00000302764|NUDCD2 ENSG00000170584|ENST00000302764|NUDCD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1005.4922485351562 1 1005.48875 1004.48148 2.891 0.0029069 -1.5392 -0.0015477 1.3518 0.0013592 1005.4892989016973 68.107 0.11836 68.107 68.034 68.153 0 22 17 2 0 0 0 0.041436 1 32723 32723 50.855 8.7605 1 2378600 10301 4760 6482 6499 12158 12158 -0.020585290646749854 IADEYNDFSCY 11 Unmodified _IADEYNDFSCY_ 0 0 0 REV__nc|ENSG00000124019|Q9H5Z6-2|FAM124B REV__nc|ENSG00000124019|Q9H5Z6-2|FAM124B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1340.5203857421875 1 1339.51471 1338.50743 3.1295 0.0041921 -1.0489 -0.001405 2.0806 0.002787 1339.5137845216088 58.365 0.20585 58.365 58.341 58.547 0 26 18 2 0 0 0 0.91378 1 26995 26995 0.35063 0 1 4377200 + 10302 11629 6483 6500 12159 12159 -0.14828047675337075 IADEYNDFSCY 11 Unmodified _IADEYNDFSCY_ 0 0 0 REV__nc|ENSG00000124019|Q9H5Z6-2|FAM124B REV__nc|ENSG00000124019|Q9H5Z6-2|FAM124B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 1339.51471 1338.50743 3.1295 0.0041921 -1.0489 -0.001405 2.0806 0.002787 1339.5137845216088 58.365 0.20585 58.365 58.341 58.547 0 -0.1437 -0.001 NaN 0.35063 26 18 2 NaN NaN NaN NaN 0 NaN NaN 0 4377200 + 10303 11629 6483 6500 -0.14828047675337075 IADEYNDFSCY 11 Unmodified _IADEYNDFSCY_ 0 0 0 REV__nc|ENSG00000124019|Q9H5Z6-2|FAM124B REV__nc|ENSG00000124019|Q9H5Z6-2|FAM124B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 1339.51471 1338.50743 3.1509 0.0042207 0.89182 0.0011946 4.0428 0.0054153 1340.5166046565373 58.39 0.030186 58.653 58.64 58.67 0.26228 0.1437 0.0015996 NaN 0.35063 11 5 3 NaN NaN NaN NaN 0 NaN NaN 0 8899900 + 10304 11629 6483 6500 -0.14828047675337075 IADHYVEVL 9 Unmodified _IADHYVEVL_ 0 0 0 ENSG00000170275|ENST00000320954|CRTAP ENSG00000170275|ENST00000320954|CRTAP ENSG00000170275|ENST00000320954|CRTAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.78125 2 529.779482 1057.54441 3.0885 0.0016362 0.35957 0.00019049 3.4481 0.0018267 529.7794263145975 51.66 0.16133 52.319 52.244 52.406 0.65956 10 8 2 0 0 0 0.24465 1 23641 23641 20.454 3.3671 1 261470 10305 4738 6484 6501 12160 12160 0.017940367233904908 IADLERETF 9 Unmodified _IADLERETF_ 0 0 0 nc|ENSG00000164944|Q69YN4-4|VIRMA;nc|ENSG00000164944|Q69YN4-2|VIRMA;nc|ENSG00000164944|Q69YN4-3|VIRMA;ENSG00000164944|ENST00000297591|VIRMA nc|ENSG00000164944|Q69YN4-4|VIRMA nc|ENSG00000164944|Q69YN4-4|VIRMA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.2828979492188 2 547.279846 1092.54514 3.4763 0.0019025 0.59274 0.00032439 4.0691 0.0022269 547.2797967937242 46.911 0.29905 46.911 46.738 47.037 0 28 11 3 0 0 0 0.0023958 2 21468 21468;21520 100.09 37.518 1 3587900 10306 4359 6485 6502 12161;12162 12161 0.002568313724168547 IADLERETF 9 Unmodified _IADLERETF_ 0 0 0 nc|ENSG00000164944|Q69YN4-4|VIRMA;nc|ENSG00000164944|Q69YN4-2|VIRMA;nc|ENSG00000164944|Q69YN4-3|VIRMA;ENSG00000164944|ENST00000297591|VIRMA nc|ENSG00000164944|Q69YN4-4|VIRMA nc|ENSG00000164944|Q69YN4-4|VIRMA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.2813720703125 2 547.279846 1092.54514 3.1634 0.0017312 -0.082393 -4.5092E-05 3.081 0.0016861 547.2797747815877 45.889 0.25451 46.715 46.611 46.865 0.82621 34 13 3 0 0 0 0.0023958 2 20897 20897;20955 100.09 46.258 1 4898000 10307 4359 6485 6502 12163;12164 12163 0.002568313724168547 IADLERETF 9 Unmodified _IADLERETF_ 0 0 0 nc|ENSG00000164944|Q69YN4-4|VIRMA;nc|ENSG00000164944|Q69YN4-2|VIRMA;nc|ENSG00000164944|Q69YN4-3|VIRMA;ENSG00000164944|ENST00000297591|VIRMA nc|ENSG00000164944|Q69YN4-4|VIRMA nc|ENSG00000164944|Q69YN4-4|VIRMA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.283447265625 2 547.279846 1092.54514 3.7597 0.0020576 0.85578 0.00046835 4.6155 0.002526 547.280279117588 46.759 0.26551 47.025 46.951 47.216 0.26561 19 8 3 0 0 0 0.0057865 1 21388 21388 90.135 39.28 1 1874100 10308 4359 6485 6502 12165 12165 0.002568313724168547 IADLERETF 9 Unmodified _IADLERETF_ 0 0 0 nc|ENSG00000164944|Q69YN4-4|VIRMA;nc|ENSG00000164944|Q69YN4-2|VIRMA;nc|ENSG00000164944|Q69YN4-3|VIRMA;ENSG00000164944|ENST00000297591|VIRMA nc|ENSG00000164944|Q69YN4-4|VIRMA nc|ENSG00000164944|Q69YN4-4|VIRMA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.2816162109375 2 547.279846 1092.54514 3.7942 0.0020765 0.69421 0.00037993 4.4884 0.0024564 547.2803526220075 46.245 0.22556 46.897 46.8 47.026 0.65219 21 9 3 0 0 0 0.010904 1 21197 21197 80.676 29.821 1 1808500 10309 4359 6485 6502 12166 12166 0.002568313724168547 IADPDEMRM 9 Unmodified _IADPDEMRM_ 0 0 0 ENSG00000145780|ENST00000274457|FEM1C ENSG00000145780|ENST00000274457|FEM1C ENSG00000145780|ENST00000274457|FEM1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.2407836914062 2 539.238809 1076.46307 3.2543 0.0017548 -0.11227 -6.0542E-05 3.142 0.0016943 539.2390205261161 38.709 0.31746 38.709 38.548 38.865 0 35 14 3 0 0 0 0.044468 2 17551 17551;17603 49.554 21.925 1 978090 10310 3487 6486 6503 12167;12168 12167 -0.07210730302517732 IADPDEMRM 9 Unmodified _IADPDEMRM_ 0 0 0 ENSG00000145780|ENST00000274457|FEM1C ENSG00000145780|ENST00000274457|FEM1C ENSG00000145780|ENST00000274457|FEM1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.2402954101562 2 539.238809 1076.46307 3.1031 0.0016733 0.24828 0.00013388 3.3514 0.0018072 539.2390873557869 37.7 0.31454 38.495 38.323 38.637 0.79552 34 14 4 0 0 0 0.091193 2 17055 17055;17119 34.932 13.691 1 1101800 10311 3487 6486 6503 12169;12170 12169 -0.07210730302517732 IADPDEMRM 9 Unmodified _IADPDEMRM_ 0 0 0 ENSG00000145780|ENST00000274457|FEM1C ENSG00000145780|ENST00000274457|FEM1C ENSG00000145780|ENST00000274457|FEM1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.2412109375 2 539.238809 1076.46307 2.9549 0.0015934 0.21318 0.00011496 3.1681 0.0017084 539.2390301899111 38.572 0.36945 38.836 38.63 38.999 0.26408 30 14 3 0 0 0 0.02812 2 17539 17539;17591 57.722 33.966 1 1335000 10312 3487 6486 6503 12171;12172 12171 -0.07210730302517732 IADPDEMRM 9 Unmodified _IADPDEMRM_ 0 0 0 ENSG00000145780|ENST00000274457|FEM1C ENSG00000145780|ENST00000274457|FEM1C ENSG00000145780|ENST00000274457|FEM1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.2407836914062 2 539.238809 1076.46307 3.1641 0.0017062 -0.1831 -9.8736E-05 2.981 0.0016074 539.2389494225799 38.114 0.44995 38.748 38.466 38.916 0.63388 44 18 3 0 0 0 0.044468 3 17420 17372;17420;17473 49.554 31.445 1 1009800 10313 3487 6486 6503 12173;12174;12175 12174 -0.07210730302517732 IADPDQPVL 9 Unmodified _IADPDQPVL_ 0 0 0 ENSG00000143643|ENST00000366661|TTC13;nc|ENSG00000143643|Q8NBP0-2|TTC13 ENSG00000143643|ENST00000366661|TTC13 ENSG00000143643|ENST00000366661|TTC13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 967.5130004882812 1 967.509488 966.502212 3.7822 0.0036593 -0.10765 -0.00010415 3.6746 0.0035552 967.5096406361777 51.37 0.30286 51.37 51.21 51.512 0 33 14 3 0 0 0 0.004576 3 23521 23477;23521;23567 92.653 28.417 1 1261300 10314 3385 6487 6504 12176;12177;12178 12177 0.017620613149915698 IADPDQPVL 9 Unmodified _IADPDQPVL_ 0 0 0 ENSG00000143643|ENST00000366661|TTC13;nc|ENSG00000143643|Q8NBP0-2|TTC13 ENSG00000143643|ENST00000366661|TTC13 ENSG00000143643|ENST00000366661|TTC13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.260009765625 2 484.258382 966.502212 3.396 0.0016445 -0.23917 -0.00011582 3.1568 0.0015287 484.2581928725097 51.374 0.37039 51.374 51.187 51.557 0 39 18 3 0 0 0 0.020151 3 23531 23482;23531;23583 68.081 24.222 1 1299700 10315 3385 6487 6504 12179;12180;12181 12180 0.017620613149915698 IADPDQPVL 9 Unmodified _IADPDQPVL_ 0 0 0 ENSG00000143643|ENST00000366661|TTC13;nc|ENSG00000143643|Q8NBP0-2|TTC13 ENSG00000143643|ENST00000366661|TTC13 ENSG00000143643|ENST00000366661|TTC13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 967.5119018554688 1 967.509488 966.502212 3.424 0.0033128 -0.12591 -0.00012182 3.2981 0.003191 967.5090699282426 50.578 0.3119 51.396 51.268 51.58 0.81738 31 15 3 0 0 0 0.0020791 2 23057 23018;23057 103.35 48.58 1 1673700 10316 3385 6487 6504 12182;12183 12183 0.017620613149915698 IADPDQPVL 9 Unmodified _IADPDQPVL_ 0 0 0 ENSG00000143643|ENST00000366661|TTC13;nc|ENSG00000143643|Q8NBP0-2|TTC13 ENSG00000143643|ENST00000366661|TTC13 ENSG00000143643|ENST00000366661|TTC13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.2606201171875 2 484.258382 966.502212 2.9811 0.0014436 0.32372 0.00015676 3.3049 0.0016004 484.258387072777 50.597 0.28225 51.415 51.322 51.604 0.81738 31 14 3 0 0 0 0.020151 2 23036 23036;23080 68.081 24.222 1 1318100 10317 3385 6487 6504 12184;12185 12184 0.017620613149915698 IADPDQPVL 9 Unmodified _IADPDQPVL_ 0 0 0 ENSG00000143643|ENST00000366661|TTC13;nc|ENSG00000143643|Q8NBP0-2|TTC13 ENSG00000143643|ENST00000366661|TTC13 ENSG00000143643|ENST00000366661|TTC13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 967.5130615234375 1 967.509488 966.502212 3.5126 0.0033985 0.12933 0.00012513 3.6419 0.0035236 967.5103900528097 51.225 0.20669 51.487 51.377 51.584 0.26146 14 9 2 0 0 0 0.029308 1 23406 23406 56.177 22.075 1 666780 10318 3385 6487 6504 12186 12186 0.017620613149915698 IADPDQPVL 9 Unmodified _IADPDQPVL_ 0 0 0 ENSG00000143643|ENST00000366661|TTC13;nc|ENSG00000143643|Q8NBP0-2|TTC13 ENSG00000143643|ENST00000366661|TTC13 ENSG00000143643|ENST00000366661|TTC13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.2601623535156 2 484.258382 966.502212 3.0635 0.0014835 0.76039 0.00036822 3.8238 0.0018517 484.2585011825089 50.603 0.26646 51.262 51.126 51.393 0.65956 29 13 3 0 0 0 0.032303 2 23171 23120;23171 54.774 22.468 1 679190 10319 3385 6487 6504 12187;12188 12188 0.017620613149915698 IADPDQPVL 9 Unmodified _IADPDQPVL_ 0 0 0 ENSG00000143643|ENST00000366661|TTC13;nc|ENSG00000143643|Q8NBP0-2|TTC13 ENSG00000143643|ENST00000366661|TTC13 ENSG00000143643|ENST00000366661|TTC13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 967.513916015625 1 967.509488 966.502212 3.6573 0.0035384 1.1614 0.0011237 4.8187 0.0046621 967.5101428957555 50.618 0.30933 51.277 51.103 51.412 0.65956 24 15 2 0 0 0 0.02234 2 23139 23139;23196 65.235 19.214 1 661050 10320 3385 6487 6504 12189;12190 12189 0.017620613149915698 IADPDQPVL 9 Unmodified _IADPDQPVL_ 0 0 0 ENSG00000143643|ENST00000366661|TTC13;nc|ENSG00000143643|Q8NBP0-2|TTC13 ENSG00000143643|ENST00000366661|TTC13 ENSG00000143643|ENST00000366661|TTC13 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 484.258382 966.502212 2.9521 0.0014296 0.022466 1.0879E-05 2.9745 0.0014404 484.2581465914515 51.244 0.30368 51.506 51.306 51.61 0.26175 0.11663 -0.000114 NaN 68.081 23 13 2 NaN NaN NaN NaN 0 NaN NaN 0 885540 10321 3385 6487 6504 0.017620613149915698 IAFDENNWE 9 Unmodified _IAFDENNWE_ 0 0 0 ENST00000603310.5_1_2:112187164-112199114:-|nuORF;ENST00000413202.1_1_2:87808762-87820755:+|nuORF ENST00000603310.5_1_2:112187164-112199114:-|nuORF ENST00000603310.5_1_2:112187164-112199114:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.2452392578125 2 569.246003 1136.47745 NaN NaN NaN NaN NaN NaN NaN 98.605 1 99.203 98.703 99.703 0.59748 0 0 0 0.90611 1 45486 45486 2.0598 0.21551 1 10322 7688 6488 6505 12191 12191 -0.08532618558388094 IAHKQKKTKKK 11 Unmodified _IAHKQKKTKKK_ 0 0 0 nc|ENSG00000137962|Q52LW3-2|ARHGAP29;ENSG00000137962|ENST00000260526|ARHGAP29 nc|ENSG00000137962|Q52LW3-2|ARHGAP29 nc|ENSG00000137962|Q52LW3-2|ARHGAP29 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 669.8819580078125 2 669.440621 1336.86669 NaN NaN NaN NaN NaN NaN NaN 99.502 1 99.564 99.064 100.06 0.062241 0 0 0 1.0072 1 53810 53810 1.3295 0.13619 1 10323 3061 6489 6506 12192 12192 0.21172973193188227 IAHNQVRQ 8 Unmodified _IAHNQVRQ_ 0 0 0 nc|ENSG00000141736|P04626-5|ERBB2;nc|ENSG00000141736|P04626-4|ERBB2;ENSG00000141736|ENST00000269571|ERBB2;ERBB2|p.N388Qfs*14|1|0.33|ENSG00000141736|chr17:39715296-39715297|-/C|frameshift_variant;nc|ENSG00000141736|P04626-6|ERBB2;ENST00000584908.5_1_17:37856482-37868536:+|nuORF nc|ENSG00000141736|P04626-5|ERBB2;ENST00000584908.5_1_17:37856482-37868536:+|nuORF nc|ENSG00000141736|P04626-5|ERBB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 322.5152282714844 3 322.51403 964.520262 NaN NaN NaN NaN NaN NaN NaN 1.1976 1 1.1976 0.69762 1.6976 0 0 0 0 0.99035 1 549 549 1.6526 0 1 10324 3284;9172 6490 6507 12193 12193 0.036582410803816856 IAHNQVRQ 8 Unmodified _IAHNQVRQ_ 0 0 0 nc|ENSG00000141736|P04626-5|ERBB2;nc|ENSG00000141736|P04626-4|ERBB2;ENSG00000141736|ENST00000269571|ERBB2;ERBB2|p.N388Qfs*14|1|0.33|ENSG00000141736|chr17:39715296-39715297|-/C|frameshift_variant;nc|ENSG00000141736|P04626-6|ERBB2;ENST00000584908.5_1_17:37856482-37868536:+|nuORF nc|ENSG00000141736|P04626-5|ERBB2;ENST00000584908.5_1_17:37856482-37868536:+|nuORF nc|ENSG00000141736|P04626-5|ERBB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 322.5149230957031 3 322.51403 964.520262 NaN NaN NaN NaN NaN NaN NaN 1.3341 1 1.3341 0.83411 1.8341 0 0 0 0 0.99035 1 611 611 0.45834 0 1 10325 3284;9172 6490 6507 12194 12194 0.036582410803816856 IAHNQVRQ 8 Unmodified _IAHNQVRQ_ 0 0 0 nc|ENSG00000141736|P04626-5|ERBB2;nc|ENSG00000141736|P04626-4|ERBB2;ENSG00000141736|ENST00000269571|ERBB2;ERBB2|p.N388Qfs*14|1|0.33|ENSG00000141736|chr17:39715296-39715297|-/C|frameshift_variant;nc|ENSG00000141736|P04626-6|ERBB2;ENST00000584908.5_1_17:37856482-37868536:+|nuORF nc|ENSG00000141736|P04626-5|ERBB2;ENST00000584908.5_1_17:37856482-37868536:+|nuORF nc|ENSG00000141736|P04626-5|ERBB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 322.51483154296875 3 322.51403 964.520262 NaN NaN NaN NaN NaN NaN NaN 0.51096 1 0.906 0.406 1.406 0.39503 0 0 0 0.99035 1 236 236 0.45834 0 1 10326 3284;9172 6490 6507 12195 12195 0.036582410803816856 IAIRNPLR 8 Unmodified _IAIRNPLR_ 0 0 0 ENSG00000279012|ENST00000624187|OR51B2 ENSG00000279012|ENST00000624187|OR51B2 ENSG00000279012|ENST00000624187|OR51B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 318.197265625 3 318.206538 951.597784 NaN NaN NaN NaN NaN NaN NaN 69.353 1 70.014 69.514 70.514 0.66071 0 0 0 0.99035 1 31792 31792 1.6526 0 1 10327 6365 6491 6508 12196 12196 0.12004879016546965 IAIVHIFGKVI 11 Unmodified _IAIVHIFGKVI_ 0 0 0 nc|ENSG00000163053|Q7RTX9-2|SLC16A14;SLC16A14|p.F422Sfs*3|1|0.31|ENSG00000163053|chr2:230045861-230045861|A/-|frameshift_variant;ENSG00000163053|ENST00000295190|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 403.9299621582031 3 403.928781 1208.76451 2.6229 0.0010595 0.29338 0.0001185 2.9163 0.001178 403.9288129925493 40.337 0.15758 41.137 41.069 41.227 0.80014 12 8 2 0 0 0 0.91328 1 18288 18288 0.50596 0 1 1086500 10328 4187 6492 6509 12197 12197 0.1684830712160874 IAIVHIFGKVI 11 Unmodified _IAIVHIFGKVI_ 0 0 0 nc|ENSG00000163053|Q7RTX9-2|SLC16A14;SLC16A14|p.F422Sfs*3|1|0.31|ENSG00000163053|chr2:230045861-230045861|A/-|frameshift_variant;ENSG00000163053|ENST00000295190|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.2653503417969 3 403.928781 1208.76451 2.9255 0.0011817 1.3759 0.00055576 4.3014 0.0017375 404.26364001868194 43.317 0.22481 43.588 43.563 43.787 0.27021 19 12 2 0 0 0 0.91345 1 19821 19821 0.45452 0 1 887690 10329 4187 6492 6509 12198 12198 0.1684830712160874 IAIVHIFGKVI 11 Unmodified _IAIVHIFGKVI_ 0 0 0 nc|ENSG00000163053|Q7RTX9-2|SLC16A14;SLC16A14|p.F422Sfs*3|1|0.31|ENSG00000163053|chr2:230045861-230045861|A/-|frameshift_variant;ENSG00000163053|ENST00000295190|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.9305114746094 3 403.928781 1208.76451 2.7724 0.0011198 0.90381 0.00036508 3.6762 0.0014849 403.92900174571525 44.201 0.55258 44.47 44.429 44.982 0.2694 42 25 2 0 0 0 0.91068 1 20353 20353 1.3296 1.3296 1 2442000 10330 4187 6492 6509 12199 12199 0.1684830712160874 IAIVHIFGKVI 11 Unmodified _IAIVHIFGKVI_ 0 0 0 nc|ENSG00000163053|Q7RTX9-2|SLC16A14;SLC16A14|p.F422Sfs*3|1|0.31|ENSG00000163053|chr2:230045861-230045861|A/-|frameshift_variant;ENSG00000163053|ENST00000295190|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 403.928781 1208.76451 2.6533 0.0010717 0.54392 0.0002197 3.1972 0.0012914 403.928996464641 41.119 0.28186 41.119 40.894 41.176 0 -0.0090259 0.00018599 NaN 0.50596 33 21 2 NaN NaN NaN NaN 0 NaN NaN 0 1842700 10331 4187 6492 6509 0.1684830712160874 IAIVHIFGKVI 11 Unmodified _IAIVHIFGKVI_ 0 0 0 nc|ENSG00000163053|Q7RTX9-2|SLC16A14;SLC16A14|p.F422Sfs*3|1|0.31|ENSG00000163053|chr2:230045861-230045861|A/-|frameshift_variant;ENSG00000163053|ENST00000295190|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 403.928781 1208.76451 2.9255 0.0011817 1.3759 0.00055576 4.3014 0.0017375 404.26364001868194 43.317 0.22481 43.588 43.563 43.787 0.27021 0.047593 0.00010381 NaN 0.45452 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 887690 10332 4187 6492 6509 0.1684830712160874 IAIVHIFGKVI 11 Unmodified _IAIVHIFGKVI_ 0 0 0 nc|ENSG00000163053|Q7RTX9-2|SLC16A14;SLC16A14|p.F422Sfs*3|1|0.31|ENSG00000163053|chr2:230045861-230045861|A/-|frameshift_variant;ENSG00000163053|ENST00000295190|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 403.928781 1208.76451 3.0874 0.0012471 1.1063 0.00044685 4.1937 0.001694 404.2637826289116 42.846 0.15423 43.492 43.442 43.596 0.64693 -0.047593 -0.00022292 NaN 0.45452 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 651160 10333 4187 6492 6509 0.1684830712160874 IAKKNGSYLF 10 Unmodified _IAKKNGSYLF_ 0 0 0 ENST00000389737.4_2_4:8448277-8451409:+|nuORF ENST00000389737.4_2_4:8448277-8451409:+|nuORF ENST00000389737.4_2_4:8448277-8451409:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.2204284667969 3 380.885241 1139.63389 1.9898 0.0007579 0.72072 0.00027451 2.7106 0.0010324 380.8855311784742 62.631 0.26902 63.362 63.186 63.455 0.73077 75 41 2 0 0 0 0.78028 1 29226 29226 5.4027 2.5594 1 5966500 10334 7502 6493 6510 12200 12200 0.06966291402750358 IAKKNGSYLF 10 Unmodified _IAKKNGSYLF_ 0 0 0 ENST00000389737.4_2_4:8448277-8451409:+|nuORF ENST00000389737.4_2_4:8448277-8451409:+|nuORF ENST00000389737.4_2_4:8448277-8451409:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.8865051269531 3 380.885241 1139.63389 2.6475 0.0010084 1.1133 0.00042403 3.7607 0.0014324 380.8855920041379 63.301 0.34825 63.549 63.349 63.697 0.24803 70 20 4 0 0 0 0.85706 1 28951 28951 3.0723 0.78949 1 15503000 10335 7502 6493 6510 12201 12201 0.06966291402750358 IAKLLREK 8 Unmodified _IAKLLREK_ 0 0 0 REV__nc|ENSG00000114062|Q05086-2|UBE3A REV__nc|ENSG00000114062|Q05086-2|UBE3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.21923828125 3 324.218443 969.633501 2.2169 0.00071875 0.26173 8.4859E-05 2.4786 0.00080361 324.2184259378881 16.891 0.60286 17.552 17.221 17.824 0.66072 91 53 2 0 0 0 0.68492 1 7684 7684 7.1017 0 1 123390 + 10336 11315 6494 6511 12202 12202 0.14746916473563942 IAKRYLGKRKK 11 Unmodified _IAKRYLGKRKK_ 0 0 0 REV__ENSG00000170234|ENST00000307063|PWWP2A REV__ENSG00000170234|ENST00000307063|PWWP2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.2997131347656 3 454.301501 1359.88267 NaN NaN NaN NaN NaN NaN NaN 62.665 1 62.665 62.165 63.165 0 0 0 0 1.0062 1 29385 29385 2.6312 1.4164 1 + 10337 13426 6495 6512 12203 12203 0.2171267943008388 IALLLLVPLLL 11 Unmodified _IALLLLVPLLL_ 0 0 0 REV__PCDH19|p.E1054Rfs*76|1|0.38|ENSG00000165194|chrX:100296564-100296564|C/-|frameshift_variant REV__PCDH19|p.E1054Rfs*76|1|0.38|ENSG00000165194|chrX:100296564-100296564|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 595.9254760742188 2 595.927961 1189.84137 NaN NaN NaN NaN NaN NaN NaN 60.543 1 60.543 60.043 61.043 0 0 0 0 1.008 1 28136 28136 0.35063 0 1 + 10338 18198 6496 6513 12204 12204 0.25404105618076755 IALLTRTLRLL 11 Unmodified _IALLTRTLRLL_ 0 0 0 REV__ENSG00000123104|ENST00000381340|ITPR2 REV__ENSG00000123104|ENST00000381340|ITPR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.9324951171875 2 641.932097 1281.84964 NaN NaN NaN NaN NaN NaN NaN 106.54 1 106.59 106.09 107.09 0.04837 0 0 0 1.0071 1 57632 57632 1.4819 0 1 + 10339 11602 6497 6514 12205 12205 0.2199905258742092 IALNMRAD 8 Unmodified _IALNMRAD_ 0 0 0 REV__nc|ENSG00000115159|P43304-2|GPD2 REV__nc|ENSG00000115159|P43304-2|GPD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.23956298828125 2 452.23947 902.464386 NaN NaN NaN NaN NaN NaN NaN 55.23 1 55.495 54.995 55.995 0.26543 0 0 0 0.95658 1 25253 25253 8.5933 0.68312 1 + 10340 11345 6498 6515 12206 12206 0.009252718485299738 IALTRVLFVTF 11 Unmodified _IALTRVLFVTF_ 0 0 0 ENST00000235307.6_1_1:184590022-184590184:+|nuORF ENST00000235307.6_1_1:184590022-184590184:+|nuORF ENST00000235307.6_1_1:184590022-184590184:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 427.265380859375 3 427.263941 1278.76999 3.2735 0.0013986 0.64149 0.00027409 3.915 0.0016727 427.26416021042604 54.016 0.3499 54.016 53.918 54.268 0 80 28 3 0 0 0 0.89844 1 24802 24802 1.0136 1.0136 1 17434000 10341 6459 6499 6516 12207 12207 0.14175985913402656 IALVLIFPRRR 11 Unmodified _IALVLIFPRRR_ 0 0 0 REV__ENSG00000162426|ENST00000471889|SLC45A1 REV__ENSG00000162426|ENST00000471889|SLC45A1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.21026611328125 4 339.226491 1352.87686 2.3504 0.00079733 -0.68265 -0.00023157 1.6678 0.00056576 339.47705747792816 49.798 1.0319 50.456 49.885 50.917 0.65735 64 39 2 0 0 0 0.13295 1 22786 22786 0.50596 0.051438 1 728670 + 10342 12934 6500 6517 12208 12208 0.21453580918432635 IANKVLLAL 9 Unmodified _IANKVLLAL_ 0 0 0 nc|ENSG00000157388|Q01668-4|CACNA1D;nc|ENSG00000157388|Q01668-3|CACNA1D;ENSG00000157388|ENST00000350061|CACNA1D;nc|ENSG00000157388|Q01668-2|CACNA1D nc|ENSG00000157388|Q01668-4|CACNA1D nc|ENSG00000157388|Q01668-4|CACNA1D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 477.8242492675781 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 67.468 1 67.718 67.218 68.218 0.2501 0 0 0 0.66907 1 30907 30907 13.508 4.1604 1 10343 3948 6501 6518 12209 12209 0.14868398242026615 IANKVLLAL 9 Unmodified _IANKVLLAL_ 0 0 0 nc|ENSG00000157388|Q01668-4|CACNA1D;nc|ENSG00000157388|Q01668-3|CACNA1D;ENSG00000157388|ENST00000350061|CACNA1D;nc|ENSG00000157388|Q01668-2|CACNA1D nc|ENSG00000157388|Q01668-4|CACNA1D nc|ENSG00000157388|Q01668-4|CACNA1D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.8241882324219 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 66.803 1 67.46 66.96 67.96 0.65672 0 0 0 0.66907 1 30625 30625 13.508 0.97634 1 10344 3948 6501 6518 12210 12210 0.14868398242026615 IANQDPIAV 9 Unmodified _IANQDPIAV_ 0 0 0 nc|ENSG00000157168|Q02297-11|NRG1;nc|ENSG00000157168|Q02297-7|NRG1;ENSG00000157168|ENST00000405005|NRG1;nc|ENSG00000157168|Q02297-6|NRG1;nc|ENSG00000157168|Q02297-2|NRG1 nc|ENSG00000157168|Q02297-11|NRG1 nc|ENSG00000157168|Q02297-11|NRG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.7592468261719 2 470.758549 939.502546 NaN NaN NaN NaN NaN NaN NaN 47.406 1 48.235 47.735 48.735 0.82915 0 0 0 0.07684 1 21598 21598 46.021 11.619 1 10345 3941 6502 6519 12211 12211 0.030374810348462233 IANQDPIAV 9 Unmodified _IANQDPIAV_ 0 0 0 nc|ENSG00000157168|Q02297-11|NRG1;nc|ENSG00000157168|Q02297-7|NRG1;ENSG00000157168|ENST00000405005|NRG1;nc|ENSG00000157168|Q02297-6|NRG1;nc|ENSG00000157168|Q02297-2|NRG1 nc|ENSG00000157168|Q02297-11|NRG1 nc|ENSG00000157168|Q02297-11|NRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.76019287109375 2 470.758549 939.502546 3.0688 0.0014447 0.15028 7.0745E-05 3.2191 0.0015154 470.7586851495483 48.166 0.33136 48.428 48.2 48.531 0.26209 26 12 3 0 0 0 0.0028306 2 21989 21989;22050 96.285 29.828 1 1006200 10346 3941 6502 6519 12212;12213 12212 0.030374810348462233 IANQDPIAV 9 Unmodified _IANQDPIAV_ 0 0 0 nc|ENSG00000157168|Q02297-11|NRG1;nc|ENSG00000157168|Q02297-7|NRG1;ENSG00000157168|ENST00000405005|NRG1;nc|ENSG00000157168|Q02297-6|NRG1;nc|ENSG00000157168|Q02297-2|NRG1 nc|ENSG00000157168|Q02297-11|NRG1 nc|ENSG00000157168|Q02297-11|NRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.760009765625 2 470.758549 939.502546 2.961 0.0013939 -0.32913 -0.00015494 2.6319 0.001239 470.7585572636078 47.605 0.38196 48.259 48.016 48.398 0.65356 27 16 2 0 0 0 0.029308 2 21764 21764;21822 56.177 14.221 1 848100 10347 3941 6502 6519 12214;12215 12214 0.030374810348462233 IANVERVPF 9 Unmodified _IANVERVPF_ 0 0 0 ENST00000373807.5_1_9:124074589-124093809:+|nuORF;ENSG00000148180|ENST00000432226|GSN;nc|ENSG00000148180|P06396-4|GSN;nc|ENSG00000148180|P06396-3|GSN;CON__Q3SX14;nc|ENSG00000148180|P06396|GSN ENST00000373807.5_1_9:124074589-124093809:+|nuORF ENST00000373807.5_1_9:124074589-124093809:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.7982177734375 2 522.795466 1043.57638 3.3279 0.0017398 -0.014346 -7.5001E-06 3.3136 0.0017323 522.7955469884055 51.496 0.19167 51.496 51.366 51.557 0 13 9 2 0 0 0 0.14419 1 23597 23597 34.932 13.185 1 358910 + 10348 236 6503 6520 12216 12216 0.056334491971938405 IANVERVPF 9 Unmodified _IANVERVPF_ 0 0 0 ENST00000373807.5_1_9:124074589-124093809:+|nuORF;ENSG00000148180|ENST00000432226|GSN;nc|ENSG00000148180|P06396-4|GSN;nc|ENSG00000148180|P06396-3|GSN;CON__Q3SX14;nc|ENSG00000148180|P06396|GSN ENST00000373807.5_1_9:124074589-124093809:+|nuORF ENST00000373807.5_1_9:124074589-124093809:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 522.795466 1043.57638 3.3279 0.0017398 -0.014346 -7.5001E-06 3.3136 0.0017323 522.7955469884055 51.496 0.19167 51.496 51.366 51.557 0 -0.037129 -7.2453E-05 NaN 34.932 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 358910 + 10349 236 6503 6520 0.056334491971938405 IANVERVPF 9 Unmodified _IANVERVPF_ 0 0 0 ENST00000373807.5_1_9:124074589-124093809:+|nuORF;ENSG00000148180|ENST00000432226|GSN;nc|ENSG00000148180|P06396-4|GSN;nc|ENSG00000148180|P06396-3|GSN;CON__Q3SX14;nc|ENSG00000148180|P06396|GSN ENST00000373807.5_1_9:124074589-124093809:+|nuORF ENST00000373807.5_1_9:124074589-124093809:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 522.795466 1043.57638 3.227 0.0016871 0.10862 5.6787E-05 3.3356 0.0017438 522.7955795213123 51.308 0.13176 51.57 51.509 51.641 0.26228 0.037129 5.6121E-05 NaN 34.932 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 558250 + 10350 236 6503 6520 0.056334491971938405 IAPSGRVADL 10 Unmodified _IAPSGRVADL_ 0 0 0 REV__ENSG00000118271|ENST00000237014|TTR REV__ENSG00000118271|ENST00000237014|TTR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.7845764160156 2 499.785099 997.555644 NaN NaN NaN NaN NaN NaN NaN 42.142 1 42.951 42.451 43.451 0.80855 0 0 0 0.99733 1 19134 19134 3.9444 0 1 + 10351 11468 6504 6521 12217 12217 0.056768588175032164 IARKNKLI 8 Unmodified _IARKNKLI_ 0 0 0 REV__ENSG00000125817|ENST00000379751|CENPB REV__ENSG00000125817|ENST00000379751|CENPB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 319.2190246582031 3 319.218555 954.633835 2.2121 0.00070613 -0.11437 -3.6508E-05 2.0977 0.00066962 319.2185118790711 13.04 0.20967 13.04 12.944 13.154 0 32 10 4 0 0 0 0.23923 1 5671 5671 39.957 1.9833 1 3947000 + 10352 11695 6505 6522 12218 12218 0.15470336193425283 IARLKEVL 8 Unmodified _IARLKEVL_ 0 0 0 ENST00000487002.1_1_1:155279855-155282231:+|nuORF;ENST00000461507.5_1_1:155279855-155288124:+|nuORF;ENST00000470171.5_1_1:155279855-155288545:+|nuORF;nc|ENSG00000160752|P14324-2|FDPS;ENSG00000160752|ENST00000368356|FDPS ENST00000487002.1_1_1:155279855-155282231:+|nuORF ENST00000487002.1_1_1:155279855-155282231:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 471.3128356933594 2 471.310752 940.606951 2.5064 0.0011813 1.3003 0.00061283 3.8067 0.0017941 471.3112315953518 33.203 0.24459 33.99 33.877 34.122 0.78795 20 16 2 0 0 0 0.15009 1 15022 15022 48.346 6.2513 1 394480 10353 4077 6506 6523 12219 12219 0.13427227582224077 IARLKEVL 8 Unmodified _IARLKEVL_ 0 0 0 ENST00000487002.1_1_1:155279855-155282231:+|nuORF;ENST00000461507.5_1_1:155279855-155288124:+|nuORF;ENST00000470171.5_1_1:155279855-155288545:+|nuORF;nc|ENSG00000160752|P14324-2|FDPS;ENSG00000160752|ENST00000368356|FDPS ENST00000487002.1_1_1:155279855-155282231:+|nuORF ENST00000487002.1_1_1:155279855-155282231:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.3125 2 471.310752 940.606951 2.9123 0.0013726 0.44668 0.00021052 3.3589 0.0015831 471.31081904591883 34.05 0.23554 34.304 34.104 34.34 0.25389 19 10 2 0 0 0 0.17174 2 15505 15450;15505 46.021 3.6527 1 671240 10354 4077 6506 6523 12220;12221 12221 0.13427227582224077 IARLKEVL 8 Unmodified _IARLKEVL_ 0 0 0 ENST00000487002.1_1_1:155279855-155282231:+|nuORF;ENST00000461507.5_1_1:155279855-155288124:+|nuORF;ENST00000470171.5_1_1:155279855-155288545:+|nuORF;nc|ENSG00000160752|P14324-2|FDPS;ENSG00000160752|ENST00000368356|FDPS ENST00000487002.1_1_1:155279855-155282231:+|nuORF ENST00000487002.1_1_1:155279855-155282231:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.3121337890625 2 471.310752 940.606951 2.8193 0.0013288 0.4228 0.00019927 3.2421 0.001528 471.31080708507073 33.468 0.28783 34.088 33.932 34.22 0.62031 21 10 3 0 0 0 0.13532 2 15306 15306;15375 49.933 3.912 1 697070 10355 4077 6506 6523 12222;12223 12222 0.13427227582224077 IARLRHIKRLR 11 Unmodified _IARLRHIKRLR_ 0 0 0 nc|ENSG00000103197|P49815-7|TSC2;nc|ENSG00000103197|P49815-6|TSC2;nc|ENSG00000103197|P49815-5|TSC2;nc|ENSG00000103197|P49815-3|TSC2;nc|ENSG00000103197|P49815-2|TSC2;nc|ENSG00000103197|P49815-4|TSC2;ENSG00000103197|ENST00000219476|TSC2;ENST00000569930.1_1_16:2133412-2138608:+|nuORF nc|ENSG00000103197|P49815-7|TSC2 nc|ENSG00000103197|P49815-7|TSC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 716.498779296875 2 716.478403 1430.94225 NaN NaN NaN NaN NaN NaN NaN 109.09 1 109.4 108.9 109.9 0.31168 0 0 0 1.008 1 50295 50295 0.35063 0.35063 1 10356 1382 6507 6524 12224 12224 0.2440199516413486 IARSIARAL 9 Unmodified _IARSIARAL_ 0 0 0 nc|ENSG00000196365|P36776-2|LONP1;ENSG00000196365|ENST00000360614|LONP1;ENST00000590558.5_1_19:5692045-5712033:-|nuORF;nc|ENSG00000196365|P36776-3|LONP1;ENST00000587552.5_1_19:5696605-5708411:-|nuORF nc|ENSG00000196365|P36776-2|LONP1 nc|ENSG00000196365|P36776-2|LONP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.8126525878906 2 485.811451 969.608348 2.9249 0.0014209 -0.11747 -5.7069E-05 2.8074 0.0013639 485.8113860344844 34.078 0.43224 34.867 34.675 35.108 0.78921 77 25 4 0 0 0 0.03963 1 15466 15466 51.63 1.6968 1 8742000 10357 5738 6508 6525 12225 12225 0.12232861670975126 IASVEKLAL 9 Unmodified _IASVEKLAL_ 0 0 0 ENSG00000139505|ENST00000381801|MTMR6;nc|ENSG00000139505|Q9Y217-2|MTMR6 ENSG00000139505|ENST00000381801|MTMR6 ENSG00000139505|ENST00000381801|MTMR6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.7983093261719 2 472.294768 942.574983 2.803 0.0013239 0.92314 0.000436 3.7262 0.0017599 472.29502745986235 52.42 0.29842 53.082 52.903 53.201 0.66198 20 12 2 0 0 0 0.025135 1 23944 23944 61.602 9.3336 1 574230 10358 3151 6509 6526 12226 12226 0.10139815108414041 IASVEKLAL 9 Unmodified _IASVEKLAL_ 0 0 0 ENSG00000139505|ENST00000381801|MTMR6;nc|ENSG00000139505|Q9Y217-2|MTMR6 ENSG00000139505|ENST00000381801|MTMR6 ENSG00000139505|ENST00000381801|MTMR6 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 472.294768 942.574983 2.4682 0.0011657 0.86305 0.00040762 3.3312 0.0015733 472.2951089792747 52.189 0.23585 53 52.869 53.105 0.81065 -0.067775 0.00025112 NaN 61.602 25 15 2 NaN NaN NaN NaN 0 NaN NaN 0 385490 10359 3151 6509 6526 0.10139815108414041 IASVEKLAL 9 Unmodified _IASVEKLAL_ 0 0 0 ENSG00000139505|ENST00000381801|MTMR6;nc|ENSG00000139505|Q9Y217-2|MTMR6 ENSG00000139505|ENST00000381801|MTMR6 ENSG00000139505|ENST00000381801|MTMR6 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 472.294768 942.574983 3.0106 0.0014219 -0.32984 -0.00015578 2.6808 0.0012661 472.2945458314262 52.857 0.17296 53.121 53.011 53.184 0.26344 0.053323 -0.00087568 NaN 61.602 15 8 2 NaN NaN NaN NaN 0 NaN NaN 0 820420 10360 3151 6509 6526 0.10139815108414041 IATDDSHSL 9 Unmodified _IATDDSHSL_ 0 0 0 ENST00000478204.5_1_1:33557816-33585780:+|nuORF;nc|ENSG00000142920|Q96A70-3|AZIN2;nc|ENSG00000142920|Q96A70-4|AZIN2;ENST00000484656.5_1_1:33549518-33583718:+|nuORF;ENST00000471119.5_1_1:33546965-33585780:+|nuORF;ENSG00000142920|ENST00000294517|AZIN2;ENST00000481886.5_1_1:33546965-33585780:+|nuORF;nc|ENSG00000142920|Q96A70-2|AZIN2 ENST00000478204.5_1_1:33557816-33585780:+|nuORF ENST00000478204.5_1_1:33557816-33585780:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 479.7287292480469 2 479.727446 957.44034 3.1809 0.0015259 0.36178 0.00017356 3.5426 0.0016995 479.7276610914417 21.521 0.19601 21.521 21.438 21.634 0 38 21 2 0 0 0 0.079031 1 9642 9642 37.974 9.8008 1 174410 10361 3334 6510 6527 12227 12227 -0.04008290104138723 IATDDSHSL 9 Unmodified _IATDDSHSL_ 0 0 0 ENST00000478204.5_1_1:33557816-33585780:+|nuORF;nc|ENSG00000142920|Q96A70-3|AZIN2;nc|ENSG00000142920|Q96A70-4|AZIN2;ENST00000484656.5_1_1:33549518-33583718:+|nuORF;ENST00000471119.5_1_1:33546965-33585780:+|nuORF;ENSG00000142920|ENST00000294517|AZIN2;ENST00000481886.5_1_1:33546965-33585780:+|nuORF;nc|ENSG00000142920|Q96A70-2|AZIN2 ENST00000478204.5_1_1:33557816-33585780:+|nuORF ENST00000478204.5_1_1:33557816-33585780:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.7294616699219 2 479.727446 957.44034 3.2507 0.0015594 0.47294 0.00022688 3.7236 0.0017863 479.72772736089286 20.607 0.24305 21.261 21.134 21.377 0.65346 44 23 2 0 0 0 0.079031 1 9364 9364 37.974 9.8008 1 296370 10362 3334 6510 6527 12228 12228 -0.04008290104138723 IAVFPVRLH 9 Unmodified _IAVFPVRLH_ 0 0 0 REV__ENSG00000156395|ENST00000369701|SORCS3 REV__ENSG00000156395|ENST00000369701|SORCS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.2119445800781 3 351.218555 1050.63383 NaN NaN NaN NaN NaN NaN NaN 62.262 1 62.922 62.422 63.422 0.66008 0 0 0 0.90431 1 28530 28530 2.4985 1.427 1 + 10363 12771 6511 6528 12229 12229 0.110543361934333 IAWEPVQYFN 10 Unmodified _IAWEPVQYFN_ 0 0 0 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;MYO1C|p.P889Lfs*40|1|0.02|ENSG00000197879|chr17:1468441-1468442|-/TTGCA|frameshift_variant nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 423.2117614746094 3 422.876634 1265.60807 2.7869 0.0011785 -0.11217 -4.7433E-05 2.6748 0.0011311 422.8765382771617 41.472 0.386 41.472 41.307 41.693 0 129 49 3 0 0 0 0.60841 1 18834 18834 10.899 0.099449 1 25871000 10364 5847 6512 6529 12230 12230 -0.014106028395190151 IAWGYLLL 8 Unmodified _IAWGYLLL_ 0 0 0 REV__ENSG00000167972|ENST00000301732|ABCA3 REV__ENSG00000167972|ENST00000301732|ABCA3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.731689453125 2 474.781296 947.54804 3.2137 0.0015258 0.10657 5.0598E-05 3.3203 0.0015764 474.78149869156096 19.586 0.14685 20.245 20.182 20.329 0.65829 16 11 2 0 0 0 0.13779 1 8919 8919 11.114 11.114 1 109320 + 10365 13318 6513 6530 12231 12231 0.07216751287910483 IAYAAFHVL 9 Unmodified _IAYAAFHVL_ 0 0 0 ENST00000276569.7_1_8:66516466-66516607:-|nuORF ENST00000276569.7_1_8:66516466-66516607:-|nuORF ENST00000276569.7_1_8:66516466-66516607:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.78167724609375 2 502.781828 1003.5491 NaN NaN NaN NaN NaN NaN NaN 30.277 1 30.535 30.035 31.035 0.25804 0 0 0 0.10934 1 13780 13780 36.466 0.42194 1 10366 6677 6514 6531 12232 12232 0.04746965656784141 IAYPLGLV 8 Unmodified _IAYPLGLV_ 0 0 0 REV__ENSG00000101438|ENST00000217420|SLC32A1 REV__ENSG00000101438|ENST00000217420|SLC32A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.2601013183594 2 423.260197 844.50584 NaN NaN NaN NaN NaN NaN NaN 12.375 1 12.683 12.183 13.183 0.30727 0 0 0 0.82704 1 5567 5567 17.087 0 1 + 10367 10894 6515 6532 12233 12233 0.07736775879504876 IAYQKQVI 8 Unmodified _IAYQKQVI_ 0 0 0 ENSG00000090686|ENST00000308271|USP48;nc|ENSG00000090686|Q86UV5-8|USP48;nc|ENSG00000090686|Q86UV5-6|USP48;ENST00000464577.1_1_1:22013654-22030763:-|nuORF ENSG00000090686|ENST00000308271|USP48 ENSG00000090686|ENST00000308271|USP48 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.7892150878906 2 481.78711 961.559667 3.1074 0.0014971 -0.67254 -0.00032402 2.4348 0.0011731 481.7868406808587 32.069 0.2811 32.687 32.505 32.786 0.61831 22 13 2 0 0 0 0.37185 1 14714 14714 30.225 5.5509 1 246380 10368 1066 6516 6533 12234 12234 0.07734948311224343 ICDTGEEEETI 11 Unmodified _ICDTGEEEETI_ 0 0 0 ENST00000498486.1_1_2:172336502-172337621:+|nuORF;nc|ENSG00000115827|Q5H9S7-2|DCAF17;ENSG00000115827|ENST00000375255|DCAF17 ENST00000498486.1_1_2:172336502-172337621:+|nuORF ENST00000498486.1_1_2:172336502-172337621:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.7064208984375 2 619.758283 1237.50201 NaN NaN NaN NaN NaN NaN NaN 55.703 1 56.49 55.99 56.99 0.78711 0 0 0 1.0038 1 25438 25438 5.7319 0.50118 1 10369 1993 6517 6534 12235 12235 -0.10723771257812587 ICEECCCCCCE 11 Unmodified _ICEECCCCCCE_ 0 0 0 REV__ENSG00000170775|ENST00000303921|GPR37 REV__ENSG00000170775|ENST00000303921|GPR37 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.799560546875 2 620.650626 1239.2867 NaN NaN NaN NaN NaN NaN NaN 68.323 1 69.025 68.525 69.525 0.70218 0 0 0 1.0082 1 32569 32569 0 0 1 + 10370 13451 6518 6535 12236 12236 -0.32337258177813055 ICEKYLPGY 9 Unmodified _ICEKYLPGY_ 0 0 0 ENSG00000099992|ENST00000215790|TBC1D10A;nc|ENSG00000099992|Q9BXI6-2|TBC1D10A;ENST00000466666.5_1_22:30689582-30690835:-|nuORF;ENST00000462073.5_1_22:30689736-30691829:-|nuORF ENSG00000099992|ENST00000215790|TBC1D10A ENSG00000099992|ENST00000215790|TBC1D10A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.5195922851562 2 543.270435 1084.52632 NaN NaN NaN NaN NaN NaN NaN 74.003 1 74.003 73.503 74.503 0 0 0 0 0.89509 1 36115 36115 4.756 0 1 10371 1164 6519 6536 12237 12237 -0.012564215229986075 ICELEGSY 8 Unmodified _ICELEGSY_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 305.13897705078125 3 305.137238 912.389884 NaN NaN NaN NaN NaN NaN NaN 66.793 1 67.449 66.949 67.949 0.65672 0 0 0 0.99035 1 30620 30620 1.4819 0 1 + 10372 12747 6520 6537 12238 12238 -0.06981535753482149 ICGDQYQYCSC 11 Unmodified _ICGDQYQYCSC_ 0 0 0 REV__nc|ENSG00000156970|O60566-3|BUB1B REV__nc|ENSG00000156970|O60566-3|BUB1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.7329711914062 2 641.730491 1281.44643 3.7335 0.0023959 -0.20062 -0.00012874 3.5329 0.0022672 641.7305256045524 40.86 0.1831 40.86 40.766 40.949 0 27 10 3 0 0 0 0.67822 1 18563 18563 12.241 3.6474 1 1194400 + 10373 12789 6521 6538 12239 12239 -0.18303599250771185 ICGDQYQYCSC 11 Unmodified _ICGDQYQYCSC_ 0 0 0 REV__nc|ENSG00000156970|O60566-3|BUB1B REV__nc|ENSG00000156970|O60566-3|BUB1B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 641.730491 1281.44643 3.7335 0.0023959 -0.20062 -0.00012874 3.5329 0.0022672 641.7305256045524 40.86 0.1831 40.86 40.766 40.949 0 0.029292 0.00014951 NaN 12.241 27 10 3 NaN NaN NaN NaN 0 NaN NaN 0 1194400 + 10374 12789 6521 6538 -0.18303599250771185 ICGPVWLLPFV 11 Unmodified _ICGPVWLLPFV_ 0 0 0 REV__ENST00000375754.8_1_9:93657936-93658308:+|nuORF REV__ENST00000375754.8_1_9:93657936-93658308:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 622.349609375 2 622.34902 1242.68349 NaN NaN NaN NaN NaN NaN NaN 89.684 1 89.935 89.435 90.435 0.25137 0 0 0 1.0071 1 41246 41246 1.4819 0.15237 1 + 10375 15812 6522 6539 12240 12240 0.07185283087164862 ICHFRCHPC 9 Unmodified _ICHFRCHPC_ 0 0 0 ENST00000492490.1_1_5:132109735-132112939:-|nuORF ENST00000492490.1_1_5:132109735-132112939:-|nuORF ENST00000492490.1_1_5:132109735-132112939:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.2369384765625 2 558.238424 1114.46229 NaN NaN NaN NaN NaN NaN NaN 30.524 1 30.78 30.28 31.28 0.25614 0 0 0 0.90511 1 13891 13891 2.3027 0 1 10376 8405 6523 6540 12241 12241 -0.09035803432561806 ICKVRKFLKRR 11 Unmodified _ICKVRKFLKRR_ 0 0 0 REV__ENSG00000205832|ENST00000444310|C16orf96 REV__ENSG00000205832|ENST00000444310|C16orf96 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 723.963623046875 2 723.96374 1445.91293 NaN NaN NaN NaN NaN NaN NaN 60.893 1 61.556 61.056 62.056 0.66261 0 0 0 1.0082 1 27881 27881 0 0 1 + 10377 14468 6524 6541 12242 12242 0.20780714823627022 ICLLRLIHV 9 Unmodified _ICLLRLIHV_ 0 0 0 REV__ENST00000382004.7_1_9:3221866-3221968:-|nuORF REV__ENST00000382004.7_1_9:3221866-3221968:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 360.8980712890625 3 360.563445 1078.66851 2.0666 0.00074513 -1.6247 -0.00058579 0.44191 0.00015934 360.5626012473709 33.023 0.21142 33.811 33.701 33.912 0.78795 18 12 2 0 0 0 1.1703 1 14960 14960 1.1933 0.79263 1 318090 + 10378 15895 6525 6542 12243 12243 0.13231836009867948 ICLVVRYR 8 Unmodified _ICLVVRYR_ 0 0 0 REV__ENST00000561483.5_1_15:84323016-84694242:+|nuORF REV__ENST00000561483.5_1_15:84323016-84694242:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 341.2054138183594 3 341.204028 1020.59026 NaN NaN NaN NaN NaN NaN NaN 58.034 1 58.802 58.302 59.302 0.76861 0 0 0 0.99035 1 26604 26604 1.6526 0 1 + 10379 12768 6526 6543 12244 12244 0.08078403424622138 ICRRRRYNRR 10 Unmodified _ICRRRRYNRR_ 0 0 0 REV__ENST00000371361.3_1_10:96112804-96114802:-|nuORF REV__ENST00000371361.3_1_10:96112804-96114802:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 724.6036987304688 2 724.915644 1447.81674 NaN NaN NaN NaN NaN NaN NaN 84.034 1 84.034 83.534 84.534 0 0 0 0 1.0015 1 42448 42448 0.40072 0.050084 1 + 10380 15738 6527 6544 12245 12245 0.11073960036264907 IDAKIELFIHL 11 Unmodified _IDAKIELFIHL_ 0 0 0 REV__nc|ENSG00000168016|O15050|TRANK1 REV__nc|ENSG00000168016|O15050|TRANK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.69854736328125 4 328.697232 1310.75982 2.4704 0.00081202 0.99036 0.00032553 3.4608 0.0011375 328.69755435013786 39.809 0.38568 40.45 40.306 40.692 0.64136 29 15 2 0 0 0 0.9102 1 18205 18205 0.50596 0 1 908730 + 10381 13323 6528 6545 12246 12246 0.11687378188162256 IDCEKKGD 8 Unmodified _IDCEKKGD_ 0 0 0 REV__nc|ENSG00000074054|Q7Z460-2|CLASP1 REV__nc|ENSG00000074054|Q7Z460-2|CLASP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 453.8816223144531 2 454.213117 906.411682 NaN NaN NaN NaN NaN NaN NaN 36.096 1 36.096 35.596 36.596 0 0 0 0 0.967 1 16382 16382 7.9102 0 1 + 10382 10512 6529 6546 12247 12247 -0.04526731004921203 IDDMLFPN 8 Unmodified _IDDMLFPN_ 0 0 0 REV__ENST00000520099.5_1_8:92145476-92219037:+|nuORF REV__ENST00000520099.5_1_8:92145476-92219037:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 964.4466552734375 1 964.444445 963.437169 3.7562 0.0036227 0.49241 0.0004749 4.2486 0.0040976 964.4448739942715 85.56 0.34233 85.809 85.696 86.038 0.24857 24 13 2 0 0 0 0.18676 1 39407 39407 44.407 4.4497 1 844490 + 10383 14521 6530 6547 12248 12248 -0.04601256482499139 IDDRWNSLE 9 Unmodified _IDDRWNSLE_ 0 0 0 REV__ENSG00000235268|ENST00000450979|KDM4E REV__ENSG00000235268|ENST00000450979|KDM4E MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.5980834960938 2 574.272552 1146.53055 3.6898 0.002119 -0.20466 -0.00011753 3.4852 0.0020014 574.2724076054169 21.352 0.31157 21.352 21.21 21.522 0 51 30 2 0 0 0 0.056326 1 9588 9588 10.824 0 1 431790 + 10384 14589 6531 6548 12249 12249 -0.0368524077573511 IDDTGGLIF 9 Unmodified _IDDTGGLIF_ 0 0 0 REV__ENSG00000115423|ENST00000389394|DNAH6 REV__ENSG00000115423|ENST00000389394|DNAH6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.7461853027344 2 475.745108 949.475663 2.8742 0.0013674 1.0794 0.00051354 3.9536 0.0018809 475.74519327495574 63.144 0.28736 63.394 63.302 63.589 0.24965 32 17 2 0 0 0 0.54955 1 28962 28962 11.64 0 1 389330 + 10385 11365 6532 6549 12250 12250 -0.0010962757633024012 IDEAIAWLR 9 Unmodified _IDEAIAWLR_ 0 0 0 ENSG00000154319|ENST00000284486|FAM167A ENSG00000154319|ENST00000284486|FAM167A ENSG00000154319|ENST00000284486|FAM167A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.80126953125 2 543.800749 1085.58694 NaN NaN NaN NaN NaN NaN NaN 48.634 1 49.461 48.961 49.961 0.82705 0 0 0 0.90611 1 22156 22156 2.0598 0 1 10386 3820 6533 6550 12251 12251 0.047574318515898995 IDIISIIPYFA 11 Unmodified _IDIISIIPYFA_ 0 0 0 ENSG00000143105|ENST00000369771|KCNA10 ENSG00000143105|ENST00000369771|KCNA10 ENSG00000143105|ENST00000369771|KCNA10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 632.8770141601562 2 632.863015 1263.71148 NaN NaN NaN NaN NaN NaN NaN 78.863 1 78.863 78.363 79.363 0 0 0 0 1.0055 1 38865 38865 3.5965 0 1 10387 3342 6534 6551 12252 12252 0.09016884548304915 IDKHFRRQLFW 11 Unmodified _IDKHFRRQLFW_ 0 0 0 REV__VWA5B2|p.I651Yfs*88|1|0.07|ENSG00000145198|chr3:184238620-184238620|C/-|frameshift_variant REV__VWA5B2|p.I651Yfs*88|1|0.07|ENSG00000145198|chr3:184238620-184238620|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.95361328125 3 515.95276 1544.83645 3.603 0.001859 -2.1578 -0.0011133 1.4452 0.00074566 515.9518502188914 48.554 0.20834 48.816 48.665 48.873 0.26209 21 10 3 0 0 0 0.89544 2 22148 22148;22207 2.6312 1.4164 1 821440 + 10388 12430 6535 6552 12253;12254 12253 0.08582614528017984 IDKHFRRQLFW 11 Unmodified _IDKHFRRQLFW_ 0 0 0 REV__VWA5B2|p.I651Yfs*88|1|0.07|ENSG00000145198|chr3:184238620-184238620|C/-|frameshift_variant REV__VWA5B2|p.I651Yfs*88|1|0.07|ENSG00000145198|chr3:184238620-184238620|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.95361328125 3 515.95276 1544.83645 3.5008 0.0018063 -1.6764 -0.00086497 1.8244 0.00094128 515.951959098833 47.952 0.22363 48.606 48.458 48.682 0.65356 25 8 4 0 0 0 0.89544 1 21952 21952 2.6312 1.1761 1 757590 + 10389 12430 6535 6552 12255 12255 0.08582614528017984 IDKHFRRQLFW 11 Unmodified _IDKHFRRQLFW_ 0 0 0 REV__VWA5B2|p.I651Yfs*88|1|0.07|ENSG00000145198|chr3:184238620-184238620|C/-|frameshift_variant REV__VWA5B2|p.I651Yfs*88|1|0.07|ENSG00000145198|chr3:184238620-184238620|C/-|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 515.95276 1544.83645 3.603 0.001859 -2.1578 -0.0011133 1.4452 0.00074566 515.9518502188914 48.554 0.20834 48.816 48.665 48.873 0.26209 0.10501 -0.0004485 NaN 2.6312 21 10 3 NaN NaN NaN NaN 0 NaN NaN 0 821440 + 10390 12430 6535 6552 0.08582614528017984 IDKHSVRFFVR 11 Unmodified _IDKHSVRFFVR_ 0 0 0 ENST00000478867.1_1_3:113604431-113604875:+|nuORF ENST00000478867.1_1_3:113604431-113604875:+|nuORF ENST00000478867.1_1_3:113604431-113604875:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 702.3972778320312 2 702.398953 1402.78335 NaN NaN NaN NaN NaN NaN NaN 71.453 1 71.711 71.211 72.211 0.25786 0 0 0 1.0074 1 32732 32732 1.0715 0.10919 1 10391 8256 6536 6553 12256 12256 0.0980723674535966 IDKLYNIWI 9 Unmodified _IDKLYNIWI_ 0 0 0 ENSG00000068654|ENST00000263857|POLR1A;ENST00000486964.5_1_2:86305209-86332944:-|nuORF ENSG00000068654|ENST00000263857|POLR1A ENSG00000068654|ENST00000263857|POLR1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.2270202636719 3 393.225375 1176.6543 NaN NaN NaN NaN NaN NaN NaN 103.23 1 103.23 102.73 103.73 0 0 0 0 0.8984 1 56916 56916 2.2828 0.5405 1 10392 738 6537 6554 12257 12257 0.07303462062577637 IDKPQARP 8 Unmodified _IDKPQARP_ 0 0 0 L1MD1_dup3168|chr8:33047435-33049452:+|1.6340506230636669|0.3415444526392706|2.26|538.0|38|2|sense L1MD1_dup3168|chr8:33047435-33049452:+|1.6340506230636669|0.3415444526392706|2.26|538.0|38|2|sense L1MD1_dup3168|chr8:33047435-33049452:+|1.6340506230636669|0.3415444526392706|2.26|538.0|38|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.767578125 2 462.766709 923.518865 NaN NaN NaN NaN NaN NaN NaN 13.097 1 13.404 12.904 13.904 0.30727 0 0 0 0.94453 1 5907 5907 7.9102 2.6795 1 10393 9444 6538 6555 12258 12258 0.054046069916125816 IDKSDFITF 9 Unmodified _IDKSDFITF_ 0 0 0 ENSG00000204962|ENST00000531613|PCDHA8;ENSG00000204970|ENST00000504120|PCDHA1;nc|ENSG00000081842|Q9UN73-2|PCDHA6;nc|ENSG00000204970|Q9Y5I3-2|PCDHA1;ENSG00000204969|ENST00000526136|PCDHA2;ENSG00000250120|ENST00000307360|PCDHA10;ENSG00000249158|ENST00000398640|PCDHA11;ENSG00000081842|ENST00000529310|PCDHA6;ENSG00000204961|ENST00000532602|PCDHA9;nc|ENSG00000250120|Q9Y5I2-2|PCDHA10;ENSG00000239389|ENST00000289272|PCDHA13;ENSG00000248383|ENST00000253807|PCDHAC1;ENSG00000204963|ENST00000525929|PCDHA7;ENSG00000251664|ENST00000398631|PCDHA12;ENSG00000204965|ENST00000529859|PCDHA5;ENSG00000255408|ENST00000522353|PCDHA3;ENSG00000204967|ENST00000530339|PCDHA4;ENSG00000243232|ENST00000289269|PCDHAC2 ENSG00000204962|ENST00000531613|PCDHA8;ENSG00000204963|ENST00000525929|PCDHA7;ENSG00000204967|ENST00000530339|PCDHA4;ENSG00000243232|ENST00000289269|PCDHAC2 ENSG00000204962|ENST00000531613|PCDHA8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.3111572265625 2 543.279315 1084.54408 NaN NaN NaN NaN NaN NaN NaN 54.743 1 54.743 54.243 55.243 0 0 0 0 0.56337 1 25128 25128 16.942 6.1184 1 10394 6037;6038;6039;6235 6539 6556 12259 12259 0.005186170035130999 IDLMKKHRIR 10 Unmodified _IDLMKKHRIR_ 0 0 0 ENSG00000108797|ENST00000264638|CNTNAP1 ENSG00000108797|ENST00000264638|CNTNAP1 ENSG00000108797|ENST00000264638|CNTNAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.2032775878906 4 328.202588 1308.78124 2.2477 0.00073769 0.71611 0.00023503 2.9638 0.00097272 328.20267723817966 48.345 0.50598 48.345 48.111 48.617 0 94 30 4 0 0 0 0.93584 1 22109 22109 1.7423 0.28716 1 3854400 10395 1648 6540 6557 12260 12260 0.13920484735899663 IDLMKKHRIR 10 Unmodified _IDLMKKHRIR_ 0 0 0 ENSG00000108797|ENST00000264638|CNTNAP1 ENSG00000108797|ENST00000264638|CNTNAP1 ENSG00000108797|ENST00000264638|CNTNAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.2693176269531 3 437.267691 1308.78124 2.8836 0.0012609 0.44427 0.00019427 3.3279 0.0014552 437.26774739425275 49.355 1.0501 49.355 49.022 50.072 0 163 49 4 0 0 0 0.93584 1 22476 22476 1.7423 0.28716 1 8602100 10396 1648 6540 6557 12261 12261 0.13920484735899663 IDLRFHPKP 9 Unmodified _IDLRFHPKP_ 0 0 0 nc|ENSG00000181222|P24928|POLR2A;ENSG00000181222|ENST00000674977|POLR2A;nc|ENSG00000181222|P24928-2|POLR2A;POLR2A|p.L681Sfs*33|1|0.27|ENSG00000181222|chr17:7501098-7501098|C/-|frameshift_variant;ENST00000576952.1_1_17:7401124-7401562:+|nuORF nc|ENSG00000181222|P24928|POLR2A nc|ENSG00000181222|P24928|POLR2A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.5411071777344 3 374.885464 1121.63456 2.6261 0.00098449 -2.2817 -0.00085539 0.34437 0.0001291 374.8848009507581 28.282 0.1382 28.543 28.504 28.643 0.26108 9 8 2 0 0 0 0.10477 1 12904 12904 9.3831 2.2814 1 234090 10397 5284 6541 6558 12262 12262 0.07861130842456987 IDLRRHLHTPV 11 Unmodified _IDLRRHLHTPV_ 0 0 0 ENST00000426431.2_1_12:53809661-53809787:+|nuORF ENST00000426431.2_1_12:53809661-53809787:+|nuORF ENST00000426431.2_1_12:53809661-53809787:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 679.3241577148438 2 678.896577 1355.7786 NaN NaN NaN NaN NaN NaN NaN 109.38 1 109.42 108.92 109.92 0.041008 0 0 0 1.0057 1 59003 59003 3.2813 0.28607 1 10398 7803 6542 6559 12263 12263 0.11494352602585423 IDLVGYST 8 Unmodified _IDLVGYST_ 0 0 0 REV__nc|ENSG00000135218|P16671-4|CD36 REV__nc|ENSG00000135218|P16671-4|CD36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 867.4494018554688 1 867.445825 866.438549 3.7736 0.0032734 0.15629 0.00013557 3.9299 0.003409 867.446033176055 63.016 0.16318 63.266 63.188 63.351 0.24965 14 9 2 0 0 0 0.26384 1 28842 28842 38.151 0 1 611640 + 10399 12004 6543 6560 12264 12264 -1.2991220842195617E-05 IDLVGYST 8 Unmodified _IDLVGYST_ 0 0 0 REV__nc|ENSG00000135218|P16671-4|CD36 REV__nc|ENSG00000135218|P16671-4|CD36 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 867.445825 866.438549 3.7736 0.0032734 0.15629 0.00013557 3.9299 0.003409 867.446033176055 63.016 0.16318 63.266 63.188 63.351 0.24965 0.066132 0.00010746 NaN 38.151 14 9 2 NaN NaN NaN NaN 0 NaN NaN 0 611640 + 10400 12004 6543 6560 -1.2991220842195617E-05 IDLVGYST 8 Unmodified _IDLVGYST_ 0 0 0 REV__nc|ENSG00000135218|P16671-4|CD36 REV__nc|ENSG00000135218|P16671-4|CD36 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 867.445825 866.438549 3.7474 0.0032507 -0.088266 -7.6566E-05 3.6592 0.0031741 867.445421465241 62.473 0.19304 63.133 63.027 63.22 0.66008 -0.066132 -0.00010468 NaN 38.151 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 559010 + 10401 12004 6543 6560 -1.2991220842195617E-05 IDMLVIELFF 10 Unmodified _IDMLVIELFF_ 0 0 0 REV__ENST00000413731.1_1_17:16649839-16649920:-|nuORF REV__ENST00000413731.1_1_17:16649839-16649920:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.3408813476562 2 620.338318 1238.66208 3.0756 0.0019079 0.97924 0.00060746 4.0548 0.0025154 620.3386153262546 13.143 0.12167 13.386 13.333 13.454 0.24346 12 8 2 0 0 0 0.93713 1 5751 5751 1.4819 0.28856 1 207440 + 10402 16115 6544 6561 12265 12265 0.05229853267815088 IDNDFVQL 8 Unmodified _IDNDFVQL_ 0 0 0 REV__nc|ENSG00000177731|Q13045-2|FLII REV__nc|ENSG00000177731|Q13045-2|FLII MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.2435302734375 2 482.242732 962.470912 NaN NaN NaN NaN NaN NaN NaN 68.186 1 68.845 68.345 69.345 0.65924 0 0 0 0.82924 1 31256 31256 16.942 4.4107 1 + 10403 13742 6545 6562 12266 12266 -0.01182511719082413 IDPDSPLLM 9 Unmodified _IDPDSPLLM_ 0 0 0 ENSG00000277481|ENST00000620267|PKD1L3 ENSG00000277481|ENST00000620267|PKD1L3 ENSG00000277481|ENST00000620267|PKD1L3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.75616455078125 2 500.754618 999.494683 3.3665 0.0016858 -0.61221 -0.00030656 2.7543 0.0013792 500.75464448631874 83.501 0.39986 84.163 83.98 84.38 0.66219 63 26 3 0 0 0 0.3144 1 38402 38402 15.847 1.0089 1 1441400 10404 6354 6546 6563 12267 12267 -0.0050841427693057994 IDPMLDNL 8 Unmodified _IDPMLDNL_ 0 0 0 REV__ENSG00000011114|ENST00000334746|BTBD7 REV__ENSG00000011114|ENST00000334746|BTBD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 930.4632568359375 1 930.460095 929.452819 2.9202 0.0027171 0.45267 0.0004212 3.3728 0.0031383 930.4606832365989 80.321 0.4368 80.641 80.531 80.968 0.31998 77 38 3 0 0 0 0.29255 2 39463 39463;39517 36.044 5.8194 1 19436000 + 10405 10232 6547 6564 12268;12269 12268 -0.014729699654594697 IDPMLDNL 8 Unmodified _IDPMLDNL_ 0 0 0 REV__ENSG00000011114|ENST00000334746|BTBD7 REV__ENSG00000011114|ENST00000334746|BTBD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.734375 2 465.733686 929.452819 2.611 0.001216 0.21619 0.00010069 2.8272 0.0013167 465.7338851633833 82.323 0.63512 82.57 82.292 82.927 0.24722 85 38 3 0 0 0 0.49219 1 38007 38007 21.747 5.8995 1 2657800 + 10406 10232 6547 6564 12270 12270 -0.014729699654594697 IDPSESALL 9 Unmodified _IDPSESALL_ 0 0 0 REV__ENST00000546964.5_1_12:48513149-48528944:+|nuORF REV__ENST00000546964.5_1_12:48513149-48528944:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.7518615722656 2 472.75039 943.486227 3.0695 0.0014511 0.44525 0.00021049 3.5148 0.0016616 472.7505661677362 66.206 0.63251 66.863 66.494 67.126 0.65672 83 38 3 0 0 0 0.062556 1 30282 30282 42.095 6.0504 1 1653500 + 10407 17253 6548 6565 12271 12271 0.012223550780959158 IDQRKKML 8 Unmodified _IDQRKKML_ 0 0 0 ENST00000477040.1_1_1:36921391-36921985:-|nuORF;ENST00000488606.5_1_1:36921391-36923601:-|nuORF;ENSG00000116898|ENST00000373116|MRPS15 ENST00000477040.1_1_1:36921391-36921985:-|nuORF ENST00000477040.1_1_1:36921391-36921985:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.8076171875 2 516.305144 1030.59573 3.4899 0.0018019 -0.63888 -0.00032986 2.851 0.001472 516.3035679000967 36.768 0.38183 37.398 37.191 37.573 0.62999 39 16 3 0 0 0 0.58952 1 16816 16816 13.508 0 1 396560 10408 2054 6549 6566 12272 12272 0.08166082216439463 IDQSLKEEIP 10 Unmodified _IDQSLKEEIP_ 0 0 0 REV__nc|ENSG00000169064|A8MT70-3|ZBBX REV__nc|ENSG00000169064|A8MT70-3|ZBBX MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.2260437011719 3 391.211683 1170.61322 NaN NaN NaN NaN NaN NaN NaN 80.207 1 80.867 80.367 81.367 0.65998 0 0 0 1.0006 1 36958 36958 0.50596 0 1 + 10409 13379 6550 6567 12273 12273 0.03473656232426947 IDQYHRWWFRK 11 Unmodified _IDQYHRWWFRK_ 0 0 0 REV__ENST00000354179.8_2_5:176671236-176673694:+|nuORF REV__ENST00000354179.8_2_5:176671236-176673694:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 817.90380859375 2 817.920584 1633.82661 NaN NaN NaN NaN NaN NaN NaN 107.6 1 107.6 107.1 108.1 0 0 0 0 1.0072 1 59005 59005 1.3295 0.9789 1 + 10410 15529 6551 6568 12274 12274 0.03505426522610833 IDRFNRKVT 9 Unmodified _IDRFNRKVT_ 0 0 0 nc|ENSG00000188162|Q6ZRI0-2|OTOG;ENSG00000188162|ENST00000399397|OTOG;nc|ENSG00000188162|Q6ZRI0|OTOG nc|ENSG00000188162|Q6ZRI0-2|OTOG nc|ENSG00000188162|Q6ZRI0-2|OTOG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.8314208984375 2 574.830372 1147.64619 3.7851 0.0021758 -0.38701 -0.00022246 3.3981 0.0019533 574.8301920083884 30.773 0.27164 31.029 30.857 31.129 0.25614 44 28 2 0 0 0 1.0894 1 14014 14014 0.45834 0.10771 1 445530 10411 5656 6552 6569 12275 12275 0.07827327865788902 IDRNILDAL 9 Unmodified _IDRNILDAL_ 0 0 0 ENSG00000093072|ENST00000399837|ADA2;nc|ENSG00000093072|Q9NZK5-2|ADA2 ENSG00000093072|ENST00000399837|ADA2 ENSG00000093072|ENST00000399837|ADA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.7997436523438 2 521.798206 1041.58186 3.2174 0.0016788 1.384 0.00072217 4.6014 0.002401 521.798622844032 33.404 0.22731 34.024 33.88 34.107 0.62031 14 9 2 0 0 0 0.76984 1 15336 15336 7.9102 0 1 297120 10412 1107 6553 6570 12276 12276 0.0627312798899311 IDRQRRFF 8 Unmodified _IDRQRRFF_ 0 0 0 REV__ENST00000493035.5_1_2:172864861-172928621:+|nuORF REV__ENST00000493035.5_1_2:172864861-172928621:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.8841552734375 3 379.880713 1136.62031 NaN NaN NaN NaN NaN NaN NaN 16.509 1 17.167 16.667 17.667 0.65798 0 0 0 0.99035 1 7439 7439 0.45834 0 1 + 10413 13568 6554 6571 12277 12277 0.057464784141757264 IDSHRRTMAV 10 Unmodified _IDSHRRTMAV_ 0 0 0 ENSG00000198398|ENST00000354905|TMEM207 ENSG00000198398|ENST00000354905|TMEM207 ENSG00000198398|ENST00000354905|TMEM207 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.87811279296875 3 395.876751 1184.60842 3.2673 0.0012935 0.84303 0.00033373 4.1103 0.0016272 395.877119786909 10.184 0.54047 10.813 10.615 11.156 0.62936 83 49 2 0 0 0 0.94099 1 4613 4613 0.69767 0.69767 1 94227 10414 5887 6555 6572 12278 12278 0.02350493608673787 IDSRVQEY 8 Unmodified _IDSRVQEY_ 0 0 0 ENSG00000149346|ENST00000334534|SLX4IP ENSG00000149346|ENST00000334534|SLX4IP ENSG00000149346|ENST00000334534|SLX4IP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.25299072265625 2 505.251089 1008.48762 3.1587 0.0015959 0.23104 0.00011673 3.3897 0.0017127 505.25132209878694 26.117 0.27494 26.742 26.593 26.868 0.62505 28 18 2 0 0 0 0.49219 1 11963 11963 21.747 0 1 425280 10415 3641 6556 6573 12279 12279 -0.016280108331329757 IDTGEILHKRK 11 Unmodified _IDTGEILHKRK_ 0 0 0 ENST00000430298.6_1_19:12222347-12224207:+|nuORF ENST00000430298.6_1_19:12222347-12224207:+|nuORF ENST00000430298.6_1_19:12222347-12224207:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2591552734375 3 437.257738 1308.75138 3.3761 0.0014762 -1.1458 -0.00050103 2.2302 0.00097519 437.25705831996004 91.88 1.3259 92.133 91.475 92.801 0.25253 128 64 3 0 0 0 0.91345 1 42200 42200 0.45452 0.046251 1 557110 10416 7844 6557 6574 12280 12280 0.10935824271518868 IDTWLLYK 8 Unmodified _IDTWLLYK_ 0 0 0 nc|ENSG00000175066|Q6ZS86-2|GK5;ENST00000460544.5_1_3:141905034-141944237:-|nuORF;ENSG00000175066|ENST00000392993|GK5 nc|ENSG00000175066|Q6ZS86-2|GK5 nc|ENSG00000175066|Q6ZS86-2|GK5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1052.42431640625 1 1051.58226 1050.57498 3.4641 0.0036428 0.56291 0.00059195 4.027 0.0042347 1051.5815799251795 29.522 0.086514 29.78 29.721 29.807 0.25804 6 4 2 0 0 0 0.7471 1 13416 13416 0.79363 0 1 132000 10417 9759 6558 6575 12281 12281 0.051718151084287456 IDTWLLYK 8 Unmodified _IDTWLLYK_ 0 0 0 nc|ENSG00000175066|Q6ZS86-2|GK5;ENST00000460544.5_1_3:141905034-141944237:-|nuORF;ENSG00000175066|ENST00000392993|GK5 nc|ENSG00000175066|Q6ZS86-2|GK5 nc|ENSG00000175066|Q6ZS86-2|GK5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 1051.58226 1050.57498 3.5904 0.0037756 2.4657 0.0025928 6.0561 0.0063685 1052.5890636772754 29.876 0.082197 29.876 29.818 29.9 0 0.047883 0.00051352 NaN 0.79363 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 723880 10418 9759 6558 6575 0.051718151084287456 IDVDPVQM 8 Unmodified _IDVDPVQM_ 0 0 0 REV__ENSG00000124942|ENST00000378024|AHNAK REV__ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 916.4463500976562 1 916.444445 915.437169 3.1067 0.0028471 -0.59972 -0.00054961 2.507 0.0022975 916.4441641735966 73.071 0.53893 73.77 73.531 74.07 0.69881 147 51 4 0 0 0 0.074456 1 35209 35209 57.471 6.6163 1 14378000 + 10419 11669 6559 6576 12282 12282 -0.02393256482491779 IDVFFIFR 8 Unmodified _IDVFFIFR_ 0 0 0 REV__ENSG00000151704|ENST00000392666|KCNJ1 REV__ENSG00000151704|ENST00000392666|KCNJ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1056.593994140625 1 1056.58768 1055.5804 3.5415 0.0037419 0.72937 0.00077064 4.2709 0.0045126 1056.5891867593064 37.429 0.093212 38.225 38.162 38.256 0.79552 5 3 2 0 0 0 0.7471 1 16959 16959 0.79363 0 1 265070 + 10420 12626 6560 6577 12283 12283 0.054835386909189765 IDVLTKAAL 9 Unmodified _IDVLTKAAL_ 0 0 0 REV__ENST00000406551.2_1_6:150201187-150201547:+|nuORF REV__ENST00000406551.2_1_6:150201187-150201547:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.2956848144531 2 472.294768 942.574983 2.9949 0.0014145 -0.56238 -0.00026561 2.4326 0.0011489 472.2944395222679 30.744 0.1589 31.533 31.465 31.624 0.78879 22 12 2 0 0 0 0.084899 1 13882 13882 36.506 3.7205 1 434320 + 10421 16071 6561 6578 12284 12284 0.10139815108414041 IEAERRRIQ 9 Unmodified _IEAERRRIQ_ 0 0 0 ENSG00000152492|ENST00000392455|CCDC50;nc|ENSG00000152492|Q8IVM0|CCDC50;ENST00000460064.1_1_3:191078900-191087884:+|nuORF ENSG00000152492|ENST00000392455|CCDC50 ENSG00000152492|ENST00000392455|CCDC50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 390.89605712890625 3 390.894911 1169.6629 2.6644 0.0010415 -0.36228 -0.00014161 2.3021 0.00089987 390.8947132858696 14.734 0.28499 14.734 14.607 14.892 0 67 30 3 0 0 0 0.38625 1 6511 6511 14.405 1.5328 1 248420 10422 3750 6562 6579 12285 12285 0.08485828751759072 IEAKSKLSL 9 Unmodified _IEAKSKLSL_ 0 0 0 nc|ENSG00000137478|O94868-3|FCHSD2;nc|ENSG00000137478|O94868-2|FCHSD2;ENSG00000137478|ENST00000409418|FCHSD2 nc|ENSG00000137478|O94868-3|FCHSD2 nc|ENSG00000137478|O94868-3|FCHSD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.8069763183594 2 494.8055 987.596446 3.2291 0.0015978 -0.44012 -0.00021778 2.789 0.00138 494.80518620195795 30.26 0.15353 30.877 30.799 30.952 0.61737 9 6 2 0 0 0 0.59921 1 13896 13896 15.847 1.0089 1 243770 10423 3020 6563 6580 12286 12286 0.10215200137145075 IEAKSKLSL 9 Unmodified _IEAKSKLSL_ 0 0 0 nc|ENSG00000137478|O94868-3|FCHSD2;nc|ENSG00000137478|O94868-2|FCHSD2;ENSG00000137478|ENST00000409418|FCHSD2 nc|ENSG00000137478|O94868-3|FCHSD2 nc|ENSG00000137478|O94868-3|FCHSD2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 494.8055 987.596446 3.6017 0.0017821 1.2442 0.00061562 4.8459 0.0023978 494.8055370950772 30.61 0.2501 30.866 30.7 30.95 0.25614 -0.0055207 0.0006215 NaN 15.847 25 15 3 NaN NaN NaN NaN 0 NaN NaN 0 192120 10424 3020 6563 6580 0.10215200137145075 IEAPWWRYRGV 11 Unmodified _IEAPWWRYRGV_ 0 0 0 REV__nc|ENSG00000165671|Q96L73-2|NSD1 REV__nc|ENSG00000165671|Q96L73-2|NSD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 716.875732421875 2 716.877853 1431.74115 NaN NaN NaN NaN NaN NaN NaN 41.912 1 42.72 42.22 43.22 0.80855 0 0 0 1.0072 1 19025 19025 1.3295 0.87119 1 + 10425 13177 6564 6581 12287 12287 0.042552613369707615 IECFMVLNPS 10 Unmodified _IECFMVLNPS_ 0 0 0 nc|ENSG00000118432|P21554-2|CNR1;nc|ENSG00000118432|P21554-3|CNR1;ENSG00000118432|ENST00000369501|CNR1 nc|ENSG00000118432|P21554-2|CNR1 nc|ENSG00000118432|P21554-2|CNR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 576.7772827148438 2 576.775028 1151.5355 3.6933 0.0021302 -0.029527 -1.7031E-05 3.6638 0.0021132 576.7747053460201 38.458 0.62946 38.458 38.236 38.865 0 45 28 2 0 0 0 0.51934 2 17489 17489;17597 20.415 0.97554 1 721930 10426 2113 6565 6582 12288;12289 12288 -0.03420396228966638 IECFMVLNPS 10 Unmodified _IECFMVLNPS_ 0 0 0 nc|ENSG00000118432|P21554-2|CNR1;nc|ENSG00000118432|P21554-3|CNR1;ENSG00000118432|ENST00000369501|CNR1 nc|ENSG00000118432|P21554-2|CNR1 nc|ENSG00000118432|P21554-2|CNR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 576.7771606445312 2 576.775028 1151.5355 3.5457 0.0020451 0.91131 0.00052562 4.457 0.0025707 576.7755404450473 38.006 0.60368 38.639 38.27 38.873 0.63388 46 23 3 0 0 0 0.48906 1 17386 17386 21.537 1.1224 1 301580 10427 2113 6565 6582 12290 12290 -0.03420396228966638 IEDKRKKILP 10 Unmodified _IEDKRKKILP_ 0 0 0 REV__MSH3|p.R938Yfs*14|1|0.07|ENSG00000113318|chr5:80813738-80813739|-/TTATTGTACCAGA|frameshift_variant REV__MSH3|p.R938Yfs*14|1|0.07|ENSG00000113318|chr5:80813738-80813739|-/TTATTGTACCAGA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.5858154296875 2 620.392805 1238.77106 NaN NaN NaN NaN NaN NaN NaN 97.017 1 97.088 96.588 97.588 0.070648 0 0 0 0.99812 1 51735 51735 3.2813 0.54611 1 + 10428 11296 6566 6583 12291 12291 0.1612220028232514 IEDLWELH 8 Unmodified _IEDLWELH_ 0 0 0 nc|ENSG00000203797|Q99489-2|DDO;nc|ENSG00000203797|Q99489-4|DDO;ENSG00000203797|ENST00000368924|DDO;nc|ENSG00000203797|Q99489-3|DDO nc|ENSG00000203797|Q99489-2|DDO nc|ENSG00000203797|Q99489-2|DDO MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.763671875 2 527.763832 1053.51311 NaN NaN NaN NaN NaN NaN NaN 26.061 1 26.824 26.324 27.324 0.76356 0 0 0 0.99035 1 11701 11701 2.5775 0 1 10429 5977 6567 6584 12292 12292 -0.011505363107289668 IEDNKEKL 8 Unmodified _IEDNKEKL_ 0 0 0 REV__nc|ENSG00000072571|O75330-4|HMMR REV__nc|ENSG00000072571|O75330-4|HMMR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.19464111328125 3 330.181835 987.523675 NaN NaN NaN NaN NaN NaN NaN 13.059 1 13.366 12.866 13.866 0.30727 0 0 0 0.97647 1 5890 5890 5.2969 2.3016 1 + 10430 10492 6568 6585 12293 12293 0.029414463437205995 IEDSPEAQI 9 Unmodified _IEDSPEAQI_ 0 0 0 nc|ENSG00000127952|Q9Y6J8-2|STYXL1;ENSG00000127952|ENST00000359697|STYXL1;nc|ENSG00000127952|Q9Y6J8-3|STYXL1;nc|ENSG00000127952|Q9Y6J8-4|STYXL1 nc|ENSG00000127952|Q9Y6J8-2|STYXL1 nc|ENSG00000127952|Q9Y6J8-2|STYXL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.0135498046875 2 501.242929 1000.47131 3.1143 0.001561 -0.12879 -6.4555E-05 2.9855 0.0014964 501.24283568225223 49.046 0.66519 49.873 49.641 50.306 0.82705 92 33 4 0 0 0 0.10837 1 22481 22481 30.637 3.7529 1 7352100 10431 2494 6569 6586 12294 12294 -0.028911367898899698 IEEDKNRIQEE 11 Unmodified _IEEDKNRIQEE_ 0 0 0 REV__nc|ENSG00000196535|Q92614-5|MYO18A REV__nc|ENSG00000196535|Q92614-5|MYO18A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 701.8433837890625 2 701.84407 1401.67359 NaN NaN NaN NaN NaN NaN NaN 98.625 1 98.625 98.125 99.125 0 0 0 0 1.0061 1 54025 54025 2.7352 0 1 + 10432 14228 6570 6587 12295 12295 -0.011182781751358561 IEEDMDLD 8 Unmodified _IEEDMDLD_ 0 0 0 REV__ENSG00000166352|ENST00000334307|IFTAP REV__ENSG00000166352|ENST00000334307|IFTAP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.19891357421875 2 490.199873 978.385193 NaN NaN NaN NaN NaN NaN NaN 95.376 1 95.458 94.958 95.958 0.082001 0 0 0 0.99035 1 50397 50397 5.7604 0 1 + 10433 13229 6571 6588 12296 12296 -0.10486464686914587 IEEFRRLRTHV 11 Unmodified _IEEFRRLRTHV_ 0 0 0 ENSG00000178538|ENST00000317995|CA8 ENSG00000178538|ENST00000317995|CA8 ENSG00000178538|ENST00000317995|CA8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 728.409912109375 2 728.412592 1454.81063 NaN NaN NaN NaN NaN NaN NaN 101.53 1 102.12 101.62 102.62 0.59717 0 0 0 1.0063 1 47007 47007 2.4985 0 1 10434 5172 6572 6589 12297 12297 0.1014172028574194 IEELFPLKI 9 Unmodified _IEELFPLKI_ 0 0 0 REV__ENSG00000163633|ENST00000295898|C4orf36 REV__ENSG00000163633|ENST00000295898|C4orf36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 367.89068603515625 3 367.889992 1100.64815 1.8715 0.00068851 -0.59967 -0.00022061 1.2719 0.0004679 367.889777059519 6.0632 1.6593 6.4159 6.113 7.7724 0.35278 500 215 4 0 0 0 0.29024 1 2738 2738 17.443 17.443 1 1294900 + 10435 13013 6573 6590 12298 12298 0.10184943831018245 IEELFPLKI 9 Unmodified _IEELFPLKI_ 0 0 0 REV__ENSG00000163633|ENST00000295898|C4orf36 REV__ENSG00000163633|ENST00000295898|C4orf36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 367.8904113769531 3 367.889992 1100.64815 1.8624 0.00068514 -0.23987 -8.8244E-05 1.6225 0.0005969 367.8899394859797 7.2946 1.5942 7.6004 7.2525 8.8467 0.30573 402 133 5 0 0 0 0.21127 1 3316 3316 22.658 0 1 2414900 + 10436 13013 6573 6590 12299 12299 0.10184943831018245 IEELRQRDALI 11 Unmodified _IEELRQRDALI_ 0 0 0 PRKG1|p.G545Efs*3|1|0.19|ENSG00000185532|chr10:52282284-52282284|G/-|frameshift_variant;ENSG00000185532|ENST00000373980|PRKG1 PRKG1|p.G545Efs*3|1|0.19|ENSG00000185532|chr10:52282284-52282284|G/-|frameshift_variant PRKG1|p.G545Efs*3|1|0.19|ENSG00000185532|chr10:52282284-52282284|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 678.1648559570312 2 678.385708 1354.75686 NaN NaN NaN NaN NaN NaN NaN 93.003 1 93.089 92.589 93.589 0.086212 0 0 0 0.99038 1 48624 48624 7.609 1.4032 1 10437 5515 6574 6591 12300 12300 0.09367503063390359 IEEPYFFL 8 Unmodified _IEEPYFFL_ 0 0 0 ENSG00000124181|ENST00000685551|PLCG1;nc|ENSG00000124181|P19174|PLCG1 ENSG00000124181|ENST00000685551|PLCG1 ENSG00000124181|ENST00000685551|PLCG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.2669067382812 2 529.265676 1056.5168 3.3434 0.0017695 -0.93941 -0.0004972 2.404 0.0012723 529.2651351293064 47.917 0.67841 48.57 48.356 49.035 0.65356 60 27 3 0 0 0 0.70799 1 22040 22040 5.2307 0.47466 1 671050 10438 2345 6575 6592 12301 12301 -0.009198665368558068 IEEWWEWFKEL 11 Unmodified _IEEWWEWFKEL_ 0 0 0 REV__ENST00000497314.1_1_1:150934548-150935668:+|nuORF REV__ENST00000497314.1_1_1:150934548-150935668:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 797.88134765625 2 797.882467 1593.75038 NaN NaN NaN NaN NaN NaN NaN 95.527 1 95.609 95.109 96.109 0.082001 0 0 0 1.0072 1 50511 50511 1.3295 0 1 + 10439 16858 6576 6593 12302 12302 -0.022744348879996323 IEFKKGVPVKV 11 Unmodified _IEFKKGVPVKV_ 0 0 0 ENSG00000130707|ENST00000352480|ASS1;ENST00000467695.5_1_9:133333919-133355188:+|nuORF ENSG00000130707|ENST00000352480|ASS1 ENSG00000130707|ENST00000352480|ASS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 622.3916625976562 2 622.392273 1242.76999 NaN NaN NaN NaN NaN NaN NaN 94.308 1 94.308 93.808 94.808 0 0 0 0 1.0041 1 50551 50551 5.2969 1.3525 1 10440 2611 6577 6594 12303 12303 0.15831985913405333 IEGQLPPLGFL 11 Unmodified _IEGQLPPLGFL_ 0 0 0 nc|ENSG00000085982|Q9NVE5|USP40;ENSG00000085982|ENST00000678225|USP40;nc|ENSG00000085982|Q9NVE5-3|USP40;nc|ENSG00000085982|Q9NVE5-2|USP40 nc|ENSG00000085982|Q9NVE5|USP40 nc|ENSG00000085982|Q9NVE5|USP40 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.3409423828125 2 592.339707 1182.66486 NaN NaN NaN NaN NaN NaN NaN 38.469 1 38.733 38.233 39.233 0.26408 0 0 0 1.0059 1 17510 17510 2.9952 0.26005 1 10441 977 6578 6595 12304 12304 0.08083444717021848 IEHAPPCAAWS 11 Unmodified _IEHAPPCAAWS_ 0 0 0 ENST00000469149.1_1_10:82249024-82269286:+|nuORF ENST00000469149.1_1_10:82249024-82269286:+|nuORF ENST00000469149.1_1_10:82249024-82269286:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.5186767578125 3 394.518453 1180.53353 NaN NaN NaN NaN NaN NaN NaN 38.291 1 38.555 38.055 39.055 0.26408 0 0 0 1.0073 1 17435 17435 0.40827 0 1 10442 8162 6579 6596 12305 12305 -0.04951688922574249 IEHLKRHFREK 11 Unmodified _IEHLKRHFREK_ 0 0 0 ENSG00000196652|ENST00000326775|ZKSCAN5 ENSG00000196652|ENST00000326775|ZKSCAN5 ENSG00000196652|ENST00000326775|ZKSCAN5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 746.9280395507812 2 746.928409 1491.84226 NaN NaN NaN NaN NaN NaN NaN 92.775 1 92.775 92.275 93.275 0 0 0 0 1.0044 1 49378 49378 4.897 1.3005 1 10443 5765 6580 6597 12306 12306 0.11601713039681272 IEHRLRPSRKK 11 Unmodified _IEHRLRPSRKK_ 0 0 0 REV__nc|ENSG00000070159|P26045-3|PTPN3 REV__nc|ENSG00000070159|P26045-3|PTPN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 710.40771484375 2 710.436401 1418.85825 NaN NaN NaN NaN NaN NaN NaN 91.567 1 91.65 91.15 92.15 0.082848 0 0 0 1.0059 1 47490 47490 2.9952 0 1 + 10444 17865 6581 6598 12307 12307 0.16557419276568908 IEHVEQNTEE 10 Unmodified _IEHVEQNTEE_ 0 0 0 ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 ENSG00000102699|ENST00000381989|PARP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 409.85589599609375 3 409.854447 1226.54151 2.8585 0.0011716 0.13944 5.7151E-05 2.9979 0.0012287 409.8545098637678 12.589 0.087625 12.589 12.542 12.63 0 17 7 3 0 0 0 0.36142 1 5484 5484 17.863 3.0253 1 1951600 10445 1350 6582 6599 12308 12308 -0.0626988319204429 IEIFRPFYRHW 11 Unmodified _IEIFRPFYRHW_ 0 0 0 ENSG00000176485|ENST00000415826|PLAAT3 ENSG00000176485|ENST00000415826|PLAAT3 ENSG00000176485|ENST00000415826|PLAAT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 782.4180908203125 2 782.414603 1562.81465 NaN NaN NaN NaN NaN NaN NaN 86.812 1 86.812 86.312 87.312 0 0 0 0 1.008 1 44596 44596 0.35063 0.043601 1 10446 5081 6583 6600 12309 12309 0.055758097794523565 IEIKRRRRRRQ 11 Unmodified _IEIKRRRRRRQ_ 0 0 0 REV__ENSG00000171316|ENST00000423902|CHD7 REV__ENSG00000171316|ENST00000423902|CHD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.3372802734375 3 523.001107 1565.98149 3.5479 0.0018555 -0.48769 -0.00025506 3.0602 0.0016005 523.0007625750104 105.96 0.11295 106.56 106.49 106.6 0.59969 14 4 4 0 0 0 0.91462 1 48932 48932 0.08335 0.08335 1 834840 + 10447 13488 6584 6601 12310 12310 0.2211409544770504 IEKDIHDFVF 10 Unmodified _IEKDIHDFVF_ 0 0 0 nc|ENSG00000167562|Q9NV72|ZNF701;ENSG00000167562|ENST00000391785|ZNF701;ENSG00000182986|ENST00000682928|ZNF320;ENSG00000213793|ENST00000638862|ZNF888 nc|ENSG00000167562|Q9NV72|ZNF701 nc|ENSG00000167562|Q9NV72|ZNF701 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.5534362792969 3 421.552039 1261.63429 3.1633 0.0013335 0.73809 0.00031114 3.9014 0.0016446 421.88673601626886 29.913 0.40808 30.171 29.933 30.341 0.25804 65 38 2 0 0 0 0.80002 1 13626 13626 8.4443 2.2525 1 457880 10448 9737 6585 6602 12311 12311 0.013936663319327636 IEKDIHDFVF 10 Unmodified _IEKDIHDFVF_ 0 0 0 nc|ENSG00000167562|Q9NV72|ZNF701;ENSG00000167562|ENST00000391785|ZNF701;ENSG00000182986|ENST00000682928|ZNF320;ENSG00000213793|ENST00000638862|ZNF888 nc|ENSG00000167562|Q9NV72|ZNF701 nc|ENSG00000167562|Q9NV72|ZNF701 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.55389404296875 3 421.552039 1261.63429 3.0191 0.0012727 -0.75529 -0.00031839 2.2638 0.00095433 421.5523239312863 29.654 0.43345 30.272 29.97 30.403 0.61789 74 26 4 0 0 0 0.90216 1 13630 13630 3.5871 0.85186 1 471130 10449 9737 6585 6602 12312 12312 0.013936663319327636 IEKEIVKAN 9 Unmodified _IEKEIVKAN_ 0 0 0 REV__ENSG00000154262|ENST00000284425|ABCA6 REV__ENSG00000154262|ENST00000284425|ABCA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.3114013671875 2 522.308406 1042.60226 3.0626 0.0015996 2.0758 0.0010842 5.1385 0.0026839 522.3094447611004 35.656 0.27562 35.656 35.506 35.782 0 24 13 2 0 0 0 0.43294 1 16207 16207 9.3831 2.66 1 796940 + 10450 12703 6586 6603 12313 12313 0.08266298648823067 IEKEKERRIRE 11 Unmodified _IEKEKERRIRE_ 0 0 0 REV__ENST00000475911.2_1_1:159846344-159850487:-|nuORF REV__ENST00000475911.2_1_1:159846344-159850487:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 743.4285888671875 2 743.428439 1484.84232 NaN NaN NaN NaN NaN NaN NaN 98.052 1 98.651 98.151 99.151 0.59885 0 0 0 0.99038 1 45142 45142 7.609 0 1 + 10451 14486 6587 6604 12314 12314 0.11929668249058523 IEKGIQVPITQ 11 Unmodified _IEKGIQVPITQ_ 0 0 0 REV__ENST00000461882.1_1_7:76871694-76888407:+|nuORF REV__ENST00000461882.1_1_7:76871694-76888407:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.3870239257812 2 613.36117 1224.70779 NaN NaN NaN NaN NaN NaN NaN 79.502 1 79.502 79.002 80.002 0 0 0 0 0.95688 1 39290 39290 10.8 2.0541 1 + 10452 12003 6588 6605 12315 12315 0.10442214774434433 IEKKAQLTL 9 Unmodified _IEKKAQLTL_ 0 0 0 ENSG00000135070|ENST00000375991|ISCA1;nc|ENSG00000135070|Q9BUE6-2|ISCA1 ENSG00000135070|ENST00000375991|ISCA1 ENSG00000135070|ENST00000375991|ISCA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.5544738769531 3 348.553492 1042.63865 NaN NaN NaN NaN NaN NaN NaN 13.153 1 13.796 13.296 14.296 0.64272 0 0 0 0.72654 1 5905 5905 7.609 0 1 10453 2845 6589 6606 12316 12316 0.11903175545512568 IEKKKKRRLKR 11 Unmodified _IEKKKKRRLKR_ 0 0 0 ENST00000432347.6_2_4:128996143-128999057:+|nuORF ENST00000432347.6_2_4:128996143-128999057:+|nuORF ENST00000432347.6_2_4:128996143-128999057:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.0076904296875 3 495.007088 1481.99943 NaN NaN NaN NaN NaN NaN NaN 55.534 1 55.534 55.034 56.034 0 0 0 0 1.0072 1 25531 25531 0.45452 0.37117 1 10454 7859 6590 6607 12317 12317 0.27771417649864816 IEKLKERSS 9 Unmodified _IEKLKERSS_ 0 0 0 nc|ENSG00000100815|Q15643-2|TRIP11;ENSG00000100815|ENST00000267622|TRIP11 nc|ENSG00000100815|Q15643-2|TRIP11 nc|ENSG00000100815|Q15643-2|TRIP11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3193359375 2 545.316763 1088.61897 3.4792 0.0018973 0.41297 0.0002252 3.8922 0.0021225 545.3169124440693 83.541 1.7312 83.788 83.088 84.819 0.24722 279 102 3 0 0 0 1.0246 1 38526 38526 3.5965 0.31518 1 2574300 10455 1243 6591 6608 12318 12318 0.07820799534761136 IEKLSKRQL 9 Unmodified _IEKLSKRQL_ 0 0 0 nc|ENSG00000076108|Q9UIF9-3|BAZ2A;ENSG00000076108|ENST00000549884|BAZ2A;nc|ENSG00000076108|Q9UIF9|BAZ2A;nc|ENSG00000076108|Q9UIF9-2|BAZ2A nc|ENSG00000076108|Q9UIF9-3|BAZ2A nc|ENSG00000076108|Q9UIF9-3|BAZ2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.852783203125 2 557.850773 1113.68699 3.493 0.0019486 0.043891 2.4485E-05 3.5369 0.0019731 557.8507766433557 15.56 0.71423 15.56 15.229 15.943 0 194 85 3 0 0 0 0.68285 1 6835 6835 9.3831 0 1 232260 10456 842 6592 6609 12319 12319 0.13469669185428756 IEKNRGKRRR 10 Unmodified _IEKNRGKRRR_ 0 0 0 REV__ENSG00000182768|ENST00000379095|NGRN REV__ENSG00000182768|ENST00000379095|NGRN MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 656.9080200195312 2 656.905268 1311.79598 3.3354 0.0021911 0.17976 0.00011809 3.5152 0.0023092 656.9054002902776 100.7 0.088432 100.7 100.65 100.73 0 8 5 2 0 0 0 0.12676 1 55636 55636 3.2813 0.28607 1 8711300 + 10457 13904 6593 6610 12320 12320 0.15255692928258213 IEKNRGKRRR 10 Unmodified _IEKNRGKRRR_ 0 0 0 REV__ENSG00000182768|ENST00000379095|NGRN REV__ENSG00000182768|ENST00000379095|NGRN MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 656.905268 1311.79598 4.1506 0.0027265 0.77102 0.00050648 4.9216 0.003233 656.9056582749009 100.44 0.19978 101.04 100.94 101.14 0.59717 0.17806 0.00038996 NaN 3.2813 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 6975600 + 10458 13904 6593 6610 0.15255692928258213 IEKRKKKKKKK 11 Unmodified _IEKRKKKKKKK_ 0 0 0 REV__nc|ENSG00000170085|Q8NDZ2-2|SIMC1 REV__nc|ENSG00000170085|Q8NDZ2-2|SIMC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 721.5567626953125 2 721.506295 1440.99804 NaN NaN NaN NaN NaN NaN NaN 92.707 1 92.793 92.293 93.293 0.086212 0 0 0 1.0072 1 48396 48396 1.3295 1.3295 1 + 10459 18038 6594 6611 12321 12321 0.2951778356109571 IEKRKRQRQKK 11 Unmodified _IEKRKRQRQKK_ 0 0 0 nc|ENSG00000022840|Q8N5U6-2|RNF10;ENSG00000022840|ENST00000325954|RNF10 nc|ENSG00000022840|Q8N5U6-2|RNF10 nc|ENSG00000022840|Q8N5U6-2|RNF10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 749.2725219726562 2 749.476057 1496.93756 NaN NaN NaN NaN NaN NaN NaN 98.562 1 99.161 98.661 99.661 0.59885 0 0 0 1.008 1 45455 45455 0.35063 0.35063 1 10460 465 6595 6612 12322 12322 0.2089706623071379 IEKRRQWNRWR 11 Unmodified _IEKRRQWNRWR_ 0 0 0 REV__ENST00000291074.9_2_17:505039-505090:-|nuORF REV__ENST00000291074.9_2_17:505039-505090:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 814.4561767578125 2 814.455656 1626.89676 NaN NaN NaN NaN NaN NaN NaN 98.58 1 99.179 98.679 99.679 0.59885 0 0 0 1.008 1 45468 45468 0.35063 0.35063 1 + 10461 15125 6596 6613 12323 12323 0.10838724911104691 IEKSRLLN 8 Unmodified _IEKSRLLN_ 0 0 0 REV__ENSG00000031081|ENST00000264245|ARHGAP31 REV__ENSG00000031081|ENST00000264245|ARHGAP31 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.7967529296875 2 486.795466 971.57638 3.1011 0.0015096 0.48923 0.00023816 3.5903 0.0017477 486.7956284963823 26.046 0.23777 26.81 26.692 26.93 0.76356 23 14 2 0 0 0 0.69597 1 11669 11669 8.5933 0 1 239540 + 10462 10290 6597 6614 12324 12324 0.08945449197199196 IEKVISVVLL 10 Unmodified _IEKVISVVLL_ 0 0 0 REV__ENSG00000091138|ENST00000340010|SLC26A3 REV__ENSG00000091138|ENST00000340010|SLC26A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 556.922119140625 2 556.8681 1111.72165 NaN NaN NaN NaN NaN NaN NaN 92.498 1 92.581 92.081 93.081 0.082848 0 0 0 1.0001 1 48227 48227 1.6526 0 1 + 10463 10728 6598 6615 12325 12325 0.1702549227354666 IEKYIHQKWED 11 Unmodified _IEKYIHQKWED_ 0 0 0 REV__ENSG00000156711|ENST00000211287|MAPK13 REV__ENSG00000156711|ENST00000211287|MAPK13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 744.877197265625 2 744.877716 1487.74088 NaN NaN NaN NaN NaN NaN NaN 103.26 1 103.26 102.76 103.76 0 0 0 0 1.008 1 56928 56928 0.35063 0 1 + 10464 12783 6599 6616 12326 12326 0.016517968264452065 IEKYRFKRKCF 11 Unmodified _IEKYRFKRKCF_ 0 0 0 REV__L1MEf_dup1694|chr2:208825398-208826842:+|2.073452806218134|0.1080183910784605|4.26|525.0|11|1|sense REV__L1MEf_dup1694|chr2:208825398-208826842:+|2.073452806218134|0.1080183910784605|4.26|525.0|11|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.8779296875 3 506.618501 1516.83367 NaN NaN NaN NaN NaN NaN NaN 90.067 1 90.067 89.567 90.567 0 0 0 0 1.0079 1 47228 47228 0.50596 0.051438 1 + 10465 17773 6600 6617 12327 12327 0.09593023078855367 IELFLTTIEL 10 Unmodified _IELFLTTIEL_ 0 0 0 REV__MER66B_dup114|chr2:10389000-10389478:+|1.966365985091881|0.037489665215567|5.71|501.0|8|2|sense REV__MER66B_dup114|chr2:10389000-10389478:+|1.966365985091881|0.037489665215567|5.71|501.0|8|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.5692443847656 3 397.900557 1190.67984 NaN NaN NaN NaN NaN NaN NaN 21.13 1 21.417 20.917 21.917 0.28662 0 0 0 0.61406 1 9580 9580 27.223 1.2025 1 + 10466 17834 6601 6618 12328 12328 0.09212891794345524 IELITLWPVPL 11 Unmodified _IELITLWPVPL_ 0 0 0 REV__ENST00000268251.12_1_16:8876558-8876786:+|nuORF REV__ENST00000268251.12_1_16:8876558-8876786:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 647.3927612304688 2 647.394482 1292.77441 NaN NaN NaN NaN NaN NaN NaN 97.182 1 97.253 96.753 97.753 0.070648 0 0 0 1.0038 1 51875 51875 5.7319 0.43497 1 + 10467 15048 6602 6619 12329 12329 0.1397345033633428 IEMRWVEEEVW 11 Unmodified _IEMRWVEEEVW_ 0 0 0 REV__nc|ENSG00000115107|Q658P3|STEAP3 REV__nc|ENSG00000115107|Q658P3|STEAP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.57611083984375 3 502.574627 1504.70205 NaN NaN NaN NaN NaN NaN NaN 93.229 1 93.229 92.729 93.729 0 0 0 0 1.0072 1 49756 49756 0.45452 0 1 + 10468 11343 6603 6620 12330 12330 -0.030112517995576127 IENDTYKYK 9 Unmodified _IENDTYKYK_ 0 0 0 ENSG00000116266|ENST00000370008|STXBP3 ENSG00000116266|ENST00000370008|STXBP3 ENSG00000116266|ENST00000370008|STXBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.2938232421875 2 587.292953 1172.57135 3.7921 0.0022271 0.95197 0.00055908 4.744 0.0027861 587.2928378872804 68.355 0.31705 68.608 68.424 68.741 0.25227 59 20 4 0 0 0 0.3144 1 31272 31272 15.847 1.0089 1 4422400 10469 2024 6604 6621 12331 12331 -0.008028994560845604 IEPPKREKKAN 11 Unmodified _IEPPKREKKAN_ 0 0 0 SMARCA5|p.R738K|1|0.21|ENSG00000153147|chr4:143544777-143544777|G/A|missense_variant SMARCA5|p.R738K|1|0.21|ENSG00000153147|chr4:143544777-143544777|G/A|missense_variant SMARCA5|p.R738K|1|0.21|ENSG00000153147|chr4:143544777-143544777|G/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2584228515625 3 437.257738 1308.75138 3.3761 0.0014762 -1.1458 -0.00050103 2.2302 0.00097519 437.25705831996004 91.88 1.3259 92.133 91.475 92.801 0.25253 128 64 3 0 0 0 0.91068 1 42259 42259 1.3296 0.82369 1 557110 10470 18260 6605 6622 12332 12332 0.10935824271564343 IEPPLLIMQ 9 Unmodified _IEPPLLIMQ_ 0 0 0 REV__ENSG00000105877|ENST00000409508|DNAH11 REV__ENSG00000105877|ENST00000409508|DNAH11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.30615234375 2 527.304278 1052.594 3.4891 0.0018398 1.1093 0.00058493 4.5984 0.0024248 527.3046399844162 95.181 0.45387 95.799 95.514 95.968 0.61737 63 22 4 0 0 0 0.98132 1 43777 43777 4.3292 4.3292 1 3530700 + 10471 11063 6606 6623 12333 12333 0.06981028407835765 IEQLRYCQH 9 Unmodified _IEQLRYCQH_ 0 0 0 nc|ENSG00000119004|Q6UW02-2|CYP20A1;ENSG00000119004|ENST00000356079|CYP20A1 nc|ENSG00000119004|Q6UW02-2|CYP20A1 nc|ENSG00000119004|Q6UW02-2|CYP20A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 595.2913818359375 2 595.292765 1188.57098 NaN NaN NaN NaN NaN NaN NaN 98.346 1 98.945 98.445 99.445 0.59885 0 0 0 0.8984 1 45333 45333 3.9444 0 1 10472 2131 6607 6624 12334 12334 -0.01576597656935519 IERKIKKKKV 10 Unmodified _IERKIKKKKV_ 0 0 0 REV__ENST00000460062.6_1_20:480238-524362:-|nuORF REV__ENST00000460062.6_1_20:480238-524362:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 635.551513671875 2 635.440089 1268.86563 NaN NaN NaN NaN NaN NaN NaN 99.287 1 99.587 99.087 100.09 0.29987 0 0 0 1.0001 1 45853 45853 1.6526 0 1 + 10473 10878 6608 6625 12335 12335 0.24194758824296514 IERKKKLKLEK 11 Unmodified _IERKKKLKLEK_ 0 0 0 ENSG00000083635|ENST00000379161|NUFIP1 ENSG00000083635|ENST00000379161|NUFIP1 ENSG00000083635|ENST00000379161|NUFIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 706.9702758789062 2 706.969211 1411.92387 NaN NaN NaN NaN NaN NaN NaN 92.163 1 92.245 91.745 92.745 0.082848 0 0 0 1.0072 1 47957 47957 1.3295 0.9789 1 10474 940 6609 6626 12336 12336 0.2343839567890882 IERKRLAV 8 Unmodified _IERKRLAV_ 0 0 0 nc|ENSG00000080802|O95628-5|CNOT4 nc|ENSG00000080802|O95628-5|CNOT4 nc|ENSG00000080802|O95628-5|CNOT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.8207702636719 2 492.819276 983.623999 3.1871 0.0015707 -0.0077529 -3.8208E-06 3.1794 0.0015668 492.81936233063414 20.33 0.28002 20.33 20.202 20.482 0 53 24 3 0 0 0 0.70799 1 9107 9107 5.2307 0 1 423220 10475 9564 6610 6627 12337 12337 0.13153148188030173 IERKRLAV 8 Unmodified _IERKRLAV_ 0 0 0 nc|ENSG00000080802|O95628-5|CNOT4 nc|ENSG00000080802|O95628-5|CNOT4 nc|ENSG00000080802|O95628-5|CNOT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.8202209472656 2 492.819276 983.623999 3.3529 0.0016524 -0.29274 -0.00014427 3.0602 0.0015081 492.81899297607424 19.361 0.33264 20.02 19.803 20.136 0.65829 52 23 3 0 0 0 0.66653 1 8757 8757 8.5933 0.68312 1 2270900 10476 9564 6610 6627 12338 12338 0.13153148188030173 IERLGIWLF 9 Unmodified _IERLGIWLF_ 0 0 0 ENST00000343455.7_1_14:95562307-95562397:-|nuORF ENST00000343455.7_1_14:95562307-95562397:-|nuORF ENST00000343455.7_1_14:95562307-95562397:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 382.8948669433594 3 382.893848 1145.65972 2.4129 0.00092389 -0.52342 -0.00020041 1.8895 0.00072348 382.89361729600233 41.266 0.27061 42.069 41.876 42.146 0.80351 37 18 3 0 0 0 0.68285 2 18732 18688;18732 9.544 1.0997 1 1275200 10477 7093 6611 6628 12339;12340 12340 0.09271185645025071 IERLGIWLF 9 Unmodified _IERLGIWLF_ 0 0 0 ENST00000343455.7_1_14:95562307-95562397:-|nuORF ENST00000343455.7_1_14:95562307-95562397:-|nuORF ENST00000343455.7_1_14:95562307-95562397:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 382.8946228027344 3 382.893848 1145.65972 2.4037 0.00092037 0.033049 1.2654E-05 2.4368 0.00093303 382.8938705834556 41.603 0.35227 42.407 42.393 42.746 0.80351 42 28 2 0 0 0 0.59776 2 18892 18892;18943 10.8 6.61 1 2316500 10478 7093 6611 6628 12341;12342 12341 0.09271185645025071 IERLRQKQL 9 Unmodified _IERLRQKQL_ 0 0 0 REV__ZNF277|p.C178Afs*13|1|0.16|ENSG00000198839|chr7:112318245-112318245|T/-|frameshift_variant REV__ZNF277|p.C178Afs*13|1|0.16|ENSG00000198839|chr7:112318245-112318245|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.248046875 3 395.247173 1182.71969 2.7472 0.0010858 -0.16079 -6.3552E-05 2.5864 0.0010223 395.2471477272661 15.527 0.89386 15.833 15.455 16.349 0.306 211 100 3 0 0 0 0.98132 1 7022 7022 2.4985 0 1 119180 + 10479 14366 6612 6629 12343 12343 0.13563876308285217 IERLRQKQL 9 Unmodified _IERLRQKQL_ 0 0 0 REV__ZNF277|p.C178Afs*13|1|0.16|ENSG00000198839|chr7:112318245-112318245|T/-|frameshift_variant REV__ZNF277|p.C178Afs*13|1|0.16|ENSG00000198839|chr7:112318245-112318245|T/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 395.247173 1182.71969 2.9347 0.00116 -0.0033322 -1.3171E-06 2.9314 0.0011586 395.2471456867671 15.469 0.025105 16.122 16.102 16.127 0.65356 0.14456 0.00014415 NaN 2.4985 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 33459 + 10480 14366 6612 6629 0.13563876308285217 IERNKRKRMRR 11 Unmodified _IERNKRKRMRR_ 0 0 0 REV__ENST00000449852.1_1_10:79687146-79689388:+|nuORF REV__ENST00000449852.1_1_10:79687146-79689388:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 772.3072509765625 2 771.965334 1541.91611 NaN NaN NaN NaN NaN NaN NaN 109.13 1 109.45 108.95 109.95 0.31168 0 0 0 1.0082 1 50315 50315 0 0 1 + 10481 16405 6613 6630 12344 12344 0.1668335793035567 IERRIMTGRWW 11 Unmodified _IERRIMTGRWW_ 0 0 0 REV__ENST00000485787.1_1_3:197616453-197639757:-|nuORF REV__ENST00000485787.1_1_3:197616453-197639757:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 752.7481079101562 2 752.403712 1502.79287 NaN NaN NaN NaN NaN NaN NaN 99.42 1 99.482 98.982 99.982 0.062241 0 0 0 1.008 1 53748 53748 0.35063 0 1 + 10482 11322 6614 6631 12345 12345 0.06158681759256979 IERRLFANCRK 11 Unmodified _IERRLFANCRK_ 0 0 0 ENST00000555015.5_2_14:35433166-35438427:-|nuORF ENST00000555015.5_2_14:35433166-35438427:-|nuORF ENST00000555015.5_2_14:35433166-35438427:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 702.923828125 2 703.395887 1404.77722 NaN NaN NaN NaN NaN NaN NaN 72.731 1 73.395 72.895 73.895 0.66398 0 0 0 1.0063 1 33386 33386 2.4985 1.0166 1 10483 8912 6615 6632 12346 12346 0.09102395242189232 IERRPKLQR 9 Unmodified _IERRPKLQR_ 0 0 0 nc|ENSG00000065243|Q16513-5|PKN2;nc|ENSG00000065243|Q16513-4|PKN2;nc|ENSG00000065243|Q16513-2|PKN2;ENSG00000065243|ENST00000370521|PKN2;nc|ENSG00000065243|Q16513-3|PKN2 nc|ENSG00000065243|Q16513-5|PKN2 nc|ENSG00000065243|Q16513-5|PKN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.25201416015625 3 399.250918 1194.73092 NaN NaN NaN NaN NaN NaN NaN 11.638 1 11.638 11.138 12.138 0 0 0 0 0.91342 1 5068 5068 0.26902 0 1 10484 684 6616 6633 12347 12347 0.14134698402403956 IERRPKLQR 9 Unmodified _IERRPKLQR_ 0 0 0 nc|ENSG00000065243|Q16513-5|PKN2;nc|ENSG00000065243|Q16513-4|PKN2;nc|ENSG00000065243|Q16513-2|PKN2;ENSG00000065243|ENST00000370521|PKN2;nc|ENSG00000065243|Q16513-3|PKN2 nc|ENSG00000065243|Q16513-5|PKN2 nc|ENSG00000065243|Q16513-5|PKN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.2515869140625 3 399.250918 1194.73092 NaN NaN NaN NaN NaN NaN NaN 15.784 1 16.09 15.59 16.59 0.306 0 0 0 0.91342 1 7140 7140 0.26902 0 1 10485 684 6616 6633 12348 12348 0.14134698402403956 IERRVYDISR 10 Unmodified _IERRVYDISR_ 0 0 0 ENSG00000221968|ENST00000278829|FADS3;ENST00000414624.6_1_11:61645294-61658904:-|nuORF;ENST00000529525.1_1_11:61657830-61658904:-|nuORF ENSG00000221968|ENST00000278829|FADS3 ENSG00000221968|ENST00000278829|FADS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 653.867431640625 2 653.864943 1305.71533 NaN NaN NaN NaN NaN NaN NaN 92.598 1 92.598 92.098 93.098 0 0 0 0 0.99774 1 49245 49245 3.5965 0.31518 1 10486 6155 6617 6634 12349 12349 0.07470367094697394 IESIGRFVH 9 Unmodified _IESIGRFVH_ 0 0 0 REV__ENSG00000182752|ENST00000328252|PAPPA REV__ENSG00000182752|ENST00000328252|PAPPA MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 353.45867919921875 3 353.197819 1056.57163 2.4219 0.00085541 -0.75811 -0.00026776 1.6638 0.00058765 353.1970474111671 61.184 0.65889 61.847 61.264 61.923 0.66261 45 30 2 0 0 0 0.11267 1 27865 27865 2.7352 0 1 1001700 + 10487 13903 6618 6635 12350 12350 0.04560565054430299 IESRLRQIMRN 11 Unmodified _IESRLRQIMRN_ 0 0 0 REV__CON__Q922U2 REV__CON__Q922U2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 708.1568603515625 2 708.398627 1414.7827 NaN NaN NaN NaN NaN NaN NaN 94.258 1 94.344 93.844 94.844 0.086212 0 0 0 1.0059 1 49541 49541 2.9952 0 1 + + 10488 10102 6619 6636 12351 12351 0.09190074033995188 IETAKVFVNNL 11 Unmodified _IETAKVFVNNL_ 0 0 0 nc|ENSG00000196932|Q6ZUK4-2|TMEM26;ENSG00000196932|ENST00000399298|TMEM26 nc|ENSG00000196932|Q6ZUK4-2|TMEM26 nc|ENSG00000196932|Q6ZUK4-2|TMEM26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 416.5707702636719 3 416.571322 1246.69214 2.326 0.00096896 -2.1245 -0.00088499 0.20156 8.3964E-05 416.57066811204925 12.921 0.19477 13.228 13.125 13.32 0.30727 12 6 3 0 0 0 0.61022 1 5838 5838 12.228 0 1 440280 10489 5786 6620 6637 12352 12352 0.07865928257388077 IETEKKKELLW 11 Unmodified _IETEKKKELLW_ 0 0 0 REV__nc|ENSG00000161973|Q96M95-2|CCDC42 REV__nc|ENSG00000161973|Q96M95-2|CCDC42 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 708.9097900390625 2 708.908485 1415.80242 NaN NaN NaN NaN NaN NaN NaN 92.444 1 92.444 91.944 92.944 0 0 0 0 1.0061 1 49122 49122 2.7352 0 1 + 10490 12923 6621 6638 12353 12353 0.11114728525740247 IETKERDKPRD 11 Unmodified _IETKERDKPRD_ 0 0 0 ENST00000419165.5_1_X:103173663-103173753:+|nuORF ENST00000419165.5_1_X:103173663-103173753:+|nuORF ENST00000419165.5_1_X:103173663-103173753:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 693.6768188476562 2 693.870422 1385.72629 NaN NaN NaN NaN NaN NaN NaN 107.13 1 107.13 106.63 107.63 0 0 0 0 1.0041 1 58783 58783 5.2969 0 1 10491 7738 6622 6639 12354 12354 0.048857246783200026 IETLQTLRLQR 11 Unmodified _IETLQTLRLQR_ 0 0 0 REV__nc|ENSG00000065361|P21860-3|ERBB3 REV__nc|ENSG00000065361|P21860-3|ERBB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.609619140625 3 457.608659 1369.80415 3.4933 0.0015986 -0.79044 -0.00036171 2.7029 0.0012369 457.60823584062376 95.514 1.4489 95.781 95.139 96.588 0.2675 193 82 3 0 0 0 0.91391 1 43815 43815 0.08335 0 1 1246800 + 10492 10430 6623 6640 12355 12355 0.1340378233435331 IETLQTLRLQR 11 Unmodified _IETLQTLRLQR_ 0 0 0 REV__nc|ENSG00000065361|P21860-3|ERBB3 REV__nc|ENSG00000065361|P21860-3|ERBB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.609619140625 3 457.608659 1369.80415 3.1411 0.0014374 -0.76643 -0.00035072 2.3746 0.0010866 457.60827451486574 94.97 0.94132 95.588 94.942 95.884 0.61737 128 52 4 0 0 0 0.91391 1 43688 43688 0.08335 0 1 1783600 + 10493 10430 6623 6640 12356 12356 0.1340378233435331 IEVKKRKSL 9 Unmodified _IEVKKRKSL_ 0 0 0 REV__ENST00000466734.5_1_3:106959817-106964926:+|nuORF REV__ENST00000466734.5_1_3:106959817-106964926:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 367.57745361328125 3 367.576519 1099.70773 NaN NaN NaN NaN NaN NaN NaN 13.531 1 13.531 13.031 14.031 0 0 0 0 0.068342 1 5924 5924 48.073 1.5975 1 + 10494 16547 6624 6641 12357 12357 0.16186259565097316 IEVKNERFFRF 11 Unmodified _IEVKNERFFRF_ 0 0 0 REV__nc|ENSG00000079263|Q13342-3|SP140 REV__nc|ENSG00000079263|Q13342-3|SP140 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 742.8514404296875 2 742.904068 1483.79358 NaN NaN NaN NaN NaN NaN NaN 95.84 1 95.916 95.416 96.416 0.076538 0 0 0 1.0061 1 50767 50767 2.7352 1.2533 1 + 10495 10577 6625 6642 12358 12358 0.07103799679907752 IEVLTADIVIN 11 Unmodified _IEVLTADIVIN_ 0 0 0 ENSG00000197442|ENST00000359015|MAP3K5 ENSG00000197442|ENST00000359015|MAP3K5 ENSG00000197442|ENST00000359015|MAP3K5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 400.568359375 3 400.567578 1198.6809 2.8231 0.0011309 -1.0415 -0.00041719 1.7817 0.00071367 400.56725682790784 26.721 0.34048 27.343 27.149 27.489 0.62179 47 24 3 0 0 0 0.46182 1 12280 12280 19.987 0 1 858040 10496 5818 6626 6643 12359 12359 0.08951106163249278 IEWIIILILHK 11 Unmodified _IEWIIILILHK_ 0 0 0 ENSG00000059588|ENST00000040877|TARBP1;ENST00000463793.1_1_1:234546169-234556549:-|nuORF ENSG00000059588|ENST00000040877|TARBP1 ENSG00000059588|ENST00000040877|TARBP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 348.4776916503906 4 348.475975 1389.87479 2.4996 0.00087105 1.1264 0.00039253 3.626 0.0012636 348.4762639265612 40.691 0.5377 40.691 40.341 40.879 0 52 28 3 0 0 0 0.13295 1 18367 18367 0.50596 0.50596 1 4283600 10497 636 6627 6644 12360 12360 0.19545107390013072 IEWIIILILHK 11 Unmodified _IEWIIILILHK_ 0 0 0 ENSG00000059588|ENST00000040877|TARBP1;ENST00000463793.1_1_1:234546169-234556549:-|nuORF ENSG00000059588|ENST00000040877|TARBP1 ENSG00000059588|ENST00000040877|TARBP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 348.475975 1389.87479 2.3371 0.00081441 1.0748 0.00037455 3.4119 0.001189 348.72703448254435 40.034 0.72789 40.834 40.198 40.926 0.80014 0.071533 -3.4763E-05 NaN 0.50596 98 40 3 NaN NaN NaN NaN 0 NaN NaN 0 1730900 10498 636 6627 6644 0.19545107390013072 IEWQEEEYKKD 11 Unmodified _IEWQEEEYKKD_ 0 0 0 REV__nc|ENSG00000132972|Q9BXT8-4|RNF17 REV__nc|ENSG00000132972|Q9BXT8-4|RNF17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 748.8488159179688 2 748.848821 1495.68309 NaN NaN NaN NaN NaN NaN NaN 93.992 1 94.078 93.578 94.578 0.086212 0 0 0 1.008 1 49357 49357 0.35063 0 1 + 10499 11917 6628 6645 12361 12361 -0.044925098896328564 IEWRFINEPFY 11 Unmodified _IEWRFINEPFY_ 0 0 0 REV__nc|ENSG00000163291|Q6TCH7-2|PAQR3 REV__nc|ENSG00000163291|Q6TCH7-2|PAQR3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 757.8296508789062 2 757.377352 1512.74015 2.4581 0.0018617 -3.8602 -0.0029236 -1.402 -0.0010619 757.8754703453266 97.668 0.040947 97.738 97.723 97.763 0.070656 7 5 2 0 0 0 0.13295 1 52291 52291 1.0715 0.72083 1 27648000 + 10500 18004 6629 6646 12362 12362 0.004290021774295383 IEWRKWKQQKK 11 Unmodified _IEWRKWKQQKK_ 0 0 0 ENSG00000198917|ENST00000361256|SPOUT1 ENSG00000198917|ENST00000361256|SPOUT1 ENSG00000198917|ENST00000361256|SPOUT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 779.4546508789062 2 779.454259 1556.89397 NaN NaN NaN NaN NaN NaN NaN 99.163 1 99.761 99.261 100.26 0.59748 0 0 0 1.0072 1 45828 45828 1.3295 0.13619 1 10501 5962 6630 6647 12363 12363 0.1377945673357317 IEWRWRRRRVP 11 Unmodified _IEWRWRRRRVP_ 0 0 0 ENST00000574710.1_1_17:4843168-4843264:-|nuORF ENST00000574710.1_1_17:4843168-4843264:-|nuORF ENST00000574710.1_1_17:4843168-4843264:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 805.4700317382812 2 805.468567 1608.92258 NaN NaN NaN NaN NaN NaN NaN 81.939 1 81.939 81.439 82.439 0 0 0 0 1.0082 1 40871 40871 0.35063 0.043601 1 10502 9113 6631 6648 12364 12364 0.1424761915336603 IEYHHQNFM 9 Unmodified _IEYHHQNFM_ 0 0 0 REV__ENST00000462445.1_1_10:70863984-70864131:+|nuORF REV__ENST00000462445.1_1_10:70863984-70864131:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.85235595703125 3 406.850202 1217.52878 NaN NaN NaN NaN NaN NaN NaN 43.206 1 43.855 43.355 44.355 0.64872 0 0 0 0.90611 1 19800 19800 1.0715 0 1 + 10503 16506 6632 6649 12365 12365 -0.07128573065324417 IEYIKSQPI 9 Unmodified _IEYIKSQPI_ 0 0 0 nc|ENSG00000130294|Q12756|KIF1A;ENSG00000130294|ENST00000498729|KIF1A;nc|ENSG00000130294|Q12756-2|KIF1A nc|ENSG00000130294|Q12756|KIF1A nc|ENSG00000130294|Q12756|KIF1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 364.2107238769531 3 364.209613 1089.60701 2.6328 0.00095888 0.3409 0.00012416 2.9737 0.001083 364.20978198321086 36.325 0.37001 36.325 36.143 36.513 0 37 15 3 0 0 0 0.1229 1 16468 16468 28.495 4.7047 1 2505900 10504 2582 6633 6650 12366 12366 0.0657918279155183 IEYIKSQPI 9 Unmodified _IEYIKSQPI_ 0 0 0 nc|ENSG00000130294|Q12756|KIF1A;ENSG00000130294|ENST00000498729|KIF1A;nc|ENSG00000130294|Q12756-2|KIF1A nc|ENSG00000130294|Q12756|KIF1A nc|ENSG00000130294|Q12756|KIF1A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 364.209613 1089.60701 2.483 0.00090435 0.30053 0.00010946 2.7836 0.0010138 364.2097433448026 35.383 0.2952 36.174 36.02 36.315 0.79131 -0.15292 -0.00020016 NaN 28.495 43 17 4 NaN NaN NaN NaN 0 NaN NaN 0 2036700 10505 2582 6633 6650 0.0657918279155183 IEYIKSQPI 9 Unmodified _IEYIKSQPI_ 0 0 0 nc|ENSG00000130294|Q12756|KIF1A;ENSG00000130294|ENST00000498729|KIF1A;nc|ENSG00000130294|Q12756-2|KIF1A nc|ENSG00000130294|Q12756|KIF1A nc|ENSG00000130294|Q12756|KIF1A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 364.209613 1089.60701 2.6552 0.00096704 0.76358 0.0002781 3.4188 0.0012451 364.2098648981578 35.683 0.49514 36.309 35.996 36.491 0.62631 -0.017705 0.00030578 NaN 28.495 33 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1934100 10506 2582 6633 6650 0.0657918279155183 IEYPTKKE 8 Unmodified _IEYPTKKE_ 0 0 0 nc|nan|Q8ND61-2|C3orf20;ENSG00000131379|ENST00000253697|C3orf20 nc|nan|Q8ND61-2|C3orf20 nc|nan|Q8ND61-2|C3orf20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.5195007324219 3 336.518447 1006.53351 2.5526 0.00085901 0.74066 0.00024924 3.2933 0.0011083 336.5187130943636 12.855 0.33504 13.498 13.311 13.646 0.64272 25 9 4 0 0 0 0.19187 1 5786 5786 36.506 0 1 7759500 10507 2656 6634 6651 12367 12367 0.03050634349096981 IEYYEYEWTYD 11 Unmodified _IEYYEYEWTYD_ 0 0 0 REV__ENSG00000135324|ENST00000257776|MRAP2 REV__ENSG00000135324|ENST00000257776|MRAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 787.3218994140625 2 787.322105 1572.62966 NaN NaN NaN NaN NaN NaN NaN 16.193 1 16.404 15.904 16.904 0.21108 0 0 0 1.0082 1 7149 7149 0 0 1 + 10508 12009 6635 6652 12368 12368 -0.13375307392129798 IFDEAEKL 8 Unmodified _IFDEAEKL_ 0 0 0 nc|ENSG00000186283|Q9H497-2|TOR3A;ENSG00000186283|ENST00000367627|TOR3A;ENST00000472001.1_1_1:179057051-179060848:+|nuORF;ENST00000495145.1_1_1:179054938-179057273:+|nuORF;nc|ENSG00000186283|Q9H497-3|TOR3A nc|ENSG00000186283|Q9H497-2|TOR3A nc|ENSG00000186283|Q9H497-2|TOR3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.75439453125 2 482.752933 963.491313 3.191 0.0015405 -0.63765 -0.00030783 2.5534 0.0012326 482.75270161874585 46.381 0.22045 46.647 46.535 46.756 0.26561 12 7 2 0 0 0 0.49519 1 21198 21198 21.537 4.4504 1 379980 10509 5562 6636 6653 12369 12369 0.008106589407248066 IFDEAEKL 8 Unmodified _IFDEAEKL_ 0 0 0 nc|ENSG00000186283|Q9H497-2|TOR3A;ENSG00000186283|ENST00000367627|TOR3A;ENST00000472001.1_1_1:179057051-179060848:+|nuORF;ENST00000495145.1_1_1:179054938-179057273:+|nuORF;nc|ENSG00000186283|Q9H497-3|TOR3A nc|ENSG00000186283|Q9H497-2|TOR3A nc|ENSG00000186283|Q9H497-2|TOR3A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.7548522949219 2 482.752933 963.491313 NaN NaN NaN NaN NaN NaN NaN 45.885 1 46.536 46.036 47.036 0.65104 0 0 0 0.76538 1 21021 21021 20.454 3.3671 1 10510 5562 6636 6653 12370 12370 0.008106589407248066 IFDEAEKL 8 Unmodified _IFDEAEKL_ 0 0 0 nc|ENSG00000186283|Q9H497-2|TOR3A;ENSG00000186283|ENST00000367627|TOR3A;ENST00000472001.1_1_1:179057051-179060848:+|nuORF;ENST00000495145.1_1_1:179054938-179057273:+|nuORF;nc|ENSG00000186283|Q9H497-3|TOR3A nc|ENSG00000186283|Q9H497-2|TOR3A nc|ENSG00000186283|Q9H497-2|TOR3A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 482.752933 963.491313 3.4499 0.0016654 0.38154 0.00018419 3.8314 0.0018496 482.75327330982975 45.822 0.23559 46.473 46.299 46.534 0.65104 -0.086857 0.00066497 NaN 21.537 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 193420 10511 5562 6636 6653 0.008106589407248066 IFDGNVAHI 9 Unmodified _IFDGNVAHI_ 0 0 0 ENSG00000152818|ENST00000367545|UTRN;nc|ENSG00000152818|P46939-2|UTRN;UTRN|p.K1847Ffs*66|1|0.06|ENSG00000152818|chr6:144516945-144516946|-/TTTAA|frameshift_variant ENSG00000152818|ENST00000367545|UTRN ENSG00000152818|ENST00000367545|UTRN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.25970458984375 2 493.258717 984.50288 3.1258 0.0015418 -0.57161 -0.00028195 2.5542 0.0012599 493.258642465758 50.282 0.18161 50.543 50.438 50.619 0.26146 7 5 2 0 0 0 0.09451 1 22984 22984 34.102 3.8776 1 635650 10512 3762 6637 6654 12371 12371 0.010009007547182591 IFDGNVAHI 9 Unmodified _IFDGNVAHI_ 0 0 0 ENSG00000152818|ENST00000367545|UTRN;nc|ENSG00000152818|P46939-2|UTRN;UTRN|p.K1847Ffs*66|1|0.06|ENSG00000152818|chr6:144516945-144516946|-/TTTAA|frameshift_variant ENSG00000152818|ENST00000367545|UTRN ENSG00000152818|ENST00000367545|UTRN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.2604064941406 2 493.258717 984.50288 3.2324 0.0015944 -0.29027 -0.00014318 2.9421 0.0014512 493.2586789171815 49.666 0.15141 50.323 50.222 50.373 0.65735 8 4 2 0 0 0 0.038142 2 22712 22690;22712 52.268 16.224 1 511580 10513 3762 6637 6654 12372;12373 12373 0.010009007547182591 IFDGNVAHI 9 Unmodified _IFDGNVAHI_ 0 0 0 ENSG00000152818|ENST00000367545|UTRN;nc|ENSG00000152818|P46939-2|UTRN;UTRN|p.K1847Ffs*66|1|0.06|ENSG00000152818|chr6:144516945-144516946|-/TTTAA|frameshift_variant ENSG00000152818|ENST00000367545|UTRN ENSG00000152818|ENST00000367545|UTRN MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 493.258717 984.50288 3.1236 0.0015408 1.1669 0.00057558 4.2905 0.0021163 493.2586508715886 50.481 0.13347 50.481 50.396 50.53 0 0.031949 0.0014189 NaN 52.268 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 192960 10514 3762 6637 6654 0.010009007547182591 IFDPDFNSVD 10 Unmodified _IFDPDFNSVD_ 0 0 0 REV__nc|ENSG00000027075|P24723-2|PRKCH REV__nc|ENSG00000027075|P24723-2|PRKCH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.968505859375 2 584.761486 1167.50842 NaN NaN NaN NaN NaN NaN NaN 44.618 1 45.439 44.939 45.939 0.82075 0 0 0 0.94357 1 20318 20318 14.405 2.1647 1 + 10515 10280 6638 6655 12374 12374 -0.06863465244146028 IFDQSGTYL 9 Unmodified _IFDQSGTYL_ 0 0 0 ENST00000539960.1_1_11:60665249-60666641:-|nuORF;ENSG00000110107|ENST00000227524|PRPF19 ENST00000539960.1_1_11:60665249-60666641:-|nuORF ENST00000539960.1_1_11:60665249-60666641:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.2581176757812 2 522.25584 1042.49713 3.2785 0.0017122 0.10428 5.4459E-05 3.3827 0.0017667 522.2558936927908 64.332 0.25357 64.58 64.41 64.663 0.24803 25 15 2 0 0 0 0.29781 1 29438 29438 16.942 6.7589 1 643180 10516 1701 6639 6656 12375 12375 -0.022422425476179342 IFDQSGTYL 9 Unmodified _IFDQSGTYL_ 0 0 0 ENST00000539960.1_1_11:60665249-60666641:-|nuORF;ENSG00000110107|ENST00000227524|PRPF19 ENST00000539960.1_1_11:60665249-60666641:-|nuORF ENST00000539960.1_1_11:60665249-60666641:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.2572021484375 2 522.25584 1042.49713 3.3596 0.0017546 0.06033 3.1508E-05 3.4199 0.0017861 522.2556895297588 63.808 0.24618 64.465 64.338 64.585 0.65672 25 15 2 0 0 0 0.079031 1 29235 29235 37.974 9.8008 1 824420 10517 1701 6639 6656 12376 12376 -0.022422425476179342 IFDSKVTEI 9 Unmodified _IFDSKVTEI_ 0 0 0 nc|ENSG00000114346|Q9H8V3-2|ECT2;nc|ENSG00000114346|Q9H8V3-4|ECT2;ENSG00000114346|ENST00000392692|ECT2;nc|ENSG00000114346|Q9H8V3-3|ECT2 nc|ENSG00000114346|Q9H8V3-2|ECT2 nc|ENSG00000114346|Q9H8V3-2|ECT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.2881469726562 2 526.28714 1050.55973 3.398 0.0017883 0.16131 8.4897E-05 3.5593 0.0018732 526.2872449662584 50.912 0.21238 50.912 50.795 51.007 0 16 8 3 0 0 0 0.022157 1 23311 23311 65.474 10.7 1 1085800 10518 1898 6640 6657 12377 12377 0.03646903520575506 IFDSKVTEI 9 Unmodified _IFDSKVTEI_ 0 0 0 nc|ENSG00000114346|Q9H8V3-2|ECT2;nc|ENSG00000114346|Q9H8V3-4|ECT2;ENSG00000114346|ENST00000392692|ECT2;nc|ENSG00000114346|Q9H8V3-3|ECT2 nc|ENSG00000114346|Q9H8V3-2|ECT2 nc|ENSG00000114346|Q9H8V3-2|ECT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.2891845703125 2 526.28714 1050.55973 3.3353 0.0017553 -0.51216 -0.00026954 2.8231 0.0014858 526.286637215991 50.035 0.31534 50.858 50.674 50.989 0.82285 21 12 3 0 0 0 0.025135 1 22782 22782 61.602 5.4249 1 688520 10519 1898 6640 6657 12378 12378 0.03646903520575506 IFDSKVTEI 9 Unmodified _IFDSKVTEI_ 0 0 0 nc|ENSG00000114346|Q9H8V3-2|ECT2;nc|ENSG00000114346|Q9H8V3-4|ECT2;ENSG00000114346|ENST00000392692|ECT2;nc|ENSG00000114346|Q9H8V3-3|ECT2 nc|ENSG00000114346|Q9H8V3-2|ECT2 nc|ENSG00000114346|Q9H8V3-2|ECT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.2886352539062 2 526.28714 1050.55973 3.2177 0.0016934 0.25201 0.00013263 3.4697 0.0018261 526.2871790869655 50.748 0.27079 51.01 50.879 51.15 0.26146 25 12 3 0 0 0 0.035495 1 23198 23198 53.404 3.471 1 750310 10520 1898 6640 6657 12379 12379 0.03646903520575506 IFDSTKKS 8 Unmodified _IFDSTKKS_ 0 0 0 REV__ENST00000259050.8_1_2:160625009-160625246:+|nuORF REV__ENST00000259050.8_1_2:160625009-160625246:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.2553405761719 2 463.2531 924.491647 3.0317 0.0014044 1.2554 0.00058159 4.2871 0.001986 463.25366800807154 93.893 0.31769 94.524 94.326 94.644 0.63115 28 15 2 0 0 0 0.7441 1 43230 43230 2.3027 0.4585 1 297920 + 10521 14950 6641 6658 12380 12380 0.026380786605727735 IFDSTKKS 8 Unmodified _IFDSTKKS_ 0 0 0 REV__ENST00000259050.8_1_2:160625009-160625246:+|nuORF REV__ENST00000259050.8_1_2:160625009-160625246:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 463.2531 924.491647 3.0317 0.0014044 1.2554 0.00058159 4.2871 0.001986 463.25366800807154 93.893 0.31769 94.524 94.326 94.644 0.63115 0.17198 -6.5246E-06 NaN 2.3027 28 15 2 NaN NaN NaN NaN 0 NaN NaN 0 297920 + 10522 14950 6641 6658 0.026380786605727735 IFEELLHIKAV 11 Unmodified _IFEELLHIKAV_ 0 0 0 ENST00000479866.5_1_12:48143124-48152369:-|nuORF;ENST00000482843.5_1_12:48142600-48152369:-|nuORF;nc|ENSG00000079337|O95398-2|RAPGEF3;nc|ENSG00000079337|O95398-3|RAPGEF3;ENSG00000079337|ENST00000449771|RAPGEF3 ENST00000479866.5_1_12:48143124-48152369:-|nuORF ENST00000479866.5_1_12:48143124-48152369:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.9286193847656 3 437.927218 1310.75982 2.9104 0.0012745 0.89231 0.00039077 3.8027 0.0016653 437.9274691272659 39.978 0.84368 40.245 39.451 40.295 0.26696 81 30 3 0 0 0 0.91068 1 17843 17843 0.45452 0 1 1004900 10523 893 6642 6659 12381 12381 0.11687378188184994 IFFENHPYF 9 Unmodified _IFFENHPYF_ 0 0 0 nc|ENSG00000157601|P20591-2|MX1;ENSG00000157601|ENST00000398598|MX1 nc|ENSG00000157601|P20591-2|MX1 nc|ENSG00000157601|P20591-2|MX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 607.2892456054688 2 607.287474 1212.5604 3.5641 0.0021644 -0.23592 -0.00014327 3.3281 0.0020211 607.7885886467737 70.1 0.23875 70.357 70.235 70.474 0.25641 35 15 3 0 0 0 0.015468 1 32117 32117 74.423 48.155 1 772640 10524 3957 6643 6660 12382 12382 -0.03738257039731252 IFFENHPYF 9 Unmodified _IFFENHPYF_ 0 0 0 nc|ENSG00000157601|P20591-2|MX1;ENSG00000157601|ENST00000398598|MX1 nc|ENSG00000157601|P20591-2|MX1 nc|ENSG00000157601|P20591-2|MX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 607.2916259765625 2 607.287474 1212.5604 3.3825 0.0020541 0.61016 0.00037054 3.9926 0.0024247 607.287811024557 69.593 0.24641 70.254 70.145 70.392 0.66072 41 18 3 0 0 0 0.015468 2 31903 31903;31951 74.423 45.341 1 738610 10525 3957 6643 6660 12383;12384 12383 -0.03738257039731252 IFFLMPKSLIT 11 Unmodified _IFFLMPKSLIT_ 0 0 0 REV__ENSG00000102802|ENST00000380482|MEDAG REV__ENSG00000102802|ENST00000380482|MEDAG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 655.386474609375 2 655.38306 1308.75157 4.1189 0.0026995 -0.79008 -0.0005178 3.3288 0.0021817 655.3822800861057 91.255 1.3304 91.917 91.214 92.545 0.66198 143 67 3 0 0 0 0.91328 1 41953 41953 0.35063 0.043601 1 1736400 + 10526 10942 6644 6661 12385 12385 0.10954107947213743 IFHIKLILH 9 Unmodified _IFHIKLILH_ 0 0 0 REV__HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|63|3|sense REV__HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|63|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 378.9134826660156 3 378.577972 1132.71209 2.3783 0.00090035 1.117 0.00042289 3.4953 0.0013232 378.5783236404979 44.708 0.48309 45.529 45.246 45.729 0.82075 54 23 4 0 0 0 1.2078 2 20339 20339;20390 0.26902 0 1 1952500 + 10527 17729 6645 6662 12386;12387 12386 0.15103768778658377 IFHIKLILH 9 Unmodified _IFHIKLILH_ 0 0 0 REV__HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|63|3|sense REV__HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|63|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.914306640625 3 378.577972 1132.71209 2.8607 0.001083 1.1215 0.00042458 3.9822 0.0015076 378.57833030460756 44.179 0.51241 44.829 44.662 45.174 0.64998 58 23 3 0 0 0 1.2078 2 20217 20217;20273 0.26902 0.033176 1 5171800 + 10528 17729 6645 6662 12388;12389 12388 0.15103768778658377 IFHIKLILH 9 Unmodified _IFHIKLILH_ 0 0 0 REV__HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|63|3|sense REV__HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|63|3|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 378.577972 1132.71209 2.6555 0.0010053 0.80189 0.00030358 3.4573 0.0013089 378.5781997573992 45.704 0.39724 45.704 45.468 45.865 0 0.19108 -0.00026936 NaN 0.26902 47 18 4 NaN NaN NaN NaN 0 NaN NaN 0 5604000 + 10529 17729 6645 6662 0.15103768778658377 IFHIKLILH 9 Unmodified _IFHIKLILH_ 0 0 0 REV__HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|63|3|sense REV__HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|63|3|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 378.577972 1132.71209 2.6376 0.00099853 1.1946 0.00045227 3.8322 0.0014508 378.5783445605115 45.038 0.35036 45.306 45.139 45.489 0.26768 -0.20717 0.00017671 NaN 0.26902 45 16 4 NaN NaN NaN NaN 0 NaN NaN 0 6436600 + 10530 17729 6645 6662 0.15103768778658377 IFHQQHRIL 9 Unmodified _IFHQQHRIL_ 0 0 0 REV__ENST00000296509.10_1_4:120986924-120987941:-|nuORF REV__ENST00000296509.10_1_4:120986924-120987941:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.8966064453125 3 397.896363 1190.66726 NaN NaN NaN NaN NaN NaN NaN 13.705 1 14.353 13.853 14.853 0.6482 0 0 0 0.8911 1 6158 6158 5.7319 0 1 + 10531 15157 6646 6663 12390 12390 0.07955337965336184 IFIDEIDSF 9 Unmodified _IFIDEIDSF_ 0 0 0 nc|ENSG00000138138|Q8NBU5-2|ATAD1;ENSG00000138138|ENST00000680024|ATAD1 nc|ENSG00000138138|Q8NBU5-2|ATAD1 nc|ENSG00000138138|Q8NBU5-2|ATAD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.7760009765625 2 549.771322 1097.52809 3.8374 0.0021097 -0.91036 -0.00050049 2.9271 0.0016092 549.7710591959117 88.509 0.22652 88.76 88.659 88.885 0.25118 16 10 2 0 0 0 0.29781 1 40729 40729 16.942 5.302 1 327150 10532 3076 6647 6664 12391 12391 -0.016770892333852316 IFIDPGYQTF 10 Unmodified _IFIDPGYQTF_ 0 0 0 ENSG00000121741|ENST00000610343|ZMYM2 ENSG00000121741|ENST00000610343|ZMYM2 ENSG00000121741|ENST00000610343|ZMYM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 600.8026123046875 2 600.800414 1199.58628 3.4865 0.0020947 0.32816 0.00019716 3.8146 0.0022918 600.8002456275918 79.762 0.27904 80.011 79.882 80.161 0.24947 37 17 3 0 0 0 0.059328 2 36713 36713;36773 60.074 35.083 1 582350 10533 2239 6648 6665 12392;12393 12392 -0.005534075881087119 IFIDPGYQTF 10 Unmodified _IFIDPGYQTF_ 0 0 0 ENSG00000121741|ENST00000610343|ZMYM2 ENSG00000121741|ENST00000610343|ZMYM2 ENSG00000121741|ENST00000610343|ZMYM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 600.802490234375 2 600.800414 1199.58628 3.9608 0.0023797 -0.80277 -0.0004823 3.1581 0.0018974 600.8000153044891 79.294 0.26176 79.955 79.801 80.062 0.66082 30 17 2 0 0 0 0.13545 1 36506 36506 47.749 31.902 1 717930 10534 2239 6648 6665 12394 12394 -0.005534075881087119 IFIDPGYQTF 10 Unmodified _IFIDPGYQTF_ 0 0 0 ENSG00000121741|ENST00000610343|ZMYM2 ENSG00000121741|ENST00000610343|ZMYM2 ENSG00000121741|ENST00000610343|ZMYM2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 600.800414 1199.58628 2.8255 0.0016975 0.25563 0.00015358 3.0811 0.0018511 600.8001316010478 79.329 0.11647 79.649 79.608 79.724 0.31998 -0.22283 0.00070079 NaN 60.074 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 1596400 10535 2239 6648 6665 -0.005534075881087119 IFIFIKFP 8 Unmodified _IFIFIKFP_ 0 0 0 REV__ENST00000429861.5_1_8:61471430-61504606:+|nuORF REV__ENST00000429861.5_1_8:61471430-61504606:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.8167724609375 2 512.815139 1023.61573 NaN NaN NaN NaN NaN NaN NaN 86.097 1 86.128 85.628 86.628 0.030289 0 0 0 0.99035 1 43235 43235 5.2307 0 1 + 10536 16244 6649 6666 12395 12395 0.10486201218714086 IFIHTFRQE 9 Unmodified _IFIHTFRQE_ 0 0 0 REV__MER9a3_dup534|chr19:38941327-38941835:-|1.258221801398089|0.0116449845799281|6.76|538.0|32|3|anti-sense REV__MER9a3_dup534|chr19:38941327-38941835:-|1.258221801398089|0.0116449845799281|6.76|538.0|32|3|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.55010986328125 3 397.548741 1189.62439 NaN NaN NaN NaN NaN NaN NaN 41.21 1 41.855 41.355 42.355 0.64451 0 0 0 0.68339 1 18850 18850 13.042 4.2971 1 + 10537 17836 6650 6667 12396 12396 0.03716523117259385 IFIQNSKLYF 10 Unmodified _IFIQNSKLYF_ 0 0 0 ENSG00000138459|ENST00000492406|SLC35A5 ENSG00000138459|ENST00000492406|SLC35A5 ENSG00000138459|ENST00000492406|SLC35A5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 636.856689453125 2 636.852981 1271.69141 3.8761 0.0024685 0.0050319 3.2046E-06 3.8811 0.0024717 636.8534610880598 69.577 0.15898 69.831 69.74 69.899 0.25443 14 9 2 0 0 0 0.16248 1 31869 31869 43.982 18.583 1 369360 10538 3094 6651 6668 12397 12397 0.06643133608326934 IFIRRKWHEER 11 Unmodified _IFIRRKWHEER_ 0 0 0 ENST00000473481.1_1_10:27066118-27112155:-|nuORF ENST00000473481.1_1_10:27066118-27112155:-|nuORF ENST00000473481.1_1_10:27066118-27112155:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 785.4426879882812 2 785.441683 1568.86881 NaN NaN NaN NaN NaN NaN NaN 79.087 1 79.551 79.051 80.051 0.4642 0 0 0 1.008 1 38586 38586 0.26902 0.26902 1 10539 8198 6652 6669 12398 12398 0.10713401931047883 IFKDWRKKWIE 11 Unmodified _IFKDWRKKWIE_ 0 0 0 REV__nc|ENSG00000093072|Q9NZK5-2|ADA2 REV__nc|ENSG00000093072|Q9NZK5-2|ADA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 775.1312255859375 2 774.937911 1547.86127 NaN NaN NaN NaN NaN NaN NaN 102.8 1 102.86 102.36 103.36 0.055092 0 0 0 1.0073 1 55790 55790 1.1933 0 1 + 10540 10751 6653 6670 12399 12399 0.10925249610750143 IFKKKKKKKKK 11 Unmodified _IFKKKKKKKKK_ 0 0 0 Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|33|3|sense Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|33|3|sense Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|33|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 716.6676635742188 2 716.516131 1431.01771 NaN NaN NaN NaN NaN NaN NaN 58.483 1 58.483 57.983 58.983 0 0 0 0 1.0082 1 26992 26992 0 0 1 10541 9369 6654 6671 12400 12400 0.3194415957182173 IFKKKKKKKKK 11 Unmodified _IFKKKKKKKKK_ 0 0 0 Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|33|3|sense Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|33|3|sense Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|33|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 716.6337280273438 2 716.516131 1431.01771 NaN NaN NaN NaN NaN NaN NaN 83.93 1 83.958 83.458 84.458 0.028603 0 0 0 1.008 1 41759 41759 0.35063 0 1 10542 9369 6654 6671 12401 12401 0.3194415957182173 IFKKLPQLRKI 11 Unmodified _IFKKLPQLRKI_ 0 0 0 nc|ENSG00000145147|O94813-3|SLIT2;nc|ENSG00000145147|O94813-2|SLIT2;ENSG00000145147|ENST00000504154|SLIT2 nc|ENSG00000145147|O94813-3|SLIT2 nc|ENSG00000145147|O94813-3|SLIT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 461.9775695800781 3 461.978135 1382.91258 NaN NaN NaN NaN NaN NaN NaN 85.975 1 86.005 85.505 86.505 0.030289 0 0 0 1.0073 1 43141 43141 0.40827 0.24894 1 10543 3457 6655 6672 12402 12402 0.23643618375422193 IFKPPDPDNTF 11 Unmodified _IFKPPDPDNTF_ 0 0 0 ENSG00000165943|ENST00000298894|MOAP1 ENSG00000165943|ENST00000298894|MOAP1 ENSG00000165943|ENST00000298894|MOAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.8239135742188 2 645.821878 1289.6292 3.3618 0.0021711 -0.098683 -6.3732E-05 3.2631 0.0021074 645.8217423884699 53.772 0.34046 54.575 54.485 54.825 0.80351 28 15 2 0 0 0 0.060703 2 24602 24535;24602 49.527 23.259 1 316820 10544 4436 6656 6673 12403;12404 12404 -0.004026375306921182 IFLKLFKLIR 10 Unmodified _IFLKLFKLIR_ 0 0 0 REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 431.2963562011719 3 430.960193 1289.85875 2.8147 0.001213 1.0677 0.00046015 3.8825 0.0016732 430.9605919224668 36.107 0.16784 36.107 35.999 36.167 0 18 10 2 0 0 0 0.94443 1 16380 16380 0 0 1 1190700 + 10545 13867 6657 6674 12405 12405 0.22541445943738836 IFLKLFKLIR 10 Unmodified _IFLKLFKLIR_ 0 0 0 REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 645.94287109375 2 645.936651 1289.85875 3.6393 0.0023507 1.9186 0.0012393 5.5579 0.00359 646.4388534653763 36.106 0.33062 36.106 36.052 36.383 0 18 15 2 0 0 0 0.94443 1 16486 16486 0 0 1 495420 + 10546 13867 6657 6674 12406 12406 0.22541445943738836 IFLKLFKLIR 10 Unmodified _IFLKLFKLIR_ 0 0 0 REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 430.9615173339844 3 430.960193 1289.85875 2.8662 0.0012352 1.1266 0.00048553 3.9928 0.0017207 430.9606529963664 36.583 0.24688 36.583 36.394 36.64 0 19 11 2 0 0 0 0.94443 1 16586 16586 0 0 1 903420 + 10547 13867 6657 6674 12407 12407 0.22541445943738836 IFLKLFKLIR 10 Unmodified _IFLKLFKLIR_ 0 0 0 REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 430.9620361328125 3 430.960193 1289.85875 2.8898 0.0012454 1.0387 0.00044765 3.9285 0.001693 430.96059053793834 36.77 0.29808 36.77 36.64 36.939 0 24 12 2 0 0 0 0.94443 1 16684 16684 0 0 1 1001900 + 10548 13867 6657 6674 12408 12408 0.22541445943738836 IFLKLFKLIR 10 Unmodified _IFLKLFKLIR_ 0 0 0 REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 645.9419555664062 2 645.936651 1289.85875 3.7409 0.0024164 1.6079 0.0010386 5.3488 0.003455 645.9379272606657 35.539 0.47522 35.794 35.713 36.189 0.25524 24 16 2 0 0 0 0.94443 1 16256 16256 0 0 1 299220 + 10549 13867 6657 6674 12409 12409 0.22541445943738836 IFLKLFKLIR 10 Unmodified _IFLKLFKLIR_ 0 0 0 REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.961669921875 3 430.960193 1289.85875 2.8733 0.0012383 0.82575 0.00035587 3.699 0.0015941 430.96036684071953 35.683 0.55804 35.939 35.683 36.241 0.25524 45 20 3 0 0 0 0.94374 1 16326 16326 0.13989 0.13989 1 947410 + 10550 13867 6657 6674 12410 12410 0.22541445943738836 IFLKLFKLIR 10 Unmodified _IFLKLFKLIR_ 0 0 0 REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 645.9404907226562 2 645.936651 1289.85875 3.7507 0.0024227 1.5569 0.0010056 5.3076 0.0034284 645.9374658315194 36.203 0.21794 36.46 36.33 36.548 0.25768 12 8 2 0 0 0 0.94443 1 16490 16490 0 0 1 335340 + 10551 13867 6657 6674 12411 12411 0.22541445943738836 IFLKLFKLIR 10 Unmodified _IFLKLFKLIR_ 0 0 0 REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.9617614746094 3 430.960193 1289.85875 2.8906 0.0012457 1.0783 0.0004647 3.9689 0.0017104 430.96062673142654 36.38 0.50783 36.637 36.318 36.826 0.25768 43 20 3 0 0 0 0.94374 2 16497 16497;16577 0.13989 0.13989 1 1239300 + 10552 13867 6657 6674 12412;12413 12412 0.22541445943738836 IFLKLFKLIR 10 Unmodified _IFLKLFKLIR_ 0 0 0 REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 645.9429931640625 2 645.936651 1289.85875 3.7409 0.0024164 1.6079 0.0010386 5.3488 0.003455 645.9379272606657 35.539 0.47522 35.794 35.713 36.189 0.25524 24 16 2 0 0 0 0.12676 1 16346 16346 0 0 1 299220 + 10553 13867 6657 6674 12414 12414 0.22541445943738836 IFLKLFKLIR 10 Unmodified _IFLKLFKLIR_ 0 0 0 REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 645.9398193359375 2 645.936651 1289.85875 3.7856 0.0024452 1.8426 0.0011902 5.6282 0.0036355 645.9376124182203 33.485 0.26296 34.105 33.932 34.195 0.62031 16 9 3 0 0 0 0.94443 1 15340 15340 0 0 1 991790 + 10554 13867 6657 6674 12415 12415 0.22541445943738836 IFLKLFKLIR 10 Unmodified _IFLKLFKLIR_ 0 0 0 REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF REV__ENST00000546531.5_1_12:49396684-49399341:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 430.960193 1289.85875 2.8733 0.0012383 0.82575 0.00035587 3.699 0.0015941 430.96036684071953 35.683 0.55804 35.939 35.683 36.241 0.25524 -0.083972 -0.0001592 NaN 0.13989 45 20 3 NaN NaN NaN NaN 0 NaN NaN 0 947410 + 10555 13867 6657 6674 0.22541445943738836 IFLWKLRPRPV 11 Unmodified _IFLWKLRPRPV_ 0 0 0 ENST00000585741.1_1_19:3573729-3573972:+|nuORF;ENST00000470356.3_1_19:3572947-3573972:+|nuORF;ENST00000488973.6_1_19:3572986-3573972:+|nuORF ENST00000585741.1_1_19:3573729-3573972:+|nuORF ENST00000585741.1_1_19:3573729-3573972:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 712.9502563476562 2 712.948082 1423.88161 NaN NaN NaN NaN NaN NaN NaN 81.064 1 81.233 80.733 81.733 0.16862 0 0 0 1.0071 1 39791 39791 1.4819 0.15237 1 10556 8173 6658 6675 12416 12416 0.1866246506117477 IFLYKLIALRL 11 Unmodified _IFLYKLIALRL_ 0 0 0 REV__nc|ENSG00000165181|Q5VXU9-3|SHOC1 REV__nc|ENSG00000165181|Q5VXU9-3|SHOC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 341.4788513183594 4 341.477246 1361.87988 2.4278 0.00082903 1.1862 0.00040505 3.6139 0.0012341 341.477737402701 40.397 0.62922 40.397 39.9 40.529 0 50 23 3 0 0 0 0.91459 1 18255 18255 0.094841 0 1 944600 + 10557 18022 6659 6676 12417 12417 0.21341411252569742 IFLYKLIALRL 11 Unmodified _IFLYKLIALRL_ 0 0 0 REV__nc|ENSG00000165181|Q5VXU9-3|SHOC1 REV__nc|ENSG00000165181|Q5VXU9-3|SHOC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 341.477246 1361.87988 2.3246 0.00079379 1.338 0.00045691 3.6626 0.0012507 341.4777957088625 39.687 0.28255 40.487 40.446 40.729 0.80014 -0.0056779 0.00025296 NaN 0.094841 22 13 2 NaN NaN NaN NaN 0 NaN NaN 0 354100 + 10558 18022 6659 6676 0.21341411252569742 IFLYKLIALRL 11 Unmodified _IFLYKLIALRL_ 0 0 0 REV__nc|ENSG00000165181|Q5VXU9-3|SHOC1 REV__nc|ENSG00000165181|Q5VXU9-3|SHOC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 341.477246 1361.87988 2.5951 0.00088617 1.2606 0.00043048 3.8558 0.0013167 341.72834983090496 40.186 0.34767 40.453 40.295 40.642 0.26696 -0.039771 0.00014726 NaN 0.094841 24 13 2 NaN NaN NaN NaN 0 NaN NaN 0 1087700 + 10559 18022 6659 6676 0.21341411252569742 IFLYKLIALRL 11 Unmodified _IFLYKLIALRL_ 0 0 0 REV__nc|ENSG00000165181|Q5VXU9-3|SHOC1 REV__nc|ENSG00000165181|Q5VXU9-3|SHOC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 341.477246 1361.87988 2.5852 0.0008828 0.93071 0.00031782 3.5159 0.0012006 341.4775337670825 39.993 0.53604 40.634 40.236 40.772 0.64135 0.14109 -0.00030339 NaN 0.094841 36 21 2 NaN NaN NaN NaN 0 NaN NaN 0 750030 + 10560 18022 6659 6676 0.21341411252569742 IFMYFFRY 8 Unmodified _IFMYFFRY_ 0 0 0 REV__ENSG00000175048|ENST00000359775|ZDHHC14 REV__ENSG00000175048|ENST00000359775|ZDHHC14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.5422973632812 2 593.791338 1185.56812 NaN NaN NaN NaN NaN NaN NaN 79.125 1 79.125 78.625 79.625 0 0 0 0 0.99035 1 39043 39043 2.8892 0.82947 1 + 10561 13655 6660 6677 12418 12418 -0.017238210437881207 IFNLYRFKRGK 11 Unmodified _IFNLYRFKRGK_ 0 0 0 ENST00000305949.5_1_8:121519055-121522193:+|nuORF ENST00000305949.5_1_8:121519055-121522193:+|nuORF ENST00000305949.5_1_8:121519055-121522193:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 721.4275512695312 2 721.424971 1440.83539 NaN NaN NaN NaN NaN NaN NaN 52.715 1 52.978 52.478 53.478 0.26345 0 0 0 1.008 1 24099 24099 0.30703 0.03801 1 10562 6836 6661 6678 12419 12419 0.13260400159083474 IFNPVSKNF 9 Unmodified _IFNPVSKNF_ 0 0 0 ENST00000589391.5_1_2:179401165-179403504:+|nuORF;ENST00000415561.1_1_2:179402212-179403504:+|nuORF;ENST00000588244.5_1_2:179402120-179403504:+|nuORF;ENST00000419746.5_1_2:179402219-179403504:+|nuORF;ENST00000589434.5_1_2:179388144-179403504:+|nuORF ENST00000589391.5_1_2:179401165-179403504:+|nuORF ENST00000589391.5_1_2:179401165-179403504:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.2941284179688 2 533.290017 1064.56548 NaN NaN NaN NaN NaN NaN NaN 51.812 1 52.623 52.123 53.123 0.81065 0 0 0 0.028243 1 23601 23601 60.074 23.608 1 10563 7703 6662 6679 12420 12420 0.03578046822894976 IFPGLSPVRIM 11 Unmodified _IFPGLSPVRIM_ 0 0 0 ENSG00000079691|ENST00000329474|CARMIL1;nc|ENSG00000079691|Q5VZK9-2|CARMIL1;nc|ENSG00000079691|Q5VZK9-3|CARMIL1 ENSG00000079691|ENST00000329474|CARMIL1 ENSG00000079691|ENST00000329474|CARMIL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 615.3609008789062 2 615.357376 1228.7002 NaN NaN NaN NaN NaN NaN NaN 65.867 1 66.524 66.024 67.024 0.65672 0 0 0 1.0073 1 30198 30198 1.1933 0.59184 1 10564 897 6663 6680 12421 12421 0.09499783973160447 IFPRLWRPIAG 11 Unmodified _IFPRLWRPIAG_ 0 0 0 REV__nc|ENSG00000186684|Q4G0S4-1|CYP27C1 REV__nc|ENSG00000186684|Q4G0S4-1|CYP27C1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 442.6007995605469 3 442.599547 1324.77681 2.7187 0.0012033 0.17627 7.8018E-05 2.895 0.0012813 442.5994608099235 46.363 1.3255 46.363 45.711 47.037 0 165 62 3 0 0 0 0.89309 1 21188 21188 2.4348 1.325 1 2490300 + 10565 14068 6664 6681 12422 12422 0.1274134358466199 IFQHLFTRLD 10 Unmodified _IFQHLFTRLD_ 0 0 0 ENST00000507925.1_1_4:25395483-25396777:+|nuORF ENST00000507925.1_1_4:25395483-25396777:+|nuORF ENST00000507925.1_1_4:25395483-25396777:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.5727233886719 3 430.571545 1288.69281 3.2044 0.0013797 -0.4616 -0.00019875 2.7428 0.001181 430.57122986429965 41.514 0.22034 42.158 42.075 42.295 0.64451 17 11 2 0 0 0 0.90778 1 19046 19046 3.3196 0.18568 1 1562000 10566 8526 6665 6682 12423 12423 0.06000767697082665 IFQKRHFIYRC 11 Unmodified _IFQKRHFIYRC_ 0 0 0 ENST00000272519.9_1_2:121052011-121052140:+|nuORF ENST00000272519.9_1_2:121052011-121052140:+|nuORF ENST00000272519.9_1_2:121052011-121052140:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 755.9108276367188 2 755.90863 1509.80271 NaN NaN NaN NaN NaN NaN NaN 83.477 1 84.139 83.639 84.639 0.66219 0 0 0 1.0079 1 38449 38449 1.1933 0.84271 1 10567 6656 6666 6683 12424 12424 0.06819869764626674 IFQVIHVAKL 10 Unmodified _IFQVIHVAKL_ 0 0 0 REV__ENSG00000145740|ENST00000396591|SLC30A5 REV__ENSG00000145740|ENST00000396591|SLC30A5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.91455078125 3 389.913131 1166.71756 2.89 0.0011269 1.1064 0.0004314 3.9964 0.0015583 389.91349240095167 36.3 0.59729 36.557 36.271 36.868 0.25768 56 25 3 0 0 0 0.93628 1 16647 16647 0.69767 0.07084 1 774750 + 10568 12455 6667 6684 12425 12425 0.1408744757045497 IFRRRWPRRFR 11 Unmodified _IFRRRWPRRFR_ 0 0 0 ENST00000575234.1_1_16:3355499-3356027:+|nuORF ENST00000575234.1_1_16:3355499-3356027:+|nuORF ENST00000575234.1_1_16:3355499-3356027:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.5012512207031 4 412.249826 1644.9702 2.1519 0.00088711 -0.41927 -0.00017285 1.7326 0.00071426 412.2496854140333 11.234 0.41143 11.541 11.231 11.643 0.30727 108 65 2 0 0 0 0.91489 4 5016 5016;5049;5059;5098 0 0 1 76940 10569 9117 6668 6685 12426;12427;12428;12429 12426 0.17351318144210381 IFRRRWPRRFR 11 Unmodified _IFRRRWPRRFR_ 0 0 0 ENST00000575234.1_1_16:3355499-3356027:+|nuORF ENST00000575234.1_1_16:3355499-3356027:+|nuORF ENST00000575234.1_1_16:3355499-3356027:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.501953125 4 412.249826 1644.9702 3.3604 0.0013853 -0.66739 -0.00027513 2.693 0.0011102 412.50023282678336 9.835 1.0266 10.464 9.7419 10.768 0.62936 273 79 5 0 0 0 0.91489 8 4197 4197;4247;4292;4343;4391;4441;4482;4528 0 0 1 511030 10570 9117 6668 6685 12430;12431;12432;12433;12434;12435;12436;12437 12430 0.17351318144210381 IFRRRWPRRFR 11 Unmodified _IFRRRWPRRFR_ 0 0 0 ENST00000575234.1_1_16:3355499-3356027:+|nuORF ENST00000575234.1_1_16:3355499-3356027:+|nuORF ENST00000575234.1_1_16:3355499-3356027:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.251220703125 4 412.249826 1644.9702 3.3592 0.0013848 -0.92311 -0.00038055 2.4361 0.0010043 412.2494901120207 10.867 0.63236 11.5 11.19 11.822 0.63304 125 61 3 0 0 0 0.91489 3 4860 4860;4909;4992 0 0 1 80754 10571 9117 6668 6685 12438;12439;12440 12438 0.17351318144210381 IFRRRWPRRFR 11 Unmodified _IFRRRWPRRFR_ 0 0 0 ENST00000575234.1_1_16:3355499-3356027:+|nuORF ENST00000575234.1_1_16:3355499-3356027:+|nuORF ENST00000575234.1_1_16:3355499-3356027:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 412.249826 1644.9702 2.1614 0.00089105 -0.7143 -0.00029447 1.4471 0.00059658 412.500195537958 10.952 0.048236 11.231 11.22 11.268 0.2792 -0.19324 -5.2289E-05 NaN 0 10 9 2 NaN NaN NaN NaN 0 NaN NaN 0 96536 10572 9117 6668 6685 0.17351318144210381 IFRTETFYN 9 Unmodified _IFRTETFYN_ 0 0 0 REV__ENST00000492157.5_1_9:79438526-79520879:-|nuORF REV__ENST00000492157.5_1_9:79438526-79520879:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 596.0797729492188 2 595.795663 1189.57677 2.6061 0.0015527 -1.1592 -0.00069063 1.4469 0.00086207 595.7959951441372 88.487 0.027565 88.539 88.516 88.544 0.052155 4 2 2 0 0 0 0.10586 1 45077 45077 7.9102 3.9658 1 8943800 + 10573 11096 6669 6686 12441 12441 -0.010431758736103802 IFSQALRQ 8 Unmodified _IFSQALRQ_ 0 0 0 HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|285|1|anti-sense;HERVK-int_dup102|chr7:4583489-4590929:-|1.365261944516419|0.4463608682754711|1.61|525.0|283|1|anti-sense HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|285|1|anti-sense HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|285|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.80682373046875 2 481.774534 961.534515 NaN NaN NaN NaN NaN NaN NaN 12.969 1 13.612 13.112 14.112 0.64272 0 0 0 0.99035 1 5821 5821 2.5775 0 1 10574 9409 6670 6687 12442 12442 0.05220893508658264 IFSTHYFQQ 9 Unmodified _IFSTHYFQQ_ 0 0 0 nc|ENSG00000081985|Q99665-2|IL12RB2;nc|ENSG00000081985|Q99665-3|IL12RB2;ENSG00000081985|ENST00000674203|IL12RB2 nc|ENSG00000081985|Q99665-2|IL12RB2 nc|ENSG00000081985|Q99665-2|IL12RB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.7808227539062 2 585.782556 1169.55056 NaN NaN NaN NaN NaN NaN NaN 108.39 1 108.99 108.49 109.49 0.6019 0 0 0 0.90699 1 50008 50008 1.8442 0.19162 1 10575 923 6671 6688 12443 12443 -0.027434450450982695 IFSYNVVFLF 10 Unmodified _IFSYNVVFLF_ 0 0 0 ENST00000471425.1_1_1:205561273-205566993:+|nuORF;ENST00000465651.1_1_1:205561255-205569586:+|nuORF;nc|ENSG00000174514|Q8N468-2|MFSD4A;ENSG00000174514|ENST00000367147|MFSD4A ENST00000471425.1_1_1:205561273-205566993:+|nuORF ENST00000471425.1_1_1:205561273-205566993:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 624.33935546875 2 624.8368 1247.65905 3.4509 0.0021563 -1.4968 -0.00093528 1.9541 0.001221 624.835851483648 103.46 0.053345 103.46 103.43 103.48 0 4 2 2 0 0 0 0.12676 1 57025 57025 1.6526 0.45928 1 438670 10576 4983 6672 6689 12444 12444 0.04512346205319773 IFTDLSSRF 9 Unmodified _IFTDLSSRF_ 0 0 0 XRCC5|p.F192Sfs*8|1|0.15|ENSG00000079246|chr2:216122143-216122167|CTTTCCACTAAAAGGAATTACCGAA/-|frameshift_variant;ENSG00000079246|ENST00000392132|XRCC5 XRCC5|p.F192Sfs*8|1|0.15|ENSG00000079246|chr2:216122143-216122167|CTTTCCACTAAAAGGAATTACCGAA/-|frameshift_variant XRCC5|p.F192Sfs*8|1|0.15|ENSG00000079246|chr2:216122143-216122167|CTTTCCACTAAAAGGAATTACCGAA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.2860717773438 2 543.284931 1084.55531 3.1988 0.0017379 -0.12893 -7.0046E-05 3.0699 0.0016678 543.2850553203517 61.249 0.27789 61.249 61.075 61.353 0 66 26 3 0 0 0 0.0012766 2 28561 28517;28561 122.18 27.833 1 5026000 10577 889 6673 6690 12445;12446 12446 0.016414390976706272 IFTDLSSRF 9 Unmodified _IFTDLSSRF_ 0 0 0 XRCC5|p.F192Sfs*8|1|0.15|ENSG00000079246|chr2:216122143-216122167|CTTTCCACTAAAAGGAATTACCGAA/-|frameshift_variant;ENSG00000079246|ENST00000392132|XRCC5 XRCC5|p.F192Sfs*8|1|0.15|ENSG00000079246|chr2:216122143-216122167|CTTTCCACTAAAAGGAATTACCGAA/-|frameshift_variant XRCC5|p.F192Sfs*8|1|0.15|ENSG00000079246|chr2:216122143-216122167|CTTTCCACTAAAAGGAATTACCGAA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.2845458984375 2 543.284931 1084.55531 3.411 0.0018531 -1.822 -0.00098987 1.589 0.00086327 543.2828584659701 61.195 0.31262 61.448 61.323 61.636 0.25245 38 15 3 0 0 0 0.011692 2 28053 28001;28053 79.596 17.024 1 1424600 10578 889 6673 6690 12447;12448 12448 0.016414390976706272 IFTDLSSRF 9 Unmodified _IFTDLSSRF_ 0 0 0 XRCC5|p.F192Sfs*8|1|0.15|ENSG00000079246|chr2:216122143-216122167|CTTTCCACTAAAAGGAATTACCGAA/-|frameshift_variant;ENSG00000079246|ENST00000392132|XRCC5 XRCC5|p.F192Sfs*8|1|0.15|ENSG00000079246|chr2:216122143-216122167|CTTTCCACTAAAAGGAATTACCGAA/-|frameshift_variant XRCC5|p.F192Sfs*8|1|0.15|ENSG00000079246|chr2:216122143-216122167|CTTTCCACTAAAAGGAATTACCGAA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.286865234375 2 543.284931 1084.55531 3.4483 0.0018734 -0.41736 -0.00022674 3.0309 0.0016466 543.2841915970763 60.632 0.2663 61.295 61.132 61.398 0.66261 34 13 3 0 0 0 0.018453 2 27789 27734;27789 70.332 7.7593 1 1878500 10579 889 6673 6690 12449;12450 12450 0.016414390976706272 IFTDLSSRF 9 Unmodified _IFTDLSSRF_ 0 0 0 XRCC5|p.F192Sfs*8|1|0.15|ENSG00000079246|chr2:216122143-216122167|CTTTCCACTAAAAGGAATTACCGAA/-|frameshift_variant;ENSG00000079246|ENST00000392132|XRCC5 XRCC5|p.F192Sfs*8|1|0.15|ENSG00000079246|chr2:216122143-216122167|CTTTCCACTAAAAGGAATTACCGAA/-|frameshift_variant XRCC5|p.F192Sfs*8|1|0.15|ENSG00000079246|chr2:216122143-216122167|CTTTCCACTAAAAGGAATTACCGAA/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 543.284931 1084.55531 2.7601 0.0014995 -0.6603 -0.00035873 2.0998 0.0011408 543.28502116444 60.301 0.12131 61.05 61.011 61.132 0.74927 -0.21031 9.3775E-07 NaN 122.18 18 13 2 NaN NaN NaN NaN 0 NaN NaN 0 5493300 10580 889 6673 6690 0.016414390976706272 IFTGRNAYF 9 Unmodified _IFTGRNAYF_ 0 0 0 ENST00000423113.5_1_10:33218934-33221518:-|nuORF ENST00000423113.5_1_10:33218934-33221518:-|nuORF ENST00000423113.5_1_10:33218934-33221518:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.7813720703125 2 544.779816 1087.54508 3.8311 0.0020871 -0.18283 -9.9602E-05 3.6482 0.0019875 544.7797420694668 51.099 0.28465 51.099 50.963 51.247 0 37 15 3 0 0 0 0.0023358 1 23395 23395 99.755 46.18 1 1939400 10581 7778 6674 6691 12451 12451 0.004808761630556546 IFTGRNAYF 9 Unmodified _IFTGRNAYF_ 0 0 0 ENST00000423113.5_1_10:33218934-33221518:-|nuORF ENST00000423113.5_1_10:33218934-33221518:-|nuORF ENST00000423113.5_1_10:33218934-33221518:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.78125 2 544.779816 1087.54508 3.2398 0.001765 0.33563 0.00018284 3.5755 0.0019478 544.7799255906218 50.134 0.34497 50.957 50.78 51.125 0.82285 37 16 3 0 0 0 0.0084842 1 22814 22814 92.653 39.078 1 1418400 10582 7778 6674 6691 12452 12452 0.004808761630556546 IGALFRLLII 10 Unmodified _IGALFRLLII_ 0 0 0 REV__ENST00000588465.5_1_19:10713206-10745972:+|nuORF REV__ENST00000588465.5_1_19:10713206-10745972:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.8794555664062 2 564.878802 1127.74305 NaN NaN NaN NaN NaN NaN NaN 97.445 1 97.516 97.016 98.016 0.070648 0 0 0 1.0015 1 52102 52102 0.45834 0 1 + 10583 11786 6675 6692 12453 12453 0.18428922092903122 IGAMLDERYRY 11 Unmodified _IGAMLDERYRY_ 0 0 0 REV__ENST00000575643.1_1_17:4700983-4701328:+|nuORF REV__ENST00000575643.1_1_17:4700983-4701328:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 693.8458862304688 2 693.845361 1385.67617 NaN NaN NaN NaN NaN NaN NaN 97.644 1 97.644 97.144 98.144 0 0 0 0 0.99968 1 53218 53218 6.7232 1.4263 1 + 10584 12327 6676 6693 12454 12454 -0.0012410125118549331 IGATVFKALEQ 11 Unmodified _IGATVFKALEQ_ 0 0 0 nc|ENSG00000082482|O95069-4|KCNK2;nc|ENSG00000082482|O95069-2|KCNK2;nc|ENSG00000082482|O95069-3|KCNK2;ENSG00000082482|ENST00000444842|KCNK2 nc|ENSG00000082482|O95069-4|KCNK2 nc|ENSG00000082482|O95069-4|KCNK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.8339233398438 2 588.834788 1175.65502 NaN NaN NaN NaN NaN NaN NaN 97.923 1 97.994 97.494 98.494 0.070648 0 0 0 0.89058 1 52499 52499 17.113 4.8722 1 10585 930 6677 6694 12455 12455 0.07422256711629416 IGDCLCCCCCF 11 Unmodified _IGDCLCCCCCF_ 0 0 0 REV__ENST00000538918.5_1_12:133707252-133707324:+|nuORF REV__ENST00000538918.5_1_12:133707252-133707324:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.68017578125 2 591.682587 1181.35062 NaN NaN NaN NaN NaN NaN NaN 95.41 1 95.492 94.992 95.992 0.082001 0 0 0 1.0071 1 50424 50424 1.4819 0.8804 1 + 10586 17195 6678 6695 12456 12456 -0.23280109958545836 IGEEYPFWW 9 Unmodified _IGEEYPFWW_ 0 0 0 REV__ENST00000379297.5_1_X:23723655-23723897:-|nuORF REV__ENST00000379297.5_1_X:23723655-23723897:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.7767333984375 2 613.779482 1225.54441 NaN NaN NaN NaN NaN NaN NaN 9.3929 1 9.3929 8.8929 9.8929 0 0 0 0 0.90611 1 4239 4239 2.0598 0.57785 1 + 10587 15864 6679 6696 12457 12457 -0.059339632766295836 IGEIRQYYQEQ 11 Unmodified _IGEIRQYYQEQ_ 0 0 0 ENSG00000155085|ENST00000424296|AK9 ENSG00000155085|ENST00000424296|AK9 ENSG00000155085|ENST00000424296|AK9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 713.8506469726562 2 713.851698 1425.68884 NaN NaN NaN NaN NaN NaN NaN 61.798 1 61.798 61.298 62.298 0 0 0 0 1.0059 1 28862 28862 2.9952 1.5133 1 10588 3849 6680 6697 12458 12458 -0.00697366587291981 IGENGGDA 8 Unmodified _IGENGGDA_ 0 0 0 ENSG00000110048|ENST00000263847|OSBP ENSG00000110048|ENST00000263847|OSBP ENSG00000110048|ENST00000263847|OSBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 732.0534057617188 1 732.315874 731.308597 3.207 0.0023485 -0.046466 -3.4028E-05 3.1605 0.0023145 732.3179178409849 83.783 0.041214 83.783 83.756 83.797 0 5 4 2 0 0 0 0.7471 1 42251 42251 0.79363 0 1 5344400 10589 1697 6681 6698 12459 12459 -0.06780475401239983 IGEVIIEYSK 10 Unmodified _IGEVIIEYSK_ 0 0 0 REV__ENSG00000204967|ENST00000530339|PCDHA4 REV__ENSG00000204967|ENST00000530339|PCDHA4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.4016723632812 2 575.821347 1149.62814 3.1108 0.0017912 -1.2515 -0.00072064 1.8593 0.0010706 575.821141565225 82.271 0.053787 82.271 82.227 82.281 0 8 6 2 0 0 0 0.12212 1 41131 41131 2.7352 1.4057 1 12413000 + 10590 14447 6682 6699 12460 12460 0.05931148100421524 IGEWEDTEEA 10 Unmodified _IGEWEDTEEA_ 0 0 0 REV__ENSG00000255833|ENST00000537858|TIFAB REV__ENSG00000255833|ENST00000537858|TIFAB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.9161376953125 2 589.746033 1177.47751 NaN NaN NaN NaN NaN NaN NaN 96.1 1 96.1 95.6 96.6 0 0 0 0 1.0001 1 51920 51920 1.6526 0 1 + 10591 14673 6683 6700 12461 12461 -0.10412663349029572 IGFDMSDRAK 10 Unmodified _IGFDMSDRAK_ 0 0 0 REV__ENSG00000145428|ENST00000347063|RNF175 REV__ENSG00000145428|ENST00000347063|RNF175 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.2794189453125 2 570.279323 1138.54409 NaN NaN NaN NaN NaN NaN NaN 89.713 1 89.713 89.213 90.213 0 0 0 0 0.99225 1 46937 46937 6.7232 0 1 + 10592 12440 6684 6701 12462 12462 -0.019637062681340467 IGFYQHGKGLV 11 Unmodified _IGFYQHGKGLV_ 0 0 0 REV__ENSG00000030066|ENST00000378460|NUP160 REV__ENSG00000030066|ENST00000378460|NUP160 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 609.8352661132812 2 609.835123 1217.65569 NaN NaN NaN NaN NaN NaN NaN 85.148 1 85.176 84.676 85.676 0.028603 0 0 0 1.0038 1 42586 42586 5.7319 0.83484 1 + 10593 10287 6685 6702 12463 12463 0.055570961513240036 IGGRKSRVRNR 11 Unmodified _IGGRKSRVRNR_ 0 0 0 ENST00000308527.5_1_15:75940258-75940573:+|nuORF ENST00000308527.5_1_15:75940258-75940573:+|nuORF ENST00000308527.5_1_15:75940258-75940573:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 649.9866943359375 2 649.897443 1297.78033 4.144 0.0026932 1.0867 0.00070622 5.2307 0.0033994 650.3995086276308 98.422 0.14295 99.021 98.944 99.087 0.59885 18 11 2 0 0 0 0.9102 1 45343 45343 1.4819 0 1 2350900 10594 6854 6686 6703 12464 12464 0.14335406411214535 IGGVRARLRRK 11 Unmodified _IGGVRARLRRK_ 0 0 0 REV__ENST00000527464.5_1_11:47270203-47282963:+|nuORF REV__ENST00000527464.5_1_11:47270203-47282963:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.5101928710938 2 641.420554 1280.82655 NaN NaN NaN NaN NaN NaN NaN 64.941 1 64.941 64.441 65.441 0 0 0 0 1.0057 1 30859 30859 3.2813 0.28607 1 + 10595 17106 6687 6704 12465 12465 0.19737471313283095 IGHKEKCEFY 10 Unmodified _IGHKEKCEFY_ 0 0 0 REV__ENSG00000135837|ENST00000367607|CEP350 REV__ENSG00000135837|ENST00000367607|CEP350 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 627.62939453125 2 627.302798 1252.59104 2.4545 0.0015397 3.1098 0.0019508 5.5643 0.0034905 627.8046177672749 91.274 0.12385 91.349 91.284 91.408 0.075272 23 15 2 0 0 0 0.12676 1 47232 47232 4.3292 0.38484 1 11006000 + 10596 12040 6688 6705 12466 12466 -0.025148467169856303 IGHRAKFRWLW 11 Unmodified _IGHRAKFRWLW_ 0 0 0 REV__nc|ENSG00000234616|O75564|JRK REV__nc|ENSG00000234616|O75564|JRK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 735.1353759765625 2 735.41748 1468.82041 NaN NaN NaN NaN NaN NaN NaN 88.267 1 88.267 87.767 88.767 0 0 0 0 1.0071 1 45768 45768 1.4819 0.15237 1 + 10597 14587 6689 6706 12467 12467 0.10474953081779859 IGIEMIKKRLI 11 Unmodified _IGIEMIKKRLI_ 0 0 0 REV__ENST00000370382.7_2_1:92546128-92605069:+|nuORF REV__ENST00000370382.7_2_1:92546128-92605069:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 657.2810668945312 2 657.420508 1312.82646 NaN NaN NaN NaN NaN NaN NaN 103.16 1 103.16 102.66 103.66 0 0 0 0 1.0072 1 56884 56884 1.3295 0.92882 1 + 10598 15723 6690 6707 12468 12468 0.1825629047843904 IGIIFIQKIF 10 Unmodified _IGIIFIQKIF_ 0 0 0 ENST00000344756.8_1_7:155100385-155100712:+|nuORF ENST00000344756.8_1_7:155100385-155100712:+|nuORF ENST00000344756.8_1_7:155100385-155100712:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.3801879882812 2 596.378635 1190.74272 NaN NaN NaN NaN NaN NaN NaN 42.188 1 42.188 41.688 42.688 0 0 0 0 0.99983 1 19197 19197 1.8442 0.19162 1 10599 7104 6691 6708 12469 12469 0.15497502373000316 IGILVLNLVFF 11 Unmodified _IGILVLNLVFF_ 0 0 0 REV__ENSG00000205495|ENST00000380370|OR52J3 REV__ENSG00000205495|ENST00000380370|OR52J3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 624.4852905273438 2 624.391742 1246.76893 NaN NaN NaN NaN NaN NaN NaN 99.856 1 100.16 99.664 100.66 0.30835 0 0 0 1.0034 1 46162 46162 6.2058 0 1 + 10600 14463 6692 6709 12470 12470 0.15541771544485528 IGKFSNWTN 9 Unmodified _IGKFSNWTN_ 0 0 0 ENSG00000170549|ENST00000302006|IRX1 ENSG00000170549|ENST00000302006|IRX1 ENSG00000170549|ENST00000302006|IRX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.77099609375 2 533.769448 1065.52434 3.116 0.0016632 0.74428 0.00039727 3.8603 0.0020605 533.7696094318397 46.212 0.38303 46.478 46.345 46.728 0.26561 37 16 3 0 0 0 0.47677 1 21173 21173 13.042 13.042 1 880080 10601 4756 6693 6710 12471 12471 -0.005797142165647529 IGKIKKKTK 9 Unmodified _IGKIKKKTK_ 0 0 0 REV__nc|ENSG00000113580|P04150-16|NR3C1 REV__nc|ENSG00000113580|P04150-16|NR3C1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.3666381835938 2 522.368601 1042.72265 NaN NaN NaN NaN NaN NaN NaN 90.303 1 90.367 89.867 90.867 0.064346 0 0 0 0.91206 1 46502 46502 0.6015 0.076735 1 + 10602 11302 6694 6711 12472 12472 0.20299751433049096 IGKKALKKRLL 11 Unmodified _IGKKALKKRLL_ 0 0 0 REV__ENST00000477693.1_1_2:122488402-122494426:-|nuORF REV__ENST00000477693.1_1_2:122488402-122494426:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 634.48046875 2 634.450457 1266.88636 NaN NaN NaN NaN NaN NaN NaN 90.767 1 90.842 90.342 91.342 0.075279 0 0 0 1.008 1 46854 46854 0.35063 0.043601 1 + 10603 12739 6695 6712 12473 12473 0.2635934920397176 IGKKKYMRL 9 Unmodified _IGKKKYMRL_ 0 0 0 REV__ENSG00000188895|ENST00000398532|MSL1 REV__ENSG00000188895|ENST00000398532|MSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.8516845703125 2 568.852261 1135.68997 NaN NaN NaN NaN NaN NaN NaN 41.229 1 42.032 41.532 42.532 0.80351 0 0 0 0.90511 1 18704 18704 2.3027 0 1 + 10604 14163 6696 6713 12474 12474 0.12755221038560194 IGKKLIKKVKV 11 Unmodified _IGKKLIKKVKV_ 0 0 0 REV__ENSG00000121101|ENST00000349033|TEX14 REV__ENSG00000121101|ENST00000349033|TEX14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 627.7994384765625 2 627.455208 1252.89586 NaN NaN NaN NaN NaN NaN NaN 107.53 1 108.14 107.64 108.64 0.6019 0 0 0 1.0082 1 49630 49630 0 0 1 + 10605 11550 6697 6714 12475 12475 0.27953117489460055 IGKLKAKIISK 11 Unmodified _IGKLKAKIISK_ 0 0 0 ENST00000551270.1_1_12:104283206-104309165:-|nuORF;nc|ENSG00000214198|Q6P2S7-2|TTC41P;nc|ENSG00000214198|Q6P2S7|TTC41P ENST00000551270.1_1_12:104283206-104309165:-|nuORF ENST00000551270.1_1_12:104283206-104309165:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 599.7354736328125 2 599.915916 1197.81728 4.5539 0.002732 3.7637 0.0022579 8.3176 0.0049899 600.4199586652828 98.635 0.067932 98.935 98.887 98.955 0.29987 5 4 2 0 0 0 0.13295 1 45447 45447 2.9952 0 1 1062800 10606 8877 6698 6715 12476 12476 0.22628265184403062 IGKLKKLSILK 11 Unmodified _IGKLKKLSILK_ 0 0 0 ENST00000487251.5_1_6:53762124-53769284:+|nuORF;ENSG00000137269|ENST00000370888|LRRC1 ENST00000487251.5_1_6:53762124-53769284:+|nuORF ENST00000487251.5_1_6:53762124-53769284:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.889892578125 2 620.939391 1239.86423 NaN NaN NaN NaN NaN NaN NaN 89.37 1 89.434 88.934 89.934 0.064346 0 0 0 1.008 1 45791 45791 0.35063 0 1 10607 3008 6699 6716 12477 12477 0.25389124735534097 IGKLRKMKS 9 Unmodified _IGKLRKMKS_ 0 0 0 REV__ENST00000493579.1_1_3:180041073-180041484:+|nuORF REV__ENST00000493579.1_1_3:180041073-180041484:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.8375244140625 2 530.836611 1059.65867 2.6199 0.0013907 -3.9426 -0.0020929 -1.3227 -0.00070211 530.8346225302124 85.55 0.03627 85.55 85.527 85.563 0 5 4 2 0 0 0 0.83994 1 43590 43590 6.7232 1.4263 1 8259600 + 10608 16817 6700 6717 12478 12478 0.1312264800446883 IGKLRKMKS 9 Unmodified _IGKLRKMKS_ 0 0 0 REV__ENST00000493579.1_1_3:180041073-180041484:+|nuORF REV__ENST00000493579.1_1_3:180041073-180041484:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.8372192382812 2 530.836611 1059.65867 NaN NaN NaN NaN NaN NaN NaN 90.28 1 90.28 89.78 90.78 0 0 0 0 0.87786 1 47400 47400 6.7232 1.9672 1 + 10609 16817 6700 6717 12479 12479 0.1312264800446883 IGKLRKMKS 9 Unmodified _IGKLRKMKS_ 0 0 0 REV__ENST00000493579.1_1_3:180041073-180041484:+|nuORF REV__ENST00000493579.1_1_3:180041073-180041484:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.834716796875 2 530.836611 1059.65867 NaN NaN NaN NaN NaN NaN NaN 87.105 1 87.145 86.645 87.645 0.039955 0 0 0 0.75166 1 44007 44007 10.824 3.5347 1 + 10610 16817 6700 6717 12480 12480 0.1312264800446883 IGKLRKMKS 9 Unmodified _IGKLRKMKS_ 0 0 0 REV__ENST00000493579.1_1_3:180041073-180041484:+|nuORF REV__ENST00000493579.1_1_3:180041073-180041484:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.8381958007812 2 530.836611 1059.65867 NaN NaN NaN NaN NaN NaN NaN 89.005 1 89.057 88.557 89.557 0.052155 0 0 0 0.87786 1 45506 45506 6.7232 2.3939 1 + 10611 16817 6700 6717 12481 12481 0.1312264800446883 IGKLRKMKS 9 Unmodified _IGKLRKMKS_ 0 0 0 REV__ENST00000493579.1_1_3:180041073-180041484:+|nuORF REV__ENST00000493579.1_1_3:180041073-180041484:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.8451538085938 2 530.836611 1059.65867 NaN NaN NaN NaN NaN NaN NaN 96.273 1 96.349 95.849 96.849 0.076538 0 0 0 0.89683 1 51111 51111 4.3292 0 1 + 10612 16817 6700 6717 12482 12482 0.1312264800446883 IGKLRKMKS 9 Unmodified _IGKLRKMKS_ 0 0 0 REV__ENST00000493579.1_1_3:180041073-180041484:+|nuORF REV__ENST00000493579.1_1_3:180041073-180041484:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 530.836611 1059.65867 2.6199 0.0013907 -3.9426 -0.0020929 -1.3227 -0.00070211 530.8346225302124 85.55 0.03627 85.55 85.527 85.563 0 -0.084929 -0.0016215 NaN 6.7232 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 8259600 + 10613 16817 6700 6717 0.1312264800446883 IGKLRKMKS 9 Unmodified _IGKLRKMKS_ 0 0 0 REV__ENST00000493579.1_1_3:180041073-180041484:+|nuORF REV__ENST00000493579.1_1_3:180041073-180041484:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 530.836611 1059.65867 2.2617 0.0012006 -0.49611 -0.00026335 1.7656 0.00093722 530.8364368048663 85.691 0.0448 85.72 85.687 85.732 0.028603 0.084929 0.0020375 NaN 6.7232 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 7165800 + 10614 16817 6700 6717 0.1312264800446883 IGKMRYVSV 9 Unmodified _IGKMRYVSV_ 0 0 0 ENST00000502453.1_1_5:32599051-32601187:+|nuORF;ENSG00000113387|ENST00000265073|SUB1 ENST00000502453.1_1_5:32599051-32601187:+|nuORF ENST00000502453.1_1_5:32599051-32601187:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.5358581542969 3 351.535555 1051.58484 2.474 0.00086971 -0.58371 -0.00020519 1.8903 0.00066452 351.5354220667349 30.667 0.27883 31.456 31.299 31.578 0.78879 45 21 3 0 0 0 0.27615 1 13860 13860 18.373 8.2992 1 909570 10615 1851 6701 6718 12483 12483 0.06110679842140598 IGKMRYVSV 9 Unmodified _IGKMRYVSV_ 0 0 0 ENST00000502453.1_1_5:32599051-32601187:+|nuORF;ENSG00000113387|ENST00000265073|SUB1 ENST00000502453.1_1_5:32599051-32601187:+|nuORF ENST00000502453.1_1_5:32599051-32601187:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.870849609375 3 351.535555 1051.58484 3.0372 0.0010677 -0.19145 -6.7303E-05 2.8457 0.0010004 351.5355719923167 31.422 0.36105 31.679 31.53 31.891 0.25614 84 25 5 0 0 0 0.63753 1 14274 14274 10.151 0.076642 1 2545600 10616 1851 6701 6718 12484 12484 0.06110679842140598 IGKMRYVSV 9 Unmodified _IGKMRYVSV_ 0 0 0 ENST00000502453.1_1_5:32599051-32601187:+|nuORF;ENSG00000113387|ENST00000265073|SUB1 ENST00000502453.1_1_5:32599051-32601187:+|nuORF ENST00000502453.1_1_5:32599051-32601187:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.53662109375 3 351.535555 1051.58484 2.4588 0.00086435 0.22627 7.9543E-05 2.6851 0.00094389 351.5357081060696 30.951 0.33668 31.569 31.391 31.728 0.61737 63 21 4 0 0 0 0.30351 2 14168 14168;14215 16.566 1.3752 1 2823700 10617 1851 6701 6718 12485;12486 12485 0.06110679842140598 IGKMRYVSV 9 Unmodified _IGKMRYVSV_ 0 0 0 ENST00000502453.1_1_5:32599051-32601187:+|nuORF;ENSG00000113387|ENST00000265073|SUB1 ENST00000502453.1_1_5:32599051-32601187:+|nuORF ENST00000502453.1_1_5:32599051-32601187:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.8018798828125 2 526.799694 1051.58484 3.2942 0.0017354 0.22179 0.00011684 3.516 0.0018522 526.7999607227027 30.945 0.25595 31.562 31.435 31.691 0.61736 39 15 3 0 0 0 0.039961 1 14217 14217 55.503 26.421 1 994580 10618 1851 6701 6718 12487 12487 0.06110679842140598 IGKMRYVSV 9 Unmodified _IGKMRYVSV_ 0 0 0 ENST00000502453.1_1_5:32599051-32601187:+|nuORF;ENSG00000113387|ENST00000265073|SUB1 ENST00000502453.1_1_5:32599051-32601187:+|nuORF ENST00000502453.1_1_5:32599051-32601187:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 526.799694 1051.58484 3.3099 0.0017437 0.90985 0.00047931 4.2198 0.002223 526.8000616299416 31.563 0.19314 31.563 31.484 31.677 0 -0.0083304 0.00065544 NaN 55.503 31 20 2 NaN NaN NaN NaN 0 NaN NaN 0 326760 10619 1851 6701 6718 0.06110679842140598 IGKMRYVSV 9 Unmodified _IGKMRYVSV_ 0 0 0 ENST00000502453.1_1_5:32599051-32601187:+|nuORF;ENSG00000113387|ENST00000265073|SUB1 ENST00000502453.1_1_5:32599051-32601187:+|nuORF ENST00000502453.1_1_5:32599051-32601187:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 526.799694 1051.58484 3.3374 0.0017582 0.39465 0.0002079 3.7321 0.0019661 526.7998925251752 30.665 0.20145 31.453 31.343 31.545 0.78879 -0.11766 0.00011263 NaN 55.503 23 15 2 NaN NaN NaN NaN 0 NaN NaN 0 292730 10620 1851 6701 6718 0.06110679842140598 IGKMRYVSV 9 Unmodified _IGKMRYVSV_ 0 0 0 ENST00000502453.1_1_5:32599051-32601187:+|nuORF;ENSG00000113387|ENST00000265073|SUB1 ENST00000502453.1_1_5:32599051-32601187:+|nuORF ENST00000502453.1_1_5:32599051-32601187:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 526.799694 1051.58484 3.7967 0.0020001 0.015883 8.367E-06 3.8126 0.0020085 526.799766246913 31.45 0.28509 31.706 31.543 31.828 0.25614 0.13508 -0.00028644 NaN 55.503 44 18 3 NaN NaN NaN NaN 0 NaN NaN 0 884940 10621 1851 6701 6718 0.06110679842140598 IGKPRKFSK 9 Unmodified _IGKPRKFSK_ 0 0 0 nc|ENSG00000075651|Q13393-4|PLD1;nc|ENSG00000075651|Q13393-2|PLD1;ENSG00000075651|ENST00000351298|PLD1 nc|ENSG00000075651|Q13393-4|PLD1 nc|ENSG00000075651|Q13393-4|PLD1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.8374633789062 2 530.834926 1059.6553 2.6291 0.0013956 0.32935 0.00017483 2.9584 0.0015704 530.8358662151132 86.518 0.05751 86.518 86.474 86.532 0 9 7 2 0 0 0 0.089124 1 44372 44372 3.9444 2.2918 1 15256000 10622 834 6702 6719 12488 12488 0.12785721222144275 IGKQKNNKRRV 11 Unmodified _IGKQKNNKRRV_ 0 0 0 REV__L1P2_dup354|chr3:177908608-177914071:+|1.579459827711941|0.1324791782257567|3.58|528.0|9|1|sense REV__L1P2_dup354|chr3:177908608-177914071:+|1.579459827711941|0.1324791782257567|3.58|528.0|9|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 671.1531372070312 2 670.915301 1339.81605 NaN NaN NaN NaN NaN NaN NaN 85.402 1 85.431 84.931 85.931 0.028603 0 0 0 1.0057 1 42743 42743 3.2813 1.2216 1 + 10623 17779 6703 6720 12489 12489 0.15973443868188042 IGKRRFRVLH 10 Unmodified _IGKRRFRVLH_ 0 0 0 ENST00000481285.5_1_X:118146936-118151650:+|nuORF;nc|ENSG00000175556|Q496Y0-2|LONRF3;ENSG00000175556|ENST00000371628|LONRF3 ENST00000481285.5_1_X:118146936-118151650:+|nuORF ENST00000481285.5_1_X:118146936-118151650:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.5722045898438 2 641.404373 1280.79419 NaN NaN NaN NaN NaN NaN NaN 91.953 1 92.036 91.536 92.536 0.082848 0 0 0 0.99733 1 47792 47792 3.9444 0.3479 1 10624 5035 6704 6721 12490 12490 0.16502683910312044 IGKVLVCRAKL 11 Unmodified _IGKVLVCRAKL_ 0 0 0 nc|ENSG00000162692|P19320-2|VCAM1;nc|ENSG00000162692|P19320-3|VCAM1;ENSG00000162692|ENST00000294728|VCAM1;chr1:100724890-100732418|492|13.31|0.53|4.66|+|ENST00000370115|VCAM1,VCAM1 nc|ENSG00000162692|P19320-2|VCAM1 nc|ENSG00000162692|P19320-2|VCAM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 600.3848876953125 2 600.386468 1198.75838 NaN NaN NaN NaN NaN NaN NaN 43.134 1 43.134 42.634 43.634 0 0 0 0 1.0072 1 19644 19644 1.3295 0 1 10625 4158 6705 6722 12491 12491 0.1669546561840889 IGKVYKKL 8 Unmodified _IGKVYKKL_ 0 0 0 ENST00000533415.5_1_17:45198303-45266605:-|nuORF;ENSG00000004897|ENST00000066544|CDC27;nc|ENSG00000004897|P30260-2|CDC27 ENST00000533415.5_1_17:45198303-45266605:-|nuORF ENST00000533415.5_1_17:45198303-45266605:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 316.88006591796875 3 316.879539 947.616788 1.6346 0.00051796 0.36248 0.00011486 1.997 0.00063282 316.8796071572582 12.801 0.16325 13.108 12.996 13.159 0.30727 8 4 3 0 0 0 0.71911 1 5787 5787 4.3292 0.38484 1 409190 10626 318 6706 6723 12492 12492 0.1408841558760514 IGKVYKKL 8 Unmodified _IGKVYKKL_ 0 0 0 ENST00000533415.5_1_17:45198303-45266605:-|nuORF;ENSG00000004897|ENST00000066544|CDC27;nc|ENSG00000004897|P30260-2|CDC27 ENST00000533415.5_1_17:45198303-45266605:-|nuORF ENST00000533415.5_1_17:45198303-45266605:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 316.879539 947.616788 2.4208 0.00076711 0.35167 0.00011144 2.7725 0.00087855 316.87938149584124 12.685 0.10089 13.328 13.244 13.345 0.64272 0.10981 -9.311E-06 NaN 4.3292 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 290150 10627 318 6706 6723 0.1408841558760514 IGLDRYLLTLH 11 Unmodified _IGLDRYLLTLH_ 0 0 0 ENSG00000214943|ENST00000399285|GPR33 ENSG00000214943|ENST00000399285|GPR33 ENSG00000214943|ENST00000399285|GPR33 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 657.3294677734375 2 657.382437 1312.75032 NaN NaN NaN NaN NaN NaN NaN 60.047 1 60.047 59.547 60.547 0 0 0 0 1.0041 1 27822 27822 5.2969 1.3525 1 10628 6124 6707 6724 12493 12493 0.10645609902644537 IGLFWHPGAR 10 Unmodified _IGLFWHPGAR_ 0 0 0 REV__ENST00000355557.6_1_12:133657304-133657412:+|nuORF REV__ENST00000355557.6_1_12:133657304-133657412:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.3193359375 2 577.3169 1152.61925 NaN NaN NaN NaN NaN NaN NaN 94.406 1 94.493 93.993 94.993 0.086212 0 0 0 0.98473 1 49661 49661 7.9102 0.62092 1 + 10629 15541 6708 6725 12494 12494 0.049042640452626074 IGLGLLYLIF 10 Unmodified _IGLGLLYLIF_ 0 0 0 ENST00000463427.5_1_2:112843607-112863481:+|nuORF;nc|ENSG00000153214|Q96K49-2|TMEM87B;ENSG00000153214|ENST00000283206|TMEM87B ENST00000463427.5_1_2:112843607-112863481:+|nuORF ENST00000463427.5_1_2:112843607-112863481:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.35302734375 2 561.352086 1120.68962 NaN NaN NaN NaN NaN NaN NaN 101.62 1 102.22 101.72 102.72 0.59717 0 0 0 0.99687 1 47049 47049 4.3292 2.0265 1 10630 3779 6709 6726 12495 12495 0.13410124590359374 IGLILKKLLH 10 Unmodified _IGLILKKLLH_ 0 0 0 nc|ENSG00000174373|Q6GYQ0-4|RALGAPA1;nc|ENSG00000174373|Q6GYQ0|RALGAPA1;nc|ENSG00000174373|Q6GYQ0-7|RALGAPA1;nc|ENSG00000174373|Q6GYQ0-5|RALGAPA1;nc|ENSG00000174373|Q6GYQ0-6|RALGAPA1;nc|ENSG00000174373|Q6GYQ0-2|RALGAPA1;RALGAPA1|p.E1734Rfs*4|1|0.27|ENSG00000174373|chr14:35627229-35627230|-/T|frameshift_variant;ENSG00000174373|ENST00000680220|RALGAPA1;RALGAPA1|p.T754Lfs*33|1|0.29|ENSG00000174373|chr14:35721694-35721694|T/-|frameshift_variant;nc|ENSG00000174373|Q6GYQ0-3|RALGAPA1 nc|ENSG00000174373|Q6GYQ0-4|RALGAPA1 nc|ENSG00000174373|Q6GYQ0-4|RALGAPA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.403564453125 2 574.399902 1146.78525 3.1712 0.0018215 4.2218 0.002425 7.393 0.0042465 574.4031764237556 93.156 0.040306 93.156 93.125 93.166 0 5 4 2 0 0 0 0.94217 1 49695 49695 0.45834 0.057624 1 9260800 10631 4973 6710 6727 12496 12496 0.21772897501273292 IGLILKKLLH 10 Unmodified _IGLILKKLLH_ 0 0 0 nc|ENSG00000174373|Q6GYQ0-4|RALGAPA1;nc|ENSG00000174373|Q6GYQ0|RALGAPA1;nc|ENSG00000174373|Q6GYQ0-7|RALGAPA1;nc|ENSG00000174373|Q6GYQ0-5|RALGAPA1;nc|ENSG00000174373|Q6GYQ0-6|RALGAPA1;nc|ENSG00000174373|Q6GYQ0-2|RALGAPA1;RALGAPA1|p.E1734Rfs*4|1|0.27|ENSG00000174373|chr14:35627229-35627230|-/T|frameshift_variant;ENSG00000174373|ENST00000680220|RALGAPA1;RALGAPA1|p.T754Lfs*33|1|0.29|ENSG00000174373|chr14:35721694-35721694|T/-|frameshift_variant;nc|ENSG00000174373|Q6GYQ0-3|RALGAPA1 nc|ENSG00000174373|Q6GYQ0-4|RALGAPA1 nc|ENSG00000174373|Q6GYQ0-4|RALGAPA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.3640747070312 2 574.399902 1146.78525 NaN NaN NaN NaN NaN NaN NaN 87.494 1 87.494 86.994 87.994 0 0 0 0 1.0015 1 45136 45136 0.45834 0.057624 1 10632 4973 6710 6727 12497 12497 0.21772897501273292 IGLIRNLAL 9 Unmodified _IGLIRNLAL_ 0 0 0 ENSG00000173801|ENST00000393931|JUP;ENST00000585793.1_1_17:39914605-39919321:-|nuORF ENSG00000173801|ENST00000393931|JUP ENSG00000173801|ENST00000393931|JUP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.8256530761719 2 491.824027 981.633501 3.3102 0.0016281 -0.12133 -5.9674E-05 3.1889 0.0015684 491.8238962152579 69.466 0.26141 69.72 69.588 69.85 0.25443 29 17 2 0 0 0 0.038142 2 31824 31784;31824 52.268 18.166 1 618650 10633 4952 6711 6728 12498;12499 12499 0.14194916473547892 IGLIRNLAL 9 Unmodified _IGLIRNLAL_ 0 0 0 ENSG00000173801|ENST00000393931|JUP;ENST00000585793.1_1_17:39914605-39919321:-|nuORF ENSG00000173801|ENST00000393931|JUP ENSG00000173801|ENST00000393931|JUP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.8247985839844 2 491.824027 981.633501 2.9905 0.0014708 0.13531 6.6549E-05 3.1258 0.0015374 491.82414229235485 68.88 0.20351 69.539 69.397 69.6 0.65924 24 14 2 0 0 0 0.10837 1 31546 31546 30.637 10.183 1 490720 10634 4952 6711 6728 12500 12500 0.14194916473547892 IGLLFMFKYFL 11 Unmodified _IGLLFMFKYFL_ 0 0 0 REV__ENST00000588286.1_1_19:36032580-36032856:-|nuORF REV__ENST00000588286.1_1_19:36032580-36032856:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 696.3914794921875 2 696.393428 1390.7723 NaN NaN NaN NaN NaN NaN NaN 88.49 1 88.542 88.042 89.042 0.052155 0 0 0 1.0055 1 45083 45083 3.5965 0.8613 1 + 10635 17559 6712 6729 12501 12501 0.09254698326867583 IGLVEDMEYC 10 Unmodified _IGLVEDMEYC_ 0 0 0 ENST00000529227.5_1_11:8705003-8705144:+|nuORF ENST00000529227.5_1_11:8705003-8705144:+|nuORF ENST00000529227.5_1_11:8705003-8705144:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.2140502929688 2 586.254125 1170.4937 NaN NaN NaN NaN NaN NaN NaN 91.853 1 91.853 91.353 92.353 0 0 0 0 0.99687 1 48646 48646 4.3292 0 1 10636 8696 6713 6730 12502 12502 -0.08472996708132996 IGLYKRKKKKK 11 Unmodified _IGLYKRKKKKK_ 0 0 0 REV__L1PB1_dup5905|chr7:93807211-93809400:+|3.627191007074611|0.2056128638309657|4.14|521.0|33|2|sense REV__L1PB1_dup5905|chr7:93807211-93809400:+|3.627191007074611|0.2056128638309657|4.14|521.0|33|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 695.5159912109375 2 695.474463 1388.93437 NaN NaN NaN NaN NaN NaN NaN 108.91 1 108.96 108.46 109.46 0.04248 0 0 0 1.008 1 58778 58778 0.35063 0.35063 1 + 10637 17806 6714 6731 12503 12503 0.25546423124001194 IGMKRQSL 8 Unmodified _IGMKRQSL_ 0 0 0 REV__ENST00000602629.1_1_2:171225816-171400468:+|nuORF REV__ENST00000602629.1_1_2:171225816-171400468:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.7724914550781 2 466.770937 931.527321 2.529 0.0011805 0.32408 0.00015127 2.8531 0.0013317 466.77118238763677 14.461 0.2129 14.768 14.654 14.867 0.3069 24 9 3 0 0 0 0.65723 1 6577 6577 9.3474 0 1 3295900 + 10638 17645 6715 6732 12504 12504 0.058818376365934455 IGPGLPKNSRP 11 Unmodified _IGPGLPKNSRP_ 0 0 0 ENSG00000157483|ENST00000288235|MYO1E ENSG00000157483|ENST00000288235|MYO1E ENSG00000157483|ENST00000288235|MYO1E MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 378.9092102050781 3 379.224257 1134.65094 2.559 0.00097044 0.34529 0.00013094 2.9043 0.0011014 379.2242950106684 14.638 0.29342 14.945 14.779 15.072 0.3069 50 22 3 0 0 0 0.13295 1 6567 6567 7.4771 3.2876 1 457060 10639 3952 6716 6733 12505 12505 0.08900212008552444 IGQKARHRRLR 11 Unmodified _IGQKARHRRLR_ 0 0 0 REV__nc|ENSG00000092929|Q70J99-3|UNC13D REV__nc|ENSG00000092929|Q70J99-3|UNC13D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 695.9363403320312 2 695.93436 1389.85417 NaN NaN NaN NaN NaN NaN NaN 89.296 1 89.296 88.796 89.796 0 0 0 0 1.0071 1 46595 46595 1.4819 0 1 + 10640 17876 6717 6734 12506 12506 0.17483374573544097 IGRARRRRLW 10 Unmodified _IGRARRRRLW_ 0 0 0 REV__ENST00000508453.1_1_4:108852799-108857674:+|nuORF REV__ENST00000508453.1_1_4:108852799-108857674:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 670.74951171875 2 670.418346 1338.82214 NaN NaN NaN NaN NaN NaN NaN 98.813 1 99.112 98.612 99.612 0.29987 0 0 0 0.99954 1 45561 45561 4.3292 2.6766 1 + 10641 12731 6718 6735 12507 12507 0.1662800689039159 IGRFIAMALF 10 Unmodified _IGRFIAMALF_ 0 0 0 nc|ENSG00000289720|Q96J02-3|ITCH;ENSG00000078747|ENST00000374864|ITCH;nc|ENSG00000289720|Q96J02|ITCH;ENST00000466609.1_1_3:98378565-98379411:+|nuORF;ENST00000518683.5_1_8:87410815-87460532:+|nuORF;nc|ENSG00000123124|Q9H0M0-6|WWP1;nc|ENSG00000123124|Q9H0M0-3|WWP1;ENSG00000123124|ENST00000517970|WWP1 nc|ENSG00000289720|Q96J02-3|ITCH nc|ENSG00000289720|Q96J02-3|ITCH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.22015380859375 3 380.219567 1137.63687 2.6448 0.0010056 -0.70557 -0.00026827 1.9392 0.00073733 380.21912724744294 61.319 0.13317 61.982 61.956 62.09 0.66261 12 8 2 0 0 0 0.84709 1 28104 28104 3.3196 0.58445 1 1025400 10642 884 6719 6736 12508 12508 0.07355843255891159 IGRKVVRPR 9 Unmodified _IGRKVVRPR_ 0 0 0 REV__nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP REV__nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.0834350585938 2 540.859267 1079.70398 NaN NaN NaN NaN NaN NaN NaN 93.584 1 93.584 93.084 94.084 0 0 0 0 0.90511 1 49987 49987 2.3027 0.24298 1 + 10643 11118 6720 6737 12509 12509 0.16731634581879007 IGRLKAEI 8 Unmodified _IGRLKAEI_ 0 0 0 ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.288330078125 2 450.287277 898.560001 2.9695 0.0013371 0.61579 0.00027728 3.5852 0.0016144 450.2874235136966 26.738 0.13953 27.36 27.29 27.429 0.62179 13 9 2 0 0 0 0.58952 1 12260 12260 14.838 3.198 1 244830 10644 557 6721 6738 12510 12510 0.10666368031081674 IGRLRTWP 8 Unmodified _IGRLRTWP_ 0 0 0 REV__ENST00000560723.5_1_15:81616080-81616440:-|nuORF REV__ENST00000560723.5_1_15:81616080-81616440:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 333.8824157714844 3 333.534654 997.582134 2.5234 0.00084165 0.38741 0.00012922 2.9108 0.00097087 333.53482376512636 12.86 0.16698 13.503 13.413 13.58 0.64272 9 4 3 0 0 0 0.14063 1 5753 5753 3.9444 0 1 212770 + 10645 17367 6722 6739 12511 12511 0.08324592499491246 IGRYRYESKRR 11 Unmodified _IGRYRYESKRR_ 0 0 0 REV__ENST00000368170.7_1_1:158259701-158259827:+|nuORF REV__ENST00000368170.7_1_1:158259701-158259827:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 742.4558715820312 2 742.415666 1482.81678 NaN NaN NaN NaN NaN NaN NaN 96.261 1 96.338 95.838 96.838 0.076538 0 0 0 1.0057 1 51102 51102 3.2813 1.9518 1 + 10646 15677 6723 6740 12512 12512 0.0946823851722911 IGVRKPKVKIH 11 Unmodified _IGVRKPKVKIH_ 0 0 0 REV__ENSG00000204599|ENST00000396551|TRIM39 REV__ENSG00000204599|ENST00000396551|TRIM39 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 638.1724243164062 2 637.924606 1273.83466 NaN NaN NaN NaN NaN NaN NaN 65.273 1 65.273 64.773 65.773 0 0 0 0 1.0061 1 31072 31072 2.7352 0 1 + 10647 14427 6724 6741 12513 12513 0.20869605510074507 IGVTLRKPRG 10 Unmodified _IGVTLRKPRG_ 0 0 0 nc|ENSG00000125520|Q9NR83-4|SLC2A4RG;ENST00000493772.5_1_20:62372637-62374340:+|nuORF;nc|ENSG00000125520|Q9NR83-3|SLC2A4RG;ENSG00000125520|ENST00000266077|SLC2A4RG nc|ENSG00000125520|Q9NR83-4|SLC2A4RG nc|ENSG00000125520|Q9NR83-4|SLC2A4RG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.85009765625 2 548.851107 1095.68766 NaN NaN NaN NaN NaN NaN NaN 84.603 1 84.631 84.131 85.131 0.028603 0 0 0 0.98866 1 42239 42239 7.2892 0 1 10648 2403 6725 6742 12514 12514 0.14364508625112649 IGVVHLVLRRL 11 Unmodified _IGVVHLVLRRL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 637.9241333007812 2 637.924606 1273.83466 NaN NaN NaN NaN NaN NaN NaN 51.948 1 51.948 51.448 52.448 0 0 0 0 1.008 1 23786 23786 0.35063 0 1 10649 4953 6726 6743 12515 12515 0.20869605510074507 IGVYPRYLQVF 11 Unmodified _IGVYPRYLQVF_ 0 0 0 REV__ENST00000580151.5_1_17:73282751-73284642:-|nuORF REV__ENST00000580151.5_1_17:73282751-73284642:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.8818969726562 2 677.87953 1353.74451 NaN NaN NaN NaN NaN NaN NaN 37.845 1 38.64 38.14 39.14 0.79552 0 0 0 1.0071 1 17146 17146 1.4819 1.0236 1 + 10650 17502 6727 6744 12516 12516 0.08178511390951826 IGWKPPKRRGG 11 Unmodified _IGWKPPKRRGG_ 0 0 0 nc|ENSG00000142661|Q5VTT5-2|MYOM3;ENSG00000142661|ENST00000374434|MYOM3 nc|ENSG00000142661|Q5VTT5-2|MYOM3 nc|ENSG00000142661|Q5VTT5-2|MYOM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 417.92095947265625 3 417.919279 1250.73601 NaN NaN NaN NaN NaN NaN NaN 41.179 1 41.179 40.679 41.679 0 0 0 0 1.0044 1 18705 18705 2.2527 1.0379 1 10651 3324 6728 6745 12517 12517 0.12067002265007432 IGWQLLRIFPK 11 Unmodified _IGWQLLRIFPK_ 0 0 0 ENSG00000147416|ENST00000276390|ATP6V1B2 ENSG00000147416|ENST00000276390|ATP6V1B2 ENSG00000147416|ENST00000276390|ATP6V1B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.7019653320312 2 685.91899 1369.82343 NaN NaN NaN NaN NaN NaN NaN 94.049 1 94.049 93.549 94.549 0 0 0 0 1.0059 1 50343 50343 2.9952 0.49676 1 10652 3562 6729 6746 12518 12518 0.1533078341590226 IGWVWCQYF 9 Unmodified _IGWVWCQYF_ 0 0 0 REV__ENST00000356742.9_1_12:111125990-111126236:-|nuORF REV__ENST00000356742.9_1_12:111125990-111126236:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.2800903320312 2 601.278595 1200.54264 NaN NaN NaN NaN NaN NaN NaN 35.522 1 36.314 35.814 36.814 0.79131 0 0 0 0.90611 1 16100 16100 2.0598 0.40713 1 + 10653 15559 6730 6747 12519 12519 -0.04961295566249646 IGYYLTLLFLY 11 Unmodified _IGYYLTLLFLY_ 0 0 0 ENSG00000198919|ENST00000361582|DZIP3;nc|ENSG00000198919|Q86Y13-2|DZIP3 ENSG00000198919|ENST00000361582|DZIP3 ENSG00000198919|ENST00000361582|DZIP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 689.8847045898438 2 689.88649 1377.75843 NaN NaN NaN NaN NaN NaN NaN 84.061 1 84.061 83.561 84.561 0 0 0 0 1.0057 1 42468 42468 3.2813 0 1 10654 5963 6731 6748 12520 12520 0.08465744099430594 IHAETLKI 8 Unmodified _IHAETLKI_ 0 0 0 ENST00000493134.1_1_3:44840780-44854740:+|nuORF;nc|ENSG00000163808|Q9NS87-4|KIF15;nc|ENSG00000163808|Q9NS87-2|KIF15;ENSG00000163808|ENST00000326047|KIF15 ENST00000493134.1_1_3:44840780-44854740:+|nuORF ENST00000493134.1_1_3:44840780-44854740:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 308.85601806640625 3 308.855282 923.544017 2.0902 0.00064558 0.22922 7.0797E-05 2.3195 0.00071638 308.855344164709 32.278 0.27338 33.066 32.965 33.239 0.78795 47 26 3 0 0 0 0.58952 2 14593 14593;14638 14.838 0.81637 1 1349100 10655 4252 6732 6749 12521;12522 12521 0.0791866179419003 IHEEEEFITE 10 Unmodified _IHEEEEFITE_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;TTN|p.R30215Vfs*13|1|0.21|ENSG00000155657|chr2:178545544-178545544|G/-|frameshift_variant;TTN|p.P20319Hfs*66|1|0.07|ENSG00000155657|chr2:178582577-178582578|-/AAAATAAATAT|frameshift_variant;TTN|p.A15448Hfs*16|1|0.24|ENSG00000155657|chr2:178610249-178610261|TTCTCCTCCCAGC/-|frameshift_variant;TTN|p.G17760Ifs*40|1|0.07|ENSG00000155657|chr2:178594192-178594193|-/TCGACTTCAGAGAT|frameshift_variant;TTN|p.V17759Afs*3|1|0.05|ENSG00000155657|chr2:178594194-178594195|-/G|frameshift_variant ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 638.292236328125 2 638.290608 1274.56666 NaN NaN NaN NaN NaN NaN NaN 98.278 1 98.278 97.778 98.778 0 0 0 0 0.88535 1 53760 53760 20.454 2.3073 1 10656 3871 6733 6750 12523 12523 -0.05963828389508308 IHEHCRVI 8 Unmodified _IHEHCRVI_ 0 0 0 REV__ENST00000487133.1_1_X:119739298-119742228:+|nuORF REV__ENST00000487133.1_1_X:119739298-119742228:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.1806945800781 3 336.179883 1005.51782 2.4271 0.00081595 -1.3797 -0.00046383 1.0474 0.00035212 336.17978879459076 13.305 0.30086 13.948 13.808 14.109 0.64272 28 22 2 0 0 0 0.69414 1 6025 6025 4.3292 0 1 484110 + 10657 14581 6734 6751 12524 12524 0.015280693510590027 IHELIGHLLL 10 Unmodified _IHELIGHLLL_ 0 0 0 REV__ENSG00000205832|ENST00000444310|C16orf96 REV__ENSG00000205832|ENST00000444310|C16orf96 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.6923828125 2 579.355691 1156.69683 3.795 0.0021987 0.17658 0.0001023 3.9716 0.002301 579.8571262059548 11.116 0.38643 11.116 11.086 11.473 0 112 88 2 0 0 0 0.12676 1 4874 4874 0.45834 0 1 603360 + 10658 14468 6735 6752 12525 12525 0.12474857190818511 IHGHPRWAL 9 Unmodified _IHGHPRWAL_ 0 0 0 ENSG00000185561|ENST00000330676|TLCD2 ENSG00000185561|ENST00000330676|TLCD2 ENSG00000185561|ENST00000330676|TLCD2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.88275146484375 3 362.870037 1085.58828 2.7013 0.0009802 -0.050552 -1.8344E-05 2.6507 0.00096186 362.8700241390582 40.023 0.75844 40.023 39.709 40.468 0 53 29 2 0 0 0 0.10586 1 18211 18211 5.2969 0 1 418110 10659 5516 6736 6753 12526 12526 0.048911107310459556 IHGHPRWAL 9 Unmodified _IHGHPRWAL_ 0 0 0 ENSG00000185561|ENST00000330676|TLCD2 ENSG00000185561|ENST00000330676|TLCD2 ENSG00000185561|ENST00000330676|TLCD2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 362.870037 1085.58828 2.6559 0.00096374 0.066885 2.427E-05 2.7228 0.00098801 362.8699319378606 39.808 0.5564 40.075 39.643 40.199 0.26696 0.070128 -3.5041E-05 NaN 5.2969 40 20 3 NaN NaN NaN NaN 0 NaN NaN 0 378040 10660 5516 6736 6753 0.048911107310459556 IHGHPRWAL 9 Unmodified _IHGHPRWAL_ 0 0 0 ENSG00000185561|ENST00000330676|TLCD2 ENSG00000185561|ENST00000330676|TLCD2 ENSG00000185561|ENST00000330676|TLCD2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 362.870037 1085.58828 2.6544 0.00096321 0.33 0.00011975 2.9844 0.001083 362.8700531533138 39.364 0.70332 40.002 39.434 40.137 0.63778 -0.0036188 0.00025139 NaN 5.2969 40 25 3 NaN NaN NaN NaN 0 NaN NaN 0 354560 10661 5516 6736 6753 0.048911107310459556 IHHGLEEL 8 Unmodified _IHHGLEEL_ 0 0 0 REV__ENSG00000163114|ENST00000295266|PDHA2 REV__ENSG00000163114|ENST00000295266|PDHA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.2519226074219 2 474.250892 946.48723 2.7379 0.0012985 0.20904 9.9139E-05 2.947 0.0013976 474.25091551309373 32.397 0.45799 33.185 33.017 33.475 0.78795 83 35 3 0 0 0 0.23254 1 14683 14683 40.449 4.3216 1 3862500 + 10662 12979 6737 6754 12527 12527 0.011846142376612079 IHHRIKKR 8 Unmodified _IHHRIKKR_ 0 0 0 REV__ENSG00000027847|ENST00000029410|B4GALT7 REV__ENSG00000027847|ENST00000029410|B4GALT7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.353271484375 2 544.351609 1086.68866 NaN NaN NaN NaN NaN NaN NaN 29.975 1 29.975 29.475 30.475 0 0 0 0 0.99035 1 13538 13538 0.69038 0.088878 1 + 10663 10282 6738 6755 12528 12528 0.14878767784693991 IHILRNRPERK 11 Unmodified _IHILRNRPERK_ 0 0 0 REV__L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|38|2|sense REV__L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|38|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.95977783203125 3 477.960026 1430.85825 1.7442 0.00083365 -0.80534 -0.00038492 0.93883 0.00044872 477.95925501407163 106.04 0.13359 106.09 106.03 106.16 0.04837 12 5 3 0 0 0 0.91328 1 57395 57395 0.50596 0.051438 1 1322400 + 10664 17762 6739 6756 12529 12529 0.16005419276575594 IHILRNRPERK 11 Unmodified _IHILRNRPERK_ 0 0 0 REV__L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|38|2|sense REV__L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|38|2|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 477.960026 1430.85825 1.7442 0.00083365 -0.80534 -0.00038492 0.93883 0.00044872 477.95925501407163 106.04 0.13359 106.09 106.03 106.16 0.04837 0.088399 0.00042745 NaN 0.50596 12 5 3 NaN NaN NaN NaN 0 NaN NaN 0 1322400 + 10665 17762 6739 6756 0.16005419276575594 IHIPRNYM 8 Unmodified _IHIPRNYM_ 0 0 0 REV__ENSG00000164645|ENST00000297203|TEX47 REV__ENSG00000164645|ENST00000297203|TEX47 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 348.5206604003906 3 348.520016 1042.53822 NaN NaN NaN NaN NaN NaN NaN 13.371 1 13.371 12.871 13.871 0 0 0 0 0.99035 1 5845 5845 1.8442 0 1 + 10666 13103 6740 6757 12530 12530 0.018652400108749134 IHIRGKRWS 9 Unmodified _IHIRGKRWS_ 0 0 0 REV__ENSG00000182256|ENST00000615808|GABRG3 REV__ENSG00000182256|ENST00000615808|GABRG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 576.8396606445312 2 576.841074 1151.66759 NaN NaN NaN NaN NaN NaN NaN 90.629 1 91.302 90.802 91.802 0.67271 0 0 0 0.90699 1 41713 41713 1.8442 0.19162 1 + 10667 13884 6741 6758 12531 12531 0.09782757685184151 IHIRTRRRCRW 11 Unmodified _IHIRTRRRCRW_ 0 0 0 ENST00000591174.1_1_19:9945159-9945243:-|nuORF ENST00000591174.1_1_19:9945159-9945243:-|nuORF ENST00000591174.1_1_19:9945159-9945243:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 776.9447631835938 2 776.946944 1551.87934 NaN NaN NaN NaN NaN NaN NaN 89.998 1 90.25 89.75 90.75 0.25137 0 0 0 1.008 1 41387 41387 0.30703 0 1 10668 9232 6742 6759 12532 12532 0.12547106104466366 IHKPTGDEM 9 Unmodified _IHKPTGDEM_ 0 0 0 REV__ENSG00000133302|ENST00000265140|SLF1 REV__ENSG00000133302|ENST00000265140|SLF1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.5509338378906 3 343.16742 1026.48043 2.7103 0.00093009 -0.63409 -0.0002176 2.0762 0.0007125 343.16722006384765 12.495 0.15167 13.138 13.092 13.244 0.64272 8 4 2 0 0 0 0.11267 1 5623 5623 0.23584 0 1 2055200 + 10669 11931 6743 6760 12533 12533 -0.03175066705216523 IHLAQSLHKLS 11 Unmodified _IHLAQSLHKLS_ 0 0 0 nc|ENSG00000124207|P55060-4|CSE1L;nc|ENSG00000124207|P55060-3|CSE1L;ENSG00000124207|ENST00000262982|CSE1L;ENST00000469700.1_1_20:47707305-47712721:+|nuORF nc|ENSG00000124207|P55060-4|CSE1L nc|ENSG00000124207|P55060-4|CSE1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 416.2467956542969 3 416.247062 1245.71936 NaN NaN NaN NaN NaN NaN NaN 14.196 1 14.503 14.003 15.003 0.3069 0 0 0 0.61918 1 6424 6424 19.987 11.543 1 10670 2348 6744 6761 12534 12534 0.10632456588427885 IHLQKRQR 8 Unmodified _IHLQKRQR_ 0 0 0 REV__ERVL-E-int_dup1261|chr2:154469035-154470401:+|1.5917130338343672|0.0973889572275544|4.03|523.0|74|2|anti-sense REV__ERVL-E-int_dup1261|chr2:154469035-154470401:+|1.5917130338343672|0.0973889572275544|4.03|523.0|74|2|anti-sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.836669921875 2 539.833249 1077.65194 3.5122 0.001896 -0.19257 -0.00010396 3.3196 0.001792 539.8329956643092 89.417 0.68742 90.095 89.91 90.597 0.67818 74 33 3 0 0 0 0.74071 1 41231 41231 2.5775 0.51773 1 1999900 + 10671 17686 6745 6762 12535 12535 0.1162247116810704 IHMMSLGVLNL 11 Unmodified _IHMMSLGVLNL_ 0 0 0 nc|ENSG00000172782|Q8N9I5-2|FADS6;nc|ENSG00000172782|Q8N9I5|FADS6;ENSG00000172782|ENST00000612771|FADS6 nc|ENSG00000172782|Q8N9I5-2|FADS6 nc|ENSG00000172782|Q8N9I5-2|FADS6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.8927001953125 3 409.891122 1226.65154 3.0165 0.0012364 0.95265 0.00039048 3.9692 0.0016269 409.89138985533566 15.743 1.0199 16.401 16.021 17.041 0.65798 303 137 3 0 0 0 0.91068 1 7099 7099 1.3296 0.1363 1 177450 10672 4893 6746 6763 12536 12536 0.047275473417812464 IHPDMPDL 8 Unmodified _IHPDMPDL_ 0 0 0 nc|ENSG00000167716|Q562E7-4|WDR81;ENSG00000167716|ENST00000409644|WDR81 nc|ENSG00000167716|Q562E7-4|WDR81 nc|ENSG00000167716|Q562E7-4|WDR81 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.227783203125 2 469.226028 936.437503 3.1602 0.0014828 -0.11501 -5.3966E-05 3.0451 0.0014289 469.2260456958161 54.238 0.99029 54.238 53.856 54.847 0 143 90 3 0 0 0 0.59268 1 24939 24939 14.582 0 1 1365400 10673 4575 6747 6764 12537 12537 -0.03325836762644485 IHPGVSGQHL 10 Unmodified _IHPGVSGQHL_ 0 0 0 REV__nc|ENSG00000196358|Q96CW9-2|NTNG2 REV__nc|ENSG00000196358|Q96CW9-2|NTNG2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.7859497070312 2 522.78289 1043.55123 3.4733 0.0018158 0.30027 0.00015697 3.7736 0.0019728 522.7830594459051 29.35 0.22825 29.35 29.237 29.466 0 31 19 2 0 0 0 0.58053 1 13240 13240 18.146 1.0335 1 298930 + 10674 18089 6748 6765 12538 12538 0.031193943946163927 IHPKKGEL 8 Unmodified _IHPKKGEL_ 0 0 0 ENSG00000086570|ENST00000261800|FAT2 ENSG00000086570|ENST00000261800|FAT2 ENSG00000086570|ENST00000261800|FAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 307.8560791015625 3 307.855394 920.544351 2.0804 0.00064046 0.19561 6.0218E-05 2.276 0.00070068 307.85541398319765 12.641 0.090858 12.641 12.594 12.685 0 17 6 4 0 0 0 0.20016 1 5505 5505 34.102 1.797 1 5005200 10675 984 6749 6766 12539 12539 0.08090081514046688 IHPSIYLSI 9 Unmodified _IHPSIYLSI_ 0 0 0 ENST00000280800.4_1_12:113827312-113827528:+|nuORF ENST00000280800.4_1_12:113827312-113827528:+|nuORF ENST00000280800.4_1_12:113827312-113827528:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.22662353515625 3 348.20257 1041.58588 NaN NaN NaN NaN NaN NaN NaN 12.512 1 13.155 12.655 13.655 0.64272 0 0 0 0.7971 1 5613 5613 5.7319 0.83484 1 10676 6690 6750 6767 12540 12540 0.0667521748271156 IHPVVARICEP 11 Unmodified _IHPVVARICEP_ 0 0 0 ENSG00000101868|ENST00000379068|POLA1;nc|ENSG00000101868|P09884|POLA1;ENST00000494204.1_1_X:24833141-24859977:+|nuORF ENSG00000101868|ENST00000379068|POLA1 ENSG00000101868|ENST00000379068|POLA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 617.34228515625 2 617.342258 1232.66996 NaN NaN NaN NaN NaN NaN NaN 91.553 1 91.805 91.305 92.305 0.25163 0 0 0 1.0071 1 42097 42097 1.4819 0.15237 1 10677 1316 6751 6768 12541 12541 0.06293425307967482 IHRHEPFI 8 Unmodified _IHRHEPFI_ 0 0 0 ENST00000533428.2_1_15:97300531-97301611:+|nuORF ENST00000533428.2_1_15:97300531-97301611:+|nuORF ENST00000533428.2_1_15:97300531-97301611:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.1963195800781 3 350.194409 1047.5614 2.5462 0.00089168 0.73023 0.00025572 3.2765 0.0011474 350.19473461812004 13.526 0.31825 14.175 14.042 14.361 0.64819 36 21 2 0 0 0 0.67495 1 6118 6118 7.9102 0 1 220620 10678 8745 6752 6769 12542 12542 0.039520021198541144 IHSHGEGL 8 Unmodified _IHSHGEGL_ 0 0 0 REV__ENST00000495324.5_1_19:12098553-12129101:+|nuORF REV__ENST00000495324.5_1_19:12098553-12129101:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 425.215576171875 2 425.214309 848.414065 2.7193 0.0011563 0.89193 0.00037926 3.6112 0.0015356 425.21477743717276 17.148 0.50044 17.453 17.179 17.679 0.30438 48 38 2 0 0 0 0.7441 2 7690 7690;7748 2.3027 0 1 109160 + 10679 16840 6753 6770 12543;12544 12543 -0.016205144849323005 IHSPWLGML 9 Unmodified _IHSPWLGML_ 0 0 0 REV__ENST00000491442.5_1_1:42313815-42313920:-|nuORF REV__ENST00000491442.5_1_1:42313815-42313920:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.8562927246094 3 351.856517 1052.54772 NaN NaN NaN NaN NaN NaN NaN 12.573 1 12.88 12.38 13.38 0.30727 0 0 0 0.90228 1 5671 5671 2.9952 0 1 + 10680 16803 6754 6771 12545 12545 0.02355008296399319 IHVPKTIH 8 Unmodified _IHVPKTIH_ 0 0 0 REV__ENSG00000169340|ENST00000302451|PDILT REV__ENSG00000169340|ENST00000302451|PDILT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 315.52862548828125 3 315.527388 943.560336 2.0705 0.0006533 0.55364 0.00017469 2.6241 0.00082799 315.52754013869173 15.121 1.0565 15.121 14.63 15.687 0 287 122 3 0 0 0 0.74071 1 6500 6500 1.6526 0 1 397330 + 10681 13389 6755 6772 12546 12546 0.0862978775095371 IHVRRHGM 8 Unmodified _IHVRRHGM_ 0 0 0 REV__nc|ENSG00000196365|P36776-3|LONP1 REV__nc|ENSG00000196365|P36776-3|LONP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.8565368652344 3 335.855622 1004.54504 1.6237 0.00054533 0.34565 0.00011609 1.9693 0.00066142 335.85581650772883 5.9978 0.50925 6.303 6.0843 6.5935 0.30519 69 48 2 0 0 0 0.7471 1 2774 2774 0.45834 0 1 58685 + 10682 14207 6756 6773 12547 12547 0.042945976821101794 IHVYPIWL 8 Unmodified _IHVYPIWL_ 0 0 0 nc|ENSG00000116133|Q15392-2|DHCR24;ENSG00000116133|ENST00000371269|DHCR24 nc|ENSG00000116133|Q15392-2|DHCR24 nc|ENSG00000116133|Q15392-2|DHCR24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.5363464355469 3 347.535772 1039.58549 2.0158 0.00070056 -1.6435 -0.00057116 0.37233 0.0001294 347.870110515953 13.288 0.54306 13.595 13.279 13.822 0.30727 67 36 3 0 0 0 0.69414 1 5986 5986 4.3292 1.334 1 137170 10683 2014 6757 6774 12548 12548 0.0672784255350507 IHYYCVST 8 Unmodified _IHYYCVST_ 0 0 0 nc|ENSG00000138468|Q9BQF6-4|SENP7;nc|ENSG00000138468|Q9BQF6-5|SENP7;nc|ENSG00000138468|Q9BQF6-2|SENP7;ENSG00000138468|ENST00000394095|SENP7 nc|ENSG00000138468|Q9BQF6-4|SENP7 nc|ENSG00000138468|Q9BQF6-4|SENP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.2271423339844 2 493.226028 984.437503 3.2091 0.0015828 -0.14502 -7.1528E-05 3.0641 0.0015113 493.2259794226585 67.027 0.46048 67.685 67.475 67.936 0.65777 65 25 3 0 0 0 0.64692 1 30807 30807 10.183 0 1 2040200 10684 3096 6758 6775 12549 12549 -0.05533836762640476 IIAIVHIFGKV 11 Unmodified _IIAIVHIFGKV_ 0 0 0 nc|ENSG00000163053|Q7RTX9-2|SLC16A14;SLC16A14|p.F422Sfs*3|1|0.31|ENSG00000163053|chr2:230045861-230045861|A/-|frameshift_variant;ENSG00000163053|ENST00000295190|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.1991882324219 4 303.198405 1208.76451 2.3159 0.00070219 1.334 0.00040445 3.6499 0.0011066 303.198800584786 45.005 0.96746 45.655 45.092 46.06 0.64998 43 37 2 0 0 0 0.13295 1 20447 20447 0.45452 0.29519 1 1562100 10685 4187 6759 6776 12550 12550 0.16848307121586004 IIAIVHIFGKV 11 Unmodified _IIAIVHIFGKV_ 0 0 0 nc|ENSG00000163053|Q7RTX9-2|SLC16A14;SLC16A14|p.F422Sfs*3|1|0.31|ENSG00000163053|chr2:230045861-230045861|A/-|frameshift_variant;ENSG00000163053|ENST00000295190|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 303.198405 1208.76451 1.8085 0.00054832 1.6937 0.00051353 3.5022 0.0010619 303.1989124165649 45.747 0.42011 45.747 45.515 45.935 0 -0.068807 0.00035179 NaN 0.45452 44 19 3 NaN NaN NaN NaN 0 NaN NaN 0 650140 10686 4187 6759 6776 0.16848307121586004 IIAIVHIFGKV 11 Unmodified _IIAIVHIFGKV_ 0 0 0 nc|ENSG00000163053|Q7RTX9-2|SLC16A14;SLC16A14|p.F422Sfs*3|1|0.31|ENSG00000163053|chr2:230045861-230045861|A/-|frameshift_variant;ENSG00000163053|ENST00000295190|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 303.198405 1208.76451 2.1965 0.00066597 1.116 0.00033838 3.3125 0.0010044 303.19874947738174 45.103 0.39824 45.929 45.735 46.133 0.82621 0.11292 -0.00034879 NaN 0.45452 29 22 2 NaN NaN NaN NaN 0 NaN NaN 0 560030 10687 4187 6759 6776 0.16848307121586004 IIAIVHIFGKV 11 Unmodified _IIAIVHIFGKV_ 0 0 0 nc|ENSG00000163053|Q7RTX9-2|SLC16A14;SLC16A14|p.F422Sfs*3|1|0.31|ENSG00000163053|chr2:230045861-230045861|A/-|frameshift_variant;ENSG00000163053|ENST00000295190|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 nc|ENSG00000163053|Q7RTX9-2|SLC16A14 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 303.198405 1208.76451 2.1192 0.00064254 0.91125 0.00027629 3.0305 0.00091883 303.1985615600929 45.665 0.879 45.932 45.293 46.172 0.26768 0.11643 -0.00059717 NaN 0.45452 39 35 2 NaN NaN NaN NaN 0 NaN NaN 0 1589700 10688 4187 6759 6776 0.16848307121586004 IIDNNDTQL 9 Unmodified _IIDNNDTQL_ 0 0 0 nc|ENSG00000153815|Q8IY22-3|CMIP;nc|ENSG00000153815|Q8IY22-2|CMIP;ENSG00000153815|ENST00000537098|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.2635498046875 2 523.261653 1044.50875 3.3533 0.0017547 -0.80711 -0.00042233 2.5462 0.0013323 523.2612633437916 38.591 0.33611 39.388 39.221 39.558 0.79762 27 15 3 0 0 0 0.59776 1 17478 17478 10.824 4.4698 1 237290 10689 9694 6760 6777 12551 12551 -0.011720455242766548 IIDNNDTQL 9 Unmodified _IIDNNDTQL_ 0 0 0 nc|ENSG00000153815|Q8IY22-3|CMIP;nc|ENSG00000153815|Q8IY22-2|CMIP;ENSG00000153815|ENST00000537098|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 523.261653 1044.50875 3.2207 0.0016853 -0.15004 -7.851E-05 3.0706 0.0016067 523.2611381449452 39.587 0.20241 39.587 39.434 39.637 0 0.081996 -0.00019093 NaN 10.824 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 705300 10690 9694 6760 6777 -0.011720455242766548 IIDNNDTQL 9 Unmodified _IIDNNDTQL_ 0 0 0 nc|ENSG00000153815|Q8IY22-3|CMIP;nc|ENSG00000153815|Q8IY22-2|CMIP;ENSG00000153815|ENST00000537098|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 523.261653 1044.50875 3.3056 0.0017297 0.31338 0.00016398 3.619 0.0018937 523.2617246837218 39.23 0.21184 39.497 39.431 39.643 0.26696 -0.0077789 0.00029406 NaN 10.824 11 6 2 NaN NaN NaN NaN 0 NaN NaN 0 263720 10691 9694 6760 6777 -0.011720455242766548 IIDNNDTQL 9 Unmodified _IIDNNDTQL_ 0 0 0 nc|ENSG00000153815|Q8IY22-3|CMIP;nc|ENSG00000153815|Q8IY22-2|CMIP;ENSG00000153815|ENST00000537098|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 523.261653 1044.50875 3.3434 0.0017495 0.80712 0.00042234 4.1505 0.0021718 523.2619496348161 38.909 0.24139 39.547 39.408 39.649 0.63778 0.041947 0.00081077 NaN 10.824 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 253910 10692 9694 6760 6777 -0.011720455242766548 IIEPLIKLL 9 Unmodified _IIEPLIKLL_ 0 0 0 REV__nc|ENSG00000171495|Q7Z745-2|MROH2B REV__nc|ENSG00000171495|Q7Z745-2|MROH2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.24371337890625 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 33.63 1 33.63 33.13 34.13 0 0 0 0 0.91238 1 15247 15247 0.23584 0 1 + 10693 13499 6761 6778 12552 12552 0.1819441110740172 IIFLRGRV 8 Unmodified _IIFLRGRV_ 0 0 0 REV__nc|ENSG00000085224|P46100-2|ATRX REV__nc|ENSG00000085224|P46100-2|ATRX MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.3193054199219 2 487.318912 972.62327 NaN NaN NaN NaN NaN NaN NaN 102.71 1 103.03 102.53 103.53 0.31863 0 0 0 0.99035 1 47501 47501 0.79363 0.10326 1 + 10694 10641 6762 6779 12553 12553 0.13586353538983076 IIGSIKLLKVF 11 Unmodified _IIGSIKLLKVF_ 0 0 0 REV__nc|ENSG00000144554|Q9BXW9-4|FANCD2 REV__nc|ENSG00000144554|Q9BXW9-4|FANCD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 615.9144287109375 2 615.912842 1229.81113 NaN NaN NaN NaN NaN NaN NaN 95.928 1 96.535 96.035 97.035 0.60769 0 0 0 1.008 1 44110 44110 0.30703 0.30703 1 + 10695 12406 6763 6780 12554 12554 0.20541746952881113 IIHQCLKK 8 Unmodified _IIHQCLKK_ 0 0 0 REV__ENSG00000136144|ENST00000378302|RCBTB1 REV__ENSG00000136144|ENST00000378302|RCBTB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7966003417969 2 491.796955 981.579357 2.8348 0.0013941 -1.5051 -0.00074022 1.3296 0.0006539 491.79597089774916 69.904 0.62457 70.565 70.299 70.923 0.66071 68 43 2 0 0 0 0.7441 1 32071 32071 2.3027 0 1 468510 + 10696 12063 6764 6781 12555 12555 0.08783001050335315 IIHRKQRQF 9 Unmodified _IIHRKQRQF_ 0 0 0 REV__ENST00000521420.5_1_5:156821823-156821919:+|nuORF REV__ENST00000521420.5_1_5:156821823-156821919:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.248291015625 3 409.247396 1224.72036 2.7397 0.0011212 -0.12529 -5.1276E-05 2.6144 0.0010699 409.24731582700684 14.798 0.26343 15.105 15.003 15.266 0.3069 34 22 2 0 0 0 0.98132 2 6673 6673;6721 2.7352 0 1 98534 + 10697 17051 6765 6782 12556;12557 12556 0.11698715747957067 IIIHDASLL 9 Unmodified _IIIHDASLL_ 0 0 0 REV__ENST00000484672.5_1_22:19898593-19905733:-|nuORF REV__ENST00000484672.5_1_22:19898593-19905733:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 332.20220947265625 3 332.20257 993.585882 NaN NaN NaN NaN NaN NaN NaN 46.321 1 46.587 46.087 47.087 0.26561 0 0 0 0.90335 1 21172 21172 2.7352 0 1 + 10698 13975 6766 6783 12558 12558 0.0888321748270755 IIILLILVLM 10 Unmodified _IIILLILVLM_ 0 0 0 nc|ENSG00000170558|P19022-2|CDH2;ENSG00000170558|ENST00000269141|CDH2 nc|ENSG00000170558|P19022-2|CDH2 nc|ENSG00000170558|P19022-2|CDH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 577.1179809570312 2 577.403264 1152.79198 NaN NaN NaN NaN NaN NaN NaN 90.932 1 90.932 90.432 91.432 0 0 0 0 1.002 1 47896 47896 0 0 1 10699 4757 6767 6784 12559 12559 0.2216907433760298 IIIRKKIFKRK 11 Unmodified _IIIRKKIFKRK_ 0 0 0 REV__ENST00000485134.1_1_1:158911778-158914889:+|nuORF REV__ENST00000485134.1_1_1:158911778-158914889:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 722.0084838867188 2 722.005931 1441.99731 NaN NaN NaN NaN NaN NaN NaN 33.14 1 33.14 32.64 33.64 0 0 0 0 1.0057 1 15010 15010 3.2813 1.9518 1 + 10700 13005 6768 6785 12560 12560 0.29398988912021196 IIKDKHIL 8 Unmodified _IIKDKHIL_ 0 0 0 nc|ENSG00000080503|P51531-2|SMARCA2;ENSG00000080503|ENST00000349721|SMARCA2;ENST00000592604.5_1_19:11123597-11172489:+|nuORF;nc|ENSG00000127616|P51532-5|SMARCA4;nc|ENSG00000127616|P51532-2|SMARCA4;nc|ENSG00000127616|P51532-3|SMARCA4;nc|ENSG00000127616|P51532-4|SMARCA4;ENSG00000127616|ENST00000344626|SMARCA4;ENST00000591595.5_1_19:11130023-11172489:+|nuORF nc|ENSG00000080503|P51531-2|SMARCA2;ENST00000592604.5_1_19:11123597-11172489:+|nuORF ENST00000592604.5_1_19:11123597-11172489:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 327.5496826171875 3 327.21481 978.622602 2.2808 0.0007463 0.50827 0.00016631 2.789 0.00091261 327.21498132308375 18.636 0.18572 18.636 18.486 18.672 0 25 11 3 0 0 0 0.31493 1 8267 8267 34.402 1.616 1 720230 10701 908;2488 6769 6786 12561 12561 0.13243514099281128 IIKDKHIL 8 Unmodified _IIKDKHIL_ 0 0 0 nc|ENSG00000080503|P51531-2|SMARCA2;ENSG00000080503|ENST00000349721|SMARCA2;ENST00000592604.5_1_19:11123597-11172489:+|nuORF;nc|ENSG00000127616|P51532-5|SMARCA4;nc|ENSG00000127616|P51532-2|SMARCA4;nc|ENSG00000127616|P51532-3|SMARCA4;nc|ENSG00000127616|P51532-4|SMARCA4;ENSG00000127616|ENST00000344626|SMARCA4;ENST00000591595.5_1_19:11130023-11172489:+|nuORF nc|ENSG00000080503|P51531-2|SMARCA2;ENST00000592604.5_1_19:11123597-11172489:+|nuORF ENST00000592604.5_1_19:11123597-11172489:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 327.21481 978.622602 2.181 0.00071365 0.602 0.00019698 2.783 0.00091063 327.21504424796825 18.084 0.19408 18.386 18.362 18.556 0.30158 -0.12546 3.8917E-05 NaN 34.402 29 21 2 NaN NaN NaN NaN 0 NaN NaN 0 207750 10702 908;2488 6769 6786 0.13243514099281128 IIKHQSLALIC 11 Unmodified _IIKHQSLALIC_ 0 0 0 REV__ENST00000429248.1_1_7:56706781-56707144:-|nuORF REV__ENST00000429248.1_1_7:56706781-56707144:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.8710327148438 2 619.868108 1237.72166 NaN NaN NaN NaN NaN NaN NaN 87.517 1 87.768 87.268 88.268 0.25064 0 0 0 1.0072 1 40278 40278 1.3295 0.87119 1 + 10703 16239 6770 6787 12562 12562 0.11231169001871422 IIKHQSLALIC 11 Unmodified _IIKHQSLALIC_ 0 0 0 REV__ENST00000429248.1_1_7:56706781-56707144:-|nuORF REV__ENST00000429248.1_1_7:56706781-56707144:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.871826171875 2 619.868108 1237.72166 NaN NaN NaN NaN NaN NaN NaN 89.607 1 89.858 89.358 90.358 0.25137 0 0 0 1.0072 1 41212 41212 1.3295 0.13619 1 + 10704 16239 6770 6787 12563 12563 0.11231169001871422 IIKHQSLALIC 11 Unmodified _IIKHQSLALIC_ 0 0 0 REV__ENST00000429248.1_1_7:56706781-56707144:-|nuORF REV__ENST00000429248.1_1_7:56706781-56707144:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.8712158203125 2 619.868108 1237.72166 NaN NaN NaN NaN NaN NaN NaN 90.717 1 90.969 90.469 91.469 0.25163 0 0 0 1.0072 1 41714 41714 1.3295 0 1 + 10705 16239 6770 6787 12564 12564 0.11231169001871422 IIKHQSLALIC 11 Unmodified _IIKHQSLALIC_ 0 0 0 REV__ENST00000429248.1_1_7:56706781-56707144:-|nuORF REV__ENST00000429248.1_1_7:56706781-56707144:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.8720703125 2 619.868108 1237.72166 NaN NaN NaN NaN NaN NaN NaN 88.223 1 88.901 88.401 89.401 0.67818 0 0 0 1.0072 1 40635 40635 1.3295 0.80477 1 + 10706 16239 6770 6787 12565 12565 0.11231169001871422 IIKKKIVKTMV 11 Unmodified _IIKKKIVKTMV_ 0 0 0 REV__nc|ENSG00000168016|O15050|TRANK1 REV__nc|ENSG00000168016|O15050|TRANK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 650.9407348632812 2 650.941076 1299.8676 NaN NaN NaN NaN NaN NaN NaN 89.611 1 89.611 89.111 90.111 0 0 0 0 1.008 1 46855 46855 0.35063 0.043601 1 + 10707 13323 6771 6788 12566 12566 0.22966051517869346 IIKKRMHKVKR 11 Unmodified _IIKKRMHKVKR_ 0 0 0 REV__nc|ENSG00000198022|A6NJ88|SAGE2P REV__nc|ENSG00000198022|A6NJ88|SAGE2P MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 718.644775390625 2 718.971565 1435.92858 NaN NaN NaN NaN NaN NaN NaN 96.136 1 96.136 95.636 96.636 0 0 0 0 1.0082 1 51947 51947 0 0 1 + 10708 18101 6772 6789 12567 12567 0.22805001340680064 IIKLRKLYLLL 11 Unmodified _IIKLRKLYLLL_ 0 0 0 REV__ENSG00000131724|ENST00000371666|IL13RA1 REV__ENSG00000131724|ENST00000371666|IL13RA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 693.4373779296875 2 693.483966 1384.95338 NaN NaN NaN NaN NaN NaN NaN 82.609 1 82.609 82.109 83.109 0 0 0 0 1.0082 1 41417 41417 0 0 1 + 10709 11863 6773 6790 12568 12568 0.27629959695104844 IIKVTKLY 8 Unmodified _IIKVTKLY_ 0 0 0 REV__nc|ENSG00000131781|P49326-3|FMO5 REV__nc|ENSG00000131781|P49326-3|FMO5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.3254699707031 2 489.323328 976.632104 3.427 0.0016769 -0.4508 -0.00022059 2.9762 0.0014563 489.3230175987866 39.839 0.27279 40.48 40.328 40.601 0.64135 26 11 3 0 0 0 0.05432 1 18200 18200 64.236 0 1 1028900 + 10710 17940 6774 6791 12569 12569 0.1428528238478748 IIKWLHRKSK 10 Unmodified _IIKWLHRKSK_ 0 0 0 REV__ENSG00000144452|ENST00000272895|ABCA12 REV__ENSG00000144452|ENST00000272895|ABCA12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.2034606933594 4 327.962029 1307.81901 2.229 0.00073101 2.0885 0.00068495 4.3175 0.001416 328.2129132366306 49.139 0.58446 49.139 48.713 49.297 0 55 31 4 0 0 0 0.89607 4 22421 22365;22421;22499;22547 3.8763 1.97 1 1469700 + 10711 12404 6775 6792 12570;12571;12572;12573 12571 0.177413189930121 IILCLVFRKRR 11 Unmodified _IILCLVFRKRR_ 0 0 0 REV__ENST00000233557.7_1_2:27656618-27656883:+|nuORF REV__ENST00000233557.7_1_2:27656618-27656883:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.306884765625 3 472.970986 1415.89113 3.0268 0.0014316 0.32485 0.00015364 3.3517 0.0015852 472.9711154440041 50.702 0.46025 50.702 50.588 51.048 0 46 25 2 0 0 0 0.91459 1 23206 23206 0.094841 0.011491 1 6731800 + 10712 14863 6776 6793 12574 12574 0.19981910075080123 IILCLVFRKRR 11 Unmodified _IILCLVFRKRR_ 0 0 0 REV__ENST00000233557.7_1_2:27656618-27656883:+|nuORF REV__ENST00000233557.7_1_2:27656618-27656883:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.3072814941406 3 472.970986 1415.89113 2.9693 0.0014044 0.63325 0.00029951 3.6025 0.0017039 472.9711427216256 50.157 0.33094 50.98 50.858 51.189 0.82285 39 16 4 0 0 0 0.91459 1 22832 22832 0.094841 0 1 2739000 + 10713 14863 6776 6793 12575 12575 0.19981910075080123 IILCLVFRKRR 11 Unmodified _IILCLVFRKRR_ 0 0 0 REV__ENST00000233557.7_1_2:27656618-27656883:+|nuORF REV__ENST00000233557.7_1_2:27656618-27656883:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.9728698730469 3 472.970986 1415.89113 3.0562 0.0014455 0.60287 0.00028514 3.659 0.0017306 472.97125128551284 49.419 0.70016 50.074 49.734 50.434 0.65524 34 24 2 0 0 0 0.91459 1 22616 22616 0.094841 0 1 2959100 + 10714 14863 6776 6793 12576 12576 0.19981910075080123 IILFKIVKLVT 11 Unmodified _IILFKIVKLVT_ 0 0 0 REV__LRRC8C|p.D786Vfs*18|1|0.03|ENSG00000171488|chr1:89714926-89714927|-/TAGAGTTC|frameshift_variant REV__LRRC8C|p.D786Vfs*18|1|0.03|ENSG00000171488|chr1:89714926-89714927|-/TAGAGTTC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.0735473632812 2 643.944142 1285.87373 NaN NaN NaN NaN NaN NaN NaN 105.37 1 105.37 104.87 105.87 0 0 0 0 1.008 1 57902 57902 0.30703 0.30703 1 + 10715 13498 6777 6794 12577 12577 0.24222893021078562 IILFRKFELIV 11 Unmodified _IILFRKFELIV_ 0 0 0 REV__ENST00000463724.1_1_1:74648194-74648635:-|nuORF REV__ENST00000463724.1_1_1:74648194-74648635:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 348.4772033691406 4 348.475975 1389.87479 2.4782 0.00086358 0.6294 0.00021933 3.1076 0.0010829 348.47626807721736 40.989 0.27681 40.989 40.862 41.139 0 47 20 3 0 0 0 0.91359 2 18593 18593;18649 0.40827 0 1 2669300 + 10716 16516 6778 6795 12578;12579 12578 0.19545107390013072 IILFRKFELIV 11 Unmodified _IILFRKFELIV_ 0 0 0 REV__ENST00000463724.1_1_1:74648194-74648635:-|nuORF REV__ENST00000463724.1_1_1:74648194-74648635:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 348.4769287109375 4 348.475975 1389.87479 2.3371 0.00081441 1.0748 0.00037455 3.4119 0.001189 348.72703448254435 40.034 0.72789 40.834 40.198 40.926 0.80014 98 40 3 0 0 0 0.91359 1 18115 18115 0.40827 0 1 1730900 + 10717 16516 6778 6795 12580 12580 0.19545107390013072 IILVPFLLILL 11 Unmodified _IILVPFLLILL_ 0 0 0 ENSG00000279000|ENST00000641238|OR10A6 ENSG00000279000|ENST00000641238|OR10A6 ENSG00000279000|ENST00000641238|OR10A6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.94384765625 2 633.943611 1265.87267 NaN NaN NaN NaN NaN NaN NaN 38.622 1 38.622 38.122 39.122 0 0 0 0 1.0082 1 17529 17529 0 0 1 10718 6364 6779 6796 12581 12581 0.2503667865219086 IILVTLIRLA 10 Unmodified _IILVTLIRLA_ 0 0 0 REV__ENST00000538790.1_1_12:122506345-122506417:+|nuORF REV__ENST00000538790.1_1_12:122506345-122506417:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.7425842285156 3 375.597032 1123.76927 NaN NaN NaN NaN NaN NaN NaN 75.975 1 76.232 75.732 76.732 0.25704 0 0 0 1.0018 1 34973 34973 0.15932 0 1 + 10719 17194 6780 6797 12582 12582 0.21233191264377638 IILYFILVLVF 11 Unmodified _IILYFILVLVF_ 0 0 0 REV__ENSG00000184394|ENST00000641086|OR4N5 REV__ENSG00000184394|ENST00000641086|OR4N5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.221923828125 4 338.97026 1351.85193 2.611 0.00088506 0.38416 0.00013022 2.9952 0.0010153 338.9706193140534 46.207 0.17925 46.858 46.799 46.978 0.65104 11 7 2 0 0 0 0.91328 1 21176 21176 0.094841 0 1 1104900 + 10720 13972 6781 6798 12583 12583 0.19008088272494206 IIMFALWTQR 10 Unmodified _IIMFALWTQR_ 0 0 0 REV__ENST00000588465.5_1_19:10713206-10745972:+|nuORF REV__ENST00000588465.5_1_19:10713206-10745972:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 639.855224609375 2 639.855001 1277.69545 NaN NaN NaN NaN NaN NaN NaN 38.603 1 39.401 38.901 39.901 0.79762 0 0 0 0.99983 1 17487 17487 1.8442 0.19162 1 + 10721 11786 6782 6799 12584 12584 0.0677089983037149 IINNQKRQFQH 11 Unmodified _IINNQKRQFQH_ 0 0 0 REV__nc|ENSG00000148482|Q504Y0-2|SLC39A12 REV__nc|ENSG00000148482|Q504Y0-2|SLC39A12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 713.568115234375 2 713.389116 1424.76368 NaN NaN NaN NaN NaN NaN NaN 29.712 1 30.501 30.001 31.001 0.78921 0 0 0 1.0057 1 13402 13402 3.2813 0.28607 1 + 10722 12540 6783 6800 12585 12585 0.06828860734594855 IIRILRYIYKK 11 Unmodified _IIRILRYIYKK_ 0 0 0 REV__ENST00000296220.5_1_3:125248682-125248751:-|nuORF REV__ENST00000296220.5_1_3:125248682-125248751:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 739.9827880859375 2 739.982121 1477.94969 NaN NaN NaN NaN NaN NaN NaN 89.278 1 89.278 88.778 89.778 0 0 0 0 1.008 1 46583 46583 0.35063 0.35063 1 + 10723 15147 6784 6801 12586 12586 0.22983289921194228 IIRKKKLFKIK 11 Unmodified _IIRKKKLFKIK_ 0 0 0 L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|15|1|sense L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|15|1|sense L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|15|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 707.8179321289062 2 708.002857 1413.99116 NaN NaN NaN NaN NaN NaN NaN 82.079 1 82.163 81.663 82.663 0.084106 0 0 0 1.008 1 40467 40467 0.35063 0.35063 1 10724 9458 6785 6802 12587 12587 0.30072470680534025 IIRTNRLI 8 Unmodified _IIRTNRLI_ 0 0 0 nc|ENSG00000046651|O75665-3|OFD1;ENSG00000046651|ENST00000340096|OFD1;ENST00000490265.5_1_X:13771424-13787224:+|nuORF nc|ENSG00000046651|O75665-3|OFD1 nc|ENSG00000046651|O75665-3|OFD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.8277893066406 2 499.827101 997.639649 2.4573 0.0012282 0.31061 0.00015525 2.7679 0.0013835 499.8267137723386 12.473 0.060402 12.78 12.733 12.794 0.30727 6 2 3 0 0 0 0.18676 1 5629 5629 44.407 0 1 2336400 10725 552 6786 6803 12588 12588 0.14073434705096588 IIRTNRLI 8 Unmodified _IIRTNRLI_ 0 0 0 nc|ENSG00000046651|O75665-3|OFD1;ENSG00000046651|ENST00000340096|OFD1;ENST00000490265.5_1_X:13771424-13787224:+|nuORF nc|ENSG00000046651|O75665-3|OFD1 nc|ENSG00000046651|O75665-3|OFD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 499.827101 997.639649 3.187 0.0015929 2.5079 0.0012535 5.6949 0.0028465 499.8281978890637 12.631 0.065831 12.631 12.594 12.66 0 -0.074496 0.0010475 NaN 44.407 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 739480 10726 552 6786 6803 0.14073434705096588 IITPIHEQW 9 Unmodified _IITPIHEQW_ 0 0 0 ENST00000484891.1_1_20:1115545-1145721:+|nuORF;ENSG00000125818|ENST00000335877|PSMF1 ENST00000484891.1_1_20:1115545-1145721:+|nuORF ENST00000484891.1_1_20:1115545-1145721:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.81103515625 2 568.808574 1135.60259 3.3685 0.001916 0.71406 0.00040617 4.0826 0.0023222 568.8095391840479 55.793 0.21654 56.058 55.961 56.177 0.26543 14 8 2 0 0 0 0.035698 1 25510 25510 57.722 11.701 1 725990 10727 2425 6787 6804 12589 12589 0.04021718368676375 IITPIHEQW 9 Unmodified _IITPIHEQW_ 0 0 0 ENST00000484891.1_1_20:1115545-1145721:+|nuORF;ENSG00000125818|ENST00000335877|PSMF1 ENST00000484891.1_1_20:1115545-1145721:+|nuORF ENST00000484891.1_1_20:1115545-1145721:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.81103515625 2 568.808574 1135.60259 3.575 0.0020335 0.94766 0.00053904 4.5226 0.0025725 568.809051835491 54.983 0.2437 55.651 55.56 55.803 0.66798 24 10 3 0 0 0 0.068032 1 25209 25209 36.506 5.8697 1 673640 10728 2425 6787 6804 12590 12590 0.04021718368676375 IITPIHEQW 9 Unmodified _IITPIHEQW_ 0 0 0 ENST00000484891.1_1_20:1115545-1145721:+|nuORF;ENSG00000125818|ENST00000335877|PSMF1 ENST00000484891.1_1_20:1115545-1145721:+|nuORF ENST00000484891.1_1_20:1115545-1145721:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 568.808574 1135.60259 3.2819 0.0018668 1.1669 0.00066375 4.4488 0.0025305 568.8088461028968 55.862 0.18383 55.862 55.793 55.977 0 0.052197 0.00018884 NaN 57.722 24 13 2 NaN NaN NaN NaN 0 NaN NaN 0 958960 10729 2425 6787 6804 0.04021718368676375 IKAAWLKATIP 11 Unmodified _IKAAWLKATIP_ 0 0 0 ENSG00000111536|ENST00000229134|IL26 ENSG00000111536|ENST00000229134|IL26 ENSG00000111536|ENST00000229134|IL26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.5898742675781 3 404.588536 1210.74378 2.7306 0.0011048 0.78051 0.00031579 3.5111 0.0014206 404.5887371510544 32.215 0.89974 32.215 31.925 32.825 0 148 76 2 0 0 0 0.91104 1 14702 14702 1.2148 0.4383 1 1283300 10730 1764 6788 6805 12591 12591 0.14683716741933495 IKCGGGRL 8 Unmodified _IKCGGGRL_ 0 0 0 HERVH-int_dup515|chr2:34793914-34794525:+|2.1477617939098304|0.3159007483226581|2.77|519.0|29|2|anti-sense HERVH-int_dup515|chr2:34793914-34794525:+|2.1477617939098304|0.3159007483226581|2.77|519.0|29|2|anti-sense HERVH-int_dup515|chr2:34793914-34794525:+|2.1477617939098304|0.3159007483226581|2.77|519.0|29|2|anti-sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 402.2325134277344 2 402.231448 802.448342 2.9112 0.001171 -1.5259 -0.00061378 1.3853 0.00055721 402.230815753686 43.541 0.45263 43.811 43.563 44.015 0.27021 28 19 2 0 0 0 0.7441 1 19878 19878 2.3027 0 1 396520 10731 9405 6789 6806 12592 12592 0.039216104022898435 IKCRSTGTK 9 Unmodified _IKCRSTGTK_ 0 0 0 REV__L1PA2_dup678|chr2:208811622-208817648:+|1.9073773458579988|0.2448110861201761|2.96|525.0|78|2|sense REV__L1PA2_dup678|chr2:208811622-208817648:+|1.9073773458579988|0.2448110861201761|2.96|525.0|78|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.28125 2 497.279126 992.543699 3.4015 0.0016915 0.53437 0.00026573 3.9359 0.0019572 497.278929218571 48.21 0.23364 48.472 48.319 48.552 0.26209 14 8 2 0 0 0 0.89849 1 22051 22051 5.7319 1.4026 1 443730 + 10732 17783 6790 6807 12593 12593 0.047129188026929114 IKCYRPRI 8 Unmodified _IKCYRPRI_ 0 0 0 REV__ENSG00000149150|ENST00000278426|SLC43A1 REV__ENSG00000149150|ENST00000278426|SLC43A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.2079162597656 3 350.207661 1047.60115 NaN NaN NaN NaN NaN NaN NaN 43.121 1 43.77 43.27 44.27 0.64872 0 0 0 0.99035 1 19760 19760 3.9444 0.3479 1 + 10733 12559 6791 6808 12594 12594 0.07925805798913643 IKCYYLTL 8 Unmodified _IKCYYLTL_ 0 0 0 REV__ENST00000367660.3_1_6:139364011-139364086:+|nuORF REV__ENST00000367660.3_1_6:139364011-139364086:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.2782287597656 2 508.777896 1015.54124 3.103 0.0015787 0.40199 0.00020453 3.505 0.0017833 508.7782305168046 49.423 0.18214 49.423 49.344 49.526 0 9 7 2 0 0 0 0.14146 1 22660 22660 5.2307 0.47466 1 452340 + 10734 15668 6792 6809 12595 12595 0.03409070345003329 IKEPLHRVR 9 Unmodified _IKEPLHRVR_ 0 0 0 REV__ENSG00000137501|ENST00000359152|SYTL2 REV__ENSG00000137501|ENST00000359152|SYTL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.35400390625 2 574.356557 1146.69856 NaN NaN NaN NaN NaN NaN NaN 10.192 1 10.487 9.9873 10.987 0.2956 0 0 0 0.91238 1 4491 4491 0.52476 0 1 + 10735 12115 6793 6810 12596 12596 0.13107910999406158 IKERAVEWEDP 11 Unmodified _IKERAVEWEDP_ 0 0 0 REV__ENSG00000140443|ENST00000650285|IGF1R REV__ENSG00000140443|ENST00000650285|IGF1R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 686.3488159179688 2 686.348791 1370.68303 NaN NaN NaN NaN NaN NaN NaN 63.23 1 63.23 62.73 63.73 0 0 0 0 1.0047 1 29726 29726 4.5289 1.2476 1 + 10736 12246 6794 6811 12597 12597 0.012515349010527643 IKERLQNQITK 11 Unmodified _IKERLQNQITK_ 0 0 0 REV__ITGAM|p.D529Tfs*2|1|0.31|ENSG00000169896|chr16:31297828-31297828|G/-|frameshift_variant REV__ITGAM|p.D529Tfs*2|1|0.31|ENSG00000169896|chr16:31297828-31297828|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.6096496582031 3 457.608659 1369.80415 3.4933 0.0015986 -0.79044 -0.00036171 2.7029 0.0012369 457.60823584062376 95.514 1.4489 95.781 95.139 96.588 0.2675 193 82 3 0 0 0 0.91184 1 43866 43866 1.0136 0 1 1246800 + 10737 13404 6795 6812 12598 12598 0.13403782334330572 IKERLQNQITK 11 Unmodified _IKERLQNQITK_ 0 0 0 REV__ITGAM|p.D529Tfs*2|1|0.31|ENSG00000169896|chr16:31297828-31297828|G/-|frameshift_variant REV__ITGAM|p.D529Tfs*2|1|0.31|ENSG00000169896|chr16:31297828-31297828|G/-|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 457.608659 1369.80415 3.4933 0.0015986 -0.79044 -0.00036171 2.7029 0.0012369 457.60823584062376 95.514 1.4489 95.781 95.139 96.588 0.2675 0.096747 -1.5117E-05 NaN 1.0136 193 82 3 NaN NaN NaN NaN 0 NaN NaN 0 1246800 + 10738 13404 6795 6812 0.13403782334330572 IKERLQNQITK 11 Unmodified _IKERLQNQITK_ 0 0 0 REV__ITGAM|p.D529Tfs*2|1|0.31|ENSG00000169896|chr16:31297828-31297828|G/-|frameshift_variant REV__ITGAM|p.D529Tfs*2|1|0.31|ENSG00000169896|chr16:31297828-31297828|G/-|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 457.608659 1369.80415 3.1411 0.0014374 -0.76643 -0.00035072 2.3746 0.0010866 457.60827451486574 94.97 0.94132 95.588 94.942 95.884 0.61737 -0.096747 1.7845E-05 NaN 1.0136 128 52 4 NaN NaN NaN NaN 0 NaN NaN 0 1783600 + 10739 13404 6795 6812 0.13403782334330572 IKEVPLSLPNR 11 Unmodified _IKEVPLSLPNR_ 0 0 0 REV__ENSG00000115904|ENST00000402219|SOS1 REV__ENSG00000115904|ENST00000402219|SOS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.5950012207031 3 422.590717 1264.75032 NaN NaN NaN NaN NaN NaN NaN 51.584 1 51.584 51.084 52.084 0 0 0 0 1.0074 1 23615 23615 0.36667 0 1 + 10740 11386 6796 6813 12599 12599 0.12853609902640528 IKFYRMRHHYK 11 Unmodified _IKFYRMRHHYK_ 0 0 0 ENSG00000134758|ENST00000261593|RNF138 ENSG00000134758|ENST00000261593|RNF138 ENSG00000134758|ENST00000261593|RNF138 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 789.9287109375 2 789.927355 1577.84016 NaN NaN NaN NaN NaN NaN NaN 29.917 1 30.706 30.206 31.206 0.78921 0 0 0 1.0082 1 13500 13500 0.30703 0.03801 1 10741 2827 6797 6814 12600 12600 0.07434961030230625 IKGIQLRKEE 10 Unmodified _IKGIQLRKEE_ 0 0 0 L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|158|3|sense L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|158|3|sense L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|158|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.2467346191406 3 405.24695 1212.71902 NaN NaN NaN NaN NaN NaN NaN 76.089 1 76.713 76.213 77.213 0.62397 0 0 0 0.99995 1 36860 36860 1.7423 0 1 10742 9467 6798 6815 12601 12601 0.12117036868562536 IKHGDLLFL 9 Unmodified _IKHGDLLFL_ 0 0 0 ENSG00000182446|ENST00000331134|NPLOC4;nc|ENSG00000182446|Q8TAT6-2|NPLOC4;ENST00000570300.1_1_17:79575918-79596804:-|nuORF ENSG00000182446|ENST00000331134|NPLOC4 ENSG00000182446|ENST00000331134|NPLOC4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.10009765625 3 352.546449 1054.61752 2.6524 0.00093509 -1.8281 -0.0006445 0.82425 0.00029059 352.87974107699426 42.492 0.12909 42.762 42.681 42.81 0.27021 6 4 2 0 0 0 0.11288 1 19369 19369 1.0715 0.67075 1 243010 10743 5333 6799 6816 12602 12602 0.09239210236660256 IKIIRPLTV 9 Unmodified _IKIIRPLTV_ 0 0 0 ENSG00000111271|ENST00000313698|ACAD10;nc|ENSG00000111271|Q6JQN1-5|ACAD10;nc|ENSG00000111271|Q6JQN1-3|ACAD10;ENST00000508303.5_1_12:112159488-112186840:+|nuORF;nc|ENSG00000111271|Q6JQN1-2|ACAD10;ENST00000413681.7_1_12:112130513-112186840:+|nuORF ENSG00000111271|ENST00000313698|ACAD10 ENSG00000111271|ENST00000313698|ACAD10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.5784606933594 3 351.57786 1051.71175 NaN NaN NaN NaN NaN NaN NaN 32.886 1 32.886 32.386 33.386 0 0 0 0 0.91059 1 14895 14895 0.96228 0 1 10744 1751 6800 6817 12603 12603 0.18796349058766282 IKIIRPLTV 9 Unmodified _IKIIRPLTV_ 0 0 0 ENSG00000111271|ENST00000313698|ACAD10;nc|ENSG00000111271|Q6JQN1-5|ACAD10;nc|ENSG00000111271|Q6JQN1-3|ACAD10;ENST00000508303.5_1_12:112159488-112186840:+|nuORF;nc|ENSG00000111271|Q6JQN1-2|ACAD10;ENST00000413681.7_1_12:112130513-112186840:+|nuORF ENSG00000111271|ENST00000313698|ACAD10 ENSG00000111271|ENST00000313698|ACAD10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.5787353515625 3 351.57786 1051.71175 NaN NaN NaN NaN NaN NaN NaN 37.391 1 37.391 36.891 37.891 0 0 0 0 0.91059 1 16967 16967 0.96228 0 1 10745 1751 6800 6817 12604 12604 0.18796349058766282 IKIIRPLTV 9 Unmodified _IKIIRPLTV_ 0 0 0 ENSG00000111271|ENST00000313698|ACAD10;nc|ENSG00000111271|Q6JQN1-5|ACAD10;nc|ENSG00000111271|Q6JQN1-3|ACAD10;ENST00000508303.5_1_12:112159488-112186840:+|nuORF;nc|ENSG00000111271|Q6JQN1-2|ACAD10;ENST00000413681.7_1_12:112130513-112186840:+|nuORF ENSG00000111271|ENST00000313698|ACAD10 ENSG00000111271|ENST00000313698|ACAD10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.5784606933594 3 351.57786 1051.71175 NaN NaN NaN NaN NaN NaN NaN 30.135 1 30.924 30.424 31.424 0.78921 0 0 0 0.91059 1 13603 13603 0.96228 0 1 10746 1751 6800 6817 12605 12605 0.18796349058766282 IKIIRPLTV 9 Unmodified _IKIIRPLTV_ 0 0 0 ENSG00000111271|ENST00000313698|ACAD10;nc|ENSG00000111271|Q6JQN1-5|ACAD10;nc|ENSG00000111271|Q6JQN1-3|ACAD10;ENST00000508303.5_1_12:112159488-112186840:+|nuORF;nc|ENSG00000111271|Q6JQN1-2|ACAD10;ENST00000413681.7_1_12:112130513-112186840:+|nuORF ENSG00000111271|ENST00000313698|ACAD10 ENSG00000111271|ENST00000313698|ACAD10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.578369140625 3 351.57786 1051.71175 NaN NaN NaN NaN NaN NaN NaN 31.073 1 31.329 30.829 31.829 0.25614 0 0 0 0.91059 1 14143 14143 0.96228 0 1 10747 1751 6800 6817 12606 12606 0.18796349058766282 IKIIRPLTV 9 Unmodified _IKIIRPLTV_ 0 0 0 ENSG00000111271|ENST00000313698|ACAD10;nc|ENSG00000111271|Q6JQN1-5|ACAD10;nc|ENSG00000111271|Q6JQN1-3|ACAD10;ENST00000508303.5_1_12:112159488-112186840:+|nuORF;nc|ENSG00000111271|Q6JQN1-2|ACAD10;ENST00000413681.7_1_12:112130513-112186840:+|nuORF ENSG00000111271|ENST00000313698|ACAD10 ENSG00000111271|ENST00000313698|ACAD10 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.2439880371094 3 351.57786 1051.71175 2.3925 0.00084114 -0.76072 -0.00026745 1.6317 0.00057369 351.5775289430595 34.255 0.41668 34.878 34.776 35.192 0.62294 20 15 2 0 0 0 0.11402 1 15723 15723 0.96228 0 1 280560 10748 1751 6800 6817 12607 12607 0.18796349058766282 IKILKQEK 8 Unmodified _IKILKQEK_ 0 0 0 REV__nc|ENSG00000139144|O75747-2|PIK3C2G REV__nc|ENSG00000139144|O75747-2|PIK3C2G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.3336181640625 2 500.331685 998.648816 2.9225 0.0014622 1.0734 0.00053704 3.9958 0.0019992 500.3320685911314 35.737 0.24147 35.737 35.604 35.845 0 23 11 3 0 0 0 0.029809 1 16217 16217 78.149 2.3886 1 955340 + 10749 12202 6801 6818 12608 12608 0.1494378327074628 IKILKQEK 8 Unmodified _IKILKQEK_ 0 0 0 REV__nc|ENSG00000139144|O75747-2|PIK3C2G REV__nc|ENSG00000139144|O75747-2|PIK3C2G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.3327331542969 2 500.331685 998.648816 2.9853 0.0014937 0.4549 0.0002276 3.4402 0.0017213 500.3320372337624 34.79 0.27917 35.579 35.447 35.726 0.78921 35 21 2 0 0 0 0.042878 1 15748 15748 68.081 1.624 1 1376300 + 10750 12202 6801 6818 12609 12609 0.1494378327074628 IKILKQEK 8 Unmodified _IKILKQEK_ 0 0 0 REV__nc|ENSG00000139144|O75747-2|PIK3C2G REV__nc|ENSG00000139144|O75747-2|PIK3C2G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.333984375 2 500.331685 998.648816 3.2634 0.0016328 0.50092 0.00025062 3.7643 0.0018834 500.3319064599032 35.132 0.2351 35.755 35.631 35.866 0.62294 20 11 2 0 0 0 0.059272 1 16083 16083 62.573 0.97078 1 777210 + 10751 12202 6801 6818 12610 12610 0.1494378327074628 IKILKQEK 8 Unmodified _IKILKQEK_ 0 0 0 REV__nc|ENSG00000139144|O75747-2|PIK3C2G REV__nc|ENSG00000139144|O75747-2|PIK3C2G MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 500.331685 998.648816 2.9225 0.0014622 1.0734 0.00053704 3.9958 0.0019992 500.3320685911314 35.737 0.24147 35.737 35.604 35.845 0 0.022186 0.00049563 NaN 78.149 23 11 3 NaN NaN NaN NaN 0 NaN NaN 0 955340 + 10752 12202 6801 6818 0.1494378327074628 IKILKQEK 8 Unmodified _IKILKQEK_ 0 0 0 REV__nc|ENSG00000139144|O75747-2|PIK3C2G REV__nc|ENSG00000139144|O75747-2|PIK3C2G MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 500.331685 998.648816 2.9853 0.0014937 0.4549 0.0002276 3.4402 0.0017213 500.3320372337624 34.79 0.27917 35.579 35.447 35.726 0.78921 -0.13536 -0.00012325 NaN 78.149 35 21 2 NaN NaN NaN NaN 0 NaN NaN 0 1376300 + 10753 12202 6801 6818 0.1494378327074628 IKILKQEK 8 Unmodified _IKILKQEK_ 0 0 0 REV__nc|ENSG00000139144|O75747-2|PIK3C2G REV__nc|ENSG00000139144|O75747-2|PIK3C2G MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 500.331685 998.648816 3.2634 0.0016328 0.50092 0.00025062 3.7643 0.0018834 500.3319064599032 35.132 0.2351 35.755 35.631 35.866 0.62294 0.040462 -7.7204E-05 NaN 78.149 20 11 2 NaN NaN NaN NaN 0 NaN NaN 0 777210 + 10754 12202 6801 6818 0.1494378327074628 IKILLKRRGVK 11 Unmodified _IKILLKRRGVK_ 0 0 0 HERVK-int_dup102|chr7:4583489-4590929:-|1.365261944516419|0.4463608682754711|1.61|525.0|122|3|sense HERVK-int_dup102|chr7:4583489-4590929:-|1.365261944516419|0.4463608682754711|1.61|525.0|122|3|sense HERVK-int_dup102|chr7:4583489-4590929:-|1.365261944516419|0.4463608682754711|1.61|525.0|122|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 662.4708251953125 2 662.469181 1322.92381 NaN NaN NaN NaN NaN NaN NaN 103.96 1 103.96 103.46 104.46 0 0 0 0 1.0082 1 57249 57249 0 0 1 10755 9407 6802 6819 12611 12611 0.27526440469546287 IKITAPPKRKY 11 Unmodified _IKITAPPKRKY_ 0 0 0 ENST00000418351.1_1_15:44281261-44281585:-|nuORF ENST00000418351.1_1_15:44281261-44281585:-|nuORF ENST00000418351.1_1_15:44281261-44281585:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 438.9449462890625 3 438.946724 1313.81834 NaN NaN NaN NaN NaN NaN NaN 65.343 1 66.052 65.552 66.552 0.70891 0 0 0 1.0065 1 30896 30896 2.2527 0.79761 1 10756 7733 6803 6820 12612 12612 0.17398479553321522 IKKEKVLL 8 Unmodified _IKKEKVLL_ 0 0 0 nc|ENSG00000112640|Q14738-3|PPP2R5D;nc|ENSG00000112640|Q14738-2|PPP2R5D;ENSG00000112640|ENST00000485511|PPP2R5D nc|ENSG00000112640|Q14738-3|PPP2R5D nc|ENSG00000112640|Q14738-3|PPP2R5D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 324.2277526855469 3 324.226827 969.658653 2.2909 0.00074278 -0.21039 -6.8214E-05 2.0805 0.00067457 324.2267074659159 26.04 0.21915 26.04 25.98 26.199 0 44 26 2 0 0 0 0.3435 2 11704 11704;11753 26.268 0 1 3826700 10757 1814 6804 6821 12613;12614 12613 0.17260971276130022 IKKEKVLL 8 Unmodified _IKKEKVLL_ 0 0 0 nc|ENSG00000112640|Q14738-3|PPP2R5D;nc|ENSG00000112640|Q14738-2|PPP2R5D;ENSG00000112640|ENST00000485511|PPP2R5D nc|ENSG00000112640|Q14738-3|PPP2R5D nc|ENSG00000112640|Q14738-3|PPP2R5D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 324.2277526855469 3 324.226827 969.658653 2.088 0.000677 0.29631 9.6073E-05 2.3844 0.00077307 324.2268355518815 25.196 0.26138 25.959 25.829 26.09 0.76357 65 22 4 0 0 0 0.61796 1 11353 11353 9.3831 2.66 1 3359000 10758 1814 6804 6821 12615 12615 0.17260971276130022 IKKEKVLL 8 Unmodified _IKKEKVLL_ 0 0 0 nc|ENSG00000112640|Q14738-3|PPP2R5D;nc|ENSG00000112640|Q14738-2|PPP2R5D;ENSG00000112640|ENST00000485511|PPP2R5D nc|ENSG00000112640|Q14738-3|PPP2R5D nc|ENSG00000112640|Q14738-3|PPP2R5D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.2273864746094 3 324.226827 969.658653 2.4526 0.00079521 0.027791 9.0107E-06 2.4804 0.00080422 324.22680269872467 25.587 0.33117 25.855 25.691 26.022 0.26777 86 33 3 0 0 0 0.3435 2 11575 11575;11619 26.268 9.1552 1 5278500 10759 1814 6804 6821 12616;12617 12616 0.17260971276130022 IKKEKVLL 8 Unmodified _IKKEKVLL_ 0 0 0 nc|ENSG00000112640|Q14738-3|PPP2R5D;nc|ENSG00000112640|Q14738-2|PPP2R5D;ENSG00000112640|ENST00000485511|PPP2R5D nc|ENSG00000112640|Q14738-3|PPP2R5D nc|ENSG00000112640|Q14738-3|PPP2R5D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.2268371582031 3 324.226827 969.658653 2.112 0.00068478 0.036296 1.1768E-05 2.1483 0.00069654 324.2268910463735 25.221 0.23451 25.85 25.752 25.986 0.62915 69 38 2 0 0 0 0.3435 2 11601 11515;11601 26.268 9.1552 1 3297900 10760 1814 6804 6821 12618;12619 12619 0.17260971276130022 IKKIKKKLLRF 11 Unmodified _IKKIKKKLLRF_ 0 0 0 REV__Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|24|1|sense REV__Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|24|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 708.0001831054688 2 708.002857 1413.99116 NaN NaN NaN NaN NaN NaN NaN 92.247 1 92.247 91.747 92.747 0 0 0 0 1.008 1 48969 48969 0.30703 0.30703 1 + 10761 17723 6805 6822 12620 12620 0.30072470680534025 IKKKKKKKHR 10 Unmodified _IKKKKKKKHR_ 0 0 0 nc|ENSG00000081019|Q5VWQ0-4|RSBN1;RSBN1|p.N713Mfs*14|1|0.06|ENSG00000081019|chr1:113766251-113766252|-/GATATGTACATATTCAAACACA|frameshift_variant;ENSG00000081019|ENST00000261441|RSBN1 nc|ENSG00000081019|Q5VWQ0-4|RSBN1 nc|ENSG00000081019|Q5VWQ0-4|RSBN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 661.4667358398438 2 661.466973 1320.91939 NaN NaN NaN NaN NaN NaN NaN 67.382 1 68.039 67.539 68.539 0.65777 0 0 0 1.002 1 30887 30887 0 0 1 10762 916 6806 6823 12621 12621 0.27176976046666823 IKKKKKLAKK 10 Unmodified _IKKKKKLAKK_ 0 0 0 REV__nc|ENSG00000075856|Q15020-4|SART3 REV__nc|ENSG00000075856|Q15020-4|SART3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 606.947265625 2 606.94755 1211.88055 NaN NaN NaN NaN NaN NaN NaN 82.523 1 82.523 82.023 83.023 0 0 0 0 1.002 1 41348 41348 0 0 1 + 10763 10536 6807 6824 12622 12622 0.2830825069229377 IKKKLLFLFPK 11 Unmodified _IKKKLLFLFPK_ 0 0 0 REV__nc|ENSG00000175054|Q13535-2|ATR REV__nc|ENSG00000175054|Q13535-2|ATR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 687.9653930664062 2 687.965409 1373.91626 NaN NaN NaN NaN NaN NaN NaN 22.307 1 22.307 21.807 22.807 0 0 0 0 1.0082 1 9999 9999 0 0 1 + 10764 13656 6808 6825 12623 12623 0.24426288149288666 IKKKRQNIFHW 11 Unmodified _IKKKRQNIFHW_ 0 0 0 REV__Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|49|2|sense REV__Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|49|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 749.4448852539062 2 749.443695 1496.87284 NaN NaN NaN NaN NaN NaN NaN 57.935 1 58.197 57.697 58.697 0.26227 0 0 0 1.0082 1 26525 26525 0.35063 0.043601 1 + 10765 17715 6809 6826 12624 12624 0.14427491424726213 IKKLCLTET 9 Unmodified _IKKLCLTET_ 0 0 0 REV__ENST00000359933.5_1_14:96749930-96750203:-|nuORF REV__ENST00000359933.5_1_14:96749930-96750203:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.2071838378906 3 350.207216 1047.59982 NaN NaN NaN NaN NaN NaN NaN 54.745 1 55.54 55.04 56.04 0.79552 0 0 0 0.90335 1 24983 24983 2.7352 1.0826 1 + 10766 15602 6810 6827 12625 12625 0.07792126919480324 IKKLHLQLMS 10 Unmodified _IKKLHLQLMS_ 0 0 0 REV__CD44|p.T111Rfs*38|1|0.04|ENSG00000026508|chr11:35180371-35180372|-/GACACCCC|frameshift_variant REV__CD44|p.T111Rfs*38|1|0.04|ENSG00000026508|chr11:35180371-35180372|-/GACACCCC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.439453125 4 303.438964 1209.72675 2.1444 0.00065071 -0.82344 -0.00024986 1.321 0.00040084 303.43866751916653 58.892 0.50292 59.559 59.245 59.748 0.66703 83 23 4 0 0 0 0.93372 1 26929 26929 2.086 0.17963 1 4294000 + 10767 9996 6811 6828 12626 12626 0.13027472864496303 IKKLMGSTE 9 Unmodified _IKKLMGSTE_ 0 0 0 ENSG00000203326|ENST00000474037|ZNF525 ENSG00000203326|ENST00000474037|ZNF525 ENSG00000203326|ENST00000474037|ZNF525 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 336.1918029785156 3 336.191565 1005.55287 NaN NaN NaN NaN NaN NaN NaN 29.403 1 29.403 28.903 29.903 0 0 0 0 0.89683 1 13269 13269 2.4985 0 1 10768 5971 6812 6829 12627 12627 0.0503126736834929 IKKNRFHI 8 Unmodified _IKKNRFHI_ 0 0 0 ENST00000274030.10_1_4:120160492-120160642:+|nuORF ENST00000274030.10_1_4:120160492-120160642:+|nuORF ENST00000274030.10_1_4:120160492-120160642:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.5550842285156 3 352.553937 1054.63998 2.6049 0.00091835 -1.1384 -0.00040135 1.4664 0.000517 352.5534364418497 13.45 0.18504 13.45 13.283 13.468 0 40 20 3 0 0 0 0.51067 1 5844 5844 20.454 5.6154 1 2059200 10769 6664 6813 6830 12628 12628 0.11484854424929836 IKKPCLRA 8 Unmodified _IKKPCLRA_ 0 0 0 REV__ENST00000530523.1_1_8:42580956-42581139:-|nuORF REV__ENST00000530523.1_1_8:42580956-42581139:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 310.1968688964844 3 310.196874 927.568792 NaN NaN NaN NaN NaN NaN NaN 26.262 1 26.527 26.027 27.027 0.26489 0 0 0 0.99035 1 11930 11930 1.6526 1.1943 1 + 10770 17135 6814 6831 12629 12629 0.10211018395898463 IKKQGLTFRI 10 Unmodified _IKKQGLTFRI_ 0 0 0 REV__nc|ENSG00000166833|Q8IVL1-8|NAV2 REV__nc|ENSG00000166833|Q8IVL1-8|NAV2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 401.9246826171875 3 401.923919 1202.74993 3.1603 0.0012702 -0.029872 -1.2006E-05 3.1304 0.0012582 401.92380415725023 45.302 0.3163 45.954 45.781 46.097 0.65104 33 13 4 0 0 0 0.65694 1 20791 20791 9.7643 0 1 947350 + 10771 18028 6815 6832 12630 12630 0.1566623497344608 IKKRKAKKKKF 11 Unmodified _IKKRKAKKKKF_ 0 0 0 REV__ENSG00000134077|ENST00000452837|THUMPD3 REV__ENSG00000134077|ENST00000452837|THUMPD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 701.98876953125 2 701.990281 1401.96601 NaN NaN NaN NaN NaN NaN NaN 67.284 1 67.941 67.441 68.441 0.65777 0 0 0 1.0082 1 30842 30842 0 0 1 + 10772 11952 6816 6833 12631 12631 0.2811041587794989 IKLKLKLHV 9 Unmodified _IKLKLKLHV_ 0 0 0 REV__POLI|p.G322Dfs*33|1|0.28|ENSG00000101751|chr18:54283004-54283004|G/-|frameshift_variant REV__POLI|p.G322Dfs*33|1|0.28|ENSG00000101751|chr18:54283004-54283004|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.4158325195312 2 546.386794 1090.75904 NaN NaN NaN NaN NaN NaN NaN 68.288 1 68.288 67.788 68.788 0 0 0 0 0.90699 1 32871 32871 1.8442 1.2427 1 + 10773 18202 6817 6834 12632 12632 0.2172862832978808 IKLKSESLK 9 Unmodified _IKLKSESLK_ 0 0 0 REV__ENSG00000204130|ENST00000602465|RUFY2 REV__ENSG00000204130|ENST00000602465|RUFY2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 349.2262268066406 3 349.225375 1044.6543 2.4993 0.00087283 0.51791 0.00018087 3.0172 0.0010537 349.2255149623023 14.806 0.44312 14.806 14.638 15.081 0 117 47 3 0 0 0 0.70688 1 6573 6573 8.9762 1.3673 1 615170 + 10774 14399 6818 6835 12633 12633 0.1337546206254956 IKLWKNWIKW 10 Unmodified _IKLWKNWIKW_ 0 0 0 REV__NOC3L|p.L309Wfs*16|1|0.31|ENSG00000173145|chr10:94352336-94352336|A/-|frameshift_variant REV__NOC3L|p.L309Wfs*16|1|0.31|ENSG00000173145|chr10:94352336-94352336|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.2886657714844 3 472.283447 1413.82851 3.6353 0.0017169 0.56007 0.00026451 4.1954 0.0019814 472.28366678739286 95.1 0.81391 95.367 94.879 95.693 0.2675 105 50 3 0 0 0 0.94364 2 43489 43489;43659 0.15932 0.064481 1 682270 + 10775 18189 6819 6836 12634;12635 12634 0.13815087278521787 IKMIDLGLVLH 11 Unmodified _IKMIDLGLVLH_ 0 0 0 nc|ENSG00000141837|O00555-5|CACNA1A;nc|ENSG00000141837|O00555-3|CACNA1A;nc|ENSG00000141837|O00555-2|CACNA1A;nc|ENSG00000141837|O00555-6|CACNA1A;nc|ENSG00000141837|O00555-4|CACNA1A;ENSG00000141837|ENST00000360228|CACNA1A;CACNA1A|p.L1543Dfs*51|1|0.31|ENSG00000141837|chr19:13255223-13255224|GC/-|frameshift_variant nc|ENSG00000141837|O00555-5|CACNA1A;CACNA1A|p.L1543Dfs*51|1|0.31|ENSG00000141837|chr19:13255223-13255224|GC/-|frameshift_variant nc|ENSG00000141837|O00555-5|CACNA1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 314.19720458984375 4 313.692793 1250.74206 2.0637 0.00064736 -0.16654 -5.2242E-05 1.8972 0.00059512 313.69244204396546 40.233 0.49656 40.233 39.845 40.341 0 68 18 4 0 0 0 0.91345 1 18096 18096 0.45452 0.45452 1 6241200 10776 3287;95 6820 6837 12636 12636 0.1267233966166259 IKMIDLGLVLH 11 Unmodified _IKMIDLGLVLH_ 0 0 0 nc|ENSG00000141837|O00555-5|CACNA1A;nc|ENSG00000141837|O00555-3|CACNA1A;nc|ENSG00000141837|O00555-2|CACNA1A;nc|ENSG00000141837|O00555-6|CACNA1A;nc|ENSG00000141837|O00555-4|CACNA1A;ENSG00000141837|ENST00000360228|CACNA1A;CACNA1A|p.L1543Dfs*51|1|0.31|ENSG00000141837|chr19:13255223-13255224|GC/-|frameshift_variant nc|ENSG00000141837|O00555-5|CACNA1A;CACNA1A|p.L1543Dfs*51|1|0.31|ENSG00000141837|chr19:13255223-13255224|GC/-|frameshift_variant nc|ENSG00000141837|O00555-5|CACNA1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.1970520019531 4 313.692793 1250.74206 2.3043 0.00072285 -0.26772 -8.3981E-05 2.0366 0.00063887 313.69235544528976 39.805 0.677 40.072 39.578 40.255 0.26696 78 24 4 0 0 0 0.91345 1 17898 17898 0.45452 0.45452 1 5143400 10777 3287;95 6820 6837 12637 12637 0.1267233966166259 IKMIDLGLVLH 11 Unmodified _IKMIDLGLVLH_ 0 0 0 nc|ENSG00000141837|O00555-5|CACNA1A;nc|ENSG00000141837|O00555-3|CACNA1A;nc|ENSG00000141837|O00555-2|CACNA1A;nc|ENSG00000141837|O00555-6|CACNA1A;nc|ENSG00000141837|O00555-4|CACNA1A;ENSG00000141837|ENST00000360228|CACNA1A;CACNA1A|p.L1543Dfs*51|1|0.31|ENSG00000141837|chr19:13255223-13255224|GC/-|frameshift_variant nc|ENSG00000141837|O00555-5|CACNA1A;CACNA1A|p.L1543Dfs*51|1|0.31|ENSG00000141837|chr19:13255223-13255224|GC/-|frameshift_variant nc|ENSG00000141837|O00555-5|CACNA1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 314.1968994140625 4 313.692793 1250.74206 2.336 0.0007328 -0.56126 -0.00017606 1.7748 0.00055673 313.6923627605265 39.892 1.0868 40.533 39.686 40.772 0.64136 87 45 3 0 0 0 0.91345 1 17882 17882 0.45452 0.45452 1 7574300 10778 3287;95 6820 6837 12638 12638 0.1267233966166259 IKPAVKHL 8 Unmodified _IKPAVKHL_ 0 0 0 REV__ENSG00000128683|ENST00000358196|GAD1 REV__ENSG00000128683|ENST00000358196|GAD1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.1969909667969 3 302.535884 904.585822 2.1381 0.00064685 0.33069 0.00010004 2.4688 0.00074689 302.53597064924105 17.555 0.33444 18.216 18.02 18.355 0.66072 67 36 2 0 0 0 0.14244 1 7880 7880 3.5965 1.7523 1 2281700 + 10779 11768 6821 6838 12639 12639 0.12971262273367756 IKPQLTCM 8 Unmodified _IKPQLTCM_ 0 0 0 REV__L1PREC2_dup3026|chr6:106728714-106729553:+|1.824721313870998|0.1686757992366395|3.44|534.0|26|3|sense REV__L1PREC2_dup3026|chr6:106728714-106729553:+|1.824721313870998|0.1686757992366395|3.44|534.0|26|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.25140380859375 2 467.248449 932.482345 3.075 0.0014368 1.0339 0.00048309 4.109 0.0019199 467.25012894444234 100.48 0.7064 101.08 101 101.71 0.59717 75 25 4 0 0 0 0.7441 1 46760 46760 2.3027 1.5091 1 3460800 + 10780 17815 6822 6839 12640 12640 0.013402707790191926 IKPQLTCM 8 Unmodified _IKPQLTCM_ 0 0 0 REV__L1PREC2_dup3026|chr6:106728714-106729553:+|1.824721313870998|0.1686757992366395|3.44|534.0|26|3|sense REV__L1PREC2_dup3026|chr6:106728714-106729553:+|1.824721313870998|0.1686757992366395|3.44|534.0|26|3|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 467.248449 932.482345 3.6207 0.0016918 0.35877 0.00016763 3.9795 0.0018594 467.25001231136605 100.6 0.86938 100.92 100.85 101.72 0.31412 -0.079715 -0.00035333 NaN 2.3027 79 31 4 NaN NaN NaN NaN 0 NaN NaN 0 4044400 + 10781 17815 6822 6839 0.013402707790191926 IKQGKKWR 8 Unmodified _IKQGKKWR_ 0 0 0 REV__ITGA9|p.H902Lfs*11|1|0.44|ENSG00000144668|chr3:37779939-37779951|ACTGTAACTTTAG/-|frameshift_variant REV__ITGA9|p.H902Lfs*11|1|0.44|ENSG00000144668|chr3:37779939-37779951|ACTGTAACTTTAG/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 348.55462646484375 3 348.553937 1042.63998 2.4805 0.00086457 -0.91976 -0.00032059 1.5607 0.00054399 348.55358031624905 14.259 0.098294 14.259 14.233 14.331 0 12 6 3 0 0 0 0.65723 1 6296 6296 6.7232 1.8262 1 459410 + 10782 12410 6823 6840 12641 12641 0.12036854424923149 IKQKYNKKK 9 Unmodified _IKQKYNKKK_ 0 0 0 L1PBa_dup1914|chr16:20454552-20458311:+|1.873729371871474|0.2397336971051269|2.97|524.0|13|1|sense L1PBa_dup1914|chr16:20454552-20458311:+|1.873729371871474|0.2397336971051269|2.97|524.0|13|1|sense L1PBa_dup1914|chr16:20454552-20458311:+|1.873729371871474|0.2397336971051269|2.97|524.0|13|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.2529296875 3 393.252036 1176.73428 3.2434 0.0012755 -1.0733 -0.00042206 2.1701 0.00085341 393.25154832547304 10.239 0.45044 10.873 10.619 11.07 0.63304 80 39 3 0 0 0 1.129 1 4606 4606 0.96228 0.33545 1 142460 10783 9485 6824 6841 12642 12642 0.15297948456395716 IKQRHVRKKRK 11 Unmodified _IKQRHVRKKRK_ 0 0 0 ENST00000533834.1_1_1:104080032-104087738:+|nuORF;nc|ENSG00000185946|Q96LT9-2|RNPC3;ENSG00000185946|ENST00000423855|RNPC3 ENST00000533834.1_1_1:104080032-104087738:+|nuORF ENST00000533834.1_1_1:104080032-104087738:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 738.9876098632812 2 738.989135 1475.96372 NaN NaN NaN NaN NaN NaN NaN 85.2 1 85.866 85.366 86.366 0.66566 0 0 0 1.0082 1 39236 39236 0 0 1 10784 5545 6825 6842 12643 12643 0.2447738019282042 IKRPNQKTV 9 Unmodified _IKRPNQKTV_ 0 0 0 ENSG00000184210|ENST00000333026|DGAT2L6 ENSG00000184210|ENST00000333026|DGAT2L6 ENSG00000184210|ENST00000333026|DGAT2L6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.3368530273438 2 542.33529 1082.65603 3.5482 0.0019243 -0.26083 -0.00014146 3.2873 0.0017828 542.3351804227357 32.674 0.14931 32.928 32.869 33.018 0.25389 9 6 2 0 0 0 1.0041 1 14893 14893 3.9444 0 1 269330 10785 5427 6826 6843 12644 12644 0.11800515871163952 IKSERKVTV 9 Unmodified _IKSERKVTV_ 0 0 0 REV__ENSG00000174579|ENST00000309993|MSL2 REV__ENSG00000174579|ENST00000309993|MSL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.3309326171875 2 530.329673 1058.64479 NaN NaN NaN NaN NaN NaN NaN 14.311 1 14.959 14.459 15.459 0.6482 0 0 0 0.1585 1 6440 6440 32.786 2.0822 1 + 10786 13638 6827 6844 12645 12645 0.11781693777038527 IKSRIKLEF 9 Unmodified _IKSRIKLEF_ 0 0 0 ENSG00000078295|ENST00000338316|ADCY2 ENSG00000078295|ENST00000338316|ADCY2 ENSG00000078295|ENST00000338316|ADCY2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 378.57403564453125 3 378.572886 1132.69683 2.5857 0.00097889 -0.037649 -1.4253E-05 2.5481 0.00096464 378.57287104576403 38.614 0.30363 38.878 38.724 39.028 0.26408 37 12 4 0 0 0 0.053359 1 17575 17575 45.74 7.9686 1 4337000 10787 875 6828 6845 12646 12646 0.13578857190805138 IKSRIKLEF 9 Unmodified _IKSRIKLEF_ 0 0 0 ENSG00000078295|ENST00000338316|ADCY2 ENSG00000078295|ENST00000338316|ADCY2 ENSG00000078295|ENST00000338316|ADCY2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 378.572886 1132.69683 2.794 0.0010577 0.059363 2.2473E-05 2.8534 0.0010802 378.57279773791174 38.969 0.26537 38.969 38.834 39.1 0 0.15738 -0.00022286 NaN 45.74 21 9 3 NaN NaN NaN NaN 0 NaN NaN 0 472130 10788 875 6828 6845 0.13578857190805138 IKSRIKLEF 9 Unmodified _IKSRIKLEF_ 0 0 0 ENSG00000078295|ENST00000338316|ADCY2 ENSG00000078295|ENST00000338316|ADCY2 ENSG00000078295|ENST00000338316|ADCY2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 378.572886 1132.69683 2.4594 0.00093107 0.21923 8.2994E-05 2.6787 0.0010141 378.5730046824902 37.831 0.21445 38.627 38.507 38.722 0.79552 -0.18491 -4.1302E-05 NaN 45.74 14 7 2 NaN NaN NaN NaN 0 NaN NaN 0 529450 10789 875 6828 6845 0.13578857190805138 IKTWRPRYFL 10 Unmodified _IKTWRPRYFL_ 0 0 0 ENST00000537834.5_1_19:40745726-40771198:-|nuORF;nc|ENSG00000105221|P31751-2|AKT2;ENST00000391844.8_1_19:40739781-40791100:-|nuORF;ENSG00000142208|ENST00000649815|AKT1;ENSG00000105221|ENST00000392038|AKT2 ENST00000537834.5_1_19:40745726-40771198:-|nuORF ENST00000537834.5_1_19:40745726-40771198:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 690.3986206054688 2 690.400964 1378.78738 NaN NaN NaN NaN NaN NaN NaN 42.641 1 42.641 42.141 43.141 0 0 0 0 1.0001 1 19414 19414 1.6526 0.32309 1 10790 1478 6829 6846 12647 12647 0.11313326239087473 IKVMLVPKKN 10 Unmodified _IKVMLVPKKN_ 0 0 0 ENST00000461338.5_1_2:162017862-162019698:+|nuORF ENST00000461338.5_1_2:162017862-162019698:+|nuORF ENST00000461338.5_1_2:162017862-162019698:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.3766479492188 2 585.375569 1168.73659 NaN NaN NaN NaN NaN NaN NaN 20.133 1 20.133 19.633 20.633 0 0 0 0 1.0016 1 8996 8996 0.35063 0 1 10791 8082 6830 6847 12648 12648 0.1589666086986199 IKVPFGPPLR 10 Unmodified _IKVPFGPPLR_ 0 0 0 REV__ENST00000507915.1_1_11:67067469-67068955:+|nuORF REV__ENST00000507915.1_1_11:67067469-67068955:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 375.57318115234375 3 375.237726 1122.69135 2.8598 0.0010731 0.29487 0.00011065 3.1547 0.0011838 375.5722786805965 32.31 0.20786 32.31 32.236 32.444 0 27 17 2 0 0 0 0.94099 1 14639 14639 0.69767 0.07084 1 519510 + 10792 13571 6831 6848 12649 12649 0.13491178398976444 IKVPFGPPLR 10 Unmodified _IKVPFGPPLR_ 0 0 0 REV__ENST00000507915.1_1_11:67067469-67068955:+|nuORF REV__ENST00000507915.1_1_11:67067469-67068955:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 375.237726 1122.69135 3.0931 0.0011606 1.2138 0.00045548 4.3069 0.0016161 375.23807136952166 32.107 0.22617 32.362 32.232 32.459 0.25452 -0.0022151 0.00029389 NaN 0.69767 29 13 3 NaN NaN NaN NaN 0 NaN NaN 0 577050 + 10793 13571 6831 6848 0.13491178398976444 IKVPFGPPLR 10 Unmodified _IKVPFGPPLR_ 0 0 0 REV__ENST00000507915.1_1_11:67067469-67068955:+|nuORF REV__ENST00000507915.1_1_11:67067469-67068955:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 375.237726 1122.69135 2.6557 0.0009965 1.2096 0.00045387 3.8652 0.0014504 375.5725549739551 31.803 0.30629 32.42 32.291 32.597 0.61737 0.056369 0.00028907 NaN 0.69767 43 20 3 NaN NaN NaN NaN 0 NaN NaN 0 1021000 + 10794 13571 6831 6848 0.13491178398976444 IKVYPKVLKL 10 Unmodified _IKVYPKVLKL_ 0 0 0 REV__ENSG00000265817|ENST00000481490|FSBP REV__ENSG00000265817|ENST00000481490|FSBP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 600.9063110351562 2 600.907559 1199.80057 NaN NaN NaN NaN NaN NaN NaN 41.034 1 41.034 40.534 41.534 0 0 0 0 1.0015 1 18636 18636 0.40072 0 1 + 10795 14705 6832 6849 12650 12650 0.20865764298446265 IKWLRWWRQWQ 11 Unmodified _IKWLRWWRQWQ_ 0 0 0 REV__VCL|p.K139Nfs*28|1|0.16|ENSG00000035403|chr10:74071001-74071007|AGGAATT/-|frameshift_variant REV__VCL|p.K139Nfs*28|1|0.16|ENSG00000035403|chr10:74071001-74071007|AGGAATT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.643798828125 3 562.644038 1684.91028 NaN NaN NaN NaN NaN NaN NaN 49.626 1 50.448 49.948 50.948 0.82285 0 0 0 1.0082 1 22606 22606 0.08335 0.08335 1 + 10796 18247 6833 6850 12651 12651 0.09522582690328818 ILAIALRLRR 10 Unmodified _ILAIALRLRR_ 0 0 0 nc|ENSG00000253305|Q9Y5F9-2|PCDHGB6;ENSG00000253305|ENST00000520790|PCDHGB6;nc|ENSG00000253953|Q9UN71-2|PCDHGB4;nc|ENSG00000254221|Q9Y5G3-2|PCDHGB1;ENSG00000253953|ENST00000519479|PCDHGB4;ENSG00000254221|ENST00000523390|PCDHGB1 nc|ENSG00000253305|Q9Y5F9-2|PCDHGB6 nc|ENSG00000253305|Q9Y5F9-2|PCDHGB6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 597.9102172851562 2 597.911499 1193.80845 NaN NaN NaN NaN NaN NaN NaN 26.142 1 26.142 25.642 26.642 0 0 0 0 1.0015 1 11754 11754 0.45834 0 1 10797 6271 6834 6851 12652 12652 0.21929336338575922 ILANRLCLP 9 Unmodified _ILANRLCLP_ 0 0 0 ENSG00000008853|ENST00000251822|RHOBTB2;nc|ENSG00000008853|Q9BYZ6-3|RHOBTB2;nc|ENSG00000008853|Q9BYZ6-2|RHOBTB2 ENSG00000008853|ENST00000251822|RHOBTB2 ENSG00000008853|ENST00000251822|RHOBTB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 338.20391845703125 3 338.203917 1011.58992 2.2599 0.00076431 -1.3198 -0.00044637 0.94009 0.00031794 338.2035951857387 48.049 0.44839 48.049 47.773 48.222 0 43 20 3 0 0 0 1.178 1 21972 21972 1.0715 0 1 898560 10798 384 6835 6852 12653 12653 0.08458983704747425 ILAWHMWK 8 Unmodified _ILAWHMWK_ 0 0 0 REV__ENSG00000118402|ENST00000369816|ELOVL4 REV__ENSG00000118402|ENST00000369816|ELOVL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.7921752929688 2 542.791672 1083.56879 NaN NaN NaN NaN NaN NaN NaN 34.736 1 35.359 34.859 35.859 0.62294 0 0 0 0.99035 1 15913 15913 5.7604 0 1 + 10799 11470 6836 6853 12654 12654 0.030350183959171773 ILDNKLSH 8 Unmodified _ILDNKLSH_ 0 0 0 ENSG00000146918|ENST00000356309|NCAPG2;nc|ENSG00000146918|Q86XI2-2|NCAPG2;NCAPG2|p.Q736Tfs*12|1|0.06|ENSG00000146918|chr7:158656560-158656561|-/AGAGTTGAGT|frameshift_variant;ENST00000467785.5_1_7:158448006-158486027:-|nuORF;NCAPG2|p.W495Gfs*25|1|0.14|ENSG00000146918|chr7:158664747-158664747|A/-|frameshift_variant;ENST00000432615.5_1_7:158461124-158468267:-|nuORF ENSG00000146918|ENST00000356309|NCAPG2 ENSG00000146918|ENST00000356309|NCAPG2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 313.84759521484375 3 313.846787 938.51853 2.0674 0.00064884 0.54996 0.0001726 2.6173 0.00082144 313.84696775900824 16.864 0.91802 17.168 16.541 17.459 0.30438 191 88 3 0 0 0 0.49219 1 7522 7522 17.113 0 1 272700 10800 3538 6837 6854 12655 12655 0.0468118727176261 ILDNKLSH 8 Unmodified _ILDNKLSH_ 0 0 0 ENSG00000146918|ENST00000356309|NCAPG2;nc|ENSG00000146918|Q86XI2-2|NCAPG2;NCAPG2|p.Q736Tfs*12|1|0.06|ENSG00000146918|chr7:158656560-158656561|-/AGAGTTGAGT|frameshift_variant;ENST00000467785.5_1_7:158448006-158486027:-|nuORF;NCAPG2|p.W495Gfs*25|1|0.14|ENSG00000146918|chr7:158664747-158664747|A/-|frameshift_variant;ENST00000432615.5_1_7:158461124-158468267:-|nuORF ENSG00000146918|ENST00000356309|NCAPG2 ENSG00000146918|ENST00000356309|NCAPG2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 313.846787 938.51853 2.156 0.00067664 0.96583 0.00030312 3.1218 0.00097976 313.8470956664718 16.869 0.84555 17.53 16.956 17.802 0.66072 0.18062 0.00021627 NaN 17.113 167 76 3 NaN NaN NaN NaN 0 NaN NaN 0 382640 10801 3538 6837 6854 0.0468118727176261 ILEAVYIKF 9 Unmodified _ILEAVYIKF_ 0 0 0 REV__ENSG00000086504|ENST00000199706|MRPL28 REV__ENSG00000086504|ENST00000199706|MRPL28 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.6924438476562 2 548.326068 1094.63758 NaN NaN NaN NaN NaN NaN NaN 66.623 1 67.28 66.78 67.78 0.65672 0 0 0 0.90611 1 30542 30542 2.0598 0.21551 1 + 10802 10655 6838 6855 12656 12656 0.09404961176619508 ILELLRTVPI 10 Unmodified _ILELLRTVPI_ 0 0 0 nc|ENSG00000107882|Q9UMX1-2|SUFU;nc|ENSG00000107882|Q9UMX1-3|SUFU;ENSG00000107882|ENST00000369902|SUFU nc|ENSG00000107882|Q9UMX1-2|SUFU nc|ENSG00000107882|Q9UMX1-2|SUFU MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.255126953125 3 389.588425 1165.74344 3.0418 0.0011851 -0.58502 -0.00022792 2.4568 0.00095715 389.58819112565976 40.375 0.56057 41.016 40.949 41.51 0.64135 91 48 2 0 0 0 0.12676 1 18490 18490 0.62683 0.62683 1 14950000 10803 1613 6839 6856 12657 12657 0.16720297022084196 ILEQLLEAIV 10 Unmodified _ILEQLLEAIV_ 0 0 0 PBRM1|p.M1038Sfs*121|1|0.03|ENSG00000163939|chr3:52587363-52587363|A/-|frameshift_variant;ENSG00000163939|ENST00000707071|PBRM1;PBRM1|p.L1349Wfs*35|1|0.38|ENSG00000163939|chr3:52563324-52563324|G/-|frameshift_variant;PBRM1|p.V1336Sfs*48|1|0.44|ENSG00000163939|chr3:52563363-52563363|C/-|frameshift_variant;PBRM1|p.P1339Lfs*45|1|0.24|ENSG00000163939|chr3:52563353-52563353|G/-|frameshift_variant;PBRM1|p.Q1346Rfs*38|1|0.15|ENSG00000163939|chr3:52563332-52563332|T/-|frameshift_variant;PBRM1|p.K1293Nfs*20|1|0.2|ENSG00000163939|chr3:52563490-52563490|T/-|frameshift_variant;PBRM1|p.V1235Cfs*34|1|0.23|ENSG00000163939|chr3:52564222-52564222|C/-|frameshift_variant;PBRM1|p.E1222Kfs*5|2|0.51|ENSG00000163939|chr3:52576568-52576568|C/-|frameshift_variant;PBRM1|p.E1214Rfs*6|1|0.35|ENSG00000163939|chr3:52576592-52576593|-/T|frameshift_variant;PBRM1|p.D1403Lfs*18|1|0.2|ENSG00000163939|chr3:52561847-52561848|TC/-|frameshift_variant;PBRM1|p.G1161Afs*57|1|0.31|ENSG00000163939|chr3:52579107-52579107|A/-|frameshift_variant;PBRM1|p.I1197Ffs*21|1|0.4|ENSG00000163939|chr3:52576643-52576643|T/-|frameshift_variant;PBRM1|p.P1135Lfs*24|1|0.12|ENSG00000163939|chr3:52579183-52579183|G/-|frameshift_variant;PBRM1|p.I1073Lfs*86|1|0.27|ENSG00000163939|chr3:52586595-52586595|T/-|frameshift_variant;PBRM1|p.N1126Gfs*15|1|0.24|ENSG00000163939|chr3:52586432-52586436|AAGTT/-|frameshift_variant;PBRM1|p.A1104Gfs*3|1|0.37|ENSG00000163939|chr3:52586501-52586502|-/C|frameshift_variant;PBRM1|p.P1491Rfs*48|1|0.62|ENSG00000163939|chr3:52554861-52554861|G/-|frameshift_variant;PBRM1|p.K991Nfs*23|1|0.4|ENSG00000163939|chr3:52587503-52587503|T/-|frameshift_variant;PBRM1|p.P1534Hfs*5|1|0.44|ENSG00000163939|chr3:52554732-52554732|G/-|frameshift_variant;PBRM1|p.L1564Wfs*32|1|0.68|ENSG00000163939|chr3:52550627-52550627|A/-|frameshift_variant;nc|ENSG00000163939|Q86U86|PBRM1;nc|ENSG00000163939|Q86U86-8|PBRM1;nc|ENSG00000163939|Q86U86-2|PBRM1;PBRM1|p.S1607Qfs*5|1|0.34|ENSG00000163939|chr3:52550499-52550499|A/-|frameshift_variant;PBRM1|p.Q1560Nfs*37|1|0.46|ENSG00000163939|chr3:52550749-52550750|-/TT|frameshift_variant;nc|ENSG00000163939|Q86U86-9|PBRM1;PBRM1|p.F1594Lfs*2|1|0.68|ENSG00000163939|chr3:52550536-52550536|A/-|frameshift_variant;PBRM1|p.V1505Lfs*34|1|0.32|ENSG00000163939|chr3:52554823-52554823|G/-|frameshift_variant;nc|ENSG00000163939|Q86U86-3|PBRM1;nc|ENSG00000163939|Q86U86-7|PBRM1;nc|ENSG00000163939|Q86U86-4|PBRM1;nc|ENSG00000163939|Q86U86-5|PBRM1;PBRM1|p.Q1511Sfs*28|1|0.49|ENSG00000163939|chr3:52554802-52554802|G/-|frameshift_variant;PBRM1|p.F1216Yfs*3|1|0.2|ENSG00000163939|chr3:52576585-52576586|-/AT|frameshift_variant;PBRM1|p.L993Mfs*20|1|0.61|ENSG00000163939|chr3:52587496-52587499|ACAA/-|frameshift_variant;PBRM1|p.Y409Tfs*29|1|0.46|ENSG00000163939|chr3:52634678-52634678|A/-|frameshift_variant;PBRM1|p.E572*|1|0.4|ENSG00000163939|chr3:52617366-52617367|-/A|frameshift_variant;PBRM1|p.G401Vfs*20|1|0.17|ENSG00000163939|chr3:52634650-52634701|GGGTATTTTTTCTTTGAAGGCAAATGGTAAAAAGGTTCAGCTATTAGCTGCC/-|frameshift_variant;PBRM1|p.Y281Lfs*2|1|0.19|ENSG00000163939|chr3:52644761-52644761|T/-|frameshift_variant;PBRM1|p.K283Rfs*3|1|0.16|ENSG00000163939|chr3:52644748-52644755|AGCCTTTT/-|frameshift_variant;PBRM1|p.I279Nfs*8|1|0.35|ENSG00000163939|chr3:52644767-52644768|-/T|frameshift_variant;PBRM1|p.E291Dfs*3|1|0.31|ENSG00000163939|chr3:52644729-52644730|TT/-|frameshift_variant;PBRM1|p.M292Ifs*5|1|0.14|ENSG00000163939|chr3:52644718-52644727|TGACTTAGCC/-|frameshift_variant;PBRM1|p.N325Ifs*37|1|0.22|ENSG00000163939|chr3:52643269-52643269|T/-|frameshift_variant;PBRM1|p.Q209Rfs*15|1|0.5|ENSG00000163939|chr3:52658220-52658220|A/-|frameshift_variant;PBRM1|p.Y417Ifs*3|1|0.4|ENSG00000163939|chr3:52634654-52634655|-/T|frameshift_variant;PBRM1|p.W992Mfs*12|1|0.27|ENSG00000163939|chr3:52587502-52587503|-/T|frameshift_variant;PBRM1|p.K909Nfs*6|1|0.29|ENSG00000163939|chr3:52603573-52603573|T/-|frameshift_variant;PBRM1|p.L448Wfs*5|1|0.32|ENSG00000163939|chr3:52628994-52628994|A/-|frameshift_variant;PBRM1|p.N517Hfs*15|1|0.6|ENSG00000163939|chr3:52617531-52617532|TC/-|frameshift_variant;PBRM1|p.I571Mfs*16|1|0.4|ENSG00000163939|chr3:52617367-52617367|A/-|frameshift_variant;PBRM1|p.Y600Ifs*42|1|0.42|ENSG00000163939|chr3:52617283-52617283|G/-|frameshift_variant;PBRM1|p.L617Ffs*25|1|0.47|ENSG00000163939|chr3:52615424-52615424|T/-|frameshift_variant;PBRM1|p.K638Nfs*4|1|0.35|ENSG00000163939|chr3:52615361-52615361|T/-|frameshift_variant;PBRM1|p.N663Mfs*7|1|0.47|ENSG00000163939|chr3:52609892-52609892|T/-|frameshift_variant;PBRM1|p.Y697*|1|0.43|ENSG00000163939|chr3:52609782-52609792|TAGTCAGATAG/-|frameshift_variant;PBRM1|p.D748Mfs*27|2|0.36|ENSG00000163939|chr3:52609638-52609638|C/-|frameshift_variant;nc|ENSG00000163939|Q86U86-6|PBRM1;PBRM1|p.R836Lfs*12|1|0.26|ENSG00000163939|chr3:52609352-52609373|TGCTCTTGAAATAAATCAAGCC/-|frameshift_variant;PBRM1|p.N832Ifs*23|1|0.36|ENSG00000163939|chr3:52609385-52609385|T/-|frameshift_variant;PBRM1|p.Y862*|1|0.5|ENSG00000163939|chr3:52603672-52603715|ACGAATTTTAATAAAAAACTGCTGAAGTTCTACTGCATCTTCAT/-|frameshift_variant;PBRM1|p.Q869Sfs*6|1|0.26|ENSG00000163939|chr3:52603695-52603696|-/A|frameshift_variant PBRM1|p.M1038Sfs*121|1|0.03|ENSG00000163939|chr3:52587363-52587363|A/-|frameshift_variant PBRM1|p.M1038Sfs*121|1|0.03|ENSG00000163939|chr3:52587363-52587363|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.8497314453125 2 570.847364 1139.68018 NaN NaN NaN NaN NaN NaN NaN 58.772 1 58.772 58.272 59.272 0 0 0 0 0.99225 1 27139 27139 6.7232 0.96273 1 10804 9905 6840 6857 12658 12658 0.11592311514164066 ILERHKKRKRR 11 Unmodified _ILERHKKRKRR_ 0 0 0 REV__ENSG00000122728|ENST00000242310|TAF1L REV__ENSG00000122728|ENST00000242310|TAF1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 760.4910888671875 2 760.492042 1518.96953 NaN NaN NaN NaN NaN NaN NaN 100.04 1 100.04 99.544 100.54 0 0 0 0 1.008 1 55141 55141 0.35063 0.35063 1 + 10805 11592 6841 6858 12659 12659 0.23080478704491725 ILETRLNLVTV 11 Unmodified _ILETRLNLVTV_ 0 0 0 CCDC63|p.K405Tfs*16|1|0.2|ENSG00000173093|chr12:110898997-110899007|AGACCTTGGAT/-|frameshift_variant;nc|ENSG00000173093|Q8NA47-2|CCDC63;ENSG00000173093|ENST00000308208|CCDC63 CCDC63|p.K405Tfs*16|1|0.2|ENSG00000173093|chr12:110898997-110899007|AGACCTTGGAT/-|frameshift_variant CCDC63|p.K405Tfs*16|1|0.2|ENSG00000173093|chr12:110898997-110899007|AGACCTTGGAT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 424.2650146484375 3 424.262489 1269.76564 NaN NaN NaN NaN NaN NaN NaN 11.6 1 11.908 11.408 12.408 0.30727 0 0 0 1.0072 1 5240 5240 0.45452 0 1 10806 105 6842 6859 12660 12660 0.14154476699809493 ILFIIFSRRFF 11 Unmodified _ILFIIFSRRFF_ 0 0 0 REV__Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|111|2|anti-sense REV__Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|111|2|anti-sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 486.9596252441406 3 486.958852 1457.85473 2.8568 0.0013911 0.20564 0.00010014 3.0624 0.0014913 486.95859522687647 106.02 0.12523 106.02 105.94 106.06 0 11 4 3 0 0 0 0.91459 1 58255 58255 0.094841 0 1 1055200 + 10807 17713 6843 6860 12661 12661 0.14411356450000312 ILFIIFSRRFF 11 Unmodified _ILFIIFSRRFF_ 0 0 0 REV__Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|111|2|anti-sense REV__Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|111|2|anti-sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.9610900878906 3 486.958852 1457.85473 3.4077 0.0016594 0.61713 0.00030052 4.0248 0.0019599 487.2938885269671 95.933 1.2153 96.541 95.874 97.089 0.60769 110 64 2 0 0 0 0.91459 1 43961 43961 0.094841 0 1 1261300 + 10808 17713 6843 6860 12662 12662 0.14411356450000312 ILFIKHFII 9 Unmodified _ILFIKHFII_ 0 0 0 nc|ENSG00000274391|P56180-4|TPTE;nc|ENSG00000274391|P56180-3|TPTE;nc|ENSG00000274391|P56180-2|TPTE;ENSG00000274391|ENST00000618007|TPTE nc|ENSG00000274391|P56180-4|TPTE nc|ENSG00000274391|P56180-4|TPTE MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.91522216796875 3 381.914472 1142.72159 2.7891 0.0010652 -0.61686 -0.00023559 2.1723 0.00082962 381.9142759778712 26.919 0.17342 27.184 27.085 27.258 0.26489 19 11 2 0 0 0 0.54955 1 12230 12230 11.495 0 1 290470 10809 6342 6844 6861 12663 12663 0.15593537064182783 ILFNEVPHWK 10 Unmodified _ILFNEVPHWK_ 0 0 0 REV__WDR72|p.D837Mfs*7|1|0.32|ENSG00000166415|chr15:53615697-53615698|-/TTCAT|frameshift_variant REV__WDR72|p.D837Mfs*7|1|0.32|ENSG00000166415|chr15:53615697-53615698|-/TTCAT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.6539306640625 2 641.850773 1281.68699 NaN NaN NaN NaN NaN NaN NaN 34.41 1 34.41 33.91 34.91 0 0 0 0 0.97102 1 15598 15598 10.074 1.3285 1 + 10810 13236 6845 6862 12664 12664 0.05741669185408682 ILFPENMRKGP 11 Unmodified _ILFPENMRKGP_ 0 0 0 REV__ENST00000432045.6_1_7:130565395-130565941:-|nuORF REV__ENST00000432045.6_1_7:130565395-130565941:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 651.3546142578125 2 651.355365 1300.69618 NaN NaN NaN NaN NaN NaN NaN 23.222 1 23.907 23.407 24.407 0.68536 0 0 0 1.0057 1 10349 10349 3.2813 0 1 + 10811 16268 6846 6863 12665 12665 0.05785694479436643 ILFPFGFIWF 10 Unmodified _ILFPFGFIWF_ 0 0 0 BRI3|p.C108Wfs*34|1|0.09|ENSG00000164713|chr7:98291189-98291190|CT/-|frameshift_variant BRI3|p.C108Wfs*34|1|0.09|ENSG00000164713|chr7:98291189-98291190|CT/-|frameshift_variant BRI3|p.C108Wfs*34|1|0.09|ENSG00000164713|chr7:98291189-98291190|CT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 643.852783203125 2 643.852253 1285.68995 NaN NaN NaN NaN NaN NaN NaN 24.405 1 25.141 24.641 25.641 0.73623 0 0 0 1.0015 1 10933 10933 0.45834 0 1 10812 90 6847 6864 12666 12666 0.05853544310230063 ILFWGPGSLF 10 Unmodified _ILFWGPGSLF_ 0 0 0 nc|ENSG00000198925|Q7Z3C6-3|ATG9A;nc|ENSG00000198925|Q7Z3C6-2|ATG9A;ENSG00000198925|ENST00000361242|ATG9A nc|ENSG00000198925|Q7Z3C6-3|ATG9A nc|ENSG00000198925|Q7Z3C6-3|ATG9A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.8128662109375 2 568.810585 1135.60662 3.1419 0.0017871 -1.6313 -0.00092792 1.5106 0.00085922 569.3106451964504 54.872 0.26233 55.667 55.538 55.801 0.79552 23 16 2 0 0 0 0.64255 1 25097 25097 15.847 1.9411 1 1659200 10813 5964 6848 6865 12667 12667 0.04423807862372087 ILGPPPPSF 9 Unmodified _ILGPPPPSF_ 0 0 0 ENSG00000015479|ENST00000394805|MATR3;ENST00000511978.5_1_5:138651425-138655027:+|nuORF;ENST00000509918.5_1_5:138651425-138657594:+|nuORF;nc|ENSG00000280987|P43243-2|MATR3;ENST00000502422.5_1_5:138651717-138665081:+|nuORF ENSG00000015479|ENST00000394805|MATR3;ENST00000502422.5_1_5:138651717-138665081:+|nuORF ENST00000502422.5_1_5:138651717-138665081:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.76416015625 2 462.763104 923.511654 NaN NaN NaN NaN NaN NaN NaN 66.487 1 66.736 66.236 67.236 0.24848 0 0 0 0.040046 1 30460 30460 56.541 24.424 1 10814 8478;439 6849 6866 12668 12668 0.046838743911848724 ILGPPPPSF 9 Unmodified _ILGPPPPSF_ 0 0 0 ENSG00000015479|ENST00000394805|MATR3;ENST00000511978.5_1_5:138651425-138655027:+|nuORF;ENST00000509918.5_1_5:138651425-138657594:+|nuORF;nc|ENSG00000280987|P43243-2|MATR3;ENST00000502422.5_1_5:138651717-138665081:+|nuORF ENSG00000015479|ENST00000394805|MATR3;ENST00000502422.5_1_5:138651717-138665081:+|nuORF ENST00000502422.5_1_5:138651717-138665081:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.7640380859375 2 462.763104 923.511654 NaN NaN NaN NaN NaN NaN NaN 66.603 1 66.853 66.353 67.353 0.2501 0 0 0 0.085491 1 30512 30512 44.407 15.92 1 10815 8478;439 6849 6866 12669 12669 0.046838743911848724 ILGSRLLHRRI 11 Unmodified _ILGSRLLHRRI_ 0 0 0 REV__ENSG00000178965|ENST00000326665|ERICH3 REV__ENSG00000178965|ENST00000326665|ERICH3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 445.289306640625 3 445.289484 1332.84662 NaN NaN NaN NaN NaN NaN NaN 85.763 1 85.791 85.291 86.291 0.028603 0 0 0 1.0072 1 43003 43003 1.3296 0.87513 1 + 10816 13775 6850 6867 12670 12670 0.19351222253271771 ILHHERKAKQ 10 Unmodified _ILHHERKAKQ_ 0 0 0 ENSG00000174776|ENST00000682715|WDR49;nc|ENSG00000174776|Q8IV35-2|CFAP337;nc|ENSG00000174776|Q8IV35-3|CFAP337 ENSG00000174776|ENST00000682715|WDR49 ENSG00000174776|ENST00000682715|WDR49 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 630.3688354492188 2 630.370195 1258.72584 NaN NaN NaN NaN NaN NaN NaN 62.015 1 62.675 62.175 63.175 0.66008 0 0 0 1.0001 1 28411 28411 1.6526 0.17072 1 10817 4994 6851 6868 12671 12671 0.10682394539776396 ILHKKLRISSK 11 Unmodified _ILHKKLRISSK_ 0 0 0 REV__ENST00000440180.5_1_2:201994562-201994679:+|nuORF REV__ENST00000440180.5_1_2:201994562-201994679:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 662.37158203125 2 661.935171 1321.85579 NaN NaN NaN NaN NaN NaN NaN 97.819 1 98.418 97.918 98.918 0.59885 0 0 0 1.0047 1 45016 45016 4.5289 3.3355 1 + 10818 16339 6852 6869 12672 12672 0.20773570818914777 ILIFKIVKII 10 Unmodified _ILIFKIVKII_ 0 0 0 REV__ENSG00000136802|ENST00000372600|LRRC8A REV__ENSG00000136802|ENST00000372600|LRRC8A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 600.4295654296875 2 600.428128 1198.8417 NaN NaN NaN NaN NaN NaN NaN 70.56 1 70.816 70.316 71.316 0.25642 0 0 0 1.002 1 32315 32315 0 0 1 + 10819 12080 6853 6870 12673 12673 0.2502352533795147 ILIHISNVRKK 11 Unmodified _ILIHISNVRKK_ 0 0 0 ENST00000426128.6_1_7:108155211-108155337:-|nuORF ENST00000426128.6_1_7:108155211-108155337:-|nuORF ENST00000426128.6_1_7:108155211-108155337:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 660.9295654296875 2 660.927346 1319.84014 NaN NaN NaN NaN NaN NaN NaN 40.936 1 40.936 40.436 41.436 0 0 0 0 1.0073 1 18590 18590 1.1933 0.79263 1 10820 7801 6854 6871 12674 12674 0.19301284301855048 ILIPMPFV 8 Unmodified _ILIPMPFV_ 0 0 0 ENSG00000170925|ENST00000302917|TEX13B ENSG00000170925|ENST00000302917|TEX13B ENSG00000170925|ENST00000302917|TEX13B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.2815246582031 2 465.280075 928.545597 2.6228 0.0012203 0.87332 0.00040634 3.4961 0.0016267 465.28028250970317 82.731 0.50254 82.978 82.756 83.259 0.24722 43 24 3 0 0 0 0.73686 1 38030 38030 2.8892 0.31174 1 903020 10821 4776 6855 6872 12675 12675 0.07846579558588473 ILKCQVPLHFR 11 Unmodified _ILKCQVPLHFR_ 0 0 0 ENST00000337014.10_2_17:80376485-80377700:+|nuORF ENST00000337014.10_2_17:80376485-80377700:+|nuORF ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.9342346191406 3 451.932309 1352.7751 3.3555 0.0015164 0.9205 0.00041601 4.276 0.0019325 451.9327463165778 92.498 0.77795 92.75 92.436 93.214 0.25254 73 41 2 0 0 0 0.91345 1 42502 42502 0.45452 0.29519 1 368780 10822 7037 6856 6873 12676 12676 0.11281966504361662 ILKCQVPLHFR 11 Unmodified _ILKCQVPLHFR_ 0 0 0 ENST00000337014.10_2_17:80376485-80377700:+|nuORF ENST00000337014.10_2_17:80376485-80377700:+|nuORF ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.9336242675781 3 451.932309 1352.7751 3.4261 0.0015484 0.96265 0.00043505 4.3887 0.0019834 451.9326884025879 93.546 1.7987 93.801 93.203 95.001 0.25497 174 91 3 0 0 0 0.91345 2 42894 42894;43107 0.45452 0.45452 1 742110 10823 7037 6856 6873 12677;12678 12677 0.11281966504361662 ILKCQVPLHFR 11 Unmodified _ILKCQVPLHFR_ 0 0 0 ENST00000337014.10_2_17:80376485-80377700:+|nuORF ENST00000337014.10_2_17:80376485-80377700:+|nuORF ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 451.932309 1352.7751 3.2306 0.00146 0.68818 0.00031101 3.9188 0.001771 451.93263246933907 92.173 0.54157 92.821 92.405 92.947 0.64714 0.035152 -0.00019196 NaN 0.45452 39 25 2 NaN NaN NaN NaN 0 NaN NaN 0 261240 10824 7037 6856 6873 0.11281966504361662 ILKERIYRL 9 Unmodified _ILKERIYRL_ 0 0 0 ENST00000398632.3_1_21:42775383-42780157:+|nuORF;ENST00000482953.5_1_21:42762449-42780157:+|nuORF;ENSG00000183486|ENST00000330714|MX2 ENST00000398632.3_1_21:42775383-42780157:+|nuORF ENST00000398632.3_1_21:42775383-42780157:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 401.9252624511719 3 401.923919 1202.74993 3.4927 0.0014038 -0.051734 -2.0793E-05 3.4409 0.001383 401.92383045457825 31.397 0.38455 31.653 31.471 31.855 0.25614 69 27 3 0 0 0 0.02234 3 14298 14247;14298;14341 51.415 16.483 1 2367200 10825 5384 6857 6874 12679;12680;12681 12680 0.1566623497344608 ILKERIYRL 9 Unmodified _ILKERIYRL_ 0 0 0 ENST00000398632.3_1_21:42775383-42780157:+|nuORF;ENST00000482953.5_1_21:42762449-42780157:+|nuORF;ENSG00000183486|ENST00000330714|MX2 ENST00000398632.3_1_21:42775383-42780157:+|nuORF ENST00000398632.3_1_21:42775383-42780157:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 401.92510986328125 3 401.923919 1202.74993 2.9405 0.0011818 0.21203 8.5222E-05 3.1525 0.0012671 401.9239376738944 30.91 0.36053 31.527 31.354 31.715 0.61737 68 22 4 0 0 0 0.02234 2 14187 14140;14187 51.415 11.176 1 1848100 10826 5384 6857 6874 12682;12683 12683 0.1566623497344608 ILKKKEYPL 9 Unmodified _ILKKKEYPL_ 0 0 0 ENSG00000123609|ENST00000243346|NMI ENSG00000123609|ENST00000243346|NMI ENSG00000123609|ENST00000243346|NMI MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 377.8950500488281 3 377.909387 1130.70633 2.5468 0.00096247 -0.79532 -0.00030056 1.7515 0.00066191 377.909130271577 14.866 0.38907 15.173 15.02 15.409 0.3069 52 36 2 0 0 0 0.11236 1 6688 6688 2.9952 0.26005 1 68611 10827 2322 6858 6875 12684 12684 0.1462062547630012 ILKKRRERILR 11 Unmodified _ILKKRRERILR_ 0 0 0 ENST00000335712.10_2_2:60686003-60686195:-|nuORF ENST00000335712.10_2_2:60686003-60686195:-|nuORF ENST00000335712.10_2_2:60686003-60686195:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 741.004150390625 2 740.999168 1479.98378 NaN NaN NaN NaN NaN NaN NaN 71.428 1 72.092 71.592 72.592 0.66324 0 0 0 1.008 1 32739 32739 0.35063 0 1 10828 7025 6859 6876 12685 12685 0.26299131132827824 ILKKVLEAL 9 Unmodified _ILKKVLEAL_ 0 0 0 ENSG00000132646|ENST00000379143|PCNA ENSG00000132646|ENST00000379143|PCNA ENSG00000132646|ENST00000379143|PCNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.8507690429688 2 513.84971 1025.68487 3.5196 0.0018085 -0.70834 -0.00036398 2.8112 0.0014446 513.8493020978622 49.053 0.2967 49.315 49.171 49.468 0.26146 26 11 3 0 0 0 0.021401 2 22427 22427;22485 66.457 12.624 1 1428400 10829 2717 6860 6877 12686;12687 12686 0.17305240447603865 ILKKVLEAL 9 Unmodified _ILKKVLEAL_ 0 0 0 ENSG00000132646|ENST00000379143|PCNA ENSG00000132646|ENST00000379143|PCNA ENSG00000132646|ENST00000379143|PCNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8516235351562 2 513.84971 1025.68487 3.5585 0.0018285 0.069195 3.5556E-05 3.6277 0.0018641 513.8497714436857 48.591 0.31007 49.246 49.061 49.371 0.65524 20 11 2 0 0 0 0.021401 2 22215 22215;22273 66.457 10.049 1 735700 10830 2717 6860 6877 12688;12689 12688 0.17305240447603865 ILKLSRRP 8 Unmodified _ILKLSRRP_ 0 0 0 REV__ENSG00000128294|ENST00000338754|TPST2 REV__ENSG00000128294|ENST00000338754|TPST2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.2230529785156 3 328.222188 981.644734 2.3422 0.00076876 0.37655 0.00012359 2.7187 0.00089235 328.22220777285906 12.873 0.18174 12.873 12.747 12.929 0 13 7 3 0 0 0 0.17174 1 5625 5625 38.176 5.3899 1 947710 + 10831 11760 6861 6878 12690 12690 0.1531773856769405 ILKLSRRP 8 Unmodified _ILKLSRRP_ 0 0 0 REV__ENSG00000128294|ENST00000338754|TPST2 REV__ENSG00000128294|ENST00000338754|TPST2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.2227478027344 3 328.222188 981.644734 1.6395 0.00053813 0.045453 1.4919E-05 1.685 0.00055305 328.2223459693157 12.561 0.30248 12.868 12.72 13.023 0.30727 46 11 6 0 0 0 0.090253 1 5637 5637 45.7 5.7499 1 244340000 + 10832 11760 6861 6878 12691 12691 0.1531773856769405 ILKLSRRP 8 Unmodified _ILKLSRRP_ 0 0 0 REV__ENSG00000128294|ENST00000338754|TPST2 REV__ENSG00000128294|ENST00000338754|TPST2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 328.222188 981.644734 2.3422 0.00076876 0.37655 0.00012359 2.7187 0.00089235 328.22220777285906 12.873 0.18174 12.873 12.747 12.929 0 -0.087048 0.00029382 NaN 45.7 13 7 3 NaN NaN NaN NaN 0 NaN NaN 0 947710 + 10833 11760 6861 6878 0.1531773856769405 ILKLSRRP 8 Unmodified _ILKLSRRP_ 0 0 0 REV__ENSG00000128294|ENST00000338754|TPST2 REV__ENSG00000128294|ENST00000338754|TPST2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 328.222188 981.644734 2.5802 0.00084686 -0.20076 -6.5894E-05 2.3794 0.00078097 328.2223285019254 12.495 0.31181 13.138 13.033 13.345 0.64272 0.17846 -0.00027464 NaN 45.7 23 10 4 NaN NaN NaN NaN 0 NaN NaN 0 246400000 + 10834 11760 6861 6878 0.1531773856769405 ILKNKRAIL 9 Unmodified _ILKNKRAIL_ 0 0 0 ENSG00000125817|ENST00000379751|CENPB ENSG00000125817|ENST00000379751|CENPB ENSG00000125817|ENST00000379751|CENPB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 356.9143371582031 3 356.913243 1067.7179 2.5886 0.00092391 0.3112 0.00011107 2.8998 0.001035 356.9133877171672 14.34 0.11605 14.988 14.919 15.035 0.64819 15 11 2 0 0 0 0.052704 1 6455 6455 49.554 25.765 1 1538200 10835 2424 6862 6879 12692 12692 0.18674867290314978 ILKNKRAIL 9 Unmodified _ILKNKRAIL_ 0 0 0 ENSG00000125817|ENST00000379751|CENPB ENSG00000125817|ENST00000379751|CENPB ENSG00000125817|ENST00000379751|CENPB MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 356.913243 1067.7179 2.3437 0.00083651 -0.40488 -0.00014451 1.9389 0.000692 356.9130517402444 14.328 0.10703 14.635 14.576 14.683 0.3069 -0.17629 -0.00033854 NaN 49.554 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1815600 10836 2424 6862 6879 0.18674867290314978 ILKNRFYPNRR 11 Unmodified _ILKNRFYPNRR_ 0 0 0 REV__TSPYL1|p.K397Rfs*15|1|0.28|ENSG00000189241|chr6:116278640-116278641|TT/-|frameshift_variant REV__TSPYL1|p.K397Rfs*15|1|0.28|ENSG00000189241|chr6:116278640-116278641|TT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.9555969238281 3 492.956393 1475.84735 NaN NaN NaN NaN NaN NaN NaN 5.6774 1 5.9826 5.4826 6.4826 0.30519 0 0 0 1.0079 1 2581 2581 0.50596 0.4226 1 + 10837 14177 6863 6880 12693 12693 0.12846016902290103 ILKPRRSL 8 Unmodified _ILKPRRSL_ 0 0 0 ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.83123779296875 2 491.829643 981.644734 NaN NaN NaN NaN NaN NaN NaN 12.563 1 12.87 12.37 13.37 0.30727 0 0 0 0.22007 1 5666 5666 78.728 27.098 1 10838 6101 6864 6881 12694 12694 0.1531773856769405 ILKPRRSL 8 Unmodified _ILKPRRSL_ 0 0 0 ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.8313903808594 2 491.829643 981.644734 3.5447 0.0017434 -0.36931 -0.00018164 3.1754 0.0015618 491.82943207379503 12.495 0.14322 13.138 13.033 13.176 0.64272 12 5 3 0 0 0 0.059272 1 5606 5606 62.573 16.552 1 20491000 10839 6101 6864 6881 12695 12695 0.1531773856769405 ILKQQRPK 8 Unmodified _ILKQQRPK_ 0 0 0 REV__nc|ENSG00000158079|A2A3K4-2|PTPDC1 REV__nc|ENSG00000158079|A2A3K4-2|PTPDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.5547180175781 3 337.553826 1009.63965 1.8068 0.0006099 0.1306 4.4084E-05 1.9374 0.00065399 337.5538662793908 12.869 0.25557 13.176 13.023 13.279 0.30727 13 7 2 0 0 0 0.58952 1 5822 5822 14.838 2.5976 1 485510 + 10840 17992 6865 6882 12696 12696 0.13521434705080537 ILKSKTDTL 9 Unmodified _ILKSKTDTL_ 0 0 0 ENSG00000164308|ENST00000437043|ERAP2;nc|ENSG00000164308|Q6P179-3|ERAP2;ENST00000513084.5_1_5:96237218-96245469:+|nuORF;ENST00000515387.1_1_5:96232124-96244694:+|nuORF ENSG00000164308|ENST00000437043|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.81298828125 2 509.810782 1017.60701 3.0891 0.0015749 0.72007 0.0003671 3.8092 0.001942 509.8110732284246 14.588 0.18634 14.895 14.779 14.965 0.3069 26 14 2 0 0 0 0.088474 1 6583 6583 38.176 7.9508 1 264920 10841 4305 6866 6883 12697 12697 0.09891182791557185 ILKSKTDTL 9 Unmodified _ILKSKTDTL_ 0 0 0 ENSG00000164308|ENST00000437043|ERAP2;nc|ENSG00000164308|Q6P179-3|ERAP2;ENST00000513084.5_1_5:96237218-96245469:+|nuORF;ENST00000515387.1_1_5:96232124-96244694:+|nuORF ENSG00000164308|ENST00000437043|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.8128356933594 2 509.810782 1017.60701 3.4139 0.0017404 0.63773 0.00032512 4.0516 0.0020656 509.8111643408133 14.547 0.1671 15.195 15.12 15.287 0.64819 34 19 2 0 0 0 0.0527 1 6548 6548 49.554 49.554 1 864460 10842 4305 6866 6883 12698 12698 0.09891182791557185 ILKSKTDTL 9 Unmodified _ILKSKTDTL_ 0 0 0 ENSG00000164308|ENST00000437043|ERAP2;nc|ENSG00000164308|Q6P179-3|ERAP2;ENST00000513084.5_1_5:96237218-96245469:+|nuORF;ENST00000515387.1_1_5:96232124-96244694:+|nuORF ENSG00000164308|ENST00000437043|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 509.810782 1017.60701 3.0891 0.0015749 0.72007 0.0003671 3.8092 0.001942 509.8110732284246 14.588 0.18634 14.895 14.779 14.965 0.3069 -0.15008 4.1589E-05 NaN 49.554 26 14 2 NaN NaN NaN NaN 0 NaN NaN 0 264920 10843 4305 6866 6883 0.09891182791557185 ILKSKTDTL 9 Unmodified _ILKSKTDTL_ 0 0 0 ENSG00000164308|ENST00000437043|ERAP2;nc|ENSG00000164308|Q6P179-3|ERAP2;ENST00000513084.5_1_5:96237218-96245469:+|nuORF;ENST00000515387.1_1_5:96232124-96244694:+|nuORF ENSG00000164308|ENST00000437043|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 509.810782 1017.60701 3.4139 0.0017404 0.63773 0.00032512 4.0516 0.0020656 509.8111643408133 14.547 0.1671 15.195 15.12 15.287 0.64819 0.15008 -4.2357E-05 NaN 49.554 34 19 2 NaN NaN NaN NaN 0 NaN NaN 0 864460 10844 4305 6866 6883 0.09891182791557185 ILKVLEKKDS 10 Unmodified _ILKVLEKKDS_ 0 0 0 ENST00000461115.5_1_13:21189938-21205265:+|nuORF;ENST00000482172.5_1_13:21189938-21228047:+|nuORF;nc|ENSG00000032742|Q13099-3|IFT88;ENSG00000032742|ENST00000351808|IFT88;nc|ENSG00000032742|Q13099-1|IFT88 ENST00000461115.5_1_13:21189938-21205265:+|nuORF ENST00000461115.5_1_13:21189938-21205265:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.3245849609375 2 586.866089 1171.71762 NaN NaN NaN NaN NaN NaN NaN 36.62 1 37.413 36.913 37.913 0.79342 0 0 0 1.0001 1 16595 16595 1.6526 0 1 10845 499 6867 6884 12699 12699 0.1386340277981617 ILLCMSLLLF 10 Unmodified _ILLCMSLLLF_ 0 0 0 nc|ENSG00000290456|Q8N1L4-2|CYP4Z2P;nc|ENSG00000290456|Q8N1L4|CYP4Z2P;ENSG00000186160|ENST00000334194|CYP4Z1 nc|ENSG00000290456|Q8N1L4-2|CYP4Z2P nc|ENSG00000290456|Q8N1L4-2|CYP4Z2P MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.3425903320312 2 583.339806 1164.66506 3.7306 0.0021762 0.85914 0.00050117 4.5897 0.0026774 583.3401945267481 88.639 0.26643 89.317 89.178 89.444 0.67818 21 11 2 0 0 0 0.51828 1 40848 40848 20.454 4.6064 1 612200 10846 5558 6868 6885 12700 12700 0.08931405120983982 ILLKHKKAALL 11 Unmodified _ILLKHKKAALL_ 0 0 0 nc|ENSG00000109320|P19838-3|NFKB1;nc|ENSG00000109320|P19838|NFKB1;ENSG00000109320|ENST00000226574|NFKB1 nc|ENSG00000109320|P19838-3|NFKB1 nc|ENSG00000109320|P19838-3|NFKB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 416.6266784667969 3 416.623581 1246.84891 NaN NaN NaN NaN NaN NaN NaN 71.651 1 71.651 71.151 72.151 0 0 0 0 1.0082 1 34834 34834 0.094841 0.094841 1 10847 1673 6869 6886 12701 12701 0.2353625793834908 ILLLLLFLR 9 Unmodified _ILLLLLFLR_ 0 0 0 ENST00000562118.1_1_16:68857288-68867399:+|nuORF;nc|ENSG00000039068|P12830-2|CDH1;ENST00000562836.5_1_16:68797408-68867399:+|nuORF;ENSG00000039068|ENST00000261769|CDH1 ENST00000562118.1_1_16:68857288-68867399:+|nuORF ENST00000562118.1_1_16:68857288-68867399:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.3058471679688 2 557.391545 1112.76854 NaN NaN NaN NaN NaN NaN NaN 33.324 1 34.112 33.612 34.612 0.78795 0 0 0 0.91206 1 15079 15079 0.6015 0 1 10848 523 6870 6887 12702 12702 0.21666396615296435 ILLLLLKVY 9 Unmodified _ILLLLLKVY_ 0 0 0 nc|ENSG00000122223|Q9BZW8-4|CD244;nc|ENSG00000122223|Q9BZW8-3|CD244;ENSG00000122223|ENST00000368034|CD244;nc|ENSG00000122223|Q9BZW8|CD244 nc|ENSG00000122223|Q9BZW8-4|CD244 nc|ENSG00000122223|Q9BZW8-4|CD244 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.2538146972656 3 363.254494 1086.74165 NaN NaN NaN NaN NaN NaN NaN 75.267 1 75.267 74.767 75.767 0 0 0 0 0.91342 1 36881 36881 0.26902 0.033176 1 10849 2261 6871 6888 12703 12703 0.20175288004134018 ILLLLLKVY 9 Unmodified _ILLLLLKVY_ 0 0 0 nc|ENSG00000122223|Q9BZW8-4|CD244;nc|ENSG00000122223|Q9BZW8-3|CD244;ENSG00000122223|ENST00000368034|CD244;nc|ENSG00000122223|Q9BZW8|CD244 nc|ENSG00000122223|Q9BZW8-4|CD244 nc|ENSG00000122223|Q9BZW8-4|CD244 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.5428466796875 3 363.254494 1086.74165 NaN NaN NaN NaN NaN NaN NaN 34.823 1 35.446 34.946 35.946 0.62294 0 0 0 0.91342 1 15955 15955 0.26902 0.033176 1 10850 2261 6871 6888 12704 12704 0.20175288004134018 ILLLLLKVY 9 Unmodified _ILLLLLKVY_ 0 0 0 nc|ENSG00000122223|Q9BZW8-4|CD244;nc|ENSG00000122223|Q9BZW8-3|CD244;ENSG00000122223|ENST00000368034|CD244;nc|ENSG00000122223|Q9BZW8|CD244 nc|ENSG00000122223|Q9BZW8-4|CD244 nc|ENSG00000122223|Q9BZW8-4|CD244 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.25384521484375 3 363.254494 1086.74165 NaN NaN NaN NaN NaN NaN NaN 71.468 1 72.131 71.631 72.631 0.66324 0 0 0 0.91342 1 32758 32758 0.26902 0.033176 1 10851 2261 6871 6888 12705 12705 0.20175288004134018 ILLLLLLFLYL 11 Unmodified _ILLLLLLFLYL_ 0 0 0 REV__ENST00000352393.8_2_20:34213985-34214111:-|nuORF REV__ENST00000352393.8_2_20:34213985-34214111:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 673.9566040039062 2 673.956718 1345.89888 NaN NaN NaN NaN NaN NaN NaN 89.725 1 90.403 89.903 90.903 0.67818 0 0 0 1.008 1 41309 41309 0.35063 0.043601 1 + 10852 15525 6872 6889 12706 12706 0.23976947823666706 ILLLPFPIPLW 11 Unmodified _ILLLPFPIPLW_ 0 0 0 ENST00000378962.3_1_X:30578303-30578414:-|nuORF ENST00000378962.3_1_X:30578303-30578414:-|nuORF ENST00000378962.3_1_X:30578303-30578414:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.2811584472656 3 441.280932 1320.82097 2.259 0.00099686 -1.3327 -0.00058808 0.92633 0.00040877 441.2803132864364 71.807 0.29237 71.807 71.629 71.921 0 41 26 2 0 0 0 0.91328 1 34898 34898 0.50596 0.50596 1 1540900 10853 7442 6873 6890 12707 12707 0.17338934958274876 ILLLPFPIPLW 11 Unmodified _ILLLPFPIPLW_ 0 0 0 ENST00000378962.3_1_X:30578303-30578414:-|nuORF ENST00000378962.3_1_X:30578303-30578414:-|nuORF ENST00000378962.3_1_X:30578303-30578414:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 441.280932 1320.82097 2.259 0.00099686 -1.3327 -0.00058808 0.92633 0.00040877 441.2803132864364 71.807 0.29237 71.807 71.629 71.921 0 0.12969 0.00024555 NaN 0.50596 41 26 2 NaN NaN NaN NaN 0 NaN NaN 0 1540900 10854 7442 6873 6890 0.17338934958274876 ILLLPFPIPLW 11 Unmodified _ILLLPFPIPLW_ 0 0 0 ENST00000378962.3_1_X:30578303-30578414:-|nuORF ENST00000378962.3_1_X:30578303-30578414:-|nuORF ENST00000378962.3_1_X:30578303-30578414:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 441.280932 1320.82097 2.2392 0.00098809 -1.3646 -0.00060219 0.87451 0.00038591 441.28021162772774 70.984 0.087112 71.688 71.623 71.71 0.70387 0.010666 0.00020324 NaN 0.50596 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 945050 10855 7442 6873 6890 0.17338934958274876 ILLLPFPIPLW 11 Unmodified _ILLLPFPIPLW_ 0 0 0 ENST00000378962.3_1_X:30578303-30578414:-|nuORF ENST00000378962.3_1_X:30578303-30578414:-|nuORF ENST00000378962.3_1_X:30578303-30578414:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 441.280932 1320.82097 2.633 0.0011619 -1.6462 -0.00072644 0.9868 0.00043546 441.28014563157626 71.279 0.40228 71.537 71.405 71.807 0.25785 -0.14035 -0.00016952 NaN 0.50596 79 31 3 NaN NaN NaN NaN 0 NaN NaN 0 1391300 10856 7442 6873 6890 0.17338934958274876 ILLPLLLRVLI 11 Unmodified _ILLPLLLRVLI_ 0 0 0 ENST00000368850.4_3_6:111498427-111514516:+|nuORF;SLC16A10|p.N327Ifs*30|1|0.21|ENSG00000112394|chr6:111206623-111206623|A/-|frameshift_variant;ENSG00000112394|ENST00000368851|SLC16A10 ENST00000368850.4_3_6:111498427-111514516:+|nuORF ENST00000368850.4_3_6:111498427-111514516:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 637.9843139648438 2 638.459959 1274.90537 NaN NaN NaN NaN NaN NaN NaN 74.521 1 75.185 74.685 75.685 0.6644 0 0 0 1.008 1 34305 34305 0.30703 0.30703 1 10857 1809 6874 6891 12708 12708 0.2789088577505936 ILLRLLKHP 9 Unmodified _ILLRLLKHP_ 0 0 0 nc|ENSG00000148842|Q9H8M5-2|CNNM2;ENSG00000148842|ENST00000369878|CNNM2;nc|ENSG00000119946|Q9NRU3-2|CNNM1;ENSG00000119946|ENST00000356713|CNNM1 nc|ENSG00000148842|Q9H8M5-2|CNNM2 nc|ENSG00000148842|Q9H8M5-2|CNNM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1104.0894775390625 1 1102.74591 1101.73863 3.1501 0.0034737 -1.212 -0.0013366 1.938 0.0021371 1102.7440282323496 43.19 0.03624 43.46 43.444 43.481 0.27021 5 3 2 0 0 0 1.2078 1 19722 19722 0.6015 0 1 2050300 10858 3618 6875 6892 12709 12709 0.1918345766996481 ILMKKRHEQEM 11 Unmodified _ILMKKRHEQEM_ 0 0 0 CON__Q99PS0 CON__Q99PS0 CON__Q99PS0 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 721.8848266601562 2 721.883964 1441.75337 NaN NaN NaN NaN NaN NaN NaN 36.94 1 37.734 37.234 38.234 0.79342 0 0 0 1.0073 1 16739 16739 1.1933 0.79263 1 + 10859 241 6876 6893 12710 12710 0.05016793693494037 ILMRLSPRRPL 11 Unmodified _ILMRLSPRRPL_ 0 0 0 ENST00000405460.7_2_5:90059263-90070081:+|nuORF ENST00000405460.7_2_5:90059263-90070081:+|nuORF ENST00000405460.7_2_5:90059263-90070081:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.7153625488281 4 338.714325 1350.82819 2.435 0.00082477 0.49425 0.00016741 2.9293 0.00099218 338.71444083974166 65.48 0.802 66.137 65.692 66.494 0.65672 62 46 2 0 0 0 0.91068 1 30020 30020 0.45452 0 1 794040 10860 7636 6877 6894 12711 12711 0.16681344287053435 ILPEAWAL 8 Unmodified _ILPEAWAL_ 0 0 0 chr6:122761958-122780291|162|23.72|0.0|13.96|+|0|TE_info:L1PA5,L1PA5_dup4732,L1,LINE,donor,+,122761880,122761958|None,FABP7|4 chr6:122761958-122780291|162|23.72|0.0|13.96|+|0|TE_info:L1PA5,L1PA5_dup4732,L1,LINE,donor,+,122761880,122761958|None,FABP7|4 chr6:122761958-122780291|162|23.72|0.0|13.96|+|0|TE_info:L1PA5,L1PA5_dup4732,L1,LINE,donor,+,122761880,122761958|None,FABP7|4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.76202392578125 2 456.763104 911.511654 NaN NaN NaN NaN NaN NaN NaN 47.033 1 47.862 47.362 48.362 0.82915 0 0 0 0.62726 1 21425 21425 24.674 2.9272 1 10861 180 6878 6895 12712 12712 0.05235874391166817 ILPGSLFRF 9 Unmodified _ILPGSLFRF_ 0 0 0 nc|ENSG00000136536|Q9H992-2|MARCHF7;ENSG00000136536|ENST00000409175|MARCHF7 nc|ENSG00000136536|Q9H992-2|MARCHF7 nc|ENSG00000136536|Q9H992-2|MARCHF7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.31201171875 2 525.310752 1048.60695 3.1398 0.0016493 -0.39617 -0.00020811 2.7436 0.0014412 525.3104225611327 81.111 0.65225 81.359 80.979 81.631 0.24802 74 42 2 0 0 0 0.048676 4 37342 37217;37278;37342;37402 47.749 20.093 1 761800 10862 2957 6879 6896 12713;12714;12715;12716 12715 0.08459227582216045 ILPGSLFRF 9 Unmodified _ILPGSLFRF_ 0 0 0 nc|ENSG00000136536|Q9H992-2|MARCHF7;ENSG00000136536|ENST00000409175|MARCHF7 nc|ENSG00000136536|Q9H992-2|MARCHF7 nc|ENSG00000136536|Q9H992-2|MARCHF7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.31298828125 2 525.310752 1048.60695 3.3711 0.0017709 -0.50371 -0.00026461 2.8674 0.0015063 525.3102084785567 80.377 0.76909 81.037 80.652 81.421 0.65998 69 49 2 0 0 0 0.093314 2 37070 36988;37070 34.402 18.555 1 781700 10863 2957 6879 6896 12717;12718 12718 0.08459227582216045 ILPKELQTW 9 Unmodified _ILPKELQTW_ 0 0 0 nc|ENSG00000172466|P17028-2|ZNF24;ENSG00000172466|ENST00000261332|ZNF24 nc|ENSG00000172466|P17028-2|ZNF24 nc|ENSG00000172466|P17028-2|ZNF24 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.3246459960938 2 564.326599 1126.63865 NaN NaN NaN NaN NaN NaN NaN 59.273 1 59.273 58.773 59.773 0 0 0 0 0.019551 1 27396 27396 74.2 26.451 1 10864 4872 6880 6897 12719 12719 0.08039175545513899 ILPKELQTW 9 Unmodified _ILPKELQTW_ 0 0 0 nc|ENSG00000172466|P17028-2|ZNF24;ENSG00000172466|ENST00000261332|ZNF24 nc|ENSG00000172466|P17028-2|ZNF24 nc|ENSG00000172466|P17028-2|ZNF24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.3279418945312 2 564.326599 1126.63865 3.1205 0.001761 -0.34384 -0.00019404 2.7766 0.0015669 564.3263098524975 58.142 0.26126 58.91 58.764 59.025 0.76861 37 33 2 0 0 0 0.0090098 1 26659 26659 83.429 27.926 1 2986200 10865 4872 6880 6897 12720 12720 0.08039175545513899 ILPKELQTW 9 Unmodified _ILPKELQTW_ 0 0 0 nc|ENSG00000172466|P17028-2|ZNF24;ENSG00000172466|ENST00000261332|ZNF24 nc|ENSG00000172466|P17028-2|ZNF24 nc|ENSG00000172466|P17028-2|ZNF24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.3282470703125 2 564.326599 1126.63865 3.5712 0.0020153 -0.30268 -0.00017081 3.2685 0.0018445 564.3264092095568 58.964 0.40091 59.223 59.048 59.449 0.2593 34 20 2 0 0 0 0.044468 1 26988 26988 49.554 25.765 1 1152800 10866 4872 6880 6897 12721 12721 0.08039175545513899 ILPKELQTW 9 Unmodified _ILPKELQTW_ 0 0 0 nc|ENSG00000172466|P17028-2|ZNF24;ENSG00000172466|ENST00000261332|ZNF24 nc|ENSG00000172466|P17028-2|ZNF24 nc|ENSG00000172466|P17028-2|ZNF24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.3287963867188 2 564.326599 1126.63865 3.5954 0.002029 0.19093 0.00010775 3.7864 0.0021367 564.3263436774386 58.341 0.22081 59.008 58.963 59.184 0.66703 26 15 2 0 0 0 0.022157 1 26717 26717 65.474 25.234 1 1422900 10867 4872 6880 6897 12722 12722 0.08039175545513899 ILPKKILASK 10 Unmodified _ILPKKILASK_ 0 0 0 ENSG00000104472|ENST00000220913|CHRAC1 ENSG00000104472|ENST00000220913|CHRAC1 ENSG00000104472|ENST00000220913|CHRAC1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.3065185546875 2 555.884084 1109.75362 3.7242 0.0020702 -3.0274 -0.0016829 0.69677 0.00038732 556.384269945793 98.153 0.056236 98.751 98.739 98.795 0.59885 6 5 2 0 0 0 0.12676 1 45219 45219 1.0715 0 1 4647800 10868 1441 6881 6898 12723 12723 0.2031290474733396 ILPQSRRSNL 10 Unmodified _ILPQSRRSNL_ 0 0 0 REV__ENSG00000092470|ENST00000263795|WDR76 REV__ENSG00000092470|ENST00000263795|WDR76 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.5709533691406 3 395.235045 1182.6833 2.8519 0.0011272 0.0090786 3.5882E-06 2.861 0.0011308 395.235197821416 31.753 0.37981 32.371 32.287 32.667 0.61736 42 24 3 0 0 0 0.48762 1 14634 14634 14.838 4.5227 1 1002300 + 10869 10743 6882 6899 12724 12724 0.09926999411572979 ILPQSRRSNL 10 Unmodified _ILPQSRRSNL_ 0 0 0 REV__ENSG00000092470|ENST00000263795|WDR76 REV__ENSG00000092470|ENST00000263795|WDR76 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 395.235045 1182.6833 2.5836 0.0010211 1.2018 0.00047498 3.7854 0.0014961 395.23529154834137 31.592 0.17549 32.381 32.261 32.437 0.78879 -0.091 0.0011181 NaN 14.838 21 14 2 NaN NaN NaN NaN 0 NaN NaN 0 335850 + 10870 10743 6882 6899 0.09926999411572979 ILQECKWRP 9 Unmodified _ILQECKWRP_ 0 0 0 REV__ENSG00000101003|ENST00000262460|GINS1 REV__ENSG00000101003|ENST00000262460|GINS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.8207397460938 2 586.815876 1171.6172 3.725 0.0021859 2.8604 0.0016785 6.5854 0.0038644 586.816810651492 102.28 0.14701 102.88 102.83 102.97 0.59759 8 6 2 0 0 0 1.1412 1 47378 47378 1.6526 0.17072 1 181200 + 10871 10860 6883 6900 12725 12725 0.03825467245155778 ILQECKWRP 9 Unmodified _ILQECKWRP_ 0 0 0 REV__ENSG00000101003|ENST00000262460|GINS1 REV__ENSG00000101003|ENST00000262460|GINS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 586.815876 1171.6172 4.3358 0.0025443 5.6249 0.0033008 9.9607 0.0058451 586.8185004980435 102.37 0.14439 102.68 102.64 102.78 0.31736 -0.096716 0.00028467 NaN 1.6526 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 126850 + 10872 10860 6883 6900 0.03825467245155778 ILQECKWRP 9 Unmodified _ILQECKWRP_ 0 0 0 REV__ENSG00000101003|ENST00000262460|GINS1 REV__ENSG00000101003|ENST00000262460|GINS1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 586.815876 1171.6172 3.725 0.0021859 2.8604 0.0016785 6.5854 0.0038644 586.816810651492 102.28 0.14701 102.88 102.83 102.97 0.59759 0.096716 -0.0029599 NaN 1.6526 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 181200 + 10873 10860 6883 6900 0.03825467245155778 ILQHGFDSNDS 11 Unmodified _ILQHGFDSNDS_ 0 0 0 REV__ZNF800|p.L431Ifs*9|1|0.35|ENSG00000048405|chr7:127374045-127374046|-/T|frameshift_variant REV__ZNF800|p.L431Ifs*9|1|0.35|ENSG00000048405|chr7:127374045-127374046|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 616.77880859375 2 616.780741 1231.54693 NaN NaN NaN NaN NaN NaN NaN 63.439 1 64.097 63.597 64.597 0.65809 0 0 0 1.0073 1 29072 29072 1.1933 0.59184 1 + 10874 10341 6884 6901 12726 12726 -0.05958159609599534 ILQKQIHF 8 Unmodified _ILQKQIHF_ 0 0 0 REV__ENSG00000205108|ENST00000378788|FAM205A REV__ENSG00000205108|ENST00000378788|FAM205A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.8759460449219 3 342.874677 1025.6022 2.2587 0.00077445 1.1648 0.00039937 3.4235 0.0011738 342.8749620037021 44.655 0.45781 45.476 45.324 45.782 0.82075 66 22 4 0 0 0 0.74071 1 20404 20404 1.6526 0.17072 1 5500300 + 10875 14453 6885 6902 12727 12727 0.0904234343945518 ILQKQIHF 8 Unmodified _ILQKQIHF_ 0 0 0 REV__ENSG00000205108|ENST00000378788|FAM205A REV__ENSG00000205108|ENST00000378788|FAM205A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.8104858398438 2 513.808377 1025.6022 3.2658 0.001678 1.1789 0.00060573 4.4447 0.0022837 513.808849935806 44.974 0.45485 45.242 45.052 45.507 0.26768 52 22 3 0 0 0 0.64692 1 20569 20569 10.183 0.83596 1 1876500 + 10876 14453 6885 6902 12728 12728 0.0904234343945518 ILQMKRKELYN 11 Unmodified _ILQMKRKELYN_ 0 0 0 ENST00000437147.7_1_X:70679048-70680484:+|nuORF ENST00000437147.7_1_X:70679048-70680484:+|nuORF ENST00000437147.7_1_X:70679048-70680484:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 717.9664916992188 2 718.408129 1434.8017 NaN NaN NaN NaN NaN NaN NaN 86.129 1 86.129 85.629 86.629 0 0 0 0 1.0061 1 44067 44067 2.7352 1.5419 1 10877 7903 6886 6903 12729 12729 0.10169610605089474 ILQTALERLQV 11 Unmodified _ILQTALERLQV_ 0 0 0 ENST00000569504.5_1_16:67861593-67861893:+|nuORF;nc|ENSG00000102904|Q2TAA8-2|TSNAXIP1;ENST00000466164.5_1_16:67859786-67861893:+|nuORF;ENST00000568990.5_1_16:67859786-67861893:+|nuORF;nc|ENSG00000102904|Q2TAA8|TSNAXIP1;ENSG00000102904|ENST00000561639|TSNAXIP1 ENST00000569504.5_1_16:67861593-67861893:+|nuORF ENST00000569504.5_1_16:67861593-67861893:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 642.740234375 2 642.387719 1282.76089 NaN NaN NaN NaN NaN NaN NaN 101.46 1 101.46 100.96 101.96 0 0 0 0 1.0034 1 56051 56051 6.1918 1.2948 1 10878 1360 6887 6904 12730 12730 0.13081592557091426 ILRIIRLVRV 10 Unmodified _ILRIIRLVRV_ 0 0 0 ENSG00000143105|ENST00000369771|KCNA10 ENSG00000143105|ENST00000369771|KCNA10 ENSG00000143105|ENST00000369771|KCNA10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 625.9442749023438 2 625.942799 1249.87105 NaN NaN NaN NaN NaN NaN NaN 28.136 1 28.136 27.636 28.636 0 0 0 0 1.0015 1 12681 12681 0.40072 0.40072 1 10879 3342 6888 6905 12731 12731 0.2561048240677337 ILRKKITV 8 Unmodified _ILRKKITV_ 0 0 0 ENST00000497936.5_1_6:84884653-84936120:-|nuORF;nc|ENSG00000135315|Q5TB80-2|CEP162;ENSG00000135315|ENST00000403245|CEP162 REV__ENST00000375321.1_1_10:30727883-30727919:+|nuORF REV__ENST00000375321.1_1_10:30727883-30727919:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.7678527832031 2 485.84222 969.669886 2.3785 0.0011556 -0.22424 -0.00010895 2.1542 0.0010466 485.84234055725466 12.612 0.087893 12.919 12.848 12.936 0.30727 4 2 2 0 0 0 0.14177 1 5669 5669 4.756 0 1 365650 10880 2862 6889 6906 12732 12732 0.18383793370264812 ILRKYKMWYIW 11 Unmodified _ILRKYKMWYIW_ 0 0 0 REV__ENST00000312814.10_1_7:112424908-112424962:-|nuORF REV__ENST00000312814.10_1_7:112424908-112424962:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 800.447265625 2 800.447057 1598.87956 NaN NaN NaN NaN NaN NaN NaN 33.729 1 33.983 33.483 34.483 0.25389 0 0 0 1.008 1 15359 15359 0.35063 0.043601 1 + 10881 15275 6890 6907 12733 12733 0.10407668261109393 ILRLKLVLK 9 Unmodified _ILRLKLVLK_ 0 0 0 ENST00000523111.6_1_8:48974059-48974107:+|nuORF ENST00000523111.6_1_8:48974059-48974107:+|nuORF ENST00000523111.6_1_8:48974059-48974107:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.4004516601562 2 548.402444 1094.79034 NaN NaN NaN NaN NaN NaN NaN 41.842 1 42.112 41.612 42.612 0.27021 0 0 0 0.91452 1 19063 19063 0 0 1 10882 8654 6891 6908 12734 12734 0.24673201363862063 ILRLMVPV 8 Unmodified _ILRLMVPV_ 0 0 0 REV__HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|205|1|anti-sense REV__HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|205|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 314.1968078613281 3 314.205258 939.593944 NaN NaN NaN NaN NaN NaN NaN 48.107 1 48.107 47.607 48.607 0 0 0 0 0.99035 1 22030 22030 1.8442 1.3859 1 + 10883 17733 6892 6909 12735 12735 0.12173073198482598 ILRLMVPV 8 Unmodified _ILRLMVPV_ 0 0 0 REV__HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|205|1|anti-sense REV__HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|205|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 314.1969909667969 3 314.205258 939.593944 NaN NaN NaN NaN NaN NaN NaN 38.484 1 39.118 38.618 39.618 0.63388 0 0 0 0.99035 1 17599 17599 1.6526 0.32309 1 + 10884 17733 6892 6909 12736 12736 0.12173073198482598 ILRLVIQKMTE 11 Unmodified _ILRLVIQKMTE_ 0 0 0 nc|ENSG00000155052|Q8WYK1|CNTNAP5;chr2:124798320-124865306|181|11.67|0.3|5.29|+|ENST00000431078|CNTNAP5,CNTNAP5;chr2:124527456-124563217|175|10.46|0.17|5.96|+|ENST00000431078|CNTNAP5,CNTNAP5;chr2:124524452-124527285|168|12.36|0.22|5.82|+|ENST00000431078|CNTNAP5,CNTNAP5;chr2:124242393-124417443|149|10.09|0.16|5.97|+|ENST00000431078|CNTNAP5,CNTNAP5;ENSG00000155052|ENST00000682447|CNTNAP5 nc|ENSG00000155052|Q8WYK1|CNTNAP5 nc|ENSG00000155052|Q8WYK1|CNTNAP5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 672.4134521484375 2 672.407598 1342.80064 4.1488 0.0027897 1.5643 0.0010519 5.7131 0.0038415 672.4084805781498 94.088 0.52562 94.719 94.43 94.956 0.63115 49 28 2 0 0 0 0.91345 1 43328 43328 0.30703 0.03801 1 473730 10885 160 6893 6910 12737 12737 0.14295396236138913 ILRRLLRRYRE 11 Unmodified _ILRRLLRRYRE_ 0 0 0 ENSG00000108298|ENST00000225430|RPL19 ENSG00000108298|ENST00000225430|RPL19 ENSG00000108298|ENST00000225430|RPL19 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 772.4888305664062 2 772.486425 1542.9583 NaN NaN NaN NaN NaN NaN NaN 67.241 1 67.899 67.399 68.399 0.65777 0 0 0 1.0082 1 30823 30823 0 0 1 10886 1627 6894 6911 12738 12738 0.20853656610393045 ILTELRDKVK 10 Unmodified _ILTELRDKVK_ 0 0 0 nc|ENSG00000068796|O00139-2|KIF2A;nc|ENSG00000068796|O00139-1|KIF2A;nc|ENSG00000068796|O00139-5|KIF2A;nc|ENSG00000068796|O00139|KIF2A;ENSG00000068796|ENST00000407818|KIF2A nc|ENSG00000068796|O00139-2|KIF2A nc|ENSG00000068796|O00139-2|KIF2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 607.880126953125 2 607.876988 1213.73942 NaN NaN NaN NaN NaN NaN NaN 34.077 1 34.077 33.577 34.577 0 0 0 0 0.97438 1 15444 15444 10.824 1.4408 1 10887 740 6895 6912 12739 12739 0.14110207528347019 ILTERGYSF 9 Unmodified _ILTERGYSF_ 0 0 0 ENSG00000159251|ENST00000290378|ACTC1;ENSG00000143632|ENST00000366684|ACTA1;nc|ENSG00000163017|P63267-2|ACTG2;ENSG00000163017|ENST00000345517|ACTG2;ENSG00000107796|ENST00000224784|ACTA2;ENST00000480297.5_1_10:90700968-90708687:-|nuORF;ENST00000450451.1_1_1:238090483-238090852:+|nuORF;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000574671.5_1_17:79477718-79478688:-|nuORF;ENST00000462494.5_1_7:5567381-5568494:-|nuORF;ENST00000436287.1_1_1:224051789-224052101:-|nuORF;ENST00000570019.1_1_15:34666200-34666557:-|nuORF ENSG00000159251|ENST00000290378|ACTC1;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000570019.1_1_15:34666200-34666557:-|nuORF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.28759765625 2 543.284931 1084.55531 3.4802 0.0018907 0.81923 0.00044507 4.2994 0.0023358 543.285439732474 48.295 0.38246 48.295 48.084 48.466 0 31 22 2 0 0 0 0.017449 2 22080 22080;22132 71.708 16.934 1 1022200 10888 832;3384;9082 6896 6913 12740;12741 12740 0.016414390976706272 ILTERGYSF 9 Unmodified _ILTERGYSF_ 0 0 0 ENSG00000159251|ENST00000290378|ACTC1;ENSG00000143632|ENST00000366684|ACTA1;nc|ENSG00000163017|P63267-2|ACTG2;ENSG00000163017|ENST00000345517|ACTG2;ENSG00000107796|ENST00000224784|ACTA2;ENST00000480297.5_1_10:90700968-90708687:-|nuORF;ENST00000450451.1_1_1:238090483-238090852:+|nuORF;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000574671.5_1_17:79477718-79478688:-|nuORF;ENST00000462494.5_1_7:5567381-5568494:-|nuORF;ENST00000436287.1_1_1:224051789-224052101:-|nuORF;ENST00000570019.1_1_15:34666200-34666557:-|nuORF ENSG00000159251|ENST00000290378|ACTC1;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000570019.1_1_15:34666200-34666557:-|nuORF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.2860717773438 2 543.284931 1084.55531 2.9975 0.0016285 0.6799 0.00036938 3.6774 0.0019979 543.2852889177834 47.073 0.3027 47.902 47.793 48.096 0.82915 31 18 2 0 0 0 0.044468 2 21450 21450;21495 49.554 3.5333 1 851040 10889 832;3384;9082 6896 6913 12742;12743 12742 0.016414390976706272 ILTERGYSF 9 Unmodified _ILTERGYSF_ 0 0 0 ENSG00000159251|ENST00000290378|ACTC1;ENSG00000143632|ENST00000366684|ACTA1;nc|ENSG00000163017|P63267-2|ACTG2;ENSG00000163017|ENST00000345517|ACTG2;ENSG00000107796|ENST00000224784|ACTA2;ENST00000480297.5_1_10:90700968-90708687:-|nuORF;ENST00000450451.1_1_1:238090483-238090852:+|nuORF;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000574671.5_1_17:79477718-79478688:-|nuORF;ENST00000462494.5_1_7:5567381-5568494:-|nuORF;ENST00000436287.1_1_1:224051789-224052101:-|nuORF;ENST00000570019.1_1_15:34666200-34666557:-|nuORF ENSG00000159251|ENST00000290378|ACTC1;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000570019.1_1_15:34666200-34666557:-|nuORF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.286865234375 2 543.284931 1084.55531 3.5604 0.0019343 0.72859 0.00039583 4.289 0.0023301 543.2851962968382 48.302 0.36124 48.564 48.347 48.708 0.26209 33 21 2 0 0 0 0.020338 1 22097 22097 67.838 17.905 1 1447800 10890 832;3384;9082 6896 6913 12744 12744 0.016414390976706272 ILTERGYSF 9 Unmodified _ILTERGYSF_ 0 0 0 ENSG00000159251|ENST00000290378|ACTC1;ENSG00000143632|ENST00000366684|ACTA1;nc|ENSG00000163017|P63267-2|ACTG2;ENSG00000163017|ENST00000345517|ACTG2;ENSG00000107796|ENST00000224784|ACTA2;ENST00000480297.5_1_10:90700968-90708687:-|nuORF;ENST00000450451.1_1_1:238090483-238090852:+|nuORF;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000574671.5_1_17:79477718-79478688:-|nuORF;ENST00000462494.5_1_7:5567381-5568494:-|nuORF;ENST00000436287.1_1_1:224051789-224052101:-|nuORF;ENST00000570019.1_1_15:34666200-34666557:-|nuORF ENSG00000159251|ENST00000290378|ACTC1;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000570019.1_1_15:34666200-34666557:-|nuORF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.2874755859375 2 543.284931 1084.55531 3.4857 0.0018937 1.7026 0.00092498 5.1883 0.0028187 543.2854301149329 47.696 0.43898 48.349 48.147 48.586 0.65356 38 19 3 0 0 0 0.021401 2 21820 21820;21882 66.457 14.188 1 1165500 10891 832;3384;9082 6896 6913 12745;12746 12745 0.016414390976706272 ILTKRKLYVVF 11 Unmodified _ILTKRKLYVVF_ 0 0 0 REV__ENSG00000148848|ENST00000448723|ADAM12 REV__ENSG00000148848|ENST00000448723|ADAM12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.7261657714844 4 345.724787 1378.87004 2.2165 0.0007663 1.0201 0.00035266 3.2366 0.001119 345.72510433292484 47.345 0.31726 47.345 47.123 47.441 0 46 16 4 0 0 0 0.91345 1 21604 21604 0.45452 0.35968 1 2596800 + 10892 12553 6897 6914 12747 12747 0.1957622324721342 ILTRKLRKQP 10 Unmodified _ILTRKLRKQP_ 0 0 0 REV__nc|ENSG00000139154|Q6ZN18-3|AEBP2 REV__nc|ENSG00000139154|Q6ZN18-3|AEBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 418.5919189453125 3 418.278585 1251.81392 NaN NaN NaN NaN NaN NaN NaN 51.657 1 51.657 51.157 52.157 0 0 0 0 1.0001 1 23649 23649 0.69767 0.53834 1 + 10893 17964 6898 6915 12748 12748 0.19809015130408625 ILVAAARRL 9 Unmodified _ILVAAARRL_ 0 0 0 REV__ENSG00000204839|ENST00000398882|MROH6 REV__ENSG00000204839|ENST00000398882|MROH6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.2227783203125 3 328.222188 981.644734 1.6395 0.00053813 0.045453 1.4919E-05 1.685 0.00055305 328.2223459693157 12.561 0.30248 12.868 12.72 13.023 0.30727 46 11 6 0 0 0 0.54955 1 5690 5690 7.609 0.88579 1 244340000 + 10894 14440 6899 6916 12749 12749 0.1531773856769405 ILVLKLLVWLL 11 Unmodified _ILVLKLLVWLL_ 0 0 0 REV__ENST00000264501.8_2_4:123270613-123270754:+|nuORF REV__ENST00000264501.8_2_4:123270613-123270754:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 661.9662475585938 2 661.962335 1321.91012 NaN NaN NaN NaN NaN NaN NaN 104.5 1 105.1 104.6 105.6 0.59885 0 0 0 1.0082 1 48280 48280 0 0 1 + 10895 15019 6900 6917 12750 12750 0.2620376991781086 ILVMCLITLF 10 Unmodified _ILVMCLITLF_ 0 0 0 REV__nc|ENSG00000144290|Q6U841-2|SLC4A10 REV__nc|ENSG00000144290|Q6U841-2|SLC4A10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.3433227539062 2 583.339806 1164.66506 3.7306 0.0021762 0.85914 0.00050117 4.5897 0.0026774 583.3401945267481 88.639 0.26643 89.317 89.178 89.444 0.67818 21 11 2 0 0 0 0.30157 1 40794 40794 28.487 1.6032 1 612200 + 10896 12397 6901 6918 12751 12751 0.08931405120961244 ILVMCLITLF 10 Unmodified _ILVMCLITLF_ 0 0 0 REV__nc|ENSG00000144290|Q6U841-2|SLC4A10 REV__nc|ENSG00000144290|Q6U841-2|SLC4A10 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 583.339806 1164.66506 3.7691 0.0021987 0.716 0.00041767 4.4851 0.0026163 583.8416829008436 89.257 0.2196 89.508 89.445 89.664 0.25118 0.095835 -9.741E-05 NaN 28.487 18 9 2 NaN NaN NaN NaN 0 NaN NaN 0 637090 + 10897 12397 6901 6918 0.08931405120961244 ILVMFILFIYV 11 Unmodified _ILVMFILFIYV_ 0 0 0 REV__ENSG00000196187|ENST00000366835|TMEM63A REV__ENSG00000196187|ENST00000366835|TMEM63A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 457.609619140625 3 457.610061 1369.80835 1.4959 0.00068454 -2.4514 -0.0011218 -0.95546 -0.00043723 457.60894841013675 105.96 0.13672 106.01 105.93 106.06 0.04837 11 7 2 0 0 0 0.9102 1 57349 57349 0.50596 0.09769 1 883050 + 10898 14194 6902 6919 12752 12752 0.13824155503721158 ILVMFILFIYV 11 Unmodified _ILVMFILFIYV_ 0 0 0 REV__ENSG00000196187|ENST00000366835|TMEM63A REV__ENSG00000196187|ENST00000366835|TMEM63A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 457.610061 1369.80835 2.4324 0.0011131 -3.7861 -0.0017326 -1.3537 -0.00061947 457.6084108580382 105.82 0.10976 105.82 105.74 105.85 0 -0.25553 0.00023423 NaN 0.50596 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 741730 + 10899 14194 6902 6919 0.13824155503721158 ILVMFILFIYV 11 Unmodified _ILVMFILFIYV_ 0 0 0 REV__ENSG00000196187|ENST00000366835|TMEM63A REV__ENSG00000196187|ENST00000366835|TMEM63A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 457.610061 1369.80835 1.4959 0.00068454 -2.4514 -0.0011218 -0.95546 -0.00043723 457.60894841013675 105.96 0.13672 106.01 105.93 106.06 0.04837 -0.067311 0.0020666 NaN 0.50596 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 883050 + 10900 14194 6902 6919 0.13824155503721158 ILVMFILFIYV 11 Unmodified _ILVMFILFIYV_ 0 0 0 REV__ENSG00000196187|ENST00000366835|TMEM63A REV__ENSG00000196187|ENST00000366835|TMEM63A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 457.610061 1369.80835 3.1515 0.0014422 -4.5314 -0.0020736 -1.3799 -0.00063147 457.60772833978194 105.77 0.14986 106.37 106.26 106.41 0.59969 0.29686 -0.00078895 NaN 0.50596 10 4 3 NaN NaN NaN NaN 0 NaN NaN 0 873890 + 10901 14194 6902 6919 0.13824155503721158 ILWWIFGFFLW 11 Unmodified _ILWWIFGFFLW_ 0 0 0 REV__ENSG00000120457|ENST00000529694|KCNJ5 REV__ENSG00000120457|ENST00000529694|KCNJ5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 764.41552734375 2 764.413009 1526.81146 NaN NaN NaN NaN NaN NaN NaN 56.01 1 56.797 56.297 57.297 0.78711 0 0 0 1.0055 1 25594 25594 3.5965 2.1146 1 + 10902 11539 6903 6920 12753 12753 0.06913166672734405 ILYRQYFYIYK 11 Unmodified _ILYRQYFYIYK_ 0 0 0 REV__ENST00000502773.5_1_4:157683422-157683533:-|nuORF REV__ENST00000502773.5_1_4:157683422-157683533:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 785.2140502929688 2 785.426845 1568.83914 NaN NaN NaN NaN NaN NaN NaN 36.401 1 36.401 35.901 36.901 0 0 0 0 1.0046 1 16522 16522 9.3831 7.9012 1 + 10903 16895 6904 6921 12754 12754 0.07747025142316488 IMAKRKRKH 9 Unmodified _IMAKRKRKH_ 0 0 0 NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant;ENSG00000134250|ENST00000256646|NOTCH2 NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.9142150878906 3 389.91336 1166.71825 2.5699 0.001002 1.0571 0.00041218 3.627 0.0014142 389.91372162715936 35.903 0.90921 35.903 35.484 36.394 0 91 48 2 0 0 0 1.2126 1 16301 16301 0.23584 0 1 808610 10904 2791 6905 6922 12755 12755 0.14155963738539867 IMAKRKRKH 9 Unmodified _IMAKRKRKH_ 0 0 0 NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant;ENSG00000134250|ENST00000256646|NOTCH2 NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 389.914794921875 3 389.91336 1166.71825 2.5205 0.00098278 0.86845 0.00033862 3.389 0.0013214 390.24804566710696 34.815 0.42749 35.604 35.517 35.944 0.78921 44 28 2 0 0 0 1.2126 1 15811 15811 0.23584 0 1 682830 10905 2791 6905 6922 12756 12756 0.14155963738539867 IMAKRKRKH 9 Unmodified _IMAKRKRKH_ 0 0 0 NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant;ENSG00000134250|ENST00000256646|NOTCH2 NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.9150695800781 3 389.91336 1166.71825 2.8697 0.0011189 0.75809 0.00029559 3.6278 0.0014145 389.91349154762287 35.401 0.9845 35.656 35.297 36.281 0.25524 95 40 3 0 0 0 1.2126 2 16076 16076;16142 0.23584 0 1 505840 10906 2791 6905 6922 12757;12758 12757 0.14155963738539867 IMAKRKRKH 9 Unmodified _IMAKRKRKH_ 0 0 0 NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant;ENSG00000134250|ENST00000256646|NOTCH2 NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 389.91336 1166.71825 2.5699 0.001002 1.0571 0.00041218 3.627 0.0014142 389.91372162715936 35.903 0.90921 35.903 35.484 36.394 0 0.22036 0.00018903 NaN 0.23584 91 48 2 NaN NaN NaN NaN 0 NaN NaN 0 808610 10907 2791 6905 6922 0.14155963738539867 IMAKRKRKH 9 Unmodified _IMAKRKRKH_ 0 0 0 NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant;ENSG00000134250|ENST00000256646|NOTCH2 NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 389.91336 1166.71825 2.5205 0.00098278 0.86845 0.00033862 3.389 0.0013214 390.24804566710696 34.815 0.42749 35.604 35.517 35.944 0.78921 -0.079002 -3.1638E-05 NaN 0.23584 44 28 2 NaN NaN NaN NaN 0 NaN NaN 0 682830 10908 2791 6905 6922 0.14155963738539867 IMAKRKRKH 9 Unmodified _IMAKRKRKH_ 0 0 0 NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant;ENSG00000134250|ENST00000256646|NOTCH2 NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 389.91336 1166.71825 2.8697 0.0011189 0.75809 0.00029559 3.6278 0.0014145 389.91349154762287 35.401 0.9845 35.656 35.297 36.281 0.25524 -0.026607 -0.00016073 NaN 0.23584 95 40 3 NaN NaN NaN NaN 0 NaN NaN 0 505840 10909 2791 6905 6922 0.14155963738539867 IMAKRKRKH 9 Unmodified _IMAKRKRKH_ 0 0 0 NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant;ENSG00000134250|ENST00000256646|NOTCH2 NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant NOTCH2|p.T2295Yfs*19|1|0.25|ENSG00000134250|chr1:119915839-119915840|-/TATA|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 389.91336 1166.71825 2.8371 0.0011062 1.087 0.00042382 3.9241 0.00153 389.91372444885826 34.945 0.043739 35.568 35.547 35.591 0.62294 -0.11475 0.00022397 NaN 0.23584 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 615860 10910 2791 6905 6922 0.14155963738539867 IMDGFEQL 8 Unmodified _IMDGFEQL_ 0 0 0 nc|ENSG00000185792|Q7RTR0-2|NLRP9;ENSG00000185792|ENST00000332836|NLRP9 nc|ENSG00000185792|Q7RTR0-2|NLRP9 nc|ENSG00000185792|Q7RTR0-2|NLRP9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.2279052734375 2 476.725861 951.437169 2.4451 0.0011657 -2.1007 -0.0010014 0.34449 0.00016422 476.7247896538691 80.862 0.22752 80.862 80.774 81.002 0 21 15 2 0 0 0 0.60592 1 40241 40241 13.508 0.97634 1 2121600 10911 5532 6906 6923 12759 12759 -0.040492564824944566 IMEMICLP 8 Unmodified _IMEMICLP_ 0 0 0 MCOLN3|p.N456Mfs*18|1|0.3|ENSG00000055732|chr1:85021230-85021230|T/-|frameshift_variant MCOLN3|p.N456Mfs*18|1|0.3|ENSG00000055732|chr1:85021230-85021230|T/-|frameshift_variant MCOLN3|p.N456Mfs*18|1|0.3|ENSG00000055732|chr1:85021230-85021230|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 317.157958984375 3 317.156699 948.448267 NaN NaN NaN NaN NaN NaN NaN 53.006 1 53.809 53.309 54.309 0.80351 0 0 0 0.99035 1 24158 24158 1.8442 0.19162 1 10912 9509 6907 6924 12760 12760 -0.028018937042475045 IMEMICLP 8 Unmodified _IMEMICLP_ 0 0 0 MCOLN3|p.N456Mfs*18|1|0.3|ENSG00000055732|chr1:85021230-85021230|T/-|frameshift_variant MCOLN3|p.N456Mfs*18|1|0.3|ENSG00000055732|chr1:85021230-85021230|T/-|frameshift_variant MCOLN3|p.N456Mfs*18|1|0.3|ENSG00000055732|chr1:85021230-85021230|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.1577453613281 3 317.156699 948.448267 NaN NaN NaN NaN NaN NaN NaN 53.207 1 53.47 52.97 53.97 0.26345 0 0 0 0.99035 1 24329 24329 1.8442 0 1 10913 9509 6907 6924 12761 12761 -0.028018937042475045 IMEMICLP 8 Unmodified _IMEMICLP_ 0 0 0 MCOLN3|p.N456Mfs*18|1|0.3|ENSG00000055732|chr1:85021230-85021230|T/-|frameshift_variant MCOLN3|p.N456Mfs*18|1|0.3|ENSG00000055732|chr1:85021230-85021230|T/-|frameshift_variant MCOLN3|p.N456Mfs*18|1|0.3|ENSG00000055732|chr1:85021230-85021230|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.15789794921875 3 317.156699 948.448267 NaN NaN NaN NaN NaN NaN NaN 53.334 1 53.598 53.098 54.098 0.26345 0 0 0 0.99035 1 24391 24391 1.8442 0.19162 1 10914 9509 6907 6924 12762 12762 -0.028018937042475045 IMKKRKKLTL 10 Unmodified _IMKKRKKLTL_ 0 0 0 ENSG00000088882|ENST00000380605|CPXM1 ENSG00000088882|ENST00000380605|CPXM1 ENSG00000088882|ENST00000380605|CPXM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 629.7459106445312 2 629.923218 1257.83188 3.9111 0.0024637 -2.407 -0.0015162 1.5041 0.00094748 630.4223838216323 54.918 0.022621 54.918 54.906 54.928 0 4 2 2 0 0 0 0.94217 1 25218 25218 0.45834 0 1 1067200 10915 1020 6908 6925 12763 12763 0.21328014060918576 IMKKRKYI 8 Unmodified _IMKKRKYI_ 0 0 0 REV__ENST00000490549.1_1_10:25883203-25888200:+|nuORF REV__ENST00000490549.1_1_10:25883203-25888200:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.5759582519531 3 360.563445 1078.66851 2.4483 0.00088276 -0.96612 -0.00034835 1.4821 0.00053441 360.5629126767805 32.667 0.22308 33.285 33.184 33.407 0.61831 13 10 2 0 0 0 0.7471 1 14994 14994 0.40072 0.1317 1 146930 + 10916 12602 6909 6926 12764 12764 0.13231836009867948 IMKKRKYI 8 Unmodified _IMKKRKYI_ 0 0 0 REV__ENST00000490549.1_1_10:25883203-25888200:+|nuORF REV__ENST00000490549.1_1_10:25883203-25888200:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 360.563445 1078.66851 2.6968 0.00097237 -1.4864 -0.00053595 1.2104 0.00043642 360.5627963847473 33.233 0.20237 33.486 33.376 33.578 0.25389 0.10052 -0.00019139 NaN 0.40072 16 8 2 NaN NaN NaN NaN 0 NaN NaN 0 290720 + 10917 12602 6909 6926 0.13231836009867948 IMKKRLEEF 9 Unmodified _IMKKRLEEF_ 0 0 0 ENST00000475556.1_1_X:106331789-106358666:-|nuORF;nc|ENSG00000089682|Q96IZ5-3|RBM41;nc|ENSG00000089682|Q96IZ5-2|RBM41;nc|ENSG00000089682|Q96IZ5|RBM41;ENSG00000089682|ENST00000685964|RBM41 ENST00000475556.1_1_X:106331789-106358666:-|nuORF ENST00000475556.1_1_X:106331789-106358666:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 398.5630187988281 3 398.561881 1192.66381 2.7141 0.0010817 -0.62654 -0.00024971 2.0875 0.00083201 398.89545169636125 20.759 0.21073 20.759 20.669 20.88 0 22 17 2 0 0 0 0.98132 2 9283 9283;9330 4.897 3.5674 1 144260 10918 1046 6910 6927 12765;12766 12765 0.0751890707642815 IMKKRLEEF 9 Unmodified _IMKKRLEEF_ 0 0 0 ENST00000475556.1_1_X:106331789-106358666:-|nuORF;nc|ENSG00000089682|Q96IZ5-3|RBM41;nc|ENSG00000089682|Q96IZ5-2|RBM41;nc|ENSG00000089682|Q96IZ5|RBM41;ENSG00000089682|ENST00000685964|RBM41 ENST00000475556.1_1_X:106331789-106358666:-|nuORF ENST00000475556.1_1_X:106331789-106358666:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.56304931640625 3 398.561881 1192.66381 3.0852 0.0012297 -0.39968 -0.0001593 2.6855 0.0010704 398.5617404626162 19.678 0.20864 20.336 20.226 20.435 0.6583 39 15 3 0 0 0 0.086415 2 8922 8922;8967 33.445 8.4878 1 413820 10919 1046 6910 6927 12767;12768 12767 0.0751890707642815 IMKKRLEEF 9 Unmodified _IMKKRLEEF_ 0 0 0 ENST00000475556.1_1_X:106331789-106358666:-|nuORF;nc|ENSG00000089682|Q96IZ5-3|RBM41;nc|ENSG00000089682|Q96IZ5-2|RBM41;nc|ENSG00000089682|Q96IZ5|RBM41;ENSG00000089682|ENST00000685964|RBM41 ENST00000475556.1_1_X:106331789-106358666:-|nuORF ENST00000475556.1_1_X:106331789-106358666:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.3412475585938 2 597.339184 1192.66381 NaN NaN NaN NaN NaN NaN NaN 19.699 1 20.357 19.857 20.857 0.6583 0 0 0 0.83378 1 8941 8941 8.1555 1.9497 1 10920 1046 6910 6927 12769 12769 0.0751890707642815 IMKMRPKDL 9 Unmodified _IMKMRPKDL_ 0 0 0 ENSG00000198742|ENST00000361368|SMURF1;nc|ENSG00000198742|Q9HCE7|SMURF1 ENSG00000198742|ENST00000361368|SMURF1 ENSG00000198742|ENST00000361368|SMURF1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.1644592285156 3 377.884078 1130.63041 2.862 0.0010815 0.43942 0.00016605 3.3014 0.0012476 377.8844567679448 19.513 0.1842 20.171 20.066 20.25 0.65829 16 11 2 0 0 0 0.094207 1 8853 8853 17.443 5.202 1 164290 10921 5925 6911 6928 12770 12770 0.07031582032868755 IMRKPRAAVGS 11 Unmodified _IMRKPRAAVGS_ 0 0 0 ENST00000492494.5_1_1:45798942-45805603:-|nuORF;ENST00000479746.6_1_1:45798723-45805603:-|nuORF;ENST00000476789.5_1_1:45798723-45805992:-|nuORF;nc|ENSG00000132781|Q9UIF7-3|MUTYH;nc|ENSG00000132781|Q9UIF7-2|MUTYH;nc|ENSG00000132781|Q9UIF7|MUTYH ENST00000492494.5_1_1:45798942-45805603:-|nuORF ENST00000492494.5_1_1:45798942-45805603:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.9032897949219 3 395.901008 1184.6812 3.0757 0.0012177 2.2062 0.00087345 5.282 0.0020911 395.90212101039697 93.418 0.30657 94.05 93.838 94.145 0.63115 31 15 3 0 0 0 0.89309 1 42982 42982 1.1098 0.14748 1 249910 10922 8236 6912 6929 12771 12771 0.09624247402075525 IMRLREKL 8 Unmodified _IMRLREKL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 353.5558776855469 3 353.55495 1057.64302 2.6592 0.00094016 -0.88833 -0.00031407 1.7708 0.00062608 353.55465055066367 24.058 0.19884 24.058 23.95 24.148 0 72 47 2 0 0 0 0.062889 1 10778 10778 60.074 21.898 1 12077000 10923 483 6913 6930 12772 12772 0.11650361487431837 IMRLREKL 8 Unmodified _IMRLREKL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 353.55596923828125 3 353.55495 1057.64302 1.863 0.00065866 0.26761 9.4614E-05 2.1306 0.00075327 353.5550874680639 23.125 0.30628 23.811 23.589 23.895 0.68536 109 45 3 0 0 0 0.026256 2 10313 10229;10313 78.728 25.785 1 6366300 10924 483 6913 6930 12773;12774 12774 0.11650361487431837 IMRLREKL 8 Unmodified _IMRLREKL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 353.5560302734375 3 353.55495 1057.64302 2.4273 0.00085817 -0.40008 -0.00014145 2.0272 0.00071672 353.5549317161903 23.225 0.22791 23.865 23.72 23.948 0.64051 97 36 4 0 0 0 0.037007 1 10550 10550 69.105 15.272 1 29800000 10925 483 6913 6930 12775 12775 0.11650361487431837 IMRLREKL 8 Unmodified _IMRLREKL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.8311767578125 2 529.828786 1057.64302 3.2216 0.0017069 -0.10206 -5.4073E-05 3.1196 0.0016528 529.8288346446959 23.222 0.14934 23.863 23.746 23.895 0.64051 34 21 2 0 0 0 0.047712 2 10597 10553;10597 66.457 14.188 1 7168600 10926 483 6913 6930 12776;12777 12777 0.11650361487431837 IMRLREKL 8 Oxidation (M) _IM(Oxidation (M))RLREKL_ IM(1)RLREKL IM(46)RLREKL 0 0 1 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 358.8870849609375 3 358.886588 1073.63793 2.3574 0.00084605 -0.48556 -0.00017426 1.8719 0.00067179 358.8863128559367 14.143 0.075982 14.45 14.425 14.501 0.3069 21 9 3 0 0 0 0.17473 1 6399 6399 45.7 11.298 1 4732800 10927 483 6913 6931 12778 12778 1 0.10406057624800269 IMRLREKL 8 Oxidation (M) _IM(Oxidation (M))RLREKL_ 0 0 1 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 358.886588 1073.63793 2.6233 0.00094146 0.016088 5.7739E-06 2.6394 0.00094723 358.8866915590701 14.776 0.56018 14.776 14.595 15.156 0 0.27694 0.00019217 NaN 45.7 115 65 3 NaN NaN NaN NaN 0 NaN NaN 0 280360 10928 483 6913 6931 1 0.10406057624800269 IMRLREKL 8 Oxidation (M) _IM(Oxidation (M))RLREKL_ 0 0 1 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 358.886588 1073.63793 2.3489 0.00084299 -0.25788 -9.2549E-05 2.091 0.00075044 358.8865158571219 14.179 0.49348 14.406 14.286 14.78 0.22622 -0.092967 -0.0001028 NaN 45.7 52 41 2 NaN NaN NaN NaN 0 NaN NaN 0 272790 10929 483 6913 6931 1 0.10406057624800269 IMRLREKL 8 Oxidation (M) _IM(Oxidation (M))RLREKL_ 0 0 1 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 358.886588 1073.63793 2.6222 0.00094107 -0.22643 -8.1264E-05 2.3958 0.0008598 359.2205813571882 13.715 0.16003 14.364 14.28 14.44 0.6482 -0.13492 -6.8949E-05 NaN 45.7 19 11 2 NaN NaN NaN NaN 0 NaN NaN 0 163700 10930 483 6913 6931 1 0.10406057624800269 IMRRLIRL 8 Unmodified _IMRRLIRL_ 0 0 0 REV__ENSG00000168038|ENST00000301831|ULK4 REV__ENSG00000168038|ENST00000301831|ULK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.5719909667969 3 357.570823 1069.69064 2.5371 0.00090718 1.2098 0.00043257 3.7468 0.0013398 357.57112066846577 47.685 0.28577 48.338 48.172 48.458 0.65356 27 12 3 0 0 0 0.68959 1 21846 21846 6.7232 1.8262 1 854060 + 10931 13325 6914 6932 12779 12779 0.15858060478285552 IMRRLIRL 8 Unmodified _IMRRLIRL_ 0 0 0 REV__ENSG00000168038|ENST00000301831|ULK4 REV__ENSG00000168038|ENST00000301831|ULK4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.5513610839844 3 357.570823 1069.69064 2.5371 0.00090718 1.2098 0.00043257 3.7468 0.0013398 357.57112066846577 47.685 0.28577 48.338 48.172 48.458 0.65356 27 12 3 0 0 0 0.13877 1 21802 21802 6.7232 2.7788 1 854060 + 10932 13325 6914 6932 12780 12780 0.15858060478285552 IMRRLIRL 8 Unmodified _IMRRLIRL_ 0 0 0 REV__ENSG00000168038|ENST00000301831|ULK4 REV__ENSG00000168038|ENST00000301831|ULK4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 357.570823 1069.69064 2.7519 0.00098399 0.92629 0.00033121 3.6782 0.0013152 357.5711138341372 48.357 0.28018 48.62 48.428 48.708 0.26209 0.1407 -9.427E-05 NaN 6.7232 33 18 2 NaN NaN NaN NaN 0 NaN NaN 0 925010 + 10933 13325 6914 6932 0.15858060478285552 IMSFLRKPF 9 Unmodified _IMSFLRKPF_ 0 0 0 ENST00000539966.5_1_13:99104953-99105142:-|nuORF ENST00000539966.5_1_13:99104953-99105142:-|nuORF ENST00000539966.5_1_13:99104953-99105142:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.2198791503906 3 380.219567 1137.63687 2.7788 0.0010565 -0.86048 -0.00032717 1.9183 0.00072937 380.2190825273453 62.087 0.25388 62.34 62.155 62.409 0.25245 19 12 2 0 0 0 0.95612 1 28370 28370 2.7352 0.82882 1 560290 10934 8798 6915 6933 12781 12781 0.07355843255913896 IMVALRKLLAK 11 Unmodified _IMVALRKLLAK_ 0 0 0 nc|ENSG00000174970|Q8NH19|OR10AG1;ENSG00000174970|ENST00000641071|OR10AG1 nc|ENSG00000174970|Q8NH19|OR10AG1 nc|ENSG00000174970|Q8NH19|OR10AG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 628.1570434570312 2 628.417768 1254.82098 NaN NaN NaN NaN NaN NaN NaN 20.001 1 20.001 19.501 20.501 0 0 0 0 1.0072 1 8933 8933 1.3295 0.87119 1 10935 5006 6916 6934 12782 12782 0.20376611686606338 INAEPPIT 8 Unmodified _INAEPPIT_ 0 0 0 REV__PAM|p.L580Cfs*5|1|0.35|ENSG00000145730|chr5:103005161-103005161|T/-|frameshift_variant REV__PAM|p.L580Cfs*5|1|0.35|ENSG00000145730|chr5:103005161-103005161|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 427.73406982421875 2 427.734543 853.454533 NaN NaN NaN NaN NaN NaN NaN 64.167 1 64.167 63.667 64.667 0 0 0 0 0.88162 1 30340 30340 13.508 4.9146 1 + 10936 12453 6917 6935 12783 12783 0.021944071148027433 INAGAQLLVH 10 Unmodified _INAGAQLLVH_ 0 0 0 REV__ENST00000480912.5_1_6:31847863-31860642:-|nuORF REV__ENST00000480912.5_1_6:31847863-31860642:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.3493041992188 2 518.300916 1034.58728 2.7417 0.001421 2.1071 0.0010921 4.8488 0.0025132 518.8018146604785 66.214 0.018227 66.919 66.911 66.929 0.7047 4 2 2 0 0 0 0.76575 1 31370 31370 10.074 0 1 1894200 + 10937 14412 6918 6936 12784 12784 0.07136851571476654 INCKPPFV 8 Unmodified _INCKPPFV_ 0 0 0 REV__nc|ENSG00000069702|Q03167-2|TGFBR3 REV__nc|ENSG00000069702|Q03167-2|TGFBR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 459.28009033203125 2 459.249306 916.484059 NaN NaN NaN NaN NaN NaN NaN 75.767 1 76.43 75.93 76.93 0.6635 0 0 0 0.99035 1 36697 36697 2.8892 0.31174 1 + 10938 10471 6919 6937 12785 12785 0.0224764785930347 INDARRRII 9 Unmodified _INDARRRII_ 0 0 0 REV__ENST00000330137.11_1_17:57189456-57189504:-|nuORF REV__ENST00000330137.11_1_17:57189456-57189504:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.2442321777344 3 376.231634 1125.67307 2.7764 0.0010446 -0.78483 -0.00029528 1.9916 0.0007493 376.23147399018006 26.382 0.3019 26.647 26.565 26.867 0.26489 31 23 2 0 0 0 0.78763 1 12038 12038 7.609 0.31972 1 194750 + 10939 15368 6920 6938 12786 12786 0.11526436476992785 INDRKEGNFK 10 Unmodified _INDRKEGNFK_ 0 0 0 L1MEc_dup2393|chr2:91786407-91787312:+|1.5245654449372528|0.182273929221285|3.06|513.0|35|3|sense L1MEc_dup2393|chr2:91786407-91787312:+|1.5245654449372528|0.182273929221285|3.06|513.0|35|3|sense L1MEc_dup2393|chr2:91786407-91787312:+|1.5245654449372528|0.182273929221285|3.06|513.0|35|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.189697265625 2 610.822744 1219.63093 NaN NaN NaN NaN NaN NaN NaN 74.253 1 74.253 73.753 74.753 0 0 0 0 0.9952 1 36260 36260 5.7319 0 1 10940 9452 6921 6939 12787 12787 0.029904162779530452 INERKQGP 8 Unmodified _INERKQGP_ 0 0 0 REV__ENST00000442937.5_1_3:177159829-177347330:+|nuORF REV__ENST00000442937.5_1_3:177159829-177347330:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.2633361816406 2 471.261791 940.509028 3.1176 0.0014692 0.41539 0.00019576 3.533 0.001665 471.2619069837501 19.526 0.18433 20.184 20.081 20.266 0.65829 17 11 2 0 0 0 0.61796 1 8855 8855 12.532 0 1 236850 + 10941 16356 6922 6940 12788 12788 0.03639418986244891 INFILLFYKVT 11 Unmodified _INFILLFYKVT_ 0 0 0 RYR3|p.T4618Pfs*43|1|0.02|ENSG00000198838|chr15:33854439-33854440|-/TCCAGGTGCAG|frameshift_variant;nc|ENSG00000198838|Q15413-2|RYR3;ENSG00000198838|ENST00000634891|RYR3 RYR3|p.T4618Pfs*43|1|0.02|ENSG00000198838|chr15:33854439-33854440|-/TCCAGGTGCAG|frameshift_variant RYR3|p.T4618Pfs*43|1|0.02|ENSG00000198838|chr15:33854439-33854440|-/TCCAGGTGCAG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.9105834960938 2 685.907756 1369.80096 4.3936 0.0030136 1.3579 0.00093142 5.7516 0.0039451 685.908545510543 93.592 1.1827 93.847 93.255 94.437 0.25497 94 57 2 0 0 0 0.91149 1 43037 43037 1.0715 0.10919 1 715590 10942 5947 6923 6941 12789 12789 0.1308513922763268 INFLCVHKKLR 11 Unmodified _INFLCVHKKLR_ 0 0 0 ENSG00000136448|ENST00000258960|NMT1;ENST00000543908.5_1_17:43163921-43175921:+|nuORF;ENST00000590310.1_1_17:43174544-43177067:+|nuORF;nc|ENSG00000136448|P30419-2|NMT1;ENSG00000152465|ENST00000378165|NMT2;NMT2|p.K466Nfs*6|1|0.2|ENSG00000152465|chr10:15109780-15109780|T/-|frameshift_variant ENSG00000136448|ENST00000258960|NMT1;ENSG00000152465|ENST00000378165|NMT2 ENSG00000136448|ENST00000258960|NMT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.9129638671875 2 685.908099 1369.80165 4.1423 0.0028412 0.97008 0.00066539 5.1124 0.0035066 685.9086503027535 93.124 0.98734 93.769 93.171 94.158 0.64504 87 51 2 0 0 0 0.91111 1 42708 42708 1.1933 0.12188 1 850080 10943 2950;3748 6924 6942 12790 12790 0.13153655395717578 INFRDTRKK 9 Unmodified _INFRDTRKK_ 0 0 0 REV__nc|ENSG00000116731|Q13029-5|PRDM2 REV__nc|ENSG00000116731|Q13029-5|PRDM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 393.2302551269531 3 393.231523 1176.67274 1.3102 0.0005152 -1.2744 -0.00050115 0.035736 1.4052E-05 393.23086453682504 104.27 0.21356 104.32 104.18 104.39 0.052994 35 20 2 0 0 0 1.2126 1 56441 56441 0.23584 0 1 484940 + 10944 11416 6925 6943 12791 12791 0.09147016757128767 INFRDTRKK 9 Unmodified _INFRDTRKK_ 0 0 0 REV__nc|ENSG00000116731|Q13029-5|PRDM2 REV__nc|ENSG00000116731|Q13029-5|PRDM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.3447265625 2 589.343646 1176.67274 3.821 0.0022519 -0.57954 -0.00034155 3.2415 0.0019103 589.3430143066869 88.579 0.75498 89.258 89.081 89.836 0.67818 74 32 3 0 0 0 1.129 1 40780 40780 1.8442 0 1 1294300 + 10945 11416 6925 6943 12792 12792 0.09147016757128767 INGVSRATVQW 11 Unmodified _INGVSRATVQW_ 0 0 0 REV__nc|ENSG00000125675|P42263|GRIA3 REV__nc|ENSG00000125675|P42263|GRIA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 615.8338012695312 2 615.833111 1229.65167 NaN NaN NaN NaN NaN NaN NaN 62.694 1 62.694 62.194 63.194 0 0 0 0 0.97175 1 29400 29400 9.3831 0 1 + 10946 11689 6926 6944 12793 12793 0.04603006657612241 INHFHSREKFR 11 Unmodified _INHFHSREKFR_ 0 0 0 REV__ENSG00000221944|ENST00000408957|TIGD1 REV__ENSG00000221944|ENST00000408957|TIGD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 735.6400146484375 2 735.889284 1469.76401 NaN NaN NaN NaN NaN NaN NaN 60.035 1 60.035 59.535 60.535 0 0 0 0 1.0075 1 27812 27812 0.96228 0.56156 1 + 10947 14544 6927 6945 12794 12794 0.04792280454444153 INHLLQVI 8 Unmodified _INHLLQVI_ 0 0 0 REV__nc|ENSG00000164393|Q8IZF7-2|ADGRF2P REV__nc|ENSG00000164393|Q8IZF7-2|ADGRF2P MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.2965087890625 2 475.295102 948.575651 NaN NaN NaN NaN NaN NaN NaN 57.272 1 57.537 57.037 58.037 0.26444 0 0 0 0.38365 1 26214 26214 32.117 0 1 + 10948 18016 6928 6946 12795 12795 0.09930654548145412 INIADFLLRQW 11 Unmodified _INIADFLLRQW_ 0 0 0 nc|ENSG00000288611|P48145|NPBWR1 nc|ENSG00000288611|P48145|NPBWR1 nc|ENSG00000288611|P48145|NPBWR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 694.6829223632812 2 694.887887 1387.76122 NaN NaN NaN NaN NaN NaN NaN 87.66 1 87.7 87.2 88.2 0.039955 0 0 0 1.0059 1 44444 44444 2.9952 0.26005 1 10949 9877 6929 6947 12796 12796 0.0828501227695142 INIFRHLNLFF 11 Unmodified _INIFRHLNLFF_ 0 0 0 ENST00000371335.4_1_X:119571049-119571103:-|nuORF ENST00000371335.4_1_X:119571049-119571103:-|nuORF ENST00000371335.4_1_X:119571049-119571103:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.346923828125 3 478.60659 1432.79794 NaN NaN NaN NaN NaN NaN NaN 62.633 1 63.364 62.864 63.864 0.73077 0 0 0 1.0072 1 29240 29240 1.3296 0.11481 1 10950 7317 6930 6948 12797 12797 0.09885308893490219 INIHLQLKIE 10 Unmodified _INIHLQLKIE_ 0 0 0 REV__L1ME3B_dup1212|chr2:208655412-208656218:+|1.11840693144123|0.1645806624656867|2.76|518.0|30|3|sense REV__L1ME3B_dup1212|chr2:208655412-208656218:+|1.11840693144123|0.1645806624656867|2.76|518.0|30|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 610.5624389648438 2 610.871705 1219.72886 NaN NaN NaN NaN NaN NaN NaN 50.446 1 51.269 50.769 51.769 0.82285 0 0 0 0.99774 1 22978 22978 3.5965 0.31518 1 + 10951 17768 6931 6949 12798 12798 0.1277822487393223 INIILLKIL 9 Unmodified _INIILLKIL_ 0 0 0 ENST00000532383.5_1_11:10828794-10828950:-|nuORF;ENST00000533485.1_1_11:10828341-10828950:-|nuORF ENST00000532383.5_1_11:10828794-10828950:-|nuORF ENST00000532383.5_1_11:10828794-10828950:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.8773193359375 2 526.875728 1051.7369 NaN NaN NaN NaN NaN NaN NaN 64.768 1 64.768 64.268 65.268 0 0 0 0 0.91206 1 30751 30751 0.6015 0.14316 1 10952 8733 6932 6950 12799 12799 0.21310403861366467 INIKKITGLYF 11 Unmodified _INIKKITGLYF_ 0 0 0 REV__ENST00000467953.5_1_1:93575811-93580308:+|nuORF REV__ENST00000467953.5_1_1:93575811-93580308:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.6031494140625 3 437.267463 1308.78056 2.8836 0.0012609 0.96682 0.00042276 3.8505 0.0016837 437.26774739425275 49.355 1.0501 49.355 49.022 50.072 0 163 49 4 0 0 0 0.91104 1 22899 22899 1.2148 0.4383 1 8602100 + 10953 12352 6933 6951 12800 12800 0.13851968567837503 INIKKITGLYF 11 Unmodified _INIKKITGLYF_ 0 0 0 REV__ENST00000467953.5_1_1:93575811-93580308:+|nuORF REV__ENST00000467953.5_1_1:93575811-93580308:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.26898193359375 3 437.267463 1308.78056 2.9505 0.0012902 1.1872 0.00051914 4.1378 0.0018093 437.60226328809813 51.807 0.78082 51.807 51.266 52.047 0 107 50 3 0 0 0 0.89544 1 23753 23753 2.6312 1.4164 1 3239400 + 10954 12352 6933 6951 12801 12801 0.13851968567837503 INIKKITGLYF 11 Unmodified _INIKKITGLYF_ 0 0 0 REV__ENST00000467953.5_1_1:93575811-93580308:+|nuORF REV__ENST00000467953.5_1_1:93575811-93580308:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2692565917969 3 437.267463 1308.78056 3.2062 0.001402 0.98732 0.00043172 4.1935 0.0018337 437.26772062992023 48.493 1.1974 49.148 48.621 49.818 0.65525 149 45 4 0 0 0 0.91104 1 22420 22420 1.2148 0.20126 1 4130600 + 10955 12352 6933 6951 12802 12802 0.13851968567837503 INIKKITGLYF 11 Unmodified _INIKKITGLYF_ 0 0 0 REV__ENST00000467953.5_1_1:93575811-93580308:+|nuORF REV__ENST00000467953.5_1_1:93575811-93580308:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.03302001953125 3 437.267463 1308.78056 2.9094 0.0012722 0.96762 0.00042311 3.877 0.0016953 437.2677843950149 53.647 0.5124 54.312 54.003 54.516 0.6644 42 25 2 0 0 0 0.91104 1 24569 24569 1.2148 0.10508 1 439860 + 10956 12352 6933 6951 12803 12803 0.13851968567837503 INILGRRWRKH 11 Unmodified _INILGRRWRKH_ 0 0 0 REV__ENST00000424010.1_1_2:223185432-223186372:+|nuORF REV__ENST00000424010.1_1_2:223185432-223186372:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.6298828125 3 483.628499 1447.86367 NaN NaN NaN NaN NaN NaN NaN 61.699 1 62.43 61.93 62.93 0.73077 0 0 0 1.0059 1 28651 28651 1.2148 0.10508 1 + 10957 16197 6934 6952 12804 12804 0.15765142859049774 INILVPSL 8 Unmodified _INILVPSL_ 0 0 0 ENSG00000255298|ENST00000641992|OR8G5;nc|ENSG00000255298|Q8NG78|OR8G5 ENSG00000255298|ENST00000641992|OR8G5 ENSG00000255298|ENST00000641992|OR8G5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.7803039550781 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 55.431 1 55.431 54.931 55.931 0 0 0 0 0.99035 1 25474 25474 5.2307 0 1 10958 6283 6935 6953 12805 12805 0.10388447425293634 INKAGRDTTR 10 Unmodified _INKAGRDTTR_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;TTN|p.R30215Vfs*13|1|0.21|ENSG00000155657|chr2:178545544-178545544|G/-|frameshift_variant;nc|ENSG00000155657|Q8WZ42-5|TTN;nc|ENSG00000155657|Q8WZ42-9|TTN;nc|ENSG00000155657|Q8WZ42-10|TTN;nc|ENSG00000155657|Q8WZ42-3|TTN;TTN|p.P20319Hfs*66|1|0.07|ENSG00000155657|chr2:178582577-178582578|-/AAAATAAATAT|frameshift_variant;TTN|p.A15448Hfs*16|1|0.24|ENSG00000155657|chr2:178610249-178610261|TTCTCCTCCCAGC/-|frameshift_variant;TTN|p.G17760Ifs*40|1|0.07|ENSG00000155657|chr2:178594192-178594193|-/TCGACTTCAGAGAT|frameshift_variant;TTN|p.V17759Afs*3|1|0.05|ENSG00000155657|chr2:178594194-178594195|-/G|frameshift_variant;nc|ENSG00000155657|Q8WZ42-6|TTN ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-6|TTN ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.314453125 2 566.315086 1130.61562 NaN NaN NaN NaN NaN NaN NaN 22.786 1 23.374 22.874 23.874 0.58739 0 0 0 0.91843 1 10142 10142 18.373 1.2602 1 10959 3871;9700 6936 6954 12806 12806 0.05553549480737274 INKARHAYE 9 Unmodified _INKARHAYE_ 0 0 0 REV__ENSG00000138160|ENST00000260731|KIF11 REV__ENSG00000138160|ENST00000260731|KIF11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.2960815429688 2 551.293622 1100.57269 NaN NaN NaN NaN NaN NaN NaN 78.933 1 79.397 78.897 79.897 0.4642 0 0 0 0.86044 1 38459 38459 7.2892 2.0586 1 + 10960 12151 6937 6955 12807 12807 0.026427794233086388 INKETVWDMWL 11 Unmodified _INKETVWDMWL_ 0 0 0 REV__ENSG00000035862|ENST00000262768|TIMP2 REV__ENSG00000035862|ENST00000262768|TIMP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.717529296875 3 478.907717 1433.70132 NaN NaN NaN NaN NaN NaN NaN 73.85 1 74.536 74.036 75.036 0.68662 0 0 0 1.0065 1 35653 35653 2.2527 0.92309 1 + 10961 10300 6938 6956 12808 12808 0.0018195355139596359 INKGIKIKK 9 Unmodified _INKGIKIKK_ 0 0 0 AluSz_dup102163|chr22:37886915-37887229:-|2.0182659475000326|0.0002179491274605|13.18|542.0|10|2|sense AluSz_dup102163|chr22:37886915-37887229:-|2.0182659475000326|0.0002179491274605|13.18|542.0|10|2|sense AluSz_dup102163|chr22:37886915-37887229:-|2.0182659475000326|0.0002179491274605|13.18|542.0|10|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.4223022460938 2 521.360776 1040.707 NaN NaN NaN NaN NaN NaN NaN 47.262 1 47.262 46.762 47.762 0 0 0 0 0.90611 1 21635 21635 2.0598 0 1 10962 49 6939 6957 12809 12809 0.18827464916034842 INKGQACF 8 Unmodified _INKGQACF_ 0 0 0 ENSG00000039537|ENST00000337836|C6 ENSG00000039537|ENST00000337836|C6 ENSG00000039537|ENST00000337836|C6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 441.13909912109375 2 440.720913 879.427273 NaN NaN NaN NaN NaN NaN NaN 65.033 1 65.742 65.242 66.242 0.70891 0 0 0 0.95658 1 30691 30691 8.5933 2.2392 1 10963 528 6940 6958 12810 12810 -0.017263996972246787 INKGRKRAA 9 Unmodified _INKGRKRAA_ 0 0 0 ENSG00000121892|ENST00000303538|PDS5A ENSG00000121892|ENST00000303538|PDS5A ENSG00000121892|ENST00000303538|PDS5A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.52362060546875 2 507.319974 1012.6254 2.4825 0.0012594 -2.9828 -0.0015132 -0.50033 -0.00025383 507.8210301498055 68.939 0.047371 68.939 68.914 68.961 0 7 5 2 0 0 0 0.10694 1 33227 33227 7.2892 3.3448 1 1961900 10964 2247 6941 6959 12811 12811 0.11958782276781221 INKIKKKK 8 Unmodified _INKIKKKK_ 0 0 0 ENST00000376510.7_1_10:23409918-23410092:+|nuORF ENST00000376510.7_1_10:23409918-23410092:+|nuORF ENST00000376510.7_1_10:23409918-23410092:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.354736328125 2 500.355494 998.696435 NaN NaN NaN NaN NaN NaN NaN 73.442 1 73.701 73.201 74.201 0.25876 0 0 0 0.99035 1 33733 33733 2.5775 0.27475 1 10965 7401 6942 6960 12812 12812 0.19703482261604677 INKKKKKV 8 Unmodified _INKKKKKV_ 0 0 0 REV__ENSG00000123219|ENST00000396679|CENPK REV__ENSG00000123219|ENST00000396679|CENPK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 493.3490295410156 2 493.347669 984.680785 NaN NaN NaN NaN NaN NaN NaN 88.987 1 88.987 88.487 89.487 0 0 0 0 0.99035 1 46342 46342 2.3027 0 1 + 10966 11611 6943 6961 12813 12813 0.18783195744561 INKKKRKK 8 Unmodified _INKKKRKK_ 0 0 0 REV__ENSG00000182670|ENST00000418766|TTC3 REV__ENSG00000182670|ENST00000418766|TTC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.8648071289062 2 521.864018 1041.71348 NaN NaN NaN NaN NaN NaN NaN 98.512 1 98.812 98.312 99.312 0.29987 0 0 0 0.99035 1 45386 45386 0.79363 0 1 + 10967 13902 6944 6962 12814 12814 0.1942940286742214 INKKRIAL 8 Unmodified _INKKRIAL_ 0 0 0 ENSG00000147604|ENST00000352983|RPL7 ENSG00000147604|ENST00000352983|RPL7 ENSG00000147604|ENST00000352983|RPL7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 319.21942138671875 3 319.218555 954.633835 2.2121 0.00070613 -0.11437 -3.6508E-05 2.0977 0.00066962 319.2185118790711 13.04 0.20967 13.04 12.944 13.154 0 32 10 4 0 0 0 0.17174 1 5718 5718 46.021 7.8454 1 3947000 10968 3576 6945 6963 12815 12815 0.15470336193402545 INKKRIAL 8 Unmodified _INKKRIAL_ 0 0 0 ENSG00000147604|ENST00000352983|RPL7 ENSG00000147604|ENST00000352983|RPL7 ENSG00000147604|ENST00000352983|RPL7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 319.2187805175781 3 319.218555 954.633835 1.8426 0.00058818 0.075559 2.412E-05 1.9181 0.0006123 319.2185497627947 12.713 0.1119 12.975 12.909 13.021 0.26154 27 10 3 0 0 0 0.26626 1 5512 5512 37.974 3.8716 1 5896400 10969 3576 6945 6963 12816 12816 0.15470336193402545 INKKRIAL 8 Unmodified _INKKRIAL_ 0 0 0 ENSG00000147604|ENST00000352983|RPL7 ENSG00000147604|ENST00000352983|RPL7 ENSG00000147604|ENST00000352983|RPL7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.3254699707031 2 478.324194 954.633835 2.5859 0.0012369 0.04007 1.9167E-05 2.6259 0.001256 478.3240455259582 12.709 0.076151 12.971 12.92 12.996 0.26154 11 7 2 0 0 0 0.11358 1 5534 5534 44.407 12.29 1 1042000 10970 3576 6945 6963 12817 12817 0.15470336193402545 INKKRIAL 8 Unmodified _INKKRIAL_ 0 0 0 ENSG00000147604|ENST00000352983|RPL7 ENSG00000147604|ENST00000352983|RPL7 ENSG00000147604|ENST00000352983|RPL7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 319.21905517578125 3 319.218555 954.633835 1.6144 0.00051534 0.40061 0.00012788 2.015 0.00064322 319.21869472543705 12.679 0.14855 12.987 12.909 13.058 0.30727 12 4 4 0 0 0 0.26626 1 5724 5724 37.974 1.847 1 6520600 10971 3576 6945 6963 12818 12818 0.15470336193402545 INKKRIAL 8 Unmodified _INKKRIAL_ 0 0 0 ENSG00000147604|ENST00000352983|RPL7 ENSG00000147604|ENST00000352983|RPL7 ENSG00000147604|ENST00000352983|RPL7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 319.21942138671875 3 319.218555 954.633835 2.454 0.00078336 0.43036 0.00013738 2.8844 0.00092074 319.21865042705497 12.585 0.12861 13.228 13.149 13.278 0.64272 5 3 2 0 0 0 0.23923 1 5665 5665 39.957 7.1716 1 6463700 10972 3576 6945 6963 12819 12819 0.15470336193402545 INKKRIAL 8 Unmodified _INKKRIAL_ 0 0 0 ENSG00000147604|ENST00000352983|RPL7 ENSG00000147604|ENST00000352983|RPL7 ENSG00000147604|ENST00000352983|RPL7 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 478.324194 954.633835 3.4142 0.0016331 0.19379 9.2694E-05 3.608 0.0017258 478.32462021900363 12.585 0.10123 13.228 13.176 13.278 0.64272 0.1285 0.0001179 NaN 44.407 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 1543700 10973 3576 6945 6963 0.15470336193402545 INKLSQKIPYK 11 Unmodified _INKLSQKIPYK_ 0 0 0 REV__ENSG00000155097|ENST00000518738|ATP6V1C1 REV__ENSG00000155097|ENST00000518738|ATP6V1C1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 444.8246154785156 3 444.606367 1330.79727 NaN NaN NaN NaN NaN NaN NaN 60.392 1 61.141 60.641 61.641 0.74927 0 0 0 1.0055 1 27856 27856 3.5927 1.1579 1 + 10974 12735 6946 6964 12820 12820 0.14510469453784935 INKMKWFIMLL 11 Unmodified _INKMKWFIMLL_ 0 0 0 REV__ENST00000251775.8_1_3:125179648-125188319:-|nuORF REV__ENST00000251775.8_1_3:125179648-125188319:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 718.90966796875 2 718.911462 1435.80837 NaN NaN NaN NaN NaN NaN NaN 77.806 1 78.367 77.867 78.867 0.56091 0 0 0 1.0057 1 37775 37775 3.2813 0.54611 1 + 10975 14910 6947 6965 12821 12821 0.10789832232080698 INKQHARRVYE 11 Unmodified _INKQHARRVYE_ 0 0 0 ENST00000457761.6_1_2:172821936-172844354:+|nuORF;nc|ENSG00000128708|O14929-2|HAT1;ENSG00000128708|ENST00000264108|HAT1 ENST00000457761.6_1_2:172821936-172844354:+|nuORF ENST00000457761.6_1_2:172821936-172844354:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.0521240234375 3 471.928503 1412.76368 NaN NaN NaN NaN NaN NaN NaN 61.111 1 61.851 61.351 62.351 0.7396 0 0 0 1.0072 1 28298 28298 0.45452 0 1 10976 2524 6948 6966 12822 12822 0.07380860734610906 INKRIQARRQR 11 Unmodified _INKRIQARRQR_ 0 0 0 REV__ENST00000532739.1_1_16:16463294-16464996:+|nuORF REV__ENST00000532739.1_1_16:16463294-16464996:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 719.9448852539062 2 719.944924 1437.8753 NaN NaN NaN NaN NaN NaN NaN 40.669 1 40.669 40.169 41.169 0 0 0 0 1.008 1 18463 18463 0.35063 0 1 + 10977 15443 6949 6967 12823 12823 0.17387339882384367 INKRKGKWEE 10 Unmodified _INKRKGKWEE_ 0 0 0 REV__ENST00000535153.2_1_14:29253482-29253782:-|nuORF REV__ENST00000535153.2_1_14:29253482-29253782:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 644.214111328125 2 644.362036 1286.70952 NaN NaN NaN NaN NaN NaN NaN 72.123 1 72.786 72.286 73.286 0.66324 0 0 0 0.9754 1 33064 33064 9.3831 0 1 + 10978 17170 6950 6968 12824 12824 0.07763268583084937 INKRRHKWKIR 11 Unmodified _INKRRHKWKIR_ 0 0 0 REV__ENST00000551685.2_1_12:43963803-43964301:-|nuORF REV__ENST00000551685.2_1_12:43963803-43964301:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 768.0354614257812 2 767.98131 1533.94807 NaN NaN NaN NaN NaN NaN NaN 94.347 1 94.347 93.847 94.847 0 0 0 0 1.008 1 50582 50582 0.35063 0.043601 1 + 10979 17289 6951 6969 12825 12825 0.2024509367581686 INKRRHKWKIR 11 Unmodified _INKRRHKWKIR_ 0 0 0 REV__ENST00000551685.2_1_12:43963803-43964301:-|nuORF REV__ENST00000551685.2_1_12:43963803-43964301:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 767.98193359375 2 767.98131 1533.94807 NaN NaN NaN NaN NaN NaN NaN 92.574 1 92.66 92.16 93.16 0.086212 0 0 0 1.008 1 48288 48288 0.35063 0.35063 1 + 10980 17289 6951 6969 12826 12826 0.2024509367581686 INKTYECKECE 11 Unmodified _INKTYECKECE_ 0 0 0 ZNF594|p.V588Gfs*2|1|0.19|ENSG00000180626|chr17:5182494-5182495|-/CC|frameshift_variant;ENSG00000180626|ENST00000575779|ZNF594 ZNF594|p.V588Gfs*2|1|0.19|ENSG00000180626|chr17:5182494-5182495|-/CC|frameshift_variant ZNF594|p.V588Gfs*2|1|0.19|ENSG00000180626|chr17:5182494-5182495|-/CC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 453.8684997558594 3 453.868822 1358.58464 NaN NaN NaN NaN NaN NaN NaN 74.837 1 75.501 75.001 76.001 0.6635 0 0 0 1.0059 1 36184 36184 1.2148 0 1 10981 5257 6952 6970 12827 12827 -0.08031152730654867 INKYFPLHQDQ 11 Unmodified _INKYFPLHQDQ_ 0 0 0 ENST00000310015.10_1_2:174820725-174820848:-|nuORF ENST00000310015.10_1_2:174820725-174820848:-|nuORF ENST00000310015.10_1_2:174820725-174820848:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 701.86181640625 2 701.859326 1401.7041 NaN NaN NaN NaN NaN NaN NaN 70.63 1 71.334 70.834 71.834 0.70386 0 0 0 1.0059 1 33857 33857 2.9952 0 1 10982 6862 6953 6971 12828 12828 0.01931545000547885 INLFWELSYQY 11 Unmodified _INLFWELSYQY_ 0 0 0 REV__ENSG00000114841|ENST00000420323|DNAH1 REV__ENSG00000114841|ENST00000420323|DNAH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 738.3640747070312 2 738.36391 1474.71327 NaN NaN NaN NaN NaN NaN NaN 75.371 1 76.035 75.535 76.535 0.6644 0 0 0 1.008 1 34721 34721 0.35063 0 1 + 10983 11333 6954 6972 12829 12829 -0.005101064337623029 INLLIKGLIIL 11 Unmodified _INLLIKGLIIL_ 0 0 0 REV__ENSG00000173890|ENST00000355897|GPR160 REV__ENSG00000173890|ENST00000355897|GPR160 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 611.929931640625 2 611.928492 1221.84243 NaN NaN NaN NaN NaN NaN NaN 69.5 1 70.203 69.703 70.703 0.70302 0 0 0 1.008 1 33264 33264 0.35063 0 1 + 10984 13617 6955 6973 12830 12830 0.24038319986993884 INLLRLHSVII 11 Unmodified _INLLRLHSVII_ 0 0 0 REV__ENST00000332687.10_1_X:73812380-73812443:-|nuORF REV__ENST00000332687.10_1_X:73812380-73812443:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 645.6981811523438 2 645.916447 1289.81834 NaN NaN NaN NaN NaN NaN NaN 69.549 1 69.549 69.049 70.049 0 0 0 0 0.98464 1 33592 33592 8.1555 2.4237 1 + 10985 15390 6956 6974 12831 12831 0.18502479553330886 INLLVKSFIKW 11 Unmodified _INLLVKSFIKW_ 0 0 0 ENSG00000163634|ENST00000295899|THOC7 ENSG00000163634|ENST00000295899|THOC7 ENSG00000163634|ENST00000295899|THOC7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.3408508300781 3 454.283224 1359.82784 2.259 0.0010262 -0.24851 -0.0001129 2.0105 0.00091332 454.28190990863163 63.119 0.05407 63.842 63.794 63.848 0.72236 6 5 2 0 0 0 0.83518 1 29534 29534 2.4348 1.22 1 1240300 10986 4234 6957 6975 12832 12832 0.1623224783884325 INLPRKRQDRL 11 Unmodified _INLPRKRQDRL_ 0 0 0 REV__ENST00000396052.3_1_16:20912501-20913899:+|nuORF REV__ENST00000396052.3_1_16:20912501-20913899:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 704.925537109375 2 704.928409 1407.84226 NaN NaN NaN NaN NaN NaN NaN 74.323 1 74.581 74.081 75.081 0.25831 0 0 0 1.0059 1 34176 34176 2.9952 1.5133 1 + 10987 15995 6958 6976 12833 12833 0.1546571303967994 INLRAFILTFI 11 Unmodified _INLRAFILTFI_ 0 0 0 REV__ENST00000537276.5_1_12:123416657-123444319:-|nuORF REV__ENST00000537276.5_1_12:123416657-123444319:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 440.9405822753906 3 440.939458 1319.79654 NaN NaN NaN NaN NaN NaN NaN 70.505 1 70.505 70.005 71.005 0 0 0 0 1.0072 1 34222 34222 0.45452 0 1 + 10988 12598 6959 6977 12834 12834 0.14943674804749207 INLREVSTRFR 11 Unmodified _INLREVSTRFR_ 0 0 0 ENSG00000014216|ENST00000279247|CAPN1 ENSG00000014216|ENST00000279247|CAPN1 ENSG00000014216|ENST00000279247|CAPN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 695.949951171875 2 695.899317 1389.78408 NaN NaN NaN NaN NaN NaN NaN 94.507 1 94.593 94.093 95.093 0.086212 0 0 0 1.0044 1 49736 49736 4.897 0.36815 1 10989 435 6960 6978 12835 12835 0.10478031394382015 INLRKLKQKIP 11 Unmodified _INLRKLKQKIP_ 0 0 0 ENST00000361337.2_1_20:39708810-39709869:+|nuORF ENST00000361337.2_1_20:39708810-39709869:+|nuORF ENST00000361337.2_1_20:39708810-39709869:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 675.950439453125 2 675.950821 1349.88709 NaN NaN NaN NaN NaN NaN NaN 61.95 1 61.95 61.45 62.45 0 0 0 0 1.0079 1 28968 28968 1.3295 0.13619 1 10990 7223 6961 6979 12836 12836 0.2261414385302487 INLYKFIHVK 10 Unmodified _INLYKFIHVK_ 0 0 0 REV__nc|ENSG00000130224|Q5VUJ6-2|LRCH2;REV__nc|ENSG00000186001|Q96II8-3|LRCH3 REV__nc|ENSG00000130224|Q5VUJ6-2|LRCH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 637.8837280273438 2 637.884616 1273.75468 NaN NaN NaN NaN NaN NaN NaN 67.882 1 67.882 67.382 68.382 0 0 0 0 0.99774 1 32624 32624 3.5965 0 1 + 10991 11806;14040 6962 6980 12837 12837 0.12875119116210954 INMPIRGLI 9 Unmodified _INMPIRGLI_ 0 0 0 REV__ENST00000406845.1_1_21:24463107-24463425:-|nuORF REV__ENST00000406845.1_1_21:24463107-24463425:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1026.6148681640625 1 1026.61285 1025.60557 3.6175 0.0037138 -1.2574 -0.0012909 2.3601 0.0024229 1026.6115839502627 47.236 0.45301 47.499 47.342 47.795 0.26363 31 18 2 0 0 0 1.129 1 21656 21656 1.8442 0.19162 1 1088400 + 10992 16072 6963 6981 12838 12838 0.09379270221825209 INNIMDYS 8 Unmodified _INNIMDYS_ 0 0 0 ENST00000577730.5_1_16:62055158-62055326:-|nuORF ENST00000577730.5_1_16:62055158-62055326:-|nuORF ENST00000577730.5_1_16:62055158-62055326:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.22296142578125 2 485.220943 968.427332 3.35 0.0016255 1.473 0.00071473 4.823 0.0023402 485.22170109243723 87.203 0.24655 87.878 87.808 88.054 0.67555 13 10 2 0 0 0 0.67495 1 40187 40187 7.9102 1.5561 1 668490 10993 9133 6964 6982 12839 12839 -0.058144444878848844 INNLKQQLDTL 11 Unmodified _INNLKQQLDTL_ 0 0 0 ENST00000449849.2_1_2:203789500-203789902:+|nuORF ENST00000449849.2_1_2:203789500-203789902:+|nuORF ENST00000449849.2_1_2:203789500-203789902:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 650.3670043945312 2 650.366984 1298.71942 NaN NaN NaN NaN NaN NaN NaN 90.521 1 90.596 90.096 91.096 0.075279 0 0 0 1.0041 1 46670 46670 5.2969 1.3525 1 10994 8002 6965 6983 12840 12840 0.0820041179774762 INNRERRLRYE 11 Unmodified _INNRERRLRYE_ 0 0 0 REV__ENSG00000092067|ENST00000206513|CEBPE REV__ENSG00000092067|ENST00000206513|CEBPE MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.0164489746094 3 506.946445 1517.81751 NaN NaN NaN NaN NaN NaN NaN 76.262 1 76.886 76.386 77.386 0.62397 0 0 0 1.0061 1 36956 36956 1.1098 0.65524 1 + 10995 10738 6966 6984 12841 12841 0.07931033166323687 INPDDCEDNDC 11 Unmodified _INPDDCEDNDC_ 0 0 0 nc|ENSG00000184347|O75094-2|SLIT3;nc|ENSG00000184347|O75094-3|SLIT3;ENSG00000184347|ENST00000519560|SLIT3;nc|ENSG00000184347|O75094-4|SLIT3 nc|ENSG00000184347|O75094-2|SLIT3 nc|ENSG00000184347|O75094-2|SLIT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 626.7088012695312 2 626.708267 1251.40198 NaN NaN NaN NaN NaN NaN NaN 74.908 1 75.166 74.666 75.666 0.25831 0 0 0 1.0059 1 34457 34457 2.9952 1.6657 1 10996 5434 6967 6985 12842 12842 -0.21366331863259802 INPFTRRL 8 Unmodified _INPFTRRL_ 0 0 0 REV__nc|ENSG00000165131|Q96L11-3|LLCFC1 REV__nc|ENSG00000165131|Q96L11-3|LLCFC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.8052062988281 2 508.803626 1015.5927 3.1907 0.0016234 0.71055 0.00036153 3.9013 0.001985 508.8038752264305 33.206 0.35526 33.826 33.666 34.021 0.62031 29 19 2 0 0 0 0.67495 1 15261 15261 7.9102 0 1 125350 + 10997 13141 6968 6986 12843 12843 0.08552575153953512 INPFTRRL 8 Unmodified _INPFTRRL_ 0 0 0 REV__nc|ENSG00000165131|Q96L11-3|LLCFC1 REV__nc|ENSG00000165131|Q96L11-3|LLCFC1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 508.803626 1015.5927 3.3256 0.0016921 0.033522 1.7056E-05 3.3591 0.0017091 508.8034195246969 33.719 0.34651 33.973 33.829 34.175 0.25389 0.073387 -0.00033228 NaN 7.9102 27 21 2 NaN NaN NaN NaN 0 NaN NaN 0 229150 + 10998 13141 6968 6986 0.08552575153953512 INPKFHTPMYF 11 Unmodified _INPKFHTPMYF_ 0 0 0 ENSG00000186113|ENST00000335605|OR5D14 ENSG00000186113|ENST00000335605|OR5D14 ENSG00000186113|ENST00000335605|OR5D14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.7530517578125 3 465.569036 1393.68528 NaN NaN NaN NaN NaN NaN NaN 66.136 1 66.136 65.636 66.636 0 0 0 0 1.0059 1 31579 31579 1.2148 0 1 10999 5554 6969 6987 12844 12844 0.004182921051324229 INQIIDKLKHV 11 Unmodified _INQIIDKLKHV_ 0 0 0 ENSG00000179399|ENST00000377067|GPC5 ENSG00000179399|ENST00000377067|GPC5 ENSG00000179399|ENST00000377067|GPC5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 660.9042358398438 2 660.903537 1319.79252 NaN NaN NaN NaN NaN NaN NaN 64.678 1 65.394 64.894 65.894 0.71521 0 0 0 0.99038 1 30483 30483 7.609 1.8771 1 11000 5216 6970 6988 12845 12845 0.1454158531100802 INQLQGEKL 9 Unmodified _INQLQGEKL_ 0 0 0 ENSG00000124279|ENST00000264669|FASTKD3 ENSG00000124279|ENST00000264669|FASTKD3 ENSG00000124279|ENST00000264669|FASTKD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.8003540039062 2 521.798206 1041.58186 NaN NaN NaN NaN NaN NaN NaN 40.887 1 41.156 40.656 41.656 0.26904 0 0 0 0.078562 1 18606 18606 45.7 0 1 11001 2354 6971 6989 12846 12846 0.06273127989015848 INQRKKKIRH 10 Unmodified _INQRKKKIRH_ 0 0 0 Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|49|2|sense Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|49|2|sense Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|49|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 660.9461669921875 2 660.920387 1319.82622 NaN NaN NaN NaN NaN NaN NaN 60.776 1 60.776 60.276 61.276 0 0 0 0 0.94673 1 28286 28286 13.906 5.7505 1 11002 9386 6972 6990 12847 12847 0.17910051593457865 INQRVLEFKP 10 Unmodified _INQRVLEFKP_ 0 0 0 REV__nc|ENSG00000158966|Q5VU97-2|CACHD1 REV__nc|ENSG00000158966|Q5VU97-2|CACHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 415.2445983886719 3 415.243429 1242.70846 2.6902 0.0011171 0.113 4.6921E-05 2.8032 0.001164 415.24345346971586 36.21 0.38403 36.21 35.999 36.383 0 44 19 3 0 0 0 0.69129 2 16456 16393;16456 13.615 4.6386 1 858210 + 11003 12837 6973 6991 12848;12849 12849 0.09681054214138385 INQRVLEFKP 10 Unmodified _INQRVLEFKP_ 0 0 0 REV__nc|ENSG00000158966|Q5VU97-2|CACHD1 REV__nc|ENSG00000158966|Q5VU97-2|CACHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 415.24432373046875 3 415.243429 1242.70846 2.9261 0.001215 -0.49714 -0.00020643 2.4289 0.0010086 415.2431724897774 36.011 0.56021 36.268 35.942 36.502 0.25768 59 24 3 0 0 0 0.62316 1 16414 16414 16.566 7.5896 1 889780 + 11004 12837 6973 6991 12850 12850 0.09681054214138385 INQRVLEFKP 10 Unmodified _INQRVLEFKP_ 0 0 0 REV__nc|ENSG00000158966|Q5VU97-2|CACHD1 REV__nc|ENSG00000158966|Q5VU97-2|CACHD1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 415.243429 1242.70846 2.6902 0.0011171 0.113 4.6921E-05 2.8032 0.001164 415.24345346971586 36.21 0.38403 36.21 35.999 36.383 0 0.036027 0.00021656 NaN 16.566 44 19 3 NaN NaN NaN NaN 0 NaN NaN 0 858210 + 11005 12837 6973 6991 0.09681054214138385 INQRVLEFKP 10 Unmodified _INQRVLEFKP_ 0 0 0 REV__nc|ENSG00000158966|Q5VU97-2|CACHD1 REV__nc|ENSG00000158966|Q5VU97-2|CACHD1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 415.243429 1242.70846 2.9261 0.001215 -0.49714 -0.00020643 2.4289 0.0010086 415.2431724897774 36.011 0.56021 36.268 35.942 36.502 0.25768 0.094415 -0.00054351 NaN 16.566 59 24 3 NaN NaN NaN NaN 0 NaN NaN 0 889780 + 11006 12837 6973 6991 0.09681054214138385 INREFMNITEE 11 Unmodified _INREFMNITEE_ 0 0 0 REV__nc|ENSG00000171962|Q9H069-2|DRC3 REV__nc|ENSG00000171962|Q9H069-2|DRC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 698.62841796875 2 698.332284 1394.65001 NaN NaN NaN NaN NaN NaN NaN 108.7 1 109.01 108.51 109.51 0.31168 0 0 0 1.0073 1 50123 50123 1.1933 0 1 + 11007 13529 6974 6992 12851 12851 -0.03152415213298809 INRIQKLRKK 10 Unmodified _INRIQKLRKK_ 0 0 0 ENSG00000196305|ENST00000443024|IARS1 ENSG00000196305|ENST00000443024|IARS1 ENSG00000196305|ENST00000443024|IARS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.53955078125 2 648.932963 1295.85137 NaN NaN NaN NaN NaN NaN NaN 74.789 1 75.476 74.976 75.976 0.68662 0 0 0 1.0001 1 36154 36154 1.6526 0.17072 1 11008 5731 6975 6993 12852 12852 0.21528106395976465 INRKKREYRV 10 Unmodified _INRKKREYRV_ 0 0 0 REV__ENSG00000176979|ENST00000512596|TRIM60 REV__ENSG00000176979|ENST00000512596|TRIM60 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 681.4113159179688 2 681.409852 1360.80515 NaN NaN NaN NaN NaN NaN NaN 64.691 1 64.691 64.191 65.191 0 0 0 0 0.9754 1 30699 30699 9.3831 2.0939 1 + 11009 13720 6976 6994 12853 12853 0.13918041493911915 INRMYFPFKFF 11 Unmodified _INRMYFPFKFF_ 0 0 0 ENST00000474340.1_1_9:95003027-95004705:-|nuORF ENST00000474340.1_1_9:95003027-95004705:-|nuORF ENST00000474340.1_1_9:95003027-95004705:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 755.3894653320312 2 755.389208 1508.76386 NaN NaN NaN NaN NaN NaN NaN 67.315 1 67.315 66.815 67.815 0 0 0 0 1.008 1 32261 32261 0.35063 0 1 11010 8207 6977 6995 12854 12854 0.029831444102001115 INRNFGKQWIL 11 Unmodified _INRNFGKQWIL_ 0 0 0 REV__ENST00000579434.5_1_18:51796255-51800364:+|nuORF REV__ENST00000579434.5_1_18:51796255-51800364:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.59808349609375 3 463.598094 1387.77245 NaN NaN NaN NaN NaN NaN NaN 52.352 1 53.163 52.663 53.663 0.81065 0 0 0 1.0059 1 23852 23852 1.2148 0 1 + 11011 17500 6978 6996 12855 12855 0.09407834371108947 INRREVEQWF 10 Unmodified _INRREVEQWF_ 0 0 0 ENSG00000131737|ENST00000394001|KRT34;CON__O76011 ENSG00000131737|ENST00000394001|KRT34 ENSG00000131737|ENST00000394001|KRT34 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 459.55694580078125 3 459.573837 1375.69968 2.2207 0.0010206 -2.1821 -0.0010028 0.038646 1.7761E-05 459.572775652516 70.872 0.028412 71.576 71.557 71.585 0.70386 4 2 2 0 0 0 0.94134 1 33996 33996 0.62683 0.12087 1 619090 + 11012 211 6979 6997 12856 12856 0.026860805776323105 INRTNVTIRSH 11 Unmodified _INRTNVTIRSH_ 0 0 0 REV__nc|ENSG00000116120|Q9NSD9-2|FARSB REV__nc|ENSG00000116120|Q9NSD9-2|FARSB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.5796813964844 3 437.581103 1309.72148 NaN NaN NaN NaN NaN NaN NaN 73.035 1 73.699 73.199 74.199 0.66398 0 0 0 1.0062 1 33545 33545 2.6312 0.19645 1 + 11013 11393 6980 6998 12857 12857 0.07900885326216667 INTFIALVIQ 10 Unmodified _INTFIALVIQ_ 0 0 0 ENSG00000135917|ENST00000644224|SLC19A3 ENSG00000135917|ENST00000644224|SLC19A3 ENSG00000135917|ENST00000644224|SLC19A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.3444213867188 2 566.342249 1130.66995 NaN NaN NaN NaN NaN NaN NaN 72.354 1 73.018 72.518 73.518 0.66324 0 0 0 0.9754 1 33183 33183 9.3831 2.66 1 11014 2910 6981 6999 12858 12858 0.10983748579587882 INVEDELPA 9 Unmodified _INVEDELPA_ 0 0 0 ENSG00000131409|ENST00000652263|LRRC4B ENSG00000131409|ENST00000652263|LRRC4B ENSG00000131409|ENST00000652263|LRRC4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.2882080078125 2 500.253297 998.492041 NaN NaN NaN NaN NaN NaN NaN 61.935 1 61.935 61.435 62.435 0 0 0 0 0.84134 1 28959 28959 7.9102 0 1 11015 2659 6982 7000 12859 12859 -0.007265464102374608 INVIAQSYE 9 Unmodified _INVIAQSYE_ 0 0 0 REV__ENST00000479945.1_1_3:58414077-58415536:-|nuORF REV__ENST00000479945.1_1_3:58414077-58415536:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.8966674804688 2 518.769114 1035.52368 NaN NaN NaN NaN NaN NaN NaN 61.712 1 61.712 61.212 62.212 0 0 0 0 0.75166 1 28818 28818 10.824 0 1 + 11016 16684 6983 7001 12860 12860 0.007334463437246086 INVILGSIKS 10 Unmodified _INVILGSIKS_ 0 0 0 REV__ENST00000473577.1_1_13:30091265-30093642:-|nuORF REV__ENST00000473577.1_1_13:30091265-30093642:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.239990234375 2 522.326599 1042.63865 NaN NaN NaN NaN NaN NaN NaN 73.828 1 74.492 73.992 74.992 0.6644 0 0 0 0.97944 1 33963 33963 8.7454 1.1365 1 + 11017 12213 6984 7002 12861 12861 0.11903175545512568 INVKFKPVF 9 Unmodified _INVKFKPVF_ 0 0 0 REV__ENST00000561172.1_1_15:41361731-41364163:-|nuORF REV__ENST00000561172.1_1_15:41361731-41364163:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.3372192382812 2 546.334227 1090.6539 NaN NaN NaN NaN NaN NaN NaN 67.683 1 68.385 67.885 68.885 0.70218 0 0 0 0.89683 1 32208 32208 4.3292 0 1 + 11018 17369 6985 7003 12862 12862 0.11220087133369816 INVKIIEGL 9 Unmodified _INVKIIEGL_ 0 0 0 nc|ENSG00000030304|O15146-3|MUSK;nc|ENSG00000030304|O15146-2|MUSK;ENSG00000030304|ENST00000374448|MUSK nc|ENSG00000030304|O15146-3|MUSK nc|ENSG00000030304|O15146-3|MUSK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.81683349609375 2 499.815867 997.617182 NaN NaN NaN NaN NaN NaN NaN 59.976 1 60.235 59.735 60.735 0.2593 0 0 0 0.84134 1 27465 27465 7.9102 0 1 11019 493 6986 7004 12863 12863 0.11827790516827008 INVMKRMAW 9 Unmodified _INVMKRMAW_ 0 0 0 ENSG00000170903|ENST00000301919|MSANTD4 ENSG00000170903|ENST00000301919|MSANTD4 ENSG00000170903|ENST00000301919|MSANTD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.39892578125 2 574.806996 1147.59944 NaN NaN NaN NaN NaN NaN NaN 66.789 1 67.494 66.994 67.994 0.7047 0 0 0 0.86044 1 31683 31683 7.2892 0 1 11020 4772 6987 7005 12864 12864 0.03154428718653435 INVNKKDIHTK 11 Unmodified _INVNKKDIHTK_ 0 0 0 L1PA6_dup5640|chr19:20482443-20488575:+|1.1762487912993795|0.3545951168651645|1.73|529.0|11|1|sense L1PA6_dup5640|chr19:20482443-20488575:+|1.1762487912993795|0.3545951168651645|1.73|529.0|11|1|sense L1PA6_dup5640|chr19:20482443-20488575:+|1.1762487912993795|0.3545951168651645|1.73|529.0|11|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2584533691406 3 437.257738 1308.75138 3.2673 0.0014286 -1.3265 -0.00058 1.9408 0.00084865 437.2568458273122 94.154 0.73035 94.785 94.581 95.311 0.63115 84 43 3 0 0 0 0.91345 1 43284 43284 0.45452 0.046251 1 476280 11021 9476 6988 7006 12865 12865 0.10935824271541605 INVPLNPVKPL 11 Unmodified _INVPLNPVKPL_ 0 0 0 REV__ENSG00000163618|ENST00000383710|CADPS REV__ENSG00000163618|ENST00000383710|CADPS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 602.2343139648438 2 602.376623 1202.73869 NaN NaN NaN NaN NaN NaN NaN 71.746 1 72.004 71.504 72.504 0.25786 0 0 0 0.94958 1 32901 32901 11.495 2.7493 1 + 11022 13010 6989 7007 12866 12866 0.1454341287931129 INVRWIDEWCH 11 Unmodified _INVRWIDEWCH_ 0 0 0 REV__nc|ENSG00000188227|Q6ZN11-2|ZNF793 REV__nc|ENSG00000188227|Q6ZN11-2|ZNF793 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 490.8925476074219 3 490.903078 1469.6874 NaN NaN NaN NaN NaN NaN NaN 71.604 1 71.862 71.362 72.362 0.25786 0 0 0 1.0073 1 32817 32817 1.2148 0.70888 1 + 11023 14139 6990 7008 12867 12867 -0.028652791570266345 INWDLDMHYE 10 Unmodified _INWDLDMHYE_ 0 0 0 nc|ENSG00000124406|Q9Y2Q0-3|ATP8A1;nc|ENSG00000124406|Q9Y2Q0-2|ATP8A1;ENSG00000124406|ENST00000381668|ATP8A1 nc|ENSG00000124406|Q9Y2Q0-3|ATP8A1 nc|ENSG00000124406|Q9Y2Q0-3|ATP8A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 445.86016845703125 3 445.860656 1334.56014 NaN NaN NaN NaN NaN NaN NaN 61.528 1 62.267 61.767 62.767 0.7396 0 0 0 1.0001 1 28544 28544 0.69767 0.19171 1 11024 2359 6991 7009 12868 12868 -0.09376044821851792 INWFETMWSRM 11 Unmodified _INWFETMWSRM_ 0 0 0 REV__ENST00000455909.5_1_7:55756705-55756747:-|nuORF REV__ENST00000455909.5_1_7:55756705-55756747:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 750.8409423828125 2 750.841765 1499.66898 NaN NaN NaN NaN NaN NaN NaN 67.254 1 67.254 66.754 67.754 0 0 0 0 1.008 1 32214 32214 0.35063 0 1 + 11025 16449 6992 7010 12869 12869 -0.060871571232837596 INWTVLYRRKH 11 Unmodified _INWTVLYRRKH_ 0 0 0 ENSG00000114391|ENST00000394077|RPL24 ENSG00000114391|ENST00000394077|RPL24 ENSG00000114391|ENST00000394077|RPL24 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 743.4270629882812 2 743.425502 1484.83645 NaN NaN NaN NaN NaN NaN NaN 77.236 1 77.797 77.297 78.297 0.56091 0 0 0 1.0061 1 37451 37451 2.7352 1.4057 1 11026 1902 6993 7011 12870 12870 0.11342614527984551 INYEQLRFL 9 Unmodified _INYEQLRFL_ 0 0 0 REV__ENST00000468817.5_1_20:5109393-5167506:+|nuORF REV__ENST00000468817.5_1_20:5109393-5167506:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 598.32861328125 2 598.327131 1194.63971 2.7189 0.0016268 0.50165 0.00030015 3.2206 0.001927 598.3270862632464 71.28 0.27041 71.28 71.181 71.452 0 63 26 3 0 0 0 0.086415 2 34637 34637;34687 36.127 12.106 1 2743000 + 11027 10881 6994 7012 12871;12872 12871 0.050173899144283496 INYEQLRFL 9 Unmodified _INYEQLRFL_ 0 0 0 REV__ENST00000468817.5_1_20:5109393-5167506:+|nuORF REV__ENST00000468817.5_1_20:5109393-5167506:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 598.3297729492188 2 598.327131 1194.63971 2.9399 0.001759 -0.32616 -0.00019515 2.6137 0.0015639 598.3268136382995 70.494 0.18459 71.197 71.036 71.221 0.70386 22 18 2 0 0 0 0.15661 1 33732 33732 26.268 10.119 1 2563100 + 11028 10881 6994 7012 12873 12873 0.050173899144283496 INYEQLRFL 9 Unmodified _INYEQLRFL_ 0 0 0 REV__ENST00000468817.5_1_20:5109393-5167506:+|nuORF REV__ENST00000468817.5_1_20:5109393-5167506:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.3284301757812 2 598.327131 1194.63971 3.5072 0.0020984 -0.064567 -3.8632E-05 3.4426 0.0020598 598.3269485319234 71.264 0.2589 71.522 71.398 71.657 0.25786 41 21 3 0 0 0 0.15661 1 32634 32634 26.268 4.5215 1 1145000 + 11029 10881 6994 7012 12874 12874 0.050173899144283496 INYEQLRFL 9 Unmodified _INYEQLRFL_ 0 0 0 REV__ENST00000468817.5_1_20:5109393-5167506:+|nuORF REV__ENST00000468817.5_1_20:5109393-5167506:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 598.3248291015625 2 598.327131 1194.63971 3.5129 0.0021019 -0.82832 -0.00049561 2.6846 0.0016063 598.3266768870858 70.718 0.27986 71.38 71.229 71.508 0.66209 37 16 3 0 0 0 0.11458 1 32436 32436 29.082 5.061 1 1148200 + 11030 10881 6994 7012 12875 12875 0.050173899144283496 INYEQLRFL 9 Unmodified _INYEQLRFL_ 0 0 0 REV__ENST00000468817.5_1_20:5109393-5167506:+|nuORF REV__ENST00000468817.5_1_20:5109393-5167506:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 598.327131 1194.63971 2.7189 0.0016268 0.50165 0.00030015 3.2206 0.001927 598.3270862632464 71.28 0.27041 71.28 71.181 71.452 0 -0.065013 0.00067827 NaN 36.127 63 26 3 NaN NaN NaN NaN 0 NaN NaN 0 2743000 + 11031 10881 6994 7012 0.050173899144283496 INYEQLRFL 9 Unmodified _INYEQLRFL_ 0 0 0 REV__ENST00000468817.5_1_20:5109393-5167506:+|nuORF REV__ENST00000468817.5_1_20:5109393-5167506:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 598.327131 1194.63971 2.9399 0.001759 -0.32616 -0.00019515 2.6137 0.0015639 598.3268136382995 70.494 0.18459 71.197 71.036 71.221 0.70386 -0.14737 -0.00031233 NaN 36.127 22 18 2 NaN NaN NaN NaN 0 NaN NaN 0 2563100 + 11032 10881 6994 7012 0.050173899144283496 INYEQLRFL 9 Unmodified _INYEQLRFL_ 0 0 0 REV__ENST00000468817.5_1_20:5109393-5167506:+|nuORF REV__ENST00000468817.5_1_20:5109393-5167506:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 598.327131 1194.63971 3.5072 0.0020984 -0.064567 -3.8632E-05 3.4426 0.0020598 598.3269485319234 71.264 0.2589 71.522 71.398 71.657 0.25786 0.17702 7.043E-07 NaN 36.127 41 21 3 NaN NaN NaN NaN 0 NaN NaN 0 1145000 + 11033 10881 6994 7012 0.050173899144283496 INYEQLRFL 9 Unmodified _INYEQLRFL_ 0 0 0 REV__ENST00000468817.5_1_20:5109393-5167506:+|nuORF REV__ENST00000468817.5_1_20:5109393-5167506:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 598.327131 1194.63971 3.5129 0.0021019 -0.82832 -0.00049561 2.6846 0.0016063 598.3266768870858 70.718 0.27986 71.38 71.229 71.508 0.66209 0.035365 -0.00091324 NaN 36.127 37 16 3 NaN NaN NaN NaN 0 NaN NaN 0 1148200 + 11034 10881 6994 7012 0.050173899144283496 INYFFYFCF 9 Unmodified _INYFFYFCF_ 0 0 0 REV__nc|ENSG00000167723|Q8NET8-3|TRPV3 REV__nc|ENSG00000167723|Q8NET8-3|TRPV3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 632.4144287109375 2 632.280803 1262.54705 NaN NaN NaN NaN NaN NaN NaN 106.15 1 106.47 105.97 106.97 0.31628 0 0 0 0.91206 1 48993 48993 0.6015 0 1 + 11035 13305 6995 7013 12876 12876 -0.07371831143336749 IPAARIRGL 9 Unmodified _IPAARIRGL_ 0 0 0 ENST00000393179.8_1_12:89885842-89919131:-|nuORF ENST00000393179.8_1_12:89885842-89919131:-|nuORF ENST00000393179.8_1_12:89885842-89919131:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 322.8793640136719 3 322.878421 965.613434 2.3253 0.00075078 0.18223 5.884E-05 2.5075 0.00080962 322.87863907775227 19.353 0.26505 20.012 19.888 20.153 0.65829 37 18 3 0 0 0 0.15661 1 8778 8778 26.268 4.7312 1 756490 11036 7527 6996 7014 12877 12877 0.1292516553361338 IPAARIRGL 9 Unmodified _IPAARIRGL_ 0 0 0 ENST00000393179.8_1_12:89885842-89919131:-|nuORF ENST00000393179.8_1_12:89885842-89919131:-|nuORF ENST00000393179.8_1_12:89885842-89919131:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 322.878421 965.613434 2.2482 0.00072591 -0.17919 -5.7855E-05 2.0691 0.00066805 322.87855079653804 20.314 0.24428 20.314 20.213 20.457 0 0.19179 -0.00018154 NaN 26.268 37 20 2 NaN NaN NaN NaN 0 NaN NaN 0 307270 11037 7527 6996 7014 0.1292516553361338 IPAARIRGL 9 Unmodified _IPAARIRGL_ 0 0 0 ENST00000393179.8_1_12:89885842-89919131:-|nuORF ENST00000393179.8_1_12:89885842-89919131:-|nuORF ENST00000393179.8_1_12:89885842-89919131:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 322.878421 965.613434 2.1805 0.00070405 0.045611 1.4727E-05 2.2262 0.00071878 322.8784016679382 19.749 0.21436 20.042 19.876 20.09 0.29239 -0.080864 3.6207E-05 NaN 26.268 27 16 2 NaN NaN NaN NaN 0 NaN NaN 0 699950 11038 7527 6996 7014 0.1292516553361338 IPAEDVPLL 9 Unmodified _IPAEDVPLL_ 0 0 0 ENSG00000148606|ENST00000372371|POLR3A ENSG00000148606|ENST00000372371|POLR3A ENSG00000148606|ENST00000372371|POLR3A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.7803039550781 2 483.778951 965.543348 NaN NaN NaN NaN NaN NaN NaN 76.769 1 77.024 76.524 77.524 0.25533 0 0 0 0.69911 1 35350 35350 12.532 4.6214 1 11039 3610 6997 7015 12878 12878 0.059198223544854045 IPALLLCLPL 10 Unmodified _IPALLLCLPL_ 0 0 0 ENSG00000155918|ENST00000367341|RAET1L ENSG00000155918|ENST00000367341|RAET1L ENSG00000155918|ENST00000367341|RAET1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.3422241210938 2 533.340664 1064.66677 3.4441 0.0018369 -0.50614 -0.00026995 2.938 0.001567 533.340277313467 95.189 0.49284 95.806 95.542 96.035 0.61736 75 23 4 0 0 0 0.93534 1 43765 43765 1.8442 1.8442 1 26641000 11040 3884 6998 7016 12879 12879 0.1370278220124419 IPAPDHPAL 9 Unmodified _IPAPDHPAL_ 0 0 0 ENST00000440177.6_1_19:42753452-42753692:-|nuORF ENST00000440177.6_1_19:42753452-42753692:-|nuORF ENST00000440177.6_1_19:42753452-42753692:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.7575988769531 2 465.75581 929.497067 2.8022 0.0013052 0.24649 0.0001148 3.0487 0.00142 465.75599845504314 39.497 0.25388 39.497 39.297 39.551 0 15 8 2 0 0 0 0.035095 1 17885 17885 53.576 27.234 1 687640 11041 7930 6999 7017 12880 12880 0.029498022430288984 IPAPDHPAL 9 Unmodified _IPAPDHPAL_ 0 0 0 ENST00000440177.6_1_19:42753452-42753692:-|nuORF ENST00000440177.6_1_19:42753452-42753692:-|nuORF ENST00000440177.6_1_19:42753452-42753692:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.7572937011719 2 465.75581 929.497067 2.7677 0.0012891 0.58666 0.00027324 3.3544 0.0015623 465.7559972106529 38.362 0.26713 39.16 39.034 39.301 0.79762 19 11 2 0 0 0 0.056465 2 17375 17375;17428 44.407 8.3628 1 561660 11042 7930 6999 7017 12881;12882 12881 0.029498022430288984 IPAPDHPAL 9 Unmodified _IPAPDHPAL_ 0 0 0 ENST00000440177.6_1_19:42753452-42753692:-|nuORF ENST00000440177.6_1_19:42753452-42753692:-|nuORF ENST00000440177.6_1_19:42753452-42753692:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.75714111328125 2 465.75581 929.497067 2.6241 0.0012222 0.61377 0.00028587 3.2378 0.001508 465.7560881574128 39.058 0.33273 39.322 39.144 39.477 0.26408 23 14 2 0 0 0 0.035095 1 17771 17771 53.576 27.234 1 544230 11043 7930 6999 7017 12883 12883 0.029498022430288984 IPAPDHPAL 9 Unmodified _IPAPDHPAL_ 0 0 0 ENST00000440177.6_1_19:42753452-42753692:-|nuORF ENST00000440177.6_1_19:42753452-42753692:-|nuORF ENST00000440177.6_1_19:42753452-42753692:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.75714111328125 2 465.75581 929.497067 2.7774 0.0012936 0.29098 0.00013553 3.0684 0.0014291 465.75584195763435 38.698 0.34833 39.336 39.13 39.479 0.63778 19 12 2 0 0 0 0.056465 1 17710 17710 44.407 14.182 1 539420 11044 7930 6999 7017 12884 12884 0.029498022430288984 IPAPTDLKF 9 Unmodified _IPAPTDLKF_ 0 0 0 ENSG00000115414|ENST00000354785|FN1;nc|ENSG00000115414|P02751-7|FN1;nc|ENSG00000115414|P02751-1|FN1;nc|ENSG00000115414|P02751-4|FN1;nc|ENSG00000115414|P02751-3|FN1;nc|ENSG00000115414|P02751-6|FN1;nc|ENSG00000115414|P02751-5|FN1;nc|ENSG00000115414|P02751-17|FN1;nc|ENSG00000115414|P02751-13|FN1;nc|ENSG00000115414|P02751-11|FN1;nc|ENSG00000115414|P02751-8|FN1;nc|ENSG00000115414|P02751-9|FN1;nc|ENSG00000115414|P02751-14|FN1;nc|ENSG00000115414|P02751-10|FN1;nc|ENSG00000115414|P02751-12|FN1;ENST00000492816.6_1_2:216226280-216244056:-|nuORF ENSG00000115414|ENST00000354785|FN1 ENSG00000115414|ENST00000354785|FN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.2879333496094 2 501.286943 1000.55933 3.2343 0.0016213 -0.27228 -0.00013649 2.962 0.0014848 501.28677658591874 61.37 0.27344 61.622 61.423 61.696 0.25245 28 13 3 0 0 0 0.057945 1 28058 28058 43.772 18.373 1 807110 11045 1968 7000 7018 12885 12885 0.059075285913763764 IPAPTDLKF 9 Unmodified _IPAPTDLKF_ 0 0 0 ENSG00000115414|ENST00000354785|FN1;nc|ENSG00000115414|P02751-7|FN1;nc|ENSG00000115414|P02751-1|FN1;nc|ENSG00000115414|P02751-4|FN1;nc|ENSG00000115414|P02751-3|FN1;nc|ENSG00000115414|P02751-6|FN1;nc|ENSG00000115414|P02751-5|FN1;nc|ENSG00000115414|P02751-17|FN1;nc|ENSG00000115414|P02751-13|FN1;nc|ENSG00000115414|P02751-11|FN1;nc|ENSG00000115414|P02751-8|FN1;nc|ENSG00000115414|P02751-9|FN1;nc|ENSG00000115414|P02751-14|FN1;nc|ENSG00000115414|P02751-10|FN1;nc|ENSG00000115414|P02751-12|FN1;ENST00000492816.6_1_2:216226280-216244056:-|nuORF ENSG00000115414|ENST00000354785|FN1 ENSG00000115414|ENST00000354785|FN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.2872009277344 2 501.286943 1000.55933 3.2225 0.0016154 -0.91289 -0.00045762 2.3096 0.0011578 501.2865188004438 60.734 0.23688 61.397 61.24 61.477 0.66261 21 12 2 0 0 0 0.078225 1 27780 27780 38.176 4.0731 1 835270 11046 1968 7000 7018 12886 12886 0.059075285913763764 IPASELVM 8 Unmodified _IPASELVM_ 0 0 0 ENSG00000143013|ENST00000370544|LMO4 ENSG00000143013|ENST00000370544|LMO4 ENSG00000143013|ENST00000370544|LMO4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 859.4611206054688 1 859.459367 858.45209 3.9187 0.0033679 0.40738 0.00035013 4.326 0.0037181 859.4597229482299 60.978 0.45599 61.234 61.025 61.481 0.25578 27 20 2 0 0 0 0.045989 2 27885 27885;27951 67.035 10.494 1 680650 11047 3338 7001 7019 12887;12888 12887 0.017202353854941066 IPASELVM 8 Unmodified _IPASELVM_ 0 0 0 ENSG00000143013|ENST00000370544|LMO4 ENSG00000143013|ENST00000370544|LMO4 ENSG00000143013|ENST00000370544|LMO4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 859.46142578125 1 859.459367 858.45209 3.9654 0.0034081 0.3657 0.00031431 4.3311 0.0037224 859.4597310610422 60.385 0.33019 61.05 60.86 61.19 0.66503 29 16 2 0 0 0 0.016327 2 27653 27596;27653 90.836 12.391 1 831700 11048 3338 7001 7019 12889;12890 12890 0.017202353854941066 IPASEQETL 9 Unmodified _IPASEQETL_ 0 0 0 nc|ENSG00000135679|Q00987-7|MDM2;ENST00000493419.1_1_12:69202221-69210726:+|nuORF;nc|ENSG00000135679|Q00987-5|MDM2;nc|ENSG00000135679|Q00987-10|MDM2;nc|ENSG00000135679|Q00987-9|MDM2;nc|ENSG00000135679|Q00987|MDM2;ENSG00000135679|ENST00000258149|MDM2;nc|ENSG00000135679|Q00987-6|MDM2;nc|ENSG00000135679|Q00987-4|MDM2;nc|ENSG00000135679|Q00987-3|MDM2;nc|ENSG00000135679|Q00987-2|MDM2 nc|ENSG00000135679|Q00987-7|MDM2 nc|ENSG00000135679|Q00987-7|MDM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.2546691894531 2 494.253297 986.492041 3.2154 0.0015892 0.10017 4.9508E-05 3.3155 0.0016387 494.2533635262343 35.297 0.70264 36.088 35.818 36.521 0.79131 73 39 2 0 0 0 0.0023685 4 15975 15928;15975;16025;16079 100.37 42.9 1 1081400 11049 2888 7002 7020 12891;12892;12893;12894 12892 -0.0017454641023277873 IPASEQETL 9 Unmodified _IPASEQETL_ 0 0 0 nc|ENSG00000135679|Q00987-7|MDM2;ENST00000493419.1_1_12:69202221-69210726:+|nuORF;nc|ENSG00000135679|Q00987-5|MDM2;nc|ENSG00000135679|Q00987-10|MDM2;nc|ENSG00000135679|Q00987-9|MDM2;nc|ENSG00000135679|Q00987|MDM2;ENSG00000135679|ENST00000258149|MDM2;nc|ENSG00000135679|Q00987-6|MDM2;nc|ENSG00000135679|Q00987-4|MDM2;nc|ENSG00000135679|Q00987-3|MDM2;nc|ENSG00000135679|Q00987-2|MDM2 nc|ENSG00000135679|Q00987-7|MDM2 nc|ENSG00000135679|Q00987-7|MDM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.2542724609375 2 494.253297 986.492041 3.1837 0.0015736 -0.15972 -7.8944E-05 3.024 0.0014946 494.2532602133154 35.967 0.93192 36.225 35.894 36.826 0.25768 85 39 3 0 0 0 0.0023685 4 16401 16352;16401;16457;16508 100.37 45.598 1 1244200 11050 2888 7002 7020 12895;12896;12897;12898 12896 -0.0017454641023277873 IPASEQETL 9 Unmodified _IPASEQETL_ 0 0 0 nc|ENSG00000135679|Q00987-7|MDM2;ENST00000493419.1_1_12:69202221-69210726:+|nuORF;nc|ENSG00000135679|Q00987-5|MDM2;nc|ENSG00000135679|Q00987-10|MDM2;nc|ENSG00000135679|Q00987-9|MDM2;nc|ENSG00000135679|Q00987|MDM2;ENSG00000135679|ENST00000258149|MDM2;nc|ENSG00000135679|Q00987-6|MDM2;nc|ENSG00000135679|Q00987-4|MDM2;nc|ENSG00000135679|Q00987-3|MDM2;nc|ENSG00000135679|Q00987-2|MDM2 nc|ENSG00000135679|Q00987-7|MDM2 nc|ENSG00000135679|Q00987-7|MDM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.2549133300781 2 494.253297 986.492041 3.2876 0.0016249 0.026128 1.2914E-05 3.3137 0.0016378 494.2533348665063 35.58 0.76559 36.206 35.87 36.635 0.62631 52 26 3 0 0 0 0.0014044 4 16325 16220;16274;16325;16382 112.59 53.914 1 984440 11051 2888 7002 7020 12899;12900;12901;12902 12901 -0.0017454641023277873 IPCEEGDKL 9 Carbamidomethyl (C) _IPC(Carbamidomethyl (C))EEGDKL_ IPC(1)EEGDKL IPC(130)EEGDKL 0 1 0 nc|ENSG00000163565|Q16666-8|IFI16;nc|ENSG00000163565|Q16666-3|IFI16;ENST00000493884.5_1_1:158984458-159022017:+|nuORF;nc|ENSG00000163565|Q16666-6|IFI16;nc|ENSG00000163565|Q16666-2|IFI16;ENSG00000163565|ENST00000295809|IFI16;IFI16|p.F441Sfs*13|1|0.06|ENSG00000163565|chr1:159032683-159032684|-/CGGGTTTGTTTTTTTCTTTATC|frameshift_variant nc|ENSG00000163565|Q16666-8|IFI16 nc|ENSG00000163565|Q16666-8|IFI16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.7542114257812 2 530.752607 1059.49066 3.0379 0.0016124 0.35111 0.00018635 3.389 0.0017987 530.7529092267905 27.788 0.94137 28.05 27.775 28.716 0.26245 168 66 4 0 0 0 0.00076206 5 12640 12588;12640;12688;12734;12785 128.93 67.575 1 3151800 11052 4225 7003 7021 12903;12904;12905;12906;12907 12904 76 -0.03670503770649702 IPCEEGDKL 9 Carbamidomethyl (C) _IPC(Carbamidomethyl (C))EEGDKL_ IPC(1)EEGDKL IPC(120)EEGDKL 0 1 0 nc|ENSG00000163565|Q16666-8|IFI16;nc|ENSG00000163565|Q16666-3|IFI16;ENST00000493884.5_1_1:158984458-159022017:+|nuORF;nc|ENSG00000163565|Q16666-6|IFI16;nc|ENSG00000163565|Q16666-2|IFI16;ENSG00000163565|ENST00000295809|IFI16;IFI16|p.F441Sfs*13|1|0.06|ENSG00000163565|chr1:159032683-159032684|-/CGGGTTTGTTTTTTTCTTTATC|frameshift_variant nc|ENSG00000163565|Q16666-8|IFI16 nc|ENSG00000163565|Q16666-8|IFI16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.7548217773438 2 530.752607 1059.49066 3.1653 0.00168 0.40789 0.00021649 3.5732 0.0018965 530.7529188316873 27.433 1.0104 28.055 27.665 28.676 0.62178 172 66 4 0 0 0 0.0013355 5 12523 12523;12564;12610;12659;12716 117.76 59.082 1 3163400 11053 4225 7003 7021 12908;12909;12910;12911;12912 12908 76 -0.03670503770649702 IPCEEGDKLQL 11 Carbamidomethyl (C) _IPC(Carbamidomethyl (C))EEGDKLQL_ IPC(1)EEGDKLQL IPC(73)EEGDKLQL 0 1 0 nc|ENSG00000163565|Q16666-8|IFI16;nc|ENSG00000163565|Q16666-3|IFI16;ENST00000493884.5_1_1:158984458-159022017:+|nuORF;nc|ENSG00000163565|Q16666-6|IFI16;nc|ENSG00000163565|Q16666-2|IFI16;ENSG00000163565|ENST00000295809|IFI16;IFI16|p.F441Sfs*13|1|0.06|ENSG00000163565|chr1:159032683-159032684|-/CGGGTTTGTTTTTTTCTTTATC|frameshift_variant nc|ENSG00000163565|Q16666-8|IFI16 nc|ENSG00000163565|Q16666-8|IFI16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 651.32666015625 2 651.323928 1300.6333 NaN NaN NaN NaN NaN NaN NaN 48.142 1 48.404 47.904 48.904 0.26209 0 0 0 0.0016725 1 22005 22005 73.196 40.411 1 11054 4225 7004 7022 12913 12913 76 -0.0049891609926362435 IPCEEGDKLQL 11 Carbamidomethyl (C) _IPC(Carbamidomethyl (C))EEGDKLQL_ IPC(1)EEGDKLQL IPC(43)EEGDKLQL 0 1 0 nc|ENSG00000163565|Q16666-8|IFI16;nc|ENSG00000163565|Q16666-3|IFI16;ENST00000493884.5_1_1:158984458-159022017:+|nuORF;nc|ENSG00000163565|Q16666-6|IFI16;nc|ENSG00000163565|Q16666-2|IFI16;ENSG00000163565|ENST00000295809|IFI16;IFI16|p.F441Sfs*13|1|0.06|ENSG00000163565|chr1:159032683-159032684|-/CGGGTTTGTTTTTTTCTTTATC|frameshift_variant nc|ENSG00000163565|Q16666-8|IFI16 nc|ENSG00000163565|Q16666-8|IFI16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 651.3262939453125 2 651.323928 1300.6333 3.9569 0.0025772 0.25022 0.00016298 4.2071 0.0027402 651.3239114595228 47.605 0.52325 48.259 48.063 48.586 0.65356 32 23 2 0 0 0 0.097361 1 21811 21811 42.835 25.893 1 450510 11055 4225 7004 7022 12914 12914 76 -0.0049891609926362435 IPCFCDHS 8 Unmodified _IPCFCDHS_ 0 0 0 ENST00000437764.5_1_1:210405113-210407126:-|nuORF ENST00000437764.5_1_1:210405113-210407126:-|nuORF ENST00000437764.5_1_1:210405113-210407126:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 461.5242614746094 2 461.183306 920.352059 NaN NaN NaN NaN NaN NaN NaN 68.437 1 68.437 67.937 68.937 0 0 0 0 0.99035 1 32951 32951 2.5775 0 1 11056 7909 7005 7023 12915 12915 -0.11130325219960469 IPCPTVVLL 9 Carbamidomethyl (C) _IPC(Carbamidomethyl (C))PTVVLL_ IPC(1)PTVVLL IPC(64)PTVVLL 0 1 0 nc|ENSG00000101782|O14730-2|RIOK3;ENSG00000101782|ENST00000339486|RIOK3;ENST00000581302.5_1_18:21033283-21057068:+|nuORF;ENST00000581339.1_1_18:21053400-21057068:+|nuORF nc|ENSG00000101782|O14730-2|RIOK3 nc|ENSG00000101782|O14730-2|RIOK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.3009948730469 2 506.298996 1010.58344 3.2856 0.0016635 -0.02933 -1.485E-05 3.2563 0.0016487 506.2990532539919 84.809 0.40488 85.056 84.855 85.26 0.24757 51 20 3 0 0 0 0.023627 1 39043 39043 63.563 9.9873 1 2719700 11057 1313 7006 7024 12916 12916 32 0.078570457534056 IPCPTVVLL 9 Carbamidomethyl (C) _IPC(Carbamidomethyl (C))PTVVLL_ IPC(1)PTVVLL IPC(74)PTVVLL 0 1 0 nc|ENSG00000101782|O14730-2|RIOK3;ENSG00000101782|ENST00000339486|RIOK3;ENST00000581302.5_1_18:21033283-21057068:+|nuORF;ENST00000581339.1_1_18:21053400-21057068:+|nuORF nc|ENSG00000101782|O14730-2|RIOK3 nc|ENSG00000101782|O14730-2|RIOK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.3009033203125 2 506.298996 1010.58344 3.4091 0.001726 -0.48368 -0.00024489 2.9254 0.0014812 506.29888268189666 84.252 0.38879 84.914 84.757 85.146 0.66219 58 21 4 0 0 0 0.015487 1 38779 38779 74.396 14.007 1 2849500 11058 1313 7006 7024 12917 12917 32 0.078570457534056 IPCPTVVLL 9 Carbamidomethyl (C) _IPC(Carbamidomethyl (C))PTVVLL_ IPC(1)PTVVLL IPC(78)PTVVLL 0 1 0 nc|ENSG00000101782|O14730-2|RIOK3;ENSG00000101782|ENST00000339486|RIOK3;ENST00000581302.5_1_18:21033283-21057068:+|nuORF;ENST00000581339.1_1_18:21053400-21057068:+|nuORF nc|ENSG00000101782|O14730-2|RIOK3 nc|ENSG00000101782|O14730-2|RIOK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1011.5940551757812 1 1011.59072 1010.58344 3.772 0.0038157 -0.70893 -0.00071715 3.063 0.0030985 1011.590176933938 84.241 0.28017 84.903 84.792 85.072 0.66219 23 15 2 0 0 0 0.012869 1 38819 38819 77.984 24.409 1 807730 11059 1313 7006 7024 12918 12918 32 0.078570457534056 IPCPTVVLL 9 Carbamidomethyl (C) _IPC(Carbamidomethyl (C))PTVVLL_ 0 1 0 nc|ENSG00000101782|O14730-2|RIOK3;ENSG00000101782|ENST00000339486|RIOK3;ENST00000581302.5_1_18:21033283-21057068:+|nuORF;ENST00000581339.1_1_18:21053400-21057068:+|nuORF nc|ENSG00000101782|O14730-2|RIOK3 nc|ENSG00000101782|O14730-2|RIOK3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 1011.59072 1010.58344 3.5166 0.0035574 -0.77456 -0.00078354 2.742 0.0027738 1011.5898865261698 84.89 0.24211 85.138 84.932 85.174 0.24757 0.11723 -5.3608E-05 NaN 77.984 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 665350 11060 1313 7006 7024 32 0.078570457534056 IPDATGRLEIL 11 Unmodified _IPDATGRLEIL_ 0 0 0 ENSG00000165280|ENST00000358901|VCP;ENST00000493886.5_1_9:35057116-35062147:-|nuORF ENSG00000165280|ENST00000358901|VCP ENSG00000165280|ENST00000358901|VCP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 599.8497924804688 2 599.34552 1196.67649 3.6118 0.0021647 0.52922 0.00031718 4.141 0.0024819 599.3456927920032 64.212 0.27145 64.46 64.328 64.599 0.24802 29 17 2 0 0 0 0.23529 1 29446 29446 27.088 3.0678 1 464770 11061 4385 7007 7025 12919 12919 0.0860164174032434 IPDDDNERL 9 Unmodified _IPDDDNERL_ 0 0 0 ENST00000544802.5_1_7:72593260-72619478:+|nuORF;nc|ENSG00000263001|P78347-2|GTF2I;nc|ENSG00000263001|P78347-4|GTF2I;nc|ENSG00000263001|P78347-3|GTF2I;ENSG00000263001|ENST00000573035|GTF2I ENST00000544802.5_1_7:72593260-72619478:+|nuORF ENST00000544802.5_1_7:72593260-72619478:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.759765625 2 543.756735 1085.49892 NaN NaN NaN NaN NaN NaN NaN 27.984 1 27.984 27.484 28.484 0 0 0 0 0.75242 1 12610 12610 10.8 1.4164 1 11062 6316 7008 7026 12920 12920 -0.04041233529665078 IPDDDNERL 9 Unmodified _IPDDDNERL_ 0 0 0 ENST00000544802.5_1_7:72593260-72619478:+|nuORF;nc|ENSG00000263001|P78347-2|GTF2I;nc|ENSG00000263001|P78347-4|GTF2I;nc|ENSG00000263001|P78347-3|GTF2I;ENSG00000263001|ENST00000573035|GTF2I ENST00000544802.5_1_7:72593260-72619478:+|nuORF ENST00000544802.5_1_7:72593260-72619478:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.7586059570312 2 543.756735 1085.49892 NaN NaN NaN NaN NaN NaN NaN 27.79 1 28.053 27.553 28.553 0.26245 0 0 0 0.75242 1 12637 12637 10.8 3.1906 1 11063 6316 7008 7026 12921 12921 -0.04041233529665078 IPDDDNERL 9 Unmodified _IPDDDNERL_ 0 0 0 ENST00000544802.5_1_7:72593260-72619478:+|nuORF;nc|ENSG00000263001|P78347-2|GTF2I;nc|ENSG00000263001|P78347-4|GTF2I;nc|ENSG00000263001|P78347-3|GTF2I;ENSG00000263001|ENST00000573035|GTF2I ENST00000544802.5_1_7:72593260-72619478:+|nuORF ENST00000544802.5_1_7:72593260-72619478:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.759033203125 2 543.756735 1085.49892 NaN NaN NaN NaN NaN NaN NaN 28.005 1 28.267 27.767 28.767 0.26245 0 0 0 0.86621 1 12735 12735 7.1017 1.8711 1 11064 6316 7008 7026 12922 12922 -0.04041233529665078 IPDDDNERL 9 Unmodified _IPDDDNERL_ 0 0 0 ENST00000544802.5_1_7:72593260-72619478:+|nuORF;nc|ENSG00000263001|P78347-2|GTF2I;nc|ENSG00000263001|P78347-4|GTF2I;nc|ENSG00000263001|P78347-3|GTF2I;ENSG00000263001|ENST00000573035|GTF2I ENST00000544802.5_1_7:72593260-72619478:+|nuORF ENST00000544802.5_1_7:72593260-72619478:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.7590942382812 2 543.756735 1085.49892 NaN NaN NaN NaN NaN NaN NaN 27.376 1 27.998 27.498 28.498 0.62179 0 0 0 0.83378 1 12551 12551 8.1555 2.4237 1 11065 6316 7008 7026 12923 12923 -0.04041233529665078 IPDDDNERL 9 Unmodified _IPDDDNERL_ 0 0 0 ENST00000544802.5_1_7:72593260-72619478:+|nuORF;nc|ENSG00000263001|P78347-2|GTF2I;nc|ENSG00000263001|P78347-4|GTF2I;nc|ENSG00000263001|P78347-3|GTF2I;ENSG00000263001|ENST00000573035|GTF2I ENST00000544802.5_1_7:72593260-72619478:+|nuORF ENST00000544802.5_1_7:72593260-72619478:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.7587280273438 2 543.756735 1085.49892 NaN NaN NaN NaN NaN NaN NaN 27.482 1 28.104 27.604 28.604 0.62179 0 0 0 0.75242 1 12600 12600 10.8 5.0677 1 11066 6316 7008 7026 12924 12924 -0.04041233529665078 IPDDDNQVV 9 Unmodified _IPDDDNQVV_ 0 0 0 ENSG00000091136|ENST00000222399|LAMB1 ENSG00000091136|ENST00000222399|LAMB1 ENSG00000091136|ENST00000222399|LAMB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.74200439453125 2 507.740554 1013.46655 NaN NaN NaN NaN NaN NaN NaN 36.804 1 37.062 36.562 37.562 0.25768 0 0 0 0.65681 1 16763 16763 13.906 3.0821 1 11067 1073 7009 7027 12925 12925 -0.0396402093266488 IPDDVMTRL 9 Unmodified _IPDDVMTRL_ 0 0 0 ENSG00000147853|ENST00000381809|AK3 ENSG00000147853|ENST00000381809|AK3 ENSG00000147853|ENST00000381809|AK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.2809448242188 2 530.278792 1058.54303 2.8445 0.0015084 1.0462 0.0005548 3.8907 0.0020632 530.2796731020364 53.836 0.31933 54.632 54.462 54.782 0.79552 19 14 2 0 0 0 0.33646 1 24598 24598 15.248 3.6082 1 338710 11068 3583 7010 7028 12926 12926 0.016100793629675536 IPDEEHCL 8 Carbamidomethyl (C) _IPDEEHC(Carbamidomethyl (C))L_ IPDEEHC(1)L IPDEEHC(47)L 0 1 0 nc|ENSG00000122126|Q01968-2|OCRL;ENSG00000122126|ENST00000371113|OCRL nc|ENSG00000122126|Q01968-2|OCRL nc|ENSG00000122126|Q01968-2|OCRL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.72528076171875 2 506.723849 1011.43315 3.2053 0.0016242 -0.13836 -7.0109E-05 3.067 0.0015541 506.7238398097163 29.108 0.53181 29.898 29.613 30.145 0.78921 85 40 3 0 0 0 0.16336 1 13086 13086 46.921 20.58 1 467660 11069 2256 7011 7029 12927 12927 50 -0.0721134597620221 IPDEEHCL 8 Carbamidomethyl (C) _IPDEEHC(Carbamidomethyl (C))L_ IPDEEHC(1)L IPDEEHC(47)L 0 1 0 nc|ENSG00000122126|Q01968-2|OCRL;ENSG00000122126|ENST00000371113|OCRL nc|ENSG00000122126|Q01968-2|OCRL nc|ENSG00000122126|Q01968-2|OCRL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.7250671386719 2 506.723849 1011.43315 3.2786 0.0016614 0.35904 0.00018193 3.6377 0.0018433 506.72399810154553 29.398 0.5776 30.016 29.812 30.389 0.61789 66 36 2 0 0 0 0.16336 1 13580 13580 46.921 27.482 1 483110 11070 2256 7011 7029 12928 12928 50 -0.0721134597620221 IPDEIIDMV 9 Unmodified _IPDEIIDMV_ 0 0 0 ENSG00000130520|ENST00000593829|LSM4 ENSG00000130520|ENST00000593829|LSM4 ENSG00000130520|ENST00000593829|LSM4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.7698364257812 2 522.767726 1043.5209 3.3921 0.0017733 0.34371 0.00017968 3.7358 0.0019529 522.7677571006269 84.541 0.26498 84.788 84.635 84.9 0.24757 25 16 2 0 0 0 0.3144 1 38880 38880 15.847 1.0089 1 530990 11071 2596 7012 7030 12929 12929 0.0008785489455931383 IPDEIIDMV 9 Unmodified _IPDEIIDMV_ 0 0 0 ENSG00000130520|ENST00000593829|LSM4 ENSG00000130520|ENST00000593829|LSM4 ENSG00000130520|ENST00000593829|LSM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.7702026367188 2 522.767726 1043.5209 NaN NaN NaN NaN NaN NaN NaN 84.085 1 84.747 84.247 85.247 0.66219 0 0 0 0.56337 1 38732 38732 16.942 6.1184 1 11072 2596 7012 7030 12930 12930 0.0008785489455931383 IPDEKETRL 9 Unmodified _IPDEKETRL_ 0 0 0 nc|ENSG00000135655|Q9Y4E8-2|USP15;nc|ENSG00000135655|Q9Y4E8-3|USP15;ENSG00000135655|ENST00000280377|USP15;ENST00000550632.5_1_12:62654195-62749153:+|nuORF;nc|ENSG00000135655|Q9Y4E8-4|USP15;USP15|p.N262Kfs*11|1|0.14|ENSG00000135655|chr12:62355342-62355343|-/T|frameshift_variant nc|ENSG00000135655|Q9Y4E8-2|USP15 nc|ENSG00000135655|Q9Y4E8-2|USP15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.8031616210938 2 550.800946 1099.58734 3.7087 0.0020428 0.020906 1.1515E-05 3.7296 0.0020543 550.8010052974356 22.134 0.67314 22.134 21.799 22.472 0 119 53 3 0 0 0 0.12685 4 9825 9825;9878;9923;9977 26.021 8.99 1 340480 11073 2886 7013 7031 12931;12932;12933;12934 12931 0.041528067808030755 IPDEKETRL 9 Unmodified _IPDEKETRL_ 0 0 0 nc|ENSG00000135655|Q9Y4E8-2|USP15;nc|ENSG00000135655|Q9Y4E8-3|USP15;ENSG00000135655|ENST00000280377|USP15;ENST00000550632.5_1_12:62654195-62749153:+|nuORF;nc|ENSG00000135655|Q9Y4E8-4|USP15;USP15|p.N262Kfs*11|1|0.14|ENSG00000135655|chr12:62355342-62355343|-/T|frameshift_variant nc|ENSG00000135655|Q9Y4E8-2|USP15 nc|ENSG00000135655|Q9Y4E8-2|USP15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 367.53729248046875 3 367.536389 1099.58734 2.8321 0.0010409 -0.02345 -8.6186E-06 2.8086 0.0010323 367.53630441630685 22.045 0.77957 22.045 21.731 22.51 0 204 61 4 0 0 0 0.028592 1 9849 9849 57.108 24.21 1 1545400 11074 2886 7013 7031 12935 12935 0.041528067808030755 IPDEKETRL 9 Unmodified _IPDEKETRL_ 0 0 0 nc|ENSG00000135655|Q9Y4E8-2|USP15;nc|ENSG00000135655|Q9Y4E8-3|USP15;ENSG00000135655|ENST00000280377|USP15;ENST00000550632.5_1_12:62654195-62749153:+|nuORF;nc|ENSG00000135655|Q9Y4E8-4|USP15;USP15|p.N262Kfs*11|1|0.14|ENSG00000135655|chr12:62355342-62355343|-/T|frameshift_variant nc|ENSG00000135655|Q9Y4E8-2|USP15 nc|ENSG00000135655|Q9Y4E8-2|USP15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 367.5365295410156 3 367.536389 1099.58734 NaN NaN NaN NaN NaN NaN NaN 20.911 1 21.316 20.816 21.816 0.40533 0 0 0 0.05082 1 9278 9278 53.317 28.435 1 11075 2886 7013 7031 12936 12936 0.041528067808030755 IPDEKETRL 9 Unmodified _IPDEKETRL_ 0 0 0 nc|ENSG00000135655|Q9Y4E8-2|USP15;nc|ENSG00000135655|Q9Y4E8-3|USP15;ENSG00000135655|ENST00000280377|USP15;ENST00000550632.5_1_12:62654195-62749153:+|nuORF;nc|ENSG00000135655|Q9Y4E8-4|USP15;USP15|p.N262Kfs*11|1|0.14|ENSG00000135655|chr12:62355342-62355343|-/T|frameshift_variant nc|ENSG00000135655|Q9Y4E8-2|USP15 nc|ENSG00000135655|Q9Y4E8-2|USP15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 367.5372619628906 3 367.536389 1099.58734 NaN NaN NaN NaN NaN NaN NaN 21.128 1 21.415 20.915 21.915 0.28662 0 0 0 0.026993 1 9579 9579 61.09 29.052 1 11076 2886 7013 7031 12937 12937 0.041528067808030755 IPDEKETRL 9 Unmodified _IPDEKETRL_ 0 0 0 nc|ENSG00000135655|Q9Y4E8-2|USP15;nc|ENSG00000135655|Q9Y4E8-3|USP15;ENSG00000135655|ENST00000280377|USP15;ENST00000550632.5_1_12:62654195-62749153:+|nuORF;nc|ENSG00000135655|Q9Y4E8-4|USP15;USP15|p.N262Kfs*11|1|0.14|ENSG00000135655|chr12:62355342-62355343|-/T|frameshift_variant nc|ENSG00000135655|Q9Y4E8-2|USP15 nc|ENSG00000135655|Q9Y4E8-2|USP15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 367.53765869140625 3 367.536389 1099.58734 2.7098 0.00099594 0.29974 0.00011016 3.0095 0.0011061 367.5364016773148 20.992 0.28372 21.646 21.377 21.661 0.65346 51 19 3 0 0 0 0.019184 1 9529 9529 69.338 32.832 1 2110100 11077 2886 7013 7031 12938 12938 0.041528067808030755 IPDEQIVVM 9 Oxidation (M) _IPDEQIVVM(Oxidation (M))_ IPDEQIVVM(1) IPDEQIVVM(50) 0 0 1 ENST00000557694.1_1_14:93182479-93199131:-|nuORF;nc|ENSG00000100600|Q99538-3|LGMN;nc|ENSG00000100600|Q99538-2|LGMN;ENSG00000100600|ENST00000334869|LGMN ENST00000557694.1_1_14:93182479-93199131:-|nuORF ENST00000557694.1_1_14:93182479-93199131:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.2640380859375 2 530.273175 1058.5318 3.3268 0.0017641 3.5568 0.0018861 6.8836 0.0036502 530.275055014645 50.856 0.24327 50.856 50.72 50.963 0 11 9 2 0 0 0 0.043585 1 23257 23257 49.933 8.0934 1 613740 11078 1230 7014 7032 12939 12939 9 0.004872572688327637 IPDEQIVVM 9 Unmodified _IPDEQIVVM_ 0 0 0 ENST00000557694.1_1_14:93182479-93199131:-|nuORF;nc|ENSG00000100600|Q99538-3|LGMN;nc|ENSG00000100600|Q99538-2|LGMN;ENSG00000100600|ENST00000334869|LGMN ENST00000557694.1_1_14:93182479-93199131:-|nuORF ENST00000557694.1_1_14:93182479-93199131:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.2771606445312 2 522.275718 1042.53688 2.6068 0.0013615 0.25112 0.00013116 2.8579 0.0014926 522.27585842702 67.82 0.49063 67.82 67.601 68.091 0 96 63 2 0 0 0 0.029308 1 32572 32572 56.177 6.244 1 4553900 11079 1230 7014 7033 12940 12940 0.017315611314415946 IPDEQIVVM 9 Unmodified _IPDEQIVVM_ 0 0 0 ENST00000557694.1_1_14:93182479-93199131:-|nuORF;nc|ENSG00000100600|Q99538-3|LGMN;nc|ENSG00000100600|Q99538-2|LGMN;ENSG00000100600|ENST00000334869|LGMN ENST00000557694.1_1_14:93182479-93199131:-|nuORF ENST00000557694.1_1_14:93182479-93199131:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.2767944335938 2 522.275718 1042.53688 2.7349 0.0014284 -0.50393 -0.00026319 2.231 0.0011652 522.2754781577879 66.977 0.5149 67.682 67.374 67.889 0.7047 158 64 3 0 0 0 0.025323 2 31727 31680;31727 61.357 15.337 1 5359500 11080 1230 7014 7033 12941;12942 12942 0.017315611314415946 IPDEQIVVM 9 Unmodified _IPDEQIVVM_ 0 0 0 ENST00000557694.1_1_14:93182479-93199131:-|nuORF;nc|ENSG00000100600|Q99538-3|LGMN;nc|ENSG00000100600|Q99538-2|LGMN;ENSG00000100600|ENST00000334869|LGMN ENST00000557694.1_1_14:93182479-93199131:-|nuORF ENST00000557694.1_1_14:93182479-93199131:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1043.548828125 1 1043.54416 1042.53688 3.5692 0.0037246 0.59872 0.00062479 4.1679 0.0043494 1043.544824646984 67.365 0.46702 67.615 67.458 67.925 0.25011 41 26 2 0 0 0 0.057744 3 30908 30809;30858;30908 43.858 5.8843 1 554290 11081 1230 7014 7033 12943;12944;12945 12945 0.017315611314415946 IPDEQIVVM 9 Unmodified _IPDEQIVVM_ 0 0 0 ENST00000557694.1_1_14:93182479-93199131:-|nuORF;nc|ENSG00000100600|Q99538-3|LGMN;nc|ENSG00000100600|Q99538-2|LGMN;ENSG00000100600|ENST00000334869|LGMN ENST00000557694.1_1_14:93182479-93199131:-|nuORF ENST00000557694.1_1_14:93182479-93199131:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.2776489257812 2 522.275718 1042.53688 3.598 0.0018791 -0.47809 -0.00024969 3.1199 0.0016294 522.2756326425657 67.377 0.79642 67.627 67.288 68.084 0.2501 136 45 4 0 0 0 0.0028306 5 30875 30831;30875;30929;30974;31016 96.285 21.862 1 4162900 11082 1230 7014 7033 12946;12947;12948;12949;12950 12947 0.017315611314415946 IPDEQIVVM 9 Unmodified _IPDEQIVVM_ 0 0 0 ENST00000557694.1_1_14:93182479-93199131:-|nuORF;nc|ENSG00000100600|Q99538-3|LGMN;nc|ENSG00000100600|Q99538-2|LGMN;ENSG00000100600|ENST00000334869|LGMN ENST00000557694.1_1_14:93182479-93199131:-|nuORF ENST00000557694.1_1_14:93182479-93199131:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1043.5482177734375 1 1043.54416 1042.53688 3.5524 0.0037071 0.19972 0.00020842 3.7521 0.0039155 1043.5436522293332 66.82 0.61621 67.477 67.162 67.778 0.65672 56 36 2 0 0 0 0.029308 4 30647 30553;30601;30647;30690 56.177 18.203 1 734790 11083 1230 7014 7033 12951;12952;12953;12954 12953 0.017315611314415946 IPDEQIVVM 9 Unmodified _IPDEQIVVM_ 0 0 0 ENST00000557694.1_1_14:93182479-93199131:-|nuORF;nc|ENSG00000100600|Q99538-3|LGMN;nc|ENSG00000100600|Q99538-2|LGMN;ENSG00000100600|ENST00000334869|LGMN ENST00000557694.1_1_14:93182479-93199131:-|nuORF ENST00000557694.1_1_14:93182479-93199131:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.2774658203125 2 522.275718 1042.53688 3.3664 0.0017582 -0.2671 -0.0001395 3.0993 0.0016187 522.2757062968855 66.805 0.84621 67.461 67.126 67.972 0.65672 148 49 4 0 0 0 0.0028306 5 30596 30596;30648;30691;30738;30791 96.285 21.862 1 4490700 11084 1230 7014 7033 12955;12956;12957;12958;12959 12955 0.017315611314415946 IPDEVLQTL 9 Unmodified _IPDEVLQTL_ 0 0 0 ZNF148|p.Q640Sfs*7|1|0.36|ENSG00000163848|chr3:125232809-125232809|A/-|frameshift_variant;ENST00000497929.1_1_3:124951187-125011317:-|nuORF;ENSG00000163848|ENST00000360647|ZNF148 ZNF148|p.Q640Sfs*7|1|0.36|ENSG00000163848|chr3:125232809-125232809|A/-|frameshift_variant ZNF148|p.Q640Sfs*7|1|0.36|ENSG00000163848|chr3:125232809-125232809|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.5054321289062 2 514.28714 1026.55973 2.5977 0.0013359 0.96578 0.00049669 3.5634 0.0018326 514.2875823622691 72.763 0.25774 72.763 72.611 72.868 0 35 22 2 0 0 0 0.10837 1 35450 35450 30.637 0 1 2190900 11085 4257 7015 7034 12960 12960 0.04750903520562133 IPDEVLQTL 9 Unmodified _IPDEVLQTL_ 0 0 0 ZNF148|p.Q640Sfs*7|1|0.36|ENSG00000163848|chr3:125232809-125232809|A/-|frameshift_variant;ENST00000497929.1_1_3:124951187-125011317:-|nuORF;ENSG00000163848|ENST00000360647|ZNF148 ZNF148|p.Q640Sfs*7|1|0.36|ENSG00000163848|chr3:125232809-125232809|A/-|frameshift_variant ZNF148|p.Q640Sfs*7|1|0.36|ENSG00000163848|chr3:125232809-125232809|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.28857421875 2 514.28714 1026.55973 2.7528 0.0014157 -0.33503 -0.0001723 2.4178 0.0012434 514.2869719018854 71.882 0.26958 72.546 72.414 72.683 0.66324 30 18 2 0 0 0 0.0063783 2 32941 32941;32989 88.904 26.331 1 985730 11086 4257 7015 7034 12961;12962 12961 0.04750903520562133 IPDGEFTAL 9 Unmodified _IPDGEFTAL_ 0 0 0 ENSG00000197557|ENST00000355689|TTC30A ENSG00000197557|ENST00000355689|TTC30A ENSG00000197557|ENST00000355689|TTC30A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 962.4881591796875 1 962.482939 961.475663 3.8018 0.0036592 -1.2533 -0.0012063 2.5485 0.0024529 962.4821559355985 67.02 0.41444 67.678 67.475 67.89 0.65777 33 22 2 0 0 0 0.071101 1 30708 30708 39.957 7.8404 1 393120 11087 5826 7016 7035 12963 12963 -0.006616275763349222 IPDGGVHII 9 Unmodified _IPDGGVHII_ 0 0 0 RBM12B|p.V521*|1|0.34|ENSG00000183808|chr8:93734840-93734850|AAAGCACCAAC/-|frameshift_variant;ENSG00000183808|ENST00000520560|RBM12B RBM12B|p.V521*|1|0.34|ENSG00000183808|chr8:93734840-93734850|AAAGCACCAAC/-|frameshift_variant RBM12B|p.V521*|1|0.34|ENSG00000183808|chr8:93734840-93734850|AAAGCACCAAC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 460.76434326171875 2 460.763635 919.512717 2.1881 0.0010082 0.50544 0.00023289 2.6936 0.0012411 460.7638883156851 51.654 0.44311 52.465 52.267 52.711 0.81065 56 27 3 0 0 0 0.041436 1 23505 23505 50.855 12.881 1 906820 11088 5406 7017 7036 12964 12964 0.04974088760093309 IPDGGVHII 9 Unmodified _IPDGGVHII_ 0 0 0 RBM12B|p.V521*|1|0.34|ENSG00000183808|chr8:93734840-93734850|AAAGCACCAAC/-|frameshift_variant;ENSG00000183808|ENST00000520560|RBM12B RBM12B|p.V521*|1|0.34|ENSG00000183808|chr8:93734840-93734850|AAAGCACCAAC/-|frameshift_variant RBM12B|p.V521*|1|0.34|ENSG00000183808|chr8:93734840-93734850|AAAGCACCAAC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 460.76531982421875 2 460.763635 919.512717 2.7352 0.0012603 1.0452 0.00048158 3.7804 0.0017419 460.76378880876905 52.351 0.41911 52.614 52.466 52.885 0.263 27 20 2 0 0 0 0.12301 1 23971 23971 28.487 8.0332 1 605260 11089 5406 7017 7036 12965 12965 0.04974088760093309 IPDGGVHII 9 Unmodified _IPDGGVHII_ 0 0 0 RBM12B|p.V521*|1|0.34|ENSG00000183808|chr8:93734840-93734850|AAAGCACCAAC/-|frameshift_variant;ENSG00000183808|ENST00000520560|RBM12B RBM12B|p.V521*|1|0.34|ENSG00000183808|chr8:93734840-93734850|AAAGCACCAAC/-|frameshift_variant RBM12B|p.V521*|1|0.34|ENSG00000183808|chr8:93734840-93734850|AAAGCACCAAC/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 460.763635 919.512717 2.7437 0.0012642 -0.094521 -4.3552E-05 2.6492 0.0012206 460.7634450899243 52.646 0.50925 52.646 52.439 52.948 0 0.071115 -0.00043909 NaN 50.855 58 40 2 NaN NaN NaN NaN 0 NaN NaN 0 792890 11090 5406 7017 7036 0.04974088760093309 IPDGGVHIV 9 Unmodified _IPDGGVHIV_ 0 0 0 ENSG00000244462|ENST00000374114|RBM12;ENST00000454607.5_1_20:34220607-34246883:-|nuORF;ENST00000352393.8_2_20:34220804-34246883:-|nuORF;ENST00000440240.5_1_20:34220804-34252800:-|nuORF ENSG00000244462|ENST00000374114|RBM12 ENSG00000244462|ENST00000374114|RBM12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 453.7571716308594 2 453.75581 905.497067 2.6899 0.0012205 0.19598 8.8929E-05 2.8859 0.0013095 453.7558067755282 45.78 0.36061 45.78 45.552 45.912 0 23 16 2 0 0 0 0.056465 2 20921 20921;20970 44.407 23.953 1 652720 11091 6250 7018 7037 12966;12967 12966 0.040538022430382625 IPDGGVHIV 9 Unmodified _IPDGGVHIV_ 0 0 0 ENSG00000244462|ENST00000374114|RBM12;ENST00000454607.5_1_20:34220607-34246883:-|nuORF;ENST00000352393.8_2_20:34220804-34246883:-|nuORF;ENST00000440240.5_1_20:34220804-34252800:-|nuORF ENSG00000244462|ENST00000374114|RBM12 ENSG00000244462|ENST00000374114|RBM12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 453.7574462890625 2 453.75581 905.497067 2.6961 0.0012234 0.20053 9.099E-05 2.8966 0.0013144 453.7558445949647 44.712 0.57774 45.533 45.385 45.963 0.82074 46 28 2 0 0 0 0.086747 2 20381 20381;20465 36.044 14.298 1 419900 11092 6250 7018 7037 12968;12969 12968 0.040538022430382625 IPDGGVHIV 9 Unmodified _IPDGGVHIV_ 0 0 0 ENSG00000244462|ENST00000374114|RBM12;ENST00000454607.5_1_20:34220607-34246883:-|nuORF;ENST00000352393.8_2_20:34220804-34246883:-|nuORF;ENST00000440240.5_1_20:34220804-34252800:-|nuORF ENSG00000244462|ENST00000374114|RBM12 ENSG00000244462|ENST00000374114|RBM12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.75677490234375 2 453.75581 905.497067 2.7027 0.0012264 0.18809 8.5347E-05 2.8908 0.0013117 453.7557020387761 45.552 0.30741 45.82 45.649 45.956 0.26768 14 10 2 0 0 0 0.086747 1 20834 20834 36.044 19.102 1 673380 11093 6250 7018 7037 12970 12970 0.040538022430382625 IPDGGVHIV 9 Unmodified _IPDGGVHIV_ 0 0 0 ENSG00000244462|ENST00000374114|RBM12;ENST00000454607.5_1_20:34220607-34246883:-|nuORF;ENST00000352393.8_2_20:34220804-34246883:-|nuORF;ENST00000440240.5_1_20:34220804-34252800:-|nuORF ENSG00000244462|ENST00000374114|RBM12 ENSG00000244462|ENST00000374114|RBM12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 453.7571105957031 2 453.75581 905.497067 3.1972 0.0014507 -0.047939 -2.1752E-05 3.1492 0.001429 453.7557732035737 44.887 0.45647 45.537 45.401 45.857 0.64998 22 16 2 0 0 0 0.035095 1 20573 20573 53.576 30.427 1 501920 11094 6250 7018 7037 12971 12971 0.040538022430382625 IPDGHTKEM 9 Unmodified _IPDGHTKEM_ 0 0 0 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 343.16845703125 3 343.16742 1026.48043 2.5362 0.00087035 -0.0026437 -9.0724E-07 2.5336 0.00086944 343.16751533275385 12.807 0.43877 12.807 12.729 13.168 0 48 21 4 0 0 0 0.25718 1 5584 5584 19.626 5.2206 1 3164400 11095 2962 7019 7038 12972 12972 -0.03175066705216523 IPDGHTKEM 9 Unmodified _IPDGHTKEM_ 0 0 0 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 343.1686096191406 3 343.16742 1026.48043 1.8667 0.00064059 -0.18611 -6.3867E-05 1.6806 0.00057672 343.50157877022764 12.566 0.11094 12.828 12.798 12.909 0.26154 19 13 2 0 0 0 0.1776 1 5450 5450 24.882 9.6331 1 5835600 11096 2962 7019 7038 12973 12973 -0.03175066705216523 IPDHPDLLL 9 Unmodified _IPDHPDLLL_ 0 0 0 ENSG00000075539|ENST00000358350|FRYL;FRYL|p.E2601Dfs*12|1|0.03|ENSG00000075539|chr4:48515162-48515163|-/TACTTTCA|frameshift_variant ENSG00000075539|ENST00000358350|FRYL ENSG00000075539|ENST00000358350|FRYL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.7931518554688 2 516.78985 1031.56515 NaN NaN NaN NaN NaN NaN NaN 65.398 1 65.398 64.898 65.898 0 0 0 0 0.026844 1 31157 31157 61.357 19.263 1 11097 830 7020 7039 12974 12974 0.05062627103052364 IPDHPDLLL 9 Unmodified _IPDHPDLLL_ 0 0 0 ENSG00000075539|ENST00000358350|FRYL;FRYL|p.E2601Dfs*12|1|0.03|ENSG00000075539|chr4:48515162-48515163|-/TACTTTCA|frameshift_variant ENSG00000075539|ENST00000358350|FRYL ENSG00000075539|ENST00000358350|FRYL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.7925415039062 2 516.78985 1031.56515 2.7815 0.0014374 0.28464 0.0001471 3.0661 0.0015845 516.7906326514698 64.271 0.31073 64.986 64.923 65.234 0.71521 57 35 2 0 0 0 0.017868 2 30300 30300;30365 71.134 20.279 1 4359900 11098 830 7020 7039 12975;12976 12975 0.05062627103052364 IPDHPDLLL 9 Unmodified _IPDHPDLLL_ 0 0 0 ENSG00000075539|ENST00000358350|FRYL;FRYL|p.E2601Dfs*12|1|0.03|ENSG00000075539|chr4:48515162-48515163|-/TACTTTCA|frameshift_variant ENSG00000075539|ENST00000358350|FRYL ENSG00000075539|ENST00000358350|FRYL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.7926635742188 2 516.78985 1031.56515 3.4982 0.0018078 0.91631 0.00047354 4.4145 0.0022814 516.7903130729205 65.093 0.4856 65.341 65.13 65.616 0.24803 59 23 3 0 0 0 0.0014044 3 29773 29773;29824;29873 112.59 52.204 1 2130600 11099 830 7020 7039 12977;12978;12979 12977 0.05062627103052364 IPDHPDLLL 9 Unmodified _IPDHPDLLL_ 0 0 0 ENSG00000075539|ENST00000358350|FRYL;FRYL|p.E2601Dfs*12|1|0.03|ENSG00000075539|chr4:48515162-48515163|-/TACTTTCA|frameshift_variant ENSG00000075539|ENST00000358350|FRYL ENSG00000075539|ENST00000358350|FRYL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.7937622070312 2 516.78985 1031.56515 3.5057 0.0018117 1.5353 0.00079342 5.041 0.0026051 516.790671966942 64.447 0.38409 65.104 64.961 65.345 0.65672 43 16 3 0 0 0 0.0014044 2 29536 29536;29604 112.59 52.204 1 2823100 11100 830 7020 7039 12980;12981 12980 0.05062627103052364 IPDILDGPEL 10 Unmodified _IPDILDGPEL_ 0 0 0 ENSG00000068079|ENST00000415816|IFI35;nc|ENSG00000068079|P80217-2|IFI35 ENSG00000068079|ENST00000415816|IFI35 ENSG00000068079|ENST00000415816|IFI35 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.2950439453125 2 541.292422 1080.57029 3.3463 0.0018113 0.76112 0.00041199 4.1074 0.0022233 541.2926907366751 85.228 0.37934 85.476 85.261 85.641 0.24857 64 24 3 0 0 0 0.037885 3 39218 39165;39218;39278 65.235 17.486 1 1584500 11101 732 7021 7040 12982;12983;12984 12983 0.03322886175010353 IPDILDGPEL 10 Unmodified _IPDILDGPEL_ 0 0 0 ENSG00000068079|ENST00000415816|IFI35;nc|ENSG00000068079|P80217-2|IFI35 ENSG00000068079|ENST00000415816|IFI35 ENSG00000068079|ENST00000415816|IFI35 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.2955932617188 2 541.292422 1080.57029 3.5298 0.0019106 0.71061 0.00038465 4.2404 0.0022953 541.2927970315533 84.691 0.37643 85.357 85.127 85.503 0.66566 53 22 3 0 0 0 3.4213E-05 2 39016 38962;39016 111.29 55.11 1 1326700 11102 732 7021 7040 12985;12986 12986 0.03322886175010353 IPDLDHGD 8 Unmodified _IPDLDHGD_ 0 0 0 CON__Q28085 CON__Q28085 CON__Q28085 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 441.204833984375 2 441.203607 880.392661 NaN NaN NaN NaN NaN NaN NaN 28.193 1 28.979 28.479 29.479 0.78627 0 0 0 0.2313 1 12692 12692 40.449 4.4044 1 + 11103 227 7022 7041 12987 12987 -0.052319443043188585 IPDLDHGD 8 Unmodified _IPDLDHGD_ 0 0 0 CON__Q28085 CON__Q28085 CON__Q28085 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.20361328125 2 441.203607 880.392661 NaN NaN NaN NaN NaN NaN NaN 28.979 1 29.597 29.097 30.097 0.61789 0 0 0 0.967 1 13288 13288 7.9102 0.62092 1 + 11104 227 7022 7041 12988 12988 -0.052319443043188585 IPDLDRHQL 9 Unmodified _IPDLDRHQL_ 0 0 0 ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 369.53753662109375 3 369.536612 1105.58801 2.7865 0.0010297 -0.028299 -1.0457E-05 2.7582 0.0010193 369.5366188095149 37.162 0.5979 37.162 36.84 37.438 0 57 22 3 0 0 0 0.024388 1 16847 16847 49.527 22.304 1 2362700 11105 4457 7023 7042 12989 12989 0.03943646220523078 IPDLDRHQL 9 Unmodified _IPDLDRHQL_ 0 0 0 ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 369.5374450683594 3 369.536612 1105.58801 2.4902 0.0009202 0.33691 0.0001245 2.8271 0.0010447 369.5367034829532 35.959 0.52497 36.751 36.622 37.147 0.79132 55 21 4 0 0 0 0.02631 2 16335 16281;16335 47.732 21.735 1 3262400 11106 4457 7023 7042 12990;12991 12991 0.03943646220523078 IPDLDRHQL 9 Unmodified _IPDLDRHQL_ 0 0 0 ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.8031616210938 2 553.80128 1105.58801 3.6537 0.0020234 -1.09 -0.00060363 2.5637 0.0014198 553.8010279856778 36.966 0.48801 37.224 37.018 37.506 0.25768 30 15 3 0 0 0 0.020338 1 16849 16849 67.838 31.332 1 666160 11107 4457 7023 7042 12992 12992 0.03943646220523078 IPDLDRHQL 9 Unmodified _IPDLDRHQL_ 0 0 0 ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 369.90765380859375 3 369.536612 1105.58801 2.787 0.0010299 0.1982 7.3243E-05 2.9852 0.0011031 369.53668150964444 36.98 0.60656 37.238 36.991 37.597 0.25768 62 19 4 0 0 0 0.0082229 1 16798 16798 49.527 39.983 1 2129400 11108 4457 7023 7042 12993 12993 0.03943646220523078 IPDLDRHQL 9 Unmodified _IPDLDRHQL_ 0 0 0 ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.8030395507812 2 553.80128 1105.58801 3.6392 0.0020154 -1.1338 -0.00062788 2.5054 0.0013875 553.8009569597654 36.27 0.45824 36.896 36.729 37.187 0.62631 31 14 3 0 0 0 0.025135 1 16618 16618 61.602 30.334 1 828560 11109 4457 7023 7042 12994 12994 0.03943646220523078 IPDLDRHQL 9 Unmodified _IPDLDRHQL_ 0 0 0 ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 369.53753662109375 3 369.536612 1105.58801 2.7401 0.0010126 0.036698 1.3561E-05 2.7768 0.0010261 369.5366121076805 36.26 0.62958 36.886 36.695 37.325 0.62631 62 22 4 0 0 0 0.012326 1 16625 16625 63.227 36.139 1 2774400 11110 4457 7023 7042 12995 12995 0.03943646220523078 IPDLDRHQL 9 Unmodified _IPDLDRHQL_ 0 0 0 ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 553.80128 1105.58801 3.5758 0.0019803 -0.20189 -0.0001118 3.3739 0.0018685 553.8011073098548 37.118 0.4819 37.118 36.84 37.322 0 0.11976 0.00043119 NaN 67.838 34 18 3 NaN NaN NaN NaN 0 NaN NaN 0 913940 11111 4457 7023 7042 0.03943646220523078 IPDLDRHQL 9 Unmodified _IPDLDRHQL_ 0 0 0 ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 553.80128 1105.58801 3.3645 0.0018632 -0.19623 -0.00010867 3.1682 0.0017546 553.8010529808269 35.962 0.37208 36.754 36.606 36.978 0.79131 -0.24416 0.00043745 NaN 67.838 31 14 3 NaN NaN NaN NaN 0 NaN NaN 0 870960 11112 4457 7023 7042 0.03943646220523078 IPDLDWEL 8 Unmodified _IPDLDWEL_ 0 0 0 nc|ENSG00000075945|Q92845-4|KIFAP3;nc|ENSG00000075945|Q92845-2|KIFAP3;nc|ENSG00000075945|Q92845-3|KIFAP3;ENSG00000075945|ENST00000361580|KIFAP3 nc|ENSG00000075945|Q92845-4|KIFAP3 nc|ENSG00000075945|Q92845-4|KIFAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.75439453125 2 500.752933 999.491313 3.6226 0.001814 0.35141 0.00017597 3.974 0.00199 500.7531398083452 90.308 0.68425 90.559 90.25 90.934 0.25137 51 31 2 0 0 0 0.56084 1 41592 41592 16.942 4.4107 1 620110 11113 840 7024 7043 12996 12996 -0.00845341059277871 IPDLDWEL 8 Unmodified _IPDLDWEL_ 0 0 0 nc|ENSG00000075945|Q92845-4|KIFAP3;nc|ENSG00000075945|Q92845-2|KIFAP3;nc|ENSG00000075945|Q92845-3|KIFAP3;ENSG00000075945|ENST00000361580|KIFAP3 nc|ENSG00000075945|Q92845-4|KIFAP3 nc|ENSG00000075945|Q92845-4|KIFAP3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 500.752933 999.491313 3.403 0.001704 0.36241 0.00018148 3.7654 0.0018855 500.7532032593829 89.807 0.68376 90.486 90.125 90.809 0.67818 -0.03673 4.7785E-06 NaN 16.942 46 33 2 NaN NaN NaN NaN 0 NaN NaN 0 479260 11114 840 7024 7043 -0.00845341059277871 IPDLTYLW 8 Unmodified _IPDLTYLW_ 0 0 0 REV__ENST00000467850.1_1_2:206629136-206659779:+|nuORF REV__ENST00000467850.1_1_2:206629136-206659779:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.78143310546875 2 510.773668 1019.53278 NaN NaN NaN NaN NaN NaN NaN 73.058 1 73.317 72.817 73.817 0.25876 0 0 0 0.99035 1 33550 33550 8.5933 3.3626 1 + 11115 11467 7025 7044 12997 12997 0.023798397000405203 IPDQETTSL 9 Unmodified _IPDQETTSL_ 0 0 0 ENST00000534085.1_1_11:118377293-118378325:+|nuORF;nc|ENSG00000118058|Q03164-2|KMT2A;nc|ENSG00000118058|Q03164|KMT2A;ENSG00000118058|ENST00000534358|KMT2A ENST00000534085.1_1_11:118377293-118378325:+|nuORF ENST00000534085.1_1_11:118377293-118378325:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.2518310546875 2 502.250754 1002.48696 3.0882 0.001551 0.43309 0.00021752 3.5213 0.0017686 502.25040040343424 39.395 0.36981 39.395 39.203 39.572 0 15 13 2 0 0 0 0.36069 1 17907 17907 14.838 0 1 292050 11116 2103 7026 7045 12998 12998 -0.014188502728529784 IPDQETTSL 9 Unmodified _IPDQETTSL_ 0 0 0 ENST00000534085.1_1_11:118377293-118378325:+|nuORF;nc|ENSG00000118058|Q03164-2|KMT2A;nc|ENSG00000118058|Q03164|KMT2A;ENSG00000118058|ENST00000534358|KMT2A ENST00000534085.1_1_11:118377293-118378325:+|nuORF ENST00000534085.1_1_11:118377293-118378325:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 502.250754 1002.48696 3.0742 0.001544 -0.1335 -6.7049E-05 2.9407 0.001477 502.2504398221997 38.392 0.67612 39.19 39.06 39.736 0.79762 -0.10264 -0.00017022 NaN 14.838 42 31 2 NaN NaN NaN NaN 0 NaN NaN 0 308180 11117 2103 7026 7045 -0.014188502728529784 IPDQLGYLVL 10 Unmodified _IPDQLGYLVL_ 0 0 0 ENST00000474831.5_1_7:99746595-99751042:+|nuORF;ENST00000473459.5_1_7:99747130-99750374:+|nuORF;ENSG00000188186|ENST00000341942|LAMTOR4 ENST00000474831.5_1_7:99746595-99751042:+|nuORF ENST00000474831.5_1_7:99746595-99751042:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 565.8275756835938 2 565.826432 1129.63831 3.7642 0.0021299 -0.40927 -0.00023157 3.3549 0.0018983 565.8261771279201 93.039 0.2738 93.686 93.58 93.854 0.64714 18 12 2 0 0 0 0.36142 1 42818 42818 26.268 10.119 1 287930 11118 5658 7027 7046 12999 12999 0.0786775582566861 IPDQLGYLVL 10 Unmodified _IPDQLGYLVL_ 0 0 0 ENST00000474831.5_1_7:99746595-99751042:+|nuORF;ENST00000473459.5_1_7:99747130-99750374:+|nuORF;ENSG00000188186|ENST00000341942|LAMTOR4 ENST00000474831.5_1_7:99746595-99751042:+|nuORF ENST00000474831.5_1_7:99746595-99751042:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 565.826432 1129.63831 4.1888 0.0023701 0.22284 0.00012609 4.4116 0.0024962 566.3282386235614 93.675 0.36692 93.93 93.681 94.048 0.25497 0.12182 0.00033747 NaN 26.268 20 17 2 NaN NaN NaN NaN 0 NaN NaN 0 351840 11119 5658 7027 7046 0.0786775582566861 IPDSALATAL 10 Unmodified _IPDSALATAL_ 0 0 0 REV__nc|ENSG00000067182|P19438-3|TNFRSF1A REV__nc|ENSG00000067182|P19438-3|TNFRSF1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.2753601074219 2 486.274032 970.533512 3.3598 0.0016338 0.052968 2.5757E-05 3.4128 0.0016595 486.2740438318724 41.613 0.14568 42.258 42.133 42.279 0.64451 12 6 2 0 0 0 0.026062 1 19030 19030 68.081 2.607 1 1340100 + 11120 10450 7028 7047 13000 13000 0.0470663434908829 IPDSALATAL 10 Unmodified _IPDSALATAL_ 0 0 0 REV__nc|ENSG00000067182|P19438-3|TNFRSF1A REV__nc|ENSG00000067182|P19438-3|TNFRSF1A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.3054504394531 2 486.274032 970.533512 3.3987 0.0016527 0.59381 0.00028875 3.9925 0.0019415 486.27405518032174 40.851 0.18281 41.496 41.33 41.513 0.64451 13 9 2 0 0 0 0.12645 1 18646 18646 14.838 0.93222 1 445920 + 11121 10450 7028 7047 13001 13001 0.0470663434908829 IPDSHEITL 9 Unmodified _IPDSHEITL_ 0 0 0 ENSG00000082068|ENST00000265107|WDR70;ENST00000511906.5_1_5:37379391-37721408:+|nuORF ENSG00000082068|ENST00000265107|WDR70 ENSG00000082068|ENST00000265107|WDR70 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.7699584960938 2 512.769114 1023.52368 3.1193 0.0015995 0.40109 0.00020567 3.5204 0.0018052 513.2710720669673 46.618 0.61018 47.448 47.387 47.997 0.82915 68 40 2 0 0 0 0.0044949 2 21237 21237;21298 92.822 45.228 1 2754800 11122 925 7029 7048 13002;13003 13002 0.01285446343717922 IPDSHEITL 9 Unmodified _IPDSHEITL_ 0 0 0 ENSG00000082068|ENST00000265107|WDR70;ENST00000511906.5_1_5:37379391-37721408:+|nuORF ENSG00000082068|ENST00000265107|WDR70 ENSG00000082068|ENST00000265107|WDR70 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.7708129882812 2 512.769114 1023.52368 3.5917 0.0018417 0.044935 2.3042E-05 3.6366 0.0018647 512.769093744175 47.616 0.46244 47.88 47.466 47.928 0.26363 41 28 2 0 0 0 0.017868 1 21732 21732 71.134 35.089 1 2554900 11123 925 7029 7048 13004 13004 0.01285446343717922 IPDSHEITL 9 Unmodified _IPDSHEITL_ 0 0 0 ENSG00000082068|ENST00000265107|WDR70;ENST00000511906.5_1_5:37379391-37721408:+|nuORF ENSG00000082068|ENST00000265107|WDR70 ENSG00000082068|ENST00000265107|WDR70 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.7709350585938 2 512.769114 1023.52368 NaN NaN NaN NaN NaN NaN NaN 46.844 1 47.496 46.996 47.996 0.65219 0 0 0 0.021399 1 21454 21454 71.134 29.039 1 11124 925 7029 7048 13005 13005 0.01285446343717922 IPDSHEITL 9 Unmodified _IPDSHEITL_ 0 0 0 ENSG00000082068|ENST00000265107|WDR70;ENST00000511906.5_1_5:37379391-37721408:+|nuORF ENSG00000082068|ENST00000265107|WDR70 ENSG00000082068|ENST00000265107|WDR70 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.7706909179688 2 512.769114 1023.52368 NaN NaN NaN NaN NaN NaN NaN 46.969 1 47.621 47.121 48.121 0.65219 0 0 0 0.021399 1 21512 21512 71.134 29.039 1 11125 925 7029 7048 13006 13006 0.01285446343717922 IPDSHIVLM 9 Unmodified _IPDSHIVLM_ 0 0 0 ENSG00000142892|ENST00000370812|PIGK ENSG00000142892|ENST00000370812|PIGK ENSG00000142892|ENST00000370812|PIGK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.4522705078125 2 512.778428 1023.5423 NaN NaN NaN NaN NaN NaN NaN 58.476 1 58.476 57.976 58.976 0 0 0 0 0.17021 1 26989 26989 32.305 8.0955 1 11126 3333 7030 7049 13007 13007 0.03147284713918452 IPDSHIVLM 9 Unmodified _IPDSHIVLM_ 0 0 0 ENSG00000142892|ENST00000370812|PIGK ENSG00000142892|ENST00000370812|PIGK ENSG00000142892|ENST00000370812|PIGK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.7802124023438 2 512.778428 1023.5423 3.3459 0.0017157 0.78467 0.00040236 4.1306 0.0021181 512.7787940161238 58.169 0.37914 58.431 58.067 58.446 0.26227 32 21 2 0 0 0 0.09451 2 26631 26528;26631 34.102 10.954 1 1693500 11127 3333 7030 7049 13008;13009 13009 0.03147284713918452 IPDSHIVLM 9 Unmodified _IPDSHIVLM_ 0 0 0 ENSG00000142892|ENST00000370812|PIGK ENSG00000142892|ENST00000370812|PIGK ENSG00000142892|ENST00000370812|PIGK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.780029296875 2 512.778428 1023.5423 3.4433 0.0017656 0.18005 9.2328E-05 3.6233 0.001858 512.778343480272 57.416 0.30194 58.084 58.041 58.343 0.66829 31 18 2 0 0 0 0.086747 2 26285 26285;26352 36.044 7.5574 1 652450 11128 3333 7030 7049 13010;13011 13010 0.03147284713918452 IPDSTAETL 9 Unmodified _IPDSTAETL_ 0 0 0 nc|ENSG00000110841|Q86W92-4|PPFIBP1;ENSG00000110841|ENST00000228425|PPFIBP1;nc|ENSG00000110841|Q86W92|PPFIBP1;nc|ENSG00000110841|Q86W92-5|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.7415466308594 2 473.740022 945.465492 2.8181 0.001335 -0.16766 -7.9425E-05 2.6504 0.0012556 473.7398361352292 42.068 0.2852 42.068 41.877 42.162 0 22 16 2 0 0 0 0.0080831 2 19161 19111;19161 85.357 10.934 1 1788200 11129 1731 7031 7050 13012;13013 13013 -0.009422353015565932 IPDSTAETL 9 Unmodified _IPDSTAETL_ 0 0 0 nc|ENSG00000110841|Q86W92-4|PPFIBP1;ENSG00000110841|ENST00000228425|PPFIBP1;nc|ENSG00000110841|Q86W92|PPFIBP1;nc|ENSG00000110841|Q86W92-5|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 946.4749755859375 1 946.472768 945.465492 3.6077 0.0034146 -0.69161 -0.00065459 2.9161 0.00276 946.4720658095974 42.119 0.2852 42.119 41.877 42.162 0 25 16 2 0 0 0 0.0019388 2 19180 19133;19180 104.8 19.442 1 1465500 11130 1731 7031 7050 13014;13015 13015 -0.009422353015565932 IPDSTAETL 9 Unmodified _IPDSTAETL_ 0 0 0 nc|ENSG00000110841|Q86W92-4|PPFIBP1;ENSG00000110841|ENST00000228425|PPFIBP1;nc|ENSG00000110841|Q86W92|PPFIBP1;nc|ENSG00000110841|Q86W92-5|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.7410888671875 2 473.740022 945.465492 2.8393 0.0013451 0.26992 0.00012787 3.1093 0.001473 473.7400559165258 41.283 0.27061 42.086 41.876 42.146 0.80351 40 18 3 0 0 0 0.0080831 2 18652 18652;18702 85.357 10.934 1 1275200 11131 1731 7031 7050 13016;13017 13016 -0.009422353015565932 IPDSTAETL 9 Unmodified _IPDSTAETL_ 0 0 0 nc|ENSG00000110841|Q86W92-4|PPFIBP1;ENSG00000110841|ENST00000228425|PPFIBP1;nc|ENSG00000110841|Q86W92|PPFIBP1;nc|ENSG00000110841|Q86W92-5|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 946.474609375 1 946.472768 945.465492 3.5034 0.0033158 -0.14817 -0.00014023 3.3552 0.0031756 946.4722948934553 41.268 0.20389 42.071 41.926 42.13 0.8035 24 13 2 0 0 0 0.0044949 2 18718 18671;18718 92.822 18.399 1 1001300 11132 1731 7031 7050 13018;13019 13019 -0.009422353015565932 IPDSTAETL 9 Unmodified _IPDSTAETL_ 0 0 0 nc|ENSG00000110841|Q86W92-4|PPFIBP1;ENSG00000110841|ENST00000228425|PPFIBP1;nc|ENSG00000110841|Q86W92|PPFIBP1;nc|ENSG00000110841|Q86W92-5|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.7412414550781 2 473.740022 945.465492 NaN NaN NaN NaN NaN NaN NaN 41.34 1 42.144 41.644 42.644 0.80351 0 0 0 0.019349 1 18755 18755 74.423 0 1 11133 1731 7031 7050 13020 13020 -0.009422353015565932 IPDSTAETL 9 Unmodified _IPDSTAETL_ 0 0 0 nc|ENSG00000110841|Q86W92-4|PPFIBP1;ENSG00000110841|ENST00000228425|PPFIBP1;nc|ENSG00000110841|Q86W92|PPFIBP1;nc|ENSG00000110841|Q86W92-5|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 946.4785766601562 1 946.472768 945.465492 3.9717 0.0037591 -0.52288 -0.0004949 3.4488 0.0032642 946.4725608792949 41.791 0.12967 42.061 41.944 42.074 0.27021 7 4 2 0 0 0 0.0044949 1 19027 19027 92.822 25.478 1 474570 11134 1731 7031 7050 13021 13021 -0.009422353015565932 IPDSTAETL 9 Unmodified _IPDSTAETL_ 0 0 0 nc|ENSG00000110841|Q86W92-4|PPFIBP1;ENSG00000110841|ENST00000228425|PPFIBP1;nc|ENSG00000110841|Q86W92|PPFIBP1;nc|ENSG00000110841|Q86W92-5|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.74188232421875 2 473.740022 945.465492 NaN NaN NaN NaN NaN NaN NaN 41.823 1 42.093 41.593 42.593 0.27021 0 0 0 0.0094088 1 19055 19055 85.357 10.934 1 11135 1731 7031 7050 13022 13022 -0.009422353015565932 IPDSTAETL 9 Unmodified _IPDSTAETL_ 0 0 0 nc|ENSG00000110841|Q86W92-4|PPFIBP1;ENSG00000110841|ENST00000228425|PPFIBP1;nc|ENSG00000110841|Q86W92|PPFIBP1;nc|ENSG00000110841|Q86W92-5|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 946.477783203125 1 946.472768 945.465492 3.9945 0.0037807 0.72706 0.00068814 4.7216 0.0044689 946.4735388342788 41.351 0.49013 41.995 41.772 42.262 0.64451 38 25 2 0 0 0 0.0080831 3 18987 18887;18935;18987 85.357 18.013 1 1055900 11136 1731 7031 7050 13023;13024;13025 13025 -0.009422353015565932 IPDSTAETL 9 Unmodified _IPDSTAETL_ 0 0 0 nc|ENSG00000110841|Q86W92-4|PPFIBP1;ENSG00000110841|ENST00000228425|PPFIBP1;nc|ENSG00000110841|Q86W92|PPFIBP1;nc|ENSG00000110841|Q86W92-5|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.7416687011719 2 473.740022 945.465492 3.1842 0.0015085 -0.12283 -5.8187E-05 3.0614 0.0014503 473.7400716657578 41.32 0.44527 41.964 41.772 42.218 0.64452 34 23 2 0 0 0 0.0080831 1 18917 18917 85.357 10.934 1 1375700 11137 1731 7031 7050 13026 13026 -0.009422353015565932 IPDSTAETL 9 Unmodified _IPDSTAETL_ 0 0 0 nc|ENSG00000110841|Q86W92-4|PPFIBP1;ENSG00000110841|ENST00000228425|PPFIBP1;nc|ENSG00000110841|Q86W92|PPFIBP1;nc|ENSG00000110841|Q86W92-5|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 473.740022 945.465492 3.1161 0.0014762 0.33576 0.00015906 3.4518 0.0016353 473.74037854697053 42.203 0.19965 42.473 42.434 42.633 0.27021 0.32517 0.00024737 NaN 85.357 18 13 2 NaN NaN NaN NaN 0 NaN NaN 0 687530 11138 1731 7031 7050 -0.009422353015565932 IPDTENQTL 9 Unmodified _IPDTENQTL_ 0 0 0 nc|ENSG00000120549|Q5T5P2-3|KIAA1217;ENSG00000120549|ENST00000376454|KIAA1217 nc|ENSG00000120549|Q5T5P2-3|KIAA1217 nc|ENSG00000120549|Q5T5P2-3|KIAA1217 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.7572021484375 2 515.756204 1029.49785 3.2913 0.0016975 -0.036239 -1.869E-05 3.2551 0.0016788 515.7560782756407 37.835 0.78005 37.835 37.509 38.289 0 68 29 3 0 0 0 0.0016284 6 17106 17072;17106;17158;17212;17273;17341 108 31.071 1 1813600 11139 2196 7032 7051 13027;13028;13029;13030;13031;13032 13028 -0.01571447898572842 IPDTENQTL 9 Unmodified _IPDTENQTL_ 0 0 0 nc|ENSG00000120549|Q5T5P2-3|KIAA1217;ENSG00000120549|ENST00000376454|KIAA1217 nc|ENSG00000120549|Q5T5P2-3|KIAA1217 nc|ENSG00000120549|Q5T5P2-3|KIAA1217 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.7578735351562 2 515.756204 1029.49785 3.3236 0.0017142 -0.038603 -1.991E-05 3.285 0.0016943 515.7560587768737 36.994 0.89962 37.787 37.371 38.271 0.79342 98 42 3 0 0 0 0.0012997 5 16769 16652;16712;16769;16826;16885 120.45 42.301 1 1347000 11140 2196 7032 7051 13033;13034;13035;13036;13037 13035 -0.01571447898572842 IPDTENQTL 9 Unmodified _IPDTENQTL_ 0 0 0 nc|ENSG00000120549|Q5T5P2-3|KIAA1217;ENSG00000120549|ENST00000376454|KIAA1217 nc|ENSG00000120549|Q5T5P2-3|KIAA1217 nc|ENSG00000120549|Q5T5P2-3|KIAA1217 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.7579345703125 2 515.756204 1029.49785 3.4935 0.0018018 0.063211 3.2601E-05 3.5567 0.0018344 515.7561476682569 37.7 0.86684 37.961 37.6 38.467 0.26083 66 27 3 0 0 0 0.0016284 4 17222 17123;17171;17222;17283 108 33.004 1 1186800 11141 2196 7032 7051 13038;13039;13040;13041 13040 -0.01571447898572842 IPDTENQTL 9 Unmodified _IPDTENQTL_ 0 0 0 nc|ENSG00000120549|Q5T5P2-3|KIAA1217;ENSG00000120549|ENST00000376454|KIAA1217 nc|ENSG00000120549|Q5T5P2-3|KIAA1217 nc|ENSG00000120549|Q5T5P2-3|KIAA1217 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.7566528320312 2 515.756204 1029.49785 3.424 0.0017659 -0.014963 -7.7174E-06 3.409 0.0017582 515.756070272312 37.095 0.91677 37.725 37.416 38.333 0.62999 90 34 4 0 0 0 0.0016284 5 16932 16932;16975;17019;17074;17226 108 36.863 1 1123900 11142 2196 7032 7051 13042;13043;13044;13045;13046 13042 -0.01571447898572842 IPEDVSGLVSL 11 Unmodified _IPEDVSGLVSL_ 0 0 0 nc|ENSG00000108061|Q9UQ13-2|SHOC2;ENSG00000108061|ENST00000369452|SHOC2 nc|ENSG00000108061|Q9UQ13-2|SHOC2 nc|ENSG00000108061|Q9UQ13-2|SHOC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.8136596679688 2 564.810979 1127.6074 3.3684 0.0019025 0.48847 0.0002759 3.8569 0.0021784 564.8113654409434 79.536 0.42897 79.787 79.557 79.986 0.25127 56 24 3 0 0 0 7.8959E-06 3 36617 36566;36617;36659 96.111 30.139 1 1392600 11143 1621 7033 7052 13047;13048;13049 13048 0.04870557720778379 IPEDVSGLVSL 11 Unmodified _IPEDVSGLVSL_ 0 0 0 nc|ENSG00000108061|Q9UQ13-2|SHOC2;ENSG00000108061|ENST00000369452|SHOC2 nc|ENSG00000108061|Q9UQ13-2|SHOC2 nc|ENSG00000108061|Q9UQ13-2|SHOC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.8138427734375 2 564.810979 1127.6074 3.5912 0.0020284 0.15426 8.7127E-05 3.7455 0.0021155 564.8112786355788 79.045 0.40549 79.705 79.453 79.859 0.66082 57 27 3 0 0 0 0.00030026 3 36415 36364;36415;36463 82.529 24.807 1 1356100 11144 1621 7033 7052 13050;13051;13052 13051 0.04870557720778379 IPEGKYWEPN 10 Unmodified _IPEGKYWEPN_ 0 0 0 REV__ENSG00000197594|ENST00000647893|ENPP1 REV__ENSG00000197594|ENST00000647893|ENPP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 616.8751831054688 2 616.800946 1231.58734 NaN NaN NaN NaN NaN NaN NaN 19.718 1 19.718 19.218 20.218 0 0 0 0 0.99812 1 8802 8802 3.2813 1.4371 1 + 11145 14289 7034 7053 13053 13053 -0.01919193219191584 IPEHLTATL 9 Unmodified _IPEHLTATL_ 0 0 0 REV__GAPVD1|p.I935Mfs*130|1|0.23|ENSG00000165219|chr9:125337518-125337518|T/-|frameshift_variant REV__GAPVD1|p.I935Mfs*130|1|0.23|ENSG00000165219|chr9:125337518-125337518|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.7843933105469 2 497.782025 993.549496 3.2449 0.0016153 0.63175 0.00031448 3.8767 0.0019297 497.7823208400556 35.048 0.27405 35.67 35.565 35.839 0.62294 20 15 2 0 0 0 0.062556 1 16105 16105 42.095 5.9675 1 614060 + 11146 17690 7035 7054 13054 13054 0.052463405860066814 IPEIHFPLES 10 Unmodified _IPEIHFPLES_ 0 0 0 ENSG00000105339|ENST00000519811|DENND3;nc|ENSG00000105339|A2RUS2-2|DENND3;nc|ENSG00000105339|A2RUS2|DENND3;ENST00000520482.1_1_8:142168222-142185717:+|nuORF ENSG00000105339|ENST00000519811|DENND3 ENSG00000105339|ENST00000519811|DENND3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.3120727539062 2 591.313689 1180.61282 NaN NaN NaN NaN NaN NaN NaN 60.756 1 61.012 60.512 61.512 0.25578 0 0 0 0.99225 1 27824 27824 6.7232 0.51738 1 11147 1485 7036 7055 13055 13055 0.029742813032271442 IPEKDLHSV 9 Unmodified _IPEKDLHSV_ 0 0 0 nc|ENSG00000160783|Q6P1K2-4|PMF1;ENSG00000160783|ENST00000368277|PMF1;ENST00000606952.5_1_1:156203463-156206310:+|nuORF;nc|ENSG00000160783|Q6P1K2-2|PMF1 nc|ENSG00000160783|Q6P1K2-4|PMF1 nc|ENSG00000160783|Q6P1K2-4|PMF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 346.52679443359375 3 346.525713 1036.55531 2.5567 0.00088597 0.25764 8.9277E-05 2.8143 0.00097524 346.52576555480346 20.94 0.7311 20.94 20.669 21.4 0 126 59 3 0 0 0 0.02234 3 9351 9309;9351;9466 51.415 29.825 1 766050 11148 4079 7037 7056 13056;13057;13058 13057 0.03849439097643881 IPEKDLHSV 9 Unmodified _IPEKDLHSV_ 0 0 0 nc|ENSG00000160783|Q6P1K2-4|PMF1;ENSG00000160783|ENST00000368277|PMF1;ENST00000606952.5_1_1:156203463-156206310:+|nuORF;nc|ENSG00000160783|Q6P1K2-2|PMF1 nc|ENSG00000160783|Q6P1K2-4|PMF1 nc|ENSG00000160783|Q6P1K2-4|PMF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.5267639160156 3 346.525713 1036.55531 2.5811 0.00089442 0.10395 3.602E-05 2.6851 0.00093044 346.5257500764228 19.707 0.67355 20.365 20.165 20.839 0.65829 94 56 3 0 0 0 0.10837 1 8903 8903 28.495 17.695 1 424300 11149 4079 7037 7056 13059 13059 0.03849439097643881 IPEKFQHIL 9 Unmodified _IPEKFQHIL_ 0 0 0 ENST00000496813.5_1_6:33239896-33244045:+|nuORF;ENSG00000231500|ENST00000439602|RPS18;ENST00000474626.5_1_6:33239896-33243984:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 375.5542297363281 3 375.553603 1123.63898 2.6773 0.0010055 -0.84617 -0.00031778 1.8311 0.00068769 375.5531134581739 45.762 0.54082 45.762 45.571 46.111 0 68 26 5 0 0 0 0.076469 3 20885 20885;20935;20988 38.615 13.624 1 7846200 11150 6183 7038 7057 13060;13061;13062 13060 0.08210595265381926 IPEKFQHIL 9 Unmodified _IPEKFQHIL_ 0 0 0 ENST00000496813.5_1_6:33239896-33244045:+|nuORF;ENSG00000231500|ENST00000439602|RPS18;ENST00000474626.5_1_6:33239896-33243984:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.8284912109375 2 562.826766 1123.63898 3.3088 0.0018623 -0.38372 -0.00021597 2.925 0.0016463 562.826568654421 45.774 0.31705 45.774 45.595 45.912 0 36 14 3 0 0 0 0.0014216 2 20918 20918;20966 133.05 58.629 1 2955400 11151 6183 7038 7057 13063;13064 13063 0.08210595265381926 IPEKFQHIL 9 Unmodified _IPEKFQHIL_ 0 0 0 ENST00000496813.5_1_6:33239896-33244045:+|nuORF;ENSG00000231500|ENST00000439602|RPS18;ENST00000474626.5_1_6:33239896-33243984:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 375.5545654296875 3 375.553603 1123.63898 2.3507 0.00088281 -0.64711 -0.00024302 1.7036 0.00063979 375.5532287216224 44.648 0.55706 45.469 45.297 45.854 0.82074 78 26 5 0 0 0 0.076469 3 20336 20291;20336;20388 38.615 18.2 1 9744500 11152 6183 7038 7057 13065;13066;13067 13066 0.08210595265381926 IPEKFQHIL 9 Unmodified _IPEKFQHIL_ 0 0 0 ENST00000496813.5_1_6:33239896-33244045:+|nuORF;ENSG00000231500|ENST00000439602|RPS18;ENST00000474626.5_1_6:33239896-33243984:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.8281860351562 2 562.826766 1123.63898 3.4754 0.0019561 0.29479 0.00016591 3.7702 0.002122 562.8267423395823 45.525 0.23464 45.792 45.678 45.912 0.26768 18 7 3 0 0 0 0.0016705 1 20813 20813 118.07 40.084 1 1746900 11153 6183 7038 7057 13068 13068 0.08210595265381926 IPEKFQHIL 9 Unmodified _IPEKFQHIL_ 0 0 0 ENST00000496813.5_1_6:33239896-33244045:+|nuORF;ENSG00000231500|ENST00000439602|RPS18;ENST00000474626.5_1_6:33239896-33243984:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.5543518066406 3 375.553603 1123.63898 2.658 0.00099821 -0.75142 -0.0002822 1.9066 0.00071601 375.55308613989655 45.552 0.49463 45.82 45.678 46.172 0.26768 36 18 4 0 0 0 0.10277 1 20841 20841 32.037 3.543 1 6104000 11154 6183 7038 7057 13069 13069 0.08210595265381926 IPEKFQHIL 9 Unmodified _IPEKFQHIL_ 0 0 0 ENST00000496813.5_1_6:33239896-33244045:+|nuORF;ENSG00000231500|ENST00000439602|RPS18;ENST00000474626.5_1_6:33239896-33243984:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.8275146484375 2 562.826766 1123.63898 3.738 0.0021039 -0.4394 -0.00024731 3.2986 0.0018566 562.8265462466793 44.912 0.28876 45.562 45.401 45.69 0.64998 22 10 3 0 0 0 0.0020335 1 20561 20561 103.35 45.882 1 1671300 11155 6183 7038 7057 13070 13070 0.08210595265381926 IPEKFQHIL 9 Unmodified _IPEKFQHIL_ 0 0 0 ENST00000496813.5_1_6:33239896-33244045:+|nuORF;ENSG00000231500|ENST00000439602|RPS18;ENST00000474626.5_1_6:33239896-33243984:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 375.55462646484375 3 375.553603 1123.63898 2.8645 0.0010758 -0.60366 -0.00022671 2.2609 0.00084907 375.5532226886217 44.904 0.5654 45.554 45.371 45.937 0.64999 43 20 4 0 0 0 0.10277 1 20568 20568 32.037 11.623 1 5377400 11156 6183 7038 7057 13071 13071 0.08210595265381926 IPEKKGLFLKH 11 Unmodified _IPEKKGLFLKH_ 0 0 0 ENSG00000106266|ENST00000222990|SNX8;ENST00000494722.1_1_7:2314657-2354074:-|nuORF ENSG00000106266|ENST00000222990|SNX8 ENSG00000106266|ENST00000222990|SNX8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 655.4006958007812 2 655.403173 1308.79179 NaN NaN NaN NaN NaN NaN NaN 48.872 1 49.527 49.027 50.027 0.65524 0 0 0 1.0057 1 22361 22361 3.2813 0 1 11157 1560 7039 7058 13072 13072 0.14974790661972293 IPENNPVKL 9 Unmodified _IPENNPVKL_ 0 0 0 nc|ENSG00000158769|Q9Y624-2|F11R;ENSG00000158769|ENST00000368026|F11R nc|ENSG00000158769|Q9Y624-2|F11R nc|ENSG00000158769|Q9Y624-2|F11R MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.2991943359375 2 512.295299 1022.57605 3.2189 0.001649 0.4789 0.00024534 3.6978 0.0018943 512.2957980790418 40.152 0.66998 40.152 39.823 40.493 0 49 24 3 0 0 0 0.025135 2 18183 18183;18240 61.602 21.363 1 599320 11158 3999 7040 7059 13073;13074 13073 0.06566029477335178 IPENNPVKL 9 Unmodified _IPENNPVKL_ 0 0 0 nc|ENSG00000158769|Q9Y624-2|F11R;ENSG00000158769|ENST00000368026|F11R nc|ENSG00000158769|Q9Y624-2|F11R nc|ENSG00000158769|Q9Y624-2|F11R MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.2967529296875 2 512.295299 1022.57605 3.2268 0.0016531 0.35246 0.00018057 3.5793 0.0018337 512.2954670474372 39.133 0.86823 39.931 39.558 40.426 0.79762 80 42 3 0 0 0 0.030603 4 17697 17638;17697;17780;17852 55.503 15.264 1 500050 11159 3999 7040 7059 13075;13076;13077;13078 13076 0.06566029477335178 IPENNPVKL 9 Unmodified _IPENNPVKL_ 0 0 0 nc|ENSG00000158769|Q9Y624-2|F11R;ENSG00000158769|ENST00000368026|F11R nc|ENSG00000158769|Q9Y624-2|F11R nc|ENSG00000158769|Q9Y624-2|F11R MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.297119140625 2 512.295299 1022.57605 3.4303 0.0017573 -0.090508 -4.6367E-05 3.3398 0.001711 512.295215662627 39.822 0.40743 40.089 39.821 40.228 0.26696 24 13 2 0 0 0 0.10584 1 18139 18139 31.268 6.5945 1 432210 11160 3999 7040 7059 13079 13079 0.06566029477335178 IPENNPVKL 9 Unmodified _IPENNPVKL_ 0 0 0 nc|ENSG00000158769|Q9Y624-2|F11R;ENSG00000158769|ENST00000368026|F11R nc|ENSG00000158769|Q9Y624-2|F11R nc|ENSG00000158769|Q9Y624-2|F11R MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.296875 2 512.295299 1022.57605 3.5113 0.0017988 -0.018047 -9.2456E-06 3.4932 0.0017896 512.2950690123918 39.54 0.41978 40.177 39.831 40.25 0.63778 23 18 2 0 0 0 0.057945 1 18039 18039 43.772 13.932 1 722380 11161 3999 7040 7059 13080 13080 0.06566029477335178 IPENVDITL 9 Unmodified _IPENVDITL_ 0 0 0 ENSG00000163682|ENST00000295955|RPL9;ENST00000514842.5_1_4:39459094-39460113:-|nuORF;ENST00000511075.5_1_4:39457912-39460059:-|nuORF ENSG00000163682|ENST00000295955|RPL9 ENSG00000163682|ENST00000295955|RPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1013.5542602539062 1 1013.55135 1012.54408 2.8279 0.0028662 0.19498 0.00019763 3.0229 0.0030638 1013.5513764511732 70.533 0.60645 70.533 70.355 70.962 0 121 71 2 0 0 0 0.00097604 6 34304 34191;34250;34304;34360;34417;34426 126.57 30.281 1 5637900 11162 4241 7041 7060 13081;13082;13083;13084;13085;13086 13083 0.03830617003529824 IPENVDITL 9 Unmodified _IPENVDITL_ 0 0 0 ENSG00000163682|ENST00000295955|RPL9;ENST00000514842.5_1_4:39459094-39460113:-|nuORF;ENST00000511075.5_1_4:39457912-39460059:-|nuORF ENSG00000163682|ENST00000295955|RPL9 ENSG00000163682|ENST00000295955|RPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.2804260253906 2 507.279315 1012.54408 2.462 0.0012489 0.41368 0.00020985 2.8757 0.0014588 507.2795700393317 70.554 0.7605 70.554 70.338 71.098 0 204 89 3 0 0 0 0.034495 2 34315 34315;34430 53.833 4.7307 1 9309600 11163 4241 7041 7060 13087;13088 13087 0.03830617003529824 IPENVDITL 9 Unmodified _IPENVDITL_ 0 0 0 ENSG00000163682|ENST00000295955|RPL9;ENST00000514842.5_1_4:39459094-39460113:-|nuORF;ENST00000511075.5_1_4:39457912-39460059:-|nuORF ENSG00000163682|ENST00000295955|RPL9 ENSG00000163682|ENST00000295955|RPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1013.5541381835938 1 1013.55135 1012.54408 2.9881 0.0030286 -0.48373 -0.00049028 2.5044 0.0025383 1013.5508884329804 69.747 0.65176 70.45 70.208 70.86 0.70302 127 74 2 0 0 0 0.00097604 6 33383 33289;33336;33383;33434;33477;33523 126.57 30.281 1 4374700 11164 4241 7041 7060 13089;13090;13091;13092;13093;13094 13091 0.03830617003529824 IPENVDITL 9 Unmodified _IPENVDITL_ 0 0 0 ENSG00000163682|ENST00000295955|RPL9;ENST00000514842.5_1_4:39459094-39460113:-|nuORF;ENST00000511075.5_1_4:39457912-39460059:-|nuORF ENSG00000163682|ENST00000295955|RPL9 ENSG00000163682|ENST00000295955|RPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.2804260253906 2 507.279315 1012.54408 2.5459 0.0012915 -0.16306 -8.2715E-05 2.3828 0.0012088 507.27914024675306 69.765 0.94341 70.468 70.152 71.096 0.70302 228 106 4 0 0 0 0.019364 4 33394 33301;33394;33450;33495 69.105 7.7474 1 7965200 11165 4241 7041 7060 13095;13096;13097;13098 13096 0.03830617003529824 IPENVDITL 9 Unmodified _IPENVDITL_ 0 0 0 ENSG00000163682|ENST00000295955|RPL9;ENST00000514842.5_1_4:39459094-39460113:-|nuORF;ENST00000511075.5_1_4:39457912-39460059:-|nuORF ENSG00000163682|ENST00000295955|RPL9 ENSG00000163682|ENST00000295955|RPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.2812194824219 2 507.279315 1012.54408 3.1711 0.0016086 0.26526 0.00013456 3.4363 0.0017432 507.27936596241045 70.366 0.92612 70.622 70.194 71.12 0.25642 157 62 3 0 0 0 0.0063542 6 32179 32081;32131;32179;32233;32276;32327 88.954 17.82 1 2864000 11166 4241 7041 7060 13099;13100;13101;13102;13103;13104 13101 0.03830617003529824 IPENVDITL 9 Unmodified _IPENVDITL_ 0 0 0 ENSG00000163682|ENST00000295955|RPL9;ENST00000514842.5_1_4:39459094-39460113:-|nuORF;ENST00000511075.5_1_4:39457912-39460059:-|nuORF ENSG00000163682|ENST00000295955|RPL9 ENSG00000163682|ENST00000295955|RPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1013.5540161132812 1 1013.55135 1012.54408 3.3742 0.00342 0.35263 0.00035741 3.7269 0.0037774 1013.5514248570104 70.265 0.72209 70.521 70.235 70.957 0.25641 93 49 2 0 0 0 0.001377 6 32204 32116;32160;32204;32251;32311;32358 114.65 29.377 1 1233000 11167 4241 7041 7060 13105;13106;13107;13108;13109;13110 13107 0.03830617003529824 IPENVDITL 9 Unmodified _IPENVDITL_ 0 0 0 ENSG00000163682|ENST00000295955|RPL9;ENST00000514842.5_1_4:39459094-39460113:-|nuORF;ENST00000511075.5_1_4:39457912-39460059:-|nuORF ENSG00000163682|ENST00000295955|RPL9 ENSG00000163682|ENST00000295955|RPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1013.5549926757812 1 1013.55135 1012.54408 3.2725 0.0033169 0.71989 0.00072965 3.9924 0.0040465 1013.5515909298476 69.833 0.72242 70.494 70.185 70.907 0.66071 121 51 3 0 0 0 0.0020791 6 32002 31906;31957;32002;32048;32094;32140 103.35 27.593 1 1935000 11168 4241 7041 7060 13111;13112;13113;13114;13115;13116 13113 0.03830617003529824 IPENVDITL 9 Unmodified _IPENVDITL_ 0 0 0 ENSG00000163682|ENST00000295955|RPL9;ENST00000514842.5_1_4:39459094-39460113:-|nuORF;ENST00000511075.5_1_4:39457912-39460059:-|nuORF ENSG00000163682|ENST00000295955|RPL9 ENSG00000163682|ENST00000295955|RPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.2803955078125 2 507.279315 1012.54408 2.9311 0.0014869 0.21255 0.00010782 3.1437 0.0015947 507.279391304143 69.749 0.95627 70.409 70.129 71.085 0.66071 157 65 3 0 0 0 0.0063542 5 31979 31938;31979;32025;32066;32109 88.954 17.82 1 3146800 11169 4241 7041 7060 13117;13118;13119;13120;13121 13118 0.03830617003529824 IPEPASPQL 9 Unmodified _IPEPASPQL_ 0 0 0 ENST00000489540.1_1_6:30671361-30671724:-|nuORF;nc|ENSG00000137337|Q14676-3|MDC1;nc|ENSG00000137337|Q14676-2|MDC1;ENSG00000137337|ENST00000376406|MDC1 ENST00000489540.1_1_6:30671361-30671724:-|nuORF ENST00000489540.1_1_6:30671361-30671724:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 476.2625427246094 2 476.260925 950.507297 2.8894 0.0013761 0.41664 0.00019843 3.306 0.0015745 476.2611589701136 51.287 0.25746 51.549 51.431 51.688 0.26228 20 11 2 0 0 0 0.1229 1 23433 23433 37.974 3.8716 1 1323400 11170 3011 7042 7061 13122 13122 0.030063651776117695 IPEPASPQL 9 Unmodified _IPEPASPQL_ 0 0 0 ENST00000489540.1_1_6:30671361-30671724:-|nuORF;nc|ENSG00000137337|Q14676-3|MDC1;nc|ENSG00000137337|Q14676-2|MDC1;ENSG00000137337|ENST00000376406|MDC1 ENST00000489540.1_1_6:30671361-30671724:-|nuORF ENST00000489540.1_1_6:30671361-30671724:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 476.2633972167969 2 476.260925 950.507297 2.9415 0.0014009 0.87328 0.00041591 3.8148 0.0018168 476.26149284759 50.76 0.34449 51.419 51.141 51.485 0.65956 30 17 2 0 0 0 0.19413 1 23145 23145 32.305 3.8186 1 1292500 11171 3011 7042 7061 13123 13123 0.030063651776117695 IPEPEAAVL 9 Unmodified _IPEPEAAVL_ 0 0 0 ENSG00000101255|ENST00000217233|TRIB3 ENSG00000101255|ENST00000217233|TRIB3 ENSG00000101255|ENST00000217233|TRIB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 469.7652587890625 2 469.7633 937.512048 2.7279 0.0012815 0.0090916 4.2709E-06 2.737 0.0012858 469.7632744697403 62.888 0.31707 63.138 62.997 63.314 0.24965 30 20 2 0 0 0 0.24465 2 28771 28771;28846 20.454 1.1966 1 871580 11172 1277 7043 7062 13124;13125 13124 0.0407924932038668 IPEPIDPLF 9 Unmodified _IPEPIDPLF_ 0 0 0 nc|ENSG00000187627|P0DJD0|RGPD1;ENSG00000187627|ENST00000641458|RGPD1;ENSG00000185304|ENST00000398146|RGPD2;ENSG00000196862|ENST00000408999|RGPD4;ENSG00000153165|ENST00000409886|RGPD3;ENSG00000183054|ENST00000329516|RGPD6;ENSG00000169629|ENST00000302558|RGPD8;ENSG00000015568|ENST00000016946|RGPD5;nc|ENSG00000183054|Q99666-2|RGPD5;ENSG00000153201|ENST00000283195|RANBP2;RANBP2|p.T2182Hfs*3|1|0.08|ENSG00000153201|chr2:108767080-108767080|A/-|frameshift_variant nc|ENSG00000187627|P0DJD0|RGPD1;ENSG00000153201|ENST00000283195|RANBP2 ENSG00000153201|ENST00000283195|RANBP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.7871704101562 2 520.786776 1039.559 3.5218 0.0018341 -0.3343 -0.0001741 3.1875 0.00166 520.7863042296835 87.197 0.40995 87.872 87.733 88.143 0.67555 33 18 3 0 0 0 0.028312 1 40219 40219 57.471 6.6163 1 1866700 11173 3777;440 7044 7063 13126 13126 0.04080108871517041 IPEQSSLII 9 Unmodified _IPEQSSLII_ 0 0 0 REV__ENSG00000136449|ENST00000323776|MYCBPAP REV__ENSG00000136449|ENST00000323776|MYCBPAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.2915344238281 2 500.289682 998.564812 3.0012 0.0015015 0.12909 6.4584E-05 3.1303 0.001566 500.28971306062294 70.87 0.25926 71.126 70.957 71.217 0.25641 30 18 2 0 0 0 0.26277 1 32473 32473 19.257 0 1 499180 + 11174 12070 7045 7064 13127 13127 0.06547207383209752 IPESGGDNSVF 11 Unmodified _IPESGGDNSVF_ 0 0 0 ENSG00000137801|ENST00000260356|THBS1;CON__Q28194 ENSG00000137801|ENST00000260356|THBS1 ENSG00000137801|ENST00000260356|THBS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.2600708007812 2 561.259111 1120.50367 3.4042 0.0019106 -0.38406 -0.00021556 3.0201 0.0016951 561.2587489613985 49.701 0.55936 49.701 49.394 49.953 0 41 23 2 0 0 0 0.34052 2 22690 22690;22825 23.79 4.5328 1 416460 + 11175 229 7046 7065 13128;13129 13128 -0.051763493868975274 IPESGGDNSVF 11 Unmodified _IPESGGDNSVF_ 0 0 0 ENSG00000137801|ENST00000260356|THBS1;CON__Q28194 ENSG00000137801|ENST00000260356|THBS1 ENSG00000137801|ENST00000260356|THBS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.2608642578125 2 561.259111 1120.50367 3.3794 0.0018967 -0.055762 -3.1297E-05 3.3236 0.0018654 561.2586719618084 48.787 0.69071 49.614 49.373 50.064 0.82705 56 37 2 0 0 0 0.1322 1 22194 22194 36.506 5.8697 1 418760 + 11176 229 7046 7065 13130 13130 -0.051763493868975274 IPFAKPPL 8 Unmodified _IPFAKPPL_ 0 0 0 ENST00000574030.5_2_16:55794553-55801328:+|nuORF;ENST00000566359.1_1_16:66969484-66972145:+|nuORF;nc|ENSG00000291109|Q9UKY3|CES1P1;nc|ENSG00000172831|O00748-2|CES2;ENST00000568470.5_1_16:66969809-66977925:+|nuORF;ENSG00000172831|ENST00000317091|CES2;nc|ENSG00000198848|P23141-3|CES1;nc|ENSG00000198848|P23141|CES1;ENSG00000198848|ENST00000360526|CES1;nc|ENSG00000172831|O00748-5|CES2;nc|ENSG00000172831|O00748-4|CES2 ENST00000574030.5_2_16:55794553-55801328:+|nuORF ENST00000574030.5_2_16:55794553-55801328:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.7765197753906 2 441.776014 881.537475 NaN NaN NaN NaN NaN NaN NaN 56.308 1 56.574 56.074 57.074 0.26543 0 0 0 0.81105 1 25757 25757 18.135 7.3111 1 11177 4897 7047 7066 13131 13131 0.09196768633466945 IPFDPAIPLL 10 Unmodified _IPFDPAIPLL_ 0 0 0 nc|ENSG999|O00370|L1_ORF2;L1HS_dup1616|chr22:28663284-28669315:+|1.1217790905042195|0.2468976263073953|2.18|496.0|9|1|sense;L1PA3_dup8093|chr11:58696286-58700694:-|8.889446604907338|0.3518458624306171|4.66|529.0|23|1|sense;L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|10|1|sense;L1PA4_dup10404|chr14:61707309-61708779:-|1.5493054162872544|0.1095687435966763|3.82|520.0|43|3|sense;L1PA3_dup1464|chr2:208773458-208776294:+|1.730898577886428|0.207304446788351|3.06|523.0|14|1|sense;L1PA2_dup678|chr2:208811622-208817648:+|1.9073773458579988|0.2448110861201761|2.96|525.0|84|2|sense;L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|177|3|sense;L1PA4_dup940|chr2:34749304-34750596:+|1.9836612727682184|0.2293151023615477|3.11|531.0|26|2|sense;chr1:146128282-146130131|115|26.9|0.0|21.36|-|2|TE_info:L1PA4,L1PA4_dup427,L1,LINE,donor,-,146130131,146130563|NBPF10,None|1;L1PA3_dup6831|chrX:106827828-106830948:+|1.112501382732906|0.4076652707632567|1.45|539.0|16|1|sense nc|ENSG999|O00370|L1_ORF2 nc|ENSG999|O00370|L1_ORF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.8251953125 2 548.326068 1094.63758 2.6419 0.0014486 -0.35638 -0.00019541 2.2855 0.0012532 548.3276107980124 77.141 0.31241 77.701 77.432 77.744 0.5609 41 23 2 0 0 0 0.73282 1 37376 37376 11.64 1.5664 1 936300 11178 9426 7048 7067 13132 13132 0.09404961176619508 IPFEDRPL 8 Unmodified _IPFEDRPL_ 0 0 0 nc|ENSG00000168502|Q9Y4B5-2|MTCL1;nc|ENSG00000168502|Q9Y4B5-3|MTCL1;nc|ENSG00000168502|Q9Y4B5|MTCL1;ENSG00000168502|ENST00000695636|MTCL1;nc|ENSG00000168502|Q9Y4B5-4|MTCL1 nc|ENSG00000168502|Q9Y4B5-2|MTCL1 nc|ENSG00000168502|Q9Y4B5-2|MTCL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.77001953125 2 493.768917 985.523281 3.1526 0.0015567 0.25262 0.00012473 3.4052 0.0016814 493.7689856191203 50.143 0.27913 50.404 50.25 50.529 0.26146 15 10 2 0 0 0 0.26626 1 22934 22934 37.974 16.227 1 434830 11179 4629 7049 7068 13133 13133 0.029940714145254788 IPFEDRPL 8 Unmodified _IPFEDRPL_ 0 0 0 nc|ENSG00000168502|Q9Y4B5-2|MTCL1;nc|ENSG00000168502|Q9Y4B5-3|MTCL1;nc|ENSG00000168502|Q9Y4B5|MTCL1;ENSG00000168502|ENST00000695636|MTCL1;nc|ENSG00000168502|Q9Y4B5-4|MTCL1 nc|ENSG00000168502|Q9Y4B5-2|MTCL1 nc|ENSG00000168502|Q9Y4B5-2|MTCL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.772216796875 2 493.768917 985.523281 3.2516 0.0016055 0.86066 0.00042497 4.1122 0.0020305 493.76947313321295 49.516 0.29474 50.173 50.011 50.306 0.65689 16 10 2 0 0 0 0.10089 1 22690 22690 30.637 10.183 1 359830 11180 4629 7049 7068 13134 13134 0.029940714145254788 IPFEQQLL 8 Unmodified _IPFEQQLL_ 0 0 0 REV__chr1:204156796-204159399|205|12.51|0.29|5.42|-|0|REN,REN|1 REV__chr1:204156796-204159399|205|12.51|0.29|5.42|-|0|REN,REN|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.2804870605469 2 494.279118 986.543683 2.927 0.0014468 0.54962 0.00027166 3.4766 0.0017184 494.2793912843925 55.937 0.33565 55.937 55.833 56.168 0 54 23 3 0 0 0 0.062889 1 25801 25801 61.357 7.5247 1 1849000 + 11181 10008 7050 7069 13135 13135 0.049872420743326984 IPFHLYDAF 9 Unmodified _IPFHLYDAF_ 0 0 0 nc|ENSG00000089639|Q9P107-2|GMIP;ENSG00000089639|ENST00000203556|GMIP nc|ENSG00000089639|Q9P107-2|GMIP nc|ENSG00000089639|Q9P107-2|GMIP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.2963256835938 2 561.784567 1121.55458 3.5627 0.0020015 -1.6692 -0.00093773 1.8935 0.0010637 561.7841842116006 51.494 0.17978 51.494 51.418 51.598 0 12 8 2 0 0 0 0.084995 1 23572 23572 18.135 2.2878 1 184920 11182 1045 7051 7070 13136 13136 -0.0013335555140656652 IPFLKRRWRKR 11 Unmodified _IPFLKRRWRKR_ 0 0 0 nc|ENSG00000171804|Q6ZQQ6|WDR87;nc|ENSG00000171804|Q6ZQQ6-2|WDR87;ENSG00000171804|ENST00000447313|WDR87 nc|ENSG00000171804|Q6ZQQ6|WDR87 nc|ENSG00000171804|Q6ZQQ6|WDR87 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 778.4911499023438 2 778.494053 1554.97355 NaN NaN NaN NaN NaN NaN NaN 99.567 1 99.629 99.129 100.13 0.062241 0 0 0 1.0071 1 53849 53849 1.4819 1.1749 1 11183 4834 7052 7071 13137 13137 0.21826568198230234 IPFNMRKL 8 Unmodified _IPFNMRKL_ 0 0 0 REV__ENSG00000184083|ENST00000375180|FAM120C REV__ENSG00000184083|ENST00000375180|FAM120C MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 340.2108154296875 3 340.200395 1017.57936 2.2313 0.00075909 -0.32316 -0.00010994 1.9081 0.00064915 340.20057378100654 14.739 0.26562 15.046 14.908 15.174 0.3069 33 22 2 0 0 0 0.14202 1 6630 6630 1.8442 0.6509 1 267030 + 11184 13956 7053 7072 13138 13138 0.07127001050332638 IPFNMRKL 8 Unmodified _IPFNMRKL_ 0 0 0 REV__ENSG00000184083|ENST00000375180|FAM120C REV__ENSG00000184083|ENST00000375180|FAM120C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 340.2013244628906 3 340.200395 1017.57936 2.4273 0.00082577 -0.77171 -0.00026254 1.6556 0.00056323 340.20035300862884 14.701 0.20349 15.355 15.23 15.434 0.65356 24 20 2 0 0 0 0.7471 1 6603 6603 1.8442 0.19162 1 406720 + 11185 13956 7053 7072 13139 13139 0.07127001050332638 IPFNRRFWPFR 11 Unmodified _IPFNRRFWPFR_ 0 0 0 REV__ENSG00000181617|ENST00000317987|FDCSP REV__ENSG00000181617|ENST00000317987|FDCSP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 768.6952514648438 2 768.422762 1534.83097 NaN NaN NaN NaN NaN NaN NaN 92.183 1 92.83 92.33 93.33 0.64714 0 0 0 1.0071 1 42414 42414 1.4819 0.15237 1 + 11186 13860 7054 7073 13140 13140 0.08494935736212028 IPFPLLLIQR 10 Unmodified _IPFPLLLIQR_ 0 0 0 REV__ENST00000378962.3_1_X:30578303-30578414:-|nuORF REV__ENST00000378962.3_1_X:30578303-30578414:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.1996154785156 4 303.198405 1208.76451 2.2064 0.00066897 1.3575 0.00041161 3.5639 0.0010806 303.19878043118575 43.08 0.20527 43.35 43.195 43.401 0.27021 36 17 3 0 0 0 0.9406 1 19623 19623 0.77653 0.078866 1 4247100 + 11187 15857 7055 7074 13141 13141 0.16848307121586004 IPFPLLLIQR 10 Unmodified _IPFPLLLIQR_ 0 0 0 REV__ENST00000378962.3_1_X:30578303-30578414:-|nuORF REV__ENST00000378962.3_1_X:30578303-30578414:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 303.198405 1208.76451 1.8651 0.0005655 2.1388 0.00064849 4.004 0.001214 303.1990620454462 43.525 0.02779 43.525 43.501 43.529 0 0.097317 0.00076116 NaN 0.77653 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 5191600 + 11188 15857 7055 7074 0.16848307121586004 IPFPLLLIQR 10 Unmodified _IPFPLLLIQR_ 0 0 0 REV__ENST00000378962.3_1_X:30578303-30578414:-|nuORF REV__ENST00000378962.3_1_X:30578303-30578414:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 303.198405 1208.76451 2.2064 0.00066897 1.3575 0.00041161 3.5639 0.0010806 303.19878043118575 43.08 0.20527 43.35 43.195 43.401 0.27021 -0.07834 -0.00018639 NaN 0.77653 36 17 3 NaN NaN NaN NaN 0 NaN NaN 0 4247100 + 11189 15857 7055 7074 0.16848307121586004 IPFPLLLIQR 10 Unmodified _IPFPLLLIQR_ 0 0 0 REV__ENST00000378962.3_1_X:30578303-30578414:-|nuORF REV__ENST00000378962.3_1_X:30578303-30578414:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 303.198405 1208.76451 2.2757 0.00068998 1.3727 0.0004162 3.6484 0.0011062 303.19877710399874 42.762 0.39845 43.409 43.26 43.658 0.64693 -0.018977 -0.00016801 NaN 0.77653 40 31 2 NaN NaN NaN NaN 0 NaN NaN 0 1864400 + 11190 15857 7055 7074 0.16848307121586004 IPFQNCCYNF 10 Unmodified _IPFQNCCYNF_ 0 0 0 ENSG00000054219|ENST00000263636|LY75;nc|ENSG00000054219|O60449-3|LY75;nc|ENSG00000054219|O60449-2|LY75 ENSG00000054219|ENST00000263636|LY75 ENSG00000054219|ENST00000263636|LY75 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 624.7650146484375 2 624.762452 1247.51035 NaN NaN NaN NaN NaN NaN NaN 56.901 1 57.678 57.178 58.178 0.77786 0 0 0 0.99983 1 26028 26028 1.8442 0.19162 1 11191 604 7056 7075 13142 13142 -0.10350451031558805 IPFVLGRRILA 11 Unmodified _IPFVLGRRILA_ 0 0 0 chr3:185218240-185219145|205|13.52|0.49|4.8|-|2|EHHADH,None|1 chr3:185218240-185219145|205|13.52|0.49|4.8|-|2|EHHADH,None|1 chr3:185218240-185219145|205|13.52|0.49|4.8|-|2|EHHADH,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 627.9063110351562 2 627.905882 1253.79721 NaN NaN NaN NaN NaN NaN NaN 64.554 1 65.269 64.769 65.769 0.71521 0 0 0 0.97175 1 30417 30417 9.3831 2.0939 1 11192 170 7057 7076 13143 13143 0.18046514244474565 IPFVMDPQL 9 Unmodified _IPFVMDPQL_ 0 0 0 ENST00000412609.5_1_19:40170059-40174276:+|nuORF;ENST00000598164.2_1_19:40172096-40174784:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.2816162109375 2 530.280803 1058.54705 3.3696 0.0017868 0.19259 0.00010213 3.5622 0.001889 530.2809117269825 87.228 0.34077 87.478 87.301 87.642 0.24974 40 15 3 0 0 0 0.0061269 2 40127 40127;40179 89.427 49.477 1 2409000 11193 7681 7058 7077 13144;13145 13144 0.020121688566632656 IPFVMDPQL 9 Unmodified _IPFVMDPQL_ 0 0 0 ENST00000412609.5_1_19:40170059-40174276:+|nuORF;ENST00000598164.2_1_19:40172096-40174784:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.2819213867188 2 530.280803 1058.54705 3.4155 0.0018112 -0.6113 -0.00032416 2.8042 0.001487 530.2805588170648 86.677 0.33536 87.353 87.241 87.576 0.67555 41 15 4 0 0 0 0.012869 2 39909 39909;39961 77.984 45.199 1 2724900 11194 7681 7058 7077 13146;13147 13146 0.020121688566632656 IPFYWWLDMWR 11 Unmodified _IPFYWWLDMWR_ 0 0 0 ENSG00000257008|ENST00000582579|GPR142;nc|ENSG00000257008|Q7Z601|GPR142 ENSG00000257008|ENST00000582579|GPR142 ENSG00000257008|ENST00000582579|GPR142 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 807.0162963867188 2 806.892115 1611.76968 NaN NaN NaN NaN NaN NaN NaN 105.25 1 105.3 104.8 105.8 0.050888 0 0 0 1.0071 1 56932 56932 1.4819 0.15237 1 11195 6292 7059 7078 13148 13148 -0.011737570781178874 IPGFMCQGSDF 11 Unmodified _IPGFMCQGSDF_ 0 0 0 ENST00000527147.1_1_11:100537243-100537690:+|nuORF ENST00000527147.1_1_11:100537243-100537690:+|nuORF ENST00000527147.1_1_11:100537243-100537690:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 601.2548828125 2 601.254459 1200.49437 3.4685 0.0020855 -0.49184 -0.00029572 2.9767 0.0017897 601.254203615944 76.08 0.23329 76.337 76.173 76.406 0.25705 23 17 2 0 0 0 0.71079 1 35012 35012 10.8 0 1 487230 11196 8683 7060 7079 13149 13149 -0.09786157268422357 IPGSDNLLV 9 Unmodified _IPGSDNLLV_ 0 0 0 nc|ENSG00000083444|Q02809-2|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.2619934082031 2 464.260925 926.507297 2.6419 0.0012266 0.59832 0.00027777 3.2403 0.0015043 464.2610701852109 35.802 0.34106 35.802 35.658 35.999 0 41 18 3 0 0 0 0.057744 1 16294 16294 43.858 0 1 1090200 11197 9567 7061 7080 13150 13150 0.041103651776211336 IPGSDNLLV 9 Unmodified _IPGSDNLLV_ 0 0 0 nc|ENSG00000083444|Q02809-2|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.2619323730469 2 464.260925 926.507297 2.7361 0.0012703 0.23328 0.00010831 2.9694 0.0013786 464.2609546054856 34.919 0.37746 35.708 35.553 35.93 0.78921 60 24 3 0 0 0 0.057744 1 15791 15791 43.858 0 1 1159900 11198 9567 7061 7080 13151 13151 0.041103651776211336 IPGSDNLLV 9 Unmodified _IPGSDNLLV_ 0 0 0 nc|ENSG00000083444|Q02809-2|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.2627258300781 2 464.260925 926.507297 2.6812 0.0012448 0.18683 8.6738E-05 2.868 0.0013315 464.26103860671685 35.612 0.48297 35.868 35.651 36.134 0.25524 42 16 3 0 0 0 0.057744 1 16196 16196 43.858 0 1 1008500 11199 9567 7061 7080 13152 13152 0.041103651776211336 IPGYRIDLIL 10 Unmodified _IPGYRIDLIL_ 0 0 0 ENST00000491723.5_1_13:51995314-52026679:-|nuORF ENST00000491723.5_1_13:51995314-52026679:-|nuORF ENST00000491723.5_1_13:51995314-52026679:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 586.8570556640625 2 586.855524 1171.69649 NaN NaN NaN NaN NaN NaN NaN 72.219 1 72.923 72.423 73.423 0.70386 0 0 0 0.9754 1 34749 34749 9.3831 0.63772 1 11200 8397 7062 7081 13153 13153 0.11751437470957171 IPHIHKSL 8 Unmodified _IPHIHKSL_ 0 0 0 ENSG00000164032|ENST00000296417|H2AZ1;ENSG00000105968|ENST00000308153|H2AZ2;ENST00000511319.5_1_4:100869621-100871200:-|nuORF;nc|ENSG00000105968|Q71UI9-4|H2AZ2;nc|ENSG00000105968|Q71UI9-3|H2AZ2 ENSG00000164032|ENST00000296417|H2AZ1 ENSG00000164032|ENST00000296417|H2AZ1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 315.5281982421875 3 315.527388 943.560336 2.0705 0.0006533 0.55364 0.00017469 2.6241 0.00082799 315.52754013869173 15.121 1.0565 15.121 14.63 15.687 0 287 122 3 0 0 0 0.10978 1 6606 6606 21.537 3.3906 1 397330 11201 1543 7063 7082 13154 13154 0.08629787750930973 IPHIHKSL 8 Unmodified _IPHIHKSL_ 0 0 0 ENSG00000164032|ENST00000296417|H2AZ1;ENSG00000105968|ENST00000308153|H2AZ2;ENST00000511319.5_1_4:100869621-100871200:-|nuORF;nc|ENSG00000105968|Q71UI9-4|H2AZ2;nc|ENSG00000105968|Q71UI9-3|H2AZ2 ENSG00000164032|ENST00000296417|H2AZ1 ENSG00000164032|ENST00000296417|H2AZ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 315.52801513671875 3 315.527388 943.560336 2.2751 0.00071786 0.0091571 2.8893E-06 2.2843 0.00072075 315.52737407346297 14.663 0.30897 14.889 14.702 15.011 0.22622 56 21 4 0 0 0 0.26626 1 6437 6437 31.268 2.1868 1 1454900 11202 1543 7063 7082 13155 13155 0.08629787750930973 IPHIHKSL 8 Unmodified _IPHIHKSL_ 0 0 0 ENSG00000164032|ENST00000296417|H2AZ1;ENSG00000105968|ENST00000308153|H2AZ2;ENST00000511319.5_1_4:100869621-100871200:-|nuORF;nc|ENSG00000105968|Q71UI9-4|H2AZ2;nc|ENSG00000105968|Q71UI9-3|H2AZ2 ENSG00000164032|ENST00000296417|H2AZ1 ENSG00000164032|ENST00000296417|H2AZ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 315.5277099609375 3 315.527388 943.560336 2.0508 0.0006471 -0.24638 -7.7738E-05 1.8045 0.00056936 315.5272904689143 14.175 0.10208 14.482 14.425 14.527 0.3069 29 12 3 0 0 0 0.070862 1 6400 6400 49.554 5.696 1 12719000 11203 1543 7063 7082 13156 13156 0.08629787750930973 IPHIHKSL 8 Unmodified _IPHIHKSL_ 0 0 0 ENSG00000164032|ENST00000296417|H2AZ1;ENSG00000105968|ENST00000308153|H2AZ2;ENST00000511319.5_1_4:100869621-100871200:-|nuORF;nc|ENSG00000105968|Q71UI9-4|H2AZ2;nc|ENSG00000105968|Q71UI9-3|H2AZ2 ENSG00000164032|ENST00000296417|H2AZ1 ENSG00000164032|ENST00000296417|H2AZ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 315.528076171875 3 315.527388 943.560336 2.2212 0.00070085 0.16668 5.2591E-05 2.3879 0.00075344 315.5273862165574 14.147 0.11663 14.795 14.722 14.839 0.6482 41 18 3 0 0 0 0.05432 1 6343 6343 53.833 11.993 1 8061100 11204 1543 7063 7082 13157 13157 0.08629787750930973 IPHIHKSL 8 Unmodified _IPHIHKSL_ 0 0 0 ENSG00000164032|ENST00000296417|H2AZ1;ENSG00000105968|ENST00000308153|H2AZ2;ENST00000511319.5_1_4:100869621-100871200:-|nuORF;nc|ENSG00000105968|Q71UI9-4|H2AZ2;nc|ENSG00000105968|Q71UI9-3|H2AZ2 ENSG00000164032|ENST00000296417|H2AZ1 ENSG00000164032|ENST00000296417|H2AZ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.788330078125 2 472.787444 943.560336 3.0867 0.0014593 -0.80921 -0.00038258 2.2775 0.0010768 472.7870768106614 14.141 0.070207 14.789 14.752 14.822 0.64819 20 11 2 0 0 0 0.0099301 1 6348 6348 99.799 6.9768 1 3843500 11205 1543 7063 7082 13158 13158 0.08629787750930973 IPHIHKSL 8 Unmodified _IPHIHKSL_ 0 0 0 ENSG00000164032|ENST00000296417|H2AZ1;ENSG00000105968|ENST00000308153|H2AZ2;ENST00000511319.5_1_4:100869621-100871200:-|nuORF;nc|ENSG00000105968|Q71UI9-4|H2AZ2;nc|ENSG00000105968|Q71UI9-3|H2AZ2 ENSG00000164032|ENST00000296417|H2AZ1 ENSG00000164032|ENST00000296417|H2AZ1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 472.787444 943.560336 2.8986 0.0013704 0.082679 3.909E-05 2.9813 0.0014095 472.7875906139759 14.647 0.25014 14.873 14.743 14.994 0.22622 -0.051536 0.00015868 NaN 99.799 24 17 2 NaN NaN NaN NaN 0 NaN NaN 0 238320 11206 1543 7063 7082 0.08629787750930973 IPHLVFFL 8 Unmodified _IPHLVFFL_ 0 0 0 ENST00000392429.1_1_6:130761622-130761769:+|nuORF ENST00000392429.1_1_6:130761622-130761769:+|nuORF ENST00000392429.1_1_6:130761622-130761769:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.2980041503906 2 493.297114 984.579674 3.1207 0.0015394 -1.5606 -0.00076986 1.5601 0.00076958 493.2960180733039 32.665 0.25028 33.283 33.126 33.376 0.61831 19 11 2 0 0 0 0.457 1 14996 14996 24.21 7.1234 1 273360 11207 7515 7064 7083 13159 13159 0.08676744041838447 IPHLVFFL 8 Unmodified _IPHLVFFL_ 0 0 0 ENST00000392429.1_1_6:130761622-130761769:+|nuORF ENST00000392429.1_1_6:130761622-130761769:+|nuORF ENST00000392429.1_1_6:130761622-130761769:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 493.297114 984.579674 3.291 0.0016235 -0.96985 -0.00047842 2.3212 0.001145 493.296508549944 33.175 0.19512 33.429 33.357 33.552 0.25389 0.072753 0.00023643 NaN 24.21 14 8 2 NaN NaN NaN NaN 0 NaN NaN 0 314210 11208 7515 7064 7083 0.08676744041838447 IPHMDIEAL 9 Oxidation (M) _IPHM(Oxidation (M))DIEAL_ IPHM(1)DIEAL IPHM(60)DIEAL 0 0 1 ENST00000478340.2_1_6:35437033-35438524:+|nuORF;ENSG00000198755|ENST00000322203|RPL10A;ENST00000464112.5_1_6:35436546-35438524:+|nuORF;ENST00000472730.1_1_3:61728131-61728755:-|nuORF;ENST00000426688.1_1_1:81674334-81674790:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.7672119140625 2 527.765517 1053.51648 3.0931 0.0016324 -0.43622 -0.00023022 2.6569 0.0014022 527.7651268344166 43.836 0.16226 43.836 43.767 43.929 0 16 10 2 0 0 0 0.026068 1 20025 20025 60.39 13.469 1 1730900 11209 5930 7065 7084 13160 13160 79 -0.008136095283589384 IPHMDIEAL 9 Oxidation (M) _IPHM(Oxidation (M))DIEAL_ IPHM(1)DIEAL IPHM(64)DIEAL 0 0 1 ENST00000478340.2_1_6:35437033-35438524:+|nuORF;ENSG00000198755|ENST00000322203|RPL10A;ENST00000464112.5_1_6:35436546-35438524:+|nuORF;ENST00000472730.1_1_3:61728131-61728755:-|nuORF;ENST00000426688.1_1_1:81674334-81674790:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.7669067382812 2 527.765517 1053.51648 NaN NaN NaN NaN NaN NaN NaN 42.862 1 43.676 43.176 44.176 0.81444 0 0 0 0.025616 1 19487 19487 63.563 25.412 1 11210 5930 7065 7084 13161 13161 79 -0.008136095283589384 IPHMDIEAL 9 Oxidation (M) _IPHM(Oxidation (M))DIEAL_ IPHM(1)DIEAL IPHM(71)DIEAL 0 0 1 ENST00000478340.2_1_6:35437033-35438524:+|nuORF;ENSG00000198755|ENST00000322203|RPL10A;ENST00000464112.5_1_6:35436546-35438524:+|nuORF;ENST00000472730.1_1_3:61728131-61728755:-|nuORF;ENST00000426688.1_1_1:81674334-81674790:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.7671508789062 2 527.765517 1053.51648 3.1504 0.0016627 -0.26294 -0.00013877 2.8875 0.0015239 528.266567624244 43.711 0.33702 43.98 43.701 44.038 0.26939 24 11 3 0 0 0 0.018173 1 19961 19961 70.716 24.695 1 2900500 11211 5930 7065 7084 13162 13162 79 -0.008136095283589384 IPHMDIEAL 9 Oxidation (M) _IPHM(Oxidation (M))DIEAL_ IPHM(1)DIEAL IPHM(71)DIEAL 0 0 1 ENST00000478340.2_1_6:35437033-35438524:+|nuORF;ENSG00000198755|ENST00000322203|RPL10A;ENST00000464112.5_1_6:35436546-35438524:+|nuORF;ENST00000472730.1_1_3:61728131-61728755:-|nuORF;ENST00000426688.1_1_1:81674334-81674790:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.7672119140625 2 527.765517 1053.51648 3.425 0.0018076 0.33038 0.00017436 3.7554 0.001982 527.765622011829 43.107 0.42395 43.756 43.598 44.022 0.64872 39 22 2 0 0 0 0.018173 2 19741 19741;19790 70.716 24.695 1 2098000 11212 5930 7065 7084 13163;13164 13163 79 -0.008136095283589384 IPHMDIEAL 9 Unmodified _IPHMDIEAL_ 0 0 0 ENST00000478340.2_1_6:35437033-35438524:+|nuORF;ENSG00000198755|ENST00000322203|RPL10A;ENST00000464112.5_1_6:35436546-35438524:+|nuORF;ENST00000472730.1_1_3:61728131-61728755:-|nuORF;ENST00000426688.1_1_1:81674334-81674790:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 519.76953125 2 519.76806 1037.52157 3.1996 0.0016631 -0.36001 -0.00018712 2.8396 0.001476 519.7679788557149 63.645 0.38076 63.894 63.719 64.099 0.24803 73 21 5 0 0 0 0.0013731 3 29150 29090;29150;29198 114.94 50.707 1 20155000 11213 5930 7065 7085 13165;13166;13167 13166 0.004306943342726299 IPHMDIEAL 9 Unmodified _IPHMDIEAL_ 0 0 0 ENST00000478340.2_1_6:35437033-35438524:+|nuORF;ENSG00000198755|ENST00000322203|RPL10A;ENST00000464112.5_1_6:35436546-35438524:+|nuORF;ENST00000472730.1_1_3:61728131-61728755:-|nuORF;ENST00000426688.1_1_1:81674334-81674790:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 519.7697143554688 2 519.76806 1037.52157 3.2626 0.0016958 -0.23834 -0.00012388 3.0242 0.0015719 519.768063589217 63.052 0.35922 63.71 63.559 63.918 0.65808 67 19 5 0 0 0 0.0039848 3 28906 28854;28906;28954 93.883 36.412 1 15922000 11214 5930 7065 7085 13168;13169;13170 13169 0.004306943342726299 IPHMDIEAL 9 Unmodified _IPHMDIEAL_ 0 0 0 ENST00000478340.2_1_6:35437033-35438524:+|nuORF;ENSG00000198755|ENST00000322203|RPL10A;ENST00000464112.5_1_6:35436546-35438524:+|nuORF;ENST00000472730.1_1_3:61728131-61728755:-|nuORF;ENST00000426688.1_1_1:81674334-81674790:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 519.76806 1037.52157 2.746 0.0014273 -1.2241 -0.00063624 1.5219 0.00079104 519.7671015452175 63.888 0.15964 63.888 63.789 63.948 0 0.14143 -0.00071029 NaN 114.94 40 25 2 NaN NaN NaN NaN 0 NaN NaN 0 17948000 11215 5930 7065 7085 0.004306943342726299 IPHMDIEAL 9 Unmodified _IPHMDIEAL_ 0 0 0 ENST00000478340.2_1_6:35437033-35438524:+|nuORF;ENSG00000198755|ENST00000322203|RPL10A;ENST00000464112.5_1_6:35436546-35438524:+|nuORF;ENST00000472730.1_1_3:61728131-61728755:-|nuORF;ENST00000426688.1_1_1:81674334-81674790:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 519.76806 1037.52157 2.95 0.0015333 -0.99258 -0.00051591 1.9575 0.0010174 519.7674733471104 62.773 0.24806 63.496 63.377 63.625 0.72236 -0.25138 -0.00046963 NaN 114.94 78 35 3 NaN NaN NaN NaN 0 NaN NaN 0 20671000 11216 5930 7065 7085 0.004306943342726299 IPIGIDKAL 9 Unmodified _IPIGIDKAL_ 0 0 0 nc|ENSG00000096060|Q13451-2|FKBP5;ENSG00000096060|ENST00000357266|FKBP5 nc|ENSG00000096060|Q13451-2|FKBP5 nc|ENSG00000096060|Q13451-2|FKBP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.2988586425781 2 470.29731 938.580068 NaN NaN NaN NaN NaN NaN NaN 57.517 1 57.517 57.017 58.017 0 0 0 0 0.062126 1 26513 26513 49.933 1.5872 1 11217 1125 7066 7086 13171 13171 0.10832118971029558 IPIGIDKAL 9 Unmodified _IPIGIDKAL_ 0 0 0 nc|ENSG00000096060|Q13451-2|FKBP5;ENSG00000096060|ENST00000357266|FKBP5 nc|ENSG00000096060|Q13451-2|FKBP5 nc|ENSG00000096060|Q13451-2|FKBP5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.2995300292969 2 470.29731 938.580068 2.8182 0.0013254 0.64555 0.0003036 3.4638 0.001629 470.2977149460624 57.136 0.20905 57.4 57.311 57.52 0.26444 24 13 2 0 0 0 0.026853 1 26178 26178 59.368 7.1 1 1489700 11218 1125 7066 7086 13172 13172 0.10832118971029558 IPIGIDKAL 9 Unmodified _IPIGIDKAL_ 0 0 0 nc|ENSG00000096060|Q13451-2|FKBP5;ENSG00000096060|ENST00000357266|FKBP5 nc|ENSG00000096060|Q13451-2|FKBP5 nc|ENSG00000096060|Q13451-2|FKBP5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.2987060546875 2 470.29731 938.580068 2.9941 0.0014081 -0.41373 -0.00019458 2.5804 0.0012135 470.2971209782074 56.55 0.27192 57.218 57.113 57.385 0.66829 31 13 3 0 0 0 0.03963 1 25915 25915 51.63 5.6089 1 1755400 11219 1125 7066 7086 13173 13173 0.10832118971029558 IPIHADPRL 9 Unmodified _IPIHADPRL_ 0 0 0 nc|ENSG00000171453|O15160-2|POLR1C;ENSG00000171453|ENST00000642195|POLR1C;ENST00000481352.6_1_6:43484832-43487644:+|nuORF nc|ENSG00000171453|O15160-2|POLR1C nc|ENSG00000171453|O15160-2|POLR1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 344.5387878417969 3 344.538064 1030.59236 2.4077 0.00082955 0.044319 1.5269E-05 2.452 0.00084482 344.53808217397346 36.6 0.65833 36.6 36.206 36.865 0 81 29 4 0 0 0 0.088474 2 16580 16580;16626 35.612 15.159 1 4414200 11220 4803 7067 7087 13174;13175 13174 0.07829155434069435 IPIHADPRL 9 Unmodified _IPIHADPRL_ 0 0 0 nc|ENSG00000171453|O15160-2|POLR1C;ENSG00000171453|ENST00000642195|POLR1C;ENST00000481352.6_1_6:43484832-43487644:+|nuORF nc|ENSG00000171453|O15160-2|POLR1C nc|ENSG00000171453|O15160-2|POLR1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 344.538818359375 3 344.538064 1030.59236 2.4553 0.00084595 -0.10179 -3.5071E-05 2.3535 0.00081088 344.5380599892897 35.69 0.35138 36.481 36.233 36.585 0.79131 43 17 4 0 0 0 0.068032 2 16157 16157;16213 40.725 14.457 1 4342100 11221 4803 7067 7087 13176;13177 13176 0.07829155434069435 IPIHADPRL 9 Unmodified _IPIHADPRL_ 0 0 0 nc|ENSG00000171453|O15160-2|POLR1C;ENSG00000171453|ENST00000642195|POLR1C;ENST00000481352.6_1_6:43484832-43487644:+|nuORF nc|ENSG00000171453|O15160-2|POLR1C nc|ENSG00000171453|O15160-2|POLR1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.5390625 3 344.538064 1030.59236 2.4788 0.00085405 -0.0033772 -1.1636E-06 2.4754 0.00085288 344.5380448369222 36.363 0.52626 36.621 36.271 36.797 0.25768 54 18 4 0 0 0 0.24272 2 16528 16528;16585 20.581 4.0151 1 6739500 11222 4803 7067 7087 13178;13179 13178 0.07829155434069435 IPIHADPRL 9 Unmodified _IPIHADPRL_ 0 0 0 nc|ENSG00000171453|O15160-2|POLR1C;ENSG00000171453|ENST00000642195|POLR1C;ENST00000481352.6_1_6:43484832-43487644:+|nuORF nc|ENSG00000171453|O15160-2|POLR1C nc|ENSG00000171453|O15160-2|POLR1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 344.53912353515625 3 344.538064 1030.59236 2.4797 0.00085435 0.067812 2.3364E-05 2.5475 0.00087772 344.53808437202366 35.784 0.85308 36.411 35.842 36.695 0.62631 47 25 3 0 0 0 0.088474 2 16380 16380;16436 35.612 10.731 1 5370400 11223 4803 7067 7087 13180;13181 13180 0.07829155434069435 IPILYEHQL 9 Unmodified _IPILYEHQL_ 0 0 0 nc|ENSG00000117523|Q9Y520-2|PRRC2C;nc|ENSG00000117523|Q9Y520-3|PRRC2C;nc|ENSG00000117523|Q9Y520-6|PRRC2C;nc|ENSG00000117523|Q9Y520-4|PRRC2C;nc|ENSG00000117523|Q9Y520-5|PRRC2C;nc|ENSG00000117523|Q9Y520|PRRC2C;ENSG00000117523|ENST00000647382|PRRC2C nc|ENSG00000117523|Q9Y520-2|PRRC2C nc|ENSG00000117523|Q9Y520-2|PRRC2C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.319580078125 2 563.318774 1124.623 NaN NaN NaN NaN NaN NaN NaN 59.136 1 59.895 59.395 60.395 0.75894 0 0 0 0.022529 1 27179 27179 69.105 27.265 1 11224 2078 7068 7088 13182 13182 0.06566889028476908 IPILYEHQL 9 Unmodified _IPILYEHQL_ 0 0 0 nc|ENSG00000117523|Q9Y520-2|PRRC2C;nc|ENSG00000117523|Q9Y520-3|PRRC2C;nc|ENSG00000117523|Q9Y520-6|PRRC2C;nc|ENSG00000117523|Q9Y520-4|PRRC2C;nc|ENSG00000117523|Q9Y520-5|PRRC2C;nc|ENSG00000117523|Q9Y520|PRRC2C;ENSG00000117523|ENST00000647382|PRRC2C nc|ENSG00000117523|Q9Y520-2|PRRC2C nc|ENSG00000117523|Q9Y520-2|PRRC2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.3218994140625 2 563.318774 1124.623 3.6109 0.0020341 0.74534 0.00041986 4.3563 0.002454 563.3193720392247 59.947 0.32315 60.207 60.063 60.386 0.2593 27 14 3 0 0 0 0.0029142 2 27430 27430;27482 96.111 30.876 1 694070 11225 2078 7068 7088 13183;13184 13183 0.06566889028476908 IPILYEHQL 9 Unmodified _IPILYEHQL_ 0 0 0 nc|ENSG00000117523|Q9Y520-2|PRRC2C;nc|ENSG00000117523|Q9Y520-3|PRRC2C;nc|ENSG00000117523|Q9Y520-6|PRRC2C;nc|ENSG00000117523|Q9Y520-4|PRRC2C;nc|ENSG00000117523|Q9Y520-5|PRRC2C;nc|ENSG00000117523|Q9Y520|PRRC2C;ENSG00000117523|ENST00000647382|PRRC2C nc|ENSG00000117523|Q9Y520-2|PRRC2C nc|ENSG00000117523|Q9Y520-2|PRRC2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.3208618164062 2 563.318774 1124.623 3.5677 0.0020097 -0.50755 -0.00028591 3.0601 0.0017238 563.8194956583942 59.312 0.28475 59.979 59.865 60.15 0.66703 18 12 2 0 0 0 0.001377 2 27163 27163;27217 114.65 49.414 1 1446100 11226 2078 7068 7088 13185;13186 13185 0.06566889028476908 IPIMLVSMA 9 Unmodified _IPIMLVSMA_ 0 0 0 REV__ENST00000449739.6_1_4:73923833-73935428:-|nuORF REV__ENST00000449739.6_1_4:73923833-73935428:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.7757263183594 2 487.774299 973.534046 NaN NaN NaN NaN NaN NaN NaN 63.645 1 64.303 63.803 64.803 0.65809 0 0 0 0.13032 1 29167 29167 36.044 3.7387 1 + 11227 16404 7069 7089 13187 13187 0.046220144729318235 IPIWDIEM 8 Unmodified _IPIWDIEM_ 0 0 0 REV__nc|ENSG00000120458|Q6P1R3-2|MSANTD2 REV__nc|ENSG00000120458|Q6P1R3-2|MSANTD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.76019287109375 2 508.759704 1015.50485 NaN NaN NaN NaN NaN NaN NaN 27.206 1 27.468 26.968 27.968 0.26245 0 0 0 0.44558 1 12364 12364 30.225 0.38423 1 + 11228 11540 7070 7090 13188 13188 -0.0022780655169754027 IPIWDIEM 8 Unmodified _IPIWDIEM_ 0 0 0 REV__nc|ENSG00000120458|Q6P1R3-2|MSANTD2 REV__nc|ENSG00000120458|Q6P1R3-2|MSANTD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.75909423828125 2 508.759704 1015.50485 NaN NaN NaN NaN NaN NaN NaN 27.306 1 27.568 27.068 28.068 0.26245 0 0 0 0.44558 1 12411 12411 30.225 0.38423 1 + 11229 11540 7070 7090 13189 13189 -0.0022780655169754027 IPKDTLWKLPI 11 Unmodified _IPKDTLWKLPI_ 0 0 0 REV__HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|69|2|sense REV__HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|69|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.9406433105469 3 441.939346 1322.79621 2.8002 0.0012375 2.1308 0.00094167 4.931 0.0021792 441.9398428099744 56.155 0.36324 56.421 56.247 56.61 0.26543 25 14 2 0 0 0 0.82535 1 25726 25726 2.6312 1.1761 1 1073100 + 11230 17739 7071 7091 13190 13190 0.1477225508488118 IPKDTLWKLPI 11 Unmodified _IPKDTLWKLPI_ 0 0 0 REV__HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|69|2|sense REV__HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|69|2|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 441.939346 1322.79621 3.1198 0.0013788 0.91942 0.00040633 4.0393 0.0017851 442.27408375333954 55.757 0.21466 56.425 56.316 56.531 0.66797 0.0022264 -0.000709 NaN 2.6312 13 7 2 NaN NaN NaN NaN 0 NaN NaN 0 545840 + 11231 17739 7071 7091 0.1477225508488118 IPKHKRKGK 9 Unmodified _IPKHKRKGK_ 0 0 0 REV__nc|ENSG00000155966|P51816-7|AFF2 REV__nc|ENSG00000155966|P51816-7|AFF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.3632202148438 2 546.361642 1090.70873 NaN NaN NaN NaN NaN NaN NaN 39.961 1 39.961 39.461 40.461 0 0 0 0 0.89509 1 18137 18137 4.756 0.81161 1 + 11232 12758 7072 7092 13191 13191 0.16700518724655922 IPKIRKKWLVC 11 Unmodified _IPKIRKKWLVC_ 0 0 0 REV__nc|ENSG00000168685|P16871-2|IL7R REV__nc|ENSG00000168685|P16871-2|IL7R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 461.9598083496094 3 461.960087 1382.85843 NaN NaN NaN NaN NaN NaN NaN 69.817 1 69.817 69.317 70.317 0 0 0 0 1.0057 1 33789 33789 1.3296 0.82369 1 + 11233 13360 7073 7093 13192 13192 0.18231702952243722 IPKLKYIPLKF 11 Unmodified _IPKLKYIPLKF_ 0 0 0 nc|ENSG00000158486|Q8TD57-3|DNAH3;nc|ENSG00000158486|Q8TD57|DNAH3 nc|ENSG00000158486|Q8TD57-3|DNAH3 nc|ENSG00000158486|Q8TD57-3|DNAH3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 680.1051025390625 2 680.441766 1358.86898 NaN NaN NaN NaN NaN NaN NaN 85.136 1 85.801 85.301 86.301 0.66566 0 0 0 1.0071 1 39207 39207 1.4819 0.15237 1 11234 9707 7074 7094 13193 13193 0.2039000887828024 IPKNKTKENIL 11 Unmodified _IPKNKTKENIL_ 0 0 0 nc|ENSG00000125944|O43390-4|HNRNPR;nc|ENSG00000125944|O43390-3|HNRNPR;ENSG00000125944|ENST00000302271|HNRNPR;nc|ENSG00000125944|O43390-2|HNRNPR nc|ENSG00000125944|O43390-4|HNRNPR nc|ENSG00000125944|O43390-4|HNRNPR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 433.26788330078125 3 433.266122 1296.77654 2.911 0.0012612 0.30052 0.0001302 3.2115 0.0013914 433.26642873125473 14.327 0.16918 14.327 14.25 14.42 0 20 9 3 0 0 0 0.6195 1 6311 6311 14.838 0.61973 1 370600 11235 2434 7075 7095 13194 13194 0.1400187907415784 IPKNKTKENIL 11 Unmodified _IPKNKTKENIL_ 0 0 0 nc|ENSG00000125944|O43390-4|HNRNPR;nc|ENSG00000125944|O43390-3|HNRNPR;ENSG00000125944|ENST00000302271|HNRNPR;nc|ENSG00000125944|O43390-2|HNRNPR nc|ENSG00000125944|O43390-4|HNRNPR nc|ENSG00000125944|O43390-4|HNRNPR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 433.2677917480469 3 433.266122 1296.77654 3.1763 0.0013762 0.019399 8.4048E-06 3.1957 0.0013846 433.2662329992191 13.297 0.44261 13.94 13.791 14.234 0.64272 69 32 3 0 0 0 0.77756 1 5937 5937 7.846 1.6117 1 611530 11236 2434 7075 7095 13195 13195 0.1400187907415784 IPKRKRKAKKR 11 Unmodified _IPKRKRKAKKR_ 0 0 0 ENSG00000206432|ENST00000383490|TMEM200C ENSG00000206432|ENST00000383490|TMEM200C ENSG00000206432|ENST00000383490|TMEM200C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 705.0943603515625 2 704.988604 1407.96265 NaN NaN NaN NaN NaN NaN NaN 82.946 1 82.991 82.491 83.491 0.045006 0 0 0 1.008 1 41038 41038 0.35063 0.35063 1 11237 6071 7076 7096 13196 13196 0.27499165823928706 IPKRKRKAKKR 11 Unmodified _IPKRKRKAKKR_ 0 0 0 ENSG00000206432|ENST00000383490|TMEM200C ENSG00000206432|ENST00000383490|TMEM200C ENSG00000206432|ENST00000383490|TMEM200C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 704.9793701171875 2 704.988604 1407.96265 NaN NaN NaN NaN NaN NaN NaN 100.95 1 101.01 100.51 101.51 0.059723 0 0 0 1.008 1 54812 54812 0.35063 0 1 11238 6071 7076 7096 13197 13197 0.27499165823928706 IPKRWFKPKWK 11 Unmodified _IPKRWFKPKWK_ 0 0 0 REV__nc|ENSG00000133858|O60293-2|ZFC3H1 REV__nc|ENSG00000133858|O60293-2|ZFC3H1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 757.4609375 2 757.461356 1512.90816 NaN NaN NaN NaN NaN NaN NaN 55.654 1 55.654 55.154 56.154 0 0 0 0 1.008 1 25590 25590 0.35063 0.081612 1 + 11239 11945 7077 7097 13198 13198 0.17222153952525332 IPKSKTKEQIL 11 Unmodified _IPKSKTKEQIL_ 0 0 0 nc|ENSG00000271793|O60506-5|SYNCRIP;nc|ENSG00000271793|O60506-4|SYNCRIP;nc|ENSG00000271793|O60506-3|SYNCRIP;chr6:85641451-85641990|481|13.22|0.81|4.04|-|ENST00000677059|SYNCRIP,SYNCRIP;nc|ENSG00000271793|O60506-2|SYNCRIP;ENSG00000135316|ENST00000369622|SYNCRIP nc|ENSG00000271793|O60506-5|SYNCRIP nc|ENSG00000271793|O60506-5|SYNCRIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 428.9356384277344 3 428.934372 1283.78129 3.1429 0.0013481 -0.082161 -3.5242E-05 3.0608 0.0013129 428.9344326196205 13.574 0.34088 14.222 14.042 14.383 0.64819 59 23 3 0 0 0 0.25898 1 6110 6110 26.346 8.4826 1 687740 11240 9863 7078 7098 13199 13199 0.15074763216898646 IPKSKTKEQIL 11 Unmodified _IPKSKTKEQIL_ 0 0 0 nc|ENSG00000271793|O60506-5|SYNCRIP;nc|ENSG00000271793|O60506-4|SYNCRIP;nc|ENSG00000271793|O60506-3|SYNCRIP;chr6:85641451-85641990|481|13.22|0.81|4.04|-|ENST00000677059|SYNCRIP,SYNCRIP;nc|ENSG00000271793|O60506-2|SYNCRIP;ENSG00000135316|ENST00000369622|SYNCRIP nc|ENSG00000271793|O60506-5|SYNCRIP nc|ENSG00000271793|O60506-5|SYNCRIP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 428.934372 1283.78129 2.8764 0.0012338 -0.30551 -0.00013104 2.5709 0.0011027 428.93434179753314 14.407 0.29917 14.407 14.331 14.63 0 0.069931 -0.00028452 NaN 26.346 43 26 3 NaN NaN NaN NaN 0 NaN NaN 0 431940 11241 9863 7078 7098 0.15074763216898646 IPKSKTKEQIL 11 Unmodified _IPKSKTKEQIL_ 0 0 0 nc|ENSG00000271793|O60506-5|SYNCRIP;nc|ENSG00000271793|O60506-4|SYNCRIP;nc|ENSG00000271793|O60506-3|SYNCRIP;chr6:85641451-85641990|481|13.22|0.81|4.04|-|ENST00000677059|SYNCRIP,SYNCRIP;nc|ENSG00000271793|O60506-2|SYNCRIP;ENSG00000135316|ENST00000369622|SYNCRIP nc|ENSG00000271793|O60506-5|SYNCRIP nc|ENSG00000271793|O60506-5|SYNCRIP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 428.934372 1283.78129 2.7068 0.001161 0.098269 4.2151E-05 2.8051 0.0012032 429.26868402922946 14.157 0.27835 14.383 14.25 14.529 0.22622 0.045349 0.00023506 NaN 26.346 46 25 2 NaN NaN NaN NaN 0 NaN NaN 0 345010 11242 9863 7078 7098 0.15074763216898646 IPLKKKWIL 9 Unmodified _IPLKKKWIL_ 0 0 0 REV__ENST00000482079.1_2_3:55514986-55515127:-|nuORF REV__ENST00000482079.1_2_3:55514986-55515127:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.890869140625 2 569.88917 1137.76379 NaN NaN NaN NaN NaN NaN NaN 79.484 1 80.145 79.645 80.645 0.66082 0 0 0 0.90511 1 36623 36623 2.3027 0.24298 1 + 11243 16710 7079 7099 13200 13200 0.2004151247253958 IPLLVKILKLI 11 Unmodified _IPLLVKILKLI_ 0 0 0 ENSG00000198700|ENST00000361565|IPO9 ENSG00000198700|ENST00000361565|IPO9 ENSG00000198700|ENST00000361565|IPO9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 631.8793334960938 2 631.962335 1261.91012 NaN NaN NaN NaN NaN NaN NaN 77.924 1 77.924 77.424 78.424 0 0 0 0 1.008 1 38241 38241 0.35063 0 1 11244 5917 7080 7100 13201 13201 0.28963769917777427 IPLMKEML 8 Unmodified _IPLMKEML_ 0 0 0 nc|ENSG00000146833|Q9C037-3|TRIM4;ENSG00000146833|ENST00000349062|TRIM4;nc|ENSG00000146833|Q9C037|TRIM4 nc|ENSG00000146833|Q9C037-3|TRIM4 nc|ENSG00000146833|Q9C037-3|TRIM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.7755126953125 2 487.774299 973.534046 NaN NaN NaN NaN NaN NaN NaN 64.186 1 64.434 63.934 64.934 0.24803 0 0 0 0.23905 1 29397 29397 39.957 3.9131 1 11245 3530 7081 7101 13202 13202 0.04622014472943192 IPLMRDRAL 9 Unmodified _IPLMRDRAL_ 0 0 0 nc|ENSG00000156030|Q6PJG2|MIDEAS;ENSG00000156030|ENST00000423556|MIDEAS nc|ENSG00000156030|Q6PJG2|MIDEAS nc|ENSG00000156030|Q6PJG2|MIDEAS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.2160339355469 3 362.214704 1083.62228 2.5374 0.0009191 1.4138 0.0005121 3.9513 0.0014312 362.21565900672607 39.183 0.46359 39.447 39.218 39.681 0.26408 28 18 3 0 0 0 0.063575 1 17839 17839 32.037 10.501 1 554500 11246 3893 7082 7102 13203 13203 0.08381771107769964 IPLMRDRAL 9 Unmodified _IPLMRDRAL_ 0 0 0 nc|ENSG00000156030|Q6PJG2|MIDEAS;ENSG00000156030|ENST00000423556|MIDEAS nc|ENSG00000156030|Q6PJG2|MIDEAS nc|ENSG00000156030|Q6PJG2|MIDEAS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 362.214704 1083.62228 2.524 0.00091424 2.1937 0.00079457 4.7177 0.0017088 362.21595295038685 38.787 0.77205 39.425 38.845 39.617 0.63778 -0.011061 0.00050763 NaN 32.037 36 29 2 NaN NaN NaN NaN 0 NaN NaN 0 621010 11247 3893 7082 7102 0.08381771107769964 IPLRSSWVM 9 Unmodified _IPLRSSWVM_ 0 0 0 nc|ENSG00000111664|P16520-2|GNB3;nc|ENSG00000078369|P62873-2|GNB1;ENSG00000172354|ENST00000303210|GNB2;ENSG00000111664|ENST00000229264|GNB3;ENSG00000078369|ENST00000378609|GNB1;ENSG00000114450|ENST00000232564|GNB4 nc|ENSG00000111664|P16520-2|GNB3 nc|ENSG00000111664|P16520-2|GNB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.8019409179688 2 544.799694 1087.58484 NaN NaN NaN NaN NaN NaN NaN 60.922 1 61.177 60.677 61.677 0.25578 0 0 0 0.31736 1 27900 27900 26.268 3.1197 1 11248 877 7083 7103 13204 13204 0.04454679842137921 IPLTTSRGNL 10 Unmodified _IPLTTSRGNL_ 0 0 0 nc|ENSG00000163754|P46976-3|GYG1 nc|ENSG00000163754|P46976-3|GYG1 nc|ENSG00000163754|P46976-3|GYG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.3141479492188 2 536.31148 1070.60841 3.6061 0.001934 -0.081461 -4.3689E-05 3.5247 0.0018903 536.3115034724193 93.983 0.27517 94.243 94.079 94.354 0.25974 25 14 2 0 0 0 0.89464 1 43169 43169 3.9444 1.6417 1 329610 11249 9718 7084 7104 13205 13205 0.07592816880332975 IPLVRKRRFQL 11 Unmodified _IPLVRKRRFQL_ 0 0 0 nc|ENSG00000136206|Q8NFV5|SPDYE1;ENSG00000136206|ENST00000693451|SPDYE1;ENSG00000230358|ENST00000424157|SPDYE21 nc|ENSG00000136206|Q8NFV5|SPDYE1 nc|ENSG00000136206|Q8NFV5|SPDYE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 713.7195434570312 2 713.461887 1424.90922 NaN NaN NaN NaN NaN NaN NaN 77.467 1 77.467 76.967 77.967 0 0 0 0 1.008 1 37997 37997 0.35063 0.043601 1 11250 2932 7085 7105 13206 13206 0.21376368321443806 IPLYIDDTL 9 Unmodified _IPLYIDDTL_ 0 0 0 GGNBP2|p.K578Nfs*47|1|0.1|ENSG00000278311|chr17:36587088-36587094|AAGATAC/-|frameshift_variant;ENSG00000278311|ENST00000613102|GGNBP2;nc|ENSG00000278311|Q9H3C7-2|GGNBP2;nc|ENSG00000278311|Q9H3C7-3|GGNBP2 GGNBP2|p.K578Nfs*47|1|0.1|ENSG00000278311|chr17:36587088-36587094|AAGATAC/-|frameshift_variant GGNBP2|p.K578Nfs*47|1|0.1|ENSG00000278311|chr17:36587088-36587094|AAGATAC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.7930297851562 2 531.789515 1061.56448 2.9651 0.0015768 1.4218 0.00075607 4.3868 0.0023329 531.789978204197 81.76 0.33705 82.008 81.809 82.146 0.24802 28 17 2 0 0 0 0.023627 1 37612 37612 63.563 25.412 1 1061400 11251 6359 7086 7106 13207 13207 0.03615787663306946 IPLYIDDTL 9 Unmodified _IPLYIDDTL_ 0 0 0 GGNBP2|p.K578Nfs*47|1|0.1|ENSG00000278311|chr17:36587088-36587094|AAGATAC/-|frameshift_variant;ENSG00000278311|ENST00000613102|GGNBP2;nc|ENSG00000278311|Q9H3C7-2|GGNBP2;nc|ENSG00000278311|Q9H3C7-3|GGNBP2 GGNBP2|p.K578Nfs*47|1|0.1|ENSG00000278311|chr17:36587088-36587094|AAGATAC/-|frameshift_variant GGNBP2|p.K578Nfs*47|1|0.1|ENSG00000278311|chr17:36587088-36587094|AAGATAC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.791259765625 2 531.789515 1061.56448 3.3415 0.001777 0.92922 0.00049415 4.2707 0.0022711 531.789711450953 81.106 0.35891 81.766 81.57 81.929 0.65998 27 17 2 0 0 0 0.035095 1 37383 37383 53.576 23.351 1 735150 11252 6359 7086 7106 13208 13208 0.03615787663306946 IPMDPEHVEL 10 Unmodified _IPMDPEHVEL_ 0 0 0 ENSG00000124733|ENST00000244711|MEA1 ENSG00000124733|ENST00000244711|MEA1 ENSG00000124733|ENST00000244711|MEA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.2907104492188 2 590.289356 1178.56416 3.2855 0.0019394 -0.036117 -2.132E-05 3.2494 0.0019181 590.2892715047105 59.645 0.28262 59.645 59.525 59.808 0 38 24 2 0 0 0 0.019545 2 27592 27592;27638 75.761 55.346 1 1648500 11253 2374 7087 7107 13209;13210 13209 -0.01797955328174794 IPMDPEHVEL 10 Unmodified _IPMDPEHVEL_ 0 0 0 ENSG00000124733|ENST00000244711|MEA1 ENSG00000124733|ENST00000244711|MEA1 ENSG00000124733|ENST00000244711|MEA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 590.2911376953125 2 590.289356 1178.56416 3.6065 0.0021289 -0.067732 -3.9981E-05 3.5387 0.0020889 590.2887989581612 59.353 0.35728 59.612 59.393 59.75 0.2593 35 14 3 0 0 0 0.0019801 2 27178 27124;27178 99.755 68.487 1 1473600 11254 2374 7087 7107 13211;13212 13212 -0.01797955328174794 IPMDPEHVEL 10 Unmodified _IPMDPEHVEL_ 0 0 0 ENSG00000124733|ENST00000244711|MEA1 ENSG00000124733|ENST00000244711|MEA1 ENSG00000124733|ENST00000244711|MEA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.2913818359375 2 590.289356 1178.56416 3.7295 0.0022015 0.50473 0.00029793 4.2342 0.0024994 590.2896905861656 58.66 0.41444 59.327 59.153 59.568 0.66703 41 15 3 0 0 0 0.0019801 3 26883 26826;26883;26939 99.755 68.487 1 1801100 11255 2374 7087 7107 13213;13214;13215 13214 -0.01797955328174794 IPMPDFDL 8 Oxidation (M) _IPM(Oxidation (M))PDFDL_ IPM(1)PDFDL IPM(78)PDFDL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 963.4496459960938 1 963.449196 962.44192 3.0274 0.0029168 -0.86311 -0.00083156 2.1643 0.0020852 963.4482934190335 74.521 0.14745 74.521 74.407 74.555 0 16 11 2 0 0 0 0.029979 1 36370 36370 77.984 18.189 1 2379900 11256 2385 7088 7108 13216 13216 24 -0.04080372339740279 IPMPDFDL 8 Oxidation (M) _IPM(Oxidation (M))PDFDL_ IPM(1)PDFDL IPM(40)PDFDL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.228515625 2 482.228236 962.44192 2.6258 0.0012662 -0.4354 -0.00020996 2.1904 0.0010563 482.22822760828075 73.686 0.29902 74.385 74.191 74.49 0.69881 56 26 3 0 0 0 0.23254 2 35501 35501;35549 40.449 10.224 1 2280500 11257 2385 7088 7108 13217;13218 13217 24 -0.04080372339740279 IPMPDFDL 8 Oxidation (M) _IPM(Oxidation (M))PDFDL_ IPM(1)PDFDL IPM(67)PDFDL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 963.451416015625 1 963.449196 962.44192 3.1013 0.002988 -0.17515 -0.00016875 2.9262 0.0028192 963.4489137601743 73.726 0.23509 74.413 74.195 74.43 0.68662 34 20 2 0 0 0 0.045071 2 35505 35505;35563 67.344 33.157 1 2212700 11258 2385 7088 7108 13219;13220 13219 24 -0.04080372339740279 IPMPDFDL 8 Oxidation (M) _IPM(Oxidation (M))PDFDL_ IPM(1)PDFDL IPM(74)PDFDL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 963.451416015625 1 963.449196 962.44192 3.3564 0.0032338 -0.56273 -0.00054216 2.7937 0.0026916 963.4486562981518 74.2 0.3148 74.458 74.298 74.613 0.25876 78 37 3 0 0 0 0.033633 3 34107 34061;34107;34159 74.423 31.455 1 2530200 11259 2385 7088 7108 13221;13222;13223 13222 24 -0.04080372339740279 IPMPDFDL 8 Oxidation (M) _IPM(Oxidation (M))PDFDL_ IPM(1)PDFDL IPM(40)PDFDL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.2293701171875 2 482.228236 962.44192 2.7666 0.0013341 -0.15159 -7.3099E-05 2.615 0.001261 482.22825260625393 74.184 0.36147 74.443 74.27 74.632 0.25876 93 44 3 0 0 0 0.23254 2 34094 34094;34154 40.449 10.224 1 1914200 11260 2385 7088 7108 13224;13225 13224 24 -0.04080372339740279 IPMPDFDL 8 Oxidation (M) _IPM(Oxidation (M))PDFDL_ IPM(1)PDFDL IPM(85)PDFDL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 963.452880859375 1 963.449196 962.44192 3.2599 0.0031407 -0.20085 -0.00019351 3.059 0.0029472 963.4489547776204 73.719 0.2691 74.384 74.227 74.496 0.6644 54 32 2 0 0 0 0.022274 2 33894 33840;33894 85.357 42.389 1 2684000 11261 2385 7088 7108 13226;13227 13227 24 -0.04080372339740279 IPMPDFDL 8 Oxidation (M) _IPM(Oxidation (M))PDFDL_ IPM(1)PDFDL IPM(40)PDFDL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.2302551269531 2 482.228236 962.44192 2.6243 0.0012655 -0.33827 -0.00016313 2.286 0.0011024 482.22787869214903 73.676 0.25665 74.34 74.208 74.464 0.6644 60 30 3 0 0 0 0.23254 1 33895 33895 40.449 10.224 1 2228400 11262 2385 7088 7108 13228 13228 24 -0.04080372339740279 IPMPDFDL 8 Unmodified _IPMPDFDL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.23236083984375 2 474.230779 946.447005 2.0422 0.00096846 -0.35108 -0.00016649 1.6911 0.00080197 474.2305261362447 87.381 0.1884 87.421 87.267 87.455 0.039955 34 27 2 0 0 0 0.13778 1 44185 44185 49.669 11.518 1 5497900 11263 2385 7088 7109 13229 13229 -0.02836068477131448 IPMPDFDL 8 Unmodified _IPMPDFDL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 947.4591064453125 1 947.454281 946.447005 3.9606 0.0037525 0.28847 0.00027331 4.2491 0.0040258 947.4544203510352 87.734 0.48749 87.985 87.741 88.228 0.25065 44 18 3 0 0 0 0.00041985 3 40395 40341;40395;40455 137.59 90.664 1 6478000 11264 2385 7088 7109 13230;13231;13232 13231 -0.02836068477131448 IPMPDFDL 8 Unmodified _IPMPDFDL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.2320861816406 2 474.230779 946.447005 3.2197 0.0015269 -0.15626 -7.4104E-05 3.0634 0.0014528 474.23072650381187 87.747 0.42499 87.997 87.774 88.199 0.25065 44 16 3 0 0 0 0.037283 2 40396 40342;40396 70.865 23.944 1 5369500 11265 2385 7088 7109 13233;13234 13234 -0.02836068477131448 IPMPDFDL 8 Unmodified _IPMPDFDL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.2325439453125 2 474.230779 946.447005 3.192 0.0015137 -0.22555 -0.00010696 2.9664 0.0014068 474.23076153434397 87.219 0.36857 87.895 87.733 88.102 0.67555 42 16 3 0 0 0 0.13778 3 40191 40142;40191;40239 49.669 11.518 1 3588700 11266 2385 7088 7109 13235;13236;13237 13236 -0.02836068477131448 IPMPDFDL 8 Unmodified _IPMPDFDL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 947.4586791992188 1 947.454281 946.447005 3.9847 0.0037753 -0.979 -0.00092755 3.0057 0.0028478 947.4544676165144 87.191 0.43062 87.867 87.713 88.143 0.67555 49 19 4 0 0 0 0.0081859 3 40159 40159;40212;40264 123.1 80.128 1 7236900 11267 2385 7088 7109 13238;13239;13240 13238 -0.02836068477131448 IPNEIIHAL 9 Unmodified _IPNEIIHAL_ 0 0 0 ENSG00000099783|ENST00000325495|HNRNPM ENSG00000099783|ENST00000325495|HNRNPM ENSG00000099783|ENST00000325495|HNRNPM MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.27484130859375 2 510.297842 1018.58113 3.3496 0.0017093 0.92609 0.00047258 4.2757 0.0021819 510.29833437443426 59.344 0.27919 60.009 59.892 60.171 0.66503 20 11 2 0 0 0 0.0047757 1 27148 27148 46.021 0 1 1128100 11268 1148 7089 7110 13241 13241 0.07258333339939327 IPNERTMQL 9 Unmodified _IPNERTMQL_ 0 0 0 nc|ENSG00000223501|Q8N1B4-2|VPS52;ENSG00000223501|ENST00000445902|VPS52;ENST00000471309.1_1_6:33231312-33232261:-|nuORF nc|ENSG00000223501|Q8N1B4-2|VPS52 nc|ENSG00000223501|Q8N1B4-2|VPS52 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.7926635742188 2 551.289691 1100.56483 3.6944 0.0020367 -0.064363 -3.5483E-05 3.63 0.0020012 551.2898861615868 39.568 0.34605 40.206 40.078 40.424 0.63778 27 16 3 0 0 0 0.02812 2 18107 18085;18107 57.722 12.022 1 1086500 11269 6160 7090 7111 13242;13243 13243 0.018568841115438772 IPNERTMQL 9 Unmodified _IPNERTMQL_ 0 0 0 nc|ENSG00000223501|Q8N1B4-2|VPS52;ENSG00000223501|ENST00000445902|VPS52;ENST00000471309.1_1_6:33231312-33232261:-|nuORF nc|ENSG00000223501|Q8N1B4-2|VPS52 nc|ENSG00000223501|Q8N1B4-2|VPS52 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 551.289691 1100.56483 3.6324 0.0020025 -0.86075 -0.00047452 2.7717 0.001528 551.2890219989512 40.166 0.26958 40.166 40.013 40.282 0 0.021471 -0.0011021 NaN 57.722 14 9 2 NaN NaN NaN NaN 0 NaN NaN 0 436900 11270 6160 7090 7111 0.018568841115438772 IPNERTMQL 9 Unmodified _IPNERTMQL_ 0 0 0 nc|ENSG00000223501|Q8N1B4-2|VPS52;ENSG00000223501|ENST00000445902|VPS52;ENST00000471309.1_1_6:33231312-33232261:-|nuORF nc|ENSG00000223501|Q8N1B4-2|VPS52 nc|ENSG00000223501|Q8N1B4-2|VPS52 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 551.289691 1100.56483 3.2732 0.0018045 1.1238 0.00061952 4.3969 0.002424 551.2899024380542 39.074 0.29776 39.872 39.721 40.018 0.79762 -0.27318 0.001086 NaN 57.722 25 14 2 NaN NaN NaN NaN 0 NaN NaN 0 200610 11271 6160 7090 7111 0.018568841115438772 IPNIKKVAWP 10 Unmodified _IPNIKKVAWP_ 0 0 0 REV__ENSG00000168078|ENST00000301905|PBK REV__ENSG00000168078|ENST00000301905|PBK MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.2551574707031 3 389.241248 1164.70191 2.7063 0.0010534 0.89496 0.00034836 3.6013 0.0014018 389.24150120697146 39.823 0.12374 39.823 39.752 39.875 0 8 5 2 0 0 0 0.12676 1 18047 18047 1.7423 0.14999 1 228890 + 11272 13330 7091 7112 13244 13244 0.1261516105339524 IPNIKKVAWP 10 Unmodified _IPNIKKVAWP_ 0 0 0 REV__ENSG00000168078|ENST00000301905|PBK REV__ENSG00000168078|ENST00000301905|PBK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 389.241248 1164.70191 2.5587 0.00099595 0.84161 0.00032759 3.4003 0.0013235 389.57572173129125 39.322 0.11897 40.12 40.056 40.175 0.79762 0.27265 0.0001646 NaN 1.7423 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 114340 + 11273 13330 7091 7112 0.1261516105339524 IPNIKKVAWP 10 Unmodified _IPNIKKVAWP_ 0 0 0 REV__ENSG00000168078|ENST00000301905|PBK REV__ENSG00000168078|ENST00000301905|PBK MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 389.241248 1164.70191 2.8564 0.0011118 0.86012 0.00033479 3.7165 0.0014466 389.24162971221654 39.419 0.35872 39.686 39.409 39.767 0.26696 -0.16119 0.00018621 NaN 1.7423 19 13 2 NaN NaN NaN NaN 0 NaN NaN 0 254220 + 11274 13330 7091 7112 0.1261516105339524 IPNIKKVAWP 10 Unmodified _IPNIKKVAWP_ 0 0 0 REV__ENSG00000168078|ENST00000301905|PBK REV__ENSG00000168078|ENST00000301905|PBK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 389.241248 1164.70191 2.8807 0.0011213 0.073459 2.8593E-05 2.9541 0.0011499 389.5756755444185 39.122 0.11846 39.76 39.712 39.831 0.63778 -0.087186 -0.00073239 NaN 1.7423 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 258250 + 11275 13330 7091 7112 0.1261516105339524 IPNPQERTL 9 Unmodified _IPNPQERTL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;HSP90AB1|p.R449Pfs*5|1|0.33|ENSG00000096384|chr6:44251765-44251766|-/C|frameshift_variant;HSP90AB1|p.I483Hfs*7|1|0.32|ENSG00000096384|chr6:44251866-44251867|-/C|frameshift_variant;nc|ENSG00000183199|Q58FF7|HSP90AB3P ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000183199|Q58FF7|HSP90AB3P ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.2966918945312 2 534.29583 1066.57711 3.247 0.0017348 0.25001 0.00013358 3.497 0.0018684 534.2962057942312 31.209 0.3134 31.209 31.076 31.389 0 45 28 2 0 0 0 0.21127 1 14090 14090 22.658 7.4096 1 556530 11276 1127;9778 7092 7113 13245 13245 0.04648243846236255 IPNPQERTL 9 Unmodified _IPNPQERTL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;HSP90AB1|p.R449Pfs*5|1|0.33|ENSG00000096384|chr6:44251765-44251766|-/C|frameshift_variant;HSP90AB1|p.I483Hfs*7|1|0.32|ENSG00000096384|chr6:44251866-44251867|-/C|frameshift_variant;nc|ENSG00000183199|Q58FF7|HSP90AB3P ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000183199|Q58FF7|HSP90AB3P ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 534.29583 1066.57711 3.4984 0.0018692 0.57696 0.00030827 4.0753 0.0021774 534.2959344645125 30.97 0.14695 31.226 31.162 31.309 0.25614 0.01487 0.00014903 NaN 22.658 21 14 2 NaN NaN NaN NaN 0 NaN NaN 0 284380 11277 1127;9778 7092 7113 0.04648243846236255 IPNPQERTL 9 Unmodified _IPNPQERTL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;HSP90AB1|p.R449Pfs*5|1|0.33|ENSG00000096384|chr6:44251765-44251766|-/C|frameshift_variant;HSP90AB1|p.I483Hfs*7|1|0.32|ENSG00000096384|chr6:44251866-44251867|-/C|frameshift_variant;nc|ENSG00000183199|Q58FF7|HSP90AB3P ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000183199|Q58FF7|HSP90AB3P ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 534.29583 1066.57711 3.2474 0.0017351 0.37256 0.00019906 3.62 0.0019342 534.295902131611 30.582 0.30091 31.199 31.07 31.371 0.61736 -0.012359 -6.94E-05 NaN 22.658 36 20 2 NaN NaN NaN NaN 0 NaN NaN 0 353610 11278 1127;9778 7092 7113 0.04648243846236255 IPNPQERTLTL 11 Unmodified _IPNPQERTLTL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;HSP90AB1|p.R449Pfs*5|1|0.33|ENSG00000096384|chr6:44251765-44251766|-/C|frameshift_variant;HSP90AB1|p.I483Hfs*7|1|0.32|ENSG00000096384|chr6:44251866-44251867|-/C|frameshift_variant ENSG00000096384|ENST00000371646|HSP90AB1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.3637084960938 2 641.361702 1280.70885 3.6773 0.0023585 0.09007 5.7768E-05 3.7674 0.0024163 641.361561597985 49.853 0.388 49.853 49.703 50.091 0 37 18 3 0 0 0 0.0011687 2 22833 22833;22886 79.427 37.471 1 960380 11279 1127 7093 7114 13246;13247 13246 0.0797242914331946 IPNPQERTLTL 11 Unmodified _IPNPQERTLTL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;HSP90AB1|p.R449Pfs*5|1|0.33|ENSG00000096384|chr6:44251765-44251766|-/C|frameshift_variant;HSP90AB1|p.I483Hfs*7|1|0.32|ENSG00000096384|chr6:44251866-44251867|-/C|frameshift_variant ENSG00000096384|ENST00000371646|HSP90AB1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.3644409179688 2 641.361702 1280.70885 3.6338 0.0023306 -0.35893 -0.00023021 3.2749 0.0021004 641.3618774263598 48.947 0.37709 49.774 49.559 49.936 0.82705 46 20 3 0 0 0 0.002472 3 22301 22249;22301;22355 74.772 29.032 1 554440 11280 1127 7093 7114 13248;13249;13250 13249 0.0797242914331946 IPNPQERTLTL 11 Unmodified _IPNPQERTLTL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;HSP90AB1|p.R449Pfs*5|1|0.33|ENSG00000096384|chr6:44251765-44251766|-/C|frameshift_variant;HSP90AB1|p.I483Hfs*7|1|0.32|ENSG00000096384|chr6:44251866-44251867|-/C|frameshift_variant ENSG00000096384|ENST00000371646|HSP90AB1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.3638305664062 2 641.361702 1280.70885 3.7952 0.0024341 0.48632 0.00031191 4.2815 0.002746 641.361929543206 49.66 0.38079 49.921 49.727 50.108 0.26146 39 15 3 0 0 0 9.1496E-05 2 22717 22661;22717 89.609 47.653 1 859380 11281 1127 7093 7114 13251;13252 13252 0.0797242914331946 IPNPQERTLTL 11 Unmodified _IPNPQERTLTL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;HSP90AB1|p.R449Pfs*5|1|0.33|ENSG00000096384|chr6:44251765-44251766|-/C|frameshift_variant;HSP90AB1|p.I483Hfs*7|1|0.32|ENSG00000096384|chr6:44251866-44251867|-/C|frameshift_variant ENSG00000096384|ENST00000371646|HSP90AB1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.3640747070312 2 641.361702 1280.70885 4.0131 0.0025738 0.33294 0.00021354 4.346 0.0027874 641.3616992483974 49.125 0.37491 49.78 49.635 50.01 0.65524 26 12 3 0 0 0 3.1377E-06 2 22476 22476;22536 97.741 40.019 1 1226400 11282 1127 7093 7114 13253;13254 13253 0.0797242914331946 IPNRDDPGKV 10 Unmodified _IPNRDDPGKV_ 0 0 0 REV__ENST00000587153.1_1_18:21083537-21084412:+|nuORF REV__ENST00000587153.1_1_18:21083537-21084412:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.7990112304688 2 555.798737 1109.58292 NaN NaN NaN NaN NaN NaN NaN 63.39 1 63.638 63.138 64.138 0.24803 0 0 0 0.91283 1 29031 29031 19.257 0 1 + 11283 12290 7094 7115 13255 13255 0.03251342357907561 IPPCKVKETP 10 Unmodified _IPPCKVKETP_ 0 0 0 REV__ENSG00000106624|ENST00000223357|AEBP1 REV__ENSG00000106624|ENST00000223357|AEBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.3135375976562 2 556.312635 1110.61072 NaN NaN NaN NaN NaN NaN NaN 100.04 1 100.04 99.538 100.54 0 0 0 0 0.97102 1 55138 55138 10.074 1.4806 1 + 11284 11090 7095 7116 13256 13256 0.05983529293780521 IPPCLAAGKF 10 Unmodified _IPPCLAAGKF_ 0 0 0 ENST00000488800.5_1_14:23292267-23292577:-|nuORF;ENST00000554741.5_1_14:23290626-23292577:-|nuORF;ENST00000553351.1_1_14:23292469-23292577:-|nuORF ENST00000488800.5_1_14:23292267-23292577:-|nuORF ENST00000488800.5_1_14:23292267-23292577:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.1908264160156 3 339.524767 1015.55247 2.4131 0.00081932 -0.095003 -3.2256E-05 2.3181 0.00078706 339.5248482235198 15.031 0.21299 15.684 15.555 15.768 0.65356 20 18 2 0 0 0 0.12676 1 6773 6773 0.77653 0.77653 1 68555 11285 8372 7096 7117 13257 13257 0.04531892439160856 IPPDGEFEL 9 Unmodified _IPPDGEFEL_ 0 0 0 ENSG00000072958|ENST00000291439|AP1M1;nc|ENSG00000072958|Q9BXS5-2|AP1M1;ENST00000480260.1_1_3:183899436-183900037:+|nuORF;ENST00000461733.5_1_3:183898306-183901401:+|nuORF;nc|ENSG00000161203|Q96CW1-2|AP2M1;ENSG00000161203|ENST00000292807|AP2M1 ENSG00000072958|ENST00000291439|AP1M1 ENSG00000072958|ENST00000291439|AP1M1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.7514953613281 2 508.75039 1015.48623 NaN NaN NaN NaN NaN NaN NaN 70.545 1 71.207 70.707 71.707 0.66209 0 0 0 0.72654 1 32335 32335 11.64 0 1 11286 800 7097 7118 13258 13258 -0.020896449218980706 IPPERPEMLP 10 Unmodified _IPPERPEMLP_ 0 0 0 nc|ENSG00000147010|Q96B97-3|SH3KBP1;nc|ENSG00000147010|Q96B97-2|SH3KBP1;ENSG00000147010|ENST00000397821|SH3KBP1 nc|ENSG00000147010|Q96B97-3|SH3KBP1 nc|ENSG00000147010|Q96B97-3|SH3KBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.8173828125 2 589.815541 1177.61653 3.7522 0.0022131 -0.12044 -7.1039E-05 3.6317 0.0021421 589.8156155335845 36.741 0.80722 37.371 37.014 37.821 0.62999 129 33 5 0 0 0 0.48906 1 16968 16968 21.537 4.4241 1 5181900 11287 3540 7098 7119 13259 13259 0.03482627805442462 IPPMLIIF 8 Unmodified _IPPMLIIF_ 0 0 0 ENSG00000179055|ENST00000641530|OR13D1;nc|ENSG00000179055|Q8NGV5|OR13D1 ENSG00000179055|ENST00000641530|OR13D1 ENSG00000179055|ENST00000641530|OR13D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.2901306152344 2 472.2879 942.561247 3.3695 0.0015914 0.65169 0.00030779 4.0212 0.0018992 472.28831019479253 90.943 0.82042 91.195 90.913 91.734 0.25163 135 39 5 0 0 0 0.7471 1 41886 41886 0 0 1 68593000 11288 5194 7099 7120 13260 13260 0.08766866075654889 IPPMLIIF 8 Unmodified _IPPMLIIF_ 0 0 0 ENSG00000179055|ENST00000641530|OR13D1;nc|ENSG00000179055|Q8NGV5|OR13D1 ENSG00000179055|ENST00000641530|OR13D1 ENSG00000179055|ENST00000641530|OR13D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.29022216796875 2 472.2879 942.561247 3.1614 0.0014931 0.73812 0.00034861 3.8995 0.0018417 472.2883788229537 90.557 0.61958 91.229 90.957 91.577 0.67271 109 32 5 0 0 0 0.7471 1 41720 41720 0 0 1 78875000 11289 5194 7099 7120 13261 13261 0.08766866075654889 IPPRARTDL 9 Unmodified _IPPRARTDL_ 0 0 0 REV__ENST00000558012.5_1_15:77287640-77287724:+|nuORF REV__ENST00000558012.5_1_15:77287640-77287724:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 346.8740539550781 3 346.873336 1037.59818 2.4427 0.00084731 -0.57092 -0.00019804 1.8718 0.00064928 346.8732000217218 29.055 0.30289 29.845 29.672 29.975 0.78921 36 22 2 0 0 0 0.98958 1 13129 13129 4.1895 0.59301 1 229690 + 11290 17340 7100 7121 13262 13262 0.08088253945743418 IPPRPHQKLR 10 Unmodified _IPPRPHQKLR_ 0 0 0 REV__ENST00000568126.5_1_16:19775348-19800271:+|nuORF REV__ENST00000568126.5_1_16:19775348-19800271:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.3890380859375 2 621.383106 1240.75166 NaN NaN NaN NaN NaN NaN NaN 60.001 1 60.751 60.251 61.251 0.74927 0 0 0 0.99225 1 27596 27596 6.7232 0.99131 1 + 11291 13639 7101 7122 13263 13263 0.14091288782060474 IPPVLLLPLL 10 Unmodified _IPPVLLLPLL_ 0 0 0 ENST00000557796.6_1_15:37391241-37391490:-|nuORF ENST00000557796.6_1_15:37391241-37391490:-|nuORF ENST00000557796.6_1_15:37391241-37391490:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.3800048828125 2 544.378103 1086.74165 NaN NaN NaN NaN NaN NaN NaN 71.891 1 72.595 72.095 73.095 0.70386 0 0 0 1.0018 1 34561 34561 0.45834 0 1 11292 8944 7102 7123 13264 13264 0.20175288004156755 IPQESTAIL 9 Unmodified _IPQESTAIL_ 0 0 0 REV__ENSG00000031698|ENST00000234677|SARS1 REV__ENSG00000031698|ENST00000234677|SARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.27581787109375 2 486.274032 970.533512 3.2204 0.001566 0.5588 0.00027173 3.7792 0.0018377 486.274180997078 42.42 0.36695 42.691 42.524 42.891 0.27021 38 17 3 0 0 0 0.02631 1 19312 19312 60.074 5.3004 1 1281100 + 11293 10291 7103 7124 13265 13265 0.0470663434908829 IPQLGKYAE 9 Unmodified _IPQLGKYAE_ 0 0 0 nc|ENSG00000173064|Q9Y4D8-4|HECTD4;nc|ENSG00000173064|Q9Y4D8|HECTD4;ENSG00000173064|ENST00000682272|HECTD4;ENST00000547519.1_1_12:112666581-112668655:-|nuORF;nc|ENSG00000173064|Q9Y4D8-2|HECTD4 nc|ENSG00000173064|Q9Y4D8-4|HECTD4 nc|ENSG00000173064|Q9Y4D8-4|HECTD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.7832946777344 2 509.782025 1017.5495 NaN NaN NaN NaN NaN NaN NaN 30.241 1 30.859 30.359 31.359 0.61737 0 0 0 0.81563 1 13873 13873 8.7454 0.58988 1 11294 4913 7104 7125 13266 13266 0.04142340585997317 IPQMRKKKIIE 11 Unmodified _IPQMRKKKIIE_ 0 0 0 ENST00000546882.5_1_12:106977081-107055965:+|nuORF ENST00000546882.5_1_12:106977081-107055965:+|nuORF ENST00000546882.5_1_12:106977081-107055965:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 692.4296264648438 2 692.428864 1382.84318 NaN NaN NaN NaN NaN NaN NaN 65.213 1 65.461 64.961 65.961 0.24803 0 0 0 1.0057 1 29876 29876 3.2813 1.6287 1 11295 8848 7105 7126 13267 13267 0.16706791364390483 IPQWRWLQLTV 11 Unmodified _IPQWRWLQLTV_ 0 0 0 nc|ENSG00000149452|Q8TCC7-5|SLC22A8;SLC22A8|p.M346Yfs*90|1|0.34|ENSG00000149452|chr11:62994722-62994723|-/A|frameshift_variant;nc|ENSG00000149452|Q8TCC7-4|SLC22A8;ENSG00000149452|ENST00000336232|SLC22A8;nc|ENSG00000149452|Q8TCC7-2|SLC22A8 nc|ENSG00000149452|Q8TCC7-5|SLC22A8 nc|ENSG00000149452|Q8TCC7-5|SLC22A8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 720.4129028320312 2 720.411529 1438.8085 NaN NaN NaN NaN NaN NaN NaN 67.829 1 67.829 67.329 68.329 0 0 0 0 1.0072 1 32592 32592 1.3295 0.13619 1 11296 3644 7106 7127 13268 13268 0.10665291547911693 IPQWYLWRKRK 11 Unmodified _IPQWYLWRKRK_ 0 0 0 REV__ENSG00000175354|ENST00000309660|PTPN2 REV__ENSG00000175354|ENST00000309660|PTPN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.3118286132812 3 525.308655 1572.90414 4.1773 0.0021944 2.0045 0.001053 6.1818 0.0032473 525.3095959052356 106.27 0.12041 106.59 106.52 106.64 0.31628 9 3 3 0 0 0 0.91391 1 49065 49065 0.08335 0 1 581550 + 11297 13670 7107 7128 13269 13269 0.14060064458772104 IPQWYLWRKRK 11 Unmodified _IPQWYLWRKRK_ 0 0 0 REV__ENSG00000175354|ENST00000309660|PTPN2 REV__ENSG00000175354|ENST00000309660|PTPN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.3108520507812 3 525.308655 1572.90414 3.5169 0.0018474 1.7817 0.00093594 5.2985 0.0027834 525.30921560102 106.26 0.13555 106.86 106.78 106.91 0.60074 11 4 3 0 0 0 0.91391 1 49078 49078 0.08335 0.08335 1 477550 + 11298 13670 7107 7128 13270 13270 0.14060064458772104 IPQYLDKDL 9 Unmodified _IPQYLDKDL_ 0 0 0 ENSG00000108602|ENST00000225740|ALDH3A1;ENST00000479677.6_1_17:19641536-19646703:-|nuORF ENSG00000108602|ENST00000225740|ALDH3A1 ENSG00000108602|ENST00000225740|ALDH3A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.3057250976562 2 552.800414 1103.58628 3.7582 0.0020775 0.2332 0.00012891 3.9914 0.0022064 552.8006348350323 47.275 0.22596 47.539 47.441 47.667 0.26363 14 9 2 0 0 0 0.24465 1 21597 21597 20.454 1.0146 1 289590 11299 1639 7108 7129 13271 13271 0.03862592411906007 IPRKKKRKKT 10 Unmodified _IPRKKKRKKT_ 0 0 0 ENST00000316059.6_1_11:58352348-58378460:+|nuORF ENST00000316059.6_1_11:58352348-58378460:+|nuORF ENST00000316059.6_1_11:58352348-58378460:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 642.2703247070312 2 641.943331 1281.87211 NaN NaN NaN NaN NaN NaN NaN 80.877 1 81.045 80.545 81.545 0.16862 0 0 0 1.0015 1 39676 39676 0.45834 0.057624 1 11300 6901 7109 7130 13272 13272 0.24244696775667762 IPRKRERVLHQ 11 Unmodified _IPRKRERVLHQ_ 0 0 0 L1PBa_dup1914|chr16:20454552-20458311:+|1.873729371871474|0.2397336971051269|2.97|524.0|72|3|sense L1PBa_dup1914|chr16:20454552-20458311:+|1.873729371871474|0.2397336971051269|2.97|524.0|72|3|sense L1PBa_dup1914|chr16:20454552-20458311:+|1.873729371871474|0.2397336971051269|2.97|524.0|72|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 716.10986328125 2 716.436401 1430.85825 NaN NaN NaN NaN NaN NaN NaN 77.37 1 77.931 77.431 78.431 0.56091 0 0 0 1.0079 1 37527 37527 1.4819 0 1 11301 9486 7110 7131 13273 13273 0.16005419276598332 IPRLQKIWKNY 11 Unmodified _IPRLQKIWKNY_ 0 0 0 ENSG00000073849|ENST00000169298|ST6GAL1 ENSG00000073849|ENST00000169298|ST6GAL1 ENSG00000073849|ENST00000169298|ST6GAL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.9602355957031 3 486.957511 1457.8507 3.9527 0.0019248 1.703 0.00082927 5.6557 0.0027541 486.95863420261895 106.05 0.14253 106.36 106.27 106.41 0.31628 16 5 4 0 0 0 0.91459 1 48950 48950 0.094841 0 1 866390 11302 814 7111 7132 13274 13274 0.14009266956327338 IPRRKKKCIRY 11 Unmodified _IPRRKKKCIRY_ 0 0 0 ENST00000522653.5_1_5:133481849-133482209:+|nuORF;ENST00000378560.8_2_5:133480506-133482209:+|nuORF ENST00000522653.5_1_5:133481849-133482209:+|nuORF ENST00000522653.5_1_5:133481849-133482209:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 730.9526977539062 2 730.953372 1459.89219 NaN NaN NaN NaN NaN NaN NaN 60.317 1 60.317 59.817 60.817 0 0 0 0 1.0072 1 27980 27980 1.3295 0 1 11303 7436 7112 7133 13275 13275 0.180641244439812 IPSEDHQVL 9 Unmodified _IPSEDHQVL_ 0 0 0 ENSG00000198677|ENST00000358746|SKIC3;ENST00000515207.1_1_5:94872443-94877598:-|nuORF ENSG00000198677|ENST00000358746|SKIC3 ENSG00000198677|ENST00000358746|SKIC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.2687377929688 2 519.266739 1036.51892 3.2593 0.0016925 0.39026 0.00020265 3.6496 0.0018951 519.266993033741 32.396 0.71408 32.396 32.216 32.93 0 107 52 3 0 0 0 0.013715 2 14693 14642;14693 76.825 33.857 1 1114800 11304 5912 7113 7134 13276;13277 13277 0.002125622009543804 IPSEDHQVL 9 Unmodified _IPSEDHQVL_ 0 0 0 ENSG00000198677|ENST00000358746|SKIC3;ENST00000515207.1_1_5:94872443-94877598:-|nuORF ENSG00000198677|ENST00000358746|SKIC3 ENSG00000198677|ENST00000358746|SKIC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.2684936523438 2 519.266739 1036.51892 3.4179 0.0017748 -0.14975 -7.776E-05 3.2682 0.0016971 519.2667299759584 31.533 0.44224 32.322 32.078 32.52 0.78879 61 38 2 0 0 0 0.020338 3 14246 14202;14246;14291 67.838 31.711 1 1119200 11305 5912 7113 7134 13278;13279;13280 13279 0.002125622009543804 IPSEDHQVL 9 Unmodified _IPSEDHQVL_ 0 0 0 ENSG00000198677|ENST00000358746|SKIC3;ENST00000515207.1_1_5:94872443-94877598:-|nuORF ENSG00000198677|ENST00000358746|SKIC3 ENSG00000198677|ENST00000358746|SKIC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 519.268310546875 2 519.266739 1036.51892 3.7082 0.0019255 0.10827 5.6223E-05 3.8165 0.0019818 519.2669466803363 32.263 0.64325 32.518 32.313 32.956 0.25452 76 41 2 0 0 0 0.02631 2 14691 14691;14751 60.074 17.106 1 1415500 11306 5912 7113 7134 13281;13282 13281 0.002125622009543804 IPSEDHQVL 9 Unmodified _IPSEDHQVL_ 0 0 0 ENSG00000198677|ENST00000358746|SKIC3;ENST00000515207.1_1_5:94872443-94877598:-|nuORF ENSG00000198677|ENST00000358746|SKIC3 ENSG00000198677|ENST00000358746|SKIC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 519.268798828125 2 519.266739 1036.51892 3.3703 0.0017501 0.60111 0.00031214 3.9714 0.0020622 519.2671370397114 31.66 0.66681 32.277 32.063 32.73 0.61737 87 47 2 0 0 0 0.018453 1 14511 14511 70.332 27.364 1 1585300 11307 5912 7113 7134 13283 13283 0.002125622009543804 IPSERHGFEAA 11 Unmodified _IPSERHGFEAA_ 0 0 0 nc|ENSG00000133026|P35580|MYH10;nc|ENSG00000133026|P35580-5|MYH10;nc|ENSG00000133026|P35580-2|MYH10;nc|ENSG00000133026|P35580-3|MYH10;ENSG00000133026|ENST00000360416|MYH10;MYH10|p.T548Cfs*26|1|0.05|ENSG00000133026|chr17:8535865-8535866|-/GCTGATAAACA|frameshift_variant nc|ENSG00000133026|P35580|MYH10 nc|ENSG00000133026|P35580|MYH10 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 606.8004760742188 2 607.301644 1212.58874 3.4515 0.0020961 -2.2269 -0.0013524 1.2246 0.00074371 607.2998070694166 58.943 0.22439 58.943 58.733 58.957 0 24 17 2 0 0 0 0.13295 1 27229 27229 15.248 6.5031 1 7776700 11308 2742 7114 7135 13284 13284 -0.009055591304331756 IPSSSNKL 8 Unmodified _IPSSSNKL_ 0 0 0 REV__ENST00000585242.5_1_17:61904857-61907287:+|nuORF REV__ENST00000585242.5_1_17:61904857-61907287:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 423.2418518066406 2 423.239993 844.465432 3.1725 0.0013427 0.13623 5.7657E-05 3.3087 0.0014004 423.24009473459904 19.467 0.25519 20.125 20.031 20.286 0.65829 28 17 2 0 0 0 0.3435 1 8836 8836 32.305 0 1 465310 + 11309 17534 7115 7136 13285 13285 0.03697809489096926 IPSSSNKL 8 Unmodified _IPSSSNKL_ 0 0 0 REV__ENST00000585242.5_1_17:61904857-61907287:+|nuORF REV__ENST00000585242.5_1_17:61904857-61907287:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 423.239993 844.465432 2.9225 0.0012369 0.70503 0.00029839 3.6275 0.0015353 423.24021463663246 20.365 0.22292 20.365 20.225 20.448 0 0.11976 0.00032141 NaN 32.305 21 18 2 NaN NaN NaN NaN 0 NaN NaN 0 143250 + 11310 17534 7115 7136 0.03697809489096926 IPSSSNKL 8 Unmodified _IPSSSNKL_ 0 0 0 REV__ENST00000585242.5_1_17:61904857-61907287:+|nuORF REV__ENST00000585242.5_1_17:61904857-61907287:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 423.239993 844.465432 3.1725 0.0013427 0.13623 5.7657E-05 3.3087 0.0014004 423.24009473459904 19.467 0.25519 20.125 20.031 20.286 0.65829 -0.11976 -0.00016007 NaN 32.305 28 17 2 NaN NaN NaN NaN 0 NaN NaN 0 465310 + 11311 17534 7115 7136 0.03697809489096926 IPSTSSAVPL 10 Unmodified _IPSTSSAVPL_ 0 0 0 ENSG00000138435|ENST00000348749|CHRNA1;nc|ENSG00000138435|P02708-1|CHRNA1 ENSG00000138435|ENST00000348749|CHRNA1 ENSG00000138435|ENST00000348749|CHRNA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.2765197753906 2 486.274032 970.533512 NaN NaN NaN NaN NaN NaN NaN 41.585 1 41.855 41.355 42.355 0.27021 0 0 0 0.91986 1 18946 18946 18.146 3.3081 1 11312 3091 7116 7137 13286 13286 0.0470663434908829 IPTAASNISL 10 Unmodified _IPTAASNISL_ 0 0 0 ENSG00000064313|ENST00000378164|TAF2 ENSG00000064313|ENST00000378164|TAF2 ENSG00000064313|ENST00000378164|TAF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 493.7813415527344 2 493.779482 985.544411 3.2564 0.001608 0.013045 6.4414E-06 3.2695 0.0016144 493.77961074180973 30.972 0.35874 30.972 30.861 31.22 0 45 33 2 0 0 0 0.018808 1 14016 14016 82.529 9.5614 1 876740 11313 669 7117 7138 13287 13287 0.05106036723384477 IPTAASNISL 10 Unmodified _IPTAASNISL_ 0 0 0 ENSG00000064313|ENST00000378164|TAF2 ENSG00000064313|ENST00000378164|TAF2 ENSG00000064313|ENST00000378164|TAF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.78143310546875 2 493.779482 985.544411 3.25 0.0016048 -0.019181 -9.4711E-06 3.2308 0.0015953 493.7794197019037 30.079 0.44526 30.869 30.706 31.152 0.78921 72 41 2 0 0 0 0.1225 1 13593 13593 49.554 3.8547 1 417440 11314 669 7117 7138 13288 13288 0.05106036723384477 IPTAASNISL 10 Unmodified _IPTAASNISL_ 0 0 0 ENSG00000064313|ENST00000378164|TAF2 ENSG00000064313|ENST00000378164|TAF2 ENSG00000064313|ENST00000378164|TAF2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 493.779482 985.544411 3.63 0.0017924 -0.288 -0.00014221 3.342 0.0016502 493.7793248211344 30.781 0.46953 31.037 30.793 31.263 0.25614 0.056736 -0.00028176 NaN 82.529 77 47 2 NaN NaN NaN NaN 0 NaN NaN 0 673800 11315 669 7117 7138 0.05106036723384477 IPTEQVNEL 9 Unmodified _IPTEQVNEL_ 0 0 0 ENST00000551305.5_1_12:48358091-48359129:+|nuORF;nc|ENSG00000134291|Q9BVX2-2|TMEM106C;ENSG00000134291|ENST00000429772|TMEM106C ENST00000551305.5_1_12:48358091-48359129:+|nuORF ENST00000551305.5_1_12:48358091-48359129:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.7748413085938 2 521.774396 1041.53424 3.3221 0.0017334 0.00014595 7.6151E-08 3.3223 0.0017335 521.7739931653988 47.738 0.35399 48.567 48.407 48.761 0.82915 25 15 2 0 0 0 0.136 2 21737 21737;21792 27.629 3.2068 1 469570 11316 2797 7118 7139 13289;13290 13289 0.015134289981460824 IPTEQVNEL 9 Unmodified _IPTEQVNEL_ 0 0 0 ENST00000551305.5_1_12:48358091-48359129:+|nuORF;nc|ENSG00000134291|Q9BVX2-2|TMEM106C;ENSG00000134291|ENST00000429772|TMEM106C ENST00000551305.5_1_12:48358091-48359129:+|nuORF ENST00000551305.5_1_12:48358091-48359129:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.7757568359375 2 521.774396 1041.53424 3.4307 0.0017901 3.3072 0.0017256 6.7379 0.0035157 521.7742999090895 48.019 0.38586 48.673 48.458 48.844 0.65356 29 14 3 0 0 0 0.21008 1 22014 22014 22.736 5.794 1 347980 11317 2797 7118 7139 13291 13291 0.015134289981460824 IPTKPVVLAL 10 Unmodified _IPTKPVVLAL_ 0 0 0 REV__ENST00000472038.1_1_1:167599603-167633027:+|nuORF REV__ENST00000472038.1_1_1:167599603-167633027:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.1802368164062 2 525.84971 1049.68487 NaN NaN NaN NaN NaN NaN NaN 70.232 1 70.232 69.732 70.732 0 0 0 0 0.99464 1 34048 34048 6.2058 1.8765 1 + 11318 16611 7119 7140 13292 13292 0.162012404475945 IPTPLRDRFR 10 Unmodified _IPTPLRDRFR_ 0 0 0 REV__nc|ENSG00000135502|Q8NG04-2|SLC26A10P REV__nc|ENSG00000135502|Q8NG04-2|SLC26A10P MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 635.8699340820312 2 635.872571 1269.73059 NaN NaN NaN NaN NaN NaN NaN 76.288 1 76.952 76.452 77.452 0.66387 0 0 0 1.0003 1 35144 35144 1.4819 0.15237 1 + 11319 17949 7120 7141 13293 13293 0.10651278682530574 IPTWSLASL 9 Unmodified _IPTWSLASL_ 0 0 0 REV__nc|ENSG00000141968|P15498-2|VAV1 REV__nc|ENSG00000141968|P15498-2|VAV1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.2799072265625 2 494.279118 986.543683 3.0812 0.001523 0.09744 4.8163E-05 3.1786 0.0015711 494.27905617853617 55.865 0.36399 56.131 55.937 56.301 0.26543 40 16 3 0 0 0 0.020718 1 25522 25522 67.344 0.88718 1 3607800 + 11320 12309 7121 7142 13294 13294 0.04987242074309961 IPVEEHFQTL 10 Unmodified _IPVEEHFQTL_ 0 0 0 ENSG00000105186|ENST00000306065|ANKRD27 ENSG00000105186|ENST00000306065|ANKRD27 ENSG00000105186|ENST00000306065|ANKRD27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 606.8198852539062 2 606.816596 1211.61864 3.711 0.0022519 0.47199 0.00028641 4.183 0.0025383 606.8167251918727 53.191 0.18375 53.191 53.097 53.281 0 14 9 2 0 0 0 0.10915 1 24386 24386 51.415 18.63 1 678700 11321 1475 7122 7143 13295 13295 0.021293798149145005 IPVEEHFQTL 10 Unmodified _IPVEEHFQTL_ 0 0 0 ENSG00000105186|ENST00000306065|ANKRD27 ENSG00000105186|ENST00000306065|ANKRD27 ENSG00000105186|ENST00000306065|ANKRD27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.8181762695312 2 606.816596 1211.61864 2.9707 0.0018027 0.20717 0.00012571 3.1779 0.0019284 606.8167772696419 52.166 0.2043 52.977 52.855 53.06 0.81065 28 12 3 0 0 0 0.094878 1 23779 23779 53.404 23.563 1 589020 11322 1475 7122 7143 13296 13296 0.021293798149145005 IPVEEHFQTL 10 Unmodified _IPVEEHFQTL_ 0 0 0 ENSG00000105186|ENST00000306065|ANKRD27 ENSG00000105186|ENST00000306065|ANKRD27 ENSG00000105186|ENST00000306065|ANKRD27 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 606.8189086914062 2 606.816596 1211.61864 NaN NaN NaN NaN NaN NaN NaN 52.841 1 53.104 52.604 53.604 0.26345 0 0 0 0.031172 1 24156 24156 74.2 36.024 1 11323 1475 7122 7143 13297 13297 0.021293798149145005 IPVEEHFQTL 10 Unmodified _IPVEEHFQTL_ 0 0 0 ENSG00000105186|ENST00000306065|ANKRD27 ENSG00000105186|ENST00000306065|ANKRD27 ENSG00000105186|ENST00000306065|ANKRD27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 606.8192138671875 2 606.816596 1211.61864 3.5345 0.0021448 0.552 0.00033496 4.0865 0.0024797 606.8170662019854 52.441 0.22634 53.103 52.975 53.201 0.66198 19 9 3 0 0 0 0.036894 1 23989 23989 65.474 32.029 1 510970 11324 1475 7122 7143 13298 13298 0.021293798149145005 IPVEEPLPF 9 Unmodified _IPVEEPLPF_ 0 0 0 ENSG00000196476|ENST00000360321|C20orf96 ENSG00000196476|ENST00000360321|C20orf96 ENSG00000196476|ENST00000360321|C20orf96 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.7880859375 2 520.786776 1039.559 3.2923 0.0017146 -0.14089 -7.3376E-05 3.1514 0.0016412 520.7864628994314 82.605 0.28209 82.852 82.734 83.016 0.24722 22 13 2 0 0 0 0.22507 1 38037 38037 21.747 10.106 1 485850 11325 5748 7123 7144 13299 13299 0.04080108871517041 IPVEEPLPF 9 Unmodified _IPVEEPLPF_ 0 0 0 ENSG00000196476|ENST00000360321|C20orf96 ENSG00000196476|ENST00000360321|C20orf96 ENSG00000196476|ENST00000360321|C20orf96 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.7890014648438 2 520.786776 1039.559 3.4823 0.0018135 0.43129 0.00022461 3.9136 0.0020381 521.2889177177067 82.006 0.32278 82.666 82.472 82.795 0.65998 26 17 2 0 0 0 0.12301 1 37797 37797 28.487 16.847 1 503530 11326 5748 7123 7144 13300 13300 0.04080108871517041 IPVHDGYVL 9 Unmodified _IPVHDGYVL_ 0 0 0 nc|ENSG00000136518|O96019-2|ACTL6A;ENSG00000077080|ENST00000160382|ACTL6B;ENSG00000136518|ENST00000429709|ACTL6A nc|ENSG00000136518|O96019-2|ACTL6A nc|ENSG00000136518|O96019-2|ACTL6A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.7781677246094 2 506.776742 1011.53893 3.0808 0.0015613 -1.0757 -0.00054514 2.0051 0.0010161 506.77666772864023 49.325 0.48399 49.325 49.134 49.618 0 56 19 4 0 0 0 0.0080831 3 22552 22552;22602;22655 85.357 49.23 1 3841200 11327 854 7124 7145 13301;13302;13303 13301 0.03362357931564475 IPVHDGYVL 9 Unmodified _IPVHDGYVL_ 0 0 0 nc|ENSG00000136518|O96019-2|ACTL6A;ENSG00000077080|ENST00000160382|ACTL6B;ENSG00000136518|ENST00000429709|ACTL6A nc|ENSG00000136518|O96019-2|ACTL6A nc|ENSG00000136518|O96019-2|ACTL6A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.77825927734375 2 506.776742 1011.53893 3.0974 0.0015697 -0.4121 -0.00020884 2.6853 0.0013608 506.776455941994 48.317 0.50144 49.144 48.914 49.415 0.82705 62 25 3 0 0 0 0.015468 2 22025 21971;22025 74.423 40.32 1 2803500 11328 854 7124 7145 13304;13305 13305 0.03362357931564475 IPVHDGYVL 9 Unmodified _IPVHDGYVL_ 0 0 0 nc|ENSG00000136518|O96019-2|ACTL6A;ENSG00000077080|ENST00000160382|ACTL6B;ENSG00000136518|ENST00000429709|ACTL6A nc|ENSG00000136518|O96019-2|ACTL6A nc|ENSG00000136518|O96019-2|ACTL6A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.77764892578125 2 506.776742 1011.53893 3.3518 0.0016986 0.20831 0.00010556 3.5601 0.0018042 506.7767304728405 49.127 0.52637 49.389 49.171 49.698 0.26146 46 19 3 0 0 0 0.015468 3 22429 22429;22481;22549 74.423 44.198 1 2283300 11329 854 7124 7145 13306;13307;13308 13306 0.03362357931564475 IPVHDGYVL 9 Unmodified _IPVHDGYVL_ 0 0 0 nc|ENSG00000136518|O96019-2|ACTL6A;ENSG00000077080|ENST00000160382|ACTL6B;ENSG00000136518|ENST00000429709|ACTL6A nc|ENSG00000136518|O96019-2|ACTL6A nc|ENSG00000136518|O96019-2|ACTL6A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.77850341796875 2 506.776742 1011.53893 3.4255 0.001736 -0.18036 -9.1404E-05 3.2451 0.0016446 506.77660959236675 48.63 0.5131 49.286 49.061 49.574 0.65524 41 19 3 0 0 0 0.015468 2 22237 22237;22301 74.423 42.117 1 1884400 11330 854 7124 7145 13309;13310 13309 0.03362357931564475 IPVNEKDTL 9 Unmodified _IPVNEKDTL_ 0 0 0 ENSG00000164105|ENST00000296504|SAP30 ENSG00000164105|ENST00000296504|SAP30 ENSG00000164105|ENST00000296504|SAP30 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.7864379882812 2 514.784764 1027.55498 3.3571 0.0017282 0.18616 9.5833E-05 3.5433 0.001824 514.784759976001 31.877 0.47883 31.877 31.663 32.141 0 139 44 4 0 0 0 0.0013832 5 14397 14353;14397;14443;14485;14535 114.19 47.73 1 3286400 11331 4283 7125 7146 13311;13312;13313;13314;13315 13312 0.04230019377814642 IPVNEKDTL 9 Unmodified _IPVNEKDTL_ 0 0 0 ENSG00000164105|ENST00000296504|SAP30 ENSG00000164105|ENST00000296504|SAP30 ENSG00000164105|ENST00000296504|SAP30 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.7864379882812 2 514.784764 1027.55498 3.3803 0.0017401 0.42473 0.00021864 3.8051 0.0019588 514.7848012809941 31.028 0.50744 31.817 31.624 32.132 0.78879 121 38 4 0 0 0 0.0013832 4 14049 13959;14004;14049;14085 114.19 42.264 1 3565800 11332 4283 7125 7146 13316;13317;13318;13319 13318 0.04230019377814642 IPVNEKDTL 9 Unmodified _IPVNEKDTL_ 0 0 0 ENSG00000164105|ENST00000296504|SAP30 ENSG00000164105|ENST00000296504|SAP30 ENSG00000164105|ENST00000296504|SAP30 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.7864990234375 2 514.784764 1027.55498 3.8651 0.0019897 -0.028144 -1.4488E-05 3.8369 0.0019752 514.7846258297799 31.738 0.59679 31.992 31.716 32.313 0.25452 143 44 4 0 0 0 0.0011142 5 14465 14373;14419;14465;14512;14568 125.04 42.508 1 2670700 11333 4283 7125 7146 13320;13321;13322;13323;13324 13322 0.04230019377814642 IPVNEKDTL 9 Unmodified _IPVNEKDTL_ 0 0 0 ENSG00000164105|ENST00000296504|SAP30 ENSG00000164105|ENST00000296504|SAP30 ENSG00000164105|ENST00000296504|SAP30 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.7865600585938 2 514.784764 1027.55498 3.4231 0.0017622 0.22605 0.00011637 3.6492 0.0018785 514.7847988397666 31.201 0.54832 31.819 31.575 32.123 0.61737 108 36 4 0 0 0 0.00045036 5 14322 14236;14282;14322;14370;14418 132.38 49.85 1 3388200 11334 4283 7125 7146 13325;13326;13327;13328;13329 13327 0.04230019377814642 IPVNEKETL 9 Unmodified _IPVNEKETL_ 0 0 0 nc|ENSG00000164576|Q9HAJ7-2|SAP30L;nc|ENSG00000164576|Q9HAJ7-3|SAP30L;ENSG00000164576|ENST00000297109|SAP30L;ENST00000520731.1_1_5:153832004-153835585:+|nuORF nc|ENSG00000164576|Q9HAJ7-2|SAP30L nc|ENSG00000164576|Q9HAJ7-2|SAP30L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.794189453125 2 521.792589 1041.57063 3.3267 0.0017359 -0.50788 -0.00026501 2.8188 0.0014708 521.7925015888445 32.014 0.25961 32.014 31.864 32.123 0 31 23 2 0 0 0 0.10584 1 14493 14493 31.268 2.7815 1 326640 11335 4323 7126 7147 13330 13330 0.0515030589485832 IPVNEKETL 9 Unmodified _IPVNEKETL_ 0 0 0 nc|ENSG00000164576|Q9HAJ7-2|SAP30L;nc|ENSG00000164576|Q9HAJ7-3|SAP30L;ENSG00000164576|ENST00000297109|SAP30L;ENST00000520731.1_1_5:153832004-153835585:+|nuORF nc|ENSG00000164576|Q9HAJ7-2|SAP30L nc|ENSG00000164576|Q9HAJ7-2|SAP30L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.7941284179688 2 521.792589 1041.57063 3.4687 0.0018099 -0.13604 -7.0983E-05 3.3327 0.001739 521.7925627948223 31.093 0.34829 31.882 31.744 32.092 0.78879 41 26 2 0 0 0 0.17594 1 14037 14037 24.991 2.2547 1 261950 11336 4323 7126 7147 13331 13331 0.0515030589485832 IPVNEKETL 9 Unmodified _IPVNEKETL_ 0 0 0 nc|ENSG00000164576|Q9HAJ7-2|SAP30L;nc|ENSG00000164576|Q9HAJ7-3|SAP30L;ENSG00000164576|ENST00000297109|SAP30L;ENST00000520731.1_1_5:153832004-153835585:+|nuORF nc|ENSG00000164576|Q9HAJ7-2|SAP30L nc|ENSG00000164576|Q9HAJ7-2|SAP30L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.7941284179688 2 521.792589 1041.57063 3.7809 0.0019729 -0.058994 -3.0782E-05 3.7219 0.0019421 521.7925679253684 31.887 0.34891 32.142 31.95 32.299 0.25452 39 24 2 0 0 0 0.136 2 14531 14483;14531 27.629 7.2143 1 387780 11337 4323 7126 7147 13332;13333 13333 0.0515030589485832 IPVPYVEKL 9 Unmodified _IPVPYVEKL_ 0 0 0 ENSG00000099942|ENST00000354336|CRKL ENSG00000099942|ENST00000354336|CRKL ENSG00000099942|ENST00000354336|CRKL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.3195190429688 2 529.318243 1056.62193 NaN NaN NaN NaN NaN NaN NaN 62.255 1 62.505 62.005 63.005 0.24965 0 0 0 0.15577 1 28502 28502 34.932 13.185 1 11338 1161 7127 7148 13334 13334 0.09588674659562457 IPVRKLLPHV 10 Unmodified _IPVRKLLPHV_ 0 0 0 REV__ENST00000514191.5_1_14:73404686-73407184:+|nuORF REV__ENST00000514191.5_1_14:73404686-73407184:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.3869018554688 2 586.387326 1170.7601 NaN NaN NaN NaN NaN NaN NaN 71.324 1 71.324 70.824 71.824 0 0 0 0 0.99733 1 34668 34668 3.9444 1.6417 1 + 11339 17002 7128 7149 13335 13335 0.1815484269868648 IPVWDQEFL 9 Unmodified _IPVWDQEFL_ 0 0 0 nc|ENSG00000113558|P63208-2|SKP1;ENSG00000113558|ENST00000353411|SKP1 nc|ENSG00000113558|P63208-2|SKP1 nc|ENSG00000113558|P63208-2|SKP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 573.796630859375 2 573.795132 1145.57571 3.7912 0.0021754 0.1005 5.7667E-05 3.8917 0.002233 573.7950038592809 90.428 0.25745 90.679 90.58 90.837 0.25137 18 12 2 0 0 0 0.24465 1 41594 41594 20.454 12.543 1 471190 11340 1859 7129 7150 13336 13336 0.008746097574885425 IPYCYWKYRKW 11 Unmodified _IPYCYWKYRKW_ 0 0 0 ENST00000580030.1_1_17:57642998-57644117:+|nuORF ENST00000580030.1_1_17:57642998-57644117:+|nuORF ENST00000580030.1_1_17:57642998-57644117:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 803.5316772460938 2 803.405389 1604.79623 NaN NaN NaN NaN NaN NaN NaN 109.6 1 110.2 109.7 110.7 0.60264 0 0 0 1.008 1 50544 50544 0.35063 0.043601 1 11341 9146 7130 7151 13337 13337 0.01801931813201918 IPYGERITL 9 Unmodified _IPYGERITL_ 0 0 0 nc|ENSG00000119596|P49750-3|YLPM1;nc|ENSG00000119596|P49750-1|YLPM1;YLPM1|p.D2015Vfs*40|1|0.15|ENSG00000119596|chr14:74821070-74821070|A/-|frameshift_variant;ENSG00000119596|ENST00000325680|YLPM1 nc|ENSG00000119596|P49750-3|YLPM1 nc|ENSG00000119596|P49750-3|YLPM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.302978515625 2 531.303124 1060.5917 NaN NaN NaN NaN NaN NaN NaN 54.405 1 54.405 53.905 54.905 0 0 0 0 0.098631 1 24956 24956 41.956 17.935 1 11342 2151 7131 7152 13338 13338 0.06382315994369492 IPYGERITL 9 Unmodified _IPYGERITL_ 0 0 0 nc|ENSG00000119596|P49750-3|YLPM1;nc|ENSG00000119596|P49750-1|YLPM1;YLPM1|p.D2015Vfs*40|1|0.15|ENSG00000119596|chr14:74821070-74821070|A/-|frameshift_variant;ENSG00000119596|ENST00000325680|YLPM1 nc|ENSG00000119596|P49750-3|YLPM1 nc|ENSG00000119596|P49750-3|YLPM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.3028564453125 2 531.303124 1060.5917 NaN NaN NaN NaN NaN NaN NaN 53.322 1 54.126 53.626 54.626 0.80351 0 0 0 0.43268 1 24320 24320 21.537 2.098 1 11343 2151 7131 7152 13339 13339 0.06382315994369492 IPYHSEVPVSL 11 Unmodified _IPYHSEVPVSL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.8370971679688 2 620.832246 1239.64994 NaN NaN NaN NaN NaN NaN NaN 56.116 1 56.894 56.394 57.394 0.77786 0 0 0 0.15612 1 25646 25646 39.95 7.164 1 11344 1960 7132 7153 13340 13340 0.039699528490018565 IPYHSEVPVSL 11 Unmodified _IPYHSEVPVSL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 620.8340454101562 2 620.832246 1239.64994 3.7131 0.0023052 -0.69056 -0.00042872 3.0225 0.0018765 620.8315448088093 56.037 0.27037 56.706 56.531 56.801 0.66811 23 13 3 0 0 0 9.9914E-05 2 25612 25612;25663 88.954 32.777 1 558330 11345 1960 7132 7153 13341;13342 13341 0.039699528490018565 IPYHSEVPVSL 11 Unmodified _IPYHSEVPVSL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 620.832246 1239.64994 3.5869 0.0022269 -0.050564 -3.1392E-05 3.5364 0.0021955 620.8321226945963 56.755 0.090004 57.02 56.987 57.077 0.26444 0.15703 0.00033402 NaN 88.954 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 797300 11346 1960 7132 7153 0.039699528490018565 IPYKVFLS 8 Unmodified _IPYKVFLS_ 0 0 0 ENSG00000164893|ENST00000297524|SLC7A13 ENSG00000164893|ENST00000297524|SLC7A13 ENSG00000164893|ENST00000297524|SLC7A13 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.7872619628906 2 483.786579 965.558604 NaN NaN NaN NaN NaN NaN NaN 30.657 1 31.274 30.774 31.774 0.61737 0 0 0 0.97647 1 14066 14066 7.2892 0 1 11347 4353 7133 7154 13343 13343 0.07444733942327275 IPYMKKYKI 9 Unmodified _IPYMKKYKI_ 0 0 0 ENSG00000052802|ENST00000261507|MSMO1 ENSG00000052802|ENST00000261507|MSMO1 ENSG00000052802|ENST00000261507|MSMO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.2359924316406 3 395.235106 1182.68349 3.2448 0.0012825 -0.65693 -0.00025964 2.5879 0.0010228 395.23485706778564 32.318 0.36857 32.573 32.459 32.827 0.25452 35 26 2 0 0 0 0.26277 1 14746 14746 13.615 6.1378 1 1008300 11348 594 7134 7155 13344 13344 0.09945283087199641 IPYMKKYKI 9 Unmodified _IPYMKKYKI_ 0 0 0 ENSG00000052802|ENST00000261507|MSMO1 ENSG00000052802|ENST00000261507|MSMO1 ENSG00000052802|ENST00000261507|MSMO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.572021484375 3 395.235106 1182.68349 2.8519 0.0011272 -0.14519 -5.7385E-05 2.7067 0.0010698 395.235197821416 31.753 0.37981 32.371 32.287 32.667 0.61736 42 24 3 0 0 0 0.26277 1 14581 14581 13.615 3.8506 1 1002300 11349 594 7134 7155 13345 13345 0.09945283087199641 IPYREHKSL 9 Unmodified _IPYREHKSL_ 0 0 0 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-5|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-3|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-4|CSNK1G3;nc|ENSG00000151292|Q9Y6M4|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-2|CSNK1G3;ENSG00000151292|ENST00000696905|CSNK1G3;nc|ENSG00000169118|Q9HCP0-2|CSNK1G1;ENSG00000133275|ENST00000255641|CSNK1G2;ENSG00000169118|ENST00000303052|CSNK1G1 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.8215942382812 2 571.819473 1141.62439 NaN NaN NaN NaN NaN NaN NaN 52.572 1 53.234 52.734 53.734 0.66198 0 0 0 0.62812 1 24035 24035 14.838 0.93222 1 11350 3698 7135 7156 13346 13346 0.059245231172326385 IPYSPDVQI 9 Unmodified _IPYSPDVQI_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1;ENST00000461353.1_1_1:19545799-19546215:-|nuORF nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.2753295898438 2 516.274032 1030.53351 3.4508 0.0017815 -0.62453 -0.00032243 2.8262 0.0014591 516.2739206083177 64.82 0.43027 65.068 64.903 65.333 0.24803 51 27 3 0 0 0 0.012869 3 29713 29665;29713;29767 77.984 29.37 1 2416600 11351 2480 7136 7157 13347;13348;13349 13348 0.01946634349087617 IPYSPDVQI 9 Unmodified _IPYSPDVQI_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1;ENST00000461353.1_1_1:19545799-19546215:-|nuORF nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.2755737304688 2 516.274032 1030.53351 3.5101 0.0018122 -1.132 -0.00058442 2.3781 0.0012278 516.2739098133231 64.3 0.33727 64.957 64.839 65.176 0.65672 43 23 3 0 0 0 0.020718 2 29457 29457;29509 67.344 21.323 1 2368700 11352 2480 7136 7157 13350;13351 13350 0.01946634349087617 IQALRWIE 8 Unmodified _IQALRWIE_ 0 0 0 NLGN4X|p.R765Lfs*14|1|0.04|ENSG00000146938|chrX:5892979-5892980|-/AACATAGAAGA|frameshift_variant;nc|ENSG00000165246|Q8NFZ3|NLGN4Y;ENSG00000146938|ENST00000381095|NLGN4X;nc|ENSG00000146938|Q8N0W4-2|NLGN4X;ENSG00000165246|ENST00000684976|NLGN4Y;nc|ENSG00000165246|Q8NFZ3-2|NLGN4Y NLGN4X|p.R765Lfs*14|1|0.04|ENSG00000146938|chrX:5892979-5892980|-/AACATAGAAGA|frameshift_variant NLGN4X|p.R765Lfs*14|1|0.04|ENSG00000146938|chrX:5892979-5892980|-/AACATAGAAGA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.7976684570312 2 514.798009 1027.58147 NaN NaN NaN NaN NaN NaN NaN 77.264 1 77.52 77.02 78.02 0.25533 0 0 0 0.99035 1 35583 35583 2.3027 0 1 11353 3539 7137 7158 13352 13352 0.06877753059779934 IQDEEDDDDY 10 Unmodified _IQDEEDDDDY_ 0 0 0 nc|ENSG00000143401|Q9BTT0-3|ANP32E;nc|ENSG00000143401|Q9BTT0-2|ANP32E;ENSG00000143401|ENST00000583931|ANP32E nc|ENSG00000143401|Q9BTT0-3|ANP32E nc|ENSG00000143401|Q9BTT0-3|ANP32E MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 628.7240600585938 2 628.725495 1255.43644 NaN NaN NaN NaN NaN NaN NaN 69.768 1 70.428 69.928 70.928 0.66071 0 0 0 1.0003 1 31988 31988 1.4819 0.28856 1 11354 3365 7138 7159 13353 13353 -0.18106469179156193 IQDRLRQLKKI 11 Unmodified _IQDRLRQLKKI_ 0 0 0 REV__ENSG00000088038|ENST00000221232|CNOT3 REV__ENSG00000088038|ENST00000221232|CNOT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 706.2904663085938 2 705.94881 1409.88307 NaN NaN NaN NaN NaN NaN NaN 50.081 1 50.738 50.238 51.238 0.65735 0 0 0 1.008 1 22904 22904 0.26902 0.26902 1 + 11355 10673 7139 7160 13354 13354 0.1945205435929438 IQELVHLVRME 11 Unmodified _IQELVHLVRME_ 0 0 0 REV__nc|ENSG00000115266|O95996-3|APC2 REV__nc|ENSG00000115266|O95996-3|APC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 683.8810424804688 2 683.879204 1365.74386 NaN NaN NaN NaN NaN NaN NaN 64.461 1 65.176 64.676 65.676 0.71521 0 0 0 1.0066 1 30372 30372 2.086 0.60411 1 + 11356 11351 7140 7161 13355 13355 0.07561348679632829 IQEWTQHS 8 Unmodified _IQEWTQHS_ 0 0 0 REV__ENSG00000256294|ENST00000262894|ZNF225 REV__ENSG00000256294|ENST00000262894|ZNF225 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.7415161132812 2 514.743431 1027.47231 NaN NaN NaN NaN NaN NaN NaN 36.524 1 37.317 36.817 37.817 0.79342 0 0 0 0.9851 1 16552 16552 6.7232 1.4263 1 + 11357 14676 7141 7162 13356 13356 -0.04032877630334042 IQFCCCCCCCC 11 Unmodified _IQFCCCCCCCC_ 0 0 0 REV__ENST00000606389.5_1_2:69691306-69691378:-|nuORF REV__ENST00000606389.5_1_2:69691306-69691378:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 616.1546020507812 2 616.154824 1230.2951 NaN NaN NaN NaN NaN NaN NaN 63.895 1 63.895 63.395 64.395 0 0 0 0 1.0082 1 30142 30142 0 0 1 + 11358 17667 7142 7163 13357 13357 -0.31083982742143235 IQILLIFLQKM 11 Unmodified _IQILLIFLQKM_ 0 0 0 ENSG00000136021|ENST00000360820|SCYL2;ENST00000392253.2_1_2:202276596-202276920:-|nuORF ENSG00000136021|ENST00000360820|SCYL2 ENSG00000136021|ENST00000360820|SCYL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 680.4992065429688 2 680.425259 1358.83597 NaN NaN NaN NaN NaN NaN NaN 107.56 1 107.6 107.1 108.1 0.045425 0 0 0 1.0059 1 58134 58134 2.9952 0 1 11359 2918 7143 7164 13358 13358 0.17090058763915295 IQKIERTL 8 Unmodified _IQKIERTL_ 0 0 0 ENSG00000064703|ENST00000369702|DDX20 ENSG00000064703|ENST00000369702|DDX20 ENSG00000064703|ENST00000369702|DDX20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.8125915527344 2 500.811116 999.60768 3.253 0.0016291 0.53999 0.00027044 3.793 0.0018996 500.8113698372753 17.193 0.49351 17.853 17.452 17.945 0.66072 61 39 2 0 0 0 0.71211 1 7708 7708 6.7232 0 1 186050 11360 677 7144 7165 13359 13359 0.10786022231286552 IQKKTAPLFGV 11 Unmodified _IQKKTAPLFGV_ 0 0 0 REV__nc|ENSG00000099331|Q13459-2|MYO9B REV__nc|ENSG00000099331|Q13459-2|MYO9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.3687744140625 2 601.368798 1200.72304 NaN NaN NaN NaN NaN NaN NaN 5.3629 1 5.7157 5.2157 6.2157 0.35278 0 0 0 1.0082 1 2433 2433 0 0 1 + 11361 10782 7145 7166 13360 13360 0.13071126362228824 IQLFINRRKPV 11 Unmodified _IQLFINRRKPV_ 0 0 0 REV__nc|ENSG00000125875|Q96BZ9-2|TBC1D20 REV__nc|ENSG00000125875|Q96BZ9-2|TBC1D20 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 692.73291015625 2 692.432796 1382.85104 NaN NaN NaN NaN NaN NaN NaN 97.766 1 98.056 97.556 98.556 0.28923 0 0 0 1.0059 1 44930 44930 2.9952 0 1 + 11362 17918 7146 7167 13361 13361 0.17492686676132507 IQLHPPGRQI 10 Unmodified _IQLHPPGRQI_ 0 0 0 REV__ENSG00000177239|ENST00000371589|MAN1B1 REV__ENSG00000177239|ENST00000371589|MAN1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 386.8969421386719 3 386.896252 1157.66693 2.9164 0.0011284 0.35774 0.00013841 3.2742 0.0012668 386.8962795595503 13.287 0.244 13.929 13.808 14.052 0.64272 36 18 3 0 0 0 0.7069 1 5962 5962 12.873 4.1208 1 762290 + 11363 13730 7147 7168 13362 13362 0.09439918245470835 IQLHPPGRQI 10 Unmodified _IQLHPPGRQI_ 0 0 0 REV__ENSG00000177239|ENST00000371589|MAN1B1 REV__ENSG00000177239|ENST00000371589|MAN1B1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 386.896252 1157.66693 2.6938 0.0010422 1.8202 0.00070422 4.5139 0.0017464 386.8970517983738 14.314 0.12786 14.314 14.279 14.406 0 0.19215 0.0011469 NaN 12.873 11 6 2 NaN NaN NaN NaN 0 NaN NaN 0 155390 + 11364 13730 7147 7168 0.09439918245470835 IQLQKLIRRRH 11 Unmodified _IQLQKLIRRRH_ 0 0 0 REV__ENSG00000047365|ENST00000303965|ARAP2 REV__ENSG00000047365|ENST00000303965|ARAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.23919677734375 4 365.987572 1459.92118 2.8043 0.0010263 -0.28151 -0.00010303 2.5228 0.0009233 365.9868230840819 48.534 0.3634 48.796 48.616 48.979 0.26209 60 20 4 0 0 0 0.91359 1 22140 22140 0.40827 0.078994 1 1070700 + 11365 10336 7148 7169 13363 13363 0.20961985064627697 IQNQMLVIQ 9 Unmodified _IQNQMLVIQ_ 0 0 0 ENST00000439040.5_1_3:194146211-194147828:-|nuORF ENST00000439040.5_1_3:194146211-194147828:-|nuORF ENST00000439040.5_1_3:194146211-194147828:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.8829345703125 3 362.870715 1085.59032 NaN NaN NaN NaN NaN NaN NaN 40.962 1 40.962 40.462 41.462 0 0 0 0 0.58778 1 18602 18602 16.149 8.5402 1 11366 7922 7149 7170 13364 13364 0.05094358633959928 IQQLLFVSDHR 11 Unmodified _IQQLLFVSDHR_ 0 0 0 nc|ENSG00000130635|P20908-2|COL5A1;ENSG00000130635|ENST00000371817|COL5A1 nc|ENSG00000130635|P20908-2|COL5A1 nc|ENSG00000130635|P20908-2|COL5A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 678.3724365234375 2 678.375143 1354.73573 NaN NaN NaN NaN NaN NaN NaN 99.888 1 99.95 99.45 100.45 0.062241 0 0 0 1.0044 1 54084 54084 4.897 1.9018 1 11367 2602 7150 7171 13365 13365 0.07255537754508623 IQQVVLMCWEN 11 Unmodified _IQQVVLMCWEN_ 0 0 0 ENST00000495190.1_1_3:184612509-184618801:+|nuORF;ENST00000492449.5_1_3:184603882-184769810:+|nuORF;nc|ENSG00000156931|Q8N3P4-3|VPS8;ENSG00000156931|ENST00000625842|VPS8 ENST00000495190.1_1_3:184612509-184618801:+|nuORF ENST00000495190.1_1_3:184612509-184618801:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 681.8330078125 2 681.830866 1361.64718 NaN NaN NaN NaN NaN NaN NaN 103.96 1 104.56 104.06 105.06 0.59821 0 0 0 1.008 1 48077 48077 0.30703 0 1 11368 3931 7151 7172 13366 13366 -0.019179618718226266 IQQYKFLRFR 10 Unmodified _IQQYKFLRFR_ 0 0 0 nc|ENSG00000058804|Q9BTX1-4|NDC1;nc|ENSG00000058804|Q9BTX1-3|NDC1;nc|ENSG00000058804|Q9BTX1-6|NDC1;nc|ENSG00000058804|Q9BTX1-5|NDC1;nc|ENSG00000058804|Q9BTX1-2|NDC1;ENSG00000058804|ENST00000371429|NDC1 nc|ENSG00000058804|Q9BTX1-4|NDC1 nc|ENSG00000058804|Q9BTX1-4|NDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 700.2584838867188 2 699.903871 1397.79319 NaN NaN NaN NaN NaN NaN NaN 109.2 1 109.51 109.01 110.01 0.31049 0 0 0 1.0015 1 50346 50346 0.40072 0.050084 1 11369 632 7152 7173 13367 13367 0.11020424750699931 IQRKKEFRNPR 11 Unmodified _IQRKKEFRNPR_ 0 0 0 ENST00000577292.5_1_17:73663452-73698652:+|nuORF ENST00000577292.5_1_17:73663452-73698652:+|nuORF ENST00000577292.5_1_17:73663452-73698652:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 736.4342651367188 2 736.433858 1470.85316 NaN NaN NaN NaN NaN NaN NaN 90.711 1 90.963 90.463 91.463 0.25163 0 0 0 1.0073 1 41711 41711 1.1933 0 1 11370 9129 7153 7174 13368 13368 0.13657115413980137 IQRKVTYRN 9 Unmodified _IQRKVTYRN_ 0 0 0 ENST00000477218.1_1_2:114392665-114398608:+|nuORF;ENST00000494909.5_1_2:114398284-114398608:+|nuORF;nc|ENSG00000144134|Q9UBK7|RABL2A;ENSG00000144134|ENST00000683472|RABL2A;nc|ENSG00000144134|Q9UBK7-3|RABL2A ENST00000477218.1_1_2:114392665-114398608:+|nuORF ENST00000477218.1_1_2:114392665-114398608:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.3445434570312 2 589.343646 1176.67274 3.7944 0.0022362 -0.82187 -0.00048436 2.9726 0.0017519 589.3431749824819 85.362 0.99276 86.028 85.601 86.594 0.66566 90 49 2 0 0 0 1.1412 1 39162 39162 1.6526 0.17072 1 1078600 11371 3409 7154 7175 13369 13369 0.09147016757151505 IQRVLFGH 8 Unmodified _IQRVLFGH_ 0 0 0 ENSG00000166507|ENST00000309979|NDST2;nc|ENSG00000166507|P52849-2|NDST2 ENSG00000166507|ENST00000309979|NDST2 ENSG00000166507|ENST00000309979|NDST2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2872619628906 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 58.007 1 58.27 57.77 58.77 0.26227 0 0 0 0.99035 1 26558 26558 2.5775 0 1 11372 4490 7155 7176 13370 13370 0.07004903608185487 IQSRDRIQL 9 Unmodified _IQSRDRIQL_ 0 0 0 ENSG00000100065|ENST00000251973|CARD10;nc|ENSG00000100065|Q9BWT7-2|CARD10 ENSG00000100065|ENST00000251973|CARD10 ENSG00000100065|ENST00000251973|CARD10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.88873291015625 3 376.887645 1127.64111 2.5672 0.00096754 0.42532 0.0001603 2.9925 0.0011278 376.8877829625099 17.44 0.23321 17.741 17.688 17.921 0.30159 24 14 2 0 0 0 1.0601 1 7913 7913 2.9952 0 1 84248 11373 1171 7156 7177 13371 13371 0.08239024003182749 IQSRIDRSL 9 Unmodified _IQSRIDRSL_ 0 0 0 REV__URB2|p.K790Rfs*14|1|0.09|ENSG00000135763|chr1:229636981-229636982|-/GAGAGGGCTATGAAGG|frameshift_variant REV__URB2|p.K790Rfs*14|1|0.09|ENSG00000135763|chr1:229636981-229636982|-/GAGAGGGCTATGAAGG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.3167724609375 2 544.314554 1086.61456 3.3872 0.0018437 -0.61701 -0.00033585 2.7701 0.0015078 544.3146384166903 33.971 0.27835 34.591 34.448 34.726 0.62031 28 14 3 0 0 0 0.24272 1 15539 15539 27.629 0 1 1206000 + 11374 12036 7157 7178 13372 13372 0.07471335111836197 IQWRALAGWPS 11 Unmodified _IQWRALAGWPS_ 0 0 0 ENST00000530761.5_1_11:117857246-117857426:+|nuORF ENST00000530761.5_1_11:117857246-117857426:+|nuORF ENST00000530761.5_1_11:117857246-117857426:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 428.90045166015625 3 428.899773 1283.67749 NaN NaN NaN NaN NaN NaN NaN 71.895 1 72.599 72.099 73.099 0.70386 0 0 0 1.0064 1 34564 34564 2.4348 0 1 11375 8717 7158 7179 13373 13373 0.04699900899890963 IQWRALAGWPS 11 Unmodified _IQWRALAGWPS_ 0 0 0 ENST00000530761.5_1_11:117857246-117857426:+|nuORF ENST00000530761.5_1_11:117857246-117857426:+|nuORF ENST00000530761.5_1_11:117857246-117857426:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 428.9014892578125 3 428.899773 1283.67749 2.6468 0.0011352 0.691 0.00029637 3.3378 0.0014316 428.900229375341 72.29 0.93633 72.549 72.084 73.021 0.25876 241 83 4 0 0 0 0.89544 1 33266 33266 2.6312 2.6312 1 4063900 11376 8717 7158 7179 13374 13374 0.04699900899890963 IRARKQNWIL 10 Unmodified _IRARKQNWIL_ 0 0 0 REV__L1PA4_dup1628|chr2:208784257-208790424:+|1.0623077957396911|0.1813551409053674|2.55|524.0|41|1|sense REV__L1PA4_dup1628|chr2:208784257-208790424:+|1.0623077957396911|0.1813551409053674|2.55|524.0|41|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 433.2677307128906 3 433.266568 1296.77787 3.1763 0.0013762 -1.0095 -0.0004374 2.1668 0.00093879 433.2662329992191 13.297 0.44261 13.94 13.791 14.234 0.64272 69 32 3 0 0 0 0.7769 1 5983 5983 9.544 0.79219 1 611530 + 11377 17787 7159 7180 13375 13375 0.14135557953568423 IRDLLFHL 8 Unmodified _IRDLLFHL_ 0 0 0 REV__ENSG00000171798|ENST00000304613|KNDC1 REV__ENSG00000171798|ENST00000304613|KNDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.8108520507812 2 513.808377 1025.6022 3.3655 0.0017292 0.67655 0.00034762 4.042 0.0020768 513.8083381463216 45.83 0.39897 46.096 45.866 46.265 0.26561 37 15 3 0 0 0 0.70799 1 20974 20974 5.2307 0 1 2238300 + 11378 13517 7160 7181 13376 13376 0.09042343439477918 IRDLLFHL 8 Unmodified _IRDLLFHL_ 0 0 0 REV__ENSG00000171798|ENST00000304613|KNDC1 REV__ENSG00000171798|ENST00000304613|KNDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 342.8756103515625 3 342.874677 1025.6022 2.4672 0.00084593 1.0449 0.00035826 3.512 0.0012042 342.8749221902948 53.722 1.0126 53.986 53.482 54.494 0.26462 80 49 2 0 0 0 0.73686 2 24578 24578;24682 1.8442 0 1 1033400 + 11379 13517 7160 7181 13377;13378 13377 0.09042343439477918 IRDLLFHL 8 Unmodified _IRDLLFHL_ 0 0 0 REV__ENSG00000171798|ENST00000304613|KNDC1 REV__ENSG00000171798|ENST00000304613|KNDC1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 342.8758850097656 3 342.874677 1025.6022 2.4672 0.00084593 1.0449 0.00035826 3.512 0.0012042 342.8749221902948 53.722 1.0126 53.986 53.482 54.494 0.26462 80 49 2 0 0 0 0.14304 1 24341 24341 1.8442 0 1 1033400 + 11380 13517 7160 7181 13379 13379 0.09042343439477918 IRDLLFHL 8 Unmodified _IRDLLFHL_ 0 0 0 REV__ENSG00000171798|ENST00000304613|KNDC1 REV__ENSG00000171798|ENST00000304613|KNDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 342.87542724609375 3 342.874677 1025.6022 NaN NaN NaN NaN NaN NaN NaN 46.979 1 47.631 47.131 48.131 0.65219 0 0 0 0.99035 1 21517 21517 1.8442 0 1 + 11381 13517 7160 7181 13380 13380 0.09042343439477918 IREQWWRWNRW 11 Unmodified _IREQWWRWNRW_ 0 0 0 ENST00000510393.5_1_1:16083148-16084686:+|nuORF ENST00000510393.5_1_1:16083148-16084686:+|nuORF ENST00000510393.5_1_1:16083148-16084686:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 858.4349365234375 2 858.436932 1714.85931 NaN NaN NaN NaN NaN NaN NaN 83.629 1 83.674 83.174 84.174 0.045006 0 0 0 1.0082 1 41547 41547 0 0 1 11382 8555 7161 7182 13381 13381 0.030476336454739794 IRFHKPQLPIK 11 Unmodified _IRFHKPQLPIK_ 0 0 0 REV__nc|ENSG00000115525|Q9UNP4-2|ST3GAL5 REV__nc|ENSG00000115525|Q9UNP4-2|ST3GAL5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 459.5304260253906 3 459.622351 1375.84522 NaN NaN NaN NaN NaN NaN NaN 62.648 1 63.379 62.879 63.879 0.73077 0 0 0 1.0065 1 29249 29249 2.2527 0.51045 1 + 11383 11370 7162 7183 13382 13382 0.17233588164481262 IRFKHLFWWWF 11 Unmodified _IRFKHLFWWWF_ 0 0 0 REV__nc|ENSG00000166262|Q96M60-2|FAM227B REV__nc|ENSG00000166262|Q96M60-2|FAM227B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 833.4423828125 2 833.445706 1664.87686 NaN NaN NaN NaN NaN NaN NaN 75.689 1 76.352 75.852 76.852 0.6635 0 0 0 1.0082 1 36656 36656 0 0 1 + 11384 18026 7163 7184 13383 13383 0.07101580918424588 IRFYFRNKVR 10 Unmodified _IRFYFRNKVR_ 0 0 0 ENSG00000171189|ENST00000327783|GRIK1 ENSG00000171189|ENST00000327783|GRIK1 ENSG00000171189|ENST00000327783|GRIK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 699.9091796875 2 699.909488 1397.80442 4.1587 0.0029107 -0.28804 -0.0002016 3.8706 0.0027091 699.9090841539839 95.95 0.43035 96.557 96.242 96.672 0.60769 39 25 2 0 0 0 0.94246 1 44009 44009 0.40072 0.050084 1 881800 11385 4792 7164 7185 13384 13384 0.12143246844857458 IRHLIVANTV 10 Unmodified _IRHLIVANTV_ 0 0 0 ENST00000509280.1_1_19:54006649-54007204:+|nuORF ENST00000509280.1_1_19:54006649-54007204:+|nuORF ENST00000509280.1_1_19:54006649-54007204:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.24932861328125 3 379.236385 1134.68733 NaN NaN NaN NaN NaN NaN NaN 76.696 1 77.36 76.86 77.86 0.66387 0 0 0 0.99995 1 35338 35338 1.7423 0 1 11386 8538 7165 7186 13385 13385 0.12537088905264682 IRHRRRKQLRR 11 Unmodified _IRHRRRKQLRR_ 0 0 0 ENST00000593209.5_2_17:40340836-40341070:-|nuORF ENST00000593209.5_2_17:40340836-40341070:-|nuORF ENST00000593209.5_2_17:40340836-40341070:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.3813781738281 4 394.506729 1573.99781 2.2766 0.00089813 -1.4885 -0.00058721 0.78812 0.00031092 394.50607094014254 58.951 0.37738 59.71 59.676 60.053 0.75894 39 31 2 0 0 0 0.13295 1 27170 27170 0 0 1 3002100 11387 9255 7166 7187 13386 13386 0.23377221404462034 IRHRRRKQLRR 11 Unmodified _IRHRRRKQLRR_ 0 0 0 ENST00000593209.5_2_17:40340836-40341070:-|nuORF ENST00000593209.5_2_17:40340836-40341070:-|nuORF ENST00000593209.5_2_17:40340836-40341070:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 394.506729 1573.99781 2.4455 0.00096475 -1.3979 -0.00055146 1.0476 0.00041329 394.50610869109204 59.586 0.50845 59.586 59.337 59.846 0 -0.05259 0.00033997 NaN 0 56 43 2 NaN NaN NaN NaN 0 NaN NaN 0 5392500 11388 9255 7166 7187 0.23377221404462034 IRHRRRKQLRR 11 Unmodified _IRHRRRKQLRR_ 0 0 0 ENST00000593209.5_2_17:40340836-40341070:-|nuORF ENST00000593209.5_2_17:40340836-40341070:-|nuORF ENST00000593209.5_2_17:40340836-40341070:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 394.506729 1573.99781 2.9667 0.0011704 -1.9181 -0.0007567 1.0486 0.00041369 394.5059134469996 59.241 0.66435 59.5 59.254 59.919 0.2593 -0.13825 -0.00048097 NaN 0 71 30 3 NaN NaN NaN NaN 0 NaN NaN 0 2406800 11389 9255 7166 7187 0.23377221404462034 IRHRRRKQLRR 11 Unmodified _IRHRRRKQLRR_ 0 0 0 ENST00000593209.5_2_17:40340836-40341070:-|nuORF ENST00000593209.5_2_17:40340836-40341070:-|nuORF ENST00000593209.5_2_17:40340836-40341070:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 394.506729 1573.99781 2.8786 0.0011356 -1.6065 -0.00063377 1.2721 0.00050186 394.50605869118726 59.091 0.57192 59.758 59.407 59.979 0.66703 0.11962 1.0732E-05 NaN 0 72 28 3 NaN NaN NaN NaN 0 NaN NaN 0 5226200 11390 9255 7166 7187 0.23377221404462034 IRHVLWRFLRE 11 Unmodified _IRHVLWRFLRE_ 0 0 0 REV__nc|ENSG00000133026|P35580|MYH10 REV__nc|ENSG00000133026|P35580|MYH10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 762.9486083984375 2 762.949144 1523.88374 NaN NaN NaN NaN NaN NaN NaN 95.671 1 95.671 95.171 96.171 0 0 0 0 1.0073 1 51579 51579 1.1933 0.84271 1 + 11391 11918 7167 7188 13387 13387 0.14274893799029087 IRIDDLDKIPR 11 Unmodified _IRIDDLDKIPR_ 0 0 0 REV__ENSG00000039139|ENST00000265104|DNAH5 REV__ENSG00000039139|ENST00000265104|DNAH5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.9339904785156 3 451.933143 1352.7776 3.2464 0.0014672 -0.89283 -0.0004035 2.3536 0.0010637 451.93265349334877 94.937 1.5993 95.555 94.942 96.541 0.61736 220 88 5 0 0 0 0.91328 1 43686 43686 0.50596 0 1 3238400 + 11392 10311 7168 7189 13388 13388 0.11532093442997393 IRITKYRTRWR 11 Unmodified _IRITKYRTRWR_ 0 0 0 REV__MCHR2|p.F208Sfs*5|1|0.38|ENSG00000152034|chr6:99934482-99934482|A/-|frameshift_variant REV__MCHR2|p.F208Sfs*5|1|0.38|ENSG00000152034|chr6:99934482-99934482|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 774.9651489257812 2 774.965326 1547.9161 NaN NaN NaN NaN NaN NaN NaN 78.13 1 78.691 78.191 79.191 0.56091 0 0 0 1.0082 1 37945 37945 0 0 1 + 11393 12637 7169 7190 13389 13389 0.16405681201990774 IRIVRLIHF 9 Unmodified _IRIVRLIHF_ 0 0 0 REV__ENSG00000165621|ENST00000541038|OXGR1 REV__ENSG00000165621|ENST00000541038|OXGR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.5896301269531 3 389.588871 1165.74478 NaN NaN NaN NaN NaN NaN NaN 44.799 1 44.799 44.299 45.299 0 0 0 0 0.90511 1 20483 20483 1.1933 0.32897 1 + 11394 13170 7170 7191 13390 13390 0.16853975901494778 IRIYKLNRRKR 11 Unmodified _IRIYKLNRRKR_ 0 0 0 nc|ENSG00000187624|Q6ZQX7-2|LIAT1;ENSG00000187624|ENST00000360127|C17orf97;nc|ENSG00000187624|Q6ZQX7-3|LIAT1;nc|ENSG00000187624|Q6ZQX7|LIAT1 nc|ENSG00000187624|Q6ZQX7-2|LIAT1 nc|ENSG00000187624|Q6ZQX7-2|LIAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.9942932128906 3 505.995071 1514.96338 NaN NaN NaN NaN NaN NaN NaN 73.991 1 74.677 74.177 75.177 0.68662 0 0 0 1.0082 1 35738 35738 0.094841 0.011491 1 11395 5625 7171 7192 13391 13391 0.22649960472972452 IRKAADPP 8 Unmodified _IRKAADPP_ 0 0 0 ENSG00000174498|ENST00000327987|IGDCC3 ENSG00000174498|ENST00000327987|IGDCC3 ENSG00000174498|ENST00000327987|IGDCC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.2567443847656 2 434.255977 866.497401 2.8795 0.0012504 0.84144 0.0003654 3.7209 0.0016158 434.2563281951684 26.771 0.26052 27.036 26.88 27.14 0.26489 27 15 3 0 0 0 0.5438 1 12163 12163 18.135 1.1927 1 524920 11396 4981 7172 7193 13392 13392 0.058812219628862294 IRKALRLA 8 Unmodified _IRKALRLA_ 0 0 0 USP24|p.Y2252Ifs*5|1|0.16|ENSG00000162402|chr1:55085953-55085953|A/-|frameshift_variant;ENSG00000162402|ENST00000294383|USP24 USP24|p.Y2252Ifs*5|1|0.16|ENSG00000162402|chr1:55085953-55085953|A/-|frameshift_variant USP24|p.Y2252Ifs*5|1|0.16|ENSG00000162402|chr1:55085953-55085953|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 314.21832275390625 3 314.218666 939.634169 NaN NaN NaN NaN NaN NaN NaN 36.228 1 37.021 36.521 37.521 0.79342 0 0 0 0.99035 1 16419 16419 0 0 1 11397 4134 7173 7194 13393 13393 0.16193755913241148 IRKEPDLF 8 Unmodified _IRKEPDLF_ 0 0 0 REV__chr1:11952735-11954836|148|33.66|0.78|5.43|+|0|PLOD1,None|1 REV__chr1:11952735-11954836|148|33.66|0.78|5.43|+|0|PLOD1,None|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.8631591796875 3 339.862437 1016.56548 2.6296 0.00089369 -0.17371 -5.9039E-05 2.4559 0.00083465 339.8622798923738 40.659 0.60063 40.928 40.435 41.035 0.26904 61 24 3 0 0 0 0.31901 1 18522 18522 34.402 9.4108 1 3523700 + 11398 10006 7174 7195 13394 13394 0.05786046822879598 IRKEVFEL 8 Unmodified _IRKEVFEL_ 0 0 0 ENST00000494412.1_1_3:99895157-99897229:+|nuORF;nc|ENSG00000184220|Q9BQ75-2|CMSS1;ENSG00000184220|ENST00000421999|CMSS1 ENST00000494412.1_1_3:99895157-99897229:+|nuORF ENST00000494412.1_1_3:99895157-99897229:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.2081604003906 3 345.206203 1032.59678 2.5233 0.00087106 0.85699 0.00029584 3.3803 0.0011669 345.2065542045197 36.59 0.34499 36.847 36.673 37.018 0.25768 32 12 3 0 0 0 0.31493 2 16643 16643;16703 28.495 2.4738 1 1514600 11399 5428 7175 7196 13395;13396 13395 0.08178619856994374 IRKGVICHKR 10 Unmodified _IRKGVICHKR_ 0 0 0 CCDC168|p.S4488Ifs*3|1|0.07|ENSG00000175820|chr13:102737235-102737236|-/T|frameshift_variant;CCDC168|p.S4487Tfs*16|1|0.05|ENSG00000175820|chr13:102737237-102737238|-/AGGGAAAATAGCACATACAAAGTCTTTTGGGG|frameshift_variant;CCDC168|p.K6712Vfs*24|1|0.16|ENSG00000175820|chr13:102730542-102730564|CTGAAAGAACTTGAGTATCTTTC/-|frameshift_variant;CCDC168|p.P6917Yfs*11|1|0.06|ENSG00000175820|chr13:102729949-102729950|-/AACGTGACAGAAAGAAGAGAGTGTAT|frameshift_variant;ENSG00000175820|ENST00000322527|CCDC168 CCDC168|p.S4488Ifs*3|1|0.07|ENSG00000175820|chr13:102737235-102737236|-/T|frameshift_variant CCDC168|p.S4488Ifs*3|1|0.07|ENSG00000175820|chr13:102737235-102737236|-/T|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.1904296875 4 303.18948 1208.72881 2.2288 0.00067576 1.6898 0.00051234 3.9187 0.0011881 303.18974649855386 35.924 0.32831 36.55 36.367 36.695 0.62631 26 11 3 0 0 0 0.94246 1 16486 16486 0.13989 0.13989 1 2153600 11400 101 7176 7197 13397 13397 0.1327994639291319 IRKGVICHKR 10 Unmodified _IRKGVICHKR_ 0 0 0 CCDC168|p.S4488Ifs*3|1|0.07|ENSG00000175820|chr13:102737235-102737236|-/T|frameshift_variant;CCDC168|p.S4487Tfs*16|1|0.05|ENSG00000175820|chr13:102737237-102737238|-/AGGGAAAATAGCACATACAAAGTCTTTTGGGG|frameshift_variant;CCDC168|p.K6712Vfs*24|1|0.16|ENSG00000175820|chr13:102730542-102730564|CTGAAAGAACTTGAGTATCTTTC/-|frameshift_variant;CCDC168|p.P6917Yfs*11|1|0.06|ENSG00000175820|chr13:102729949-102729950|-/AACGTGACAGAAAGAAGAGAGTGTAT|frameshift_variant;ENSG00000175820|ENST00000322527|CCDC168 CCDC168|p.S4488Ifs*3|1|0.07|ENSG00000175820|chr13:102737235-102737236|-/T|frameshift_variant CCDC168|p.S4488Ifs*3|1|0.07|ENSG00000175820|chr13:102737235-102737236|-/T|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 303.18948 1208.72881 1.884 0.00057121 2.3408 0.0007097 4.2248 0.0012809 303.18990521639876 36.473 0.3869 36.473 36.206 36.593 0 -0.0088473 7.4824E-05 NaN 0.13989 36 16 3 NaN NaN NaN NaN 0 NaN NaN 0 728420 11401 101 7176 7197 0.1327994639291319 IRKGVICHKR 10 Unmodified _IRKGVICHKR_ 0 0 0 CCDC168|p.S4488Ifs*3|1|0.07|ENSG00000175820|chr13:102737235-102737236|-/T|frameshift_variant;CCDC168|p.S4487Tfs*16|1|0.05|ENSG00000175820|chr13:102737237-102737238|-/AGGGAAAATAGCACATACAAAGTCTTTTGGGG|frameshift_variant;CCDC168|p.K6712Vfs*24|1|0.16|ENSG00000175820|chr13:102730542-102730564|CTGAAAGAACTTGAGTATCTTTC/-|frameshift_variant;CCDC168|p.P6917Yfs*11|1|0.06|ENSG00000175820|chr13:102729949-102729950|-/AACGTGACAGAAAGAAGAGAGTGTAT|frameshift_variant;ENSG00000175820|ENST00000322527|CCDC168 CCDC168|p.S4488Ifs*3|1|0.07|ENSG00000175820|chr13:102737235-102737236|-/T|frameshift_variant CCDC168|p.S4488Ifs*3|1|0.07|ENSG00000175820|chr13:102737235-102737236|-/T|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 303.18948 1208.72881 2.1846 0.00066235 2.9323 0.00088905 5.1169 0.0015514 303.19004099630223 36.165 0.40942 36.423 36.166 36.576 0.25768 -0.059051 0.00079224 NaN 0.13989 42 19 4 NaN NaN NaN NaN 0 NaN NaN 0 678510 11402 101 7176 7197 0.1327994639291319 IRKGVICHKR 10 Unmodified _IRKGVICHKR_ 0 0 0 CCDC168|p.S4488Ifs*3|1|0.07|ENSG00000175820|chr13:102737235-102737236|-/T|frameshift_variant;CCDC168|p.S4487Tfs*16|1|0.05|ENSG00000175820|chr13:102737237-102737238|-/AGGGAAAATAGCACATACAAAGTCTTTTGGGG|frameshift_variant;CCDC168|p.K6712Vfs*24|1|0.16|ENSG00000175820|chr13:102730542-102730564|CTGAAAGAACTTGAGTATCTTTC/-|frameshift_variant;CCDC168|p.P6917Yfs*11|1|0.06|ENSG00000175820|chr13:102729949-102729950|-/AACGTGACAGAAAGAAGAGAGTGTAT|frameshift_variant;ENSG00000175820|ENST00000322527|CCDC168 CCDC168|p.S4488Ifs*3|1|0.07|ENSG00000175820|chr13:102737235-102737236|-/T|frameshift_variant CCDC168|p.S4488Ifs*3|1|0.07|ENSG00000175820|chr13:102737235-102737236|-/T|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 303.18948 1208.72881 2.2288 0.00067576 1.6898 0.00051234 3.9187 0.0011881 303.18974649855386 35.924 0.32831 36.55 36.367 36.695 0.62631 0.067898 -0.00071459 NaN 0.13989 26 11 3 NaN NaN NaN NaN 0 NaN NaN 0 2153600 11403 101 7176 7197 0.1327994639291319 IRKKKRFIRVL 11 Unmodified _IRKKKRFIRVL_ 0 0 0 REV__TMEM71|p.S114Vfs*16|1|0.25|ENSG00000165071|chr8:132747032-132747032|T/-|frameshift_variant REV__TMEM71|p.S114Vfs*16|1|0.25|ENSG00000165071|chr8:132747032-132747032|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 729.0018310546875 2 729.00118 1455.98781 NaN NaN NaN NaN NaN NaN NaN 46.373 1 47.202 46.702 47.702 0.82915 0 0 0 1.0082 1 21121 21121 0 0 1 + 11404 13131 7177 7198 13398 13398 0.278052206265329 IRKKLFIK 8 Unmodified _IRKKLFIK_ 0 0 0 REV__ENST00000437852.2_1_9:116613102-116613318:-|nuORF REV__ENST00000437852.2_1_9:116613102-116613318:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.3654174804688 2 523.365862 1044.71717 NaN NaN NaN NaN NaN NaN NaN 90.685 1 90.685 90.185 91.185 0 0 0 0 0.99035 1 47731 47731 0 0 1 + 11405 16318 7178 7199 13399 13399 0.19660072641249826 IRKKLFIK 8 Unmodified _IRKKLFIK_ 0 0 0 REV__ENST00000437852.2_1_9:116613102-116613318:-|nuORF REV__ENST00000437852.2_1_9:116613102-116613318:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.3657836914062 2 523.365862 1044.71717 NaN NaN NaN NaN NaN NaN NaN 103.5 1 103.82 103.32 104.32 0.31863 0 0 0 0.99035 1 47849 47849 0 0 1 + 11406 16318 7178 7199 13400 13400 0.19660072641249826 IRKKLRRKK 9 Unmodified _IRKKLRRKK_ 0 0 0 REV__nc|ENSG00000167723|Q8NET8-3|TRPV3 REV__nc|ENSG00000167723|Q8NET8-3|TRPV3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.4400024414062 2 613.438215 1224.86188 NaN NaN NaN NaN NaN NaN NaN 9.5363 1 9.5363 9.0363 10.036 0 0 0 0 0.91452 1 4289 4289 0 0 1 + 11407 13305 7179 7200 13401 13401 0.2584413384108757 IRKKLRRKKRR 11 Unmodified _IRKKLRRKKRR_ 0 0 0 REV__nc|ENSG00000167723|Q8NET8-3|TRPV3 REV__nc|ENSG00000167723|Q8NET8-3|TRPV3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 769.6461181640625 2 769.539326 1537.0641 NaN NaN NaN NaN NaN NaN NaN 93.675 1 93.675 93.175 94.175 0 0 0 0 1.0082 1 50062 50062 0 0 1 + 11408 13305 7180 7201 13402 13402 0.3170503724647915 IRKPYIWEY 9 Unmodified _IRKPYIWEY_ 0 0 0 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.3458862304688 2 634.345323 1266.67609 3.759 0.0023845 -0.36696 -0.00023278 3.3921 0.0021517 634.3449445492074 49.225 0.2965 49.225 49.078 49.374 0 39 14 4 0 0 0 0.034495 2 22525 22525;22568 53.833 22.304 1 3821000 11409 2962 7181 7202 13403;13404 13403 0.05342266811112495 IRKPYIWEY 9 Unmodified _IRKPYIWEY_ 0 0 0 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.7760009765625 3 423.232641 1266.67609 2.8235 0.001195 -0.096098 -4.0672E-05 2.7274 0.0011543 423.2326501789668 49.231 0.31602 49.231 49.078 49.394 0 50 15 4 0 0 0 0.095169 1 22546 22546 16.149 9.5187 1 5173100 11410 2962 7181 7202 13405 13405 0.05342266811112495 IRKPYIWEY 9 Unmodified _IRKPYIWEY_ 0 0 0 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 423.5676574707031 3 423.232641 1266.67609 2.6825 0.0011353 0.39421 0.00016684 3.0767 0.0013022 423.232741111438 47.919 0.41562 48.748 48.567 48.983 0.82915 59 18 4 0 0 0 0.19064 3 21783 21783;21832;21886 22.658 12.343 1 3388200 11411 2962 7181 7202 13406;13407;13408 13406 0.05342266811112495 IRKPYIWEY 9 Unmodified _IRKPYIWEY_ 0 0 0 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 634.3472290039062 2 634.345323 1266.67609 3.4698 0.002201 -0.11643 -7.3857E-05 3.3533 0.0021272 634.3452253931955 47.895 0.36795 48.725 48.567 48.935 0.82915 49 15 4 0 0 0 0.024388 2 21855 21803;21855 62.573 36.305 1 2751400 11412 2962 7181 7202 13409;13410 13410 0.05342266811112495 IRKPYIWEY 9 Unmodified _IRKPYIWEY_ 0 0 0 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 634.3475952148438 2 634.345323 1266.67609 3.8611 0.0024493 -0.11961 -7.5872E-05 3.7415 0.0023734 634.3452025487229 49.197 0.43022 49.458 49.268 49.698 0.26146 49 15 4 0 0 0 0.0095519 3 22500 22450;22500;22555 82.529 46.023 1 5370600 11413 2962 7181 7202 13411;13412;13413 13412 0.05342266811112495 IRKPYIWEY 9 Unmodified _IRKPYIWEY_ 0 0 0 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.234130859375 3 423.232641 1266.67609 3.017 0.0012769 0.19632 8.3088E-05 3.2134 0.00136 423.232640067692 49.208 0.48079 49.47 49.246 49.727 0.26146 58 17 5 0 0 0 0.10837 2 22461 22461;22571 28.495 18.179 1 7264200 11414 2962 7181 7202 13414;13415 13414 0.05342266811112495 IRKPYIWEY 9 Unmodified _IRKPYIWEY_ 0 0 0 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 634.3475341796875 2 634.345323 1266.67609 4.0474 0.0025675 -0.30218 -0.00019169 3.7453 0.0023758 634.3450398476829 48.771 0.43341 49.427 49.201 49.635 0.65525 46 15 4 0 0 0 0.001377 3 22324 22262;22324;22381 114.65 65.095 1 3888000 11415 2962 7181 7202 13416;13417;13418 13417 0.05342266811112495 IRKPYIWEY 9 Unmodified _IRKPYIWEY_ 0 0 0 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 423.23394775390625 3 423.232641 1266.67609 3.1496 0.001333 -0.12544 -5.3092E-05 3.0242 0.0012799 423.23258525153005 48.754 0.43341 49.409 49.201 49.635 0.65525 49 15 4 0 0 0 0.19064 2 22299 22299;22358 17.443 7.1274 1 5884100 11416 2962 7181 7202 13419;13420 13419 0.05342266811112495 IRKRMKKAK 9 Unmodified _IRKRMKKAK_ 0 0 0 REV__ENST00000456719.1_1_2:61937434-61937779:-|nuORF REV__ENST00000456719.1_1_2:61937434-61937779:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 579.6988525390625 2 579.884427 1157.7543 NaN NaN NaN NaN NaN NaN NaN 29.097 1 29.886 29.386 30.386 0.78921 0 0 0 0.91238 1 13112 13112 0.52476 0 1 + 11417 16455 7182 7203 13421 13421 0.18173420915377392 IRKRRLHAAL 10 Unmodified _IRKRRLHAAL_ 0 0 0 REV__ENSG00000221843|ENST00000447166|C2orf16 REV__ENSG00000221843|ENST00000447166|C2orf16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 617.4048461914062 2 617.404373 1232.79419 NaN NaN NaN NaN NaN NaN NaN 94.099 1 94.359 93.859 94.859 0.25975 0 0 0 1.0015 1 43244 43244 0.45834 0 1 + 11418 14538 7183 7204 13422 13422 0.18710683910330772 IRKSPFIK 8 Unmodified _IRKSPFIK_ 0 0 0 REV__nc|ENSG00000062038|P22223-2|CDH3 REV__nc|ENSG00000062038|P22223-2|CDH3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.2162170410156 3 330.214922 987.622936 2.1821 0.00072055 -0.12001 -3.963E-05 2.0621 0.00068092 330.21493188783563 25.001 0.27637 25.63 25.448 25.724 0.62915 74 53 2 0 0 0 0.35763 1 11421 11421 31.268 5.0002 1 4337300 + 11419 10401 7184 7205 13423 13423 0.12862933819121736 IRLLYDEYMFY 11 Unmodified _IRLLYDEYMFY_ 0 0 0 ENST00000590778.1_1_19:5994848-5997295:-|nuORF;nc|ENSG00000087903|P48378-2|RFX2;nc|ENSG00000080298|P48380-2|RFX3;ENSG00000087903|ENST00000303657|RFX2;ENSG00000080298|ENST00000617270|RFX3 ENST00000590778.1_1_19:5994848-5997295:-|nuORF ENST00000590778.1_1_19:5994848-5997295:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 763.3717041015625 2 763.37342 1524.73229 NaN NaN NaN NaN NaN NaN NaN 16.997 1 17.198 16.698 17.698 0.20057 0 0 0 1.008 1 7522 7522 0.26902 0.26902 1 11420 905 7185 7206 13424 13424 -0.009088931343740114 IRLRRRKRRR 10 Unmodified _IRLRRRKRRR_ 0 0 0 ENST00000260731.4_1_10:94353109-94353202:+|nuORF ENST00000260731.4_1_10:94353109-94353202:+|nuORF ENST00000260731.4_1_10:94353109-94353202:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 733.4970092773438 2 733.497993 1464.98143 NaN NaN NaN NaN NaN NaN NaN 76.638 1 77.302 76.802 77.802 0.66387 0 0 0 1.002 1 35309 35309 0 0 1 11421 6548 7186 7207 13425 13425 0.26754140238381297 IRNKLVIVIK 10 Unmodified _IRNKLVIVIK_ 0 0 0 REV__ENST00000472654.1_1_X:48933860-48934482:-|nuORF REV__ENST00000472654.1_1_X:48933860-48934482:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.4140625 2 598.416083 1194.81761 NaN NaN NaN NaN NaN NaN NaN 107.2 1 107.51 107.01 108.01 0.31421 0 0 0 1.0015 1 49456 49456 0.40072 0 1 + 11422 14252 7187 7208 13426 13426 0.22799684904225614 IRPGMRRKVP 10 Unmodified _IRPGMRRKVP_ 0 0 0 nc|ENSG00000132002|P25685-2|DNAJB1;ENSG00000132002|ENST00000254322|DNAJB1 nc|ENSG00000132002|P25685-2|DNAJB1 nc|ENSG00000132002|P25685-2|DNAJB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 403.9181823730469 3 403.916881 1208.72881 3.1044 0.0012539 0.49509 0.00019997 3.5994 0.0014539 403.91706545807614 88.351 0.57555 89.03 88.723 89.299 0.67818 52 23 3 0 0 0 0.93628 1 40677 40677 0.69767 0 1 570190 11423 2678 7188 7209 13427 13427 0.13279946392935926 IRPGTAFEL 9 Unmodified _IRPGTAFEL_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.283203125 2 502.282192 1002.54983 3.0851 0.0015496 0.19221 9.6542E-05 3.2773 0.0016461 502.28212613528797 54.22 0.38894 54.485 54.27 54.659 0.26462 39 18 3 0 0 0 0.084899 2 24779 24779;24831 36.506 11.107 1 1568000 11424 5155 7189 7210 13428;13429 13428 0.0486576030583592 IRPGTAFEL 9 Unmodified _IRPGTAFEL_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.2836608886719 2 502.282192 1002.54983 3.0812 0.0015476 0.12092 6.0735E-05 3.2021 0.0016084 502.2820571371017 53.578 0.27831 54.243 54.101 54.379 0.6644 36 15 3 0 0 0 0.0061394 2 24492 24492;24549 89.401 33.224 1 1639700 11425 5155 7189 7210 13430;13431 13430 0.0486576030583592 IRPLPRRRKR 10 Unmodified _IRPLPRRRKR_ 0 0 0 REV__ENST00000298966.2_11:93232511-93276567:-|nuORF REV__ENST00000298966.2_11:93232511-93276567:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 337.7283935546875 4 337.728461 1346.88474 2.084 0.00070381 -1.1144 -0.00037637 0.96954 0.00032744 337.97870572341947 34.111 0.22195 34.9 34.751 34.973 0.78921 24 12 3 0 0 0 0.94099 1 15430 15430 0.69767 0.61432 1 471660 + 11426 15173 7190 7211 13432 13432 0.22517152958562292 IRPLPRRRKR 10 Unmodified _IRPLPRRRKR_ 0 0 0 REV__ENST00000298966.2_11:93232511-93276567:-|nuORF REV__ENST00000298966.2_11:93232511-93276567:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 337.7285461425781 4 337.728461 1346.88474 2.1423 0.00072351 -1.6964 -0.00057291 0.44592 0.0001506 337.72765980537724 34.298 0.17776 35.087 35.003 35.181 0.78921 18 9 3 0 0 0 0.94364 1 15549 15549 0.15932 0.01943 1 253530 + 11427 15173 7190 7211 13433 13433 0.22517152958562292 IRPLPRRRKR 10 Unmodified _IRPLPRRRKR_ 0 0 0 REV__ENST00000298966.2_11:93232511-93276567:-|nuORF REV__ENST00000298966.2_11:93232511-93276567:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.72857666015625 4 337.728461 1346.88474 2.4318 0.00082127 -0.90702 -0.00030633 1.5247 0.00051495 337.7276520018678 34.468 0.32817 34.722 34.608 34.936 0.25389 20 13 3 0 0 0 0.93584 1 15701 15701 1.7423 0.52744 1 636340 + 11428 15173 7190 7211 13434 13434 0.22517152958562292 IRPLPRRRKR 10 Unmodified _IRPLPRRRKR_ 0 0 0 REV__ENST00000298966.2_11:93232511-93276567:-|nuORF REV__ENST00000298966.2_11:93232511-93276567:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.7284851074219 4 337.728461 1346.88474 2.4318 0.00082127 -0.90702 -0.00030633 1.5247 0.00051495 337.7276520018678 34.468 0.32817 34.722 34.608 34.936 0.25389 20 13 3 0 0 0 0.12676 1 15784 15784 0.13989 0.04505 1 636340 + 11429 15173 7190 7211 13435 13435 0.22517152958562292 IRPLPRRRKR 10 Unmodified _IRPLPRRRKR_ 0 0 0 REV__ENST00000298966.2_11:93232511-93276567:-|nuORF REV__ENST00000298966.2_11:93232511-93276567:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 337.7276916503906 4 337.728461 1346.88474 2.2754 0.00076848 -1.8303 -0.00061813 0.44518 0.00015035 337.72764985016363 34.233 0.55957 34.856 34.741 35.301 0.62238 32 22 2 0 0 0 0.94374 2 15671 15671;15753 0.13989 0.056541 1 907800 + 11430 15173 7190 7211 13436;13437 13436 0.22517152958562292 IRPLPRRRKR 10 Unmodified _IRPLPRRRKR_ 0 0 0 REV__ENST00000298966.2_11:93232511-93276567:-|nuORF REV__ENST00000298966.2_11:93232511-93276567:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 337.728461 1346.88474 2.084 0.00070381 -1.1144 -0.00037637 0.96954 0.00032744 337.97870572341947 34.111 0.22195 34.9 34.751 34.973 0.78921 0.074267 0.00027257 NaN 1.7423 24 12 3 NaN NaN NaN NaN 0 NaN NaN 0 471660 + 11431 15173 7190 7211 0.22517152958562292 IRPLPRRRKR 10 Unmodified _IRPLPRRRKR_ 0 0 0 REV__ENST00000298966.2_11:93232511-93276567:-|nuORF REV__ENST00000298966.2_11:93232511-93276567:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 337.728461 1346.88474 2.2754 0.00076848 -1.8303 -0.00061813 0.44518 0.00015035 337.72764985016363 34.233 0.55957 34.856 34.741 35.301 0.62238 0.029731 -0.00069448 NaN 1.7423 32 22 2 NaN NaN NaN NaN 0 NaN NaN 0 907800 + 11432 15173 7190 7211 0.22517152958562292 IRPSLKVK 8 Unmodified _IRPSLKVK_ 0 0 0 REV__ENST00000465463.1_1_1:235605175-235611824:+|nuORF REV__ENST00000465463.1_1_1:235605175-235611824:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.2148132324219 3 314.214922 939.622936 NaN NaN NaN NaN NaN NaN NaN 49 1 49.262 48.762 49.762 0.26209 0 0 0 0.99035 1 22399 22399 3.2813 0 1 + 11433 16539 7191 7212 13438 13438 0.15070933819117727 IRQRHVRKKRK 11 Unmodified _IRQRHVRKKRK_ 0 0 0 ENST00000605810.1_1_3:70174691-70175321:-|nuORF ENST00000605810.1_1_3:70174691-70175321:-|nuORF ENST00000605810.1_1_3:70174691-70175321:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 753.0567626953125 2 752.992209 1503.96987 NaN NaN NaN NaN NaN NaN NaN 96.648 1 96.648 96.148 97.148 0 0 0 0 1.0082 1 52361 52361 0 0 1 11434 9315 7192 7213 13439 13439 0.23803898424353065 IRQRHVRKKRK 11 Unmodified _IRQRHVRKKRK_ 0 0 0 ENST00000605810.1_1_3:70174691-70175321:-|nuORF ENST00000605810.1_1_3:70174691-70175321:-|nuORF ENST00000605810.1_1_3:70174691-70175321:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 752.9950561523438 2 752.992209 1503.96987 NaN NaN NaN NaN NaN NaN NaN 96.661 1 96.661 96.161 97.161 0 0 0 0 1.0082 1 52370 52370 0 0 1 11435 9315 7192 7213 13440 13440 0.23803898424353065 IRRFIFLFFI 10 Unmodified _IRRFIFLFFI_ 0 0 0 ENSG00000169777|ENST00000382492|TAS2R1 ENSG00000169777|ENST00000382492|TAS2R1 ENSG00000169777|ENST00000382492|TAS2R1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 686.4207763671875 2 686.418626 1370.8227 NaN NaN NaN NaN NaN NaN NaN 95.789 1 96.057 95.557 96.557 0.2675 0 0 0 1.0015 1 44014 44014 0.45834 0.057624 1 11436 4711 7193 7214 13441 13441 0.15211988766850482 IRRHVIKLI 9 Unmodified _IRRHVIKLI_ 0 0 0 REV__nc|ENSG00000134775|Q2V2M9-2|FHOD3 REV__nc|ENSG00000134775|Q2V2M9-2|FHOD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.6251220703125 2 574.392942 1146.77133 NaN NaN NaN NaN NaN NaN NaN 72.712 1 72.712 72.212 73.212 0 0 0 0 0.90611 1 35377 35377 2.0598 0 1 + 11437 11981 7194 7215 13442 13442 0.20381664792830634 IRRLLILILKI 11 Unmodified _IRRLLILILKI_ 0 0 0 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 455.53717041015625 3 455.33403 1362.98026 NaN NaN NaN NaN NaN NaN NaN 68.95 1 68.95 68.45 69.45 0 0 0 0 1.0082 1 33239 33239 0 0 1 11438 9783 7195 7216 13443 13443 0.3132906830628599 IRRLLILILKI 11 Unmodified _IRRLLILILKI_ 0 0 0 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 455.3369445800781 3 455.33403 1362.98026 NaN NaN NaN NaN NaN NaN NaN 0.551 1 1.1724 0.67241 1.6724 0.62142 0 0 0 1.0082 1 251 251 0 0 1 11439 9783 7195 7216 13444 13444 0.3132906830628599 IRRLLILILKI 11 Unmodified _IRRLLILILKI_ 0 0 0 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 455.336181640625 3 455.33403 1362.98026 NaN NaN NaN NaN NaN NaN NaN 0.88138 1 1.5028 1.0028 2.0028 0.62142 0 0 0 1.0082 1 402 402 0 0 1 11440 9783 7195 7216 13445 13445 0.3132906830628599 IRRLLILILKI 11 Unmodified _IRRLLILILKI_ 0 0 0 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 455.3365478515625 3 455.33403 1362.98026 NaN NaN NaN NaN NaN NaN NaN 27.085 1 27.707 27.207 28.207 0.62179 0 0 0 1.0082 1 12418 12418 0 0 1 11441 9783 7195 7216 13446 13446 0.3132906830628599 IRRLLILILKI 11 Unmodified _IRRLLILILKI_ 0 0 0 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 455.30364990234375 3 455.33403 1362.98026 NaN NaN NaN NaN NaN NaN NaN 35.416 1 36.042 35.542 36.542 0.62631 0 0 0 1.0082 1 16225 16225 0 0 1 11442 9783 7195 7216 13447 13447 0.3132906830628599 IRRLLILILKI 11 Unmodified _IRRLLILILKI_ 0 0 0 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 454.96978759765625 3 455.33403 1362.98026 NaN NaN NaN NaN NaN NaN NaN 37.684 1 38.318 37.818 38.818 0.63388 0 0 0 1.0082 1 17242 17242 0.094841 0 1 11443 9783 7195 7216 13448 13448 0.3132906830628599 IRRLLILILKI 11 Unmodified _IRRLLILILKI_ 0 0 0 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 455.3357849121094 3 455.33403 1362.98026 NaN NaN NaN NaN NaN NaN NaN 48.761 1 49.416 48.916 49.916 0.65524 0 0 0 1.0082 1 22310 22310 0 0 1 11444 9783 7195 7216 13449 13449 0.3132906830628599 IRRLLILILKI 11 Unmodified _IRRLLILILKI_ 0 0 0 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 455.74945068359375 3 455.33403 1362.98026 NaN NaN NaN NaN NaN NaN NaN 51.764 1 52.426 51.926 52.926 0.66198 0 0 0 1.0079 1 23671 23671 0.50596 0.41111 1 11445 9783 7195 7216 13450 13450 0.3132906830628599 IRRLLILILKI 11 Unmodified _IRRLLILILKI_ 0 0 0 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 455.0094909667969 3 455.33403 1362.98026 NaN NaN NaN NaN NaN NaN NaN 56.321 1 56.989 56.489 57.489 0.66829 0 0 0 1.0082 1 25764 25764 0 0 1 11446 9783 7195 7216 13451 13451 0.3132906830628599 IRRLLILILKI 11 Unmodified _IRRLLILILKI_ 0 0 0 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 455.33563232421875 3 455.33403 1362.98026 NaN NaN NaN NaN NaN NaN NaN 68.167 1 68.826 68.326 69.326 0.65924 0 0 0 1.0082 1 31247 31247 0.094841 0.094841 1 11447 9783 7195 7216 13452 13452 0.3132906830628599 IRRLLILILKI 11 Unmodified _IRRLLILILKI_ 0 0 0 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 455.33612060546875 3 455.33403 1362.98026 NaN NaN NaN NaN NaN NaN NaN 71.043 1 71.706 71.206 72.206 0.66209 0 0 0 1.0082 1 32559 32559 0 0 1 11448 9783 7195 7216 13453 13453 0.3132906830628599 IRRLLILILKI 11 Unmodified _IRRLLILILKI_ 0 0 0 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 455.33465576171875 3 455.33403 1362.98026 NaN NaN NaN NaN NaN NaN NaN 75.208 1 75.873 75.373 76.373 0.6644 0 0 0 1.0082 1 34641 34641 0 0 1 11449 9783 7195 7216 13454 13454 0.3132906830628599 IRRLLILILKI 11 Unmodified _IRRLLILILKI_ 0 0 0 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 455.3356018066406 3 455.33403 1362.98026 NaN NaN NaN NaN NaN NaN NaN 83.051 1 83.712 83.212 84.212 0.66019 0 0 0 1.0082 1 38257 38257 0 0 1 11450 9783 7195 7216 13455 13455 0.3132906830628599 IRRLLILILKI 11 Unmodified _IRRLLILILKI_ 0 0 0 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 455.33447265625 3 455.33403 1362.98026 NaN NaN NaN NaN NaN NaN NaN 86.162 1 86.833 86.333 87.333 0.67061 0 0 0 1.0082 1 39679 39679 0 0 1 11451 9783 7195 7216 13456 13456 0.3132906830628599 IRRLRLLYLFI 11 Unmodified _IRRLRLLYLFI_ 0 0 0 REV__ENSG00000198018|ENST00000370489|ENTPD7 REV__ENSG00000198018|ENST00000370489|ENTPD7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.62786865234375 3 492.657285 1474.95002 NaN NaN NaN NaN NaN NaN NaN 75.041 1 75.704 75.204 76.204 0.6635 0 0 0 1.0071 1 36322 36322 0.50596 0.43269 1 + 11452 14314 7196 7217 13457 13457 0.23154709641084992 IRRREVNL 8 Unmodified _IRRREVNL_ 0 0 0 REV__ENSG00000129173|ENST00000250024|E2F8 REV__ENSG00000129173|ENST00000250024|E2F8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.552734375 3 352.552597 1054.63596 2.5532 0.00090013 0.367 0.00012939 2.9202 0.0010295 352.5527169912903 14.225 0.15549 14.874 14.799 14.955 0.64819 63 22 4 0 0 0 0.31493 1 6372 6372 34.402 6.7729 1 22599000 + 11453 11780 7197 7218 13458 13458 0.11082764931234124 IRRRHSLRES 10 Unmodified _IRRRHSLRES_ 0 0 0 ENSG00000115616|ENST00000233969|SLC9A2 ENSG00000115616|ENST00000233969|SLC9A2 ENSG00000115616|ENST00000233969|SLC9A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.8880004882812 2 655.381626 1308.7487 4.3089 0.002824 2.0366 0.0013347 6.3455 0.0041587 655.382744838684 92.528 0.81989 92.78 92.324 93.144 0.25253 78 42 3 0 0 0 0.9406 1 42413 42413 0 0 1 428320 11454 1980 7198 7219 13459 13459 0.10667413657233737 IRRRRRRRMRR 11 Unmodified _IRRRRRRRMRR_ 0 0 0 L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 834.528076171875 2 834.529833 1667.04511 NaN NaN NaN NaN NaN NaN NaN 36.926 1 37.719 37.219 38.219 0.79342 0 0 0 1.0082 1 16733 16733 0 0 1 11455 9436 7199 7220 13460 13460 0.2382717740379121 IRRRSKRRPPK 11 Unmodified _IRRRSKRRPPK_ 0 0 0 REV__nc|ENSG00000152270|Q13370-2|PDE3B REV__nc|ENSG00000152270|Q13370-2|PDE3B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.0693054199219 3 483.983165 1448.92767 2.4877 0.001204 -0.06721 -3.2529E-05 2.4205 0.0011715 483.98170730925045 65.845 0.033478 66.554 66.53 66.564 0.7089 5 3 2 0 0 0 0.13295 1 31163 31163 0.40827 0 1 539770 + 11456 12645 7200 7221 13461 13461 0.2211592301600831 IRSLKRRRKRK 11 Unmodified _IRSLKRRRKRK_ 0 0 0 REV__ENST00000471229.6_1_X:100878151-100878811:+|nuORF REV__ENST00000471229.6_1_X:100878151-100878811:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 749.0075073242188 2 749.007859 1496.00117 NaN NaN NaN NaN NaN NaN NaN 70.891 1 71.595 71.095 72.095 0.70386 0 0 0 1.0082 1 34004 34004 0 0 1 + 11457 15461 7201 7222 13462 13462 0.273004714584431 IRSQDVHIKAV 11 Unmodified _IRSQDVHIKAV_ 0 0 0 nc|ENSG00000171587|O60469-2|DSCAM;ENSG00000171587|ENST00000400454|DSCAM nc|ENSG00000171587|O60469-2|DSCAM nc|ENSG00000171587|O60469-2|DSCAM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.58319091796875 3 422.582333 1264.72517 NaN NaN NaN NaN NaN NaN NaN 92.269 1 92.522 92.022 93.022 0.25253 0 0 0 1.0074 1 42418 42418 0.36667 0.097654 1 11458 4817 7202 7223 13463 13463 0.1033955510006308 IRWIRRLKKAR 11 Unmodified _IRWIRRLKKAR_ 0 0 0 REV__ENST00000334805.10_1_11:72492260-72504101:-|nuORF REV__ENST00000334805.10_1_11:72492260-72504101:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 748.4931640625 2 748.494053 1494.97355 NaN NaN NaN NaN NaN NaN NaN 93.614 1 93.614 93.114 94.114 0 0 0 0 1.0082 1 50014 50014 0 0 1 + 11459 15410 7203 7224 13464 13464 0.24586568198219538 IRYRRLLWCLI 11 Unmodified _IRYRRLLWCLI_ 0 0 0 REV__ENST00000418154.1_1_1:64254543-64254969:-|nuORF REV__ENST00000418154.1_1_1:64254543-64254969:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 752.9484252929688 2 752.950298 1503.88604 NaN NaN NaN NaN NaN NaN NaN 48.558 1 48.82 48.32 49.32 0.26209 0 0 0 1.008 1 22198 22198 0.35063 0.35063 1 + 11460 16147 7204 7225 13465 13465 0.15425606212488674 ISAFRILL 8 Unmodified _ISAFRILL_ 0 0 0 nc|ENSG00000115464|Q70CQ2-2|USP34;ENSG00000115464|ENST00000398571|USP34;ENST00000463046.5_1_2:61435991-61439052:-|nuORF nc|ENSG00000115464|Q70CQ2-2|USP34 nc|ENSG00000115464|Q70CQ2-2|USP34 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 311.5170593261719 3 311.535772 931.585488 2.0196 0.00062917 0.73899 0.00023022 2.7586 0.0008594 311.53597673563803 14.646 0.23542 14.953 14.849 15.085 0.3069 27 19 2 0 0 0 0.14304 1 6575 6575 0.45834 0 1 76835 11461 1972 7205 7226 13466 13466 0.1169584255353584 ISAFYAFI 8 Unmodified _ISAFYAFI_ 0 0 0 REV__ENSG00000042781|ENST00000307340|USH2A REV__ENSG00000042781|ENST00000307340|USH2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 311.17926025390625 3 311.168978 930.485105 NaN NaN NaN NaN NaN NaN NaN 28.58 1 28.58 28.08 29.08 0 0 0 0 0.75172 1 12889 12889 15.847 0 1 + 11462 10324 7206 7227 13467 13467 0.017081854998536983 ISALLRRRRRR 11 Unmodified _ISALLRRRRRR_ 0 0 0 ENSG00000197380|ENST00000391916|DACT3 ENSG00000197380|ENST00000391916|DACT3 ENSG00000197380|ENST00000391916|DACT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 726.975830078125 2 726.976559 1451.93856 NaN NaN NaN NaN NaN NaN NaN 76.575 1 77.199 76.699 77.699 0.62397 0 0 0 1.0079 1 37123 37123 1.3295 1.3295 1 11463 5812 7207 7228 13468 13468 0.23067325390275073 ISALRALKIL 10 Unmodified _ISALRALKIL_ 0 0 0 ENSG00000147324|ENST00000276282|MFHAS1 ENSG00000147324|ENST00000276282|MFHAS1 ENSG00000147324|ENST00000276282|MFHAS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.5859069824219 3 366.585015 1096.73321 2.5043 0.00091803 -1.3233 -0.00048512 1.1809 0.00043291 366.5851708926469 30.006 0.14492 30.795 30.722 30.867 0.78921 18 12 2 0 0 0 0.93503 1 13557 13557 1.9064 0 1 175270 11464 3559 7208 7229 13469 13469 0.18871734087497316 ISDVIGNK 8 Unmodified _ISDVIGNK_ 0 0 0 ENSG00000089902|ENST00000262241|RCOR1 ENSG00000089902|ENST00000262241|RCOR1 ENSG00000089902|ENST00000262241|RCOR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.2416076660156 2 423.239993 844.465432 NaN NaN NaN NaN NaN NaN NaN 37.865 1 38.125 37.625 38.625 0.26083 0 0 0 0.99035 1 17242 17242 4.756 1.8668 1 11465 1052 7209 7230 13470 13470 0.03697809489108295 ISEIDKRKLYK 11 Unmodified _ISEIDKRKLYK_ 0 0 0 REV__ENSG00000117593|ENST00000649689|DARS2 REV__ENSG00000117593|ENST00000649689|DARS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 696.997802734375 2 696.914101 1391.81365 NaN NaN NaN NaN NaN NaN NaN 106.54 1 106.54 106.04 107.04 0 0 0 0 1.0061 1 58499 58499 2.7352 1.4057 1 + 11466 11448 7210 7231 13471 13471 0.1334155061990714 ISFMHSSFQP 10 Unmodified _ISFMHSSFQP_ 0 0 0 ENSG00000232263|ENST00000416044|KRTAP25-1 ENSG00000232263|ENST00000416044|KRTAP25-1 ENSG00000232263|ENST00000416044|KRTAP25-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 393.8528747558594 3 394.186703 1179.53828 NaN NaN NaN NaN NaN NaN NaN 22.495 1 23.082 22.582 23.582 0.58739 0 0 0 0.94476 1 10007 10007 14.218 2.0434 1 11467 6189 7211 7232 13472 13472 -0.04430804779804021 ISGFCSEELVL 11 Unmodified _ISGFCSEELVL_ 0 0 0 ENST00000591340.5_1_19:37039208-37045651:-|nuORF ENST00000591340.5_1_19:37039208-37045651:-|nuORF ENST00000591340.5_1_19:37039208-37045651:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 598.7965698242188 2 598.797014 1195.57948 NaN NaN NaN NaN NaN NaN NaN 72.39 1 72.39 71.89 72.89 0 0 0 0 0.97845 1 35213 35213 8.7454 0.83525 1 11468 9236 7212 7233 13473 13473 -0.010490885309764053 ISGGSLFSLL 10 Unmodified _ISGGSLFSLL_ 0 0 0 ENST00000497284.1_1_1:74834737-74835372:+|nuORF;nc|ENSG00000116783|Q59H18-3|TNNI3K;ENSG00000116783|ENST00000326637|TNNI3K;nc|ENSG00000116783|Q59H18-4|TNNI3K;nc|ENSG00000116783|Q59H18-1|TNNI3K ENST00000497284.1_1_1:74834737-74835372:+|nuORF ENST00000497284.1_1_1:74834737-74835372:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.8593444824219 3 331.858692 992.554247 2.1638 0.00071809 0.87944 0.00029185 3.0433 0.0010099 331.85887552001014 26.973 0.26956 27.595 27.456 27.726 0.62179 36 20 3 0 0 0 0.74998 1 12395 12395 6.1918 0.89496 1 462510 11469 2050 7213 7234 13474 13474 0.05767224728754172 ISGPCVVCSCC 11 Unmodified _ISGPCVVCSCC_ 0 0 0 nc|ENSG00000188313|O15162-2|PLSCR1;ENST00000478267.5_1_3:146234735-146251325:-|nuORF;ENSG00000188313|ENST00000342435|PLSCR1 nc|ENSG00000188313|O15162-2|PLSCR1 nc|ENSG00000188313|O15162-2|PLSCR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.9659423828125 2 535.710516 1069.40648 NaN NaN NaN NaN NaN NaN NaN 68.31 1 68.31 67.81 68.81 0 0 0 0 1.0059 1 32883 32883 2.9952 0.41776 1 11470 5664 7214 7235 13475 13475 -0.12544817455045632 ISGTYKLKRVL 11 Unmodified _ISGTYKLKRVL_ 0 0 0 nc|ENSG00000258597|P20848|SERPINA2 nc|ENSG00000258597|P20848|SERPINA2 nc|ENSG00000258597|P20848|SERPINA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 639.3995971679688 2 639.40063 1276.78671 NaN NaN NaN NaN NaN NaN NaN 69.282 1 69.282 68.782 69.782 0 0 0 0 1.0038 1 33442 33442 5.7319 0.83484 1 11471 9857 7215 7236 13476 13476 0.1593848679938219 ISHAFSVLL 9 Unmodified _ISHAFSVLL_ 0 0 0 REV__ENSG00000160606|ENST00000292090|TLCD1 REV__ENSG00000160606|ENST00000292090|TLCD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.7887878417969 2 493.78711 985.559667 2.8032 0.0013842 0.0039515 1.9512E-06 2.8071 0.0013861 493.787281250364 55.412 0.26308 56.199 55.981 56.244 0.78711 37 22 2 0 0 0 0.078225 1 25274 25274 26.884 1.4843 1 858150 + 11472 12885 7216 7237 13477 13477 0.06630948311249085 ISHAFSVLL 9 Unmodified _ISHAFSVLL_ 0 0 0 REV__ENSG00000160606|ENST00000292090|TLCD1 REV__ENSG00000160606|ENST00000292090|TLCD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 493.78711 985.559667 3.0216 0.001492 -0.37586 -0.00018559 2.6457 0.0013064 493.7869887720586 56.319 0.25001 56.319 56.182 56.432 0 0.049141 -0.00028432 NaN 26.884 38 21 2 NaN NaN NaN NaN 0 NaN NaN 0 1166500 + 11473 12885 7216 7237 0.06630948311249085 ISHAFSVLL 9 Unmodified _ISHAFSVLL_ 0 0 0 REV__ENSG00000160606|ENST00000292090|TLCD1 REV__ENSG00000160606|ENST00000292090|TLCD1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 493.78711 985.559667 2.8032 0.0013842 0.0039515 1.9512E-06 2.8071 0.0013861 493.787281250364 55.412 0.26308 56.199 55.981 56.244 0.78711 -0.071546 9.0765E-05 NaN 26.884 37 22 2 NaN NaN NaN NaN 0 NaN NaN 0 858150 + 11474 12885 7216 7237 0.06630948311249085 ISHAFSVLL 9 Unmodified _ISHAFSVLL_ 0 0 0 REV__ENSG00000160606|ENST00000292090|TLCD1 REV__ENSG00000160606|ENST00000292090|TLCD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 493.78711 985.559667 3.2266 0.0015932 0.10203 5.0379E-05 3.3286 0.0016436 493.78715040645164 55.446 0.34269 56.114 55.948 56.291 0.66798 -0.15632 0.00018762 NaN 26.884 21 14 2 NaN NaN NaN NaN 0 NaN NaN 0 831070 + 11475 12885 7216 7237 0.06630948311249085 ISILKLVLEIL 11 Unmodified _ISILKLVLEIL_ 0 0 0 ENSG00000185127|ENST00000332290|C6orf120 ENSG00000185127|ENST00000332290|C6orf120 ENSG00000185127|ENST00000332290|C6orf120 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 627.4266967773438 2 627.425782 1252.83701 NaN NaN NaN NaN NaN NaN NaN 87.998 1 88.249 87.749 88.749 0.25064 0 0 0 1.008 1 40494 40494 0.35063 0 1 11476 5490 7217 7238 13478 13478 0.22070596404523712 ISKLKKWIK 9 Unmodified _ISKLKKWIK_ 0 0 0 nc|ENSG00000196367|Q9Y4A5-2|TRRAP;nc|ENSG00000196367|Q9Y4A5|TRRAP;ENSG00000196367|ENST00000456197|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 572.5914306640625 2 572.384251 1142.75395 NaN NaN NaN NaN NaN NaN NaN 80.108 1 80.428 79.928 80.928 0.31998 0 0 0 0.89509 1 39160 39160 4.756 4.1545 1 11477 5739 7218 7239 13479 13479 0.18828324467153834 ISKRSWELH 9 Unmodified _ISKRSWELH_ 0 0 0 ENST00000485500.1_1_3:49065635-49065977:-|nuORF;ENST00000496837.1_1_3:49065635-49066789:-|nuORF ENST00000485500.1_1_3:49065635-49065977:-|nuORF ENST00000485500.1_1_3:49065635-49065977:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.8215942382812 2 578.317097 1154.61964 3.773 0.002182 -1.3636 -0.00078858 2.4094 0.0013934 578.3163180587783 20.968 0.12365 21.621 21.514 21.638 0.65346 10 7 2 0 0 0 0.3144 1 9500 9500 15.847 0 1 352010 11478 8333 7219 7240 13480 13480 0.048516389744463595 ISLLLYKVM 9 Unmodified _ISLLLYKVM_ 0 0 0 REV__ENSG00000112116|ENST00000336123|IL17F REV__ENSG00000112116|ENST00000336123|IL17F MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.3331909179688 2 540.330296 1078.64604 NaN NaN NaN NaN NaN NaN NaN 80.839 1 81.499 80.999 81.999 0.65998 0 0 0 0.90611 1 37248 37248 2.0598 0.40713 1 + 11479 11259 7220 7241 13481 13481 0.1098619182157563 ISMNQMRSEQW 11 Unmodified _ISMNQMRSEQW_ 0 0 0 REV__ENST00000551916.1_1_12:62273577-62274426:+|nuORF REV__ENST00000551916.1_1_12:62273577-62274426:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 705.3189697265625 2 705.318654 1408.62275 NaN NaN NaN NaN NaN NaN NaN 96.577 1 97.179 96.679 97.679 0.6019 0 0 0 1.0074 1 44404 44404 1.0715 0.61312 1 + 11480 17290 7221 7242 13482 13482 -0.06521222025344287 ISMPKMPV 8 Unmodified _ISMPKMPV_ 0 0 0 REV__nc|ENSG00000100167|Q9UH03-3|SEPTIN3 REV__nc|ENSG00000100167|Q9UH03-3|SEPTIN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.74676513671875 2 451.745542 901.476531 3.1712 0.0014326 -0.010483 -4.7357E-06 3.1607 0.0014278 451.7455317915377 48.256 0.37708 48.909 48.729 49.106 0.65356 23 14 2 0 0 0 0.65723 1 22140 22140 9.3474 0.75416 1 329720 + 11481 10809 7222 7243 13483 13483 0.021851722673659424 ISNFSWIK 8 Unmodified _ISNFSWIK_ 0 0 0 REV__chr4:69051602-69088767|449|31.4|0.33|6.56|+|1|UGT2B7,None|1 REV__chr4:69051602-69088767|449|31.4|0.33|6.56|+|1|UGT2B7,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 332.1855773925781 3 332.183399 993.528367 NaN NaN NaN NaN NaN NaN NaN 36.86 1 37.653 37.153 38.153 0.79342 0 0 0 0.99035 1 16703 16703 3.5965 0 1 + 11482 10045 7223 7244 13484 13484 0.03134375277136314 ISPGRYFLL 9 Unmodified _ISPGRYFLL_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;PARP14|p.F753Sfs*5|1|0.07|ENSG00000173193|chr3:122700811-122700812|-/C|frameshift_variant nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.309814453125 2 533.30821 1064.60187 2.4595 0.0013117 1.0179 0.00054284 3.4773 0.0018545 533.3086534251706 71.58 0.30977 71.58 71.397 71.707 0 49 30 2 0 0 0 0.093314 2 34817 34817;34831 34.402 3.1334 1 2038300 11483 4917 7224 7245 13485;13486 13485 0.07214923719629951 ISPGRYFLL 9 Unmodified _ISPGRYFLL_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;PARP14|p.F753Sfs*5|1|0.07|ENSG00000173193|chr3:122700811-122700812|-/C|frameshift_variant nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.3099975585938 2 533.30821 1064.60187 2.8191 0.0015035 0.2581 0.00013764 3.0772 0.0016411 533.3082161536117 71.468 0.3407 71.726 71.488 71.829 0.25786 78 27 4 0 0 0 0.023321 2 32738 32694;32738 63.961 11.692 1 9552900 11484 4917 7224 7245 13487;13488 13488 0.07214923719629951 ISPGRYFLL 9 Unmodified _ISPGRYFLL_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;PARP14|p.F753Sfs*5|1|0.07|ENSG00000173193|chr3:122700811-122700812|-/C|frameshift_variant nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.3101196289062 2 533.30821 1064.60187 2.7147 0.0014478 0.72864 0.00038859 3.4433 0.0018364 533.3085365904807 70.871 0.74646 71.533 71.265 72.011 0.66209 115 50 4 0 0 0 0.030603 5 32467 32420;32467;32513;32557;32573 55.503 11.644 1 8713200 11485 4917 7224 7245 13489;13490;13491;13492;13493 13490 0.07214923719629951 ISPKILSYFII 11 Unmodified _ISPKILSYFII_ 0 0 0 REV__ENSG00000156502|ENST00000359655|SUPV3L1 REV__ENSG00000156502|ENST00000359655|SUPV3L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 647.39697265625 2 647.394482 1292.77441 NaN NaN NaN NaN NaN NaN NaN 63.263 1 63.986 63.486 64.486 0.72236 0 0 0 0.97006 1 29616 29616 9.544 3.3382 1 + 11486 12776 7225 7246 13494 13494 0.1397345033633428 ISPKVKMAL 9 Unmodified _ISPKVKMAL_ 0 0 0 ENSG00000164754|ENST00000297338|RAD21 ENSG00000164754|ENST00000297338|RAD21 ENSG00000164754|ENST00000297338|RAD21 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.2548828125 2 493.806988 985.599423 3.278 0.0016187 -0.21916 -0.00010822 3.0589 0.0015105 493.80710991197327 35.476 0.1703 36.102 35.996 36.167 0.62631 6 4 2 0 0 0 0.10355 1 16274 16274 10.074 10.074 1 137360 11487 4342 7226 7247 13495 13495 0.10604751990285877 ISPSHASDVL 10 Unmodified _ISPSHASDVL_ 0 0 0 ENST00000572686.1_1_17:47677742-47677928:-|nuORF ENST00000572686.1_1_17:47677742-47677928:-|nuORF ENST00000572686.1_1_17:47677742-47677928:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.26953125 2 513.266739 1024.51892 NaN NaN NaN NaN NaN NaN NaN 51.846 1 51.846 51.346 52.346 0 0 0 0 0.94083 1 23737 23737 14.838 0 1 11488 9102 7227 7248 13496 13496 0.007645622009476938 ISQKNIKRHK 10 Unmodified _ISQKNIKRHK_ 0 0 0 nc|ENSG00000006715|P49754-2|VPS41;nc|ENSG00000006715|P49754-3|VPS41;ENSG00000006715|ENST00000310301|VPS41 nc|ENSG00000006715|P49754-2|VPS41 nc|ENSG00000006715|P49754-2|VPS41 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 626.458984375 2 626.385845 1250.75714 NaN NaN NaN NaN NaN NaN NaN 62.168 1 62.42 61.92 62.92 0.25245 0 0 0 1.0004 1 28461 28461 1.3295 0.13619 1 11489 356 7228 7249 13497 13497 0.14178967573889167 ISQRDLSL 8 Unmodified _ISQRDLSL_ 0 0 0 REV__ENST00000498242.5_1_2:233422594-233422729:+|nuORF REV__ENST00000498242.5_1_2:233422594-233422729:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.2657470703125 2 466.263999 930.513445 2.7642 0.0012888 0.1949 9.0873E-05 2.9591 0.0013797 466.264089955947 27.989 0.4456 28.608 28.399 28.845 0.61947 95 30 4 0 0 0 0.37709 1 12924 12924 29.082 0 1 9425600 + 11490 16868 7229 7250 13498 13498 0.04540883409140406 ISQVSIQAL 9 Unmodified _ISQVSIQAL_ 0 0 0 ENSG00000153157|ENST00000283141|SYCP2L;ENST00000480294.1_1_6:10891760-10930631:+|nuORF ENSG00000153157|ENST00000283141|SYCP2L ENSG00000153157|ENST00000283141|SYCP2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.7848205566406 2 479.782025 957.549496 3.0009 0.0014398 1.2351 0.0005926 4.2361 0.0020324 479.7826814115344 33.796 0.38216 34.416 34.195 34.577 0.62031 27 18 2 0 0 0 0.079031 1 15464 15464 37.974 1.847 1 500190 11491 3775 7230 7251 13499 13499 0.06902340585986622 ISRNKTKQVHL 11 Unmodified _ISRNKTKQVHL_ 0 0 0 ENSG00000178163|ENST00000326756|ZNF518B ENSG00000178163|ENST00000326756|ZNF518B ENSG00000178163|ENST00000326756|ZNF518B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 662.3978881835938 2 662.39641 1322.77827 NaN NaN NaN NaN NaN NaN NaN 69.579 1 70.282 69.782 70.782 0.70302 0 0 0 0.99038 1 33308 33308 7.609 1.8771 1 11492 5153 7231 7252 13500 13500 0.12978932882765548 ISRRRRILWQR 11 Unmodified _ISRRRRILWQR_ 0 0 0 REV__ENSG00000081148|ENST00000193391|IMPG2 REV__ENSG00000081148|ENST00000193391|IMPG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.9847412109375 3 513.986687 1538.93823 NaN NaN NaN NaN NaN NaN NaN 81.985 1 82.232 81.732 82.732 0.24722 0 0 0 1.0082 1 37737 37737 0.094841 0.094841 1 + 11493 10607 7232 7253 13501 13501 0.19031905670453853 ISRRRRRWWTQ 11 Unmodified _ISRRRRRWWTQ_ 0 0 0 REV__ENSG00000154736|ENST00000284987|ADAMTS5 REV__ENSG00000154736|ENST00000284987|ADAMTS5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 800.8750610351562 2 800.955824 1599.89709 NaN NaN NaN NaN NaN NaN NaN 104.85 1 104.85 104.35 105.35 0 0 0 0 1.008 1 57661 57661 0.30703 0.30703 1 + 11494 12720 7233 7254 13502 13502 0.12114144630959345 ISRRRRRWWTQ 11 Unmodified _ISRRRRRWWTQ_ 0 0 0 REV__ENSG00000154736|ENST00000284987|ADAMTS5 REV__ENSG00000154736|ENST00000284987|ADAMTS5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 801.0941162109375 2 800.955824 1599.89709 NaN NaN NaN NaN NaN NaN NaN 100.1 1 100.16 99.661 100.66 0.062241 0 0 0 1.0072 1 54241 54241 1.3295 1.0225 1 + 11495 12720 7233 7254 13503 13503 0.12114144630959345 ISRRRRRWWTQ 11 Unmodified _ISRRRRRWWTQ_ 0 0 0 REV__ENSG00000154736|ENST00000284987|ADAMTS5 REV__ENSG00000154736|ENST00000284987|ADAMTS5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 800.9570922851562 2 800.955824 1599.89709 NaN NaN NaN NaN NaN NaN NaN 98.087 1 98.376 97.876 98.876 0.28923 0 0 0 1.008 1 45124 45124 0.30703 0 1 + 11496 12720 7233 7254 13504 13504 0.12114144630959345 ISSSELTGTI 10 Unmodified _ISSSELTGTI_ 0 0 0 REV__ENSG00000165164|ENST00000378653|CFAP47 REV__ENSG00000165164|ENST00000378653|CFAP47 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.2668151855469 2 504.266404 1006.51826 NaN NaN NaN NaN NaN NaN NaN 52.836 1 53.099 52.599 53.599 0.26345 0 0 0 0.97102 1 24154 24154 10.074 0 1 + 11497 13143 7234 7255 13505 13505 0.015257227612437418 ISTEHDPVL 9 Unmodified _ISTEHDPVL_ 0 0 0 ENSG00000135999|ENST00000258484|EPC2 ENSG00000135999|ENST00000258484|EPC2 ENSG00000135999|ENST00000258484|EPC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.7630310058594 2 505.761289 1009.50803 NaN NaN NaN NaN NaN NaN NaN 34.376 1 34.63 34.13 35.13 0.25389 0 0 0 0.067429 1 15658 15658 48.346 6.2513 1 11498 2916 7235 7256 13506 13506 0.0036515982666287528 ISTEHDPVL 9 Unmodified _ISTEHDPVL_ 0 0 0 ENSG00000135999|ENST00000258484|EPC2 ENSG00000135999|ENST00000258484|EPC2 ENSG00000135999|ENST00000258484|EPC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.26397705078125 2 505.761289 1009.50803 3.1475 0.0015919 0.25251 0.00012771 3.4 0.0017196 505.76155756911686 33.844 0.22338 34.464 34.389 34.612 0.62031 22 12 2 0 0 0 0.09451 1 15510 15510 34.102 5.6156 1 463060 11499 2916 7235 7256 13507 13507 0.0036515982666287528 ISTEHDPVL 9 Unmodified _ISTEHDPVL_ 0 0 0 ENSG00000135999|ENST00000258484|EPC2 ENSG00000135999|ENST00000258484|EPC2 ENSG00000135999|ENST00000258484|EPC2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 505.761289 1009.50803 2.7757 0.0014039 0.040308 2.0386E-05 2.816 0.0014242 505.76163262330834 34.436 0.20058 34.436 34.314 34.515 0 -0.0146 1.1413E-05 NaN 34.102 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 466580 11500 2916 7235 7256 0.0036515982666287528 ISTEHDPVL 9 Unmodified _ISTEHDPVL_ 0 0 0 ENSG00000135999|ENST00000258484|EPC2 ENSG00000135999|ENST00000258484|EPC2 ENSG00000135999|ENST00000258484|EPC2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 505.761289 1009.50803 2.7457 0.0013887 -0.92142 -0.00046602 1.8243 0.00092265 505.761186603927 33.665 0.1321 34.453 34.346 34.478 0.78795 0.0017327 -0.00096139 NaN 34.102 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 574290 11501 2916 7235 7256 0.0036515982666287528 ISVFWFPHEYI 11 Unmodified _ISVFWFPHEYI_ 0 0 0 ENST00000559668.5_1_15:84868328-84868472:-|nuORF ENST00000559668.5_1_15:84868328-84868472:-|nuORF ENST00000559668.5_1_15:84868328-84868472:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 718.9035034179688 2 719.363713 1436.71287 NaN NaN NaN NaN NaN NaN NaN 99.196 1 99.196 98.696 99.696 0 0 0 0 1.0038 1 54493 54493 5.7319 1.203 1 11502 8968 7236 7257 13508 13508 0.011985186370566225 ISVNNSKI 8 Unmodified _ISVNNSKI_ 0 0 0 REV__nc|ENSG00000168116|Q9HCI6-2|KIAA1586 REV__nc|ENSG00000168116|Q9HCI6-2|KIAA1586 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.7550354003906 2 437.753267 873.491981 NaN NaN NaN NaN NaN NaN NaN 32.997 1 33.615 33.115 34.115 0.61831 0 0 0 0.86133 1 15124 15124 14.838 3.198 1 + 11503 13331 7237 7258 13509 13509 0.050174983804254225 ISVQRKDELD 10 Unmodified _ISVQRKDELD_ 0 0 0 REV__ENST00000447806.1_1_7:20629469-20629541:+|nuORF REV__ENST00000447806.1_1_7:20629469-20629541:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 601.8228759765625 2 601.822409 1201.63027 NaN NaN NaN NaN NaN NaN NaN 66.243 1 66.243 65.743 66.743 0 0 0 0 0.95221 1 31641 31641 13.042 0 1 + 11504 16391 7238 7259 13510 13510 0.03751576838226356 ISVWNFWKAHE 11 Unmodified _ISVWNFWKAHE_ 0 0 0 ENST00000577174.1_1_16:10934243-10934807:-|nuORF ENST00000577174.1_1_16:10934243-10934807:-|nuORF ENST00000577174.1_1_16:10934243-10934807:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.9088134765625 3 472.906816 1415.69862 2.9802 0.0014094 -0.36377 -0.00017203 2.6165 0.0012373 472.9068741885043 20.91 0.44896 20.91 20.649 21.098 0 97 34 4 0 0 0 0.91137 1 9279 9279 1.1098 0.096179 1 682220 11505 9127 7239 7260 13511 13511 0.007398662087325647 ISWFLHPFHL 10 Unmodified _ISWFLHPFHL_ 0 0 0 ENST00000469911.1_1_3:182328694-182329198:+|nuORF ENST00000469911.1_1_3:182328694-182329198:+|nuORF ENST00000469911.1_1_3:182328694-182329198:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.8991394042969 3 432.901114 1295.68151 NaN NaN NaN NaN NaN NaN NaN 50.45 1 51.273 50.773 51.773 0.82285 0 0 0 0.83981 1 22980 22980 21.59 0.71901 1 11506 8168 7240 7261 13512 13512 0.04549990393593362 ISYLKWRYYVH 11 Unmodified _ISYLKWRYYVH_ 0 0 0 REV__nc|ENSG00000163714|O15042-3|U2SURP REV__nc|ENSG00000163714|O15042-3|U2SURP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 764.3549194335938 2 764.408986 1526.80342 NaN NaN NaN NaN NaN NaN NaN 106.96 1 107.28 106.78 107.78 0.31628 0 0 0 1.0072 1 49351 49351 1.3295 0.13619 1 + 11507 13020 7241 7262 13513 13513 0.06108987685320244 ISYREWRRYYE 11 Unmodified _ISYREWRRYYE_ 0 0 0 ENSG00000118017|ENST00000236709|A4GNT ENSG00000118017|ENST00000236709|A4GNT ENSG00000118017|ENST00000236709|A4GNT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.680908203125 3 540.935435 1619.78447 NaN NaN NaN NaN NaN NaN NaN 72.591 1 72.591 72.091 73.091 0 0 0 0 1.008 1 35317 35317 0.08335 0 1 11508 2101 7242 7263 13514 13514 -0.0006259367637539981 ISYREWRRYYE 11 Unmodified _ISYREWRRYYE_ 0 0 0 ENSG00000118017|ENST00000236709|A4GNT ENSG00000118017|ENST00000236709|A4GNT ENSG00000118017|ENST00000236709|A4GNT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 810.59814453125 2 810.899514 1619.78447 NaN NaN NaN NaN NaN NaN NaN 79.562 1 79.562 79.062 80.062 0 0 0 0 1.0072 1 39336 39336 1.3295 1.3295 1 11509 2101 7242 7263 13515 13515 -0.0006259367637539981 ITAVWCRSW 9 Unmodified _ITAVWCRSW_ 0 0 0 ENST00000474780.1_1_3:19987557-19988503:-|nuORF ENST00000474780.1_1_3:19987557-19988503:-|nuORF ENST00000474780.1_1_3:19987557-19988503:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.3246459960938 2 561.281669 1120.54878 NaN NaN NaN NaN NaN NaN NaN 91.457 1 91.54 91.04 92.04 0.082848 0 0 0 0.89683 1 47403 47403 4.3292 0.38484 1 11510 8216 7243 7264 13516 13516 -0.006667773346862305 ITCLKFYGNRH 11 Unmodified _ITCLKFYGNRH_ 0 0 0 ENSG00000111845|ENST00000379568|PAK1IP1 ENSG00000111845|ENST00000379568|PAK1IP1 ENSG00000111845|ENST00000379568|PAK1IP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.2368469238281 3 451.236168 1350.68668 3.0428 0.001373 -0.97583 -0.00044033 2.067 0.00093269 451.2356141270411 53.334 0.17986 53.334 53.224 53.404 0 26 13 4 0 0 0 0.89988 1 24428 24428 2.4348 0.34878 1 578770 11511 1779 7244 7265 13517 13517 0.025359261939229327 ITEFILLGFFK 11 Unmodified _ITEFILLGFFK_ 0 0 0 ENSG00000280204|ENST00000641544|OR1S1;nc|ENSG00000280204|Q8NH92|OR1S1 ENSG00000280204|ENST00000641544|OR1S1 ENSG00000280204|ENST00000641544|OR1S1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 664.3848876953125 2 664.386657 1326.75876 NaN NaN NaN NaN NaN NaN NaN 97.267 1 97.267 96.767 97.767 0 0 0 0 0.97845 1 52898 52898 8.7454 1.6437 1 11512 6366 7245 7266 13518 13518 0.10845163819271875 ITEIKVVR 8 Unmodified _ITEIKVVR_ 0 0 0 nc|ENSG00000163092|A4UGR9-2|XIRP2;nc|ENSG00000163092|A4UGR9-3|XIRP2;nc|ENSG00000163092|A4UGR9|XIRP2;ENSG00000163092|ENST00000409195|XIRP2 nc|ENSG00000163092|A4UGR9-2|XIRP2 nc|ENSG00000163092|A4UGR9-2|XIRP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 319.8755798339844 3 319.874565 956.601866 NaN NaN NaN NaN NaN NaN NaN 23.046 1 23.322 22.822 23.822 0.27562 0 0 0 0.86133 1 10403 10403 14.838 2.5976 1 11513 4189 7246 7267 13519 13519 0.12182923719603878 ITELQKNGMNM 11 Unmodified _ITELQKNGMNM_ 0 0 0 nc|ENSG00000162959|Q9Y316-2|MEMO1;ENSG00000162959|ENST00000404530|MEMO1;nc|ENSG00000162959|Q9Y316-3|MEMO1 nc|ENSG00000162959|Q9Y316-2|MEMO1 nc|ENSG00000162959|Q9Y316-2|MEMO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 639.9403076171875 2 639.812673 1277.61079 NaN NaN NaN NaN NaN NaN NaN 97.155 1 97.155 96.655 97.655 0 0 0 0 0.99038 1 52801 52801 7.609 0.88579 1 11514 4183 7247 7268 13520 13520 -0.01690838768536196 ITEYDDDRSRF 11 Unmodified _ITEYDDDRSRF_ 0 0 0 REV__ENSG00000164128|ENST00000296533|NPY1R REV__ENSG00000164128|ENST00000296533|NPY1R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 708.9764404296875 2 708.823138 1415.63172 NaN NaN NaN NaN NaN NaN NaN 96.542 1 96.542 96.042 97.042 0 0 0 0 1.0073 1 52278 52278 1.1933 0.735 1 + 11515 13066 7248 7269 13521 13521 -0.05946833863686152 ITFNLTFPLL 10 Unmodified _ITFNLTFPLL_ 0 0 0 REV__ENSG00000181143|ENST00000397910|MUC16 REV__ENSG00000181143|ENST00000397910|MUC16 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.3453979492188 2 589.844625 1177.6747 3.6126 0.0021309 0.89895 0.00053024 4.5115 0.0026611 590.3459121957316 84.664 0.29541 84.912 84.795 85.09 0.24757 19 15 2 0 0 0 0.12676 1 38938 38938 1.4819 0 1 406340 + 11516 13844 7249 7270 13522 13522 0.09296632722362119 ITGFTLQFAK 10 Unmodified _ITGFTLQFAK_ 0 0 0 nc|ENSG00000135218|P16671-4|CD36;nc|ENSG00000135218|P16671-3|CD36;ENSG00000135218|ENST00000447544|CD36;ENST00000464213.1_1_7:80300260-80302160:+|nuORF nc|ENSG00000135218|P16671-4|CD36 nc|ENSG00000135218|P16671-4|CD36 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.8853759765625 2 563.318774 1124.623 NaN NaN NaN NaN NaN NaN NaN 90.877 1 90.877 90.377 91.377 0 0 0 0 0.9952 1 47858 47858 5.7319 0 1 11517 2854 7250 7271 13523 13523 0.06566889028476908 ITHAKVNILLV 11 Unmodified _ITHAKVNILLV_ 0 0 0 nc|ENSG00000130377|Q5FVE4-2|ACSBG2;ENSG00000130377|ENST00000588485|ACSBG2 nc|ENSG00000130377|Q5FVE4-2|ACSBG2 nc|ENSG00000130377|Q5FVE4-2|ACSBG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 611.3007202148438 2 610.889898 1219.76524 NaN NaN NaN NaN NaN NaN NaN 83.362 1 83.407 82.907 83.907 0.045006 0 0 0 1.0065 1 41355 41355 2.2828 0.63015 1 11518 2591 7251 7272 13524 13524 0.1641510177064447 ITHGLSLIL 9 Unmodified _ITHGLSLIL_ 0 0 0 ENST00000487137.6_1_14:23516516-23516573:-|nuORF ENST00000487137.6_1_14:23516516-23516573:-|nuORF ENST00000487137.6_1_14:23516516-23516573:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.8048095703125 2 483.80276 965.590967 3.3244 0.0016083 0.2419 0.00011703 3.5663 0.0017254 483.8027712603902 42.547 0.27312 43.194 42.976 43.249 0.64693 22 19 2 0 0 0 0.086747 1 19457 19457 36.044 3.7387 1 1043100 11519 8344 7252 7273 13525 13525 0.10679521345332432 ITHIICIR 8 Unmodified _ITHIICIR_ 0 0 0 ENSG00000198252|ENST00000354586|STYX ENSG00000198252|ENST00000354586|STYX ENSG00000198252|ENST00000354586|STYX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.79150390625 2 484.78913 967.563706 3.5721 0.0017317 -2.1329 -0.001034 1.4392 0.0006977 484.7889451649294 54.407 0.41318 54.407 54.034 54.447 0 53 32 2 0 0 0 0.67495 1 24911 24911 7.9102 2.1497 1 1246800 11520 5878 7253 7274 13526 13526 0.07862714533280268 ITHRHKKCHM 10 Unmodified _ITHRHKKCHM_ 0 0 0 REV__ENST00000395146.8_1_4:88053548-88055802:+|nuORF REV__ENST00000395146.8_1_4:88053548-88055802:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.405029296875 2 645.837151 1289.65975 NaN NaN NaN NaN NaN NaN NaN 86.761 1 86.791 86.291 87.291 0.030289 0 0 0 0.99812 1 43742 43742 3.2813 0 1 + 11521 15979 7254 7275 13527 13527 0.026505391017053626 ITHRNERRRW 10 Unmodified _ITHRNERRRW_ 0 0 0 REV__nc|ENSG00000118482|Q92576-2|PHF3 REV__nc|ENSG00000118482|Q92576-2|PHF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 712.3939819335938 2 712.392525 1422.7705 NaN NaN NaN NaN NaN NaN NaN 100.39 1 100.39 99.886 100.89 0 0 0 0 0.99572 1 55391 55391 5.2969 0.39987 1 + 11522 11472 7255 7276 13528 13528 0.07602218405827443 ITIKKAEELN 10 Unmodified _ITIKKAEELN_ 0 0 0 REV__nc|ENSG00000134440|O43776-2|NARS1 REV__nc|ENSG00000134440|O43776-2|NARS1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.219482421875 3 386.895806 1157.66559 2.9164 0.0011284 1.51 0.00058421 4.4264 0.0017126 386.8962795595503 13.287 0.244 13.929 13.808 14.052 0.64272 36 18 3 0 0 0 0.12676 1 6004 6004 4.7159 0.59929 1 762290 + 11523 11965 7256 7277 13529 13529 0.09306239366060254 ITIKKRFKV 9 Unmodified _ITIKKRFKV_ 0 0 0 ENST00000557912.1_1_15:34634171-34635317:-|nuORF;ENSG00000182117|ENST00000328848|NOP10 ENST00000557912.1_1_15:34634171-34635317:-|nuORF ENST00000557912.1_1_15:34634171-34635317:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.8839111328125 2 566.881876 1131.7492 3.3994 0.0019271 0.2081 0.00011797 3.6075 0.002045 566.8819017229945 14.862 0.49478 14.862 14.686 15.18 0 102 55 2 0 0 0 0.59776 1 6645 6645 10.824 0.75 1 245540 11524 5312 7257 7278 13530 13530 0.18859440324399657 ITIRRKKKVQI 11 Unmodified _ITIRRKKKVQI_ 0 0 0 nc|ENSG00000104067|Q07157-2|TJP1;nc|ENSG00000104067|Q07157|TJP1;ENSG00000104067|ENST00000614355|TJP1 nc|ENSG00000104067|Q07157-2|TJP1 nc|ENSG00000104067|Q07157-2|TJP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 691.96484375 2 691.969545 1381.92454 NaN NaN NaN NaN NaN NaN NaN 109.56 1 109.6 109.1 110.1 0.041008 0 0 0 1.0072 1 59091 59091 1.3295 0 1 11525 1423 7258 7279 13531 13531 0.24885235118654236 ITKKAFTGL 9 Unmodified _ITKKAFTGL_ 0 0 0 LRIG3|p.Y971Tfs*24|1|0.35|ENSG00000139263|chr12:58874259-58874259|A/-|frameshift_variant;nc|ENSG00000139263|Q6UXM1-2|LRIG3;ENSG00000139263|ENST00000320743|LRIG3 LRIG3|p.Y971Tfs*24|1|0.35|ENSG00000139263|chr12:58874259-58874259|A/-|frameshift_variant LRIG3|p.Y971Tfs*24|1|0.35|ENSG00000139263|chr12:58874259-58874259|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 326.87164306640625 3 326.870932 977.590967 2.2888 0.00074813 0.0040872 1.336E-06 2.2929 0.00074947 326.87091962139266 13.271 0.20766 13.271 13.168 13.376 0 54 17 4 0 0 0 0.24465 1 5824 5824 14.405 0 1 2991400 11526 3140 7259 7280 13532 13532 0.1012752134532775 ITKLLWLLHLV 11 Unmodified _ITKLLWLLHLV_ 0 0 0 REV__ENST00000533796.1_1_11:755745-760254:+|nuORF REV__ENST00000533796.1_1_11:755745-760254:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.20404052734375 4 337.973334 1347.86423 2.4024 0.00081196 -0.84117 -0.00028429 1.5613 0.00052767 337.97339098542454 39.353 0.22202 39.62 39.48 39.702 0.26696 10 7 2 0 0 0 0.13295 1 17935 17935 0.50596 0.4226 1 179710 + 11527 17164 7260 7281 13533 13533 0.204211247355488 ITKLLWLLHLV 11 Unmodified _ITKLLWLLHLV_ 0 0 0 REV__ENST00000533796.1_1_11:755745-760254:+|nuORF REV__ENST00000533796.1_1_11:755745-760254:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 337.973334 1347.86423 2.337 0.00078984 0.042824 1.4473E-05 2.3798 0.00080431 337.9735013000922 38.786 0.10465 39.584 39.514 39.619 0.79762 -0.017987 0.00026314 NaN 0.50596 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 110030 + 11528 17164 7260 7281 0.204211247355488 ITKMDVLQFL 10 Unmodified _ITKMDVLQFL_ 0 0 0 ENSG00000244462|ENST00000374114|RBM12 ENSG00000244462|ENST00000374114|RBM12 ENSG00000244462|ENST00000374114|RBM12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 403.23187255859375 3 403.23002 1206.66823 NaN NaN NaN NaN NaN NaN NaN 18.131 1 18.131 17.631 18.631 0 0 0 0 0.99514 1 8053 8053 5.7834 0.05158 1 11529 6250 7261 7282 13534 13534 0.07316371499359775 ITKYRNKRVL 10 Unmodified _ITKYRNKRVL_ 0 0 0 REV__nc|ENSG00000110786|P54829-2|PTPN5 REV__nc|ENSG00000110786|P54829-2|PTPN5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 645.6990356445312 2 645.903871 1289.79319 NaN NaN NaN NaN NaN NaN NaN 90.192 1 90.192 89.692 90.692 0 0 0 0 0.99812 1 47328 47328 3.2813 1.6287 1 + 11530 11212 7262 7283 13535 13535 0.159884247507307 ITLASHRAF 9 Unmodified _ITLASHRAF_ 0 0 0 REV__nc|ENSG00000142599|Q9P2R6-2|RERE REV__nc|ENSG00000142599|Q9P2R6-2|RERE MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.28955078125 2 508.287808 1014.56106 3.1249 0.0015883 -0.12596 -6.4023E-05 2.9989 0.0015243 508.28760306372834 49.073 0.48961 49.073 48.785 49.275 0 60 25 3 0 0 0 0.33646 1 22411 22411 15.847 1.0089 1 2191800 + 11531 12333 7263 7284 13536 13536 0.05436582399988765 ITLASHRAF 9 Unmodified _ITLASHRAF_ 0 0 0 REV__nc|ENSG00000142599|Q9P2R6-2|RERE REV__nc|ENSG00000142599|Q9P2R6-2|RERE MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.2893981933594 2 508.287808 1014.56106 3.4246 0.0017407 0.026815 1.363E-05 3.4515 0.0017543 508.28774908153684 48.291 0.53147 48.945 48.619 49.15 0.65356 49 20 3 0 0 0 0.33646 1 22136 22136 15.847 1.0089 1 1036000 + 11532 12333 7263 7284 13537 13537 0.05436582399988765 ITLLNPLP 8 Unmodified _ITLLNPLP_ 0 0 0 REV__LTR16A2_dup666|chr6:25835530-25835818:-|1.785762629974206|0.0336928946846551|5.73|493.0|3|2|sense REV__LTR16A2_dup666|chr6:25835530-25835818:-|1.785762629974206|0.0336928946846551|5.73|493.0|3|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 440.7808837890625 2 440.778754 879.542954 NaN NaN NaN NaN NaN NaN NaN 52.898 1 52.898 52.398 53.398 0 0 0 0 0.99035 1 24227 24227 2.0598 0 1 + 11533 17822 7264 7285 13538 13538 0.09836447425288952 ITLPHGHQL 9 Unmodified _ITLPHGHQL_ 0 0 0 ENSG00000137936|ENST00000260502|BCAR3;nc|ENSG00000137936|O75815-3|BCAR3;nc|ENSG00000137936|O75815-2|BCAR3 ENSG00000137936|ENST00000260502|BCAR3 ENSG00000137936|ENST00000260502|BCAR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.289306640625 2 508.287808 1014.56106 3.1249 0.0015883 -0.12596 -6.4023E-05 2.9989 0.0015243 508.28760306372834 49.073 0.48961 49.073 48.785 49.275 0 60 25 3 0 0 0 0.091193 2 22456 22456;22500 37.974 12.575 1 2191800 11534 3054 7265 7286 13539;13540 13539 0.05436582400000134 ITLPHGHQL 9 Unmodified _ITLPHGHQL_ 0 0 0 ENSG00000137936|ENST00000260502|BCAR3;nc|ENSG00000137936|O75815-3|BCAR3;nc|ENSG00000137936|O75815-2|BCAR3 ENSG00000137936|ENST00000260502|BCAR3 ENSG00000137936|ENST00000260502|BCAR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.2893371582031 2 508.287808 1014.56106 3.0708 0.0015609 -0.19691 -0.00010009 2.8739 0.0014608 508.28767978070965 47.898 0.50233 48.727 48.481 48.983 0.82915 56 22 3 0 0 0 0.097139 2 21833 21780;21833 36.127 1.3787 1 1774300 11535 3054 7265 7286 13541;13542 13542 0.05436582400000134 ITLPHGHQL 9 Unmodified _ITLPHGHQL_ 0 0 0 ENSG00000137936|ENST00000260502|BCAR3;nc|ENSG00000137936|O75815-3|BCAR3;nc|ENSG00000137936|O75815-2|BCAR3 ENSG00000137936|ENST00000260502|BCAR3 ENSG00000137936|ENST00000260502|BCAR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.28912353515625 2 508.287808 1014.56106 3.4149 0.0017358 -0.21211 -0.00010781 3.2028 0.001628 508.2876592603294 48.851 0.45298 49.114 48.846 49.299 0.26209 40 17 3 0 0 0 0.11155 3 22271 22271;22339;22390 25.399 8.6325 1 1422900 11536 3054 7265 7286 13543;13544;13545 13543 0.05436582400000134 ITLPHGHQL 9 Unmodified _ITLPHGHQL_ 0 0 0 ENSG00000137936|ENST00000260502|BCAR3;nc|ENSG00000137936|O75815-3|BCAR3;nc|ENSG00000137936|O75815-2|BCAR3 ENSG00000137936|ENST00000260502|BCAR3 ENSG00000137936|ENST00000260502|BCAR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.28961181640625 2 508.287808 1014.56106 3.4246 0.0017407 0.026815 1.363E-05 3.4515 0.0017543 508.28774908153684 48.291 0.53147 48.945 48.619 49.15 0.65356 49 20 3 0 0 0 0.063112 2 22088 22027;22088 46.021 13.715 1 1036000 11537 3054 7265 7286 13546;13547 13547 0.05436582400000134 ITLPRRKRRRR 11 Unmodified _ITLPRRKRRRR_ 0 0 0 REV__ENST00000300811.7_1_19:44112133-44118443:-|nuORF REV__ENST00000300811.7_1_19:44112133-44118443:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 754.4981689453125 2 754.497659 1506.98076 NaN NaN NaN NaN NaN NaN NaN 94.296 1 94.296 93.796 94.796 0 0 0 0 1.008 1 50541 50541 0.30703 0.30703 1 + 11538 15187 7266 7287 13548 13548 0.24755300798642565 ITLSFLSIHL 10 Unmodified _ITLSFLSIHL_ 0 0 0 nc|ENSG00000113749|P25021|HRH2;nc|ENSG00000113749|P25021-2|HRH2;ENSG00000113749|ENST00000636584|HRH2 nc|ENSG00000113749|P25021|HRH2 nc|ENSG00000113749|P25021|HRH2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.8983154296875 3 381.897258 1142.66995 2.0112 0.00076808 -0.63935 -0.00024417 1.3719 0.00052392 381.8969504632014 7.2879 1.0147 7.5937 7.2207 8.2355 0.30573 163 83 3 0 0 0 0.88949 1 3293 3293 4.1895 0 1 82435 11539 1871 7267 7288 13549 13549 0.10431748579640043 ITLSFLSIHL 10 Unmodified _ITLSFLSIHL_ 0 0 0 nc|ENSG00000113749|P25021|HRH2;nc|ENSG00000113749|P25021-2|HRH2;ENSG00000113749|ENST00000636584|HRH2 nc|ENSG00000113749|P25021|HRH2 nc|ENSG00000113749|P25021|HRH2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 381.897258 1142.66995 2.8987 0.001107 -1.0118 -0.00038639 1.8869 0.00072061 381.8967153729606 7.7891 0.38105 7.7891 7.5545 7.9356 0 0.097716 -0.00021523 NaN 4.1895 66 37 2 NaN NaN NaN NaN 0 NaN NaN 0 60853 11540 1871 7267 7288 0.10431748579640043 ITLWPLLSR 9 Unmodified _ITLWPLLSR_ 0 0 0 nc|ENSG00000170190|O15375-2|SLC16A5;ENSG00000170190|ENST00000329783|SLC16A5 nc|ENSG00000170190|O15375-2|SLC16A5 nc|ENSG00000170190|O15375-2|SLC16A5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.56103515625 3 366.893848 1097.65972 2.4231 0.00088901 0.44189 0.00016213 2.865 0.0010511 366.8953684897845 14.33 0.089371 14.637 14.593 14.683 0.3069 5 3 2 0 0 0 0.081012 1 6491 6491 21.537 6.2885 1 605010 11541 4734 7268 7289 13550 13550 0.11479185645021062 ITLWVRREL 9 Unmodified _ITLWVRREL_ 0 0 0 CCDC174|p.S380Rfs*75|1|0.22|ENSG00000154781|chr3:14670927-14670942|GTCAGATCTCCGGGCT/-|frameshift_variant CCDC174|p.S380Rfs*75|1|0.22|ENSG00000154781|chr3:14670927-14670942|GTCAGATCTCCGGGCT/-|frameshift_variant CCDC174|p.S380Rfs*75|1|0.22|ENSG00000154781|chr3:14670927-14670942|GTCAGATCTCCGGGCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 396.2438049316406 3 395.908269 1184.70298 2.7038 0.0010705 -0.18328 -7.2561E-05 2.5205 0.0009979 395.90811050348077 13.118 0.18723 13.118 13.036 13.224 0 18 10 2 0 0 0 0.24465 1 5731 5731 14.405 0 1 530740 11542 102 7269 7290 13551 13551 0.11801375422351157 ITMEKVKKFEN 11 Unmodified _ITMEKVKKFEN_ 0 0 0 ENSG00000066651|ENST00000334379|TRMT11 ENSG00000066651|ENST00000334379|TRMT11 ENSG00000066651|ENST00000334379|TRMT11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 683.8733520507812 2 683.873588 1365.73262 NaN NaN NaN NaN NaN NaN NaN 84.975 1 85.004 84.504 85.504 0.028603 0 0 0 0.99571 1 42489 42489 7.1017 1.8048 1 11543 709 7270 7291 13552 13552 0.06438526585498039 ITNRCCRSEYY 11 Unmodified _ITNRCCRSEYY_ 0 0 0 REV__nc|ENSG00000155890|Q8IWZ5-2|TRIM42 REV__nc|ENSG00000155890|Q8IWZ5-2|TRIM42 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 469.8756408691406 3 469.876311 1406.6071 NaN NaN NaN NaN NaN NaN NaN 80.265 1 80.514 80.014 81.014 0.24947 0 0 0 1.0079 1 36957 36957 0.40827 0.24894 1 + 11544 12755 7271 7292 13553 13553 -0.0799350854235854 ITPNCNTFDEW 11 Unmodified _ITPNCNTFDEW_ 0 0 0 REV__ENSG00000169991|ENST00000455833|IFFO2 REV__ENSG00000169991|ENST00000455833|IFFO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 670.6633911132812 2 670.284802 1338.55505 NaN NaN NaN NaN NaN NaN NaN 107.97 1 107.97 107.47 108.47 0 0 0 0 1.0072 1 59181 59181 1.3295 0.13619 1 + 11545 13414 7272 7293 13554 13554 -0.10068348684512785 ITPNTYYFL 9 Unmodified _ITPNTYYFL_ 0 0 0 ENST00000367568.4_1_6:144509016-144509238:+|nuORF ENST00000367568.4_1_6:144509016-144509238:+|nuORF ENST00000367568.4_1_6:144509016-144509238:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.2911376953125 2 566.289682 1130.56481 3.6783 0.002083 0.12159 6.8856E-05 3.7999 0.0021518 566.289583395683 81.396 0.58035 82.056 81.872 82.452 0.65998 93 49 2 0 0 0 0.10837 1 37516 37516 30.637 3.7529 1 986320 11546 7264 7273 7294 13555 13555 0.00475207383169618 ITRLVILPFWI 11 Unmodified _ITRLVILPFWI_ 0 0 0 ENSG00000143418|ENST00000368954|CERS2;ENST00000482825.7_1_1:150936938-150939392:-|nuORF ENSG00000143418|ENST00000368954|CERS2 ENSG00000143418|ENST00000368954|CERS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 685.93115234375 2 685.931566 1369.84858 NaN NaN NaN NaN NaN NaN NaN 109.16 1 109.2 108.7 109.7 0.041008 0 0 0 1.0072 1 58894 58894 1.3295 0 1 11547 3367 7274 7295 13556 13556 0.17844838218502446 ITRNPRRRRQR 11 Unmodified _ITRNPRRRRQR_ 0 0 0 COL22A1|p.K1223Rfs*86|1|0.3|ENSG00000169436|chr8:138626235-138626239|TTCTT/-|frameshift_variant COL22A1|p.K1223Rfs*86|1|0.3|ENSG00000169436|chr8:138626235-138626239|TTCTT/-|frameshift_variant COL22A1|p.K1223Rfs*86|1|0.3|ENSG00000169436|chr8:138626235-138626239|TTCTT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 755.08251953125 2 754.958898 1507.90324 NaN NaN NaN NaN NaN NaN NaN 98.294 1 98.294 97.794 98.794 0 0 0 0 1.0072 1 53770 53770 1.3295 1.0225 1 11548 203 7275 7296 13557 13557 0.169606628624706 ITRRYLPLA 9 Unmodified _ITRRYLPLA_ 0 0 0 REV__ENST00000559585.5_1_15:35782392-35838342:-|nuORF REV__ENST00000559585.5_1_15:35782392-35838342:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.8421630859375 2 551.840208 1101.66586 NaN NaN NaN NaN NaN NaN NaN 44.483 1 45.133 44.633 45.633 0.64998 0 0 0 0.91206 1 20391 20391 0.6015 0 1 + 11549 11954 7276 7297 13558 13558 0.11909703876563071 ITRSRRRRRR 10 Unmodified _ITRSRRRRRR_ 0 0 0 REV__ENST00000586027.5_1_19:14602515-14606910:-|nuORF REV__ENST00000586027.5_1_19:14602515-14606910:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 706.9315795898438 2 706.948333 1411.88211 NaN NaN NaN NaN NaN NaN NaN 96.394 1 96.471 95.971 96.971 0.076538 0 0 0 0.99733 1 51213 51213 3.9444 0.66309 1 + 11550 17538 7277 7298 13559 13559 0.1926469755362632 ITTESEKLTL 10 Unmodified _ITTESEKLTL_ 0 0 0 ENSG00000165349|ENST00000374299|SLC7A3;SLC7A3|p.C480Lfs*61|1|0.07|ENSG00000165349|chrX:70926889-70926890|-/A|frameshift_variant ENSG00000165349|ENST00000374299|SLC7A3 ENSG00000165349|ENST00000374299|SLC7A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.8809509277344 3 378.879933 1133.61797 2.6524 0.001005 1.3648 0.00051708 4.0172 0.001522 378.88021545685854 34.305 0.33887 34.928 34.776 35.115 0.62294 20 12 2 0 0 0 0.78883 1 15772 15772 8.9762 0.23084 1 714480 11551 4394 7278 7299 13560 13560 0.05650540375199853 ITTHLHSI 8 Unmodified _ITTHLHSI_ 0 0 0 REV__FRYL|p.E2601Dfs*12|1|0.03|ENSG00000075539|chr4:48515162-48515163|-/TACTTTCA|frameshift_variant REV__FRYL|p.E2601Dfs*12|1|0.03|ENSG00000075539|chr4:48515162-48515163|-/TACTTTCA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 307.8441467285156 3 307.843265 920.507966 2.1545 0.00066325 0.80088 0.00024654 2.9554 0.00090979 307.84356803473105 16.812 0.53368 17.473 17.235 17.769 0.66072 85 48 2 0 0 0 0.68959 2 7641 7597;7641 6.7232 0 1 140180 + 11552 10530 7279 7300 13561;13562 13562 0.044532046173458184 ITTVLFCFL 9 Unmodified _ITTVLFCFL_ 0 0 0 nc|ENSG00000116183|Q9BXP8-2|PAPPA2 nc|ENSG00000116183|Q9BXP8-2|PAPPA2 nc|ENSG00000116183|Q9BXP8-2|PAPPA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.7935180664062 2 528.793546 1055.57254 NaN NaN NaN NaN NaN NaN NaN 83.248 1 83.908 83.408 84.408 0.66019 0 0 0 0.89509 1 38345 38345 4.756 0 1 11553 9610 7280 7301 13563 13563 0.0469764337910874 ITVCTDAMDD 10 Unmodified _ITVCTDAMDD_ 0 0 0 REV__ENSG00000229937|ENST00000506618|PRPS1L1 REV__ENSG00000229937|ENST00000506618|PRPS1L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.2217407226562 2 542.220282 1082.42601 NaN NaN NaN NaN NaN NaN NaN 95.884 1 95.96 95.46 96.46 0.076538 0 0 0 0.99774 1 50806 50806 3.5965 1.019 1 + 11554 14572 7281 7302 13564 13564 -0.11190446638966023 ITVIRPLPQRT 11 Unmodified _ITVIRPLPQRT_ 0 0 0 REV__nc|ENSG00000095397|Q9P202-3|WHRN REV__nc|ENSG00000095397|Q9P202-3|WHRN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 647.3631591796875 2 647.403704 1292.79285 NaN NaN NaN NaN NaN NaN NaN 94.425 1 94.511 94.011 95.011 0.086212 0 0 0 1.0061 1 49675 49675 2.7352 1.0826 1 + 11555 10763 7282 7303 13565 13565 0.15817005030862674 ITVPRRPKAK 10 Unmodified _ITVPRRPKAK_ 0 0 0 ENST00000536130.1_1_12:123718068-123718410:+|nuORF ENST00000536130.1_1_12:123718068-123718410:+|nuORF ENST00000536130.1_1_12:123718068-123718410:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.3794555664062 2 583.380032 1164.74551 3.7961 0.0022146 -3.4018 -0.0019845 0.39431 0.00023003 583.3778451741474 40.376 0.042686 41.017 40.997 41.04 0.64136 5 3 2 0 0 0 0.85706 1 18459 18459 5.7319 1.4026 1 1438700 11556 8768 7283 7304 13566 13566 0.16972770550546556 ITWTYFFRRLI 11 Unmodified _ITWTYFFRRLI_ 0 0 0 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 758.4298706054688 2 758.427179 1514.8398 NaN NaN NaN NaN NaN NaN NaN 97.129 1 97.129 96.629 97.629 0 0 0 0 1.0057 1 52776 52776 3.2813 0.54611 1 11557 1798 7284 7305 13567 13567 0.10297864582025795 ITYLIFVYSLL 11 Unmodified _ITYLIFVYSLL_ 0 0 0 REV__ENSG00000181927|ENST00000641760|OR4P4 REV__ENSG00000181927|ENST00000641760|OR4P4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 673.1144409179688 2 672.894315 1343.77408 NaN NaN NaN NaN NaN NaN NaN 84.463 1 84.463 83.963 84.963 0 0 0 0 1.0059 1 42768 42768 2.9952 0.26005 1 + 11558 13866 7285 7306 13568 13568 0.11594030616493001 IVALEDIYESP 11 Unmodified _IVALEDIYESP_ 0 0 0 ENST00000487696.1_1_10:12391817-12708810:+|nuORF;CAMK1D|p.I213Nfs*11|1|0.18|ENSG00000183049|chr10:12791228-12791229|-/A|frameshift_variant;nc|ENSG00000183049|Q8IU85-2|CAMK1D;ENSG00000183049|ENST00000619168|CAMK1D ENST00000487696.1_1_10:12391817-12708810:+|nuORF ENST00000487696.1_1_10:12391817-12708810:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 624.7501220703125 2 624.821544 1247.62853 NaN NaN NaN NaN NaN NaN NaN 94.878 1 94.878 94.378 95.378 0 0 0 0 0.9645 1 50985 50985 10.074 2.1638 1 11559 99 7286 7307 13569 13569 0.014625230296360314 IVARGHVF 8 Unmodified _IVARGHVF_ 0 0 0 ENST00000372336.3_1_10:81145469-81145733:-|nuORF ENST00000372336.3_1_10:81145469-81145733:-|nuORF ENST00000372336.3_1_10:81145469-81145733:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 449.2784729003906 2 449.766512 897.518471 3.2889 0.0014792 2.5789 0.0011599 5.8677 0.0026391 449.7663821099271 91.26 0.13242 91.511 91.423 91.555 0.25163 5 4 2 0 0 0 0.14249 1 41940 41940 2.8892 0 1 169270 11560 7335 7287 7308 13570 13570 0.06561232062426825 IVARGHVF 8 Unmodified _IVARGHVF_ 0 0 0 ENST00000372336.3_1_10:81145469-81145733:-|nuORF ENST00000372336.3_1_10:81145469-81145733:-|nuORF ENST00000372336.3_1_10:81145469-81145733:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 449.766512 897.518471 3.2626 0.0014674 0.91859 0.00041315 4.1812 0.0018805 449.766340991785 90.857 0.33703 91.53 91.357 91.694 0.67271 0.0092784 -6.6095E-05 NaN 2.8892 24 20 2 NaN NaN NaN NaN 0 NaN NaN 0 191400 11561 7335 7287 7308 0.06561232062426825 IVASEIAYIV 10 Unmodified _IVASEIAYIV_ 0 0 0 REV__nc|ENSG00000007174|Q9NYC9-2|DNAH9 REV__nc|ENSG00000007174|Q9NYC9-2|DNAH9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.3148803710938 2 539.313158 1076.61176 NaN NaN NaN NaN NaN NaN NaN 96.932 1 96.932 96.432 97.432 0 0 0 0 0.96109 1 52601 52601 11.64 3.7301 1 + 11562 10198 7288 7309 13571 13571 0.07652066934338109 IVEPKPLEPG 10 Unmodified _IVEPKPLEPG_ 0 0 0 REV__ENSG00000278129|ENST00000621650|ZNF8 REV__ENSG00000278129|ENST00000621650|ZNF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.7758178710938 2 539.810782 1077.60701 NaN NaN NaN NaN NaN NaN NaN 94.754 1 94.836 94.336 95.336 0.082001 0 0 0 0.96627 1 49929 49929 10.824 0.64053 1 + 11563 14748 7289 7310 13572 13572 0.0713118279156788 IVFLAFKKI 9 Unmodified _IVFLAFKKI_ 0 0 0 ENST00000465541.1_1_13:51524391-51530607:+|nuORF ENST00000465541.1_1_13:51524391-51530607:+|nuORF ENST00000465541.1_1_13:51524391-51530607:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 360.23870849609375 3 360.238956 1077.69504 2.4764 0.00089208 -0.89542 -0.00032257 1.5809 0.00056951 360.2377469508184 28.929 0.35373 29.718 29.53 29.884 0.78921 74 27 4 0 0 0 1.1703 2 13001 13001;13050 1.1933 1.1933 1 849260 11564 8125 7290 7311 13573;13574 13573 0.15929848172845595 IVFRYYYVKLW 11 Unmodified _IVFRYYYVKLW_ 0 0 0 REV__ENST00000472871.1_1_13:95120883-95131509:-|nuORF REV__ENST00000472871.1_1_13:95120883-95131509:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 775.4318237304688 2 775.43193 1548.84931 NaN NaN NaN NaN NaN NaN NaN 84.979 1 85.226 84.726 85.726 0.24757 0 0 0 1.008 1 39108 39108 0.35063 0 1 + 11565 16619 7291 7312 13575 13575 0.096836328675181 IVILMRIVRKK 11 Unmodified _IVILMRIVRKK_ 0 0 0 REV__ENSG00000163394|ENST00000295589|CCKAR REV__ENSG00000163394|ENST00000295589|CCKAR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 684.9671020507812 2 684.965417 1367.91628 NaN NaN NaN NaN NaN NaN NaN 47.8 1 47.8 47.3 48.3 0 0 0 0 1.0071 1 21890 21890 1.4819 1.1313 1 + 11566 12985 7292 7313 13576 13576 0.24703964877653561 IVKERTVI 8 Unmodified _IVKERTVI_ 0 0 0 ENSG00000134115|ENST00000446702|CNTN6 ENSG00000134115|ENST00000446702|CNTN6 ENSG00000134115|ENST00000446702|CNTN6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 319.8752136230469 3 319.874565 956.601866 1.5713 0.00050262 0.64509 0.00020635 2.2164 0.00070897 319.8746369277833 12.524 0.11149 12.831 12.77 12.882 0.30727 6 3 2 0 0 0 0.60101 1 5670 5670 13.906 1.6654 1 1704000 11567 2786 7293 7314 13577 13577 0.12182923719592509 IVKERVEM 8 Unmodified _IVKERVEM_ 0 0 0 ENST00000354485.5_1_9:676972-730286:+|nuORF;ENST00000489369.5_1_9:676972-732786:+|nuORF;nc|ENSG00000107104|Q14678-2|KANK1;ENSG00000107104|ENST00000382297|KANK1 ENST00000354485.5_1_9:676972-730286:+|nuORF ENST00000354485.5_1_9:676972-730286:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.19195556640625 3 335.191677 1002.5532 NaN NaN NaN NaN NaN NaN NaN 18.369 1 18.67 18.17 19.17 0.30158 0 0 0 0.89651 1 8328 8328 9.3831 0 1 11568 1589 7294 7315 13578 13578 0.052026870882059484 IVKHIRKKQAK 11 Unmodified _IVKHIRKKQAK_ 0 0 0 ENSG00000179213|ENST00000601727|SIGLECL1 ENSG00000179213|ENST00000601727|SIGLECL1 ENSG00000179213|ENST00000601727|SIGLECL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 674.8783569335938 2 674.948613 1347.88267 NaN NaN NaN NaN NaN NaN NaN 15.001 1 15.227 14.727 15.727 0.22622 0 0 0 1.008 1 6604 6604 0.30703 0.30703 1 11569 5205 7295 7316 13579 13579 0.22264679430099932 IVKKILAKLKR 11 Unmodified _IVKKILAKLKR_ 0 0 0 ENSG00000198146|ENST00000356321|ZNF770 ENSG00000198146|ENST00000356321|ZNF770 ENSG00000198146|ENST00000356321|ZNF770 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 655.4718017578125 2 655.473932 1308.93331 NaN NaN NaN NaN NaN NaN NaN 26.17 1 26.943 26.443 27.443 0.77352 0 0 0 1.0082 1 11750 11750 0 0 1 11570 5869 7296 7317 13580 13580 0.29120208755102794 IVKKKKIVRI 10 Unmodified _IVKKKKIVRI_ 0 0 0 REV__ENSG00000088882|ENST00000380605|CPXM1 REV__ENSG00000088882|ENST00000380605|CPXM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 612.9923095703125 2 612.94755 1223.88055 NaN NaN NaN NaN NaN NaN NaN 92.247 1 92.247 91.747 92.747 0 0 0 0 1.0015 1 48968 48968 0.45834 0.45834 1 + 11571 10685 7297 7318 13581 13581 0.27756250692300455 IVKPKPRAL 9 Unmodified _IVKPKPRAL_ 0 0 0 ENSG00000101577|ENST00000677752|LPIN2 ENSG00000101577|ENST00000677752|LPIN2 ENSG00000101577|ENST00000677752|LPIN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 341.2346496582031 3 341.234205 1020.68079 2.52 0.00085989 -0.47399 -0.00016174 2.046 0.00069815 341.2341009952361 12.759 0.14526 12.759 12.66 12.806 0 14 8 2 0 0 0 0.020718 1 5558 5558 51.63 0 1 1817900 11572 1301 7298 7319 13582 13582 0.17127195744535584 IVKPKPRAL 9 Unmodified _IVKPKPRAL_ 0 0 0 ENSG00000101577|ENST00000677752|LPIN2 ENSG00000101577|ENST00000677752|LPIN2 ENSG00000101577|ENST00000677752|LPIN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.23468017578125 3 341.234205 1020.68079 1.7069 0.00058246 0.11732 4.0032E-05 1.8242 0.00062249 341.23412141936916 12.473 0.085861 12.78 12.733 12.819 0.30727 8 3 3 0 0 0 0.056465 1 5634 5634 47.749 0 1 3830100 11573 1301 7298 7319 13583 13583 0.17127195744535584 IVLLVLIVILV 11 Unmodified _IVLLVLIVILV_ 0 0 0 REV__ENSG00000185825|ENST00000345046|BCAP31 REV__ENSG00000185825|ENST00000345046|BCAP31 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 603.943115234375 2 603.943611 1205.87267 NaN NaN NaN NaN NaN NaN NaN 64.051 1 64.708 64.208 65.208 0.65672 0 0 0 1.0071 1 29356 29356 1.4819 0 1 + 11574 14031 7299 7320 13584 13584 0.27796678652157425 IVLRAYFRRRK 11 Unmodified _IVLRAYFRRRK_ 0 0 0 REV__ENST00000565493.1_1_20:34637734-34637854:-|nuORF REV__ENST00000565493.1_1_20:34637734-34637854:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 739.4682006835938 2 739.464961 1476.91537 NaN NaN NaN NaN NaN NaN NaN 49.308 1 49.308 48.808 49.808 0 0 0 0 1.0073 1 22578 22578 1.1933 0.84271 1 + 11575 17417 7300 7321 13585 13585 0.1959888655294435 IVLVLLGSRPE 11 Unmodified _IVLVLLGSRPE_ 0 0 0 REV__nc|ENSG00000154358|Q5VST9|OBSCN REV__nc|ENSG00000154358|Q5VST9|OBSCN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.25189208984375 3 399.251813 1194.73361 NaN NaN NaN NaN NaN NaN NaN 12.073 1 12.38 11.88 12.88 0.30727 0 0 0 1.0079 1 5427 5427 0.40827 0.13925 1 + 11576 12706 7301 7322 13586 13586 0.14403109016711824 IVMPRQKP 8 Unmodified _IVMPRQKP_ 0 0 0 ENST00000409514.5_2_2:233446641-233446863:+|nuORF ENST00000409514.5_2_2:233446641-233446863:+|nuORF ENST00000409514.5_2_2:233446641-233446863:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.52886962890625 3 323.528512 967.563706 2.2293 0.00072123 -1.0628 -0.00034385 1.1665 0.00037738 323.5281952343504 35.207 0.28232 35.83 35.681 35.964 0.62294 43 10 5 0 0 0 0.74071 1 16103 16103 1.6526 0.17072 1 30982000 11577 7662 7302 7323 13587 13587 0.07862714533291637 IVNKKTKSN 9 Unmodified _IVNKKTKSN_ 0 0 0 REV__ENSG00000137040|ENST00000259569|RANBP6 REV__ENSG00000137040|ENST00000259569|RANBP6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.3153686523438 2 516.314023 1030.61349 4.1887 0.0021627 -0.26822 -0.00013849 3.9205 0.0020242 516.3138673189935 95.689 0.60126 95.957 95.668 96.27 0.2675 127 33 5 0 0 0 1.2126 1 44029 44029 0.52476 0.52476 1 50338000 + 11578 12093 7303 7324 13588 13588 0.09941120742928433 IVNKLQHIWRK 11 Unmodified _IVNKLQHIWRK_ 0 0 0 REV__ENSG00000010671|ENST00000308731|BTK REV__ENSG00000010671|ENST00000308731|BTK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 717.9389038085938 2 717.938245 1433.86194 NaN NaN NaN NaN NaN NaN NaN 45.057 1 45.883 45.383 46.383 0.82621 0 0 0 1.008 1 20518 20518 0.30703 0.03801 1 + 11579 10229 7304 7325 13589 13589 0.16236089050426017 IVNSTPWTL 9 Unmodified _IVNSTPWTL_ 0 0 0 REV__ENSG00000182670|ENST00000418766|TTC3 REV__ENSG00000182670|ENST00000418766|TTC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.0344848632812 2 515.782025 1029.5495 NaN NaN NaN NaN NaN NaN NaN 25.741 1 26.009 25.509 26.509 0.26777 0 0 0 0.90699 1 11686 11686 1.8442 0 1 + 11580 13902 7305 7326 13590 13590 0.03590340585992635 IVPFFLLLLLV 11 Unmodified _IVPFFLLLLLV_ 0 0 0 REV__ENST00000479235.5_1_1:46093645-46093840:-|nuORF REV__ENST00000479235.5_1_1:46093645-46093840:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.5496826171875 2 643.927961 1285.84137 NaN NaN NaN NaN NaN NaN NaN 74.769 1 74.769 74.269 75.269 0 0 0 0 1.0071 1 36577 36577 1.4819 0 1 + 11581 16676 7306 7327 13591 13591 0.20988105618084774 IVPKKKKPLKL 11 Unmodified _IVPKKKKPLKL_ 0 0 0 ENSG00000104332|ENST00000220772|SFRP1 ENSG00000104332|ENST00000220772|SFRP1 ENSG00000104332|ENST00000220772|SFRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 646.4611206054688 2 646.463033 1290.91151 NaN NaN NaN NaN NaN NaN NaN 41.396 1 41.665 41.165 42.165 0.26958 0 0 0 1.0082 1 18855 18855 0 0 1 11582 1433 7307 7328 13592 13592 0.27769404006539844 IVQQPHSL 8 Unmodified _IVQQPHSL_ 0 0 0 REV__ENST00000477558.1_1_1:150049710-150054979:+|nuORF REV__ENST00000477558.1_1_1:150049710-150054979:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 307.8442687988281 3 307.843265 920.507966 2.0142 0.00062007 0.38889 0.00011972 2.4031 0.00073979 307.84342855894226 16.818 0.92547 17.123 16.49 17.415 0.30438 135 90 2 0 0 0 0.68261 1 7539 7539 7.2892 3.3448 1 125210 + 11583 16664 7308 7329 13593 13593 0.04453204617323081 IVRLRHMLIL 10 Unmodified _IVRLRHMLIL_ 0 0 0 REV__nc|ENSG00000132466|O75179-4|ANKRD17 REV__nc|ENSG00000132466|O75179-4|ANKRD17 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 632.4088745117188 2 632.407735 1262.80092 NaN NaN NaN NaN NaN NaN NaN 62.852 1 63.51 63.01 64.01 0.65808 0 0 0 1.0015 1 28802 28802 0.40072 0 1 + 11584 17942 7309 7330 13594 13594 0.18002860746651095 IVSRGVRRVR 10 Unmodified _IVSRGVRRVR_ 0 0 0 ENST00000327906.7_1_3:52445075-52445192:+|nuORF ENST00000327906.7_1_3:52445075-52445192:+|nuORF ENST00000327906.7_1_3:52445075-52445192:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.9267578125 3 399.926545 1196.75781 NaN NaN NaN NaN NaN NaN NaN 34.174 1 34.174 33.674 34.674 0 0 0 0 0.99812 1 15487 15487 1.5923 0.52082 1 11585 6968 7310 7331 13595 13595 0.16729807013575737 IVSSSIIGK 9 Unmodified _IVSSSIIGK_ 0 0 0 REV__ENST00000537553.5_1_12:30863433-30867904:-|nuORF REV__ENST00000537553.5_1_12:30863433-30867904:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 452.28131103515625 2 452.279118 902.543683 NaN NaN NaN NaN NaN NaN NaN 25.539 1 26.164 25.664 26.664 0.62505 0 0 0 0.90111 1 11704 11704 3.2813 0 1 + 11586 17188 7311 7332 13596 13596 0.08851242074331367 IVTFTTILRFL 11 Unmodified _IVTFTTILRFL_ 0 0 0 ENST00000357066.7_1_19:2072329-2072617:-|nuORF ENST00000357066.7_1_19:2072329-2072617:-|nuORF ENST00000357066.7_1_19:2072329-2072617:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.7075500488281 4 331.706329 1322.79621 2.3057 0.00076483 1.153 0.00038247 3.4588 0.0011473 331.70663074491216 55.754 0.32402 56.422 56.267 56.591 0.66798 31 11 4 0 0 0 0.91068 1 25433 25433 1.3296 0.87513 1 2053300 11587 7171 7312 7333 13597 13597 0.1477225508488118 IVTMDWWED 9 Unmodified _IVTMDWWED_ 0 0 0 ENSG00000138792|ENST00000265162|ENPEP ENSG00000138792|ENST00000265162|ENPEP ENSG00000138792|ENST00000265162|ENPEP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.75811767578125 3 398.842713 1193.50631 NaN NaN NaN NaN NaN NaN NaN 63.314 1 64.037 63.537 64.537 0.72236 0 0 0 0.90699 1 29648 29648 0.96228 0.50776 1 11588 3119 7313 7334 13598 13598 -0.0827021725360737 IVVLRGLPWL 10 Unmodified _IVVLRGLPWL_ 0 0 0 REV__ENST00000332598.6_1_5:177022592-177022790:+|nuORF REV__ENST00000332598.6_1_5:177022592-177022790:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 388.8863220214844 3 389.253376 1164.7383 2.44 0.00094976 2.0815 0.00081022 4.5214 0.00176 389.254268868306 44.044 0.45363 44.865 44.775 45.229 0.82074 38 26 2 0 0 0 0.12676 1 20139 20139 1.9064 0.1641 1 911730 + 11589 15386 7314 7335 13599 13599 0.16252037950107479 IVVLRGLPWL 10 Unmodified _IVVLRGLPWL_ 0 0 0 REV__ENST00000332598.6_1_5:177022592-177022790:+|nuORF REV__ENST00000332598.6_1_5:177022592-177022790:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 389.253376 1164.7383 2.5952 0.0010102 1.4057 0.00054717 4.0009 0.0015574 389.2538653048687 45.05 0.89295 45.05 44.601 45.494 0 0.09251 -0.00019661 NaN 1.9064 62 48 2 NaN NaN NaN NaN 0 NaN NaN 0 1104700 + 11590 15386 7314 7335 0.16252037950107479 IWDETPLYF 9 Unmodified _IWDETPLYF_ 0 0 0 nc|ENSG00000181019|P15559-3|NQO1;nc|ENSG00000181019|P15559-2|NQO1;ENSG00000181019|ENST00000320623|NQO1 nc|ENSG00000181019|P15559-3|NQO1 nc|ENSG00000181019|P15559-3|NQO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.2887573242188 2 592.28714 1182.55973 4.1181 0.0024391 -0.70528 -0.00041773 3.4129 0.0020214 592.2865792881448 91.5 0.39055 91.751 91.555 91.946 0.25163 58 18 4 0 0 0 0.0061269 3 42077 42037;42077;42121 89.427 62.543 1 2754900 11591 5276 7315 7336 13600;13601;13602 13601 -0.024250964794418906 IWDETPLYF 9 Unmodified _IWDETPLYF_ 0 0 0 nc|ENSG00000181019|P15559-3|NQO1;nc|ENSG00000181019|P15559-2|NQO1;ENSG00000181019|ENST00000320623|NQO1 nc|ENSG00000181019|P15559-3|NQO1 nc|ENSG00000181019|P15559-3|NQO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.2890625 2 592.28714 1182.55973 3.9964 0.002367 -1.0228 -0.00060576 2.9737 0.0017613 592.2864590884475 90.967 0.42358 91.63 91.405 91.829 0.66291 63 23 4 0 0 0 0.0061269 3 41871 41821;41871;41932 89.427 64.476 1 2129000 11592 5276 7315 7336 13603;13604;13605 13604 -0.024250964794418906 IWDLSITRL 9 Unmodified _IWDLSITRL_ 0 0 0 ENST00000333055.8_1_5:180235916-180242536:-|nuORF ENST00000333055.8_1_5:180235916-180242536:-|nuORF ENST00000333055.8_1_5:180235916-180242536:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.8251953125 2 558.824224 1115.63389 3.3545 0.0018746 0.72328 0.00040419 4.0778 0.0022788 558.8240948668123 79.544 0.24383 79.795 79.652 79.895 0.25127 25 12 3 0 0 0 0.10277 1 36621 36621 32.037 6.6382 1 588740 11593 7009 7316 7337 13606 13606 0.08070291402736984 IWDLSITRL 9 Unmodified _IWDLSITRL_ 0 0 0 ENST00000333055.8_1_5:180235916-180242536:-|nuORF ENST00000333055.8_1_5:180235916-180242536:-|nuORF ENST00000333055.8_1_5:180235916-180242536:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.8259887695312 2 558.824224 1115.63389 3.5483 0.0019829 0.61374 0.00034297 4.162 0.0023258 559.3258321527724 79.015 0.24646 79.676 79.512 79.758 0.66082 27 15 2 0 0 0 0.097139 2 36430 36374;36430 33.445 9.4243 1 403130 11594 7009 7316 7337 13607;13608 13608 0.08070291402736984 IWDVSVNSV 9 Unmodified _IWDVSVNSV_ 0 0 0 WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant;ENSG00000071127|ENST00000499869|WDR1;ENST00000506246.5_1_4:10086058-10094494:-|nuORF;ENST00000504739.5_1_4:10086058-10094651:-|nuORF;ENST00000515743.5_1_4:10078742-10093271:-|nuORF;ENST00000502962.5_1_4:10077004-10094774:-|nuORF;nc|ENSG00000071127|O75083-3|WDR1 WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.76605224609375 2 509.763832 1017.51311 3.6128 0.0018417 -0.35091 -0.00017888 3.2619 0.0016628 509.7635709488666 68.815 0.29782 69.07 68.927 69.225 0.25443 26 17 2 0 0 0 0.11001 2 31523 31523;31571 30.225 13.283 1 431250 11595 776 7317 7338 13609;13610 13609 0.005054636892964481 IWDVSVNSV 9 Unmodified _IWDVSVNSV_ 0 0 0 WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant;ENSG00000071127|ENST00000499869|WDR1;ENST00000506246.5_1_4:10086058-10094494:-|nuORF;ENST00000504739.5_1_4:10086058-10094651:-|nuORF;ENST00000515743.5_1_4:10078742-10093271:-|nuORF;ENST00000502962.5_1_4:10077004-10094774:-|nuORF;nc|ENSG00000071127|O75083-3|WDR1 WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 509.763832 1017.51311 3.1881 0.0016252 -0.15137 -7.7164E-05 3.0367 0.001548 509.76372127734476 68.309 0.23919 68.968 68.846 69.086 0.65924 -0.050811 9.2995E-05 NaN 30.225 22 14 2 NaN NaN NaN NaN 0 NaN NaN 0 400430 11596 776 7317 7338 0.005054636892964481 IWFMKLIIVLV 11 Unmodified _IWFMKLIIVLV_ 0 0 0 REV__ENSG00000115602|ENST00000233954|IL1RL1 REV__ENSG00000115602|ENST00000233954|IL1RL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 687.93603515625 2 687.93272 1373.85089 NaN NaN NaN NaN NaN NaN NaN 30.503 1 30.503 30.003 31.003 0 0 0 0 1.0082 1 13780 13780 0 0 1 + 11597 11376 7318 7339 13611 13611 0.17891550631952668 IWGVMWGWRH 10 Unmodified _IWGVMWGWRH_ 0 0 0 REV__ENST00000522958.5_1_5:179046175-179048291:-|nuORF REV__ENST00000522958.5_1_5:179046175-179048291:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 664.3297729492188 2 664.329485 1326.64442 NaN NaN NaN NaN NaN NaN NaN 25.661 1 25.929 25.429 26.429 0.26777 0 0 0 1.0015 1 11648 11648 0.45834 0 1 + 11598 17059 7319 7340 13612 13612 -0.005840044238084374 IWHHTFYNELR 11 Unmodified _IWHHTFYNELR_ 0 0 0 ENSG00000159251|ENST00000290378|ACTC1;ENSG00000143632|ENST00000366684|ACTA1;nc|ENSG00000204434|Q9BYX7|POTEKP;ENST00000397487.3_1_2:132383579-132384836:+|nuORF;ENST00000441772.1_1_11:1824983-1825307:-|nuORF;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF;ENSG00000188219|ENST00000683005|POTEE;ENSG00000196834|ENST00000451531|POTEI;ENSG00000222038|ENST00000409602|POTEJ ENSG00000159251|ENST00000290378|ACTC1;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.9215393066406 3 505.921237 1514.74188 3.2305 0.0016344 0.61671 0.00031201 3.8472 0.0019464 505.9210056556842 36.435 0.17472 36.692 36.599 36.774 0.25768 9 6 2 0 0 0 0.13281 1 16612 16612 25.438 21.592 1 209960 11599 832;5762;3384 7320 7341 13613 13613 0.005100559860466092 IWHHTFYNELR 11 Unmodified _IWHHTFYNELR_ 0 0 0 ENSG00000159251|ENST00000290378|ACTC1;ENSG00000143632|ENST00000366684|ACTA1;nc|ENSG00000204434|Q9BYX7|POTEKP;ENST00000397487.3_1_2:132383579-132384836:+|nuORF;ENST00000441772.1_1_11:1824983-1825307:-|nuORF;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF;ENSG00000188219|ENST00000683005|POTEE;ENSG00000196834|ENST00000451531|POTEI;ENSG00000222038|ENST00000409602|POTEJ ENSG00000159251|ENST00000290378|ACTC1;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 505.921237 1514.74188 3.3582 0.001699 0.30553 0.00015458 3.6637 0.0018536 505.92134957052724 35.906 0.1069 36.532 36.434 36.541 0.62631 -0.080005 -0.00022481 NaN 25.438 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 379970 11600 832;5762;3384 7320 7341 0.005100559860466092 IWILKNFRQH 10 Unmodified _IWILKNFRQH_ 0 0 0 REV__ENST00000474457.1_1_6:52958219-52962625:+|nuORF REV__ENST00000474457.1_1_6:52958219-52962625:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 339.4493713378906 4 339.44902 1353.76697 1.9172 0.0006508 -0.24235 -8.2264E-05 1.6749 0.00056854 339.44896931982976 61.062 0.3185 61.802 61.652 61.971 0.7396 65 40 3 0 0 0 0.94099 1 28250 28250 0.69767 0.19171 1 5097200 + 11601 11261 7321 7342 13614 13614 0.1042415557926688 IWILKNFRQH 10 Unmodified _IWILKNFRQH_ 0 0 0 REV__ENST00000474457.1_1_6:52958219-52962625:+|nuORF REV__ENST00000474457.1_1_6:52958219-52962625:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.44964599609375 4 339.44902 1353.76697 2.4485 0.00083113 0.38687 0.00013132 2.8353 0.00096245 339.4490652907489 61.851 0.78822 62.103 61.718 62.506 0.25245 139 39 4 0 0 0 0.94099 1 28259 28259 0.69767 0.19171 1 11195000 + 11602 11261 7321 7342 13615 13615 0.1042415557926688 IWILKNFRQH 10 Unmodified _IWILKNFRQH_ 0 0 0 REV__ENST00000474457.1_1_6:52958219-52962625:+|nuORF REV__ENST00000474457.1_1_6:52958219-52962625:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.4501647949219 4 339.44902 1353.76697 2.6442 0.00089758 -0.17697 -6.0073E-05 2.4673 0.00083751 339.44890316869265 66.707 0.44637 66.957 66.831 67.277 0.2501 60 25 3 0 0 0 0.93584 1 30534 30534 1.7423 0.52744 1 1287200 + 11603 11261 7321 7342 13616 13616 0.1042415557926688 IWILKNFRQH 10 Unmodified _IWILKNFRQH_ 0 0 0 REV__ENST00000474457.1_1_6:52958219-52962625:+|nuORF REV__ENST00000474457.1_1_6:52958219-52962625:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.44989013671875 4 339.44902 1353.76697 2.2685 0.00077006 0.367 0.00012458 2.6355 0.00089463 339.4490763199633 61.292 0.73948 61.955 61.548 62.287 0.66261 144 37 4 0 0 0 0.94099 1 27992 27992 0.69767 0.19171 1 16593000 + 11604 11261 7321 7342 13617 13617 0.1042415557926688 IWILLKINH 9 Unmodified _IWILLKINH_ 0 0 0 FIP1L1|p.D156Efs*50|1|0.33|ENSG00000145216|chr4:53390587-53390588|-/AG|frameshift_variant FIP1L1|p.D156Efs*50|1|0.33|ENSG00000145216|chr4:53390587-53390588|-/AG|frameshift_variant FIP1L1|p.D156Efs*50|1|0.33|ENSG00000145216|chr4:53390587-53390588|-/AG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 383.910888671875 3 383.90961 1148.707 2.0983 0.00080556 1.7361 0.00066651 3.8344 0.0014721 383.90993720280716 71.811 0.26579 71.811 71.735 72 0 38 26 2 0 0 0 0.94779 1 34954 34954 4.897 2.3985 1 831990 11605 9360 7322 7343 13618 13618 0.1385946491602681 IWILLKINH 9 Unmodified _IWILLKINH_ 0 0 0 FIP1L1|p.D156Efs*50|1|0.33|ENSG00000145216|chr4:53390587-53390588|-/AG|frameshift_variant FIP1L1|p.D156Efs*50|1|0.33|ENSG00000145216|chr4:53390587-53390588|-/AG|frameshift_variant FIP1L1|p.D156Efs*50|1|0.33|ENSG00000145216|chr4:53390587-53390588|-/AG|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 383.90961 1148.707 1.9661 0.00075482 0.91218 0.00035019 2.8783 0.001105 383.9100656051951 71.247 0.22381 71.951 71.817 72.041 0.70387 0.059661 -1.0213E-06 NaN 4.897 40 25 2 NaN NaN NaN NaN 0 NaN NaN 0 1018000 11606 9360 7322 7343 0.1385946491602681 IWILLKINH 9 Unmodified _IWILLKINH_ 0 0 0 FIP1L1|p.D156Efs*50|1|0.33|ENSG00000145216|chr4:53390587-53390588|-/AG|frameshift_variant FIP1L1|p.D156Efs*50|1|0.33|ENSG00000145216|chr4:53390587-53390588|-/AG|frameshift_variant FIP1L1|p.D156Efs*50|1|0.33|ENSG00000145216|chr4:53390587-53390588|-/AG|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 383.90961 1148.707 2.5923 0.00099521 0.20487 7.8651E-05 2.7972 0.0010739 383.9095368653817 71.655 0.14085 71.913 71.877 72.017 0.25785 0.021221 -0.00081565 NaN 4.897 25 21 2 NaN NaN NaN NaN 0 NaN NaN 0 2239100 11607 9360 7322 7343 0.1385946491602681 IWIMWKKRKV 10 Unmodified _IWIMWKKRKV_ 0 0 0 REV__TM9SF3|p.R249Kfs*19|1|0.08|ENSG00000077147|chr10:96552971-96552974|TTTC/-|frameshift_variant REV__TM9SF3|p.R249Kfs*19|1|0.08|ENSG00000077147|chr10:96552971-96552974|TTTC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 694.4256591796875 2 694.423385 1386.83222 4.5189 0.003138 -1.1862 -0.00082373 3.3327 0.0023143 694.4224355355126 95.37 0.63596 95.637 95.337 95.973 0.26751 78 39 3 0 0 0 0.94217 1 43833 43833 0.45834 0 1 672130 + 11608 18237 7323 7344 13619 13619 0.1542743378074647 IWINYLKDI 9 Unmodified _IWINYLKDI_ 0 0 0 REV__ENST00000486964.5_1_2:86305209-86332944:-|nuORF REV__ENST00000486964.5_1_2:86305209-86332944:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 393.2266540527344 3 393.225375 1176.6543 NaN NaN NaN NaN NaN NaN NaN 103.2 1 103.25 102.75 103.75 0.055092 0 0 0 0.8984 1 55971 55971 2.2828 0.69049 1 + 11609 10463 7324 7345 13620 13620 0.07303462062577637 IWKIKKLI 8 Unmodified _IWKIKKLI_ 0 0 0 ENST00000499810.6_1_5:137878520-137878607:-|nuORF;ENST00000507939.5_3_5:137865363-137878607:-|nuORF;ENSG00000120705|ENST00000360541|ETF1 ENST00000499810.6_1_5:137878520-137878607:-|nuORF ENST00000499810.6_1_5:137878520-137878607:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1042.728515625 1 1041.7183 1040.71102 3.2857 0.0034228 2.1695 0.00226 5.4553 0.0056829 1041.720138864251 45.283 0.066528 45.283 45.241 45.308 0 5 3 2 0 0 0 0.7471 1 20714 20714 0 0 1 1168500 11610 2209 7325 7346 13621 13621 0.1922955440975329 IWKIKKLI 8 Unmodified _IWKIKKLI_ 0 0 0 ENST00000499810.6_1_5:137878520-137878607:-|nuORF;ENST00000507939.5_3_5:137865363-137878607:-|nuORF;ENSG00000120705|ENST00000360541|ETF1 ENST00000499810.6_1_5:137878520-137878607:-|nuORF ENST00000499810.6_1_5:137878520-137878607:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.364990234375 2 521.362788 1040.71102 NaN NaN NaN NaN NaN NaN NaN 46.817 1 47.646 47.146 48.146 0.82915 0 0 0 0.99035 1 21329 21329 0 0 1 11611 2209 7325 7346 13622 13622 0.1922955440975329 IWLESKLHK 9 Unmodified _IWLESKLHK_ 0 0 0 REV__ENST00000471834.1_1_6:152657861-152688565:-|nuORF REV__ENST00000471834.1_1_6:152657861-152688565:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 385.1535339355469 3 385.229119 1152.66553 2.3601 0.00090918 0.75666 0.00029149 3.1168 0.0012007 385.56363960681364 70.213 0.24568 70.873 70.724 70.969 0.66071 20 14 2 0 0 0 0.11316 1 32143 32143 2.2828 1.6559 1 481950 + 11612 11842 7326 7347 13623 13623 0.09530284156699054 IWLESKLHK 9 Unmodified _IWLESKLHK_ 0 0 0 REV__ENST00000471834.1_1_6:152657861-152688565:-|nuORF REV__ENST00000471834.1_1_6:152657861-152688565:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 385.229119 1152.66553 2.6798 0.0010323 0.68745 0.00026483 3.3672 0.0012972 385.5638081669202 70.539 0.33095 70.796 70.736 71.067 0.25642 -0.038766 -4.6365E-05 NaN 2.2828 26 17 2 NaN NaN NaN NaN 0 NaN NaN 0 367720 + 11613 11842 7326 7347 0.09530284156699054 IWLKRNVP 8 Unmodified _IWLKRNVP_ 0 0 0 REV__nc|ENSG00000168386|Q4L180-2|FILIP1L REV__nc|ENSG00000168386|Q4L180-2|FILIP1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 342.8831481933594 3 342.546671 1024.61818 2.736 0.00093721 1.5886 0.00054418 4.3246 0.0014814 342.5469979289512 53.651 0.3464 53.651 53.417 53.763 0 33 24 2 0 0 0 0.68959 1 24600 24600 6.7232 1.8262 1 1529000 + 11614 13346 7327 7348 13624 13624 0.10686049676360199 IWLKRNVP 8 Unmodified _IWLKRNVP_ 0 0 0 REV__nc|ENSG00000168386|Q4L180-2|FILIP1L REV__nc|ENSG00000168386|Q4L180-2|FILIP1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 342.5475769042969 3 342.546671 1024.61818 2.3654 0.00081027 1.0092 0.00034568 3.3746 0.001156 342.54684477778596 55.441 0.36839 55.441 55.261 55.63 0 48 28 2 0 0 0 0.72814 1 25516 25516 3.5965 0.8613 1 2359900 + 11615 13346 7327 7348 13625 13625 0.10686049676360199 IWLKRNVP 8 Unmodified _IWLKRNVP_ 0 0 0 REV__nc|ENSG00000168386|Q4L180-2|FILIP1L REV__nc|ENSG00000168386|Q4L180-2|FILIP1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 342.88214111328125 3 342.546671 1024.61818 2.4545 0.00084077 1.3902 0.00047621 3.8447 0.001317 342.5470425880927 57.644 0.17232 57.644 57.591 57.764 0 25 17 2 0 0 0 0.72814 2 26586 26586;26591 3.5965 1.098 1 594770 + 11616 13346 7327 7348 13626;13627 13626 0.10686049676360199 IWLKRNVP 8 Unmodified _IWLKRNVP_ 0 0 0 REV__nc|ENSG00000168386|Q4L180-2|FILIP1L REV__nc|ENSG00000168386|Q4L180-2|FILIP1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 342.54779052734375 3 342.546671 1024.61818 NaN NaN NaN NaN NaN NaN NaN 46.42 1 46.42 45.92 46.92 0 0 0 0 0.99035 1 21247 21247 3.5965 0.31518 1 + 11617 13346 7327 7348 13628 13628 0.10686049676360199 IWLKRNVP 8 Unmodified _IWLKRNVP_ 0 0 0 REV__nc|ENSG00000168386|Q4L180-2|FILIP1L REV__nc|ENSG00000168386|Q4L180-2|FILIP1L MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 342.88214111328125 3 342.546671 1024.61818 2.4545 0.00084077 1.3902 0.00047621 3.8447 0.001317 342.5470425880927 57.644 0.17232 57.644 57.591 57.764 0 25 17 2 0 0 0 0.14146 1 26586 26586 3.5965 0.8613 1 594770 + 11618 13346 7327 7348 13629 13629 0.10686049676360199 IWLKRNVP 8 Unmodified _IWLKRNVP_ 0 0 0 REV__nc|ENSG00000168386|Q4L180-2|FILIP1L REV__nc|ENSG00000168386|Q4L180-2|FILIP1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.5480651855469 3 342.546671 1024.61818 2.2444 0.0007688 1.6853 0.00057728 3.9296 0.0013461 342.54721360545614 42.113 0.11824 42.921 42.831 42.949 0.80855 10 7 2 0 0 0 0.72814 1 19132 19132 3.5965 0.31518 1 1303600 + 11619 13346 7327 7348 13630 13630 0.10686049676360199 IWLKRNVP 8 Unmodified _IWLKRNVP_ 0 0 0 REV__nc|ENSG00000168386|Q4L180-2|FILIP1L REV__nc|ENSG00000168386|Q4L180-2|FILIP1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.5474853515625 3 342.546671 1024.61818 NaN NaN NaN NaN NaN NaN NaN 52.857 1 53.661 53.161 54.161 0.80351 0 0 0 0.99035 1 24087 24087 6.2058 1.7996 1 + 11620 13346 7327 7348 13631 13631 0.10686049676360199 IWLKRNVP 8 Unmodified _IWLKRNVP_ 0 0 0 REV__nc|ENSG00000168386|Q4L180-2|FILIP1L REV__nc|ENSG00000168386|Q4L180-2|FILIP1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 342.5475158691406 3 342.546671 1024.61818 2.2638 0.00077547 1.3897 0.00047602 3.6535 0.0012515 342.5470896492724 54.469 0.59784 55.135 54.649 55.247 0.6665 49 38 2 0 0 0 0.69597 2 24917 24860;24917 6.2058 3.4706 1 2665400 + 11621 13346 7327 7348 13632;13633 13633 0.10686049676360199 IWLKRNVP 8 Unmodified _IWLKRNVP_ 0 0 0 REV__nc|ENSG00000168386|Q4L180-2|FILIP1L REV__nc|ENSG00000168386|Q4L180-2|FILIP1L MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 342.546671 1024.61818 2.736 0.00093721 1.5886 0.00054418 4.3246 0.0014814 342.5469979289512 53.651 0.3464 53.651 53.417 53.763 0 0.11353 -0.00018987 NaN 6.7232 33 24 2 NaN NaN NaN NaN 0 NaN NaN 0 1529000 + 11622 13346 7327 7348 0.10686049676360199 IWLKRNVP 8 Unmodified _IWLKRNVP_ 0 0 0 REV__nc|ENSG00000168386|Q4L180-2|FILIP1L REV__nc|ENSG00000168386|Q4L180-2|FILIP1L MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 342.546671 1024.61818 2.2444 0.0007688 1.6853 0.00057728 3.9296 0.0013461 342.54721360545614 42.113 0.11824 42.921 42.831 42.949 0.80855 -0.052648 0.00056582 NaN 3.5965 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 1303600 + 11623 13346 7327 7348 0.10686049676360199 IWLKRNVP 8 Unmodified _IWLKRNVP_ 0 0 0 REV__nc|ENSG00000168386|Q4L180-2|FILIP1L REV__nc|ENSG00000168386|Q4L180-2|FILIP1L MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 342.546671 1024.61818 2.0819 0.00071316 1.2877 0.00044109 3.3696 0.0011543 342.54702422488594 56.894 0.19422 57.672 57.59 57.784 0.77786 0.013887 -6.2607E-05 NaN 3.5965 26 19 2 NaN NaN NaN NaN 0 NaN NaN 0 418380 + 11624 13346 7327 7348 0.10686049676360199 IWLKRNVP 8 Unmodified _IWLKRNVP_ 0 0 0 REV__nc|ENSG00000168386|Q4L180-2|FILIP1L REV__nc|ENSG00000168386|Q4L180-2|FILIP1L MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 342.546671 1024.61818 1.9547 0.00066956 1.8782 0.00064337 3.8329 0.0013129 342.5471738293401 54.716 0.64907 55.511 55.277 55.926 0.79552 0.14879 0.00046632 NaN 6.2058 65 42 3 NaN NaN NaN NaN 0 NaN NaN 0 1454800 + 11625 13346 7327 7348 0.10686049676360199 IWLKRNVP 8 Unmodified _IWLKRNVP_ 0 0 0 REV__nc|ENSG00000168386|Q4L180-2|FILIP1L REV__nc|ENSG00000168386|Q4L180-2|FILIP1L MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 342.546671 1024.61818 2.535 0.00086834 0.60789 0.00020823 3.1429 0.0010766 342.5467740951946 42.756 0.15352 43.027 42.891 43.044 0.27021 0.052648 -0.00054133 NaN 3.5965 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 3604400 + 11626 13346 7327 7348 0.10686049676360199 IWLKRNVP 8 Unmodified _IWLKRNVP_ 0 0 0 REV__nc|ENSG00000168386|Q4L180-2|FILIP1L REV__nc|ENSG00000168386|Q4L180-2|FILIP1L MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 342.546671 1024.61818 2.2638 0.00077547 1.3897 0.00047602 3.6535 0.0012515 342.5470896492724 54.469 0.59784 55.135 54.649 55.247 0.6665 -0.22718 -3.5726E-05 NaN 6.2058 49 38 2 NaN NaN NaN NaN 0 NaN NaN 0 2665400 + 11627 13346 7327 7348 0.10686049676360199 IWLKRNVP 8 Unmodified _IWLKRNVP_ 0 0 0 REV__nc|ENSG00000168386|Q4L180-2|FILIP1L REV__nc|ENSG00000168386|Q4L180-2|FILIP1L MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 342.546671 1024.61818 2.1884 0.00074963 1.8394 0.00063006 4.0278 0.0013797 342.54722502043865 52.762 0.58902 53.424 53.049 53.638 0.66198 -0.11353 6.7801E-05 NaN 6.7232 46 32 2 NaN NaN NaN NaN 0 NaN NaN 0 2049900 + 11628 13346 7327 7348 0.10686049676360199 IWLKTLLRFL 10 Unmodified _IWLKTLLRFL_ 0 0 0 REV__nc|ENSG00000175221|Q9Y2X0-2|MED16 REV__nc|ENSG00000175221|Q9Y2X0-2|MED16 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.9488220214844 3 434.948064 1301.82236 NaN NaN NaN NaN NaN NaN NaN 65.02 1 65.02 64.52 65.52 0 0 0 0 0.99995 1 30904 30904 1.7423 0 1 + 11629 13667 7328 7349 13634 13634 0.18352569047033285 IWLKTLLRFL 10 Unmodified _IWLKTLLRFL_ 0 0 0 REV__nc|ENSG00000175221|Q9Y2X0-2|MED16 REV__nc|ENSG00000175221|Q9Y2X0-2|MED16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.9501647949219 3 434.948064 1301.82236 3.7257 0.0016205 0.44854 0.00019509 4.1743 0.0018156 434.948261889315 109.75 1.8294 110.06 108.47 110.3 0.31015 170 76 3 0 0 0 0.94364 6 50473 50372;50473;50522;50571;50625;50682 0.15932 0 1 296160 + 11630 13667 7328 7349 13635;13636;13637;13638;13639;13640 13636 0.18352569047033285 IWLKVYSITKS 11 Unmodified _IWLKVYSITKS_ 0 0 0 ENST00000524753.4_1_11:18369576-18369654:+|nuORF ENST00000524753.4_1_11:18369576-18369654:+|nuORF ENST00000524753.4_1_11:18369576-18369654:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.2017822265625 4 335.201145 1336.77547 2.2155 0.00074263 1.1138 0.00037335 3.3293 0.001116 335.2014792542809 54.535 0.73399 55.202 54.824 55.558 0.6665 70 51 2 0 0 0 0.89988 1 24952 24952 2.4348 1.7371 1 3594200 11631 8666 7329 7350 13641 13641 0.12055664705212621 IWLKVYSITKS 11 Unmodified _IWLKVYSITKS_ 0 0 0 ENST00000524753.4_1_11:18369576-18369654:+|nuORF ENST00000524753.4_1_11:18369576-18369654:+|nuORF ENST00000524753.4_1_11:18369576-18369654:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 335.201145 1336.77547 2.1812 0.00073112 1.1343 0.00038022 3.3155 0.0011113 335.4522526703953 55.255 0.30648 55.521 55.357 55.663 0.26543 0.15944 1.8201E-05 NaN 2.4348 27 18 2 NaN NaN NaN NaN 0 NaN NaN 0 2534300 11632 8666 7329 7350 0.12055664705212621 IWLLWGLVF 9 Unmodified _IWLLWGLVF_ 0 0 0 GRIN2A|p.F847Lfs*30|1|0.22|ENSG00000183454|chr16:9768906-9768907|AA/-|frameshift_variant;GRIN2A|p.C848Mfs*30|1|0.22|ENSG00000183454|chr16:9768904-9768905|-/T|frameshift_variant;nc|ENSG00000183454|Q12879-2|GRIN2A;GRIN2A|p.S1341Afs*56|1|0.34|ENSG00000183454|chr16:9763523-9763523|T/-|frameshift_variant;ENSG00000183454|ENST00000330684|GRIN2A;ENSG00000273079|ENST00000609686|GRIN2B GRIN2A|p.F847Lfs*30|1|0.22|ENSG00000183454|chr16:9768906-9768907|AA/-|frameshift_variant GRIN2A|p.F847Lfs*30|1|0.22|ENSG00000183454|chr16:9768906-9768907|AA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.8383178710938 2 573.839146 1145.66374 NaN NaN NaN NaN NaN NaN NaN 41.279 1 42.083 41.583 42.583 0.80351 0 0 0 0.44891 1 18727 18727 20.871 0.45668 1 11633 5382 7330 7351 13642 13642 0.0967327513874352 IWLWWLWWHLH 11 Unmodified _IWLWWLWWHLH_ 0 0 0 REV__ENST00000361229.8_1_X:101976007-102003782:+|nuORF REV__ENST00000361229.8_1_X:101976007-102003782:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 838.4369506835938 2 838.437881 1674.86121 NaN NaN NaN NaN NaN NaN NaN 71.433 1 72.137 71.637 72.637 0.70386 0 0 0 1.0082 1 34304 34304 0 0 1 + 11634 15622 7331 7352 13643 13643 0.05077294401394283 IWNSQYPKF 9 Unmodified _IWNSQYPKF_ 0 0 0 REV__ENST00000569691.1_1_15:55710632-55710698:+|nuORF REV__ENST00000569691.1_1_15:55710632-55710698:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.86962890625 3 394.869591 1181.58694 2.7253 0.0010762 0.31651 0.00012498 3.0418 0.0012011 394.8696398617268 22.469 0.18905 22.469 22.321 22.51 0 30 13 4 0 0 0 0.98958 1 10033 10033 4.1895 0 1 536670 + 11635 17440 7332 7353 13644 13644 0.0034143185159791756 IWPALFQRL 9 Unmodified _IWPALFQRL_ 0 0 0 REV__nc|ENSG00000168610|P40763-3|STAT3 REV__nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.3387451171875 2 572.337301 1142.66005 3.6226 0.0020733 -0.7076 -0.00040498 2.915 0.0016683 572.3369277595365 47.103 0.30588 47.367 47.214 47.52 0.26363 23 11 3 0 0 0 1.1154 1 21581 21581 2.0598 0.21551 1 889180 + 11636 13357 7333 7354 13645 13645 0.09442605364893097 IWPKKGTAVF 10 Unmodified _IWPKKGTAVF_ 0 0 0 nc|ENSG00000072682|O15460|P4HA2;ENSG00000072682|ENST00000360568|P4HA2 nc|ENSG00000072682|O15460|P4HA2 nc|ENSG00000072682|O15460|P4HA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.3402099609375 2 573.837134 1145.65972 3.5096 0.0020139 0.31995 0.0001836 3.8295 0.0021975 573.8372505590868 42.488 0.65795 42.488 42.352 43.01 0 67 41 2 0 0 0 0.25519 3 19529 19316;19457;19529 32.786 13.993 1 1318000 11637 795 7334 7355 13646;13647;13648 13648 0.09271185645025071 IWPKKGTAVF 10 Unmodified _IWPKKGTAVF_ 0 0 0 nc|ENSG00000072682|O15460|P4HA2;ENSG00000072682|ENST00000360568|P4HA2 nc|ENSG00000072682|O15460|P4HA2 nc|ENSG00000072682|O15460|P4HA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.8374633789062 2 573.837134 1145.65972 NaN NaN NaN NaN NaN NaN NaN 41.716 1 42.524 42.024 43.024 0.80855 0 0 0 0.88692 1 18934 18934 20.415 4.5674 1 11638 795 7334 7355 13649 13649 0.09271185645025071 IWPKKGTAVF 10 Unmodified _IWPKKGTAVF_ 0 0 0 nc|ENSG00000072682|O15460|P4HA2;ENSG00000072682|ENST00000360568|P4HA2 nc|ENSG00000072682|O15460|P4HA2 nc|ENSG00000072682|O15460|P4HA2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 573.837134 1145.65972 3.4444 0.0019765 0.87548 0.00050238 4.3199 0.0024789 574.3387999202511 41.971 0.17667 42.78 42.684 42.861 0.80855 0.14615 0.00057854 NaN 32.786 13 10 2 NaN NaN NaN NaN 0 NaN NaN 0 1378000 11639 795 7334 7355 0.09271185645025071 IWPKKGTAVFW 11 Unmodified _IWPKKGTAVFW_ 0 0 0 nc|ENSG00000072682|O15460|P4HA2;ENSG00000072682|ENST00000360568|P4HA2 nc|ENSG00000072682|O15460|P4HA2 nc|ENSG00000072682|O15460|P4HA2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 444.72039794921875 3 444.920286 1331.73903 2.4821 0.0011043 0.34732 0.00015453 2.8294 0.0012589 445.25476049711887 58.378 0.36523 59.137 59.002 59.368 0.75894 35 29 2 0 0 0 0.13295 1 26722 26722 0.073264 0 1 1026500 11640 795 7335 7356 13650 13650 0.0864283259916192 IWRQYLYIFFV 11 Unmodified _IWRQYLYIFFV_ 0 0 0 REV__ENST00000586915.1_1_19:45495538-45496152:+|nuORF REV__ENST00000586915.1_1_19:45495538-45496152:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 774.421630859375 2 774.424105 1546.83366 NaN NaN NaN NaN NaN NaN NaN 95.232 1 95.499 94.999 95.999 0.2675 0 0 0 1.008 1 43757 43757 0.35063 0.043601 1 + 11641 11003 7336 7357 13651 13651 0.08211346350481108 IWRRRRKMRRR 11 Unmodified _IWRRRRKMRRR_ 0 0 0 REV__ENST00000257749.8_2_6:90661229-90661412:-|nuORF REV__ENST00000257749.8_2_6:90661229-90661412:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 835.5131225585938 2 835.51586 1669.01717 NaN NaN NaN NaN NaN NaN NaN 104.41 1 104.41 103.91 104.91 0 0 0 0 1.0082 1 57460 57460 0 0 1 + 11642 14942 7337 7358 13652 13652 0.20941854423722361 IWRRVRKKFFQ 11 Unmodified _IWRRVRKKFFQ_ 0 0 0 REV__ENSG00000118515|ENST00000367858|SGK1 REV__ENSG00000118515|ENST00000367858|SGK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 782.474853515625 2 782.472786 1562.93102 NaN NaN NaN NaN NaN NaN NaN 75.374 1 75.374 74.874 75.874 0 0 0 0 1.0082 1 36933 36933 0.30703 0.30703 1 + 11643 11474 7338 7359 13653 13653 0.1720717307000541 IWTAALLR 8 Unmodified _IWTAALLR_ 0 0 0 ENST00000413368.5_1_7:1126798-1127904:+|nuORF ENST00000413368.5_1_7:1126798-1127904:+|nuORF ENST00000413368.5_1_7:1126798-1127904:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.3135070800781 2 472.28982 942.565087 NaN NaN NaN NaN NaN NaN NaN 103.08 1 103.4 102.9 103.9 0.31863 0 0 0 0.99035 1 47667 47667 2.5775 0 1 11644 7690 7339 7360 13654 13654 0.0915067189371257 IWVRWYSHWWM 11 Unmodified _IWVRWYSHWWM_ 0 0 0 REV__ENST00000295992.7_1_3:142606565-142606607:-|nuORF REV__ENST00000295992.7_1_3:142606565-142606607:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.599609375 3 550.599329 1648.77616 NaN NaN NaN NaN NaN NaN NaN 92.486 1 92.486 91.986 92.986 0 0 0 0 1.008 1 49155 49155 0.094841 0 1 + 11645 15146 7340 7361 13655 13655 -0.02227819126733266 IWWRKMPKEKL 11 Unmodified _IWWRKMPKEKL_ 0 0 0 REV__ENST00000375400.7_1_10:29975496-29975577:-|nuORF REV__ENST00000375400.7_1_10:29975496-29975577:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.62841796875 3 505.626997 1513.85916 4.063 0.0020544 -0.64196 -0.00032459 3.4211 0.0017298 505.62673170777003 109.62 1.2052 109.93 109.1 110.3 0.31015 77 47 2 0 0 0 0.91403 1 50590 50590 0.073264 0.073264 1 222510 + 11646 15802 7341 7362 13656 13656 0.12278497601255367 IWYMMWKVYE 10 Unmodified _IWYMMWKVYE_ 0 0 0 REV__nc|ENSG00000132563|Q9BRK0|REEP2 REV__nc|ENSG00000132563|Q9BRK0|REEP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 724.8426513671875 2 724.840702 1447.66685 NaN NaN NaN NaN NaN NaN NaN 20.971 1 21.625 21.125 22.125 0.65346 0 0 0 1.0015 1 9518 9518 0.45834 0.10771 1 + 11647 11899 7342 7363 13657 13657 -0.03907585861065854 IWYRCRRPRH 10 Unmodified _IWYRCRRPRH_ 0 0 0 ENSG00000183695|ENST00000329773|MRGPRX2 ENSG00000183695|ENST00000329773|MRGPRX2 ENSG00000183695|ENST00000329773|MRGPRX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 721.8873291015625 2 721.888564 1441.76257 NaN NaN NaN NaN NaN NaN NaN 54.108 1 54.904 54.404 55.404 0.79552 0 0 0 1.0015 1 24688 24688 0.40072 0.050084 1 11648 5399 7343 7364 13658 13658 0.059363678846921175 IYAHITKHY 9 Unmodified _IYAHITKHY_ 0 0 0 ENSG00000164916|ENST00000328914|FOXK1;nc|ENSG00000164916|P85037-2|FOXK1 ENSG00000164916|ENST00000328914|FOXK1 ENSG00000164916|ENST00000328914|FOXK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 382.54290771484375 3 382.541586 1144.60293 2.7342 0.0010459 0.27051 0.00010348 3.0047 0.0011494 382.5417071980852 14.412 0.1985 14.412 14.314 14.512 0 28 12 3 0 0 0 0.27088 1 6358 6358 18.721 5.1064 1 807880 11649 4354 7344 7365 13659 13659 0.03641138088505613 IYAHITKHY 9 Unmodified _IYAHITKHY_ 0 0 0 ENSG00000164916|ENST00000328914|FOXK1;nc|ENSG00000164916|P85037-2|FOXK1 ENSG00000164916|ENST00000328914|FOXK1 ENSG00000164916|ENST00000328914|FOXK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 382.5426330566406 3 382.541586 1144.60293 2.3731 0.0009078 -0.15704 -6.0075E-05 2.216 0.00084772 382.5414357457274 13.889 0.15096 14.132 14.08 14.231 0.24346 31 15 3 0 0 0 0.10277 1 6087 6087 32.037 5.7693 1 1252200 11650 4354 7344 7365 13660 13660 0.03641138088505613 IYAHITKHY 9 Unmodified _IYAHITKHY_ 0 0 0 ENSG00000164916|ENST00000328914|FOXK1;nc|ENSG00000164916|P85037-2|FOXK1 ENSG00000164916|ENST00000328914|FOXK1 ENSG00000164916|ENST00000328914|FOXK1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 382.541586 1144.60293 2.8571 0.0010929 0.32741 0.00012525 3.1845 0.0012182 382.5418612232049 13.48 0.19697 14.123 14.037 14.234 0.64272 -0.099218 0.00021404 NaN 32.037 20 12 2 NaN NaN NaN NaN 0 NaN NaN 0 99802 11651 4354 7344 7365 0.03641138088505613 IYAPKLQEF 9 Unmodified _IYAPKLQEF_ 0 0 0 ENSG00000175305|ENST00000308108|CCNE2 ENSG00000175305|ENST00000308108|CCNE2 ENSG00000175305|ENST00000308108|CCNE2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.806640625 2 554.8055 1107.59645 2.9617 0.0016432 -0.12744 -7.0705E-05 2.8343 0.0015725 554.8049967462036 55.5 0.31033 56.287 56.165 56.476 0.78711 46 26 2 0 0 0 0.001731 2 25374 25323;25374 106.94 51.085 1 3428900 11652 5028 7345 7366 13661;13662 13662 0.04695200137143729 IYAPKLQEF 9 Unmodified _IYAPKLQEF_ 0 0 0 ENSG00000175305|ENST00000308108|CCNE2 ENSG00000175305|ENST00000308108|CCNE2 ENSG00000175305|ENST00000308108|CCNE2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 554.8055 1107.59645 3.5051 0.0019447 -0.20003 -0.00011098 3.3051 0.0018337 554.8054585049937 56.451 0.26096 56.451 56.306 56.567 0 0.063116 -0.00022796 NaN 106.94 46 20 3 NaN NaN NaN NaN 0 NaN NaN 0 3946700 11653 5028 7345 7366 0.04695200137143729 IYAPKLQEF 9 Unmodified _IYAPKLQEF_ 0 0 0 ENSG00000175305|ENST00000308108|CCNE2 ENSG00000175305|ENST00000308108|CCNE2 ENSG00000175305|ENST00000308108|CCNE2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 554.8055 1107.59645 3.4968 0.00194 0.83021 0.0004606 4.327 0.0024006 554.805959157321 56.274 0.21516 56.54 56.431 56.646 0.26543 0.15211 0.0009152 NaN 106.94 20 9 3 NaN NaN NaN NaN 0 NaN NaN 0 1186700 11654 5028 7345 7366 0.04695200137143729 IYAPKLQEF 9 Unmodified _IYAPKLQEF_ 0 0 0 ENSG00000175305|ENST00000308108|CCNE2 ENSG00000175305|ENST00000308108|CCNE2 ENSG00000175305|ENST00000308108|CCNE2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 554.8055 1107.59645 3.5438 0.0019661 -0.33666 -0.00018678 3.2072 0.0017793 554.8055109785302 55.605 0.23278 56.273 56.135 56.368 0.66797 -0.11429 -0.00037957 NaN 106.94 21 8 3 NaN NaN NaN NaN 0 NaN NaN 0 1136900 11655 5028 7345 7366 0.04695200137143729 IYAPPLPSL 9 Unmodified _IYAPPLPSL_ 0 0 0 ENSG00000121057|ENST00000337714|AKAP1 ENSG00000121057|ENST00000337714|AKAP1 ENSG00000121057|ENST00000337714|AKAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.78533935546875 2 485.784036 969.553519 2.9746 0.001445 -0.0077641 -3.7717E-06 2.9669 0.0014413 485.7839417620114 82.264 0.17715 82.511 82.381 82.558 0.24722 18 10 2 0 0 0 0.026068 1 37858 37858 60.39 29.753 1 751030 11656 2222 7346 7367 13663 13663 0.06752430079700389 IYAPPLPSL 9 Unmodified _IYAPPLPSL_ 0 0 0 ENSG00000121057|ENST00000337714|AKAP1 ENSG00000121057|ENST00000337714|AKAP1 ENSG00000121057|ENST00000337714|AKAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.7838134765625 2 485.784036 969.553519 3.3029 0.0016045 -0.11342 -5.5098E-05 3.1895 0.0015494 485.7837797672332 81.593 0.25148 82.253 82.168 82.419 0.65998 40 23 2 0 0 0 0.035095 1 37582 37582 53.576 24.494 1 570460 11657 2222 7346 7367 13664 13664 0.06752430079700389 IYDEDEVLL 9 Unmodified _IYDEDEVLL_ 0 0 0 ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-4|PPP2R1B;ENST00000468280.5_1_19:52693376-52714746:+|nuORF;PPP2R1B|p.I361Yfs*14|1|0.3|ENSG00000137713|chr11:111753526-111753527|TT/-|frameshift_variant;nc|ENSG00000137713|P30154-5|PPP2R1B;ENSG00000137713|ENST00000527614|PPP2R1B;nc|ENSG00000137713|P30154-2|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-5|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.7760620117188 2 554.774062 1107.53357 3.3144 0.0018387 0.6005 0.00033314 3.9149 0.0021719 554.7743886124553 71.51 0.29801 71.768 71.519 71.817 0.25786 44 24 3 0 0 0 0.028312 2 32695 32695;32749 57.471 21.427 1 1812100 11658 1509;3033 7347 7368 13665;13666 13665 -0.015894104415792754 IYDEDEVLL 9 Unmodified _IYDEDEVLL_ 0 0 0 ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-4|PPP2R1B;ENST00000468280.5_1_19:52693376-52714746:+|nuORF;PPP2R1B|p.I361Yfs*14|1|0.3|ENSG00000137713|chr11:111753526-111753527|TT/-|frameshift_variant;nc|ENSG00000137713|P30154-5|PPP2R1B;ENSG00000137713|ENST00000527614|PPP2R1B;nc|ENSG00000137713|P30154-2|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A;nc|ENSG00000137713|P30154-5|PPP2R1B ENSG00000105568|ENST00000322088|PPP2R1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.7763671875 2 554.774062 1107.53357 2.9869 0.001657 0.78682 0.00043651 3.7737 0.0020935 554.7743747236699 70.882 0.37899 71.544 71.375 71.754 0.66209 36 23 2 0 0 0 0.041436 2 32508 32461;32508 50.855 20.63 1 702650 11659 1509;3033 7347 7368 13667;13668 13668 -0.015894104415792754 IYDICRRNL 9 Carbamidomethyl (C) _IYDIC(Carbamidomethyl (C))RRNL_ IYDIC(1)RRNL IYDIC(42)RRNL 0 1 0 ENSG00000167552|ENST00000301071|TUBA1A;ENSG00000075886|ENST00000321253|TUBA3D;ENSG00000152086|ENST00000312988|TUBA3E;ENSG00000198033|ENST00000400113|TUBA3C;ENSG00000167553|ENST00000301072|TUBA1C;nc|ENSG00000198033|P0DPH7-2|TUBA3C;ENSG00000123416|ENST00000336023|TUBA1B;nc|ENSG00000167552|Q71U36-2|TUBA1A;ENSG00000127824|ENST00000248437|TUBA4A;nc|ENSG00000127824|P68366-2|TUBA4A;ENSG00000183785|ENST00000330423|TUBA8;nc|ENSG00000183785|Q9NY65-2|TUBA8 ENSG00000167552|ENST00000301071|TUBA1A ENSG00000167552|ENST00000301071|TUBA1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.8234252929688 2 611.821689 1221.62883 3.4048 0.0020831 -0.30898 -0.00018904 3.0958 0.0018941 611.8214598179437 33.348 0.28829 33.968 33.819 34.107 0.62031 24 12 2 0 0 0 0.063575 1 15303 15303 41.84 22.583 1 863660 11660 839 7348 7369 13669 13669 15 0.026876642684783292 IYDKFIAQL 9 Unmodified _IYDKFIAQL_ 0 0 0 nc|ENSG00000160783|Q6P1K2-4|PMF1;ENSG00000160783|ENST00000368277|PMF1;nc|ENSG00000160783|Q6P1K2-3|PMF1;nc|ENSG00000160783|Q6P1K2-6|PMF1;nc|ENSG00000160783|Q6P1K2-5|PMF1 nc|ENSG00000160783|Q6P1K2-4|PMF1 nc|ENSG00000160783|Q6P1K2-4|PMF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.8152465820312 2 555.813325 1109.6121 3.717 0.002066 0.18135 0.00010079 3.8984 0.0021668 555.813625117529 66.234 0.27028 66.482 66.331 66.602 0.24848 36 16 3 0 0 0 0.0017155 3 30364 30288;30319;30364 107.1 50.923 1 1467600 11661 4079 7349 7370 13670;13671;13672 13672 0.061674866541807205 IYDKFIAQL 9 Unmodified _IYDKFIAQL_ 0 0 0 nc|ENSG00000160783|Q6P1K2-4|PMF1;ENSG00000160783|ENST00000368277|PMF1;nc|ENSG00000160783|Q6P1K2-3|PMF1;nc|ENSG00000160783|Q6P1K2-6|PMF1;nc|ENSG00000160783|Q6P1K2-5|PMF1 nc|ENSG00000160783|Q6P1K2-4|PMF1 nc|ENSG00000160783|Q6P1K2-4|PMF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.8147583007812 2 555.813325 1109.6121 3.6149 0.0020092 -0.12837 -7.1348E-05 3.4866 0.0019379 555.8133279378944 65.641 0.25318 66.298 66.117 66.37 0.65672 28 13 3 0 0 0 0.015631 2 30072 30072;30124 74.2 30.341 1 1378100 11662 4079 7349 7370 13673;13674 13673 0.061674866541807205 IYDLATQTL 9 Unmodified _IYDLATQTL_ 0 0 0 ENST00000494720.5_1_2:219129258-219130297:-|nuORF;ENST00000475678.5_1_2:219129258-219130549:-|nuORF;ENSG00000127837|ENST00000248450|AAMP ENST00000494720.5_1_2:219129258-219130297:-|nuORF ENST00000494720.5_1_2:219129258-219130297:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 519.2813110351562 2 519.279315 1036.54408 3.5448 0.0018408 -2.1098 -0.0010956 1.435 0.00074518 519.2789838300706 65.642 0.29646 65.89 65.718 66.014 0.24848 21 16 2 0 0 0 0.023109 1 30065 30065 64.236 3.8468 1 836670 11663 2490 7350 7371 13675 13675 0.027266170035318282 IYDNRKEKI 9 Unmodified _IYDNRKEKI_ 0 0 0 ENST00000508066.1_1_4:36162071-36231213:-|nuORF;ENSG00000047365|ENST00000303965|ARAP2 ENST00000508066.1_1_4:36162071-36231213:-|nuORF ENST00000508066.1_1_4:36162071-36231213:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.55731201171875 3 393.555784 1177.64552 2.9415 0.0011576 0.26674 0.00010498 3.2082 0.0012626 393.55589508574167 14.59 0.26713 15.242 15.124 15.391 0.65241 85 29 4 0 0 0 0.10169 1 6538 6538 23.79 5.9266 1 3579100 11664 556 7351 7372 13676 13676 0.0638048842608896 IYDTSTDRLLW 11 Unmodified _IYDTSTDRLLW_ 0 0 0 ENSG00000172183|ENST00000306072|ISG20;ENST00000558942.5_1_15:89195091-89198759:+|nuORF ENSG00000172183|ENST00000306072|ISG20 ENSG00000172183|ENST00000306072|ISG20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 691.8528442382812 2 691.851167 1381.68778 4.0528 0.0028039 -0.30323 -0.00020979 3.7496 0.0025941 691.8509604265287 68.041 0.33615 68.294 68.127 68.464 0.25227 82 26 4 0 0 0 7.0112E-15 3 31175 31131;31175;31228 128.58 95.793 1 3888400 11665 4861 7352 7373 13677;13678;13679 13678 0.012204190437842044 IYDTSTDRLLW 11 Unmodified _IYDTSTDRLLW_ 0 0 0 ENSG00000172183|ENST00000306072|ISG20;ENST00000558942.5_1_15:89195091-89198759:+|nuORF ENSG00000172183|ENST00000306072|ISG20 ENSG00000172183|ENST00000306072|ISG20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 691.853515625 2 691.851167 1381.68778 3.9171 0.0027101 -0.41733 -0.00028873 3.4998 0.0024213 691.8507547434953 67.506 0.34 68.164 67.973 68.313 0.65778 65 23 4 0 0 0 7.6068E-10 2 30919 30919;30965 118.21 93.219 1 3350600 11666 4861 7352 7373 13680;13681 13680 0.012204190437842044 IYEEHEEYREY 11 Unmodified _IYEEHEEYREY_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.5609130859375 3 520.559811 1558.6576 NaN NaN NaN NaN NaN NaN NaN 95.165 1 95.247 94.747 95.747 0.082001 0 0 0 1.008 1 50246 50246 0.094841 0 1 + 11667 12747 7353 7374 13682 13682 -0.0993798441202216 IYELVEEPL 9 Unmodified _IYELVEEPL_ 0 0 0 REV__ENST00000478089.1_1_1:16621266-16641853:-|nuORF REV__ENST00000478089.1_1_1:16621266-16641853:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.7982788085938 2 552.794798 1103.57504 3.5153 0.0019432 -0.22187 -0.00012265 3.2934 0.0018206 552.7957655241689 35.271 0.18551 35.526 35.408 35.594 0.25524 12 7 2 0 0 0 0.95612 1 16091 16091 4.756 1.8668 1 306580 + 11668 10304 7354 7375 13683 13683 0.0273977031774848 IYEPNFIFF 9 Unmodified _IYEPNFIFF_ 0 0 0 ENSG00000087365|ENST00000322535|SF3B2 ENSG00000087365|ENST00000322535|SF3B2 ENSG00000087365|ENST00000322535|SF3B2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 595.3016357421875 2 595.30005 1188.58555 3.0276 0.0018023 0.78673 0.00046834 3.8143 0.0022707 595.2998227558489 99.955 0.081818 99.955 99.917 99.998 0 16 7 3 0 0 0 0.038142 1 55091 55091 52.268 19.963 1 7957000 11669 1001 7355 7376 13684 13684 -0.0012020223716717737 IYEPNFIFF 9 Unmodified _IYEPNFIFF_ 0 0 0 ENSG00000087365|ENST00000322535|SF3B2 ENSG00000087365|ENST00000322535|SF3B2 ENSG00000087365|ENST00000322535|SF3B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 595.3021240234375 2 595.30005 1188.58555 NaN NaN NaN NaN NaN NaN NaN 99.912 1 99.974 99.474 100.47 0.062241 0 0 0 0.21088 1 54101 54101 30.637 10.183 1 11670 1001 7355 7376 13685 13685 -0.0012020223716717737 IYEPNFIFF 9 Unmodified _IYEPNFIFF_ 0 0 0 ENSG00000087365|ENST00000322535|SF3B2 ENSG00000087365|ENST00000322535|SF3B2 ENSG00000087365|ENST00000322535|SF3B2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 595.3016357421875 2 595.30005 1188.58555 4.5564 0.0027125 -0.65372 -0.00038916 3.9027 0.0023233 595.2999091674291 99.813 0.12295 100.12 100.08 100.2 0.30835 14 6 3 0 0 0 0.052704 1 46153 46153 46.021 18.798 1 2623000 11671 1001 7355 7376 13686 13686 -0.0012020223716717737 IYEPNFIFF 9 Unmodified _IYEPNFIFF_ 0 0 0 ENSG00000087365|ENST00000322535|SF3B2 ENSG00000087365|ENST00000322535|SF3B2 ENSG00000087365|ENST00000322535|SF3B2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 595.3016967773438 2 595.30005 1188.58555 4.1745 0.0024851 -0.35946 -0.00021399 3.815 0.0022711 595.3004111122739 99.731 0.084206 100.33 100.28 100.36 0.59716 7 4 2 0 0 0 0.19064 1 46142 46142 24.021 2.4836 1 1060700 11672 1001 7355 7376 13687 13687 -0.0012020223716717737 IYFIFHKRVPG 11 Unmodified _IYFIFHKRVPG_ 0 0 0 REV__ENST00000308234.11_1_5:98129683-98129833:+|nuORF REV__ENST00000308234.11_1_5:98129683-98129833:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 688.8944702148438 2 688.895515 1375.77648 NaN NaN NaN NaN NaN NaN NaN 37.764 1 38.024 37.524 38.524 0.26083 0 0 0 1.0071 1 17197 17197 1.4819 0.15237 1 + 11673 15240 7356 7377 13688 13688 0.10361923864775235 IYFPKKEAVTF 11 Unmodified _IYFPKKEAVTF_ 0 0 0 ENSG00000137055|ENST00000397292|PLAA ENSG00000137055|ENST00000397292|PLAA ENSG00000137055|ENST00000397292|PLAA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 448.25323486328125 3 448.251701 1341.73327 2.9096 0.0013042 0.21608 9.6858E-05 3.1257 0.0014011 448.25194927432426 50.553 0.20826 50.553 50.417 50.626 0 23 9 3 0 0 0 0.20043 1 23134 23134 28.181 17.866 1 982800 11674 2995 7357 7378 13689 13689 0.07607689296833087 IYFPKKEAVTF 11 Unmodified _IYFPKKEAVTF_ 0 0 0 ENSG00000137055|ENST00000397292|PLAA ENSG00000137055|ENST00000397292|PLAA ENSG00000137055|ENST00000397292|PLAA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 448.2530822753906 3 448.251701 1341.73327 2.8557 0.0012801 -0.24987 -0.000112 2.6058 0.0011681 448.5857519909512 49.641 0.27774 50.464 50.248 50.526 0.82285 35 15 3 0 0 0 0.66431 2 22572 22572;22627 12.856 5.8189 1 1274100 11675 2995 7357 7378 13690;13691 13690 0.07607689296833087 IYFPKKEAVTF 11 Unmodified _IYFPKKEAVTF_ 0 0 0 ENSG00000137055|ENST00000397292|PLAA ENSG00000137055|ENST00000397292|PLAA ENSG00000137055|ENST00000397292|PLAA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 448.5877380371094 3 448.251701 1341.73327 2.775 0.0012439 0.11682 5.2364E-05 2.8918 0.0012963 448.2516896786904 50.301 0.20924 50.562 50.438 50.647 0.26146 17 6 3 0 0 0 0.20043 1 22986 22986 28.181 18.417 1 961980 11676 2995 7357 7378 13692 13692 0.07607689296833087 IYFPKKEAVTF 11 Unmodified _IYFPKKEAVTF_ 0 0 0 ENSG00000137055|ENST00000397292|PLAA ENSG00000137055|ENST00000397292|PLAA ENSG00000137055|ENST00000397292|PLAA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.25299072265625 3 448.251701 1341.73327 3.138 0.0014066 0.064667 2.8987E-05 3.2027 0.0014356 448.585933963204 49.661 0.23387 50.318 50.167 50.4 0.65735 18 7 4 0 0 0 0.404 1 22713 22713 21.799 11.484 1 709960 11677 2995 7357 7378 13693 13693 0.07607689296833087 IYGLLKNPF 9 Unmodified _IYGLLKNPF_ 0 0 0 nc|ENSG00000136758|Q96TA2-3|YME1L1;ENSG00000136758|ENST00000376016|YME1L1;nc|ENSG00000136758|Q96TA2|YME1L1;ENST00000463270.1_1_10:27418274-27425210:-|nuORF nc|ENSG00000136758|Q96TA2-3|YME1L1 nc|ENSG00000136758|Q96TA2-3|YME1L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.8543090820312 2 532.810585 1063.60662 NaN NaN NaN NaN NaN NaN NaN 70.673 1 70.673 70.173 71.173 0 0 0 0 0.35622 1 34324 34324 24.674 4.2203 1 11678 2972 7358 7379 13694 13694 0.07735807862354704 IYGLRRAIGL 10 Unmodified _IYGLRRAIGL_ 0 0 0 REV__ENSG00000151150|ENST00000280772|ANK3 REV__ENSG00000151150|ENST00000280772|ANK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 566.3553466796875 2 566.353483 1130.69241 NaN NaN NaN NaN NaN NaN NaN 41.503 1 41.774 41.274 42.274 0.27021 0 0 0 0.96109 1 18908 18908 11.64 3.047 1 + 11679 12607 7359 7380 13695 13695 0.132293927678802 IYGPKYIHPSF 11 Unmodified _IYGPKYIHPSF_ 0 0 0 ENSG00000183742|ENST00000400331|MACC1 ENSG00000183742|ENST00000400331|MACC1 ENSG00000183742|ENST00000400331|MACC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.5719299316406 3 441.236163 1320.68666 2.7998 0.0012354 0.047623 2.1013E-05 2.8474 0.0012564 441.2362509761283 48.035 0.31586 48.035 47.852 48.168 0 23 13 2 0 0 0 0.2701 1 22022 22022 25.997 18.896 1 358780 11680 5402 7360 7381 13696 13696 0.03914249465560715 IYGPKYIHPSF 11 Unmodified _IYGPKYIHPSF_ 0 0 0 ENSG00000183742|ENST00000400331|MACC1 ENSG00000183742|ENST00000400331|MACC1 ENSG00000183742|ENST00000400331|MACC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 441.2377624511719 3 441.236163 1320.68666 NaN NaN NaN NaN NaN NaN NaN 46.928 1 47.757 47.257 48.257 0.82915 0 0 0 0.8827 1 21378 21378 17.863 10.826 1 11681 5402 7360 7381 13697 13697 0.03914249465560715 IYGYVAEQF 9 Unmodified _IYGYVAEQF_ 0 0 0 ENST00000448693.2_1_3:52740223-52740934:+|nuORF;ENSG00000114902|ENST00000619898|SPCS1;nc|ENSG00000114902|Q9Y6A9|SPCS1 ENST00000448693.2_1_3:52740223-52740934:+|nuORF ENST00000448693.2_1_3:52740223-52740934:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.2681884765625 2 545.266207 1088.51786 3.6131 0.0019701 0.52148 0.00028434 4.1345 0.0022544 545.2664811144292 65.359 0.30376 65.607 65.394 65.698 0.24802 22 14 2 0 0 0 0.094171 2 29909 29909;29972 34.187 18.419 1 524910 11682 1929 7361 7382 13698;13699 13698 -0.022856521679386788 IYGYVAEQF 9 Unmodified _IYGYVAEQF_ 0 0 0 ENST00000448693.2_1_3:52740223-52740934:+|nuORF;ENSG00000114902|ENST00000619898|SPCS1;nc|ENSG00000114902|Q9Y6A9|SPCS1 ENST00000448693.2_1_3:52740223-52740934:+|nuORF ENST00000448693.2_1_3:52740223-52740934:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.2677612304688 2 545.266207 1088.51786 3.601 0.0019635 -0.165 -8.997E-05 3.436 0.0018735 545.2661627335416 64.763 0.26144 65.419 65.319 65.58 0.65672 23 14 2 0 0 0 0.059819 1 29703 29703 42.968 24.833 1 575360 11683 1929 7361 7382 13700 13700 -0.022856521679386788 IYHDLEQSI 9 Unmodified _IYHDLEQSI_ 0 0 0 nc|ENSG00000100266|Q9UNF0-2|PACSIN2;ENSG00000100266|ENST00000263246|PACSIN2 nc|ENSG00000100266|Q9UNF0-2|PACSIN2 nc|ENSG00000100266|Q9UNF0-2|PACSIN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.2811889648438 2 559.279846 1116.54514 3.4762 0.0019442 -0.99789 -0.0005581 2.4783 0.0013861 559.7804566182355 43.5 0.28812 43.77 43.628 43.916 0.27021 23 10 3 0 0 0 0.025323 2 19856 19856;19922 61.357 23.182 1 804820 11684 1198 7362 7383 13701;13702 13701 -0.00847168627569772 IYHDLEQSI 9 Unmodified _IYHDLEQSI_ 0 0 0 nc|ENSG00000100266|Q9UNF0-2|PACSIN2;ENSG00000100266|ENST00000263246|PACSIN2 nc|ENSG00000100266|Q9UNF0-2|PACSIN2 nc|ENSG00000100266|Q9UNF0-2|PACSIN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.2823486328125 2 559.279846 1116.54514 3.6769 0.0020564 -0.99689 -0.00055754 2.68 0.0014989 559.7804995273872 43.047 0.21582 43.696 43.514 43.73 0.64872 16 10 2 0 0 0 0.038142 1 19682 19682 52.268 17.867 1 1181100 11685 1198 7362 7383 13703 13703 -0.00847168627569772 IYHEREEYEML 11 Unmodified _IYHEREEYEML_ 0 0 0 nc|ENSG00000196335|Q9BXU1-3|STK31;nc|ENSG00000196335|Q9BXU1-2|STK31;ENSG00000196335|ENST00000355870|STK31 nc|ENSG00000196335|Q9BXU1-3|STK31 nc|ENSG00000196335|Q9BXU1-3|STK31 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.64910888671875 3 504.56602 1510.67623 NaN NaN NaN NaN NaN NaN NaN 66.693 1 67.398 66.898 67.898 0.7047 0 0 0 1.0055 1 31633 31633 1.4551 0.94916 1 11686 5733 7363 7384 13704 13704 -0.058681460418483766 IYHHTGNNTF 10 Unmodified _IYHHTGNNTF_ 0 0 0 nc|ENSG00000154380|Q8N8S7-3|ENAH;ENSG00000154380|ENST00000366843|ENAH;nc|ENSG00000154380|Q8N8S7|ENAH nc|ENSG00000154380|Q8N8S7-3|ENAH nc|ENSG00000154380|Q8N8S7-3|ENAH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 602.28173828125 2 602.280712 1202.54687 3.4371 0.0020701 0.012715 7.6581E-06 3.4499 0.0020778 602.2803530609341 14.506 0.13199 14.506 14.42 14.552 0 14 9 2 0 0 0 0.70333 1 6382 6382 13.042 5.1323 1 183580 11687 3823 7364 7385 13705 13705 -0.04630114818974107 IYHHTGNNTF 10 Unmodified _IYHHTGNNTF_ 0 0 0 nc|ENSG00000154380|Q8N8S7-3|ENAH;ENSG00000154380|ENST00000366843|ENAH;nc|ENSG00000154380|Q8N8S7|ENAH nc|ENSG00000154380|Q8N8S7-3|ENAH nc|ENSG00000154380|Q8N8S7-3|ENAH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 401.85736083984375 3 401.856233 1202.54687 2.6451 0.001063 1.013 0.00040706 3.6581 0.00147 401.8562161772782 14.504 0.19512 14.504 14.406 14.602 0 25 17 2 0 0 0 0.83621 1 6392 6392 9.544 6.5487 1 263600 11688 3823 7364 7385 13706 13706 -0.04630114818974107 IYHNPTANSF 10 Unmodified _IYHNPTANSF_ 0 0 0 ENST00000586619.1_1_19:46010999-46025451:+|nuORF;ENSG00000125753|ENST00000245932|VASP ENST00000586619.1_1_19:46010999-46025451:+|nuORF ENST00000586619.1_1_19:46010999-46025451:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.280029296875 2 582.277638 1162.54072 3.6958 0.002152 0.49957 0.00029089 4.1954 0.0024429 582.2777065478148 32.441 0.2288 32.695 32.551 32.78 0.25452 25 13 3 0 0 0 0.04318 2 14754 14754;14806 63.961 43.507 1 572200 11689 2419 7365 7386 13707;13708 13707 -0.03404633050490702 IYHNPTANSF 10 Unmodified _IYHNPTANSF_ 0 0 0 ENST00000586619.1_1_19:46010999-46025451:+|nuORF;ENSG00000125753|ENST00000245932|VASP ENST00000586619.1_1_19:46010999-46025451:+|nuORF ENST00000586619.1_1_19:46010999-46025451:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.2798461914062 2 582.277638 1162.54072 3.5642 0.0020753 0.70819 0.00041236 4.2724 0.0024877 582.7796163760345 31.756 0.28363 32.373 32.314 32.597 0.61737 29 17 2 0 0 0 0.19222 2 14606 14562;14606 40.239 19.786 1 691990 11690 2419 7365 7386 13709;13710 13710 -0.03404633050490702 IYHNPTANSF 10 Unmodified _IYHNPTANSF_ 0 0 0 ENST00000586619.1_1_19:46010999-46025451:+|nuORF;ENSG00000125753|ENST00000245932|VASP ENST00000586619.1_1_19:46010999-46025451:+|nuORF ENST00000586619.1_1_19:46010999-46025451:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 582.277638 1162.54072 3.6223 0.0021092 -0.37706 -0.00021955 3.2452 0.0018896 582.2775011710193 32.481 0.3077 32.481 32.316 32.624 0 -0.035471 -0.0007674 NaN 63.961 36 20 2 NaN NaN NaN NaN 0 NaN NaN 0 654960 11691 2419 7365 7386 -0.03404633050490702 IYHPNVDKL 9 Unmodified _IYHPNVDKL_ 0 0 0 ENSG00000177889|ENST00000318066|UBE2N;nc|ENSG00000276380|Q5JXB2|UBE2NL ENSG00000177889|ENST00000318066|UBE2N ENSG00000177889|ENST00000318066|UBE2N MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.8021240234375 2 549.800749 1097.58694 3.4383 0.0018904 0.2785 0.00015312 3.7168 0.0020435 549.8010026890717 32.696 0.24414 33.314 33.214 33.458 0.61831 13 11 2 0 0 0 0.64206 1 15006 15006 10.074 5.7447 1 172860 11692 5139 7366 7387 13711 13711 0.04205431851596586 IYHPNVDKL 9 Unmodified _IYHPNVDKL_ 0 0 0 ENSG00000177889|ENST00000318066|UBE2N;nc|ENSG00000276380|Q5JXB2|UBE2NL ENSG00000177889|ENST00000318066|UBE2N ENSG00000177889|ENST00000318066|UBE2N MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 549.800749 1097.58694 3.6422 0.0020025 1.4441 0.00079396 5.0862 0.0027964 549.8014721999795 33.233 0.30012 33.486 33.318 33.618 0.25389 0.086083 0.00061763 NaN 10.074 18 13 2 NaN NaN NaN NaN 0 NaN NaN 0 171700 11693 5139 7366 7387 0.04205431851596586 IYHPNVDKL 9 Unmodified _IYHPNVDKL_ 0 0 0 ENSG00000177889|ENST00000318066|UBE2N;nc|ENSG00000276380|Q5JXB2|UBE2NL ENSG00000177889|ENST00000318066|UBE2N ENSG00000177889|ENST00000318066|UBE2N MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 549.800749 1097.58694 3.4383 0.0018904 0.2785 0.00015312 3.7168 0.0020435 549.8010026890717 32.696 0.24414 33.314 33.214 33.458 0.61831 -0.086083 -0.00066406 NaN 10.074 13 11 2 NaN NaN NaN NaN 0 NaN NaN 0 172860 11694 5139 7366 7387 0.04205431851596586 IYHTGTFAQI 10 Unmodified _IYHTGTFAQI_ 0 0 0 nc|ENSG00000196365|P36776-2|LONP1;ENSG00000196365|ENST00000360614|LONP1;ENST00000587552.5_1_19:5708410-5719801:-|nuORF nc|ENSG00000196365|P36776-2|LONP1 nc|ENSG00000196365|P36776-2|LONP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.7997436523438 2 575.798206 1149.58186 3.5557 0.0020474 0.10792 6.214E-05 3.6637 0.0021095 575.7980368149665 48.021 0.20959 48.021 47.93 48.139 0 20 9 3 0 0 0 0.019635 1 22001 22001 74.929 44.292 1 624590 11695 5738 7367 7388 13712 13712 0.013051279890078149 IYHTGTFAQI 10 Unmodified _IYHTGTFAQI_ 0 0 0 nc|ENSG00000196365|P36776-2|LONP1;ENSG00000196365|ENST00000360614|LONP1;ENST00000587552.5_1_19:5708410-5719801:-|nuORF nc|ENSG00000196365|P36776-2|LONP1 nc|ENSG00000196365|P36776-2|LONP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.7994995117188 2 575.798206 1149.58186 3.3378 0.0019219 -0.11438 -6.586E-05 3.2234 0.001856 575.7981826937672 46.945 0.24405 47.774 47.613 47.857 0.82915 16 9 2 0 0 0 0.026062 1 21377 21377 68.081 37.444 1 502200 11696 5738 7367 7388 13713 13713 0.013051279890078149 IYHTGTFAQI 10 Unmodified _IYHTGTFAQI_ 0 0 0 nc|ENSG00000196365|P36776-2|LONP1;ENSG00000196365|ENST00000360614|LONP1;ENST00000587552.5_1_19:5708410-5719801:-|nuORF nc|ENSG00000196365|P36776-2|LONP1 nc|ENSG00000196365|P36776-2|LONP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.8001098632812 2 575.798206 1149.58186 3.5334 0.0020345 0.62578 0.00036032 4.1592 0.0023948 575.7985064729482 47.972 0.31735 48.234 48.058 48.375 0.26209 25 12 3 0 0 0 0.037885 2 21913 21913;21976 65.235 34.598 1 770540 11697 5738 7367 7388 13714;13715 13714 0.013051279890078149 IYHTGTFAQI 10 Unmodified _IYHTGTFAQI_ 0 0 0 nc|ENSG00000196365|P36776-2|LONP1;ENSG00000196365|ENST00000360614|LONP1;ENST00000587552.5_1_19:5708410-5719801:-|nuORF nc|ENSG00000196365|P36776-2|LONP1 nc|ENSG00000196365|P36776-2|LONP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.8006591796875 2 575.798206 1149.58186 3.6729 0.0021148 -0.082471 -4.7487E-05 3.5904 0.0020673 575.7980593223232 47.384 0.29129 48.038 47.855 48.147 0.65356 23 12 2 0 0 0 0.11978 2 21705 21655;21705 49.933 19.838 1 578530 11698 5738 7367 7388 13716;13717 13717 0.013051279890078149 IYHYRYMK 8 Unmodified _IYHYRYMK_ 0 0 0 ENST00000521804.1_1_8:142264369-142264606:-|nuORF ENST00000521804.1_1_8:142264369-142264606:-|nuORF ENST00000521804.1_1_8:142264369-142264606:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.2953491210938 2 587.297319 1172.58008 NaN NaN NaN NaN NaN NaN NaN 52.766 1 53.029 52.529 53.529 0.26345 0 0 0 0.99035 1 24122 24122 5.7604 0.52976 1 11699 8644 7368 7389 13718 13718 0.0006979569936902408 IYIAGHPAF 9 Unmodified _IYIAGHPAF_ 0 0 0 ENSG00000104824|ENST00000221419|HNRNPL;ENST00000568980.1_1_15:34781792-34782686:-|nuORF;nc|ENSG00000104824|P14866-2|HNRNPL ENSG00000104824|ENST00000221419|HNRNPL ENSG00000104824|ENST00000221419|HNRNPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.7683410644531 2 494.766178 987.517802 3.1068 0.0015372 0.13258 6.5596E-05 3.2394 0.0016027 494.7661854438881 51.754 0.30414 51.754 51.557 51.862 0 45 21 3 0 0 0 0.071101 2 23664 23664;23710 56.048 31.374 1 1376500 11700 1451 7369 7390 13719;13720 13719 0.023543926227148404 IYIAGHPAF 9 Unmodified _IYIAGHPAF_ 0 0 0 ENSG00000104824|ENST00000221419|HNRNPL;ENST00000568980.1_1_15:34781792-34782686:-|nuORF;nc|ENSG00000104824|P14866-2|HNRNPL ENSG00000104824|ENST00000221419|HNRNPL ENSG00000104824|ENST00000221419|HNRNPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.7678527832031 2 494.766178 987.517802 2.8747 0.0014223 0.42263 0.0002091 3.2973 0.0016314 494.7664251393132 50.822 0.27566 51.639 51.467 51.743 0.81738 33 14 3 0 0 0 0.047285 2 23165 23118;23165 67.413 35.296 1 1245800 11701 1451 7369 7390 13721;13722 13722 0.023543926227148404 IYIAGHPAF 9 Unmodified _IYIAGHPAF_ 0 0 0 ENSG00000104824|ENST00000221419|HNRNPL;ENST00000568980.1_1_15:34781792-34782686:-|nuORF;nc|ENSG00000104824|P14866-2|HNRNPL ENSG00000104824|ENST00000221419|HNRNPL ENSG00000104824|ENST00000221419|HNRNPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.76776123046875 2 494.766178 987.517802 3.0554 0.0015117 -0.015776 -7.8054E-06 3.0396 0.0015039 494.7662377466153 51.513 0.20971 51.775 51.707 51.917 0.26228 24 10 3 0 0 0 0.071101 2 23537 23537;23588 56.048 31.374 1 1963200 11702 1451 7369 7390 13723;13724 13723 0.023543926227148404 IYIAGHPAF 9 Unmodified _IYIAGHPAF_ 0 0 0 ENSG00000104824|ENST00000221419|HNRNPL;ENST00000568980.1_1_15:34781792-34782686:-|nuORF;nc|ENSG00000104824|P14866-2|HNRNPL ENSG00000104824|ENST00000221419|HNRNPL ENSG00000104824|ENST00000221419|HNRNPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.7674865722656 2 494.766178 987.517802 3.0416 0.0015049 0.65537 0.00032425 3.6969 0.0018291 494.7664314893434 50.898 0.2392 51.558 51.451 51.69 0.65956 34 14 3 0 0 0 0.10169 2 23309 23260;23309 45.75 27.615 1 1603200 11703 1451 7369 7390 13725;13726 13726 0.023543926227148404 IYICSYLLY 9 Unmodified _IYICSYLLY_ 0 0 0 REV__ENST00000381298.6_1_5:55235198-55235360:-|nuORF REV__ENST00000381298.6_1_5:55235198-55235360:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.7968139648438 2 575.796286 1149.57802 NaN NaN NaN NaN NaN NaN NaN 99.531 1 99.531 99.031 100.03 0 0 0 0 0.085491 1 54764 54764 44.407 2.3125 1 + 11704 15892 7370 7391 13727 13727 0.00921322170916028 IYIDRFEDL 9 Unmodified _IYIDRFEDL_ 0 0 0 ENSG00000152219|ENST00000282032|ARL14EP ENSG00000152219|ENST00000282032|ARL14EP ENSG00000152219|ENST00000282032|ARL14EP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.3050537109375 2 592.303321 1182.59209 3.7724 0.0022344 -0.9288 -0.00055013 2.8436 0.0016843 592.8038627930222 65.579 0.21919 65.827 65.699 65.918 0.24848 19 11 2 0 0 0 0.035495 1 30026 30026 53.404 13.447 1 766360 11705 3743 7371 7392 13728 13728 0.008096909235973726 IYIDRFEDL 9 Unmodified _IYIDRFEDL_ 0 0 0 ENSG00000152219|ENST00000282032|ARL14EP ENSG00000152219|ENST00000282032|ARL14EP ENSG00000152219|ENST00000282032|ARL14EP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.302734375 2 592.303321 1182.59209 3.8978 0.0023087 -1.9912 -0.0011794 1.9066 0.0011293 592.3013529096452 64.923 0.16605 65.58 65.489 65.655 0.65672 23 12 2 0 0 0 0.02812 1 29757 29757 57.722 17.765 1 504350 11706 3743 7371 7392 13729 13729 0.008096909235973726 IYIKHPHLF 9 Unmodified _IYIKHPHLF_ 0 0 0 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.89483642578125 3 389.89396 1166.66005 2.6862 0.0010473 0.0061435 2.3953E-06 2.6923 0.0010497 389.89395453902245 40.679 0.35855 40.679 40.468 40.826 0 62 21 4 0 0 0 0.027384 3 18412 18412;18469;18513 58.679 58.679 1 27715000 11707 1297 7372 7393 13730;13731;13732 13730 0.08338605364883733 IYIKHPHLF 9 Unmodified _IYIKHPHLF_ 0 0 0 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.3389282226562 2 584.337301 1166.66005 3.576 0.0020896 0.090301 5.2767E-05 3.6663 0.0021423 584.3375060560218 40.689 0.20811 40.689 40.577 40.785 0 25 11 3 0 0 0 0.0095519 1 18462 18462 92.822 35.351 1 4005800 11708 1297 7372 7393 13733 13733 0.08338605364883733 IYIKHPHLF 9 Unmodified _IYIKHPHLF_ 0 0 0 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.3396606445312 2 584.337301 1166.66005 NaN NaN NaN NaN NaN NaN NaN 40.785 1 40.785 40.285 41.285 0 0 0 0 0.069424 1 18520 18520 44.407 25.15 1 11709 1297 7372 7393 13734 13734 0.08338605364883733 IYIKHPHLF 9 Unmodified _IYIKHPHLF_ 0 0 0 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 389.89495849609375 3 389.89396 1166.66005 2.5454 0.00099245 0.10314 4.0214E-05 2.6486 0.0010327 389.8939771030584 39.763 0.55396 40.563 40.235 40.789 0.80014 91 27 5 0 0 0 0.029308 4 17968 17922;17968;18028;18073 56.177 56.177 1 13663000 11710 1297 7372 7393 13735;13736;13737;13738 13736 0.08338605364883733 IYIKHPHLF 9 Unmodified _IYIKHPHLF_ 0 0 0 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.339599609375 2 584.337301 1166.66005 3.2169 0.0018798 0.18511 0.00010817 3.4021 0.0019879 584.3375272784372 39.72 0.33871 40.52 40.369 40.707 0.80014 34 16 3 0 0 0 0.02234 2 18049 17971;18049 70.716 47.979 1 909330 11711 1297 7372 7393 13739;13740 13740 0.08338605364883733 IYIKHPHLF 9 Unmodified _IYIKHPHLF_ 0 0 0 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.33837890625 2 584.337301 1166.66005 3.6077 0.0021081 -0.42618 -0.00024903 3.1815 0.0018591 584.33702819958 40.419 0.20831 40.688 40.551 40.759 0.26904 15 6 3 0 0 0 0.019364 2 18388 18331;18388 77.984 38.027 1 1337700 11712 1297 7372 7393 13741;13742 13742 0.08338605364883733 IYIKHPHLF 9 Unmodified _IYIKHPHLF_ 0 0 0 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.8949890136719 3 389.89396 1166.66005 3.0553 0.0011912 -0.41506 -0.00016183 2.6402 0.0010294 389.8937424981756 40.421 0.3492 40.691 40.487 40.836 0.26904 34 11 4 0 0 0 0.043585 1 18365 18365 49.933 20.092 1 8458300 11713 1297 7372 7393 13743 13743 0.08338605364883733 IYIKHPHLF 9 Unmodified _IYIKHPHLF_ 0 0 0 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.89520263671875 3 389.89396 1166.66005 3.0674 0.001196 -0.082169 -3.2037E-05 2.9852 0.0011639 389.89389376790075 39.955 0.28889 40.597 40.428 40.716 0.64136 35 11 4 0 0 0 0.043585 3 18219 18197;18219;18270 49.933 24.109 1 7251700 11714 1297 7372 7393 13744;13745;13746 13745 0.08338605364883733 IYIKHPHLF 9 Unmodified _IYIKHPHLF_ 0 0 0 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.34130859375 2 584.337301 1166.66005 3.7873 0.0022131 0.42103 0.00024602 4.2084 0.0024591 584.337648968556 39.958 0.19316 40.599 40.471 40.664 0.64136 15 7 3 0 0 0 0.014491 1 18263 18263 85.357 53.051 1 1044700 11715 1297 7372 7393 13747 13747 0.08338605364883733 IYIKHPHLFKY 11 Unmodified _IYIKHPHLFKY_ 0 0 0 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 486.9481201171875 3 486.946724 1457.81834 3.2282 0.001572 -0.53896 -0.00026245 2.6893 0.0013095 486.946710250467 36.944 0.30453 36.944 36.801 37.106 0 30 12 3 0 0 0 0.14006 1 16764 16764 35.08 21.561 1 382360 11716 1297 7373 7394 13748 13748 0.10774479553310812 IYIKHPHLFKY 11 Unmodified _IYIKHPHLFKY_ 0 0 0 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 365.4624938964844 4 365.461862 1457.81834 2.4872 0.00090898 0.75685 0.0002766 3.244 0.0011856 365.7131674567997 35.933 0.3252 36.724 36.547 36.872 0.79131 19 13 2 0 0 0 0.66431 1 16278 16278 12.856 10.225 1 1113200 11717 1297 7373 7394 13749 13749 0.10774479553310812 IYIKHPHLFKY 11 Unmodified _IYIKHPHLFKY_ 0 0 0 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 486.946724 1457.81834 3.2858 0.0016 -2.1162 -0.0010305 1.1696 0.00056955 487.27895028825213 35.834 0.17716 36.625 36.547 36.724 0.79131 -0.16283 -0.0014283 NaN 35.08 15 8 3 NaN NaN NaN NaN 0 NaN NaN 0 728610 11718 1297 7373 7394 0.10774479553310812 IYIKHPHLFKY 11 Unmodified _IYIKHPHLFKY_ 0 0 0 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 486.946724 1457.81834 3.3134 0.0016135 -2.3667 -0.0011525 0.94672 0.000461 486.94628966597423 36.168 0.21371 36.795 36.665 36.879 0.62631 0.0067688 -0.0017943 NaN 35.08 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 264540 11719 1297 7373 7394 0.10774479553310812 IYIKQIKTF 9 Unmodified _IYIKQIKTF_ 0 0 0 ENSG00000103479|ENST00000262133|RBL2 ENSG00000103479|ENST00000262133|RBL2 ENSG00000103479|ENST00000262133|RBL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 577.8556518554688 2 577.352617 1152.69068 3.6191 0.0020895 -0.8962 -0.00051742 2.7229 0.0015721 577.8537065269699 44.472 0.15966 44.472 44.328 44.488 0 18 10 2 0 0 0 0.0010698 1 20303 20303 125.53 77.78 1 10174000 11720 1399 7374 7395 13750 13750 0.12044338959276502 IYIKQIKTF 9 Unmodified _IYIKQIKTF_ 0 0 0 ENSG00000103479|ENST00000262133|RBL2 ENSG00000103479|ENST00000262133|RBL2 ENSG00000103479|ENST00000262133|RBL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 385.2384338378906 3 385.237504 1152.69068 2.4077 0.00092755 0.013339 5.1386E-06 2.4211 0.00093269 385.2374855651586 43.272 0.4885 44.087 44.012 44.5 0.81444 74 36 4 0 0 0 0.004576 2 19683 19683;19729 75.571 37.644 1 12219000 11721 1399 7374 7395 13751;13752 13751 0.12044338959276502 IYIKQIKTF 9 Unmodified _IYIKQIKTF_ 0 0 0 ENSG00000103479|ENST00000262133|RBL2 ENSG00000103479|ENST00000262133|RBL2 ENSG00000103479|ENST00000262133|RBL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.3541870117188 2 577.352617 1152.69068 3.3072 0.0019094 -0.042784 -2.4701E-05 3.2644 0.0018847 577.3523559023273 43.24 0.15873 44.055 44.037 44.196 0.81444 36 16 3 0 0 0 4.658900000000001E-41 1 19694 19694 208.15 122.87 1 6262300 11722 1399 7374 7395 13753 13753 0.12044338959276502 IYIKQIKTF 9 Unmodified _IYIKQIKTF_ 0 0 0 ENSG00000103479|ENST00000262133|RBL2 ENSG00000103479|ENST00000262133|RBL2 ENSG00000103479|ENST00000262133|RBL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.354248046875 2 577.352617 1152.69068 NaN NaN NaN NaN NaN NaN NaN 44.248 1 44.517 44.017 45.017 0.2694 0 0 0 0.0044088 1 20225 20225 93.166 53.216 1 11723 1399 7374 7395 13754 13754 0.12044338959276502 IYIKQIKTF 9 Unmodified _IYIKQIKTF_ 0 0 0 ENSG00000103479|ENST00000262133|RBL2 ENSG00000103479|ENST00000262133|RBL2 ENSG00000103479|ENST00000262133|RBL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.354248046875 2 577.352617 1152.69068 3.819 0.0022049 -0.1881 -0.0001086 3.6309 0.0020963 577.3525586382841 43.664 0.16745 44.313 44.229 44.397 0.64872 11 9 2 0 0 0 0.0013355 1 20040 20040 117.76 77.811 1 1130000 11724 1399 7374 7395 13755 13755 0.12044338959276502 IYIKQIKTF 9 Unmodified _IYIKQIKTF_ 0 0 0 ENSG00000103479|ENST00000262133|RBL2 ENSG00000103479|ENST00000262133|RBL2 ENSG00000103479|ENST00000262133|RBL2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 385.237504 1152.69068 2.6623 0.0010256 -0.6438 -0.00024802 2.0185 0.00077758 385.2373120095173 44.481 0.24613 44.481 44.298 44.544 0 0.14847 -0.00050731 NaN 75.571 51 22 4 NaN NaN NaN NaN 0 NaN NaN 0 10845000 11725 1399 7374 7395 0.12044338959276502 IYIKQIKTF 9 Unmodified _IYIKQIKTF_ 0 0 0 ENSG00000103479|ENST00000262133|RBL2 ENSG00000103479|ENST00000262133|RBL2 ENSG00000103479|ENST00000262133|RBL2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 385.237504 1152.69068 2.642 0.0010178 -0.42948 -0.00016545 2.2125 0.00085234 385.23723425065765 44.176 0.55348 44.445 44.386 44.939 0.2694 0.11316 -0.00025961 NaN 75.571 46 29 3 NaN NaN NaN NaN 0 NaN NaN 0 8925500 11726 1399 7374 7395 0.12044338959276502 IYIKQIKTF 9 Unmodified _IYIKQIKTF_ 0 0 0 ENSG00000103479|ENST00000262133|RBL2 ENSG00000103479|ENST00000262133|RBL2 ENSG00000103479|ENST00000262133|RBL2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 385.237504 1152.69068 2.9139 0.0011225 0.076804 2.9588E-05 2.9907 0.0011521 385.23750443295404 43.667 0.20972 44.316 44.187 44.397 0.64872 -0.016295 0.00032551 NaN 75.571 27 13 3 NaN NaN NaN NaN 0 NaN NaN 0 3552500 11727 1399 7374 7395 0.12044338959276502 IYKAPSENW 9 Unmodified _IYKAPSENW_ 0 0 0 nc|ENSG00000130816|P26358-3|DNMT1;nc|ENSG00000130816|P26358|DNMT1;ENSG00000130816|ENST00000359526|DNMT1 nc|ENSG00000130816|P26358-3|DNMT1 nc|ENSG00000130816|P26358-3|DNMT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.2799682617188 2 554.277106 1106.53966 3.2812 0.0018187 0.17881 9.9112E-05 3.46 0.0019178 554.276974017348 37.24 0.24519 38.035 37.917 38.162 0.79552 17 11 2 0 0 0 0.035495 1 16887 16887 53.404 21.099 1 361260 11728 2623 7375 7396 13756 13756 -0.009348474193984657 IYKAPSENW 9 Unmodified _IYKAPSENW_ 0 0 0 nc|ENSG00000130816|P26358-3|DNMT1;nc|ENSG00000130816|P26358|DNMT1;ENSG00000130816|ENST00000359526|DNMT1 nc|ENSG00000130816|P26358-3|DNMT1 nc|ENSG00000130816|P26358-3|DNMT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.279052734375 2 554.277106 1106.53966 3.3876 0.0018777 -2.5756 -0.0014276 0.81205 0.0004501 554.2766910551858 37.833 0.3409 38.467 38.304 38.645 0.63388 23 11 3 0 0 0 0.093314 1 17323 17323 34.402 5.9149 1 324660 11729 2623 7375 7396 13757 13757 -0.009348474193984657 IYKAPSENW 9 Unmodified _IYKAPSENW_ 0 0 0 nc|ENSG00000130816|P26358-3|DNMT1;nc|ENSG00000130816|P26358|DNMT1;ENSG00000130816|ENST00000359526|DNMT1 nc|ENSG00000130816|P26358-3|DNMT1 nc|ENSG00000130816|P26358-3|DNMT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 554.277106 1106.53966 3.5755 0.0019818 -0.083703 -4.6395E-05 3.4918 0.0019354 554.2768083749672 38.344 0.13784 38.344 38.265 38.402 0 0.06166 0.00072271 NaN 53.404 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 400100 11730 2623 7375 7396 -0.009348474193984657 IYKDSSTFL 9 Unmodified _IYKDSSTFL_ 0 0 0 ENSG00000145388|ENST00000388822|METTL14 ENSG00000145388|ENST00000388822|METTL14 ENSG00000145388|ENST00000388822|METTL14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.2802124023438 2 537.279315 1072.54408 2.9589 0.0015898 1.2984 0.0006976 4.2573 0.0022874 537.2796210898932 46.178 0.31718 46.178 46.025 46.342 0 30 15 3 0 0 0 0.071132 1 21116 21116 39.95 13.608 1 1630900 11731 3464 7376 7397 13758 13758 0.010706170035291507 IYKDSSTFL 9 Unmodified _IYKDSSTFL_ 0 0 0 ENSG00000145388|ENST00000388822|METTL14 ENSG00000145388|ENST00000388822|METTL14 ENSG00000145388|ENST00000388822|METTL14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.2814331054688 2 537.279315 1072.54408 3.0366 0.0016315 1.3398 0.00071983 4.3763 0.0023513 537.2796024465639 45.038 0.33947 45.864 45.708 46.047 0.82621 34 16 3 0 0 0 0.057945 1 20530 20530 43.772 11.655 1 1368600 11732 3464 7376 7397 13759 13759 0.010706170035291507 IYKDSSTFL 9 Unmodified _IYKDSSTFL_ 0 0 0 ENSG00000145388|ENST00000388822|METTL14 ENSG00000145388|ENST00000388822|METTL14 ENSG00000145388|ENST00000388822|METTL14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.2811889648438 2 537.279315 1072.54408 3.0619 0.0016451 1.105 0.00059367 4.1669 0.0022388 537.2794537672743 46.081 0.39742 46.347 46.17 46.568 0.26561 34 17 3 0 0 0 0.023321 2 21080 21029;21080 63.961 27.833 1 1333000 11733 3464 7376 7397 13760;13761 13761 0.010706170035291507 IYKDSSTFL 9 Unmodified _IYKDSSTFL_ 0 0 0 ENSG00000145388|ENST00000388822|METTL14 ENSG00000145388|ENST00000388822|METTL14 ENSG00000145388|ENST00000388822|METTL14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.2814331054688 2 537.279315 1072.54408 3.507 0.0018842 1.0123 0.0005439 4.5193 0.0024281 537.2794249183098 45.381 0.38105 46.032 45.858 46.24 0.65104 46 17 3 0 0 0 0.030603 2 20805 20805;20858 55.503 19.376 1 872780 11734 3464 7376 7397 13762;13763 13762 0.010706170035291507 IYKEEREYF 9 Unmodified _IYKEEREYF_ 0 0 0 nc|ENSG00000162627|Q9UNH6-2|SNX7;nc|ENSG00000162627|Q9UNH6|SNX7;ENSG00000162627|ENST00000306121|SNX7 nc|ENSG00000162627|Q9UNH6-2|SNX7 nc|ENSG00000162627|Q9UNH6-2|SNX7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 426.5470275878906 3 426.211794 1275.61355 NaN NaN NaN NaN NaN NaN NaN 31.84 1 31.84 31.34 32.34 0 0 0 0 0.55812 1 14410 14410 16.566 9.4642 1 11735 4151 7377 7398 13764 13764 -0.013229240477357962 IYKEEREYF 9 Unmodified _IYKEEREYF_ 0 0 0 nc|ENSG00000162627|Q9UNH6-2|SNX7;nc|ENSG00000162627|Q9UNH6|SNX7;ENSG00000162627|ENST00000306121|SNX7 nc|ENSG00000162627|Q9UNH6-2|SNX7 nc|ENSG00000162627|Q9UNH6-2|SNX7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 426.54742431640625 3 426.211794 1275.61355 3.3185 0.0014144 0.063898 2.7234E-05 3.3824 0.0014416 426.2118538927263 31.838 0.1636 32.092 32.027 32.191 0.25452 18 10 2 0 0 0 0.24524 1 14488 14488 14.957 8.7653 1 272440 11736 4151 7377 7398 13765 13765 -0.013229240477357962 IYKEEREYF 9 Unmodified _IYKEEREYF_ 0 0 0 nc|ENSG00000162627|Q9UNH6-2|SNX7;nc|ENSG00000162627|Q9UNH6|SNX7;ENSG00000162627|ENST00000306121|SNX7 nc|ENSG00000162627|Q9UNH6-2|SNX7 nc|ENSG00000162627|Q9UNH6-2|SNX7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 426.2132873535156 3 426.211794 1275.61355 3.0225 0.0012882 0.33152 0.0001413 3.354 0.0014295 426.5461134507001 31.287 0.25391 31.905 31.785 32.039 0.61736 21 15 2 0 0 0 0.41574 1 14344 14344 13.615 10.295 1 257320 11737 4151 7377 7398 13766 13766 -0.013229240477357962 IYKFASTI 8 Unmodified _IYKFASTI_ 0 0 0 REV__ENST00000514245.1_1_4:148407001-148453720:+|nuORF REV__ENST00000514245.1_1_4:148407001-148453720:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.7698059082031 2 471.768386 941.522219 NaN NaN NaN NaN NaN NaN NaN 51.675 1 51.937 51.437 52.437 0.26227 0 0 0 0.9101 1 23616 23616 11.64 0 1 + 11738 12622 7378 7399 13767 13767 0.049118570456244015 IYKPVTDFF 9 Unmodified _IYKPVTDFF_ 0 0 0 ENST00000472420.5_1_2:44123526-44126707:-|nuORF;ENST00000463456.5_1_2:44115741-44128754:-|nuORF;ENSG00000138095|ENST00000260665|LRPPRC ENST00000472420.5_1_2:44123526-44126707:-|nuORF ENST00000472420.5_1_2:44123526-44126707:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 565.300537109375 2 565.30005 1128.58555 3.5728 0.0020197 -3.5614 -0.0020132 0.011442 6.468E-06 565.7979318254357 67.088 0.20547 67.746 67.647 67.853 0.65777 21 11 3 0 0 0 0.079031 1 30766 30766 37.974 11.09 1 424540 11739 3071 7379 7400 13768 13768 0.026397977628448643 IYKRRKIF 8 Unmodified _IYKRRKIF_ 0 0 0 REV__ENSG00000187210|ENST00000376730|GCNT1 REV__ENSG00000187210|ENST00000376730|GCNT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 375.2423400878906 3 375.241471 1122.70258 2.8917 0.0010851 -0.56941 -0.00021367 2.3222 0.0008714 375.24123688233817 13.175 0.29621 13.175 13.036 13.333 0 62 19 5 0 0 0 0.15009 1 5741 5741 48.346 24.325 1 5154300 + 11740 14093 7380 7401 13769 13769 0.14614000493133972 IYKRRKIF 8 Unmodified _IYKRRKIF_ 0 0 0 REV__ENSG00000187210|ENST00000376730|GCNT1 REV__ENSG00000187210|ENST00000376730|GCNT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.2423095703125 3 375.241471 1122.70258 2.0656 0.00077509 -0.16459 -6.1762E-05 1.901 0.00071333 375.2414144432441 12.733 0.22348 13.04 12.936 13.159 0.30727 17 6 4 0 0 0 0.39589 1 5741 5741 28.487 4.4663 1 8804900 + 11741 14093 7380 7401 13770 13770 0.14614000493133972 IYKRRKIF 8 Unmodified _IYKRRKIF_ 0 0 0 REV__ENSG00000187210|ENST00000376730|GCNT1 REV__ENSG00000187210|ENST00000376730|GCNT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 375.2425231933594 3 375.241471 1122.70258 2.9823 0.0011191 -0.25886 -9.7136E-05 2.7234 0.0010219 375.2413094524475 12.618 0.16859 13.261 13.176 13.345 0.64272 12 4 3 0 0 0 0.21011 1 5670 5670 42.095 15.211 1 12215000 + 11742 14093 7380 7401 13771 13771 0.14614000493133972 IYKRRKIF 8 Unmodified _IYKRRKIF_ 0 0 0 REV__ENSG00000187210|ENST00000376730|GCNT1 REV__ENSG00000187210|ENST00000376730|GCNT1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 375.241471 1122.70258 2.9823 0.0011191 -0.25886 -9.7136E-05 2.7234 0.0010219 375.2413094524475 12.618 0.16859 13.261 13.176 13.345 0.64272 0.13297 -3.1727E-05 NaN 48.346 12 4 3 NaN NaN NaN NaN 0 NaN NaN 0 12215000 + 11743 14093 7380 7401 0.14614000493133972 IYKTLVERSTL 11 Unmodified _IYKTLVERSTL_ 0 0 0 nc|ENSG00000089101|Q8NHU2-4|CFAP61;ENSG00000089101|ENST00000245957|CFAP61 nc|ENSG00000089101|Q8NHU2-4|CFAP61 nc|ENSG00000089101|Q8NHU2-4|CFAP61 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 661.8870849609375 2 661.887552 1321.76055 NaN NaN NaN NaN NaN NaN NaN 78.306 1 78.56 78.06 79.06 0.25335 0 0 0 0.9645 1 36061 36061 10.074 4.777 1 11744 1031 7381 7402 13772 13772 0.11254172837243459 IYLAPGDYHCF 11 Carbamidomethyl (C) _IYLAPGDYHC(Carbamidomethyl (C))F_ IYLAPGDYHC(1)F IYLAPGDYHC(52)F 0 1 0 nc|ENSG00000241878|Q9UG56-2|PISD;ENST00000473770.5_1_22:32015600-32017204:-|nuORF;ENST00000460723.5_1_22:32015600-32017569:-|nuORF;PISD|p.V287Cfs*16|1|0.36|ENSG00000241878|chr22:31620699-31620700|-/A|frameshift_variant;ENSG00000241878|ENST00000439502|PISD nc|ENSG00000241878|Q9UG56-2|PISD nc|ENSG00000241878|Q9UG56-2|PISD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 678.3115844726562 2 678.308081 1354.60161 3.7984 0.0025765 -0.51055 -0.00034631 3.2878 0.0022302 678.3075843771684 61.113 0.19801 61.366 61.244 61.442 0.25245 13 8 2 0 0 0 0.045687 1 27979 27979 52.268 38.362 1 444590 11745 9845 7382 7403 13773 13773 106 -0.061508640625561384 IYLAPGDYHCF 11 Carbamidomethyl (C) _IYLAPGDYHC(Carbamidomethyl (C))F_ IYLAPGDYHC(1)F IYLAPGDYHC(52)F 0 1 0 nc|ENSG00000241878|Q9UG56-2|PISD;ENST00000473770.5_1_22:32015600-32017204:-|nuORF;ENST00000460723.5_1_22:32015600-32017569:-|nuORF;PISD|p.V287Cfs*16|1|0.36|ENSG00000241878|chr22:31620699-31620700|-/A|frameshift_variant;ENSG00000241878|ENST00000439502|PISD nc|ENSG00000241878|Q9UG56-2|PISD nc|ENSG00000241878|Q9UG56-2|PISD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 678.306884765625 2 678.308081 1354.60161 3.9616 0.0026872 -1.076 -0.00072986 2.8856 0.0019573 678.30699549116 60.516 0.19486 61.179 61.069 61.264 0.66261 13 8 2 0 0 0 0.045687 1 27711 27711 52.268 42.885 1 561780 11746 9845 7382 7403 13774 13774 106 -0.061508640625561384 IYLEKLKTI 9 Unmodified _IYLEKLKTI_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.23797607421875 3 374.237392 1119.69035 2.8517 0.0010672 0.087423 3.2717E-05 2.9391 0.0010999 374.23727780162056 48.438 0.31109 48.438 48.289 48.6 0 55 22 3 0 0 0 0.0079462 2 22200 22157;22200 69.338 44.347 1 2705800 11747 5155 7383 7404 13775;13776 13776 0.13528919239411152 IYLEKLKTI 9 Unmodified _IYLEKLKTI_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.85400390625 2 560.85245 1119.69035 3.2222 0.0018072 -0.57208 -0.00032085 2.6502 0.0014863 560.8520371389811 47.316 0.30488 48.145 48.013 48.318 0.82915 37 17 3 0 0 0 0.0066378 2 21587 21534;21587 88.364 38.431 1 1688100 11748 5155 7383 7404 13777;13778 13778 0.13528919239411152 IYLEKLKTI 9 Unmodified _IYLEKLKTI_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.2382507324219 3 374.237392 1119.69035 2.3044 0.00086239 0.8603 0.00032196 3.1647 0.0011843 374.2377443925577 47.316 0.29184 48.145 48.013 48.305 0.82915 41 16 3 0 0 0 0.021401 1 21602 21602 61.09 41.464 1 2465800 11749 5155 7383 7404 13779 13779 0.13528919239411152 IYLEKLKTI 9 Unmodified _IYLEKLKTI_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.238525390625 3 374.237392 1119.69035 2.9147 0.0010908 0.15412 5.7677E-05 3.0688 0.0011485 374.2372327564316 48.231 0.29713 48.493 48.319 48.616 0.2621 34 13 4 0 0 0 0.0079462 1 22048 22048 78.06 53.07 1 3161200 11750 5155 7383 7404 13780 13780 0.13528919239411152 IYLEKLKTI 9 Unmodified _IYLEKLKTI_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.2384033203125 3 374.237392 1119.69035 2.6875 0.0010058 0.4038 0.00015112 3.0913 0.0011569 374.237491480991 47.605 0.30483 48.259 48.127 48.432 0.65356 32 13 3 0 0 0 0.0061394 1 21797 21797 73.196 47.199 1 2429400 11751 5155 7383 7404 13781 13781 0.13528919239411152 IYLEKLKTI 9 Unmodified _IYLEKLKTI_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 560.85245 1119.69035 3.4888 0.0019567 -0.47406 -0.00026588 3.0147 0.0016908 560.8521385708162 48.448 0.35981 48.448 48.269 48.629 0 0.11149 -4.0941E-05 NaN 88.364 53 25 3 NaN NaN NaN NaN 0 NaN NaN 0 2032000 11752 5155 7383 7404 0.13528919239411152 IYLEKLKTI 9 Unmodified _IYLEKLKTI_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 560.85245 1119.69035 3.7427 0.0020991 -0.38955 -0.00021848 3.3531 0.0018806 560.8523383606353 48.233 0.2872 48.495 48.319 48.606 0.26209 0.15807 5.3859E-05 NaN 88.364 25 12 3 NaN NaN NaN NaN 0 NaN NaN 0 2005600 11753 5155 7383 7404 0.13528919239411152 IYLEKLKTI 9 Unmodified _IYLEKLKTI_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 560.85245 1119.69035 3.5626 0.0019981 -0.33871 -0.00018997 3.2239 0.0018081 560.8522712294431 47.605 0.30849 48.259 48.09 48.398 0.65356 -0.077979 0.00011088 NaN 88.364 30 13 3 NaN NaN NaN NaN 0 NaN NaN 0 1953000 11754 5155 7383 7404 0.13528919239411152 IYLNNIIPRF 10 Unmodified _IYLNNIIPRF_ 0 0 0 nc|ENSG00000196369|P0DMP2|SRGAP2B;ENSG00000196369|ENST00000641863|SRGAP2B;ENSG00000171943|ENST00000367123|SRGAP2C;ENSG00000266028|ENST00000573034|SRGAP2 nc|ENSG00000196369|P0DMP2|SRGAP2B nc|ENSG00000196369|P0DMP2|SRGAP2B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 631.869140625 2 631.866423 1261.71829 NaN NaN NaN NaN NaN NaN NaN 82.957 1 83.204 82.704 83.704 0.24722 0 0 0 0.53959 1 38185 38185 29.082 10.708 1 11755 4844 7384 7405 13782 13782 0.09790242219492029 IYLPEVRKI 9 Unmodified _IYLPEVRKI_ 0 0 0 nc|ENSG00000130338|Q9NRJ4-2|TULP4;ENSG00000130338|ENST00000367097|TULP4 nc|ENSG00000130338|Q9NRJ4-2|TULP4 nc|ENSG00000130338|Q9NRJ4-2|TULP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 377.5704650878906 3 377.569253 1129.68593 2.7241 0.0010285 -0.034865 -1.3164E-05 2.6892 0.0010154 377.56920026470203 49.933 0.48355 49.933 49.646 50.13 0 46 23 3 0 0 0 0.084899 2 22848 22848;22897 36.506 14.246 1 1020800 11756 2589 7385 7406 13783;13784 13783 0.126274548164929 IYLPEVRKI 9 Unmodified _IYLPEVRKI_ 0 0 0 nc|ENSG00000130338|Q9NRJ4-2|TULP4;ENSG00000130338|ENST00000367097|TULP4 nc|ENSG00000130338|Q9NRJ4-2|TULP4 nc|ENSG00000130338|Q9NRJ4-2|TULP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 377.57000732421875 3 377.569253 1129.68593 2.4973 0.0009429 -0.24539 -9.2652E-05 2.2519 0.00085025 377.56914702135714 48.973 0.47723 49.801 49.491 49.969 0.82705 64 26 3 0 0 0 0.063112 3 22292 22241;22292;22351 41.956 21.541 1 810550 11757 2589 7385 7406 13785;13786;13787 13786 0.126274548164929 IYLPEVRKI 9 Unmodified _IYLPEVRKI_ 0 0 0 nc|ENSG00000130338|Q9NRJ4-2|TULP4;ENSG00000130338|ENST00000367097|TULP4 nc|ENSG00000130338|Q9NRJ4-2|TULP4 nc|ENSG00000130338|Q9NRJ4-2|TULP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.5696716308594 3 377.569253 1129.68593 2.7918 0.0010541 -0.18234 -6.8846E-05 2.6095 0.00098526 377.5690716036672 49.104 0.25124 49.759 49.664 49.915 0.65524 15 8 2 0 0 0 1.0081 1 22505 22505 3.8763 0.28927 1 427480 11758 2589 7385 7406 13788 13788 0.126274548164929 IYLPEVRKI 9 Unmodified _IYLPEVRKI_ 0 0 0 nc|ENSG00000130338|Q9NRJ4-2|TULP4;ENSG00000130338|ENST00000367097|TULP4 nc|ENSG00000130338|Q9NRJ4-2|TULP4 nc|ENSG00000130338|Q9NRJ4-2|TULP4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 377.569253 1129.68593 2.8002 0.0010573 -0.39621 -0.0001496 2.4039 0.00090766 377.5691030404339 49.567 0.46325 49.829 49.645 50.108 0.26146 -0.0015733 -0.00021437 NaN 41.956 32 18 2 NaN NaN NaN NaN 0 NaN NaN 0 304500 11759 2589 7385 7406 0.126274548164929 IYLPYLHEW 9 Unmodified _IYLPYLHEW_ 0 0 0 ENST00000543087.5_1_11:18512432-18536353:-|nuORF;ENST00000545247.6_1_11:18505612-18548363:-|nuORF;ENSG00000074319|ENST00000251968|TSG101 ENST00000543087.5_1_11:18512432-18536353:-|nuORF ENST00000543087.5_1_11:18512432-18536353:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 617.3204345703125 2 617.318774 1232.623 2.7302 0.0016854 0.49738 0.00030704 3.2276 0.0019924 617.3190232781332 79.357 0.2397 79.677 79.574 79.814 0.31998 46 19 3 0 0 0 0.071101 1 38779 38779 39.957 19.504 1 2117500 11760 8823 7386 7407 13789 13789 0.015988890284461377 IYLPYLHEW 9 Unmodified _IYLPYLHEW_ 0 0 0 ENST00000543087.5_1_11:18512432-18536353:-|nuORF;ENST00000545247.6_1_11:18505612-18548363:-|nuORF;ENSG00000074319|ENST00000251968|TSG101 ENST00000543087.5_1_11:18512432-18536353:-|nuORF ENST00000543087.5_1_11:18512432-18536353:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 617.3209838867188 2 617.318774 1232.623 3.3627 0.0020759 0.040246 2.4845E-05 3.403 0.0021007 617.318849063308 80.352 0.27946 80.602 80.464 80.743 0.24947 32 17 2 0 0 0 0.071101 1 36971 36971 39.957 26.915 1 663790 11761 8823 7386 7407 13790 13790 0.015988890284461377 IYLPYLHEW 9 Unmodified _IYLPYLHEW_ 0 0 0 ENST00000543087.5_1_11:18512432-18536353:-|nuORF;ENST00000545247.6_1_11:18505612-18548363:-|nuORF;ENSG00000074319|ENST00000251968|TSG101 ENST00000543087.5_1_11:18512432-18536353:-|nuORF ENST00000543087.5_1_11:18512432-18536353:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 617.3223876953125 2 617.318774 1232.623 3.6594 0.002259 -0.041392 -2.5552E-05 3.618 0.0022335 617.3187762063973 79.803 0.25861 80.464 80.334 80.593 0.66082 26 13 3 0 0 0 0.023109 1 36772 36772 64.236 40.216 1 709760 11762 8823 7386 7407 13791 13791 0.015988890284461377 IYLRDPVQV 9 Unmodified _IYLRDPVQV_ 0 0 0 nc|ENSG00000134900|P29144|TPP2;ENSG00000134900|ENST00000376052|TPP2 nc|ENSG00000134900|P29144|TPP2 nc|ENSG00000134900|P29144|TPP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.8185424804688 2 551.816399 1101.61824 2.9575 0.001632 0.59904 0.00033056 3.5565 0.0019626 551.8166573319041 54.173 0.34646 54.968 54.799 55.146 0.79552 44 19 3 0 0 0 0.026853 3 24731 24680;24731;24768 59.368 21.193 1 628870 11763 2836 7387 7408 13792;13793;13794 13793 0.07150004885693306 IYLRDPVQV 9 Unmodified _IYLRDPVQV_ 0 0 0 nc|ENSG00000134900|P29144|TPP2;ENSG00000134900|ENST00000376052|TPP2 nc|ENSG00000134900|P29144|TPP2 nc|ENSG00000134900|P29144|TPP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 551.8179931640625 2 551.816399 1101.61824 3.2923 0.0018167 0.50178 0.00027689 3.794 0.0020936 551.8166247234907 55.119 0.16843 55.385 55.329 55.498 0.26543 16 10 2 0 0 0 0.020338 1 25209 25209 67.838 10.116 1 1898800 11764 2836 7387 7408 13795 13795 0.07150004885693306 IYLRDPVQV 9 Unmodified _IYLRDPVQV_ 0 0 0 nc|ENSG00000134900|P29144|TPP2;ENSG00000134900|ENST00000376052|TPP2 nc|ENSG00000134900|P29144|TPP2 nc|ENSG00000134900|P29144|TPP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.818115234375 2 551.816399 1101.61824 3.4103 0.0018818 0.39541 0.00021819 3.8057 0.0021 551.8163659489916 54.37 0.21593 55.037 54.903 55.119 0.6665 19 11 2 0 0 0 0.020338 1 24871 24871 67.838 10.116 1 1275700 11765 2836 7387 7408 13796 13796 0.07150004885693306 IYLRLWKRN 9 Unmodified _IYLRLWKRN_ 0 0 0 nc|ENSG00000136250|P28039-2|AOAH;ENSG00000136250|ENST00000617537|AOAH nc|ENSG00000136250|P28039-2|AOAH nc|ENSG00000136250|P28039-2|AOAH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.2570495605469 3 421.25578 1260.74551 NaN NaN NaN NaN NaN NaN NaN 28.173 1 28.959 28.459 29.459 0.78627 0 0 0 0.83378 1 12682 12682 8.1555 2.7528 1 11766 2938 7388 7409 13797 13797 0.12556770550554575 IYLSKPTHW 9 Unmodified _IYLSKPTHW_ 0 0 0 ENSG00000047315|ENST00000314595|POLR2B ENSG00000047315|ENST00000314595|POLR2B ENSG00000047315|ENST00000314595|POLR2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 382.2107849121094 3 382.209836 1143.60768 2.9622 0.0011322 -0.59811 -0.0002286 2.3641 0.00090358 382.5439259881481 40.317 0.21703 40.585 40.46 40.677 0.26836 9 6 2 0 0 0 0.099775 1 18342 18342 24.882 12.641 1 641720 11767 555 7389 7410 13798 13798 0.041620222312758415 IYLSKPTHW 9 Unmodified _IYLSKPTHW_ 0 0 0 ENSG00000047315|ENST00000314595|POLR2B ENSG00000047315|ENST00000314595|POLR2B ENSG00000047315|ENST00000314595|POLR2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.5454406738281 3 382.209836 1143.60768 2.9701 0.0011352 -1.0452 -0.00039949 1.9249 0.00073572 382.54393019740326 39.848 0.19245 40.49 40.355 40.548 0.64136 15 8 3 0 0 0 0.19064 1 18232 18232 22.658 5.5452 1 518930 11768 555 7389 7410 13799 13799 0.041620222312758415 IYLSRDNEK 9 Unmodified _IYLSRDNEK_ 0 0 0 REV__ENSG00000163781|ENST00000260810|TOPBP1 REV__ENSG00000163781|ENST00000260810|TOPBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.2991943359375 2 569.29857 1136.58259 3.2214 0.0018339 -0.36617 -0.00020846 2.8552 0.0016255 569.2979713225799 13.198 0.12304 13.441 13.373 13.496 0.24346 9 7 2 0 0 0 0.89849 1 5754 5754 5.7319 0 1 155330 + 11769 13025 7390 7411 13800 13800 0.019759226380301698 IYLWWWEQKEE 11 Unmodified _IYLWWWEQKEE_ 0 0 0 REV__ENSG00000025796|ENST00000369002|SEC63 REV__ENSG00000025796|ENST00000369002|SEC63 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 804.9972534179688 2 805.387916 1608.76128 NaN NaN NaN NaN NaN NaN NaN 90.677 1 90.677 90.177 91.177 0 0 0 0 1.0082 1 47724 47724 0 0 1 + 11770 10277 7391 7412 13801 13801 -0.018750325137261825 IYLWWWEQKEE 11 Unmodified _IYLWWWEQKEE_ 0 0 0 REV__ENSG00000025796|ENST00000369002|SEC63 REV__ENSG00000025796|ENST00000369002|SEC63 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 805.5493774414062 2 805.387916 1608.76128 NaN NaN NaN NaN NaN NaN NaN 91.405 1 91.405 90.905 91.905 0 0 0 0 1.008 1 48280 48280 0.35063 0.043601 1 + 11771 10277 7391 7412 13802 13802 -0.018750325137261825 IYMDTLNIF 9 Unmodified _IYMDTLNIF_ 0 0 0 ENSG00000165678|ENST00000372134|GHITM ENSG00000165678|ENST00000372134|GHITM ENSG00000165678|ENST00000372134|GHITM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 565.2852783203125 2 565.283543 1128.55253 4.22 0.0023855 -0.43587 -0.00024639 3.7842 0.0021391 565.2835763785375 94.134 0.24104 94.394 94.287 94.528 0.25975 12 9 2 0 0 0 0.7295 1 43303 43303 8.5933 3.3626 1 266640 11772 4415 7392 7413 13803 13803 -0.0066015235152008245 IYMDTLNIF 9 Unmodified _IYMDTLNIF_ 0 0 0 ENSG00000165678|ENST00000372134|GHITM ENSG00000165678|ENST00000372134|GHITM ENSG00000165678|ENST00000372134|GHITM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 565.2855834960938 2 565.283543 1128.55253 NaN NaN NaN NaN NaN NaN NaN 93.619 1 94.251 93.751 94.751 0.63115 0 0 0 0.22092 1 43064 43064 30.225 12.09 1 11773 4415 7392 7413 13804 13804 -0.0066015235152008245 IYMEDGLIKQI 11 Unmodified _IYMEDGLIKQI_ 0 0 0 nc|ENSG00000113657|Q14195|DPYSL3;ENSG00000113657|ENST00000343218|DPYSL3;ENST00000519672.1_1_5:146788331-146833150:-|nuORF;nc|ENSG00000092964|Q16555|DPYSL2;ENSG00000092964|ENST00000521913|DPYSL2 nc|ENSG00000113657|Q14195|DPYSL3 nc|ENSG00000113657|Q14195|DPYSL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 661.8566284179688 2 661.854864 1321.69517 3.9474 0.0026126 0.38365 0.00025392 4.331 0.0028665 661.8549273200159 66.415 0.20619 66.664 66.559 66.765 0.24847 20 11 2 0 0 0 0.013833 1 30414 30414 63.227 39.207 1 755260 11774 1869 7393 7414 13805 13805 0.04719435319884724 IYMEDGLIKQI 11 Unmodified _IYMEDGLIKQI_ 0 0 0 nc|ENSG00000113657|Q14195|DPYSL3;ENSG00000113657|ENST00000343218|DPYSL3;ENST00000519672.1_1_5:146788331-146833150:-|nuORF;nc|ENSG00000092964|Q16555|DPYSL2;ENSG00000092964|ENST00000521913|DPYSL2 nc|ENSG00000113657|Q14195|DPYSL3 nc|ENSG00000113657|Q14195|DPYSL3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 661.854864 1321.69517 4.0472 0.0026786 0.073546 4.8677E-05 4.1207 0.0027273 662.3568225395154 65.801 0.1711 66.457 66.37 66.541 0.65672 -0.10323 -0.00023862 NaN 63.227 18 10 2 NaN NaN NaN NaN 0 NaN NaN 0 645030 11775 1869 7393 7414 0.04719435319884724 IYNGDMEKI 9 Unmodified _IYNGDMEKI_ 0 0 0 ENSG00000176171|ENST00000368636|BNIP3;ENST00000550043.1_1_14:28733783-28734191:+|nuORF ENSG00000176171|ENST00000368636|BNIP3 ENSG00000176171|ENST00000368636|BNIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.764892578125 2 541.762975 1081.5114 3.4542 0.0018714 -0.011277 -6.1095E-06 3.4429 0.0018653 541.763252932452 37.394 0.61669 37.394 37.168 37.784 0 76 23 5 0 0 0 3.1999E-05 3 16920 16920;16982;17044 139.78 36.034 1 51727000 11776 5066 7394 7415 13806;13807;13808 13806 -0.0260991339098382 IYNGDMEKI 9 Unmodified _IYNGDMEKI_ 0 0 0 ENSG00000176171|ENST00000368636|BNIP3;ENST00000550043.1_1_14:28733783-28734191:+|nuORF ENSG00000176171|ENST00000368636|BNIP3 ENSG00000176171|ENST00000368636|BNIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.7654418945312 2 541.762975 1081.5114 3.1755 0.0017204 0.43577 0.00023608 3.6113 0.0019565 541.763677796178 36.25 0.68952 37.043 36.816 37.505 0.79342 101 31 5 0 0 0 3.1999E-05 4 16430 16375;16430;16485;16539 139.78 47.29 1 48632000 11777 5066 7394 7415 13809;13810;13811;13812 13810 -0.0260991339098382 IYNGDMEKI 9 Unmodified _IYNGDMEKI_ 0 0 0 ENSG00000176171|ENST00000368636|BNIP3;ENST00000550043.1_1_14:28733783-28734191:+|nuORF ENSG00000176171|ENST00000368636|BNIP3 ENSG00000176171|ENST00000368636|BNIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.7648315429688 2 541.762975 1081.5114 3.4651 0.0018773 0.054376 2.9459E-05 3.5195 0.0019067 541.7632616059864 37.381 0.71019 37.642 37.383 38.093 0.26083 67 22 5 0 0 0 8.7541E-05 3 17028 16966;17028;17086 136.39 47.489 1 25850000 11778 5066 7394 7415 13813;13814;13815 13814 -0.0260991339098382 IYNGDMEKI 9 Unmodified _IYNGDMEKI_ 0 0 0 ENSG00000176171|ENST00000368636|BNIP3;ENST00000550043.1_1_14:28733783-28734191:+|nuORF ENSG00000176171|ENST00000368636|BNIP3 ENSG00000176171|ENST00000368636|BNIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.7648315429688 2 541.762975 1081.5114 3.4703 0.0018801 0.12818 6.9445E-05 3.5985 0.0019495 541.7633752259643 36.796 0.64355 37.426 37.109 37.752 0.62999 105 26 6 0 0 0 3.1999E-05 4 16798 16743;16798;16848;16907 139.78 36.082 1 18803000 11779 5066 7394 7415 13816;13817;13818;13819 13817 -0.0260991339098382 IYNGDMEKI 9 Oxidation (M) _IYNGDM(Oxidation (M))EKI_ IYNGDM(1)EKI IYNGDM(86)EKI 0 0 1 ENSG00000176171|ENST00000368636|BNIP3;ENST00000550043.1_1_14:28733783-28734191:+|nuORF ENSG00000176171|ENST00000368636|BNIP3 ENSG00000176171|ENST00000368636|BNIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.761962890625 2 549.760432 1097.50631 2.8975 0.0015929 -0.28707 -0.00015782 2.6104 0.0014351 549.7603074934729 24.246 0.21712 24.982 24.89 25.107 0.73623 68 43 2 0 0 0 0.0076144 2 10877 10835;10877 86.332 34.985 1 4329500 11780 5066 7394 7416 13820;13821 13821 68 -0.03854217253592651 IYNGDMEKI 9 Oxidation (M) _IYNGDM(Oxidation (M))EKI_ IYNGDM(1)EKI IYNGDM(110)EKI 0 0 1 ENSG00000176171|ENST00000368636|BNIP3;ENST00000550043.1_1_14:28733783-28734191:+|nuORF ENSG00000176171|ENST00000368636|BNIP3 ENSG00000176171|ENST00000368636|BNIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.7619018554688 2 549.760432 1097.50631 3.6582 0.0020111 -0.20008 -0.00010999 3.4581 0.0019012 549.7604004765594 25.058 0.32046 25.326 25.188 25.508 0.26777 105 46 3 0 0 0 0.001731 3 11358 11313;11358;11398 106.94 50.763 1 3622300 11781 5066 7394 7416 13822;13823;13824 13823 68 -0.03854217253592651 IYNGDMEKI 9 Oxidation (M) _IYNGDM(Oxidation (M))EKI_ IYNGDM(1)EKI IYNGDM(68)EKI 0 0 1 ENSG00000176171|ENST00000368636|BNIP3;ENST00000550043.1_1_14:28733783-28734191:+|nuORF ENSG00000176171|ENST00000368636|BNIP3 ENSG00000176171|ENST00000368636|BNIP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.7617797851562 2 549.760432 1097.50631 NaN NaN NaN NaN NaN NaN NaN 24.662 1 25.291 24.791 25.791 0.62915 0 0 0 0.023234 1 11288 11288 67.838 17.905 1 11782 5066 7394 7416 13825 13825 68 -0.03854217253592651 IYNGDMEKI 9 Oxidation (M) _IYNGDM(Oxidation (M))EKI_ IYNGDM(1)EKI IYNGDM(100)EKI 0 0 1 ENSG00000176171|ENST00000368636|BNIP3;ENST00000550043.1_1_14:28733783-28734191:+|nuORF ENSG00000176171|ENST00000368636|BNIP3 ENSG00000176171|ENST00000368636|BNIP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.7621459960938 2 549.760432 1097.50631 NaN NaN NaN NaN NaN NaN NaN 24.768 1 25.397 24.897 25.897 0.62915 0 0 0 0.00058728 1 11337 11337 100.09 52.342 1 11783 5066 7394 7416 13826 13826 68 -0.03854217253592651 IYNGDMEKILL 11 Unmodified _IYNGDMEKILL_ 0 0 0 ENSG00000176171|ENST00000368636|BNIP3;ENST00000550043.1_1_14:28733783-28734191:+|nuORF ENSG00000176171|ENST00000368636|BNIP3 ENSG00000176171|ENST00000368636|BNIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 654.8504638671875 2 654.847039 1307.67952 3.0839 0.0020195 0.019969 1.3077E-05 3.1039 0.0020326 654.8468739622276 68.441 0.19061 68.441 68.323 68.514 0 40 24 2 0 0 0 5.8166E-05 1 32928 32928 92.201 44.452 1 3656700 11784 5066 7395 7417 13827 13827 0.03799148802841046 IYNGDMEKILL 11 Unmodified _IYNGDMEKILL_ 0 0 0 ENSG00000176171|ENST00000368636|BNIP3;ENST00000550043.1_1_14:28733783-28734191:+|nuORF ENSG00000176171|ENST00000368636|BNIP3 ENSG00000176171|ENST00000368636|BNIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 654.8494262695312 2 654.847039 1307.67952 4.042 0.0026469 -0.3681 -0.00024105 3.6739 0.0024059 654.8468461927409 68.207 0.27799 68.459 68.309 68.587 0.25227 48 19 3 0 0 0 8.722E-16 2 31218 31218;31271 135.87 88.126 1 2258000 11785 5066 7395 7417 13828;13829 13828 0.03799148802841046 IYNGDMEKILL 11 Unmodified _IYNGDMEKILL_ 0 0 0 ENSG00000176171|ENST00000368636|BNIP3;ENST00000550043.1_1_14:28733783-28734191:+|nuORF ENSG00000176171|ENST00000368636|BNIP3 ENSG00000176171|ENST00000368636|BNIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 654.8496704101562 2 654.847039 1307.67952 3.8868 0.0025453 -0.47101 -0.00030844 3.4158 0.0022368 654.8468052872732 67.637 0.30893 68.294 68.146 68.455 0.65777 54 19 4 0 0 0 9.8699E-15 2 31018 30971;31018 125.18 67.459 1 2135700 11786 5066 7395 7417 13830;13831 13831 0.03799148802841046 IYNGKLFDLL 10 Unmodified _IYNGKLFDLL_ 0 0 0 nc|ENSG00000142945|Q99661-2|KIF2C;ENSG00000142945|ENST00000372224|KIF2C nc|ENSG00000142945|Q99661-2|KIF2C nc|ENSG00000142945|Q99661-2|KIF2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 598.3414916992188 2 598.339707 1194.66486 2.814 0.0016837 0.22868 0.00013683 3.0427 0.0018205 598.3400899222074 80.641 0.20986 80.81 80.717 80.927 0.16862 22 15 2 0 0 0 0.0062109 1 39544 39544 107.1 27.503 1 1721400 11787 3335 7396 7418 13832 13832 0.0753144471698306 IYNGKLFDLL 10 Unmodified _IYNGKLFDLL_ 0 0 0 nc|ENSG00000142945|Q99661-2|KIF2C;ENSG00000142945|ENST00000372224|KIF2C nc|ENSG00000142945|Q99661-2|KIF2C nc|ENSG00000142945|Q99661-2|KIF2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.342041015625 2 598.339707 1194.66486 3.5763 0.0021398 1.0623 0.00063561 4.6386 0.0027754 598.340300156009 81.587 0.24672 81.835 81.715 81.962 0.24802 23 10 3 0 0 0 0.040143 1 37547 37547 74.2 20.796 1 1092300 11788 3335 7396 7418 13833 13833 0.0753144471698306 IYNGKLFDLL 10 Unmodified _IYNGKLFDLL_ 0 0 0 nc|ENSG00000142945|Q99661-2|KIF2C;ENSG00000142945|ENST00000372224|KIF2C nc|ENSG00000142945|Q99661-2|KIF2C nc|ENSG00000142945|Q99661-2|KIF2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 598.3411254882812 2 598.339707 1194.66486 4.0898 0.0024471 -0.21787 -0.00013036 3.8719 0.0023167 598.3393517696002 80.891 0.27565 81.551 81.421 81.697 0.65997 23 11 3 0 0 0 0.055899 1 37261 37261 70.332 26.474 1 922160 11789 3335 7396 7418 13834 13834 0.0753144471698306 IYNGKLFDLL 10 Unmodified _IYNGKLFDLL_ 0 0 0 nc|ENSG00000142945|Q99661-2|KIF2C;ENSG00000142945|ENST00000372224|KIF2C nc|ENSG00000142945|Q99661-2|KIF2C nc|ENSG00000142945|Q99661-2|KIF2C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 598.339707 1194.66486 4.0898 0.0024471 -0.21787 -0.00013036 3.8719 0.0023167 598.3393517696002 80.891 0.27565 81.551 81.421 81.697 0.65997 -0.14183 -0.00078041 NaN 74.2 23 11 3 NaN NaN NaN NaN 0 NaN NaN 0 922160 11790 3335 7396 7418 0.0753144471698306 IYNQVKQII 9 Unmodified _IYNQVKQII_ 0 0 0 nc|ENSG00000075711|Q12959-8|DLG1;nc|ENSG00000075711|Q12959-9|DLG1;nc|ENSG00000075711|Q12959-5|DLG1;nc|ENSG00000075711|Q12959-3|DLG1;nc|ENSG00000075711|Q12959-6|DLG1;ENSG00000075711|ENST00000667157|DLG1;nc|ENSG00000075711|Q12959|DLG1;nc|ENSG00000075711|Q12959-7|DLG1;nc|ENSG00000075711|Q12959-2|DLG1 nc|ENSG00000075711|Q12959-8|DLG1 nc|ENSG00000075711|Q12959-8|DLG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.8339233398438 2 559.832049 1117.64954 3.3 0.0018475 -0.20155 -0.00011283 3.0985 0.0017346 559.831741226531 47.801 0.25803 47.801 47.697 47.955 0 36 14 4 0 0 0 0.0012577 2 21876 21876;21935 123.45 51.456 1 5099900 11791 836 7397 7419 13835;13836 13835 0.09542577919796713 IYNQVKQII 9 Unmodified _IYNQVKQII_ 0 0 0 nc|ENSG00000075711|Q12959-8|DLG1;nc|ENSG00000075711|Q12959-9|DLG1;nc|ENSG00000075711|Q12959-5|DLG1;nc|ENSG00000075711|Q12959-3|DLG1;nc|ENSG00000075711|Q12959-6|DLG1;ENSG00000075711|ENST00000667157|DLG1;nc|ENSG00000075711|Q12959|DLG1;nc|ENSG00000075711|Q12959-7|DLG1;nc|ENSG00000075711|Q12959-2|DLG1 nc|ENSG00000075711|Q12959-8|DLG1 nc|ENSG00000075711|Q12959-8|DLG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.8343505859375 2 559.832049 1117.64954 3.2182 0.0018017 -0.27887 -0.00015612 2.9394 0.0016456 559.8319722230975 46.733 0.28781 47.562 47.448 47.735 0.82915 42 14 4 0 0 0 9.285E-05 2 21259 21259;21309 136.33 68.99 1 3368900 11792 836 7397 7419 13837;13838 13837 0.09542577919796713 IYNQVKQII 9 Unmodified _IYNQVKQII_ 0 0 0 nc|ENSG00000075711|Q12959-8|DLG1;nc|ENSG00000075711|Q12959-9|DLG1;nc|ENSG00000075711|Q12959-5|DLG1;nc|ENSG00000075711|Q12959-3|DLG1;nc|ENSG00000075711|Q12959-6|DLG1;ENSG00000075711|ENST00000667157|DLG1;nc|ENSG00000075711|Q12959|DLG1;nc|ENSG00000075711|Q12959-7|DLG1;nc|ENSG00000075711|Q12959-2|DLG1 nc|ENSG00000075711|Q12959-8|DLG1 nc|ENSG00000075711|Q12959-8|DLG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.833984375 2 559.832049 1117.64954 3.7668 0.0021088 -0.27112 -0.00015178 3.4957 0.001957 559.8317250138952 47.675 0.19473 47.939 47.888 48.083 0.26363 23 14 2 0 0 0 0.0013631 1 21791 21791 115.69 50.457 1 1791500 11793 836 7397 7419 13839 13839 0.09542577919796713 IYNQVKQII 9 Unmodified _IYNQVKQII_ 0 0 0 nc|ENSG00000075711|Q12959-8|DLG1;nc|ENSG00000075711|Q12959-9|DLG1;nc|ENSG00000075711|Q12959-5|DLG1;nc|ENSG00000075711|Q12959-3|DLG1;nc|ENSG00000075711|Q12959-6|DLG1;ENSG00000075711|ENST00000667157|DLG1;nc|ENSG00000075711|Q12959|DLG1;nc|ENSG00000075711|Q12959-7|DLG1;nc|ENSG00000075711|Q12959-2|DLG1 nc|ENSG00000075711|Q12959-8|DLG1 nc|ENSG00000075711|Q12959-8|DLG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.83349609375 2 559.832049 1117.64954 3.4945 0.0019563 -0.29944 -0.00016763 3.195 0.0017887 559.8315169881284 47.004 0.23108 47.656 47.605 47.836 0.65219 28 19 2 0 0 0 0.0020408 2 21566 21519;21566 103.75 50.397 1 2060400 11794 836 7397 7419 13840;13841 13841 0.09542577919796713 IYNRRELYHRR 11 Unmodified _IYNRRELYHRR_ 0 0 0 REV__TSPYL1|p.K397Rfs*15|1|0.28|ENSG00000189241|chr6:116278640-116278641|TT/-|frameshift_variant REV__TSPYL1|p.K397Rfs*15|1|0.28|ENSG00000189241|chr6:116278640-116278641|TT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 788.4338989257812 2 788.43439 1574.85423 NaN NaN NaN NaN NaN NaN NaN 94.908 1 94.908 94.408 95.408 0 0 0 0 1.0071 1 51005 51005 1.4819 0 1 + 11795 14177 7398 7420 13842 13842 0.08979329782869172 IYPDSFTVL 9 Unmodified _IYPDSFTVL_ 0 0 0 ENSG00000111832|ENST00000466444|RWDD1 ENSG00000111832|ENST00000466444|RWDD1 ENSG00000111832|ENST00000466444|RWDD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.778564453125 2 527.776408 1053.53826 3.1082 0.0016404 0.47177 0.00024899 3.5799 0.0018894 527.776906133632 81.705 0.51883 81.953 81.697 82.216 0.24803 59 27 3 0 0 0 0.035095 3 37645 37595;37645;37695 53.576 23.351 1 1317700 11796 1778 7399 7421 13843;13844;13845 13844 0.01363518491848481 IYPDSFTVL 9 Unmodified _IYPDSFTVL_ 0 0 0 ENSG00000111832|ENST00000466444|RWDD1 ENSG00000111832|ENST00000466444|RWDD1 ENSG00000111832|ENST00000466444|RWDD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.778564453125 2 527.776408 1053.53826 3.3714 0.0017793 -0.22347 -0.00011794 3.1479 0.0016614 527.7764075891724 81.105 0.51791 81.765 81.485 82.003 0.65998 62 26 3 0 0 0 0.035095 3 37366 37317;37366;37415 53.576 23.351 1 1099400 11797 1778 7399 7421 13846;13847;13848 13847 0.01363518491848481 IYPDSFTVL 9 Unmodified _IYPDSFTVL_ 0 0 0 ENSG00000111832|ENST00000466444|RWDD1 ENSG00000111832|ENST00000466444|RWDD1 ENSG00000111832|ENST00000466444|RWDD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 527.776408 1053.53826 2.6179 0.0013817 0.5893 0.00031102 3.2072 0.0016927 528.2783180443586 81.821 0.080643 81.821 81.786 81.866 0 -0.025331 0.00038095 NaN 53.576 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 989620 11798 1778 7399 7421 0.01363518491848481 IYPELQIERF 10 Unmodified _IYPELQIERF_ 0 0 0 ENSG00000077420|ENST00000376236|APBB1IP ENSG00000077420|ENST00000376236|APBB1IP ENSG00000077420|ENST00000376236|APBB1IP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 654.3582153320312 2 654.353345 1306.69214 NaN NaN NaN NaN NaN NaN NaN 69.441 1 69.441 68.941 69.941 0 0 0 0 0.13551 1 33530 33530 90.135 48.295 1 11799 863 7400 7422 13849 13849 0.051059282573760356 IYPELQIERF 10 Unmodified _IYPELQIERF_ 0 0 0 ENSG00000077420|ENST00000376236|APBB1IP ENSG00000077420|ENST00000376236|APBB1IP ENSG00000077420|ENST00000376236|APBB1IP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 654.3543090820312 2 654.353345 1306.69214 3.0946 0.002025 -0.38424 -0.00025143 2.7104 0.0017735 654.3529477921223 68.42 0.26082 69.122 68.959 69.22 0.70218 47 24 3 0 0 0 0.0019162 3 32606 32561;32606;32656 100.09 61.915 1 3701200 11800 863 7400 7422 13850;13851;13852 13851 0.051059282573760356 IYPELQIERF 10 Unmodified _IYPELQIERF_ 0 0 0 ENSG00000077420|ENST00000376236|APBB1IP ENSG00000077420|ENST00000376236|APBB1IP ENSG00000077420|ENST00000376236|APBB1IP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 654.3553466796875 2 654.353345 1306.69214 3.9684 0.0025967 -0.1526 -9.9854E-05 3.8158 0.0024969 654.3531628509936 69.219 0.36066 69.474 69.299 69.659 0.25443 63 21 4 0 0 0 0.0019162 3 31714 31673;31714;31768 100.09 63.585 1 1984100 11801 863 7400 7422 13853;13854;13855 13854 0.051059282573760356 IYPELQIERF 10 Unmodified _IYPELQIERF_ 0 0 0 ENSG00000077420|ENST00000376236|APBB1IP ENSG00000077420|ENST00000376236|APBB1IP ENSG00000077420|ENST00000376236|APBB1IP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 654.355712890625 2 654.353345 1306.69214 3.7441 0.00245 0.10455 6.8411E-05 3.8487 0.0025184 654.3533120254549 68.699 0.39352 69.359 69.165 69.559 0.65924 85 28 4 0 0 0 0.0019162 3 31479 31431;31479;31524 100.09 68.822 1 2172100 11802 863 7400 7422 13856;13857;13858 13857 0.051059282573760356 IYPELYSILE 10 Unmodified _IYPELYSILE_ 0 0 0 ENSG00000100625|ENST00000216513|SIX4 ENSG00000100625|ENST00000216513|SIX4 ENSG00000100625|ENST00000216513|SIX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 620.32958984375 2 620.329005 1238.64346 NaN NaN NaN NaN NaN NaN NaN 43.385 1 43.655 43.155 44.155 0.27021 0 0 0 0.99774 1 19819 19819 3.5965 0.31518 1 11803 1232 7401 7423 13859 13859 0.033680148976145574 IYPEVVHMF 9 Unmodified _IYPEVVHMF_ 0 0 0 nc|ENSG00000078304|Q13362-4|PPP2R5C;ENSG00000078304|ENST00000694906|PPP2R5C;nc|ENSG00000078304|Q13362-2|PPP2R5C;nc|ENSG00000078304|Q13362-3|PPP2R5C;nc|ENSG00000078304|Q13362|PPP2R5C;nc|ENSG00000078304|Q13362-5|PPP2R5C;ENST00000553730.5_1_14:102276279-102348623:+|nuORF nc|ENSG00000078304|Q13362-4|PPP2R5C nc|ENSG00000078304|Q13362-4|PPP2R5C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.7868041992188 2 567.786253 1133.55795 NaN NaN NaN NaN NaN NaN NaN 70.493 1 70.493 69.993 70.993 0 0 0 0 0.52667 1 34213 34213 18.135 11.929 1 11804 876 7402 7424 13860 13860 -0.0034842876902985154 IYPEVVHMF 9 Unmodified _IYPEVVHMF_ 0 0 0 nc|ENSG00000078304|Q13362-4|PPP2R5C;ENSG00000078304|ENST00000694906|PPP2R5C;nc|ENSG00000078304|Q13362-2|PPP2R5C;nc|ENSG00000078304|Q13362-3|PPP2R5C;nc|ENSG00000078304|Q13362|PPP2R5C;nc|ENSG00000078304|Q13362-5|PPP2R5C;ENST00000553730.5_1_14:102276279-102348623:+|nuORF nc|ENSG00000078304|Q13362-4|PPP2R5C nc|ENSG00000078304|Q13362-4|PPP2R5C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.7886962890625 2 567.786253 1133.55795 3.4591 0.001964 0.37144 0.0002109 3.8305 0.0021749 567.7863597121369 70.283 0.42724 70.54 70.298 70.725 0.25642 43 32 2 0 0 0 0.069137 2 32187 32144;32187 40.449 30.265 1 411090 11805 876 7402 7424 13861;13862 13862 -0.0034842876902985154 IYPEVVHMF 9 Unmodified _IYPEVVHMF_ 0 0 0 nc|ENSG00000078304|Q13362-4|PPP2R5C;ENSG00000078304|ENST00000694906|PPP2R5C;nc|ENSG00000078304|Q13362-2|PPP2R5C;nc|ENSG00000078304|Q13362-3|PPP2R5C;nc|ENSG00000078304|Q13362|PPP2R5C;nc|ENSG00000078304|Q13362-5|PPP2R5C;ENST00000553730.5_1_14:102276279-102348623:+|nuORF nc|ENSG00000078304|Q13362-4|PPP2R5C nc|ENSG00000078304|Q13362-4|PPP2R5C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.7864990234375 2 567.786253 1133.55795 3.2508 0.0018457 0.02905 1.6494E-05 3.2798 0.0018622 567.7861472938382 69.808 0.36615 70.468 70.273 70.639 0.66071 36 26 2 0 0 0 0.069137 2 32019 31972;32019 40.449 30.265 1 549260 11806 876 7402 7424 13863;13864 13864 -0.0034842876902985154 IYPHGLVLL 9 Unmodified _IYPHGLVLL_ 0 0 0 ENST00000454078.1_1_6:71318605-71318935:-|nuORF;ENSG00000102172|ENST00000404933|SMS ENST00000454078.1_1_6:71318605-71318935:-|nuORF ENST00000454078.1_1_6:71318605-71318935:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.814697265625 2 512.813128 1023.6117 2.5684 0.0013171 0.30777 0.00015783 2.8762 0.001475 512.8132771923356 72.196 0.49728 72.196 71.862 72.359 0 87 47 2 0 0 0 0.020665 1 35062 35062 67.413 21.663 1 2504500 11807 1334 7403 7425 13865 13865 0.10084111724984268 IYPHGLVLL 9 Unmodified _IYPHGLVLL_ 0 0 0 ENST00000454078.1_1_6:71318605-71318935:-|nuORF;ENSG00000102172|ENST00000404933|SMS ENST00000454078.1_1_6:71318605-71318935:-|nuORF ENST00000454078.1_1_6:71318605-71318935:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.4754028320312 2 512.813128 1023.6117 2.692 0.0013805 0.18227 9.3471E-05 2.8743 0.001474 512.813189052458 71.146 0.40252 71.85 71.727 72.129 0.70386 83 47 2 0 0 0 0.011445 3 34240 34153;34219;34240 79.935 31.589 1 2940800 11808 1334 7403 7425 13866;13867;13868 13868 0.10084111724984268 IYPHGLVLL 9 Unmodified _IYPHGLVLL_ 0 0 0 ENST00000454078.1_1_6:71318605-71318935:-|nuORF;ENSG00000102172|ENST00000404933|SMS ENST00000454078.1_1_6:71318605-71318935:-|nuORF ENST00000454078.1_1_6:71318605-71318935:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.814453125 2 512.813128 1023.6117 3.1465 0.0016136 -0.29339 -0.00015046 2.8531 0.0014631 512.8130817180265 71.747 0.31631 72.005 71.933 72.25 0.25786 67 34 3 0 0 0 0.029407 2 32884 32884;32970 56.048 10.298 1 1893600 11809 1334 7403 7425 13869;13870 13869 0.10084111724984268 IYPHGLVLL 9 Unmodified _IYPHGLVLL_ 0 0 0 ENST00000454078.1_1_6:71318605-71318935:-|nuORF;ENSG00000102172|ENST00000404933|SMS ENST00000454078.1_1_6:71318605-71318935:-|nuORF ENST00000454078.1_1_6:71318605-71318935:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.3160400390625 2 512.813128 1023.6117 3.1659 0.0016235 1.2689 0.00065073 4.4348 0.0022742 513.3158999444568 70.922 0.13675 71.179 71.046 71.183 0.25642 15 9 2 0 0 0 0.10908 1 32467 32467 5.2307 0 1 337260 11810 1334 7403 7425 13871 13871 0.10084111724984268 IYPHGLVLL 9 Unmodified _IYPHGLVLL_ 0 0 0 ENST00000454078.1_1_6:71318605-71318935:-|nuORF;ENSG00000102172|ENST00000404933|SMS ENST00000454078.1_1_6:71318605-71318935:-|nuORF ENST00000454078.1_1_6:71318605-71318935:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.8147583007812 2 512.813128 1023.6117 2.8035 0.0014377 0.10144 5.2018E-05 2.905 0.0014897 512.8131402709123 71.263 0.59065 71.925 71.625 72.216 0.66208 103 41 3 0 0 0 0.020665 2 32651 32651;32699 67.413 27.456 1 1552400 11811 1334 7403 7425 13872;13873 13872 0.10084111724984268 IYPHGLVLL 9 Unmodified _IYPHGLVLL_ 0 0 0 ENST00000454078.1_1_6:71318605-71318935:-|nuORF;ENSG00000102172|ENST00000404933|SMS ENST00000454078.1_1_6:71318605-71318935:-|nuORF ENST00000454078.1_1_6:71318605-71318935:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 512.813128 1023.6117 2.9539 0.0015148 -0.12276 -6.2955E-05 2.8311 0.0014518 512.8129670286743 70.29 0.13908 70.953 70.89 71.029 0.66208 -0.11309 -0.00054306 NaN 14.582 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 284020 11812 1334 7403 7425 0.10084111724984268 IYPNDCSKEE 10 Unmodified _IYPNDCSKEE_ 0 0 0 REV__nc|ENSG00000000971|P08603-2|CFH REV__nc|ENSG00000000971|P08603-2|CFH MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 599.2599487304688 2 599.258253 1196.50195 NaN NaN NaN NaN NaN NaN NaN 59.728 1 59.987 59.487 60.487 0.2593 0 0 0 0.99225 1 27352 27352 6.7232 1.4925 1 + 11813 10151 7404 7426 13874 13874 -0.08843726467148372 IYPPKLHQF 9 Unmodified _IYPPKLHQF_ 0 0 0 ENSG00000105173|ENST00000262643|CCNE1;nc|ENSG00000105173|P24864-3|CCNE1;nc|ENSG00000105173|P24864-2|CCNE1 ENSG00000105173|ENST00000262643|CCNE1 ENSG00000105173|ENST00000262643|CCNE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.8235473632812 2 571.821484 1141.62842 3.5491 0.0020294 -0.030124 -1.7226E-05 3.519 0.0020122 571.8213801524543 40.533 0.72257 40.533 39.875 40.598 0 48 31 2 0 0 0 0.028312 2 18336 18336;18388 57.471 34.323 1 1762800 11814 1473 7405 7427 13875;13876 13875 0.0632661261092835 IYPPKLHQF 9 Unmodified _IYPPKLHQF_ 0 0 0 ENSG00000105173|ENST00000262643|CCNE1;nc|ENSG00000105173|P24864-3|CCNE1;nc|ENSG00000105173|P24864-2|CCNE1 ENSG00000105173|ENST00000262643|CCNE1 ENSG00000105173|ENST00000262643|CCNE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.5513000488281 3 381.550082 1141.62842 2.7718 0.0010576 0.038482 1.4683E-05 2.8103 0.0010723 381.5499738589567 40.578 1.0336 40.578 39.752 40.785 0 112 47 3 0 0 0 0.020718 3 18346 18346;18394;18476 60.074 43.925 1 3163400 11815 1473 7405 7427 13877;13878;13879 13877 0.0632661261092835 IYPPKLHQF 9 Unmodified _IYPPKLHQF_ 0 0 0 ENSG00000105173|ENST00000262643|CCNE1;nc|ENSG00000105173|P24864-3|CCNE1;nc|ENSG00000105173|P24864-2|CCNE1 ENSG00000105173|ENST00000262643|CCNE1 ENSG00000105173|ENST00000262643|CCNE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.5508728027344 3 381.550082 1141.62842 2.4869 0.00094886 0.48012 0.00018319 2.967 0.0011321 381.5501102367671 39.509 1.3879 40.309 39.341 40.729 0.80014 151 67 3 0 0 0 0.012869 6 17911 17710;17810;17861;17911;17961;18016 60.074 38.537 1 1351300 11816 1473 7405 7427 13880;13881;13882;13883;13884;13885 13883 0.0632661261092835 IYPPKLHQF 9 Unmodified _IYPPKLHQF_ 0 0 0 ENSG00000105173|ENST00000262643|CCNE1;nc|ENSG00000105173|P24864-3|CCNE1;nc|ENSG00000105173|P24864-2|CCNE1 ENSG00000105173|ENST00000262643|CCNE1 ENSG00000105173|ENST00000262643|CCNE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.824462890625 2 571.821484 1141.62842 NaN NaN NaN NaN NaN NaN NaN 39.501 1 40.301 39.801 40.801 0.80014 0 0 0 0.56337 1 17883 17883 16.942 5.302 1 11817 1473 7405 7427 13886 13886 0.0632661261092835 IYPPKLHQF 9 Unmodified _IYPPKLHQF_ 0 0 0 ENSG00000105173|ENST00000262643|CCNE1;nc|ENSG00000105173|P24864-3|CCNE1;nc|ENSG00000105173|P24864-2|CCNE1 ENSG00000105173|ENST00000262643|CCNE1 ENSG00000105173|ENST00000262643|CCNE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.82275390625 2 571.821484 1141.62842 NaN NaN NaN NaN NaN NaN NaN 39.588 1 40.388 39.888 40.888 0.80014 0 0 0 0.30236 1 17923 17923 26.884 18.728 1 11818 1473 7405 7427 13887 13887 0.0632661261092835 IYPPKLHQF 9 Unmodified _IYPPKLHQF_ 0 0 0 ENSG00000105173|ENST00000262643|CCNE1;nc|ENSG00000105173|P24864-3|CCNE1;nc|ENSG00000105173|P24864-2|CCNE1 ENSG00000105173|ENST00000262643|CCNE1 ENSG00000105173|ENST00000262643|CCNE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.5516357421875 3 381.550082 1141.62842 2.9534 0.0011269 0.24534 9.3611E-05 3.1987 0.0012205 381.5500923300335 40.425 0.50223 40.694 40.31 40.812 0.26904 32 18 2 0 0 0 0.028312 1 18276 18276 43.772 32.278 1 1000700 11819 1473 7405 7427 13888 13888 0.0632661261092835 IYPPKLHQF 9 Unmodified _IYPPKLHQF_ 0 0 0 ENSG00000105173|ENST00000262643|CCNE1;nc|ENSG00000105173|P24864-3|CCNE1;nc|ENSG00000105173|P24864-2|CCNE1 ENSG00000105173|ENST00000262643|CCNE1 ENSG00000105173|ENST00000262643|CCNE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.5513000488281 3 381.550082 1141.62842 NaN NaN NaN NaN NaN NaN NaN 39.806 1 40.448 39.948 40.948 0.64136 0 0 0 0.036939 1 18194 18194 43.772 32.278 1 11820 1473 7405 7427 13889 13889 0.0632661261092835 IYPQVLHSL 9 Unmodified _IYPQVLHSL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.3074340820312 2 535.305667 1068.59678 3.0091 0.0016108 0.22123 0.00011843 3.2304 0.0017292 535.305606663053 59.458 0.53061 59.717 59.424 59.955 0.2593 49 23 3 0 0 0 0.0081238 2 27215 27215;27264 85.272 54.635 1 1133400 11821 4953 7406 7428 13890;13891 13890 0.06522619856991696 IYPQVLHSL 9 Unmodified _IYPQVLHSL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.3085327148438 2 535.305667 1068.59678 3.2437 0.0017363 0.70715 0.00037854 3.9508 0.0021149 535.3062262438793 58.863 0.57937 59.53 59.153 59.732 0.66703 48 25 2 0 0 0 0.0081238 4 26887 26846;26887;26936;26989 85.272 54.635 1 927740 11822 4953 7406 7428 13892;13893;13894;13895 13893 0.06522619856991696 IYPSPTGVLI 10 Unmodified _IYPSPTGVLI_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1059.6104736328125 1 1059.60847 1058.6012 3.1456 0.0033331 1.1291 0.0011964 4.2747 0.0045295 1059.6101252418687 77.964 0.18133 78.218 78.125 78.306 0.25335 15 10 2 0 0 0 0.21136 1 35919 35919 37.974 5.5204 1 388420 11823 4968 7407 7429 13896 13896 0.07424084279909948 IYPTAPPRF 9 Unmodified _IYPTAPPRF_ 0 0 0 nc|ENSG00000143353|Q5VWZ2-2|LYPLAL1 nc|ENSG00000143353|Q5VWZ2-2|LYPLAL1 nc|ENSG00000143353|Q5VWZ2-2|LYPLAL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.2933349609375 2 531.292559 1060.57057 3.2461 0.0017246 0.36644 0.00019469 3.6125 0.0019193 531.2926304984023 49.027 0.2557 49.289 49.172 49.428 0.26195 14 9 2 0 0 0 0.10837 1 22420 22420 30.637 12.502 1 303520 11824 9678 7408 7430 13897 13897 0.042703506855104933 IYPTTYVQF 9 Unmodified _IYPTTYVQF_ 0 0 0 ENSG00000179820|ENST00000391770|MYADM ENSG00000179820|ENST00000391770|MYADM ENSG00000179820|ENST00000391770|MYADM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.2936401367188 2 566.289682 1130.56481 2.7887 0.0015792 0.5854 0.00033151 3.3741 0.0019107 566.2900869465716 73.519 0.23225 73.519 73.473 73.705 0 39 25 2 0 0 0 0.078322 1 35920 35920 38.151 15.003 1 3231900 11825 5230 7409 7431 13898 13898 0.004752073831923553 IYPTTYVQF 9 Unmodified _IYPTTYVQF_ 0 0 0 ENSG00000179820|ENST00000391770|MYADM ENSG00000179820|ENST00000391770|MYADM ENSG00000179820|ENST00000391770|MYADM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.2921752929688 2 566.289682 1130.56481 2.9615 0.0016771 -0.36624 -0.0002074 2.5953 0.0014697 566.289675559279 72.62 0.2318 73.319 73.214 73.446 0.69881 48 23 3 0 0 0 0.078322 2 35016 35016;35039 38.151 15.003 1 2684800 11826 5230 7409 7431 13899;13900 13899 0.004752073831923553 IYPTTYVQF 9 Unmodified _IYPTTYVQF_ 0 0 0 ENSG00000179820|ENST00000391770|MYADM ENSG00000179820|ENST00000391770|MYADM ENSG00000179820|ENST00000391770|MYADM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 566.2905883789062 2 566.289682 1130.56481 3.2869 0.0018613 -0.21483 -0.00012165 3.072 0.0017397 566.2894558872637 73.245 0.3143 73.503 73.313 73.627 0.25876 63 36 2 0 0 0 0.047285 3 33622 33576;33622;33668 48.346 25.197 1 2012400 11827 5230 7409 7431 13901;13902;13903 13902 0.004752073831923553 IYPVDLGDKF 10 Unmodified _IYPVDLGDKF_ 0 0 0 nc|ENSG00000163882|P52434-4|POLR2H;nc|ENSG00000163882|P52434-3|POLR2H;ENSG00000163882|ENST00000456318|POLR2H;nc|ENSG00000163882|P52434-5|POLR2H;nc|ENSG00000163882|P52434-2|POLR2H nc|ENSG00000163882|P52434-4|POLR2H nc|ENSG00000163882|P52434-4|POLR2H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.810546875 2 583.808239 1165.60193 3.4588 0.0020193 -0.62456 -0.00036462 2.8342 0.0016546 583.8075191576535 64.853 0.3656 65.101 64.947 65.312 0.24803 43 19 3 0 0 0 0.12269 2 29731 29731;29793 49.527 25.507 1 1020500 11828 9720 7410 7432 13904;13905 13904 0.02574878928930957 IYPVDLGDKF 10 Unmodified _IYPVDLGDKF_ 0 0 0 nc|ENSG00000163882|P52434-4|POLR2H;nc|ENSG00000163882|P52434-3|POLR2H;ENSG00000163882|ENST00000456318|POLR2H;nc|ENSG00000163882|P52434-5|POLR2H;nc|ENSG00000163882|P52434-2|POLR2H nc|ENSG00000163882|P52434-4|POLR2H nc|ENSG00000163882|P52434-4|POLR2H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.8094482421875 2 583.808239 1165.60193 3.6387 0.0021243 -0.4356 -0.00025431 3.2031 0.00187 584.3095250554478 64.239 0.31891 64.896 64.857 65.176 0.65672 38 19 3 0 0 0 0.14986 2 29530 29483;29530 45.74 20.341 1 1438900 11829 9720 7410 7432 13906;13907 13907 0.02574878928930957 IYPVKYTQTF 10 Unmodified _IYPVKYTQTF_ 0 0 0 ENSG00000112378|ENST00000421351|PERP ENSG00000112378|ENST00000421351|PERP ENSG00000112378|ENST00000421351|PERP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 630.3387451171875 2 630.337164 1258.65977 3.9426 0.0024852 -0.41105 -0.0002591 3.5315 0.0022261 630.3368649991995 51.386 0.24133 51.386 51.247 51.489 0 15 11 2 0 0 0 0.48906 1 23541 23541 21.537 7.6309 1 355600 11830 1807 7411 7433 13908 13908 0.04079140854355501 IYPVNAISF 9 Unmodified _IYPVNAISF_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3;ENST00000481952.1_1_10:124921781-124922345:+|nuORF ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.2811279296875 2 512.279118 1022.54368 3.1612 0.0016194 0.72928 0.00037359 3.8904 0.001993 512.2795355589726 79.634 0.44834 79.886 79.741 80.19 0.25127 40 27 2 0 0 0 0.5141 1 36743 36743 18.135 8.7875 1 437690 11831 3825 7412 7434 13909 13909 0.03331242074318652 IYPVNAISF 9 Unmodified _IYPVNAISF_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3;ENST00000481952.1_1_10:124921781-124922345:+|nuORF ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.2805786132812 2 512.279118 1022.54368 3.407 0.0017453 0.24125 0.00012359 3.6482 0.0018689 512.2793325415277 79.196 0.41557 79.857 79.66 80.075 0.66082 38 27 2 0 0 0 0.55815 1 36521 36521 16.942 7.5949 1 342900 11832 3825 7412 7434 13910 13910 0.03331242074318652 IYPVNAISF 9 Unmodified _IYPVNAISF_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3;ENST00000481952.1_1_10:124921781-124922345:+|nuORF ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 512.279118 1022.54368 3.407 0.0017453 0.24125 0.00012359 3.6482 0.0018689 512.2793325415277 79.196 0.41557 79.857 79.66 80.075 0.66082 -0.014255 -0.0002318 NaN 18.135 38 27 2 NaN NaN NaN NaN 0 NaN NaN 0 342900 11833 3825 7412 7434 0.03331242074318652 IYPWVHVVI 9 Unmodified _IYPWVHVVI_ 0 0 0 ENSG00000163755|ENST00000296051|HPS3;nc|ENSG00000163755|Q969F9-2|HPS3 ENSG00000163755|ENST00000296051|HPS3 ENSG00000163755|ENST00000296051|HPS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.4111328125 2 563.326402 1124.63825 2.8763 0.0016203 -1.4129 -0.00079592 1.4634 0.00082435 563.3266320796143 79.982 0.17419 79.982 79.889 80.063 0 27 11 3 0 0 0 0.23832 1 39573 39573 20.871 11.524 1 2071300 11834 4246 7413 7435 13911 13911 0.0809180061630741 IYPWVHVVI 9 Unmodified _IYPWVHVVI_ 0 0 0 ENSG00000163755|ENST00000296051|HPS3;nc|ENSG00000163755|Q969F9-2|HPS3 ENSG00000163755|ENST00000296051|HPS3 ENSG00000163755|ENST00000296051|HPS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.8304443359375 2 563.326402 1124.63825 3.3564 0.0018908 -0.27109 -0.00015271 3.0854 0.0017381 563.3261281869707 79.72 0.41385 79.97 79.757 80.171 0.24947 61 25 3 0 0 0 0.08506 2 36689 36689;36761 36.466 19.524 1 1460000 11835 4246 7413 7435 13912;13913 13912 0.0809180061630741 IYPWVHVVI 9 Unmodified _IYPWVHVVI_ 0 0 0 ENSG00000163755|ENST00000296051|HPS3;nc|ENSG00000163755|Q969F9-2|HPS3 ENSG00000163755|ENST00000296051|HPS3 ENSG00000163755|ENST00000296051|HPS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.3281860351562 2 563.326402 1124.63825 3.5879 0.0020212 0.22211 0.00012512 3.81 0.0021463 563.3265029958795 79.144 0.42982 79.805 79.625 80.055 0.66082 60 27 3 0 0 0 0.08506 1 36473 36473 36.466 15.595 1 1405900 11836 4246 7413 7435 13914 13914 0.0809180061630741 IYQDRDQFAKL 11 Unmodified _IYQDRDQFAKL_ 0 0 0 ENST00000577789.5_1_17:27207581-27224656:-|nuORF;ENSG00000132589|ENST00000394908|FLOT2 ENST00000577789.5_1_17:27207581-27224656:-|nuORF ENST00000577789.5_1_17:27207581-27224656:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.5804443359375 3 466.245498 1395.71466 2.7573 0.0012856 -0.73059 -0.00034063 2.0267 0.00094493 466.2452739874887 37.249 0.20152 38.045 37.935 38.136 0.79552 14 9 2 0 0 0 0.44818 1 16888 16888 16.275 8.7975 1 340370 11837 2711 7414 7436 13915 13915 0.03263527655008147 IYQDRDQFAKL 11 Unmodified _IYQDRDQFAKL_ 0 0 0 ENST00000577789.5_1_17:27207581-27224656:-|nuORF;ENSG00000132589|ENST00000394908|FLOT2 ENST00000577789.5_1_17:27207581-27224656:-|nuORF ENST00000577789.5_1_17:27207581-27224656:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 466.245498 1395.71466 2.8196 0.0013146 0.30236 0.00014097 3.122 0.0014556 466.57985688815626 38.347 0.21159 38.347 38.236 38.447 0 0.15118 0.00078503 NaN 16.275 11 8 2 NaN NaN NaN NaN 0 NaN NaN 0 761950 11838 2711 7414 7436 0.03263527655008147 IYQGGIFEL 9 Unmodified _IYQGGIFEL_ 0 0 0 ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.2793579101562 2 520.276575 1038.5386 3.5043 0.0018232 1.7153 0.00089245 5.2196 0.0027156 520.2778603451051 83.254 0.36588 83.914 83.697 84.063 0.66019 53 21 3 0 0 0 0.084899 1 38350 38350 48.346 6.2513 1 1431500 11839 2245 7415 7437 13916 13916 0.020869382117098212 IYQKAFDLI 9 Unmodified _IYQKAFDLI_ 0 0 0 ENSG00000114030|ENST00000344337|KPNA1;ENSG00000196911|ENST00000368564|KPNA5;ENSG00000025800|ENST00000373625|KPNA6 ENSG00000114030|ENST00000344337|KPNA1;ENSG00000196911|ENST00000368564|KPNA5;ENSG00000025800|ENST00000373625|KPNA6 ENSG00000025800|ENST00000373625|KPNA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.8168334960938 2 555.813325 1109.6121 3.6072 0.0020049 1.0352 0.0005754 4.6424 0.0025803 555.8141847935549 65.063 0.21027 65.311 65.184 65.394 0.24802 14 8 2 0 0 0 0.014491 1 29806 29806 75.761 13.188 1 623330 11840 1887;5782;482 7416 7438 13917 13917 0.061674866541807205 IYQKAFDLI 9 Unmodified _IYQKAFDLI_ 0 0 0 ENSG00000114030|ENST00000344337|KPNA1;ENSG00000196911|ENST00000368564|KPNA5;ENSG00000025800|ENST00000373625|KPNA6 ENSG00000114030|ENST00000344337|KPNA1;ENSG00000196911|ENST00000368564|KPNA5;ENSG00000025800|ENST00000373625|KPNA6 ENSG00000025800|ENST00000373625|KPNA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.8153076171875 2 555.813325 1109.6121 3.5966 0.0019991 0.3678 0.00020443 3.9644 0.0022035 555.813407842871 64.46 0.17813 65.116 64.998 65.176 0.65672 16 8 2 0 0 0 0.02631 1 29524 29524 60.074 6.2411 1 780870 11841 1887;5782;482 7416 7438 13918 13918 0.061674866541807205 IYQKAFEHL 9 Unmodified _IYQKAFEHL_ 0 0 0 nc|ENSG00000140463|Q96RK4-3|BBS4;ENSG00000140463|ENST00000268057|BBS4;nc|ENSG00000140463|Q96RK4-2|BBS4 nc|ENSG00000140463|Q96RK4-3|BBS4 nc|ENSG00000140463|Q96RK4-3|BBS4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 383.5424499511719 3 383.541475 1147.60259 2.5606 0.00098211 0.6419 0.00024619 3.2025 0.0012283 383.5416484129839 35.432 0.22172 35.432 35.343 35.564 0 35 12 4 0 0 0 0.012748 1 16084 16084 61.602 22.987 1 3273100 11842 3200 7417 7439 13919 13919 0.03469718368660324 IYQKAFEHL 9 Unmodified _IYQKAFEHL_ 0 0 0 nc|ENSG00000140463|Q96RK4-3|BBS4;ENSG00000140463|ENST00000268057|BBS4;nc|ENSG00000140463|Q96RK4-2|BBS4 nc|ENSG00000140463|Q96RK4-3|BBS4 nc|ENSG00000140463|Q96RK4-3|BBS4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.8109741210938 2 574.808574 1147.60259 3.4449 0.0019801 1.0861 0.00062431 4.531 0.0026045 574.8094720260593 35.422 0.2612 35.422 35.343 35.604 0 31 14 3 0 0 0 0.0010698 1 16086 16086 125.53 79.508 1 1360200 11843 3200 7417 7439 13920 13920 0.03469718368660324 IYQKAFEHL 9 Unmodified _IYQKAFEHL_ 0 0 0 nc|ENSG00000140463|Q96RK4-3|BBS4;ENSG00000140463|ENST00000268057|BBS4;nc|ENSG00000140463|Q96RK4-2|BBS4 nc|ENSG00000140463|Q96RK4-3|BBS4 nc|ENSG00000140463|Q96RK4-3|BBS4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 383.542724609375 3 383.541475 1147.60259 2.7976 0.001073 0.61128 0.00023445 3.4089 0.0013074 383.54159213087723 35.353 0.33308 35.609 35.444 35.777 0.25524 29 11 3 0 0 0 0.0063783 1 16085 16085 70.332 43.109 1 1689700 11844 3200 7417 7439 13921 13921 0.03469718368660324 IYQKAFEHL 9 Unmodified _IYQKAFEHL_ 0 0 0 nc|ENSG00000140463|Q96RK4-3|BBS4;ENSG00000140463|ENST00000268057|BBS4;nc|ENSG00000140463|Q96RK4-2|BBS4 nc|ENSG00000140463|Q96RK4-3|BBS4 nc|ENSG00000140463|Q96RK4-3|BBS4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.8108520507812 2 574.808574 1147.60259 3.3207 0.0019088 0.97279 0.00055917 4.2935 0.002468 574.8094022425848 35.352 0.24868 35.607 35.465 35.713 0.25524 18 8 3 0 0 0 0.018453 1 16090 16090 70.332 32.358 1 692110 11845 3200 7417 7439 13922 13922 0.03469718368660324 IYQKAFEHL 9 Unmodified _IYQKAFEHL_ 0 0 0 nc|ENSG00000140463|Q96RK4-3|BBS4;ENSG00000140463|ENST00000268057|BBS4;nc|ENSG00000140463|Q96RK4-2|BBS4 nc|ENSG00000140463|Q96RK4-3|BBS4 nc|ENSG00000140463|Q96RK4-3|BBS4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 574.8092651367188 2 574.808574 1147.60259 3.6941 0.0021234 0.17016 9.7811E-05 3.8642 0.0022212 574.8089914104963 34.965 0.1221 35.588 35.547 35.669 0.62294 17 9 2 0 0 0 0.016529 1 16037 16037 72.968 36.841 1 1182600 11846 3200 7417 7439 13923 13923 0.03469718368660324 IYQKAIEVL 9 Unmodified _IYQKAIEVL_ 0 0 0 ENSG00000076924|ENST00000358368|XAB2;ENST00000595288.5_1_19:7685297-7685959:-|nuORF;ENST00000600230.1_1_19:7685297-7686162:-|nuORF ENSG00000076924|ENST00000358368|XAB2 ENSG00000076924|ENST00000358368|XAB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.8217163085938 2 538.82115 1075.62775 NaN NaN NaN NaN NaN NaN NaN 51.104 1 51.104 50.604 51.604 0 0 0 0 0.59707 1 23399 23399 15.847 5.0233 1 11847 851 7418 7440 13924 13924 0.09295773171243127 IYQKRWVRL 9 Unmodified _IYQKRWVRL_ 0 0 0 nc|ENSG00000186635|Q96P48-7|ARAP1;nc|ENSG00000186635|Q96P48-2|ARAP1;nc|ENSG00000186635|Q96P48-4|ARAP1;nc|ENSG00000186635|Q96P48-1|ARAP1;nc|ENSG00000186635|Q96P48-3|ARAP1;ENSG00000186635|ENST00000393609|ARAP1;ARAP1|p.Q628Afs*19|1|0.07|ENSG00000186635|chr11:72704262-72704263|-/C|frameshift_variant;ENST00000465814.5_1_11:72407932-72423670:-|nuORF nc|ENSG00000186635|Q96P48-7|ARAP1 nc|ENSG00000186635|Q96P48-7|ARAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.25714111328125 3 421.25578 1260.74551 3.0922 0.0013026 0.066199 2.7887E-05 3.1584 0.0013305 421.2558305694629 29.255 0.24953 29.255 29.153 29.403 0 32 19 2 0 0 0 0.75535 1 13213 13213 8.1555 0 1 145750 11848 5580 7419 7441 13925 13925 0.12556770550554575 IYQLTGCLRVA 11 Unmodified _IYQLTGCLRVA_ 0 0 0 REV__ENSG00000105641|ENST00000222248|SLC5A5 REV__ENSG00000105641|ENST00000222248|SLC5A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 618.8436889648438 2 618.842091 1235.66963 NaN NaN NaN NaN NaN NaN NaN 79.828 1 79.828 79.328 80.328 0 0 0 0 0.99038 1 39510 39510 7.609 0.31972 1 + 11849 11046 7420 7442 13926 13926 0.06122005588099455 IYQRDPLKL 9 Unmodified _IYQRDPLKL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 573.3397827148438 2 573.337498 1144.66044 3.5932 0.0020601 0.40913 0.00023457 4.0023 0.0022947 573.3376880299551 38.878 0.43877 38.878 38.636 39.075 0 56 17 4 0 0 0 0.0014285 3 17648 17590;17648;17704 110.79 59.163 1 3398800 11850 4511 7421 7443 13927;13928;13929 13928 0.0938998029407685 IYQRDPLKL 9 Unmodified _IYQRDPLKL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 382.5618591308594 3 382.560758 1144.66044 2.7588 0.0010554 0.27943 0.0001069 3.0382 0.0011623 382.56085974335736 38.901 0.52026 38.901 38.58 39.1 0 85 21 5 0 0 0 0.0090098 3 17657 17610;17657;17717 77.049 45.587 1 13178000 11851 4511 7421 7443 13930;13931;13932 13931 0.0938998029407685 IYQRDPLKL 9 Unmodified _IYQRDPLKL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 382.5616760253906 3 382.560758 1144.66044 2.4935 0.00095392 0.28827 0.00011028 2.7818 0.0010642 382.56086411931255 37.776 0.42967 38.571 38.323 38.752 0.79552 65 18 4 0 0 0 0.030603 3 17141 17045;17092;17141 51.488 30.907 1 13803000 11852 4511 7421 7443 13933;13934;13935 13935 0.0938998029407685 IYQRDPLKL 9 Unmodified _IYQRDPLKL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.33984375 2 573.337498 1144.66044 3.5537 0.0020375 0.14408 8.2605E-05 3.6978 0.0021201 573.3375144515625 37.749 0.42375 38.545 38.298 38.722 0.79552 51 18 4 0 0 0 0.0012877 3 17103 17053;17103;17151 121.35 67.942 1 3009400 11853 4511 7421 7443 13936;13937;13938 13937 0.0938998029407685 IYQRDPLKL 9 Unmodified _IYQRDPLKL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 382.56195068359375 3 382.560758 1144.66044 2.6257 0.0010045 0.70679 0.00027039 3.3325 0.0012749 382.56074629579535 38.542 0.45902 38.806 38.63 39.089 0.26408 57 17 4 0 0 0 0.022157 2 17579 17533;17579 53.47 17.857 1 10458000 11854 4511 7421 7443 13939;13940 13940 0.0938998029407685 IYQRDPLKL 9 Unmodified _IYQRDPLKL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 573.3391723632812 2 573.337498 1144.66044 3.195 0.0018318 0.095558 5.4787E-05 3.2906 0.0018866 573.3373284697642 38.592 0.39811 38.856 38.63 39.028 0.26408 38 15 3 0 0 0 0.0057865 2 17590 17540;17590 90.135 41.518 1 2450800 11855 4511 7421 7443 13941;13942 13942 0.0938998029407685 IYQRDPLKL 9 Unmodified _IYQRDPLKL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.56207275390625 3 382.560758 1144.66044 2.5922 0.00099168 0.92113 0.00035239 3.5133 0.0013441 382.5608830469638 38.08 0.57985 38.714 38.415 38.995 0.63389 86 23 5 0 0 0 0.022157 3 17407 17355;17407;17456 53.47 19.135 1 6042600 11856 4511 7421 7443 13943;13944;13945 13944 0.0938998029407685 IYQRDPLKL 9 Unmodified _IYQRDPLKL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 573.3395385742188 2 573.337498 1144.66044 3.5024 0.0020081 0.36299 0.00020812 3.8654 0.0022162 573.3375307616618 38.087 0.54919 38.721 38.466 39.015 0.63388 57 22 4 0 0 0 0.017449 3 17401 17401;17447;17499 71.708 31.758 1 1633800 11857 4511 7421 7443 13946;13947;13948 13946 0.0938998029407685 IYQRHVYNL 9 Unmodified _IYQRHVYNL_ 0 0 0 nc|ENSG00000146842|Q96SK2-3|TMEM209;nc|ENSG00000146842|Q96SK2-2|TMEM209;ENSG00000146842|ENST00000397622|TMEM209 nc|ENSG00000146842|Q96SK2-3|TMEM209 nc|ENSG00000146842|Q96SK2-3|TMEM209 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 402.5534362792969 3 402.552374 1204.63529 2.8732 0.0011566 -0.21881 -8.8082E-05 2.6544 0.0010685 402.5522945567824 27.715 0.19795 27.715 27.604 27.801 0 29 17 2 0 0 0 0.30982 1 12493 12493 16.149 3.9084 1 550630 11858 3533 7422 7444 13949 13949 0.04115925491510097 IYQRHVYNL 9 Unmodified _IYQRHVYNL_ 0 0 0 nc|ENSG00000146842|Q96SK2-3|TMEM209;nc|ENSG00000146842|Q96SK2-2|TMEM209;ENSG00000146842|ENST00000397622|TMEM209 nc|ENSG00000146842|Q96SK2-3|TMEM209 nc|ENSG00000146842|Q96SK2-3|TMEM209 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 402.553955078125 3 402.552374 1204.63529 2.6702 0.0010749 -0.09057 -3.6459E-05 2.5796 0.0010384 402.55230329497954 26.73 0.15272 27.509 27.419 27.572 0.7787 19 12 2 0 0 0 0.33646 1 11998 11998 15.248 7.3031 1 889310 11859 3533 7422 7444 13950 13950 0.04115925491510097 IYQRHVYNL 9 Unmodified _IYQRHVYNL_ 0 0 0 nc|ENSG00000146842|Q96SK2-3|TMEM209;nc|ENSG00000146842|Q96SK2-2|TMEM209;ENSG00000146842|ENST00000397622|TMEM209 nc|ENSG00000146842|Q96SK2-3|TMEM209 nc|ENSG00000146842|Q96SK2-3|TMEM209 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 402.5546875 3 402.552374 1204.63529 2.8337 0.0011407 1.1203 0.00045098 3.954 0.0015917 402.55281689312136 27.277 0.2563 27.899 27.763 28.019 0.62179 26 15 2 0 0 0 0.30982 1 12484 12484 16.149 9.0474 1 332350 11860 3533 7422 7444 13951 13951 0.04115925491510097 IYRDRLRINRF 11 Unmodified _IYRDRLRINRF_ 0 0 0 nc|ENSG00000082397|Q9Y2J2-3|EPB41L3;nc|ENSG00000088367|Q9H4G0-4|EPB41L1;nc|ENSG00000088367|Q9H4G0-3|EPB41L1;nc|ENSG00000088367|Q9H4G0-2|EPB41L1;nc|ENSG00000082397|Q9Y2J2-2|EPB41L3;ENSG00000088367|ENST00000338074|EPB41L1;nc|ENSG00000082397|Q9Y2J2-4|EPB41L3;EPB41L3|p.K943Nfs*9|1|0.39|ENSG00000082397|chr18:5397070-5397070|T/-|frameshift_variant;ENSG00000082397|ENST00000341928|EPB41L3 nc|ENSG00000082397|Q9Y2J2-3|EPB41L3 nc|ENSG00000082397|Q9Y2J2-3|EPB41L3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 761.4409790039062 2 761.441683 1520.86881 NaN NaN NaN NaN NaN NaN NaN 97.402 1 97.473 96.973 97.973 0.070648 0 0 0 1.008 1 52065 52065 0.35063 0 1 11861 928 7423 7445 13952 13952 0.12921401931021137 IYRELKQFKRK 11 Unmodified _IYRELKQFKRK_ 0 0 0 L1MA1_dup2411|chrX:76191796-76193207:-|1.0132764033792812|0.4902543273978149|1.05|540.0|4|1|sense L1MA1_dup2411|chrX:76191796-76193207:-|1.0132764033792812|0.4902543273978149|1.05|540.0|4|1|sense L1MA1_dup2411|chrX:76191796-76193207:-|1.0132764033792812|0.4902543273978149|1.05|540.0|4|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 754.9568481445312 2 754.956635 1507.89872 NaN NaN NaN NaN NaN NaN NaN 102.57 1 102.57 102.07 103.07 0 0 0 0 1.008 1 56616 56616 0.35063 0 1 11862 9431 7424 7446 13953 13953 0.1650834087633939 IYRMKKKKK 9 Unmodified _IYRMKKKKK_ 0 0 0 ENST00000417638.1_1_9:12790708-12814310:-|nuORF ENST00000417638.1_1_9:12790708-12814310:-|nuORF ENST00000417638.1_1_9:12790708-12814310:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.8941650390625 2 611.89446 1221.77437 NaN NaN NaN NaN NaN NaN NaN 27.953 1 27.953 27.453 28.453 0 0 0 0 0.91238 1 12596 12596 0.52476 0.066424 1 11863 7724 7425 7447 13954 13954 0.1723517185532728 IYSKPGGHNLF 11 Unmodified _IYSKPGGHNLF_ 0 0 0 ENSG00000154451|ENST00000370459|GBP5;nc|ENSG00000154451|Q96PP8-2|GBP5;ENST00000481145.1_1_1:89729385-89732242:-|nuORF ENSG00000154451|ENST00000370459|GBP5 ENSG00000154451|ENST00000370459|GBP5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 411.5533752441406 3 411.552262 1231.63496 2.9622 0.0012191 0.45796 0.00018848 3.4202 0.0014076 411.5524435717688 34.187 0.24284 34.44 34.365 34.608 0.25389 16 11 2 0 0 0 0.30328 1 15604 15604 24.957 18.765 1 980910 11864 3824 7426 7448 13955 13955 0.028405057716554438 IYSKPGGHNLF 11 Unmodified _IYSKPGGHNLF_ 0 0 0 ENSG00000154451|ENST00000370459|GBP5;nc|ENSG00000154451|Q96PP8-2|GBP5;ENST00000481145.1_1_1:89729385-89732242:-|nuORF ENSG00000154451|ENST00000370459|GBP5 ENSG00000154451|ENST00000370459|GBP5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 411.5538635253906 3 411.552262 1231.63496 2.8466 0.0011715 1.1301 0.00046511 3.9768 0.0016366 411.8871788499834 33.747 0.32097 34.367 34.195 34.516 0.62031 27 15 2 0 0 0 0.52957 1 15470 15470 17.863 9.1178 1 1220600 11865 3824 7426 7448 13956 13956 0.028405057716554438 IYSKPGGYRL 10 Unmodified _IYSKPGGYRL_ 0 0 0 ENSG00000117228|ENST00000370473|GBP1;ENST00000394662.2_1_1:89887573-89889825:+|nuORF;ENST00000495131.1_1_1:89521662-89521803:-|nuORF ENSG00000117228|ENST00000370473|GBP1 ENSG00000117228|ENST00000370473|GBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 385.2179260253906 3 385.216991 1152.62914 2.8442 0.0010956 -0.09122 -3.5139E-05 2.753 0.0010605 385.2169471647582 28.797 0.20283 29.057 28.985 29.187 0.2602 32 17 3 0 0 0 0.26491 1 13113 13113 31.636 18.021 1 2230500 11866 2064 7427 7449 13957 13957 0.05893407259986816 IYSKPGGYRL 10 Unmodified _IYSKPGGYRL_ 0 0 0 ENSG00000117228|ENST00000370473|GBP1;ENST00000394662.2_1_1:89887573-89889825:+|nuORF;ENST00000495131.1_1_1:89521662-89521803:-|nuORF ENSG00000117228|ENST00000370473|GBP1 ENSG00000117228|ENST00000370473|GBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.3252563476562 2 577.321848 1152.62914 3.636 0.0020992 0.20496 0.00011833 3.841 0.0022175 577.322127326766 28.473 0.24344 29.093 28.959 29.203 0.61947 19 13 2 0 0 0 0.67861 1 13034 13034 16.149 5.3252 1 146050 11867 2064 7427 7449 13958 13958 0.05893407259986816 IYSKPGGYRL 10 Unmodified _IYSKPGGYRL_ 0 0 0 ENSG00000117228|ENST00000370473|GBP1;ENST00000394662.2_1_1:89887573-89889825:+|nuORF;ENST00000495131.1_1_1:89521662-89521803:-|nuORF ENSG00000117228|ENST00000370473|GBP1 ENSG00000117228|ENST00000370473|GBP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 385.216991 1152.62914 2.7334 0.0010529 -0.13901 -5.3549E-05 2.5944 0.0009994 385.21701404668687 28.494 0.42934 29.113 28.908 29.337 0.61947 0.027957 -2.6757E-05 NaN 31.636 76 24 4 NaN NaN NaN NaN 0 NaN NaN 0 943070 11868 2064 7427 7449 0.05893407259986816 IYSKTTRF 8 Unmodified _IYSKTTRF_ 0 0 0 nc|ENSG00000049541|P35250-2|RFC2;ENSG00000049541|ENST00000055077|RFC2 nc|ENSG00000049541|P35250-2|RFC2 nc|ENSG00000049541|P35250-2|RFC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.19158935546875 3 339.190553 1014.54983 2.4212 0.00082126 0.2659 9.0191E-05 2.6871 0.00091145 339.19070556953477 17.828 0.3012 17.828 17.646 17.947 0 38 19 3 0 0 0 0.17174 2 7931 7892;7931 38.176 13.185 1 450430 11869 578 7428 7450 13959;13960 13960 0.04313760305853975 IYSKTTRF 8 Unmodified _IYSKTTRF_ 0 0 0 nc|ENSG00000049541|P35250-2|RFC2;ENSG00000049541|ENST00000055077|RFC2 nc|ENSG00000049541|P35250-2|RFC2 nc|ENSG00000049541|P35250-2|RFC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.28399658203125 2 508.282192 1014.54983 3.1707 0.0016116 0.90627 0.00046064 4.077 0.0020722 508.2831316074994 17.869 0.18363 17.869 17.714 17.897 0 17 10 2 0 0 0 0.65679 1 7927 7927 9.3831 0.63772 1 119460 11870 578 7428 7450 13961 13961 0.04313760305853975 IYSKTTRF 8 Unmodified _IYSKTTRF_ 0 0 0 nc|ENSG00000049541|P35250-2|RFC2;ENSG00000049541|ENST00000055077|RFC2 nc|ENSG00000049541|P35250-2|RFC2 nc|ENSG00000049541|P35250-2|RFC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 339.1908874511719 3 339.190553 1014.54983 2.1678 0.00073531 -0.24025 -8.1489E-05 1.9276 0.00065382 339.1905041170731 17.361 0.24127 17.561 17.453 17.694 0.20057 34 23 2 0 0 0 0.090253 2 7670 7670;7717 53.833 28.842 1 403180 11871 578 7428 7450 13962;13963 13962 0.04313760305853975 IYSQTYFRF 9 Unmodified _IYSQTYFRF_ 0 0 0 ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 612.808837890625 2 612.806031 1223.59751 3.4486 0.0021133 -0.52881 -0.00032406 2.9198 0.0017893 612.8054773841314 64.239 0.26442 64.487 64.35 64.615 0.24802 36 16 3 0 0 0 0.019364 2 29436 29393;29436 69.105 25.247 1 842730 11872 2245 7429 7451 13964;13965 13965 -0.005345854939832861 IYSQTYFRF 9 Unmodified _IYSQTYFRF_ 0 0 0 ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 612.8070068359375 2 612.806031 1223.59751 3.5146 0.0021538 -0.32668 -0.00020019 3.1879 0.0019536 612.8056363212522 63.669 0.31407 64.327 64.18 64.494 0.65808 45 22 3 0 0 0 0.0014219 2 29152 29152;29203 111.29 61.354 1 851960 11873 2245 7429 7451 13966;13967 13966 -0.005345854939832861 IYSTKLYRF 9 Unmodified _IYSTKLYRF_ 0 0 0 ENST00000549824.1_1_12:53143198-53143681:+|nuORF;ENSG00000148925|ENST00000278174|BTBD10;nc|ENSG00000148925|Q9BSF8-2|BTBD10 ENST00000549824.1_1_12:53143198-53143681:+|nuORF ENST00000549824.1_1_12:53143198-53143681:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 397.8923034667969 3 397.557125 1189.64954 NaN NaN NaN NaN NaN NaN NaN 43.65 1 43.65 43.15 44.15 0 0 0 0 0.64721 1 19905 19905 14.218 6.7411 1 11874 3621 7430 7452 13968 13968 0.06230577919791358 IYSTKLYRF 9 Unmodified _IYSTKLYRF_ 0 0 0 ENST00000549824.1_1_12:53143198-53143681:+|nuORF;ENSG00000148925|ENST00000278174|BTBD10;nc|ENSG00000148925|Q9BSF8-2|BTBD10 ENST00000549824.1_1_12:53143198-53143681:+|nuORF ENST00000549824.1_1_12:53143198-53143681:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 595.8338623046875 2 595.832049 1189.64954 3.6716 0.0021877 0.33359 0.00019876 4.0052 0.0023864 595.8321637258547 43.336 0.2485 43.607 43.572 43.821 0.27021 18 12 2 0 0 0 0.088474 1 19800 19800 31.268 14.155 1 419300 11875 3621 7430 7452 13969 13969 0.06230577919791358 IYSTKLYRF 9 Unmodified _IYSTKLYRF_ 0 0 0 ENST00000549824.1_1_12:53143198-53143681:+|nuORF;ENSG00000148925|ENST00000278174|BTBD10;nc|ENSG00000148925|Q9BSF8-2|BTBD10 ENST00000549824.1_1_12:53143198-53143681:+|nuORF ENST00000549824.1_1_12:53143198-53143681:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.8927307128906 3 397.557125 1189.64954 2.9343 0.0011666 -0.39768 -0.0001581 2.5366 0.0010085 397.55690156605266 43.354 0.2842 43.624 43.536 43.821 0.27021 31 17 3 0 0 0 0.048715 1 19801 19801 47.732 35.491 1 1183500 11876 3621 7430 7452 13970 13970 0.06230577919791358 IYSTKLYRF 9 Unmodified _IYSTKLYRF_ 0 0 0 ENST00000549824.1_1_12:53143198-53143681:+|nuORF;ENSG00000148925|ENST00000278174|BTBD10;nc|ENSG00000148925|Q9BSF8-2|BTBD10 ENST00000549824.1_1_12:53143198-53143681:+|nuORF ENST00000549824.1_1_12:53143198-53143681:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.55792236328125 3 397.557125 1189.64954 3.0454 0.0012107 -0.6288 -0.00024998 2.4166 0.00096073 397.5568884957417 42.794 0.20595 43.441 43.39 43.596 0.64693 24 14 2 0 0 0 0.1081 2 19604 19604;19660 30.703 17.089 1 1149500 11877 3621 7430 7452 13971;13972 13971 0.06230577919791358 IYSVFRNAASF 11 Unmodified _IYSVFRNAASF_ 0 0 0 ENSG00000147872|ENST00000276914|PLIN2;ENST00000464326.1_1_9:19108613-19116611:-|nuORF ENSG00000147872|ENST00000276914|PLIN2 ENSG00000147872|ENST00000276914|PLIN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 637.8324584960938 2 637.830037 1273.64552 NaN NaN NaN NaN NaN NaN NaN 62.445 1 63.105 62.605 63.605 0.66008 0 0 0 0.060964 1 28616 28616 51.765 22.683 1 11878 3585 7431 7453 13973 13973 0.0196448842607424 IYTDMGRFTI 10 Unmodified _IYTDMGRFTI_ 0 0 0 ENSG00000105402|ENST00000263354|NAPA;ENST00000602082.5_1_19:47996374-48018112:-|nuORF;ENST00000596892.5_1_19:47996374-48000675:-|nuORF;ENST00000602174.5_1_19:47996374-48018112:-|nuORF;ENST00000601927.1_1_19:47996374-47999001:-|nuORF;ENST00000594288.5_1_19:47996374-48015977:-|nuORF;ENST00000597778.5_1_19:47996282-47999001:-|nuORF;nc|ENSG00000125814|Q9H115-2|NAPB;ENSG00000125814|ENST00000377026|NAPB ENSG00000105402|ENST00000263354|NAPA;nc|ENSG00000125814|Q9H115-2|NAPB ENSG00000105402|ENST00000263354|NAPA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 608.8075561523438 2 608.805174 1215.59579 3.744 0.0022793 -0.21771 -0.00013254 3.5262 0.0021468 608.8049499631012 64.863 0.20798 65.52 65.447 65.655 0.65672 23 14 2 0 0 0 0.21896 1 29743 29743 37.075 9.4458 1 691320 11879 1495;2423 7432 7454 13974 13974 -0.003379625741899872 IYTDVCALKI 10 Unmodified _IYTDVCALKI_ 0 0 0 REV__nc|ENSG00000176290|Q96R72|OR4K3 REV__nc|ENSG00000176290|Q96R72|OR4K3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.8104858398438 2 569.812467 1137.61038 NaN NaN NaN NaN NaN NaN NaN 22.825 1 23.1 22.6 23.6 0.27562 0 0 0 0.15223 1 10299 10299 86.332 0 1 + 11880 18053 7433 7455 13975 13975 0.04708109573925867 IYTEHAHQV 9 Unmodified _IYTEHAHQV_ 0 0 0 WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant;ENSG00000071127|ENST00000499869|WDR1 WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.5185852050781 3 366.517329 1096.53016 2.8353 0.0010392 0.14758 5.409E-05 2.9829 0.0010933 366.5173328526324 12.849 0.10829 12.849 12.788 12.896 0 8 3 3 0 0 0 0.025323 1 5623 5623 55.503 44.703 1 1203300 11881 776 7434 7456 13976 13976 -0.01424615704900134 IYTEHAHQV 9 Unmodified _IYTEHAHQV_ 0 0 0 WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant;ENSG00000071127|ENST00000499869|WDR1 WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.5177307128906 3 366.517329 1096.53016 NaN NaN NaN NaN NaN NaN NaN 12.617 1 12.878 12.378 13.378 0.26154 0 0 0 0.026844 1 5479 5479 47.594 32.346 1 11882 776 7434 7456 13977 13977 -0.01424615704900134 IYTFPHSAF 9 Unmodified _IYTFPHSAF_ 0 0 0 ENST00000377662.6_1_6:26431111-26431840:+|nuORF;nc|ENSG00000291104|Q96KV6|BTN2A3P ENST00000377662.6_1_6:26431111-26431840:+|nuORF ENST00000377662.6_1_6:26431111-26431840:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.7702026367188 2 541.768917 1081.52328 3.3331 0.0018058 0.27618 0.00014963 3.6093 0.0019554 541.7690064449364 60.79 0.33068 61.046 60.848 61.179 0.25578 44 19 3 0 0 0 0.0061269 2 27797 27797;27844 89.427 4.0701 1 1635000 11883 7417 7435 7457 13978;13979 13978 -0.014219285855006092 IYTFPHSAF 9 Unmodified _IYTFPHSAF_ 0 0 0 ENST00000377662.6_1_6:26431111-26431840:+|nuORF;nc|ENSG00000291104|Q96KV6|BTN2A3P ENST00000377662.6_1_6:26431111-26431840:+|nuORF ENST00000377662.6_1_6:26431111-26431840:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.7705688476562 2 541.768917 1081.52328 3.4264 0.0018563 0.04091 2.2164E-05 3.4674 0.0018785 541.7690023199439 60.132 0.28519 60.797 60.733 61.018 0.66503 43 19 3 0 0 0 0.0022375 3 27573 27520;27573;27624 101.72 4.6473 1 2217000 11884 7417 7435 7457 13980;13981;13982 13981 -0.014219285855006092 IYTHQSDVW 9 Unmodified _IYTHQSDVW_ 0 0 0 nc|ENSG00000077782|P11362-14|FGFR1;nc|ENSG00000077782|P11362-4|FGFR1;nc|ENSG00000077782|P11362-3|FGFR1;nc|ENSG00000077782|P11362-21|FGFR1;ENSG00000077782|ENST00000447712|FGFR1;nc|ENSG00000077782|P11362-19|FGFR1;nc|ENSG00000077782|P11362-7|FGFR1;nc|ENSG00000077782|P11362-2|FGFR1;nc|ENSG00000077782|P11362-20|FGFR1;nc|ENSG00000077782|P11362-6|FGFR1;nc|ENSG00000077782|P11362-5|FGFR1;ENST00000526570.5_1_8:38271148-38285795:-|nuORF;ENSG00000146648|ENST00000275493|EGFR nc|ENSG00000077782|P11362-14|FGFR1;ENSG00000146648|ENST00000275493|EGFR ENSG00000146648|ENST00000275493|EGFR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.7736206054688 2 574.772188 1147.52982 3.6351 0.0020893 0.19199 0.00011035 3.8271 0.0021997 574.7723463028035 38.745 0.30206 38.745 38.563 38.865 0 29 13 3 0 0 0 0.063575 1 17575 17575 41.84 24.727 1 463530 11885 869;3526 7436 7458 13983 13983 -0.03804035424786889 IYTHQSDVW 9 Unmodified _IYTHQSDVW_ 0 0 0 nc|ENSG00000077782|P11362-14|FGFR1;nc|ENSG00000077782|P11362-4|FGFR1;nc|ENSG00000077782|P11362-3|FGFR1;nc|ENSG00000077782|P11362-21|FGFR1;ENSG00000077782|ENST00000447712|FGFR1;nc|ENSG00000077782|P11362-19|FGFR1;nc|ENSG00000077782|P11362-7|FGFR1;nc|ENSG00000077782|P11362-2|FGFR1;nc|ENSG00000077782|P11362-20|FGFR1;nc|ENSG00000077782|P11362-6|FGFR1;nc|ENSG00000077782|P11362-5|FGFR1;ENST00000526570.5_1_8:38271148-38285795:-|nuORF;ENSG00000146648|ENST00000275493|EGFR nc|ENSG00000077782|P11362-14|FGFR1;ENSG00000146648|ENST00000275493|EGFR ENSG00000146648|ENST00000275493|EGFR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.774169921875 2 574.772188 1147.52982 NaN NaN NaN NaN NaN NaN NaN 38.761 1 39.025 38.525 39.525 0.26408 0 0 0 0.21088 1 17641 17641 30.637 16.73 1 11886 869;3526 7436 7458 13984 13984 -0.03804035424786889 IYTHQSDVW 9 Unmodified _IYTHQSDVW_ 0 0 0 nc|ENSG00000077782|P11362-14|FGFR1;nc|ENSG00000077782|P11362-4|FGFR1;nc|ENSG00000077782|P11362-3|FGFR1;nc|ENSG00000077782|P11362-21|FGFR1;ENSG00000077782|ENST00000447712|FGFR1;nc|ENSG00000077782|P11362-19|FGFR1;nc|ENSG00000077782|P11362-7|FGFR1;nc|ENSG00000077782|P11362-2|FGFR1;nc|ENSG00000077782|P11362-20|FGFR1;nc|ENSG00000077782|P11362-6|FGFR1;nc|ENSG00000077782|P11362-5|FGFR1;ENST00000526570.5_1_8:38271148-38285795:-|nuORF;ENSG00000146648|ENST00000275493|EGFR nc|ENSG00000077782|P11362-14|FGFR1;ENSG00000146648|ENST00000275493|EGFR ENSG00000146648|ENST00000275493|EGFR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.2748413085938 2 574.772188 1147.52982 3.5351 0.0020319 -0.27064 -0.00015555 3.2644 0.0018763 574.7722213656846 38.216 0.31245 38.85 38.729 39.041 0.63388 23 14 2 0 0 0 0.10169 1 17508 17508 32.305 10.559 1 460920 11887 869;3526 7436 7458 13985 13985 -0.03804035424786889 IYTHQSDVW 9 Unmodified _IYTHQSDVW_ 0 0 0 nc|ENSG00000077782|P11362-14|FGFR1;nc|ENSG00000077782|P11362-4|FGFR1;nc|ENSG00000077782|P11362-3|FGFR1;nc|ENSG00000077782|P11362-21|FGFR1;ENSG00000077782|ENST00000447712|FGFR1;nc|ENSG00000077782|P11362-19|FGFR1;nc|ENSG00000077782|P11362-7|FGFR1;nc|ENSG00000077782|P11362-2|FGFR1;nc|ENSG00000077782|P11362-20|FGFR1;nc|ENSG00000077782|P11362-6|FGFR1;nc|ENSG00000077782|P11362-5|FGFR1;ENST00000526570.5_1_8:38271148-38285795:-|nuORF;ENSG00000146648|ENST00000275493|EGFR nc|ENSG00000077782|P11362-14|FGFR1;ENSG00000146648|ENST00000275493|EGFR ENSG00000146648|ENST00000275493|EGFR MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 574.772188 1147.52982 3.5025 0.0020132 1.121 0.00064432 4.6236 0.0026575 574.7732184581733 37.644 0.25991 38.44 38.298 38.558 0.79552 -0.31471 0.0012275 NaN 41.84 21 12 3 NaN NaN NaN NaN 0 NaN NaN 0 579020 11888 869;3526 7436 7458 -0.03804035424786889 IYTIDGSRK 9 Unmodified _IYTIDGSRK_ 0 0 0 nc|ENSG00000077279|O43602-2|DCX;nc|ENSG00000077279|O43602|DCX;ENSG00000077279|ENST00000636035|DCX;nc|ENSG00000170390|Q8N568-2|DCLK2;ENSG00000170390|ENST00000296550|DCLK2;nc|ENSG00000170390|Q8N568-3|DCLK2 nc|ENSG00000077279|O43602-2|DCX nc|ENSG00000077279|O43602-2|DCX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.7918701171875 2 526.790381 1051.56621 2.9217 0.0015391 0.11648 6.1363E-05 3.0382 0.0016005 526.7904409455498 32.974 0.33806 33.762 33.561 33.899 0.78795 62 20 4 0 0 0 0.029308 1 14853 14853 56.177 6.6228 1 5474300 11889 860 7437 7459 13986 13986 0.04248841471940068 IYTKIMDLI 9 Unmodified _IYTKIMDLI_ 0 0 0 nc|ENSG00000173852|Q2PZI1|DPY19L1;ENSG00000173852|ENST00000638088|DPY19L1 nc|ENSG00000173852|Q2PZI1|DPY19L1 nc|ENSG00000173852|Q2PZI1|DPY19L1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 555.8024291992188 2 555.317386 1108.62022 2.763 0.0015343 -0.31189 -0.0001732 2.4511 0.0013611 555.3165164779354 75.67 0.17896 76.334 76.228 76.407 0.6635 20 15 2 0 0 0 1.7347E-05 1 36611 36611 83.429 31.16 1 1188700 11890 4956 7438 7460 13987 13987 0.0702529757929824 IYTKIMDLI 9 Unmodified _IYTKIMDLI_ 0 0 0 nc|ENSG00000173852|Q2PZI1|DPY19L1;ENSG00000173852|ENST00000638088|DPY19L1 nc|ENSG00000173852|Q2PZI1|DPY19L1 nc|ENSG00000173852|Q2PZI1|DPY19L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.3187866210938 2 555.317386 1108.62022 NaN NaN NaN NaN NaN NaN NaN 76.465 1 76.72 76.22 77.22 0.25533 0 0 0 0.06994 1 35205 35205 47.594 11.467 1 11891 4956 7438 7460 13988 13988 0.0702529757929824 IYTNLNQKI 9 Unmodified _IYTNLNQKI_ 0 0 0 nc|ENSG00000144036|Q9Y2D4-2|EXOC6B;ENSG00000144036|ENST00000272427|EXOC6B nc|ENSG00000144036|Q9Y2D4-2|EXOC6B nc|ENSG00000144036|Q9Y2D4-2|EXOC6B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.3174438476562 2 553.813856 1105.61316 3.5809 0.0019832 0.78561 0.00043508 4.3665 0.0024182 553.8145510996458 40.068 0.25877 40.068 39.94 40.199 0 14 9 2 0 0 0 0.19064 1 18178 18178 24.021 8.1734 1 256370 11892 3408 7439 7461 13989 13989 0.06457701023077789 IYTNLNQKI 9 Unmodified _IYTNLNQKI_ 0 0 0 nc|ENSG00000144036|Q9Y2D4-2|EXOC6B;ENSG00000144036|ENST00000272427|EXOC6B nc|ENSG00000144036|Q9Y2D4-2|EXOC6B nc|ENSG00000144036|Q9Y2D4-2|EXOC6B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.81640625 2 553.813856 1105.61316 3.293 0.0018237 1.377 0.00076261 4.67 0.0025863 553.8145560816691 38.98 0.21888 39.777 39.673 39.891 0.79762 17 10 2 0 0 0 0.086415 1 17658 17658 36.127 13.391 1 223720 11893 3408 7439 7461 13990 13990 0.06457701023077789 IYTPIFNEY 9 Unmodified _IYTPIFNEY_ 0 0 0 nc|ENSG00000102931|Q9Y2Y0-2|ARL2BP;ENSG00000102931|ENST00000219204|ARL2BP nc|ENSG00000102931|Q9Y2Y0-2|ARL2BP nc|ENSG00000102931|Q9Y2Y0-2|ARL2BP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 580.2877807617188 2 580.28714 1158.55973 2.7869 0.0016172 -0.042643 -2.4745E-05 2.7442 0.0015924 580.287302625843 75.639 0.28941 76.302 76.131 76.42 0.6635 32 23 2 0 0 0 0.11001 1 36621 36621 30.225 14.076 1 1774500 11894 1362 7440 7462 13991 13991 -0.013210964794325264 IYTPIFNEY 9 Unmodified _IYTPIFNEY_ 0 0 0 nc|ENSG00000102931|Q9Y2Y0-2|ARL2BP;ENSG00000102931|ENST00000219204|ARL2BP nc|ENSG00000102931|Q9Y2Y0-2|ARL2BP nc|ENSG00000102931|Q9Y2Y0-2|ARL2BP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 580.2907104492188 2 580.28714 1158.55973 3.1714 0.0018403 -0.093737 -5.4394E-05 3.0777 0.0017859 580.2867255637482 76.308 0.22887 76.565 76.436 76.665 0.25704 27 15 2 0 0 0 0.0079462 2 35129 35118;35129 85.642 55.801 1 834700 11895 1362 7440 7462 13992;13993 13993 -0.013210964794325264 IYTPIFNEY 9 Unmodified _IYTPIFNEY_ 0 0 0 nc|ENSG00000102931|Q9Y2Y0-2|ARL2BP;ENSG00000102931|ENST00000219204|ARL2BP nc|ENSG00000102931|Q9Y2Y0-2|ARL2BP nc|ENSG00000102931|Q9Y2Y0-2|ARL2BP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 580.2901611328125 2 580.28714 1158.55973 3.2437 0.0018823 0.53314 0.00030937 3.7768 0.0021916 580.2871469728558 75.797 0.22321 76.46 76.363 76.587 0.66387 30 19 2 0 0 0 0.09451 1 34909 34909 34.102 23.303 1 759910 11896 1362 7440 7462 13994 13994 -0.013210964794325264 IYTPIFNEY 9 Unmodified _IYTPIFNEY_ 0 0 0 nc|ENSG00000102931|Q9Y2Y0-2|ARL2BP;ENSG00000102931|ENST00000219204|ARL2BP nc|ENSG00000102931|Q9Y2Y0-2|ARL2BP nc|ENSG00000102931|Q9Y2Y0-2|ARL2BP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 580.28714 1158.55973 3.0441 0.0017665 -1.0361 -0.00060123 2.008 0.0011652 580.2863725219801 76.608 0.24203 76.608 76.451 76.693 0 0.12423 -0.0012049 NaN 85.642 27 16 2 NaN NaN NaN NaN 0 NaN NaN 0 1363600 11897 1362 7440 7462 -0.013210964794325264 IYTSSVNRL 9 Unmodified _IYTSSVNRL_ 0 0 0 nc|ENSG00000184432|P35606-2|COPB2;ENSG00000184432|ENST00000333188|COPB2 nc|ENSG00000184432|P35606-2|COPB2 nc|ENSG00000184432|P35606-2|COPB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.7921142578125 2 526.790381 1051.56621 2.9015 0.0015285 0.43161 0.00022737 3.3331 0.0017559 526.7905352905624 33.953 0.28746 33.953 33.787 34.074 0 51 17 4 0 0 0 4.0686E-09 2 15392 15344;15392 160.52 75.244 1 7514700 11898 5440 7441 7463 13995;13996 13996 0.04248841471940068 IYTSSVNRL 9 Unmodified _IYTSSVNRL_ 0 0 0 nc|ENSG00000184432|P35606-2|COPB2;ENSG00000184432|ENST00000333188|COPB2 nc|ENSG00000184432|P35606-2|COPB2 nc|ENSG00000184432|P35606-2|COPB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.7922973632812 2 526.790381 1051.56621 2.9217 0.0015391 0.11648 6.1363E-05 3.0382 0.0016005 526.7904409455498 32.974 0.33806 33.762 33.561 33.899 0.78795 62 20 4 0 0 0 0.00097604 2 14893 14893;14939 126.57 41.294 1 5474300 11899 5440 7441 7463 13997;13998 13997 0.04248841471940068 IYTSSVNRL 9 Unmodified _IYTSSVNRL_ 0 0 0 nc|ENSG00000184432|P35606-2|COPB2;ENSG00000184432|ENST00000333188|COPB2 nc|ENSG00000184432|P35606-2|COPB2 nc|ENSG00000184432|P35606-2|COPB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.79248046875 2 526.790381 1051.56621 3.3249 0.0017515 0.2561 0.00013491 3.581 0.0018865 526.7904903658655 33.838 0.41059 34.092 33.866 34.277 0.25389 73 22 4 0 0 0 3.3938E-05 3 15394 15341;15394;15444 139.14 53.866 1 8456100 11900 5440 7441 7463 13999;14000;14001 14000 0.04248841471940068 IYTSSVNRL 9 Unmodified _IYTSSVNRL_ 0 0 0 nc|ENSG00000184432|P35606-2|COPB2;ENSG00000184432|ENST00000333188|COPB2 nc|ENSG00000184432|P35606-2|COPB2 nc|ENSG00000184432|P35606-2|COPB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.792236328125 2 526.790381 1051.56621 3.1601 0.0016647 0.48292 0.0002544 3.643 0.0019191 526.7905826488505 33.258 0.42336 33.878 33.684 34.107 0.62031 71 21 4 0 0 0 0.001377 3 15234 15178;15234;15282 114.65 39.72 1 5926600 11901 5440 7441 7463 14002;14003;14004 14003 0.04248841471940068 IYTSVNVRT 9 Unmodified _IYTSVNVRT_ 0 0 0 PLA2G4F|p.A565Cfs*6|1|0.31|ENSG00000168907|chr15:42145662-42145663|-/A|frameshift_variant;ENSG00000168907|ENST00000397272|PLA2G4F;nc|ENSG00000168907|Q68DD2-3|PLA2G4F PLA2G4F|p.A565Cfs*6|1|0.31|ENSG00000168907|chr15:42145662-42145663|-/A|frameshift_variant PLA2G4F|p.A565Cfs*6|1|0.31|ENSG00000168907|chr15:42145662-42145663|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.7926635742188 2 526.790381 1051.56621 3.1601 0.0016647 0.48292 0.0002544 3.643 0.0019191 526.7905826488505 33.258 0.42336 33.878 33.684 34.107 0.62031 71 21 4 0 0 0 0.5141 1 15343 15343 12.241 0 1 5926600 11902 4660 7442 7464 14005 14005 0.04248841471940068 IYVHDLLTF 9 Unmodified _IYVHDLLTF_ 0 0 0 ENST00000570062.1_1_15:42476637-42483338:-|nuORF;ENSG00000166887|ENST00000318006|VPS39;nc|ENSG00000166887|Q96JC1|VPS39 ENST00000570062.1_1_15:42476637-42483338:-|nuORF ENST00000570062.1_1_15:42476637-42483338:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.8073120117188 2 560.8055 1119.59645 2.8748 0.0016122 -0.41015 -0.00023001 2.4646 0.0013822 560.8053377032587 77.416 0.29935 77.416 77.275 77.575 0 53 20 4 0 0 0 0.0026885 2 38003 37943;38003 97.075 51.054 1 5333100 11903 4510 7443 7465 14006;14007 14007 0.04143200137127678 IYVHDLLTF 9 Unmodified _IYVHDLLTF_ 0 0 0 ENST00000570062.1_1_15:42476637-42483338:-|nuORF;ENSG00000166887|ENST00000318006|VPS39;nc|ENSG00000166887|Q96JC1|VPS39 ENST00000570062.1_1_15:42476637-42483338:-|nuORF ENST00000570062.1_1_15:42476637-42483338:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.8074951171875 2 560.8055 1119.59645 2.7873 0.0015631 -0.2774 -0.00015557 2.5099 0.0014076 560.8052547566714 76.386 0.26889 77.009 76.863 77.132 0.62398 42 18 3 0 0 0 0.012869 1 37008 37008 77.984 31.963 1 4408300 11904 4510 7443 7465 14008 14008 0.04143200137127678 IYVHDLLTF 9 Unmodified _IYVHDLLTF_ 0 0 0 ENST00000570062.1_1_15:42476637-42483338:-|nuORF;ENSG00000166887|ENST00000318006|VPS39;nc|ENSG00000166887|Q96JC1|VPS39 ENST00000570062.1_1_15:42476637-42483338:-|nuORF ENST00000570062.1_1_15:42476637-42483338:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.8071899414062 2 560.8055 1119.59645 3.4132 0.0019141 0.000889 4.9855E-07 3.4141 0.0019146 560.8054190317271 77.141 0.385 77.396 77.209 77.594 0.25533 75 32 3 0 0 0 0.00147 3 35517 35470;35517;35565 109.63 63.608 1 2482900 11905 4510 7443 7465 14009;14010;14011 14010 0.04143200137127678 IYVHDLLTF 9 Unmodified _IYVHDLLTF_ 0 0 0 ENST00000570062.1_1_15:42476637-42483338:-|nuORF;ENSG00000166887|ENST00000318006|VPS39;nc|ENSG00000166887|Q96JC1|VPS39 ENST00000570062.1_1_15:42476637-42483338:-|nuORF ENST00000570062.1_1_15:42476637-42483338:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.8067626953125 2 560.8055 1119.59645 3.2489 0.001822 -0.66433 -0.00037256 2.5845 0.0014494 560.8057394446174 76.683 0.26721 77.346 77.173 77.44 0.66387 27 20 2 0 0 0 0.026068 2 35340 35275;35340 60.39 28.084 1 1703000 11906 4510 7443 7465 14012;14013 14013 0.04143200137127678 IYYFKANVF 9 Unmodified _IYYFKANVF_ 0 0 0 ENSG00000111229|ENST00000228825|ARPC3 ENSG00000111229|ENST00000228825|ARPC3 ENSG00000111229|ENST00000228825|ARPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.8101196289062 2 582.808042 1163.60153 3.651 0.0021278 -0.082196 -4.7904E-05 3.5688 0.0020799 582.8082805500824 67.398 0.23767 67.648 67.515 67.752 0.2501 20 13 2 0 0 0 0.14729 1 30871 30871 26.884 11.036 1 338260 11907 1747 7444 7466 14014 14014 0.02627503999747205 IYYFKANVF 9 Unmodified _IYYFKANVF_ 0 0 0 ENSG00000111229|ENST00000228825|ARPC3 ENSG00000111229|ENST00000228825|ARPC3 ENSG00000111229|ENST00000228825|ARPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.8102416992188 2 582.808042 1163.60153 3.6016 0.0020991 -1.0039 -0.0005851 2.5977 0.001514 582.8073068585702 66.782 0.20374 67.439 67.353 67.557 0.65672 19 11 2 0 0 0 0.14729 1 30627 30627 26.884 11.036 1 453350 11908 1747 7444 7466 14015 14015 0.02627503999747205 IYYIDMQKF 9 Unmodified _IYYIDMQKF_ 0 0 0 nc|ENSG00000136636|Q9Y597-2|KCTD3;ENSG00000136636|ENST00000259154|KCTD3 nc|ENSG00000136636|Q9Y597-2|KCTD3 nc|ENSG00000136636|Q9Y597-2|KCTD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 610.8040771484375 2 610.804642 1219.59473 2.7062 0.0016529 0.14318 8.7453E-05 2.8494 0.0017404 610.8046223519448 65.818 0.18718 66.527 66.437 66.624 0.70891 28 21 2 0 0 0 0.044468 1 31156 31156 49.554 23.286 1 1450100 11909 2963 7445 7467 14016 14016 -0.006281769431325301 IYYIDMQKF 9 Unmodified _IYYIDMQKF_ 0 0 0 nc|ENSG00000136636|Q9Y597-2|KCTD3;ENSG00000136636|ENST00000259154|KCTD3 nc|ENSG00000136636|Q9Y597-2|KCTD3 nc|ENSG00000136636|Q9Y597-2|KCTD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 610.8071899414062 2 610.804642 1219.59473 3.7339 0.0022807 -0.24268 -0.00014823 3.4912 0.0021325 610.8048334130885 66.787 0.18614 67.037 66.946 67.132 0.2501 14 9 2 0 0 0 0.044468 1 30596 30596 49.554 26.406 1 449170 11910 2963 7445 7467 14017 14017 -0.006281769431325301 IYYIDMQKF 9 Unmodified _IYYIDMQKF_ 0 0 0 nc|ENSG00000136636|Q9Y597-2|KCTD3;ENSG00000136636|ENST00000259154|KCTD3 nc|ENSG00000136636|Q9Y597-2|KCTD3 nc|ENSG00000136636|Q9Y597-2|KCTD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.3088989257812 2 610.804642 1219.59473 3.657 0.0022337 0.69665 0.00042551 4.3537 0.0026592 610.8053313479302 66.211 0.20469 66.868 66.723 66.928 0.65672 22 13 2 0 0 0 0.034495 1 30337 30337 53.833 33.418 1 456010 11911 2963 7445 7467 14018 14018 -0.006281769431325301 IYYTGKYQSL 10 Unmodified _IYYTGKYQSL_ 0 0 0 MYCBP2|p.K2432Nfs*23|1|0.23|ENSG00000005810|chr13:77140155-77140155|T/-|frameshift_variant;MYCBP2|p.E3042Vfs*11|1|0.09|ENSG00000005810|chr13:77097915-77097916|-/GGGAAGA|frameshift_variant;nc|ENSG00000005810|O75592-2|MYCBP2;ENSG00000005810|ENST00000544440|MYCBP2 MYCBP2|p.K2432Nfs*23|1|0.23|ENSG00000005810|chr13:77140155-77140155|T/-|frameshift_variant MYCBP2|p.K2432Nfs*23|1|0.23|ENSG00000005810|chr13:77140155-77140155|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 618.3207397460938 2 618.318971 1234.62339 NaN NaN NaN NaN NaN NaN NaN 42.842 1 43.489 42.989 43.989 0.64693 0 0 0 0.70352 1 19633 19633 24.991 9.1438 1 11912 334 7446 7468 14019 14019 0.015462639576753645 IYYVDVQKF 9 Unmodified _IYYVDVQKF_ 0 0 0 ENSG00000160410|ENST00000291842|SHKBP1 ENSG00000160410|ENST00000291842|SHKBP1 ENSG00000160410|ENST00000291842|SHKBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.815185546875 2 587.810782 1173.60701 3.282 0.0019292 -0.91661 -0.00053879 2.3654 0.0013904 587.8107744987556 60.293 0.076473 60.293 60.227 60.304 0 10 7 2 0 0 0 0.044468 1 27960 27960 49.554 18.918 1 2141200 11913 4059 7447 7469 14020 14020 0.027151827915531612 IYYVDVQKF 9 Unmodified _IYYVDVQKF_ 0 0 0 ENSG00000160410|ENST00000291842|SHKBP1 ENSG00000160410|ENST00000291842|SHKBP1 ENSG00000160410|ENST00000291842|SHKBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.8114013671875 2 587.810782 1173.60701 3.0161 0.0017729 -0.47984 -0.00028206 2.5362 0.0014908 587.8105240402399 59.156 0.21211 59.915 59.801 60.013 0.75894 22 14 2 0 0 0 0.0020791 1 27178 27178 103.35 28.425 1 1383500 11914 4059 7447 7469 14021 14021 0.027151827915531612 IYYVDVQKF 9 Unmodified _IYYVDVQKF_ 0 0 0 ENSG00000160410|ENST00000291842|SHKBP1 ENSG00000160410|ENST00000291842|SHKBP1 ENSG00000160410|ENST00000291842|SHKBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.8133544921875 2 587.810782 1173.60701 3.5655 0.0020958 -0.98524 -0.00057913 2.5802 0.0015167 587.8106511391893 60.142 0.16661 60.398 60.314 60.481 0.25578 18 8 3 0 0 0 0.078225 2 27538 27538;27547 38.176 18.919 1 361160 11915 4059 7447 7469 14022;14023 14022 0.027151827915531612 IYYVDVQKF 9 Unmodified _IYYVDVQKF_ 0 0 0 ENSG00000160410|ENST00000291842|SHKBP1 ENSG00000160410|ENST00000291842|SHKBP1 ENSG00000160410|ENST00000291842|SHKBP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 587.810782 1173.60701 3.5906 0.0021106 -0.77851 -0.00045762 2.8121 0.001653 587.8107769130393 59.609 0.16599 60.274 60.201 60.367 0.66503 0.053756 -4.136E-05 NaN 103.35 15 7 3 NaN NaN NaN NaN 0 NaN NaN 0 491000 11916 4059 7447 7469 0.027151827915531612 KAAIIIWI 8 Unmodified _KAAIIIWI_ 0 0 0 REV__ENSG00000136052|ENST00000258538|SLC41A2 REV__ENSG00000136052|ENST00000258538|SLC41A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.30780029296875 2 464.304939 926.595324 NaN NaN NaN NaN NaN NaN NaN 60.785 1 61.524 61.024 62.024 0.7396 0 0 0 0.99035 1 28103 28103 5.2307 2.3415 1 + 11917 12058 7448 7470 14024 14024 0.12909030558898849 KAAKAGKNAE 10 Unmodified _KAAKAGKNAE_ 0 0 0 nc|ENSG00000072571|O75330-4|HMMR;nc|ENSG00000072571|O75330-2|HMMR;nc|ENSG00000072571|O75330|HMMR;ENSG00000072571|ENST00000393915|HMMR nc|ENSG00000072571|O75330-4|HMMR nc|ENSG00000072571|O75330-4|HMMR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.12603759765625 2 494.282723 986.550893 NaN NaN NaN NaN NaN NaN NaN 61.623 1 61.623 61.123 62.123 0 0 0 0 0.94673 1 28764 28764 13.906 3.0821 1 11918 793 7449 7471 14025 14025 0.05707974674749039 KAAKAGLLAL 10 Unmodified _KAAKAGLLAL_ 0 0 0 ENST00000528048.5_2_11:111957606-111965694:+|nuORF;nc|ENSG00000204370|O14521-2|SDHD;ENSG00000204370|ENST00000375549|SDHD ENST00000528048.5_2_11:111957606-111965694:+|nuORF ENST00000528048.5_2_11:111957606-111965694:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.3185729980469 2 478.318577 954.622602 NaN NaN NaN NaN NaN NaN NaN 61.935 1 62.666 62.166 63.166 0.73077 0 0 0 0.91986 1 28793 28793 18.146 4.2403 1 11919 6004 7450 7472 14026 14026 0.14347514099256387 KAAKKKTKK 9 Unmodified _KAAKKKTKK_ 0 0 0 UPF3B|p.P455Lfs*3|1|0.09|ENSG00000125351|chrX:119834968-119834969|-/CAAA|frameshift_variant;nc|ENSG00000125351|Q9BZI7-2|UPF3B;ENSG00000125351|ENST00000276201|UPF3B UPF3B|p.P455Lfs*3|1|0.09|ENSG00000125351|chrX:119834968-119834969|-/CAAA|frameshift_variant UPF3B|p.P455Lfs*3|1|0.09|ENSG00000125351|chrX:119834968-119834969|-/CAAA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.8601684570312 2 515.858401 1029.70225 NaN NaN NaN NaN NaN NaN NaN 64.359 1 64.359 63.859 64.859 0 0 0 0 0.89683 1 30473 30473 4.3292 2.485 1 11920 2394 7451 7473 14027 14027 0.18858580773280664 KAAKLLYES 9 Unmodified _KAAKLLYES_ 0 0 0 ENST00000554757.1_1_14:104198706-104199352:+|nuORF;ENSG00000100711|ENST00000311141|ZFYVE21;ENST00000555501.1_1_14:104193911-104199352:+|nuORF;nc|ENSG00000100711|Q9BQ24-2|ZFYVE21 ENST00000554757.1_1_14:104198706-104199352:+|nuORF ENST00000554757.1_1_14:104198706-104199352:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.7724914550781 2 511.797675 1021.5808 NaN NaN NaN NaN NaN NaN NaN 70.337 1 70.337 69.837 70.837 0 0 0 0 0.75166 1 34115 34115 10.824 2.9138 1 11921 1238 7452 7474 14028 14028 0.07086913620082669 KAAKPKVDT 9 Unmodified _KAAKPKVDT_ 0 0 0 REV__ENSG00000131711|ENST00000296755|MAP1B REV__ENSG00000131711|ENST00000296755|MAP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.2915954589844 2 479.290017 956.565481 NaN NaN NaN NaN NaN NaN NaN 66.509 1 67.214 66.714 67.714 0.7047 0 0 0 0.62812 1 31533 31533 14.838 5.4908 1 + 11922 11862 7453 7475 14029 14029 0.0854604682289164 KAAKPRNRSPN 11 Unmodified _KAAKPRNRSPN_ 0 0 0 nc|ENSG00000129116|Q8WX93-5|PALLD;nc|ENSG00000129116|Q8WX93|PALLD;nc|ENSG00000129116|Q8WX93-6|PALLD;nc|ENSG00000129116|Q8WX93-2|PALLD;ENSG00000129116|ENST00000505667|PALLD nc|ENSG00000129116|Q8WX93-5|PALLD nc|ENSG00000129116|Q8WX93-5|PALLD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.8552856445312 2 619.857452 1237.70035 NaN NaN NaN NaN NaN NaN NaN 63.503 1 64.226 63.726 64.726 0.72236 0 0 0 0.98464 1 29751 29751 8.1555 1.9497 1 11923 9632 7454 7476 14030 14030 0.09100920017363023 KAAKSLIKL 9 Unmodified _KAAKSLIKL_ 0 0 0 nc|ENSG00000130377|Q5FVE4-2|ACSBG2;ENSG00000130377|ENST00000588485|ACSBG2 nc|ENSG00000130377|Q5FVE4-2|ACSBG2 nc|ENSG00000130377|Q5FVE4-2|ACSBG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.292724609375 2 486.334227 970.653902 NaN NaN NaN NaN NaN NaN NaN 72.247 1 72.506 72.006 73.006 0.25876 0 0 0 0.77475 1 33163 33163 10.074 5.7447 1 11924 2591 7455 7477 14031 14031 0.16740087133359793 KAALAEKLKFN 11 Unmodified _KAALAEKLKFN_ 0 0 0 REV__ENSG00000205213|ENST00000379214|LGR4 REV__ENSG00000205213|ENST00000379214|LGR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 617.0260620117188 2 616.871705 1231.72886 NaN NaN NaN NaN NaN NaN NaN 70.746 1 71.45 70.95 71.95 0.70386 0 0 0 0.99571 1 33926 33926 7.1017 0.47135 1 + 11925 14455 7456 7478 14032 14032 0.12226224873938918 KAALVILFIIG 11 Unmodified _KAALVILFIIG_ 0 0 0 ENSG00000181333|ENST00000315765|HEPHL1 ENSG00000181333|ENST00000315765|HEPHL1 ENSG00000181333|ENST00000315765|HEPHL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.2349853515625 2 579.38646 1156.75837 NaN NaN NaN NaN NaN NaN NaN 70.498 1 70.498 69.998 70.998 0 0 0 0 1.0059 1 34217 34217 2.9952 1.151 1 11926 5286 7457 7479 14033 14033 0.18625788890062722 KAAPQRPRA 9 Unmodified _KAAPQRPRA_ 0 0 0 ENST00000479936.1_1_10:114135018-114135162:+|nuORF ENST00000479936.1_1_10:114135018-114135162:+|nuORF ENST00000479936.1_1_10:114135018-114135162:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 497.5160217285156 2 497.798875 993.583196 2.4951 0.0012421 0.38001 0.00018917 2.8751 0.0014312 497.7968285492709 65.147 0.01963 65.147 65.13 65.149 0 4 2 2 0 0 0 0.10063 1 30973 30973 7.2892 0 1 5789300 11927 8270 7458 7480 14034 14034 0.08614806868411051 KAARRGRKRK 10 Unmodified _KAARRGRKRK_ 0 0 0 ENST00000422292.2_1_9:15055292-15055805:+|nuORF;nc|ENSG00000164985|O75475-3|PSIP1;nc|ENSG00000164985|O75475-2|PSIP1;ENSG00000164985|ENST00000380733|PSIP1;ENST00000487363.5_1_9:15485934-15510186:-|nuORF ENST00000422292.2_1_9:15055292-15055805:+|nuORF ENST00000422292.2_1_9:15055292-15055805:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.9041748046875 2 613.905071 1225.79559 NaN NaN NaN NaN NaN NaN NaN 70.148 1 70.851 70.351 71.351 0.70302 0 0 0 0.99572 1 33602 33602 5.2969 0 1 11928 7766 7459 7481 14035 14035 0.19172317999050392 KADGVPVYL 9 Unmodified _KADGVPVYL_ 0 0 0 ENSG00000115944|ENST00000234301|COX7A2L;ENST00000464443.5_1_2:42578361-42588194:-|nuORF ENSG00000115944|ENST00000234301|COX7A2L ENSG00000115944|ENST00000234301|COX7A2L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.2725524902344 2 481.271293 960.528032 NaN NaN NaN NaN NaN NaN NaN 50.809 1 51.469 50.969 51.969 0.65956 0 0 0 0.6155 1 23232 23232 15.248 1.3424 1 11929 1999 7460 7482 14036 14036 0.04618955557270965 KAEKKEEDNEE 11 Unmodified _KAEKKEEDNEE_ 0 0 0 REV__ENST00000406094.1_1_6:107090584-107090800:+|nuORF REV__ENST00000406094.1_1_6:107090584-107090800:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.2130432128906 3 450.212411 1347.6154 NaN NaN NaN NaN NaN NaN NaN 74.081 1 74.081 73.581 74.581 0 0 0 0 1.0061 1 36154 36154 1.1098 0.70149 1 + 11930 16067 7461 7483 14037 14037 -0.044499598203856294 KAEKKKRGPK 10 Unmodified _KAEKKKRGPK_ 0 0 0 ENSG00000153147|ENST00000283131|SMARCA5 ENSG00000153147|ENST00000283131|SMARCA5 ENSG00000153147|ENST00000283131|SMARCA5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.3778686523438 2 585.377489 1168.74043 NaN NaN NaN NaN NaN NaN NaN 69.854 1 70.515 70.015 71.015 0.66071 0 0 0 1.0004 1 32028 32028 1.3295 0 1 11931 3774 7462 7484 14038 14038 0.16280466687908302 KAFLLQALRWR 11 Unmodified _KAFLLQALRWR_ 0 0 0 ENST00000467698.5_1_2:232123695-232137721:+|nuORF;nc|ENSG00000135931|Q7Z3E5-2|ARMC9;ENSG00000135931|ENST00000611582|ARMC9 ENST00000467698.5_1_2:232123695-232137721:+|nuORF ENST00000467698.5_1_2:232123695-232137721:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.200927734375 4 351.217395 1400.84047 1.9137 0.00067211 2.0006 0.00070264 3.9142 0.0013747 351.21855922820504 74.069 0.062943 74.069 74.032 74.095 0 9 6 2 0 0 0 0.13295 1 36161 36161 0.50596 0.4226 1 468140 11932 2914 7463 7485 14039 14039 0.15608704021724407 KAFRLHMHLI 10 Unmodified _KAFRLHMHLI_ 0 0 0 ENSG00000128000|ENST00000434248|ZNF780B;ENSG00000197782|ENST00000683561|ZNF780A;nc|ENSG00000197782|O75290-3|ZNF780A ENSG00000128000|ENST00000434248|ZNF780B ENSG00000128000|ENST00000434248|ZNF780B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.5827331542969 3 422.581499 1264.72267 3.2252 0.0013629 0.26434 0.0001117 3.4895 0.0014746 422.5815009918258 104.71 0.39699 105.31 105.12 105.51 0.59885 141 60 3 0 0 0 0.94217 1 48413 48413 0.15932 0 1 1132800 11933 2498 7464 7486 14040 14040 0.1008942816142735 KAFWREKEEE 10 Unmodified _KAFWREKEEE_ 0 0 0 ENSG00000111335|ENST00000392583|OAS2;nc|ENSG00000111335|P29728|OAS2 ENSG00000111335|ENST00000392583|OAS2 ENSG00000111335|ENST00000392583|OAS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 676.3378295898438 2 676.335684 1350.65681 NaN NaN NaN NaN NaN NaN NaN 70.19 1 70.19 69.69 70.69 0 0 0 0 1.0001 1 34021 34021 1.6526 0 1 11934 1757 7465 7487 14041 14041 -0.004487342704123876 KAGAGGTL 8 Unmodified _KAGAGGTL_ 0 0 0 REV__ENST00000564295.1_1_16:56691699-56691999:+|nuORF REV__ENST00000564295.1_1_16:56691699-56691999:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.6973876953125 2 337.695221 673.375889 NaN NaN NaN NaN NaN NaN NaN 41.26 1 41.529 41.029 42.029 0.26904 0 0 0 0.99035 1 18790 18790 0.69038 0 1 + 11935 15405 7466 7488 14042 14042 0.026135996003745277 KAGAGQPV 8 Unmodified _KAGAGQPV_ 0 0 0 REV__ENST00000222374.2_1_19:44126724-44127456:-|nuORF REV__ENST00000222374.2_1_19:44126724-44127456:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 728.4918823242188 1 727.409714 726.402438 2.4285 0.0017665 -1.5668 -0.0011397 0.86172 0.00062683 727.4087707074257 99.015 0.060112 99.081 99.053 99.113 0.066025 5 4 2 0 0 0 0.74071 1 53426 53426 2.5775 0 1 8867800 + 11936 14827 7467 7489 14043 14043 0.028292884917050287 KAGRKRASLPP 11 Unmodified _KAGRKRASLPP_ 0 0 0 TSPYL1|p.Q98Rfs*17|1|0.2|ENSG00000189241|chr6:116279540-116279540|C/-|frameshift_variant TSPYL1|p.Q98Rfs*17|1|0.2|ENSG00000189241|chr6:116279540-116279540|C/-|frameshift_variant TSPYL1|p.Q98Rfs*17|1|0.2|ENSG00000189241|chr6:116279540-116279540|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 393.9143981933594 3 394.247285 1179.72002 NaN NaN NaN NaN NaN NaN NaN 37.842 1 38.638 38.138 39.138 0.79552 0 0 0 1.0047 1 17145 17145 2.084 0 1 11937 18282 7468 7490 14044 14044 0.13735296028130506 KAHKLLVKKLL 11 Unmodified _KAHKLLVKKLL_ 0 0 0 REV__ENSG00000111254|ENST00000228850|AKAP3 REV__ENSG00000111254|ENST00000228850|AKAP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.8226928710938 2 645.952833 1289.89111 NaN NaN NaN NaN NaN NaN NaN 91.189 1 91.264 90.764 91.764 0.075279 0 0 0 1.008 1 47187 47187 0.30703 0.30703 1 + 11938 11226 7469 7491 14045 14045 0.2577623334675536 KAHWLQKNRQL 11 Unmodified _KAHWLQKNRQL_ 0 0 0 LTR30_dup35|chr4:69116520-69117223:+|4.948180749754446|0.1119489561624759|5.47|538.0|36|2|anti-sense LTR30_dup35|chr4:69116520-69117223:+|4.948180749754446|0.1119489561624759|5.47|538.0|36|2|anti-sense LTR30_dup35|chr4:69116520-69117223:+|4.948180749754446|0.1119489561624759|5.47|538.0|36|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 711.4080810546875 2 711.409852 1420.80515 NaN NaN NaN NaN NaN NaN NaN 70.223 1 70.926 70.426 71.426 0.70302 0 0 0 1.0073 1 33639 33639 1.1933 0 1 11939 9502 7470 7492 14046 14046 0.1115804149392261 KAIIVEKKLIK 11 Unmodified _KAIIVEKKLIK_ 0 0 0 REV__nc|ENSG00000117020|Q9Y243-2|AKT3 REV__nc|ENSG00000117020|Q9Y243-2|AKT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.738037109375 2 641.944673 1281.87479 NaN NaN NaN NaN NaN NaN NaN 101.77 1 101.83 101.33 102.33 0.057198 0 0 0 1.008 1 55262 55262 0.30703 0 1 + 11940 11431 7471 7493 14047 14047 0.2451310738997563 KAIKARFA 8 Unmodified _KAIKARFA_ 0 0 0 HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant;nc|ENSG00000133835|P51659-3|HSD17B4;ENSG00000133835|ENST00000510025|HSD17B4;nc|ENSG00000133835|P51659-2|HSD17B4;ENST00000507353.1_1_5:118861592-118865690:+|nuORF;ENST00000515235.6_1_5:118829562-118961685:+|nuORF;ENST00000442060.7_1_5:118860916-118866997:+|nuORF HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant;ENST00000442060.7_1_5:118860916-118866997:+|nuORF HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 302.19677734375 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 18.759 1 18.759 18.259 19.259 0 0 0 0 0.99035 1 8340 8340 3.2813 1.4371 1 11941 2772;7941 7472 7494 14048 14048 0.10978091613560537 KAIKKRRRRR 10 Unmodified _KAIKKRRRRR_ 0 0 0 ENSG00000164626|ENST00000359534|KCNK5 ENSG00000164626|ENST00000359534|KCNK5 ENSG00000164626|ENST00000359534|KCNK5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 684.470703125 2 684.46837 1366.92219 NaN NaN NaN NaN NaN NaN NaN 83.448 1 83.493 82.993 83.993 0.045006 0 0 0 1.0015 1 41412 41412 0.40072 0.050084 1 11942 4329 7473 7495 14049 14049 0.2534024422418497 KAIKLILLVVI 11 Unmodified _KAIKLILLVVI_ 0 0 0 CX3CR1|p.E279Rfs*10|1|0.13|ENSG00000168329|chr3:39265676-39265676|A/-|frameshift_variant;ENSG00000168329|ENST00000399220|CX3CR1;nc|ENSG00000168329|P49238-3|CX3CR1;nc|ENSG00000168329|P49238-4|CX3CR1;nc|ENSG00000168329|P49238-2|CX3CR1 CX3CR1|p.E279Rfs*10|1|0.13|ENSG00000168329|chr3:39265676-39265676|A/-|frameshift_variant CX3CR1|p.E279Rfs*10|1|0.13|ENSG00000168329|chr3:39265676-39265676|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 611.9487915039062 2 611.946685 1221.87882 NaN NaN NaN NaN NaN NaN NaN 27.197 1 27.975 27.475 28.475 0.7787 0 0 0 1.0082 1 12224 12224 0 0 1 11943 255 7474 7496 14050 14050 0.2767519688372886 KAITPRRLP 9 Unmodified _KAITPRRLP_ 0 0 0 nc|ENSG00000172766|Q6N069-5|NAA16;ENST00000476980.5_1_13:41885589-41929305:+|nuORF;nc|ENSG00000172766|Q6N069-4|NAA16;nc|ENSG00000172766|Q6N069-3|NAA16;nc|ENSG00000172766|Q6N069-2|NAA16;ENSG00000172766|ENST00000379406|NAA16 nc|ENSG00000172766|Q6N069-5|NAA16 nc|ENSG00000172766|Q6N069-5|NAA16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.2204895019531 3 351.229342 1050.6662 NaN NaN NaN NaN NaN NaN NaN 63.368 1 64.026 63.526 64.526 0.65808 0 0 0 0.90335 1 29038 29038 2.7352 0.23671 1 11944 4890 7475 7497 14051 14051 0.1428912359642709 KAKAIKLILLV 11 Unmodified _KAKAIKLILLV_ 0 0 0 CX3CR1|p.E279Rfs*10|1|0.13|ENSG00000168329|chr3:39265676-39265676|A/-|frameshift_variant;ENSG00000168329|ENST00000399220|CX3CR1;nc|ENSG00000168329|P49238-3|CX3CR1;nc|ENSG00000168329|P49238-4|CX3CR1;nc|ENSG00000168329|P49238-2|CX3CR1 CX3CR1|p.E279Rfs*10|1|0.13|ENSG00000168329|chr3:39265676-39265676|A/-|frameshift_variant CX3CR1|p.E279Rfs*10|1|0.13|ENSG00000168329|chr3:39265676-39265676|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 605.6130981445312 2 605.436484 1208.85842 NaN NaN NaN NaN NaN NaN NaN 65.379 1 66.088 65.588 66.588 0.70891 0 0 0 1.0044 1 30917 30917 4.897 4.4963 1 11945 255 7476 7498 14052 14052 0.2623402622386948 KAKAKKESVD 10 Unmodified _KAKAKKESVD_ 0 0 0 ENSG00000232040|ENST00000452236|SCAND3 ENSG00000232040|ENST00000452236|SCAND3 ENSG00000232040|ENST00000452236|SCAND3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.6064453125 2 552.324588 1102.63462 NaN NaN NaN NaN NaN NaN NaN 67.198 1 67.198 66.698 67.698 0 0 0 0 0.9754 1 32177 32177 9.3831 1.473 1 11946 6186 7477 7499 14053 14053 0.08741086051804814 KAKAKLLF 8 Unmodified _KAKAKLLF_ 0 0 0 REV__ENST00000513468.5_1_5:54516196-54522465:-|nuORF REV__ENST00000513468.5_1_5:54516196-54522465:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 459.8130798339844 2 459.810388 917.606223 2.4926 0.0011461 2.016 0.000927 4.5087 0.0020731 459.81232194322615 71.967 0.61462 72.225 71.994 72.608 0.25786 111 59 3 0 0 0 0.7441 1 33007 33007 2.3027 0 1 754000 + 11947 14586 7478 7500 14054 14054 0.14412432933181663 KAKAPRALRA 10 Unmodified _KAKAPRALRA_ 0 0 0 NMNAT3|p.S237Vfs*84|1|0.23|ENSG00000163864|chr3:139561060-139561060|T/-|frameshift_variant NMNAT3|p.S237Vfs*84|1|0.23|ENSG00000163864|chr3:139561060-139561060|T/-|frameshift_variant NMNAT3|p.S237Vfs*84|1|0.23|ENSG00000163864|chr3:139561060-139561060|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.6171264648438 2 541.351274 1080.688 NaN NaN NaN NaN NaN NaN NaN 67.961 1 67.961 67.461 68.461 0 0 0 0 0.9952 1 32669 32669 5.7319 0.97584 1 11948 9896 7479 7501 14055 14055 0.1508792834497399 KAKAVVKKKT 10 Unmodified _KAKAVVKKKT_ 0 0 0 REV__ENSG00000178804|ENST00000324382|H1-8 REV__ENSG00000178804|ENST00000324382|H1-8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.4453735351562 2 550.879333 1099.74411 NaN NaN NaN NaN NaN NaN NaN 66.528 1 66.528 66.028 67.028 0 0 0 0 0.9952 1 31809 31809 5.7319 3.8876 1 + 11949 13772 7480 7502 14056 14056 0.19823136461786817 KAKEVQKKLVH 11 Unmodified _KAKEVQKKLVH_ 0 0 0 nc|ENSG00000198000|Q76FK4-2|NOL8;nc|ENSG00000198000|Q76FK4-4|NOL8;ENSG00000198000|ENST00000442668|NOL8 nc|ENSG00000198000|Q76FK4-2|NOL8 nc|ENSG00000198000|Q76FK4-2|NOL8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 436.60906982421875 3 436.610111 1306.8085 NaN NaN NaN NaN NaN NaN NaN 65.996 1 65.996 65.496 66.496 0 0 0 0 0.93528 1 31482 31482 12.856 6.2325 1 11950 5857 7481 7503 14057 14057 0.1673729154792909 KAKFLLLFI 9 Unmodified _KAKFLLLFI_ 0 0 0 REV__ENST00000441843.5_1_13:44464405-44465735:+|nuORF REV__ENST00000441843.5_1_13:44464405-44465735:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.5654296875 2 546.862621 1091.71069 NaN NaN NaN NaN NaN NaN NaN 69.968 1 70.671 70.171 71.171 0.70302 0 0 0 0.90699 1 33505 33505 1.8442 1.1539 1 + 11951 16347 7482 7504 14058 14058 0.16850134689889273 KAKFPFGGL 9 Unmodified _KAKFPFGGL_ 0 0 0 SALL1|p.G1140Wfs*35|1|0.22|ENSG00000103449|chr16:51138804-51138805|-/A|frameshift_variant;nc|ENSG00000103449|Q9NSC2-2|SALL1;ENSG00000103449|ENST00000251020|SALL1 SALL1|p.G1140Wfs*35|1|0.22|ENSG00000103449|chr16:51138804-51138805|-/A|frameshift_variant SALL1|p.G1140Wfs*35|1|0.22|ENSG00000103449|chr16:51138804-51138805|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.4508972167969 2 482.78437 963.554188 2.6217 0.0012657 -0.060635 -2.9274E-05 2.5611 0.0012364 482.7843421459177 73.239 0.23991 73.938 73.776 74.016 0.69881 33 20 2 0 0 0 0.36069 1 35334 35334 14.838 5.4908 1 806650 11952 1398 7483 7505 14059 14059 0.07095269519436442 KAKILIKGKL 10 Unmodified _KAKILIKGKL_ 0 0 0 REV__nc|ENSG00000154822|Q9UPR0-2|PLCL2 REV__nc|ENSG00000154822|Q9UPR0-2|PLCL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.9736938476562 2 556.399902 1110.78525 NaN NaN NaN NaN NaN NaN NaN 72.317 1 72.981 72.481 73.481 0.66324 0 0 0 1.0003 1 33163 33163 1.4819 0.95714 1 + 11953 12725 7484 7506 14060 14060 0.23428897501253232 KAKILLKKF 9 Unmodified _KAKILLKKF_ 0 0 0 nc|ENSG00000136522|Q9HD33-3|MRPL47;nc|ENSG00000136522|Q9HD33-2|MRPL47;ENSG00000136522|ENST00000476781|MRPL47 nc|ENSG00000136522|Q9HD33-3|MRPL47 nc|ENSG00000136522|Q9HD33-3|MRPL47 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.384521484375 2 544.881345 1087.74814 3.1051 0.0016919 -1.0559 -0.00057531 2.0492 0.0011166 545.382255815207 64.016 0.030487 64.016 64.002 64.033 0 6 5 2 0 0 0 1.129 1 30231 30231 1.8442 0.19162 1 27750000 11954 2955 7485 7507 14061 14061 0.20777225955475842 KAKILLKKF 9 Unmodified _KAKILLKKF_ 0 0 0 nc|ENSG00000136522|Q9HD33-3|MRPL47;nc|ENSG00000136522|Q9HD33-2|MRPL47;ENSG00000136522|ENST00000476781|MRPL47 nc|ENSG00000136522|Q9HD33-3|MRPL47 nc|ENSG00000136522|Q9HD33-3|MRPL47 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.8827514648438 2 544.881345 1087.74814 NaN NaN NaN NaN NaN NaN NaN 73.758 1 74.444 73.944 74.944 0.68662 0 0 0 0.90699 1 35591 35591 1.8442 0.19162 1 11955 2955 7485 7507 14062 14062 0.20777225955475842 KAKIQKRLFKK 11 Unmodified _KAKIQKRLFKK_ 0 0 0 REV__ENSG00000137760|ENST00000428149|ALKBH8 REV__ENSG00000137760|ENST00000428149|ALKBH8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 694.5607299804688 2 694.466638 1386.91872 NaN NaN NaN NaN NaN NaN NaN 80.938 1 81.106 80.606 81.606 0.16862 0 0 0 1.0082 1 39720 39720 0 0 1 + 11956 12125 7486 7508 14063 14063 0.24074136606941465 KAKKAKKRVK 10 Unmodified _KAKKAKKRVK_ 0 0 0 REV__ENST00000494833.1_1_22:50214627-50216774:-|nuORF REV__ENST00000494833.1_1_22:50214627-50216774:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.872314453125 2 592.919324 1183.8241 NaN NaN NaN NaN NaN NaN NaN 92.055 1 92.138 91.638 92.638 0.082848 0 0 0 1.0016 1 47873 47873 0.35063 0.35063 1 + 11957 10831 7487 7509 14064 14064 0.23953622855628964 KAKKAKKRVK 10 Unmodified _KAKKAKKRVK_ 0 0 0 REV__ENST00000494833.1_1_22:50214627-50216774:-|nuORF REV__ENST00000494833.1_1_22:50214627-50216774:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.8749389648438 2 592.919324 1183.8241 NaN NaN NaN NaN NaN NaN NaN 95.111 1 95.193 94.693 95.693 0.082001 0 0 0 1.0016 1 50202 50202 0.35063 0.35063 1 + 11958 10831 7487 7509 14065 14065 0.23953622855628964 KAKKKKEKRK 10 Unmodified _KAKKKKEKRK_ 0 0 0 REV__ENST00000588551.5_1_19:30097225-30101540:+|nuORF REV__ENST00000588551.5_1_19:30097225-30101540:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 636.4339599609375 2 636.435338 1270.85612 NaN NaN NaN NaN NaN NaN NaN 94.549 1 94.809 94.309 95.309 0.25975 0 0 0 1.0015 1 43447 43447 0.40072 0 1 + 11959 11016 7488 7510 14066 14066 0.23152990538778795 KAKKKKKGVVP 11 Unmodified _KAKKKKKGVVP_ 0 0 0 nc|ENSG00000104131|O75822-2|EIF3J;nc|ENSG00000104131|O75822-3|EIF3J;ENSG00000104131|ENST00000261868|EIF3J nc|ENSG00000104131|O75822-2|EIF3J nc|ENSG00000104131|O75822-2|EIF3J MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 605.9609985351562 2 605.921532 1209.82851 NaN NaN NaN NaN NaN NaN NaN 75.152 1 75.152 74.652 75.652 0 0 0 0 1.0072 1 36822 36822 1.3295 0.72803 1 11960 1426 7489 7511 14067 14067 0.2319908727854454 KAKKKKKGVVP 11 Unmodified _KAKKKKKGVVP_ 0 0 0 nc|ENSG00000104131|O75822-2|EIF3J;nc|ENSG00000104131|O75822-3|EIF3J;ENSG00000104131|ENST00000261868|EIF3J nc|ENSG00000104131|O75822-2|EIF3J nc|ENSG00000104131|O75822-2|EIF3J MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.1448364257812 2 605.921532 1209.82851 NaN NaN NaN NaN NaN NaN NaN 75.78 1 76.443 75.943 76.943 0.6635 0 0 0 1.0059 1 36703 36703 2.9952 1.3426 1 11961 1426 7489 7511 14068 14068 0.2319908727854454 KAKKKKKKKK 10 Unmodified _KAKKKKKKKK_ 0 0 0 ENSG00000189134|ENST00000343684|NKAPL;ENST00000359543.7_1_16:10626568-10626661:-|nuORF REV__ENSG00000130826|ENST00000369550|DKC1;ENSG00000189134|ENST00000343684|NKAPL;ENST00000359543.7_1_16:10626568-10626661:-|nuORF REV__ENSG00000130826|ENST00000369550|DKC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 621.7512817382812 2 621.958449 1241.90235 NaN NaN NaN NaN NaN NaN NaN 86.365 1 86.365 85.865 86.865 0 0 0 0 1.0016 1 44250 44250 0.35063 0 1 11962 11834;5705;7204 7490 7512 14069 14069 0.29107055440863405 KAKKKKKKKKH 11 Unmodified _KAKKKKKKKKH_ 0 0 0 ENSG00000189134|ENST00000343684|NKAPL ENSG00000189134|ENST00000343684|NKAPL ENSG00000189134|ENST00000343684|NKAPL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 690.5361328125 2 690.487905 1378.96126 NaN NaN NaN NaN NaN NaN NaN 84.511 1 84.539 84.039 85.039 0.028603 0 0 0 1.008 1 42175 42175 0.30703 0.03801 1 11963 5705 7491 7513 14070 14070 0.28693531735189026 KAKKKKKKKKT 11 Unmodified _KAKKKKKKKKT_ 0 0 0 REV__ENSG00000130826|ENST00000369550|DKC1 REV__ENSG00000130826|ENST00000369550|DKC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 672.3688354492188 2 672.482289 1342.95002 NaN NaN NaN NaN NaN NaN NaN 78.173 1 78.637 78.137 79.137 0.4642 0 0 0 1.0072 1 37968 37968 1.3295 0 1 + 11964 11834 7492 7514 14071 14071 0.29226709641056914 KAKKKKLKV 9 Unmodified _KAKKKKLKV_ 0 0 0 ENSG00000111358|ENST00000543341|GTF2H3;nc|ENSG00000111358|Q13889-2|GTF2H3;ENST00000539429.1_1_12:124144026-124144779:+|nuORF ENSG00000111358|ENST00000543341|GTF2H3 ENSG00000111358|ENST00000543341|GTF2H3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.7654418945312 2 535.892244 1069.76993 NaN NaN NaN NaN NaN NaN NaN 71.592 1 71.85 71.35 72.35 0.25786 0 0 0 0.90699 1 32809 32809 1.8442 0.19162 1 11965 1760 7493 7515 14072 14072 0.23784030704064207 KAKKKLEKKTR 11 Unmodified _KAKKKLEKKTR_ 0 0 0 ENSG00000182329|ENST00000498697|KIAA2012;nc|ENSG00000182329|Q0VF49|KIAA2012;nc|ENSG00000182329|Q0VF49-2|KIAA2012 ENSG00000182329|ENST00000498697|KIAA2012 ENSG00000182329|ENST00000498697|KIAA2012 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 453.559814453125 3 453.304911 1356.8929 NaN NaN NaN NaN NaN NaN NaN 66.359 1 66.359 65.859 66.859 0 0 0 0 1.0073 1 31707 31707 0.40827 0 1 11966 5330 7494 7516 14073 14073 0.22873242364676116 KAKKKLKRKKK 11 Unmodified _KAKKKLKRKKK_ 0 0 0 REV__ENSG00000157895|ENST00000288757|C12orf43 REV__ENSG00000157895|ENST00000288757|C12orf43 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 692.50341796875 2 692.503555 1382.99256 NaN NaN NaN NaN NaN NaN NaN 93.42 1 94.051 93.551 94.551 0.63115 0 0 0 1.008 1 42975 42975 0.30703 0.30703 1 + 11967 12812 7495 7517 14074 14074 0.31638104769285746 KAKKLKTLKKI 11 Unmodified _KAKKLKTLKKI_ 0 0 0 L1HS_dup1616|chr22:28663284-28669315:+|1.1217790905042195|0.2468976263073953|2.18|496.0|23|2|sense L1HS_dup1616|chr22:28663284-28669315:+|1.1217790905042195|0.2468976263073953|2.18|496.0|23|2|sense L1HS_dup1616|chr22:28663284-28669315:+|1.1217790905042195|0.2468976263073953|2.18|496.0|23|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 649.9684448242188 2 649.96594 1297.91733 NaN NaN NaN NaN NaN NaN NaN 83.176 1 83.176 82.676 83.676 0 0 0 0 1.0082 1 41838 41838 0.30703 0.30703 1 11968 9424 7496 7518 14075 14075 0.2802850251819109 KAKKRKLSR 9 Unmodified _KAKKRKLSR_ 0 0 0 REV__ENST00000432059.6_2_4:147442877-147443087:-|nuORF REV__ENST00000432059.6_2_4:147442877-147443087:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.9771118164062 2 557.880199 1113.74584 NaN NaN NaN NaN NaN NaN NaN 67.021 1 67.725 67.225 68.225 0.7047 0 0 0 0.8984 1 31808 31808 3.9444 0 1 + 11969 16269 7497 7519 14076 14076 0.19352190270387837 KAKLAIWV 8 Unmodified _KAKLAIWV_ 0 0 0 nc|ENSG00000099246|Q9NP72-2|RAB18 nc|ENSG00000099246|Q9NP72-2|RAB18 nc|ENSG00000099246|Q9NP72-2|RAB18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.7864685058594 2 464.802563 927.590573 NaN NaN NaN NaN NaN NaN NaN 67.462 1 68.164 67.664 68.664 0.70218 0 0 0 0.99035 1 32082 32082 4.756 1.8668 1 11970 9573 7498 7520 14077 14077 0.12388146416117252 KAKLFLRVLTD 11 Unmodified _KAKLFLRVLTD_ 0 0 0 REV__NBEAL1|p.L1448*|1|0.12|ENSG00000144426|chr2:203136636-203136636|T/-|frameshift_variant REV__NBEAL1|p.L1448*|1|0.12|ENSG00000144426|chr2:203136636-203136636|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 652.4133911132812 2 652.408455 1302.80236 NaN NaN NaN NaN NaN NaN NaN 79.655 1 80.315 79.815 80.815 0.66082 0 0 0 1.0059 1 36702 36702 2.9952 0 1 + 11971 12402 7499 7521 14078 14078 0.16306773316409817 KAKLHLKKK 9 Unmodified _KAKLHLKKK_ 0 0 0 AluSq2_dup7094|chr2:91789471-91789748:+|1.2129009588966586|0.1562721707057721|2.96|509.0|13|3|sense AluSq2_dup7094|chr2:91789471-91789748:+|1.2129009588966586|0.1562721707057721|2.96|509.0|13|3|sense AluSq2_dup7094|chr2:91789471-91789748:+|1.2129009588966586|0.1562721707057721|2.96|509.0|13|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.0587768554688 2 547.382043 1092.74953 NaN NaN NaN NaN NaN NaN NaN 54.902 1 54.902 54.402 55.402 0 0 0 0 0.90611 1 25206 25206 2.0598 0 1 11972 41 7500 7522 14079 14079 0.2068686004427036 KAKLHLKKK 9 Unmodified _KAKLHLKKK_ 0 0 0 AluSq2_dup7094|chr2:91789471-91789748:+|1.2129009588966586|0.1562721707057721|2.96|509.0|13|3|sense AluSq2_dup7094|chr2:91789471-91789748:+|1.2129009588966586|0.1562721707057721|2.96|509.0|13|3|sense AluSq2_dup7094|chr2:91789471-91789748:+|1.2129009588966586|0.1562721707057721|2.96|509.0|13|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.4921264648438 2 547.382043 1092.74953 NaN NaN NaN NaN NaN NaN NaN 80.289 1 80.949 80.449 81.449 0.65998 0 0 0 0.90699 1 36996 36996 1.8442 0 1 11973 41 7500 7522 14080 14080 0.2068686004427036 KAKLQRKKKKR 11 Unmodified _KAKLQRKKKKR_ 0 0 0 ENST00000335730.6_1_18:44089558-44181581:-|nuORF;ENSG00000167210|ENST00000642948|LOXHD1 ENST00000335730.6_1_18:44089558-44181581:-|nuORF ENST00000335730.6_1_18:44089558-44181581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 706.4913330078125 2 706.488437 1410.96232 NaN NaN NaN NaN NaN NaN NaN 63.982 1 63.982 63.482 64.482 0 0 0 0 1.0073 1 30203 30203 1.1933 0.88631 1 11974 4537 7501 7523 14081 14081 0.27327746104083417 KAKLVHLV 8 Unmodified _KAKLVHLV_ 0 0 0 REV__nc|ENSG00000152223|Q9HCE0-2|EPG5 REV__nc|ENSG00000152223|Q9HCE0-2|EPG5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.19049072265625 2 454.308013 906.601472 NaN NaN NaN NaN NaN NaN NaN 73.916 1 74.603 74.103 75.103 0.68662 0 0 0 0.99035 1 35695 35695 5.2307 2.3415 1 + 11975 12641 7502 7524 14082 14082 0.14443548790416116 KAKNRQHLGKR 11 Unmodified _KAKNRQHLGKR_ 0 0 0 REV__ENST00000396058.1_1_3:44683601-44683664:+|nuORF REV__ENST00000396058.1_1_3:44683601-44683664:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 668.4111328125 2 668.407644 1334.80073 NaN NaN NaN NaN NaN NaN NaN 66.999 1 66.999 66.499 67.499 0 0 0 0 1.0041 1 32061 32061 5.2969 0.76802 1 + 11976 15996 7503 7525 14083 14083 0.1467257707099634 KAKPEASF 8 Unmodified _KAKPEASF_ 0 0 0 ENSG00000073849|ENST00000169298|ST6GAL1 ENSG00000073849|ENST00000169298|ST6GAL1 ENSG00000073849|ENST00000169298|ST6GAL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 439.242919921875 2 439.242535 876.470518 NaN NaN NaN NaN NaN NaN NaN 62.288 1 62.288 61.788 62.788 0 0 0 0 0.95658 1 29179 29179 8.5933 0.68312 1 11977 814 7504 7526 14084 14084 0.02734113351709766 KAKPKDRERKD 11 Unmodified _KAKPKDRERKD_ 0 0 0 REV__ENSG00000122257|ENST00000319715|RBBP6 REV__ENSG00000122257|ENST00000319715|RBBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 457.8500061035156 3 457.600275 1369.779 NaN NaN NaN NaN NaN NaN NaN 65.903 1 65.903 65.403 66.403 0 0 0 0 1.0044 1 31419 31419 2.2527 0 1 + 11978 11580 7505 7527 14085 14085 0.10889727531775861 KAKPRDRR 8 Unmodified _KAKPRDRR_ 0 0 0 ENST00000474207.2_1_19:2984211-2987247:+|nuORF ENST00000474207.2_1_19:2984211-2987247:+|nuORF ENST00000474207.2_1_19:2984211-2987247:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8189697265625 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 10.078 1 10.707 10.207 11.207 0.62936 0 0 0 0.99035 1 4538 4538 0.6015 0.14316 1 11979 8205 7506 7528 14086 14086 0.10885898134006311 KAKQKYWYMAR 11 Unmodified _KAKQKYWYMAR_ 0 0 0 REV__nc|ENSG00000211710|A0A577|TRBV4-1 REV__nc|ENSG00000211710|A0A577|TRBV4-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.79669189453125 3 491.599218 1471.77582 NaN NaN NaN NaN NaN NaN NaN 74.837 1 75.095 74.595 75.595 0.25831 0 0 0 1.0073 1 34424 34424 0.40827 0 1 + 11980 18121 7507 7529 14087 14087 0.058807611534348325 KAKRLGIWLFM 11 Unmodified _KAKRLGIWLFM_ 0 0 0 ENST00000587974.1_1_18:43487913-43547205:-|nuORF;nc|ENSG00000152223|Q9HCE0-2|EPG5;ENSG00000152223|ENST00000282041|EPG5 ENST00000587974.1_1_18:43487913-43547205:-|nuORF ENST00000587974.1_1_18:43487913-43547205:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.89141845703125 3 454.940804 1361.80058 NaN NaN NaN NaN NaN NaN NaN 65.155 1 65.864 65.364 66.364 0.70891 0 0 0 1.0041 1 30774 30774 2.4348 0 1 11981 3744 7508 7530 14088 14088 0.13415441026791086 KAKRLLSP 8 Unmodified _KAKRLLSP_ 0 0 0 REV__ENST00000453008.2_1_2:88927414-88927579:+|nuORF REV__ENST00000453008.2_1_2:88927414-88927579:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.8716735839844 3 304.871155 911.591636 NaN NaN NaN NaN NaN NaN NaN 26.134 1 26.898 26.398 27.398 0.76356 0 0 0 0.99035 1 11734 11734 1.4819 0 1 + 11982 16422 7509 7531 14089 14089 0.1323036078503037 KAKRTHEQ 8 Unmodified _KAKRTHEQ_ 0 0 0 REV__ENST00000514352.5_1_4:91234111-91389506:+|nuORF REV__ENST00000514352.5_1_4:91234111-91389506:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.2792663574219 2 499.280515 996.546476 NaN NaN NaN NaN NaN NaN NaN 69.122 1 69.122 68.622 69.622 0 0 0 0 0.89651 1 33337 33337 12.532 3.1841 1 + 11983 17004 7510 7532 14090 14090 0.04806510251853524 KAKRTSPQ 8 Unmodified _KAKRTSPQ_ 0 0 0 REV__nc|ENSG00000165458|O15357-2|INPPL1 REV__nc|ENSG00000165458|O15357-2|INPPL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 458.3072814941406 2 458.272158 914.529764 NaN NaN NaN NaN NaN NaN NaN 61.151 1 61.891 61.391 62.391 0.7396 0 0 0 0.89651 1 28319 28319 12.532 1.7076 1 + 11984 13159 7511 7533 14091 14091 0.06908009365906764 KAKRTYESGSE 11 Unmodified _KAKRTYESGSE_ 0 0 0 nc|ENSG00000171988|Q15652-2|JMJD1C;nc|ENSG00000171988|Q15652-3|JMJD1C;ENSG00000171988|ENST00000399262|JMJD1C nc|ENSG00000171988|Q15652-2|JMJD1C nc|ENSG00000171988|Q15652-2|JMJD1C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 419.46453857421875 3 419.214086 1254.62043 NaN NaN NaN NaN NaN NaN NaN 75.26 1 75.518 75.018 76.018 0.25831 0 0 0 1.0073 1 34624 34624 1.2148 0.2893 1 11985 4849 7512 7534 14092 14092 0.0033038883286735654 KAKSKPRKRL 10 Unmodified _KAKSKPRKRL_ 0 0 0 nc|ENSG00000136895|Q5VVW2-5|GARNL3;ENSG00000136895|ENST00000373387|GARNL3;nc|ENSG00000136895|Q5VVW2-4|GARNL3;ENST00000481242.5_1_9:130127572-130155530:+|nuORF;ENST00000496711.5_1_9:130126995-130155530:+|nuORF nc|ENSG00000136895|Q5VVW2-5|GARNL3 nc|ENSG00000136895|Q5VVW2-5|GARNL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.4077758789062 2 606.406581 1210.79861 NaN NaN NaN NaN NaN NaN NaN 81.039 1 81.207 80.707 81.707 0.16862 0 0 0 0.99846 1 39777 39777 2.9952 1.151 1 11986 2986 7513 7535 14093 14093 0.201641483332196 KAKSRKKKKS 10 Unmodified _KAKSRKKKKS_ 0 0 0 REV__nc|ENSG00000153487|Q9UK53-3|ING1 REV__nc|ENSG00000153487|Q9UK53-3|ING1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 594.900146484375 2 594.898589 1187.78262 NaN NaN NaN NaN NaN NaN NaN 61.89 1 61.89 61.39 62.39 0 0 0 0 0.99846 1 28930 28930 2.9952 1.151 1 + 11987 12680 7514 7536 14094 14094 0.1962444209630121 KAKSRKKKKS 10 Unmodified _KAKSRKKKKS_ 0 0 0 REV__nc|ENSG00000153487|Q9UK53-3|ING1 REV__nc|ENSG00000153487|Q9UK53-3|ING1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 594.9008178710938 2 594.898589 1187.78262 NaN NaN NaN NaN NaN NaN NaN 63.78 1 63.78 63.28 64.28 0 0 0 0 1.0003 1 30064 30064 1.4819 0.95714 1 + 11988 12680 7514 7536 14095 14095 0.1962444209630121 KAKSTSTK 8 Unmodified _KAKSTSTK_ 0 0 0 REV__nc|ENSG00000047849|P27816-5|MAP4 REV__nc|ENSG00000047849|P27816-5|MAP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 425.7538757324219 2 425.753267 849.491981 2.8421 0.00121 -1.1294 -0.00048086 1.7127 0.00072917 425.7526997467482 83.013 0.32938 83.26 83.088 83.417 0.24722 35 17 3 0 0 0 0.7471 1 38243 38243 0.6015 0.6015 1 3029200 + 11989 10339 7515 7537 14096 14096 0.06121498380412049 KAKSTSTK 8 Unmodified _KAKSTSTK_ 0 0 0 REV__nc|ENSG00000047849|P27816-5|MAP4 REV__nc|ENSG00000047849|P27816-5|MAP4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 425.753267 849.491981 3.153 0.0013424 -1.7599 -0.00074928 1.3931 0.00059311 425.75244153891873 82.663 0.40523 83.324 83.108 83.513 0.66019 0.031699 -0.00026903 NaN 0.6015 50 22 3 NaN NaN NaN NaN 0 NaN NaN 0 2843500 + 11990 10339 7515 7537 0.06121498380412049 KAKTRLARGAR 11 Unmodified _KAKTRLARGAR_ 0 0 0 REV__ENST00000323534.4_2_3:152881030-152881288:+|nuORF REV__ENST00000323534.4_2_3:152881030-152881288:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 410.0975036621094 3 409.930067 1226.76837 2.0976 0.00085986 -1.006 -0.00041238 1.0916 0.00044748 410.2639152442126 72.627 0.15598 72.627 72.568 72.724 0 22 13 2 0 0 0 0.13295 1 35319 35319 2.2527 1.2905 1 840730 + 11991 15334 7516 7538 14097 14097 0.16405789668010584 KAKVKKKKPK 10 Unmodified _KAKVKKKKPK_ 0 0 0 nc|ENSG00000198363|Q12797-10|ASPH;ENSG00000198363|ENST00000379454|ASPH;ENST00000523897.5_1_8:62496079-62555960:-|nuORF nc|ENSG00000198363|Q12797-10|ASPH;ENST00000523897.5_1_8:62496079-62555960:-|nuORF nc|ENSG00000198363|Q12797-10|ASPH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.922607421875 2 591.924075 1181.8336 NaN NaN NaN NaN NaN NaN NaN 69.733 1 70.436 69.936 70.936 0.70302 0 0 0 0.9952 1 33385 33385 5.7319 2.1354 1 11992 5885;8660 7517 7539 14098 14098 0.24995391141146683 KAKVPERELW 10 Unmodified _KAKVPERELW_ 0 0 0 REV__ENSG00000171150|ENST00000394861|SOCS5 REV__ENSG00000171150|ENST00000394861|SOCS5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 628.59130859375 2 628.361505 1254.70846 NaN NaN NaN NaN NaN NaN NaN 105.41 1 106.01 105.51 106.51 0.59969 0 0 0 0.99812 1 48680 48680 3.2813 0.28607 1 + 11993 13479 7518 7540 14099 14099 0.09129054214145071 KAKVSRRKI 9 Unmodified _KAKVSRRKI_ 0 0 0 REV__ENSG00000266074|ENST00000675386|BAHCC1 REV__ENSG00000266074|ENST00000675386|BAHCC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.1084594726562 2 543.366924 1084.7193 NaN NaN NaN NaN NaN NaN NaN 61.77 1 62.501 62.001 63.001 0.73077 0 0 0 0.90699 1 28690 28690 1.8442 0 1 + 11994 14706 7519 7541 14100 14100 0.18032501379093446 KAKYVLIILL 10 Unmodified _KAKYVLIILL_ 0 0 0 REV__ENSG00000253598|ENST00000518568|SLC10A5 REV__ENSG00000253598|ENST00000518568|SLC10A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.4024658203125 2 587.40211 1172.78967 NaN NaN NaN NaN NaN NaN NaN 102.58 1 103.18 102.68 103.68 0.59759 0 0 0 1.0015 1 47478 47478 0.40072 0.40072 1 + 11995 14660 7520 7542 14101 14101 0.21018361924188866 KALILKKRRR 10 Unmodified _KALILKKRRR_ 0 0 0 REV__ENSG00000257315|ENST00000550078|ZBED6 REV__ENSG00000257315|ENST00000550078|ZBED6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.4487915039062 2 641.451323 1280.88809 NaN NaN NaN NaN NaN NaN NaN 74.51 1 74.768 74.268 75.268 0.25831 0 0 0 1.0015 1 34274 34274 0.40072 0 1 + 11996 14680 7521 7543 14102 14102 0.2588840301259552 KALKGKTRRK 10 Unmodified _KALKGKTRRK_ 0 0 0 REV__ENST00000513870.1_1_5:114624822-114624879:-|nuORF REV__ENST00000513870.1_1_5:114624822-114624879:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.6700439453125 2 593.398756 1184.78296 NaN NaN NaN NaN NaN NaN NaN 16.922 1 16.922 16.422 17.422 0 0 0 0 0.99774 1 7507 7507 3.5965 0 1 + 11997 16996 7522 7544 14103 14103 0.19795861816169236 KALLTLLPSL 10 Unmodified _KALLTLLPSL_ 0 0 0 REV__nc|ENSG00000198925|Q7Z3C6-3|ATG9A REV__nc|ENSG00000198925|Q7Z3C6-3|ATG9A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 534.9259643554688 2 534.854993 1067.69543 NaN NaN NaN NaN NaN NaN NaN 73.877 1 74.542 74.042 75.042 0.6644 0 0 0 0.95221 1 33991 33991 13.042 3.6593 1 + 11998 18104 7523 7545 14104 14104 0.16429223102045398 KALRDAKRALI 11 Unmodified _KALRDAKRALI_ 0 0 0 REV__nc|ENSG00000189221|P21397-2|MAOA REV__nc|ENSG00000189221|P21397-2|MAOA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 627.8828125 2 627.903871 1253.79319 NaN NaN NaN NaN NaN NaN NaN 77.212 1 77.773 77.273 78.273 0.56091 0 0 0 1.0052 1 37436 37436 3.8763 0.27984 1 + 11999 14176 7524 7546 14105 14105 0.17644424750756116 KANIKAQAM 9 Unmodified _KANIKAQAM_ 0 0 0 REV__ENSG00000112208|ENST00000370693|BAG2 REV__ENSG00000112208|ENST00000370693|BAG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.778076171875 2 487.776219 973.537886 NaN NaN NaN NaN NaN NaN NaN 39.453 1 40.091 39.591 40.591 0.63778 0 0 0 0.82031 1 18030 18030 8.5933 0.68312 1 + 12000 11264 7525 7547 14106 14106 0.05005820291012242 KAPAILMRKKL 11 Unmodified _KAPAILMRKKL_ 0 0 0 REV__ENST00000369983.3_1_10:104142211-104142316:+|nuORF REV__ENST00000369983.3_1_10:104142211-104142316:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.5899047851562 2 634.915393 1267.81623 NaN NaN NaN NaN NaN NaN NaN 69.246 1 69.246 68.746 69.746 0 0 0 0 1.0044 1 33414 33414 4.897 1.6157 1 + 12001 15715 7526 7548 14107 14107 0.19303727543842797 KAPAKKANS 9 Unmodified _KAPAKKANS_ 0 0 0 nc|ENSG00000169925|Q15059-2|BRD3;ENSG00000169925|ENST00000303407|BRD3 nc|ENSG00000169925|Q15059-2|BRD3 nc|ENSG00000169925|Q15059-2|BRD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 457.80194091796875 2 457.774534 913.534515 NaN NaN NaN NaN NaN NaN NaN 74.751 1 75.438 74.938 75.938 0.68662 0 0 0 0.77475 1 36134 36134 10.074 1.4806 1 12002 4722 7527 7549 14108 14108 0.07428893508654255 KAPEYYLYQR 10 Unmodified _KAPEYYLYQR_ 0 0 0 nc|ENSG00000148842|Q9H8M5-2|CNNM2;ENSG00000148842|ENST00000369878|CNNM2 nc|ENSG00000148842|Q9H8M5-2|CNNM2 nc|ENSG00000148842|Q9H8M5-2|CNNM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 665.8432006835938 2 665.843145 1329.67174 NaN NaN NaN NaN NaN NaN NaN 73.166 1 73.425 72.925 73.925 0.25876 0 0 0 0.9952 1 33599 33599 5.7319 0.43497 1 12003 3618 7528 7550 14109 14109 0.020087575975594518 KAPKAKDAM 9 Unmodified _KAPKAKDAM_ 0 0 0 REV__ENSG00000171368|ENST00000360578|TPPP REV__ENSG00000171368|ENST00000360578|TPPP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.16094970703125 2 480.27077 958.526987 NaN NaN NaN NaN NaN NaN NaN 66.65 1 67.355 66.855 67.855 0.7047 0 0 0 0.62812 1 31611 31611 14.838 6.245 1 + 12004 13490 7529 7551 14110 14110 0.046064179167160546 KAPKGFAM 8 Unmodified _KAPKGFAM_ 0 0 0 REV__ENST00000486082.5_1_1:27657613-27661179:+|nuORF REV__ENST00000486082.5_1_1:27657613-27661179:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 425.2355041503906 2 425.236199 848.457844 NaN NaN NaN NaN NaN NaN NaN 16.481 1 16.785 16.285 17.285 0.30438 0 0 0 0.99035 1 7460 7460 0.69038 0 1 + 12005 14060 7530 7552 14111 14111 0.027553786878115716 KAPKKLKKP 9 Unmodified _KAPKKLKKP_ 0 0 0 REV__ENSG00000110066|ENST00000304363|KMT5B REV__ENSG00000110066|ENST00000304363|KMT5B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.5203857421875 2 519.363319 1036.71209 NaN NaN NaN NaN NaN NaN NaN 72.975 1 72.975 72.475 73.475 0 0 0 0 0.87786 1 35518 35518 6.7232 2.7788 1 + 12006 11193 7531 7553 14112 14112 0.1951976877865036 KAPKKRKKK 9 Unmodified _KAPKKRKKK_ 0 0 0 nc|ENSG00000092203|O94842-3|TOX4;nc|ENSG00000092203|O94842-2|TOX4;ENSG00000092203|ENST00000448790|TOX4 nc|ENSG00000092203|O94842-3|TOX4 nc|ENSG00000092203|O94842-3|TOX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.16552734375 2 556.392942 1110.77133 NaN NaN NaN NaN NaN NaN NaN 87.066 1 87.066 86.566 87.566 0 0 0 0 0.90777 1 44791 44791 1.6526 1.0511 1 12007 1096 7532 7554 14113 14113 0.2203766479283331 KAPKRKQAFHW 11 Unmodified _KAPKRKQAFHW_ 0 0 0 NKTR|p.S1045Dfs*8|1|0.23|ENSG00000114857|chr3:42638836-42638837|-/GA|frameshift_variant;ENSG00000114857|ENST00000232978|NKTR NKTR|p.S1045Dfs*8|1|0.23|ENSG00000114857|chr3:42638836-42638837|-/GA|frameshift_variant NKTR|p.S1045Dfs*8|1|0.23|ENSG00000114857|chr3:42638836-42638837|-/GA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 698.900634765625 2 698.901663 1395.78877 NaN NaN NaN NaN NaN NaN NaN 72.555 1 73.219 72.719 73.719 0.66398 0 0 0 1.0061 1 33290 33290 2.7352 1.2533 1 12008 1926 7533 7555 14114 14114 0.10670960327843204 KAPKVVILKK 10 Unmodified _KAPKVVILKK_ 0 0 0 nc|ENSG00000136997|P01106-1|MYC;nc|ENSG00000136997|P01106-3|MYC;ENSG00000136997|ENST00000621592|MYC nc|ENSG00000136997|P01106-1|MYC nc|ENSG00000136997|P01106-1|MYC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.5308837890625 2 562.399902 1122.78525 NaN NaN NaN NaN NaN NaN NaN 64.736 1 65.451 64.951 65.951 0.71521 0 0 0 0.99812 1 30513 30513 3.2813 1.7994 1 12009 2994 7534 7556 14115 14115 0.22876897501282656 KAPLFLHL 8 Unmodified _KAPLFLHL_ 0 0 0 REV__ENST00000257177.8_1_1:52940808-52940859:-|nuORF REV__ENST00000257177.8_1_1:52940808-52940859:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 469.7943115234375 2 469.794738 937.574923 NaN NaN NaN NaN NaN NaN NaN 54.005 1 54.672 54.172 55.172 0.6665 0 0 0 0.99035 1 24702 24702 6.3541 0 1 + 12010 14939 7535 7557 14116 14116 0.10363859899075578 KAPLIKWVGPV 11 Unmodified _KAPLIKWVGPV_ 0 0 0 REV__ENST00000395797.1_1_10:44140047-44140086:-|nuORF REV__ENST00000395797.1_1_10:44140047-44140086:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 403.59271240234375 3 403.256898 1206.74886 2.5952 0.0010465 1.7561 0.00070814 4.3513 0.0017547 403.2574015510349 48.046 0.33978 48.046 47.93 48.269 0 30 14 3 0 0 0 0.91104 1 22009 22009 1.2148 0.51716 1 561410 + 12011 15992 7536 7558 14117 14117 0.15376020604549012 KAPLIKWVGPV 11 Unmodified _KAPLIKWVGPV_ 0 0 0 REV__ENST00000395797.1_1_10:44140047-44140086:-|nuORF REV__ENST00000395797.1_1_10:44140047-44140086:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 403.256898 1206.74886 2.5952 0.0010465 1.7561 0.00070814 4.3513 0.0017547 403.2574015510349 48.046 0.33978 48.046 47.93 48.269 0 0.15443 0.00047535 NaN 1.2148 30 14 3 NaN NaN NaN NaN 0 NaN NaN 0 561410 + 12012 15992 7536 7558 0.15376020604549012 KAPLIKWVGPV 11 Unmodified _KAPLIKWVGPV_ 0 0 0 REV__ENST00000395797.1_1_10:44140047-44140086:-|nuORF REV__ENST00000395797.1_1_10:44140047-44140086:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 403.256898 1206.74886 2.5192 0.0010159 0.74017 0.00029848 3.2594 0.0013144 403.2569242680964 47.048 0.20805 47.877 47.842 48.05 0.82915 -0.01401 -0.00075365 NaN 1.2148 18 13 2 NaN NaN NaN NaN 0 NaN NaN 0 384110 + 12013 15992 7536 7558 0.15376020604549012 KAPLIKWVGPV 11 Unmodified _KAPLIKWVGPV_ 0 0 0 REV__ENST00000395797.1_1_10:44140047-44140086:-|nuORF REV__ENST00000395797.1_1_10:44140047-44140086:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 403.256898 1206.74886 2.8821 0.0011622 1.2268 0.0004947 4.1089 0.0016569 403.25735973274993 47.099 0.10312 47.751 47.715 47.818 0.65219 -0.14042 -0.00016498 NaN 1.2148 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 273930 + 12014 15992 7536 7558 0.15376020604549012 KAPRRLNKRRF 11 Unmodified _KAPRRLNKRRF_ 0 0 0 nc|ENSG00000149091|Q13574-6|DGKZ;ENSG00000149091|ENST00000456247|DGKZ;nc|ENSG00000149091|Q13574-4|DGKZ;nc|ENSG00000149091|Q13574-5|DGKZ nc|ENSG00000149091|Q13574-6|DGKZ nc|ENSG00000149091|Q13574-6|DGKZ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 721.4661254882812 2 721.452385 1440.89022 NaN NaN NaN NaN NaN NaN NaN 88.965 1 89.017 88.517 89.517 0.052155 0 0 0 1.0061 1 45476 45476 2.7352 0.23671 1 12015 3625 7537 7559 14118 14118 0.1874083175036958 KAPVKLLFLH 10 Unmodified _KAPVKLLFLH_ 0 0 0 REV__ENSG00000186648|ENST00000342740|CARMIL3 REV__ENSG00000186648|ENST00000342740|CARMIL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.3798828125 2 583.376426 1164.7383 3.5027 0.0020434 1.7026 0.00099328 5.2054 0.0030367 583.3772246385321 41.99 0.19936 41.99 41.869 42.068 0 28 12 3 0 0 0 0.93584 1 19119 19119 3.5965 3.5965 1 2462400 + 12016 14065 7538 7560 14119 14119 0.16252037950107479 KAPVKLLFLH 10 Unmodified _KAPVKLLFLH_ 0 0 0 REV__ENSG00000186648|ENST00000342740|CARMIL3 REV__ENSG00000186648|ENST00000342740|CARMIL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.2544250488281 3 389.253376 1164.7383 2.6224 0.0010208 0.9822 0.00038233 3.6046 0.0014031 389.25379821342347 44.077 0.11943 44.077 44.029 44.149 0 21 11 2 0 0 0 0.93503 1 20145 20145 1.9064 1.9064 1 1419700 + 12017 14065 7538 7560 14120 14120 0.16252037950107479 KAPVKLLFLH 10 Unmodified _KAPVKLLFLH_ 0 0 0 REV__ENSG00000186648|ENST00000342740|CARMIL3 REV__ENSG00000186648|ENST00000342740|CARMIL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.2547302246094 3 389.253376 1164.7383 2.5393 0.00098844 1.1663 0.00045397 3.7056 0.0014424 389.25375991511527 46.072 1.0642 46.072 45.494 46.558 0 104 53 2 0 0 0 0.93503 5 20993 20814;20869;20929;20993;21082 1.9064 1.2087 1 1080500 + 12018 14065 7538 7560 14121;14122;14123;14124;14125 14124 0.16252037950107479 KAPVKLLFLH 10 Unmodified _KAPVKLLFLH_ 0 0 0 REV__ENSG00000186648|ENST00000342740|CARMIL3 REV__ENSG00000186648|ENST00000342740|CARMIL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.3784790039062 2 583.376426 1164.7383 3.67 0.002141 0.98364 0.00057383 4.6536 0.0027148 583.3768716834026 41.205 0.32012 41.474 41.345 41.665 0.26904 53 29 2 0 0 0 0.94099 1 18836 18836 1.6526 1.6526 1 2832800 + 12019 14065 7538 7560 14126 14126 0.16252037950107479 KAPVKLLFLH 10 Unmodified _KAPVKLLFLH_ 0 0 0 REV__ENSG00000186648|ENST00000342740|CARMIL3 REV__ENSG00000186648|ENST00000342740|CARMIL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.2552185058594 3 389.253376 1164.7383 3.0088 0.0011712 1.0555 0.00041086 4.0644 0.0015821 389.2537178126788 46.401 0.30698 46.666 46.449 46.756 0.26561 19 11 2 0 0 0 0.9406 1 21210 21210 0.77653 0.14971 1 706550 + 12020 14065 7538 7560 14127 14127 0.16252037950107479 KAPVKLLFLH 10 Unmodified _KAPVKLLFLH_ 0 0 0 REV__ENSG00000186648|ENST00000342740|CARMIL3 REV__ENSG00000186648|ENST00000342740|CARMIL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.2547607421875 3 389.253376 1164.7383 3.0069 0.0011704 0.78595 0.00030593 3.7928 0.0014764 389.25361573458446 40.966 0.50678 41.611 41.455 41.962 0.64451 112 48 4 0 0 0 0.93503 1 18727 18727 1.9064 1.9064 1 44386000 + 12021 14065 7538 7560 14128 14128 0.16252037950107479 KAPVKLLFLH 10 Unmodified _KAPVKLLFLH_ 0 0 0 REV__ENSG00000186648|ENST00000342740|CARMIL3 REV__ENSG00000186648|ENST00000342740|CARMIL3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 389.253376 1164.7383 2.4886 0.00096871 1.5409 0.00059979 4.0295 0.0015685 389.25379269826954 46.693 0.40845 46.693 46.558 46.967 0 -0.00236 0.00024904 NaN 0.77653 26 14 2 NaN NaN NaN NaN 0 NaN NaN 0 520960 + 12022 14065 7538 7560 0.16252037950107479 KAPVKLLFLH 10 Unmodified _KAPVKLLFLH_ 0 0 0 REV__ENSG00000186648|ENST00000342740|CARMIL3 REV__ENSG00000186648|ENST00000342740|CARMIL3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 389.253376 1164.7383 2.6224 0.0010208 0.9822 0.00038233 3.6046 0.0014031 389.25379821342347 44.077 0.11943 44.077 44.029 44.149 0 0.035249 -0.00062634 NaN 1.9064 21 11 2 NaN NaN NaN NaN 0 NaN NaN 0 1419700 + 12023 14065 7538 7560 0.16252037950107479 KAPVKLLFLH 10 Unmodified _KAPVKLLFLH_ 0 0 0 REV__ENSG00000186648|ENST00000342740|CARMIL3 REV__ENSG00000186648|ENST00000342740|CARMIL3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 389.253376 1164.7383 2.4933 0.00097052 1.3031 0.00050723 3.7964 0.0014778 389.2537460723944 40.698 0.25566 41.502 41.431 41.687 0.8035 -0.013947 0.00036035 NaN 1.9064 84 37 3 NaN NaN NaN NaN 0 NaN NaN 0 29317000 + 12024 14065 7538 7560 0.16252037950107479 KAPVKLLFLH 10 Unmodified _KAPVKLLFLH_ 0 0 0 REV__ENSG00000186648|ENST00000342740|CARMIL3 REV__ENSG00000186648|ENST00000342740|CARMIL3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 389.253376 1164.7383 2.5036 0.00097454 1.7663 0.00068753 4.2699 0.0016621 389.2542007207304 45.427 0.18262 46.253 46.218 46.401 0.82621 0.090341 0.00049363 NaN 1.9064 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 337290 + 12025 14065 7538 7560 0.16252037950107479 KAPVKLLFLH 10 Unmodified _KAPVKLLFLH_ 0 0 0 REV__ENSG00000186648|ENST00000342740|CARMIL3 REV__ENSG00000186648|ENST00000342740|CARMIL3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 389.253376 1164.7383 2.4374 0.00094876 1.4658 0.00057057 3.9032 0.0015193 389.2539481937642 43.338 0.50048 44.153 44.116 44.617 0.81444 0.11153 -6.1611E-05 NaN 1.9064 33 25 2 NaN NaN NaN NaN 0 NaN NaN 0 417750 + 12026 14065 7538 7560 0.16252037950107479 KAPVKLLFLH 10 Unmodified _KAPVKLLFLH_ 0 0 0 REV__ENSG00000186648|ENST00000342740|CARMIL3 REV__ENSG00000186648|ENST00000342740|CARMIL3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 583.376426 1164.7383 3.6871 0.002151 1.5298 0.00089244 5.2169 0.0030434 583.3772722000557 41.708 0.37428 41.978 41.726 42.101 0.27021 -0.0059255 -5.8968E-05 NaN 3.5965 36 16 4 NaN NaN NaN NaN 0 NaN NaN 0 4860900 + 12027 14065 7538 7560 0.16252037950107479 KAPVKLLFLH 10 Unmodified _KAPVKLLFLH_ 0 0 0 REV__ENSG00000186648|ENST00000342740|CARMIL3 REV__ENSG00000186648|ENST00000342740|CARMIL3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 389.253376 1164.7383 3.1326 0.0012194 0.92671 0.00036072 4.0593 0.0015801 389.2536354127197 41.166 0.56216 41.435 41.278 41.84 0.26904 -0.080833 -7.9173E-05 NaN 1.9064 180 52 4 NaN NaN NaN NaN 0 NaN NaN 0 25287000 + 12028 14065 7538 7560 0.16252037950107479 KAPVKLLFLH 10 Unmodified _KAPVKLLFLH_ 0 0 0 REV__ENSG00000186648|ENST00000342740|CARMIL3 REV__ENSG00000186648|ENST00000342740|CARMIL3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 389.253376 1164.7383 3.0088 0.0011712 1.0555 0.00041086 4.0644 0.0015821 389.2537178126788 46.401 0.30698 46.666 46.449 46.756 0.26561 -0.028741 -0.00031775 NaN 0.77653 19 11 2 NaN NaN NaN NaN 0 NaN NaN 0 706550 + 12029 14065 7538 7560 0.16252037950107479 KAPVKLLFLH 10 Unmodified _KAPVKLLFLH_ 0 0 0 REV__ENSG00000186648|ENST00000342740|CARMIL3 REV__ENSG00000186648|ENST00000342740|CARMIL3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 389.253376 1164.7383 2.7858 0.0010844 1.7278 0.00067255 4.5136 0.0017569 389.25400777773933 43.738 0.42415 44.007 43.614 44.038 0.26939 -0.034379 0.00024432 NaN 1.9064 37 16 3 NaN NaN NaN NaN 0 NaN NaN 0 2452300 + 12030 14065 7538 7560 0.16252037950107479 KAPVKLLFLH 10 Unmodified _KAPVKLLFLH_ 0 0 0 REV__ENSG00000186648|ENST00000342740|CARMIL3 REV__ENSG00000186648|ENST00000342740|CARMIL3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 389.253376 1164.7383 2.9562 0.0011507 1.7071 0.00066449 4.6633 0.0018152 389.25394856473224 43.28 0.32623 43.929 43.795 44.121 0.64872 -0.1124 0.00022016 NaN 1.9064 18 13 2 NaN NaN NaN NaN 0 NaN NaN 0 816660 + 12031 14065 7538 7560 0.16252037950107479 KAPWLRKEWRC 11 Unmodified _KAPWLRKEWRC_ 0 0 0 REV__ENSG00000160953|ENST00000591337|PWWP3A REV__ENSG00000160953|ENST00000591337|PWWP3A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.47222900390625 3 491.602962 1471.78706 NaN NaN NaN NaN NaN NaN NaN 73.787 1 74.452 73.952 74.952 0.6644 0 0 0 1.0073 1 33939 33939 1.2148 0 1 + 12032 12899 7539 7561 14129 14129 0.07003583247546885 KAQKIVHK 8 Unmodified _KAQKIVHK_ 0 0 0 ENSG00000162670|ENST00000367462|BRINP3;nc|ENSG00000162670|Q76B58-2|BRINP3 ENSG00000162670|ENST00000367462|BRINP3 ENSG00000162670|ENST00000367462|BRINP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 476.3631591796875 2 476.308544 950.602535 NaN NaN NaN NaN NaN NaN NaN 65.867 1 66.576 66.076 67.076 0.70891 0 0 0 0.92256 1 31183 31183 10.824 2.2306 1 12033 4156 7540 7562 14130 14130 0.12525763159328562 KARKARFKL 9 Unmodified _KARKARFKL_ 0 0 0 ENST00000419462.1_1_8:102381113-102381542:+|nuORF;nc|ENSG00000228224|Q9BZK3|NACA4P ENST00000419462.1_1_8:102381113-102381542:+|nuORF ENST00000419462.1_1_8:102381113-102381542:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.939208984375 2 559.369467 1116.72438 NaN NaN NaN NaN NaN NaN NaN 95.849 1 96.117 95.617 96.617 0.2675 0 0 0 0.91238 1 44042 44042 0.52476 0 1 12034 7742 7541 7563 14131 14131 0.1706880524168355 KARKLIIIIKL 11 Unmodified _KARKLIIIIKL_ 0 0 0 REV__ENST00000468148.5_1_6:57086941-57087007:-|nuORF REV__ENST00000468148.5_1_6:57086941-57087007:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 654.9774169921875 2 654.976308 1307.93806 NaN NaN NaN NaN NaN NaN NaN 68.057 1 68.057 67.557 68.557 0 0 0 0 1.0082 1 32725 32725 0.30703 0 1 + 12035 16560 7542 7564 14132 14132 0.2964109289789576 KARKRRRRRRL 11 Unmodified _KARKRRRRRRL_ 0 0 0 nc|ENSG00000105549|Q9P2T0-2|SPMAP2;THEG|p.W321Cfs*55|1|0.07|ENSG00000105549|chr19:362380-362381|-/TAAACAC|frameshift_variant;ENSG00000105549|ENST00000342640|THEG nc|ENSG00000105549|Q9P2T0-2|SPMAP2 nc|ENSG00000105549|Q9P2T0-2|SPMAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.18017578125 3 518.017092 1551.02945 NaN NaN NaN NaN NaN NaN NaN 70.632 1 71.336 70.836 71.836 0.70386 0 0 0 1.0082 1 33858 33858 0.08335 0.08335 1 12036 1505 7543 7565 14133 14133 0.2759721415841341 KARKTKITHL 10 Unmodified _KARKTKITHL_ 0 0 0 nc|ENSG00000114439|Q8WY36-2|BBX;ENSG00000114439|ENST00000325805|BBX nc|ENSG00000114439|Q8WY36-2|BBX nc|ENSG00000114439|Q8WY36-2|BBX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.8859252929688 2 598.385314 1194.75608 3.8957 0.0023311 -3.2709 -0.0019572 0.6248 0.00037387 598.3822464893797 37.344 0.31084 37.605 37.447 37.758 0.26083 21 9 3 0 0 0 0.94134 1 17022 17022 1.4819 0.28856 1 265260 12037 1905 7544 7566 14134 14134 0.16648753204981404 KARKTKITHL 10 Unmodified _KARKTKITHL_ 0 0 0 nc|ENSG00000114439|Q8WY36-2|BBX;ENSG00000114439|ENST00000325805|BBX nc|ENSG00000114439|Q8WY36-2|BBX nc|ENSG00000114439|Q8WY36-2|BBX MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.2494201660156 3 399.259302 1194.75608 NaN NaN NaN NaN NaN NaN NaN 49.378 1 50.033 49.533 50.533 0.65524 0 0 0 0.99837 1 22588 22588 3.0723 0.63748 1 12038 1905 7544 7566 14135 14135 0.16648753204981404 KARKTKPK 8 Unmodified _KARKTKPK_ 0 0 0 REV__ENSG00000197498|ENST00000441448|RPF2 REV__ENSG00000197498|ENST00000441448|RPF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.73699951171875 2 478.821818 955.629084 NaN NaN NaN NaN NaN NaN NaN 54.457 1 54.457 53.957 54.957 0 0 0 0 0.99035 1 24983 24983 5.2307 0 1 + 12039 14283 7545 7567 14136 14136 0.14949452050655054 KARKTKPK 8 Unmodified _KARKTKPK_ 0 0 0 REV__ENSG00000197498|ENST00000441448|RPF2 REV__ENSG00000197498|ENST00000441448|RPF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.82464599609375 2 478.821818 955.629084 NaN NaN NaN NaN NaN NaN NaN 45.455 1 46.106 45.606 46.606 0.65104 0 0 0 0.99035 1 20829 20829 2.3027 0 1 + 12040 14283 7545 7567 14137 14137 0.14949452050655054 KARNRIKKKK 10 Unmodified _KARNRIKKKK_ 0 0 0 REV__ENST00000312438.7_1_11:67134982-67141182:-|nuORF REV__ENST00000312438.7_1_11:67134982-67141182:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 635.4321899414062 2 635.43313 1268.85171 NaN NaN NaN NaN NaN NaN NaN 16.696 1 16.897 16.397 17.397 0.20057 0 0 0 1.0003 1 7378 7378 1.4819 0.41044 1 + 12041 15272 7546 7568 14138 14138 0.22803526115853856 KARTKREL 8 Unmodified _KARTKREL_ 0 0 0 ENSG00000117000|ENST00000372771|RLF ENSG00000117000|ENST00000372771|RLF ENSG00000117000|ENST00000372771|RLF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.42498779296875 2 501.314358 1000.61416 NaN NaN NaN NaN NaN NaN NaN 71.097 1 71.097 70.597 71.597 0 0 0 0 0.95658 1 34544 34544 8.5933 0.68312 1 12042 2057 7547 7569 14139 14139 0.11387960182639745 KASKGRSTQP 10 Unmodified _KASKGRSTQP_ 0 0 0 REV__ENST00000421988.6_1_22:39493288-39496321:+|nuORF REV__ENST00000421988.6_1_22:39493288-39496321:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.297607421875 2 530.298904 1058.58326 NaN NaN NaN NaN NaN NaN NaN 89.051 1 89.103 88.603 89.603 0.052155 0 0 0 0.94357 1 45539 45539 14.405 2.1647 1 + 12043 16182 7548 7570 14140 14140 0.05630762077748841 KASLKGVP 8 Unmodified _KASLKGVP_ 0 0 0 ENST00000491680.6_1_2:30670231-30775468:+|nuORF;nc|ENSG00000172954|Q6UWP7-2|LCLAT1;ENSG00000172954|ENST00000379509|LCLAT1;nc|ENSG00000172954|Q6UWP7|LCLAT1 ENST00000491680.6_1_2:30670231-30775468:+|nuORF ENST00000491680.6_1_2:30670231-30775468:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 400.2555847167969 2 400.255446 798.496338 NaN NaN NaN NaN NaN NaN NaN 69.451 1 70.112 69.612 70.612 0.66071 0 0 0 0.99035 1 31838 31838 3.9444 0 1 12044 4908 7549 7571 14141 14141 0.08903007593994516 KATFIIKIIR 10 Unmodified _KATFIIKIIR_ 0 0 0 nc|ENSG00000113441|Q9UIQ6-3|LNPEP;nc|ENSG00000113441|Q9UIQ6-2|LNPEP;ENSG00000113441|ENST00000231368|LNPEP nc|ENSG00000113441|Q9UIQ6-3|LNPEP nc|ENSG00000113441|Q9UIQ6-3|LNPEP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.9031982421875 2 601.902808 1201.79106 NaN NaN NaN NaN NaN NaN NaN 66.619 1 67.324 66.824 67.824 0.7047 0 0 0 0.99812 1 31593 31593 3.2813 0 1 12045 1854 7550 7572 14142 14142 0.19823996012928546 KATGRPLTKYS 11 Unmodified _KATGRPLTKYS_ 0 0 0 REV__ENST00000472348.1_1_7:100204024-100205723:+|nuORF REV__ENST00000472348.1_1_7:100204024-100205723:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.1246948242188 2 611.351137 1220.68772 NaN NaN NaN NaN NaN NaN NaN 85.69 1 85.938 85.438 86.438 0.24857 0 0 0 1.0061 1 39430 39430 2.7352 1.2533 1 + 12046 11077 7551 7573 14143 14143 0.08620463834449765 KATKRPLK 8 Unmodified _KATKRPLK_ 0 0 0 ENST00000422479.5_1_7:99935845-99938576:+|nuORF ENST00000422479.5_1_7:99935845-99938576:+|nuORF ENST00000422479.5_1_7:99935845-99938576:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 471.1153564453125 2 471.316369 940.618185 NaN NaN NaN NaN NaN NaN NaN 66.992 1 66.992 66.492 67.492 0 0 0 0 0.967 1 32057 32057 7.9102 0.62092 1 12047 7769 7552 7574 14144 14144 0.14550049676370236 KAVRKLELGG 10 Unmodified _KAVRKLELGG_ 0 0 0 L1PA6_dup5640|chr19:20482443-20488575:+|1.1762487912993795|0.3545951168651645|1.73|529.0|58|2|sense L1PA6_dup5640|chr19:20482443-20488575:+|1.1762487912993795|0.3545951168651645|1.73|529.0|58|2|sense L1PA6_dup5640|chr19:20482443-20488575:+|1.1762487912993795|0.3545951168651645|1.73|529.0|58|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.5617370605469 3 357.560869 1069.66078 2.1836 0.00078077 0.28573 0.00010217 2.4693 0.00088294 357.561496033178 13.62 0.18553 13.928 13.806 13.992 0.30727 24 16 2 0 0 0 0.72158 1 6144 6144 12.175 0.68004 1 398200 12048 9477 7553 7575 14145 14145 0.1287340001395023 KAVTTRAT 8 Unmodified _KAVTTRAT_ 0 0 0 ENSG00000070886|ENST00000166244|EPHA8 ENSG00000070886|ENST00000166244|EPHA8 ENSG00000070886|ENST00000166244|EPHA8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 424.2555236816406 2 424.253434 846.492316 NaN NaN NaN NaN NaN NaN NaN 14.706 1 14.932 14.432 15.432 0.22622 0 0 0 0.99035 1 6468 6468 2.0598 1.2661 1 12049 774 7554 7576 14146 14146 0.06292918100280076 KAVVHQRPFVG 11 Unmodified _KAVVHQRPFVG_ 0 0 0 ENST00000569150.1_1_16:25251139-25264321:-|nuORF;ENSG00000155592|ENST00000328086|ZKSCAN2 ENST00000569150.1_1_16:25251139-25264321:-|nuORF ENST00000569150.1_1_16:25251139-25264321:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.3627319335938 2 619.361839 1236.70913 3.8888 0.0024086 -1.1321 -0.00070119 2.7567 0.0017074 619.3611452499556 32.307 0.24333 32.307 32.227 32.47 0 43 20 3 0 0 0 0.74281 1 14685 14685 9.3831 1.2276 1 1013600 12050 3869 7555 7577 14147 14147 0.10023893653828964 KAVWAKRIRN 10 Unmodified _KAVWAKRIRN_ 0 0 0 ENST00000474343.1_1_12:74042504-74042735:+|nuORF ENST00000474343.1_1_12:74042504-74042735:+|nuORF ENST00000474343.1_1_12:74042504-74042735:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 621.384765625 2 621.383106 1240.75166 NaN NaN NaN NaN NaN NaN NaN 58.531 1 59.198 58.698 59.698 0.66703 0 0 0 1.0003 1 26793 26793 1.4819 0.15237 1 12051 8208 7556 7578 14148 14148 0.14091288782060474 KAWEWRYRLYR 11 Unmodified _KAWEWRYRLYR_ 0 0 0 ANKFN1|p.T518Kfs*31|1|0.39|ENSG00000153930|chr17:56457963-56457964|-/AA|frameshift_variant;nc|ENSG00000153930|Q8N957-2|ANKFN1;ENSG00000153930|ENST00000682825|ANKFN1 ANKFN1|p.T518Kfs*31|1|0.39|ENSG00000153930|chr17:56457963-56457964|-/AA|frameshift_variant ANKFN1|p.T518Kfs*31|1|0.39|ENSG00000153930|chr17:56457963-56457964|-/AA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.9593505859375 3 542.959915 1625.85791 NaN NaN NaN NaN NaN NaN NaN 26.681 1 26.681 26.181 27.181 0 0 0 0 1.0082 1 12015 12015 0 0 1 12052 55 7557 7579 14149 14149 0.07001999556723604 KAWVRILPL 9 Unmodified _KAWVRILPL_ 0 0 0 ENST00000483463.1_1_1:154936075-154936129:-|nuORF ENST00000483463.1_1_1:154936075-154936129:-|nuORF ENST00000483463.1_1_1:154936075-154936129:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.7792358398438 2 548.355494 1094.69644 NaN NaN NaN NaN NaN NaN NaN 93.915 1 93.915 93.415 94.415 0 0 0 0 0.90431 1 50237 50237 1.8442 0 1 12053 8313 7558 7580 14150 14150 0.15287482261601326 KAWVRKLQR 9 Unmodified _KAWVRKLQR_ 0 0 0 nc|ENSG00000251692|Q96A99-2|PTX4;ENSG00000251692|ENST00000447419|PTX4 nc|ENSG00000251692|Q96A99-2|PTX4 nc|ENSG00000251692|Q96A99-2|PTX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.8713989257812 2 592.872374 1183.73019 NaN NaN NaN NaN NaN NaN NaN 71.964 1 72.627 72.127 73.127 0.66324 0 0 0 0.90699 1 32985 32985 1.8442 0.36234 1 12054 9851 7559 7581 14151 14151 0.1456790375334549 KAYARHRYIWY 11 Unmodified _KAYARHRYIWY_ 0 0 0 REV__Harlequin-int_dup446|chr19:20426579-20429510:-|1.2092047156725605|0.0242048410209908|5.64|525.0|93|3|sense REV__Harlequin-int_dup446|chr19:20426579-20429510:-|1.2092047156725605|0.0242048410209908|5.64|525.0|93|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 763.9060668945312 2 763.904402 1525.79425 NaN NaN NaN NaN NaN NaN NaN 105.84 1 106.44 105.94 106.94 0.59969 0 0 0 1.0079 1 48877 48877 1.1933 0.84271 1 + 12055 17721 7560 7582 14152 14152 0.05238639119670552 KCAAPSKEVV 10 Unmodified _KCAAPSKEVV_ 0 0 0 ENSG00000178726|ENST00000377103|THBD ENSG00000178726|ENST00000377103|THBD ENSG00000178726|ENST00000377103|THBD MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 344.53387451171875 3 344.523315 1030.54812 2.6412 0.00090994 -3.5163 -0.0012114 -0.87508 -0.00030149 344.85673983595655 12.793 0.26697 13.436 13.345 13.612 0.64272 12 7 3 0 0 0 0.11314 1 5787 5787 27.088 12.683 1 179520 12056 5178 7561 7583 14153 14153 0.03406383225569698 KCCCCGVC 8 Unmodified _KCCCCGVC_ 0 0 0 REV__ENSG00000172061|ENST00000347624|LRRC15 REV__ENSG00000172061|ENST00000347624|LRRC15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.7419128417969 2 409.62794 817.241328 NaN NaN NaN NaN NaN NaN NaN 9.2129 1 9.524 9.024 10.024 0.31115 0 0 0 0.99035 1 4132 4132 0 0 1 + 12057 13534 7562 7584 14154 14154 -0.17460327795708963 KCCVPVYCS 9 Unmodified _KCCVPVYCS_ 0 0 0 REV__ENSG00000241123|ENST00000400372|KRTAP10-5 REV__ENSG00000241123|ENST00000400372|KRTAP10-5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.4800109863281 3 334.479953 1000.41803 NaN NaN NaN NaN NaN NaN NaN 36.128 1 36.128 35.628 36.628 0 0 0 0 0.91014 1 16397 16397 1.0715 0 1 + 12058 14609 7563 7585 14155 14155 -0.08216252369425092 KCDVALHVKC 10 Unmodified _KCDVALHVKC_ 0 0 0 nc|ENSG00000225830|P0DP91|ERCC6 nc|ENSG00000225830|P0DP91|ERCC6 nc|ENSG00000225830|P0DP91|ERCC6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.286865234375 2 558.288637 1114.56272 NaN NaN NaN NaN NaN NaN NaN 61.759 1 62.012 61.512 62.512 0.25245 0 0 0 0.99877 1 28277 28277 2.7352 0.67545 1 12059 9836 7564 7586 14156 14156 0.010021321020758478 KCGIKTFLTKL 11 Unmodified _KCGIKTFLTKL_ 0 0 0 REV__ENST00000469033.1_1_4:40776294-40778281:+|nuORF REV__ENST00000469033.1_1_4:40776294-40778281:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 418.2564392089844 3 417.921298 1250.74206 2.6743 0.0011176 -1.5953 -0.00066672 1.0789 0.00045091 417.9204311403084 40.363 0.24206 41.164 41.083 41.325 0.80014 34 14 3 0 0 0 0.904 1 18286 18286 2.2527 0.51045 1 1763500 + 12060 13793 7565 7587 14157 14157 0.12672339661639853 KCGUGKMGSF 10 Unmodified _KCGUGKMGSF_ 0 0 0 REV__ENSG00000179918|ENST00000478753|SEPHS2 REV__ENSG00000179918|ENST00000478753|SEPHS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.1940307617188 2 533.191591 1064.36863 NaN NaN NaN NaN NaN NaN NaN 56.319 1 56.319 55.819 56.819 0 0 0 0 1.0001 1 25912 25912 0 0 0 + 12061 13812 7566 7588 14158 14158 -0.16098067888947298 KCHSLEDYRKH 11 Unmodified _KCHSLEDYRKH_ 0 0 0 ENSG00000187527|ENST00000342358|ATP13A5 ENSG00000187527|ENST00000342358|ATP13A5 ENSG00000187527|ENST00000342358|ATP13A5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 708.3489990234375 2 708.34606 1414.67757 3.7917 0.0026858 -0.1665 -0.00011794 3.6252 0.0025679 708.3463329804559 61.94 0.18848 62.193 62.132 62.32 0.25245 19 10 3 0 0 0 0.84422 1 28363 28363 4.897 0 1 641190 12062 5620 7567 7589 14159 14159 -0.013184671624458133 KCHSLEDYRKH 11 Unmodified _KCHSLEDYRKH_ 0 0 0 ENSG00000187527|ENST00000342358|ATP13A5 ENSG00000187527|ENST00000342358|ATP13A5 ENSG00000187527|ENST00000342358|ATP13A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 708.348876953125 2 708.34606 1414.67757 NaN NaN NaN NaN NaN NaN NaN 61.388 1 62.051 61.551 62.551 0.66261 0 0 0 1.0044 1 28112 28112 4.897 0.36815 1 12063 5620 7567 7589 14160 14160 -0.013184671624458133 KCIYFIVM 8 Unmodified _KCIYFIVM_ 0 0 0 nc|ENSG00000169432|Q15858-4|SCN9A;nc|ENSG00000169432|Q15858-3|SCN9A;nc|ENSG00000169432|Q15858-2|SCN9A;ENSG00000169432|ENST00000642356|SCN9A;SCN9A|p.M1532*|1|0.27|ENSG00000169432|chr2:166204135-166204135|T/-|frameshift_variant nc|ENSG00000169432|Q15858-4|SCN9A nc|ENSG00000169432|Q15858-4|SCN9A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.7705383300781 2 508.769017 1015.52348 NaN NaN NaN NaN NaN NaN NaN 20.012 1 20.671 20.171 21.171 0.6583 0 0 0 0.99035 1 9085 9085 0.79363 0.10326 1 12064 4691 7568 7590 14161 14161 0.016340318185143587 KCMNKCARL 9 Unmodified _KCMNKCARL_ 0 0 0 REV__ENST00000458373.6_2_6:25115324-25166552:-|nuORF REV__ENST00000458373.6_2_6:25115324-25166552:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.7714233398438 2 533.769557 1065.52456 3.5055 0.0018711 0.46174 0.00024646 3.9672 0.0021176 533.7695642875359 45.617 0.37484 46.268 46.061 46.435 0.65104 37 15 3 0 0 0 0.30982 1 20900 20900 11.64 11.64 1 985370 + 12065 15839 7569 7591 14162 14162 -0.0055807708424708835 KCMWPKRQ 8 Unmodified _KCMWPKRQ_ 0 0 0 REV__ENSG00000133111|ENST00000255476|RFXAP REV__ENSG00000133111|ENST00000255476|RFXAP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.52386474609375 3 359.521252 1075.54193 NaN NaN NaN NaN NaN NaN NaN 65.392 1 65.64 65.14 66.14 0.24803 0 0 0 0.99035 1 29958 29958 1.6526 0 1 + 12066 11923 7570 7592 14163 14163 0.007175865130875536 KCNGHASECMK 11 Unmodified _KCNGHASECMK_ 0 0 0 ENSG00000135862|ENST00000258341|LAMC1;LAMC1|p.C916Vfs*123|1|0.4|ENSG00000135862|chr1:183125494-183125494|C/-|frameshift_variant ENSG00000135862|ENST00000258341|LAMC1 ENSG00000135862|ENST00000258341|LAMC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.26190185546875 3 403.172071 1206.49438 NaN NaN NaN NaN NaN NaN NaN 66.238 1 66.486 65.986 66.986 0.24848 0 0 0 1.0073 1 30346 30346 0.40827 0 1 12067 2904 7571 7593 14164 14164 -0.1006048054009625 KCSHERSIHLF 11 Unmodified _KCSHERSIHLF_ 0 0 0 ENSG00000175445|ENST00000650287|LPL ENSG00000175445|ENST00000650287|LPL ENSG00000175445|ENST00000650287|LPL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.8754577636719 3 452.899556 1355.67684 NaN NaN NaN NaN NaN NaN NaN 75.581 1 75.838 75.338 76.338 0.25704 0 0 0 1.0071 1 34785 34785 0.50596 0 1 12068 5031 7572 7594 14165 14165 0.01322738188537187 KCVTYYYIH 9 Unmodified _KCVTYYYIH_ 0 0 0 ENST00000355377.6_1_16:19278394-19278601:+|nuORF ENST00000355377.6_1_16:19278394-19278601:+|nuORF ENST00000355377.6_1_16:19278394-19278601:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 595.2879028320312 2 595.289159 1188.56377 NaN NaN NaN NaN NaN NaN NaN 40.511 1 41.311 40.811 41.811 0.80014 0 0 0 0.90699 1 18349 18349 1.8442 0.19162 1 12069 7148 7573 7595 14166 14166 -0.02297330257374597 KCWKWFKHIIR 11 Unmodified _KCWKWFKHIIR_ 0 0 0 ENST00000409175.5_1_2:160599702-160602296:+|nuORF;ENST00000473749.1_1_2:160599711-160604424:+|nuORF ENST00000409175.5_1_2:160599702-160602296:+|nuORF ENST00000409175.5_1_2:160599702-160602296:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 772.9386596679688 2 772.937191 1543.85983 NaN NaN NaN NaN NaN NaN NaN 43.062 1 43.332 42.832 43.832 0.27021 0 0 0 1.008 1 19658 19658 0.30703 0 1 12070 7654 7574 7596 14167 14167 0.10965337040988743 KDAKKISKKR 10 Unmodified _KDAKKISKKR_ 0 0 0 ENSG00000178125|ENST00000685739|PPP1R42;nc|ENSG00000178125|Q7Z4L9|PPP1R42 ENSG00000178125|ENST00000685739|PPP1R42 ENSG00000178125|ENST00000685739|PPP1R42 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 601.3905029296875 2 601.390596 1200.76664 NaN NaN NaN NaN NaN NaN NaN 12.317 1 12.954 12.454 13.454 0.63746 0 0 0 0.9962 1 5496 5496 4.897 1.3005 1 12071 5151 7575 7597 14168 14168 0.17428735859402877 KDEAQNEGPA 10 Unmodified _KDEAQNEGPA_ 0 0 0 nc|ENSG00000158941|Q8N163-2|CCAR2;ENSG00000158941|ENST00000308511|CCAR2 nc|ENSG00000158941|Q8N163-2|CCAR2 nc|ENSG00000158941|Q8N163-2|CCAR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.566650390625 2 529.741085 1057.46762 NaN NaN NaN NaN NaN NaN NaN 20.3 1 20.953 20.453 21.453 0.65346 0 0 0 0.99812 1 9217 9217 3.2813 0 1 12072 4004 7576 7598 14169 14169 -0.05881806563752434 KDEEDPPL 8 Unmodified _KDEEDPPL_ 0 0 0 REV__ENST00000398637.9_1_12:46581311-46581524:-|nuORF REV__ENST00000398637.9_1_12:46581311-46581524:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 942.5556640625 1 942.441468 941.434192 3.6735 0.0034621 1.0957 0.0010327 4.7693 0.0044947 942.4414732477755 50.382 0.38762 50.643 50.464 50.852 0.26146 25 18 2 0 0 0 0.61796 2 22959 22948;22959 12.532 0.89125 1 746640 + 12073 16026 7577 7599 14170;14171 14171 -0.03886808335664682 KDEILKIMPV 10 Unmodified _KDEILKIMPV_ 0 0 0 ENST00000494359.1_1_11:17250107-17250695:+|nuORF ENST00000494359.1_1_11:17250107-17250695:+|nuORF ENST00000494359.1_1_11:17250107-17250695:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 593.6259155273438 2 593.349217 1184.68388 NaN NaN NaN NaN NaN NaN NaN 82.18 1 82.264 81.764 82.764 0.084106 0 0 0 0.99225 1 40538 40538 6.7232 0.99131 1 12074 8421 7578 7600 14172 14172 0.09892658016360656 KDELSEQDEMF 11 Unmodified _KDELSEQDEMF_ 0 0 0 ENSG00000134258|ENST00000369458|VTCN1 ENSG00000134258|ENST00000369458|VTCN1 ENSG00000134258|ENST00000369458|VTCN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.7493896484375 2 685.792657 1369.57076 NaN NaN NaN NaN NaN NaN NaN 96.509 1 97.111 96.611 97.611 0.6019 0 0 0 1.0044 1 44373 44373 4.897 1.3005 1 12075 2794 7579 7601 14173 14173 -0.09924106958146695 KDERKDKKEER 11 Unmodified _KDERKDKKEER_ 0 0 0 nc|ENSG00000060339|Q8IX12-2|CCAR1;ENSG00000060339|ENST00000265872|CCAR1 nc|ENSG00000060339|Q8IX12-2|CCAR1 nc|ENSG00000060339|Q8IX12-2|CCAR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 730.8925170898438 2 730.894429 1459.7743 NaN NaN NaN NaN NaN NaN NaN 81.236 1 81.405 80.905 81.905 0.16862 0 0 0 0.99571 1 39904 39904 7.1017 0.89594 1 12076 640 7580 7602 14174 14174 0.06280798598345427 KDFFVFRRWQL 11 Unmodified _KDFFVFRRWQL_ 0 0 0 REV__nc|ENSG00000160695|Q9H270|VPS11 REV__nc|ENSG00000160695|Q9H270|VPS11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 771.423095703125 2 771.422428 1540.8303 NaN NaN NaN NaN NaN NaN NaN 76.436 1 76.436 75.936 76.936 0 0 0 0 1.0041 1 37460 37460 5.2969 4.9463 1 + 12077 12887 7581 7603 14175 14175 0.0815209629652145 KDFKEFEDETY 11 Unmodified _KDFKEFEDETY_ 0 0 0 REV__ENST00000575153.5_1_17:5347527-5364435:-|nuORF REV__ENST00000575153.5_1_17:5347527-5364435:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 725.8234252929688 2 725.822272 1449.62999 NaN NaN NaN NaN NaN NaN NaN 79.582 1 79.902 79.402 80.402 0.31998 0 0 0 1.0059 1 38878 38878 2.9952 0 1 + 12078 10128 7582 7604 14176 14176 -0.07683887672260425 KDGKKRKRGRK 11 Unmodified _KDGKKRKRGRK_ 0 0 0 ENSG00000196890|ENST00000693095|H2BC26;ENST00000436555.1_1_1:228651947-228652295:-|nuORF ENSG00000196890|ENST00000693095|H2BC26 ENSG00000196890|ENST00000693095|H2BC26 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 678.9361572265625 2 678.936568 1355.85858 NaN NaN NaN NaN NaN NaN NaN 81.98 1 81.98 81.48 82.48 0 0 0 0 1.0073 1 40905 40905 2.9952 0 1 12079 5781 7583 7605 14177 14177 0.1948883899642624 KDGVYVLDL 9 Unmodified _KDGVYVLDL_ 0 0 0 nc|ENSG00000131473|P53396-2|ACLY;ENSG00000131473|ENST00000352035|ACLY nc|ENSG00000131473|P53396-2|ACLY nc|ENSG00000131473|P53396-2|ACLY MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 511.2355041503906 2 511.281857 1020.54916 2.7925 0.0014277 0.74244 0.0003796 3.5349 0.0018073 511.28199962668174 33.416 0.21869 34.204 34.054 34.273 0.78795 16 12 2 0 0 0 0.067591 1 15144 15144 19.257 0 1 261820 12080 2662 7584 7606 14178 14178 0.039709208661292905 KDGVYVLDL 9 Unmodified _KDGVYVLDL_ 0 0 0 nc|ENSG00000131473|P53396-2|ACLY;ENSG00000131473|ENST00000352035|ACLY nc|ENSG00000131473|P53396-2|ACLY nc|ENSG00000131473|P53396-2|ACLY MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 511.281857 1020.54916 3.22 0.0016463 -0.083438 -4.266E-05 3.1365 0.0016036 511.281730472805 33.699 0.27149 34.319 34.079 34.35 0.62031 0.057583 -0.00037691 NaN 13.906 15 9 2 NaN NaN NaN NaN 0 NaN NaN 0 324750 12081 2662 7584 7606 0.039709208661292905 KDGWSQYHF 9 Unmodified _KDGWSQYHF_ 0 0 0 CTNND2|p.T1088Rfs*15|1|0.2|ENSG00000169862|chr5:10988190-10988191|TG/-|frameshift_variant;nc|ENSG00000169862|Q9UQB3-2|CTNND2;ENSG00000169862|ENST00000304623|CTNND2 CTNND2|p.T1088Rfs*15|1|0.2|ENSG00000169862|chr5:10988190-10988191|TG/-|frameshift_variant CTNND2|p.T1088Rfs*15|1|0.2|ENSG00000169862|chr5:10988190-10988191|TG/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.7669677734375 2 584.26453 1166.51451 3.6299 0.0021208 1.9348 0.0011304 5.5647 0.0032512 584.2660275196945 64.191 0.21073 64.848 64.824 65.035 0.65672 29 19 2 0 0 0 0.092818 1 29477 29477 10.824 5.0921 1 3954400 12082 250 7585 7607 14179 14179 -0.06208902221965218 KDHLNKNEG 9 Unmodified _KDHLNKNEG_ 0 0 0 nc|ENSG00000168916|Q9ULD9-2|ZNF608;ENSG00000168916|ENST00000513986|ZNF608 nc|ENSG00000168916|Q9ULD9-2|ZNF608 nc|ENSG00000168916|Q9ULD9-2|ZNF608 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.7662963867188 2 527.767437 1053.52032 NaN NaN NaN NaN NaN NaN NaN 78.521 1 78.985 78.485 79.485 0.4642 0 0 0 0.72654 1 38183 38183 11.64 0 1 12083 4661 7586 7608 14180 14180 -0.004298037102898888 KDIDRRYLDYF 11 Unmodified _KDIDRRYLDYF_ 0 0 0 REV__ENST00000413962.5_1_2:135624962-135625016:-|nuORF REV__ENST00000413962.5_1_2:135624962-135625016:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 752.054931640625 2 752.383165 1502.75178 NaN NaN NaN NaN NaN NaN NaN 44.627 1 45.277 44.777 45.777 0.64998 0 0 0 1.0063 1 20455 20455 2.4985 1.0166 1 + 12084 16118 7587 7609 14181 14181 0.020511992007413937 KDIFDYIQWKY 11 Unmodified _KDIFDYIQWKY_ 0 0 0 ENSG00000070501|ENST00000265421|POLB ENSG00000070501|ENST00000265421|POLB ENSG00000070501|ENST00000265421|POLB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 759.8848876953125 2 759.88501 1517.75547 NaN NaN NaN NaN NaN NaN NaN 98.356 1 98.656 98.156 99.156 0.29987 0 0 0 1.0059 1 45292 45292 2.9952 0 1 12085 766 7588 7610 14182 14182 0.01729868974598503 KDIFKKAL 8 Unmodified _KDIFKKAL_ 0 0 0 REV__nc|ENSG00000106785|Q14142-2|TRIM14 REV__nc|ENSG00000106785|Q14142-2|TRIM14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 321.54022216796875 3 321.539294 961.596052 1.8744 0.00060268 0.33545 0.00010786 2.2098 0.00071054 321.53936021811575 13.435 0.20998 13.742 13.637 13.847 0.30727 30 14 3 0 0 0 0.69597 1 6097 6097 6.2058 0.9089 1 318870 + 12086 11097 7589 7611 14183 14183 0.11371825207925212 KDKEKNKEKKF 11 Unmodified _KDKEKNKEKKF_ 0 0 0 ENSG00000025293|ENST00000374012|PHF20 ENSG00000025293|ENST00000374012|PHF20 ENSG00000025293|ENST00000374012|PHF20 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 711.0433959960938 2 711.409183 1420.80381 NaN NaN NaN NaN NaN NaN NaN 82.06 1 82.06 81.56 82.56 0 0 0 0 1.0044 1 40966 40966 4.897 1.6157 1 12087 477 7590 7612 14184 14184 0.11024362614489291 KDKFRKKA 8 Unmodified _KDKFRKKA_ 0 0 0 REV__ENSG00000171368|ENST00000360578|TPPP REV__ENSG00000171368|ENST00000360578|TPPP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 341.2173767089844 3 340.881943 1019.624 2.618 0.00089242 -0.1526 -5.202E-05 2.4654 0.0008404 341.21643836671757 12.82 0.30392 13.463 13.244 13.548 0.64272 12 8 2 0 0 0 0.14349 1 5781 5781 0.35063 0.081612 1 246050 + 12088 13490 7591 7613 14185 14185 0.11497148188038864 KDKFRKKA 8 Unmodified _KDKFRKKA_ 0 0 0 REV__ENSG00000171368|ENST00000360578|TPPP REV__ENSG00000171368|ENST00000360578|TPPP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 340.881943 1019.624 2.0425 0.00069626 -0.45443 -0.00015491 1.5881 0.00054135 340.8817580689658 13.276 0.18489 13.519 13.388 13.573 0.24346 0.028034 -7.272E-05 NaN 0.35063 16 13 2 NaN NaN NaN NaN 0 NaN NaN 0 118770 + 12089 13490 7591 7613 0.11497148188038864 KDKKAVKVPK 10 Unmodified _KDKKAVKVPK_ 0 0 0 nc|ENSG00000058668|P23634-5|ATP2B4;nc|ENSG00000058668|P23634-4|ATP2B4;nc|ENSG00000058668|P23634-3|ATP2B4;nc|ENSG00000058668|P23634-2|ATP2B4;nc|ENSG00000058668|P23634-8|ATP2B4;nc|ENSG00000058668|P23634|ATP2B4;nc|ENSG00000058668|P23634-7|ATP2B4;ENSG00000058668|ENST00000357681|ATP2B4 nc|ENSG00000058668|P23634-5|ATP2B4 nc|ENSG00000058668|P23634-5|ATP2B4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.8756713867188 2 570.876791 1139.73903 NaN NaN NaN NaN NaN NaN NaN 96.292 1 96.368 95.868 96.868 0.076538 0 0 0 0.99812 1 51126 51126 3.2813 0.28607 1 12090 9550 7592 7614 14186 14186 0.17474832599168622 KDKKKAVAST 10 Unmodified _KDKKKAVAST_ 0 0 0 REV__ENSG00000110492|ENST00000395566|MDK REV__ENSG00000110492|ENST00000395566|MDK MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.96435546875 2 538.327131 1074.63971 2.5871 0.0013927 -0.60302 -0.00032462 1.9841 0.0010681 538.8277293518133 72.145 0.029816 72.849 72.83 72.86 0.70386 4 2 2 0 0 0 0.12676 1 34702 34702 8.7454 0 1 4080600 + 12091 11206 7593 7615 14187 14187 0.10537389914406958 KDKLRIKQRIS 11 Unmodified _KDKLRIKQRIS_ 0 0 0 REV__nc|ENSG00000135315|Q5TB80-2|CEP162 REV__nc|ENSG00000135315|Q5TB80-2|CEP162 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 692.9391479492188 2 692.940985 1383.86742 NaN NaN NaN NaN NaN NaN NaN 99.729 1 99.791 99.291 100.29 0.062241 0 0 0 1.0059 1 53973 53973 2.9952 0 1 + 12092 12007 7594 7616 14188 14188 0.19083767842244015 KDKSRGYAEEC 11 Unmodified _KDKSRGYAEEC_ 0 0 0 REV__nc|ENSG00000197444|Q9ULD0-3|OGDHL REV__nc|ENSG00000197444|Q9ULD0-3|OGDHL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 643.4790649414062 2 643.295701 1284.57685 NaN NaN NaN NaN NaN NaN NaN 81.545 1 81.629 81.129 82.129 0.084106 0 0 0 0.99571 1 40104 40104 7.1017 1.3699 1 + 12093 14278 7595 7617 14189 14189 -0.054055439359217416 KDLEKRKDPKP 11 Unmodified _KDLEKRKDPKP_ 0 0 0 ENST00000432943.6_1_8:121160081-121289735:+|nuORF;COL14A1|p.G1581Kfs*38|1|0.03|ENSG00000187955|chr8:120332690-120332691|-/AAAAC|frameshift_variant;nc|ENSG00000187955|Q05707-3|COL14A1;nc|ENSG00000187955|Q05707-2|COL14A1;ENSG00000187955|ENST00000297848|COL14A1 ENST00000432943.6_1_8:121160081-121289735:+|nuORF ENST00000432943.6_1_8:121160081-121289735:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.8984985351562 2 677.396076 1352.7776 4.387 0.0029717 -0.76167 -0.00051596 3.6253 0.0024558 677.3954164200313 93.571 1.2453 93.826 93.02 94.265 0.25497 130 64 3 0 0 0 0.89544 1 43049 43049 2.9952 0 1 1020800 12094 202 7596 7618 14190 14190 0.1153209344302013 KDLIRLRRTA 10 Unmodified _KDLIRLRRTA_ 0 0 0 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.5990295410156 3 414.598206 1240.77279 3.7876 0.0015703 -1.6335 -0.00067727 2.154 0.00089306 414.5975109513402 99.925 0.106 100.23 100.16 100.26 0.30835 7 4 2 0 0 0 0.94134 1 46205 46205 0.62683 0.21856 1 2661700 12095 1990 7597 7619 14191 14191 0.1620325409094221 KDLKDKRL 8 Unmodified _KDLKDKRL_ 0 0 0 USP24|p.Y2252Ifs*5|1|0.16|ENSG00000162402|chr1:55085953-55085953|A/-|frameshift_variant;ENSG00000162402|ENST00000294383|USP24 USP24|p.Y2252Ifs*5|1|0.16|ENSG00000162402|chr1:55085953-55085953|A/-|frameshift_variant USP24|p.Y2252Ifs*5|1|0.16|ENSG00000162402|chr1:55085953-55085953|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.5424499511719 3 339.213469 1014.61858 NaN NaN NaN NaN NaN NaN NaN 12.66 1 12.967 12.467 13.467 0.30727 0 0 0 0.9851 1 5712 5712 6.7232 0 1 12096 4134 7598 7620 14192 14192 0.11185424605560002 KDLLSRNWSDM 11 Unmodified _KDLLSRNWSDM_ 0 0 0 REV__nc|ENSG00000164100|O95803-2|NDST3 REV__nc|ENSG00000164100|O95803-2|NDST3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 682.8359375 2 682.834994 1363.65543 NaN NaN NaN NaN NaN NaN NaN 67.186 1 67.889 67.389 68.389 0.70218 0 0 0 1.0034 1 31897 31897 6.1918 1.2948 1 + 12097 13061 7599 7621 14193 14193 -0.011846916308741129 KDLPKHCLYTR 11 Unmodified _KDLPKHCLYTR_ 0 0 0 nc|ENSG00000172175|Q9UDY8-2|MALT1;ENSG00000172175|ENST00000649217|MALT1 nc|ENSG00000172175|Q9UDY8-2|MALT1 nc|ENSG00000172175|Q9UDY8-2|MALT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 687.3720092773438 2 687.371546 1372.72854 NaN NaN NaN NaN NaN NaN NaN 81 1 81.169 80.669 81.669 0.16862 0 0 0 1.0044 1 39755 39755 4.897 0.36815 1 12098 4860 7600 7622 14194 14194 0.05708481882402339 KDLQFLQS 8 Unmodified _KDLQFLQS_ 0 0 0 nc|ENSG00000023287|Q8TDY2-2|RB1CC1;ENSG00000023287|ENST00000025008|RB1CC1 nc|ENSG00000023287|Q8TDY2-2|RB1CC1 nc|ENSG00000023287|Q8TDY2-2|RB1CC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 326.84869384765625 3 326.846675 977.518196 NaN NaN NaN NaN NaN NaN NaN 12.421 1 13.064 12.564 13.564 0.64272 0 0 0 0.60351 1 5566 5566 20.415 5.4574 1 12099 469 7601 7623 14195 14195 0.028537675519032746 KDLRDEFLVKI 11 Unmodified _KDLRDEFLVKI_ 0 0 0 ENST00000418777.5_1_9:16418989-16435690:-|nuORF;BNC2|p.Q924Sfs*23|1|0.2|ENSG00000173068|chr9:16419519-16419519|G/-|frameshift_variant;ENSG00000173068|ENST00000380672|BNC2 ENST00000418777.5_1_9:16418989-16435690:-|nuORF ENST00000418777.5_1_9:16418989-16435690:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 687.9077758789062 2 688.400827 1374.7871 3.0025 0.0020669 0.34168 0.00023521 3.3442 0.0023021 688.9028958673233 80.68 0.038712 80.849 80.816 80.855 0.16862 4 2 2 0 0 0 0.13295 1 39545 39545 7.609 1.8771 1 1649900 12100 86 7602 7624 14196 14196 0.11469861728551223 KDLRERPLAAP 11 Unmodified _KDLRERPLAAP_ 0 0 0 REV__ENST00000543087.5_1_11:18512432-18536353:-|nuORF REV__ENST00000543087.5_1_11:18512432-18536353:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3718872070312 2 633.369861 1264.72517 4.0646 0.0025744 -0.70728 -0.00044797 3.3573 0.0021264 633.369310370016 89.385 1.5481 90.063 89.107 90.655 0.67818 130 71 3 0 0 0 0.91068 1 41105 41105 1.3295 0 1 1256400 + 12101 17230 7603 7625 14197 14197 0.10339555100085818 KDNEREHERER 11 Unmodified _KDNEREHERER_ 0 0 0 nc|ENSG00000198300|Q9GZU2-2|PEG3;nc|ENSG00000198300|Q9GZU2-4|PEG3;ENSG00000198300|ENST00000326441|PEG3 nc|ENSG00000198300|Q9GZU2-2|PEG3 nc|ENSG00000198300|Q9GZU2-2|PEG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.909912109375 3 499.909948 1496.70802 NaN NaN NaN NaN NaN NaN NaN 27.663 1 28.449 27.949 28.949 0.78627 0 0 0 1.0082 1 12443 12443 0 0 1 12102 5881 7604 7626 14198 14198 -0.020470172436944267 KDPQRDCQNY 10 Unmodified _KDPQRDCQNY_ 0 0 0 nc|ENSG00000185033|Q9NPR2-2|SEMA4B;ENSG00000185033|ENST00000411539|SEMA4B;SEMA4B|p.N175Mfs*161|1|0.16|ENSG00000185033|chr15:90221007-90221008|-/GGACGAGAAGGGGATGTCCA|frameshift_variant;ENST00000558848.1_1_15:90760965-90763201:+|nuORF nc|ENSG00000185033|Q9NPR2-2|SEMA4B nc|ENSG00000185033|Q9NPR2-2|SEMA4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.123291015625 2 633.780219 1265.54588 3.2224 0.0020423 -3.3142 -0.0021005 -0.091851 -5.8213E-05 634.280282238803 80.304 0.031898 80.304 80.29 80.322 0 5 3 2 0 0 0 0.85706 1 39836 39836 5.7319 0 1 9285000 12103 5480 7605 7627 14199 14199 -0.07626697250157122 KDPRKFARV 9 Unmodified _KDPRKFARV_ 0 0 0 ENSG00000197780|ENST00000338366|TAF13 ENSG00000197780|ENST00000338366|TAF13 ENSG00000197780|ENST00000338366|TAF13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.8378295898438 2 558.835457 1115.65636 NaN NaN NaN NaN NaN NaN NaN 81.943 1 82.027 81.527 82.527 0.084106 0 0 0 0.75166 1 40370 40370 10.824 0 1 12104 5842 7606 7628 14200 14200 0.10315935591029302 KDPSRRLPSLP 11 Unmodified _KDPSRRLPSLP_ 0 0 0 ENST00000478021.1_1_17:27071820-27071916:+|nuORF ENST00000478021.1_1_17:27071820-27071916:+|nuORF ENST00000478021.1_1_17:27071820-27071916:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3713989257812 2 633.369861 1264.72517 4.079 0.0025835 -0.99884 -0.00063264 3.0801 0.0019509 633.3691578354671 91.522 1.3285 92.184 91.419 92.747 0.66198 211 67 4 0 0 0 0.77056 1 41985 41985 8.1555 2.4237 1 5118200 12105 8248 7607 7629 14201 14201 0.10339555100085818 KDQETRYHQKY 11 Unmodified _KDQETRYHQKY_ 0 0 0 ENST00000451871.1_1_13:42499863-42500601:+|nuORF ENST00000451871.1_1_13:42499863-42500601:+|nuORF ENST00000451871.1_1_13:42499863-42500601:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 748.3011474609375 2 748.368047 1494.72154 NaN NaN NaN NaN NaN NaN NaN 99.572 1 99.634 99.134 100.13 0.062241 0 0 0 0.98464 1 53853 53853 8.1555 2.8586 1 12106 8022 7608 7630 14202 14202 -0.006031594644355209 KDQKKHRKKNS 11 Unmodified _KDQKKHRKKNS_ 0 0 0 ENSG00000165733|ENST00000374518|BMS1;BMS1|p.K484Ifs*79|1|0.03|ENSG00000165733|chr10:42796694-42796695|-/TT|frameshift_variant;BMS1|p.F897Lfs*30|1|0.22|ENSG00000165733|chr10:42820344-42820344|T/-|frameshift_variant ENSG00000165733|ENST00000374518|BMS1 ENSG00000165733|ENST00000374518|BMS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 699.30517578125 2 698.910216 1395.80588 NaN NaN NaN NaN NaN NaN NaN 12.333 1 12.64 12.14 13.14 0.30727 0 0 0 0.99571 1 5540 5540 7.1017 2.2047 1 12107 4421 7609 7631 14203 14203 0.12380836142983753 KDQLIKRVEH 10 Unmodified _KDQLIKRVEH_ 0 0 0 ENSG00000122970|ENST00000242591|IFT81;nc|ENSG00000122970|Q8WYA0-3|IFT81 ENSG00000122970|ENST00000242591|IFT81 ENSG00000122970|ENST00000242591|IFT81 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3717041015625 2 633.369861 1264.72517 4.0832 0.0025862 -1.0921 -0.00069171 2.9911 0.0018945 633.3691838395806 92.5 1.1702 93.147 92.609 93.779 0.64714 142 59 3 0 0 0 0.9146 1 42540 42540 2.9952 0 1 1329200 12108 2289 7610 7632 14204 14204 0.1033955510006308 KDQWRHWRKRI 11 Unmodified _KDQWRHWRKRI_ 0 0 0 REV__nc|ENSG00000263715|P34998-3|CRHR1 REV__nc|ENSG00000263715|P34998-3|CRHR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 804.9552612304688 2 804.95275 1607.89095 NaN NaN NaN NaN NaN NaN NaN 99.615 1 99.677 99.177 100.18 0.062241 0 0 0 1.008 1 53886 53886 0.35063 0.35063 1 + 12109 11529 7611 7633 14205 14205 0.11131626399401284 KDRALGRSSHR 11 Unmodified _KDRALGRSSHR_ 0 0 0 ENSG00000162771|ENST00000294829|GARIN4 ENSG00000162771|ENST00000294829|GARIN4 ENSG00000162771|ENST00000294829|GARIN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.8571166992188 2 641.857983 1281.70141 NaN NaN NaN NaN NaN NaN NaN 33.606 1 34.226 33.726 34.726 0.62031 0 0 0 1.0052 1 15399 15399 3.8763 0.88109 1 12110 4166 7612 7634 14206 14206 0.071831343862641 KDRKLYKFL 9 Unmodified _KDRKLYKFL_ 0 0 0 nc|ENSG00000176095|Q92551-2|IP6K1;ENSG00000176095|ENST00000321599|IP6K1 nc|ENSG00000176095|Q92551-2|IP6K1 nc|ENSG00000176095|Q92551-2|IP6K1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.25 3 404.248403 1209.72338 2.4016 0.00097084 0.93317 0.00037723 3.3348 0.0013481 404.24869936792953 57.104 0.44711 57.882 57.656 58.103 0.77786 121 45 3 0 0 0 0.78763 1 26148 26148 7.609 7.609 1 7043900 12111 5064 7613 7635 14207 14207 0.12690546082126275 KDRKLYKFL 9 Unmodified _KDRKLYKFL_ 0 0 0 nc|ENSG00000176095|Q92551-2|IP6K1;ENSG00000176095|ENST00000321599|IP6K1 nc|ENSG00000176095|Q92551-2|IP6K1 nc|ENSG00000176095|Q92551-2|IP6K1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 404.248403 1209.72338 2.687 0.0010862 1.0851 0.00043864 3.7721 0.0015249 404.2487259808951 57.901 0.62997 57.901 57.599 58.228 0 0.0099007 6.3103E-05 NaN 7.609 199 61 4 NaN NaN NaN NaN 0 NaN NaN 0 8850300 12112 5064 7613 7635 0.12690546082126275 KDRQWKRWQE 10 Unmodified _KDRQWKRWQE_ 0 0 0 REV__PCNT|p.S3190Lfs*20|1|0.06|ENSG00000160299|chr21:46441029-46441030|-/TAACA|frameshift_variant REV__PCNT|p.S3190Lfs*20|1|0.06|ENSG00000160299|chr21:46441029-46441030|-/TAACA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 730.474365234375 2 730.381291 1458.74803 NaN NaN NaN NaN NaN NaN NaN 82.775 1 82.82 82.32 83.32 0.045006 0 0 0 0.99774 1 40926 40926 3.5965 0.60125 1 + 12113 12873 7614 7636 14208 14208 0.03700574217555186 KDRSELYPM 9 Unmodified _KDRSELYPM_ 0 0 0 REV__ENST00000496337.1_1_7:141870985-141908039:+|nuORF REV__ENST00000496337.1_1_7:141870985-141908039:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.7865600585938 2 569.781699 1137.54884 3.5158 0.0020033 0.11915 6.7891E-05 3.635 0.0020711 569.782463866062 45.829 0.87866 46.655 46.256 47.135 0.82621 60 28 3 0 0 0 0.16976 2 20804 20750;20804 25.399 1.3787 1 4824200 + 12114 14682 7615 7637 14209;14210 14210 -0.014428221253638185 KDRYFWRRSHW 11 Unmodified _KDRYFWRRSHW_ 0 0 0 ENSG00000166670|ENST00000279441|MMP10 ENSG00000166670|ENST00000279441|MMP10 ENSG00000166670|ENST00000279441|MMP10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 818.9141235351562 2 818.915833 1635.81711 NaN NaN NaN NaN NaN NaN NaN 63.121 1 63.121 62.621 63.621 0 0 0 0 1.008 1 29655 29655 0.35063 0.35063 1 12115 4497 7616 7638 14211 14211 0.02463658237115851 KDVLLRNQ 8 Unmodified _KDVLLRNQ_ 0 0 0 ENST00000542747.5_1_6:149997344-150023094:-|nuORF;ENST00000441107.5_1_6:149982867-150018260:-|nuORF;ENSG00000131023|ENST00000543571|LATS1 ENST00000542747.5_1_6:149997344-150023094:-|nuORF ENST00000542747.5_1_6:149997344-150023094:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 985.3871459960938 1 985.578905 984.571629 3.1979 0.0031518 4.4901 0.0044253 7.688 0.0075771 985.5868754180069 99.89 0.05378 99.89 99.856 99.91 0 6 4 2 0 0 0 0.14021 1 55015 55015 7.9102 0 1 11678000 12116 2636 7617 7639 14212 14212 0.07872565054424285 KDVNVFDPDRF 11 Unmodified _KDVNVFDPDRF_ 0 0 0 nc|ENSG00000003137|Q9NR63-2|CYP26B1;nc|ENSG00000003137|Q9NR63-3|CYP26B1;ENSG00000003137|ENST00000001146|CYP26B1 nc|ENSG00000003137|Q9NR63-2|CYP26B1 nc|ENSG00000003137|Q9NR63-2|CYP26B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 676.337890625 2 676.335684 1350.65681 3.9878 0.0026971 -0.10314 -6.9754E-05 3.8847 0.0026274 676.3355678479472 55.837 0.28938 56.505 56.368 56.657 0.66798 26 10 3 0 0 0 0.23099 1 25542 25542 27.223 9.0769 1 1245300 12117 306 7618 7640 14213 14213 -0.004487342704578623 KDVYIFLLYIK 11 Unmodified _KDVYIFLLYIK_ 0 0 0 ENST00000448507.5_1_4:7033984-7034191:+|nuORF ENST00000448507.5_1_4:7033984-7034191:+|nuORF ENST00000448507.5_1_4:7033984-7034191:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 707.9234008789062 2 707.920864 1413.82717 4.5077 0.0031911 0.85882 0.00060798 5.3666 0.0037991 707.9211412970639 95.097 0.68578 95.365 94.922 95.608 0.2675 60 41 3 0 0 0 0.91378 1 43688 43688 0.35063 0 1 712340 12118 7996 7619 7641 14214 14214 0.13681408399133943 KDWRRLARQ 9 Unmodified _KDWRRLARQ_ 0 0 0 ENSG00000168040|ENST00000301838|FADD ENSG00000168040|ENST00000301838|FADD ENSG00000168040|ENST00000301838|FADD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 614.8562622070312 2 614.854712 1227.69487 NaN NaN NaN NaN NaN NaN NaN 9.8623 1 10.158 9.6578 10.658 0.2956 0 0 0 0.91238 1 4380 4380 0.52476 0.066424 1 12119 4599 7620 7642 14215 14215 0.09013241225557067 KEAKKDDFMC 10 Unmodified _KEAKKDDFMC_ 0 0 0 nc|ENSG00000102935|Q2M1K9-2|ZNF423;nc|ENSG00000102935|Q2M1K9|ZNF423;ENSG00000102935|ENST00000563137|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.77630615234375 3 405.522986 1213.54713 NaN NaN NaN NaN NaN NaN NaN 39.898 1 40.698 40.198 41.198 0.80014 0 0 0 1.0013 1 18063 18063 0.62683 0.35781 1 12120 1363 7621 7643 14216 14216 -0.05110199205614663 KEAKKDDFMC 10 Unmodified _KEAKKDDFMC_ 0 0 0 nc|ENSG00000102935|Q2M1K9-2|ZNF423;nc|ENSG00000102935|Q2M1K9|ZNF423;ENSG00000102935|ENST00000563137|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.5260009765625 3 405.522986 1213.54713 NaN NaN NaN NaN NaN NaN NaN 34.891 1 35.146 34.646 35.646 0.25524 0 0 0 1.0013 1 15896 15896 0.62683 0.35781 1 12121 1363 7621 7643 14217 14217 -0.05110199205614663 KEAKKDDFMC 10 Unmodified _KEAKKDDFMC_ 0 0 0 nc|ENSG00000102935|Q2M1K9-2|ZNF423;nc|ENSG00000102935|Q2M1K9|ZNF423;ENSG00000102935|ENST00000563137|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.5260925292969 3 405.522986 1213.54713 NaN NaN NaN NaN NaN NaN NaN 43.612 1 43.881 43.381 44.381 0.2694 0 0 0 1.0013 1 19920 19920 0.62683 0.17231 1 12122 1363 7621 7643 14218 14218 -0.05110199205614663 KEAKKDDFMC 10 Unmodified _KEAKKDDFMC_ 0 0 0 nc|ENSG00000102935|Q2M1K9-2|ZNF423;nc|ENSG00000102935|Q2M1K9|ZNF423;ENSG00000102935|ENST00000563137|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 nc|ENSG00000102935|Q2M1K9-2|ZNF423 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.525390625 3 405.522986 1213.54713 NaN NaN NaN NaN NaN NaN NaN 38.731 1 39.369 38.869 39.869 0.63778 0 0 0 1.0013 1 17709 17709 0.62683 0.17231 1 12123 1363 7621 7643 14219 14219 -0.05110199205614663 KEDCEYCWII 10 Unmodified _KEDCEYCWII_ 0 0 0 REV__ENST00000369232.2_1_6:99949817-99958096:-|nuORF REV__ENST00000369232.2_1_6:99949817-99958096:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 651.1529541015625 2 651.280674 1300.5468 NaN NaN NaN NaN NaN NaN NaN 18.383 1 18.383 17.883 18.883 0 0 0 0 1.0015 1 8167 8167 0.45834 0 1 + 12124 11618 7622 7644 14220 14220 -0.09145618925481358 KEDEEEQQQQE 11 Unmodified _KEDEEEQQQQE_ 0 0 0 REV__ENSG00000154479|ENST00000447353|CFAP210 REV__ENSG00000154479|ENST00000447353|CFAP210 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 709.9784545898438 2 710.29715 1418.57975 NaN NaN NaN NaN NaN NaN NaN 13.697 1 13.697 13.197 14.197 0 0 0 0 0.94958 1 6007 6007 11.495 2.7493 1 + 12125 12708 7623 7645 14221 14221 -0.11280042068074181 KEDERRQREME 11 Unmodified _KEDERRQREME_ 0 0 0 REV__nc|ENSG00000162614|Q0ZGT2-4|NEXN REV__nc|ENSG00000162614|Q0ZGT2-4|NEXN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.1457214355469 3 502.575689 1504.70524 NaN NaN NaN NaN NaN NaN NaN 75.607 1 75.607 75.107 76.107 0 0 0 0 1.008 1 37049 37049 0.094841 0 1 + 12126 12947 7624 7646 14222 14222 -0.02692608692882459 KEDILIGHFI 10 Unmodified _KEDILIGHFI_ 0 0 0 REV__nc|ENSG00000163785|P34925-2|RYK REV__nc|ENSG00000163785|P34925-2|RYK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.5625 3 395.560646 1183.66011 3.0388 0.001202 0.68052 0.00026919 3.7193 0.0014712 395.5609424155056 65.156 0.44003 65.404 65.148 65.588 0.24803 39 21 2 0 0 0 0.88655 1 29833 29833 2.086 0 1 917190 + 12127 13026 7625 7647 14223 14223 0.0756256057425162 KEDKEQRK 8 Unmodified _KEDKEQRK_ 0 0 0 ENST00000539174.2_1_14:37737866-37745548:+|nuORF;nc|ENSG00000151338|Q8TD10-3|MIPOL1;ENST00000554930.5_1_14:37667225-37854725:+|nuORF;ENSG00000151338|ENST00000684589|MIPOL1 ENST00000539174.2_1_14:37737866-37745548:+|nuORF ENST00000539174.2_1_14:37737866-37745548:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.7900390625 2 530.790912 1059.56727 NaN NaN NaN NaN NaN NaN NaN 80.286 1 80.606 80.106 81.106 0.31998 0 0 0 0.9101 1 39307 39307 11.64 2.2929 1 12128 3701 7626 7648 14224 14224 0.03987055840843823 KEDLDQVQKV 10 Unmodified _KEDLDQVQKV_ 0 0 0 nc|ENSG00000216937|Q96M83-4|CCDC7;nc|ENSG00000216937|Q96M83-3|CCDC7;nc|ENSG00000216937|Q96M83-5|CCDC7;CCDC7|p.R194Ifs*11|1|0.11|ENSG00000216937|chr10:32726823-32726824|-/TCTCTATATTT|frameshift_variant;ENSG00000216937|ENST00000639629|CCDC7 nc|ENSG00000216937|Q96M83-4|CCDC7 nc|ENSG00000216937|Q96M83-4|CCDC7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 601.32275390625 2 601.324785 1200.63502 NaN NaN NaN NaN NaN NaN NaN 30.032 1 30.032 29.532 30.532 0 0 0 0 0.99572 1 13564 13564 5.2969 0.96765 1 12129 106 7627 7649 14225 14225 0.04272460980973847 KEEEEEEAL 9 Unmodified _KEEEEEEAL_ 0 0 0 REV__ENSG00000163961|ENST00000318037|RNF168 REV__ENSG00000163961|ENST00000318037|RNF168 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.8299560546875 2 553.248408 1104.48226 3.3909 0.001876 0.14809 8.1931E-05 3.539 0.001958 553.751308965488 33.321 0.18723 33.941 33.783 33.97 0.62032 14 9 2 0 0 0 0.11256 1 15260 15260 2.3027 0 1 105930 + 12130 13049 7628 7650 14226 14226 -0.06579779206276726 KEEEQKWKWWE 11 Unmodified _KEEEQKWKWWE_ 0 0 0 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 803.3893432617188 2 803.388448 1604.76234 NaN NaN NaN NaN NaN NaN NaN 59.944 1 60.693 60.193 61.193 0.74927 0 0 0 1.008 1 27554 27554 0.30703 0.03801 1 12131 5957 7629 7651 14227 14227 -0.015848181448291143 KEEEQKWKWWE 11 Unmodified _KEEEQKWKWWE_ 0 0 0 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 803.3897094726562 2 803.388448 1604.76234 NaN NaN NaN NaN NaN NaN NaN 83.826 1 83.854 83.354 84.354 0.028603 0 0 0 1.008 1 41686 41686 0.35063 0 1 12132 5957 7629 7651 14228 14228 -0.015848181448291143 KEEEQKWKWWE 11 Unmodified _KEEEQKWKWWE_ 0 0 0 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 803.390380859375 2 803.388448 1604.76234 NaN NaN NaN NaN NaN NaN NaN 84.764 1 84.793 84.293 85.293 0.028603 0 0 0 1.008 1 42357 42357 0.35063 0 1 12133 5957 7629 7651 14229 14229 -0.015848181448291143 KEEHIIALHLF 11 Unmodified _KEEHIIALHLF_ 0 0 0 REV__ENST00000555629.1_1_14:35872865-35873850:-|nuORF REV__ENST00000555629.1_1_14:35872865-35873850:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 675.4968872070312 2 675.382437 1348.75032 NaN NaN NaN NaN NaN NaN NaN 58.61 1 59.369 58.869 59.869 0.75894 0 0 0 0.98464 1 26889 26889 8.1555 2.8586 1 + 12134 10855 7630 7652 14230 14230 0.0898960990264186 KEELAKTEAK 10 Unmodified _KEELAKTEAK_ 0 0 0 MYH4|p.L902Sfs*12|1|0.08|ENSG00000264424|chr17:10453874-10453875|-/AA|frameshift_variant;MYH4|p.N981Tfs*16|1|0.22|ENSG00000264424|chr17:10453321-10453321|T/-|frameshift_variant;ENSG00000264424|ENST00000255381|MYH4;ENSG00000109061|ENST00000226207|MYH1 MYH4|p.L902Sfs*12|1|0.08|ENSG00000264424|chr17:10453874-10453875|-/AA|frameshift_variant MYH4|p.L902Sfs*12|1|0.08|ENSG00000264424|chr17:10453874-10453875|-/AA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.904541015625 2 573.821878 1145.6292 NaN NaN NaN NaN NaN NaN NaN 94.282 1 94.368 93.868 94.868 0.086212 0 0 0 0.98317 1 49559 49559 8.1555 0 1 12135 1664 7631 7653 14231 14231 0.06221362469318592 KEERQRLKKKK 11 Unmodified _KEERQRLKKKK_ 0 0 0 REV__ENST00000538078.1_1_12:7592002-7592584:-|nuORF REV__ENST00000538078.1_1_12:7592002-7592584:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 735.8557739257812 2 735.964991 1469.91543 NaN NaN NaN NaN NaN NaN NaN 98.038 1 98.637 98.137 99.137 0.59885 0 0 0 1.0072 1 45129 45129 1.3295 0.92882 1 + 12136 14196 7632 7654 14232 14232 0.19926841762276126 KEETKIIV 8 Unmodified _KEETKIIV_ 0 0 0 nc|ENSG00000156920|Q8IZF6-2|ADGRG4;nc|ENSG00000156920|Q8IZF6-3|ADGRG4;ENSG00000156920|ENST00000394143|ADGRG4 nc|ENSG00000156920|Q8IZF6-2|ADGRG4 nc|ENSG00000156920|Q8IZF6-2|ADGRG4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 320.5312194824219 3 320.530576 958.569897 2.0665 0.00066237 -0.48892 -0.00015671 1.5776 0.00050566 320.5304314165666 14.073 0.054281 14.38 14.357 14.411 0.3069 9 5 2 0 0 0 0.11952 1 6364 6364 51.63 11.68 1 5563900 12137 3930 7633 7655 14233 14233 0.0889551124580521 KEETKIIV 8 Unmodified _KEETKIIV_ 0 0 0 nc|ENSG00000156920|Q8IZF6-2|ADGRG4;nc|ENSG00000156920|Q8IZF6-3|ADGRG4;ENSG00000156920|ENST00000394143|ADGRG4 nc|ENSG00000156920|Q8IZF6-2|ADGRG4 nc|ENSG00000156920|Q8IZF6-2|ADGRG4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 320.53131103515625 3 320.530576 958.569897 2.2582 0.00072383 0.48759 0.00015629 2.7458 0.00088012 320.5306865170514 13.595 0.27549 14.243 14.085 14.361 0.6482 54 18 4 0 0 0 0.19267 1 6123 6123 43.772 10.987 1 1036400 12138 3930 7633 7655 14234 14234 0.0889551124580521 KEETKIIV 8 Unmodified _KEETKIIV_ 0 0 0 nc|ENSG00000156920|Q8IZF6-2|ADGRG4;nc|ENSG00000156920|Q8IZF6-3|ADGRG4;ENSG00000156920|ENST00000394143|ADGRG4 nc|ENSG00000156920|Q8IZF6-2|ADGRG4 nc|ENSG00000156920|Q8IZF6-2|ADGRG4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 320.530576 958.569897 2.1227 0.0006804 0.59203 0.00018976 2.7147 0.00087016 320.53068613666443 14.425 0.21156 14.425 14.314 14.525 0 0.087217 0.00059364 NaN 51.63 24 13 3 NaN NaN NaN NaN 0 NaN NaN 0 499140 12139 3930 7633 7655 0.0889551124580521 KEETKIIV 8 Unmodified _KEETKIIV_ 0 0 0 nc|ENSG00000156920|Q8IZF6-2|ADGRG4;nc|ENSG00000156920|Q8IZF6-3|ADGRG4;ENSG00000156920|ENST00000394143|ADGRG4 nc|ENSG00000156920|Q8IZF6-2|ADGRG4 nc|ENSG00000156920|Q8IZF6-2|ADGRG4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 320.530576 958.569897 2.2169 0.00071058 -0.73296 -0.00023494 1.4839 0.00047565 320.5303343896037 14.076 0.18079 14.303 14.221 14.402 0.22622 -0.034906 -0.00068046 NaN 51.63 27 16 3 NaN NaN NaN NaN 0 NaN NaN 0 367760 12140 3930 7633 7655 0.0889551124580521 KEETNGRKKH 10 Unmodified _KEETNGRKKH_ 0 0 0 REV__ENST00000581862.5_1_18:70829151-70867947:-|nuORF REV__ENST00000581862.5_1_18:70829151-70867947:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.836669921875 2 613.833643 1225.65273 NaN NaN NaN NaN NaN NaN NaN 80.235 1 80.235 79.735 80.735 0 0 0 0 0.93252 1 39782 39782 16.149 1.3108 1 + 12141 17513 7634 7656 14235 14235 0.048932210265320464 KEEYWRRREEE 11 Unmodified _KEEYWRRREEE_ 0 0 0 ENSG00000056097|ENST00000265069|ZFR ENSG00000056097|ENST00000265069|ZFR ENSG00000056097|ENST00000265069|ZFR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 805.3926391601562 2 805.38951 1608.76447 NaN NaN NaN NaN NaN NaN NaN 84.892 1 84.892 84.392 85.392 0 0 0 0 1.008 1 43090 43090 0.35063 0.35063 1 12142 620 7635 7657 14236 14236 -0.01556389407005554 KEEYWRRREEE 11 Unmodified _KEEYWRRREEE_ 0 0 0 ENSG00000056097|ENST00000265069|ZFR ENSG00000056097|ENST00000265069|ZFR ENSG00000056097|ENST00000265069|ZFR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 805.392578125 2 805.38951 1608.76447 NaN NaN NaN NaN NaN NaN NaN 86.184 1 86.214 85.714 86.714 0.030289 0 0 0 1.008 1 43294 43294 0.35063 0.043601 1 12143 620 7635 7657 14237 14237 -0.01556389407005554 KEFHYNRYLTR 11 Unmodified _KEFHYNRYLTR_ 0 0 0 ENST00000567101.2_1_17:46685206-46710927:-|nuORF;ENSG00000260027|ENST00000239165|HOXB7;ENSG00000108511|ENST00000225648|HOXB6;ENSG00000182742|ENST00000332503|HOXB4;ENSG00000198353|ENST00000430889|HOXC4 ENST00000567101.2_1_17:46685206-46710927:-|nuORF ENST00000567101.2_1_17:46685206-46710927:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 509.3851013183594 3 509.600275 1525.779 NaN NaN NaN NaN NaN NaN NaN 65.927 1 66.636 66.136 67.136 0.70891 0 0 0 1.0073 1 31218 31218 0.40827 0.31342 1 12144 1635 7636 7658 14238 14238 0.03713727531771838 KEFRIRRGMWR 11 Unmodified _KEFRIRRGMWR_ 0 0 0 nc|ENSG00000159398|Q6NT32-4|CES5A nc|ENSG00000159398|Q6NT32-4|CES5A nc|ENSG00000159398|Q6NT32-4|CES5A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 767.9290771484375 2 767.930429 1533.8463 NaN NaN NaN NaN NaN NaN NaN 96.655 1 96.933 96.433 97.433 0.27778 0 0 0 1.008 1 44407 44407 0.35063 0.043601 1 12145 9708 7637 7659 14239 14239 0.1007347926172315 KEHRNKRKIRW 11 Unmodified _KEHRNKRKIRW_ 0 0 0 REV__ENST00000389467.3_16:18871006-18872062:-|nuORF REV__ENST00000389467.3_16:18871006-18872062:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.160400390625 3 517.642809 1549.9066 NaN NaN NaN NaN NaN NaN NaN 68.13 1 68.13 67.63 68.63 0 0 0 0 1.008 1 32769 32769 0.094841 0.094841 1 + 12146 15912 7638 7660 14240 14240 0.15363912916495792 KEHVTLTRELK 11 Unmodified _KEHVTLTRELK_ 0 0 0 REV__nc|ENSG00000122692|Q2TAY7-2|SMU1 REV__nc|ENSG00000122692|Q2TAY7-2|SMU1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 677.3963012695312 2 677.396076 1352.7776 4.1544 0.0028142 -0.95641 -0.00064787 3.198 0.0021663 677.395353917968 94.916 1.4515 95.533 94.852 96.304 0.61736 201 78 3 0 0 0 0.904 1 43625 43625 4.897 1.3005 1 4206500 + 12147 11590 7639 7661 14241 14241 0.1153209344302013 KEIAAKHRKTT 11 Unmodified _KEIAAKHRKTT_ 0 0 0 AKR1B15|p.K270R|1|0.27|ENSG00000227471|chr7:134576414-134576414|A/G|missense_variant AKR1B15|p.K270R|1|0.27|ENSG00000227471|chr7:134576414-134576414|A/G|missense_variant AKR1B15|p.K270R|1|0.27|ENSG00000227471|chr7:134576414-134576414|A/G|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 642.3861694335938 2 641.883136 1281.75172 4.1861 0.002687 -0.84066 -0.00053961 3.3454 0.0021474 641.8825580300877 90.473 0.65552 90.724 90.531 91.186 0.25137 56 34 2 0 0 0 0.91184 1 41612 41612 0.96228 0.50394 1 467100 12148 23 7640 7662 14242 14242 0.12211243991396259 KEIAAKHRKTT 11 Unmodified _KEIAAKHRKTT_ 0 0 0 AKR1B15|p.K270R|1|0.27|ENSG00000227471|chr7:134576414-134576414|A/G|missense_variant AKR1B15|p.K270R|1|0.27|ENSG00000227471|chr7:134576414-134576414|A/G|missense_variant AKR1B15|p.K270R|1|0.27|ENSG00000227471|chr7:134576414-134576414|A/G|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.8847045898438 2 641.883136 1281.75172 4.1059 0.0026355 -0.88349 -0.0005671 3.2224 0.0020684 641.882377128056 91.512 1.3294 92.174 91.368 92.698 0.66198 195 68 4 0 0 0 0.89844 1 42172 42172 2.4985 1.0166 1 4087000 12149 23 7640 7662 14243 14243 0.12211243991396259 KEIAAKHRKTT 11 Unmodified _KEIAAKHRKTT_ 0 0 0 AKR1B15|p.K270R|1|0.27|ENSG00000227471|chr7:134576414-134576414|A/G|missense_variant AKR1B15|p.K270R|1|0.27|ENSG00000227471|chr7:134576414-134576414|A/G|missense_variant AKR1B15|p.K270R|1|0.27|ENSG00000227471|chr7:134576414-134576414|A/G|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.8833618164062 2 641.883136 1281.75172 4.1103 0.0026383 -0.89893 -0.00057701 3.2114 0.0020613 641.8823640476354 92.382 1.1525 93.029 92.627 93.779 0.64714 85 58 2 0 0 0 0.89844 2 42512 42512;42709 2.4985 1.0166 1 936840 12150 23 7640 7662 14244;14245 14244 0.12211243991396259 KEIEKEWLKVL 11 Unmodified _KEIEKEWLKVL_ 0 0 0 nc|ENSG00000135205|Q8IYE0-2|CCDC146;ENSG00000135205|ENST00000285871|CCDC146 nc|ENSG00000135205|Q8IYE0-2|CCDC146 nc|ENSG00000135205|Q8IYE0-2|CCDC146 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 707.9231567382812 2 707.918852 1413.82315 NaN NaN NaN NaN NaN NaN NaN 96.51 1 96.787 96.287 97.287 0.27778 0 0 0 1.0075 1 44341 44341 0.96228 0.61164 1 12151 2853 7641 7663 14246 14246 0.13279318905415494 KEIFERRR 8 Unmodified _KEIFERRR_ 0 0 0 nc|ENSG00000001626|P13569-3|CFTR nc|ENSG00000001626|P13569-3|CFTR nc|ENSG00000001626|P13569-3|CFTR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.3323364257812 2 567.330539 1132.64652 3.738 0.0021207 -0.80606 -0.0004573 2.9319 0.0016634 567.329888988863 85.423 1.7358 86.089 85.344 87.08 0.66566 236 91 4 0 0 0 0.74709 1 39249 39249 2.0598 0.21551 1 3198100 12152 9531 7642 7664 14247 14247 0.08550747585650242 KEIIKKLLI 9 Unmodified _KEIIKKLLI_ 0 0 0 REV__ENST00000478361.6_1_10:94234505-94239065:-|nuORF REV__ENST00000478361.6_1_10:94234505-94239065:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.3882446289062 2 549.38646 1096.75837 NaN NaN NaN NaN NaN NaN NaN 90.324 1 90.399 89.899 90.899 0.075279 0 0 0 0.91206 1 46517 46517 0.6015 0 1 + 12153 11519 7643 7665 14248 14248 0.213857888900975 KEILPNLKCIK 11 Unmodified _KEILPNLKCIK_ 0 0 0 nc|ENSG00000139734|Q9NSV4-2|DIAPH3;nc|ENSG00000139734|Q9NSV4-1|DIAPH3;nc|ENSG00000139734|Q9NSV4-7|DIAPH3;nc|ENSG00000139734|Q9NSV4-6|DIAPH3;nc|ENSG00000139734|Q9NSV4-5|DIAPH3;nc|ENSG00000139734|Q9NSV4-4|DIAPH3;ENSG00000139734|ENST00000400324|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 649.901611328125 2 649.896866 1297.77918 4.144 0.0026932 1.9749 0.0012835 6.1189 0.0039767 650.3995086276308 98.422 0.14295 99.021 98.944 99.087 0.59885 18 11 2 0 0 0 0.89844 1 45376 45376 2.4985 0 1 2350900 12154 3164 7644 7666 14249 14249 0.1422001120740788 KEILRRQIRLL 11 Unmodified _KEILRRQIRLL_ 0 0 0 ENSG00000014164|ENST00000262577|ZC3H3 ENSG00000014164|ENST00000262577|ZC3H3 ENSG00000014164|ENST00000262577|ZC3H3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 719.47314453125 2 719.472452 1436.93035 NaN NaN NaN NaN NaN NaN NaN 65.632 1 66.341 65.841 66.841 0.70891 0 0 0 1.0073 1 31056 31056 1.1933 0.88631 1 12155 434 7645 7667 14250 14250 0.2293633363030949 KEIPPNFLLFN 11 Unmodified _KEIPPNFLLFN_ 0 0 0 nc|ENSG00000170085|Q8NDZ2-2|SIMC1 nc|ENSG00000170085|Q8NDZ2-2|SIMC1 nc|ENSG00000170085|Q8NDZ2-2|SIMC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 666.3770751953125 2 666.371538 1330.72852 NaN NaN NaN NaN NaN NaN NaN 93.869 1 94.124 93.624 94.624 0.25497 0 0 0 1.0063 1 43141 43141 2.4985 1.0166 1 12156 9751 7646 7668 14251 14251 0.07638805154078909 KEIQLLRRLRH 11 Unmodified _KEIQLLRRLRH_ 0 0 0 ENST00000586358.5_1_19:1207098-1220516:+|nuORF;STK11|p.F255Sfs*32|1|0.08|ENSG00000118046|chr19:1221237-1221237|C/-|frameshift_variant;ENST00000589152.5_1_19:1206825-1221398:+|nuORF;nc|ENSG00000118046|Q15831-2|STK11;ENSG00000118046|ENST00000326873|STK11 ENST00000586358.5_1_19:1207098-1220516:+|nuORF ENST00000586358.5_1_19:1207098-1220516:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.9772644042969 3 487.975676 1460.9052 3.9655 0.0019351 -1.0938 -0.00053373 2.8717 0.0014013 487.9750858386242 101.13 0.090111 101.44 101.38 101.47 0.31412 10 3 4 0 0 0 0.91373 1 46802 46802 0.36667 0.27183 1 2085900 12157 2102 7647 7669 14252 14252 0.19318278827745416 KEIQLLRRLRH 11 Unmodified _KEIQLLRRLRH_ 0 0 0 ENST00000586358.5_1_19:1207098-1220516:+|nuORF;STK11|p.F255Sfs*32|1|0.08|ENSG00000118046|chr19:1221237-1221237|C/-|frameshift_variant;ENST00000589152.5_1_19:1206825-1221398:+|nuORF;nc|ENSG00000118046|Q15831-2|STK11;ENSG00000118046|ENST00000326873|STK11 ENST00000586358.5_1_19:1207098-1220516:+|nuORF ENST00000586358.5_1_19:1207098-1220516:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 487.975676 1460.9052 3.4126 0.0016653 -2.0798 -0.0010149 1.3328 0.0006504 487.974778340445 101.04 0.085426 101.64 101.59 101.67 0.59717 0.098169 -0.00082628 NaN 0.36667 8 3 3 NaN NaN NaN NaN 0 NaN NaN 0 1441000 12158 2102 7647 7669 0.19318278827745416 KEIRDRIQRR 10 Unmodified _KEIRDRIQRR_ 0 0 0 ENSG00000242950|ENST00000603053|ERVW-1 ENSG00000242950|ENST00000603053|ERVW-1 ENSG00000242950|ENST00000603053|ERVW-1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.27716064453125 3 457.276014 1368.80621 3.1573 0.0014438 1.1152 0.00050996 4.2725 0.0019537 457.2763484134875 99.571 0.14179 100.17 100.12 100.26 0.59748 17 7 3 0 0 0 0.93788 1 46058 46058 0.56317 0.10865 1 6489800 12159 6233 7648 7670 14253 14253 0.1365625586281567 KEIRLKRRIQI 11 Unmodified _KEIRLKRRIQI_ 0 0 0 REV__ADCY7|p.L774Rfs*22|1|0.3|ENSG00000121281|chr16:50310847-50310847|T/-|frameshift_variant REV__ADCY7|p.L774Rfs*22|1|0.3|ENSG00000121281|chr16:50310847-50310847|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.8946533203125 3 484.987693 1451.94125 NaN NaN NaN NaN NaN NaN NaN 65.746 1 65.746 65.246 66.246 0 0 0 0 1.0065 1 31339 31339 2.2527 0.32522 1 + 12160 9927 7649 7671 14254 14254 0.2333573600458294 KEIVKEQHRV 10 Unmodified _KEIVKEQHRV_ 0 0 0 REV__nc|ENSG00000140481|Q8N5R6-4|CCDC33 REV__nc|ENSG00000140481|Q8N5R6-4|CCDC33 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.372314453125 2 633.369861 1264.72517 4.0832 0.0025862 -1.0921 -0.00069171 2.9911 0.0018945 633.3691838395806 92.5 1.1702 93.147 92.609 93.779 0.64714 142 59 3 0 0 0 0.93713 1 42691 42691 1.4819 0 1 1329200 + 12161 12251 7650 7672 14255 14255 0.1033955510006308 KEKANYRLEIR 11 Unmodified _KEKANYRLEIR_ 0 0 0 ENSG00000175262|ENST00000377004|C1orf127 ENSG00000175262|ENST00000377004|C1orf127 ENSG00000175262|ENST00000377004|C1orf127 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.94146728515625 3 473.940409 1418.7994 NaN NaN NaN NaN NaN NaN NaN 94.133 1 94.219 93.719 94.719 0.086212 0 0 0 1.0044 1 49454 49454 2.2527 0 1 12162 5023 7651 7673 14256 14256 0.10674898191609827 KEKEKKKRP 9 Unmodified _KEKEKKKRP_ 0 0 0 ENSG00000113448|ENST00000340635|PDE4D;nc|ENSG00000113448|Q08499-5|PDE4D;nc|ENSG00000113448|Q08499-8|PDE4D;nc|ENSG00000113448|Q08499-4|PDE4D;nc|ENSG00000113448|Q08499-3|PDE4D;nc|ENSG00000113448|Q08499-2|PDE4D;nc|ENSG00000113448|Q08499-10|PDE4D;nc|ENSG00000113448|Q08499-9|PDE4D;nc|ENSG00000113448|Q08499-6|PDE4D;nc|ENSG00000113448|Q08499-11|PDE4D ENSG00000113448|ENST00000340635|PDE4D;nc|ENSG00000113448|Q08499-11|PDE4D;REV__ENST00000490957.5_1_7:11013950-11101713:+|nuORF REV__ENST00000490957.5_1_7:11013950-11101713:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.87255859375 2 585.869497 1169.72444 NaN NaN NaN NaN NaN NaN NaN 12.422 1 12.683 12.183 13.183 0.26154 0 0 0 0.8974 1 5370 5370 6.7232 0 1 12163 11083;9595;1855 7652 7674 14257 14257 0.1463676045102602 KEKHHRELHYR 11 Unmodified _KEKHHRELHYR_ 0 0 0 REV__ENSG00000171940|ENST00000371471|ZNF217 REV__ENSG00000171940|ENST00000371471|ZNF217 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.84765625 3 511.611285 1531.81203 NaN NaN NaN NaN NaN NaN NaN 60.684 1 60.684 60.184 61.184 0 0 0 0 1.0082 1 28233 28233 0.094841 0 1 + 12164 13527 7653 7675 14258 14258 0.06739354374508366 KEKHLAEIKR 10 Unmodified _KEKHLAEIKR_ 0 0 0 ENST00000518500.1_1_8:80965431-80965644:-|nuORF;nc|ENSG00000076554|P55327-8|TPD52;ENST00000521354.5_1_8:80950353-81083761:-|nuORF;nc|ENSG00000076554|P55327-2|TPD52;ENST00000522364.5_1_8:80963727-80992703:-|nuORF;ENSG00000076554|ENST00000518937|TPD52;nc|ENSG00000076554|P55327|TPD52;nc|ENSG00000076554|P55327-7|TPD52;nc|ENSG00000076554|P55327-5|TPD52;nc|ENSG00000076554|P55327-6|TPD52;nc|ENSG00000076554|P55327-3|TPD52 ENST00000518500.1_1_8:80965431-80965644:-|nuORF ENST00000518500.1_1_8:80965431-80965644:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 626.88330078125 2 626.380229 1250.7459 2.1805 0.0013658 -0.37148 -0.00023269 1.809 0.0011331 626.3797356160205 100.31 0.084328 100.37 100.33 100.41 0.059715 12 5 3 0 0 0 0.90196 1 54400 54400 3.5965 0 1 7222100 12165 847 7654 7676 14259 14259 0.1305614547973164 KEKHRQRL 8 Unmodified _KEKHRQRL_ 0 0 0 REV__nc|ENSG00000154864|Q9H5I5-2|PIEZO2 REV__nc|ENSG00000154864|Q9H5I5-2|PIEZO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.8915710449219 3 365.55623 1093.64686 2.9667 0.0010845 0.8353 0.00030535 3.802 0.0013898 365.55646863020024 4.5739 0.44668 5.1965 4.9945 5.4412 0.62252 59 40 2 0 0 0 0.7471 2 2051 2051;2093 1.6526 0.45928 1 77952 + 12166 12728 7655 7677 14260;14261 14260 0.10378167305520947 KEKKALRKKKK 11 Unmodified _KEKKALRKKKK_ 0 0 0 REV__nc|ENSG00000169302|Q8WU08-3|STK32A REV__nc|ENSG00000169302|Q8WU08-3|STK32A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 692.9921264648438 2 692.97737 1383.94019 NaN NaN NaN NaN NaN NaN NaN 83.094 1 83.094 82.594 83.594 0 0 0 0 1.008 1 41778 41778 0.35063 0 1 + 12167 13388 7656 7678 14262 14262 0.2635752163566849 KEKKKAQEAL 10 Unmodified _KEKKKAQEAL_ 0 0 0 nc|ENSG00000164627|Q6ZMV9-3|KIF6;ENSG00000164627|ENST00000287152|KIF6 nc|ENSG00000164627|Q6ZMV9-3|KIF6 nc|ENSG00000164627|Q6ZMV9-3|KIF6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 586.83154296875 2 586.853512 1171.69247 NaN NaN NaN NaN NaN NaN NaN 70.759 1 71.463 70.963 71.963 0.70386 0 0 0 0.94673 1 33934 33934 13.906 3.1065 1 12168 4330 7657 7679 14263 14263 0.11349347977238722 KEKKKKKKGT 10 Unmodified _KEKKKKKKGT_ 0 0 0 ENSG00000115155|ENST00000272371|OTOF;nc|ENSG00000115155|Q9HC10-4|OTOF;nc|ENSG00000115155|Q9HC10-3|OTOF;nc|ENSG00000115155|Q9HC10-5|OTOF;nc|ENSG00000115155|Q9HC10-2|OTOF ENSG00000115155|ENST00000272371|OTOF ENSG00000115155|ENST00000272371|OTOF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.9005126953125 2 601.900797 1201.78704 NaN NaN NaN NaN NaN NaN NaN 71.763 1 72.467 71.967 72.967 0.70386 0 0 0 0.99774 1 34499 34499 3.5965 0.31518 1 12169 1946 7658 7680 14264 14264 0.19421906519210097 KEKKKKKKKFR 11 Unmodified _KEKKKKKKKFR_ 0 0 0 REV__ENST00000341776.6_1_6:15521185-15521434:+|nuORF REV__ENST00000341776.6_1_6:15521185-15521434:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 738.5006713867188 2 738.49847 1474.98239 NaN NaN NaN NaN NaN NaN NaN 82.895 1 82.94 82.44 83.44 0.045006 0 0 0 1.008 1 41004 41004 0.35063 0.35063 1 + 12170 15467 7659 7681 14265 14265 0.26389497044033305 KEKKKKQKKKK 11 Unmodified _KEKKKKQKKKK_ 0 0 0 REV__ENSG00000136448|ENST00000258960|NMT1 REV__ENSG00000136448|ENST00000258960|NMT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 714.9888305664062 2 714.990478 1427.9664 NaN NaN NaN NaN NaN NaN NaN 73.766 1 73.766 73.266 74.266 0 0 0 0 1.008 1 35991 35991 0.35063 0 1 + 12171 12069 7660 7682 14266 14266 0.26953790807147016 KEKKKKRTKI 10 Unmodified _KEKKKKRTKI_ 0 0 0 REV__ENSG00000198734|ENST00000367797|F5 REV__ENSG00000198734|ENST00000367797|F5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 643.9378051757812 2 643.935171 1285.85579 NaN NaN NaN NaN NaN NaN NaN 75.065 1 75.323 74.823 75.823 0.25831 0 0 0 1.0015 1 34530 34530 0.45834 0 1 + 12172 14354 7661 7683 14267 14267 0.22429570818917455 KEKKKSKL 8 Unmodified _KEKKKSKL_ 0 0 0 REV__NBEAL1|p.L1448*|1|0.12|ENSG00000144426|chr2:203136636-203136636|T/-|frameshift_variant REV__NBEAL1|p.L1448*|1|0.12|ENSG00000144426|chr2:203136636-203136636|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.8280944824219 2 494.829309 987.644065 NaN NaN NaN NaN NaN NaN NaN 69.62 1 69.62 69.12 70.12 0 0 0 0 0.99035 1 33647 33647 2.3027 0 1 + 12173 12402 7662 7684 14268 14268 0.14974899127992103 KEKKLNQQKWR 11 Unmodified _KEKKLNQQKWR_ 0 0 0 REV__ENSG00000127831|ENST00000248444|VIL1 REV__ENSG00000127831|ENST00000248444|VIL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.2947998046875 3 495.959803 1484.85758 1.8311 0.00090816 -0.56077 -0.00027812 1.2703 0.00063003 495.9594415800635 106.21 0.11975 106.26 106.19 106.31 0.048363 15 6 4 0 0 0 0.91459 1 57477 57477 0.094841 0.011491 1 1906400 + 12174 11747 7663 7685 14269 14269 0.13454579836866287 KEKKLNQQKWR 11 Unmodified _KEKKLNQQKWR_ 0 0 0 REV__ENSG00000127831|ENST00000248444|VIL1 REV__ENSG00000127831|ENST00000248444|VIL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.9607238769531 3 495.959803 1484.85758 NaN NaN NaN NaN NaN NaN NaN 98.848 1 99.446 98.946 99.946 0.59748 0 0 0 1.0073 1 45631 45631 1.2148 0.20126 1 + 12175 11747 7663 7685 14270 14270 0.13454579836866287 KEKKLNQQKWR 11 Unmodified _KEKKLNQQKWR_ 0 0 0 REV__ENSG00000127831|ENST00000248444|VIL1 REV__ENSG00000127831|ENST00000248444|VIL1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 495.959803 1484.85758 1.8311 0.00090816 -0.56077 -0.00027812 1.2703 0.00063003 495.9594415800635 106.21 0.11975 106.26 106.19 106.31 0.048363 0 0 NaN 0.094841 15 6 4 NaN NaN NaN NaN 0 NaN NaN 0 1906400 + 12176 11747 7663 7685 0.13454579836866287 KEKKQYRRKKQ 11 Unmodified _KEKKQYRRKKQ_ 0 0 0 REV__ENST00000282964.5_1_21:21112145-21112373:+|nuORF REV__ENST00000282964.5_1_21:21112145-21112373:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.9366760253906 3 507.310836 1518.91068 2.7421 0.0013911 -1.9097 -0.00096881 0.83242 0.0004223 507.30958469061306 106.08 0.11707 106.08 106.02 106.14 0 12 5 3 0 0 0 0.91459 1 58259 58259 0.094841 0 1 968590 + 12177 15095 7664 7686 14271 14271 0.17197957619532644 KEKLIIGKVPL 11 Unmodified _KEKLIIGKVPL_ 0 0 0 REV__ENSG00000125817|ENST00000379751|CENPB REV__ENSG00000125817|ENST00000379751|CENPB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.417236328125 2 619.415749 1236.81694 NaN NaN NaN NaN NaN NaN NaN 99.722 1 99.722 99.222 100.22 0 0 0 0 1.008 1 54901 54901 0.35063 0 1 + 12178 11695 7665 7687 14272 14272 0.20800845464577833 KEKLRLREFRR 11 Unmodified _KEKLRLREFRR_ 0 0 0 REV__PABPC5|p.P300Ifs*14|1|0.06|ENSG00000174740|chrX:91436475-91436490|CCAGGGGTGCCTATCT/-|frameshift_variant REV__PABPC5|p.P300Ifs*14|1|0.06|ENSG00000174740|chrX:91436475-91436490|CCAGGGGTGCCTATCT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.982666015625 3 510.982831 1529.92666 NaN NaN NaN NaN NaN NaN NaN 79.742 1 80.403 79.903 80.903 0.66082 0 0 0 1.008 1 36743 36743 0.08335 0 1 + 12179 13644 7666 7688 14273 14273 0.18289663856421612 KEKRGLEK 8 Unmodified _KEKRGLEK_ 0 0 0 REV__ENSG00000198842|ENST00000361200|STYXL2 REV__ENSG00000198842|ENST00000361200|STYXL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.3033752441406 2 494.300916 986.587279 2.6471 0.0013085 0.25638 0.00012673 2.9035 0.0014352 494.30092211000726 93.971 0.38692 93.971 93.758 94.145 0 130 51 3 0 0 0 0.7441 1 50176 50176 2.3027 0 1 35575000 + 12180 14367 7667 7689 14274 14274 0.09344851571484014 KEKRKKKKKKK 11 Unmodified _KEKRKKKKKKK_ 0 0 0 REV__ENST00000303924.4_1_8:122653360-122653450:-|nuORF REV__ENST00000303924.4_1_8:122653360-122653450:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 729.0112915039062 2 729.011744 1456.00894 NaN NaN NaN NaN NaN NaN NaN 62.407 1 63.138 62.638 63.638 0.73077 0 0 0 1.008 1 29089 29089 0.35063 0 1 + 12181 15215 7668 7690 14275 14275 0.2991718593536916 KEKRKRMKRDQ 11 Unmodified _KEKRKRMKRDQ_ 0 0 0 nc|ENSG00000088930|Q9H0D6-2|XRN2;ENSG00000088930|ENST00000377191|XRN2 nc|ENSG00000088930|Q9H0D6-2|XRN2 nc|ENSG00000088930|Q9H0D6-2|XRN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.5648193359375 3 501.628059 1501.86235 NaN NaN NaN NaN NaN NaN NaN 71.027 1 71.027 70.527 71.527 0 0 0 0 1.008 1 34510 34510 0.094841 0 1 12182 1021 7669 7691 14276 14276 0.13149140707992046 KEKRRERKKTR 11 Unmodified _KEKRRERKKTR_ 0 0 0 REV__ENST00000312210.9_1_1:150979050-150979176:-|nuORF REV__ENST00000312210.9_1_1:150979050-150979176:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 757.9743041992188 2 757.971139 1513.92773 NaN NaN NaN NaN NaN NaN NaN 60.86 1 60.86 60.36 61.36 0 0 0 0 1.0063 1 28338 28338 2.4985 2.1915 1 + 12183 15271 7670 7692 14277 14277 0.1913187822533473 KEKRRQPWKLR 11 Unmodified _KEKRRQPWKLR_ 0 0 0 REV__ENST00000599165.5_1_19:48654500-48673536:-|nuORF REV__ENST00000599165.5_1_19:48654500-48673536:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 762.967041015625 2 762.965326 1523.9161 NaN NaN NaN NaN NaN NaN NaN 75.695 1 75.952 75.452 76.452 0.25704 0 0 0 1.008 1 34840 34840 0.30703 0.30703 1 + 12184 17626 7671 7693 14278 14278 0.17509681202000138 KEKTEVIL 8 Unmodified _KEKTEVIL_ 0 0 0 THOC2|p.K1449Tfs*6|1|0.35|ENSG00000125676|chrX:123614155-123614156|-/TGGACAGTGG|frameshift_variant;ENSG00000125676|ENST00000245838|THOC2 THOC2|p.K1449Tfs*6|1|0.35|ENSG00000125676|chrX:123614155-123614156|-/TGGACAGTGG|frameshift_variant THOC2|p.K1449Tfs*6|1|0.35|ENSG00000125676|chrX:123614155-123614156|-/TGGACAGTGG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 320.53155517578125 3 320.530576 958.569897 2.2582 0.00072383 0.48759 0.00015629 2.7458 0.00088012 320.5306865170514 13.595 0.27549 14.243 14.085 14.361 0.6482 54 18 4 0 0 0 0.42759 1 6080 6080 26.268 2.4784 1 1036400 12185 2413 7672 7694 14279 14279 0.08895511245816579 KELAARVPN 9 Unmodified _KELAARVPN_ 0 0 0 ENST00000422847.1_1_10:81978568-81978796:+|nuORF ENST00000422847.1_1_10:81978568-81978796:+|nuORF ENST00000422847.1_1_10:81978568-81978796:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 333.53326416015625 3 333.197819 996.571629 2.6735 0.00089079 2.8484 0.00094909 5.5219 0.0018399 333.1990085816237 41.588 0.306 41.858 41.768 42.074 0.27021 15 12 2 0 0 0 1.178 1 18990 18990 1.0715 0 1 548490 12186 7773 7673 7695 14280 14280 0.07320565054419603 KELAKYEYMEE 11 Unmodified _KELAKYEYMEE_ 0 0 0 ENSG00000130066|ENST00000379270|SAT1;ENST00000489394.5_1_X:23801366-23802421:+|nuORF ENSG00000130066|ENST00000379270|SAT1 ENSG00000130066|ENST00000379270|SAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 716.8394775390625 2 716.836868 1431.65918 NaN NaN NaN NaN NaN NaN NaN 74.224 1 74.224 73.724 74.724 0 0 0 0 1.0059 1 36243 36243 2.9952 0.26005 1 12187 2572 7674 7696 14281 14281 -0.03938066647629057 KELARQHLR 9 Unmodified _KELARQHLR_ 0 0 0 nc|ENSG00000205726|Q15811-13|ITSN1;nc|ENSG00000205726|Q15811-6|ITSN1;nc|ENSG00000205726|Q15811-5|ITSN1;nc|ENSG00000205726|Q15811-12|ITSN1;nc|ENSG00000205726|Q15811-11|ITSN1;nc|ENSG00000205726|Q15811-3|ITSN1;nc|ENSG00000205726|Q15811-10|ITSN1;nc|ENSG00000205726|Q15811-7|ITSN1;nc|ENSG00000205726|Q15811-2|ITSN1;ITSN1|p.M1515Cfs*8|1|0.37|ENSG00000205726|chr21:33882441-33882441|A/-|frameshift_variant;nc|ENSG00000205726|Q15811-4|ITSN1;nc|ENSG00000205726|Q15811-9|ITSN1;nc|ENSG00000205726|Q15811-8|ITSN1;ENSG00000205726|ENST00000381318|ITSN1 nc|ENSG00000205726|Q15811-13|ITSN1 nc|ENSG00000205726|Q15811-13|ITSN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.346923828125 2 575.843813 1149.67307 3.29 0.0018945 -0.41921 -0.0002414 2.8708 0.0016531 575.8435222989214 83.366 1.0367 83.613 83.296 84.333 0.24722 91 61 2 0 0 0 1.129 1 38471 38471 1.8442 0.19162 1 441470 12188 6055 7675 7697 14282 14282 0.10422436476960684 KELEKMKKLRK 11 Unmodified _KELEKMKKLRK_ 0 0 0 REV__ENST00000527855.1_1_3:113697695-113720591:-|nuORF REV__ENST00000527855.1_1_3:113697695-113720591:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 715.947998046875 2 715.947421 1429.88029 NaN NaN NaN NaN NaN NaN NaN 31.612 1 32.401 31.901 32.901 0.78879 0 0 0 1.0075 1 14279 14279 0.96228 0.61164 1 + 12189 13009 7676 7698 14283 14283 0.1825446291013577 KELEKNRSH 9 Unmodified _KELEKNRSH_ 0 0 0 nc|ENSG00000165699|Q92574-2|TSC1;ENSG00000165699|ENST00000298552|TSC1 nc|ENSG00000165699|Q92574-2|TSC1 nc|ENSG00000165699|Q92574-2|TSC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.8102416992188 2 570.809636 1139.60472 NaN NaN NaN NaN NaN NaN NaN 17.916 1 18.117 17.617 18.617 0.20057 0 0 0 0.89509 1 7942 7942 4.756 0.42677 1 12190 4418 7677 7699 14284 14284 0.04050147106477198 KELFLNLRELF 11 Unmodified _KELFLNLRELF_ 0 0 0 REV__ENSG00000240694|ENST00000522362|PNMA2 REV__ENSG00000240694|ENST00000522362|PNMA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.60943603515625 3 474.609889 1420.80784 NaN NaN NaN NaN NaN NaN NaN 86.839 1 86.839 86.339 87.339 0 0 0 0 1.0059 1 44620 44620 1.2148 0 1 + 12191 14608 7678 7700 14285 14285 0.11426452108207741 KELIKRLKMIK 11 Unmodified _KELIKRLKMIK_ 0 0 0 REV__ENST00000563629.1_1_16:50783909-50820919:+|nuORF REV__ENST00000563629.1_1_16:50783909-50820919:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 700.4620971679688 2 700.462707 1398.91086 NaN NaN NaN NaN NaN NaN NaN 80.348 1 80.589 80.089 81.089 0.24117 0 0 0 1.008 1 39362 39362 0.35063 0 1 + 12192 10631 7679 7701 14286 14286 0.22736241295160653 KELKEFYNQYY 11 Unmodified _KELKEFYNQYY_ 0 0 0 REV__nc|ENSG00000166889|Q86TB9-2|PATL1 REV__nc|ENSG00000166889|Q86TB9-2|PATL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.0183410644531 3 508.917158 1523.72965 NaN NaN NaN NaN NaN NaN NaN 73.753 1 73.753 73.253 74.253 0 0 0 0 1.0073 1 35981 35981 0.40827 0.041592 1 + 12193 13266 7680 7702 14287 14287 -0.011270252676467862 KELKRRLTTLE 11 Unmodified _KELKRRLTTLE_ 0 0 0 REV__nc|ENSG00000133454|Q8IUG5-2|MYO18B REV__nc|ENSG00000133454|Q8IUG5-2|MYO18B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.9539489746094 3 462.952426 1385.83545 3.5592 0.0016478 -1.6053 -0.00074319 1.9539 0.00090457 462.9516686048225 99.712 0.12489 100.02 99.936 100.06 0.30835 10 5 3 0 0 0 0.91137 1 46088 46088 1.1098 1.0149 1 1451300 + 12194 11934 7681 7703 14288 14288 0.15796355368433979 KELKRRLTTLE 11 Unmodified _KELKRRLTTLE_ 0 0 0 REV__nc|ENSG00000133454|Q8IUG5-2|MYO18B REV__nc|ENSG00000133454|Q8IUG5-2|MYO18B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 462.952426 1385.83545 3.5592 0.0016478 -1.6053 -0.00074319 1.9539 0.00090457 462.9516686048225 99.712 0.12489 100.02 99.936 100.06 0.30835 -0.074079 -0.00057935 NaN 1.1098 10 5 3 NaN NaN NaN NaN 0 NaN NaN 0 1451300 + 12195 11934 7681 7703 0.15796355368433979 KELKRRLTTLE 11 Unmodified _KELKRRLTTLE_ 0 0 0 REV__nc|ENSG00000133454|Q8IUG5-2|MYO18B REV__nc|ENSG00000133454|Q8IUG5-2|MYO18B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 462.952426 1385.83545 3.0523 0.0014131 -0.71063 -0.00032899 2.3417 0.0010841 462.9520674203589 99.571 0.1241 100.17 100.12 100.24 0.59748 0.074079 0.00066327 NaN 1.1098 15 6 3 NaN NaN NaN NaN 0 NaN NaN 0 3731800 + 12196 11934 7681 7703 0.15796355368433979 KELKRRREP 9 Unmodified _KELKRRREP_ 0 0 0 REV__ENST00000574510.1_1_17:7919510-7919845:+|nuORF REV__ENST00000574510.1_1_17:7919510-7919845:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 606.8735961914062 2 606.370195 1210.72584 3.9483 0.0023941 -0.055706 -3.3779E-05 3.8926 0.0023603 606.3699779015877 103.33 0.20534 103.93 103.84 104.05 0.59821 27 15 2 0 0 0 1.129 1 47789 47789 1.8442 0 1 554420 + 12197 11895 7682 7704 14289 14289 0.12890394539772387 KELLRRKR 8 Unmodified _KELLRRKR_ 0 0 0 ENSG00000110777|ENST00000393067|POU2AF1 ENSG00000110777|ENST00000393067|POU2AF1 ENSG00000110777|ENST00000393067|POU2AF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.6036376953125 2 549.864549 1097.71454 NaN NaN NaN NaN NaN NaN NaN 92.838 1 93.093 92.593 93.593 0.25497 0 0 0 0.99035 1 42673 42673 2.3027 0 1 12198 1728 7683 7705 14290 14290 0.16959617236307167 KELQMKLEKLR 11 Unmodified _KELQMKLEKLR_ 0 0 0 ENST00000481619.5_1_X:153672624-153677371:+|nuORF;ENSG00000071859|ENST00000393600|FAM50A ENST00000481619.5_1_X:153672624-153677371:+|nuORF ENST00000481619.5_1_X:153672624-153677371:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.2853088378906 3 472.618278 1414.83301 3.2002 0.0015125 -0.16966 -8.0185E-05 3.0305 0.0014323 472.61823990316253 96.234 0.84592 96.842 96.322 97.168 0.60769 61 44 3 0 0 0 0.13295 1 44247 44247 0.40827 0 1 1623600 12199 781 7684 7706 14291 14291 0.14218183639150084 KELQRRLKRLY 11 Unmodified _KELQRRLKRLY_ 0 0 0 ENSG00000010017|ENST00000011619|RANBP9 ENSG00000010017|ENST00000011619|RANBP9 ENSG00000010017|ENST00000011619|RANBP9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 751.969482421875 2 751.967534 1501.92051 NaN NaN NaN NaN NaN NaN NaN 92.095 1 92.095 91.595 92.595 0 0 0 0 1.008 1 48837 48837 0.35063 0.043601 1 12200 393 7685 7707 14292 14292 0.1896314562493444 KELQSRQI 8 Unmodified _KELQSRQI_ 0 0 0 REV__nc|ENSG00000119397|Q7Z7A1-4|CNTRL REV__nc|ENSG00000119397|Q7Z7A1-4|CNTRL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.29180908203125 2 501.290548 1000.56654 3.1802 0.0015942 0.52714 0.00026425 3.7073 0.0018584 501.2907464807802 78.42 2.0239 79.082 78.283 80.307 0.66198 237 131 2 0 0 0 0.70799 1 36039 36039 5.2307 0.47466 1 1407600 + 12201 11498 7686 7708 14293 14293 0.06628261191792717 KELVDKRMQ 9 Unmodified _KELVDKRMQ_ 0 0 0 REV__ENSG00000100151|ENST00000356976|PICK1 REV__ENSG00000100151|ENST00000356976|PICK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 573.846435546875 2 573.818615 1145.62268 NaN NaN NaN NaN NaN NaN NaN 94.732 1 94.732 94.232 95.232 0 0 0 0 0.89683 1 50889 50889 4.3292 0 1 + 12202 10807 7687 7709 14294 14294 0.05569146036964412 KELVFHLLAEL 11 Unmodified _KELVFHLLAEL_ 0 0 0 nc|ENSG00000173064|Q9Y4D8-4|HECTD4;nc|ENSG00000173064|Q9Y4D8|HECTD4;ENSG00000173064|ENST00000682272|HECTD4 nc|ENSG00000173064|Q9Y4D8-4|HECTD4 nc|ENSG00000173064|Q9Y4D8-4|HECTD4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.9289245605469 3 437.927218 1310.75982 2.7971 0.0012249 1.0268 0.00044966 3.8239 0.0016746 437.9275896916548 39.072 0.99592 39.87 39.338 40.334 0.79762 100 47 3 0 0 0 0.91149 1 17814 17814 0.36667 0 1 637470 12203 4913 7688 7710 14295 14295 0.11687378188184994 KELVFHLLAEL 11 Unmodified _KELVFHLLAEL_ 0 0 0 nc|ENSG00000173064|Q9Y4D8-4|HECTD4;nc|ENSG00000173064|Q9Y4D8|HECTD4;ENSG00000173064|ENST00000682272|HECTD4 nc|ENSG00000173064|Q9Y4D8-4|HECTD4 nc|ENSG00000173064|Q9Y4D8-4|HECTD4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.928466796875 3 437.927218 1310.75982 2.9104 0.0012745 0.89231 0.00039077 3.8027 0.0016653 437.9274691272659 39.978 0.84368 40.245 39.451 40.295 0.26696 81 30 3 0 0 0 0.91149 1 18133 18133 0.36667 0 1 1004900 12204 4913 7688 7710 14296 14296 0.11687378188184994 KELWVRWWRLR 11 Unmodified _KELWVRWWRLR_ 0 0 0 REV__ENST00000519528.1_1_8:103299768-103305927:-|nuORF REV__ENST00000519528.1_1_8:103299768-103305927:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 814.4682006835938 2 814.470244 1626.92593 NaN NaN NaN NaN NaN NaN NaN 84.648 1 84.676 84.176 85.176 0.028603 0 0 0 1.0082 1 42274 42274 0.35063 0.35063 1 + 12205 17036 7689 7711 14297 14297 0.1375486920737785 KELYELWEEYE 11 Unmodified _KELYELWEEYE_ 0 0 0 ENST00000609477.5_1_6:125555503-125614049:-|nuORF;ENST00000608461.1_1_6:125598188-125614049:-|nuORF;nc|ENSG00000111906|Q7Z4H3-2|HDDC2;ENSG00000111906|ENST00000398153|HDDC2 ENST00000609477.5_1_6:125555503-125614049:-|nuORF ENST00000609477.5_1_6:125555503-125614049:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.8406066894531 3 510.904807 1529.69259 NaN NaN NaN NaN NaN NaN NaN 73.376 1 74.04 73.54 74.54 0.66398 0 0 0 1.0079 1 33718 33718 0.50596 0 1 12206 1785 7690 7712 14298 14298 -0.05106741604049603 KELYQMYWARW 11 Unmodified _KELYQMYWARW_ 0 0 0 REV__MLXIP|p.P358Hfs*25|1|0.05|ENSG00000175727|chr12:122132363-122132364|-/ATGAGGT|frameshift_variant REV__MLXIP|p.P358Hfs*25|1|0.05|ENSG00000175727|chr12:122132363-122132364|-/ATGAGGT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 787.382568359375 2 787.384654 1572.75475 NaN NaN NaN NaN NaN NaN NaN 83.21 1 83.21 82.71 83.71 0 0 0 0 1.008 1 41865 41865 0.35063 0 1 + 12207 13677 7691 7713 14299 14299 -0.008712489461004225 KEMADLSL 8 Unmodified _KEMADLSL_ 0 0 0 REV__ENSG00000061676|ENST00000361354|NCKAP1 REV__ENSG00000061676|ENST00000361354|NCKAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.7333679199219 2 453.733686 905.452819 NaN NaN NaN NaN NaN NaN NaN 52.105 1 52.367 51.867 52.867 0.26227 0 0 0 0.67718 1 23818 23818 23.148 5.0134 1 + 12208 10399 7692 7714 14300 14300 -0.003689699654614742 KEMKMREQYRR 11 Unmodified _KEMKMREQYRR_ 0 0 0 REV__nc|ENSG00000188732|A4D161-3|FAM221A REV__nc|ENSG00000188732|A4D161-3|FAM221A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.9861450195312 3 518.937905 1553.79189 NaN NaN NaN NaN NaN NaN NaN 65.9 1 65.9 65.4 66.4 0 0 0 0 1.0082 1 31417 31417 0.094841 0 1 + 12209 14155 7693 7715 14301 14301 0.037140993280218026 KEMLKSPNLVY 11 Unmodified _KEMLKSPNLVY_ 0 0 0 REV__ENSG00000184743|ENST00000398868|ATL3 REV__ENSG00000184743|ENST00000398868|ATL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 661.3665161132812 2 661.362856 1320.71116 NaN NaN NaN NaN NaN NaN NaN 89.782 1 89.782 89.282 90.282 0 0 0 0 1.0059 1 46994 46994 2.9952 0 1 + 12210 13987 7694 7716 14302 14302 0.06363141556789742 KEMVLLERLRH 11 Unmodified _KEMVLLERLRH_ 0 0 0 ENSG00000162878|ENST00000294964|PKDCC ENSG00000162878|ENST00000294964|PKDCC ENSG00000162878|ENST00000294964|PKDCC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 356.7113342285156 4 356.710511 1422.81294 2.535 0.00090427 0.23101 8.2404E-05 2.766 0.00098668 356.7105155844958 62.287 0.92123 62.536 61.884 62.805 0.24965 195 99 3 0 0 0 0.904 1 28497 28497 2.2527 1.0379 1 96393000 12211 4175 7695 7717 14303 14303 0.1184443269919484 KEMVLLERLRH 11 Unmodified _KEMVLLERLRH_ 0 0 0 ENSG00000162878|ENST00000294964|PKDCC ENSG00000162878|ENST00000294964|PKDCC ENSG00000162878|ENST00000294964|PKDCC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 356.7115173339844 4 356.710511 1422.81294 2.3989 0.0008557 0.52784 0.00018829 2.9267 0.001044 356.96146258960675 61.648 0.70269 62.308 61.709 62.412 0.66008 99 54 2 0 0 0 0.904 2 28075 28075;28186 2.2527 1.0379 1 69514000 12212 4175 7695 7717 14304;14305 14304 0.1184443269919484 KENIAFLNKP 10 Unmodified _KENIAFLNKP_ 0 0 0 REV__FAT4|p.I1879Nfs*5|1|0.29|ENSG00000196159|chr4:125408509-125408510|-/ATTT|frameshift_variant REV__FAT4|p.I1879Nfs*5|1|0.29|ENSG00000196159|chr4:125408509-125408510|-/ATTT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.161376953125 2 587.334956 1172.65536 NaN NaN NaN NaN NaN NaN NaN 93.81 1 93.81 93.31 94.31 0 0 0 0 0.9754 1 50166 50166 9.3831 0.63772 1 + 12213 14191 7696 7718 14306 14306 0.07593676431474705 KENRRKWKRYL 11 Unmodified _KENRRKWKRYL_ 0 0 0 nc|ENSG00000162542|Q5TGY1-2|TMCO4;ENSG00000162542|ENST00000294543|TMCO4 nc|ENSG00000162542|Q5TGY1-2|TMCO4 nc|ENSG00000162542|Q5TGY1-2|TMCO4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 789.0027465820312 2 788.962783 1575.91101 NaN NaN NaN NaN NaN NaN NaN 66.081 1 66.081 65.581 66.581 0 0 0 0 1.008 1 31539 31539 0.35063 0.081612 1 12214 4142 7697 7719 14307 14307 0.14609377339411367 KENRRKWKRYL 11 Unmodified _KENRRKWKRYL_ 0 0 0 nc|ENSG00000162542|Q5TGY1-2|TMCO4;ENSG00000162542|ENST00000294543|TMCO4 nc|ENSG00000162542|Q5TGY1-2|TMCO4 nc|ENSG00000162542|Q5TGY1-2|TMCO4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 788.9628295898438 2 788.962783 1575.91101 NaN NaN NaN NaN NaN NaN NaN 67.809 1 67.809 67.309 68.309 0 0 0 0 1.0072 1 32580 32580 1.3295 0.9789 1 12215 4142 7697 7719 14308 14308 0.14609377339411367 KENTKLYL 8 Unmodified _KENTKLYL_ 0 0 0 ENST00000424478.5_1_14:45565874-45584113:+|nuORF;ENSG00000185246|ENST00000355765|PRPF39;nc|ENSG00000185246|Q86UA1-2|PRPF39;ENST00000554785.1_1_14:45579308-45583868:+|nuORF ENST00000424478.5_1_14:45565874-45584113:+|nuORF ENST00000424478.5_1_14:45565874-45584113:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 336.86309814453125 3 336.862325 1007.56515 2.3314 0.00078536 -0.072086 -2.4283E-05 2.2593 0.00076108 336.8623046843798 14.614 0.20622 14.84 14.743 14.95 0.22622 26 14 2 0 0 0 0.62155 1 6427 6427 12.241 2.6967 1 537570 12216 5499 7698 7720 14309 14309 0.061666271030162534 KENWPQYSQMY 11 Unmodified _KENWPQYSQMY_ 0 0 0 nc|ENSG00000228970|P0CB48|UBTFL6 nc|ENSG00000228970|P0CB48|UBTFL6 nc|ENSG00000228970|P0CB48|UBTFL6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.68487548828125 3 491.887093 1472.63945 NaN NaN NaN NaN NaN NaN NaN 74.005 1 74.264 73.764 74.764 0.25876 0 0 0 1.008 1 34009 34009 0.094841 0.011491 1 12217 9838 7699 7721 14310 14310 -0.07796397867764426 KEPERKIKELF 11 Unmodified _KEPERKIKELF_ 0 0 0 nc|ENSG00000165325|Q05D60-2|DEUP1;ENSG00000165325|ENST00000298050|DEUP1 nc|ENSG00000165325|Q05D60-2|DEUP1 nc|ENSG00000165325|Q05D60-2|DEUP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 708.9168701171875 2 708.914101 1415.81365 3.2756 0.0023221 0.20734 0.00014699 3.483 0.0024691 708.9146006213402 51.142 0.18276 51.959 51.838 52.02 0.81738 31 13 3 0 0 0 0.73918 2 23274 23259;23274 9.544 4.3665 1 1367900 12218 4392 7700 7722 14311;14312 14312 0.12237550619897775 KEPERKIKELF 11 Unmodified _KEPERKIKELF_ 0 0 0 nc|ENSG00000165325|Q05D60-2|DEUP1;ENSG00000165325|ENST00000298050|DEUP1 nc|ENSG00000165325|Q05D60-2|DEUP1 nc|ENSG00000165325|Q05D60-2|DEUP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 708.9161376953125 2 708.914101 1415.81365 3.7749 0.0026761 0.40071 0.00028407 4.1756 0.0029601 708.9142250115699 51.17 0.23455 51.83 51.69 51.925 0.65956 33 16 3 0 0 0 0.79438 2 23378 23378;23429 7.1017 1.9018 1 1566200 12219 4392 7700 7722 14313;14314 14313 0.12237550619897775 KEPGYSFVF 9 Unmodified _KEPGYSFVF_ 0 0 0 REV__ENSG00000079308|ENST00000682258|TNS1 REV__ENSG00000079308|ENST00000682258|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.2705688476562 2 537.26875 1072.52295 3.1118 0.0016719 0.56882 0.00030561 3.6806 0.0019775 537.2690064515413 50.595 1.942 50.595 49.324 51.266 0 279 95 4 0 0 0 0.023321 6 23021 22704;22859;22963;23021;23080;23228 63.961 14.028 1 5080000 + 12220 10578 7701 7723 14315;14316;14317;14318;14319;14320 14318 -0.010413483053298478 KEPGYSFVF 9 Unmodified _KEPGYSFVF_ 0 0 0 REV__ENSG00000079308|ENST00000682258|TNS1 REV__ENSG00000079308|ENST00000682258|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.2703857421875 2 537.26875 1072.52295 3.1573 0.0016963 0.27478 0.00014763 3.4321 0.001844 537.2687623798614 49.111 1.8441 49.938 49.089 50.933 0.82705 309 95 4 0 0 0 0.023321 6 22329 22079;22181;22329;22426;22585;22635 63.961 16.212 1 3693200 + 12221 10578 7701 7723 14321;14322;14323;14324;14325;14326 14323 -0.010413483053298478 KEPGYSFVF 9 Unmodified _KEPGYSFVF_ 0 0 0 REV__ENSG00000079308|ENST00000682258|TNS1 REV__ENSG00000079308|ENST00000682258|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.2710571289062 2 537.26875 1072.52295 2.984 0.0016032 0.8447 0.00045383 3.8287 0.002057 537.2691086268063 50.079 1.8338 50.34 49.615 51.449 0.26146 214 79 3 0 0 0 0.044468 5 22938 22766;22832;22938;22994;23205 49.554 7.7147 1 3161600 + 12222 10578 7701 7723 14327;14328;14329;14330;14331 14329 -0.010413483053298478 KEPGYSFVF 9 Unmodified _KEPGYSFVF_ 0 0 0 REV__ENSG00000079308|ENST00000682258|TNS1 REV__ENSG00000079308|ENST00000682258|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.2711181640625 2 537.26875 1072.52295 3.2837 0.0017642 0.7736 0.00041563 4.0573 0.0021799 537.2690530927385 49.693 1.8375 50.35 49.5 51.338 0.65735 198 74 4 0 0 0 0.044468 2 22678 22678;22781 49.554 7.7147 1 3588700 + 12223 10578 7701 7723 14332;14333 14332 -0.010413483053298478 KEPRFSYKI 9 Unmodified _KEPRFSYKI_ 0 0 0 REV__ENSG00000147251|ENST00000276202|DOCK11 REV__ENSG00000147251|ENST00000276202|DOCK11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 389.88995361328125 3 389.888874 1166.64479 2.3723 0.00092493 0.47505 0.00018522 2.8473 0.0011101 389.88903514594085 25.336 0.36843 26.1 25.926 26.295 0.76356 71 33 3 0 0 0 0.22744 1 11395 11395 21.59 0.053175 1 893170 + 12224 12499 7702 7724 14334 14334 0.06813693777030494 KEQFAWRHFYW 11 Unmodified _KEQFAWRHFYW_ 0 0 0 chr6:34425221-34425583|539|22.39|0.0|21.09|-|ENST00000494077|RPS10-NUDT3,RPS10;ENSG00000124614|ENST00000648437|RPS10;nc|ENSG00000101278|Q9NQ39|RPS10P5;ENST00000477729.1_1_15:60696796-60696997:+|nuORF;ENST00000480942.1_1_6:34392413-34392935:-|nuORF;ENST00000439253.1_1_9:90631298-90631598:+|nuORF;ENST00000408001.1_1_6:34712123-34712447:+|nuORF;ENST00000440748.1_1_7:37415149-37415623:+|nuORF chr6:34425221-34425583|539|22.39|0.0|21.09|-|ENST00000494077|RPS10-NUDT3,RPS10 chr6:34425221-34425583|539|22.39|0.0|21.09|-|ENST00000494077|RPS10-NUDT3,RPS10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 799.39208984375 2 799.388585 1596.76262 NaN NaN NaN NaN NaN NaN NaN 86.308 1 86.308 85.808 86.808 0 0 0 0 1.008 1 44206 44206 0.35063 0.043601 1 12225 187 7703 7725 14335 14335 -0.011893536342995503 KEQQLAKL 8 Unmodified _KEQQLAKL_ 0 0 0 REV__ENST00000557380.5_1_14:50292586-50301128:-|nuORF REV__ENST00000557380.5_1_14:50292586-50301128:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 320.1981506347656 3 319.862437 956.565481 2.1423 0.00068523 0.53684 0.00017171 2.6791 0.00085695 319.86242966730174 19.218 0.27246 19.515 19.422 19.694 0.29753 50 28 2 0 0 0 0.5438 3 8726 8721;8726;8768 13.906 4.3621 1 1453500 + 12226 13164 7704 7726 14336;14337;14338 14337 0.0854604682289164 KEQQLAKL 8 Unmodified _KEQQLAKL_ 0 0 0 REV__ENST00000557380.5_1_14:50292586-50301128:-|nuORF REV__ENST00000557380.5_1_14:50292586-50301128:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 319.8631286621094 3 319.862437 956.565481 2.1423 0.00068523 0.53684 0.00017171 2.6791 0.00085695 319.86242966730174 19.218 0.27246 19.515 19.422 19.694 0.29753 50 28 2 0 0 0 0.13721 1 8768 8768 13.906 5.7505 1 1453500 + 12227 13164 7704 7726 14339 14339 0.0854604682289164 KEQQLAKL 8 Unmodified _KEQQLAKL_ 0 0 0 REV__ENST00000557380.5_1_14:50292586-50301128:-|nuORF REV__ENST00000557380.5_1_14:50292586-50301128:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 319.862437 956.565481 2.2048 0.00070523 0.8716 0.00027879 3.0764 0.00098402 319.86279564839344 19.779 0.060091 19.779 19.729 19.789 0 0.1827 0.00012362 NaN 13.906 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 222940 + 12228 13164 7704 7726 0.0854604682289164 KEQQLRLL 8 Unmodified _KEQQLRLL_ 0 0 0 REV__ENSG00000135837|ENST00000367607|CEP350 REV__ENSG00000135837|ENST00000367607|CEP350 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.3186645507812 2 514.316566 1026.61858 NaN NaN NaN NaN NaN NaN NaN 73.509 1 73.509 73.009 74.009 0 0 0 0 0.88162 1 35851 35851 13.508 0 1 + 12229 12040 7705 7727 14340 14340 0.10633424605566688 KEQRLLKHKV 10 Unmodified _KEQRLLKHKV_ 0 0 0 REV__ENSG00000163541|ENST00000393868|SUCLG1 REV__ENSG00000163541|ENST00000393868|SUCLG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 639.8899536132812 2 639.903871 1277.79319 NaN NaN NaN NaN NaN NaN NaN 99.511 1 100.11 99.608 100.61 0.59748 0 0 0 0.99774 1 46021 46021 3.5965 0.60125 1 + 12230 13001 7706 7728 14341 14341 0.16540424750746752 KEQSDEKSP 9 Unmodified _KEQSDEKSP_ 0 0 0 REV__CMYA5|p.L2576Sfs*7|1|0.05|ENSG00000164309|chr5:79736491-79736492|-/C|frameshift_variant REV__CMYA5|p.L2576Sfs*7|1|0.05|ENSG00000164309|chr5:79736491-79736492|-/C|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.1959533691406 3 349.836616 1046.48802 2.3607 0.00082588 4.1051 0.0014361 6.4659 0.002262 350.17296151740254 14.702 0.24195 14.929 14.788 15.03 0.22622 34 15 3 0 0 0 0.077129 1 6443 6443 23.79 10.917 1 340480 + 12231 10065 7707 7729 14342 14342 -0.03336635903929164 KERDRKRQYE 10 Unmodified _KERDRKRQYE_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 469.9178771972656 3 469.919896 1406.73786 NaN NaN NaN NaN NaN NaN NaN 94.351 1 94.611 94.111 95.111 0.25975 0 0 0 1.0013 1 43357 43357 0.62683 0.26015 1 12232 1069;6170 7708 7730 14343 14343 0.05075966492313455 KERELREKETR 11 Unmodified _KERELREKETR_ 0 0 0 REV__ENSG00000157423|ENST00000393567|HYDIN REV__ENSG00000157423|ENST00000393567|HYDIN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 737.7186279296875 2 737.410246 1472.80594 NaN NaN NaN NaN NaN NaN NaN 94.433 1 94.693 94.193 95.193 0.25975 0 0 0 1.0073 1 43394 43394 2.9952 0 1 + 12233 12801 7709 7731 14344 14344 0.08844791352294123 KEREQKWRLY 10 Unmodified _KEREQKWRLY_ 0 0 0 REV__ENSG00000105321|ENST00000221922|CCDC9 REV__ENSG00000105321|ENST00000221922|CCDC9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 718.3909301757812 2 718.393867 1434.77318 NaN NaN NaN NaN NaN NaN NaN 97.41 1 97.699 97.199 98.199 0.28923 0 0 0 0.99733 1 44744 44744 3.9444 0.66309 1 + 12234 10037 7710 7732 14345 14345 0.07318629020141998 KERERERERER 11 Unmodified _KERERERERER_ 0 0 0 ENSG00000142599|ENST00000400908|RERE;nc|ENSG00000142599|Q9P2R6-2|RERE ENSG00000142599|ENST00000400908|RERE;REV__ENSG00000119707|ENST00000261973|RBM25 ENSG00000142599|ENST00000400908|RERE MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 525.2227172851562 3 524.948626 1571.82405 NaN NaN NaN NaN NaN NaN NaN 70.106 1 70.106 69.606 70.606 0 0 0 0 1.0082 1 33960 33960 0.094841 0 1 12235 3318;11512 7711 7733 14346 14346 0.06100926327007983 KERHYISK 8 Unmodified _KERHYISK_ 0 0 0 REV__nc|ENSG00000213096|O75437-2|ZNF254 REV__nc|ENSG00000213096|O75437-2|ZNF254 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.8364868164062 2 530.79854 1059.58253 2.0753 0.0011016 -3.0676 -0.0016283 -0.99227 -0.00052669 530.7967613274886 91.809 0.026497 91.892 91.876 91.903 0.082848 5 3 2 0 0 0 0.63902 1 47685 47685 10.824 2.9138 1 4584000 + 12236 14487 7712 7734 14347 14347 0.05511967428697062 KERHYISK 8 Unmodified _KERHYISK_ 0 0 0 REV__nc|ENSG00000213096|O75437-2|ZNF254 REV__nc|ENSG00000213096|O75437-2|ZNF254 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 530.79854 1059.58253 2.6786 0.0014218 -3.0447 -0.0016161 -0.36607 -0.00019431 530.7971323829937 91.625 0.02739 91.625 91.601 91.629 0 -0.13326 1.4465E-05 NaN 10.824 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 10062000 + 12237 14487 7712 7734 0.05511967428697062 KERHYISK 8 Unmodified _KERHYISK_ 0 0 0 REV__nc|ENSG00000213096|O75437-2|ZNF254 REV__nc|ENSG00000213096|O75437-2|ZNF254 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 530.79854 1059.58253 2.0753 0.0011016 -3.0676 -0.0016283 -0.99227 -0.00052669 530.7967613274886 91.809 0.026497 91.892 91.876 91.903 0.082848 0.13326 -9.8093E-06 NaN 10.824 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 4584000 + 12238 14487 7712 7734 0.05511967428697062 KERKKKML 8 Unmodified _KERKKKML_ 0 0 0 REV__L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|41|1|sense REV__L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|41|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.8756103515625 2 530.836611 1059.65867 NaN NaN NaN NaN NaN NaN NaN 89.851 1 89.915 89.415 90.415 0.064346 0 0 0 0.99035 1 46143 46143 5.7604 1.0044 1 + 12239 17797 7713 7735 14348 14348 0.13122648004491566 KERKQRRKEKR 11 Unmodified _KERKQRRKEKR_ 0 0 0 REV__nc|ENSG00000132970|Q9UPY6-2|WASF3 REV__nc|ENSG00000132970|Q9UPY6-2|WASF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 771.5975341796875 2 771.476589 1540.93862 NaN NaN NaN NaN NaN NaN NaN 87.006 1 87.046 86.546 87.546 0.039955 0 0 0 1.008 1 43929 43929 0.35063 0 1 + 12240 17945 7714 7736 14349 14349 0.18979280599614867 KERKRKKKK 9 Unmodified _KERKRKKKK_ 0 0 0 REV__nc|ENSG00000138795|Q9UJU2-3|LEF1 REV__nc|ENSG00000138795|Q9UJU2-3|LEF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 614.917724609375 2 614.919855 1227.82516 NaN NaN NaN NaN NaN NaN NaN 89.406 1 89.47 88.97 89.97 0.064346 0 0 0 0.91206 1 45817 45817 0.6015 0 1 + 12241 12193 7715 7737 14350 14350 0.22035837224530042 KERLKQKHKKR 11 Unmodified _KERLKQKHKKR_ 0 0 0 ENSG00000275023|ENST00000621332|MLLT6 ENSG00000275023|ENST00000621332|MLLT6 ENSG00000275023|ENST00000621332|MLLT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 739.9756469726562 2 739.973151 1477.93175 3.754 0.0027779 -0.59589 -0.00044094 3.1581 0.0023369 739.9731172881193 40.023 0.2191 40.023 39.921 40.14 0 14 8 3 0 0 0 0.91489 1 18174 18174 0 0 1 219930 12242 6344 7716 7738 14351 14351 0.21189967719055858 KERLKQKHKKR 11 Unmodified _KERLKQKHKKR_ 0 0 0 ENSG00000275023|ENST00000621332|MLLT6 ENSG00000275023|ENST00000621332|MLLT6 ENSG00000275023|ENST00000621332|MLLT6 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 739.973151 1477.93175 3.754 0.0027779 -0.59589 -0.00044094 3.1581 0.0023369 739.9731172881193 40.023 0.2191 40.023 39.921 40.14 0 0.15062 0.0014289 NaN 0 14 8 3 NaN NaN NaN NaN 0 NaN NaN 0 219930 12243 6344 7716 7738 0.21189967719055858 KERLKQKHKKR 11 Unmodified _KERLKQKHKKR_ 0 0 0 ENSG00000275023|ENST00000621332|MLLT6 ENSG00000275023|ENST00000621332|MLLT6 ENSG00000275023|ENST00000621332|MLLT6 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 739.973151 1477.93175 3.8106 0.0028197 -2.0956 -0.0015507 1.715 0.001269 739.9716861834354 39.455 0.35654 39.722 39.578 39.934 0.26696 -0.15062 -0.00079063 NaN 0 24 13 2 NaN NaN NaN NaN 0 NaN NaN 0 258100 12244 6344 7716 7738 0.21189967719055858 KERLLRQQL 9 Unmodified _KERLLRQQL_ 0 0 0 REV__ENSG00000178605|ENST00000326153|GTPBP6 REV__ENSG00000178605|ENST00000326153|GTPBP6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.2486877441406 3 395.247173 1182.71969 2.9237 0.0011556 0.61112 0.00024154 3.5348 0.0013971 395.24743836740134 15.913 1.1347 16.571 16.132 17.267 0.65798 275 142 3 0 0 0 1.129 1 7440 7440 0.96228 0 1 127730 + 12245 13767 7717 7739 14352 14352 0.13563876308285217 KERLPAPLE 9 Unmodified _KERLPAPLE_ 0 0 0 nc|ENSG00000153266|Q8TBJ5-2|FEZF2;ENSG00000153266|ENST00000283268|FEZF2 nc|ENSG00000153266|Q8TBJ5-2|FEZF2 nc|ENSG00000153266|Q8TBJ5-2|FEZF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.8109130859375 2 526.808574 1051.60259 NaN NaN NaN NaN NaN NaN NaN 84.89 1 84.919 84.419 85.419 0.028603 0 0 0 0.77475 1 42439 42439 10.074 2.7847 1 12246 3782 7718 7740 14353 14353 0.07885718368675043 KERQLRLWWRY 11 Unmodified _KERQLRLWWRY_ 0 0 0 REV__ENSG00000008513|ENST00000522652|ST3GAL1 REV__ENSG00000008513|ENST00000522652|ST3GAL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 817.458740234375 2 817.457333 1632.90011 NaN NaN NaN NaN NaN NaN NaN 89.619 1 89.619 89.119 90.119 0 0 0 0 1.0082 1 46862 46862 0.35063 0.35063 1 + 12247 10209 7719 7741 14354 14354 0.10897974965109825 KERQLRLWWRY 11 Unmodified _KERQLRLWWRY_ 0 0 0 REV__ENSG00000008513|ENST00000522652|ST3GAL1 REV__ENSG00000008513|ENST00000522652|ST3GAL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 817.5337524414062 2 817.457333 1632.90011 NaN NaN NaN NaN NaN NaN NaN 85.836 1 85.865 85.365 86.365 0.028603 0 0 0 1.0082 1 43041 43041 0.35063 0.35063 1 + 12248 10209 7719 7741 14355 14355 0.10897974965109825 KERQLVLRP 9 Unmodified _KERQLVLRP_ 0 0 0 REV__ENST00000555372.5_1_14:65453620-65488730:+|nuORF REV__ENST00000555372.5_1_14:65453620-65488730:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.9420166015625 2 569.85639 1137.69823 NaN NaN NaN NaN NaN NaN NaN 88.623 1 88.675 88.175 89.175 0.052155 0 0 0 0.89983 1 45199 45199 3.5965 0 1 + 12249 14681 7720 7742 14356 14356 0.13488491279554182 KERRKVHKVKV 11 Unmodified _KERRKVHKVKV_ 0 0 0 REV__ENST00000590234.5_1_18:47810059-47811374:-|nuORF REV__ENST00000590234.5_1_18:47810059-47811374:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 703.9599609375 2 703.956969 1405.89939 NaN NaN NaN NaN NaN NaN NaN 54.284 1 54.951 54.451 55.451 0.6665 0 0 0 1.008 1 24829 24829 0.35063 0.043601 1 + 12250 12726 7721 7743 14357 14357 0.21267180316044687 KERRRCRRWVL 11 Unmodified _KERRRCRRWVL_ 0 0 0 REV__nc|ENSG00000006327|Q9NP84-2|TNFRSF12A REV__nc|ENSG00000006327|Q9NP84-2|TNFRSF12A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 779.4573364257812 2 779.454602 1556.89465 NaN NaN NaN NaN NaN NaN NaN 53.088 1 53.892 53.392 54.392 0.80351 0 0 0 1.008 1 24196 24196 0.35063 0.043601 1 + 12251 10189 7722 7744 14358 14358 0.1384797290163533 KERRRQLYRRE 11 Unmodified _KERRRQLYRRE_ 0 0 0 REV__nc|ENSG00000179362|Q86SG4-3|HMGN2P46 REV__nc|ENSG00000179362|Q86SG4-3|HMGN2P46 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.8204345703125 3 530.641356 1588.90224 NaN NaN NaN NaN NaN NaN NaN 85.005 1 85.005 84.505 85.505 0 0 0 0 1.0073 1 43170 43170 0.40827 0.31342 1 + 12252 18061 7723 7745 14359 14359 0.13134403702929376 KERRRQLYRRE 11 Unmodified _KERRRQLYRRE_ 0 0 0 REV__nc|ENSG00000179362|Q86SG4-3|HMGN2P46 REV__nc|ENSG00000179362|Q86SG4-3|HMGN2P46 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 795.4581298828125 2 795.458396 1588.90224 NaN NaN NaN NaN NaN NaN NaN 83.898 1 84.56 84.06 85.06 0.66219 0 0 0 1.008 1 38643 38643 0.35063 0.35063 1 + 12253 18061 7723 7745 14360 14360 0.13134403702929376 KERRRRRRR 9 Unmodified _KERRRRRRR_ 0 0 0 REV__ENST00000495703.5_1_1:45808500-45809371:+|nuORF REV__ENST00000495703.5_1_1:45808500-45809371:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 684.93310546875 2 684.935225 1367.8559 NaN NaN NaN NaN NaN NaN NaN 30.852 1 31.641 31.141 32.141 0.78879 0 0 0 0.91206 1 13936 13936 0.6015 0.14316 1 + 12254 11911 7724 7746 14361 14361 0.18668428382147795 KETVAIGR 8 Unmodified _KETVAIGR_ 0 0 0 ENST00000522235.5_1_8:16885133-16935359:+|nuORF;ENSG00000155970|ENST00000318063|MICU3 ENST00000522235.5_1_8:16885133-16935359:+|nuORF ENST00000522235.5_1_8:16885133-16935359:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.2633056640625 2 437.261259 872.507966 2.9933 0.0013088 -0.23198 -0.00010143 2.7613 0.0012074 437.2611307160075 19.499 0.11617 19.499 19.429 19.545 0 25 16 2 0 0 0 0.022365 1 8679 8679 85.272 10.343 1 2516800 12255 3888 7725 7747 14362 14362 0.06661204617319072 KETVAIGR 8 Unmodified _KETVAIGR_ 0 0 0 ENST00000522235.5_1_8:16885133-16935359:+|nuORF;ENSG00000155970|ENST00000318063|MICU3 ENST00000522235.5_1_8:16885133-16935359:+|nuORF ENST00000522235.5_1_8:16885133-16935359:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 437.261259 872.507966 2.7052 0.0011829 0.98238 0.00042956 3.6876 0.0016124 437.26153932608435 19.051 0.10463 19.349 19.327 19.431 0.29753 -0.074935 0.00074744 NaN 85.272 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 942160 12256 3888 7725 7747 0.06661204617319072 KEVHVKGHQAL 11 Unmodified _KEVHVKGHQAL_ 0 0 0 REV__ZNF607|p.T472Lfs*22|1|0.04|ENSG00000198182|chr19:37698717-37698718|-/CATCAAAAAGACAAGTAAG|frameshift_variant REV__ZNF607|p.T472Lfs*22|1|0.04|ENSG00000198182|chr19:37698717-37698718|-/CATCAAAAAGACAAGTAAG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 623.5262451171875 2 623.356754 1244.69895 NaN NaN NaN NaN NaN NaN NaN 83.931 1 83.931 83.431 84.431 0 0 0 0 1.0041 1 42377 42377 5.2969 1.7004 1 + 12257 14324 7726 7748 14363 14363 0.08639285928620666 KEVILLPRC 9 Unmodified _KEVILLPRC_ 0 0 0 REV__ENSG00000047315|ENST00000314595|POLR2B REV__ENSG00000047315|ENST00000314595|POLR2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.5513610839844 3 357.551205 1069.63179 2.5142 0.00089897 -1.1291 -0.0004037 1.3852 0.00049527 357.55064674631933 47.574 0.78639 48.227 47.776 48.562 0.65356 60 35 3 0 0 0 1.1138 1 21802 21802 2.086 0.34373 1 727970 + 12258 10335 7727 7749 14364 14364 0.09975539393280997 KEVILLPRC 9 Unmodified _KEVILLPRC_ 0 0 0 REV__ENSG00000047315|ENST00000314595|POLR2B REV__ENSG00000047315|ENST00000314595|POLR2B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 357.551205 1069.63179 2.6402 0.00094399 -1.9961 -0.0007137 0.64408 0.00023029 357.550428021787 48.439 0.55197 48.439 48.324 48.876 0 0.069631 -0.00050152 NaN 2.086 47 36 2 NaN NaN NaN NaN 0 NaN NaN 0 751550 + 12259 10335 7727 7749 0.09975539393280997 KEVILLPRC 9 Unmodified _KEVILLPRC_ 0 0 0 REV__ENSG00000047315|ENST00000314595|POLR2B REV__ENSG00000047315|ENST00000314595|POLR2B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 357.551205 1069.63179 2.7721 0.00099117 -1.1779 -0.00042114 1.5943 0.00057003 357.5504302292041 48.181 0.57953 48.443 48.017 48.597 0.26209 0.073041 0.00037616 NaN 2.086 58 24 3 NaN NaN NaN NaN 0 NaN NaN 0 579260 + 12260 10335 7727 7749 0.09975539393280997 KEVPLLIW 8 Unmodified _KEVPLLIW_ 0 0 0 REV__ENST00000454429.2_1_9:33799890-33818714:-|nuORF REV__ENST00000454429.2_1_9:33799890-33818714:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.4158935546875 2 499.307678 996.600803 NaN NaN NaN NaN NaN NaN NaN 69.467 1 70.17 69.67 70.67 0.70302 0 0 0 0.967 1 33246 33246 7.9102 0.62092 1 + 12261 16434 7728 7750 14365 14365 0.102367093507155 KEVTELKI 8 Unmodified _KEVTELKI_ 0 0 0 REV__nc|ENSG00000176225|Q86VV8-4|RTTN REV__nc|ENSG00000176225|Q86VV8-4|RTTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.29425048828125 2 480.292225 958.569897 3.304 0.0015869 0.026259 1.2612E-05 3.3303 0.0015995 480.29232243970824 41.105 0.19146 41.75 41.729 41.92 0.64451 17 10 2 0 0 0 0.66465 1 18856 18856 11.64 0 1 1889600 + 12262 13699 7729 7751 14366 14366 0.08895511245816579 KEVVIKGDKRW 11 Unmodified _KEVVIKGDKRW_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 679.3981323242188 2 679.401161 1356.78777 NaN NaN NaN NaN NaN NaN NaN 83.185 1 83.185 82.685 83.685 0 0 0 0 0.98464 1 41844 41844 8.1555 1.5252 1 + 12263 12747 7730 7752 14367 14367 0.1236470116828059 KEVVVNVDDD 10 Unmodified _KEVVVNVDDD_ 0 0 0 nc|ENSG00000101605|P52179-2|MYOM1;ENSG00000101605|ENST00000356443|MYOM1 nc|ENSG00000101605|P52179-2|MYOM1 nc|ENSG00000101605|P52179-2|MYOM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.2799072265625 2 566.280043 1130.54553 NaN NaN NaN NaN NaN NaN NaN 87.59 1 87.63 87.13 88.13 0.039955 0 0 0 0.99774 1 44386 44386 3.5965 0 1 12264 1303 7731 7753 14368 14368 -0.014517936983793334 KEVYWRLWKEW 11 Unmodified _KEVYWRLWKEW_ 0 0 0 REV__ENST00000580496.1_1_17:61713981-61714308:+|nuORF REV__ENST00000580496.1_1_17:61713981-61714308:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.9283447265625 2 811.927543 1621.84053 NaN NaN NaN NaN NaN NaN NaN 88.065 1 88.065 87.565 88.565 0 0 0 0 1.008 1 45599 45599 0.35063 0.043601 1 + 12265 17507 7732 7754 14369 14369 0.054486592310695414 KEWHAHVQRLY 11 Unmodified _KEWHAHVQRLY_ 0 0 0 REV__ENST00000539757.1_1_12:9459887-9464602:+|nuORF REV__ENST00000539757.1_1_12:9459887-9464602:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.59405517578125 3 489.593232 1465.75787 NaN NaN NaN NaN NaN NaN NaN 62.138 1 62.138 61.638 62.638 0 0 0 0 1.0079 1 29091 29091 0.50596 0.051438 1 + 12266 10249 7733 7755 14370 14370 0.04361762222924881 KEWLQTKERWK 11 Unmodified _KEWLQTKERWK_ 0 0 0 ENST00000425011.1_3_X:102840593-102841700:+|nuORF;ENST00000494801.5_1_X:102840495-102841700:+|nuORF ENST00000425011.1_3_X:102840593-102841700:+|nuORF ENST00000425011.1_3_X:102840593-102841700:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 766.425537109375 2 766.422625 1530.8307 NaN NaN NaN NaN NaN NaN NaN 85.287 1 85.316 84.816 85.816 0.028603 0 0 0 1.0074 1 42667 42667 1.0715 0.10919 1 12267 7789 7734 7756 14371 14371 0.08651471225675778 KEWRRQRQARR 11 Unmodified _KEWRRQRQARR_ 0 0 0 REV__ENST00000468290.1_1_9:136198707-136199617:-|nuORF REV__ENST00000468290.1_1_9:136198707-136199617:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.1488647460938 3 523.969696 1568.88726 NaN NaN NaN NaN NaN NaN NaN 61.275 1 62.015 61.515 62.515 0.7396 0 0 0 1.008 1 28390 28390 0.094841 0 1 + 12268 12528 7735 7757 14372 14372 0.12556956625576277 KEWYHVYYCFF 11 Unmodified _KEWYHVYYCFF_ 0 0 0 REV__ENSG00000159128|ENST00000290219|IFNGR2 REV__ENSG00000159128|ENST00000290219|IFNGR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.9053344726562 3 528.904196 1583.69076 NaN NaN NaN NaN NaN NaN NaN 75.904 1 76.567 76.067 77.067 0.66387 0 0 0 1.0082 1 34967 34967 0.094841 0.021578 1 + 12269 12842 7736 7758 14373 14373 -0.07774029103052271 KEYKKKYQYSS 11 Unmodified _KEYKKKYQYSS_ 0 0 0 REV__nc|ENSG00000183091|P20929-4|NEB REV__nc|ENSG00000183091|P20929-4|NEB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.5706787109375 3 484.589153 1450.74563 NaN NaN NaN NaN NaN NaN NaN 76.033 1 76.29 75.79 76.79 0.25704 0 0 0 1.0073 1 35001 35001 0.40827 0.24894 1 + 12270 13918 7737 7759 14374 14374 0.0382868096924085 KEYPENKL 8 Unmodified _KEYPENKL_ 0 0 0 REV__ENST00000471825.1_1_22:28306950-28315179:-|nuORF REV__ENST00000471825.1_1_22:28306950-28315179:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.77398681640625 2 510.771657 1019.52876 3.4199 0.0017468 1.136 0.00058023 4.5559 0.002327 510.7722824393153 15.046 0.58512 15.7 15.525 16.11 0.65356 137 67 3 0 0 0 0.60101 1 6762 6762 4.3292 0 1 282780 + 12271 13837 7738 7760 14375 14375 0.01977750206322071 KEYSRRRSYHY 11 Unmodified _KEYSRRRSYHY_ 0 0 0 REV__ENSG00000170236|ENST00000532404|USP50 REV__ENSG00000170236|ENST00000532404|USP50 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 772.8860473632812 2 772.889481 1543.76441 NaN NaN NaN NaN NaN NaN NaN 76.489 1 76.489 75.989 76.989 0 0 0 0 1.0073 1 37487 37487 1.1933 0 1 + 12272 13427 7739 7761 14376 14376 0.01427655383668025 KEYVKWMMYWI 11 Unmodified _KEYVKWMMYWI_ 0 0 0 ENST00000464751.6_1_5:137774897-137779354:+|nuORF;nc|ENSG00000068615|Q9H902-4|REEP1;ENST00000510467.5_1_5:137774897-137780649:+|nuORF;nc|ENSG00000068615|Q9H902|REEP1;nc|ENSG00000068615|Q9H902-3|REEP1;nc|ENSG00000132563|Q9BRK0|REEP2;ENSG00000132563|ENST00000378339|REEP2;ENSG00000068615|ENST00000538924|REEP1 ENST00000464751.6_1_5:137774897-137779354:+|nuORF ENST00000464751.6_1_5:137774897-137779354:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 788.888916015625 2 788.888183 1575.76181 NaN NaN NaN NaN NaN NaN NaN 66.128 1 66.128 65.628 66.628 0 0 0 0 1.008 1 31573 31573 0.35063 0 1 12273 736 7740 7762 14377 14377 -0.003036523898572341 KEYWERYKREW 11 Unmodified _KEYWERYKREW_ 0 0 0 REV__ENSG00000122257|ENST00000319715|RBBP6 REV__ENSG00000122257|ENST00000319715|RBBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 837.1207275390625 2 836.915164 1671.81578 NaN NaN NaN NaN NaN NaN NaN 94.795 1 94.795 94.295 95.295 0 0 0 0 1.0082 1 50932 50932 0 0 1 + 12274 11580 7741 7763 14378 14378 0.006739793577025921 KEYYHQQTRIW 11 Unmodified _KEYYHQQTRIW_ 0 0 0 REV__nc|ENSG00000068976|P11217-2|PYGM REV__nc|ENSG00000068976|P11217-2|PYGM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.2368774414062 3 517.92828 1550.76301 NaN NaN NaN NaN NaN NaN NaN 62.143 1 62.143 61.643 62.643 0 0 0 0 1.008 1 29094 29094 0.094841 0.011491 1 + 12275 10466 7742 7764 14379 14379 0.009660212948801927 KFAEEFYSF 9 Unmodified _KFAEEFYSF_ 0 0 0 nc|ENSG00000164649|Q96GN5-5|CDCA7L;nc|ENSG00000164649|Q96GN5-4|CDCA7L;nc|ENSG00000164649|Q96GN5-2|CDCA7L;ENSG00000164649|ENST00000406877|CDCA7L nc|ENSG00000164649|Q96GN5-5|CDCA7L nc|ENSG00000164649|Q96GN5-5|CDCA7L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.2744750976562 2 584.27149 1166.52843 3.5572 0.0020784 -0.99232 -0.00057978 2.5649 0.0014986 584.269837916231 65.235 0.44914 65.483 65.375 65.824 0.24802 39 22 3 0 0 0 0.02631 1 29882 29882 60.074 22.1 1 761250 12276 4331 7743 7765 14380 14380 -0.0481766951352256 KFAEEFYSF 9 Unmodified _KFAEEFYSF_ 0 0 0 nc|ENSG00000164649|Q96GN5-5|CDCA7L;nc|ENSG00000164649|Q96GN5-4|CDCA7L;nc|ENSG00000164649|Q96GN5-2|CDCA7L;ENSG00000164649|ENST00000406877|CDCA7L nc|ENSG00000164649|Q96GN5-5|CDCA7L nc|ENSG00000164649|Q96GN5-5|CDCA7L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.2736206054688 2 584.27149 1166.52843 3.637 0.002125 0.39605 0.0002314 4.033 0.0023564 584.2714614365624 64.664 0.32297 65.321 65.145 65.468 0.65672 21 12 2 0 0 0 0.019364 1 29654 29654 69.105 23.084 1 1000200 12277 4331 7743 7765 14381 14381 -0.0481766951352256 KFAQKYVFM 9 Unmodified _KFAQKYVFM_ 0 0 0 REV__ENST00000555232.5_1_14:21549679-21554039:+|nuORF REV__ENST00000555232.5_1_14:21549679-21554039:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.876708984375 3 387.875689 1160.60524 2.6514 0.0010284 -0.44173 -0.00017134 2.2097 0.00085709 387.87562805730164 14.79 0.18954 15.096 15.033 15.223 0.3069 21 15 2 0 0 0 1.0601 1 6693 6693 2.9952 1.8019 1 83275 + 12278 13188 7744 7766 14382 14382 0.03135850501962523 KFDDGAVFL 9 Unmodified _KFDDGAVFL_ 0 0 0 nc|ENSG00000058272|O14974-4|PPP1R12A;nc|ENSG00000058272|O14974-3|PPP1R12A;nc|ENSG00000058272|O14974-2|PPP1R12A;ENSG00000058272|ENST00000450142|PPP1R12A nc|ENSG00000058272|O14974-4|PPP1R12A nc|ENSG00000058272|O14974-4|PPP1R12A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.2619934082031 2 506.260925 1010.5073 3.1169 0.001578 0.8738 0.00044237 3.9907 0.0020203 506.26136370189454 62.957 0.24877 63.206 63.081 63.33 0.24965 25 13 3 0 0 0 0.086415 1 28844 28844 36.127 7.6402 1 819130 12279 631 7745 7767 14383 14383 0.0024636517761109644 KFDDGAVFL 9 Unmodified _KFDDGAVFL_ 0 0 0 nc|ENSG00000058272|O14974-4|PPP1R12A;nc|ENSG00000058272|O14974-3|PPP1R12A;nc|ENSG00000058272|O14974-2|PPP1R12A;ENSG00000058272|ENST00000450142|PPP1R12A nc|ENSG00000058272|O14974-4|PPP1R12A nc|ENSG00000058272|O14974-4|PPP1R12A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.2619934082031 2 506.260925 1010.5073 3.081 0.0015598 0.22047 0.00011161 3.3015 0.0016714 506.26089646036945 62.394 0.29125 63.054 62.856 63.147 0.66008 35 20 2 0 0 0 0.21008 1 28554 28554 22.736 0.98964 1 823080 12280 631 7745 7767 14384 14384 0.0024636517761109644 KFDDGAVFL 9 Unmodified _KFDDGAVFL_ 0 0 0 nc|ENSG00000058272|O14974-4|PPP1R12A;nc|ENSG00000058272|O14974-3|PPP1R12A;nc|ENSG00000058272|O14974-2|PPP1R12A;ENSG00000058272|ENST00000450142|PPP1R12A nc|ENSG00000058272|O14974-4|PPP1R12A nc|ENSG00000058272|O14974-4|PPP1R12A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 506.260925 1010.5073 3.1169 0.001578 0.8738 0.00044237 3.9907 0.0020203 506.26136370189454 62.957 0.24877 63.206 63.081 63.33 0.24965 0.075916 0.00042001 NaN 36.127 25 13 3 NaN NaN NaN NaN 0 NaN NaN 0 819130 12281 631 7745 7767 0.0024636517761109644 KFDDGAVFL 9 Unmodified _KFDDGAVFL_ 0 0 0 nc|ENSG00000058272|O14974-4|PPP1R12A;nc|ENSG00000058272|O14974-3|PPP1R12A;nc|ENSG00000058272|O14974-2|PPP1R12A;ENSG00000058272|ENST00000450142|PPP1R12A nc|ENSG00000058272|O14974-4|PPP1R12A nc|ENSG00000058272|O14974-4|PPP1R12A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 506.260925 1010.5073 3.081 0.0015598 0.22047 0.00011161 3.3015 0.0016714 506.26089646036945 62.394 0.29125 63.054 62.856 63.147 0.66008 -0.075916 -0.00024151 NaN 36.127 35 20 2 NaN NaN NaN NaN 0 NaN NaN 0 823080 12282 631 7745 7767 0.0024636517761109644 KFDDIRIYF 9 Unmodified _KFDDIRIYF_ 0 0 0 ENSG00000124201|ENST00000396105|ZNFX1;ZNFX1|p.S1823Wfs*15|1|0.26|ENSG00000124201|chr20:49247550-49247556|AGGCCAG/-|frameshift_variant;nc|ENSG00000124201|Q9P2E3-2|ZNFX1 ENSG00000124201|ENST00000396105|ZNFX1 ENSG00000124201|ENST00000396105|ZNFX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 608.8248901367188 2 608.821681 1215.62881 3.823 0.0023276 0.42559 0.00025911 4.2486 0.0025867 609.3229703329547 67.817 0.25468 68.069 67.942 68.196 0.25227 32 15 3 0 0 0 0.025529 2 31039 31039;31087 61.09 33.461 1 883650 12283 2346 7746 7768 14385;14386 14385 0.02961987540129485 KFDDIRIYF 9 Unmodified _KFDDIRIYF_ 0 0 0 ENSG00000124201|ENST00000396105|ZNFX1;ZNFX1|p.S1823Wfs*15|1|0.26|ENSG00000124201|chr20:49247550-49247556|AGGCCAG/-|frameshift_variant;nc|ENSG00000124201|Q9P2E3-2|ZNFX1 ENSG00000124201|ENST00000396105|ZNFX1 ENSG00000124201|ENST00000396105|ZNFX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 609.3248901367188 2 608.821681 1215.62881 3.6386 0.0022153 0.14383 8.7568E-05 3.7825 0.0023029 608.8218356959228 67.213 0.24911 67.871 67.737 67.987 0.65777 31 13 3 0 0 0 0.044531 1 30811 30811 49.527 34.279 1 942920 12284 2346 7746 7768 14387 14387 0.02961987540129485 KFEQEQSKL 9 Unmodified _KFEQEQSKL_ 0 0 0 REV__ENST00000488908.1_1_2:118705638-118709957:-|nuORF REV__ENST00000488908.1_1_2:118705638-118709957:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.0609130859375 3 379.536389 1135.58734 3.2644 0.001239 0.0012772 4.8476E-07 3.2657 0.0012394 379.53639668174094 31.54 0.29283 31.796 31.65 31.943 0.25614 37 21 2 0 0 0 0.11065 1 14421 14421 4.897 0 1 440070 + 12285 11686 7747 7769 14388 14388 0.024968067808231353 KFFFRRNPYFR 11 Unmodified _KFFFRRNPYFR_ 0 0 0 TSPYL1|p.K397Rfs*15|1|0.28|ENSG00000189241|chr6:116278640-116278641|TT/-|frameshift_variant;ENSG00000189241|ENST00000368608|TSPYL1 TSPYL1|p.K397Rfs*15|1|0.28|ENSG00000189241|chr6:116278640-116278641|TT/-|frameshift_variant TSPYL1|p.K397Rfs*15|1|0.28|ENSG00000189241|chr6:116278640-116278641|TT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 789.425048828125 2 789.428045 1576.84154 NaN NaN NaN NaN NaN NaN NaN 81.115 1 81.363 80.863 81.863 0.24803 0 0 0 1.008 1 37347 37347 0.30703 0.30703 1 12286 5709 7748 7770 14389 14389 0.07618918390630824 KFFIWLRVKKK 11 Unmodified _KFFIWLRVKKK_ 0 0 0 ENST00000376083.7_2_9:88296229-88307675:-|nuORF ENST00000376083.7_2_9:88296229-88307675:-|nuORF ENST00000376083.7_2_9:88296229-88307675:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.2392578125 3 498.322013 1491.94421 3.4235 0.001706 -0.68274 -0.00034022 2.7407 0.0013658 498.3215244185695 46.786 0.32528 47.052 46.924 47.249 0.26561 20 10 3 0 0 0 0.13295 1 21470 21470 0.08335 0 1 564640 12287 7395 7749 7771 14390 14390 0.21791611129378907 KFFKRKGAP 9 Unmodified _KFFKRKGAP_ 0 0 0 ENST00000298049.11_1_20:62119378-62119654:-|nuORF ENST00000298049.11_1_20:62119378-62119654:-|nuORF ENST00000298049.11_1_20:62119378-62119654:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.575927734375 3 360.222188 1077.64473 2.8112 0.0010127 -0.5189 -0.00018692 2.2923 0.00082574 360.2221651240092 32.681 0.32123 32.935 32.852 33.174 0.25389 18 14 2 0 0 0 0.10586 1 14877 14877 4.897 3.2444 1 405870 12288 6777 7750 7772 14391 14391 0.109017385676907 KFFLKEILR 9 Unmodified _KFFLKEILR_ 0 0 0 nc|ENSG00000089101|Q8NHU2-4|CFAP61;ENSG00000089101|ENST00000245957|CFAP61;CFAP61|p.K1093Sfs*45|1|0.08|ENSG00000089101|chr20:20298241-20298242|-/GTAAT|frameshift_variant;CFAP61|p.Y1094Ifs*45|1|0.06|ENSG00000089101|chr20:20298243-20298244|-/ATATTGAC|frameshift_variant nc|ENSG00000089101|Q8NHU2-4|CFAP61 nc|ENSG00000089101|Q8NHU2-4|CFAP61 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 398.5860900878906 3 398.585015 1192.73321 2.4893 0.00099222 0.95551 0.00038085 3.4449 0.0013731 398.5853570356953 45.934 0.72938 45.934 45.403 46.132 0 76 35 3 0 0 0 1.0894 1 21022 21022 2.4985 0.59211 1 2738700 12289 1031 7751 7773 14392 14392 0.14455734087528072 KFFLKEILR 9 Unmodified _KFFLKEILR_ 0 0 0 nc|ENSG00000089101|Q8NHU2-4|CFAP61;ENSG00000089101|ENST00000245957|CFAP61;CFAP61|p.K1093Sfs*45|1|0.08|ENSG00000089101|chr20:20298241-20298242|-/GTAAT|frameshift_variant;CFAP61|p.Y1094Ifs*45|1|0.06|ENSG00000089101|chr20:20298243-20298244|-/ATATTGAC|frameshift_variant nc|ENSG00000089101|Q8NHU2-4|CFAP61 nc|ENSG00000089101|Q8NHU2-4|CFAP61 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.5861511230469 3 398.585015 1192.73321 2.9025 0.0011569 0.45239 0.00018032 3.3549 0.0013372 398.58526608964803 45.453 0.89455 45.721 45.231 46.125 0.26768 76 36 3 0 0 0 1.0894 1 20756 20756 2.4985 0.063701 1 3602800 12290 1031 7751 7773 14393 14393 0.14455734087528072 KFFLKIKKN 9 Unmodified _KFFLKIKKN_ 0 0 0 REV__ENST00000409458.3_2_7:23296839-23297073:+|nuORF REV__ENST00000409458.3_2_7:23296839-23297073:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.3788452148438 2 583.376426 1164.7383 3.67 0.002141 0.98364 0.00057383 4.6536 0.0027148 583.3768716834026 41.205 0.32012 41.474 41.345 41.665 0.26904 53 29 2 0 0 0 1.178 1 18785 18785 0.52476 0 1 2832800 + 12291 16095 7752 7774 14394 14394 0.16252037950130216 KFFVKILIA 9 Unmodified _KFFVKILIA_ 0 0 0 REV__ENSG00000102239|ENST00000370648|BRS3 REV__ENSG00000102239|ENST00000370648|BRS3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.2240905761719 3 360.238956 1077.69504 2.7399 0.00098702 0.84436 0.00030417 3.5843 0.0012912 360.2374285827197 29.459 0.54829 29.717 29.347 29.896 0.25804 78 34 4 0 0 0 0.11383 1 13392 13392 0 0 1 1645700 + 12292 10926 7753 7775 14395 14395 0.15929848172868333 KFFVMIIL 8 Unmodified _KFFVMIIL_ 0 0 0 REV__nc|ENSG00000142892|Q92643-2|PIGK REV__nc|ENSG00000142892|Q92643-2|PIGK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.5422058105469 3 337.541758 1009.60345 1.6354 0.00055201 0.47998 0.00016201 2.1154 0.00071403 337.54187105959005 11.566 0.044726 11.873 11.85 11.895 0.30727 13 9 2 0 0 0 0.7471 1 5226 5226 0 0 1 33259 + 12293 12348 7754 7776 14396 14396 0.09902841484029068 KFFVMIIL 8 Unmodified _KFFVMIIL_ 0 0 0 REV__nc|ENSG00000142892|Q92643-2|PIGK REV__nc|ENSG00000142892|Q92643-2|PIGK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 337.5432434082031 3 337.541758 1009.60345 2.7113 0.00091518 1.1014 0.00037178 3.8127 0.001287 337.54221433703924 9.7899 0.44615 10.419 10.148 10.595 0.62936 58 34 2 0 0 0 0.7471 1 4402 4402 1.8442 0 1 49712 + 12294 12348 7754 7776 14397 14397 0.09902841484029068 KFFVMIIL 8 Unmodified _KFFVMIIL_ 0 0 0 REV__nc|ENSG00000142892|Q92643-2|PIGK REV__nc|ENSG00000142892|Q92643-2|PIGK MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 337.541758 1009.60345 1.6354 0.00055201 0.47998 0.00016201 2.1154 0.00071403 337.54187105959005 11.566 0.044726 11.873 11.85 11.895 0.30727 0 0 NaN 0 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 33259 + 12295 12348 7754 7776 0.09902841484029068 KFIDPIYQVW 10 Unmodified _KFIDPIYQVW_ 0 0 0 nc|ENSG00000085721|Q9NYV6-4|RRN3;ENST00000427965.6_1_16:29086353-29124388:+|nuORF;nc|ENSG00000085721|Q9NYV6-3|RRN3;ENSG00000085721|ENST00000198767|RRN3 nc|ENSG00000085721|Q9NYV6-4|RRN3 nc|ENSG00000085721|Q9NYV6-4|RRN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.3599243164062 2 654.852981 1307.69141 3.5957 0.0023546 0.53249 0.0003487 4.1282 0.0027033 654.8533927111413 78.879 0.2414 79.13 79.017 79.258 0.25127 28 18 2 0 0 0 0.75049 1 36306 36306 10.8 5.5026 1 462390 12296 972 7755 7777 14398 14398 0.04987133608324257 KFIDPIYQVW 10 Unmodified _KFIDPIYQVW_ 0 0 0 nc|ENSG00000085721|Q9NYV6-4|RRN3;ENST00000427965.6_1_16:29086353-29124388:+|nuORF;nc|ENSG00000085721|Q9NYV6-3|RRN3;ENSG00000085721|ENST00000198767|RRN3 nc|ENSG00000085721|Q9NYV6-4|RRN3 nc|ENSG00000085721|Q9NYV6-4|RRN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 654.8582763671875 2 654.852981 1307.69141 3.8698 0.0025341 1.3308 0.00087147 5.2006 0.0034056 654.853598463011 78.333 0.18906 78.995 78.912 79.101 0.66198 14 10 2 0 0 0 0.20595 1 36104 36104 38.615 22.466 1 772540 12297 972 7755 7777 14399 14399 0.04987133608324257 KFIDTTSKF 9 Unmodified _KFIDTTSKF_ 0 0 0 ENSG00000100316|ENST00000216146|RPL3;ENST00000417615.1_1_14:99439218-99439536:-|nuORF;ENST00000473638.5_1_22:39708982-39709710:-|nuORF;ENSG00000140986|ENST00000268661|RPL3L ENSG00000100316|ENST00000216146|RPL3 ENSG00000100316|ENST00000216146|RPL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.7974243164062 2 543.795132 1085.57571 3.3013 0.0017953 0.30095 0.00016365 3.6023 0.0019589 543.7952774769138 35.018 0.42491 35.018 34.85 35.275 0 124 34 5 0 0 0 1.816E-41 4 15829 15829;15875;15920;15965 214.05 127.72 1 70983000 12298 1205 7756 7778 14400;14401;14402;14403 14400 0.03634609757477847 KFIDTTSKF 9 Unmodified _KFIDTTSKF_ 0 0 0 ENSG00000100316|ENST00000216146|RPL3;ENST00000417615.1_1_14:99439218-99439536:-|nuORF;ENST00000473638.5_1_22:39708982-39709710:-|nuORF;ENSG00000140986|ENST00000268661|RPL3L ENSG00000100316|ENST00000216146|RPL3 ENSG00000100316|ENST00000216146|RPL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.8670654296875 3 362.865847 1085.57571 2.4469 0.00088788 0.27053 9.8165E-05 2.7174 0.00098605 362.8659780611723 35.004 0.36688 35.004 34.85 35.217 0 82 28 4 0 0 0 0.00143 3 15889 15840;15889;15939 91.085 55.473 1 16798000 12299 1205 7756 7778 14404;14405;14406 14405 0.03634609757477847 KFIDTTSKF 9 Unmodified _KFIDTTSKF_ 0 0 0 ENSG00000100316|ENST00000216146|RPL3;ENST00000417615.1_1_14:99439218-99439536:-|nuORF;ENST00000473638.5_1_22:39708982-39709710:-|nuORF;ENSG00000140986|ENST00000268661|RPL3L ENSG00000100316|ENST00000216146|RPL3 ENSG00000100316|ENST00000216146|RPL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.7972412109375 2 543.795132 1085.57571 2.9148 0.001585 0.46869 0.00025487 3.3834 0.0018399 543.7955329225516 34.132 0.5056 34.921 34.675 35.181 0.78921 113 29 5 0 0 0 1.4603E-30 4 15432 15388;15432;15483;15531 200.32 121.59 1 50652000 12300 1205 7756 7778 14407;14408;14409;14410 14408 0.03634609757477847 KFIDTTSKF 9 Unmodified _KFIDTTSKF_ 0 0 0 ENSG00000100316|ENST00000216146|RPL3;ENST00000417615.1_1_14:99439218-99439536:-|nuORF;ENST00000473638.5_1_22:39708982-39709710:-|nuORF;ENSG00000140986|ENST00000268661|RPL3L ENSG00000100316|ENST00000216146|RPL3 ENSG00000100316|ENST00000216146|RPL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.86651611328125 3 362.865847 1085.57571 2.1593 0.00078355 0.0040807 1.4808E-06 2.1634 0.00078503 362.8659435993692 34.131 0.48195 34.921 34.717 35.199 0.78921 75 27 4 0 0 0 0.0017071 3 15404 15404;15447;15496 87.258 46.303 1 9004000 12301 1205 7756 7778 14411;14412;14413 14411 0.03634609757477847 KFIDTTSKF 9 Unmodified _KFIDTTSKF_ 0 0 0 ENSG00000100316|ENST00000216146|RPL3;ENST00000417615.1_1_14:99439218-99439536:-|nuORF;ENST00000473638.5_1_22:39708982-39709710:-|nuORF;ENSG00000140986|ENST00000268661|RPL3L ENSG00000100316|ENST00000216146|RPL3 ENSG00000100316|ENST00000216146|RPL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.7969360351562 2 543.795132 1085.57571 3.3959 0.0018467 0.25776 0.00014017 3.6537 0.0019868 543.7952628860796 34.911 0.40503 35.166 35.003 35.408 0.25524 97 30 4 0 0 0 1.523E-21 4 15946 15852;15894;15946;15994 187.14 108.41 1 46130000 12302 1205 7756 7778 14414;14415;14416;14417 14416 0.03634609757477847 KFIDTTSKF 9 Unmodified _KFIDTTSKF_ 0 0 0 ENSG00000100316|ENST00000216146|RPL3;ENST00000417615.1_1_14:99439218-99439536:-|nuORF;ENST00000473638.5_1_22:39708982-39709710:-|nuORF;ENSG00000140986|ENST00000268661|RPL3L ENSG00000100316|ENST00000216146|RPL3 ENSG00000100316|ENST00000216146|RPL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.8669128417969 3 362.865847 1085.57571 2.5875 0.00093891 0.40867 0.00014829 2.9962 0.0010872 362.8659757861604 34.881 0.32666 35.136 35.05 35.377 0.25524 61 24 3 0 0 0 0.0024283 3 15905 15858;15905;15957 81.915 48.757 1 10271000 12303 1205 7756 7778 14418;14419;14420 14419 0.03634609757477847 KFIDTTSKF 9 Unmodified _KFIDTTSKF_ 0 0 0 ENSG00000100316|ENST00000216146|RPL3;ENST00000417615.1_1_14:99439218-99439536:-|nuORF;ENST00000473638.5_1_22:39708982-39709710:-|nuORF;ENSG00000140986|ENST00000268661|RPL3L ENSG00000100316|ENST00000216146|RPL3 ENSG00000100316|ENST00000216146|RPL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.796875 2 543.795132 1085.57571 3.4317 0.0018662 0.10712 5.8251E-05 3.5389 0.0019244 543.7953185452074 34.479 0.45775 35.102 34.871 35.328 0.62294 61 19 5 0 0 0 1.523E-21 3 15796 15742;15796;15856 187.14 110.32 1 32575000 12304 1205 7756 7778 14421;14422;14423 14422 0.03634609757477847 KFIDTTSKF 9 Unmodified _KFIDTTSKF_ 0 0 0 ENSG00000100316|ENST00000216146|RPL3;ENST00000417615.1_1_14:99439218-99439536:-|nuORF;ENST00000473638.5_1_22:39708982-39709710:-|nuORF;ENSG00000140986|ENST00000268661|RPL3L ENSG00000100316|ENST00000216146|RPL3 ENSG00000100316|ENST00000216146|RPL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.86688232421875 3 362.865847 1085.57571 2.5189 0.00091402 -0.11896 -4.3167E-05 2.3999 0.00087085 362.8658885646838 34.493 0.348 35.116 34.94 35.288 0.62294 34 12 4 0 0 0 0.00143 2 15771 15771;15830 91.085 55.473 1 4282200 12305 1205 7756 7778 14424;14425 14424 0.03634609757477847 KFIIPLKEWF 10 Unmodified _KFIIPLKEWF_ 0 0 0 nc|ENSG00000091490|Q68CR1-3|SEL1L3;nc|ENSG00000091490|Q68CR1-2|SEL1L3;ENSG00000091490|ENST00000399878|SEL1L3 nc|ENSG00000091490|Q68CR1-3|SEL1L3 nc|ENSG00000091490|Q68CR1-3|SEL1L3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 440.93017578125 3 440.92867 1319.76418 2.1316 0.00093989 1.0596 0.00046721 3.1912 0.0014071 440.9290325223765 79.695 0.1637 80.015 79.908 80.072 0.31998 15 10 3 0 0 0 0.63102 1 38949 38949 16.275 11.559 1 834680 12306 1078 7757 7779 14426 14426 0.11708887401732682 KFIKEVRF 8 Unmodified _KFIKEVRF_ 0 0 0 REV__nc|ENSG00000148702|Q14520-2|HABP2 REV__nc|ENSG00000148702|Q14520-2|HABP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.8262329101562 2 533.824027 1065.6335 NaN NaN NaN NaN NaN NaN NaN 102.23 1 102.29 101.79 102.79 0.057198 0 0 0 0.99035 1 55507 55507 2.3027 0.4585 1 + 12307 12548 7758 7780 14427 14427 0.10330916473549223 KFINRGRPK 9 Unmodified _KFINRGRPK_ 0 0 0 REV__ENSG00000175215|ENST00000398073|CTDSP2 REV__ENSG00000175215|ENST00000398073|CTDSP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.3444213867188 2 558.343449 1114.67235 NaN NaN NaN NaN NaN NaN NaN 15.509 1 16.163 15.663 16.663 0.65356 0 0 0 0.91342 1 6985 6985 0 0 1 + 12308 13665 7759 7781 14428 14428 0.11959641827957057 KFINVKAHHF 10 Unmodified _KFINVKAHHF_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.2374267578125 3 414.236497 1239.68766 3.1211 0.0012929 -0.20042 -8.302E-05 2.9207 0.0012098 414.5708285284678 19.269 0.20663 19.927 19.79 19.996 0.65829 26 14 3 0 0 0 0.51828 1 8726 8726 28.495 22.303 1 290210 12309 4953 7760 7782 14429 14429 0.07740508625101938 KFINVKAHHF 10 Unmodified _KFINVKAHHF_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 414.236497 1239.68766 2.7894 0.0011555 -0.42553 -0.00017627 2.3638 0.00097919 414.23608266061893 19.62 0.19281 19.913 19.816 20.008 0.29239 -0.0074588 -0.000164 NaN 28.495 23 15 2 NaN NaN NaN NaN 0 NaN NaN 0 225960 12310 4953 7760 7782 0.07740508625101938 KFIWTNHKF 9 Unmodified _KFIWTNHKF_ 0 0 0 ENST00000538372.6_1_12:95365218-95388109:-|nuORF;ENST00000551991.5_1_12:95365218-95396553:-|nuORF;ENSG00000184752|ENST00000327772|NDUFA12 ENST00000538372.6_1_12:95365218-95388109:-|nuORF ENST00000538372.6_1_12:95365218-95388109:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 407.55828857421875 3 407.557348 1219.65021 2.7448 0.0011187 -0.22799 -9.2919E-05 2.5168 0.0010257 407.55726738395794 37.273 0.35594 37.273 37.106 37.462 0 25 12 3 0 0 0 0.022157 2 16900 16900;16958 65.474 39.476 1 1183100 12311 5460 7761 7783 14430;14431 14430 0.04917417359479259 KFIWTNHKF 9 Unmodified _KFIWTNHKF_ 0 0 0 ENST00000538372.6_1_12:95365218-95388109:-|nuORF;ENST00000551991.5_1_12:95365218-95396553:-|nuORF;ENSG00000184752|ENST00000327772|NDUFA12 ENST00000538372.6_1_12:95365218-95388109:-|nuORF ENST00000538372.6_1_12:95365218-95388109:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 407.5581359863281 3 407.557348 1219.65021 2.7665 0.0011275 -0.65868 -0.00026845 2.1078 0.00085906 407.5569982671991 35.92 0.25787 36.711 36.585 36.842 0.79131 24 10 3 0 0 0 0.010904 1 16284 16284 80.676 25.427 1 1115200 12312 5460 7761 7783 14432 14432 0.04917417359479259 KFIWTNHKF 9 Unmodified _KFIWTNHKF_ 0 0 0 ENST00000538372.6_1_12:95365218-95388109:-|nuORF;ENST00000551991.5_1_12:95365218-95396553:-|nuORF;ENSG00000184752|ENST00000327772|NDUFA12 ENST00000538372.6_1_12:95365218-95388109:-|nuORF ENST00000538372.6_1_12:95365218-95388109:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.5580139160156 3 407.557348 1219.65021 3.1228 0.0012727 -0.53293 -0.0002172 2.5899 0.0010555 407.5571602229523 37.275 0.34579 37.536 37.35 37.696 0.26083 21 10 3 0 0 0 0.11316 1 16965 16965 29.437 10.075 1 677260 12313 5460 7761 7783 14433 14433 0.04917417359479259 KFIWTNHKF 9 Unmodified _KFIWTNHKF_ 0 0 0 ENST00000538372.6_1_12:95365218-95388109:-|nuORF;ENST00000551991.5_1_12:95365218-95396553:-|nuORF;ENSG00000184752|ENST00000327772|NDUFA12 ENST00000538372.6_1_12:95365218-95388109:-|nuORF ENST00000538372.6_1_12:95365218-95388109:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 407.558837890625 3 407.557348 1219.65021 3.0499 0.001243 0.060051 2.4474E-05 3.1099 0.0012675 407.55731356920404 36.585 0.40233 37.215 37.014 37.416 0.62999 40 16 3 0 0 0 0.14214 1 16751 16751 27.223 12.818 1 523610 12314 5460 7761 7783 14434 14434 0.04917417359479259 KFKATSLK 8 Unmodified _KFKATSLK_ 0 0 0 ENST00000269300.8_1_17:8782612-8782705:-|nuORF ENST00000269300.8_1_17:8782612-8782705:-|nuORF ENST00000269300.8_1_17:8782612-8782705:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 308.1972961425781 3 308.195527 921.564752 NaN NaN NaN NaN NaN NaN NaN 29.487 1 29.487 28.987 29.987 0 0 0 0 0.99035 1 13309 13309 0.40072 0 1 12315 6641 7762 7784 14435 14435 0.10083252173865276 KFKEEISSF 9 Unmodified _KFKEEISSF_ 0 0 0 REV__ENST00000430436.5_2_20:20486175-20493168:-|nuORF REV__ENST00000430436.5_2_20:20486175-20493168:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.796142578125 2 557.792589 1113.57063 3.5061 0.0019557 0.77511 0.00043235 4.2812 0.002388 557.7929546785093 39.783 0.20819 39.783 39.692 39.9 0 13 9 2 0 0 0 0.27958 1 18058 18058 18.146 0 1 415100 + 12316 16256 7763 7785 14436 14436 0.01838305894852965 KFKEEISSF 9 Unmodified _KFKEEISSF_ 0 0 0 REV__ENST00000430436.5_2_20:20486175-20493168:-|nuORF REV__ENST00000430436.5_2_20:20486175-20493168:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 557.792589 1113.57063 3.5061 0.0019557 0.77511 0.00043235 4.2812 0.002388 557.7929546785093 39.783 0.20819 39.783 39.692 39.9 0 0 0 NaN 18.146 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 415100 + 12317 16256 7763 7785 0.01838305894852965 KFKLKTGT 8 Unmodified _KFKLKTGT_ 0 0 0 ENSG00000163798|ENST00000326019|SLC4A1AP;nc|ENSG00000163798|Q9BWU0-1|SLC4A1AP ENSG00000163798|ENST00000326019|SLC4A1AP ENSG00000163798|ENST00000326019|SLC4A1AP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 308.1966247558594 3 308.195527 921.564752 NaN NaN NaN NaN NaN NaN NaN 26.936 1 27.715 27.215 28.215 0.7787 0 0 0 0.99035 1 12104 12104 0.40072 0 1 12318 4250 7764 7786 14437 14437 0.10083252173876645 KFKMDIIKYNQ 11 Unmodified _KFKMDIIKYNQ_ 0 0 0 REV__AKAP9|p.D1226Efs*39|1|0.05|ENSG00000127914|chr7:92016192-92016193|-/AA|frameshift_variant REV__AKAP9|p.D1226Efs*39|1|0.05|ENSG00000127914|chr7:92016192-92016193|-/AA|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 714.72900390625 2 714.389405 1426.76426 3.8652 0.0027613 2.8044 0.0020034 6.6696 0.0047647 714.3904492209487 65.049 0.14584 65.297 65.249 65.394 0.24803 8 5 2 0 0 0 0.13295 1 29797 29797 10.8 1.4164 1 661610 + 12319 9936 7765 7787 14438 14438 0.06794519339450744 KFKYIGQGH 9 Unmodified _KFKYIGQGH_ 0 0 0 REV__ENST00000493019.1_1_21:43906458-43916296:-|nuORF REV__ENST00000493019.1_1_21:43906458-43916296:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.9619750976562 2 539.295633 1076.57671 NaN NaN NaN NaN NaN NaN NaN 52.793 1 52.793 52.293 53.293 0 0 0 0 0.90611 1 24179 24179 2.0598 0 1 + 12320 12864 7766 7788 14439 14439 0.04148868917036452 KFLDAGHKLNF 11 Unmodified _KFLDAGHKLNF_ 0 0 0 ENST00000471856.1_1_1:146649692-146651075:+|nuORF;ENSG00000167004|ENST00000300289|PDIA3;ENST00000434494.5_1_15:44038867-44063413:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 430.572509765625 3 430.571545 1288.69281 2.8212 0.0012147 0.13358 5.7515E-05 2.9548 0.0012722 430.57157346541675 42.542 0.25424 42.542 42.419 42.673 0 42 16 3 0 0 0 3.0314E-07 1 19369 19369 108.77 87.179 1 2270000 12321 4525 7767 7789 14440 14440 0.060007676971054025 KFLDAGHKLNF 11 Unmodified _KFLDAGHKLNF_ 0 0 0 ENST00000471856.1_1_1:146649692-146651075:+|nuORF;ENSG00000167004|ENST00000300289|PDIA3;ENST00000434494.5_1_15:44038867-44063413:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 645.3560180664062 2 645.35368 1288.69281 NaN NaN NaN NaN NaN NaN NaN 42.558 1 42.558 42.058 43.058 0 0 0 0 0.0014937 1 19376 19376 84.738 52.7 1 12322 4525 7767 7789 14441 14441 0.060007676971054025 KFLDAGHKLNF 11 Unmodified _KFLDAGHKLNF_ 0 0 0 ENST00000471856.1_1_1:146649692-146651075:+|nuORF;ENSG00000167004|ENST00000300289|PDIA3;ENST00000434494.5_1_15:44038867-44063413:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.5729675292969 3 430.571545 1288.69281 3.0158 0.0012985 0.23871 0.00010278 3.2545 0.0014013 430.5716572521626 42.457 0.2936 42.728 42.571 42.864 0.27021 33 13 3 0 0 0 0.0084811 3 19335 19325;19335;19395 66.617 45.027 1 1425300 12323 4525 7767 7789 14442;14443;14444 14443 0.060007676971054025 KFLDAGHKLNF 11 Unmodified _KFLDAGHKLNF_ 0 0 0 ENST00000471856.1_1_1:146649692-146651075:+|nuORF;ENSG00000167004|ENST00000300289|PDIA3;ENST00000434494.5_1_15:44038867-44063413:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.57281494140625 3 430.571545 1288.69281 3.2044 0.0013797 -0.4616 -0.00019875 2.7428 0.001181 430.57122986429965 41.514 0.22034 42.158 42.075 42.295 0.64451 17 11 2 0 0 0 0.011254 2 18997 18997;19027 64.86 49.612 1 1562000 12324 4525 7767 7789 14445;14446 14445 0.060007676971054025 KFLDFPIGN 9 Unmodified _KFLDFPIGN_ 0 0 0 nc|ENSG00000002745|Q9UBV4-2|WNT16;ENSG00000002745|ENST00000222462|WNT16 nc|ENSG00000002745|Q9UBV4-2|WNT16 nc|ENSG00000002745|Q9UBV4-2|WNT16 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.860107421875 3 350.858804 1049.55458 NaN NaN NaN NaN NaN NaN NaN 34.991 1 34.991 34.491 35.491 0 0 0 0 0.21088 1 15867 15867 22.658 1.0679 1 12325 303 7768 7790 14447 14447 0.03178644448621526 KFLDTAFNL 9 Unmodified _KFLDTAFNL_ 0 0 0 ENST00000490844.1_1_10:50943276-50946169:-|nuORF;nc|ENSG00000197444|Q9ULD0-3|OGDHL;nc|ENSG00000197444|Q9ULD0-2|OGDHL;ENSG00000197444|ENST00000374103|OGDHL ENST00000490844.1_1_10:50943276-50946169:-|nuORF ENST00000490844.1_1_10:50943276-50946169:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 356.8633117675781 3 356.862325 1067.56515 2.3696 0.0008456 0.31648 0.00011294 2.686 0.00095855 356.86242970415987 35.056 0.30646 35.056 34.91 35.217 0 60 25 3 0 0 0 0.10277 1 15941 15941 32.037 0 1 7852000 12326 5819 7769 7791 14448 14448 0.034066271030496864 KFLDTAFNL 9 Unmodified _KFLDTAFNL_ 0 0 0 ENST00000490844.1_1_10:50943276-50946169:-|nuORF;nc|ENSG00000197444|Q9ULD0-3|OGDHL;nc|ENSG00000197444|Q9ULD0-2|OGDHL;ENSG00000197444|ENST00000374103|OGDHL ENST00000490844.1_1_10:50943276-50946169:-|nuORF ENST00000490844.1_1_10:50943276-50946169:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 356.86309814453125 3 356.862325 1067.56515 2.1443 0.00076523 0.20512 7.3198E-05 2.3494 0.00083843 356.86236931853495 34.102 0.41572 34.891 34.73 35.146 0.78921 68 23 4 0 0 0 0.10277 1 15419 15419 32.037 0 1 5219800 12327 5819 7769 7791 14449 14449 0.034066271030496864 KFLESPSRS 9 Unmodified _KFLESPSRS_ 0 0 0 ENSG00000163872|ENST00000305135|YEATS2 ENSG00000163872|ENST00000305135|YEATS2 ENSG00000163872|ENST00000305135|YEATS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.8590087890625 3 350.857463 1049.55056 NaN NaN NaN NaN NaN NaN NaN 35.121 1 35.121 34.621 35.621 0 0 0 0 0.52632 1 15930 15930 12.873 0 1 12328 4258 7770 7792 14450 14450 0.027765549549030766 KFLHVYVRLH 10 Unmodified _KFLHVYVRLH_ 0 0 0 REV__ENST00000328086.11_1_16:25268609-25269107:-|nuORF REV__ENST00000328086.11_1_16:25268609-25269107:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.6982116699219 4 328.697567 1310.76116 2.4099 0.00079213 0.31066 0.00010211 2.7206 0.00089424 328.6975751219054 39.961 1.0846 40.228 39.32 40.404 0.26696 110 42 4 0 0 0 0.93503 1 18008 18008 1.9064 0.57673 1 1469300 + 12329 15361 7771 7793 14451 14451 0.11821057067595575 KFLHVYVRLH 10 Unmodified _KFLHVYVRLH_ 0 0 0 REV__ENST00000328086.11_1_16:25268609-25269107:-|nuORF REV__ENST00000328086.11_1_16:25268609-25269107:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.69866943359375 4 328.697567 1310.76116 2.3596 0.0007756 0.62414 0.00020515 2.9837 0.00098075 328.697703189899 39.516 0.79295 40.154 39.532 40.325 0.63778 77 32 3 0 0 0 0.93503 1 17892 17892 1.9064 1.9064 1 2302200 + 12330 15361 7771 7793 14452 14452 0.11821057067595575 KFLIVGPQ 8 Unmodified _KFLIVGPQ_ 0 0 0 ENSG00000166507|ENST00000309979|NDST2 ENSG00000166507|ENST00000309979|NDST2 ENSG00000166507|ENST00000309979|NDST2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 301.18902587890625 3 301.188373 900.543289 NaN NaN NaN NaN NaN NaN NaN 23.436 1 23.436 22.936 23.936 0 0 0 0 0.99035 1 10545 10545 0.40072 0 1 12331 4490 7772 7794 14453 14453 0.08903867145136246 KFLKRMKKKR 10 Unmodified _KFLKRMKKKR_ 0 0 0 REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.9690856933594 3 454.967465 1361.88056 2.7064 0.0012313 1.3004 0.00059166 4.0068 0.001823 454.96791744943687 35.946 0.24736 35.946 35.825 36.072 0 30 15 3 0 0 0 0.94099 1 16297 16297 0.69767 0.69767 1 551600 + 12332 17354 7773 7795 14454 14454 0.21409927420631902 KFLKRMKKKR 10 Unmodified _KFLKRMKKKR_ 0 0 0 REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 341.478515625 4 341.477418 1361.88056 2.3452 0.00080082 0.84237 0.00028765 3.1875 0.0010885 341.4776501684552 36.382 0.67952 36.382 36.105 36.785 0 79 31 4 0 0 0 0.94364 1 16454 16454 0.15932 0.15932 1 2213700 + 12333 17354 7773 7795 14455 14455 0.21409927420631902 KFLKRMKKKR 10 Unmodified _KFLKRMKKKR_ 0 0 0 REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.96929931640625 3 454.967465 1361.88056 2.7534 0.0012527 1.3102 0.00059609 4.0636 0.0018488 454.9680290863247 36.375 0.30225 36.375 36.185 36.487 0 22 12 2 0 0 0 0.94364 1 16474 16474 0.15932 0.15932 1 506560 + 12334 17354 7773 7795 14456 14456 0.21409927420631902 KFLKRMKKKR 10 Unmodified _KFLKRMKKKR_ 0 0 0 REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.96820068359375 3 454.967465 1361.88056 2.8404 0.0012923 0.91285 0.00041532 3.7532 0.0017076 454.96774351217545 38.356 0.35881 38.356 38.204 38.563 0 26 15 3 0 0 0 0.94099 1 17398 17398 0.69767 0.55777 1 853370 + 12335 17354 7773 7795 14457 14457 0.21409927420631902 KFLKRMKKKR 10 Unmodified _KFLKRMKKKR_ 0 0 0 REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 341.7292175292969 4 341.477418 1361.88056 2.4232 0.00082747 1.161 0.00039647 3.5843 0.0012239 341.4777833323989 38.61 0.25341 38.61 38.491 38.744 0 33 12 3 0 0 0 0.94364 1 17539 17539 0.15932 0.15932 1 1765600 + 12336 17354 7773 7795 14458 14458 0.21409927420631902 KFLKRMKKKR 10 Unmodified _KFLKRMKKKR_ 0 0 0 REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 341.478515625 4 341.477418 1361.88056 2.3165 0.00079105 0.67592 0.00023081 2.9925 0.0010219 341.47759016972645 34.934 0.52132 35.723 35.496 36.017 0.78921 97 34 4 0 0 0 0.94364 1 15837 15837 0.15932 0.15932 1 2015700 + 12337 17354 7773 7795 14459 14459 0.21409927420631902 KFLKRMKKKR 10 Unmodified _KFLKRMKKKR_ 0 0 0 REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 341.4783935546875 4 341.477418 1361.88056 2.3335 0.00079683 0.82469 0.00028161 3.1582 0.0010784 341.4776443504831 37.358 0.62148 38.154 37.676 38.298 0.79552 73 29 3 0 0 0 0.94364 2 16895 16895;16948 0.15932 0.15932 1 1609300 + 12338 17354 7773 7795 14460;14461 14460 0.21409927420631902 KFLKRMKKKR 10 Unmodified _KFLKRMKKKR_ 0 0 0 REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 341.4784851074219 4 341.477418 1361.88056 2.3376 0.00079825 1.0307 0.00035197 3.3684 0.0011502 341.47769966440643 37.688 0.84221 38.483 38.273 39.115 0.79552 88 33 4 0 0 0 0.94364 1 17050 17050 0.15932 0.15932 1 1550200 + 12339 17354 7773 7795 14462 14462 0.21409927420631902 KFLKRMKKKR 10 Unmodified _KFLKRMKKKR_ 0 0 0 REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.96929931640625 3 454.967465 1361.88056 2.7515 0.0012518 1.2516 0.00056942 4.0031 0.0018213 454.9679062445874 35.366 0.52757 35.621 35.391 35.918 0.25524 34 19 3 0 0 0 0.94099 1 16112 16112 0.69767 0.69767 1 547150 + 12340 17354 7773 7795 14463 14463 0.21409927420631902 KFLKRMKKKR 10 Unmodified _KFLKRMKKKR_ 0 0 0 REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.4790344238281 4 341.477418 1361.88056 2.4152 0.00082472 1.0225 0.00034918 3.4377 0.0011739 341.4776972181007 38.232 2.1084 38.496 37.085 39.193 0.26408 143 71 4 0 0 0 0.94364 2 17164 17164;17395 0.15932 0.15932 1 4108900 + 12341 17354 7773 7795 14464;14465 14464 0.21409927420631902 KFLKRMKKKR 10 Unmodified _KFLKRMKKKR_ 0 0 0 REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 454.967465 1361.88056 2.7534 0.0012527 1.3102 0.00059609 4.0636 0.0018488 454.9680290863247 36.375 0.30225 36.375 36.185 36.487 0 0 0 NaN 0.15932 22 12 2 NaN NaN NaN NaN 0 NaN NaN 0 506560 + 12342 17354 7773 7795 0.21409927420631902 KFLKRMKKKR 10 Unmodified _KFLKRMKKKR_ 0 0 0 REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 341.477418 1361.88056 2.4301 0.00082984 0.17442 5.9561E-05 2.6046 0.0008894 341.72817556772713 35.764 0.84802 36.556 36.371 37.219 0.79131 0.020053 -0.0005191 NaN 0.15932 55 36 2 NaN NaN NaN NaN 0 NaN NaN 0 1971700 + 12343 17354 7773 7795 0.21409927420631902 KFLKRMKKKR 10 Unmodified _KFLKRMKKKR_ 0 0 0 REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 341.477418 1361.88056 2.3165 0.00079105 0.67592 0.00023081 2.9925 0.0010219 341.47759016972645 34.934 0.52132 35.723 35.496 36.017 0.78921 0.056074 3.4102E-05 NaN 0.15932 97 34 4 NaN NaN NaN NaN 0 NaN NaN 0 2015700 + 12344 17354 7773 7795 0.21409927420631902 KFLKRMKKKR 10 Unmodified _KFLKRMKKKR_ 0 0 0 REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 341.477418 1361.88056 2.4874 0.00084939 0.49749 0.00016988 2.9849 0.0010193 341.7283265531567 36.415 0.57633 36.672 36.502 37.078 0.25768 0.13676 -7.7816E-05 NaN 0.15932 38 21 2 NaN NaN NaN NaN 0 NaN NaN 0 353880 + 12345 17354 7773 7795 0.21409927420631902 KFLKRMKKKR 10 Unmodified _KFLKRMKKKR_ 0 0 0 REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 341.477418 1361.88056 2.4335 0.00083099 0.53093 0.0001813 2.9644 0.0010123 341.4775541608952 35.358 0.56888 35.613 35.297 35.866 0.25524 -0.053616 -0.00016393 NaN 0.15932 70 22 4 NaN NaN NaN NaN 0 NaN NaN 0 3355200 + 12346 17354 7773 7795 0.21409927420631902 KFLKRMKKKR 10 Unmodified _KFLKRMKKKR_ 0 0 0 REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 454.967465 1361.88056 2.9512 0.0013427 0.34382 0.00015643 3.295 0.0014991 454.96756636006876 37.331 0.084511 37.961 37.916 38 0.62999 -0.19787 -0.00039477 NaN 0.69767 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 175920 + 12347 17354 7773 7795 0.21409927420631902 KFLKRMKKKR 10 Unmodified _KFLKRMKKKR_ 0 0 0 REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 341.477418 1361.88056 2.4664 0.0008422 0.58925 0.00020122 3.0556 0.0010434 341.4775777548755 35.906 0.82037 36.532 36.367 37.187 0.62631 -0.0033448 4.7522E-05 NaN 0.15932 46 27 3 NaN NaN NaN NaN 0 NaN NaN 0 795460 + 12348 17354 7773 7795 0.21409927420631902 KFLKRMKKKR 10 Unmodified _KFLKRMKKKR_ 0 0 0 REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 341.477418 1361.88056 2.3875 0.00081529 0.74614 0.00025479 3.1337 0.0010701 341.47762538096737 35.041 0.25627 35.664 35.557 35.813 0.62294 -0.0024582 0.00013002 NaN 0.15932 35 15 3 NaN NaN NaN NaN 0 NaN NaN 0 2689900 + 12349 17354 7773 7795 0.21409927420631902 KFLKRMKKKR 10 Unmodified _KFLKRMKKKR_ 0 0 0 REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF REV__ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 341.477418 1361.88056 2.2223 0.00075886 0.91456 0.0003123 3.1368 0.0010712 341.72847867210436 38.1 0.68857 38.734 38.499 39.188 0.63388 0.15308 -0.00016365 NaN 0.15932 41 27 2 NaN NaN NaN NaN 0 NaN NaN 0 584040 + 12350 17354 7773 7795 0.21409927420631902 KFLQLRILY 9 Unmodified _KFLQLRILY_ 0 0 0 REV__ENSG00000135845|ENST00000344529|PIGC REV__ENSG00000135845|ENST00000344529|PIGC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.5865173339844 3 398.585015 1192.73321 2.5541 0.001018 0.79469 0.00031675 3.3488 0.0013348 398.5853288186339 44.895 0.61343 45.716 45.349 45.963 0.82075 58 30 2 0 0 0 1.178 1 20363 20363 1.0715 0.10919 1 1692900 + 12351 12041 7774 7796 14466 14466 0.14455734087528072 KFLQLRILY 9 Unmodified _KFLQLRILY_ 0 0 0 REV__ENSG00000135845|ENST00000344529|PIGC REV__ENSG00000135845|ENST00000344529|PIGC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.5867004394531 3 398.585015 1192.73321 3.0814 0.0012282 0.3357 0.00013381 3.4171 0.001362 398.58515388496244 44.683 0.71341 45.333 44.828 45.541 0.64998 61 29 3 0 0 0 1.178 1 20429 20429 1.0715 0.10919 1 2474200 + 12352 12041 7774 7796 14467 14467 0.14455734087528072 KFLRFKKL 8 Unmodified _KFLRFKKL_ 0 0 0 REV__ENSG00000184924|ENST00000328379|PTRHD1 REV__ENSG00000184924|ENST00000328379|PTRHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 360.5755920410156 3 360.57445 1078.70152 2.5334 0.00091349 1.0846 0.00039109 3.6181 0.0013046 360.5747881183007 33.201 0.56171 33.201 32.727 33.289 0 52 38 2 0 0 0 0.7471 1 15011 15011 0.45834 0 1 1453200 + 12353 13993 7775 7797 14468 14468 0.16531786124232895 KFLRFKKL 8 Unmodified _KFLRFKKL_ 0 0 0 REV__ENSG00000184924|ENST00000328379|PTRHD1 REV__ENSG00000184924|ENST00000328379|PTRHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 360.5758972167969 3 360.57445 1078.70152 NaN NaN NaN NaN NaN NaN NaN 32.815 1 32.815 32.315 33.315 0 0 0 0 0.99035 1 14862 14862 0.45834 0 1 + 12354 13993 7775 7797 14469 14469 0.16531786124232895 KFLRFKKL 8 Unmodified _KFLRFKKL_ 0 0 0 REV__ENSG00000184924|ENST00000328379|PTRHD1 REV__ENSG00000184924|ENST00000328379|PTRHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 360.5762023925781 3 360.57445 1078.70152 NaN NaN NaN NaN NaN NaN NaN 32.019 1 32.807 32.307 33.307 0.78795 0 0 0 0.99035 1 14472 14472 0.45834 0 1 + 12355 13993 7775 7797 14470 14470 0.16531786124232895 KFLRFKKL 8 Unmodified _KFLRFKKL_ 0 0 0 REV__ENSG00000184924|ENST00000328379|PTRHD1 REV__ENSG00000184924|ENST00000328379|PTRHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.5760498046875 3 360.57445 1078.70152 2.5672 0.00092568 1.2269 0.00044237 3.7941 0.0013681 360.57495839066854 35.268 0.59814 35.523 35.32 35.918 0.25524 39 23 2 0 0 0 0.7471 1 16005 16005 0.45834 0 1 514040 + 12356 13993 7775 7797 14471 14471 0.16531786124232895 KFLRFKKL 8 Unmodified _KFLRFKKL_ 0 0 0 REV__ENSG00000184924|ENST00000328379|PTRHD1 REV__ENSG00000184924|ENST00000328379|PTRHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.5761413574219 3 360.57445 1078.70152 NaN NaN NaN NaN NaN NaN NaN 31.97 1 32.588 32.088 33.088 0.61736 0 0 0 0.99035 1 14661 14661 0.45834 0 1 + 12357 13993 7775 7797 14472 14472 0.16531786124232895 KFLRFKKL 8 Unmodified _KFLRFKKL_ 0 0 0 REV__ENSG00000184924|ENST00000328379|PTRHD1 REV__ENSG00000184924|ENST00000328379|PTRHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.5762023925781 3 360.57445 1078.70152 NaN NaN NaN NaN NaN NaN NaN 32.311 1 32.929 32.429 33.429 0.61831 0 0 0 0.99035 1 14816 14816 0.45834 0 1 + 12358 13993 7775 7797 14473 14473 0.16531786124232895 KFLRFKKL 8 Unmodified _KFLRFKKL_ 0 0 0 REV__ENSG00000184924|ENST00000328379|PTRHD1 REV__ENSG00000184924|ENST00000328379|PTRHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.57562255859375 3 360.57445 1078.70152 NaN NaN NaN NaN NaN NaN NaN 34.522 1 35.145 34.645 35.645 0.62294 0 0 0 0.99035 1 15815 15815 0.45834 0 1 + 12359 13993 7775 7797 14474 14474 0.16531786124232895 KFLRFKKL 8 Unmodified _KFLRFKKL_ 0 0 0 REV__ENSG00000184924|ENST00000328379|PTRHD1 REV__ENSG00000184924|ENST00000328379|PTRHD1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 360.57445 1078.70152 2.5059 0.00090358 1.3021 0.00046949 3.808 0.0013731 360.5749336709904 35.482 0.64699 35.482 35.352 35.999 0 -0.12295 0.00013902 NaN 0.45834 53 35 2 NaN NaN NaN NaN 0 NaN NaN 0 388110 + 12360 13993 7775 7797 0.16531786124232895 KFLRFKKL 8 Unmodified _KFLRFKKL_ 0 0 0 REV__ENSG00000184924|ENST00000328379|PTRHD1 REV__ENSG00000184924|ENST00000328379|PTRHD1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 360.57445 1078.70152 2.1815 0.0007866 1.5343 0.00055322 3.7158 0.0013398 360.5749497502935 32.453 0.49258 33.241 33.068 33.561 0.78795 0.00094332 0.00020819 NaN 0.45834 56 37 2 NaN NaN NaN NaN 0 NaN NaN 0 1000800 + 12361 13993 7775 7797 0.16531786124232895 KFLRFKKL 8 Unmodified _KFLRFKKL_ 0 0 0 REV__ENSG00000184924|ENST00000328379|PTRHD1 REV__ENSG00000184924|ENST00000328379|PTRHD1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 360.57445 1078.70152 2.5672 0.00092568 1.2269 0.00044237 3.7941 0.0013681 360.57495839066854 35.268 0.59814 35.523 35.32 35.918 0.25524 -0.08183 5.7666E-05 NaN 0.45834 39 23 2 NaN NaN NaN NaN 0 NaN NaN 0 514040 + 12362 13993 7775 7797 0.16531786124232895 KFLRFKKL 8 Unmodified _KFLRFKKL_ 0 0 0 REV__ENSG00000184924|ENST00000328379|PTRHD1 REV__ENSG00000184924|ENST00000328379|PTRHD1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 360.57445 1078.70152 2.7159 0.00097928 1.2066 0.00043506 3.9225 0.0014143 360.5748026885442 33.098 0.78115 33.352 33.018 33.799 0.25389 0.11158 -0.00014632 NaN 0.45834 91 35 4 NaN NaN NaN NaN 0 NaN NaN 0 2429800 + 12363 13993 7775 7797 0.16531786124232895 KFLRFKKL 8 Unmodified _KFLRFKKL_ 0 0 0 REV__ENSG00000184924|ENST00000328379|PTRHD1 REV__ENSG00000184924|ENST00000328379|PTRHD1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 360.57445 1078.70152 2.5921 0.00093463 0.83487 0.00030103 3.4269 0.0012357 360.9088529024518 35.187 0.61108 35.81 35.681 36.292 0.62294 0.20478 -0.00036636 NaN 0.45834 37 21 2 NaN NaN NaN NaN 0 NaN NaN 0 241150 + 12364 13993 7775 7797 0.16531786124232895 KFLRFKKL 8 Unmodified _KFLRFKKL_ 0 0 0 REV__ENSG00000184924|ENST00000328379|PTRHD1 REV__ENSG00000184924|ENST00000328379|PTRHD1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 360.57445 1078.70152 2.4547 0.00088509 1.5857 0.00057175 4.0403 0.0014568 360.57493172676436 32.549 0.8898 33.167 32.948 33.838 0.61831 -0.073153 0.00026377 NaN 0.45834 87 44 4 NaN NaN NaN NaN 0 NaN NaN 0 1222200 + 12365 13993 7775 7797 0.16531786124232895 KFLSEVFAQ 9 Unmodified _KFLSEVFAQ_ 0 0 0 nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B;ENSG00000275052|ENST00000616407|PPP4R3B;nc|ENSG00000275052|Q5MIZ7-3|PPP4R3B nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 356.86309814453125 3 356.862325 1067.56515 2.1443 0.00076523 0.20512 7.3198E-05 2.3494 0.00083843 356.86236931853495 34.102 0.41572 34.891 34.73 35.146 0.78921 68 23 4 0 0 0 0.14214 1 15467 15467 27.223 0 1 5219800 12366 6345 7776 7798 14475 14475 0.034066271030496864 KFLVFLLHF 9 Unmodified _KFLVFLLHF_ 0 0 0 REV__ENST00000376494.1_1_13:99373362-99378793:-|nuORF REV__ENST00000376494.1_1_13:99373362-99378793:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 388.5723876953125 3 388.570706 1162.69029 3.7234 0.0014468 0.74648 0.00029006 4.4699 0.0017369 388.570929089652 99.404 0.15977 99.712 99.638 99.798 0.30835 15 8 2 0 0 0 1.231 1 45933 45933 0.23584 0 1 14128000 + 12367 15821 7777 7799 14476 14476 0.11544964030076699 KFLVFLLHF 9 Unmodified _KFLVFLLHF_ 0 0 0 REV__ENST00000376494.1_1_13:99373362-99378793:-|nuORF REV__ENST00000376494.1_1_13:99373362-99378793:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 388.5721130371094 3 388.570706 1162.69029 3.0227 0.0011745 0.91545 0.00035572 3.9381 0.0015302 388.5710191154589 99.271 0.16479 99.869 99.791 99.956 0.59748 26 8 4 0 0 0 1.178 1 45899 45899 1.0715 0.80244 1 13429000 + 12368 15821 7777 7799 14477 14477 0.11544964030076699 KFLVFLLHF 9 Unmodified _KFLVFLLHF_ 0 0 0 REV__ENST00000376494.1_1_13:99373362-99378793:-|nuORF REV__ENST00000376494.1_1_13:99373362-99378793:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 388.570706 1162.69029 3.0227 0.0011745 0.91545 0.00035572 3.9381 0.0015302 388.5710191154589 99.271 0.16479 99.869 99.791 99.956 0.59748 0.078371 0.00010398 NaN 1.0715 26 8 4 NaN NaN NaN NaN 0 NaN NaN 0 13429000 + 12369 15821 7777 7799 0.11544964030076699 KFLVFRFLFH 10 Unmodified _KFLVFRFLFH_ 0 0 0 REV__ENST00000409371.7_1_4:6202075-6202225:-|nuORF REV__ENST00000409371.7_1_4:6202075-6202225:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.93408203125 3 451.932526 1352.77575 3.5407 0.0016002 0.4173 0.00018859 3.958 0.0017888 451.93261163543036 95.373 1.704 95.64 95.014 96.718 0.2675 272 97 4 0 0 0 0.94364 1 43769 43769 0.15932 0 1 2279600 + 12370 16093 7778 7800 14478 14478 0.11347129215732821 KFRKLLAVF 9 Unmodified _KFRKLLAVF_ 0 0 0 REV__ENSG00000175115|ENST00000320580|PACS1 REV__ENSG00000175115|ENST00000320580|PACS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.3662109375 2 561.363319 1120.71209 3.6958 0.0020747 1.1364 0.00063795 4.8322 0.0027126 561.3640402245207 42.333 0.078785 42.98 42.956 43.035 0.64693 9 5 2 0 0 0 1.101 1 19401 19401 2.3027 1.6124 1 699440 + 12371 13660 7779 7801 14479 14479 0.15655768778628953 KFRLSRRRRRN 11 Unmodified _KFRLSRRRRRN_ 0 0 0 ENSG00000145416|ENST00000514618|MARCHF1 ENSG00000145416|ENST00000514618|MARCHF1 ENSG00000145416|ENST00000514618|MARCHF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 773.0113525390625 2 772.97709 1543.93963 NaN NaN NaN NaN NaN NaN NaN 106.25 1 106.25 105.75 106.75 0 0 0 0 1.0082 1 58348 58348 0 0 1 12372 3466 7780 7802 14480 14480 0.18941539759202897 KFRRQYYKKWY 11 Unmodified _KFRRQYYKKWY_ 0 0 0 ENSG00000185875|ENST00000376356|THNSL1 ENSG00000185875|ENST00000376356|THNSL1 ENSG00000185875|ENST00000376356|THNSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 833.4548950195312 2 833.454259 1664.89397 NaN NaN NaN NaN NaN NaN NaN 61.836 1 62.567 62.067 63.067 0.73077 0 0 0 1.0082 1 28732 28732 0 0 1 12373 5537 7781 7803 14481 14481 0.08811456733587875 KFRTWRQLWLW 11 Unmodified _KFRTWRQLWLW_ 0 0 0 ENSG00000239900|ENST00000623063|ADSL;nc|ENSG00000239900|P30566-2|ADSL ENSG00000239900|ENST00000623063|ADSL ENSG00000239900|ENST00000623063|ADSL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 810.58154296875 2 810.45152 1618.88849 NaN NaN NaN NaN NaN NaN NaN 101.59 1 101.59 101.09 102.09 0 0 0 0 1.0082 1 56123 56123 0 0 1 12374 6214 7782 7804 14482 14482 0.10379777941784596 KFRTWRQLWLW 11 Unmodified _KFRTWRQLWLW_ 0 0 0 ENSG00000239900|ENST00000623063|ADSL;nc|ENSG00000239900|P30566-2|ADSL ENSG00000239900|ENST00000623063|ADSL ENSG00000239900|ENST00000623063|ADSL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 810.4558715820312 2 810.45152 1618.88849 NaN NaN NaN NaN NaN NaN NaN 93.646 1 93.733 93.233 94.233 0.086212 0 0 0 1.0082 1 49110 49110 0 0 1 12375 6214 7782 7804 14483 14483 0.10379777941784596 KFRYLERLLIL 11 Unmodified _KFRYLERLLIL_ 0 0 0 ENSG00000206190|ENST00000555815|ATP10A;ENST00000555815.5_1_15:25924490-25961922:-|nuORF ENSG00000206190|ENST00000555815|ATP10A ENSG00000206190|ENST00000555815|ATP10A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 732.4688720703125 2 732.458479 1462.90241 NaN NaN NaN NaN NaN NaN NaN 80.139 1 80.458 79.958 80.958 0.31998 0 0 0 1.0082 1 39185 39185 0 0 1 12376 6069 7783 7805 14484 14484 0.18947010650231277 KFSLVLILFI 10 Unmodified _KFSLVLILFI_ 0 0 0 nc|ENSG00000120519|Q0GE19-3|SLC10A7;ENSG00000120519|ENST00000335472|SLC10A7;nc|ENSG00000120519|Q0GE19-1|SLC10A7 nc|ENSG00000120519|Q0GE19-3|SLC10A7 nc|ENSG00000120519|Q0GE19-3|SLC10A7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.9683227539062 2 596.888835 1191.76312 NaN NaN NaN NaN NaN NaN NaN 70.472 1 70.472 69.972 70.972 0 0 0 0 0.95729 1 34201 34201 12.241 0.74595 1 12377 2194 7784 7806 14485 14485 0.17490673032830273 KFSPNTSQF 9 Unmodified _KFSPNTSQF_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3 ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.3179321289062 2 528.261456 1054.50836 2.8352 0.0014977 2.3169 0.0012239 5.1521 0.0027217 528.2631783297477 34.416 0.24421 34.416 34.271 34.515 0 23 11 3 0 0 0 0.0046306 1 15608 15608 57.722 11.701 1 1547600 12378 3825 7785 7807 14486 14486 -0.016714204534764576 KFSPNTSQF 9 Unmodified _KFSPNTSQF_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3 ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.2642211914062 2 528.261456 1054.50836 3.2404 0.0017118 0.59718 0.00031547 3.8376 0.0020272 528.261642130443 34.438 0.19285 34.692 34.567 34.76 0.25389 16 7 3 0 0 0 0.030603 1 15700 15700 55.503 9.4818 1 722420 12379 3825 7785 7807 14487 14487 -0.016714204534764576 KFSPNTSQF 9 Unmodified _KFSPNTSQF_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3 ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.264892578125 2 528.261456 1054.50836 3.1832 0.0016816 0.99482 0.00052552 4.178 0.0022071 528.2624315128148 34.036 0.21004 34.656 34.516 34.726 0.62031 18 10 2 0 0 0 0.026853 1 15598 15598 59.368 13.347 1 484770 12380 3825 7785 7807 14488 14488 -0.016714204534764576 KFSPRPLKF 9 Unmodified _KFSPRPLKF_ 0 0 0 nc|ENSG00000185658|Q9NSI6-3|BRWD1;ENSG00000185658|ENST00000342449|BRWD1;nc|ENSG00000185658|Q9NSI6|BRWD1;BRWD1|p.D563Ifs*13|1|0.04|ENSG00000185658|chr21:39264655-39264658|AGTC/-|frameshift_variant nc|ENSG00000185658|Q9NSI6-3|BRWD1 nc|ENSG00000185658|Q9NSI6-3|BRWD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 373.8945007324219 3 373.89396 1118.66005 2.7064 0.0010119 -0.26162 -9.7817E-05 2.4448 0.00091408 373.8937781344553 33.185 0.31937 33.185 32.962 33.282 0 41 22 2 0 0 0 0.086415 2 15050 15005;15050 55.503 24.234 1 2746200 12381 5522 7786 7808 14489;14490 14490 0.10546605364902462 KFSPRPLKF 9 Unmodified _KFSPRPLKF_ 0 0 0 nc|ENSG00000185658|Q9NSI6-3|BRWD1;ENSG00000185658|ENST00000342449|BRWD1;nc|ENSG00000185658|Q9NSI6|BRWD1;BRWD1|p.D563Ifs*13|1|0.04|ENSG00000185658|chr21:39264655-39264658|AGTC/-|frameshift_variant nc|ENSG00000185658|Q9NSI6-3|BRWD1 nc|ENSG00000185658|Q9NSI6-3|BRWD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 373.8946228027344 3 373.89396 1118.66005 2.3246 0.00086916 0.068038 2.5439E-05 2.3927 0.0008946 373.89392684661607 31.942 0.27159 32.73 32.6 32.871 0.78795 58 28 3 0 0 0 0.048676 2 14455 14409;14455 37.075 19.632 1 1631100 12382 5522 7786 7808 14491;14492 14492 0.10546605364902462 KFSPRPLKF 9 Unmodified _KFSPRPLKF_ 0 0 0 nc|ENSG00000185658|Q9NSI6-3|BRWD1;ENSG00000185658|ENST00000342449|BRWD1;nc|ENSG00000185658|Q9NSI6|BRWD1;BRWD1|p.D563Ifs*13|1|0.04|ENSG00000185658|chr21:39264655-39264658|AGTC/-|frameshift_variant nc|ENSG00000185658|Q9NSI6-3|BRWD1 nc|ENSG00000185658|Q9NSI6-3|BRWD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.89508056640625 3 373.89396 1118.66005 2.9096 0.0010879 0.49519 0.00018515 3.4048 0.001273 373.89393861286595 32.865 0.44631 33.119 32.929 33.376 0.25389 36 19 3 0 0 0 0.10837 1 14975 14975 34.932 7.3033 1 1150600 12383 5522 7786 7808 14493 14493 0.10546605364902462 KFSRYWRRWNR 11 Unmodified _KFSRYWRRWNR_ 0 0 0 nc|ENSG00000151067|Q13936-2|CACNA1C;nc|ENSG00000151067|Q13936-6|CACNA1C;nc|ENSG00000151067|Q13936-34|CACNA1C;nc|ENSG00000151067|Q13936-28|CACNA1C;nc|ENSG00000151067|Q13936-36|CACNA1C;nc|ENSG00000151067|Q13936-33|CACNA1C;nc|ENSG00000151067|Q13936-14|CACNA1C;nc|ENSG00000151067|Q13936-18|CACNA1C;nc|ENSG00000151067|Q13936-11|CACNA1C;nc|ENSG00000151067|Q13936-5|CACNA1C;ENSG00000151067|ENST00000399655|CACNA1C;nc|ENSG00000151067|Q13936-17|CACNA1C;nc|ENSG00000151067|Q13936-4|CACNA1C;nc|ENSG00000151067|Q13936-8|CACNA1C;nc|ENSG00000151067|Q13936|CACNA1C;nc|ENSG00000151067|Q13936-3|CACNA1C;nc|ENSG00000151067|Q13936-9|CACNA1C;nc|ENSG00000151067|Q13936-10|CACNA1C;nc|ENSG00000151067|Q13936-31|CACNA1C;nc|ENSG00000151067|Q13936-30|CACNA1C;nc|ENSG00000151067|Q13936-13|CACNA1C;nc|ENSG00000151067|Q13936-27|CACNA1C;nc|ENSG00000151067|Q13936-24|CACNA1C;nc|ENSG00000151067|Q13936-19|CACNA1C;nc|ENSG00000151067|Q13936-35|CACNA1C;nc|ENSG00000151067|Q13936-20|CACNA1C;nc|ENSG00000151067|Q13936-21|CACNA1C;nc|ENSG00000151067|Q13936-22|CACNA1C;nc|ENSG00000151067|Q13936-23|CACNA1C;nc|ENSG00000151067|Q13936-37|CACNA1C;nc|ENSG00000151067|Q13936-7|CACNA1C;nc|ENSG00000151067|Q13936-26|CACNA1C;nc|ENSG00000151067|Q13936-15|CACNA1C;nc|ENSG00000151067|Q13936-16|CACNA1C;nc|ENSG00000151067|Q13936-29|CACNA1C;nc|ENSG00000151067|Q13936-25|CACNA1C;nc|ENSG00000151067|Q13936-32|CACNA1C;CACNA1C|p.V939Ffs*12|1|0.13|ENSG00000151067|chr12:2597251-2597251|G/-|frameshift_variant nc|ENSG00000151067|Q13936-2|CACNA1C nc|ENSG00000151067|Q13936-2|CACNA1C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 827.945068359375 2 827.944924 1653.8753 NaN NaN NaN NaN NaN NaN NaN 76.887 1 77.511 77.011 78.011 0.62397 0 0 0 1.0082 1 37280 37280 0 0 1 12384 3689 7787 7809 14494 14494 0.07451339882391039 KFTKRFLLL 9 Unmodified _KFTKRFLLL_ 0 0 0 REV__ENST00000515330.5_1_4:113345070-113346839:+|nuORF REV__ENST00000515330.5_1_4:113345070-113346839:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.2549133300781 3 389.253376 1164.7383 2.6013 0.0010126 0.97618 0.00037998 3.5775 0.0013926 389.25364813232034 42.219 0.18646 42.219 42.068 42.255 0 48 18 3 0 0 0 1.1849 1 19190 19190 0.96228 0.18574 1 33494000 + 12385 17017 7788 7810 14495 14495 0.16252037950130216 KFVAKLNH 8 Unmodified _KFVAKLNH_ 0 0 0 REV__nc|ENSG00000184313|Q68CQ1-1|MROH7 REV__nc|ENSG00000184313|Q68CQ1-1|MROH7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 319.52825927734375 3 319.527388 955.560336 NaN NaN NaN NaN NaN NaN NaN 32.434 1 32.434 31.934 32.934 0 0 0 0 0.99035 1 14688 14688 0.45834 0 1 + 12386 13966 7789 7811 14496 14496 0.08077787750949028 KFVIIVLILLL 11 Unmodified _KFVIIVLILLL_ 0 0 0 REV__ENST00000556241.5_1_14:76088442-76101338:+|nuORF REV__ENST00000556241.5_1_14:76088442-76101338:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 642.4571533203125 2 642.456885 1282.89922 NaN NaN NaN NaN NaN NaN NaN 92.646 1 92.732 92.232 93.232 0.086212 0 0 0 1.0082 1 48345 48345 0 0 1 + 12387 11509 7790 7812 14497 14497 0.26908367543524037 KFVTVQATF 9 Unmodified _KFVTVQATF_ 0 0 0 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.7591552734375 2 520.792392 1039.57023 3.4042 0.0017729 0.33924 0.00017667 3.7435 0.0019496 520.7923480751143 52.467 0.16539 52.731 52.635 52.8 0.26344 12 6 2 0 0 0 0.030967 1 23961 23961 39.95 5.8473 1 629670 12388 2416 7791 7813 14498 14498 0.05202930965651831 KFVTVQATF 9 Unmodified _KFVTVQATF_ 0 0 0 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.7599487304688 2 520.792392 1039.57023 3.187 0.0016598 -0.35048 -0.00018253 2.8365 0.0014773 520.7921171704443 51.949 0.2303 52.611 52.501 52.731 0.66198 21 12 2 0 0 0 0.026234 1 23763 23763 43.772 14.691 1 412650 12389 2416 7791 7813 14499 14499 0.05202930965651831 KFYGSLPRLS 10 Unmodified _KFYGSLPRLS_ 0 0 0 REV__CT83|p.N55Tfs*15|1|0.03|ENSG00000204019|chrX:116461919-116461920|-/G|frameshift_variant REV__CT83|p.N55Tfs*15|1|0.03|ENSG00000204019|chrX:116461919-116461920|-/G|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 390.8901672363281 3 389.888874 1166.64479 2.665 0.0010391 -0.12123 -4.7267E-05 2.5438 0.0009918 389.8889747034514 56.487 0.73684 56.487 56.213 56.95 0 234 61 5 0 0 0 0.91298 1 26190 26190 3.0723 0.33707 1 247950000 + 12390 10115 7792 7814 14500 14500 0.06813693777030494 KFYLRIILGA 10 Unmodified _KFYLRIILGA_ 0 0 0 nc|ENSG00000168701|Q9BTX3-2|TMEM208;ENSG00000168701|ENST00000304800|TMEM208 nc|ENSG00000168701|Q9BTX3-2|TMEM208 nc|ENSG00000168701|Q9BTX3-2|TMEM208 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.58642578125 3 398.585015 1192.73321 2.9025 0.0011569 0.45239 0.00018032 3.3549 0.0013372 398.58526608964803 45.453 0.89455 45.721 45.231 46.125 0.26768 76 36 3 0 0 0 0.93503 1 20810 20810 1.9064 0.1641 1 3602800 12391 4646 7793 7815 14501 14501 0.14455734087528072 KFYTDPSYF 9 Unmodified _KFYTDPSYF_ 0 0 0 nc|ENSG00000132970|Q9UPY6-2|WASF3;ENSG00000132970|ENST00000335327|WASF3;nc|ENSG00000158195|Q9Y6W5-2|WASF2;ENSG00000158195|ENST00000618852|WASF2 nc|ENSG00000132970|Q9UPY6-2|WASF3 nc|ENSG00000132970|Q9UPY6-2|WASF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.2741088867188 2 584.27149 1166.52843 2.869 0.0016763 0.34966 0.0002043 3.2187 0.0018806 584.2716793106822 54.474 0.29882 55.269 55.061 55.36 0.79552 32 19 2 0 0 0 0.034495 2 24827 24827;24890 53.833 32.086 1 745880 12392 2740 7794 7816 14502;14503 14502 -0.0481766951352256 KFYTDPSYF 9 Unmodified _KFYTDPSYF_ 0 0 0 nc|ENSG00000132970|Q9UPY6-2|WASF3;ENSG00000132970|ENST00000335327|WASF3;nc|ENSG00000158195|Q9Y6W5-2|WASF2;ENSG00000158195|ENST00000618852|WASF2 nc|ENSG00000132970|Q9UPY6-2|WASF3 nc|ENSG00000132970|Q9UPY6-2|WASF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.2731323242188 2 584.27149 1166.52843 3.4974 0.0020434 0.65066 0.00038016 4.148 0.0024236 584.2715226706619 54.862 0.21725 55.529 55.428 55.645 0.6665 16 9 2 0 0 0 0.034495 1 25097 25097 53.833 32.086 1 500590 12393 2740 7794 7816 14504 14504 -0.0481766951352256 KFYTDPSYF 9 Unmodified _KFYTDPSYF_ 0 0 0 nc|ENSG00000132970|Q9UPY6-2|WASF3;ENSG00000132970|ENST00000335327|WASF3;nc|ENSG00000158195|Q9Y6W5-2|WASF2;ENSG00000158195|ENST00000618852|WASF2 nc|ENSG00000132970|Q9UPY6-2|WASF3 nc|ENSG00000132970|Q9UPY6-2|WASF3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 584.27149 1166.52843 3.4692 0.0020269 -0.46005 -0.0002688 3.0091 0.0017581 584.270965141304 55.637 0.15041 55.637 55.516 55.666 0 0.15853 -0.00084785 NaN 53.833 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 854920 12394 2740 7794 7816 -0.0481766951352256 KGAAVYFLF 9 Unmodified _KGAAVYFLF_ 0 0 0 ENST00000394464.6_1_5:142780416-142782924:-|nuORF ENST00000394464.6_1_5:142780416-142782924:-|nuORF ENST00000394464.6_1_5:142780416-142782924:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.2839660644531 2 508.284203 1014.55385 2.556 0.0012992 0.15333 7.7934E-05 2.7093 0.0013771 508.28412505805665 77.006 0.35606 77.629 77.451 77.807 0.62397 63 26 3 0 0 0 0.16976 1 37311 37311 25.399 2.9467 1 2030700 12395 7541 7795 7817 14505 14505 0.04715849799572425 KGAHTRRHYL 10 Unmodified _KGAHTRRHYL_ 0 0 0 REV__ENSG00000167625|ENST00000301215|ZNF526 REV__ENSG00000167625|ENST00000301215|ZNF526 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.89794921875 2 619.846887 1237.67922 NaN NaN NaN NaN NaN NaN NaN 35.589 1 35.589 35.089 36.089 0 0 0 0 0.99774 1 16148 16148 3.5965 0 1 + 12396 13295 7796 7818 14506 14506 0.06988954708526762 KGALIHSLIKW 11 Unmodified _KGALIHSLIKW_ 0 0 0 REV__ENST00000372080.6_1_9:135937408-135940032:+|nuORF REV__ENST00000372080.6_1_9:135937408-135940032:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.3886108398438 2 633.390065 1264.76558 NaN NaN NaN NaN NaN NaN NaN 88.814 1 88.866 88.366 89.366 0.052155 0 0 0 1.0055 1 45360 45360 7.1017 4.1065 1 + 12397 15747 7797 7819 14507 14507 0.14378521490493767 KGALKKVVGRV 11 Unmodified _KGALKKVVGRV_ 0 0 0 ENSG00000168124|ENST00000304646|OR1F1 ENSG00000168124|ENST00000304646|OR1F1 ENSG00000168124|ENST00000304646|OR1F1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.6975708007812 2 577.890232 1153.76591 NaN NaN NaN NaN NaN NaN NaN 78.059 1 78.62 78.12 79.12 0.56091 0 0 0 1.0041 1 37911 37911 5.2969 0.96765 1 12398 4608 7798 7820 14508 14508 0.1951794121034709 KGAVSRFLLLL 11 Unmodified _KGAVSRFLLLL_ 0 0 0 Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|110|1|anti-sense;Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|218|3|anti-sense;Harlequin-int_dup446|chr19:20426579-20429510:-|1.2092047156725605|0.0242048410209908|5.64|525.0|182|3|anti-sense Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|110|1|anti-sense Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|110|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 608.9833984375 2 608.892441 1215.77033 NaN NaN NaN NaN NaN NaN NaN 86.378 1 86.378 85.878 86.878 0 0 0 0 1.0061 1 44258 44258 2.7352 0 1 12399 9382 7799 7821 14509 14509 0.17107405633282724 KGCGCGCSCCT 11 Unmodified _KGCGCGCSCCT_ 0 0 0 REV__nc|ENSG00000284667|A0A286YF46|SCYGR5 REV__nc|ENSG00000284667|A0A286YF46|SCYGR5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 511.26226806640625 2 511.155051 1020.29555 NaN NaN NaN NaN NaN NaN NaN 69.066 1 69.768 69.268 70.268 0.70218 0 0 0 1.008 1 32999 32999 0.30703 0.30703 1 + 12400 18162 7800 7822 14510 14510 -0.21378780434793043 KGCGCGCSSC 10 Unmodified _KGCGCGCSSC_ 0 0 0 REV__nc|ENSG00000285843|P0DSO2|SCYGR9 REV__nc|ENSG00000285843|P0DSO2|SCYGR9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.6392822265625 2 452.642633 903.270714 NaN NaN NaN NaN NaN NaN NaN 76.787 1 77.042 76.542 77.542 0.25533 0 0 0 1.0015 1 35358 35358 0.40072 0.40072 1 + 12401 18168 7801 7823 14511 14511 -0.18479092245866013 KGCTFRFYYHM 11 Unmodified _KGCTFRFYYHM_ 0 0 0 ENSG00000204740|ENST00000454679|MALRD1 ENSG00000204740|ENST00000454679|MALRD1 ENSG00000204740|ENST00000454679|MALRD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 726.8319702148438 2 726.8312 1451.64785 NaN NaN NaN NaN NaN NaN NaN 66.563 1 67.267 66.767 67.767 0.7047 0 0 0 1.0072 1 31562 31562 1.3295 0 1 12402 6031 7802 7824 14512 14512 -0.0599112243212403 KGDADSFRL 9 Unmodified _KGDADSFRL_ 0 0 0 REV__ENSG00000187147|ENST00000361799|RNF220 REV__ENSG00000187147|ENST00000361799|RNF220 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.7572326660156 2 504.759081 1007.50361 NaN NaN NaN NaN NaN NaN NaN 12.261 1 12.523 12.023 13.023 0.26154 0 0 0 0.796 1 5266 5266 9.3831 0.78985 1 + 12403 14090 7803 7825 14513 14513 0.00015695403772042482 KGEDWELLYN 10 Unmodified _KGEDWELLYN_ 0 0 0 REV__nc|ENSG00000075420|Q53EP0-2|FNDC3B REV__nc|ENSG00000075420|Q53EP0-2|FNDC3B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.8641967773438 2 633.803685 1265.59282 NaN NaN NaN NaN NaN NaN NaN 84.803 1 84.803 84.303 85.303 0 0 0 0 0.99774 1 43021 43021 3.5965 0.31518 1 + 12404 10528 7804 7826 14514 14514 -0.029355144273722544 KGERILPSL 9 Unmodified _KGERILPSL_ 0 0 0 nc|ENSG00000102001|O60840-4|CACNA1F nc|ENSG00000102001|O60840-4|CACNA1F nc|ENSG00000102001|O60840-4|CACNA1F MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.81256103515625 2 506.811116 1011.60768 3.43 0.0017384 0.14486 7.3419E-05 3.5748 0.0018118 506.81117553214756 39.524 0.38023 40.161 39.971 40.352 0.63778 36 17 3 0 0 0 0.11458 1 18129 18129 29.082 1.4528 1 2579500 12405 9577 7805 7827 14515 14515 0.10234022231293238 KGERWWLLLGF 11 Unmodified _KGERWWLLLGF_ 0 0 0 REV__ENST00000537247.5_1_12:100987507-100987675:+|nuORF REV__ENST00000537247.5_1_12:100987507-100987675:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 702.8934326171875 2 702.892972 1403.77139 NaN NaN NaN NaN NaN NaN NaN 55.673 1 55.673 55.173 56.173 0 0 0 0 1.0072 1 25599 25599 1.3295 0 1 + 12406 17186 7806 7828 14516 14516 0.08565620002173091 KGESNQMNLD 10 Unmodified _KGESNQMNLD_ 0 0 0 nc|ENSG00000121481|Q99496-2|RNF2;ENSG00000121481|ENST00000367510|RNF2 nc|ENSG00000121481|Q99496-2|RNF2 nc|ENSG00000121481|Q99496-2|RNF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.1757507324219 3 379.173122 1134.49754 NaN NaN NaN NaN NaN NaN NaN 65.326 1 65.574 65.074 66.074 0.24803 0 0 0 0.99837 1 29928 29928 3.0723 0.57378 1 12407 2231 7807 7829 14517 14517 -0.06433190890061269 KGESNQMNLD 10 Unmodified _KGESNQMNLD_ 0 0 0 nc|ENSG00000121481|Q99496-2|RNF2;ENSG00000121481|ENST00000367510|RNF2 nc|ENSG00000121481|Q99496-2|RNF2 nc|ENSG00000121481|Q99496-2|RNF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.17498779296875 3 379.173122 1134.49754 NaN NaN NaN NaN NaN NaN NaN 75.848 1 76.105 75.605 76.605 0.25704 0 0 0 0.99837 1 34913 34913 3.0723 0.57378 1 12408 2231 7807 7829 14518 14518 -0.06433190890061269 KGFFLRIVEI 10 Unmodified _KGFFLRIVEI_ 0 0 0 REV__ENST00000541473.1_1_11:61160710-61161501:+|nuORF REV__ENST00000541473.1_1_11:61160710-61161501:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.3718872070312 2 611.371341 1220.72813 NaN NaN NaN NaN NaN NaN NaN 80.495 1 80.495 79.995 80.995 0 0 0 0 0.99774 1 39972 39972 3.5965 0 1 + 12409 17221 7808 7830 14519 14519 0.1265943022490319 KGFKHSIL 8 Unmodified _KGFKHSIL_ 0 0 0 REV__nc|ENSG00000241484|P85298-2|ARHGAP8 REV__nc|ENSG00000241484|P85298-2|ARHGAP8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 310.52447509765625 3 310.523755 928.549437 2.3264 0.00072239 0.67531 0.0002097 3.0017 0.00093209 310.5239173649919 13.009 0.21112 13.652 13.514 13.725 0.64272 16 6 4 0 0 0 0.66653 1 5858 5858 6.2058 0 1 560780 + 12410 14611 7809 7831 14520 14520 0.08230385376668892 KGFKHSIL 8 Unmodified _KGFKHSIL_ 0 0 0 REV__nc|ENSG00000241484|P85298-2|ARHGAP8 REV__nc|ENSG00000241484|P85298-2|ARHGAP8 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 310.523755 928.549437 1.9802 0.00061491 0.36051 0.00011195 2.3407 0.00072685 310.52384070736656 14.117 0.13706 14.117 14.038 14.176 0 0.27703 -0.00013392 NaN 6.2058 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 415840 + 12411 14611 7809 7831 0.08230385376668892 KGFKHSIL 8 Unmodified _KGFKHSIL_ 0 0 0 REV__nc|ENSG00000241484|P85298-2|ARHGAP8 REV__nc|ENSG00000241484|P85298-2|ARHGAP8 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 310.523755 928.549437 1.7945 0.00055724 0.49441 0.00015352 2.2889 0.00071076 310.52372730586774 13.444 0.27128 13.751 13.627 13.898 0.30727 -0.088659 -9.1863E-06 NaN 6.2058 43 21 3 NaN NaN NaN NaN 0 NaN NaN 0 340960 + 12412 14611 7809 7831 0.08230385376668892 KGFKHSIL 8 Unmodified _KGFKHSIL_ 0 0 0 REV__nc|ENSG00000241484|P85298-2|ARHGAP8 REV__nc|ENSG00000241484|P85298-2|ARHGAP8 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 310.523755 928.549437 2.3264 0.00072239 0.67531 0.0002097 3.0017 0.00093209 310.5239173649919 13.009 0.21112 13.652 13.514 13.725 0.64272 -0.18837 0.00015933 NaN 6.2058 16 6 4 NaN NaN NaN NaN 0 NaN NaN 0 560780 + 12413 14611 7809 7831 0.08230385376668892 KGFRGGGG 8 Unmodified _KGFRGGGG_ 0 0 0 ENSG00000130305|ENST00000438747|NSUN5;nc|ENSG00000130305|Q96P11-3|NSUN5;ENST00000471461.5_1_7:72717735-72721871:-|nuORF;nc|ENSG00000130305|Q96P11|NSUN5;nc|ENSG00000130305|Q96P11-4|NSUN5 ENSG00000130305|ENST00000438747|NSUN5 ENSG00000130305|ENST00000438747|NSUN5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 735.6400756835938 1 735.389648 734.382371 3.3886 0.002492 3.924 0.0028857 7.3126 0.0053776 735.3947707799326 57.703 0.055077 58.471 58.435 58.49 0.76861 6 5 2 0 0 0 0.14267 1 26437 26437 0 0 1 784740 12414 2585 7810 7832 14521 14521 0.004555375517725224 KGGAGRRP 8 Unmodified _KGGAGRRP_ 0 0 0 REV__ENST00000530316.5_3_11:57194174-57194590:-|nuORF REV__ENST00000530316.5_3_11:57194174-57194590:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.7392883300781 2 399.738286 797.462019 3.5925 0.0014361 -0.023206 -9.2762E-06 3.5693 0.0014268 399.7380416140691 93.372 0.75128 93.627 93.217 93.968 0.25497 94 36 3 0 0 0 0.7441 2 42972 42972;43025 2.3027 0 1 2881500 + 12415 17133 7811 7833 14522;14523 14522 0.05518604225744639 KGGAGRRP 8 Unmodified _KGGAGRRP_ 0 0 0 REV__ENST00000530316.5_3_11:57194174-57194590:-|nuORF REV__ENST00000530316.5_3_11:57194174-57194590:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.73956298828125 2 399.738286 797.462019 3.1161 0.0012456 -0.08621 -3.4461E-05 3.0299 0.0012112 399.73807470772323 93.308 0.70889 93.939 93.564 94.273 0.63115 83 33 3 0 0 0 0.7441 2 42986 42986;43043 2.3027 0 1 3282600 + 12416 17133 7811 7833 14524;14525 14524 0.05518604225744639 KGGAKRHR 8 Unmodified _KGGAKRHR_ 0 0 0 ENSG00000278705|ENST00000377745|H4C2;ENSG00000278637|ENST00000617569|H4C1;ENSG00000277157|ENST00000614247|H4C4;ENSG00000276966|ENST00000615164|H4C5;ENSG00000276180|ENST00000615353|H4C9;ENSG00000275126|ENST00000618305|H4C13;ENSG00000274618|ENST00000244537|H4C6;ENSG00000273542|ENST00000611927|H4C12;ENSG00000270882|ENST00000578186|H4C14;ENSG00000270276|ENST00000579512|H4C15;ENSG00000197837|ENST00000539745|H4C16;ENSG00000197238|ENST00000355057|H4C11;ENSG00000197061|ENST00000377803|H4C3;ENSG00000158406|ENST00000377727|H4C8 ENSG00000278705|ENST00000377745|H4C2 ENSG00000278705|ENST00000377745|H4C2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 455.27728271484375 2 455.278109 908.541666 NaN NaN NaN NaN NaN NaN NaN 66.147 1 66.851 66.351 67.351 0.7047 0 0 0 0.99035 1 31336 31336 2.3027 1.5091 1 12417 3984 7812 7834 14526 14526 0.08373670899743502 KGGCGACR 8 Unmodified _KGGCGACR_ 0 0 0 REV__ENSG00000143013|ENST00000370544|LMO4 REV__ENSG00000143013|ENST00000370544|LMO4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.1711120605469 2 376.170533 750.326513 2.8338 0.001066 -1.1137 -0.00041895 1.7201 0.00064705 376.17018094480676 49.303 0.54133 49.564 49.298 49.839 0.26146 42 19 3 0 0 0 0.7441 1 22596 22596 2.3027 1.5091 1 1456800 + 12418 12350 7813 7835 14527 14527 -0.058637549517243315 KGGCGSSCCV 10 Unmodified _KGGCGSSCCV_ 0 0 0 ENSG00000196224|ENST00000399685|KRTAP5-3 ENSG00000196224|ENST00000399685|KRTAP5-3 ENSG00000196224|ENST00000399685|KRTAP5-3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.47509765625 2 450.672248 899.329943 NaN NaN NaN NaN NaN NaN NaN 67.511 1 68.213 67.713 68.713 0.70218 0 0 0 0.99464 1 32112 32112 6.2058 0.97511 1 12419 5727 7814 7836 14528 14528 -0.12374872960037919 KGGCVSQW 8 Unmodified _KGGCVSQW_ 0 0 0 nc|ENSG00000125851|P16519-2|PCSK2;ENSG00000125851|ENST00000262545|PCSK2 nc|ENSG00000125851|P16519-2|PCSK2 nc|ENSG00000125851|P16519-2|PCSK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 432.7052001953125 2 432.705263 863.395972 2.8216 0.0012209 -0.61604 -0.00026656 2.2056 0.00095437 432.70419473686866 83.012 0.34487 83.259 83.072 83.417 0.24722 40 18 3 0 0 0 0.7441 1 38256 38256 2.3027 0.24298 1 1727700 12420 2429 7815 7837 14529 14529 -0.04118972731316717 KGGDRRGG 8 Unmodified _KGGDRRGG_ 0 0 0 REV__ENST00000264313.10_1_4:48343457-48343565:+|nuORF REV__ENST00000264313.10_1_4:48343457-48343565:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 401.62847900390625 2 401.71755 801.420548 NaN NaN NaN NaN NaN NaN NaN 62.87 1 63.12 62.62 63.62 0.24965 0 0 0 0.99035 1 28791 28791 2.3027 0 1 + 12421 15016 7816 7838 14530 14530 0.011894234664282521 KGGELGQCWFG 11 Unmodified _KGGELGQCWFG_ 0 0 0 REV__ENST00000603027.5_2_10:75562299-75563341:-|nuORF REV__ENST00000603027.5_2_10:75562299-75563341:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.51861572265625 3 394.518453 1180.53353 NaN NaN NaN NaN NaN NaN NaN 37.726 1 38.521 38.021 39.021 0.79552 0 0 0 1.0072 1 17093 17093 0.45452 0 1 + 12422 13244 7817 7839 14531 14531 -0.04951688922574249 KGGGGKFRRQ 10 Unmodified _KGGGGKFRRQ_ 0 0 0 REV__ENST00000573759.1_1_17:5389898-5392165:+|nuORF REV__ENST00000573759.1_1_17:5389898-5392165:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.2261047363281 3 364.212463 1089.61556 NaN NaN NaN NaN NaN NaN NaN 86.114 1 86.785 86.285 87.285 0.67061 0 0 0 0.99837 1 39656 39656 3.0723 1.228 1 + 12423 17462 7818 7840 14532 14532 0.07433594271424226 KGGGKGIL 8 Unmodified _KGGGKGIL_ 0 0 0 REV__nc|ENSG00000115677|Q00341-2|HDLBP REV__nc|ENSG00000115677|Q00341-2|HDLBP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.68963623046875 2 365.234513 728.454474 NaN NaN NaN NaN NaN NaN NaN 72.259 1 72.923 72.423 73.423 0.66324 0 0 0 0.99035 1 33135 33135 2.3027 0 1 + 12424 11380 7819 7841 14533 14533 0.07938451905465627 KGGGKGVT 8 Unmodified _KGGGKGVT_ 0 0 0 ENSG00000184867|ENST00000356824|ARMCX2 ENSG00000184867|ENST00000356824|ARMCX2 ENSG00000184867|ENST00000356824|ARMCX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.54180908203125 2 352.208495 702.402438 NaN NaN NaN NaN NaN NaN NaN 54.051 1 54.718 54.218 55.218 0.6665 0 0 0 0.99035 1 24722 24722 2.3027 1.6124 1 12425 5465 7820 7842 14534 14534 0.03933288491703024 KGGGRRTK 8 Unmodified _KGGGRRTK_ 0 0 0 REV__ENST00000599698.5_1_19:8555075-8555625:-|nuORF REV__ENST00000599698.5_1_19:8555075-8555625:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.2659912109375 2 430.264668 858.514782 2.9205 0.0012566 0.2558 0.00011006 3.1763 0.0013666 430.2648175566514 84.42 0.32294 84.668 84.496 84.819 0.24758 38 20 3 0 0 0 0.7471 1 38838 38838 0.69038 0 1 793650 + 12426 11929 7821 7843 14535 14535 0.07986562288556343 KGGGRRTK 8 Unmodified _KGGGRRTK_ 0 0 0 REV__ENST00000599698.5_1_19:8555075-8555625:-|nuORF REV__ENST00000599698.5_1_19:8555075-8555625:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.2663879394531 2 430.264668 858.514782 3.178 0.0013674 0.19925 8.5731E-05 3.3772 0.0014531 430.2646682246854 84.059 0.27753 84.721 84.595 84.872 0.66219 22 14 2 0 0 0 0.7471 1 38781 38781 0.69038 0 1 1351400 + 12427 11929 7821 7843 14536 14536 0.07986562288556343 KGGHLKKV 8 Unmodified _KGGHLKKV_ 0 0 0 PRPF39|p.H311Qfs*28|1|0.25|ENSG00000185246|chr14:45108443-45108464|ATAGAATCATTGAGATTCATCA/-|frameshift_variant PRPF39|p.H311Qfs*28|1|0.25|ENSG00000185246|chr14:45108443-45108464|ATAGAATCATTGAGATTCATCA/-|frameshift_variant PRPF39|p.H311Qfs*28|1|0.25|ENSG00000185246|chr14:45108443-45108464|ATAGAATCATTGAGATTCATCA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 433.78173828125 2 433.782162 865.549771 3.0396 0.0013185 -1.6576 -0.00071904 1.3819 0.00059946 433.78101489418566 48.54 0.55614 48.802 48.616 49.172 0.26209 37 28 2 0 0 0 0.7441 1 22259 22259 2.3027 1.6124 1 751520 12428 9912 7822 7844 14537 14537 0.11161805096503485 KGGHSAAP 8 Unmodified _KGGHSAAP_ 0 0 0 REV__ENST00000509198.1_1_4:3521942-3534139:-|nuORF REV__ENST00000509198.1_1_4:3521942-3534139:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.7026672363281 2 362.69047 723.366387 NaN NaN NaN NaN NaN NaN NaN 76.378 1 76.635 76.135 77.135 0.25704 0 0 0 0.99035 1 35164 35164 5.2307 0 1 + 12429 13046 7823 7845 14538 14538 -0.00636168685150551 KGGKKMKH 8 Unmodified _KGGKKMKH_ 0 0 0 REV__L1MEd_dup15098|chr11:58701671-58702207:-|2.301336854408765|0.2365330646104148|3.28|511.0|7|2|sense REV__L1MEd_dup15098|chr11:58701671-58702207:-|2.301336854408765|0.2365330646104148|3.28|511.0|7|2|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.1005859375 3 305.184857 912.532741 2.0526 0.00062643 -1.136 -0.0003467 0.91657 0.00027972 305.18454187272226 54.249 0.38876 54.514 54.312 54.7 0.26462 30 18 2 0 0 0 0.14313 1 24758 24758 0.40072 0.40072 1 429680 + 12430 17772 7824 7846 14539 14539 0.07297561219058935 KGGKKMKH 8 Unmodified _KGGKKMKH_ 0 0 0 REV__L1MEd_dup15098|chr11:58701671-58702207:-|2.301336854408765|0.2365330646104148|3.28|511.0|7|2|sense REV__L1MEd_dup15098|chr11:58701671-58702207:-|2.301336854408765|0.2365330646104148|3.28|511.0|7|2|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 305.184857 912.532741 1.9689 0.00060088 -1.26 -0.00038453 0.70893 0.00021635 305.1844789964629 53.59 0.29993 54.254 54.101 54.401 0.6644 -0.12979 -3.5016E-05 NaN 0.40072 28 16 2 NaN NaN NaN NaN 0 NaN NaN 0 602850 + 12431 17772 7824 7846 0.07297561219058935 KGGKKRKKQ 9 Unmodified _KGGKKRKKQ_ 0 0 0 nc|ENSG00000022840|Q8N5U6-2|RNF10;ENSG00000022840|ENST00000325954|RNF10;ENST00000542701.1_1_12:121013426-121014466:+|nuORF nc|ENSG00000022840|Q8N5U6-2|RNF10 nc|ENSG00000022840|Q8N5U6-2|RNF10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.241943359375 2 529.351274 1056.688 NaN NaN NaN NaN NaN NaN NaN 57.778 1 57.778 57.278 58.278 0 0 0 0 0.89683 1 26642 26642 4.3292 1.7518 1 12432 465 7825 7847 14540 14540 0.16191928344983353 KGGKNIKA 8 Unmodified _KGGKNIKA_ 0 0 0 nc|ENSG00000165119|P61978-3|HNRNPK;nc|ENSG00000165119|P61978|HNRNPK;ENSG00000165119|ENST00000376263|HNRNPK;ENST00000483135.1_1_9:86591819-86593167:-|nuORF;ENST00000485383.1_1_3:96068520-96068997:+|nuORF nc|ENSG00000165119|P61978-3|HNRNPK nc|ENSG00000165119|P61978-3|HNRNPK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 408.2574462890625 2 408.25852 814.502486 NaN NaN NaN NaN NaN NaN NaN 68.886 1 69.545 69.045 70.045 0.65924 0 0 0 0.99035 1 31577 31577 2.3027 0 1 12433 4374 7826 7848 14541 14541 0.08781525825509107 KGGKQTPW 8 Unmodified _KGGKQTPW_ 0 0 0 REV__ENST00000354772.8_3_14:23815786-23815840:-|nuORF REV__ENST00000354772.8_3_14:23815786-23815840:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.274658203125 2 451.248152 900.481751 NaN NaN NaN NaN NaN NaN NaN 67.153 1 67.855 67.355 68.355 0.70218 0 0 0 0.95658 1 31879 31879 8.5933 0.68312 1 + 12434 15534 7827 7849 14542 14542 0.027529354458465605 KGGLLSGS 8 Unmodified _KGGLLSGS_ 0 0 0 REV__nc|ENSG00000211652|P04211|IGLV7-43 REV__nc|ENSG00000211652|P04211|IGLV7-43 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.4835510253906 2 359.708328 717.402104 NaN NaN NaN NaN NaN NaN NaN 50.347 1 50.347 49.847 50.847 0 0 0 0 0.99035 1 23050 23050 0.69038 0 1 + 12435 18119 7828 7850 14543 14543 0.032098687718644214 KGGNRPVP 8 Unmodified _KGGNRPVP_ 0 0 0 REV__ENSG00000158859|ENST00000367996|ADAMTS4 REV__ENSG00000158859|ENST00000367996|ADAMTS4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 824.716064453125 1 824.473712 823.466435 3.3305 0.0027459 -0.69333 -0.00057163 2.6372 0.0021743 824.473085640379 93.525 0.080986 93.525 93.467 93.548 0 12 9 2 0 0 0 0.13917 1 49919 49919 2.3027 0.4585 1 13871000 + 12436 12833 7829 7851 14544 14544 0.047640686486602135 KGGRRLPS 8 Unmodified _KGGRRLPS_ 0 0 0 ENST00000432511.1_1_1:203273721-203274369:-|nuORF;ENST00000457348.5_1_1:203273991-203274369:-|nuORF ENST00000432511.1_1_1:203273721-203274369:-|nuORF ENST00000432511.1_1_1:203273721-203274369:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.768310546875 2 435.767043 869.519533 NaN NaN NaN NaN NaN NaN NaN 82.679 1 83.339 82.839 83.839 0.66019 0 0 0 0.99035 1 38095 38095 2.0598 0 1 12437 7861 7830 7852 14545 14545 0.07955446431321889 KGGSLPLP 8 Unmodified _KGGSLPLP_ 0 0 0 REV__DENND4A|p.L560Ffs*9|1|0.16|ENSG00000174485|chr15:65717887-65717905|AAATGCCTCTTGGATTTCC/-|frameshift_variant REV__DENND4A|p.L560Ffs*9|1|0.16|ENSG00000174485|chr15:65717887-65717905|AAATGCCTCTTGGATTTCC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 384.7367248535156 2 384.734346 767.454139 NaN NaN NaN NaN NaN NaN NaN 54.545 1 55.341 54.841 55.841 0.79552 0 0 0 0.99035 1 24888 24888 2.3027 0 1 + 12438 10124 7831 7853 14546 14546 0.06111032185606291 KGGSLPLP 8 Unmodified _KGGSLPLP_ 0 0 0 REV__DENND4A|p.L560Ffs*9|1|0.16|ENSG00000174485|chr15:65717887-65717905|AAATGCCTCTTGGATTTCC/-|frameshift_variant REV__DENND4A|p.L560Ffs*9|1|0.16|ENSG00000174485|chr15:65717887-65717905|AAATGCCTCTTGGATTTCC/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 385.1540832519531 2 384.734346 767.454139 2.9885 0.0011498 2.7304 0.0010505 5.719 0.0022003 384.73602197449196 69.468 0.1566 69.722 69.609 69.766 0.25443 18 11 2 0 0 0 0.14282 1 31783 31783 0.6015 0 1 297100 + 12439 10124 7831 7853 14547 14547 0.06111032185606291 KGGSLPLP 8 Unmodified _KGGSLPLP_ 0 0 0 REV__DENND4A|p.L560Ffs*9|1|0.16|ENSG00000174485|chr15:65717887-65717905|AAATGCCTCTTGGATTTCC/-|frameshift_variant REV__DENND4A|p.L560Ffs*9|1|0.16|ENSG00000174485|chr15:65717887-65717905|AAATGCCTCTTGGATTTCC/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 385.1536560058594 2 384.734346 767.454139 2.7417 0.0010548 1.8729 0.00072056 4.6146 0.0017754 384.7355767131516 67.431 0.79757 68.088 67.756 68.554 0.65777 66 48 2 0 0 0 0.14282 1 30966 30966 2.3027 0 1 474330 + 12440 10124 7831 7853 14548 14548 0.06111032185606291 KGGSLPLP 8 Unmodified _KGGSLPLP_ 0 0 0 REV__DENND4A|p.L560Ffs*9|1|0.16|ENSG00000174485|chr15:65717887-65717905|AAATGCCTCTTGGATTTCC/-|frameshift_variant REV__DENND4A|p.L560Ffs*9|1|0.16|ENSG00000174485|chr15:65717887-65717905|AAATGCCTCTTGGATTTCC/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 384.734346 767.454139 3.0919 0.0011896 1.7965 0.00069117 4.8884 0.0018807 384.7358045790692 67.721 0.61697 67.973 67.705 68.322 0.25227 -0.057536 -3.5205E-05 NaN 2.3027 55 38 2 NaN NaN NaN NaN 0 NaN NaN 0 343700 + 12441 10124 7831 7853 0.06111032185606291 KGGSLPLP 8 Unmodified _KGGSLPLP_ 0 0 0 REV__DENND4A|p.L560Ffs*9|1|0.16|ENSG00000174485|chr15:65717887-65717905|AAATGCCTCTTGGATTTCC/-|frameshift_variant REV__DENND4A|p.L560Ffs*9|1|0.16|ENSG00000174485|chr15:65717887-65717905|AAATGCCTCTTGGATTTCC/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 384.734346 767.454139 2.4877 0.00095712 2.3756 0.00091399 4.8634 0.0018711 384.73577245432193 69.343 0.76348 70.004 69.573 70.336 0.66071 0.14095 -5.1324E-05 NaN 0.6015 72 55 2 NaN NaN NaN NaN 0 NaN NaN 0 380670 + 12442 10124 7831 7853 0.06111032185606291 KGGSSKRR 8 Unmodified _KGGSSKRR_ 0 0 0 REV__ENST00000487245.5_1_6:31236948-31239147:-|nuORF REV__ENST00000487245.5_1_6:31236948-31239147:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.9283447265625 2 438.262125 874.509697 NaN NaN NaN NaN NaN NaN NaN 39.842 1 40.483 39.983 40.983 0.64136 0 0 0 0.99035 1 18210 18210 4.756 0 1 + 12443 14423 7832 7854 14549 14549 0.06742258425947512 KGGSVGLG 8 Unmodified _KGGSVGLG_ 0 0 0 ENST00000449997.1_1_7:44097442-44098349:+|nuORF ENST00000449997.1_1_7:44097442-44098349:+|nuORF ENST00000449997.1_1_7:44097442-44098349:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.6972351074219 2 337.695221 673.375889 NaN NaN NaN NaN NaN NaN NaN 43.93 1 44.199 43.699 44.699 0.2694 0 0 0 0.99035 1 20071 20071 2.0598 0 1 12444 8004 7833 7855 14550 14550 0.026135996003858963 KGGSVGLG 8 Unmodified _KGGSVGLG_ 0 0 0 ENST00000449997.1_1_7:44097442-44098349:+|nuORF ENST00000449997.1_1_7:44097442-44098349:+|nuORF ENST00000449997.1_1_7:44097442-44098349:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.69757080078125 2 337.695221 673.375889 NaN NaN NaN NaN NaN NaN NaN 46.893 1 47.156 46.656 47.656 0.26363 0 0 0 0.99035 1 21432 21432 2.0598 0 1 12445 8004 7833 7855 14551 14551 0.026135996003858963 KGGTGAGG 8 Unmodified _KGGTGAGG_ 0 0 0 ENST00000337478.2_1_10:106075471-106098072:-|nuORF ENST00000337478.2_1_10:106075471-106098072:-|nuORF ENST00000337478.2_1_10:106075471-106098072:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 302.6568298339844 2 302.656096 603.297639 NaN NaN NaN NaN NaN NaN NaN 52.848 1 53.651 53.151 54.151 0.80351 0 0 0 0.99035 1 24083 24083 0.69038 0 1 12446 7040 7834 7856 14552 14552 -0.019878329848552312 KGGTYPRRYH 10 Unmodified _KGGTYPRRYH_ 0 0 0 ENSG00000198909|ENST00000361733|MAP3K3;nc|ENSG00000198909|Q99759-2|MAP3K3;ENST00000577784.1_1_17:61765908-61766726:+|nuORF;ENST00000577839.1_1_17:61766126-61767181:+|nuORF;MAP3K2|p.S505Afs*14|1|0.41|ENSG00000169967|chr2:127308707-127308707|G/-|frameshift_variant;ENSG00000169967|ENST00000682094|MAP3K2 ENSG00000198909|ENST00000361733|MAP3K3 ENSG00000198909|ENST00000361733|MAP3K3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 618.1505126953125 2 617.825621 1233.63669 NaN NaN NaN NaN NaN NaN NaN 60.103 1 60.852 60.352 61.352 0.74927 0 0 0 0.99225 1 27662 27662 6.7232 0 1 12447 5960 7835 7857 14553 14553 0.029215595802725147 KGGVGRVR 8 Unmodified _KGGVGRVR_ 0 0 0 ENST00000575842.5_1_17:79479547-79479733:-|nuORF ENST00000575842.5_1_17:79479547-79479733:-|nuORF ENST00000575842.5_1_17:79479547-79479733:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.76312255859375 2 414.761761 827.508969 3.5857 0.0014872 0.28456 0.00011803 3.8702 0.0016052 414.76163713637897 93.999 0.56911 94.259 93.959 94.528 0.25975 60 27 3 0 0 0 0.7471 1 43182 43182 0.69038 0 1 855870 12448 9122 7836 7858 14554 14554 0.08831463776891724 KGGVGRVR 8 Unmodified _KGGVGRVR_ 0 0 0 ENST00000575842.5_1_17:79479547-79479733:-|nuORF ENST00000575842.5_1_17:79479547-79479733:-|nuORF ENST00000575842.5_1_17:79479547-79479733:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.7637634277344 2 414.761761 827.508969 3.1112 0.0012904 -0.0859 -3.5628E-05 3.0253 0.0012548 414.7616990757853 82.685 0.80868 83.345 82.965 83.773 0.66019 144 46 5 0 0 0 0.7471 1 38228 38228 0.69038 0 1 48409000 12449 9122 7836 7858 14555 14555 0.08831463776891724 KGGVGRVR 8 Unmodified _KGGVGRVR_ 0 0 0 ENST00000575842.5_1_17:79479547-79479733:-|nuORF ENST00000575842.5_1_17:79479547-79479733:-|nuORF ENST00000575842.5_1_17:79479547-79479733:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.7632141113281 2 414.761761 827.508969 3.1795 0.0013188 0.23176 9.6126E-05 3.4113 0.0014149 414.76168675998247 93.847 0.78346 94.478 94.212 94.995 0.63115 74 39 3 0 0 0 0.7471 2 43178 43178;43259 0.69038 0 1 903410 12450 9122 7836 7858 14556;14557 14556 0.08831463776891724 KGGVRFIH 8 Unmodified _KGGVRFIH_ 0 0 0 REV__ENST00000416734.1_1_7:121080890-121081274:-|nuORF REV__ENST00000416734.1_1_7:121080890-121081274:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 305.18450927734375 3 305.183733 912.52937 2.1574 0.0006584 1.4863 0.00045359 3.6437 0.001112 305.18409202534565 44.276 0.32361 45.097 44.887 45.21 0.82075 38 17 3 0 0 0 0.74071 1 20129 20129 1.6526 0 1 674910 + 12451 16136 7837 7859 14558 14558 0.06960634436711644 KGGVRFIH 8 Unmodified _KGGVRFIH_ 0 0 0 REV__ENST00000416734.1_1_7:121080890-121081274:-|nuORF REV__ENST00000416734.1_1_7:121080890-121081274:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 305.183733 912.52937 1.8359 0.00056027 2.0935 0.00063891 3.9294 0.0011992 305.18434497561225 45.289 0.23037 45.289 45.172 45.403 0 0.07806 0.00023222 NaN 1.6526 25 13 2 NaN NaN NaN NaN 0 NaN NaN 0 977640 + 12452 16136 7837 7859 0.06960634436711644 KGGVRFIH 8 Unmodified _KGGVRFIH_ 0 0 0 REV__ENST00000416734.1_1_7:121080890-121081274:-|nuORF REV__ENST00000416734.1_1_7:121080890-121081274:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 305.183733 912.52937 2.0422 0.00062323 1.7169 0.00052399 3.7591 0.0011472 305.1842084636861 44.841 0.27523 45.109 44.98 45.255 0.26768 -0.10213 -0.00011255 NaN 1.6526 37 16 3 NaN NaN NaN NaN 0 NaN NaN 0 2267300 + 12453 16136 7837 7859 0.06960634436711644 KGGVSIAG 8 Unmodified _KGGVSIAG_ 0 0 0 ENSG00000085788|ENST00000397166|DDHD2;ENST00000531344.1_1_8:38099790-38103488:+|nuORF ENSG00000085788|ENST00000397166|DDHD2 ENSG00000085788|ENST00000397166|DDHD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.705078125 2 344.703046 687.391539 NaN NaN NaN NaN NaN NaN NaN 55.025 1 55.29 54.79 55.79 0.26543 0 0 0 0.99035 1 25153 25153 0.69038 0 1 12454 975 7838 7860 14559 14559 0.035338861174295744 KGGVSKAV 8 Unmodified _KGGVSKAV_ 0 0 0 REV__ENST00000356387.6_1_7:102087640-102088213:+|nuORF REV__ENST00000356387.6_1_7:102087640-102088213:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.2138977050781 2 373.231971 744.449388 2.5656 0.00095757 2.652 0.00098982 5.2177 0.0019474 373.23254501617976 77.019 0.045624 77.275 77.237 77.283 0.25533 7 5 2 0 0 0 0.14337 1 35453 35453 0.69038 0 1 195000 + 12455 15555 7839 7861 14560 14560 0.06694148042856796 KGGVVSSG 8 Unmodified _KGGVVSSG_ 0 0 0 ENST00000409858.7_1_9:139977361-139977631:+|nuORF ENST00000409858.7_1_9:139977361-139977631:+|nuORF ENST00000409858.7_1_9:139977361-139977631:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 345.69482421875 2 345.692678 689.370804 NaN NaN NaN NaN NaN NaN NaN 39.357 1 40.155 39.655 40.655 0.79762 0 0 0 0.99035 1 17819 17819 0.69038 0 1 12456 7666 7840 7862 14561 14561 0.013692957377770654 KGGWPGSR 8 Unmodified _KGGWPGSR_ 0 0 0 ENSG00000133454|ENST00000335473|MYO18B;nc|ENSG00000133454|Q8IUG5-3|MYO18B ENSG00000133454|ENST00000335473|MYO18B ENSG00000133454|ENST00000335473|MYO18B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.7274169921875 2 422.724844 843.435135 NaN NaN NaN NaN NaN NaN NaN 57.643 1 57.907 57.407 58.407 0.26444 0 0 0 0.99035 1 26389 26389 2.0598 0 1 12457 2763 7841 7863 14562 14562 0.007154956145654978 KGHPETLEKFD 11 Unmodified _KGHPETLEKFD_ 0 0 0 ENSG00000198125|ENST00000397326|MB ENSG00000198125|ENST00000397326|MB ENSG00000198125|ENST00000397326|MB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 650.83251953125 2 650.830234 1299.64592 NaN NaN NaN NaN NaN NaN NaN 55.84 1 56.105 55.605 56.605 0.26543 0 0 0 0.99571 1 25539 25539 7.1017 0.89594 1 12458 5868 7842 7864 14563 14563 0.008078633552713654 KGHRNRWSIWR 11 Unmodified _KGHRNRWSIWR_ 0 0 0 REV__ENSG00000162733|ENST00000367921|DDR2 REV__ENSG00000162733|ENST00000367921|DDR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 748.4083251953125 2 748.410718 1494.80688 NaN NaN NaN NaN NaN NaN NaN 78.408 1 78.408 77.908 78.908 0 0 0 0 1.0059 1 38532 38532 2.9952 1.6657 1 + 12459 12955 7843 7865 14564 14564 0.07927095302534326 KGIFMRLQRSI 11 Unmodified _KGIFMRLQRSI_ 0 0 0 ENST00000515885.5_1_5:87966879-87968501:-|nuORF ENST00000515885.5_1_5:87966879-87968501:-|nuORF ENST00000515885.5_1_5:87966879-87968501:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 674.8984375 2 674.897731 1347.78091 NaN NaN NaN NaN NaN NaN NaN 77.349 1 77.349 76.849 77.849 0 0 0 0 1.0041 1 37931 37931 5.2969 2.3016 1 12460 8601 7844 7866 14565 14565 0.12093065016051696 KGIPLLLHI 9 Unmodified _KGIPLLLHI_ 0 0 0 REV__ENST00000436656.5_1_1:173834433-173834484:-|nuORF REV__ENST00000436656.5_1_1:173834433-173834484:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.3375549316406 2 502.33677 1002.65899 NaN NaN NaN NaN NaN NaN NaN 70.985 1 70.985 70.485 71.485 0 0 0 0 0.89509 1 34489 34489 4.756 2.1785 1 + 12461 16309 7845 7867 14566 14566 0.1577639099600674 KGIWISHK 8 Unmodified _KGIWISHK_ 0 0 0 REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|36|3|sense REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|36|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.5287780761719 3 323.527388 967.560336 NaN NaN NaN NaN NaN NaN NaN 44.814 1 45.081 44.581 45.581 0.26768 0 0 0 0.99035 1 20483 20483 3.2813 1.6287 1 + 12462 17801 7846 7868 14567 14567 0.07525787750944346 KGIWISHK 8 Unmodified _KGIWISHK_ 0 0 0 REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|36|3|sense REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|36|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.7897644042969 2 484.787444 967.560336 3.3094 0.0016044 0.98958 0.00047974 4.299 0.0020841 484.78794166653347 36.266 0.40977 36.893 36.695 37.105 0.62631 37 12 4 0 0 0 0.72385 1 16686 16686 3.9444 1.3669 1 3273500 + 12463 17801 7846 7868 14568 14568 0.07525787750944346 KGIWISHK 8 Unmodified _KGIWISHK_ 0 0 0 REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|36|3|sense REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|36|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.7898864746094 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 52.362 1 53.024 52.524 53.524 0.66198 0 0 0 0.99035 1 23941 23941 3.9444 1.3669 1 + 12464 17801 7846 7868 14569 14569 0.07525787750944346 KGIWMWCVPHL 11 Unmodified _KGIWMWCVPHL_ 0 0 0 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.3460693359375 2 685.349028 1368.6835 NaN NaN NaN NaN NaN NaN NaN 73.785 1 73.785 73.285 74.285 0 0 0 0 1.0041 1 36000 36000 5.2969 2.3016 1 12465 4154 7847 7869 14570 14570 0.013909598155578351 KGKARAQA 8 Unmodified _KGKARAQA_ 0 0 0 REV__ENSG00000151655|ENST00000358415|ITIH2 REV__ENSG00000151655|ENST00000358415|ITIH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 415.26629638671875 2 415.253769 828.492984 NaN NaN NaN NaN NaN NaN NaN 66.617 1 66.617 66.117 67.117 0 0 0 0 0.95658 1 31857 31857 8.5933 0 1 + + 12466 10105 7848 7870 14571 14571 0.07187757539975337 KGKFRKSRLKL 11 Unmodified _KGKFRKSRLKL_ 0 0 0 ENSG00000006432|ENST00000554752|MAP3K9;nc|ENSG00000006432|P80192-4|MAP3K9 ENSG00000006432|ENST00000554752|MAP3K9 ENSG00000006432|ENST00000554752|MAP3K9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 680.9466552734375 2 680.948613 1359.88267 NaN NaN NaN NaN NaN NaN NaN 81.867 1 81.867 81.367 82.367 0 0 0 0 1.0079 1 40822 40822 1.1933 0 1 12467 346 7849 7871 14572 14572 0.21712679430106618 KGKGRKKK 8 Unmodified _KGKGRKKK_ 0 0 0 REV__nc|ENSG00000166578|Q96DY2-2|IQCD REV__nc|ENSG00000166578|Q96DY2-2|IQCD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.3237609863281 2 465.321986 928.629418 3.5503 0.001652 -0.37722 -0.00017553 3.1731 0.0014765 465.3216927680584 102.99 0.26554 103.31 103.16 103.42 0.31863 14 9 2 0 0 0 0.7471 1 47627 47627 0 0 1 244120 + 12468 13248 7850 7872 14573 14573 0.1622487177049834 KGKIKRRKNKR 11 Unmodified _KGKIKRRKNKR_ 0 0 0 REV__nc|ENSG00000103994|Q9H2Y7-2|ZNF106 REV__nc|ENSG00000103994|Q9H2Y7-2|ZNF106 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 706.4745483398438 2 706.47586 1410.93717 NaN NaN NaN NaN NaN NaN NaN 72.931 1 73.63 73.13 74.13 0.69881 0 0 0 1.0072 1 35139 35139 1.3295 0 1 + 12469 10981 7851 7873 14574 14574 0.24813691301528706 KGKILIKAKKL 11 Unmodified _KGKILIKAKKL_ 0 0 0 nc|ENSG00000154822|Q9UPR0-2|PLCL2;nc|ENSG00000154822|Q9UPR0-3|PLCL2;ENSG00000154822|ENST00000615277|PLCL2 nc|ENSG00000154822|Q9UPR0-2|PLCL2 nc|ENSG00000154822|Q9UPR0-2|PLCL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.1080932617188 2 620.447383 1238.88021 NaN NaN NaN NaN NaN NaN NaN 87.475 1 87.515 87.015 88.015 0.039955 0 0 0 1.0072 1 44297 44297 1.3295 1.3295 1 12470 3840 7852 7874 14575 14575 0.2703283097246185 KGKKGKKKEKK 11 Unmodified _KGKKGKKKEKK_ 0 0 0 ENSG00000132321|ENST00000409907|IQCA1;nc|ENSG00000132321|Q86XH1-5|IQCA1;nc|ENSG00000132321|Q86XH1-2|IQCA1 ENSG00000132321|ENST00000409907|IQCA1 ENSG00000132321|ENST00000409907|IQCA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.9378051757812 2 643.935171 1285.85579 NaN NaN NaN NaN NaN NaN NaN 82.479 1 82.479 81.979 82.979 0 0 0 0 1.0072 1 41309 41309 1.3295 0 1 12471 2690 7853 7875 14576 14576 0.22429570818917455 KGKKKHKVKK 10 Unmodified _KGKKKHKVKK_ 0 0 0 REV__NKTR|p.S1045Dfs*8|1|0.23|ENSG00000114857|chr3:42638836-42638837|-/GA|frameshift_variant REV__NKTR|p.S1045Dfs*8|1|0.23|ENSG00000114857|chr3:42638836-42638837|-/GA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.947509765625 2 604.919324 1207.8241 NaN NaN NaN NaN NaN NaN NaN 84.848 1 84.848 84.348 85.348 0 0 0 0 1.0001 1 43057 43057 1.6526 0 1 + 12472 11335 7854 7876 14577 14577 0.22849622855642338 KGKKKKKKKKL 11 Unmodified _KGKKKKKKKKL_ 0 0 0 REV__nc|ENSG00000174780|O76094-2|SRP72 REV__nc|ENSG00000174780|O76094-2|SRP72 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 671.489990234375 2 671.492656 1340.97076 NaN NaN NaN NaN NaN NaN NaN 53.198 1 54.001 53.501 54.501 0.80351 0 0 0 1.008 1 24259 24259 0.30703 0.30703 1 + 12473 13646 7855 7877 14578 14578 0.31391300020709423 KGKKKKKKKKL 11 Unmodified _KGKKKKKKKKL_ 0 0 0 REV__nc|ENSG00000174780|O76094-2|SRP72 REV__nc|ENSG00000174780|O76094-2|SRP72 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 671.4956665039062 2 671.492656 1340.97076 NaN NaN NaN NaN NaN NaN NaN 17.31 1 17.971 17.471 18.471 0.66072 0 0 0 1.0072 1 7808 7808 1.3295 1.3295 1 + 12474 13646 7855 7877 14579 14579 0.31391300020709423 KGKKKKKKSM 10 Unmodified _KGKKKKKKSM_ 0 0 0 REV__ENST00000563394.1_1_17:42300629-42300752:+|nuORF REV__ENST00000563394.1_1_17:42300629-42300752:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 596.0270385742188 2 595.891918 1189.76928 NaN NaN NaN NaN NaN NaN NaN 89.187 1 89.239 88.739 89.739 0.052155 0 0 0 1.0001 1 45643 45643 1.6526 0 1 + 12475 17392 7856 7878 14580 14580 0.1819886799271444 KGKKLIHC 8 Unmodified _KGKKLIHC_ 0 0 0 ENST00000504674.1_1_5:39719286-39719799:-|nuORF ENST00000504674.1_1_5:39719286-39719799:-|nuORF ENST00000504674.1_1_5:39719286-39719799:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 309.5249328613281 3 309.52499 925.553142 2.032 0.00062896 -1.1435 -0.00035393 0.88856 0.00027503 309.5244289709466 34.188 0.59777 34.977 34.583 35.181 0.78921 78 36 3 0 0 0 0.7471 2 15412 15412;15469 0.45834 0 1 2772500 12476 8496 7857 7879 14581;14582 14581 0.08738731878861472 KGKKLIHC 8 Unmodified _KGKKLIHC_ 0 0 0 ENST00000504674.1_1_5:39719286-39719799:-|nuORF ENST00000504674.1_1_5:39719286-39719799:-|nuORF ENST00000504674.1_1_5:39719286-39719799:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 309.52490234375 3 309.52499 925.553142 2.0872 0.00064605 -1.1864 -0.00036721 0.90086 0.00027884 309.52443137517287 34.466 0.40064 35.089 34.871 35.271 0.62294 45 14 4 0 0 0 0.7471 1 15754 15754 0.45834 0 1 3334500 12477 8496 7857 7879 14583 14583 0.08738731878861472 KGKKLIHC 8 Unmodified _KGKKLIHC_ 0 0 0 ENST00000504674.1_1_5:39719286-39719799:-|nuORF ENST00000504674.1_1_5:39719286-39719799:-|nuORF ENST00000504674.1_1_5:39719286-39719799:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 309.52499 925.553142 1.7373 0.00053773 -1.2415 -0.00038429 0.49574 0.00015344 309.52457780819657 35.003 0.33564 35.003 34.872 35.208 0 -0.036725 0.00012452 NaN 0.45834 47 26 2 NaN NaN NaN NaN 0 NaN NaN 0 4928100 12478 8496 7857 7879 0.08738731878861472 KGKKLIHC 8 Unmodified _KGKKLIHC_ 0 0 0 ENST00000504674.1_1_5:39719286-39719799:-|nuORF ENST00000504674.1_1_5:39719286-39719799:-|nuORF ENST00000504674.1_1_5:39719286-39719799:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 309.52499 925.553142 2.032 0.00062896 -1.1435 -0.00035393 0.88856 0.00027503 309.5244289709466 34.188 0.59777 34.977 34.583 35.181 0.78921 -0.063173 0.0002156 NaN 0.45834 78 36 3 NaN NaN NaN NaN 0 NaN NaN 0 2772500 12479 8496 7857 7879 0.08738731878861472 KGKKLIHC 8 Unmodified _KGKKLIHC_ 0 0 0 ENST00000504674.1_1_5:39719286-39719799:-|nuORF ENST00000504674.1_1_5:39719286-39719799:-|nuORF ENST00000504674.1_1_5:39719286-39719799:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 309.52499 925.553142 2.2004 0.00068108 -1.7799 -0.00055093 0.42049 0.00013015 309.5244031751256 34.836 0.34135 35.091 34.937 35.278 0.25455 0.050624 -0.00037541 NaN 0.45834 50 26 2 NaN NaN NaN NaN 0 NaN NaN 0 6996400 12480 8496 7857 7879 0.08738731878861472 KGKKLIHC 8 Unmodified _KGKKLIHC_ 0 0 0 ENST00000504674.1_1_5:39719286-39719799:-|nuORF ENST00000504674.1_1_5:39719286-39719799:-|nuORF ENST00000504674.1_1_5:39719286-39719799:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 309.52499 925.553142 2.0872 0.00064605 -1.1864 -0.00036721 0.90086 0.00027884 309.52443137517287 34.466 0.40064 35.089 34.871 35.271 0.62294 0.049274 0.00017576 NaN 0.45834 45 14 4 NaN NaN NaN NaN 0 NaN NaN 0 3334500 12481 8496 7857 7879 0.08738731878861472 KGKKRRKWFPR 11 Unmodified _KGKKRRKWFPR_ 0 0 0 REV__nc|ENSG00000116698|Q92540-4|SMG7 REV__nc|ENSG00000116698|Q92540-4|SMG7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 743.9625244140625 2 743.965129 1485.9157 NaN NaN NaN NaN NaN NaN NaN 90.246 1 90.246 89.746 90.746 0 0 0 0 1.0072 1 47372 47372 1.3295 0.13619 1 + 12482 17906 7858 7880 14584 14584 0.19218306272819063 KGKKYKQQR 9 Unmodified _KGKKYKQQR_ 0 0 0 REV__nc|ENSG00000154864|Q9H5I5-2|PIEZO2 REV__nc|ENSG00000154864|Q9H5I5-2|PIEZO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.1920776367188 2 582.354014 1162.69348 NaN NaN NaN NaN NaN NaN NaN 2.3117 1 2.9333 2.4333 3.4333 0.62157 0 0 0 0.91342 1 1052 1052 0 0 1 + 12483 12728 7859 7881 14585 14585 0.1186360713677459 KGKLSGREGP 10 Unmodified _KGKLSGREGP_ 0 0 0 REV__ENST00000534407.5_1_11:124757602-124761787:-|nuORF REV__ENST00000534407.5_1_11:124757602-124761787:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.8460083007812 2 514.795998 1027.57744 NaN NaN NaN NaN NaN NaN NaN 84.999 1 84.999 84.499 85.499 0 0 0 0 0.97053 1 43167 43167 10.151 0.76745 1 + 12484 17167 7860 7882 14586 14586 0.06475663566084222 KGKLVPVLLLK 11 Unmodified _KGKLVPVLLLK_ 0 0 0 ENST00000315872.10_1_2:11320642-11320762:-|nuORF ENST00000315872.10_1_2:11320642-11320762:-|nuORF ENST00000315872.10_1_2:11320642-11320762:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.1146240234375 2 604.428659 1206.84277 NaN NaN NaN NaN NaN NaN NaN 83.474 1 83.474 82.974 83.974 0 0 0 0 1.0072 1 42058 42058 1.3295 0.87119 1 12485 6899 7861 7883 14587 14587 0.24761739706832486 KGKMKGSA 8 Unmodified _KGKMKGSA_ 0 0 0 ENST00000320371.6_1_21:30369936-30370179:-|nuORF ENST00000320371.6_1_21:30369936-30370179:-|nuORF ENST00000320371.6_1_21:30369936-30370179:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.7323913574219 2 403.73128 805.448008 3.1744 0.0012816 -1.9372 -0.00078209 1.2373 0.00049953 403.73091358973113 69.293 0.29635 69.547 69.345 69.641 0.25443 40 17 3 0 0 0 0.74071 1 31716 31716 2.5775 0 1 435850 12486 6920 7862 7884 14588 14588 0.03750190682444554 KGKMRNHR 8 Unmodified _KGKMRNHR_ 0 0 0 ENST00000438116.2_1_22:40983245-40983449:-|nuORF ENST00000438116.2_1_22:40983245-40983449:-|nuORF ENST00000438116.2_1_22:40983245-40983449:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.8639221191406 3 342.862777 1025.5665 2.3172 0.0007945 0.87661 0.00030056 3.1939 0.0010951 342.8629696612198 39.977 0.23196 40.777 40.643 40.875 0.80014 24 13 2 0 0 0 0.7441 2 18057 18057;18105 1.4819 1.4819 1 2420000 12487 7913 7863 7885 14589;14590 14589 0.05473982710805103 KGKMRNHR 8 Unmodified _KGKMRNHR_ 0 0 0 ENST00000438116.2_1_22:40983245-40983449:-|nuORF ENST00000438116.2_1_22:40983245-40983449:-|nuORF ENST00000438116.2_1_22:40983245-40983449:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.1996765136719 3 342.862777 1025.5665 2.6402 0.00090523 1.5738 0.00053961 4.214 0.0014448 342.86297032130244 40.404 0.68154 40.673 40.324 41.006 0.26904 41 27 2 0 0 0 0.74071 1 18348 18348 1.6526 0 1 2529000 12488 7913 7863 7885 14591 14591 0.05473982710805103 KGKMRNHR 8 Unmodified _KGKMRNHR_ 0 0 0 ENST00000438116.2_1_22:40983245-40983449:-|nuORF ENST00000438116.2_1_22:40983245-40983449:-|nuORF ENST00000438116.2_1_22:40983245-40983449:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 342.86383056640625 3 342.862777 1025.5665 2.7348 0.00093767 0.97746 0.00033513 3.7123 0.0012728 342.8628922092141 41.403 0.53891 41.673 41.535 42.074 0.27021 64 33 3 0 0 0 0.7441 1 18892 18892 1.4819 1.4819 1 5684900 12489 7913 7863 7885 14592 14592 0.05473982710805103 KGKMRNHR 8 Unmodified _KGKMRNHR_ 0 0 0 ENST00000438116.2_1_22:40983245-40983449:-|nuORF ENST00000438116.2_1_22:40983245-40983449:-|nuORF ENST00000438116.2_1_22:40983245-40983449:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 342.862777 1025.5665 2.3998 0.00082282 0.97324 0.00033369 3.3731 0.0011565 342.8629313984853 41.096 0.1986 41.096 40.968 41.166 0 0.069954 0.0001546 NaN 1.4819 33 14 3 NaN NaN NaN NaN 0 NaN NaN 0 2016800 12490 7913 7863 7885 0.05473982710805103 KGKMRNHR 8 Unmodified _KGKMRNHR_ 0 0 0 ENST00000438116.2_1_22:40983245-40983449:-|nuORF ENST00000438116.2_1_22:40983245-40983449:-|nuORF ENST00000438116.2_1_22:40983245-40983449:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 342.862777 1025.5665 2.366 0.00081121 1.237 0.00042411 3.603 0.0012353 342.86294966853325 41.574 0.30871 41.574 41.466 41.774 0 -0.0042522 2.5874E-05 NaN 1.4819 81 36 3 NaN NaN NaN NaN 0 NaN NaN 0 5144700 12491 7913 7863 7885 0.05473982710805103 KGKNTDIHL 9 Unmodified _KGKNTDIHL_ 0 0 0 nc|ENSG00000134444|Q9P260|RELCH;ENSG00000134444|ENST00000644646|RELCH;nc|ENSG00000134444|Q9P260-2|RELCH nc|ENSG00000134444|Q9P260|RELCH nc|ENSG00000134444|Q9P260|RELCH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.2887573242188 2 513.290548 1024.56654 NaN NaN NaN NaN NaN NaN NaN 94.468 1 94.468 93.968 94.968 0 0 0 0 0.56337 1 50683 50683 16.942 3.0362 1 12492 2810 7864 7886 14593 14593 0.055242611917947215 KGKPRAWA 8 Unmodified _KGKPRAWA_ 0 0 0 nc|ENSG00000148840|Q5VV67-2|PPRC1;ENSG00000148840|ENST00000278070|PPRC1 nc|ENSG00000148840|Q5VV67-2|PPRC1 nc|ENSG00000148840|Q5VV67-2|PPRC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 305.185302734375 3 305.183733 912.52937 2.3022 0.0007026 1.7168 0.00052394 4.019 0.0012265 305.18416092134174 44.7 0.1961 45.35 45.291 45.487 0.64998 10 6 2 0 0 0 0.7441 1 20501 20501 1.4819 1.0236 1 671080 12493 3617 7865 7887 14594 14594 0.06960634436688906 KGKQDKKYKMR 11 Unmodified _KGKQDKKYKMR_ 0 0 0 REV__ENSG00000105997|ENST00000612286|HOXA3 REV__ENSG00000105997|ENST00000612286|HOXA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 353.2073974609375 4 353.206599 1408.79729 2.4856 0.00087794 0.24541 8.6681E-05 2.731 0.00096462 353.20645223247965 56.294 0.54277 56.559 56.227 56.77 0.26543 70 28 4 0 0 0 0.89309 1 25699 25699 1.1098 0 1 1840900 + 12494 11067 7866 7888 14595 14595 0.10924146182105687 KGKRKKRKKSR 11 Unmodified _KGKRKKRKKSR_ 0 0 0 ENST00000289371.10_1_2:99976748-99976944:+|nuORF ENST00000289371.10_1_2:99976748-99976944:+|nuORF ENST00000289371.10_1_2:99976748-99976944:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 467.3196105957031 3 467.319666 1398.93717 NaN NaN NaN NaN NaN NaN NaN 71.897 1 72.601 72.101 73.101 0.70386 0 0 0 1.0073 1 34565 34565 0.40827 0 1 12495 6731 7867 7889 14596 14596 0.2536569130152202 KGKRPKRKMKF 11 Unmodified _KGKRPKRKMKF_ 0 0 0 REV__ENST00000235307.6_1_1:184356213-184476760:+|nuORF REV__ENST00000235307.6_1_1:184356213-184476760:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 468.6312561035156 3 468.630852 1402.87073 NaN NaN NaN NaN NaN NaN NaN 66.915 1 66.915 66.415 67.415 0 0 0 0 1.0065 1 32015 32015 2.2527 1.0379 1 + 12496 14868 7868 7890 14597 14597 0.18540739415266216 KGKRPKRN 8 Unmodified _KGKRPKRN_ 0 0 0 REV__nc|ENSG00000135047|P07711-3|CTSL REV__nc|ENSG00000135047|P07711-3|CTSL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.31365966796875 2 492.314692 982.614831 NaN NaN NaN NaN NaN NaN NaN 84.431 1 84.46 83.96 84.96 0.028603 0 0 0 0.99035 1 42115 42115 4.756 0 1 + 12497 11995 7869 7891 14598 14598 0.12282799622357743 KGKRRRLIRPF 11 Unmodified _KGKRRRLIRPF_ 0 0 0 REV__nc|ENSG00000157060|Q9BZQ2-2|SHCBP1L REV__nc|ENSG00000157060|Q9BZQ2-2|SHCBP1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 714.0947875976562 2 713.965129 1425.9157 NaN NaN NaN NaN NaN NaN NaN 83.689 1 83.718 83.218 84.218 0.028603 0 0 0 1.0072 1 41591 41591 1.3295 0 1 + 12498 12793 7870 7892 14599 14599 0.21978306272808368 KGKRRRRRGWR 11 Unmodified _KGKRRRRRGWR_ 0 0 0 nc|ENSG00000109685|O96028-4|NSD2;nc|ENSG00000109685|O96028-2|NSD2;ENST00000353275.9_2_4:1944147-1980633:+|nuORF;ENSG00000109685|ENST00000508803|NSD2 nc|ENSG00000109685|O96028-4|NSD2 nc|ENSG00000109685|O96028-4|NSD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 756.4750366210938 2 756.471975 1510.9294 NaN NaN NaN NaN NaN NaN NaN 76.25 1 76.507 76.007 77.007 0.25704 0 0 0 1.0072 1 35104 35104 1.3295 1.0225 1 12499 1681 7871 7893 14600 14600 0.1943697682461334 KGKRVVRIYK 10 Unmodified _KGKRVVRIYK_ 0 0 0 L1ME3B_dup1212|chr2:208655412-208656218:+|1.11840693144123|0.1645806624656867|2.76|518.0|8|1|sense L1ME3B_dup1212|chr2:208655412-208656218:+|1.11840693144123|0.1645806624656867|2.76|518.0|8|1|sense L1ME3B_dup1212|chr2:208655412-208656218:+|1.11840693144123|0.1645806624656867|2.76|518.0|8|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 623.9097900390625 2 623.908956 1245.80336 NaN NaN NaN NaN NaN NaN NaN 85.083 1 85.111 84.611 85.611 0.028603 0 0 0 1.0001 1 42553 42553 1.6526 0 1 12500 9451 7872 7894 14601 14601 0.19029032475964414 KGKSIRLMWSQ 11 Unmodified _KGKSIRLMWSQ_ 0 0 0 ENSG00000254535|ENST00000421491|PABPC4L ENSG00000254535|ENST00000421491|PABPC4L ENSG00000254535|ENST00000421491|PABPC4L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 667.3755493164062 2 667.374089 1332.73363 NaN NaN NaN NaN NaN NaN NaN 95.456 1 95.724 95.224 96.224 0.2675 0 0 0 1.0061 1 43860 43860 2.7352 1.0826 1 12501 6277 7873 7895 14602 14602 0.08056785745043271 KGKSKPLPSPP 11 Unmodified _KGKSKPLPSPP_ 0 0 0 REV__ENSG00000075568|ENST00000186436|TMEM131 REV__ENSG00000075568|ENST00000186436|TMEM131 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.23345947265625 3 379.232641 1134.67609 2.8128 0.0010667 -0.16617 -6.3017E-05 2.6466 0.0010037 379.2325636809597 26.415 0.27434 26.68 26.529 26.804 0.26489 47 21 3 0 0 0 0.77056 1 11969 11969 4.1166 1.0444 1 888320 + 12502 10531 7874 7896 14603 14603 0.11414266811129892 KGKSKVALII 10 Unmodified _KGKSKVALII_ 0 0 0 REV__nc|ENSG00000135119|Q96EX2-3|RNFT2 REV__nc|ENSG00000135119|Q96EX2-3|RNFT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.0277709960938 2 528.860609 1055.70667 NaN NaN NaN NaN NaN NaN NaN 91.74 1 91.823 91.323 92.323 0.082848 0 0 0 0.99572 1 47631 47631 5.2969 0.96765 1 + 12503 17258 7875 7897 14604 14604 0.1810404519619624 KGKTRLNAR 9 Unmodified _KGKTRLNAR_ 0 0 0 REV__ENSG00000148606|ENST00000372371|POLR3A REV__ENSG00000148606|ENST00000372371|POLR3A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.3258666992188 2 522.325257 1042.63596 NaN NaN NaN NaN NaN NaN NaN 92.632 1 92.718 92.218 93.218 0.086212 0 0 0 0.75166 1 48333 48333 10.824 1.4765 1 + 12504 12544 7876 7898 14605 14605 0.116347649312047 KGKVLIKRR 9 Unmodified _KGKVLIKRR_ 0 0 0 REV__ENST00000483685.5_1_2:219487553-219498591:+|nuORF REV__ENST00000483685.5_1_2:219487553-219498591:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.3846435546875 2 549.385117 1096.75568 NaN NaN NaN NaN NaN NaN NaN 84.433 1 84.433 83.933 84.933 0 0 0 0 0.90611 1 42745 42745 2.0598 0 1 + 12505 11371 7877 7899 14606 14606 0.21117378275789633 KGKVVELEEKS 11 Unmodified _KGKVVELEEKS_ 0 0 0 REV__ENST00000469553.6_1_1:174927262-174959135:+|nuORF REV__ENST00000469553.6_1_1:174927262-174959135:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 623.4557495117188 2 623.356085 1244.69762 NaN NaN NaN NaN NaN NaN NaN 82.232 1 82.232 81.732 82.732 0 0 0 0 0.94174 1 41096 41096 12.241 0 1 + 12506 16581 7878 7900 14607 14607 0.08505607049187347 KGLCKIKFRL 10 Unmodified _KGLCKIKFRL_ 0 0 0 REV__ENST00000256689.9_1_12:46752655-46752838:-|nuORF REV__ENST00000256689.9_1_12:46752655-46752838:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 603.653076171875 2 603.381186 1204.74782 3.2265 0.0019468 -1.0415 -0.00062844 2.1849 0.0013183 603.3811041067036 60.418 0.035843 60.418 60.402 60.438 0 6 4 2 0 0 0 0.12676 1 28051 28051 6.2058 2.2614 1 6796800 + 12507 14937 7879 7901 14608 14608 0.15363482963994102 KGLFMGLVRQL 11 Unmodified _KGLFMGLVRQL_ 0 0 0 nc|ENSG00000175894|Q8WU66-2|TSPEAR;ENSG00000175894|ENST00000323084|TSPEAR nc|ENSG00000175894|Q8WU66-2|TSPEAR nc|ENSG00000175894|Q8WU66-2|TSPEAR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 631.3511352539062 2 631.376101 1260.73765 NaN NaN NaN NaN NaN NaN NaN 93.032 1 93.118 92.618 93.618 0.086212 0 0 0 1.0038 1 48647 48647 5.7319 0.43497 1 12508 5053 7880 7902 14609 14609 0.11770875238789813 KGLKMKKKK 9 Unmodified _KGLKMKKKK_ 0 0 0 REV__nc|ENSG00000083520|Q9Y2L1-2|DIS3 REV__nc|ENSG00000083520|Q9Y2L1-2|DIS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.8721923828125 2 544.870454 1087.72636 NaN NaN NaN NaN NaN NaN NaN 83.276 1 83.321 82.821 83.821 0.045006 0 0 0 0.90611 1 41290 41290 2.0598 2.0598 1 + 12509 10628 7881 7903 14610 14610 0.1860009793529116 KGLKSNFVHLF 11 Unmodified _KGLKSNFVHLF_ 0 0 0 ENST00000486372.1_1_9:132565440-132566668:+|nuORF;ENSG00000136816|ENST00000259339|TOR1B ENST00000486372.1_1_9:132565440-132566668:+|nuORF ENST00000486372.1_1_9:132565440-132566668:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.37255859375 2 645.371872 1288.72919 NaN NaN NaN NaN NaN NaN NaN 35.799 1 36.59 36.09 37.09 0.79131 0 0 0 1.0041 1 16225 16225 5.2969 0 1 12510 2976 7882 7904 14611 14611 0.09637644593794903 KGLLPFYWFFF 11 Unmodified _KGLLPFYWFFF_ 0 0 0 REV__ENST00000361915.7_2_1:100358140-100361902:+|nuORF REV__ENST00000361915.7_2_1:100358140-100361902:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 732.968505859375 2 732.889367 1463.76418 NaN NaN NaN NaN NaN NaN NaN 84.277 1 84.277 83.777 84.777 0 0 0 0 1.0059 1 42635 42635 2.9952 1.5133 1 + 12511 15634 7883 7905 14612 14612 0.050848874017219714 KGLLPLLLLL 10 Unmodified _KGLLPLLLLL_ 0 0 0 REV__nc|ENSG00000165731|P07949-2|RET REV__nc|ENSG00000165731|P07949-2|RET MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.9100341796875 2 546.891378 1091.7682 3.2069 0.0017538 0.3188 0.00017435 3.5257 0.0019282 547.3942111676631 87.35 0.031013 87.35 87.322 87.353 0 5 4 2 0 0 0 0.93628 1 45020 45020 1.6526 1.6526 1 5579800 + 12512 13185 7884 7906 14613 14613 0.22598976895483247 KGLLPLLLLL 10 Unmodified _KGLLPLLLLL_ 0 0 0 REV__nc|ENSG00000165731|P07949-2|RET REV__nc|ENSG00000165731|P07949-2|RET MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.1480102539062 2 546.891378 1091.7682 NaN NaN NaN NaN NaN NaN NaN 87.427 1 87.467 86.967 87.967 0.039955 0 0 0 1.0003 1 44261 44261 1.4819 1.0236 1 + 12513 13185 7884 7906 14614 14614 0.22598976895483247 KGLRKIIVRVL 11 Unmodified _KGLRKIIVRVL_ 0 0 0 ENST00000464167.5_1_3:197676878-197677004:+|nuORF ENST00000464167.5_1_3:197676878-197677004:+|nuORF ENST00000464167.5_1_3:197676878-197677004:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.961181640625 2 647.955907 1293.89726 NaN NaN NaN NaN NaN NaN NaN 90.103 1 90.103 89.603 90.603 0 0 0 0 1.008 1 47256 47256 0.30703 0.30703 1 12514 8111 7885 7907 14615 14615 0.26206751578274634 KGMEPIEVPL 10 Unmodified _KGMEPIEVPL_ 0 0 0 ENSG00000075643|ENST00000261326|MOCOS ENSG00000075643|ENST00000261326|MOCOS ENSG00000075643|ENST00000261326|MOCOS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 556.8038330078125 2 556.804642 1111.59473 NaN NaN NaN NaN NaN NaN NaN 86.086 1 86.117 85.617 86.617 0.030289 0 0 0 0.9754 1 43227 43227 9.3831 1.2276 1 12515 833 7886 7908 14616 14616 0.043398230568755025 KGNDRFYEGM 10 Unmodified _KGNDRFYEGM_ 0 0 0 REV__ENST00000586523.1_1_18:43667267-43667453:-|nuORF REV__ENST00000586523.1_1_18:43667267-43667453:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 608.3057250976562 2 608.774405 1215.53426 3.6398 0.0022158 -3.6113 -0.0021985 0.028451 1.732E-05 608.7721197231882 39.821 0.23659 40.088 39.962 40.199 0.26696 10 7 2 0 0 0 0.12676 1 18069 18069 6.7232 0.99131 1 476830 + 12516 12642 7887 7909 14617 14617 -0.06488894273525148 KGNDRFYEGM 10 Unmodified _KGNDRFYEGM_ 0 0 0 REV__ENST00000586523.1_1_18:43667267-43667453:-|nuORF REV__ENST00000586523.1_1_18:43667267-43667453:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 608.774405 1215.53426 3.7782 0.0023 -3.6309 -0.0022104 0.14722 8.9621E-05 608.7725319855846 39.425 0.1894 40.062 39.948 40.137 0.63778 -0.012769 -1.094E-05 NaN 3.5965 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 338730 + 12517 12642 7887 7909 -0.06488894273525148 KGNDVLVIECN 11 Unmodified _KGNDVLVIECN_ 0 0 0 nc|ENSG00000021826|P31327-2|CPS1;ENSG00000021826|ENST00000233072|CPS1;nc|ENSG00000021826|P31327-3|CPS1 nc|ENSG00000021826|P31327-2|CPS1 nc|ENSG00000021826|P31327-2|CPS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.8826293945312 2 602.305538 1202.59652 NaN NaN NaN NaN NaN NaN NaN 78.569 1 79.033 78.533 79.533 0.4642 0 0 0 1.0041 1 38211 38211 5.2969 1.3525 1 12518 462 7888 7910 14618 14618 0.0033283207483236765 KGNRARAFI 9 Unmodified _KGNRARAFI_ 0 0 0 REV__ENST00000547961.1_1_12:44198295-44200048:-|nuORF REV__ENST00000547961.1_1_12:44198295-44200048:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 344.874755859375 3 344.873559 1031.59885 2.4644 0.00084991 -0.17832 -6.1497E-05 2.2861 0.00078841 344.8733863864311 16.191 0.71934 16.191 15.783 16.502 0 159 87 2 0 0 0 1.1703 1 7035 7035 1.1933 0 1 116800 + 12519 12610 7889 7911 14619 14619 0.08431093385456734 KGNTWVLIGIV 11 Unmodified _KGNTWVLIGIV_ 0 0 0 ENSG00000141086|ENST00000574481|CTRL ENSG00000141086|ENST00000574481|CTRL ENSG00000141086|ENST00000574481|CTRL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 400.574951171875 3 400.576408 1198.70739 NaN NaN NaN NaN NaN NaN NaN 98.968 1 99.565 99.065 100.07 0.59748 0 0 0 1.0073 1 45712 45712 1.2148 0.4383 1 12520 3236 7890 7912 14620 14620 0.1159883984521457 KGPGRPGR 8 Unmodified _KGPGRPGR_ 0 0 0 ENST00000608937.5_1_9:137000676-137000952:+|nuORF ENST00000608937.5_1_9:137000676-137000952:+|nuORF ENST00000608937.5_1_9:137000676-137000952:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 412.74713134765625 2 412.746111 823.477669 2.1823 0.00090075 0.33556 0.0001385 2.5179 0.0010392 412.7461582458684 78.977 0.19675 78.977 78.881 79.078 0 24 15 3 0 0 0 0.7441 1 38911 38911 2.3027 0 1 3913100 12521 9347 7891 7913 14621 14621 0.05886890742806372 KGPGRPGR 8 Unmodified _KGPGRPGR_ 0 0 0 ENST00000608937.5_1_9:137000676-137000952:+|nuORF ENST00000608937.5_1_9:137000676-137000952:+|nuORF ENST00000608937.5_1_9:137000676-137000952:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 412.74664306640625 2 412.746111 823.477669 2.0836 0.00086 0.20079 8.2874E-05 2.2844 0.00094288 412.74606787620587 78.379 0.25505 78.843 78.739 78.994 0.4642 40 23 2 0 0 0 0.7441 2 38110 38110;38164 2.3027 0 1 2970800 12522 9347 7891 7913 14622;14623 14622 0.05886890742806372 KGPGRPGR 8 Unmodified _KGPGRPGR_ 0 0 0 ENST00000608937.5_1_9:137000676-137000952:+|nuORF ENST00000608937.5_1_9:137000676-137000952:+|nuORF ENST00000608937.5_1_9:137000676-137000952:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.74755859375 2 412.746111 823.477669 2.8023 0.0011566 0.17055 7.0396E-05 2.9728 0.001227 412.74610674756997 78.375 0.64194 78.628 78.277 78.919 0.25335 77 34 3 0 0 0 0.7441 4 36027 36027;36075;36124;36178 2.3027 0 1 4621200 12523 9347 7891 7913 14624;14625;14626;14627 14624 0.05886890742806372 KGPGRPGR 8 Unmodified _KGPGRPGR_ 0 0 0 ENST00000608937.5_1_9:137000676-137000952:+|nuORF ENST00000608937.5_1_9:137000676-137000952:+|nuORF ENST00000608937.5_1_9:137000676-137000952:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.7474670410156 2 412.746111 823.477669 2.8668 0.0011832 0.44746 0.00018469 3.3142 0.0013679 412.7462119167956 78.033 0.55912 78.695 78.368 78.927 0.66198 81 33 4 0 0 0 0.7441 2 35957 35957;36004 2.3027 0 1 5418100 12524 9347 7891 7913 14628;14629 14628 0.05886890742806372 KGPGRPGR 8 Unmodified _KGPGRPGR_ 0 0 0 ENST00000608937.5_1_9:137000676-137000952:+|nuORF ENST00000608937.5_1_9:137000676-137000952:+|nuORF ENST00000608937.5_1_9:137000676-137000952:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 412.746111 823.477669 2.1823 0.00090075 0.33556 0.0001385 2.5179 0.0010392 412.7461582458684 78.977 0.19675 78.977 78.881 79.078 0 0.19123 3.1578E-05 NaN 2.3027 24 15 3 NaN NaN NaN NaN 0 NaN NaN 0 3913100 12525 9347 7891 7913 0.05886890742806372 KGPKKQLEITL 11 Unmodified _KGPKKQLEITL_ 0 0 0 REV__ENST00000539508.5_1_9:13106966-13133978:-|nuORF REV__ENST00000539508.5_1_9:13106966-13133978:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 627.8931274414062 2 627.892638 1253.77072 NaN NaN NaN NaN NaN NaN NaN 87.604 1 87.854 87.354 88.354 0.25064 0 0 0 1.0073 1 40316 40316 1.1933 0 1 + 12526 11109 7892 7914 14630 14630 0.15398780562463799 KGPLHRTRARF 11 Unmodified _KGPLHRTRARF_ 0 0 0 REV__ENST00000589080.1_3_19:55968493-55972990:-|nuORF REV__ENST00000589080.1_3_19:55968493-55972990:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 669.8963623046875 2 669.896912 1337.77927 NaN NaN NaN NaN NaN NaN NaN 35.835 1 36.626 36.126 37.126 0.79131 0 0 0 1.0057 1 16242 16242 3.2813 0 1 + 12527 17563 7893 7915 14631 14631 0.12389192042292052 KGPRPNPLS 9 Unmodified _KGPRPNPLS_ 0 0 0 REV__nc|ENSG00000138623|O75326-2|SEMA7A REV__nc|ENSG00000138623|O75326-2|SEMA7A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 322.5225524902344 3 322.522414 964.545414 NaN NaN NaN NaN NaN NaN NaN 17.156 1 17.817 17.317 18.317 0.66072 0 0 0 0.87786 1 7737 7737 4.1895 0.31317 1 + 12528 12174 7894 7916 14632 14632 0.06172295882936396 KGPRRRWRRWR 11 Unmodified _KGPRRRWRRWR_ 0 0 0 REV__ENST00000514589.5_1_4:76439408-76439555:-|nuORF REV__ENST00000514589.5_1_4:76439408-76439555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 805.4779663085938 2 805.4798 1608.94505 NaN NaN NaN NaN NaN NaN NaN 64.355 1 64.603 64.103 65.103 0.24803 0 0 0 1.008 1 29474 29474 0.30703 0.30703 1 + 12529 17009 7895 7917 14633 14633 0.16493263341658349 KGQERHTRKQ 10 Unmodified _KGQERHTRKQ_ 0 0 0 ENST00000456846.6_1_6:42054503-42054644:+|nuORF ENST00000456846.6_1_6:42054503-42054644:+|nuORF ENST00000456846.6_1_6:42054503-42054644:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 634.3522338867188 2 634.352534 1266.69051 NaN NaN NaN NaN NaN NaN NaN 29.789 1 30.579 30.079 31.079 0.78921 0 0 0 1.0004 1 13439 13439 1.3295 0 1 12530 8054 7896 7918 14634 14634 0.06783732011990651 KGQRSKKK 8 Unmodified _KGQRSKKK_ 0 0 0 REV__ENSG00000110066|ENST00000304363|KMT5B REV__ENSG00000110066|ENST00000304363|KMT5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 960.6123657226562 1 959.610874 958.603597 3.1428 0.0030159 2.0963 0.0020116 5.2391 0.0050275 959.6166526823814 85.288 0.029373 85.288 85.27 85.3 0 5 3 2 0 0 0 0.70799 1 43383 43383 5.2307 0 1 8912100 + 12531 11193 7897 7919 14635 14635 0.12263977528220948 KGQRWGLL 8 Unmodified _KGQRWGLL_ 0 0 0 ENSG00000138246|ENST00000260818|DNAJC13;ENST00000471925.1_1_3:132175145-132176248:+|nuORF ENSG00000138246|ENST00000260818|DNAJC13 ENSG00000138246|ENST00000260818|DNAJC13 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 319.8600769042969 3 319.859138 956.555585 2.2822 0.00072999 1.3589 0.00043465 3.6411 0.0011646 319.85940137454014 48.492 0.46945 49.319 49.089 49.559 0.82705 31 24 2 0 0 0 0.14304 1 22145 22145 1.8442 0 1 580090 12532 3083 7898 7920 14636 14636 0.07556903608190169 KGQRWGLL 8 Unmodified _KGQRWGLL_ 0 0 0 ENSG00000138246|ENST00000260818|DNAJC13;ENST00000471925.1_1_3:132175145-132176248:+|nuORF ENSG00000138246|ENST00000260818|DNAJC13 ENSG00000138246|ENST00000260818|DNAJC13 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 319.859138 956.555585 2.092 0.00066914 1.9317 0.00061787 4.0237 0.001287 319.8595825856344 49.377 0.55641 49.377 49.196 49.752 0 0.055209 0.00032333 NaN 1.8442 44 23 2 NaN NaN NaN NaN 0 NaN NaN 0 707010 12533 3083 7898 7920 0.07556903608190169 KGQTRATWDG 10 Unmodified _KGQTRATWDG_ 0 0 0 REV__ENSG00000140519|ENST00000268122|RHCG REV__ENSG00000140519|ENST00000268122|RHCG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.2815551757812 2 560.280712 1118.54687 NaN NaN NaN NaN NaN NaN NaN 86.862 1 86.862 86.362 87.362 0 0 0 0 0.9952 1 44635 44635 5.7319 0.50118 1 12534 12252 7899 7921 14637 14637 -0.007661148189981759 KGQVLRKKKKK 11 Unmodified _KGQVLRKKKKK_ 0 0 0 ENSG00000155438|ENST00000285814|NIFK ENSG00000155438|ENST00000285814|NIFK ENSG00000155438|ENST00000285814|NIFK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 447.6462707519531 3 447.645267 1339.91397 NaN NaN NaN NaN NaN NaN NaN 74.79 1 75.048 74.548 75.548 0.25831 0 0 0 1.0082 1 34409 34409 0.08335 0.08335 1 12535 3863 7900 7922 14638 14638 0.25761252464189965 KGRGRAIA 8 Unmodified _KGRGRAIA_ 0 0 0 REV__ENSG00000117318|ENST00000374561|ID3 REV__ENSG00000117318|ENST00000374561|ID3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 828.5205078125 1 828.516245 827.508969 3.2377 0.0026825 -0.2818 -0.00023348 2.9559 0.002449 828.5160930434464 83.646 0.18527 83.646 83.532 83.717 0 25 20 2 0 0 0 0.74071 1 42119 42119 2.5775 0 1 15232000 + 12536 11440 7901 7923 14639 14639 0.08831463776868986 KGRGRAIA 8 Unmodified _KGRGRAIA_ 0 0 0 REV__ENSG00000117318|ENST00000374561|ID3 REV__ENSG00000117318|ENST00000374561|ID3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.76263427734375 2 414.761761 827.508969 3.1112 0.0012904 -0.0859 -3.5628E-05 3.0253 0.0012548 414.7616990757853 82.685 0.80868 83.345 82.965 83.773 0.66019 144 46 5 0 0 0 0.7471 2 38068 38068;38119 0 0 1 48409000 + 12537 11440 7901 7923 14640;14641 14640 0.08831463776868986 KGRGRAIA 8 Unmodified _KGRGRAIA_ 0 0 0 REV__ENSG00000117318|ENST00000374561|ID3 REV__ENSG00000117318|ENST00000374561|ID3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 828.516245 827.508969 3.2377 0.0026825 -0.2818 -0.00023348 2.9559 0.002449 828.5160930434464 83.646 0.18527 83.646 83.532 83.717 0 0.22898 -0.00054187 NaN 2.5775 25 20 2 NaN NaN NaN NaN 0 NaN NaN 0 15232000 + 12538 11440 7901 7923 0.08831463776868986 KGRGRGPKKR 10 Unmodified _KGRGRGPKKR_ 0 0 0 REV__ENST00000594682.6_1_19:53122308-53193715:-|nuORF REV__ENST00000594682.6_1_19:53122308-53193715:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.6919250488281 3 380.579257 1138.71594 2.7613 0.0010509 0.54099 0.00020589 3.3023 0.0012568 380.91381477054483 57.621 0.34126 57.886 57.751 58.093 0.26444 26 19 2 0 0 0 0.12676 1 26435 26435 0.69767 0 1 1056300 + 12539 17605 7902 7924 14642 14642 0.1521325132507627 KGRGRGPKKR 10 Unmodified _KGRGRGPKKR_ 0 0 0 REV__ENST00000594682.6_1_19:53122308-53193715:-|nuORF REV__ENST00000594682.6_1_19:53122308-53193715:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 380.579257 1138.71594 2.7969 0.0010644 0.16934 6.4448E-05 2.9662 0.0011289 380.91359628779605 56.971 0.28713 57.639 57.436 57.724 0.66829 -0.12335 -0.00027424 NaN 0.69767 20 13 2 NaN NaN NaN NaN 0 NaN NaN 0 901250 + 12540 17605 7902 7924 0.1521325132507627 KGRILTWHF 9 Unmodified _KGRILTWHF_ 0 0 0 REV__ENST00000443217.5_1_3:187943241-188123900:+|nuORF REV__ENST00000443217.5_1_3:187943241-188123900:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 579.3302001953125 2 579.33255 1156.65055 NaN NaN NaN NaN NaN NaN NaN 54.128 1 54.924 54.424 55.424 0.79552 0 0 0 0.90611 1 24697 24697 2.0598 0 1 + 12541 16360 7903 7925 14643 14643 0.0784883707933659 KGRKLKKRYK 10 Unmodified _KGRKLKKRYK_ 0 0 0 REV__ENST00000502722.1_1_5:77784733-77784811:-|nuORF REV__ENST00000502722.1_1_5:77784733-77784811:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 653.1113891601562 2 652.935506 1303.85646 NaN NaN NaN NaN NaN NaN NaN 97.994 1 98.593 98.093 99.093 0.59885 0 0 0 1.0003 1 45105 45105 1.4819 0.15237 1 + 12542 16894 7904 7926 14644 14644 0.21668410258621407 KGRKRKVKV 9 Unmodified _KGRKRKVKV_ 0 0 0 ENST00000565736.1_1_16:29814793-29815446:+|nuORF ENST00000565736.1_1_16:29814793-29815446:+|nuORF ENST00000565736.1_1_16:29814793-29815446:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.8844604492188 2 549.882742 1097.75093 NaN NaN NaN NaN NaN NaN NaN 73.12 1 73.819 73.319 74.319 0.69881 0 0 0 0.90611 1 35241 35241 2.0598 0 1 12543 9049 7905 7927 14645 14645 0.20596494133019405 KGRKVLKLLLV 11 Unmodified _KGRKVLKLLLV_ 0 0 0 nc|ENSG00000110042|Q9Y2E6-2|DTX4;ENSG00000110042|ENST00000227451|DTX4 nc|ENSG00000110042|Q9Y2E6-2|DTX4 nc|ENSG00000110042|Q9Y2E6-2|DTX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.9546508789062 2 633.952833 1265.89111 NaN NaN NaN NaN NaN NaN NaN 105.54 1 105.54 105.04 106.04 0 0 0 0 1.0072 1 57992 57992 1.3295 0.9789 1 12544 1695 7906 7928 14646 14646 0.2688023334671925 KGRLRLRPGT 10 Unmodified _KGRLRLRPGT_ 0 0 0 ENST00000262519.13_2_16:30968803-30969046:+|nuORF ENST00000262519.13_2_16:30968803-30969046:+|nuORF ENST00000262519.13_2_16:30968803-30969046:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.3690795898438 2 577.367456 1152.72036 4.1639 0.0024041 -1.6984 -0.00098058 2.4655 0.0014235 577.366098196576 108.96 1.0289 109.27 108.87 109.9 0.31168 67 42 2 0 0 0 0.94217 1 50267 50267 0.45834 0 1 113190 12545 6576 7907 7929 14647 14647 0.15010715747962422 KGRLVDKAL 9 Unmodified _KGRLVDKAL_ 0 0 0 ENST00000482692.1_1_7:28449401-28450235:+|nuORF ENST00000482692.1_1_7:28449401-28450235:+|nuORF ENST00000482692.1_1_7:28449401-28450235:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 333.882568359375 3 333.881831 998.623664 1.9138 0.00063897 0.50827 0.0001697 2.422 0.00080867 333.8819729509959 13.299 0.2669 13.607 13.463 13.729 0.30727 63 19 4 0 0 0 0.63753 1 6046 6046 10.151 2.5416 1 1198000 12546 8304 7908 7930 14648 14648 0.12429728468157464 KGRQLPRRRRR 11 Unmodified _KGRQLPRRRRR_ 0 0 0 REV__ENSG00000186790|ENST00000335071|FOXE3 REV__ENSG00000186790|ENST00000335071|FOXE3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 739.9752807617188 2 739.971808 1477.92906 3.8106 0.0028197 -0.28114 -0.00020803 3.5295 0.0026117 739.9716861834354 39.455 0.35654 39.722 39.578 39.934 0.26696 24 13 2 0 0 0 0.91489 1 17975 17975 0 0 1 258100 + 12547 14070 7909 7931 14649 14649 0.2092155710474799 KGRRKIEKRLR 11 Unmodified _KGRRKIEKRLR_ 0 0 0 REV__ENSG00000117133|ENST00000370654|RPF1 REV__ENSG00000117133|ENST00000370654|RPF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 720.4744262695312 2 720.473318 1438.93208 NaN NaN NaN NaN NaN NaN NaN 89.698 1 90.376 89.876 90.876 0.67818 0 0 0 1.0072 1 41297 41297 1.3295 0.36726 1 + 12548 11433 7910 7932 14650 14650 0.23017387438903825 KGRRLKIILAK 11 Unmodified _KGRRLKIILAK_ 0 0 0 REV__ENSG00000173276|ENST00000310826|ZBTB21 REV__ENSG00000173276|ENST00000310826|ZBTB21 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 648.1491088867188 2 648.453531 1294.89251 NaN NaN NaN NaN NaN NaN NaN 84.24 1 84.24 83.74 84.74 0 0 0 0 1.0072 1 42607 42607 1.3295 0.9789 1 + 12549 13595 7911 7933 14651 14651 0.25685867435504406 KGRRLKKNQKT 11 Unmodified _KGRRLKKNQKT_ 0 0 0 REV__ENST00000259253.10_1_2:128948971-128949022:+|nuORF REV__ENST00000259253.10_1_2:128948971-128949022:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 678.4693603515625 2 678.930951 1355.84735 NaN NaN NaN NaN NaN NaN NaN 93.84 1 93.926 93.426 94.426 0.086212 0 0 0 1.0074 1 49253 49253 1.0715 0.61312 1 + 12550 14952 7912 7934 14652 14652 0.1836601690229145 KGRRNRRWWMW 11 Unmodified _KGRRNRRWWMW_ 0 0 0 REV__nc|ENSG00000158220|A0FGR9-2|ESYT3 REV__nc|ENSG00000158220|A0FGR9-2|ESYT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 816.6906127929688 2 816.43367 1630.85279 NaN NaN NaN NaN NaN NaN NaN 79.981 1 79.981 79.481 80.481 0 0 0 0 1.008 1 39602 39602 0.30703 0.03801 1 + 12551 12818 7913 7935 14653 14653 0.0625941721309573 KGRRRRRRRMR 11 Unmodified _KGRRRRRRRMR_ 0 0 0 nc|ENSG00000182872|P0DW28|RBM10 nc|ENSG00000182872|P0DW28|RBM10 nc|ENSG00000182872|P0DW28|RBM10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 792.4970092773438 2 792.495459 1582.97636 NaN NaN NaN NaN NaN NaN NaN 98.188 1 98.787 98.287 99.287 0.59885 0 0 0 1.0072 1 45237 45237 1.3295 1.3295 1 12552 9775 7914 7936 14654 14654 0.2081951310410659 KGRRRTGKWQR 11 Unmodified _KGRRRTGKWQR_ 0 0 0 ENST00000490689.3_1_3:157821611-157821770:-|nuORF ENST00000490689.3_1_3:157821611-157821770:-|nuORF ENST00000490689.3_1_3:157821611-157821770:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 714.5215454101562 2 714.923992 1427.83343 NaN NaN NaN NaN NaN NaN NaN 82.581 1 82.581 82.081 83.081 0 0 0 0 1.0072 1 41392 41392 1.3295 0 1 12553 8390 7915 7937 14655 14655 0.13662784193866173 KGRRRWRRARV 11 Unmodified _KGRRRWRRARV_ 0 0 0 REV__ENST00000562283.5_1_16:84733615-84766691:+|nuORF REV__ENST00000562283.5_1_16:84733615-84766691:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.42169189453125 3 499.646776 1495.9185 NaN NaN NaN NaN NaN NaN NaN 60.834 1 60.834 60.334 61.334 0 0 0 0 1.0062 1 28322 28322 2.6312 2.1767 1 + 12554 17381 7916 7938 14656 14656 0.19037574450317152 KGRVLRDFFDS 11 Unmodified _KGRVLRDFFDS_ 0 0 0 nc|ENSG00000105143|P48664-2|SLC1A6;ENSG00000105143|ENST00000594383|SLC1A6 nc|ENSG00000105143|P48664-2|SLC1A6 nc|ENSG00000105143|P48664-2|SLC1A6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.3607177734375 2 670.359493 1338.70443 NaN NaN NaN NaN NaN NaN NaN 12.452 1 12.714 12.214 13.214 0.26154 0 0 0 1.0038 1 5389 5389 5.7319 0.43497 1 12555 1472 7917 7939 14657 14657 0.04862964720405216 KGTGYRYKR 9 Unmodified _KGTGYRYKR_ 0 0 0 REV__nc|ENSG00000163156|Q9BWG6-3|SCNM1 REV__nc|ENSG00000163156|Q9BWG6-3|SCNM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.9949951171875 2 564.817264 1127.61998 NaN NaN NaN NaN NaN NaN NaN 88.108 1 88.108 87.608 88.608 0 0 0 0 0.89683 1 45633 45633 4.3292 0 1 + 12556 16497 7918 7940 14658 14658 0.06127058694301013 KGTIVKKLL 9 Unmodified _KGTIVKKLL_ 0 0 0 ENSG00000126107|ENST00000372172|HECTD3 ENSG00000126107|ENST00000372172|HECTD3 ENSG00000126107|ENST00000372172|HECTD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.3486633300781 2 500.349877 998.685202 NaN NaN NaN NaN NaN NaN NaN 89.258 1 89.258 88.758 89.758 0 0 0 0 0.8984 1 46568 46568 3.9444 0 1 12557 2444 7919 7941 14659 14659 0.18580660167458518 KGVGFTVI 8 Unmodified _KGVGFTVI_ 0 0 0 ENSG00000142319|ENST00000270349|SLC6A3 ENSG00000142319|ENST00000270349|SLC6A3 ENSG00000142319|ENST00000270349|SLC6A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 410.75048828125 2 410.749996 819.485439 NaN NaN NaN NaN NaN NaN NaN 43.451 1 44.266 43.766 44.766 0.81444 0 0 0 0.99035 1 19780 19780 0.69038 0 1 12558 3305 7920 7942 14660 14660 0.06847605219684283 KGVILWPDKWF 11 Unmodified _KGVILWPDKWF_ 0 0 0 REV__ENST00000293829.8_1_17:7347478-7347709:+|nuORF REV__ENST00000293829.8_1_17:7347478-7347709:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 694.77587890625 2 694.889898 1387.76524 NaN NaN NaN NaN NaN NaN NaN 34.965 1 35.755 35.255 36.255 0.78921 0 0 0 1.0057 1 15845 15845 3.2813 0 1 + 12559 15135 7921 7943 14661 14661 0.08687101770624395 KGVISDILE 9 Unmodified _KGVISDILE_ 0 0 0 ACACB|p.E2309G|1|0.2|ENSG00000076555|chr12:109264370-109264370|A/G|missense_variant;ENST00000538526.5_3_12:109697932-109704164:+|nuORF;nc|ENSG00000076555|O00763-3|ACACB;nc|ENSG00000076555|O00763-2|ACACB;ENSG00000076555|ENST00000338432|ACACB ACACB|p.E2309G|1|0.2|ENSG00000076555|chr12:109264370-109264370|A/G|missense_variant ACACB|p.E2309G|1|0.2|ENSG00000076555|chr12:109264370-109264370|A/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 486.8426208496094 2 487.281857 972.549162 NaN NaN NaN NaN NaN NaN NaN 60.117 1 60.117 59.617 60.617 0 0 0 0 0.62812 1 27868 27868 14.838 0 1 12560 3 7922 7944 14662 14662 0.0617892086613665 KGVKFFLKVLI 11 Unmodified _KGVKFFLKVLI_ 0 0 0 REV__ENST00000303924.4_1_8:122653111-122653336:-|nuORF REV__ENST00000303924.4_1_8:122653111-122653336:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 646.076171875 2 646.428659 1290.84277 NaN NaN NaN NaN NaN NaN NaN 83.151 1 83.151 82.651 83.651 0 0 0 0 1.0072 1 41820 41820 1.3295 0.13619 1 + 12561 15214 7923 7945 14663 14663 0.20897739706856555 KGVLIIRLAP 10 Unmodified _KGVLIIRLAP_ 0 0 0 REV__ENSG00000196329|ENST00000358647|GIMAP5 REV__ENSG00000196329|ENST00000358647|GIMAP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.4956665039062 2 540.368601 1078.72265 NaN NaN NaN NaN NaN NaN NaN 56.781 1 57.559 57.059 58.059 0.77786 0 0 0 1.0001 1 25971 25971 1.6526 0 1 + 12562 14205 7924 7946 14664 14664 0.18643751433069156 KGVLPLTILKK 11 Unmodified _KGVLPLTILKK_ 0 0 0 REV__ENSG00000188039|ENST00000524140|NWD1 REV__ENSG00000188039|ENST00000524140|NWD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 605.38330078125 2 605.418291 1208.82203 NaN NaN NaN NaN NaN NaN NaN 75.692 1 75.949 75.449 76.449 0.25704 0 0 0 1.0059 1 34839 34839 2.9952 1.151 1 + 12563 14129 7925 7947 14665 14665 0.2259714932715724 KGWLPSVPML 10 Unmodified _KGWLPSVPML_ 0 0 0 ENST00000409978.5_2_2:39184070-39186986:+|nuORF ENST00000409978.5_2_2:39184070-39186986:+|nuORF ENST00000409978.5_2_2:39184070-39186986:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.2147216796875 3 376.547572 1126.62089 2.5379 0.00095565 1.3376 0.00050366 3.8755 0.0014593 376.54822550682036 55.285 0.29173 55.55 55.515 55.807 0.26543 39 15 3 0 0 0 0.12676 1 25364 25364 3.5871 0 1 3037000 12564 7667 7926 7948 14666 14666 0.06264137019024929 KGWRRRRWRR 10 Unmodified _KGWRRRRWRR_ 0 0 0 ENST00000597330.1_1_19:58557520-58558126:+|nuORF ENST00000597330.1_1_19:58557520-58558126:+|nuORF ENST00000597330.1_1_19:58557520-58558126:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 756.9539184570312 2 756.953418 1511.89228 NaN NaN NaN NaN NaN NaN NaN 76.679 1 76.679 76.179 77.179 0 0 0 0 1.0001 1 37585 37585 1.6526 0.32309 1 12565 9281 7927 7949 14667 14667 0.15681305278849322 KGWRRRRWRRR 11 Unmodified _KGWRRRRWRRR_ 0 0 0 ENST00000597330.1_1_19:58557520-58558126:+|nuORF ENST00000597330.1_1_19:58557520-58558126:+|nuORF ENST00000597330.1_1_19:58557520-58558126:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 835.0023193359375 2 835.003974 1667.99339 NaN NaN NaN NaN NaN NaN NaN 89.398 1 89.398 88.898 89.898 0 0 0 0 1.0082 1 46675 46675 0.30703 0.30703 1 12566 9281 7928 7950 14668 14668 0.18611756981545113 KGYKNQWEEMK 11 Unmodified _KGYKNQWEEMK_ 0 0 0 ENST00000490922.1_1_22:24936902-24943992:-|nuORF ENST00000490922.1_1_22:24936902-24943992:-|nuORF ENST00000490922.1_1_22:24936902-24943992:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 720.8517456054688 2 720.850644 1439.68673 NaN NaN NaN NaN NaN NaN NaN 74.352 1 74.352 73.852 74.852 0 0 0 0 1.0059 1 36311 36311 2.9952 0 1 12567 8393 7929 7951 14669 14669 -0.01552118596737273 KGYMFDYEYDW 11 Unmodified _KGYMFDYEYDW_ 0 0 0 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-5|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-3|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-4|CSNK1G3;nc|ENSG00000151292|Q9Y6M4|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-2|CSNK1G3;ENSG00000151292|ENST00000696905|CSNK1G3 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 758.4945068359375 2 758.80811 1515.60167 NaN NaN NaN NaN NaN NaN NaN 98.408 1 98.708 98.208 99.208 0.29987 0 0 0 1.0072 1 45323 45323 1.3295 0.9789 1 12568 3698 7930 7952 14670 14670 -0.13550908853198962 KGYWWHFKDH 10 Unmodified _KGYWWHFKDH_ 0 0 0 ENST00000556495.5_1_14:71059591-71067354:-|nuORF;nc|ENSG00000133997|O75586-3|MED6;ENSG00000133997|ENST00000256379|MED6;nc|ENSG00000133997|O75586-2|MED6 ENST00000556495.5_1_14:71059591-71067354:-|nuORF ENST00000556495.5_1_14:71059591-71067354:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 702.40380859375 2 702.335821 1402.65709 NaN NaN NaN NaN NaN NaN NaN 82.457 1 82.457 81.957 82.957 0 0 0 0 1.0001 1 41291 41291 1.6526 0 1 12569 2779 7931 7953 14671 14671 -0.028132697599176026 KHAAKKVVK 9 Unmodified _KHAAKKVVK_ 0 0 0 nc|ENSG00000159164|Q7L0J3-2|SV2A;ENSG00000159164|ENST00000369146|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.8958435058594 3 336.894071 1007.66038 NaN NaN NaN NaN NaN NaN NaN 108.65 1 108.96 108.46 109.46 0.31168 0 0 0 0.91356 1 50101 50101 0.23584 0.23584 1 12570 4011 7932 7954 14672 14672 0.15686025084744415 KHAAKKVVK 9 Unmodified _KHAAKKVVK_ 0 0 0 nc|ENSG00000159164|Q7L0J3-2|SV2A;ENSG00000159164|ENST00000369146|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.895751953125 3 336.894071 1007.66038 NaN NaN NaN NaN NaN NaN NaN 108.93 1 109.24 108.74 109.74 0.31168 0 0 0 0.91356 1 50225 50225 0.23584 0.23584 1 12571 4011 7932 7954 14673 14673 0.15686025084744415 KHAAKKVVK 9 Unmodified _KHAAKKVVK_ 0 0 0 nc|ENSG00000159164|Q7L0J3-2|SV2A;ENSG00000159164|ENST00000369146|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.89544677734375 3 336.894071 1007.66038 NaN NaN NaN NaN NaN NaN NaN 109.24 1 109.55 109.05 110.05 0.31015 0 0 0 0.91356 1 50362 50362 0.23584 0.23584 1 12572 4011 7932 7954 14674 14674 0.15686025084744415 KHAAKKVVK 9 Unmodified _KHAAKKVVK_ 0 0 0 nc|ENSG00000159164|Q7L0J3-2|SV2A;ENSG00000159164|ENST00000369146|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.8955078125 3 336.894071 1007.66038 NaN NaN NaN NaN NaN NaN NaN 109.47 1 109.78 109.28 110.28 0.31015 0 0 0 0.91356 1 50463 50463 0.23584 0.23584 1 12573 4011 7932 7954 14675 14675 0.15686025084744415 KHAAKKVVK 9 Unmodified _KHAAKKVVK_ 0 0 0 nc|ENSG00000159164|Q7L0J3-2|SV2A;ENSG00000159164|ENST00000369146|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.89532470703125 3 336.894071 1007.66038 NaN NaN NaN NaN NaN NaN NaN 109.77 1 110.08 109.58 110.58 0.31015 0 0 0 0.91356 1 50594 50594 0.23584 0.23584 1 12574 4011 7932 7954 14676 14676 0.15686025084744415 KHAAKKVVK 9 Unmodified _KHAAKKVVK_ 0 0 0 nc|ENSG00000159164|Q7L0J3-2|SV2A;ENSG00000159164|ENST00000369146|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.89532470703125 3 336.894071 1007.66038 NaN NaN NaN NaN NaN NaN NaN 107.76 1 108.37 107.87 108.87 0.6019 0 0 0 0.91356 1 49732 49732 0.23584 0.23584 1 12575 4011 7932 7954 14677 14677 0.15686025084744415 KHAAKKVVK 9 Unmodified _KHAAKKVVK_ 0 0 0 nc|ENSG00000159164|Q7L0J3-2|SV2A;ENSG00000159164|ENST00000369146|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.895751953125 3 336.894071 1007.66038 NaN NaN NaN NaN NaN NaN NaN 108.37 1 108.97 108.47 109.47 0.6019 0 0 0 0.91356 1 50001 50001 0.23584 0.23584 1 12576 4011 7932 7954 14678 14678 0.15686025084744415 KHAAKKVVK 9 Unmodified _KHAAKKVVK_ 0 0 0 nc|ENSG00000159164|Q7L0J3-2|SV2A;ENSG00000159164|ENST00000369146|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.8953552246094 3 336.894071 1007.66038 NaN NaN NaN NaN NaN NaN NaN 108.58 1 109.19 108.69 109.69 0.60264 0 0 0 0.91356 1 50096 50096 0.23584 0.23584 1 12577 4011 7932 7954 14679 14679 0.15686025084744415 KHAAKKVVK 9 Unmodified _KHAAKKVVK_ 0 0 0 nc|ENSG00000159164|Q7L0J3-2|SV2A;ENSG00000159164|ENST00000369146|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.89544677734375 3 336.894071 1007.66038 NaN NaN NaN NaN NaN NaN NaN 108.88 1 109.48 108.98 109.98 0.60264 0 0 0 0.91356 1 50227 50227 0.23584 0 1 12578 4011 7932 7954 14680 14680 0.15686025084744415 KHAAKKVVK 9 Unmodified _KHAAKKVVK_ 0 0 0 nc|ENSG00000159164|Q7L0J3-2|SV2A;ENSG00000159164|ENST00000369146|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.8953552246094 3 336.894071 1007.66038 NaN NaN NaN NaN NaN NaN NaN 109.09 1 109.7 109.2 110.2 0.60264 0 0 0 0.91356 1 50321 50321 0.23584 0.23584 1 12579 4011 7932 7954 14681 14681 0.15686025084744415 KHAAKKVVK 9 Unmodified _KHAAKKVVK_ 0 0 0 nc|ENSG00000159164|Q7L0J3-2|SV2A;ENSG00000159164|ENST00000369146|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.8957214355469 3 336.894071 1007.66038 NaN NaN NaN NaN NaN NaN NaN 109.49 1 110.09 109.59 110.59 0.60264 0 0 0 0.91356 1 50496 50496 0.23584 0.23584 1 12580 4011 7932 7954 14682 14682 0.15686025084744415 KHAAKKVVK 9 Unmodified _KHAAKKVVK_ 0 0 0 nc|ENSG00000159164|Q7L0J3-2|SV2A;ENSG00000159164|ENST00000369146|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.8956298828125 3 336.894071 1007.66038 NaN NaN NaN NaN NaN NaN NaN 109.63 1 110.24 109.74 110.74 0.60264 0 0 0 0.91356 1 50560 50560 0.23584 0 1 12581 4011 7932 7954 14683 14683 0.15686025084744415 KHAAKKVVK 9 Unmodified _KHAAKKVVK_ 0 0 0 nc|ENSG00000159164|Q7L0J3-2|SV2A;ENSG00000159164|ENST00000369146|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A nc|ENSG00000159164|Q7L0J3-2|SV2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.8954772949219 3 336.894071 1007.66038 NaN NaN NaN NaN NaN NaN NaN 109.91 1 110.51 110.01 111.01 0.60264 0 0 0 0.91356 1 50682 50682 0.23584 0.23584 1 12582 4011 7932 7954 14684 14684 0.15686025084744415 KHDGRRRIR 9 Unmodified _KHDGRRRIR_ 0 0 0 ENSG00000182963|ENST00000592524|GJC1 ENSG00000182963|ENST00000592524|GJC1 ENSG00000182963|ENST00000592524|GJC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.57598876953125 3 398.574395 1192.70135 3.7609 0.001499 0.16981 6.7682E-05 3.9307 0.0015667 398.574400843143 95.914 0.43704 96.182 96.017 96.454 0.2675 53 22 3 0 0 0 1.1849 1 44153 44153 0.96228 0 1 1004700 12583 5357 7933 7955 14685 14685 0.11271179176901569 KHERKDKRS 9 Unmodified _KHERKDKRS_ 0 0 0 nc|ENSG00000212719|A8MQB3|LINC02693 nc|ENSG00000212719|A8MQB3|LINC02693 nc|ENSG00000212719|A8MQB3|LINC02693 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 395.2266845703125 3 395.226661 1182.65815 NaN NaN NaN NaN NaN NaN NaN 80.519 1 80.519 80.019 81.019 0 0 0 0 0.89983 1 39986 39986 2.086 0.34373 1 12584 9826 7934 7956 14686 14686 0.07412944608972794 KHERKDKRS 9 Unmodified _KHERKDKRS_ 0 0 0 nc|ENSG00000212719|A8MQB3|LINC02693 nc|ENSG00000212719|A8MQB3|LINC02693 nc|ENSG00000212719|A8MQB3|LINC02693 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 395.22674560546875 3 395.226661 1182.65815 NaN NaN NaN NaN NaN NaN NaN 80.62 1 80.62 80.12 81.12 0 0 0 0 0.89983 1 40065 40065 2.086 0 1 12585 9826 7934 7956 14687 14687 0.07412944608972794 KHICTINRR 9 Unmodified _KHICTINRR_ 0 0 0 REV__nc|ENSG00000173157|P59510-2|ADAMTS20 REV__nc|ENSG00000173157|P59510-2|ADAMTS20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.8865966796875 3 380.88547 1139.63458 2.5593 0.00097478 0.71083 0.00027074 3.2701 0.0012455 380.88562188140713 62.329 0.60105 62.989 62.597 63.198 0.66008 187 60 4 0 0 0 1.1154 1 28388 28388 1.0715 1.0715 1 23376000 + 12586 13584 7935 7957 14688 14688 0.0703480757078978 KHILFRRRRRG 11 Unmodified _KHILFRRRRRG_ 0 0 0 ENSG00000184160|ENST00000330055|ADRA2C ENSG00000184160|ENST00000330055|ADRA2C ENSG00000184160|ENST00000330055|ADRA2C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.98272705078125 3 498.983277 1493.928 NaN NaN NaN NaN NaN NaN NaN 39.889 1 39.889 39.389 40.389 0 0 0 0 1.0082 1 18104 18104 0.08335 0.08335 1 12587 5423 7936 7958 14689 14689 0.2007934273583487 KHINHRRKRM 10 Unmodified _KHINHRRKRM_ 0 0 0 ENST00000345365.10_1_17:33427675-33427975:-|nuORF ENST00000345365.10_1_17:33427675-33427975:-|nuORF ENST00000345365.10_1_17:33427675-33427975:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 688.404052734375 2 688.401838 1374.78912 NaN NaN NaN NaN NaN NaN NaN 32.297 1 33.085 32.585 33.585 0.78795 0 0 0 1.0015 1 14607 14607 0.40072 0.050084 1 12588 7112 7937 7959 14690 14690 0.11672056776001227 KHIRKHRQKV 10 Unmodified _KHIRKHRQKV_ 0 0 0 nc|ENSG00000197969|Q96RL7-2|VPS13A;VPS13A|p.Y1116Ifs*27|1|0.25|ENSG00000197969|chr9:77293345-77293345|T/-|frameshift_variant;VPS13A|p.L1845Vfs*28|1|0.03|ENSG00000197969|chr9:77321285-77321286|-/GTACATT|frameshift_variant;VPS13A|p.T2306*|1|0.15|ENSG00000197969|chr9:77340440-77340441|AC/-|frameshift_variant;nc|ENSG00000197969|Q96RL7-4|VPS13A;nc|ENSG00000197969|Q96RL7-3|VPS13A;ENSG00000197969|ENST00000360280|VPS13A nc|ENSG00000197969|Q96RL7-2|VPS13A nc|ENSG00000197969|Q96RL7-2|VPS13A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 665.4197998046875 2 665.420554 1328.82655 3.3382 0.0022213 -2.1452 -0.0014274 1.193 0.00079387 665.4185676909694 104.16 0.2388 104.16 104.05 104.29 0 18 15 2 0 0 0 0.94246 1 57348 57348 0.40072 0.40072 1 518940 12589 9808 7938 7960 14691 14691 0.17529471313287104 KHIRKHRQKV 10 Unmodified _KHIRKHRQKV_ 0 0 0 nc|ENSG00000197969|Q96RL7-2|VPS13A;VPS13A|p.Y1116Ifs*27|1|0.25|ENSG00000197969|chr9:77293345-77293345|T/-|frameshift_variant;VPS13A|p.L1845Vfs*28|1|0.03|ENSG00000197969|chr9:77321285-77321286|-/GTACATT|frameshift_variant;VPS13A|p.T2306*|1|0.15|ENSG00000197969|chr9:77340440-77340441|AC/-|frameshift_variant;nc|ENSG00000197969|Q96RL7-4|VPS13A;nc|ENSG00000197969|Q96RL7-3|VPS13A;ENSG00000197969|ENST00000360280|VPS13A nc|ENSG00000197969|Q96RL7-2|VPS13A nc|ENSG00000197969|Q96RL7-2|VPS13A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 665.420554 1328.82655 3.3382 0.0022213 -2.1452 -0.0014274 1.193 0.00079387 665.4185676909694 104.16 0.2388 104.16 104.05 104.29 0 0 0 NaN 0.40072 18 15 2 NaN NaN NaN NaN 0 NaN NaN 0 518940 12590 9808 7938 7960 0.17529471313287104 KHKILIKRKL 10 Unmodified _KHKILIKRKL_ 0 0 0 REV__ENSG00000124181|ENST00000685551|PLCG1 REV__ENSG00000124181|ENST00000685551|PLCG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 638.9541625976562 2 638.950624 1275.8867 NaN NaN NaN NaN NaN NaN NaN 60.365 1 60.365 59.865 60.865 0 0 0 0 1.0015 1 28012 28012 0.40072 0.40072 1 + 12591 11639 7939 7961 14692 14692 0.25978768923823736 KHKKLILKLL 10 Unmodified _KHKKLILKLL_ 0 0 0 REV__ENST00000280557.10_1_12:123252139-123253391:+|nuORF REV__ENST00000280557.10_1_12:123252139-123253391:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.4428100585938 2 617.442101 1232.86965 NaN NaN NaN NaN NaN NaN NaN 86.704 1 86.704 86.204 87.204 0 0 0 0 1.002 1 44517 44517 0 0 1 + 12592 15085 7940 7962 14693 14693 0.2625284831804038 KHKRRRRKQR 10 Unmodified _KHKRRRRKQR_ 0 0 0 nc|ENSG00000107404|O14640-2|DVL1;ENSG00000107404|ENST00000378888|DVL1 nc|ENSG00000107404|O14640-2|DVL1 nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.9879455566406 4 362.986901 1447.9185 2.3027 0.00083585 0.18897 6.8593E-05 2.4917 0.00090444 362.9868816312235 44.601 1.3027 45.421 44.775 46.078 0.82074 261 70 5 0 0 0 0.94364 1 20103 20103 0.15932 0.15932 1 23315000 12593 1598 7941 7963 14694 14694 0.21245574450313143 KHKRRRRKQR 10 Unmodified _KHKRRRRKQR_ 0 0 0 nc|ENSG00000107404|O14640-2|DVL1;ENSG00000107404|ENST00000378888|DVL1 nc|ENSG00000107404|O14640-2|DVL1 nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.98736572265625 4 362.986901 1447.9185 2.309 0.00083815 -0.30358 -0.0001102 2.0054 0.00072795 363.23751853196376 46.365 0.26305 47.194 47.067 47.33 0.82915 35 14 3 0 0 0 0.94364 1 21098 21098 0.15932 0.01943 1 934740 12594 1598 7941 7963 14695 14695 0.21245574450313143 KHKRRRRKQR 10 Unmodified _KHKRRRRKQR_ 0 0 0 nc|ENSG00000107404|O14640-2|DVL1;ENSG00000107404|ENST00000378888|DVL1 nc|ENSG00000107404|O14640-2|DVL1 nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.9877624511719 4 362.986901 1447.9185 2.4606 0.00089316 -0.016517 -5.9954E-06 2.4441 0.00088716 362.9868567910303 45.038 1.369 45.306 44.634 46.003 0.26768 162 59 5 0 0 0 0.94364 1 20798 20798 0.15932 0.01943 1 37162000 12595 1598 7941 7963 14696 14696 0.21245574450313143 KHKRRRRKQR 10 Unmodified _KHKRRRRKQR_ 0 0 0 nc|ENSG00000107404|O14640-2|DVL1;ENSG00000107404|ENST00000378888|DVL1 nc|ENSG00000107404|O14640-2|DVL1 nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.987548828125 4 362.986901 1447.9185 2.7807 0.0010094 -0.16446 -5.9697E-05 2.6162 0.00094966 363.2375435057215 46.672 1.4287 46.938 46.078 47.507 0.26561 132 55 3 0 0 0 0.94364 2 21208 21208;21514 0.15932 0.01943 1 6257500 12596 1598 7941 7963 14697;14698 14697 0.21245574450313143 KHKRRRRKQR 10 Unmodified _KHKRRRRKQR_ 0 0 0 nc|ENSG00000107404|O14640-2|DVL1;ENSG00000107404|ENST00000378888|DVL1 nc|ENSG00000107404|O14640-2|DVL1 nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.2388610839844 4 362.986901 1447.9185 2.8236 0.0010249 -0.46443 -0.00016858 2.3592 0.00085637 362.9866426392085 47.627 1.2008 47.891 47.368 48.569 0.26363 111 61 2 0 0 0 0.94364 1 22061 22061 0.15932 0.01943 1 3449200 12597 1598 7941 7963 14699 14699 0.21245574450313143 KHKRRRRKQR 10 Unmodified _KHKRRRRKQR_ 0 0 0 nc|ENSG00000107404|O14640-2|DVL1;ENSG00000107404|ENST00000378888|DVL1 nc|ENSG00000107404|O14640-2|DVL1 nc|ENSG00000107404|O14640-2|DVL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.6488037109375 3 483.646776 1447.9185 NaN NaN NaN NaN NaN NaN NaN 42.16 1 42.807 42.307 43.307 0.64693 0 0 0 1.0018 1 19308 19308 0.15932 0.01943 1 12598 1598 7941 7963 14700 14700 0.21245574450313143 KHKRYTFFLRR 11 Unmodified _KHKRYTFFLRR_ 0 0 0 REV__ENSG00000183476|ENST00000328828|SH2D7 REV__ENSG00000183476|ENST00000328828|SH2D7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 776.4534912109375 2 776.454594 1550.89463 NaN NaN NaN NaN NaN NaN NaN 94.114 1 94.2 93.7 94.7 0.086212 0 0 0 1.0073 1 49438 49438 1.1933 0.88631 1 + 12599 13934 7942 7964 14701 14701 0.14122296173309223 KHLIYLMGFLD 11 Unmodified _KHLIYLMGFLD_ 0 0 0 REV__ENST00000321250.12_1_8:29964253-29964397:+|nuORF REV__ENST00000321250.12_1_8:29964253-29964397:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.5794372558594 3 450.581053 1348.72133 NaN NaN NaN NaN NaN NaN NaN 64.197 1 64.197 63.697 64.697 0 0 0 0 1.0064 1 30361 30361 2.4348 0.52841 1 + 12600 15317 7943 7965 14702 14702 0.060917492820180996 KHLKHERLRKY 11 Unmodified _KHLKHERLRKY_ 0 0 0 nc|ENSG00000241468|P56134-2|ATP5MF;ENSG00000241468|ENST00000292475|ATP5MF;ENST00000491560.1_1_7:99055952-99057898:-|nuORF nc|ENSG00000241468|P56134-2|ATP5MF nc|ENSG00000241468|P56134-2|ATP5MF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 754.4530639648438 2 754.452051 1506.88955 NaN NaN NaN NaN NaN NaN NaN 72.623 1 73.287 72.787 73.787 0.66398 0 0 0 1.0079 1 33323 33323 0.26902 0 1 12601 6224 7944 7966 14703 14703 0.1563799231066696 KHLKIRVP 8 Unmodified _KHLKIRVP_ 0 0 0 REV__ENST00000485497.2_1_6:76357395-76357443:+|nuORF REV__ENST00000485497.2_1_6:76357395-76357443:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.8345642089844 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 39.082 1 39.346 38.846 39.846 0.26408 0 0 0 0.99035 1 17785 17785 0.79363 0 1 + 12602 16744 7945 7967 14704 14704 0.15458042430316254 KHLLRRRARRK 11 Unmodified _KHLLRRRARRK_ 0 0 0 REV__ENSG00000153822|ENST00000392671|KCNJ16 REV__ENSG00000153822|ENST00000392671|KCNJ16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 745.4901123046875 2 745.492376 1488.9702 NaN NaN NaN NaN NaN NaN NaN 91.133 1 91.384 90.884 91.884 0.25163 0 0 0 1.0082 1 41906 41906 0 0 1 + 12603 12685 7946 7968 14705 14705 0.24527318144237142 KHMILKVRRD 10 Unmodified _KHMILKVRRD_ 0 0 0 nc|ENSG00000002746|Q76N89-2|HECW1;ENSG00000002746|ENST00000395891|HECW1 nc|ENSG00000002746|Q76N89-2|HECW1 nc|ENSG00000002746|Q76N89-2|HECW1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 324.69989013671875 4 324.698675 1294.76559 2.2468 0.00072954 1.7992 0.00058419 4.046 0.0013137 324.9496362957036 51.763 0.352 51.763 51.44 51.792 0 30 20 3 0 0 0 0.94165 1 23690 23690 0.56317 0.057215 1 321380 12604 304 7947 7969 14706 14706 0.13000198218855985 KHPKHRPCA 9 Unmodified _KHPKHRPCA_ 0 0 0 ENST00000492877.1_1_1:28210997-28211207:+|nuORF ENST00000492877.1_1_1:28210997-28211207:+|nuORF ENST00000492877.1_1_1:28210997-28211207:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.295166015625 2 537.292902 1072.57125 NaN NaN NaN NaN NaN NaN NaN 92.245 1 92.245 91.745 92.745 0 0 0 0 0.87786 1 48966 48966 6.7232 0.51738 1 12605 8410 7948 7970 14707 14707 0.037868668535793404 KHPYLLRNWSL 11 Unmodified _KHPYLLRNWSL_ 0 0 0 REV__ENST00000439074.1_1_3:193561448-193561538:-|nuORF REV__ENST00000439074.1_1_3:193561448-193561538:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 713.9022827148438 2 713.901328 1425.7881 NaN NaN NaN NaN NaN NaN NaN 61.293 1 61.293 60.793 61.793 0 0 0 0 1.0007 1 28573 28573 6.6304 1.3335 1 + 12606 16330 7949 7971 14708 14708 0.09224120888120524 KHQKRKKRRKR 11 Unmodified _KHQKRKKRRKR_ 0 0 0 nc|ENSG00000151322|Q8IXF0-4|NPAS3;nc|ENSG00000151322|Q8IXF0-2|NPAS3;nc|ENSG00000151322|Q8IXF0-3|NPAS3;ENSG00000151322|ENST00000356141|NPAS3 nc|ENSG00000151322|Q8IXF0-4|NPAS3 nc|ENSG00000151322|Q8IXF0-4|NPAS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 775.0087280273438 2 775.010933 1548.00731 NaN NaN NaN NaN NaN NaN NaN 54.799 1 54.799 54.299 55.299 0 0 0 0 1.0082 1 25155 25155 0 0 1 12607 3699 7950 7972 14709 14709 0.2552298968996638 KHRSYLKEFRD 11 Unmodified _KHRSYLKEFRD_ 0 0 0 ENST00000598408.1_1_19:14675870-14676680:+|nuORF;nc|ENSG00000099797|Q9NZ01-2|TECR;ENST00000599101.5_1_19:14675534-14676680:+|nuORF;ENST00000593775.5_1_19:14675534-14676680:+|nuORF;ENSG00000099797|ENST00000215567|TECR ENST00000598408.1_1_19:14675870-14676680:+|nuORF ENST00000598408.1_1_19:14675870-14676680:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.59918212890625 3 493.600275 1477.779 NaN NaN NaN NaN NaN NaN NaN 82.255 1 82.34 81.84 82.84 0.084106 0 0 0 1.0051 1 40603 40603 4.1166 1.8639 1 12608 1150 7951 7973 14710 14710 0.05921727531790566 KHRTWQKIH 9 Unmodified _KHRTWQKIH_ 0 0 0 ENSG00000107581|ENST00000369144|EIF3A;nc|ENSG00000107581|Q14152-2|EIF3A ENSG00000107581|ENST00000369144|EIF3A ENSG00000107581|ENST00000369144|EIF3A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 617.3492431640625 2 617.351806 1232.68906 NaN NaN NaN NaN NaN NaN NaN 109.25 1 109.56 109.06 110.06 0.31015 0 0 0 0.91238 1 50367 50367 0.52476 0.066424 1 12609 1600 7952 7974 14711 14711 0.0820214271388977 KHVITLHVS 9 Unmodified _KHVITLHVS_ 0 0 0 CAMK1D-MCM5|1|fusion;ENST00000493076.5_1_22:35806581-35817581:+|nuORF;ENSG00000100297|ENST00000216122|MCM5 CAMK1D-MCM5|1|fusion CAMK1D-MCM5|1|fusion MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.48577880859375 3 345.209948 1032.60801 2.3557 0.00081322 0.023252 8.0269E-06 2.379 0.00082124 345.2099966597055 34.471 0.33175 35.094 34.94 35.271 0.62294 25 11 3 0 0 0 0.11267 1 15730 15730 2.7352 0.23671 1 664130 12610 98 7953 7975 14712 14712 0.09301441951129163 KHVRMKGRE 9 Unmodified _KHVRMKGRE_ 0 0 0 REV__nc|ENSG00000072110|P12814-4|ACTN1 REV__nc|ENSG00000072110|P12814-4|ACTN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.88690185546875 3 380.88547 1139.63458 2.6957 0.0010267 0.49477 0.00018845 3.1904 0.0012152 380.88557071688285 62.961 0.57253 63.21 62.798 63.37 0.24965 162 54 4 0 0 0 1.129 1 28904 28904 0.96228 0 1 19691000 + 12611 17868 7954 7976 14713 14713 0.07034807570835255 KIAQIVDKFLI 11 Unmodified _KIAQIVDKFLI_ 0 0 0 REV__nc|ENSG00000101333|Q15147-2|PLCB4 REV__nc|ENSG00000101333|Q15147-2|PLCB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.7074890136719 4 322.706329 1286.79621 2.4771 0.00079937 1.6392 0.00052899 4.1163 0.0013284 322.706789254561 65.769 0.076996 66.017 65.971 66.048 0.24847 6 4 2 0 0 0 0.91028 1 30141 30141 1.4551 0.24029 1 500840 + 12612 10887 7955 7977 14714 14714 0.16428255084883858 KICGKKTA 8 Unmodified _KICGKKTA_ 0 0 0 nc|ENSG00000172869|Q9Y485|DMXL1;ENSG00000172869|ENST00000539542|DMXL1 nc|ENSG00000172869|Q9Y485|DMXL1 nc|ENSG00000172869|Q9Y485|DMXL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 424.7564392089844 2 424.754756 847.494958 3.1334 0.0013309 1.5634 0.00066407 4.6968 0.001995 424.7552922395421 28.358 0.22948 28.358 28.279 28.508 0 20 14 2 0 0 0 0.7471 1 12802 12802 0.69038 0 1 704760 12613 4900 7956 7978 14715 14715 0.06511050233586957 KICGKKTA 8 Unmodified _KICGKKTA_ 0 0 0 nc|ENSG00000172869|Q9Y485|DMXL1;ENSG00000172869|ENST00000539542|DMXL1 nc|ENSG00000172869|Q9Y485|DMXL1 nc|ENSG00000172869|Q9Y485|DMXL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 424.75653076171875 2 424.754756 847.494958 2.9434 0.0012502 1.1718 0.00049774 4.1152 0.001748 424.75533887183565 27.779 0.28494 28.398 28.253 28.538 0.61947 27 19 2 0 0 0 0.7471 1 12720 12720 0.69038 0 1 530090 12614 4900 7956 7978 14716 14716 0.06511050233586957 KICGKKTA 8 Unmodified _KICGKKTA_ 0 0 0 nc|ENSG00000172869|Q9Y485|DMXL1;ENSG00000172869|ENST00000539542|DMXL1 nc|ENSG00000172869|Q9Y485|DMXL1 nc|ENSG00000172869|Q9Y485|DMXL1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 424.754756 847.494958 2.7801 0.0011808 1.4729 0.00062563 4.253 0.0018065 424.75525513576207 28.189 0.29964 28.452 28.304 28.604 0.26245 0.048923 6.7296E-05 NaN 0.69038 33 22 2 NaN NaN NaN NaN 0 NaN NaN 0 567760 12615 4900 7956 7978 0.06511050233586957 KICYFMRYWIL 11 Unmodified _KICYFMRYWIL_ 0 0 0 ENSG00000152689|ENST00000403687|RASGRP3;nc|ENSG00000152689|Q8IV61-2|RASGRP3;RASGRP3|p.V138Yfs*70|1|0.21|ENSG00000152689|chr2:33521992-33521992|A/-|frameshift_variant ENSG00000152689|ENST00000403687|RASGRP3 ENSG00000152689|ENST00000403687|RASGRP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 768.3974609375 2 768.398718 1534.78288 NaN NaN NaN NaN NaN NaN NaN 70.432 1 71.136 70.636 71.636 0.70386 0 0 0 1.008 1 33748 33748 0.35063 0 1 12616 3760 7957 7979 14717 14717 0.03688357709665979 KIEGKKERKNL 11 Unmodified _KIEGKKERKNL_ 0 0 0 REV__nc|ENSG00000133863|Q9BXT5|TEX15 REV__nc|ENSG00000133863|Q9BXT5|TEX15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 448.27862548828125 3 448.277021 1341.80923 3.6786 0.001649 -1.0657 -0.00047774 2.6129 0.0011713 448.27625981916935 99.294 0.1138 99.593 99.529 99.643 0.29987 10 7 2 0 0 0 0.91359 1 45869 45869 0.40827 0.24894 1 2339400 + 12617 11946 7958 7980 14718 14718 0.15200086197000928 KIEGKKERKNL 11 Unmodified _KIEGKKERKNL_ 0 0 0 REV__nc|ENSG00000133863|Q9BXT5|TEX15 REV__nc|ENSG00000133863|Q9BXT5|TEX15 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 448.277021 1341.80923 3.3236 0.0014899 -1.7499 -0.00078444 1.5737 0.00070545 448.27637060063864 99.172 0.10319 99.77 99.73 99.833 0.59747 0.088183 -0.00033232 NaN 0.40827 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 2524200 + 12618 11946 7958 7980 0.15200086197000928 KIFQKKKI 8 Unmodified _KIFQKKKI_ 0 0 0 nc|ENSG00000124313|Q5JU85-3|IQSEC2;ENSG00000124313|ENST00000642864|IQSEC2 nc|ENSG00000124313|Q5JU85-3|IQSEC2 nc|ENSG00000124313|Q5JU85-3|IQSEC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.8494873046875 2 516.850045 1031.68554 NaN NaN NaN NaN NaN NaN NaN 58.369 1 58.369 57.869 58.869 0 0 0 0 0.99035 1 26935 26935 2.5775 0.27475 1 12619 2356 7959 7981 14719 14719 0.1709607988730113 KIFQRKMRYWL 11 Unmodified _KIFQRKMRYWL_ 0 0 0 ENST00000432943.6_1_8:121160081-121289735:+|nuORF;COL14A1|p.G1581Kfs*38|1|0.03|ENSG00000187955|chr8:120332690-120332691|-/AAAAC|frameshift_variant;nc|ENSG00000187955|Q05707-3|COL14A1;nc|ENSG00000187955|Q05707-2|COL14A1;ENSG00000187955|ENST00000297848|COL14A1 ENST00000432943.6_1_8:121160081-121289735:+|nuORF ENST00000432943.6_1_8:121160081-121289735:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 785.3260498046875 2 784.947756 1567.88096 NaN NaN NaN NaN NaN NaN NaN 98.226 1 98.292 97.792 98.792 0.066025 0 0 0 1.008 1 52751 52751 0.30703 0.30703 1 12620 202 7960 7982 14720 14720 0.11973302349861115 KIGNKMMRA 9 Unmodified _KIGNKMMRA_ 0 0 0 ENSG00000125354|ENST00000394610|SEPTIN6;nc|ENSG00000125354|Q14141-4|SEPTIN6;nc|ENSG00000125354|Q14141|SEPTIN6;nc|ENSG00000125354|Q14141-3|SEPTIN6 ENSG00000125354|ENST00000394610|SEPTIN6 ENSG00000125354|ENST00000394610|SEPTIN6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.2084045410156 3 350.196656 1047.56814 NaN NaN NaN NaN NaN NaN NaN 41.797 1 42.067 41.567 42.567 0.27021 0 0 0 0.90611 1 19043 19043 2.7352 1.7729 1 12621 2395 7961 7983 14721 14721 0.046258556845486964 KIHRKLQPL 9 Unmodified _KIHRKLQPL_ 0 0 0 REV__ENSG00000129292|ENST00000395386|PHF20L1 REV__ENSG00000129292|ENST00000395386|PHF20L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.23895263671875 3 378.248625 1131.72405 NaN NaN NaN NaN NaN NaN NaN 77.757 1 78.42 77.92 78.92 0.66303 0 0 0 0.90965 1 35834 35834 1.1933 0 1 + 12622 11782 7962 7984 14722 14722 0.1634538552182221 KIIHLKPL 8 Unmodified _KIIHLKPL_ 0 0 0 REV__ENSG00000159212|ENST00000349499|CLIC6 REV__ENSG00000159212|ENST00000349499|CLIC6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 321.2222900390625 3 321.223417 960.648422 NaN NaN NaN NaN NaN NaN NaN 60.35 1 61.099 60.599 61.599 0.74927 0 0 0 0.99035 1 27827 27827 0.45834 0 1 + 12623 12846 7963 7985 14723 14723 0.16652408341542468 KIIKRKHTLP 10 Unmodified _KIIKRKHTLP_ 0 0 0 ENST00000489491.1_1_10:119049852-119133991:-|nuORF;ENSG00000165650|ENST00000334464|PDZD8 ENST00000489491.1_1_10:119049852-119133991:-|nuORF ENST00000489491.1_1_10:119049852-119133991:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.4437255859375 2 617.411332 1232.80811 NaN NaN NaN NaN NaN NaN NaN 58.218 1 58.218 57.718 58.718 0 0 0 0 0.99774 1 26855 26855 3.5965 0 1 12624 4413 7964 7986 14724 14724 0.20101916618750693 KIIRERRKKRI 11 Unmodified _KIIRERRKKRI_ 0 0 0 ENST00000562687.6_3_16:32769598-32772029:+|nuORF ENST00000562687.6_3_16:32769598-32772029:+|nuORF ENST00000562687.6_3_16:32769598-32772029:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 748.5014038085938 2 748.504618 1494.99468 NaN NaN NaN NaN NaN NaN NaN 91.502 1 91.502 91.002 92.002 0 0 0 0 1.0082 1 48353 48353 0 0 1 12625 8998 7965 7987 14725 14725 0.26698533507101274 KIIRERRKKRI 11 Unmodified _KIIRERRKKRI_ 0 0 0 ENST00000562687.6_3_16:32769598-32772029:+|nuORF ENST00000562687.6_3_16:32769598-32772029:+|nuORF ENST00000562687.6_3_16:32769598-32772029:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 748.206298828125 2 748.504618 1494.99468 NaN NaN NaN NaN NaN NaN NaN 103.98 1 104.04 103.54 104.54 0.052994 0 0 0 1.0082 1 56330 56330 0 0 1 12626 8998 7965 7987 14726 14726 0.26698533507101274 KIITKAKSLRI 11 Unmodified _KIITKAKSLRI_ 0 0 0 ENST00000495356.5_1_X:153052908-153059781:-|nuORF;nc|ENSG00000067829|P51553-2|IDH3G;ENSG00000067829|ENST00000217901|IDH3G ENST00000495356.5_1_X:153052908-153059781:-|nuORF ENST00000495356.5_1_X:153052908-153059781:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 635.9309692382812 2 635.932097 1269.84964 NaN NaN NaN NaN NaN NaN NaN 64.339 1 64.339 63.839 64.839 0 0 0 0 1.0063 1 30457 30457 2.4985 1.3051 1 12627 727 7966 7988 14727 14727 0.22551052587391496 KIKFLLPHRVL 11 Unmodified _KIKFLLPHRVL_ 0 0 0 ENST00000413663.1_1_3:43526466-43526670:-|nuORF ENST00000413663.1_1_3:43526466-43526670:-|nuORF ENST00000413663.1_1_3:43526466-43526670:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.4784240722656 4 341.728867 1362.88636 2.4519 0.00083788 -1.3088 -0.00044727 1.1431 0.00039061 341.7282948213254 39.571 0.58747 39.838 39.347 39.934 0.26696 33 22 2 0 0 0 0.13295 1 17998 17998 0.094841 0.094841 1 476960 12628 7692 7967 7989 14728 14728 0.2194334920395704 KIKIRITS 8 Unmodified _KIKIRITS_ 0 0 0 ENST00000588783.5_1_17:74729898-74729976:+|nuORF ENST00000588783.5_1_17:74729898-74729976:+|nuORF ENST00000588783.5_1_17:74729898-74729976:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.289306640625 2 479.824027 957.633501 NaN NaN NaN NaN NaN NaN NaN 89.172 1 89.423 88.923 89.923 0.25118 0 0 0 0.99035 1 41014 41014 0.6015 0 1 12629 9210 7968 7990 14729 14729 0.15298916473545887 KIKKITAIV 9 Unmodified _KIKKITAIV_ 0 0 0 CON__Q28107 CON__Q28107 CON__Q28107 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.3575744628906 2 507.357702 1012.70085 NaN NaN NaN NaN NaN NaN NaN 34.093 1 34.882 34.382 35.382 0.78921 0 0 0 0.91452 1 15437 15437 0 0 1 + 12630 228 7969 7991 14730 14730 0.1950094668447946 KIKKKKKKKH 10 Unmodified _KIKKKKKKKH_ 0 0 0 nc|ENSG00000081019|Q5VWQ0-4|RSBN1;RSBN1|p.N713Mfs*14|1|0.06|ENSG00000081019|chr1:113766251-113766252|-/GATATGTACATATTCAAACACA|frameshift_variant;ENSG00000081019|ENST00000261441|RSBN1 nc|ENSG00000081019|Q5VWQ0-4|RSBN1 nc|ENSG00000081019|Q5VWQ0-4|RSBN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.5458374023438 2 647.463899 1292.91324 NaN NaN NaN NaN NaN NaN NaN 54.569 1 54.569 54.069 55.069 0 0 0 0 1.002 1 25044 25044 0 0 1 12631 916 7970 7992 14731 14731 0.2785045781513418 KIKKKKKKKHR 11 Unmodified _KIKKKKKKKHR_ 0 0 0 nc|ENSG00000081019|Q5VWQ0-4|RSBN1;RSBN1|p.N713Mfs*14|1|0.06|ENSG00000081019|chr1:113766251-113766252|-/GATATGTACATATTCAAACACA|frameshift_variant;ENSG00000081019|ENST00000261441|RSBN1 nc|ENSG00000081019|Q5VWQ0-4|RSBN1 nc|ENSG00000081019|Q5VWQ0-4|RSBN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 725.5850219726562 2 725.514454 1449.01436 NaN NaN NaN NaN NaN NaN NaN 101.47 1 102.06 101.56 102.56 0.59717 0 0 0 1.0082 1 46979 46979 0 0 1 12632 916 7971 7993 14732 14732 0.3078090951782997 KIKKKYLRTWF 11 Unmodified _KIKKKYLRTWF_ 0 0 0 ENSG00000099822|ENST00000251287|HCN2 ENSG00000099822|ENST00000251287|HCN2 ENSG00000099822|ENST00000251287|HCN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 755.9661865234375 2 755.966471 1509.91839 NaN NaN NaN NaN NaN NaN NaN 60.192 1 60.448 59.948 60.948 0.25578 0 0 0 1.0082 1 27562 27562 0 0 1 12633 1155 7972 7994 14733 14733 0.18382716887072093 KIKLKKKRKRY 11 Unmodified _KIKLKKKRKRY_ 0 0 0 ENST00000495198.6_1_5:64023893-64064425:-|nuORF ENST00000495198.6_1_5:64023893-64064425:-|nuORF ENST00000495198.6_1_5:64023893-64064425:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 745.0130615234375 2 745.014287 1488.01402 NaN NaN NaN NaN NaN NaN NaN 88.85 1 89.101 88.601 89.601 0.25118 0 0 0 1.0082 1 40872 40872 0 0 1 12634 8429 7973 7995 14734 14734 0.28953489797982 KIKLKSSEL 9 Unmodified _KIKLKSSEL_ 0 0 0 nc|ENSG00000125970|Q9UKM9-2|RALY;ENSG00000125970|ENST00000246194|RALY nc|ENSG00000125970|Q9UKM9-2|RALY nc|ENSG00000125970|Q9UKM9-2|RALY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 349.2260437011719 3 349.225375 1044.6543 2.3704 0.00082781 -0.25381 -8.8638E-05 2.1166 0.00073917 349.2252241082626 14.445 0.30252 14.672 14.529 14.831 0.22622 61 24 3 0 0 0 0.15661 1 6359 6359 26.268 3.6101 1 733270 12635 2437 7974 7996 14735 14735 0.1337546206254956 KIKLKSSEL 9 Unmodified _KIKLKSSEL_ 0 0 0 nc|ENSG00000125970|Q9UKM9-2|RALY;ENSG00000125970|ENST00000246194|RALY nc|ENSG00000125970|Q9UKM9-2|RALY nc|ENSG00000125970|Q9UKM9-2|RALY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 349.2261047363281 3 349.225375 1044.6543 2.2895 0.00079954 -0.49037 -0.00017125 1.7991 0.00062829 349.2252870053447 14.18 0.085169 14.486 14.442 14.527 0.3069 21 9 3 0 0 0 0.049036 1 6413 6413 47.594 15.557 1 5926700 12636 2437 7974 7996 14736 14736 0.1337546206254956 KIKPGHIPVSK 11 Unmodified _KIKPGHIPVSK_ 0 0 0 ENST00000506314.1_1_4:109094188-109094809:+|nuORF;ENST00000508266.1_1_4:109092938-109094809:+|nuORF ENST00000506314.1_1_4:109094188-109094809:+|nuORF ENST00000506314.1_1_4:109094188-109094809:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.37939453125 2 602.38224 1202.74993 NaN NaN NaN NaN NaN NaN NaN 87.934 1 87.974 87.474 88.474 0.039955 0 0 0 1.0047 1 44663 44663 4.5289 1.2476 1 12637 8511 7975 7997 14737 14737 0.15666234973423343 KIKRTIREMRD 11 Unmodified _KIKRTIREMRD_ 0 0 0 REV__nc|ENSG00000106608|Q8TCY9-3|URGCP REV__nc|ENSG00000106608|Q8TCY9-3|URGCP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 723.41943359375 2 723.422102 1444.82965 NaN NaN NaN NaN NaN NaN NaN 89.028 1 89.279 88.779 89.779 0.25118 0 0 0 1.0063 1 40951 40951 2.4985 1.169 1 + 12638 11089 7976 7998 14738 14738 0.12502933585142273 KIKSRKAIKKK 11 Unmodified _KIKSRKAIKKK_ 0 0 0 REV__ENSG00000131469|ENST00000253788|RPL27 REV__ENSG00000131469|ENST00000253788|RPL27 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 664.4645385742188 2 664.466638 1326.91872 NaN NaN NaN NaN NaN NaN NaN 78.148 1 78.148 77.648 78.648 0 0 0 0 1.0082 1 38376 38376 0 0 1 + 12639 11859 7977 7999 14739 14739 0.2683413660693077 KIKTPKGTL 9 Unmodified _KIKTPKGTL_ 0 0 0 ENSG00000162779|ENST00000367618|AXDND1 ENSG00000162779|ENST00000367618|AXDND1 ENSG00000162779|ENST00000367618|AXDND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.3249206542969 2 493.32386 984.633166 2.9343 0.0014476 0.0066421 3.2767E-06 2.941 0.0014509 493.3239304238647 32.534 0.33319 33.322 33.165 33.498 0.78795 61 25 3 0 0 0 0.019364 2 14698 14698;14746 69.105 1.0242 1 1804800 12640 4168 7978 8000 14740;14741 14740 0.14023496753691234 KIKTPKGTL 9 Unmodified _KIKTPKGTL_ 0 0 0 ENSG00000162779|ENST00000367618|AXDND1 ENSG00000162779|ENST00000367618|AXDND1 ENSG00000162779|ENST00000367618|AXDND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.32696533203125 2 493.32386 984.633166 3.1042 0.0015314 1.6433 0.0008107 4.7476 0.0023421 493.32505812509453 32.917 0.31335 33.535 33.328 33.641 0.61831 29 12 3 0 0 0 0.023321 1 15102 15102 63.961 7.7835 1 1287400 12641 4168 7978 8000 14742 14742 0.14023496753691234 KILCFILVS 9 Unmodified _KILCFILVS_ 0 0 0 ENST00000302418.4_1_10:32299569-32299668:-|nuORF ENST00000302418.4_1_10:32299569-32299668:-|nuORF ENST00000302418.4_1_10:32299569-32299668:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.318359375 2 518.317189 1034.61982 3.6121 0.0018722 -0.85685 -0.00044412 2.7553 0.0014281 518.3166612393568 101.99 0.19219 102.59 102.51 102.7 0.59759 15 7 3 0 0 0 1.2126 1 47231 47231 0.52476 0 1 1619700 12642 6814 7979 8001 14743 14743 0.10389922650097105 KILLIIFVLII 11 Unmodified _KILLIIFVLII_ 0 0 0 nc|ENSG00000172752|A8TX70-2|COL6A5;ENSG00000172752|ENST00000373157|COL6A5;nc|ENSG00000172752|A8TX70|COL6A5 nc|ENSG00000172752|A8TX70-2|COL6A5 nc|ENSG00000172752|A8TX70-2|COL6A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 433.3126220703125 3 433.312232 1296.91487 NaN NaN NaN NaN NaN NaN NaN 70.193 1 70.896 70.396 71.396 0.70302 0 0 0 1.0082 1 33624 33624 0 0 1 12643 4888 7980 8002 14744 14744 0.27828654060567715 KILLLVLYL 9 Unmodified _KILLLVLYL_ 0 0 0 REV__ENST00000539764.1_3_11:73689441-73691800:-|nuORF REV__ENST00000539764.1_3_11:73689441-73691800:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.3775024414062 2 544.378103 1086.74165 NaN NaN NaN NaN NaN NaN NaN 79.07 1 79.321 78.821 79.821 0.25127 0 0 0 0.91342 1 36412 36412 0.6015 0 1 + 12644 17203 7981 8003 14745 14745 0.2017528800411128 KILMHLVDM 9 Unmodified _KILMHLVDM_ 0 0 0 ENST00000301399.11_1_19:52376656-52376935:-|nuORF ENST00000301399.11_1_19:52376656-52376935:-|nuORF ENST00000301399.11_1_19:52376656-52376935:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 367.5777893066406 3 367.204929 1098.59296 2.8553 0.0010485 3.4804 0.001278 6.3356 0.0023265 367.2064866056016 12.787 0.1692 13.43 13.345 13.514 0.64272 5 4 2 0 0 0 0.11293 1 5716 5716 2.4985 2.2295 1 154590 12645 6802 7982 8004 14746 14746 0.04760490767284864 KILPVLLLLL 10 Unmodified _KILPVLLLLL_ 0 0 0 REV__ENSG00000106809|ENST00000375561|OGN REV__ENSG00000106809|ENST00000375561|OGN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.9161987304688 2 567.914853 1133.81515 NaN NaN NaN NaN NaN NaN NaN 54.616 1 55.412 54.912 55.912 0.79552 0 0 0 1.002 1 24922 24922 0 0 1 + 12646 11100 7983 8005 14747 14747 0.2535983644661428 KILWARQLFH 10 Unmodified _KILWARQLFH_ 0 0 0 ENSG00000039139|ENST00000265104|DNAH5 ENSG00000039139|ENST00000265104|DNAH5 ENSG00000039139|ENST00000265104|DNAH5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.6981506347656 4 328.697567 1310.76116 2.2575 0.00074203 0.46579 0.00015311 2.7233 0.00089513 328.6976040138315 39.551 0.49948 39.551 39.23 39.729 0 45 20 3 0 0 0 0.9406 1 18021 18021 0.77653 0.27058 1 1302000 12647 525 7984 8006 14748 14748 0.11821057067572838 KILWARQLFH 10 Unmodified _KILWARQLFH_ 0 0 0 ENSG00000039139|ENST00000265104|DNAH5 ENSG00000039139|ENST00000265104|DNAH5 ENSG00000039139|ENST00000265104|DNAH5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.6983337402344 4 328.697567 1310.76116 2.2853 0.00075119 0.022054 7.249E-06 2.3074 0.00075844 328.6974372279335 45.484 0.46059 45.751 45.62 46.08 0.26768 20 16 2 0 0 0 0.12676 1 20861 20861 1.9064 0.79662 1 476460 12648 525 7984 8006 14749 14749 0.11821057067572838 KINYPRYFERL 11 Unmodified _KINYPRYFERL_ 0 0 0 REV__ENSG00000122254|ENST00000261374|HS3ST2 REV__ENSG00000122254|ENST00000261374|HS3ST2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.460205078125 4 375.459585 1497.80923 2.736 0.0010273 0.10061 3.7776E-05 2.8366 0.001065 375.4594653313035 69.894 1.145 70.151 69.867 71.012 0.25642 149 76 4 0 0 0 0.91328 1 32011 32011 0.50596 0.051438 1 1043600 + 12649 11579 7985 8007 14750 14750 0.08024086196974167 KIQGKFIYLLG 11 Unmodified _KIQGKFIYLLG_ 0 0 0 ENST00000481474.5_1_6:28876558-28891553:-|nuORF ENST00000481474.5_1_6:28876558-28891553:-|nuORF ENST00000481474.5_1_6:28876558-28891553:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 427.2657165527344 3 427.263941 1278.76999 3.2735 0.0013986 0.64149 0.00027409 3.915 0.0016727 427.26416021042604 54.016 0.3499 54.016 53.918 54.268 0 80 28 3 0 0 0 0.88721 1 24758 24758 1.2148 0.10508 1 17434000 12650 8293 7986 8008 14751 14751 0.14175985913379918 KIQGKFIYLLG 11 Unmodified _KIQGKFIYLLG_ 0 0 0 ENST00000481474.5_1_6:28876558-28891553:-|nuORF ENST00000481474.5_1_6:28876558-28891553:-|nuORF ENST00000481474.5_1_6:28876558-28891553:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 427.26507568359375 3 427.263941 1278.76999 2.5155 0.0010748 0.692 0.00029566 3.2075 0.0013704 427.2641305992262 52.707 0.70494 53.515 53.172 53.877 0.80791 172 45 4 0 0 0 0.88721 3 23997 23997;24042;24185 2.6312 1.5215 1 31818000 12651 8293 7986 8008 14752;14753;14754 14752 0.14175985913379918 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.2386474609375 4 362.986612 1447.91734 2.6074 0.00094646 0.65623 0.0002382 3.2637 0.0011847 362.9867290509022 43.065 0.36626 43.065 42.828 43.194 0 85 29 5 0 0 0 0.91359 2 19586 19586;19639 0.40827 0.26837 1 51819000 12652 7259 7987 8009 14755;14756 14755 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.2377624511719 4 362.986612 1447.91734 2.6072 0.00094636 0.15028 5.4551E-05 2.7574 0.0010009 363.2373881215194 43.271 0.29801 43.271 43.146 43.444 0 96 66 2 0 0 0 0.91359 1 19682 19682 0.40827 0.26837 1 77559000 12653 7259 7987 8009 14757 14757 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.2384338378906 4 362.986612 1447.91734 2.6131 0.00094851 0.5561 0.00020186 3.1692 0.0011504 362.98669438501986 43.723 0.44697 43.723 43.458 43.905 0 137 45 4 0 0 0 0.91462 1 19926 19926 0.08335 0.08335 1 48060000 12654 7259 7987 8009 14758 14758 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 725.4715576171875 2 724.965948 1447.91734 3.6174 0.0026225 1.0363 0.00075126 4.6536 0.0033737 724.9665577357594 45.275 0.74227 45.275 45.069 45.811 0 100 37 3 0 0 0 0.91345 3 20780 20780;20873;20928 0.30703 0.30703 1 2362500 12655 7259 7987 8009 14759;14760;14761 14759 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.98809814453125 4 362.986612 1447.91734 2.7013 0.00098054 0.77933 0.00028289 3.4806 0.0012634 362.9866825895441 48.865 0.68579 48.865 48.336 49.022 0 88 41 3 0 0 0 0.91359 1 22383 22383 0.40827 0.26837 1 1182600 12656 7259 7987 8009 14762 14762 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.9878845214844 4 362.986612 1447.91734 2.2973 0.00083387 1.0289 0.00037349 3.3262 0.0012074 362.9869601836541 42.12 0.32777 42.929 42.72 43.047 0.80856 87 29 5 0 0 0 0.91359 1 19095 19095 0.40827 0.24894 1 74855000 12657 7259 7987 8009 14763 14763 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.47015380859375 3 483.646391 1447.91734 3.0357 0.0014682 0.67963 0.0003287 3.7153 0.0017969 483.6466545109606 44.574 0.87072 45.395 44.859 45.729 0.82075 76 45 2 0 0 0 0.91462 2 20346 20346;20358 0.08335 0.08335 1 2320200 12658 7259 7987 8009 14764;14765 14764 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.98797607421875 4 362.986612 1447.91734 2.6809 0.00097315 0.57065 0.00020714 3.2516 0.0011803 362.9867890543569 42.757 0.40378 43.027 42.681 43.085 0.27021 94 22 6 0 0 0 0.91359 1 19454 19454 0.40827 0.26837 1 172050000 12659 7259 7987 8009 14766 14766 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.9879455566406 4 362.986612 1447.91734 2.4606 0.00089316 0.77861 0.00028263 3.2392 0.0011758 362.9868567910303 45.038 1.369 45.306 44.634 46.003 0.26768 162 59 5 0 0 0 0.91104 2 20422 20422;20576 1.2148 1.0749 1 37162000 12660 7259 7987 8009 14767;14768 14767 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 724.9680786132812 2 724.965948 1447.91734 3.6405 0.0026393 0.35487 0.00025727 3.9954 0.0028965 724.965902900044 44.747 0.5895 45.014 44.666 45.255 0.26768 71 27 3 0 0 0 0.91462 1 20508 20508 0.30703 0.30703 1 2770900 12661 7259 7987 8009 14769 14769 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 724.9689331054688 2 724.965948 1447.91734 3.683 0.00267 0.74058 0.0005369 4.4236 0.0032069 725.4678519751775 45.247 0.60162 45.515 45.172 45.774 0.26768 62 25 3 0 0 0 0.91345 1 20615 20615 0.30703 0.30703 1 2797400 12662 7259 7987 8009 14770 14770 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.23822021484375 4 362.986612 1447.91734 2.8236 0.0010249 0.3307 0.00012004 3.1544 0.001145 362.9866426392085 47.627 1.2008 47.891 47.368 48.569 0.26363 111 61 2 0 0 0 0.91359 1 21827 21827 0.40827 0.24894 1 3449200 12663 7259 7987 8009 14771 14771 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.98773193359375 4 362.986612 1447.91734 2.7199 0.00098729 1.0385 0.00037695 3.7584 0.0013642 362.98702488212695 41.607 0.38916 42.252 41.962 42.351 0.64451 94 28 5 0 0 0 0.91359 1 18994 18994 0.40827 0.26837 1 115410000 12664 7259 7987 8009 14772 14772 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.9826965332031 3 483.646391 1447.91734 3.324 0.0016077 0.62813 0.00030379 3.9522 0.0019114 483.64663491485504 44.176 0.44779 44.826 44.775 45.223 0.64998 41 21 2 0 0 0 0.91462 1 20420 20420 0.08335 0.08335 1 5824500 12665 7259 7987 8009 14773 14773 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 362.986612 1447.91734 2.6072 0.00094636 0.15028 5.4551E-05 2.7574 0.0010009 363.2373881215194 43.271 0.29801 43.271 43.146 43.444 0 0.039805 7.7443E-05 NaN 0.40827 96 66 2 NaN NaN NaN NaN 0 NaN NaN 0 77559000 12666 7259 7987 8009 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 362.986612 1447.91734 2.6074 0.00094646 0.65623 0.0002382 3.2637 0.0011847 362.9867290509022 43.065 0.36626 43.065 42.828 43.194 0 -0.00088351 -0.00010609 NaN 0.40827 85 29 5 NaN NaN NaN NaN 0 NaN NaN 0 51819000 12667 7259 7987 8009 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 362.986612 1447.91734 2.7013 0.00098054 0.77933 0.00028289 3.4806 0.0012634 362.9866825895441 48.865 0.68579 48.865 48.336 49.022 0 0.21896 -0.00024604 NaN 0.40827 88 41 3 NaN NaN NaN NaN 0 NaN NaN 0 1182600 12668 7259 7987 8009 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 362.986612 1447.91734 2.293 0.00083233 -0.074309 -2.6973E-05 2.2187 0.00080535 363.23712816632985 42.383 0.035534 43.192 43.183 43.218 0.80855 -0.039805 -0.00024865 NaN 0.40827 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 24171000 12669 7259 7987 8009 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 362.986612 1447.91734 2.2973 0.00083387 1.0289 0.00037349 3.3262 0.0012074 362.9869601836541 42.12 0.32777 42.929 42.72 43.047 0.80856 0.070185 0.00050316 NaN 0.40827 87 29 5 NaN NaN NaN NaN 0 NaN NaN 0 74855000 12670 7259 7987 8009 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 362.986612 1447.91734 2.2937 0.00083259 0.75263 0.0002732 3.0463 0.0011058 363.2376636401007 42.322 0.052757 43.131 43.107 43.16 0.80856 0.065103 3.3876E-05 NaN 0.40827 9 8 2 NaN NaN NaN NaN 0 NaN NaN 0 7206300 12671 7259 7987 8009 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 362.986612 1447.91734 2.3154 0.00084048 1.0617 0.00038539 3.3772 0.0012259 363.23787267671804 47.689 0.62766 48.518 48.201 48.829 0.82915 -0.12783 0.00016398 NaN 0.40827 64 33 3 NaN NaN NaN NaN 0 NaN NaN 0 462330 12672 7259 7987 8009 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 362.986612 1447.91734 2.6809 0.00097315 0.57065 0.00020714 3.2516 0.0011803 362.9867890543569 42.757 0.40378 43.027 42.681 43.085 0.27021 0.16864 -0.00016225 NaN 0.40827 94 22 6 NaN NaN NaN NaN 0 NaN NaN 0 172050000 12673 7259 7987 8009 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 362.986612 1447.91734 2.6537 0.00096326 0.72023 0.00026143 3.3739 0.0012247 363.23756331405866 42.853 0.25243 43.123 43.08 43.332 0.27021 0.057158 -1.3178E-05 NaN 0.40827 77 34 3 NaN NaN NaN NaN 0 NaN NaN 0 54272000 12674 7259 7987 8009 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 724.965948 1447.91734 4.1213 0.0029878 0.82984 0.0006016 4.9511 0.0035894 724.9659570211692 44.686 0.2352 45.336 45.223 45.458 0.64998 -0.089194 0.00012297 NaN 0.30703 9 8 2 NaN NaN NaN NaN 0 NaN NaN 0 833210 12675 7259 7987 8009 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 362.986612 1447.91734 2.7125 0.00098461 0.46007 0.000167 3.1726 0.0011516 362.98669567083596 41.973 0.18848 42.62 42.584 42.773 0.64693 -0.23883 -0.0003228 NaN 0.40827 54 29 2 NaN NaN NaN NaN 0 NaN NaN 0 10011000 12676 7259 7987 8009 0.2113017924655196 KIRCLLKKKYR 11 Unmodified _KIRCLLKKKYR_ 0 0 0 ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 362.986612 1447.91734 2.6048 0.00094551 0.96612 0.00035069 3.5709 0.0012962 362.9868172785886 47.775 0.53494 48.429 48.147 48.682 0.65356 -0.21751 2.5166E-05 NaN 0.40827 46 22 3 NaN NaN NaN NaN 0 NaN NaN 0 1440800 12677 7259 7987 8009 0.2113017924655196 KIRESFMKQF 10 Unmodified _KIRESFMKQF_ 0 0 0 ENSG00000102452|ENST00000251127|NALCN;ENST00000497170.5_1_13:101795259-101997694:-|nuORF ENSG00000102452|ENST00000251127|NALCN ENSG00000102452|ENST00000251127|NALCN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 657.353759765625 2 657.355365 1312.69618 NaN NaN NaN NaN NaN NaN NaN 84.431 1 84.678 84.178 85.178 0.24757 0 0 0 0.9754 1 38859 38859 9.3831 2.0939 1 12678 1345 7988 8010 14774 14774 0.05233694479443329 KIRGQPRRPG 10 Unmodified _KIRGQPRRPG_ 0 0 0 REV__ENST00000368494.3_1_6:117996690-117996834:+|nuORF REV__ENST00000368494.3_1_6:117996690-117996834:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.856689453125 2 582.857255 1163.69996 NaN NaN NaN NaN NaN NaN NaN 83.784 1 84.032 83.532 84.532 0.24722 0 0 0 1.0003 1 38565 38565 1.4819 0 1 + 12679 15686 7989 8011 14775 14775 0.12465545088161889 KIRIILLYIFL 11 Unmodified _KIRIILLYIFL_ 0 0 0 ENSG00000136854|ENST00000373299|STXBP1;nc|ENSG00000136854|P61764-2|STXBP1 ENSG00000136854|ENST00000373299|STXBP1 ENSG00000136854|ENST00000373299|STXBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 703.0787963867188 2 702.970691 1403.92683 NaN NaN NaN NaN NaN NaN NaN 107.82 1 108.13 107.63 108.63 0.31421 0 0 0 1.0082 1 49733 49733 0 0 1 12680 2981 7990 8012 14776 14776 0.24102270803768988 KIRIRAYRWEL 11 Unmodified _KIRIRAYRWEL_ 0 0 0 ENST00000509297.5_1_5:135469115-135469187:+|nuORF ENST00000509297.5_1_5:135469115-135469187:+|nuORF ENST00000509297.5_1_5:135469115-135469187:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.1607360839844 3 501.96841 1502.8834 3.3447 0.0016789 -0.66498 -0.0003338 2.6797 0.0013451 501.96848542977204 42.381 0.26003 42.651 42.524 42.784 0.27021 16 13 2 0 0 0 0.13295 1 19326 19326 2.2527 1.7468 1 597790 12681 8539 7991 8013 14777 14777 0.15207474079147687 KIRIRAYRWEL 11 Unmodified _KIRIRAYRWEL_ 0 0 0 ENST00000509297.5_1_5:135469115-135469187:+|nuORF ENST00000509297.5_1_5:135469115-135469187:+|nuORF ENST00000509297.5_1_5:135469115-135469187:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 501.96841 1502.8834 2.9739 0.0014928 -0.63351 -0.000318 2.3404 0.0011748 502.3020439347163 41.628 0.12965 42.431 42.41 42.539 0.80351 -0.11007 2.7273E-05 NaN 2.2527 16 11 2 NaN NaN NaN NaN 0 NaN NaN 0 511310 12682 8539 7991 8013 0.15207474079147687 KIRKRYLKRRG 11 Unmodified _KIRKRYLKRRG_ 0 0 0 ENSG00000065600|ENST00000261455|PACC1;nc|ENSG00000065600|Q9H813-2|PACC1 ENSG00000065600|ENST00000261455|PACC1 ENSG00000065600|ENST00000261455|PACC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 737.366455078125 2 737.483686 1472.95282 NaN NaN NaN NaN NaN NaN NaN 97.314 1 97.604 97.104 98.104 0.28923 0 0 0 1.0082 1 44698 44698 0 0 1 12683 694 7992 8014 14778 14778 0.2352597781853092 KIRLLGVHKKV 11 Unmodified _KIRLLGVHKKV_ 0 0 0 REV__nc|ENSG00000020922|P49959-2|MRE11 REV__nc|ENSG00000020922|P49959-2|MRE11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.962158203125 3 430.962597 1289.86596 NaN NaN NaN NaN NaN NaN NaN 35.763 1 36.389 35.889 36.889 0.62631 0 0 0 1.0082 1 16381 16381 0.094841 0 1 + 12684 10264 7993 8015 14779 14779 0.23262178544155176 KIRRKIKNK 9 Unmodified _KIRRKIKNK_ 0 0 0 CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant;nc|ENSG00000182158|Q70SY1-2|CREB3L2;ENSG00000182158|ENST00000330387|CREB3L2;ENST00000330387.10_1_7:137590448-137590511:-|nuORF CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.2130126953125 2 592.409124 1182.80369 NaN NaN NaN NaN NaN NaN NaN 77.79 1 78.351 77.851 78.851 0.56091 0 0 0 0.90699 1 37765 37765 1.8442 0.51471 1 12685 244 7994 8016 14780 14780 0.21960452195821745 KIRRRRYVRR 10 Unmodified _KIRRRRYVRR_ 0 0 0 REV__ENST00000261192.11_1_12:25054751-25054805:-|nuORF REV__ENST00000261192.11_1_12:25054751-25054805:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 729.9696655273438 2 729.971277 1457.928 NaN NaN NaN NaN NaN NaN NaN 65.542 1 66.251 65.751 66.751 0.70891 0 0 0 1.0015 1 31010 31010 0.40072 0 1 + 12686 14960 7995 8017 14781 14781 0.21735342735837548 KIVIKNKFLIF 11 Unmodified _KIVIKNKFLIF_ 0 0 0 REV__nc|ENSG00000181381|Q5H9U9-2|DDX60L REV__nc|ENSG00000181381|Q5H9U9-2|DDX60L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.4783020019531 4 341.477246 1361.87988 2.4437 0.00083447 1.0296 0.00035158 3.4733 0.0011861 341.4775914930347 35.856 0.4392 36.111 35.842 36.281 0.25524 60 18 4 0 0 0 0.91462 1 16339 16339 0.08335 0.08335 1 1886700 + 12687 13853 7996 8018 14782 14782 0.21341411252569742 KIVIKNKFLIF 11 Unmodified _KIVIKNKFLIF_ 0 0 0 REV__nc|ENSG00000181381|Q5H9U9-2|DDX60L REV__nc|ENSG00000181381|Q5H9U9-2|DDX60L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.96893310546875 3 454.967236 1361.87988 2.7609 0.0012561 0.95574 0.00043483 3.7167 0.001691 454.96772518825395 35.878 0.38853 36.134 35.866 36.254 0.25524 25 15 2 0 0 0 0.91459 1 16368 16368 0.094841 0.094841 1 268260 + 12688 13853 7996 8018 14783 14783 0.21341411252569742 KIVIKNKFLIF 11 Unmodified _KIVIKNKFLIF_ 0 0 0 REV__nc|ENSG00000181381|Q5H9U9-2|DDX60L REV__nc|ENSG00000181381|Q5H9U9-2|DDX60L MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 341.477246 1361.87988 2.2975 0.00078453 1.1135 0.00038023 3.4109 0.0011648 341.4775692903094 35.967 0.53931 35.967 35.604 36.143 0 -0.10891 -0.00013842 NaN 0.08335 100 31 4 NaN NaN NaN NaN 0 NaN NaN 0 2709900 + 12689 13853 7996 8018 0.21341411252569742 KIVIKNKFLIF 11 Unmodified _KIVIKNKFLIF_ 0 0 0 REV__nc|ENSG00000181381|Q5H9U9-2|DDX60L REV__nc|ENSG00000181381|Q5H9U9-2|DDX60L MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 341.477246 1361.87988 2.4352 0.00083156 1.2126 0.00041407 3.6478 0.0012456 341.47758762500234 35.455 0.37368 36.246 36.033 36.406 0.79132 0.17051 -3.0545E-06 NaN 0.08335 65 22 4 NaN NaN NaN NaN 0 NaN NaN 0 1457500 + 12690 13853 7996 8018 0.21341411252569742 KIVIKNKFLIF 11 Unmodified _KIVIKNKFLIF_ 0 0 0 REV__nc|ENSG00000181381|Q5H9U9-2|DDX60L REV__nc|ENSG00000181381|Q5H9U9-2|DDX60L MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 341.477246 1361.87988 2.4207 0.00082662 1.5451 0.00052762 3.9658 0.0013542 341.47770680127604 35.353 0.52491 35.979 35.771 36.296 0.62631 -0.096477 0.00045112 NaN 0.08335 37 17 3 NaN NaN NaN NaN 0 NaN NaN 0 2420100 + 12691 13853 7996 8018 0.21341411252569742 KIVSKLTK 8 Unmodified _KIVSKLTK_ 0 0 0 ENST00000395699.3_1_7:44923210-44923270:-|nuORF ENST00000395699.3_1_7:44923210-44923270:-|nuORF ENST00000395699.3_1_7:44923210-44923270:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 306.2117919921875 3 306.211177 915.611703 1.7745 0.00054337 -0.020265 -6.2054E-06 1.7542 0.00053717 306.21094570618425 13.527 0.17942 13.834 13.712 13.891 0.30727 27 14 3 0 0 0 0.49519 1 6073 6073 21.537 0 1 257770 12692 7558 7997 8019 14784 14784 0.15052111724980932 KIVSKLTK 8 Unmodified _KIVSKLTK_ 0 0 0 ENST00000395699.3_1_7:44923210-44923270:-|nuORF ENST00000395699.3_1_7:44923210-44923270:-|nuORF ENST00000395699.3_1_7:44923210-44923270:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 306.211177 915.611703 2.0478 0.00062707 -1.1725 -0.00035903 0.87536 0.00026805 306.21058222530803 13.542 0.1032 13.786 13.747 13.85 0.24346 -0.024097 -0.00046626 NaN 21.537 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 224070 12693 7558 7997 8019 0.15052111724980932 KIWLAAHWEKK 11 Unmodified _KIWLAAHWEKK_ 0 0 0 nc|ENSG00000244588|Q9H4I0-2|RAD21L1;ENSG00000244588|ENST00000683101|RAD21L1;nc|ENSG00000244588|Q9H4I0|RAD21L1 nc|ENSG00000244588|Q9H4I0-2|RAD21L1 nc|ENSG00000244588|Q9H4I0-2|RAD21L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 353.20770263671875 4 353.206762 1408.79794 2.4027 0.00084865 0.053595 1.893E-05 2.4563 0.00086758 353.206588360315 54.643 0.82857 55.309 55.145 55.974 0.6665 114 49 3 0 0 0 0.91068 1 25008 25008 0.45452 0 1 4147300 12694 6252 7998 8020 14785 14785 0.10989308893476846 KIYEMRMMMDF 11 Unmodified _KIYEMRMMMDF_ 0 0 0 nc|ENSG00000148584|Q9NQ94-6|A1CF;nc|ENSG00000148584|Q9NQ94-3|A1CF;ENSG00000148584|ENST00000373997|A1CF;nc|ENSG00000148584|Q9NQ94|A1CF;nc|ENSG00000148584|Q9NQ94-4|A1CF nc|ENSG00000148584|Q9NQ94-6|A1CF nc|ENSG00000148584|Q9NQ94-6|A1CF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 747.8326416015625 2 747.834236 1493.65392 NaN NaN NaN NaN NaN NaN NaN 57.686 1 57.686 57.186 58.186 0 0 0 0 1.0074 1 26597 26597 1.0715 0.72083 1 12695 3609 7999 8021 14786 14786 -0.07316108307122704 KKAAAKILQT 10 Unmodified _KKAAAKILQT_ 0 0 0 ENST00000489072.5_1_21:40717866-40720548:-|nuORF ENST00000489072.5_1_21:40717866-40720548:-|nuORF ENST00000489072.5_1_21:40717866-40720548:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.3464965820312 2 536.347866 1070.68118 NaN NaN NaN NaN NaN NaN NaN 61.68 1 62.41 61.91 62.91 0.73077 0 0 0 0.95221 1 28637 28637 13.042 4.2971 1 12696 8374 8000 8022 14787 14787 0.14866570673734714 KKAAAKRMA 9 Unmodified _KKAAAKRMA_ 0 0 0 REV__ENST00000477971.3_1_4:76957905-76958040:-|nuORF REV__ENST00000477971.3_1_4:76957905-76958040:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.8008117675781 2 487.800029 973.585505 NaN NaN NaN NaN NaN NaN NaN 61.562 1 62.292 61.792 62.792 0.73077 0 0 0 0.86044 1 28569 28569 7.2892 2.0586 1 + 12697 11809 8001 8023 14788 14788 0.0976551928185927 KKAAAPKKKG 10 Unmodified _KKAAAPKKKG_ 0 0 0 REV__ENST00000527097.5_1_11:47193699-47198404:-|nuORF REV__ENST00000527097.5_1_11:47193699-47198404:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.0457763671875 2 513.842751 1025.67095 NaN NaN NaN NaN NaN NaN NaN 75.533 1 75.79 75.29 76.29 0.25704 0 0 0 0.99995 1 34760 34760 1.4819 0 1 + 12698 12560 8002 8024 14789 14789 0.15914007739161207 KKAAICKK 8 Unmodified _KKAAICKK_ 0 0 0 REV__nc|ENSG00000171824|Q01780-2|EXOSC10 REV__nc|ENSG00000171824|Q01780-2|EXOSC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 445.3349914550781 2 445.286223 888.557893 NaN NaN NaN NaN NaN NaN NaN 64.034 1 64.034 63.534 64.534 0 0 0 0 0.99035 1 30241 30241 2.3027 1.6124 1 + 12699 13521 8003 8025 14790 14790 0.1091561602161164 KKAAKRKIKEK 11 Unmodified _KKAAKRKIKEK_ 0 0 0 ENSG00000155850|ENST00000286298|SLC26A2 ENSG00000155850|ENST00000286298|SLC26A2 ENSG00000155850|ENST00000286298|SLC26A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 664.4497680664062 2 664.448446 1326.88234 NaN NaN NaN NaN NaN NaN NaN 71.705 1 72.409 71.909 72.909 0.70386 0 0 0 1.0073 1 34462 34462 1.1933 0.79263 1 12700 3878 8004 8026 14791 14791 0.23197259710264007 KKAANRSWQN 10 Unmodified _KKAANRSWQN_ 0 0 0 nc|ENSG00000173898|O15020-2|SPTBN2;ENSG00000173898|ENST00000533211|SPTBN2;ENST00000530775.1_1_11:66454463-66454959:-|nuORF nc|ENSG00000173898|O15020-2|SPTBN2 nc|ENSG00000173898|O15020-2|SPTBN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.1483764648438 2 601.823078 1201.6316 NaN NaN NaN NaN NaN NaN NaN 68.538 1 69.24 68.74 69.74 0.70218 0 0 0 0.97944 1 32681 32681 8.7454 1.4562 1 12701 4957 8005 8027 14792 14792 0.03885255717659675 KKAAPEWMELR 11 Unmodified _KKAAPEWMELR_ 0 0 0 ENST00000520709.5_1_8:92007907-92052988:-|nuORF ENST00000520709.5_1_8:92007907-92052988:-|nuORF ENST00000520709.5_1_8:92007907-92052988:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 453.58203125 3 453.579823 1357.71764 NaN NaN NaN NaN NaN NaN NaN 68.659 1 69.362 68.862 69.862 0.70218 0 0 0 1.0064 1 32758 32758 2.4348 0.18206 1 12702 8634 8006 8028 14793 14793 0.05309079508151626 KKAAPKSSRA 10 Unmodified _KKAAPKSSRA_ 0 0 0 REV__ENSG00000101126|ENST00000621696|ADNP REV__ENSG00000101126|ENST00000621696|ADNP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.4663696289062 2 522.31964 1042.62473 NaN NaN NaN NaN NaN NaN NaN 65.227 1 65.227 64.727 65.727 0 0 0 0 0.99572 1 31038 31038 5.2969 0.066215 1 + 12703 10867 8007 8029 14794 14794 0.1051194283706991 KKAARDYE 8 Unmodified _KKAARDYE_ 0 0 0 nc|ENSG00000160710|P55265-5|ADAR;ENSG00000160710|ENST00000368474|ADAR;nc|ENSG00000160710|P55265-4|ADAR;nc|ENSG00000160710|P55265-3|ADAR;nc|ENSG00000160710|P55265-2|ADAR nc|ENSG00000160710|P55265-5|ADAR nc|ENSG00000160710|P55265-5|ADAR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.96209716796875 2 490.761623 979.508694 NaN NaN NaN NaN NaN NaN NaN 65.415 1 66.124 65.624 66.624 0.70891 0 0 0 0.89651 1 30939 30939 12.532 2.3482 1 12704 4072 8008 8030 14795 14795 0.01811999266362818 KKAFKHKHHLI 11 Unmodified _KKAFKHKHHLI_ 0 0 0 nc|ENSG00000169554|O60315-2|ZEB2;ENSG00000169554|ENST00000627532|ZEB2;nc|ENSG00000148516|P37275-4|ZEB1;nc|ENSG00000148516|P37275-3|ZEB1;nc|ENSG00000148516|P37275-5|ZEB1;ENST00000488625.6_1_10:31676182-31816189:+|nuORF;nc|ENSG00000148516|P37275|ZEB1;ENSG00000148516|ENST00000424869|ZEB1 nc|ENSG00000169554|O60315-2|ZEB2;nc|ENSG00000148516|P37275-4|ZEB1 nc|ENSG00000148516|P37275-4|ZEB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.2030334472656 3 462.954212 1385.84081 NaN NaN NaN NaN NaN NaN NaN 68.147 1 68.849 68.349 69.349 0.70218 0 0 0 1.0073 1 32478 32478 0.40827 0 1 12705 9684;4695 8009 8031 14796 14796 0.16332123741608484 KKAFLVRKK 9 Unmodified _KKAFLVRKK_ 0 0 0 REV__ENSG00000039537|ENST00000337836|C6 REV__ENSG00000039537|ENST00000337836|C6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.2605590820312 2 559.382043 1116.74953 NaN NaN NaN NaN NaN NaN NaN 82.581 1 82.626 82.126 83.126 0.045006 0 0 0 0.90777 1 40795 40795 1.6526 1.0511 1 + 12706 10312 8010 8032 14797 14797 0.19582860044260997 KKAIQRYVQLK 11 Unmodified _KKAIQRYVQLK_ 0 0 0 ENST00000481947.1_1_16:105509-105883:+|nuORF;ENSG00000161981|ENST00000293861|SNRNP25;nc|ENSG00000161981|Q9BV90|SNRNP25 ENST00000481947.1_1_16:105509-105883:+|nuORF ENST00000481947.1_1_16:105509-105883:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 458.9571533203125 3 458.957511 1373.8507 NaN NaN NaN NaN NaN NaN NaN 61.864 1 62.595 62.095 63.095 0.73077 0 0 0 1.0073 1 28750 28750 1.2148 0.51716 1 12707 4113 8011 8033 14798 14798 0.1787326695630327 KKAKAIKLILL 11 Unmodified _KKAKAIKLILL_ 0 0 0 CX3CR1|p.E279Rfs*10|1|0.13|ENSG00000168329|chr3:39265676-39265676|A/-|frameshift_variant;ENSG00000168329|ENST00000399220|CX3CR1;nc|ENSG00000168329|P49238-3|CX3CR1;nc|ENSG00000168329|P49238-4|CX3CR1;nc|ENSG00000168329|P49238-2|CX3CR1 CX3CR1|p.E279Rfs*10|1|0.13|ENSG00000168329|chr3:39265676-39265676|A/-|frameshift_variant CX3CR1|p.E279Rfs*10|1|0.13|ENSG00000168329|chr3:39265676-39265676|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.95068359375 2 619.949759 1237.88496 NaN NaN NaN NaN NaN NaN NaN 24.263 1 24.263 23.763 24.763 0 0 0 0 1.0082 1 10906 10906 0 0 1 12708 255 8012 8034 14799 14799 0.2755371511523208 KKAKAIKLILL 11 Unmodified _KKAKAIKLILL_ 0 0 0 CX3CR1|p.E279Rfs*10|1|0.13|ENSG00000168329|chr3:39265676-39265676|A/-|frameshift_variant;ENSG00000168329|ENST00000399220|CX3CR1;nc|ENSG00000168329|P49238-3|CX3CR1;nc|ENSG00000168329|P49238-4|CX3CR1;nc|ENSG00000168329|P49238-2|CX3CR1 CX3CR1|p.E279Rfs*10|1|0.13|ENSG00000168329|chr3:39265676-39265676|A/-|frameshift_variant CX3CR1|p.E279Rfs*10|1|0.13|ENSG00000168329|chr3:39265676-39265676|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.9505004882812 2 619.949759 1237.88496 NaN NaN NaN NaN NaN NaN NaN 48.149 1 48.978 48.478 49.478 0.82915 0 0 0 1.0082 1 21935 21935 0 0 1 12709 255 8012 8034 14800 14800 0.2755371511523208 KKAKEKKLQI 10 Unmodified _KKAKEKKLQI_ 0 0 0 ENST00000316485.11_1_1:62349956-62367018:+|nuORF ENST00000316485.11_1_1:62349956-62367018:+|nuORF ENST00000316485.11_1_1:62349956-62367018:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.27288818359375 3 405.271207 1212.79179 NaN NaN NaN NaN NaN NaN NaN 62.565 1 63.296 62.796 63.796 0.73077 0 0 0 0.9952 1 29192 29192 3.0723 0 1 12710 6905 8013 8035 14801 14801 0.19390790661987012 KKAKKGRRKLK 11 Unmodified _KKAKKGRRKLK_ 0 0 0 MXRA5|p.T1078Efs*22|1|0.22|ENSG00000101825|chrX:3322444-3322453|TGGAGTGTGT/-|frameshift_variant;ENSG00000101825|ENST00000217939|MXRA5 MXRA5|p.T1078Efs*22|1|0.22|ENSG00000101825|chrX:3322444-3322453|TGGAGTGTGT/-|frameshift_variant MXRA5|p.T1078Efs*22|1|0.22|ENSG00000101825|chrX:3322444-3322453|TGGAGTGTGT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.9674072265625 2 670.96988 1339.92521 NaN NaN NaN NaN NaN NaN NaN 60.247 1 60.996 60.496 61.496 0.74927 0 0 0 1.0073 1 27758 27758 1.1933 0.79263 1 12711 1314 8014 8036 14802 14802 0.2688407455834749 KKAKKKLKA 9 Unmodified _KKAKKKLKA_ 0 0 0 REV__nc|ENSG00000167525|Q8NCQ7-2|PROCA1 REV__nc|ENSG00000167525|Q8NCQ7-2|PROCA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.8807983398438 2 521.876594 1041.73863 NaN NaN NaN NaN NaN NaN NaN 65.694 1 66.403 65.903 66.903 0.70891 0 0 0 0.90699 1 31090 31090 1.8442 0.19162 1 + 12712 13289 8015 8037 14803 14803 0.2194345766997685 KKAKKKLKAK 10 Unmodified _KKAKKKLKAK_ 0 0 0 REV__nc|ENSG00000167525|Q8NCQ7-2|PROCA1 REV__nc|ENSG00000167525|Q8NCQ7-2|PROCA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.9234619140625 2 585.924075 1169.8336 NaN NaN NaN NaN NaN NaN NaN 64.641 1 65.356 64.856 65.856 0.71521 0 0 0 1.0004 1 30463 30463 1.3295 0 1 + 12713 13289 8016 8038 14804 14804 0.25547391141139997 KKAKKKLKAK 10 Unmodified _KKAKKKLKAK_ 0 0 0 REV__nc|ENSG00000167525|Q8NCQ7-2|PROCA1 REV__nc|ENSG00000167525|Q8NCQ7-2|PROCA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.9220581054688 2 585.924075 1169.8336 NaN NaN NaN NaN NaN NaN NaN 99.685 1 99.748 99.248 100.25 0.062241 0 0 0 1.0003 1 53939 53939 1.4819 0 1 + 12714 13289 8016 8038 14805 14805 0.25547391141139997 KKAKNNIQ 8 Unmodified _KKAKNNIQ_ 0 0 0 ENSG00000007968|ENST00000361729|E2F2 ENSG00000007968|ENST00000361729|E2F2 ENSG00000007968|ENST00000361729|E2F2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.2899169921875 2 472.287808 942.561064 1.8837 0.00088965 0.65271 0.00030827 2.5364 0.0011979 472.288095146516 91.099 0.35159 91.174 91.016 91.367 0.075279 123 51 3 0 0 0 0.72385 1 47041 47041 0.69038 0 1 33726000 12715 370 8017 8039 14806 14806 0.08748582399982752 KKAKRKRV 8 Unmodified _KKAKRKRV_ 0 0 0 nc|ENSG00000070047|Q9P1Y6-2|PHRF1;nc|ENSG00000070047|Q9P1Y6-3|PHRF1;ENSG00000070047|ENST00000264555|PHRF1 nc|ENSG00000070047|Q9P1Y6-2|PHRF1 nc|ENSG00000070047|Q9P1Y6-2|PHRF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.35540771484375 2 507.35636 1012.69817 NaN NaN NaN NaN NaN NaN NaN 71.824 1 72.082 71.582 72.582 0.25786 0 0 0 0.99035 1 32944 32944 2.3027 0.4585 1 12716 758 8018 8040 14807 14807 0.19232536070217066 KKAKRLRKL 9 Unmodified _KKAKRLRKL_ 0 0 0 REV__ENST00000476363.1_1_15:37783031-37783127:+|nuORF REV__ENST00000476363.1_1_15:37783031-37783127:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.9078369140625 2 570.906217 1139.79788 NaN NaN NaN NaN NaN NaN NaN 72.88 1 73.544 73.044 74.044 0.66398 0 0 0 0.90699 1 33466 33466 1.8442 0 1 + 12717 11352 8019 8041 14808 14808 0.23357353684173177 KKAKTTKKIVL 11 Unmodified _KKAKTTKKIVL_ 0 0 0 ENST00000487216.1_1_19:21416232-21416373:+|nuORF;ENST00000493084.1_1_8:87029050-87029317:+|nuORF;ENST00000399253.3_1_X:140233088-140233355:+|nuORF;ENSG00000241343|ENST00000553110|RPL36A;ENSG00000165502|ENST00000298289|RPL36AL ENST00000487216.1_1_19:21416232-21416373:+|nuORF ENST00000487216.1_1_19:21416232-21416373:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 419.96002197265625 3 419.958741 1256.85439 NaN NaN NaN NaN NaN NaN NaN 71.652 1 71.91 71.41 72.41 0.25786 0 0 0 1.0079 1 32844 32844 0.40827 0.041592 1 12718 4403 8020 8042 14809 14809 0.23623936730177775 KKAKVDLL 8 Unmodified _KKAKVDLL_ 0 0 0 REV__ENST00000480924.3_1_12:87563815-87564172:-|nuORF REV__ENST00000480924.3_1_12:87563815-87564172:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 305.53961181640625 3 305.539294 913.596052 NaN NaN NaN NaN NaN NaN NaN 17.852 1 18.053 17.553 18.553 0.20057 0 0 0 0.62726 1 7913 7913 25.399 1.3787 1 + 12719 16696 8021 8043 14810 14810 0.1357982520794394 KKALALLLV 9 Unmodified _KKALALLLV_ 0 0 0 REV__nc|ENSG00000105499|Q9UP65-2|PLA2G4C REV__nc|ENSG00000105499|Q9UP65-2|PLA2G4C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.8992614746094 2 484.846971 967.679388 NaN NaN NaN NaN NaN NaN NaN 77.381 1 77.942 77.442 78.442 0.56091 0 0 0 0.90699 1 37533 37533 1.8442 0 1 + 12720 11037 8022 8044 14811 14811 0.194255616557939 KKALFRKIR 9 Unmodified _KKALFRKIR_ 0 0 0 REV__ENSG00000198918|ENST00000361575|RPL39 REV__ENSG00000198918|ENST00000361575|RPL39 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 580.55908203125 2 580.392942 1158.77133 NaN NaN NaN NaN NaN NaN NaN 73.256 1 73.256 72.756 73.756 0 0 0 0 0.90699 1 35687 35687 1.8442 1.3195 1 + 12721 14380 8023 8045 14812 14812 0.19829664792814583 KKALFVKL 8 Unmodified _KKALFVKL_ 0 0 0 nc|ENSG00000083799|Q9NQC7-2|CYLD;ENSG00000083799|ENST00000427738|CYLD;ENST00000563629.1_1_16:50783909-50820919:+|nuORF;ENST00000569891.5_1_16:50783609-50818363:+|nuORF nc|ENSG00000083799|Q9NQC7-2|CYLD nc|ENSG00000083799|Q9NQC7-2|CYLD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.78179931640625 2 473.826038 945.637523 NaN NaN NaN NaN NaN NaN NaN 66.374 1 66.374 65.874 66.874 0 0 0 0 0.99035 1 31716 31716 4.756 2.1785 1 12722 943 8024 8046 14813 14813 0.16253005967269019 KKALIGKERP 10 Unmodified _KKALIGKERP_ 0 0 0 REV__ENST00000610146.1_1_1:155951728-155952130:+|nuORF REV__ENST00000610146.1_1_1:155951728-155952130:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.6920166015625 3 380.580152 1138.71863 2.7782 0.0010573 -2.1592 -0.00082176 0.61894 0.00023556 380.91359486905316 57.937 0.27691 58.605 58.353 58.63 0.66829 21 15 2 0 0 0 0.12676 1 26508 26508 1.7423 0 1 2071000 + 12723 17682 8025 8047 14814 14814 0.15481661939361402 KKALILKKRRR 11 Unmodified _KKALILKKRRR_ 0 0 0 REV__ENSG00000257315|ENST00000550078|ZBED6 REV__ENSG00000257315|ENST00000550078|ZBED6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 705.4967041015625 2 705.498804 1408.98306 NaN NaN NaN NaN NaN NaN NaN 32.43 1 32.43 31.93 32.93 0 0 0 0 1.0082 1 14686 14686 0 0 1 + 12724 14680 8026 8048 14815 14815 0.29492336483735926 KKALILKKRRR 11 Unmodified _KKALILKKRRR_ 0 0 0 REV__ENSG00000257315|ENST00000550078|ZBED6 REV__ENSG00000257315|ENST00000550078|ZBED6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 705.156494140625 2 705.498804 1408.98306 NaN NaN NaN NaN NaN NaN NaN 91.13 1 91.13 90.63 91.63 0 0 0 0 1.0082 1 48051 48051 0 0 1 + 12725 14680 8026 8048 14816 14816 0.29492336483735926 KKALILKKRRR 11 Unmodified _KKALILKKRRR_ 0 0 0 REV__ENSG00000257315|ENST00000550078|ZBED6 REV__ENSG00000257315|ENST00000550078|ZBED6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 705.5014038085938 2 705.498804 1408.98306 NaN NaN NaN NaN NaN NaN NaN 60.573 1 61.312 60.812 61.812 0.7396 0 0 0 1.0073 1 27970 27970 1.1933 0.92432 1 + 12726 14680 8026 8048 14817 14817 0.29492336483735926 KKALKKRKQ 9 Unmodified _KKALKKRKQ_ 0 0 0 REV__nc|ENSG00000171804|Q6ZQQ6|WDR87 REV__nc|ENSG00000171804|Q6ZQQ6|WDR87 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.3955078125 2 564.3904 1126.76625 NaN NaN NaN NaN NaN NaN NaN 72.269 1 72.933 72.433 73.433 0.66324 0 0 0 0.90699 1 33140 33140 1.8442 0.19162 1 + 12727 13518 8027 8049 14818 14818 0.20793360930201743 KKANITFEYM 10 Unmodified _KKANITFEYM_ 0 0 0 ENSG00000147677|ENST00000521861|EIF3H ENSG00000147677|ENST00000521861|EIF3H ENSG00000147677|ENST00000521861|EIF3H MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 415.5491943359375 3 415.549641 1243.62709 NaN NaN NaN NaN NaN NaN NaN 65.084 1 65.084 64.584 65.584 0 0 0 0 1.0001 1 30942 30942 1.5923 0.57871 1 12728 3578 8028 8050 14819 14819 0.015026104598518941 KKANVFDFL 9 Unmodified _KKANVFDFL_ 0 0 0 REV__ENST00000293880.9_1_11:57098199-57100416:-|nuORF REV__ENST00000293880.9_1_11:57098199-57100416:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.7562866210938 2 541.305667 1080.59678 NaN NaN NaN NaN NaN NaN NaN 66.472 1 66.472 65.972 66.972 0 0 0 0 0.55812 1 31775 31775 17.113 1.2657 1 + 12729 12558 8029 8051 14820 14820 0.059706198569983826 KKAPAAKAGGP 11 Unmodified _KKAPAAKAGGP_ 0 0 0 nc|ENSG00000175216|Q14008-2|CKAP5;ENSG00000175216|ENST00000529230|CKAP5;nc|ENSG00000175216|Q14008-3|CKAP5 nc|ENSG00000175216|Q14008-2|CKAP5 nc|ENSG00000175216|Q14008-2|CKAP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.30316162109375 2 498.303458 994.592364 NaN NaN NaN NaN NaN NaN NaN 64.815 1 64.815 64.315 65.315 0 0 0 0 0.91901 1 30780 30780 14.405 4.3315 1 12730 5020 8030 8052 14821 14821 0.09485155434083481 KKAPAKKGEKV 11 Unmodified _KKAPAKKGEKV_ 0 0 0 ENST00000555320.1_1_14:81288942-81289137:+|nuORF;ENST00000261249.6_1_14:61438965-61439184:-|nuORF;ENST00000493418.1_1_1:26800500-26801161:+|nuORF;ENSG00000198830|ENST00000361427|HMGN2 ENST00000555320.1_1_14:81288942-81289137:+|nuORF ENST00000555320.1_1_14:81288942-81289137:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.3814697265625 2 592.379697 1182.74484 NaN NaN NaN NaN NaN NaN NaN 63.529 1 64.251 63.751 64.751 0.72236 0 0 0 0.99038 1 29766 29766 7.609 0 1 12731 5944 8031 8053 14822 14822 0.16077931110839927 KKAPAKKPEPE 11 Unmodified _KKAPAKKPEPE_ 0 0 0 REV__ENST00000446054.1_1_7:84506012-84506255:+|nuORF REV__ENST00000446054.1_1_7:84506012-84506255:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.8600463867188 2 611.861338 1221.70812 NaN NaN NaN NaN NaN NaN NaN 68.979 1 68.979 68.479 69.479 0 0 0 0 0.99038 1 33256 33256 7.609 1.8771 1 + 12732 16382 8032 8054 14823 14823 0.10613634494279722 KKAPAKKQQAQ 11 Unmodified _KKAPAKKQQAQ_ 0 0 0 REV__nc|ENSG00000169925|Q15059-2|BRD3 REV__nc|ENSG00000169925|Q15059-2|BRD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.3748779296875 2 613.372404 1224.73025 NaN NaN NaN NaN NaN NaN NaN 64.299 1 64.299 63.799 64.799 0 0 0 0 0.99038 1 30432 30432 7.609 0 1 + 12733 13409 8033 8055 14824 14824 0.12687858962704013 KKAPELILL 9 Unmodified _KKAPELILL_ 0 0 0 ENST00000607778.1_1_6:158613294-158613366:+|nuORF ENST00000607778.1_1_6:158613294-158613366:+|nuORF ENST00000607778.1_1_6:158613294-158613366:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.9627685546875 2 512.841885 1023.66922 NaN NaN NaN NaN NaN NaN NaN 67.84 1 67.84 67.34 68.34 0 0 0 0 0.87786 1 32598 32598 6.7232 0.99131 1 12734 9337 8034 8056 14825 14825 0.15832953930566873 KKAPKALKLP 10 Unmodified _KKAPKALKLP_ 0 0 0 ENSG00000182329|ENST00000498697|KIAA2012;nc|ENSG00000182329|Q0VF49|KIAA2012 ENSG00000182329|ENST00000498697|KIAA2012 ENSG00000182329|ENST00000498697|KIAA2012 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.3792724609375 2 547.376426 1092.7383 NaN NaN NaN NaN NaN NaN NaN 72.149 1 72.852 72.352 73.352 0.70386 0 0 0 0.99812 1 34698 34698 3.2813 1.4371 1 12735 5330 8035 8057 14826 14826 0.19564037950112834 KKAPQLEKDV 10 Unmodified _KKAPQLEKDV_ 0 0 0 ENST00000578618.5_1_18:5398595-5399237:-|nuORF ENST00000578618.5_1_18:5398595-5399237:-|nuORF ENST00000578618.5_1_18:5398595-5399237:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.548095703125 2 578.340238 1154.66592 NaN NaN NaN NaN NaN NaN NaN 74.869 1 75.533 75.033 76.033 0.6644 0 0 0 0.9952 1 34480 34480 5.7319 1.4026 1 12736 9137 8036 8058 14827 14827 0.09477659085882806 KKAPTARKTTT 11 Unmodified _KKAPTARKTTT_ 0 0 0 DCTN1|p.G1216Efs*33|1|0.17|ENSG00000204843|chr2:74362104-74362104|C/-|frameshift_variant;ENSG00000204843|ENST00000628224|DCTN1 DCTN1|p.G1216Efs*33|1|0.17|ENSG00000204843|chr2:74362104-74362104|C/-|frameshift_variant DCTN1|p.G1216Efs*33|1|0.17|ENSG00000204843|chr2:74362104-74362104|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 602.2922973632812 2 601.864412 1201.71427 NaN NaN NaN NaN NaN NaN NaN 76.393 1 76.393 75.893 76.893 0 0 0 0 0.97602 1 37437 37437 8.9762 0.23084 1 12737 258 8037 8059 14828 14828 0.12148152725785621 KKAPVHVKRWF 11 Unmodified _KKAPVHVKRWF_ 0 0 0 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.9529113769531 3 465.950579 1394.82991 3.5687 0.0016628 0.9475 0.00044149 4.5162 0.0021043 465.9509669094813 109.59 1.5741 109.9 108.73 110.3 0.31016 110 65 2 0 0 0 0.91459 1 50603 50603 0.094841 0 1 176970 12738 2962 8038 8060 14829 14829 0.14828721367302933 KKARKKKV 8 Unmodified _KKARKKKV_ 0 0 0 ENST00000493902.5_1_16:31047079-31051121:+|nuORF;ENST00000487411.5_1_16:31045754-31051121:+|nuORF;nc|ENSG00000103496|Q12846-2|STX4;ENSG00000103496|ENST00000313843|STX4 ENST00000493902.5_1_16:31047079-31051121:+|nuORF ENST00000493902.5_1_16:31047079-31051121:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.41546630859375 2 493.353286 984.692019 NaN NaN NaN NaN NaN NaN NaN 63.627 1 64.35 63.85 64.85 0.72236 0 0 0 0.99035 1 29828 29828 2.3027 0.24298 1 12739 1402 8039 8061 14830 14830 0.1990601783869579 KKARKSRL 8 Unmodified _KKARKSRL_ 0 0 0 ENST00000580193.1_1_18:14630000-14630792:-|nuORF;ENST00000444901.1_1_21:14899938-14900730:+|nuORF ENST00000580193.1_1_18:14630000-14630792:-|nuORF ENST00000580193.1_1_18:14630000-14630792:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 493.7469177246094 2 493.832717 985.650882 NaN NaN NaN NaN NaN NaN NaN 65.408 1 65.408 64.908 65.908 0 0 0 0 0.99035 1 31162 31162 2.3027 0 1 12740 7964 8040 8062 14831 14831 0.15748256799213323 KKARKSRL 8 Unmodified _KKARKSRL_ 0 0 0 ENST00000580193.1_1_18:14630000-14630792:-|nuORF;ENST00000444901.1_1_21:14899938-14900730:+|nuORF ENST00000580193.1_1_18:14630000-14630792:-|nuORF ENST00000580193.1_1_18:14630000-14630792:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 493.37078857421875 2 493.832717 985.650882 NaN NaN NaN NaN NaN NaN NaN 67.179 1 67.179 66.679 67.679 0 0 0 0 0.99035 1 32163 32163 5.2307 0.47466 1 12741 7964 8040 8062 14832 14832 0.15748256799213323 KKARKVFI 8 Unmodified _KKARKVFI_ 0 0 0 nc|ENSG00000108924|Q16534-2|HLF;ENST00000570962.1_1_17:53345105-53398237:+|nuORF;ENSG00000108924|ENST00000226067|HLF nc|ENSG00000108924|Q16534-2|HLF nc|ENSG00000108924|Q16534-2|HLF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.3330993652344 2 495.334562 988.65457 NaN NaN NaN NaN NaN NaN NaN 85.297 1 85.325 84.825 85.825 0.028603 0 0 0 0.99035 1 42674 42674 2.3027 0.24298 1 12742 1659 8041 8063 14833 14833 0.15978926573086483 KKARKVKH 8 Unmodified _KKARKVKH_ 0 0 0 nc|ENSG00000102316|Q9UNF1-2|MAGED2;ENSG00000102316|ENST00000375068|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.6794128417969 2 497.83526 993.655967 NaN NaN NaN NaN NaN NaN NaN 73.775 1 74.034 73.534 74.534 0.25876 0 0 0 0.99035 1 33895 33895 2.3027 0.4585 1 12743 1340 8042 8064 14834 14834 0.15888560661835527 KKARKVLRKKA 11 Unmodified _KKARKVLRKKA_ 0 0 0 REV__ENST00000573090.1_1_17:79213668-79214813:+|nuORF REV__ENST00000573090.1_1_17:79213668-79214813:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 663.4627075195312 2 663.46443 1324.91431 NaN NaN NaN NaN NaN NaN NaN 63.883 1 64.598 64.098 65.098 0.71521 0 0 0 1.0073 1 29990 29990 1.1933 0 1 + 12744 17458 8043 8065 14835 14835 0.26484672184051306 KKARNRIKKKK 11 Unmodified _KKARNRIKKKK_ 0 0 0 REV__ENST00000312438.7_1_11:67134982-67141182:-|nuORF REV__ENST00000312438.7_1_11:67134982-67141182:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.6549072265625 3 466.656166 1396.94667 NaN NaN NaN NaN NaN NaN NaN 64.294 1 64.294 63.794 64.794 0 0 0 0 1.0074 1 30428 30428 1.1098 0.74308 1 + 12745 15272 8044 8066 14836 14836 0.2640745958703974 KKARYRRWMAQ 11 Unmodified _KKARYRRWMAQ_ 0 0 0 REV__ENSG00000066279|ENST00000367409|ASPM REV__ENSG00000066279|ENST00000367409|ASPM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.6119079589844 3 498.613861 1492.81975 NaN NaN NaN NaN NaN NaN NaN 79.147 1 79.398 78.898 79.898 0.25127 0 0 0 1.0079 1 36447 36447 0.40827 0.31342 1 + 12746 10440 8045 8067 14837 14837 0.09305790370422073 KKASKGRRR 9 Unmodified _KKASKGRRR_ 0 0 0 nc|ENSG00000116539|Q9NR48|ASH1L;ENSG00000116539|ENST00000392403|ASH1L;ASH1L|p.P1413Sfs*29|1|0.04|ENSG00000116539|chr1:155478634-155478635|-/T|frameshift_variant nc|ENSG00000116539|Q9NR48|ASH1L nc|ENSG00000116539|Q9NR48|ASH1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.7457275390625 2 543.851973 1085.68939 NaN NaN NaN NaN NaN NaN NaN 97.548 1 98.147 97.647 98.647 0.59885 0 0 0 0.89983 1 44860 44860 3.5965 1.2938 1 12747 2031 8046 8068 14838 14838 0.1499756243374577 KKATRLHQ 8 Unmodified _KKATRLHQ_ 0 0 0 REV__ENSG00000138823|ENST00000265517|MTTP REV__ENSG00000138823|ENST00000265517|MTTP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.3018798828125 2 491.30125 980.587947 NaN NaN NaN NaN NaN NaN NaN 69.589 1 70.25 69.75 70.75 0.66071 0 0 0 0.99035 1 31904 31904 5.2307 0.90143 1 + 12748 12197 8047 8069 14839 14839 0.09687691011163224 KKATRTKRR 9 Unmodified _KKATRTKRR_ 0 0 0 ENST00000383686.2_1_3:110611078-110612293:-|nuORF ENST00000383686.2_1_3:110611078-110612293:-|nuORF ENST00000383686.2_1_3:110611078-110612293:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 572.4639282226562 2 572.872905 1143.73126 NaN NaN NaN NaN NaN NaN NaN 61.389 1 61.389 60.889 61.889 0 0 0 0 0.75166 1 28627 28627 10.824 6.4947 1 12749 7498 8048 8070 14840 14840 0.16514118122245236 KKATSLKV 8 Unmodified _KKATSLKV_ 0 0 0 PRB4|p.P146Hfs*111|1|0.18|ENSG00000230657|chr12:11308546-11308546|G/-|frameshift_variant PRB4|p.P146Hfs*111|1|0.18|ENSG00000230657|chr12:11308546-11308546|G/-|frameshift_variant PRB4|p.P146Hfs*111|1|0.18|ENSG00000230657|chr12:11308546-11308546|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.7898864746094 2 437.789653 873.564752 NaN NaN NaN NaN NaN NaN NaN 61.692 1 62.423 61.923 62.923 0.73077 0 0 0 0.99035 1 28647 28647 2.3027 0 1 12750 9910 8049 8071 14841 14841 0.12291252173849898 KKAVKVKKK 9 Unmodified _KKAVKVKKK_ 0 0 0 REV__ENST00000424922.5_2_7:134617935-134618007:+|nuORF REV__ENST00000424922.5_2_7:134617935-134618007:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.8438110351562 2 528.884419 1055.75428 NaN NaN NaN NaN NaN NaN NaN 67.583 1 67.583 67.083 68.083 0 0 0 0 0.90699 1 32451 32451 1.8442 1.3195 1 + 12751 16206 8050 8072 14842 14842 0.22863744187043267 KKAWLISA 8 Unmodified _KKAWLISA_ 0 0 0 ENSG00000170927|ENST00000371117|PKHD1;PKHD1|p.A1797Gfs*9|1|0.23|ENSG00000170927|chr6:52017624-52017625|-/G|frameshift_variant;nc|ENSG00000170927|P08F94-2|PKHD1 ENSG00000170927|ENST00000371117|PKHD1 ENSG00000170927|ENST00000371117|PKHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 458.7308349609375 2 458.78437 915.554188 NaN NaN NaN NaN NaN NaN NaN 74.14 1 74.399 73.899 74.899 0.25876 0 0 0 0.99035 1 34081 34081 4.756 0 1 12752 4777 8051 8073 14843 14843 0.09303269519421065 KKAWRREEKKL 11 Unmodified _KKAWRREEKKL_ 0 0 0 REV__ENST00000479314.1_1_3:44968183-44974766:-|nuORF REV__ENST00000479314.1_1_3:44968183-44974766:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.30047607421875 3 491.300048 1470.87832 3.4158 0.0016782 -1.8619 -0.00091475 1.5539 0.00076346 491.29895754696645 105.86 0.10281 106.46 106.38 106.49 0.59969 8 3 3 0 0 0 0.91359 1 48895 48895 0.40827 0.32491 1 435870 + 12753 13031 8052 8074 14844 14844 0.16171170216534847 KKAYRIMQQLL 11 Unmodified _KKAYRIMQQLL_ 0 0 0 ENST00000482519.1_1_1:171675557-171707554:-|nuORF ENST00000482519.1_1_1:171675557-171707554:-|nuORF ENST00000482519.1_1_1:171675557-171707554:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 696.412841796875 2 696.413214 1390.81188 NaN NaN NaN NaN NaN NaN NaN 65.695 1 65.695 65.195 66.195 0 0 0 0 1.0061 1 31312 31312 2.7352 0 1 12754 8303 8053 8075 14845 14845 0.1321021833030045 KKCCRVYFIII 11 Unmodified _KKCCRVYFIII_ 0 0 0 REV__nc|ENSG00000204520|Q29983-2|MICA REV__nc|ENSG00000204520|Q29983-2|MICA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 462.7402648925781 3 462.598049 1384.77232 NaN NaN NaN NaN NaN NaN NaN 65.295 1 65.295 64.795 65.795 0 0 0 0 1.0072 1 31086 31086 1.3296 0.11481 1 + 12755 18109 8054 8076 14846 14846 0.09532375055209741 KKCIFRLRIRV 11 Unmodified _KKCIFRLRIRV_ 0 0 0 ENST00000487555.5_1_9:123623373-123629236:-|nuORF;ENSG00000119403|ENST00000373896|PHF19 ENST00000487555.5_1_9:123623373-123629236:-|nuORF ENST00000487555.5_1_9:123623373-123629236:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 716.4579467773438 2 716.45829 1430.90203 NaN NaN NaN NaN NaN NaN NaN 71.402 1 72.106 71.606 72.606 0.70386 0 0 0 1.008 1 34288 34288 0.30703 0 1 12756 2142 8055 8077 14847 14847 0.20381312449330835 KKDFQEWRDRW 11 Unmodified _KKDFQEWRDRW_ 0 0 0 REV__ENSG00000135740|ENST00000299798|SLC9A5 REV__ENSG00000135740|ENST00000299798|SLC9A5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 532.6287841796875 3 531.935546 1592.78481 3.9508 0.0021016 1.0765 0.00057263 5.0273 0.0026742 531.9361584210003 106.05 0.094101 106.36 106.3 106.39 0.31628 7 3 3 0 0 0 0.91462 1 48942 48942 0.08335 0.010087 1 292610 + 12757 12034 8056 8078 14848 14848 0.012128260434565163 KKDFQEWRDRW 11 Unmodified _KKDFQEWRDRW_ 0 0 0 REV__ENSG00000135740|ENST00000299798|SLC9A5 REV__ENSG00000135740|ENST00000299798|SLC9A5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 531.935546 1592.78481 3.463 0.0018421 1.1661 0.00062028 4.6291 0.0024624 531.935800133351 106.01 0.11242 106.61 106.57 106.68 0.59969 0.12426 0.00010042 NaN 0.08335 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 236010 + 12758 12034 8056 8078 0.012128260434565163 KKDIRRQDYIR 11 Unmodified _KKDIRRQDYIR_ 0 0 0 REV__ENSG00000226372|ENST00000441525|DCAF8L1 REV__ENSG00000226372|ENST00000441525|DCAF8L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 745.931640625 2 745.931148 1489.84774 NaN NaN NaN NaN NaN NaN NaN 67.316 1 67.316 66.816 67.816 0 0 0 0 1.0059 1 32262 32262 2.9952 0 1 + 12759 14558 8057 8079 14849 14849 0.12241391831503279 KKDLVMPK 8 Unmodified _KKDLVMPK_ 0 0 0 ENSG00000282815|ENST00000695840|TEX13C ENSG00000282815|ENST00000695840|TEX13C ENSG00000282815|ENST00000695840|TEX13C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 320.1966552734375 3 320.196651 957.568123 NaN NaN NaN NaN NaN NaN NaN 21.222 1 21.222 20.722 21.722 0 0 0 0 0.89651 1 9499 9499 9.3831 0 1 12760 6368 8058 8080 14850 14850 0.0876417895619852 KKDRGGVAGG 10 Unmodified _KKDRGGVAGG_ 0 0 0 REV__ENST00000360325.11_1_17:7163480-7163549:-|nuORF REV__ENST00000360325.11_1_17:7163480-7163549:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.7686462402344 2 472.76724 943.519927 3.1757 0.0015014 0.082256 3.8888E-05 3.258 0.0015403 472.7672618319576 90.848 0.43437 91.521 91.33 91.764 0.67271 78 24 4 0 0 0 0.93855 1 41778 41778 1.1933 0.39971 1 3752100 + 12761 15606 8059 8081 14851 14851 0.04590821360534392 KKDRPLCKKHA 11 Unmodified _KKDRPLCKKHA_ 0 0 0 nc|ENSG00000122367|O75112-3|LDB3;nc|ENSG00000122367|O75112-2|LDB3;ENSG00000122367|ENST00000361373|LDB3;nc|ENSG00000122367|O75112-7|LDB3 nc|ENSG00000122367|O75112-3|LDB3 nc|ENSG00000122367|O75112-3|LDB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.6979675292969 4 331.697404 1322.76051 2.2424 0.00074379 0.52228 0.00017324 2.7647 0.00091703 331.69747449660264 49.484 0.39743 49.484 49.324 49.722 0 47 16 4 0 0 0 0.91104 1 22654 22654 1.2148 0.51716 1 1687100 12762 2265 8060 8082 14852 14852 0.11203894356231103 KKDRPLCKKHA 11 Unmodified _KKDRPLCKKHA_ 0 0 0 nc|ENSG00000122367|O75112-3|LDB3;nc|ENSG00000122367|O75112-2|LDB3;ENSG00000122367|ENST00000361373|LDB3;nc|ENSG00000122367|O75112-7|LDB3 nc|ENSG00000122367|O75112-3|LDB3 nc|ENSG00000122367|O75112-3|LDB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.9285583496094 3 441.927446 1322.76051 2.8534 0.001261 -0.068135 -3.0111E-05 2.7853 0.0012309 441.9273304217242 49.471 0.37743 49.471 49.357 49.735 0 37 15 3 0 0 0 0.91137 1 22658 22658 1.1098 0.41209 1 1136100 12763 2265 8060 8082 14853 14853 0.11203894356231103 KKDRPLCKKHA 11 Unmodified _KKDRPLCKKHA_ 0 0 0 nc|ENSG00000122367|O75112-3|LDB3;nc|ENSG00000122367|O75112-2|LDB3;ENSG00000122367|ENST00000361373|LDB3;nc|ENSG00000122367|O75112-7|LDB3 nc|ENSG00000122367|O75112-3|LDB3 nc|ENSG00000122367|O75112-3|LDB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.69873046875 4 331.697404 1322.76051 2.218 0.0007357 1.115 0.00036985 3.333 0.0011056 331.6977256551994 49.822 0.2916 49.822 49.682 49.973 0 36 13 4 0 0 0 0.91137 1 22796 22796 1.1098 0.48293 1 1433600 12764 2265 8060 8082 14854 14854 0.11203894356231103 KKDRPLCKKHA 11 Unmodified _KKDRPLCKKHA_ 0 0 0 nc|ENSG00000122367|O75112-3|LDB3;nc|ENSG00000122367|O75112-2|LDB3;ENSG00000122367|ENST00000361373|LDB3;nc|ENSG00000122367|O75112-7|LDB3 nc|ENSG00000122367|O75112-3|LDB3 nc|ENSG00000122367|O75112-3|LDB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.94915771484375 4 331.697404 1322.76051 2.3632 0.00078387 0.72969 0.00024203 3.0929 0.0010259 331.6974798258894 48.992 0.36536 49.819 49.586 49.951 0.82705 47 19 4 0 0 0 0.91137 2 22299 22299;22352 1.1098 0.33322 1 1166400 12765 2265 8060 8082 14855;14856 14855 0.11203894356231103 KKDRPLCKKHA 11 Unmodified _KKDRPLCKKHA_ 0 0 0 nc|ENSG00000122367|O75112-3|LDB3;nc|ENSG00000122367|O75112-2|LDB3;ENSG00000122367|ENST00000361373|LDB3;nc|ENSG00000122367|O75112-7|LDB3 nc|ENSG00000122367|O75112-3|LDB3 nc|ENSG00000122367|O75112-3|LDB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.9492492675781 4 331.697404 1322.76051 2.5023 0.00083002 0.64586 0.00021423 3.1482 0.0010442 331.6974908931608 49.068 0.36253 49.329 49.199 49.562 0.26146 33 13 3 0 0 0 0.91104 1 22441 22441 1.2148 0.51716 1 1921100 12766 2265 8060 8082 14857 14857 0.11203894356231103 KKDRPLCKKHA 11 Unmodified _KKDRPLCKKHA_ 0 0 0 nc|ENSG00000122367|O75112-3|LDB3;nc|ENSG00000122367|O75112-2|LDB3;ENSG00000122367|ENST00000361373|LDB3;nc|ENSG00000122367|O75112-7|LDB3 nc|ENSG00000122367|O75112-3|LDB3 nc|ENSG00000122367|O75112-3|LDB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.69842529296875 4 331.697404 1322.76051 2.4625 0.0008168 0.56713 0.00018811 3.0296 0.0010049 331.6975787634527 49.439 0.28242 49.701 49.53 49.812 0.26146 17 9 2 0 0 0 0.91137 1 22593 22593 1.1098 0.33322 1 1918500 12767 2265 8060 8082 14858 14858 0.11203894356231103 KKDRPLCKKHA 11 Unmodified _KKDRPLCKKHA_ 0 0 0 nc|ENSG00000122367|O75112-3|LDB3;nc|ENSG00000122367|O75112-2|LDB3;ENSG00000122367|ENST00000361373|LDB3;nc|ENSG00000122367|O75112-7|LDB3 nc|ENSG00000122367|O75112-3|LDB3 nc|ENSG00000122367|O75112-3|LDB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.94940185546875 4 331.697404 1322.76051 2.4185 0.0008022 1.0648 0.0003532 3.4833 0.0011554 331.69759463964346 48.64 0.30074 49.296 49.173 49.474 0.65524 32 10 4 0 0 0 0.91104 1 22253 22253 1.2148 0.51716 1 1728100 12768 2265 8060 8082 14859 14859 0.11203894356231103 KKDRPLCKKHA 11 Unmodified _KKDRPLCKKHA_ 0 0 0 nc|ENSG00000122367|O75112-3|LDB3;nc|ENSG00000122367|O75112-2|LDB3;ENSG00000122367|ENST00000361373|LDB3;nc|ENSG00000122367|O75112-7|LDB3 nc|ENSG00000122367|O75112-3|LDB3 nc|ENSG00000122367|O75112-3|LDB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.92852783203125 3 441.927446 1322.76051 3.1314 0.0013839 -0.29744 -0.00013145 2.834 0.0012524 441.92749365265956 49.455 0.4395 50.11 50.01 50.449 0.65525 22 16 3 0 0 0 0.91137 1 22659 22659 1.1098 0 1 770620 12769 2265 8060 8082 14860 14860 0.11203894356231103 KKDRPRKHL 9 Unmodified _KKDRPRKHL_ 0 0 0 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497|SP100;ENSG00000067066|ENST00000340126|SP100 nc|ENSG00000067066|P23497-3|SP100 nc|ENSG00000067066|P23497-3|SP100 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.247802734375 3 393.247396 1176.72036 NaN NaN NaN NaN NaN NaN NaN 88.467 1 89.146 88.646 89.646 0.67818 0 0 0 0.91135 1 40744 40744 0.77653 0.21336 1 12770 719 8061 8083 14861 14861 0.13906715747975795 KKEEEQKWKWW 11 Unmodified _KKEEEQKWKWW_ 0 0 0 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 535.52392578125 3 535.612181 1603.81471 NaN NaN NaN NaN NaN NaN NaN 63.969 1 64.684 64.184 65.184 0.71521 0 0 0 1.008 1 30053 30053 0.08335 0.08335 1 12771 5957 8062 8084 14862 14862 0.036957649887881416 KKEEKKKKKF 10 Unmodified _KKEEKKKKKF_ 0 0 0 REV__ENST00000394767.2_1_4:105393230-105393449:-|nuORF REV__ENST00000394767.2_1_4:105393230-105393449:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 660.9213256835938 2 660.921729 1319.82891 NaN NaN NaN NaN NaN NaN NaN 65.738 1 66.394 65.894 66.894 0.65672 0 0 0 1.0016 1 30137 30137 0.35063 0 1 + 12772 15974 8063 8085 14863 14863 0.18178462207720258 KKEEPRRAQVP 11 Unmodified _KKEEPRRAQVP_ 0 0 0 CCDC80|p.D314E|1|0.12|ENSG00000091986|chr3:112638964-112638964|G/C|missense_variant CCDC80|p.D314E|1|0.12|ENSG00000091986|chr3:112638964-112638964|G/C|missense_variant CCDC80|p.D314E|1|0.12|ENSG00000091986|chr3:112638964-112638964|G/C|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 669.541259765625 2 669.386042 1336.75753 NaN NaN NaN NaN NaN NaN NaN 80.192 1 80.192 79.692 80.692 0 0 0 0 0.99038 1 39749 39749 7.609 0 1 12773 107 8064 8086 14864 14864 0.10262342503074251 KKEKEKKKD 9 Unmodified _KKEKEKKKD_ 0 0 0 ENSG00000008952|ENST00000337002|SEC62;ENST00000261712.7_1_17:30807923-30808019:+|nuORF;ENST00000481435.5_1_3:169693473-169703658:+|nuORF;ENSG00000187554|ENST00000642603|TLR5 ENSG00000008952|ENST00000337002|SEC62;ENSG00000187554|ENST00000642603|TLR5 ENSG00000008952|ENST00000337002|SEC62 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 580.869384765625 2 580.853512 1159.69247 NaN NaN NaN NaN NaN NaN NaN 60.219 1 60.968 60.468 61.468 0.74927 0 0 0 0.77475 1 27737 27737 10.074 0 1 12774 386;5621 8065 8087 14865 14865 0.11901347977209298 KKEKKEKKERM 11 Unmodified _KKEKKEKKERM_ 0 0 0 nc|ENSG00000196535|Q92614-3|MYO18A;nc|ENSG00000196535|Q92614-4|MYO18A;ENSG00000196535|ENST00000527372|MYO18A nc|ENSG00000196535|Q92614-3|MYO18A nc|ENSG00000196535|Q92614-3|MYO18A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 731.4339599609375 2 731.432135 1460.84972 NaN NaN NaN NaN NaN NaN NaN 67.499 1 67.499 66.999 67.999 0 0 0 0 0.99038 1 32397 32397 7.609 1.8771 1 12775 5753 8066 8088 14866 14866 0.13772684525088152 KKELFKKL 8 Unmodified _KKELFKKL_ 0 0 0 REV__ENSG00000170605|ENST00000641329|OR9K2 REV__ENSG00000170605|ENST00000641329|OR9K2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.2311706542969 3 345.23046 1032.66955 2.4741 0.00085414 -0.52995 -0.00018295 1.9442 0.00067119 345.2300357546651 16.529 0.35133 16.529 16.215 16.566 0 61 41 2 0 0 0 0.7471 1 7327 7327 1.4819 0 1 67073 + 12776 13442 8067 8089 14867 14867 0.1545237365041885 KKELIDKM 8 Unmodified _KKELIDKM_ 0 0 0 REV__ENST00000554401.1_1_14:102549349-102551760:-|nuORF REV__ENST00000554401.1_1_14:102549349-102551760:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 335.5320739746094 3 335.531811 1003.5736 NaN NaN NaN NaN NaN NaN NaN 12.513 1 12.513 12.013 13.013 0 0 0 0 0.99035 1 5444 5444 1.6526 0 1 + 12777 10601 8068 8090 14868 14868 0.07195857748024537 KKELNKVEKGH 11 Unmodified _KKELNKVEKGH_ 0 0 0 REV__L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|82|2|sense REV__L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|82|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2583923339844 3 437.257738 1308.75138 3.3761 0.0014762 -1.1458 -0.00050103 2.2302 0.00097519 437.25705831996004 91.88 1.3259 92.133 91.475 92.801 0.25253 128 64 3 0 0 0 0.91328 2 42047 42047;42094 0.50596 0 1 557110 + 12778 17790 8069 8091 14869;14870 14869 0.10935824271541605 KKELNKVEKGH 11 Unmodified _KKELNKVEKGH_ 0 0 0 REV__L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|82|2|sense REV__L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|82|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2583923339844 3 437.257738 1308.75138 3.5065 0.0015332 -1.0458 -0.00045728 2.4607 0.0010759 437.25716686113356 93.875 1.2314 94.13 93.353 94.585 0.25497 162 59 4 0 0 0 0.91328 2 43035 43035;43289 0.50596 0.09769 1 1485300 + 12779 17790 8069 8091 14871;14872 14871 0.10935824271541605 KKELNKVEKGH 11 Unmodified _KKELNKVEKGH_ 0 0 0 REV__L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|82|2|sense REV__L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|82|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2581787109375 3 437.257738 1308.75138 3.2673 0.0014286 -1.3265 -0.00058 1.9408 0.00084865 437.2568458273122 94.154 0.73035 94.785 94.581 95.311 0.63115 84 43 3 0 0 0 0.91328 1 43389 43389 0.50596 0.051438 1 476280 + 12780 17790 8069 8091 14873 14873 0.10935824271541605 KKELVKLI 8 Unmodified _KKELVKLI_ 0 0 0 REV__nc|ENSG00000032742|Q13099-3|IFT88 REV__nc|ENSG00000032742|Q13099-3|IFT88 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.22723388671875 3 324.226827 969.658653 2.4526 0.00079521 0.027791 9.0107E-06 2.4804 0.00080422 324.22680269872467 25.587 0.33117 25.855 25.691 26.022 0.26777 86 33 3 0 0 0 0.3435 1 11661 11661 26.268 0 1 5278500 + 12781 10294 8070 8092 14874 14874 0.1726097127615276 KKEMISLLS 9 Unmodified _KKEMISLLS_ 0 0 0 ENST00000460500.1_1_1:85123956-85128195:-|nuORF;nc|ENSG00000117155|Q9Y2D8-2|SSX2IP;nc|ENSG00000117155|Q9Y2D8-3|SSX2IP;ENSG00000117155|ENST00000342203|SSX2IP ENST00000460500.1_1_1:85123956-85128195:-|nuORF ENST00000460500.1_1_1:85123956-85128195:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.20782470703125 3 350.207216 1047.59982 NaN NaN NaN NaN NaN NaN NaN 44.08 1 44.08 43.58 44.58 0 0 0 0 0.90335 1 20120 20120 2.7352 0 1 12782 2062 8071 8093 14875 14875 0.07792126919503062 KKERKIRQRKL 11 Unmodified _KKERKIRQRKL_ 0 0 0 REV__ENSG00000169981|ENST00000396056|ZNF35 REV__ENSG00000169981|ENST00000396056|ZNF35 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.0033874511719 3 494.994959 1481.96305 NaN NaN NaN NaN NaN NaN NaN 65.187 1 65.187 64.687 65.687 0 0 0 0 1.0082 1 31008 31008 0.08335 0 1 + 12783 13413 8072 8094 14876 14876 0.24134540753152578 KKESINKKD 9 Unmodified _KKESINKKD_ 0 0 0 REV__nc|ENSG00000075292|Q14966-5|ZNF638 REV__nc|ENSG00000075292|Q14966-5|ZNF638 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.3202514648438 2 545.316763 1088.61897 3.6546 0.0019929 0.24707 0.00013473 3.9017 0.0021276 545.3170035522877 84.341 1.0692 85.003 84.792 85.861 0.66219 97 57 3 0 0 0 1.1412 1 38846 38846 1.6526 0 1 954520 + 12784 10525 8073 8095 14877 14877 0.07820799534783873 KKETEVTRWVP 11 Unmodified _KKETEVTRWVP_ 0 0 0 nc|ENSG00000108389|Q9NYA4|MTMR4;ENSG00000108389|ENST00000682306|MTMR4 nc|ENSG00000108389|Q9NYA4|MTMR4 nc|ENSG00000108389|Q9NYA4|MTMR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 686.8833618164062 2 686.882801 1371.75105 NaN NaN NaN NaN NaN NaN NaN 75.462 1 75.462 74.962 75.962 0 0 0 0 1.0061 1 36977 36977 2.7352 1.2533 1 12785 1631 8074 8096 14878 14878 0.08004404551729749 KKETKEAK 8 Unmodified _KKETKEAK_ 0 0 0 REV__nc|ENSG00000141027|O75376-3|NCOR1 REV__nc|ENSG00000141027|O75376-3|NCOR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.28570556640625 2 481.287474 960.560395 NaN NaN NaN NaN NaN NaN NaN 98.651 1 99.249 98.749 99.749 0.59748 0 0 0 0.99035 1 45513 45513 4.756 0.81161 1 + 12786 12275 8075 8097 14879 14879 0.07853742960276122 KKETKLLLKEQ 11 Unmodified _KKETKLLLKEQ_ 0 0 0 REV__ENSG00000155085|ENST00000424296|AK9 REV__ENSG00000155085|ENST00000424296|AK9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 679.42138671875 2 679.424302 1356.83405 NaN NaN NaN NaN NaN NaN NaN 66.43 1 66.43 65.93 66.93 0 0 0 0 1.0007 1 31751 31751 6.6304 1.3335 1 + 12787 12733 8076 8098 14880 14880 0.1699072127967156 KKETLQEL 8 Unmodified _KKETLQEL_ 0 0 0 REV__ENST00000461642.2_1_20:25470551-25477423:-|nuORF REV__ENST00000461642.2_1_20:25470551-25477423:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 330.195068359375 3 330.193963 987.560061 1.9541 0.00064522 0.36696 0.00012117 2.321 0.00076639 330.1940302221433 13.027 0.18752 13.27 13.173 13.361 0.24346 36 16 3 0 0 0 0.47217 1 5667 5667 18.146 0 1 1221100 + 12788 10861 8077 8099 14881 14881 0.06578323240421469 KKETVRRFYCF 11 Unmodified _KKETVRRFYCF_ 0 0 0 REV__ENSG00000227345|ENST00000616448|PARG REV__ENSG00000227345|ENST00000616448|PARG MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.82122802734375 3 492.930856 1475.77074 2.5359 0.00125 -3.5949 -0.001772 -1.059 -0.00052199 492.9305772779352 67.621 0.029015 68.323 68.297 68.326 0.70218 5 3 2 0 0 0 0.13295 1 32173 32173 1.1098 1.1098 1 2361400 + 12789 14564 8078 8100 14882 14882 0.05188457290819315 KKFHKKHKKRK 11 Unmodified _KKFHKKHKKRK_ 0 0 0 REV__nc|ENSG00000129003|Q709C8-2|VPS13C REV__nc|ENSG00000129003|Q709C8-2|VPS13C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 746.9873657226562 2 746.988604 1491.96265 NaN NaN NaN NaN NaN NaN NaN 94.16 1 94.791 94.291 95.291 0.63115 0 0 0 1.0082 1 43307 43307 0 0 1 + 12790 11776 8079 8101 14883 14883 0.23635165823930038 KKFILYHFV 9 Unmodified _KKFILYHFV_ 0 0 0 REV__ENST00000370487.4_1_20:61431489-61431786:+|nuORF REV__ENST00000370487.4_1_20:61431489-61431786:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.8623046875 2 597.855327 1193.6961 4.1738 0.0024953 1.491 0.00089139 5.6648 0.0033867 597.8560921384948 85.36 1.1938 86.026 85.471 86.665 0.66566 95 61 2 0 0 0 1.2078 1 39462 39462 0.6015 0.076735 1 958420 + 12791 15726 8080 8102 14884 14884 0.10700062541741318 KKFKEYWQRNR 11 Unmodified _KKFKEYWQRNR_ 0 0 0 ENSG00000215252|ENST00000683415|GOLGA8B;ENSG00000175265|ENST00000359187|GOLGA8A ENSG00000215252|ENST00000683415|GOLGA8B ENSG00000215252|ENST00000683415|GOLGA8B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 791.9323120117188 2 791.933691 1581.85283 NaN NaN NaN NaN NaN NaN NaN 74.743 1 75.001 74.501 75.501 0.25831 0 0 0 1.0082 1 34385 34385 0.30703 0.30703 1 12792 5025 8081 8103 14885 14885 0.08517695694104077 KKFRKMFYVKK 11 Unmodified _KKFRKMFYVKK_ 0 0 0 ENSG00000135750|ENST00000366621|KCNK1;ENST00000472190.5_1_1:233765551-233807273:+|nuORF ENSG00000135750|ENST00000366621|KCNK1 ENSG00000135750|ENST00000366621|KCNK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.4157409667969 3 501.639125 1501.89555 NaN NaN NaN NaN NaN NaN NaN 66.144 1 66.144 65.644 66.644 0 0 0 0 1.0074 1 31584 31584 1.1098 0.65524 1 12793 2896 8082 8104 14886 14886 0.16467374497983656 KKFRRRRRLFS 11 Unmodified _KKFRRRRRLFS_ 0 0 0 REV__ENSG00000176692|ENST00000649859|FOXC2 REV__ENSG00000176692|ENST00000649859|FOXC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 775.488037109375 2 775.48676 1548.95897 NaN NaN NaN NaN NaN NaN NaN 87.641 1 87.641 87.141 88.141 0 0 0 0 1.0082 1 45251 45251 0.30703 0 1 + 12794 10364 8083 8105 14887 14887 0.20644496050113048 KKGALSVYI 9 Unmodified _KKGALSVYI_ 0 0 0 REV__ENST00000469573.1_1_2:165365242-165383622:-|nuORF REV__ENST00000469573.1_1_2:165365242-165383622:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 326.87164306640625 3 326.870932 977.590967 2.2888 0.00074813 0.0040872 1.336E-06 2.2929 0.00074947 326.87091962139266 13.271 0.20766 13.271 13.168 13.376 0 54 17 4 0 0 0 0.14729 1 5781 5781 19.362 0.10495 1 2991400 + 12795 11354 8084 8106 14888 14888 0.1012752134532775 KKGALSVYI 9 Unmodified _KKGALSVYI_ 0 0 0 REV__ENST00000469573.1_1_2:165365242-165383622:-|nuORF REV__ENST00000469573.1_1_2:165365242-165383622:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 326.870932 977.590967 1.7124 0.00055974 0.045386 1.4835E-05 1.7578 0.00057457 326.8710211135529 12.799 0.21974 13.107 12.996 13.216 0.30727 -0.098605 -6.2244E-05 NaN 19.362 19 6 4 NaN NaN NaN NaN 0 NaN NaN 0 2802300 + 12796 11354 8084 8106 0.1012752134532775 KKGALSVYI 9 Unmodified _KKGALSVYI_ 0 0 0 REV__ENST00000469573.1_1_2:165365242-165383622:-|nuORF REV__ENST00000469573.1_1_2:165365242-165383622:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 326.870932 977.590967 2.5126 0.00082129 0.60707 0.00019843 3.1196 0.0010197 326.87128150819024 12.682 0.13507 13.324 13.244 13.379 0.64272 0.11909 0.00048855 NaN 19.362 8 3 3 NaN NaN NaN NaN 0 NaN NaN 0 3098100 + 12797 11354 8084 8106 0.1012752134532775 KKGFKLLT 8 Unmodified _KKGFKLLT_ 0 0 0 nc|ENSG00000175356|Q9NQ36-3|SCUBE2;nc|ENSG00000175356|Q9NQ36-2|SCUBE2;nc|ENSG00000175356|Q9NQ36|SCUBE2;ENSG00000175356|ENST00000649792|SCUBE2 nc|ENSG00000175356|Q9NQ36-3|SCUBE2 nc|ENSG00000175356|Q9NQ36-3|SCUBE2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 312.5282287597656 3 312.207656 933.601138 2.2648 0.0007071 -1.7757 -0.00055439 0.48915 0.00015272 312.20789070943505 13.209 0.20384 13.852 13.769 13.972 0.64272 30 15 3 0 0 0 0.14021 1 5935 5935 5.2969 1.7004 1 477870 12798 5029 8085 8107 14889 14889 0.13168129070550094 KKGGSGGG 8 Unmodified _KKGGSGGG_ 0 0 0 REV__ENST00000464058.1_1_21:18981288-18985128:-|nuORF REV__ENST00000464058.1_1_21:18981288-18985128:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 647.2183837890625 1 647.347114 646.339838 3.8352 0.0024827 2.4923 0.0016134 6.3276 0.0040961 647.3484261371914 78.135 0.35825 78.797 78.621 78.979 0.66197 25 19 2 0 0 0 0.7471 1 35963 35963 0 0 1 745090 + 12799 16525 8086 8108 14890 14890 0.0025214242353968075 KKGGSGGG 8 Unmodified _KKGGSGGG_ 0 0 0 REV__ENST00000464058.1_1_21:18981288-18985128:-|nuORF REV__ENST00000464058.1_1_21:18981288-18985128:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 647.347114 646.339838 3.6112 0.0023377 3.2627 0.0021121 6.8739 0.0044498 647.3490690208963 78.508 0.35043 78.762 78.589 78.939 0.25335 -0.017882 0.00018682 NaN 0 27 18 2 NaN NaN NaN NaN 0 NaN NaN 0 677640 + 12800 16525 8086 8108 0.0025214242353968075 KKGGSGGG 8 Unmodified _KKGGSGGG_ 0 0 0 REV__ENST00000464058.1_1_21:18981288-18985128:-|nuORF REV__ENST00000464058.1_1_21:18981288-18985128:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 647.347114 646.339838 3.8352 0.0024827 2.4923 0.0016134 6.3276 0.0040961 647.3484261371914 78.135 0.35825 78.797 78.621 78.979 0.66197 0.017882 -0.00031186 NaN 0 25 19 2 NaN NaN NaN NaN 0 NaN NaN 0 745090 + 12801 16525 8086 8108 0.0025214242353968075 KKGKAKKALK 10 Unmodified _KKGKAKKALK_ 0 0 0 UTP14A|p.I484Mfs*38|1|0.07|ENSG00000156697|chrX:129924877-129924878|-/GCAAGTTCAGAGGGGACTAT|frameshift_variant;nc|ENSG00000156697|Q9BVJ6-2|UTP14A;nc|ENSG00000156697|Q9BVJ6-3|UTP14A;ENSG00000156697|ENST00000394422|UTP14A;ENSG00000253797|ENST00000521776|UTP14C UTP14A|p.I484Mfs*38|1|0.07|ENSG00000156697|chrX:129924877-129924878|-/GCAAGTTCAGAGGGGACTAT|frameshift_variant;ENSG00000253797|ENST00000521776|UTP14C UTP14A|p.I484Mfs*38|1|0.07|ENSG00000156697|chrX:129924877-129924878|-/GCAAGTTCAGAGGGGACTAT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.63330078125 2 550.387326 1098.7601 NaN NaN NaN NaN NaN NaN NaN 80.156 1 80.476 79.976 80.976 0.31998 0 0 0 1.0003 1 39198 39198 1.4819 0 1 12802 18290;6273 8087 8109 14891 14891 0.21466842698669097 KKGKTSKK 8 Unmodified _KKGKTSKK_ 0 0 0 REV__nc|ENSG00000184634|Q93074-3|MED12 REV__nc|ENSG00000184634|Q93074-3|MED12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.2046813964844 3 302.202793 903.58655 NaN NaN NaN NaN NaN NaN NaN 56.058 1 56.726 56.226 57.226 0.66829 0 0 0 0.99035 1 25644 25644 0.35063 0 1 + 12803 13983 8088 8110 14892 14892 0.13090056922408166 KKGNGAIVSQ 10 Unmodified _KKGNGAIVSQ_ 0 0 0 ENSG00000047936|ENST00000368507|ROS1;nc|ENSG00000047936|P08922|ROS1 ENSG00000047936|ENST00000368507|ROS1 ENSG00000047936|ENST00000368507|ROS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.2935485839844 2 501.290548 1000.56654 3.0512 0.0015295 0.63904 0.00032035 3.6902 0.0018499 501.2907932816766 78.748 1.673 78.999 78.211 79.884 0.25127 201 105 2 0 0 0 0.90859 1 35966 35966 3.2813 0.97858 1 1159000 12804 564 8089 8111 14893 14893 0.06628261191804086 KKGNGAIVSQ 10 Unmodified _KKGNGAIVSQ_ 0 0 0 ENSG00000047936|ENST00000368507|ROS1;nc|ENSG00000047936|P08922|ROS1 ENSG00000047936|ENST00000368507|ROS1 ENSG00000047936|ENST00000368507|ROS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.29241943359375 2 501.290548 1000.56654 3.1802 0.0015942 0.52714 0.00026425 3.7073 0.0018584 501.2907464807802 78.42 2.0239 79.082 78.283 80.307 0.66198 237 131 2 0 0 0 0.90859 1 36184 36184 3.2813 0.78282 1 1407600 12805 564 8089 8111 14894 14894 0.06628261191804086 KKGNGAIVSQ 10 Unmodified _KKGNGAIVSQ_ 0 0 0 ENSG00000047936|ENST00000368507|ROS1;nc|ENSG00000047936|P08922|ROS1 ENSG00000047936|ENST00000368507|ROS1 ENSG00000047936|ENST00000368507|ROS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.29132080078125 2 501.290548 1000.56654 NaN NaN NaN NaN NaN NaN NaN 75.999 1 76.663 76.163 77.163 0.66387 0 0 0 0.99812 1 35012 35012 3.2813 0.70383 1 12806 564 8089 8111 14895 14895 0.06628261191804086 KKGSARGR 8 Unmodified _KKGSARGR_ 0 0 0 ENST00000255304.8_1_13:31192116-31195216:+|nuORF;ENST00000465952.5_1_13:31192116-31195964:+|nuORF ENST00000255304.8_1_13:31192116-31195216:+|nuORF ENST00000255304.8_1_13:31192116-31195216:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.26617431640625 2 430.264668 858.514782 3.178 0.0013674 0.19925 8.5731E-05 3.3772 0.0014531 430.2646682246854 84.059 0.27753 84.721 84.595 84.872 0.66219 22 14 2 0 0 0 0.7471 1 38725 38725 0.69038 0 1 1351400 12807 6517 8090 8112 14896 14896 0.07986562288556343 KKGSPTQK 8 Unmodified _KKGSPTQK_ 0 0 0 REV__nc|ENSG00000171824|Q01780-2|EXOSC10 REV__nc|ENSG00000171824|Q01780-2|EXOSC10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.263427734375 2 437.261259 872.507966 2.7052 0.0011829 0.98238 0.00042956 3.6876 0.0016124 437.26153932608435 19.051 0.10463 19.349 19.327 19.431 0.29753 14 10 2 0 0 0 0.078308 1 8667 8667 56.177 1.4035 1 942160 + 12808 13521 8091 8113 14897 14897 0.0666120461733044 KKGVRATGTI 10 Unmodified _KKGVRATGTI_ 0 0 0 ENSG00000137338|ENST00000682144|PGBD1 ENSG00000137338|ENST00000682144|PGBD1 ENSG00000137338|ENST00000682144|PGBD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.207275390625 3 344.217102 1029.62948 NaN NaN NaN NaN NaN NaN NaN 29.211 1 29.472 28.972 29.972 0.2602 0 0 0 0.99995 1 13293 13293 1.7423 0.089654 1 12809 3012 8092 8114 14898 14898 0.11584826979856189 KKHEAVHME 9 Unmodified _KKHEAVHME_ 0 0 0 ENST00000459803.5_1_3:75472114-75480048:-|nuORF ENST00000459803.5_1_3:75472114-75480048:-|nuORF ENST00000459803.5_1_3:75472114-75480048:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.783935546875 2 554.782033 1107.54951 NaN NaN NaN NaN NaN NaN NaN 79.865 1 80.185 79.685 80.685 0.31998 0 0 0 0.88916 1 39023 39023 6.2058 1.8765 1 12810 8065 8093 8115 14899 14899 4.017314358861768E-05 KKHERGRKVLH 11 Unmodified _KKHERGRKVLH_ 0 0 0 REV__nc|ENSG00000076555|O00763-3|ACACB REV__nc|ENSG00000076555|O00763-3|ACACB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 694.4281616210938 2 694.423294 1386.83203 4.5189 0.003138 -1.0545 -0.00073227 3.4644 0.0024057 694.4224355355126 95.37 0.63596 95.637 95.337 95.973 0.26751 78 39 3 0 0 0 0.91378 1 43734 43734 0.35063 0 1 672130 + 12811 10542 8094 8116 14900 14900 0.15409150105119807 KKHKAKKKIIL 11 Unmodified _KKHKAKKKIIL_ 0 0 0 REV__KIAA2026|p.N1948Kfs*5|1|0.04|ENSG00000183354|chr9:5920152-5920153|-/AGTCTCCAGC|frameshift_variant REV__KIAA2026|p.N1948Kfs*5|1|0.04|ENSG00000183354|chr9:5920152-5920153|-/AGTCTCCAGC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 667.7664184570312 2 667.971557 1333.92856 NaN NaN NaN NaN NaN NaN NaN 62.893 1 63.615 63.115 64.115 0.72236 0 0 0 1.0079 1 29404 29404 0.30703 0.30703 1 + 12812 13929 8095 8117 14901 14901 0.27495324612368677 KKHKKYVI 8 Unmodified _KKHKKYVI_ 0 0 0 nc|ENSG00000166477|Q8WVC0-2|LEO1;ENSG00000166477|ENST00000299601|LEO1 nc|ENSG00000166477|Q8WVC0-2|LEO1 nc|ENSG00000166477|Q8WVC0-2|LEO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.3375244140625 2 522.339844 1042.66514 NaN NaN NaN NaN NaN NaN NaN 88.356 1 88.408 87.908 88.908 0.052155 0 0 0 0.99035 1 44979 44979 4.756 0.42677 1 12813 4487 8096 8118 14902 14902 0.14550909227500597 KKHVKRIHRRV 11 Unmodified _KKHVKRIHRRV_ 0 0 0 REV__ZNF800|p.L431Ifs*9|1|0.35|ENSG00000048405|chr7:127374045-127374046|-/T|frameshift_variant REV__ZNF800|p.L431Ifs*9|1|0.35|ENSG00000048405|chr7:127374045-127374046|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 728.9759521484375 2 728.976028 1455.9375 NaN NaN NaN NaN NaN NaN NaN 62.538 1 63.269 62.769 63.769 0.73077 0 0 0 1.008 1 29173 29173 0.30703 0.30703 1 + 12814 10341 8097 8119 14903 14903 0.22777111021378005 KKHYRLTSPWK 11 Unmodified _KKHYRLTSPWK_ 0 0 0 REV__nc|ENSG00000160321|O43345-2|ZNF208 REV__nc|ENSG00000160321|O43345-2|ZNF208 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 722.6553344726562 2 722.414603 1442.81465 NaN NaN NaN NaN NaN NaN NaN 96.185 1 96.261 95.761 96.761 0.076538 0 0 0 1.008 1 51035 51035 0.30703 0 1 + 12815 12875 8098 8120 14904 14904 0.11095809779430965 KKIAARSIRPR 11 Unmodified _KKIAARSIRPR_ 0 0 0 REV__ENST00000285679.10_1_21:17205778-17214762:+|nuORF REV__ENST00000285679.10_1_21:17205778-17214762:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.8830261230469 4 324.715019 1294.83097 2.3422 0.00076054 1.1848 0.00038471 3.5269 0.0011453 324.7153625939793 58.762 0.36742 59.025 58.951 59.319 0.26228 28 22 2 0 0 0 0.88721 1 26900 26900 2.6312 1.9336 1 1007900 + 12816 15108 8099 8121 14905 14905 0.19534935736191983 KKIAARSIRPR 11 Unmodified _KKIAARSIRPR_ 0 0 0 REV__ENST00000285679.10_1_21:17205778-17214762:+|nuORF REV__ENST00000285679.10_1_21:17205778-17214762:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 324.715019 1294.83097 2.3422 0.00076054 1.1848 0.00038471 3.5269 0.0011453 324.7153625939793 58.762 0.36742 59.025 58.951 59.319 0.26228 0 0 NaN 2.6312 28 22 2 NaN NaN NaN NaN 0 NaN NaN 0 1007900 + 12817 15108 8099 8121 0.19534935736191983 KKIAFRLK 8 Unmodified _KKIAFRLK_ 0 0 0 ENSG00000205327|ENST00000548615|OR6C68 ENSG00000205327|ENST00000548615|OR6C68 ENSG00000205327|ENST00000548615|OR6C68 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.1535339355469 2 502.342387 1002.67022 NaN NaN NaN NaN NaN NaN NaN 78.152 1 78.152 77.652 78.652 0 0 0 0 0.99035 1 38379 38379 0.69038 0 1 12818 6045 8100 8122 14906 14906 0.1689921309014153 KKIFLFKR 8 Unmodified _KKIFLFKR_ 0 0 0 ENST00000476559.2_1_X:38128881-38132749:-|nuORF;nc|ENSG00000156313|Q92834-4|RPGR;nc|ENSG00000156313|Q92834-2|RPGR;nc|ENSG00000156313|Q92834|RPGR ENST00000476559.2_1_X:38128881-38132749:-|nuORF ENST00000476559.2_1_X:38128881-38132749:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.360595703125 2 540.358037 1078.70152 NaN NaN NaN NaN NaN NaN NaN 29.87 1 30.128 29.628 30.628 0.25804 0 0 0 0.99035 1 13597 13597 0.69038 0 1 12819 8235 8101 8123 14907 14907 0.16531786124210157 KKIFLFKR 8 Unmodified _KKIFLFKR_ 0 0 0 ENST00000476559.2_1_X:38128881-38132749:-|nuORF;nc|ENSG00000156313|Q92834-4|RPGR;nc|ENSG00000156313|Q92834-2|RPGR;nc|ENSG00000156313|Q92834|RPGR ENST00000476559.2_1_X:38128881-38132749:-|nuORF ENST00000476559.2_1_X:38128881-38132749:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.3609008789062 2 540.358037 1078.70152 NaN NaN NaN NaN NaN NaN NaN 33.256 1 33.51 33.01 34.01 0.25389 0 0 0 0.99035 1 15142 15142 0.69038 0 1 12820 8235 8101 8123 14908 14908 0.16531786124210157 KKIIKKLLES 10 Unmodified _KKIIKKLLES_ 0 0 0 ENSG00000163737|ENST00000296029|PF4 ENSG00000163737|ENST00000296029|PF4 ENSG00000163737|ENST00000296029|PF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 600.9125366210938 2 600.407924 1198.80129 4.1526 0.0024932 0.42494 0.00025514 4.5775 0.0027484 600.4082570794202 104.79 0.11775 105.39 105.33 105.44 0.59885 21 12 2 0 0 0 0.94443 2 48395 48395;48399 0 0 1 588000 12821 4244 8102 8124 14909;14910 14909 0.2098455894754352 KKIIKLLPLVK 11 Unmodified _KKIIKLLPLVK_ 0 0 0 REV__ENSG00000185304|ENST00000398146|RGPD2;REV__ENSG00000153201|ENST00000283195|RANBP2 REV__ENSG00000153201|ENST00000283195|RANBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 646.97119140625 2 646.973234 1291.93191 NaN NaN NaN NaN NaN NaN NaN 74.61 1 75.274 74.774 75.774 0.6644 0 0 0 1.008 1 34349 34349 0.30703 0 1 + 12822 12673;14013 8103 8125 14911 14911 0.29762574666347064 KKIKKKKEV 9 Unmodified _KKIKKKKEV_ 0 0 0 REV__ENSG00000196436|ENST00000692376|NPIPB15 REV__ENSG00000196436|ENST00000692376|NPIPB15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.987060546875 2 564.894983 1127.77541 NaN NaN NaN NaN NaN NaN NaN 67.989 1 67.989 67.489 68.489 0 0 0 0 0.91238 1 32685 32685 0.52476 0.12405 1 + 12823 14215 8104 8126 14912 14912 0.21663709495874173 KKIKKKKEVWP 11 Unmodified _KKIKKKKEVWP_ 0 0 0 REV__ENSG00000196436|ENST00000692376|NPIPB15 REV__ENSG00000196436|ENST00000692376|NPIPB15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 706.4588012695312 2 706.461022 1410.90749 NaN NaN NaN NaN NaN NaN NaN 60.195 1 60.195 59.695 60.695 0 0 0 0 1.008 1 27914 27914 0.30703 0.30703 1 + 12824 14215 8105 8127 14913 14913 0.21847314512820049 KKILGKKPRRR 11 Unmodified _KKILGKKPRRR_ 0 0 0 REV__ENSG00000132681|ENST00000368081|ATP1A4 REV__ENSG00000132681|ENST00000368081|ATP1A4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 690.5209350585938 2 690.475329 1378.93611 NaN NaN NaN NaN NaN NaN NaN 68.202 1 68.202 67.702 68.702 0 0 0 0 1.008 1 32818 32818 0.30703 0.30703 1 + 12825 11907 8106 8128 14914 14914 0.26179476932634316 KKILILLIFKR 11 Unmodified _KKILILLIFKR_ 0 0 0 ENST00000396049.4_1_2:74382388-74382565:-|nuORF ENST00000396049.4_1_2:74382388-74382565:-|nuORF ENST00000396049.4_1_2:74382388-74382565:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 462.3294982910156 3 462.330397 1383.96936 NaN NaN NaN NaN NaN NaN NaN 73.833 1 74.519 74.019 75.019 0.68662 0 0 0 1.0082 1 35640 35640 0.08335 0.08335 1 12826 7565 8107 8129 14915 14915 0.2927366593196439 KKILKELKRIR 11 Unmodified _KKILKELKRIR_ 0 0 0 REV__ENST00000541903.6_1_17:422370-426182:-|nuORF REV__ENST00000541903.6_1_17:422370-426182:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 712.9929809570312 2 712.99302 1423.97149 NaN NaN NaN NaN NaN NaN NaN 72.187 1 72.187 71.687 72.687 0 0 0 0 1.008 1 35104 35104 0.30703 0.30703 1 + 12827 12279 8108 8130 14916 14916 0.2764609466978527 KKILLILIL 9 Unmodified _KKILLILIL_ 0 0 0 REV__ENST00000531550.1_1_11:118007744-118012097:-|nuORF REV__ENST00000531550.1_1_11:118007744-118012097:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.90234375 2 533.901746 1065.78894 NaN NaN NaN NaN NaN NaN NaN 81.608 1 81.692 81.192 82.192 0.084106 0 0 0 0.91238 1 40144 40144 0.52476 0.52476 1 + 12828 13726 8109 8131 14917 14917 0.2586756727514512 KKILLILILL 10 Unmodified _KKILLILILL_ 0 0 0 REV__ENST00000531550.1_1_11:118007744-118012097:-|nuORF REV__ENST00000531550.1_1_11:118007744-118012097:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.44384765625 2 590.443778 1178.873 NaN NaN NaN NaN NaN NaN NaN 32.421 1 32.421 31.921 32.921 0 0 0 0 1.002 1 14682 14682 0 0 1 + 12829 13726 8110 8132 14918 14918 0.29072098372057553 KKILLRRRRQ 10 Unmodified _KKILLRRRRQ_ 0 0 0 REV__ENSG00000124302|ENST00000650847|CHST8 REV__ENSG00000124302|ENST00000650847|CHST8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 684.3013916015625 2 683.965129 1365.9157 NaN NaN NaN NaN NaN NaN NaN 76.753 1 76.753 76.253 77.253 0 0 0 0 1.0015 1 37621 37621 0.40072 0.050084 1 + 12830 11650 8111 8133 14919 14919 0.2473830627282041 KKILRRRRKI 10 Unmodified _KKILRRRRKI_ 0 0 0 ENST00000320876.10_2_18:2688638-2694582:+|nuORF ENST00000320876.10_2_18:2688638-2694582:+|nuORF ENST00000320876.10_2_18:2688638-2694582:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 684.433837890625 2 683.983321 1365.95209 NaN NaN NaN NaN NaN NaN NaN 84.269 1 84.269 83.769 84.769 0 0 0 0 1.0015 1 42629 42629 0.40072 0.093686 1 12831 6925 8112 8134 14920 14920 0.2837518316953265 KKILRRRRKIK 11 Unmodified _KKILRRRRKIK_ 0 0 0 ENST00000320876.10_2_18:2688638-2694582:+|nuORF ENST00000320876.10_2_18:2688638-2694582:+|nuORF ENST00000320876.10_2_18:2688638-2694582:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.1981201171875 3 499.022961 1494.04705 NaN NaN NaN NaN NaN NaN NaN 76.239 1 76.903 76.403 77.403 0.66387 0 0 0 1.0082 1 35121 35121 0 0 1 12832 6925 8113 8135 14921 14921 0.3197911664071853 KKIQRAKKVKE 11 Unmodified _KKIQRAKKVKE_ 0 0 0 REV__ENSG00000174173|ENST00000309922|TRMT10C REV__ENSG00000174173|ENST00000309922|TRMT10C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 452.63134765625 3 452.633027 1354.87725 NaN NaN NaN NaN NaN NaN NaN 68.83 1 68.83 68.33 69.33 0 0 0 0 1.0079 1 33165 33165 0.45452 0.35968 1 + 12833 13623 8114 8136 14922 14922 0.21400955847639125 KKIQRRHKVL 10 Unmodified _KKIQRRHKVL_ 0 0 0 REV__ENST00000405954.1_1_2:241501074-241501230:+|nuORF REV__ENST00000405954.1_1_2:241501074-241501230:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 653.4334716796875 2 653.43313 1304.85171 NaN NaN NaN NaN NaN NaN NaN 67.926 1 67.926 67.426 68.426 0 0 0 0 1.0003 1 32649 32649 1.4819 0.51963 1 + 12834 16065 8115 8137 14923 14923 0.21147526115851178 KKIRPKVREVA 11 Unmodified _KKIRPKVREVA_ 0 0 0 REV__nc|ENSG00000124214|O95793-2|STAU1 REV__nc|ENSG00000124214|O95793-2|STAU1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 441.9576721191406 3 441.957623 1322.85104 NaN NaN NaN NaN NaN NaN NaN 69.31 1 70.013 69.513 70.513 0.70302 0 0 0 1.0072 1 33162 33162 1.3296 0 1 + 12835 11644 8116 8138 14924 14924 0.2025268667614455 KKIRPLKRLIP 11 Unmodified _KKIRPLKRLIP_ 0 0 0 REV__ENST00000464395.1_1_10:3185767-3189991:-|nuORF REV__ENST00000464395.1_1_10:3185767-3189991:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.6540832519531 3 454.653763 1360.93946 NaN NaN NaN NaN NaN NaN NaN 97.286 1 97.575 97.075 98.075 0.28923 0 0 0 1.008 1 44685 44685 0.08335 0 1 + 12836 11131 8117 8139 14925 14925 0.27342726986648813 KKIRRRRRRRM 11 Unmodified _KKIRRRRRRRM_ 0 0 0 L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 806.52197265625 2 806.523685 1611.03282 NaN NaN NaN NaN NaN NaN NaN 82.963 1 83.21 82.71 83.71 0.24722 0 0 0 1.0072 1 38188 38188 1.3295 1.3295 1 12837 9436 8118 8140 14926 14926 0.25174140940748657 KKISRVWWHK 10 Unmodified _KKISRVWWHK_ 0 0 0 AluSc8_dup5967|chr5:1408001-1408339:-|1.0254959645658634|0.0176600485494751|5.86|497.0|1|1|sense AluSc8_dup5967|chr5:1408001-1408339:-|1.0254959645658634|0.0176600485494751|5.86|497.0|1|1|sense AluSc8_dup5967|chr5:1408001-1408339:-|1.0254959645658634|0.0176600485494751|5.86|497.0|1|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.6086120605469 3 456.606813 1366.79861 NaN NaN NaN NaN NaN NaN NaN 44.361 1 44.361 43.861 44.861 0 0 0 0 1.0011 1 20262 20262 0.77653 0.27058 1 12838 35 8119 8141 14927 14927 0.1298814833319284 KKISTKRKK 9 Unmodified _KKISTKRKK_ 0 0 0 REV__ENST00000595117.1_1_19:51125949-51129280:-|nuORF REV__ENST00000595117.1_1_19:51125949-51129280:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.87109375 2 558.882407 1115.75026 NaN NaN NaN NaN NaN NaN NaN 73.155 1 73.819 73.319 74.319 0.66398 0 0 0 0.90847 1 33605 33605 1.4819 0.15237 1 + 12839 14484 8120 8142 14928 14928 0.19701654693312776 KKIVRRKRPV 10 Unmodified _KKIVRRKRPV_ 0 0 0 nc|ENSG00000133640|Q96JM4-2|LRRIQ1;ENSG00000133640|ENST00000393217|LRRIQ1;ENST00000525971.6_1_12:85431954-85518298:+|nuORF nc|ENSG00000133640|Q96JM4-2|LRRIQ1 nc|ENSG00000133640|Q96JM4-2|LRRIQ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 640.5301513671875 2 640.443498 1278.87244 NaN NaN NaN NaN NaN NaN NaN 89.799 1 89.799 89.299 90.299 0 0 0 0 1.0015 1 47008 47008 0.45834 0.10771 1 12840 2766 8121 8143 14929 14929 0.24416116495513052 KKIWIIKI 8 Unmodified _KKIWIIKI_ 0 0 0 REV__ENST00000202017.5_1_20:30534352-30536619:-|nuORF REV__ENST00000202017.5_1_20:30534352-30536619:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.6396484375 2 521.362788 1040.71102 NaN NaN NaN NaN NaN NaN NaN 77.417 1 77.673 77.173 78.173 0.25533 0 0 0 0.99035 1 35653 35653 0.69038 0 1 + 12841 14791 8122 8144 14930 14930 0.19229554409730554 KKKDLKKLVLY 11 Unmodified _KKKDLKKLVLY_ 0 0 0 ENSG00000104332|ENST00000220772|SFRP1 ENSG00000104332|ENST00000220772|SFRP1 ENSG00000104332|ENST00000220772|SFRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 688.4534301757812 2 688.455405 1374.89626 NaN NaN NaN NaN NaN NaN NaN 81.252 1 81.421 80.921 81.921 0.16862 0 0 0 1.008 1 39917 39917 0.30703 0 1 12842 1433 8123 8145 14931 14931 0.22380492418710674 KKKEARRKRR 10 Unmodified _KKKEARRKRR_ 0 0 0 nc|ENSG00000171490|O76021-2|RSL1D1;ENST00000396503.7_1_16:11931646-11945380:-|nuORF;ENSG00000171490|ENST00000571133|RSL1D1 nc|ENSG00000171490|O76021-2|RSL1D1 nc|ENSG00000171490|O76021-2|RSL1D1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 452.5015563964844 3 452.632132 1354.87457 NaN NaN NaN NaN NaN NaN NaN 72.137 1 72.8 72.3 73.3 0.66324 0 0 0 1.0001 1 33071 33071 1.5923 0 1 12843 4806 8124 8146 14932 14932 0.21132545233331257 KKKEFHKQI 9 Unmodified _KKKEFHKQI_ 0 0 0 REV__ENST00000461516.5_1_2:190554359-190560904:+|nuORF REV__ENST00000461516.5_1_2:190554359-190560904:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.9096374511719 3 395.908269 1184.70298 NaN NaN NaN NaN NaN NaN NaN 12.748 1 13.391 12.891 13.891 0.64272 0 0 0 0.90611 1 5723 5723 1.0715 0.29493 1 + 12844 12623 8125 8147 14933 14933 0.1180137542232842 KKKEIFPKKK 10 Unmodified _KKKEIFPKKK_ 0 0 0 REV__ENSG00000135521|ENST00000367576|LTV1 REV__ENSG00000135521|ENST00000367576|LTV1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 637.4227905273438 2 637.421365 1272.82818 NaN NaN NaN NaN NaN NaN NaN 68.385 1 68.385 67.885 68.885 0 0 0 0 0.99572 1 32922 32922 5.2969 0.39987 1 + 12845 12023 8126 8148 14934 14934 0.2026766755866447 KKKEKDSLPV 10 Unmodified _KKKEKDSLPV_ 0 0 0 REV__nc|ENSG00000182287|P56377|AP1S2 REV__nc|ENSG00000182287|P56377|AP1S2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.3277587890625 2 586.355888 1170.69722 NaN NaN NaN NaN NaN NaN NaN 67.93 1 67.93 67.43 68.43 0 0 0 0 0.97944 1 32652 32652 8.7454 0 1 + 12846 13886 8127 8149 14935 14935 0.11870232119986213 KKKEKESKKKR 11 Unmodified _KKKEKESKKKR_ 0 0 0 ENST00000321892.8_1_17:65978529-65978847:+|nuORF ENST00000321892.8_1_17:65978529-65978847:+|nuORF ENST00000321892.8_1_17:65978529-65978847:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 354.9814758300781 4 354.980684 1415.89363 2.7116 0.00096258 -0.40712 -0.00014452 2.3045 0.00081806 354.98046383183515 50.704 0.52585 50.704 50.588 51.113 0 87 28 4 0 0 0 0.91384 1 23203 23203 0.32927 0.23443 1 15731000 12847 6936 8128 8150 14936 14936 0.20232037013715853 KKKEKESKKKR 11 Unmodified _KKKEKESKKKR_ 0 0 0 ENST00000321892.8_1_17:65978529-65978847:+|nuORF ENST00000321892.8_1_17:65978529-65978847:+|nuORF ENST00000321892.8_1_17:65978529-65978847:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 354.9812927246094 4 354.980684 1415.89363 2.5277 0.0008973 -0.46046 -0.00016345 2.0673 0.00073385 354.98043227922756 50.083 0.63955 50.344 49.98 50.619 0.26146 66 23 5 0 0 0 0.91384 1 22874 22874 0.32927 0.23443 1 8977600 12848 6936 8128 8150 14937 14937 0.20232037013715853 KKKEKESKKKR 11 Unmodified _KKKEKESKKKR_ 0 0 0 ENST00000321892.8_1_17:65978529-65978847:+|nuORF ENST00000321892.8_1_17:65978529-65978847:+|nuORF ENST00000321892.8_1_17:65978529-65978847:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 354.98114013671875 4 354.980684 1415.89363 2.5381 0.00090099 -0.54111 -0.00019208 1.997 0.0007089 354.98042099461264 49.426 0.44833 50.081 49.95 50.398 0.65525 53 15 4 0 0 0 0.91384 1 22598 22598 0.32927 0.23443 1 7940400 12849 6936 8128 8150 14938 14938 0.20232037013715853 KKKEKESKKKR 11 Unmodified _KKKEKESKKKR_ 0 0 0 ENST00000321892.8_1_17:65978529-65978847:+|nuORF ENST00000321892.8_1_17:65978529-65978847:+|nuORF ENST00000321892.8_1_17:65978529-65978847:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 354.980684 1415.89363 2.4858 0.00088241 -0.6692 -0.00023755 1.8166 0.00064485 355.23115282929353 50.453 0.32185 50.714 50.557 50.879 0.26146 -0.019272 -7.5834E-05 NaN 0.32927 33 16 3 NaN NaN NaN NaN 0 NaN NaN 0 1925000 12850 6936 8128 8150 0.20232037013715853 KKKEKKQYRR 10 Unmodified _KKKEKKQYRR_ 0 0 0 REV__ENST00000282964.5_1_21:21112145-21112373:+|nuORF REV__ENST00000282964.5_1_21:21112145-21112373:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 696.4255981445312 2 696.433327 1390.8521 NaN NaN NaN NaN NaN NaN NaN 65.263 1 65.263 64.763 65.763 0 0 0 0 0.99812 1 31064 31064 3.2813 0.28607 1 + 12851 15095 8129 8151 14939 14939 0.17230901045059 KKKFIKRRKS 10 Unmodified _KKKFIKRRKS_ 0 0 0 ENSG00000011114|ENST00000334746|BTBD7;nc|ENSG00000011114|Q9P203-3|BTBD7 ENSG00000011114|ENST00000334746|BTBD7 ENSG00000011114|ENST00000334746|BTBD7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 659.9407348632812 2 659.943331 1317.87211 NaN NaN NaN NaN NaN NaN NaN 82.867 1 82.867 82.367 83.367 0 0 0 0 1.0003 1 41612 41612 1.4819 0.15237 1 12852 407 8130 8152 14940 14940 0.22588696775665085 KKKFRRRRRLF 11 Unmodified _KKKFRRRRRLF_ 0 0 0 REV__ENSG00000176692|ENST00000649859|FOXC2 REV__ENSG00000176692|ENST00000649859|FOXC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 796.021484375 2 796.018227 1590.0219 NaN NaN NaN NaN NaN NaN NaN 54.469 1 54.469 53.969 54.969 0 0 0 0 1.0082 1 24991 24991 0 0 1 + 12853 10364 8131 8153 14941 14941 0.25049061838126363 KKKFRRRRRLF 11 Unmodified _KKKFRRRRRLF_ 0 0 0 REV__ENSG00000176692|ENST00000649859|FOXC2 REV__ENSG00000176692|ENST00000649859|FOXC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 796.0188598632812 2 796.018227 1590.0219 NaN NaN NaN NaN NaN NaN NaN 54.317 1 54.581 54.081 55.081 0.26462 0 0 0 1.0082 1 24837 24837 0 0 1 + 12854 10364 8131 8153 14942 14942 0.25049061838126363 KKKGKPRPL 9 Unmodified _KKKGKPRPL_ 0 0 0 REV__ENST00000296506.7_1_4:174312561-174320248:-|nuORF REV__ENST00000296506.7_1_4:174312561-174320248:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.2441711425781 3 351.241471 1050.70258 NaN NaN NaN NaN NaN NaN NaN 23.54 1 24.226 23.726 24.726 0.68536 0 0 0 0.90699 1 10509 10509 0.96228 0.72643 1 + 12855 15156 8132 8154 14943 14943 0.1792600049311659 KKKGKPRPL 9 Unmodified _KKKGKPRPL_ 0 0 0 REV__ENST00000296506.7_1_4:174312561-174320248:-|nuORF REV__ENST00000296506.7_1_4:174312561-174320248:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.2440490722656 3 351.241471 1050.70258 NaN NaN NaN NaN NaN NaN NaN 24.078 1 24.35 23.85 24.85 0.27129 0 0 0 0.89683 1 10900 10900 2.4985 1.427 1 + 12856 15156 8132 8154 14944 14944 0.1792600049311659 KKKGRDPLRVR 11 Unmodified _KKKGRDPLRVR_ 0 0 0 REV__HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|1|1|sense REV__HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|1|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.97125244140625 4 338.970385 1351.85244 2.6561 0.00090033 -1.453 -0.00049252 1.2031 0.00040782 338.9704512816553 46.791 0.59065 47.056 46.899 47.49 0.26561 64 20 4 0 0 0 0.91459 1 21501 21501 0.094841 0.011491 1 1215600 + 12857 17736 8133 8155 14945 14945 0.1905832076488423 KKKGRDPLRVR 11 Unmodified _KKKGRDPLRVR_ 0 0 0 REV__HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|1|1|sense REV__HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|1|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.971435546875 4 338.970385 1351.85244 2.4929 0.000845 -1.3534 -0.00045875 1.1395 0.00038625 338.9705176217725 46.555 0.52999 47.207 46.939 47.469 0.65219 65 19 5 0 0 0 0.91459 1 21305 21305 0.094841 0 1 1266900 + 12858 17736 8133 8155 14946 14946 0.1905832076488423 KKKGRRLRLKK 11 Unmodified _KKKGRRLRLKK_ 0 0 0 REV__ENSG00000171811|ENST00000368586|CFAP46 REV__ENSG00000171811|ENST00000368586|CFAP46 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 471.1542663574219 3 471.000045 1409.9783 NaN NaN NaN NaN NaN NaN NaN 62.432 1 63.163 62.663 63.663 0.73077 0 0 0 1.008 1 29103 29103 0.073264 0 1 + 12859 13519 8134 8156 14947 14947 0.28971452340988435 KKKHKHKQ 8 Unmodified _KKKHKHKQ_ 0 0 0 REV__ENSG00000122257|ENST00000319715|RBBP6 REV__ENSG00000122257|ENST00000319715|RBBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.3396606445312 2 531.338167 1060.66178 NaN NaN NaN NaN NaN NaN NaN 76.24 1 76.24 75.74 76.74 0 0 0 0 0.99035 1 37361 37361 2.3027 0 1 + 12860 11580 8135 8157 14948 14948 0.13387659173508837 KKKHKKKRL 9 Unmodified _KKKHKKKRL_ 0 0 0 ENSG00000185088|ENST00000330964|RPS27L;ENST00000482846.1_1_15:63447754-63448774:-|nuORF ENSG00000185088|ENST00000330964|RPS27L ENSG00000185088|ENST00000330964|RPS27L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 597.4207153320312 2 597.419491 1192.82443 NaN NaN NaN NaN NaN NaN NaN 71.024 1 71.024 70.524 71.524 0 0 0 0 0.91238 1 34509 34509 0.52476 0 1 12861 5489 8136 8158 14949 14949 0.23573042575503678 KKKIIHVRP 9 Unmodified _KKKIIHVRP_ 0 0 0 REV__ENST00000543539.1_1_12:64109255-64118705:-|nuORF REV__ENST00000543539.1_1_12:64109255-64118705:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.1995239257812 2 559.879668 1117.74478 NaN NaN NaN NaN NaN NaN NaN 80.182 1 80.502 80.002 81.002 0.31998 0 0 0 0.91238 1 39219 39219 0.52476 0 1 + 12862 13097 8137 8159 14950 14950 0.19061975901513506 KKKIIKLLPLV 11 Unmodified _KKKIIKLLPLV_ 0 0 0 REV__ENSG00000153201|ENST00000283195|RANBP2 REV__ENSG00000153201|ENST00000283195|RANBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 646.9744262695312 2 646.973234 1291.93191 NaN NaN NaN NaN NaN NaN NaN 61.947 1 61.947 61.447 62.447 0 0 0 0 1.008 1 28967 28967 0.30703 0.03801 1 + 12863 12673 8138 8160 14951 14951 0.297625746663698 KKKILIIK 8 Unmodified _KKKILIIK_ 0 0 0 REV__ENST00000438469.2_1_1:146553889-146554591:-|nuORF REV__ENST00000438469.2_1_1:146553889-146554591:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.51190185546875 2 492.370613 982.726673 NaN NaN NaN NaN NaN NaN NaN 47.148 1 47.148 46.648 47.648 0 0 0 0 0.99035 1 21583 21583 0 0 1 + 12864 16327 8139 8161 14952 14952 0.23461840926813693 KKKIRLEISRT 11 Unmodified _KKKIRLEISRT_ 0 0 0 REV__nc|ENSG00000115590|P27930-2|IL1R2 REV__nc|ENSG00000115590|P27930-2|IL1R2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 686.443603515625 2 686.44336 1370.87217 NaN NaN NaN NaN NaN NaN NaN 66.356 1 66.604 66.104 67.104 0.24848 0 0 0 1.008 1 30400 30400 0.26902 0 1 + 12865 11373 8140 8162 14953 14953 0.20156651985007557 KKKIRLYQFLL 11 Unmodified _KKKIRLYQFLL_ 0 0 0 ENST00000533030.1_1_11:47376780-47400013:-|nuORF;ENSG00000066336|ENST00000378538|SPI1;nc|ENSG00000066336|P17947-2|SPI1 ENST00000533030.1_1_11:47376780-47400013:-|nuORF ENST00000533030.1_1_11:47376780-47400013:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 725.4705810546875 2 725.468847 1448.92314 3.6488 0.0026471 -1.0234 -0.00074246 2.6254 0.0019046 725.4679351000343 42.964 0.11186 42.964 42.874 42.986 0 7 4 2 0 0 0 0.91391 1 19568 19568 0.30703 0 1 869610 12866 705 8141 8163 14954 14954 0.216636010298771 KKKKDDKKKK 10 Unmodified _KKKKDDKKKK_ 0 0 0 nc|ENSG00000090905|Q8NDV7-6|TNRC6A;ENSG00000090905|ENST00000395799|TNRC6A REV__ENSG00000090905|ENST00000395799|TNRC6A REV__ENSG00000090905|ENST00000395799|TNRC6A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 637.4183959960938 2 637.419354 1272.82415 NaN NaN NaN NaN NaN NaN NaN 108.86 1 108.86 108.36 109.36 0 0 0 0 1.0003 1 59578 59578 1.4819 0 1 12867 10720 8142 8164 14955 14955 0.19865578064968759 KKKKEEELKL 10 Unmodified _KKKKEEELKL_ 0 0 0 REV__nc|ENSG00000163126|Q86SG2-2|ANKRD23 REV__nc|ENSG00000163126|Q86SG2-2|ANKRD23 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 637.0999755859375 2 636.89792 1271.78129 NaN NaN NaN NaN NaN NaN NaN 67.181 1 67.883 67.383 68.383 0.70218 0 0 0 0.99464 1 31894 31894 6.2058 0.47393 1 + 12868 12980 8143 8165 14956 14956 0.1562676321689196 KKKKEKFMIKK 11 Unmodified _KKKKEKFMIKK_ 0 0 0 REV__ENST00000357727.6_1_7:28859547-28859715:+|nuORF REV__ENST00000357727.6_1_7:28859547-28859715:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 718.4637451171875 2 718.462707 1434.91086 NaN NaN NaN NaN NaN NaN NaN 73.992 1 74.25 73.75 74.75 0.25876 0 0 0 1.0064 1 34002 34002 2.7352 0.89096 1 + 12869 15572 8144 8166 14957 14957 0.21080241295180713 KKKKEKKKRIL 11 Unmodified _KKKKEKKKRIL_ 0 0 0 ENST00000531243.2_1_1:40041726-40042359:-|nuORF;ENST00000451091.2_1_1:40041668-40042359:-|nuORF ENST00000531243.2_1_1:40041726-40042359:-|nuORF ENST00000531243.2_1_1:40041726-40042359:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 714.0008544921875 2 714.000845 1425.98714 NaN NaN NaN NaN NaN NaN NaN 68.24 1 68.24 67.74 68.74 0 0 0 0 1.0072 1 32842 32842 1.3295 0 1 12870 8016 8145 8167 14958 14958 0.2911838118682226 KKKKEKKKRIL 11 Unmodified _KKKKEKKKRIL_ 0 0 0 ENST00000531243.2_1_1:40041726-40042359:-|nuORF;ENST00000451091.2_1_1:40041668-40042359:-|nuORF ENST00000531243.2_1_1:40041726-40042359:-|nuORF ENST00000531243.2_1_1:40041726-40042359:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 714.0014038085938 2 714.000845 1425.98714 NaN NaN NaN NaN NaN NaN NaN 66.494 1 67.198 66.698 67.698 0.7047 0 0 0 1.008 1 31525 31525 0.26902 0.26902 1 12871 8016 8145 8167 14959 14959 0.2911838118682226 KKKKEKKKRKD 11 Unmodified _KKKKEKKKRKD_ 0 0 0 ENST00000360264.7_1_7:101893260-101893380:+|nuORF ENST00000360264.7_1_7:101893260-101893380:+|nuORF ENST00000360264.7_1_7:101893260-101893380:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 481.8683166503906 3 481.987582 1442.94092 NaN NaN NaN NaN NaN NaN NaN 69.796 1 70.499 69.999 70.999 0.70302 0 0 0 1.0074 1 33418 33418 0.36667 0 1 12872 7209 8146 8168 14960 14960 0.23716316284708228 KKKKEKKSKKN 11 Unmodified _KKKKEKKSKKN_ 0 0 0 REV__nc|ENSG00000005810|O75592-2|MYCBP2 REV__nc|ENSG00000005810|O75592-2|MYCBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 687.4501953125 2 687.451185 1372.88782 NaN NaN NaN NaN NaN NaN NaN 65.072 1 65.072 64.572 65.572 0 0 0 0 1.0061 1 30933 30933 2.7352 0 1 + 12873 10183 8147 8169 14961 14961 0.21628938502067285 KKKKEKKSKKN 11 Unmodified _KKKKEKKSKKN_ 0 0 0 REV__nc|ENSG00000005810|O75592-2|MYCBP2 REV__nc|ENSG00000005810|O75592-2|MYCBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 687.2562255859375 2 687.451185 1372.88782 NaN NaN NaN NaN NaN NaN NaN 68.755 1 68.755 68.255 69.255 0 0 0 0 1.0047 1 33123 33123 4.5289 2.0304 1 + 12874 10183 8147 8169 14962 14962 0.21628938502067285 KKKKFKLDKD 10 Unmodified _KKKKFKLDKD_ 0 0 0 nc|ENSG00000053918|P51787-2|KCNQ1;ENSG00000053918|ENST00000155840|KCNQ1 nc|ENSG00000053918|P51787-2|KCNQ1 nc|ENSG00000053918|P51787-2|KCNQ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 639.400634765625 2 639.40063 1276.78671 NaN NaN NaN NaN NaN NaN NaN 60.436 1 60.692 60.192 61.192 0.25578 0 0 0 1.0015 1 27672 27672 0.40072 0 1 12875 601 8148 8170 14963 14963 0.15938486799359453 KKKKHLFGLRI 11 Unmodified _KKKKHLFGLRI_ 0 0 0 nc|ENSG00000143033|Q9Y483-2|MTF2;nc|ENSG00000143033|Q9Y483-3|MTF2;ENSG00000143033|ENST00000370298|MTF2 nc|ENSG00000143033|Q9Y483-2|MTF2 nc|ENSG00000143033|Q9Y483-2|MTF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.5409851074219 3 456.638113 1366.89251 NaN NaN NaN NaN NaN NaN NaN 66.932 1 67.637 67.137 68.137 0.7047 0 0 0 1.0073 1 31759 31759 0.40827 0 1 12876 3339 8149 8171 14964 14964 0.2237386743549905 KKKKIAIWNGR 11 Unmodified _KKKKIAIWNGR_ 0 0 0 ENST00000316399.10_1_11:15990515-15990713:-|nuORF ENST00000316399.10_1_11:15990515-15990713:-|nuORF ENST00000316399.10_1_11:15990515-15990713:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 671.4246826171875 2 671.427513 1340.84047 NaN NaN NaN NaN NaN NaN NaN 52.459 1 52.459 51.959 52.959 0 0 0 0 1.008 1 24022 24022 0.30703 0 1 12877 6904 8150 8172 14965 14965 0.1836870402171371 KKKKIYKRKLE 11 Unmodified _KKKKIYKRKLE_ 0 0 0 L1MC5a_dup6065|chr6:25834759-25835527:-|3.3305081510680705|0.0722535869421422|5.53|514.0|23|3|sense L1MC5a_dup6065|chr6:25834759-25835527:-|3.3305081510680705|0.0722535869421422|5.53|514.0|23|3|sense L1MC5a_dup6065|chr6:25834759-25835527:-|3.3305081510680705|0.0722535869421422|5.53|514.0|23|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.85601806640625 3 487.992444 1460.9555 NaN NaN NaN NaN NaN NaN NaN 71.659 1 71.916 71.416 72.416 0.25786 0 0 0 1.008 1 32848 32848 0.08335 0.018944 1 12878 9443 8151 8173 14966 14966 0.24346388432854837 KKKKKGKVRHR 11 Unmodified _KKKKKGKVRHR_ 0 0 0 ENST00000563394.1_1_17:42300629-42300752:+|nuORF ENST00000563394.1_1_17:42300629-42300752:+|nuORF ENST00000563394.1_1_17:42300629-42300752:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 696.9738159179688 2 696.972954 1391.93135 NaN NaN NaN NaN NaN NaN NaN 76.137 1 76.394 75.894 76.894 0.25704 0 0 0 1.008 1 35051 35051 0.30703 0 1 12879 9012 8152 8174 14967 14967 0.25106592789870774 KKKKKISLLPV 11 Unmodified _KKKKKISLLPV_ 0 0 0 ENST00000366813.1_1_1:226259189-226259267:+|nuORF ENST00000366813.1_1_1:226259189-226259267:+|nuORF ENST00000366813.1_1_1:226259189-226259267:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.7854614257812 2 641.452665 1280.89078 NaN NaN NaN NaN NaN NaN NaN 62.198 1 62.198 61.698 62.698 0 0 0 0 1.0073 1 29126 29126 1.1933 0.12188 1 12880 7240 8153 8175 14968 14968 0.26156813626903386 KKKKKKAAI 9 Unmodified _KKKKKKAAI_ 0 0 0 REV__L1PB1_dup3131|chr4:69117282-69117596:+|1.59905624223008|0.0293046000434249|5.77|526.0|3|2|sense REV__L1PB1_dup3131|chr4:69117282-69117596:+|1.59905624223008|0.0293046000434249|5.77|526.0|3|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.0084838867188 2 521.876594 1041.73863 NaN NaN NaN NaN NaN NaN NaN 72.018 1 72.018 71.518 72.518 0 0 0 0 0.91238 1 35016 35016 0.52476 0 1 + 12881 17805 8154 8176 14969 14969 0.2194345766997685 KKKKKKGC 8 Unmodified _KKKKKKGC_ 0 0 0 REV__ENST00000444188.1_1_6:169613405-169614351:+|nuORF REV__ENST00000444188.1_1_6:169613405-169614351:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.3136291503906 2 474.312772 946.610991 NaN NaN NaN NaN NaN NaN NaN 73.387 1 73.387 72.887 73.887 0 0 0 0 0.99035 1 35765 35765 2.3027 1.6124 1 + 12882 16368 8155 8177 14970 14970 0.1355499380430274 KKKKKKGKKSS 11 Unmodified _KKKKKKGKKSS_ 0 0 0 ENSG00000136045|ENST00000412830|PWP1 ENSG00000136045|ENST00000412830|PWP1 ENSG00000136045|ENST00000412830|PWP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 637.9351806640625 2 637.935171 1273.85579 NaN NaN NaN NaN NaN NaN NaN 51.382 1 52.199 51.699 52.699 0.81738 0 0 0 1.0082 1 23406 23406 0 0 1 12883 2921 8156 8178 14971 14971 0.22981570818956243 KKKKKKKAA 9 Unmodified _KKKKKKKAA_ 0 0 0 REV__L1PB1_dup3131|chr4:69117282-69117596:+|1.59905624223008|0.0293046000434249|5.77|526.0|3|2|sense REV__L1PB1_dup3131|chr4:69117282-69117596:+|1.59905624223008|0.0293046000434249|5.77|526.0|3|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.3817138671875 2 529.382043 1056.74953 3.4819 0.0018433 -0.65093 -0.00034459 2.831 0.0014987 529.3815805698183 105.04 0.16451 105.64 105.56 105.72 0.59885 20 12 2 0 0 0 1.2459 1 48513 48513 0 0 1 1104100 + 12884 17805 8157 8179 14972 14972 0.22342860044273039 KKKKKKKAA 9 Unmodified _KKKKKKKAA_ 0 0 0 REV__L1PB1_dup3131|chr4:69117282-69117596:+|1.59905624223008|0.0293046000434249|5.77|526.0|3|2|sense REV__L1PB1_dup3131|chr4:69117282-69117596:+|1.59905624223008|0.0293046000434249|5.77|526.0|3|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.5866088867188 2 529.382043 1056.74953 NaN NaN NaN NaN NaN NaN NaN 96.03 1 96.638 96.138 97.138 0.60769 0 0 0 0.91452 1 44157 44157 0 0 1 + 12885 17805 8157 8179 14973 14973 0.22342860044273039 KKKKKKKAKWK 11 Unmodified _KKKKKKKAKWK_ 0 0 0 REV__L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|126|3|sense REV__L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|126|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 714.8433837890625 2 714.998106 1427.98166 NaN NaN NaN NaN NaN NaN NaN 95.012 1 95.012 94.512 95.512 0 0 0 0 1.0082 1 51074 51074 0 0 1 + 12886 17792 8158 8180 14974 14974 0.28478702395000255 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 391.2853088378906 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 13.185 1 13.185 12.685 13.685 0 0 0 0 1.0019 1 5759 5759 0.13989 0 1 + 12887 11955 8159 8181 14975 14975 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 391.2850341796875 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 71.771 1 71.771 71.271 72.271 0 0 0 0 1.002 1 34891 34891 0 0 1 + 12888 11955 8159 8181 14976 14976 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 391.2855529785156 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 10.184 1 10.48 9.9798 10.98 0.2956 0 0 0 1.002 1 4488 4488 0 0 1 + 12889 11955 8159 8181 14977 14977 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 391.28515625 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 17.645 1 17.846 17.346 18.346 0.20057 0 0 0 1.002 1 7813 7813 0 0 1 + 12890 11955 8159 8181 14978 14978 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 391.2850341796875 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 27.098 1 27.877 27.377 28.377 0.7787 0 0 0 1.002 1 12179 12179 0 0 1 + 12891 11955 8159 8181 14979 14979 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.7718505859375 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 19.134 1 19.431 18.931 19.931 0.29753 0 0 0 1.002 1 8696 8696 0 0 1 + 12892 11955 8159 8181 14980 14980 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.2857666015625 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 25.243 1 25.511 25.011 26.011 0.26777 0 0 0 1.002 1 11454 11454 0 0 1 + 12893 11955 8159 8181 14981 14981 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.28533935546875 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 26.195 1 26.46 25.96 26.96 0.26489 0 0 0 1.002 1 11899 11899 0 0 1 + 12894 11955 8159 8181 14982 14982 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.2851867675781 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 68.046 1 68.298 67.798 68.798 0.25227 0 0 0 1.002 1 31171 31171 0 0 1 + 12895 11955 8159 8181 14983 14983 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.28485107421875 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 71.261 1 71.519 71.019 72.019 0.25786 0 0 0 1.002 1 32642 32642 0 0 1 + 12896 11955 8159 8181 14984 14984 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.28485107421875 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 75.487 1 75.744 75.244 76.244 0.25704 0 0 0 1.002 1 34737 34737 0 0 1 + 12897 11955 8159 8181 14985 14985 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.28521728515625 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 77.334 1 77.589 77.089 78.089 0.25533 0 0 0 1.002 1 35615 35615 0 0 1 + 12898 11955 8159 8181 14986 14986 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.2857666015625 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 78.695 1 78.947 78.447 79.447 0.25127 0 0 0 1.002 1 36238 36238 0 0 1 + 12899 11955 8159 8181 14987 14987 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.2854309082031 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 80.766 1 81.015 80.515 81.515 0.24899 0 0 0 1.002 1 37187 37187 0 0 1 + 12900 11955 8159 8181 14988 14988 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.28509521484375 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 83.394 1 83.642 83.142 84.142 0.24722 0 0 0 1.002 1 38386 38386 0 0 1 + 12901 11955 8159 8181 14989 14989 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.28558349609375 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 84.928 1 85.175 84.675 85.675 0.24757 0 0 0 1.002 1 39085 39085 0 0 1 + 12902 11955 8159 8181 14990 14990 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.2853698730469 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 89.632 1 89.883 89.383 90.383 0.25137 0 0 0 1.002 1 41223 41223 0 0 1 + 12903 11955 8159 8181 14991 14991 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.2854309082031 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 13.589 1 14.237 13.737 14.737 0.6482 0 0 0 1.002 1 6105 6105 0 0 1 + 12904 11955 8159 8181 14992 14992 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.2850341796875 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 25.838 1 26.463 25.963 26.963 0.62505 0 0 0 1.002 1 11846 11846 0 0 1 + 12905 11955 8159 8181 14993 14993 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.28515625 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 25.959 1 26.584 26.084 27.084 0.62505 0 0 0 1.002 1 11902 11902 0 0 1 + 12906 11955 8159 8181 14994 14994 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.2857666015625 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 64.961 1 65.617 65.117 66.117 0.65672 0 0 0 1.002 1 29781 29781 0 0 1 + 12907 11955 8159 8181 14995 14995 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.2846984863281 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 76.13 1 76.794 76.294 77.294 0.66387 0 0 0 1.002 1 35072 35072 0 0 1 + 12908 11955 8159 8181 14996 14996 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.2851257324219 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 76.953 1 77.616 77.116 78.116 0.66303 0 0 0 1.002 1 35461 35461 0 0 1 + 12909 11955 8159 8181 14997 14997 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.2851867675781 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 77.927 1 78.589 78.089 79.089 0.66198 0 0 0 1.002 1 35912 35912 0 0 1 + 12910 11955 8159 8181 14998 14998 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.2857666015625 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 78.782 1 79.444 78.944 79.944 0.66198 0 0 0 1.002 1 36303 36303 0 0 1 + 12911 11955 8159 8181 14999 14999 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.28515625 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 82.398 1 83.059 82.559 83.559 0.66019 0 0 0 1.002 1 37965 37965 0 0 1 + 12912 11955 8159 8181 15000 15000 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.2859802246094 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 85.245 1 85.911 85.411 86.411 0.66566 0 0 0 1.002 1 39256 39256 0 0 1 + 12913 11955 8159 8181 15001 15001 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.2852783203125 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 96.696 1 97.298 96.798 97.798 0.6019 0 0 0 1.002 1 44457 44457 0 0 1 + 12914 11955 8159 8181 15002 15002 0.25026506998415243 KKKKKKKGKA 10 Unmodified _KKKKKKKGKA_ 0 0 0 REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF REV__ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.2852783203125 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 97.318 1 97.92 97.42 98.42 0.6019 0 0 0 1.002 1 44747 44747 0 0 1 + 12915 11955 8159 8181 15003 15003 0.25026506998415243 KKKKKKKGKL 10 Unmodified _KKKKKKKGKL_ 0 0 0 nc|ENSG00000174780|O76094-2|SRP72;ENSG00000174780|ENST00000642900|SRP72 nc|ENSG00000174780|O76094-2|SRP72 nc|ENSG00000174780|O76094-2|SRP72 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.24993896484375 3 405.299209 1212.8758 NaN NaN NaN NaN NaN NaN NaN 10.718 1 11.351 10.851 11.851 0.63304 0 0 0 1.002 1 4827 4827 0 0 1 12916 4995 8160 8182 15004 15004 0.27787366549569015 KKKKKKKKAAI 11 Unmodified _KKKKKKKKAAI_ 0 0 0 REV__L1PB1_dup3131|chr4:69117282-69117596:+|1.59905624223008|0.0293046000434249|5.77|526.0|3|2|sense REV__L1PB1_dup3131|chr4:69117282-69117596:+|1.59905624223008|0.0293046000434249|5.77|526.0|3|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 649.9725952148438 2 649.971557 1297.92856 NaN NaN NaN NaN NaN NaN NaN 63.689 1 63.937 63.437 64.437 0.24803 0 0 0 1.008 1 29169 29169 0.35063 0 1 + 12917 17805 8161 8183 15005 15005 0.29151324612371354 KKKKKKKKELK 11 Unmodified _KKKKKKKKELK_ 0 0 0 REV__ENST00000433510.2_1_17:46713640-46724167:-|nuORF REV__ENST00000433510.2_1_17:46713640-46724167:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 707.50390625 2 707.503221 1412.99189 NaN NaN NaN NaN NaN NaN NaN 28.99 1 29.779 29.279 30.279 0.78921 0 0 0 1.0082 1 13064 13064 0 0 1 12918 16284 8162 8184 15006 15006 0.30191265329585804 KKKKKKKKHRH 11 Unmodified _KKKKKKKKHRH_ 0 0 0 REV__ENST00000521713.1_1_7:6179681-6199085:+|nuORF REV__ENST00000521713.1_1_7:6179681-6199085:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 737.5029907226562 2 737.501878 1472.9892 NaN NaN NaN NaN NaN NaN NaN 50.374 1 50.374 49.874 50.874 0 0 0 0 1.0082 1 23062 23062 0 0 1 + 12919 11079 8163 8185 15007 15007 0.2716285471528863 KKKKKKKKKAK 11 Unmodified _KKKKKKKKKAK_ 0 0 0 REV__ENST00000359543.7_1_16:10626568-10626661:-|nuORF REV__ENST00000359543.7_1_16:10626568-10626661:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 686.003173828125 2 686.005931 1369.99731 NaN NaN NaN NaN NaN NaN NaN 71.106 1 71.81 71.31 72.31 0.70386 0 0 0 1.008 1 34132 34132 0.26902 0 1 + 12920 15600 8164 8186 15008 15008 0.3271098891204929 KKKKKKKKKH 10 Unmodified _KKKKKKKKKH_ 0 0 0 ENSG00000164609|ENST00000297151|SLU7 ENSG00000164609|ENST00000297151|SLU7 ENSG00000164609|ENST00000297151|SLU7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.6099853515625 3 436.981991 1307.92414 NaN NaN NaN NaN NaN NaN NaN 67.471 1 68.173 67.673 68.673 0.70218 0 0 0 1.0019 1 32089 32089 0.13989 0.017027 1 12921 4328 8165 8187 15009 15009 0.28249860189430365 KKKKKKKKKKE 11 Unmodified _KKKKKKKKKKE_ 0 0 0 ENST00000349223.9_1_16:68260779-68260980:+|nuORF ENST00000349223.9_1_16:68260779-68260980:+|nuORF ENST00000349223.9_1_16:68260779-68260980:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.00994873046875 3 477.008206 1428.00279 NaN NaN NaN NaN NaN NaN NaN 60.46 1 61.199 60.699 61.699 0.7396 0 0 0 1.0082 1 27898 27898 0.08335 0.010087 1 12922 7129 8166 8188 15010 15010 0.30590667703859253 KKKKKKKKKKH 11 Unmodified _KKKKKKKKKKH_ 0 0 0 ENSG00000164609|ENST00000297151|SLU7 ENSG00000164609|ENST00000297151|SLU7 ENSG00000164609|ENST00000297151|SLU7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 719.014892578125 2 719.01683 1436.01911 NaN NaN NaN NaN NaN NaN NaN 68.484 1 69.186 68.686 69.686 0.70218 0 0 0 1.008 1 32652 32652 0.30703 0.03801 1 12923 4328 8167 8189 15011 15011 0.3185379366061625 KKKKKKKKKLF 11 Unmodified _KKKKKKKKKLF_ 0 0 0 REV__ENST00000344423.9_1_8:28205640-28205820:-|nuORF REV__ENST00000344423.9_1_8:28205640-28205820:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 716.5172119140625 2 716.516131 1431.01771 NaN NaN NaN NaN NaN NaN NaN 43.282 1 43.931 43.431 44.431 0.64872 0 0 0 1.0082 1 19834 19834 0 0 1 + 12924 15492 8168 8190 15012 15012 0.31944159571844466 KKKKKKKKKSF 11 Unmodified _KKKKKKKKKSF_ 0 0 0 ENST00000344423.9_1_8:28205640-28205820:-|nuORF ENST00000344423.9_1_8:28205640-28205820:-|nuORF ENST00000344423.9_1_8:28205640-28205820:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 703.6253051757812 2 703.490114 1404.96567 NaN NaN NaN NaN NaN NaN NaN 64.133 1 64.133 63.633 64.633 0 0 0 0 1.0082 1 30313 30313 0.30703 0.30703 1 12925 7100 8169 8191 15013 15013 0.279389961581046 KKKKKKKKKSF 11 Unmodified _KKKKKKKKKSF_ 0 0 0 ENST00000344423.9_1_8:28205640-28205820:-|nuORF ENST00000344423.9_1_8:28205640-28205820:-|nuORF ENST00000344423.9_1_8:28205640-28205820:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 703.1239624023438 2 703.490114 1404.96567 NaN NaN NaN NaN NaN NaN NaN 105.2 1 105.25 104.75 105.75 0.050888 0 0 0 1.0082 1 56904 56904 0.30703 0.30703 1 12926 7100 8169 8191 15014 15014 0.279389961581046 KKKKKKKKKSF 11 Unmodified _KKKKKKKKKSF_ 0 0 0 ENST00000344423.9_1_8:28205640-28205820:-|nuORF ENST00000344423.9_1_8:28205640-28205820:-|nuORF ENST00000344423.9_1_8:28205640-28205820:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 469.3985595703125 3 469.329168 1404.96567 NaN NaN NaN NaN NaN NaN NaN 76.774 1 77.438 76.938 77.938 0.66364 0 0 0 1.0082 1 35376 35376 0.08335 0.08335 1 12927 7100 8169 8191 15015 15015 0.279389961581046 KKKKKKKKKTG 11 Unmodified _KKKKKKKKKTG_ 0 0 0 ENST00000373344.9_1_X:76762287-76762440:-|nuORF ENST00000373344.9_1_X:76762287-76762440:-|nuORF ENST00000373344.9_1_X:76762287-76762440:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 443.9866638183594 3 443.985401 1328.93437 NaN NaN NaN NaN NaN NaN NaN 61.538 1 62.277 61.777 62.777 0.7396 0 0 0 1.0082 1 28552 28552 0.08335 0 1 12928 7356 8170 8192 15016 15016 0.283064231239905 KKKKKKKKLF 10 Unmodified _KKKKKKKKLF_ 0 0 0 REV__ENST00000495836.1_1_2:69771529-69870271:-|nuORF;REV__ENST00000344423.9_1_8:28205640-28205820:-|nuORF REV__ENST00000344423.9_1_8:28205640-28205820:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 652.4713134765625 2 652.46865 1302.92275 NaN NaN NaN NaN NaN NaN NaN 48.391 1 49.218 48.718 49.718 0.82705 0 0 0 1.002 1 22045 22045 0 0 1 + 12929 15492;16845 8171 8193 15017 15017 0.2834022610068132 KKKKKKKKLFS 11 Unmodified _KKKKKKKKLFS_ 0 0 0 REV__ENST00000495836.1_1_2:69771529-69870271:-|nuORF REV__ENST00000495836.1_1_2:69771529-69870271:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.2742614746094 3 464.325535 1389.95478 NaN NaN NaN NaN NaN NaN NaN 62.873 1 62.873 62.373 63.373 0 0 0 0 1.0082 1 29509 29509 0.08335 0.08335 1 + 12930 16845 8172 8194 15018 15018 0.2753959378383115 KKKKKKKKLL 10 Unmodified _KKKKKKKKLL_ 0 0 0 REV__ENST00000378289.8_1_10:14940166-14940367:-|nuORF REV__ENST00000378289.8_1_10:14940166-14940367:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 635.4776000976562 2 635.476475 1268.9384 NaN NaN NaN NaN NaN NaN NaN 79.774 1 79.774 79.274 80.274 0 0 0 0 1.002 1 39469 39469 0 0 1 + 12931 15849 8173 8195 15019 15019 0.31468512617743727 KKKKKKKKLVF 11 Unmodified _KKKKKKKKLVF_ 0 0 0 REV__ENST00000522197.1_1_8:122652185-122654912:+|nuORF REV__ENST00000522197.1_1_8:122652185-122654912:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 701.8500366210938 2 702.002857 1401.99116 NaN NaN NaN NaN NaN NaN NaN 98.917 1 99.514 99.014 100.01 0.59748 0 0 0 1.008 1 45676 45676 0.30703 0 1 + 12932 17001 8174 8196 15020 15020 0.3062447068052734 KKKKKKKKSKG 11 Unmodified _KKKKKKKKSKG_ 0 0 0 REV__ENSG00000147649|ENST00000336273|MTDH REV__ENSG00000147649|ENST00000336273|MTDH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 438.90069580078125 3 439.313518 1314.91872 NaN NaN NaN NaN NaN NaN NaN 65.761 1 65.761 65.261 66.261 0 0 0 0 1.0082 1 31345 31345 0 0 1 + 12933 12514 8175 8197 15021 15021 0.2738613660694682 KKKKKKKKSKG 11 Unmodified _KKKKKKKKSKG_ 0 0 0 REV__ENSG00000147649|ENST00000336273|MTDH REV__ENSG00000147649|ENST00000336273|MTDH MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 658.4690551757812 2 658.466638 1314.91872 NaN NaN NaN NaN NaN NaN NaN 71.129 1 71.387 70.887 71.887 0.25786 0 0 0 1.0082 1 32580 32580 0 0 1 + 12934 12514 8175 8197 15022 15022 0.2738613660694682 KKKKKKKKSVA 11 Unmodified _KKKKKKKKSVA_ 0 0 0 REV__AluJb_dup44094|chr6:106769172-106769502:-|2.713822644894236|0.2191168083263084|3.63|539.0|5|1|sense REV__AluJb_dup44094|chr6:106769172-106769502:-|2.713822644894236|0.2191168083263084|3.63|539.0|5|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.56005859375 3 434.309885 1299.90782 NaN NaN NaN NaN NaN NaN NaN 103.91 1 104.51 104.01 105.01 0.59821 0 0 0 1.0082 1 48057 48057 0 0 1 + 12935 9942 8176 8198 15023 15023 0.2698673423269611 KKKKKKKKTR 10 Unmodified _KKKKKKKKTR_ 0 0 0 REV__ENST00000367558.5_1_1:182569199-182569457:-|nuORF REV__ENST00000367558.5_1_1:182569199-182569457:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.385009765625 3 434.313629 1299.91906 NaN NaN NaN NaN NaN NaN NaN 73.793 1 74.458 73.958 74.958 0.6644 0 0 0 1.0019 1 33942 33942 0.13989 0.017027 1 + 12936 15662 8177 8199 15024 15024 0.2810955632680816 KKKKKKKLFL 10 Unmodified _KKKKKKKLFL_ 0 0 0 REV__ENST00000344423.9_1_8:28205640-28205820:-|nuORF REV__ENST00000344423.9_1_8:28205640-28205820:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.9606323242188 2 644.9632 1287.91185 NaN NaN NaN NaN NaN NaN NaN 73.166 1 73.166 72.666 73.666 0 0 0 0 1.0015 1 35636 35636 0.40072 0.40072 1 + 12937 15492 8178 8200 15025 15025 0.2794082372640787 KKKKKKKLIC 10 Unmodified _KKKKKKKLIC_ 0 0 0 REV__ENST00000368679.8_1_10:127702855-127703017:-|nuORF REV__ENST00000368679.8_1_10:127702855-127703017:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 623.0758056640625 2 622.933586 1243.85262 NaN NaN NaN NaN NaN NaN NaN 90.048 1 90.112 89.612 90.612 0.064346 0 0 0 1.0015 1 46302 46302 0.45834 0 1 + 12938 15690 8179 8201 15026 15026 0.24044604440587136 KKKKKKKLIV 10 Unmodified _KKKKKKKLIV_ 0 0 0 REV__nc|ENSG00000198929|O75052-3|NOS1AP REV__nc|ENSG00000198929|O75052-3|NOS1AP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.9686279296875 2 620.9632 1239.91185 NaN NaN NaN NaN NaN NaN NaN 71.212 1 71.916 71.416 72.416 0.70386 0 0 0 1.0015 1 34191 34191 0.40072 0 1 + 12939 18105 8180 8202 15027 15027 0.3014882372640386 KKKKKKKLKK 10 Unmodified _KKKKKKKLKK_ 0 0 0 REV__ENST00000378026.4_3_12:106631761-106631812:-|nuORF REV__ENST00000378026.4_3_12:106631761-106631812:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 642.9841918945312 2 642.981924 1283.9493 NaN NaN NaN NaN NaN NaN NaN 47.832 1 47.832 47.332 48.332 0 0 0 0 1.0015 1 21905 21905 0.40072 0 1 + 12940 15842 8181 8203 15028 15028 0.31867914992017177 KKKKKKKLL 9 Unmodified _KKKKKKKLL_ 0 0 0 REV__ENST00000378289.8_1_10:14940166-14940367:-|nuORF REV__ENST00000378289.8_1_10:14940166-14940367:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.429931640625 2 571.428993 1140.84343 NaN NaN NaN NaN NaN NaN NaN 83.556 1 83.556 83.056 84.056 0 0 0 0 0.91452 1 42104 42104 0 0 1 + 12941 15849 8182 8204 15029 15029 0.27864579146557844 KKKKKKKLRKR 11 Unmodified _KKKKKKKLRKR_ 0 0 0 REV__nc|ENSG00000067066|P23497-5|SP100 REV__nc|ENSG00000067066|P23497-5|SP100 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.54095458984375 3 490.359461 1468.05655 NaN NaN NaN NaN NaN NaN NaN 61.065 1 61.065 60.565 61.565 0 0 0 0 1.008 1 28456 28456 0.08335 0.010087 1 + 12942 17863 8183 8205 15030 15030 0.34124884926222876 KKKKKKKQRLQ 11 Unmodified _KKKKKKKQRLQ_ 0 0 0 L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|126|3|sense L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|126|3|sense L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|126|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 720.9989013671875 2 720.996094 1439.97764 NaN NaN NaN NaN NaN NaN NaN 95.764 1 95.764 95.264 96.264 0 0 0 0 1.0082 1 51657 51657 0 0 1 12943 9471 8184 8206 15031 15031 0.2752461290131123 KKKKKKKR 8 Unmodified _KKKKKKKR_ 0 0 0 ENST00000521713.1_1_7:6179681-6199085:+|nuORF;ENSG00000106346|ENST00000306177|USP42;nc|ENSG00000106346|Q9H9J4|USP42;ENST00000479544.6_1_7:6150764-6196715:+|nuORF;AluJb_dup44094|chr6:106769172-106769502:-|2.713822644894236|0.2191168083263084|3.63|539.0|14|3|sense;ENST00000303924.4_1_8:122653360-122653450:-|nuORF;ENST00000549136.1_1_12:95869884-95877058:+|nuORF;Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|19|1|sense;ENST00000244745.3_2_6:21594329-21594497:+|nuORF;ENST00000480171.7_1_2:159519375-159537186:+|nuORF;nc|ENSG00000089335|Q9NR11|ZNF302;nc|ENSG00000144283|Q99569-2|PKP4;ENSG00000144283|ENST00000389759|PKP4;ENST00000439685.6_1_3:112358751-112359896:-|nuORF;ENST00000475181.1_1_3:112359734-112359896:-|nuORF;ENST00000340726.7_1_8:72274331-72274436:-|nuORF;ENSG00000111142|ENST00000323666|METAP2;nc|ENSG00000111142|P50579-3|METAP2;ENST00000378289.8_1_10:14940166-14940367:-|nuORF;ENST00000359543.7_1_16:10626568-10626661:-|nuORF;ENSG00000055044|ENST00000264279|NOP58;TRHDE|p.F993Sfs*26|1|0.04|ENSG00000072657|chr12:72663096-72663096|T/-|frameshift_variant;ENSG00000072657|ENST00000261180|TRHDE;ENSG00000088205|ENST00000263239|DDX18;Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|4|1|sense;nc|ENSG00000170085|Q8NDZ2-2|SIMC1 ENST00000521713.1_1_7:6179681-6199085:+|nuORF;REV__ENST00000439685.6_1_3:112358751-112359896:-|nuORF;REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF;ENST00000340726.7_1_8:72274331-72274436:-|nuORF;ENSG00000111142|ENST00000323666|METAP2;ENST00000378289.8_1_10:14940166-14940367:-|nuORF;ENST00000359543.7_1_16:10626568-10626661:-|nuORF;ENSG00000055044|ENST00000264279|NOP58;TRHDE|p.F993Sfs*26|1|0.04|ENSG00000072657|chr12:72663096-72663096|T/-|frameshift_variant;ENSG00000088205|ENST00000263239|DDX18;Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|4|1|sense;nc|ENSG00000170085|Q8NDZ2-2|SIMC1;REV__ENST00000567998.5_1_16:28621482-28621938:-|nuORF REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.2843017578125 2 536.395485 1070.77642 NaN NaN NaN NaN NaN NaN NaN 69.166 1 69.868 69.368 70.368 0.70218 0 0 0 0.99035 1 33075 33075 0.69038 0.088878 1 12944 16641;1564;16333;7067;7431;7204;613;9751;1744;794;9370;17431;1008 8185 8207 15032 15032 0.24385968655451506 KKKKKKKTLIY 11 Unmodified _KKKKKKKTLIY_ 0 0 0 ENST00000297857.3_1_8:124261964-124262105:-|nuORF ENST00000297857.3_1_8:124261964-124262105:-|nuORF ENST00000297857.3_1_8:124261964-124262105:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 703.4854736328125 2 703.484497 1404.95444 NaN NaN NaN NaN NaN NaN NaN 69.182 1 69.182 68.682 69.682 0 0 0 0 1.0082 1 33373 33373 0 0 1 12945 6776 8186 8208 15033 15033 0.2681617406399255 KKKKKKKTT 9 Unmodified _KKKKKKKTT_ 0 0 0 REV__ENSG00000130826|ENST00000369550|DKC1 REV__ENSG00000130826|ENST00000369550|DKC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.3687744140625 2 559.392608 1116.77066 NaN NaN NaN NaN NaN NaN NaN 62.747 1 62.747 62.247 63.247 0 0 0 0 0.91238 1 29428 29428 0.52476 0.52476 1 + 12946 11834 8187 8209 15034 15034 0.21694825353119995 KKKKKKKTT 9 Unmodified _KKKKKKKTT_ 0 0 0 REV__ENSG00000130826|ENST00000369550|DKC1 REV__ENSG00000130826|ENST00000369550|DKC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.3939819335938 2 559.392608 1116.77066 NaN NaN NaN NaN NaN NaN NaN 61.228 1 61.968 61.468 62.468 0.7396 0 0 0 0.91238 1 28362 28362 0.52476 0.52476 1 + 12947 11834 8187 8209 15035 15035 0.21694825353119995 KKKKKKKTT 9 Unmodified _KKKKKKKTT_ 0 0 0 REV__ENSG00000130826|ENST00000369550|DKC1 REV__ENSG00000130826|ENST00000369550|DKC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.394775390625 2 559.392608 1116.77066 4.3981 0.0024602 -1.3841 -0.00077425 3.014 0.001686 559.3919111591139 105.5 0.12065 105.82 105.73 105.85 0.31782 10 4 3 0 0 0 1.1412 1 48701 48701 1.6526 1.6526 1 2510300 + 12948 11834 8187 8209 15036 15036 0.21694825353119995 KKKKKKKTT 9 Unmodified _KKKKKKKTT_ 0 0 0 REV__ENSG00000130826|ENST00000369550|DKC1 REV__ENSG00000130826|ENST00000369550|DKC1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 559.392608 1116.77066 4.3981 0.0024602 -1.3841 -0.00077425 3.014 0.001686 559.3919111591139 105.5 0.12065 105.82 105.73 105.85 0.31782 -0.10749 0.00023627 NaN 1.6526 10 4 3 NaN NaN NaN NaN 0 NaN NaN 0 2510300 + 12949 11834 8187 8209 0.21694825353119995 KKKKKKKTT 9 Unmodified _KKKKKKKTT_ 0 0 0 REV__ENSG00000130826|ENST00000369550|DKC1 REV__ENSG00000130826|ENST00000369550|DKC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 559.392608 1116.77066 3.7447 0.0020948 -2.034 -0.0011378 1.7107 0.00095696 559.3914041612126 105.43 0.11675 106.03 105.96 106.08 0.59969 0.10749 -0.00049087 NaN 1.6526 10 5 2 NaN NaN NaN NaN 0 NaN NaN 0 1054100 + 12950 11834 8187 8209 0.21694825353119995 KKKKKKKVIVL 11 Unmodified _KKKKKKKVIVL_ 0 0 0 REV__ENST00000393214.2_1_X:73596212-73596416:-|nuORF REV__ENST00000393214.2_1_X:73596212-73596416:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.4977416992188 2 670.497407 1338.98026 NaN NaN NaN NaN NaN NaN NaN 71.618 1 72.322 71.822 72.822 0.70386 0 0 0 1.008 1 34409 34409 0.30703 0 1 + 12951 15944 8188 8210 15037 15037 0.3243306830624988 KKKKKKKVRKV 11 Unmodified _KKKKKKKVRKV_ 0 0 0 ENST00000444188.1_1_6:169613405-169614351:+|nuORF ENST00000444188.1_1_6:169613405-169614351:+|nuORF ENST00000444188.1_1_6:169613405-169614351:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 699.6859741210938 2 699.51138 1397.00821 NaN NaN NaN NaN NaN NaN NaN 98.01 1 98.081 97.581 98.581 0.070648 0 0 0 1.0082 1 52570 52570 0 0 1 12952 7957 8189 8211 15038 15038 0.32558391286329424 KKKKKKLFA 9 Unmodified _KKKKKKLFA_ 0 0 0 REV__ENST00000375664.8_2_10:28908866-28909124:+|nuORF REV__ENST00000375664.8_2_10:28908866-28909124:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.934814453125 2 559.892244 1117.76993 NaN NaN NaN NaN NaN NaN NaN 74.55 1 74.808 74.308 75.308 0.25831 0 0 0 0.91238 1 34293 34293 0.52476 0.52476 1 + 12953 15809 8190 8212 15039 15039 0.21576030704068216 KKKKKKLKD 9 Unmodified _KKKKKKLKD_ 0 0 0 ENSG00000116254|ENST00000262450|CHD5;ENSG00000183354|ENST00000399933|KIAA2026;KIAA2026|p.N1948Kfs*5|1|0.04|ENSG00000183354|chr9:5920152-5920153|-/AGTCTCCAGC|frameshift_variant ENSG00000116254|ENST00000262450|CHD5;ENSG00000183354|ENST00000399933|KIAA2026 ENSG00000116254|ENST00000262450|CHD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 572.40234375 2 572.400433 1142.78631 NaN NaN NaN NaN NaN NaN NaN 61.882 1 61.882 61.382 62.382 0 0 0 0 0.91238 1 28925 28925 0.52476 0 1 12954 2022;5377 8191 8213 15040 15040 0.22063111870147623 KKKKKKLKDKK 11 Unmodified _KKKKKKLKDKK_ 0 0 0 ENSG00000116254|ENST00000262450|CHD5 ENSG00000116254|ENST00000262450|CHD5 ENSG00000116254|ENST00000262450|CHD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.90362548828125 3 467.332689 1398.97624 NaN NaN NaN NaN NaN NaN NaN 69.377 1 70.08 69.58 70.58 0.70302 0 0 0 1.0082 1 33201 33201 0.08335 0 1 12955 2022 8192 8214 15041 15041 0.2927097881251939 KKKKKKLKKQF 11 Unmodified _KKKKKKLKKQF_ 0 0 0 REV__ENST00000378026.4_3_12:106631761-106631812:-|nuORF REV__ENST00000378026.4_3_12:106631761-106631812:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 716.2406005859375 2 716.497939 1430.98132 NaN NaN NaN NaN NaN NaN NaN 92.922 1 93.177 92.677 93.677 0.25497 0 0 0 1.0082 1 42711 42711 0 0 1 + 12956 15842 8193 8215 15042 15042 0.2830728267513223 KKKKKKLLLFY 11 Unmodified _KKKKKKLLLFY_ 0 0 0 REV__ENST00000485024.1_1_3:184529997-184533630:+|nuORF REV__ENST00000485024.1_1_3:184529997-184533630:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 718.9906616210938 2 718.989415 1435.96428 NaN NaN NaN NaN NaN NaN NaN 70.612 1 70.612 70.112 71.112 0 0 0 0 1.008 1 34289 34289 0.30703 0.30703 1 + 12957 16738 8194 8216 15043 15043 0.2637336206935288 KKKKKKLLLVT 11 Unmodified _KKKKKKLLLVT_ 0 0 0 REV__ENST00000378289.8_1_10:14940166-14940367:-|nuORF REV__ENST00000378289.8_1_10:14940166-14940367:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.9837036132812 2 663.98159 1325.94863 NaN NaN NaN NaN NaN NaN NaN 35.499 1 35.755 35.255 36.255 0.25524 0 0 0 1.0082 1 16172 16172 0 0 1 + 12958 15849 8195 8217 15044 15044 0.29869075552301183 KKKKKKLRSR 10 Unmodified _KKKKKKLRSR_ 0 0 0 REV__AluJb_dup107864|chr17:42999154-42999315:-|6.401154338767979|0.0002278324850216|14.78|542.0|4|2|sense REV__AluJb_dup107864|chr17:42999154-42999315:-|6.401154338767979|0.0002278324850216|14.78|542.0|4|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 650.45556640625 2 650.456605 1298.89866 NaN NaN NaN NaN NaN NaN NaN 63.947 1 63.947 63.447 64.447 0 0 0 0 1.0015 1 30176 30176 0.40072 0 1 + 12959 9941 8196 8218 15045 15045 0.2611638566700094 KKKKKKLSKQN 11 Unmodified _KKKKKKLSKQN_ 0 0 0 REV__ENST00000287701.14_1_8:28909287-28909479:+|nuORF REV__ENST00000287701.14_1_8:28909287-28909479:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 679.27392578125 2 679.453728 1356.8929 NaN NaN NaN NaN NaN NaN NaN 57.086 1 57.864 57.364 58.364 0.77786 0 0 0 1.0063 1 26118 26118 2.4985 1.0166 1 + 12960 15112 8197 8219 15046 15046 0.22873242364698854 KKKKKKQKK 9 Unmodified _KKKKKKQKK_ 0 0 0 ENSG00000136448|ENST00000258960|NMT1;ENST00000590114.5_1_17:43138721-43173651:+|nuORF ENSG00000136448|ENST00000258960|NMT1 ENSG00000136448|ENST00000258960|NMT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 586.419189453125 2 586.4217 1170.82885 NaN NaN NaN NaN NaN NaN NaN 94.902 1 94.984 94.484 95.484 0.082001 0 0 0 0.91356 1 50039 50039 0.52476 0 1 12961 2950 8198 8220 15047 15047 0.25026506998392506 KKKKKKRAT 9 Unmodified _KKKKKKRAT_ 0 0 0 REV__ENST00000567998.5_1_16:28621482-28621938:-|nuORF REV__ENST00000567998.5_1_16:28621482-28621938:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.3903198242188 2 558.3904 1114.76625 NaN NaN NaN NaN NaN NaN NaN 78.107 1 78.361 77.861 78.861 0.25335 0 0 0 0.91238 1 35971 35971 0.52476 0 1 + 12962 17431 8199 8221 15048 15048 0.21345360930217794 KKKKKKRKKSP 11 Unmodified _KKKKKKRKKSP_ 0 0 0 ENST00000392686.6_1_3:178977460-178977592:-|nuORF ENST00000392686.6_1_3:178977460-178977592:-|nuORF ENST00000392686.6_1_3:178977460-178977592:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 692.2201538085938 2 692.485363 1382.95617 NaN NaN NaN NaN NaN NaN NaN 78.793 1 78.793 78.293 79.293 0 0 0 0 1.008 1 38813 38813 0.30703 0 1 12963 7520 8200 8222 15049 15049 0.2800122787257351 KKKKKKRKMV 10 Unmodified _KKKKKKRKMV_ 0 0 0 ENSG00000088205|ENST00000263239|DDX18 ENSG00000088205|ENST00000263239|DDX18 ENSG00000088205|ENST00000263239|DDX18 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 651.4498901367188 2 651.449934 1300.88532 NaN NaN NaN NaN NaN NaN NaN 98.879 1 99.477 98.977 99.977 0.59748 0 0 0 1.0001 1 45648 45648 1.6526 1.302 1 12964 1008 8201 8223 15050 15050 0.24690811563391435 KKKKKKSKIL 10 Unmodified _KKKKKKSKIL_ 0 0 0 GGNBP2|p.K578Nfs*47|1|0.1|ENSG00000278311|chr17:36587088-36587094|AAGATAC/-|frameshift_variant;ENSG00000278311|ENST00000613102|GGNBP2 GGNBP2|p.K578Nfs*47|1|0.1|ENSG00000278311|chr17:36587088-36587094|AAGATAC/-|frameshift_variant GGNBP2|p.K578Nfs*47|1|0.1|ENSG00000278311|chr17:36587088-36587094|AAGATAC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 614.946533203125 2 614.945008 1227.87546 NaN NaN NaN NaN NaN NaN NaN 71.934 1 72.638 72.138 73.138 0.70386 0 0 0 1.002 1 34584 34584 0 0 1 12965 6359 8202 8224 15051 15051 0.27063946829707675 KKKKKKSKILK 11 Unmodified _KKKKKKSKILK_ 0 0 0 GGNBP2|p.K578Nfs*47|1|0.1|ENSG00000278311|chr17:36587088-36587094|AAGATAC/-|frameshift_variant;ENSG00000278311|ENST00000613102|GGNBP2 GGNBP2|p.K578Nfs*47|1|0.1|ENSG00000278311|chr17:36587088-36587094|AAGATAC/-|frameshift_variant GGNBP2|p.K578Nfs*47|1|0.1|ENSG00000278311|chr17:36587088-36587094|AAGATAC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 679.1895751953125 2 678.992489 1355.97043 NaN NaN NaN NaN NaN NaN NaN 82.823 1 82.823 82.323 83.323 0 0 0 0 1.0082 1 41579 41579 0 0 1 12966 6359 8203 8225 15052 15052 0.3066788030089356 KKKKKKTIKGK 11 Unmodified _KKKKKKTIKGK_ 0 0 0 ENST00000308713.9_3_16:29910378-29910510:-|nuORF ENST00000308713.9_3_16:29910378-29910510:-|nuORF ENST00000308713.9_3_16:29910378-29910510:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 657.9729614257812 2 657.969014 1313.92348 NaN NaN NaN NaN NaN NaN NaN 31.739 1 31.994 31.494 32.494 0.25452 0 0 0 1.0082 1 14452 14452 0 0 1 12967 6858 8204 8226 15053 15053 0.2790702074971705 KKKKKKTIKGK 11 Unmodified _KKKKKKTIKGK_ 0 0 0 ENST00000308713.9_3_16:29910378-29910510:-|nuORF ENST00000308713.9_3_16:29910378-29910510:-|nuORF ENST00000308713.9_3_16:29910378-29910510:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 657.9755859375 2 657.969014 1313.92348 NaN NaN NaN NaN NaN NaN NaN 31.449 1 32.066 31.566 32.566 0.61737 0 0 0 1.0082 1 14420 14420 0 0 1 12968 6858 8204 8226 15054 15054 0.2790702074971705 KKKKKKTLI 9 Unmodified _KKKKKKTLI_ 0 0 0 ENST00000297857.3_1_8:124261964-124262105:-|nuORF ENST00000297857.3_1_8:124261964-124262105:-|nuORF ENST00000297857.3_1_8:124261964-124262105:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.8291625976562 2 557.905351 1113.79615 NaN NaN NaN NaN NaN NaN NaN 13.62 1 13.62 13.12 14.12 0 0 0 0 0.91238 1 5968 5968 0.52476 0 1 12969 6776 8205 8227 15055 15055 0.2438029987556547 KKKKKKVKKI 10 Unmodified _KKKKKKVKKI_ 0 0 0 REV__RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant REV__RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 419.3170166015625 3 419.314859 1254.92275 NaN NaN NaN NaN NaN NaN NaN 11.066 1 11.066 10.566 11.566 0 0 0 0 1.002 1 4853 4853 0 0 1 + 12970 14095 8206 8228 15056 15056 0.3054822610070005 KKKKKKVKKI 10 Unmodified _KKKKKKVKKI_ 0 0 0 REV__RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant REV__RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 419.3165588378906 3 419.314859 1254.92275 NaN NaN NaN NaN NaN NaN NaN 9.2492 1 9.5604 9.0604 10.06 0.31115 0 0 0 1.002 1 4144 4144 0 0 1 + 12971 14095 8206 8228 15057 15057 0.3054822610070005 KKKKKKVKKI 10 Unmodified _KKKKKKVKKI_ 0 0 0 REV__RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant REV__RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 418.97650146484375 3 419.314859 1254.92275 NaN NaN NaN NaN NaN NaN NaN 17.084 1 17.285 16.785 17.785 0.20057 0 0 0 1.002 1 7555 7555 0 0 1 + 12972 14095 8206 8228 15058 15058 0.3054822610070005 KKKKKKVKKI 10 Unmodified _KKKKKKVKKI_ 0 0 0 REV__RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant REV__RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 419.548583984375 3 419.314859 1254.92275 NaN NaN NaN NaN NaN NaN NaN 27.895 1 28.158 27.658 28.658 0.26245 0 0 0 1.002 1 12685 12685 0 0 1 + 12973 14095 8206 8228 15059 15059 0.3054822610070005 KKKKKKVKKI 10 Unmodified _KKKKKKVKKI_ 0 0 0 REV__RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant REV__RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 628.4713745117188 2 628.46865 1254.92275 NaN NaN NaN NaN NaN NaN NaN 40.504 1 40.773 40.273 41.273 0.26904 0 0 0 1.002 1 18428 18428 0 0 1 + 12974 14095 8206 8228 15060 15060 0.3054822610070005 KKKKKLCLRVR 11 Unmodified _KKKKKLCLRVR_ 0 0 0 REV__AluSg7_dup5861|chr12:118139033-118139331:+|1.43288222391881|0.0433328598824706|5.05|541.0|4|1|sense REV__AluSg7_dup5861|chr12:118139033-118139331:+|1.43288222391881|0.0433328598824706|5.05|541.0|4|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 700.4736328125 2 700.473941 1398.93333 NaN NaN NaN NaN NaN NaN NaN 66.101 1 66.101 65.601 66.601 0 0 0 0 1.008 1 31554 31554 0.30703 0 1 + 12975 9949 8207 8229 15061 15061 0.24981885483430233 KKKKKLHLKMR 11 Unmodified _KKKKKLHLKMR_ 0 0 0 REV__nc|ENSG00000169871|Q9BRZ2-2|TRIM56 REV__nc|ENSG00000169871|Q9BRZ2-2|TRIM56 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 719.6654052734375 2 719.481766 1436.94898 NaN NaN NaN NaN NaN NaN NaN 70.489 1 71.193 70.693 71.693 0.70386 0 0 0 1.008 1 33780 33780 0.30703 0 1 + 12976 18037 8208 8230 15062 15062 0.24798172000510021 KKKKKLIVKV 10 Unmodified _KKKKKLIVKV_ 0 0 0 REV__NOS1AP|p.R207Gfs*32|1|0.46|ENSG00000198929|chr1:162355208-162355209|-/GG|frameshift_variant;REV__nc|ENSG00000198929|O75052-3|NOS1AP REV__NOS1AP|p.R207Gfs*32|1|0.46|ENSG00000198929|chr1:162355208-162355209|-/GG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 606.4493408203125 2 606.449926 1210.8853 NaN NaN NaN NaN NaN NaN NaN 96.613 1 97.215 96.715 97.715 0.6019 0 0 0 1.0015 1 44420 44420 0.40072 0 1 + 12977 14383;18105 8209 8231 15063 15063 0.28829134835086734 KKKKKLKIKEK 11 Unmodified _KKKKKLKIKEK_ 0 0 0 REV__ENST00000282964.5_1_21:21112145-21112373:+|nuORF REV__ENST00000282964.5_1_21:21112145-21112373:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 467.0014343261719 3 467.00094 1397.98099 NaN NaN NaN NaN NaN NaN NaN 83.512 1 83.759 83.259 84.259 0.24722 0 0 0 1.0082 1 38440 38440 0 0 1 + 12978 15095 8210 8232 15064 15064 0.29791862955312354 KKKKKLKKKHH 11 Unmodified _KKKKKLKKKHH_ 0 0 0 REV__AluSg7_dup2598|chr5:139545417-139545723:-|2.684175430780134|0.1210314063817212|4.47|526.0|4|1|sense REV__AluSg7_dup2598|chr5:139545417-139545723:-|2.684175430780134|0.1210314063817212|4.47|526.0|4|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 715.9962158203125 2 715.993355 1429.97216 NaN NaN NaN NaN NaN NaN NaN 59.457 1 60.206 59.706 60.706 0.74927 0 0 0 1.008 1 27319 27319 0.30703 0.30703 1 + 12979 9948 8211 8233 15065 15065 0.27436934109482536 KKKKKLLRPRV 11 Unmodified _KKKKKLLRPRV_ 0 0 0 REV__AluJr_dup30890|chr7:56010465-56010753:-|1.1163034777063767|0.4309280836060434|1.37|541.0|4|1|sense REV__AluJr_dup30890|chr7:56010465-56010753:-|1.1163034777063767|0.4309280836060434|1.37|541.0|4|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 697.494384765625 2 697.49573 1392.97691 NaN NaN NaN NaN NaN NaN NaN 12.426 1 12.688 12.188 13.188 0.26154 0 0 0 1.008 1 5374 5374 0.30703 0.30703 1 + 12980 9943 8212 8234 15066 15066 0.29613818252232704 KKKKKLQHRVR 11 Unmodified _KKKKKLQHRVR_ 0 0 0 REV__AluSz_dup100734|chr21:42594283-42594606:-|1.2254318376354785|0.0495699698250003|4.63|532.0|9|2|sense REV__AluSz_dup100734|chr21:42594283-42594606:-|1.2254318376354785|0.0495699698250003|4.63|532.0|9|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 724.9886474609375 2 724.986061 1447.95757 NaN NaN NaN NaN NaN NaN NaN 13.663 1 14.311 13.811 14.811 0.6482 0 0 0 1.008 1 6139 6139 0.30703 0.30703 1 + 12981 9954 8213 8235 15067 15067 0.2515086196133325 KKKKKLRLKAR 11 Unmodified _KKKKKLRLKAR_ 0 0 0 REV__AluSp_dup15995|chr5:178235991-178236344:-|2.46787698028414|0.1980803357196108|3.64|532.0|9|2|sense REV__AluSp_dup15995|chr5:178235991-178236344:-|2.46787698028414|0.1980803357196108|3.64|532.0|9|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.3379821777344 3 466.336545 1395.98781 NaN NaN NaN NaN NaN NaN NaN 78.646 1 79.11 78.61 79.61 0.4642 0 0 0 1.0082 1 38268 38268 0 0 1 + 12982 9950 8214 8236 15068 15068 0.30565220626522205 KKKKKQFS 8 Unmodified _KKKKKQFS_ 0 0 0 REV__ENSG00000011451|ENST00000673675|WIZ REV__ENSG00000011451|ENST00000673675|WIZ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 341.2233581542969 3 341.222076 1020.6444 NaN NaN NaN NaN NaN NaN NaN 97.098 1 97.7 97.2 98.2 0.6019 0 0 0 0.99035 1 44645 44645 0.40072 0.16487 1 + 12983 10237 8215 8237 15069 15069 0.13490318847857452 KKKKKRFA 8 Unmodified _KKKKKRFA_ 0 0 0 REV__nc|ENSG00000164465|Q8N8Z6-2|DCBLD1 REV__nc|ENSG00000164465|Q8N8Z6-2|DCBLD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.23956298828125 3 345.237949 1032.69202 NaN NaN NaN NaN NaN NaN NaN 36.926 1 37.184 36.684 37.684 0.25768 0 0 0 0.99035 1 16818 16818 0.45834 0 1 + 12984 13094 8216 8238 15070 15070 0.17698017838711166 KKKKKRGKKKH 11 Unmodified _KKKKKRGKKKH_ 0 0 0 ENSG00000055044|ENST00000264279|NOP58 ENSG00000055044|ENST00000264279|NOP58 ENSG00000055044|ENST00000264279|NOP58 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.3254699707031 3 465.324528 1392.95176 NaN NaN NaN NaN NaN NaN NaN 77.501 1 77.754 77.254 78.254 0.25335 0 0 0 1.008 1 35692 35692 0.08335 0.08335 1 12985 613 8217 8239 15071 15071 0.27099763449677994 KKKKKRRKKQK 11 Unmodified _KKKKKRRKKQK_ 0 0 0 REV__TIMELESS|p.E974Kfs*31|1|0.04|ENSG00000111602|chr12:56421083-56421084|-/ATTTCCTTAGGCTT|frameshift_variant REV__TIMELESS|p.E974Kfs*31|1|0.04|ENSG00000111602|chr12:56421083-56421084|-/ATTTCCTTAGGCTT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 742.525634765625 2 742.522811 1483.03107 NaN NaN NaN NaN NaN NaN NaN 77.884 1 77.884 77.384 78.384 0 0 0 0 1.0082 1 38219 38219 0.30703 0.30703 1 + 12986 11240 8218 8240 15072 15072 0.30887410403806825 KKKKKRRRKKT 11 Unmodified _KKKKKRRRKKT_ 0 0 0 ENST00000428417.5_1_1:15546837-15546969:+|nuORF ENST00000428417.5_1_1:15546837-15546969:+|nuORF ENST00000428417.5_1_1:15546837-15546969:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 743.02001953125 2 743.020435 1484.02632 NaN NaN NaN NaN NaN NaN NaN 69.007 1 69.007 68.507 69.507 0 0 0 0 1.008 1 33270 33270 0.30703 0.071187 1 12987 7824 8219 8241 15073 15073 0.30366526261036597 KKKKKRRRKKT 11 Unmodified _KKKKKRRRKKT_ 0 0 0 ENST00000428417.5_1_1:15546837-15546969:+|nuORF ENST00000428417.5_1_1:15546837-15546969:+|nuORF ENST00000428417.5_1_1:15546837-15546969:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 743.0198974609375 2 743.020435 1484.02632 NaN NaN NaN NaN NaN NaN NaN 72.805 1 72.805 72.305 73.305 0 0 0 0 1.008 1 35425 35425 0.30703 0.30703 1 12988 7824 8219 8241 15074 15074 0.30366526261036597 KKKKKRRRKKT 11 Unmodified _KKKKKRRRKKT_ 0 0 0 ENST00000428417.5_1_1:15546837-15546969:+|nuORF ENST00000428417.5_1_1:15546837-15546969:+|nuORF ENST00000428417.5_1_1:15546837-15546969:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 743.018798828125 2 743.020435 1484.02632 NaN NaN NaN NaN NaN NaN NaN 73.764 1 73.764 73.264 74.264 0 0 0 0 1.008 1 35989 35989 0.30703 0.30703 1 12989 7824 8219 8241 15075 15075 0.30366526261036597 KKKKKRRRRAR 11 Unmodified _KKKKKRRRRAR_ 0 0 0 ENST00000321870.2_1_8:65492938-65493277:+|nuORF ENST00000321870.2_1_8:65492938-65493277:+|nuORF ENST00000321870.2_1_8:65492938-65493277:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.3500061035156 3 504.349959 1510.02805 NaN NaN NaN NaN NaN NaN NaN 30.875 1 30.875 30.375 31.375 0 0 0 0 1.0082 1 13956 13956 0 0 1 12990 6935 8220 8242 15076 15076 0.2934358006966704 KKKKKSILAKL 11 Unmodified _KKKKKSILAKL_ 0 0 0 REV__ENST00000359660.9_1_5:107195069-107195318:-|nuORF REV__ENST00000359660.9_1_5:107195069-107195318:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 642.9598388671875 2 642.958115 1283.90168 NaN NaN NaN NaN NaN NaN NaN 55.739 1 55.739 55.239 56.239 0 0 0 0 1.0082 1 25635 25635 0 0 1 + 12991 15601 8221 8243 15077 15077 0.27108216001192886 KKKKKVKKIQL 11 Unmodified _KKKKKVKKIQL_ 0 0 0 REV__RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant REV__RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 684.9951782226562 2 684.992489 1367.97043 NaN NaN NaN NaN NaN NaN NaN 29.313 1 29.573 29.073 30.073 0.2602 0 0 0 1.0082 1 13339 13339 0 0 1 + 12992 14095 8222 8244 15078 15078 0.30115880300877507 KKKKLIKVARR 11 Unmodified _KKKKLIKVARR_ 0 0 0 REV__ENST00000586358.5_1_19:1207098-1220516:+|nuORF REV__ENST00000586358.5_1_19:1207098-1220516:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 684.4893188476562 2 684.487905 1366.96126 NaN NaN NaN NaN NaN NaN NaN 72.719 1 73.382 72.882 73.882 0.66398 0 0 0 1.008 1 33377 33377 0.30703 0.03801 1 + 12993 11460 8223 8245 15079 15079 0.29245531735205077 KKKKLKQKLL 10 Unmodified _KKKKLKQKLL_ 0 0 0 REV__ENST00000584588.5_1_17:38027782-38031519:+|nuORF REV__ENST00000584588.5_1_17:38027782-38031519:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 627.9510498046875 2 627.952833 1253.89111 NaN NaN NaN NaN NaN NaN NaN 83.662 1 84.325 83.825 84.825 0.66219 0 0 0 1.0015 1 38534 38534 0.40072 0.40072 1 + 12994 17530 8224 8246 15080 15080 0.2743223334675804 KKKKLLDMPSE 11 Unmodified _KKKKLLDMPSE_ 0 0 0 REV__ENSG00000151838|ENST00000537690|CCDC175 REV__ENSG00000151838|ENST00000537690|CCDC175 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 658.8834838867188 2 658.883955 1315.75336 NaN NaN NaN NaN NaN NaN NaN 64.472 1 65.129 64.629 65.629 0.65672 0 0 0 1.0072 1 29556 29556 1.3295 0.87119 1 + 12995 12634 8225 8247 15081 15081 0.10811116965123801 KKKKLLKKSA 10 Unmodified _KKKKLLKKSA_ 0 0 0 REV__nc|ENSG00000077097|Q02880-2|TOP2B REV__nc|ENSG00000077097|Q02880-2|TOP2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 586.4178466796875 2 586.416083 1170.81761 NaN NaN NaN NaN NaN NaN NaN 82.375 1 82.459 81.959 82.959 0.084106 0 0 0 1.0015 1 40683 40683 0.40072 0 1 + 12996 10550 8226 8248 15082 15082 0.23903684904280453 KKKKLRLR 8 Unmodified _KKKKLRLR_ 0 0 0 REV__AluY_dup49344|chr8:133361464-133361769:+|1.030317764595114|0.0147538292618742|6.13|519.0|3|1|sense REV__AluY_dup49344|chr8:133361464-133361769:+|1.030317764595114|0.0147538292618742|6.13|519.0|3|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 535.8034057617188 2 535.38766 1068.76077 NaN NaN NaN NaN NaN NaN NaN 74.893 1 75.556 75.056 76.056 0.6635 0 0 0 0.99035 1 36220 36220 0.69038 0 1 + 12997 9959 8227 8249 15083 15083 0.22913682138391778 KKKKLYLKKK 10 Unmodified _KKKKLYLKKK_ 0 0 0 REV__ENST00000237530.10_1_20:35869751-35869895:+|nuORF REV__ENST00000237530.10_1_20:35869751-35869895:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 652.95849609375 2 652.960658 1303.90676 NaN NaN NaN NaN NaN NaN NaN 77.073 1 77.736 77.236 78.236 0.66303 0 0 0 1.0016 1 35516 35516 0.35063 0 1 + 12998 14871 8228 8250 15084 15084 0.2669651986373083 KKKKLYLKKKG 11 Unmodified _KKKKLYLKKKG_ 0 0 0 REV__ENST00000237530.10_1_20:35869751-35869895:+|nuORF REV__ENST00000237530.10_1_20:35869751-35869895:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 681.6951293945312 2 681.471389 1360.92823 NaN NaN NaN NaN NaN NaN NaN 64.424 1 64.424 63.924 64.924 0 0 0 0 1.0073 1 30516 30516 1.1933 0.88631 1 + 12999 14871 8229 8251 15085 15085 0.2621990489244581 KKKKMKKL 8 Unmodified _KKKKMKKL_ 0 0 0 REV__ENST00000368346.7_1_1:155305486-155305633:-|nuORF REV__ENST00000368346.7_1_1:155305486-155305633:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.3602905273438 2 516.359722 1030.70489 NaN NaN NaN NaN NaN NaN NaN 74.797 1 74.797 74.297 75.297 0 0 0 0 0.99035 1 36599 36599 0.69038 0 1 + 13000 15682 8230 8252 15086 15086 0.19076712906576176 KKKKMKKLI 9 Unmodified _KKKKMKKLI_ 0 0 0 REV__ENST00000368346.7_1_1:155305486-155305633:-|nuORF REV__ENST00000368346.7_1_1:155305486-155305633:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 572.9031982421875 2 572.901754 1143.78896 NaN NaN NaN NaN NaN NaN NaN 19.2 1 19.2 18.7 19.7 0 0 0 0 0.91452 1 8545 8545 0 0 1 + 13001 15682 8231 8253 15087 15087 0.2228124400348861 KKKKMKKLI 9 Unmodified _KKKKMKKLI_ 0 0 0 REV__ENST00000368346.7_1_1:155305486-155305633:-|nuORF REV__ENST00000368346.7_1_1:155305486-155305633:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 572.9036865234375 2 572.901754 1143.78896 NaN NaN NaN NaN NaN NaN NaN 92.109 1 92.756 92.256 93.256 0.64714 0 0 0 0.91452 1 42381 42381 0 0 1 + 13002 15682 8231 8253 15088 15088 0.2228124400348861 KKKKMKKLIK 10 Unmodified _KKKKMKKLIK_ 0 0 0 REV__ENST00000368346.7_1_1:155305486-155305633:-|nuORF REV__ENST00000368346.7_1_1:155305486-155305633:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 637.0191650390625 2 636.949236 1271.88392 NaN NaN NaN NaN NaN NaN NaN 84.969 1 84.969 84.469 85.469 0 0 0 0 1.002 1 43147 43147 0 0 1 + 13003 15682 8232 8254 15089 15089 0.2588517747467449 KKKKMPKL 8 Unmodified _KKKKMPKL_ 0 0 0 nc|ENSG00000105825|P48307-2|TFPI2;ENSG00000105825|ENST00000222543|TFPI2 nc|ENSG00000105825|P48307-2|TFPI2 nc|ENSG00000105825|P48307-2|TFPI2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.8399353027344 2 500.838623 999.662692 NaN NaN NaN NaN NaN NaN NaN 107.39 1 108 107.5 108.5 0.6019 0 0 0 0.99035 1 49568 49568 0.69038 0 1 13004 1533 8233 8255 15090 15090 0.1628473749818795 KKKKNRDNRVA 11 Unmodified _KKKKNRDNRVA_ 0 0 0 REV__ENST00000548317.1_1_12:53607836-53609095:-|nuORF REV__ENST00000548317.1_1_12:53607836-53609095:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 678.570556640625 2 678.912759 1355.81096 NaN NaN NaN NaN NaN NaN NaN 73.751 1 74.438 73.938 74.938 0.68662 0 0 0 1.0047 1 35586 35586 4.5289 0.93237 1 + 13005 13564 8234 8256 15091 15091 0.1472914000557921 KKKKRKKKLLI 11 Unmodified _KKKKRKKKLLI_ 0 0 0 REV__ENST00000367142.4_1_1:205687318-205687402:-|nuORF REV__ENST00000367142.4_1_1:205687318-205687402:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 705.854248046875 2 706.021581 1410.02861 NaN NaN NaN NaN NaN NaN NaN 84.121 1 84.369 83.869 84.869 0.24757 0 0 0 1.0082 1 38719 38719 0 0 1 + 13006 15651 8235 8257 15092 15092 0.3399956194616607 KKKKRKWLRQE 11 Unmodified _KKKKRKWLRQE_ 0 0 0 ENSG00000187862|ENST00000368236|TTC24 ENSG00000187862|ENST00000368236|TTC24 ENSG00000187862|ENST00000368236|TTC24 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.93402099609375 3 509.991326 1526.95215 NaN NaN NaN NaN NaN NaN NaN 66.774 1 66.774 66.274 67.274 0 0 0 0 1.0082 1 31941 31941 0.08335 0 1 13007 5642 8236 8258 15093 15093 0.20975138378867086 KKKKRRRKKYK 11 Unmodified _KKKKRRRKKYK_ 0 0 0 ENSG00000101577|ENST00000677752|LPIN2 ENSG00000101577|ENST00000677752|LPIN2 ENSG00000101577|ENST00000677752|LPIN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 774.3223876953125 2 774.02826 1546.04197 NaN NaN NaN NaN NaN NaN NaN 82.6 1 82.645 82.145 83.145 0.045006 0 0 0 1.008 1 40806 40806 0.30703 0 1 13008 1301 8237 8259 15094 15094 0.29078812778084284 KKKKRTKILF 10 Unmodified _KKKKRTKILF_ 0 0 0 REV__ENSG00000198734|ENST00000367797|F5 REV__ENSG00000198734|ENST00000367797|F5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 645.4451904296875 2 645.442632 1288.87071 NaN NaN NaN NaN NaN NaN NaN 73.79 1 73.79 73.29 74.29 0 0 0 0 1.0015 1 36004 36004 0.40072 0 1 + 13009 14354 8238 8260 15095 15095 0.23783062686925405 KKKKSGGG 8 Unmodified _KKKKSGGG_ 0 0 0 REV__ENSG00000126461|ENST00000360565|SCAF1 REV__ENSG00000126461|ENST00000360565|SCAF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.2528991699219 2 395.250695 788.486836 3.801 0.0015023 2.2609 0.00089363 6.0619 0.002396 395.25174323441684 102.91 0.074738 103.23 103.18 103.26 0.31863 4 2 2 0 0 0 0.7471 1 47601 47601 0 0 1 885170 + 13010 11710 8239 8261 15096 15096 0.08413239308492848 KKKKSKGL 8 Unmodified _KKKKSKGL_ 0 0 0 ENSG00000185215|ENST00000560869|TNFAIP2;ENST00000559195.5_1_14:103592737-103596345:+|nuORF ENSG00000185215|ENST00000560869|TNFAIP2 ENSG00000185215|ENST00000560869|TNFAIP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 458.8846740722656 2 458.818744 915.622936 NaN NaN NaN NaN NaN NaN NaN 74.026 1 74.285 73.785 74.785 0.25876 0 0 0 0.99035 1 34020 34020 2.5775 0 1 13011 5495 8240 8262 15097 15097 0.1617493381913846 KKKKSTRKKRR 11 Unmodified _KKKKSTRKKRR_ 0 0 0 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 722.489013671875 2 722.488968 1442.96338 NaN NaN NaN NaN NaN NaN NaN 43.096 1 43.096 42.596 43.596 0 0 0 0 1.0082 1 19624 19624 0 0 1 13012 3166 8241 8263 15098 15098 0.25961960473000545 KKKKSTRKKRR 11 Unmodified _KKKKSTRKKRR_ 0 0 0 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 722.4896240234375 2 722.488968 1442.96338 NaN NaN NaN NaN NaN NaN NaN 58.422 1 58.422 57.922 58.922 0 0 0 0 1.0082 1 26962 26962 0 0 1 13013 3166 8241 8263 15099 15099 0.25961960473000545 KKKKSTRKKRR 11 Unmodified _KKKKSTRKKRR_ 0 0 0 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 722.1973266601562 2 722.488968 1442.96338 NaN NaN NaN NaN NaN NaN NaN 101.87 1 101.87 101.37 102.37 0 0 0 0 1.008 1 56270 56270 0.30703 0 1 13014 3166 8241 8263 15100 15100 0.25961960473000545 KKKKTKTKF 9 Unmodified _KKKKTKTKF_ 0 0 0 REV__ENST00000369151.7_1_10:120445350-120445566:-|nuORF REV__ENST00000369151.7_1_10:120445350-120445566:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.8778076171875 2 568.879333 1135.74411 NaN NaN NaN NaN NaN NaN NaN 80.89 1 81.55 81.05 82.05 0.65998 0 0 0 0.91206 1 37271 37271 0.6015 0 1 + 13015 15701 8242 8264 15101 15101 0.18167136461806876 KKKKVESKS 9 Unmodified _KKKKVESKS_ 0 0 0 nc|ENSG00000084093|Q13127-4|REST;ENSG00000084093|ENST00000309042|REST nc|ENSG00000084093|Q13127-4|REST nc|ENSG00000084093|Q13127-4|REST MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.3756713867188 2 531.337498 1060.66044 NaN NaN NaN NaN NaN NaN NaN 89.632 1 89.632 89.132 90.132 0 0 0 0 0.88916 1 46873 46873 6.2058 2.2614 1 13016 952 8243 8265 15102 15102 0.13253980294098255 KKKKVIVLILV 11 Unmodified _KKKKVIVLILV_ 0 0 0 REV__ENST00000393214.2_1_X:73596212-73596416:-|nuORF REV__ENST00000393214.2_1_X:73596212-73596416:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 640.8904418945312 2 640.973234 1279.93191 NaN NaN NaN NaN NaN NaN NaN 61.679 1 61.679 61.179 62.179 0 0 0 0 1.008 1 28797 28797 0.30703 0.30703 1 + 13017 15944 8244 8266 15103 15103 0.30314574666363114 KKKKYETKVHR 11 Unmodified _KKKKYETKVHR_ 0 0 0 ENSG00000143858|ENST00000367268|SYT2 ENSG00000143858|ENST00000367268|SYT2 ENSG00000143858|ENST00000367268|SYT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 722.9404907226562 2 722.940985 1443.86742 NaN NaN NaN NaN NaN NaN NaN 62.134 1 62.864 62.364 63.364 0.73077 0 0 0 1.0065 1 28921 28921 2.2828 1.0894 1 13018 3398 8245 8267 15104 15104 0.16323767842231973 KKKLFLKRKF 10 Unmodified _KKKLFLKRKF_ 0 0 0 ENST00000342992.10_3_2:179540701-179542581:-|nuORF ENST00000342992.10_3_2:179540701-179542581:-|nuORF ENST00000342992.10_3_2:179540701-179542581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 668.453125 2 668.453 1334.89145 NaN NaN NaN NaN NaN NaN NaN 30.028 1 30.645 30.145 31.145 0.61737 0 0 0 1.0018 1 13774 13774 0 0 1 13019 7089 8246 8268 15105 15105 0.23739653066581923 KKKLGRLIA 9 Unmodified _KKKLGRLIA_ 0 0 0 REV__ENST00000503078.5_1_5:176938794-176943460:-|nuORF REV__ENST00000503078.5_1_5:176938794-176943460:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1026.71875 1 1026.71461 1025.70733 3.7971 0.0038985 0.075436 7.7451E-05 3.8725 0.003976 1026.7148576554712 103.58 0.10709 104.18 104.14 104.25 0.59822 18 13 2 0 0 0 1.2459 1 47917 47917 0 0 1 335000 + 13020 13925 8247 8269 15106 15106 0.1955088463591892 KKKLGRLIA 9 Unmodified _KKKLGRLIA_ 0 0 0 REV__ENST00000503078.5_1_5:176938794-176943460:-|nuORF REV__ENST00000503078.5_1_5:176938794-176943460:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1026.721435546875 1 1026.71461 1025.70733 3.7971 0.0038986 1.5071 0.0015473 5.3042 0.0054459 1026.7158865041936 103.66 0.027924 104.26 104.25 104.28 0.59821 8 5 2 0 0 0 1.2459 1 47955 47955 0 0 1 162610 + 13021 13925 8247 8269 15107 15107 0.1955088463591892 KKKLHFLI 8 Unmodified _KKKLHFLI_ 0 0 0 L1ME1_dup1131|chr1:100740842-100741255:-|2.33099685030912|0.1091311827749231|4.42|540.0|17|3|sense L1ME1_dup1131|chr1:100740842-100741255:-|2.33099685030912|0.1091311827749231|4.42|540.0|17|3|sense L1ME1_dup1131|chr1:100740842-100741255:-|2.33099685030912|0.1091311827749231|4.42|540.0|17|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.845947265625 2 513.844762 1025.67497 NaN NaN NaN NaN NaN NaN NaN 80.397 1 80.565 80.065 81.065 0.16862 0 0 0 0.99035 1 39397 39397 0.69038 0 1 13022 9448 8248 8270 15108 15108 0.16316097232902393 KKKLIAFL 8 Unmodified _KKKLIAFL_ 0 0 0 REV__OR5H1|p.N286Rfs*16|1|0.04|ENSG00000231192|chr3:98133553-98133554|-/GATTGCGAAGAGAACAAATGTATAAG|frameshift_variant REV__OR5H1|p.N286Rfs*16|1|0.04|ENSG00000231192|chr3:98133553-98133554|-/GATTGCGAAGAGAACAAATGTATAAG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.8424072265625 2 480.833863 959.653173 NaN NaN NaN NaN NaN NaN NaN 61.873 1 61.873 61.373 62.373 0 0 0 0 0.99035 1 28916 28916 2.5775 0 1 + 13023 14579 8249 8271 15109 15109 0.17173292484335434 KKKLKKKRKLV 11 Unmodified _KKKLKKKRKLV_ 0 0 0 REV__ENST00000372600.8_1_9:131679364-131679535:+|nuORF REV__ENST00000372600.8_1_9:131679364-131679535:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 698.6258544921875 2 699.013756 1396.01296 NaN NaN NaN NaN NaN NaN NaN 99.073 1 99.671 99.171 100.17 0.59748 0 0 0 1.0082 1 45774 45774 0 0 1 + 13024 15756 8250 8272 15110 15110 0.3307927542909965 KKKLKKRRF 9 Unmodified _KKKLKKRRF_ 0 0 0 ENST00000502422.5_1_5:138651717-138665081:+|nuORF ENST00000502422.5_1_5:138651717-138665081:+|nuORF ENST00000502422.5_1_5:138651717-138665081:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.428955078125 2 616.427316 1230.84008 NaN NaN NaN NaN NaN NaN NaN 103.89 1 103.95 103.45 104.45 0.052994 0 0 0 0.91452 1 56288 56288 0 0 1 13025 8478 8251 8273 15111 15111 0.23389329092537992 KKKLKTAKKK 10 Unmodified _KKKLKTAKKK_ 0 0 0 ENSG00000137815|ENST00000389629|RTF1 ENSG00000137815|ENST00000389629|RTF1 ENSG00000137815|ENST00000389629|RTF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 600.9449462890625 2 600.929357 1199.84416 NaN NaN NaN NaN NaN NaN NaN 73.893 1 73.893 73.393 74.393 0 0 0 0 1.0015 1 36054 36054 0.40072 0 1 13026 3043 8252 8274 15112 15112 0.2522337379559758 KKKLLEPGNAA 11 Unmodified _KKKLLEPGNAA_ 0 0 0 REV__ADAM10|p.R210K|1|0.08|ENSG00000137845|chr15:58646161-58646161|C/T|missense_variant REV__ADAM10|p.R210K|1|0.08|ENSG00000137845|chr15:58646161-58646161|C/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.8583374023438 2 584.856055 1167.69756 NaN NaN NaN NaN NaN NaN NaN 10.85 1 11.158 10.658 11.658 0.30727 0 0 0 1.0082 1 4919 4919 0 0 1 + 13027 9922 8253 8275 15113 15113 0.12041651839876977 KKKLLEPGNAA 11 Unmodified _KKKLLEPGNAA_ 0 0 0 REV__ADAM10|p.R210K|1|0.08|ENSG00000137845|chr15:58646161-58646161|C/T|missense_variant REV__ADAM10|p.R210K|1|0.08|ENSG00000137845|chr15:58646161-58646161|C/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.8563842773438 2 584.856055 1167.69756 NaN NaN NaN NaN NaN NaN NaN 11.981 1 12.619 12.119 13.119 0.63746 0 0 0 1.0082 1 5357 5357 0 0 1 + 13028 9922 8253 8275 15114 15114 0.12041651839876977 KKKLLSKK 8 Unmodified _KKKLLSKK_ 0 0 0 REV__ENST00000508336.1_1_4:166469096-166469723:-|nuORF REV__ENST00000508336.1_1_4:166469096-166469723:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.8521423339844 2 486.850045 971.685536 NaN NaN NaN NaN NaN NaN NaN 76.968 1 77.592 77.092 78.092 0.62397 0 0 0 0.99035 1 37319 37319 0.69038 0 1 + 13029 16951 8254 8276 15115 15115 0.1985607988733591 KKKLNTYIGF 10 Unmodified _KKKLNTYIGF_ 0 0 0 ENSG00000090686|ENST00000308271|USP48;nc|ENSG00000090686|Q86UV5-8|USP48;nc|ENSG00000090686|Q86UV5-2|USP48;nc|ENSG00000090686|Q86UV5-3|USP48;nc|ENSG00000090686|Q86UV5-7|USP48;nc|ENSG00000090686|Q86UV5-4|USP48 ENSG00000090686|ENST00000308271|USP48 ENSG00000090686|ENST00000308271|USP48 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 606.3621826171875 2 606.360973 1210.70739 NaN NaN NaN NaN NaN NaN NaN 70.124 1 70.124 69.624 70.624 0 0 0 0 0.98664 1 33974 33974 7.609 0.50723 1 13030 1066 8255 8277 15116 15116 0.11046839845221257 KKKLPKKKKSK 11 Unmodified _KKKLPKKKKSK_ 0 0 0 REV__ENSG00000025796|ENST00000369002|SEC63 REV__ENSG00000025796|ENST00000369002|SEC63 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.5523071289062 2 670.976839 1339.93913 NaN NaN NaN NaN NaN NaN NaN 78.489 1 78.953 78.453 79.453 0.4642 0 0 0 1.008 1 38167 38167 0.30703 0 1 + 13031 10277 8256 8278 15117 15117 0.2827530726679015 KKKLRKLLKRL 11 Unmodified _KKKLRKLLKRL_ 0 0 0 nc|ENSG00000196562|Q8IWU5-2|SULF2;ENSG00000196562|ENST00000688720|SULF2 nc|ENSG00000196562|Q8IWU5-2|SULF2 nc|ENSG00000196562|Q8IWU5-2|SULF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 712.5211791992188 2 712.519205 1423.02386 NaN NaN NaN NaN NaN NaN NaN 77.017 1 77.641 77.141 78.141 0.62397 0 0 0 1.0082 1 37342 37342 0 0 1 13032 5756 8257 8279 15118 15118 0.32926677803402526 KKKLRKPRPLG 11 Unmodified _KKKLRKPRPLG_ 0 0 0 REV__nc|ENSG00000183530|Q5THK1-4|PRR14L REV__nc|ENSG00000183530|Q5THK1-4|PRR14L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 660.9498901367188 2 660.951156 1319.88776 NaN NaN NaN NaN NaN NaN NaN 62.354 1 62.354 61.854 62.854 0 0 0 0 1.0073 1 29215 29215 1.1933 0 1 + 13033 13937 8258 8280 15119 15119 0.24060983292724814 KKKLRKRRRD 10 Unmodified _KKKLRKRRRD_ 0 0 0 REV__nc|ENSG00000032219|P29374-3|ARID4A REV__nc|ENSG00000032219|P29374-3|ARID4A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 692.4611206054688 2 692.46021 1382.90587 NaN NaN NaN NaN NaN NaN NaN 66.817 1 67.522 67.022 68.022 0.7047 0 0 0 1.0015 1 31698 31698 0.40072 0.050084 1 + 13034 10292 8259 8281 15120 15120 0.2297311826744135 KKKLSQKKLVH 11 Unmodified _KKKLSQKKLVH_ 0 0 0 ENSG00000141446|ENST00000269214|ESCO1;nc|ENSG00000141446|Q5FWF5-2|ESCO1;ESCO1|p.C160Vfs*2|1|0.18|ENSG00000141446|chr18:21574367-21574368|-/T|frameshift_variant ENSG00000141446|ENST00000269214|ESCO1 ENSG00000141446|ENST00000269214|ESCO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 445.98773193359375 3 446.297756 1335.87144 NaN NaN NaN NaN NaN NaN NaN 60.404 1 61.153 60.653 61.653 0.74927 0 0 0 1.0051 1 27863 27863 4.1166 0.27072 1 13035 3253 8260 8282 15121 15121 0.21693857335981193 KKKLVKAFKKK 11 Unmodified _KKKLVKAFKKK_ 0 0 0 ENST00000488260.1_1_3:40351432-40353086:+|nuORF;ENSG00000173812|ENST00000469257|EIF1;ENSG00000114784|ENST00000232905|EIF1B ENST00000488260.1_1_3:40351432-40353086:+|nuORF ENST00000488260.1_1_3:40351432-40353086:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 673.4759521484375 2 673.473932 1344.93331 NaN NaN NaN NaN NaN NaN NaN 103.87 1 103.87 103.37 104.37 0 0 0 0 1.0082 1 57211 57211 0 0 1 13036 1922 8261 8283 15122 15122 0.27464208755100117 KKKLVKKQKR 10 Unmodified _KKKLVKKQKR_ 0 0 0 REV__ENST00000511521.1_1_4:78792999-78804460:+|nuORF REV__ENST00000511521.1_1_4:78792999-78804460:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 642.455078125 2 642.453531 1282.89251 NaN NaN NaN NaN NaN NaN NaN 92.215 1 92.215 91.715 92.715 0 0 0 0 1.0015 1 48940 48940 0.40072 0.40072 1 + 13037 16977 8262 8284 15123 15123 0.2623786743549772 KKKMKMRRRRK 11 Unmodified _KKKMKMRRRRK_ 0 0 0 ENST00000559471.5_1_15:49284721-49284799:-|nuORF ENST00000559471.5_1_15:49284721-49284799:-|nuORF ENST00000559471.5_1_15:49284721-49284799:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 773.489501953125 2 773.492673 1544.97079 NaN NaN NaN NaN NaN NaN NaN 82.744 1 82.744 82.244 83.244 0 0 0 0 1.008 1 41519 41519 0.30703 0.03801 1 13038 8965 8263 8285 15124 15124 0.2201065347740041 KKKPKERKQKR 11 Unmodified _KKKPKERKQKR_ 0 0 0 ENSG00000146247|ENST00000275034|PHIP ENSG00000146247|ENST00000275034|PHIP ENSG00000146247|ENST00000275034|PHIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 727.4762573242188 2 727.475526 1452.9365 NaN NaN NaN NaN NaN NaN NaN 65.08 1 65.08 64.58 65.58 0 0 0 0 1.008 1 30939 30939 0.30703 0 1 13039 3508 8264 8286 15125 15125 0.22814851861812713 KKKPKILRLL 10 Unmodified _KKKPKILRLL_ 0 0 0 REV__ENST00000244043.4_1_20:48123609-48123702:-|nuORF REV__ENST00000244043.4_1_20:48123609-48123702:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 618.9474487304688 2 618.94755 1235.88055 NaN NaN NaN NaN NaN NaN NaN 64.768 1 64.768 64.268 65.268 0 0 0 0 1.0015 1 30752 30752 0.40072 0.050084 1 + 13040 14886 8265 8287 15126 15126 0.2720425069230714 KKKPRRGRKPK 11 Unmodified _KKKPRRGRKPK_ 0 0 0 nc|ENSG00000141956|P57071|PRDM15;nc|ENSG00000141956|P57071-6|PRDM15;nc|ENSG00000141956|P57071-5|PRDM15;ENSG00000141956|ENST00000398548|PRDM15;nc|ENSG00000141956|P57071-3|PRDM15;nc|ENSG00000141956|P57071-2|PRDM15 nc|ENSG00000141956|P57071|PRDM15 nc|ENSG00000141956|P57071|PRDM15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 460.311279296875 3 460.312511 1377.9157 NaN NaN NaN NaN NaN NaN NaN 66.875 1 66.875 66.375 67.375 0 0 0 0 1.0074 1 31994 31994 1.1098 0.74308 1 13041 9673 8266 8288 15127 15127 0.2418630627280436 KKKPRRGRKPK 11 Unmodified _KKKPRRGRKPK_ 0 0 0 nc|ENSG00000141956|P57071|PRDM15;nc|ENSG00000141956|P57071-6|PRDM15;nc|ENSG00000141956|P57071-5|PRDM15;ENSG00000141956|ENST00000398548|PRDM15;nc|ENSG00000141956|P57071-3|PRDM15;nc|ENSG00000141956|P57071-2|PRDM15 nc|ENSG00000141956|P57071|PRDM15 nc|ENSG00000141956|P57071|PRDM15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.73712158203125 4 345.486203 1377.9157 2.4824 0.00085762 -1.9869 -0.00068645 0.49546 0.00017118 345.4853151164533 34.596 0.29178 34.85 34.672 34.963 0.25389 24 11 3 0 0 0 0.91345 1 15791 15791 0.45452 0.37117 1 922710 13042 9673 8266 8288 15128 15128 0.2418630627280436 KKKPRRGRKPK 11 Unmodified _KKKPRRGRKPK_ 0 0 0 nc|ENSG00000141956|P57071|PRDM15;nc|ENSG00000141956|P57071-6|PRDM15;nc|ENSG00000141956|P57071-5|PRDM15;ENSG00000141956|ENST00000398548|PRDM15;nc|ENSG00000141956|P57071-3|PRDM15;nc|ENSG00000141956|P57071-2|PRDM15 nc|ENSG00000141956|P57071|PRDM15 nc|ENSG00000141956|P57071|PRDM15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 460.3122253417969 3 460.312511 1377.9157 NaN NaN NaN NaN NaN NaN NaN 66.875 1 67.126 66.626 67.626 0.2501 0 0 0 1.0079 1 30635 30635 0.45452 0.45452 1 13043 9673 8266 8288 15129 15129 0.2418630627280436 KKKPRRGRKPK 11 Unmodified _KKKPRRGRKPK_ 0 0 0 nc|ENSG00000141956|P57071|PRDM15;nc|ENSG00000141956|P57071-6|PRDM15;nc|ENSG00000141956|P57071-5|PRDM15;ENSG00000141956|ENST00000398548|PRDM15;nc|ENSG00000141956|P57071-3|PRDM15;nc|ENSG00000141956|P57071-2|PRDM15 nc|ENSG00000141956|P57071|PRDM15 nc|ENSG00000141956|P57071|PRDM15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 460.3138732910156 3 460.312511 1377.9157 NaN NaN NaN NaN NaN NaN NaN 67.261 1 67.511 67.011 68.011 0.2501 0 0 0 1.0079 1 30812 30812 0.45452 0.37117 1 13044 9673 8266 8288 15130 15130 0.2418630627280436 KKKPRRGRKPK 11 Unmodified _KKKPRRGRKPK_ 0 0 0 nc|ENSG00000141956|P57071|PRDM15;nc|ENSG00000141956|P57071-6|PRDM15;nc|ENSG00000141956|P57071-5|PRDM15;ENSG00000141956|ENST00000398548|PRDM15;nc|ENSG00000141956|P57071-3|PRDM15;nc|ENSG00000141956|P57071-2|PRDM15 nc|ENSG00000141956|P57071|PRDM15 nc|ENSG00000141956|P57071|PRDM15 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.2394104003906 4 345.486203 1377.9157 2.473 0.0008544 -2.315 -0.0007998 0.15804 5.4601E-05 345.4854520171143 35.523 0.25854 36.149 35.996 36.255 0.62631 11 7 2 0 0 0 0.13295 1 16276 16276 0.08335 0.08335 1 255800 13045 9673 8266 8288 15131 15131 0.2418630627280436 KKKPRRGRKPK 11 Unmodified _KKKPRRGRKPK_ 0 0 0 nc|ENSG00000141956|P57071|PRDM15;nc|ENSG00000141956|P57071-6|PRDM15;nc|ENSG00000141956|P57071-5|PRDM15;ENSG00000141956|ENST00000398548|PRDM15;nc|ENSG00000141956|P57071-3|PRDM15;nc|ENSG00000141956|P57071-2|PRDM15 nc|ENSG00000141956|P57071|PRDM15 nc|ENSG00000141956|P57071|PRDM15 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 345.486203 1377.9157 2.2028 0.00076102 -2.1543 -0.00074427 0.048475 1.6747E-05 345.48540249894086 34.928 0.14889 34.928 34.796 34.944 0 0.01965 -2.7605E-05 NaN 0.45452 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 1737400 13046 9673 8266 8288 0.2418630627280436 KKKPRRGRKPK 11 Unmodified _KKKPRRGRKPK_ 0 0 0 nc|ENSG00000141956|P57071|PRDM15;nc|ENSG00000141956|P57071-6|PRDM15;nc|ENSG00000141956|P57071-5|PRDM15;ENSG00000141956|ENST00000398548|PRDM15;nc|ENSG00000141956|P57071-3|PRDM15;nc|ENSG00000141956|P57071-2|PRDM15 nc|ENSG00000141956|P57071|PRDM15 nc|ENSG00000141956|P57071|PRDM15 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 345.486203 1377.9157 2.1281 0.00073524 -2.2653 -0.00078262 -0.13713 -4.7378E-05 345.48538713265117 34.159 0.27622 34.948 34.831 35.108 0.78921 0.039197 -0.00018099 NaN 0.45452 24 15 2 NaN NaN NaN NaN 0 NaN NaN 0 559950 13047 9673 8266 8288 0.2418630627280436 KKKPRRGRKPK 11 Unmodified _KKKPRRGRKPK_ 0 0 0 nc|ENSG00000141956|P57071|PRDM15;nc|ENSG00000141956|P57071-6|PRDM15;nc|ENSG00000141956|P57071-5|PRDM15;ENSG00000141956|ENST00000398548|PRDM15;nc|ENSG00000141956|P57071-3|PRDM15;nc|ENSG00000141956|P57071-2|PRDM15 nc|ENSG00000141956|P57071|PRDM15 nc|ENSG00000141956|P57071|PRDM15 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 345.486203 1377.9157 2.4771 0.0008558 -2.204 -0.00076147 0.27304 9.433E-05 345.48537501096627 36.209 0.40679 36.467 36.243 36.65 0.25768 0.15868 3.0878E-05 NaN 0.40827 26 18 2 NaN NaN NaN NaN 0 NaN NaN 0 298850 13048 9673 8266 8288 0.2418630627280436 KKKQILKKII 10 Unmodified _KKKQILKKII_ 0 0 0 REV__nc|ENSG00000111879|Q8NB25-2|FAM184A REV__nc|ENSG00000111879|Q8NB25-2|FAM184A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 620.4486083984375 2 620.447383 1238.88021 NaN NaN NaN NaN NaN NaN NaN 8.8695 1 9.4961 8.9961 9.9961 0.62663 0 0 0 1.002 1 3996 3996 0 0 1 + 13049 17896 8267 8289 15132 15132 0.2703283097248459 KKKQKKKRTRR 11 Unmodified _KKKQKKKRTRR_ 0 0 0 CHD2|p.E1396Rfs*10|1|0.24|ENSG00000173575|chr15:93002225-93002225|G/-|frameshift_variant CHD2|p.E1396Rfs*10|1|0.24|ENSG00000173575|chr15:93002225-93002225|G/-|frameshift_variant CHD2|p.E1396Rfs*10|1|0.24|ENSG00000173575|chr15:93002225-93002225|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 743.31494140625 2 743.002242 1483.98993 NaN NaN NaN NaN NaN NaN NaN 94.531 1 94.617 94.117 95.117 0.086212 0 0 0 1.0082 1 49757 49757 0 0 1 13050 116 8268 8290 15133 15133 0.2672964936432436 KKKQPKSVAR 10 Unmodified _KKKQPKSVAR_ 0 0 0 REV__ENST00000549780.5_2_18:3448551-3456376:+|nuORF REV__ENST00000549780.5_2_18:3448551-3456376:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.3758544921875 2 585.377489 1168.74043 NaN NaN NaN NaN NaN NaN NaN 21.506 1 21.506 21.006 22.006 0 0 0 0 1.0003 1 9630 9630 1.4819 0.95714 1 + 13051 17274 8269 8291 15134 15134 0.1628046668793104 KKKRDKKKKKK 11 Unmodified _KKKRDKKKKKK_ 0 0 0 REV__ENSG00000138433|ENST00000342016|CIR1 REV__ENSG00000138433|ENST00000342016|CIR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 722.0013427734375 2 722.003919 1441.99329 NaN NaN NaN NaN NaN NaN NaN 72.22 1 72.883 72.383 73.383 0.66324 0 0 0 1.0082 1 33116 33116 0 0 1 + 13052 12167 8270 8292 15135 15135 0.28996899418325484 KKKRFLFWYTL 11 Unmodified _KKKRFLFWYTL_ 0 0 0 REV__ENST00000471238.5_1_7:75583310-75608939:+|nuORF REV__ENST00000471238.5_1_7:75583310-75608939:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.6357421875 3 510.63789 1528.89184 NaN NaN NaN NaN NaN NaN NaN 75.217 1 75.217 74.717 75.717 0 0 0 0 1.0079 1 36854 36854 0.45452 0.35968 1 + 13053 11751 8271 8293 15136 15136 0.14855027995827186 KKKRISKQCKL 11 Unmodified _KKKRISKQCKL_ 0 0 0 ENST00000488636.5_1_2:201399822-201407388:+|nuORF;ENST00000469840.1_1_2:201399891-201407862:+|nuORF;nc|ENSG00000163535|Q562F6-3|SGO2;nc|ENSG00000163535|Q562F6-2|SGO2;ENSG00000163535|ENST00000357799|SGO2 ENST00000488636.5_1_2:201399822-201407388:+|nuORF ENST00000488636.5_1_2:201399822-201407388:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 680.5318603515625 2 680.434481 1358.85441 NaN NaN NaN NaN NaN NaN NaN 98.313 1 98.613 98.113 99.113 0.29987 0 0 0 1.0061 1 45265 45265 2.7352 0 1 13054 4221 8272 8294 15137 15137 0.189336134585119 KKKRKKERKKV 11 Unmodified _KKKRKKERKKV_ 0 0 0 ENST00000535284.1_1_16:57095655-57095901:+|nuORF ENST00000535284.1_1_16:57095655-57095901:+|nuORF ENST00000535284.1_1_16:57095655-57095901:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.001708984375 3 486.003455 1454.98853 NaN NaN NaN NaN NaN NaN NaN 75.217 1 75.882 75.382 76.382 0.6644 0 0 0 1.008 1 34646 34646 0.08335 0.08335 1 13055 8762 8273 8295 15138 15138 0.2792401527556194 KKKRKKKKKI 10 Unmodified _KKKRKKKKKI_ 0 0 0 ENST00000359543.7_1_16:10626568-10626661:-|nuORF ENST00000359543.7_1_16:10626568-10626661:-|nuORF ENST00000359543.7_1_16:10626568-10626661:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 657.0357055664062 2 656.984998 1311.95544 NaN NaN NaN NaN NaN NaN NaN 105.75 1 106.35 105.85 106.85 0.59969 0 0 0 1.0015 1 48839 48839 0.40072 0 1 13056 7204 8274 8296 15139 15139 0.31194433223527085 KKKRKKKLRSA 11 Unmodified _KKKRKKKLRSA_ 0 0 0 REV__ENSG00000182670|ENST00000418766|TTC3 REV__ENSG00000182670|ENST00000418766|TTC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.8847045898438 2 685.975162 1369.93577 NaN NaN NaN NaN NaN NaN NaN 101.4 1 101.4 100.9 101.9 0 0 0 0 1.0082 1 56020 56020 0 0 1 + 13057 13902 8275 8297 15140 15140 0.2656005721278234 KKKRKKKR 8 Unmodified _KKKRKKKR_ 0 0 0 nc|ENSG00000170703|Q8N841-3|TTLL6;ENSG00000170703|ENST00000393382|TTLL6;nc|ENSG00000170703|Q8N841-4|TTLL6 nc|ENSG00000170703|Q8N841-3|TTLL6 nc|ENSG00000170703|Q8N841-3|TTLL6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.39697265625 2 550.398559 1098.78256 NaN NaN NaN NaN NaN NaN NaN 69.403 1 70.106 69.606 70.606 0.70302 0 0 0 0.99035 1 33213 33213 0.69038 0 1 13058 4766 8276 8298 15141 15141 0.23712486886961415 KKKRKKRRRKR 11 Unmodified _KKKRKKRRRKR_ 0 0 0 REV__ENST00000216190.12_1_22:36906978-36907630:-|nuORF REV__ENST00000216190.12_1_22:36906978-36907630:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.2931518554688 3 523.369242 1567.0859 NaN NaN NaN NaN NaN NaN NaN 63.812 1 64.528 64.028 65.028 0.71521 0 0 0 1.008 1 29939 29939 0.08335 0.010087 1 + 13059 14806 8277 8299 15142 15142 0.32503841995071525 KKKRKKWKVLK 11 Unmodified _KKKRKKWKVLK_ 0 0 0 ENST00000471830.1_1_20:3888626-3888701:+|nuORF ENST00000471830.1_1_20:3888626-3888701:+|nuORF ENST00000471830.1_1_20:3888626-3888701:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 735.4630737304688 2 735.51138 1469.00821 NaN NaN NaN NaN NaN NaN NaN 87.644 1 87.644 87.144 88.144 0 0 0 0 1.008 1 45254 45254 0.30703 0 1 13060 8184 8278 8300 15143 15143 0.29246391286346807 KKKRKKWKVLK 11 Unmodified _KKKRKKWKVLK_ 0 0 0 ENST00000471830.1_1_20:3888626-3888701:+|nuORF ENST00000471830.1_1_20:3888626-3888701:+|nuORF ENST00000471830.1_1_20:3888626-3888701:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 735.5130615234375 2 735.51138 1469.00821 NaN NaN NaN NaN NaN NaN NaN 12.437 1 12.699 12.199 13.199 0.26154 0 0 0 1.0082 1 5379 5379 0 0 1 13061 8184 8278 8300 15144 15144 0.29246391286346807 KKKRKLEKRI 10 Unmodified _KKKRKLEKRI_ 0 0 0 REV__nc|ENSG00000291135|Q92637-3|FCGR1BP REV__nc|ENSG00000291135|Q92637-3|FCGR1BP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 442.9749755859375 3 442.973384 1325.89832 NaN NaN NaN NaN NaN NaN NaN 65.245 1 65.954 65.454 66.454 0.70891 0 0 0 1.0019 1 30833 30833 0.13989 0 1 + 13062 12587 8279 8301 15145 15145 0.24840965947169025 KKKRKRKVF 9 Unmodified _KKKRKRKVF_ 0 0 0 REV__ENST00000216185.6_1_22:36863238-36863490:-|nuORF REV__ENST00000216185.6_1_22:36863238-36863490:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 609.4186401367188 2 609.419491 1216.82443 NaN NaN NaN NaN NaN NaN NaN 74.366 1 74.625 74.125 75.125 0.25831 0 0 0 0.91238 1 34200 34200 0.52476 0.066424 1 + 13063 14805 8280 8302 15146 15146 0.22469042575494313 KKKRKRYFLN 10 Unmodified _KKKRKRYFLN_ 0 0 0 ENST00000495198.6_1_5:64023893-64064425:-|nuORF ENST00000495198.6_1_5:64023893-64064425:-|nuORF ENST00000495198.6_1_5:64023893-64064425:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 690.9335327148438 2 690.932963 1379.85137 NaN NaN NaN NaN NaN NaN NaN 28.78 1 28.78 28.28 29.28 0 0 0 0 1.0015 1 12982 12982 0.40072 0.093686 1 13064 8429 8281 8303 15147 15147 0.1766410639602327 KKKRQYVLLQ 10 Unmodified _KKKRQYVLLQ_ 0 0 0 REV__ENST00000553852.1_1_14:35515838-35522488:+|nuORF REV__ENST00000553852.1_1_14:35515838-35522488:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 652.413818359375 2 652.414072 1302.81359 NaN NaN NaN NaN NaN NaN NaN 79.385 1 80.046 79.546 80.546 0.66082 0 0 0 1.0003 1 36578 36578 1.4819 0.15237 1 + 13065 17304 8282 8304 15148 15148 0.17429595410567345 KKKRRKKKA 9 Unmodified _KKKRRKKKA_ 0 0 0 REV__nc|ENSG00000111142|P50579-3|METAP2 REV__nc|ENSG00000111142|P50579-3|METAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 585.9176025390625 2 585.917116 1169.81968 NaN NaN NaN NaN NaN NaN NaN 105.17 1 105.49 104.99 105.99 0.31782 0 0 0 0.91452 1 48548 48548 0 0 1 + 13066 17893 8283 8305 15149 15149 0.24156158432742814 KKKSKDKKRKR 11 Unmodified _KKKSKDKKRKR_ 0 0 0 ENSG00000109536|ENST00000226798|FRG1;ENST00000514482.1_1_4:190862182-190882061:+|nuORF ENSG00000109536|ENST00000226798|FRG1 ENSG00000109536|ENST00000226798|FRG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 715.4771118164062 2 715.475526 1428.9365 NaN NaN NaN NaN NaN NaN NaN 61.155 1 61.155 60.655 61.655 0 0 0 0 1.0074 1 28501 28501 1.0715 0.76443 1 13067 1679 8284 8306 15150 15150 0.23918851861822077 KKKSKISASRK 11 Unmodified _KKKSKISASRK_ 0 0 0 ENST00000587176.5_1_19:55666069-55669122:-|nuORF;ENSG00000129991|ENST00000344887|TNNI3 ENST00000587176.5_1_19:55666069-55669122:-|nuORF ENST00000587176.5_1_19:55666069-55669122:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 630.9110107421875 2 630.909153 1259.80375 NaN NaN NaN NaN NaN NaN NaN 53.573 1 54.377 53.877 54.877 0.80351 0 0 0 1.0074 1 24443 24443 1.0715 0.61312 1 13068 2568 8285 8307 15151 15151 0.18424407405154852 KKKSKKGGLA 10 Unmodified _KKKSKKGGLA_ 0 0 0 REV__ENSG00000137161|ENST00000372836|CNPY3 REV__ENSG00000137161|ENST00000372836|CNPY3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.8505249023438 2 522.848033 1043.68151 NaN NaN NaN NaN NaN NaN NaN 103.08 1 103.4 102.9 103.9 0.31863 0 0 0 1.002 1 47668 47668 0 0 1 + 13069 12101 8286 8308 15152 15152 0.16141990393634842 KKKTLLHLQLL 11 Unmodified _KKKTLLHLQLL_ 0 0 0 ENSG00000108950|ENST00000592554|FAM20A;ENST00000226094.9_1_17:66533620-66538255:-|nuORF ENSG00000108950|ENST00000592554|FAM20A ENSG00000108950|ENST00000592554|FAM20A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 445.39141845703125 3 445.634257 1333.88094 2.155 0.00096033 -2.7923 -0.0012444 -0.63735 -0.00028402 445.63373620989665 65.423 0.026855 66.132 66.117 66.143 0.70891 4 2 2 0 0 0 0.91104 1 30941 30941 1.2148 1.1315 1 1353800 13070 1660 8287 8309 15153 15153 0.2273562562152165 KKKTLLHLQLL 11 Unmodified _KKKTLLHLQLL_ 0 0 0 ENSG00000108950|ENST00000592554|FAM20A;ENST00000226094.9_1_17:66533620-66538255:-|nuORF ENSG00000108950|ENST00000592554|FAM20A ENSG00000108950|ENST00000592554|FAM20A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 667.9478149414062 2 667.947747 1333.88094 NaN NaN NaN NaN NaN NaN NaN 64.941 1 65.65 65.15 66.15 0.70891 0 0 0 1.0079 1 30624 30624 0.30703 0 1 13071 1660 8287 8309 15154 15154 0.2273562562152165 KKKTRKLKIAL 11 Unmodified _KKKTRKLKIAL_ 0 0 0 nc|ENSG00000139151|Q86YW0-2|PLCZ1;nc|ENSG00000139151|Q86YW0-3|PLCZ1;ENSG00000139151|ENST00000266505|PLCZ1 nc|ENSG00000139151|Q86YW0-2|PLCZ1 nc|ENSG00000139151|Q86YW0-2|PLCZ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.9320678710938 2 663.969014 1325.92348 NaN NaN NaN NaN NaN NaN NaN 86.097 1 86.768 86.268 87.268 0.67061 0 0 0 1.0082 1 39648 39648 0 0 1 13072 3130 8288 8310 15155 15155 0.2735502074974647 KKKVKKIKYER 11 Unmodified _KKKVKKIKYER_ 0 0 0 REV__nc|ENSG00000014123|O94874-3|UFL1 REV__nc|ENSG00000014123|O94874-3|UFL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 724.4779663085938 2 724.477203 1446.93985 NaN NaN NaN NaN NaN NaN NaN 73.548 1 73.807 73.307 74.307 0.25876 0 0 0 1.0082 1 33785 33785 0 0 1 + 13073 10252 8289 8311 15156 15156 0.2342610191581116 KKKVKMRRKRR 11 Unmodified _KKKVKMRRKRR_ 0 0 0 nc|ENSG00000089094|Q8NHM5-4|KDM2B;nc|ENSG00000089094|Q8NHM5-2|KDM2B;nc|ENSG00000089094|Q8NHM5-3|KDM2B;ENSG00000089094|ENST00000377071|KDM2B;ENST00000538503.5_1_12:121878388-121880774:-|nuORF nc|ENSG00000089094|Q8NHM5-4|KDM2B nc|ENSG00000089094|Q8NHM5-4|KDM2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 757.509765625 2 757.506638 1512.99872 NaN NaN NaN NaN NaN NaN NaN 74.058 1 74.745 74.245 75.245 0.68662 0 0 0 1.008 1 35772 35772 0.30703 0.30703 1 13074 1030 8290 8312 15157 15157 0.26274299729152517 KKKVLKMIT 9 Unmodified _KKKVLKMIT_ 0 0 0 ENSG00000147145|ENST00000614823|LPAR4 ENSG00000147145|ENST00000614823|LPAR4 ENSG00000147145|ENST00000614823|LPAR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.8658447265625 2 544.864837 1087.71512 NaN NaN NaN NaN NaN NaN NaN 60.79 1 61.53 61.03 62.03 0.7396 0 0 0 0.91238 1 28108 28108 0.52476 0 1 13075 3550 8291 8313 15158 15158 0.1747727584115637 KKKVTTKKKK 10 Unmodified _KKKVTTKKKK_ 0 0 0 REV__ENSG00000143858|ENST00000367268|SYT2 REV__ENSG00000143858|ENST00000367268|SYT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 609.0655517578125 2 608.926815 1215.83908 NaN NaN NaN NaN NaN NaN NaN 60.89 1 60.89 60.39 61.39 0 0 0 0 1.0016 1 28357 28357 0.35063 0 1 + 13076 12381 8292 8314 15159 15159 0.23979069932966013 KKKWDLSELPK 11 Unmodified _KKKWDLSELPK_ 0 0 0 ENST00000432525.5_1_22:38886367-38903636:-|nuORF;ENST00000216019.11_1_22:38888049-38902242:-|nuORF;nc|ENSG00000100201|Q92841-1|DDX17;nc|ENSG00000100201|Q92841-3|DDX17;nc|ENSG00000100201|Q92841-2|DDX17;ENSG00000100201|ENST00000403230|DDX17 ENST00000432525.5_1_22:38886367-38903636:-|nuORF ENST00000432525.5_1_22:38886367-38903636:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 686.4009399414062 2 686.403369 1370.79219 NaN NaN NaN NaN NaN NaN NaN 46.278 1 46.543 46.043 47.043 0.26561 0 0 0 1.0076 1 21153 21153 0.77653 0.31819 1 13077 1186 8293 8315 15160 15160 0.12162165591189478 KKKYRRRRHL 10 Unmodified _KKKYRRRRHL_ 0 0 0 REV__ENSG00000184564|ENST00000647374|SLITRK6 REV__ENSG00000184564|ENST00000647374|SLITRK6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.2489013671875 3 480.976011 1439.9062 NaN NaN NaN NaN NaN NaN NaN 73.034 1 73.698 73.198 74.198 0.66398 0 0 0 1.0019 1 33544 33544 0.13989 0 1 + 13078 13979 8294 8316 15161 15161 0.20384537987297335 KKLCNKCLLA 10 Unmodified _KKLCNKCLLA_ 0 0 0 REV__nc|ENSG00000154258|Q8IUA7-2|ABCA9 REV__nc|ENSG00000154258|Q8IUA7-2|ABCA9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3316650390625 2 567.330304 1132.64606 3.6436 0.0020671 -0.46377 -0.00026311 3.1798 0.001804 567.3299142838137 85.817 1.6519 86.066 85.213 86.865 0.24857 189 85 3 0 0 0 0.93628 1 39575 39575 1.6526 0.17072 1 2716600 + 13079 12702 8295 8317 15162 15162 0.08503868549951221 KKLDKKRLKKK 11 Unmodified _KKLDKKRLKKK_ 0 0 0 ENSG00000114124|ENST00000682958|GRK7 ENSG00000114124|ENST00000682958|GRK7 ENSG00000114124|ENST00000682958|GRK7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 706.6138305664062 2 706.99302 1411.97149 NaN NaN NaN NaN NaN NaN NaN 47.886 1 48.149 47.649 48.649 0.26363 0 0 0 1.0082 1 21889 21889 0 0 1 13080 1889 8296 8318 15163 15163 0.28198094669755847 KKLFIRALL 9 Unmodified _KKLFIRALL_ 0 0 0 REV__ENST00000308677.8_1_19:14203227-14203410:-|nuORF REV__ENST00000308677.8_1_19:14203227-14203410:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 551.3796997070312 2 551.378969 1100.74339 NaN NaN NaN NaN NaN NaN NaN 74.024 1 74.283 73.783 74.783 0.25876 0 0 0 0.91238 1 34019 34019 0.52476 0 1 + 13081 15246 8297 8319 15164 15164 0.19704341812735038 KKLFPLLKII 10 Unmodified _KKLFPLLKII_ 0 0 0 REV__nc|ENSG00000105792|A5D8W1-4|CFAP69 REV__nc|ENSG00000105792|A5D8W1-4|CFAP69 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.9254150390625 2 606.925752 1211.83695 NaN NaN NaN NaN NaN NaN NaN 60.608 1 61.348 60.848 61.848 0.7396 0 0 0 1.0015 1 27997 27997 0.40072 0 1 + 13082 17888 8298 8320 15165 15165 0.2395064119516519 KKLFRIKRF 9 Unmodified _KKLFRIKRF_ 0 0 0 ANKRD12|p.E388Kfs*74|1|0.22|ENSG00000101745|chr18:9254425-9254425|A/-|frameshift_variant ANKRD12|p.E388Kfs*74|1|0.22|ENSG00000101745|chr18:9254425-9254425|A/-|frameshift_variant ANKRD12|p.E388Kfs*74|1|0.22|ENSG00000101745|chr18:9254425-9254425|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 618.4100341796875 2 618.408592 1234.80263 NaN NaN NaN NaN NaN NaN NaN 66.508 1 67.165 66.665 67.665 0.65672 0 0 0 0.91206 1 30490 30490 0.6015 0 1 13083 56 8299 8321 15166 15166 0.19462237826928686 KKLGKLID 8 Unmodified _KKLGKLID_ 0 0 0 REV__nc|ENSG00000186472|Q9Y6V0-6|PCLO REV__nc|ENSG00000186472|Q9Y6V0-6|PCLO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.5400695800781 3 305.539294 913.596052 2.0077 0.00061343 0.88786 0.00027128 2.8956 0.00088471 305.53953190351996 17.17 0.64401 17.474 17.114 17.758 0.30438 133 51 3 0 0 0 0.56084 1 7778 7778 13.042 0 1 900110 + 13084 14057 8300 8322 15167 15167 0.1357982520794394 KKLIFIILKKI 11 Unmodified _KKLIFIILKKI_ 0 0 0 REV__ENST00000531550.1_1_11:118007744-118012097:-|nuORF REV__ENST00000531550.1_1_11:118007744-118012097:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 678.9906005859375 2 678.988884 1355.96321 NaN NaN NaN NaN NaN NaN NaN 74.529 1 75.216 74.716 75.716 0.68662 0 0 0 1.008 1 36023 36023 0.30703 0 1 + 13085 13726 8301 8323 15168 15168 0.2994714770043174 KKLIHLLK 8 Unmodified _KKLIHLLK_ 0 0 0 REV__nc|ENSG00000162779|Q5T1B0-2|AXDND1 REV__nc|ENSG00000162779|Q5T1B0-2|AXDND1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.83685302734375 2 496.852587 991.690622 NaN NaN NaN NaN NaN NaN NaN 76.857 1 77.481 76.981 77.981 0.62397 0 0 0 0.99035 1 37265 37265 0.69038 0 1 + 13086 12961 8302 8324 15169 15169 0.19444383749942062 KKLIIAIIIKR 11 Unmodified _KKLIIAIIIKR_ 0 0 0 REV__ENST00000300870.14_1_16:31926192-31926246:+|nuORF REV__ENST00000300870.14_1_16:31926192-31926246:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.986083984375 3 436.986631 1307.93806 NaN NaN NaN NaN NaN NaN NaN 65.385 1 66.094 65.594 66.594 0.70891 0 0 0 1.0082 1 30921 30921 0.08335 0 1 + 13087 15188 8303 8325 15170 15170 0.2964109289787302 KKLIKRFIINF 11 Unmodified _KKLIKRFIINF_ 0 0 0 REV__nc|ENSG00000134627|Q7Z3Z4-3|PIWIL4 REV__nc|ENSG00000134627|Q7Z3Z4-3|PIWIL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.9782409667969 3 473.978135 1418.91258 NaN NaN NaN NaN NaN NaN NaN 105.22 1 105.82 105.32 106.32 0.59969 0 0 0 1.0082 1 48595 48595 0.08335 0 1 + 13088 11973 8304 8326 15171 15171 0.2198761837546499 KKLIRYLKLK 10 Unmodified _KKLIRYLKLK_ 0 0 0 nc|ENSG00000131620|Q5XXA6-2|ANO1;nc|ENSG00000131620|Q5XXA6-4|ANO1;ENSG00000131620|ENST00000355303|ANO1;nc|ENSG00000131620|Q5XXA6-5|ANO1 nc|ENSG00000131620|Q5XXA6-2|ANO1 nc|ENSG00000131620|Q5XXA6-2|ANO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 651.9540405273438 2 651.952833 1301.89111 NaN NaN NaN NaN NaN NaN NaN 68.499 1 68.499 67.999 68.999 0 0 0 0 1.0015 1 32985 32985 0.40072 0 1 13089 2666 8305 8327 15172 15172 0.25224233346716574 KKLIVKKF 8 Unmodified _KKLIVKKF_ 0 0 0 ENSG00000112367|ENST00000230124|FIG4 ENSG00000112367|ENST00000230124|FIG4 ENSG00000112367|ENST00000230124|FIG4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.3544616699219 2 502.354963 1002.69537 NaN NaN NaN NaN NaN NaN NaN 73.374 1 73.374 72.874 73.874 0 0 0 0 0.99035 1 35756 35756 0.69038 0 1 13090 1806 8306 8328 15173 15173 0.1941326789269624 KKLKALGKILI 11 Unmodified _KKLKALGKILI_ 0 0 0 REV__nc|ENSG00000131558|Q96A65-2|EXOC4 REV__nc|ENSG00000131558|Q96A65-2|EXOC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 613.0471801757812 2 612.941934 1223.86931 NaN NaN NaN NaN NaN NaN NaN 74.728 1 75.392 74.892 75.892 0.6644 0 0 0 1.008 1 34409 34409 0.30703 0.30703 1 + 13091 11861 8307 8329 15174 15174 0.266334285981884 KKLKFLFL 8 Unmodified _KKLKFLFL_ 0 0 0 REV__ENSG00000183439|ENST00000710271|TRIM61 REV__ENSG00000183439|ENST00000710271|TRIM61 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.8510131835938 2 518.849513 1035.68447 NaN NaN NaN NaN NaN NaN NaN 80.754 1 80.754 80.254 81.254 0 0 0 0 0.99035 1 40166 40166 0.69038 0 1 + 13092 13932 8308 8330 15175 15175 0.16805865518404062 KKLKFRRNRFW 11 Unmodified _KKLKFRRNRFW_ 0 0 0 REV__ENSG00000186103|ENST00000334384|ARGFX REV__ENSG00000186103|ENST00000334384|ARGFX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.9893188476562 3 526.987916 1577.94192 NaN NaN NaN NaN NaN NaN NaN 71.498 1 71.498 70.998 71.998 0 0 0 0 1.0082 1 34756 34756 0.08335 0.08335 1 + 13093 14043 8309 8331 15176 15176 0.17606575444301598 KKLKKKKKKKP 11 Unmodified _KKLKKKKKKKP_ 0 0 0 ENST00000378026.4_3_12:106631761-106631812:-|nuORF ENST00000378026.4_3_12:106631761-106631812:-|nuORF ENST00000378026.4_3_12:106631761-106631812:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 461.266845703125 3 461.341296 1381.00206 NaN NaN NaN NaN NaN NaN NaN 88.264 1 88.942 88.442 89.442 0.67818 0 0 0 1.0082 1 40653 40653 0 0 1 13094 7425 8310 8332 15177 15177 0.32679873054803465 KKLKKKRKL 9 Unmodified _KKLKKKRKL_ 0 0 0 REV__ENST00000372600.8_1_9:131679364-131679535:+|nuORF REV__ENST00000372600.8_1_9:131679364-131679535:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.1281127929688 2 585.432067 1168.84958 NaN NaN NaN NaN NaN NaN NaN 82.837 1 82.882 82.382 83.382 0.045006 0 0 0 0.91238 1 40964 40964 0.52476 0 1 + 13095 15756 8311 8333 15178 15178 0.2719109737806775 KKLKKRRF 8 Unmodified _KKLKKRRF_ 0 0 0 ENST00000502422.5_1_5:138651717-138665081:+|nuORF ENST00000502422.5_1_5:138651717-138665081:+|nuORF ENST00000502422.5_1_5:138651717-138665081:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.8982543945312 2 552.379835 1102.74512 NaN NaN NaN NaN NaN NaN NaN 79.897 1 80.217 79.717 80.717 0.31998 0 0 0 0.99035 1 39043 39043 0.69038 0 1 13096 8478 8312 8334 15179 15179 0.1978539562135211 KKLKKWMDIFR 11 Unmodified _KKLKKWMDIFR_ 0 0 0 ENSG00000137225|ENST00000398776|CAPN11 ENSG00000137225|ENST00000398776|CAPN11 ENSG00000137225|ENST00000398776|CAPN11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 746.7638549804688 2 746.944682 1491.87481 NaN NaN NaN NaN NaN NaN NaN 60.831 1 61.57 61.07 62.07 0.7396 0 0 0 1.0061 1 28133 28133 2.7352 1.2533 1 13097 3006 8313 8335 15180 15180 0.1485478411832446 KKLKPKSL 8 Unmodified _KKLKPKSL_ 0 0 0 ENST00000416645.6_1_5:36608538-36612883:+|nuORF ENST00000416645.6_1_5:36608538-36612883:+|nuORF ENST00000416645.6_1_5:36608538-36612883:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 314.8900451660156 3 314.555055 940.643337 2.2 0.00069203 0.56411 0.00017745 2.7641 0.00086948 314.5552431625737 9.7865 0.54716 9.7865 9.6576 10.205 0 186 110 2 0 0 0 0.64827 2 4446 4446;4483 10.074 0.6908 1 228840 13098 7715 8314 8336 15181;15182 15181 0.17064104478936315 KKLKRRYRKR 10 Unmodified _KKLKRRYRKR_ 0 0 0 REV__ENSG00000162817|ENST00000294889|C1orf115 REV__ENSG00000162817|ENST00000294889|C1orf115 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.98968505859375 3 477.988028 1430.94225 NaN NaN NaN NaN NaN NaN NaN 78.797 1 78.797 78.297 79.297 0 0 0 0 1.0015 1 38816 38816 0.13989 0.056541 1 + 13099 12964 8315 8337 15183 15183 0.24401995164112122 KKLLKLFKL 9 Unmodified _KKLLKLFKL_ 0 0 0 REV__ENST00000589042.5_3_2:179517806-179527536:-|nuORF REV__ENST00000589042.5_3_2:179517806-179527536:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.906494140625 2 565.90482 1129.79509 NaN NaN NaN NaN NaN NaN NaN 60.595 1 60.595 60.095 61.095 0 0 0 0 0.90699 1 28175 28175 1.8442 1.3195 1 + 13100 17562 8316 8338 15184 15184 0.2353808550665235 KKLLKRLVKV 10 Unmodified _KKLLKRLVKV_ 0 0 0 REV__ENSG00000115239|ENST00000263634|ASB3 REV__ENSG00000115239|ENST00000263634|ASB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 612.9483642578125 2 612.94755 1223.88055 NaN NaN NaN NaN NaN NaN NaN 83.335 1 83.335 82.835 83.835 0 0 0 0 1.002 1 41955 41955 0 0 1 + 13101 11348 8317 8339 15185 15185 0.27756250692300455 KKLLKVIKK 9 Unmodified _KKLLKVIKK_ 0 0 0 REV__ENST00000464256.1_1_21:34132086-34144033:-|nuORF REV__ENST00000464256.1_1_21:34132086-34144033:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.415771484375 2 549.410269 1096.80599 NaN NaN NaN NaN NaN NaN NaN 64.949 1 65.658 65.158 66.158 0.70891 0 0 0 0.91238 1 30630 30630 0.52476 0 1 + 13102 12841 8318 8340 15186 15186 0.2614548788094453 KKLLKVIKKS 10 Unmodified _KKLLKVIKKS_ 0 0 0 REV__ENST00000464256.1_1_21:34132086-34144033:-|nuORF REV__ENST00000464256.1_1_21:34132086-34144033:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.5347900390625 2 592.926283 1183.83801 NaN NaN NaN NaN NaN NaN NaN 86.459 1 86.489 85.989 86.989 0.030289 0 0 0 1.0016 1 43515 43515 0.35063 0.043601 1 + 13103 12841 8319 8341 15187 15187 0.2534485556409436 KKLLLILSLA 10 Unmodified _KKLLLILSLA_ 0 0 0 REV__ENST00000497387.5_1_3:9971427-9975274:+|nuORF REV__ENST00000497387.5_1_3:9971427-9975274:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.3947143554688 2 556.394285 1110.77402 NaN NaN NaN NaN NaN NaN NaN 91.68 1 91.932 91.432 92.432 0.25163 0 0 0 1.002 1 42154 42154 0 0 1 + 13104 13018 8320 8342 15188 15188 0.22306075407163917 KKLLLKYR 8 Unmodified _KKLLLKYR_ 0 0 0 REV__ENST00000424137.2_1_20:34340744-34341539:+|nuORF REV__ENST00000424137.2_1_20:34340744-34341539:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.362548828125 2 531.363319 1060.71209 NaN NaN NaN NaN NaN NaN NaN 74.021 1 74.021 73.521 74.521 0 0 0 0 0.99035 1 36124 36124 0.69038 0 1 + 13105 16200 8321 8343 15189 15189 0.18415768778640995 KKLLLLKF 8 Unmodified _KKLLLLKF_ 0 0 0 REV__nc|ENSG00000188158|Q6T4R5-4|NHS REV__nc|ENSG00000188158|Q6T4R5-4|NHS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.6247863769531 2 501.857338 1001.70012 NaN NaN NaN NaN NaN NaN NaN 77.465 1 78.026 77.526 78.526 0.56091 0 0 0 0.99035 1 37576 37576 2.5775 0 1 + 13106 14134 8322 8344 15190 15190 0.19934152035466468 KKLPNHVF 8 Unmodified _KKLPNHVF_ 0 0 0 ENST00000478383.5_1_3:160821891-160822176:-|nuORF;ENST00000460353.1_1_3:160821276-160822176:-|nuORF;ENST00000320474.8_1_3:160821276-160822176:-|nuORF ENST00000478383.5_1_3:160821891-160822176:-|nuORF ENST00000478383.5_1_3:160821891-160822176:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7938537597656 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 90.723 1 91.396 90.896 91.896 0.67271 0 0 0 0.99035 1 41756 41756 2.8892 0.31174 1 13107 6921 8323 8345 15191 15191 0.08446074267999393 KKLPPRHKK 9 Unmodified _KKLPPRHKK_ 0 0 0 nc|ENSG00000137571|Q9H2Y9-3|SLCO5A1;nc|ENSG00000137571|Q9H2Y9-2|SLCO5A1;ENSG00000137571|ENST00000260126|SLCO5A1;ENST00000532388.5_1_8:70617264-70744908:-|nuORF nc|ENSG00000137571|Q9H2Y9-3|SLCO5A1 nc|ENSG00000137571|Q9H2Y9-3|SLCO5A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.3787231445312 2 566.377292 1130.74003 NaN NaN NaN NaN NaN NaN NaN 72.406 1 72.406 71.906 72.906 0 0 0 0 0.90699 1 35220 35220 1.8442 0.36234 1 13108 3026 8324 8346 15192 15192 0.17989091758727227 KKLQKKRIKKR 11 Unmodified _KKLQKKRIKKR_ 0 0 0 nc|ENSG00000125388|P32298-3|GRK4;nc|ENSG00000125388|P32298-4|GRK4;nc|ENSG00000125388|P32298-2|GRK4;ENSG00000125388|ENST00000398052|GRK4 nc|ENSG00000125388|P32298-3|GRK4 nc|ENSG00000125388|P32298-3|GRK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 727.51171875 2 727.511912 1453.00927 NaN NaN NaN NaN NaN NaN NaN 61.606 1 61.606 61.106 62.106 0 0 0 0 1.0073 1 28753 28753 1.1933 0.9575 1 13109 2396 8325 8347 15193 15193 0.3008860565521445 KKLRIIILVVK 11 Unmodified _KKLRIIILVVK_ 0 0 0 REV__ENSG00000113396|ENST00000262462|SLC27A6 REV__ENSG00000113396|ENST00000262462|SLC27A6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 662.1149291992188 2 661.984133 1321.95371 NaN NaN NaN NaN NaN NaN NaN 70.7 1 71.403 70.903 71.903 0.70386 0 0 0 1.008 1 33897 33897 0.30703 0.30703 1 + 13110 11298 8326 8348 15194 15194 0.30561379414893963 KKLRLRRGKKK 11 Unmodified _KKLRLRRGKKK_ 0 0 0 ENSG00000171811|ENST00000368586|CFAP46 ENSG00000171811|ENST00000368586|CFAP46 ENSG00000171811|ENST00000368586|CFAP46 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 705.7767944335938 2 705.996429 1409.9783 NaN NaN NaN NaN NaN NaN NaN 105.39 1 105.44 104.94 105.94 0.050888 0 0 0 1.0082 1 57009 57009 0 0 1 13111 4835 8327 8349 15195 15195 0.289714523409657 KKLSIVTSK 9 Unmodified _KKLSIVTSK_ 0 0 0 REV__nc|ENSG00000170776|Q12802-4|AKAP13 REV__nc|ENSG00000170776|Q12802-4|AKAP13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 335.2232666015625 3 335.221853 1002.64373 NaN NaN NaN NaN NaN NaN NaN 69.799 1 70.502 70.002 71.002 0.70302 0 0 0 0.90699 1 33419 33419 0.96228 0 1 + 13112 13452 8328 8350 15196 15196 0.14251479408142131 KKLTNALSK 9 Unmodified _KKLTNALSK_ 0 0 0 nc|ENSG00000134769|Q9Y4J8-4|DTNA;nc|ENSG00000134769|Q9Y4J8-3|DTNA;nc|ENSG00000134769|Q9Y4J8|DTNA;ENSG00000134769|ENST00000444659|DTNA;nc|ENSG00000134769|Q9Y4J8-9|DTNA;nc|ENSG00000134769|Q9Y4J8-7|DTNA;nc|ENSG00000134769|Q9Y4J8-16|DTNA;nc|ENSG00000134769|Q9Y4J8-5|DTNA;nc|ENSG00000134769|Q9Y4J8-13|DTNA;nc|ENSG00000134769|Q9Y4J8-2|DTNA;nc|ENSG00000134769|Q9Y4J8-14|DTNA;nc|ENSG00000134769|Q9Y4J8-15|DTNA nc|ENSG00000134769|Q9Y4J8-4|DTNA nc|ENSG00000134769|Q9Y4J8-4|DTNA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.8812561035156 3 334.88172 1001.62333 NaN NaN NaN NaN NaN NaN NaN 70.454 1 71.158 70.658 71.658 0.70386 0 0 0 0.90431 1 33759 33759 2.4985 0 1 13113 2829 8329 8351 15197 15197 0.12258308748312174 KKLVKIKQKLR 11 Unmodified _KKLVKIKQKLR_ 0 0 0 REV__ENST00000481507.5_1_9:37326993-37357262:+|nuORF REV__ENST00000481507.5_1_9:37326993-37357262:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 691.489501953125 2 691.490114 1380.96567 NaN NaN NaN NaN NaN NaN NaN 73.409 1 74.073 73.573 74.573 0.66398 0 0 0 1.008 1 33734 33734 0.30703 0 1 + 13114 12519 8330 8352 15198 15198 0.29042996158113965 KKLVPTEMI 9 Unmodified _KKLVPTEMI_ 0 0 0 REV__nc|ENSG00000188827|Q8IY92-2|SLX4 REV__nc|ENSG00000188827|Q8IY92-2|SLX4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 353.5481872558594 3 353.547461 1057.62055 2.6421 0.00093411 0.085648 3.0281E-05 2.7277 0.00096439 353.54753579955565 42.637 0.52682 42.908 42.499 43.025 0.27021 63 26 3 0 0 0 0.59776 1 19422 19422 10.8 1.8233 1 5032500 + 13115 14160 8331 8353 15199 15199 0.09404717299162257 KKLVPTEMI 9 Unmodified _KKLVPTEMI_ 0 0 0 REV__nc|ENSG00000188827|Q8IY92-2|SLX4 REV__nc|ENSG00000188827|Q8IY92-2|SLX4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 353.5487060546875 3 353.547461 1057.62055 2.6318 0.00093046 0.39074 0.00013815 3.0225 0.0010686 353.54744329281095 41.649 0.26865 42.294 42.045 42.313 0.64451 26 15 3 0 0 0 0.59776 1 19052 19052 10.8 5.0161 1 5910700 + 13116 14160 8331 8353 15200 15200 0.09404717299162257 KKLVPVRRR 9 Unmodified _KKLVPVRRR_ 0 0 0 ENSG00000161609|ENST00000447857|KASH5 ENSG00000161609|ENST00000447857|KASH5 ENSG00000161609|ENST00000447857|KASH5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.3990478515625 2 576.396016 1150.77748 NaN NaN NaN NaN NaN NaN NaN 94.713 1 94.973 94.473 95.473 0.25975 0 0 0 0.91238 1 43521 43521 0.52476 0 1 13117 4099 8332 8354 15201 15201 0.20812183024349906 KKLYFKRKRLY 11 Unmodified _KKLYFKRKRLY_ 0 0 0 REV__ENST00000342992.10_3_2:179540701-179542581:-|nuORF REV__ENST00000342992.10_3_2:179540701-179542581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 771.9884033203125 2 771.985195 1541.95584 NaN NaN NaN NaN NaN NaN NaN 78.566 1 78.566 78.066 79.066 0 0 0 0 1.0082 1 38650 38650 0.30703 0.30703 1 + 13118 15483 8333 8355 15202 15202 0.20653808152746933 KKLYHNVLYVE 11 Unmodified _KKLYHNVLYVE_ 0 0 0 ENST00000205636.3_1_3:32533293-32544161:-|nuORF ENST00000205636.3_1_3:32533293-32544161:-|nuORF ENST00000205636.3_1_3:32533293-32544161:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 703.8558959960938 2 703.395544 1404.77654 NaN NaN NaN NaN NaN NaN NaN 64.477 1 65.193 64.693 65.693 0.71521 0 0 0 1.0059 1 30380 30380 2.9952 0.26005 1 13119 6392 8334 8356 15203 15203 0.09033879074127071 KKMGAKGS 8 Unmodified _KKMGAKGS_ 0 0 0 ENSG00000119401|ENST00000450136|TRIM32 ENSG00000119401|ENST00000450136|TRIM32 ENSG00000119401|ENST00000450136|TRIM32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 403.7329406738281 2 403.73128 805.448008 2.044 0.00082522 0.40309 0.00016274 2.4471 0.00098796 403.7315434220538 67.929 0.11676 68.631 68.544 68.661 0.70218 18 14 2 0 0 0 0.7441 1 32342 32342 2.3027 0 1 925580 13120 2141 8335 8357 15204 15204 0.03750190682455923 KKMGAKGS 8 Unmodified _KKMGAKGS_ 0 0 0 ENSG00000119401|ENST00000450136|TRIM32 ENSG00000119401|ENST00000450136|TRIM32 ENSG00000119401|ENST00000450136|TRIM32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.7330017089844 2 403.73128 805.448008 3.1183 0.001259 1.6998 0.00068625 4.8181 0.0019452 403.7317046592589 65.592 0.26929 65.841 65.718 65.987 0.24847 20 14 2 0 0 0 0.7471 1 30057 30057 0.69038 0 1 329580 13121 2141 8335 8357 15205 15205 0.03750190682455923 KKMGAKGS 8 Unmodified _KKMGAKGS_ 0 0 0 ENSG00000119401|ENST00000450136|TRIM32 ENSG00000119401|ENST00000450136|TRIM32 ENSG00000119401|ENST00000450136|TRIM32 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 403.73128 805.448008 3.0374 0.0012263 1.347 0.00054383 4.3845 0.0017701 403.731702957712 65.273 0.25874 65.929 65.774 66.033 0.65672 0.044422 -0.0001281 NaN 0.69038 21 14 2 NaN NaN NaN NaN 0 NaN NaN 0 415940 13122 2141 8335 8357 0.03750190682455923 KKMGIKTV 8 Unmodified _KKMGIKTV_ 0 0 0 nc|ENSG00000175198|P05165-3|PCCA;nc|ENSG00000175198|P05165-2|PCCA;ENSG00000175198|ENST00000376285|PCCA nc|ENSG00000175198|P05165-3|PCCA nc|ENSG00000175198|P05165-3|PCCA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 452.6474914550781 2 452.786056 903.557558 NaN NaN NaN NaN NaN NaN NaN 66.805 1 67.51 67.01 68.01 0.7047 0 0 0 0.99035 1 31691 31691 2.3027 1.5091 1 13123 5018 8336 8358 15206 15206 0.10192196301784406 KKMILLRKRI 10 Unmodified _KKMILLRKRI_ 0 0 0 ENST00000532958.1_2_6:136554461-136554563:-|nuORF ENST00000532958.1_2_6:136554461-136554563:-|nuORF ENST00000532958.1_2_6:136554461-136554563:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 649.94384765625 2 649.944485 1297.87442 NaN NaN NaN NaN NaN NaN NaN 75.399 1 75.656 75.156 76.156 0.25704 0 0 0 1.0015 1 34694 34694 0.40072 0 1 13124 8740 8337 8359 15207 15207 0.2373940918914741 KKMWYIYTMKY 11 Unmodified _KKMWYIYTMKY_ 0 0 0 L1MA9_dup7974|chr8:78957327-78958463:+|1.1853824479748034|0.4592876219400165|1.37|540.0|42|3|sense L1MA9_dup7974|chr8:78957327-78958463:+|1.1853824479748034|0.4592876219400165|1.37|540.0|42|3|sense L1MA9_dup7974|chr8:78957327-78958463:+|1.1853824479748034|0.4592876219400165|1.37|540.0|42|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 518.847900390625 3 518.933098 1553.77746 NaN NaN NaN NaN NaN NaN NaN 71.749 1 72.007 71.507 72.507 0.25786 0 0 0 1.0079 1 32903 32903 0.45452 0.35968 1 13125 9434 8338 8360 15208 15208 0.02272634127166384 KKNALIMKTKK 11 Unmodified _KKNALIMKTKK_ 0 0 0 nc|ENSG00000137707|Q9NY30-2|BTG4 nc|ENSG00000137707|Q9NY30-2|BTG4 nc|ENSG00000137707|Q9NY30-2|BTG4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.95013427734375 3 434.947847 1301.82171 3.7257 0.0016205 0.94816 0.0004124 4.6739 0.0020329 434.948261889315 109.75 1.8294 110.06 108.47 110.3 0.31015 170 76 3 0 0 0 0.91459 3 50148 50148;50211;50425 0.094841 0.094841 1 296160 13126 9660 8339 8361 15209;15210;15211 15209 0.1828740633563939 KKNKDKGK 8 Unmodified _KKNKDKGK_ 0 0 0 REV__ENST00000491195.1_1_3:150264653-150284742:-|nuORF REV__ENST00000491195.1_1_3:150264653-150284742:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.2976379394531 2 473.295633 944.576714 3.035 0.0014364 1.2193 0.00057708 4.2543 0.0020135 473.2962419434679 55.594 0.22934 56.262 56.087 56.316 0.66797 11 9 2 0 0 0 0.73203 1 25446 25446 2.0598 1.6014 1 683680 + 13127 16675 8340 8362 15212 15212 0.1022086891704248 KKNKKKFLCKK 11 Unmodified _KKNKKKFLCKK_ 0 0 0 REV__ENSG00000067715|ENST00000261205|SYT1 REV__ENSG00000067715|ENST00000261205|SYT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.9689636230469 3 464.967242 1391.8799 NaN NaN NaN NaN NaN NaN NaN 13.452 1 13.695 13.195 14.195 0.24346 0 0 0 1.008 1 5871 5871 0.08335 0 1 + 13128 10457 8341 8363 15213 15213 0.19963087980954697 KKNKKKKRFWK 11 Unmodified _KKNKKKKRFWK_ 0 0 0 ENST00000494045.5_1_9:136278026-136283036:-|nuORF;nc|ENSG00000148300|Q9GZR2-2|REXO4;ENSG00000148300|ENST00000371942|REXO4 ENST00000494045.5_1_9:136278026-136283036:-|nuORF ENST00000494045.5_1_9:136278026-136283036:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.99658203125 3 506.9963 1517.96707 NaN NaN NaN NaN NaN NaN NaN 79.492 1 79.492 78.992 79.992 0 0 0 0 1.0082 1 39284 39284 0.08335 0.08335 1 13129 3597 8342 8364 15214 15214 0.22880630246845612 KKNKWQKRRRC 11 Unmodified _KKNKWQKRRRC_ 0 0 0 REV__nc|ENSG00000030304|O15146-3|MUSK REV__nc|ENSG00000030304|O15146-3|MUSK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.967041015625 3 510.968527 1529.88375 NaN NaN NaN NaN NaN NaN NaN 75.354 1 75.611 75.111 76.111 0.25704 0 0 0 1.0073 1 34672 34672 1.2148 0.80657 1 + 13130 10289 8343 8365 15215 15215 0.14000570527355194 KKNLKKKRAK 10 Unmodified _KKNLKKKRAK_ 0 0 0 REV__ENSG00000104885|ENST00000398665|DOT1L REV__ENSG00000104885|ENST00000398665|DOT1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.4298706054688 2 621.430056 1240.84556 NaN NaN NaN NaN NaN NaN NaN 76.033 1 76.657 76.157 77.157 0.62397 0 0 0 1.0003 1 36832 36832 1.4819 1.0236 1 + 13131 11006 8344 8366 15216 15216 0.23477007884343948 KKNNISALN 9 Unmodified _KKNNISALN_ 0 0 0 REV__nc|ENSG00000085276|Q03112-8|MECOM REV__nc|ENSG00000085276|Q03112-8|MECOM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.291748046875 2 501.290548 1000.56654 3.0512 0.0015295 0.63904 0.00032035 3.6902 0.0018499 501.2907932816766 78.748 1.673 78.999 78.211 79.884 0.25127 201 105 2 0 0 0 1.0246 1 36466 36466 3.5965 0.31518 1 1159000 + 13132 10644 8345 8367 15217 15217 0.06628261191781348 KKNNISALN 9 Unmodified _KKNNISALN_ 0 0 0 REV__nc|ENSG00000085276|Q03112-8|MECOM REV__nc|ENSG00000085276|Q03112-8|MECOM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.2937316894531 2 501.290548 1000.56654 3.1802 0.0015942 0.52714 0.00026425 3.7073 0.0018584 501.2907464807802 78.42 2.0239 79.082 78.283 80.307 0.66198 237 131 2 0 0 0 1.0246 3 35877 35877;35925;36238 3.5965 0.8613 1 1407600 + 13133 10644 8345 8367 15218;15219;15220 15218 0.06628261191781348 KKNQRKIR 8 Unmodified _KKNQRKIR_ 0 0 0 nc|ENSG00000101251|Q5TEA6-2|SEL1L2;ENSG00000101251|ENST00000284951|SEL1L2 nc|ENSG00000101251|Q5TEA6-2|SEL1L2 nc|ENSG00000101251|Q5TEA6-2|SEL1L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 535.61181640625 2 535.848899 1069.68324 NaN NaN NaN NaN NaN NaN NaN 69.511 1 70.214 69.714 70.714 0.70302 0 0 0 0.99035 1 33271 33271 4.756 0.42677 1 13134 1276 8346 8368 15221 15221 0.1511904420221981 KKNTLDHVF 9 Unmodified _KKNTLDHVF_ 0 0 0 REV__ENSG00000144840|ENST00000273375|RABL3 REV__ENSG00000144840|ENST00000273375|RABL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 367.87457275390625 3 367.873224 1100.59784 NaN NaN NaN NaN NaN NaN NaN 57.485 1 57.75 57.25 58.25 0.26444 0 0 0 0.89683 1 26316 26316 2.4985 0.75621 1 + 13135 12418 8347 8369 15222 15222 0.051568342258860866 KKNVARQPR 9 Unmodified _KKNVARQPR_ 0 0 0 MER21A_dup1924|chr21:42596367-42597211:-|1.1454877344273586|0.0472559580865997|4.6|530.0|18|3|sense MER21A_dup1924|chr21:42596367-42597211:-|1.1454877344273586|0.0472559580865997|4.6|530.0|18|3|sense MER21A_dup1924|chr21:42596367-42597211:-|1.1454877344273586|0.0472559580865997|4.6|530.0|18|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.8375854492188 2 548.838531 1095.66251 NaN NaN NaN NaN NaN NaN NaN 78.824 1 78.824 78.324 79.324 0 0 0 0 0.75166 1 38837 38837 10.824 0.75 1 13136 9513 8348 8370 15223 15223 0.11850453822557938 KKNVPKLGDMN 11 Unmodified _KKNVPKLGDMN_ 0 0 0 ENST00000475065.5_1_7:102963144-102967123:-|nuORF;ENST00000464253.5_1_7:102964930-102985008:-|nuORF;nc|ENSG00000105821|Q99543-2|DNAJC2;ENSG00000105821|ENST00000379263|DNAJC2 ENST00000475065.5_1_7:102963144-102967123:-|nuORF ENST00000475065.5_1_7:102963144-102967123:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 621.9188232421875 2 622.344997 1242.67544 NaN NaN NaN NaN NaN NaN NaN 89.073 1 89.751 89.251 90.251 0.67818 0 0 0 1.0065 1 41014 41014 2.2828 0 1 13137 1532 8349 8371 15224 15224 0.06381104099796175 KKPAAAGVK 9 Unmodified _KKPAAAGVK_ 0 0 0 ENSG00000184357|ENST00000331442|H1-5 ENSG00000184357|ENST00000331442|H1-5 ENSG00000184357|ENST00000331442|H1-5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 435.4549255371094 2 435.281995 868.549437 NaN NaN NaN NaN NaN NaN NaN 66.006 1 66.711 66.211 67.211 0.7047 0 0 0 0.77475 1 31259 31259 10.074 4.8433 1 13138 5435 8350 8372 15225 15225 0.10990385376658196 KKPAAAKKG 9 Unmodified _KKPAAAKKG_ 0 0 0 ENST00000527097.5_1_11:47193699-47198404:-|nuORF;nc|ENSG00000149182|Q8N6H7-2|ARFGAP2;ENST00000395449.7_1_11:47187835-47198404:-|nuORF;ENSG00000149182|ENST00000524782|ARFGAP2 ENST00000527097.5_1_11:47193699-47198404:-|nuORF ENST00000527097.5_1_11:47193699-47198404:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 449.95855712890625 2 449.795269 897.575986 NaN NaN NaN NaN NaN NaN NaN 60.104 1 60.853 60.353 61.353 0.74927 0 0 0 0.65681 1 27663 27663 13.906 2.2658 1 13139 3630 8351 8373 15226 15226 0.12310074267986693 KKPADHMEESE 11 Unmodified _KKPADHMEESE_ 0 0 0 REV__CON__P31096 REV__CON__P31096 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 650.70458984375 2 650.795534 1299.57652 NaN NaN NaN NaN NaN NaN NaN 60.107 1 60.857 60.357 61.357 0.74927 0 0 0 1.0047 1 27665 27665 4.5289 0.93237 1 + + 13140 10082 8352 8374 15227 15227 -0.06128963655783082 KKPAKTQIRI 10 Unmodified _KKPAKTQIRI_ 0 0 0 ENST00000435921.6_1_12:7260698-7263060:+|nuORF;ENST00000536679.5_1_12:7261281-7263060:+|nuORF ENST00000435921.6_1_12:7260698-7263060:+|nuORF ENST00000435921.6_1_12:7260698-7263060:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.8889770507812 2 591.88769 1181.76083 NaN NaN NaN NaN NaN NaN NaN 67.434 1 67.434 66.934 67.934 0 0 0 0 0.96642 1 32346 32346 10.8 0.72558 1 13141 7891 8353 8375 15228 15228 0.17721637347744945 KKPAKTQIRI 10 Unmodified _KKPAKTQIRI_ 0 0 0 ENST00000435921.6_1_12:7260698-7263060:+|nuORF;ENST00000536679.5_1_12:7261281-7263060:+|nuORF ENST00000435921.6_1_12:7260698-7263060:+|nuORF ENST00000435921.6_1_12:7260698-7263060:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 591.9457397460938 2 591.88769 1181.76083 NaN NaN NaN NaN NaN NaN NaN 73.566 1 74.231 73.731 74.731 0.6644 0 0 0 0.96642 1 33815 33815 10.8 0.72558 1 13142 7891 8353 8375 15229 15229 0.17721637347744945 KKPAKTVTAM 10 Unmodified _KKPAKTVTAM_ 0 0 0 REV__ENST00000475081.1_1_1:110527674-110555049:+|nuORF REV__ENST00000475081.1_1_1:110527674-110555049:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.8185424804688 2 537.820627 1073.6267 NaN NaN NaN NaN NaN NaN NaN 66.622 1 67.327 66.827 67.827 0.7047 0 0 0 0.98317 1 31595 31595 8.1555 1.4324 1 + 13143 13362 8354 8376 15230 15230 0.09283235530688216 KKPANSKGQ 9 Unmodified _KKPANSKGQ_ 0 0 0 ENST00000469020.5_1_14:45679581-45687560:-|nuORF;ENSG00000129534|ENST00000310806|MIS18BP1 ENST00000469020.5_1_14:45679581-45687560:-|nuORF ENST00000469020.5_1_14:45679581-45687560:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.28253173828125 2 479.277441 956.540328 2.7314 0.0013091 1.0241 0.00049081 3.7554 0.0017999 479.27796197460475 75.761 0.94643 76.425 75.758 76.704 0.66387 136 81 3 0 0 0 1.0041 1 34924 34924 3.9444 0 1 885300 13144 2553 8355 8377 15231 15231 0.060319920203255606 KKPAPPARKK 10 Unmodified _KKPAPPARKK_ 0 0 0 REV__nc|ENSG00000163395|Q86VF2|IGFN1;REV__ENSG00000179057|ENST00000513874|IGSF22 REV__nc|ENSG00000163395|Q86VF2|IGFN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.86865234375 2 560.8693 1119.72405 NaN NaN NaN NaN NaN NaN NaN 70.165 1 70.165 69.665 70.665 0 0 0 0 0.99812 1 34003 34003 3.2813 0 1 + 13145 12986;13781 8356 8378 15232 15232 0.1689738552183826 KKPARRRYESY 11 Unmodified _KKPARRRYESY_ 0 0 0 nc|ENSG00000163539|O75122|CLASP2;ENSG00000163539|ENST00000682230|CLASP2;nc|ENSG00000163539|O75122-3|CLASP2 nc|ENSG00000163539|O75122|CLASP2 nc|ENSG00000163539|O75122|CLASP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 727.404541015625 2 727.404766 1452.79498 NaN NaN NaN NaN NaN NaN NaN 60.585 1 61.325 60.825 61.825 0.7396 0 0 0 1.0044 1 27980 27980 4.897 0.36815 1 13146 4222 8357 8379 15233 15233 0.08669433768727686 KKPFLLLAI 9 Unmodified _KKPFLLLAI_ 0 0 0 nc|ENSG00000170340|Q9NY97-2|B3GNT2;ENSG00000170340|ENST00000301998|B3GNT2 nc|ENSG00000170340|Q9NY97-2|B3GNT2 nc|ENSG00000170340|Q9NY97-2|B3GNT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.8564453125 2 521.854796 1041.69504 NaN NaN NaN NaN NaN NaN NaN 67.373 1 67.373 66.873 67.873 0 0 0 0 0.90699 1 32304 32304 1.8442 0 1 13147 4743 8358 8380 15234 15234 0.17585848172848273 KKPGDHTGG 9 Unmodified _KKPGDHTGG_ 0 0 0 REV__nc|ENSG00000186185|Q86Y91-6|KIF18B REV__nc|ENSG00000186185|Q86Y91-6|KIF18B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 448.82037353515625 2 448.732866 895.451179 NaN NaN NaN NaN NaN NaN NaN 67.616 1 67.616 67.116 68.116 0 0 0 0 0.90699 1 32470 32470 1.8442 1.0506 1 + 13148 18081 8359 8381 15235 15235 -0.0007284293918701223 KKPGRVKRRWI 11 Unmodified _KKPGRVKRRWI_ 0 0 0 REV__LTR46-int_dup15|chr6:25836289-25836601:-|1.146732329958959|0.031853035304567|5.17|503.0|14|2|anti-sense REV__LTR46-int_dup15|chr6:25836289-25836601:-|1.146732329958959|0.031853035304567|5.17|503.0|14|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 475.3099060058594 3 475.308878 1422.90481 NaN NaN NaN NaN NaN NaN NaN 78.071 1 78.071 77.571 78.571 0 0 0 0 1.0064 1 38326 38326 2.4348 1.1051 1 + 13149 17825 8360 8382 15236 15236 0.21026903898541605 KKPGRWCA 8 Unmodified _KKPGRWCA_ 0 0 0 ENSG00000112787|ENST00000680143|FBRSL1 ENSG00000112787|ENST00000680143|FBRSL1 ENSG00000112787|ENST00000680143|FBRSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.2620544433594 2 473.257997 944.501441 NaN NaN NaN NaN NaN NaN NaN 72.733 1 73.432 72.932 73.932 0.69881 0 0 0 0.99035 1 35038 35038 4.756 0 1 13150 1821 8361 8383 15237 15237 0.02696988184948168 KKPIGAIP 8 Unmodified _KKPIGAIP_ 0 0 0 ENST00000599588.5_1_19:17337742-17339107:+|nuORF;ENST00000596279.1_1_19:17337742-17339154:+|nuORF;ENST00000594283.5_1_19:17337742-17339731:+|nuORF;ENSG00000099330|ENST00000215061|OCEL1 ENST00000599588.5_1_19:17337742-17339107:+|nuORF ENST00000599588.5_1_19:17337742-17339107:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 412.27349853515625 2 412.273638 822.532724 NaN NaN NaN NaN NaN NaN NaN 40.73 1 40.73 40.23 41.23 0 0 0 0 0.99035 1 18493 18493 2.5775 1.7838 1 13151 1138 8362 8384 15238 15238 0.1143588449069739 KKPILIGPKLC 11 Unmodified _KKPILIGPKLC_ 0 0 0 REV__ENST00000244496.5_1_6:42997153-42997255:+|nuORF REV__ENST00000244496.5_1_6:42997153-42997255:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.19940185546875 4 303.199248 1208.76789 2.1192 0.00064254 -1.8681 -0.00056641 0.25108 7.6127E-05 303.1985615600929 45.665 0.879 45.932 45.293 46.172 0.26768 39 35 2 0 0 0 0.91068 1 20900 20900 1.3296 0.55311 1 1589700 + 13152 14888 8363 8385 15239 15239 0.1718523390397877 KKPIPRIKRK 10 Unmodified _KKPIPRIKRK_ 0 0 0 nc|ENSG00000138336|Q8NFU7-3|TET1;ENSG00000138336|ENST00000373644|TET1;nc|ENSG00000138336|Q8NFU7-2|TET1 nc|ENSG00000138336|Q8NFU7-3|TET1 nc|ENSG00000138336|Q8NFU7-3|TET1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.9632263183594 3 421.962708 1262.86629 NaN NaN NaN NaN NaN NaN NaN 62.792 1 63.514 63.014 64.014 0.72236 0 0 0 1.0001 1 29347 29347 1.5923 0.81575 1 13153 3085 8364 8386 15240 15240 0.2453759826400983 KKPKAAKAKK 10 Unmodified _KKPKAAKAKK_ 0 0 0 REV__ENSG00000168298|ENST00000304218|H1-4 REV__ENSG00000168298|ENST00000304218|H1-4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.3804321289062 2 549.3795 1096.74445 NaN NaN NaN NaN NaN NaN NaN 63.542 1 64.265 63.765 64.765 0.72236 0 0 0 0.96201 1 29774 29774 11.495 3.3392 1 + 13154 13340 8365 8387 15241 15241 0.19994556181632106 KKPKAPETYTH 11 Unmodified _KKPKAPETYTH_ 0 0 0 REV__nc|ENSG00000167615|Q96PV6-1|LENG8 REV__nc|ENSG00000167615|Q96PV6-1|LENG8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 433.560791015625 3 433.906705 1298.69829 NaN NaN NaN NaN NaN NaN NaN 62.473 1 63.203 62.703 63.703 0.73077 0 0 0 1.0044 1 29128 29128 2.2527 1.0379 1 + 13155 13294 8366 8388 15242 15242 0.060884464888886214 KKPKGEENEGE 11 Unmodified _KKPKGEENEGE_ 0 0 0 REV__nc|ENSG00000148835|Q15542-2|TAF5 REV__nc|ENSG00000148835|Q15542-2|TAF5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 415.91595458984375 3 415.542091 1243.60444 NaN NaN NaN NaN NaN NaN NaN 62.587 1 63.318 62.818 63.818 0.73077 0 0 0 1.0063 1 29206 29206 1.0136 0.31591 1 + 13156 12550 8367 8389 15243 15243 -0.0076131740402161086 KKPKHKRKRK 10 Unmodified _KKPKHKRKRK_ 0 0 0 ENSG00000152217|ENST00000649279|SETBP1 ENSG00000152217|ENST00000649279|SETBP1 ENSG00000152217|ENST00000649279|SETBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 667.4525146484375 2 667.454397 1332.89424 NaN NaN NaN NaN NaN NaN NaN 69.21 1 69.913 69.413 70.413 0.70218 0 0 0 1.0003 1 33105 33105 1.4819 1.0812 1 13157 3742 8368 8390 15244 15244 0.24110921244073324 KKPKHKRKRKS 11 Unmodified _KKPKHKRKRKS_ 0 0 0 ENSG00000152217|ENST00000649279|SETBP1 ENSG00000152217|ENST00000649279|SETBP1 ENSG00000152217|ENST00000649279|SETBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 710.968017578125 2 710.970411 1419.92627 NaN NaN NaN NaN NaN NaN NaN 74.009 1 74.673 74.173 75.173 0.6644 0 0 0 1.008 1 34057 34057 0.30703 0 1 13158 3742 8369 8391 15245 15245 0.23310288927223155 KKPKILKVL 9 Unmodified _KKPKILKVL_ 0 0 0 REV__ENSG00000015133|ENST00000389857|CCDC88C REV__ENSG00000015133|ENST00000389857|CCDC88C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.3153686523438 2 533.88917 1065.76379 NaN NaN NaN NaN NaN NaN NaN 80.054 1 80.054 79.554 80.554 0 0 0 0 0.91238 1 39643 39643 0.52476 0 1 + 13159 10253 8370 8392 15246 15246 0.23353512472567672 KKPKKHPKVA 10 Unmodified _KKPKKHPKVA_ 0 0 0 ENSG00000118960|ENST00000304031|HS1BP3 ENSG00000118960|ENST00000304031|HS1BP3 ENSG00000118960|ENST00000304031|HS1BP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 580.8829956054688 2 580.88495 1159.75535 NaN NaN NaN NaN NaN NaN NaN 71.362 1 71.362 70.862 71.862 0 0 0 0 0.99812 1 34688 34688 3.2813 1.7994 1 13160 2127 8371 8393 15247 15247 0.18185958555932302 KKPKVKKKEK 10 Unmodified _KKPKVKKKEK_ 0 0 0 ENSG00000167644|ENST00000301246|C19orf33;ENST00000589986.2_1_19:38794923-38795601:+|nuORF ENSG00000167644|ENST00000301246|C19orf33 ENSG00000167644|ENST00000301246|C19orf33 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.9515991210938 2 620.926815 1239.83908 NaN NaN NaN NaN NaN NaN NaN 72.216 1 72.92 72.42 73.42 0.70386 0 0 0 1.0003 1 34745 34745 1.4819 0 1 13161 4567 8372 8394 15248 15248 0.2287506993295665 KKPKYPKSQRR 11 Unmodified _KKPKYPKSQRR_ 0 0 0 REV__nc|ENSG00000005810|O75592-2|MYCBP2 REV__nc|ENSG00000005810|O75592-2|MYCBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 708.4314575195312 2 708.433327 1414.8521 NaN NaN NaN NaN NaN NaN NaN 64.19 1 64.905 64.405 65.405 0.71521 0 0 0 1.0073 1 30217 30217 1.1933 0.12188 1 + 13162 10183 8373 8395 15249 15249 0.16126901045049635 KKPLILKRK 9 Unmodified _KKPLILKRK_ 0 0 0 ENSG00000147082|ENST00000376042|CCNB3 ENSG00000147082|ENST00000376042|CCNB3 ENSG00000147082|ENST00000376042|CCNB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.4522094726562 2 562.405518 1122.79648 NaN NaN NaN NaN NaN NaN NaN 64.498 1 64.498 63.998 64.998 0 0 0 0 0.90699 1 30571 30571 1.8442 1.3195 1 13163 3544 8374 8396 15250 15250 0.23999719595394708 KKPLKEWGLL 10 Unmodified _KKPLKEWGLL_ 0 0 0 REV__nc|ENSG00000073146|Q9BXT6-5|MOV10L1 REV__nc|ENSG00000073146|Q9BXT6-5|MOV10L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.69415283203125 4 303.693221 1210.74378 2.1716 0.00065949 1.0023 0.00030438 3.1738 0.00096387 303.6935110981411 31.787 0.46408 32.575 32.469 32.933 0.78795 100 50 3 0 0 0 0.91298 1 14372 14372 3.0723 0.57378 1 2318300 + 13164 10501 8375 8397 15251 15251 0.14683716741933495 KKPLRVTKLEG 11 Unmodified _KKPLRVTKLEG_ 0 0 0 REV__ENSG00000122965|ENST00000261741|RBM19 REV__ENSG00000122965|ENST00000261741|RBM19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 634.7509765625 2 634.906079 1267.79761 NaN NaN NaN NaN NaN NaN NaN 66.906 1 67.611 67.111 68.111 0.7047 0 0 0 1.0059 1 31745 31745 2.9952 0 1 + 13165 11598 8376 8398 15252 15252 0.1744188917361953 KKPMIKPFIR 10 Unmodified _KKPMIKPFIR_ 0 0 0 REV__ENSG00000269791|ENST00000595235|SSX4B REV__ENSG00000269791|ENST00000595235|SSX4B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 629.3951416015625 2 629.396836 1256.77912 NaN NaN NaN NaN NaN NaN NaN 76.866 1 77.121 76.621 77.621 0.25533 0 0 0 0.99812 1 35395 35395 3.2813 1.7994 1 + 13166 14111 8377 8399 15253 15253 0.1610005599809483 KKPMIKPI 8 Unmodified _KKPMIKPI_ 0 0 0 REV__nc|ENSG00000157965|Q7RTT4|SSX8P REV__nc|ENSG00000157965|Q7RTT4|SSX8P MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.8236999511719 2 477.812073 953.609594 NaN NaN NaN NaN NaN NaN NaN 61.124 1 61.864 61.364 62.364 0.7396 0 0 0 0.84594 1 28304 28304 15.847 6.4997 1 + 13167 11717 8378 8400 15254 15254 0.13093359715537645 KKPMIKTPKV 10 Unmodified _KKPMIKTPKV_ 0 0 0 REV__ENSG00000138604|ENST00000261858|GLCE REV__ENSG00000138604|ENST00000261858|GLCE MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.3760986328125 2 585.375569 1168.73659 NaN NaN NaN NaN NaN NaN NaN 50.037 1 50.037 49.537 50.537 0 0 0 0 1.0015 1 22908 22908 0.40072 0.050084 1 + 13168 12171 8379 8401 15255 15255 0.1589666086986199 KKPMQKEVDVK 11 Unmodified _KKPMQKEVDVK_ 0 0 0 REV__ENSG00000080603|ENST00000262518|SRCAP REV__ENSG00000080603|ENST00000262518|SRCAP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 665.3837890625 2 665.38158 1328.74861 NaN NaN NaN NaN NaN NaN NaN 64.595 1 64.843 64.343 65.343 0.24803 0 0 0 1.0074 1 29590 29590 1.0715 0.61312 1 + 13169 10597 8380 8402 15256 15256 0.09738232822382997 KKPMRLDKETL 11 Unmodified _KKPMRLDKETL_ 0 0 0 nc|ENSG00000151572|Q32M45-2|ANO4;ENSG00000151572|ENST00000392977|ANO4;chr12:100740105-100901646|299|10.57|0.2|5.71|+|ENST00000644049|ANO4,ANO4;chr12:100733857-100739854|321|10.37|0.22|5.55|+|ENST00000644049|ANO4,ANO4 nc|ENSG00000151572|Q32M45-2|ANO4 nc|ENSG00000151572|Q32M45-2|ANO4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 453.5993347167969 3 453.598995 1357.77516 NaN NaN NaN NaN NaN NaN NaN 73.512 1 73.512 73.012 74.012 0 0 0 0 1.0064 1 35853 35853 2.4348 1.1051 1 13170 136 8381 8403 15257 15257 0.11057921713722862 KKPNVFKL 8 Unmodified _KKPNVFKL_ 0 0 0 PSD3|p.Q887Yfs*33|1|0.05|ENSG00000156011|chr8:18572656-18572657|-/GGAAAAAGTA|frameshift_variant;ENSG00000156011|ENST00000327040|PSD3;nc|ENSG00000156011|Q9NYI0|PSD3;ENST00000518315.5_1_8:18393255-18632402:-|nuORF;nc|ENSG00000156011|Q9NYI0-3|PSD3 PSD3|p.Q887Yfs*33|1|0.05|ENSG00000156011|chr8:18572656-18572657|-/GGAAAAAGTA|frameshift_variant PSD3|p.Q887Yfs*33|1|0.05|ENSG00000156011|chr8:18572656-18572657|-/GGAAAAAGTA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.45184326171875 2 487.313295 972.612037 NaN NaN NaN NaN NaN NaN NaN 70.882 1 70.882 70.382 71.382 0 0 0 0 0.95658 1 34437 34437 8.5933 2.8329 1 13171 3891 8382 8404 15258 15258 0.12463531444836917 KKPNVFKL 8 Unmodified _KKPNVFKL_ 0 0 0 PSD3|p.Q887Yfs*33|1|0.05|ENSG00000156011|chr8:18572656-18572657|-/GGAAAAAGTA|frameshift_variant;ENSG00000156011|ENST00000327040|PSD3;nc|ENSG00000156011|Q9NYI0|PSD3;ENST00000518315.5_1_8:18393255-18632402:-|nuORF;nc|ENSG00000156011|Q9NYI0-3|PSD3 PSD3|p.Q887Yfs*33|1|0.05|ENSG00000156011|chr8:18572656-18572657|-/GGAAAAAGTA|frameshift_variant PSD3|p.Q887Yfs*33|1|0.05|ENSG00000156011|chr8:18572656-18572657|-/GGAAAAAGTA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.3128967285156 2 487.313295 972.612037 NaN NaN NaN NaN NaN NaN NaN 71.688 1 71.688 71.188 72.188 0 0 0 0 0.99035 1 34852 34852 4.756 0 1 13172 3891 8382 8404 15259 15259 0.12463531444836917 KKPNVFKL 8 Unmodified _KKPNVFKL_ 0 0 0 PSD3|p.Q887Yfs*33|1|0.05|ENSG00000156011|chr8:18572656-18572657|-/GGAAAAAGTA|frameshift_variant;ENSG00000156011|ENST00000327040|PSD3;nc|ENSG00000156011|Q9NYI0|PSD3;ENST00000518315.5_1_8:18393255-18632402:-|nuORF;nc|ENSG00000156011|Q9NYI0-3|PSD3 PSD3|p.Q887Yfs*33|1|0.05|ENSG00000156011|chr8:18572656-18572657|-/GGAAAAAGTA|frameshift_variant PSD3|p.Q887Yfs*33|1|0.05|ENSG00000156011|chr8:18572656-18572657|-/GGAAAAAGTA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.25311279296875 2 487.313295 972.612037 NaN NaN NaN NaN NaN NaN NaN 78.066 1 78.627 78.127 79.127 0.56091 0 0 0 0.99035 1 37914 37914 4.756 0 1 13173 3891 8382 8404 15260 15260 0.12463531444836917 KKPPRRWP 8 Unmodified _KKPPRRWP_ 0 0 0 REV__nc|ENSG00000139718|Q9UPS6-2|SETD1B REV__nc|ENSG00000139718|Q9UPS6-2|SETD1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.8285522460938 2 532.827435 1063.64032 NaN NaN NaN NaN NaN NaN NaN 64.146 1 64.146 63.646 64.646 0 0 0 0 0.99035 1 30324 30324 5.2307 0.90143 1 + 13174 12217 8383 8405 15261 15261 0.11104274144804549 KKPQLVTRILL 11 Unmodified _KKPQLVTRILL_ 0 0 0 REV__ENSG00000178997|ENST00000458580|EXD1 REV__ENSG00000178997|ENST00000458580|EXD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 654.941650390625 2 654.939922 1307.86529 NaN NaN NaN NaN NaN NaN NaN 74.039 1 74.298 73.798 74.798 0.25876 0 0 0 1.0073 1 34027 34027 1.1933 0 1 + 13175 13778 8384 8406 15262 15262 0.22367339104471284 KKPRFVLLFL 10 Unmodified _KKPRFVLLFL_ 0 0 0 REV__Harlequin-int_dup372|chr10:84170027-84170994:-|2.229433011874135|0.252139802420439|3.14|509.0|58|2|anti-sense REV__Harlequin-int_dup372|chr10:84170027-84170994:-|2.229433011874135|0.252139802420439|3.14|509.0|58|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 630.9134521484375 2 630.913176 1259.8118 NaN NaN NaN NaN NaN NaN NaN 60.027 1 60.027 59.527 60.527 0 0 0 0 1.0003 1 27806 27806 1.4819 1.0236 1 + 13176 17712 8385 8407 15263 15263 0.19228586392614488 KKPRPLNRKWT 11 Unmodified _KKPRPLNRKWT_ 0 0 0 REV__ENST00000344824.10_2_19:16204506-16212133:+|nuORF REV__ENST00000344824.10_2_19:16204506-16212133:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 712.4332885742188 2 712.43587 1422.85719 NaN NaN NaN NaN NaN NaN NaN 70.531 1 70.531 70.031 71.031 0 0 0 0 1.0073 1 34238 34238 1.1933 0 1 + 13177 15500 8386 8408 15264 15264 0.1626720490767184 KKPRRPPK 8 Unmodified _KKPRRPPK_ 0 0 0 REV__ENST00000600714.5_1_19:53158930-53164070:-|nuORF REV__ENST00000600714.5_1_19:53158930-53164070:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.23486328125 2 503.83526 1005.65597 2.9409 0.0014817 -0.96035 -0.00048386 1.9805 0.00099786 504.33634721094484 73.208 0.044777 73.467 73.437 73.482 0.25876 8 5 2 0 0 0 0.14146 1 33616 33616 2.3027 0 1 363600 + 13178 17637 8387 8409 15265 15265 0.15336560661842213 KKPSPRRHRKK 11 Unmodified _KKPSPRRHRKK_ 0 0 0 REV__ENST00000496620.1_1_3:108044932-108045585:-|nuORF REV__ENST00000496620.1_1_3:108044932-108045585:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.73565673828125 3 473.304016 1416.89022 2.2469 0.0010635 -0.92174 -0.00043626 1.3251 0.0006272 473.3035334442318 70.481 0.051086 70.481 70.451 70.502 0 7 4 2 0 0 0 0.13295 1 34202 34202 1.1098 1.0264 1 1091900 + 13179 16852 8388 8410 15266 15266 0.19844831750378944 KKPTAQNPHRS 11 Unmodified _KKPTAQNPHRS_ 0 0 0 REV__ENSG00000179151|ENST00000315127|EDC3 REV__ENSG00000179151|ENST00000315127|EDC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.9018859863281 3 421.902065 1262.68437 NaN NaN NaN NaN NaN NaN NaN 65.188 1 65.897 65.397 66.397 0.70891 0 0 0 0.95688 1 30795 30795 5.8681 1.7515 1 + 13180 13786 8389 8411 15267 15267 0.06353213780448641 KKPTKQKRRHK 11 Unmodified _KKPTKQKRRHK_ 0 0 0 REV__ENSG00000196700|ENST00000369888|ZNF512B REV__ENSG00000196700|ENST00000369888|ZNF512B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 717.9598388671875 2 717.960043 1433.90553 3.7567 0.0026971 -3.3557 -0.0024093 0.40097 0.00028788 717.9576914314742 38.171 0.21696 38.171 37.987 38.204 0 17 7 3 0 0 0 0.89309 1 17289 17289 2.7352 1.2533 1 599080 + 13181 14238 8390 8412 15268 15268 0.20593698547577333 KKPTKQKRRHK 11 Unmodified _KKPTKQKRRHK_ 0 0 0 REV__ENSG00000196700|ENST00000369888|ZNF512B REV__ENSG00000196700|ENST00000369888|ZNF512B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 718.4635620117188 2 717.960043 1433.90553 3.7442 0.0026882 -1.5501 -0.0011129 2.1941 0.0015753 717.9584248965226 39.809 0.44429 39.809 39.672 40.116 0 43 19 3 0 0 0 0.91111 2 18052 18052;18184 1.1933 0.92432 1 703620 + 13182 14238 8390 8412 15269;15270 15269 0.20593698547577333 KKPTKQKRRHK 11 Unmodified _KKPTKQKRRHK_ 0 0 0 REV__ENSG00000196700|ENST00000369888|ZNF512B REV__ENSG00000196700|ENST00000369888|ZNF512B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 717.9613037109375 2 717.960043 1433.90553 3.9642 0.0028461 -1.484 -0.0010654 2.4802 0.0017807 717.9585335472567 37.297 0.31084 37.558 37.447 37.758 0.26083 18 9 2 0 0 0 0.91111 1 16994 16994 1.1933 0.88631 1 945100 + 13183 14238 8390 8412 15271 15271 0.20593698547577333 KKPTKQKRRHK 11 Unmodified _KKPTKQKRRHK_ 0 0 0 REV__ENSG00000196700|ENST00000369888|ZNF512B REV__ENSG00000196700|ENST00000369888|ZNF512B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 717.9638061523438 2 717.960043 1433.90553 3.8671 0.0027764 -2.2234 -0.0015963 1.6437 0.0011801 717.9584221869873 37.697 0.30452 37.958 37.789 38.093 0.26083 25 9 3 0 0 0 0.91111 3 17167 17167;17216;17226 1.1933 0.92432 1 427760 + 13184 14238 8390 8412 15272;15273;15274 15272 0.20593698547577333 KKPTKQKRRHK 11 Unmodified _KKPTKQKRRHK_ 0 0 0 REV__ENSG00000196700|ENST00000369888|ZNF512B REV__ENSG00000196700|ENST00000369888|ZNF512B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 718.292724609375 2 717.960043 1433.90553 3.7355 0.0026819 -1.6342 -0.0011733 2.1013 0.0015086 718.460394101842 39.091 0.58191 39.355 39.236 39.818 0.26408 45 23 3 0 0 0 0.91111 3 17798 17798;17859;17944 1.1933 0.88631 1 814980 + 13185 14238 8390 8412 15275;15276;15277 15275 0.20593698547577333 KKPTKQKRRHK 11 Unmodified _KKPTKQKRRHK_ 0 0 0 REV__ENSG00000196700|ENST00000369888|ZNF512B REV__ENSG00000196700|ENST00000369888|ZNF512B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 718.292724609375 2 717.960043 1433.90553 3.7355 0.0026819 -1.6342 -0.0011733 2.1013 0.0015086 718.460394101842 39.091 0.58191 39.355 39.236 39.818 0.26408 45 23 3 0 0 0 0.13295 1 17798 17798 1.1933 0.12188 1 814980 + 13186 14238 8390 8412 15278 15278 0.20593698547577333 KKPTKQKRRHK 11 Unmodified _KKPTKQKRRHK_ 0 0 0 REV__ENSG00000196700|ENST00000369888|ZNF512B REV__ENSG00000196700|ENST00000369888|ZNF512B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 717.9609375 2 717.960043 1433.90553 NaN NaN NaN NaN NaN NaN NaN 37.004 1 37.634 37.134 38.134 0.62999 0 0 0 1.0073 1 16938 16938 1.1933 0.92432 1 + 13187 14238 8390 8412 15279 15279 0.20593698547577333 KKPTKQKRRHK 11 Unmodified _KKPTKQKRRHK_ 0 0 0 REV__ENSG00000196700|ENST00000369888|ZNF512B REV__ENSG00000196700|ENST00000369888|ZNF512B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 717.960043 1433.90553 3.7567 0.0026971 -3.3557 -0.0024093 0.40097 0.00028788 717.9576914314742 38.171 0.21696 38.171 37.987 38.204 0 0.10659 -0.0010008 NaN 2.7352 17 7 3 NaN NaN NaN NaN 0 NaN NaN 0 599080 + 13188 14238 8390 8412 0.20593698547577333 KKPTKQKRRHK 11 Unmodified _KKPTKQKRRHK_ 0 0 0 REV__ENSG00000196700|ENST00000369888|ZNF512B REV__ENSG00000196700|ENST00000369888|ZNF512B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 717.960043 1433.90553 3.8671 0.0027764 -2.2234 -0.0015963 1.6437 0.0011801 717.9584221869873 37.697 0.30452 37.958 37.789 38.093 0.26083 -0.10659 0.00062514 NaN 2.7352 25 9 3 NaN NaN NaN NaN 0 NaN NaN 0 427760 + 13189 14238 8390 8412 0.20593698547577333 KKPTKQKRRHK 11 Unmodified _KKPTKQKRRHK_ 0 0 0 REV__ENSG00000196700|ENST00000369888|ZNF512B REV__ENSG00000196700|ENST00000369888|ZNF512B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 717.960043 1433.90553 3.9642 0.0028461 -1.484 -0.0010654 2.4802 0.0017807 717.9585335472567 37.297 0.31084 37.558 37.447 37.758 0.26083 -0.015725 -8.8628E-05 NaN 1.1933 18 9 2 NaN NaN NaN NaN 0 NaN NaN 0 945100 + 13190 14238 8390 8412 0.20593698547577333 KKPTKQKRRHK 11 Unmodified _KKPTKQKRRHK_ 0 0 0 REV__ENSG00000196700|ENST00000369888|ZNF512B REV__ENSG00000196700|ENST00000369888|ZNF512B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 717.960043 1433.90553 3.9827 0.0028594 -1.301 -0.00093404 2.6817 0.0019254 717.9587734814614 36.96 0.10769 37.59 37.491 37.598 0.62999 0.015725 0.00017415 NaN 1.1933 8 3 3 NaN NaN NaN NaN 0 NaN NaN 0 313530 + 13191 14238 8390 8412 0.20593698547577333 KKPVIIIF 8 Unmodified _KKPVIIIF_ 0 0 0 nc|ENSG00000120549|Q5T5P2-3|KIAA1217;ENSG00000120549|ENST00000376454|KIAA1217 nc|ENSG00000120549|Q5T5P2-3|KIAA1217 nc|ENSG00000120549|Q5T5P2-3|KIAA1217 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.3099060058594 2 479.328414 956.642274 NaN NaN NaN NaN NaN NaN NaN 72.685 1 73.349 72.849 73.849 0.66398 0 0 0 0.99035 1 33356 33356 2.3027 0 1 13192 2196 8391 8413 15280 15280 0.16221890110057302 KKPVQLPRGMV 11 Unmodified _KKPVQLPRGMV_ 0 0 0 nc|ENSG00000132964|P49336-2|CDK8;ENSG00000132964|ENST00000381527|CDK8 nc|ENSG00000132964|P49336-2|CDK8 nc|ENSG00000132964|P49336-2|CDK8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 626.8834838867188 2 626.88155 1251.74855 NaN NaN NaN NaN NaN NaN NaN 77.261 1 77.516 77.016 78.016 0.25533 0 0 0 1.0061 1 35581 35581 2.7352 1.2533 1 13193 2739 8392 8414 15281 15281 0.1327427761304989 KKPVRVFRLIT 11 Unmodified _KKPVRVFRLIT_ 0 0 0 nc|ENSG00000102038|P28370-2|SMARCA1;nc|ENSG00000102038|P28370|SMARCA1;ENSG00000102038|ENST00000371121|SMARCA1 nc|ENSG00000102038|P28370-2|SMARCA1 nc|ENSG00000102038|P28370-2|SMARCA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 678.9445190429688 2 678.945539 1355.87652 NaN NaN NaN NaN NaN NaN NaN 74.883 1 75.141 74.641 75.641 0.25831 0 0 0 1.0073 1 34446 34446 1.1933 0.84271 1 13194 1327 8393 8415 15282 15282 0.21282161198610083 KKPWKILVYFK 11 Unmodified _KKPWKILVYFK_ 0 0 0 ENST00000357613.8_1_16:75481071-75481158:-|nuORF ENST00000357613.8_1_16:75481071-75481158:-|nuORF ENST00000357613.8_1_16:75481071-75481158:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.80303955078125 3 483.970869 1448.89078 NaN NaN NaN NaN NaN NaN NaN 64.352 1 64.352 63.852 64.852 0 0 0 0 1.0079 1 30468 30468 0.40827 0.31342 1 13195 7180 8394 8416 15283 15283 0.18428813626860574 KKPYLELKD 9 Unmodified _KKPYLELKD_ 0 0 0 ENST00000485450.5_1_3:49315728-49349110:-|nuORF;nc|ENSG00000114316|Q13107-2|USP4;ENSG00000114316|ENST00000265560|USP4 ENST00000485450.5_1_3:49315728-49349110:-|nuORF ENST00000485450.5_1_3:49315728-49349110:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.3319091796875 2 567.331882 1132.64921 3.0406 0.001725 -2.095 -0.0011885 0.94563 0.00053649 567.3303190663731 103.36 0.17336 103.36 103.35 103.52 0 22 12 3 0 0 0 1.129 1 57003 57003 1.8442 1.1539 1 799450 13196 1896 8395 8417 15284 15284 0.0881915819995811 KKPYLELKD 9 Unmodified _KKPYLELKD_ 0 0 0 ENST00000485450.5_1_3:49315728-49349110:-|nuORF;nc|ENSG00000114316|Q13107-2|USP4;ENSG00000114316|ENST00000265560|USP4 ENST00000485450.5_1_3:49315728-49349110:-|nuORF ENST00000485450.5_1_3:49315728-49349110:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 567.331882 1132.64921 4.3807 0.0024853 -2.9292 -0.0016618 1.4515 0.00082348 567.330323397266 103.06 0.16711 103.37 103.26 103.42 0.31863 -0.11637 -0.00049892 NaN 1.8442 13 5 3 NaN NaN NaN NaN 0 NaN NaN 0 967000 13197 1896 8395 8417 0.0881915819995811 KKQEEKQK 8 Unmodified _KKQEEKQK_ 0 0 0 REV__ENSG00000232112|ENST00000438607|TMA7 REV__ENSG00000232112|ENST00000438607|TMA7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.3058471679688 2 523.303655 1044.59276 3.1871 0.0016678 0.58237 0.00030475 3.7695 0.0019726 523.3038944277339 78.776 0.97421 79.027 78.657 79.631 0.25127 105 65 2 0 0 0 0.74709 1 36534 36534 2.0598 0 1 425110 + 13198 14552 8396 8418 15285 15285 0.07224530363282611 KKQEKKQE 8 Unmodified _KKQEKKQE_ 0 0 0 ENSG00000128408|ENST00000614167|RIBC2 ENSG00000128408|ENST00000614167|RIBC2 ENSG00000128408|ENST00000614167|RIBC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.305908203125 2 523.303655 1044.59276 3.2617 0.0017068 0.63364 0.00033159 3.8953 0.0020384 523.3038949148232 82.542 0.70215 82.79 82.54 83.242 0.24722 57 36 2 0 0 0 0.68261 1 38109 38109 7.2892 0 1 652000 13199 2511 8397 8419 15286 15286 0.07224530363305348 KKQEVKEAPPR 11 Unmodified _KKQEVKEAPPR_ 0 0 0 nc|ENSG00000158560|O14576-4|DYNC1I1;nc|ENSG00000158560|O14576-3|DYNC1I1;nc|ENSG00000158560|O14576-5|DYNC1I1;ENSG00000158560|ENST00000447467|DYNC1I1;nc|ENSG00000158560|O14576|DYNC1I1 nc|ENSG00000158560|O14576-4|DYNC1I1 nc|ENSG00000158560|O14576-4|DYNC1I1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.38525390625 2 655.382968 1308.75138 4.4039 0.0028862 -0.77274 -0.00050644 3.6311 0.0023798 655.3824689708856 93.777 0.80315 94.032 93.803 94.606 0.25497 133 38 4 0 0 0 0.91328 1 43125 43125 0 0 1 4380800 13200 3990 8398 8420 15287 15287 0.10935824271541605 KKQEVKEAPPR 11 Unmodified _KKQEVKEAPPR_ 0 0 0 nc|ENSG00000158560|O14576-4|DYNC1I1;nc|ENSG00000158560|O14576-3|DYNC1I1;nc|ENSG00000158560|O14576-5|DYNC1I1;ENSG00000158560|ENST00000447467|DYNC1I1;nc|ENSG00000158560|O14576|DYNC1I1 nc|ENSG00000158560|O14576-4|DYNC1I1 nc|ENSG00000158560|O14576-4|DYNC1I1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.3851318359375 2 655.382968 1308.75138 4.45 0.0029164 -0.70531 -0.00046225 3.7447 0.0024542 655.3825091827703 94.44 0.80049 94.7 94.589 95.39 0.25975 101 47 3 0 0 0 0.91328 1 43527 43527 0 0 1 1112300 13201 3990 8398 8420 15288 15288 0.10935824271541605 KKQHKKKKIK 10 Unmodified _KKQHKKKKIK_ 0 0 0 REV__ENST00000523948.5_1_8:56686169-56737149:+|nuORF REV__ENST00000523948.5_1_8:56686169-56737149:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 647.44775390625 2 647.445706 1292.87686 4.6082 0.0029836 -1.5674 -0.0010148 3.0409 0.0019688 647.4447471358052 105.36 0.10031 105.68 105.61 105.71 0.31782 13 5 3 0 0 0 0.94246 1 48637 48637 0.40072 0 1 1764600 + 13202 12118 8399 8421 15289 15289 0.24213580918444677 KKQHKKKKIK 10 Unmodified _KKQHKKKKIK_ 0 0 0 REV__ENST00000523948.5_1_8:56686169-56737149:+|nuORF REV__ENST00000523948.5_1_8:56686169-56737149:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 647.445706 1292.87686 4.6082 0.0029836 -1.5674 -0.0010148 3.0409 0.0019688 647.4447471358052 105.36 0.10031 105.68 105.61 105.71 0.31782 -0.10982 0.00011766 NaN 0.40072 13 5 3 NaN NaN NaN NaN 0 NaN NaN 0 1764600 + 13203 12118 8399 8421 0.24213580918444677 KKQHKKKKIK 10 Unmodified _KKQHKKKKIK_ 0 0 0 REV__ENST00000523948.5_1_8:56686169-56737149:+|nuORF REV__ENST00000523948.5_1_8:56686169-56737149:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 647.445706 1292.87686 4.141 0.0026811 -1.9258 -0.0012468 2.2152 0.0014342 647.4448462828186 105.3 0.080307 105.9 105.85 105.93 0.59969 0.10982 -0.00034643 NaN 0.40072 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 507910 + 13204 12118 8399 8421 0.24213580918444677 KKQILLILR 9 Unmodified _KKQILLILR_ 0 0 0 ENST00000354566.7_1_11:85436805-85436946:-|nuORF ENST00000354566.7_1_11:85436805-85436946:-|nuORF ENST00000354566.7_1_11:85436805-85436946:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.7880859375 2 562.897526 1123.7805 NaN NaN NaN NaN NaN NaN NaN 69.721 1 70.424 69.924 70.924 0.70302 0 0 0 0.90699 1 33379 33379 1.8442 0.36234 1 13205 7143 8400 8422 15290 15290 0.22356013358512428 KKQIVSYI 8 Unmodified _KKQIVSYI_ 0 0 0 REV__ENSG00000054219|ENST00000263636|LY75 REV__ENSG00000054219|ENST00000263636|LY75 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 326.8716125488281 3 326.870932 977.590967 1.9002 0.00062113 0.14339 4.6869E-05 2.0436 0.000668 326.87098594932314 12.857 0.13113 13.119 13.05 13.181 0.26154 29 10 3 0 0 0 0.45037 1 5577 5577 19.257 1.1106 1 5620100 + 13206 10361 8401 8423 15291 15291 0.1012752134532775 KKQIVSYI 8 Unmodified _KKQIVSYI_ 0 0 0 REV__ENSG00000054219|ENST00000263636|LY75 REV__ENSG00000054219|ENST00000263636|LY75 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 326.8716735839844 3 326.870932 977.590967 1.7124 0.00055974 0.045386 1.4835E-05 1.7578 0.00057457 326.8710211135529 12.799 0.21974 13.107 12.996 13.216 0.30727 19 6 4 0 0 0 0.45037 1 5794 5794 19.257 4.0085 1 2802300 + 13207 10361 8401 8423 15292 15292 0.1012752134532775 KKQLAPYL 8 Unmodified _KKQLAPYL_ 0 0 0 nc|ENSG00000198862|O94822-2|LTN1;LTN1|p.S465Kfs*13|1|0.33|ENSG00000198862|chr21:28967099-28967100|-/A|frameshift_variant;ENSG00000198862|ENST00000361371|LTN1;nc|ENSG00000198862|O94822-3|LTN1 nc|ENSG00000198862|O94822-2|LTN1 nc|ENSG00000198862|O94822-2|LTN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 320.8681945800781 3 320.867411 959.580402 2.2106 0.0007093 -0.10949 -3.5133E-05 2.1011 0.00067417 320.86739090379626 13.263 0.16468 13.263 13.168 13.333 0 20 13 2 0 0 0 0.58952 1 5793 5793 14.838 4.0143 1 278130 13208 5952 8402 8424 15293 15293 0.09899538690888221 KKQLAPYL 8 Unmodified _KKQLAPYL_ 0 0 0 nc|ENSG00000198862|O94822-2|LTN1;LTN1|p.S465Kfs*13|1|0.33|ENSG00000198862|chr21:28967099-28967100|-/A|frameshift_variant;ENSG00000198862|ENST00000361371|LTN1;nc|ENSG00000198862|O94822-3|LTN1 nc|ENSG00000198862|O94822-2|LTN1 nc|ENSG00000198862|O94822-2|LTN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 320.8671569824219 3 320.867411 959.580402 1.8834 0.00060432 -1.484 -0.00047618 0.39937 0.00012815 320.8668824125714 12.845 0.087141 13.107 13.05 13.137 0.26154 8 6 2 0 0 0 0.57648 1 5604 5604 15.847 5.0233 1 612760 13209 5952 8402 8424 15294 15294 0.09899538690888221 KKQLKVFAKK 10 Unmodified _KKQLKVFAKK_ 0 0 0 nc|ENSG00000197535|Q9Y4I1-2|MYO5A;nc|ENSG00000197535|Q9Y4I1|MYO5A;ENSG00000197535|ENST00000399233|MYO5A nc|ENSG00000197535|Q9Y4I1-2|MYO5A nc|ENSG00000197535|Q9Y4I1-2|MYO5A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 609.407470703125 2 609.408258 1216.80196 NaN NaN NaN NaN NaN NaN NaN 67.004 1 67.004 66.504 67.504 0 0 0 0 0.99846 1 32064 32064 2.9952 1.3426 1 13210 5823 8403 8425 15295 15295 0.20223398387201996 KKQLQRMRKKR 11 Unmodified _KKQLQRMRKKR_ 0 0 0 REV__ENSG00000135372|ENST00000257829|NAT10 REV__ENSG00000135372|ENST00000257829|NAT10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.0211181640625 3 500.652428 1498.93545 NaN NaN NaN NaN NaN NaN NaN 64.078 1 64.793 64.293 65.293 0.71521 0 0 0 1.0074 1 30137 30137 1.1098 0.78048 1 + 13211 12012 8404 8426 15296 15296 0.20594314221239074 KKQLSSDISSD 11 Unmodified _KKQLSSDISSD_ 0 0 0 nc|ENSG00000204403|Q6UXS9-7|CASP12;nc|ENSG00000204403|Q6UXS9-5|CASP12;nc|ENSG00000204403|Q6UXS9|CASP12;nc|ENSG00000204403|Q6UXS9-6|CASP12;nc|ENSG00000204403|Q6UXS9-4|CASP12 nc|ENSG00000204403|Q6UXS9-7|CASP12 nc|ENSG00000204403|Q6UXS9-7|CASP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 403.21990966796875 3 403.210342 1206.6092 NaN NaN NaN NaN NaN NaN NaN 104.03 1 104.03 103.53 104.53 0 0 0 0 1.0073 1 57283 57283 0.40827 0 1 13212 9813 8405 8427 15297 15297 0.014155667387285575 KKQPKIRHRIL 11 Unmodified _KKQPKIRHRIL_ 0 0 0 nc|ENSG00000153339|Q9Y2L5-2|TRAPPC8;ENSG00000153339|ENST00000283351|TRAPPC8 nc|ENSG00000153339|Q9Y2L5-2|TRAPPC8 nc|ENSG00000153339|Q9Y2L5-2|TRAPPC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 708.967529296875 2 708.967337 1415.92012 NaN NaN NaN NaN NaN NaN NaN 68.448 1 69.15 68.65 69.65 0.70218 0 0 0 1.008 1 32633 32633 0.30703 0 1 13213 3785 8406 8428 15298 15298 0.2287977069572662 KKQRQRKRKEI 11 Unmodified _KKQRQRKRKEI_ 0 0 0 REV__ENSG00000022840|ENST00000325954|RNF10 REV__ENSG00000022840|ENST00000325954|RNF10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.98870849609375 3 499.986464 1496.93756 NaN NaN NaN NaN NaN NaN NaN 62.629 1 62.629 62.129 63.129 0 0 0 0 1.0072 1 29367 29367 0.45452 0 1 + 13214 10267 8407 8429 15299 15299 0.20897066230736527 KKQSIRKKQ 9 Unmodified _KKQSIRKKQ_ 0 0 0 REV__ENST00000414070.1_1_1:109535017-109535455:+|nuORF REV__ENST00000414070.1_1_1:109535017-109535455:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.9154968261719 3 381.915535 1142.72478 NaN NaN NaN NaN NaN NaN NaN 47.584 1 47.847 47.347 48.347 0.26363 0 0 0 0.90431 1 21745 21745 2.4985 1.5362 1 + 13215 16119 8408 8430 15300 15300 0.15912180170880674 KKQVTPLFIH 10 Unmodified _KKQVTPLFIH_ 0 0 0 ENSG00000166825|ENST00000300060|ANPEP ENSG00000166825|ENST00000300060|ANPEP ENSG00000166825|ENST00000300060|ANPEP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.2497863769531 3 404.248403 1209.72338 2.4546 0.00099226 1.2613 0.00050989 3.7159 0.0015022 404.2488808941668 60.031 0.30153 60.031 60.002 60.304 0 43 35 2 0 0 0 0.90216 2 27813 27813;27906 3.5871 0.74377 1 6782300 13216 4509 8409 8431 15301;15302 15301 0.12690546082126275 KKQVTPLFIH 10 Unmodified _KKQVTPLFIH_ 0 0 0 ENSG00000166825|ENST00000300060|ANPEP ENSG00000166825|ENST00000300060|ANPEP ENSG00000166825|ENST00000300060|ANPEP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.2502136230469 3 404.248403 1209.72338 3.0022 0.0012136 0.73199 0.00029591 3.7342 0.0015095 404.2486618012129 59.4 0.28392 59.66 59.542 59.826 0.2593 29 11 3 0 0 0 0.90216 2 27192 27192;27249 3.5871 3.5871 1 5402400 13217 4509 8409 8431 15303;15304 15303 0.12690546082126275 KKQVTPLFIH 10 Unmodified _KKQVTPLFIH_ 0 0 0 ENSG00000166825|ENST00000300060|ANPEP ENSG00000166825|ENST00000300060|ANPEP ENSG00000166825|ENST00000300060|ANPEP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.2494201660156 3 404.248403 1209.72338 3.0145 0.0012186 0.98785 0.00039934 4.0024 0.001618 404.248775695599 59.718 0.32105 59.978 59.782 60.103 0.2593 35 20 2 0 0 0 0.90216 2 27299 27299;27348 3.5871 0.74377 1 3248600 13218 4509 8409 8431 15305;15306 15305 0.12690546082126275 KKQVTPLFIH 10 Unmodified _KKQVTPLFIH_ 0 0 0 ENSG00000166825|ENST00000300060|ANPEP ENSG00000166825|ENST00000300060|ANPEP ENSG00000166825|ENST00000300060|ANPEP MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 404.248403 1209.72338 2.3393 0.00094567 1.3181 0.00053282 3.6574 0.0014785 404.2487553309043 59.232 0.42297 59.991 59.779 60.202 0.75894 0.27512 0.00023231 NaN 3.5871 84 30 4 NaN NaN NaN NaN 0 NaN NaN 0 2230500 13219 4509 8409 8431 0.12690546082126275 KKQVTPLFIH 10 Unmodified _KKQVTPLFIH_ 0 0 0 ENSG00000166825|ENST00000300060|ANPEP ENSG00000166825|ENST00000300060|ANPEP ENSG00000166825|ENST00000300060|ANPEP MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 404.248403 1209.72338 2.3246 0.0009397 1.2343 0.00049896 3.5588 0.0014387 404.248839671093 59.528 0.27773 60.278 60.168 60.445 0.74927 0.23927 -3.1737E-06 NaN 3.5871 50 19 3 NaN NaN NaN NaN 0 NaN NaN 0 1824100 13220 4509 8409 8431 0.12690546082126275 KKQVTPLFIH 10 Unmodified _KKQVTPLFIH_ 0 0 0 ENSG00000166825|ENST00000300060|ANPEP ENSG00000166825|ENST00000300060|ANPEP ENSG00000166825|ENST00000300060|ANPEP MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 404.248403 1209.72338 2.9583 0.0011959 1.3017 0.0005262 4.26 0.0017221 404.24884650836873 58.831 0.46661 59.498 59.266 59.732 0.66703 -0.21845 0.00021243 NaN 3.5871 59 21 3 NaN NaN NaN NaN 0 NaN NaN 0 2823200 13221 4509 8409 8431 0.12690546082126275 KKQVTPLFIH 10 Unmodified _KKQVTPLFIH_ 0 0 0 ENSG00000166825|ENST00000300060|ANPEP ENSG00000166825|ENST00000300060|ANPEP ENSG00000166825|ENST00000300060|ANPEP MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 404.248403 1209.72338 2.9502 0.0011926 1.3911 0.00056234 4.3413 0.001755 404.2489709064089 59.2 0.24255 59.867 59.717 59.959 0.66703 -0.17178 0.00018697 NaN 3.5871 21 11 2 NaN NaN NaN NaN 0 NaN NaN 0 4383600 13222 4509 8409 8431 0.12690546082126275 KKQWWTKFSRR 11 Unmodified _KKQWWTKFSRR_ 0 0 0 REV__ENST00000534210.6_1_11:6559916-6579528:+|nuORF REV__ENST00000534210.6_1_11:6559916-6579528:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 517.6295166015625 3 517.628276 1549.863 NaN NaN NaN NaN NaN NaN NaN 89.777 1 89.841 89.341 90.341 0.064346 0 0 0 1.0079 1 46083 46083 0.40827 0.24894 1 + 13223 13800 8410 8432 15307 15307 0.11006303419344476 KKQYLKTK 8 Unmodified _KKQYLKTK_ 0 0 0 nc|ENSG00000163092|A4UGR9-2|XIRP2;nc|ENSG00000163092|A4UGR9-3|XIRP2;nc|ENSG00000163092|A4UGR9|XIRP2;ENSG00000163092|ENST00000409195|XIRP2 nc|ENSG00000163092|A4UGR9-2|XIRP2 nc|ENSG00000163092|A4UGR9-2|XIRP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 346.2236633300781 3 346.221965 1035.64407 NaN NaN NaN NaN NaN NaN NaN 19.269 1 19.567 19.067 20.067 0.29753 0 0 0 0.99035 1 8762 8762 0.40072 0 1 13224 4189 8411 8433 15308 15308 0.12766899127996112 KKRAGAQQQRR 11 Unmodified _KKRAGAQQQRR_ 0 0 0 REV__ENST00000307403.6_1_7:155532339-155538302:+|nuORF REV__ENST00000307403.6_1_7:155532339-155538302:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.8975830078125 2 663.8949 1325.77525 4.1405 0.0027489 0.53731 0.00035671 4.6778 0.0031056 663.8952908456082 93.364 0.79803 93.995 93.698 94.496 0.63115 106 38 4 0 0 0 0.91345 1 43105 43105 0.30703 0.30703 1 2955600 + 13225 13989 8412 8434 15309 15309 0.12539102548589653 KKRATAGK 8 Unmodified _KKRATAGK_ 0 0 0 REV__ENST00000436545.5_1_17:41116178-41116429:-|nuORF REV__ENST00000436545.5_1_17:41116178-41116429:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 430.2787780761719 2 430.277244 858.539935 NaN NaN NaN NaN NaN NaN NaN 42.931 1 43.745 43.245 44.245 0.81444 0 0 0 0.99035 1 19520 19520 2.3027 0 1 + 13226 16308 8413 8435 15310 15310 0.1050061709113379 KKRATAGK 8 Unmodified _KKRATAGK_ 0 0 0 REV__ENST00000436545.5_1_17:41116178-41116429:-|nuORF REV__ENST00000436545.5_1_17:41116178-41116429:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.27880859375 2 430.277244 858.539935 2.7959 0.001203 0.69779 0.00030024 3.4936 0.0015032 430.27755856513534 45.495 0.6382 45.762 45.274 45.912 0.26768 31 25 2 0 0 0 0.70799 2 20760 20760;20814 5.2307 0 1 987950 + 13227 16308 8413 8435 15311;15312 15311 0.1050061709113379 KKRATAGK 8 Unmodified _KKRATAGK_ 0 0 0 REV__ENST00000436545.5_1_17:41116178-41116429:-|nuORF REV__ENST00000436545.5_1_17:41116178-41116429:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.2786865234375 2 430.277244 858.539935 NaN NaN NaN NaN NaN NaN NaN 44.343 1 44.612 44.112 45.112 0.2694 0 0 0 0.99035 1 20268 20268 5.2307 0 1 + 13228 16308 8413 8435 15313 15313 0.1050061709113379 KKRATAGK 8 Unmodified _KKRATAGK_ 0 0 0 REV__ENST00000436545.5_1_17:41116178-41116429:-|nuORF REV__ENST00000436545.5_1_17:41116178-41116429:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.27935791015625 2 430.277244 858.539935 3.2935 0.0014171 0.24837 0.00010687 3.5419 0.001524 430.2774163432029 40.051 0.29834 40.693 40.527 40.826 0.64135 17 10 2 0 0 0 0.70799 2 18274 18274;18333 5.2307 0 1 1984700 + 13229 16308 8413 8435 15314;15315 15314 0.1050061709113379 KKRATAGK 8 Unmodified _KKRATAGK_ 0 0 0 REV__ENST00000436545.5_1_17:41116178-41116429:-|nuORF REV__ENST00000436545.5_1_17:41116178-41116429:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.53009033203125 2 430.277244 858.539935 NaN NaN NaN NaN NaN NaN NaN 42.86 1 43.507 43.007 44.007 0.64693 0 0 0 0.99035 1 19641 19641 5.2307 0 1 + 13230 16308 8413 8435 15316 15316 0.1050061709113379 KKRATAGK 8 Unmodified _KKRATAGK_ 0 0 0 REV__ENST00000436545.5_1_17:41116178-41116429:-|nuORF REV__ENST00000436545.5_1_17:41116178-41116429:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.5308837890625 2 430.277244 858.539935 3.2183 0.0013848 1.0386 0.00044688 4.2569 0.0018316 430.27787704913106 44.908 0.57999 45.558 45.04 45.62 0.64998 26 21 2 0 0 0 0.14146 1 20550 20550 5.2307 0 1 462980 + 13231 16308 8413 8435 15317 15317 0.1050061709113379 KKRATAGK 8 Unmodified _KKRATAGK_ 0 0 0 REV__ENST00000436545.5_1_17:41116178-41116429:-|nuORF REV__ENST00000436545.5_1_17:41116178-41116429:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 430.277244 858.539935 2.7959 0.001203 0.69779 0.00030024 3.4936 0.0015032 430.27755856513534 45.495 0.6382 45.762 45.274 45.912 0.26768 0.10219 -0.00011059 NaN 5.2307 31 25 2 NaN NaN NaN NaN 0 NaN NaN 0 987950 + 13232 16308 8413 8435 0.1050061709113379 KKRATDDP 8 Unmodified _KKRATDDP_ 0 0 0 REV__nc|ENSG00000162105|Q9UPX8-2|SHANK2 REV__nc|ENSG00000162105|Q9UPX8-2|SHANK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.9443664550781 2 465.753798 929.493044 NaN NaN NaN NaN NaN NaN NaN 62.627 1 62.627 62.127 63.127 0 0 0 0 0.9101 1 29366 29366 11.64 0.81637 1 + 13233 12925 8414 8436 15318 15318 0.025477127493331864 KKRATRRT 8 Unmodified _KKRATRRT_ 0 0 0 nc|ENSG00000100731|Q96RV3-4|PCNX1;nc|ENSG00000100731|Q96RV3-3|PCNX1;ENSG00000100731|ENST00000304743|PCNX1;nc|ENSG00000100731|Q96RV3-2|PCNX1;ENST00000554879.5_1_14:71374480-71476401:+|nuORF nc|ENSG00000100731|Q96RV3-4|PCNX1 nc|ENSG00000100731|Q96RV3-4|PCNX1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.3858642578125 3 339.552708 1015.63629 2.4551 0.00083365 0.65777 0.00022335 3.1129 0.001057 339.55245514167626 48.965 0.083515 49.62 49.551 49.635 0.65524 4 2 2 0 0 0 0.14244 1 22393 22393 3.5965 0 1 206920 13234 1239 8415 8437 15319 15319 0.1291018465108209 KKRATVPSRV 10 Unmodified _KKRATVPSRV_ 0 0 0 REV__ENST00000567998.5_1_16:28621482-28621938:-|nuORF REV__ENST00000567998.5_1_16:28621482-28621938:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.2430114746094 3 381.243652 1140.70913 NaN NaN NaN NaN NaN NaN NaN 70.809 1 71.065 70.565 71.565 0.25642 0 0 0 0.99774 1 32428 32428 1.7423 0.26037 1 + 13235 17431 8416 8438 15320 15320 0.14439893653843683 KKREAEFL 8 Unmodified _KKREAEFL_ 0 0 0 MYH3|p.N1505Tfs*2|1|0.27|ENSG00000109063|chr17:10634027-10634027|C/-|frameshift_variant;MYH3|p.N1503Kfs*16|1|0.26|ENSG00000109063|chr17:10634029-10634030|TA/-|frameshift_variant;ENSG00000109063|ENST00000583535|MYH3 MYH3|p.N1505Tfs*2|1|0.27|ENSG00000109063|chr17:10634027-10634027|C/-|frameshift_variant MYH3|p.N1505Tfs*2|1|0.27|ENSG00000109063|chr17:10634027-10634027|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 340.8669738769531 3 340.86607 1019.57638 1.956 0.00066675 0.29908 0.00010195 2.2551 0.0007687 340.8662117337072 13.262 0.34163 13.569 13.388 13.729 0.30727 74 23 4 0 0 0 0.15009 1 5996 5996 39.95 3.4435 1 2872700 13236 1665 8417 8439 15321 15321 0.06737449197191836 KKREAEFL 8 Unmodified _KKREAEFL_ 0 0 0 MYH3|p.N1505Tfs*2|1|0.27|ENSG00000109063|chr17:10634027-10634027|C/-|frameshift_variant;MYH3|p.N1503Kfs*16|1|0.26|ENSG00000109063|chr17:10634029-10634030|TA/-|frameshift_variant;ENSG00000109063|ENST00000583535|MYH3 MYH3|p.N1505Tfs*2|1|0.27|ENSG00000109063|chr17:10634027-10634027|C/-|frameshift_variant MYH3|p.N1505Tfs*2|1|0.27|ENSG00000109063|chr17:10634027-10634027|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 340.8669738769531 3 340.86607 1019.57638 2.558 0.00087193 -0.038331 -1.3066E-05 2.5197 0.00085887 340.86609715585615 12.987 0.31233 13.63 13.413 13.725 0.64272 22 9 4 0 0 0 0.23923 1 5830 5830 32.786 5.1569 1 4867000 13237 1665 8417 8439 15322 15322 0.06737449197191836 KKREAEFL 8 Unmodified _KKREAEFL_ 0 0 0 MYH3|p.N1505Tfs*2|1|0.27|ENSG00000109063|chr17:10634027-10634027|C/-|frameshift_variant;MYH3|p.N1503Kfs*16|1|0.26|ENSG00000109063|chr17:10634029-10634030|TA/-|frameshift_variant;ENSG00000109063|ENST00000583535|MYH3 MYH3|p.N1505Tfs*2|1|0.27|ENSG00000109063|chr17:10634027-10634027|C/-|frameshift_variant MYH3|p.N1505Tfs*2|1|0.27|ENSG00000109063|chr17:10634027-10634027|C/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 340.86607 1019.57638 2.0598 0.0007021 0.14065 4.7941E-05 2.2004 0.00075004 340.86618395029905 13.324 0.21599 13.567 13.439 13.655 0.24346 -0.021631 -1.3402E-05 NaN 39.95 42 16 3 NaN NaN NaN NaN 0 NaN NaN 0 985380 13238 1665 8417 8439 0.06737449197191836 KKREKHREKWR 11 Unmodified _KKREKHREKWR_ 0 0 0 ENST00000330736.9_1_16:89334888-89371640:-|nuORF;ENSG00000167522|ENST00000301030|ANKRD11 ENST00000330736.9_1_16:89334888-89371640:-|nuORF ENST00000330736.9_1_16:89334888-89371640:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 790.9693603515625 2 790.965857 1579.91716 NaN NaN NaN NaN NaN NaN NaN 60.368 1 61.118 60.618 61.618 0.74927 0 0 0 1.008 1 27840 27840 0.30703 0.30703 1 13239 4558 8418 8440 15323 15323 0.15039895570907902 KKRERKFYWKR 11 Unmodified _KKRERKFYWKR_ 0 0 0 ENST00000394507.5_2_7:91870378-91871424:-|nuORF ENST00000394507.5_2_7:91870378-91871424:-|nuORF ENST00000394507.5_2_7:91870378-91871424:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 813.0401000976562 2 812.980976 1623.9474 NaN NaN NaN NaN NaN NaN NaN 81.875 1 81.959 81.459 82.459 0.084106 0 0 0 1.008 1 40321 40321 0.30703 0.30703 1 13240 7542 8419 8441 15324 15324 0.16038254236104876 KKRERKFYWKR 11 Unmodified _KKRERKFYWKR_ 0 0 0 ENST00000394507.5_2_7:91870378-91871424:-|nuORF ENST00000394507.5_2_7:91870378-91871424:-|nuORF ENST00000394507.5_2_7:91870378-91871424:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 812.9796752929688 2 812.980976 1623.9474 NaN NaN NaN NaN NaN NaN NaN 92.725 1 92.978 92.478 93.478 0.25253 0 0 0 1.008 1 42622 42622 0.30703 0.30703 1 13241 7542 8419 8441 15325 15325 0.16038254236104876 KKRGKKKK 8 Unmodified _KKRGKKKK_ 0 0 0 ENSG00000099875|ENST00000250896|MKNK2;nc|ENSG00000099875|Q9HBH9-2|MKNK2 ENSG00000099875|ENST00000250896|MKNK2 ENSG00000099875|ENST00000250896|MKNK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.85662841796875 2 500.858735 999.702918 NaN NaN NaN NaN NaN NaN NaN 82.489 1 82.574 82.074 83.074 0.084106 0 0 0 0.99035 1 40746 40746 2.3027 0 1 13242 1157 8420 8442 15326 15326 0.20305420212980607 KKRIHRKRHRF 11 Unmodified _KKRIHRKRHRF_ 0 0 0 REV__ENSG00000186496|ENST00000589332|ZNF396 REV__ENSG00000186496|ENST00000589332|ZNF396 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 781.4926147460938 2 781.492376 1560.9702 NaN NaN NaN NaN NaN NaN NaN 69.971 1 70.674 70.174 71.174 0.70302 0 0 0 1.0082 1 33508 33508 0 0 1 + 13243 14059 8421 8443 15327 15327 0.21215318144231787 KKRIIEKVIH 10 Unmodified _KKRIIEKVIH_ 0 0 0 ENSG00000076003|ENST00000264156|MCM6 ENSG00000076003|ENST00000264156|MCM6 ENSG00000076003|ENST00000264156|MCM6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 632.1744384765625 2 632.416614 1262.81868 NaN NaN NaN NaN NaN NaN NaN 66.286 1 66.286 65.786 66.786 0 0 0 0 0.99774 1 31666 31666 3.5965 0.31518 1 13244 841 8422 8444 15328 15328 0.1977789927318554 KKRIIEKVIHR 11 Unmodified _KKRIIEKVIHR_ 0 0 0 ENSG00000076003|ENST00000264156|MCM6 ENSG00000076003|ENST00000264156|MCM6 ENSG00000076003|ENST00000264156|MCM6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 710.701904296875 2 710.46717 1418.91979 NaN NaN NaN NaN NaN NaN NaN 70.311 1 70.311 69.811 70.811 0 0 0 0 1.0063 1 34094 34094 2.4985 1.3051 1 13245 841 8423 8445 15329 15329 0.2270835097588133 KKRIIEKVIHR 11 Unmodified _KKRIIEKVIHR_ 0 0 0 ENSG00000076003|ENST00000264156|MCM6 ENSG00000076003|ENST00000264156|MCM6 ENSG00000076003|ENST00000264156|MCM6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 710.427001953125 2 710.46717 1418.91979 NaN NaN NaN NaN NaN NaN NaN 67.328 1 68.03 67.53 68.53 0.70218 0 0 0 1.0063 1 31996 31996 2.4985 1.3051 1 13246 841 8423 8445 15330 15330 0.2270835097588133 KKRIIKLL 8 Unmodified _KKRIIKLL_ 0 0 0 ENSG00000140030|ENST00000267549|GPR65 ENSG00000140030|ENST00000267549|GPR65 ENSG00000140030|ENST00000267549|GPR65 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.3760070800781 2 506.373687 1010.73282 NaN NaN NaN NaN NaN NaN NaN 74.859 1 75.522 75.022 76.022 0.6635 0 0 0 0.99035 1 36198 36198 0.69038 0 1 13247 3179 8424 8446 15331 15331 0.227883591583236 KKRIRILL 8 Unmodified _KKRIRILL_ 0 0 0 ENST00000450917.1_1_2:3523627-3523702:+|nuORF ENST00000450917.1_1_2:3523627-3523702:+|nuORF ENST00000450917.1_1_2:3523627-3523702:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.3748779296875 2 520.376761 1038.73897 NaN NaN NaN NaN NaN NaN NaN 78.764 1 79.229 78.729 79.729 0.4642 0 0 0 0.99035 1 38333 38333 0.69038 0.69038 1 13248 8013 8425 8447 15332 15332 0.22114877389844878 KKRKFKNLKKM 11 Unmodified _KKRKFKNLKKM_ 0 0 0 REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.9820251464844 3 483.646391 1447.91734 3.147 0.001522 0.57074 0.00027604 3.7177 0.0017981 483.64659122366703 43.065 0.26825 43.065 42.846 43.114 0 39 14 4 0 0 0 0.91345 2 19594 19548;19594 0.45452 0.31463 1 8406400 + 13249 17802 8426 8448 15333;15334 15334 0.2113017924655196 KKRKFKNLKKM 11 Unmodified _KKRKFKNLKKM_ 0 0 0 REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 724.969482421875 2 724.965948 1447.91734 3.6174 0.0026225 1.0363 0.00075126 4.6536 0.0033737 724.9665577357594 45.275 0.74227 45.275 45.069 45.811 0 100 37 3 0 0 0 0.91345 3 20715 20651;20715;20826 0.30703 0 1 2362500 + 13250 17802 8426 8448 15335;15336;15337 15336 0.2113017924655196 KKRKFKNLKKM 11 Unmodified _KKRKFKNLKKM_ 0 0 0 REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.647705078125 3 483.646391 1447.91734 3.1147 0.0015064 0.71266 0.00034467 3.8274 0.0018511 483.64658647783597 45.289 0.8598 45.289 45.052 45.912 0 149 43 4 0 0 0 0.91345 1 20685 20685 0.45452 0.29519 1 5265200 + 13251 17802 8426 8448 15338 15338 0.2113017924655196 KKRKFKNLKKM 11 Unmodified _KKRKFKNLKKM_ 0 0 0 REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.98297119140625 3 483.646391 1447.91734 3.0327 0.0014667 0.68766 0.00033258 3.7203 0.0017993 483.6464949575972 42.139 0.21749 42.948 42.751 42.968 0.80855 32 13 3 0 0 0 0.91345 1 19090 19090 0.45452 0.31463 1 5077800 + 13252 17802 8426 8448 15339 15339 0.2113017924655196 KKRKFKNLKKM 11 Unmodified _KKRKFKNLKKM_ 0 0 0 REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.98297119140625 3 483.646391 1447.91734 3.0327 0.0014667 0.68766 0.00033258 3.7203 0.0017993 483.6464949575972 42.139 0.21749 42.948 42.751 42.968 0.80855 32 13 3 0 0 0 0.13295 1 19090 19090 0.45452 0.31463 1 5077800 + 13253 17802 8426 8448 15340 15340 0.2113017924655196 KKRKFKNLKKM 11 Unmodified _KKRKFKNLKKM_ 0 0 0 REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 724.97216796875 2 724.965948 1447.91734 3.8743 0.0028087 0.58093 0.00042115 4.4552 0.0032299 724.9659870974099 42.758 0.34281 43.028 42.729 43.072 0.27021 43 17 4 0 0 0 0.91459 3 19413 19413;19461;19519 0 0 1 15561000 + 13254 17802 8426 8448 15341;15342;15343 15341 0.2113017924655196 KKRKFKNLKKM 11 Unmodified _KKRKFKNLKKM_ 0 0 0 REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.6479797363281 3 483.646391 1447.91734 2.9132 0.001409 0.58208 0.00028152 3.4953 0.0016905 483.64651903102026 44.73 1.012 44.998 44.666 45.678 0.26768 112 46 4 0 0 0 0.91345 2 20410 20350;20410 0.45452 0.29519 1 4562200 + 13255 17802 8426 8448 15344;15345 15345 0.2113017924655196 KKRKFKNLKKM 11 Unmodified _KKRKFKNLKKM_ 0 0 0 REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 724.9706420898438 2 724.965948 1447.91734 3.6405 0.0026393 0.35487 0.00025727 3.9954 0.0028965 724.965902900044 44.747 0.5895 45.014 44.666 45.255 0.26768 71 27 3 0 0 0 0.91459 1 20357 20357 0 0 1 2770900 + 13256 17802 8426 8448 15346 15346 0.2113017924655196 KKRKFKNLKKM 11 Unmodified _KKRKFKNLKKM_ 0 0 0 REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 724.9692993164062 2 724.965948 1447.91734 3.683 0.00267 0.74058 0.0005369 4.4236 0.0032069 725.4678519751775 45.247 0.60162 45.515 45.172 45.774 0.26768 62 25 3 0 0 0 0.91345 1 20670 20670 0.30703 0 1 2797400 + 13257 17802 8426 8448 15347 15347 0.2113017924655196 KKRKFKNLKKM 11 Unmodified _KKRKFKNLKKM_ 0 0 0 REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.6480407714844 3 483.646391 1447.91734 3.3359 0.0016134 0.85338 0.00041273 4.1893 0.0020261 483.6467496919858 41.607 0.31664 42.251 41.978 42.295 0.64451 51 16 5 0 0 0 0.91345 1 19003 19003 0.45452 0.31463 1 16006000 + 13258 17802 8426 8448 15348 15348 0.2113017924655196 KKRKFKNLKKM 11 Unmodified _KKRKFKNLKKM_ 0 0 0 REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 483.646391 1447.91734 3.147 0.001522 0.57074 0.00027604 3.7177 0.0017981 483.64659122366703 43.065 0.26825 43.065 42.846 43.114 0 0.065631 -6.9509E-05 NaN 0.45452 39 14 4 NaN NaN NaN NaN 0 NaN NaN 0 8406400 + 13259 17802 8426 8448 0.2113017924655196 KKRKFKNLKKM 11 Unmodified _KKRKFKNLKKM_ 0 0 0 REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 483.646391 1447.91734 3.1147 0.0015064 0.71266 0.00034467 3.8274 0.0018511 483.64658647783597 45.289 0.8598 45.289 45.052 45.912 0 0.034883 1.4999E-05 NaN 0.45452 149 43 4 NaN NaN NaN NaN 0 NaN NaN 0 5265200 + 13260 17802 8426 8448 0.2113017924655196 KKRKFKNLKKM 11 Unmodified _KKRKFKNLKKM_ 0 0 0 REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 483.646391 1447.91734 3.0357 0.0014682 0.67963 0.0003287 3.7153 0.0017969 483.6466545109606 44.574 0.87072 45.395 44.859 45.729 0.82075 0.14067 -3.2928E-05 NaN 0.45452 76 45 2 NaN NaN NaN NaN 0 NaN NaN 0 2320200 + 13261 17802 8426 8448 0.2113017924655196 KKRKFKNLKKM 11 Unmodified _KKRKFKNLKKM_ 0 0 0 REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 724.965948 1447.91734 3.6405 0.0026393 0.35487 0.00025727 3.9954 0.0028965 724.965902900044 44.747 0.5895 45.014 44.666 45.255 0.26768 -0.13018 -0.00062726 NaN 0.30703 71 27 3 NaN NaN NaN NaN 0 NaN NaN 0 2770900 + 13262 17802 8426 8448 0.2113017924655196 KKRKFKNLKKM 11 Unmodified _KKRKFKNLKKM_ 0 0 0 REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 483.646391 1447.91734 3.146 0.0015215 0.70698 0.00034193 3.853 0.0018635 483.98106434710104 42.757 0.38616 43.027 42.703 43.089 0.27021 0.027518 0.00012817 NaN 0.45452 53 22 4 NaN NaN NaN NaN 0 NaN NaN 0 27274000 + 13263 17802 8426 8448 0.2113017924655196 KKRKFKNLKKM 11 Unmodified _KKRKFKNLKKM_ 0 0 0 REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense REV__L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 483.646391 1447.91734 2.9132 0.001409 0.58208 0.00028152 3.4953 0.0016905 483.64651903102026 44.73 1.012 44.998 44.666 45.678 0.26768 -0.25636 -0.00017446 NaN 0.45452 112 46 4 NaN NaN NaN NaN 0 NaN NaN 0 4562200 + 13264 17802 8426 8448 0.2113017924655196 KKRKHEKKLLK 11 Unmodified _KKRKHEKKLLK_ 0 0 0 ENSG00000164853|ENST00000316333|UNCX ENSG00000164853|ENST00000316333|UNCX ENSG00000164853|ENST00000316333|UNCX MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 718.4833984375 2 718.48282 1434.95109 NaN NaN NaN NaN NaN NaN NaN 100.1 1 100.41 99.908 100.91 0.30835 0 0 0 1.0082 1 46293 46293 0 0 1 13265 4349 8427 8449 15349 15349 0.2510092400998474 KKRKKKKKFK 10 Unmodified _KKRKKKKKFK_ 0 0 0 ENST00000216797.9_1_14:35871071-35871197:-|nuORF ENST00000216797.9_1_14:35871071-35871197:-|nuORF ENST00000216797.9_1_14:35871071-35871197:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 673.9791870117188 2 673.977173 1345.93979 NaN NaN NaN NaN NaN NaN NaN 90.885 1 90.885 90.385 91.385 0 0 0 0 1.002 1 47864 47864 0 0 1 13266 6410 8428 8450 15350 15350 0.2806614670646468 KKRKKKKKR 9 Unmodified _KKRKKKKKR_ 0 0 0 REV__ENST00000442210.2_1_12:123465790-123467130:+|nuORF REV__ENST00000442210.2_1_12:123465790-123467130:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.44677734375 2 614.44604 1226.87753 NaN NaN NaN NaN NaN NaN NaN 64.961 1 64.961 64.461 65.461 0 0 0 0 0.91238 1 30872 30872 0.52476 0 1 + 13267 16351 8429 8451 15351 15351 0.273164203581473 KKRKKLQIII 10 Unmodified _KKRKKLQIII_ 0 0 0 REV__ENSG00000148677|ENST00000371697|ANKRD1 REV__ENSG00000148677|ENST00000371697|ANKRD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 634.5640869140625 2 634.450457 1266.88636 NaN NaN NaN NaN NaN NaN NaN 104.85 1 104.9 104.4 105.4 0.050888 0 0 0 1.002 1 56734 56734 0 0 1 + 13268 12547 8430 8452 15352 15352 0.263593492039945 KKRKKPKTRRV 11 Unmodified _KKRKKPKTRRV_ 0 0 0 REV__ENST00000443339.5_1_3:9475802-9506425:+|nuORF REV__ENST00000443339.5_1_3:9475802-9506425:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 475.6025085449219 3 475.6598 1423.95757 NaN NaN NaN NaN NaN NaN NaN 69.003 1 69.705 69.205 70.205 0.70218 0 0 0 1.0074 1 32948 32948 1.1098 0 1 + 13269 13332 8431 8453 15353 15353 0.26254861961319875 KKRKKRKHLRK 11 Unmodified _KKRKKRKHLRK_ 0 0 0 ENSG00000204560|ENST00000376442|DHX16 ENSG00000204560|ENST00000376442|DHX16 ENSG00000204560|ENST00000376442|DHX16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 753.5214233398438 2 753.520602 1505.02665 NaN NaN NaN NaN NaN NaN NaN 52.345 1 53.007 52.507 53.507 0.66198 0 0 0 1.0082 1 23933 23933 0 0 1 13270 6017 8432 8454 15354 15354 0.2943394598089526 KKRKKTKM 8 Unmodified _KKRKKTKM_ 0 0 0 REV__ENST00000559786.1_1_19:42656838-42660162:+|nuORF REV__ENST00000559786.1_1_19:42656838-42660162:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.7615966796875 2 524.344603 1046.67465 NaN NaN NaN NaN NaN NaN NaN 66.92 1 67.624 67.124 68.124 0.7047 0 0 0 0.99035 1 31752 31752 0.69038 0 1 + 13271 17359 8433 8455 15355 15355 0.15318354241389898 KKRKLKKKAKK 11 Unmodified _KKRKLKKKAKK_ 0 0 0 ENSG00000157895|ENST00000288757|C12orf43 ENSG00000157895|ENST00000288757|C12orf43 ENSG00000157895|ENST00000288757|C12orf43 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 692.5022583007812 2 692.503555 1382.99256 NaN NaN NaN NaN NaN NaN NaN 65.422 1 65.422 64.922 65.922 0 0 0 0 1.008 1 31173 31173 0.30703 0 1 13272 3968 8434 8456 15356 15356 0.31638104769285746 KKRKRGWKKRL 11 Unmodified _KKRKRGWKKRL_ 0 0 0 REV__ENST00000361720.9_1_1:27220846-27223967:-|nuORF REV__ENST00000361720.9_1_1:27220846-27223967:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.3349304199219 3 495.331794 1482.97355 NaN NaN NaN NaN NaN NaN NaN 102.16 1 102.48 101.98 102.98 0.31737 0 0 0 1.0082 1 47259 47259 0 0 1 + 13273 15629 8435 8457 15357 15357 0.2513856819823559 KKRKRKKKEKK 11 Unmodified _KKRKRKKKEKK_ 0 0 0 REV__ENST00000349223.9_1_16:68260779-68260980:+|nuORF REV__ENST00000349223.9_1_16:68260779-68260980:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 743.1175537109375 2 743.014818 1484.01508 NaN NaN NaN NaN NaN NaN NaN 65.019 1 65.728 65.228 66.228 0.70891 0 0 0 1.0082 1 30681 30681 0 0 1 + 13274 15520 8436 8458 15358 15358 0.29243704166901807 KKRKRKKKEKK 11 Unmodified _KKRKRKKKEKK_ 0 0 0 REV__ENST00000349223.9_1_16:68260779-68260980:+|nuORF REV__ENST00000349223.9_1_16:68260779-68260980:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 743.0214233398438 2 743.014818 1484.01508 NaN NaN NaN NaN NaN NaN NaN 27.486 1 27.748 27.248 28.248 0.26245 0 0 0 1.0082 1 12496 12496 0 0 1 + 13275 15520 8436 8458 15359 15359 0.29243704166901807 KKRKRKKQK 9 Unmodified _KKRKRKKQK_ 0 0 0 REV__ENST00000415226.1_1_2:237168173-237186074:+|nuORF REV__ENST00000415226.1_1_2:237168173-237186074:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 614.3582763671875 2 614.427848 1226.84114 NaN NaN NaN NaN NaN NaN NaN 45.922 1 46.748 46.248 47.248 0.82621 0 0 0 0.91238 1 20914 20914 0.52476 0 1 + 13276 16128 8437 8459 15360 15360 0.2367954346143506 KKRKRKKREKL 11 Unmodified _KKRKRKKREKL_ 0 0 0 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 749.5159912109375 2 749.512443 1497.01033 NaN NaN NaN NaN NaN NaN NaN 104.51 1 105.1 104.6 105.6 0.59885 0 0 0 1.0082 1 48283 48283 0 0 1 13277 683 8438 8460 15361 15361 0.28170820024161003 KKRKRKKRKKS 11 Unmodified _KKRKRKKRKKS_ 0 0 0 REV__nc|ENSG00000186566|Q9UKJ3-2|GPATCH8 REV__nc|ENSG00000186566|Q9UKJ3-2|GPATCH8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.0105285644531 3 491.010832 1470.01067 NaN NaN NaN NaN NaN NaN NaN 78.369 1 78.833 78.333 79.333 0.4642 0 0 0 1.0082 1 38101 38101 0.08335 0.08335 1 + 13278 14062 8439 8461 15362 15362 0.2944623974399292 KKRKRKLLF 9 Unmodified _KKRKRKLLF_ 0 0 0 ENST00000409365.5_2_2:183291437-183291587:-|nuORF ENST00000409365.5_2_2:183291437-183291587:-|nuORF ENST00000409365.5_2_2:183291437-183291587:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 609.4061889648438 2 608.921867 1215.82918 NaN NaN NaN NaN NaN NaN NaN 77.656 1 77.656 77.156 78.156 0 0 0 0 0.91238 1 38092 38092 0.52476 0.12405 1 13279 7658 8440 8462 15363 15363 0.22989926718264542 KKRKRKRLKP 10 Unmodified _KKRKRKRLKP_ 0 0 0 nc|ENSG00000197461|P04085|PDGFA nc|ENSG00000197461|P04085|PDGFA nc|ENSG00000197461|P04085|PDGFA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 669.4710083007812 2 669.470047 1336.92554 NaN NaN NaN NaN NaN NaN NaN 64.568 1 65.283 64.783 65.783 0.71521 0 0 0 1.0015 1 30424 30424 0.40072 0 1 13280 9806 8441 8463 15364 15364 0.2705549427821552 KKRKRRKKKRG 11 Unmodified _KKRKRRKKKRG_ 0 0 0 REV__ENSG00000128602|ENST00000249373|SMO REV__ENSG00000128602|ENST00000249373|SMO MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 735.0123291015625 2 735.010402 1468.00625 NaN NaN NaN NaN NaN NaN NaN 58.606 1 58.606 58.106 59.106 0 0 0 0 1.0082 1 27051 27051 0 0 1 + 13281 11764 8442 8464 15365 15365 0.2909677532106798 KKRKRRRNLAK 11 Unmodified _KKRKRRRNLAK_ 0 0 0 ENSG00000152217|ENST00000649279|SETBP1 ENSG00000152217|ENST00000649279|SETBP1 ENSG00000152217|ENST00000649279|SETBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 727.489501953125 2 727.48676 1452.95897 NaN NaN NaN NaN NaN NaN NaN 73.137 1 73.137 72.637 73.637 0 0 0 0 1.008 1 35619 35619 0.30703 0 1 13282 3742 8443 8465 15366 15366 0.2506049605012777 KKRKSRKRKR 10 Unmodified _KKRKSRKRKR_ 0 0 0 REV__ENSG00000163421|ENST00000295619|PROK2 REV__ENSG00000163421|ENST00000295619|PROK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 457.78985595703125 3 457.647894 1369.92185 NaN NaN NaN NaN NaN NaN NaN 66.66 1 67.365 66.865 67.865 0.7047 0 0 0 0.99812 1 31616 31616 1.5923 0.96546 1 + 13283 12987 8444 8466 15367 15367 0.2516882450433968 KKRKTRNHT 9 Unmodified _KKRKTRNHT_ 0 0 0 REV__nc|ENSG00000171606|Q96GC6-4|ZNF274 REV__nc|ENSG00000171606|Q96GC6-4|ZNF274 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.1294555664062 2 584.854712 1167.69487 NaN NaN NaN NaN NaN NaN NaN 69.515 1 69.515 69.015 70.015 0 0 0 0 0.72654 1 33571 33571 11.64 1.5664 1 + 13284 13506 8445 8467 15368 15368 0.11773241225546371 KKRLKKKAIK 10 Unmodified _KKRLKKKAIK_ 0 0 0 REV__ENSG00000169062|ENST00000375299|UPF3A REV__ENSG00000169062|ENST00000375299|UPF3A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 620.7547607421875 2 620.950624 1239.8867 NaN NaN NaN NaN NaN NaN NaN 97.486 1 97.775 97.275 98.275 0.28923 0 0 0 1.0015 1 44783 44783 0.40072 0 1 + 13285 13378 8446 8468 15369 15369 0.27634768923826414 KKRLKLRLKHI 11 Unmodified _KKRLKLRLKHI_ 0 0 0 REV__nc|ENSG00000132952|Q5W0Q7-2|USPL1 REV__nc|ENSG00000132952|Q5W0Q7-2|USPL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 716.9954833984375 2 717.00118 1431.98781 NaN NaN NaN NaN NaN NaN NaN 57.114 1 57.114 56.614 57.614 0 0 0 0 1.0082 1 26315 26315 0 0 1 + 13286 11915 8447 8469 15370 15370 0.2890922062651953 KKRLLRKLNIL 11 Unmodified _KKRLLRKLNIL_ 0 0 0 REV__ENST00000361908.7_1_3:193374935-193376676:+|nuORF REV__ENST00000361908.7_1_3:193374935-193376676:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 698.0081176757812 2 697.987738 1393.96092 NaN NaN NaN NaN NaN NaN NaN 85.096 1 85.762 85.262 86.262 0.66566 0 0 0 1.0082 1 39189 39189 0 0 1 + 13287 15633 8448 8470 15371 15371 0.279701120153959 KKRLSLQREK 10 Unmodified _KKRLSLQREK_ 0 0 0 nc|ENSG00000135241|Q9NP80-3|PNPLA8;nc|ENSG00000135241|Q9NP80-2|PNPLA8;ENSG00000135241|ENST00000257694|PNPLA8 nc|ENSG00000135241|Q9NP80-3|PNPLA8 nc|ENSG00000135241|Q9NP80-3|PNPLA8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 429.2746276855469 3 429.273611 1284.799 3.2496 0.001395 -0.63477 -0.00027249 2.6148 0.0011225 429.2731841421686 100.17 0.13911 100.77 100.68 100.82 0.59717 7 4 2 0 0 0 0.94217 1 46362 46362 0.15932 0 1 2688700 13288 2856 8449 8471 15372 15372 0.16799523262397997 KKRLWEKRYYC 11 Unmodified _KKRLWEKRYYC_ 0 0 0 ENSG00000133056|ENST00000684373|PIK3C2B ENSG00000133056|ENST00000684373|PIK3C2B ENSG00000133056|ENST00000684373|PIK3C2B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.9547119140625 3 524.953772 1571.83949 NaN NaN NaN NaN NaN NaN NaN 73.378 1 74.042 73.542 74.542 0.66398 0 0 0 1.0082 1 33719 33719 0.08335 0 1 13289 2745 8450 8472 15373 15373 0.07644121590556097 KKRMSFFRVK 10 Unmodified _KKRMSFFRVK_ 0 0 0 REV__ENST00000506360.5_1_4:8221127-8224652:+|nuORF REV__ENST00000506360.5_1_4:8221127-8224652:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.8992309570312 2 663.894992 1325.77543 4.4046 0.0029242 0.84439 0.00056059 5.249 0.0034848 663.8956239197483 93.78 0.81502 94.035 93.791 94.606 0.25497 112 39 4 0 0 0 0.94134 1 43047 43047 0.35063 0 1 2859300 + 13290 16933 8451 8473 15374 15374 0.12557386224239053 KKRMSFFRVK 10 Unmodified _KKRMSFFRVK_ 0 0 0 REV__ENST00000506360.5_1_4:8221127-8224652:+|nuORF REV__ENST00000506360.5_1_4:8221127-8224652:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.8980102539062 2 663.894992 1325.77543 4.1261 0.0027393 0.15188 0.00010083 4.2779 0.0028401 663.8951214576948 91.271 1.2233 91.933 91.419 92.642 0.66198 98 62 2 0 0 0 0.94364 1 42297 42297 0 0 1 1499700 + 13291 16933 8451 8473 15375 15375 0.12557386224239053 KKRNPPFKLFR 11 Unmodified _KKRNPPFKLFR_ 0 0 0 REV__ENSG00000127080|ENST00000287996|IPPK REV__ENSG00000127080|ENST00000287996|IPPK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.5824890136719 3 477.629617 1429.86702 NaN NaN NaN NaN NaN NaN NaN 60.718 1 61.458 60.958 61.958 0.7396 0 0 0 1.0065 1 28064 28064 2.2527 0.92309 1 + 13292 11729 8452 8474 15376 15376 0.16928392913041534 KKRPIAARRP 10 Unmodified _KKRPIAARRP_ 0 0 0 REV__ENST00000368194.7_1_1:156921476-156926255:-|nuORF REV__ENST00000368194.7_1_1:156921476-156926255:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.2658386230469 3 398.263157 1191.76764 NaN NaN NaN NaN NaN NaN NaN 31.748 1 32.365 31.865 32.865 0.61737 0 0 0 1.0015 1 14559 14559 0.13989 0.04505 1 + 13293 15679 8453 8475 15377 15377 0.1794299501898422 KKRPIAARRPR 11 Unmodified _KKRPIAARRPR_ 0 0 0 REV__ENST00000368194.7_1_1:156921476-156926255:-|nuORF REV__ENST00000368194.7_1_1:156921476-156926255:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.297119140625 3 450.296861 1347.86875 NaN NaN NaN NaN NaN NaN NaN 70.737 1 70.737 70.237 71.237 0 0 0 0 1.0073 1 34358 34358 0.40827 0 1 + 13294 15679 8454 8476 15378 15378 0.2087344672168001 KKRQFEMRRRL 11 Unmodified _KKRQFEMRRRL_ 0 0 0 ENSG00000102055|ENST00000378131|PPP1R2C ENSG00000102055|ENST00000378131|PPP1R2C ENSG00000102055|ENST00000378131|PPP1R2C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.6398315429688 3 516.640299 1546.89907 NaN NaN NaN NaN NaN NaN NaN 33.739 1 33.739 33.239 34.239 0 0 0 0 1.0082 1 15298 15298 0.094841 0 1 13295 1329 8455 8477 15379 15379 0.14749437324553583 KKRQKLKEKKL 11 Unmodified _KKRQKLKEKKL_ 0 0 0 ENST00000468316.1_1_7:102045023-102065555:+|nuORF;ENST00000469763.5_1_7:102016742-102065555:+|nuORF;ENSG00000128563|ENST00000397912|PRKRIP1 ENST00000468316.1_1_7:102045023-102065555:+|nuORF ENST00000468316.1_1_7:102045023-102065555:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 713.984130859375 2 713.982653 1425.95075 NaN NaN NaN NaN NaN NaN NaN 63.311 1 63.311 62.811 63.811 0 0 0 0 1.008 1 29774 29774 0.30703 0 1 13296 2515 8456 8478 15380 15380 0.25481504290110024 KKRQKRRRRR 10 Unmodified _KKRQKRRRRR_ 0 0 0 REV__ENST00000579674.1_1_17:27898877-27899117:+|nuORF REV__ENST00000579674.1_1_17:27898877-27899117:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 734.4906005859375 2 734.487625 1466.9607 NaN NaN NaN NaN NaN NaN NaN 81.86 1 81.86 81.36 82.36 0 0 0 0 1.0015 1 40818 40818 0.40072 0.050084 1 + 13297 13291 8457 8479 15381 15381 0.2458954985870605 KKRQLWGRMHK 11 Unmodified _KKRQLWGRMHK_ 0 0 0 REV__ENST00000560809.5_1_15:52532054-52548856:-|nuORF REV__ENST00000560809.5_1_15:52532054-52548856:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 367.9682922363281 4 367.717399 1466.84049 2.4927 0.00091661 -0.16126 -5.9298E-05 2.3314 0.00085731 367.967890122971 63.446 1.2012 63.694 63.313 64.514 0.24803 113 72 4 0 0 0 0.13295 1 29110 29110 0.40827 0.041592 1 2703400 + 13298 11772 8458 8480 15382 15382 0.12574380750083947 KKRQLWGRMHK 11 Unmodified _KKRQLWGRMHK_ 0 0 0 REV__ENST00000560809.5_1_15:52532054-52548856:-|nuORF REV__ENST00000560809.5_1_15:52532054-52548856:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 367.717399 1466.84049 1.9004 0.00069882 -0.77029 -0.00028325 1.1301 0.00041557 367.7170054031741 62.908 0.043411 63.63 63.593 63.637 0.72236 0.0022964 -0.00085884 NaN 0.40827 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 968210 + 13299 11772 8458 8480 0.12574380750083947 KKRQQKEEWLT 11 Unmodified _KKRQQKEEWLT_ 0 0 0 REV__ENST00000474125.6_1_10:102771704-102781716:-|nuORF REV__ENST00000474125.6_1_10:102771704-102781716:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.0334167480469 3 491.94393 1472.80996 NaN NaN NaN NaN NaN NaN NaN 74.692 1 74.692 74.192 75.192 0 0 0 0 1.0064 1 36516 36516 2.4348 1.22 1 + 13300 14075 8459 8481 15383 15383 0.09246880846058048 KKRQYLKLIAF 11 Unmodified _KKRQYLKLIAF_ 0 0 0 REV__ENST00000359242.7_2_1:86851271-86852694:-|nuORF REV__ENST00000359242.7_2_1:86851271-86852694:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 704.2922973632812 2 704.445372 1406.87619 NaN NaN NaN NaN NaN NaN NaN 72.216 1 72.919 72.419 73.419 0.70386 0 0 0 1.0073 1 34744 34744 1.1933 0.735 1 + 13301 15594 8460 8482 15384 15384 0.18902741478723328 KKRRKERKKEN 11 Unmodified _KKRRKERKKEN_ 0 0 0 REV__nc|ENSG00000165113|Q5VSY0-2|GKAP1 REV__nc|ENSG00000165113|Q5VSY0-2|GKAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.657958984375 3 500.646219 1498.91683 NaN NaN NaN NaN NaN NaN NaN 69.492 1 70.195 69.695 70.695 0.70302 0 0 0 1.008 1 33259 33259 0.08335 0 1 + 13302 13136 8461 8483 15385 15385 0.1873247585106128 KKRRKKKKKV 10 Unmodified _KKRRKKKKKV_ 0 0 0 TIMELESS|p.E974Kfs*31|1|0.04|ENSG00000111602|chr12:56421083-56421084|-/ATTTCCTTAGGCTT|frameshift_variant;nc|ENSG00000111602|Q9UNS1-2|TIMELESS;ENSG00000111602|ENST00000553532|TIMELESS TIMELESS|p.E974Kfs*31|1|0.04|ENSG00000111602|chr12:56421083-56421084|-/ATTTCCTTAGGCTT|frameshift_variant TIMELESS|p.E974Kfs*31|1|0.04|ENSG00000111602|chr12:56421083-56421084|-/ATTTCCTTAGGCTT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 663.5223999023438 2 663.980247 1325.94594 NaN NaN NaN NaN NaN NaN NaN 77.175 1 77.175 76.675 77.675 0 0 0 0 1.0015 1 37838 37838 0.40072 0 1 13303 18276 8462 8484 15386 15386 0.29600664937993315 KKRRKKKKKVL 11 Unmodified _KKRRKKKKKVL_ 0 0 0 TIMELESS|p.E974Kfs*31|1|0.04|ENSG00000111602|chr12:56421083-56421084|-/ATTTCCTTAGGCTT|frameshift_variant;nc|ENSG00000111602|Q9UNS1-2|TIMELESS;ENSG00000111602|ENST00000553532|TIMELESS TIMELESS|p.E974Kfs*31|1|0.04|ENSG00000111602|chr12:56421083-56421084|-/ATTTCCTTAGGCTT|frameshift_variant TIMELESS|p.E974Kfs*31|1|0.04|ENSG00000111602|chr12:56421083-56421084|-/ATTTCCTTAGGCTT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 720.5254516601562 2 720.522279 1439.03001 NaN NaN NaN NaN NaN NaN NaN 33.653 1 33.653 33.153 34.153 0 0 0 0 1.0082 1 15258 15258 0 0 1 13304 18276 8463 8485 15387 15387 0.3280519603490575 KKRRKKRI 8 Unmodified _KKRRKKRI_ 0 0 0 ENST00000380121.7_1_13:33010521-33020605:-|nuORF;nc|ENSG00000244754|Q92802-3|N4BP2L2 ENST00000380121.7_1_13:33010521-33020605:-|nuORF ENST00000380121.7_1_13:33010521-33020605:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.04150390625 2 556.896183 1111.77781 NaN NaN NaN NaN NaN NaN NaN 99.208 1 99.508 99.008 100.01 0.29987 0 0 0 0.99035 1 45808 45808 0.69038 0 1 13305 7464 8464 8486 15388 15388 0.2263960274422061 KKRRKKRIFNL 11 Unmodified _KKRRKKRIFNL_ 0 0 0 ENST00000380121.7_1_13:33010521-33020605:-|nuORF;nc|ENSG00000244754|Q92802-3|N4BP2L2 ENST00000380121.7_1_13:33010521-33020605:-|nuORF ENST00000380121.7_1_13:33010521-33020605:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 743.9965209960938 2 743.993886 1485.97322 NaN NaN NaN NaN NaN NaN NaN 57.26 1 57.929 57.429 58.429 0.66829 0 0 0 1.0082 1 26201 26201 0 0 1 13306 7464 8465 8487 15389 15389 0.24967148478413037 KKRRKRKMQRW 11 Unmodified _KKRRKRKMQRW_ 0 0 0 REV__ENST00000229214.8_1_12:75893569-75893638:-|nuORF REV__ENST00000229214.8_1_12:75893569-75893638:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 800.9971923828125 2 800.993894 1599.97324 NaN NaN NaN NaN NaN NaN NaN 17.121 1 17.121 16.621 17.621 0 0 0 0 1.0082 1 7601 7601 0 0 1 + 13307 14847 8466 8488 15390 15390 0.19724825206731111 KKRRKWFPRRR 11 Unmodified _KKRRKWFPRRR_ 0 0 0 REV__nc|ENSG00000116698|Q92540-4|SMG7 REV__nc|ENSG00000116698|Q92540-4|SMG7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.5093383789062 2 807.508026 1613.0015 NaN NaN NaN NaN NaN NaN NaN 12.362 1 12.362 11.862 12.862 0 0 0 0 1.008 1 5350 5350 0.30703 0.30703 1 + 13308 17906 8467 8489 15391 15391 0.2195189117830978 KKRRRFRLSIR 11 Unmodified _KKRRRFRLSIR_ 0 0 0 REV__ENSG00000103335|ENST00000301015|PIEZO1 REV__ENSG00000103335|ENST00000301015|PIEZO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.7489013671875 3 505.998815 1514.97462 NaN NaN NaN NaN NaN NaN NaN 53.606 1 53.606 53.106 54.106 0 0 0 0 1.0082 1 24568 24568 0 0 1 + 13309 10965 8468 8490 15392 15392 0.23772782567175454 KKRRRKKKKCK 11 Unmodified _KKRRRKKKKCK_ 0 0 0 REV__ENST00000406027.2_1_2:216946734-216946833:+|nuORF REV__ENST00000406027.2_1_2:216946734-216946833:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 743.9981079101562 2 744.001188 1485.98782 NaN NaN NaN NaN NaN NaN NaN 61.964 1 62.695 62.195 63.195 0.73077 0 0 0 1.008 1 28811 28811 0.30703 0.30703 1 + 13310 16066 8469 8491 15393 15393 0.2642689735487238 KKRRRKKKKVS 11 Unmodified _KKRRRKKKKVS_ 0 0 0 REV__ENSG00000101577|ENST00000677752|LPIN2 REV__ENSG00000101577|ENST00000677752|LPIN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 721.6283569335938 2 721.499336 1440.98412 NaN NaN NaN NaN NaN NaN NaN 95.341 1 95.423 94.923 95.923 0.082001 0 0 0 1.0082 1 50374 50374 0 0 1 + 13311 10903 8470 8492 15394 15394 0.28126550852653054 KKRRRKKT 8 Unmodified _KKRRRKKT_ 0 0 0 ENST00000428417.5_1_1:15546837-15546969:+|nuORF ENST00000428417.5_1_1:15546837-15546969:+|nuORF ENST00000428417.5_1_1:15546837-15546969:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.8812255859375 2 550.877991 1099.74143 4.3921 0.0024195 1.0671 0.00058784 5.4592 0.0030073 550.8786745700588 105.5 0.098434 105.82 105.75 105.85 0.31782 6 3 2 0 0 0 0.7471 1 48705 48705 0.69038 0 1 725990 13312 7824 8471 8493 15395 15395 0.19554725847501686 KKRRRKKT 8 Unmodified _KKRRRKKT_ 0 0 0 ENST00000428417.5_1_1:15546837-15546969:+|nuORF ENST00000428417.5_1_1:15546837-15546969:+|nuORF ENST00000428417.5_1_1:15546837-15546969:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 550.877991 1099.74143 3.7373 0.0020588 -1.833 -0.0010098 1.9042 0.001049 551.3766164644 105.41 0.075439 106.01 105.98 106.05 0.59969 0.096483 -0.0031088 NaN 0.69038 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 328540 13313 7824 8471 8493 0.19554725847501686 KKRRRQKSRKY 11 Unmodified _KKRRRQKSRKY_ 0 0 0 nc|ENSG00000085185|Q5H9F3-1|BCORL1;ENSG00000085185|ENST00000540052|BCORL1 nc|ENSG00000085185|Q5H9F3-1|BCORL1 nc|ENSG00000085185|Q5H9F3-1|BCORL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 511.9909362792969 3 511.990208 1532.9488 NaN NaN NaN NaN NaN NaN NaN 75.392 1 76.055 75.555 76.555 0.6635 0 0 0 1.0082 1 36503 36503 0.08335 0.08335 1 13314 964 8472 8494 15396 15396 0.2036388832486864 KKRRRRRKLQH 11 Unmodified _KKRRRRRKLQH_ 0 0 0 REV__ENST00000474534.1_1_9:131798902-131809484:+|nuORF REV__ENST00000474534.1_1_9:131798902-131809484:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 781.5111083984375 2 781.508558 1561.00256 NaN NaN NaN NaN NaN NaN NaN 73.553 1 74.218 73.718 74.718 0.6644 0 0 0 1.0082 1 33807 33807 0.30703 0.30703 1 + 13315 12532 8473 8495 15397 15397 0.24450105547248313 KKRRRWRRRV 10 Unmodified _KKRRRWRRRV_ 0 0 0 ENST00000556594.1_1_14:91518767-91526894:-|nuORF ENST00000556594.1_1_14:91518767-91526894:-|nuORF ENST00000556594.1_1_14:91518767-91526894:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 749.0306396484375 2 748.984718 1495.95488 NaN NaN NaN NaN NaN NaN NaN 98.472 1 98.472 97.972 98.972 0 0 0 0 1.0015 1 53909 53909 0.40072 0.40072 1 13316 8930 8474 8496 15398 15398 0.2267445134702939 KKRSEELLS 9 Unmodified _KKRSEELLS_ 0 0 0 nc|ENSG00000138180|Q53EZ4-2|CEP55;ENSG00000138180|ENST00000371485|CEP55 nc|ENSG00000138180|Q53EZ4-2|CEP55 nc|ENSG00000138180|Q53EZ4-2|CEP55 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3175048828125 2 545.316763 1088.61897 3.3189 0.0018099 0.077488 4.2255E-05 3.3964 0.0018521 545.3166552432793 81.294 0.88069 81.542 80.979 81.86 0.24803 81 52 2 0 0 0 1.0246 1 37306 37306 3.5965 1.2938 1 886180 13317 3080 8475 8497 15399 15399 0.07820799534783873 KKRSKKKRK 9 Unmodified _KKRSKKKRK_ 0 0 0 REV__nc|ENSG00000150776|Q6ZUT1-3|NKAPD1 REV__nc|ENSG00000150776|Q6ZUT1-3|NKAPD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 593.9166259765625 2 593.914573 1185.81459 NaN NaN NaN NaN NaN NaN NaN 76.844 1 77.468 76.968 77.968 0.62397 0 0 0 0.91238 1 37259 37259 0.52476 0 1 + 13318 12595 8476 8498 15400 15400 0.22911854570111245 KKRSRRRRKR 10 Unmodified _KKRSRRRRKR_ 0 0 0 REV__nc|ENSG00000181090|Q9H9B1-4|EHMT1 REV__nc|ENSG00000181090|Q9H9B1-4|EHMT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 713.971435546875 2 713.974351 1425.93415 NaN NaN NaN NaN NaN NaN NaN 72.137 1 72.137 71.637 72.637 0 0 0 0 1.0015 1 35076 35076 0.40072 0 1 + 13319 13842 8477 8499 15401 15401 0.23821860967382236 KKRTAGSWWAR 11 Unmodified _KKRTAGSWWAR_ 0 0 0 REV__ENST00000393445.7_1_2:100081408-100106416:-|nuORF REV__ENST00000393445.7_1_2:100081408-100106416:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 449.5026550292969 3 449.586189 1345.73674 NaN NaN NaN NaN NaN NaN NaN 77.442 1 78.003 77.503 78.503 0.56091 0 0 0 1.0073 1 37565 37565 1.2148 0.10508 1 + 13320 15952 8478 8500 15402 15402 0.07769796914067228 KKRTLTHLKK 10 Unmodified _KKRTLTHLKK_ 0 0 0 ENST00000261244.9_1_14:58954760-58955343:+|nuORF ENST00000261244.9_1_14:58954760-58955343:+|nuORF ENST00000261244.9_1_14:58954760-58955343:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 626.914794921875 2 626.914239 1251.81392 NaN NaN NaN NaN NaN NaN NaN 75.736 1 75.993 75.493 76.493 0.25704 0 0 0 0.98985 1 34860 34860 7.1017 1.8048 1 13321 6553 8479 8501 15403 15403 0.19809015130385887 KKRVIVKKLPI 11 Unmodified _KKRVIVKKLPI_ 0 0 0 ENSG00000064270|ENST00000262429|ATP2C2;nc|ENSG00000064270|O75185-2|ATP2C2;nc|ENSG00000064270|O75185-3|ATP2C2 ENSG00000064270|ENST00000262429|ATP2C2 ENSG00000064270|ENST00000262429|ATP2C2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 661.4730224609375 2 661.473932 1320.93331 NaN NaN NaN NaN NaN NaN NaN 71.437 1 72.141 71.641 72.641 0.70386 0 0 0 1.008 1 34307 34307 0.30703 0.30703 1 13322 668 8480 8502 15404 15404 0.2856820875510948 KKRVLHRDI 9 Unmodified _KKRVLHRDI_ 0 0 0 nc|ENSG00000136098|P51956-2|NEK3;ENSG00000136098|ENST00000610828|NEK3;ENST00000552973.1_1_13:52722507-52730359:-|nuORF nc|ENSG00000136098|P51956-2|NEK3 nc|ENSG00000136098|P51956-2|NEK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.7703857421875 2 582.869831 1163.72511 NaN NaN NaN NaN NaN NaN NaN 36.368 1 37.161 36.661 37.661 0.79342 0 0 0 0.90611 1 16482 16482 2.0598 0.21551 1 13323 2927 8481 8503 15405 15405 0.14979599890762074 KKRVLLLLVLL 11 Unmodified _KKRVLLLLVLL_ 0 0 0 REV__nc|ENSG00000062038|P22223-2|CDH3 REV__nc|ENSG00000062038|P22223-2|CDH3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 654.4796752929688 2 654.478683 1306.94281 NaN NaN NaN NaN NaN NaN NaN 75.763 1 76.427 75.927 76.927 0.66387 0 0 0 1.008 1 34910 34910 0.30703 0.30703 1 + 13324 10401 8482 8504 15406 15406 0.3016197704066599 KKRWFVFDRLK 11 Unmodified _KKRWFVFDRLK_ 0 0 0 ENST00000526537.2_1_11:118518618-118527530:+|nuORF;ENST00000530994.5_1_11:118515264-118527530:+|nuORF;ENST00000524713.5_1_11:118512334-118527530:+|nuORF;ENST00000532517.5_1_11:118498004-118527530:+|nuORF;nc|ENSG00000019144|Q86UU1-2|PHLDB1;ENSG00000019144|ENST00000600882|PHLDB1 ENST00000526537.2_1_11:118518618-118527530:+|nuORF ENST00000526537.2_1_11:118518618-118527530:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 761.9532470703125 2 761.953895 1521.89324 NaN NaN NaN NaN NaN NaN NaN 67.923 1 67.923 67.423 68.423 0 0 0 0 1.0073 1 32648 32648 1.1933 0 1 13325 448 8483 8505 15407 15407 0.15316662084546806 KKRWWLVRDTW 11 Unmodified _KKRWWLVRDTW_ 0 0 0 REV__nc|ENSG00000078269|O15056-3|SYNJ2 REV__nc|ENSG00000078269|O15056-3|SYNJ2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 787.4422607421875 2 787.441152 1572.86775 NaN NaN NaN NaN NaN NaN NaN 64.945 1 65.654 65.154 66.154 0.70891 0 0 0 1.008 1 30627 30627 0.30703 0 1 + 13326 10569 8484 8506 15408 15408 0.10423187562128078 KKRYLIYAILV 11 Unmodified _KKRYLIYAILV_ 0 0 0 REV__nc|ENSG00000165102|Q68CP4|HGSNAT REV__nc|ENSG00000165102|Q68CP4|HGSNAT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.9766540527344 4 345.724787 1378.87004 2.5197 0.00087112 1.3197 0.00045626 3.8394 0.0013274 345.72524802378496 46.697 0.61073 47.35 46.96 47.57 0.65219 53 21 3 0 0 0 0.91345 1 21269 21269 0.45452 0.087843 1 1861400 + 13327 13135 8485 8507 15409 15409 0.1957622324721342 KKRYRKRKNKL 11 Unmodified _KKRYRKRKNKL_ 0 0 0 ENSG00000055609|ENST00000262189|KMT2C;nc|ENSG00000055609|Q8NEZ4-2|KMT2C;nc|ENSG00000055609|Q8NEZ4-3|KMT2C ENSG00000055609|ENST00000262189|KMT2C ENSG00000055609|ENST00000262189|KMT2C MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 304.4425964355469 5 304.403083 1516.97903 1.9397 0.00059046 0.36644 0.00011155 2.3062 0.000702 304.40326852917735 52.707 0.59079 52.707 52.576 53.167 0 55 40 2 0 0 0 0.13295 1 24313 24313 0 0 1 739440 13328 616 8486 8508 15410 15410 0.24122246990054919 KKRYTVEYKWV 11 Unmodified _KKRYTVEYKWV_ 0 0 0 REV__ENSG00000142627|ENST00000358432|EPHA2 REV__ENSG00000142627|ENST00000358432|EPHA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.6167907714844 3 500.617155 1498.82963 NaN NaN NaN NaN NaN NaN NaN 63.776 1 64.491 63.991 64.991 0.71521 0 0 0 1.0072 1 29918 29918 0.45452 0 1 + 13329 12338 8487 8509 15411 15411 0.10017256856781387 KKSANPRV 8 Unmodified _KKSANPRV_ 0 0 0 ENST00000367097.7_1_6:158931181-158931457:+|nuORF ENST00000367097.7_1_6:158931181-158931457:+|nuORF ENST00000367097.7_1_6:158931181-158931457:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.275634765625 2 450.274701 898.534849 3.251 0.0014638 -0.41702 -0.00018778 2.834 0.0012761 450.27394516209574 90.542 0.4816 91.215 90.917 91.398 0.67271 30 21 2 0 0 0 0.74709 1 41671 41671 2.0598 1.3694 1 597630 13330 7248 8488 8510 15412 15412 0.08152313228515595 KKSDPVVSY 9 Unmodified _KKSDPVVSY_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 511.7813415527344 2 511.779482 1021.54441 3.3803 0.00173 0.95653 0.00048953 4.3368 0.0022195 511.7797744793838 17.343 0.29109 18.004 17.878 18.169 0.66072 39 22 2 0 0 0 0.1776 1 7837 7837 15.248 3.0078 1 394040 13331 4569 8489 8511 15413 15413 0.034500367233818 KKSDPVVSY 9 Unmodified _KKSDPVVSY_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 511.779482 1021.54441 3.1695 0.0016221 0.24709 0.00012646 3.4166 0.0017485 511.7795601391684 17.486 0.33061 17.788 17.65 17.981 0.30159 -0.10803 -0.00019956 NaN 15.248 30 21 2 NaN NaN NaN NaN 0 NaN NaN 0 168600 13332 4569 8489 8511 0.034500367233818 KKSEELIV 8 Unmodified _KKSEELIV_ 0 0 0 REV__nc|ENSG00000131951|Q6ZRR7-2|LRRC9 REV__nc|ENSG00000131951|Q6ZRR7-2|LRRC9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.2837829589844 2 473.2844 944.554247 NaN NaN NaN NaN NaN NaN NaN 79.469 1 79.469 78.969 79.969 0 0 0 0 0.99035 1 39271 39271 4.756 0 1 + 13333 11870 8490 8512 15414 15414 0.07975224728761532 KKSKGKHI 8 Unmodified _KKSKGKHI_ 0 0 0 REV__nc|ENSG00000186854|Q86V40-2|TRABD2A REV__nc|ENSG00000186854|Q86V40-2|TRABD2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.9010314941406 3 309.202905 924.586885 NaN NaN NaN NaN NaN NaN NaN 11.038 1 11.671 11.171 12.171 0.63304 0 0 0 0.99035 1 4973 4973 0.40072 0 1 + 13334 14073 8491 8513 15415 15415 0.12157476642289566 KKSKIHMKPKK 11 Unmodified _KKSKIHMKPKK_ 0 0 0 L1PB1_dup5905|chr7:93807211-93809400:+|3.627191007074611|0.2056128638309657|4.14|521.0|34|2|sense L1PB1_dup5905|chr7:93807211-93809400:+|3.627191007074611|0.2056128638309657|4.14|521.0|34|2|sense L1PB1_dup5905|chr7:93807211-93809400:+|3.627191007074611|0.2056128638309657|4.14|521.0|34|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.97113037109375 4 338.969425 1351.8486 2.6586 0.00090119 1.7394 0.00058961 4.398 0.0014908 339.2211908262483 47.488 0.34926 47.752 47.466 47.815 0.26363 42 14 4 0 0 0 0.91459 1 21627 21627 0.094841 0.011491 1 1100800 13335 9481 8492 8514 15416 15416 0.18674514946837917 KKSKKRKK 8 Unmodified _KKSKKRKK_ 0 0 0 REV__ENSG00000138398|ENST00000260970|PPIG REV__ENSG00000138398|ENST00000260970|PPIG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.865234375 2 515.864018 1029.71348 NaN NaN NaN NaN NaN NaN NaN 80.675 1 80.844 80.344 81.344 0.16862 0 0 0 0.99035 1 39551 39551 0.69038 0 1 + 13336 12163 8493 8515 15417 15417 0.19981402867415454 KKSLLPYSH 9 Unmodified _KKSLLPYSH_ 0 0 0 REV__ENSG00000203734|ENST00000541398|ECT2L REV__ENSG00000203734|ENST00000541398|ECT2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 358.2101745605469 3 358.209836 1071.60768 2.6346 0.00094375 1.2026 0.00043079 3.8372 0.0013745 358.20997231923485 39.146 0.8694 39.146 38.724 39.593 0 64 33 3 0 0 0 1.1154 1 17652 17652 1.0715 0.29493 1 740810 + 13337 14389 8494 8516 15418 15418 0.07474022231258459 KKSLLPYSH 9 Unmodified _KKSLLPYSH_ 0 0 0 REV__ENSG00000203734|ENST00000541398|ECT2L REV__ENSG00000203734|ENST00000541398|ECT2L MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 358.209836 1071.60768 2.4214 0.00086736 2.021 0.00072394 4.4424 0.0015913 358.21053809884046 38.739 0.75675 39.003 38.63 39.386 0.26408 -0.071035 0.00055339 NaN 1.0715 52 30 2 NaN NaN NaN NaN 0 NaN NaN 0 873580 + 13338 14389 8494 8516 0.07474022231258459 KKSPPFIHT 9 Unmodified _KKSPPFIHT_ 0 0 0 REV__ENST00000395264.3_1_19:2389783-2414036:+|nuORF REV__ENST00000395264.3_1_19:2389783-2414036:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.20782470703125 3 352.206315 1053.59712 2.2773 0.00080209 1.3546 0.00047711 3.632 0.0012792 352.2068469102139 52.74 0.31808 53.402 53.274 53.592 0.66198 30 21 2 0 0 0 1.1251 1 24117 24117 1.9064 0 1 1776500 + 13339 13759 8495 8517 15419 15419 0.07246039576853036 KKSRRKKK 8 Unmodified _KKSRRKKK_ 0 0 0 ENST00000033079.7_2_5:137278687-137278835:-|nuORF ENST00000033079.7_2_5:137278687-137278835:-|nuORF ENST00000033079.7_2_5:137278687-137278835:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.8036499023438 2 529.867092 1057.71963 NaN NaN NaN NaN NaN NaN NaN 69.458 1 69.458 68.958 69.958 0 0 0 0 0.99035 1 33540 33540 0.69038 0 1 13340 6377 8496 8518 15420 15420 0.193079210989481 KKSRRKKK 8 Unmodified _KKSRRKKK_ 0 0 0 ENST00000033079.7_2_5:137278687-137278835:-|nuORF ENST00000033079.7_2_5:137278687-137278835:-|nuORF ENST00000033079.7_2_5:137278687-137278835:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.25341796875 2 529.867092 1057.71963 NaN NaN NaN NaN NaN NaN NaN 68.068 1 68.77 68.27 69.27 0.70218 0 0 0 0.99035 1 32431 32431 0.69038 0 1 13341 6377 8496 8518 15421 15421 0.193079210989481 KKSSTKQKQ 9 Unmodified _KKSSTKQKQ_ 0 0 0 REV__nc|ENSG00000147408|Q8TDX6-2|CSGALNACT1 REV__nc|ENSG00000147408|Q8TDX6-2|CSGALNACT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.81982421875 2 531.81693 1061.61931 2.9317 0.0015591 -0.20098 -0.00010688 2.7308 0.0014523 531.8170052928549 81.268 1.2711 81.516 80.965 82.236 0.24802 119 76 2 0 0 0 0.83994 2 37352 37243;37352 6.7232 3.5965 1 1196700 + 13342 12506 8497 8519 15422;15423 15423 0.09096219254638527 KKSVERAK 8 Unmodified _KKSVERAK_ 0 0 0 REV__ENST00000494045.5_1_9:136278026-136283036:-|nuORF REV__ENST00000494045.5_1_9:136278026-136283036:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.2961120605469 2 473.295633 944.576714 3.0694 0.0014527 0.27104 0.00012828 3.3404 0.001581 473.2956583071556 56.793 0.36374 57.462 57.214 57.578 0.66829 33 19 2 0 0 0 0.73556 1 25981 25981 4.3292 0 1 1065700 + 13343 12529 8498 8520 15424 15424 0.1022086891704248 KKTARKSV 8 Unmodified _KKTARKSV_ 0 0 0 REV__nc|ENSG00000140534|Q7Z2Z1-2|TICRR REV__nc|ENSG00000140534|Q7Z2Z1-2|TICRR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 459.2821350097656 2 459.298176 916.581799 NaN NaN NaN NaN NaN NaN NaN 69.934 1 70.637 70.137 71.137 0.70302 0 0 0 0.95658 1 33489 33489 8.5933 4.264 1 + 13344 12254 8499 8521 15425 15425 0.12017172779667362 KKTGGYGGRL 10 Unmodified _KKTGGYGGRL_ 0 0 0 ENST00000593203.1_1_19:10943844-10943982:+|nuORF ENST00000593203.1_1_19:10943844-10943982:+|nuORF ENST00000593203.1_1_19:10943844-10943982:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 346.52667236328125 3 346.201452 1035.58253 2.5501 0.00088284 0.65599 0.0002271 3.2061 0.0011099 346.20162615831225 20.981 0.31118 20.981 20.811 21.122 0 29 19 2 0 0 0 0.85597 1 9402 9402 5.7834 0 1 436120 13345 9254 8500 8522 15426 15426 0.06615967428706426 KKTGKVSQEPD 11 Unmodified _KKTGKVSQEPD_ 0 0 0 REV__nc|ENSG00000127124|Q5T1R4-2|HIVEP3 REV__nc|ENSG00000127124|Q5T1R4-2|HIVEP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 608.886474609375 2 608.830234 1215.64592 NaN NaN NaN NaN NaN NaN NaN 66.913 1 66.913 66.413 67.413 0 0 0 0 0.98464 1 32014 32014 8.1555 1.4324 1 + 13346 11731 8501 8523 15427 15427 0.04671863355292771 KKTKIKLTKI 10 Unmodified _KKTKIKLTKI_ 0 0 0 ENSG00000166262|ENST00000299338|FAM227B ENSG00000166262|ENST00000299338|FAM227B ENSG00000166262|ENST00000299338|FAM227B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 600.9235229492188 2 600.923741 1199.83293 NaN NaN NaN NaN NaN NaN NaN 47.524 1 48.177 47.677 48.677 0.65356 0 0 0 1.002 1 21757 21757 0 0 1 13347 4466 8502 8524 15428 15428 0.24100551701440054 KKTKKKKKKL 10 Unmodified _KKTKKKKKKL_ 0 0 0 REV__AluY_dup49344|chr8:133361464-133361769:+|1.030317764595114|0.0147538292618742|6.13|519.0|3|1|sense REV__AluY_dup49344|chr8:133361464-133361769:+|1.030317764595114|0.0147538292618742|6.13|519.0|3|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 629.6505126953125 2 629.458282 1256.90201 NaN NaN NaN NaN NaN NaN NaN 59.94 1 60.689 60.189 61.189 0.74927 0 0 0 1.0015 1 27550 27550 0.40072 0 1 + 13348 9959 8503 8525 15429 15429 0.283836357210248 KKTKKKLL 8 Unmodified _KKTKKKLL_ 0 0 0 REV__ENSG00000111536|ENST00000229134|IL26 REV__ENSG00000111536|ENST00000229134|IL26 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 493.8583679199219 2 493.85787 985.701186 NaN NaN NaN NaN NaN NaN NaN 62.245 1 62.245 61.745 62.745 0 0 0 0 0.99035 1 29152 29152 0.69038 0 1 + 13349 11237 8504 8526 15430 15430 0.20776366404368218 KKTKKLKVKS 10 Unmodified _KKTKKLKVKS_ 0 0 0 REV__nc|ENSG00000084093|Q13127-4|REST REV__nc|ENSG00000084093|Q13127-4|REST MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 594.4119262695312 2 594.41354 1186.81253 NaN NaN NaN NaN NaN NaN NaN 62.65 1 63.38 62.88 63.88 0.73077 0 0 0 1.0015 1 29251 29251 0.40072 0 1 + 13350 10634 8505 8527 15431 15431 0.22659381041626148 KKTKRCVG 8 Unmodified _KKTKRCVG_ 0 0 0 REV__ENSG00000135144|ENST00000548759|DTX1 REV__ENSG00000135144|ENST00000548759|DTX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 307.1890869140625 3 307.188378 918.543305 NaN NaN NaN NaN NaN NaN NaN 27.926 1 28.713 28.213 29.213 0.78627 0 0 0 0.99035 1 12567 12567 0.45834 0 1 + 13351 12001 8506 8528 15432 15432 0.08077543873491777 KKTKRCVG 8 Unmodified _KKTKRCVG_ 0 0 0 REV__ENSG00000135144|ENST00000548759|DTX1 REV__ENSG00000135144|ENST00000548759|DTX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 307.1889343261719 3 307.188378 918.543305 NaN NaN NaN NaN NaN NaN NaN 28.967 1 29.757 29.257 30.257 0.78921 0 0 0 0.99035 1 13054 13054 0.45834 0 1 + 13352 12001 8506 8528 15433 15433 0.08077543873491777 KKTKRCVG 8 Unmodified _KKTKRCVG_ 0 0 0 REV__ENSG00000135144|ENST00000548759|DTX1 REV__ENSG00000135144|ENST00000548759|DTX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 307.1888732910156 3 307.188378 918.543305 NaN NaN NaN NaN NaN NaN NaN 33.322 1 34.11 33.61 34.61 0.78795 0 0 0 0.99035 1 15078 15078 0.45834 0 1 + 13353 12001 8506 8528 15434 15434 0.08077543873491777 KKTKRKVV 8 Unmodified _KKTKRKVV_ 0 0 0 nc|ENSG00000125037|Q9P0I2-2|EMC3;ENSG00000125037|ENST00000245046|EMC3;ENST00000487465.5_1_3:10011273-10028351:-|nuORF nc|ENSG00000125037|Q9P0I2-2|EMC3 nc|ENSG00000125037|Q9P0I2-2|EMC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.0141906738281 2 493.845294 985.676034 NaN NaN NaN NaN NaN NaN NaN 69.766 1 69.766 69.266 70.266 0 0 0 0 0.97647 1 33753 33753 7.2892 4.9865 1 13354 2386 8507 8529 15435 15435 0.1826231160179077 KKTKTIKKKK 10 Unmodified _KKTKTIKKKK_ 0 0 0 REV__ENST00000252699.6_1_19:39220693-39220804:+|nuORF REV__ENST00000252699.6_1_19:39220693-39220804:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 615.8245239257812 2 615.93464 1229.85473 NaN NaN NaN NaN NaN NaN NaN 26.941 1 27.72 27.22 28.22 0.7787 0 0 0 1.002 1 12106 12106 0 0 1 + 13355 14913 8508 8530 15436 15436 0.2489935645000969 KKTLQKPRH 9 Unmodified _KKTLQKPRH_ 0 0 0 ENST00000426826.2_1_1:150026325-150026897:+|nuORF ENST00000426826.2_1_1:150026325-150026897:+|nuORF ENST00000426826.2_1_1:150026325-150026897:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.2283020019531 3 379.24013 1134.69856 NaN NaN NaN NaN NaN NaN NaN 56.656 1 56.656 56.156 57.156 0 0 0 0 0.90431 1 26078 26078 2.4985 0.21571 1 13356 7813 8509 8531 15437 15437 0.13659910999399472 KKTLQKPRH 9 Unmodified _KKTLQKPRH_ 0 0 0 ENST00000426826.2_1_1:150026325-150026897:+|nuORF ENST00000426826.2_1_1:150026325-150026897:+|nuORF ENST00000426826.2_1_1:150026325-150026897:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.22857666015625 3 379.24013 1134.69856 NaN NaN NaN NaN NaN NaN NaN 55.747 1 56.415 55.915 56.915 0.66798 0 0 0 0.90431 1 25504 25504 2.4985 0.75621 1 13357 7813 8509 8531 15438 15438 0.13659910999399472 KKTQHRHK 8 Unmodified _KKTQHRHK_ 0 0 0 REV__nc|ENSG00000080493|Q9Y6R1-3|SLC4A4 REV__nc|ENSG00000080493|Q9Y6R1-3|SLC4A4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.3775024414062 2 531.817599 1061.62064 3.4627 0.0018415 -0.94748 -0.00050389 2.5152 0.0013376 531.8170069126364 96.389 0.33358 96.997 96.779 97.113 0.60769 34 14 3 0 0 0 0.13972 1 44229 44229 2.0598 2.0598 1 1484900 + 13358 10593 8510 8532 15439 15439 0.09229898134026371 KKTQVNIFFL 10 Unmodified _KKTQVNIFFL_ 0 0 0 REV__ENSG00000102802|ENST00000380482|MEDAG REV__ENSG00000102802|ENST00000380482|MEDAG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 413.24822998046875 3 413.248291 1236.72304 2.5872 0.0010692 0.94087 0.00038881 3.5281 0.001458 413.24856918833456 43.485 0.44321 44.299 44.174 44.617 0.81444 48 21 3 0 0 0 0.93584 1 19916 19916 1.7423 0.67081 1 575690 + 13359 10942 8511 8533 15440 15440 0.11415126362271621 KKTRAMRRRL 10 Unmodified _KKTRAMRRRL_ 0 0 0 ENST00000433398.1_1_7:66071742-66071856:-|nuORF;ENST00000373570.8_1_9:127620199-127620799:-|nuORF;ENSG00000136942|ENST00000348462|RPL35;ENST00000487431.1_1_9:127620199-127623861:-|nuORF ENST00000433398.1_1_7:66071742-66071856:-|nuORF ENST00000433398.1_1_7:66071742-66071856:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 439.2818603515625 3 439.278702 1314.81428 NaN NaN NaN NaN NaN NaN NaN 68.377 1 68.63 68.13 69.13 0.25227 0 0 0 0.99995 1 31324 31324 1.7423 0.52744 1 13360 2991 8512 8534 15441 15441 0.16946111578613454 KKTRKKTRKRR 11 Unmodified _KKTRKKTRKRR_ 0 0 0 ENST00000361675.6_2_7:134618055-134618145:+|nuORF ENST00000361675.6_2_7:134618055-134618145:+|nuORF ENST00000361675.6_2_7:134618055-134618145:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 743.0631713867188 2 743.499867 1484.98518 NaN NaN NaN NaN NaN NaN NaN 109.28 1 109.59 109.09 110.09 0.31015 0 0 0 1.008 1 50381 50381 0.26902 0.26902 1 13361 7226 8513 8535 15442 15442 0.26208765221531394 KKTVILTIL 9 Unmodified _KKTVILTIL_ 0 0 0 ENSG00000164199|ENST00000405460|ADGRV1;ENST00000509621.1_3_5:89989878-90055411:+|nuORF ENSG00000164199|ENST00000405460|ADGRV1 ENSG00000164199|ENST00000405460|ADGRV1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.2544555664062 2 514.857535 1027.70052 NaN NaN NaN NaN NaN NaN NaN 63.553 1 63.553 63.053 64.053 0 0 0 0 0.91238 1 29915 29915 0.52476 0.066424 1 13362 4295 8514 8536 15443 15443 0.18777526964663593 KKVAKMLK 8 Unmodified _KKVAKMLK_ 0 0 0 REV__BMS1|p.K484Ifs*79|1|0.03|ENSG00000165733|chr10:42796694-42796695|-/TT|frameshift_variant REV__BMS1|p.K484Ifs*79|1|0.03|ENSG00000165733|chr10:42796694-42796695|-/TT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.22637939453125 2 473.317523 944.620493 NaN NaN NaN NaN NaN NaN NaN 73.35 1 73.609 73.109 74.109 0.25876 0 0 0 0.99035 1 33690 33690 2.3027 0 1 + 13363 9980 8515 8537 15444 15444 0.1459676208980909 KKVCLKKKK 9 Unmodified _KKVCLKKKK_ 0 0 0 Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|4|1|sense Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|4|1|sense Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|4|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.9337158203125 2 551.878279 1101.74201 NaN NaN NaN NaN NaN NaN NaN 74.191 1 74.878 74.378 75.378 0.68662 0 0 0 0.91238 1 35852 35852 0.52476 0 1 13364 9370 8516 8538 15445 15445 0.19520384452334838 KKVCTPKR 8 Unmodified _KKVCTPKR_ 0 0 0 ENST00000403491.7_1_1:61922313-61922541:+|nuORF ENST00000403491.7_1_1:61922313-61922541:+|nuORF ENST00000403491.7_1_1:61922313-61922541:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.63079833984375 2 480.294579 958.574605 NaN NaN NaN NaN NaN NaN NaN 13.78 1 13.78 13.28 14.28 0 0 0 0 0.9851 1 6050 6050 5.2307 0 1 13365 7620 8517 8539 15446 15446 0.0936611690758582 KKVGMKRM 8 Unmodified _KKVGMKRM_ 0 0 0 REV__nc|ENSG00000081760|Q86V21-2|AACS REV__nc|ENSG00000081760|Q86V21-2|AACS MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 326.87835693359375 3 326.529747 976.567412 2.4605 0.00080344 -2.535 -0.00082775 -0.074467 -2.4316E-05 326.5286354169786 12.789 0.35448 13.432 13.345 13.699 0.64272 14 10 2 0 0 0 0.13931 1 5801 5801 10.074 8.592 1 117450 + 13366 10610 8518 8540 15447 15447 0.07819061035513641 KKVGMKRM 8 Unmodified _KKVGMKRM_ 0 0 0 REV__nc|ENSG00000081760|Q86V21-2|AACS REV__nc|ENSG00000081760|Q86V21-2|AACS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 326.529747 976.567412 1.86 0.00060735 -0.42817 -0.00013981 1.4318 0.00046753 326.5287160749476 13.297 0.064565 13.604 13.554 13.619 0.30727 0.086079 0.0018727 NaN 10.074 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 50840 + 13367 10610 8518 8540 0.07819061035513641 KKVIKPKVLPR 11 Unmodified _KKVIKPKVLPR_ 0 0 0 REV__ENST00000452606.2_1_3:12880846-12881736:-|nuORF REV__ENST00000452606.2_1_3:12880846-12881736:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 653.1619873046875 2 653.458282 1304.90201 NaN NaN NaN NaN NaN NaN NaN 71.258 1 71.961 71.461 72.461 0.70386 0 0 0 1.008 1 34214 34214 0.30703 0 1 + 13368 12412 8519 8541 15448 15448 0.26175635721006074 KKVKGLSS 8 Unmodified _KKVKGLSS_ 0 0 0 REV__nc|ENSG00000028310|Q9H8M2-6|BRD9 REV__nc|ENSG00000028310|Q9H8M2-6|BRD9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.7740173339844 2 423.774003 845.533452 NaN NaN NaN NaN NaN NaN NaN 67.651 1 67.903 67.403 68.403 0.25195 0 0 0 0.99035 1 30989 30989 0 0 1 + 13369 17856 8520 8542 15449 15449 0.10450679139773911 KKVKHKKKGKK 11 Unmodified _KKVKHKKKGKK_ 0 0 0 NKTR|p.S1045Dfs*8|1|0.23|ENSG00000114857|chr3:42638836-42638837|-/GA|frameshift_variant;ENSG00000114857|ENST00000232978|NKTR;NKTR|p.N594Kfs*19|1|0.27|ENSG00000114857|chr3:42637481-42637482|-/A|frameshift_variant;NKTR|p.A881Lfs*115|1|0.07|ENSG00000114857|chr3:42638344-42638345|-/CTAAA|frameshift_variant NKTR|p.S1045Dfs*8|1|0.23|ENSG00000114857|chr3:42638836-42638837|-/GA|frameshift_variant NKTR|p.S1045Dfs*8|1|0.23|ENSG00000114857|chr3:42638836-42638837|-/GA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.9642944335938 2 668.966806 1335.91906 NaN NaN NaN NaN NaN NaN NaN 69.259 1 69.962 69.462 70.462 0.70218 0 0 0 1.008 1 33135 33135 0.30703 0 1 13370 1926 8521 8543 15450 15450 0.26453556326805483 KKVKKFKL 8 Unmodified _KKVKKFKL_ 0 0 0 REV__nc|ENSG00000169057|P51608|MECP2 REV__nc|ENSG00000169057|P51608|MECP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.2977600097656 2 509.860412 1017.70627 NaN NaN NaN NaN NaN NaN NaN 65.578 1 65.578 65.078 66.078 0 0 0 0 0.99035 1 31263 31263 0.69038 0 1 + 13371 13377 8522 8544 15451 15451 0.19812670266992427 KKVKKKKKKK 10 Unmodified _KKVKKKKKKK_ 0 0 0 RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant;ENSG00000187257|ENST00000334955|RSBN1L RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 635.9767456054688 2 635.974099 1269.93365 NaN NaN NaN NaN NaN NaN NaN 93.252 1 93.883 93.383 94.383 0.63115 0 0 0 1.002 1 42899 42899 0 0 1 13372 5611 8523 8545 15452 15452 0.309476284749735 KKVKLFCL 8 Unmodified _KKVKLFCL_ 0 0 0 ENSG00000117595|ENST00000367021|IRF6;nc|ENSG00000117595|O14896-2|IRF6 ENSG00000117595|ENST00000367021|IRF6 ENSG00000117595|ENST00000367021|IRF6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 327.2156982421875 3 326.877141 977.609594 1.8928 0.0006187 1.523 0.00049785 3.4158 0.0011165 326.87729174588645 13.391 0.43872 13.698 13.408 13.847 0.30727 71 31 4 0 0 0 0.66653 1 5998 5998 6.2058 2.2614 1 976740 13373 2082 8524 8546 15453 15453 0.1198935971552828 KKVKLKKLY 9 Unmodified _KKVKLKKLY_ 0 0 0 REV__ENSG00000143799|ENST00000366794|PARP1 REV__ENSG00000143799|ENST00000366794|PARP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.3822021484375 2 574.399902 1146.78525 NaN NaN NaN NaN NaN NaN NaN 73.442 1 74.141 73.641 74.641 0.69881 0 0 0 0.91238 1 35418 35418 0.52476 0.12405 1 + 13374 12378 8525 8547 15454 15454 0.21772897501273292 KKVKRKVK 8 Unmodified _KKVKRKVK_ 0 0 0 ENST00000371826.3_1_10:91066380-91066419:+|nuORF ENST00000371826.3_1_10:91066380-91066419:+|nuORF ENST00000371826.3_1_10:91066380-91066419:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.9531555175781 2 507.368936 1012.72332 3.4994 0.0017755 0.10307 5.2295E-05 3.6024 0.0018278 507.36893655545424 105.13 0.20122 105.73 105.59 105.79 0.59885 22 14 2 0 0 0 0.7471 1 48504 48504 0.69038 0 1 1009200 13375 7326 8526 8548 15455 15455 0.21746590872794513 KKVKRKVK 8 Unmodified _KKVKRKVK_ 0 0 0 ENST00000371826.3_1_10:91066380-91066419:+|nuORF ENST00000371826.3_1_10:91066380-91066419:+|nuORF ENST00000371826.3_1_10:91066380-91066419:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.9023132324219 2 507.368936 1012.72332 3.4995 0.0017755 -0.0050458 -2.5601E-06 3.4944 0.001773 507.3690149091811 105.44 0.13556 106.04 105.98 106.11 0.59969 10 6 2 0 0 0 0.14337 1 48696 48696 0.69038 0 1 987880 13376 7326 8526 8548 15456 15456 0.21746590872794513 KKVKRRKT 8 Unmodified _KKVKRRKT_ 0 0 0 ENSG00000135540|ENST00000343505|NHSL1 ENSG00000135540|ENST00000343505|NHSL1 ENSG00000135540|ENST00000343505|NHSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.9212646484375 2 522.361642 1042.70873 NaN NaN NaN NaN NaN NaN NaN 75.028 1 75.692 75.192 76.192 0.6635 0 0 0 0.99035 1 36313 36313 0.69038 0 1 13377 2879 8527 8549 15457 15457 0.18908518724651913 KKVLAKRRPDE 11 Unmodified _KKVLAKRRPDE_ 0 0 0 REV__NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant REV__NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.4107666015625 2 670.41206 1338.80957 NaN NaN NaN NaN NaN NaN NaN 69.095 1 69.798 69.298 70.298 0.70218 0 0 0 1.0059 1 33020 33020 2.9952 0.26005 1 + 13378 18186 8528 8550 15458 15458 0.1537150591682348 KKVLAPRVN 9 Unmodified _KKVLAPRVN_ 0 0 0 ENSG00000189046|ENST00000429722|ALKBH2 ENSG00000189046|ENST00000429722|ALKBH2 ENSG00000189046|ENST00000429722|ALKBH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 342.2135314941406 3 342.225709 1023.6553 NaN NaN NaN NaN NaN NaN NaN 82.759 1 83.006 82.506 83.506 0.24722 0 0 0 0.91014 1 38093 38093 1.0715 0.10919 1 13379 5699 8529 8551 15459 15459 0.14441721222135584 KKVLHPIR 8 Unmodified _KKVLHPIR_ 0 0 0 REV__ENSG00000225830|ENST00000355832|ERCC6 REV__ENSG00000225830|ENST00000355832|ERCC6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.2360534667969 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 76.404 1 76.404 75.904 76.904 0 0 0 0 0.99035 1 37442 37442 5.2307 2.6532 1 + 13380 14556 8530 8552 15460 15460 0.15458042430327623 KKVLKKKLK 9 Unmodified _KKVLKKKLK_ 0 0 0 ENST00000374791.7_1_11:132205045-132205564:+|nuORF ENST00000374791.7_1_11:132205045-132205564:+|nuORF ENST00000374791.7_1_11:132205045-132205564:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.33935546875 2 556.915719 1111.81688 NaN NaN NaN NaN NaN NaN NaN 72.475 1 73.179 72.679 73.679 0.70386 0 0 0 0.91238 1 34891 34891 0.52476 0 1 13381 7386 8531 8553 15461 15461 0.2654489025521798 KKVLKKMLKFL 11 Unmodified _KKVLKKMLKFL_ 0 0 0 nc|ENSG00000107669|O95260-2|ATE1;ENSG00000107669|ENST00000224652|ATE1 nc|ENSG00000107669|O95260-2|ATE1 nc|ENSG00000107669|O95260-2|ATE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 688.467041015625 2 688.464719 1374.91488 NaN NaN NaN NaN NaN NaN NaN 61.215 1 61.215 60.715 61.715 0 0 0 0 1.008 1 28532 28532 0.30703 0.30703 1 13382 1604 8532 8554 15462 15462 0.24242330788888466 KKVLKSTKL 9 Unmodified _KKVLKSTKL_ 0 0 0 nc|ENSG00000074527|Q9HB63-3|NTN4;nc|ENSG00000074527|Q9HB63-2|NTN4;ENSG00000074527|ENST00000343702|NTN4 nc|ENSG00000074527|Q9HB63-3|NTN4 nc|ENSG00000074527|Q9HB63-3|NTN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.7958374023438 2 522.860609 1043.70667 NaN NaN NaN NaN NaN NaN NaN 71.716 1 72.42 71.92 72.92 0.70386 0 0 0 0.90777 1 34468 34468 1.6526 0.17072 1 13383 818 8533 8555 15463 15463 0.18656045196166815 KKVLKSTKLKI 11 Unmodified _KKVLKSTKLKI_ 0 0 0 nc|ENSG00000074527|Q9HB63-3|NTN4;nc|ENSG00000074527|Q9HB63-2|NTN4;ENSG00000074527|ENST00000343702|NTN4 nc|ENSG00000074527|Q9HB63-3|NTN4 nc|ENSG00000074527|Q9HB63-3|NTN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.437255859375 2 643.450123 1284.88569 NaN NaN NaN NaN NaN NaN NaN 12.363 1 12.363 11.863 12.863 0 0 0 0 1.008 1 5351 5351 0.30703 0 1 13384 818 8534 8556 15464 15464 0.25464509764242393 KKVLLKVIIL 10 Unmodified _KKVLLKVIIL_ 0 0 0 ENST00000491681.1_1_3:128514210-128516981:+|nuORF;ENSG00000075785|ENST00000265062|RAB7A ENST00000491681.1_1_3:128514210-128516981:+|nuORF ENST00000491681.1_1_3:128514210-128516981:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.9339599609375 2 583.933577 1165.8526 NaN NaN NaN NaN NaN NaN NaN 65.396 1 65.396 64.896 65.896 0 0 0 0 1.0015 1 31156 31156 0.40072 0 1 13385 837 8535 8557 15465 15465 0.2763092771222091 KKVLLLIEL 9 Unmodified _KKVLLLIEL_ 0 0 0 REV__nc|ENSG00000138764|Q16589-2|CCNG2 REV__nc|ENSG00000138764|Q16589-2|CCNG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.286865234375 2 534.873185 1067.73182 NaN NaN NaN NaN NaN NaN NaN 70.895 1 70.895 70.395 71.395 0 0 0 0 0.91238 1 34443 34443 0.52476 0.12405 1 + 13386 12189 8536 8558 15466 15466 0.200660999987349 KKVMELLVHL 10 Unmodified _KKVMELLVHL_ 0 0 0 ENSG00000136813|ENST00000684092|ECPAS;nc|ENSG00000136813|Q5VYK3|ECPAS ENSG00000136813|ENST00000684092|ECPAS ENSG00000136813|ENST00000684092|ECPAS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 605.1708374023438 2 605.373026 1208.7315 NaN NaN NaN NaN NaN NaN NaN 74.025 1 74.69 74.19 75.19 0.6644 0 0 0 0.99976 1 34065 34065 3.9444 2.1002 1 13387 2975 8537 8559 15467 15467 0.13548357007266532 KKVNKLICTM 10 Unmodified _KKVNKLICTM_ 0 0 0 REV__ENST00000475892.5_2_13:37619503-37622072:-|nuORF REV__ENST00000475892.5_2_13:37619503-37622072:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.3448486328125 2 589.343412 1176.67227 3.8184 0.0022503 -0.50822 -0.00029951 3.3102 0.0019508 589.3430058868945 87.609 1.6161 88.285 87.488 89.104 0.67555 193 74 4 0 0 0 0.93713 1 40063 40063 1.4819 0 1 4219400 + 13388 16533 8538 8560 15468 15468 0.09100137721407009 KKVPIKEI 8 Unmodified _KKVPIKEI_ 0 0 0 ENST00000417796.1_1_9:84702254-84702629:-|nuORF ENST00000417796.1_1_9:84702254-84702629:-|nuORF ENST00000417796.1_1_9:84702254-84702629:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 477.8238525390625 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 27.447 1 27.709 27.209 28.209 0.26245 0 0 0 0.99035 1 12478 12478 0.79363 0 1 13389 7725 8539 8561 15469 15469 0.14868398242049352 KKVQKFPEYRV 11 Unmodified _KKVQKFPEYRV_ 0 0 0 nc|ENSG00000138380|Q8N187-3|CARF;ENSG00000138380|ENST00000438828|CARF nc|ENSG00000138380|Q8N187-3|CARF nc|ENSG00000138380|Q8N187-3|CARF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.68231201171875 3 474.613633 1420.81907 NaN NaN NaN NaN NaN NaN NaN 67.442 1 67.442 66.942 67.942 0 0 0 0 1.0044 1 32353 32353 2.2527 1.0379 1 13390 3089 8540 8562 15470 15470 0.1254927420234253 KKVQLEHLEF 10 Unmodified _KKVQLEHLEF_ 0 0 0 nc|ENSG00000101333|Q15147-2|PLCB4;ENST00000464199.5_1_20:9351789-9459633:+|nuORF;nc|ENSG00000101333|Q15147|PLCB4;nc|ENSG00000101333|Q15147-5|PLCB4;nc|ENSG00000101333|Q15147-4|PLCB4;ENSG00000101333|ENST00000378473|PLCB4 nc|ENSG00000101333|Q15147-2|PLCB4 nc|ENSG00000101333|Q15147-2|PLCB4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 424.2465515136719 3 424.243317 1269.70812 NaN NaN NaN NaN NaN NaN NaN 102.24 1 102.84 102.34 103.34 0.59759 0 0 0 1.0004 1 47328 47328 0.56317 0.42328 1 13391 1283 8541 8563 15471 15471 0.08405634494283731 KKVRLWIFFKQ 11 Unmodified _KKVRLWIFFKQ_ 0 0 0 REV__ENST00000376083.7_2_9:88296229-88307675:-|nuORF REV__ENST00000376083.7_2_9:88296229-88307675:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.9373779296875 3 498.309885 1491.90782 4.0585 0.0020224 -0.82721 -0.00041221 3.2313 0.0016102 498.30934197837206 106.05 0.19218 106.36 106.24 106.43 0.31628 22 7 4 0 0 0 0.91459 1 48918 48918 0.094841 0.094841 1 3840400 + 13392 15817 8542 8564 15472 15472 0.1815473423266667 KKVRMIRLLKI 11 Unmodified _KKVRMIRLLKI_ 0 0 0 ENST00000519443.1_1_8:117778842-117782740:+|nuORF ENST00000519443.1_1_8:117778842-117782740:+|nuORF ENST00000519443.1_1_8:117778842-117782740:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 699.4794921875 2 699.478692 1396.94283 NaN NaN NaN NaN NaN NaN NaN 85.48 1 86.145 85.645 86.645 0.66566 0 0 0 1.0082 1 39362 39362 0 0 1 13393 8624 8543 8565 15473 15473 0.26023653768993427 KKWGKIKL 8 Unmodified _KKWGKIKL_ 0 0 0 REV__L1M1_dup8526|chr15:66988154-66991154:+|1.855404616008009|0.3427794237982891|2.44|523.0|25|1|sense REV__L1M1_dup8526|chr15:66988154-66991154:+|1.855404616008009|0.3427794237982891|2.44|523.0|25|1|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.3455810546875 2 500.836937 999.659321 3.4439 0.0017248 -2.7581 -0.0013813 0.68582 0.00034348 500.8354787651564 102.95 0.17921 103.55 103.47 103.65 0.59759 7 5 2 0 0 0 0.14337 1 47647 47647 0.69038 0 1 233160 + 13394 17754 8544 8566 15474 15474 0.15947810715829291 KKWKMRRNQFW 11 Unmodified _KKWKMRRNQFW_ 0 0 0 REV__ENSG00000260027|ENST00000239165|HOXB7;REV__ENSG00000122592|ENST00000242159|HOXA7 REV__ENSG00000122592|ENST00000242159|HOXA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.700439453125 3 536.629512 1606.86671 NaN NaN NaN NaN NaN NaN NaN 68.42 1 68.42 67.92 68.92 0 0 0 0 1.008 1 32941 32941 0.08335 0 1 + 13395 11146;11589 8545 8567 15475 15475 0.0875464992157049 KKWKTRRNQFW 11 Unmodified _KKWKTRRNQFW_ 0 0 0 REV__ENSG00000229544|ENST00000451024|NKX1-2 REV__ENSG00000229544|ENST00000451024|NKX1-2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.6340942382812 3 526.631909 1576.8739 NaN NaN NaN NaN NaN NaN NaN 78.51 1 78.51 78.01 79.01 0 0 0 0 1.008 1 38604 38604 0.08335 0 1 + 13396 14568 8546 8568 15476 15476 0.1085370579364735 KKWLRRLVCRR 11 Unmodified _KKWLRRLVCRR_ 0 0 0 REV__ENST00000371818.8_1_10:91098866-91098998:+|nuORF REV__ENST00000371818.8_1_10:91098866-91098998:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 757.4755249023438 2 757.472264 1512.92997 NaN NaN NaN NaN NaN NaN NaN 74.448 1 74.448 73.948 74.948 0 0 0 0 1.0079 1 36367 36367 1.1933 0.88631 1 + 13397 15741 8547 8569 15477 15477 0.1940263542944649 KKWWQWRRRKM 11 Unmodified _KKWWQWRRRKM_ 0 0 0 REV__ENST00000324344.8_1_16:20911624-20911678:-|nuORF REV__ENST00000324344.8_1_16:20911624-20911678:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 844.9765625 2 844.97517 1687.93579 NaN NaN NaN NaN NaN NaN NaN 56.366 1 57.144 56.644 57.644 0.77786 0 0 0 1.0082 1 25769 25769 0 0 1 + 13398 15340 8548 8570 15478 15478 0.119337339411004 KKWWRRKYLEF 11 Unmodified _KKWWRRKYLEF_ 0 0 0 ENST00000433473.7_1_1:40558092-40558149:-|nuORF ENST00000433473.7_1_1:40558092-40558149:-|nuORF ENST00000433473.7_1_1:40558092-40558149:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 820.46728515625 2 820.464627 1638.9147 NaN NaN NaN NaN NaN NaN NaN 70.113 1 70.113 69.613 70.613 0 0 0 0 1.008 1 33966 33966 0.30703 0.30703 1 13399 7872 8549 8571 15479 15479 0.12080047113272485 KKWWRRKYLEF 11 Unmodified _KKWWRRKYLEF_ 0 0 0 ENST00000433473.7_1_1:40558092-40558149:-|nuORF ENST00000433473.7_1_1:40558092-40558149:-|nuORF ENST00000433473.7_1_1:40558092-40558149:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 820.4677734375 2 820.464627 1638.9147 NaN NaN NaN NaN NaN NaN NaN 83.103 1 83.103 82.603 83.603 0 0 0 0 1.0082 1 41784 41784 0 0 1 13400 7872 8549 8571 15480 15480 0.12080047113272485 KKWWRRKYLEF 11 Unmodified _KKWWRRKYLEF_ 0 0 0 ENST00000433473.7_1_1:40558092-40558149:-|nuORF ENST00000433473.7_1_1:40558092-40558149:-|nuORF ENST00000433473.7_1_1:40558092-40558149:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 820.1046142578125 2 820.464627 1638.9147 NaN NaN NaN NaN NaN NaN NaN 87.061 1 87.101 86.601 87.601 0.039955 0 0 0 1.0082 1 43969 43969 0 0 1 13401 7872 8549 8571 15481 15481 0.12080047113272485 KKWWRRKYLEF 11 Unmodified _KKWWRRKYLEF_ 0 0 0 ENST00000433473.7_1_1:40558092-40558149:-|nuORF ENST00000433473.7_1_1:40558092-40558149:-|nuORF ENST00000433473.7_1_1:40558092-40558149:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 820.4647827148438 2 820.464627 1638.9147 NaN NaN NaN NaN NaN NaN NaN 60.342 1 61.007 60.507 61.507 0.66503 0 0 0 1.0082 1 27628 27628 0 0 1 13402 7872 8549 8571 15482 15482 0.12080047113272485 KKYHFYYWFCY 11 Unmodified _KKYHFYYWFCY_ 0 0 0 nc|ENSG00000197548|O95352-2|ATG7;ENSG00000197548|ENST00000693202|ATG7 nc|ENSG00000197548|O95352-2|ATG7 nc|ENSG00000197548|O95352-2|ATG7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.9200439453125 3 549.919957 1646.73804 NaN NaN NaN NaN NaN NaN NaN 73.598 1 73.598 73.098 74.098 0 0 0 0 1.0082 1 35902 35902 0.08335 0.08335 1 13403 5824 8550 8572 15483 15483 -0.059457498320171 KKYKKLLS 8 Unmodified _KKYKKLLS_ 0 0 0 REV__AluY_dup35442|chr6:31180952-31181248:+|1.2318935688957755|0.3455076719651447|1.83|538.0|10|3|sense REV__AluY_dup35442|chr6:31180952-31181248:+|1.2318935688957755|0.3455076719651447|1.83|538.0|10|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.3350830078125 2 504.334227 1006.6539 NaN NaN NaN NaN NaN NaN NaN 97.203 1 97.805 97.305 98.305 0.6019 0 0 0 0.99035 1 44694 44694 0.69038 0 1 + 13404 9958 8551 8573 15484 15484 0.15084087133379853 KKYPLIRASYE 11 Unmodified _KKYPLIRASYE_ 0 0 0 ENSG00000100350|ENST00000397224|FOXRED2;nc|ENSG00000100350|Q8IWF2-2|FOXRED2 ENSG00000100350|ENST00000397224|FOXRED2 ENSG00000100350|ENST00000397224|FOXRED2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.5968322753906 3 456.594238 1366.76089 NaN NaN NaN NaN NaN NaN NaN 35.19 1 35.19 34.69 35.69 0 0 0 0 0.98464 1 15962 15962 4.1166 1.4854 1 13405 1209 8552 8574 15485 15485 0.09217592557115495 KKYRQVICI 9 Unmodified _KKYRQVICI_ 0 0 0 ENST00000474162.1_1_5:60686735-60687614:-|nuORF ENST00000474162.1_1_5:60686735-60687614:-|nuORF ENST00000474162.1_1_5:60686735-60687614:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.8453369140625 2 575.841894 1149.66923 3.8342 0.0022079 0.86034 0.00049542 4.6946 0.0027033 575.8429567145848 85.461 1.5858 86.127 85.344 86.93 0.66566 128 85 2 0 0 0 1.0894 1 39180 39180 4.3292 0.73274 1 2449700 13406 8204 8553 8575 15486 15486 0.10038630658937109 KKYRSIMPK 9 Unmodified _KKYRSIMPK_ 0 0 0 nc|ENSG00000183621|Q7Z4V0-3|ZNF438;nc|ENSG00000183621|Q7Z4V0-2|ZNF438;ENSG00000183621|ENST00000436087|ZNF438 nc|ENSG00000183621|Q7Z4V0-3|ZNF438 nc|ENSG00000183621|Q7Z4V0-3|ZNF438 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.8449096679688 2 575.841894 1149.66923 3.8342 0.0022079 0.86034 0.00049542 4.6946 0.0027033 575.8429567145848 85.461 1.5858 86.127 85.344 86.93 0.66566 128 85 2 0 0 0 1.0894 4 39488 39259;39443;39488;39647 4.3292 2.2695 1 2449700 13407 5392 8554 8576 15487;15488;15489;15490 15489 0.10038630658914371 KKYYIRWKHYE 11 Unmodified _KKYYIRWKHYE_ 0 0 0 REV__nc|ENSG00000009950|Q9NP71-4|MLXIPL REV__nc|ENSG00000009950|Q9NP71-4|MLXIPL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.4359130859375 2 807.432993 1612.85143 NaN NaN NaN NaN NaN NaN NaN 76.027 1 76.027 75.527 76.527 0 0 0 0 1.008 1 37259 37259 0.30703 0.03801 1 + 13408 10218 8555 8577 15491 15491 0.06952061605375093 KLAALGGG 8 Unmodified _KLAALGGG_ 0 0 0 ENSG00000176058|ENST00000409012|TPRN ENSG00000176058|ENST00000409012|TPRN ENSG00000176058|ENST00000409012|TPRN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.7030944824219 2 343.713414 685.412274 NaN NaN NaN NaN NaN NaN NaN 39.188 1 39.826 39.326 40.326 0.63778 0 0 0 0.99035 1 17913 17913 0.79363 0 1 13409 5062 8556 8578 15492 15492 0.05698476497104821 KLAGRAAA 8 Unmodified _KLAGRAAA_ 0 0 0 REV__nc|ENSG00000066032|P26232-3|CTNNA2 REV__nc|ENSG00000066032|P26232-3|CTNNA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.24932861328125 2 379.237587 756.460622 NaN NaN NaN NaN NaN NaN NaN 76.672 1 77.296 76.796 77.796 0.62397 0 0 0 0.99035 1 37171 37171 2.5775 0 1 + 13410 10438 8557 8579 15493 15493 0.07264970136975535 KLAKRLKPLK 10 Unmodified _KLAKRLKPLK_ 0 0 0 ENSG00000171729|ENST00000376008|TMEM51 ENSG00000171729|ENST00000376008|TMEM51 ENSG00000171729|ENST00000376008|TMEM51 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 597.5220336914062 2 597.924075 1193.8336 NaN NaN NaN NaN NaN NaN NaN 82.054 1 82.138 81.638 82.638 0.084106 0 0 0 1.0003 1 40449 40449 1.4819 1.0236 1 13411 4827 8558 8580 15494 15494 0.2444339114115337 KLARNLHRQRL 11 Unmodified _KLARNLHRQRL_ 0 0 0 REV__ENST00000314045.11_1_12:113596430-113596655:-|nuORF REV__ENST00000314045.11_1_12:113596430-113596655:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 468.9601135253906 3 468.960138 1403.85858 1.5338 0.00071928 -0.51438 -0.00024122 1.0194 0.00047805 468.95972131191553 105.95 0.16957 106 105.89 106.06 0.04837 22 9 3 0 0 0 0.91345 1 57327 57327 0.45452 0 1 2964900 + 13412 15279 8559 8581 15495 15495 0.17280838996430248 KLCLSLWRA 9 Unmodified _KLCLSLWRA_ 0 0 0 REV__ENST00000275364.7_1_7:2769435-2769543:-|nuORF REV__ENST00000275364.7_1_7:2769435-2769543:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.8850708007812 2 545.315512 1088.61647 NaN NaN NaN NaN NaN NaN NaN 98.092 1 98.381 97.881 98.881 0.28923 0 0 0 0.88916 1 45128 45128 6.2058 0 1 + 13413 15075 8560 8582 15496 15496 0.07570672596102668 KLDLKPGKVDV 11 Unmodified _KLDLKPGKVDV_ 0 0 0 REV__AHNAK2|p.S4999Lfs*33|1|0.15|ENSG00000185567|chr14:104940456-104940456|A/-|frameshift_variant REV__AHNAK2|p.S4999Lfs*33|1|0.15|ENSG00000185567|chr14:104940456-104940456|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.5854187011719 3 404.583451 1210.72852 NaN NaN NaN NaN NaN NaN NaN 60.154 1 60.154 59.654 60.654 0 0 0 0 0.99571 1 27891 27891 3.5927 0 1 + 13414 9935 8561 8583 15497 15497 0.13158805154080255 KLDREVESL 9 Unmodified _KLDREVESL_ 0 0 0 REV__ENSG00000104450|ENST00000388798|SPAG1 REV__ENSG00000104450|ENST00000388798|SPAG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.8016967773438 2 544.800946 1087.58734 3.6239 0.0019743 -0.15295 -8.3328E-05 3.471 0.001891 544.8010291830335 36.27 0.74752 36.896 36.665 37.413 0.62631 87 27 5 0 0 0 0.46674 1 16817 16817 13.042 0 1 42070000 + 13415 10993 8562 8584 15498 15498 0.04704806780819126 KLDWLGPLLR 10 Unmodified _KLDWLGPLLR_ 0 0 0 REV__ENST00000327569.7_1_X:138880873-138882264:-|nuORF REV__ENST00000327569.7_1_X:138880873-138882264:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.24969482421875 3 404.248403 1209.72338 2.4016 0.00097084 0.93317 0.00037723 3.3348 0.0013481 404.24869936792953 57.104 0.44711 57.882 57.656 58.103 0.77786 121 45 3 0 0 0 0.90216 1 26196 26196 3.5871 0 1 7043900 + 13416 15358 8563 8585 15499 15499 0.12690546082126275 KLDWLGPLLR 10 Unmodified _KLDWLGPLLR_ 0 0 0 REV__ENST00000327569.7_1_X:138880873-138882264:-|nuORF REV__ENST00000327569.7_1_X:138880873-138882264:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.24981689453125 3 404.248403 1209.72338 2.9347 0.0011863 0.9044 0.0003656 3.8391 0.0015519 404.2486472297067 57.06 0.4804 57.324 57.11 57.591 0.26444 89 28 4 0 0 0 0.89607 1 26161 26161 3.8763 3.8763 1 20340000 + 13417 15358 8563 8585 15500 15500 0.12690546082126275 KLEKKRIKKRK 11 Unmodified _KLEKKRIKKRK_ 0 0 0 nc|ENSG00000198055|P43250-3|GRK6;ENSG00000198055|ENST00000355472|GRK6;nc|ENSG00000198055|P43250-2|GRK6 nc|ENSG00000198055|P43250-3|GRK6 nc|ENSG00000198055|P43250-3|GRK6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 728.0047607421875 2 728.003919 1453.99329 NaN NaN NaN NaN NaN NaN NaN 104.54 1 105.14 104.64 105.64 0.59885 0 0 0 1.0082 1 48296 48296 0 0 1 13418 5863 8564 8586 15501 15501 0.28444899418309433 KLEKYLQKL 9 Unmodified _KLEKYLQKL_ 0 0 0 ENSG00000206181|ENST00000332567|ELOA2 ENSG00000206181|ENST00000332567|ELOA2 ENSG00000206181|ENST00000332567|ELOA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 388.2457580566406 3 388.244658 1161.71214 2.6927 0.0010454 0.40604 0.00015764 3.0988 0.0012031 388.24479907966185 14.969 0.45308 14.969 14.755 15.208 0 144 51 3 0 0 0 0.96953 1 6654 6654 4.5289 0.93237 1 370640 13419 6068 8565 8587 15502 15502 0.13775723987987476 KLELAKNPLSV 11 Unmodified _KLELAKNPLSV_ 0 0 0 REV__ENST00000580206.1_1_18:14797682-14816454:+|nuORF REV__ENST00000580206.1_1_18:14797682-14816454:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 606.3723754882812 2 606.371538 1210.72852 NaN NaN NaN NaN NaN NaN NaN 87.968 1 88.219 87.719 88.719 0.25064 0 0 0 1.0065 1 40481 40481 2.2828 0.80087 1 + 13420 13829 8566 8588 15503 15503 0.13158805154057518 KLFKKYIKLQA 11 Unmodified _KLFKKYIKLQA_ 0 0 0 REV__nc|ENSG00000054654|Q8WXH0|SYNE2 REV__nc|ENSG00000054654|Q8WXH0|SYNE2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 690.44482421875 2 690.442298 1378.87004 3.95 0.0027273 1.1803 0.0008149 5.1303 0.0035422 690.4430757037934 46.623 0.30387 46.889 46.62 46.924 0.26561 17 10 2 0 0 0 0.91137 1 21235 21235 2.7352 0.23671 1 1081700 + 13421 10365 8567 8589 15504 15504 0.1957622324721342 KLFPRWRWQRL 11 Unmodified _KLFPRWRWQRL_ 0 0 0 REV__ENST00000341285.7_2_4:15656858-15657005:-|nuORF REV__ENST00000341285.7_2_4:15656858-15657005:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.3145751953125 3 529.3124 1584.91537 4.0458 0.0021415 0.057222 3.0289E-05 4.103 0.0021718 529.3121232837943 106.22 0.14741 106.53 106.43 106.58 0.31628 13 4 4 0 0 0 0.91489 1 49028 49028 0 0 1 1173700 + 13422 15463 8568 8590 15505 15505 0.14630886552959055 KLFPRWRWQRL 11 Unmodified _KLFPRWRWQRL_ 0 0 0 REV__ENST00000341285.7_2_4:15656858-15657005:-|nuORF REV__ENST00000341285.7_2_4:15656858-15657005:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 529.3124 1584.91537 2.7752 0.0014689 0.15265 8.0798E-05 2.9278 0.0015497 529.6466459662107 106.16 0.15417 106.16 106.08 106.23 0 -0.18668 8.8712E-05 NaN 0 12 6 3 NaN NaN NaN NaN 0 NaN NaN 0 811550 + 13423 15463 8568 8590 0.14630886552959055 KLFWKKVVC 9 Unmodified _KLFWKKVVC_ 0 0 0 nc|ENSG00000064787|O75363-2|BCAS1 nc|ENSG00000064787|O75363-2|BCAS1 nc|ENSG00000064787|O75363-2|BCAS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.8489379882812 2 575.843905 1149.67326 3.29 0.0018945 -0.57804 -0.00033286 2.7119 0.0015617 575.8435222989214 83.366 1.0367 83.613 83.296 84.333 0.24722 91 61 2 0 0 0 1.1154 1 38414 38414 2.0598 0.40713 1 441470 13424 9553 8569 8591 15506 15506 0.10440720152632821 KLFWKKVVC 9 Unmodified _KLFWKKVVC_ 0 0 0 nc|ENSG00000064787|O75363-2|BCAS1 nc|ENSG00000064787|O75363-2|BCAS1 nc|ENSG00000064787|O75363-2|BCAS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.84423828125 2 575.843905 1149.67326 NaN NaN NaN NaN NaN NaN NaN 86.901 1 87.151 86.651 87.651 0.24974 0 0 0 0.90699 1 40002 40002 1.8442 0.19162 1 13425 9553 8569 8591 15507 15507 0.10440720152632821 KLFWKKVVC 9 Unmodified _KLFWKKVVC_ 0 0 0 nc|ENSG00000064787|O75363-2|BCAS1 nc|ENSG00000064787|O75363-2|BCAS1 nc|ENSG00000064787|O75363-2|BCAS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.845703125 2 575.843905 1149.67326 3.8222 0.002201 -1.294 -0.00074515 2.5282 0.0014558 575.8430594058395 82.924 0.89204 83.584 83.418 84.31 0.66019 71 51 2 0 0 0 1.129 1 38283 38283 1.8442 0.19162 1 573980 13426 9553 8569 8591 15508 15508 0.10440720152632821 KLFWKKVVC 9 Unmodified _KLFWKKVVC_ 0 0 0 nc|ENSG00000064787|O75363-2|BCAS1 nc|ENSG00000064787|O75363-2|BCAS1 nc|ENSG00000064787|O75363-2|BCAS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.845947265625 2 575.843905 1149.67326 NaN NaN NaN NaN NaN NaN NaN 86.956 1 87.631 87.131 88.131 0.67555 0 0 0 0.90611 1 40054 40054 2.0598 0.40713 1 13427 9553 8569 8591 15509 15509 0.10440720152632821 KLGLLGGK 8 Unmodified _KLGLLGGK_ 0 0 0 nc|ENSG00000170004|Q12873-2|CHD3;ENSG00000170004|ENST00000330494|CHD3;nc|ENSG00000170004|Q12873-3|CHD3;ENST00000572579.1_1_17:7796637-7797935:+|nuORF nc|ENSG00000170004|Q12873-2|CHD3 nc|ENSG00000170004|Q12873-2|CHD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.266845703125 2 393.265813 784.517074 2.6619 0.0010468 0.22294 8.7675E-05 2.8848 0.0011345 393.2660331330825 15.744 0.50157 15.744 15.561 16.063 0 89 61 2 0 0 0 0.71384 2 6970 6970;7022 4.756 0 1 60060 13428 4727 8570 8592 15510;15511 15510 0.11619597973663076 KLGLLGGK 8 Unmodified _KLGLLGGK_ 0 0 0 nc|ENSG00000170004|Q12873-2|CHD3;ENSG00000170004|ENST00000330494|CHD3;nc|ENSG00000170004|Q12873-3|CHD3;ENST00000572579.1_1_17:7796637-7797935:+|nuORF nc|ENSG00000170004|Q12873-2|CHD3 nc|ENSG00000170004|Q12873-2|CHD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 393.2668762207031 2 393.265813 784.517074 2.5805 0.0010148 0.20124 7.9141E-05 2.7817 0.001094 393.2659366794627 14.766 0.21577 14.992 14.893 15.109 0.22622 20 13 2 0 0 0 0.61796 1 6495 6495 12.532 0 1 160170 13429 4727 8570 8592 15512 15512 0.11619597973663076 KLGSLAKPHIF 11 Unmodified _KLGSLAKPHIF_ 0 0 0 REV__ENSG00000205213|ENST00000379214|LGR4 REV__ENSG00000205213|ENST00000379214|LGR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.6898193359375 4 303.438121 1209.72338 1.9963 0.00060574 1.0941 0.000332 3.0904 0.00093774 303.43840642999623 57.115 0.47405 57.893 57.612 58.086 0.77786 152 46 4 0 0 0 0.89544 2 26048 26048;26092 2.6312 0.54523 1 9890600 + 13430 14455 8571 8593 15513;15514 15513 0.12690546082126275 KLGSLAKPHIF 11 Unmodified _KLGSLAKPHIF_ 0 0 0 REV__ENSG00000205213|ENST00000379214|LGR4 REV__ENSG00000205213|ENST00000379214|LGR4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.6898193359375 4 303.438121 1209.72338 1.9963 0.00060574 1.0941 0.000332 3.0904 0.00093774 303.43840642999623 57.115 0.47405 57.893 57.612 58.086 0.77786 152 46 4 0 0 0 0.13295 1 26048 26048 2.6312 0.54523 1 9890600 + 13431 14455 8571 8593 15515 15515 0.12690546082126275 KLHDQQDM 8 Unmodified _KLHDQQDM_ 0 0 0 REV__ENST00000524413.5_1_10:25313092-25313269:+|nuORF REV__ENST00000524413.5_1_10:25313092-25313269:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.2942810058594 2 507.737291 1013.46003 3.4137 0.0017333 4.1543 0.0021093 7.568 0.0038426 508.24011679946335 36.189 0.64396 36.815 36.601 37.245 0.62631 28 21 2 0 0 0 0.14021 1 16627 16627 7.9102 0.62092 1 294950 + 13432 17075 8572 8594 15516 15516 -0.0461623736501906 KLHGKSSR 8 Unmodified _KLHGKSSR_ 0 0 0 REV__nc|ENSG00000138756|Q9NSY1-2|BMP2K REV__nc|ENSG00000138756|Q9NSY1-2|BMP2K MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.77337646484375 2 456.772326 911.530098 3.0894 0.0014112 0.050175 2.2918E-05 3.1396 0.0014341 456.77221093474145 83.855 0.38664 84.518 84.288 84.675 0.66219 62 24 4 0 0 0 0.7441 1 38616 38616 2.3027 0 1 3334500 + 13433 17961 8573 8595 15517 15517 0.07079429085752054 KLHKEIRKKKI 11 Unmodified _KLHKEIRKKKI_ 0 0 0 nc|ENSG00000189221|P21397-2|MAOA;ENSG00000189221|ENST00000338702|MAOA nc|ENSG00000189221|P21397-2|MAOA nc|ENSG00000189221|P21397-2|MAOA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 711.4053955078125 2 710.97737 1419.94019 NaN NaN NaN NaN NaN NaN NaN 95.295 1 95.377 94.877 95.877 0.082001 0 0 0 1.0082 1 50339 50339 0 0 1 13434 5708 8574 8596 15518 15518 0.24701521635665813 KLHLKKKKKKK 11 Unmodified _KLHLKKKKKKK_ 0 0 0 AluSq2_dup55006|chr19:8369454-8369753:-|2.2471973506835523|0.4009960526132836|2.49|534.0|6|2|sense AluSq2_dup55006|chr19:8369454-8369753:-|2.2471973506835523|0.4009960526132836|2.49|534.0|6|2|sense AluSq2_dup55006|chr19:8369454-8369753:-|2.2471973506835523|0.4009960526132836|2.49|534.0|6|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 704.0043334960938 2 704.005931 1405.99731 NaN NaN NaN NaN NaN NaN NaN 16.766 1 16.766 16.266 17.266 0 0 0 0 1.0082 1 7435 7435 0 0 1 13435 40 8575 8597 15519 15519 0.3105498891204661 KLHLLPNKP 9 Unmodified _KLHLLPNKP_ 0 0 0 REV__ENST00000413697.5_1_2:100019089-100065949:-|nuORF REV__ENST00000413697.5_1_2:100019089-100065949:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.33740234375 2 530.337301 1058.66005 NaN NaN NaN NaN NaN NaN NaN 99.197 1 99.259 98.759 99.759 0.062241 0 0 0 0.89683 1 53556 53556 4.3292 0 1 + 13436 12049 8576 8598 15520 15520 0.13306605364869029 KLHRKLTV 8 Unmodified _KLHRKLTV_ 0 0 0 nc|ENSG00000150527|Q96PC5-6|MIA2;nc|ENSG00000150527|Q96PC5-11|MIA2;nc|ENSG00000150527|Q96PC5-13|MIA2;nc|ENSG00000150527|Q96PC5-5|MIA2;nc|ENSG00000150527|Q96PC5-8|MIA2;nc|ENSG00000150527|Q96PC5-10|MIA2;nc|ENSG00000150527|Q96PC5-9|MIA2;nc|ENSG00000150527|Q96PC5-14|MIA2;nc|ENSG00000150527|Q96PC5-7|MIA2;nc|ENSG00000150527|Q96PC5-12|MIA2;ENSG00000150527|ENST00000640607|MIA2 nc|ENSG00000150527|Q96PC5-6|MIA2 nc|ENSG00000150527|Q96PC5-6|MIA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 332.2231140136719 3 332.222188 993.644734 NaN NaN NaN NaN NaN NaN NaN 58.537 1 58.537 58.037 59.037 0 0 0 0 0.99035 1 27018 27018 1.6526 0 1 13437 3669 8577 8599 15521 15521 0.14765738567678 KLHYILWNYHF 11 Unmodified _KLHYILWNYHF_ 0 0 0 REV__ENST00000477549.1_1_3:153994520-153995479:-|nuORF REV__ENST00000477549.1_1_3:153994520-153995479:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 767.403564453125 2 767.403704 1532.79285 NaN NaN NaN NaN NaN NaN NaN 68.92 1 69.623 69.123 70.123 0.70218 0 0 0 1.0079 1 32901 32901 1.1933 0.84271 1 + 13438 13651 8578 8600 15522 15522 0.04777005030905457 KLIFIILKKIL 11 Unmodified _KLIFIILKKIL_ 0 0 0 REV__ENST00000531550.1_1_11:118007744-118012097:-|nuORF REV__ENST00000531550.1_1_11:118007744-118012097:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 671.4857177734375 2 671.483434 1340.95232 NaN NaN NaN NaN NaN NaN NaN 22.507 1 23.095 22.595 23.595 0.58739 0 0 0 1.0082 1 10013 10013 0 0 1 + 13439 13726 8579 8601 15523 15523 0.29547745326203767 KLIIRLFL 8 Unmodified _KLIIRLFL_ 0 0 0 nc|ENSG00000133318|O95197-3|RTN3;nc|ENSG00000133318|O95197-5|RTN3;nc|ENSG00000133318|O95197-4|RTN3;nc|ENSG00000133318|O95197-7|RTN3;nc|ENSG00000133318|O95197-2|RTN3;ENSG00000133318|ENST00000377819|RTN3 nc|ENSG00000133318|O95197-3|RTN3 nc|ENSG00000133318|O95197-3|RTN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.21832275390625 3 339.239067 1014.69537 NaN NaN NaN NaN NaN NaN NaN 72.722 1 72.722 72.222 73.222 0 0 0 0 0.99035 1 35382 35382 0.45834 0 1 13440 2758 8580 8602 15524 15524 0.1886126789268019 KLIKKLHIQIV 11 Unmodified _KLIKKLHIQIV_ 0 0 0 REV__ENST00000393415.7_1_12:69229612-69230524:+|nuORF REV__ENST00000393415.7_1_12:69229612-69230524:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 666.65234375 2 666.958115 1331.90168 NaN NaN NaN NaN NaN NaN NaN 81.918 1 82.002 81.502 82.502 0.084106 0 0 0 1.008 1 40356 40356 0.30703 0.30703 1 + 13441 15951 8581 8603 15525 15525 0.24900216001174158 KLILKQALIVV 11 Unmodified _KLILKQALIVV_ 0 0 0 ENSG00000059588|ENST00000040877|TARBP1 ENSG00000059588|ENST00000040877|TARBP1 ENSG00000059588|ENST00000040877|TARBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.5183715820312 2 619.433941 1236.85333 NaN NaN NaN NaN NaN NaN NaN 67.234 1 67.234 66.734 67.734 0 0 0 0 1.0059 1 32201 32201 2.9952 1.5133 1 13442 636 8582 8604 15526 15526 0.24437722361244596 KLILLITKLVH 11 Unmodified _KLILLITKLVH_ 0 0 0 REV__ENSG00000117501|ENST00000367759|MROH9 REV__ENSG00000117501|ENST00000367759|MROH9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.6968383789062 2 645.947216 1289.87988 NaN NaN NaN NaN NaN NaN NaN 68.303 1 69.006 68.506 69.506 0.70218 0 0 0 1.0072 1 32560 32560 1.3295 0.13619 1 + 13443 11445 8583 8605 15527 15527 0.24653411252575097 KLIRKKKRYRI 11 Unmodified _KLIRKKKRYRI_ 0 0 0 REV__nc|ENSG00000079263|Q13342-3|SP140 REV__nc|ENSG00000079263|Q13342-3|SP140 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 751.5126953125 2 751.511912 1501.00927 NaN NaN NaN NaN NaN NaN NaN 56.241 1 57.019 56.519 57.519 0.77786 0 0 0 1.0082 1 25706 25706 0 0 1 + 13444 10577 8584 8606 15528 15528 0.27880605655263935 KLIRKKKRYRI 11 Unmodified _KLIRKKKRYRI_ 0 0 0 REV__nc|ENSG00000079263|Q13342-3|SP140 REV__nc|ENSG00000079263|Q13342-3|SP140 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 751.4707641601562 2 751.511912 1501.00927 NaN NaN NaN NaN NaN NaN NaN 57.708 1 58.477 57.977 58.977 0.76861 0 0 0 1.0082 1 26441 26441 0 0 1 + 13445 10577 8584 8606 15529 15529 0.27880605655263935 KLIRRVYSSS 10 Unmodified _KLIRRVYSSS_ 0 0 0 REV__ENST00000489338.6_1_6:88125312-88173965:+|nuORF REV__ENST00000489338.6_1_6:88125312-88173965:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 604.8573608398438 2 604.859129 1207.70371 NaN NaN NaN NaN NaN NaN NaN 9.6765 1 9.9721 9.4721 10.472 0.2956 0 0 0 1.0015 1 4312 4312 0.40072 0.093686 1 + 13446 16791 8585 8607 15530 15530 0.10816170071370834 KLIVARRRPC 10 Unmodified _KLIVARRRPC_ 0 0 0 REV__ENSG00000189410|ENST00000444387|SH2D5 REV__ENSG00000189410|ENST00000444387|SH2D5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.92413330078125 3 404.588765 1210.74446 2.7162 0.001099 0.76485 0.00030945 3.4811 0.0014084 404.5888232639498 31.329 0.45832 32.118 31.771 32.229 0.78879 78 37 3 0 0 0 0.94099 2 14034 14034;14161 0.69767 0 1 1062800 + 13447 14185 8586 8608 15531;15532 15531 0.14752232910018392 KLIVARRRPC 10 Unmodified _KLIVARRRPC_ 0 0 0 REV__ENSG00000189410|ENST00000444387|SH2D5 REV__ENSG00000189410|ENST00000444387|SH2D5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.9241027832031 3 404.588765 1210.74446 2.5811 0.0010443 0.48307 0.00019544 3.0642 0.0012397 404.5889464740039 31.829 0.3376 32.617 32.534 32.871 0.78795 54 35 2 0 0 0 0.94099 1 14434 14434 0.69767 0 1 1335900 + 13448 14185 8586 8608 15533 15533 0.14752232910018392 KLKDRKIKYLQ 11 Unmodified _KLKDRKIKYLQ_ 0 0 0 REV__nc|ENSG00000198399|Q9NZM3-3|ITSN2 REV__nc|ENSG00000198399|Q9NZM3-3|ITSN2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.14990234375 4 358.980419 1431.89257 2.7551 0.00098902 -0.70343 -0.00025252 2.0517 0.00073651 359.48264235067774 53.076 0.57237 53.076 52.769 53.341 0 72 33 4 0 0 0 0.13295 1 24331 24331 0.40827 0.31342 1 1741600 + 13449 18102 8587 8609 15534 15534 0.1938982264484821 KLKHLMLHRIK 11 Unmodified _KLKHLMLHRIK_ 0 0 0 ENST00000519029.1_1_8:67896384-67896720:-|nuORF ENST00000519029.1_1_8:67896384-67896720:-|nuORF ENST00000519029.1_1_8:67896384-67896720:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 354.9809875488281 4 354.980059 1415.89113 2.4629 0.00087429 0.83659 0.00029697 3.2995 0.0011713 354.98025106345295 49.959 0.24081 50.782 50.591 50.832 0.82285 31 9 4 0 0 0 0.91459 1 22740 22740 0.094841 0 1 3158100 13450 8615 8588 8610 15535 15535 0.19981910075080123 KLKIRALLMA 10 Unmodified _KLKIRALLMA_ 0 0 0 REV__DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant REV__DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.8832397460938 2 578.883561 1155.75257 NaN NaN NaN NaN NaN NaN NaN 84.976 1 84.976 84.476 85.476 0 0 0 0 1.0001 1 43152 43152 1.6526 1.0511 1 + 13451 10142 8589 8611 15536 15536 0.18092367106737584 KLKKNRIRRKI 11 Unmodified _KLKKNRIRRKI_ 0 0 0 REV__ENSG00000173769|ENST00000309765|TOPAZ1 REV__ENSG00000173769|ENST00000309765|TOPAZ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 727.001708984375 2 727.001711 1451.98887 NaN NaN NaN NaN NaN NaN NaN 62.455 1 62.705 62.205 63.205 0.24965 0 0 0 1.0082 1 28593 28593 0 0 1 + 13452 13611 8590 8612 15537 15537 0.2809543499540723 KLKKRFYDYKQ 11 Unmodified _KLKKRFYDYKQ_ 0 0 0 REV__nc|ENSG00000049759|Q96PU5-9|NEDD4L REV__nc|ENSG00000049759|Q96PU5-9|NEDD4L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 758.93505859375 2 758.935368 1515.85618 NaN NaN NaN NaN NaN NaN NaN 17.811 1 18.011 17.511 18.511 0.20057 0 0 0 1.0072 1 7894 7894 1.3295 0 1 + 13453 10347 8591 8613 15538 15538 0.11888945748114566 KLKKRKKKRKK 11 Unmodified _KLKKRKKKRKK_ 0 0 0 REV__ENST00000216190.12_1_22:36906978-36907630:-|nuORF REV__ENST00000216190.12_1_22:36906978-36907630:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 735.1304931640625 2 735.035554 1468.05655 NaN NaN NaN NaN NaN NaN NaN 95.35 1 95.35 94.85 95.85 0 0 0 0 1.0082 1 51317 51317 0 0 1 + 13454 14806 8592 8614 15539 15539 0.3412488492620014 KLKKRKQIL 9 Unmodified _KLKKRKQIL_ 0 0 0 REV__nc|ENSG00000214694|A8MVX0|ARHGEF33 REV__nc|ENSG00000214694|A8MVX0|ARHGEF33 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.9063720703125 2 577.908425 1153.8023 NaN NaN NaN NaN NaN NaN NaN 90.293 1 90.357 89.857 90.857 0.064346 0 0 0 0.91238 1 46493 46493 0.52476 0 1 + 13455 14511 8593 8615 15540 15540 0.23154818107059327 KLKLKKMKILV 11 Unmodified _KLKLKKMKILV_ 0 0 0 REV__ENST00000490863.5_1_1:54651905-54653456:-|nuORF REV__ENST00000490863.5_1_1:54651905-54653456:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 671.9500122070312 2 671.472544 1340.93053 NaN NaN NaN NaN NaN NaN NaN 104.6 1 104.6 104.1 105.1 0 0 0 0 1.008 1 57545 57545 0.30703 0.30703 1 + 13456 16163 8594 8616 15541 15541 0.27370617305928135 KLKLKRRRR 9 Unmodified _KLKLKRRRR_ 0 0 0 ENST00000502782.5_1_5:34845647-34845701:+|nuORF ENST00000502782.5_1_5:34845647-34845701:+|nuORF ENST00000502782.5_1_5:34845647-34845701:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 627.4759521484375 2 627.441289 1252.86803 NaN NaN NaN NaN NaN NaN NaN 99.468 1 100.07 99.565 100.57 0.59748 0 0 0 0.91238 1 45997 45997 0.52476 0.17413 1 13457 8484 8595 8617 15542 15542 0.25170652072597477 KLKNKWWYD 9 Unmodified _KLKNKWWYD_ 0 0 0 ENSG00000152578|ENST00000282499|GRIA4;nc|ENSG00000125675|P42263|GRIA3;ENSG00000125675|ENST00000620443|GRIA3;nc|ENSG00000155511|P42261-3|GRIA1;nc|ENSG00000120251|P42262-4|GRIA2;nc|ENSG00000155511|P42261-4|GRIA1;nc|ENSG00000120251|P42262-2|GRIA2;ENSG00000120251|ENST00000264426|GRIA2;nc|ENSG00000120251|P42262-3|GRIA2;ENSG00000155511|ENST00000285900|GRIA1;nc|ENSG00000155511|P42261-5|GRIA1 ENSG00000152578|ENST00000282499|GRIA4 ENSG00000152578|ENST00000282499|GRIA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 640.843994140625 2 640.842948 1279.67134 NaN NaN NaN NaN NaN NaN NaN 71.225 1 71.888 71.388 72.388 0.66209 0 0 0 0.91238 1 32642 32642 0.52476 0 1 13458 3753 8596 8618 15543 15543 0.04269382668371691 KLKPVHGLIF 10 Unmodified _KLKPVHGLIF_ 0 0 0 nc|ENSG00000116750|Q9Y5K5-2|UCHL5;nc|ENSG00000116750|Q9Y5K5-4|UCHL5;ENSG00000116750|ENST00000367454|UCHL5;nc|ENSG00000116750|Q9Y5K5|UCHL5 nc|ENSG00000116750|Q9Y5K5-2|UCHL5 nc|ENSG00000116750|Q9Y5K5-2|UCHL5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 384.5833435058594 3 384.581493 1150.72265 2.7562 0.00106 1.1476 0.00044136 3.9039 0.0015014 384.581801036514 34.678 0.42458 35.301 35.115 35.539 0.62294 58 34 3 0 0 0 0.93628 1 15832 15832 1.9064 1.2795 1 4896300 13459 2047 8597 8619 15544 15544 0.15331751433086538 KLKQKKRLLI 10 Unmodified _KLKQKKRLLI_ 0 0 0 REV__ENST00000489408.1_1_3:32023272-32027845:+|nuORF REV__ENST00000489408.1_1_3:32023272-32027845:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 634.4482421875 2 634.450457 1266.88636 NaN NaN NaN NaN NaN NaN NaN 75.858 1 76.115 75.615 76.615 0.25704 0 0 0 1.0015 1 34918 34918 0.45834 0 1 + 13460 16792 8598 8620 15545 15545 0.2635934920397176 KLKVLKILLYL 11 Unmodified _KLKVLKILLYL_ 0 0 0 nc|ENSG00000167302|Q96N21|TEPSIN;ENSG00000167302|ENST00000637944|TEPSIN nc|ENSG00000167302|Q96N21|TEPSIN nc|ENSG00000167302|Q96N21|TEPSIN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 672.47412109375 2 672.473067 1342.93158 NaN NaN NaN NaN NaN NaN NaN 79.121 1 79.782 79.282 80.282 0.66082 0 0 0 1.0082 1 36458 36458 0 0 1 13461 4542 8599 8621 15546 15546 0.27383154946505783 KLKVLLRNL 9 Unmodified _KLKVLLRNL_ 0 0 0 nc|ENSG00000159167|P52823-2|STC1;ENSG00000159167|ENST00000290271|STC1 nc|ENSG00000159167|P52823-2|STC1 nc|ENSG00000159167|P52823-2|STC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 365.9197998046875 3 366.257009 1095.7492 2.2753 0.00083334 -1.6435 -0.00060193 0.63185 0.00023142 366.2561708809636 25.745 0.47398 26.509 26.232 26.706 0.76356 20 12 2 0 0 0 1.0755 1 11524 11524 2.7352 1.5419 1 397730 13462 4013 8600 8622 15547 15547 0.20515440324402334 KLKWMKIF 8 Unmodified _KLKWMKIF_ 0 0 0 REV__ENSG00000111845|ENST00000379568|PAK1IP1 REV__ENSG00000111845|ENST00000379568|PAK1IP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.7575073242188 2 547.333173 1092.65179 NaN NaN NaN NaN NaN NaN NaN 91.874 1 92.127 91.627 92.627 0.25253 0 0 0 0.99035 1 42241 42241 0.79363 0.33529 1 + 13463 11251 8601 8623 15548 15548 0.109173351238951 KLLFRFLKTPG 11 Unmodified _KLLFRFLKTPG_ 0 0 0 nc|ENSG00000010030|Q9Y603-7|ETV7;ENSG00000010030|ENST00000340181|ETV7;nc|ENSG00000010030|Q9Y603-8|ETV7;nc|ENSG00000010030|Q9Y603-3|ETV7;nc|ENSG00000010030|Q9Y603-2|ETV7;nc|ENSG00000010030|Q9Y603-4|ETV7 nc|ENSG00000010030|Q9Y603-7|ETV7 nc|ENSG00000010030|Q9Y603-7|ETV7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 660.4127197265625 2 660.41354 1318.81253 NaN NaN NaN NaN NaN NaN NaN 27.272 1 27.534 27.034 28.034 0.26245 0 0 0 1.008 1 12395 12395 0.35063 0 1 13464 394 8602 8624 15549 15549 0.16587381041631488 KLLIGWWWKKG 11 Unmodified _KLLIGWWWKKG_ 0 0 0 ENST00000336798.11_2_1:31345724-31346039:-|nuORF ENST00000336798.11_2_1:31345724-31346039:-|nuORF ENST00000336798.11_2_1:31345724-31346039:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 707.9266967773438 2 707.921532 1413.82851 4.1614 0.0029459 0.040097 2.8386E-05 4.2014 0.0029743 707.9215012450778 96.173 0.53041 96.781 96.653 97.184 0.60769 48 25 3 0 0 0 0.91359 1 44372 44372 1.1933 1.1933 1 1760000 13465 7035 8603 8625 15550 15550 0.13815087278521787 KLLKAERRL 9 Unmodified _KLLKAERRL_ 0 0 0 REV__nc|ENSG00000196498|Q9Y618-5|NCOR2 REV__nc|ENSG00000196498|Q9Y618-5|NCOR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.2528076171875 3 376.252147 1125.73461 NaN NaN NaN NaN NaN NaN NaN 25.198 1 25.465 24.965 25.965 0.26777 0 0 0 0.66577 1 11433 11433 13.615 0 1 + 13466 14222 8604 8626 15551 15551 0.1767736817628247 KLLKLWKKL 9 Unmodified _KLLKLWKKL_ 0 0 0 REV__ENST00000294732.11_1_1:197102515-197102575:-|nuORF REV__ENST00000294732.11_1_1:197102515-197102575:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.4105224609375 2 585.410269 1168.80599 NaN NaN NaN NaN NaN NaN NaN 91.989 1 92.651 92.151 93.151 0.66198 0 0 0 0.91206 1 42328 42328 0.6015 0 1 + 13467 15138 8605 8627 15552 15552 0.22833487880939174 KLLKTNLRNRR 11 Unmodified _KLLKTNLRNRR_ 0 0 0 REV__ENST00000476730.1_1_7:64349144-64349444:+|nuORF REV__ENST00000476730.1_1_7:64349144-64349444:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 706.4520263671875 2 706.452051 1410.88955 NaN NaN NaN NaN NaN NaN NaN 70.941 1 71.199 70.699 71.699 0.25786 0 0 0 1.008 1 32489 32489 0.30703 0.30703 1 + 13468 16657 8606 8628 15553 15553 0.2005399231065894 KLLLKQKE 8 Unmodified _KLLLKQKE_ 0 0 0 REV__ENSG00000047315|ENST00000314595|POLR2B REV__ENSG00000047315|ENST00000314595|POLR2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.3331604003906 2 500.331685 998.648816 3.1893 0.0015957 0.48093 0.00024062 3.6703 0.0018363 500.33182038727637 35.532 0.32434 35.787 35.594 35.918 0.25524 22 10 3 0 0 0 0.042878 1 16179 16179 68.081 0 1 832220 + 13469 10335 8607 8629 15554 15554 0.1494378327074628 KLLLKRKLL 9 Unmodified _KLLLKRKLL_ 0 0 0 ENST00000342992.10_3_2:179510673-179515519:-|nuORF ENST00000342992.10_3_2:179510673-179515519:-|nuORF;REV__ENST00000342992.10_3_2:179510673-179515519:-|nuORF ENST00000342992.10_3_2:179510673-179515519:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.073486328125 2 562.915719 1123.81688 NaN NaN NaN NaN NaN NaN NaN 87.035 1 87.075 86.575 87.575 0.039955 0 0 0 0.91206 1 43950 43950 0.6015 0.6015 1 13470 7088;15482 8608 8630 15555 15555 0.2599289025520193 KLLLKRKLLLK 11 Unmodified _KLLLKRKLLLK_ 0 0 0 ENST00000342992.10_3_2:179510673-179515519:-|nuORF ENST00000342992.10_3_2:179510673-179515519:-|nuORF;REV__ENST00000342992.10_3_2:179510673-179515519:-|nuORF ENST00000342992.10_3_2:179510673-179515519:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.4474792480469 3 456.005914 1364.99591 NaN NaN NaN NaN NaN NaN NaN 72.414 1 73.118 72.618 73.618 0.70386 0 0 0 1.0082 1 34857 34857 0 0 1 13471 7088;15482 8609 8631 15556 15556 0.32801354823300244 KLLLKRKLLLK 11 Unmodified _KLLLKRKLLLK_ 0 0 0 ENST00000342992.10_3_2:179510673-179515519:-|nuORF ENST00000342992.10_3_2:179510673-179515519:-|nuORF;REV__ENST00000342992.10_3_2:179510673-179515519:-|nuORF ENST00000342992.10_3_2:179510673-179515519:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 683.5062866210938 2 683.505232 1364.99591 NaN NaN NaN NaN NaN NaN NaN 41.104 1 41.748 41.248 42.248 0.64451 0 0 0 1.0082 1 18800 18800 0 0 1 13472 7088;15482 8609 8631 15557 15557 0.32801354823300244 KLLMVARRR 9 Unmodified _KLLMVARRR_ 0 0 0 REV__ENST00000484662.1_1_1:78445136-78445292:+|nuORF REV__ENST00000484662.1_1_1:78445136-78445292:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.5823974609375 3 381.58161 1141.723 1.9019 0.00072574 0.53268 0.00020326 2.4346 0.00092901 381.5817679399142 77.37 0.25662 77.93 77.804 78.061 0.56091 46 18 3 0 0 0 1.0894 1 37504 37504 2.4985 0.75621 1 2545500 + 13473 16737 8610 8632 15558 15558 0.15780847881273985 KLLMVARRR 9 Unmodified _KLLMVARRR_ 0 0 0 REV__ENST00000484662.1_1_1:78445136-78445292:+|nuORF REV__ENST00000484662.1_1_1:78445136-78445292:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.5828552246094 3 381.58161 1141.723 2.6832 0.0010239 0.56266 0.0002147 3.2459 0.0012386 381.58187179685154 77.87 0.34872 78.124 77.957 78.306 0.25335 48 19 4 0 0 0 1.0894 1 35848 35848 2.4985 0 1 2053000 + 13474 16737 8610 8632 15559 15559 0.15780847881273985 KLLMVARRR 9 Unmodified _KLLMVARRR_ 0 0 0 REV__ENST00000484662.1_1_1:78445136-78445292:+|nuORF REV__ENST00000484662.1_1_1:78445136-78445292:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 381.58161 1141.723 2.6832 0.0010239 0.56266 0.0002147 3.2459 0.0012386 381.58187179685154 77.87 0.34872 78.124 77.957 78.306 0.25335 0.080493 -0.000212 NaN 2.4985 48 19 4 NaN NaN NaN NaN 0 NaN NaN 0 2053000 + 13475 16737 8610 8632 0.15780847881273985 KLLMVARRR 9 Unmodified _KLLMVARRR_ 0 0 0 REV__ENST00000484662.1_1_1:78445136-78445292:+|nuORF REV__ENST00000484662.1_1_1:78445136-78445292:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 381.58161 1141.723 2.5489 0.00097261 1.3681 0.00052203 3.917 0.0014946 381.5820812750236 77.413 0.26486 78.076 77.972 78.237 0.66303 0.03237 0.00071 NaN 2.4985 45 16 3 NaN NaN NaN NaN 0 NaN NaN 0 2167100 + 13476 16737 8610 8632 0.15780847881273985 KLLNKKILRSI 11 Unmodified _KLLNKKILRSI_ 0 0 0 REV__L1PB2_dup662|chr4:69045538-69047075:-|8.226746573817685|0.3974588987332585|4.37|541.0|5|1|sense REV__L1PB2_dup662|chr4:69045538-69047075:-|8.226746573817685|0.3974588987332585|4.37|541.0|5|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 663.1719360351562 2 663.453197 1324.89184 NaN NaN NaN NaN NaN NaN NaN 79.062 1 79.062 78.562 79.562 0 0 0 0 1.0073 1 38993 38993 1.1933 0 1 + 13477 17812 8611 8633 15560 15560 0.24239027995804463 KLLPPRVTRR 10 Unmodified _KLLPPRVTRR_ 0 0 0 ENST00000473663.1_1_16:1989075-1991398:-|nuORF ENST00000473663.1_1_16:1989075-1991398:-|nuORF ENST00000473663.1_1_16:1989075-1991398:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 618.4125366210938 2 618.406581 1234.79861 NaN NaN NaN NaN NaN NaN NaN 102.7 1 103.3 102.8 103.8 0.59759 0 0 0 1.0015 1 47531 47531 0.40072 0.050084 1 13478 8200 8612 8634 15561 15561 0.19060148333210236 KLLQFKRWFWS 11 Unmodified _KLLQFKRWFWS_ 0 0 0 nc|ENSG00000104517|O95071-2|UBR5;ENSG00000104517|ENST00000520539|UBR5 nc|ENSG00000104517|O95071-2|UBR5 nc|ENSG00000104517|O95071-2|UBR5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 769.9367065429688 2 769.935171 1537.85579 NaN NaN NaN NaN NaN NaN NaN 60.049 1 60.049 59.549 60.549 0 0 0 0 1.008 1 27823 27823 0.30703 0 1 13479 1442 8613 8635 15562 15562 0.10837570818921449 KLLSISVKFLA 11 Unmodified _KLLSISVKFLA_ 0 0 0 REV__ENSG00000185010|ENST00000360256|F8 REV__ENSG00000185010|ENST00000360256|F8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 609.8930053710938 2 609.894649 1217.77475 NaN NaN NaN NaN NaN NaN NaN 69.553 1 70.256 69.756 70.756 0.70302 0 0 0 1.0061 1 33294 33294 2.7352 0.67545 1 + 13480 13998 8614 8636 15563 15563 0.17456870056184925 KLLWPWRRR 9 Unmodified _KLLWPWRRR_ 0 0 0 ENST00000456101.6_1_6:109766698-109772967:-|nuORF ENST00000456101.6_1_6:109766698-109772967:-|nuORF ENST00000456101.6_1_6:109766698-109772967:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.2004089355469 4 328.454371 1309.78838 2.2499 0.000739 -2.2002 -0.00072265 0.049759 1.6344E-05 328.4533454465122 59.094 0.15154 59.761 59.688 59.839 0.66703 9 8 2 0 0 0 0.11393 1 27073 27073 1.0715 0.6632 1 533640 13481 8047 8615 8637 15564 15564 0.14587585398612646 KLLWPWRRR 9 Unmodified _KLLWPWRRR_ 0 0 0 ENST00000456101.6_1_6:109766698-109772967:-|nuORF ENST00000456101.6_1_6:109766698-109772967:-|nuORF ENST00000456101.6_1_6:109766698-109772967:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 328.454371 1309.78838 2.3882 0.00078441 1.2973 0.0004261 3.6855 0.0012105 328.4538912112724 59.217 0.09367 59.476 59.424 59.518 0.2593 -0.14209 0.0038301 NaN 1.0715 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 231600 13482 8047 8615 8637 0.14587585398612646 KLLYYQCPYF 10 Unmodified _KLLYYQCPYF_ 0 0 0 REV__nc|ENSG00000152223|Q9HCE0-2|EPG5 REV__nc|ENSG00000152223|Q9HCE0-2|EPG5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 669.0405883789062 2 669.333567 1336.65258 NaN NaN NaN NaN NaN NaN NaN 53.956 1 53.956 53.456 54.456 0 0 0 0 1.0003 1 24740 24740 1.4819 0 1 + 13483 12641 8616 8638 15565 15565 -0.0022791501771735057 KLMDRWKKLDQ 11 Unmodified _KLMDRWKKLDQ_ 0 0 0 ENSG00000152578|ENST00000282499|GRIA4;nc|ENSG00000152578|P48058-2|GRIA4 ENSG00000152578|ENST00000282499|GRIA4 ENSG00000152578|ENST00000282499|GRIA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.6062927246094 3 487.606261 1459.79695 NaN NaN NaN NaN NaN NaN NaN 27.402 1 27.665 27.165 28.165 0.26245 0 0 0 1.0079 1 12457 12457 0.40827 0 1 13484 3753 8617 8639 15566 15566 0.08544726462287144 KLMKKLLEAH 10 Unmodified _KLMKKLLEAH_ 0 0 0 ENSG00000105402|ENST00000263354|NAPA ENSG00000105402|ENST00000263354|NAPA ENSG00000105402|ENST00000263354|NAPA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.4393005371094 4 303.438964 1209.72675 2.1898 0.00066448 -1.0348 -0.00031399 1.155 0.00035048 303.4386034209977 56.679 0.65286 57.348 57.052 57.704 0.66829 132 35 6 0 0 0 0.93503 1 25977 25977 1.9064 0 1 16349000 13485 1495 8618 8640 15567 15567 0.13027472864496303 KLMRRYIAM 9 Unmodified _KLMRRYIAM_ 0 0 0 ENSG00000166508|ENST00000303887|MCM7;nc|ENSG00000166508|P33993-3|MCM7 ENSG00000166508|ENST00000303887|MCM7 ENSG00000166508|ENST00000303887|MCM7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.5603942871094 3 394.559706 1180.65729 NaN NaN NaN NaN NaN NaN NaN 25.272 1 25.539 25.039 26.039 0.26777 0 0 0 0.83378 1 11467 11467 8.1555 1.0538 1 13486 4491 8619 8641 15568 15568 0.07418690644067283 KLNDLKGLL 9 Unmodified _KLNDLKGLL_ 0 0 0 nc|ENSG00000144481|Q7Z2W7-4|TRPM8;ENST00000444298.5_1_2:234856214-234923253:+|nuORF;ENSG00000144481|ENST00000324695|TRPM8 nc|ENSG00000144481|Q7Z2W7-4|TRPM8 nc|ENSG00000144481|Q7Z2W7-4|TRPM8 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.5506896972656 3 338.54997 1012.62808 2.5489 0.00086292 0.11229 3.8017E-05 2.6612 0.00090093 338.549905468214 37.578 0.31651 37.839 37.662 37.978 0.26083 24 9 4 0 0 0 0.10489 1 17126 17126 6.6304 0 1 1148600 13487 3429 8620 8642 15569 15569 0.12227192891100458 KLNDLKGLL 9 Unmodified _KLNDLKGLL_ 0 0 0 nc|ENSG00000144481|Q7Z2W7-4|TRPM8;ENST00000444298.5_1_2:234856214-234923253:+|nuORF;ENSG00000144481|ENST00000324695|TRPM8 nc|ENSG00000144481|Q7Z2W7-4|TRPM8 nc|ENSG00000144481|Q7Z2W7-4|TRPM8 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 338.54997 1012.62808 2.3308 0.00078908 -0.42704 -0.00014457 1.9037 0.00064451 338.8842080894762 36.907 0.22006 37.7 37.586 37.806 0.79342 -0.0085368 -0.00059583 NaN 6.6304 15 8 2 NaN NaN NaN NaN 0 NaN NaN 0 238690 13488 3429 8620 8642 0.12227192891100458 KLNGKLRF 8 Unmodified _KLNGKLRF_ 0 0 0 REV__ENSG00000204947|ENST00000378061|ZNF425 REV__ENSG00000204947|ENST00000378061|ZNF425 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 325.87567138671875 3 325.874788 974.602535 NaN NaN NaN NaN NaN NaN NaN 12.469 1 13.112 12.612 13.612 0.64272 0 0 0 0.99035 1 5592 5592 4.3292 3.2578 1 + 13489 14445 8621 8643 15570 15570 0.11421763159330567 KLNMKWLGPRK 11 Unmodified _KLNMKWLGPRK_ 0 0 0 REV__ENST00000548792.1_1_12:120902024-120902162:-|nuORF REV__ENST00000548792.1_1_12:120902024-120902162:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.609130859375 3 457.607825 1369.80165 3.1515 0.0014422 0.35487 0.00016239 3.5064 0.0016046 457.60772833978194 105.77 0.14986 106.37 106.26 106.41 0.59969 10 4 3 0 0 0 0.91391 1 48860 48860 0.08335 0 1 873890 + 13490 17263 8622 8644 15571 15571 0.1315365539569484 KLNQRWLYKME 11 Unmodified _KLNQRWLYKME_ 0 0 0 REV__ENST00000367478.8_1_1:186286709-186287636:-|nuORF REV__ENST00000367478.8_1_1:186286709-186287636:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 754.904052734375 2 754.905753 1507.79695 NaN NaN NaN NaN NaN NaN NaN 102.58 1 102.9 102.4 103.4 0.31737 0 0 0 1.008 1 47446 47446 0.30703 0 1 + 13491 15658 8623 8645 15572 15572 0.06336726462245679 KLNRWRQRI 9 Unmodified _KLNRWRQRI_ 0 0 0 REV__ENST00000389054.7_1_5:140954697-140955852:-|nuORF REV__ENST00000389054.7_1_5:140954697-140955852:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 635.38671875 2 635.38618 1268.75781 NaN NaN NaN NaN NaN NaN NaN 79.958 1 80.277 79.777 80.777 0.31998 0 0 0 0.89683 1 39075 39075 4.3292 0.38484 1 + 13492 15906 8624 8646 15573 15573 0.1341780701359312 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 724.97021484375 2 724.967868 1447.92118 3.6574 0.0026515 -1.7083 -0.0012385 1.9491 0.001413 725.4682512766784 43.687 0.24672 43.687 43.579 43.826 0 30 20 2 0 0 0 0.91068 2 19889 19889;19942 1.3295 1.3295 1 2553900 + 13493 10197 8625 8647 15574;15575 15574 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 724.9680786132812 2 724.967868 1447.92118 3.5848 0.0025989 -1.0203 -0.00073971 2.5645 0.0018592 724.9675006788111 45.959 0.22149 45.959 45.79 46.012 0 19 11 2 0 0 0 0.91345 1 20992 20992 0.30703 0.30703 1 2014300 + 13494 10197 8625 8647 15576 15576 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.6478576660156 3 483.647671 1447.92118 3.0748 0.0014871 -2.2596 -0.0010928 0.81527 0.00039431 483.6466159690397 45.954 0.23278 45.954 45.811 46.044 0 24 12 2 0 0 0 0.91345 2 21001 21001;21060 0.45452 0.35968 1 2323100 + 13495 10197 8625 8647 15577;15578 15577 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.98797607421875 4 362.987572 1447.92118 2.7292 0.00099065 -1.6335 -0.00059295 1.0956 0.0003977 362.9866853511218 50.573 0.41105 50.573 50.291 50.702 0 54 20 4 0 0 0 0.91345 1 23090 23090 0.45452 0.046251 1 1093400 + 13496 10197 8625 8647 15579 15579 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.988037109375 4 362.987572 1447.92118 2.4064 0.0008735 -1.4864 -0.00053953 0.92005 0.00033397 362.9867872727865 48.562 0.3851 49.39 49.236 49.621 0.82705 35 21 2 0 0 0 0.91345 1 22143 22143 0.45452 0.046251 1 756480 + 13497 10197 8625 8647 15580 15580 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1448.9276123046875 1 1448.92846 1447.92118 3.2338 0.0046856 -1.3023 -0.0018869 1.9316 0.0027987 1449.9306516448125 42.766 0.12886 43.036 42.915 43.044 0.27021 10 6 2 0 0 0 0.91068 1 19497 19497 1.3295 0 1 7244000 + 13498 10197 8625 8647 15581 15581 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.6486511230469 3 483.647671 1447.92118 3.0997 0.0014992 -1.9164 -0.00092684 1.1834 0.00057233 483.9811388951615 42.943 0.12644 43.213 43.186 43.312 0.27021 17 11 2 0 0 0 0.91068 1 19594 19594 1.3296 0.92138 1 5250700 + 13499 10197 8625 8647 15582 15582 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.9877014160156 4 362.987572 1447.92118 2.7312 0.00099139 -1.2822 -0.00046542 1.449 0.00052597 362.98673959124164 49.013 0.38132 49.275 49.088 49.469 0.26209 36 14 3 0 0 0 0.91068 1 22475 22475 1.3296 0.87513 1 1241400 + 13500 10197 8625 8647 15583 15583 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.98779296875 4 362.987572 1447.92118 2.6086 0.0009469 -1.0437 -0.00037883 1.565 0.00056806 362.98686561816 50.037 0.85546 50.299 49.812 50.668 0.26146 73 33 3 0 0 0 0.91345 2 22853 22853;22907 0.45452 0.046251 1 1614900 + 13501 10197 8625 8647 15584;15585 15584 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.7419738769531 4 362.987572 1447.92118 2.6101 0.00094744 -1.2502 -0.00045381 1.3599 0.00049363 362.9867153649912 45.957 0.38598 46.223 46.001 46.387 0.26561 26 16 2 0 0 0 0.13295 1 21036 21036 0.45452 0.046251 1 1752600 + 13502 10197 8625 8647 15586 15586 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 725.471435546875 2 724.967868 1447.92118 4.111 0.0029804 -1.5621 -0.0011325 2.5489 0.0018479 724.9666578896926 41.608 0.11006 42.252 42.152 42.262 0.64451 6 4 2 0 0 0 0.91137 1 19039 19039 1.0715 0.67075 1 8950500 + 13503 10197 8625 8647 15587 15587 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 724.9695434570312 2 724.967868 1447.92118 4.1026 0.0029743 -2.1675 -0.0015714 1.9351 0.0014029 725.4675194215849 42.333 0.069408 42.98 42.965 43.035 0.64693 8 4 2 0 0 0 0.91345 1 19411 19411 0.30703 0.30703 1 904440 + 13504 10197 8625 8647 15588 15588 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.6476135253906 3 483.647671 1447.92118 3.3459 0.0016182 -1.6 -0.00077384 1.7459 0.00084441 483.64661909270694 44.685 0.31868 45.335 45.197 45.515 0.64999 29 11 4 0 0 0 0.91345 1 20472 20472 0.45452 0.35968 1 2518300 + 13505 10197 8625 8647 15589 15589 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.9878234863281 4 362.987572 1447.92118 2.6758 0.00097128 -1.1981 -0.00043488 1.4777 0.0005364 362.9868183430822 48.935 0.38116 49.59 49.31 49.691 0.65524 29 13 4 0 0 0 0.91345 1 22390 22390 0.45452 0 1 2304500 + 13506 10197 8625 8647 15590 15590 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 724.9699096679688 2 724.967868 1447.92118 NaN NaN NaN NaN NaN NaN NaN 41.472 1 42.117 41.617 42.617 0.64451 0 0 0 1.0072 1 18972 18972 1.3295 1.0225 1 + 13507 10197 8625 8647 15591 15591 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 724.968505859375 2 724.967868 1447.92118 NaN NaN NaN NaN NaN NaN NaN 44.192 1 44.841 44.341 45.341 0.64998 0 0 0 1.0079 1 20256 20256 0.30703 0 1 + 13508 10197 8625 8647 15592 15592 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 724.9696044921875 2 724.967868 1447.92118 NaN NaN NaN NaN NaN NaN NaN 44.496 1 45.146 44.646 45.646 0.64998 0 0 0 1.0079 1 20397 20397 0.30703 0 1 + 13509 10197 8625 8647 15593 15593 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.9826965332031 3 483.647671 1447.92118 3.3459 0.0016182 -1.6 -0.00077384 1.7459 0.00084441 483.64661909270694 44.685 0.31868 45.335 45.197 45.515 0.64999 29 11 4 0 0 0 0.13295 1 20420 20420 2.4348 1.9288 1 2518300 + 13510 10197 8625 8647 15594 15594 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 724.967868 1447.92118 3.6499 0.0026461 -1.5624 -0.0011327 2.0876 0.0015134 724.9669358799808 43.065 0.23998 43.065 42.874 43.114 0 0.040822 0.00067862 NaN 0.30703 18 12 2 NaN NaN NaN NaN 0 NaN NaN 0 3959200 + 13511 10197 8625 8647 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 724.967868 1447.92118 3.6574 0.0026515 -1.7083 -0.0012385 1.9491 0.001413 725.4682512766784 43.687 0.24672 43.687 43.579 43.826 0 0 0 NaN 1.3295 30 20 2 NaN NaN NaN NaN 0 NaN NaN 0 2553900 + 13512 10197 8625 8647 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 724.967868 1447.92118 3.5848 0.0025989 -1.0203 -0.00073971 2.5645 0.0018592 724.9675006788111 45.959 0.22149 45.959 45.79 46.012 0 0 0 NaN 0.30703 19 11 2 NaN NaN NaN NaN 0 NaN NaN 0 2014300 + 13513 10197 8625 8647 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 483.647671 1447.92118 3.0748 0.0014871 -2.2596 -0.0010928 0.81527 0.00039431 483.6466159690397 45.954 0.23278 45.954 45.811 46.044 0 -0.11921 0.00040598 NaN 0.45452 24 12 2 NaN NaN NaN NaN 0 NaN NaN 0 2323100 + 13514 10197 8625 8647 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 724.967868 1447.92118 3.8743 0.0028087 -2.0673 -0.0014988 1.807 0.00131 724.9659870974099 42.758 0.34281 43.028 42.729 43.072 0.27021 0.0035684 -5.3561E-05 NaN 0.30703 43 17 4 NaN NaN NaN NaN 0 NaN NaN 0 15561000 + 13515 10197 8625 8647 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 483.647671 1447.92118 3.0663 0.001483 -3.393 -0.001641 -0.32664 -0.00015798 483.6461990558183 45.927 0.14147 46.193 46.123 46.265 0.26561 0.11921 -0.0012385 NaN 0.45452 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 461110 + 13516 10197 8625 8647 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 483.647671 1447.92118 3.0997 0.0014992 -1.9164 -0.00092684 1.1834 0.00057233 483.9811388951615 42.943 0.12644 43.213 43.186 43.312 0.27021 0 0 NaN 1.3296 17 11 2 NaN NaN NaN NaN 0 NaN NaN 0 5250700 + 13517 10197 8625 8647 0.21513985064598273 KLPIERRKPRR 11 Unmodified _KLPIERRKPRR_ 0 0 0 REV__nc|ENSG00000007171|P35228-2|NOS2 REV__nc|ENSG00000007171|P35228-2|NOS2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 724.967868 1447.92118 4.1026 0.0029743 -2.1675 -0.0015714 1.9351 0.0014029 725.4675194215849 42.333 0.069408 42.98 42.965 43.035 0.64693 -0.044391 -0.00019883 NaN 0.30703 8 4 2 NaN NaN NaN NaN 0 NaN NaN 0 904440 + 13518 10197 8625 8647 0.21513985064598273 KLPWKRKKLLH 11 Unmodified _KLPWKRKKLLH_ 0 0 0 REV__ENSG00000006025|ENST00000007414|OSBPL7 REV__ENSG00000006025|ENST00000007414|OSBPL7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 723.975341796875 2 723.974631 1445.93471 NaN NaN NaN NaN NaN NaN NaN 43.769 1 43.769 43.269 44.269 0 0 0 0 1.0082 1 19964 19964 0 0 1 + 13519 10185 8626 8648 15595 15595 0.22957842843902654 KLRGKFKKKK 10 Unmodified _KLRGKFKKKK_ 0 0 0 REV__ENSG00000169871|ENST00000306085|TRIM56 REV__ENSG00000169871|ENST00000306085|TRIM56 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 630.9342041015625 2 630.934974 1259.8554 NaN NaN NaN NaN NaN NaN NaN 59.304 1 60.063 59.563 60.563 0.75894 0 0 0 1.002 1 27249 27249 0 0 1 + 13520 13403 8627 8649 15596 15596 0.23586195889697592 KLRGKFKKKK 10 Unmodified _KLRGKFKKKK_ 0 0 0 REV__ENSG00000169871|ENST00000306085|TRIM56 REV__ENSG00000169871|ENST00000306085|TRIM56 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 630.9364013671875 2 630.934974 1259.8554 NaN NaN NaN NaN NaN NaN NaN 104.74 1 105.34 104.84 105.84 0.59885 0 0 0 1.002 1 48382 48382 0 0 1 + 13521 13403 8627 8649 15597 15597 0.23586195889697592 KLRGRRRGRRY 11 Unmodified _KLRGRRRGRRY_ 0 0 0 REV__ENST00000344458.6_1_2:220408458-220409493:+|nuORF REV__ENST00000344458.6_1_2:220408458-220409493:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 737.4610595703125 2 737.458533 1472.90251 NaN NaN NaN NaN NaN NaN NaN 18.544 1 18.758 18.258 19.258 0.21445 0 0 0 1.008 1 8244 8244 0.30703 0.30703 1 + 13522 15494 8628 8650 15598 15598 0.18497868213421498 KLRHWQWWRLF 11 Unmodified _KLRHWQWWRLF_ 0 0 0 nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000105357|Q7Z406|MYH14;nc|ENSG00000105357|Q7Z406-6|MYH14;ENSG00000105357|ENST00000642316|MYH14;nc|ENSG00000105357|Q7Z406-5|MYH14 nc|ENSG00000105357|Q7Z406-4|MYH14 nc|ENSG00000105357|Q7Z406-4|MYH14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 828.4574584960938 2 828.457136 1654.89972 NaN NaN NaN NaN NaN NaN NaN 80.199 1 80.448 79.948 80.948 0.24947 0 0 0 1.0082 1 36927 36927 0 0 1 13523 1487 8629 8651 15599 15599 0.09846600035893971 KLRKLRIIHA 10 Unmodified _KLRKLRIIHA_ 0 0 0 nc|ENSG00000226266|Q9UIF8-4|BAZ2B;nc|ENSG00000226266|Q9UIF8-2|BAZ2B;nc|ENSG00000226266|Q9UIF8-5|BAZ2B;nc|ENSG00000226266|Q9UIF8-3|BAZ2B;ENSG00000123636|ENST00000392783|BAZ2B nc|ENSG00000226266|Q9UIF8-4|BAZ2B nc|ENSG00000226266|Q9UIF8-4|BAZ2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 624.4269409179688 2 624.424774 1246.83499 NaN NaN NaN NaN NaN NaN NaN 80.298 1 80.618 80.118 81.118 0.31998 0 0 0 1.0001 1 39318 39318 1.6526 0.32309 1 13524 2324 8630 8652 15600 15600 0.2214502522992916 KLRNWQWWRLF 11 Unmodified _KLRNWQWWRLF_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;ENST00000473022.1_1_22:36698592-36700051:-|nuORF;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11 ENSG00000100345|ENST00000216181|MYH9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 817.1423950195312 2 816.949144 1631.88374 NaN NaN NaN NaN NaN NaN NaN 99.058 1 99.124 98.624 99.624 0.066025 0 0 0 1.0082 1 53436 53436 0 0 1 13525 1207;2759 8631 8653 15601 15601 0.09306893798998317 KLRPPYQI 8 Unmodified _KLRPPYQI_ 0 0 0 ENST00000477063.5_1_3:122928052-122962678:+|nuORF;ENSG00000121542|ENST00000492595|SEC22A ENST00000477063.5_1_3:122928052-122962678:+|nuORF ENST00000477063.5_1_3:122928052-122962678:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.2035827636719 3 338.874677 1013.6022 2.6747 0.00090638 -0.32845 -0.0001113 2.3462 0.00079508 338.8745225252927 41.838 0.38846 42.109 41.842 42.23 0.27021 41 27 2 0 0 0 0.13817 1 18951 18951 7.2892 0 1 18783000 13526 2232 8632 8654 15602 15602 0.09594343439448494 KLRQEELRRRR 11 Unmodified _KLRQEELRRRR_ 0 0 0 REV__nc|ENSG00000116871|Q3KQU3-2|MAP7D1 REV__nc|ENSG00000116871|Q3KQU3-2|MAP7D1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 770.468017578125 2 770.468764 1538.92297 NaN NaN NaN NaN NaN NaN NaN 83.719 1 83.966 83.466 84.466 0.24722 0 0 0 1.0082 1 38535 38535 0 0 1 + 13527 11423 8633 8655 15603 15603 0.17506994082555138 KLRQGFSKSSK 11 Unmodified _KLRQGFSKSSK_ 0 0 0 ENSG00000118491|ENST00000237275|ZC2HC1B ENSG00000118491|ENST00000237275|ZC2HC1B ENSG00000118491|ENST00000237275|ZC2HC1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.58282470703125 3 422.582333 1264.72517 1.4598 0.00061687 0.33643 0.00014217 1.7962 0.00075904 422.58230498709963 105.6 0.10827 105.65 105.61 105.72 0.050896 8 6 2 0 0 0 0.85254 1 57164 57164 2.084 0 1 1428700 13528 2116 8634 8656 15604 15604 0.1033955510006308 KLRQKVDL 8 Unmodified _KLRQKVDL_ 0 0 0 REV__ENSG00000164163|ENST00000296577|ABCE1 REV__ENSG00000164163|ENST00000296577|ABCE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 333.8822326660156 3 333.881831 998.623664 2.047 0.00068347 0.35962 0.00012007 2.4067 0.00080354 333.88196226312675 13.347 0.22185 13.59 13.454 13.676 0.24346 49 17 3 0 0 0 0.58952 1 5781 5781 14.838 4.0143 1 942490 + 13529 13069 8635 8657 15605 15605 0.12429728468180201 KLRQKVDL 8 Unmodified _KLRQKVDL_ 0 0 0 REV__ENSG00000164163|ENST00000296577|ABCE1 REV__ENSG00000164163|ENST00000296577|ABCE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 333.8826904296875 3 333.881831 998.623664 1.9138 0.00063897 0.50827 0.0001697 2.422 0.00080867 333.8819729509959 13.299 0.2669 13.607 13.463 13.729 0.30727 63 19 4 0 0 0 0.54363 2 6003 5956;6003 18.146 2.0785 1 1198000 + 13530 13069 8635 8657 15606;15607 15607 0.12429728468180201 KLRQLLRVQRP 11 Unmodified _KLRQLLRVQRP_ 0 0 0 REV__nc|ENSG00000123243|Q86UX2-2|ITIH5 REV__nc|ENSG00000123243|Q86UX2-2|ITIH5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.78460693359375 3 469.640405 1405.89939 NaN NaN NaN NaN NaN NaN NaN 65.514 1 65.514 65.014 66.014 0 0 0 0 1.0073 1 31224 31224 0.40827 0.31342 1 + 13531 11612 8636 8658 15608 15608 0.21267180316067424 KLRRQVIQVVL 11 Unmodified _KLRRQVIQVVL_ 0 0 0 ENSG00000160445|ENST00000291900|ZER1 ENSG00000160445|ENST00000291900|ZER1 ENSG00000160445|ENST00000291900|ZER1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 676.447021484375 2 676.448446 1350.88234 NaN NaN NaN NaN NaN NaN NaN 90.732 1 90.807 90.307 91.307 0.075279 0 0 0 1.008 1 46826 46826 0.30703 0.03801 1 13532 4060 8637 8659 15609 15609 0.22093259710254642 KLRRRKKKKAK 11 Unmodified _KLRRRKKKKAK_ 0 0 0 ENST00000530731.5_1_11:124495676-124501136:+|nuORF;nc|ENSG00000154144|Q3YBR2-2|TBRG1 ENST00000530731.5_1_11:124495676-124501136:+|nuORF ENST00000530731.5_1_11:124495676-124501136:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 720.512939453125 2 720.509703 1439.00485 NaN NaN NaN NaN NaN NaN NaN 103.87 1 104.47 103.97 104.97 0.59821 0 0 0 1.0082 1 48040 48040 0 0 1 13533 8716 8638 8660 15610 15610 0.302911412323283 KLRVWLLFLLA 11 Unmodified _KLRVWLLFLLA_ 0 0 0 REV__ENSG00000116133|ENST00000371269|DHCR24 REV__ENSG00000116133|ENST00000371269|DHCR24 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 457.9654846191406 3 457.967348 1370.88021 NaN NaN NaN NaN NaN NaN NaN 72.828 1 72.828 72.328 73.328 0 0 0 0 1.0071 1 35438 35438 1.4551 1.0006 1 + 13534 11396 8639 8661 15611 15611 0.20960830972444455 KLRYLFFYWFK 11 Unmodified _KLRYLFFYWFK_ 0 0 0 ENST00000505799.1_1_5:37379427-37381852:+|nuORF ENST00000505799.1_1_5:37379427-37381852:+|nuORF ENST00000505799.1_1_5:37379427-37381852:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.5178833007812 3 537.634257 1609.88094 NaN NaN NaN NaN NaN NaN NaN 73.453 1 73.453 72.953 73.953 0 0 0 0 1.0079 1 35813 35813 0.45452 0.37117 1 13535 8507 8640 8662 15612 15612 0.10039625621470805 KLSESKLKI 9 Unmodified _KLSESKLKI_ 0 0 0 ENSG00000204130|ENST00000602465|RUFY2;nc|ENSG00000204130|Q8WXA3-3|RUFY2;nc|ENSG00000204130|Q8WXA3-1|RUFY2 ENSG00000204130|ENST00000602465|RUFY2 ENSG00000204130|ENST00000602465|RUFY2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 349.2265625 3 349.225375 1044.6543 2.4993 0.00087283 0.51791 0.00018087 3.0172 0.0010537 349.2255149623023 14.806 0.44312 14.806 14.638 15.081 0 117 47 3 0 0 0 0.29024 1 6530 6530 17.443 3.0373 1 615170 13536 5987 8641 8663 15613 15613 0.1337546206254956 KLSESKLKI 9 Unmodified _KLSESKLKI_ 0 0 0 ENSG00000204130|ENST00000602465|RUFY2;nc|ENSG00000204130|Q8WXA3-3|RUFY2;nc|ENSG00000204130|Q8WXA3-1|RUFY2 ENSG00000204130|ENST00000602465|RUFY2 ENSG00000204130|ENST00000602465|RUFY2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 349.2262268066406 3 349.225375 1044.6543 2.3704 0.00082781 -0.25381 -8.8638E-05 2.1166 0.00073917 349.2252241082626 14.445 0.30252 14.672 14.529 14.831 0.22622 61 24 3 0 0 0 0.63753 1 6316 6316 10.151 2.5416 1 733270 13537 5987 8641 8663 15614 15614 0.1337546206254956 KLSESKLKI 9 Unmodified _KLSESKLKI_ 0 0 0 ENSG00000204130|ENST00000602465|RUFY2;nc|ENSG00000204130|Q8WXA3-3|RUFY2;nc|ENSG00000204130|Q8WXA3-1|RUFY2 ENSG00000204130|ENST00000602465|RUFY2 ENSG00000204130|ENST00000602465|RUFY2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 349.22613525390625 3 349.225375 1044.6543 NaN NaN NaN NaN NaN NaN NaN 13.846 1 14.494 13.994 14.994 0.6482 0 0 0 0.26309 1 6225 6225 28.495 0 1 13538 5987 8641 8663 15615 15615 0.1337546206254956 KLSRLTVLKR 10 Unmodified _KLSRLTVLKR_ 0 0 0 REV__ENST00000437267.2_1:143186250-143186403:-|nuORF REV__ENST00000437267.2_1:143186250-143186403:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.27508544921875 3 405.274952 1212.80303 NaN NaN NaN NaN NaN NaN NaN 38.102 1 38.897 38.397 39.397 0.79552 0 0 0 1.0013 1 17260 17260 0.62683 0 1 + 13539 16316 8642 8664 15616 15616 0.20513612756099064 KLTELVVKLPK 11 Unmodified _KLTELVVKLPK_ 0 0 0 REV__ENST00000472868.6_1_3:185823134-185823701:-|nuORF REV__ENST00000472868.6_1_3:185823134-185823701:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 634.423828125 2 634.421031 1266.82751 NaN NaN NaN NaN NaN NaN NaN 39.306 1 39.573 39.073 40.073 0.26696 0 0 0 1.0073 1 17885 17885 1.1933 0 1 + 13540 15233 8643 8665 15617 15617 0.20476828118967205 KLTQQIRSLSK 11 Unmodified _KLTQQIRSLSK_ 0 0 0 ENSG00000184108|ENST00000332517|TRIML1 ENSG00000184108|ENST00000332517|TRIML1 ENSG00000184108|ENST00000332517|TRIML1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.26861572265625 3 434.601504 1300.78268 NaN NaN NaN NaN NaN NaN NaN 104.64 1 104.96 104.46 105.46 0.31863 0 0 0 1.008 1 48306 48306 0.073264 0 1 13541 5421 8644 8666 15618 15618 0.14432397305654376 KLTTQFRRLVP 11 Unmodified _KLTTQFRRLVP_ 0 0 0 AFF1-ANO6|1|fusion;AFF1-ANO6|2|fusion;nc|ENSG00000177119|Q4KMQ2-3|ANO6;ENSG00000177119|ENST00000320560|ANO6;nc|ENSG00000177119|Q4KMQ2-4|ANO6;nc|ENSG00000177119|Q4KMQ2-2|ANO6 AFF1-ANO6|1|fusion AFF1-ANO6|1|fusion MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 679.9179077148438 2 679.916978 1357.8194 NaN NaN NaN NaN NaN NaN NaN 80.494 1 80.662 80.162 81.162 0.16862 0 0 0 1.0041 1 39455 39455 5.2969 2.0156 1 13542 16 8645 8667 15619 15619 0.15480693922199862 KLVIKKEQ 8 Unmodified _KLVIKKEQ_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 329.5525817871094 3 329.218332 984.633166 NaN NaN NaN NaN NaN NaN NaN 33.616 1 33.616 33.116 34.116 0 0 0 0 0.95658 1 15240 15240 6.2058 0 1 + 13543 12747 8646 8668 15620 15620 0.14023496753691234 KLVIKKEQ 8 Unmodified _KLVIKKEQ_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 329.21917724609375 3 329.218332 984.633166 2.0857 0.00068665 0.72291 0.00023799 2.8086 0.00092465 329.21858972133066 32.539 0.27259 33.327 33.194 33.467 0.78795 28 19 2 0 0 0 0.47217 1 14724 14724 18.146 0 1 529670 + 13544 12747 8646 8668 15621 15621 0.14023496753691234 KLVIKKEQ 8 Unmodified _KLVIKKEQ_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.32611083984375 2 493.32386 984.633166 3.1042 0.0015314 1.6433 0.0008107 4.7476 0.0023421 493.32505812509453 32.917 0.31335 33.535 33.328 33.641 0.61831 29 12 3 0 0 0 0.070862 1 15052 15052 58.679 0 1 1287400 + 13545 12747 8646 8668 15622 15622 0.14023496753691234 KLVIKKEQ 8 Unmodified _KLVIKKEQ_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 329.218332 984.633166 2.0361 0.00067032 0.46234 0.00015221 2.4985 0.00082254 329.21858528261856 33.648 0.046665 33.648 33.635 33.682 0 0.16025 -0.00013205 NaN 18.146 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 662080 + 13546 12747 8646 8668 0.14023496753691234 KLVIKKEQ 8 Unmodified _KLVIKKEQ_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 329.218332 984.633166 2.0857 0.00068665 0.72291 0.00023799 2.8086 0.00092465 329.21858972133066 32.539 0.27259 33.327 33.194 33.467 0.78795 -0.16025 0.00012529 NaN 18.146 28 19 2 NaN NaN NaN NaN 0 NaN NaN 0 529670 + 13547 12747 8646 8668 0.14023496753691234 KLVKANITL 9 Unmodified _KLVKANITL_ 0 0 0 ENSG00000165091|ENST00000297784|TMC1 ENSG00000165091|ENST00000297784|TMC1 ENSG00000165091|ENST00000297784|TMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.33349609375 2 500.331685 998.648816 3.2634 0.0016328 0.50092 0.00025062 3.7643 0.0018834 500.3319064599032 35.132 0.2351 35.755 35.631 35.866 0.62294 20 11 2 0 0 0 0.19064 1 16137 16137 24.021 3.5669 1 777210 13548 4369 8647 8669 15623 15623 0.14943783270734912 KLVKVCTDT 9 Unmodified _KLVKVCTDT_ 0 0 0 ENSG00000183508|ENST00000369448|TENT5C ENSG00000183508|ENST00000369448|TENT5C ENSG00000183508|ENST00000369448|TENT5C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 336.1922912597656 3 336.191565 1005.55287 NaN NaN NaN NaN NaN NaN NaN 25.767 1 26.531 26.031 27.031 0.76356 0 0 0 0.90611 1 11568 11568 2.7352 0 1 13549 5386 8648 8670 15624 15624 0.050312673683379217 KLVKVCTDT 9 Unmodified _KLVKVCTDT_ 0 0 0 ENSG00000183508|ENST00000369448|TENT5C ENSG00000183508|ENST00000369448|TENT5C ENSG00000183508|ENST00000369448|TENT5C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.19195556640625 3 336.191565 1005.55287 NaN NaN NaN NaN NaN NaN NaN 26.501 1 26.766 26.266 27.266 0.26489 0 0 0 0.90611 1 12041 12041 1.0715 0 1 13550 5386 8648 8670 15625 15625 0.050312673683379217 KLVKVCTDT 9 Unmodified _KLVKVCTDT_ 0 0 0 ENSG00000183508|ENST00000369448|TENT5C ENSG00000183508|ENST00000369448|TENT5C ENSG00000183508|ENST00000369448|TENT5C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.1919860839844 3 336.191565 1005.55287 NaN NaN NaN NaN NaN NaN NaN 27.311 1 27.573 27.073 28.073 0.26245 0 0 0 0.90611 1 12413 12413 2.7352 0 1 13551 5386 8648 8670 15626 15626 0.050312673683379217 KLVKWKKRKKK 11 Unmodified _KLVKWKKRKKK_ 0 0 0 REV__ENST00000471830.1_1_20:3888626-3888701:+|nuORF REV__ENST00000471830.1_1_20:3888626-3888701:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 735.5111083984375 2 735.51138 1469.00821 NaN NaN NaN NaN NaN NaN NaN 87.588 1 87.628 87.128 88.128 0.039955 0 0 0 1.0082 1 44384 44384 0 0 1 + 13552 16608 8649 8671 15627 15627 0.2924639128632407 KLVLMYHE 8 Unmodified _KLVLMYHE_ 0 0 0 REV__nc|ENSG00000100376|Q9NWS6-2|FAM118A REV__nc|ENSG00000100376|Q9NWS6-2|FAM118A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 344.8559875488281 3 344.856406 1031.54739 NaN NaN NaN NaN NaN NaN NaN 52.39 1 53.052 52.552 53.552 0.66198 0 0 0 0.99035 1 23953 23953 3.5965 1.9439 1 + 13553 10826 8650 8672 15628 15628 0.03287588576517919 KLVLRRHHKIR 11 Unmodified _KLVLRRHHKIR_ 0 0 0 ENST00000229829.6_1_6:32972064-32972262:-|nuORF ENST00000229829.6_1_6:32972064-32972262:-|nuORF ENST00000229829.6_1_6:32972064-32972262:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 728.4780883789062 2 728.478403 1454.94225 NaN NaN NaN NaN NaN NaN NaN 82.666 1 83.326 82.826 83.826 0.66019 0 0 0 1.0082 1 38089 38089 0 0 1 13554 6442 8651 8673 15629 15629 0.23297995164125496 KLVQEKKL 8 Unmodified _KLVQEKKL_ 0 0 0 nc|ENSG00000120647|Q9BR77-2|CCDC77;ENSG00000120647|ENST00000239830|CCDC77 nc|ENSG00000120647|Q9BR77-2|CCDC77 nc|ENSG00000120647|Q9BR77-2|CCDC77 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 493.3250427246094 2 493.32386 984.633166 2.8901 0.0014258 0.27622 0.00013627 3.1663 0.001562 493.3240353020903 33.59 0.21926 33.59 33.512 33.731 0 35 19 2 0 0 0 0.029216 1 15219 15219 78.728 0.57865 1 3686200 13555 2200 8652 8674 15630 15630 0.14023496753691234 KLWGLQPKPI 10 Unmodified _KLWGLQPKPI_ 0 0 0 REV__nc|ENSG00000168843|Q8N475-3|FSTL5 REV__nc|ENSG00000168843|Q8N475-3|FSTL5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.2674560546875 3 393.913131 1178.71756 2.5887 0.0010197 1.6696 0.00065766 4.2582 0.0016774 393.9133381065766 37.576 0.3083 38.371 38.162 38.471 0.79552 24 14 3 0 0 0 0.12676 1 16939 16939 1.7423 0.67081 1 323150 + 13556 13369 8653 8675 15631 15631 0.13535447570484394 KLWIELLVIRP 11 Unmodified _KLWIELLVIRP_ 0 0 0 nc|ENSG00000260727|Q8MH63|SLC7A5P1 nc|ENSG00000260727|Q8MH63|SLC7A5P1 nc|ENSG00000260727|Q8MH63|SLC7A5P1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.7258605957031 4 345.724787 1378.87004 2.2165 0.0007663 1.0201 0.00035266 3.2366 0.001119 345.72510433292484 47.345 0.31726 47.345 47.123 47.441 0 46 16 4 0 0 0 0.91068 1 21656 21656 1.3296 0.87513 1 2596800 13557 9859 8654 8676 15632 15632 0.1957622324721342 KLWIELLVIRP 11 Unmodified _KLWIELLVIRP_ 0 0 0 nc|ENSG00000260727|Q8MH63|SLC7A5P1 nc|ENSG00000260727|Q8MH63|SLC7A5P1 nc|ENSG00000260727|Q8MH63|SLC7A5P1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 345.724787 1378.87004 2.2165 0.0007663 1.0201 0.00035266 3.2366 0.001119 345.72510433292484 47.345 0.31726 47.345 47.123 47.441 0 -0.021466 5.9271E-05 NaN 1.3296 46 16 4 NaN NaN NaN NaN 0 NaN NaN 0 2596800 13558 9859 8654 8676 0.1957622324721342 KLWIELLVIRP 11 Unmodified _KLWIELLVIRP_ 0 0 0 nc|ENSG00000260727|Q8MH63|SLC7A5P1 nc|ENSG00000260727|Q8MH63|SLC7A5P1 nc|ENSG00000260727|Q8MH63|SLC7A5P1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 345.724787 1378.87004 2.2348 0.00077263 1.0341 0.00035753 3.269 0.0011302 345.7251581032935 46.639 0.32201 47.468 47.436 47.758 0.82915 0.10157 7.8748E-05 NaN 1.3296 30 17 2 NaN NaN NaN NaN 0 NaN NaN 0 1242700 13559 9859 8654 8676 0.1957622324721342 KLWIELLVIRP 11 Unmodified _KLWIELLVIRP_ 0 0 0 nc|ENSG00000260727|Q8MH63|SLC7A5P1 nc|ENSG00000260727|Q8MH63|SLC7A5P1 nc|ENSG00000260727|Q8MH63|SLC7A5P1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 345.724787 1378.87004 2.702 0.00093413 0.66101 0.00022853 3.363 0.0011627 345.7249795361088 47.04 0.57423 47.304 47.039 47.613 0.26363 -0.063 -0.00043726 NaN 1.3296 40 21 2 NaN NaN NaN NaN 0 NaN NaN 0 1057600 13560 9859 8654 8676 0.1957622324721342 KLWPTWRPISI 11 Unmodified _KLWPTWRPISI_ 0 0 0 ENST00000600610.5_1_19:17449524-17450024:+|nuORF ENST00000600610.5_1_19:17449524-17450024:+|nuORF ENST00000600610.5_1_19:17449524-17450024:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.23358154296875 4 349.957949 1395.80269 2.5256 0.00088385 -1.0061 -0.0003521 1.5195 0.00053174 349.9588473827472 58.899 0.37877 59.16 59.015 59.394 0.26082 33 20 2 0 0 0 0.13295 1 27032 27032 4.4062 2.6639 1 596650 13561 9296 8655 8677 15633 15633 0.12062193036285862 KLWPTWRPISI 11 Unmodified _KLWPTWRPISI_ 0 0 0 ENST00000600610.5_1_19:17449524-17450024:+|nuORF ENST00000600610.5_1_19:17449524-17450024:+|nuORF ENST00000600610.5_1_19:17449524-17450024:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 349.957949 1395.80269 2.3337 0.0008167 -1.2852 -0.00044978 1.0484 0.00036691 349.95857035961154 59.49 0.24454 59.49 59.352 59.596 0 0.1652 -0.0002142 NaN 4.4062 27 19 2 NaN NaN NaN NaN 0 NaN NaN 0 851320 13562 9296 8655 8677 0.12062193036285862 KLWQPLKL 8 Unmodified _KLWQPLKL_ 0 0 0 REV__ENST00000484697.5_1_1:46871424-46877830:+|nuORF REV__ENST00000484697.5_1_1:46871424-46877830:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.3291625976562 2 513.328945 1024.64334 NaN NaN NaN NaN NaN NaN NaN 34.227 1 35.016 34.516 35.516 0.78921 0 0 0 0.9101 1 15499 15499 11.64 0.84079 1 + 13563 11443 8656 8678 15634 15634 0.1320010447891491 KLWVIEAKDLP 11 Unmodified _KLWVIEAKDLP_ 0 0 0 nc|ENSG00000136848|Q5VWQ8-3|DAB2IP;nc|ENSG00000136848|Q5VWQ8-4|DAB2IP;nc|ENSG00000136848|Q5VWQ8-2|DAB2IP;nc|ENSG00000136848|Q5VWQ8-5|DAB2IP;ENSG00000136848|ENST00000408936|DAB2IP nc|ENSG00000136848|Q5VWQ8-3|DAB2IP nc|ENSG00000136848|Q5VWQ8-3|DAB2IP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 438.262451171875 3 437.927218 1310.75982 2.7918 0.0012226 0.83455 0.00036547 3.6263 0.0015881 437.92755897139506 38.36 0.69367 39.158 38.724 39.418 0.79762 48 28 2 0 0 0 0.84422 1 17267 17267 2.2527 0 1 550320 13564 2980 8657 8679 15635 15635 0.11687378188184994 KLYKWKEY 8 Unmodified _KLYKWKEY_ 0 0 0 ENSG00000177932|ENST00000315475|ZNF354C ENSG00000177932|ENST00000315475|ZNF354C ENSG00000177932|ENST00000315475|ZNF354C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.3231811523438 2 579.321317 1156.62808 NaN NaN NaN NaN NaN NaN NaN 41.51 1 41.51 41.01 42.01 0 0 0 0 0.99035 1 18876 18876 0.69038 0 1 13565 5140 8658 8680 15636 15636 0.05603192891089748 KLYLRRIIKKR 11 Unmodified _KLYLRRIIKKR_ 0 0 0 REV__ENSG00000151835|ENST00000382292|SACS REV__ENSG00000151835|ENST00000382292|SACS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.3421630859375 3 496.340067 1485.99837 NaN NaN NaN NaN NaN NaN NaN 104.12 1 104.44 103.94 104.94 0.31863 0 0 0 1.0082 1 48112 48112 0 0 1 + 13566 12633 8659 8681 15637 15637 0.2748120328094501 KMAARRRPG 9 Unmodified _KMAARRRPG_ 0 0 0 nc|ENSG00000141644|Q9UIS9-4|MBD1;nc|ENSG00000141644|Q9UIS9-11|MBD1;nc|ENSG00000141644|Q9UIS9-8|MBD1;nc|ENSG00000141644|Q9UIS9-7|MBD1;nc|ENSG00000141644|Q9UIS9-6|MBD1;nc|ENSG00000141644|Q9UIS9-5|MBD1;nc|ENSG00000141644|Q9UIS9-10|MBD1;nc|ENSG00000141644|Q9UIS9-2|MBD1;ENSG00000141644|ENST00000269468|MBD1;nc|ENSG00000141644|Q9UIS9-9|MBD1;nc|ENSG00000141644|Q9UIS9-12|MBD1 nc|ENSG00000141644|Q9UIS9-4|MBD1 nc|ENSG00000141644|Q9UIS9-4|MBD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.20806884765625 3 348.206543 1041.5978 2.5709 0.00089521 0.59312 0.00020653 3.164 0.0011017 348.2066862102261 42.73 1.1014 43.377 42.948 44.049 0.64693 178 76 3 0 0 0 1.129 1 19807 19807 0.96228 0.96228 1 6263400 13567 3279 8660 8682 15638 15638 0.0786655574490851 KMAKLPKPVVV 11 Unmodified _KMAKLPKPVVV_ 0 0 0 nc|ENSG00000188385|Q5VZ66|JAKMIP3;ENSG00000188385|ENST00000684848|JAKMIP3 nc|ENSG00000188385|Q5VZ66|JAKMIP3 nc|ENSG00000188385|Q5VZ66|JAKMIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.1996154785156 4 303.199248 1208.76789 2.2541 0.00068345 -1.0796 -0.00032733 1.1745 0.00035612 303.1988849335253 39.643 0.7234 40.443 39.984 40.707 0.80014 78 35 3 0 0 0 0.91345 1 17826 17826 0.45452 0.45452 1 1369700 13568 5667 8661 8683 15639 15639 0.17185233903933295 KMAKLPKPVVV 11 Unmodified _KMAKLPKPVVV_ 0 0 0 nc|ENSG00000188385|Q5VZ66|JAKMIP3;ENSG00000188385|ENST00000684848|JAKMIP3 nc|ENSG00000188385|Q5VZ66|JAKMIP3 nc|ENSG00000188385|Q5VZ66|JAKMIP3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 303.199248 1208.76789 2.3206 0.00070362 -1.0677 -0.00032373 1.2529 0.00037989 303.19886376972 39.735 0.44567 40.376 40.082 40.527 0.64136 -0.089149 1.9807E-06 NaN 0.45452 37 21 3 NaN NaN NaN NaN 0 NaN NaN 0 1665300 13569 5667 8661 8683 0.17185233903933295 KMELTEHMQ 9 Unmodified _KMELTEHMQ_ 0 0 0 REV__nc|ENSG00000144674|Q13439-3|GOLGA4 REV__nc|ENSG00000144674|Q13439-3|GOLGA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 382.84857177734375 3 382.847581 1145.52091 2.5933 0.00099286 0.13195 5.0519E-05 2.7253 0.0010434 382.84760434477954 14.365 0.099976 14.671 14.632 14.732 0.3069 5 3 2 0 0 0 1.2126 1 6524 6524 0.23584 0 1 359530 + 13570 12411 8663 8684 15640 15640 -0.04602468377106561 KMERPQGRPKK 11 Unmodified _KMERPQGRPKK_ 0 0 0 ENSG00000080007|ENST00000370336|DDX43 ENSG00000080007|ENST00000370336|DDX43 ENSG00000080007|ENST00000370336|DDX43 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.4500427246094 4 339.448857 1353.76632 2.626 0.00089141 0.53774 0.00018254 3.1638 0.0010739 339.44902989488605 66.264 0.46689 66.513 66.362 66.829 0.24847 87 27 4 0 0 0 0.91137 1 30433 30433 1.1098 0.096179 1 1677600 13571 901 8664 8685 15641 15641 0.10358992867895722 KMERPQGRPKK 11 Unmodified _KMERPQGRPKK_ 0 0 0 ENSG00000080007|ENST00000370336|DDX43 ENSG00000080007|ENST00000370336|DDX43 ENSG00000080007|ENST00000370336|DDX43 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.4502868652344 4 339.448857 1353.76632 2.4168 0.00082038 0.93062 0.0003159 3.3474 0.0011363 339.4491388968052 66.14 0.50822 66.797 66.594 67.103 0.65672 73 29 3 0 0 0 0.91137 1 30355 30355 1.1098 0.096179 1 1371900 13572 901 8664 8685 15642 15642 0.10358992867895722 KMFIFLRRLLI 11 Unmodified _KMFIFLRRLLI_ 0 0 0 ENST00000602526.1_1_9:108337365-108363292:+|nuORF ENST00000602526.1_1_9:108337365-108363292:+|nuORF ENST00000602526.1_1_9:108337365-108363292:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 725.4603271484375 2 725.459968 1448.90538 NaN NaN NaN NaN NaN NaN NaN 25.983 1 25.983 25.483 26.483 0 0 0 0 1.0082 1 11678 11678 0 0 1 13573 9304 8665 8686 15643 15643 0.19888562503410867 KMFLILSA 8 Unmodified _KMFLILSA_ 0 0 0 ENST00000367634.6_1_1:178887589-178887718:+|nuORF ENST00000367634.6_1_1:178887589-178887718:+|nuORF ENST00000367634.6_1_1:178887589-178887718:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 308.1968994140625 3 308.185863 921.53576 NaN NaN NaN NaN NaN NaN NaN 26.366 1 27.145 26.645 27.645 0.7787 0 0 0 0.99035 1 11842 11842 1.6526 0 1 13574 7269 8666 8687 15644 15644 0.07185391553218778 KMFLILSA 8 Unmodified _KMFLILSA_ 0 0 0 ENST00000367634.6_1_1:178887589-178887718:+|nuORF ENST00000367634.6_1_1:178887589-178887718:+|nuORF ENST00000367634.6_1_1:178887589-178887718:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.1970520019531 3 308.185863 921.53576 NaN NaN NaN NaN NaN NaN NaN 18.981 1 19.639 19.139 20.139 0.6583 0 0 0 0.99035 1 8607 8607 1.6526 0 1 13575 7269 8666 8687 15645 15645 0.07185391553218778 KMFLILSA 8 Unmodified _KMFLILSA_ 0 0 0 ENST00000367634.6_1_1:178887589-178887718:+|nuORF ENST00000367634.6_1_1:178887589-178887718:+|nuORF ENST00000367634.6_1_1:178887589-178887718:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.1968994140625 3 308.185863 921.53576 NaN NaN NaN NaN NaN NaN NaN 26.703 1 27.325 26.825 27.825 0.62179 0 0 0 0.99035 1 12242 12242 1.6526 0 1 13576 7269 8666 8687 15646 15646 0.07185391553218778 KMIKMRQKRRP 11 Unmodified _KMIKMRQKRRP_ 0 0 0 REV__ENST00000339526.8_1_1:182359866-182360031:-|nuORF REV__ENST00000339526.8_1_1:182359866-182360031:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.3005676269531 3 491.298997 1470.87516 2.7672 0.0013595 0.84597 0.00041562 3.6132 0.0017752 491.2994075368855 101.36 0.10841 101.36 101.29 101.4 0 10 4 4 0 0 0 0.91391 1 56003 56003 0.08335 0 1 5069600 + 13577 15447 8667 8688 15647 15647 0.15855880566527958 KMKGHILN 8 Unmodified _KMKGHILN_ 0 0 0 REV__ENST00000519188.1_1_8:121500412-121502815:+|nuORF REV__ENST00000519188.1_1_8:121500412-121502815:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 314.1970520019531 3 314.184745 939.532406 NaN NaN NaN NaN NaN NaN NaN 40.921 1 40.921 40.421 41.421 0 0 0 0 0.99035 1 18583 18583 1.6526 0 1 + 13578 13540 8668 8689 15648 15648 0.06022141499204281 KMKGQRPL 8 Unmodified _KMKGQRPL_ 0 0 0 ENSG00000152580|ENST00000282466|IGSF10 ENSG00000152580|ENST00000282466|IGSF10 ENSG00000152580|ENST00000282466|IGSF10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 319.8600769042969 3 319.860262 956.558955 NaN NaN NaN NaN NaN NaN NaN 48.61 1 49.437 48.937 49.937 0.82705 0 0 0 0.99035 1 22145 22145 1.6526 0 1 13579 3754 8669 8690 15649 15649 0.07893830390526091 KMKPGKLHL 9 Unmodified _KMKPGKLHL_ 0 0 0 REV__ENSG00000124942|ENST00000378024|AHNAK REV__ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.3265991210938 2 526.325879 1050.63721 NaN NaN NaN NaN NaN NaN NaN 63.51 1 64.169 63.669 64.669 0.65808 0 0 0 0.90699 1 29104 29104 1.8442 0 1 + 13580 11669 8670 8691 15650 15650 0.11391262975780592 KMKPGKLHL 9 Unmodified _KMKPGKLHL_ 0 0 0 REV__ENSG00000124942|ENST00000378024|AHNAK REV__ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.32568359375 2 526.325879 1050.63721 NaN NaN NaN NaN NaN NaN NaN 70.907 1 71.57 71.07 72.07 0.66209 0 0 0 0.90699 1 32497 32497 1.8442 0 1 + 13581 11669 8670 8691 15651 15651 0.11391262975780592 KMKPRPIAIL 10 Unmodified _KMKPRPIAIL_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;TTN|p.R30215Vfs*13|1|0.21|ENSG00000155657|chr2:178545544-178545544|G/-|frameshift_variant;nc|ENSG00000155657|Q8WZ42-5|TTN;nc|ENSG00000155657|Q8WZ42-9|TTN;nc|ENSG00000155657|Q8WZ42-10|TTN;nc|ENSG00000155657|Q8WZ42-3|TTN;TTN|p.P20319Hfs*66|1|0.07|ENSG00000155657|chr2:178582577-178582578|-/AAAATAAATAT|frameshift_variant;TTN|p.A15448Hfs*16|1|0.24|ENSG00000155657|chr2:178610249-178610261|TTCTCCTCCCAGC/-|frameshift_variant;TTN|p.G17760Ifs*40|1|0.07|ENSG00000155657|chr2:178594192-178594193|-/TCGACTTCAGAGAT|frameshift_variant;TTN|p.V17759Afs*3|1|0.05|ENSG00000155657|chr2:178594194-178594195|-/G|frameshift_variant;nc|ENSG00000155657|Q8WZ42-6|TTN ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-6|TTN ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.8814086914062 2 583.875736 1165.73692 NaN NaN NaN NaN NaN NaN NaN 39.24 1 39.507 39.007 40.007 0.26696 0 0 0 1.0003 1 17856 17856 1.4819 0.28856 1 13582 3871;9700 8671 8692 15652 15652 0.1606808058970728 KMLCKALKKS 10 Unmodified _KMLCKALKKS_ 0 0 0 ENSG00000173572|ENST00000342929|NLRP13 ENSG00000173572|ENST00000342929|NLRP13 ENSG00000173572|ENST00000342929|NLRP13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.3473510742188 2 575.345954 1148.67736 3.9889 0.002295 -0.76102 -0.00043785 3.2279 0.0018571 575.3453543038598 94.144 0.8126 94.404 94.079 94.892 0.25975 109 41 4 0 0 0 0.90859 1 43323 43323 3.2813 3.2813 1 3611500 13583 4939 8672 8693 15653 15653 0.10896441584009153 KMLKFIAAL 9 Unmodified _KMLKFIAAL_ 0 0 0 REV__nc|ENSG00000182534|P84157|MXRA7 REV__nc|ENSG00000182534|P84157|MXRA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.8242797851562 2 517.825181 1033.63581 NaN NaN NaN NaN NaN NaN NaN 53.35 1 53.35 52.85 53.85 0 0 0 0 0.90611 1 24438 24438 2.0598 0 1 + 13584 18069 8673 8694 15654 15654 0.12033628887002124 KMMDVTVTI 9 Unmodified _KMMDVTVTI_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.274169921875 2 519.272121 1036.52969 3.1667 0.0016444 0.20312 0.00010547 3.3698 0.0017498 519.2720949297524 58.552 0.21857 58.552 58.466 58.684 0 26 18 2 0 0 0 0.057945 1 27028 27028 43.772 1.6778 1 659750 13585 1384 8674 8695 15655 15655 0.012885052593901491 KMPKMKMPKF 10 Unmodified _KMPKMKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.5696105957031 3 422.569214 1264.68581 2.5142 0.0010624 -0.96926 -0.00040958 1.5449 0.00065282 422.5692257121697 34.296 0.47152 34.296 34.183 34.655 0 41 26 3 0 0 0 0.047717 3 15605 15556;15605;15693 62.869 52.718 1 1366600 13586 2385 8675 8696 15656;15657;15658 15657 0.06405672228993353 KMPKMKMPKF 10 Unmodified _KMPKMKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.5701599121094 3 422.569214 1264.68581 NaN NaN NaN NaN NaN NaN NaN 34.151 1 34.151 33.651 34.651 0 0 0 0 0.32634 1 15477 15477 36.395 31.679 1 13587 2385 8675 8696 15659 15659 0.06405672228993353 KMPKMKMPKF 10 Unmodified _KMPKMKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.5704345703125 3 422.569214 1264.68581 2.3659 0.00099976 -0.36535 -0.00015439 2.0006 0.00084537 422.56932217473263 33.522 0.85875 34.31 33.601 34.46 0.78795 71 54 2 0 0 0 0.047717 5 15094 14901;14978;15094;15155;15211 62.869 54.424 1 648830 13588 2385 8675 8696 15660;15661;15662;15663;15664 15662 0.06405672228993353 KMPKMKMPKF 10 Unmodified _KMPKMKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5702819824219 3 422.569214 1264.68581 2.9188 0.0012334 -1.1194 -0.00047303 1.7994 0.00076036 422.56888669626545 34.417 0.52033 34.671 34.443 34.963 0.25389 52 23 3 0 0 0 0.10862 3 15613 15613;15664;15733 51.488 42.244 1 689720 13589 2385 8675 8696 15665;15666;15667 15665 0.06405672228993353 KMPKMKMPKF 10 Unmodified _KMPKMKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.5694274902344 3 422.569214 1264.68581 NaN NaN NaN NaN NaN NaN NaN 33.484 1 34.105 33.605 34.605 0.62031 0 0 0 0.48549 1 15345 15345 30.431 24.563 1 13590 2385 8675 8696 15668 15668 0.06405672228993353 KMPKMKMPKF 10 Unmodified _KMPKMKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.57061767578125 3 422.569214 1264.68581 NaN NaN NaN NaN NaN NaN NaN 33.772 1 34.393 33.893 34.893 0.62031 0 0 0 0.32634 1 15474 15474 36.395 29.765 1 13591 2385 8675 8696 15669 15669 0.06405672228993353 KMPKMKMPKF 10 Unmodified _KMPKMKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.5699157714844 3 422.569214 1264.68581 NaN NaN NaN NaN NaN NaN NaN 33.898 1 34.519 34.019 35.019 0.62031 0 0 0 0.16921 1 15532 15532 48.073 39.097 1 13592 2385 8675 8696 15670 15670 0.06405672228993353 KMPKMKMPKF 10 Unmodified _KMPKMKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.5702209472656 3 422.569214 1264.68581 NaN NaN NaN NaN NaN NaN NaN 34.018 1 34.638 34.138 35.138 0.62031 0 0 0 0.32634 1 15586 15586 36.395 29.765 1 13593 2385 8675 8696 15671 15671 0.06405672228993353 KMPKMKMPKF 10 Unmodified _KMPKMKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.570068359375 3 422.569214 1264.68581 NaN NaN NaN NaN NaN NaN NaN 34.252 1 34.875 34.375 35.375 0.62294 0 0 0 0.25769 1 15693 15693 41.347 35.479 1 13594 2385 8675 8696 15672 15672 0.06405672228993353 KMPKMKMPTF 10 Unmodified _KMPKMKMPTF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.5548400878906 3 413.553452 1237.63853 NaN NaN NaN NaN NaN NaN NaN 43.017 1 43.287 42.787 43.787 0.27021 0 0 0 0.16921 1 19637 19637 48.073 24.109 1 13595 2385 8676 8697 15673 15673 0.02921392958000979 KMPKMKMPTF 10 Unmodified _KMPKMKMPTF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.5545959472656 3 413.553452 1237.63853 NaN NaN NaN NaN NaN NaN NaN 43.124 1 43.394 42.894 43.894 0.27021 0 0 0 0.11643 1 19689 19689 92.201 46.598 1 13596 2385 8676 8697 15674 15674 0.02921392958000979 KMPKMKMPTF 10 Unmodified _KMPKMKMPTF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 413.55438232421875 3 413.553452 1237.63853 3.127 0.0012932 -0.75518 -0.00031231 2.3719 0.00098089 413.5532453647331 42.649 0.77135 43.295 42.868 43.639 0.64693 129 61 3 0 0 0 0.13313 4 19535 19383;19434;19489;19535 48.073 18.627 1 3963100 13597 2385 8676 8697 15675;15676;15677;15678 15678 0.02921392958000979 KMPKMKMPTF 10 Unmodified _KMPKMKMPTF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 413.5545349121094 3 413.553452 1237.63853 NaN NaN NaN NaN NaN NaN NaN 42.2 1 42.847 42.347 43.347 0.64693 0 0 0 0.33719 1 19328 19328 35.612 19.338 1 13598 2385 8676 8697 15679 15679 0.02921392958000979 KMPKMKMPTF 10 Unmodified _KMPKMKMPTF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 413.553452 1237.63853 2.6867 0.0011111 -0.75235 -0.00031114 1.9343 0.00079994 413.8872437824818 43.556 0.036068 43.556 43.532 43.568 0 0.11812 -0.00030872 NaN 48.073 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 3430500 13599 2385 8676 8697 0.02921392958000979 KMPKVKMPKF 10 Unmodified _KMPKVKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 411.9133605957031 3 411.911857 1232.71374 2.4408 0.0010054 -0.20308 -8.365E-05 2.2377 0.00092174 411.9120799155263 34.295 0.96857 34.295 33.63 34.599 0 120 60 3 0 0 0 0.019405 4 15511 15450;15511;15611;15664 77.049 68.072 1 1238900 13600 2385 8677 8698 15680;15681;15682;15683 15681 0.1066931848074546 KMPKVKMPKF 10 Unmodified _KMPKVKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 411.9134521484375 3 411.911857 1232.71374 2.3442 0.00096559 0.11847 4.8799E-05 2.4626 0.0010144 411.91221292950235 33.535 1.1006 34.323 33.343 34.443 0.78795 184 74 3 0 0 0 0.039166 8 15081 14778;14835;14884;14941;14985;15029;15081;15130 64.927 58.735 1 1119100 13601 2385 8677 8698 15684;15685;15686;15687;15688;15689;15690;15691 15690 0.1066931848074546 KMPKVKMPKF 10 Unmodified _KMPKVKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 309.1864013671875 4 309.185712 1232.71374 1.887 0.00058342 0.58929 0.0001822 2.4763 0.00076562 309.1858874170032 33.573 0.6486 34.361 33.811 34.46 0.78795 60 42 2 0 0 0 0.93658 1 15214 15214 1.5923 0.63001 1 974250 13602 2385 8677 8698 15692 15692 0.1066931848074546 KMPKVKMPKF 10 Unmodified _KMPKVKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 309.52484130859375 4 309.185712 1232.71374 1.9854 0.00061386 0.063607 1.9666E-05 2.049 0.00063353 309.1859938529561 32.862 0.50965 33.65 33.343 33.852 0.78795 76 34 3 0 0 0 0.12676 1 14844 14844 1.4551 1.2193 1 427000 13603 2385 8677 8698 15693 15693 0.1066931848074546 KMPKVKMPKF 10 Unmodified _KMPKVKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 411.91302490234375 3 411.911857 1232.71374 2.9624 0.0012203 0.064378 2.6518E-05 3.0268 0.0012468 411.91204208298655 34.409 1.6063 34.663 33.357 34.963 0.25389 111 79 3 0 0 0 0.047717 2 15730 15562;15730 62.869 53.892 1 1385400 13604 2385 8677 8698 15694;15695 15695 0.1066931848074546 KMPKVKMPKF 10 Unmodified _KMPKVKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 309.1866149902344 4 309.185712 1232.71374 2.2255 0.0006881 -0.2891 -8.9385E-05 1.9364 0.00059871 309.18551242863316 34.294 1.0043 34.548 33.932 34.936 0.25389 76 47 3 0 0 0 0.82036 2 15698 15698;15751 7.4771 5.7348 1 1434000 13605 2385 8677 8698 15696;15697 15696 0.1066931848074546 KMPKVKMPKF 10 Unmodified _KMPKVKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 617.3668212890625 2 617.364147 1232.71374 NaN NaN NaN NaN NaN NaN NaN 33.711 1 33.965 33.465 34.465 0.25389 0 0 0 0.96949 1 15350 15350 16.149 11.62 1 13606 2385 8677 8698 15698 15698 0.1066931848074546 KMPKVKMPKF 10 Unmodified _KMPKVKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 411.9126892089844 3 411.911857 1232.71374 2.8523 0.0011749 -0.23056 -9.4972E-05 2.6217 0.0010799 411.91203922541825 33.851 1.6762 34.472 33.216 34.892 0.62031 173 81 3 0 0 0 0.020071 3 15617 15191;15381;15617 70.929 64.737 1 792580 13607 2385 8677 8698 15699;15700;15701 15701 0.1066931848074546 KMPKVKMPKF 10 Unmodified _KMPKVKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 309.1861877441406 4 309.185712 1232.71374 2.0089 0.00062113 0.095708 2.9592E-05 2.1046 0.00065072 309.1858071959519 33.759 1.0911 34.38 33.753 34.844 0.62031 89 52 3 0 0 0 0.87145 1 15482 15482 5.0475 4.0852 1 910710 13608 2385 8677 8698 15702 15702 0.1066931848074546 KMPKVKMPKF 10 Unmodified _KMPKVKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 411.9134521484375 3 411.911857 1232.71374 NaN NaN NaN NaN NaN NaN NaN 32.715 1 33.334 32.834 33.834 0.61831 0 0 0 0.99559 1 14999 14999 5.4027 3.6604 1 13609 2385 8677 8698 15703 15703 0.1066931848074546 KMPKVKMPKF 10 Unmodified _KMPKVKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 411.91326904296875 3 411.911857 1232.71374 NaN NaN NaN NaN NaN NaN NaN 32.837 1 33.455 32.955 33.955 0.61831 0 0 0 0.99514 1 15053 15053 5.7834 4.5686 1 13610 2385 8677 8698 15704 15704 0.1066931848074546 KMPKVKMPKF 10 Unmodified _KMPKVKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 617.366943359375 2 617.364147 1232.71374 NaN NaN NaN NaN NaN NaN NaN 33.256 1 33.876 33.376 34.376 0.62031 0 0 0 0.99559 1 15242 15242 5.7319 4.25 1 13611 2385 8677 8698 15705 15705 0.1066931848074546 KMPKVKMPKF 10 Unmodified _KMPKVKMPKF_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 617.366943359375 2 617.364147 1232.71374 NaN NaN NaN NaN NaN NaN NaN 33.435 1 34.056 33.556 34.556 0.62031 0 0 0 0.91622 1 15323 15323 16.149 11.62 1 13612 2385 8677 8698 15706 15706 0.1066931848074546 KMRRMKFRRRR 11 Unmodified _KMRRMKFRRRR_ 0 0 0 REV__ENSG00000023171|ENST00000635736|GRAMD1B REV__ENSG00000023171|ENST00000635736|GRAMD1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.9946899414062 3 540.99279 1619.95654 NaN NaN NaN NaN NaN NaN NaN 87.441 1 87.441 86.941 87.941 0 0 0 0 1.0082 1 45095 45095 0.08335 0.08335 1 + 13613 10269 8678 8699 15707 15707 0.17136001049129845 KMRRYLRYRWE 11 Unmodified _KMRRYLRYRWE_ 0 0 0 REV__ENSG00000153930|ENST00000682825|ANKFN1 REV__ENSG00000153930|ENST00000682825|ANKFN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.752685546875 3 552.968304 1655.88308 NaN NaN NaN NaN NaN NaN NaN 70.434 1 70.434 69.934 70.934 0 0 0 0 1.008 1 34173 34173 0.08335 0.08335 1 + 13614 12689 8679 8700 15708 15708 0.08137731087663269 KMRTLRHGILV 11 Unmodified _KMRTLRHGILV_ 0 0 0 ENST00000554116.5_1_16:89989809-89998148:+|nuORF ENST00000554116.5_1_16:89989809-89998148:+|nuORF ENST00000554116.5_1_16:89989809-89998148:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.707275390625 4 331.7065 1322.79689 2.6641 0.0008837 0.27325 9.064E-05 2.9374 0.00097434 331.7065386707902 54.008 0.71559 54.008 53.676 54.391 0 131 52 3 0 0 0 0.88721 1 24816 24816 1.2148 0.588 1 2968000 13615 8903 8680 8701 15709 15709 0.14840771252966078 KMRTLRHGILV 11 Unmodified _KMRTLRHGILV_ 0 0 0 ENST00000554116.5_1_16:89989809-89998148:+|nuORF ENST00000554116.5_1_16:89989809-89998148:+|nuORF ENST00000554116.5_1_16:89989809-89998148:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.70745849609375 4 331.7065 1322.79689 2.1746 0.00072134 0.90048 0.0002987 3.0751 0.00102 331.70661461406326 56.136 0.37455 56.136 55.891 56.266 0 61 27 3 0 0 0 0.88721 1 25857 25857 1.2148 0 1 1225100 13616 8903 8680 8701 15710 15710 0.14840771252966078 KMRTLRHGILV 11 Unmodified _KMRTLRHGILV_ 0 0 0 ENST00000554116.5_1_16:89989809-89998148:+|nuORF ENST00000554116.5_1_16:89989809-89998148:+|nuORF ENST00000554116.5_1_16:89989809-89998148:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.95880126953125 4 331.7065 1322.79689 2.2673 0.00075207 0.92961 0.00030836 3.1969 0.0010604 331.9575881218911 56.532 0.47645 56.532 56.272 56.749 0 84 39 3 0 0 0 0.91111 1 26080 26080 0.40827 0.40827 1 3616400 13617 8903 8680 8701 15711 15711 0.14840771252966078 KMRTLRHGILV 11 Unmodified _KMRTLRHGILV_ 0 0 0 ENST00000554116.5_1_16:89989809-89998148:+|nuORF ENST00000554116.5_1_16:89989809-89998148:+|nuORF ENST00000554116.5_1_16:89989809-89998148:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.9414367675781 3 441.939575 1322.79689 NaN NaN NaN NaN NaN NaN NaN 54.196 1 54.196 53.696 54.696 0 0 0 0 1.0059 1 24856 24856 1.2148 0 1 13618 8903 8680 8701 15712 15712 0.14840771252966078 KMRTLRHGILV 11 Unmodified _KMRTLRHGILV_ 0 0 0 ENST00000554116.5_1_16:89989809-89998148:+|nuORF ENST00000554116.5_1_16:89989809-89998148:+|nuORF ENST00000554116.5_1_16:89989809-89998148:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.9410095214844 3 441.939575 1322.79689 2.657 0.0011742 1.0865 0.00048015 3.7434 0.0016544 441.9399701077559 54.474 0.45411 54.739 54.456 54.91 0.26462 51 20 3 0 0 0 0.91111 1 24974 24974 0.40827 0 1 1180800 13619 8903 8680 8701 15713 15713 0.14840771252966078 KMRTLRHGILV 11 Unmodified _KMRTLRHGILV_ 0 0 0 ENST00000554116.5_1_16:89989809-89998148:+|nuORF ENST00000554116.5_1_16:89989809-89998148:+|nuORF ENST00000554116.5_1_16:89989809-89998148:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.275146484375 3 441.939575 1322.79689 2.9119 0.0012869 0.5056 0.00022344 3.4175 0.0015103 441.93978806320905 53.08 0.60686 53.744 53.494 54.101 0.6644 41 26 2 0 0 0 0.84422 1 24292 24292 2.2527 0 1 1447200 13620 8903 8680 8701 15714 15714 0.14840771252966078 KMRTLRHGILV 11 Unmodified _KMRTLRHGILV_ 0 0 0 ENST00000554116.5_1_16:89989809-89998148:+|nuORF ENST00000554116.5_1_16:89989809-89998148:+|nuORF ENST00000554116.5_1_16:89989809-89998148:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.27569580078125 3 441.939575 1322.79689 2.9664 0.001311 0.65984 0.00029161 3.6263 0.0016026 442.27423330617216 54.46 0.49653 55.127 54.649 55.145 0.6665 49 29 2 0 0 0 0.91111 1 24855 24855 0.40827 0 1 2531900 13621 8903 8680 8701 15715 15715 0.14840771252966078 KMRTLRHGILV 11 Unmodified _KMRTLRHGILV_ 0 0 0 ENST00000554116.5_1_16:89989809-89998148:+|nuORF ENST00000554116.5_1_16:89989809-89998148:+|nuORF ENST00000554116.5_1_16:89989809-89998148:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 331.7065 1322.79689 2.1327 0.00070742 0.19111 6.3394E-05 2.3238 0.00077081 331.7065180734003 53.031 0.36379 53.834 53.527 53.891 0.80351 -0.10496 -0.00025776 NaN 1.2148 59 25 3 NaN NaN NaN NaN 0 NaN NaN 0 1671000 13622 8903 8680 8701 0.14840771252966078 KMRTLRHGILV 11 Unmodified _KMRTLRHGILV_ 0 0 0 ENST00000554116.5_1_16:89989809-89998148:+|nuORF ENST00000554116.5_1_16:89989809-89998148:+|nuORF ENST00000554116.5_1_16:89989809-89998148:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 331.7065 1322.79689 2.1056 0.00069844 0.74065 0.00024568 2.8463 0.00094412 331.95757550694304 53.394 0.1935 54.059 53.938 54.132 0.6644 0.11984 0.00047139 NaN 1.2148 13 7 2 NaN NaN NaN NaN 0 NaN NaN 0 1898000 13623 8903 8680 8701 0.14840771252966078 KMVLLVQDL 9 Unmodified _KMVLLVQDL_ 0 0 0 REV__ENST00000401050.7_1_1:53133125-53134458:+|nuORF REV__ENST00000401050.7_1_1:53133125-53134458:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 353.54815673828125 3 353.547461 1057.62055 2.6318 0.00093046 0.39074 0.00013815 3.0225 0.0010686 353.54744329281095 41.649 0.26865 42.294 42.045 42.313 0.64451 26 15 3 0 0 0 0.76984 1 19037 19037 4.897 0.70751 1 5910700 + 13624 16044 8681 8702 15716 15716 0.09404717299162257 KMVMCILKLF 10 Unmodified _KMVMCILKLF_ 0 0 0 ENST00000472854.5_1_10:97141330-97144028:-|nuORF ENST00000472854.5_1_10:97141330-97144028:-|nuORF ENST00000472854.5_1_10:97141330-97144028:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1225.687744140625 1 1225.68694 1224.67966 3.646 0.0044688 0.084784 0.00010392 3.7307 0.0045727 1225.6865383736267 30.976 0.068707 31.233 31.194 31.263 0.25614 8 6 2 0 0 0 0.94443 1 14108 14108 0 0 1 293150 13625 8192 8682 8703 15717 15717 0.07631153997476758 KMWAVDAMVQE 11 Oxidation (M) _KMWAVDAM(Oxidation (M))VQE_ KM(0.005)WAVDAM(0.995)VQE KM(-23)WAVDAM(23)VQE 0 0 1 REV__ENSG00000139437|ENST00000405876|TCHP REV__ENSG00000139437|ENST00000405876|TCHP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 662.3119506835938 2 662.307223 1322.59989 NaN NaN NaN NaN NaN NaN NaN 19.76 1 20.026 19.526 20.526 0.26616 0 0 0 0.081042 1 8790 8790 47.732 20.509 2 + 13626 12212 8683 8704 15718 15718 94 -0.04850241142844425 KMWKQNFKMY 10 Unmodified _KMWKQNFKMY_ 0 0 0 L1MD2_dup3931|chr7:382708-385046:+|1.236162871048498|0.3102442397353085|1.99|537.0|46|2|sense L1MD2_dup3931|chr7:382708-385046:+|1.236162871048498|0.3102442397353085|1.99|537.0|46|2|sense L1MD2_dup3931|chr7:382708-385046:+|1.236162871048498|0.3102442397353085|1.99|537.0|46|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 702.3500366210938 2 702.351768 1402.68898 NaN NaN NaN NaN NaN NaN NaN 23.167 1 23.807 23.307 24.307 0.64051 0 0 0 1.0015 1 10568 10568 0.40072 0 1 13627 9446 8684 8705 15719 15719 0.0037463860735442722 KNAAISYH 8 Unmodified _KNAAISYH_ 0 0 0 REV__ENSG00000101251|ENST00000284951|SEL1L2 REV__ENSG00000101251|ENST00000284951|SEL1L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 452.2401428222656 2 452.237784 902.461016 NaN NaN NaN NaN NaN NaN NaN 52.81 1 53.613 53.113 54.113 0.80351 0 0 0 0.99035 1 24065 24065 5.7604 1.0044 1 + 13628 10876 8685 8706 15720 15720 0.005883450661713141 KNAAKGPR 8 Unmodified _KNAAKGPR_ 0 0 0 REV__ENSG00000138002|ENST00000260570|IFT172 REV__ENSG00000138002|ENST00000260570|IFT172 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.25494384765625 2 421.253769 840.492984 2.791 0.0011757 0.63398 0.00026707 3.4249 0.0014428 421.2540039124337 77.238 0.42274 77.493 77.356 77.779 0.25533 39 29 2 0 0 0 0.7441 1 35614 35614 2.3027 0 1 457260 + 13629 12139 8686 8707 15721 15721 0.06635757539982023 KNAIVVVP 8 Unmodified _KNAIVVVP_ 0 0 0 REV__DYRK3|p.G560V|1|0.11|ENSG00000143479|chr1:206648877-206648877|G/T|missense_variant REV__DYRK3|p.G560V|1|0.11|ENSG00000143479|chr1:206648877-206648877|G/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 420.2713623046875 2 420.271096 838.527639 NaN NaN NaN NaN NaN NaN NaN 63.636 1 63.884 63.384 64.384 0.24803 0 0 0 0.99035 1 29144 29144 2.3027 1.6124 1 + 13630 10143 8687 8708 15722 15722 0.1019158062807719 KNAKVPTAE 9 Unmodified _KNAKVPTAE_ 0 0 0 REV__nc|ENSG00000134897|Q86UB2-2|BIVM REV__nc|ENSG00000134897|Q86UB2-2|BIVM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 319.8603515625 3 319.850308 956.529095 NaN NaN NaN NaN NaN NaN NaN 48.373 1 48.635 48.135 49.135 0.26209 0 0 0 0.90431 1 22113 22113 2.4985 0 1 + 13631 11987 8688 8709 15723 15723 0.04909169926179402 KNALVSYS 8 Unmodified _KNALVSYS_ 0 0 0 ENSG00000204963|ENST00000525929|PCDHA7;ENSG00000251664|ENST00000398631|PCDHA12;nc|ENSG00000204963|Q9UN72-2|PCDHA7;nc|ENSG00000251664|Q9UN75-2|PCDHA12 ENSG00000204963|ENST00000525929|PCDHA7 ENSG00000204963|ENST00000525929|PCDHA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.2419128417969 2 441.239993 880.465432 NaN NaN NaN NaN NaN NaN NaN 90.624 1 90.875 90.375 91.375 0.25163 0 0 0 0.99035 1 41672 41672 2.3027 1.5091 1 13632 6038 8689 8710 15724 15724 0.020418094890828797 KNAVIGNNK 9 Unmodified _KNAVIGNNK_ 0 0 0 nc|ENSG00000114098|Q8IUR7-6|ARMC8;nc|ENSG00000114098|Q8IUR7-8|ARMC8;nc|ENSG00000114098|Q8IUR7-3|ARMC8;nc|ENSG00000114098|Q8IUR7-7|ARMC8;nc|ENSG00000114098|Q8IUR7-2|ARMC8;ENSG00000114098|ENST00000469044|ARMC8;ENST00000463485.5_1_3:137940771-137947769:+|nuORF nc|ENSG00000114098|Q8IUR7-6|ARMC8 nc|ENSG00000114098|Q8IUR7-6|ARMC8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.27813720703125 2 479.277441 956.540328 2.8258 0.0013544 0.83586 0.00040061 3.6617 0.001755 479.27780026413797 76.187 1.0143 76.444 75.762 76.776 0.25704 117 81 2 0 0 0 1.0041 1 35048 35048 3.9444 1.0552 1 772290 13633 9600 8690 8711 15725 15725 0.06031992020314192 KNAVIGNNK 9 Unmodified _KNAVIGNNK_ 0 0 0 nc|ENSG00000114098|Q8IUR7-6|ARMC8;nc|ENSG00000114098|Q8IUR7-8|ARMC8;nc|ENSG00000114098|Q8IUR7-3|ARMC8;nc|ENSG00000114098|Q8IUR7-7|ARMC8;nc|ENSG00000114098|Q8IUR7-2|ARMC8;ENSG00000114098|ENST00000469044|ARMC8;ENST00000463485.5_1_3:137940771-137947769:+|nuORF nc|ENSG00000114098|Q8IUR7-6|ARMC8 nc|ENSG00000114098|Q8IUR7-6|ARMC8 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 479.277441 956.540328 2.8258 0.0013544 0.83586 0.00040061 3.6617 0.001755 479.27780026413797 76.187 1.0143 76.444 75.762 76.776 0.25704 0.009491 -7.9228E-05 NaN 3.9444 117 81 2 NaN NaN NaN NaN 0 NaN NaN 0 772290 13634 9600 8690 8711 0.06031992020314192 KNAVIGNNK 9 Unmodified _KNAVIGNNK_ 0 0 0 nc|ENSG00000114098|Q8IUR7-6|ARMC8;nc|ENSG00000114098|Q8IUR7-8|ARMC8;nc|ENSG00000114098|Q8IUR7-3|ARMC8;nc|ENSG00000114098|Q8IUR7-7|ARMC8;nc|ENSG00000114098|Q8IUR7-2|ARMC8;ENSG00000114098|ENST00000469044|ARMC8;ENST00000463485.5_1_3:137940771-137947769:+|nuORF nc|ENSG00000114098|Q8IUR7-6|ARMC8 nc|ENSG00000114098|Q8IUR7-6|ARMC8 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 479.277441 956.540328 2.7314 0.0013091 1.0241 0.00049081 3.7554 0.0017999 479.27796197460475 75.761 0.94643 76.425 75.758 76.704 0.66387 -0.009491 0.00010119 NaN 3.9444 136 81 3 NaN NaN NaN NaN 0 NaN NaN 0 885300 13635 9600 8690 8711 0.06031992020314192 KNCADDNDDDD 11 Unmodified _KNCADDNDDDD_ 0 0 0 REV__ENST00000366930.8_1_1:218614709-218614793:+|nuORF REV__ENST00000366930.8_1_1:218614709-218614793:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.7164306640625 3 413.807056 1238.39934 NaN NaN NaN NaN NaN NaN NaN 73.237 1 73.496 72.996 73.996 0.25876 0 0 0 1.0079 1 33634 33634 0.40827 0.17242 1 + 13636 15646 8691 8712 15726 15726 -0.21032463996607476 KNCAILFSPT 10 Unmodified _KNCAILFSPT_ 0 0 0 REV__ENSG00000144867|ENST00000678299|SRPRB REV__ENSG00000144867|ENST00000678299|SRPRB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.1962890625 3 365.195198 1092.56377 NaN NaN NaN NaN NaN NaN NaN 76.206 1 76.87 76.37 77.37 0.66387 0 0 0 0.99812 1 35106 35106 1.5923 0 1 + 13637 12419 8692 8713 15727 15727 0.021186697426401224 KNCDQWSC 8 Unmodified _KNCDQWSC_ 0 0 0 REV__KLF13|p.F197S|1|0.2|ENSG00000169926|chr15:31372022-31372022|T/C|missense_variant REV__KLF13|p.F197S|1|0.2|ENSG00000169926|chr15:31372022-31372022|T/C|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.1824035644531 2 492.189119 982.363686 NaN NaN NaN NaN NaN NaN NaN 80.434 1 80.603 80.103 81.103 0.16862 0 0 0 0.99035 1 39422 39422 5.2307 0 1 + 13638 13410 8693 8714 15728 15728 -0.1282012819663123 KNCEHKNVHLK 11 Unmodified _KNCEHKNVHLK_ 0 0 0 nc|ENSG00000198521|P17038-2|ZNF43;ENSG00000198521|ENST00000354959|ZNF43 nc|ENSG00000198521|P17038-2|ZNF43 nc|ENSG00000198521|P17038-2|ZNF43 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.5754089355469 3 450.575072 1348.70339 NaN NaN NaN NaN NaN NaN NaN 73.355 1 73.355 72.855 73.855 0 0 0 0 0.99038 1 35741 35741 3.8459 2.3908 1 13639 5895 8694 8715 15729 15729 0.042984270798569923 KNCENFYSFMI 11 Unmodified _KNCENFYSFMI_ 0 0 0 ENSG00000177409|ENST00000318238|SAMD9L ENSG00000177409|ENST00000318238|SAMD9L ENSG00000177409|ENST00000318238|SAMD9L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.8750305175781 3 465.873908 1394.59989 NaN NaN NaN NaN NaN NaN NaN 73.705 1 74.369 73.869 74.869 0.6644 0 0 0 1.0073 1 33892 33892 1.2148 0.4383 1 13640 5117 8695 8716 15730 15730 -0.08162241142827042 KNCERLCLP 9 Unmodified _KNCERLCLP_ 0 0 0 ENST00000368489.3_1_1:154321714-154321933:+|nuORF ENST00000368489.3_1_1:154321714-154321933:+|nuORF ENST00000368489.3_1_1:154321714-154321933:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 359.183837890625 3 359.184416 1074.53142 NaN NaN NaN NaN NaN NaN NaN 73.501 1 74.2 73.7 74.7 0.69881 0 0 0 0.90431 1 35455 35455 2.4985 0.75621 1 13641 7280 8696 8717 15731 15731 -0.0028644093201819487 KNCESCSQ 8 Unmodified _KNCESCSQ_ 0 0 0 ENST00000444990.5_1_2:243030866-243058384:+|nuORF;ENST00000456398.5_1_2:243030866-243061155:+|nuORF ENST00000444990.5_1_2:243030866-243058384:+|nuORF ENST00000444990.5_1_2:243030866-243058384:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 449.6739807128906 2 449.673302 897.332052 NaN NaN NaN NaN NaN NaN NaN 69.639 1 70.342 69.842 70.842 0.70302 0 0 0 0.99035 1 33337 33337 2.3027 0 1 13642 7965 8697 8718 15732 15732 -0.12072120950574572 KNCFATCF 8 Unmodified _KNCFATCF_ 0 0 0 ENST00000468376.2_1_20:45867286-45947776:-|nuORF ENST00000468376.2_1_20:45867286-45947776:-|nuORF ENST00000468376.2_1_20:45867286-45947776:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 467.2007141113281 2 467.201499 932.388444 NaN NaN NaN NaN NaN NaN NaN 75.96 1 76.217 75.717 76.717 0.25704 0 0 0 0.99035 1 34966 34966 2.3027 0.24298 1 13643 8154 8698 8719 15733 15733 -0.08045448323252913 KNCGDYDCRHI 11 Unmodified _KNCGDYDCRHI_ 0 0 0 REV__ENSG00000109787|ENST00000261438|KLF3 REV__ENSG00000109787|ENST00000261438|KLF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.8584289550781 3 441.85714 1322.54959 NaN NaN NaN NaN NaN NaN NaN 64.807 1 64.807 64.307 65.307 0 0 0 0 1.0073 1 30774 30774 0.40827 0 1 + 13644 11178 8699 8720 15734 15734 -0.09878350747976583 KNCHAVVRL 9 Unmodified _KNCHAVVRL_ 0 0 0 REV__ENST00000497308.1_1_7:6452282-6456334:-|nuORF REV__ENST00000497308.1_1_7:6452282-6456334:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 347.1985778808594 3 347.199166 1038.57567 NaN NaN NaN NaN NaN NaN NaN 75.061 1 75.724 75.224 76.224 0.6635 0 0 0 0.90699 1 36332 36332 0.96228 0 1 + 13645 13098 8700 8721 15735 15735 0.057923312764842194 KNCHDGNRN 9 Unmodified _KNCHDGNRN_ 0 0 0 ENST00000341011.11_1_17:41448764-41458699:-|nuORF ENST00000341011.11_1_17:41448764-41458699:-|nuORF ENST00000341011.11_1_17:41448764-41458699:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.8257141113281 3 353.157918 1056.45192 NaN NaN NaN NaN NaN NaN NaN 59.485 1 60.15 59.65 60.65 0.66503 0 0 0 0.90699 1 27231 27231 0.96228 0 1 13646 7068 8701 8722 15736 15736 -0.07404371561801781 KNCHVAKI 8 Unmodified _KNCHVAKI_ 0 0 0 REV__ENST00000334982.8_1_20:20013985-20014090:+|nuORF REV__ENST00000334982.8_1_20:20013985-20014090:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.5372314453125 3 304.840979 911.501106 2.2687 0.0006916 -2.9724 -0.00090612 -0.70371 -0.00021452 304.8402183120161 38.69 0.1401 39.488 39.418 39.558 0.79762 8 5 2 0 0 0 0.1432 1 17529 17529 0.35063 0 1 55640 + 13647 15411 8702 8723 15737 15737 0.041815684650941876 KNCHVAKI 8 Unmodified _KNCHVAKI_ 0 0 0 REV__ENST00000334982.8_1_20:20013985-20014090:+|nuORF REV__ENST00000334982.8_1_20:20013985-20014090:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.75872802734375 2 456.75783 911.501106 3.4441 0.0015731 -1.7357 -0.0007928 1.7084 0.00078033 456.75702825572307 94.516 0.27967 94.776 94.658 94.938 0.25974 25 14 2 0 0 0 0.71384 1 43431 43431 4.756 0 1 334760 + 13648 15411 8702 8723 15738 15738 0.041815684650941876 KNCHVAKI 8 Unmodified _KNCHVAKI_ 0 0 0 REV__ENST00000334982.8_1_20:20013985-20014090:+|nuORF REV__ENST00000334982.8_1_20:20013985-20014090:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.7582092285156 2 456.75783 911.501106 3.1504 0.001439 -1.5893 -0.00072594 1.5611 0.00071303 456.75703645195335 93.803 0.27721 94.434 94.304 94.581 0.63115 29 13 3 0 0 0 0.7441 1 43156 43156 2.3027 0 1 441520 + 13649 15411 8702 8723 15739 15739 0.041815684650941876 KNCHVAKI 8 Unmodified _KNCHVAKI_ 0 0 0 REV__ENST00000334982.8_1_20:20013985-20014090:+|nuORF REV__ENST00000334982.8_1_20:20013985-20014090:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 456.75783 911.501106 3.4441 0.0015731 -1.7357 -0.0007928 1.7084 0.00078033 456.75702825572307 94.516 0.27967 94.776 94.658 94.938 0.25974 0.17063 -6.4239E-05 NaN 4.756 25 14 2 NaN NaN NaN NaN 0 NaN NaN 0 334760 + 13650 15411 8702 8723 0.041815684650941876 KNCILLKL 8 Unmodified _KNCILLKL_ 0 0 0 L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|8|2|sense L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|8|2|sense L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|8|2|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 315.1961975097656 3 315.536896 943.588859 2.16 0.00068155 -0.95542 -0.00030147 1.2045 0.00038008 315.5365508862102 70.448 0.50333 70.705 70.474 70.977 0.25641 51 34 2 0 0 0 0.14282 1 32371 32371 1.4819 1.0812 1 895670 13651 9430 8703 8724 15740 15740 0.11480769335844343 KNCILLKL 8 Unmodified _KNCILLKL_ 0 0 0 L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|8|2|sense L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|8|2|sense L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|8|2|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.0523986816406 2 472.801706 943.588859 2.6314 0.0012441 -0.71963 -0.00034024 1.9117 0.00090387 472.8012355980884 69.877 0.25983 70.538 70.452 70.712 0.66071 30 17 2 0 0 0 0.14282 1 32104 32104 2.3027 0 1 941380 13652 9430 8703 8724 15741 15741 0.11480769335844343 KNCILLKL 8 Unmodified _KNCILLKL_ 0 0 0 L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|8|2|sense L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|8|2|sense L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|8|2|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.05340576171875 2 472.801706 943.588859 2.5937 0.0012263 -0.62862 -0.00029721 1.9651 0.0009291 472.80090137030174 70.168 0.17632 70.829 70.697 70.873 0.66071 17 10 2 0 0 0 0.14177 1 32160 32160 2.0598 0 1 645360 13653 9430 8703 8724 15742 15742 0.11480769335844343 KNCILLKL 8 Unmodified _KNCILLKL_ 0 0 0 L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|8|2|sense L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|8|2|sense L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|8|2|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 315.536896 943.588859 1.4249 0.00044962 -1.0483 -0.00033077 0.37664 0.00011884 315.53654543955986 71.009 0.25193 71.009 70.857 71.109 0 0.14507 -0.00018559 NaN 1.4819 38 25 2 NaN NaN NaN NaN 0 NaN NaN 0 1108700 13654 9430 8703 8724 0.11480769335844343 KNCILLKL 8 Unmodified _KNCILLKL_ 0 0 0 L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|8|2|sense L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|8|2|sense L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|8|2|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 315.536896 943.588859 1.7072 0.0005387 -1.4527 -0.00045837 0.25456 8.0323E-05 315.5362640927508 70.224 0.029686 70.927 70.905 70.935 0.70302 0.063146 -0.00056838 NaN 1.4819 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 483990 13655 9430 8703 8724 0.11480769335844343 KNCILLKL 8 Unmodified _KNCILLKL_ 0 0 0 L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|8|2|sense L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|8|2|sense L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|8|2|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 315.536896 943.588859 1.7336 0.000547 -0.54139 -0.00017083 1.1922 0.00037617 315.53662713898643 70.154 0.63779 70.815 70.428 71.066 0.66071 -0.049133 0.00029425 NaN 1.4819 64 41 2 NaN NaN NaN NaN 0 NaN NaN 0 1034100 13656 9430 8703 8724 0.11480769335844343 KNCKCTVQC 9 Unmodified _KNCKCTVQC_ 0 0 0 REV__ENSG00000135148|ENST00000412615|TRAFD1 REV__ENSG00000135148|ENST00000412615|TRAFD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 342.8242492675781 3 342.82249 1025.44564 NaN NaN NaN NaN NaN NaN NaN 73.271 1 73.53 73.03 74.03 0.25876 0 0 0 0.90699 1 33651 33651 0.96228 0 1 + 13657 12002 8704 8725 15743 15743 -0.06606349109188159 KNCKRINLGGS 11 Unmodified _KNCKRINLGGS_ 0 0 0 ENSG00000101442|ENST00000243903|ACTR5 ENSG00000101442|ENST00000243903|ACTR5 ENSG00000101442|ENST00000243903|ACTR5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.22222900390625 3 397.220518 1188.63972 2.4545 0.00097497 2.2633 0.00089901 4.7177 0.001874 397.2210647962059 70.392 0.37135 71.054 70.824 71.195 0.66209 25 20 2 0 0 0 0.83518 1 32282 32282 2.4348 0.97967 1 471670 13658 1295 8705 8726 15744 15744 0.0529506664274777 KNCKRINLGGS 11 Unmodified _KNCKRINLGGS_ 0 0 0 ENSG00000101442|ENST00000243903|ACTR5 ENSG00000101442|ENST00000243903|ACTR5 ENSG00000101442|ENST00000243903|ACTR5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 397.220518 1188.63972 2.8356 0.0011264 2.3534 0.0009348 5.189 0.0020612 397.221128065213 70.557 0.093811 70.814 70.755 70.849 0.25641 -0.12019 7.3227E-05 NaN 2.4348 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 251740 13659 1295 8705 8726 0.0529506664274777 KNCKSVSITN 10 Unmodified _KNCKSVSITN_ 0 0 0 REV__nc|ENSG00000137634|Q6UWF7-2|NXPE4 REV__nc|ENSG00000137634|Q6UWF7-2|NXPE4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.1959533691406 3 365.193858 1092.55974 NaN NaN NaN NaN NaN NaN NaN 76.766 1 77.022 76.522 77.522 0.25533 0 0 0 0.9952 1 35349 35349 3.0723 0.78949 1 + 13660 12119 8706 8727 15745 15745 0.017165802489444104 KNCKSVSITN 10 Unmodified _KNCKSVSITN_ 0 0 0 REV__nc|ENSG00000137634|Q6UWF7-2|NXPE4 REV__nc|ENSG00000137634|Q6UWF7-2|NXPE4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.1963806152344 3 365.193858 1092.55974 NaN NaN NaN NaN NaN NaN NaN 76.413 1 77.077 76.577 77.577 0.66387 0 0 0 0.9952 1 35201 35201 3.0723 0.98626 1 + 13661 12119 8706 8727 15746 15746 0.017165802489444104 KNCLEKLFE 9 Unmodified _KNCLEKLFE_ 0 0 0 ENSG00000154237|ENST00000388948|LRRK1 ENSG00000154237|ENST00000388948|LRRK1 ENSG00000154237|ENST00000388948|LRRK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.1997375488281 3 375.19872 1122.57433 NaN NaN NaN NaN NaN NaN NaN 77.402 1 77.657 77.157 78.157 0.25533 0 0 0 0.90699 1 35646 35646 0.96228 0.0979 1 13662 3811 8707 8728 15747 15747 0.01794652397052232 KNCLEKLFE 9 Unmodified _KNCLEKLFE_ 0 0 0 ENSG00000154237|ENST00000388948|LRRK1 ENSG00000154237|ENST00000388948|LRRK1 ENSG00000154237|ENST00000388948|LRRK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 375.240234375 3 375.19872 1122.57433 NaN NaN NaN NaN NaN NaN NaN 78.537 1 79.199 78.699 79.699 0.66198 0 0 0 0.90699 1 36191 36191 0.96228 0 1 13663 3811 8707 8728 15748 15748 0.01794652397052232 KNCLKLHL 8 Unmodified _KNCLKLHL_ 0 0 0 ENST00000480832.5_1_3:114519980-114580633:-|nuORF ENST00000480832.5_1_3:114519980-114580633:-|nuORF ENST00000480832.5_1_3:114519980-114580633:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 323.5290832519531 3 323.528512 967.563706 2.1772 0.00070438 -0.812 -0.0002627 1.3652 0.00044167 323.52799600472696 43.843 0.25675 44.658 44.483 44.74 0.81508 34 16 3 0 0 0 0.7441 1 19956 19956 1.4819 1.0812 1 401080 13664 8283 8708 8729 15749 15749 0.07862714533291637 KNCLKLHL 8 Unmodified _KNCLKLHL_ 0 0 0 ENST00000480832.5_1_3:114519980-114580633:-|nuORF ENST00000480832.5_1_3:114519980-114580633:-|nuORF ENST00000480832.5_1_3:114519980-114580633:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.529052734375 3 323.528512 967.563706 2.3314 0.00075426 -1.4158 -0.00045804 0.9156 0.00029622 323.52800929103506 44.177 0.41617 44.827 44.56 44.976 0.64998 30 19 2 0 0 0 0.7441 1 20283 20283 1.4819 0 1 925020 13665 8283 8708 8729 15750 15750 0.07862714533291637 KNCLLLLSKF 10 Unmodified _KNCLLLLSKF_ 0 0 0 ENST00000464415.1_1_2:33817123-33824435:-|nuORF ENST00000464415.1_1_2:33817123-33824435:-|nuORF ENST00000464415.1_1_2:33817123-33824435:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.8527221679688 2 589.851927 1177.6893 NaN NaN NaN NaN NaN NaN NaN 70.635 1 71.297 70.797 71.797 0.66209 0 0 0 0.99774 1 32375 32375 3.5965 1.5367 1 13666 8113 8709 8730 15751 15751 0.107563815988442 KNCLNNFD 8 Unmodified _KNCLNNFD_ 0 0 0 MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant;ENSG00000128833|ENST00000261839|MYO5C MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.1493835449219 3 323.148248 966.422915 NaN NaN NaN NaN NaN NaN NaN 63.76 1 64.417 63.917 64.917 0.65672 0 0 0 0.99035 1 29221 29221 1.4819 0 1 13667 2529 8710 8731 15752 15752 -0.06163908910787086 KNCMKEKQWDK 11 Unmodified _KNCMKEKQWDK_ 0 0 0 REV__nc|ENSG00000077254|Q8TEY7-3|USP33 REV__nc|ENSG00000077254|Q8TEY7-3|USP33 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.18212890625 3 479.90409 1436.69044 NaN NaN NaN NaN NaN NaN NaN 75.385 1 76.049 75.549 76.549 0.6644 0 0 0 1.0061 1 34728 34728 1.1098 0.65524 1 + 13668 10556 8711 8732 15753 15753 -0.010437720945446927 KNCNKCIY 8 Unmodified _KNCNKCIY_ 0 0 0 ENSG00000113460|ENST00000336767|BRIX1;ENST00000515798.5_1_5:34915843-34922393:+|nuORF;ENST00000510960.5_1_5:34915843-34922894:+|nuORF ENSG00000113460|ENST00000336767|BRIX1 ENSG00000113460|ENST00000336767|BRIX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 329.1580810546875 3 329.157979 984.452107 NaN NaN NaN NaN NaN NaN NaN 55.668 1 55.668 55.168 56.168 0 0 0 0 0.99035 1 25597 25597 1.4819 0 1 13669 1856 8712 8733 15754 15754 -0.04074087886169764 KNCNSFKRWK 10 Unmodified _KNCNSFKRWK_ 0 0 0 ENSG00000274588|ENST00000611977|DGKK ENSG00000274588|ENST00000611977|DGKK ENSG00000274588|ENST00000611977|DGKK MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.23699951171875 3 437.564396 1309.67136 3.2664 0.0014292 -2.9257 -0.0012802 0.34068 0.00014907 437.5633618101577 46.463 0.22831 47.115 46.939 47.167 0.65219 14 9 2 0 0 0 0.12676 1 21287 21287 1.5923 0.39894 1 307220 13670 6343 8713 8734 15755 15755 0.02891059396711171 KNCNSFKRWK 10 Unmodified _KNCNSFKRWK_ 0 0 0 ENSG00000274588|ENST00000611977|DGKK ENSG00000274588|ENST00000611977|DGKK ENSG00000274588|ENST00000611977|DGKK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 437.564396 1309.67136 2.6909 0.0011774 -5.01 -0.0021922 -2.3191 -0.0010148 437.56266628694686 47.063 0.17288 47.063 47.037 47.21 0 -0.025964 -0.0013492 NaN 1.5923 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 1003900 13671 6343 8713 8734 0.02891059396711171 KNCSCFEC 8 Unmodified _KNCSCFEC_ 0 0 0 ENSG00000165197|ENST00000297904|VEGFD ENSG00000165197|ENST00000297904|VEGFD ENSG00000165197|ENST00000297904|VEGFD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.3056945800781 2 467.166798 932.319044 NaN NaN NaN NaN NaN NaN NaN 69.544 1 69.544 69.044 70.044 0 0 0 0 0.99035 1 33590 33590 5.2307 0 1 13672 4381 8714 8735 15756 15756 -0.1498227533431873 KNCSFRSK 8 Unmodified _KNCSFRSK_ 0 0 0 ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.8553466796875 3 323.836005 968.486184 NaN NaN NaN NaN NaN NaN NaN 67.553 1 67.803 67.303 68.303 0.2501 0 0 0 0.99035 1 30945 30945 1.4819 0.41044 1 13673 6170 8715 8736 15757 15757 0.0006807659711967062 KNCSLRLP 8 Unmodified _KNCSLRLP_ 0 0 0 ENST00000580473.5_1_18:74701945-74778299:-|nuORF ENST00000580473.5_1_18:74701945-74778299:-|nuORF ENST00000580473.5_1_18:74701945-74778299:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.76336669921875 2 465.763112 929.511671 2.21 0.0010293 -1.633 -0.00076061 0.57692 0.00026871 465.7621492950652 71.44 0.28214 72.103 71.897 72.179 0.66324 32 20 2 0 0 0 0.67495 1 32672 32672 7.9102 0.62092 1 617830 13674 9147 8716 8737 15758 15758 0.04409551119533717 KNCSPHLG 8 Unmodified _KNCSPHLG_ 0 0 0 MER83C_dup5|chr1:206067539-206067903:+|1.6359491688452297|0.1786861324868675|3.19|522.0|16|2|anti-sense MER83C_dup5|chr1:206067539-206067903:+|1.6359491688452297|0.1786861324868675|3.19|522.0|16|2|anti-sense MER83C_dup5|chr1:206067539-206067903:+|1.6359491688452297|0.1786861324868675|3.19|522.0|16|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 428.20916748046875 2 428.210712 854.406871 NaN NaN NaN NaN NaN NaN NaN 70.137 1 70.84 70.34 71.34 0.70302 0 0 0 0.99035 1 33596 33596 2.3027 1.5091 1 13675 9519 8717 8738 15759 15759 -0.02615570357022534 KNCVTCKYS 9 Unmodified _KNCVTCKYS_ 0 0 0 REV__nc|ENSG00000198482|Q8N4W9-2|ZNF808 REV__nc|ENSG00000198482|Q8N4W9-2|ZNF808 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 349.1642761230469 3 349.165022 1044.47324 NaN NaN NaN NaN NaN NaN NaN 68.937 1 69.597 69.097 70.097 0.65924 0 0 0 0.90431 1 31601 31601 2.4985 0 1 + 13676 14337 8718 8739 15760 15760 -0.0472212257730007 KNCWEDDIKDD 11 Unmodified _KNCWEDDIKDD_ 0 0 0 nc|ENSG00000148516|P37275-4|ZEB1 nc|ENSG00000148516|P37275-4|ZEB1 nc|ENSG00000148516|P37275-4|ZEB1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.55950927734375 4 345.898863 1379.56634 2.4681 0.0008537 0.50736 0.0001755 2.9754 0.0010292 346.1493524097895 35.499 0.75894 35.755 35.444 36.203 0.25524 40 27 2 0 0 0 0.13295 1 16053 16053 0.40827 0.32491 1 302910 13677 9684 8719 8740 15761 15761 -0.10825571381064947 KNCYFATW 8 Unmodified _KNCYFATW_ 0 0 0 REV__ENST00000464842.1_1_22:38965306-38965369:-|nuORF REV__ENST00000464842.1_1_22:38965306-38965369:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 344.82574462890625 3 344.825106 1031.45349 NaN NaN NaN NaN NaN NaN NaN 53.858 1 54.524 54.024 55.024 0.66595 0 0 0 0.99035 1 24630 24630 1.4819 0.28856 1 + 13678 16534 8720 8741 15762 15762 -0.060981305257428176 KNCYSENEEDS 11 Unmodified _KNCYSENEEDS_ 0 0 0 ENSG00000115008|ENST00000263339|IL1A ENSG00000115008|ENST00000263339|IL1A ENSG00000115008|ENST00000263339|IL1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 439.8341369628906 3 439.834835 1316.48267 NaN NaN NaN NaN NaN NaN NaN 67.092 1 67.794 67.294 68.294 0.70218 0 0 0 1.0073 1 31847 31847 0.40827 0 1 13679 1937 8721 8742 15763 15763 -0.16290727548744144 KNCYSYCQD 9 Unmodified _KNCYSYCQD_ 0 0 0 REV__nc|ENSG00000072121|Q68DK2-3|ZFYVE26 REV__nc|ENSG00000072121|Q68DK2-3|ZFYVE26 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.1451110839844 3 375.144287 1122.41103 NaN NaN NaN NaN NaN NaN NaN 83.367 1 83.614 83.114 84.114 0.24722 0 0 0 0.91059 1 38374 38374 0.96228 0.56156 1 + 13680 10488 8722 8743 15764 15764 -0.1452789371628569 KNCYSYCQD 9 Unmodified _KNCYSYCQD_ 0 0 0 REV__nc|ENSG00000072121|Q68DK2-3|ZFYVE26 REV__nc|ENSG00000072121|Q68DK2-3|ZFYVE26 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 375.14459228515625 3 375.144287 1122.41103 NaN NaN NaN NaN NaN NaN NaN 76.363 1 77.027 76.527 77.527 0.66387 0 0 0 0.91059 1 35178 35178 0.96228 0.56156 1 + 13681 10488 8722 8743 15765 15765 -0.1452789371628569 KNCYSYCQD 9 Unmodified _KNCYSYCQD_ 0 0 0 REV__nc|ENSG00000072121|Q68DK2-3|ZFYVE26 REV__nc|ENSG00000072121|Q68DK2-3|ZFYVE26 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 375.14410400390625 3 375.144287 1122.41103 NaN NaN NaN NaN NaN NaN NaN 78.737 1 79.399 78.899 79.899 0.66198 0 0 0 0.91059 1 36283 36283 0.96228 0.56156 1 + 13682 10488 8722 8743 15766 15766 -0.1452789371628569 KNDMLSISV 9 Unmodified _KNDMLSISV_ 0 0 0 REV__nc|ENSG00000165837|Q5W0A0-2|ERICH6B REV__nc|ENSG00000165837|Q5W0A0-2|ERICH6B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 336.19195556640625 3 336.179437 1005.51648 NaN NaN NaN NaN NaN NaN NaN 37.127 1 37.127 36.627 37.627 0 0 0 0 0.89683 1 16848 16848 2.4985 0 1 + 13683 13192 8723 8744 15767 15767 0.013943904716597899 KNECNCAC 8 Unmodified _KNECNCAC_ 0 0 0 REV__nc|ENSG00000112499|O15244-3|SLC22A2 REV__nc|ENSG00000112499|O15244-3|SLC22A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.2734375 2 442.656598 883.298643 NaN NaN NaN NaN NaN NaN NaN 64.031 1 64.687 64.187 65.187 0.65672 0 0 0 0.99035 1 29346 29346 2.5775 0.73324 1 + 13684 17898 8724 8745 15768 15768 -0.14767445994141326 KNELRVKI 8 Unmodified _KNELRVKI_ 0 0 0 ENSG00000152582|ENST00000356031|SPEF2;nc|ENSG00000152582|Q9C093-2|SPEF2 ENSG00000152582|ENST00000356031|SPEF2 ENSG00000152582|ENST00000356031|SPEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 333.8822937011719 3 333.881831 998.623664 1.7867 0.00059656 -0.29715 -9.9213E-05 1.4896 0.00049734 333.8819200873855 12.891 0.15323 13.199 13.125 13.279 0.30727 7 4 2 0 0 0 0.65679 1 5825 5825 9.3831 0 1 325000 13685 3755 8725 8746 15769 15769 0.12429728468180201 KNELRVKI 8 Unmodified _KNELRVKI_ 0 0 0 ENSG00000152582|ENST00000356031|SPEF2;nc|ENSG00000152582|Q9C093-2|SPEF2 ENSG00000152582|ENST00000356031|SPEF2 ENSG00000152582|ENST00000356031|SPEF2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 333.881831 998.623664 1.9506 0.00065126 0.39072 0.00013045 2.3413 0.00078171 333.8819921628289 12.98 0.073983 13.224 13.183 13.257 0.24346 0.012615 0.00021499 NaN 9.3831 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 313000 13686 3755 8725 8746 0.12429728468180201 KNEMTVALEVL 11 Unmodified _KNEMTVALEVL_ 0 0 0 REV__nc|ENSG00000188549|Q6ZUT6-3|CCDC9B REV__nc|ENSG00000188549|Q6ZUT6-3|CCDC9B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 416.2292175292969 3 416.228568 1245.66387 NaN NaN NaN NaN NaN NaN NaN 83.664 1 83.912 83.412 84.412 0.24722 0 0 0 1.0061 1 38510 38510 1.1098 0 1 + 13687 14150 8726 8747 15770 15770 0.05086862285793359 KNFIHILVG 9 Unmodified _KNFIHILVG_ 0 0 0 REV__ENST00000441170.1_1_4:118496255-118496735:-|nuORF REV__ENST00000441170.1_1_4:118496255-118496735:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 347.54803466796875 3 347.54656 1039.61785 2.8645 0.00099556 1.0174 0.0003536 3.882 0.0013492 347.546861101894 53.816 0.69564 53.816 53.641 54.337 0 91 52 3 0 0 0 1.0894 1 24637 24637 2.4985 0.21571 1 1738700 + 13688 16344 8727 8748 15771 15771 0.09962629956544333 KNFIHILVG 9 Unmodified _KNFIHILVG_ 0 0 0 REV__ENST00000441170.1_1_4:118496255-118496735:-|nuORF REV__ENST00000441170.1_1_4:118496255-118496735:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 347.5481872558594 3 347.54656 1039.61785 2.1107 0.00073355 1.2464 0.00043318 3.3571 0.0011667 347.54685112483895 53.642 0.37241 54.445 54.417 54.79 0.80351 44 19 3 0 0 0 0.94779 2 24545 24491;24545 4.897 0.36815 1 2097300 + 13689 16344 8727 8748 15772;15773 15773 0.09962629956544333 KNFLQIIKLY 10 Unmodified _KNFLQIIKLY_ 0 0 0 ENST00000381604.8_1_10:300365-300500:+|nuORF ENST00000381604.8_1_10:300365-300500:+|nuORF ENST00000381604.8_1_10:300365-300500:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 427.26544189453125 3 427.263941 1278.76999 2.5155 0.0010748 0.692 0.00029566 3.2075 0.0013704 427.2641305992262 52.707 0.70494 53.515 53.172 53.877 0.80791 172 45 4 0 0 0 0.90859 1 24136 24136 1.5923 0.48253 1 31818000 13690 7487 8728 8749 15774 15774 0.14175985913425393 KNFRSFDDW 9 Unmodified _KNFRSFDDW_ 0 0 0 REV__ENSG00000092850|ENST00000207457|TEKT2 REV__ENSG00000092850|ENST00000207457|TEKT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.52520751953125 3 405.524484 1213.55162 NaN NaN NaN NaN NaN NaN NaN 34.997 1 35.252 34.752 35.752 0.25524 0 0 0 0.91059 1 15948 15948 0.96228 0.33545 1 + 13691 10746 8729 8750 15775 15775 -0.04661230676197192 KNFRTKSQELF 11 Unmodified _KNFRTKSQELF_ 0 0 0 REV__nc|ENSG00000101246|Q13795-4|ARFRP1 REV__nc|ENSG00000101246|Q13795-4|ARFRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 699.3803100585938 2 699.380426 1396.7463 NaN NaN NaN NaN NaN NaN NaN 60.556 1 60.556 60.056 61.056 0 0 0 0 0.97845 1 28147 28147 8.7454 3.0136 1 + 13692 10875 8730 8751 15776 15776 0.06379520408950157 KNGAGARR 8 Unmodified _KNGAGARR_ 0 0 0 REV__ENST00000343820.9_1_18:3449712-3450399:+|nuORF REV__ENST00000343820.9_1_18:3449712-3450399:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.7630615234375 2 415.241193 828.467832 2.871 0.0011922 1.4194 0.00058939 4.2904 0.0017816 415.2419824628564 82.96 0.2641 83.207 83.072 83.336 0.24722 25 14 2 0 0 0 0.14282 1 38147 38147 2.3027 0 1 1578800 + 13693 15490 8731 8752 15777 15777 0.046737027374206264 KNGAGARR 8 Unmodified _KNGAGARR_ 0 0 0 REV__ENST00000343820.9_1_18:3449712-3450399:+|nuORF REV__ENST00000343820.9_1_18:3449712-3450399:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 415.241193 828.467832 3.1129 0.0012926 0.62914 0.00026124 3.742 0.0015538 415.24164097319544 82.583 0.41692 83.244 83.04 83.457 0.66019 0.018141 -0.00026758 NaN 2.3027 61 25 3 NaN NaN NaN NaN 0 NaN NaN 0 1506300 + 13694 15490 8731 8752 0.046737027374206264 KNGAKWHG 8 Unmodified _KNGAKWHG_ 0 0 0 ENST00000465215.1_1_3:101713409-101713700:+|nuORF ENST00000465215.1_1_3:101713409-101713700:+|nuORF ENST00000465215.1_1_3:101713409-101713700:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 449.6434631347656 2 449.238119 896.461684 NaN NaN NaN NaN NaN NaN NaN 72.673 1 72.932 72.432 73.432 0.25876 0 0 0 0.99035 1 33364 33364 4.756 2.6963 1 13695 8123 8732 8753 15778 15778 0.009311845058959989 KNGFIVWLF 9 Unmodified _KNGFIVWLF_ 0 0 0 ENST00000246024.6_1_20:7960815-7961187:-|nuORF ENST00000246024.6_1_20:7960815-7961187:-|nuORF ENST00000246024.6_1_20:7960815-7961187:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.9856567382812 2 562.318577 1122.6226 NaN NaN NaN NaN NaN NaN NaN 41.84 1 42.649 42.149 43.149 0.80855 0 0 0 0.69911 1 18992 18992 12.532 1.0368 1 13696 6488 8733 8754 15779 15779 0.06619514099247681 KNGKKKKKKKK 11 Unmodified _KNGKKKKKKKK_ 0 0 0 REV__ENSG00000204967|ENST00000530339|PCDHA4;REV__ENSG00000243232|ENST00000289269|PCDHAC2 REV__ENSG00000204967|ENST00000530339|PCDHA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 447.94140625 3 448.317151 1341.92962 NaN NaN NaN NaN NaN NaN NaN 72.667 1 73.366 72.866 73.866 0.69881 0 0 0 1.0082 1 35004 35004 0.08335 0.08335 1 + 13697 14447;14628 8734 8755 15780 15780 0.27233538981226957 KNGLRVRRG 9 Unmodified _KNGLRVRRG_ 0 0 0 REV__ENST00000604123.5_1_19:41860151-41884317:+|nuORF REV__ENST00000604123.5_1_19:41860151-41884317:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.3306884765625 2 528.330873 1054.64719 NaN NaN NaN NaN NaN NaN NaN 71.04 1 71.298 70.798 71.798 0.25786 0 0 0 0.8984 1 32538 32538 3.9444 0.66309 1 + 13698 17653 8735 8756 15781 15781 0.12205587025368914 KNGNTQYL 8 Unmodified _KNGNTQYL_ 0 0 0 ENSG00000172352|ENST00000382407|CDY1B;ENSG00000182415|ENST00000250838|CDY2A;ENSG00000129873|ENST00000382867|CDY2B;ENSG00000172288|ENST00000306609|CDY1 ENSG00000172352|ENST00000382407|CDY1B ENSG00000172352|ENST00000382407|CDY1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 313.16387939453125 3 313.162775 936.466495 NaN NaN NaN NaN NaN NaN NaN 75.016 1 75.681 75.181 76.181 0.6644 0 0 0 0.99035 1 34549 34549 1.6526 0 1 13699 2565 8736 8757 15782 15782 -0.004279761419979877 KNGQQCYY 8 Unmodified _KNGQQCYY_ 0 0 0 REV__nc|ENSG00000211626|A0A0C4DH26|IGKV6D-41 REV__nc|ENSG00000211626|A0A0C4DH26|IGKV6D-41 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.21392822265625 3 335.148248 1002.42292 NaN NaN NaN NaN NaN NaN NaN 59.342 1 60.007 59.507 60.507 0.66503 0 0 0 0.99035 1 27166 27166 1.4819 0 1 + 13700 18117 8737 8758 15783 15783 -0.07819908910801132 KNGRLPPIVR 10 Unmodified _KNGRLPPIVR_ 0 0 0 nc|ENSG00000102172|P52788-2|SMS nc|ENSG00000102172|P52788-2|SMS nc|ENSG00000102172|P52788-2|SMS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 383.91070556640625 3 383.912013 1148.71421 NaN NaN NaN NaN NaN NaN NaN 70.865 1 71.527 71.027 72.027 0.66209 0 0 0 0.99807 1 32478 32478 3.3196 1.0369 1 13701 9579 8738 8759 15784 15784 0.14580197516465887 KNGVSLLSPR 10 Unmodified _KNGVSLLSPR_ 0 0 0 ENST00000537839.5_1_11:62649261-62650080:+|nuORF ENST00000537839.5_1_11:62649261-62650080:+|nuORF ENST00000537839.5_1_11:62649261-62650080:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.5511169433594 3 357.548741 1069.62439 NaN NaN NaN NaN NaN NaN NaN 49.136 1 49.136 48.636 49.636 0 0 0 0 0.99812 1 22504 22504 1.5923 0 1 13702 8779 8739 8760 15785 15785 0.09236523117237994 KNGVSLLSPR 10 Unmodified _KNGVSLLSPR_ 0 0 0 ENST00000537839.5_1_11:62649261-62650080:+|nuORF ENST00000537839.5_1_11:62649261-62650080:+|nuORF ENST00000537839.5_1_11:62649261-62650080:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.5516052246094 3 357.548741 1069.62439 NaN NaN NaN NaN NaN NaN NaN 49.59 1 49.59 49.09 50.09 0 0 0 0 0.99812 1 22707 22707 1.5923 0.52082 1 13703 8779 8739 8760 15786 15786 0.09236523117237994 KNHKLMRIIAK 11 Unmodified _KNHKLMRIIAK_ 0 0 0 ENST00000466825.1_1_17:16101635-16101743:-|nuORF ENST00000466825.1_1_17:16101635-16101743:-|nuORF ENST00000466825.1_1_17:16101635-16101743:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.71502685546875 4 338.714325 1350.82819 2.722 0.00092198 0.35592 0.00012056 3.0779 0.0010425 338.71437382521447 68.131 0.45483 68.383 68.277 68.732 0.25227 63 31 3 0 0 0 0.91391 1 31222 31222 0.08335 0 1 445900 13704 8139 8740 8761 15787 15787 0.16681344287053435 KNHKLMRIIAK 11 Unmodified _KNHKLMRIIAK_ 0 0 0 ENST00000466825.1_1_17:16101635-16101743:-|nuORF ENST00000466825.1_1_17:16101635-16101743:-|nuORF ENST00000466825.1_1_17:16101635-16101743:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 338.714325 1350.82819 2.2805 0.00077243 0.3395 0.00011499 2.62 0.00088742 338.7144679434899 67.593 0.42213 68.251 68.12 68.542 0.65778 -0.06589 -9.8012E-06 NaN 0.08335 38 26 2 NaN NaN NaN NaN 0 NaN NaN 0 319180 13705 8139 8740 8761 0.16681344287053435 KNHRKPTYPTT 11 Unmodified _KNHRKPTYPTT_ 0 0 0 ENST00000558663.5_1_15:99768880-99791424:-|nuORF ENST00000558663.5_1_15:99768880-99791424:-|nuORF ENST00000558663.5_1_15:99768880-99791424:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.181396484375 4 336.43611 1341.71533 2.4491 0.00082397 0.57481 0.00019339 3.0239 0.0010174 336.4364285264082 20.555 0.25988 21.208 21.104 21.364 0.65346 59 25 3 0 0 0 0.13295 1 9382 9382 1.3296 0.87513 1 173030 13706 8956 8741 8762 15788 15788 0.05814367094694717 KNIAHKKM 8 Unmodified _KNIAHKKM_ 0 0 0 ENSG00000115020|ENST00000264380|PIKFYVE ENSG00000115020|ENST00000264380|PIKFYVE ENSG00000115020|ENST00000264380|PIKFYVE MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2881164550781 2 485.286754 968.558955 NaN NaN NaN NaN NaN NaN NaN 68.456 1 69.115 68.615 69.615 0.65924 0 0 0 0.99035 1 31379 31379 5.2307 0.90143 1 13707 1938 8742 8763 15789 15789 0.07341830390532778 KNIELAIIRRN 11 Unmodified _KNIELAIIRRN_ 0 0 0 nc|ENSG00000154611|Q8TAA3-2|PSMA8;ENSG00000154611|ENST00000415576|PSMA8;nc|ENSG00000154611|Q8TAA3|PSMA8 nc|ENSG00000154611|Q8TAA3-2|PSMA8 nc|ENSG00000154611|Q8TAA3-2|PSMA8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 447.13458251953125 3 447.277132 1338.80957 NaN NaN NaN NaN NaN NaN NaN 68.086 1 68.086 67.586 68.586 0 0 0 0 1.005 1 32743 32743 1.9275 0.33522 1 13708 3830 8743 8764 15790 15790 0.1537150591682348 KNILFWQPKHL 11 Unmodified _KNILFWQPKHL_ 0 0 0 REV__nc|ENSG00000152942|O75943-3|RAD17 REV__nc|ENSG00000152942|O75943-3|RAD17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 356.71142578125 4 356.710674 1422.81359 2.2349 0.00079722 -0.068154 -2.4311E-05 2.1668 0.00077291 356.7105766155942 62.127 0.22011 62.127 61.97 62.19 0 71 35 3 0 0 0 0.91104 1 29026 29026 1.2148 0 1 81904000 + 13709 12663 8744 8765 15791 15791 0.11909595410565998 KNIMTKVHGKR 11 Unmodified _KNIMTKVHGKR_ 0 0 0 ENST00000528790.1_1_11:128676959-128680880:+|nuORF;nc|ENSG00000151702|Q01543-4|FLI1;nc|ENSG00000157554|P11308-2|ERG;nc|ENSG00000151702|Q01543-2|FLI1;nc|ENSG00000151702|Q01543-3|FLI1;ENSG00000151702|ENST00000527786|FLI1;nc|ENSG00000157554|P11308-1|ERG;ENSG00000157554|ENST00000288319|ERG;nc|ENSG00000157554|P11308-3|ERG ENST00000528790.1_1_11:128676959-128680880:+|nuORF ENST00000528790.1_1_11:128676959-128680880:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.6984558105469 4 328.697404 1310.76051 2.3141 0.00076062 1.0306 0.00033876 3.3447 0.0010994 328.69763054634245 39.02 1.1054 39.818 39.338 40.444 0.79762 141 53 3 0 0 0 0.91104 1 17692 17692 1.2148 0.10508 1 937940 13710 3726 8745 8766 15792 15792 0.11755894356224417 KNIRRRTARRR 11 Unmodified _KNIRRRTARRR_ 0 0 0 REV__nc|ENSG00000135916|Q9NQX7-2|ITM2C REV__nc|ENSG00000135916|Q9NQX7-2|ITM2C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 741.9663696289062 2 741.969265 1481.92398 NaN NaN NaN NaN NaN NaN NaN 65.36 1 66.069 65.569 66.569 0.70891 0 0 0 1.008 1 30906 30906 0.30703 0.30703 1 + 13711 12045 8746 8767 15793 15793 0.20229253242132472 KNIVCVGRN 9 Unmodified _KNIVCVGRN_ 0 0 0 ENSG00000180185|ENST00000427358|FAHD1;nc|ENSG00000180185|Q6P587-2|FAHD1;nc|ENSG00000180185|Q6P587-1|FAHD1;nc|ENSG00000180185|Q6P587-3|FAHD1 ENSG00000180185|ENST00000427358|FAHD1 ENSG00000180185|ENST00000427358|FAHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.8562927246094 3 334.855288 1001.54403 NaN NaN NaN NaN NaN NaN NaN 67.138 1 67.795 67.295 68.295 0.65777 0 0 0 0.90431 1 30776 30776 2.4985 0.21571 1 13712 5241 8747 8768 15794 15794 0.04332338522533519 KNIVGVVL 8 Unmodified _KNIVGVVL_ 0 0 0 ENSG00000116984|ENST00000366577|MTR;nc|ENSG00000116984|Q99707-2|MTR ENSG00000116984|ENST00000366577|MTR ENSG00000116984|ENST00000366577|MTR MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.22607421875 2 421.278921 840.543289 3.1285 0.001318 0.35369 0.000149 3.4822 0.001467 421.2790613644819 48.014 0.24122 48.276 48.134 48.375 0.26209 14 9 2 0 0 0 0.13672 1 21951 21951 8.5933 0.68312 1 445770 13713 2055 8748 8769 15795 15795 0.11663867145136919 KNKAIATK 8 Unmodified _KNKAIATK_ 0 0 0 ENST00000409262.7_1_2:74332253-74332547:+|nuORF ENST00000409262.7_1_2:74332253-74332547:+|nuORF ENST00000409262.7_1_2:74332253-74332547:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2687072753906 2 437.279452 872.544351 NaN NaN NaN NaN NaN NaN NaN 47.825 1 48.478 47.978 48.978 0.65356 0 0 0 0.99035 1 21892 21892 5.2307 2.6532 1 13714 7657 8749 8770 15796 15796 0.1029808151403131 KNKGRKRKVKV 11 Unmodified _KNKGRKRKVKV_ 0 0 0 ENST00000565736.1_1_16:29814793-29815446:+|nuORF ENST00000565736.1_1_16:29814793-29815446:+|nuORF ENST00000565736.1_1_16:29814793-29815446:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 447.63751220703125 3 447.636883 1339.88882 NaN NaN NaN NaN NaN NaN NaN 63.543 1 64.266 63.766 64.766 0.72236 0 0 0 1.0073 1 29775 29775 1.2148 0.51716 1 13715 9049 8750 8771 15797 15797 0.23247197661612518 KNKHSVRRL 9 Unmodified _KNKHSVRRL_ 0 0 0 ENSG00000156671|ENST00000542569|SAMD8;nc|ENSG00000156671|Q96LT4-2|SAMD8;SAMD8|p.L216Rfs*22|1|0.03|ENSG00000156671|chr10:75164711-75164712|-/AGAAA|frameshift_variant;SAMD8|p.L217Gfs*29|1|0.02|ENSG00000156671|chr10:75164713-75164714|-/GGGAGAAAAAATCTGTGTCATAAAGTACC|frameshift_variant ENSG00000156671|ENST00000542569|SAMD8 ENSG00000156671|ENST00000542569|SAMD8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.9904174804688 2 569.351806 1136.68906 NaN NaN NaN NaN NaN NaN NaN 106.4 1 106.45 105.95 106.95 0.04837 0 0 0 0.90699 1 57563 57563 1.8442 0.19162 1 13716 3920 8751 8772 15798 15798 0.12618142713881753 KNKITRIDQK 10 Unmodified _KNKITRIDQK_ 0 0 0 ENSG00000114127|ENST00000392981|XRN1;nc|ENSG00000114127|Q8IZH2|XRN1;ENST00000472697.5_1_3:142095319-142144369:-|nuORF ENSG00000114127|ENST00000392981|XRN1 ENSG00000114127|ENST00000392981|XRN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 415.2548828125 3 415.254216 1242.74082 NaN NaN NaN NaN NaN NaN NaN 57.042 1 57.82 57.32 58.32 0.77786 0 0 0 0.99807 1 26096 26096 3.3196 0.88486 1 13717 1891 8752 8773 15799 15799 0.12915841617109436 KNKITRIDQK 10 Unmodified _KNKITRIDQK_ 0 0 0 ENSG00000114127|ENST00000392981|XRN1;nc|ENSG00000114127|Q8IZH2|XRN1;ENST00000472697.5_1_3:142095319-142144369:-|nuORF ENSG00000114127|ENST00000392981|XRN1 ENSG00000114127|ENST00000392981|XRN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 415.2554626464844 3 415.254216 1242.74082 NaN NaN NaN NaN NaN NaN NaN 59.878 1 60.627 60.127 61.127 0.74927 0 0 0 0.99807 1 27517 27517 3.3196 1.7274 1 13718 1891 8752 8773 15800 15800 0.12915841617109436 KNKITRIDQK 10 Unmodified _KNKITRIDQK_ 0 0 0 ENSG00000114127|ENST00000392981|XRN1;nc|ENSG00000114127|Q8IZH2|XRN1;ENST00000472697.5_1_3:142095319-142144369:-|nuORF ENSG00000114127|ENST00000392981|XRN1 ENSG00000114127|ENST00000392981|XRN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 415.2558288574219 3 415.254216 1242.74082 NaN NaN NaN NaN NaN NaN NaN 77.029 1 77.284 76.784 77.784 0.25533 0 0 0 0.99807 1 35471 35471 3.3196 1.4133 1 13719 1891 8752 8773 15801 15801 0.12915841617109436 KNKKRKHKRK 10 Unmodified _KNKKRKHKRK_ 0 0 0 REV__ENSG00000175931|ENST00000319380|UBE2O REV__ENSG00000175931|ENST00000319380|UBE2O MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.96917724609375 3 450.968745 1349.8844 NaN NaN NaN NaN NaN NaN NaN 74.537 1 74.537 74.037 75.037 0 0 0 0 1.0013 1 36414 36414 0.62683 0.21856 1 + 13720 13685 8753 8774 15802 15802 0.22345733238717003 KNKKTKKE 8 Unmodified _KNKKTKKE_ 0 0 0 ENSG00000189134|ENST00000343684|NKAPL ENSG00000189134|ENST00000343684|NKAPL ENSG00000189134|ENST00000343684|NKAPL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.2234191894531 3 335.213469 1002.61858 NaN NaN NaN NaN NaN NaN NaN 69.672 1 70.333 69.833 70.833 0.66071 0 0 0 0.99035 1 31944 31944 0.40072 0 1 13721 5705 8754 8775 15803 15803 0.11737424605564684 KNKLQTFLFI 10 Unmodified _KNKLQTFLFI_ 0 0 0 REV__ENST00000422610.5_1_3:196666182-196666254:-|nuORF REV__ENST00000422610.5_1_3:196666182-196666254:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 313.6929931640625 4 313.69195 1250.73869 2.4694 0.00077463 0.69545 0.00021816 3.1648 0.00099279 313.69209602885826 46.75 0.68077 47.016 46.809 47.49 0.26561 36 23 2 0 0 0 0.94134 1 21383 21383 0.62683 0.62683 1 798950 + 13722 16184 8755 8776 15804 15804 0.123354128793153 KNKNDQKP 8 Unmodified _KNKNDQKP_ 0 0 0 OSBPL1A|p.G227Ifs*8|1|0.2|ENSG00000141447|chr18:24318754-24318757|ACCA/-|frameshift_variant;ENSG00000141447|ENST00000319481|OSBPL1A OSBPL1A|p.G227Ifs*8|1|0.2|ENSG00000141447|chr18:24318754-24318757|ACCA/-|frameshift_variant OSBPL1A|p.G227Ifs*8|1|0.2|ENSG00000141447|chr18:24318754-24318757|ACCA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.2691345214844 2 486.267073 970.519593 3.3921 0.0016495 -0.089821 -4.3677E-05 3.3023 0.0016058 486.26688209225944 93.336 0.44106 93.967 93.745 94.186 0.63115 67 22 4 0 0 0 0.74709 1 42870 42870 2.0598 0.21551 1 3090100 13723 3254 8756 8777 15805 15805 0.03315401640657001 KNKNEEEM 8 Unmodified _KNKNEEEM_ 0 0 0 REV__nc|ENSG00000118407|Q7Z7B0-3|FILIP1 REV__nc|ENSG00000118407|Q7Z7B0-3|FILIP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 341.20562744140625 3 341.158813 1020.45461 2.2966 0.00078352 2.1612 0.00073732 4.4579 0.0015208 341.4946428223136 58.797 0.18828 58.797 58.74 58.928 0 18 13 2 0 0 0 0.1426 1 27195 27195 3.2813 0.99853 1 956750 + 13724 11471 8757 8778 15806 15806 -0.054799609475026045 KNKNEEEM 8 Unmodified _KNKNEEEM_ 0 0 0 REV__nc|ENSG00000118407|Q7Z7B0-3|FILIP1 REV__nc|ENSG00000118407|Q7Z7B0-3|FILIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.1580505371094 3 341.158813 1020.45461 NaN NaN NaN NaN NaN NaN NaN 68.722 1 68.975 68.475 69.475 0.25227 0 0 0 0.99035 1 31482 31482 1.4819 0.28856 1 + 13725 11471 8757 8778 15807 15807 -0.054799609475026045 KNKNEEEM 8 Unmodified _KNKNEEEM_ 0 0 0 REV__nc|ENSG00000118407|Q7Z7B0-3|FILIP1 REV__nc|ENSG00000118407|Q7Z7B0-3|FILIP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 341.158813 1020.45461 2.0396 0.00069584 2.3455 0.00080019 4.3851 0.001496 341.49443117274967 58.35 0.32652 59.109 58.994 59.321 0.75894 0.071004 -0.00034125 NaN 3.2813 42 26 2 NaN NaN NaN NaN 0 NaN NaN 0 1013500 + 13726 11471 8757 8778 -0.054799609475026045 KNKNEEEM 8 Unmodified _KNKNEEEM_ 0 0 0 REV__nc|ENSG00000118407|Q7Z7B0-3|FILIP1 REV__nc|ENSG00000118407|Q7Z7B0-3|FILIP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 341.158813 1020.45461 2.4709 0.00084297 2.9446 0.0010046 5.4155 0.0018476 341.4946649760206 58.948 0.52044 59.207 59.048 59.569 0.2593 0.16945 0.00027196 NaN 3.2813 47 25 2 NaN NaN NaN NaN 0 NaN NaN 0 641100 + 13727 11471 8757 8778 -0.054799609475026045 KNKNEEEMFRQ 11 Unmodified _KNKNEEEMFRQ_ 0 0 0 REV__nc|ENSG00000118407|Q7Z7B0-3|FILIP1 REV__nc|ENSG00000118407|Q7Z7B0-3|FILIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.9021301269531 3 484.901514 1451.68271 NaN NaN NaN NaN NaN NaN NaN 32.752 1 32.752 32.252 33.252 0 0 0 0 1.008 1 14833 14833 0.08335 0.010087 1 + 13728 11471 8758 8779 15808 15808 -0.025062080904717732 KNKNKKWKKK 10 Unmodified _KNKNKKWKKK_ 0 0 0 ENST00000572218.5_2_17:44107443-44107545:-|nuORF ENST00000572218.5_2_17:44107443-44107545:-|nuORF ENST00000572218.5_2_17:44107443-44107545:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 443.9534606933594 3 443.954101 1328.84047 NaN NaN NaN NaN NaN NaN NaN 72.194 1 72.194 71.694 72.694 0 0 0 0 0.99995 1 35107 35107 1.7423 0.63252 1 13729 9096 8759 8780 15809 15809 0.18920704021707024 KNKNKLHLKG 10 Unmodified _KNKNKLHLKG_ 0 0 0 REV__AluSx1_dup115567|chr22:37850323-37850638:-|1.098550202306117|0.0814422826841487|3.75|540.0|11|3|sense REV__AluSx1_dup115567|chr22:37850323-37850638:-|1.098550202306117|0.0814422826841487|3.75|540.0|11|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 393.9144592285156 3 393.915535 1178.72478 NaN NaN NaN NaN NaN NaN NaN 38.299 1 39.095 38.595 39.595 0.79552 0 0 0 0.99837 1 17347 17347 3.0723 2.4454 1 + 13730 9953 8760 8781 15810 15810 0.14256180170877997 KNKNSLSGL 9 Unmodified _KNKNSLSGL_ 0 0 0 ENST00000399586.2_1_X:74960734-74966719:-|nuORF;nc|ENSG00000182670|P53804-3|TTC3;nc|ENSG00000182670|P53804-2|TTC3;ENSG00000182670|ENST00000418766|TTC3 ENST00000399586.2_1_X:74960734-74966719:-|nuORF;nc|ENSG00000182670|P53804-3|TTC3 ENST00000399586.2_1_X:74960734-74966719:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.5832214355469 2 480.777274 959.539994 NaN NaN NaN NaN NaN NaN NaN 77.556 1 78.219 77.719 78.719 0.66303 0 0 0 0.89983 1 35741 35741 3.5965 1.019 1 13731 7600;5344 8761 8782 15811 15811 0.058605723004689025 KNKQKFVL 8 Unmodified _KNKQKFVL_ 0 0 0 nc|ENSG00000169679|O43683-2|BUB1;nc|ENSG00000169679|O43683-3|BUB1;ENSG00000169679|ENST00000302759|BUB1 nc|ENSG00000169679|O43683-2|BUB1 nc|ENSG00000169679|O43683-2|BUB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 335.5478820800781 3 335.54656 1003.61785 2.3832 0.00079967 0.61592 0.00020667 2.9991 0.0010063 335.5467862178187 18.287 0.16489 18.287 18.183 18.348 0 16 8 3 0 0 0 0.65723 1 8111 8111 6.7232 0 1 233010 13732 4702 8762 8783 15812 15812 0.11618629956512905 KNKQSLIAKAI 11 Unmodified _KNKQSLIAKAI_ 0 0 0 REV__L1PA2_dup678|chr2:208811622-208817648:+|1.9073773458579988|0.2448110861201761|2.96|525.0|82|2|sense REV__L1PA2_dup678|chr2:208811622-208817648:+|1.9073773458579988|0.2448110861201761|2.96|525.0|82|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 405.2460632324219 3 405.259079 1212.75541 NaN NaN NaN NaN NaN NaN NaN 76.21 1 76.21 75.71 76.71 0 0 0 0 1.0051 1 37347 37347 4.1166 0.79699 1 + 13733 17784 8763 8784 15813 15813 0.15753913765297511 KNKSLNPD 8 Unmodified _KNKSLNPD_ 0 0 0 ENSG00000114030|ENST00000344337|KPNA1;KPNA1|p.C141Tfs*4|1|0.13|ENSG00000114030|chr3:122461232-122461236|TACAA/-|frameshift_variant ENSG00000114030|ENST00000344337|KPNA1 ENSG00000114030|ENST00000344337|KPNA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 458.2474365234375 2 458.248349 914.482145 NaN NaN NaN NaN NaN NaN NaN 72.802 1 72.802 72.302 73.302 0 0 0 0 0.99035 1 35424 35424 3.9444 0.3479 1 13734 1887 8764 8785 15814 15814 0.02148310375048368 KNKTLNLIHL 10 Unmodified _KNKTLNLIHL_ 0 0 0 REV__ENSG00000164342|ENST00000296795|TLR3 REV__ENSG00000164342|ENST00000296795|TLR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 398.5859069824219 3 398.583674 1192.72919 NaN NaN NaN NaN NaN NaN NaN 47.595 1 47.595 47.095 48.095 0 0 0 0 0.99864 1 21791 21791 2.8433 1.5136 1 + 13735 13087 8765 8786 15815 15815 0.14053644593786885 KNKTLNLIHL 10 Unmodified _KNKTLNLIHL_ 0 0 0 REV__ENSG00000164342|ENST00000296795|TLR3 REV__ENSG00000164342|ENST00000296795|TLR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.92108154296875 3 398.583674 1192.72919 3.0449 0.0012137 2.6299 0.0010482 5.6748 0.0022619 398.5852285982729 46.608 0.51118 47.26 47.026 47.537 0.65219 36 17 3 0 0 0 0.9178 2 21350 21350;21446 2.8433 1.7718 1 383990 + 13736 13087 8765 8786 15816;15817 15816 0.14053644593786885 KNKTLNLIHL 10 Unmodified _KNKTLNLIHL_ 0 0 0 REV__ENSG00000164342|ENST00000296795|TLR3 REV__ENSG00000164342|ENST00000296795|TLR3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.92108154296875 3 398.583674 1192.72919 3.0449 0.0012137 2.6299 0.0010482 5.6748 0.0022619 398.5852285982729 46.608 0.51118 47.26 47.026 47.537 0.65219 36 17 3 0 0 0 0.12676 1 21350 21350 2.8433 1.881 1 383990 + 13737 13087 8765 8786 15818 15818 0.14053644593786885 KNKVHPST 8 Unmodified _KNKVHPST_ 0 0 0 REV__ENST00000515664.5_1_4:175158565-175177261:-|nuORF REV__ENST00000515664.5_1_4:175158565-175177261:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 304.5376892089844 3 304.175015 909.503215 NaN NaN NaN NaN NaN NaN NaN 26.858 1 27.48 26.98 27.98 0.62179 0 0 0 0.99035 1 12313 12313 1.4819 0.51963 1 + 13738 13064 8766 8787 15819 15819 0.044843204745689036 KNKVQSAQWF 10 Unmodified _KNKVQSAQWF_ 0 0 0 REV__TKTL2|p.V423Yfs*16|1|0.27|ENSG00000151005|chr4:163472468-163472468|C/-|frameshift_variant REV__TKTL2|p.V423Yfs*16|1|0.27|ENSG00000151005|chr4:163472468-163472468|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.7467956542969 3 412.555895 1234.64586 NaN NaN NaN NaN NaN NaN NaN 81.487 1 82.147 81.647 82.647 0.65998 0 0 0 1.0004 1 37546 37546 0.56317 0 1 + 13739 12601 8767 8788 15820 15820 0.037919081459449444 KNLEIELLKL 10 Unmodified _KNLEIELLKL_ 0 0 0 nc|ENSG00000137814|Q9NVX0-3|HAUS2;ENSG00000137814|ENST00000260372|HAUS2 nc|ENSG00000137814|Q9NVX0-3|HAUS2 nc|ENSG00000137814|Q9NVX0-3|HAUS2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.694091796875 4 303.944508 1211.74892 2.0186 0.00061355 -0.18319 -5.5678E-05 1.8354 0.00055787 303.9444795769454 34.024 0.47011 34.813 34.675 35.146 0.78921 44 27 3 0 0 0 0.12676 1 15406 15406 0.69767 0.69767 1 868750 13740 3042 8768 8789 15821 15821 0.15151975813887475 KNLFVIVKY 9 Unmodified _KNLFVIVKY_ 0 0 0 REV__nc|ENSG00000197617|Q7Z5H4|VN1R5 REV__nc|ENSG00000197617|Q7Z5H4|VN1R5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.2355041503906 3 375.233982 1122.68012 NaN NaN NaN NaN NaN NaN NaN 86.236 1 86.485 85.985 86.985 0.24929 0 0 0 0.91014 1 39690 39690 1.0715 0 1 + 13741 18098 8769 8790 15822 15822 0.12368356304864392 KNLHRKVLLI 10 Unmodified _KNLHRKVLLI_ 0 0 0 ENST00000585141.5_1_17:62481823-62493086:-|nuORF ENST00000585141.5_1_17:62481823-62493086:-|nuORF ENST00000585141.5_1_17:62481823-62493086:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.3792724609375 2 617.411332 1232.80811 NaN NaN NaN NaN NaN NaN NaN 58.162 1 58.162 57.662 58.662 0 0 0 0 1.0001 1 26828 26828 1.6526 1.0511 1 13742 9175 8770 8791 15823 15823 0.20101916618750693 KNLIEVRADK 10 Unmodified _KNLIEVRADK_ 0 0 0 ENSG00000137767|ENST00000260324|SQOR ENSG00000137767|ENST00000260324|SQOR ENSG00000137767|ENST00000260324|SQOR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.9033508300781 3 395.903183 1184.68772 NaN NaN NaN NaN NaN NaN NaN 93.462 1 93.717 93.217 94.217 0.25497 0 0 0 0.99812 1 42957 42957 1.5923 0.48253 1 13743 3038 8771 8792 15824 15824 0.10276463834452443 KNLIVIRAP 9 Unmodified _KNLIVIRAP_ 0 0 0 nc|ENSG00000133488|Q9UDX3-2|SEC14L4;ENST00000320982.3_1_22:30886116-30899718:-|nuORF;ENST00000321205.9_1_22:30886096-30899699:-|nuORF;ENSG00000133488|ENST00000255858|SEC14L4 nc|ENSG00000133488|Q9UDX3-2|SEC14L4 nc|ENSG00000133488|Q9UDX3-2|SEC14L4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.3367309570312 2 512.337301 1022.66005 NaN NaN NaN NaN NaN NaN NaN 80.24 1 80.24 79.74 80.74 0 0 0 0 0.89509 1 39787 39787 4.756 0 1 13744 2764 8772 8793 15825 15825 0.14962605364883075 KNLKILIPWLL 11 Unmodified _KNLKILIPWLL_ 0 0 0 nc|ENSG00000198513|Q8WXF7-2|ATL1;ENSG00000198513|ENST00000358385|ATL1 nc|ENSG00000198513|Q8WXF7-2|ATL1 nc|ENSG00000198513|Q8WXF7-2|ATL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.2042541503906 4 338.477246 1349.87988 2.4314 0.00082299 1.0115 0.00034235 3.4429 0.0011653 338.72840967366665 39.403 0.82135 39.67 39.347 40.168 0.26696 60 30 3 0 0 0 0.13295 1 17882 17882 0.45452 0.35968 1 511590 13745 5894 8773 8794 15826 15826 0.2189341125260853 KNLKILIPWLL 11 Unmodified _KNLKILIPWLL_ 0 0 0 nc|ENSG00000198513|Q8WXF7-2|ATL1;ENSG00000198513|ENST00000358385|ATL1 nc|ENSG00000198513|Q8WXF7-2|ATL1 nc|ENSG00000198513|Q8WXF7-2|ATL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.5506896972656 4 338.477246 1349.87988 2.5895 0.00087648 1.0023 0.00033926 3.5918 0.0012157 338.4774559659077 37.478 0.66874 37.739 37.221 37.889 0.26083 39 20 3 0 0 0 0.13295 1 17126 17126 1.3296 0.82369 1 731760 13746 5894 8773 8794 15827 15827 0.2189341125260853 KNLKILIPWLL 11 Unmodified _KNLKILIPWLL_ 0 0 0 nc|ENSG00000198513|Q8WXF7-2|ATL1;ENSG00000198513|ENST00000358385|ATL1 nc|ENSG00000198513|Q8WXF7-2|ATL1 nc|ENSG00000198513|Q8WXF7-2|ATL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.7287292480469 4 338.477246 1349.87988 2.4132 0.0008168 1.3323 0.00045097 3.7455 0.0012678 338.4775855096654 39.204 0.47007 39.841 39.559 40.029 0.63778 29 16 3 0 0 0 0.91462 1 17904 17904 0.08335 0.08335 1 452900 13747 5894 8773 8794 15828 15828 0.2189341125260853 KNLKILIPWLL 11 Unmodified _KNLKILIPWLL_ 0 0 0 nc|ENSG00000198513|Q8WXF7-2|ATL1;ENSG00000198513|ENST00000358385|ATL1 nc|ENSG00000198513|Q8WXF7-2|ATL1 nc|ENSG00000198513|Q8WXF7-2|ATL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.5509338378906 4 338.477246 1349.87988 2.3415 0.00079253 0.15024 5.0852E-05 2.4917 0.00084339 338.4770557182665 37.072 0.29403 37.702 37.545 37.839 0.62999 21 12 2 0 0 0 0.13295 1 16945 16945 0.08335 0.08335 1 173910 13748 5894 8773 8794 15829 15829 0.2189341125260853 KNLKILIPWLL 11 Unmodified _KNLKILIPWLL_ 0 0 0 nc|ENSG00000198513|Q8WXF7-2|ATL1;ENSG00000198513|ENST00000358385|ATL1 nc|ENSG00000198513|Q8WXF7-2|ATL1 nc|ENSG00000198513|Q8WXF7-2|ATL1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 338.477246 1349.87988 2.4056 0.00081426 0.92408 0.00031278 3.3297 0.001127 338.4774488870795 37.914 0.50566 37.914 37.482 37.987 0 0.11529 0.00013219 NaN 1.3296 35 19 3 NaN NaN NaN NaN 0 NaN NaN 0 756230 13749 5894 8773 8794 0.2189341125260853 KNLKILIPWLL 11 Unmodified _KNLKILIPWLL_ 0 0 0 nc|ENSG00000198513|Q8WXF7-2|ATL1;ENSG00000198513|ENST00000358385|ATL1 nc|ENSG00000198513|Q8WXF7-2|ATL1 nc|ENSG00000198513|Q8WXF7-2|ATL1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 338.477246 1349.87988 2.3232 0.00078634 0.27014 9.1437E-05 2.5933 0.00087777 338.7281481881035 37.047 0.10249 37.841 37.781 37.883 0.79342 0.041423 -0.00075318 NaN 1.3296 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 312240 13750 5894 8773 8794 0.2189341125260853 KNLKVKRPVQ 10 Unmodified _KNLKVKRPVQ_ 0 0 0 ENST00000457473.1_1_9:75270895-75271066:-|nuORF ENST00000457473.1_1_9:75270895-75271066:-|nuORF ENST00000457473.1_1_9:75270895-75271066:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 403.93096923828125 3 403.931185 1208.77173 NaN NaN NaN NaN NaN NaN NaN 43.637 1 44.285 43.785 44.785 0.64872 0 0 0 0.99995 1 19998 19998 1.7423 0 1 13751 8059 8774 8795 15830 15830 0.17569039722025082 KNLLKIHTKV 10 Unmodified _KNLLKIHTKV_ 0 0 0 ENST00000262053.7_1_12:51214365-51214533:+|nuORF ENST00000262053.7_1_12:51214365-51214533:+|nuORF ENST00000262053.7_1_12:51214365-51214533:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 597.5072021484375 2 597.390065 1192.76558 NaN NaN NaN NaN NaN NaN NaN 79.144 1 79.144 78.644 79.644 0 0 0 0 0.74241 1 39056 39056 24.021 4.6586 1 13752 6568 8775 8796 15831 15831 0.17690521490476385 KNLLMKHEQLR 11 Unmodified _KNLLMKHEQLR_ 0 0 0 nc|ENSG00000119509|Q9Y283-2|INVS;INVS|p.K916Rfs*27|1|0.41|ENSG00000119509|chr9:100293000-100293000|A/-|frameshift_variant;ENSG00000119509|ENST00000262457|INVS nc|ENSG00000119509|Q9Y283-2|INVS nc|ENSG00000119509|Q9Y283-2|INVS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.6081848144531 3 470.606373 1408.79729 2.9631 0.0013945 1.1598 0.00054581 4.1229 0.0019403 470.94123539262796 55.477 0.1783 56.145 56.059 56.238 0.66798 12 8 2 0 0 0 0.91111 1 25406 25406 0.40827 0.041592 1 489540 13753 2145 8776 8797 15832 15832 0.10924146182128425 KNLLMKHEQLR 11 Unmodified _KNLLMKHEQLR_ 0 0 0 nc|ENSG00000119509|Q9Y283-2|INVS;INVS|p.K916Rfs*27|1|0.41|ENSG00000119509|chr9:100293000-100293000|A/-|frameshift_variant;ENSG00000119509|ENST00000262457|INVS nc|ENSG00000119509|Q9Y283-2|INVS nc|ENSG00000119509|Q9Y283-2|INVS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 470.606373 1408.79729 2.6726 0.0012578 0.98609 0.00046406 3.6587 0.0017218 470.60665861537314 55.505 0.24712 55.771 55.56 55.807 0.26543 -0.13499 0.00015909 NaN 0.40827 25 11 3 NaN NaN NaN NaN 0 NaN NaN 0 729480 13754 2145 8776 8797 0.10924146182128425 KNLLMKHEQLR 11 Unmodified _KNLLMKHEQLR_ 0 0 0 nc|ENSG00000119509|Q9Y283-2|INVS;INVS|p.K916Rfs*27|1|0.41|ENSG00000119509|chr9:100293000-100293000|A/-|frameshift_variant;ENSG00000119509|ENST00000262457|INVS nc|ENSG00000119509|Q9Y283-2|INVS nc|ENSG00000119509|Q9Y283-2|INVS MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 470.606373 1408.79729 2.9631 0.0013945 1.1598 0.00054581 4.1229 0.0019403 470.94123539262796 55.477 0.1783 56.145 56.059 56.238 0.66798 0.23868 0.00040434 NaN 0.40827 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 489540 13755 2145 8776 8797 0.10924146182128425 KNLPHQRR 8 Unmodified _KNLPHQRR_ 0 0 0 REV__nc|ENSG00000036549|Q8IYH5-3|ZZZ3 REV__nc|ENSG00000036549|Q8IYH5-3|ZZZ3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.20758056640625 3 350.208941 1047.60499 NaN NaN NaN NaN NaN NaN NaN 43.84 1 44.109 43.609 44.609 0.2694 0 0 0 0.99035 1 20027 20027 3.5965 0.60125 1 + 13756 10303 8777 8798 15833 15833 0.08309611616982693 KNLPKSGLW 9 Unmodified _KNLPKSGLW_ 0 0 0 ENSG00000187806|ENST00000341689|TMEM202 ENSG00000187806|ENST00000341689|TMEM202 ENSG00000187806|ENST00000341689|TMEM202 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 348.2083740234375 3 348.206315 1041.59712 NaN NaN NaN NaN NaN NaN NaN 43.079 1 43.079 42.579 43.579 0 0 0 0 0.86044 1 19616 19616 4.5289 1.4566 1 13757 5639 8778 8799 15834 15834 0.0779803957684635 KNLPKSGLW 9 Unmodified _KNLPKSGLW_ 0 0 0 ENSG00000187806|ENST00000341689|TMEM202 ENSG00000187806|ENST00000341689|TMEM202 ENSG00000187806|ENST00000341689|TMEM202 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 348.2076416015625 3 348.206315 1041.59712 NaN NaN NaN NaN NaN NaN NaN 43.204 1 43.204 42.704 43.704 0 0 0 0 0.86044 1 19677 19677 4.5289 0 1 13758 5639 8778 8799 15835 15835 0.0779803957684635 KNLPKSGLW 9 Unmodified _KNLPKSGLW_ 0 0 0 ENSG00000187806|ENST00000341689|TMEM202 ENSG00000187806|ENST00000341689|TMEM202 ENSG00000187806|ENST00000341689|TMEM202 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.2080993652344 3 348.206315 1041.59712 NaN NaN NaN NaN NaN NaN NaN 42.88 1 43.15 42.65 43.65 0.27021 0 0 0 0.89683 1 19567 19567 2.4985 0 1 13759 5639 8778 8799 15836 15836 0.0779803957684635 KNLRQQLA 8 Unmodified _KNLRQQLA_ 0 0 0 REV__ENST00000491136.6_1_1:52823963-52826194:-|nuORF REV__ENST00000491136.6_1_1:52823963-52826194:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.7930908203125 2 485.793258 969.571963 NaN NaN NaN NaN NaN NaN NaN 71.841 1 72.504 72.004 73.004 0.66324 0 0 0 0.99035 1 32928 32928 4.756 0 1 + 13760 9989 8779 8800 15837 15837 0.08595984774262888 KNLRRKQRRRE 11 Unmodified _KNLRRKQRRRE_ 0 0 0 nc|ENSG00000164197|Q86T96-2|RNF180;ENSG00000164197|ENST00000389100|RNF180 nc|ENSG00000164197|Q86T96-2|RNF180 nc|ENSG00000164197|Q86T96-2|RNF180 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 385.7422790527344 4 385.740828 1538.93421 2.8443 0.0010972 -0.35195 -0.00013576 2.4924 0.00096141 385.74077273865845 83.911 0.41104 84.158 84.062 84.473 0.24722 46 22 3 0 0 0 0.91391 1 38626 38626 0.08335 0 1 1155200 13761 4294 8780 8801 15838 15838 0.18629816176712666 KNLTKGLV 8 Unmodified _KNLTKGLV_ 0 0 0 REV__nc|ENSG00000116062|P52701-2|MSH6 REV__nc|ENSG00000116062|P52701-2|MSH6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.03302001953125 2 436.781828 871.549102 2.911 0.0012715 -1.0986 -0.00047985 1.8124 0.00079162 436.78124166617795 53.698 0.18223 54.362 54.309 54.491 0.6644 14 9 2 0 0 0 0.13972 1 24569 24569 4.756 0.42677 1 313920 + 13762 17905 8781 8802 15839 15839 0.10818965656801538 KNLYFLLI 8 Unmodified _KNLYFLLI_ 0 0 0 ENST00000491706.5_1_2:66662988-66667742:+|nuORF ENST00000491706.5_1_2:66662988-66667742:+|nuORF ENST00000491706.5_1_2:66662988-66667742:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.3160400390625 2 512.315503 1022.61645 NaN NaN NaN NaN NaN NaN NaN 70.893 1 71.15 70.65 71.65 0.25642 0 0 0 0.99035 1 32467 32467 5.7604 0 1 13763 8396 8782 8803 15840 15840 0.10604995867754496 KNNKDKKKKKK 11 Unmodified _KNNKDKKKKKK_ 0 0 0 REV__ENST00000536936.1_1_20:6088276-6096632:-|nuORF REV__ENST00000536936.1_1_20:6088276-6096632:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 693.9462280273438 2 693.94881 1385.88307 NaN NaN NaN NaN NaN NaN NaN 61.545 1 62.285 61.785 62.785 0.7396 0 0 0 1.0063 1 28558 28558 2.4985 1.169 1 + 13764 10886 8783 8804 15841 15841 0.20556054359281006 KNNKKVRVTVK 11 Unmodified _KNNKKVRVTVK_ 0 0 0 ENSG00000114127|ENST00000392981|XRN1;nc|ENSG00000114127|Q8IZH2|XRN1;ENST00000467077.1_1_3:142074330-142089377:-|nuORF ENSG00000114127|ENST00000392981|XRN1 ENSG00000114127|ENST00000392981|XRN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 438.7855224609375 3 438.617377 1312.8303 NaN NaN NaN NaN NaN NaN NaN 55.081 1 55.081 54.581 55.581 0 0 0 0 1.0048 1 25294 25294 4.4062 3.1913 1 13765 1891 8784 8805 15842 15842 0.18640096296485353 KNNKLSLTL 9 Unmodified _KNNKLSLTL_ 0 0 0 nc|ENSG00000205592|Q7Z5P9-2|MUC19;ENSG00000205592|ENST00000454784|MUC19 nc|ENSG00000205592|Q7Z5P9-2|MUC19 nc|ENSG00000205592|Q7Z5P9-2|MUC19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 344.21258544921875 3 344.213358 1029.61824 NaN NaN NaN NaN NaN NaN NaN 73.323 1 74.022 73.522 74.522 0.69881 0 0 0 0.906 1 35337 35337 2.086 0.60411 1 13766 6053 8785 8806 15843 15843 0.10462004885698661 KNNKQKGIA 9 Unmodified _KNNKQKGIA_ 0 0 0 L1P2_dup354|chr3:177908608-177914071:+|1.579459827711941|0.1324791782257567|3.58|528.0|9|1|sense L1P2_dup354|chr3:177908608-177914071:+|1.579459827711941|0.1324791782257567|3.58|528.0|9|1|sense L1P2_dup354|chr3:177908608-177914071:+|1.579459827711941|0.1324791782257567|3.58|528.0|9|1|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.1817932128906 3 334.201452 999.582528 2.2769 0.00076093 -1.0761 -0.00035964 1.2007 0.00040129 334.5350997314269 49.882 0.5925 50.539 50.461 51.053 0.65735 46 22 4 0 0 0 0.11065 1 22807 22807 0.96228 0 1 259860 13767 9455 8786 8807 15844 15844 0.08271967428697735 KNPKKTKWWYH 11 Unmodified _KNPKKTKWWYH_ 0 0 0 ENST00000362030.3_1_1:96884238-96884478:+|nuORF;ENST00000519277.5_1_8:74708911-74722861:-|nuORF;ENST00000519255.2_1_8:74708126-74722861:-|nuORF;ENSG00000104343|ENST00000602593|UBE2W;nc|ENSG00000104343|Q96B02-2|UBE2W;nc|ENSG00000104343|Q96B02-3|UBE2W ENST00000362030.3_1_1:96884238-96884478:+|nuORF;nc|ENSG00000104343|Q96B02-3|UBE2W nc|ENSG00000104343|Q96B02-3|UBE2W MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.9435729980469 3 505.945494 1514.81465 NaN NaN NaN NaN NaN NaN NaN 83.54 1 84.202 83.702 84.702 0.66219 0 0 0 1.0079 1 38478 38478 0.45452 0.046251 1 13768 7235;9581 8787 8808 15845 15845 0.07783809779448347 KNPKVQLW 8 Unmodified _KNPKVQLW_ 0 0 0 nc|ENSG00000181038|Q86XA0-2|METTL23;ENSG00000181038|ENST00000341249|METTL23 nc|ENSG00000181038|Q86XA0-2|METTL23 nc|ENSG00000181038|Q86XA0-2|METTL23 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 338.2038269042969 3 338.202793 1011.58655 2.1891 0.00074035 1.8121 0.00061285 4.0012 0.0013532 338.2033906062922 46.34 0.63283 46.34 46.209 46.842 0 33 28 2 0 0 0 0.73203 2 21287 21287;21297 3.2813 1.9518 1 679640 13769 5279 8788 8809 15846;15847 15846 0.08122056922411502 KNPKVQLW 8 Unmodified _KNPKVQLW_ 0 0 0 nc|ENSG00000181038|Q86XA0-2|METTL23;ENSG00000181038|ENST00000341249|METTL23 nc|ENSG00000181038|Q86XA0-2|METTL23 nc|ENSG00000181038|Q86XA0-2|METTL23 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 338.53863525390625 3 338.202793 1011.58655 2.2727 0.00076862 1.5267 0.00051634 3.7994 0.001285 338.20333160796326 45.288 0.24716 46.114 45.948 46.195 0.82621 20 15 2 0 0 0 0.73203 1 20642 20642 3.2813 1.7994 1 404560 13770 5279 8788 8809 15848 15848 0.08122056922411502 KNPKVQLW 8 Unmodified _KNPKVQLW_ 0 0 0 nc|ENSG00000181038|Q86XA0-2|METTL23;ENSG00000181038|ENST00000341249|METTL23 nc|ENSG00000181038|Q86XA0-2|METTL23 nc|ENSG00000181038|Q86XA0-2|METTL23 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 338.2037658691406 3 338.202793 1011.58655 2.2846 0.00077265 1.7685 0.00059812 4.0531 0.0013708 338.20346420598696 45.451 0.39238 46.277 46.218 46.611 0.82621 26 20 2 0 0 0 0.73203 1 20698 20698 3.2813 1.6287 1 358390 13771 5279 8788 8809 15849 15849 0.08122056922411502 KNPKVQLW 8 Unmodified _KNPKVQLW_ 0 0 0 nc|ENSG00000181038|Q86XA0-2|METTL23;ENSG00000181038|ENST00000341249|METTL23 nc|ENSG00000181038|Q86XA0-2|METTL23 nc|ENSG00000181038|Q86XA0-2|METTL23 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.2046203613281 3 338.202793 1011.58655 2.3463 0.00079353 2.0463 0.00069207 4.3926 0.0014856 338.20359519956907 45.426 0.50257 45.694 45.523 46.026 0.26768 27 18 2 0 0 0 0.73203 1 20772 20772 3.2813 1.6287 1 1128500 13772 5279 8788 8809 15850 15850 0.08122056922411502 KNPKVQLW 8 Unmodified _KNPKVQLW_ 0 0 0 nc|ENSG00000181038|Q86XA0-2|METTL23;ENSG00000181038|ENST00000341249|METTL23 nc|ENSG00000181038|Q86XA0-2|METTL23 nc|ENSG00000181038|Q86XA0-2|METTL23 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.5387268066406 3 338.202793 1011.58655 2.3539 0.00079609 1.6009 0.00054142 3.9548 0.0013375 338.20321283142937 38.993 0.52393 39.63 39.307 39.831 0.63778 42 18 3 0 0 0 0.73203 1 17766 17766 3.2813 1.9518 1 742000 13773 5279 8788 8809 15851 15851 0.08122056922411502 KNPKVQLW 8 Unmodified _KNPKVQLW_ 0 0 0 nc|ENSG00000181038|Q86XA0-2|METTL23;ENSG00000181038|ENST00000341249|METTL23 nc|ENSG00000181038|Q86XA0-2|METTL23 nc|ENSG00000181038|Q86XA0-2|METTL23 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.2043151855469 3 338.202793 1011.58655 NaN NaN NaN NaN NaN NaN NaN 42.949 1 43.597 43.097 44.097 0.64783 0 0 0 0.99035 1 19681 19681 3.2813 1.9518 1 13774 5279 8788 8809 15852 15852 0.08122056922411502 KNPKVQLW 8 Unmodified _KNPKVQLW_ 0 0 0 nc|ENSG00000181038|Q86XA0-2|METTL23;ENSG00000181038|ENST00000341249|METTL23 nc|ENSG00000181038|Q86XA0-2|METTL23 nc|ENSG00000181038|Q86XA0-2|METTL23 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.19915771484375 3 338.202793 1011.58655 NaN NaN NaN NaN NaN NaN NaN 44.231 1 44.881 44.381 45.381 0.64998 0 0 0 0.99035 1 20274 20274 3.2813 0.78282 1 13775 5279 8788 8809 15853 15853 0.08122056922411502 KNPKVQLW 8 Unmodified _KNPKVQLW_ 0 0 0 nc|ENSG00000181038|Q86XA0-2|METTL23;ENSG00000181038|ENST00000341249|METTL23 nc|ENSG00000181038|Q86XA0-2|METTL23 nc|ENSG00000181038|Q86XA0-2|METTL23 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 338.202793 1011.58655 2.5223 0.00085304 1.6269 0.00055024 4.1492 0.0014033 338.2033590418136 46.328 0.66216 46.593 46.147 46.809 0.26561 0.15814 -5.6287E-05 NaN 3.2813 40 27 2 NaN NaN NaN NaN 0 NaN NaN 0 551540 13776 5279 8788 8809 0.08122056922411502 KNPLFKRKQP 10 Unmodified _KNPLFKRKQP_ 0 0 0 REV__ENST00000403625.6_1_5:66084534-66385993:+|nuORF REV__ENST00000403625.6_1_5:66084534-66385993:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 418.92584228515625 3 419.259302 1254.75608 NaN NaN NaN NaN NaN NaN NaN 56.682 1 57.351 56.851 57.851 0.66829 0 0 0 0.99464 1 25932 25932 3.3196 0.47636 1 + 13777 16053 8789 8810 15854 15854 0.13888753204969362 KNPRLKETKIA 11 Unmodified _KNPRLKETKIA_ 0 0 0 REV__HIVEP1|p.S2208Qfs*19|1|0.2|ENSG00000095951|chr6:12161570-12161570|C/-|frameshift_variant REV__HIVEP1|p.S2208Qfs*19|1|0.2|ENSG00000095951|chr6:12161570-12161570|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 433.3201599121094 3 433.269866 1296.78777 NaN NaN NaN NaN NaN NaN NaN 74.32 1 74.579 74.079 75.079 0.25831 0 0 0 1.0072 1 34175 34175 1.3296 0.21989 1 + 13778 10770 8790 8811 15855 15855 0.15124701168269894 KNPRRKPRLYH 11 Unmodified _KNPRRKPRLYH_ 0 0 0 L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|148|3|sense L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|148|3|sense L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|148|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 488.9617614746094 3 488.960138 1463.85858 NaN NaN NaN NaN NaN NaN NaN 59.572 1 59.572 59.072 60.072 0 0 0 0 1.0073 1 27544 27544 1.2148 0.76031 1 13779 9472 8791 8812 15856 15856 0.1452083899646368 KNPRRKPRR 9 Unmodified _KNPRRKPRR_ 0 0 0 L1PA3_dup6831|chrX:106827828-106830948:+|1.112501382732906|0.4076652707632567|1.45|539.0|77|3|sense L1PA3_dup6831|chrX:106827828-106830948:+|1.112501382732906|0.4076652707632567|1.45|539.0|77|3|sense L1PA3_dup6831|chrX:106827828-106830948:+|1.112501382732906|0.4076652707632567|1.45|539.0|77|3|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 302.1969909667969 4 302.695624 1206.75339 1.9753 0.00059792 -2.0485 -0.00062008 -0.073227 -2.2165E-05 302.69497784253105 48.444 0.14296 48.444 48.411 48.554 0 14 8 2 0 0 0 0.11436 1 22194 22194 0 0 1 347960 13780 9464 8792 8813 15857 15857 0.15828342590680222 KNPTKTRAR 9 Unmodified _KNPTKTRAR_ 0 0 0 ENST00000452284.1_1_22:21356738-21362956:+|nuORF;ENST00000436079.1_1_22:21356738-21363657:+|nuORF;ENST00000429962.1_1_22:21356738-21357321:+|nuORF ENST00000452284.1_1_22:21356738-21362956:+|nuORF ENST00000452284.1_1_22:21356738-21362956:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.88580322265625 3 357.884235 1070.63087 NaN NaN NaN NaN NaN NaN NaN 51.765 1 52.028 51.528 52.528 0.26227 0 0 0 0.90519 1 23659 23659 2.2828 0.19677 1 13781 7842 8793 8814 15858 15858 0.09838461068579818 KNQAGHGK 8 Unmodified _KNQAGHGK_ 0 0 0 REV__ENST00000258105.7_1_2:74699127-74699223:-|nuORF REV__ENST00000258105.7_1_2:74699127-74699223:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 420.2293701171875 2 420.227751 838.440949 3.1495 0.0013235 0.16236 6.8229E-05 3.3118 0.0013917 420.2276950531705 85.508 0.48515 86.177 85.981 86.466 0.66924 54 22 3 0 0 0 0.7471 1 39340 39340 0.69038 0 1 2860300 + 13782 14945 8794 8815 15859 15859 0.015265941262327942 KNQKIHREFLR 11 Unmodified _KNQKIHREFLR_ 0 0 0 REV__nc|ENSG00000042317|Q9P0W8-3|SPATA7 REV__nc|ENSG00000042317|Q9P0W8-3|SPATA7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 367.9682922363281 4 367.967843 1467.84226 2.4645 0.00090687 0.84647 0.00031147 3.311 0.0012183 367.9678439419088 63.651 0.34735 63.899 63.736 64.083 0.24803 29 19 2 0 0 0 0.91137 1 29110 29110 1.1098 0.65524 1 1211400 + 13783 10321 8795 8816 15860 15860 0.12705713039690636 KNQLALTES 9 Unmodified _KNQLALTES_ 0 0 0 REV__ENST00000361505.9_1_14:20944805-20945120:+|nuORF REV__ENST00000361505.9_1_14:20944805-20945120:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.18548583984375 3 335.185468 1002.53457 NaN NaN NaN NaN NaN NaN NaN 81.59 1 81.838 81.338 82.338 0.24803 0 0 0 0.90335 1 37564 37564 2.7352 0.89096 1 + 13784 15624 8796 8817 15861 15861 0.03340848718005418 KNQLCKLI 8 Unmodified _KNQLCKLI_ 0 0 0 REV__nc|ENSG00000169435|Q6ZTQ3-4|RASSF6 REV__nc|ENSG00000169435|Q6ZTQ3-4|RASSF6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.2906799316406 2 480.288963 958.563372 3.4098 0.0016377 -1.1059 -0.00053114 2.3039 0.0011066 480.28846575067377 89.598 0.1945 89.849 89.708 89.902 0.25137 17 10 2 0 0 0 0.7441 1 41205 41205 2.3027 0.4585 1 295570 + 13785 13391 8797 8818 15862 15862 0.08243294813439661 KNRAKGKA 8 Unmodified _KNRAKGKA_ 0 0 0 ENST00000473716.5_1_19:38708426-38709789:-|nuORF;nc|ENSG00000011332|Q92782-3|DPF1;nc|ENSG00000011332|Q92782-1|DPF1;ENSG00000011332|ENST00000355526|DPF1 ENST00000473716.5_1_19:38708426-38709789:-|nuORF ENST00000473716.5_1_19:38708426-38709789:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 436.7760925292969 2 436.774868 871.535184 2.9911 0.0013064 -0.099055 -4.3265E-05 2.8921 0.0012632 436.7747565944543 85.822 0.54066 86.07 85.797 86.338 0.24857 84 25 5 0 0 0 0.7471 1 39566 39566 0.69038 0 1 39852000 13786 412 8798 8819 15863 15863 0.09427732948370249 KNRDNRVT 8 Unmodified _KNRDNRVT_ 0 0 0 REV__nc|ENSG00000131759|P10276-3|RARA REV__nc|ENSG00000131759|P10276-3|RARA MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.6277770996094 3 334.852823 1001.53664 2.6434 0.00088515 2.8288 0.00094723 5.4722 0.0018324 334.85465614374226 67.533 1.195 67.783 66.852 68.047 0.2501 90 69 2 0 0 0 0.14274 1 31008 31008 1.1933 0.12188 1 636960 + 13787 17939 8799 8820 15864 15864 0.03593322246467778 KNRLRNQV 8 Unmodified _KNRLRNQV_ 0 0 0 ENSG00000198752|ENST00000361246|CDC42BPB ENSG00000198752|ENST00000361246|CDC42BPB ENSG00000198752|ENST00000361246|CDC42BPB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.21044921875 3 343.20883 1026.60466 NaN NaN NaN NaN NaN NaN NaN 14.701 1 15.355 14.855 15.855 0.65356 0 0 0 0.99035 1 6623 6623 3.9444 0.3479 1 13788 5928 8800 8821 15865 15865 0.0924219189712403 KNRPRVPAG 9 Unmodified _KNRPRVPAG_ 0 0 0 nc|ENSG00000186399|I6L899-2|GOLGA8R;nc|ENSG00000206127|A6NCC3-1|GOLGA8O;ENSG00000186399|ENST00000327271|GOLGA8R;ENSG00000232653|ENST00000448387|GOLGA8N;ENSG00000206127|ENST00000509311|GOLGA8O;ENSG00000178115|ENST00000562783|GOLGA8Q nc|ENSG00000186399|I6L899-2|GOLGA8R nc|ENSG00000186399|I6L899-2|GOLGA8R MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 332.2021789550781 3 332.201675 993.583196 NaN NaN NaN NaN NaN NaN NaN 46.563 1 46.828 46.328 47.328 0.26561 0 0 0 0.89602 1 21281 21281 4.5289 1.2476 1 13789 5150 8801 8822 15866 15866 0.0861480686842242 KNRQKHLVTTF 11 Unmodified _KNRQKHLVTTF_ 0 0 0 REV__nc|ENSG00000118482|Q92576-2|PHF3 REV__nc|ENSG00000118482|Q92576-2|PHF3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 343.7038879394531 4 343.701843 1370.77827 2.3503 0.00080782 1.2851 0.00044169 3.6354 0.0012495 343.7016964211707 39.377 0.80846 40.175 39.558 40.366 0.79762 78 39 3 0 0 0 0.13295 1 17700 17700 1.2148 0.588 1 517470 + 13790 11472 8802 8823 15867 15867 0.10770932882724082 KNRQKHLVTTF 11 Unmodified _KNRQKHLVTTF_ 0 0 0 REV__nc|ENSG00000118482|Q92576-2|PHF3 REV__nc|ENSG00000118482|Q92576-2|PHF3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 343.701843 1370.77827 2.4557 0.00084403 2.5507 0.00087668 5.0064 0.0017207 343.70258279284127 40.267 0.44216 40.267 39.957 40.4 0 0.045935 0.0005499 NaN 1.2148 21 15 2 NaN NaN NaN NaN 0 NaN NaN 0 644750 + 13791 11472 8802 8823 0.10770932882724082 KNRQKITWH 9 Unmodified _KNRQKITWH_ 0 0 0 ENST00000433921.5_1_2:219503064-219516433:-|nuORF;nc|ENSG00000115568|P52746|ZNF142;ENSG00000115568|ENST00000411696|ZNF142 ENST00000433921.5_1_2:219503064-219516433:-|nuORF ENST00000433921.5_1_2:219503064-219516433:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.2339172363281 3 404.231634 1209.67307 NaN NaN NaN NaN NaN NaN NaN 75.354 1 75.354 74.854 75.854 0 0 0 0 0.90699 1 36923 36923 0.96228 0.3991 1 13792 1977 8803 8824 15868 15868 0.0766243647697138 KNRRAKWRKR 10 Unmodified _KNRRAKWRKR_ 0 0 0 ENSG00000069011|ENST00000265340|PITX1;ENST00000607868.1_1_4:111539283-111539958:-|nuORF;nc|ENSG00000164093|Q99697-3|PITX2;ENSG00000107859|ENST00000370002|PITX3;nc|ENSG00000164093|Q99697|PITX2;ENSG00000164093|ENST00000644743|PITX2 ENSG00000069011|ENST00000265340|PITX1 ENSG00000069011|ENST00000265340|PITX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.9622497558594 3 466.96036 1397.85925 NaN NaN NaN NaN NaN NaN NaN 73.303 1 73.303 72.803 73.803 0 0 0 0 1.0001 1 35712 35712 0.69767 0 1 13793 744 8804 8825 15869 15869 0.17623678436143564 KNRRAKWRR 9 Unmodified _KNRRAKWRR_ 0 0 0 ENSG00000133937|ENST00000238558|GSC ENSG00000133937|ENST00000238558|GSC ENSG00000133937|ENST00000238558|GSC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 424.5155029296875 3 424.262039 1269.76429 NaN NaN NaN NaN NaN NaN NaN 11.17 1 11.477 10.977 11.977 0.30727 0 0 0 0.91238 1 5067 5067 0.23584 0.076522 1 13794 2776 8805 8826 15870 15870 0.1401974496495768 KNSEMENEND 10 Unmodified _KNSEMENEND_ 0 0 0 ENST00000552945.1_1_12:105582201-105583926:-|nuORF;ENST00000547809.5_1_12:105570964-105626916:-|nuORF;nc|ENSG00000136044|Q8NEU8-2|APPL2;ENSG00000136044|ENST00000258530|APPL2;nc|ENSG00000136044|Q8NEU8-3|APPL2 ENST00000552945.1_1_12:105582201-105583926:-|nuORF ENST00000552945.1_1_12:105582201-105583926:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.199462890625 4 303.122663 1208.46155 2.1447 0.00065011 0.19787 5.9978E-05 2.3426 0.00071009 303.1225408639765 43.884 0.4971 44.705 44.225 44.723 0.82074 32 26 2 0 0 0 0.12676 1 19799 19799 0.13989 0 1 232920 13795 2920 8806 8827 15871 15871 -0.13434692857572372 KNSMAWATRC 10 Unmodified _KNSMAWATRC_ 0 0 0 REV__ENST00000221419.9_1_19:39340639-39340798:-|nuORF REV__ENST00000221419.9_1_19:39340639-39340798:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.8525390625 3 389.851437 1166.53248 2.653 0.0010343 0.75506 0.00029436 3.4081 0.0013286 389.8518754292655 52.691 0.29453 52.691 52.582 52.876 0 52 23 3 0 0 0 0.8662 1 24162 24162 2.8433 0 1 970430 + 13796 14824 8807 8828 15872 15872 -0.044122265631131086 KNSVGFHI 8 Unmodified _KNSVGFHI_ 0 0 0 ENSG00000146530|ENST00000275358|VWDE ENSG00000146530|ENST00000275358|VWDE ENSG00000146530|ENST00000275358|VWDE MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.25 2 451.248152 900.481751 3.0527 0.0013775 1.3231 0.00059706 4.3759 0.0019746 451.24881544030444 67.165 0.32487 67.823 67.662 67.987 0.65777 34 18 2 0 0 0 0.74071 2 30741 30741;30854 2.5775 2.5775 1 1187000 13797 3522 8808 8829 15873;15874 15873 0.027529354458465605 KNTEKLLY 8 Unmodified _KNTEKLLY_ 0 0 0 REV__ENSG00000173276|ENST00000310826|ZBTB21 REV__ENSG00000173276|ENST00000310826|ZBTB21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.8631896972656 3 336.862325 1007.56515 2.4099 0.0008118 0.39097 0.0001317 2.8009 0.0009435 336.86245804924016 14.166 0.10626 14.814 14.77 14.876 0.64819 29 17 2 0 0 0 0.37709 1 6378 6378 29.841 3.5724 1 3091500 + 13798 13595 8809 8830 15875 15875 0.06166627103027622 KNTEKLLY 8 Unmodified _KNTEKLLY_ 0 0 0 REV__ENSG00000173276|ENST00000310826|ZBTB21 REV__ENSG00000173276|ENST00000310826|ZBTB21 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 336.862325 1007.56515 2.3441 0.00078964 0.57766 0.00019459 2.9218 0.00098423 336.8625250907521 15.023 0.48581 15.023 14.821 15.306 0 0.21359 0.00028134 NaN 29.841 121 56 3 NaN NaN NaN NaN 0 NaN NaN 0 186160 + 13799 13595 8809 8830 0.06166627103027622 KNTEKLLY 8 Unmodified _KNTEKLLY_ 0 0 0 REV__ENSG00000173276|ENST00000310826|ZBTB21 REV__ENSG00000173276|ENST00000310826|ZBTB21 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 336.862325 1007.56515 2.4099 0.0008118 0.39097 0.0001317 2.8009 0.0009435 336.86245804924016 14.166 0.10626 14.814 14.77 14.876 0.64819 0.0043648 9.2679E-05 NaN 29.841 29 17 2 NaN NaN NaN NaN 0 NaN NaN 0 3091500 + 13800 13595 8809 8830 0.06166627103027622 KNTKIIGIQK 10 Unmodified _KNTKIIGIQK_ 0 0 0 REV__ENST00000487509.6_1_16:31199536-31202756:+|nuORF REV__ENST00000487509.6_1_16:31199536-31202756:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.581298828125 3 381.580041 1141.71829 NaN NaN NaN NaN NaN NaN NaN 46.889 1 47.541 47.041 48.041 0.65219 0 0 0 1.0001 1 21474 21474 1.5923 0.52082 1 + 13801 10696 8810 8831 15876 15876 0.15310242219493375 KNTKLVKK 8 Unmodified _KNTKLVKK_ 0 0 0 ENSG00000080709|ENST00000673685|KCNN2;nc|ENSG00000080709|Q9H2S1-2|KCNN2;nc|ENSG00000080709|Q9H2S1|KCNN2 ENSG00000080709|ENST00000673685|KCNN2 ENSG00000080709|ENST00000673685|KCNN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.2759704589844 2 479.824027 957.633501 NaN NaN NaN NaN NaN NaN NaN 73.423 1 73.682 73.182 74.182 0.25876 0 0 0 0.99035 1 33724 33724 4.756 0 1 13802 912 8811 8832 15877 15877 0.15298916473557256 KNTKPAEVSG 10 Unmodified _KNTKPAEVSG_ 0 0 0 REV__NOP2|p.H441Afs*36|1|0.29|ENSG00000111641|chr12:6560961-6560962|-/AT|frameshift_variant REV__NOP2|p.H441Afs*36|1|0.29|ENSG00000111641|chr12:6560961-6560962|-/AT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 344.1888732910156 3 344.189101 1029.54547 NaN NaN NaN NaN NaN NaN NaN 100.44 1 101.04 100.54 101.54 0.59717 0 0 0 0.99995 1 46491 46491 1.7423 0.14999 1 + 13803 11241 8812 8833 15878 15878 0.03188251092274186 KNTLKDHMRKK 11 Unmodified _KNTLKDHMRKK_ 0 0 0 ENSG00000198839|ENST00000361822|ZNF277 ENSG00000198839|ENST00000361822|ZNF277 ENSG00000198839|ENST00000361822|ZNF277 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.4573059082031 4 350.455411 1397.79254 2.3802 0.00083417 0.94992 0.00033291 3.3302 0.0011671 350.455496150304 64.041 0.6395 64.289 63.96 64.599 0.24802 50 35 2 0 0 0 0.89309 1 29321 29321 1.1098 0.70149 1 758370 13804 5948 8813 8834 15879 15879 0.10955262039374247 KNTLKDHMRKK 11 Unmodified _KNTLKDHMRKK_ 0 0 0 ENSG00000198839|ENST00000361822|ZNF277 ENSG00000198839|ENST00000361822|ZNF277 ENSG00000198839|ENST00000361822|ZNF277 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.7077941894531 4 350.455411 1397.79254 2.3902 0.00083767 0.94666 0.00033176 3.3369 0.0011694 350.45565259020645 63.293 0.90532 63.951 63.746 64.651 0.65808 85 60 2 0 0 0 0.89309 1 28989 28989 1.1098 0.65524 1 970390 13805 5948 8813 8834 15880 15880 0.10955262039374247 KNTLKDHMRKK 11 Unmodified _KNTLKDHMRKK_ 0 0 0 ENSG00000198839|ENST00000361822|ZNF277 ENSG00000198839|ENST00000361822|ZNF277 ENSG00000198839|ENST00000361822|ZNF277 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 350.455411 1397.79254 2.3902 0.00083767 0.94666 0.00033176 3.3369 0.0011694 350.45565259020645 63.293 0.90532 63.951 63.746 64.651 0.65808 -0.16892 -1.8097E-06 NaN 1.1098 85 60 2 NaN NaN NaN NaN 0 NaN NaN 0 970390 13806 5948 8813 8834 0.10955262039374247 KNTLKDSLFK 10 Unmodified _KNTLKDSLFK_ 0 0 0 SENP1|p.L366Wfs*21|1|0.29|ENSG00000079387|chr12:48065618-48065618|A/-|frameshift_variant;nc|ENSG00000079387|Q9P0U3-2|SENP1;ENSG00000079387|ENST00000549518|SENP1 SENP1|p.L366Wfs*21|1|0.29|ENSG00000079387|chr12:48065618-48065618|A/-|frameshift_variant SENP1|p.L366Wfs*21|1|0.29|ENSG00000079387|chr12:48065618-48065618|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.5685729980469 3 398.567801 1192.68157 NaN NaN NaN NaN NaN NaN NaN 71.478 1 72.181 71.681 72.681 0.70386 0 0 0 0.99812 1 34330 34330 1.5923 0.57871 1 13807 895 8814 8835 15881 15881 0.0929394560291712 KNTLKIKLARA 11 Unmodified _KNTLKIKLARA_ 0 0 0 REV__ENST00000468868.1_1_7:48017962-48019116:-|nuORF REV__ENST00000468868.1_1_7:48017962-48019116:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 314.7127685546875 4 314.710674 1254.81359 2.0736 0.00065257 1.1013 0.0003466 3.1749 0.00099918 314.96102463200185 48.877 0.44854 48.877 48.629 49.078 0 48 24 3 0 0 0 0.89309 1 22376 22376 1.1098 0.70149 1 646750 + 13808 12066 8815 8836 15882 15882 0.19637595410563335 KNTLKNVSNDA 11 Unmodified _KNTLKNVSNDA_ 0 0 0 REV__nc|ENSG00000053747|Q16787-3|LAMA3 REV__nc|ENSG00000053747|Q16787-3|LAMA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 401.88330078125 3 401.882448 1202.62551 NaN NaN NaN NaN NaN NaN NaN 59.252 1 59.252 58.752 59.752 0 0 0 0 1.0061 1 27384 27384 1.1098 0.096179 1 + 13809 10357 8816 8837 15883 15883 0.03230692695478865 KNVAKLLTSLQ 11 Unmodified _KNVAKLLTSLQ_ 0 0 0 ENST00000593450.1_1_19:22654203-22654530:+|nuORF ENST00000593450.1_1_19:22654203-22654530:+|nuORF ENST00000593450.1_1_19:22654203-22654530:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.5877685546875 3 405.587084 1213.73942 NaN NaN NaN NaN NaN NaN NaN 53.107 1 53.91 53.41 54.41 0.80351 0 0 0 1.0062 1 24206 24206 2.6312 0.72486 1 13810 9257 8817 8838 15884 15884 0.14110207528369756 KNVREVRGLL 10 Unmodified _KNVREVRGLL_ 0 0 0 ENSG00000100065|ENST00000251973|CARD10;nc|ENSG00000100065|Q9BWT7-2|CARD10;ENST00000488141.5_1_22:37887199-37892645:-|nuORF ENSG00000100065|ENST00000251973|CARD10 ENSG00000100065|ENST00000251973|CARD10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.2486572265625 3 395.247173 1182.71969 2.9237 0.0011556 0.61112 0.00024154 3.5348 0.0013971 395.24743836740134 15.913 1.1347 16.571 16.132 17.267 0.65798 275 142 3 0 0 0 0.93628 1 7226 7226 1.9064 1.2795 1 127730 13811 1171 8818 8839 15885 15885 0.13563876308285217 KNVRKKRFRKT 11 Unmodified _KNVRKKRFRKT_ 0 0 0 nc|ENSG00000102387|Q5H9L4-3|TAF7L;ENSG00000102387|ENST00000356784|TAF7L;nc|ENSG00000102387|Q5H9L4|TAF7L nc|ENSG00000102387|Q5H9L4-3|TAF7L nc|ENSG00000102387|Q5H9L4-3|TAF7L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.239013671875 4 365.987572 1459.92118 2.7157 0.0009939 -0.96614 -0.0003536 1.7495 0.0006403 365.9866756990983 49.099 0.48676 49.099 48.811 49.297 0 55 24 3 0 0 0 0.91345 1 22532 22532 0.45452 0 1 663430 13812 1344 8819 8840 15886 15886 0.2096198506460496 KNVRKKRFRKT 11 Unmodified _KNVRKKRFRKT_ 0 0 0 nc|ENSG00000102387|Q5H9L4-3|TAF7L;ENSG00000102387|ENST00000356784|TAF7L;nc|ENSG00000102387|Q5H9L4|TAF7L nc|ENSG00000102387|Q5H9L4-3|TAF7L nc|ENSG00000102387|Q5H9L4-3|TAF7L MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 365.987572 1459.92118 2.3913 0.0008752 -2.1095 -0.00077206 0.28182 0.00010314 366.23754803803865 48.398 0.54576 49.225 48.849 49.394 0.82705 0.063285 -0.00062118 NaN 0.45452 39 27 2 NaN NaN NaN NaN 0 NaN NaN 0 560560 13813 1344 8819 8840 0.2096198506460496 KNVRNAIRGR 10 Unmodified _KNVRNAIRGR_ 0 0 0 nc|ENSG00000055957|P19827-3|ITIH1;nc|ENSG00000055957|P19827-2|ITIH1;ENSG00000055957|ENST00000273283|ITIH1 nc|ENSG00000055957|P19827-3|ITIH1 nc|ENSG00000055957|P19827-3|ITIH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 395.2435607910156 3 395.242533 1182.70577 2.6554 0.0010495 -0.030024 -1.1867E-05 2.6254 0.0010377 395.24257222655723 57.757 0.22926 57.757 57.627 57.856 0 37 21 2 0 0 0 0.90778 1 26638 26638 3.3196 0 1 940460 13814 619 8820 8841 15887 15887 0.12172643599819821 KNWHRFCLKCE 11 Unmodified _KNWHRFCLKCE_ 0 0 0 nc|ENSG00000146215|Q6Q6R5-4|CRIP3;CRIP3|p.V169Sfs*32|1|0.22|ENSG00000146215|chr6:43306116-43306117|-/C|frameshift_variant;ENSG00000146215|ENST00000372569|CRIP3;nc|ENSG00000146215|Q6Q6R5-2|CRIP3;nc|ENSG00000146215|Q6Q6R5|CRIP3 nc|ENSG00000146215|Q6Q6R5-4|CRIP3 nc|ENSG00000146215|Q6Q6R5-4|CRIP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 732.3569946289062 2 732.355373 1462.69619 NaN NaN NaN NaN NaN NaN NaN 75.603 1 75.603 75.103 76.103 0 0 0 0 1.0072 1 37047 37047 1.3295 0 1 13815 245 8821 8842 15888 15888 -0.016646287921957992 KNWWIRGILT 10 Unmodified _KNWWIRGILT_ 0 0 0 CDS1|p.F178Kfs*30|1|0.06|ENSG00000163624|chr4:84619484-84619485|-/AAGACCAATTCAAGATATAT|frameshift_variant;ENSG00000163624|ENST00000295887|CDS1 CDS1|p.F178Kfs*30|1|0.06|ENSG00000163624|chr4:84619484-84619485|-/AAGACCAATTCAAGATATAT|frameshift_variant CDS1|p.F178Kfs*30|1|0.06|ENSG00000163624|chr4:84619484-84619485|-/AAGACCAATTCAAGATATAT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 429.5848083496094 3 429.583785 1285.72953 NaN NaN NaN NaN NaN NaN NaN 73.371 1 74.07 73.57 74.57 0.69881 0 0 0 1.0003 1 35371 35371 0.62683 0 1 13816 112 8822 8843 15889 15889 0.09809064313640192 KNYAKYEFF 9 Unmodified _KNYAKYEFF_ 0 0 0 nc|ENSG00000106070|Q13322-3|GRB10;nc|ENSG00000106070|Q13322-2|GRB10;nc|ENSG00000106070|Q13322-4|GRB10;ENSG00000106070|ENST00000401949|GRB10;ENST00000469573.1_1_2:165365242-165383622:-|nuORF;ENST00000488342.5_1_2:165365032-165477819:-|nuORF;nc|ENSG00000115290|Q14449-2|GRB14;ENSG00000115290|ENST00000263915|GRB14 nc|ENSG00000106070|Q13322-3|GRB10 nc|ENSG00000106070|Q13322-3|GRB10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.8709716796875 3 403.86948 1208.58661 2.7762 0.0011212 0.39167 0.00015818 3.1679 0.0012794 403.8696007976658 44.372 0.20579 44.641 44.56 44.766 0.2694 14 6 3 0 0 0 0.95612 1 20319 20319 2.7352 0.82882 1 607660 13817 1551 8823 8844 15890 15890 -0.009339878682794733 KNYIIKCL 8 Unmodified _KNYIIKCL_ 0 0 0 ENSG00000152463|ENST00000378228|OLAH;nc|ENSG00000152463|Q9NV23-2|OLAH ENSG00000152463|ENST00000378228|OLAH ENSG00000152463|ENST00000378228|OLAH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 332.5315246582031 3 332.196651 993.568123 NaN NaN NaN NaN NaN NaN NaN 31.318 1 32.106 31.606 32.606 0.78879 0 0 0 0.9851 1 14142 14142 6.7232 0 1 13818 3747 8824 8845 15891 15891 0.07108178956207212 KNYPVHIGV 9 Unmodified _KNYPVHIGV_ 0 0 0 nc|ENSG00000177138|Q8IZU0-2|FAM9B nc|ENSG00000177138|Q8IZU0-2|FAM9B nc|ENSG00000177138|Q8IZU0-2|FAM9B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.19903564453125 3 342.862548 1025.56581 2.6402 0.00090523 2.2402 0.0007681 4.8805 0.0016733 342.86297032130244 40.404 0.68154 40.673 40.324 41.006 0.26904 41 27 2 0 0 0 0.98132 1 18315 18315 2.4985 0.41248 1 2529000 13819 9761 8825 8846 15892 15892 0.05405466542742943 KNYPVHIGV 9 Unmodified _KNYPVHIGV_ 0 0 0 nc|ENSG00000177138|Q8IZU0-2|FAM9B nc|ENSG00000177138|Q8IZU0-2|FAM9B nc|ENSG00000177138|Q8IZU0-2|FAM9B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 342.86358642578125 3 342.862548 1025.56581 2.6794 0.00091866 1.1381 0.0003902 3.8174 0.0013089 342.8627556025535 40.936 0.22324 41.205 41.006 41.229 0.26904 31 19 2 0 0 0 0.98132 1 18620 18620 2.4985 0.59211 1 2980600 13820 9761 8825 8846 15893 15893 0.05405466542742943 KNYPVHIGV 9 Unmodified _KNYPVHIGV_ 0 0 0 nc|ENSG00000177138|Q8IZU0-2|FAM9B nc|ENSG00000177138|Q8IZU0-2|FAM9B nc|ENSG00000177138|Q8IZU0-2|FAM9B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 342.86456298828125 3 342.862548 1025.56581 NaN NaN NaN NaN NaN NaN NaN 40.317 1 40.958 40.458 41.458 0.64136 0 0 0 0.89683 1 18427 18427 2.4985 0.21571 1 13821 9761 8825 8846 15894 15894 0.05405466542742943 KPAAKAKSGFI 11 Unmodified _KPAAKAKSGFI_ 0 0 0 REV__ENSG00000168615|ENST00000487273|ADAM9 REV__ENSG00000168615|ENST00000487273|ADAM9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.3184204101562 2 559.340041 1116.66553 NaN NaN NaN NaN NaN NaN NaN 64.275 1 64.275 63.775 64.775 0 0 0 0 0.92731 1 30414 30414 13.615 4.2317 1 + 13822 13358 8826 8847 15895 15895 0.11186284156701731 KPAAKAKSGFI 11 Unmodified _KPAAKAKSGFI_ 0 0 0 REV__ENSG00000168615|ENST00000487273|ADAM9 REV__ENSG00000168615|ENST00000487273|ADAM9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.3170776367188 2 559.340041 1116.66553 NaN NaN NaN NaN NaN NaN NaN 60.652 1 61.391 60.891 61.891 0.7396 0 0 0 0.92731 1 28023 28023 13.615 2.7909 1 + 13823 13358 8826 8847 15896 15896 0.11186284156701731 KPAAKAKSGFI 11 Unmodified _KPAAKAKSGFI_ 0 0 0 REV__ENSG00000168615|ENST00000487273|ADAM9 REV__ENSG00000168615|ENST00000487273|ADAM9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.61767578125 2 559.340041 1116.66553 NaN NaN NaN NaN NaN NaN NaN 77.452 1 78.013 77.513 78.513 0.56091 0 0 0 0.92731 1 37570 37570 13.615 4.8695 1 + 13824 13358 8826 8847 15897 15897 0.11186284156701731 KPAALPYW 8 Unmodified _KPAALPYW_ 0 0 0 ENST00000483834.1_1_3:52273291-52274234:+|nuORF ENST00000483834.1_1_3:52273291-52274234:+|nuORF ENST00000483834.1_1_3:52273291-52274234:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.2646484375 2 473.263271 944.511988 3.118 0.0014757 -0.045176 -2.138E-05 3.0729 0.0014543 473.2632292249736 13.528 0.26729 14.177 14.042 14.31 0.64819 32 18 3 0 0 0 0.70146 1 6075 6075 5.7604 0 1 138320 13825 8319 8827 8848 15898 15898 0.03751294111032166 KPAEARTR 8 Unmodified _KPAEARTR_ 0 0 0 REV__ENST00000545698.1_1_12:104359681-104373925:+|nuORF REV__ENST00000545698.1_1_12:104359681-104373925:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.7714538574219 2 464.769783 927.525013 2.7611 0.0012833 0.53413 0.00024825 3.2952 0.0015315 464.769925684469 78.514 0.3464 79.176 78.958 79.305 0.66198 52 22 3 0 0 0 0.67495 2 36160 36160;36208 7.9102 3.5809 1 1448500 + 13826 17248 8828 8849 15899;15900 15899 0.05835125223120485 KPAEARTR 8 Unmodified _KPAEARTR_ 0 0 0 REV__ENST00000545698.1_1_12:104359681-104373925:+|nuORF REV__ENST00000545698.1_1_12:104359681-104373925:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 464.769783 927.525013 2.7611 0.0012833 0.53413 0.00024825 3.2952 0.0015315 464.769925684469 78.514 0.3464 79.176 78.958 79.305 0.66198 0.024905 -2.4934E-05 NaN 7.9102 52 22 3 NaN NaN NaN NaN 0 NaN NaN 0 1448500 + 13827 17248 8828 8849 0.05835125223120485 KPAGHCHG 8 Unmodified _KPAGHCHG_ 0 0 0 ENST00000378182.3_1_13:50571396-50571693:+|nuORF ENST00000378182.3_1_13:50571396-50571693:+|nuORF ENST00000378182.3_1_13:50571396-50571693:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 806.3759765625 1 806.372617 805.365341 4.1596 0.0033542 1.4492 0.0011686 5.6088 0.0045228 806.3734255844985 103.65 0.028702 104.24 104.22 104.25 0.59822 5 3 2 0 0 0 0.7471 1 47944 47944 0 0 1 297820 13828 7428 8829 8850 15901 15901 -0.04512706325692761 KPAKAANR 8 Unmodified _KPAKAANR_ 0 0 0 ENSG00000171368|ENST00000360578|TPPP ENSG00000171368|ENST00000360578|TPPP ENSG00000171368|ENST00000360578|TPPP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 427.92962646484375 2 428.261594 854.508634 NaN NaN NaN NaN NaN NaN NaN 66.039 1 66.039 65.539 66.539 0 0 0 0 0.967 1 31508 31508 7.9102 2.6795 1 13829 4799 8830 8851 15902 15902 0.07556044057025701 KPAKAMDD 8 Unmodified _KPAKAMDD_ 0 0 0 REV__nc|ENSG00000134369|Q8NEY1-7|NAV1 REV__nc|ENSG00000134369|Q8NEY1-7|NAV1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 438.22015380859375 2 438.218203 874.421853 NaN NaN NaN NaN NaN NaN NaN 66.647 1 67.352 66.852 67.852 0.7047 0 0 0 0.89651 1 31609 31609 12.532 7.3009 1 + 13830 11963 8831 8852 15903 15903 -0.02038123279703541 KPAKKKKVE 9 Unmodified _KPAKKKKVE_ 0 0 0 REV__ENSG00000182329|ENST00000498697|KIAA2012 REV__ENSG00000182329|ENST00000498697|KIAA2012 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.2463989257812 2 528.350409 1054.68626 NaN NaN NaN NaN NaN NaN NaN 61.336 1 62.075 61.575 62.575 0.7396 0 0 0 0.8984 1 28425 28425 3.9444 0.66309 1 + 13831 13887 8832 8853 15904 15904 0.16110874536366282 KPAKKRKT 8 Unmodified _KPAKKRKT_ 0 0 0 nc|ENSG00000258469|P59074|CHMP4BP1 nc|ENSG00000258469|P59074|CHMP4BP1 nc|ENSG00000258469|P59074|CHMP4BP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.5953674316406 2 478.821818 955.629084 NaN NaN NaN NaN NaN NaN NaN 60.549 1 61.289 60.789 61.789 0.7396 0 0 0 0.967 1 27956 27956 7.9102 0.62092 1 13832 9856 8833 8854 15905 15905 0.14949452050655054 KPAKRMKF 8 Unmodified _KPAKRMKF_ 0 0 0 ENSG00000164742|ENST00000297323|ADCY1 ENSG00000164742|ENST00000297323|ADCY1 ENSG00000164742|ENST00000297323|ADCY1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.5811462402344 2 503.304947 1004.59534 NaN NaN NaN NaN NaN NaN NaN 91.026 1 91.688 91.188 92.188 0.66198 0 0 0 0.99035 1 41893 41893 0.69038 0 1 13833 4341 8834 8855 15906 15906 0.09322707287242338 KPAKWKMHV 9 Unmodified _KPAKWKMHV_ 0 0 0 REV__ENSG00000179057|ENST00000513874|IGSF22 REV__ENSG00000179057|ENST00000513874|IGSF22 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1124.3846435546875 1 1124.63973 1123.63245 3.4868 0.0039214 2.2246 0.0025019 5.7114 0.0064232 1125.6434672508344 86.743 0.1069 87.419 87.342 87.449 0.67555 5 4 2 0 0 0 0.11315 1 39944 39944 1.8442 0 1 562850 + 13834 13781 8835 8856 15907 15907 0.07558378833005008 KPALEVVL 8 Unmodified _KPALEVVL_ 0 0 0 REV__ENST00000561483.5_1_15:84323016-84694242:+|nuORF REV__ENST00000561483.5_1_15:84323016-84694242:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.7813720703125 2 434.778754 867.542954 3.0125 0.0013098 0.19438 8.4511E-05 3.2069 0.0013943 434.78008068772994 37.286 1.129 37.547 36.994 38.123 0.26083 84 36 4 0 0 0 0.70146 1 17075 17075 5.7604 0 1 692050 + 13835 12768 8836 8857 15908 15908 0.10388447425293634 KPALGEQINED 11 Unmodified _KPALGEQINED_ 0 0 0 REV__ENSG00000155868|ENST00000286317|MED7 REV__ENSG00000155868|ENST00000286317|MED7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 607.6954345703125 2 607.306592 1212.59863 NaN NaN NaN NaN NaN NaN NaN 89.058 1 89.111 88.611 89.611 0.052155 0 0 0 1.0044 1 45544 45544 4.897 0.95262 1 + 13836 12753 8837 8858 15909 15909 0.0008358408429103292 KPAQEKYAL 9 Unmodified _KPAQEKYAL_ 0 0 0 L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|13|1|sense L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|13|1|sense L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|13|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.29345703125 2 524.295299 1046.57605 NaN NaN NaN NaN NaN NaN NaN 91.159 1 91.234 90.734 91.734 0.075279 0 0 0 0.62812 1 47166 47166 14.838 0 1 13837 9457 8838 8859 15910 15910 0.054620294773030764 KPAQQQRRRN 10 Unmodified _KPAQQQRRRN_ 0 0 0 REV__nc|ENSG00000205111|Q5MAI5|CDKL4 REV__nc|ENSG00000205111|Q5MAI5|CDKL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.2791137695312 2 641.365976 1280.7174 NaN NaN NaN NaN NaN NaN NaN 92.775 1 92.862 92.362 93.362 0.086212 0 0 0 0.99464 1 48448 48448 6.2058 0 1 + 13838 18112 8839 8860 15911 15911 0.08826840623191856 KPARLSRAAAP 11 Unmodified _KPARLSRAAAP_ 0 0 0 ENST00000606895.1_1_17:62206992-62207148:-|nuORF ENST00000606895.1_1_17:62206992-62207148:-|nuORF ENST00000606895.1_1_17:62206992-62207148:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.6490478515625 2 569.346189 1136.67783 NaN NaN NaN NaN NaN NaN NaN 80.717 1 81.377 80.877 81.877 0.65998 0 0 0 1.0063 1 37193 37193 2.4985 0.43874 1 13839 9330 8840 8861 15912 15912 0.11495320619746963 KPARRLPLKY 10 Unmodified _KPARRLPLKY_ 0 0 0 REV__nc|ENSG00000240021|Q5T0J7-4|TEX35 REV__nc|ENSG00000240021|Q5T0J7-4|TEX35 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 621.3931884765625 2 621.395682 1240.77681 NaN NaN NaN NaN NaN NaN NaN 107.69 1 108.3 107.8 108.8 0.6019 0 0 0 1.0013 1 49701 49701 1.4819 1.0812 1 + 13840 14604 8841 8862 15913 15913 0.16605343584637922 KPATKRLPRC 10 Unmodified _KPATKRLPRC_ 0 0 0 REV__ENST00000606975.1_1_8:163470-182153:-|nuORF REV__ENST00000606975.1_1_8:163470-182153:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.3494873046875 2 585.350417 1168.68628 NaN NaN NaN NaN NaN NaN NaN 72.299 1 72.299 71.799 72.799 0 0 0 0 0.99807 1 35167 35167 3.2813 0 1 + 13841 17668 8842 8863 15914 15914 0.10868551264707094 KPAYPIVM 8 Unmodified _KPAYPIVM_ 0 0 0 REV__ENST00000304337.2_1_4:153690730-153690883:-|nuORF REV__ENST00000304337.2_1_4:153690730-153690883:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 459.75836181640625 2 459.759507 917.50446 NaN NaN NaN NaN NaN NaN NaN 54.522 1 54.522 54.022 55.022 0 0 0 0 0.99035 1 25019 25019 5.2307 0.47466 1 + 13842 15218 8843 8864 15915 15915 0.042408185191106895 KPDLRRRQRE 10 Unmodified _KPDLRRRQRE_ 0 0 0 REV__ENST00000368218.8_2_1:156698707-156698803:+|nuORF REV__ENST00000368218.8_2_1:156698707-156698803:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.3980102539062 2 677.394733 1352.77491 4.3176 0.0029247 1.035 0.00070108 5.3526 0.0036258 677.3953216074376 92.343 0.54459 92.596 92.454 92.999 0.25253 47 27 2 0 0 0 0.94374 1 42494 42494 0.40072 0 1 651260 + 13843 15681 8844 8865 15916 15916 0.11263682828735 KPDLRRRQRE 10 Unmodified _KPDLRRRQRE_ 0 0 0 REV__ENST00000368218.8_2_1:156698707-156698803:+|nuORF REV__ENST00000368218.8_2_1:156698707-156698803:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 677.39794921875 2 677.394733 1352.77491 4.1436 0.0028068 0.75453 0.00051112 4.8981 0.0033179 677.3953482414703 93.102 1.3537 93.749 92.874 94.228 0.64715 130 69 3 0 0 0 0.94165 1 42707 42707 1.3295 1.3295 1 1325000 + 13844 15681 8844 8865 15917 15917 0.11263682828735 KPDRRKRSRP 10 Unmodified _KPDRRKRSRP_ 0 0 0 ENSG00000163930|ENST00000460680|BAP1 ENSG00000163930|ENST00000460680|BAP1 ENSG00000163930|ENST00000460680|BAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 648.3953247070312 2 648.391993 1294.76943 4.6094 0.0029887 0.089216 5.7847E-05 4.6986 0.0030465 648.391892784423 100.55 0.10534 100.86 100.81 100.91 0.31412 12 3 5 0 0 0 0.94165 1 46524 46524 1.3295 0 1 6192000 13845 4262 8845 8866 15918 15918 0.13384004036925035 KPDTWDWTWP 10 Unmodified _KPDTWDWTWP_ 0 0 0 REV__ENST00000392845.7_1_3:155571713-155572157:-|nuORF REV__ENST00000392845.7_1_3:155571713-155572157:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 666.3067016601562 2 666.306395 1330.59824 NaN NaN NaN NaN NaN NaN NaN 83.693 1 83.94 83.44 84.44 0.24722 0 0 0 1.0015 1 38523 38523 0.40072 0 1 + 13846 15937 8846 8867 15919 15919 -0.0538379084493954 KPEGKDYAL 9 Unmodified _KPEGKDYAL_ 0 0 0 ENSG00000102054|ENST00000380087|RBBP7;nc|ENSG00000102054|Q16576-2|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 340.8511047363281 3 340.850197 1019.52876 2.4397 0.00083157 0.26743 9.1153E-05 2.7071 0.00092272 340.85027152100133 17.626 0.41163 17.626 17.475 17.886 0 55 25 3 0 0 0 0.31604 1 7807 7807 15.739 6.1946 1 276260 13847 1328 8847 8868 15920 15920 0.01977750206322071 KPEGKDYAL 9 Unmodified _KPEGKDYAL_ 0 0 0 ENSG00000102054|ENST00000380087|RBBP7;nc|ENSG00000102054|Q16576-2|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 340.8511962890625 3 340.850197 1019.52876 2.1928 0.00074742 -0.1816 -6.1897E-05 2.0112 0.00068552 340.8500689490166 17.039 0.18081 17.239 17.138 17.319 0.20057 34 20 2 0 0 0 0.96953 1 7559 7559 4.5289 0 1 201880 13848 1328 8847 8868 15921 15921 0.01977750206322071 KPEGKDYAL 9 Unmodified _KPEGKDYAL_ 0 0 0 ENSG00000102054|ENST00000380087|RBBP7;nc|ENSG00000102054|Q16576-2|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.7740478515625 2 510.771657 1019.52876 3.4199 0.0017468 1.136 0.00058023 4.5559 0.002327 510.7722824393153 15.046 0.58512 15.7 15.525 16.11 0.65356 137 67 3 0 0 0 0.38625 1 6809 6809 10.074 3.8681 1 282780 13849 1328 8847 8868 15922 15922 0.01977750206322071 KPEGKDYAL 9 Unmodified _KPEGKDYAL_ 0 0 0 ENSG00000102054|ENST00000380087|RBBP7;nc|ENSG00000102054|Q16576-2|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 510.771657 1019.52876 3.1171 0.0015921 0.69064 0.00035276 3.8077 0.0019449 510.77205474149247 15.129 0.33021 15.436 15.246 15.576 0.3069 -0.13178 -0.00022195 NaN 10.074 60 34 2 NaN NaN NaN NaN 0 NaN NaN 0 124250 13850 1328 8847 8868 0.01977750206322071 KPEGQGWES 9 Unmodified _KPEGQGWES_ 0 0 0 nc|ENSG00000219186|P0C7X4|FTH1P19 nc|ENSG00000219186|P0C7X4|FTH1P19 nc|ENSG00000219186|P0C7X4|FTH1P19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.23590087890625 2 509.235439 1016.45632 NaN NaN NaN NaN NaN NaN NaN 43.762 1 43.762 43.262 44.262 0 0 0 0 0.75166 1 19961 19961 10.824 0 1 13851 9832 8848 8869 15923 15923 -0.05124583867234378 KPEKLLSIKLR 11 Unmodified _KPEKLLSIKLR_ 0 0 0 REV__ENST00000468327.1_1_3:160099503-160102388:-|nuORF REV__ENST00000468327.1_1_3:160099503-160102388:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 662.9384765625 2 662.937379 1323.86021 NaN NaN NaN NaN NaN NaN NaN 44.596 1 44.596 44.096 45.096 0 0 0 0 1.0061 1 20386 20386 2.7352 1.2533 1 + 13852 10465 8849 8870 15924 15924 0.21123035241839716 KPENWDVWYES 11 Unmodified _KPENWDVWYES_ 0 0 0 nc|ENSG00000181744|Q8NDZ4-2|DIPK2A;ENSG00000181744|ENST00000315691|DIPK2A nc|ENSG00000181744|Q8NDZ4-2|DIPK2A nc|ENSG00000181744|Q8NDZ4-2|DIPK2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 726.8245239257812 2 726.825149 1451.63574 NaN NaN NaN NaN NaN NaN NaN 77.182 1 77.182 76.682 77.682 0 0 0 0 1.0074 1 37841 37841 1.0715 0.67075 1 13853 5298 8850 8871 15925 15925 -0.07200744369924905 KPEQMWFFLRK 11 Unmodified _KPEQMWFFLRK_ 0 0 0 REV__ENSG00000130706|ENST00000253003|ADRM1 REV__ENSG00000130706|ENST00000253003|ADRM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.067138671875 3 503.939352 1508.79623 NaN NaN NaN NaN NaN NaN NaN 71.487 1 71.487 70.987 71.987 0 0 0 0 1.0074 1 34750 34750 0.36667 0 1 + 13854 11828 8851 8872 15926 15926 0.062179318132393746 KPERERKQKL 10 Unmodified _KPERERKQKL_ 0 0 0 ENST00000338087.9_1_8:134050282-134050504:-|nuORF ENST00000338087.9_1_8:134050282-134050504:-|nuORF ENST00000338087.9_1_8:134050282-134050504:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.9334411621094 3 437.933366 1310.77827 NaN NaN NaN NaN NaN NaN NaN 16.709 1 16.909 16.409 17.409 0.20057 0 0 0 1.0015 1 7384 7384 0.13989 0 1 13855 7044 8852 8873 15927 15927 0.13530932882736124 KPERRRPKG 9 Unmodified _KPERRRPKG_ 0 0 0 ENSG00000119630|ENST00000555567|PGF;nc|ENSG00000119630|P49763-4|PGF;ENST00000555253.1_1_14:75412914-75413107:-|nuORF ENSG00000119630|ENST00000555567|PGF ENSG00000119630|ENST00000555567|PGF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.3443603515625 2 562.343981 1122.67341 3.6794 0.0020691 -1.1646 -0.00065488 2.5149 0.0014142 562.3429618694144 82.831 0.56666 83.491 83.108 83.674 0.66019 39 30 2 0 0 0 1.2126 1 38054 38054 0.52476 0 1 533410 13856 2153 8853 8874 15928 15928 0.11697856196815337 KPESNEQVL 9 Unmodified _KPESNEQVL_ 0 0 0 ENSG00000165832|ENST00000298746|TRUB1 ENSG00000165832|ENST00000298746|TRUB1 ENSG00000165832|ENST00000298746|TRUB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.2742919921875 2 522.272021 1042.52949 3.2994 0.0017232 0.16687 8.7151E-05 3.4663 0.0018104 522.2720718967341 21.143 0.36518 21.143 20.982 21.347 0 69 28 3 0 0 0 0.053453 3 9431 9431;9473;9518 45.7 11.597 1 711500 13857 4427 8854 8875 15929;15930;15931 15929 0.009925448553985916 KPESNEQVL 9 Unmodified _KPESNEQVL_ 0 0 0 ENSG00000165832|ENST00000298746|TRUB1 ENSG00000165832|ENST00000298746|TRUB1 ENSG00000165832|ENST00000298746|TRUB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.2742309570312 2 522.272021 1042.52949 3.503 0.0018295 0.65726 0.00034327 4.1602 0.0021728 522.2723578674984 20.2 0.47807 20.854 20.645 21.123 0.65346 91 39 3 0 0 0 0.021401 3 9148 9148;9194;9236 66.457 22.598 1 569640 13858 4427 8854 8875 15932;15933;15934 15932 0.009925448553985916 KPFALFYKKY 10 Unmodified _KPFALFYKKY_ 0 0 0 REV__ENST00000393077.2_1_10:114575795-114575879:+|nuORF REV__ENST00000393077.2_1_10:114575795-114575879:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 652.8748779296875 2 652.873717 1303.73288 4.1159 0.0026871 -0.35774 -0.00023356 3.7581 0.0024536 652.8731353862092 91.525 0.39267 92.187 91.915 92.308 0.66198 24 17 2 0 0 0 0.93713 1 42061 42061 1.4819 0.28856 1 493750 + 13859 15941 8855 8876 15935 15935 0.0931631436767475 KPFHHQFV 8 Unmodified _KPFHHQFV_ 0 0 0 REV__ENSG00000198853|ENST00000361226|RUSC2 REV__ENSG00000198853|ENST00000361226|RUSC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.2781372070312 2 520.277244 1038.53993 3.6093 0.0018778 -1.6339 -0.00085006 1.9754 0.0010278 520.2763548142538 87.47 0.26427 87.72 87.533 87.797 0.25064 18 11 2 0 0 0 0.71384 1 40281 40281 4.756 0 1 396810 + 13860 14369 8856 8877 15936 15936 0.022206170911204026 KPFLIKRLEL 10 Unmodified _KPFLIKRLEL_ 0 0 0 REV__ENSG00000173208|ENST00000308666|ABCD2 REV__ENSG00000173208|ENST00000308666|ABCD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 629.2322387695312 2 628.908091 1255.80163 NaN NaN NaN NaN NaN NaN NaN 84.874 1 85.122 84.622 85.622 0.24757 0 0 0 1.0015 1 39061 39061 0.40072 0 1 + 13861 13587 8857 8878 15937 15937 0.18395978667376767 KPFLKKLVEKA 11 Unmodified _KPFLKKLVEKA_ 0 0 0 REV__nc|ENSG00000126777|Q86UP2-2|KTN1 REV__nc|ENSG00000126777|Q86UP2-2|KTN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 650.9203491210938 2 650.921198 1299.82784 NaN NaN NaN NaN NaN NaN NaN 57.727 1 57.727 57.227 58.227 0 0 0 0 1.0073 1 26617 26617 1.1933 0 1 + 13862 11719 8858 8879 15938 15938 0.18992247838832554 KPFNKLIEKI 10 Unmodified _KPFNKLIEKI_ 0 0 0 REV__ENSG00000156017|ENST00000376834|CARNMT1 REV__ENSG00000156017|ENST00000376834|CARNMT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 615.386962890625 2 615.384448 1228.75434 NaN NaN NaN NaN NaN NaN NaN 87.271 1 87.271 86.771 87.771 0 0 0 0 0.99774 1 44957 44957 3.5965 0.31518 1 + 13863 12759 8859 8880 15939 15939 0.14911699396361655 KPFQIKKL 8 Unmodified _KPFQIKKL_ 0 0 0 REV__ENST00000527544.5_1_11:65480238-65482390:+|nuORF REV__ENST00000527544.5_1_11:65480238-65482390:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.3274841308594 2 501.328945 1000.64334 NaN NaN NaN NaN NaN NaN NaN 79.659 1 79.911 79.411 80.411 0.25127 0 0 0 0.99035 1 36680 36680 2.3027 0.24298 1 + 13864 13577 8860 8881 15940 15940 0.14304104478935642 KPFQLQLQ 8 Unmodified _KPFQLQLQ_ 0 0 0 REV__ENSG00000198746|ENST00000361720|GPATCH3 REV__ENSG00000198746|ENST00000361720|GPATCH3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.2930908203125 2 501.292559 1000.57057 NaN NaN NaN NaN NaN NaN NaN 16.658 1 16.658 16.158 17.158 0 0 0 0 0.99035 1 7385 7385 2.3027 0.24298 1 + 13865 14355 8861 8882 15941 15941 0.07030350685522535 KPFRFLRACK 10 Unmodified _KPFRFLRACK_ 0 0 0 REV__ENST00000233813.4_1_2:217538645-217538780:-|nuORF REV__ENST00000233813.4_1_2:217538645-217538780:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.3729248046875 2 633.36861 1264.72267 4.3306 0.0027429 0.76858 0.00048679 5.0992 0.0032297 633.3691355742404 92.926 1.1022 93.181 92.701 93.803 0.25497 140 57 3 0 0 0 0.93713 1 42666 42666 1.4819 1.4819 1 1333400 + 13866 14865 8862 8883 15942 15942 0.1008942816142735 KPFVLKLP 8 Unmodified _KPFVLKLP_ 0 0 0 ENSG00000154240|ENST00000535342|CEP112;ENST00000580624.1_1_17:64172908-64188196:-|nuORF ENSG00000154240|ENST00000535342|CEP112 ENSG00000154240|ENST00000535342|CEP112 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 314.7125549316406 3 314.544268 940.610974 2.0125 0.00063303 0.76822 0.00024164 2.7808 0.00087467 314.5444585583927 38.194 1.4664 38.828 38.212 39.678 0.63389 81 55 2 0 0 0 0.1426 1 17472 17472 1.3295 0 1 245780 13867 3812 8863 8884 15943 15943 0.13829317075942527 KPFVPAAGR 9 Unmodified _KPFVPAAGR_ 0 0 0 REV__ENST00000506161.5_1_5:176923705-176923774:-|nuORF REV__ENST00000506161.5_1_5:176923705-176923774:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 471.7789001464844 2 471.779619 941.544686 NaN NaN NaN NaN NaN NaN NaN 47.695 1 48.524 48.024 49.024 0.82915 0 0 0 0.90699 1 21730 21730 1.8442 0 1 + 13868 16930 8864 8885 15944 15944 0.07157501233893981 KPFVVSILIKK 11 Unmodified _KPFVVSILIKK_ 0 0 0 REV__MER4-int_dup1854|chrY:4104844-4107652:+|1.373527874812219|0.2382143427425708|2.53|399.0|215|3|anti-sense REV__MER4-int_dup1854|chrY:4104844-4107652:+|1.373527874812219|0.2382143427425708|2.53|399.0|215|3|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 636.4248657226562 2 636.426116 1270.83768 NaN NaN NaN NaN NaN NaN NaN 92.538 1 93.185 92.685 93.685 0.64714 0 0 0 1.008 1 42575 42575 0.30703 0.30703 1 + 13869 17830 8865 8886 15945 15945 0.21309435844204927 KPFYYIWQRLT 11 Unmodified _KPFYYIWQRLT_ 0 0 0 REV__nc|ENSG00000095110|Q8N323-2|NXPE1 REV__nc|ENSG00000095110|Q8N323-2|NXPE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 757.9112548828125 2 757.911362 1513.80817 NaN NaN NaN NaN NaN NaN NaN 94.797 1 94.879 94.379 95.379 0.082001 0 0 0 1.0074 1 49961 49961 1.0715 0.67075 1 + 13870 10758 8866 8887 15946 15946 0.07181871828061048 KPGARGLPGPR 11 Unmodified _KPGARGLPGPR_ 0 0 0 ENSG00000196739|ENST00000356083|COL27A1;ENST00000485397.1_1_9:117002547-117008196:+|nuORF;ENST00000494090.6_1_9:116999272-117027356:+|nuORF ENSG00000196739|ENST00000356083|COL27A1 ENSG00000196739|ENST00000356083|COL27A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.3348999023438 2 553.333082 1104.65161 3.7014 0.0020481 -1.0256 -0.00056748 2.6759 0.0014806 553.3324941925989 91.565 0.87646 92.226 91.995 92.871 0.66198 122 43 4 0 0 0 0.91111 1 42073 42073 1.1933 0.59184 1 4138000 13871 5775 8867 8888 15947 15947 0.10347051448297861 KPGEQLPVKK 10 Unmodified _KPGEQLPVKK_ 0 0 0 REV__PTPN12|p.F450Lfs*7|1|0.28|ENSG00000127947|chr7:77627026-77627026|T/-|frameshift_variant REV__PTPN12|p.F450Lfs*7|1|0.28|ENSG00000127947|chr7:77627026-77627026|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.344970703125 2 562.345323 1122.67609 NaN NaN NaN NaN NaN NaN NaN 83.256 1 83.503 83.003 84.003 0.24722 0 0 0 1.0003 1 38325 38325 1.4819 0 1 + 13872 11750 8868 8889 15948 15948 0.11966266811100468 KPGERKVKYHR 11 Unmodified _KPGERKVKYHR_ 0 0 0 REV__ENST00000602007.5_1_19:4325153-4327375:-|nuORF REV__ENST00000602007.5_1_19:4325153-4327375:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.60968017578125 3 466.608993 1396.80515 1.4881 0.00069434 -0.89912 -0.00041954 0.58893 0.0002748 466.60860093539856 106.03 0.13359 106.08 106.03 106.16 0.04837 12 5 3 0 0 0 0.91111 1 57383 57383 0.40827 0.26837 1 1861600 + 13873 13751 8869 8890 15949 15949 0.12262041493909237 KPGERKVKYHR 11 Unmodified _KPGERKVKYHR_ 0 0 0 REV__ENST00000602007.5_1_19:4325153-4327375:-|nuORF REV__ENST00000602007.5_1_19:4325153-4327375:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.609619140625 3 466.608993 1396.80515 3.0527 0.0014244 -1.7501 -0.00081661 1.3026 0.0006078 466.60797822288487 105.9 0.16968 106.5 106.41 106.58 0.59969 17 6 4 0 0 0 0.91111 1 48907 48907 0.40827 0 1 1691300 + 13874 13751 8869 8890 15950 15950 0.12262041493909237 KPGERKVKYHR 11 Unmodified _KPGERKVKYHR_ 0 0 0 REV__ENST00000602007.5_1_19:4325153-4327375:-|nuORF REV__ENST00000602007.5_1_19:4325153-4327375:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 466.608993 1396.80515 2.4325 0.001135 -1.2488 -0.00058268 1.1838 0.00055236 466.60820054930804 105.93 0.14185 105.93 105.85 105.99 0 -0.077306 -0.00030283 NaN 0.40827 13 5 3 NaN NaN NaN NaN 0 NaN NaN 0 1779700 + 13875 13751 8869 8890 0.12262041493909237 KPGERKVKYHR 11 Unmodified _KPGERKVKYHR_ 0 0 0 REV__ENST00000602007.5_1_19:4325153-4327375:-|nuORF REV__ENST00000602007.5_1_19:4325153-4327375:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 466.608993 1396.80515 1.4881 0.00069434 -0.89912 -0.00041954 0.58893 0.0002748 466.60860093539856 106.03 0.13359 106.08 106.03 106.16 0.04837 0.077306 0.0001866 NaN 0.40827 12 5 3 NaN NaN NaN NaN 0 NaN NaN 0 1861600 + 13876 13751 8869 8890 0.12262041493909237 KPGGRRTRFLR 11 Unmodified _KPGGRRTRFLR_ 0 0 0 nc|ENSG00000060237|Q9H4A3-7|WNK1 nc|ENSG00000060237|Q9H4A3-7|WNK1 nc|ENSG00000060237|Q9H4A3-7|WNK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 672.915283203125 2 672.410186 1342.80582 4.1327 0.0027788 -1.3281 -0.00089306 2.8045 0.0018858 672.4092272823628 91.344 0.40433 92.006 91.851 92.256 0.66198 27 17 2 0 0 0 0.91359 1 42094 42094 1.1933 0.79263 1 585490 13877 9551 8870 8891 15951 15951 0.14812880933641281 KPGILARLK 9 Unmodified _KPGILARLK_ 0 0 0 nc|ENSG00000176438|Q6ZMZ3-2|SYNE3;ENSG00000176438|ENST00000682763|SYNE3;nc|ENSG00000176438|Q6ZMZ3-3|SYNE3 nc|ENSG00000176438|Q6ZMZ3-2|SYNE3 nc|ENSG00000176438|Q6ZMZ3-2|SYNE3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.3409423828125 2 498.339844 994.665135 4.0576 0.0020221 -1.4643 -0.00072973 2.5933 0.0012924 498.3391264868096 105.57 0.12482 105.89 105.83 105.96 0.31782 6 4 2 0 0 0 1.129 1 48744 48744 1.8442 1.1539 1 985940 13878 5078 8871 8892 15952 15952 0.16758909227507957 KPGILARLK 9 Unmodified _KPGILARLK_ 0 0 0 nc|ENSG00000176438|Q6ZMZ3-2|SYNE3;ENSG00000176438|ENST00000682763|SYNE3;nc|ENSG00000176438|Q6ZMZ3-3|SYNE3 nc|ENSG00000176438|Q6ZMZ3-2|SYNE3 nc|ENSG00000176438|Q6ZMZ3-2|SYNE3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 498.339844 994.665135 3.4323 0.0017105 -0.36925 -0.00018401 3.0631 0.0015265 498.34004757605464 105.5 0.10319 106.1 106.03 106.14 0.59969 0.10594 0.00094853 NaN 1.8442 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 301510 13879 5078 8871 8892 0.16758909227507957 KPGIRQLSRLD 11 Unmodified _KPGIRQLSRLD_ 0 0 0 REV__ENST00000568312.1_1_16:29815990-29816628:+|nuORF REV__ENST00000568312.1_1_16:29815990-29816628:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.8870239257812 2 641.883136 1281.75172 4.131 0.0026516 -0.40254 -0.00025838 3.7284 0.0023932 641.8826889380277 89.752 0.99398 90.004 89.517 90.511 0.25137 91 45 3 0 0 0 0.91111 1 41410 41410 1.1933 0.12188 1 954720 + 13880 10584 8872 8893 15953 15953 0.12211243991396259 KPGIRQLSRLD 11 Unmodified _KPGIRQLSRLD_ 0 0 0 REV__ENST00000568312.1_1_16:29815990-29816628:+|nuORF REV__ENST00000568312.1_1_16:29815990-29816628:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.8843994140625 2 641.883136 1281.75172 4.2699 0.0027408 -1.0168 -0.00065269 3.2531 0.0020881 641.8823463323495 91.922 1.25 92.174 91.475 92.725 0.25253 214 60 4 0 0 0 0.91111 3 42103 42103;42150;42492 1.1933 0.12188 1 2749900 + 13881 10584 8872 8893 15954;15955;15956 15954 0.12211243991396259 KPGIRQLSRLD 11 Unmodified _KPGIRQLSRLD_ 0 0 0 REV__ENST00000568312.1_1_16:29815990-29816628:+|nuORF REV__ENST00000568312.1_1_16:29815990-29816628:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.8846435546875 2 641.883136 1281.75172 NaN NaN NaN NaN NaN NaN NaN 92.562 1 92.814 92.314 93.314 0.25253 0 0 0 1.0063 1 42549 42549 2.4985 1.0166 1 + 13882 10584 8872 8893 15957 15957 0.12211243991396259 KPGIRQLSRLD 11 Unmodified _KPGIRQLSRLD_ 0 0 0 REV__ENST00000568312.1_1_16:29815990-29816628:+|nuORF REV__ENST00000568312.1_1_16:29815990-29816628:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.8858032226562 2 641.883136 1281.75172 4.0928 0.0026271 -0.61759 -0.00039642 3.4752 0.0022307 641.8823416332649 89.355 1.5909 90.034 89.276 90.867 0.67818 114 73 3 0 0 0 0.89844 5 41126 41067;41126;41184;41233;41441 2.4985 1.427 1 1115200 + 13883 10584 8872 8893 15958;15959;15960;15961;15962 15959 0.12211243991396259 KPGIRQLSRLD 11 Unmodified _KPGIRQLSRLD_ 0 0 0 REV__ENST00000568312.1_1_16:29815990-29816628:+|nuORF REV__ENST00000568312.1_1_16:29815990-29816628:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.8849487304688 2 641.883136 1281.75172 4.1059 0.0026355 -0.88349 -0.0005671 3.2224 0.0020684 641.882377128056 91.512 1.3294 92.174 91.368 92.698 0.66198 195 68 4 0 0 0 0.91111 3 41844 41844;41896;41950 1.1933 0.12188 1 4087000 + 13884 10584 8872 8893 15963;15964;15965 15963 0.12211243991396259 KPGIRRKIR 9 Unmodified _KPGIRRKIR_ 0 0 0 REV__L1MEf_dup4433|chr6:106769503-106769719:-|1.7818743051446626|0.0926202861753642|4.27|530.0|3|2|sense REV__L1MEf_dup4433|chr6:106769503-106769719:-|1.7818743051446626|0.0926202861753642|4.27|530.0|3|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.3820190429688 2 562.380366 1122.74618 NaN NaN NaN NaN NaN NaN NaN 84.453 1 85.118 84.618 85.618 0.66566 0 0 0 0.90699 1 38900 38900 1.8442 0.36234 1 + 13885 17775 8873 8894 15966 15966 0.18971609990239813 KPGKDIRNHI 10 Unmodified _KPGKDIRNHI_ 0 0 0 ENSG00000188295|ENST00000448299|ZNF669;nc|ENSG00000188295|Q96BR6|ZNF669 ENSG00000188295|ENST00000448299|ZNF669 ENSG00000188295|ENST00000448299|ZNF669 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.3460083007812 2 589.343646 1176.67274 3.6569 0.0021552 -1.0526 -0.00062034 2.6043 0.0015348 589.3428007781714 85.853 1.1674 86.102 85.297 86.464 0.24857 90 61 2 0 0 0 0.93713 1 39394 39394 1.4819 0.41044 1 2003500 13886 5662 8874 8895 15967 15967 0.09147016757128767 KPGKDIRNHI 10 Unmodified _KPGKDIRNHI_ 0 0 0 ENSG00000188295|ENST00000448299|ZNF669;nc|ENSG00000188295|Q96BR6|ZNF669 ENSG00000188295|ENST00000448299|ZNF669 ENSG00000188295|ENST00000448299|ZNF669 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.3463134765625 2 589.343646 1176.67274 3.7944 0.0022362 -0.82187 -0.00048436 2.9726 0.0017519 589.3431749824819 85.362 0.99276 86.028 85.601 86.594 0.66566 90 49 2 0 0 0 0.93713 3 39294 39294;39393;39498 1.4819 0.95714 1 1078600 13887 5662 8874 8895 15968;15969;15970 15968 0.09147016757128767 KPGKDIRNHI 10 Unmodified _KPGKDIRNHI_ 0 0 0 ENSG00000188295|ENST00000448299|ZNF669;nc|ENSG00000188295|Q96BR6|ZNF669 ENSG00000188295|ENST00000448299|ZNF669 ENSG00000188295|ENST00000448299|ZNF669 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.3461303710938 2 589.343646 1176.67274 3.8184 0.0022503 -0.90612 -0.00053402 2.9123 0.0017163 589.3430058868945 87.609 1.6161 88.285 87.488 89.104 0.67555 193 74 4 0 0 0 0.93713 8 40112 40112;40162;40265;40418;40510;40564;40613;40673 1.4819 0.95714 1 4219400 13888 5662 8874 8895 15971;15972;15973;15974;15975;15976;15977;15978 15971 0.09147016757128767 KPGKDIRNHI 10 Unmodified _KPGKDIRNHI_ 0 0 0 ENSG00000188295|ENST00000448299|ZNF669;nc|ENSG00000188295|Q96BR6|ZNF669 ENSG00000188295|ENST00000448299|ZNF669 ENSG00000188295|ENST00000448299|ZNF669 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.3450317382812 2 589.343646 1176.67274 3.821 0.0022519 -0.57954 -0.00034155 3.2415 0.0019103 589.3430143066869 88.579 0.75498 89.258 89.081 89.836 0.67818 74 32 3 0 0 0 0.93713 3 40726 40726;40825;40875 1.4819 1.4819 1 1294300 13889 5662 8874 8895 15979;15980;15981 15979 0.09147016757128767 KPGKKGER 8 Unmodified _KPGKKGER_ 0 0 0 REV__nc|ENSG00000167291|Q8TBP0-4|TBC1D16 REV__nc|ENSG00000167291|Q8TBP0-4|TBC1D16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.2754821777344 2 450.274701 898.534849 1.8534 0.00083455 0.26539 0.0001195 2.1188 0.00095405 450.27469641160707 88.561 0.34267 88.613 88.406 88.749 0.052147 100 46 3 0 0 0 0.7441 1 45036 45036 2.3027 0 1 37735000 + 13890 13283 8875 8896 15982 15982 0.08152313228515595 KPGKREQP 8 Unmodified _KPGKREQP_ 0 0 0 REV__ENST00000518067.5_1_8:25309042-25315859:-|nuORF REV__ENST00000518067.5_1_8:25309042-25315859:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.2739562988281 2 470.272158 938.529764 NaN NaN NaN NaN NaN NaN NaN 86.423 1 87.094 86.594 87.594 0.67061 0 0 0 0.99035 1 39797 39797 4.756 0.42677 1 + 13891 17027 8876 8897 15983 15983 0.058040093658974 KPGLGWKR 8 Unmodified _KPGLGWKR_ 0 0 0 REV__ENSG00000130826|ENST00000369550|DKC1 REV__ENSG00000130826|ENST00000369550|DKC1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.71282958984375 3 314.5275 940.56067 2.1576 0.00067861 -0.42607 -0.00013401 1.7315 0.0005446 314.52756211914067 38.966 0.51539 39.23 39.028 39.543 0.26408 31 20 2 0 0 0 0.14244 1 17713 17713 1.4819 0 1 868770 + 13892 11834 8877 8898 15984 15984 0.08801207470787631 KPGLGWKR 8 Unmodified _KPGLGWKR_ 0 0 0 REV__ENSG00000130826|ENST00000369550|DKC1 REV__ENSG00000130826|ENST00000369550|DKC1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 314.7129821777344 3 314.5275 940.56067 2.0559 0.00064664 -0.21329 -6.7086E-05 1.8426 0.00057956 314.52741733840713 38.526 0.36623 39.16 38.97 39.336 0.63389 24 13 2 0 0 0 0.14244 1 17612 17612 1.4819 0 1 538010 + 13893 11834 8877 8898 15985 15985 0.08801207470787631 KPGLWVIL 8 Unmodified _KPGLWVIL_ 0 0 0 REV__ENST00000485336.5_1_6:53155264-53213696:-|nuORF REV__ENST00000485336.5_1_6:53155264-53213696:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.28485107421875 2 463.297114 924.579674 NaN NaN NaN NaN NaN NaN NaN 105.78 1 106.1 105.6 106.6 0.31782 0 0 0 0.99035 1 48826 48826 2.3027 1.5091 1 + 13894 10243 8878 8899 15986 15986 0.1143674404183912 KPGPLRRAH 9 Unmodified _KPGPLRRAH_ 0 0 0 ENST00000354765.6_1_6:144285946-144286364:-|nuORF ENST00000354765.6_1_6:144285946-144286364:-|nuORF ENST00000354765.6_1_6:144285946-144286364:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.3159790039062 2 516.314692 1030.61483 3.6308 0.0018746 -1.0474 -0.00054081 2.5834 0.0013338 516.3141770539413 95.204 0.5519 95.821 95.542 96.094 0.61737 112 26 6 0 0 0 1.129 3 43697 43697;43743;43796 1.8442 1.0506 1 65364000 13895 7145 8879 8900 15987;15988;15989 15987 0.10074799622361752 KPGPRPKF 8 Unmodified _KPGPRPKF_ 0 0 0 ENST00000371269.7_1_1:55316880-55317462:-|nuORF ENST00000371269.7_1_1:55316880-55317462:-|nuORF ENST00000371269.7_1_1:55316880-55317462:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 309.5251159667969 3 309.523867 925.549771 2.2425 0.0006941 1.9867 0.00061492 4.2292 0.001309 309.5241981141186 34.097 0.299 34.35 34.175 34.474 0.25389 26 12 4 0 0 0 0.71384 1 15519 15519 3.2813 1.6287 1 4504500 13896 7316 8880 8901 15990 15990 0.08401805096502812 KPGQRIIKLKR 11 Unmodified _KPGQRIIKLKR_ 0 0 0 REV__ENSG00000092978|ENST00000366935|GPATCH2 REV__ENSG00000092978|ENST00000366935|GPATCH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 668.9468383789062 2 668.948613 1335.88267 NaN NaN NaN NaN NaN NaN NaN 44.734 1 44.734 44.234 45.234 0 0 0 0 1.008 1 20453 20453 0.30703 0 1 + 13897 10750 8881 8902 15991 15991 0.22816679430093245 KPGRDTTKKRI 11 Unmodified _KPGRDTTKKRI_ 0 0 0 L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|144|3|sense L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|144|3|sense L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|144|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 650.4019165039062 2 650.39641 1298.77827 4.1142 0.0026759 -0.51135 -0.00033258 3.6028 0.0023433 650.3961305130782 91.482 1.3216 92.144 91.534 92.856 0.66198 132 63 3 0 0 0 0.91359 1 41952 41952 1.1933 0.92432 1 2244600 13898 9473 8882 8903 15992 15992 0.14082932882729438 KPGRDTTKKRI 11 Unmodified _KPGRDTTKKRI_ 0 0 0 L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|144|3|sense L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|144|3|sense L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|144|3|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 650.3982543945312 2 650.39641 1298.77827 4.1011 0.0026674 -0.50941 -0.00033132 3.5917 0.0023361 650.3957621219167 89.367 0.56169 90.045 89.836 90.397 0.67818 38 27 2 0 0 0 0.13295 1 41092 41092 1.1933 0 1 696460 13899 9473 8882 8903 15993 15993 0.14082932882729438 KPGRHSVRIT 10 Unmodified _KPGRHSVRIT_ 0 0 0 ENST00000585917.5_1_19:28284461-28284521:+|nuORF ENST00000585917.5_1_19:28284461-28284521:+|nuORF ENST00000585917.5_1_19:28284461-28284521:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.515380859375 2 575.843813 1149.67307 3.29 0.0018945 -0.41921 -0.0002414 2.8708 0.0016531 575.8435222989214 83.366 1.0367 83.613 83.296 84.333 0.24722 91 61 2 0 0 0 0.93713 1 38540 38540 1.4819 0.28856 1 441470 13900 9180 8883 8904 15994 15994 0.10422436476960684 KPGRHSVRIT 10 Unmodified _KPGRHSVRIT_ 0 0 0 ENST00000585917.5_1_19:28284461-28284521:+|nuORF ENST00000585917.5_1_19:28284461-28284521:+|nuORF ENST00000585917.5_1_19:28284461-28284521:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.845703125 2 575.843813 1149.67307 3.4294 0.0019748 -1.3655 -0.0007863 2.0639 0.0011885 575.8433308338505 85.771 1.3247 86.019 85.297 86.622 0.24857 140 68 3 0 0 0 0.85706 6 39254 39203;39254;39301;39401;39534;39650 5.7319 3.8876 1 2393700 13901 9180 8883 8904 15995;15996;15997;15998;15999;16000 15996 0.10422436476960684 KPGRHSVRIT 10 Unmodified _KPGRHSVRIT_ 0 0 0 ENST00000585917.5_1_19:28284461-28284521:+|nuORF ENST00000585917.5_1_19:28284461-28284521:+|nuORF ENST00000585917.5_1_19:28284461-28284521:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.0950927734375 2 575.843813 1149.67307 NaN NaN NaN NaN NaN NaN NaN 86.453 1 86.703 86.203 87.203 0.24974 0 0 0 0.99812 1 39788 39788 3.2813 1.6287 1 13902 9180 8883 8904 16001 16001 0.10422436476960684 KPGRHSVRIT 10 Unmodified _KPGRHSVRIT_ 0 0 0 ENST00000585917.5_1_19:28284461-28284521:+|nuORF ENST00000585917.5_1_19:28284461-28284521:+|nuORF ENST00000585917.5_1_19:28284461-28284521:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.8460083007812 2 575.843813 1149.67307 3.9029 0.0022475 -0.9819 -0.00056542 2.921 0.001682 575.8431726270851 103 0.15319 103.6 103.5 103.65 0.59821 10 4 3 0 0 0 0.93713 1 47669 47669 1.4819 0.8804 1 1478000 13903 9180 8883 8904 16002 16002 0.10422436476960684 KPGRHSVRIT 10 Unmodified _KPGRHSVRIT_ 0 0 0 ENST00000585917.5_1_19:28284461-28284521:+|nuORF ENST00000585917.5_1_19:28284461-28284521:+|nuORF ENST00000585917.5_1_19:28284461-28284521:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.8450317382812 2 575.843813 1149.67307 NaN NaN NaN NaN NaN NaN NaN 86.78 1 87.456 86.956 87.956 0.67555 0 0 0 0.9952 1 39976 39976 5.7319 4.0792 1 13904 9180 8883 8904 16003 16003 0.10422436476960684 KPGRKDTIT 9 Unmodified _KPGRKDTIT_ 0 0 0 ENSG00000188316|ENST00000341276|ENO4 ENSG00000188316|ENST00000341276|ENO4 ENSG00000188316|ENST00000341276|ENO4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.29962158203125 2 508.298373 1014.58219 4.1231 0.0020958 -0.95147 -0.00048363 3.1716 0.0016121 508.2974662281288 100.26 0.16344 100.57 100.49 100.65 0.30835 9 5 3 0 0 0 1.129 1 46393 46393 1.8442 0 1 1854100 13905 5665 8884 8905 16004 16004 0.07548547708836395 KPGRKDTIT 9 Unmodified _KPGRKDTIT_ 0 0 0 ENSG00000188316|ENST00000341276|ENO4 ENSG00000188316|ENST00000341276|ENO4 ENSG00000188316|ENST00000341276|ENO4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 508.298373 1014.58219 3.5159 0.0017871 0.445 0.00022619 3.9609 0.0020133 508.2983563638337 100.14 0.13911 100.74 100.68 100.82 0.59717 0.084297 0.00051099 NaN 1.8442 8 4 2 NaN NaN NaN NaN 0 NaN NaN 0 2326700 13906 5665 8884 8905 0.07548547708836395 KPGRSPLI 8 Unmodified _KPGRSPLI_ 0 0 0 REV__nc|ENSG00000169372|P78560-2|CRADD REV__nc|ENSG00000169372|P78560-2|CRADD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.27557373046875 2 434.27417 866.533787 NaN NaN NaN NaN NaN NaN NaN 51.318 1 51.978 51.478 52.478 0.65956 0 0 0 0.84594 1 23468 23468 15.847 0 1 + 13907 13390 8885 8906 16005 16005 0.09518098859598467 KPGRVRDELPV 11 Unmodified _KPGRVRDELPV_ 0 0 0 REV__ENSG00000153187|ENST00000640218|HNRNPU REV__ENSG00000153187|ENST00000640218|HNRNPU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3710327148438 2 633.369861 1264.72517 4.0646 0.0025744 -0.70728 -0.00044797 3.3573 0.0021264 633.369310370016 89.385 1.5481 90.063 89.107 90.655 0.67818 130 71 3 0 0 0 0.91111 3 40991 40991;41063;41352 1.1933 0.12188 1 1256400 + 13908 12672 8886 8907 16006;16007;16008 16006 0.1033955510006308 KPGRVRDELPV 11 Unmodified _KPGRVRDELPV_ 0 0 0 REV__ENSG00000153187|ENST00000640218|HNRNPU REV__ENSG00000153187|ENST00000640218|HNRNPU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3724365234375 2 633.369861 1264.72517 4.0832 0.0025862 -1.0921 -0.00069171 2.9911 0.0018945 633.3691838395806 92.5 1.1702 93.147 92.609 93.779 0.64714 142 59 3 0 0 0 0.91111 4 42390 42390;42441;42595;42642 1.1933 0.12188 1 1329200 + 13909 12672 8886 8907 16009;16010;16011;16012 16009 0.1033955510006308 KPGSKTSRL 9 Unmodified _KPGSKTSRL_ 0 0 0 REV__ENSG00000255181|ENST00000542437|CCDC166 REV__ENSG00000255181|ENST00000542437|CCDC166 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.294921875 2 487.293091 972.571629 3.3417 0.0016284 -0.075854 -3.6963E-05 3.2659 0.0015914 487.2930300654955 84.841 0.6169 85.506 85.267 85.884 0.66566 69 30 3 0 0 0 1.0246 2 39017 39017;39113 3.5965 0.31518 1 1152200 + 13910 14668 8887 8908 16013;16014 16013 0.08424565054417599 KPGSRKNI 8 Unmodified _KPGSRKNI_ 0 0 0 REV__nc|ENSG00000157965|Q7RTT4|SSX8P REV__nc|ENSG00000157965|Q7RTT4|SSX8P MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.2759704589844 2 450.274701 898.534849 3.2879 0.0014804 -0.78021 -0.00035131 2.5076 0.0011291 450.27433856428206 98.389 0.12997 98.988 98.931 99.061 0.59885 15 10 2 0 0 0 0.71911 1 45360 45360 4.3292 1.7518 1 1208500 + 13911 11717 8888 8909 16015 16015 0.08152313228504227 KPGSRKNI 8 Unmodified _KPGSRKNI_ 0 0 0 REV__nc|ENSG00000157965|Q7RTT4|SSX8P REV__nc|ENSG00000157965|Q7RTT4|SSX8P MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 450.274701 898.534849 3.2879 0.0014804 -0.78021 -0.00035131 2.5076 0.0011291 450.27433856428206 98.389 0.12997 98.988 98.931 99.061 0.59885 0.026724 0.0001984 NaN 4.3292 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 1208500 + 13912 11717 8888 8909 0.08152313228504227 KPGVTHIIFRA 11 Unmodified _KPGVTHIIFRA_ 0 0 0 REV__ENST00000369442.3_1_1:118455226-118455283:-|nuORF REV__ENST00000369442.3_1_1:118455226-118455283:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.87158203125 2 619.87204 1237.72953 NaN NaN NaN NaN NaN NaN NaN 90.461 1 90.713 90.213 91.213 0.25137 0 0 0 1.0073 1 41600 41600 1.1933 0.12188 1 + 13913 14224 8889 8910 16016 16016 0.12017064313681658 KPGVTHIIFRA 11 Unmodified _KPGVTHIIFRA_ 0 0 0 REV__ENST00000369442.3_1_1:118455226-118455283:-|nuORF REV__ENST00000369442.3_1_1:118455226-118455283:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.872314453125 2 619.87204 1237.72953 NaN NaN NaN NaN NaN NaN NaN 91.122 1 91.374 90.874 91.874 0.25163 0 0 0 0.99038 1 41901 41901 7.609 2.7119 1 + 13914 14224 8889 8910 16017 16017 0.12017064313681658 KPGVTHIIFRA 11 Unmodified _KPGVTHIIFRA_ 0 0 0 REV__ENST00000369442.3_1_1:118455226-118455283:-|nuORF REV__ENST00000369442.3_1_1:118455226-118455283:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.7698364257812 2 619.87204 1237.72953 NaN NaN NaN NaN NaN NaN NaN 91.479 1 92.141 91.641 92.641 0.66198 0 0 0 1.0073 1 42098 42098 1.1933 0.12188 1 + 13915 14224 8889 8910 16018 16018 0.12017064313681658 KPHKKPKK 8 Unmodified _KPHKKPKK_ 0 0 0 REV__ENSG00000118960|ENST00000304031|HS1BP3 REV__ENSG00000118960|ENST00000304031|HS1BP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.83502197265625 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 14.727 1 15.38 14.88 15.88 0.65356 0 0 0 0.99035 1 6635 6635 5.2307 2.6532 1 + 13916 11485 8890 8911 16019 16019 0.15458042430316254 KPHNVMID 8 Unmodified _KPHNVMID_ 0 0 0 ENSG00000254598|ENST00000528848|CSNK2A3;ENSG00000101266|ENST00000217244|CSNK2A1;ENSG00000070770|ENST00000262506|CSNK2A2;nc|ENSG00000101266|P68400-2|CSNK2A1 ENSG00000254598|ENST00000528848|CSNK2A3 ENSG00000254598|ENST00000528848|CSNK2A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.25189208984375 2 477.247295 952.480036 NaN NaN NaN NaN NaN NaN NaN 102.39 1 102.99 102.49 103.49 0.59759 0 0 0 0.99035 1 47393 47393 0.69038 0 1 13917 1278 8891 8912 16020 16020 0.0018955836558234296 KPHYRVSYEK 10 Unmodified _KPHYRVSYEK_ 0 0 0 ENSG00000151779|ENST00000281513|NBAS;nc|ENSG00000151779|A2RRP1-2|NBAS ENSG00000151779|ENST00000281513|NBAS ENSG00000151779|ENST00000281513|NBAS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 653.8484497070312 2 653.848761 1305.68297 NaN NaN NaN NaN NaN NaN NaN 54.012 1 54.807 54.307 55.307 0.79552 0 0 0 1.0004 1 24645 24645 1.3295 0.87119 1 13918 3728 8892 8913 16021 16021 0.04235579691703606 KPIIKKYTKII 11 Unmodified _KPIIKKYTKII_ 0 0 0 nc|ENSG00000133110|Q15063-4|POSTN;nc|ENSG00000133110|Q15063-2|POSTN;CON__Q2KJC7 nc|ENSG00000133110|Q15063-4|POSTN nc|ENSG00000133110|Q15063-4|POSTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 672.9525146484375 2 672.952498 1343.89044 NaN NaN NaN NaN NaN NaN NaN 17.619 1 17.619 17.119 18.119 0 0 0 0 1.008 1 7829 7829 0.30703 0 1 + 13919 230 8893 8914 16022 16022 0.23225393907023317 KPILHELISE 10 Unmodified _KPILHELISE_ 0 0 0 REV__ENST00000537553.5_1_12:30863433-30867904:-|nuORF REV__ENST00000537553.5_1_12:30863433-30867904:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.8436889648438 2 589.842613 1177.67067 NaN NaN NaN NaN NaN NaN NaN 42.99 1 42.99 42.49 43.49 0 0 0 0 1.0003 1 19572 19572 1.4819 0.95714 1 + 13920 17188 8894 8915 16023 16023 0.08894543228689145 KPILLLIRRK 10 Unmodified _KPILLLIRRK_ 0 0 0 REV__nc|ENSG00000162594|Q5VWK5-5|IL23R REV__nc|ENSG00000162594|Q5VWK5-5|IL23R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 625.3469848632812 2 625.445175 1248.8758 NaN NaN NaN NaN NaN NaN NaN 41.175 1 41.175 40.675 41.675 0 0 0 0 0.99774 1 18703 18703 3.5965 1.7523 1 + 13921 18001 8895 8916 16024 16024 0.261313665495436 KPIRHETGR 9 Unmodified _KPIRHETGR_ 0 0 0 REV__ENST00000502489.5_1_5:31983264-32077762:+|nuORF REV__ENST00000502489.5_1_5:31983264-32077762:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.3134765625 2 547.314889 1092.61522 NaN NaN NaN NaN NaN NaN NaN 99.904 1 99.967 99.467 100.47 0.062241 0 0 0 0.90111 1 54095 54095 3.2813 0.28607 1 + 13922 11933 8896 8917 16025 16025 0.072621745515562 KPIRKKRRE 9 Unmodified _KPIRKKRRE_ 0 0 0 REV__ENST00000562687.6_3_16:32769598-32772029:+|nuORF REV__ENST00000562687.6_3_16:32769598-32772029:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 605.8981323242188 2 605.89638 1209.77821 NaN NaN NaN NaN NaN NaN NaN 85.491 1 85.491 84.991 85.991 0 0 0 0 0.8984 1 43541 43541 3.9444 0.3479 1 + 13923 17384 8897 8918 16026 16026 0.1817097767341238 KPIWVDEEDE 10 Unmodified _KPIWVDEEDE_ 0 0 0 ENST00000591191.1_1_18:43608486-43608675:+|nuORF ENST00000591191.1_1_18:43608486-43608675:+|nuORF ENST00000591191.1_1_18:43608486-43608675:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 630.29296875 2 630.29315 1258.57175 NaN NaN NaN NaN NaN NaN NaN 46.369 1 46.369 45.869 46.869 0 0 0 0 1.0003 1 21223 21223 1.4819 0.15237 1 13924 9233 8898 8919 16027 16027 -0.04719524526899477 KPKAAKAKKAA 11 Unmodified _KPKAAKAKKAA_ 0 0 0 ENSG00000184357|ENST00000331442|H1-5 ENSG00000184357|ENST00000331442|H1-5 ENSG00000184357|ENST00000331442|H1-5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.64208984375 2 556.369133 1110.72371 NaN NaN NaN NaN NaN NaN NaN 66.01 1 66.01 65.51 66.51 0 0 0 0 0.99038 1 31490 31490 7.609 2.3121 1 13925 5435 8899 8920 16028 16028 0.17277965801986284 KPKAFVKLH 9 Unmodified _KPKAFVKLH_ 0 0 0 REV__nc|ENSG00000149294|P13591-5|NCAM1 REV__nc|ENSG00000149294|P13591-5|NCAM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.0073852539062 2 534.339844 1066.66514 NaN NaN NaN NaN NaN NaN NaN 63.853 1 63.853 63.353 64.353 0 0 0 0 0.77475 1 30116 30116 10.074 0.6908 1 + 13926 17980 8900 8921 16029 16029 0.13446909227491233 KPKAKHKL 8 Unmodified _KPKAKHKL_ 0 0 0 ENST00000432974.1_1_13:79483649-79483910:+|nuORF ENST00000432974.1_1_13:79483649-79483910:+|nuORF ENST00000432974.1_1_13:79483649-79483910:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.3182678222656 2 475.318912 948.62327 NaN NaN NaN NaN NaN NaN NaN 88.967 1 89.645 89.145 90.145 0.67818 0 0 0 0.99035 1 40967 40967 0.69038 0.69038 1 13927 7867 8901 8922 16030 16030 0.1469035353898107 KPKAKKKVY 9 Unmodified _KPKAKKKVY_ 0 0 0 REV__nc|ENSG00000198732|Q9H4F8|SMOC1 REV__nc|ENSG00000198732|Q9H4F8|SMOC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.4110107421875 2 545.360776 1088.707 NaN NaN NaN NaN NaN NaN NaN 62.518 1 63.249 62.749 63.749 0.73077 0 0 0 0.87786 1 29160 29160 6.7232 2.3939 1 + 13928 14353 8902 8923 16031 16031 0.1661946491603885 KPKAKKKVYRK 11 Unmodified _KPKAKKKVYRK_ 0 0 0 REV__nc|ENSG00000198732|Q9H4F8|SMOC1 REV__nc|ENSG00000198732|Q9H4F8|SMOC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 687.1288452148438 2 687.458813 1372.90307 NaN NaN NaN NaN NaN NaN NaN 72.181 1 72.885 72.385 73.385 0.70386 0 0 0 1.0061 1 34721 34721 2.7352 1.5419 1 + 13929 14353 8903 8924 16032 16032 0.23153850089920525 KPKAKVVVI 9 Unmodified _KPKAKVVVI_ 0 0 0 ENST00000375290.6_3_9:98215758-98232201:-|nuORF;nc|ENSG00000185920|Q13635-4|PTCH1;nc|ENSG00000185920|Q13635-3|PTCH1;nc|ENSG00000185920|Q13635-2|PTCH1;ENSG00000185920|ENST00000331920|PTCH1 ENST00000375290.6_3_9:98215758-98232201:-|nuORF ENST00000375290.6_3_9:98215758-98232201:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.0986633300781 2 491.344595 980.674637 NaN NaN NaN NaN NaN NaN NaN 76.293 1 76.917 76.417 77.417 0.62397 0 0 0 0.87786 1 36970 36970 6.7232 2.3939 1 13930 5542 8904 8925 16033 16033 0.18352677513041726 KPKARPLAPV 10 Unmodified _KPKARPLAPV_ 0 0 0 Tigger1_dup9926|chr14:33917986-33920131:+|2.144223155159988|0.1272725466014813|4.07|536.0|5|1|sense Tigger1_dup9926|chr14:33917986-33920131:+|2.144223155159988|0.1272725466014813|4.07|536.0|5|1|sense Tigger1_dup9926|chr14:33917986-33920131:+|2.144223155159988|0.1272725466014813|4.07|536.0|5|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.3972778320312 2 538.850576 1075.6866 NaN NaN NaN NaN NaN NaN NaN 77.99 1 77.99 77.49 78.49 0 0 0 0 0.9754 1 38279 38279 9.3831 2.66 1 13931 18273 8905 8926 16034 16034 0.15178294256202207 KPKCTVKHWVK 11 Unmodified _KPKCTVKHWVK_ 0 0 0 REV__Harlequin-int_dup204|chr5:139526721-139527362:+|3.47385935140097|0.1073174503437065|5.02|522.0|15|2|sense REV__Harlequin-int_dup204|chr5:139526721-139527362:+|3.47385935140097|0.1073174503437065|5.02|522.0|15|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.9341125488281 3 451.932309 1352.7751 3.6489 0.001649 0.3696 0.00016704 4.0185 0.0018161 451.9323805656261 105.78 0.18566 106.1 105.99 106.17 0.31782 22 7 4 0 0 0 0.91345 1 48829 48829 0.45452 0 1 2146500 + 13932 17703 8906 8927 16035 16035 0.11281966504361662 KPKEKIKFDKE 11 Unmodified _KPKEKIKFDKE_ 0 0 0 REV__ENSG00000017797|ENST00000383432|RALBP1 REV__ENSG00000017797|ENST00000383432|RALBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 695.4093017578125 2 695.408652 1388.80275 NaN NaN NaN NaN NaN NaN NaN 48.089 1 48.918 48.418 49.418 0.82915 0 0 0 1.0073 1 21907 21907 1.1933 0.79263 1 + 13933 10259 8907 8928 16036 16036 0.12390148245594901 KPKEQDILRR 10 Unmodified _KPKEQDILRR_ 0 0 0 REV__ENST00000225576.7_1_17:15457132-15466797:-|nuORF REV__ENST00000225576.7_1_17:15457132-15466797:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.8847045898438 2 641.883136 1281.75172 4.1059 0.0026355 -0.88349 -0.0005671 3.2224 0.0020684 641.882377128056 91.512 1.3294 92.174 91.368 92.698 0.66198 195 68 4 0 0 0 0.93713 1 42314 42314 1.4819 0 1 4087000 + 13934 14835 8908 8929 16037 16037 0.12211243991396259 KPKFRKRK 8 Unmodified _KPKFRKRK_ 0 0 0 ENSG00000206559|ENST00000383768|ZCWPW2 ENSG00000206559|ENST00000383768|ZCWPW2 ENSG00000206559|ENST00000383768|ZCWPW2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.4190063476562 2 544.364185 1086.71382 NaN NaN NaN NaN NaN NaN NaN 64.288 1 65.003 64.503 65.503 0.71521 0 0 0 0.99035 1 30276 30276 2.3027 0 1 13935 6074 8909 8930 16038 16038 0.1739282258727144 KPKFRKRKRKA 11 Unmodified _KPKFRKRKRKA_ 0 0 0 ENSG00000206559|ENST00000383768|ZCWPW2 ENSG00000206559|ENST00000383768|ZCWPW2 ENSG00000206559|ENST00000383768|ZCWPW2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 721.9862060546875 2 721.980779 1441.947 NaN NaN NaN NaN NaN NaN NaN 66.362 1 67.067 66.567 67.567 0.7047 0 0 0 1.0072 1 31456 31456 1.3295 0.13619 1 13936 6074 8910 8931 16039 16039 0.24370879306911775 KPKGRRHINKQ 11 Unmodified _KPKGRRHINKQ_ 0 0 0 REV__nc|ENSG00000135899|Q9HB58-4|SP110 REV__nc|ENSG00000135899|Q9HB58-4|SP110 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.7159729003906 3 454.612738 1360.81638 NaN NaN NaN NaN NaN NaN NaN 64.701 1 65.417 64.917 65.917 0.71521 0 0 0 1.0051 1 30496 30496 4.1166 1.2733 1 + 13937 17950 8911 8932 16040 16040 0.15040863588069442 KPKHVRPKII 10 Unmodified _KPKHVRPKII_ 0 0 0 ENSG00000132938|ENST00000612955|MTUS2 ENSG00000132938|ENST00000612955|MTUS2 ENSG00000132938|ENST00000612955|MTUS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 608.9517822265625 2 608.40605 1214.79755 4.4197 0.002689 -1.0022 -0.00060973 3.4175 0.0020793 608.40551564741 105.39 0.13541 105.7 105.65 105.78 0.31782 8 5 2 0 0 0 0.93713 2 48654 48654;48656 1.4819 0.95714 1 836550 13938 2735 8912 8933 16041;16042 16041 0.19873933964322532 KPKIIIIV 8 Unmodified _KPKIIIIV_ 0 0 0 REV__nc|ENSG00000156869|Q6ZNA5-2|FRRS1 REV__nc|ENSG00000156869|Q6ZNA5-2|FRRS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 462.8166809082031 2 462.336239 922.657924 NaN NaN NaN NaN NaN NaN NaN 61.764 1 62.495 61.995 62.995 0.73077 0 0 0 0.99035 1 28687 28687 2.3027 1.6124 1 + 13939 17990 8913 8934 16043 16043 0.19350176627085602 KPKIPFWYQYD 11 Unmodified _KPKIPFWYQYD_ 0 0 0 nc|ENSG00000153246|Q13018-2|PLA2R1;ENSG00000153246|ENST00000283243|PLA2R1 nc|ENSG00000153246|Q13018-2|PLA2R1 nc|ENSG00000153246|Q13018-2|PLA2R1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.5791931152344 3 495.590605 1483.74999 NaN NaN NaN NaN NaN NaN NaN 66.796 1 66.796 66.296 67.296 0 0 0 0 1.0074 1 31953 31953 1.1098 0.6038 1 13940 3781 8914 8935 16044 16044 0.02746190182801911 KPKIRKII 8 Unmodified _KPKIRKII_ 0 0 0 REV__nc|ENSG00000170085|Q8NDZ2-4|SIMC1 REV__nc|ENSG00000170085|Q8NDZ2-4|SIMC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.3585510253906 2 498.358037 994.701521 NaN NaN NaN NaN NaN NaN NaN 76.277 1 76.277 75.777 76.777 0 0 0 0 0.99035 1 37379 37379 2.3027 0 1 + 13941 18039 8915 8936 16045 16045 0.20395786124220194 KPKKAQVA 8 Unmodified _KPKKAQVA_ 0 0 0 REV__ENST00000510834.1_1_5:34915843-34920030:+|nuORF REV__ENST00000510834.1_1_5:34915843-34920030:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 435.5006408691406 2 435.281995 868.549437 NaN NaN NaN NaN NaN NaN NaN 61.412 1 61.412 60.912 61.912 0 0 0 0 0.99035 1 28641 28641 4.756 0 1 + 13942 11299 8916 8937 16046 16046 0.10990385376658196 KPKKKGVKLKV 11 Unmodified _KPKKKGVKLKV_ 0 0 0 REV__ENSG00000136891|ENST00000374902|TEX10 REV__ENSG00000136891|ENST00000374902|TEX10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 626.6700439453125 2 626.945008 1251.87546 NaN NaN NaN NaN NaN NaN NaN 105.56 1 105.61 105.11 106.11 0.050888 0 0 0 1.0073 1 57118 57118 1.1933 0.12188 1 + 13943 12086 8917 8938 16047 16047 0.25959946829675573 KPKKKKHRK 9 Unmodified _KPKKKKHRK_ 0 0 0 nc|ENSG00000065000|O14617-3|AP3D1;nc|ENSG00000065000|O14617-2|AP3D1;nc|ENSG00000065000|O14617|AP3D1;ENSG00000065000|ENST00000643116|AP3D1;ENST00000589223.5_1_19:2111584-2111854:-|nuORF nc|ENSG00000065000|O14617-3|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.6131591796875 2 589.403841 1176.79313 NaN NaN NaN NaN NaN NaN NaN 79.699 1 80.019 79.519 80.519 0.31998 0 0 0 0.8984 1 38940 38940 3.9444 2.2918 1 13944 681 8918 8939 16048 16048 0.21180469541377533 KPKKKKKKKKE 11 Unmodified _KPKKKKKKKKE_ 0 0 0 ENST00000340726.7_1_8:72273997-72274438:-|nuORF ENST00000340726.7_1_8:72273997-72274438:-|nuORF ENST00000340726.7_1_8:72273997-72274438:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 699.4880981445312 2 699.487571 1396.96059 NaN NaN NaN NaN NaN NaN NaN 66.175 1 66.175 65.675 66.675 0 0 0 0 1.0073 1 31603 31603 1.1933 0 1 13945 7066 8919 8940 16049 16049 0.27798692295482397 KPKKKKVK 8 Unmodified _KPKKKKVK_ 0 0 0 REV__ENST00000523897.5_1_8:62496079-62555960:-|nuORF REV__ENST00000523897.5_1_8:62496079-62555960:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.269287109375 2 492.358037 982.701521 NaN NaN NaN NaN NaN NaN NaN 61.666 1 61.666 61.166 62.166 0 0 0 0 0.99035 1 28789 28789 2.3027 0 1 + 13946 14335 8920 8941 16050 16050 0.20947786124224876 KPKKKRKRKV 10 Unmodified _KPKKKRKRKV_ 0 0 0 REV__ENST00000216185.6_1_22:36863238-36863490:-|nuORF REV__ENST00000216185.6_1_22:36863238-36863490:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.4579467773438 2 648.459148 1294.90374 NaN NaN NaN NaN NaN NaN NaN 70.614 1 71.318 70.818 71.818 0.70386 0 0 0 1.0003 1 33849 33849 1.4819 0 1 + 13947 14805 8921 8942 16051 16051 0.2680868952961646 KPKKKVIIKS 10 Unmodified _KPKKKVIIKS_ 0 0 0 REV__ENSG00000145723|ENST00000399004|GIN1 REV__ENSG00000145723|ENST00000399004|GIN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.39599609375 2 584.910633 1167.80671 NaN NaN NaN NaN NaN NaN NaN 64.47 1 64.47 63.97 64.97 0 0 0 0 1.0003 1 30551 30551 1.4819 0 1 + 13948 12451 8922 8943 16052 16052 0.22952282529990953 KPKKLLNPVKA 11 Unmodified _KPKKLLNPVKA_ 0 0 0 nc|ENSG00000168309|O95990-2|FAM107A;ENSG00000168309|ENST00000360997|FAM107A;nc|ENSG00000168309|O95990-3|FAM107A;nc|ENSG00000168309|O95990-4|FAM107A nc|ENSG00000168309|O95990-2|FAM107A nc|ENSG00000168309|O95990-2|FAM107A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 618.4135131835938 2 618.41354 1234.81253 NaN NaN NaN NaN NaN NaN NaN 48.711 1 48.711 48.211 49.211 0 0 0 0 1.0073 1 22308 22308 1.1933 0.735 1 13949 4620 8923 8944 16053 16053 0.20451381041652894 KPKKQYRRRLR 11 Unmodified _KPKKQYRRRLR_ 0 0 0 CDK12|p.S1017Ffs*5|1|0.07|ENSG00000167258|chr17:39520040-39520041|-/TTCTCAAATTTGTA|frameshift_variant;CDK12|p.I1188Tfs*27|1|0.35|ENSG00000167258|chr17:39526119-39526119|T/-|frameshift_variant;nc|ENSG00000167258|Q9NYV4-3|CDK12;nc|ENSG00000167258|Q9NYV4-2|CDK12;ENSG00000167258|ENST00000447079|CDK12 CDK12|p.S1017Ffs*5|1|0.07|ENSG00000167258|chr17:39520040-39520041|-/TTCTCAAATTTGTA|frameshift_variant CDK12|p.S1017Ffs*5|1|0.07|ENSG00000167258|chr17:39520040-39520041|-/TTCTCAAATTTGTA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 764.984619140625 2 764.986592 1527.95863 NaN NaN NaN NaN NaN NaN NaN 69.761 1 70.464 69.964 70.964 0.70302 0 0 0 1.008 1 33400 33400 0.30703 0.30703 1 13950 111 8924 8945 16054 16054 0.21577076330231648 KPKKRLKSKKK 11 Unmodified _KPKKRLKSKKK_ 0 0 0 REV__ENSG00000147799|ENST00000377307|ARHGAP39 REV__ENSG00000147799|ENST00000377307|ARHGAP39 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 457.4527587890625 3 456.989034 1367.94527 NaN NaN NaN NaN NaN NaN NaN 65.718 1 66.426 65.926 66.926 0.70891 0 0 0 1.0073 1 31103 31103 0.40827 0.32491 1 + 13951 12516 8925 8946 16055 16055 0.2760182549827732 KPKKRVYEVK 10 Unmodified _KPKKRVYEVK_ 0 0 0 REV__ENSG00000197461|ENST00000402802|PDGFA REV__ENSG00000197461|ENST00000402802|PDGFA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 637.899658203125 2 637.900797 1273.78704 NaN NaN NaN NaN NaN NaN NaN 73.987 1 74.246 73.746 74.746 0.25876 0 0 0 0.99846 1 34000 34000 2.9952 0.49676 1 + 13952 14280 8926 8947 16056 16056 0.16109906519204742 KPKLFFKK 8 Unmodified _KPKLFFKK_ 0 0 0 nc|ENSG00000040341|Q9NUL3-4|STAU2;nc|ENSG00000040341|Q9NUL3-6|STAU2;nc|ENSG00000040341|Q9NUL3-8|STAU2;nc|ENSG00000040341|Q9NUL3-3|STAU2;nc|ENSG00000040341|Q9NUL3-7|STAU2;nc|ENSG00000040341|Q9NUL3-2|STAU2;ENSG00000040341|ENST00000524300|STAU2 nc|ENSG00000040341|Q9NUL3-4|STAU2 nc|ENSG00000040341|Q9NUL3-4|STAU2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.3373413085938 2 518.339313 1034.66407 NaN NaN NaN NaN NaN NaN NaN 91.26 1 91.922 91.422 92.422 0.66198 0 0 0 0.99035 1 41998 41998 0.69038 0 1 13953 533 8927 8948 16057 16057 0.14812694858596842 KPKLFKLQ 8 Unmodified _KPKLFKLQ_ 0 0 0 REV__ENSG00000164294|ENST00000503787|GPX8 REV__ENSG00000164294|ENST00000503787|GPX8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.32855224609375 2 501.328945 1000.64334 NaN NaN NaN NaN NaN NaN NaN 80.311 1 80.56 80.06 81.06 0.24947 0 0 0 0.99035 1 36978 36978 2.3027 0 1 + 13954 13082 8928 8949 16058 16058 0.14304104478935642 KPKLFKLQ 8 Unmodified _KPKLFKLQ_ 0 0 0 REV__ENSG00000164294|ENST00000503787|GPX8 REV__ENSG00000164294|ENST00000503787|GPX8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.3294372558594 2 501.328945 1000.64334 NaN NaN NaN NaN NaN NaN NaN 79.908 1 80.569 80.069 81.069 0.66082 0 0 0 0.99035 1 36820 36820 2.3027 0 1 + 13955 13082 8928 8949 16059 16059 0.14304104478935642 KPKLKRKRK 9 Unmodified _KPKLKRKRK_ 0 0 0 NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 591.4234619140625 2 591.419491 1180.82443 NaN NaN NaN NaN NaN NaN NaN 97.388 1 97.99 97.49 98.49 0.6019 0 0 0 0.90777 1 44778 44778 1.6526 0 1 13956 9895 8929 8950 16060 16060 0.24125042575474254 KPKLLKPQRKV 11 Unmodified _KPKLLKPQRKV_ 0 0 0 ENSG00000165633|ENST00000332853|VSTM4 ENSG00000165633|ENST00000332853|VSTM4 ENSG00000165633|ENST00000332853|VSTM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 667.952880859375 2 667.953364 1333.89217 NaN NaN NaN NaN NaN NaN NaN 30.446 1 30.703 30.203 31.203 0.25696 0 0 0 1.0079 1 13856 13856 0.30703 0.30703 1 13957 4411 8930 8951 16061 16061 0.23858447715633702 KPKLLKPQRKV 11 Unmodified _KPKLLKPQRKV_ 0 0 0 ENSG00000165633|ENST00000332853|VSTM4 ENSG00000165633|ENST00000332853|VSTM4 ENSG00000165633|ENST00000332853|VSTM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 667.9533081054688 2 667.953364 1333.89217 NaN NaN NaN NaN NaN NaN NaN 32.974 1 33.228 32.728 33.728 0.25389 0 0 0 1.0079 1 15016 15016 0.30703 0.30703 1 13958 4411 8930 8951 16062 16062 0.23858447715633702 KPKLLKPQRKV 11 Unmodified _KPKLLKPQRKV_ 0 0 0 ENSG00000165633|ENST00000332853|VSTM4 ENSG00000165633|ENST00000332853|VSTM4 ENSG00000165633|ENST00000332853|VSTM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 667.953125 2 667.953364 1333.89217 NaN NaN NaN NaN NaN NaN NaN 29.753 1 30.371 29.871 30.871 0.61789 0 0 0 1.0079 1 13644 13644 0.30703 0.30703 1 13959 4411 8930 8951 16063 16063 0.23858447715633702 KPKLLLLL 8 Unmodified _KPKLLLLL_ 0 0 0 REV__ENST00000416673.6_1_2:114369763-114384446:-|nuORF REV__ENST00000416673.6_1_2:114369763-114384446:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.53631591796875 2 469.344064 936.673574 NaN NaN NaN NaN NaN NaN NaN 65.396 1 66.105 65.605 66.605 0.70891 0 0 0 0.99035 1 30929 30929 2.3027 0 1 + 13960 16135 8931 8952 16064 16064 0.2027046314414065 KPKLLPLLKR 10 Unmodified _KPKLLPLLKR_ 0 0 0 REV__ENST00000399247.6_1_6:29694759-29696203:-|nuORF REV__ENST00000399247.6_1_6:29694759-29696203:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 603.7310791015625 2 603.426451 1204.83835 NaN NaN NaN NaN NaN NaN NaN 87.174 1 87.213 86.713 87.713 0.039955 0 0 0 1.0015 1 44063 44063 0.40072 0 1 + 13961 16030 8932 8953 16065 16065 0.24412275283907547 KPKLLPLLKRR 11 Unmodified _KPKLLPLLKRR_ 0 0 0 REV__ENST00000399247.6_1_6:29694759-29696203:-|nuORF REV__ENST00000399247.6_1_6:29694759-29696203:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 681.478759765625 2 681.477006 1360.93946 NaN NaN NaN NaN NaN NaN NaN 64.776 1 64.776 64.276 65.276 0 0 0 0 1.0073 1 30756 30756 1.1933 0.23107 1 + 13962 16030 8933 8954 16066 16066 0.27342726986626076 KPKLLPLLKRR 11 Unmodified _KPKLLPLLKRR_ 0 0 0 REV__ENST00000399247.6_1_6:29694759-29696203:-|nuORF REV__ENST00000399247.6_1_6:29694759-29696203:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.6336364746094 3 454.653763 1360.93946 NaN NaN NaN NaN NaN NaN NaN 60.505 1 61.244 60.744 61.744 0.7396 0 0 0 1.0073 1 27926 27926 0.40827 0.041592 1 + 13963 16030 8933 8954 16067 16067 0.27342726986626076 KPKLLPLLKRR 11 Unmodified _KPKLLPLLKRR_ 0 0 0 REV__ENST00000399247.6_1_6:29694759-29696203:-|nuORF REV__ENST00000399247.6_1_6:29694759-29696203:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 681.7877807617188 2 681.477006 1360.93946 NaN NaN NaN NaN NaN NaN NaN 62.293 1 63.024 62.524 63.524 0.73077 0 0 0 1.0073 1 29017 29017 1.1933 0.12188 1 + 13964 16030 8933 8954 16068 16068 0.27342726986626076 KPKLNTLKL 9 Unmodified _KPKLNTLKL_ 0 0 0 ENSG00000174282|ENST00000380599|ZBTB4 ENSG00000174282|ENST00000380599|ZBTB4 ENSG00000174282|ENST00000380599|ZBTB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.5723876953125 3 352.237615 1053.69102 2.3781 0.00083765 0.30615 0.00010784 2.6842 0.00094549 352.2377839611692 19.534 0.21458 19.827 19.712 19.927 0.29239 31 19 2 0 0 0 0.78763 1 8889 8889 7.609 0.97858 1 165280 13965 4970 8934 8955 16069 16069 0.1663175867913651 KPKLQIFRLV 10 Unmodified _KPKLQIFRLV_ 0 0 0 REV__nc|ENSG00000249242|B9EJG8-2|TMEM150C REV__nc|ENSG00000249242|B9EJG8-2|TMEM150C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 621.4063110351562 2 621.408258 1240.80196 NaN NaN NaN NaN NaN NaN NaN 16.514 1 16.514 16.014 17.014 0 0 0 0 1.0003 1 7316 7316 1.4819 1.0812 1 + 13966 14645 8935 8956 16070 16070 0.1911939838721537 KPKLQLRII 9 Unmodified _KPKLQLRII_ 0 0 0 ENST00000533900.1_1_11:12023572-12030129:-|nuORF ENST00000533900.1_1_11:12023572-12030129:-|nuORF ENST00000533900.1_1_11:12023572-12030129:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.8801879882812 2 554.881876 1107.7492 NaN NaN NaN NaN NaN NaN NaN 55.095 1 55.095 54.595 55.595 0 0 0 0 0.90611 1 25301 25301 2.0598 0 1 13967 8750 8936 8957 16071 16071 0.1996344032440902 KPKLQLRIIK 10 Unmodified _KPKLQLRIIK_ 0 0 0 ENST00000533900.1_1_11:12023572-12030129:-|nuORF ENST00000533900.1_1_11:12023572-12030129:-|nuORF ENST00000533900.1_1_11:12023572-12030129:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.0467529296875 2 618.929357 1235.84416 NaN NaN NaN NaN NaN NaN NaN 73.191 1 73.191 72.691 73.691 0 0 0 0 1.0003 1 35650 35650 1.4819 0 1 13968 8750 8937 8958 16072 16072 0.23567373795594904 KPKLRIKILH 10 Unmodified _KPKLRIKILH_ 0 0 0 REV__ENSG00000164880|ENST00000404767|INTS1 REV__ENSG00000164880|ENST00000404767|INTS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 415.71832275390625 3 415.955442 1244.8445 NaN NaN NaN NaN NaN NaN NaN 63.783 1 64.498 63.998 64.998 0.71521 0 0 0 0.99995 1 29923 29923 1.7423 1.1791 1 + 13969 13117 8938 8959 16073 16073 0.2318679351544688 KPKLRIKILHS 11 Unmodified _KPKLRIKILHS_ 0 0 0 REV__ENSG00000164880|ENST00000404767|INTS1 REV__ENSG00000164880|ENST00000404767|INTS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 666.9931030273438 2 666.945539 1331.87652 NaN NaN NaN NaN NaN NaN NaN 59.795 1 60.544 60.044 61.044 0.74927 0 0 0 1.008 1 27476 27476 0.30703 0.30703 1 + 13970 13117 8939 8960 16074 16074 0.2238616119859671 KPKMHIKS 8 Unmodified _KPKMHIKS_ 0 0 0 REV__L1PB1_dup5905|chr7:93807211-93809400:+|3.627191007074611|0.2056128638309657|4.14|521.0|34|2|sense REV__L1PB1_dup5905|chr7:93807211-93809400:+|3.627191007074611|0.2056128638309657|4.14|521.0|34|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.5285339355469 3 323.528512 967.563706 2.3314 0.00075426 -1.4158 -0.00045804 0.9156 0.00029622 323.52800929103506 44.177 0.41617 44.827 44.56 44.976 0.64998 30 19 2 0 0 0 0.74071 1 20174 20174 1.6526 1.6526 1 925020 + 13971 17807 8940 8961 16075 16075 0.07862714533303006 KPKMPKPI 8 Unmodified _KPKMPKPI_ 0 0 0 ENST00000476189.1_1_6:159209469-159239197:-|nuORF ENST00000476189.1_1_6:159209469-159239197:-|nuORF ENST00000476189.1_1_6:159209469-159239197:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.7947692871094 2 469.796423 937.578294 NaN NaN NaN NaN NaN NaN NaN 51.853 1 52.664 52.164 53.164 0.81065 0 0 0 0.95658 1 23620 23620 8.5933 2.8329 1 13972 8229 8941 8962 16076 16076 0.10700786681434238 KPKMVLFL 8 Unmodified _KPKMVLFL_ 0 0 0 ENST00000569976.5_1_16:18806770-18812824:-|nuORF ENST00000569976.5_1_16:18806770-18812824:-|nuORF ENST00000569976.5_1_16:18806770-18812824:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 488.3072509765625 2 488.306624 974.598695 NaN NaN NaN NaN NaN NaN NaN 77.181 1 77.742 77.242 78.242 0.56091 0 0 0 0.99035 1 37420 37420 4.756 0.81161 1 13973 9081 8942 8963 16077 16077 0.1103795734123878 KPKMWWKK 8 Unmodified _KPKMWWKK_ 0 0 0 ENST00000428675.5_1_2:198669918-198948555:+|nuORF ENST00000428675.5_1_2:198669918-198948555:+|nuORF ENST00000428675.5_1_2:198669918-198948555:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.32763671875 2 566.328422 1130.64229 NaN NaN NaN NaN NaN NaN NaN 14.875 1 15.102 14.602 15.602 0.22622 0 0 0 0.99035 1 6545 6545 0.69038 0.088878 1 13974 7827 8943 8964 16078 16078 0.08219566838374703 KPKNHKAF 8 Unmodified _KPKNHKAF_ 0 0 0 REV__ENST00000576239.5_1_17:663415-673427:-|nuORF REV__ENST00000576239.5_1_17:663415-673427:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.28729248046875 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 51.101 1 51.919 51.419 52.419 0.81738 0 0 0 0.99035 1 23277 23277 5.2307 0.47466 1 + 13975 13300 8944 8965 16079 16079 0.07004903608174118 KPKPKLLLLLK 11 Unmodified _KPKPKLLLLLK_ 0 0 0 REV__ENST00000416673.6_1_2:114369763-114384446:-|nuORF REV__ENST00000416673.6_1_2:114369763-114384446:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.5753784179688 2 645.965409 1289.91626 NaN NaN NaN NaN NaN NaN NaN 86.579 1 86.609 86.109 87.109 0.030289 0 0 0 1.008 1 43604 43604 0.26902 0 1 + 13976 16135 8945 8966 16080 16080 0.2829028814933281 KPKPKRTKFF 10 Unmodified _KPKPKRTKFF_ 0 0 0 REV__nc|ENSG00000077713|Q8WUT9-2|SLC25A43 REV__nc|ENSG00000077713|Q8WUT9-2|SLC25A43 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 638.8978271484375 2 638.898057 1275.78156 NaN NaN NaN NaN NaN NaN NaN 87.05 1 87.3 86.8 87.8 0.24974 0 0 0 1.0004 1 40069 40069 1.3295 0 1 + 13977 10562 8946 8967 16081 16081 0.15470227727405472 KPKPKRTKFFK 11 Unmodified _KPKPKRTKFFK_ 0 0 0 REV__nc|ENSG00000077713|Q8WUT9-2|SLC25A43 REV__nc|ENSG00000077713|Q8WUT9-2|SLC25A43 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 468.7950134277344 3 468.966118 1403.87652 NaN NaN NaN NaN NaN NaN NaN 65.181 1 65.181 64.681 65.681 0 0 0 0 1.0074 1 31003 31003 1.1098 0.6038 1 + 13978 10562 8947 8968 16082 16082 0.19074161198591355 KPKRAIVHDN 10 Unmodified _KPKRAIVHDN_ 0 0 0 FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant;nc|ENSG00000136068|O75369-5|FLNB;nc|ENSG00000136068|O75369-4|FLNB;nc|ENSG00000136068|O75369-7|FLNB;nc|ENSG00000136068|O75369-6|FLNB;nc|ENSG00000136068|O75369-3|FLNB;nc|ENSG00000136068|O75369-2|FLNB;nc|ENSG00000136068|O75369-9|FLNB;ENSG00000136068|ENST00000295956|FLNB;nc|ENSG00000136068|O75369-8|FLNB;ENST00000481470.5_1_3:58118395-58154450:+|nuORF FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.3455200195312 2 589.343646 1176.67274 NaN NaN NaN NaN NaN NaN NaN 84.492 1 84.74 84.24 85.24 0.24757 0 0 0 1.0004 1 38887 38887 1.3295 0.72803 1 13979 2926 8948 8969 16083 16083 0.09147016757151505 KPKRGRRPKKK 11 Unmodified _KPKRGRRPKKK_ 0 0 0 REV__nc|ENSG00000141956|P57071-6|PRDM15 REV__nc|ENSG00000141956|P57071-6|PRDM15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 460.31268310546875 3 460.312511 1377.9157 NaN NaN NaN NaN NaN NaN NaN 65.805 1 65.805 65.305 66.305 0 0 0 0 1.0075 1 31364 31364 1.0136 0.50762 1 + 13980 12308 8949 8970 16084 16084 0.2418630627280436 KPKRGRRPKKK 11 Unmodified _KPKRGRRPKKK_ 0 0 0 REV__nc|ENSG00000141956|P57071-6|PRDM15 REV__nc|ENSG00000141956|P57071-6|PRDM15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 689.966552734375 2 689.965129 1377.9157 NaN NaN NaN NaN NaN NaN NaN 48.031 1 48.86 48.36 49.36 0.82915 0 0 0 1.0082 1 21881 21881 0.30703 0 1 + 13981 12308 8949 8970 16085 16085 0.2418630627280436 KPKRGRRPKKK 11 Unmodified _KPKRGRRPKKK_ 0 0 0 REV__nc|ENSG00000141956|P57071-6|PRDM15 REV__nc|ENSG00000141956|P57071-6|PRDM15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 460.313232421875 3 460.312511 1377.9157 NaN NaN NaN NaN NaN NaN NaN 71.834 1 72.497 71.997 72.997 0.66324 0 0 0 1.0082 1 32925 32925 0.073264 0.073264 1 + 13982 12308 8949 8970 16086 16086 0.2418630627280436 KPKRGVKKK 9 Unmodified _KPKRGVKKK_ 0 0 0 REV__ENST00000514606.1_1_4:139988805-140005344:-|nuORF REV__ENST00000514606.1_1_4:139988805-140005344:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 534.8860473632812 2 534.871843 1067.72913 NaN NaN NaN NaN NaN NaN NaN 71.66 1 71.918 71.418 72.418 0.25786 0 0 0 0.89983 1 32850 32850 3.5965 1.2938 1 + 13983 11169 8950 8971 16087 16087 0.19797689384449768 KPKRHLLV 8 Unmodified _KPKRHLLV_ 0 0 0 REV__DSTYK|p.Y700*|1|0.28|ENSG00000133059|chr1:205160119-205160119|A/-|frameshift_variant REV__DSTYK|p.Y700*|1|0.28|ENSG00000133059|chr1:205160119-205160119|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.835205078125 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 72.154 1 72.413 71.913 72.913 0.25876 0 0 0 0.99035 1 33118 33118 5.2307 2.6532 1 + 13984 10141 8951 8972 16088 16088 0.15458042430327623 KPKRKKKG 8 Unmodified _KPKRKKKG_ 0 0 0 ENSG00000109321|ENST00000395748|AREG ENSG00000109321|ENST00000395748|AREG ENSG00000109321|ENST00000395748|AREG MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.706298828125 2 485.337636 968.660718 NaN NaN NaN NaN NaN NaN NaN 72.742 1 73.001 72.501 73.501 0.25876 0 0 0 0.99035 1 33396 33396 2.3027 0 1 13985 1674 8952 8973 16089 16089 0.1751344480460375 KPKRKKKR 8 Unmodified _KPKRKKKR_ 0 0 0 REV__ENSG00000155858|ENST00000286307|LSM11 REV__ENSG00000155858|ENST00000286307|LSM11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.8516235351562 2 534.877459 1067.74037 NaN NaN NaN NaN NaN NaN NaN 68.991 1 68.991 68.491 69.491 0 0 0 0 0.99035 1 33262 33262 2.3027 0 1 + 13986 12752 8953 8974 16090 16090 0.20920511478607295 KPKRKLQF 8 Unmodified _KPKRKLQF_ 0 0 0 REV__ENSG00000185049|ENST00000382882|NELFA REV__ENSG00000185049|ENST00000382882|NELFA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.8372192382812 2 522.837468 1043.66038 NaN NaN NaN NaN NaN NaN NaN 79.4 1 79.4 78.9 79.9 0 0 0 0 0.99035 1 39220 39220 2.3027 0 1 + 13987 14002 8954 8975 16091 16091 0.1403002508473037 KPKRKNYAGSK 11 Unmodified _KPKRKNYAGSK_ 0 0 0 NKTR|p.S1045Dfs*8|1|0.23|ENSG00000114857|chr3:42638836-42638837|-/GA|frameshift_variant;ENSG00000114857|ENST00000232978|NKTR NKTR|p.S1045Dfs*8|1|0.23|ENSG00000114857|chr3:42638836-42638837|-/GA|frameshift_variant NKTR|p.S1045Dfs*8|1|0.23|ENSG00000114857|chr3:42638836-42638837|-/GA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 638.8775024414062 2 638.877853 1275.74115 NaN NaN NaN NaN NaN NaN NaN 80.699 1 80.699 80.199 81.199 0 0 0 0 1.0052 1 40125 40125 3.8763 0.59502 1 13988 1926 8955 8976 16092 16092 0.11431261336974785 KPKRKRRKKR 10 Unmodified _KPKRKRRKKR_ 0 0 0 ENST00000476126.1_1_2:231134613-231152782:+|nuORF;nc|ENSG00000079263|Q13342-3|SP140;nc|ENSG00000079263|Q13342-6|SP140;nc|ENSG00000079263|Q13342-5|SP140;ENSG00000079263|ENST00000392045|SP140 ENST00000476126.1_1_2:231134613-231152782:+|nuORF ENST00000476126.1_1_2:231134613-231152782:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 460.648193359375 3 460.988139 1379.94259 NaN NaN NaN NaN NaN NaN NaN 72.557 1 73.261 72.761 73.761 0.70386 0 0 0 1.0013 1 34937 34937 0.62683 0 1 13989 891 8956 8977 16093 16093 0.2678141488399888 KPKRKRRKKR 10 Unmodified _KPKRKRRKKR_ 0 0 0 ENST00000476126.1_1_2:231134613-231152782:+|nuORF;nc|ENSG00000079263|Q13342-3|SP140;nc|ENSG00000079263|Q13342-6|SP140;nc|ENSG00000079263|Q13342-5|SP140;ENSG00000079263|ENST00000392045|SP140 ENST00000476126.1_1_2:231134613-231152782:+|nuORF ENST00000476126.1_1_2:231134613-231152782:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 461.197998046875 3 460.988139 1379.94259 NaN NaN NaN NaN NaN NaN NaN 72.564 1 73.268 72.768 73.768 0.70386 0 0 0 1.0013 1 34942 34942 0.62683 0 1 13990 891 8956 8977 16094 16094 0.2678141488399888 KPKRKRRSRKN 11 Unmodified _KPKRKRRSRKN_ 0 0 0 ENSG00000126705|ENST00000673934|AHDC1 ENSG00000126705|ENST00000673934|AHDC1 ENSG00000126705|ENST00000673934|AHDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 727.4713134765625 2 727.468567 1452.92258 NaN NaN NaN NaN NaN NaN NaN 61.424 1 62.164 61.664 62.664 0.7396 0 0 0 1.0073 1 28480 28480 1.1933 0 1 13991 2462 8957 8978 16095 16095 0.21423619153392792 KPKRKSKYKIL 11 Unmodified _KPKRKSKYKIL_ 0 0 0 ENST00000461312.5_1_1:35901085-35909819:-|nuORF;nc|ENSG00000142687|Q8IZA0-3|KIAA0319L;ENST00000485551.5_1_1:35906621-35936502:-|nuORF;nc|ENSG00000142687|Q8IZA0-2|KIAA0319L;ENSG00000142687|ENST00000325722|KIAA0319L ENST00000461312.5_1_1:35901085-35909819:-|nuORF ENST00000461312.5_1_1:35901085-35909819:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 694.9581909179688 2 694.958646 1387.90274 NaN NaN NaN NaN NaN NaN NaN 56.355 1 56.355 55.855 56.855 0 0 0 0 1.008 1 25929 25929 0.30703 0.30703 1 13992 3327 8958 8979 16096 16096 0.22430430370081922 KPKRKSKYKIL 11 Unmodified _KPKRKSKYKIL_ 0 0 0 ENST00000461312.5_1_1:35901085-35909819:-|nuORF;nc|ENSG00000142687|Q8IZA0-3|KIAA0319L;ENST00000485551.5_1_1:35906621-35936502:-|nuORF;nc|ENSG00000142687|Q8IZA0-2|KIAA0319L;ENSG00000142687|ENST00000325722|KIAA0319L ENST00000461312.5_1_1:35901085-35909819:-|nuORF ENST00000461312.5_1_1:35901085-35909819:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.80108642578125 3 463.641523 1387.90274 NaN NaN NaN NaN NaN NaN NaN 72.062 1 72.321 71.821 72.821 0.25876 0 0 0 1.0073 1 33072 33072 0.40827 0.26837 1 13993 3327 8958 8979 16097 16097 0.22430430370081922 KPKRLRRY 8 Unmodified _KPKRLRRY_ 0 0 0 REV__nc|ENSG00000122224|Q9HBG7-2|LY9 REV__nc|ENSG00000122224|Q9HBG7-2|LY9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.8319091796875 2 558.859267 1115.70398 NaN NaN NaN NaN NaN NaN NaN 75.058 1 75.058 74.558 75.558 0 0 0 0 0.99035 1 36769 36769 4.756 0.5665 1 + 13994 11578 8959 8980 16098 16098 0.15075634581899067 KPKRPTRRRRK 11 Unmodified _KPKRPTRRRRK_ 0 0 0 ENSG00000111961|ENST00000367467|SASH1 ENSG00000111961|ENST00000367467|SASH1 ENSG00000111961|ENST00000367467|SASH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 739.9846801757812 2 739.984384 1477.95422 NaN NaN NaN NaN NaN NaN NaN 67.285 1 67.987 67.487 68.487 0.70218 0 0 0 1.0073 1 31963 31963 1.1933 0.88631 1 13995 1788 8960 8981 16099 16099 0.23435611907325438 KPKRRGPRP 9 Unmodified _KPKRRGPRP_ 0 0 0 REV__ENST00000481053.5_1_9:139257776-139258349:-|nuORF REV__ENST00000481053.5_1_9:139257776-139258349:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.351318359375 2 546.349066 1090.68358 NaN NaN NaN NaN NaN NaN NaN 92.601 1 92.853 92.353 93.353 0.25253 0 0 0 0.90699 1 42566 42566 1.8442 0 1 + 13996 16697 8961 8982 16100 16100 0.1418646392210121 KPKRRRRRKR 10 Unmodified _KPKRRRRRKR_ 0 0 0 REV__ENSG00000132793|ENST00000373257|LPIN3 REV__ENSG00000132793|ENST00000373257|LPIN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 718.9092407226562 2 718.984718 1435.95488 NaN NaN NaN NaN NaN NaN NaN 89.315 1 89.315 88.815 89.815 0 0 0 0 1.0003 1 46611 46611 1.4819 1.4819 1 + 13997 11912 8962 8983 16101 16101 0.2543445134704143 KPKSESNKK 9 Unmodified _KPKSESNKK_ 0 0 0 REV__ENSG00000066629|ENST00000262233|EML1 REV__ENSG00000066629|ENST00000262233|EML1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.304931640625 2 523.303655 1044.59276 3.4122 0.0017856 0.43544 0.00022787 3.8477 0.0020135 523.3038839446587 80.776 1.6208 81.436 80.742 82.363 0.65998 229 108 3 0 0 0 1.129 1 36981 36981 1.8442 0 1 1677500 + 13998 10442 8963 8984 16102 16102 0.07224530363282611 KPKTKKFKK 9 Unmodified _KPKTKKFKK_ 0 0 0 REV__BBX|p.F697Ifs*8|1|0.34|ENSG00000114439|chr3:107778396-107778397|-/A|frameshift_variant REV__BBX|p.F697Ifs*8|1|0.34|ENSG00000114439|chr3:107778396-107778397|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.8016967773438 2 566.881876 1131.7492 NaN NaN NaN NaN NaN NaN NaN 76.715 1 77.339 76.839 77.839 0.62397 0 0 0 0.91238 1 37192 37192 0.52476 0.12405 1 + 13999 9977 8964 8985 16103 16103 0.18859440324399657 KPKTLRRRPRS 11 Unmodified _KPKTLRRRPRS_ 0 0 0 ENST00000359314.5_1_6:47501434-47512410:+|nuORF ENST00000359314.5_1_6:47501434-47512410:+|nuORF ENST00000359314.5_1_6:47501434-47512410:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 697.9420776367188 2 697.944393 1393.87423 NaN NaN NaN NaN NaN NaN NaN 66.054 1 66.054 65.554 66.554 0 0 0 0 1.0063 1 31517 31517 2.4985 0.21571 1 14000 7202 8965 8986 16104 16104 0.1930512551348329 KPKVALVKLPV 11 Unmodified _KPKVALVKLPV_ 0 0 0 ATMIN|p.L555*|1|0.32|ENSG00000166454|chr16:81044162-81044169|TAAATCAA/-|frameshift_variant;nc|ENSG00000166454|O43313-2|ATMIN;ENSG00000166454|ENST00000299575|ATMIN ATMIN|p.L555*|1|0.32|ENSG00000166454|chr16:81044162-81044169|TAAATCAA/-|frameshift_variant ATMIN|p.L555*|1|0.32|ENSG00000166454|chr16:81044162-81044169|TAAATCAA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.3148803710938 2 596.413009 1190.81146 NaN NaN NaN NaN NaN NaN NaN 79.83 1 79.83 79.33 80.33 0 0 0 0 1.0072 1 39512 39512 1.3295 0.80477 1 14001 78 8966 8987 16105 16105 0.2236916667272908 KPKVIKRRI 9 Unmodified _KPKVIKRRI_ 0 0 0 REV__ENST00000529926.1_1_11:74562081-74617298:-|nuORF REV__ENST00000529926.1_1_11:74562081-74617298:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.4014892578125 2 569.400767 1136.78698 NaN NaN NaN NaN NaN NaN NaN 73.843 1 74.102 73.602 74.602 0.25876 0 0 0 0.90699 1 33928 33928 1.8442 1.2427 1 + 14002 13238 8967 8988 16106 16106 0.22405951309883676 KPKVIKRRIL 10 Unmodified _KPKVIKRRIL_ 0 0 0 REV__ENST00000529926.1_1_11:74562081-74617298:-|nuORF REV__ENST00000529926.1_1_11:74562081-74617298:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 626.0489501953125 2 625.942799 1249.87105 NaN NaN NaN NaN NaN NaN NaN 69.195 1 69.897 69.397 70.397 0.70218 0 0 0 1.0003 1 33094 33094 1.4819 1.4819 1 + 14003 13238 8968 8989 16107 16107 0.2561048240679611 KPKVKKRK 8 Unmodified _KPKVKKRK_ 0 0 0 nc|ENSG00000143674|Q5TCX8-2|MAP3K21;ENSG00000143674|ENST00000366624|MAP3K21 nc|ENSG00000143674|Q5TCX8-2|MAP3K21 nc|ENSG00000143674|Q5TCX8-2|MAP3K21 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.3593444824219 2 506.361111 1010.70767 NaN NaN NaN NaN NaN NaN NaN 88.402 1 88.454 87.954 88.954 0.052155 0 0 0 0.99035 1 45017 45017 2.3027 1.6124 1 14004 3387 8969 8990 16108 16108 0.20274304355746153 KPKVKKRKGKF 11 Unmodified _KPKVKKRKGKF_ 0 0 0 nc|ENSG00000143674|Q5TCX8-2|MAP3K21;ENSG00000143674|ENST00000366624|MAP3K21 nc|ENSG00000143674|Q5TCX8-2|MAP3K21 nc|ENSG00000143674|Q5TCX8-2|MAP3K21 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 672.4548950195312 2 672.453531 1342.89251 NaN NaN NaN NaN NaN NaN NaN 69.239 1 69.941 69.441 70.441 0.70218 0 0 0 1.0079 1 33123 33123 1.1933 0.79263 1 14005 3387 8970 8991 16109 16109 0.23477867435485678 KPKVPLKSA 9 Unmodified _KPKVPLKSA_ 0 0 0 ENST00000536336.5_1_11:18633859-18655855:-|nuORF;nc|ENSG00000179119|Q68D10-2|SPTY2D1;ENSG00000179119|ENST00000336349|SPTY2D1;nc|ENSG00000179119|Q68D10-3|SPTY2D1 ENST00000536336.5_1_11:18633859-18655855:-|nuORF ENST00000536336.5_1_11:18633859-18655855:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.2072448730469 3 323.21481 966.622602 NaN NaN NaN NaN NaN NaN NaN 79.652 1 79.903 79.403 80.403 0.25127 0 0 0 0.90699 1 36677 36677 0.96228 0 1 14006 5200 8971 8992 16110 16110 0.13795514099274442 KPKWEEEEMEE 11 Unmodified _KPKWEEEEMEE_ 0 0 0 ENSG00000116017|ENST00000263620|ARID3A ENSG00000116017|ENST00000263620|ARID3A ENSG00000116017|ENST00000263620|ARID3A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 488.4055480957031 3 488.550147 1462.62861 NaN NaN NaN NaN NaN NaN NaN 69.79 1 69.79 69.29 70.29 0 0 0 0 1.0073 1 33771 33771 0.40827 0 1 14007 2008 8972 8993 16111 16111 -0.08419845032699413 KPKWFLWHWKE 11 Unmodified _KPKWFLWHWKE_ 0 0 0 REV__ENST00000554703.1_1_14:57857320-57876115:+|nuORF REV__ENST00000554703.1_1_14:57857320-57876115:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 792.9276123046875 2 792.927346 1583.84014 NaN NaN NaN NaN NaN NaN NaN 94.406 1 94.406 93.906 94.906 0 0 0 0 1.008 1 50632 50632 0.30703 0 1 + 14008 17311 8973 8994 16112 16112 0.0715728430186573 KPLAYKWAI 9 Unmodified _KPLAYKWAI_ 0 0 0 REV__nc|ENSG00000140873|Q8TE60-2|ADAMTS18 REV__nc|ENSG00000140873|Q8TE60-2|ADAMTS18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.3283081054688 2 545.326402 1088.63825 3.6653 0.0019988 0.78235 0.00042664 4.4477 0.0024254 545.3265447020492 20.296 0.30956 20.949 20.795 21.104 0.65346 37 22 2 0 0 0 0.54955 1 9196 9196 11.64 1.5664 1 234570 + 14009 12268 8974 8995 16113 16113 0.09747800616310087 KPLCSFCFL 9 Unmodified _KPLCSFCFL_ 0 0 0 ENST00000554015.5_1_14:64971609-64988262:+|nuORF;ENST00000555321.1_3_14:64971444-64983366:+|nuORF ENST00000554015.5_1_14:64971609-64988262:+|nuORF ENST00000554015.5_1_14:64971609-64988262:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.2650756835938 2 529.264099 1056.51364 NaN NaN NaN NaN NaN NaN NaN 46.116 1 46.116 45.616 46.616 0 0 0 0 0.77475 1 21101 21101 10.074 0.6908 1 14010 8902 8975 8996 16114 16114 -0.012351561868854333 KPLEKVPML 9 Unmodified _KPLEKVPML_ 0 0 0 nc|ENSG00000134057|P14635-2|CCNB1;ENSG00000134057|ENST00000256442|CCNB1 nc|ENSG00000134057|P14635-2|CCNB1 nc|ENSG00000134057|P14635-2|CCNB1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.98175048828125 3 352.215822 1053.62564 2.686 0.00094605 -0.32345 -0.00011392 2.3625 0.00083212 352.21612697390583 45.258 0.35765 45.909 45.721 46.078 0.65104 39 14 4 0 0 0 0.10916 1 20746 20746 1.9064 1.9064 1 988530 14011 2783 8976 8997 16115 16115 0.10097021161755038 KPLEMLQDQGK 11 Unmodified _KPLEMLQDQGK_ 0 0 0 nc|ENSG00000168404|Q8NB16-2|MLKL;ENSG00000168404|ENST00000308807|MLKL nc|ENSG00000168404|Q8NB16-2|MLKL nc|ENSG00000168404|Q8NB16-2|MLKL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 643.7017211914062 2 643.842287 1285.67002 NaN NaN NaN NaN NaN NaN NaN 71.449 1 72.112 71.612 72.612 0.66324 0 0 0 1.0063 1 32749 32749 2.4985 0.84587 1 14012 4626 8977 8998 16116 16116 0.03861380517264479 KPLFLLIHTK 10 Unmodified _KPLFLLIHTK_ 0 0 0 REV__ENSG00000185624|ENST00000331483|P4HB REV__ENSG00000185624|ENST00000331483|P4HB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 403.93035888671875 3 403.928781 1208.76451 2.669 0.0010781 0.94886 0.00038327 3.6178 0.0014613 403.9291790754688 40.834 0.17524 40.834 40.729 40.904 0 14 9 2 0 0 0 0.90778 1 18537 18537 3.3196 3.3196 1 703140 + 14013 14025 8978 8999 16117 16117 0.16848307121586004 KPLFLLIHTK 10 Unmodified _KPLFLLIHTK_ 0 0 0 REV__ENSG00000185624|ENST00000331483|P4HB REV__ENSG00000185624|ENST00000331483|P4HB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 303.1999206542969 4 303.198405 1208.76451 1.8732 0.00056795 1.2564 0.00038094 3.1296 0.00094889 303.1988262421141 44.247 0.34953 44.247 44.053 44.403 0 47 35 2 0 0 0 0.94134 1 20252 20252 0.62683 0.17231 1 4775000 + 14014 14025 8978 8999 16118 16118 0.16848307121586004 KPLFLLIHTK 10 Unmodified _KPLFLLIHTK_ 0 0 0 REV__ENSG00000185624|ENST00000331483|P4HB REV__ENSG00000185624|ENST00000331483|P4HB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 303.4503479003906 4 303.198405 1208.76451 1.8757 0.00056872 1.2302 0.00037299 3.1059 0.00094171 303.19873038556943 44.46 0.099575 44.46 44.379 44.479 0 11 6 3 0 0 0 0.94134 1 20314 20314 0.62683 0.21856 1 2554700 + 14015 14025 8978 8999 16119 16119 0.16848307121586004 KPLFLLIHTK 10 Unmodified _KPLFLLIHTK_ 0 0 0 REV__ENSG00000185624|ENST00000331483|P4HB REV__ENSG00000185624|ENST00000331483|P4HB MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.1995849609375 4 303.198405 1208.76451 2.0145 0.00061078 1.1741 0.00035598 3.1885 0.00096675 303.19879248020857 44.09 0.14526 44.359 44.237 44.382 0.26939 17 14 2 0 0 0 0.12676 1 20111 20111 3.5871 2.8894 1 4316500 + 14016 14025 8978 8999 16120 16120 0.16848307121586004 KPLFLLIHTK 10 Unmodified _KPLFLLIHTK_ 0 0 0 REV__ENSG00000185624|ENST00000331483|P4HB REV__ENSG00000185624|ENST00000331483|P4HB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.1991271972656 4 303.198405 1208.76451 2.2664 0.00068717 1.2148 0.00036831 3.4812 0.0010555 303.4495778296517 43.726 0.26356 44.375 44.157 44.42 0.64872 41 19 3 0 0 0 0.93584 1 19976 19976 1.7423 0.96574 1 5887700 + 14017 14025 8978 8999 16121 16121 0.16848307121586004 KPLFLLIHTK 10 Unmodified _KPLFLLIHTK_ 0 0 0 REV__ENSG00000185624|ENST00000331483|P4HB REV__ENSG00000185624|ENST00000331483|P4HB MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 403.928781 1208.76451 2.669 0.0010781 0.94886 0.00038327 3.6178 0.0014613 403.9291790754688 40.834 0.17524 40.834 40.729 40.904 0 0.089053 -0.0001635 NaN 3.3196 14 9 2 NaN NaN NaN NaN 0 NaN NaN 0 703140 + 14018 14025 8978 8999 0.16848307121586004 KPLFLLIHTK 10 Unmodified _KPLFLLIHTK_ 0 0 0 REV__ENSG00000185624|ENST00000331483|P4HB REV__ENSG00000185624|ENST00000331483|P4HB MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 303.198405 1208.76451 1.8757 0.00056872 1.2302 0.00037299 3.1059 0.00094171 303.19873038556943 44.46 0.099575 44.46 44.379 44.479 0 0.02532 0.00013789 NaN 1.7423 11 6 3 NaN NaN NaN NaN 0 NaN NaN 0 2554700 + 14019 14025 8978 8999 0.16848307121586004 KPLFLLIHTK 10 Unmodified _KPLFLLIHTK_ 0 0 0 REV__ENSG00000185624|ENST00000331483|P4HB REV__ENSG00000185624|ENST00000331483|P4HB MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 403.928781 1208.76451 2.6588 0.001074 1.8242 0.00073684 4.483 0.0018108 403.9293160111196 39.676 0.6481 40.476 40.08 40.729 0.80014 -0.26845 0.00089722 NaN 3.3196 36 31 2 NaN NaN NaN NaN 0 NaN NaN 0 350510 + 14020 14025 8978 8999 0.16848307121586004 KPLFLLIHTK 10 Unmodified _KPLFLLIHTK_ 0 0 0 REV__ENSG00000185624|ENST00000331483|P4HB REV__ENSG00000185624|ENST00000331483|P4HB MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 403.928781 1208.76451 3.1426 0.0012694 0.67164 0.00027129 3.8142 0.0015407 403.9289979125139 40.595 0.90315 40.864 40.257 41.16 0.26904 0.11917 -0.00049943 NaN 3.3196 68 43 2 NaN NaN NaN NaN 0 NaN NaN 0 1484400 + 14021 14025 8978 8999 0.16848307121586004 KPLFLLIHTK 10 Unmodified _KPLFLLIHTK_ 0 0 0 REV__ENSG00000185624|ENST00000331483|P4HB REV__ENSG00000185624|ENST00000331483|P4HB MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 303.198405 1208.76451 1.9963 0.00060529 1.0382 0.00031479 3.0346 0.00092008 303.19857325280503 44.199 0.61219 44.469 44.412 45.025 0.2694 0.034277 -9.4916E-05 NaN 1.7423 87 32 4 NaN NaN NaN NaN 0 NaN NaN 0 6498800 + 14022 14025 8978 8999 0.16848307121586004 KPLFLLIHTK 10 Unmodified _KPLFLLIHTK_ 0 0 0 REV__ENSG00000185624|ENST00000331483|P4HB REV__ENSG00000185624|ENST00000331483|P4HB MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 403.928781 1208.76451 3.1898 0.0012885 1.0009 0.00040428 4.1907 0.0016927 403.9289252581893 40.164 0.3684 40.805 40.489 40.857 0.64136 0.060236 -0.00010047 NaN 3.3196 25 14 3 NaN NaN NaN NaN 0 NaN NaN 0 1179700 + 14023 14025 8978 8999 0.16848307121586004 KPLFLLIHTK 10 Unmodified _KPLFLLIHTK_ 0 0 0 REV__ENSG00000185624|ENST00000331483|P4HB REV__ENSG00000185624|ENST00000331483|P4HB MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 303.198405 1208.76451 2.2664 0.00068717 1.2148 0.00036831 3.4812 0.0010555 303.4495778296517 43.726 0.26356 44.375 44.157 44.42 0.64872 -0.059597 0.00011917 NaN 1.7423 41 19 3 NaN NaN NaN NaN 0 NaN NaN 0 5887700 + 14024 14025 8978 8999 0.16848307121586004 KPLIPGLRKK 10 Unmodified _KPLIPGLRKK_ 0 0 0 nc|ENSG00000145734|A6H8Y1-7|BDP1;nc|ENSG00000145734|A6H8Y1-6|BDP1;ENSG00000145734|ENST00000358731|BDP1 nc|ENSG00000145734|A6H8Y1-7|BDP1 nc|ENSG00000145734|A6H8Y1-7|BDP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.3955078125 2 575.395151 1148.77575 NaN NaN NaN NaN NaN NaN NaN 42.969 1 43.783 43.283 44.283 0.81444 0 0 0 1.0003 1 19540 19540 1.4819 0.95714 1 14025 3485 8979 9000 16122 16122 0.20731129215732835 KPLKKRKGRKP 11 Unmodified _KPLKKRKGRKP_ 0 0 0 nc|ENSG00000116539|Q9NR48|ASH1L;ENSG00000116539|ENST00000392403|ASH1L;ASH1L|p.P1413Sfs*29|1|0.04|ENSG00000116539|chr1:155478634-155478635|-/T|frameshift_variant nc|ENSG00000116539|Q9NR48|ASH1L nc|ENSG00000116539|Q9NR48|ASH1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 668.4541015625 2 668.456605 1334.89866 NaN NaN NaN NaN NaN NaN NaN 29.94 1 30.198 29.698 30.698 0.25804 0 0 0 1.0072 1 13631 13631 1.3295 0.9789 1 14026 2031 8980 9001 16123 16123 0.24460385666998263 KPLKMESVKLL 11 Unmodified _KPLKMESVKLL_ 0 0 0 REV__nc|ENSG00000105227|Q9BXM0-3|PRX REV__nc|ENSG00000105227|Q9BXM0-3|PRX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.67333984375 2 643.399241 1284.78393 NaN NaN NaN NaN NaN NaN NaN 86.277 1 86.277 85.777 86.777 0 0 0 0 1.0074 1 44181 44181 1.0715 0.5467 1 + 14027 11021 8981 9002 16124 16124 0.15292895350216895 KPLKTRAL 8 Unmodified _KPLKTRAL_ 0 0 0 ENSG00000094963|ENST00000209929|FMO2 ENSG00000094963|ENST00000209929|FMO2 ENSG00000094963|ENST00000209929|FMO2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 309.52484130859375 3 309.543038 925.607286 2.0189 0.00062494 -1.0054 -0.0003112 1.0136 0.00031374 309.54259472367994 33.016 0.31034 33.634 33.458 33.768 0.61831 34 15 3 0 0 0 0.14063 1 15117 15117 1.6526 0 1 607980 14028 1112 8982 9003 16125 16125 0.1415064730207405 KPLLDRVWEYR 11 Unmodified _KPLLDRVWEYR_ 0 0 0 REV__nc|ENSG00000108406|Q8IX18-4|DHX40 REV__nc|ENSG00000108406|Q8IX18-4|DHX40 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 738.135498046875 2 737.911893 1473.80923 NaN NaN NaN NaN NaN NaN NaN 46.418 1 47.247 46.747 47.747 0.82915 0 0 0 1.0073 1 21142 21142 1.1933 0 1 + 14029 11143 8983 9004 16126 16126 0.09128086196983531 KPLLITTLKF 10 Unmodified _KPLLITTLKF_ 0 0 0 REV__ENST00000377200.9_1_9:72327522-72327630:-|nuORF REV__ENST00000377200.9_1_9:72327522-72327630:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.112548828125 2 587.383917 1172.75328 NaN NaN NaN NaN NaN NaN NaN 83.736 1 84.399 83.899 84.899 0.66219 0 0 0 1.0015 1 38568 38568 0.40072 0 1 + 14030 15833 8984 9005 16127 16127 0.17381485027431154 KPLLLKLLKS 10 Unmodified _KPLLLKLLKS_ 0 0 0 nc|ENSG00000135679|Q00987-7|MDM2;ENST00000493419.1_1_12:69202221-69210726:+|nuORF;nc|ENSG00000135679|Q00987-5|MDM2;nc|ENSG00000135679|Q00987-10|MDM2;nc|ENSG00000135679|Q00987-9|MDM2;nc|ENSG00000135679|Q00987|MDM2;ENSG00000135679|ENST00000258149|MDM2 nc|ENSG00000135679|Q00987-7|MDM2 nc|ENSG00000135679|Q00987-7|MDM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 577.1979370117188 2 576.907559 1151.80057 NaN NaN NaN NaN NaN NaN NaN 90.693 1 90.693 90.193 91.193 0 0 0 0 0.99812 1 47737 47737 3.2813 1.9518 1 14031 2888 8985 9006 16128 16128 0.23073764298442256 KPLLPGPSR 9 Unmodified _KPLLPGPSR_ 0 0 0 REV__ENST00000466405.1_1_3:39133106-39135740:+|nuORF REV__ENST00000466405.1_1_3:39133106-39135740:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 322.2027587890625 3 322.202793 963.58655 NaN NaN NaN NaN NaN NaN NaN 53.888 1 54.555 54.055 55.055 0.6665 0 0 0 0.91059 1 24644 24644 0.96228 0.26461 1 + 14032 16544 8986 9007 16129 16129 0.10330056922418862 KPLLRKRRLIK 11 Unmodified _KPLLRKRRLIK_ 0 0 0 REV__nc|ENSG00000164066|Q9ULD6-2|INTU REV__nc|ENSG00000164066|Q9ULD6-2|INTU MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 710.543701171875 2 711.00118 1419.98781 NaN NaN NaN NaN NaN NaN NaN 101.48 1 101.48 100.98 101.98 0 0 0 0 1.0082 1 56059 56059 0.30703 0.30703 1 + 14033 13057 8987 9008 16130 16130 0.2946122062653558 KPLLRKRRLIK 11 Unmodified _KPLLRKRRLIK_ 0 0 0 REV__nc|ENSG00000164066|Q9ULD6-2|INTU REV__nc|ENSG00000164066|Q9ULD6-2|INTU MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.33642578125 3 474.336545 1419.98781 NaN NaN NaN NaN NaN NaN NaN 65.517 1 66.226 65.726 66.726 0.70891 0 0 0 1.0082 1 30997 30997 0.08335 0.08335 1 + 14034 13057 8987 9008 16131 16131 0.2946122062653558 KPLLRKRRLIK 11 Unmodified _KPLLRKRRLIK_ 0 0 0 REV__nc|ENSG00000164066|Q9ULD6-2|INTU REV__nc|ENSG00000164066|Q9ULD6-2|INTU MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 710.9992065429688 2 711.00118 1419.98781 NaN NaN NaN NaN NaN NaN NaN 84.497 1 84.744 84.244 85.244 0.24757 0 0 0 1.0082 1 38889 38889 0.30703 0.30703 1 + 14035 13057 8987 9008 16132 16132 0.2946122062653558 KPLLRKRRLIK 11 Unmodified _KPLLRKRRLIK_ 0 0 0 REV__nc|ENSG00000164066|Q9ULD6-2|INTU REV__nc|ENSG00000164066|Q9ULD6-2|INTU MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 711.0012817382812 2 711.00118 1419.98781 NaN NaN NaN NaN NaN NaN NaN 43.074 1 43.723 43.223 44.223 0.64872 0 0 0 1.0082 1 19738 19738 0 0 1 + 14036 13057 8987 9008 16133 16133 0.2946122062653558 KPLLTPYEAAV 11 Unmodified _KPLLTPYEAAV_ 0 0 0 ENSG00000108963|ENST00000263083|DPH1;nc|ENSG00000108963|Q9BZG8-1|DPH1;nc|ENSG00000108963|Q9BZG8-2|DPH1 ENSG00000108963|ENST00000263083|DPH1 ENSG00000108963|ENST00000263083|DPH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 601.3453979492188 2 601.344989 1200.67542 NaN NaN NaN NaN NaN NaN NaN 82.168 1 82.828 82.328 83.328 0.65998 0 0 0 1.0073 1 37861 37861 1.1933 0.66858 1 14037 1661 8988 9009 16134 16134 0.08311427371427271 KPLNMPTRLRT 11 Unmodified _KPLNMPTRLRT_ 0 0 0 REV__nc|ENSG00000109466|O95198-3|KLHL2 REV__nc|ENSG00000109466|O95198-3|KLHL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.8897705078125 2 663.887364 1325.76017 NaN NaN NaN NaN NaN NaN NaN 64.963 1 65.619 65.119 66.119 0.65672 0 0 0 1.0073 1 29782 29782 1.1933 0.12188 1 + 14038 11170 8989 9010 16135 16135 0.11032474636363077 KPLPKVLWRYK 11 Unmodified _KPLPKVLWRYK_ 0 0 0 nc|ENSG00000271271|P0DTE5-2|UGT2A2;ENSG00000173610|ENST00000286604|UGT2A1;nc|ENSG00000173610|P0DTE4-4|UGT2A1 nc|ENSG00000271271|P0DTE5-2|UGT2A2 nc|ENSG00000271271|P0DTE5-2|UGT2A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 714.4485473632812 2 714.447914 1426.88128 NaN NaN NaN NaN NaN NaN NaN 76.886 1 77.549 77.049 78.049 0.66303 0 0 0 1.008 1 35429 35429 0.30703 0 1 14039 4944 8990 9011 16136 16136 0.18491045341329482 KPLPRRERK 9 Unmodified _KPLPRRERK_ 0 0 0 REV__nc|ENSG00000155592|Q63HK3-2|ZKSCAN2 REV__nc|ENSG00000155592|Q63HK3-2|ZKSCAN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.376220703125 2 590.375281 1178.73601 NaN NaN NaN NaN NaN NaN NaN 95.449 1 96.057 95.557 96.557 0.60769 0 0 0 0.91238 1 43894 43894 0.52476 0 1 + 14040 12745 8991 9012 16137 16137 0.15379002265012787 KPLQLPFWWKV 11 Unmodified _KPLQLPFWWKV_ 0 0 0 REV__nc|ENSG00000163521|Q6UWU2-2|GLB1L REV__nc|ENSG00000163521|Q6UWU2-2|GLB1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.61962890625 3 481.283336 1440.82818 3.9038 0.0018788 -0.19216 -9.2482E-05 3.7116 0.0017863 481.28316099005144 98.34 0.30694 98.64 98.437 98.744 0.29987 64 30 3 0 0 0 0.91359 1 45226 45226 0.40827 0 1 2971100 + 14041 12996 8992 9013 16138 16138 0.12539667558667134 KPLRDRIRPKR 11 Unmodified _KPLRDRIRPKR_ 0 0 0 REV__ENSG00000121361|ENST00000240662|KCNJ8 REV__ENSG00000121361|ENST00000240662|KCNJ8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.97674560546875 3 478.975788 1433.90553 3.3214 0.0015909 -1.6006 -0.00076663 1.7209 0.00082426 478.9748685031619 105.51 0.21704 106.11 105.99 106.21 0.59969 13 9 2 0 0 0 0.91111 1 48735 48735 0.40827 0.31342 1 785030 + 14042 11555 8993 9014 16139 16139 0.20593698547554595 KPLREPHTR 9 Unmodified _KPLREPHTR_ 0 0 0 REV__nc|nan|Q8ND61-2|C3orf20 REV__nc|nan|Q8ND61-2|C3orf20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3311767578125 2 567.330539 1132.64652 3.6436 0.0020671 -0.87711 -0.00049761 2.7665 0.0015695 567.3299142838137 85.817 1.6519 86.066 85.213 86.865 0.24857 189 85 3 0 0 0 1.129 1 39521 39521 1.8442 0 1 2716600 + 14043 11855 8994 9015 16140 16140 0.08550747585650242 KPLRILGKRRL 11 Unmodified _KPLRILGKRRL_ 0 0 0 REV__ENST00000513986.1_1_5:124082024-124082123:-|nuORF REV__ENST00000513986.1_1_5:124082024-124082123:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 675.4652099609375 2 675.46443 1348.91431 NaN NaN NaN NaN NaN NaN NaN 22.092 1 22.68 22.18 23.18 0.58739 0 0 0 1.008 1 9822 9822 0.30703 0.30703 1 + 14044 16997 8995 9016 16141 16141 0.2538067218406468 KPLRILGKRRL 11 Unmodified _KPLRILGKRRL_ 0 0 0 REV__ENST00000513986.1_1_5:124082024-124082123:-|nuORF REV__ENST00000513986.1_1_5:124082024-124082123:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 675.8186645507812 2 675.46443 1348.91431 NaN NaN NaN NaN NaN NaN NaN 90.288 1 90.353 89.853 90.853 0.064346 0 0 0 1.008 1 46489 46489 0.30703 0.30703 1 + 14045 16997 8995 9016 16142 16142 0.2538067218406468 KPLRILNILL 10 Unmodified _KPLRILNILL_ 0 0 0 ENST00000476968.5_1_1:32560475-32568271:+|nuORF;nc|ENSG00000121775|Q9GZU3-4|TMEM39B;ENST00000468135.5_1_1:32542241-32568271:+|nuORF;ENSG00000121775|ENST00000336294|TMEM39B ENST00000476968.5_1_1:32560475-32568271:+|nuORF ENST00000476968.5_1_1:32560475-32568271:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.9098510742188 2 596.910633 1191.80671 NaN NaN NaN NaN NaN NaN NaN 43.733 1 43.733 43.233 44.233 0 0 0 0 1.0001 1 19947 19947 1.6526 1.0511 1 14046 2243 8996 9017 16143 16143 0.21848282529981589 KPLRPILAARL 11 Unmodified _KPLRPILAARL_ 0 0 0 ENST00000526246.5_1_11:66099749-66102792:-|nuORF;ENSG00000174791|ENST00000311320|RIN1 ENST00000526246.5_1_11:66099749-66102792:-|nuORF ENST00000526246.5_1_11:66099749-66102792:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 624.2393188476562 2 624.419157 1246.82376 NaN NaN NaN NaN NaN NaN NaN 14.164 1 14.39 13.89 14.89 0.22622 0 0 0 1.008 1 6218 6218 0.30703 0.30703 1 14047 4996 8997 9018 16144 16144 0.21022203135771633 KPLRRQSWLG 10 Unmodified _KPLRRQSWLG_ 0 0 0 REV__nc|ENSG00000183495|Q96L91-4|EP400 REV__nc|ENSG00000183495|Q96L91-4|EP400 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.1947631835938 2 620.867289 1239.72002 NaN NaN NaN NaN NaN NaN NaN 79.716 1 80.036 79.536 80.536 0.31998 0 0 0 1.0003 1 38948 38948 1.4819 0 1 + 14048 13936 8998 9019 16145 16145 0.10975296028118464 KPLRTKRKKP 10 Unmodified _KPLRTKRKKP_ 0 0 0 ENSG00000072840|ENST00000264956|EVC ENSG00000072840|ENST00000264956|EVC ENSG00000072840|ENST00000264956|EVC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 626.5009155273438 2 626.422231 1250.82991 NaN NaN NaN NaN NaN NaN NaN 98.093 1 98.159 97.659 98.659 0.066025 0 0 0 1.0015 1 52635 52635 0.40072 0.050084 1 14049 797 8999 9020 16146 16146 0.21452721367268168 KPLRYKERLHV 11 Unmodified _KPLRYKERLHV_ 0 0 0 REV__ENSG00000166569|ENST00000299721|CPLX4 REV__ENSG00000166569|ENST00000299721|CPLX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 719.9368896484375 2 719.935702 1437.85685 NaN NaN NaN NaN NaN NaN NaN 68.915 1 69.574 69.074 70.074 0.65924 0 0 0 1.008 1 31590 31590 0.30703 0 1 + 14050 13247 9000 9021 16147 16147 0.15543785187833237 KPLVALFVM 9 Unmodified _KPLVALFVM_ 0 0 0 REV__ENST00000559781.5_1_15:81650758-81654299:+|nuORF REV__ENST00000559781.5_1_15:81650758-81654299:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.31292724609375 2 509.311906 1016.60926 3.4885 0.0017768 -0.98958 -0.000504 2.499 0.0012728 509.3114783047193 88.894 0.20592 89.572 89.516 89.721 0.67818 12 7 2 0 0 0 1.178 1 40963 40963 2.0598 0 1 737280 + 14051 17358 9001 9022 16148 16148 0.10161939995668945 KPLVALFVM 9 Unmodified _KPLVALFVM_ 0 0 0 REV__ENST00000559781.5_1_15:81650758-81654299:+|nuORF REV__ENST00000559781.5_1_15:81650758-81654299:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 509.311906 1016.60926 3.6418 0.0018548 -0.71294 -0.00036311 2.9289 0.0014917 509.31088402292363 89.316 0.090073 89.567 89.516 89.607 0.25118 -0.0026645 0.00023561 NaN 2.0598 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 490560 + 14052 17358 9001 9022 0.10161939995668945 KPLVALFVM 9 Unmodified _KPLVALFVM_ 0 0 0 REV__ENST00000559781.5_1_15:81650758-81654299:+|nuORF REV__ENST00000559781.5_1_15:81650758-81654299:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 509.311906 1016.60926 3.4885 0.0017768 -0.98958 -0.000504 2.499 0.0012728 509.3114783047193 88.894 0.20592 89.572 89.516 89.721 0.67818 0.0026645 -4.6177E-05 NaN 2.0598 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 737280 + 14053 17358 9001 9022 0.10161939995668945 KPLVKIIPKLL 11 Unmodified _KPLVKIIPKLL_ 0 0 0 REV__nc|ENSG00000175216|Q14008-2|CKAP5 REV__nc|ENSG00000175216|Q14008-2|CKAP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 631.5234375 2 631.452134 1260.88972 NaN NaN NaN NaN NaN NaN NaN 71.679 1 72.383 71.883 72.883 0.70386 0 0 0 1.008 1 34443 34443 0.30703 0.30703 1 + 14054 13666 9002 9023 16149 16149 0.26970599257970207 KPLWLRPLR 9 Unmodified _KPLWLRPLR_ 0 0 0 REV__ENST00000555228.5_1_14:74318578-74325566:+|nuORF REV__ENST00000555228.5_1_14:74318578-74325566:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.8773193359375 2 589.879668 1177.74478 NaN NaN NaN NaN NaN NaN NaN 42.727 1 43.536 43.036 44.036 0.80855 0 0 0 0.91238 1 19421 19421 0.52476 0.17413 1 + 14055 17318 9003 9024 16150 16150 0.16301975901501464 KPMEKISL 8 Unmodified _KPMEKISL_ 0 0 0 ZNF326|p.S270A|1|0.32|ENSG00000162664|chr1:90010280-90010280|T/G|missense_variant;nc|ENSG00000162664|Q5BKZ1-3|ZNF326;ENST00000394583.7_1_1:90470639-90493257:+|nuORF;ZNF326|p.I535Lfs*5|1|0.04|ENSG00000162664|chr1:90027553-90027554|-/TT|frameshift_variant;ENSG00000162664|ENST00000340281|ZNF326 ZNF326|p.S270A|1|0.32|ENSG00000162664|chr1:90010280-90010280|T/G|missense_variant ZNF326|p.S270A|1|0.32|ENSG00000162664|chr1:90010280-90010280|T/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.27642822265625 2 473.275521 944.536489 NaN NaN NaN NaN NaN NaN NaN 29.571 1 29.571 29.071 30.071 0 0 0 0 0.57508 1 13348 13348 26.268 3.1197 1 14056 4155 9004 9025 16151 16151 0.06200186202261193 KPMEKISL 8 Unmodified _KPMEKISL_ 0 0 0 ZNF326|p.S270A|1|0.32|ENSG00000162664|chr1:90010280-90010280|T/G|missense_variant;nc|ENSG00000162664|Q5BKZ1-3|ZNF326;ENST00000394583.7_1_1:90470639-90493257:+|nuORF;ZNF326|p.I535Lfs*5|1|0.04|ENSG00000162664|chr1:90027553-90027554|-/TT|frameshift_variant;ENSG00000162664|ENST00000340281|ZNF326 ZNF326|p.S270A|1|0.32|ENSG00000162664|chr1:90010280-90010280|T/G|missense_variant ZNF326|p.S270A|1|0.32|ENSG00000162664|chr1:90010280-90010280|T/G|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.2774353027344 2 473.275521 944.536489 2.986 0.0014132 -0.10133 -4.7955E-05 2.8847 0.0013652 473.27539448781357 28.907 0.3067 29.525 29.41 29.717 0.61789 36 25 2 0 0 0 0.031168 2 13296 13249;13296 76.825 11.692 1 766180 14057 4155 9004 9025 16152;16153 16153 0.06200186202261193 KPMEKLLGL 9 Unmodified _KPMEKLLGL_ 0 0 0 ENSG00000182180|ENST00000372945|MRPS16;ENST00000473427.1_1_10:75010612-75012314:-|nuORF;ENST00000471251.5_1_10:75010612-75012041:-|nuORF ENSG00000182180|ENST00000372945|MRPS16 ENSG00000182180|ENST00000372945|MRPS16 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.8140258789062 2 514.81227 1027.60999 NaN NaN NaN NaN NaN NaN NaN 47.557 1 48.386 47.886 48.886 0.82915 0 0 0 0.26309 1 21668 21668 28.495 6.9575 1 14058 5317 9005 9026 16154 16154 0.0972873464472741 KPMEKLLGL 9 Unmodified _KPMEKLLGL_ 0 0 0 ENSG00000182180|ENST00000372945|MRPS16;ENST00000473427.1_1_10:75010612-75012314:-|nuORF;ENST00000471251.5_1_10:75010612-75012041:-|nuORF ENSG00000182180|ENST00000372945|MRPS16 ENSG00000182180|ENST00000372945|MRPS16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.813720703125 2 514.81227 1027.60999 3.486 0.0017946 0.87346 0.00044967 4.3594 0.0022443 514.8125776773303 47.933 0.24963 48.586 48.432 48.682 0.65356 15 9 2 0 0 0 0.023321 1 21930 21930 63.961 6.2385 1 410940 14059 5317 9005 9026 16155 16155 0.0972873464472741 KPMEKLLGL 9 Unmodified _KPMEKLLGL_ 0 0 0 ENSG00000182180|ENST00000372945|MRPS16;ENST00000473427.1_1_10:75010612-75012314:-|nuORF;ENST00000471251.5_1_10:75010612-75012041:-|nuORF ENSG00000182180|ENST00000372945|MRPS16 ENSG00000182180|ENST00000372945|MRPS16 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 514.81227 1027.60999 3.5848 0.0018455 0.079293 4.0821E-05 3.6641 0.0018863 514.8123148329403 48.568 0.22551 48.83 48.677 48.902 0.26209 0.12185 -0.00049723 NaN 63.961 13 10 2 NaN NaN NaN NaN 0 NaN NaN 0 570370 14060 5317 9005 9026 0.0972873464472741 KPMELREL 8 Unmodified _KPMELREL_ 0 0 0 REV__nc|ENSG00000064042|Q9UPQ0-9|LIMCH1 REV__nc|ENSG00000064042|Q9UPQ0-9|LIMCH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.191650390625 3 339.191677 1014.5532 NaN NaN NaN NaN NaN NaN NaN 12.664 1 12.664 12.164 13.164 0 0 0 0 0.967 1 5520 5520 5.7319 2.1354 1 + 14061 10408 9006 9027 16156 16156 0.04650687088224004 KPMKKRKG 8 Unmodified _KPMKKRKG_ 0 0 0 REV__nc|ENSG00000158321|Q8WXX7-3|AUTS2 REV__nc|ENSG00000158321|Q8WXX7-3|AUTS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.81097412109375 2 486.810396 971.60624 NaN NaN NaN NaN NaN NaN NaN 83.891 1 84.553 84.053 85.053 0.66219 0 0 0 0.99035 1 38640 38640 2.3027 0.24298 1 + 14062 12821 9007 9028 16157 16157 0.11930109661534516 KPMKLKLTI 9 Unmodified _KPMKLKLTI_ 0 0 0 REV__ENSG00000102221|ENST00000614628|JADE3 REV__ENSG00000102221|ENST00000614628|JADE3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.75244140625 2 536.351563 1070.68857 NaN NaN NaN NaN NaN NaN NaN 66.39 1 66.638 66.138 67.138 0.24848 0 0 0 0.90699 1 30415 30415 1.8442 1.2427 1 + 14063 10923 9008 9029 16158 16158 0.15605586949823191 KPMKLKLTIRP 11 Unmodified _KPMKLKLTIRP_ 0 0 0 REV__ENSG00000102221|ENST00000614628|JADE3 REV__ENSG00000102221|ENST00000614628|JADE3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 442.286865234375 3 442.288092 1323.84245 NaN NaN NaN NaN NaN NaN NaN 62.651 1 62.651 62.151 63.151 0 0 0 0 1.0074 1 29378 29378 1.1098 0.41209 1 + 14064 10923 9009 9030 16159 16159 0.19347996715328009 KPMKLLFA 8 Unmodified _KPMKLLFA_ 0 0 0 REV__ENST00000321250.12_1_8:29964894-29965068:+|nuORF REV__ENST00000321250.12_1_8:29964894-29965068:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.2919921875 2 474.290974 946.567395 3.3537 0.0015906 -0.010837 -5.1398E-06 3.3428 0.0015855 474.2908953235875 89.782 0.33878 90.034 89.882 90.221 0.25137 26 14 3 0 0 0 0.7441 1 41291 41291 2.3027 2.3027 1 836340 + 14065 15318 9010 9031 16160 16160 0.09197384307162793 KPMKLLFA 8 Unmodified _KPMKLLFA_ 0 0 0 REV__ENST00000321250.12_1_8:29964894-29965068:+|nuORF REV__ENST00000321250.12_1_8:29964894-29965068:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.8035583496094 2 474.290974 946.567395 3.2056 0.0015204 0.069924 3.3164E-05 3.2756 0.0015536 474.2909201347593 89.495 0.30524 90.173 89.981 90.287 0.67818 31 14 3 0 0 0 0.7441 3 41153 41153;41159;41211 2.3027 2.3027 1 883140 + 14066 15318 9010 9031 16161;16162;16163 16161 0.09197384307162793 KPMKLLFA 8 Unmodified _KPMKLLFA_ 0 0 0 REV__ENST00000321250.12_1_8:29964894-29965068:+|nuORF REV__ENST00000321250.12_1_8:29964894-29965068:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 474.290974 946.567395 3.3537 0.0015906 -0.010837 -5.1398E-06 3.3428 0.0015855 474.2908953235875 89.782 0.33878 90.034 89.882 90.221 0.25137 -0.069598 -2.9512E-05 NaN 2.3027 26 14 3 NaN NaN NaN NaN 0 NaN NaN 0 836340 + 14067 15318 9010 9031 0.09197384307162793 KPMKRSLSF 9 Unmodified _KPMKRSLSF_ 0 0 0 REV__ENST00000311212.8_1_8:102213857-102217695:-|nuORF REV__ENST00000311212.8_1_8:102213857-102217695:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 365.2115783691406 3 365.211071 1092.61138 2.7676 0.0010108 -2.0018 -0.00073107 0.76585 0.0002797 365.21102491557326 18.418 0.38905 18.418 18.257 18.647 0 47 21 3 0 0 0 0.43294 2 8174 8174;8220 13.615 6.5131 1 270930 + 14068 15266 9011 9032 16164;16165 16164 0.0687836873348715 KPMMKEFRF 9 Unmodified _KPMMKEFRF_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.2742614746094 3 405.212195 1212.61476 3.0655 0.0012422 -0.40751 -0.00016513 2.658 0.0010771 405.21215775349515 36.948 0.60676 37.206 36.868 37.475 0.25768 30 19 2 0 0 0 0.07336 1 16832 16832 27.088 19.143 1 385200 14069 1384 9012 9033 16166 16166 0.01695295515833095 KPMMKEFRF 9 Unmodified _KPMMKEFRF_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.52557373046875 3 405.212195 1212.61476 3.0651 0.001242 -0.81156 -0.00032885 2.2536 0.00091317 405.21210593049113 36.236 0.60938 36.862 36.635 37.245 0.62631 41 20 3 0 0 0 0.086854 1 16595 16595 21.799 17.923 1 706060 14070 1384 9012 9033 16167 16167 0.01695295515833095 KPMMKEFRF 9 Unmodified _KPMMKEFRF_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 405.212195 1212.61476 2.6898 0.00109 -0.32025 -0.00012977 2.3696 0.00096018 405.21221162601444 36.934 0.53247 36.934 36.712 37.244 0 -0.066255 0.00018983 NaN 27.088 50 21 3 NaN NaN NaN NaN 0 NaN NaN 0 737520 14071 1384 9012 9033 0.01695295515833095 KPMRKESSL 9 Unmodified _KPMRKESSL_ 0 0 0 ENST00000412638.2_1_1:227884598-227884916:-|nuORF ENST00000412638.2_1_1:227884598-227884916:-|nuORF ENST00000412638.2_1_1:227884598-227884916:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.3028564453125 2 538.300059 1074.58556 NaN NaN NaN NaN NaN NaN NaN 17.786 1 18.447 17.947 18.947 0.66072 0 0 0 0.89602 1 8034 8034 3.9444 3.254 1 14072 7682 9013 9034 16168 16168 0.05125474491228488 KPMTMKPMKF 10 Unmodified _KPMTMKPMKF_ 0 0 0 REV__nc|ENSG00000105227|Q9BXM0-3|PRX REV__nc|ENSG00000105227|Q9BXM0-3|PRX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.554931640625 3 413.553452 1237.63853 2.9169 0.0012063 -0.23521 -9.7273E-05 2.6817 0.001109 413.55340504886055 43.192 0.70574 43.462 43.21 43.916 0.27021 74 53 2 0 0 0 0.82036 1 19875 19875 7.4771 2.4295 1 4910600 + 14073 11021 9014 9035 16169 16169 0.029213929579782416 KPMTMKPMKF 10 Unmodified _KPMTMKPMKF_ 0 0 0 REV__nc|ENSG00000105227|Q9BXM0-3|PRX REV__nc|ENSG00000105227|Q9BXM0-3|PRX MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.5548400878906 3 413.553452 1237.63853 2.9169 0.0012063 -0.23521 -9.7273E-05 2.6817 0.001109 413.55340504886055 43.192 0.70574 43.462 43.21 43.916 0.27021 74 53 2 0 0 0 0.12422 1 19637 19637 19.987 16.667 1 4910600 + 14074 11021 9014 9035 16170 16170 0.029213929579782416 KPMWLHKGWQ 10 Unmodified _KPMWLHKGWQ_ 0 0 0 ENSG00000205929|ENST00000479548|C21orf62 ENSG00000205929|ENST00000479548|C21orf62 ENSG00000205929|ENST00000479548|C21orf62 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 655.843994140625 2 655.844968 1309.67538 NaN NaN NaN NaN NaN NaN NaN 87.997 1 88.675 88.175 89.175 0.67818 0 0 0 0.99812 1 40530 40530 3.2813 1.7994 1 14075 6062 9015 9036 16171 16171 0.0329314889042962 KPNFVNKK 8 Unmodified _KPNFVNKK_ 0 0 0 REV__ENSG00000163104|ENST00000354268|SMARCAD1 REV__ENSG00000163104|ENST00000354268|SMARCAD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.7928466796875 2 487.792727 973.5709 NaN NaN NaN NaN NaN NaN NaN 75.848 1 76.512 76.012 77.012 0.66387 0 0 0 0.967 1 34950 34950 7.9102 0.62092 1 + 14076 12976 9016 9037 16172 16172 0.08305770405377189 KPNIEFLILEI 11 Unmodified _KPNIEFLILEI_ 0 0 0 REV__nc|ENSG00000179869|Q86UQ4|ABCA13 REV__nc|ENSG00000179869|Q86UQ4|ABCA13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 664.8944091796875 2 664.894846 1327.77514 NaN NaN NaN NaN NaN NaN NaN 49.943 1 50.766 50.266 51.266 0.82285 0 0 0 1.0074 1 22750 22750 1.0715 0.61312 1 + 14077 13808 9017 9038 16173 16173 0.12436244985383382 KPNKRRGFS 9 Unmodified _KPNKRRGFS_ 0 0 0 ENSG00000112273|ENST00000510882|HDGFL1 ENSG00000112273|ENST00000510882|HDGFL1 ENSG00000112273|ENST00000510882|HDGFL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3182373046875 2 545.317432 1088.62031 3.4792 0.0018973 -0.81329 -0.0004435 2.6659 0.0014538 545.3169124440693 83.541 1.7312 83.788 83.088 84.819 0.24722 279 102 3 0 0 0 1.129 1 38791 38791 1.8442 0.19162 1 2574300 14078 1799 9018 9039 16174 16174 0.07954478414194455 KPNKVKKIK 9 Unmodified _KPNKVKKIK_ 0 0 0 nc|ENSG00000091656|Q86UP3|ZFHX4;nc|ENSG00000091656|Q86UP3-4|ZFHX4;nc|ENSG00000091656|Q86UP3-2|ZFHX4;ENSG00000091656|ENST00000651372|ZFHX4 nc|ENSG00000091656|Q86UP3|ZFHX4 nc|ENSG00000091656|Q86UP3|ZFHX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.8762817382812 2 541.874051 1081.73355 NaN NaN NaN NaN NaN NaN NaN 72.206 1 72.465 71.965 72.965 0.25876 0 0 0 0.8984 1 33143 33143 3.9444 0.3479 1 14079 1081 9019 9040 16175 16175 0.19595153807358656 KPNRFQPELSA 11 Unmodified _KPNRFQPELSA_ 0 0 0 nc|ENSG00000170175|P11230-2|CHRNB1;ENSG00000170175|ENST00000306071|CHRNB1 nc|ENSG00000170175|P11230-2|CHRNB1 nc|ENSG00000170175|P11230-2|CHRNB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 643.8469848632812 2 643.846219 1285.67788 NaN NaN NaN NaN NaN NaN NaN 80.636 1 81.296 80.796 81.796 0.65998 0 0 0 1.0063 1 37156 37156 2.4985 0.21571 1 14080 4733 9020 9041 16176 16176 0.046472758290974525 KPPHVQQM 8 Unmodified _KPPHVQQM_ 0 0 0 REV__ENSG00000140943|ENST00000343411|MBTPS1 REV__ENSG00000140943|ENST00000343411|MBTPS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.7569580078125 2 482.755287 963.496021 3.0648 0.0014796 0.46152 0.0002228 3.5263 0.0017024 482.75551258922854 15.352 0.62356 15.563 15.383 16.007 0.21108 169 93 2 0 0 0 0.7441 1 6949 6949 2.3027 0.65011 1 151800 + 14081 12270 9021 9042 16177 16177 0.012812646024940477 KPPKKKKKKRR 11 Unmodified _KPPKKKKKKRR_ 0 0 0 ENSG00000160818|ENST00000368232|GPATCH4;nc|ENSG00000160818|Q5T3I0-3|GPATCH4 ENSG00000160818|ENST00000368232|GPATCH4 ENSG00000160818|ENST00000368232|GPATCH4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 711.8246459960938 2 711.498804 1420.98306 NaN NaN NaN NaN NaN NaN NaN 90.459 1 90.459 89.959 90.959 0 0 0 0 1.008 1 47553 47553 0.30703 0.30703 1 14082 4082 9022 9043 16178 16178 0.2894033648376535 KPPKKLPLVI 10 Unmodified _KPPKKLPLVI_ 0 0 0 REV__nc|ENSG00000138674|O94979-5|SEC31A REV__nc|ENSG00000138674|O94979-5|SEC31A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.9501953125 2 566.894452 1131.77435 NaN NaN NaN NaN NaN NaN NaN 77.934 1 78.495 77.995 78.995 0.56091 0 0 0 1.0015 1 37844 37844 0.40072 0 1 + 14083 12182 9023 9044 16179 16179 0.21373495126977105 KPPKVIRLKYR 11 Unmodified _KPPKVIRLKYR_ 0 0 0 REV__nc|ENSG00000176302|Q6PIV2-2|FOXR1 REV__nc|ENSG00000176302|Q6PIV2-2|FOXR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 699.4567260742188 2 699.458813 1396.90307 NaN NaN NaN NaN NaN NaN NaN 76.322 1 76.985 76.485 77.485 0.66387 0 0 0 1.008 1 35159 35159 0.30703 0 1 + 14084 13701 9024 9045 16180 16180 0.2204985008991116 KPPLKRAPP 9 Unmodified _KPPLKRAPP_ 0 0 0 REV__ENST00000462304.5_1_6:30596186-30613691:+|nuORF REV__ENST00000462304.5_1_6:30596186-30613691:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.32415771484375 2 502.324194 1002.63383 NaN NaN NaN NaN NaN NaN NaN 91.64 1 91.892 91.392 92.392 0.25163 0 0 0 0.90699 1 42136 42136 1.8442 0 1 + 14085 16505 9025 9046 16181 16181 0.13262336193406554 KPPLVPLKLL 10 Unmodified _KPPLVPLKLL_ 0 0 0 REV__ENSG00000106809|ENST00000375561|OGN REV__ENSG00000106809|ENST00000375561|OGN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.6463012695312 2 559.389003 1116.76345 NaN NaN NaN NaN NaN NaN NaN 76.817 1 76.817 76.317 77.317 0 0 0 0 1.0015 1 37654 37654 0.40072 0.40072 1 + 14086 11100 9026 9047 16182 16182 0.20974092752703655 KPPPSWSAMRN 11 Unmodified _KPPPSWSAMRN_ 0 0 0 nc|ENSG00000125630|Q9H9Y6-4|POLR1B;nc|ENSG00000125630|Q9H9Y6-5|POLR1B;nc|ENSG00000125630|Q9H9Y6-2|POLR1B;ENSG00000125630|ENST00000263331|POLR1B;nc|ENSG00000125630|Q9H9Y6-3|POLR1B nc|ENSG00000125630|Q9H9Y6-4|POLR1B nc|ENSG00000125630|Q9H9Y6-4|POLR1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 635.9873046875 2 635.821689 1269.62883 NaN NaN NaN NaN NaN NaN NaN 13.889 1 14.133 13.633 14.633 0.24346 0 0 0 1.0047 1 6091 6091 4.5289 1.2476 1 14087 2408 9027 9048 16183 16183 0.004796642684823382 KPPRGRKRKL 10 Unmodified _KPPRGRKRKL_ 0 0 0 REV__ENSG00000126705|ENST00000673934|AHDC1 REV__ENSG00000126705|ENST00000673934|AHDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 618.4124755859375 2 618.412198 1234.80984 NaN NaN NaN NaN NaN NaN NaN 48.5 1 49.327 48.827 49.827 0.82705 0 0 0 1.0015 1 22095 22095 0.40072 0 1 + 14088 11716 9028 9049 16184 16184 0.20182970427367763 KPPRHHHL 8 Unmodified _KPPRHHHL_ 0 0 0 ENST00000571802.1_1_17:7296826-7297836:-|nuORF;ENST00000573774.5_1_17:7297219-7297836:-|nuORF;ENST00000571541.5_1_17:7297219-7297795:-|nuORF ENST00000571802.1_1_17:7296826-7297836:-|nuORF ENST00000571802.1_1_17:7296826-7297836:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 341.2346496582031 3 341.198265 1020.57297 2.5225 0.00086068 -2.0655 -0.00070476 0.45699 0.00015592 341.19768177927654 12.689 0.17237 12.689 12.66 12.833 0 11 9 2 0 0 0 0.141 1 5558 5558 3.5965 0 1 823710 14089 9089 9029 9050 16185 16185 0.06350243933832189 KPPRRPKKR 9 Unmodified _KPPRRPKKR_ 0 0 0 ENST00000600714.5_1_19:53158930-53164070:-|nuORF;ENST00000602232.5_1_19:53138393-53164070:-|nuORF ENST00000600714.5_1_19:53158930-53164070:-|nuORF ENST00000600714.5_1_19:53158930-53164070:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.8873901367188 2 581.885816 1161.75708 NaN NaN NaN NaN NaN NaN NaN 79.68 1 80 79.5 80.5 0.31998 0 0 0 0.91238 1 38930 38930 0.52476 0 1 14090 9297 9030 9051 16186 16186 0.18267012364549373 KPPSPIIV 8 Unmodified _KPPSPIIV_ 0 0 0 REV__nc|ENSG00000148143|Q96JM2-2|ZNF462 REV__nc|ENSG00000148143|Q96JM2-2|ZNF462 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 425.7765197753906 2 425.773471 849.53239 NaN NaN NaN NaN NaN NaN NaN 57.85 1 58.112 57.612 58.612 0.26227 0 0 0 0.99035 1 26486 26486 0.69038 0 1 + 14091 12523 9031 9052 16187 16187 0.10160464770865474 KPQKKVRPKPV 11 Unmodified _KPQKKVRPKPV_ 0 0 0 REV__CHD2|p.N1397Tfs*9|1|0.25|ENSG00000173575|chr15:93002227-93002227|G/-|frameshift_variant REV__CHD2|p.N1397Tfs*9|1|0.25|ENSG00000173575|chr15:93002227-93002227|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 652.9293212890625 2 652.929889 1303.84522 NaN NaN NaN NaN NaN NaN NaN 63.811 1 64.527 64.027 65.027 0.71521 0 0 0 1.0061 1 29938 29938 2.7352 1.5419 1 + 14092 10004 9032 9053 16188 16188 0.20545588164486617 KPQLAPWIRER 11 Unmodified _KPQLAPWIRER_ 0 0 0 REV__nc|ENSG00000165238|Q9Y3S1-3|WNK2 REV__nc|ENSG00000165238|Q9Y3S1-3|WNK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 697.40576171875 2 697.406778 1392.799 NaN NaN NaN NaN NaN NaN NaN 57.212 1 57.212 56.712 57.712 0 0 0 0 1.0074 1 26363 26363 1.0715 0.10919 1 + 14093 13147 9033 9054 16189 16189 0.11831523262389965 KPQLHRFE 8 Unmodified _KPQLHRFE_ 0 0 0 REV__ENST00000495849.5_1_2:191897681-192012929:-|nuORF REV__ENST00000495849.5_1_2:191897681-192012929:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.7951049804688 2 527.793258 1053.57196 NaN NaN NaN NaN NaN NaN NaN 22.53 1 22.53 22.03 23.03 0 0 0 0 0.99035 1 10102 10102 4.3292 1.7518 1 + 14094 12160 9034 9055 16190 16190 0.047319847742983256 KPQMCKRKKKI 11 Unmodified _KPQMCKRKKKI_ 0 0 0 REV__nc|ENSG00000147316|Q8NEM0-2|MCPH1 REV__nc|ENSG00000147316|Q8NEM0-2|MCPH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.2862548828125 3 463.284465 1386.83157 3.4419 0.0015946 -0.0033668 -1.5598E-06 3.4385 0.001593 463.28458981074084 95.478 0.94168 95.745 95.086 96.028 0.2675 92 56 2 0 0 0 0.91391 2 43838 43838;43889 0.08335 0 1 490620 + 14095 12503 9035 9056 16191;16192 16191 0.15362271069398048 KPQMCKRKKKI 11 Unmodified _KPQMCKRKKKI_ 0 0 0 REV__nc|ENSG00000147316|Q8NEM0-2|MCPH1 REV__nc|ENSG00000147316|Q8NEM0-2|MCPH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.2853698730469 3 463.284465 1386.83157 3.0364 0.0014067 0.017108 7.9258E-06 3.0536 0.0014147 463.28472184307657 94.94 1.0148 95.558 94.852 95.867 0.61737 86 55 3 0 0 0 0.91391 2 43630 43630;43738 0.08335 0 1 872540 + 14096 12503 9035 9056 16193;16194 16193 0.15362271069398048 KPQMCKRKKKI 11 Unmodified _KPQMCKRKKKI_ 0 0 0 REV__nc|ENSG00000147316|Q8NEM0-2|MCPH1 REV__nc|ENSG00000147316|Q8NEM0-2|MCPH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 695.044921875 2 694.423059 1386.83157 4.1631 0.002891 -1.8718 -0.0012998 2.2913 0.0015911 694.420591477667 105.77 0.12129 106.37 106.29 106.41 0.59969 6 3 2 0 0 0 0.91111 1 48853 48853 1.1933 0.84271 1 575310 + 14097 12503 9035 9056 16195 16195 0.15362271069398048 KPQMCKRKKKI 11 Unmodified _KPQMCKRKKKI_ 0 0 0 REV__nc|ENSG00000147316|Q8NEM0-2|MCPH1 REV__nc|ENSG00000147316|Q8NEM0-2|MCPH1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 694.423059 1386.83157 4.6292 0.0032146 -1.5824 -0.0010988 3.0468 0.0021158 694.4217327104715 105.78 0.15347 106.1 106.02 106.17 0.31782 -0.13544 0.00010626 NaN 1.1933 11 6 2 NaN NaN NaN NaN 0 NaN NaN 0 638400 + 14098 12503 9035 9056 0.15362271069398048 KPQMCKRKKKI 11 Unmodified _KPQMCKRKKKI_ 0 0 0 REV__nc|ENSG00000147316|Q8NEM0-2|MCPH1 REV__nc|ENSG00000147316|Q8NEM0-2|MCPH1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 694.423059 1386.83157 4.1631 0.002891 -1.8718 -0.0012998 2.2913 0.0015911 694.420591477667 105.77 0.12129 106.37 106.29 106.41 0.59969 0.13544 -0.0002957 NaN 1.1933 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 575310 + 14099 12503 9035 9056 0.15362271069398048 KPQRWGKNRA 10 Unmodified _KPQRWGKNRA_ 0 0 0 L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|130|3|sense;L1PA4_dup1628|chr2:208784257-208790424:+|1.0623077957396911|0.1813551409053674|2.55|524.0|10|1|sense L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|130|3|sense L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|130|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 620.8524169921875 2 620.854712 1239.69487 NaN NaN NaN NaN NaN NaN NaN 51.715 1 51.715 51.215 52.215 0 0 0 0 1.0003 1 23675 23675 1.4819 0.41044 1 14100 9465 9036 9057 16196 16196 0.08461241225563754 KPQSQRFNREI 11 Unmodified _KPQSQRFNREI_ 0 0 0 REV__ENSG00000170396|ENST00000302277|ZNF804A REV__ENSG00000170396|ENST00000302277|ZNF804A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 701.8839721679688 2 701.881124 1401.7477 NaN NaN NaN NaN NaN NaN NaN 92.525 1 93.172 92.672 93.672 0.64714 0 0 0 1.0079 1 42569 42569 0.30703 0 1 + 14101 13434 9037 9058 16197 16197 0.06289154497721938 KPRALVRTRT 10 Unmodified _KPRALVRTRT_ 0 0 0 ENSG00000100557|ENST00000216445|CCDC198 ENSG00000100557|ENST00000216445|CCDC198 ENSG00000100557|ENST00000216445|CCDC198 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 599.38232421875 2 599.380563 1196.74657 4.5625 0.0027347 -1.8821 -0.0011281 2.6805 0.0016066 599.3794153052147 99.387 0.172 99.695 99.626 99.798 0.30835 20 9 3 0 0 0 0.94134 1 45913 45913 1.4819 1.0236 1 6481800 14102 1226 9038 9059 16198 16198 0.15606984919440947 KPRALVRTRT 10 Unmodified _KPRALVRTRT_ 0 0 0 ENSG00000100557|ENST00000216445|CCDC198 ENSG00000100557|ENST00000216445|CCDC198 ENSG00000100557|ENST00000216445|CCDC198 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 599.380563 1196.74657 4.5625 0.0027347 -1.8821 -0.0011281 2.6805 0.0016066 599.3794153052147 99.387 0.172 99.695 99.626 99.798 0.30835 -0.098142 0.00013366 NaN 1.4819 20 9 3 NaN NaN NaN NaN 0 NaN NaN 0 6481800 14103 1226 9038 9059 0.15606984919440947 KPRARQLWQRR 11 Unmodified _KPRARQLWQRR_ 0 0 0 REV__ENST00000263754.4_1_3:20081673-20082198:+|nuORF REV__ENST00000263754.4_1_3:20081673-20082198:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.9663391113281 3 498.967404 1493.88038 NaN NaN NaN NaN NaN NaN NaN 75.598 1 75.598 75.098 76.098 0 0 0 0 1.0079 1 37044 37044 0.45452 0 1 + 14104 15005 9039 9060 16199 16199 0.15319643744987843 KPRFKKGKEII 11 Unmodified _KPRFKKGKEII_ 0 0 0 REV__ENSG00000206530|ENST00000393845|CFAP44 REV__ENSG00000206530|ENST00000393845|CFAP44 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 448.2912902832031 3 448.62224 1342.84489 NaN NaN NaN NaN NaN NaN NaN 69.423 1 70.126 69.626 70.626 0.70302 0 0 0 1.0073 1 33224 33224 0.40827 0 1 + 14105 14477 9040 9061 16200 16200 0.18718168444684125 KPRHHGRIGRP 11 Unmodified _KPRHHGRIGRP_ 0 0 0 nc|ENSG00000185513|Q9Y468-3|L3MBTL1;nc|ENSG00000185513|Q9Y468-2|L3MBTL1;nc|ENSG00000185513|Q9Y468-4|L3MBTL1;nc|ENSG00000185513|Q9Y468-1|L3MBTL1;nc|ENSG00000185513|Q9Y468|L3MBTL1;ENSG00000185513|ENST00000418998|L3MBTL1 nc|ENSG00000185513|Q9Y468-3|L3MBTL1 nc|ENSG00000185513|Q9Y468-3|L3MBTL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.384765625 2 655.886878 1309.7592 4.3251 0.0028367 -3.3856 -0.0022206 0.93943 0.00061616 655.8833787297114 92.683 0.16772 92.936 92.886 93.054 0.25253 11 9 2 0 0 0 0.13295 1 42596 42596 1.1933 0.735 1 335880 14106 5513 9041 9062 16201 16201 0.11671441102339486 KPRHIIREA 9 Unmodified _KPRHIIREA_ 0 0 0 ENST00000600987.1_1_19:16954983-16957229:+|nuORF ENST00000600987.1_1_19:16954983-16957229:+|nuORF ENST00000600987.1_1_19:16954983-16957229:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.3445434570312 2 560.340907 1118.66726 3.7512 0.002102 -1.574 -0.00088196 2.1773 0.00122 560.3401457996843 98.31 0.25782 98.909 98.769 99.027 0.59885 49 23 3 0 0 0 1.0432 1 45309 45309 3.2813 1.2216 1 7527300 14107 9299 9042 9063 16202 16202 0.11267337965318802 KPRHIIREA 9 Unmodified _KPRHIIREA_ 0 0 0 ENST00000600987.1_1_19:16954983-16957229:+|nuORF ENST00000600987.1_1_19:16954983-16957229:+|nuORF ENST00000600987.1_1_19:16954983-16957229:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 560.340907 1118.66726 4.3996 0.0024653 -1.3481 -0.00075539 3.0515 0.0017099 560.3398107754738 98.488 0.2312 98.788 98.762 98.993 0.29987 -0.06044 0.00019744 NaN 3.2813 30 19 2 NaN NaN NaN NaN 0 NaN NaN 0 6400300 14108 9299 9042 9063 0.11267337965318802 KPRHNREKQWC 11 Unmodified _KPRHNREKQWC_ 0 0 0 REV__nc|ENSG00000080224|Q9UF33|EPHA6 REV__nc|ENSG00000080224|Q9UF33|EPHA6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 741.3812255859375 2 741.380768 1480.74698 NaN NaN NaN NaN NaN NaN NaN 69.504 1 69.504 69.004 70.004 0 0 0 0 1.0059 1 33565 33565 2.9952 0.26005 1 + 14109 10590 9043 9064 16203 16203 0.025840365769909113 KPRHSLHWRY 10 Unmodified _KPRHSLHWRY_ 0 0 0 REV__CON__Q28194 REV__CON__Q28194 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 460.5813293457031 3 460.5863 1378.73707 NaN NaN NaN NaN NaN NaN NaN 69.563 1 70.266 69.766 70.766 0.70302 0 0 0 1.0003 1 33299 33299 0.62683 0.12087 1 + + 14110 10089 9044 9065 16204 16204 0.06285216633932578 KPRHVKLL 8 Unmodified _KPRHVKLL_ 0 0 0 nc|ENSG00000164694|Q4ZHG4-2|FNDC1;ENSG00000164694|ENST00000297267|FNDC1 nc|ENSG00000164694|Q4ZHG4-2|FNDC1 nc|ENSG00000164694|Q4ZHG4-2|FNDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.83526611328125 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 89.407 1 89.658 89.158 90.158 0.25118 0 0 0 0.99035 1 41121 41121 5.7604 2.8712 1 14111 4335 9045 9066 16205 16205 0.15458042430316254 KPRKIFQWRQL 11 Unmodified _KPRKIFQWRQL_ 0 0 0 ENSG00000151474|ENST00000357447|FRMD4A;ENST00000342409.3_1_10:13735712-14050160:-|nuORF ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 750.4537353515625 2 750.45152 1498.88849 4.1617 0.0031232 0.32875 0.00024671 4.4905 0.0033699 750.4515077319321 100.5 0.58158 101.1 101 101.59 0.59716 45 19 3 0 0 0 0.91111 1 46544 46544 1.1933 0.84271 1 4663700 14112 3711 9046 9067 16206 16206 0.15899777941785942 KPRKKFFLKPK 11 Unmodified _KPRKKFFLKPK_ 0 0 0 REV__nc|ENSG00000040341|Q9NUL3-4|STAU2 REV__nc|ENSG00000040341|Q9NUL3-4|STAU2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 708.9642333984375 2 708.963732 1415.91291 NaN NaN NaN NaN NaN NaN NaN 86.679 1 87.355 86.855 87.855 0.67555 0 0 0 1.008 1 39931 39931 0.30703 0 1 + 14113 10315 9047 9068 16207 16207 0.22159038095287542 KPRKKKLKL 9 Unmodified _KPRKKKLKL_ 0 0 0 ENSG00000073614|ENST00000399788|KDM5A;nc|ENSG00000073614|P29375-2|KDM5A ENSG00000073614|ENST00000399788|KDM5A ENSG00000073614|ENST00000399788|KDM5A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.8798828125 2 569.910968 1137.80738 NaN NaN NaN NaN NaN NaN NaN 75.796 1 76.459 75.959 76.959 0.6635 0 0 0 0.91238 1 36713 36713 0.52476 0 1 14114 810 9048 9069 16208 16208 0.24399121969690896 KPRKLFQWKQL 11 Unmodified _KPRKLFQWKQL_ 0 0 0 ENSG00000114541|ENST00000398540|FRMD4B;nc|ENSG00000114541|Q9Y2L6-2|FRMD4B;ENST00000470070.6_1_3:69247847-69370051:-|nuORF ENSG00000114541|ENST00000398540|FRMD4B ENSG00000114541|ENST00000398540|FRMD4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 736.4496459960938 2 736.448446 1470.88234 NaN NaN NaN NaN NaN NaN NaN 60.358 1 61.108 60.608 61.608 0.74927 0 0 0 1.0082 1 27832 27832 0.30703 0 1 14115 1910 9049 9070 16209 16209 0.16573259710253296 KPRKPKRQRA 10 Unmodified _KPRKPKRQRA_ 0 0 0 ENSG00000169246|ENST00000542817|NPIPB3;nc|ENSG00000169246|Q92617-2|NPIPB3;nc|ENSG00000169246|Q92617-3|NPIPB3;nc|ENSG00000169246|Q92617-5|NPIPB3;ENSG00000169203|ENST00000550665|NPIPB12;nc|ENSG00000169246|Q92617-6|NPIPB3;nc|ENSG00000169246|Q92617|NPIPB3;ENSG00000243716|ENST00000424340|NPIPB5;nc|ENSG00000243716|C9JG80|NPIPB4;ENSG00000198064|ENST00000697092|NPIPB13;ENSG00000254206|ENST00000698511|NPIPB11;ENSG00000185864|ENST00000682606|NPIPB4 ENSG00000169246|ENST00000542817|NPIPB3 ENSG00000169246|ENST00000542817|NPIPB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 632.9053955078125 2 632.907279 1263.80001 NaN NaN NaN NaN NaN NaN NaN 56.067 1 56.736 56.236 57.236 0.66829 0 0 0 1.0015 1 25648 25648 0.40072 0 1 14116 4676 9050 9071 16210 16210 0.17865782421972654 KPRKRKRQRHA 11 Unmodified _KPRKRKRQRHA_ 0 0 0 nc|ENSG00000165671|Q96L73-2|NSD1;nc|ENSG00000165671|Q96L73-3|NSD1;ENSG00000165671|ENST00000439151|NSD1 nc|ENSG00000165671|Q96L73-2|NSD1 nc|ENSG00000165671|Q96L73-2|NSD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.8753662109375 3 487.643031 1459.90726 2.7076 0.0013204 2.1939 0.0010698 4.9015 0.0023902 487.97958670827524 62.785 0.026386 63.507 63.483 63.509 0.72236 4 2 2 0 0 0 0.91345 1 29339 29339 0.45452 0.046251 1 2207200 14117 4414 9051 9072 16211 16211 0.19570752356207777 KPRKVHKIKAV 11 Unmodified _KPRKVHKIKAV_ 0 0 0 ENSG00000148156|ENST00000374667|ACTL7B ENSG00000148156|ENST00000374667|ACTL7B ENSG00000148156|ENST00000374667|ACTL7B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1304.207275390625 1 1303.86849 1302.86121 3.8573 0.0050294 2.2991 0.0029978 6.1564 0.0080271 1304.8736047192483 94.691 0.078705 94.95 94.892 94.97 0.25975 5 4 2 0 0 0 0.13295 1 43492 43492 0.30703 0.30703 1 242700 14118 3590 9052 9073 16212 16212 0.22189294401391635 KPRLIKMISE 10 Unmodified _KPRLIKMISE_ 0 0 0 REV__ENSG00000134516|ENST00000520908|DOCK2 REV__ENSG00000134516|ENST00000520908|DOCK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 607.869384765625 2 607.868108 1213.72166 NaN NaN NaN NaN NaN NaN NaN 46.209 1 46.86 46.36 47.36 0.65104 0 0 0 1.0004 1 21166 21166 1.3295 0 1 + 14119 11966 9053 9074 16213 16213 0.12335169001880786 KPRLSRATVH 10 Unmodified _KPRLSRATVH_ 0 0 0 nc|ENSG00000122884|P13674-3|P4HA1;nc|ENSG00000122884|P13674-2|P4HA1 nc|ENSG00000122884|P13674-3|P4HA1 nc|ENSG00000122884|P13674-3|P4HA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.8538208007812 2 582.851638 1163.68872 3.7885 0.0022081 -0.99322 -0.0005789 2.7953 0.0016292 582.8511164203526 101.15 0.093475 101.74 101.69 101.78 0.59717 5 3 2 0 0 0 0.90859 1 46843 46843 3.2813 0 1 951950 14120 9620 9054 9075 16214 16214 0.11342722994004362 KPRLSRATVH 10 Unmodified _KPRLSRATVH_ 0 0 0 nc|ENSG00000122884|P13674-3|P4HA1;nc|ENSG00000122884|P13674-2|P4HA1 nc|ENSG00000122884|P13674-3|P4HA1 nc|ENSG00000122884|P13674-3|P4HA1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 582.851638 1163.68872 4.2652 0.002486 -0.80254 -0.00046776 3.4626 0.0020182 582.8513574187506 101.21 0.080048 101.52 101.47 101.55 0.31412 -0.11215 0.000108 NaN 3.2813 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 1709200 14121 9620 9054 9075 0.11342722994004362 KPRLYQKYKKL 11 Unmodified _KPRLYQKYKKL_ 0 0 0 nc|ENSG00000154655|Q8NA19-2|L3MBTL4 nc|ENSG00000154655|Q8NA19-2|L3MBTL4 nc|ENSG00000154655|Q8NA19-2|L3MBTL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 732.9556274414062 2 732.956104 1463.89765 NaN NaN NaN NaN NaN NaN NaN 69.174 1 69.876 69.376 70.376 0.70218 0 0 0 1.008 1 33081 33081 0.30703 0 1 14122 9696 9055 9076 16215 16215 0.18426126507438312 KPRNGAIAI 9 Unmodified _KPRNGAIAI_ 0 0 0 ENST00000427401.8_1_19:20736627-20748510:-|nuORF ENST00000427401.8_1_19:20736627-20748510:-|nuORF ENST00000427401.8_1_19:20736627-20748510:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.2925109863281 2 470.290351 938.566149 2.8564 0.0013434 0.41812 0.00019664 3.2746 0.00154 470.2906070187414 15.345 0.74762 15.345 15.009 15.757 0 127 90 2 0 0 0 0.76984 1 6688 6688 7.9102 2.1497 1 87313 14123 7818 9056 9077 16216 16216 0.09440886262598269 KPRNVWDQEG 10 Unmodified _KPRNVWDQEG_ 0 0 0 REV__IRF2BP2|p.P370Hfs*26|1|0.06|ENSG00000168264|chr1:234607792-234607793|-/TAGCAGACAAT|frameshift_variant REV__IRF2BP2|p.P370Hfs*26|1|0.06|ENSG00000168264|chr1:234607792-234607793|-/TAGCAGACAAT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.8076171875 2 614.807094 1227.59963 NaN NaN NaN NaN NaN NaN NaN 46.921 1 46.921 46.421 47.421 0 0 0 0 1.0003 1 21478 21478 1.4819 0 1 + 14124 13338 9057 9078 16217 16217 -0.005061567561824631 KPRPRKTGR 9 Unmodified _KPRPRKTGR_ 0 0 0 ENSG00000135740|ENST00000299798|SLC9A5 ENSG00000135740|ENST00000299798|SLC9A5 ENSG00000135740|ENST00000299798|SLC9A5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.3497314453125 2 548.346523 1094.67849 3.9203 0.0021497 -0.66784 -0.00036621 3.2525 0.0017835 548.3459644770667 89.771 0.34859 90.022 89.817 90.166 0.25137 26 16 2 0 0 0 1.129 1 41339 41339 1.8442 0.19162 1 672840 14125 2893 9058 9079 16218 16218 0.13494160059462956 KPRQGRRVL 9 Unmodified _KPRQGRRVL_ 0 0 0 ENST00000592462.5_1_17:42452826-42458421:-|nuORF;nc|ENSG00000005961|P08514-3|ITGA2B;nc|ENSG00000005961|P08514-2|ITGA2B;ENSG00000005961|ENST00000262407|ITGA2B ENST00000592462.5_1_17:42452826-42458421:-|nuORF ENST00000592462.5_1_17:42452826-42458421:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.355712890625 2 555.354348 1108.69414 4.3902 0.0024381 -1.5524 -0.00086214 2.8378 0.001576 555.3533859016167 97.427 0.28075 97.716 97.526 97.807 0.28923 34 11 4 0 0 0 1.129 1 44706 44706 1.8442 1.8442 1 8450700 14126 337 9059 9080 16219 16219 0.14414446576506634 KPRQRRLRK 9 Unmodified _KPRQRRLRK_ 0 0 0 ENST00000263119.9_1_22:24432555-24437617:+|nuORF ENST00000263119.9_1_22:24432555-24437617:+|nuORF ENST00000263119.9_1_22:24432555-24437617:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.4081420898438 2 619.407447 1236.80034 NaN NaN NaN NaN NaN NaN NaN 52.493 1 52.493 51.993 52.993 0 0 0 0 0.91238 1 24038 24038 0.52476 0.066424 1 14127 6583 9060 9081 16220 16220 0.1914120214180457 KPRQTYLI 8 Unmodified _KPRQTYLI_ 0 0 0 ENST00000465952.5_1_13:31205167-31205455:+|nuORF ENST00000465952.5_1_13:31205167-31205455:+|nuORF ENST00000465952.5_1_13:31205167-31205455:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.8057556152344 2 509.805834 1017.59712 NaN NaN NaN NaN NaN NaN NaN 78.06 1 78.722 78.222 79.222 0.66198 0 0 0 0.95658 1 35973 35973 8.5933 3.3626 1 14128 8130 9061 9082 16221 16221 0.08902039576844345 KPRRIQRIIPK 11 Unmodified _KPRRIQRIIPK_ 0 0 0 REV__ENSG00000006607|ENST00000264042|FARP2 REV__ENSG00000006607|ENST00000264042|FARP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 702.972412109375 2 702.967337 1403.92012 NaN NaN NaN NaN NaN NaN NaN 82.009 1 82.093 81.593 82.593 0.084106 0 0 0 1.008 1 40416 40416 0.30703 0 1 + 14129 10192 9062 9083 16222 16222 0.23431770695719933 KPRRKKRPAK 10 Unmodified _KPRRKKRPAK_ 0 0 0 nc|ENSG00000168658|Q502W6-4|VWA3B;ENST00000490947.2_1_2:98862011-98928799:+|nuORF;nc|ENSG00000168658|Q502W6-3|VWA3B;nc|ENSG00000168658|Q502W6-7|VWA3B;nc|ENSG00000168658|Q502W6-5|VWA3B;ENST00000495571.5_1_2:98833411-98928809:+|nuORF;ENSG00000168658|ENST00000477737|VWA3B;nc|ENSG00000168658|Q502W6-6|VWA3B nc|ENSG00000168658|Q502W6-4|VWA3B nc|ENSG00000168658|Q502W6-4|VWA3B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.924072265625 2 632.925472 1263.83639 NaN NaN NaN NaN NaN NaN NaN 56.985 1 57.762 57.262 58.262 0.77786 0 0 0 1.0015 1 26069 26069 0.40072 0 1 14130 4641 9063 9084 16223 16223 0.2150265931870763 KPRRKTKKT 9 Unmodified _KPRRKTKKT_ 0 0 0 nc|ENSG00000155755|Q96Q45-2|TMEM237;ENSG00000155755|ENST00000409883|TMEM237;nc|ENSG00000155755|Q96Q45-3|TMEM237 nc|ENSG00000155755|Q96Q45-2|TMEM237 nc|ENSG00000155755|Q96Q45-2|TMEM237 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.9413452148438 2 571.877656 1141.74076 NaN NaN NaN NaN NaN NaN NaN 16.712 1 16.913 16.413 17.413 0.20057 0 0 0 0.91238 1 7386 7386 0.52476 0 1 14131 3875 9064 9085 16224 16224 0.17555886407785692 KPRRLKVPGKR 11 Unmodified _KPRRLKVPGKR_ 0 0 0 ENST00000460191.1_1_1:94344628-94344730:-|nuORF ENST00000460191.1_1_1:94344628-94344730:-|nuORF ENST00000460191.1_1_1:94344628-94344730:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 667.9439086914062 2 667.946405 1333.87826 NaN NaN NaN NaN NaN NaN NaN 88.63 1 89.308 88.808 89.808 0.67818 0 0 0 1.008 1 40816 40816 0.30703 0.30703 1 14132 8069 9065 9086 16225 16225 0.22467215007191044 KPRRLLWE 8 Unmodified _KPRRLLWE_ 0 0 0 ENST00000328827.8_1_12:80084054-80084702:-|nuORF ENST00000328827.8_1_12:80084054-80084702:-|nuORF ENST00000328827.8_1_12:80084054-80084702:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.3336791992188 2 549.33255 1096.65055 NaN NaN NaN NaN NaN NaN NaN 82.339 1 82.586 82.086 83.086 0.24722 0 0 0 0.99035 1 37901 37901 0.69038 0 1 14133 6975 9066 9087 16226 16226 0.10608837079394107 KPRRRGRLFLF 11 Unmodified _KPRRRGRLFLF_ 0 0 0 REV__ENST00000527206.1_1_11:118992311-118998053:+|nuORF REV__ENST00000527206.1_1_11:118992311-118998053:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 723.4500122070312 2 723.451854 1444.88916 NaN NaN NaN NaN NaN NaN NaN 63.744 1 64.466 63.966 64.966 0.72236 0 0 0 1.0072 1 29895 29895 1.3295 0.13619 1 + 14134 17102 9067 9088 16227 16227 0.1845061738149525 KPRRRPRPRE 10 Unmodified _KPRRRPRPRE_ 0 0 0 ENSG00000160460|ENST00000598249|SPTBN4;nc|ENSG00000160460|Q9H254-3|SPTBN4 ENSG00000160460|ENST00000598249|SPTBN4 ENSG00000160460|ENST00000598249|SPTBN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 674.414306640625 2 674.41326 1346.81197 NaN NaN NaN NaN NaN NaN NaN 74.88 1 74.88 74.38 75.38 0 0 0 0 1.0015 1 36662 36662 0.40072 0.050084 1 14135 4061 9068 9089 16228 16228 0.15243399165160554 KPRRRRRHWGR 11 Unmodified _KPRRRRRHWGR_ 0 0 0 ENST00000344686.6_1_17:43367939-43368083:-|nuORF ENST00000344686.6_1_17:43367939-43368083:-|nuORF ENST00000344686.6_1_17:43367939-43368083:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 780.8687744140625 2 780.9696 1559.92465 NaN NaN NaN NaN NaN NaN NaN 67.292 1 67.292 66.792 67.792 0 0 0 0 1.008 1 32242 32242 0.30703 0 1 14136 7102 9069 9090 16229 16229 0.16708092681869857 KPRRRSRSGWR 11 Unmodified _KPRRRSRSGWR_ 0 0 0 ENST00000338447.10_1_11:63706554-63713411:+|nuORF;ENST00000534965.5_1_11:63706554-63721948:+|nuORF ENST00000338447.10_1_11:63706554-63713411:+|nuORF ENST00000338447.10_1_11:63706554-63713411:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 721.4243774414062 2 721.421617 1440.82868 4.6006 0.003319 0.38471 0.00027754 4.9853 0.0035965 721.4215025884372 96.258 0.72012 96.536 96.243 96.963 0.27779 56 36 3 0 0 0 0.91345 1 44329 44329 0.30703 0 1 885920 14137 7045 9070 9091 16230 16230 0.12589900051102632 KPRRRSRSGWR 11 Unmodified _KPRRRSRSGWR_ 0 0 0 ENST00000338447.10_1_11:63706554-63713411:+|nuORF;ENST00000534965.5_1_11:63706554-63721948:+|nuORF ENST00000338447.10_1_11:63706554-63713411:+|nuORF ENST00000338447.10_1_11:63706554-63713411:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 721.421617 1440.82868 4.6006 0.003319 0.38471 0.00027754 4.9853 0.0035965 721.4215025884372 96.258 0.72012 96.536 96.243 96.963 0.27779 0.13038 0.00027624 NaN 0.30703 56 36 3 NaN NaN NaN NaN 0 NaN NaN 0 885920 14138 7045 9070 9091 0.12589900051102632 KPRRRSRSGWR 11 Unmodified _KPRRRSRSGWR_ 0 0 0 ENST00000338447.10_1_11:63706554-63713411:+|nuORF;ENST00000534965.5_1_11:63706554-63721948:+|nuORF ENST00000338447.10_1_11:63706554-63713411:+|nuORF ENST00000338447.10_1_11:63706554-63713411:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 721.421617 1440.82868 4.1561 0.0029983 -0.1533 -0.00011059 4.0028 0.0028877 721.4213479027163 95.667 0.29718 96.275 95.997 96.294 0.60769 -0.13038 -0.00050002 NaN 0.30703 23 15 2 NaN NaN NaN NaN 0 NaN NaN 0 462170 14139 7045 9070 9091 0.12589900051102632 KPRRRVPERRR 11 Unmodified _KPRRRVPERRR_ 0 0 0 ENST00000343846.7_1_1:223465986-223537047:-|nuORF ENST00000343846.7_1_1:223465986-223537047:-|nuORF ENST00000343846.7_1_1:223465986-223537047:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.98663330078125 3 502.650186 1504.92873 4.0605 0.002041 0.070585 3.548E-05 4.131 0.0020765 502.6500887451497 105.88 0.16027 106.19 106.11 106.27 0.31782 12 6 3 0 0 0 0.91462 1 48892 48892 0.08335 0.08335 1 371910 14140 7097 9071 9092 16231 16231 0.19646137384893336 KPRRRVPERRR 11 Unmodified _KPRRRVPERRR_ 0 0 0 ENST00000343846.7_1_1:223465986-223537047:-|nuORF ENST00000343846.7_1_1:223465986-223537047:-|nuORF ENST00000343846.7_1_1:223465986-223537047:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.6514587402344 3 502.650186 1504.92873 3.4538 0.0017361 -0.28522 -0.00014336 3.1686 0.0015927 502.64955256088234 105.86 0.16083 106.46 106.38 106.55 0.59969 12 5 3 0 0 0 0.91462 1 48911 48911 0.08335 0.08335 1 323830 14141 7097 9071 9092 16232 16232 0.19646137384893336 KPRRTWTCPW 10 Unmodified _KPRRTWTCPW_ 0 0 0 ENST00000579152.1_1_17:17398683-17399571:-|nuORF ENST00000579152.1_1_17:17398683-17399571:-|nuORF ENST00000579152.1_1_17:17398683-17399571:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 665.8463134765625 2 665.845499 1329.67644 NaN NaN NaN NaN NaN NaN NaN 83.496 1 83.744 83.244 84.244 0.24722 0 0 0 1.0001 1 38433 38433 1.6526 0 1 14142 9141 9072 9093 16233 16233 0.024793632593400616 KPRRVASYKKG 11 Unmodified _KPRRVASYKKG_ 0 0 0 ENSG00000070019|ENST00000261170|GUCY2C ENSG00000070019|ENST00000261170|GUCY2C ENSG00000070019|ENST00000261170|GUCY2C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.4500732421875 2 645.39367 1288.77279 NaN NaN NaN NaN NaN NaN NaN 93.753 1 93.84 93.34 94.34 0.086212 0 0 0 1.0047 1 49189 49189 4.5289 0.93237 1 14143 757 9073 9094 16234 16234 0.1399525409092348 KPRSTKEHR 9 Unmodified _KPRSTKEHR_ 0 0 0 REV__nc|ENSG00000060237|Q9H4A3-4|WNK1 REV__nc|ENSG00000060237|Q9H4A3-4|WNK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.82373046875 2 569.825621 1137.63669 NaN NaN NaN NaN NaN NaN NaN 88.185 1 88.436 87.936 88.936 0.25064 0 0 0 0.90777 1 40578 40578 1.6526 0.32309 1 + 14144 10395 9074 9095 16235 16235 0.07337559580264497 KPRSVFLRPQ 10 Unmodified _KPRSVFLRPQ_ 0 0 0 nc|ENSG00000136141|Q9Y2L9-2|LRCH1;nc|ENSG00000136141|Q9Y2L9|LRCH1 nc|ENSG00000136141|Q9Y2L9-2|LRCH1 nc|ENSG00000136141|Q9Y2L9-2|LRCH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.346923828125 2 614.369664 1226.72478 NaN NaN NaN NaN NaN NaN NaN 86.497 1 86.497 85.997 86.997 0 0 0 0 0.98664 1 44356 44356 7.609 1.4032 1 14145 9656 9075 9096 16236 16236 0.12048180170882006 KPRTHTAKTKA 11 Unmodified _KPRTHTAKTKA_ 0 0 0 L1ME1_dup20737|chr11:12960950-12961643:-|1.3458112139085312|0.3279391910638228|2.04|537.0|19|3|sense L1ME1_dup20737|chr11:12960950-12961643:-|1.3458112139085312|0.3279391910638228|2.04|537.0|19|3|sense L1ME1_dup20737|chr11:12960950-12961643:-|1.3458112139085312|0.3279391910638228|2.04|537.0|19|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.8717651367188 2 619.870028 1237.7255 3.8241 0.0023704 -1.3234 -0.00082035 2.5007 0.0015501 619.8696079744037 89.535 1.3247 90.213 89.542 90.867 0.67818 146 60 3 0 0 0 0.90781 1 41405 41405 2.2828 0.95324 1 2591400 14146 9450 9076 9097 16237 16237 0.11614974819917734 KPRVSSLRPEP 11 Unmodified _KPRVSSLRPEP_ 0 0 0 ENSG00000198173|ENST00000358047|FAM47C ENSG00000198173|ENST00000358047|FAM47C ENSG00000198173|ENST00000358047|FAM47C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5830078125 3 422.582333 1264.72517 3.2935 0.0013918 -1.4304 -0.00060445 1.8631 0.00078733 422.5816879359651 89.93 0.49977 90.181 89.848 90.348 0.25137 28 21 2 0 0 0 0.91184 1 41308 41308 0.32927 0.16995 1 424780 14147 5872 9077 9098 16238 16238 0.10339555100108555 KPRVSSLRPEP 11 Unmodified _KPRVSSLRPEP_ 0 0 0 ENSG00000198173|ENST00000358047|FAM47C ENSG00000198173|ENST00000358047|FAM47C ENSG00000198173|ENST00000358047|FAM47C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 422.582333 1264.72517 3.2935 0.0013918 -1.4304 -0.00060445 1.8631 0.00078733 422.5816879359651 89.93 0.49977 90.181 89.848 90.348 0.25137 0 0 NaN 0.32927 28 21 2 NaN NaN NaN NaN 0 NaN NaN 0 424780 14148 5872 9077 9098 0.10339555100108555 KPSDEELPL 9 Unmodified _KPSDEELPL_ 0 0 0 ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.2706298828125 2 514.268947 1026.52334 3.2099 0.0016508 -0.35477 -0.00018245 2.8552 0.0014683 514.268718040613 44.274 0.41275 44.543 44.419 44.832 0.2694 51 21 3 0 0 0 0.043585 1 20334 20334 49.933 6.0747 1 3686500 14149 6101 9078 9099 16239 16239 0.011140266238726326 KPSDEELPL 9 Unmodified _KPSDEELPL_ 0 0 0 ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.2703247070312 2 514.268947 1026.52334 3.5469 0.0018241 -0.55553 -0.00028569 2.9914 0.0015384 514.2685115406233 43.844 0.52062 44.493 44.229 44.75 0.64872 47 36 2 0 0 0 0.034495 4 20069 20022;20069;20115;20171 53.833 9.9745 1 5523800 14150 6101 9078 9099 16240;16241;16242;16243 16241 0.011140266238726326 KPSIPYTTV 9 Unmodified _KPSIPYTTV_ 0 0 0 REV__ENSG00000214782|ENST00000529108|MS4A18 REV__ENSG00000214782|ENST00000529108|MS4A18 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.2922058105469 2 503.2844 1004.55425 NaN NaN NaN NaN NaN NaN NaN 79.126 1 79.786 79.286 80.286 0.66082 0 0 0 0.90111 1 36460 36460 3.2813 0.97858 1 + 14151 14514 9079 9100 16244 16244 0.05215224728760859 KPSKRKKRKKK 11 Unmodified _KPSKRKKRKKK_ 0 0 0 REV__nc|ENSG00000184226|Q9HC56-2|PCDH9 REV__nc|ENSG00000184226|Q9HC56-2|PCDH9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 706.2176513671875 2 706.488437 1410.96232 NaN NaN NaN NaN NaN NaN NaN 92.639 1 92.639 92.139 93.139 0 0 0 0 1.008 1 49276 49276 0.30703 0.30703 1 + 14152 13963 9080 9101 16245 16245 0.27327746104083417 KPSLHHPKRF 10 Unmodified _KPSLHHPKRF_ 0 0 0 REV__L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|48|1|sense REV__L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|48|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 623.8594360351562 2 623.862006 1245.70946 NaN NaN NaN NaN NaN NaN NaN 53.496 1 53.496 52.996 53.996 0 0 0 0 0.99846 1 24514 24514 2.9952 1.3426 1 + 14153 17798 9081 9102 16246 16246 0.09643313373703677 KPTKNLRAL 9 Unmodified _KPTKNLRAL_ 0 0 0 ENST00000544191.1_1_12:22826493-22826559:+|nuORF ENST00000544191.1_1_12:22826493-22826559:+|nuORF ENST00000544191.1_1_12:22826493-22826559:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.3345947265625 2 520.832383 1039.65021 3.3189 0.0017286 -3.6973 -0.0019257 -0.37842 -0.0001971 521.331439902534 43.08 0.068237 43.895 43.836 43.905 0.81444 6 5 2 0 0 0 0.8705 1 19599 19599 6.2058 0.47393 1 6546100 14154 8831 9082 9103 16247 16247 0.13197417359515384 KPTLRKKKKK 10 Unmodified _KPTLRKKKKK_ 0 0 0 L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|57|2|sense L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|57|2|sense L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|57|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 627.8062744140625 2 627.940257 1253.86596 NaN NaN NaN NaN NaN NaN NaN 82.89 1 82.935 82.435 83.435 0.045006 0 0 0 1.0015 1 40999 40999 0.40072 0.050084 1 14155 9459 9083 9104 16248 16248 0.24918178544157854 KPTPFLAKLK 10 Unmodified _KPTPFLAKLK_ 0 0 0 REV__ENST00000558911.1_1_15:99874300-99893998:+|nuORF REV__ENST00000558911.1_1_15:99874300-99893998:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.5792846679688 2 571.868434 1141.72232 NaN NaN NaN NaN NaN NaN NaN 92.294 1 92.547 92.047 93.047 0.25253 0 0 0 1.0014 1 42429 42429 1.3295 0.87119 1 + 14156 17351 9084 9105 16249 16249 0.15712331713211825 KPTPRELNRK 10 Unmodified _KPTPRELNRK_ 0 0 0 REV__nc|ENSG00000158079|A2A3K4-2|PTPDC1 REV__nc|ENSG00000158079|A2A3K4-2|PTPDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.8717041015625 2 619.870028 1237.7255 3.8115 0.0023626 -0.62363 -0.00038657 3.1878 0.001976 619.8694135185851 87.542 0.69191 88.218 87.808 88.5 0.67555 67 32 3 0 0 0 0.94134 2 40247 40247;40294 1.4819 1.4819 1 1180300 + 14157 17992 9085 9106 16250;16251 16250 0.11614974819917734 KPTPRELNRK 10 Unmodified _KPTPRELNRK_ 0 0 0 REV__nc|ENSG00000158079|A2A3K4-2|PTPDC1 REV__nc|ENSG00000158079|A2A3K4-2|PTPDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.8715209960938 2 619.870028 1237.7255 3.8241 0.0023704 -1.3234 -0.00082035 2.5007 0.0015501 619.8696079744037 89.535 1.3247 90.213 89.542 90.867 0.67818 146 60 3 0 0 0 0.94165 1 41036 41036 1.3295 0.87119 1 2591400 + 14158 17992 9085 9106 16252 16252 0.11614974819917734 KPTPSRHKR 9 Unmodified _KPTPSRHKR_ 0 0 0 REV__ENST00000571372.1_1_16:2809069-2809404:+|nuORF REV__ENST00000571372.1_1_16:2809069-2809404:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.832763671875 2 553.830706 1105.64686 3.6557 0.0020246 -0.83167 -0.0004606 2.824 0.001564 553.8301423476478 84.35 0.83361 85.012 84.715 85.548 0.66219 69 47 2 0 0 0 1.0432 1 38912 38912 3.2813 1.4371 1 582610 + 14159 13319 9086 9107 16253 16253 0.09826167305504896 KPTREVQEVS 10 Unmodified _KPTREVQEVS_ 0 0 0 ENSG00000173905|ENST00000470487|GOLIM4 ENSG00000173905|ENST00000470487|GOLIM4 ENSG00000173905|ENST00000470487|GOLIM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 586.8145141601562 2 586.817127 1171.6197 NaN NaN NaN NaN NaN NaN NaN 13.484 1 13.727 13.227 14.227 0.24346 0 0 0 1.0004 1 5887 5887 1.3295 0 1 14160 4958 9087 9108 16254 16254 0.04075594183791509 KPTRTPHIR 9 Unmodified _KPTRTPHIR_ 0 0 0 REV__nc|ENSG00000138709|Q659C4-9|LARP1B REV__nc|ENSG00000138709|Q659C4-9|LARP1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.3345947265625 2 553.333082 1104.65161 4.0649 0.0022492 -1.1229 -0.00062133 2.942 0.0016279 553.3323549519359 91.982 0.8366 92.234 91.988 92.825 0.25254 111 41 4 0 0 0 1.0041 1 42248 42248 3.9444 2.1002 1 3503500 + 14161 12185 9088 9109 16255 16255 0.10347051448275124 KPTVIRRNR 9 Unmodified _KPTVIRRNR_ 0 0 0 nc|ENSG00000163618|Q9ULU8-5|CADPS nc|ENSG00000163618|Q9ULU8-5|CADPS nc|ENSG00000163618|Q9ULU8-5|CADPS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.361083984375 2 570.359631 1138.70471 3.8087 0.0021723 -0.96884 -0.00055259 2.8398 0.0016197 570.3589123148702 91.54 0.56792 92.202 91.995 92.562 0.66197 61 28 3 0 0 0 1.129 2 42105 42105;42154 1.8442 1.3195 1 1564100 14162 9715 9089 9110 16256;16257 16256 0.14090429230918744 KPTVTKGRS 9 Unmodified _KPTVTKGRS_ 0 0 0 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.29461669921875 2 487.293091 972.571629 3.3417 0.0016284 -0.075854 -3.6963E-05 3.2659 0.0015914 487.2930300654955 84.841 0.6169 85.506 85.267 85.884 0.66566 69 30 3 0 0 0 1.0432 1 39063 39063 3.2813 1.2216 1 1152200 14163 720 9090 9111 16258 16258 0.08424565054428967 KPVHKLLR 8 Unmodified _KPVHKLLR_ 0 0 0 REV__nc|ENSG00000158079|A2A3K4-2|PTPDC1 REV__nc|ENSG00000158079|A2A3K4-2|PTPDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.8326416015625 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 73.415 1 74.079 73.579 74.579 0.66398 0 0 0 0.99035 1 33737 33737 4.756 0 1 + 14164 17992 9091 9112 16259 16259 0.15458042430327623 KPVIFKGHG 9 Unmodified _KPVIFKGHG_ 0 0 0 ENSG00000196208|ENST00000381486|GREB1;nc|ENSG00000196208|Q4ZG55-2|GREB1 ENSG00000196208|ENST00000381486|GREB1 ENSG00000196208|ENST00000381486|GREB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.798095703125 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 51.255 1 52.073 51.573 52.573 0.81738 0 0 0 0.89683 1 23349 23349 4.3292 0 1 14165 5725 9092 9113 16260 16260 0.08446074267999393 KPVILLIPQKR 11 Unmodified _KPVILLIPQKR_ 0 0 0 ENSG00000051341|ENST00000264233|POLQ;nc|ENSG00000051341|O75417-2|POLQ ENSG00000051341|ENST00000264233|POLQ ENSG00000051341|ENST00000264233|POLQ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 652.9419555664062 2 652.942465 1303.87038 NaN NaN NaN NaN NaN NaN NaN 69.561 1 69.561 69.061 70.061 0 0 0 0 1.0073 1 33601 33601 1.1933 0.12188 1 14166 587 9093 9114 16261 16261 0.23059642967064065 KPVKKKKIKRE 11 Unmodified _KPVKKKKIKRE_ 0 0 0 ENSG00000254598|ENST00000528848|CSNK2A3;ENSG00000101266|ENST00000217244|CSNK2A1;ENSG00000070770|ENST00000262506|CSNK2A2;ENST00000460062.6_1_20:480238-524362:-|nuORF;ENST00000609606.5_1_20:480440-489246:-|nuORF;ENST00000562367.1_1_16:58208309-58230657:-|nuORF ENSG00000254598|ENST00000528848|CSNK2A3 ENSG00000254598|ENST00000528848|CSNK2A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 691.4879760742188 2 691.471921 1380.92929 NaN NaN NaN NaN NaN NaN NaN 60.026 1 60.775 60.275 61.275 0.74927 0 0 0 1.0073 1 27613 27613 1.1933 1.1933 1 14167 1278 9094 9115 16262 16262 0.2540611926137899 KPVKPGKDKKG 11 Unmodified _KPVKPGKDKKG_ 0 0 0 REV__ENSG00000106624|ENST00000223357|AEBP1 REV__ENSG00000106624|ENST00000223357|AEBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.3742065429688 2 591.371872 1180.72919 NaN NaN NaN NaN NaN NaN NaN 95.986 1 95.986 95.486 96.486 0 0 0 0 1.0061 1 51843 51843 2.7352 1.4057 1 + 14168 11090 9095 9116 16263 16263 0.14605644593802936 KPVLRKHLK 9 Unmodified _KPVLRKHLK_ 0 0 0 ENSG00000171448|ENST00000373656|ZBTB26 ENSG00000171448|ENST00000373656|ZBTB26 ENSG00000171448|ENST00000373656|ZBTB26 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.8776245117188 2 559.879668 1117.74478 NaN NaN NaN NaN NaN NaN NaN 83.719 1 83.719 83.219 84.219 0 0 0 0 0.91238 1 42221 42221 0.52476 0.066424 1 14169 4802 9096 9117 16264 16264 0.19061975901490769 KPVRKKRRERI 11 Unmodified _KPVRKKRRERI_ 0 0 0 REV__ENSG00000128731|ENST00000261609|HERC2 REV__ENSG00000128731|ENST00000261609|HERC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 733.4794921875 2 733.481143 1464.94773 NaN NaN NaN NaN NaN NaN NaN 12.488 1 12.488 11.988 12.988 0 0 0 0 1.008 1 5430 5430 0.30703 0.30703 1 + 14170 11770 9097 9118 16265 16265 0.2338567395595419 KPVRLRRVVLL 11 Unmodified _KPVRLRRVVLL_ 0 0 0 REV__nc|ENSG00000032444|Q8IY17-5|PNPLA6 REV__nc|ENSG00000032444|Q8IY17-5|PNPLA6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 674.9679565429688 2 674.966806 1347.91906 NaN NaN NaN NaN NaN NaN NaN 17.241 1 17.441 16.941 17.941 0.20057 0 0 0 1.008 1 7625 7625 0.30703 0 1 + 14171 10293 9098 9119 16266 16266 0.25901556326857644 KPVRPTGLGTL 11 Unmodified _KPVRPTGLGTL_ 0 0 0 ENST00000330964.9_1_15:63449741-63449897:-|nuORF ENST00000330964.9_1_15:63449741-63449897:-|nuORF ENST00000330964.9_1_15:63449741-63449897:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.8497314453125 2 569.850773 1137.68699 NaN NaN NaN NaN NaN NaN NaN 50.399 1 50.399 49.899 50.899 0 0 0 0 1.0073 1 23074 23074 1.1933 0.59184 1 14172 6987 9099 9120 16267 16267 0.12365669185419392 KPVTEATRN 9 Unmodified _KPVTEATRN_ 0 0 0 REV__ENST00000471031.1_1_3:113653357-113655330:+|nuORF REV__ENST00000471031.1_1_3:113653357-113655330:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.28106689453125 2 508.28018 1014.54581 4.0616 0.0020644 -0.4057 -0.00020621 3.6559 0.0018582 508.2797575313298 96.125 0.37599 96.403 96.171 96.547 0.27779 53 18 4 0 0 0 1.1412 1 44207 44207 1.6526 0 1 2585000 + 14173 13750 9100 9121 16268 16268 0.03911670812135526 KPVTTIQQL 9 Unmodified _KPVTTIQQL_ 0 0 0 HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|90|2|sense;HERVK-int_dup102|chr7:4583489-4590929:-|1.365261944516419|0.4463608682754711|1.61|525.0|85|2|sense HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|90|2|sense HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|90|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.4243774414062 2 514.310949 1026.60735 NaN NaN NaN NaN NaN NaN NaN 79.688 1 79.937 79.437 80.437 0.24947 0 0 0 0.88916 1 36693 36693 6.2058 1.4498 1 14174 9412 9101 9122 16269 16269 0.09510602511431898 KPVTVCSLC 9 Unmodified _KPVTVCSLC_ 0 0 0 REV__nc|ENSG00000182652|Q8NH05|OR4Q3 REV__nc|ENSG00000182652|Q8NH05|OR4Q3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.24615478515625 2 475.245906 948.477259 3.4787 0.0016532 -1.7981 -0.00085453 1.6806 0.00079872 475.24513935203146 91.26 0.23482 91.511 91.423 91.658 0.25163 14 8 2 0 0 0 1.0432 1 41990 41990 3.2813 0.70383 1 304340 + 14175 13901 9102 9123 16270 16270 0.0009596691641036159 KPVTVSRPIAI 11 Unmodified _KPVTVSRPIAI_ 0 0 0 ENSG00000196700|ENST00000369888|ZNF512B ENSG00000196700|ENST00000369888|ZNF512B ENSG00000196700|ENST00000369888|ZNF512B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.2530822753906 3 394.251924 1179.73394 NaN NaN NaN NaN NaN NaN NaN 60.955 1 61.211 60.711 61.711 0.25578 0 0 0 1.0075 1 27915 27915 1.0136 0.051299 1 14176 5771 9103 9124 16271 16271 0.15126528736573164 KPVVLRKRR 9 Unmodified _KPVVLRKRR_ 0 0 0 ENSG00000138246|ENST00000260818|DNAJC13 ENSG00000138246|ENST00000260818|DNAJC13 ENSG00000138246|ENST00000260818|DNAJC13 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 576.7839965820312 2 576.396016 1150.77748 NaN NaN NaN NaN NaN NaN NaN 92.609 1 93.256 92.756 93.756 0.64714 0 0 0 0.91238 1 42607 42607 0.52476 0.066424 1 14177 3083 9104 9125 16272 16272 0.20812183024372644 KPVVNTLIHSY 11 Unmodified _KPVVNTLIHSY_ 0 0 0 REV__nc|ENSG00000165983|Q96BW5-2|PTER REV__nc|ENSG00000165983|Q96BW5-2|PTER MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 424.2466125488281 3 424.243317 1269.70812 NaN NaN NaN NaN NaN NaN NaN 102.33 1 102.65 102.15 103.15 0.31737 0 0 0 1.0072 1 47337 47337 0.45452 0 1 + 14178 13203 9105 9126 16273 16273 0.08405634494306469 KPWEERRKRRS 11 Unmodified _KPWEERRKRRS_ 0 0 0 nc|ENSG00000259956|Q8NDT2-2|RBM15B;ENSG00000259956|ENST00000563281|RBM15B nc|ENSG00000259956|Q8NDT2-2|RBM15B nc|ENSG00000259956|Q8NDT2-2|RBM15B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 764.4361572265625 2 764.43439 1526.85423 NaN NaN NaN NaN NaN NaN NaN 61.905 1 61.905 61.405 62.405 0 0 0 0 1.008 1 28941 28941 0.30703 0.30703 1 14179 6303 9106 9127 16274 16274 0.11187329782865163 KPWFLTNEVE 10 Unmodified _KPWFLTNEVE_ 0 0 0 nc|ENSG00000112874|Q9BQG2-2|NUDT12;ENSG00000112874|ENST00000230792|NUDT12 nc|ENSG00000112874|Q9BQG2-2|NUDT12 nc|ENSG00000112874|Q9BQG2-2|NUDT12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.5537414550781 3 421.552039 1261.63429 3.1633 0.0013335 0.73809 0.00031114 3.9014 0.0016446 421.88673601626886 29.913 0.40808 30.171 29.933 30.341 0.25804 65 38 2 0 0 0 0.9178 1 13672 13672 2.8433 0.3448 1 457880 14180 1824 9107 9128 16275 16275 0.013936663319100262 KPWLNMWPQTQ 11 Unmodified _KPWLNMWPQTQ_ 0 0 0 REV__ENST00000544090.5_1_16:84213937-84215086:-|nuORF REV__ENST00000544090.5_1_16:84213937-84215086:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 714.8558349609375 2 714.858272 1427.70199 NaN NaN NaN NaN NaN NaN NaN 105.15 1 105.75 105.25 106.25 0.59969 0 0 0 1.0073 1 48565 48565 1.1933 0.735 1 + 14181 17236 9108 9129 16276 16276 0.005247929911092797 KPWLYDLWEVW 11 Unmodified _KPWLYDLWEVW_ 0 0 0 ENSG00000154227|ENST00000679737|CERS3 ENSG00000154227|ENST00000679737|CERS3 ENSG00000154227|ENST00000679737|CERS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 767.891357421875 2 767.890095 1533.76564 NaN NaN NaN NaN NaN NaN NaN 68.141 1 68.843 68.343 69.343 0.70218 0 0 0 1.0074 1 32474 32474 1.0715 0.10919 1 14182 3810 9109 9130 16277 16277 0.020104766998429113 KPWRFFLL 8 Unmodified _KPWRFFLL_ 0 0 0 ENST00000286448.11_1_X:155119121-155119211:+|nuORF;ENST00000460621.6_1_X:155119121-155127806:+|nuORF ENST00000286448.11_1_X:155119121-155119211:+|nuORF ENST00000286448.11_1_X:155119121-155119211:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.8322143554688 2 553.829112 1105.64367 3.6482 0.0020205 0.79049 0.0004378 4.4387 0.0024583 553.8298872609851 83.238 1.3416 83.898 83.123 84.464 0.66019 144 80 2 0 0 0 0.7441 2 38190 38138;38190 2.3027 0.69038 1 2121600 14183 6721 9110 9131 16278;16279 16279 0.09507524198784267 KPWRTRTPRRW 11 Unmodified _KPWRTRTPRRW_ 0 0 0 ENST00000308664.10_1_12:110719337-110719667:+|nuORF ENST00000308664.10_1_12:110719337-110719667:+|nuORF ENST00000308664.10_1_12:110719337-110719667:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.9649658203125 3 513.963771 1538.86948 NaN NaN NaN NaN NaN NaN NaN 16.212 1 16.212 15.712 16.712 0 0 0 0 1.008 1 7179 7179 0.08335 0.08335 1 14184 6857 9111 9132 16280 16280 0.12160241370725089 KPWRTRTPRRW 11 Unmodified _KPWRTRTPRRW_ 0 0 0 ENST00000308664.10_1_12:110719337-110719667:+|nuORF ENST00000308664.10_1_12:110719337-110719667:+|nuORF ENST00000308664.10_1_12:110719337-110719667:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 770.4401245117188 2 770.442018 1538.86948 NaN NaN NaN NaN NaN NaN NaN 97.598 1 97.598 97.098 98.098 0 0 0 0 1.008 1 53177 53177 0.26902 0.26902 1 14185 6857 9111 9132 16281 16281 0.12160241370725089 KPWWDVFWYYI 11 Unmodified _KPWWDVFWYYI_ 0 0 0 ENSG00000197147|ENST00000330947|LRRC8B ENSG00000197147|ENST00000330947|LRRC8B ENSG00000197147|ENST00000330947|LRRC8B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.928955078125 3 534.930851 1601.77072 NaN NaN NaN NaN NaN NaN NaN 64.046 1 64.046 63.546 64.546 0 0 0 0 1.0082 1 30251 30251 0.08335 0.08335 1 14186 5797 9112 9133 16282 16282 -0.006092194375241888 KPWWEDEW 8 Unmodified _KPWWEDEW_ 0 0 0 ENST00000469956.1_1_1:32741525-32742647:+|nuORF;nc|ENSG00000182866|P06239-2|LCK;ENST00000469765.5_1_1:32739930-32745396:+|nuORF;ENSG00000182866|ENST00000336890|LCK;nc|ENSG00000182866|P06239-3|LCK ENST00000469956.1_1_1:32741525-32742647:+|nuORF ENST00000469956.1_1_1:32741525-32742647:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.6043701171875 2 588.261456 1174.50836 3.7758 0.0022211 0.20545 0.00012086 3.9812 0.002342 588.2614777073899 90.624 0.27863 91.297 91.19 91.469 0.67271 25 15 3 0 0 0 0.74071 1 41736 41736 2.5775 0.27475 1 655230 14187 5354 9113 9134 16283 16283 -0.07191420453477804 KPYDDSRLLL 10 Unmodified _KPYDDSRLLL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 407.2288513183594 3 407.227556 1218.66084 3.2417 0.0013201 1.9845 0.00080814 5.2262 0.0021282 407.56276824061996 46.241 0.2365 46.894 46.67 46.906 0.65219 13 7 2 0 0 0 0.57441 1 21165 21165 20.871 4.722 1 612690 14188 4953 9114 9135 16284 16284 0.06025355223300721 KPYIRTSL 8 Unmodified _KPYIRTSL_ 0 0 0 ENSG00000136381|ENST00000258886|IREB2;ENST00000559676.1_1_15:78777183-78780743:+|nuORF ENSG00000136381|ENST00000258886|IREB2 ENSG00000136381|ENST00000258886|IREB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.2944641113281 2 489.292559 976.570566 3.3503 0.0016393 0.26166 0.00012803 3.6119 0.0017673 489.29283139308205 27.299 0.23807 27.299 27.188 27.427 0 22 16 2 0 0 0 0.58952 1 12315 12315 14.838 3.198 1 259810 14189 2948 9115 9136 16285 16285 0.0813435068552053 KPYIRTSL 8 Unmodified _KPYIRTSL_ 0 0 0 ENSG00000136381|ENST00000258886|IREB2;ENST00000559676.1_1_15:78777183-78780743:+|nuORF ENSG00000136381|ENST00000258886|IREB2 ENSG00000136381|ENST00000258886|IREB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 489.2927551269531 2 489.292559 976.570566 3.1877 0.0015597 0.17145 8.3888E-05 3.3592 0.0016436 489.29258643442444 26.366 0.29308 27.144 27 27.294 0.7787 33 25 2 0 0 0 0.65679 1 11875 11875 9.3831 2.66 1 191430 14190 2948 9115 9136 16286 16286 0.0813435068552053 KPYIRTSL 8 Unmodified _KPYIRTSL_ 0 0 0 ENSG00000136381|ENST00000258886|IREB2;ENST00000559676.1_1_15:78777183-78780743:+|nuORF ENSG00000136381|ENST00000258886|IREB2 ENSG00000136381|ENST00000258886|IREB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.2938232421875 2 489.292559 976.570566 3.1009 0.0015172 0.47217 0.00023103 3.5731 0.0017483 489.2928060527221 27.076 0.3691 27.341 27.163 27.532 0.26489 42 25 2 0 0 0 0.36624 2 12302 12252;12302 30.637 6.616 1 595550 14191 2948 9115 9136 16287;16288 16288 0.0813435068552053 KPYIRTSL 8 Unmodified _KPYIRTSL_ 0 0 0 ENSG00000136381|ENST00000258886|IREB2;ENST00000559676.1_1_15:78777183-78780743:+|nuORF ENSG00000136381|ENST00000258886|IREB2 ENSG00000136381|ENST00000258886|IREB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.2943420410156 2 489.292559 976.570566 3.0961 0.0015149 0.33446 0.00016365 3.4305 0.0016785 489.2927018134364 26.669 0.4222 27.291 27.085 27.507 0.62178 48 28 2 0 0 0 0.36624 3 12229 12184;12229;12274 30.637 6.616 1 884890 14192 2948 9115 9136 16289;16290;16291 16290 0.0813435068552053 KPYKFSEYRR 10 Unmodified _KPYKFSEYRR_ 0 0 0 ENST00000475040.1_1_2:95814974-95815049:-|nuORF ENST00000475040.1_1_2:95814974-95815049:-|nuORF ENST00000475040.1_1_2:95814974-95815049:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 687.3698120117188 2 687.369861 1372.72517 NaN NaN NaN NaN NaN NaN NaN 18.558 1 18.558 18.058 19.058 0 0 0 0 1.0015 1 8246 8246 0.40072 0 1 14193 8217 9116 9137 16292 16292 0.05371555100077785 KPYKKNLKK 9 Unmodified _KPYKKNLKK_ 0 0 0 REV__ENST00000506674.1_1_4:78804483-78828134:+|nuORF REV__ENST00000506674.1_1_4:78804483-78828134:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 573.8720703125 2 573.871508 1145.72846 NaN NaN NaN NaN NaN NaN NaN 109.58 1 110.18 109.68 110.68 0.60264 0 0 0 0.91238 1 50534 50534 0.52476 0 1 + 14194 13387 9117 9138 16293 16293 0.16142849944753834 KPYKKVQS 8 Unmodified _KPYKKVQS_ 0 0 0 nc|ENSG00000197748|Q8NDM7-3|CFAP43;CFAP43|p.Y1031Lfs*2|1|0.43|ENSG00000197748|chr10:104164248-104164249|-/A|frameshift_variant;nc|ENSG00000197748|Q8NDM7-2|CFAP43;ENSG00000197748|ENST00000357060|CFAP43 nc|ENSG00000197748|Q8NDM7-3|CFAP43 nc|ENSG00000197748|Q8NDM7-3|CFAP43 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.2948913574219 2 489.292559 976.570566 3.3503 0.0016393 0.26166 0.00012803 3.6119 0.0017673 489.29283139308205 27.299 0.23807 27.299 27.188 27.427 0 22 16 2 0 0 0 0.69597 1 12332 12332 6.2058 0 1 259810 14195 115 9118 9139 16294 16294 0.0813435068552053 KPYKKVQS 8 Unmodified _KPYKKVQS_ 0 0 0 nc|ENSG00000197748|Q8NDM7-3|CFAP43;CFAP43|p.Y1031Lfs*2|1|0.43|ENSG00000197748|chr10:104164248-104164249|-/A|frameshift_variant;nc|ENSG00000197748|Q8NDM7-2|CFAP43;ENSG00000197748|ENST00000357060|CFAP43 nc|ENSG00000197748|Q8NDM7-3|CFAP43 nc|ENSG00000197748|Q8NDM7-3|CFAP43 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.293701171875 2 489.292559 976.570566 3.1009 0.0015172 0.47217 0.00023103 3.5731 0.0017483 489.2928060527221 27.076 0.3691 27.341 27.163 27.532 0.26489 42 25 2 0 0 0 0.69597 1 12353 12353 6.2058 0 1 595550 14196 115 9118 9139 16295 16295 0.0813435068552053 KPYLSRYFSNP 11 Unmodified _KPYLSRYFSNP_ 0 0 0 REV__nc|ENSG00000072803|Q9UKB1-2|FBXW11 REV__nc|ENSG00000072803|Q9UKB1-2|FBXW11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 686.3558959960938 2 686.356419 1370.69829 NaN NaN NaN NaN NaN NaN NaN 42.493 1 42.493 41.993 42.993 0 0 0 0 1.0073 1 19346 19346 1.1933 0 1 + 14197 10497 9119 9140 16296 16296 0.027764464888832663 KPYNRSQI 8 Unmodified _KPYNRSQI_ 0 0 0 REV__nc|ENSG00000086991|Q9NPH5-3|NOX4 REV__nc|ENSG00000086991|Q9NPH5-3|NOX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 503.279541015625 2 503.277441 1004.54033 NaN NaN NaN NaN NaN NaN NaN 75.425 1 75.425 74.925 75.925 0 0 0 0 0.99035 1 36960 36960 4.756 0.42677 1 + 14198 10659 9120 9141 16297 16297 0.03823992020318201 KPYQKVGL 8 Unmodified _KPYQKVGL_ 0 0 0 nc|ENSG00000163104|Q9H4L7-2|SMARCAD1;ENSG00000163104|ENST00000354268|SMARCAD1;nc|ENSG00000163104|Q9H4L7-3|SMARCAD1 nc|ENSG00000163104|Q9H4L7-2|SMARCAD1 nc|ENSG00000163104|Q9H4L7-2|SMARCAD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.7831115722656 2 466.781828 931.549102 2.5705 0.0011999 0.95671 0.00044658 3.5272 0.0016465 466.78221532654834 17.809 0.45885 18.111 17.876 18.335 0.30159 97 37 3 0 0 0 0.009759 4 8046 8007;8046;8093;8138 101.72 59.627 1 841880 14199 4190 9121 9142 16298;16299;16300;16301 16299 0.08058965656812234 KPYQKVGL 8 Unmodified _KPYQKVGL_ 0 0 0 nc|ENSG00000163104|Q9H4L7-2|SMARCAD1;ENSG00000163104|ENST00000354268|SMARCAD1;nc|ENSG00000163104|Q9H4L7-3|SMARCAD1 nc|ENSG00000163104|Q9H4L7-2|SMARCAD1 nc|ENSG00000163104|Q9H4L7-2|SMARCAD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.78314208984375 2 466.781828 931.549102 2.8604 0.0013352 0.11026 5.1467E-05 2.9707 0.0013867 466.7818411644776 17.644 0.31853 18.305 18.19 18.509 0.66072 99 42 3 0 0 0 0.0081859 3 8013 7925;7971;8013 123.1 69.521 1 2088400 14200 4190 9121 9142 16302;16303;16304 16304 0.08058965656812234 KPYQKVGL 8 Unmodified _KPYQKVGL_ 0 0 0 nc|ENSG00000163104|Q9H4L7-2|SMARCAD1;ENSG00000163104|ENST00000354268|SMARCAD1;nc|ENSG00000163104|Q9H4L7-3|SMARCAD1 nc|ENSG00000163104|Q9H4L7-2|SMARCAD1 nc|ENSG00000163104|Q9H4L7-2|SMARCAD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 311.5245666503906 3 311.523644 931.549102 2.1441 0.00066794 0.29295 9.126E-05 2.4371 0.0007592 311.52366814193056 17.691 0.26602 18.352 18.179 18.445 0.66072 49 36 2 0 0 0 0.34607 1 7979 7979 25.399 9.2502 1 750720 14201 4190 9121 9142 16305 16305 0.08058965656812234 KPYQKVGL 8 Unmodified _KPYQKVGL_ 0 0 0 nc|ENSG00000163104|Q9H4L7-2|SMARCAD1;ENSG00000163104|ENST00000354268|SMARCAD1;nc|ENSG00000163104|Q9H4L7-3|SMARCAD1 nc|ENSG00000163104|Q9H4L7-2|SMARCAD1 nc|ENSG00000163104|Q9H4L7-2|SMARCAD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 311.523644 931.549102 2.0587 0.00064132 0.7392 0.00023028 2.7979 0.0008716 311.52386515195957 17.839 0.41982 18.14 17.902 18.322 0.30158 -0.10568 0.0001889 NaN 25.399 89 35 3 NaN NaN NaN NaN 0 NaN NaN 0 505870 14202 4190 9121 9142 0.08058965656812234 KPYRDTEDRE 10 Unmodified _KPYRDTEDRE_ 0 0 0 nc|ENSG00000188785|Q8NEK5|ZNF548;ENSG00000188785|ENST00000336128|ZNF548 nc|ENSG00000188785|Q8NEK5|ZNF548 nc|ENSG00000188785|Q8NEK5|ZNF548 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 436.8805847167969 3 436.877474 1307.61059 NaN NaN NaN NaN NaN NaN NaN 15.82 1 15.82 15.32 16.32 0 0 0 0 1.0015 1 6999 6999 0.13989 0.04505 1 14203 5682 9122 9143 16306 16306 -0.030907991725371176 KPYVRVTM 8 Unmodified _KPYVRVTM_ 0 0 0 ENSG00000161217|ENST00000431016|PCYT1A;ENST00000491544.1_1_3:195974480-195997402:-|nuORF;ENST00000473978.5_1_3:195974976-195997402:-|nuORF;PCYT1A|p.F165Lfs*2|1|0.24|ENSG00000161217|chr3:196242632-196242632|A/-|frameshift_variant ENSG00000161217|ENST00000431016|PCYT1A ENSG00000161217|ENST00000431016|PCYT1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 497.2823791503906 2 497.281137 992.547722 NaN NaN NaN NaN NaN NaN NaN 26.631 1 26.631 26.131 27.131 0 0 0 0 0.87555 1 11992 11992 13.906 1.3745 1 14204 4096 9123 9144 16307 16307 0.051150082963886234 KPYVRVTM 8 Unmodified _KPYVRVTM_ 0 0 0 ENSG00000161217|ENST00000431016|PCYT1A;ENST00000491544.1_1_3:195974480-195997402:-|nuORF;ENST00000473978.5_1_3:195974976-195997402:-|nuORF;PCYT1A|p.F165Lfs*2|1|0.24|ENSG00000161217|chr3:196242632-196242632|A/-|frameshift_variant ENSG00000161217|ENST00000431016|PCYT1A ENSG00000161217|ENST00000431016|PCYT1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 497.28228759765625 2 497.281137 992.547722 2.9358 0.0014599 0.41353 0.00020564 3.3494 0.0016656 497.2814696598603 25.584 0.38876 26.347 26.244 26.633 0.76356 37 25 2 0 0 0 0.52777 1 11484 11484 19.257 6.7254 1 245850 14205 4096 9123 9144 16308 16308 0.051150082963886234 KPYVRVTM 8 Unmodified _KPYVRVTM_ 0 0 0 ENSG00000161217|ENST00000431016|PCYT1A;ENST00000491544.1_1_3:195974480-195997402:-|nuORF;ENST00000473978.5_1_3:195974976-195997402:-|nuORF;PCYT1A|p.F165Lfs*2|1|0.24|ENSG00000161217|chr3:196242632-196242632|A/-|frameshift_variant ENSG00000161217|ENST00000431016|PCYT1A ENSG00000161217|ENST00000431016|PCYT1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.2822570800781 2 497.281137 992.547722 3.2544 0.0016183 0.042964 2.1365E-05 3.2974 0.0016397 497.2813263122388 26.267 0.52622 26.532 26.372 26.898 0.26489 98 42 3 0 0 0 0.45971 1 11897 11897 24.021 11.489 1 911910 14206 4096 9123 9144 16309 16309 0.051150082963886234 KPYVRVTM 8 Unmodified _KPYVRVTM_ 0 0 0 ENSG00000161217|ENST00000431016|PCYT1A;ENST00000491544.1_1_3:195974480-195997402:-|nuORF;ENST00000473978.5_1_3:195974976-195997402:-|nuORF;PCYT1A|p.F165Lfs*2|1|0.24|ENSG00000161217|chr3:196242632-196242632|A/-|frameshift_variant ENSG00000161217|ENST00000431016|PCYT1A ENSG00000161217|ENST00000431016|PCYT1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.2821350097656 2 497.281137 992.547722 3.1232 0.0015531 0.44295 0.00022027 3.5662 0.0017734 497.28147726700104 25.931 0.5 26.556 26.41 26.91 0.62505 87 36 3 0 0 0 0.29142 3 11852 11852;11950;11996 36.127 17.992 1 1387300 14207 4096 9123 9144 16310;16311;16312 16310 0.051150082963886234 KPYWHQSMFW 10 Unmodified _KPYWHQSMFW_ 0 0 0 ENSG00000156709|ENST00000287295|AIFM1;nc|ENSG00000156709|O95831-5|AIFM1;nc|ENSG00000156709|O95831-2|AIFM1;nc|ENSG00000156709|O95831-3|AIFM1 ENSG00000156709|ENST00000287295|AIFM1 ENSG00000156709|ENST00000287295|AIFM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.4687194824219 3 470.553497 1408.63866 NaN NaN NaN NaN NaN NaN NaN 15.244 1 15.455 14.955 15.955 0.21108 0 0 0 1.0015 1 6719 6719 0.13989 0.056541 1 14208 3922 9124 9145 16313 16313 -0.04931147726142626 KQAKERLERQR 11 Unmodified _KQAKERLERQR_ 0 0 0 REV__ENSG00000178395|ENST00000366875|CCDC185 REV__ENSG00000178395|ENST00000366875|CCDC185 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.2846984863281 3 481.283057 1440.82734 3.3513 0.0016129 0.15029 7.2333E-05 3.5016 0.0016852 481.28289747349424 95.954 1.2495 96.562 95.934 97.184 0.60769 162 66 3 0 0 0 0.91459 1 44228 44228 0.094841 0 1 1354200 + 14209 13761 9125 9146 16314 16314 0.1245622117169205 KQALKYFNL 9 Unmodified _KQALKYFNL_ 0 0 0 ENSG00000071537|ENST00000336735|SEL1L ENSG00000071537|ENST00000336735|SEL1L ENSG00000071537|ENST00000336735|SEL1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.8286743164062 2 562.826766 1123.63898 3.4293 0.0019301 -0.32515 -0.000183 3.1042 0.0017471 562.8265535660194 48.263 0.43833 48.263 48.044 48.482 0 81 25 5 0 0 0 3.8587E-09 3 22146 22041;22101;22146 181.33 126.55 1 7602300 14210 778 9126 9147 16315;16316;16317 16317 0.08210595265359188 KQALKYFNL 9 Unmodified _KQALKYFNL_ 0 0 0 ENSG00000071537|ENST00000336735|SEL1L ENSG00000071537|ENST00000336735|SEL1L ENSG00000071537|ENST00000336735|SEL1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 375.5544738769531 3 375.553603 1123.63898 2.7981 0.0010508 -0.3117 -0.00011706 2.4864 0.00093379 375.55355275789327 48.276 0.40488 48.276 48.061 48.466 0 55 23 3 0 0 0 0.053453 2 22066 22066;22118 45.7 17.292 1 3614800 14211 778 9126 9147 16318;16319 16318 0.08210595265359188 KQALKYFNL 9 Unmodified _KQALKYFNL_ 0 0 0 ENSG00000071537|ENST00000336735|SEL1L ENSG00000071537|ENST00000336735|SEL1L ENSG00000071537|ENST00000336735|SEL1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.828369140625 2 562.826766 1123.63898 3.2373 0.001822 0.10848 6.1053E-05 3.3458 0.0018831 562.8267558531641 47.065 0.37271 47.894 47.705 48.077 0.82915 68 21 4 0 0 0 1.0067000000000001E-30 3 21404 21404;21448;21494 214.14 159.36 1 7709700 14212 778 9126 9147 16320;16321;16322 16320 0.08210595265359188 KQALKYFNL 9 Unmodified _KQALKYFNL_ 0 0 0 ENSG00000071537|ENST00000336735|SEL1L ENSG00000071537|ENST00000336735|SEL1L ENSG00000071537|ENST00000336735|SEL1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 375.554931640625 3 375.553603 1123.63898 2.2925 0.00086097 0.048016 1.8033E-05 2.3405 0.000879 375.5536257013264 47.09 0.37271 47.919 47.705 48.077 0.82915 63 21 4 0 0 0 0.053453 2 21417 21417;21462 45.7 17.205 1 3284700 14213 778 9126 9147 16323;16324 16323 0.08210595265359188 KQALKYFNL 9 Unmodified _KQALKYFNL_ 0 0 0 ENSG00000071537|ENST00000336735|SEL1L ENSG00000071537|ENST00000336735|SEL1L ENSG00000071537|ENST00000336735|SEL1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.8287963867188 2 562.826766 1123.63898 3.7476 0.0021093 -0.40738 -0.00022929 3.3403 0.00188 562.8265310246509 48.235 0.41336 48.497 48.263 48.677 0.26209 57 22 4 0 0 0 2.4683E-14 3 22057 22003;22057;22103 197.17 132.93 1 6039000 14214 778 9126 9147 16325;16326;16327 16326 0.08210595265359188 KQALKYFNL 9 Unmodified _KQALKYFNL_ 0 0 0 ENSG00000071537|ENST00000336735|SEL1L ENSG00000071537|ENST00000336735|SEL1L ENSG00000071537|ENST00000336735|SEL1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.88885498046875 3 375.553603 1123.63898 2.9281 0.0010997 -0.062287 -2.3392E-05 2.8658 0.0010763 375.5537062384088 48.237 0.34423 48.499 48.289 48.633 0.26209 35 16 3 0 0 0 0.10584 2 22014 22014;22088 31.268 19.774 1 2313300 14215 778 9126 9147 16328;16329 16328 0.08210595265359188 KQALKYFNL 9 Unmodified _KQALKYFNL_ 0 0 0 ENSG00000071537|ENST00000336735|SEL1L ENSG00000071537|ENST00000336735|SEL1L ENSG00000071537|ENST00000336735|SEL1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.8284912109375 2 562.826766 1123.63898 3.5703 0.0020094 -0.087155 -4.9053E-05 3.4831 0.0019604 562.8266639735859 47.594 0.44456 48.248 47.988 48.432 0.65356 59 19 4 0 0 0 2.4683E-14 3 21815 21720;21770;21815 181.33 116.09 1 4446300 14216 778 9126 9147 16330;16331;16332 16332 0.08210595265359188 KQALKYFNL 9 Unmodified _KQALKYFNL_ 0 0 0 ENSG00000071537|ENST00000336735|SEL1L ENSG00000071537|ENST00000336735|SEL1L ENSG00000071537|ENST00000336735|SEL1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 375.554931640625 3 375.553603 1123.63898 2.6938 0.0010117 0.08658 3.2516E-05 2.7804 0.0010442 375.55378693907045 47.577 0.36351 48.231 48.016 48.38 0.65356 40 15 4 0 0 0 0.053453 2 21781 21731;21781 45.7 23.042 1 2041200 14217 778 9126 9147 16333;16334 16334 0.08210595265359188 KQARRRLGP 9 Unmodified _KQARRRLGP_ 0 0 0 REV__ENST00000262735.9_1_22:46632238-46632316:+|nuORF REV__ENST00000262735.9_1_22:46632238-46632316:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.4024047851562 2 541.338698 1080.66284 NaN NaN NaN NaN NaN NaN NaN 76.428 1 77.052 76.552 77.552 0.62397 0 0 0 0.72654 1 37041 37041 11.64 1.5664 1 + 14218 14989 9127 9148 16335 16335 0.12573873542442016 KQCINLQV 8 Unmodified _KQCINLQV_ 0 0 0 REV__ENSG00000145555|ENST00000513610|MYO10 REV__ENSG00000145555|ENST00000513610|MYO10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.26495361328125 2 473.262945 944.511337 3.118 0.0014757 0.64358 0.00030458 3.7616 0.0017802 473.2632292249736 13.528 0.26729 14.177 14.042 14.31 0.64819 32 18 3 0 0 0 0.72814 1 6134 6134 2.3027 0.4585 1 138320 + 14219 12445 9128 9149 16336 16336 0.03686131399695114 KQCPAAALRVA 11 Unmodified _KQCPAAALRVA_ 0 0 0 REV__ENSG00000170745|ENST00000304101|KCNS3 REV__ENSG00000170745|ENST00000304101|KCNS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.322509765625 2 564.321325 1126.6281 NaN NaN NaN NaN NaN NaN NaN 55.457 1 55.723 55.223 56.223 0.26543 0 0 0 0.98464 1 25360 25360 8.1555 0.8663 1 + 14220 13449 9129 9150 16337 16337 0.0698486961944127 KQELALEVI 9 Unmodified _KQELALEVI_ 0 0 0 REV__ENSG00000118873|ENST00000358951|RAB3GAP2 REV__ENSG00000118873|ENST00000358951|RAB3GAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.8126831054688 2 521.810782 1041.60701 3.1717 0.001655 -0.38031 -0.00019845 2.7914 0.0014566 521.8108219621864 52.314 0.27217 52.976 52.801 53.073 0.66198 19 11 2 0 0 0 0.11458 1 23939 23939 29.082 0 1 613730 + 14221 11483 9130 9151 16338 16338 0.0878718279154782 KQELWREKWER 11 Unmodified _KQELWREKWER_ 0 0 0 ADAMTS12|p.Q1343Hfs*4|1|0.49|ENSG00000151388|chr5:33561122-33561123|TC/-|frameshift_variant;nc|ENSG00000151388|P58397-3|ADAMTS12;ENSG00000151388|ENST00000504830|ADAMTS12 ADAMTS12|p.Q1343Hfs*4|1|0.49|ENSG00000151388|chr5:33561122-33561123|TC/-|frameshift_variant ADAMTS12|p.Q1343Hfs*4|1|0.49|ENSG00000151388|chr5:33561122-33561123|TC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 794.4229125976562 2 794.423156 1586.83176 NaN NaN NaN NaN NaN NaN NaN 47.736 1 48 47.5 48.5 0.26363 0 0 0 1.0082 1 21820 21820 0 0 1 14222 12 9131 9152 16339 16339 0.06181685594560804 KQEPSDSFR 9 Unmodified _KQEPSDSFR_ 0 0 0 REV__ENSG00000244607|ENST00000310232|CCDC13 REV__ENSG00000244607|ENST00000310232|CCDC13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.26904296875 2 547.26727 1092.51999 2.9561 0.0016178 0.66542 0.00036416 3.6215 0.0019819 547.2675511535296 13.423 0.24146 13.666 13.53 13.772 0.24346 50 23 3 0 0 0 0.24465 1 5840 5840 20.454 2.3073 1 1078300 + 14223 14639 9132 9153 16340 16340 -0.022572234301378558 KQERKEKEKKR 11 Unmodified _KQERKEKEKKR_ 0 0 0 ENSG00000180329|ENST00000315286|CCDC43 ENSG00000180329|ENST00000315286|CCDC43 ENSG00000180329|ENST00000315286|CCDC43 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 743.9459228515625 2 743.944256 1485.87396 NaN NaN NaN NaN NaN NaN NaN 76.618 1 76.618 76.118 77.118 0 0 0 0 1.0072 1 37553 37553 1.3295 0.9789 1 14224 5247 9133 9154 16341 16341 0.15045661002955057 KQFHDEEDEEE 11 Unmodified _KQFHDEEDEEE_ 0 0 0 REV__ENSG00000221909|ENST00000449309|FAM200A REV__ENSG00000221909|ENST00000449309|FAM200A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 717.78515625 2 717.786418 1433.55828 NaN NaN NaN NaN NaN NaN NaN 70.78 1 70.78 70.28 71.28 0 0 0 0 1.0072 1 34383 34383 1.3295 0 1 + 14225 14541 9134 9155 16342 16342 -0.14115427096771782 KQGTLAQK 8 Unmodified _KQGTLAQK_ 0 0 0 ENSG00000162779|ENST00000367618|AXDND1 ENSG00000162779|ENST00000367618|AXDND1 ENSG00000162779|ENST00000367618|AXDND1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2625427246094 2 437.261259 872.507966 NaN NaN NaN NaN NaN NaN NaN 18.659 1 19.32 18.82 19.82 0.66072 0 0 0 0.18359 1 8458 8458 68.081 0 1 14226 4168 9135 9156 16343 16343 0.06661204617319072 KQHKLLEFRER 11 Unmodified _KQHKLLEFRER_ 0 0 0 REV__nc|ENSG00000106344|Q9NW13-2|RBM28 REV__nc|ENSG00000106344|Q9NW13-2|RBM28 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 742.4287109375 2 742.428242 1482.84193 NaN NaN NaN NaN NaN NaN NaN 74.786 1 74.786 74.286 75.286 0 0 0 0 1.0072 1 36591 36591 1.3295 0 1 + 14227 11078 9136 9157 16344 16344 0.11982293319806558 KQHLKEGI 8 Unmodified _KQHLKEGI_ 0 0 0 REV__nc|ENSG00000005469|Q9UKG9-2|CROT REV__nc|ENSG00000005469|Q9UKG9-2|CROT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 318.1915283203125 3 318.190665 951.550165 NaN NaN NaN NaN NaN NaN NaN 32.071 1 32.689 32.189 33.189 0.61831 0 0 0 0.99035 1 14706 14706 1.6526 0.58116 1 + 14228 10181 9137 9158 16345 16345 0.07245180025711306 KQHRRKRRREL 11 Unmodified _KQHRRKRRREL_ 0 0 0 REV__ENST00000233379.8_1_2:96079888-96080107:+|nuORF REV__ENST00000233379.8_1_2:96079888-96080107:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 391.74658203125 4 391.494825 1561.95019 2.1904 0.00085752 -0.14904 -5.8347E-05 2.0413 0.00079918 391.4947554008573 54.629 1.0905 55.425 55.061 56.151 0.79552 299 73 6 0 0 0 0.13295 1 24818 24818 0.094841 0.094841 1 79193000 + 14229 14861 9138 9159 16346 16346 0.1916952241360832 KQHRRKRRREL 11 Unmodified _KQHRRKRRREL_ 0 0 0 REV__ENST00000233379.8_1_2:96079888-96080107:+|nuORF REV__ENST00000233379.8_1_2:96079888-96080107:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.6591796875 3 521.657341 1561.95019 3.1198 0.0016274 -0.16987 -8.8613E-05 2.9499 0.0015388 521.6571415019056 55.076 0.68974 55.341 55.146 55.835 0.26543 161 38 5 0 0 0 0.91378 3 25118 25118;25332;25385 0.50596 0.41111 1 30005000 + 14230 14861 9138 9159 16347;16348;16349 16347 0.1916952241360832 KQHRRKRRREL 11 Unmodified _KQHRRKRRREL_ 0 0 0 REV__ENST00000233379.8_1_2:96079888-96080107:+|nuORF REV__ENST00000233379.8_1_2:96079888-96080107:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.9931640625 3 521.657341 1561.95019 3.2508 0.0016958 -0.37439 -0.0001953 2.8764 0.0015005 521.9914711819997 54.484 0.43283 55.15 54.859 55.292 0.6665 109 29 4 0 0 0 0.91378 1 24792 24792 0.50596 0.41111 1 22573000 + 14231 14861 9138 9159 16350 16350 0.1916952241360832 KQHRRKRRREL 11 Unmodified _KQHRRKRRREL_ 0 0 0 REV__ENST00000233379.8_1_2:96079888-96080107:+|nuORF REV__ENST00000233379.8_1_2:96079888-96080107:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.9931640625 3 521.657341 1561.95019 3.2508 0.0016958 -0.37439 -0.0001953 2.8764 0.0015005 521.9914711819997 54.484 0.43283 55.15 54.859 55.292 0.6665 109 29 4 0 0 0 0.13295 1 24792 24792 0.50596 0.41111 1 22573000 + 14232 14861 9138 9159 16351 16351 0.1916952241360832 KQIKQRERKNN 11 Unmodified _KQIKQRERKNN_ 0 0 0 ENSG00000011454|ENST00000373647|RABGAP1;nc|ENSG00000188394|Q9Y3P9-3|RABGAP1;nc|ENSG00000188394|Q9Y3P9-2|RABGAP1 ENSG00000011454|ENST00000373647|RABGAP1 ENSG00000011454|ENST00000373647|RABGAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.6198425292969 3 481.283057 1440.82734 3.8615 0.0018585 0.38456 0.00018508 4.2461 0.0020436 481.2831115114792 96.379 1.1285 96.657 96.204 97.333 0.27778 147 58 4 0 0 0 0.91359 1 44155 44155 0.40827 0.078994 1 1145700 14233 417 9139 9160 16352 16352 0.1245622117169205 KQIKQRERKNN 11 Unmodified _KQIKQRERKNN_ 0 0 0 ENSG00000011454|ENST00000373647|RABGAP1;nc|ENSG00000188394|Q9Y3P9-3|RABGAP1;nc|ENSG00000188394|Q9Y3P9-2|RABGAP1 ENSG00000011454|ENST00000373647|RABGAP1 ENSG00000011454|ENST00000373647|RABGAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 721.4229125976562 2 721.420948 1440.82734 4.1593 0.0030006 1.325 0.00095587 5.4843 0.0039565 721.4218844484852 95.963 0.48647 96.571 96.28 96.766 0.60768 53 28 3 0 0 0 0.91359 1 44048 44048 1.1933 0.84271 1 852920 14234 417 9139 9160 16353 16353 0.1245622117169205 KQIKSDSSR 9 Unmodified _KQIKSDSSR_ 0 0 0 REV__ENSG00000038219|ENST00000040738|BOD1L1 REV__ENSG00000038219|ENST00000040738|BOD1L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.20770263671875 3 350.196367 1047.56727 NaN NaN NaN NaN NaN NaN NaN 43.683 1 43.683 43.183 44.183 0 0 0 0 0.89451 1 19921 19921 4.897 0.56777 1 + 14235 10305 9140 9161 16354 16354 0.04539055840837136 KQIVRKGYR 9 Unmodified _KQIVRKGYR_ 0 0 0 REV__nc|ENSG00000013561|Q9UBS8-2|RNF14 REV__nc|ENSG00000013561|Q9UBS8-2|RNF14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.6845703125 2 574.356557 1146.69856 NaN NaN NaN NaN NaN NaN NaN 54.833 1 55.628 55.128 56.128 0.79552 0 0 0 0.86044 1 25025 25025 7.2892 2.5332 1 + 14236 10248 9141 9162 16355 16355 0.13107910999406158 KQKKAKVHL 9 Unmodified _KQKKAKVHL_ 0 0 0 REV__nc|ENSG00000039600|O94993-2|SOX30 REV__nc|ENSG00000039600|O94993-2|SOX30 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.3550415039062 2 540.356025 1078.6975 NaN NaN NaN NaN NaN NaN NaN 78.037 1 78.699 78.199 79.199 0.66198 0 0 0 0.90699 1 35962 35962 1.8442 0 1 + 14237 10313 9142 9163 16356 16356 0.16129696630491708 KQKKNKKRKRF 11 Unmodified _KQKKNKKRKRF_ 0 0 0 REV__ENST00000392650.7_1_17:71334055-71334301:-|nuORF REV__ENST00000392650.7_1_17:71334055-71334301:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.9906005859375 3 496.991438 1487.95248 NaN NaN NaN NaN NaN NaN NaN 43.088 1 43.088 42.588 43.588 0 0 0 0 1.0082 1 19620 19620 0.094841 0.094841 1 + 14238 15933 9143 9164 16357 16357 0.22802558098715053 KQKKRRKKKKK 11 Unmodified _KQKKRRKKKKK_ 0 0 0 TIMELESS|p.E974Kfs*31|1|0.04|ENSG00000111602|chr12:56421083-56421084|-/ATTTCCTTAGGCTT|frameshift_variant;nc|ENSG00000111602|Q9UNS1-2|TIMELESS;ENSG00000111602|ENST00000553532|TIMELESS TIMELESS|p.E974Kfs*31|1|0.04|ENSG00000111602|chr12:56421083-56421084|-/ATTTCCTTAGGCTT|frameshift_variant TIMELESS|p.E974Kfs*31|1|0.04|ENSG00000111602|chr12:56421083-56421084|-/ATTTCCTTAGGCTT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.10394287109375 3 495.350966 1483.03107 NaN NaN NaN NaN NaN NaN NaN 76.551 1 76.806 76.306 77.306 0.25533 0 0 0 1.0082 1 35246 35246 0.073264 0 1 14239 18276 9144 9165 16358 16358 0.30887410403806825 KQKKRRRRMMK 11 Unmodified _KQKKRRRRMMK_ 0 0 0 REV__ENST00000325083.12_1_8:17815084-17817658:+|nuORF REV__ENST00000325083.12_1_8:17815084-17817658:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 773.0896606445312 2 773.47448 1544.93441 NaN NaN NaN NaN NaN NaN NaN 86.515 1 86.515 86.015 87.015 0 0 0 0 1.008 1 44369 44369 0.30703 0.30703 1 + 14240 15349 9145 9166 16359 16359 0.1837377658071091 KQKKVLKKKH 10 Unmodified _KQKKVLKKKH_ 0 0 0 ENST00000511521.1_1_4:78792999-78804460:+|nuORF ENST00000511521.1_1_4:78792999-78804460:+|nuORF ENST00000511521.1_1_4:78792999-78804460:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.3001708984375 2 632.932431 1263.85031 3.6932 0.0023375 0.86489 0.00054742 4.5581 0.002885 632.9338667126482 56.211 0.030624 56.211 56.182 56.213 0 4 2 2 0 0 0 0.12676 1 25850 25850 1.6526 0 1 660640 14241 8564 9146 9167 16360 16360 0.22893892027104812 KQKLPRKRKKH 11 Unmodified _KQKLPRKRKKH_ 0 0 0 nc|ENSG00000166006|Q96PR1-4|KCNC2;nc|ENSG00000166006|Q96PR1-5|KCNC2;nc|ENSG00000166006|Q96PR1-3|KCNC2;nc|ENSG00000166006|Q96PR1-6|KCNC2;nc|ENSG00000166006|Q96PR1-2|KCNC2;ENSG00000166006|ENST00000549446|KCNC2 nc|ENSG00000166006|Q96PR1-4|KCNC2 nc|ENSG00000166006|Q96PR1-4|KCNC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.9874267578125 3 482.987916 1445.94192 NaN NaN NaN NaN NaN NaN NaN 73.007 1 73.705 73.205 74.205 0.69881 0 0 0 1.008 1 35179 35179 0.08335 0 1 14242 4444 9147 9168 16361 16361 0.2367857544427352 KQKPKRRRRR 10 Unmodified _KQKPKRRRRR_ 0 0 0 REV__ENSG00000132793|ENST00000373257|LPIN3 REV__ENSG00000132793|ENST00000373257|LPIN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 704.9620971679688 2 704.963452 1407.91235 NaN NaN NaN NaN NaN NaN NaN 109.57 1 110.17 109.67 110.67 0.60264 0 0 0 1.0015 1 50532 50532 0.40072 0.050084 1 + 14243 11912 9148 9169 16362 16362 0.22471056218796548 KQKPRYEIRWR 11 Unmodified _KQKPRYEIRWR_ 0 0 0 ENSG00000134853|ENST00000257290|PDGFRA;ENST00000509092.5_1_4:55124935-55146696:+|nuORF;nc|ENSG00000134853|P16234-3|PDGFRA ENSG00000134853|ENST00000257290|PDGFRA ENSG00000134853|ENST00000257290|PDGFRA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 780.1117553710938 2 780.449508 1558.88446 NaN NaN NaN NaN NaN NaN NaN 79.231 1 79.695 79.195 80.195 0.4642 0 0 0 1.0079 1 38687 38687 0.26902 0 1 14244 2832 9149 9170 16363 16363 0.1273768844805545 KQKRQFVHLAV 11 Unmodified _KQKRQFVHLAV_ 0 0 0 nc|ENSG00000162065|Q9ULP9-2|TBC1D24 nc|ENSG00000162065|Q9ULP9-2|TBC1D24 nc|ENSG00000162065|Q9ULP9-2|TBC1D24 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.94573974609375 3 451.941973 1352.80409 NaN NaN NaN NaN NaN NaN NaN 49.66 1 50.318 49.818 50.818 0.65735 0 0 0 1.0072 1 22715 22715 1.3296 0.11481 1 14245 9713 9150 9171 16364 16364 0.14179827125030897 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.98785400390625 4 362.986901 1447.9185 2.6131 0.00094851 -0.23903 -8.6764E-05 2.3741 0.00086175 362.98669438501986 43.723 0.44697 43.723 43.458 43.905 0 137 45 4 0 0 0 0.94099 1 19970 19970 0.69767 0.53834 1 48060000 + 14246 12908 9151 9172 16365 16365 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.9878845214844 4 362.986901 1447.9185 2.574 0.00093434 0.066922 2.4292E-05 2.641 0.00095863 362.98685928184335 45.311 0.80037 45.311 45.011 45.811 0 190 40 5 0 0 0 0.94099 2 20841 20644;20841 0.69767 0.53834 1 27549000 + 14247 12908 9151 9172 16366;16367 16367 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.98773193359375 4 362.986901 1447.9185 2.5401 0.00092202 -0.20943 -7.602E-05 2.3307 0.000846 362.98674666416287 45.945 0.41904 45.945 45.79 46.209 0 85 21 5 0 0 0 0.94099 1 20999 20999 0.69767 0.53834 1 18345000 + 14248 12908 9151 9172 16368 16368 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.9878845214844 4 362.986901 1447.9185 2.5025 0.00090836 -0.23872 -8.6651E-05 2.2637 0.00082171 362.9867437859419 46.4 0.95683 46.4 46.151 47.108 0 89 44 3 0 0 0 0.94099 1 21347 21347 0.69767 0.55777 1 2881300 + 14249 12908 9151 9172 16369 16369 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.98785400390625 4 362.986901 1447.9185 2.4454 0.00088766 -0.12419 -4.5078E-05 2.3212 0.00084258 362.9867217345415 47.116 0.72353 47.116 46.738 47.461 0 61 35 3 0 0 0 0.94099 1 21618 21618 0.69767 0.2894 1 2763100 + 14250 12908 9151 9172 16370 16370 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.98785400390625 4 362.986901 1447.9185 2.5444 0.0009236 -0.52239 -0.00018962 2.022 0.00073398 362.986561420716 47.77 0.67963 47.77 47.657 48.336 0 94 40 3 0 0 0 0.94374 1 22079 22079 0.13989 0.13989 1 2542500 + 14251 12908 9151 9172 16371 16371 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.9876708984375 4 362.986901 1447.9185 2.2904 0.0008314 -0.13024 -4.7274E-05 2.1602 0.00078413 362.9867415385163 42.6 0.33962 43.408 43.327 43.667 0.80855 142 54 3 0 0 0 0.94099 3 19351 19351;19396;19441 0.69767 0.61432 1 17755000 + 14252 12908 9151 9172 16372;16373;16374 16372 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.9876708984375 4 362.986901 1447.9185 2.3027 0.00083585 0.18897 6.8593E-05 2.4917 0.00090444 362.9868816312235 44.601 1.3027 45.421 44.775 46.078 0.82074 261 70 5 0 0 0 0.94099 6 20260 20049;20260;20305;20354;20402;20459 0.69767 0.69767 1 23315000 + 14253 12908 9151 9172 16375;16376;16377;16378;16379;16380 16376 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.9878845214844 4 362.986901 1447.9185 2.3453 0.0008513 0.10562 3.8339E-05 2.4509 0.00088964 362.9867676738187 45.876 1.116 46.702 45.948 47.064 0.82621 106 60 4 0 0 0 0.94099 1 21009 21009 0.69767 0.55777 1 2397000 + 14254 12908 9151 9172 16381 16381 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.9876708984375 4 362.986901 1447.9185 2.6537 0.00096326 -0.074901 -2.7188E-05 2.5788 0.00093607 363.23756331405866 42.853 0.25243 43.123 43.08 43.332 0.27021 77 34 3 0 0 0 0.94099 3 19559 19559;19606;19653 0.69767 0.69767 1 54272000 + 14255 12908 9151 9172 16382;16383;16384 16382 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.98773193359375 4 362.986901 1447.9185 2.4606 0.00089316 -0.016517 -5.9954E-06 2.4441 0.00088716 362.9868567910303 45.038 1.369 45.306 44.634 46.003 0.26768 162 59 5 0 0 0 0.94099 4 20473 20473;20621;20679;20743 0.69767 0.53834 1 37162000 + 14256 12908 9151 9172 16385;16386;16387;16388 16385 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.2384338378906 4 362.986901 1447.9185 2.7807 0.0010094 -0.16446 -5.9697E-05 2.6162 0.00094966 363.2375435057215 46.672 1.4287 46.938 46.078 47.507 0.26561 132 55 3 0 0 0 0.94374 1 21346 21346 0.13989 0.056541 1 6257500 + 14257 12908 9151 9172 16389 16389 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.2384338378906 4 362.986901 1447.9185 2.8236 0.0010249 -0.46443 -0.00016858 2.3592 0.00085637 362.9866426392085 47.627 1.2008 47.891 47.368 48.569 0.26363 111 61 2 0 0 0 0.94374 1 21775 21775 0.13989 0.13989 1 3449200 + 14258 12908 9151 9172 16390 16390 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.2385559082031 4 362.986901 1447.9185 2.7756 0.0010075 0.23558 8.5512E-05 3.0112 0.001093 363.2378746454228 48.51 0.56056 48.773 48.552 49.113 0.26209 82 31 3 0 0 0 0.94099 2 22175 22175;22268 0.69767 0.55777 1 2461400 + 14259 12908 9151 9172 16391;16392 16391 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.98773193359375 4 362.986901 1447.9185 2.5089 0.0009107 0.40755 0.00014793 2.9165 0.0010586 362.98698700879805 50.938 0.52547 51.2 50.852 51.377 0.26146 49 23 3 0 0 0 0.94099 1 23273 23273 0.69767 0.53834 1 2339400 + 14260 12908 9151 9172 16393 16393 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.9878845214844 4 362.986901 1447.9185 2.7117 0.00098433 -0.013852 -5.028E-06 2.6979 0.0009793 362.9868214441988 42.297 0.63512 42.944 42.648 43.284 0.64693 202 66 5 0 0 0 0.94099 5 19318 19318;19362;19407;19451;19497 0.69767 0.69767 1 20159000 + 14261 12908 9151 9172 16394;16395;16396;16397;16398 16394 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.9879455566406 4 362.986901 1447.9185 2.7079 0.00098295 0.1069 3.8802E-05 2.8148 0.0010217 362.98692221166715 44.029 0.70946 44.678 44.512 45.221 0.64872 152 32 5 0 0 0 0.94099 1 20330 20330 0.69767 0.69767 1 55641000 + 14262 12908 9151 9172 16399 16399 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.9880065917969 4 362.986901 1447.9185 2.734 0.0009924 0.16668 6.0502E-05 2.9007 0.0010529 362.98681620386276 44.693 0.86301 45.343 45.197 46.06 0.64998 105 33 6 0 0 0 0.94099 1 20492 20492 0.69767 0.69767 1 21432000 + 14263 12908 9151 9172 16400 16400 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.98687744140625 4 362.986901 1447.9185 2.7117 0.00098433 -0.013852 -5.028E-06 2.6979 0.0009793 362.9868214441988 42.297 0.63512 42.944 42.648 43.284 0.64693 202 66 5 0 0 0 0.12676 1 19275 19275 0.13989 0.056541 1 20159000 + 14264 12908 9151 9172 16401 16401 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 362.986901 1447.9185 2.6131 0.00094851 -0.23903 -8.6764E-05 2.3741 0.00086175 362.98669438501986 43.723 0.44697 43.723 43.458 43.905 0 0.15737 -6.8112E-05 NaN 0.69767 137 45 4 NaN NaN NaN NaN 0 NaN NaN 0 48060000 + 14265 12908 9151 9172 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 362.986901 1447.9185 2.4454 0.00088766 -0.12419 -4.5078E-05 2.3212 0.00084258 362.9867217345415 47.116 0.72353 47.116 46.738 47.461 0 0.087063 -2.0564E-05 NaN 0.69767 61 35 3 NaN NaN NaN NaN 0 NaN NaN 0 2763100 + 14266 12908 9151 9172 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 362.986901 1447.9185 2.309 0.00083815 -0.30358 -0.0001102 2.0054 0.00072795 363.23751853196376 46.365 0.26305 47.194 47.067 47.33 0.82915 0.16449 -0.00028103 NaN 0.69767 35 14 3 NaN NaN NaN NaN 0 NaN NaN 0 934740 + 14267 12908 9151 9172 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 362.986901 1447.9185 2.2046 0.00080022 2.1568 0.00078289 4.3614 0.0015831 362.98697438640596 50.658 0.30286 51.475 51.364 51.667 0.81738 0.13785 0.0022657 NaN 0.69767 24 16 2 NaN NaN NaN NaN 0 NaN NaN 0 593530 + 14268 12908 9151 9172 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 362.986901 1447.9185 2.7807 0.0010094 -0.16446 -5.9697E-05 2.6162 0.00094966 363.2375435057215 46.672 1.4287 46.938 46.078 47.507 0.26561 -0.091455 -7.9041E-05 NaN 0.69767 132 55 3 NaN NaN NaN NaN 0 NaN NaN 0 6257500 + 14269 12908 9151 9172 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 362.986901 1447.9185 2.5089 0.0009107 0.40755 0.00014793 2.9165 0.0010586 362.98698700879805 50.938 0.52547 51.2 50.852 51.377 0.26146 -0.13785 -0.00027413 NaN 0.69767 49 23 3 NaN NaN NaN NaN 0 NaN NaN 0 2339400 + 14270 12908 9151 9172 0.21245574450313143 KQKRRRRKHR 10 Unmodified _KQKRRRRKHR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 362.986901 1447.9185 2.8368 0.0010297 0.082386 2.9905E-05 2.9192 0.0010596 362.9868146376357 46.218 1.3604 46.869 45.983 47.343 0.65119 -0.16009 0.00027937 NaN 0.69767 110 52 3 NaN NaN NaN NaN 0 NaN NaN 0 2987900 + 14271 12908 9151 9172 0.21245574450313143 KQKSIVRS 8 Unmodified _KQKSIVRS_ 0 0 0 nc|ENSG00000135905|Q96BY6-3|DOCK10;ENSG00000135905|ENST00000258390|DOCK10 nc|ENSG00000135905|Q96BY6-3|DOCK10 nc|ENSG00000135905|Q96BY6-3|DOCK10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.953857421875 2 473.295633 944.576714 2.6454 0.0012521 0.47607 0.00022532 3.1215 0.0014774 473.29601097149435 57.011 0.048222 57.789 57.773 57.822 0.77786 5 3 2 0 0 0 0.65679 1 26074 26074 12.532 8.2023 1 668950 14272 2906 9152 9173 16402 16402 0.1022086891704248 KQKVTNSDYVD 11 Unmodified _KQKVTNSDYVD_ 0 0 0 REV__ENST00000556425.2_1_15:21937379-21938108:-|nuORF REV__ENST00000556425.2_1_15:21937379-21938108:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 432.88604736328125 3 432.885858 1295.63574 NaN NaN NaN NaN NaN NaN NaN 74.98 1 75.238 74.738 75.738 0.25831 0 0 0 1.0075 1 34491 34491 1.0136 0.23704 1 + 14273 17326 9153 9174 16403 16403 -0.00024744369966356317 KQKVTNSDYVD 11 Unmodified _KQKVTNSDYVD_ 0 0 0 REV__ENST00000556425.2_1_15:21937379-21938108:-|nuORF REV__ENST00000556425.2_1_15:21937379-21938108:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 432.8861083984375 3 432.885858 1295.63574 NaN NaN NaN NaN NaN NaN NaN 71.872 1 72.535 72.035 73.035 0.66324 0 0 0 1.0075 1 32942 32942 1.0136 0.23704 1 + 14274 17326 9153 9174 16404 16404 -0.00024744369966356317 KQKWLDAI 8 Unmodified _KQKWLDAI_ 0 0 0 nc|ENSG00000124126|Q8TCU6-3|PREX1;ENSG00000124126|ENST00000371941|PREX1 nc|ENSG00000124126|Q8TCU6-3|PREX1 nc|ENSG00000124126|Q8TCU6-3|PREX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.531494140625 3 334.530798 1000.57057 2.2118 0.00073991 -0.38902 -0.00013014 1.8228 0.00060977 334.5306199893289 46.635 0.23378 47.464 47.412 47.646 0.82915 31 17 2 0 0 0 0.42655 1 21273 21273 20.454 9.6297 1 1703300 14275 2337 9154 9175 16405 16405 0.07030350685499798 KQKYQEVL 8 Unmodified _KQKYQEVL_ 0 0 0 REV__nc|ENSG00000106344|Q9NW13-2|RBM28 REV__nc|ENSG00000106344|Q9NW13-2|RBM28 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.7627563476562 2 518.295299 1034.57605 3.2834 0.0017018 -0.7176 -0.00037193 2.5658 0.0013298 518.2951708511722 50.559 0.21088 51.376 51.239 51.45 0.81738 19 9 3 0 0 0 0.13348 1 23032 23032 15.847 3.6065 1 1069000 + 14276 11078 9155 9176 16406 16406 0.060140294773418645 KQLKVLIKKAP 11 Unmodified _KQLKVLIKKAP_ 0 0 0 REV__ENSG00000183273|ENST00000327554|CCDC60 REV__ENSG00000183273|ENST00000327554|CCDC60 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1265.8739013671875 1 1265.86675 1264.85948 3.3995 0.0043033 2.6718 0.0033821 6.0713 0.0076855 1265.8705622897965 43.238 0.026691 44.052 44.037 44.064 0.81444 6 4 2 0 0 0 0.9102 1 19686 19686 1.4819 1.1313 1 6765500 + 14277 13926 9156 9177 16407 16407 0.2376424059279998 KQLLKRQR 8 Unmodified _KQLLKRQR_ 0 0 0 REV__ENSG00000095564|ENST00000265990|BTAF1 REV__ENSG00000095564|ENST00000265990|BTAF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 357.2362976074219 3 357.236608 1068.688 NaN NaN NaN NaN NaN NaN NaN 73.464 1 74.163 73.663 74.663 0.69881 0 0 0 0.99035 1 35433 35433 0.40072 0 1 + 14278 10765 9157 9178 16408 16408 0.1563992834499004 KQLLYLMKKK 10 Unmodified _KQLLYLMKKK_ 0 0 0 REV__ENST00000501704.3_1_13:45148883-45148931:-|nuORF REV__ENST00000501704.3_1_13:45148883-45148931:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 646.9126586914062 2 646.909776 1291.805 NaN NaN NaN NaN NaN NaN NaN 52.728 1 52.991 52.491 53.491 0.26345 0 0 0 1.0019 1 24105 24105 0.40072 0.050084 1 + 14279 16882 9158 9179 16409 16409 0.17076905449698643 KQLRKQKKIL 10 Unmodified _KQLRKQKKIL_ 0 0 0 REV__ENST00000409788.7_1_2:231624786-231655623:+|nuORF REV__ENST00000409788.7_1_2:231624786-231655623:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 642.0758056640625 2 641.937714 1281.86087 NaN NaN NaN NaN NaN NaN NaN 74.809 1 75.495 74.995 75.995 0.68662 0 0 0 0.99774 1 36166 36166 3.5965 0.60125 1 + 14280 16102 9159 9180 16410 16410 0.2312187468155571 KQLVLWRLRP 10 Unmodified _KQLVLWRLRP_ 0 0 0 ENST00000216468.7_1_14:77812735-77812792:-|nuORF ENST00000216468.7_1_14:77812735-77812792:-|nuORF ENST00000216468.7_1_14:77812735-77812792:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.20391845703125 4 327.962029 1307.81901 2.5567 0.00083851 2.6624 0.00087317 5.2191 0.0017117 328.21291870347056 48.187 0.30771 48.449 48.289 48.597 0.26209 23 12 4 0 0 0 0.90216 1 22059 22059 3.5871 1.6807 1 1313500 14281 6407 9160 9181 16411 16411 0.177413189930121 KQNKNKTKNIK 11 Unmodified _KQNKNKTKNIK_ 0 0 0 ENST00000226319.10_1_4:129795591-129795780:+|nuORF ENST00000226319.10_1_4:129795591-129795780:+|nuORF ENST00000226319.10_1_4:129795591-129795780:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 672.4127807617188 2 672.409518 1342.80448 4.4057 0.0029624 -0.8687 -0.00058412 3.537 0.0023783 672.4087051503507 93.816 0.67179 94.071 93.791 94.463 0.25497 66 31 3 0 0 0 0.91359 1 43054 43054 0.26902 0 1 1032900 14282 6428 9161 9182 16412 16412 0.14679202054207963 KQPEDYFYL 9 Unmodified _KQPEDYFYL_ 0 0 0 nc|ENSG00000099331|Q13459-2|MYO9B;ENSG00000099331|ENST00000682292|MYO9B nc|ENSG00000099331|Q13459-2|MYO9B nc|ENSG00000099331|Q13459-2|MYO9B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 601.7918701171875 2 601.790047 1201.56554 NaN NaN NaN NaN NaN NaN NaN 65.176 1 65.424 64.924 65.924 0.24803 0 0 0 0.099253 1 29859 29859 41.84 13.353 1 14283 1139 9162 9183 16413 16413 -0.02717997967761221 KQPEDYFYL 9 Unmodified _KQPEDYFYL_ 0 0 0 nc|ENSG00000099331|Q13459-2|MYO9B;ENSG00000099331|ENST00000682292|MYO9B nc|ENSG00000099331|Q13459-2|MYO9B nc|ENSG00000099331|Q13459-2|MYO9B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 602.2920532226562 2 601.790047 1201.56554 3.9795 0.0023948 -1.1672 -0.0007024 2.8123 0.0016924 601.7895502417982 64.605 0.22804 65.261 65.145 65.373 0.65672 12 7 2 0 0 0 0.063575 1 29643 29643 41.84 13.353 1 589880 14284 1139 9162 9183 16414 16414 -0.02717997967761221 KQPEEYHYL 9 Unmodified _KQPEEYHYL_ 0 0 0 ENST00000563542.5_1_15:72185266-72338904:-|nuORF;nc|ENSG00000066933|B2RTY4-5|MYO9A;nc|ENSG00000066933|B2RTY4-2|MYO9A;ENSG00000066933|ENST00000356056|MYO9A;nc|ENSG00000066933|B2RTY4-4|MYO9A;nc|ENSG00000066933|B2RTY4-3|MYO9A ENST00000563542.5_1_15:72185266-72338904:-|nuORF ENST00000563542.5_1_15:72185266-72338904:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 402.8654479980469 3 402.864506 1205.57169 2.7313 0.0011004 -0.12596 -5.0743E-05 2.6054 0.0010496 402.8644884069861 27.27 0.20381 28.048 27.91 28.114 0.7787 25 15 2 0 0 0 0.3144 1 12271 12271 10.8 8.8931 1 279700 14285 716 9163 9184 16415 16415 -0.022874797362419486 KQPEEYHYL 9 Unmodified _KQPEEYHYL_ 0 0 0 ENST00000563542.5_1_15:72185266-72338904:-|nuORF;nc|ENSG00000066933|B2RTY4-5|MYO9A;nc|ENSG00000066933|B2RTY4-2|MYO9A;ENSG00000066933|ENST00000356056|MYO9A;nc|ENSG00000066933|B2RTY4-4|MYO9A;nc|ENSG00000066933|B2RTY4-3|MYO9A ENST00000563542.5_1_15:72185266-72338904:-|nuORF ENST00000563542.5_1_15:72185266-72338904:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 603.79541015625 2 603.793121 1205.57169 NaN NaN NaN NaN NaN NaN NaN 27.29 1 28.077 27.577 28.577 0.78627 0 0 0 0.75166 1 12267 12267 10.824 1.4408 1 14286 716 9163 9184 16416 16416 -0.022874797362419486 KQPEEYHYL 9 Unmodified _KQPEEYHYL_ 0 0 0 ENST00000563542.5_1_15:72185266-72338904:-|nuORF;nc|ENSG00000066933|B2RTY4-5|MYO9A;nc|ENSG00000066933|B2RTY4-2|MYO9A;ENSG00000066933|ENST00000356056|MYO9A;nc|ENSG00000066933|B2RTY4-4|MYO9A;nc|ENSG00000066933|B2RTY4-3|MYO9A ENST00000563542.5_1_15:72185266-72338904:-|nuORF ENST00000563542.5_1_15:72185266-72338904:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 402.864506 1205.57169 2.9384 0.0011838 -0.052644 -2.1209E-05 2.8857 0.0011626 403.1986116378001 28.312 0.08325 28.312 28.241 28.324 0 0.13197 7.1154E-05 NaN 10.8 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 347970 14287 716 9163 9184 -0.022874797362419486 KQQANKAL 8 Unmodified _KQQANKAL_ 0 0 0 REV__nc|ENSG00000100991|Q8TEL6-2|TRPC4AP REV__nc|ENSG00000100991|Q8TEL6-2|TRPC4AP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.7683410644531 2 450.766709 899.518865 NaN NaN NaN NaN NaN NaN NaN 17.869 1 18.171 17.671 18.671 0.30158 0 0 0 0.94507 1 8094 8094 9.3474 0 1 + 14288 10859 9164 9185 16417 16417 0.06508606991610577 KQRAWRRRLRR 11 Unmodified _KQRAWRRRLRR_ 0 0 0 REV__ENST00000378616.3_1_X:37553591-37553678:+|nuORF REV__ENST00000378616.3_1_X:37553591-37553678:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.521240234375 3 527.997697 1580.97126 NaN NaN NaN NaN NaN NaN NaN 62.734 1 62.734 62.234 63.234 0 0 0 0 1.0079 1 29421 29421 0.50596 0.051438 1 + 14289 15853 9165 9186 16418 16418 0.2040153251311949 KQRAWRRRLRR 11 Unmodified _KQRAWRRRLRR_ 0 0 0 REV__ENST00000378616.3_1_X:37553591-37553678:+|nuORF REV__ENST00000378616.3_1_X:37553591-37553678:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.9564819335938 3 527.997697 1580.97126 NaN NaN NaN NaN NaN NaN NaN 65.922 1 66.63 66.13 67.13 0.70891 0 0 0 1.0082 1 31215 31215 0.094841 0.011491 1 + 14290 15853 9165 9186 16419 16419 0.2040153251311949 KQRFNWRRRDW 11 Unmodified _KQRFNWRRRDW_ 0 0 0 REV__ENST00000448841.5_1_10:104575113-104575296:+|nuORF REV__ENST00000448841.5_1_10:104575113-104575296:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 824.8285522460938 2 824.440006 1646.86546 4.7148 0.0038871 3.4955 0.0028818 8.2103 0.0067689 824.9458350251481 100.07 0.063614 100.38 100.34 100.4 0.30835 4 2 2 0 0 0 0.13295 1 46266 46266 0 0 1 2467100 + 14291 16397 9166 9187 16420 16420 0.06790151876998607 KQRHQRRKNRF 11 Unmodified _KQRHQRRKNRF_ 0 0 0 REV__ENST00000429642.1_3_10:1094364-1094499:-|nuORF REV__ENST00000429642.1_3_10:1094364-1094499:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.6380615234375 3 518.638057 1552.89234 NaN NaN NaN NaN NaN NaN NaN 30.915 1 30.915 30.415 31.415 0 0 0 0 1.0082 1 13975 13975 0.094841 0.094841 1 + 14292 16243 9167 9188 16421 16421 0.13801260488207845 KQRKKLHDRLR 11 Unmodified _KQRKKLHDRLR_ 0 0 0 nc|ENSG00000157168|Q02297-11|NRG1;nc|ENSG00000157168|Q02297-7|NRG1;ENSG00000157168|ENST00000405005|NRG1;nc|ENSG00000157168|Q02297-6|NRG1;nc|ENSG00000157168|Q02297-2|NRG1;nc|ENSG00000157168|Q02297-12|NRG1;nc|ENSG00000157168|Q02297-3|NRG1 nc|ENSG00000157168|Q02297-11|NRG1 nc|ENSG00000157168|Q02297-11|NRG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 739.4656372070312 2 739.46295 1476.91135 NaN NaN NaN NaN NaN NaN NaN 49.171 1 49.171 48.671 49.671 0 0 0 0 1.008 1 22520 22520 1.0715 0.72083 1 14293 3941 9168 9189 16422 16422 0.19196797059248638 KQRLENRFYRR 11 Unmodified _KQRLENRFYRR_ 0 0 0 ENSG00000146247|ENST00000275034|PHIP ENSG00000146247|ENST00000275034|PHIP ENSG00000146247|ENST00000275034|PHIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 783.38818359375 2 783.442215 1564.86988 NaN NaN NaN NaN NaN NaN NaN 92.748 1 92.834 92.334 93.334 0.086212 0 0 0 1.008 1 48426 48426 0.30703 0.03801 1 14294 3508 9169 9190 16423 16423 0.11003616299922214 KQRLKISL 8 Unmodified _KQRLKISL_ 0 0 0 ENSG00000148773|ENST00000368654|MKI67;nc|ENSG00000148773|P46013-2|MKI67 ENSG00000148773|ENST00000368654|MKI67 ENSG00000148773|ENST00000368654|MKI67 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 329.2229309082031 3 329.222076 984.6444 NaN NaN NaN NaN NaN NaN NaN 12.588 1 13.23 12.73 13.73 0.64272 0 0 0 0.69067 1 5650 5650 22.736 3.4793 1 14295 3615 9170 9191 16424 16424 0.15146318847837392 KQRPKKRTKKT 11 Unmodified _KQRPKKRTKKT_ 0 0 0 REV__ENST00000498589.1_3_22:22008447-22015259:+|nuORF REV__ENST00000498589.1_3_22:22008447-22015259:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.97161865234375 3 466.972043 1397.8943 NaN NaN NaN NaN NaN NaN NaN 74.665 1 74.665 74.165 75.165 0 0 0 0 1.0072 1 36498 36498 1.3296 0 1 + 14296 16871 9171 9192 16425 16425 0.21126876453422483 KQRQWKRKRR 10 Unmodified _KQRQWKRKRR_ 0 0 0 REV__ENST00000418635.6_1_6:35378793-35391776:+|nuORF REV__ENST00000418635.6_1_6:35378793-35391776:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 735.4636840820312 2 735.455459 1468.89637 NaN NaN NaN NaN NaN NaN NaN 85.101 1 85.101 84.601 85.601 0 0 0 0 1.0015 1 43236 43236 0.40072 0 1 + 14297 15615 9172 9193 16426 16426 0.18067349981879488 KQRRRKKRKLL 11 Unmodified _KQRRRKKRKLL_ 0 0 0 REV__ENSG00000085185|ENST00000540052|BCORL1 REV__ENSG00000085185|ENST00000540052|BCORL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.0143127441406 3 504.014465 1509.02157 NaN NaN NaN NaN NaN NaN NaN 59.812 1 59.812 59.312 60.312 0 0 0 0 1.0082 1 27664 27664 0.08335 0.08335 1 + 14298 10640 9173 9194 16427 16427 0.2874164211830248 KQRRRKKRKLL 11 Unmodified _KQRRRKKRKLL_ 0 0 0 REV__ENSG00000085185|ENST00000540052|BCORL1 REV__ENSG00000085185|ENST00000540052|BCORL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 755.2466430664062 2 755.51806 1509.02157 NaN NaN NaN NaN NaN NaN NaN 100.46 1 100.52 100.02 101.02 0.059723 0 0 0 1.0082 1 54506 54506 0 0 1 + 14299 10640 9173 9194 16428 16428 0.2874164211830248 KQSKRSPL 8 Unmodified _KQSKRSPL_ 0 0 0 ENST00000530753.1_1_1:32852471-32859760:-|nuORF;ENST00000341071.11_1_1:32852471-32860026:-|nuORF ENST00000530753.1_1_1:32852471-32859760:-|nuORF ENST00000530753.1_1_1:32852471-32859760:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.28924560546875 2 472.287808 942.561064 2.4361 0.0011505 0.83572 0.0003947 3.2718 0.0015452 472.2882226959301 91.602 0.3425 91.602 91.44 91.783 0 121 48 3 0 0 0 0.7471 2 48416 48416;48492 1.8442 0 1 34244000 14300 7070 9174 9195 16429;16430 16429 0.08748582400005489 KQSKRSPL 8 Unmodified _KQSKRSPL_ 0 0 0 ENST00000530753.1_1_1:32852471-32859760:-|nuORF;ENST00000341071.11_1_1:32852471-32860026:-|nuORF ENST00000530753.1_1_1:32852471-32859760:-|nuORF ENST00000530753.1_1_1:32852471-32859760:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.28900146484375 2 472.287808 942.561064 1.8837 0.00088965 0.65271 0.00030827 2.5364 0.0011979 472.288095146516 91.099 0.35159 91.174 91.016 91.367 0.075279 123 51 3 0 0 0 0.7471 1 47117 47117 1.8442 0 1 33726000 14301 7070 9174 9195 16431 16431 0.08748582400005489 KQTAKHWTD 9 Unmodified _KQTAKHWTD_ 0 0 0 REV__nc|ENSG00000125844|Q9P2E9-3|RRBP1 REV__nc|ENSG00000125844|Q9P2E9-3|RRBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.7832641601562 2 557.78563 1113.55671 NaN NaN NaN NaN NaN NaN NaN 98.911 1 98.977 98.477 99.477 0.066025 0 0 0 0.65681 1 53318 53318 13.906 1.6654 1 + 14302 11697 9175 9196 16432 16432 0.004470731864330446 KQTRPPKE 8 Unmodified _KQTRPPKE_ 0 0 0 REV__SIRT1|p.D663Rfs*2|1|0.42|ENSG00000096717|chr10:67916333-67916334|-/A|frameshift_variant REV__SIRT1|p.D663Rfs*2|1|0.42|ENSG00000096717|chr10:67916333-67916334|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.5267333984375 3 328.525936 982.555979 1.613 0.00052991 0.3855 0.00012665 1.9985 0.00065656 328.52612930775007 12.461 0.060402 12.769 12.733 12.794 0.30727 6 2 3 0 0 0 0.57648 1 5624 5624 12.241 0 1 3791200 + 14303 10776 9176 9197 16433 16433 0.06400278537364557 KQTVKQFFII 10 Unmodified _KQTVKQFFII_ 0 0 0 REV__ENSG00000178996|ENST00000381410|SNX18 REV__ENSG00000178996|ENST00000381410|SNX18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 417.92156982421875 3 417.920174 1250.73869 2.9772 0.0012442 1.0527 0.00043994 4.0299 0.0016842 417.9205257310393 39.787 0.51462 40.054 39.684 40.199 0.26696 66 18 4 0 0 0 0.93726 1 17995 17995 1.4551 1.4551 1 4041300 + 14304 13777 9177 9198 16434 16434 0.12335412879338037 KQTVKQFFII 10 Unmodified _KQTVKQFFII_ 0 0 0 REV__ENSG00000178996|ENST00000381410|SNX18 REV__ENSG00000178996|ENST00000381410|SNX18 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 417.920174 1250.73869 2.8178 0.0011776 1.3084 0.00054681 4.1262 0.0017244 417.92061892946106 40.237 0.51791 40.237 39.823 40.341 0 0.16613 7.0608E-05 NaN 1.4551 63 19 4 NaN NaN NaN NaN 0 NaN NaN 0 4342600 + 14305 13777 9177 9198 0.12335412879338037 KQTVKQFFII 10 Unmodified _KQTVKQFFII_ 0 0 0 REV__ENSG00000178996|ENST00000381410|SNX18 REV__ENSG00000178996|ENST00000381410|SNX18 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 417.920174 1250.73869 2.729 0.0011405 1.2435 0.00051966 3.9725 0.0016602 417.9205622017137 39.135 0.59007 39.932 39.534 40.124 0.79762 -0.13816 -1.0843E-05 NaN 1.4551 92 28 4 NaN NaN NaN NaN 0 NaN NaN 0 2132700 + 14306 13777 9177 9198 0.12335412879338037 KQTVKQFFII 10 Unmodified _KQTVKQFFII_ 0 0 0 REV__ENSG00000178996|ENST00000381410|SNX18 REV__ENSG00000178996|ENST00000381410|SNX18 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 417.920174 1250.73869 2.9772 0.0012442 1.0527 0.00043994 4.0299 0.0016842 417.9205257310393 39.787 0.51462 40.054 39.684 40.199 0.26696 -0.016968 -0.00025001 NaN 1.4551 66 18 4 NaN NaN NaN NaN 0 NaN NaN 0 4041300 + 14307 13777 9177 9198 0.12335412879338037 KQTVKQFFII 10 Unmodified _KQTVKQFFII_ 0 0 0 REV__ENSG00000178996|ENST00000381410|SNX18 REV__ENSG00000178996|ENST00000381410|SNX18 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 417.920174 1250.73869 3.1086 0.0012991 1.4206 0.00059368 4.5291 0.0018928 417.9206633783838 39.422 0.41573 40.06 39.759 40.174 0.63778 -0.011 0.0002112 NaN 1.4551 48 15 4 NaN NaN NaN NaN 0 NaN NaN 0 3960200 + 14308 13777 9177 9198 0.12335412879338037 KQVKIIKKPPG 11 Unmodified _KQVKIIKKPPG_ 0 0 0 REV__nc|ENSG00000198000|Q76FK4-2|NOL8 REV__nc|ENSG00000198000|Q76FK4-2|NOL8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 618.4155883789062 2 618.41354 1234.81253 NaN NaN NaN NaN NaN NaN NaN 72.32 1 73.024 72.524 73.524 0.70386 0 0 0 1.0057 1 34805 34805 3.2813 1.7994 1 + 14309 14312 9178 9199 16435 16435 0.20451381041652894 KQWKEKKKKKK 11 Unmodified _KQWKEKKKKKK_ 0 0 0 ENSG00000017797|ENST00000383432|RALBP1 ENSG00000017797|ENST00000383432|RALBP1 ENSG00000017797|ENST00000383432|RALBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 743.9823608398438 2 743.982653 1485.95075 NaN NaN NaN NaN NaN NaN NaN 90.491 1 90.742 90.242 91.242 0.25137 0 0 0 1.0082 1 41613 41613 0 0 1 14310 443 9179 9200 16436 16436 0.22721504290075245 KRAEKEFI 8 Unmodified _KRAEKEFI_ 0 0 0 REV__CON__P21578 REV__CON__P21578 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 340.86614990234375 3 340.86607 1019.57638 1.956 0.00066675 0.29908 0.00010195 2.2551 0.0007687 340.8662117337072 13.262 0.34163 13.569 13.388 13.729 0.30727 74 23 4 0 0 0 0.56084 1 5950 5950 24.021 5.8742 1 2872700 + + 14311 10081 9180 9201 16437 16437 0.06737449197191836 KRAEYNCTVVL 11 Unmodified _KRAEYNCTVVL_ 0 0 0 REV__POLI|p.G322Dfs*33|1|0.28|ENSG00000101751|chr18:54283004-54283004|G/-|frameshift_variant REV__POLI|p.G322Dfs*33|1|0.28|ENSG00000101751|chr18:54283004-54283004|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 648.3466796875 2 648.342455 1294.67036 NaN NaN NaN NaN NaN NaN NaN 65.489 1 66.146 65.646 66.646 0.65672 0 0 0 1.0044 1 30023 30023 4.897 1.3005 1 + 14312 18202 9181 9202 16438 16438 0.03480800237116455 KRALMEQL 8 Unmodified _KRALMEQL_ 0 0 0 REV__nc|ENSG00000160145|O60229-2|KALRN REV__nc|ENSG00000160145|O60229-2|KALRN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.19281005859375 3 330.191788 987.553536 2.1771 0.00071888 0.023609 7.7955E-06 2.2008 0.00072667 330.1918225679332 27.697 0.42436 28.316 28.069 28.494 0.61947 50 28 3 0 0 0 0.58952 1 12712 12712 14.838 2.5976 1 1520500 + 14313 17997 9182 9203 16439 16439 0.05926106808044551 KRASVFVKL 9 Unmodified _KRASVFVKL_ 0 0 0 nc|ENSG00000212789|Q8NFI4|ST13P5;ENST00000495652.1_1_22:41231562-41231847:-|nuORF;ENST00000456632.1_1_X:92543289-92543514:-|nuORF;nc|ENSG00000232150|Q8IZP2|ST13P4;ENSG00000100380|ENST00000216218|ST13 nc|ENSG00000212789|Q8NFI4|ST13P5;ENSG00000100380|ENST00000216218|ST13 nc|ENSG00000212789|Q8NFI4|ST13P5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 349.8949890136719 3 349.89396 1046.66005 NaN NaN NaN NaN NaN NaN NaN 27.568 1 27.831 27.331 28.331 0.26245 0 0 0 0.17674 1 12535 12535 32.037 12.78 1 14314 9827;1213 9183 9204 16440 16440 0.13858605364907817 KRASVFVKL 9 Unmodified _KRASVFVKL_ 0 0 0 nc|ENSG00000212789|Q8NFI4|ST13P5;ENST00000495652.1_1_22:41231562-41231847:-|nuORF;ENST00000456632.1_1_X:92543289-92543514:-|nuORF;nc|ENSG00000232150|Q8IZP2|ST13P4;ENSG00000100380|ENST00000216218|ST13 nc|ENSG00000212789|Q8NFI4|ST13P5;ENSG00000100380|ENST00000216218|ST13 nc|ENSG00000212789|Q8NFI4|ST13P5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 349.8952331542969 3 349.89396 1046.66005 2.3304 0.00081539 0.47066 0.00016468 2.801 0.00098007 349.89408099261203 27.161 0.2013 27.782 27.69 27.892 0.62179 17 10 2 0 0 0 0.076469 1 12460 12460 38.615 17.025 1 377850 14315 9827;1213 9183 9204 16441 16441 0.13858605364907817 KREKLGVQVRP 11 Unmodified _KREKLGVQVRP_ 0 0 0 ENSG00000159433|ENST00000290607|STARD9 ENSG00000159433|ENST00000290607|STARD9 ENSG00000159433|ENST00000290607|STARD9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 436.9413757324219 3 437.273611 1308.799 NaN NaN NaN NaN NaN NaN NaN 56.75 1 57.014 56.514 57.514 0.26444 0 0 0 1.0051 1 25965 25965 4.1166 1.2733 1 14316 4024 9184 9205 16442 16442 0.15695523262388633 KRELGVRRPG 10 Unmodified _KRELGVRRPG_ 0 0 0 ENSG00000141002|ENST00000263346|TCF25;ENST00000563032.1_1_16:89940075-89941239:+|nuORF;ENST00000561585.1_1_16:89940075-89949929:+|nuORF ENSG00000141002|ENST00000263346|TCF25 ENSG00000141002|ENST00000263346|TCF25 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.3594360351562 2 584.357088 1166.69962 3.5428 0.0020703 -0.65702 -0.00038394 2.8858 0.0016864 584.3565834047538 85.728 0.64976 85.976 85.416 86.066 0.24857 47 33 2 0 0 0 0.93855 1 39226 39226 1.1933 0.66858 1 868700 14317 3229 9185 9206 16443 16443 0.122941253683166 KREPPRQRGRG 11 Unmodified _KREPPRQRGRG_ 0 0 0 ENST00000229416.10_1_6:53409297-53409843:-|nuORF ENST00000229416.10_1_6:53409297-53409843:-|nuORF ENST00000229416.10_1_6:53409297-53409843:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 446.2602233886719 3 446.260476 1335.7596 NaN NaN NaN NaN NaN NaN NaN 68.739 1 68.739 68.239 69.239 0 0 0 0 1.0044 1 33114 33114 2.2527 0.51045 1 14318 6440 9186 9207 16444 16444 0.10514816031536611 KREQKLTEL 9 Unmodified _KREQKLTEL_ 0 0 0 REV__ENST00000599227.5_2_19:58772663-58772768:+|nuORF REV__ENST00000599227.5_2_19:58772663-58772768:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 382.228515625 3 382.227667 1143.66117 1.9758 0.00075522 -0.081672 -3.1217E-05 1.8942 0.00072401 382.2276851603424 12.438 0.042667 12.7 12.664 12.707 0.26154 5 3 2 0 0 0 0.048715 1 5383 5383 47.732 3.3401 1 5426900 + 14319 17627 9187 9208 16445 16445 0.09508774943151366 KRERVRLWKRL 11 Unmodified _KRERVRLWKRL_ 0 0 0 REV__ENSG00000023171|ENST00000635736|GRAMD1B REV__ENSG00000023171|ENST00000635736|GRAMD1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.0485229492188 3 513.995071 1538.96338 NaN NaN NaN NaN NaN NaN NaN 63.941 1 63.941 63.441 64.441 0 0 0 0 1.0082 1 30171 30171 0.073264 0.073264 1 + 14320 10269 9188 9209 16446 16446 0.21545960473008563 KRERYRRERDE 11 Unmodified _KRERYRRERDE_ 0 0 0 REV__ENSG00000126870|ENST00000407559|DYNC2I1 REV__ENSG00000126870|ENST00000407559|DYNC2I1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 796.9239501953125 2 796.921843 1591.82913 NaN NaN NaN NaN NaN NaN NaN 57.568 1 58.337 57.837 58.837 0.76861 0 0 0 1.0079 1 26370 26370 0.30703 0 1 + 14321 11725 9189 9210 16447 16447 0.05689230189614136 KREWERYREKE 11 Unmodified _KREWERYREKE_ 0 0 0 REV__ENSG00000122257|ENST00000319715|RBBP6 REV__ENSG00000122257|ENST00000319715|RBBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 804.9156494140625 2 804.915695 1607.81684 NaN NaN NaN NaN NaN NaN NaN 32.53 1 33.148 32.648 33.648 0.61831 0 0 0 1.0082 1 14916 14916 0 0 1 + 14322 11580 9190 9211 16448 16448 0.03724193726566227 KRFGKAYNL 9 Unmodified _KRFGKAYNL_ 0 0 0 DDX42|p.I464Mfs*8|1|0.28|ENSG00000198231|chr17:63811166-63811166|T/-|frameshift_variant;nc|ENSG00000198231|Q86XP3-2|DDX42;ENSG00000198231|ENST00000389924|DDX42 DDX42|p.I464Mfs*8|1|0.28|ENSG00000198231|chr17:63811166-63811166|T/-|frameshift_variant DDX42|p.I464Mfs*8|1|0.28|ENSG00000198231|chr17:63811166-63811166|T/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.56103515625 3 366.213581 1095.61891 2.4157 0.00088465 -0.59591 -0.00021823 1.8198 0.00066642 366.21302103142193 14.365 0.11756 14.671 14.593 14.711 0.3069 6 4 2 0 0 0 0.095169 1 6491 6491 16.149 0 1 520330 14323 261 9191 9212 16449 16449 0.07492844325406622 KRFGKAYNL 9 Unmodified _KRFGKAYNL_ 0 0 0 DDX42|p.I464Mfs*8|1|0.28|ENSG00000198231|chr17:63811166-63811166|T/-|frameshift_variant;nc|ENSG00000198231|Q86XP3-2|DDX42;ENSG00000198231|ENST00000389924|DDX42 DDX42|p.I464Mfs*8|1|0.28|ENSG00000198231|chr17:63811166-63811166|T/-|frameshift_variant DDX42|p.I464Mfs*8|1|0.28|ENSG00000198231|chr17:63811166-63811166|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.21429443359375 3 366.213581 1095.61891 2.6735 0.00097906 -0.15607 -5.7154E-05 2.5174 0.00092191 366.2135833593908 14.357 0.1002 15.005 14.955 15.055 0.6482 11 8 2 0 0 0 0.15661 1 6476 6476 26.268 18.113 1 776140 14324 261 9191 9212 16450 16450 0.07492844325406622 KRFLLLWI 8 Unmodified _KRFLLLWI_ 0 0 0 REV__ENST00000515330.5_1_4:113345070-113346839:+|nuORF REV__ENST00000515330.5_1_4:113345070-113346839:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.851318359375 2 544.852587 1087.69062 NaN NaN NaN NaN NaN NaN NaN 82.629 1 82.876 82.376 83.376 0.24722 0 0 0 0.99035 1 38034 38034 0.79363 0.10326 1 + 14325 17017 9192 9213 16451 16451 0.1502838374995008 KRFLLWLRRQS 11 Unmodified _KRFLLWLRRQS_ 0 0 0 REV__ENST00000472216.2_1_2:169741394-169769722:-|nuORF REV__ENST00000472216.2_1_2:169741394-169769722:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 751.9597778320312 2 751.956969 1501.89939 NaN NaN NaN NaN NaN NaN NaN 73.204 1 73.462 72.962 73.962 0.25876 0 0 0 1.0082 1 33617 33617 0.30703 0.30703 1 + 14326 16615 9193 9214 16452 16452 0.16851180316075443 KRFSFRSFIWR 11 Unmodified _KRFSFRSFIWR_ 0 0 0 nc|ENSG00000172046|O94966-4|USP19;nc|ENSG00000172046|O94966-3|USP19;nc|ENSG00000172046|O94966|USP19;nc|ENSG00000172046|O94966-7|USP19;ENSG00000172046|ENST00000417901|USP19;nc|ENSG00000172046|O94966-5|USP19 nc|ENSG00000172046|O94966-4|USP19 nc|ENSG00000172046|O94966-4|USP19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.62109375 3 510.621122 1528.84154 NaN NaN NaN NaN NaN NaN NaN 86.722 1 86.752 86.252 87.252 0.030289 0 0 0 1.0074 1 43713 43713 1.1098 0.6038 1 14327 4853 9194 9215 16453 16453 0.09826918390649553 KRFTWRRRLIF 11 Unmodified _KRFTWRRRLIF_ 0 0 0 REV__ENST00000313401.3_1_17:30817050-30817605:+|nuORF REV__ENST00000313401.3_1_17:30817050-30817605:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.21807861328125 4 395.492756 1577.94192 2.8611 0.0011315 1.7708 0.00070034 4.6319 0.0018319 395.4931619463226 49.879 0.35094 50.536 50.461 50.812 0.65735 18 12 2 0 0 0 0.13295 1 22825 22825 0.094841 0 1 268830 + 14328 15278 9195 9216 16454 16454 0.17606575444301598 KRGDVIYIL 9 Unmodified _KRGDVIYIL_ 0 0 0 ENSG00000005020|ENST00000345317|SKAP2 ENSG00000005020|ENST00000345317|SKAP2 ENSG00000005020|ENST00000345317|SKAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.8286743164062 2 538.826766 1075.63898 3.303 0.0017797 0.18374 9.9003E-05 3.4867 0.0018787 538.8268071536133 53.017 0.32885 53.017 52.838 53.167 0 53 17 4 0 0 0 0.053453 1 24289 24289 45.7 5.7499 1 3790500 14329 320 9196 9217 16455 16455 0.1041859526535518 KRGDVIYIL 9 Unmodified _KRGDVIYIL_ 0 0 0 ENSG00000005020|ENST00000345317|SKAP2 ENSG00000005020|ENST00000345317|SKAP2 ENSG00000005020|ENST00000345317|SKAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 359.55413818359375 3 359.553603 1075.63898 1.8689 0.00067196 0.3147 0.00011315 2.1836 0.00078511 359.5536246613231 51.872 0.32927 52.682 52.526 52.855 0.81066 58 23 3 0 0 0 0.086415 2 23646 23598;23646 40.239 18.702 1 2157200 14330 320 9196 9217 16456;16457 16457 0.1041859526535518 KRGDVIYIL 9 Unmodified _KRGDVIYIL_ 0 0 0 ENSG00000005020|ENST00000345317|SKAP2 ENSG00000005020|ENST00000345317|SKAP2 ENSG00000005020|ENST00000345317|SKAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.8278198242188 2 538.826766 1075.63898 2.589 0.001395 0.28391 0.00015298 2.8729 0.001548 538.8266654435768 51.915 0.34352 52.726 52.526 52.869 0.81065 59 24 3 0 0 0 0.078225 3 23645 23599;23645;23694 38.176 5.3899 1 2681200 14331 320 9196 9217 16458;16459;16460 16459 0.1041859526535518 KRGDVIYIL 9 Unmodified _KRGDVIYIL_ 0 0 0 ENSG00000005020|ENST00000345317|SKAP2 ENSG00000005020|ENST00000345317|SKAP2 ENSG00000005020|ENST00000345317|SKAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.5545349121094 3 359.553603 1075.63898 2.643 0.00095029 0.46983 0.00016893 3.1128 0.0011192 359.5537198033095 52.617 0.29739 52.881 52.756 53.053 0.26345 25 11 3 0 0 0 0.057744 1 24067 24067 33.445 15.072 1 1918600 14332 320 9196 9217 16461 16461 0.1041859526535518 KRGDVIYIL 9 Unmodified _KRGDVIYIL_ 0 0 0 ENSG00000005020|ENST00000345317|SKAP2 ENSG00000005020|ENST00000345317|SKAP2 ENSG00000005020|ENST00000345317|SKAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.8287963867188 2 538.826766 1075.63898 3.1839 0.0017156 0.61085 0.00032914 3.7947 0.0020447 538.826916312908 52.661 0.34147 52.924 52.756 53.097 0.26345 41 13 4 0 0 0 0.048676 2 24079 24079;24132 47.749 14.963 1 3197100 14333 320 9196 9217 16462;16463 16462 0.1041859526535518 KRGDVIYIL 9 Unmodified _KRGDVIYIL_ 0 0 0 ENSG00000005020|ENST00000345317|SKAP2 ENSG00000005020|ENST00000345317|SKAP2 ENSG00000005020|ENST00000345317|SKAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.5545349121094 3 359.553603 1075.63898 2.3468 0.00084379 0.4144 0.000149 2.7612 0.00099279 359.55370599354006 52.143 0.36537 52.805 52.609 52.975 0.66198 40 15 4 0 0 0 0.086415 1 23831 23831 27.223 15.729 1 1446600 14334 320 9196 9217 16464 16464 0.1041859526535518 KRGDVIYIL 9 Unmodified _KRGDVIYIL_ 0 0 0 ENSG00000005020|ENST00000345317|SKAP2 ENSG00000005020|ENST00000345317|SKAP2 ENSG00000005020|ENST00000345317|SKAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.8284912109375 2 538.826766 1075.63898 3.1305 0.0016868 0.2568 0.00013837 3.3873 0.0018252 538.8268502461567 52.147 0.37729 52.809 52.609 52.987 0.66198 39 16 3 0 0 0 0.053453 2 23848 23848;23893 45.7 12.914 1 2251900 14335 320 9196 9217 16465;16466 16465 0.1041859526535518 KRHQLRNKYK 10 Unmodified _KRHQLRNKYK_ 0 0 0 ENST00000367012.3_1_1:210419174-210419273:+|nuORF;ENST00000483884.1_1_1:210411323-210419944:+|nuORF;ENST00000482421.1_1_1:210411290-210419944:+|nuORF ENST00000367012.3_1_1:210419174-210419273:+|nuORF ENST00000367012.3_1_1:210419174-210419273:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.9111938476562 2 685.910019 1369.80549 4.1545 0.0028496 -1.678 -0.001151 2.4765 0.0016987 685.9086674867965 94.938 0.94016 95.555 94.962 95.902 0.61736 106 52 5 0 0 0 0.94246 1 43473 43473 0.40072 0 1 3449400 14336 7245 9197 9218 16467 16467 0.1353746121376389 KRHRKRLKLLL 11 Unmodified _KRHRKRLKLLL_ 0 0 0 REV__ENSG00000090776|ENST00000204961|EFNB1 REV__ENSG00000090776|ENST00000204961|EFNB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 731.0064086914062 2 731.004254 1459.99395 NaN NaN NaN NaN NaN NaN NaN 78.6 1 79.064 78.564 79.564 0.4642 0 0 0 1.0082 1 38235 38235 0 0 1 + 14337 10717 9198 9219 16468 16468 0.2823573885807491 KRHRMVAEPPV 11 Unmodified _KRHRMVAEPPV_ 0 0 0 ENSG00000196172|ENST00000402377|ZNF681 ENSG00000196172|ENST00000402377|ZNF681 ENSG00000196172|ENST00000402377|ZNF681 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 660.3731079101562 2 660.371881 1318.72921 NaN NaN NaN NaN NaN NaN NaN 99.99 1 100.59 100.09 101.09 0.59717 0 0 0 1.0038 1 46268 46268 5.7319 0 1 14338 5724 9199 9220 16469 16469 0.08259321322134383 KRHRSKVS 8 Unmodified _KRHRSKVS_ 0 0 0 REV__ENST00000505282.1_1_4:66959972-66960239:+|nuORF REV__ENST00000505282.1_1_4:66959972-66960239:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 333.2068786621094 3 333.205308 996.594095 NaN NaN NaN NaN NaN NaN NaN 73.411 1 73.67 73.17 74.17 0.25876 0 0 0 0.99035 1 33718 33718 1.4819 0 1 + 14339 16919 9200 9221 16470 16470 0.0956620924271192 KRHTHRKQRRK 11 Unmodified _KRHTHRKQRRK_ 0 0 0 SPIN4|p.L167Pfs*2|1|0.05|ENSG00000186767|chrX:63350319-63350320|CA/-|frameshift_variant;SPIN4|p.L167Pfs*82|1|0.06|ENSG00000186767|chrX:63350320-63350321|-/TGGTG|frameshift_variant;ENSG00000186767|ENST00000374884|SPIN4 SPIN4|p.L167Pfs*2|1|0.05|ENSG00000186767|chrX:63350319-63350320|CA/-|frameshift_variant SPIN4|p.L167Pfs*2|1|0.05|ENSG00000186767|chrX:63350319-63350320|CA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.9821472167969 3 510.981936 1529.92398 NaN NaN NaN NaN NaN NaN NaN 84.016 1 84.045 83.545 84.545 0.028603 0 0 0 1.0074 1 41818 41818 0.36667 0.27183 1 14340 5583 9201 9222 16471 16471 0.1802125324213648 KRHWKRYIYLW 11 Unmodified _KRHWKRYIYLW_ 0 0 0 ENSG00000101343|ENST00000536226|CRNKL1;nc|ENSG00000101343|Q9BZJ0-3|CRNKL1;nc|ENSG00000101343|Q9BZJ0|CRNKL1 ENSG00000101343|ENST00000536226|CRNKL1 ENSG00000101343|ENST00000536226|CRNKL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 824.963623046875 2 824.964794 1647.91504 NaN NaN NaN NaN NaN NaN NaN 82.408 1 82.408 81.908 82.908 0 0 0 0 1.0082 1 41252 41252 0 0 1 14341 1285 9202 9223 16472 16472 0.11699466833124461 KRHWRRFTEWI 11 Unmodified _KRHWRRFTEWI_ 0 0 0 REV__ENST00000416673.6_1_2:114369763-114384446:-|nuORF REV__ENST00000416673.6_1_2:114369763-114384446:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.1082153320312 3 538.963659 1613.86915 NaN NaN NaN NaN NaN NaN NaN 88.581 1 88.581 88.081 89.081 0 0 0 0 1.008 1 46003 46003 0.08335 0.08335 1 + 14342 16135 9203 9224 16473 16473 0.08676821650897182 KRIAIEDPY 9 Unmodified _KRIAIEDPY_ 0 0 0 nc|ENSG00000083223|Q5VYS8-4|TUT7;ENSG00000083223|ENST00000375963|TUT7;nc|ENSG00000083223|Q5VYS8-6|TUT7 nc|ENSG00000083223|Q5VYS8-4|TUT7 nc|ENSG00000083223|Q5VYS8-4|TUT7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.8043212890625 2 552.806031 1103.59751 NaN NaN NaN NaN NaN NaN NaN 85.171 1 85.837 85.337 86.337 0.66566 0 0 0 0.90611 1 39223 39223 2.0598 0.57785 1 14343 937 9204 9225 16474 16474 0.04985414506040797 KRIHRQRRFQK 11 Unmodified _KRIHRQRRFQK_ 0 0 0 ENST00000479859.1_1_2:24199858-24199963:+|nuORF;ENST00000446425.2_1_2:24199858-24205795:+|nuORF ENST00000479859.1_1_2:24199858-24199963:+|nuORF ENST00000479859.1_1_2:24199858-24199963:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 776.974365234375 2 776.974016 1551.93348 NaN NaN NaN NaN NaN NaN NaN 72.788 1 72.788 72.288 73.288 0 0 0 0 1.0082 1 35416 35416 0 0 1 14344 7975 9205 9226 16475 16475 0.17959021527644836 KRIRYRFRR 9 Unmodified _KRIRYRFRR_ 0 0 0 ENSG00000096968|ENST00000381652|JAK2 ENSG00000096968|ENST00000381652|JAK2 ENSG00000096968|ENST00000381652|JAK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 675.9196166992188 2 675.920721 1349.82689 NaN NaN NaN NaN NaN NaN NaN 47.982 1 48.811 48.311 49.311 0.82915 0 0 0 0.91238 1 21859 21859 0.52476 0.12405 1 14345 1131 9206 9227 16476 16476 0.16596891033145766 KRKAARLKF 9 Unmodified _KRKAARLKF_ 0 0 0 nc|ENSG00000120896|O60504-2|SORBS3;ENSG00000120896|ENST00000240123|SORBS3 nc|ENSG00000120896|O60504-2|SORBS3 nc|ENSG00000120896|O60504-2|SORBS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.3723754882812 2 559.369467 1116.72438 NaN NaN NaN NaN NaN NaN NaN 94.712 1 95.33 94.83 95.83 0.61736 0 0 0 0.90611 1 43557 43557 2.0598 0 1 14346 2215 9207 9228 16477 16477 0.1706880524168355 KRKATNKIN 9 Unmodified _KRKATNKIN_ 0 0 0 ENST00000234816.6_1_1:178838281-178840008:-|nuORF ENST00000234816.6_1_1:178838281-178840008:-|nuORF ENST00000234816.6_1_1:178838281-178840008:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 358.2254943847656 3 358.224368 1071.65128 2.4301 0.00087053 1.4092 0.00050479 3.8393 0.0013753 358.2248293947919 67.84 0.16022 68.498 68.439 68.599 0.65777 11 9 2 0 0 0 1.0894 1 31132 31132 2.4985 0 1 396330 14347 6456 9208 9229 16478 16478 0.11831631728432512 KRKATSGKR 9 Unmodified _KRKATSGKR_ 0 0 0 REV__ENST00000485840.1_1_2:113984585-113993007:-|nuORF REV__ENST00000485840.1_1_2:113984585-113993007:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 344.624267578125 3 344.552597 1030.63596 NaN NaN NaN NaN NaN NaN NaN 63.031 1 63.689 63.189 64.189 0.65808 0 0 0 0.90431 1 28883 28883 2.4985 0 1 + 14348 16749 9209 9230 16479 16479 0.1218676493122075 KRKFRRNLIF 10 Unmodified _KRKFRRNLIF_ 0 0 0 REV__ENST00000372398.5_1_9:132995575-132995641:+|nuORF REV__ENST00000372398.5_1_9:132995575-132995641:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 689.4331665039062 2 689.43313 1376.85171 NaN NaN NaN NaN NaN NaN NaN 83.492 1 84.154 83.654 84.654 0.66219 0 0 0 1.0015 1 38456 38456 0.45834 0 1 + 14349 15751 9210 9231 16480 16480 0.17835526115891298 KRKHDDDRRFM 11 Unmodified _KRKHDDDRRFM_ 0 0 0 ENSG00000198455|ENST00000374888|ZXDB;ENSG00000198205|ENST00000358697|ZXDA ENSG00000198455|ENST00000374888|ZXDB ENSG00000198455|ENST00000374888|ZXDB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 752.3866577148438 2 752.383508 1502.75246 NaN NaN NaN NaN NaN NaN NaN 43.998 1 44.819 44.319 45.319 0.82075 0 0 0 1.0073 1 20031 20031 1.1933 0 1 14350 5891 9211 9232 16481 16481 0.021197153687808168 KRKHGKKQ 8 Unmodified _KRKHGKKQ_ 0 0 0 REV__ENSG00000130997|ENST00000511885|POLN REV__ENSG00000130997|ENST00000511885|POLN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 337.2180480957031 3 337.217437 1008.63048 NaN NaN NaN NaN NaN NaN NaN 29.973 1 29.973 29.473 30.473 0 0 0 0 0.99035 1 13537 13537 0.45834 0.18932 1 + 14351 11841 9212 9233 16482 16482 0.12651086139419476 KRKHKRKKNKI 11 Unmodified _KRKHKRKKNKI_ 0 0 0 ENSG00000175931|ENST00000319380|UBE2O ENSG00000175931|ENST00000319380|UBE2O ENSG00000175931|ENST00000319380|UBE2O MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 732.6389770507812 2 732.491511 1462.96847 NaN NaN NaN NaN NaN NaN NaN 98.851 1 99.448 98.948 99.948 0.59748 0 0 0 1.0082 1 45632 45632 0 0 1 14352 5055 9213 9234 16483 16483 0.25550264335652173 KRKHRKRSRSR 11 Unmodified _KRKHRKRSRSR_ 0 0 0 nc|ENSG00000213079|Q9UPN6-2|SCAF8;ENSG00000213079|ENST00000367178|SCAF8 nc|ENSG00000213079|Q9UPN6-2|SCAF8 nc|ENSG00000213079|Q9UPN6-2|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.4887390136719 4 374.488271 1493.92398 2.8502 0.0010674 -0.74978 -0.00028079 2.1004 0.00078658 374.4878673738441 37.359 1.3636 37.359 36.624 37.987 0 193 54 4 0 0 0 0.91111 1 17020 17020 0.40827 0 1 1846700 14353 6082 9214 9235 16484 16484 0.1967725324213916 KRKHRKRSRSR 11 Unmodified _KRKHRKRSRSR_ 0 0 0 nc|ENSG00000213079|Q9UPN6-2|SCAF8;ENSG00000213079|ENST00000367178|SCAF8 nc|ENSG00000213079|Q9UPN6-2|SCAF8 nc|ENSG00000213079|Q9UPN6-2|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.73980712890625 4 374.488271 1493.92398 2.836 0.001062 -0.66168 -0.00024779 2.1743 0.00081425 374.7387911368607 39.628 1.5354 39.628 38.636 40.172 0 175 63 3 0 0 0 0.91111 2 18065 18065;18071 0.40827 0 1 1412700 14354 6082 9214 9235 16485;16486 16485 0.1967725324213916 KRKHRKRSRSR 11 Unmodified _KRKHRKRSRSR_ 0 0 0 nc|ENSG00000213079|Q9UPN6-2|SCAF8;ENSG00000213079|ENST00000367178|SCAF8 nc|ENSG00000213079|Q9UPN6-2|SCAF8 nc|ENSG00000213079|Q9UPN6-2|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.48907470703125 4 374.488271 1493.92398 2.505 0.00093811 -0.39138 -0.00014657 2.1136 0.00079154 374.7389320195896 35.816 1.2401 36.607 36.406 37.646 0.79131 151 55 4 0 0 0 0.91111 2 16506 16506;16562 0.40827 0 1 3822200 14355 6082 9214 9235 16487;16488 16487 0.1967725324213916 KRKHRKRSRSR 11 Unmodified _KRKHRKRSRSR_ 0 0 0 nc|ENSG00000213079|Q9UPN6-2|SCAF8;ENSG00000213079|ENST00000367178|SCAF8 nc|ENSG00000213079|Q9UPN6-2|SCAF8 nc|ENSG00000213079|Q9UPN6-2|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.7397155761719 4 374.488271 1493.92398 2.8838 0.00108 -0.82568 -0.00030921 2.0581 0.00077074 374.4878974907297 37.321 0.53798 37.582 37.284 37.822 0.26083 29 16 2 0 0 0 0.91111 1 17033 17033 0.40827 0 1 1967700 14356 6082 9214 9235 16489 16489 0.1967725324213916 KRKHRKRSRSR 11 Unmodified _KRKHRKRSRSR_ 0 0 0 nc|ENSG00000213079|Q9UPN6-2|SCAF8;ENSG00000213079|ENST00000367178|SCAF8 nc|ENSG00000213079|Q9UPN6-2|SCAF8 nc|ENSG00000213079|Q9UPN6-2|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.4889831542969 4 374.488271 1493.92398 2.7748 0.0010391 -0.61106 -0.00022883 2.1637 0.00081029 374.4880122841594 35.901 1.2261 36.528 36.099 37.325 0.62631 127 44 4 0 0 0 0.91111 1 16577 16577 0.40827 0 1 3139000 14357 6082 9214 9235 16490 16490 0.1967725324213916 KRKIIRRQFPV 11 Unmodified _KRKIIRRQFPV_ 0 0 0 ICE2|p.K762I|1|0.21|ENSG00000128915|chr15:60447980-60447980|T/A|missense_variant ICE2|p.K762I|1|0.21|ENSG00000128915|chr15:60447980-60447980|T/A|missense_variant ICE2|p.K762I|1|0.21|ENSG00000128915|chr15:60447980-60447980|T/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 720.7634887695312 2 720.967337 1439.92012 NaN NaN NaN NaN NaN NaN NaN 88.919 1 88.971 88.471 89.471 0.052155 0 0 0 1.0072 1 45439 45439 1.3295 0.13619 1 14358 9420 9215 9236 16491 16491 0.21775770695739993 KRKIMIKRH 9 Unmodified _KRKIMIKRH_ 0 0 0 ENSG00000135090|ENST00000392533|TAOK3;TAOK3|p.H750Qfs*5|1|0.2|ENSG00000135090|chr12:118160248-118160248|G/-|frameshift_variant ENSG00000135090|ENST00000392533|TAOK3 ENSG00000135090|ENST00000392533|TAOK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 303.19915771484375 4 303.198577 1208.7652 1.8716 0.00056747 0.63928 0.00019383 2.5109 0.0007613 303.1986432328388 44.634 0.61212 44.634 44.56 45.172 0 67 35 3 0 0 0 1.2289 2 20411 20411;20641 0.26902 0.26902 1 3639400 14359 2848 9216 9237 16492;16493 16492 0.16916823289670901 KRKIMIKRH 9 Unmodified _KRKIMIKRH_ 0 0 0 ENSG00000135090|ENST00000392533|TAOK3;TAOK3|p.H750Qfs*5|1|0.2|ENSG00000135090|chr12:118160248-118160248|G/-|frameshift_variant ENSG00000135090|ENST00000392533|TAOK3 ENSG00000135090|ENST00000392533|TAOK3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.1993713378906 4 303.198577 1208.7652 2.149 0.00065157 0.81245 0.00024633 2.9615 0.00089791 303.1986984136276 43.324 0.68748 44.139 44.052 44.739 0.81444 108 43 3 0 0 0 0.11434 1 19756 19756 0.26902 0.26902 1 1430900 14360 2848 9216 9237 16494 16494 0.16916823289670901 KRKIMIKRH 9 Unmodified _KRKIMIKRH_ 0 0 0 ENSG00000135090|ENST00000392533|TAOK3;TAOK3|p.H750Qfs*5|1|0.2|ENSG00000135090|chr12:118160248-118160248|G/-|frameshift_variant ENSG00000135090|ENST00000392533|TAOK3 ENSG00000135090|ENST00000392533|TAOK3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.1995544433594 4 303.198577 1208.7652 2.1832 0.00066194 0.85195 0.00025831 3.0351 0.00092025 303.1987660495672 41.07 0.43386 41.874 41.696 42.13 0.8035 59 38 2 0 0 0 0.11434 1 18571 18571 0 0 1 3149100 14361 2848 9216 9237 16495 16495 0.16916823289670901 KRKIMIKRH 9 Unmodified _KRKIMIKRH_ 0 0 0 ENSG00000135090|ENST00000392533|TAOK3;TAOK3|p.H750Qfs*5|1|0.2|ENSG00000135090|chr12:118160248-118160248|G/-|frameshift_variant ENSG00000135090|ENST00000392533|TAOK3 ENSG00000135090|ENST00000392533|TAOK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.1935119628906 4 303.198577 1208.7652 2.453 0.00074374 1.0133 0.00030722 3.4662 0.001051 303.1988332485257 41.824 0.45132 42.094 41.666 42.118 0.27021 65 24 5 0 0 0 1.178 1 18994 18994 1.0715 1.0715 1 7690200 14362 2848 9216 9237 16496 16496 0.16916823289670901 KRKIMIKRH 9 Unmodified _KRKIMIKRH_ 0 0 0 ENSG00000135090|ENST00000392533|TAOK3;TAOK3|p.H750Qfs*5|1|0.2|ENSG00000135090|chr12:118160248-118160248|G/-|frameshift_variant ENSG00000135090|ENST00000392533|TAOK3 ENSG00000135090|ENST00000392533|TAOK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.1999206542969 4 303.198577 1208.7652 2.0618 0.00062514 0.78557 0.00023818 2.8474 0.00086332 303.19883820949497 43.792 0.54383 44.061 43.759 44.302 0.2694 65 37 2 0 0 0 1.2289 1 20064 20064 0.26902 0.26902 1 4471800 14363 2848 9216 9237 16497 16497 0.16916823289670901 KRKIMIKRH 9 Unmodified _KRKIMIKRH_ 0 0 0 ENSG00000135090|ENST00000392533|TAOK3;TAOK3|p.H750Qfs*5|1|0.2|ENSG00000135090|chr12:118160248-118160248|G/-|frameshift_variant ENSG00000135090|ENST00000392533|TAOK3 ENSG00000135090|ENST00000392533|TAOK3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 303.198577 1208.7652 1.8732 0.00056795 0.69119 0.00020957 2.5644 0.00077752 303.1988262421141 44.247 0.34953 44.247 44.053 44.403 0 -0.0012341 -5.1178E-05 NaN 0.26902 47 35 2 NaN NaN NaN NaN 0 NaN NaN 0 4775000 14364 2848 9216 9237 0.16916823289670901 KRKIMIKRH 9 Unmodified _KRKIMIKRH_ 0 0 0 ENSG00000135090|ENST00000392533|TAOK3;TAOK3|p.H750Qfs*5|1|0.2|ENSG00000135090|chr12:118160248-118160248|G/-|frameshift_variant ENSG00000135090|ENST00000392533|TAOK3 ENSG00000135090|ENST00000392533|TAOK3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 303.198577 1208.7652 1.8504 0.00056105 1.159 0.0003514 3.0094 0.00091245 303.19887912453447 42.053 0.30096 42.053 41.861 42.162 0 0.11782 0.00021056 NaN 0 34 18 2 NaN NaN NaN NaN 0 NaN NaN 0 4190400 14365 2848 9216 9237 0.16916823289670901 KRKIMIKRH 9 Unmodified _KRKIMIKRH_ 0 0 0 ENSG00000135090|ENST00000392533|TAOK3;TAOK3|p.H750Qfs*5|1|0.2|ENSG00000135090|chr12:118160248-118160248|G/-|frameshift_variant ENSG00000135090|ENST00000392533|TAOK3 ENSG00000135090|ENST00000392533|TAOK3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 303.198577 1208.7652 2.1528 0.00065272 -0.12156 -3.6857E-05 2.0312 0.00061586 303.1984595052087 43.116 0.1195 43.931 43.892 44.012 0.81444 -0.065267 -0.00065686 NaN 0.26902 18 11 3 NaN NaN NaN NaN 0 NaN NaN 0 5610700 14366 2848 9216 9237 0.16916823289670901 KRKIMIKRH 9 Unmodified _KRKIMIKRH_ 0 0 0 ENSG00000135090|ENST00000392533|TAOK3;TAOK3|p.H750Qfs*5|1|0.2|ENSG00000135090|chr12:118160248-118160248|G/-|frameshift_variant ENSG00000135090|ENST00000392533|TAOK3 ENSG00000135090|ENST00000392533|TAOK3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 303.198577 1208.7652 2.0618 0.00062514 0.78557 0.00023818 2.8474 0.00086332 303.19883820949497 43.792 0.54383 44.061 43.759 44.302 0.2694 0.065267 0.0004433 NaN 0.26902 65 37 2 NaN NaN NaN NaN 0 NaN NaN 0 4471800 14367 2848 9216 9237 0.16916823289670901 KRKKGFQKKKK 11 Unmodified _KRKKGFQKKKK_ 0 0 0 REV__ENST00000452106.5_1_22:41623607-41626252:+|nuORF REV__ENST00000452106.5_1_22:41623607-41626252:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 702.2587280273438 2 702.469712 1402.92487 NaN NaN NaN NaN NaN NaN NaN 105.73 1 105.73 105.23 106.23 0 0 0 0 1.008 1 58099 58099 0.30703 0.30703 1 + 14368 10827 9217 9238 16498 16498 0.23952654838467424 KRKKIKKIPPR 11 Unmodified _KRKKIKKIPPR_ 0 0 0 REV__AluSg_dup32969|chr19:8369923-8370238:+|1.2725624925183865|0.3756702758649972|1.76|531.0|8|2|sense REV__AluSg_dup32969|chr19:8369923-8370238:+|1.2725624925183865|0.3756702758649972|1.76|531.0|8|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 696.80322265625 2 696.487905 1390.96126 NaN NaN NaN NaN NaN NaN NaN 83.275 1 83.32 82.82 83.82 0.045006 0 0 0 1.0082 1 41289 41289 0 0 1 + 14369 9947 9218 9239 16499 16499 0.28141531735195713 KRKKKKKIQKR 11 Unmodified _KRKKKKKIQKR_ 0 0 0 ENST00000359543.7_1_16:10626568-10626661:-|nuORF ENST00000359543.7_1_16:10626568-10626661:-|nuORF ENST00000359543.7_1_16:10626568-10626661:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 735.014404296875 2 735.017361 1468.02017 NaN NaN NaN NaN NaN NaN NaN 60.777 1 61.44 60.94 61.94 0.66261 0 0 0 1.0082 1 27828 27828 0.30703 0.30703 1 14370 7204 9219 9240 16500 16500 0.30488008029533376 KRKKKKKKKKE 11 Unmodified _KRKKKKKKKKE_ 0 0 0 REV__TRHDE|p.F993Sfs*26|1|0.04|ENSG00000072657|chr12:72663096-72663096|T/-|frameshift_variant REV__TRHDE|p.F993Sfs*26|1|0.04|ENSG00000072657|chr12:72663096-72663096|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 729.0143432617188 2 729.011744 1456.00894 NaN NaN NaN NaN NaN NaN NaN 45.155 1 45.423 44.923 45.923 0.26768 0 0 0 1.0082 1 20640 20640 0 0 1 + 14371 10494 9220 9241 16501 16501 0.299171859353919 KRKKKKKKKKK 11 Unmodified _KRKKKKKKKKK_ 0 0 0 REV__ENST00000359543.7_1_16:10626568-10626661:-|nuORF;REV__Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|19|1|sense REV__Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|19|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 728.6082153320312 2 728.537929 1455.06131 NaN NaN NaN NaN NaN NaN NaN 94.289 1 94.289 93.789 94.789 0 0 0 0 1.0082 1 50535 50535 0 0 1 + 14372 15600;17697 9221 9242 16502 16502 0.3519776906898642 KRKKKKKKTE 10 Unmodified _KRKKKKKKTE_ 0 0 0 ENSG00000196663|ENST00000359520|TECPR2;nc|ENSG00000196663|O15040-2|TECPR2 ENSG00000196663|ENST00000359520|TECPR2 ENSG00000196663|ENST00000359520|TECPR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.6295166015625 3 434.629506 1300.86669 NaN NaN NaN NaN NaN NaN NaN 74.032 1 74.29 73.79 74.79 0.25876 0 0 0 1.002 1 34023 34023 0 0 1 14373 5766 9222 9243 16503 16503 0.22828973193213642 KRKKKKKRKLA 11 Unmodified _KRKKKKKRKLA_ 0 0 0 REV__ENST00000565844.1_1_16:19721758-19726357:-|nuORF REV__ENST00000565844.1_1_16:19721758-19726357:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 706.5081176757812 2 706.506629 1410.99871 NaN NaN NaN NaN NaN NaN NaN 67.152 1 67.152 66.652 67.652 0 0 0 0 1.0082 1 32147 32147 0 0 1 + 14374 10973 9223 9244 16504 16504 0.3096462300081839 KRKKKQRRNRT 11 Unmodified _KRKKKQRRNRT_ 0 0 0 ENSG00000167157|ENST00000372469|PRRX2 ENSG00000167157|ENST00000372469|PRRX2 ENSG00000167157|ENST00000372469|PRRX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 749.9796752929688 2 749.979299 1497.94404 NaN NaN NaN NaN NaN NaN NaN 101.3 1 101.36 100.86 101.86 0.059723 0 0 0 1.0082 1 55006 55006 0.26902 0 1 14375 4532 9224 9245 16505 16505 0.21499004182123826 KRKKLKQFQK 10 Unmodified _KRKKLKQFQK_ 0 0 0 ENSG00000024526|ENST00000456315|DEPDC1;ENST00000421655.1_1_9:108522415-108523033:+|nuORF;ENST00000488146.5_1_1:68942617-68947320:-|nuORF;nc|ENSG00000024526|Q5TB30-2|DEPDC1 ENSG00000024526|ENST00000456315|DEPDC1 ENSG00000024526|ENST00000456315|DEPDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 666.4349365234375 2 666.435338 1330.85612 NaN NaN NaN NaN NaN NaN NaN 74.927 1 74.927 74.427 75.427 0 0 0 0 1.0003 1 36692 36692 1.4819 1.0236 1 14376 475 9225 9246 16506 16506 0.2039299053878949 KRKKRIKRRAL 11 Unmodified _KRKKRIKRRAL_ 0 0 0 ENSG00000130943|ENST00000253255|PKDREJ ENSG00000130943|ENST00000253255|PKDREJ ENSG00000130943|ENST00000253255|PKDREJ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.98773193359375 3 485.007311 1452.0001 NaN NaN NaN NaN NaN NaN NaN 60.864 1 61.604 61.104 62.104 0.7396 0 0 0 1.0082 1 28152 28152 0 0 1 14377 2631 9226 9247 16507 16507 0.29218257089587496 KRKKRKTKRRI 11 Unmodified _KRKKRKTKRRI_ 0 0 0 ENST00000415149.6_1_3:107429416-107435478:+|nuORF ENST00000415149.6_1_3:107429416-107435478:+|nuORF ENST00000415149.6_1_3:107429416-107435478:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 749.7689208984375 2 749.51806 1497.02157 NaN NaN NaN NaN NaN NaN NaN 96.863 1 96.939 96.439 97.439 0.076538 0 0 0 1.0082 1 51600 51600 0 0 1 14378 7702 9227 9248 16508 16508 0.29293642118273056 KRKKRVHRQRI 11 Unmodified _KRKKRVHRQRI_ 0 0 0 REV__ENST00000605810.1_1_3:70174691-70175321:-|nuORF REV__ENST00000605810.1_1_3:70174691-70175321:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 752.9496459960938 2 752.992209 1503.96987 NaN NaN NaN NaN NaN NaN NaN 98.933 1 98.933 98.433 99.433 0 0 0 0 1.0082 1 54270 54270 0 0 1 + 14379 17662 9228 9249 16509 16509 0.2380389842439854 KRKKRVLLLL 10 Unmodified _KRKKRVLLLL_ 0 0 0 REV__nc|ENSG00000062038|P22223-2|CDH3 REV__nc|ENSG00000062038|P22223-2|CDH3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.9585571289062 2 633.958449 1265.90235 NaN NaN NaN NaN NaN NaN NaN 70.422 1 71.084 70.584 71.584 0.66209 0 0 0 1.002 1 32288 32288 0 0 1 + 14380 10401 9229 9250 16510 16510 0.28003055440899516 KRKKVGKF 8 Unmodified _KRKKVGKF_ 0 0 0 REV__ENSG00000165805|ENST00000298699|C12orf50 REV__ENSG00000165805|ENST00000298699|C12orf50 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.835693359375 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 39.633 1 40.433 39.933 40.933 0.80014 0 0 0 0.99035 1 17943 17943 0.79363 0 1 + 14381 13189 9230 9251 16511 16511 0.15458042430327623 KRKKVGKF 8 Unmodified _KRKKVGKF_ 0 0 0 REV__ENSG00000165805|ENST00000298699|C12orf50 REV__ENSG00000165805|ENST00000298699|C12orf50 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.8392028808594 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 52.671 1 53.482 52.982 53.982 0.81065 0 0 0 0.99035 1 24000 24000 0.79363 0 1 + 14382 13189 9230 9251 16512 16512 0.15458042430327623 KRKKVLVHLGL 11 Unmodified _KRKKVLVHLGL_ 0 0 0 ENSG00000152127|ENST00000281923|MGAT5 ENSG00000152127|ENST00000281923|MGAT5 ENSG00000152127|ENST00000281923|MGAT5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 645.9429931640625 2 645.940257 1289.86596 NaN NaN NaN NaN NaN NaN NaN 35.89 1 36.145 35.645 36.645 0.25524 0 0 0 1.0082 1 16346 16346 0 0 1 14383 3739 9231 9252 16513 16513 0.23262178544177914 KRKLFLKKKL 10 Unmodified _KRKLFLKKKL_ 0 0 0 REV__ENST00000342992.10_3_2:179540701-179542581:-|nuORF REV__ENST00000342992.10_3_2:179540701-179542581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 651.6534423828125 2 651.460825 1300.9071 NaN NaN NaN NaN NaN NaN NaN 94.433 1 94.433 93.933 94.933 0 0 0 0 1.002 1 50655 50655 0 0 1 + 14384 15483 9232 9253 16514 16514 0.2686793958364433 KRKLFLKKKL 10 Unmodified _KRKLFLKKKL_ 0 0 0 REV__ENST00000342992.10_3_2:179540701-179542581:-|nuORF REV__ENST00000342992.10_3_2:179540701-179542581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 651.2840576171875 2 651.460825 1300.9071 NaN NaN NaN NaN NaN NaN NaN 93.748 1 93.835 93.335 94.335 0.086212 0 0 0 1.002 1 49185 49185 0 0 1 + 14385 15483 9232 9253 16515 16515 0.2686793958364433 KRKLKRVRISL 11 Unmodified _KRKLKRVRISL_ 0 0 0 nc|ENSG00000114859|P51788-4|CLCN2;nc|ENSG00000114859|P51788-5|CLCN2;nc|ENSG00000114859|P51788-3|CLCN2;ENSG00000114859|ENST00000265593|CLCN2 nc|ENSG00000114859|P51788-4|CLCN2 nc|ENSG00000114859|P51788-4|CLCN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 698.9852294921875 2 698.982987 1395.95142 NaN NaN NaN NaN NaN NaN NaN 71.094 1 71.756 71.256 72.256 0.66209 0 0 0 1.0082 1 32582 32582 0 0 1 14386 1927 9233 9254 16516 16516 0.2692834372985544 KRKLLKVIPLL 11 Unmodified _KRKLLKVIPLL_ 0 0 0 NLRP8|p.N923Kfs*2|1|0.22|ENSG00000179709|chr19:55976190-55976191|-/A|frameshift_variant;nc|ENSG00000179709|Q86W28-2|NLRP8;ENSG00000179709|ENST00000291971|NLRP8 NLRP8|p.N923Kfs*2|1|0.22|ENSG00000179709|chr19:55976190-55976191|-/A|frameshift_variant NLRP8|p.N923Kfs*2|1|0.22|ENSG00000179709|chr19:55976190-55976191|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 660.97705078125 2 660.976308 1319.93806 NaN NaN NaN NaN NaN NaN NaN 109.96 1 109.96 109.46 110.46 0 0 0 0 1.0082 1 60092 60092 0 0 1 14387 5227 9234 9255 16517 16517 0.29089092897902447 KRKLLKVIPLL 11 Unmodified _KRKLLKVIPLL_ 0 0 0 NLRP8|p.N923Kfs*2|1|0.22|ENSG00000179709|chr19:55976190-55976191|-/A|frameshift_variant;nc|ENSG00000179709|Q86W28-2|NLRP8;ENSG00000179709|ENST00000291971|NLRP8 NLRP8|p.N923Kfs*2|1|0.22|ENSG00000179709|chr19:55976190-55976191|-/A|frameshift_variant NLRP8|p.N923Kfs*2|1|0.22|ENSG00000179709|chr19:55976190-55976191|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 661.0420532226562 2 660.976308 1319.93806 NaN NaN NaN NaN NaN NaN NaN 62.297 1 63.028 62.528 63.528 0.73077 0 0 0 1.0082 1 29020 29020 0 0 1 14388 5227 9234 9255 16518 16518 0.29089092897902447 KRKLLLKRKL 10 Unmodified _KRKLLLKRKL_ 0 0 0 REV__ENST00000342992.10_3_2:179510673-179515519:-|nuORF REV__ENST00000342992.10_3_2:179510673-179515519:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.8735961914062 2 648.471724 1294.92889 NaN NaN NaN NaN NaN NaN NaN 32.817 1 33.605 33.105 34.105 0.78795 0 0 0 1.002 1 14847 14847 0 0 1 + 14389 15482 9235 9256 16519 16519 0.29322744332216644 KRKLLLKRKL 10 Unmodified _KRKLLLKRKL_ 0 0 0 REV__ENST00000342992.10_3_2:179510673-179515519:-|nuORF REV__ENST00000342992.10_3_2:179510673-179515519:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 648.4732055664062 2 648.471724 1294.92889 NaN NaN NaN NaN NaN NaN NaN 93.983 1 94.243 93.743 94.743 0.25975 0 0 0 1.002 1 43192 43192 0 0 1 + 14390 15482 9235 9256 16520 16520 0.29322744332216644 KRKLVFLFLA 10 Unmodified _KRKLVFLFLA_ 0 0 0 ENST00000306954.4_1_14:93669861-93669912:-|nuORF ENST00000306954.4_1_14:93669861-93669912:-|nuORF ENST00000306954.4_1_14:93669861-93669912:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 309.5373840332031 4 309.456314 1233.79615 2.0534 0.00063544 1.3281 0.000411 3.3815 0.0010464 309.70734975534043 38.694 0.58189 39.332 38.826 39.408 0.63778 36 22 2 0 0 0 0.12676 1 17707 17707 0 0 1 319350 14391 6844 9236 9257 16521 16521 0.18860299875564124 KRKLYLKKLLK 11 Unmodified _KRKLYLKKLLK_ 0 0 0 REV__ENST00000589042.5_3_2:179517806-179527536:-|nuORF REV__ENST00000589042.5_3_2:179517806-179527536:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 716.0278930664062 2 716.000314 1429.98608 NaN NaN NaN NaN NaN NaN NaN 107.22 1 107.27 106.77 107.77 0.045425 0 0 0 1.0082 1 57971 57971 0 0 1 + 14392 17562 9237 9258 16522 16522 0.28828166817925194 KRKMLLKKQ 9 Unmodified _KRKMLLKKQ_ 0 0 0 ENST00000442668.6_3_9:95060594-95062262:-|nuORF;ENST00000463593.6_1_9:95061087-95062271:-|nuORF ENST00000442668.6_3_9:95060594-95062262:-|nuORF ENST00000442668.6_3_9:95060594-95062262:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 586.7982177734375 2 586.886635 1171.75872 NaN NaN NaN NaN NaN NaN NaN 32.957 1 33.745 33.245 34.245 0.78795 0 0 0 0.91238 1 14910 14910 0.52476 0 1 14393 7947 9238 9259 16523 16523 0.1797088533828628 KRKNWVNELRS 11 Unmodified _KRKNWVNELRS_ 0 0 0 nc|ENSG00000166833|Q8IVL1-8|NAV2;nc|ENSG00000166833|Q8IVL1-9|NAV2;nc|ENSG00000166833|Q8IVL1-10|NAV2;nc|ENSG00000166833|Q8IVL1-13|NAV2;nc|ENSG00000166833|Q8IVL1-12|NAV2;nc|ENSG00000166833|Q8IVL1-11|NAV2;nc|ENSG00000166833|Q8IVL1-2|NAV2;nc|ENSG00000166833|Q8IVL1|NAV2 nc|ENSG00000166833|Q8IVL1-8|NAV2 nc|ENSG00000166833|Q8IVL1-8|NAV2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 716.396240234375 2 715.404766 1428.79498 2.6438 0.0018914 3.1794 0.0022745 5.8232 0.0041659 715.9100124347241 92.111 0.027679 92.194 92.173 92.201 0.082848 5 3 2 0 0 0 0.91111 1 47920 47920 1.1933 0.79263 1 6415700 14394 9735 9239 9260 16524 16524 0.09773433768691575 KRKQGLIFK 9 Unmodified _KRKQGLIFK_ 0 0 0 REV__ENST00000506314.1_1_4:109096892-109097045:+|nuORF REV__ENST00000506314.1_1_4:109096892-109097045:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.3697509765625 2 559.36385 1116.71315 NaN NaN NaN NaN NaN NaN NaN 64.971 1 64.971 64.471 65.471 0 0 0 0 0.86044 1 30878 30878 7.2892 0.56607 1 + 14395 16932 9240 9261 16525 16525 0.15945983147571496 KRKQLFLF 8 Unmodified _KRKQLFLF_ 0 0 0 REV__ENST00000580151.5_1_17:73284505-73284610:-|nuORF REV__ENST00000580151.5_1_17:73284505-73284610:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 360.563720703125 3 360.562321 1078.66514 2.631 0.00094863 1.2564 0.00045303 3.8874 0.0014017 360.5627822871205 36.693 0.29268 36.693 36.593 36.886 0 21 13 2 0 0 0 0.7471 1 16713 16713 0.40072 0.1317 1 277140 + 14396 17503 9241 9262 16526 16526 0.1289490922749792 KRKQLFLF 8 Unmodified _KRKQLFLF_ 0 0 0 REV__ENST00000580151.5_1_17:73284505-73284610:-|nuORF REV__ENST00000580151.5_1_17:73284505-73284610:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 360.562321 1078.66514 2.631 0.00094863 1.2564 0.00045303 3.8874 0.0014017 360.5627822871205 36.693 0.29268 36.693 36.593 36.886 0 0 0 NaN 0.40072 21 13 2 NaN NaN NaN NaN 0 NaN NaN 0 277140 + 14397 17503 9241 9262 0.1289490922749792 KRKRKRRQKKL 11 Unmodified _KRKRKRRQKKL_ 0 0 0 REV__ENSG00000176988|ENST00000370467|FMR1NB REV__ENSG00000176988|ENST00000370467|FMR1NB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 763.02783203125 2 763.023509 1524.03247 NaN NaN NaN NaN NaN NaN NaN 85.32 1 85.32 84.82 85.82 0 0 0 0 1.0082 1 43411 43411 0 0 1 + 14398 13721 9242 9263 16527 16527 0.2914104449257593 KRKRKYELRYR 11 Unmodified _KRKRKYELRYR_ 0 0 0 ENSG00000153157|ENST00000283141|SYCP2L ENSG00000153157|ENST00000283141|SYCP2L ENSG00000153157|ENST00000283141|SYCP2L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 798.484375 2 798.483882 1594.95321 NaN NaN NaN NaN NaN NaN NaN 80.547 1 81.207 80.707 81.707 0.65998 0 0 0 1.0082 1 37116 37116 0 0 1 14399 3775 9243 9264 16528 16528 0.17953352747781537 KRKRLYFKRK 10 Unmodified _KRKRLYFKRK_ 0 0 0 REV__ENST00000342992.10_3_2:179540701-179542581:-|nuORF REV__ENST00000342992.10_3_2:179540701-179542581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 712.0158081054688 2 711.962055 1421.90956 NaN NaN NaN NaN NaN NaN NaN 98.977 1 99.043 98.543 99.543 0.066025 0 0 0 1.0015 1 53374 53374 0.40072 0.093686 1 + 14400 15483 9244 9265 16529 16529 0.21547788041266358 KRKRRLFWIAV 11 Unmodified _KRKRRLFWIAV_ 0 0 0 REV__ENST00000398645.6_1_11:66887311-66947572:+|nuORF REV__ENST00000398645.6_1_11:66887311-66947572:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 736.9703369140625 2 736.96988 1471.92521 NaN NaN NaN NaN NaN NaN NaN 76.032 1 76.696 76.196 77.196 0.66387 0 0 0 1.0082 1 35027 35027 0 0 1 + 14401 16027 9245 9266 16530 16530 0.20812074558352833 KRKRRRERRTR 11 Unmodified _KRKRRRERRTR_ 0 0 0 ENST00000280571.9_1_12:123920858-123920954:-|nuORF ENST00000280571.9_1_12:123920858-123920954:-|nuORF ENST00000280571.9_1_12:123920858-123920954:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 800.0003662109375 2 799.506546 1596.99854 NaN NaN NaN NaN NaN NaN NaN 87.095 1 87.344 86.844 87.844 0.24974 0 0 0 1.0082 1 40089 40089 0 0 1 14402 6688 9246 9267 16531 16531 0.2239201605350445 KRKRRRKRTKF 11 Unmodified _KRKRRRKRTKF_ 0 0 0 REV__ENST00000308478.9_1_7:110731416-110762496:+|nuORF REV__ENST00000308478.9_1_7:110731416-110762496:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 780.5106811523438 2 780.513309 1559.01206 NaN NaN NaN NaN NaN NaN NaN 71.88 1 72.543 72.043 73.043 0.66324 0 0 0 1.0082 1 32946 32946 0 0 1 + 14403 15242 9247 9268 16532 16532 0.25491873832743295 KRKRRTKTIRR 11 Unmodified _KRKRRTKTIRR_ 0 0 0 ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 749.9989013671875 2 749.997491 1497.98043 NaN NaN NaN NaN NaN NaN NaN 27.339 1 27.339 26.839 27.839 0 0 0 0 1.0082 1 12309 12309 0 0 1 14404 4647 9248 9269 16533 16533 0.25135881078813327 KRKVKFSPLRL 11 Unmodified _KRKVKFSPLRL_ 0 0 0 REV__ENSG00000099381|ENST00000262519|SETD1A REV__ENSG00000099381|ENST00000262519|SETD1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 458.10302734375 3 457.969751 1370.88742 NaN NaN NaN NaN NaN NaN NaN 64.546 1 65.261 64.761 65.761 0.71521 0 0 0 1.0073 1 30413 30413 0.40827 0 1 + 14405 10783 9249 9270 16534 16534 0.21681563572883533 KRKVSYKKE 9 Unmodified _KRKVSYKKE_ 0 0 0 REV__nc|ENSG00000115750|Q53T94-3|TAF1B REV__nc|ENSG00000115750|Q53T94-3|TAF1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 389.25469970703125 3 389.239907 1164.69789 NaN NaN NaN NaN NaN NaN NaN 38.178 1 38.974 38.474 39.474 0.79552 0 0 0 0.90431 1 17294 17294 2.4985 0.063701 1 + 14406 11382 9250 9271 16535 16535 0.12213071559699529 KRKWKPKFWRK 11 Unmodified _KRKWKPKFWRK_ 0 0 0 nc|ENSG00000133858|O60293-2|ZFC3H1;ENSG00000133858|ENST00000378743|ZFC3H1 nc|ENSG00000133858|O60293-2|ZFC3H1 nc|ENSG00000133858|O60293-2|ZFC3H1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 794.4874877929688 2 794.490979 1586.96741 NaN NaN NaN NaN NaN NaN NaN 96.411 1 96.689 96.189 97.189 0.27778 0 0 0 1.008 1 44297 44297 0.30703 0.30703 1 14407 2773 9251 9272 16536 16536 0.19740049966708284 KRKWRRRRWSL 11 Unmodified _KRKWRRRRWSL_ 0 0 0 REV__ENST00000557821.5_1_15:40588574-40589003:-|nuORF REV__ENST00000557821.5_1_15:40588574-40589003:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 814.4999389648438 2 814.497659 1626.98076 NaN NaN NaN NaN NaN NaN NaN 75.027 1 75.285 74.785 75.785 0.25831 0 0 0 1.0082 1 34512 34512 0 0 1 + 14408 14956 9252 9273 16537 16537 0.19235300798663957 KRLAELLV 8 Unmodified _KRLAELLV_ 0 0 0 nc|ENSG00000177963|Q9NPQ8-4|RIC8A;ENSG00000177963|ENST00000526104|RIC8A;nc|ENSG00000177963|Q9NPQ8-3|RIC8A;ENST00000526982.1_1_11:209264-210619:+|nuORF nc|ENSG00000177963|Q9NPQ8-4|RIC8A nc|ENSG00000177963|Q9NPQ8-4|RIC8A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 314.09185791015625 3 314.542927 940.606951 1.9137 0.00060193 0.19982 6.2852E-05 2.1135 0.00066479 314.5429709959274 33.172 0.17526 33.96 33.899 34.074 0.78795 18 11 2 0 0 0 0.14326 1 15008 15008 1.3295 0 1 208710 14409 5143 9253 9274 16538 16538 0.13427227582235446 KRLAELLV 8 Unmodified _KRLAELLV_ 0 0 0 nc|ENSG00000177963|Q9NPQ8-4|RIC8A;ENSG00000177963|ENST00000526104|RIC8A;nc|ENSG00000177963|Q9NPQ8-3|RIC8A;ENST00000526982.1_1_11:209264-210619:+|nuORF nc|ENSG00000177963|Q9NPQ8-4|RIC8A nc|ENSG00000177963|Q9NPQ8-4|RIC8A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 314.0919494628906 3 314.542927 940.606951 1.9863 0.00062478 0.19642 6.1783E-05 2.1827 0.00068656 314.5430135682855 33.492 0.28783 34.112 33.932 34.22 0.62032 15 10 2 0 0 0 0.14326 1 15316 15316 1.3295 0 1 335470 14410 5143 9253 9274 16539 16539 0.13427227582235446 KRLAPWLG 8 Unmodified _KRLAPWLG_ 0 0 0 REV__ENSG00000124275|ENST00000440940|MTRR REV__ENSG00000124275|ENST00000440940|MTRR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.1968078613281 3 314.19575 939.565421 NaN NaN NaN NaN NaN NaN NaN 38.729 1 38.993 38.493 39.493 0.26408 0 0 0 0.99035 1 17627 17627 1.6526 0 1 + 14411 11649 9254 9275 16540 16540 0.09322091613569228 KRLETLQSVRP 11 Unmodified _KRLETLQSVRP_ 0 0 0 ENSG00000103351|ENST00000576634|CLUAP1;nc|ENSG00000103351|Q96AJ1-2|CLUAP1;ENST00000572632.1_1_16:3569992-3580585:+|nuORF ENSG00000103351|ENST00000576634|CLUAP1 ENSG00000103351|ENST00000576634|CLUAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.897705078125 2 663.896243 1325.77793 4.1261 0.0027393 -1.7328 -0.0011504 2.3933 0.0015889 663.8951214576948 91.271 1.2233 91.933 91.419 92.642 0.66198 98 62 2 0 0 0 0.91328 1 42072 42072 0 0 1 1499700 14412 1392 9255 9276 16541 16541 0.12807513162874784 KRLIGPKVL 9 Unmodified _KRLIGPKVL_ 0 0 0 nc|ENSG00000172987|Q8WWQ2-4|HPSE2;nc|ENSG00000172987|Q8WWQ2-3|HPSE2;nc|ENSG00000172987|Q8WWQ2-2|HPSE2;ENSG00000172987|ENST00000370552|HPSE2 nc|ENSG00000172987|Q8WWQ2-4|HPSE2 nc|ENSG00000172987|Q8WWQ2-4|HPSE2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.8578491210938 2 512.355494 1022.69644 3.5907 0.0018397 -0.45212 -0.00023164 3.1386 0.0016081 512.3552156532589 105.03 0.10699 105.63 105.59 105.69 0.59885 13 7 2 0 0 0 1.1154 1 48521 48521 2.0598 0 1 412800 14413 4910 9256 9277 16542 16542 0.1859948226160668 KRLILNRRRRK 11 Unmodified _KRLILNRRRRK_ 0 0 0 REV__ENST00000264447.8_1_2:71650545-71650620:+|nuORF REV__ENST00000264447.8_1_2:71650545-71650620:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 755.0371704101562 2 755.007859 1508.00117 NaN NaN NaN NaN NaN NaN NaN 99.496 1 100.09 99.594 100.59 0.59748 0 0 0 1.0082 1 46014 46014 0 0 1 + 14414 15017 9257 9278 16543 16543 0.26748471458449785 KRLLAAVH 8 Unmodified _KRLLAAVH_ 0 0 0 REV__FOCAD|p.P1713Tfs*24|1|0.31|ENSG00000188352|chr9:20990253-20990254|-/G|frameshift_variant REV__FOCAD|p.P1713Tfs*24|1|0.31|ENSG00000188352|chr9:20990253-20990254|-/G|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.1998596191406 3 303.199383 906.57632 NaN NaN NaN NaN NaN NaN NaN 40.248 1 40.515 40.015 41.015 0.26696 0 0 0 0.99035 1 18312 18312 1.6526 0 1 + 14415 14146 9258 9279 16544 16544 0.11929493987838669 KRLLFPRFFF 10 Unmodified _KRLLFPRFFF_ 0 0 0 DNAH8|p.E1942Vfs*36|1|0.06|ENSG00000124721|chr6:38864037-38864038|-/TGATAAAGAGAGGTTTAATTATTTGTAT|frameshift_variant;nc|ENSG00000124721|Q96JB1-2|DNAH8;nc|ENSG00000124721|Q96JB1|DNAH8;ENSG00000124721|ENST00000327475|DNAH8 DNAH8|p.E1942Vfs*36|1|0.06|ENSG00000124721|chr6:38864037-38864038|-/TGATAAAGAGAGGTTTAATTATTTGTAT|frameshift_variant DNAH8|p.E1942Vfs*36|1|0.06|ENSG00000124721|chr6:38864037-38864038|-/TGATAAAGAGAGGTTTAATTATTTGTAT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.6097106933594 3 457.608042 1369.8023 3.1411 0.0014374 0.58152 0.00026611 3.7226 0.0017035 457.60827451486574 94.97 0.94132 95.588 94.942 95.884 0.61737 128 52 4 0 0 0 0.94246 1 43629 43629 0.13989 0.04505 1 1783600 14416 273 9259 9280 16545 16545 0.13218818107043262 KRLLHVKGK 9 Unmodified _KRLLHVKGK_ 0 0 0 ENST00000548843.1_1_12:58200052-58208006:-|nuORF;nc|ENSG00000135407|O75366-2|AVIL;ENST00000549851.5_1_12:58191667-58209405:-|nuORF;ENSG00000135407|ENST00000549994|AVIL ENST00000548843.1_1_12:58200052-58208006:-|nuORF ENST00000548843.1_1_12:58200052-58208006:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.2458801269531 3 360.245104 1077.71348 NaN NaN NaN NaN NaN NaN NaN 27.381 1 27.643 27.143 28.143 0.26245 0 0 0 0.91059 1 12447 12447 0.96228 0.69326 1 14417 2870 9260 9281 16546 16546 0.17773402867419463 KRLLIKRLLL 10 Unmodified _KRLLIKRLLL_ 0 0 0 REV__nc|ENSG00000050628|P43115-6|PTGER3 REV__nc|ENSG00000050628|P43115-6|PTGER3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.4614868164062 2 633.460825 1264.9071 NaN NaN NaN NaN NaN NaN NaN 63.485 1 64.208 63.708 64.708 0.72236 0 0 0 1.002 1 29741 29741 0 0 1 + 14418 17860 9261 9282 16547 16547 0.28523939583669744 KRLLILRLPLL 11 Unmodified _KRLLILRLPLL_ 0 0 0 REV__ENST00000507606.2_1_7:135359974-135360067:+|nuORF REV__ENST00000507606.2_1_7:135359974-135360067:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 674.8240356445312 2 674.481757 1346.94896 NaN NaN NaN NaN NaN NaN NaN 104.36 1 104.42 103.92 104.92 0.052994 0 0 0 1.0082 1 56510 56510 0 0 1 + 14419 16942 9262 9283 16548 16548 0.28936495272182583 KRLLLKVKIIK 11 Unmodified _KRLLLKVKIIK_ 0 0 0 REV__ENST00000379380.8_1_5:130517939-130517987:+|nuORF REV__ENST00000379380.8_1_5:130517939-130517987:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 676.49609375 2 676.497407 1350.98026 NaN NaN NaN NaN NaN NaN NaN 90.75 1 90.75 90.25 91.25 0 0 0 0 1.0082 1 47780 47780 0 0 1 + 14420 15865 9263 9284 16549 16549 0.31881068306256566 KRLLLKVKIIK 11 Unmodified _KRLLLKVKIIK_ 0 0 0 REV__ENST00000379380.8_1_5:130517939-130517987:+|nuORF REV__ENST00000379380.8_1_5:130517939-130517987:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 676.498046875 2 676.497407 1350.98026 NaN NaN NaN NaN NaN NaN NaN 102.75 1 102.75 102.25 103.25 0 0 0 0 1.0082 1 56695 56695 0 0 1 + 14421 15865 9263 9284 16550 16550 0.31881068306256566 KRLLRKIIKW 10 Unmodified _KRLLRKIIKW_ 0 0 0 ENST00000356692.9_1_3:73114625-73114730:+|nuORF ENST00000356692.9_1_3:73114625-73114730:+|nuORF ENST00000356692.9_1_3:73114625-73114730:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.464111328125 2 677.463899 1352.91324 NaN NaN NaN NaN NaN NaN NaN 54.043 1 54.838 54.338 55.338 0.79552 0 0 0 1.002 1 24659 24659 0 0 1 14422 7160 9264 9285 16551 16551 0.2509045781516761 KRLPKLRLEII 11 Unmodified _KRLPKLRLEII_ 0 0 0 nc|ENSG00000162129|Q9H078-5|CLPB;nc|ENSG00000162129|Q9H078-3|CLPB;nc|ENSG00000162129|Q9H078-4|CLPB;ENSG00000162129|ENST00000538039|CLPB;nc|ENSG00000162129|Q9H078|CLPB;ENST00000538021.5_2_11:72004413-72018253:-|nuORF nc|ENSG00000162129|Q9H078-5|CLPB nc|ENSG00000162129|Q9H078-5|CLPB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 689.966796875 2 689.966471 1377.91839 NaN NaN NaN NaN NaN NaN NaN 33.276 1 33.53 33.03 34.03 0.25389 0 0 0 1.0082 1 15151 15151 0 0 1 14423 4122 9265 9286 16552 16552 0.24454716887134964 KRLRKKYYIRW 11 Unmodified _KRLRKKYYIRW_ 0 0 0 REV__nc|ENSG00000009950|Q9NP71-4|MLXIPL REV__nc|ENSG00000009950|Q9NP71-4|MLXIPL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 805.4949340820312 2 805.493719 1608.97288 NaN NaN NaN NaN NaN NaN NaN 30.959 1 30.959 30.459 31.459 0 0 0 0 1.0082 1 13997 13997 0 0 1 + 14424 10218 9266 9287 16553 16553 0.19275728758543664 KRLSQLDSF 9 Unmodified _KRLSQLDSF_ 0 0 0 REV__ENSG00000240563|ENST00000498273|L1TD1 REV__ENSG00000240563|ENST00000498273|L1TD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.3059692382812 2 547.303655 1092.59276 3.3665 0.0018425 0.9177 0.00050226 4.2842 0.0023448 547.3041637901316 17.838 0.22898 18.14 18.042 18.271 0.30158 36 20 2 0 0 0 0.72052 1 8070 8070 8.7454 0 1 170010 + 14425 14607 9267 9288 16554 16554 0.050165303632638825 KRLSQLDSF 9 Unmodified _KRLSQLDSF_ 0 0 0 REV__ENSG00000240563|ENST00000498273|L1TD1 REV__ENSG00000240563|ENST00000498273|L1TD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 547.303655 1092.59276 3.549 0.0019424 0.69567 0.00038074 4.2447 0.0023231 547.3041237258865 17.694 0.10868 18.355 18.28 18.388 0.66072 0.10753 -0.00015349 NaN 8.7454 19 14 2 NaN NaN NaN NaN 0 NaN NaN 0 467640 + 14426 14607 9267 9288 0.050165303632638825 KRLSQTKLRLW 11 Unmodified _KRLSQTKLRLW_ 0 0 0 REV__ENST00000396124.8_1_8:96044305-96047718:+|nuORF REV__ENST00000396124.8_1_8:96044305-96047718:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 714.9440307617188 2 714.943528 1427.8725 NaN NaN NaN NaN NaN NaN NaN 34.246 1 35.036 34.536 35.536 0.78921 0 0 0 1.0073 1 15508 15508 1.1933 0 1 + 14427 15997 9268 9289 16555 16555 0.17568071704863542 KRLVIYFLLRK 11 Unmodified _KRLVIYFLLRK_ 0 0 0 REV__ENST00000348165.9_1_7:156931958-156961760:+|nuORF REV__ENST00000348165.9_1_7:156931958-156961760:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 724.974853515625 2 724.976839 1447.93913 NaN NaN NaN NaN NaN NaN NaN 42.964 1 43.234 42.734 43.734 0.27021 0 0 0 1.008 1 19612 19612 0.30703 0 1 + 14428 15516 9269 9290 16556 16556 0.2330730726675938 KRLYPDSVF 9 Unmodified _KRLYPDSVF_ 0 0 0 nc|ENSG00000077935|Q8NDV3-2|SMC1B;ENSG00000077935|ENST00000357450|SMC1B nc|ENSG00000077935|Q8NDV3-2|SMC1B nc|ENSG00000077935|Q8NDV3-2|SMC1B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.2423095703125 3 375.541475 1123.60259 2.0892 0.00078458 2.2873 0.00085899 4.3765 0.0016436 375.5423677323346 12.801 0.1363 13.108 13.023 13.159 0.30727 5 3 2 0 0 0 0.10683 1 5741 5741 8.1555 5.4203 1 244870 14429 870 9270 9291 16557 16557 0.04573718368669688 KRNPTPLL 8 Unmodified _KRNPTPLL_ 0 0 0 REV__ENSG00000114841|ENST00000420323|DNAH1 REV__ENSG00000114841|ENST00000420323|DNAH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 313.531494140625 3 313.53091 937.5709 2.035 0.00063802 0.27534 8.6327E-05 2.3103 0.00072435 313.53094374359864 14.328 0.11756 14.635 14.593 14.711 0.3069 11 4 3 0 0 0 0.31493 1 6513 6513 34.402 5.9072 1 1012800 + 14430 11333 9271 9292 16558 16558 0.09961770405368497 KRPRRRRRRRE 11 Unmodified _KRPRRRRRRRE_ 0 0 0 ENST00000367590.8_1_1:180601192-180601402:+|nuORF ENST00000367590.8_1_1:180601192-180601402:+|nuORF ENST00000367590.8_1_1:180601192-180601402:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.4324340820312 2 811.512163 1621.00977 NaN NaN NaN NaN NaN NaN NaN 104.95 1 105 104.5 105.5 0.050888 0 0 0 1.0082 1 56786 56786 0 0 1 14431 7267 9272 9293 16559 16559 0.2241083814767535 KRPRRRRRRRE 11 Unmodified _KRPRRRRRRRE_ 0 0 0 ENST00000367590.8_1_1:180601192-180601402:+|nuORF ENST00000367590.8_1_1:180601192-180601402:+|nuORF ENST00000367590.8_1_1:180601192-180601402:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 811.5149536132812 2 811.512163 1621.00977 NaN NaN NaN NaN NaN NaN NaN 63.745 1 64.402 63.902 64.902 0.65672 0 0 0 1.0082 1 29214 29214 0 0 1 14432 7267 9272 9293 16560 16560 0.2241083814767535 KRPSPRKNEQR 11 Unmodified _KRPSPRKNEQR_ 0 0 0 REV__nc|ENSG00000145041|Q9Y4B6-3|DCAF1 REV__nc|ENSG00000145041|Q9Y4B6-3|DCAF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 698.397216796875 2 698.400015 1394.78548 NaN NaN NaN NaN NaN NaN NaN 102.54 1 102.54 102.04 103.04 0 0 0 0 1.0063 1 56601 56601 2.4985 1.169 1 + 14433 12423 9273 9294 16561 16561 0.10387665483176534 KRQGARAA 8 Unmodified _KRQGARAA_ 0 0 0 REV__ENSG00000204659|ENST00000376974|CBY3 REV__ENSG00000204659|ENST00000376974|CBY3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 429.2583923339844 2 429.256843 856.499132 2.4249 0.0010409 -0.25893 -0.00011115 2.166 0.00092976 429.25670948219226 72.547 0.25431 73.211 73.06 73.314 0.66398 62 33 2 0 0 0 0.71384 1 33247 33247 4.756 4.756 1 2533600 + 14434 14435 9274 9295 16562 16562 0.06514275771507982 KRQKRQRPVI 10 Unmodified _KRQKRQRPVI_ 0 0 0 REV__nc|ENSG00000133958|Q9P2D8-2|UNC79 REV__nc|ENSG00000133958|Q9P2D8-2|UNC79 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.2035217285156 4 327.963832 1307.82622 2.5567 0.00083851 -2.8341 -0.0009295 -0.27743 -9.0989E-05 328.21291870347056 48.187 0.30771 48.449 48.289 48.597 0.26209 23 12 4 0 0 0 0.93503 1 22001 22001 1.9064 0.31409 1 1313500 + 14435 11948 9275 9296 16563 16563 0.1846205159345118 KRQKRRRRRRR 11 Unmodified _KRQKRRRRRRR_ 0 0 0 REV__TSPYL2|p.D585Gfs*41|1|0.04|ENSG00000184205|chrX:53086145-53086146|-/GTTTC|frameshift_variant REV__TSPYL2|p.D585Gfs*41|1|0.04|ENSG00000184205|chrX:53086145-53086146|-/GTTTC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 826.5400390625 2 826.541255 1651.06796 NaN NaN NaN NaN NaN NaN NaN 82.969 1 83.014 82.514 83.514 0.045006 0 0 0 1.0082 1 41058 41058 0 0 1 + 14436 13961 9276 9297 16564 16564 0.2684651979291175 KRQLPGRLPMK 11 Unmodified _KRQLPGRLPMK_ 0 0 0 REV__ENSG00000198042|ENST00000360128|MAK16 REV__ENSG00000198042|ENST00000360128|MAK16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.7071533203125 4 331.7065 1322.79689 2.6641 0.0008837 0.27325 9.064E-05 2.9374 0.00097434 331.7065386707902 54.008 0.71559 54.008 53.676 54.391 0 131 52 3 0 0 0 0.91068 1 24688 24688 0.45452 0 1 2968000 + 14437 14316 9277 9298 16565 16565 0.1484077125294334 KRQLYGIWWKL 11 Unmodified _KRQLYGIWWKL_ 0 0 0 REV__ENST00000513825.1_1_5:14601096-14602296:+|nuORF REV__ENST00000513825.1_1_5:14601096-14602296:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 745.9370727539062 2 745.935171 1489.85579 NaN NaN NaN NaN NaN NaN NaN 42.24 1 42.511 42.011 43.011 0.27021 0 0 0 1.0072 1 19263 19263 1.3295 1.0605 1 + 14438 12446 9278 9299 16566 16566 0.1304557081891744 KRQPSLPI 8 Unmodified _KRQPSLPI_ 0 0 0 REV__ENST00000607016.1_1_6:34253433-34253520:-|nuORF REV__ENST00000607016.1_1_6:34253433-34253520:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 313.53155517578125 3 313.53091 937.5709 2.2151 0.00069451 0.50397 0.00015801 2.7191 0.00085252 313.53102895782416 14.356 0.16001 15.004 14.944 15.104 0.6482 19 14 2 0 0 0 0.36624 1 6449 6449 30.637 0 1 1693400 + 14439 17669 9279 9300 16567 16567 0.09961770405368497 KRQRRRLQLIP 11 Unmodified _KRQRRRLQLIP_ 0 0 0 REV__ENST00000564508.2_1_16:72460469-72460685:+|nuORF REV__ENST00000564508.2_1_16:72460469-72460685:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 732.4752807617188 2 732.473318 1462.93208 NaN NaN NaN NaN NaN NaN NaN 93.594 1 93.68 93.18 94.18 0.086212 0 0 0 1.0082 1 49069 49069 0 0 1 + 14440 17401 9280 9301 16568 16568 0.21913387438939935 KRQTRRRRRWC 11 Unmodified _KRQTRRRRRWC_ 0 0 0 ENST00000356865.10_1_15:25962031-25966812:-|nuORF ENST00000356865.10_1_15:25962031-25966812:-|nuORF ENST00000356865.10_1_15:25962031-25966812:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 801.4615478515625 2 801.46075 1600.90695 NaN NaN NaN NaN NaN NaN NaN 84.235 1 84.235 83.735 84.735 0 0 0 0 1.0082 1 42604 42604 0 0 1 14441 7165 9281 9302 16569 16569 0.13053009364716672 KRREKSKRELL 11 Unmodified _KRREKSKRELL_ 0 0 0 nc|ENSG00000120616|Q9H2F5-3|EPC1;ENSG00000120616|ENST00000319778|EPC1;nc|ENSG00000120616|Q9H2F5|EPC1;ENST00000495790.1_1_10:32581422-32635732:-|nuORF nc|ENSG00000120616|Q9H2F5-3|EPC1 nc|ENSG00000120616|Q9H2F5-3|EPC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 721.9495849609375 2 721.949341 1441.88413 NaN NaN NaN NaN NaN NaN NaN 52.087 1 52.898 52.398 53.398 0.81065 0 0 0 1.0082 1 23729 23729 0 0 1 14442 2198 9282 9303 16570 16570 0.18086268728256982 KRRERELRRKH 11 Unmodified _KRRERELRRKH_ 0 0 0 ENSG00000160551|ENST00000261716|TAOK1;ENST00000578653.1_1_17:27849339-27857712:+|nuORF ENSG00000160551|ENST00000261716|TAOK1 ENSG00000160551|ENST00000261716|TAOK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.9868774414062 3 521.985346 1562.93421 4.2151 0.0022002 -0.90393 -0.00047184 3.3112 0.0017284 521.9848109311848 106.2 0.14741 106.51 106.43 106.58 0.31628 12 4 4 0 0 0 0.91489 1 49025 49025 0 0 1 980600 14443 4063 9283 9304 16571 16571 0.17525816176703302 KRRERELRRKH 11 Unmodified _KRRERELRRKH_ 0 0 0 ENSG00000160551|ENST00000261716|TAOK1;ENST00000578653.1_1_17:27849339-27857712:+|nuORF ENSG00000160551|ENST00000261716|TAOK1 ENSG00000160551|ENST00000261716|TAOK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.9872436523438 3 521.985346 1562.93421 3.562 0.0018593 -0.23919 -0.00012485 3.3228 0.0017345 521.9848627836919 106.19 0.16068 106.79 106.68 106.84 0.59969 10 4 3 0 0 0 0.91489 1 49052 49052 0 0 1 972820 14444 4063 9283 9304 16572 16572 0.17525816176703302 KRRGWLMIK 9 Unmodified _KRRGWLMIK_ 0 0 0 ENST00000559160.1_2_15:59280096-59296221:+|nuORF;ENST00000348370.8_1_15:59280096-59323038:+|nuORF ENST00000559160.1_2_15:59280096-59296221:+|nuORF ENST00000559160.1_2_15:59280096-59296221:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 594.3638916015625 2 594.363327 1186.7121 NaN NaN NaN NaN NaN NaN NaN 101.87 1 102.19 101.69 102.69 0.31737 0 0 0 0.91238 1 47132 47132 0.52476 0 1 14445 7127 9284 9305 16573 16573 0.12621445506988493 KRRHDRENEEM 11 Unmodified _KRRHDRENEEM_ 0 0 0 REV__nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 REV__nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.57562255859375 3 500.575912 1498.70591 NaN NaN NaN NaN NaN NaN NaN 86.555 1 86.555 86.055 87.055 0 0 0 0 1.0073 1 44401 44401 0.40827 0 1 + 14446 11720 9285 9306 16574 16574 -0.023497692531009307 KRRLRLYKHL 10 Unmodified _KRRLRLYKHL_ 0 0 0 ENST00000509910.1_1_5:115167175-115167292:-|nuORF ENST00000509910.1_1_5:115167175-115167292:-|nuORF ENST00000509910.1_1_5:115167175-115167292:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 691.9367065429688 2 691.946405 1381.87826 NaN NaN NaN NaN NaN NaN NaN 92.356 1 92.356 91.856 92.856 0 0 0 0 1.0015 1 49053 49053 0.45834 0.057624 1 14447 8548 9286 9307 16575 16575 0.2025921500721779 KRRNFYSKQY 10 Unmodified _KRRNFYSKQY_ 0 0 0 ZBTB49|p.L216R|1|0.3|ENSG00000168826|chr4:4302483-4302483|T/G|missense_variant ZBTB49|p.L216R|1|0.3|ENSG00000168826|chr4:4302483-4302483|T/G|missense_variant ZBTB49|p.L216R|1|0.3|ENSG00000168826|chr4:4302483-4302483|T/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 695.3734741210938 2 695.372935 1388.73132 NaN NaN NaN NaN NaN NaN NaN 26.362 1 26.987 26.487 27.487 0.62505 0 0 0 1.0015 1 12086 12086 0.40072 0 1 14448 18292 9287 9308 16576 16576 0.052500733316264814 KRRPRRRPRRW 11 Unmodified _KRRPRRRPRRW_ 0 0 0 ENST00000251102.12_1_16:57965650-57974178:-|nuORF ENST00000251102.12_1_16:57965650-57974178:-|nuORF ENST00000251102.12_1_16:57965650-57974178:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 810.5115966796875 2 810.506349 1618.99815 NaN NaN NaN NaN NaN NaN NaN 94.089 1 94.089 93.589 94.589 0 0 0 0 1.0082 1 50375 50375 0 0 1 14449 6501 9288 9309 16577 16577 0.2134064112433407 KRRPVTLI 8 Unmodified _KRRPVTLI_ 0 0 0 REV__ENST00000498979.6_1_11:119252535-119369460:+|nuORF REV__ENST00000498979.6_1_11:119252535-119369460:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 329.2229919433594 3 328.222188 981.644734 1.6395 0.00053813 0.045453 1.4919E-05 1.685 0.00055305 328.2223459693157 12.561 0.30248 12.868 12.72 13.023 0.30727 46 11 6 0 0 0 0.52517 1 5709 5709 14.838 0 1 244340000 + 14450 16876 9289 9310 16578 16578 0.15317738567716788 KRRRERNQEIL 11 Unmodified _KRRRERNQEIL_ 0 0 0 REV__ENSG00000126351|ENST00000450525|THRA REV__ENSG00000126351|ENST00000450525|THRA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.9635009765625 3 499.962207 1496.86479 NaN NaN NaN NaN NaN NaN NaN 76.16 1 76.16 75.66 76.66 0 0 0 0 1.0079 1 37322 37322 0.50596 0 1 + 14451 11708 9290 9311 16579 16579 0.1362331243733479 KRRRFVWTFWR 11 Unmodified _KRRRFVWTFWR_ 0 0 0 ENST00000479578.5_1_1:110198981-110200495:+|nuORF ENST00000479578.5_1_1:110198981-110200495:+|nuORF ENST00000479578.5_1_1:110198981-110200495:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 819.4681396484375 2 819.468035 1636.92152 NaN NaN NaN NaN NaN NaN NaN 64.742 1 65.457 64.957 65.957 0.71521 0 0 0 1.0082 1 30516 30516 0 0 1 14452 8264 9291 9312 16580 16580 0.12853404784482336 KRRRFWIEFRL 11 Unmodified _KRRRFWIEFRL_ 0 0 0 REV__ENST00000563969.5_1_16:67314567-67322708:+|nuORF REV__ENST00000563969.5_1_16:67314567-67322708:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 322.6921691894531 5 322.194643 1605.93683 2.1518 0.0006933 2.286 0.00073655 4.4378 0.0014298 322.19536668789715 52.784 0.16887 52.784 52.689 52.857 0 21 11 2 0 0 0 0.13295 1 24196 24196 0 0 1 859750 + 14453 14190 9292 9313 16581 16581 0.15810271581676716 KRRRFWIEFRL 11 Unmodified _KRRRFWIEFRL_ 0 0 0 REV__ENST00000563969.5_1_16:67314567-67322708:+|nuORF REV__ENST00000563969.5_1_16:67314567-67322708:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 402.49273681640625 4 402.491485 1605.93683 2.3329 0.00093896 1.4186 0.00057098 3.7515 0.0015099 402.4919656137882 50.99 0.17049 51.808 51.667 51.838 0.81738 14 9 2 0 0 0 0.91489 1 23234 23234 0 0 1 1712700 + 14454 14190 9292 9313 16582 16582 0.15810271581676716 KRRRFWIEFRL 11 Unmodified _KRRRFWIEFRL_ 0 0 0 REV__ENST00000563969.5_1_16:67314567-67322708:+|nuORF REV__ENST00000563969.5_1_16:67314567-67322708:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 402.491485 1605.93683 2.697 0.0010855 1.7174 0.00069122 4.4143 0.0017767 402.4920407087177 51.854 0.24133 51.854 51.614 51.856 0 -0.057714 0.000556 NaN 0 30 17 2 NaN NaN NaN NaN 0 NaN NaN 0 855600 + 14455 14190 9292 9313 0.15810271581676716 KRRRFWIEFRL 11 Unmodified _KRRRFWIEFRL_ 0 0 0 REV__ENST00000563969.5_1_16:67314567-67322708:+|nuORF REV__ENST00000563969.5_1_16:67314567-67322708:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 402.491485 1605.93683 2.8679 0.0011543 1.28 0.00051517 4.1479 0.0016695 402.7428876554907 51.823 0.6516 52.086 51.707 52.359 0.26228 0.17426 -0.00014821 NaN 0 63 46 2 NaN NaN NaN NaN 0 NaN NaN 0 969640 + 14456 14190 9292 9313 0.15810271581676716 KRRRFWIEFRL 11 Unmodified _KRRRFWIEFRL_ 0 0 0 REV__ENST00000563969.5_1_16:67314567-67322708:+|nuORF REV__ENST00000563969.5_1_16:67314567-67322708:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 402.491485 1605.93683 2.7584 0.0011102 1.1773 0.00047384 3.9356 0.0015841 402.4917868359107 51.239 0.56989 51.899 51.69 52.26 0.65956 -0.01281 -0.00031355 NaN 0 64 37 2 NaN NaN NaN NaN 0 NaN NaN 0 916900 + 14457 14190 9292 9313 0.15810271581676716 KRRRHRIIHLL 11 Unmodified _KRRRHRIIHLL_ 0 0 0 REV__ENST00000593209.5_2_17:40340836-40341070:-|nuORF REV__ENST00000593209.5_2_17:40340836-40341070:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 749.4903564453125 2 749.489302 1496.96405 NaN NaN NaN NaN NaN NaN NaN 70.901 1 70.901 70.401 71.401 0 0 0 0 1.0082 1 34447 34447 0 0 1 + 14458 17599 9293 9314 16583 16583 0.23544799912747294 KRRRHRTTRKI 11 Unmodified _KRRRHRTTRKI_ 0 0 0 GPR78|p.A239T|1|0.13|ENSG00000155269|chr4:8582577-8582577|G/A|missense_variant GPR78|p.A239T|1|0.13|ENSG00000155269|chr4:8582577-8582577|G/A|missense_variant GPR78|p.A239T|1|0.13|ENSG00000155269|chr4:8582577-8582577|G/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 754.4807739257812 2 754.479466 1506.94438 NaN NaN NaN NaN NaN NaN NaN 90.648 1 90.9 90.4 91.4 0.25163 0 0 0 1.008 1 41683 41683 0.30703 0.30703 1 14459 9366 9294 9315 16584 16584 0.21118423901953065 KRRRKKKKKHH 11 Unmodified _KRRRKKKKKHH_ 0 0 0 nc|ENSG00000160208|Q14684-2|RRP1B;ENSG00000160208|ENST00000340648|RRP1B nc|ENSG00000160208|Q14684-2|RRP1B nc|ENSG00000160208|Q14684-2|RRP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 765.5081176757812 2 765.508026 1529.0015 NaN NaN NaN NaN NaN NaN NaN 71.049 1 71.049 70.549 71.549 0 0 0 0 1.0082 1 34521 34521 0 0 1 14460 4047 9295 9316 16585 16585 0.25815891178331185 KRRRKLLVLVP 11 Unmodified _KRRRKLLVLVP_ 0 0 0 ENST00000444704.5_1_12:6761840-6762457:-|nuORF;ENST00000446105.6_1_12:6761840-6762457:-|nuORF ENST00000444704.5_1_12:6761840-6762457:-|nuORF ENST00000444704.5_1_12:6761840-6762457:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 689.4822387695312 2 689.48008 1376.94561 NaN NaN NaN NaN NaN NaN NaN 97.499 1 98.101 97.601 98.601 0.6019 0 0 0 1.008 1 44837 44837 0.35063 0 1 14461 7961 9296 9317 16586 16586 0.27221245218152035 KRRRNRCQFCR 11 Unmodified _KRRRNRCQFCR_ 0 0 0 ENST00000564201.1_1_12:52449819-52450295:+|nuORF;ENST00000550557.1_1_12:52449819-52449978:+|nuORF;ENST00000550339.1_1_12:52449819-52450525:+|nuORF;ENSG00000123358|ENST00000394825|NR4A1;nc|ENSG00000123358|P22736-2|NR4A1 ENST00000564201.1_1_12:52449819-52450295:+|nuORF ENST00000564201.1_1_12:52449819-52450295:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1523.0626220703125 1 1522.80665 1521.79937 3.3442 0.0050925 0.52703 0.00080257 3.8712 0.0058951 1522.8118995156588 34.909 0.23627 35.532 35.445 35.681 0.62294 24 21 2 0 0 0 0.13295 1 15970 15970 0 0 1 3467300 14462 2307 9297 9318 16587 16587 0.05934296438954334 KRRRPRYRK 9 Unmodified _KRRRPRYRK_ 0 0 0 nc|ENSG00000165288|Q6RI45-3|BRWD3;nc|ENSG00000165288|Q6RI45-4|BRWD3;nc|ENSG00000165288|Q6RI45-2|BRWD3;ENSG00000165288|ENST00000373275|BRWD3 nc|ENSG00000165288|Q6RI45-3|BRWD3 nc|ENSG00000165288|Q6RI45-3|BRWD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 439.2811584472656 3 439.281323 1314.82214 NaN NaN NaN NaN NaN NaN NaN 68.635 1 68.635 68.135 69.135 0 0 0 0 0.91014 1 33061 33061 1.0715 0.3738 1 14463 4387 9298 9319 16588 16588 0.17732006890400953 KRRRPRYRK 9 Unmodified _KRRRPRYRK_ 0 0 0 nc|ENSG00000165288|Q6RI45-3|BRWD3;nc|ENSG00000165288|Q6RI45-4|BRWD3;nc|ENSG00000165288|Q6RI45-2|BRWD3;ENSG00000165288|ENST00000373275|BRWD3 nc|ENSG00000165288|Q6RI45-3|BRWD3 nc|ENSG00000165288|Q6RI45-3|BRWD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 439.64227294921875 3 439.281323 1314.82214 NaN NaN NaN NaN NaN NaN NaN 68.34 1 69.042 68.542 69.542 0.70218 0 0 0 0.90228 1 32577 32577 2.9952 1.253 1 14464 4387 9298 9319 16589 16589 0.17732006890400953 KRRRPRYRKRL 11 Unmodified _KRRRPRYRKRL_ 0 0 0 nc|ENSG00000165288|Q6RI45-3|BRWD3;nc|ENSG00000165288|Q6RI45-4|BRWD3;nc|ENSG00000165288|Q6RI45-2|BRWD3;ENSG00000165288|ENST00000373275|BRWD3 nc|ENSG00000165288|Q6RI45-3|BRWD3 nc|ENSG00000165288|Q6RI45-3|BRWD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.0118408203125 3 529.009714 1584.00731 NaN NaN NaN NaN NaN NaN NaN 75.073 1 75.737 75.237 76.237 0.6635 0 0 0 1.0082 1 36338 36338 0 0 1 14465 4387 9299 9320 16590 16590 0.23866989690009177 KRRRQEWERQY 11 Unmodified _KRRRQEWERQY_ 0 0 0 ENSG00000159450|ENST00000614923|TCHH ENSG00000159450|ENST00000614923|TCHH ENSG00000159450|ENST00000614923|TCHH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1635.866943359375 1 1634.86223 1633.85495 3.4885 0.0057031 0.40555 0.00066302 3.894 0.0063662 1635.8631425754006 42.133 0.040089 42.78 42.773 42.813 0.64693 6 5 2 0 0 0 0.91489 1 19298 19298 0 0 1 3512400 14466 4025 9300 9321 16591 16591 0.06338124431954384 KRRRQRLTRRP 11 Unmodified _KRRRQRLTRRP_ 0 0 0 REV__ENST00000360342.7_1_20:3148478-3154166:-|nuORF REV__ENST00000360342.7_1_20:3148478-3154166:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 305.1023864746094 5 305.398332 1521.95528 2.3802 0.0007269 0.10898 3.3283E-05 2.4891 0.00076018 305.39815782525784 40.028 0.19546 40.67 40.548 40.743 0.64135 9 6 2 0 0 0 0.13295 1 18253 18253 0.073264 0.0088572 1 456250 + 14467 15607 9301 9322 16592 16592 0.21517826276249252 KRRRRARRRRC 11 Unmodified _KRRRRARRRRC_ 0 0 0 REV__ENST00000585362.6_3_19:1104424-1105401:+|nuORF REV__ENST00000585362.6_3_19:1104424-1105401:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 785.4877319335938 2 785.487634 1568.96071 NaN NaN NaN NaN NaN NaN NaN 93.722 1 93.977 93.477 94.477 0.25497 0 0 0 1.0082 1 43075 43075 0 0 1 + 14468 17535 9302 9323 16593 16593 0.19899226587062913 KRRRRRQLINR 11 Unmodified _KRRRRRQLINR_ 0 0 0 REV__ENST00000380888.4_1_20:29521812-29522016:-|nuORF REV__ENST00000380888.4_1_20:29521812-29522016:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 388.75396728515625 4 388.752733 1550.98183 2.9375 0.0011419 0.10473 4.0713E-05 3.0422 0.0011827 389.00360739570266 39.42 0.36841 40.058 39.806 40.174 0.63778 28 13 3 0 0 0 0.91459 1 18024 18024 0.094841 0.011491 1 796850 + 14469 15887 9303 9324 16594 16594 0.22837515167589117 KRRRRRRQRPV 11 Unmodified _KRRRRRRQRPV_ 0 0 0 REV__ENSG00000171316|ENST00000423902|CHD7 REV__ENSG00000171316|ENST00000423902|CHD7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 782.5057983398438 2 782.503807 1562.99306 NaN NaN NaN NaN NaN NaN NaN 78.981 1 78.981 78.481 79.481 0 0 0 0 1.008 1 38942 38942 0.35063 0.35063 1 + 14470 13488 9304 9325 16595 16595 0.23408337261707857 KRRRRRRRRRS 11 Unmodified _KRRRRRRRRRS_ 0 0 0 REV__TSPYL2|p.D585Gfs*41|1|0.04|ENSG00000184205|chrX:53086145-53086146|-/GTTTC|frameshift_variant REV__TSPYL2|p.D585Gfs*41|1|0.04|ENSG00000184205|chrX:53086145-53086146|-/GTTTC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 820.03271484375 2 820.031054 1638.04756 NaN NaN NaN NaN NaN NaN NaN 85.583 1 85.612 85.112 86.112 0.028603 0 0 0 1.0082 1 42874 42874 0 0 1 + 14471 13961 9305 9326 16596 16596 0.2540534913312058 KRRRRRRRRRS 11 Unmodified _KRRRRRRRRRS_ 0 0 0 REV__TSPYL2|p.D585Gfs*41|1|0.04|ENSG00000184205|chrX:53086145-53086146|-/GTTTC|frameshift_variant REV__TSPYL2|p.D585Gfs*41|1|0.04|ENSG00000184205|chrX:53086145-53086146|-/GTTTC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 820.03271484375 2 820.031054 1638.04756 NaN NaN NaN NaN NaN NaN NaN 83.839 1 84.502 84.002 85.002 0.66219 0 0 0 1.0082 1 38617 38617 0 0 1 + 14472 13961 9305 9326 16597 16597 0.2540534913312058 KRRRRRSRKWR 11 Unmodified _KRRRRRSRKWR_ 0 0 0 ENST00000403909.2_1_6:139660476-139660551:+|nuORF ENST00000403909.2_1_6:139660476-139660551:+|nuORF ENST00000403909.2_1_6:139660476-139660551:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 821.0189819335938 2 821.017081 1640.01961 NaN NaN NaN NaN NaN NaN NaN 52.292 1 52.554 52.054 53.054 0.26227 0 0 0 1.0082 1 23905 23905 0 0 1 14473 7625 9306 9327 16598 16598 0.2252002615305173 KRRRRSQAH 9 Unmodified _KRRRRSQAH_ 0 0 0 REV__ENSG00000188089|ENST00000696112|PLA2G4E REV__ENSG00000188089|ENST00000696112|PLA2G4E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.8592529296875 2 597.855578 1193.6966 4.1819 0.0025002 1.0971 0.00065593 5.2791 0.0031561 597.856047462573 87.599 1.5253 88.275 87.488 89.013 0.67554 152 70 4 0 0 0 1.1412 2 40662 40237;40662 1.6526 0 1 3695000 + 14474 14131 9307 9328 16599;16600 16600 0.10750295034176816 KRRRWRYSLER 11 Unmodified _KRRRWRYSLER_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.3135986328125 3 535.97808 1604.91241 3.06 0.0016401 0.94406 0.000506 4.004 0.0021461 535.9785502041875 46.302 0.33491 46.568 46.368 46.703 0.26561 45 13 4 0 0 0 0.91391 1 21125 21125 0.08335 0.08335 1 2502100 14475 7869 9308 9329 16601 16601 0.13415011428151047 KRRRWRYSLER 11 Unmodified _KRRRWRYSLER_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 535.97808 1604.91241 2.8882 0.001548 1.3548 0.00072612 4.243 0.0022741 535.9788314507817 46.563 0.29718 46.563 46.407 46.704 0 0.083459 0.00067848 NaN 0.08335 39 12 4 NaN NaN NaN NaN 0 NaN NaN 0 4821000 14476 7869 9308 9329 0.13415011428151047 KRRRWRYSLER 11 Unmodified _KRRRWRYSLER_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 535.97808 1604.91241 3.061 0.0016406 0.93938 0.00050349 4.0004 0.0021441 535.978515448931 45.618 0.3285 46.444 46.256 46.585 0.82621 -0.035609 1.0579E-05 NaN 0.08335 56 17 4 NaN NaN NaN NaN 0 NaN NaN 0 2920700 14477 7869 9308 9329 0.13415011428151047 KRRRWRYSLER 11 Unmodified _KRRRWRYSLER_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 535.97808 1604.91241 3.06 0.0016401 0.94406 0.000506 4.004 0.0021461 535.9785502041875 46.302 0.33491 46.568 46.368 46.703 0.26561 0.087809 1.8105E-05 NaN 0.08335 45 13 4 NaN NaN NaN NaN 0 NaN NaN 0 2502100 14478 7869 9308 9329 0.13415011428151047 KRRRWWLLLLC 11 Unmodified _KRRRWWLLLLC_ 0 0 0 REV__ENSG00000121716|ENST00000609309|PILRB REV__ENSG00000121716|ENST00000609309|PILRB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.0281372070312 3 514.978252 1541.91293 NaN NaN NaN NaN NaN NaN NaN 84.777 1 84.777 84.277 85.277 0 0 0 0 1.0079 1 43000 43000 0.50596 0.09769 1 + 14479 11561 9309 9330 16602 16602 0.16364714823680515 KRRSLRLYA 9 Unmodified _KRRSLRLYA_ 0 0 0 nc|ENSG00000196557|O95180-2|CACNA1H;ENSG00000196557|ENST00000348261|CACNA1H;CACNA1H|p.K1089Rfs*255|1|0.31|ENSG00000196557|chr16:1208118-1208118|C/-|frameshift_variant nc|ENSG00000196557|O95180-2|CACNA1H nc|ENSG00000196557|O95180-2|CACNA1H MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 388.5458068847656 3 388.243763 1161.70946 NaN NaN NaN NaN NaN NaN NaN 56.967 1 57.232 56.732 57.732 0.26444 0 0 0 0.90431 1 26068 26068 2.4985 0.21571 1 14480 9799 9310 9331 16603 16603 0.13507313373725083 KRRVFKKWKW 10 Unmodified _KRRVFKKWKW_ 0 0 0 REV__ENST00000429378.5_3_16:242971-256079:-|nuORF REV__ENST00000429378.5_3_16:242971-256079:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 731.45166015625 2 731.451323 1460.88809 NaN NaN NaN NaN NaN NaN NaN 49.57 1 50.228 49.728 50.728 0.65735 0 0 0 1.002 1 22675 22675 0 0 1 + 14481 16240 9311 9332 16604 16604 0.1760840301258213 KRRVKQWPHVL 11 Unmodified _KRRVKQWPHVL_ 0 0 0 REV__ENST00000382874.6_1_13:20532894-20567237:+|nuORF REV__ENST00000382874.6_1_13:20532894-20567237:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 723.9447021484375 2 723.943862 1445.87317 NaN NaN NaN NaN NaN NaN NaN 61.398 1 62.138 61.638 62.638 0.7396 0 0 0 1.008 1 28465 28465 0.35063 0 1 + 14482 15898 9312 9333 16605 16605 0.1680691114459023 KRRWLKILTRK 11 Unmodified _KRRWLKILTRK_ 0 0 0 REV__ENSG00000170683|ENST00000642047|OR10A3 REV__ENSG00000170683|ENST00000642047|OR10A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 749.3609008789062 2 749.496262 1496.97797 NaN NaN NaN NaN NaN NaN NaN 84.514 1 84.514 84.014 85.014 0 0 0 0 1.0082 1 42801 42801 0 0 1 + 14483 13445 9313 9334 16606 16606 0.24936032621144477 KRRWRLLAR 9 Unmodified _KRRWRLLAR_ 0 0 0 ENST00000370577.7_2_6:70506739-70506790:-|nuORF ENST00000370577.7_2_6:70506739-70506790:-|nuORF ENST00000370577.7_2_6:70506739-70506790:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 627.9073486328125 2 627.90454 1253.79453 NaN NaN NaN NaN NaN NaN NaN 47.632 1 47.632 47.132 48.132 0 0 0 0 0.91238 1 21809 21809 0.52476 0.066424 1 14484 7304 9314 9335 16607 16607 0.17778103630166697 KRSHRHVV 8 Unmodified _KRSHRHVV_ 0 0 0 REV__ENST00000459699.1_1_7:99779095-99787070:+|nuORF REV__ENST00000459699.1_1_7:99779095-99787070:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.8057861328125 2 509.804491 1017.59443 3.5331 0.0018012 -0.87189 -0.00044449 2.6613 0.0013567 509.8038555006596 94.286 0.4293 94.904 94.677 95.106 0.61736 69 25 4 0 0 0 0.74709 1 43385 43385 2.0598 1.2661 1 1919800 + 14485 10445 9315 9336 16608 16608 0.08633628962559214 KRSHYLQRL 9 Unmodified _KRSHYLQRL_ 0 0 0 L1PB2_dup662|chr4:69045538-69047075:-|8.226746573817685|0.3974588987332585|4.37|541.0|45|3|sense L1PB2_dup662|chr4:69045538-69047075:-|8.226746573817685|0.3974588987332585|4.37|541.0|45|3|sense L1PB2_dup662|chr4:69045538-69047075:-|8.226746573817685|0.3974588987332585|4.37|541.0|45|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 400.9034423828125 3 400.903518 1199.68872 NaN NaN NaN NaN NaN NaN NaN 25.438 1 25.438 24.938 25.938 0 0 0 0 0.31736 1 11422 11422 26.268 10.53 1 14486 9484 9316 9337 16609 16609 0.09686722994024421 KRSPLLGII 9 Unmodified _KRSPLLGII_ 0 0 0 REV__ENST00000608317.1_1_7:154795649-154795937:+|nuORF REV__ENST00000608317.1_1_7:154795649-154795937:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 332.89105224609375 3 332.890327 995.649151 2.3405 0.00077913 0.70922 0.00023609 3.0497 0.0010152 332.8904478723734 37.632 0.71721 37.632 37.378 38.096 0 54 27 4 0 0 0 0.21008 1 17088 17088 27.223 6.8087 1 2809700 + 14487 17677 9317 9338 16610 16610 0.15115202990614307 KRSPLLGII 9 Unmodified _KRSPLLGII_ 0 0 0 REV__ENST00000608317.1_1_7:154795649-154795937:+|nuORF REV__ENST00000608317.1_1_7:154795649-154795937:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 332.8911437988281 3 332.890327 995.649151 2.346 0.00078095 0.3901 0.00012986 2.7361 0.00091081 332.8903785480255 36.575 0.72115 37.368 36.927 37.648 0.79342 75 33 4 0 0 0 0.086415 1 16537 16537 27.223 4.5652 1 2103500 + 14488 17677 9317 9338 16611 16611 0.15115202990614307 KRSPLLGII 9 Unmodified _KRSPLLGII_ 0 0 0 REV__ENST00000608317.1_1_7:154795649-154795937:+|nuORF REV__ENST00000608317.1_1_7:154795649-154795937:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 332.89129638671875 3 332.890327 995.649151 2.5667 0.00085442 0.39521 0.00013156 2.9619 0.00098598 332.8904020872697 37.358 0.53959 37.619 37.383 37.923 0.26083 44 16 4 0 0 0 0.057744 2 17002 17002;17059 33.445 7.1825 1 7224000 + 14489 17677 9317 9338 16612;16613 16612 0.15115202990614307 KRSPLLGII 9 Unmodified _KRSPLLGII_ 0 0 0 REV__ENST00000608317.1_1_7:154795649-154795937:+|nuORF REV__ENST00000608317.1_1_7:154795649-154795937:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.8912353515625 3 332.890327 995.649151 2.3598 0.00078554 0.60605 0.00020175 2.9658 0.00098729 332.8905030442319 36.679 0.67571 37.309 37.077 37.752 0.62999 78 27 4 0 0 0 0.071101 1 16755 16755 29.841 0 1 4811900 + 14490 17677 9317 9338 16614 16614 0.15115202990614307 KRSPLLGII 9 Unmodified _KRSPLLGII_ 0 0 0 REV__ENST00000608317.1_1_7:154795649-154795937:+|nuORF REV__ENST00000608317.1_1_7:154795649-154795937:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 332.890327 995.649151 2.3405 0.00077913 0.70922 0.00023609 3.0497 0.0010152 332.8904478723734 37.632 0.71721 37.632 37.378 38.096 0 0.15011 0.00019313 NaN 33.445 54 27 4 NaN NaN NaN NaN 0 NaN NaN 0 2809700 + 14491 17677 9317 9338 0.15115202990614307 KRSPLLGII 9 Unmodified _KRSPLLGII_ 0 0 0 REV__ENST00000608317.1_1_7:154795649-154795937:+|nuORF REV__ENST00000608317.1_1_7:154795649-154795937:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 332.890327 995.649151 2.5667 0.00085442 0.39521 0.00013156 2.9619 0.00098598 332.8904020872697 37.358 0.53959 37.619 37.383 37.923 0.26083 0.1365 -0.00012045 NaN 33.445 44 16 4 NaN NaN NaN NaN 0 NaN NaN 0 7224000 + 14492 17677 9317 9338 0.15115202990614307 KRSRHTTVCAG 11 Unmodified _KRSRHTTVCAG_ 0 0 0 ENST00000347404.9_1_12:88974054-88974564:-|nuORF ENST00000347404.9_1_12:88974054-88974564:-|nuORF ENST00000347404.9_1_12:88974054-88974564:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.88568115234375 3 405.884017 1214.63022 2.7044 0.0010977 0.82326 0.00033415 3.5276 0.0014318 405.88415011981533 72.779 0.29987 73.037 72.923 73.223 0.25876 63 26 3 0 0 0 0.89844 1 33463 33463 1.0136 0 1 1299900 14493 7119 9318 9339 16615 16615 0.03149298357243424 KRSRILHMALT 11 Unmodified _KRSRILHMALT_ 0 0 0 ENSG00000181830|ENST00000314134|SLC35C1 ENSG00000181830|ENST00000314134|SLC35C1 ENSG00000181830|ENST00000314134|SLC35C1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 332.4530029296875 4 332.201316 1324.77616 2.1126 0.00070181 0.83214 0.00027644 2.9447 0.00097825 332.20147249621493 46.391 1.551 46.391 45.659 47.21 0 246 74 4 0 0 0 0.91111 1 20958 20958 0.40827 0.26837 1 4924700 14494 5303 9319 9340 16616 16616 0.12676180873290832 KRSRILHMALT 11 Unmodified _KRSRILHMALT_ 0 0 0 ENSG00000181830|ENST00000314134|SLC35C1 ENSG00000181830|ENST00000314134|SLC35C1 ENSG00000181830|ENST00000314134|SLC35C1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 332.2023010253906 4 332.201316 1324.77616 2.3721 0.00078802 0.8132 0.00027015 3.1853 0.0010582 332.201514358242 45.554 1.4753 45.821 45.507 46.982 0.26768 164 58 4 0 0 0 0.91111 1 20801 20801 0.40827 0.40827 1 7435100 14495 5303 9319 9340 16617 16617 0.12676180873290832 KRSRKFIN 8 Unmodified _KRSRKFIN_ 0 0 0 REV__nc|ENSG00000117481|Q96CB9-3|NSUN4 REV__nc|ENSG00000117481|Q96CB9-3|NSUN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.2072448730469 3 350.217325 1047.63015 NaN NaN NaN NaN NaN NaN NaN 49.951 1 50.774 50.274 51.274 0.82285 0 0 0 0.99035 1 22754 22754 1.4819 0 1 + 14496 11444 9320 9341 16618 16618 0.10823666419582878 KRSRPSWP 8 Unmodified _KRSRPSWP_ 0 0 0 AluSc8_dup5967|chr5:1408001-1408339:-|1.0254959645658634|0.0176600485494751|5.86|497.0|6|3|sense;AluSc_dup26247|chr14:55143427-55143722:-|1.2034189858728572|0.0255733500930304|5.56|542.0|5|2|sense;AluSc_dup10852|chr5:139544776-139545078:-|1.275229995833378|0.0771766118031997|4.05|512.0|4|2|sense AluSc8_dup5967|chr5:1408001-1408339:-|1.0254959645658634|0.0176600485494751|5.86|497.0|6|3|sense AluSc8_dup5967|chr5:1408001-1408339:-|1.0254959645658634|0.0176600485494751|5.86|497.0|6|3|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.20440673828125 3 338.526159 1012.55665 2.3652 0.00080069 -3.0795 -0.0010425 -0.71426 -0.0002418 338.52498276112567 39.169 0.13317 39.433 39.344 39.477 0.26408 7 5 2 0 0 0 0.1426 1 17830 17830 3.2813 0.28607 1 183820 14497 31 9321 9342 16619 16619 0.05087117977086564 KRSRRRRHHH 10 Unmodified _KRSRRRRHHH_ 0 0 0 REV__ENSG00000139174|ENST00000345127|PRICKLE1 REV__ENSG00000139174|ENST00000345127|PRICKLE1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.61395263671875 3 475.947225 1424.81985 2.9867 0.0014215 0.39144 0.0001863 3.3782 0.0016078 476.2815741933443 61.314 0.46774 61.977 61.819 62.287 0.66261 38 25 2 0 0 0 0.12676 1 28066 28066 1.4551 0.12547 1 3080300 + 14498 12204 9322 9343 16620 16620 0.1244297120531428 KRTKAARKHK 10 Unmodified _KRTKAARKHK_ 0 0 0 REV__ENSG00000182095|ENST00000430969|TNRC18 REV__ENSG00000182095|ENST00000430969|TNRC18 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 408.5992431640625 3 408.598429 1222.77346 NaN NaN NaN NaN NaN NaN NaN 67.571 1 67.821 67.321 68.321 0.2501 0 0 0 1.0001 1 30953 30953 1.5923 0 1 + 14499 13870 9323 9344 16621 16621 0.17098093530626102 KRVLRRRRHTH 11 Unmodified _KRVLRRRRHTH_ 0 0 0 REV__nc|ENSG00000138119|Q9NZM1-2|MYOF REV__nc|ENSG00000138119|Q9NZM1-2|MYOF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 757.9762573242188 2 757.971808 1513.92906 NaN NaN NaN NaN NaN NaN NaN 53.919 1 53.919 53.419 54.419 0 0 0 0 1.0082 1 24722 24722 0 0 1 + 14500 12150 9324 9345 16622 16622 0.19265557104790787 KRWFKPKWKRK 11 Unmodified _KRWFKPKWKRK_ 0 0 0 REV__nc|ENSG00000133858|O60293-2|ZFC3H1 REV__nc|ENSG00000133858|O60293-2|ZFC3H1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.8470458984375 3 529.996412 1586.96741 NaN NaN NaN NaN NaN NaN NaN 60.873 1 60.873 60.373 61.373 0 0 0 0 1.0082 1 28346 28346 0 0 1 + 14501 11945 9325 9346 16623 16623 0.19740049966708284 KRWKLRYFL 9 Unmodified _KRWKLRYFL_ 0 0 0 ENSG00000274588|ENST00000611977|DGKK ENSG00000274588|ENST00000611977|DGKK ENSG00000274588|ENST00000611977|DGKK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 655.902099609375 2 655.398225 1308.7819 3.6689 0.0024046 0.23529 0.00015421 3.9042 0.0025588 655.3982104035153 49.339 0.91315 49.339 49.078 49.991 0 90 41 3 0 0 0 1.0894 1 22677 22677 4.3292 1.334 1 2065300 14502 6343 9326 9347 16624 16624 0.13985647447270821 KRWKLRYFL 9 Unmodified _KRWKLRYFL_ 0 0 0 ENSG00000274588|ENST00000611977|DGKK ENSG00000274588|ENST00000611977|DGKK ENSG00000274588|ENST00000611977|DGKK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.3997192382812 2 655.398225 1308.7819 3.624 0.0023751 0.18403 0.00012061 3.808 0.0024958 655.899770546546 51.452 0.48704 51.714 51.548 52.035 0.26227 37 26 2 0 0 0 1.1849 1 23570 23570 1.8442 0 1 1022500 14503 6343 9326 9347 16625 16625 0.13985647447270821 KRWKRKRKLK 10 Unmodified _KRWKRKRKLK_ 0 0 0 REV__NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant REV__NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 713.98486328125 2 713.983321 1425.95209 NaN NaN NaN NaN NaN NaN NaN 25.145 1 25.909 25.409 26.409 0.76356 0 0 0 1.002 1 11280 11280 0 0 1 + 14504 18186 9327 9348 16626 16626 0.25615183169520606 KRWLLGLLVPM 11 Unmodified _KRWLLGLLVPM_ 0 0 0 ENSG00000177108|ENST00000319374|ZDHHC22 ENSG00000177108|ENST00000319374|ZDHHC22 ENSG00000177108|ENST00000319374|ZDHHC22 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 442.2751159667969 3 442.609054 1324.80533 NaN NaN NaN NaN NaN NaN NaN 53.856 1 53.856 53.356 54.356 0 0 0 0 1.0059 1 24691 24691 3.0723 1.7426 1 14505 5105 9328 9349 16627 16627 0.15592325169563992 KRWRLWRRLQK 11 Unmodified _KRWRLWRRLQK_ 0 0 0 ENST00000411552.5_1_7:30498788-30515497:-|nuORF;ENST00000419799.5_1_7:30498788-30503297:-|nuORF ENST00000411552.5_1_7:30498788-30515497:-|nuORF ENST00000411552.5_1_7:30498788-30515497:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 813.4683227539062 2 813.50241 1624.99027 NaN NaN NaN NaN NaN NaN NaN 101.17 1 101.49 100.99 101.99 0.31412 0 0 0 1.0082 1 46820 46820 0 0 1 14506 7671 9329 9350 16628 16628 0.20277069084181676 KRWRQLKLRRF 11 Unmodified _KRWRQLKLRRF_ 0 0 0 REV__nc|ENSG00000141219|Q9BSJ5-3|MTNAP1 REV__nc|ENSG00000141219|Q9BSJ5-3|MTNAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 793.998291015625 2 793.99696 1585.97937 NaN NaN NaN NaN NaN NaN NaN 70.004 1 70.004 69.504 70.504 0 0 0 0 1.0082 1 33895 33895 0 0 1 + 14507 17967 9330 9351 16629 16629 0.20981666709894853 KRWRQLKLRRF 11 Unmodified _KRWRQLKLRRF_ 0 0 0 REV__nc|ENSG00000141219|Q9BSJ5-3|MTNAP1 REV__nc|ENSG00000141219|Q9BSJ5-3|MTNAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 793.9970703125 2 793.99696 1585.97937 NaN NaN NaN NaN NaN NaN NaN 94.879 1 95.139 94.639 95.639 0.25975 0 0 0 1.0082 1 43597 43597 0 0 1 + 14508 17967 9330 9351 16630 16630 0.20981666709894853 KRWRQLKLRRF 11 Unmodified _KRWRQLKLRRF_ 0 0 0 REV__nc|ENSG00000141219|Q9BSJ5-3|MTNAP1 REV__nc|ENSG00000141219|Q9BSJ5-3|MTNAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 793.9967041015625 2 793.99696 1585.97937 NaN NaN NaN NaN NaN NaN NaN 46.965 1 47.617 47.117 48.117 0.65219 0 0 0 1.0082 1 21510 21510 0 0 1 + 14509 17967 9330 9351 16631 16631 0.20981666709894853 KRWRRKDWRCL 11 Unmodified _KRWRRKDWRCL_ 0 0 0 REV__nc|ENSG00000168539|P11229-2|CHRM1 REV__nc|ENSG00000168539|P11229-2|CHRM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 801.53369140625 2 801.949153 1601.88375 NaN NaN NaN NaN NaN NaN NaN 99.909 1 99.909 99.409 100.41 0 0 0 0 1.008 1 55048 55048 0.35063 0.35063 1 + 14510 13355 9331 9352 16632 16632 0.10688570527372576 KRWRRKDWRCL 11 Unmodified _KRWRRKDWRCL_ 0 0 0 REV__nc|ENSG00000168539|P11229-2|CHRM1 REV__nc|ENSG00000168539|P11229-2|CHRM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 801.9496459960938 2 801.949153 1601.88375 NaN NaN NaN NaN NaN NaN NaN 50.04 1 50.698 50.198 51.198 0.65735 0 0 0 1.0082 1 22886 22886 0 0 1 + 14511 13355 9331 9352 16633 16633 0.10688570527372576 KRWYLIYRQF 10 Unmodified _KRWYLIYRQF_ 0 0 0 REV__ZNF277|p.C178Afs*13|1|0.16|ENSG00000198839|chr7:112318245-112318245|T/-|frameshift_variant REV__ZNF277|p.C178Afs*13|1|0.16|ENSG00000198839|chr7:112318245-112318245|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 736.90869140625 2 736.911696 1471.80884 NaN NaN NaN NaN NaN NaN NaN 86.33 1 87 86.5 87.5 0.67061 0 0 0 1.0015 1 39755 39755 0.40072 0.050084 1 + 14512 14366 9332 9353 16634 16634 0.09180711267777042 KRYKSAAV 8 Unmodified _KRYKSAAV_ 0 0 0 nc|ENSG00000168671|Q3SY77-2|UGT3A2;ENSG00000168671|ENST00000282507|UGT3A2 nc|ENSG00000168671|Q3SY77-2|UGT3A2 nc|ENSG00000168671|Q3SY77-2|UGT3A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.1969299316406 3 308.187143 921.5396 NaN NaN NaN NaN NaN NaN NaN 38.967 1 39.605 39.105 40.105 0.63778 0 0 0 0.99035 1 17814 17814 1.8442 0 1 14513 4642 9333 9354 16635 16635 0.0756919737127646 KRYLRAMYELV 11 Unmodified _KRYLRAMYELV_ 0 0 0 REV__ENSG00000186675|ENST00000373359|MAGEE2 REV__ENSG00000186675|ENST00000373359|MAGEE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 721.2894287109375 2 721.402847 1440.79114 NaN NaN NaN NaN NaN NaN NaN 107.36 1 107.68 107.18 108.18 0.31421 0 0 0 1.0073 1 49530 49530 1.1933 0 1 + 14514 14067 9334 9355 16636 16636 0.08837627950606475 KRYLVELI 8 Unmodified _KRYLVELI_ 0 0 0 REV__nc|ENSG00000150760|Q14185|DOCK1 REV__nc|ENSG00000150760|Q14185|DOCK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.21942138671875 3 345.218332 1032.63317 2.5551 0.00088206 0.15968 5.5125E-05 2.7148 0.00093718 345.21850874711356 39.828 0.34964 40.095 39.879 40.228 0.26696 24 11 3 0 0 0 0.5438 1 18136 18136 13.906 3.8321 1 837340 + 14515 12594 9335 9356 16637 16637 0.11815496753729349 KSAKRDVKK 9 Unmodified _KSAKRDVKK_ 0 0 0 REV__ENSG00000275700|ENST00000619387|AATF REV__ENSG00000275700|ENST00000619387|AATF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.3749389648438 2 530.33529 1058.65603 2.6642 0.0014129 0.31389 0.00016647 2.9781 0.0015794 530.8363780509491 89.684 0.061523 89.684 89.64 89.702 0 10 8 2 0 0 0 0.8705 1 46909 46909 6.2058 1.4498 1 9191100 + 14516 14737 9336 9357 16638 16638 0.12904515871173317 KSAKVPKA 8 Unmodified _KSAKVPKA_ 0 0 0 REV__nc|ENSG00000189060|P07305-2|H1-0 REV__nc|ENSG00000189060|P07305-2|H1-0 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.76776123046875 2 414.76872 827.522887 NaN NaN NaN NaN NaN NaN NaN 73.888 1 74.553 74.053 75.053 0.6644 0 0 0 0.99035 1 33996 33996 4.756 0 1 + 14517 14171 9337 9358 16639 16639 0.10222696485323013 KSAPDNETSKS 11 Unmodified _KSAPDNETSKS_ 0 0 0 nc|ENSG00000104218|Q1MSJ5-2|CSPP1;CSPP1|p.G1069Wfs*5|1|0.22|ENSG00000104218|chr8:67179923-67179924|-/T|frameshift_variant;nc|ENSG00000104218|Q1MSJ5-1|CSPP1;ENSG00000104218|ENST00000678616|CSPP1;nc|ENSG00000104218|Q1MSJ5|CSPP1 nc|ENSG00000104218|Q1MSJ5-2|CSPP1 nc|ENSG00000104218|Q1MSJ5-2|CSPP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.5729370117188 2 582.280574 1162.5466 NaN NaN NaN NaN NaN NaN NaN 97.814 1 98.412 97.912 98.912 0.59885 0 0 0 1.0034 1 45012 45012 6.1918 0.89496 1 14518 249 9338 9359 16640 16640 -0.028175793294849427 KSCVTKVKHL 10 Unmodified _KSCVTKVKHL_ 0 0 0 REV__ENSG00000171853|ENST00000324266|TRAPPC12 REV__ENSG00000171853|ENST00000324266|TRAPPC12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.8381958007812 2 571.839351 1141.66415 NaN NaN NaN NaN NaN NaN NaN 68.559 1 69.261 68.761 69.761 0.70218 0 0 0 0.96642 1 32693 32693 10.8 1.4164 1 + 14519 13522 9339 9360 16641 16641 0.09898326796292167 KSESHPSVY 9 Unmodified _KSESHPSVY_ 0 0 0 nc|ENSG00000204410|O43196-4|MSH5;ENSG00000204410|ENST00000375750|MSH5;nc|ENSG00000204410|O43196-2|MSH5;nc|ENSG00000204410|O43196-3|MSH5 nc|ENSG00000204410|O43196-4|MSH5 nc|ENSG00000204410|O43196-4|MSH5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.170166015625 3 345.169818 1032.48762 NaN NaN NaN NaN NaN NaN NaN 74.572 1 74.83 74.33 75.33 0.25831 0 0 0 0.89683 1 34302 34302 2.4985 0.59211 1 14520 6008 9340 9361 16642 16642 -0.027320108331196025 KSFCNALH 8 Unmodified _KSFCNALH_ 0 0 0 REV__ENSG00000188316|ENST00000341276|ENO4 REV__ENSG00000188316|ENST00000341276|ENO4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 919.2453002929688 1 919.445448 918.438172 3.3055 0.0030392 -1.6559 -0.0015226 1.6495 0.0015167 919.4444548799739 88.694 0.088615 88.694 88.663 88.752 0 17 14 2 0 0 0 0.13917 1 46074 46074 5.2307 0 1 44358000 + 14521 14141 9341 9362 16643 16643 -0.024309973229378556 KSFCNALH 8 Unmodified _KSFCNALH_ 0 0 0 REV__ENSG00000188316|ENST00000341276|ENO4 REV__ENSG00000188316|ENST00000341276|ENO4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 919.2445678710938 1 919.445448 918.438172 2.6473 0.002434 -2.3882 -0.0021958 0.25913 0.00023826 919.443884897227 89.423 0.060242 89.488 89.46 89.521 0.064346 12 8 2 0 0 0 0.13917 1 45839 45839 5.2307 0 1 13995000 + 14522 14141 9341 9362 16644 16644 -0.024309973229378556 KSFSWRADLLK 11 Unmodified _KSFSWRADLLK_ 0 0 0 ENSG00000143067|ENST00000421812|ZNF697 ENSG00000143067|ENST00000421812|ZNF697 ENSG00000143067|ENST00000421812|ZNF697 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.92510986328125 3 450.922467 1349.74557 NaN NaN NaN NaN NaN NaN NaN 20.956 1 20.956 20.456 21.456 0 0 0 0 1.0062 1 9377 9377 2.6312 0.37851 1 14523 3341 9342 9363 16645 16645 0.08468725759871631 KSGKLLAIPV 10 Unmodified _KSGKLLAIPV_ 0 0 0 nc|ENSG00000198554|O75717-2|WDHD1;ENSG00000198554|ENST00000360586|WDHD1 nc|ENSG00000198554|O75717-2|WDHD1 nc|ENSG00000198554|O75717-2|WDHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.6947021484375 2 513.33951 1024.66447 NaN NaN NaN NaN NaN NaN NaN 87.163 1 87.163 86.663 87.663 0 0 0 0 0.9952 1 44867 44867 5.7319 2.4505 1 14524 5900 9343 9364 16646 16646 0.15312069787773908 KSGTKKLKTE 10 Unmodified _KSGTKKLKTE_ 0 0 0 nc|ENSG00000126777|Q86UP2-2|KTN1;nc|ENSG00000126777|Q86UP2-3|KTN1;nc|ENSG00000126777|Q86UP2-4|KTN1;ENSG00000126777|ENST00000395314|KTN1 nc|ENSG00000126777|Q86UP2-2|KTN1 nc|ENSG00000126777|Q86UP2-2|KTN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.8968200683594 3 373.895917 1118.66592 3.569 0.0013344 -0.69882 -0.00026129 2.8702 0.0010732 373.89557730063905 98.314 0.19142 98.614 98.504 98.696 0.29987 48 18 4 0 0 0 0.93713 1 45247 45247 0.62683 0.62683 1 9453500 14525 2464 9344 9365 16647 16647 0.11133659085908221 KSGTKKLKTE 10 Unmodified _KSGTKKLKTE_ 0 0 0 nc|ENSG00000126777|Q86UP2-2|KTN1;nc|ENSG00000126777|Q86UP2-3|KTN1;nc|ENSG00000126777|Q86UP2-4|KTN1;ENSG00000126777|ENST00000395314|KTN1 nc|ENSG00000126777|Q86UP2-2|KTN1 nc|ENSG00000126777|Q86UP2-2|KTN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 373.8966979980469 3 373.895917 1118.66592 2.8739 0.0010745 -0.74297 -0.00027779 2.1309 0.00079674 373.89550651996433 98.298 0.15057 98.897 98.851 99.002 0.59885 18 12 2 0 0 0 0.93713 1 45302 45302 0.62683 0 1 2569000 14526 2464 9344 9365 16648 16648 0.11133659085908221 KSGTKKLKTE 10 Unmodified _KSGTKKLKTE_ 0 0 0 nc|ENSG00000126777|Q86UP2-2|KTN1;nc|ENSG00000126777|Q86UP2-3|KTN1;nc|ENSG00000126777|Q86UP2-4|KTN1;ENSG00000126777|ENST00000395314|KTN1 nc|ENSG00000126777|Q86UP2-2|KTN1 nc|ENSG00000126777|Q86UP2-2|KTN1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 373.895917 1118.66592 3.569 0.0013344 -0.69882 -0.00026129 2.8702 0.0010732 373.89557730063905 98.314 0.19142 98.614 98.504 98.696 0.29987 -0.038988 -4.879E-05 NaN 0.62683 48 18 4 NaN NaN NaN NaN 0 NaN NaN 0 9453500 14527 2464 9344 9365 0.11133659085908221 KSGTKKLKTE 10 Unmodified _KSGTKKLKTE_ 0 0 0 nc|ENSG00000126777|Q86UP2-2|KTN1;nc|ENSG00000126777|Q86UP2-3|KTN1;nc|ENSG00000126777|Q86UP2-4|KTN1;ENSG00000126777|ENST00000395314|KTN1 nc|ENSG00000126777|Q86UP2-2|KTN1 nc|ENSG00000126777|Q86UP2-2|KTN1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 373.895917 1118.66592 2.8754 0.0010751 -0.60914 -0.00022776 2.2663 0.00084734 373.8955942318715 98.093 0.14166 98.692 98.605 98.746 0.59885 0.038988 5.1806E-05 NaN 0.62683 29 15 3 NaN NaN NaN NaN 0 NaN NaN 0 6297200 14528 2464 9344 9365 0.11133659085908221 KSGTTPLPPGA 11 Unmodified _KSGTTPLPPGA_ 0 0 0 nc|ENSG00000144331|Q569K4-4|ZNF385B;nc|ENSG00000144331|Q569K4-3|ZNF385B;nc|ENSG00000144331|Q569K4-2|ZNF385B;nc|ENSG00000144331|Q569K4-5|ZNF385B;nc|ENSG00000144331|Q569K4|ZNF385B;ENSG00000144331|ENST00000410066|ZNF385B nc|ENSG00000144331|Q569K4-4|ZNF385B nc|ENSG00000144331|Q569K4-4|ZNF385B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.2869873046875 2 513.284931 1024.55531 NaN NaN NaN NaN NaN NaN NaN 88.911 1 88.963 88.463 89.463 0.052155 0 0 0 0.86696 1 45434 45434 19.362 1.2156 1 14529 3417 9345 9366 16649 16649 0.04401439097682669 KSHRRLKRKRK 11 Unmodified _KSHRRLKRKRK_ 0 0 0 ENSG00000130749|ENST00000253048|ZC3H4 ENSG00000130749|ENST00000253048|ZC3H4 ENSG00000130749|ENST00000253048|ZC3H4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 746.874755859375 2 746.992209 1491.96987 NaN NaN NaN NaN NaN NaN NaN 18.032 1 18.334 17.834 18.834 0.30158 0 0 0 1.008 1 8169 8169 0.26902 0 1 14530 2616 9346 9367 16650 16650 0.24355898424369116 KSISSLLVKV 10 Unmodified _KSISSLLVKV_ 0 0 0 nc|ENSG00000153936|Q7LGA3-2|HS2ST1 nc|ENSG00000153936|Q7LGA3-2|HS2ST1 nc|ENSG00000153936|Q7LGA3-2|HS2ST1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.3490600585938 2 537.350074 1072.6856 NaN NaN NaN NaN NaN NaN NaN 95.604 1 95.604 95.104 96.104 0 0 0 0 0.9952 1 51524 51524 5.7319 0 1 14531 9695 9347 9368 16651 16651 0.15216035096659652 KSKERRKNKKR 11 Unmodified _KSKERRKNKKR_ 0 0 0 ENST00000471681.5_1_3:56606414-56647710:+|nuORF ENST00000471681.5_1_3:56606414-56647710:+|nuORF ENST00000471681.5_1_3:56606414-56647710:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 729.0345458984375 2 729.460407 1456.90626 NaN NaN NaN NaN NaN NaN NaN 90.308 1 90.308 89.808 90.808 0 0 0 0 1.0073 1 47422 47422 1.1933 0 1 14532 8182 9348 9369 16652 16652 0.19608493196619747 KSKERRKNKKR 11 Unmodified _KSKERRKNKKR_ 0 0 0 ENST00000471681.5_1_3:56606414-56647710:+|nuORF ENST00000471681.5_1_3:56606414-56647710:+|nuORF ENST00000471681.5_1_3:56606414-56647710:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 729.463134765625 2 729.460407 1456.90626 NaN NaN NaN NaN NaN NaN NaN 94.54 1 94.626 94.126 95.126 0.086212 0 0 0 1.0073 1 49764 49764 1.1933 0.84271 1 14533 8182 9348 9369 16653 16653 0.19608493196619747 KSKHKLKKRRG 11 Unmodified _KSKHKLKKRRG_ 0 0 0 nc|ENSG00000116539|Q9NR48|ASH1L;ENSG00000116539|ENST00000392403|ASH1L nc|ENSG00000116539|Q9NR48|ASH1L nc|ENSG00000116539|Q9NR48|ASH1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.12744140625 3 455.968633 1364.88407 NaN NaN NaN NaN NaN NaN NaN 73.7 1 73.7 73.2 74.2 0 0 0 0 1.0079 1 35955 35955 0.50596 0.051438 1 14534 2031 9349 9370 16654 16654 0.21622313518832925 KSKHKRIRRR 10 Unmodified _KSKHKRIRRR_ 0 0 0 REV__ENSG00000104714|ENST00000262109|ERICH1 REV__ENSG00000104714|ENST00000262109|ERICH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 683.3883056640625 2 682.944728 1363.8749 NaN NaN NaN NaN NaN NaN NaN 86.651 1 86.682 86.182 87.182 0.030289 0 0 0 1.0003 1 43660 43660 1.4819 0 1 + 14535 10999 9350 9371 16655 16655 0.20751964953183233 KSKIKRLYKLL 11 Unmodified _KSKIKRLYKLL_ 0 0 0 nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-14|DST;DST|p.I5232Sfs*5|1|0.18|ENSG00000151914|chr6:56470139-56470139|T/-|frameshift_variant;ENSG00000151914|ENST00000680361|DST;DST|p.L2377Sfs*24|1|0.05|ENSG00000151914|chr6:56568573-56568574|-/TATCTCAAGAAATTACAAG|frameshift_variant;DST|p.V3868Mfs*36|1|0.21|ENSG00000151914|chr6:56515641-56515653|AGTTCTTCAGTAC/-|frameshift_variant;ENST00000523967.5_1_6:56504020-56716372:-|nuORF;DST|p.L898Pfs*11|1|0.03|ENSG00000151914|chr6:56634936-56634937|-/CAAATTGAGGT|frameshift_variant;DST|p.L1332Qfs*9|1|0.18|ENSG00000151914|chr6:56628119-56628129|GTAGTACTTCA/-|frameshift_variant;nc|ENSG00000151914|Q03001-13|DST;ENST00000521104.1_1_6:56504020-56557947:-|nuORF nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-13|DST nc|ENSG00000151914|Q03001|DST MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 695.4691772460938 2 695.468847 1388.92314 NaN NaN NaN NaN NaN NaN NaN 97.838 1 98.128 97.628 98.628 0.28923 0 0 0 1.0073 1 44976 44976 1.1933 0 1 14536 9690;8639 9351 9372 16656 16656 0.24423601029889142 KSKKGKKLR 9 Unmodified _KSKKGKKLR_ 0 0 0 REV__ENSG00000188404|ENST00000236147|SELL REV__ENSG00000188404|ENST00000236147|SELL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.7525634765625 2 536.8693 1071.72405 NaN NaN NaN NaN NaN NaN NaN 95.343 1 95.425 94.925 95.925 0.082001 0 0 0 0.90699 1 50375 50375 1.8442 0.19162 1 + 14537 14149 9352 9373 16657 16657 0.1910538552183425 KSKKKKIRRA 10 Unmodified _KSKKKKIRRA_ 0 0 0 REV__nc|ENSG00000166037|Q86XR8-3|CEP57 REV__nc|ENSG00000166037|Q86XR8-3|CEP57 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.995849609375 2 621.92768 1241.84081 NaN NaN NaN NaN NaN NaN NaN 87.737 1 87.777 87.277 88.277 0.039955 0 0 0 1.0003 1 44506 44506 1.4819 0 1 + 14538 13207 9353 9374 16658 16658 0.22956123741596457 KSKKKKRRKKK 11 Unmodified _KSKKKKRRKKK_ 0 0 0 REV__nc|ENSG00000111142|P50579-3|METAP2 REV__nc|ENSG00000111142|P50579-3|METAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 722.0093383789062 2 722.009536 1442.00452 NaN NaN NaN NaN NaN NaN NaN 45.128 1 45.396 44.896 45.896 0.26768 0 0 0 1.0082 1 20628 20628 0 0 1 + 14539 17893 9354 9375 16659 16659 0.30119721512437536 KSKLVRKRKRK 11 Unmodified _KSKLVRKRKRK_ 0 0 0 REV__ENST00000530163.1_1_11:74340223-74351808:+|nuORF REV__ENST00000530163.1_1_11:74340223-74351808:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 713.9962768554688 2 713.993886 1425.97322 NaN NaN NaN NaN NaN NaN NaN 64.449 1 64.449 63.949 64.949 0 0 0 0 1.008 1 30537 30537 0.26902 0.26902 1 + 14540 10558 9355 9376 16660 16660 0.27727148478379604 KSKMDWHFVSK 11 Unmodified _KSKMDWHFVSK_ 0 0 0 REV__nc|ENSG00000197893|Q86VF7-3|NRAP REV__nc|ENSG00000197893|Q86VF7-3|NRAP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 696.5134887695312 2 696.858272 1391.70199 NaN NaN NaN NaN NaN NaN NaN 69.612 1 70.315 69.815 70.815 0.70302 0 0 0 1.0047 1 33324 33324 4.5289 0.93237 1 + 14541 18100 9356 9377 16661 16661 0.0218079299108922 KSKSAEFLMVK 11 Unmodified _KSKSAEFLMVK_ 0 0 0 nc|ENSG00000181355|Q8IZS5-4|OFCC1;nc|ENSG00000181355|Q8IZS5-5|OFCC1;nc|ENSG00000181355|Q8IZS5-3|OFCC1;nc|ENSG00000181355|Q8IZS5|OFCC1;nc|ENSG00000181355|Q8IZS5-2|OFCC1 nc|ENSG00000181355|Q8IZS5-4|OFCC1 nc|ENSG00000181355|Q8IZS5-4|OFCC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 423.2418518066406 3 423.240808 1266.70059 3.0196 0.001278 -0.27202 -0.00011513 2.7476 0.0011629 423.2406366750197 37.088 0.31658 37.718 37.545 37.862 0.62999 41 13 4 0 0 0 0.75723 1 16959 16959 4.4062 0.81909 1 707090 14542 9770 9357 9378 16662 16662 0.07791158902296047 KSLAGPFADVC 11 Unmodified _KSLAGPFADVC_ 0 0 0 REV__ENST00000357700.10_1_10:5681946-5682531:-|nuORF REV__ENST00000357700.10_1_10:5681946-5682531:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.9945678710938 2 554.278792 1106.54303 NaN NaN NaN NaN NaN NaN NaN 97.764 1 98.363 97.863 98.863 0.59885 0 0 0 1.0044 1 44976 44976 4.897 0.56777 1 + 14543 15569 9358 9379 16663 16663 -0.005979206370511747 KSLIALILI 9 Unmodified _KSLIALILI_ 0 0 0 REV__nc|ENSG00000164073|Q8NHS3-2|MFSD8 REV__nc|ENSG00000164073|Q8NHS3-2|MFSD8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.35101318359375 2 492.346803 982.679054 NaN NaN NaN NaN NaN NaN NaN 65.65 1 66.359 65.859 66.859 0.70891 0 0 0 0.91342 1 31065 31065 0 0 1 + 14544 18012 9359 9380 16664 16664 0.18702141935955297 KSLIQKLILLR 11 Unmodified _KSLIQKLILLR_ 0 0 0 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 662.9530639648438 2 662.955572 1323.89659 NaN NaN NaN NaN NaN NaN NaN 96.069 1 96.342 95.842 96.842 0.27268 0 0 0 1.0073 1 44141 44141 1.1933 0.79263 1 14545 1540 9360 9381 16665 16665 0.24759912138551954 KSLITKERP 9 Unmodified _KSLITKERP_ 0 0 0 REV__ENST00000209929.9_1_1:171154426-171178089:+|nuORF REV__ENST00000209929.9_1_1:171154426-171178089:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.3340454101562 2 536.329673 1070.64479 NaN NaN NaN NaN NaN NaN NaN 55.319 1 55.987 55.487 56.487 0.66798 0 0 0 0.90111 1 25306 25306 3.2813 1.2216 1 + 14546 14794 9361 9382 16666 16666 0.11229693777045213 KSLKIIYL 8 Unmodified _KSLKIIYL_ 0 0 0 ENSG00000279169|ENST00000625019|PRAMEF13;ENSG00000204481|ENST00000334600|PRAMEF14;ENSG00000116721|ENST00000332296|PRAMEF1 ENSG00000279169|ENST00000625019|PRAMEF13 ENSG00000279169|ENST00000625019|PRAMEF13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.32501220703125 2 489.323328 976.632104 3.427 0.0016769 -0.4508 -0.00022059 2.9762 0.0014563 489.3230175987866 39.839 0.27279 40.48 40.328 40.601 0.64135 26 11 3 0 0 0 0.078308 1 18257 18257 56.177 0 1 1028900 14547 2045 9362 9383 16667 16667 0.14285282384798847 KSLKKKIKKV 10 Unmodified _KSLKKKIKKV_ 0 0 0 ENST00000399586.2_1_X:74960734-74966719:-|nuORF;nc|ENSG00000182670|P53804-3|TTC3;nc|ENSG00000182670|P53804-2|TTC3;ENSG00000182670|ENST00000418766|TTC3;ENST00000472398.5_1_21:38529111-38558109:+|nuORF ENST00000399586.2_1_X:74960734-74966719:-|nuORF;nc|ENSG00000182670|P53804-3|TTC3;ENST00000472398.5_1_21:38529111-38558109:+|nuORF ENST00000399586.2_1_X:74960734-74966719:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 600.480712890625 2 600.431733 1198.84891 NaN NaN NaN NaN NaN NaN NaN 100.08 1 100.39 99.891 100.89 0.30835 0 0 0 1.0003 1 46283 46283 1.4819 1.4819 1 14548 7600;5344;8187 9363 9384 16668 16668 0.2574425793834507 KSLLFSLLPLF 11 Unmodified _KSLLFSLLPLF_ 0 0 0 REV__ENST00000367511.3_1_1:184761553-184761835:-|nuORF REV__ENST00000367511.3_1_1:184761553-184761835:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 639.5501098632812 2 639.397025 1276.7795 NaN NaN NaN NaN NaN NaN NaN 86.801 1 86.801 86.301 87.301 0 0 0 0 1.0041 1 44587 44587 5.2969 0.39987 1 + 14549 15660 9364 9385 16669 16669 0.15217754198920375 KSLQKNYRNLN 11 Unmodified _KSLQKNYRNLN_ 0 0 0 REV__ENSG00000187105|ENST00000553558|HEATR4 REV__ENSG00000187105|ENST00000553558|HEATR4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 460.4090576171875 3 459.924759 1376.75245 2.1607 0.00099375 0.07265 3.3413E-05 2.2333 0.0010272 459.92492551093386 68.789 0.023476 68.789 68.777 68.8 0 4 2 2 0 0 0 0.13295 1 33140 33140 1.2148 0 1 608120 + 14550 14086 9365 9386 16670 16670 0.07914038640478793 KSLRIERRKK 10 Unmodified _KSLRIERRKK_ 0 0 0 ENST00000347055.3_1_2:88327406-88327460:-|nuORF ENST00000347055.3_1_2:88327406-88327460:-|nuORF ENST00000347055.3_1_2:88327406-88327460:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 657.60400390625 2 657.428045 1312.84154 NaN NaN NaN NaN NaN NaN NaN 98.101 1 98.167 97.667 98.667 0.066025 0 0 0 1.0003 1 52642 52642 1.4819 0.28856 1 14551 7118 9366 9387 16671 16671 0.19762918390620143 KSLRRRKPKP 10 Unmodified _KSLRRRKPKP_ 0 0 0 REV__ENSG00000196436|ENST00000692376|NPIPB15 REV__ENSG00000196436|ENST00000692376|NPIPB15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.4193115234375 2 633.41748 1264.82041 NaN NaN NaN NaN NaN NaN NaN 18.787 1 18.787 18.287 19.287 0 0 0 0 1.0003 1 8350 8350 1.4819 0 1 + 14552 14215 9367 9388 16672 16672 0.19858953081779873 KSLVVKTIKI 10 Unmodified _KSLVVKTIKI_ 0 0 0 REV__ENSG00000055609|ENST00000262189|KMT2C REV__ENSG00000055609|ENST00000262189|KMT2C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.4827270507812 2 564.889367 1127.76418 NaN NaN NaN NaN NaN NaN NaN 67.571 1 67.571 67.071 68.071 0 0 0 0 1.0006 1 32442 32442 1.1933 0.79263 1 + 14553 10372 9368 9389 16673 16673 0.20540887401739383 KSMGLKKK 8 Unmodified _KSMGLKKK_ 0 0 0 nc|ENSG00000130377|Q5FVE4-2|ACSBG2;ENSG00000130377|ENST00000588485|ACSBG2;nc|ENSG00000130377|Q5FVE4-4|ACSBG2;nc|ENSG00000130377|Q5FVE4-3|ACSBG2;ENST00000591741.5_1_19:6161567-6190665:+|nuORF nc|ENSG00000130377|Q5FVE4-2|ACSBG2 nc|ENSG00000130377|Q5FVE4-2|ACSBG2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 919.2445678710938 1 919.575734 918.568457 2.6476 0.0024347 1.0178 0.00093592 3.6654 0.0033706 919.5787948503768 89.428 0.035088 89.492 89.471 89.506 0.064339 6 4 2 0 0 0 0.13972 1 45839 45839 2.0598 0 1 6124300 14554 2591 9369 9390 16674 16674 0.10591598676057856 KSMLIKLVLK 10 Unmodified _KSMLIKLVLK_ 0 0 0 REV__ENST00000471257.5_1_1:235377084-235377189:-|nuORF REV__ENST00000471257.5_1_1:235377084-235377189:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.8930053710938 2 586.893595 1171.77264 NaN NaN NaN NaN NaN NaN NaN 86.957 1 86.957 86.457 87.457 0 0 0 0 0.99572 1 44707 44707 5.2969 3.6443 1 + 14555 16602 9370 9391 16675 16675 0.193621180467062 KSNKRRYLV 9 Unmodified _KSNKRRYLV_ 0 0 0 REV__nc|ENSG00000197965|O95297-4|MPZL1 REV__nc|ENSG00000197965|O95297-4|MPZL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.8568115234375 2 582.354014 1162.69348 1.9852 0.0011561 -0.1866 -0.00010867 1.7986 0.0010474 582.3536438684486 99.511 0.13679 99.574 99.485 99.622 0.062241 17 8 3 0 0 0 1.1022 1 53807 53807 3.9444 3.5938 1 28355000 + 14556 14309 9371 9392 16676 16676 0.1186360713677459 KSNWKKRIKV 10 Unmodified _KSNWKKRIKV_ 0 0 0 REV__ENSG00000105186|ENST00000306065|ANKRD27 REV__ENSG00000105186|ENST00000306065|ANKRD27 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 643.9112548828125 2 643.906414 1285.79827 NaN NaN NaN NaN NaN NaN NaN 103.45 1 104.05 103.55 104.55 0.59821 0 0 0 1.0016 1 47858 47858 0.35063 0 1 + 14557 11019 9372 9393 16677 16677 0.16680728613346218 KSPASDTYVFG 11 Unmodified _KSPASDTYVFG_ 0 0 0 NACAD|p.V1463del|1|0.2|ENSG00000136274|chr7:45081133-45081135|ACC/-|inframe_deletion NACAD|p.V1463del|1|0.2|ENSG00000136274|chr7:45081133-45081135|ACC/-|inframe_deletion NACAD|p.V1463del|1|0.2|ENSG00000136274|chr7:45081133-45081135|ACC/-|inframe_deletion MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.2842407226562 2 586.285128 1170.5557 NaN NaN NaN NaN NaN NaN NaN 87.249 1 87.249 86.749 87.749 0 0 0 0 0.99038 1 44937 44937 7.609 1.4171 1 14558 9527 9373 9394 16678 16678 -0.02275185973144289 KSPQTFRPRA 10 Unmodified _KSPQTFRPRA_ 0 0 0 REV__ENSG00000127418|ENST00000510644|FGFRL1 REV__ENSG00000127418|ENST00000510644|FGFRL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 594.3350830078125 2 594.335821 1186.65709 NaN NaN NaN NaN NaN NaN NaN 85.857 1 85.857 85.357 86.357 0 0 0 0 0.9952 1 43836 43836 5.7319 0 1 + 14559 11738 9374 9395 16679 16679 0.07122730240075725 KSPWEEGPGE 10 Unmodified _KSPWEEGPGE_ 0 0 0 REV__ENST00000590548.5_1_19:11597897-11616622:-|nuORF REV__ENST00000590548.5_1_19:11597897-11616622:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.23876953125 2 558.253828 1114.4931 NaN NaN NaN NaN NaN NaN NaN 55.56 1 56.347 55.847 56.847 0.78711 0 0 0 0.97944 1 25370 25370 8.7454 0.15213 1 + 14560 17576 9375 9396 16680 16680 -0.05956332041341739 KSQELKYL 8 Unmodified _KSQELKYL_ 0 0 0 REV__ENST00000408045.7_1_2:43571220-43805671:-|nuORF REV__ENST00000408045.7_1_2:43571220-43805671:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.1973571777344 3 336.862325 1007.56515 2.2037 0.00074233 0.3319 0.00011181 2.5356 0.00085414 336.8623867894215 14.254 0.10379 14.561 14.508 14.612 0.3069 14 6 3 0 0 0 0.51123 1 6449 6449 20.415 2.0414 1 4092400 + 14561 11389 9376 9397 16681 16681 0.06166627103038991 KSQGRIILVFV 11 Unmodified _KSQGRIILVFV_ 0 0 0 REV__nc|ENSG00000069188|Q58EX2-3|SDK2 REV__nc|ENSG00000069188|Q58EX2-3|SDK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 630.3553466796875 2 630.395348 1258.77614 NaN NaN NaN NaN NaN NaN NaN 95.322 1 95.404 94.904 95.904 0.082001 0 0 0 1.0063 1 50361 50361 2.4985 0.65425 1 + 14562 10467 9377 9398 16682 16682 0.15710504144931292 KSQKIYNIF 9 Unmodified _KSQKIYNIF_ 0 0 0 REV__ENSG00000198171|ENST00000354488|DDRGK1 REV__ENSG00000198171|ENST00000354488|DDRGK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.88653564453125 3 380.885241 1139.63389 2.5525 0.0009722 1.2037 0.00045848 3.7562 0.0014307 380.8856157608159 62.695 0.41955 63.353 63.165 63.584 0.65808 86 26 4 0 0 0 1.0041 1 28681 28681 2.2828 0.19677 1 15647000 + 14563 14323 9378 9399 16683 16683 0.06966291402750358 KSQNYKICLL 10 Unmodified _KSQNYKICLL_ 0 0 0 ENST00000495595.1_1_2:37111179-37129881:-|nuORF ENST00000495595.1_1_2:37111179-37129881:-|nuORF ENST00000495595.1_1_2:37111179-37129881:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 605.4189453125 2 605.336641 1208.65873 NaN NaN NaN NaN NaN NaN NaN 97.814 1 98.413 97.913 98.913 0.59885 0 0 0 0.97944 1 45013 45013 8.7454 1.1365 1 14564 8435 9379 9400 16684 16684 0.06274603213819319 KSQVIRNL 8 Unmodified _KSQVIRNL_ 0 0 0 CHD7|p.K696Efs*25|1|0.07|ENSG00000171316|chr8:60781418-60781419|-/TGAGTTCCTATTTAGTTCTTGGTTATCTA|frameshift_variant CHD7|p.K696Efs*25|1|0.07|ENSG00000171316|chr8:60781418-60781419|-/TGAGTTCCTATTTAGTTCTTGGTTATCTA|frameshift_variant CHD7|p.K696Efs*25|1|0.07|ENSG00000171316|chr8:60781418-60781419|-/TGAGTTCCTATTTAGTTCTTGGTTATCTA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 320.8681640625 3 319.866181 956.576714 1.6871 0.00053963 0.33889 0.0001084 2.0259 0.00064803 319.86637141497835 12.891 0.3506 13.198 12.969 13.32 0.30727 35 11 5 0 0 0 0.64827 1 5802 5802 10.074 0 1 11242000 14565 117 9380 9401 16685 16685 0.09668868917037798 KSREKRVAK 9 Unmodified _KSREKRVAK_ 0 0 0 REV__nc|ENSG00000109618|Q9HD40-3|SEPSECS REV__nc|ENSG00000109618|Q9HD40-3|SEPSECS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.3509521484375 2 551.346189 1100.67783 NaN NaN NaN NaN NaN NaN NaN 85.932 1 85.932 85.432 86.432 0 0 0 0 0.8974 1 43901 43901 6.7232 0 1 + 14566 11174 9381 9402 16686 16686 0.1315132061974964 KSRGLLYK 8 Unmodified _KSRGLLYK_ 0 0 0 ENSG00000247626|ENST00000282276|MARS2 ENSG00000247626|ENST00000282276|MARS2 ENSG00000247626|ENST00000282276|MARS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 322.2127380371094 3 322.202793 963.58655 NaN NaN NaN NaN NaN NaN NaN 32.06 1 32.06 31.56 32.56 0 0 0 0 0.99035 1 14513 14513 1.4819 0.28856 1 14567 6255 9382 9403 16687 16687 0.10330056922407493 KSRISRTRRRW 11 Unmodified _KSRISRTRRRW_ 0 0 0 ENST00000285274.9_1_17:18584969-18585005:-|nuORF ENST00000285274.9_1_17:18584969-18585005:-|nuORF ENST00000285274.9_1_17:18584969-18585005:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.30401611328125 3 501.302675 1500.8862 4.0598 0.0020352 -0.38698 -0.00019399 3.6728 0.0018412 501.30241083732193 100.5 0.14238 100.82 100.74 100.88 0.31412 15 5 4 0 0 0 0.91459 1 46496 46496 0.094841 0.011491 1 5295100 14568 6715 9383 9404 16688 16688 0.15578742256684563 KSRISRTRRRW 11 Unmodified _KSRISRTRRRW_ 0 0 0 ENST00000285274.9_1_17:18584969-18585005:-|nuORF ENST00000285274.9_1_17:18584969-18585005:-|nuORF ENST00000285274.9_1_17:18584969-18585005:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.3045959472656 3 501.302675 1500.8862 3.4469 0.0017279 0.33537 0.00016812 3.7823 0.0018961 501.30283825727696 100.42 0.16663 101.01 100.94 101.11 0.59717 12 6 3 0 0 0 0.91459 1 46483 46483 0.094841 0 1 5008600 14569 6715 9383 9404 16689 16689 0.15578742256684563 KSRKATAS 8 Unmodified _KSRKATAS_ 0 0 0 nc|ENSG00000116731|Q13029-4|PRDM2 nc|ENSG00000116731|Q13029-4|PRDM2 nc|ENSG00000116731|Q13029-4|PRDM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 424.7514343261719 2 424.751059 847.487565 2.976 0.001264 -1.0855 -0.00046105 1.8905 0.00080299 424.75043767531054 28.45 0.27068 29.07 28.948 29.219 0.61947 23 15 2 0 0 0 0.7471 1 13088 13088 0 0 1 169670 14570 9613 9384 9405 16690 16690 0.05772033957498479 KSRKKSRRQR 10 Unmodified _KSRKKSRRQR_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;nc|ENSG00000155657|Q8WZ42-5|TTN;nc|ENSG00000155657|Q8WZ42-9|TTN;nc|ENSG00000155657|Q8WZ42-10|TTN;nc|ENSG00000155657|Q8WZ42-3|TTN ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 665.4215087890625 2 665.418543 1328.82253 4.1599 0.0027681 0.011667 7.7636E-06 4.1716 0.0027758 665.4187330653041 100.47 0.15077 101.07 100.96 101.11 0.59717 9 5 3 0 0 0 0.93713 1 46526 46526 1.4819 0 1 3035600 14571 3871 9385 9406 16691 16691 0.17127381819591392 KSRLKFYLVIL 11 Unmodified _KSRLKFYLVIL_ 0 0 0 REV__ENST00000425964.1_1_X:73393805-73393898:+|nuORF REV__ENST00000425964.1_1_X:73393805-73393898:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 345.7259521484375 4 345.724787 1378.87004 2.2628 0.00078229 0.99393 0.00034363 3.2567 0.0011259 345.72509858797457 44.59 0.58002 45.411 45.149 45.729 0.82075 87 28 4 0 0 0 0.91328 1 20338 20338 0.50596 0 1 2636800 + 14572 13618 9386 9407 16692 16692 0.1957622324721342 KSRRGAPA 8 Unmodified _KSRRGAPA_ 0 0 0 REV__nc|ENSG00000197114|Q8N5A5-4|ZGPAT REV__nc|ENSG00000197114|Q8N5A5-4|ZGPAT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.75262451171875 2 421.751393 841.488233 3.2207 0.0013583 -0.14174 -5.9779E-05 3.0789 0.0012985 421.75122804578456 96.253 0.64359 96.861 96.6 97.244 0.60769 80 31 4 0 0 0 0.7471 1 44246 44246 0.79363 0 1 2438600 + 14573 14258 9387 9408 16693 16693 0.06114873397223164 KSRRKYRIVP 10 Unmodified _KSRRKYRIVP_ 0 0 0 REV__nc|ENSG00000001630|Q16850-2|CYP51A1 REV__nc|ENSG00000001630|Q16850-2|CYP51A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 651.9078979492188 2 651.909488 1301.80442 NaN NaN NaN NaN NaN NaN NaN 85.522 1 85.522 85.022 86.022 0 0 0 0 0.99774 1 43567 43567 3.5965 0 1 + 14574 10157 9388 9409 16694 16694 0.16559246844872177 KSRRREESQW 10 Unmodified _KSRRREESQW_ 0 0 0 REV__nc|ENSG00000130224|Q5VUJ6-2|LRCH2 REV__nc|ENSG00000130224|Q5VUJ6-2|LRCH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.57183837890625 3 454.572608 1360.69599 NaN NaN NaN NaN NaN NaN NaN 80.185 1 80.434 79.934 80.934 0.24947 0 0 0 1.0003 1 36921 36921 0.62683 0.21856 1 + 14575 11806 9389 9410 16695 16695 0.030074108037979386 KSSAKRAGKK 10 Unmodified _KSSAKRAGKK_ 0 0 0 nc|ENSG00000189060|P07305-2|H1-0;ENSG00000189060|ENST00000340857|H1-0 nc|ENSG00000189060|P07305-2|H1-0 nc|ENSG00000189060|P07305-2|H1-0 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.914794921875 2 530.832914 1059.65128 2.6322 0.0013973 1.5727 0.00083485 4.205 0.0022321 530.8322823374918 86.856 0.058632 86.856 86.812 86.871 0 10 8 2 0 0 0 0.12676 1 44630 44630 5.2969 3.6443 1 9738600 14576 5702 9390 9411 16696 16696 0.12383631728403088 KSSAKRAGKK 10 Unmodified _KSSAKRAGKK_ 0 0 0 nc|ENSG00000189060|P07305-2|H1-0;ENSG00000189060|ENST00000340857|H1-0 nc|ENSG00000189060|P07305-2|H1-0 nc|ENSG00000189060|P07305-2|H1-0 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 530.832914 1059.65128 2.2251 0.0011811 4.22 0.0022401 6.4451 0.0034213 530.8360084965929 86.914 0.11012 86.944 86.853 86.963 0.030289 0.044066 0.00071134 NaN 5.2969 16 15 2 NaN NaN NaN NaN 0 NaN NaN 0 11913000 14577 5702 9390 9411 0.12383631728403088 KSSEQLVKSK 10 Unmodified _KSSEQLVKSK_ 0 0 0 REV__nc|ENSG00000170469|Q86W54-2|SPATA24 REV__nc|ENSG00000170469|Q86W54-2|SPATA24 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.3323364257812 2 567.32987 1132.64519 NaN NaN NaN NaN NaN NaN NaN 86.161 1 86.161 85.661 86.661 0 0 0 0 0.79701 1 44095 44095 22.658 1.0679 1 + 14578 13437 9391 9412 16697 16697 0.08417068706239661 KSSKLLTM 8 Unmodified _KSSKLLTM_ 0 0 0 REV__nc|ENSG00000167210|Q8IVV2|LOXHD1 REV__nc|ENSG00000167210|Q8IVV2|LOXHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.1732482910156 3 303.180889 906.520839 NaN NaN NaN NaN NaN NaN NaN 78.583 1 78.836 78.336 79.336 0.25211 0 0 0 0.99035 1 36187 36187 1.4819 0.15237 1 + 14579 13282 9392 9413 16698 16698 0.06383899685204142 KSSLEEGI 8 Unmodified _KSSLEEGI_ 0 0 0 ENST00000370308.8_1_6:74189644-74210455:+|nuORF;nc|ENSG00000135297|Q9Y2Z2-2|MTO1;nc|ENSG00000135297|Q9Y2Z2-5|MTO1;ENSG00000135297|ENST00000498286|MTO1;nc|ENSG00000135297|Q9Y2Z2|MTO1;nc|ENSG00000135297|Q9Y2Z2-6|MTO1 ENST00000370308.8_1_6:74189644-74210455:+|nuORF ENST00000370308.8_1_6:74189644-74210455:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 431.73065185546875 2 431.729458 861.444362 2.9458 0.0012718 -0.21736 -9.3841E-05 2.7285 0.001178 431.72942212436715 27.273 0.26344 27.895 27.747 28.011 0.62179 27 15 3 0 0 0 0.44001 1 12518 12518 25.399 3.6527 1 410660 14580 2859 9393 9414 16699 16699 0.008097993895830768 KSSLEEGI 8 Unmodified _KSSLEEGI_ 0 0 0 ENST00000370308.8_1_6:74189644-74210455:+|nuORF;nc|ENSG00000135297|Q9Y2Z2-2|MTO1;nc|ENSG00000135297|Q9Y2Z2-5|MTO1;ENSG00000135297|ENST00000498286|MTO1;nc|ENSG00000135297|Q9Y2Z2|MTO1;nc|ENSG00000135297|Q9Y2Z2-6|MTO1 ENST00000370308.8_1_6:74189644-74210455:+|nuORF ENST00000370308.8_1_6:74189644-74210455:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 431.729458 861.444362 2.7981 0.001208 0.083292 3.596E-05 2.8814 0.001244 431.7295260842103 27.639 0.21998 27.901 27.813 28.033 0.26245 0.0031855 0.00014214 NaN 25.399 19 13 2 NaN NaN NaN NaN 0 NaN NaN 0 371910 14581 2859 9393 9414 0.008097993895830768 KSSNSIRPL 9 Unmodified _KSSNSIRPL_ 0 0 0 ENST00000479668.5_1_7:150070169-150070337:+|nuORF ENST00000479668.5_1_7:150070169-150070337:+|nuORF ENST00000479668.5_1_7:150070169-150070337:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.2921447753906 2 501.290548 1000.56654 3.0512 0.0015295 0.63904 0.00032035 3.6902 0.0018499 501.2907932816766 78.748 1.673 78.999 78.211 79.884 0.25127 201 105 2 0 0 0 0.98132 1 36166 36166 4.3292 4.3292 1 1159000 14582 8266 9394 9415 16700 16700 0.06628261191792717 KSTSLLTIWV 10 Unmodified _KSTSLLTIWV_ 0 0 0 REV__ENST00000228425.10_2_12:27731095-27731131:+|nuORF REV__ENST00000228425.10_2_12:27731095-27731131:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.3408813476562 2 574.339707 1146.66486 4.2061 0.0024157 -1.0711 -0.00061518 3.135 0.0018006 574.3383592972597 101.21 0.16229 101.52 101.47 101.63 0.31412 8 5 3 0 0 0 0.90859 1 46856 46856 3.2813 0.28607 1 1941700 + 14583 14842 9395 9416 16701 16701 0.09739444716979051 KSTSLLTIWV 10 Unmodified _KSTSLLTIWV_ 0 0 0 REV__ENST00000228425.10_2_12:27731095-27731131:+|nuORF REV__ENST00000228425.10_2_12:27731095-27731131:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 574.339707 1146.66486 2.2488 0.0012916 -3.1633 -0.0018168 -0.91457 -0.00052528 574.338584015669 101.24 0.047478 101.3 101.27 101.32 0.059723 -0.21947 -0.00027561 NaN 3.2813 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 1452700 + 14584 14842 9395 9416 0.09739444716979051 KSTSLLTIWV 10 Unmodified _KSTSLLTIWV_ 0 0 0 REV__ENST00000228425.10_2_12:27731095-27731131:+|nuORF REV__ENST00000228425.10_2_12:27731095-27731131:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 574.339707 1146.66486 4.2061 0.0024157 -1.0711 -0.00061518 3.135 0.0018006 574.3383592972597 101.21 0.16229 101.52 101.47 101.63 0.31412 -0.0024136 0.0021277 NaN 3.2813 8 5 3 NaN NaN NaN NaN 0 NaN NaN 0 1941700 + 14585 14842 9395 9416 0.09739444716979051 KSTSLLTIWV 10 Unmodified _KSTSLLTIWV_ 0 0 0 REV__ENST00000228425.10_2_12:27731095-27731131:+|nuORF REV__ENST00000228425.10_2_12:27731095-27731131:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 574.339707 1146.66486 3.8821 0.0022296 -3.2041 -0.0018403 0.67795 0.00038938 574.3382181390651 101.15 0.093475 101.74 101.69 101.78 0.59717 0.22189 -0.00032248 NaN 3.2813 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1372100 + 14586 14842 9395 9416 0.09739444716979051 KSVFIWLNKRW 11 Unmodified _KSVFIWLNKRW_ 0 0 0 REV__nc|ENSG00000153922|O14646-2|CHD1 REV__nc|ENSG00000153922|O14646-2|CHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.9560852050781 3 492.95399 1475.84014 NaN NaN NaN NaN NaN NaN NaN 90.91 1 90.985 90.485 91.485 0.075279 0 0 0 1.0061 1 46963 46963 1.1098 0 1 + 14587 12688 9396 9417 16702 16702 0.12125284301873762 KSVPPFLR 8 Unmodified _KSVPPFLR_ 0 0 0 ENSG00000133048|ENST00000255409|CHI3L1 ENSG00000133048|ENST00000255409|CHI3L1 ENSG00000133048|ENST00000255409|CHI3L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 315.19598388671875 3 315.195639 942.565087 NaN NaN NaN NaN NaN NaN NaN 75.038 1 75.296 74.796 75.796 0.25831 0 0 0 0.99035 1 34517 34517 1.4819 0 1 14588 2744 9397 9418 16703 16703 0.09150671893689832 KSVTSRATR 9 Unmodified _KSVTSRATR_ 0 0 0 ENST00000419165.5_1_X:103173538-103173796:+|nuORF ENST00000419165.5_1_X:103173538-103173796:+|nuORF ENST00000419165.5_1_X:103173538-103173796:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.29498291015625 2 503.293622 1004.57269 3.4376 0.0017301 -0.7204 -0.00036257 2.7172 0.0013675 503.2928976510824 93.35 0.39989 93.981 93.745 94.145 0.63115 47 20 3 0 0 0 1.129 1 42961 42961 1.8442 1.8442 1 2288900 14589 7737 9398 9419 16704 16704 0.07058779423334727 KSWETFSGTV 10 Unmodified _KSWETFSGTV_ 0 0 0 ENST00000317025.12_1_8:38129919-38130090:-|nuORF ENST00000317025.12_1_8:38129919-38130090:-|nuORF ENST00000317025.12_1_8:38129919-38130090:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.1908874511719 3 381.188989 1140.54514 NaN NaN NaN NaN NaN NaN NaN 72.283 1 72.542 72.042 73.042 0.25876 0 0 0 0.99812 1 33180 33180 1.5923 0.52082 1 14590 6909 9399 9420 16705 16705 -0.019511686275791362 KSWETFSGTV 10 Unmodified _KSWETFSGTV_ 0 0 0 ENST00000317025.12_1_8:38129919-38130090:-|nuORF ENST00000317025.12_1_8:38129919-38130090:-|nuORF ENST00000317025.12_1_8:38129919-38130090:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.1903076171875 3 381.188989 1140.54514 NaN NaN NaN NaN NaN NaN NaN 83.644 1 83.891 83.391 84.391 0.24722 0 0 0 0.99812 1 38501 38501 1.5923 0 1 14591 6909 9399 9420 16706 16706 -0.019511686275791362 KSWETFSGTV 10 Unmodified _KSWETFSGTV_ 0 0 0 ENST00000317025.12_1_8:38129919-38130090:-|nuORF ENST00000317025.12_1_8:38129919-38130090:-|nuORF ENST00000317025.12_1_8:38129919-38130090:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.19012451171875 3 381.188989 1140.54514 NaN NaN NaN NaN NaN NaN NaN 85.427 1 85.676 85.176 86.176 0.24857 0 0 0 0.99812 1 39312 39312 1.5923 0.52082 1 14592 6909 9399 9420 16707 16707 -0.019511686275791362 KSWKMCCCY 9 Unmodified _KSWKMCCCY_ 0 0 0 ENST00000367463.4_1_6:149342503-149394992:+|nuORF ENST00000367463.4_1_6:149342503-149394992:+|nuORF ENST00000367463.4_1_6:149342503-149394992:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 384.48736572265625 3 384.488343 1150.4432 NaN NaN NaN NaN NaN NaN NaN 44.02 1 44.02 43.52 44.52 0 0 0 0 0.91059 1 20086 20086 0.96228 0.72643 1 14593 7260 9400 9421 16708 16708 -0.1260052083850951 KSWKMCCCY 9 Unmodified _KSWKMCCCY_ 0 0 0 ENST00000367463.4_1_6:149342503-149394992:+|nuORF ENST00000367463.4_1_6:149342503-149394992:+|nuORF ENST00000367463.4_1_6:149342503-149394992:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 384.48760986328125 3 384.488343 1150.4432 NaN NaN NaN NaN NaN NaN NaN 42.851 1 43.121 42.621 43.621 0.27021 0 0 0 0.91059 1 19553 19553 0.96228 0.72643 1 14594 7260 9400 9421 16709 16709 -0.1260052083850951 KSWLERIP 8 Unmodified _KSWLERIP_ 0 0 0 ENSG00000121871|ENST00000475390|SLITRK3 ENSG00000121871|ENST00000475390|SLITRK3 ENSG00000121871|ENST00000475390|SLITRK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.5356750488281 3 343.534431 1027.58147 2.3733 0.0008153 1.026 0.00035248 3.3993 0.0011678 343.5346932809506 34.814 0.20886 35.437 35.271 35.48 0.62294 34 21 2 0 0 0 0.7441 1 15905 15905 1.4819 0.41044 1 2369700 14595 2246 9401 9422 16710 16710 0.06877753059802671 KTAANIRGDF 10 Unmodified _KTAANIRGDF_ 0 0 0 ENSG00000183747|ENST00000573854|ACSM2A;ENSG00000066813|ENST00000329697|ACSM2B ENSG00000183747|ENST00000573854|ACSM2A ENSG00000183747|ENST00000573854|ACSM2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.0847778320312 2 546.793455 1091.57236 NaN NaN NaN NaN NaN NaN NaN 86.939 1 86.969 86.469 87.469 0.030289 0 0 0 0.95729 1 43873 43873 12.241 1.4167 1 14596 714 9402 9423 16711 16711 0.03023359703456663 KTAGKILIKK 10 Unmodified _KTAGKILIKK_ 0 0 0 REV__nc|ENSG00000086232|Q9BQI3-2|EIF2AK1 REV__nc|ENSG00000086232|Q9BQI3-2|EIF2AK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.1793212890625 2 550.381709 1098.74886 NaN NaN NaN NaN NaN NaN NaN 72.773 1 72.773 72.273 73.273 0 0 0 0 1.0007 1 35408 35408 1.0715 0.38109 1 + 14597 10654 9403 9424 16712 16712 0.20344020604557045 KTAKRPLRIRG 11 Unmodified _KTAKRPLRIRG_ 0 0 0 REV__ENSG00000196074|ENST00000357552|SYCP2 REV__ENSG00000196074|ENST00000357552|SYCP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 432.5075988769531 3 432.6176 1294.83097 NaN NaN NaN NaN NaN NaN NaN 57.356 1 58.025 57.525 58.525 0.66829 0 0 0 1.0044 1 26246 26246 2.2527 0 1 + 14598 14187 9404 9425 16713 16713 0.19534935736191983 KTALERAKA 9 Unmodified _KTALERAKA_ 0 0 0 REV__ENST00000401715.2_1_6:10118966-10119482:+|nuORF REV__ENST00000401715.2_1_6:10118966-10119482:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.30224609375 2 494.300916 986.587279 2.0609 0.0010187 0.69121 0.00034167 2.7521 0.0013604 494.3011090171645 93.51 0.35022 93.596 93.46 93.81 0.086212 123 45 4 0 0 0 1.0246 1 49079 49079 3.5965 0 1 45980000 + 14599 16045 9405 9426 16714 16714 0.09344851571461277 KTAQETSTM 9 Unmodified _KTAQETSTM_ 0 0 0 AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant;ENSG00000153207|ENST00000648844|AHCTF1;nc|ENSG00000153207|Q8WYP5-3|AHCTF1;nc|ENSG00000153207|Q8WYP5-2|AHCTF1;ENST00000470300.5_1_1:247004234-247028597:-|nuORF;ENST00000420969.1_1_2:162357792-162360000:-|nuORF AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant;ENST00000420969.1_1_2:162357792-162360000:-|nuORF AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.7380676269531 2 498.736957 995.459361 NaN NaN NaN NaN NaN NaN NaN 92.465 1 92.548 92.048 93.048 0.082848 0 0 0 0.87786 1 48198 48198 6.7232 1.9672 1 14600 18;7755 9406 9427 16715 16715 -0.03855076804734381 KTEELVKI 8 Unmodified _KTEELVKI_ 0 0 0 REV__nc|ENSG00000108389|Q9NYA4|MTMR4 REV__nc|ENSG00000108389|Q9NYA4|MTMR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 320.5314636230469 3 320.530576 958.569897 2.1227 0.0006804 0.59203 0.00018976 2.7147 0.00087016 320.53068613666443 14.425 0.21156 14.425 14.314 14.525 0 24 13 3 0 0 0 0.51123 1 6344 6344 20.415 3.3016 1 499140 + 14601 11141 9407 9428 16716 16716 0.08895511245816579 KTEELVKI 8 Unmodified _KTEELVKI_ 0 0 0 REV__nc|ENSG00000108389|Q9NYA4|MTMR4 REV__nc|ENSG00000108389|Q9NYA4|MTMR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 320.5309753417969 3 320.530576 958.569897 2.2169 0.00071058 -0.73296 -0.00023494 1.4839 0.00047565 320.5303343896037 14.076 0.18079 14.303 14.221 14.402 0.22622 27 16 3 0 0 0 0.58446 1 6180 6180 15.248 3.0078 1 367760 + 14602 11141 9407 9428 16717 16717 0.08895511245816579 KTEKEIVQ 8 Unmodified _KTEKEIVQ_ 0 0 0 ENSG00000144395|ENST00000389175|CCDC150 ENSG00000144395|ENST00000389175|CCDC150 ENSG00000144395|ENST00000389175|CCDC150 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.7783203125 2 487.779482 973.544411 NaN NaN NaN NaN NaN NaN NaN 92.363 1 92.446 91.946 92.946 0.082848 0 0 0 0.92256 1 48109 48109 10.824 0 1 14603 3423 9408 9429 16718 16718 0.05658036723366422 KTFINKKKFS 10 Unmodified _KTFINKKKFS_ 0 0 0 REV__nc|ENSG00000129003|Q709C8-2|VPS13C REV__nc|ENSG00000129003|Q709C8-2|VPS13C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.9688110351562 2 620.874248 1239.73394 NaN NaN NaN NaN NaN NaN NaN 95.492 1 95.574 95.074 96.074 0.082001 0 0 0 0.99704 1 50484 50484 4.1895 0.24511 1 + 14604 11776 9409 9430 16719 16719 0.12366528736561122 KTFLRWWQWNR 11 Unmodified _KTFLRWWQWNR_ 0 0 0 REV__nc|ENSG00000100345|P35579-2|MYH9 REV__nc|ENSG00000100345|P35579-2|MYH9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 810.9305419921875 2 810.930951 1619.84735 NaN NaN NaN NaN NaN NaN NaN 62.846 1 62.846 62.346 63.346 0 0 0 0 1.008 1 29487 29487 0.26902 0.26902 1 + 14605 10822 9410 9431 16720 16720 0.0622201690230213 KTGPHLCELSK 11 Unmodified _KTGPHLCELSK_ 0 0 0 REV__ENSG00000205403|ENST00000394634|CFI REV__ENSG00000205403|ENST00000394634|CFI MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 606.8301391601562 2 606.823898 1211.63324 NaN NaN NaN NaN NaN NaN NaN 90.076 1 90.076 89.576 90.576 0 0 0 0 0.97602 1 47234 47234 8.9762 0.23084 1 + 14606 14461 9411 9432 16721 16721 0.03589128691373844 KTGREHLSVYA 11 Unmodified _KTGREHLSVYA_ 0 0 0 nc|ENSG00000148053|Q16620-7|NTRK2;nc|ENSG00000148053|Q16620-2|NTRK2;nc|ENSG00000148053|Q16620-3|NTRK2;nc|ENSG00000148053|Q16620-5|NTRK2;nc|ENSG00000148053|Q16620-6|NTRK2;nc|ENSG00000148053|Q16620|NTRK2;ENSG00000148053|ENST00000277120|NTRK2 nc|ENSG00000148053|Q16620-7|NTRK2 nc|ENSG00000148053|Q16620-7|NTRK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 630.8118896484375 2 630.838394 1259.66223 NaN NaN NaN NaN NaN NaN NaN 87.621 1 87.661 87.161 88.161 0.039955 0 0 0 1.0034 1 44412 44412 6.1918 0.89496 1 14607 3587 9412 9433 16722 16722 0.04278989312047088 KTGRRHQRR 9 Unmodified _KTGRRHQRR_ 0 0 0 REV__ENST00000485665.1_1_9:35680733-35681019:+|nuORF REV__ENST00000485665.1_1_9:35680733-35681019:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.858154296875 2 597.855578 1193.6966 4.1738 0.0024953 1.0707 0.00064011 5.2445 0.0031355 597.8560921384948 85.36 1.1938 86.026 85.471 86.665 0.66566 95 61 2 0 0 0 1.2126 1 39410 39410 0.52476 0 1 958420 + 14608 11107 9413 9434 16723 16723 0.10750295034154078 KTGRRHQRR 9 Unmodified _KTGRRHQRR_ 0 0 0 REV__ENST00000485665.1_1_9:35680733-35681019:+|nuORF REV__ENST00000485665.1_1_9:35680733-35681019:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.8590698242188 2 597.855578 1193.6966 4.1819 0.0025002 1.0971 0.00065593 5.2791 0.0031561 597.856047462573 87.599 1.5253 88.275 87.488 89.013 0.67554 152 70 4 0 0 0 1.2126 1 40519 40519 0.52476 0 1 3695000 + 14609 11107 9413 9434 16724 16724 0.10750295034154078 KTGRRKRF 8 Unmodified _KTGRRKRF_ 0 0 0 REV__nc|ENSG00000111341|P08493-2|MGP REV__nc|ENSG00000111341|P08493-2|MGP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 525.0004272460938 2 524.827966 1047.64138 NaN NaN NaN NaN NaN NaN NaN 76.805 1 77.429 76.929 77.929 0.62397 0 0 0 0.99035 1 37238 37238 5.2307 0.47466 1 + 14610 17894 9414 9435 16725 16725 0.1194648851369493 KTHIRKHK 8 Unmodified _KTHIRKHK_ 0 0 0 REV__ENSG00000182141|ENST00000356929|ZNF708 REV__ENSG00000182141|ENST00000356929|ZNF708 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.1045532226562 2 524.330342 1046.64613 NaN NaN NaN NaN NaN NaN NaN 69.542 1 69.542 69.042 70.042 0 0 0 0 0.99035 1 33589 33589 4.756 2.1785 1 + 14611 13873 9415 9436 16726 16726 0.12467372656442421 KTHRRRRPWPQ 11 Unmodified _KTHRRRRPWPQ_ 0 0 0 ENST00000375608.7_2_13:113548693-113669133:+|nuORF ENST00000375608.7_2_13:113548693-113669133:+|nuORF ENST00000375608.7_2_13:113548693-113669133:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 759.4366455078125 2 759.437267 1516.85998 3.7918 0.0028797 0.36154 0.00027457 4.1534 0.0031542 759.4371958568435 52.163 0.16563 52.426 52.319 52.485 0.26227 17 9 2 0 0 0 0.91068 1 23846 23846 1.3295 0 1 1137900 14612 7392 9416 9437 16727 16727 0.12222473085216734 KTIHSEQAVF 10 Unmodified _KTIHSEQAVF_ 0 0 0 ENST00000481337.5_1_3:105238990-105260608:+|nuORF;nc|ENSG00000170017|Q13740-4|ALCAM;nc|ENSG00000170017|Q13740-2|ALCAM;ENSG00000170017|ENST00000306107|ALCAM ENST00000481337.5_1_3:105238990-105260608:+|nuORF ENST00000481337.5_1_3:105238990-105260608:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 580.3106079101562 2 580.308938 1158.60332 NaN NaN NaN NaN NaN NaN NaN 102.5 1 102.82 102.32 103.32 0.31737 0 0 0 0.99983 1 47413 47413 1.8442 0 1 14613 4728 9417 9438 16728 16728 0.030365130177187893 KTIMWKKKKVQ 11 Unmodified _KTIMWKKKKVQ_ 0 0 0 ENST00000542713.1_1_6:35554594-35565048:-|nuORF ENST00000542713.1_1_6:35554594-35565048:-|nuORF ENST00000542713.1_1_6:35554594-35565048:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 709.4404296875 2 709.439232 1416.86391 NaN NaN NaN NaN NaN NaN NaN 60.729 1 61.469 60.969 61.969 0.7396 0 0 0 1.0063 1 28071 28071 2.4985 1.0166 1 14614 8820 9418 9439 16729 16729 0.17215381744040315 KTKARIVLAND 11 Unmodified _KTKARIVLAND_ 0 0 0 ENSG00000169299|ENST00000381967|PGM2;ENST00000515668.5_1_4:37841869-37848777:+|nuORF;nc|ENSG00000169299|Q96G03-2|PGM2;ENST00000505986.5_1_4:37841281-37848924:+|nuORF ENSG00000169299|ENST00000381967|PGM2 ENSG00000169299|ENST00000381967|PGM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.76458740234375 3 410.250583 1227.72992 NaN NaN NaN NaN NaN NaN NaN 73.5 1 73.759 73.259 74.259 0.25876 0 0 0 1.0059 1 33761 33761 1.2148 0.51716 1 14615 4682 9419 9440 16730 16730 0.1251643924281325 KTKEKYVL 8 Unmodified _KTKEKYVL_ 0 0 0 ENSG00000107338|ENST00000377707|SHB ENSG00000107338|ENST00000377707|SHB ENSG00000107338|ENST00000377707|SHB MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.5191650390625 3 336.874454 1007.60153 1.7969 0.00060532 2.2272 0.00075028 4.0241 0.0013556 336.87529132461634 12.767 0.36489 13.075 13.023 13.388 0.30727 21 13 2 0 0 0 0.13289 1 5891 5891 12.241 1.4411 1 634980 14616 1597 9420 9441 16731 16731 0.0980350399973986 KTKEKYVL 8 Unmodified _KTKEKYVL_ 0 0 0 ENSG00000107338|ENST00000377707|SHB ENSG00000107338|ENST00000377707|SHB ENSG00000107338|ENST00000377707|SHB MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 336.874454 1007.60153 2.5823 0.0008699 -1.2123 -0.00040839 1.37 0.00046152 336.8740406595549 12.748 0.16912 13.391 13.311 13.48 0.64272 0.15798 -0.00092204 NaN 12.241 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 249760 14617 1597 9420 9441 0.0980350399973986 KTKELEQI 8 Unmodified _KTKELEQI_ 0 0 0 REV__ENSG00000078814|ENST00000262873|MYH7B REV__ENSG00000078814|ENST00000262873|MYH7B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.19488525390625 3 330.193963 987.560061 1.7875 0.00059022 0.76478 0.00025252 2.5523 0.00084275 330.1942231949634 12.96 0.33729 13.268 13.125 13.463 0.30727 33 14 4 0 0 0 0.39589 1 5846 5846 29.082 7.5446 1 2458500 + 14618 10576 9421 9442 16732 16732 0.06578323240421469 KTKELEQI 8 Unmodified _KTKELEQI_ 0 0 0 REV__ENSG00000078814|ENST00000262873|MYH7B REV__ENSG00000078814|ENST00000262873|MYH7B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.1973571777344 3 330.193963 987.560061 NaN NaN NaN NaN NaN NaN NaN 12.779 1 13.422 12.922 13.922 0.64272 0 0 0 0.37748 1 5737 5737 26.268 5.6872 1 + 14619 10576 9421 9442 16733 16733 0.06578323240421469 KTKELEQI 8 Unmodified _KTKELEQI_ 0 0 0 REV__ENSG00000078814|ENST00000262873|MYH7B REV__ENSG00000078814|ENST00000262873|MYH7B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.1951904296875 3 330.193963 987.560061 NaN NaN NaN NaN NaN NaN NaN 12.794 1 13.437 12.937 13.937 0.64272 0 0 0 0.37748 1 5744 5744 26.268 4.7312 1 + 14620 10576 9421 9442 16734 16734 0.06578323240421469 KTKELEQI 8 Unmodified _KTKELEQI_ 0 0 0 REV__ENSG00000078814|ENST00000262873|MYH7B REV__ENSG00000078814|ENST00000262873|MYH7B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 330.193963 987.560061 1.9541 0.00064522 0.36696 0.00012117 2.321 0.00076639 330.1940302221433 13.027 0.18752 13.27 13.173 13.361 0.24346 0.0013811 -0.00019629 NaN 29.082 36 16 3 NaN NaN NaN NaN 0 NaN NaN 0 1221100 + 14621 10576 9421 9442 0.06578323240421469 KTKKFVPKGEK 11 Unmodified _KTKKFVPKGEK_ 0 0 0 REV__nc|ENSG00000112541|Q9Y233-1|PDE10A REV__nc|ENSG00000112541|Q9Y233-1|PDE10A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.40283203125 2 645.40063 1288.78671 NaN NaN NaN NaN NaN NaN NaN 89.803 1 89.867 89.367 90.367 0.064346 0 0 0 1.005 1 46105 46105 4.1895 1.4543 1 + 14622 11275 9422 9443 16735 16735 0.15386486799343402 KTKKKKKQSK 10 Unmodified _KTKKKKKQSK_ 0 0 0 REV__nc|ENSG00000158186|O14807-2|MRAS REV__nc|ENSG00000158186|O14807-2|MRAS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 616.1151733398438 2 616.414072 1230.81359 NaN NaN NaN NaN NaN NaN NaN 87.704 1 87.704 87.204 88.204 0 0 0 0 1.0007 1 45308 45308 1.0715 0.61312 1 + 14623 12817 9423 9444 16736 16736 0.20741595410527225 KTKKRLKHRFW 11 Unmodified _KTKKRLKHRFW_ 0 0 0 ENSG00000165733|ENST00000374518|BMS1;BMS1|p.K484Ifs*79|1|0.03|ENSG00000165733|chr10:42796694-42796695|-/TT|frameshift_variant;BMS1|p.F897Lfs*30|1|0.22|ENSG00000165733|chr10:42820344-42820344|T/-|frameshift_variant;ENST00000399449.3_1_10:75479037-75482200:-|nuORF;ENST00000456732.2_10:48190054-48195746:+|nuORF;nc|ENSG00000204172|Q5VTM2|AGAP9 ENSG00000165733|ENST00000374518|BMS1 ENSG00000165733|ENST00000374518|BMS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 764.47607421875 2 764.472786 1526.93102 NaN NaN NaN NaN NaN NaN NaN 12.428 1 12.428 11.928 12.928 0 0 0 0 1.0061 1 5397 5397 2.7352 1.8708 1 14624 4421 9424 9445 16737 16737 0.1886317306998535 KTKNQFIL 8 Unmodified _KTKNQFIL_ 0 0 0 ENST00000457685.6_1_20:45141455-45141713:-|nuORF ENST00000457685.6_1_20:45141455-45141713:-|nuORF ENST00000457685.6_1_20:45141455-45141713:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.203125 3 331.202682 990.586216 NaN NaN NaN NaN NaN NaN NaN 23.315 1 23.59 23.09 24.09 0.27562 0 0 0 0.12696 1 10533 10533 47.749 17.908 1 14625 8062 9425 9446 16738 16738 0.0905463720255284 KTKNQFIL 8 Unmodified _KTKNQFIL_ 0 0 0 ENST00000457685.6_1_20:45141455-45141713:-|nuORF ENST00000457685.6_1_20:45141455-45141713:-|nuORF ENST00000457685.6_1_20:45141455-45141713:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.203369140625 3 331.202682 990.586216 2.2476 0.00074441 0.19606 6.4934E-05 2.4436 0.00080934 331.2027486278367 22.838 0.22145 23.478 23.351 23.572 0.64051 49 30 2 0 0 0 0.31493 1 10427 10427 34.402 0.95682 1 2293600 14626 8062 9425 9446 16739 16739 0.0905463720255284 KTKPKKPKLP 10 Unmodified _KTKPKKPKLP_ 0 0 0 ENST00000345097.8_1_14:89628377-89628602:-|nuORF ENST00000345097.8_1_14:89628377-89628602:-|nuORF ENST00000345097.8_1_14:89628377-89628602:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.060302734375 2 582.894983 1163.77541 NaN NaN NaN NaN NaN NaN NaN 67.361 1 67.361 66.861 67.861 0 0 0 0 0.9962 1 32296 32296 4.897 0.56777 1 14627 7109 9426 9447 16740 16740 0.20007709495894233 KTKRKTKRQRQ 11 Unmodified _KTKRKTKRQRQ_ 0 0 0 REV__nc|ENSG00000290292|Q8IX15|HOMEZ REV__nc|ENSG00000290292|Q8IX15|HOMEZ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.8426818847656 3 486.642697 1456.90626 NaN NaN NaN NaN NaN NaN NaN 67.831 1 68.533 68.033 69.033 0.70218 0 0 0 1.0073 1 32288 32288 0.40827 0 1 + 14628 18172 9427 9448 16741 16741 0.19608493196642485 KTKRRLVLGLR 11 Unmodified _KTKRRLVLGLR_ 0 0 0 ENST00000498819.1_1_9:91963122-91972225:+|nuORF;nc|ENSG00000187742|Q96T21-2|SECISBP2;nc|ENSG00000187742|Q96T21-3|SECISBP2;ENSG00000187742|ENST00000375807|SECISBP2 ENST00000498819.1_1_9:91963122-91972225:+|nuORF ENST00000498819.1_1_9:91963122-91972225:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 670.4520874023438 2 670.454062 1338.89357 NaN NaN NaN NaN NaN NaN NaN 37.305 1 37.305 36.805 37.805 0 0 0 0 1.0081 1 16928 16928 0.23584 0.23584 1 14629 5633 9428 9449 16742 16742 0.23768081804382746 KTKTRRIIQYL 11 Unmodified _KTKTRRIIQYL_ 0 0 0 REV__ENST00000458537.7_1_3:170077925-170077985:+|nuORF REV__ENST00000458537.7_1_3:170077925-170077985:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.96441650390625 3 473.964666 1418.87217 NaN NaN NaN NaN NaN NaN NaN 73.946 1 73.946 73.446 74.446 0 0 0 0 1.0063 1 36086 36086 1.0136 0.50762 1 + 14630 16470 9429 9450 16743 16743 0.17948651985034303 KTKVKGALALL 11 Unmodified _KTKVKGALALL_ 0 0 0 REV__ENST00000443067.1_1_1:166765603-166766044:+|nuORF REV__ENST00000443067.1_1_1:166765603-166766044:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.8893432617188 2 571.386991 1140.75943 2.8767 0.0016437 1.5562 0.00088918 4.4328 0.0025329 571.8882849363503 69.998 0.051941 69.998 69.966 70.018 0 5 3 2 0 0 0 0.73918 1 33900 33900 9.544 4.2471 1 1545200 + 14631 16359 9430 9451 16744 16744 0.1946800325897584 KTKVKYYIRAV 11 Unmodified _KTKVKYYIRAV_ 0 0 0 REV__nc|ENSG00000153093|Q9NUZ1-2|ACOXL REV__nc|ENSG00000153093|Q9NUZ1-2|ACOXL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.9493408203125 3 456.950245 1367.82891 NaN NaN NaN NaN NaN NaN NaN 69.533 1 69.533 69.033 70.033 0 0 0 0 1.0065 1 33584 33584 2.2527 0.79761 1 + 14632 12667 9431 9452 16745 16745 0.15970462207724268 KTLCPVLAV 9 Unmodified _KTLCPVLAV_ 0 0 0 REV__nc|ENSG00000164050|O43157-2|PLXNB1 REV__nc|ENSG00000164050|O43157-2|PLXNB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 315.2045593261719 3 315.193018 942.557224 NaN NaN NaN NaN NaN NaN NaN 24.548 1 25.284 24.784 25.784 0.73623 0 0 0 0.90699 1 11001 11001 0.96228 0 1 + 14633 13054 9432 9453 16746 16746 0.08364776581913702 KTLILLLP 8 Unmodified _KTLILLLP_ 0 0 0 REV__ENSG00000143919|ENST00000378494|CAMKMT REV__ENSG00000143919|ENST00000378494|CAMKMT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 455.8199768066406 2 455.820421 909.62629 NaN NaN NaN NaN NaN NaN NaN 73.507 1 74.171 73.671 74.671 0.6644 0 0 0 0.99035 1 33782 33782 1.8442 1.0506 1 + 14634 12383 9433 9454 16747 16747 0.16786183873125538 KTLRLWRPPR 10 Unmodified _KTLRLWRPPR_ 0 0 0 ENST00000395315.2_1_2:54756482-54756872:+|nuORF ENST00000395315.2_1_2:54756482-54756872:+|nuORF ENST00000395315.2_1_2:54756482-54756872:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 661.914306640625 2 661.91203 1321.80951 NaN NaN NaN NaN NaN NaN NaN 55.547 1 56.334 55.834 56.834 0.78711 0 0 0 1.0015 1 25364 25364 0.40072 0.050084 1 14635 7552 9434 9455 16748 16748 0.16147550707501068 KTLYIGNIK 9 Unmodified _KTLYIGNIK_ 0 0 0 REV__nc|ENSG00000118690|Q8NEN0-2|ARMC2 REV__nc|ENSG00000118690|Q8NEN0-2|ARMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.5511779785156 3 350.54997 1048.62808 2.4151 0.00084662 -0.26786 -9.3898E-05 2.1473 0.00075272 350.54987450079335 33.143 0.22013 33.143 32.978 33.198 0 20 12 2 0 0 0 0.29024 2 14977 14977;15026 17.443 3.8278 1 605020 + 14636 11478 9435 9456 16749;16750 16749 0.10571192891075043 KTLYIGNIK 9 Unmodified _KTLYIGNIK_ 0 0 0 REV__nc|ENSG00000118690|Q8NEN0-2|ARMC2 REV__nc|ENSG00000118690|Q8NEN0-2|ARMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.5509948730469 3 350.54997 1048.62808 2.7048 0.00094815 -0.23113 -8.1024E-05 2.4736 0.00086713 350.55004160629403 32.881 0.34388 33.135 32.974 33.318 0.25389 26 14 3 0 0 0 0.29024 1 14986 14986 17.443 3.8278 1 487810 + 14637 11478 9435 9456 16751 16751 0.10571192891075043 KTLYIGNIK 9 Unmodified _KTLYIGNIK_ 0 0 0 REV__nc|ENSG00000118690|Q8NEN0-2|ARMC2 REV__nc|ENSG00000118690|Q8NEN0-2|ARMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.5511474609375 3 350.54997 1048.62808 2.3835 0.00083554 0.50095 0.00017561 2.8845 0.0010111 350.55022233013614 32.371 0.39545 32.989 32.731 33.126 0.61831 51 21 3 0 0 0 0.29024 1 14815 14815 17.443 3.8278 1 446490 + 14638 11478 9435 9456 16752 16752 0.10571192891075043 KTLYIGNIK 9 Unmodified _KTLYIGNIK_ 0 0 0 REV__nc|ENSG00000118690|Q8NEN0-2|ARMC2 REV__nc|ENSG00000118690|Q8NEN0-2|ARMC2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 350.54997 1048.62808 2.4151 0.00084662 -0.26786 -9.3898E-05 2.1473 0.00075272 350.54987450079335 33.143 0.22013 33.143 32.978 33.198 0 0.054157 -0.00035608 NaN 17.443 20 12 2 NaN NaN NaN NaN 0 NaN NaN 0 605020 + 14639 11478 9435 9456 0.10571192891075043 KTLYIGNIK 9 Unmodified _KTLYIGNIK_ 0 0 0 REV__nc|ENSG00000118690|Q8NEN0-2|ARMC2 REV__nc|ENSG00000118690|Q8NEN0-2|ARMC2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 350.54997 1048.62808 2.7048 0.00094815 -0.23113 -8.1024E-05 2.4736 0.00086713 350.55004160629403 32.881 0.34388 33.135 32.974 33.318 0.25389 0.045542 -0.00031745 NaN 17.443 26 14 3 NaN NaN NaN NaN 0 NaN NaN 0 487810 + 14640 11478 9435 9456 0.10571192891075043 KTLYIGNIK 9 Unmodified _KTLYIGNIK_ 0 0 0 REV__nc|ENSG00000118690|Q8NEN0-2|ARMC2 REV__nc|ENSG00000118690|Q8NEN0-2|ARMC2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 350.54997 1048.62808 2.3835 0.00083554 0.50095 0.00017561 2.8845 0.0010111 350.55022233013614 32.371 0.39545 32.989 32.731 33.126 0.61831 -0.099699 0.00045244 NaN 17.443 51 21 3 NaN NaN NaN NaN 0 NaN NaN 0 446490 + 14641 11478 9435 9456 0.10571192891075043 KTNRKSEELSK 11 Unmodified _KTNRKSEELSK_ 0 0 0 ENST00000585133.1_1_17:29162236-29196669:+|nuORF;nc|ENSG00000176208|Q96QE3-2|ATAD5;ENSG00000176208|ENST00000321990|ATAD5 ENST00000585133.1_1_17:29162236-29196669:+|nuORF ENST00000585133.1_1_17:29162236-29196669:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 660.7130737304688 2 660.367515 1318.72048 NaN NaN NaN NaN NaN NaN NaN 86.314 1 86.344 85.844 86.844 0.030289 0 0 0 1.0052 1 43398 43398 3.8763 0.59502 1 14642 5067 9436 9457 16753 16753 0.07386626166635324 KTPIKVKVI 9 Unmodified _KTPIKVKVI_ 0 0 0 nc|ENSG00000157617|Q9Y426-2|C2CD2;C2CD2|p.D643Tfs*4|1|0.22|ENSG00000157617|chr21:41889289-41889289|T/-|frameshift_variant;nc|ENSG00000157617|Q9Y426-3|C2CD2;ENSG00000157617|ENST00000380486|C2CD2 nc|ENSG00000157617|Q9Y426-2|C2CD2 nc|ENSG00000157617|Q9Y426-2|C2CD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.1466674804688 2 513.357702 1024.70085 NaN NaN NaN NaN NaN NaN NaN 67.082 1 67.786 67.286 68.286 0.70331 0 0 0 0.89983 1 31842 31842 3.5965 0.31518 1 14643 93 9437 9458 16754 16754 0.18948946684508883 KTPKLAQLH 9 Unmodified _KTPKLAQLH_ 0 0 0 REV__ENSG00000140093|ENST00000261994|SERPINA10 REV__ENSG00000140093|ENST00000261994|SERPINA10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.3193359375 2 518.319109 1034.62366 2.1282 0.0011031 -2.4648 -0.0012775 -0.33661 -0.00017447 518.3175347336066 102.62 0.20823 102.67 102.55 102.76 0.055092 12 8 2 0 0 0 1.129 1 55718 55718 1.8442 0 1 1136000 + 14644 12231 9438 9459 16755 16755 0.10773728468166155 KTPLKKIVTE 10 Unmodified _KTPLKKIVTE_ 0 0 0 REV__L1PB1_dup998|chr2:34715538-34720489:-|4.098121381973527|0.252296353110605|4.02|532.0|97|2|sense REV__L1PB1_dup998|chr2:34715538-34720489:-|4.098121381973527|0.252296353110605|4.02|532.0|97|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.8700561523438 2 578.868631 1155.72271 NaN NaN NaN NaN NaN NaN NaN 80.101 1 80.421 79.921 80.921 0.31998 0 0 0 0.99812 1 39155 39155 3.2813 0.28607 1 + 14645 17811 9439 9460 16756 16756 0.15107706642425 KTPNFLSSKVP 11 Unmodified _KTPNFLSSKVP_ 0 0 0 ENST00000367385.8_1_1:198126217-198201715:+|nuORF ENST00000367385.8_1_1:198126217-198201715:+|nuORF ENST00000367385.8_1_1:198126217-198201715:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 609.5650634765625 2 609.348063 1216.68157 NaN NaN NaN NaN NaN NaN NaN 83.884 1 83.913 83.413 84.413 0.028603 0 0 0 0.95688 1 41726 41726 10.8 0.72558 1 14646 7257 9440 9461 16757 16757 0.0818994560295323 KTPRLLNKTH 10 Unmodified _KTPRLLNKTH_ 0 0 0 REV__ENSG00000134588|ENST00000511190|USP26 REV__ENSG00000134588|ENST00000511190|USP26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 403.2474365234375 3 403.247173 1206.71969 1.3917 0.0005612 -0.61944 -0.00024979 0.77225 0.00031141 403.2468785553253 99.953 0.12102 100.02 99.95 100.07 0.062241 19 8 3 0 0 0 0.94134 1 54131 54131 0.62683 0 1 10112000 + 14647 11971 9441 9462 16758 16758 0.12459876308253115 KTPRRRRRHLR 11 Unmodified _KTPRRRRRHLR_ 0 0 0 ENST00000487330.1_1_9:74975472-74979818:-|nuORF;ENST00000376962.9_1_9:74978504-74980043:-|nuORF ENST00000487330.1_1_9:74975472-74979818:-|nuORF ENST00000487330.1_1_9:74975472-74979818:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 766.4882202148438 2 766.485082 1530.95561 NaN NaN NaN NaN NaN NaN NaN 83.041 1 83.041 82.541 83.541 0 0 0 0 1.008 1 41740 41740 0.26902 0.26902 1 14648 7406 9442 9463 16759 16759 0.21137245996101228 KTPRRRRRHLR 11 Unmodified _KTPRRRRRHLR_ 0 0 0 ENST00000487330.1_1_9:74975472-74979818:-|nuORF;ENST00000376962.9_1_9:74978504-74980043:-|nuORF ENST00000487330.1_1_9:74975472-74979818:-|nuORF ENST00000487330.1_1_9:74975472-74979818:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 766.4977416992188 2 766.485082 1530.95561 NaN NaN NaN NaN NaN NaN NaN 99.301 1 99.899 99.399 100.4 0.59748 0 0 0 1.008 1 45909 45909 0.26902 0.26902 1 14649 7406 9442 9463 16760 16760 0.21137245996101228 KTQAEIPELK 10 Unmodified _KTQAEIPELK_ 0 0 0 L1M1_dup8526|chr15:66988154-66991154:+|1.855404616008009|0.3427794237982891|2.44|523.0|39|2|sense L1M1_dup8526|chr15:66988154-66991154:+|1.855404616008009|0.3427794237982891|2.44|523.0|39|2|sense L1M1_dup8526|chr15:66988154-66991154:+|1.855404616008009|0.3427794237982891|2.44|523.0|39|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.2764892578125 2 578.832246 1155.64994 NaN NaN NaN NaN NaN NaN NaN 90.286 1 90.286 89.786 90.786 0 0 0 0 0.99572 1 47405 47405 5.2969 0.39987 1 14650 9427 9443 9464 16761 16761 0.07833952848977788 KTQPRLFNG 9 Unmodified _KTQPRLFNG_ 0 0 0 nc|ENSG00000127838|Q8N490-3|PNKD;nc|ENSG00000127838|Q8N490-4|PNKD;ENSG00000127838|ENST00000273077|PNKD nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.7955932617188 2 530.79854 1059.58253 NaN NaN NaN NaN NaN NaN NaN 89.931 1 89.931 89.431 90.431 0 0 0 0 0.70806 1 47114 47114 12.241 2.8575 1 14651 9630 9444 9465 16762 16762 0.05511967428697062 KTRAKELQGPW 11 Unmodified _KTRAKELQGPW_ 0 0 0 nc|ENSG00000175513|Q3SY00-2|TSGA10IP;ENSG00000175513|ENST00000532620|TSGA10IP nc|ENSG00000175513|Q3SY00-2|TSGA10IP nc|ENSG00000175513|Q3SY00-2|TSGA10IP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 438.5822448730469 3 438.582333 1312.72517 NaN NaN NaN NaN NaN NaN NaN 76.441 1 76.441 75.941 76.941 0 0 0 0 1.0059 1 37463 37463 1.2148 0 1 14652 5034 9445 9466 16763 16763 0.0813155510006709 KTRKAKEI 8 Unmodified _KTRKAKEI_ 0 0 0 AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant;ENSG00000153207|ENST00000648844|AHCTF1;nc|ENSG00000153207|Q8WYP5-3|AHCTF1;nc|ENSG00000153207|Q8WYP5-2|AHCTF1;ENST00000470300.5_1_1:247004234-247028597:-|nuORF;ENST00000420969.1_1_2:162357792-162360000:-|nuORF AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant;ENST00000420969.1_1_2:162357792-162360000:-|nuORF AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.4809875488281 2 487.311284 972.608014 NaN NaN NaN NaN NaN NaN NaN 70.145 1 70.848 70.348 71.348 0.70302 0 0 0 0.89651 1 33600 33600 12.532 0 1 14653 18;7755 9446 9467 16764 16764 0.12061441951118468 KTRKARKRH 9 Unmodified _KTRKARKRH_ 0 0 0 L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|59|3|sense L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|59|3|sense L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|59|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.2558898925781 3 394.254773 1179.74249 NaN NaN NaN NaN NaN NaN NaN 60.933 1 61.189 60.689 61.689 0.25578 0 0 0 0.90431 1 27905 27905 2.4985 1.722 1 14654 9439 9447 9468 16765 16765 0.15980940216400086 KTRKILGVGG 10 Unmodified _KTRKILGVGG_ 0 0 0 ENSG00000175274|ENST00000525680|TP53I11 ENSG00000175274|ENST00000525680|TP53I11 ENSG00000175274|ENST00000525680|TP53I11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.8302001953125 2 514.832383 1027.65021 NaN NaN NaN NaN NaN NaN NaN 85.329 1 85.329 84.829 85.829 0 0 0 0 0.9962 1 43419 43419 4.897 0.56777 1 14655 5027 9448 9469 16766 16766 0.13749417359531435 KTRKKLAMLAR 11 Unmodified _KTRKKLAMLAR_ 0 0 0 REV__ENSG00000176907|ENST00000315792|TCIM REV__ENSG00000176907|ENST00000315792|TCIM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 658.4198608398438 2 658.421374 1314.82819 NaN NaN NaN NaN NaN NaN NaN 60.828 1 61.568 61.068 62.068 0.7396 0 0 0 1.0061 1 28132 28132 2.7352 1.4057 1 + 14656 13716 9449 9470 16767 16767 0.18337344287033375 KTRKKTRKRR 10 Unmodified _KTRKKTRKRR_ 0 0 0 ENST00000361675.6_2_7:134618055-134618145:+|nuORF ENST00000361675.6_2_7:134618055-134618145:+|nuORF ENST00000361675.6_2_7:134618055-134618145:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 453.37261962890625 3 453.304016 1356.89022 NaN NaN NaN NaN NaN NaN NaN 68.281 1 68.281 67.781 68.781 0 0 0 0 0.99846 1 32868 32868 1.4551 0.34536 1 14657 7226 9450 9471 16768 16768 0.22604831750390986 KTRKRRRKRKK 11 Unmodified _KTRKRRRKRKK_ 0 0 0 ENST00000308478.9_1_7:110731416-110762496:+|nuORF ENST00000308478.9_1_7:110731416-110762496:+|nuORF ENST00000308478.9_1_7:110731416-110762496:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 771.0254516601562 2 771.026583 1540.03861 NaN NaN NaN NaN NaN NaN NaN 101.79 1 102.11 101.61 102.61 0.31737 0 0 0 1.0082 1 47097 47097 0 0 1 14658 6853 9451 9472 16769 16769 0.2901956272407915 KTRLKRKIR 9 Unmodified _KTRLKRKIR_ 0 0 0 nc|ENSG00000168314|Q13875-3|MOBP nc|ENSG00000168314|Q13875-3|MOBP nc|ENSG00000168314|Q13875-3|MOBP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 599.9127807617188 2 599.914573 1197.81459 NaN NaN NaN NaN NaN NaN NaN 12.31 1 12.618 12.118 13.118 0.30727 0 0 0 0.90699 1 5523 5523 1.8442 0 1 14659 9744 9452 9473 16770 16770 0.22359854570095195 KTRMRSLRKKR 11 Unmodified _KTRMRSLRKKR_ 0 0 0 ENSG00000105339|ENST00000519811|DENND3;ENST00000518198.1_1_8:142138775-142151424:+|nuORF;DENND3|p.F233Sfs*35|1|0.08|ENSG00000105339|chr8:141151699-141151700|-/AGTGG|frameshift_variant ENSG00000105339|ENST00000519811|DENND3 ENSG00000105339|ENST00000519811|DENND3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 730.393798828125 2 730.459353 1458.90415 NaN NaN NaN NaN NaN NaN NaN 25.629 1 25.629 25.129 26.129 0 0 0 0 1.0079 1 11509 11509 1.1933 0.92432 1 14660 1485 9453 9474 16771 16771 0.1930574118714503 KTRMRSLRKKR 11 Unmodified _KTRMRSLRKKR_ 0 0 0 ENSG00000105339|ENST00000519811|DENND3;ENST00000518198.1_1_8:142138775-142151424:+|nuORF;DENND3|p.F233Sfs*35|1|0.08|ENSG00000105339|chr8:141151699-141151700|-/AGTGG|frameshift_variant ENSG00000105339|ENST00000519811|DENND3 ENSG00000105339|ENST00000519811|DENND3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 730.4641723632812 2 730.459353 1458.90415 NaN NaN NaN NaN NaN NaN NaN 28.605 1 29.394 28.894 29.894 0.78921 0 0 0 1.0079 1 12886 12886 1.1933 0.84271 1 14661 1485 9453 9474 16772 16772 0.1930574118714503 KTRRQNLRQWR 11 Unmodified _KTRRQNLRQWR_ 0 0 0 REV__nc|ENSG00000165671|Q96L73-2|NSD1 REV__nc|ENSG00000165671|Q96L73-2|NSD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 771.4454345703125 2 771.447831 1540.88111 NaN NaN NaN NaN NaN NaN NaN 41.305 1 41.305 40.805 41.805 0 0 0 0 1.008 1 18769 18769 0.26902 0.26902 1 + 14662 13177 9454 9475 16773 16773 0.1323043839404363 KTSYTRPL 8 Unmodified _KTSYTRPL_ 0 0 0 REV__ENST00000534502.5_1_1:145818779-145826929:-|nuORF REV__ENST00000534502.5_1_1:145818779-145826929:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.18756103515625 2 483.274367 964.53418 NaN NaN NaN NaN NaN NaN NaN 70.72 1 71.424 70.924 71.924 0.70386 0 0 0 0.99035 1 33908 33908 8.5933 0.68312 1 + 14663 17168 9455 9476 16774 16774 0.05049473788801606 KTTAVSNLVSR 11 Unmodified _KTTAVSNLVSR_ 0 0 0 ENST00000343677.3_1_6:26056391-26056457:-|nuORF ENST00000343677.3_1_6:26056391-26056457:-|nuORF ENST00000343677.3_1_6:26056391-26056457:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.3426513671875 2 588.340769 1174.66699 NaN NaN NaN NaN NaN NaN NaN 12.283 1 12.59 12.09 13.09 0.30727 0 0 0 1.0075 1 5508 5508 0.96228 0.43751 1 14664 7094 9456 9477 16775 16775 0.08663873454815985 KTTLYPQMTM 10 Unmodified _KTTLYPQMTM_ 0 0 0 REV__nc|ENSG00000164190|Q6KC79-2|NIPBL REV__nc|ENSG00000164190|Q6KC79-2|NIPBL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 607.3037109375 2 607.30141 1212.58827 NaN NaN NaN NaN NaN NaN NaN 83.456 1 83.501 83.001 84.001 0.045006 0 0 0 0.98985 1 41419 41419 7.1017 2.7725 1 + 14665 13075 9457 9478 16776 16776 -0.009524381661549342 KTVKKIKVSVR 11 Unmodified _KTVKKIKVSVR_ 0 0 0 nc|ENSG00000141480|P32121-5|ARRB2;nc|ENSG00000141480|P32121-2|ARRB2;ENSG00000141480|ENST00000269260|ARRB2;nc|ENSG00000141480|P32121-3|ARRB2;nc|ENSG00000141480|P32121-4|ARRB2 nc|ENSG00000141480|P32121-5|ARRB2 nc|ENSG00000141480|P32121-5|ARRB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.3075561523438 2 643.437547 1284.86054 NaN NaN NaN NaN NaN NaN NaN 74.681 1 74.681 74.181 75.181 0 0 0 0 1.0073 1 36508 36508 1.1933 0 1 14666 3260 9458 9479 16777 16777 0.22950454961664946 KTVKQWIKLS 10 Unmodified _KTVKQWIKLS_ 0 0 0 REV__ENST00000511316.1_1_4:174254289-174255443:-|nuORF REV__ENST00000511316.1_1_4:174254289-174255443:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 410.92388916015625 3 410.923807 1229.74959 NaN NaN NaN NaN NaN NaN NaN 54.781 1 55.448 54.948 55.948 0.6665 0 0 0 0.99995 1 25069 25069 1.7423 0 1 + 14667 16975 9459 9480 16778 16778 0.14390815253614164 KTWRKRWFCFD 11 Unmodified _KTWRKRWFCFD_ 0 0 0 ENSG00000176531|ENST00000292140|PHLDB3 ENSG00000176531|ENST00000292140|PHLDB3 ENSG00000176531|ENST00000292140|PHLDB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 786.898681640625 2 786.898263 1571.78197 NaN NaN NaN NaN NaN NaN NaN 61.587 1 61.587 61.087 62.087 0 0 0 0 1.0073 1 28742 28742 1.1933 0.84271 1 14668 5082 9460 9481 16779 16779 0.018952793849166483 KTWRWPRRWTM 11 Unmodified _KTWRWPRRWTM_ 0 0 0 REV__ENST00000302517.7_1_5:139060409-139060541:+|nuORF REV__ENST00000302517.7_1_5:139060409-139060541:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 802.428466796875 2 802.424979 1602.83541 NaN NaN NaN NaN NaN NaN NaN 72.78 1 72.78 72.28 73.28 0 0 0 0 1.0073 1 35412 35412 1.1933 0.84271 1 + 14669 15200 9461 9482 16780 16780 0.05810076887428295 KTWSIMPYKL 10 Unmodified _KTWSIMPYKL_ 0 0 0 ENST00000308528.8_1_2:99912096-99914999:-|nuORF ENST00000308528.8_1_2:99912096-99914999:-|nuORF ENST00000308528.8_1_2:99912096-99914999:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.5699157714844 3 422.902015 1265.68422 2.9098 0.0012306 2.5261 0.0010683 5.4359 0.0022989 422.90351364691537 34.027 0.40767 34.647 34.332 34.739 0.62031 31 22 2 0 0 0 0.12676 1 15532 15532 1.7423 0.14999 1 483730 14670 6855 9462 9483 16781 16781 0.062000777362527515 KTYQESEEI 9 Unmodified _KTYQESEEI_ 0 0 0 ENSG00000165813|ENST00000369287|CCDC186;CCDC186|p.D453Vfs*25|1|0.04|ENSG00000165813|chr10:114136215-114136216|-/AATAAATA|frameshift_variant ENSG00000165813|ENST00000369287|CCDC186 ENSG00000165813|ENST00000369287|CCDC186 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.7664794921875 2 563.766768 1125.51898 NaN NaN NaN NaN NaN NaN NaN 90.106 1 90.171 89.671 90.671 0.064346 0 0 0 0.87786 1 46347 46347 6.7232 0.99131 1 14671 4426 9463 9484 16782 16782 -0.038754825897058254 KVAQNSIRRIA 11 Unmodified _KVAQNSIRRIA_ 0 0 0 nc|ENSG00000131269|O75027-3|ABCB7;ENSG00000131269|ENST00000373394|ABCB7;nc|ENSG00000131269|O75027-2|ABCB7 nc|ENSG00000131269|O75027-3|ABCB7 nc|ENSG00000131269|O75027-3|ABCB7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 628.3850708007812 2 628.383303 1254.75205 4.0956 0.0025736 -0.48717 -0.00030613 3.6084 0.0022674 628.3827896669425 89.994 1.1969 90.246 89.54 90.737 0.25136 85 56 3 0 0 0 0.91149 1 41336 41336 1.0715 0.10919 1 1529500 14672 2651 9464 9485 16783 16783 0.1348666371127365 KVARLLEVPVM 11 Unmodified _KVARLLEVPVM_ 0 0 0 ENST00000591718.1_1_19:55966993-55972941:-|nuORF;ENSG00000063241|ENST00000425675|ISOC2;nc|ENSG00000063241|Q96AB3-2|ISOC2 ENST00000591718.1_1_19:55966993-55972941:-|nuORF ENST00000591718.1_1_19:55966993-55972941:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.4458312988281 4 314.445517 1253.75296 2.2064 0.0006938 -0.86568 -0.00027221 1.3407 0.00042159 314.44513092555525 53.827 0.78648 54.092 53.85 54.637 0.26462 73 32 3 0 0 0 0.13295 1 24604 24604 1.4551 1.4551 1 721820 14673 658 9465 9486 16784 16784 0.1362374203595209 KVARLLEVPVM 11 Unmodified _KVARLLEVPVM_ 0 0 0 ENST00000591718.1_1_19:55966993-55972941:-|nuORF;ENSG00000063241|ENST00000425675|ISOC2;nc|ENSG00000063241|Q96AB3-2|ISOC2 ENST00000591718.1_1_19:55966993-55972941:-|nuORF ENST00000591718.1_1_19:55966993-55972941:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 314.445517 1253.75296 2.3546 0.0007404 -1.3361 -0.00042015 1.0185 0.00032025 314.4450188960826 54.421 0.3754 54.421 54.106 54.482 0 0.25816 -0.00025976 NaN 1.4551 43 30 2 NaN NaN NaN NaN 0 NaN NaN 0 792080 14674 658 9465 9486 0.1362374203595209 KVARLLEVPVM 11 Unmodified _KVARLLEVPVM_ 0 0 0 ENST00000591718.1_1_19:55966993-55972941:-|nuORF;ENSG00000063241|ENST00000425675|ISOC2;nc|ENSG00000063241|Q96AB3-2|ISOC2 ENST00000591718.1_1_19:55966993-55972941:-|nuORF ENST00000591718.1_1_19:55966993-55972941:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 314.445517 1253.75296 2.0787 0.00065363 -1.8758 -0.00058983 0.20291 6.3803E-05 314.4447895985634 53.313 0.29476 54.117 54.028 54.323 0.80351 -0.045822 -0.0009385 NaN 1.4551 46 28 2 NaN NaN NaN NaN 0 NaN NaN 0 767480 14675 658 9465 9486 0.1362374203595209 KVARLLEVPVM 11 Unmodified _KVARLLEVPVM_ 0 0 0 ENST00000591718.1_1_19:55966993-55972941:-|nuORF;ENSG00000063241|ENST00000425675|ISOC2;nc|ENSG00000063241|Q96AB3-2|ISOC2 ENST00000591718.1_1_19:55966993-55972941:-|nuORF ENST00000591718.1_1_19:55966993-55972941:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 314.445517 1253.75296 1.9625 0.0006171 -0.83021 -0.00026106 1.1323 0.00035605 314.44519164730923 53.357 0.60848 54.021 53.711 54.319 0.6644 -0.14164 0.0003766 NaN 1.4551 64 27 3 NaN NaN NaN NaN 0 NaN NaN 0 925580 14676 658 9465 9486 0.1362374203595209 KVAWISQELP 10 Unmodified _KVAWISQELP_ 0 0 0 REV__nc|ENSG00000091039|Q9BZF1-3|OSBPL8 REV__nc|ENSG00000091039|Q9BZF1-3|OSBPL8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 390.8898010253906 3 390.888763 1169.64446 2.7287 0.0010666 0.99154 0.00038758 3.7202 0.0014542 390.889157790635 57.502 0.32429 57.502 57.35 57.675 0 83 39 3 0 0 0 0.90778 1 26457 26457 3.3196 1.5774 1 1545600 + 14677 10724 9466 9487 16785 16785 0.06642274057185205 KVAWISQELP 10 Unmodified _KVAWISQELP_ 0 0 0 REV__nc|ENSG00000091039|Q9BZF1-3|OSBPL8 REV__nc|ENSG00000091039|Q9BZF1-3|OSBPL8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 390.8897399902344 3 390.888763 1169.64446 2.3773 0.00092928 0.69644 0.00027223 3.0738 0.0012015 391.22330987402756 60.996 0.54821 60.996 60.845 61.393 0 92 57 2 0 0 0 0.90778 1 28430 28430 3.3196 0.58445 1 2284700 + 14678 10724 9466 9487 16786 16786 0.06642274057185205 KVAWISQELP 10 Unmodified _KVAWISQELP_ 0 0 0 REV__nc|ENSG00000091039|Q9BZF1-3|OSBPL8 REV__nc|ENSG00000091039|Q9BZF1-3|OSBPL8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 390.8896484375 3 390.888763 1169.64446 2.3049 0.00090097 1.1239 0.00043931 3.4288 0.0013403 390.88918013265277 56.349 0.3192 57.126 56.929 57.248 0.77786 59 31 2 0 0 0 0.90778 1 25743 25743 3.3196 0 1 1098600 + 14679 10724 9466 9487 16787 16787 0.06642274057185205 KVAWISQELP 10 Unmodified _KVAWISQELP_ 0 0 0 REV__nc|ENSG00000091039|Q9BZF1-3|OSBPL8 REV__nc|ENSG00000091039|Q9BZF1-3|OSBPL8 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 390.888763 1169.64446 2.9379 0.0011484 0.45697 0.00017862 3.3949 0.001327 390.88901782088334 60.612 0.086136 60.868 60.848 60.934 0.25578 -0.13831 -0.00047783 NaN 3.3196 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 855050 + 14680 10724 9466 9487 0.06642274057185205 KVAWIVLVN 9 Unmodified _KVAWIVLVN_ 0 0 0 REV__ENSG00000163485|ENST00000337894|ADORA1 REV__ENSG00000163485|ENST00000337894|ADORA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.3261108398438 2 521.326402 1040.63825 NaN NaN NaN NaN NaN NaN NaN 53.941 1 54.608 54.108 55.108 0.6665 0 0 0 0.90699 1 24669 24669 1.8442 0 1 + 14681 12991 9467 9488 16788 16788 0.11955800616328816 KVDALIGDI 9 Unmodified _KVDALIGDI_ 0 0 0 REV__ENSG00000058085|ENST00000264144|LAMC2 REV__ENSG00000058085|ENST00000264144|LAMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 315.18804931640625 3 315.186809 942.538597 2.1853 0.00068879 1.1025 0.00034748 3.2878 0.0010363 315.1872825550375 12.724 0.095606 12.724 12.675 12.77 0 7 5 2 0 0 0 0.89849 1 5560 5560 3.5871 0 1 827550 + 14682 10379 9468 9489 16789 16789 0.06502938211713172 KVEILKRPNL 10 Unmodified _KVEILKRPNL_ 0 0 0 REV__ENSG00000136448|ENST00000258960|NMT1 REV__ENSG00000136448|ENST00000258960|NMT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 605.3946533203125 2 605.387522 1208.76049 NaN NaN NaN NaN NaN NaN NaN 57.705 1 57.705 57.205 58.205 0 0 0 0 0.9952 1 26606 26606 5.7319 0.83484 1 + 14683 12069 9469 9490 16790 16790 0.16446217627890292 KVEKHLWGRVI 11 Unmodified _KVEKHLWGRVI_ 0 0 0 REV__ENSG00000145555|ENST00000513610|MYO10 REV__ENSG00000145555|ENST00000513610|MYO10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 683.056396484375 2 682.911696 1363.80884 NaN NaN NaN NaN NaN NaN NaN 91.483 1 91.566 91.066 92.066 0.082848 0 0 0 1.0044 1 47425 47425 4.897 1.9018 1 + 14684 12445 9470 9491 16791 16791 0.14148711267785075 KVEKLRHKK 9 Unmodified _KVEKLRHKK_ 0 0 0 ENST00000423596.5_1_21:40834466-40883616:+|nuORF;ENST00000380637.7_1_21:40834409-40883616:+|nuORF ENST00000423596.5_1_21:40834466-40883616:+|nuORF ENST00000423596.5_1_21:40834466-40883616:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.2559814453125 3 389.25578 1164.74551 NaN NaN NaN NaN NaN NaN NaN 43.029 1 43.299 42.799 43.799 0.27021 0 0 0 0.91238 1 19642 19642 0.23584 0 1 14685 7470 9471 9492 16792 16792 0.16972770550546556 KVERKVVI 8 Unmodified _KVERKVVI_ 0 0 0 REV__USP44|p.I413Mfs*26|1|0.12|ENSG00000136014|chr12:95533021-95533022|-/GATTTTTAAGAATCTTATTTTCATC|frameshift_variant REV__USP44|p.I413Mfs*26|1|0.12|ENSG00000136014|chr12:95533021-95533022|-/GATTTTTAAGAATCTTATTTTCATC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.5230712890625 3 324.218443 969.633501 NaN NaN NaN NaN NaN NaN NaN 27.722 1 28.341 27.841 28.841 0.61947 0 0 0 0.99035 1 12709 12709 1.4819 0 1 + 14686 12056 9472 9493 16793 16793 0.1474691647357531 KVFPPGPA 8 Unmodified _KVFPPGPA_ 0 0 0 ENST00000472100.5_1_7:1468322-1474217:-|nuORF ENST00000472100.5_1_7:1468322-1474217:-|nuORF ENST00000472100.5_1_7:1468322-1474217:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 406.7380065917969 2 406.736889 811.459225 2.2402 0.00091119 -0.11086 -4.509E-05 2.1294 0.0008661 406.7365977416276 12.728 0.088026 12.99 12.948 13.036 0.26154 10 7 2 0 0 0 0.5047 1 5540 5540 20.871 9.7567 1 1603100 14687 8185 9473 9494 16794 16794 0.04595336048237186 KVFVLGRQ 8 Unmodified _KVFVLGRQ_ 0 0 0 ENST00000449407.6_1_4:186733067-186733193:-|nuORF ENST00000449407.6_1_4:186733067-186733193:-|nuORF ENST00000449407.6_1_4:186733067-186733193:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.797119140625 2 473.795269 945.575986 NaN NaN NaN NaN NaN NaN NaN 67.364 1 68.022 67.522 68.522 0.65777 0 0 0 0.99035 1 30879 30879 2.3027 0 1 14688 8000 9474 9495 16795 16795 0.10102074267990702 KVIEPLKDFHK 11 Unmodified _KVIEPLKDFHK_ 0 0 0 ENSG00000163655|ENST00000496455|GMPS;nc|ENSG00000163655|P49915-2|GMPS ENSG00000163655|ENST00000496455|GMPS ENSG00000163655|ENST00000496455|GMPS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.9342346191406 3 451.934484 1352.78162 NaN NaN NaN NaN NaN NaN NaN 94.4 1 94.659 94.159 95.159 0.25975 0 0 0 1.008 1 43379 43379 0.36667 0.20735 1 14689 4238 9475 9496 16796 16796 0.11934182936715843 KVILKKKKKLL 11 Unmodified _KVILKKKKKLL_ 0 0 0 NOS1AP|p.R207Gfs*32|1|0.46|ENSG00000198929|chr1:162355208-162355209|-/GG|frameshift_variant;ENSG00000198929|ENST00000361897|NOS1AP NOS1AP|p.R207Gfs*32|1|0.46|ENSG00000198929|chr1:162355208-162355209|-/GG|frameshift_variant NOS1AP|p.R207Gfs*32|1|0.46|ENSG00000198929|chr1:162355208-162355209|-/GG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.00244140625 2 669.999783 1337.98501 NaN NaN NaN NaN NaN NaN NaN 50.634 1 51.452 50.952 51.952 0.81738 0 0 0 1.0082 1 23063 23063 0 0 1 14690 5965 9476 9497 16797 16797 0.3295395244902011 KVKCKRHRP 9 Unmodified _KVKCKRHRP_ 0 0 0 SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant;nc|ENSG00000135317|Q9Y5W7-3|SNX14;nc|ENSG00000135317|Q9Y5W7-4|SNX14;ENSG00000135317|ENST00000314673|SNX14;ENST00000508980.5_1_6:86270935-86284080:-|nuORF;SNX14|p.L337*|1|0.35|ENSG00000135317|chr6:85547210-85547210|A/-|frameshift_variant;nc|ENSG00000135317|Q9Y5W7-2|SNX14 SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 384.5709533691406 3 384.569593 1150.68695 3.1661 0.0012176 0.67646 0.00026014 3.8425 0.0014777 384.56982494536015 89.052 0.54246 89.303 89.152 89.695 0.25118 49 23 3 0 0 0 1.1849 1 41009 41009 0.96228 0.96228 1 2096500 14691 2863 9477 9498 16798 16798 0.11763390704413723 KVKEKAKY 8 Unmodified _KVKEKAKY_ 0 0 0 REV__ENST00000555152.1_1_14:31425402-31433568:-|nuORF REV__ENST00000555152.1_1_14:31425402-31433568:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 497.308349609375 2 497.30821 992.601866 NaN NaN NaN NaN NaN NaN NaN 10.151 1 10.446 9.9462 10.946 0.2956 0 0 0 0.99035 1 4478 4478 2.3027 0 1 + 14692 17317 9478 9499 16799 16799 0.105269237196012 KVKKKEKKQ 9 Unmodified _KVKKKEKKQ_ 0 0 0 nc|ENSG00000171634|Q12830-4|BPTF;BPTF|p.A3017Efs*15|1|0.04|ENSG00000171634|chr17:67975903-67975904|-/AATATTCT|frameshift_variant;ENSG00000171634|ENST00000306378|BPTF;nc|ENSG00000171634|Q12830|BPTF nc|ENSG00000171634|Q12830-4|BPTF nc|ENSG00000171634|Q12830-4|BPTF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 572.2471923828125 2 572.38224 1142.74993 NaN NaN NaN NaN NaN NaN NaN 17.716 1 17.917 17.417 18.417 0.20057 0 0 0 0.90611 1 7848 7848 2.0598 0.40713 1 14693 87 9479 9500 16800 16800 0.18426234973458122 KVKKLFVG 8 Unmodified _KVKKLFVG_ 0 0 0 ENSG00000177733|ENST00000314940|HNRNPA0 ENSG00000177733|ENST00000314940|HNRNPA0 ENSG00000177733|ENST00000314940|HNRNPA0 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 459.8135070800781 2 459.810388 917.606223 NaN NaN NaN NaN NaN NaN NaN 76.515 1 77.179 76.679 77.679 0.66387 0 0 0 0.99035 1 35249 35249 0.79363 0 1 14694 5136 9480 9501 16801 16801 0.14412432933181663 KVKKLVVIKNP 11 Unmodified _KVKKLVVIKNP_ 0 0 0 REV__ENSG00000178997|ENST00000458580|EXD1 REV__ENSG00000178997|ENST00000458580|EXD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.4056396484375 2 633.437015 1264.85948 NaN NaN NaN NaN NaN NaN NaN 42.797 1 43.612 43.112 44.112 0.81444 0 0 0 1.0059 1 19456 19456 2.9952 1.5133 1 + 14695 13778 9481 9502 16802 16802 0.2376424059279998 KVKKRKHK 8 Unmodified _KVKKRKHK_ 0 0 0 REV__ENST00000478196.6_1_2:55459960-55462152:+|nuORF REV__ENST00000478196.6_1_2:55459960-55462152:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.2440490722656 3 351.245215 1050.71382 NaN NaN NaN NaN NaN NaN NaN 31.87 1 32.658 32.158 33.158 0.78795 0 0 0 0.99035 1 14401 14401 0.40072 0 1 + 14696 12385 9482 9503 16803 16803 0.1904882258725138 KVKKVLKVKR 10 Unmodified _KVKKVLKVKR_ 0 0 0 REV__ENST00000496806.2_1_6:87865339-87969852:+|nuORF REV__ENST00000496806.2_1_6:87865339-87969852:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.4431762695312 2 613.445175 1224.8758 NaN NaN NaN NaN NaN NaN NaN 10.102 1 10.102 9.6022 10.602 0 0 0 0 1.002 1 4524 4524 0 0 1 + 14697 16856 9483 9504 16804 16804 0.2723536654950749 KVKQRLIEI 9 Unmodified _KVKQRLIEI_ 0 0 0 ENSG00000148848|ENST00000448723|ADAM12;nc|ENSG00000148848|O43184|ADAM12;ENST00000485388.2_1_10:127779503-127797212:-|nuORF;nc|ENSG00000148848|O43184-3|ADAM12;nc|ENSG00000148848|O43184-4|ADAM12;nc|ENSG00000148848|O43184-2|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 ENSG00000148848|ENST00000448723|ADAM12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.372314453125 2 563.868966 1125.72338 3.5674 0.0020116 0.60215 0.00033954 4.1696 0.0023511 563.8693784642136 29.544 0.20248 30.162 30.04 30.243 0.61789 20 12 2 0 0 0 1.178 1 13550 13550 0.52476 0 1 95635 14698 3619 9484 9505 16805 16805 0.16554546082124943 KVLAAGVVPLL 11 Unmodified _KVLAAGVVPLL_ 0 0 0 ENSG00000128342|ENST00000249075|LIF ENSG00000128342|ENST00000249075|LIF ENSG00000128342|ENST00000249075|LIF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.36083984375 2 540.362985 1078.71142 NaN NaN NaN NaN NaN NaN NaN 29.3 1 29.56 29.06 30.06 0.2602 0 0 0 1.0071 1 13333 13333 1.4819 0 1 14699 2509 9485 9506 16806 16806 0.17520929338934366 KVLARARP 8 Unmodified _KVLARARP_ 0 0 0 REV__nc|ENSG00000176055|Q68D91-2|MBLAC2 REV__nc|ENSG00000176055|Q68D91-2|MBLAC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.193603515625 3 304.203016 909.587219 NaN NaN NaN NaN NaN NaN NaN 43.513 1 43.783 43.283 44.283 0.27021 0 0 0 0.99035 1 19876 19876 0.40072 0 1 + 14700 18051 9486 9507 16807 16807 0.128808963621168 KVLARARP 8 Unmodified _KVLARARP_ 0 0 0 REV__nc|ENSG00000176055|Q68D91-2|MBLAC2 REV__nc|ENSG00000176055|Q68D91-2|MBLAC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.193603515625 3 304.203016 909.587219 NaN NaN NaN NaN NaN NaN NaN 43.583 1 43.853 43.353 44.353 0.26974 0 0 0 0.99035 1 19907 19907 0.40072 0 1 + 14701 18051 9486 9507 16808 16808 0.128808963621168 KVLARARP 8 Unmodified _KVLARARP_ 0 0 0 REV__nc|ENSG00000176055|Q68D91-2|MBLAC2 REV__nc|ENSG00000176055|Q68D91-2|MBLAC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 304.1932373046875 3 304.203016 909.587219 NaN NaN NaN NaN NaN NaN NaN 40.781 1 41.425 40.925 41.925 0.64451 0 0 0 0.99035 1 18644 18644 0.40072 0 1 + 14702 18051 9486 9507 16809 16809 0.128808963621168 KVLCILWDMET 11 Unmodified _KVLCILWDMET_ 0 0 0 nc|ENSG00000120868|O14727-5|APAF1;nc|ENSG00000120868|O14727-3|APAF1;nc|ENSG00000120868|O14727-4|APAF1;nc|ENSG00000120868|O14727-2|APAF1;ENSG00000120868|ENST00000551964|APAF1 nc|ENSG00000120868|O14727-5|APAF1 nc|ENSG00000120868|O14727-5|APAF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.8996887207031 3 450.898053 1349.67233 2.8899 0.001303 0.1255 5.6586E-05 3.0154 0.0013596 450.8980680566125 51.801 0.33142 51.801 51.53 51.862 0 47 23 3 0 0 0 0.82535 1 23711 23711 2.6312 1.4164 1 872730 14703 2214 9487 9508 16810 16810 0.0114809293070266 KVLKKKLKIAL 11 Unmodified _KVLKKKLKIAL_ 0 0 0 ENST00000374791.7_1_11:132205045-132205564:+|nuORF ENST00000374791.7_1_11:132205045-132205564:+|nuORF ENST00000374791.7_1_11:132205045-132205564:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.4710693359375 2 641.470858 1280.92716 NaN NaN NaN NaN NaN NaN NaN 60.18 1 60.18 59.68 60.68 0 0 0 0 1.0082 1 27905 27905 0 0 1 14704 7386 9488 9509 16811 16811 0.29793690523592886 KVLLKLSLILI 11 Unmodified _KVLLKLSLILI_ 0 0 0 Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|42|3|sense Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|42|3|sense Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|42|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 626.953125 2 626.951967 1251.88938 NaN NaN NaN NaN NaN NaN NaN 39.752 1 40.552 40.052 41.052 0.80014 0 0 0 1.0082 1 17998 17998 0 0 1 14705 9371 9489 9510 16812 16812 0.2735117953814097 KVLMIVSKL 9 Unmodified _KVLMIVSKL_ 0 0 0 ENST00000608432.5_2_2:145780810-145939776:+|nuORF ENST00000608432.5_2_2:145780810-145939776:+|nuORF ENST00000608432.5_2_2:145780810-145939776:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 344.22869873046875 3 344.227951 1029.66202 NaN NaN NaN NaN NaN NaN NaN 44.774 1 44.774 44.274 45.274 0 0 0 0 0.90611 1 20472 20472 1.0715 0 1 14706 9343 9490 9511 16813 16813 0.1483789805847664 KVLPGFKNL 9 Unmodified _KVLPGFKNL_ 0 0 0 ENST00000503174.1_1_4:149073618-149075900:-|nuORF;ENST00000503313.1_1_4:149067883-149122244:-|nuORF;ENSG00000151623|ENST00000358102|NR3C2;nc|ENSG00000151623|P08235-3|NR3C2 ENST00000503174.1_1_4:149073618-149075900:-|nuORF ENST00000503174.1_1_4:149073618-149075900:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.318603515625 2 508.318577 1014.6226 NaN NaN NaN NaN NaN NaN NaN 54.015 1 54.015 53.515 54.515 0 0 0 0 0.90611 1 24768 24768 2.0598 0 1 14707 3719 9491 9512 16814 16814 0.11587514099278451 KVLVKARRKLI 11 Unmodified _KVLVKARRKLI_ 0 0 0 ENST00000437151.1_1_6:87680204-87680483:+|nuORF ENST00000437151.1_1_6:87680204-87680483:+|nuORF ENST00000437151.1_1_6:87680204-87680483:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 662.4703979492188 2 662.469181 1322.92381 NaN NaN NaN NaN NaN NaN NaN 63.334 1 63.992 63.492 64.492 0.65808 0 0 0 1.0082 1 29022 29022 0 0 1 14708 7904 9492 9513 16815 16815 0.2752644046959176 KVLWTIFAYN 10 Unmodified _KVLWTIFAYN_ 0 0 0 REV__ENSG00000181458|ENST00000323523|TMEM45A REV__ENSG00000181458|ENST00000323523|TMEM45A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 627.8501586914062 2 627.847699 1253.68084 NaN NaN NaN NaN NaN NaN NaN 70.796 1 71.052 70.552 71.552 0.25642 0 0 0 1.0003 1 32422 32422 1.4819 0.28856 1 + 14709 13855 9493 9514 16816 16816 0.06415150953898774 KVMHRRRRKPQ 11 Unmodified _KVMHRRRRKPQ_ 0 0 0 REV__ENST00000525788.1_1_11:8639545-8642109:-|nuORF REV__ENST00000525788.1_1_11:8639545-8642109:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.01031494140625 3 497.968639 1490.88409 NaN NaN NaN NaN NaN NaN NaN 70.727 1 70.727 70.227 71.227 0 0 0 0 1.0079 1 34352 34352 0.45452 0.35968 1 + 14710 17086 9494 9515 16817 16817 0.15827990247225898 KVNRIRTRI 9 Unmodified _KVNRIRTRI_ 0 0 0 ENSG00000170681|ENST00000307584|CAVIN4 ENSG00000170681|ENST00000307584|CAVIN4 ENSG00000170681|ENST00000307584|CAVIN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.3764038085938 2 578.375281 1154.73601 NaN NaN NaN NaN NaN NaN NaN 45.68 1 45.948 45.448 46.448 0.26768 0 0 0 0.87786 1 20884 20884 6.7232 2.3939 1 14711 4763 9495 9516 16818 16818 0.1648300226502215 KVPLQHGQAR 10 Unmodified _KVPLQHGQAR_ 0 0 0 REV__ENST00000495607.5_1_22:50750570-50752368:-|nuORF REV__ENST00000495607.5_1_22:50750570-50752368:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3322143554688 2 567.330539 1132.64652 3.6436 0.0020671 -0.87711 -0.00049761 2.7665 0.0015695 567.3299142838137 85.817 1.6519 86.066 85.213 86.865 0.24857 189 85 3 0 0 0 0.90859 1 39219 39219 3.2813 1.4371 1 2716600 + 14712 14464 9496 9517 16819 16819 0.08550747585650242 KVPMKPKRVV 10 Unmodified _KVPMKPKRVV_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;TTN|p.R30215Vfs*13|1|0.21|ENSG00000155657|chr2:178545544-178545544|G/-|frameshift_variant;TTN|p.P20319Hfs*66|1|0.07|ENSG00000155657|chr2:178582577-178582578|-/AAAATAAATAT|frameshift_variant;TTN|p.A15448Hfs*16|1|0.24|ENSG00000155657|chr2:178610249-178610261|TTCTCCTCCCAGC/-|frameshift_variant;TTN|p.G17760Ifs*40|1|0.07|ENSG00000155657|chr2:178594192-178594193|-/TCGACTTCAGAGAT|frameshift_variant;TTN|p.V17759Afs*3|1|0.05|ENSG00000155657|chr2:178594194-178594195|-/G|frameshift_variant ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.0133056640625 2 591.381186 1180.74782 NaN NaN NaN NaN NaN NaN NaN 68.686 1 69.389 68.889 69.889 0.70218 0 0 0 0.9754 1 32772 32772 9.3831 1.7742 1 14713 3871 9497 9518 16820 16820 0.16467482964003466 KVPRKRRVIKK 11 Unmodified _KVPRKRRVIKK_ 0 0 0 REV__ENST00000525971.6_1_12:85431954-85518298:+|nuORF REV__ENST00000525971.6_1_12:85431954-85518298:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.9969787597656 3 469.996412 1406.96741 NaN NaN NaN NaN NaN NaN NaN 16.298 1 16.498 15.998 16.998 0.20057 0 0 0 1.0082 1 7195 7195 0 0 1 + 14714 11939 9498 9519 16821 16821 0.2802004996672167 KVPRKRRVIKK 11 Unmodified _KVPRKRRVIKK_ 0 0 0 REV__ENST00000525971.6_1_12:85431954-85518298:+|nuORF REV__ENST00000525971.6_1_12:85431954-85518298:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 704.4916381835938 2 704.490979 1406.96741 NaN NaN NaN NaN NaN NaN NaN 89.042 1 89.094 88.594 89.594 0.052155 0 0 0 1.0082 1 45534 45534 0 0 1 + 14715 11939 9498 9519 16822 16822 0.2802004996672167 KVPVFCTRKL 10 Unmodified _KVPVFCTRKL_ 0 0 0 REV__ENST00000492155.5_1_10:13749216-13749624:-|nuORF REV__ENST00000492155.5_1_10:13749216-13749624:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 595.8579711914062 2 595.857544 1189.70053 NaN NaN NaN NaN NaN NaN NaN 11.23 1 11.23 10.73 11.73 0 0 0 0 1.0015 1 4911 4911 0.40072 0.050084 1 + 14716 16808 9499 9520 16823 16823 0.11327203693008414 KVQLSNLQLI 10 Unmodified _KVQLSNLQLI_ 0 0 0 REV__ENST00000243644.8_1_19:52469101-52469245:-|nuORF REV__ENST00000243644.8_1_19:52469101-52469245:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.7942504882812 2 578.358431 1154.70231 NaN NaN NaN NaN NaN NaN NaN 68.622 1 69.325 68.825 69.825 0.70218 0 0 0 0.9754 1 32736 32736 9.3831 1.2276 1 + 14717 14885 9500 9521 16824 16824 0.1311453598261778 KVRGPRKRGR 10 Unmodified _KVRGPRKRGR_ 0 0 0 REV__ENST00000568710.1_1_16:67585-84971:-|nuORF REV__ENST00000568710.1_1_16:67585-84971:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.9301452636719 3 403.93029 1208.76904 NaN NaN NaN NaN NaN NaN NaN 40.892 1 41.161 40.661 41.661 0.26904 0 0 0 0.99995 1 18608 18608 1.7423 0 1 + 14718 17435 9501 9522 16825 16825 0.1730062910773995 KVRKRIPLIPD 11 Unmodified _KVRKRIPLIPD_ 0 0 0 REV__nc|ENSG00000078487|Q9H0M4-4|ZCWPW1 REV__nc|ENSG00000078487|Q9H0M4-4|ZCWPW1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 667.9349365234375 2 667.935171 1333.85579 NaN NaN NaN NaN NaN NaN NaN 102.89 1 103.49 102.99 103.99 0.59759 0 0 0 1.0073 1 47614 47614 1.1933 0.79263 1 + 14719 10571 9502 9523 16826 16826 0.20221570818921464 KVRRQRPRRR 10 Unmodified _KVRRQRPRRR_ 0 0 0 ENSG00000149428|ENST00000617285|HYOU1;ENST00000533381.5_1_11:118925895-118927580:-|nuORF;ENST00000526354.1_1_11:118926460-118927810:-|nuORF ENSG00000149428|ENST00000617285|HYOU1 ENSG00000149428|ENST00000617285|HYOU1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 704.455322265625 2 704.453251 1406.89195 NaN NaN NaN NaN NaN NaN NaN 70.055 1 70.055 69.555 70.555 0 0 0 0 1.0001 1 33927 33927 1.6526 0.17072 1 14720 3643 9503 9524 16827 16827 0.20477885558989328 KVRVLRPAL 9 Unmodified _KVRVLRPAL_ 0 0 0 ENSG00000153561|ENST00000283632|RMND5A ENSG00000153561|ENST00000283632|RMND5A ENSG00000153561|ENST00000283632|RMND5A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.243408203125 3 351.241471 1050.70258 NaN NaN NaN NaN NaN NaN NaN 38.182 1 38.182 37.682 38.682 0 0 0 0 0.91238 1 17328 17328 0.23584 0 1 14721 3790 9504 9525 16828 16828 0.1792600049311659 KVRYKRLLLHV 11 Unmodified _KVRYKRLLLHV_ 0 0 0 REV__nc|ENSG00000185247|P43364-2|MAGEA11 REV__nc|ENSG00000185247|P43364-2|MAGEA11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 475.4713134765625 3 475.645267 1423.91397 NaN NaN NaN NaN NaN NaN NaN 65.815 1 65.815 65.315 66.315 0 0 0 0 1.0072 1 31369 31369 1.3296 0 1 + 14722 14009 9505 9526 16829 16829 0.21897252464214034 KVSKREKA 8 Unmodified _KVSKREKA_ 0 0 0 ENST00000437800.6_1_12:6925109-6928492:+|nuORF;ENSG00000010610|ENST00000011653|CD4 ENST00000437800.6_1_12:6925109-6928492:+|nuORF ENST00000437800.6_1_12:6925109-6928492:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.5474853515625 2 473.295633 944.576714 2.9232 0.0013835 0.43868 0.00020763 3.3619 0.0015912 473.29571396560266 57.73 0.22832 57.73 57.664 57.893 0 33 20 2 0 0 0 0.13877 1 26621 26621 6.7232 2.3939 1 953720 14723 402 9506 9527 16830 16830 0.10220868917031112 KVVATRRS 8 Unmodified _KVVATRRS_ 0 0 0 REV__TRIM23|p.G22R|1|0.13|ENSG00000113595|chr5:65624211-65624211|C/T|missense_variant REV__TRIM23|p.G22R|1|0.13|ENSG00000113595|chr5:65624211-65624211|C/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 458.78973388671875 2 458.787976 915.561398 3.0335 0.0013918 0.601 0.00027573 3.6345 0.0016675 458.788200292952 88.46 0.73123 88.712 88.39 89.122 0.25118 111 32 5 0 0 0 0.7471 1 40612 40612 0.69038 0 1 49128000 + 14724 18238 9507 9528 16831 16831 0.10024002119860143 KVVKAQLWIYL 11 Unmodified _KVVKAQLWIYL_ 0 0 0 ENSG00000138379|ENST00000260950|MSTN ENSG00000138379|ENST00000260950|MSTN ENSG00000138379|ENST00000260950|MSTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.28546142578125 3 454.283224 1359.82784 3.6298 0.0016489 1.1425 0.00051901 4.7722 0.0021679 454.2837681699146 105.57 0.33856 105.89 105.65 105.99 0.31782 23 13 2 0 0 0 0.91378 1 48663 48663 0.094841 0 1 937620 14725 3088 9508 9529 16832 16832 0.1623224783884325 KVVKMMIIVV 10 Unmodified _KVVKMMIIVV_ 0 0 0 ENSG00000169836|ENST00000304883|TACR3 ENSG00000169836|ENST00000304883|TACR3 ENSG00000169836|ENST00000304883|TACR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.24969482421875 3 387.248358 1158.72324 2.7505 0.0010651 0.21456 8.3088E-05 2.9651 0.0011482 387.2484166196642 28.445 0.36703 29.064 28.893 29.26 0.61947 51 21 3 0 0 0 0.93372 1 13106 13106 2.086 0.34373 1 784560 14726 4715 9509 9530 16833 16833 0.15023086766245797 KVVRNRSREAR 11 Unmodified _KVVRNRSREAR_ 0 0 0 ENSG00000197728|ENST00000646449|RPS26;ENST00000447425.1_1_7:22813267-22813561:-|nuORF;ENST00000479856.1_1_17:8464744-8464891:+|nuORF ENSG00000197728|ENST00000646449|RPS26 ENSG00000197728|ENST00000646449|RPS26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.9119262695312 2 685.908008 1369.80146 4.5121 0.0030949 0.5766 0.00039549 5.0887 0.0034904 685.9083621922492 95.394 1.3047 95.661 95.107 96.411 0.2675 166 74 3 0 0 0 0.91184 1 43724 43724 0.96228 0.61164 1 1640800 14727 5838 9510 9531 16834 16834 0.13135371720068179 KVVVVDNKRRK 11 Unmodified _KVVVVDNKRRK_ 0 0 0 REV__ENSG00000206432|ENST00000383490|TMEM200C REV__ENSG00000206432|ENST00000383490|TMEM200C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 670.9301147460938 2 670.927877 1339.8412 NaN NaN NaN NaN NaN NaN NaN 59.064 1 59.064 58.564 59.564 0 0 0 0 0.98464 1 27289 27289 8.1555 1.9497 1 + 14728 14475 9511 9532 16835 16835 0.1848749867076549 KVYKWITRKRM 11 Unmodified _KVYKWITRKRM_ 0 0 0 REV__ENST00000296255.7_1_3:128356748-128363813:-|nuORF REV__ENST00000296255.7_1_3:128356748-128363813:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 754.9451904296875 2 754.947756 1507.88096 NaN NaN NaN NaN NaN NaN NaN 73.679 1 73.938 73.438 74.438 0.25876 0 0 0 1.008 1 33848 33848 0.26902 0 1 + 14729 15148 9512 9533 16836 16836 0.14733302349804944 KVYSLPRM 8 Unmodified _KVYSLPRM_ 0 0 0 ENST00000360370.8_1_3:125725223-125725439:-|nuORF ENST00000360370.8_1_3:125725223-125725439:-|nuORF ENST00000360370.8_1_3:125725223-125725439:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.8876647949219 3 331.856517 992.547722 2.1802 0.0007235 0.3664 0.00012159 2.5466 0.00084509 331.856637117026 25.946 0.46514 26.571 26.403 26.868 0.62505 56 35 2 0 0 0 0.14021 1 11865 11865 8.7454 0.58988 1 582090 14730 7212 9513 9534 16837 16837 0.05115008296399992 KWEKYAESDTF 11 Unmodified _KWEKYAESDTF_ 0 0 0 REV__nc|ENSG00000168016|O15050|TRANK1 REV__nc|ENSG00000168016|O15050|TRANK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 702.330322265625 2 702.327524 1402.6405 3.9673 0.0027863 -0.026214 -1.8411E-05 3.9411 0.0027679 702.3275817498474 59.923 0.16814 60.588 60.46 60.628 0.66503 13 8 2 0 0 0 0.62928 1 27432 27432 14.405 2.9107 1 647150 + 14731 13323 9514 9535 16838 16838 -0.04471860227226898 KWEKYAESDTF 11 Unmodified _KWEKYAESDTF_ 0 0 0 REV__nc|ENSG00000168016|O15050|TRANK1 REV__nc|ENSG00000168016|O15050|TRANK1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 702.327524 1402.6405 3.8292 0.0026894 -1.8071 -0.0012692 2.0221 0.0014202 702.3266569820732 60.399 0.11696 60.655 60.579 60.696 0.25578 0.033364 -0.00092877 NaN 14.405 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 384310 + 14732 13323 9514 9535 -0.04471860227226898 KWEKYAESDTF 11 Unmodified _KWEKYAESDTF_ 0 0 0 REV__nc|ENSG00000168016|O15050|TRANK1 REV__nc|ENSG00000168016|O15050|TRANK1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 702.327524 1402.6405 3.9673 0.0027863 -0.026214 -1.8411E-05 3.9411 0.0027679 702.3275817498474 59.923 0.16814 60.588 60.46 60.628 0.66503 -0.033364 0.0015727 NaN 14.405 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 647150 + 14733 13323 9514 9535 -0.04471860227226898 KWFFQKLRF 9 Unmodified _KWFFQKLRF_ 0 0 0 ENSG00000131469|ENST00000253788|RPL27 ENSG00000131469|ENST00000253788|RPL27 ENSG00000131469|ENST00000253788|RPL27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 433.9179382324219 3 433.916876 1298.7288 2.6611 0.0011547 -0.40431 -0.00017544 2.2568 0.00097926 433.91691449628155 60.743 0.14687 60.743 60.671 60.817 0 35 16 3 0 0 0 0.0043297 1 28280 28280 93.166 81.534 1 2121000 14734 2661 9515 9536 16839 16839 0.09138269664572363 KWFFQKLRF 9 Unmodified _KWFFQKLRF_ 0 0 0 ENSG00000131469|ENST00000253788|RPL27 ENSG00000131469|ENST00000253788|RPL27 ENSG00000131469|ENST00000253788|RPL27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 433.91748046875 3 433.916876 1298.7288 2.4295 0.0010542 0.091382 3.9652E-05 2.5209 0.0010939 433.91701476629 59.676 0.29633 60.425 60.257 60.553 0.74927 53 22 3 0 0 0 0.025135 1 27414 27414 61.602 52.85 1 1649900 14735 2661 9515 9536 16840 16840 0.09138269664572363 KWFFQKLRF 9 Unmodified _KWFFQKLRF_ 0 0 0 ENSG00000131469|ENST00000253788|RPL27 ENSG00000131469|ENST00000253788|RPL27 ENSG00000131469|ENST00000253788|RPL27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 433.9181213378906 3 433.916876 1298.7288 2.9106 0.0012629 -0.32787 -0.00014227 2.5827 0.0011207 433.9167975013709 60.972 0.44187 61.228 61.039 61.481 0.25578 40 19 3 0 0 0 0.097139 1 27913 27913 33.445 30.125 1 464330 14736 2661 9515 9536 16841 16841 0.09138269664572363 KWFHERGQEF 10 Unmodified _KWFHERGQEF_ 0 0 0 nc|ENSG00000072682|O15460|P4HA2;ENSG00000072682|ENST00000360568|P4HA2;ENST00000474628.1_1_5:131528705-131530745:-|nuORF nc|ENSG00000072682|O15460|P4HA2 nc|ENSG00000072682|O15460|P4HA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 455.2242126464844 3 455.222916 1362.64692 2.8428 0.0012941 0.076475 3.4813E-05 2.9193 0.0013289 455.2229536472954 27.27 0.22739 28.048 27.91 28.138 0.7787 26 16 2 0 0 0 0.64548 1 12264 12264 15.739 9.1152 1 388540 14737 795 9516 9537 16842 16842 -0.019898774851753842 KWFHERGQEF 10 Unmodified _KWFHERGQEF_ 0 0 0 nc|ENSG00000072682|O15460|P4HA2;ENSG00000072682|ENST00000360568|P4HA2;ENST00000474628.1_1_5:131528705-131530745:-|nuORF nc|ENSG00000072682|O15460|P4HA2 nc|ENSG00000072682|O15460|P4HA2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 455.222916 1362.64692 3.1011 0.0014117 0.48666 0.00022154 3.5878 0.0016332 455.2231335251426 28.412 0.25516 28.412 28.358 28.614 0 0.18202 0.00025642 NaN 15.739 24 18 2 NaN NaN NaN NaN 0 NaN NaN 0 422810 14738 795 9516 9537 -0.019898774851753842 KWFKHIIRFI 10 Unmodified _KWFKHIIRFI_ 0 0 0 ENST00000409175.5_1_2:160599702-160602296:+|nuORF ENST00000409175.5_1_2:160599702-160602296:+|nuORF ENST00000409175.5_1_2:160599702-160602296:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 694.4247436523438 2 694.4217 1386.82885 4.1521 0.0028833 1.1804 0.00081969 5.3324 0.003703 694.4219392423056 94.568 0.33983 95.186 94.942 95.282 0.61737 41 21 3 0 0 0 0.94246 1 43464 43464 0.40072 0 1 590370 14739 7654 9517 9538 16843 16843 0.15090506998399178 KWFYYSTRYVY 11 Unmodified _KWFYYSTRYVY_ 0 0 0 ENSG00000170881|ENST00000303545|RNF139;RNF139|p.L406Pfs*11|1|0.25|ENSG00000170881|chr8:124486866-124486866|T/-|frameshift_variant ENSG00000170881|ENST00000303545|RNF139 ENSG00000170881|ENST00000303545|RNF139 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 788.384521484375 2 788.385177 1574.7558 NaN NaN NaN NaN NaN NaN NaN 54.868 1 55.133 54.633 55.633 0.26543 0 0 0 1.008 1 25081 25081 0.26902 0 1 14740 4770 9518 9539 16844 16844 -0.008587113055227746 KWGNKAQLYI 10 Unmodified _KWGNKAQLYI_ 0 0 0 REV__ENSG00000170881|ENST00000303545|RNF139 REV__ENSG00000170881|ENST00000303545|RNF139 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.5653076171875 3 407.564391 1219.67134 2.8831 0.001175 0.20789 8.4729E-05 3.091 0.0012598 407.5643859962284 27.512 0.22363 27.775 27.709 27.933 0.26245 26 17 2 0 0 0 0.67467 1 12561 12561 14.405 3.6059 1 600000 + 14741 13460 9519 9540 16845 16845 0.07029382668360995 KWGNKAQLYI 10 Unmodified _KWGNKAQLYI_ 0 0 0 REV__ENSG00000170881|ENST00000303545|RNF139 REV__ENSG00000170881|ENST00000303545|RNF139 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 407.56573486328125 3 407.564391 1219.67134 2.8464 0.0011601 -0.21881 -8.918E-05 2.6276 0.0010709 407.5642550756189 27.127 0.27143 27.749 27.637 27.908 0.62179 30 16 2 0 0 0 0.7069 1 12424 12424 12.873 0.69786 1 525260 + 14742 13460 9519 9540 16846 16846 0.07029382668360995 KWGPASQQI 9 Unmodified _KWGPASQQI_ 0 0 0 nc|ENSG00000135100|P20823-5|HNF1A;nc|ENSG00000135100|P20823-6|HNF1A;nc|ENSG00000135100|P20823-3|HNF1A;nc|ENSG00000135100|P20823-2|HNF1A;nc|ENSG00000135100|P20823|HNF1A;ENSG00000135100|ENST00000257555|HNF1A;nc|ENSG00000135100|P20823-7|HNF1A;nc|ENSG00000275410|P35680-3|HNF1B;nc|ENSG00000275410|P35680-4|HNF1B;nc|ENSG00000275410|P35680-2|HNF1B;ENSG00000275410|ENST00000617811|HNF1B nc|ENSG00000135100|P20823-5|HNF1A nc|ENSG00000135100|P20823-5|HNF1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.7723693847656 2 507.771991 1013.52943 2.7993 0.0014214 0.94332 0.00047899 3.7426 0.0019004 507.77222069950216 34.445 0.26227 34.445 34.271 34.533 0 17 12 2 0 0 0 0.02234 1 15604 15604 65.235 23.14 1 384440 14743 2849 9520 9541 16847 16847 0.023205896460467557 KWIFKLILKDI 11 Unmodified _KWIFKLILKDI_ 0 0 0 REV__L1MD2_dup3931|chr7:382708-385046:+|1.236162871048498|0.3102442397353085|1.99|537.0|24|1|sense REV__L1MD2_dup3931|chr7:382708-385046:+|1.236162871048498|0.3102442397353085|1.99|537.0|24|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.30670166015625 3 472.970758 1415.89044 3.0268 0.0014316 0.80795 0.00038214 3.8348 0.0018137 472.9711154440041 50.702 0.46025 50.702 50.588 51.048 0 46 25 2 0 0 0 0.91345 1 23271 23271 0.45452 0.35968 1 6731800 + 14744 17765 9521 9542 16848 16848 0.19913393907017962 KWIFKLILKDI 11 Unmodified _KWIFKLILKDI_ 0 0 0 REV__L1MD2_dup3931|chr7:382708-385046:+|1.236162871048498|0.3102442397353085|1.99|537.0|24|1|sense REV__L1MD2_dup3931|chr7:382708-385046:+|1.236162871048498|0.3102442397353085|1.99|537.0|24|1|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.2283630371094 3 472.970758 1415.89044 3.0268 0.0014316 0.80795 0.00038214 3.8348 0.0018137 472.9711154440041 50.702 0.46025 50.702 50.588 51.048 0 46 25 2 0 0 0 0.13295 1 23290 23290 0.45452 0.45452 1 6731800 + 14745 17765 9521 9542 16849 16849 0.19913393907017962 KWIIWVFKA 9 Unmodified _KWIIWVFKA_ 0 0 0 ENST00000378566.5_1_9:35104983-35105103:-|nuORF ENST00000378566.5_1_9:35104983-35105103:-|nuORF ENST00000378566.5_1_9:35104983-35105103:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 595.8598022460938 2 595.85787 1189.70119 NaN NaN NaN NaN NaN NaN NaN 11.119 1 11.399 10.899 11.899 0.2792 0 0 0 0.91238 1 4826 4826 0.52476 0.12405 1 14746 7437 9522 9543 16850 16850 0.11392366404379572 KWKKFVRRKKK 11 Unmodified _KWKKFVRRKKK_ 0 0 0 ENST00000429378.5_3_16:242971-256079:-|nuORF ENST00000429378.5_3_16:242971-256079:-|nuORF ENST00000429378.5_3_16:242971-256079:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 766.5072631835938 2 766.506629 1530.99871 NaN NaN NaN NaN NaN NaN NaN 95.582 1 96.19 95.69 96.69 0.60769 0 0 0 1.0082 1 43954 43954 0 0 1 14747 7833 9523 9544 16851 16851 0.2544462300079431 KWKKHQKKLKK 11 Unmodified _KWKKHQKKLKK_ 0 0 0 ENSG00000232113|ENST00000417563|TEX50 ENSG00000232113|ENST00000417563|TEX50 ENSG00000232113|ENST00000417563|TEX50 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 740.4863891601562 2 740.485363 1478.95617 NaN NaN NaN NaN NaN NaN NaN 68.123 1 68.783 68.283 69.283 0.65924 0 0 0 1.0082 1 31227 31227 0 0 1 14748 6187 9524 9545 16852 16852 0.23585227872581527 KWKNMEHDWLH 11 Unmodified _KWKNMEHDWLH_ 0 0 0 REV__ENST00000528159.1_1_11:44228449-44265767:+|nuORF REV__ENST00000528159.1_1_11:44228449-44265767:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.1697998046875 3 508.578594 1522.71395 NaN NaN NaN NaN NaN NaN NaN 75.642 1 76.306 75.806 76.806 0.6644 0 0 0 1.0073 1 34853 34853 0.40827 0 1 + 14749 12612 9525 9546 16853 16853 -0.026495902656961334 KWKRKNYL 8 Unmodified _KWKRKNYL_ 0 0 0 ENST00000490957.5_1_7:11013950-11101713:+|nuORF;nc|ENSG00000106443|O94880-1|PHF14;ENSG00000106443|ENST00000634607|PHF14;nc|ENSG00000106443|O94880-2|PHF14 ENST00000490957.5_1_7:11013950-11101713:+|nuORF ENST00000490957.5_1_7:11013950-11101713:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.5828552246094 3 379.229342 1134.6662 2.8633 0.0010859 -0.68108 -0.00025828 2.1822 0.00082757 379.2286474195506 25.888 0.051994 26.155 26.122 26.174 0.26777 6 4 2 0 0 0 0.14313 1 11740 11740 1.6526 0 1 135330 14750 1571 9526 9547 16854 16854 0.10425123596405683 KWLGHLQL 8 Unmodified _KWLGHLQL_ 0 0 0 REV__chr10:104977493-105043055|323|21.83|0.61|5.16|+|2|SORCS3,SORCS3|1 REV__chr10:104977493-105043055|323|21.83|0.61|5.16|+|2|SORCS3,SORCS3|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 332.2003173828125 3 332.199272 993.575986 2.4283 0.00080668 1.1272 0.00037445 3.5555 0.0011811 332.19943936444344 49.786 0.6311 50.048 49.562 50.193 0.26146 55 24 3 0 0 0 0.74071 1 22670 22670 1.6526 0 1 865000 + 14751 10014 9527 9548 16855 16855 0.0789407426799471 KWLKVKRSEH 10 Unmodified _KWLKVKRSEH_ 0 0 0 ENSG00000135740|ENST00000299798|SLC9A5;ENST00000564812.5_1_16:67289762-67292232:+|nuORF;ENST00000564704.5_1_16:67289660-67296168:+|nuORF ENSG00000135740|ENST00000299798|SLC9A5 ENSG00000135740|ENST00000299798|SLC9A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.8880615234375 2 655.888221 1309.76189 NaN NaN NaN NaN NaN NaN NaN 33.527 1 33.781 33.281 34.281 0.25389 0 0 0 1.0015 1 15264 15264 0.40072 0 1 14752 2893 9528 9549 16856 16856 0.11939851716624617 KWLLPFHQVR 10 Unmodified _KWLLPFHQVR_ 0 0 0 REV__nc|ENSG00000138639|Q8N264-5|ARHGAP24 REV__nc|ENSG00000138639|Q8N264-5|ARHGAP24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.69854736328125 4 331.697567 1322.76116 2.3851 0.00079115 0.18087 5.9994E-05 2.566 0.00085114 331.69758879254715 48.965 0.23801 49.62 49.453 49.691 0.65524 15 8 2 0 0 0 0.94099 1 22404 22404 0.69767 0 1 1436500 + 14753 17959 9529 9550 16857 16857 0.11269057067579524 KWLTKSFHF 9 Unmodified _KWLTKSFHF_ 0 0 0 nc|ENSG00000080189|Q9NQQ7-2|SLC35C2;ENSG00000080189|ENST00000372230|SLC35C2;nc|ENSG00000080189|Q9NQQ7-3|SLC35C2 nc|ENSG00000080189|Q9NQQ7-2|SLC35C2 nc|ENSG00000080189|Q9NQQ7-2|SLC35C2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 398.5545959472656 3 398.553715 1192.63931 2.4705 0.00098461 0.10478 4.1759E-05 2.5752 0.0010264 398.5536519635218 46.194 0.26324 46.194 46.044 46.307 0 29 12 3 0 0 0 0.10837 1 21133 21133 22.658 17.255 1 1552400 14754 903 9530 9551 16858 16858 0.0507001498522186 KWLTKSFHF 9 Unmodified _KWLTKSFHF_ 0 0 0 nc|ENSG00000080189|Q9NQQ7-2|SLC35C2;ENSG00000080189|ENST00000372230|SLC35C2;nc|ENSG00000080189|Q9NQQ7-3|SLC35C2 nc|ENSG00000080189|Q9NQQ7-2|SLC35C2 nc|ENSG00000080189|Q9NQQ7-2|SLC35C2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.5545959472656 3 398.553715 1192.63931 2.5634 0.0010216 -0.22559 -8.9909E-05 2.3378 0.00093174 398.55365923830675 45.039 0.27611 45.865 45.708 45.984 0.82621 32 12 3 0 0 0 0.048676 1 20512 20512 37.075 28.098 1 983640 14755 903 9530 9551 16859 16859 0.0507001498522186 KWLTKSFHF 9 Unmodified _KWLTKSFHF_ 0 0 0 nc|ENSG00000080189|Q9NQQ7-2|SLC35C2;ENSG00000080189|ENST00000372230|SLC35C2;nc|ENSG00000080189|Q9NQQ7-3|SLC35C2 nc|ENSG00000080189|Q9NQQ7-2|SLC35C2 nc|ENSG00000080189|Q9NQQ7-2|SLC35C2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.5547180175781 3 398.553715 1192.63931 NaN NaN NaN NaN NaN NaN NaN 45.158 1 45.984 45.484 46.484 0.82621 0 0 0 0.52632 1 20565 20565 17.443 9.8337 1 14756 903 9530 9551 16860 16860 0.0507001498522186 KWLTKSFHF 9 Unmodified _KWLTKSFHF_ 0 0 0 nc|ENSG00000080189|Q9NQQ7-2|SLC35C2;ENSG00000080189|ENST00000372230|SLC35C2;nc|ENSG00000080189|Q9NQQ7-3|SLC35C2 nc|ENSG00000080189|Q9NQQ7-2|SLC35C2 nc|ENSG00000080189|Q9NQQ7-2|SLC35C2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 398.553715 1192.63931 3.135 0.0012495 0.21011 8.3742E-05 3.3451 0.0013332 398.5535966616452 45.212 0.17597 45.863 45.807 45.983 0.65104 -0.16911 0.0004564 NaN 37.075 14 6 3 NaN NaN NaN NaN 0 NaN NaN 0 376070 14757 903 9530 9551 0.0507001498522186 KWLYRHRKRFF 11 Unmodified _KWLYRHRKRFF_ 0 0 0 REV__ENST00000438724.5_1_13:79951611-79952941:-|nuORF REV__ENST00000438724.5_1_13:79951611-79952941:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 818.7418212890625 2 818.970411 1635.92627 NaN NaN NaN NaN NaN NaN NaN 89.696 1 89.696 89.196 90.196 0 0 0 0 1.008 1 46924 46924 0.30703 0.30703 1 + 14758 16328 9531 9552 16861 16861 0.1337428892720709 KWLYRHRKRFF 11 Unmodified _KWLYRHRKRFF_ 0 0 0 REV__ENST00000438724.5_1_13:79951611-79952941:-|nuORF REV__ENST00000438724.5_1_13:79951611-79952941:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 819.240478515625 2 818.970411 1635.92627 NaN NaN NaN NaN NaN NaN NaN 108.78 1 108.82 108.32 109.32 0.04248 0 0 0 1.0082 1 58714 58714 0 0 1 + 14759 16328 9531 9552 16862 16862 0.1337428892720709 KWMIVLQIF 9 Unmodified _KWMIVLQIF_ 0 0 0 REV__nc|ENSG00000125046|Q9Y2M2-3|SSUH2 REV__nc|ENSG00000125046|Q9Y2M2-3|SSUH2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.3444213867188 2 589.343738 1176.67292 2.1165 0.0012473 -1.0402 -0.00061306 1.0762 0.00063427 589.3431293436497 104.21 0.31566 104.26 104.15 104.47 0.052994 40 32 2 0 0 0 1.2126 1 56523 56523 0.52476 0 1 434530 + 14760 11670 9532 9553 16863 16863 0.0916530043275543 KWNPTAGVAF 10 Unmodified _KWNPTAGVAF_ 0 0 0 ENST00000564651.5_1_16:57496627-57504171:+|nuORF;ENST00000562953.5_1_16:57496627-57504105:+|nuORF;ENSG00000102978|ENST00000219252|POLR2C ENST00000564651.5_1_16:57496627-57504171:+|nuORF ENST00000564651.5_1_16:57496627-57504171:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.7891235351562 2 545.787641 1089.56073 3.7424 0.0020426 -0.49905 -0.00027238 3.2434 0.0017702 545.7872896235357 56.899 0.29138 56.899 56.749 57.04 0 71 29 3 0 0 0 3.5654E-05 2 26226 26175;26226 110.67 66.268 1 7328600 14761 1364 9533 9554 16864;16865 16865 0.019531626801381208 KWNPTAGVAF 10 Unmodified _KWNPTAGVAF_ 0 0 0 ENST00000564651.5_1_16:57496627-57504171:+|nuORF;ENST00000562953.5_1_16:57496627-57504105:+|nuORF;ENSG00000102978|ENST00000219252|POLR2C ENST00000564651.5_1_16:57496627-57504171:+|nuORF ENST00000564651.5_1_16:57496627-57504171:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.789306640625 2 545.787641 1089.56073 2.8873 0.0015758 -0.15736 -8.5886E-05 2.7299 0.00149 545.7874487803258 55.939 0.29855 56.726 56.585 56.883 0.78711 60 23 3 0 0 0 0.0019801 2 25562 25512;25562 99.755 55.897 1 6316900 14762 1364 9533 9554 16866;16867 16867 0.019531626801381208 KWNPTAGVAF 10 Unmodified _KWNPTAGVAF_ 0 0 0 ENST00000564651.5_1_16:57496627-57504171:+|nuORF;ENST00000562953.5_1_16:57496627-57504105:+|nuORF;ENSG00000102978|ENST00000219252|POLR2C ENST00000564651.5_1_16:57496627-57504171:+|nuORF ENST00000564651.5_1_16:57496627-57504171:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.789794921875 2 545.787641 1089.56073 3.4922 0.001906 -0.85805 -0.00046831 2.6341 0.0014377 545.7872069688018 56.825 0.30259 57.089 56.927 57.229 0.26444 27 12 3 0 0 0 3.5654E-05 2 25989 25989;26042 110.67 66.816 1 3853300 14763 1364 9533 9554 16868;16869 16868 0.019531626801381208 KWNPTAGVAF 10 Unmodified _KWNPTAGVAF_ 0 0 0 ENST00000564651.5_1_16:57496627-57504171:+|nuORF;ENST00000562953.5_1_16:57496627-57504105:+|nuORF;ENSG00000102978|ENST00000219252|POLR2C ENST00000564651.5_1_16:57496627-57504171:+|nuORF ENST00000564651.5_1_16:57496627-57504171:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.7893676757812 2 545.787641 1089.56073 3.5732 0.0019502 -0.60264 -0.00032891 2.9705 0.0016213 545.7873192733203 56.091 0.39452 56.76 56.564 56.959 0.66829 59 22 3 0 0 0 8.5734E-06 3 25678 25634;25678;25734 122.18 76.158 1 4407700 14764 1364 9533 9554 16870;16871;16872 16871 0.019531626801381208 KWNRNIRNLYR 11 Unmodified _KWNRNIRNLYR_ 0 0 0 L1MEf_dup1694|chr2:208825398-208826842:+|2.073452806218134|0.1080183910784605|4.26|525.0|7|1|sense L1MEf_dup1694|chr2:208825398-208826842:+|2.073452806218134|0.1080183910784605|4.26|525.0|7|1|sense L1MEf_dup1694|chr2:208825398-208826842:+|2.073452806218134|0.1080183910784605|4.26|525.0|7|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 766.8722534179688 2 766.931483 1531.84841 NaN NaN NaN NaN NaN NaN NaN 91.952 1 91.952 91.452 92.452 0 0 0 0 1.008 1 48719 48719 0.30703 0 1 14765 9453 9534 9555 16873 16873 0.10376231271220604 KWPLWTRIQVP 11 Unmodified _KWPLWTRIQVP_ 0 0 0 REV__ENST00000599551.5_1_19:18683653-18683758:+|nuORF REV__ENST00000599551.5_1_19:18683653-18683758:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 356.7115173339844 4 356.710674 1422.81359 2.1815 0.00077817 0.20509 7.3157E-05 2.3866 0.00085133 356.96146764087337 62.831 0.56246 62.831 62.683 63.245 0 121 64 3 0 0 0 0.91104 1 29600 29600 1.2148 0.51716 1 11984000 + 14766 17630 9535 9556 16874 16874 0.11909595410543261 KWQFYQNR 8 Unmodified _KWQFYQNR_ 0 0 0 CON__Q61726 CON__Q61726 CON__Q61726 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 585.2996826171875 2 585.296165 1168.57778 4.3084 0.0025217 -1.6928 -0.00099076 2.6156 0.0015309 585.2951928521146 102.78 0.16348 103.1 103 103.16 0.31863 12 7 2 0 0 0 0.7471 1 47540 47540 0.69038 0.088878 1 1626000 + 14767 238 9536 9557 16875 16875 0.00023083285941538634 KWQFYQNR 8 Unmodified _KWQFYQNR_ 0 0 0 CON__Q61726 CON__Q61726 CON__Q61726 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 585.296165 1168.57778 3.1902 0.0018672 -2.8146 -0.0016474 0.37557 0.00021982 585.293966865951 103.11 0.19839 103.11 103 103.2 0 -0.089428 -0.001871 NaN 0.69038 14 8 3 NaN NaN NaN NaN 0 NaN NaN 0 646890 + 14768 238 9536 9557 0.00023083285941538634 KWQFYQNR 8 Unmodified _KWQFYQNR_ 0 0 0 CON__Q61726 CON__Q61726 CON__Q61726 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 585.296165 1168.57778 1.9852 0.0011619 -0.62639 -0.00036662 1.3588 0.00079532 585.2955737402053 103.17 0.19676 103.22 103.13 103.33 0.055092 0.02657 0.00069046 NaN 0.69038 17 8 3 NaN NaN NaN NaN 0 NaN NaN 0 857240 + 14769 238 9536 9557 0.00023083285941538634 KWQFYQNR 8 Unmodified _KWQFYQNR_ 0 0 0 CON__Q61726 CON__Q61726 CON__Q61726 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 585.296165 1168.57778 3.74 0.002189 -1.53 -0.00089548 2.2101 0.0012936 585.2952650200701 102.76 0.15836 103.35 103.23 103.38 0.59759 0.15635 -0.00036725 NaN 0.69038 18 7 3 NaN NaN NaN NaN 0 NaN NaN 0 1428400 + 14770 238 9536 9557 0.00023083285941538634 KWQKKEKRLEE 11 Unmodified _KWQKKEKRLEE_ 0 0 0 REV__nc|ENSG00000145734|A6H8Y1-7|BDP1 REV__nc|ENSG00000145734|A6H8Y1-7|BDP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 751.427734375 2 751.427907 1500.84126 NaN NaN NaN NaN NaN NaN NaN 57.828 1 57.828 57.328 58.328 0 0 0 0 1.0065 1 26665 26665 2.2828 0.80087 1 + 14771 12454 9537 9558 16876 16876 0.11087453880122666 KWQKLQPI 8 Unmodified _KWQKLQPI_ 0 0 0 REV__nc|ENSG00000175697|Q8NFN8-2|GPR156 REV__nc|ENSG00000175697|Q8NFN8-2|GPR156 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.759033203125 2 520.816202 1039.61785 NaN NaN NaN NaN NaN NaN NaN 52.537 1 52.801 52.301 53.301 0.26345 0 0 0 0.99035 1 24019 24019 5.7604 0.52976 1 + 14772 13676 9538 9559 16877 16877 0.09962629956521596 KWRFIRNWQRW 11 Unmodified _KWRFIRNWQRW_ 0 0 0 REV__ENSG00000081248|ENST00000362061|CACNA1S REV__ENSG00000081248|ENST00000362061|CACNA1S MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 838.4591674804688 2 838.457668 1674.90078 NaN NaN NaN NaN NaN NaN NaN 92.162 1 92.162 91.662 92.662 0 0 0 0 1.0082 1 48897 48897 0 0 1 + 14773 10608 9539 9560 16878 16878 0.0903281440482715 KWRKMEKLNGK 11 Unmodified _KWRKMEKLNGK_ 0 0 0 nc|ENSG00000106410|O60393-2|NOBOX;ENSG00000106410|ENST00000467773|NOBOX nc|ENSG00000106410|O60393-2|NOBOX nc|ENSG00000106410|O60393-2|NOBOX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 709.9142456054688 2 709.408463 1416.80237 3.4987 0.002482 -1.9707 -0.001398 1.528 0.001084 709.4065223490198 54.963 0.20701 55.228 55.113 55.32 0.26543 22 11 3 0 0 0 0.34052 1 25121 25121 23.79 2.2528 1 1259500 14774 1570 9540 9561 16879 16879 0.11064450044750629 KWRKMEKLNGK 11 Unmodified _KWRKMEKLNGK_ 0 0 0 nc|ENSG00000106410|O60393-2|NOBOX;ENSG00000106410|ENST00000467773|NOBOX nc|ENSG00000106410|O60393-2|NOBOX nc|ENSG00000106410|O60393-2|NOBOX MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 709.408463 1416.80237 3.3995 0.0024116 -3.2405 -0.0022988 0.15897 0.00011277 709.405962635754 53.95 0.30693 54.746 54.587 54.894 0.79552 -0.23314 -0.00049485 NaN 23.79 33 14 3 NaN NaN NaN NaN 0 NaN NaN 0 965460 14775 1570 9540 9561 0.11064450044750629 KWRLQNRLR 9 Unmodified _KWRLQNRLR_ 0 0 0 ENST00000382622.3_1_12:3600592-3600649:+|nuORF ENST00000382622.3_1_12:3600592-3600649:+|nuORF ENST00000382622.3_1_12:3600592-3600649:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 635.3270874023438 2 635.38618 1268.75781 NaN NaN NaN NaN NaN NaN NaN 103.08 1 103.39 102.89 103.89 0.31863 0 0 0 0.91238 1 47665 47665 0.52476 0 1 14776 7494 9541 9562 16880 16880 0.1341780701359312 KWRRLRRLRRL 11 Unmodified _KWRRLRRLRRL_ 0 0 0 ENST00000551099.5_1_12:113659271-113664634:+|nuORF ENST00000551099.5_1_12:113659271-113664634:+|nuORF ENST00000551099.5_1_12:113659271-113664634:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 805.035888671875 2 805.029126 1608.0437 NaN NaN NaN NaN NaN NaN NaN 79.032 1 79.032 78.532 79.532 0 0 0 0 1.0082 1 38973 38973 0 0 1 14777 8875 9542 9563 16881 16881 0.2639986658671205 KWRRLRRLRRL 11 Unmodified _KWRRLRRLRRL_ 0 0 0 ENST00000551099.5_1_12:113659271-113664634:+|nuORF ENST00000551099.5_1_12:113659271-113664634:+|nuORF ENST00000551099.5_1_12:113659271-113664634:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 805.241455078125 2 805.029126 1608.0437 NaN NaN NaN NaN NaN NaN NaN 99.97 1 100.28 99.779 100.78 0.30835 0 0 0 1.0082 1 46222 46222 0 0 1 14778 8875 9542 9563 16882 16882 0.2639986658671205 KWRRPRVGH 9 Unmodified _KWRRPRVGH_ 0 0 0 REV__ENSG00000280267|ENST00000624207|PRAMEF26 REV__ENSG00000280267|ENST00000624207|PRAMEF26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 596.3533325195312 2 596.35214 1190.68973 4.2239 0.002519 -2.5726 -0.0015342 1.6514 0.00098479 596.3504264019147 101.33 0.065994 101.92 101.87 101.94 0.59716 6 3 2 0 0 0 1.2078 1 46923 46923 0.6015 0.076735 1 1308500 + 14779 14569 9543 9564 16883 16883 0.10200982153583027 KWRRRRRRRRA 11 Unmodified _KWRRRRRRRRA_ 0 0 0 ENST00000306085.10_3_7:100730337-100730388:+|nuORF ENST00000306085.10_3_7:100730337-100730388:+|nuORF ENST00000306085.10_3_7:100730337-100730388:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 827.0230712890625 2 827.022698 1652.03084 NaN NaN NaN NaN NaN NaN NaN 89.821 1 90.072 89.572 90.572 0.25137 0 0 0 1.0082 1 41307 41307 0 0 1 14780 6839 9544 9565 16884 16884 0.2309084824717047 KWRRRRRRRRV 11 Unmodified _KWRRRRRRRRV_ 0 0 0 ENST00000303961.8_1_19:41306371-41306464:+|nuORF ENST00000303961.8_1_19:41306371-41306464:+|nuORF ENST00000303961.8_1_19:41306371-41306464:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 841.0381469726562 2 841.038348 1680.06214 NaN NaN NaN NaN NaN NaN NaN 60.023 1 60.773 60.273 61.273 0.74927 0 0 0 1.0082 1 27612 27612 0 0 1 14781 6825 9545 9566 16885 16885 0.2493142128123509 KWSHKGII 8 Unmodified _KWSHKGII_ 0 0 0 REV__ENST00000425128.6_1_3:27414695-27414764:-|nuORF REV__ENST00000425128.6_1_3:27414695-27414764:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.79034423828125 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 37.37 1 37.63 37.13 38.13 0.26083 0 0 0 0.99035 1 17020 17020 4.756 0 1 + 14782 16207 9546 9567 16886 16886 0.07525787750955715 KWSHKGII 8 Unmodified _KWSHKGII_ 0 0 0 REV__ENST00000425128.6_1_3:27414695-27414764:-|nuORF REV__ENST00000425128.6_1_3:27414695-27414764:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.7893371582031 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 40.569 1 40.838 40.338 41.338 0.26904 0 0 0 0.99035 1 18457 18457 4.756 0 1 + 14783 16207 9546 9567 16887 16887 0.07525787750955715 KWSHLLLA 8 Unmodified _KWSHLLLA_ 0 0 0 REV__ENST00000396136.6_1_15:58889748-58968450:-|nuORF REV__ENST00000396136.6_1_15:58889748-58968450:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.292724609375 2 484.28982 966.565087 NaN NaN NaN NaN NaN NaN NaN 39.042 1 39.68 39.18 40.18 0.63778 0 0 0 0.99035 1 17847 17847 2.3027 0.24298 1 + 14784 15998 9547 9568 16888 16888 0.08046671893714574 KWSRQNFHI 9 Unmodified _KWSRQNFHI_ 0 0 0 REV__ENST00000511297.5_1_5:65349463-65349535:+|nuORF REV__ENST00000511297.5_1_5:65349463-65349535:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 405.8846435546875 3 405.884235 1214.63087 2.068 0.00083935 0.31572 0.00012815 2.3837 0.0009675 405.8842261265511 73.136 0.32341 73.136 73.023 73.347 0 75 35 3 0 0 0 1.129 1 35649 35649 0.96228 0.26461 1 2267700 + 14785 16974 9548 9569 16889 16889 0.03214461068591845 KWSRQNFHI 9 Unmodified _KWSRQNFHI_ 0 0 0 REV__ENST00000511297.5_1_5:65349463-65349535:+|nuORF REV__ENST00000511297.5_1_5:65349463-65349535:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.8851013183594 3 405.884235 1214.63087 2.72 0.001104 0.24837 0.00010081 2.9684 0.0012048 405.88421755762056 72.222 0.4539 72.481 72.181 72.635 0.25876 112 42 3 0 0 0 1.129 1 33047 33047 0.96228 0 1 2100000 + 14786 16974 9548 9569 16890 16890 0.03214461068591845 KWSRQNFHI 9 Unmodified _KWSRQNFHI_ 0 0 0 REV__ENST00000511297.5_1_5:65349463-65349535:+|nuORF REV__ENST00000511297.5_1_5:65349463-65349535:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.8846130371094 3 405.884235 1214.63087 2.304 0.00093514 0.36355 0.00014756 2.6675 0.0010827 405.88417911873387 72.123 0.76781 72.786 72.195 72.962 0.66324 109 59 3 0 0 0 1.129 1 33085 33085 0.96228 0.26461 1 2213400 + 14787 16974 9548 9569 16891 16891 0.03214461068591845 KWTLHIVK 8 Unmodified _KWTLHIVK_ 0 0 0 REV__ENST00000519163.6_1_8:67986503-67986584:+|nuORF REV__ENST00000519163.6_1_8:67986503-67986584:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 342.2154846191406 3 342.214922 1023.62294 2.4625 0.00084269 0.60068 0.00020556 3.0632 0.0010483 342.21510195908945 65.123 0.3036 65.78 65.631 65.935 0.65672 33 19 2 0 0 0 0.14274 1 29830 29830 1.1933 0.79263 1 465680 + 14788 17034 9549 9570 16892 16892 0.11206933819130427 KWTLHIVK 8 Unmodified _KWTLHIVK_ 0 0 0 REV__ENST00000519163.6_1_8:67986503-67986584:+|nuORF REV__ENST00000519163.6_1_8:67986503-67986584:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 342.214922 1023.62294 2.6172 0.00089566 0.53804 0.00018412 3.1553 0.0010798 342.2153212920352 65.75 0.30249 65.998 65.824 66.127 0.24847 0.1091 -2.2805E-05 NaN 1.1933 36 17 3 NaN NaN NaN NaN 0 NaN NaN 0 630670 + 14789 17034 9549 9570 0.11206933819130427 KWTLITKL 8 Unmodified _KWTLITKL_ 0 0 0 REV__PBRM1|p.M1038Sfs*121|1|0.03|ENSG00000163939|chr3:52587363-52587363|A/-|frameshift_variant REV__PBRM1|p.M1038Sfs*121|1|0.03|ENSG00000163939|chr3:52587363-52587363|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.8201599121094 2 501.820953 1001.62735 NaN NaN NaN NaN NaN NaN NaN 87.496 1 88.172 87.672 88.672 0.67555 0 0 0 0.9851 1 40301 40301 6.7232 0.96273 1 + 14790 18197 9550 9571 16893 16893 0.12660398242030624 KWTPNLILVVE 11 Unmodified _KWTPNLILVVE_ 0 0 0 ENST00000368324.4_1_1:155851335-155851446:+|nuORF ENST00000368324.4_1_1:155851335-155851446:+|nuORF ENST00000368324.4_1_1:155851335-155851446:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.69805908203125 4 328.697232 1310.75982 2.0635 0.00067828 0.41874 0.00013764 2.4823 0.00081592 328.69738015667554 46.467 0.11201 46.467 46.39 46.502 0 7 5 2 0 0 0 0.91184 1 21284 21284 1.0136 0.31591 1 805640 14791 7277 9551 9572 16894 16894 0.11687378188139519 KWTPNLILVVE 11 Unmodified _KWTPNLILVVE_ 0 0 0 ENST00000368324.4_1_1:155851335-155851446:+|nuORF ENST00000368324.4_1_1:155851335-155851446:+|nuORF ENST00000368324.4_1_1:155851335-155851446:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.20037841796875 4 328.697232 1310.75982 2.3854 0.00078406 1.0321 0.00033923 3.4174 0.0011233 328.69752132789137 45.971 0.32166 46.237 46.103 46.424 0.26561 20 14 2 0 0 0 0.13295 1 20987 20987 1.1098 0.6038 1 276700 14792 7277 9551 9572 16895 16895 0.11687378188139519 KWTPNLILVVE 11 Unmodified _KWTPNLILVVE_ 0 0 0 ENST00000368324.4_1_1:155851335-155851446:+|nuORF ENST00000368324.4_1_1:155851335-155851446:+|nuORF ENST00000368324.4_1_1:155851335-155851446:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 328.697232 1310.75982 2.5024 0.00082254 1.1444 0.00037616 3.6468 0.0011987 328.6975681327405 45.631 0.73338 46.282 45.833 46.567 0.65104 -0.046719 0.00023677 NaN 1.1098 34 29 2 NaN NaN NaN NaN 0 NaN NaN 0 418060 14793 7277 9551 9572 0.11687378188139519 KWYDRRDYVF 10 Unmodified _KWYDRRDYVF_ 0 0 0 nc|ENSG00000110958|Q15185-2|PTGES3;nc|ENSG00000110958|Q15185-3|PTGES3;nc|ENSG00000110958|Q15185-4|PTGES3;ENSG00000110958|ENST00000262033|PTGES3;ENST00000537473.2_1_12:57059942-57081218:-|nuORF nc|ENSG00000110958|Q15185-2|PTGES3 nc|ENSG00000110958|Q15185-2|PTGES3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.5779724121094 3 483.242088 1446.70443 3.0106 0.0014548 -0.35089 -0.00016956 2.6597 0.0012853 483.2420486505126 43.363 0.26205 44.178 44.095 44.357 0.81444 33 14 3 0 0 0 0.18287 2 19730 19730;19785 41.347 36.631 1 1113900 14794 1738 9552 9573 16896;16897 16896 -0.0010503527958007908 KWYFKRERKKR 11 Unmodified _KWYFKRERKKR_ 0 0 0 REV__ENST00000394507.5_2_7:91870378-91871424:-|nuORF REV__ENST00000394507.5_2_7:91870378-91871424:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 812.9818115234375 2 812.980976 1623.9474 NaN NaN NaN NaN NaN NaN NaN 91.872 1 91.872 91.372 92.372 0 0 0 0 1.0082 1 48662 48662 0 0 1 + 14795 15970 9553 9574 16898 16898 0.16038254236059402 KWYFKRERKKR 11 Unmodified _KWYFKRERKKR_ 0 0 0 REV__ENST00000394507.5_2_7:91870378-91871424:-|nuORF REV__ENST00000394507.5_2_7:91870378-91871424:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 813.2598266601562 2 812.980976 1623.9474 NaN NaN NaN NaN NaN NaN NaN 98.034 1 98.034 97.534 98.534 0 0 0 0 1.0082 1 53564 53564 0 0 1 + 14796 15970 9553 9574 16899 16899 0.16038254236059402 KWYFKRERKKR 11 Unmodified _KWYFKRERKKR_ 0 0 0 REV__ENST00000394507.5_2_7:91870378-91871424:-|nuORF REV__ENST00000394507.5_2_7:91870378-91871424:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 812.983154296875 2 812.980976 1623.9474 NaN NaN NaN NaN NaN NaN NaN 86.607 1 86.637 86.137 87.137 0.030289 0 0 0 1.0082 1 43627 43627 0 0 1 + 14797 15970 9553 9574 16900 16900 0.16038254236059402 KWYFKRERKKR 11 Unmodified _KWYFKRERKKR_ 0 0 0 REV__ENST00000394507.5_2_7:91870378-91871424:-|nuORF REV__ENST00000394507.5_2_7:91870378-91871424:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 812.9832763671875 2 812.980976 1623.9474 NaN NaN NaN NaN NaN NaN NaN 87.065 1 87.105 86.605 87.605 0.039955 0 0 0 1.0082 1 43972 43972 0 0 1 + 14798 15970 9553 9574 16901 16901 0.16038254236059402 KWYFKRERKKR 11 Unmodified _KWYFKRERKKR_ 0 0 0 REV__ENST00000394507.5_2_7:91870378-91871424:-|nuORF REV__ENST00000394507.5_2_7:91870378-91871424:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 812.9810180664062 2 812.980976 1623.9474 NaN NaN NaN NaN NaN NaN NaN 89.334 1 89.399 88.899 89.899 0.064346 0 0 0 1.0082 1 45761 45761 0 0 1 + 14799 15970 9553 9574 16902 16902 0.16038254236059402 KYAALFSQM 9 Unmodified _KYAALFSQM_ 0 0 0 nc|ENSG00000020577|Q9UPU9-2|SAMD4A;nc|ENSG00000020577|Q9UPU9-3|SAMD4A;ENSG00000020577|ENST00000554335|SAMD4A;ENSG00000179134|ENST00000610417|SAMD4B nc|ENSG00000020577|Q9UPU9-2|SAMD4A nc|ENSG00000020577|Q9UPU9-2|SAMD4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.7718505859375 2 529.770603 1057.52665 3.3134 0.0017553 0.16154 8.558E-05 3.4749 0.0018409 529.7706751986697 56.216 0.21367 56.884 56.769 56.982 0.66829 19 13 2 0 0 0 0.034495 1 25726 25726 53.833 34.576 1 791340 14800 454 9554 9575 16903 16903 0.0001899819685604598 KYADLSHNRL 10 Unmodified _KYADLSHNRL_ 0 0 0 nc|ENSG00000113643|P54136-2|RARS1;ENSG00000113643|ENST00000231572|RARS1 nc|ENSG00000113643|P54136-2|RARS1 nc|ENSG00000113643|P54136-2|RARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 406.22052001953125 3 406.219283 1215.63602 2.7786 0.0011287 -0.1088 -4.4198E-05 2.6698 0.0010845 406.2192550934537 20.4 0.35263 20.4 20.225 20.577 0 77 30 3 0 0 0 0.092051 2 9118 9076;9118 53.798 13.084 1 914750 14801 1865 9555 9576 16904;16905 16905 0.03682720140568563 KYADLSHNRL 10 Unmodified _KYADLSHNRL_ 0 0 0 nc|ENSG00000113643|P54136-2|RARS1;ENSG00000113643|ENST00000231572|RARS1 nc|ENSG00000113643|P54136-2|RARS1 nc|ENSG00000113643|P54136-2|RARS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.219970703125 3 406.219283 1215.63602 NaN NaN NaN NaN NaN NaN NaN 19.849 1 20.141 19.641 20.641 0.29239 0 0 0 0.11182 1 9033 9033 53.798 17.802 1 14802 1865 9555 9576 16906 16906 0.03682720140568563 KYADLSHNRL 10 Unmodified _KYADLSHNRL_ 0 0 0 nc|ENSG00000113643|P54136-2|RARS1;ENSG00000113643|ENST00000231572|RARS1 nc|ENSG00000113643|P54136-2|RARS1 nc|ENSG00000113643|P54136-2|RARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.5549621582031 3 406.219283 1215.63602 3.1085 0.0012627 -0.17936 -7.2858E-05 2.9291 0.0011899 406.2191542469063 19.477 0.21949 20.136 20.031 20.25 0.65829 40 14 4 0 0 0 0.14044 1 8829 8829 47.053 12.262 1 996160 14803 1865 9555 9576 16907 16907 0.03682720140568563 KYADLSHNRL 10 Unmodified _KYADLSHNRL_ 0 0 0 nc|ENSG00000113643|P54136-2|RARS1;ENSG00000113643|ENST00000231572|RARS1 nc|ENSG00000113643|P54136-2|RARS1 nc|ENSG00000113643|P54136-2|RARS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 406.219283 1215.63602 2.8275 0.0011486 -0.55652 -0.00022607 2.271 0.00092253 406.219005503908 19.9 0.023285 20.192 20.185 20.208 0.29239 -0.050491 -0.00033808 NaN 53.798 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 2104500 14804 1865 9555 9576 0.03682720140568563 KYAELKDRL 9 Unmodified _KYAELKDRL_ 0 0 0 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.22216796875 3 379.220513 1134.63971 2.8697 0.0010882 0.30694 0.0001164 3.1766 0.0012046 379.22064703315965 22.479 0.17716 22.479 22.333 22.51 0 20 12 2 0 0 0 0.39731 1 10090 10090 14.218 5.2419 1 346150 14805 5780 9556 9577 16908 16908 0.07777389914417654 KYAHMINGF 9 Unmodified _KYAHMINGF_ 0 0 0 ENSG00000035687|ENST00000366535|ADSS2 ENSG00000035687|ENST00000366535|ADSS2 ENSG00000035687|ENST00000366535|ADSS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 360.848876953125 3 360.848022 1079.52224 2.3934 0.00086365 0.55773 0.00020126 2.9511 0.0010649 360.8481153322143 35.075 0.18854 35.867 35.744 35.932 0.79131 18 10 2 0 0 0 0.75535 1 15917 15917 8.1555 5.1603 1 240000 14806 510 9557 9578 16909 16909 -0.014344662260555197 KYAINPHL 8 Unmodified _KYAINPHL_ 0 0 0 ENSG00000141101|ENST00000268802|NOB1 ENSG00000141101|ENST00000268802|NOB1 ENSG00000141101|ENST00000268802|NOB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.7740173339844 2 478.271627 954.528701 3.0415 0.0014546 -0.095716 -4.5778E-05 2.9457 0.0014089 478.27165522225795 40.867 0.39529 40.867 40.649 41.044 0 48 24 3 0 0 0 0.42655 1 18519 18519 26.341 10.494 1 1131000 14807 3237 9558 9579 16910 16910 0.04961794996984281 KYAINPHL 8 Unmodified _KYAINPHL_ 0 0 0 ENSG00000141101|ENST00000268802|NOB1 ENSG00000141101|ENST00000268802|NOB1 ENSG00000141101|ENST00000268802|NOB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.27349853515625 2 478.271627 954.528701 NaN NaN NaN NaN NaN NaN NaN 39.921 1 40.722 40.222 41.222 0.80014 0 0 0 0.79116 1 18074 18074 19.439 3.5918 1 14808 3237 9558 9579 16911 16911 0.04961794996984281 KYAINPHL 8 Unmodified _KYAINPHL_ 0 0 0 ENSG00000141101|ENST00000268802|NOB1 ENSG00000141101|ENST00000268802|NOB1 ENSG00000141101|ENST00000268802|NOB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.2738342285156 2 478.271627 954.528701 NaN NaN NaN NaN NaN NaN NaN 40.08 1 40.881 40.381 41.381 0.80014 0 0 0 0.79116 1 18148 18148 19.439 3.5918 1 14809 3237 9558 9579 16912 16912 0.04961794996984281 KYAINPHL 8 Unmodified _KYAINPHL_ 0 0 0 ENSG00000141101|ENST00000268802|NOB1 ENSG00000141101|ENST00000268802|NOB1 ENSG00000141101|ENST00000268802|NOB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.2725524902344 2 478.271627 954.528701 NaN NaN NaN NaN NaN NaN NaN 40.1 1 40.742 40.242 41.242 0.64136 0 0 0 0.33009 1 18323 18323 34.187 5.7005 1 14810 3237 9558 9579 16913 16913 0.04961794996984281 KYAMMFAEL 9 Unmodified _KYAMMFAEL_ 0 0 0 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1;nc|ENSG00000086758|Q7Z6Z7-3|HUWE1;ENSG00000086758|ENST00000262854|HUWE1 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.269775390625 2 552.266838 1102.51912 NaN NaN NaN NaN NaN NaN NaN 70.119 1 70.822 70.322 71.322 0.70302 0 0 0 0.21088 1 33586 33586 30.637 11.38 1 14811 987 9559 9580 16914 16914 -0.028034773950594172 KYAMMFAEL 9 Unmodified _KYAMMFAEL_ 0 0 0 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1;nc|ENSG00000086758|Q7Z6Z7-3|HUWE1;ENSG00000086758|ENST00000262854|HUWE1 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.2679443359375 2 552.266838 1102.51912 NaN NaN NaN NaN NaN NaN NaN 71.192 1 71.45 70.95 71.95 0.25786 0 0 0 0.77475 1 32610 32610 10.074 0.6908 1 14812 987 9559 9580 16915 16915 -0.028034773950594172 KYAMMFAEL 9 Unmodified _KYAMMFAEL_ 0 0 0 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1;nc|ENSG00000086758|Q7Z6Z7-3|HUWE1;ENSG00000086758|ENST00000262854|HUWE1 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.2665405273438 2 552.266838 1102.51912 3.0498 0.0016843 -0.29451 -0.00016265 2.7553 0.0015217 552.2664441122123 70.576 0.27217 71.238 71.068 71.34 0.66209 26 15 2 0 0 0 0.19064 1 32321 32321 24.021 4.7636 1 438560 14813 987 9559 9580 16916 16916 -0.028034773950594172 KYAPRFNGF 9 Unmodified _KYAPRFNGF_ 0 0 0 ENSG00000170832|ENST00000300896|USP32 ENSG00000170832|ENST00000300896|USP32 ENSG00000170832|ENST00000300896|USP32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.2900390625 2 550.287808 1098.56106 3.3217 0.0018279 0.40695 0.00022394 3.7286 0.0020518 550.2878808819653 36.08 0.19434 36.871 36.757 36.951 0.79131 12 6 2 0 0 0 0.14729 1 16363 16363 26.884 13.376 1 275600 14814 4769 9560 9581 16917 16917 0.015725823999900967 KYAPRPIFI 9 Unmodified _KYAPRPIFI_ 0 0 0 ENSG00000116984|ENST00000366577|MTR;nc|ENSG00000116984|Q99707-2|MTR ENSG00000116984|ENST00000366577|MTR ENSG00000116984|ENST00000366577|MTR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.8336181640625 2 552.831852 1103.64915 3.3483 0.0018511 -0.19137 -0.00010579 3.157 0.0017453 552.8317675162945 47.122 0.18188 47.122 47.07 47.252 0 14 9 2 0 0 0 0.038142 1 21579 21579 52.268 33.011 1 593390 14815 2055 9561 9582 16918 16918 0.10147202990583537 KYAPRPIFI 9 Unmodified _KYAPRPIFI_ 0 0 0 ENSG00000116984|ENST00000366577|MTR;nc|ENSG00000116984|Q99707-2|MTR ENSG00000116984|ENST00000366577|MTR ENSG00000116984|ENST00000366577|MTR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.295654296875 2 552.831852 1103.64915 3.7561 0.0020765 -0.35192 -0.00019455 3.4042 0.0018819 552.831414319674 46.813 0.2034 47.079 46.98 47.184 0.26561 11 6 2 0 0 0 0.24465 1 21380 21380 20.454 8.8133 1 508800 14816 2055 9561 9582 16919 16919 0.10147202990583537 KYAPSGFYI 9 Unmodified _KYAPSGFYI_ 0 0 0 WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant;ENSG00000071127|ENST00000499869|WDR1 WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.273681640625 2 523.271293 1044.52803 3.1186 0.0016319 -0.18944 -9.9131E-05 2.9292 0.0015327 523.271617537307 56.212 0.35297 56.212 56.048 56.401 0 58 28 3 0 0 0 0.034495 1 25837 25837 53.833 13.384 1 1956100 14817 776 9562 9583 16920 16920 0.007549555572722966 KYAPSGFYI 9 Unmodified _KYAPSGFYI_ 0 0 0 WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant;ENSG00000071127|ENST00000499869|WDR1 WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.2733764648438 2 523.271293 1044.52803 2.986 0.0015625 0.19711 0.00010314 3.1831 0.0016656 523.2716497924462 55.149 0.40656 55.936 55.715 56.122 0.78711 65 29 3 0 0 0 0.024388 2 25163 25163;25218 62.573 24.422 1 1704300 14818 776 9562 9583 16921;16922 16921 0.007549555572722966 KYAPSGFYI 9 Unmodified _KYAPSGFYI_ 0 0 0 WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant;ENSG00000071127|ENST00000499869|WDR1 WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant WDR1|p.I301Tfs*26|1|0.29|ENSG00000071127|chr4:10087756-10087756|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.273193359375 2 523.271293 1044.52803 3.3544 0.0017552 0.70985 0.00037144 4.0642 0.0021267 523.2717848915617 55.44 0.34075 56.108 55.975 56.316 0.66797 25 14 2 0 0 0 0.11458 2 25420 25346;25420 29.082 4.4077 1 1266500 14819 776 9562 9583 16923;16924 16924 0.007549555572722966 KYAWVLDKL 9 Unmodified _KYAWVLDKL_ 0 0 0 ENST00000434005.1_1_7:22551057-22551540:-|nuORF;nc|ENSG00000196205|Q5VTE0|EEF1A1P5;ENSG00000156508|ENST00000309268|EEF1A1;ENSG00000101210|ENST00000217182|EEF1A2 ENST00000434005.1_1_7:22551057-22551540:-|nuORF ENST00000434005.1_1_7:22551057-22551540:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.8325805664062 2 568.329142 1134.64373 3.5422 0.0020132 0.29764 0.00016916 3.8399 0.0021823 568.3290024372697 60.809 0.1622 61.065 60.966 61.128 0.25578 13 7 2 0 0 0 0.081922 1 27849 27849 46.022 25.608 1 372420 14820 1274 9563 9584 16925 16925 0.08179479408113366 KYAWVLDKL 9 Unmodified _KYAWVLDKL_ 0 0 0 ENST00000434005.1_1_7:22551057-22551540:-|nuORF;nc|ENSG00000196205|Q5VTE0|EEF1A1P5;ENSG00000156508|ENST00000309268|EEF1A1;ENSG00000101210|ENST00000217182|EEF1A2 ENST00000434005.1_1_7:22551057-22551540:-|nuORF ENST00000434005.1_1_7:22551057-22551540:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.330322265625 2 568.329142 1134.64373 3.6212 0.002058 -0.2106 -0.00011969 3.4106 0.0019383 568.3290569883427 60.188 0.16887 60.854 60.791 60.96 0.66503 17 9 2 0 0 0 0.14357 2 27588 27563;27588 34.222 21.981 1 621190 14821 1274 9563 9584 16926;16927 16927 0.08179479408113366 KYCQVIRVI 9 Carbamidomethyl (C) _KYC(Carbamidomethyl (C))QVIRVI_ KYC(1)QVIRVI KYC(82)QVIRVI 0 1 0 ENSG00000100316|ENST00000216146|RPL3 ENSG00000100316|ENST00000216146|RPL3 ENSG00000100316|ENST00000216146|RPL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.341796875 2 589.839351 1177.66415 3.476 0.0020503 -0.11228 -6.6226E-05 3.3637 0.0019841 589.8392706928288 40.845 0.20456 40.845 40.729 40.934 0 21 11 3 0 0 0 0.010018 1 18566 18566 81.89 60.144 1 991070 14822 1205 9564 9585 16928 16928 27 0.0824232679628949 KYCQVIRVI 9 Carbamidomethyl (C) _KYC(Carbamidomethyl (C))QVIRVI_ KYC(1)QVIRVI KYC(59)QVIRVI 0 1 0 ENSG00000100316|ENST00000216146|RPL3 ENSG00000100316|ENST00000216146|RPL3 ENSG00000100316|ENST00000216146|RPL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.8419189453125 2 589.839351 1177.66415 3.3899 0.0019995 -0.020503 -1.2093E-05 3.3694 0.0019874 589.8394957107482 39.983 0.1774 40.783 40.628 40.805 0.80014 17 8 3 0 0 0 0.027384 1 18076 18076 58.679 44.773 1 597030 14823 1205 9564 9585 16929 16929 27 0.0824232679628949 KYCQVIRVI 9 Carbamidomethyl (C) _KYC(Carbamidomethyl (C))QVIRVI_ KYC(1)QVIRVI KYC(48)QVIRVI 0 1 0 ENSG00000100316|ENST00000216146|RPL3 ENSG00000100316|ENST00000216146|RPL3 ENSG00000100316|ENST00000216146|RPL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 590.3424072265625 2 589.839351 1177.66415 3.7401 0.0022061 -0.21357 -0.00012597 3.5266 0.0020801 589.8392984736951 40.547 0.17227 40.816 40.759 40.931 0.26904 11 6 2 0 0 0 0.048676 1 18459 18459 47.749 36.925 1 799120 14824 1205 9564 9585 16930 16930 27 0.0824232679628949 KYCQVIRVI 9 Carbamidomethyl (C) _KYC(Carbamidomethyl (C))QVIRVI_ KYC(1)QVIRVI KYC(52)QVIRVI 0 1 0 ENSG00000100316|ENST00000216146|RPL3 ENSG00000100316|ENST00000216146|RPL3 ENSG00000100316|ENST00000216146|RPL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.8419189453125 2 589.839351 1177.66415 NaN NaN NaN NaN NaN NaN NaN 40.134 1 40.776 40.276 41.276 0.64136 0 0 0 0.056457 1 18338 18338 51.63 34.517 1 14825 1205 9564 9585 16931 16931 27 0.0824232679628949 KYCYLQNEVF 10 Carbamidomethyl (C) _KYC(Carbamidomethyl (C))YLQNEVF_ KYC(1)YLQNEVF KYC(46)YLQNEVF 0 1 0 nc|ENSG00000096696|P15924-2|DSP;nc|ENSG00000096696|P15924-3|DSP;DSP|p.F2623Lfs*19|1|0.11|ENSG00000096696|chr6:7585130-7585131|-/GAATATCATAC|frameshift_variant;ENSG00000096696|ENST00000379802|DSP nc|ENSG00000096696|P15924-2|DSP nc|ENSG00000096696|P15924-2|DSP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 682.3226318359375 2 682.321188 1362.62782 NaN NaN NaN NaN NaN NaN NaN 56.383 1 56.383 55.883 56.883 0 0 0 0 0.19735 1 25942 25942 45.7 12.255 1 14826 279 9565 9586 16932 16932 4 -0.038985948911204105 KYDAAHFLI 9 Unmodified _KYDAAHFLI_ 0 0 0 ENSG00000123353|ENST00000243045|ORMDL2 ENSG00000123353|ENST00000243045|ORMDL2 ENSG00000123353|ENST00000243045|ORMDL2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.3305053710938 2 539.290017 1076.56548 3.4025 0.0018349 3.5663 0.0019233 6.9688 0.0037582 539.2909284380859 53.182 0.16945 53.182 53.112 53.281 0 15 8 3 0 0 0 0.030967 1 24342 24342 39.95 5.8473 1 709800 14827 2306 9566 9587 16933 16933 0.030260468229016624 KYDEIFYNL 9 Unmodified _KYDEIFYNL_ 0 0 0 ENSG00000024422|ENST00000263277|EHD2;ENST00000540884.1_1_19:48232905-48244686:+|nuORF;nc|ENSG00000024422|Q9NZN4-2|EHD2 ENSG00000024422|ENST00000263277|EHD2 ENSG00000024422|ENST00000263277|EHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 602.800048828125 2 602.797872 1203.58119 2.8473 0.0017164 0.025896 1.561E-05 2.8732 0.001732 602.7978877159857 68.468 0.34903 68.468 68.286 68.635 0 151 47 4 0 0 0 0.0024283 2 32958 32958;33009 99.755 49.822 1 27773000 14828 474 9567 9588 16934;16935 16934 -0.012457114507014921 KYDEIFYNL 9 Unmodified _KYDEIFYNL_ 0 0 0 ENSG00000024422|ENST00000263277|EHD2;ENST00000540884.1_1_19:48232905-48244686:+|nuORF;nc|ENSG00000024422|Q9NZN4-2|EHD2 ENSG00000024422|ENST00000263277|EHD2 ENSG00000024422|ENST00000263277|EHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.7988891601562 2 602.797872 1203.58119 2.8118 0.001695 -0.2043 -0.00012315 2.6075 0.0015718 602.7976849550014 67.401 0.25094 68.103 68.019 68.27 0.70218 88 36 3 0 0 0 0.025135 2 32085 32024;32085 61.602 25.475 1 21075000 14829 474 9567 9588 16936;16937 16937 -0.012457114507014921 KYDEIFYNL 9 Unmodified _KYDEIFYNL_ 0 0 0 ENSG00000024422|ENST00000263277|EHD2;ENST00000540884.1_1_19:48232905-48244686:+|nuORF;nc|ENSG00000024422|Q9NZN4-2|EHD2 ENSG00000024422|ENST00000263277|EHD2 ENSG00000024422|ENST00000263277|EHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 602.8007202148438 2 602.797872 1203.58119 3.95 0.0023811 0.037178 2.2411E-05 3.9872 0.0024035 602.7979504480944 68.357 0.56268 68.609 68.253 68.816 0.25227 110 42 4 0 0 0 0.0013314 3 31361 31269;31316;31361 118.07 64.236 1 17077000 14830 474 9567 9588 16938;16939;16940 16940 -0.012457114507014921 KYDEIFYNL 9 Unmodified _KYDEIFYNL_ 0 0 0 ENSG00000024422|ENST00000263277|EHD2;ENST00000540884.1_1_19:48232905-48244686:+|nuORF;nc|ENSG00000024422|Q9NZN4-2|EHD2 ENSG00000024422|ENST00000263277|EHD2 ENSG00000024422|ENST00000263277|EHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 602.7999877929688 2 602.797872 1203.58119 3.7757 0.002276 0.28971 0.00017463 4.0654 0.0024506 602.7979930026193 67.84 0.41219 68.498 68.259 68.671 0.65778 85 24 5 0 0 0 0.00038954 3 31105 31056;31105;31147 133.05 74.373 1 15353000 14831 474 9567 9588 16941;16942;16943 16942 -0.012457114507014921 KYDEIFYNL 9 Unmodified _KYDEIFYNL_ 0 0 0 ENSG00000024422|ENST00000263277|EHD2;ENST00000540884.1_1_19:48232905-48244686:+|nuORF;nc|ENSG00000024422|Q9NZN4-2|EHD2 ENSG00000024422|ENST00000263277|EHD2 ENSG00000024422|ENST00000263277|EHD2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1204.592529296875 1 1204.58847 1203.58119 3.2562 0.0039223 0.15752 0.00018975 3.4137 0.0041121 1204.5876606150632 67.841 0.10329 68.499 68.439 68.542 0.65777 6 5 2 0 0 0 0.097457 1 31106 31106 15.248 7.6395 1 330320 14832 474 9567 9588 16944 16944 -0.012457114507014921 KYDTDFYIL 9 Unmodified _KYDTDFYIL_ 0 0 0 ENST00000489964.5_1_2:136664888-136672125:-|nuORF;nc|ENSG00000115866|P14868-2|DARS1;ENSG00000115866|ENST00000264161|DARS1 ENST00000489964.5_1_2:136664888-136672125:-|nuORF ENST00000489964.5_1_2:136664888-136672125:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.2919311523438 2 589.292422 1176.57029 2.8579 0.0016841 0.12756 7.5169E-05 2.9854 0.0017593 589.292031198727 71.997 0.26407 71.997 71.852 72.116 0 37 22 3 0 0 0 0.053453 1 35001 35001 45.7 23.953 1 1447100 14833 1996 9568 9589 16945 16945 -0.01093113825004366 KYDVLFALF 9 Unmodified _KYDVLFALF_ 0 0 0 ENSG00000139687|ENST00000267163|RB1;RB1|p.K640Ifs*22|1|0.06|ENSG00000139687|chr13:48456307-48456308|-/TACATCTTGTCTATTTAATTGGTATTAT|frameshift_variant;ENST00000525036.1_1_13:48877982-48934322:+|nuORF ENSG00000139687|ENST00000267163|RB1 ENSG00000139687|ENST00000267163|RB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.3109741210938 2 558.310418 1114.60628 4.289 0.0023946 -0.17844 -9.9627E-05 4.1106 0.002295 558.3100541006435 95.445 0.28485 95.712 95.599 95.884 0.26751 30 18 3 0 0 0 0.35367 1 43844 43844 20.415 0 1 414650 14834 3160 9569 9590 16946 16946 0.05356388142513424 KYEELFPAF 9 Unmodified _KYEELFPAF_ 0 0 0 ENSG00000105402|ENST00000263354|NAPA ENSG00000105402|ENST00000263354|NAPA ENSG00000105402|ENST00000263354|NAPA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 572.292724609375 2 572.289682 1142.56481 2.9345 0.0016794 -0.17404 -9.9603E-05 2.7605 0.0015798 572.2893299862461 74.369 0.3445 74.369 74.19 74.534 0 61 34 2 0 0 0 0.022157 2 36269 36269;36319 81.89 41.933 1 4529600 14835 1495 9570 9591 16947;16948 16947 -0.0007679261682369543 KYEELFPAF 9 Unmodified _KYEELFPAF_ 0 0 0 ENSG00000105402|ENST00000263354|NAPA ENSG00000105402|ENST00000263354|NAPA ENSG00000105402|ENST00000263354|NAPA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 572.2908935546875 2 572.289682 1142.56481 3.1036 0.0017762 -0.2895 -0.00016568 2.8141 0.0016105 572.289451047527 73.327 0.34494 74.026 73.784 74.129 0.69881 66 32 3 0 0 0 0.012813 2 35319 35262;35319 96.111 50.09 1 3854700 14836 1495 9570 9591 16949;16950 16950 -0.0007679261682369543 KYEELFPAF 9 Unmodified _KYEELFPAF_ 0 0 0 ENSG00000105402|ENST00000263354|NAPA ENSG00000105402|ENST00000263354|NAPA ENSG00000105402|ENST00000263354|NAPA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.292236328125 2 572.289682 1142.56481 3.1155 0.0017829 -0.23442 -0.00013416 2.881 0.0016488 572.2896263989948 74.113 0.37068 74.371 74.201 74.572 0.25876 86 44 2 0 0 0 0.057456 2 34026 34026;34102 47.749 22.349 1 4108600 14837 1495 9570 9591 16951;16952 16951 -0.0007679261682369543 KYEELFPAF 9 Unmodified _KYEELFPAF_ 0 0 0 ENSG00000105402|ENST00000263354|NAPA ENSG00000105402|ENST00000263354|NAPA ENSG00000105402|ENST00000263354|NAPA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 572.7919311523438 2 572.289682 1142.56481 3.1115 0.0017807 -0.17951 -0.00010273 2.932 0.0016779 572.289581914604 73.584 0.36023 74.249 74.032 74.392 0.6644 90 41 3 0 0 0 0.1081 4 33762 33762;33811;33868;33874 39.95 25.368 1 3226100 14838 1495 9570 9591 16953;16954;16955;16956 16953 -0.0007679261682369543 KYELLKQKI 9 Unmodified _KYELLKQKI_ 0 0 0 REV__nc|ENSG00000114120|Q96CQ1-4|SLC25A36 REV__nc|ENSG00000114120|Q96CQ1-4|SLC25A36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 388.2458801269531 3 388.244658 1161.71214 2.6927 0.0010454 0.40604 0.00015764 3.0988 0.0012031 388.24479907966185 14.969 0.45308 14.969 14.755 15.208 0 144 51 3 0 0 0 1.0894 2 6564 6564;6714 2.4985 0 1 370640 + 14839 11317 9571 9592 16957;16958 16957 0.13775723988010213 KYFDEHYEY 9 Unmodified _KYFDEHYEY_ 0 0 0 ENSG00000123975|ENST00000314355|CKS2 ENSG00000123975|ENST00000314355|CKS2 ENSG00000123975|ENST00000314355|CKS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.2767944335938 2 647.274761 1292.53497 3.6236 0.0023455 0.77522 0.00050178 4.3988 0.0028472 647.2747129126856 36.039 0.11823 36.039 35.999 36.117 0 12 7 2 0 0 0 0.015631 1 16355 16355 74.2 51.542 1 724190 14840 2328 9572 9593 16959 16959 -0.09959776352798144 KYFDEHYEY 9 Unmodified _KYFDEHYEY_ 0 0 0 ENSG00000123975|ENST00000314355|CKS2 ENSG00000123975|ENST00000314355|CKS2 ENSG00000123975|ENST00000314355|CKS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 647.2767944335938 2 647.274761 1292.53497 3.7535 0.0024295 0.86838 0.00056208 4.6219 0.0029916 647.2757332924383 36.269 0.255 36.527 36.37 36.625 0.25768 20 9 3 0 0 0 0.063112 1 16513 16513 41.956 27.55 1 282530 14841 2328 9572 9593 16960 16960 -0.09959776352798144 KYFDEHYEY 9 Unmodified _KYFDEHYEY_ 0 0 0 ENSG00000123975|ENST00000314355|CKS2 ENSG00000123975|ENST00000314355|CKS2 ENSG00000123975|ENST00000314355|CKS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 647.7796020507812 2 647.274761 1292.53497 4.0191 0.0026015 0.39038 0.00025268 4.4095 0.0028542 647.2749392887627 35.79 0.19572 36.416 36.296 36.491 0.62631 12 7 2 0 0 0 0.17594 1 16388 16388 24.991 13.496 1 300290 14842 2328 9572 9593 16961 16961 -0.09959776352798144 KYFDEHYEY 9 Unmodified _KYFDEHYEY_ 0 0 0 ENSG00000123975|ENST00000314355|CKS2 ENSG00000123975|ENST00000314355|CKS2 ENSG00000123975|ENST00000314355|CKS2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 647.274761 1292.53497 3.6161 0.0023406 -0.30304 -0.00019615 3.313 0.0021444 647.2741840770705 34.987 0.25425 35.777 35.642 35.896 0.78921 -0.13133 -0.00055427 NaN 74.2 23 16 2 NaN NaN NaN NaN 0 NaN NaN 0 263000 14843 2328 9572 9593 -0.09959776352798144 KYFEKQFEL 9 Unmodified _KYFEKQFEL_ 0 0 0 ENST00000521973.5_1_8:125516164-125531109:-|nuORF;nc|ENSG00000147687|Q6P1N9-2|TATDN1;ENSG00000147687|ENST00000276692|TATDN1 ENST00000521973.5_1_8:125516164-125531109:-|nuORF ENST00000521973.5_1_8:125516164-125531109:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 616.3253173828125 2 616.321514 1230.62847 3.5552 0.0021912 -0.00094664 -5.8343E-07 3.5543 0.0021906 616.3215957429521 47.113 0.24989 47.113 47.002 47.252 0 27 13 3 0 0 0 0.0013355 1 21551 21551 117.76 60.039 1 1748000 14844 3579 9573 9594 16962 16962 0.02238567820290882 KYFEKQFEL 9 Unmodified _KYFEKQFEL_ 0 0 0 ENST00000521973.5_1_8:125516164-125531109:-|nuORF;nc|ENSG00000147687|Q6P1N9-2|TATDN1;ENSG00000147687|ENST00000276692|TATDN1 ENST00000521973.5_1_8:125516164-125531109:-|nuORF ENST00000521973.5_1_8:125516164-125531109:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 411.21771240234375 3 411.216768 1230.62847 2.6437 0.0010871 0.37889 0.00015581 3.0226 0.0012429 411.216727956316 45.977 0.24932 46.804 46.712 46.962 0.82621 21 11 2 0 0 0 0.048676 1 20945 20945 37.075 5.0372 1 1983500 14845 3579 9573 9594 16963 16963 0.02238567820290882 KYFEKQFEL 9 Unmodified _KYFEKQFEL_ 0 0 0 ENST00000521973.5_1_8:125516164-125531109:-|nuORF;nc|ENSG00000147687|Q6P1N9-2|TATDN1;ENSG00000147687|ENST00000276692|TATDN1 ENST00000521973.5_1_8:125516164-125531109:-|nuORF ENST00000521973.5_1_8:125516164-125531109:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.3236694335938 2 616.321514 1230.62847 3.3168 0.0020442 -0.37723 -0.0002325 2.9396 0.0018117 616.3217358406924 45.986 0.19091 46.812 46.712 46.903 0.82621 17 8 3 0 0 0 0.0013355 1 20953 20953 117.76 51.304 1 1297900 14846 3579 9573 9594 16964 16964 0.02238567820290882 KYFEKQFEL 9 Unmodified _KYFEKQFEL_ 0 0 0 ENST00000521973.5_1_8:125516164-125531109:-|nuORF;nc|ENSG00000147687|Q6P1N9-2|TATDN1;ENSG00000147687|ENST00000276692|TATDN1 ENST00000521973.5_1_8:125516164-125531109:-|nuORF ENST00000521973.5_1_8:125516164-125531109:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 616.3234252929688 2 616.321514 1230.62847 3.7972 0.0023403 -0.32984 -0.00020329 3.4674 0.002137 616.321317926485 46.903 0.24582 47.166 47.066 47.312 0.26363 17 7 3 0 0 0 0.002702 1 21441 21441 96.936 21.175 1 912060 14847 3579 9573 9594 16965 16965 0.02238567820290882 KYFEKQFEL 9 Unmodified _KYFEKQFEL_ 0 0 0 ENST00000521973.5_1_8:125516164-125531109:-|nuORF;nc|ENSG00000147687|Q6P1N9-2|TATDN1;ENSG00000147687|ENST00000276692|TATDN1 ENST00000521973.5_1_8:125516164-125531109:-|nuORF ENST00000521973.5_1_8:125516164-125531109:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 616.3218994140625 2 616.321514 1230.62847 3.8112 0.0023489 -0.39933 -0.00024612 3.4119 0.0021028 616.3206394009976 46.36 0.23143 47.012 46.906 47.137 0.65219 21 10 3 0 0 0 0.028483 1 21229 21229 57.249 29.62 1 468390 14848 3579 9573 9594 16966 16966 0.02238567820290882 KYFEKQFEL 9 Unmodified _KYFEKQFEL_ 0 0 0 ENST00000521973.5_1_8:125516164-125531109:-|nuORF;nc|ENSG00000147687|Q6P1N9-2|TATDN1;ENSG00000147687|ENST00000276692|TATDN1 ENST00000521973.5_1_8:125516164-125531109:-|nuORF ENST00000521973.5_1_8:125516164-125531109:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 411.216768 1230.62847 3.1636 0.0013009 -0.28046 -0.00011533 2.8832 0.0011856 411.21636256242266 46.916 0.3025 47.18 47.009 47.312 0.26363 0.18099 -0.0010601 NaN 37.075 20 9 3 NaN NaN NaN NaN 0 NaN NaN 0 810770 14849 3579 9573 9594 0.02238567820290882 KYFEKQFEL 9 Unmodified _KYFEKQFEL_ 0 0 0 ENST00000521973.5_1_8:125516164-125531109:-|nuORF;nc|ENSG00000147687|Q6P1N9-2|TATDN1;ENSG00000147687|ENST00000276692|TATDN1 ENST00000521973.5_1_8:125516164-125531109:-|nuORF ENST00000521973.5_1_8:125516164-125531109:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 411.216768 1230.62847 3.1879 0.0013109 1.5203 0.00062518 4.7082 0.0019361 411.2174444644575 46.361 0.23143 47.013 46.906 47.137 0.65219 0.014496 0.0011614 NaN 37.075 23 10 3 NaN NaN NaN NaN 0 NaN NaN 0 788800 14850 3579 9573 9594 0.02238567820290882 KYFHIKHRHWY 11 Unmodified _KYFHIKHRHWY_ 0 0 0 ENSG00000205029|ENST00000378396|OR5D16 ENSG00000205029|ENST00000378396|OR5D16 ENSG00000205029|ENST00000378396|OR5D16 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.8643188476562 2 807.925669 1613.83679 NaN NaN NaN NaN NaN NaN NaN 60.524 1 60.524 60.024 61.024 0 0 0 0 1.0082 1 28123 28123 0.30703 0.30703 1 14851 6041 9574 9595 16967 16967 0.054420342479033934 KYFHPPAHL 9 Unmodified _KYFHPPAHL_ 0 0 0 nc|ENSG00000152601|Q9NR56-6|MBNL1;nc|ENSG00000152601|Q9NR56-2|MBNL1;nc|ENSG00000076770|Q9NUK0-4|MBNL3;nc|ENSG00000152601|Q9NR56-3|MBNL1;nc|ENSG00000076770|Q9NUK0-3|MBNL3;nc|ENSG00000152601|Q9NR56-4|MBNL1;nc|ENSG00000076770|Q9NUK0-2|MBNL3;nc|ENSG00000152601|Q9NR56-7|MBNL1;nc|ENSG00000152601|Q9NR56|MBNL1;ENSG00000076770|ENST00000370853|MBNL3;ENSG00000152601|ENST00000324210|MBNL1;nc|ENSG00000139793|Q5VZF2|MBNL2;ENST00000460166.1_1_3:152132852-152173345:+|nuORF;nc|ENSG00000139793|Q5VZF2-2|MBNL2;nc|ENSG00000139793|Q5VZF2-3|MBNL2;nc|ENSG00000076770|Q9NUK0-5|MBNL3;ENSG00000139793|ENST00000679496|MBNL2 nc|ENSG00000152601|Q9NR56-6|MBNL1 nc|ENSG00000152601|Q9NR56-6|MBNL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 370.5356140136719 3 370.534543 1108.5818 2.9422 0.0010902 -0.29996 -0.00011115 2.6423 0.00097905 370.5344088443672 27.266 0.76863 27.266 26.679 27.448 0 153 50 4 0 0 0 0.015487 2 12235 12235;12276 74.929 55.303 1 3818800 14852 850 9575 9596 16968;16969 16968 0.031851727796492924 KYFHPPAHL 9 Unmodified _KYFHPPAHL_ 0 0 0 nc|ENSG00000152601|Q9NR56-6|MBNL1;nc|ENSG00000152601|Q9NR56-2|MBNL1;nc|ENSG00000076770|Q9NUK0-4|MBNL3;nc|ENSG00000152601|Q9NR56-3|MBNL1;nc|ENSG00000076770|Q9NUK0-3|MBNL3;nc|ENSG00000152601|Q9NR56-4|MBNL1;nc|ENSG00000076770|Q9NUK0-2|MBNL3;nc|ENSG00000152601|Q9NR56-7|MBNL1;nc|ENSG00000152601|Q9NR56|MBNL1;ENSG00000076770|ENST00000370853|MBNL3;ENSG00000152601|ENST00000324210|MBNL1;nc|ENSG00000139793|Q5VZF2|MBNL2;ENST00000460166.1_1_3:152132852-152173345:+|nuORF;nc|ENSG00000139793|Q5VZF2-2|MBNL2;nc|ENSG00000139793|Q5VZF2-3|MBNL2;nc|ENSG00000076770|Q9NUK0-5|MBNL3;ENSG00000139793|ENST00000679496|MBNL2 nc|ENSG00000152601|Q9NR56-6|MBNL1 nc|ENSG00000152601|Q9NR56-6|MBNL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 370.53546142578125 3 370.534543 1108.5818 2.3577 0.00087361 0.38367 0.00014216 2.7414 0.0010158 370.53463614609547 26.336 0.85193 27.114 26.462 27.314 0.7787 189 60 4 0 0 0 0.0077156 3 11784 11784;11826;11870 85.272 85.272 1 3602500 14853 850 9575 9596 16970;16971;16972 16970 0.031851727796492924 KYFHPPAHL 9 Unmodified _KYFHPPAHL_ 0 0 0 nc|ENSG00000152601|Q9NR56-6|MBNL1;nc|ENSG00000152601|Q9NR56-2|MBNL1;nc|ENSG00000076770|Q9NUK0-4|MBNL3;nc|ENSG00000152601|Q9NR56-3|MBNL1;nc|ENSG00000076770|Q9NUK0-3|MBNL3;nc|ENSG00000152601|Q9NR56-4|MBNL1;nc|ENSG00000076770|Q9NUK0-2|MBNL3;nc|ENSG00000152601|Q9NR56-7|MBNL1;nc|ENSG00000152601|Q9NR56|MBNL1;ENSG00000076770|ENST00000370853|MBNL3;ENSG00000152601|ENST00000324210|MBNL1;nc|ENSG00000139793|Q5VZF2|MBNL2;ENST00000460166.1_1_3:152132852-152173345:+|nuORF;nc|ENSG00000139793|Q5VZF2-2|MBNL2;nc|ENSG00000139793|Q5VZF2-3|MBNL2;nc|ENSG00000076770|Q9NUK0-5|MBNL3;ENSG00000139793|ENST00000679496|MBNL2 nc|ENSG00000152601|Q9NR56-6|MBNL1 nc|ENSG00000152601|Q9NR56-6|MBNL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 370.5354919433594 3 370.534543 1108.5818 2.6515 0.00098246 0.44267 0.00016402 3.0941 0.0011465 370.5347058581681 27.14 0.83613 27.405 26.781 27.617 0.26489 157 59 4 0 0 0 0.029028 1 12337 12337 49.933 33.367 1 2716100 14854 850 9575 9596 16973 16973 0.031851727796492924 KYFHPPAHL 9 Unmodified _KYFHPPAHL_ 0 0 0 nc|ENSG00000152601|Q9NR56-6|MBNL1;nc|ENSG00000152601|Q9NR56-2|MBNL1;nc|ENSG00000076770|Q9NUK0-4|MBNL3;nc|ENSG00000152601|Q9NR56-3|MBNL1;nc|ENSG00000076770|Q9NUK0-3|MBNL3;nc|ENSG00000152601|Q9NR56-4|MBNL1;nc|ENSG00000076770|Q9NUK0-2|MBNL3;nc|ENSG00000152601|Q9NR56-7|MBNL1;nc|ENSG00000152601|Q9NR56|MBNL1;ENSG00000076770|ENST00000370853|MBNL3;ENSG00000152601|ENST00000324210|MBNL1;nc|ENSG00000139793|Q5VZF2|MBNL2;ENST00000460166.1_1_3:152132852-152173345:+|nuORF;nc|ENSG00000139793|Q5VZF2-2|MBNL2;nc|ENSG00000139793|Q5VZF2-3|MBNL2;nc|ENSG00000076770|Q9NUK0-5|MBNL3;ENSG00000139793|ENST00000679496|MBNL2 nc|ENSG00000152601|Q9NR56-6|MBNL1 nc|ENSG00000152601|Q9NR56-6|MBNL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.3004760742188 2 555.298176 1108.5818 NaN NaN NaN NaN NaN NaN NaN 27.274 1 27.537 27.037 28.037 0.26245 0 0 0 0.90511 1 12396 12396 2.3027 1.1094 1 14855 850 9575 9596 16974 16974 0.031851727796492924 KYFHPPAHL 9 Unmodified _KYFHPPAHL_ 0 0 0 nc|ENSG00000152601|Q9NR56-6|MBNL1;nc|ENSG00000152601|Q9NR56-2|MBNL1;nc|ENSG00000076770|Q9NUK0-4|MBNL3;nc|ENSG00000152601|Q9NR56-3|MBNL1;nc|ENSG00000076770|Q9NUK0-3|MBNL3;nc|ENSG00000152601|Q9NR56-4|MBNL1;nc|ENSG00000076770|Q9NUK0-2|MBNL3;nc|ENSG00000152601|Q9NR56-7|MBNL1;nc|ENSG00000152601|Q9NR56|MBNL1;ENSG00000076770|ENST00000370853|MBNL3;ENSG00000152601|ENST00000324210|MBNL1;nc|ENSG00000139793|Q5VZF2|MBNL2;ENST00000460166.1_1_3:152132852-152173345:+|nuORF;nc|ENSG00000139793|Q5VZF2-2|MBNL2;nc|ENSG00000139793|Q5VZF2-3|MBNL2;nc|ENSG00000076770|Q9NUK0-5|MBNL3;ENSG00000139793|ENST00000679496|MBNL2 nc|ENSG00000152601|Q9NR56-6|MBNL1 nc|ENSG00000152601|Q9NR56-6|MBNL1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 370.534543 1108.5818 2.5245 0.00093543 0.3886 0.00014399 2.9131 0.0010794 370.53466308904365 26.758 0.85067 27.38 26.748 27.599 0.62178 0.088732 0.00017085 NaN 65.235 131 55 3 NaN NaN NaN NaN 0 NaN NaN 0 2086500 14856 850 9575 9596 0.031851727796492924 KYFLKPEVL 9 Unmodified _KYFLKPEVL_ 0 0 0 nc|ENSG00000144959|Q6PIU2-2|NCEH1;ENSG00000144959|ENST00000475381|NCEH1;nc|ENSG00000144959|Q6PIU2-3|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.841796875 2 568.839342 1135.66413 3.4516 0.0019634 -0.087204 -4.9605E-05 3.3644 0.0019138 568.8392493894484 49.064 0.32737 49.064 48.896 49.224 0 49 16 4 0 0 0 1.8942E-09 2 22441 22441;22487 179.17 93.902 1 5703400 14857 3452 9576 9597 16975;16976 16975 0.10172650067943323 KYFLKPEVL 9 Unmodified _KYFLKPEVL_ 0 0 0 nc|ENSG00000144959|Q6PIU2-2|NCEH1;ENSG00000144959|ENST00000475381|NCEH1;nc|ENSG00000144959|Q6PIU2-3|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.8411865234375 2 568.839342 1135.66413 3.4752 0.0019769 -0.08857 -5.0382E-05 3.3867 0.0019265 568.8392191119228 47.974 0.33573 48.804 48.619 48.955 0.82915 46 14 4 0 0 0 0.00047252 2 21831 21831;21884 145.13 59.858 1 4075300 14858 3452 9576 9597 16977;16978 16977 0.10172650067943323 KYFLKPEVL 9 Unmodified _KYFLKPEVL_ 0 0 0 nc|ENSG00000144959|Q6PIU2-2|NCEH1;ENSG00000144959|ENST00000475381|NCEH1;nc|ENSG00000144959|Q6PIU2-3|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.5628967285156 3 379.561987 1135.66413 2.4163 0.00091712 0.055953 2.1237E-05 2.4722 0.00093836 379.5619821243598 47.948 0.33573 48.777 48.619 48.955 0.82915 44 14 4 0 0 0 0.069974 2 21834 21834;21885 40.239 23.673 1 2083100 14859 3452 9576 9597 16979;16980 16979 0.10172650067943323 KYFLKPEVL 9 Unmodified _KYFLKPEVL_ 0 0 0 nc|ENSG00000144959|Q6PIU2-2|NCEH1;ENSG00000144959|ENST00000475381|NCEH1;nc|ENSG00000144959|Q6PIU2-3|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.8436889648438 2 568.839342 1135.66413 3.6369 0.0020688 0.26557 0.00015107 3.9025 0.0022199 568.8393336958699 48.758 0.26976 49.02 48.902 49.172 0.26209 30 10 4 0 0 0 0.0025279 2 22272 22272;22328 107.1 65.005 1 2811600 14860 3452 9576 9597 16981;16982 16981 0.10172650067943323 KYFLKPEVL 9 Unmodified _KYFLKPEVL_ 0 0 0 nc|ENSG00000144959|Q6PIU2-2|NCEH1;ENSG00000144959|ENST00000475381|NCEH1;nc|ENSG00000144959|Q6PIU2-3|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.5630798339844 3 379.561987 1135.66413 2.9242 0.0011099 -0.034702 -1.3171E-05 2.8895 0.0010967 379.56191529564245 48.762 0.29872 49.024 48.873 49.172 0.26209 26 11 3 0 0 0 0.14214 2 22288 22288;22341 27.223 15.729 1 1955200 14861 3452 9576 9597 16983;16984 16983 0.10172650067943323 KYFLKPEVL 9 Unmodified _KYFLKPEVL_ 0 0 0 nc|ENSG00000144959|Q6PIU2-2|NCEH1;ENSG00000144959|ENST00000475381|NCEH1;nc|ENSG00000144959|Q6PIU2-3|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.8424682617188 2 568.839342 1135.66413 3.7184 0.0021152 0.50142 0.00028523 4.2198 0.0024004 568.8395427250033 48.207 0.35901 48.861 48.652 49.011 0.65356 41 13 4 0 0 0 0.0078872 2 22026 22026;22072 93.166 51.071 1 1943200 14862 3452 9576 9597 16985;16986 16985 0.10172650067943323 KYFLKPEVL 9 Unmodified _KYFLKPEVL_ 0 0 0 nc|ENSG00000144959|Q6PIU2-2|NCEH1;ENSG00000144959|ENST00000475381|NCEH1;nc|ENSG00000144959|Q6PIU2-3|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 379.561987 1135.66413 2.7696 0.0010512 -0.14889 -5.6512E-05 2.6207 0.00099474 379.5618931718566 49.082 0.27839 49.082 48.918 49.196 0 0.14704 -0.00017361 NaN 40.239 44 14 4 NaN NaN NaN NaN 0 NaN NaN 0 3029400 14863 3452 9576 9597 0.10172650067943323 KYFLKPEVL 9 Unmodified _KYFLKPEVL_ 0 0 0 nc|ENSG00000144959|Q6PIU2-2|NCEH1;ENSG00000144959|ENST00000475381|NCEH1;nc|ENSG00000144959|Q6PIU2-3|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 379.561987 1135.66413 2.8301 0.0010742 0.12651 4.8017E-05 2.9566 0.0011222 379.56204250110187 48.204 0.33056 48.858 48.704 49.035 0.65356 -0.0776 0.00013998 NaN 40.239 28 12 3 NaN NaN NaN NaN 0 NaN NaN 0 958160 14864 3452 9576 9597 0.10172650067943323 KYFLWVVKF 9 Unmodified _KYFLWVVKF_ 0 0 0 nc|ENSG00000177885|P62993-2|GRB2;ENST00000462266.1_1_17:73316451-73322393:-|nuORF;ENSG00000177885|ENST00000316804|GRB2 nc|ENSG00000177885|P62993-2|GRB2 nc|ENSG00000177885|P62993-2|GRB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 410.9097900390625 3 410.574227 1228.70085 2.124 0.00087204 0.13353 5.4826E-05 2.2575 0.00092687 410.5740930152357 76.791 0.25005 77.415 77.315 77.565 0.62397 29 17 2 0 0 0 0.19064 1 37239 37239 17.443 14.37 1 831540 14865 9763 9577 9598 16987 16987 0.09564946684486131 KYFLWVVKF 9 Unmodified _KYFLWVVKF_ 0 0 0 nc|ENSG00000177885|P62993-2|GRB2;ENST00000462266.1_1_17:73316451-73322393:-|nuORF;ENSG00000177885|ENST00000316804|GRB2 nc|ENSG00000177885|P62993-2|GRB2 nc|ENSG00000177885|P62993-2|GRB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 615.3521728515625 2 615.357702 1228.70085 NaN NaN NaN NaN NaN NaN NaN 77.725 1 77.978 77.478 78.478 0.25335 0 0 0 0.088893 1 35795 35795 43.772 32.278 1 14866 9763 9577 9598 16988 16988 0.09564946684486131 KYFLWVVKF 9 Unmodified _KYFLWVVKF_ 0 0 0 nc|ENSG00000177885|P62993-2|GRB2;ENST00000462266.1_1_17:73316451-73322393:-|nuORF;ENSG00000177885|ENST00000316804|GRB2 nc|ENSG00000177885|P62993-2|GRB2 nc|ENSG00000177885|P62993-2|GRB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 615.3595581054688 2 615.357702 1228.70085 NaN NaN NaN NaN NaN NaN NaN 77.783 1 78.037 77.537 78.537 0.25335 0 0 0 0.078562 1 35822 35822 45.7 30.861 1 14867 9763 9577 9598 16989 16989 0.09564946684486131 KYFSLPSVVF 10 Unmodified _KYFSLPSVVF_ 0 0 0 nc|ENSG00000241119|O60656-2|UGT1A9;ENSG00000241119|ENST00000354728|UGT1A9;nc|ENSG00000242515|Q9HAW8-2|UGT1A10;nc|ENSG00000242366|Q9HAW9-2|UGT1A8;ENSG00000242515|ENST00000344644|UGT1A10;ENSG00000242366|ENST00000373450|UGT1A8;nc|ENSG00000244122|Q9HAW7-2|UGT1A7;ENSG00000244122|ENST00000373426|UGT1A7 nc|ENSG00000241119|O60656-2|UGT1A9;nc|ENSG00000244122|Q9HAW7-2|UGT1A7 nc|ENSG00000241119|O60656-2|UGT1A9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.82958984375 2 593.828975 1185.6434 2.8854 0.0017134 0.64129 0.00038082 3.5267 0.0020943 593.8294662623538 82.591 0.26437 82.591 82.463 82.728 0 65 35 3 0 0 0 0.047717 1 41401 41401 55.503 24.866 1 26678000 14868 6222;6247 9578 9599 16990 16990 0.058000596882720856 KYFSLPSVVF 10 Unmodified _KYFSLPSVVF_ 0 0 0 nc|ENSG00000241119|O60656-2|UGT1A9;ENSG00000241119|ENST00000354728|UGT1A9;nc|ENSG00000242515|Q9HAW8-2|UGT1A10;nc|ENSG00000242366|Q9HAW9-2|UGT1A8;ENSG00000242515|ENST00000344644|UGT1A10;ENSG00000242366|ENST00000373450|UGT1A8;nc|ENSG00000244122|Q9HAW7-2|UGT1A7;ENSG00000244122|ENST00000373426|UGT1A7 nc|ENSG00000241119|O60656-2|UGT1A9;nc|ENSG00000244122|Q9HAW7-2|UGT1A7 nc|ENSG00000241119|O60656-2|UGT1A9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 593.829833984375 2 593.828975 1185.6434 2.8325 0.001682 0.09521 5.6538E-05 2.9277 0.0017386 593.8288322651428 81.545 0.34148 81.629 81.423 81.765 0.084106 66 31 4 0 0 0 0.071253 3 40021 40021;40073;40148 61.602 39.103 1 36011000 14869 6222;6247 9578 9599 16991;16992;16993 16991 0.058000596882720856 KYFSLPSVVF 10 Unmodified _KYFSLPSVVF_ 0 0 0 nc|ENSG00000241119|O60656-2|UGT1A9;ENSG00000241119|ENST00000354728|UGT1A9;nc|ENSG00000242515|Q9HAW8-2|UGT1A10;nc|ENSG00000242366|Q9HAW9-2|UGT1A8;ENSG00000242515|ENST00000344644|UGT1A10;ENSG00000242366|ENST00000373450|UGT1A8;nc|ENSG00000244122|Q9HAW7-2|UGT1A7;ENSG00000244122|ENST00000373426|UGT1A7 nc|ENSG00000241119|O60656-2|UGT1A9;nc|ENSG00000244122|Q9HAW7-2|UGT1A7 nc|ENSG00000241119|O60656-2|UGT1A9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 593.8309326171875 2 593.828975 1185.6434 3.5768 0.002124 0.018255 1.084E-05 3.595 0.0021348 593.828959022372 82.557 0.33549 82.804 82.643 82.978 0.24722 40 15 3 0 0 0 0.01989 3 38006 37958;38006;38056 65.474 41.453 1 4081000 14870 6222;6247 9578 9599 16994;16995;16996 16995 0.058000596882720856 KYFSLPSVVF 10 Unmodified _KYFSLPSVVF_ 0 0 0 nc|ENSG00000241119|O60656-2|UGT1A9;ENSG00000241119|ENST00000354728|UGT1A9;nc|ENSG00000242515|Q9HAW8-2|UGT1A10;nc|ENSG00000242366|Q9HAW9-2|UGT1A8;ENSG00000242515|ENST00000344644|UGT1A10;ENSG00000242366|ENST00000373450|UGT1A8;nc|ENSG00000244122|Q9HAW7-2|UGT1A7;ENSG00000244122|ENST00000373426|UGT1A7 nc|ENSG00000241119|O60656-2|UGT1A9;nc|ENSG00000244122|Q9HAW7-2|UGT1A7 nc|ENSG00000241119|O60656-2|UGT1A9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 593.831298828125 2 593.828975 1185.6434 4.0104 0.0023815 0.26632 0.00015815 4.2767 0.0025396 593.8289142461898 81.906 0.30112 82.566 82.405 82.707 0.65998 46 16 4 0 0 0 0.019405 2 37707 37707;37759 70.332 41.25 1 2846000 14871 6222;6247 9578 9599 16997;16998 16997 0.058000596882720856 KYFYRGRLDW 10 Unmodified _KYFYRGRLDW_ 0 0 0 nc|ENSG00000176444|P49760-3|CLK2;ENSG00000176444|ENST00000368361|CLK2;ENST00000416636.2_1_7:23624683-23625604:-|nuORF nc|ENSG00000176444|P49760-3|CLK2 nc|ENSG00000176444|P49760-3|CLK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 702.3651733398438 2 702.364579 1402.7146 NaN NaN NaN NaN NaN NaN NaN 83.56 1 84.222 83.722 84.722 0.66219 0 0 0 1.0003 1 38487 38487 1.4819 0 1 14872 5079 9579 9600 16999 16999 0.029355724456536336 KYGALVNNF 9 Unmodified _KYGALVNNF_ 0 0 0 ENST00000495427.1_2_1:46810505-46812688:+|nuORF;ENST00000475281.1_1_1:46810505-46810817:+|nuORF;nc|ENSG00000117481|Q96CB9-2|NSUN4;nc|ENSG00000117481|Q96CB9-4|NSUN4;ENSG00000117481|ENST00000474844|NSUN4 ENST00000495427.1_2_1:46810505-46812688:+|nuORF ENST00000495427.1_2_1:46810505-46812688:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.2765502929688 2 513.274367 1024.53418 3.0138 0.0015469 2.1668 0.0011121 5.1805 0.002659 513.2762220275536 46.729 0.36352 46.729 46.603 46.967 0 23 12 3 0 0 0 0.025323 1 21394 21394 61.357 7.7819 1 758070 14873 2076 9580 9601 17000 17000 0.02289473788800933 KYGALVNNF 9 Unmodified _KYGALVNNF_ 0 0 0 ENST00000495427.1_2_1:46810505-46812688:+|nuORF;ENST00000475281.1_1_1:46810505-46810817:+|nuORF;nc|ENSG00000117481|Q96CB9-2|NSUN4;nc|ENSG00000117481|Q96CB9-4|NSUN4;ENSG00000117481|ENST00000474844|NSUN4 ENST00000495427.1_2_1:46810505-46812688:+|nuORF ENST00000495427.1_2_1:46810505-46812688:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.2762451171875 2 513.274367 1024.53418 3.2042 0.0016446 -0.73702 -0.00037829 2.4672 0.0012663 513.273776773678 45.677 0.24395 46.503 46.387 46.631 0.82621 18 11 2 0 0 0 0.071101 1 20812 20812 39.957 1.8061 1 584990 14874 2076 9580 9601 17001 17001 0.02289473788800933 KYGALVNNF 9 Unmodified _KYGALVNNF_ 0 0 0 ENST00000495427.1_2_1:46810505-46812688:+|nuORF;ENST00000475281.1_1_1:46810505-46810817:+|nuORF;nc|ENSG00000117481|Q96CB9-2|NSUN4;nc|ENSG00000117481|Q96CB9-4|NSUN4;ENSG00000117481|ENST00000474844|NSUN4 ENST00000495427.1_2_1:46810505-46812688:+|nuORF ENST00000495427.1_2_1:46810505-46812688:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.2764892578125 2 513.274367 1024.53418 3.709 0.0019038 -0.38109 -0.00019561 3.328 0.0017082 513.2742294092292 46.125 0.19471 46.777 46.634 46.829 0.65104 10 5 2 0 0 0 0.10169 1 21123 21123 32.305 7.6316 1 391130 14875 2076 9580 9601 17002 17002 0.02289473788800933 KYGFGYQL 8 Unmodified _KYGFGYQL_ 0 0 0 ENSG00000145632|ENST00000274289|PLK2;nc|ENSG00000185988|Q496M5-2|PLK5;ENSG00000185988|ENST00000454744|PLK5 ENSG00000145632|ENST00000274289|PLK2;nc|ENSG00000185988|Q496M5-2|PLK5 ENSG00000145632|ENST00000274289|PLK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 488.2513427734375 2 488.25036 974.486168 2.6999 0.0013182 -0.41998 -0.00020506 2.2799 0.0011132 488.2499502756169 51.871 0.35801 52.681 52.497 52.855 0.81065 64 25 3 0 0 0 0.06577 2 23633 23633;23678 60.39 9.5345 1 6257400 14876 3478;5551 9581 9602 17003;17004 17003 -0.0020960013124522447 KYGFGYQL 8 Unmodified _KYGFGYQL_ 0 0 0 ENSG00000145632|ENST00000274289|PLK2;nc|ENSG00000185988|Q496M5-2|PLK5;ENSG00000185988|ENST00000454744|PLK5 ENSG00000145632|ENST00000274289|PLK2;nc|ENSG00000185988|Q496M5-2|PLK5 ENSG00000145632|ENST00000274289|PLK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.2516784667969 2 488.25036 974.486168 3.2423 0.001583 -0.48228 -0.00023547 2.76 0.0013476 488.2500050089314 52.963 0.62182 53.227 53.011 53.633 0.26345 90 43 4 0 0 0 0.12673 2 24162 24162;24255 50.855 8.7605 1 4952200 14877 3478;5551 9581 9602 17005;17006 17005 -0.0020960013124522447 KYGFGYQL 8 Unmodified _KYGFGYQL_ 0 0 0 ENSG00000145632|ENST00000274289|PLK2;nc|ENSG00000185988|Q496M5-2|PLK5;ENSG00000185988|ENST00000454744|PLK5 ENSG00000145632|ENST00000274289|PLK2;nc|ENSG00000185988|Q496M5-2|PLK5 ENSG00000145632|ENST00000274289|PLK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.2520751953125 2 488.25036 974.486168 3.0197 0.0014744 -0.060089 -2.9338E-05 2.9596 0.001445 488.25028894495614 52.494 0.3877 53.156 52.929 53.316 0.66198 46 17 4 0 0 0 0.12673 1 23962 23962 50.855 2.5092 1 3773200 14878 3478;5551 9581 9602 17007 17007 -0.0020960013124522447 KYGIQMPAF 9 Unmodified _KYGIQMPAF_ 0 0 0 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000140575|ENST00000268182|IQGAP1 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.7749633789062 2 527.773145 1053.53174 3.3163 0.0017502 0.33064 0.0001745 3.6469 0.0019247 527.773217883658 63.987 0.25035 64.644 64.421 64.671 0.65672 21 16 2 0 0 0 0.056465 2 29303 29303;29311 44.407 19.733 1 699220 14879 3209 9582 9603 17008;17009 17008 0.007113020594943009 KYGIVLKEF 9 Unmodified _KYGIVLKEF_ 0 0 0 ENSG00000125651|ENST00000394456|GTF2F1 ENSG00000125651|ENST00000394456|GTF2F1 ENSG00000125651|ENST00000394456|GTF2F1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.8262329101562 2 548.823692 1095.63283 3.618 0.0019856 2.3407 0.0012846 5.9587 0.0032703 548.8248536549125 49.166 0.14917 49.821 49.734 49.883 0.65524 6 4 2 0 0 0 0.72052 1 22492 22492 8.7454 4.801 1 183030 14880 2411 9583 9604 17010 17010 0.0888407703384928 KYGIVLKEF 9 Unmodified _KYGIVLKEF_ 0 0 0 ENSG00000125651|ENST00000394456|GTF2F1 ENSG00000125651|ENST00000394456|GTF2F1 ENSG00000125651|ENST00000394456|GTF2F1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 548.823692 1095.63283 3.6016 0.0019766 0.18284 0.00010035 3.7844 0.002077 548.8234922237848 49.791 0.16743 49.791 49.682 49.849 0 0.089725 -0.00031759 NaN 8.7454 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 331510 14881 2411 9583 9604 0.0888407703384928 KYGIVLKEF 9 Unmodified _KYGIVLKEF_ 0 0 0 ENSG00000125651|ENST00000394456|GTF2F1 ENSG00000125651|ENST00000394456|GTF2F1 ENSG00000125651|ENST00000394456|GTF2F1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 548.823692 1095.63283 3.2471 0.0017821 0.19933 0.0001094 3.4464 0.0018915 548.8235945258772 48.663 0.15004 49.49 49.436 49.586 0.82705 -0.21037 -0.00029949 NaN 8.7454 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 215670 14882 2411 9583 9604 0.0888407703384928 KYGIVQEF 8 Unmodified _KYGIVQEF_ 0 0 0 ENSG00000149639|ENST00000237536|SOGA1;nc|ENSG00000149639|O94964-1|MTCL2;nc|ENSG00000149639|O94964-3|MTCL2 ENSG00000149639|ENST00000237536|SOGA1 ENSG00000149639|ENST00000237536|SOGA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.2653503417969 2 492.263468 982.512382 3.0624 0.0015075 0.4314 0.00021236 3.4938 0.0017199 492.26365888244686 49.697 0.26717 49.697 49.526 49.793 0 26 11 3 0 0 0 0.62895 1 22797 22797 11.64 0 1 585510 14883 3652 9584 9605 17011 17011 0.02042669040235978 KYGIVQEF 8 Unmodified _KYGIVQEF_ 0 0 0 ENSG00000149639|ENST00000237536|SOGA1;nc|ENSG00000149639|O94964-1|MTCL2;nc|ENSG00000149639|O94964-3|MTCL2 ENSG00000149639|ENST00000237536|SOGA1 ENSG00000149639|ENST00000237536|SOGA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.2655334472656 2 492.263468 982.512382 3.2119 0.0015811 -0.031363 -1.5439E-05 3.1805 0.0015657 492.2635561987776 49.615 0.25238 49.877 49.727 49.98 0.26146 19 10 2 0 0 0 0.56084 1 22679 22679 16.942 0 1 457370 14884 3652 9584 9605 17012 17012 0.02042669040235978 KYGKDFNDI 9 Unmodified _KYGKDFNDI_ 0 0 0 ENST00000490611.1_1_2:42886927-42909744:+|nuORF;nc|ENSG00000149480|O94776-2|MTA2;nc|ENSG00000057935|Q9BTC8-2|MTA3;ENSG00000057935|ENST00000405094|MTA3;ENSG00000149480|ENST00000278823|MTA2 ENST00000490611.1_1_2:42886927-42909744:+|nuORF ENST00000490611.1_1_2:42886927-42909744:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.27734375 2 550.274564 1098.53457 NaN NaN NaN NaN NaN NaN NaN 25.459 1 26.222 25.722 26.722 0.76356 0 0 0 0.43268 1 11428 11428 21.537 1.0834 1 14885 626 9585 9606 17013 17013 -0.010751512820206699 KYGMVTYLL 9 Unmodified _KYGMVTYLL_ 0 0 0 ENSG00000158669|ENST00000396987|GPAT4 ENSG00000158669|ENST00000396987|GPAT4 ENSG00000158669|ENST00000396987|GPAT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.2986450195312 2 544.296453 1086.57835 NaN NaN NaN NaN NaN NaN NaN 67.831 1 68.489 67.989 68.989 0.65777 0 0 0 0.37214 1 31092 31092 24.021 0.87215 1 14886 3994 9586 9607 17014 17014 0.03852741890773359 KYGPIRQI 8 Unmodified _KYGPIRQI_ 0 0 0 ENSG00000115128|ENST00000233468|SF3B6;ENST00000478050.1_1_2:24296944-24299099:-|nuORF ENSG00000115128|ENST00000233468|SF3B6 ENSG00000115128|ENST00000233468|SF3B6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.7936096191406 2 487.792727 973.5709 NaN NaN NaN NaN NaN NaN NaN 25.505 1 25.505 25.005 26.005 0 0 0 0 0.16411 1 11454 11454 85.357 24.967 1 14887 1944 9587 9608 17015 17015 0.08305770405377189 KYGPIRQI 8 Unmodified _KYGPIRQI_ 0 0 0 ENSG00000115128|ENST00000233468|SF3B6;ENST00000478050.1_1_2:24296944-24299099:-|nuORF ENSG00000115128|ENST00000233468|SF3B6 ENSG00000115128|ENST00000233468|SF3B6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.793701171875 2 487.792727 973.5709 2.9209 0.0014248 -0.39942 -0.00019483 2.5215 0.00123 487.79251164373346 24.631 0.23997 25.367 25.25 25.49 0.73623 74 34 3 0 0 0 0.022274 2 11050 11005;11050 85.357 18.013 1 3238700 14888 1944 9587 9608 17016;17017 17017 0.08305770405377189 KYGPIRQI 8 Unmodified _KYGPIRQI_ 0 0 0 ENSG00000115128|ENST00000233468|SF3B6;ENST00000478050.1_1_2:24296944-24299099:-|nuORF ENSG00000115128|ENST00000233468|SF3B6 ENSG00000115128|ENST00000233468|SF3B6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 325.5315246582031 3 325.53091 973.5709 2.4727 0.00080494 -0.3143 -0.00010231 2.1584 0.00070263 325.5309571051821 25.454 0.31524 25.722 25.508 25.824 0.26777 45 31 2 0 0 0 0.34607 2 11551 11499;11551 25.399 7.253 1 445170 14889 1944 9587 9608 17018;17019 17019 0.08305770405377189 KYGPIRQI 8 Unmodified _KYGPIRQI_ 0 0 0 ENSG00000115128|ENST00000233468|SF3B6;ENST00000478050.1_1_2:24296944-24299099:-|nuORF ENSG00000115128|ENST00000233468|SF3B6 ENSG00000115128|ENST00000233468|SF3B6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.7938537597656 2 487.792727 973.5709 3.2411 0.001581 0.24665 0.00012031 3.4877 0.0017013 487.79282281584767 25.413 0.28677 25.681 25.518 25.805 0.26777 44 28 2 0 0 0 0.29255 1 11546 11546 36.044 12.896 1 489300 14890 1944 9587 9608 17020 17020 0.08305770405377189 KYGPVFSF 8 Unmodified _KYGPVFSF_ 0 0 0 ENSG00000001630|ENST00000003100|CYP51A1 ENSG00000001630|ENST00000003100|CYP51A1 ENSG00000001630|ENST00000003100|CYP51A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.7492980957031 2 472.747453 943.480354 2.4312 0.0011493 0.089928 4.2513E-05 2.5211 0.0011918 472.74752485415564 63.404 0.27561 63.404 63.274 63.55 0 49 28 2 0 0 0 0.033633 1 29817 29817 74.423 14.033 1 4197400 14891 297 9588 9609 17021 17021 0.006353013570901567 KYGRIVEVL 9 Unmodified _KYGRIVEVL_ 0 0 0 ENST00000567262.5_1_X:135958813-135961586:-|nuORF;nc|ENSG00000147274|P38159-3|RBMX;nc|ENSG00000147274|P38159-2|RBMX;ENSG00000213516|ENST00000652648|RBMXL1;ENSG00000147274|ENST00000320676|RBMX;ENSG00000170748|ENST00000306904|RBMXL2 ENST00000567262.5_1_X:135958813-135961586:-|nuORF ENST00000567262.5_1_X:135958813-135961586:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.8279418945312 2 538.826766 1075.63898 3.1371 0.0016903 -0.71098 -0.0003831 2.4261 0.0013072 538.8266252721265 41.788 0.22022 41.788 41.622 41.842 0 39 23 2 0 0 0 0.053453 1 18952 18952 45.7 18.071 1 2006000 14892 3558 9589 9610 17022 17022 0.1041859526535518 KYGRIVEVL 9 Unmodified _KYGRIVEVL_ 0 0 0 ENST00000567262.5_1_X:135958813-135961586:-|nuORF;nc|ENSG00000147274|P38159-3|RBMX;nc|ENSG00000147274|P38159-2|RBMX;ENSG00000213516|ENST00000652648|RBMXL1;ENSG00000147274|ENST00000320676|RBMX;ENSG00000170748|ENST00000306904|RBMXL2 ENST00000567262.5_1_X:135958813-135961586:-|nuORF ENST00000567262.5_1_X:135958813-135961586:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.55438232421875 3 359.553603 1075.63898 NaN NaN NaN NaN NaN NaN NaN 41.709 1 41.709 41.209 42.209 0 0 0 0 0.10934 1 18975 18975 29.841 15.435 1 14893 3558 9589 9610 17023 17023 0.1041859526535518 KYGSVIQLL 9 Unmodified _KYGSVIQLL_ 0 0 0 ENSG00000096433|ENST00000605930|ITPR3 ENSG00000096433|ENST00000605930|ITPR3 ENSG00000096433|ENST00000605930|ITPR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.8094482421875 2 510.808042 1019.60153 3.547 0.0018119 -0.6457 -0.00032983 2.9013 0.001482 510.8077942040086 67.114 0.25722 67.364 67.185 67.443 0.2501 28 16 2 0 0 0 0.11458 1 30700 30700 29.082 6.3453 1 669500 14894 1129 9590 9611 17024 17024 0.09251503999769284 KYGSVIQLL 9 Unmodified _KYGSVIQLL_ 0 0 0 ENSG00000096433|ENST00000605930|ITPR3 ENSG00000096433|ENST00000605930|ITPR3 ENSG00000096433|ENST00000605930|ITPR3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 510.808042 1019.60153 3.4052 0.0017394 -0.04067 -2.0774E-05 3.3645 0.0017186 510.8079835922391 66.433 0.27216 67.09 66.928 67.2 0.65672 -0.13713 0.00036231 NaN 29.082 23 13 2 NaN NaN NaN NaN 0 NaN NaN 0 580810 14895 1129 9590 9611 0.09251503999769284 KYGVHEAIF 9 Unmodified _KYGVHEAIF_ 0 0 0 nc|ENSG00000112033|Q03181-4|PPARD;nc|ENSG00000112033|Q03181-2|PPARD;nc|ENSG00000112033|Q03181-3|PPARD;ENSG00000112033|ENST00000360694|PPARD nc|ENSG00000112033|Q03181-4|PPARD nc|ENSG00000112033|Q03181-4|PPARD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.2846069335938 2 532.282192 1062.54983 3.1457 0.0016744 0.61616 0.00032797 3.7618 0.0020023 532.2824283683733 37.989 0.23061 37.989 37.838 38.069 0 16 8 3 0 0 0 0.082627 1 17241 17241 47.749 47.749 1 575740 14896 1789 9591 9612 17025 17025 0.02105760305835247 KYGVHEAIF 9 Unmodified _KYGVHEAIF_ 0 0 0 nc|ENSG00000112033|Q03181-4|PPARD;nc|ENSG00000112033|Q03181-2|PPARD;nc|ENSG00000112033|Q03181-3|PPARD;ENSG00000112033|ENST00000360694|PPARD nc|ENSG00000112033|Q03181-4|PPARD nc|ENSG00000112033|Q03181-4|PPARD MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 532.282192 1062.54983 3.104 0.0016522 2.7505 0.0014641 5.8545 0.0031162 532.2842640487095 36.876 0.2248 37.67 37.505 37.73 0.79342 -0.15977 0.0015961 NaN 47.749 17 9 2 NaN NaN NaN NaN 0 NaN NaN 0 327230 14897 1789 9591 9612 0.02105760305835247 KYHGYPYSF 9 Unmodified _KYHGYPYSF_ 0 0 0 ENSG00000102158|ENST00000618282|MAGT1;nc|ENSG00000104723|Q13454-2|TUSC3 ENSG00000102158|ENST00000618282|MAGT1;nc|ENSG00000104723|Q13454-2|TUSC3 nc|ENSG00000104723|Q13454-2|TUSC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.2747802734375 2 581.271824 1160.5291 3.6562 0.0021253 0.54587 0.0003173 4.2021 0.0024426 581.2723319943225 37.998 0.25731 37.998 37.838 38.096 0 17 9 2 0 0 0 0.025323 1 17243 17243 61.357 29.052 1 502370 14898 9582;1333 9592 9613 17026 17026 -0.04474830073831981 KYHGYPYSF 9 Unmodified _KYHGYPYSF_ 0 0 0 ENSG00000102158|ENST00000618282|MAGT1;nc|ENSG00000104723|Q13454-2|TUSC3 ENSG00000102158|ENST00000618282|MAGT1;nc|ENSG00000104723|Q13454-2|TUSC3 nc|ENSG00000104723|Q13454-2|TUSC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 387.85125732421875 3 387.850308 1160.5291 2.5553 0.00099108 -0.18444 -7.1535E-05 2.3709 0.00091954 387.8501352421165 36.761 0.48662 37.555 37.27 37.756 0.79342 37 22 2 0 0 0 0.54955 1 16701 16701 7.609 6.0167 1 342660 14899 9582;1333 9592 9613 17027 17027 -0.04474830073831981 KYHGYPYSF 9 Unmodified _KYHGYPYSF_ 0 0 0 ENSG00000102158|ENST00000618282|MAGT1;nc|ENSG00000104723|Q13454-2|TUSC3 ENSG00000102158|ENST00000618282|MAGT1;nc|ENSG00000104723|Q13454-2|TUSC3 nc|ENSG00000104723|Q13454-2|TUSC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.2759399414062 2 581.271824 1160.5291 3.3248 0.0019326 1.8358 0.0010671 5.1606 0.0029997 581.2731289506713 38.137 0.24971 38.401 38.187 38.437 0.26408 9 7 2 0 0 0 0.41574 1 17368 17368 13.906 4.5229 1 380890 14900 9582;1333 9592 9613 17028 17028 -0.04474830073831981 KYHGYPYSF 9 Unmodified _KYHGYPYSF_ 0 0 0 ENSG00000102158|ENST00000618282|MAGT1;nc|ENSG00000104723|Q13454-2|TUSC3 ENSG00000102158|ENST00000618282|MAGT1;nc|ENSG00000104723|Q13454-2|TUSC3 nc|ENSG00000104723|Q13454-2|TUSC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.2762451171875 2 581.271824 1160.5291 3.5436 0.0020598 1.5565 0.00090476 5.1001 0.0029646 581.2731784816149 37.376 0.32695 38.006 37.939 38.266 0.62999 15 10 2 0 0 0 0.21008 1 17170 17170 22.736 11.096 1 264620 14901 9582;1333 9592 9613 17029 17029 -0.04474830073831981 KYHIVKQIF 9 Unmodified _KYHIVKQIF_ 0 0 0 ENST00000470815.1_1_4:89579558-89588530:+|nuORF;ENSG00000138641|ENST00000402738|HERC3 ENST00000470815.1_1_4:89579558-89588530:+|nuORF ENST00000470815.1_1_4:89579558-89588530:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 392.5705261230469 3 392.569365 1174.68626 2.2907 0.00089928 0.85194 0.00033444 3.1427 0.0012337 392.56961160686075 32.886 0.15527 33.674 33.561 33.716 0.78795 13 9 2 0 0 0 0.78763 1 14882 14882 7.609 1.8255 1 229820 14902 3106 9593 9614 17030 17030 0.10590874536364936 KYHIVKQIF 9 Unmodified _KYHIVKQIF_ 0 0 0 ENST00000470815.1_1_4:89579558-89588530:+|nuORF;ENSG00000138641|ENST00000402738|HERC3 ENST00000470815.1_1_4:89579558-89588530:+|nuORF ENST00000470815.1_1_4:89579558-89588530:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 392.569365 1174.68626 2.955 0.0011601 1.248 0.00048991 4.203 0.00165 392.5698191403701 33.775 0.15924 34.029 33.964 34.123 0.25389 0.18322 0.00045828 NaN 7.609 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 257260 14903 3106 9593 9614 0.10590874536364936 KYHIVKQIF 9 Unmodified _KYHIVKQIF_ 0 0 0 ENST00000470815.1_1_4:89579558-89588530:+|nuORF;ENSG00000138641|ENST00000402738|HERC3 ENST00000470815.1_1_4:89579558-89588530:+|nuORF ENST00000470815.1_1_4:89579558-89588530:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 392.569365 1174.68626 2.7265 0.0010703 0.65809 0.00025834 3.3846 0.0013287 392.5696515300898 33.213 0.1583 33.834 33.738 33.896 0.62031 -0.011663 -0.00023643 NaN 7.609 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 139420 14904 3106 9593 9614 0.10590874536364936 KYHPRVLYI 9 Unmodified _KYHPRVLYI_ 0 0 0 ENST00000469550.6_1_5:141001037-141014565:-|nuORF;ENSG00000171720|ENST00000305264|HDAC3;nc|ENSG00000171720|O15379-2|HDAC3 ENST00000469550.6_1_5:141001037-141014565:-|nuORF ENST00000469550.6_1_5:141001037-141014565:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 396.90240478515625 3 396.901114 1187.68151 2.5231 0.0010014 0.2514 9.978E-05 2.7745 0.0011012 397.2354399494528 33.087 0.25359 33.087 32.902 33.155 0 21 14 2 0 0 0 0.59921 1 14952 14952 10.8 5.0161 1 336390 14905 4825 9594 9615 17031 17031 0.09517990393601394 KYHQKCVKL 9 Unmodified _KYHQKCVKL_ 0 0 0 REV__ENST00000531325.5_1_1:85403252-85462600:-|nuORF REV__ENST00000531325.5_1_1:85403252-85462600:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 573.8280029296875 2 573.826243 1145.63793 3.2322 0.0018547 0.64423 0.00036967 3.8764 0.0022244 573.8264224441397 44.975 0.23319 45.243 45.12 45.353 0.26768 17 11 2 0 0 0 0.80651 1 20573 20573 7.2892 0 1 451980 + 14906 12687 9595 9616 17032 17032 0.07094057624817651 KYICKHNLK 9 Unmodified _KYICKHNLK_ 0 0 0 ENST00000350082.9_1_6:52867840-52868008:-|nuORF ENST00000350082.9_1_6:52867840-52868008:-|nuORF ENST00000350082.9_1_6:52867840-52868008:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 573.827880859375 2 573.826243 1145.63793 3.4967 0.0020065 -0.17031 -9.7727E-05 3.3264 0.0019088 573.826226647915 45.153 0.20358 45.153 45.069 45.272 0 18 11 2 0 0 0 1.0041 1 20673 20673 3.9444 0 1 810360 14907 7132 9596 9617 17033 17033 0.07094057624817651 KYIDKLINP 9 Unmodified _KYIDKLINP_ 0 0 0 REV__ENST00000447544.6_2_7:80305701-80305935:+|nuORF REV__ENST00000447544.6_2_7:80305701-80305935:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.7716064453125 2 552.326599 1102.63865 3.6347 0.0020075 -0.59971 -0.00033123 3.035 0.0016763 552.3259882168579 36.133 0.20986 36.759 36.635 36.845 0.62631 17 6 3 0 0 0 0.11053 1 16585 16585 4.3292 0.73274 1 1054200 + 14908 16388 9597 9618 17034 17034 0.09143175545523263 KYIDKTIRVKF 11 Unmodified _KYIDKTIRVKF_ 0 0 0 ENST00000591745.1_1_19:2328269-2328565:-|nuORF;ENSG00000130332|ENST00000252622|LSM7 ENST00000591745.1_1_19:2328269-2328565:-|nuORF ENST00000591745.1_1_19:2328269-2328565:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 471.2436828613281 3 470.953767 1409.83947 2.6681 0.0012566 0.89834 0.00042308 3.5664 0.0016796 470.9541229595568 32.355 0.20817 33.143 33.031 33.239 0.78795 21 16 2 0 0 0 0.13295 1 14616 14616 7.0371 5.582 1 308640 14909 2588 9598 9619 17035 17035 0.15094444862143064 KYIDKTIRVKF 11 Unmodified _KYIDKTIRVKF_ 0 0 0 ENST00000591745.1_1_19:2328269-2328565:-|nuORF;ENSG00000130332|ENST00000252622|LSM7 ENST00000591745.1_1_19:2328269-2328565:-|nuORF ENST00000591745.1_1_19:2328269-2328565:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.7418518066406 3 470.953767 1409.83947 2.862 0.0013479 1.3965 0.00065771 4.2585 0.0020056 470.9542076770321 32.684 0.22308 33.302 33.184 33.407 0.61831 14 10 2 0 0 0 0.13295 1 14983 14983 4.4062 3.1913 1 264120 14910 2588 9598 9619 17036 17036 0.15094444862143064 KYIDQKFVL 9 Unmodified _KYIDQKFVL_ 0 0 0 nc|ENSG00000078304|Q13362-4|PPP2R5C;ENSG00000078304|ENST00000694906|PPP2R5C;nc|ENSG00000078304|Q13362-2|PPP2R5C;nc|ENSG00000078304|Q13362-3|PPP2R5C;nc|ENSG00000078304|Q13362|PPP2R5C;nc|ENSG00000078304|Q13362-5|PPP2R5C;ENST00000495716.1_1_3:52407964-52408519:+|nuORF;ENST00000467447.1_1_6:42974755-42975804:+|nuORF;nc|ENSG00000154001|Q16537-3|PPP2R5E;nc|ENSG00000154001|Q16537-2|PPP2R5E;ENSG00000154001|ENST00000337537|PPP2R5E;nc|ENSG00000112640|Q14738-3|PPP2R5D;nc|ENSG00000112640|Q14738-2|PPP2R5D;ENSG00000112640|ENST00000485511|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C;nc|ENSG00000112640|Q14738-3|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 577.837890625 2 577.334424 1152.6543 3.5137 0.0020286 -0.33907 -0.00019576 3.1746 0.0018328 577.3341454920685 47.808 0.21712 47.808 47.712 47.93 0 28 11 3 0 0 0 0.0047934 2 21878 21878;21936 100.09 46.687 1 3072200 14911 876;1814 9599 9620 17037;17038 17037 0.08407462062564264 KYIDQKFVL 9 Unmodified _KYIDQKFVL_ 0 0 0 nc|ENSG00000078304|Q13362-4|PPP2R5C;ENSG00000078304|ENST00000694906|PPP2R5C;nc|ENSG00000078304|Q13362-2|PPP2R5C;nc|ENSG00000078304|Q13362-3|PPP2R5C;nc|ENSG00000078304|Q13362|PPP2R5C;nc|ENSG00000078304|Q13362-5|PPP2R5C;ENST00000495716.1_1_3:52407964-52408519:+|nuORF;ENST00000467447.1_1_6:42974755-42975804:+|nuORF;nc|ENSG00000154001|Q16537-3|PPP2R5E;nc|ENSG00000154001|Q16537-2|PPP2R5E;ENSG00000154001|ENST00000337537|PPP2R5E;nc|ENSG00000112640|Q14738-3|PPP2R5D;nc|ENSG00000112640|Q14738-2|PPP2R5D;ENSG00000112640|ENST00000485511|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C;nc|ENSG00000112640|Q14738-3|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.335693359375 2 577.334424 1152.6543 3.306 0.0019086 0.14385 8.3051E-05 3.4498 0.0019917 577.33449263632 46.676 0.22509 47.505 47.421 47.646 0.82915 34 15 3 0 0 0 0.0018858 2 21242 21242;21290 125.04 45.441 1 3001700 14912 876;1814 9599 9620 17039;17040 17039 0.08407462062564264 KYIDQKFVL 9 Unmodified _KYIDQKFVL_ 0 0 0 nc|ENSG00000078304|Q13362-4|PPP2R5C;ENSG00000078304|ENST00000694906|PPP2R5C;nc|ENSG00000078304|Q13362-2|PPP2R5C;nc|ENSG00000078304|Q13362-3|PPP2R5C;nc|ENSG00000078304|Q13362|PPP2R5C;nc|ENSG00000078304|Q13362-5|PPP2R5C;ENST00000495716.1_1_3:52407964-52408519:+|nuORF;ENST00000467447.1_1_6:42974755-42975804:+|nuORF;nc|ENSG00000154001|Q16537-3|PPP2R5E;nc|ENSG00000154001|Q16537-2|PPP2R5E;ENSG00000154001|ENST00000337537|PPP2R5E;nc|ENSG00000112640|Q14738-3|PPP2R5D;nc|ENSG00000112640|Q14738-2|PPP2R5D;ENSG00000112640|ENST00000485511|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C;nc|ENSG00000112640|Q14738-3|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 385.225830078125 3 385.225375 1152.6543 2.4063 0.00092699 -0.70849 -0.00027293 1.6979 0.00065406 385.2248431482308 46.656 0.23378 47.485 47.412 47.646 0.82915 28 17 2 0 0 0 0.11316 1 21280 21280 29.437 12.871 1 1878700 14913 876;1814 9599 9620 17041 17041 0.08407462062564264 KYIDQKFVL 9 Unmodified _KYIDQKFVL_ 0 0 0 nc|ENSG00000078304|Q13362-4|PPP2R5C;ENSG00000078304|ENST00000694906|PPP2R5C;nc|ENSG00000078304|Q13362-2|PPP2R5C;nc|ENSG00000078304|Q13362-3|PPP2R5C;nc|ENSG00000078304|Q13362|PPP2R5C;nc|ENSG00000078304|Q13362-5|PPP2R5C;ENST00000495716.1_1_3:52407964-52408519:+|nuORF;ENST00000467447.1_1_6:42974755-42975804:+|nuORF;nc|ENSG00000154001|Q16537-3|PPP2R5E;nc|ENSG00000154001|Q16537-2|PPP2R5E;ENSG00000154001|ENST00000337537|PPP2R5E;nc|ENSG00000112640|Q14738-3|PPP2R5D;nc|ENSG00000112640|Q14738-2|PPP2R5D;ENSG00000112640|ENST00000485511|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C;nc|ENSG00000112640|Q14738-3|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.3367919921875 2 577.334424 1152.6543 3.6569 0.0021112 -0.35385 -0.00020429 3.303 0.001907 577.3343131562 46.972 0.25029 47.624 47.503 47.753 0.65219 33 20 2 0 0 0 0.002951 2 21509 21509;21557 114.19 52.585 1 3445900 14914 876;1814 9599 9620 17042;17043 17042 0.08407462062564264 KYIDQKFVL 9 Unmodified _KYIDQKFVL_ 0 0 0 nc|ENSG00000078304|Q13362-4|PPP2R5C;ENSG00000078304|ENST00000694906|PPP2R5C;nc|ENSG00000078304|Q13362-2|PPP2R5C;nc|ENSG00000078304|Q13362-3|PPP2R5C;nc|ENSG00000078304|Q13362|PPP2R5C;nc|ENSG00000078304|Q13362-5|PPP2R5C;ENST00000495716.1_1_3:52407964-52408519:+|nuORF;ENST00000467447.1_1_6:42974755-42975804:+|nuORF;nc|ENSG00000154001|Q16537-3|PPP2R5E;nc|ENSG00000154001|Q16537-2|PPP2R5E;ENSG00000154001|ENST00000337537|PPP2R5E;nc|ENSG00000112640|Q14738-3|PPP2R5D;nc|ENSG00000112640|Q14738-2|PPP2R5D;ENSG00000112640|ENST00000485511|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C;nc|ENSG00000112640|Q14738-3|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 385.225375 1152.6543 2.5572 0.00098508 -1.682 -0.00064794 0.87519 0.00033714 385.55948408444806 47.796 0.21712 47.796 47.712 47.93 0 0.070851 -0.00056425 NaN 29.437 19 11 2 NaN NaN NaN NaN 0 NaN NaN 0 1657300 14915 876;1814 9599 9620 0.08407462062564264 KYIDQKFVL 9 Unmodified _KYIDQKFVL_ 0 0 0 nc|ENSG00000078304|Q13362-4|PPP2R5C;ENSG00000078304|ENST00000694906|PPP2R5C;nc|ENSG00000078304|Q13362-2|PPP2R5C;nc|ENSG00000078304|Q13362-3|PPP2R5C;nc|ENSG00000078304|Q13362|PPP2R5C;nc|ENSG00000078304|Q13362-5|PPP2R5C;ENST00000495716.1_1_3:52407964-52408519:+|nuORF;ENST00000467447.1_1_6:42974755-42975804:+|nuORF;nc|ENSG00000154001|Q16537-3|PPP2R5E;nc|ENSG00000154001|Q16537-2|PPP2R5E;ENSG00000154001|ENST00000337537|PPP2R5E;nc|ENSG00000112640|Q14738-3|PPP2R5D;nc|ENSG00000112640|Q14738-2|PPP2R5D;ENSG00000112640|ENST00000485511|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C;nc|ENSG00000112640|Q14738-3|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 577.334424 1152.6543 3.5308 0.0020385 0.37373 0.00021577 3.9046 0.0022542 577.3349087916879 47.651 0.24456 47.915 47.815 48.06 0.26363 0.20192 0.00050556 NaN 125.04 28 21 2 NaN NaN NaN NaN 0 NaN NaN 0 3086900 14916 876;1814 9599 9620 0.08407462062564264 KYIDQKFVL 9 Unmodified _KYIDQKFVL_ 0 0 0 nc|ENSG00000078304|Q13362-4|PPP2R5C;ENSG00000078304|ENST00000694906|PPP2R5C;nc|ENSG00000078304|Q13362-2|PPP2R5C;nc|ENSG00000078304|Q13362-3|PPP2R5C;nc|ENSG00000078304|Q13362|PPP2R5C;nc|ENSG00000078304|Q13362-5|PPP2R5C;ENST00000495716.1_1_3:52407964-52408519:+|nuORF;ENST00000467447.1_1_6:42974755-42975804:+|nuORF;nc|ENSG00000154001|Q16537-3|PPP2R5E;nc|ENSG00000154001|Q16537-2|PPP2R5E;ENSG00000154001|ENST00000337537|PPP2R5E;nc|ENSG00000112640|Q14738-3|PPP2R5D;nc|ENSG00000112640|Q14738-2|PPP2R5D;ENSG00000112640|ENST00000485511|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C;nc|ENSG00000112640|Q14738-3|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 385.225375 1152.6543 3.0576 0.0011779 -1.4127 -0.0005442 1.645 0.00063369 385.559309056711 47.629 0.040726 47.893 47.867 47.907 0.26363 0.16837 -0.00025302 NaN 29.437 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 3203200 14917 876;1814 9599 9620 0.08407462062564264 KYIEGVSDF 9 Unmodified _KYIEGVSDF_ 0 0 0 ENSG00000197429|ENST00000396478|IPP;nc|ENSG00000197429|Q9Y573-2|IPP ENSG00000197429|ENST00000396478|IPP ENSG00000197429|ENST00000396478|IPP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.2656860351562 2 529.263665 1056.51278 2.9106 0.0015405 0.57366 0.00030361 3.4843 0.0018441 529.2640036502722 47.173 0.27687 47.173 47.037 47.314 0 33 14 3 0 0 0 0.004576 2 21564 21564;21630 92.653 33.975 1 2285800 14918 5816 9600 9621 17044;17045 17044 -0.013219560305742561 KYIEGVSDF 9 Unmodified _KYIEGVSDF_ 0 0 0 ENSG00000197429|ENST00000396478|IPP;nc|ENSG00000197429|Q9Y573-2|IPP ENSG00000197429|ENST00000396478|IPP ENSG00000197429|ENST00000396478|IPP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.2658081054688 2 529.263665 1056.51278 3.0794 0.0016298 0.42799 0.00022652 3.5074 0.0018563 529.2637237902078 46.124 0.25157 46.953 46.815 47.067 0.82915 29 10 3 0 0 0 0.004576 2 20995 20995;21047 92.653 33.975 1 2928200 14919 5816 9600 9621 17046;17047 17046 -0.013219560305742561 KYIEGVSDF 9 Unmodified _KYIEGVSDF_ 0 0 0 ENSG00000197429|ENST00000396478|IPP;nc|ENSG00000197429|Q9Y573-2|IPP ENSG00000197429|ENST00000396478|IPP ENSG00000197429|ENST00000396478|IPP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.2653198242188 2 529.263665 1056.51278 3.4135 0.0018067 0.0012479 6.6045E-07 3.4148 0.0018073 529.2635131433038 47.003 0.29715 47.267 47.124 47.421 0.26363 21 9 3 0 0 0 0.0024283 1 21487 21487 99.755 47.487 1 1390700 14920 5816 9600 9621 17048 17048 -0.013219560305742561 KYIEGVSDF 9 Unmodified _KYIEGVSDF_ 0 0 0 ENSG00000197429|ENST00000396478|IPP;nc|ENSG00000197429|Q9Y573-2|IPP ENSG00000197429|ENST00000396478|IPP ENSG00000197429|ENST00000396478|IPP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.2650756835938 2 529.263665 1056.51278 3.4456 0.0018237 0.15672 8.2947E-05 3.6024 0.0019066 529.2636609204577 46.486 0.28364 47.138 47.004 47.287 0.65219 23 10 3 0 0 0 0.0013314 1 21282 21282 118.07 46.146 1 1136900 14921 5816 9600 9621 17049 17049 -0.013219560305742561 KYIENLDNITF 11 Unmodified _KYIENLDNITF_ 0 0 0 ENSG00000039319|ENST00000505560|ZFYVE16;ENST00000512558.5_1_5:79729945-79747536:+|nuORF ENSG00000039319|ENST00000505560|ZFYVE16 ENSG00000039319|ENST00000505560|ZFYVE16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 685.3541259765625 2 685.353542 1368.69253 3.032 0.002078 1.3231 0.00090677 4.3551 0.0029848 685.354645500109 66.042 0.17192 66.746 66.656 66.828 0.7047 27 18 2 0 0 0 2.3749E-06 2 31258 31258;31272 100.71 69.44 1 1513200 14922 526 9601 9622 17050;17051 17050 0.02293303186547746 KYIENLDNITF 11 Unmodified _KYIENLDNITF_ 0 0 0 ENSG00000039319|ENST00000505560|ZFYVE16;ENST00000512558.5_1_5:79729945-79747536:+|nuORF ENSG00000039319|ENST00000505560|ZFYVE16 ENSG00000039319|ENST00000505560|ZFYVE16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.3541259765625 2 685.353542 1368.69253 3.9855 0.0027315 0.06767 4.6378E-05 4.0532 0.0027779 685.8546013648677 66.924 0.26364 67.174 67.061 67.324 0.2501 28 16 2 0 0 0 0.01115 1 30663 30663 64.927 32.141 1 799430 14923 526 9601 9622 17052 17052 0.02293303186547746 KYIENLDNITF 11 Unmodified _KYIENLDNITF_ 0 0 0 ENSG00000039319|ENST00000505560|ZFYVE16;ENST00000512558.5_1_5:79729945-79747536:+|nuORF ENSG00000039319|ENST00000505560|ZFYVE16 ENSG00000039319|ENST00000505560|ZFYVE16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.3558349609375 2 685.353542 1368.69253 4.0119 0.0027496 0.63943 0.00043824 4.6514 0.0031878 685.3537959526697 66.347 0.20895 67.004 66.894 67.103 0.65672 19 10 2 0 0 0 0.002913 2 30400 30400;30445 73.196 40.411 1 646970 14924 526 9601 9622 17053;17054 17053 0.02293303186547746 KYIGPQRL 8 Unmodified _KYIGPQRL_ 0 0 0 REV__ENSG00000136856|ENST00000373371|SLC2A8 REV__ENSG00000136856|ENST00000373371|SLC2A8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.79473876953125 2 487.792727 973.5709 3.2411 0.001581 0.24665 0.00012031 3.4877 0.0017013 487.79282281584767 25.413 0.28677 25.681 25.518 25.805 0.26777 44 28 2 0 0 0 0.56084 1 11500 11500 16.942 0 1 489300 + 14925 12084 9602 9623 17055 17055 0.08305770405377189 KYIISHTW 8 Unmodified _KYIISHTW_ 0 0 0 REV__ENST00000306085.10_3_7:100734537-100734684:+|nuORF REV__ENST00000306085.10_3_7:100734537-100734684:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.2844848632812 2 524.284734 1046.55492 3.1208 0.0016362 -0.12153 -6.3715E-05 2.9993 0.0015725 524.2850990152214 14.579 0.25085 14.886 14.752 15.003 0.3069 38 18 3 0 0 0 0.34607 1 6576 6576 32.117 5.2333 1 362910 + 14926 15230 9603 9624 17056 17056 0.03350064168466815 KYIISHTW 8 Unmodified _KYIISHTW_ 0 0 0 REV__ENST00000306085.10_3_7:100734537-100734684:+|nuORF REV__ENST00000306085.10_3_7:100734537-100734684:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.2843627929688 2 524.284734 1046.55492 3.3998 0.0017825 -1.8726 -0.0009818 1.5272 0.00080067 524.2839688420804 14.574 0.18141 15.222 15.17 15.351 0.6482 28 19 2 0 0 0 0.61796 1 6574 6574 12.532 1.7076 1 492560 + 14927 15230 9603 9624 17057 17057 0.03350064168466815 KYIISHTW 8 Unmodified _KYIISHTW_ 0 0 0 REV__ENST00000306085.10_3_7:100734537-100734684:+|nuORF REV__ENST00000306085.10_3_7:100734537-100734684:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 524.284734 1046.55492 3.1208 0.0016362 -0.12153 -6.3715E-05 2.9993 0.0015725 524.2850990152214 14.579 0.25085 14.886 14.752 15.003 0.3069 -0.16821 0.0012486 NaN 32.117 38 18 3 NaN NaN NaN NaN 0 NaN NaN 0 362910 + 14928 15230 9603 9624 0.03350064168466815 KYIISHTW 8 Unmodified _KYIISHTW_ 0 0 0 REV__ENST00000306085.10_3_7:100734537-100734684:+|nuORF REV__ENST00000306085.10_3_7:100734537-100734684:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 524.284734 1046.55492 3.3998 0.0017825 -1.8726 -0.0009818 1.5272 0.00080067 524.2839688420804 14.574 0.18141 15.222 15.17 15.351 0.6482 0.16821 -0.00058757 NaN 32.117 28 19 2 NaN NaN NaN NaN 0 NaN NaN 0 492560 + 14929 15230 9603 9624 0.03350064168466815 KYIKDDFRF 9 Unmodified _KYIKDDFRF_ 0 0 0 nc|ENSG00000101782|O14730-2|RIOK3;ENSG00000101782|ENST00000339486|RIOK3;ENST00000581302.5_1_18:21033283-21057068:+|nuORF nc|ENSG00000101782|O14730-2|RIOK3 nc|ENSG00000101782|O14730-2|RIOK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 411.2216796875 3 411.220513 1230.63971 2.7514 0.0011315 0.68815 0.00028298 3.4396 0.0014144 411.2209712537154 39.123 0.5693 39.123 38.865 39.434 0 49 21 4 0 0 0 0.0024241 3 17788 17733;17788;17843 80.676 34.936 1 3747500 14930 1313 9604 9625 17058;17059;17060 17059 0.03361389914380197 KYIKDDFRF 9 Unmodified _KYIKDDFRF_ 0 0 0 nc|ENSG00000101782|O14730-2|RIOK3;ENSG00000101782|ENST00000339486|RIOK3;ENST00000581302.5_1_18:21033283-21057068:+|nuORF nc|ENSG00000101782|O14730-2|RIOK3 nc|ENSG00000101782|O14730-2|RIOK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 411.2218933105469 3 411.220513 1230.63971 2.6939 0.0011078 0.36685 0.00015086 3.0608 0.0012586 411.2207071057908 37.94 0.31281 38.735 38.558 38.871 0.79552 31 10 4 0 0 0 0.034495 2 17217 17159;17217 42.312 13.818 1 3167200 14931 1313 9604 9625 17061;17062 17062 0.03361389914380197 KYIKDDFRF 9 Unmodified _KYIKDDFRF_ 0 0 0 nc|ENSG00000101782|O14730-2|RIOK3;ENSG00000101782|ENST00000339486|RIOK3;ENST00000581302.5_1_18:21033283-21057068:+|nuORF nc|ENSG00000101782|O14730-2|RIOK3 nc|ENSG00000101782|O14730-2|RIOK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 411.2228698730469 3 411.220513 1230.63971 2.8423 0.0011688 1.4603 0.0006005 4.3026 0.0017693 411.2215393253352 39.009 0.65542 39.273 38.793 39.448 0.26408 45 28 3 0 0 0 0.078225 2 17736 17736;17795 35.612 22.74 1 1806900 14932 1313 9604 9625 17063;17064 17063 0.03361389914380197 KYIKEAVRL 9 Unmodified _KYIKEAVRL_ 0 0 0 ENSG00000139926|ENST00000344768|FRMD6;nc|ENSG00000139926|Q96NE9-2|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 373.9022216796875 3 373.901003 1118.68118 NaN NaN NaN NaN NaN NaN NaN 22.918 1 22.918 22.418 23.418 0 0 0 0 0.00011452 1 10293 10293 88.364 15.167 1 14933 3172 9605 9626 17065 17065 0.12658570673738723 KYIKEAVRL 9 Unmodified _KYIKEAVRL_ 0 0 0 ENSG00000139926|ENST00000344768|FRMD6;nc|ENSG00000139926|Q96NE9-2|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 373.90130615234375 3 373.901003 1118.68118 1.9889 0.00074366 -0.13424 -5.0193E-05 1.8547 0.00069347 373.900863802371 21.685 0.18427 22.09 22.023 22.207 0.40533 68 32 3 0 0 0 0.004576 2 9652 9608;9652 75.571 14.481 1 4777800 14934 3172 9605 9626 17066;17067 17067 0.12658570673738723 KYILVMDISP 10 Unmodified _KYILVMDISP_ 0 0 0 MGA|p.L263*|1|0.27|ENSG00000174197|chr15:41669678-41669678|G/-|frameshift_variant;MGA|p.A602Vfs*3|1|0.13|ENSG00000174197|chr15:41696814-41696815|-/TTTT|frameshift_variant;MGA|p.Q992Rfs*2|1|0.24|ENSG00000174197|chr15:41711239-41711239|C/-|frameshift_variant;MGA|p.L1186Cfs*13|1|0.1|ENSG00000174197|chr15:41727305-41727305|T/-|frameshift_variant;MGA|p.R2396Qfs*8|1|0.14|ENSG00000174197|chr15:41757835-41757835|G/-|frameshift_variant;nc|ENSG00000174197|Q8IWI9-3|MGA;nc|ENSG00000174197|Q8IWI9|MGA;ENSG00000174197|ENST00000703841|MGA MGA|p.L263*|1|0.27|ENSG00000174197|chr15:41669678-41669678|G/-|frameshift_variant MGA|p.L263*|1|0.27|ENSG00000174197|chr15:41669678-41669678|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.8320922851562 2 589.828117 1177.64168 NaN NaN NaN NaN NaN NaN NaN 17.532 1 17.532 17.032 18.032 0 0 0 0 0.9952 1 7789 7789 5.7319 0.43497 1 14935 4965 9606 9627 17068 17068 0.0599668260801991 KYINTDAKF 9 Unmodified _KYINTDAKF_ 0 0 0 ENSG00000100991|ENST00000252015|TRPC4AP;nc|ENSG00000100991|Q8TEL6-3|TRPC4AP ENSG00000100991|ENST00000252015|TRPC4AP ENSG00000100991|ENST00000252015|TRPC4AP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.2950439453125 2 550.292756 1098.57096 3.9151 0.0021544 0.25792 0.00014193 4.173 0.0022964 550.2928314865384 28.452 0.24919 28.452 28.324 28.573 0 40 17 3 0 0 0 0.00079456 2 12814 12814;12860 128.57 64.612 1 1375300 14936 1255 9607 9628 17069;17070 17069 0.02561725614691568 KYINTDAKF 9 Unmodified _KYINTDAKF_ 0 0 0 ENSG00000100991|ENST00000252015|TRPC4AP;nc|ENSG00000100991|Q8TEL6-3|TRPC4AP ENSG00000100991|ENST00000252015|TRPC4AP ENSG00000100991|ENST00000252015|TRPC4AP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.2948608398438 2 550.292756 1098.57096 3.3199 0.0018269 -0.080786 -4.4456E-05 3.2391 0.0017825 550.2927672390261 27.469 0.26696 28.255 28.122 28.388 0.78627 51 26 2 0 0 0 0.00013535 2 12375 12325;12375 135.86 88.269 1 1558900 14937 1255 9607 9628 17071;17072 17072 0.02561725614691568 KYINTDAKF 9 Unmodified _KYINTDAKF_ 0 0 0 ENSG00000100991|ENST00000252015|TRPC4AP;nc|ENSG00000100991|Q8TEL6-3|TRPC4AP ENSG00000100991|ENST00000252015|TRPC4AP ENSG00000100991|ENST00000252015|TRPC4AP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.2945556640625 2 550.292756 1098.57096 3.4606 0.0019044 0.66658 0.00036682 4.1272 0.0022712 550.2928984312293 28.403 0.25183 28.664 28.522 28.774 0.2602 33 14 3 0 0 0 0.010904 1 12908 12908 80.676 36.904 1 465590 14938 1255 9607 9628 17073 17073 0.02561725614691568 KYINTDAKF 9 Unmodified _KYINTDAKF_ 0 0 0 ENSG00000100991|ENST00000252015|TRPC4AP;nc|ENSG00000100991|Q8TEL6-3|TRPC4AP ENSG00000100991|ENST00000252015|TRPC4AP ENSG00000100991|ENST00000252015|TRPC4AP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.2947387695312 2 550.292756 1098.57096 3.4598 0.0019039 0.57971 0.00031901 4.0395 0.0022229 550.2927957743777 27.97 0.33177 28.59 28.474 28.806 0.61947 51 21 3 0 0 0 0.0039585 2 12853 12804;12853 93.938 42.308 1 657150 14939 1255 9607 9628 17074;17075 17075 0.02561725614691568 KYIPYKYVI 9 Unmodified _KYIPYKYVI_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF;nc|ENSG00000173821|Q63HN8-5|RNF213;ENST00000573548.1_1_17:78263625-78265730:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.74609375 3 396.23387 1185.67978 3.0931 0.0012256 -0.75636 -0.0002997 2.3367 0.0009259 396.56764855015007 45.118 0.14259 45.768 45.69 45.832 0.65015 6 4 2 0 0 0 0.10847 1 20685 20685 2.086 0.75636 1 286980 14940 4953 9608 9629 17076 17076 0.09436936584984323 KYIQRQETI 9 Unmodified _KYIQRQETI_ 0 0 0 nc|ENSG00000157601|P20591-2|MX1;ENSG00000157601|ENST00000398598|MX1 nc|ENSG00000157601|P20591-2|MX1 nc|ENSG00000157601|P20591-2|MX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.5571594238281 3 393.555784 1177.64552 2.7114 0.0010671 0.26945 0.00010604 2.9808 0.0011731 393.55589805388644 14.548 0.28777 14.855 14.732 15.02 0.3069 63 20 4 0 0 0 0.020151 2 6556 6556;6600 53.404 5.672 1 2931800 14941 3957 9609 9630 17077;17078 17077 0.0638048842608896 KYIQRQETI 9 Unmodified _KYIQRQETI_ 0 0 0 nc|ENSG00000157601|P20591-2|MX1;ENSG00000157601|ENST00000398598|MX1 nc|ENSG00000157601|P20591-2|MX1 nc|ENSG00000157601|P20591-2|MX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.8324584960938 2 589.830037 1177.64552 3.3457 0.0019734 0.65853 0.00038842 4.0042 0.0023618 589.8302998243879 14.558 0.25639 14.864 14.732 14.988 0.3069 47 18 3 0 0 0 0.022157 2 6557 6557;6601 65.474 41.453 1 847420 14942 3957 9609 9630 17079;17080 17079 0.0638048842608896 KYIQRQETI 9 Unmodified _KYIQRQETI_ 0 0 0 nc|ENSG00000157601|P20591-2|MX1;ENSG00000157601|ENST00000398598|MX1 nc|ENSG00000157601|P20591-2|MX1 nc|ENSG00000157601|P20591-2|MX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.8322143554688 2 589.830037 1177.64552 3.7668 0.0022218 -0.063699 -3.7572E-05 3.7031 0.0021842 589.8299886639954 14.591 0.29572 15.244 15.109 15.405 0.65293 82 32 4 0 0 0 1.4684E-06 2 6549 6549;6590 149.91 95.14 1 2361000 14943 3957 9609 9630 17081;17082 17081 0.0638048842608896 KYIQRQETI 9 Unmodified _KYIQRQETI_ 0 0 0 nc|ENSG00000157601|P20591-2|MX1;ENSG00000157601|ENST00000398598|MX1 nc|ENSG00000157601|P20591-2|MX1 nc|ENSG00000157601|P20591-2|MX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.5569763183594 3 393.555784 1177.64552 2.9415 0.0011576 0.26674 0.00010498 3.2082 0.0012626 393.55589508574167 14.59 0.26713 15.242 15.124 15.391 0.65241 85 29 4 0 0 0 0.020151 1 6581 6581 53.404 12.679 1 3579100 14944 3957 9609 9630 17083 17083 0.0638048842608896 KYISKPENL 9 Unmodified _KYISKPENL_ 0 0 0 ENST00000493540.1_1_2:231678823-231682621:+|nuORF;ENSG00000102547|ENST00000409308|CAB39L;ENSG00000135932|ENST00000258418|CAB39 ENST00000493540.1_1_2:231678823-231682621:+|nuORF ENST00000493540.1_1_2:231678823-231682621:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.3104248046875 2 546.308406 1090.60226 3.7771 0.0020635 0.16062 8.7749E-05 3.9377 0.0021512 546.3084682463683 22.152 0.40015 22.152 21.933 22.333 0 98 30 4 0 0 0 3.7615999999999996E-21 3 9953 9859;9908;9953 181.69 84.732 1 3248500 14945 1347 9610 9631 17084;17085;17086 17086 0.060582986487816015 KYISKPENL 9 Unmodified _KYISKPENL_ 0 0 0 ENST00000493540.1_1_2:231678823-231682621:+|nuORF;ENSG00000102547|ENST00000409308|CAB39L;ENSG00000135932|ENST00000258418|CAB39 ENST00000493540.1_1_2:231678823-231682621:+|nuORF ENST00000493540.1_1_2:231678823-231682621:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 364.54241943359375 3 364.541363 1090.60226 2.7932 0.0010182 0.42516 0.00015499 3.2184 0.0011732 364.5415526499474 22.164 0.40483 22.164 21.944 22.348 0 80 30 3 0 0 0 0.086415 1 9885 9885 33.445 16.879 1 3271300 14946 1347 9610 9631 17087 17087 0.060582986487816015 KYISKPENL 9 Unmodified _KYISKPENL_ 0 0 0 ENST00000493540.1_1_2:231678823-231682621:+|nuORF;ENSG00000102547|ENST00000409308|CAB39L;ENSG00000135932|ENST00000258418|CAB39 ENST00000493540.1_1_2:231678823-231682621:+|nuORF ENST00000493540.1_1_2:231678823-231682621:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.3101806640625 2 546.308406 1090.60226 NaN NaN NaN NaN NaN NaN NaN 20.891 1 21.297 20.797 21.797 0.40533 0 0 0 2.5419E-44 1 9269 9269 184.36 80.607 1 14947 1347 9610 9631 17088 17088 0.060582986487816015 KYISKPENL 9 Unmodified _KYISKPENL_ 0 0 0 ENST00000493540.1_1_2:231678823-231682621:+|nuORF;ENSG00000102547|ENST00000409308|CAB39L;ENSG00000135932|ENST00000258418|CAB39 ENST00000493540.1_1_2:231678823-231682621:+|nuORF ENST00000493540.1_1_2:231678823-231682621:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 364.5413513183594 3 364.541363 1090.60226 2.5393 0.00092569 -0.5579 -0.00020338 1.9814 0.00072231 364.54135130160216 21.053 0.066988 21.339 21.308 21.375 0.28662 20 14 2 0 0 0 0.11458 1 9544 9544 27.223 8.8501 1 3570000 14948 1347 9610 9631 17089 17089 0.060582986487816015 KYISKPENL 9 Unmodified _KYISKPENL_ 0 0 0 ENST00000493540.1_1_2:231678823-231682621:+|nuORF;ENSG00000102547|ENST00000409308|CAB39L;ENSG00000135932|ENST00000258418|CAB39 ENST00000493540.1_1_2:231678823-231682621:+|nuORF ENST00000493540.1_1_2:231678823-231682621:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.3101806640625 2 546.308406 1090.60226 NaN NaN NaN NaN NaN NaN NaN 21.032 1 21.319 20.819 21.819 0.28662 0 0 0 1.1314E-06 1 9537 9537 117.76 45.838 1 14949 1347 9610 9631 17090 17090 0.060582986487816015 KYITDVVKL 9 Unmodified _KYITDVVKL_ 0 0 0 ENSG00000120800|ENST00000261637|UTP20;UTP20|p.F1622Lfs*17|1|0.09|ENSG00000120800|chr12:101346566-101346567|-/TTTAGTATCGTATTCTC|frameshift_variant ENSG00000120800|ENST00000261637|UTP20 ENSG00000120800|ENST00000261637|UTP20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.8314208984375 2 539.828975 1077.6434 3.4922 0.0018852 0.92376 0.00049867 4.416 0.0023839 539.829868391415 50.905 0.20176 50.905 50.795 50.996 0 14 7 3 0 0 0 0.0057865 1 23299 23299 90.135 50.185 1 880360 14950 2213 9611 9632 17091 17091 0.10768059688280118 KYITDVVKL 9 Unmodified _KYITDVVKL_ 0 0 0 ENSG00000120800|ENST00000261637|UTP20;UTP20|p.F1622Lfs*17|1|0.09|ENSG00000120800|chr12:101346566-101346567|-/TTTAGTATCGTATTCTC|frameshift_variant ENSG00000120800|ENST00000261637|UTP20 ENSG00000120800|ENST00000261637|UTP20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.830322265625 2 539.828975 1077.6434 3.1983 0.0017265 1.2491 0.0006743 4.4474 0.0024008 539.8298375648446 50.01 0.243 50.833 50.727 50.97 0.82285 19 9 3 0 0 0 0.010904 1 22791 22791 80.676 42.702 1 683030 14951 2213 9611 9632 17092 17092 0.10768059688280118 KYITDVVKL 9 Unmodified _KYITDVVKL_ 0 0 0 ENSG00000120800|ENST00000261637|UTP20;UTP20|p.F1622Lfs*17|1|0.09|ENSG00000120800|chr12:101346566-101346567|-/TTTAGTATCGTATTCTC|frameshift_variant ENSG00000120800|ENST00000261637|UTP20 ENSG00000120800|ENST00000261637|UTP20 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.2815551757812 2 539.828975 1077.6434 3.0872 0.0016666 0.5475 0.00029555 3.6347 0.0019621 539.8294386405829 50.682 0.2836 50.943 50.777 51.06 0.26146 22 12 2 0 0 0 0.0015233 1 23159 23159 67.838 38.757 1 714440 14952 2213 9611 9632 17093 17093 0.10768059688280118 KYITDVVKL 9 Unmodified _KYITDVVKL_ 0 0 0 ENSG00000120800|ENST00000261637|UTP20;UTP20|p.F1622Lfs*17|1|0.09|ENSG00000120800|chr12:101346566-101346567|-/TTTAGTATCGTATTCTC|frameshift_variant ENSG00000120800|ENST00000261637|UTP20 ENSG00000120800|ENST00000261637|UTP20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.8309936523438 2 539.828975 1077.6434 3.3261 0.0017955 0.54983 0.00029682 3.8759 0.0020923 539.8293235416843 49.919 0.21692 50.576 50.481 50.698 0.65735 20 7 3 0 0 0 0.026853 1 22847 22847 59.368 23.241 1 607600 14953 2213 9611 9632 17094 17094 0.10768059688280118 KYITDWQNVF 10 Unmodified _KYITDWQNVF_ 0 0 0 ENST00000505526.1_1_5:271863-311637:+|nuORF;nc|ENSG00000249915|O75340-2|PDCD6;ENSG00000249915|ENST00000264933|PDCD6 ENST00000505526.1_1_5:271863-311637:+|nuORF ENST00000505526.1_1_5:271863-311637:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 657.3310546875 2 657.32987 1312.64519 3.0653 0.0020149 -0.64364 -0.00042309 2.4217 0.0015918 657.8307179893643 71.702 0.21335 71.702 71.607 71.82 0 36 21 2 0 0 0 0.019429 2 34883 34833;34883 76.825 56.371 1 1486600 14954 6263 9612 9633 17095;17096 17096 0.0013706870620353584 KYITDWQNVF 10 Unmodified _KYITDWQNVF_ 0 0 0 ENST00000505526.1_1_5:271863-311637:+|nuORF;nc|ENSG00000249915|O75340-2|PDCD6;ENSG00000249915|ENST00000264933|PDCD6 ENST00000505526.1_1_5:271863-311637:+|nuORF ENST00000505526.1_1_5:271863-311637:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 657.3320922851562 2 657.32987 1312.64519 3.3721 0.0022166 -0.16576 -0.00010896 3.2063 0.0021076 657.3293730004103 71.137 0.284 71.799 71.642 71.926 0.66209 32 19 2 0 0 0 0.27278 2 32590 32590;32652 30.703 10.25 1 558530 14955 6263 9612 9633 17097;17098 17097 0.0013706870620353584 KYITKSFNF 9 Unmodified _KYITKSFNF_ 0 0 0 ENST00000566021.1_1_16:14704654-14724033:-|nuORF;PARN|p.H275Lfs*5|1|0.19|ENSG00000140694|chr16:14599920-14599921|-/A|frameshift_variant;nc|ENSG00000140694|O95453-2|PARN;ENSG00000140694|ENST00000437198|PARN ENST00000566021.1_1_16:14704654-14724033:-|nuORF ENST00000566021.1_1_16:14704654-14724033:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.3134155273438 2 574.310949 1146.60735 NaN NaN NaN NaN NaN NaN NaN 42.141 1 42.141 41.641 42.641 0 0 0 0 0.024551 1 19174 19174 65.474 35.249 1 14956 3215 9613 9634 17099 17099 0.03990602511407815 KYITKSFNFY 10 Unmodified _KYITKSFNFY_ 0 0 0 ENST00000566021.1_1_16:14704654-14724033:-|nuORF;PARN|p.H275Lfs*5|1|0.19|ENSG00000140694|chr16:14599920-14599921|-/A|frameshift_variant;nc|ENSG00000140694|O95453-2|PARN;ENSG00000140694|ENST00000437198|PARN ENST00000566021.1_1_16:14704654-14724033:-|nuORF ENST00000566021.1_1_16:14704654-14724033:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 656.383544921875 2 655.842613 1309.67067 3.4739 0.0022783 -0.33706 -0.00022106 3.1368 0.0020573 656.3436934713629 47.149 0.1977 47.149 47.054 47.252 0 14 10 2 0 0 0 0.42828 1 21554 21554 23.79 7.6407 1 1867900 14957 3215 9614 9635 17100 17100 0.028225432286490104 KYITKSFNFY 10 Unmodified _KYITKSFNFY_ 0 0 0 ENST00000566021.1_1_16:14704654-14724033:-|nuORF;PARN|p.H275Lfs*5|1|0.19|ENSG00000140694|chr16:14599920-14599921|-/A|frameshift_variant;nc|ENSG00000140694|O95453-2|PARN;ENSG00000140694|ENST00000437198|PARN ENST00000566021.1_1_16:14704654-14724033:-|nuORF ENST00000566021.1_1_16:14704654-14724033:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.89990234375 3 437.564168 1309.67067 2.7378 0.001198 0.16814 7.3573E-05 2.9059 0.0012715 437.5640280863145 46.018 0.19682 46.844 46.743 46.94 0.82621 22 8 3 0 0 0 0.36142 1 20962 20962 17.863 9.5767 1 651470 14958 3215 9614 9635 17101 17101 0.028225432286490104 KYITKSFNFY 10 Unmodified _KYITKSFNFY_ 0 0 0 ENST00000566021.1_1_16:14704654-14724033:-|nuORF;PARN|p.H275Lfs*5|1|0.19|ENSG00000140694|chr16:14599920-14599921|-/A|frameshift_variant;nc|ENSG00000140694|O95453-2|PARN;ENSG00000140694|ENST00000437198|PARN ENST00000566021.1_1_16:14704654-14724033:-|nuORF ENST00000566021.1_1_16:14704654-14724033:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.5653381347656 3 437.564168 1309.67067 3.083 0.001349 -0.29468 -0.00012894 2.7883 0.0012201 437.56416306186225 46.946 0.18753 47.209 47.124 47.312 0.26363 10 5 2 0 0 0 0.84709 1 21472 21472 3.3196 2.2482 1 571290 14959 3215 9614 9635 17102 17102 0.028225432286490104 KYITQGQLL 9 Unmodified _KYITQGQLL_ 0 0 0 ENSG00000012660|ENST00000304434|ELOVL5;nc|ENSG00000012660|Q9NYP7-2|ELOVL5 ENSG00000012660|ENST00000304434|ELOVL5 ENSG00000012660|ENST00000304434|ELOVL5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 532.7916870117188 2 532.310949 1062.60735 3.0625 0.0016302 1.265 0.00067338 4.3275 0.0023036 532.311776062567 45.702 0.17006 46.528 46.441 46.611 0.82621 13 7 2 0 0 0 0.027384 1 20822 20822 41.84 9.5341 1 779810 14960 424 9615 9636 17103 17103 0.0785460251142922 KYITQGQLLQF 11 Unmodified _KYITQGQLLQF_ 0 0 0 ENSG00000012660|ENST00000304434|ELOVL5;nc|ENSG00000012660|Q9NYP7-2|ELOVL5 ENSG00000012660|ENST00000304434|ELOVL5 ENSG00000012660|ENST00000304434|ELOVL5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 669.8779296875 2 669.874445 1337.73434 3.1475 0.0021084 -0.16057 -0.00010756 2.9869 0.0020009 669.8742209592048 65.489 0.20641 65.489 65.383 65.589 0 43 24 2 0 0 0 7.0159E-15 2 31188 31188;31244 128.57 59.468 1 6524400 14961 424 9616 9637 17104;17105 17104 0.07897903665752892 KYITQGQLLQF 11 Unmodified _KYITQGQLLQF_ 0 0 0 ENSG00000012660|ENST00000304434|ELOVL5;nc|ENSG00000012660|Q9NYP7-2|ELOVL5 ENSG00000012660|ENST00000304434|ELOVL5 ENSG00000012660|ENST00000304434|ELOVL5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 669.8765258789062 2 669.874445 1337.73434 3.1172 0.0020882 0.041362 2.7707E-05 3.1586 0.0021159 669.874471068153 64.382 0.21783 65.098 65.004 65.222 0.71521 55 22 3 0 0 0 8.1492E-10 2 30306 30306;30357 117.84 48.733 1 6372200 14962 424 9616 9637 17106;17107 17106 0.07897903665752892 KYITQGQLLQF 11 Unmodified _KYITQGQLLQF_ 0 0 0 ENSG00000012660|ENST00000304434|ELOVL5;nc|ENSG00000012660|Q9NYP7-2|ELOVL5 ENSG00000012660|ENST00000304434|ELOVL5 ENSG00000012660|ENST00000304434|ELOVL5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 669.8772583007812 2 669.874445 1337.73434 3.8873 0.002604 0.49682 0.00033281 4.3841 0.0029368 669.8746910318872 65.339 0.36024 65.587 65.394 65.755 0.24803 50 17 4 0 0 0 2.4467E-25 3 29930 29886;29930;29982 151.48 72.752 1 2899600 14963 424 9616 9637 17108;17109;17110 17109 0.07897903665752892 KYITQGQLLQF 11 Unmodified _KYITQGQLLQF_ 0 0 0 ENSG00000012660|ENST00000304434|ELOVL5;nc|ENSG00000012660|Q9NYP7-2|ELOVL5 ENSG00000012660|ENST00000304434|ELOVL5 ENSG00000012660|ENST00000304434|ELOVL5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 669.8768310546875 2 669.874445 1337.73434 4.0426 0.002708 -0.18805 -0.00012597 3.8546 0.0025821 669.8743607698675 64.749 0.29675 65.406 65.244 65.541 0.65672 37 13 4 0 0 0 1.0062E-14 2 29708 29653;29708 124.95 64.879 1 4594500 14964 424 9616 9637 17111;17112 17112 0.07897903665752892 KYKDAANLL 9 Unmodified _KYKDAANLL_ 0 0 0 nc|ENSG00000126214|Q07866-8|KLC1;nc|ENSG00000126214|Q07866-2|KLC1;nc|ENSG00000126214|Q07866-3|KLC1;nc|ENSG00000126214|Q07866|KLC1;nc|ENSG00000126214|Q07866-7|KLC1;nc|ENSG00000126214|Q07866-5|KLC1;nc|ENSG00000126214|Q07866-10|KLC1;nc|ENSG00000126214|Q07866-6|KLC1;nc|ENSG00000126214|Q07866-4|KLC1;ENSG00000126214|ENST00000334553|KLC1 nc|ENSG00000126214|Q07866-8|KLC1 nc|ENSG00000126214|Q07866-8|KLC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.2965087890625 2 518.295299 1034.57605 3.4557 0.001791 0.080759 4.1857E-05 3.5364 0.0018329 518.2953272544294 30.405 0.28382 30.405 30.22 30.504 0 28 17 3 0 0 0 0.053359 1 13715 13715 45.74 3.7843 1 988600 14965 2445 9617 9638 17113 17113 0.06014029477319127 KYKDAANLL 9 Unmodified _KYKDAANLL_ 0 0 0 nc|ENSG00000126214|Q07866-8|KLC1;nc|ENSG00000126214|Q07866-2|KLC1;nc|ENSG00000126214|Q07866-3|KLC1;nc|ENSG00000126214|Q07866|KLC1;nc|ENSG00000126214|Q07866-7|KLC1;nc|ENSG00000126214|Q07866-5|KLC1;nc|ENSG00000126214|Q07866-10|KLC1;nc|ENSG00000126214|Q07866-6|KLC1;nc|ENSG00000126214|Q07866-4|KLC1;ENSG00000126214|ENST00000334553|KLC1 nc|ENSG00000126214|Q07866-8|KLC1 nc|ENSG00000126214|Q07866-8|KLC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 518.295299 1034.57605 3.496 0.001812 -0.59585 -0.00030883 2.9001 0.0015031 518.2950273683014 29.436 0.20955 30.225 30.098 30.307 0.78921 -0.19369 -0.00042129 NaN 45.74 23 17 2 NaN NaN NaN NaN 0 NaN NaN 0 1378000 14966 2445 9617 9638 0.06014029477319127 KYKDAANLL 9 Unmodified _KYKDAANLL_ 0 0 0 nc|ENSG00000126214|Q07866-8|KLC1;nc|ENSG00000126214|Q07866-2|KLC1;nc|ENSG00000126214|Q07866-3|KLC1;nc|ENSG00000126214|Q07866|KLC1;nc|ENSG00000126214|Q07866-7|KLC1;nc|ENSG00000126214|Q07866-5|KLC1;nc|ENSG00000126214|Q07866-10|KLC1;nc|ENSG00000126214|Q07866-6|KLC1;nc|ENSG00000126214|Q07866-4|KLC1;ENSG00000126214|ENST00000334553|KLC1 nc|ENSG00000126214|Q07866-8|KLC1 nc|ENSG00000126214|Q07866-8|KLC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 518.295299 1034.57605 3.4288 0.0017772 -2.4411 -0.0012652 0.9877 0.00051192 518.2932719656778 30.009 0.033201 30.627 30.605 30.638 0.61736 0.20772 -0.0023341 NaN 45.74 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 638240 14967 2445 9617 9638 0.06014029477319127 KYKGIFNGF 9 Unmodified _KYKGIFNGF_ 0 0 0 ENST00000547908.1_1_12:98989476-98991822:+|nuORF;ENST00000551123.5_1_12:98989412-98995303:+|nuORF;ENST00000546766.5_1_12:98989476-98995303:+|nuORF;ENSG00000075415|ENST00000552981|SLC25A3;nc|ENSG00000075415|Q00325|SLC25A3 ENST00000547908.1_1_12:98989476-98991822:+|nuORF ENST00000547908.1_1_12:98989476-98991822:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.2940063476562 2 537.292559 1072.57057 3.0805 0.0016551 -1.5981 -0.00085863 1.4824 0.00079649 537.2916484210706 49.419 0.54776 49.419 49.275 49.822 0 40 23 3 0 0 0 0.00081333 3 22626 22618;22626;22675 128.37 94.263 1 2213700 14968 828 9618 9639 17114;17115;17116 17115 0.0371835068551718 KYKGIFNGF 9 Unmodified _KYKGIFNGF_ 0 0 0 ENST00000547908.1_1_12:98989476-98991822:+|nuORF;ENST00000551123.5_1_12:98989412-98995303:+|nuORF;ENST00000546766.5_1_12:98989476-98995303:+|nuORF;ENSG00000075415|ENST00000552981|SLC25A3;nc|ENSG00000075415|Q00325|SLC25A3 ENST00000547908.1_1_12:98989476-98991822:+|nuORF ENST00000547908.1_1_12:98989476-98991822:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 358.5314025878906 3 358.530798 1072.57057 2.5923 0.00092941 -0.33803 -0.00012119 2.2542 0.00080822 358.5307052180896 49.439 0.31141 49.439 49.275 49.586 0 27 12 3 0 0 0 0.54955 1 22653 22653 7.609 3.0801 1 1443300 14969 828 9618 9639 17117 17117 0.0371835068551718 KYKGIFNGF 9 Unmodified _KYKGIFNGF_ 0 0 0 ENST00000547908.1_1_12:98989476-98991822:+|nuORF;ENST00000551123.5_1_12:98989412-98995303:+|nuORF;ENST00000546766.5_1_12:98989476-98995303:+|nuORF;ENSG00000075415|ENST00000552981|SLC25A3;nc|ENSG00000075415|Q00325|SLC25A3 ENST00000547908.1_1_12:98989476-98991822:+|nuORF ENST00000547908.1_1_12:98989476-98991822:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.29345703125 2 537.292559 1072.57057 3.0791 0.0016544 -1.2816 -0.00068858 1.7975 0.00096577 537.2915069080209 48.239 0.46423 49.069 48.875 49.34 0.82915 48 23 4 0 0 0 0.0012997 2 21984 21931;21984 120.45 86.348 1 1215400 14970 828 9618 9639 17118;17119 17119 0.0371835068551718 KYKGIFNGF 9 Unmodified _KYKGIFNGF_ 0 0 0 ENST00000547908.1_1_12:98989476-98991822:+|nuORF;ENST00000551123.5_1_12:98989412-98995303:+|nuORF;ENST00000546766.5_1_12:98989476-98995303:+|nuORF;ENSG00000075415|ENST00000552981|SLC25A3;nc|ENSG00000075415|Q00325|SLC25A3 ENST00000547908.1_1_12:98989476-98991822:+|nuORF ENST00000547908.1_1_12:98989476-98991822:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.2928466796875 2 537.292559 1072.57057 3.1061 0.0016689 -1.4623 -0.00078567 1.6438 0.0008832 537.2914280813013 49.446 0.50297 49.707 49.361 49.864 0.26146 31 18 3 0 0 0 0.0014044 2 22576 22576;22633 112.59 78.491 1 932540 14971 828 9618 9639 17120;17121 17120 0.0371835068551718 KYKGIFNGF 9 Unmodified _KYKGIFNGF_ 0 0 0 ENST00000547908.1_1_12:98989476-98991822:+|nuORF;ENST00000551123.5_1_12:98989412-98995303:+|nuORF;ENST00000546766.5_1_12:98989476-98995303:+|nuORF;ENSG00000075415|ENST00000552981|SLC25A3;nc|ENSG00000075415|Q00325|SLC25A3 ENST00000547908.1_1_12:98989476-98991822:+|nuORF ENST00000547908.1_1_12:98989476-98991822:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.29296875 2 537.292559 1072.57057 3.3853 0.0018189 -1.4722 -0.00079102 1.913 0.0010279 537.2914357774489 48.808 0.5648 49.463 49.227 49.791 0.65525 33 20 3 0 0 0 0.0014044 2 22347 22347;22408 112.59 78.491 1 674310 14972 828 9618 9639 17122;17123 17122 0.0371835068551718 KYKGIFNGF 9 Unmodified _KYKGIFNGF_ 0 0 0 ENST00000547908.1_1_12:98989476-98991822:+|nuORF;ENST00000551123.5_1_12:98989412-98995303:+|nuORF;ENST00000546766.5_1_12:98989476-98995303:+|nuORF;ENSG00000075415|ENST00000552981|SLC25A3;nc|ENSG00000075415|Q00325|SLC25A3 ENST00000547908.1_1_12:98989476-98991822:+|nuORF ENST00000547908.1_1_12:98989476-98991822:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 358.530798 1072.57057 2.3561 0.00084473 -0.27094 -9.7141E-05 2.0851 0.00074759 358.5306761684377 48.229 0.28951 49.058 48.899 49.189 0.82915 -0.19064 3.6362E-05 NaN 7.609 37 14 4 NaN NaN NaN NaN 0 NaN NaN 0 1021200 14973 828 9618 9639 0.0371835068551718 KYKIKLSLLLH 11 Unmodified _KYKIKLSLLLH_ 0 0 0 REV__nc|ENSG00000197893|Q86VF7-3|NRAP REV__nc|ENSG00000197893|Q86VF7-3|NRAP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 678.4408569335938 2 678.442298 1354.87004 NaN NaN NaN NaN NaN NaN NaN 63.186 1 63.908 63.408 64.408 0.72236 0 0 0 1.0072 1 29573 29573 1.3295 0.13619 1 + 14974 18100 9619 9640 17124 17124 0.20680223247222784 KYKKKFLKKRR 11 Unmodified _KYKKKFLKKRR_ 0 0 0 REV__nc|ENSG00000196562|Q8IWU5-2|SULF2 REV__nc|ENSG00000196562|Q8IWU5-2|SULF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 762.0049438476562 2 762.006462 1521.99837 NaN NaN NaN NaN NaN NaN NaN 36.078 1 36.078 35.578 36.578 0 0 0 0 1.0082 1 16374 16374 0 0 1 + 14975 14231 9620 9641 17125 17125 0.25825203280919595 KYKLKTLA 8 Unmodified _KYKLKTLA_ 0 0 0 ATM|p.S496Ifs*16|1|0.17|ENSG00000149311|chr11:108250952-108250952|G/-|frameshift_variant ATM|p.S496Ifs*16|1|0.17|ENSG00000149311|chr11:108250952-108250952|G/-|frameshift_variant ATM|p.S496Ifs*16|1|0.17|ENSG00000149311|chr11:108250952-108250952|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 322.2124938964844 3 322.211177 963.611703 NaN NaN NaN NaN NaN NaN NaN 34.666 1 35.455 34.955 35.955 0.78921 0 0 0 0.99035 1 15705 15705 0.40072 0 1 14976 77 9621 9642 17126 17126 0.1284411172499631 KYKLKTLA 8 Unmodified _KYKLKTLA_ 0 0 0 ATM|p.S496Ifs*16|1|0.17|ENSG00000149311|chr11:108250952-108250952|G/-|frameshift_variant ATM|p.S496Ifs*16|1|0.17|ENSG00000149311|chr11:108250952-108250952|G/-|frameshift_variant ATM|p.S496Ifs*16|1|0.17|ENSG00000149311|chr11:108250952-108250952|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.2128601074219 3 322.211177 963.611703 NaN NaN NaN NaN NaN NaN NaN 35.37 1 35.625 35.125 36.125 0.25524 0 0 0 0.99035 1 16115 16115 0.40072 0 1 14977 77 9621 9642 17127 17127 0.1284411172499631 KYKLKTLA 8 Unmodified _KYKLKTLA_ 0 0 0 ATM|p.S496Ifs*16|1|0.17|ENSG00000149311|chr11:108250952-108250952|G/-|frameshift_variant ATM|p.S496Ifs*16|1|0.17|ENSG00000149311|chr11:108250952-108250952|G/-|frameshift_variant ATM|p.S496Ifs*16|1|0.17|ENSG00000149311|chr11:108250952-108250952|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 322.2129211425781 3 322.211177 963.611703 NaN NaN NaN NaN NaN NaN NaN 30.097 1 30.714 30.214 31.214 0.61737 0 0 0 0.99035 1 13807 13807 0.40072 0 1 14978 77 9621 9642 17128 17128 0.1284411172499631 KYKLKTLA 8 Unmodified _KYKLKTLA_ 0 0 0 ATM|p.S496Ifs*16|1|0.17|ENSG00000149311|chr11:108250952-108250952|G/-|frameshift_variant ATM|p.S496Ifs*16|1|0.17|ENSG00000149311|chr11:108250952-108250952|G/-|frameshift_variant ATM|p.S496Ifs*16|1|0.17|ENSG00000149311|chr11:108250952-108250952|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 322.2126770019531 3 322.211177 963.611703 NaN NaN NaN NaN NaN NaN NaN 30.23 1 30.847 30.347 31.347 0.61737 0 0 0 0.99035 1 13868 13868 1.6526 0 1 14979 77 9621 9642 17129 17129 0.1284411172499631 KYKNEEEEVV 10 Unmodified _KYKNEEEEVV_ 0 0 0 nc|ENSG00000052126|Q9HAU0-8|PLEKHA5;nc|ENSG00000052126|Q9HAU0-4|PLEKHA5;ENSG00000052126|ENST00000429027|PLEKHA5 nc|ENSG00000052126|Q9HAU0-8|PLEKHA5 nc|ENSG00000052126|Q9HAU0-8|PLEKHA5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.88031005859375 3 422.878592 1265.61395 2.9094 0.0012303 0.049324 2.0858E-05 2.9588 0.0012512 422.8787784100954 39.484 0.30749 39.751 39.546 39.853 0.26696 22 11 3 0 0 0 0.93713 1 17939 17939 0.62683 0 1 299190 14980 591 9622 9643 17130 17130 -0.008235491185359933 KYKPAVNQI 9 Unmodified _KYKPAVNQI_ 0 0 0 ENST00000498771.5_1_7:134132683-134136556:-|nuORF;ENSG00000085662|ENST00000285930|AKR1B1 ENST00000498771.5_1_7:134132683-134136556:-|nuORF ENST00000498771.5_1_7:134132683-134136556:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.8133544921875 2 530.811116 1059.60768 3.2047 0.0017011 0.44308 0.00023519 3.6478 0.0019363 530.8114012861488 19.762 0.16941 19.762 19.703 19.872 0 21 11 2 0 0 0 0.00081333 2 8814 8814;8869 128.37 46.752 1 817790 14981 971 9623 9644 17131;17132 17131 0.0802602223127451 KYKPAVNQI 9 Unmodified _KYKPAVNQI_ 0 0 0 ENST00000498771.5_1_7:134132683-134136556:-|nuORF;ENSG00000085662|ENST00000285930|AKR1B1 ENST00000498771.5_1_7:134132683-134136556:-|nuORF ENST00000498771.5_1_7:134132683-134136556:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.8123168945312 2 530.811116 1059.60768 2.9781 0.0015808 0.34212 0.0001816 3.3203 0.0017624 530.8111712826217 19.287 0.15353 19.584 19.541 19.694 0.29753 34 15 3 0 0 0 0.0063783 1 8763 8763 88.904 7.2905 1 777530 14982 971 9623 9644 17133 17133 0.0802602223127451 KYKPAVNQI 9 Unmodified _KYKPAVNQI_ 0 0 0 ENST00000498771.5_1_7:134132683-134136556:-|nuORF;ENSG00000085662|ENST00000285930|AKR1B1 ENST00000498771.5_1_7:134132683-134136556:-|nuORF ENST00000498771.5_1_7:134132683-134136556:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.8129272460938 2 530.811116 1059.60768 3.3702 0.001789 0.80096 0.00042516 4.1712 0.0022141 530.8114083883753 18.888 0.22794 19.549 19.443 19.671 0.66072 43 17 3 0 0 0 0.0013631 1 8552 8552 115.69 34.079 1 866300 14983 971 9623 9644 17134 17134 0.0802602223127451 KYKPESEEL 9 Unmodified _KYKPESEEL_ 0 0 0 ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.7894897460938 2 561.787504 1121.56045 3.4796 0.0019548 -0.35836 -0.00020132 3.1212 0.0017535 561.7872519730994 16.976 0.3127 16.976 16.732 17.044 0 68 32 3 0 0 0 0.056501 2 7497 7446;7497 40.239 13.971 1 297030 14984 5518 9624 9645 17135;17136 17136 0.0045369816962193 KYKPESEEL 9 Unmodified _KYKPESEEL_ 0 0 0 ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.7897338867188 2 561.787504 1121.56045 3.3185 0.0018643 0.37009 0.00020791 3.6886 0.0020722 561.7877524460212 15.214 0.55314 15.426 15.266 15.819 0.21108 174 78 3 0 0 0 0.1081 4 6736 6690;6736;6780;6821 32.786 13.529 1 267240 14985 5518 9624 9645 17137;17138;17139;17140 17138 0.0045369816962193 KYKPESEEL 9 Unmodified _KYKPESEEL_ 0 0 0 ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.2901000976562 2 561.787504 1121.56045 3.3348 0.0018735 0.062398 3.5054E-05 3.3972 0.0019085 562.2891594834655 14.461 0.16667 14.768 14.683 14.849 0.3069 11 7 2 0 0 0 0.31604 2 6552 6552;6561 16.149 3.6176 1 294960 14986 5518 9624 9645 17141;17142 17141 0.0045369816962193 KYKPESEEL 9 Unmodified _KYKPESEEL_ 0 0 0 ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB ENSG00000185624|ENST00000331483|P4HB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.789306640625 2 561.787504 1121.56045 NaN NaN NaN NaN NaN NaN NaN 14.423 1 15.071 14.571 15.571 0.6482 0 0 0 0.0070589 1 6492 6492 96.367 40.19 1 14987 5518 9624 9645 17143 17143 0.0045369816962193 KYKWYLKKLVF 11 Unmodified _KYKWYLKKLVF_ 0 0 0 ENSG00000174992|ENST00000400752|ZG16 ENSG00000174992|ENST00000400752|ZG16 ENSG00000174992|ENST00000400752|ZG16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.975830078125 3 505.974391 1514.90134 3.4771 0.0017593 0.65255 0.00033018 4.1297 0.0020895 505.9745864772748 101.31 0.11028 101.9 101.83 101.94 0.59717 19 5 6 0 0 0 0.91391 1 46911 46911 0.08335 0.08335 1 10049000 14988 5008 9625 9646 17144 17144 0.16448796281270006 KYKWYLKKLVF 11 Unmodified _KYKWYLKKLVF_ 0 0 0 ENSG00000174992|ENST00000400752|ZG16 ENSG00000174992|ENST00000400752|ZG16 ENSG00000174992|ENST00000400752|ZG16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 758.4579467773438 2 758.457948 1514.90134 NaN NaN NaN NaN NaN NaN NaN 41.405 1 42.049 41.549 42.549 0.64451 0 0 0 1.0082 1 18940 18940 0 0 1 14989 5008 9625 9646 17145 17145 0.16448796281270006 KYKYIKKKWQL 11 Unmodified _KYKYIKKKWQL_ 0 0 0 REV__nc|ENSG00000153815|Q8IY22-2|CMIP REV__nc|ENSG00000153815|Q8IY22-2|CMIP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.80596923828125 3 509.313295 1524.91806 3.1424 0.0016004 -0.0061726 -3.1438E-06 3.1362 0.0015973 509.31312712883704 78.617 0.22896 78.869 78.74 78.969 0.25127 18 13 2 0 0 0 0.13295 1 36168 36168 0.094841 0 1 322700 + 14990 12684 9626 9647 17146 17146 0.17659297167256227 KYLAHLEQL 9 Unmodified _KYLAHLEQL_ 0 0 0 ENSG00000162645|ENST00000370466|GBP2 ENSG00000162645|ENST00000370466|GBP2 ENSG00000162645|ENST00000370466|GBP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.8196411132812 2 557.816399 1113.61824 3.4372 0.0019173 1.6159 0.00090137 5.053 0.0028187 557.8170957275217 39.001 0.34824 39.265 39.058 39.406 0.26408 20 14 2 0 0 0 0.0020335 1 17746 17746 103.82 46.102 1 821310 14991 4153 9627 9648 17147 17147 0.06598004885699993 KYLAHLEQL 9 Unmodified _KYLAHLEQL_ 0 0 0 ENSG00000162645|ENST00000370466|GBP2 ENSG00000162645|ENST00000370466|GBP2 ENSG00000162645|ENST00000370466|GBP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.81982421875 2 557.816399 1113.61824 3.4581 0.001929 1.0991 0.0006131 4.5572 0.0025421 557.816968668818 38.58 0.32108 39.216 39.017 39.338 0.63578 25 11 3 0 0 0 0.015631 1 17632 17632 74.2 30.341 1 345780 14992 4153 9627 9648 17148 17148 0.06598004885699993 KYLAILGSVTF 11 Unmodified _KYLAILGSVTF_ 0 0 0 ENSG00000118705|ENST00000237530|RPN2;nc|ENSG00000118705|P04844-2|RPN2 ENSG00000118705|ENST00000237530|RPN2 ENSG00000118705|ENST00000237530|RPN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.3575439453125 2 606.355357 1210.69616 2.7238 0.0016516 1.7952 0.0010885 4.519 0.0027401 606.3558968554084 80.491 0.17823 80.66 80.605 80.783 0.16862 24 14 2 0 0 0 0.09108 2 39473 39429;39473 43.982 18.991 1 2072000 14993 2121 9628 9649 17149;17150 17150 0.09924017751086467 KYLATLETL 9 Unmodified _KYLATLETL_ 0 0 0 ENSG00000162434|ENST00000342505|JAK1;JAK1|p.L722Wfs*49|1|0.27|ENSG00000162434|chr1:64844841-64844841|G/-|frameshift_variant ENSG00000162434|ENST00000342505|JAK1 ENSG00000162434|ENST00000342505|JAK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.3067626953125 2 526.305332 1050.59611 3.2601 0.0017158 0.56778 0.00029883 3.8278 0.0020146 526.3057765566549 57.285 0.22212 57.285 57.156 57.378 0 37 20 2 0 0 0 0.0079462 2 26367 26367;26422 85.642 28.012 1 2894300 14994 4139 9629 9650 17151;17152 17151 0.07283780417287744 KYLATLETL 9 Unmodified _KYLATLETL_ 0 0 0 ENSG00000162434|ENST00000342505|JAK1;JAK1|p.L722Wfs*49|1|0.27|ENSG00000162434|chr1:64844841-64844841|G/-|frameshift_variant ENSG00000162434|ENST00000342505|JAK1 ENSG00000162434|ENST00000342505|JAK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.3076782226562 2 526.305332 1050.59611 2.9835 0.0015703 0.63471 0.00033405 3.6183 0.0019043 526.3050406707719 56.326 0.26856 57.104 56.972 57.24 0.77786 47 27 3 0 0 0 0.014491 1 25731 25731 75.761 7.6801 1 2147900 14995 4139 9629 9650 17153 17153 0.07283780417287744 KYLATLETL 9 Unmodified _KYLATLETL_ 0 0 0 ENSG00000162434|ENST00000342505|JAK1;JAK1|p.L722Wfs*49|1|0.27|ENSG00000162434|chr1:64844841-64844841|G/-|frameshift_variant ENSG00000162434|ENST00000342505|JAK1 ENSG00000162434|ENST00000342505|JAK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.308349609375 2 526.305332 1050.59611 3.347 0.0017615 0.3635 0.00019131 3.7105 0.0019528 526.3055861353195 56.457 0.22939 57.125 57.04 57.269 0.66829 23 14 2 0 0 0 0.099775 1 25894 25894 32.786 0.4802 1 718210 14996 4139 9629 9650 17154 17154 0.07283780417287744 KYLDEDTIYHL 11 Unmodified _KYLDEDTIYHL_ 0 0 0 nc|ENSG00000168906|P31153-2|MAT2A;ENSG00000168906|ENST00000306434|MAT2A nc|ENSG00000168906|P31153-2|MAT2A nc|ENSG00000168906|P31153-2|MAT2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.5711975097656 3 470.569759 1408.68745 2.9959 0.0014098 0.30646 0.00014421 3.3024 0.001554 470.56975982449865 54.852 0.24035 54.852 54.729 54.969 0 49 24 3 0 0 0 4.609E-06 1 25170 25170 70.496 51.352 1 941540 14997 4659 9630 9651 17155 17155 -0.0005500067604771175 KYLDEDTIYHL 11 Unmodified _KYLDEDTIYHL_ 0 0 0 nc|ENSG00000168906|P31153-2|MAT2A;ENSG00000168906|ENST00000306434|MAT2A nc|ENSG00000168906|P31153-2|MAT2A nc|ENSG00000168906|P31153-2|MAT2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 705.3541870117188 2 705.351 1408.68745 3.859 0.0027219 0.71524 0.00050449 4.5742 0.0032264 705.3511168149975 54.864 0.12169 54.864 54.765 54.886 0 14 9 2 0 0 0 2.1603E-06 1 25182 25182 101.54 69.908 1 1003000 14998 4659 9630 9651 17156 17156 -0.0005500067604771175 KYLDEDTIYHL 11 Unmodified _KYLDEDTIYHL_ 0 0 0 nc|ENSG00000168906|P31153-2|MAT2A;ENSG00000168906|ENST00000306434|MAT2A nc|ENSG00000168906|P31153-2|MAT2A nc|ENSG00000168906|P31153-2|MAT2A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 470.569759 1408.68745 2.6195 0.0012327 1.1669 0.0005491 3.7864 0.0017818 470.57052284918495 54.634 0.09211 54.899 54.819 54.911 0.26543 0.092993 0.00092987 NaN 70.496 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 340280 14999 4659 9630 9651 -0.0005500067604771175 KYLDEDTIYHL 11 Unmodified _KYLDEDTIYHL_ 0 0 0 nc|ENSG00000168906|P31153-2|MAT2A;ENSG00000168906|ENST00000306434|MAT2A nc|ENSG00000168906|P31153-2|MAT2A nc|ENSG00000168906|P31153-2|MAT2A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 470.569759 1408.68745 2.7911 0.0013134 0.53125 0.00024999 3.3224 0.0015634 470.56979111706056 54.001 0.13084 54.667 54.649 54.78 0.6665 -0.13909 3.253E-05 NaN 70.496 14 7 3 NaN NaN NaN NaN 0 NaN NaN 0 1773200 15000 4659 9630 9651 -0.0005500067604771175 KYLDIPKML 9 Unmodified _KYLDIPKML_ 0 0 0 ENST00000588618.5_1_19:39138385-39212431:+|nuORF;ACTN4|p.D874Rfs*17|1|0.4|ENSG00000130402|chr19:38729309-38729310|-/C|frameshift_variant;ENSG00000130402|ENST00000252699|ACTN4;ENST00000554508.5_1_14:69367621-69387744:-|nuORF;ENST00000513398.1_1_11:66314411-66328094:+|nuORF;ENSG00000248746|ENST00000513398|ACTN3;nc|ENSG00000072110|P12814-2|ACTN1;nc|ENSG00000072110|P12814|ACTN1;ENSG00000072110|ENST00000394419|ACTN1;nc|ENSG00000072110|P12814-4|ACTN1;ENST00000502692.5_1_11:66313918-66328094:+|nuORF ENST00000588618.5_1_19:39138385-39212431:+|nuORF;nc|ENSG00000072110|P12814-2|ACTN1;ENST00000502692.5_1_11:66313918-66328094:+|nuORF ENST00000588618.5_1_19:39138385-39212431:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.8236083984375 2 560.825378 1119.6362 NaN NaN NaN NaN NaN NaN NaN 58.969 1 59.728 59.228 60.228 0.75894 0 0 0 0.0055572 1 27097 27097 91.085 41.531 1 15001 9;785;8482 9631 9652 17157 17157 0.08117003816209944 KYLDIPKML 9 Unmodified _KYLDIPKML_ 0 0 0 ENST00000588618.5_1_19:39138385-39212431:+|nuORF;ACTN4|p.D874Rfs*17|1|0.4|ENSG00000130402|chr19:38729309-38729310|-/C|frameshift_variant;ENSG00000130402|ENST00000252699|ACTN4;ENST00000554508.5_1_14:69367621-69387744:-|nuORF;ENST00000513398.1_1_11:66314411-66328094:+|nuORF;ENSG00000248746|ENST00000513398|ACTN3;nc|ENSG00000072110|P12814-2|ACTN1;nc|ENSG00000072110|P12814|ACTN1;ENSG00000072110|ENST00000394419|ACTN1;nc|ENSG00000072110|P12814-4|ACTN1;ENST00000502692.5_1_11:66313918-66328094:+|nuORF ENST00000588618.5_1_19:39138385-39212431:+|nuORF;nc|ENSG00000072110|P12814-2|ACTN1;ENST00000502692.5_1_11:66313918-66328094:+|nuORF ENST00000588618.5_1_19:39138385-39212431:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.23431396484375 3 374.219344 1119.6362 2.1058 0.00078802 1.4941 0.00055913 3.5999 0.0013471 374.22011143524156 58.982 0.18372 59.741 59.683 59.866 0.75894 24 16 2 0 0 0 0.10173 1 27125 27125 8.9762 2.7844 1 700620 15002 9;785;8482 9631 9652 17158 17158 0.08117003816209944 KYLDIPKML 9 Unmodified _KYLDIPKML_ 0 0 0 ENST00000588618.5_1_19:39138385-39212431:+|nuORF;ACTN4|p.D874Rfs*17|1|0.4|ENSG00000130402|chr19:38729309-38729310|-/C|frameshift_variant;ENSG00000130402|ENST00000252699|ACTN4;ENST00000554508.5_1_14:69367621-69387744:-|nuORF;ENST00000513398.1_1_11:66314411-66328094:+|nuORF;ENSG00000248746|ENST00000513398|ACTN3;nc|ENSG00000072110|P12814-2|ACTN1;nc|ENSG00000072110|P12814|ACTN1;ENSG00000072110|ENST00000394419|ACTN1;nc|ENSG00000072110|P12814-4|ACTN1;ENST00000502692.5_1_11:66313918-66328094:+|nuORF ENST00000588618.5_1_19:39138385-39212431:+|nuORF;nc|ENSG00000072110|P12814-2|ACTN1;ENST00000502692.5_1_11:66313918-66328094:+|nuORF ENST00000588618.5_1_19:39138385-39212431:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.3302612304688 2 560.825378 1119.6362 3.0249 0.0016965 1.781 0.00099882 4.8059 0.0026953 561.3275075904766 59.007 0.20168 59.766 59.712 59.914 0.75894 32 16 3 0 0 0 0.019097 1 27158 27158 40.239 11.752 1 1468200 15003 9;785;8482 9631 9652 17159 17159 0.08117003816209944 KYLDIPKML 9 Unmodified _KYLDIPKML_ 0 0 0 ENST00000588618.5_1_19:39138385-39212431:+|nuORF;ACTN4|p.D874Rfs*17|1|0.4|ENSG00000130402|chr19:38729309-38729310|-/C|frameshift_variant;ENSG00000130402|ENST00000252699|ACTN4;ENST00000554508.5_1_14:69367621-69387744:-|nuORF;ENST00000513398.1_1_11:66314411-66328094:+|nuORF;ENSG00000248746|ENST00000513398|ACTN3;nc|ENSG00000072110|P12814-2|ACTN1;nc|ENSG00000072110|P12814|ACTN1;ENSG00000072110|ENST00000394419|ACTN1;nc|ENSG00000072110|P12814-4|ACTN1;ENST00000502692.5_1_11:66313918-66328094:+|nuORF ENST00000588618.5_1_19:39138385-39212431:+|nuORF;nc|ENSG00000072110|P12814-2|ACTN1;ENST00000502692.5_1_11:66313918-66328094:+|nuORF ENST00000588618.5_1_19:39138385-39212431:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.828857421875 2 560.825378 1119.6362 3.6045 0.0020215 1.0114 0.00056723 4.616 0.0025888 560.8258498033817 59.974 0.35228 60.233 60.034 60.386 0.2593 34 16 3 0 0 0 0.0023358 2 27427 27427;27481 100.71 62.533 1 863710 15004 9;785;8482 9631 9652 17160;17161 17160 0.08117003816209944 KYLDIPKML 9 Unmodified _KYLDIPKML_ 0 0 0 ENST00000588618.5_1_19:39138385-39212431:+|nuORF;ACTN4|p.D874Rfs*17|1|0.4|ENSG00000130402|chr19:38729309-38729310|-/C|frameshift_variant;ENSG00000130402|ENST00000252699|ACTN4;ENST00000554508.5_1_14:69367621-69387744:-|nuORF;ENST00000513398.1_1_11:66314411-66328094:+|nuORF;ENSG00000248746|ENST00000513398|ACTN3;nc|ENSG00000072110|P12814-2|ACTN1;nc|ENSG00000072110|P12814|ACTN1;ENSG00000072110|ENST00000394419|ACTN1;nc|ENSG00000072110|P12814-4|ACTN1;ENST00000502692.5_1_11:66313918-66328094:+|nuORF ENST00000588618.5_1_19:39138385-39212431:+|nuORF;nc|ENSG00000072110|P12814-2|ACTN1;ENST00000502692.5_1_11:66313918-66328094:+|nuORF ENST00000588618.5_1_19:39138385-39212431:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.8273315429688 2 560.825378 1119.6362 3.5531 0.0019927 0.32198 0.00018057 3.8751 0.0021733 560.8258488952102 59.404 0.30953 60.069 59.892 60.201 0.66503 27 13 3 0 0 0 0.0011142 2 27189 27189;27239 125.04 62.465 1 1285000 15005 9;785;8482 9631 9652 17162;17163 17162 0.08117003816209944 KYLDIPKML 9 Unmodified _KYLDIPKML_ 0 0 0 ENST00000588618.5_1_19:39138385-39212431:+|nuORF;ACTN4|p.D874Rfs*17|1|0.4|ENSG00000130402|chr19:38729309-38729310|-/C|frameshift_variant;ENSG00000130402|ENST00000252699|ACTN4;ENST00000554508.5_1_14:69367621-69387744:-|nuORF;ENST00000513398.1_1_11:66314411-66328094:+|nuORF;ENSG00000248746|ENST00000513398|ACTN3;nc|ENSG00000072110|P12814-2|ACTN1;nc|ENSG00000072110|P12814|ACTN1;ENSG00000072110|ENST00000394419|ACTN1;nc|ENSG00000072110|P12814-4|ACTN1;ENST00000502692.5_1_11:66313918-66328094:+|nuORF ENST00000588618.5_1_19:39138385-39212431:+|nuORF;nc|ENSG00000072110|P12814-2|ACTN1;ENST00000502692.5_1_11:66313918-66328094:+|nuORF ENST00000588618.5_1_19:39138385-39212431:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 560.825378 1119.6362 3.2257 0.001809 1.4894 0.00083528 4.7151 0.0026443 560.8255479083905 60.232 0.14378 60.232 60.16 60.304 0 0.053677 0.00080867 NaN 125.04 22 14 2 NaN NaN NaN NaN 0 NaN NaN 0 1384100 15006 9;785;8482 9631 9652 0.08117003816209944 KYLDNPNAL 9 Unmodified _KYLDNPNAL_ 0 0 0 nc|ENSG00000197256|Q63ZY3-3|KANK2;ENSG00000197256|ENST00000586659|KANK2;nc|ENSG00000197256|Q63ZY3-2|KANK2 nc|ENSG00000197256|Q63ZY3-3|KANK2 nc|ENSG00000197256|Q63ZY3-3|KANK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.27880859375 2 524.277106 1046.53966 3.1647 0.0016592 0.11268 5.9075E-05 3.2774 0.0017183 524.2770653995798 36.654 0.25286 36.654 36.532 36.785 0 20 11 2 0 0 0 0.014491 2 16619 16619;16674 75.761 48.132 1 857120 15007 5802 9632 9653 17164;17165 17164 0.01825152580613576 KYLDNPNAL 9 Unmodified _KYLDNPNAL_ 0 0 0 nc|ENSG00000197256|Q63ZY3-3|KANK2;ENSG00000197256|ENST00000586659|KANK2;nc|ENSG00000197256|Q63ZY3-2|KANK2 nc|ENSG00000197256|Q63ZY3-3|KANK2 nc|ENSG00000197256|Q63ZY3-3|KANK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.2775268554688 2 524.277106 1046.53966 3.4191 0.0017926 0.089483 4.6914E-05 3.5086 0.0018395 524.2767925589818 35.7 0.1149 36.491 36.406 36.521 0.79131 10 4 3 0 0 0 0.021401 1 16190 16190 66.457 38.828 1 790250 15008 5802 9632 9653 17166 17166 0.01825152580613576 KYLDNPNAL 9 Unmodified _KYLDNPNAL_ 0 0 0 nc|ENSG00000197256|Q63ZY3-3|KANK2;ENSG00000197256|ENST00000586659|KANK2;nc|ENSG00000197256|Q63ZY3-2|KANK2 nc|ENSG00000197256|Q63ZY3-3|KANK2 nc|ENSG00000197256|Q63ZY3-3|KANK2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.8062133789062 2 524.277106 1046.53966 3.4238 0.001795 0.31541 0.00016536 3.7392 0.0019604 524.2772622079111 36.009 0.17562 36.635 36.52 36.695 0.62631 9 5 2 0 0 0 0.063903 1 16463 16463 27.629 6.0918 1 354830 15009 5802 9632 9653 17167 17167 0.01825152580613576 KYLDNPNAL 9 Unmodified _KYLDNPNAL_ 0 0 0 nc|ENSG00000197256|Q63ZY3-3|KANK2;ENSG00000197256|ENST00000586659|KANK2;nc|ENSG00000197256|Q63ZY3-2|KANK2 nc|ENSG00000197256|Q63ZY3-3|KANK2 nc|ENSG00000197256|Q63ZY3-3|KANK2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 524.277106 1046.53966 3.3772 0.0017706 -0.049673 -2.6042E-05 3.3275 0.0017445 524.2769631610722 36.586 0.20982 36.844 36.719 36.929 0.25768 0.18761 -0.00013064 NaN 75.761 14 7 2 NaN NaN NaN NaN 0 NaN NaN 0 519980 15010 5802 9632 9653 0.01825152580613576 KYLDVKFEYL 10 Unmodified _KYLDVKFEYL_ 0 0 0 nc|ENSG00000100151|Q9NRD5-2|PICK1;ENST00000484021.5_1_22:38453431-38470088:+|nuORF;ENSG00000100151|ENST00000356976|PICK1 nc|ENSG00000100151|Q9NRD5-2|PICK1 nc|ENSG00000100151|Q9NRD5-2|PICK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 439.9088134765625 3 439.907823 1316.70164 2.7652 0.0012165 -0.19909 -8.7583E-05 2.5662 0.0011289 439.90769012853474 62.801 0.18458 63.051 62.984 63.169 0.24965 17 12 2 0 0 0 0.69332 1 28782 28782 13.519 9.3292 1 696020 15011 1183 9633 9654 17168 17168 0.055956965429231786 KYLDVKFEYL 10 Unmodified _KYLDVKFEYL_ 0 0 0 nc|ENSG00000100151|Q9NRD5-2|PICK1;ENST00000484021.5_1_22:38453431-38470088:+|nuORF;ENSG00000100151|ENST00000356976|PICK1 nc|ENSG00000100151|Q9NRD5-2|PICK1 nc|ENSG00000100151|Q9NRD5-2|PICK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 659.36083984375 2 659.358096 1316.70164 3.6652 0.0024166 0.63192 0.00041666 4.2971 0.0028333 659.3581164794635 62.795 0.1646 63.045 63.004 63.169 0.24965 21 10 3 0 0 0 0.040159 1 28795 28795 73.196 58.791 1 714960 15012 1183 9633 9654 17169 17169 0.055956965429231786 KYLDVKFEYL 10 Unmodified _KYLDVKFEYL_ 0 0 0 nc|ENSG00000100151|Q9NRD5-2|PICK1;ENST00000484021.5_1_22:38453431-38470088:+|nuORF;ENSG00000100151|ENST00000356976|PICK1 nc|ENSG00000100151|Q9NRD5-2|PICK1 nc|ENSG00000100151|Q9NRD5-2|PICK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 659.3615112304688 2 659.358096 1316.70164 3.7699 0.0024857 0.096197 6.3428E-05 3.8661 0.0025491 659.3580779719081 62.203 0.16774 62.863 62.786 62.953 0.66008 23 12 2 0 0 0 0.046492 2 28493 28493;28544 70.496 46.706 1 1076400 15013 1183 9633 9654 17170;17171 17170 0.055956965429231786 KYLDVKFEYL 10 Unmodified _KYLDVKFEYL_ 0 0 0 nc|ENSG00000100151|Q9NRD5-2|PICK1;ENST00000484021.5_1_22:38453431-38470088:+|nuORF;ENSG00000100151|ENST00000356976|PICK1 nc|ENSG00000100151|Q9NRD5-2|PICK1 nc|ENSG00000100151|Q9NRD5-2|PICK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 439.9101867675781 3 439.907823 1316.70164 2.9066 0.0012786 0.81641 0.00035915 3.723 0.0016378 440.24244431228107 62.185 0.1891 62.845 62.786 62.975 0.66009 20 14 2 0 0 0 0.77226 1 28510 28510 9.7643 5.3581 1 793560 15014 1183 9633 9654 17172 17172 0.055956965429231786 KYLEAVLSF 9 Unmodified _KYLEAVLSF_ 0 0 0 nc|ENSG00000172493|P51825|AFF1;nc|ENSG00000172493|P51825-3|AFF1;ENSG00000172493|ENST00000395146|AFF1 nc|ENSG00000172493|P51825|AFF1 nc|ENSG00000172493|P51825|AFF1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.5524597167969 3 357.202459 1068.58555 2.7223 0.0009724 -2.109 -0.00075332 0.61332 0.00021908 357.201677926975 12.759 0.089255 12.759 12.716 12.806 0 7 4 2 0 0 0 0.10586 1 5585 5585 5.2969 0 1 1169600 15015 4874 9634 9655 17173 17173 0.05399797762856906 KYLEENVMRHF 11 Unmodified _KYLEENVMRHF_ 0 0 0 nc|ENSG00000126016|Q4VCS5-2|AMOT;ENSG00000126016|ENST00000371959|AMOT nc|ENSG00000126016|Q4VCS5-2|AMOT nc|ENSG00000126016|Q4VCS5-2|AMOT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.5823669433594 3 489.246733 1464.71837 3.1938 0.0015626 -0.14319 -7.0055E-05 3.0506 0.0014925 489.246568779811 39.467 0.22556 39.467 39.297 39.522 0 15 7 3 0 0 0 0.034782 1 17906 17906 54.259 48.391 1 721490 15016 2442 9635 9656 17174 17174 0.004598741571953724 KYLEENVMRHF 11 Unmodified _KYLEENVMRHF_ 0 0 0 nc|ENSG00000126016|Q4VCS5-2|AMOT;ENSG00000126016|ENST00000371959|AMOT nc|ENSG00000126016|Q4VCS5-2|AMOT nc|ENSG00000126016|Q4VCS5-2|AMOT MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 489.246733 1464.71837 3.0999 0.0015166 0.7053 0.00034507 3.8052 0.0018617 489.24703135874586 39.341 0.26456 39.608 39.48 39.745 0.26696 0.072051 0.00093479 NaN 54.259 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 197990 15017 2442 9635 9656 0.004598741571953724 KYLEENVMRHF 11 Unmodified _KYLEENVMRHF_ 0 0 0 nc|ENSG00000126016|Q4VCS5-2|AMOT;ENSG00000126016|ENST00000371959|AMOT nc|ENSG00000126016|Q4VCS5-2|AMOT nc|ENSG00000126016|Q4VCS5-2|AMOT MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 489.246733 1464.71837 3.2106 0.0015708 -0.13065 -6.392E-05 3.08 0.0015069 489.24683171799364 38.895 0.24139 39.533 39.408 39.649 0.63778 -0.0033521 -0.00029216 NaN 54.259 15 8 3 NaN NaN NaN NaN 0 NaN NaN 0 357940 15018 2442 9635 9656 0.004598741571953724 KYLEERAMRQF 11 Unmodified _KYLEERAMRQF_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.92364501953125 3 490.922249 1469.74492 3.3301 0.0016348 -0.18728 -9.1938E-05 3.1428 0.0015429 490.9222122489905 30.708 0.30869 30.708 30.544 30.852 0 102 26 5 0 0 0 0.00012345 3 13834 13834;13879;13921 87.123 71.585 1 26666000 15019 1886 9636 9657 17175;17176;17177 17175 0.028835630485218644 KYLEERAMRQF 11 Unmodified _KYLEERAMRQF_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 368.4443664550781 4 368.443506 1469.74492 2.9386 0.0010827 -0.22476 -8.2812E-05 2.7139 0.0009999 368.4434743561722 30.719 0.21948 30.719 30.601 30.821 0 46 19 3 0 0 0 0.14006 1 13870 13870 35.08 30.963 1 3138200 15020 1886 9636 9657 17178 17178 0.028835630485218644 KYLEERAMRQF 11 Unmodified _KYLEERAMRQF_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.25836181640625 3 490.922249 1469.74492 3.2955 0.0016179 -0.47945 -0.00023537 2.8161 0.0013825 490.9220487246556 29.615 0.2804 30.404 30.289 30.569 0.78921 108 27 5 0 0 0 1.9317E-09 3 13337 13337;13384;13429 110.18 85.222 1 24881000 15021 1886 9636 9657 17179;17180;17181 17179 0.028835630485218644 KYLEERAMRQF 11 Unmodified _KYLEERAMRQF_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 736.3853149414062 2 735.879736 1469.74492 3.7659 0.0027712 0.54157 0.00039853 4.3075 0.0031698 736.3813209694306 29.619 0.1142 30.408 30.341 30.456 0.78921 14 10 2 0 0 0 0.15998 1 13353 13353 20.581 12.972 1 2866900 15022 1886 9636 9657 17182 17182 0.028835630485218644 KYLEERAMRQF 11 Unmodified _KYLEERAMRQF_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 368.6950988769531 4 368.443506 1469.74492 2.5052 0.00092302 -0.090001 -3.316E-05 2.4152 0.00088986 368.6942169551785 29.611 0.16638 30.4 30.334 30.5 0.78921 33 16 3 0 0 0 0.14006 1 13355 13355 35.08 28.456 1 3960000 15023 1886 9636 9657 17183 17183 0.028835630485218644 KYLEERAMRQF 11 Unmodified _KYLEERAMRQF_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 490.9237060546875 3 490.922249 1469.74492 3.4976 0.001717 -0.26974 -0.00013242 3.2278 0.0015846 490.92222258958475 30.342 0.44041 30.6 30.419 30.859 0.25804 82 23 5 0 0 0 0.00010478 4 13809 13759;13765;13809;13864 88.576 79.332 1 13553000 15024 1886 9636 9657 17184;17185;17186;17187 17186 0.028835630485218644 KYLEERAMRQF 11 Unmodified _KYLEERAMRQF_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 368.444580078125 4 368.443506 1469.74492 3.0068 0.0011078 -0.17435 -6.4237E-05 2.8325 0.0010436 368.4434955151668 30.336 0.33921 30.594 30.437 30.776 0.25804 47 17 4 0 0 0 0.039107 1 13817 13817 53.47 48.754 1 2155100 15025 1886 9636 9657 17188 17188 0.028835630485218644 KYLEERAMRQF 11 Unmodified _KYLEERAMRQF_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 735.8821411132812 2 735.879736 1469.74492 4.1545 0.0030572 0.15582 0.00011467 4.3103 0.0031718 735.8803790132037 30.341 0.25905 30.599 30.503 30.762 0.25804 21 12 2 0 0 0 0.91328 1 13845 13845 0 0 1 772930 15026 1886 9636 9657 17189 17189 0.028835630485218644 KYLEERAMRQF 11 Unmodified _KYLEERAMRQF_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.2579345703125 3 490.922249 1469.74492 3.2291 0.0015852 -0.28231 -0.00013859 2.9468 0.0014466 490.92217762583164 30.146 0.36362 30.764 30.629 30.993 0.61737 74 21 5 0 0 0 9.2096E-07 3 13831 13783;13831;13883 106.37 81.408 1 18668000 15027 1886 9636 9657 17190;17191;17192 17191 0.028835630485218644 KYLEERAMRQF 11 Unmodified _KYLEERAMRQF_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 735.8828125 2 735.879736 1469.74492 3.9758 0.0029257 0.12151 8.9417E-05 4.0974 0.0030152 735.879888611102 30.157 0.1963 30.774 30.673 30.869 0.61737 23 11 3 0 0 0 0.17193 1 13828 13828 23.801 18.904 1 894340 15028 1886 9636 9657 17193 17193 0.028835630485218644 KYLEERAMRQF 11 Unmodified _KYLEERAMRQF_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 735.879736 1469.74492 3.9193 0.0028842 -0.74706 -0.00054975 3.1723 0.0023344 735.8800819852884 30.709 0.14579 30.709 30.626 30.772 0 0.086312 -0.0012571 NaN 20.581 22 12 3 NaN NaN NaN NaN 0 NaN NaN 0 1605600 15029 1886 9636 9657 0.028835630485218644 KYLEERAMRQF 11 Unmodified _KYLEERAMRQF_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 368.443506 1469.74492 2.6356 0.00097106 -0.27571 -0.00010158 2.3599 0.00086947 368.6942756138241 30.152 0.22797 30.769 30.664 30.892 0.61737 0.14833 -0.00014347 NaN 53.47 32 13 4 NaN NaN NaN NaN 0 NaN NaN 0 1745300 15030 1886 9636 9657 0.028835630485218644 KYLEESTIRHF 11 Unmodified _KYLEESTIRHF_ 0 0 0 ENSG00000166025|ENST00000433060|AMOTL1;nc|ENSG00000166025|Q8IY63-2|AMOTL1 ENSG00000166025|ENST00000433060|AMOTL1 ENSG00000166025|ENST00000433060|AMOTL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.9179992675781 3 474.917381 1421.73031 3.009 0.001429 -1.0084 -0.00047889 2.0006 0.00095014 474.9169942458596 32.182 0.23447 32.182 32.055 32.289 0 41 25 2 0 0 0 0.0031956 2 14591 14546;14591 72.187 61.122 1 1389600 15031 4448 9637 9658 17194;17195 17195 0.036318141720357744 KYLEESTIRHF 11 Unmodified _KYLEESTIRHF_ 0 0 0 ENSG00000166025|ENST00000433060|AMOTL1;nc|ENSG00000166025|Q8IY63-2|AMOTL1 ENSG00000166025|ENST00000433060|AMOTL1 ENSG00000166025|ENST00000433060|AMOTL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.91900634765625 3 474.917381 1421.73031 3.0061 0.0014276 0.16456 7.815E-05 3.1706 0.0015058 474.9174344269906 31.205 0.28818 31.993 31.843 32.132 0.78879 66 22 4 0 0 0 4.2034E-10 2 14072 14072;14122 120.54 97.528 1 798640 15032 4448 9637 9658 17196;17197 17196 0.036318141720357744 KYLEESTIRHF 11 Unmodified _KYLEESTIRHF_ 0 0 0 ENSG00000166025|ENST00000433060|AMOTL1;nc|ENSG00000166025|Q8IY63-2|AMOTL1 ENSG00000166025|ENST00000433060|AMOTL1 ENSG00000166025|ENST00000433060|AMOTL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.9188232421875 3 474.917381 1421.73031 3.0435 0.0014454 0.0063786 3.0293E-06 3.0499 0.0014484 474.9173198152636 31.506 0.18077 32.124 32.039 32.219 0.61737 31 12 3 0 0 0 0.12973 1 14440 14440 36.955 32.239 1 543920 15033 4448 9637 9658 17198 17198 0.036318141720357744 KYLEESTIRHF 11 Unmodified _KYLEESTIRHF_ 0 0 0 ENSG00000166025|ENST00000433060|AMOTL1;nc|ENSG00000166025|Q8IY63-2|AMOTL1 ENSG00000166025|ENST00000433060|AMOTL1 ENSG00000166025|ENST00000433060|AMOTL1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 474.917381 1421.73031 3.3518 0.0015918 -0.30937 -0.00014692 3.0425 0.0014449 474.91714956162934 32.123 0.22617 32.377 32.232 32.459 0.25452 0.20797 1.2723E-05 NaN 120.54 25 13 3 NaN NaN NaN NaN 0 NaN NaN 0 376370 15034 4448 9637 9658 0.036318141720357744 KYLEHPLLL 9 Unmodified _KYLEHPLLL_ 0 0 0 ENSG00000114999|ENST00000233336|TTL ENSG00000114999|ENST00000233336|TTL ENSG00000114999|ENST00000233336|TTL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.3387451171875 2 563.336967 1124.65938 3.4106 0.0019213 0.44861 0.00025272 3.8592 0.0021741 563.3372147076923 51.958 0.24839 51.958 51.862 52.11 0 34 17 3 0 0 0 0.099775 1 23845 23845 32.786 10.049 1 1252500 15035 1936 9638 9659 17199 17199 0.10203765925189145 KYLEHPLLL 9 Unmodified _KYLEHPLLL_ 0 0 0 ENSG00000114999|ENST00000233336|TTL ENSG00000114999|ENST00000233336|TTL ENSG00000114999|ENST00000233336|TTL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.3389892578125 2 563.336967 1124.65938 3.0543 0.0017206 0.22219 0.00012517 3.2764 0.0018457 563.3370219936033 50.953 0.26438 51.771 51.655 51.92 0.81738 25 15 2 0 0 0 0.0063542 1 23215 23215 88.954 47.114 1 1015200 15036 1936 9638 9659 17200 17200 0.10203765925189145 KYLEHPLLL 9 Unmodified _KYLEHPLLL_ 0 0 0 ENSG00000114999|ENST00000233336|TTL ENSG00000114999|ENST00000233336|TTL ENSG00000114999|ENST00000233336|TTL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.3391723632812 2 563.336967 1124.65938 3.4263 0.0019302 0.017732 9.9889E-06 3.444 0.0019401 563.3370382108636 51.628 0.19081 51.89 51.792 51.982 0.26228 19 9 3 0 0 0 0.0063542 1 23599 23599 88.954 54.552 1 698320 15037 1936 9638 9659 17201 17201 0.10203765925189145 KYLEHPLLL 9 Unmodified _KYLEHPLLL_ 0 0 0 ENSG00000114999|ENST00000233336|TTL ENSG00000114999|ENST00000233336|TTL ENSG00000114999|ENST00000233336|TTL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.3397827148438 2 563.336967 1124.65938 3.385 0.0019069 0.3481 0.0001961 3.7331 0.002103 563.3371070846148 50.969 0.21131 51.629 51.526 51.738 0.65956 22 10 3 0 0 0 0.02812 1 23299 23299 57.722 27.085 1 742100 15038 1936 9638 9659 17202 17202 0.10203765925189145 KYLGQLHYL 9 Unmodified _KYLGQLHYL_ 0 0 0 ENSG00000076201|ENST00000265562|PTPN23 ENSG00000076201|ENST00000265562|PTPN23 ENSG00000076201|ENST00000265562|PTPN23 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3427734375 2 567.818941 1133.62333 3.3207 0.0018856 0.6937 0.00039389 4.0144 0.0022795 567.8193712958707 44.337 0.18573 44.606 44.546 44.732 0.26939 10 6 2 0 0 0 0.067591 1 20292 20292 25.399 7.253 1 334710 15039 843 9639 9660 17203 17203 0.06186308748306146 KYLLCIPAAL 10 Unmodified _KYLLCIPAAL_ 0 0 0 REV__nc|ENSG00000012779|P09917-5|ALOX5 REV__nc|ENSG00000012779|P09917-5|ALOX5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.8316650390625 2 552.827921 1103.64129 3.4939 0.0019315 1.6507 0.00091256 5.1446 0.0028441 552.8289242434583 50.23 0.37614 50.492 50.32 50.697 0.26146 27 14 3 0 0 0 0.73282 1 23017 23017 11.64 4.3511 1 1120700 + 15040 10244 9640 9661 17204 17204 0.09361307678796038 KYLLHSLVF 9 Unmodified _KYLLHSLVF_ 0 0 0 ENSG00000087008|ENST00000356406|ACOX3;nc|ENSG00000087008|O15254-2|ACOX3;ENST00000510365.5_1_4:8376552-8417570:-|nuORF ENSG00000087008|ENST00000356406|ACOX3 ENSG00000087008|ENST00000356406|ACOX3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.3302612304688 2 560.331685 1118.64882 NaN NaN NaN NaN NaN NaN NaN 59.093 1 59.852 59.352 60.352 0.75894 0 0 0 0.1585 1 27158 27158 32.786 12.332 1 15041 991 9641 9662 17205 17205 0.09423783270767672 KYLLLLLLL 9 Unmodified _KYLLLLLLL_ 0 0 0 REV__ENSG00000182578|ENST00000675795|CSF1R REV__ENSG00000182578|ENST00000675795|CSF1R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.310302734375 2 551.385929 1100.7573 NaN NaN NaN NaN NaN NaN NaN 91.034 1 91.034 90.534 91.534 0 0 0 0 0.91238 1 47977 47977 0.52476 0.066424 1 + 15042 13897 9642 9663 17206 17206 0.21095574521200433 KYLQSTISF 9 Unmodified _KYLQSTISF_ 0 0 0 ENSG00000100038|ENST00000357179|TOP3B;ENST00000457179.5_1_22:22317029-22324763:-|nuORF;ENST00000444502.5_1_22:22313806-22324763:-|nuORF;nc|ENSG00000100038|O95985-3|TOP3B;nc|ENSG00000100038|O95985-2|TOP3B ENSG00000100038|ENST00000357179|TOP3B ENSG00000100038|ENST00000357179|TOP3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.7974243164062 2 543.795132 1085.57571 3.3928 0.001845 1.0554 0.00057394 4.4483 0.002419 543.79550809031 53.786 0.19878 54.05 53.962 54.16 0.26462 12 7 2 0 0 0 0.086415 1 24599 24599 36.127 7.6402 1 329670 15043 1169 9643 9664 17207 17207 0.036346097574551095 KYLQSTISF 9 Unmodified _KYLQSTISF_ 0 0 0 ENSG00000100038|ENST00000357179|TOP3B;ENST00000457179.5_1_22:22317029-22324763:-|nuORF;ENST00000444502.5_1_22:22313806-22324763:-|nuORF;nc|ENSG00000100038|O95985-3|TOP3B;nc|ENSG00000100038|O95985-2|TOP3B ENSG00000100038|ENST00000357179|TOP3B ENSG00000100038|ENST00000357179|TOP3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.7967529296875 2 543.795132 1085.57571 3.2946 0.0017916 0.31126 0.00016926 3.6058 0.0019608 543.7951604666126 53.299 0.18282 53.964 53.841 54.024 0.6644 11 7 2 0 0 0 0.043585 1 24362 24362 49.933 8.0934 1 577120 15044 1169 9643 9664 17208 17208 0.036346097574551095 KYLSLSNSF 9 Unmodified _KYLSLSNSF_ 0 0 0 ENSG00000164342|ENST00000296795|TLR3;chr4:186082550-186082743|473|10.7|0.4|4.75|+|ENST00000513189|TLR3,TLR3;nc|ENSG00000164342|O15455-2|TLR3 ENSG00000164342|ENST00000296795|TLR3 ENSG00000164342|ENST00000296795|TLR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.78125 2 529.779482 1057.54441 3.1834 0.0016865 -0.22482 -0.0001191 2.9586 0.0015674 529.779176236477 53.745 0.22617 54.009 53.868 54.094 0.26462 19 8 3 0 0 0 0.0079462 1 24595 24595 85.642 34.786 1 858830 15045 4308 9644 9665 17209 17209 0.017940367233904908 KYLSLSNSF 9 Unmodified _KYLSLSNSF_ 0 0 0 ENSG00000164342|ENST00000296795|TLR3;chr4:186082550-186082743|473|10.7|0.4|4.75|+|ENST00000513189|TLR3,TLR3;nc|ENSG00000164342|O15455-2|TLR3 ENSG00000164342|ENST00000296795|TLR3 ENSG00000164342|ENST00000296795|TLR3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.8334350585938 2 529.779482 1057.54441 3.0962 0.0016403 0.038308 2.0295E-05 3.1345 0.0016606 529.7793536634808 53.169 0.23259 53.833 53.746 53.979 0.6644 20 9 3 0 0 0 0.088173 1 24370 24370 19.362 6.8304 1 882380 15046 4308 9644 9665 17210 17210 0.017940367233904908 KYLSLSNSF 9 Unmodified _KYLSLSNSF_ 0 0 0 ENSG00000164342|ENST00000296795|TLR3;chr4:186082550-186082743|473|10.7|0.4|4.75|+|ENST00000513189|TLR3,TLR3;nc|ENSG00000164342|O15455-2|TLR3 ENSG00000164342|ENST00000296795|TLR3 ENSG00000164342|ENST00000296795|TLR3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 529.779482 1057.54441 3.5127 0.001861 0.27638 0.00014642 3.7891 0.0020074 529.7795162028408 53.755 0.13554 53.755 53.721 53.856 0 -0.11055 0.00025737 NaN 85.642 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 650590 15047 4308 9644 9665 0.017940367233904908 KYLSVQGQLF 10 Unmodified _KYLSVQGQLF_ 0 0 0 ENST00000471737.1_1_6:36936681-36938521:-|nuORF;nc|ENSG00000137409|Q9NZJ7-3|MTCH1;nc|ENSG00000137409|Q9NZJ7-2|MTCH1;ENSG00000137409|ENST00000373627|MTCH1 ENST00000471737.1_1_6:36936681-36938521:-|nuORF ENST00000471737.1_1_6:36936681-36938521:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.8311157226562 2 591.829506 1181.64446 3.2231 0.0019075 0.47705 0.00028233 3.7001 0.0021898 591.8296080533574 60.164 0.22975 60.164 60.067 60.297 0 58 25 4 0 0 0 0.0027159 2 27875 27875;27930 96.367 28.286 1 21191000 15048 3014 9645 9666 17211;17212 17211 0.06090274057191891 KYLSVQGQLF 10 Unmodified _KYLSVQGQLF_ 0 0 0 ENST00000471737.1_1_6:36936681-36938521:-|nuORF;nc|ENSG00000137409|Q9NZJ7-3|MTCH1;nc|ENSG00000137409|Q9NZJ7-2|MTCH1;ENSG00000137409|ENST00000373627|MTCH1 ENST00000471737.1_1_6:36936681-36938521:-|nuORF ENST00000471737.1_1_6:36936681-36938521:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.8321533203125 2 591.829506 1181.64446 3.1621 0.0018714 0.031078 1.8393E-05 3.1932 0.0018898 591.8294414604673 59.004 0.27772 59.763 59.657 59.935 0.75894 79 25 4 0 0 0 0.00060966 2 27137 27087;27137 106.94 48.261 1 18935000 15049 3014 9645 9666 17213;17214 17214 0.06090274057191891 KYLSVQGQLF 10 Unmodified _KYLSVQGQLF_ 0 0 0 ENST00000471737.1_1_6:36936681-36938521:-|nuORF;nc|ENSG00000137409|Q9NZJ7-3|MTCH1;nc|ENSG00000137409|Q9NZJ7-2|MTCH1;ENSG00000137409|ENST00000373627|MTCH1 ENST00000471737.1_1_6:36936681-36938521:-|nuORF ENST00000471737.1_1_6:36936681-36938521:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.8316650390625 2 591.829506 1181.64446 3.6708 0.0021725 0.30758 0.00018203 3.9784 0.0023545 591.8296153518011 59.923 0.38181 60.182 60.021 60.403 0.2593 57 18 4 0 0 0 0.00060966 3 27402 27402;27459;27509 106.94 37.835 1 9839300 15050 3014 9645 9666 17215;17216;17217 17215 0.06090274057191891 KYLSVQGQLF 10 Unmodified _KYLSVQGQLF_ 0 0 0 ENST00000471737.1_1_6:36936681-36938521:-|nuORF;nc|ENSG00000137409|Q9NZJ7-3|MTCH1;nc|ENSG00000137409|Q9NZJ7-2|MTCH1;ENSG00000137409|ENST00000373627|MTCH1 ENST00000471737.1_1_6:36936681-36938521:-|nuORF ENST00000471737.1_1_6:36936681-36938521:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 591.8319091796875 2 591.829506 1181.64446 3.7996 0.0022487 -0.1391 -8.2321E-05 3.6605 0.0021664 591.8293436399504 59.355 0.39044 60.02 59.837 60.228 0.66503 53 16 4 0 0 0 0.00060966 3 27185 27133;27185;27236 106.94 48.261 1 11257000 15051 3014 9645 9666 17218;17219;17220 17219 0.06090274057191891 KYLTAEAFGF 10 Unmodified _KYLTAEAFGF_ 0 0 0 ENSG00000075618|ENST00000382361|FSCN1 ENSG00000075618|ENST00000382361|FSCN1 ENSG00000075618|ENST00000382361|FSCN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 573.7969970703125 2 573.795132 1145.57571 3.6048 0.0020684 -0.98266 -0.00056385 2.6222 0.0015046 573.7944614683558 69.137 0.28806 69.391 69.237 69.525 0.25443 37 17 3 0 0 0 0.019429 2 31664 31664;31709 76.825 46.188 1 935800 15052 831 9646 9667 17221;17222 17221 0.008746097574658052 KYLTAEAFGF 10 Unmodified _KYLTAEAFGF_ 0 0 0 ENSG00000075618|ENST00000382361|FSCN1 ENSG00000075618|ENST00000382361|FSCN1 ENSG00000075618|ENST00000382361|FSCN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 573.797119140625 2 573.795132 1145.57571 3.4891 0.0020021 -0.42747 -0.00024528 3.0617 0.0017568 573.7950512940463 68.603 0.27665 69.262 69.086 69.362 0.65924 45 19 3 0 0 0 0.094878 2 31424 31424;31493 53.404 22.767 1 830850 15053 831 9646 9667 17223;17224 17223 0.008746097574658052 KYLTEGLLQF 10 Unmodified _KYLTEGLLQF_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 606.3391723632812 2 606.337164 1210.65977 2.9445 0.0017854 0.62237 0.00037737 3.5669 0.0021628 606.3373231796965 75.34 0.28234 75.34 75.204 75.487 0 69 26 3 0 0 0 0.019986 2 36929 36885;36929 71.708 26.008 1 8029400 15054 931 9647 9668 17225;17226 17226 0.06287140854374229 KYLTEGLLQF 10 Unmodified _KYLTEGLLQF_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.3386840820312 2 606.337164 1210.65977 2.9093 0.001764 0.16144 9.7889E-05 3.0707 0.0018619 606.337082284714 74.41 0.31204 75.097 74.948 75.26 0.68662 63 23 3 0 0 0 0.010179 2 35939 35939;35989 90.135 30.061 1 6782100 15055 931 9647 9668 17227;17228 17227 0.06287140854374229 KYLTEGLLQF 10 Unmodified _KYLTEGLLQF_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 606.33935546875 2 606.337164 1210.65977 3.324 0.0020155 -0.037333 -2.2637E-05 3.2867 0.0019929 606.3369223857012 75.215 0.27557 75.473 75.309 75.585 0.25831 58 25 3 0 0 0 0.010179 2 34576 34576;34619 90.135 21.03 1 2654200 15056 931 9647 9668 17229;17230 17229 0.06287140854374229 KYLTEGLLQF 10 Unmodified _KYLTEGLLQF_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 606.3394775390625 2 606.337164 1210.65977 3.2715 0.0019836 0.22644 0.0001373 3.4979 0.0021209 606.3370684523693 74.678 0.29073 75.342 75.168 75.459 0.6644 65 28 3 0 0 0 0.010179 2 34376 34328;34376 90.135 30.061 1 3144800 15057 931 9647 9668 17231;17232 17232 0.06287140854374229 KYLVIGDLLF 10 Unmodified _KYLVIGDLLF_ 0 0 0 ENST00000591770.1_1_17:76164697-76167257:+|nuORF;ENSG00000108639|ENST00000225777|SYNGR2;nc|ENSG00000108639|O43760-2|SYNGR2 ENST00000591770.1_1_17:76164697-76167257:+|nuORF ENST00000591770.1_1_17:76164697-76167257:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.356689453125 2 590.85245 1179.69035 4.1614 0.0024588 -0.11719 -6.9243E-05 4.0442 0.0023895 590.852101053541 92.759 0.30006 93.011 92.856 93.156 0.25253 38 16 3 0 0 0 0.20966 2 42613 42613;42688 38.176 9.094 1 856960 15058 1641 9648 9669 17233;17234 17233 0.1076891923939911 KYLVIGDLLF 10 Unmodified _KYLVIGDLLF_ 0 0 0 ENST00000591770.1_1_17:76164697-76167257:+|nuORF;ENSG00000108639|ENST00000225777|SYNGR2;nc|ENSG00000108639|O43760-2|SYNGR2 ENST00000591770.1_1_17:76164697-76167257:+|nuORF ENST00000591770.1_1_17:76164697-76167257:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.8550415039062 2 590.85245 1179.69035 3.9233 0.0023181 0.40856 0.0002414 4.3319 0.0025595 590.8523678687908 92.166 0.3156 92.813 92.657 92.972 0.64715 32 13 3 0 0 0 0.20966 1 42398 42398 38.176 11.907 1 703140 15059 1641 9648 9669 17235 17235 0.1076891923939911 KYLVIGDLLF 10 Unmodified _KYLVIGDLLF_ 0 0 0 ENST00000591770.1_1_17:76164697-76167257:+|nuORF;ENSG00000108639|ENST00000225777|SYNGR2;nc|ENSG00000108639|O43760-2|SYNGR2 ENST00000591770.1_1_17:76164697-76167257:+|nuORF ENST00000591770.1_1_17:76164697-76167257:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 590.85245 1179.69035 3.0331 0.0017921 0.42578 0.00025157 3.4589 0.0020437 590.8530663641759 92.879 0.12646 92.879 92.806 92.932 0 -0.022276 0.00025826 NaN 38.176 17 14 2 NaN NaN NaN NaN 0 NaN NaN 0 6978100 15060 1641 9648 9669 0.1076891923939911 KYLYVDKNF 9 Unmodified _KYLYVDKNF_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 397.214111328125 3 397.213246 1188.61791 2.6313 0.0010452 -0.047843 -1.9004E-05 2.5835 0.0010262 397.2131561983843 39.156 0.35879 39.156 38.962 39.321 0 37 13 4 0 0 0 0.010904 2 17798 17739;17798 80.676 64.11 1 4205200 15061 1207 9649 9670 17236;17237 17237 0.031145851658493484 KYLYVDKNF 9 Unmodified _KYLYVDKNF_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 595.3186645507812 2 595.316232 1188.61791 3.4092 0.0020296 -0.039978 -2.3799E-05 3.3693 0.0020058 595.3161725963154 39.147 0.33511 39.147 38.962 39.297 0 30 12 3 0 0 0 4.6634E-54 2 17740 17740;17796 266.55 190.79 1 5240500 15062 1207 9649 9670 17238;17239 17238 0.031145851658493484 KYLYVDKNF 9 Unmodified _KYLYVDKNF_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 397.5489501953125 3 397.213246 1188.61791 2.6209 0.0010411 0.31024 0.00012323 2.9312 0.0011643 397.2132653709727 37.971 0.49809 38.766 38.588 39.087 0.79552 40 17 4 0 0 0 0.0084842 2 17184 17184;17246 84.522 62.932 1 3358000 15063 1207 9649 9670 17240;17241 17240 0.031145851658493484 KYLYVDKNF 9 Unmodified _KYLYVDKNF_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 595.3184204101562 2 595.316232 1188.61791 3.5328 0.0021032 0.66178 0.00039397 4.1946 0.0024971 595.3163242534491 37.969 0.28986 38.764 38.614 38.904 0.79552 27 9 4 0 0 0 3.3814E-30 2 17193 17193;17245 216.57 151.33 1 4202300 15064 1207 9649 9670 17242;17243 17242 0.031145851658493484 KYLYVDKNF 9 Unmodified _KYLYVDKNF_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 595.3191528320312 2 595.316232 1188.61791 3.6033 0.0021451 0.34221 0.00020372 3.9456 0.0023489 595.3164347248495 38.983 0.34824 39.247 39.058 39.406 0.26408 32 14 3 0 0 0 0.0018858 2 17714 17714;17770 114.19 64.253 1 1689600 15065 1207 9649 9670 17244;17245 17244 0.031145851658493484 KYLYVDKNF 9 Unmodified _KYLYVDKNF_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.2142333984375 3 397.213246 1188.61791 2.872 0.0011408 0.12101 4.8068E-05 2.993 0.0011889 397.2131713419524 38.982 0.45385 39.246 38.974 39.428 0.26408 51 18 4 0 0 0 0.022157 2 17715 17715;17772 65.474 48.908 1 2108900 15066 1207 9649 9670 17246;17247 17246 0.031145851658493484 KYLYVDKNF 9 Unmodified _KYLYVDKNF_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 595.3184814453125 2 595.316232 1188.61791 3.9032 0.0023236 0.17539 0.00010441 4.0786 0.0024281 595.3162853508619 38.543 0.35458 39.177 39.015 39.37 0.63388 32 12 3 0 0 0 0.0013215 2 17651 17591;17651 139.78 89.849 1 1098300 15067 1207 9649 9670 17248;17249 17249 0.031145851658493484 KYLYVDKNF 9 Unmodified _KYLYVDKNF_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.2142028808594 3 397.213246 1188.61791 2.8305 0.0011243 0.13899 5.521E-05 2.9695 0.0011795 397.21323970402364 38.555 0.32108 39.189 39.015 39.336 0.63388 31 11 3 0 0 0 0.035495 2 17664 17615;17664 53.404 38.999 1 726340 15068 1207 9649 9670 17250;17251 17251 0.031145851658493484 KYMDIEFDF 9 Unmodified _KYMDIEFDF_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B;ENST00000471904.1_1_2:192128111-192215016:+|nuORF;ENSG00000166866|ENST00000300119|MYO1A nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.6560668945312 2 604.270632 1206.52671 2.9138 0.0017607 0.90844 0.00054894 3.8222 0.0023096 604.2702801155228 77.545 0.31708 77.545 77.419 77.736 0 31 22 2 0 0 0 0.060268 1 37977 37977 29.841 15.935 1 1221900 15069 2521 9650 9671 17252 17252 -0.06829046593793464 KYMDIEFDF 9 Unmodified _KYMDIEFDF_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B;ENST00000471904.1_1_2:192128111-192215016:+|nuORF;ENSG00000166866|ENST00000300119|MYO1A nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 604.2689208984375 2 604.270632 1206.52671 2.8665 0.0017321 -0.55396 -0.00033474 2.3125 0.0013974 604.2702315349882 76.611 0.26209 77.235 77.115 77.377 0.62398 19 15 2 0 0 0 0.11155 1 37178 37178 29.841 15.002 1 888670 15070 2521 9650 9671 17253 17253 -0.06829046593793464 KYMDIEFDF 9 Unmodified _KYMDIEFDF_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B;ENST00000471904.1_1_2:192128111-192215016:+|nuORF;ENSG00000166866|ENST00000300119|MYO1A nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 604.26953125 2 604.270632 1206.52671 NaN NaN NaN NaN NaN NaN NaN 77.463 1 77.718 77.218 78.218 0.25533 0 0 0 0.26309 1 35674 35674 28.495 11.382 1 15071 2521 9650 9671 17254 17254 -0.06829046593793464 KYMDIEFDF 9 Unmodified _KYMDIEFDF_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B;ENST00000471904.1_1_2:192128111-192215016:+|nuORF;ENSG00000166866|ENST00000300119|MYO1A nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 604.2719116210938 2 604.270632 1206.52671 NaN NaN NaN NaN NaN NaN NaN 77.004 1 77.667 77.167 78.167 0.66303 0 0 0 0.12784 1 35484 35484 36.506 18.36 1 15072 2521 9650 9671 17255 17255 -0.06829046593793464 KYMDIEFDF 9 Oxidation (M) _KYM(Oxidation (M))DIEFDF_ KYM(1)DIEFDF KYM(42)DIEFDF 0 0 1 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B;ENST00000471904.1_1_2:192128111-192215016:+|nuORF;ENSG00000166866|ENST00000300119|MYO1A nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 612.2710571289062 2 612.26809 1222.52163 3.7676 0.0023068 0.1546 9.4654E-05 3.9222 0.0024014 612.2684356929508 67.304 0.24324 67.554 67.385 67.628 0.2501 21 15 2 0 0 0 0.063112 1 30794 30794 41.956 22.699 1 449290 15073 2521 9650 9672 17256 17256 35 -0.08073350456425032 KYMDINFDF 9 Unmodified _KYMDINFDF_ 0 0 0 ENSG00000136286|ENST00000258787|MYO1G;nc|ENSG00000136286|B0I1T2-2|MYO1G;ENST00000483585.5_1_7:45011810-45018578:-|nuORF;ENST00000480503.5_1_7:45014700-45018578:-|nuORF;nc|ENSG00000136286|B0I1T2-3|MYO1G;nc|ENSG00000136286|B0I1T2-4|MYO1G;ENSG00000176658|ENST00000318217|MYO1D ENSG00000136286|ENST00000258787|MYO1G ENSG00000136286|ENST00000258787|MYO1G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.7747192382812 2 596.7708 1191.52705 2.7666 0.001651 0.95179 0.000568 3.7184 0.002219 596.7714302944817 74.885 0.16861 74.885 74.861 75.03 0 24 17 2 0 0 0 0.063112 1 36704 36704 41.956 3.78 1 10688000 15074 2942 9651 9673 17257 17257 -0.06105626873932124 KYMDINFDF 9 Unmodified _KYMDINFDF_ 0 0 0 ENSG00000136286|ENST00000258787|MYO1G;nc|ENSG00000136286|B0I1T2-2|MYO1G;ENST00000483585.5_1_7:45011810-45018578:-|nuORF;ENST00000480503.5_1_7:45014700-45018578:-|nuORF;nc|ENSG00000136286|B0I1T2-3|MYO1G;nc|ENSG00000136286|B0I1T2-4|MYO1G;ENSG00000176658|ENST00000318217|MYO1D ENSG00000136286|ENST00000258787|MYO1G ENSG00000136286|ENST00000258787|MYO1G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 596.7705688476562 2 596.7708 1191.52705 3.0363 0.001812 -0.22042 -0.00013154 2.8159 0.0016805 596.7704884956588 73.894 0.204 74.581 74.522 74.726 0.68662 39 18 3 0 0 0 0.063112 1 35690 35690 41.956 3.78 1 3822900 15075 2942 9651 9673 17258 17258 -0.06105626873932124 KYMDINFDF 9 Unmodified _KYMDINFDF_ 0 0 0 ENSG00000136286|ENST00000258787|MYO1G;nc|ENSG00000136286|B0I1T2-2|MYO1G;ENST00000483585.5_1_7:45011810-45018578:-|nuORF;ENST00000480503.5_1_7:45014700-45018578:-|nuORF;nc|ENSG00000136286|B0I1T2-3|MYO1G;nc|ENSG00000136286|B0I1T2-4|MYO1G;ENSG00000176658|ENST00000318217|MYO1D ENSG00000136286|ENST00000258787|MYO1G ENSG00000136286|ENST00000258787|MYO1G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.2735595703125 2 596.7708 1191.52705 3.4345 0.0020496 -0.56041 -0.00033444 2.874 0.0017151 596.7703273278346 74.703 0.20232 74.961 74.829 75.031 0.2583 28 19 2 0 0 0 0.099775 1 34340 34340 32.786 3.7041 1 1002600 15076 2942 9651 9673 17259 17259 -0.06105626873932124 KYMDINFDF 9 Unmodified _KYMDINFDF_ 0 0 0 ENSG00000136286|ENST00000258787|MYO1G;nc|ENSG00000136286|B0I1T2-2|MYO1G;ENST00000483585.5_1_7:45011810-45018578:-|nuORF;ENST00000480503.5_1_7:45014700-45018578:-|nuORF;nc|ENSG00000136286|B0I1T2-3|MYO1G;nc|ENSG00000136286|B0I1T2-4|MYO1G;ENSG00000176658|ENST00000318217|MYO1D ENSG00000136286|ENST00000258787|MYO1G ENSG00000136286|ENST00000258787|MYO1G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 596.7736206054688 2 596.7708 1191.52705 3.5457 0.002116 -0.50928 -0.00030393 3.0364 0.0018121 596.7703830748455 74.237 0.194 74.902 74.766 74.96 0.6644 40 23 2 0 0 0 0.021401 2 34122 34122;34163 66.457 3.8866 1 1003100 15077 2942 9651 9673 17260;17261 17260 -0.06105626873932124 KYMDVQFDF 9 Oxidation (M) _KYM(Oxidation (M))DVQFDF_ KYM(1)DVQFDF KYM(93)DVQFDF 0 0 1 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;MYO1C|p.P889Lfs*40|1|0.02|ENSG00000197879|chr17:1468441-1468442|-/TTGCA|frameshift_variant;MYO1C|p.L335Sfs*4|1|0.24|ENSG00000197879|chr17:1479609-1479609|G/-|frameshift_variant nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.7696533203125 2 604.768257 1207.52196 3.3431 0.0020218 0.62656 0.00037893 3.9697 0.0024007 604.7685877332583 59.325 0.28659 59.325 59.239 59.525 0 54 24 3 0 0 0 0.004576 2 27453 27401;27453 92.653 23.548 1 3392500 15078 5847 9652 9674 17262;17263 17263 77 -0.07349930736563692 KYMDVQFDF 9 Oxidation (M) _KYM(Oxidation (M))DVQFDF_ KYM(1)DVQFDF KYM(66)DVQFDF 0 0 1 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;MYO1C|p.P889Lfs*40|1|0.02|ENSG00000197879|chr17:1468441-1468442|-/TTGCA|frameshift_variant;MYO1C|p.L335Sfs*4|1|0.24|ENSG00000197879|chr17:1479609-1479609|G/-|frameshift_variant nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 604.7711791992188 2 604.768257 1207.52196 3.1273 0.0018913 -0.38102 -0.00023043 2.7463 0.0016609 604.7680314609233 58.219 0.30904 58.987 58.859 59.168 0.76861 52 32 2 0 0 0 0.021401 1 26713 26713 66.457 12.624 1 2897500 15079 5847 9652 9674 17264 17264 77 -0.07349930736563692 KYMDVQFDF 9 Oxidation (M) _KYM(Oxidation (M))DVQFDF_ KYM(1)DVQFDF KYM(96)DVQFDF 0 0 1 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;MYO1C|p.P889Lfs*40|1|0.02|ENSG00000197879|chr17:1468441-1468442|-/TTGCA|frameshift_variant;MYO1C|p.L335Sfs*4|1|0.24|ENSG00000197879|chr17:1479609-1479609|G/-|frameshift_variant nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 604.770751953125 2 604.768257 1207.52196 3.6474 0.0022058 0.091542 5.5362E-05 3.7389 0.0022612 604.7681931527452 59.209 0.4076 59.468 59.213 59.62 0.2593 52 18 4 0 0 0 0.0029142 3 27103 27051;27103;27157 96.111 14.221 1 1519100 15080 5847 9652 9674 17265;17266;17267 17266 77 -0.07349930736563692 KYMDVQFDF 9 Oxidation (M) _KYM(Oxidation (M))DVQFDF_ KYM(1)DVQFDF KYM(83)DVQFDF 0 0 1 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;MYO1C|p.P889Lfs*40|1|0.02|ENSG00000197879|chr17:1468441-1468442|-/TTGCA|frameshift_variant;MYO1C|p.L335Sfs*4|1|0.24|ENSG00000197879|chr17:1479609-1479609|G/-|frameshift_variant nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 604.7703857421875 2 604.768257 1207.52196 3.812 0.0023054 0.065233 3.9451E-05 3.8772 0.0023448 604.7683876601052 58.59 0.44418 59.257 59.021 59.465 0.66703 40 18 3 0 0 0 0.0095519 2 26785 26785;26843 82.529 13.424 1 2090600 15081 5847 9652 9674 17268;17269 17268 77 -0.07349930736563692 KYMDVQFDF 9 Unmodified _KYMDVQFDF_ 0 0 0 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;MYO1C|p.P889Lfs*40|1|0.02|ENSG00000197879|chr17:1468441-1468442|-/TTGCA|frameshift_variant;MYO1C|p.L335Sfs*4|1|0.24|ENSG00000197879|chr17:1479609-1479609|G/-|frameshift_variant nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.7730102539062 2 596.7708 1191.52705 2.7355 0.0016325 0.65979 0.00039374 3.3953 0.0020262 596.7709584256212 69.206 0.25696 69.206 69.094 69.351 0 85 32 3 0 0 0 0.001377 2 33388 33333;33388 114.65 25.695 1 18683000 15082 5847 9652 9675 17270;17271 17271 -0.06105626873932124 KYMDVQFDF 9 Unmodified _KYMDVQFDF_ 0 0 0 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;MYO1C|p.P889Lfs*40|1|0.02|ENSG00000197879|chr17:1468441-1468442|-/TTGCA|frameshift_variant;MYO1C|p.L335Sfs*4|1|0.24|ENSG00000197879|chr17:1479609-1479609|G/-|frameshift_variant nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 596.77099609375 2 596.7708 1191.52705 2.8999 0.0017306 -0.33337 -0.00019894 2.5665 0.0015316 596.7705701319896 68.129 0.40985 68.832 68.683 69.093 0.70218 129 48 4 0 0 0 0.0013314 3 32423 32423;32477;32529 118.07 29.115 1 17062000 15083 5847 9652 9675 17272;17273;17274 17272 -0.06105626873932124 KYMDVQFDF 9 Unmodified _KYMDVQFDF_ 0 0 0 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;MYO1C|p.P889Lfs*40|1|0.02|ENSG00000197879|chr17:1468441-1468442|-/TTGCA|frameshift_variant;MYO1C|p.L335Sfs*4|1|0.24|ENSG00000197879|chr17:1479609-1479609|G/-|frameshift_variant nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 596.7735595703125 2 596.7708 1191.52705 3.9821 0.0023764 -0.71216 -0.000425 3.27 0.0019514 596.7706240721762 69.098 0.52645 69.352 69.176 69.702 0.25443 91 33 4 0 0 0 0.001731 4 31653 31611;31653;31701;31740 106.94 23.548 1 7895400 15084 5847 9652 9675 17275;17276;17277;17278 17276 -0.06105626873932124 KYMDVQFDF 9 Unmodified _KYMDVQFDF_ 0 0 0 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;MYO1C|p.P889Lfs*40|1|0.02|ENSG00000197879|chr17:1468441-1468442|-/TTGCA|frameshift_variant;MYO1C|p.L335Sfs*4|1|0.24|ENSG00000197879|chr17:1479609-1479609|G/-|frameshift_variant nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 596.7733764648438 2 596.7708 1191.52705 3.8618 0.0023046 -0.46131 -0.0002753 3.4004 0.0020293 596.7706178020063 68.598 0.43719 69.258 69.043 69.48 0.65925 104 30 4 0 0 0 0.001731 3 31392 31392;31442;31490 106.94 28.212 1 6640000 15085 5847 9652 9675 17279;17280;17281 17279 -0.06105626873932124 KYMDVVKERI 10 Unmodified _KYMDVVKERI_ 0 0 0 ENSG00000089737|ENST00000621632|DDX24;nc|ENSG00000089737|Q9GZR7-2|DDX24;ENST00000555762.1_1_14:94517539-94521656:-|nuORF ENSG00000089737|ENST00000621632|DDX24 ENSG00000089737|ENST00000621632|DDX24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 427.573974609375 3 427.572557 1279.69584 2.5672 0.0010977 -0.2371 -0.00010138 2.3301 0.0009963 427.57256824592906 34.17 0.23666 34.17 34.034 34.271 0 32 14 3 0 0 0 1.7918E-05 2 15496 15451;15496 96.24 56.845 1 4693500 15086 1049 9653 9676 17282;17283 17283 0.0671827475957798 KYMDVVKERI 10 Unmodified _KYMDVVKERI_ 0 0 0 ENSG00000089737|ENST00000621632|DDX24;nc|ENSG00000089737|Q9GZR7-2|DDX24;ENST00000555762.1_1_14:94517539-94521656:-|nuORF ENSG00000089737|ENST00000621632|DDX24 ENSG00000089737|ENST00000621632|DDX24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 427.57354736328125 3 427.572557 1279.69584 2.4153 0.0010327 -0.22722 -9.7152E-05 2.1881 0.00093557 427.5725872690505 33.101 0.29557 33.889 33.759 34.054 0.78795 67 19 4 0 0 0 0.0044619 2 15009 14957;15009 76.068 58.497 1 3326600 15087 1049 9653 9676 17284;17285 17285 0.0671827475957798 KYMDVVKERI 10 Unmodified _KYMDVVKERI_ 0 0 0 ENSG00000089737|ENST00000621632|DDX24;nc|ENSG00000089737|Q9GZR7-2|DDX24;ENST00000555762.1_1_14:94517539-94521656:-|nuORF ENSG00000089737|ENST00000621632|DDX24 ENSG00000089737|ENST00000621632|DDX24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 427.5735168457031 3 427.572557 1279.69584 2.9178 0.0012476 -0.56581 -0.00024193 2.352 0.0010056 427.572369205374 34.178 0.23898 34.432 34.277 34.516 0.25389 20 10 3 0 0 0 0.018392 1 15553 15553 66.617 38.435 1 2762800 15088 1049 9653 9676 17286 17286 0.0671827475957798 KYMDVVKERI 10 Unmodified _KYMDVVKERI_ 0 0 0 ENSG00000089737|ENST00000621632|DDX24;nc|ENSG00000089737|Q9GZR7-2|DDX24;ENST00000555762.1_1_14:94517539-94521656:-|nuORF ENSG00000089737|ENST00000621632|DDX24 ENSG00000089737|ENST00000621632|DDX24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 427.57373046875 3 427.572557 1279.69584 2.8905 0.0012359 -0.39131 -0.00016731 2.4992 0.0010686 427.572458365755 33.588 0.34535 34.208 34.021 34.366 0.62031 35 12 4 0 0 0 0.081644 2 15432 15373;15432 49.159 33.621 1 1702600 15089 1049 9653 9676 17287;17288 17288 0.0671827475957798 KYMETIEKL 9 Unmodified _KYMETIEKL_ 0 0 0 nc|ENSG00000162869|Q6ZMI0-4|PPP1R21;nc|ENSG00000162869|Q6ZMI0-3|PPP1R21;nc|ENSG00000162869|Q6ZMI0-5|PPP1R21;nc|ENSG00000162869|Q6ZMI0-2|PPP1R21;ENSG00000162869|ENST00000294952|PPP1R21 nc|ENSG00000162869|Q6ZMI0-4|PPP1R21 nc|ENSG00000162869|Q6ZMI0-4|PPP1R21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 577.8111572265625 2 577.809925 1153.6053 3.6966 0.002136 0.35166 0.00020319 4.0483 0.0023392 577.8093580907979 38.456 0.20752 38.456 38.356 38.563 0 16 9 2 0 0 0 0.0014285 1 17470 17470 110.79 46.832 1 605370 15090 4173 9654 9677 17289 17289 0.03463805711317036 KYMETIEKL 9 Unmodified _KYMETIEKL_ 0 0 0 nc|ENSG00000162869|Q6ZMI0-4|PPP1R21;nc|ENSG00000162869|Q6ZMI0-3|PPP1R21;nc|ENSG00000162869|Q6ZMI0-5|PPP1R21;nc|ENSG00000162869|Q6ZMI0-2|PPP1R21;ENSG00000162869|ENST00000294952|PPP1R21 nc|ENSG00000162869|Q6ZMI0-4|PPP1R21 nc|ENSG00000162869|Q6ZMI0-4|PPP1R21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.812255859375 2 577.809925 1153.6053 3.1745 0.0018342 -0.22183 -0.00012817 2.9526 0.0017061 577.8102484245201 38.355 0.15427 38.62 38.536 38.69 0.26408 7 4 2 0 0 0 0.044531 1 17481 17481 49.527 13.021 1 644950 15091 4173 9654 9677 17290 17290 0.03463805711317036 KYMETIEKL 9 Unmodified _KYMETIEKL_ 0 0 0 nc|ENSG00000162869|Q6ZMI0-4|PPP1R21;nc|ENSG00000162869|Q6ZMI0-3|PPP1R21;nc|ENSG00000162869|Q6ZMI0-5|PPP1R21;nc|ENSG00000162869|Q6ZMI0-2|PPP1R21;ENSG00000162869|ENST00000294952|PPP1R21 nc|ENSG00000162869|Q6ZMI0-4|PPP1R21 nc|ENSG00000162869|Q6ZMI0-4|PPP1R21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.8123779296875 2 577.809925 1153.6053 3.5538 0.0020534 0.4716 0.0002725 4.0254 0.0023259 578.3119831444059 37.773 0.25798 38.407 38.27 38.528 0.63388 19 8 3 0 0 0 0.056501 1 17272 17272 44.392 9.9902 1 386520 15092 4173 9654 9677 17291 17291 0.03463805711317036 KYMETIEKL 9 Unmodified _KYMETIEKL_ 0 0 0 nc|ENSG00000162869|Q6ZMI0-4|PPP1R21;nc|ENSG00000162869|Q6ZMI0-3|PPP1R21;nc|ENSG00000162869|Q6ZMI0-5|PPP1R21;nc|ENSG00000162869|Q6ZMI0-2|PPP1R21;ENSG00000162869|ENST00000294952|PPP1R21 nc|ENSG00000162869|Q6ZMI0-4|PPP1R21 nc|ENSG00000162869|Q6ZMI0-4|PPP1R21 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 577.809925 1153.6053 3.3974 0.0019631 0.11761 6.7957E-05 3.515 0.002031 578.3123766034544 37.352 0.2537 38.147 38.044 38.298 0.79552 -0.26004 -4.33E-05 NaN 110.79 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 583370 15093 4173 9654 9677 0.03463805711317036 KYMIEKIKF 9 Unmodified _KYMIEKIKF_ 0 0 0 REV__ENSG00000059588|ENST00000040877|TARBP1 REV__ENSG00000059588|ENST00000040877|TARBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.56793212890625 3 400.566744 1198.6784 3.0145 0.0012075 -0.47227 -0.00018917 2.5422 0.0010183 400.5666135476549 36.56 0.34091 36.817 36.65 36.991 0.25768 34 12 4 0 0 0 0.29024 1 16664 16664 17.443 0.87677 1 1164800 + 15094 10387 9655 9678 17292 17292 0.08700979224568073 KYMKEKLLF 9 Unmodified _KYMKEKLLF_ 0 0 0 ENST00000453153.6_2_2:170428583-170430242:-|nuORF ENST00000453153.6_2_2:170428583-170430242:-|nuORF ENST00000453153.6_2_2:170428583-170430242:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 400.5676574707031 3 400.566744 1198.6784 2.62 0.0010495 0.1964 7.8671E-05 2.8164 0.0011282 400.5668124593352 36.653 0.4031 36.653 36.461 36.865 0 57 18 4 0 0 0 0.020921 2 16616 16616;16670 67.081 35.069 1 2634400 15095 8031 9656 9679 17293;17294 17293 0.08700979224568073 KYMKEKLLF 9 Unmodified _KYMKEKLLF_ 0 0 0 ENST00000453153.6_2_2:170428583-170430242:-|nuORF ENST00000453153.6_2_2:170428583-170430242:-|nuORF ENST00000453153.6_2_2:170428583-170430242:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 600.8497314453125 2 600.346477 1198.6784 3.3737 0.0020254 0.43723 0.00026249 3.811 0.0022879 600.3466943728448 36.642 0.31434 36.642 36.487 36.801 0 18 14 2 0 0 0 0.047921 1 16629 16629 51.415 3.8208 1 506550 15096 8031 9656 9679 17295 17295 0.08700979224568073 KYMKEKLLF 9 Unmodified _KYMKEKLLF_ 0 0 0 ENST00000453153.6_2_2:170428583-170430242:-|nuORF ENST00000453153.6_2_2:170428583-170430242:-|nuORF ENST00000453153.6_2_2:170428583-170430242:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 400.5679016113281 3 400.566744 1198.6784 2.7621 0.0011064 0.33162 0.00013283 3.0937 0.0012392 400.5668109129876 35.618 0.41298 36.409 36.108 36.521 0.79131 47 21 4 0 0 0 0.01463 2 16120 16120;16175 75.571 41.349 1 2331100 15097 8031 9656 9679 17296;17297 17296 0.08700979224568073 KYMKEKLLF 9 Unmodified _KYMKEKLLF_ 0 0 0 ENST00000453153.6_2_2:170428583-170430242:-|nuORF ENST00000453153.6_2_2:170428583-170430242:-|nuORF ENST00000453153.6_2_2:170428583-170430242:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 600.346477 1198.6784 3.5857 0.0021527 -1.3021 -0.00078174 2.2836 0.0013709 600.3448071229016 35.616 0.16228 36.407 36.359 36.521 0.79131 -0.11748 -0.0016731 NaN 51.415 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 314630 15098 8031 9656 9679 0.08700979224568073 KYMKEKLLF 9 Unmodified _KYMKEKLLF_ 0 0 0 ENST00000453153.6_2_2:170428583-170430242:-|nuORF ENST00000453153.6_2_2:170428583-170430242:-|nuORF ENST00000453153.6_2_2:170428583-170430242:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 400.566744 1198.6784 3.0145 0.0012075 -0.47227 -0.00018917 2.5422 0.0010183 400.5666135476549 36.56 0.34091 36.817 36.65 36.991 0.25768 0.2058 -0.00071443 NaN 75.571 34 12 4 NaN NaN NaN NaN 0 NaN NaN 0 1164800 15099 8031 9656 9679 0.08700979224568073 KYMKEKLLF 9 Unmodified _KYMKEKLLF_ 0 0 0 ENST00000453153.6_2_2:170428583-170430242:-|nuORF ENST00000453153.6_2_2:170428583-170430242:-|nuORF ENST00000453153.6_2_2:170428583-170430242:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 400.566744 1198.6784 3.03 0.0012137 0.53334 0.00021364 3.5634 0.0014274 400.5666413995689 35.94 0.38824 36.567 36.341 36.729 0.62631 -0.044829 0.000494 NaN 75.571 27 13 3 NaN NaN NaN NaN 0 NaN NaN 0 649840 15100 8031 9656 9679 0.08700979224568073 KYMLKANLI 9 Unmodified _KYMLKANLI_ 0 0 0 nc|ENSG00000164134|Q9BXJ9-4|NAA15;ENSG00000164134|ENST00000296543|NAA15 nc|ENSG00000164134|Q9BXJ9-4|NAA15 nc|ENSG00000164134|Q9BXJ9-4|NAA15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.3270263671875 2 547.325545 1092.63654 NaN NaN NaN NaN NaN NaN NaN 45.448 1 45.448 44.948 45.948 0 0 0 0 0.0026425 1 20790 20790 96.285 46.352 1 15101 4287 9657 9680 17298 17298 0.09392423536064598 KYMLKANLI 9 Unmodified _KYMLKANLI_ 0 0 0 nc|ENSG00000164134|Q9BXJ9-4|NAA15;ENSG00000164134|ENST00000296543|NAA15 nc|ENSG00000164134|Q9BXJ9-4|NAA15 nc|ENSG00000164134|Q9BXJ9-4|NAA15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.3267822265625 2 547.325545 1092.63654 3.104 0.0016989 0.018408 1.0075E-05 3.1224 0.0017089 547.3256515356173 44.358 0.25048 45.179 45.047 45.297 0.82075 27 12 3 0 0 0 0.025135 1 20193 20193 68.081 25.986 1 646510 15102 4287 9657 9680 17299 17299 0.09392423536064598 KYMLKANLI 9 Unmodified _KYMLKANLI_ 0 0 0 nc|ENSG00000164134|Q9BXJ9-4|NAA15;ENSG00000164134|ENST00000296543|NAA15 nc|ENSG00000164134|Q9BXJ9-4|NAA15 nc|ENSG00000164134|Q9BXJ9-4|NAA15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.328857421875 2 547.325545 1092.63654 3.7035 0.002027 0.25849 0.00014148 3.962 0.0021685 547.3257513743854 44.652 0.27822 45.302 45.123 45.401 0.64998 14 10 2 0 0 0 0.0027913 1 20461 20461 108 53.223 1 478500 15103 4287 9657 9680 17300 17300 0.09392423536064598 KYMPNVKVAVF 11 Unmodified _KYMPNVKVAVF_ 0 0 0 ENSG00000198563|ENST00000396172|DDX39B;nc|ENSG00000198563|Q13838-2|DDX39B;DDX39B|p.A178*|1|0.23|ENSG00000198563|chr6:31536585-31536586|-/AG|frameshift_variant;ENST00000481456.1_1_6:31503008-31508408:-|nuORF ENSG00000198563|ENST00000396172|DDX39B ENSG00000198563|ENST00000396172|DDX39B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 648.36474609375 2 648.362659 1294.71076 3.584 0.0023237 0.29646 0.00019222 3.8804 0.0025159 648.3629418229519 52.407 0.21716 52.407 52.31 52.527 0 46 16 4 0 0 0 0.00017095 2 24030 23985;24030 83.429 71.188 1 2532000 15104 5901 9658 9681 17301;17302 17302 0.0751976662756988 KYMPNVKVAVF 11 Unmodified _KYMPNVKVAVF_ 0 0 0 ENSG00000198563|ENST00000396172|DDX39B;nc|ENSG00000198563|Q13838-2|DDX39B;DDX39B|p.A178*|1|0.23|ENSG00000198563|chr6:31536585-31536586|-/AG|frameshift_variant;ENST00000481456.1_1_6:31503008-31508408:-|nuORF ENSG00000198563|ENST00000396172|DDX39B ENSG00000198563|ENST00000396172|DDX39B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 432.5783996582031 3 432.577531 1294.71076 2.7913 0.0012075 -0.16428 -7.1063E-05 2.6271 0.0011364 432.57764256977055 52.418 0.25046 52.418 52.277 52.527 0 48 18 4 0 0 0 0.018813 2 23988 23988;24041 41.347 35.564 1 2329500 15105 5901 9658 9681 17303;17304 17303 0.0751976662756988 KYMPNVKVAVF 11 Unmodified _KYMPNVKVAVF_ 0 0 0 ENSG00000198563|ENST00000396172|DDX39B;nc|ENSG00000198563|Q13838-2|DDX39B;DDX39B|p.A178*|1|0.23|ENSG00000198563|chr6:31536585-31536586|-/AG|frameshift_variant;ENST00000481456.1_1_6:31503008-31508408:-|nuORF ENSG00000198563|ENST00000396172|DDX39B ENSG00000198563|ENST00000396172|DDX39B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.3655395507812 2 648.362659 1294.71076 3.0829 0.0019988 0.16253 0.00010538 3.2454 0.0021042 648.3628658306131 51.455 0.21466 52.273 52.187 52.402 0.81738 40 15 3 0 0 0 0.012675 2 23475 23421;23475 63.961 48.712 1 1692700 15106 5901 9658 9681 17305;17306 17306 0.0751976662756988 KYMPNVKVAVF 11 Unmodified _KYMPNVKVAVF_ 0 0 0 ENSG00000198563|ENST00000396172|DDX39B;nc|ENSG00000198563|Q13838-2|DDX39B;DDX39B|p.A178*|1|0.23|ENSG00000198563|chr6:31536585-31536586|-/AG|frameshift_variant;ENST00000481456.1_1_6:31503008-31508408:-|nuORF ENSG00000198563|ENST00000396172|DDX39B ENSG00000198563|ENST00000396172|DDX39B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.5789489746094 3 432.577531 1294.71076 2.2088 0.00095549 -0.13238 -5.7265E-05 2.0764 0.00089822 432.5776630851258 51.464 0.24664 52.281 52.155 52.402 0.81738 53 17 4 0 0 0 0.018813 2 23476 23422;23476 48.073 38.309 1 2148300 15107 5901 9658 9681 17307;17308 17308 0.0751976662756988 KYMPNVKVAVF 11 Unmodified _KYMPNVKVAVF_ 0 0 0 ENSG00000198563|ENST00000396172|DDX39B;nc|ENSG00000198563|Q13838-2|DDX39B;DDX39B|p.A178*|1|0.23|ENSG00000198563|chr6:31536585-31536586|-/AG|frameshift_variant;ENST00000481456.1_1_6:31503008-31508408:-|nuORF ENSG00000198563|ENST00000396172|DDX39B ENSG00000198563|ENST00000396172|DDX39B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 648.36474609375 2 648.362659 1294.71076 3.7214 0.0024128 -0.26343 -0.0001708 3.4579 0.002242 648.362746237099 52.14 0.28119 52.402 52.239 52.52 0.26227 31 16 3 0 0 0 4.609E-06 2 23804 23804;23852 96.367 79.254 1 1779800 15108 5901 9658 9681 17309;17310 17309 0.0751976662756988 KYMPNVKVAVF 11 Unmodified _KYMPNVKVAVF_ 0 0 0 ENSG00000198563|ENST00000396172|DDX39B;nc|ENSG00000198563|Q13838-2|DDX39B;DDX39B|p.A178*|1|0.23|ENSG00000198563|chr6:31536585-31536586|-/AG|frameshift_variant;ENST00000481456.1_1_6:31503008-31508408:-|nuORF ENSG00000198563|ENST00000396172|DDX39B ENSG00000198563|ENST00000396172|DDX39B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 432.5787048339844 3 432.577531 1294.71076 2.8475 0.0012318 0.067038 2.8999E-05 2.9146 0.0012608 432.5776477974675 52.147 0.31053 52.409 52.225 52.535 0.26228 38 18 3 0 0 0 0.5535 1 23858 23858 13.519 9.9316 1 1375800 15109 5901 9658 9681 17311 17311 0.0751976662756988 KYMPNVKVAVF 11 Unmodified _KYMPNVKVAVF_ 0 0 0 ENSG00000198563|ENST00000396172|DDX39B;nc|ENSG00000198563|Q13838-2|DDX39B;DDX39B|p.A178*|1|0.23|ENSG00000198563|chr6:31536585-31536586|-/AG|frameshift_variant;ENST00000481456.1_1_6:31503008-31508408:-|nuORF ENSG00000198563|ENST00000396172|DDX39B ENSG00000198563|ENST00000396172|DDX39B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 648.365234375 2 648.362659 1294.71076 3.7535 0.0024336 0.11033 7.1533E-05 3.8638 0.0025052 648.3627178465648 51.468 0.29842 52.128 51.989 52.288 0.65956 44 17 3 0 0 0 0.0026321 3 23547 23498;23547;23597 74.2 60.585 1 1082400 15110 5901 9658 9681 17312;17313;17314 17313 0.0751976662756988 KYMPNVKVAVF 11 Unmodified _KYMPNVKVAVF_ 0 0 0 ENSG00000198563|ENST00000396172|DDX39B;nc|ENSG00000198563|Q13838-2|DDX39B;DDX39B|p.A178*|1|0.23|ENSG00000198563|chr6:31536585-31536586|-/AG|frameshift_variant;ENST00000481456.1_1_6:31503008-31508408:-|nuORF ENSG00000198563|ENST00000396172|DDX39B ENSG00000198563|ENST00000396172|DDX39B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 432.5788879394531 3 432.577531 1294.71076 2.8735 0.001243 -0.2087 -9.0279E-05 2.6649 0.0011528 432.57747124941767 51.472 0.31142 52.131 51.976 52.288 0.65956 43 18 3 0 0 0 0.16104 2 23518 23518;23565 24.957 19.554 1 1170500 15111 5901 9658 9681 17315;17316 17315 0.0751976662756988 KYMPSVKVSVF 11 Unmodified _KYMPSVKVSVF_ 0 0 0 ENSG00000123136|ENST00000242776|DDX39A;nc|ENSG00000123136|O00148-3|DDX39A;ENST00000589318.5_1_19:14520811-14524032:-|nuORF;nc|ENSG00000123136|O00148-2|DDX39A ENSG00000123136|ENST00000242776|DDX39A ENSG00000123136|ENST00000242776|DDX39A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 642.8568115234375 2 642.854667 1283.69478 NaN NaN NaN NaN NaN NaN NaN 51.397 1 52.214 51.714 52.714 0.81738 0 0 0 0.57157 1 23413 23413 25.997 13.757 1 15112 2294 9659 9682 17317 17317 0.06428060390658175 KYMTAVVKL 9 Unmodified _KYMTAVVKL_ 0 0 0 ENSG00000051523|ENST00000261623|CYBA;ENST00000566534.5_1_16:88713161-88717421:-|nuORF ENSG00000051523|ENST00000261623|CYBA ENSG00000051523|ENST00000261623|CYBA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.81396484375 2 526.81227 1051.60999 3.1298 0.0016488 -0.46969 -0.00024744 2.6601 0.0014014 526.8121397821475 41.326 0.25218 41.326 41.198 41.45 0 83 34 3 0 0 0 6.2995E-15 2 18792 18746;18792 176.43 71.033 1 12075000 15113 589 9660 9683 17318;17319 17319 0.08624734644718046 KYMTAVVKL 9 Unmodified _KYMTAVVKL_ 0 0 0 ENSG00000051523|ENST00000261623|CYBA;ENST00000566534.5_1_16:88713161-88717421:-|nuORF ENSG00000051523|ENST00000261623|CYBA ENSG00000051523|ENST00000261623|CYBA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.5445861816406 3 351.543939 1051.60999 NaN NaN NaN NaN NaN NaN NaN 41.272 1 41.272 40.772 41.772 0 0 0 0 0.069424 1 18753 18753 37.075 23.169 1 15114 589 9660 9683 17320 17320 0.08624734644718046 KYMTAVVKL 9 Unmodified _KYMTAVVKL_ 0 0 0 ENSG00000051523|ENST00000261623|CYBA;ENST00000566534.5_1_16:88713161-88717421:-|nuORF ENSG00000051523|ENST00000261623|CYBA ENSG00000051523|ENST00000261623|CYBA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.8136596679688 2 526.81227 1051.60999 3.1756 0.0016729 -0.6393 -0.00033679 2.5363 0.0013362 526.8121838841229 40.444 0.25759 41.244 41.104 41.362 0.80014 51 16 4 0 0 0 4.5982E-22 2 18336 18294;18336 189.73 75.082 1 6581900 15115 589 9660 9683 17321;17322 17322 0.08624734644718046 KYMTAVVKL 9 Unmodified _KYMTAVVKL_ 0 0 0 ENSG00000051523|ENST00000261623|CYBA;ENST00000566534.5_1_16:88713161-88717421:-|nuORF ENSG00000051523|ENST00000261623|CYBA ENSG00000051523|ENST00000261623|CYBA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.544921875 3 351.543939 1051.60999 2.3178 0.00081481 0.32932 0.00011577 2.6471 0.00093058 351.54413962682924 40.448 0.24616 41.248 41.104 41.35 0.80014 34 15 3 0 0 0 0.029308 2 18355 18300;18355 43.982 30.076 1 2050700 15116 589 9660 9683 17323;17324 17324 0.08624734644718046 KYMTAVVKL 9 Unmodified _KYMTAVVKL_ 0 0 0 ENSG00000051523|ENST00000261623|CYBA;ENST00000566534.5_1_16:88713161-88717421:-|nuORF ENSG00000051523|ENST00000261623|CYBA ENSG00000051523|ENST00000261623|CYBA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.81396484375 2 526.81227 1051.60999 3.52 0.0018544 -0.43065 -0.00022687 3.0894 0.0016275 526.8120664846801 41.07 0.27007 41.339 41.197 41.467 0.26904 59 34 2 0 0 0 2.5366E-31 3 18658 18658;18701;18747 203.64 88.99 1 10100000 15117 589 9660 9683 17325;17326;17327 17325 0.08624734644718046 KYMTAVVKL 9 Unmodified _KYMTAVVKL_ 0 0 0 ENSG00000051523|ENST00000261623|CYBA;ENST00000566534.5_1_16:88713161-88717421:-|nuORF ENSG00000051523|ENST00000261623|CYBA ENSG00000051523|ENST00000261623|CYBA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.5448303222656 3 351.543939 1051.60999 NaN NaN NaN NaN NaN NaN NaN 41.002 1 41.271 40.771 41.771 0.26904 0 0 0 0.041263 1 18664 18664 43.982 24.725 1 15118 589 9660 9683 17328 17328 0.08624734644718046 KYMTAVVKL 9 Unmodified _KYMTAVVKL_ 0 0 0 ENSG00000051523|ENST00000261623|CYBA;ENST00000566534.5_1_16:88713161-88717421:-|nuORF ENSG00000051523|ENST00000261623|CYBA ENSG00000051523|ENST00000261623|CYBA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.54522705078125 3 351.543939 1051.60999 NaN NaN NaN NaN NaN NaN NaN 41.135 1 41.404 40.904 41.904 0.26904 0 0 0 0.041263 1 18729 18729 43.982 24.725 1 15119 589 9660 9683 17329 17329 0.08624734644718046 KYMTAVVKL 9 Unmodified _KYMTAVVKL_ 0 0 0 ENSG00000051523|ENST00000261623|CYBA;ENST00000566534.5_1_16:88713161-88717421:-|nuORF ENSG00000051523|ENST00000261623|CYBA ENSG00000051523|ENST00000261623|CYBA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.81396484375 2 526.81227 1051.60999 3.5135 0.0018509 -0.47878 -0.00025223 3.0347 0.0015987 526.8121822798997 40.457 0.27199 41.098 40.984 41.256 0.64136 71 27 3 0 0 0 4.5982E-22 3 18497 18452;18497;18544 189.73 81.157 1 7088400 15120 589 9660 9683 17330;17331;17332 17331 0.08624734644718046 KYMTAVVKL 9 Unmodified _KYMTAVVKL_ 0 0 0 ENSG00000051523|ENST00000261623|CYBA;ENST00000566534.5_1_16:88713161-88717421:-|nuORF ENSG00000051523|ENST00000261623|CYBA ENSG00000051523|ENST00000261623|CYBA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.5447998046875 3 351.543939 1051.60999 2.6772 0.00094117 -0.37882 -0.00013317 2.2984 0.00080799 351.54383472677716 40.433 0.18906 41.074 40.997 41.186 0.64136 27 20 2 0 0 0 0.048676 2 18503 18462;18503 37.075 23.292 1 2772300 15121 589 9660 9683 17333;17334 17334 0.08624734644718046 KYMVYPQTF 9 Unmodified _KYMVYPQTF_ 0 0 0 ENSG00000112996|ENST00000507110|MRPS30 ENSG00000112996|ENST00000507110|MRPS30 ENSG00000112996|ENST00000507110|MRPS30 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.2943115234375 2 588.791535 1175.56852 3.5503 0.0020904 -0.074605 -4.3927E-05 3.4757 0.0020464 588.7913900223534 52.933 0.24395 52.933 52.769 53.013 0 20 13 2 0 0 0 0.053453 1 24219 24219 45.7 34.059 1 294540 15122 1830 9661 9684 17335 17335 -0.012244461146110552 KYMVYPQTF 9 Unmodified _KYMVYPQTF_ 0 0 0 ENSG00000112996|ENST00000507110|MRPS30 ENSG00000112996|ENST00000507110|MRPS30 ENSG00000112996|ENST00000507110|MRPS30 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.7935791015625 2 588.791535 1175.56852 2.8349 0.0016692 -0.24767 -0.00014583 2.5872 0.0015234 588.7918066757131 51.818 0.15389 52.628 52.557 52.711 0.81066 13 10 2 0 0 0 0.029308 1 23611 23611 56.177 38.031 1 408620 15123 1830 9661 9684 17336 17336 -0.012244461146110552 KYMVYPQTF 9 Unmodified _KYMVYPQTF_ 0 0 0 ENSG00000112996|ENST00000507110|MRPS30 ENSG00000112996|ENST00000507110|MRPS30 ENSG00000112996|ENST00000507110|MRPS30 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.2975463867188 2 588.791535 1175.56852 3.4395 0.0020252 1.4165 0.00083405 4.8561 0.0028592 588.7919562145742 52.232 0.20886 52.894 52.778 52.987 0.66198 12 8 2 0 0 0 0.26277 1 23888 23888 19.257 10.512 1 281190 15124 1830 9661 9684 17337 17337 -0.012244461146110552 KYMVYPQTF 9 Unmodified _KYMVYPQTF_ 0 0 0 ENSG00000112996|ENST00000507110|MRPS30 ENSG00000112996|ENST00000507110|MRPS30 ENSG00000112996|ENST00000507110|MRPS30 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 588.791535 1175.56852 3.5923 0.0021151 0.52323 0.00030807 4.1155 0.0024232 588.7915328791346 52.643 0.15023 52.907 52.824 52.974 0.26344 0.066289 0.00018121 NaN 56.177 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 380010 15125 1830 9661 9684 -0.012244461146110552 KYMYFTVVM 9 Oxidation (M) _KYMYFTVVM(Oxidation (M))_ KYMYFTVVM(1) KYM(-61)YFTVVM(61) 0 0 1 ENSG00000139289|ENST00000266671|PHLDA1 ENSG00000139289|ENST00000266671|PHLDA1 ENSG00000139289|ENST00000266671|PHLDA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 599.2907104492188 2 599.287771 1196.56099 3.7487 0.0022465 0.0032681 1.9585E-06 3.7519 0.0022485 599.2882678980669 59.424 0.34969 59.683 59.569 59.919 0.2593 29 15 3 0 0 0 0.024388 1 27230 27230 62.573 24.397 2 706360 15126 3141 9662 9685 17338 17338 44 -0.029429217065398916 KYMYFTVVM 9 Oxidation (M) _KYMYFTVVM(Oxidation (M))_ KYMYFTVVM(1) KYM(-56)YFTVVM(56) 0 0 1 ENSG00000139289|ENST00000266671|PHLDA1 ENSG00000139289|ENST00000266671|PHLDA1 ENSG00000139289|ENST00000266671|PHLDA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 599.2908325195312 2 599.287771 1196.56099 3.9949 0.0023941 0.45639 0.00027351 4.4513 0.0026676 599.2877189591161 58.86 0.44312 59.527 59.289 59.732 0.66703 33 20 2 0 0 0 0.029308 1 26967 26967 56.177 23.391 2 422980 15127 3141 9662 9685 17339 17339 44 -0.029429217065398916 KYMYFTVVM 9 Unmodified _KYMYFTVVM_ 0 0 0 ENSG00000139289|ENST00000266671|PHLDA1 ENSG00000139289|ENST00000266671|PHLDA1 ENSG00000139289|ENST00000266671|PHLDA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.2928466796875 2 591.290314 1180.56607 3.3612 0.0019874 -0.64191 -0.00037955 2.7192 0.0016079 591.2901318413169 72.066 0.28639 72.325 72.193 72.48 0.25876 62 27 3 0 0 0 0.063575 2 33081 33036;33081 41.84 14.956 1 2138300 15128 3141 9662 9686 17340;17341 17341 -0.016986178439310606 KYMYFTVVM 9 Unmodified _KYMYFTVVM_ 0 0 0 ENSG00000139289|ENST00000266671|PHLDA1 ENSG00000139289|ENST00000266671|PHLDA1 ENSG00000139289|ENST00000266671|PHLDA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 591.2910766601562 2 591.290314 1180.56607 3.1148 0.0018417 -0.75563 -0.0004468 2.3592 0.0013949 591.2902080578984 71.684 0.31892 72.347 72.179 72.498 0.66324 51 18 4 0 0 0 0.043585 2 32827 32827;32883 49.933 20.865 1 2037700 15129 3141 9662 9686 17342;17343 17342 -0.016986178439310606 KYNANFVTF 9 Unmodified _KYNANFVTF_ 0 0 0 nc|ENSG00000173120|Q9Y2K7-3|KDM2A;ENSG00000173120|ENST00000529006|KDM2A;ENST00000527157.1_1_11:66888787-66947744:+|nuORF nc|ENSG00000173120|Q9Y2K7-3|KDM2A nc|ENSG00000173120|Q9Y2K7-3|KDM2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.2819213867188 2 552.279649 1102.54475 3.4793 0.0019215 0.15115 8.3475E-05 3.6304 0.002005 552.2796121450707 56.127 0.37455 56.127 55.891 56.266 0 76 27 4 0 0 0 0.0014044 3 25818 25778;25818;25865 112.59 74.442 1 5398400 15130 4915 9663 9687 17344;17345;17346 17345 -0.0024254355678294814 KYNANFVTF 9 Unmodified _KYNANFVTF_ 0 0 0 nc|ENSG00000173120|Q9Y2K7-3|KDM2A;ENSG00000173120|ENST00000529006|KDM2A;ENST00000527157.1_1_11:66888787-66947744:+|nuORF nc|ENSG00000173120|Q9Y2K7-3|KDM2A nc|ENSG00000173120|Q9Y2K7-3|KDM2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.2809448242188 2 552.279649 1102.54475 2.9018 0.0016026 0.18886 0.0001043 3.0906 0.0017069 552.2797109145664 55.075 0.37119 55.862 55.686 56.058 0.78711 68 25 3 0 0 0 0.0014044 3 25142 25095;25142;25186 112.59 74.442 1 5105300 15131 4915 9663 9687 17347;17348;17349 17348 -0.0024254355678294814 KYNANFVTF 9 Unmodified _KYNANFVTF_ 0 0 0 nc|ENSG00000173120|Q9Y2K7-3|KDM2A;ENSG00000173120|ENST00000529006|KDM2A;ENST00000527157.1_1_11:66888787-66947744:+|nuORF nc|ENSG00000173120|Q9Y2K7-3|KDM2A nc|ENSG00000173120|Q9Y2K7-3|KDM2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.2808837890625 2 552.279649 1102.54475 3.4798 0.0019218 -0.13983 -7.7227E-05 3.3399 0.0018446 552.2794162160127 56.132 0.3097 56.397 56.205 56.515 0.26543 29 12 3 0 0 0 0.0014044 2 25686 25636;25686 112.59 74.442 1 3486100 15132 4915 9663 9687 17350;17351 17351 -0.0024254355678294814 KYNANFVTF 9 Unmodified _KYNANFVTF_ 0 0 0 nc|ENSG00000173120|Q9Y2K7-3|KDM2A;ENSG00000173120|ENST00000529006|KDM2A;ENST00000527157.1_1_11:66888787-66947744:+|nuORF nc|ENSG00000173120|Q9Y2K7-3|KDM2A nc|ENSG00000173120|Q9Y2K7-3|KDM2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.2818603515625 2 552.279649 1102.54475 3.5366 0.0019532 0.24105 0.00013313 3.7777 0.0020863 552.2797368565098 55.389 0.38164 56.057 55.856 56.238 0.66798 40 15 3 0 0 0 0.0014044 2 25349 25305;25349 112.59 74.442 1 3293500 15133 4915 9663 9687 17352;17353 17353 -0.0024254355678294814 KYNDNFFGL 9 Unmodified _KYNDNFFGL_ 0 0 0 UBR7|p.N343Tfs*15|1|0.22|ENSG00000012963|chr14:93220313-93220313|A/-|frameshift_variant;ENSG00000012963|ENST00000013070|UBR7 UBR7|p.N343Tfs*15|1|0.22|ENSG00000012963|chr14:93220313-93220313|A/-|frameshift_variant UBR7|p.N343Tfs*15|1|0.22|ENSG00000012963|chr14:93220313-93220313|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.2699584960938 2 559.269281 1116.52401 3.8552 0.0021561 -1.6574 -0.00092693 2.1978 0.0012292 559.2682401939727 68.817 0.34908 69.072 68.903 69.252 0.25443 49 21 3 0 0 0 0.00081333 2 31550 31504;31550 128.37 70.894 1 1187600 15134 426 9664 9688 17354;17355 17355 -0.029591339364287705 KYNDNFFGL 9 Unmodified _KYNDNFFGL_ 0 0 0 UBR7|p.N343Tfs*15|1|0.22|ENSG00000012963|chr14:93220313-93220313|A/-|frameshift_variant;ENSG00000012963|ENST00000013070|UBR7 UBR7|p.N343Tfs*15|1|0.22|ENSG00000012963|chr14:93220313-93220313|A/-|frameshift_variant UBR7|p.N343Tfs*15|1|0.22|ENSG00000012963|chr14:93220313-93220313|A/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 559.269281 1116.52401 2.8472 0.0015923 -1.3854 -0.00077483 1.4617 0.00081751 559.2677567661522 68.847 0.21613 68.847 68.707 68.923 0 -0.087323 0.00049441 NaN 128.37 41 26 2 NaN NaN NaN NaN 0 NaN NaN 0 3293300 15135 426 9664 9688 -0.029591339364287705 KYNDTFWKEF 10 Unmodified _KYNDTFWKEF_ 0 0 0 ENST00000548462.5_1_12:104324233-104336580:+|nuORF;ENSG00000166598|ENST00000299767|HSP90B1;ENST00000551983.1_1_12:104335630-104337190:+|nuORF;nc|ENSG00000259706|Q58FF3|HSP90B2P ENST00000548462.5_1_12:104324233-104336580:+|nuORF;nc|ENSG00000259706|Q58FF3|HSP90B2P ENST00000548462.5_1_12:104324233-104336580:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 459.88824462890625 3 459.88731 1376.6401 2.4881 0.0011442 -0.0064369 -2.9603E-06 2.4816 0.0011413 459.8872773619255 57.695 0.20985 58.463 58.337 58.547 0.76861 42 16 3 0 0 0 0.20642 2 26422 26422;26478 38.559 33.511 1 2314800 15136 4496;9858 9665 9689 17356;17357 17356 -0.03315235156401286 KYNDTFWKEF 10 Unmodified _KYNDTFWKEF_ 0 0 0 ENST00000548462.5_1_12:104324233-104336580:+|nuORF;ENSG00000166598|ENST00000299767|HSP90B1;ENST00000551983.1_1_12:104335630-104337190:+|nuORF;nc|ENSG00000259706|Q58FF3|HSP90B2P ENST00000548462.5_1_12:104324233-104336580:+|nuORF;nc|ENSG00000259706|Q58FF3|HSP90B2P ENST00000548462.5_1_12:104324233-104336580:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 689.329833984375 2 689.327328 1376.6401 3.7907 0.002613 0.14093 9.7148E-05 3.9316 0.0027101 689.3270826153456 59.008 0.32765 59.268 59.065 59.393 0.2593 35 16 3 0 0 0 0.0063451 3 27025 26968;27025;27072 112.95 85.723 1 967250 15137 4496;9858 9665 9689 17358;17359;17360 17359 -0.03315235156401286 KYNDTFWKEF 10 Unmodified _KYNDTFWKEF_ 0 0 0 ENST00000548462.5_1_12:104324233-104336580:+|nuORF;ENSG00000166598|ENST00000299767|HSP90B1;ENST00000551983.1_1_12:104335630-104337190:+|nuORF;nc|ENSG00000259706|Q58FF3|HSP90B2P ENST00000548462.5_1_12:104324233-104336580:+|nuORF;nc|ENSG00000259706|Q58FF3|HSP90B2P ENST00000548462.5_1_12:104324233-104336580:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 459.8890075683594 3 459.88731 1376.6401 2.7473 0.0012635 0.15641 7.193E-05 2.9037 0.0013354 459.88737020662967 58.994 0.29098 59.253 59.084 59.375 0.2593 28 14 2 0 0 0 0.53087 1 27042 27042 19.987 14.939 1 681040 15138 4496;9858 9665 9689 17361 17361 -0.03315235156401286 KYNDTFWKEF 10 Unmodified _KYNDTFWKEF_ 0 0 0 ENST00000548462.5_1_12:104324233-104336580:+|nuORF;ENSG00000166598|ENST00000299767|HSP90B1;ENST00000551983.1_1_12:104335630-104337190:+|nuORF;nc|ENSG00000259706|Q58FF3|HSP90B2P ENST00000548462.5_1_12:104324233-104336580:+|nuORF;nc|ENSG00000259706|Q58FF3|HSP90B2P ENST00000548462.5_1_12:104324233-104336580:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 689.8316650390625 2 689.327328 1376.6401 3.9835 0.0027459 0.21976 0.00015149 4.2032 0.0028974 689.8288926201907 58.364 0.24479 59.031 58.972 59.217 0.66703 28 14 3 0 0 0 9.9145E-06 1 26726 26726 146.48 100.74 1 2377600 15139 4496;9858 9665 9689 17362 17362 -0.03315235156401286 KYNDTFWKEF 10 Unmodified _KYNDTFWKEF_ 0 0 0 ENST00000548462.5_1_12:104324233-104336580:+|nuORF;ENSG00000166598|ENST00000299767|HSP90B1;ENST00000551983.1_1_12:104335630-104337190:+|nuORF;nc|ENSG00000259706|Q58FF3|HSP90B2P ENST00000548462.5_1_12:104324233-104336580:+|nuORF;nc|ENSG00000259706|Q58FF3|HSP90B2P ENST00000548462.5_1_12:104324233-104336580:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 459.8890380859375 3 459.88731 1376.6401 2.9272 0.0013462 -0.042257 -1.9434E-05 2.8849 0.0013267 459.8872663240779 58.386 0.1693 59.053 59.015 59.184 0.66703 20 9 3 0 0 0 0.53087 1 26759 26759 19.987 14.939 1 827020 15140 4496;9858 9665 9689 17363 17363 -0.03315235156401286 KYNHLNLFLF 10 Unmodified _KYNHLNLFLF_ 0 0 0 ENSG00000103335|ENST00000301015|PIEZO1 ENSG00000103335|ENST00000301015|PIEZO1 ENSG00000103335|ENST00000301015|PIEZO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.798828125 3 436.908157 1307.70264 NaN NaN NaN NaN NaN NaN NaN 73.139 1 73.837 73.337 74.337 0.69881 0 0 0 0.99741 1 35250 35250 3.8763 2.1341 1 15141 1391 9666 9690 17364 17364 0.061099557024363094 KYNKILNKY 9 Unmodified _KYNKILNKY_ 0 0 0 ENSG00000134516|ENST00000520908|DOCK2;ENST00000523351.5_1_5:169188379-169509859:+|nuORF ENSG00000134516|ENST00000520908|DOCK2 ENSG00000134516|ENST00000520908|DOCK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 395.2340393066406 3 395.232641 1182.67609 2.6691 0.0010549 -0.017268 -6.825E-06 2.6518 0.0010481 395.2327859572572 17.532 0.16504 17.532 17.447 17.612 0 11 9 2 0 0 0 0.3144 1 7773 7773 10.8 3.1906 1 125520 15142 2814 9667 9691 17365 17365 0.09206266811133901 KYNPTWHCI 9 Carbamidomethyl (C) _KYNPTWHC(Carbamidomethyl (C))I_ KYNPTWHC(1)I KYNPTWHC(73)I 0 1 0 ENST00000552316.1_1_12:120935833-120936010:+|nuORF;ENSG00000264364|ENST00000579991|DYNLL2;ENSG00000088986|ENST00000242577|DYNLL1 ENST00000552316.1_1_12:120935833-120936010:+|nuORF ENST00000552316.1_1_12:120935833-120936010:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 609.7915649414062 2 609.789858 1217.56516 3.3606 0.0020493 0.41794 0.00025485 3.7785 0.0023041 609.7900720796796 33.933 0.24602 33.933 33.769 34.015 0 23 14 2 0 0 0 0.016529 1 15365 15365 72.968 45.339 1 1615700 15143 1023 9668 9692 17366 17366 20 -0.034916961686121795 KYNPTWHCI 9 Carbamidomethyl (C) _KYNPTWHC(Carbamidomethyl (C))I_ KYNPTWHC(1)I KYNPTWHC(48)I 0 1 0 ENST00000552316.1_1_12:120935833-120936010:+|nuORF;ENSG00000264364|ENST00000579991|DYNLL2;ENSG00000088986|ENST00000242577|DYNLL1 ENST00000552316.1_1_12:120935833-120936010:+|nuORF ENST00000552316.1_1_12:120935833-120936010:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 609.7910766601562 2 609.789858 1217.56516 3.0961 0.001888 0.28073 0.00017118 3.3769 0.0020592 609.7900360955324 32.809 0.21943 33.597 33.447 33.666 0.78795 28 16 2 0 0 0 0.049036 1 14852 14852 47.594 36.1 1 469360 15144 1023 9668 9692 17367 17367 20 -0.034916961686121795 KYNPTWHCI 9 Carbamidomethyl (C) _KYNPTWHC(Carbamidomethyl (C))I_ KYNPTWHC(1)I KYNPTWHC(48)I 0 1 0 ENST00000552316.1_1_12:120935833-120936010:+|nuORF;ENSG00000264364|ENST00000579991|DYNLL2;ENSG00000088986|ENST00000242577|DYNLL1 ENST00000552316.1_1_12:120935833-120936010:+|nuORF ENST00000552316.1_1_12:120935833-120936010:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 609.7922973632812 2 609.789858 1217.56516 3.5785 0.0021821 -0.18245 -0.00011126 3.3961 0.0020709 609.7896250033857 33.898 0.28959 34.152 34.009 34.298 0.25389 31 13 3 0 0 0 0.048676 1 15471 15471 47.749 38.205 1 668400 15145 1023 9668 9692 17368 17368 20 -0.034916961686121795 KYNPTWHCI 9 Carbamidomethyl (C) _KYNPTWHC(Carbamidomethyl (C))I_ KYNPTWHC(1)I KYNPTWHC(50)I 0 1 0 ENST00000552316.1_1_12:120935833-120936010:+|nuORF;ENSG00000264364|ENST00000579991|DYNLL2;ENSG00000088986|ENST00000242577|DYNLL1 ENST00000552316.1_1_12:120935833-120936010:+|nuORF ENST00000552316.1_1_12:120935833-120936010:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 609.79150390625 2 609.789858 1217.56516 3.4768 0.0021201 0.22619 0.00013793 3.703 0.002258 609.789903185409 33.411 0.35531 34.031 33.84 34.195 0.62031 28 14 3 0 0 0 0.044468 1 15334 15334 49.554 38.73 1 723730 15146 1023 9668 9692 17369 17369 20 -0.034916961686121795 KYNRISREW 9 Unmodified _KYNRISREW_ 0 0 0 ENST00000436669.1_1_20:5273036-5273120:-|nuORF;ENSG00000109332|ENST00000453744|UBE2D3;nc|ENSG00000109332|P61077-3|UBE2D3 ENST00000436669.1_1_20:5273036-5273120:-|nuORF ENST00000436669.1_1_20:5273036-5273120:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 417.892578125 3 417.891278 1250.652 2.8508 0.0011913 0.75528 0.00031563 3.6061 0.001507 417.8913080444631 18.542 0.24491 18.542 18.422 18.667 0 18 14 2 0 0 0 0.7383 1 8233 8233 8.4443 3.2459 1 166810 15147 1676 9669 9693 17370 17370 0.03670426377448166 KYPASTVQI 9 Unmodified _KYPASTVQI_ 0 0 0 ENST00000484998.5_1_20:2635830-2636687:+|nuORF;ENST00000480992.5_1_20:2635438-2636687:+|nuORF;ENSG00000101361|ENST00000329276|NOP56 ENST00000484998.5_1_20:2635830-2636687:+|nuORF ENST00000484998.5_1_20:2635830-2636687:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 503.7822265625 2 503.782025 1005.5495 3.092 0.0015577 0.13329 6.7147E-05 3.2253 0.0016248 503.7820098674728 37.088 0.47694 37.088 36.767 37.244 0 31 19 2 0 0 0 0.034495 1 16826 16826 53.833 5.4869 1 511650 15148 1289 9670 9694 17371 17371 0.04694340585979262 KYPASTVQI 9 Unmodified _KYPASTVQI_ 0 0 0 ENST00000484998.5_1_20:2635830-2636687:+|nuORF;ENST00000480992.5_1_20:2635438-2636687:+|nuORF;ENSG00000101361|ENST00000329276|NOP56 ENST00000484998.5_1_20:2635830-2636687:+|nuORF ENST00000484998.5_1_20:2635830-2636687:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.78485107421875 2 503.782025 1005.5495 3.1694 0.0015967 -0.34719 -0.00017491 2.8222 0.0014218 503.7821584802599 35.966 0.31939 36.757 36.606 36.925 0.79131 24 12 3 0 0 0 0.078225 1 16299 16299 38.176 5.8701 1 546390 15149 1289 9670 9694 17372 17372 0.04694340585979262 KYPASTVQI 9 Unmodified _KYPASTVQI_ 0 0 0 ENST00000484998.5_1_20:2635830-2636687:+|nuORF;ENST00000480992.5_1_20:2635438-2636687:+|nuORF;ENSG00000101361|ENST00000329276|NOP56 ENST00000484998.5_1_20:2635830-2636687:+|nuORF ENST00000484998.5_1_20:2635830-2636687:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 503.782025 1005.5495 3.3023 0.0016636 0.84242 0.0004244 4.1447 0.002088 503.78219316370144 36.891 0.3838 37.149 36.929 37.313 0.25768 0.17631 0.00060372 NaN 53.833 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 251140 15150 1289 9670 9694 0.04694340585979262 KYPDAVATW 9 Unmodified _KYPDAVATW_ 0 0 0 ENST00000509659.5_1_4:88898870-88904045:+|nuORF;nc|ENSG00000118785|P10451-5|SPP1;ENSG00000118785|ENST00000395080|SPP1;ENST00000505146.1_1_4:88898047-88901296:+|nuORF;ENST00000508002.5_1_4:88896921-88901631:+|nuORF;CON__P31096;nc|ENSG00000118785|P10451-4|SPP1 ENST00000509659.5_1_4:88898870-88904045:+|nuORF ENST00000509659.5_1_4:88898870-88904045:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 525.5723266601562 2 525.766374 1049.5182 NaN NaN NaN NaN NaN NaN NaN 47.702 1 47.702 47.202 48.202 0 0 0 0 0.041263 1 21843 21843 56.177 10.156 1 15151 8545 9671 9695 17373 17373 -0.004582324481134492 KYPDAVATW 9 Unmodified _KYPDAVATW_ 0 0 0 ENST00000509659.5_1_4:88898870-88904045:+|nuORF;nc|ENSG00000118785|P10451-5|SPP1;ENSG00000118785|ENST00000395080|SPP1;ENST00000505146.1_1_4:88898047-88901296:+|nuORF;ENST00000508002.5_1_4:88896921-88901631:+|nuORF;CON__P31096;nc|ENSG00000118785|P10451-4|SPP1 ENST00000509659.5_1_4:88898870-88904045:+|nuORF ENST00000509659.5_1_4:88898870-88904045:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.7673950195312 2 525.766374 1049.5182 NaN NaN NaN NaN NaN NaN NaN 47.723 1 47.987 47.487 48.487 0.26363 0 0 0 0.23029 1 21814 21814 29.841 7.1043 1 15152 8545 9671 9695 17374 17374 -0.004582324481134492 KYPDAVATW 9 Unmodified _KYPDAVATW_ 0 0 0 ENST00000509659.5_1_4:88898870-88904045:+|nuORF;nc|ENSG00000118785|P10451-5|SPP1;ENSG00000118785|ENST00000395080|SPP1;ENST00000505146.1_1_4:88898047-88901296:+|nuORF;ENST00000508002.5_1_4:88896921-88901631:+|nuORF;CON__P31096;nc|ENSG00000118785|P10451-4|SPP1 ENST00000509659.5_1_4:88898870-88904045:+|nuORF ENST00000509659.5_1_4:88898870-88904045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.7692260742188 2 525.766374 1049.5182 3.2473 0.0017073 0.057476 3.0219E-05 3.3047 0.0017375 525.7664612698304 47.076 0.27143 47.728 47.666 47.938 0.65219 22 15 2 0 0 0 0.22824 1 21584 21584 21.537 1.0834 1 478770 15153 8545 9671 9695 17375 17375 -0.004582324481134492 KYPDIISRI 9 Unmodified _KYPDIISRI_ 0 0 0 nc|ENSG00000105486|P18858-2|LIG1;nc|ENSG00000105486|P18858-3|LIG1;ENSG00000105486|ENST00000263274|LIG1 nc|ENSG00000105486|P18858-2|LIG1 nc|ENSG00000105486|P18858-2|LIG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.8261108398438 2 552.824224 1103.63389 3.7717 0.0020851 0.20625 0.00011402 3.9779 0.0021991 552.8243192901701 50.863 0.86316 50.863 50.626 51.489 0 75 45 2 0 0 0 0.076469 5 23333 23186;23255;23333;23383;23457 38.615 10.348 1 1072100 15154 1501 9672 9696 17376;17377;17378;17379;17380 17378 0.08622291402753035 KYPDIISRI 9 Unmodified _KYPDIISRI_ 0 0 0 nc|ENSG00000105486|P18858-2|LIG1;nc|ENSG00000105486|P18858-3|LIG1;ENSG00000105486|ENST00000263274|LIG1 nc|ENSG00000105486|P18858-2|LIG1 nc|ENSG00000105486|P18858-2|LIG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.826171875 2 552.824224 1103.63389 3.3292 0.0018404 0.13052 7.2154E-05 3.4597 0.0019126 552.8244272189055 50.107 0.94141 50.93 50.428 51.37 0.82285 80 45 2 0 0 0 0.063112 3 22803 22745;22803;22877 41.956 11.319 1 482050 15155 1501 9672 9696 17381;17382;17383 17382 0.08622291402753035 KYPDIISRI 9 Unmodified _KYPDIISRI_ 0 0 0 nc|ENSG00000105486|P18858-2|LIG1;nc|ENSG00000105486|P18858-3|LIG1;ENSG00000105486|ENST00000263274|LIG1 nc|ENSG00000105486|P18858-2|LIG1 nc|ENSG00000105486|P18858-2|LIG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.824951171875 2 552.824224 1103.63389 3.469 0.0019177 0.66614 0.00036826 4.1351 0.002286 552.8245705484021 50.045 0.91879 50.702 50.419 51.338 0.65735 57 41 2 0 0 0 0.21127 4 22937 22937;22994;23065;23123 22.658 7.8198 1 333010 15156 1501 9672 9696 17384;17385;17386;17387 17384 0.08622291402753035 KYPDIISRI 9 Unmodified _KYPDIISRI_ 0 0 0 nc|ENSG00000105486|P18858-2|LIG1;nc|ENSG00000105486|P18858-3|LIG1;ENSG00000105486|ENST00000263274|LIG1 nc|ENSG00000105486|P18858-2|LIG1 nc|ENSG00000105486|P18858-2|LIG1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 552.824224 1103.63389 3.4512 0.0019079 0.62851 0.00034746 4.0797 0.0022554 552.8245359200753 50.873 0.51977 51.134 50.76 51.279 0.26146 0.2271 0.00028284 NaN 41.956 42 24 2 NaN NaN NaN NaN 0 NaN NaN 0 330290 15157 1501 9672 9696 0.08622291402753035 KYPDRVPVI 9 Unmodified _KYPDRVPVI_ 0 0 0 ENSG00000170296|ENST00000302386|GABARAP;ENSG00000139112|ENST00000266458|GABARAPL1;nc|ENSG00000139112|Q9H0R8-2|GABARAPL1;ENSG00000034713|ENST00000037243|GABARAPL2 ENSG00000170296|ENST00000302386|GABARAP ENSG00000170296|ENST00000302386|GABARAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.8213500976562 2 543.818941 1085.62333 3.5269 0.001918 0.37998 0.00020664 3.9069 0.0021246 543.8191560442224 40.807 0.54147 40.807 40.598 41.139 0 79 34 3 0 0 0 0.0014317 5 18535 18481;18535;18580;18624;18686 110.55 51.874 1 2376300 15158 3126 9673 9697 17388;17389;17390;17391;17392 17389 0.08394308748324875 KYPDRVPVI 9 Unmodified _KYPDRVPVI_ 0 0 0 ENSG00000170296|ENST00000302386|GABARAP;ENSG00000139112|ENST00000266458|GABARAPL1;nc|ENSG00000139112|Q9H0R8-2|GABARAPL1;ENSG00000034713|ENST00000037243|GABARAPL2 ENSG00000170296|ENST00000302386|GABARAP ENSG00000170296|ENST00000302386|GABARAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.2166442871094 3 362.88172 1085.62333 2.6713 0.00096935 0.75296 0.00027324 3.4242 0.0012426 362.88194312226864 40.799 0.50489 40.799 40.649 41.153 0 73 32 3 0 0 0 0.27958 1 18500 18500 17.443 6.5437 1 2703600 15159 3126 9673 9697 17393 17393 0.08394308748324875 KYPDRVPVI 9 Unmodified _KYPDRVPVI_ 0 0 0 ENSG00000170296|ENST00000302386|GABARAP;ENSG00000139112|ENST00000266458|GABARAPL1;nc|ENSG00000139112|Q9H0R8-2|GABARAPL1;ENSG00000034713|ENST00000037243|GABARAPL2 ENSG00000170296|ENST00000302386|GABARAP ENSG00000170296|ENST00000302386|GABARAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.8209838867188 2 543.818941 1085.62333 3.1213 0.0016974 0.11318 6.1549E-05 3.2345 0.001759 543.8189505223722 40.075 0.62216 40.875 40.428 41.051 0.80014 68 40 2 0 0 0 0.026853 5 18116 18018;18071;18116;18160;18189 59.368 24.967 1 2042400 15160 3126 9673 9697 17394;17395;17396;17397;17398 17396 0.08394308748324875 KYPDRVPVI 9 Unmodified _KYPDRVPVI_ 0 0 0 ENSG00000170296|ENST00000302386|GABARAP;ENSG00000139112|ENST00000266458|GABARAPL1;nc|ENSG00000139112|Q9H0R8-2|GABARAPL1;ENSG00000034713|ENST00000037243|GABARAPL2 ENSG00000170296|ENST00000302386|GABARAP ENSG00000170296|ENST00000302386|GABARAP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.4777221679688 2 543.818941 1085.62333 NaN NaN NaN NaN NaN NaN NaN 39.661 1 40.461 39.961 40.961 0.80014 0 0 0 0.77475 1 17956 17956 10.074 0 1 15161 3126 9673 9697 17399 17399 0.08394308748324875 KYPDRVPVI 9 Unmodified _KYPDRVPVI_ 0 0 0 ENSG00000170296|ENST00000302386|GABARAP;ENSG00000139112|ENST00000266458|GABARAPL1;nc|ENSG00000139112|Q9H0R8-2|GABARAPL1;ENSG00000034713|ENST00000037243|GABARAPL2 ENSG00000170296|ENST00000302386|GABARAP ENSG00000170296|ENST00000302386|GABARAP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.88232421875 3 362.88172 1085.62333 2.3683 0.00085942 0.032699 1.1866E-05 2.401 0.00087129 362.8816750217769 40.076 0.92643 40.876 40.178 41.104 0.80014 93 57 3 0 0 0 0.073073 1 18145 18145 19.362 10.617 1 2988100 15162 3126 9673 9697 17400 17400 0.08394308748324875 KYPDRVPVI 9 Unmodified _KYPDRVPVI_ 0 0 0 ENSG00000170296|ENST00000302386|GABARAP;ENSG00000139112|ENST00000266458|GABARAPL1;nc|ENSG00000139112|Q9H0R8-2|GABARAPL1;ENSG00000034713|ENST00000037243|GABARAPL2 ENSG00000170296|ENST00000302386|GABARAP ENSG00000170296|ENST00000302386|GABARAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.8211669921875 2 543.818941 1085.62333 3.6069 0.0019615 0.23618 0.00012844 3.8431 0.00209 543.8192306589027 40.681 0.73843 40.95 40.435 41.173 0.26904 78 35 3 0 0 0 0.0020791 6 18497 18341;18398;18453;18497;18547;18595 103.35 35.273 1 2060600 15163 3126 9673 9697 17401;17402;17403;17404;17405;17406 17404 0.08394308748324875 KYPDRVPVI 9 Unmodified _KYPDRVPVI_ 0 0 0 ENSG00000170296|ENST00000302386|GABARAP;ENSG00000139112|ENST00000266458|GABARAPL1;nc|ENSG00000139112|Q9H0R8-2|GABARAPL1;ENSG00000034713|ENST00000037243|GABARAPL2 ENSG00000170296|ENST00000302386|GABARAP ENSG00000170296|ENST00000302386|GABARAP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.8832092285156 3 362.88172 1085.62333 2.7966 0.0010148 0.85337 0.00030967 3.65 0.0013245 362.881902865318 40.712 0.76661 40.981 40.406 41.173 0.26904 85 36 3 0 0 0 0.08754 1 18478 18478 20.581 13.951 1 2008000 15164 3126 9673 9697 17407 17407 0.08394308748324875 KYPDRVPVI 9 Unmodified _KYPDRVPVI_ 0 0 0 ENSG00000170296|ENST00000302386|GABARAP;ENSG00000139112|ENST00000266458|GABARAPL1;nc|ENSG00000139112|Q9H0R8-2|GABARAPL1;ENSG00000034713|ENST00000037243|GABARAPL2 ENSG00000170296|ENST00000302386|GABARAP ENSG00000170296|ENST00000302386|GABARAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.8190307617188 2 543.818941 1085.62333 3.7089 0.002017 0.27693 0.0001506 3.9858 0.0021676 543.819198888699 40.187 0.53596 40.828 40.355 40.891 0.64136 34 24 2 0 0 0 0.0057865 3 18298 18223;18298;18367 90.135 38.836 1 3301500 15165 3126 9673 9697 17408;17409;17410 17409 0.08394308748324875 KYPDRVPVI 9 Unmodified _KYPDRVPVI_ 0 0 0 ENSG00000170296|ENST00000302386|GABARAP;ENSG00000139112|ENST00000266458|GABARAPL1;nc|ENSG00000139112|Q9H0R8-2|GABARAPL1;ENSG00000034713|ENST00000037243|GABARAPL2 ENSG00000170296|ENST00000302386|GABARAP ENSG00000170296|ENST00000302386|GABARAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.88299560546875 3 362.88172 1085.62333 2.7979 0.0010153 0.65092 0.00023621 3.4488 0.0012515 362.88187427942046 40.211 0.6371 40.853 40.254 40.891 0.64135 45 28 2 0 0 0 0.19064 1 18350 18350 17.443 9.9656 1 3670400 15166 3126 9673 9697 17411 17411 0.08394308748324875 KYPENFFLL 9 Unmodified _KYPENFFLL_ 0 0 0 nc|ENSG00000172531|P62136-3|PPP1CA;ENSG00000186298|ENST00000335007|PPP1CC;ENSG00000213639|ENST00000395366|PPP1CB;ENSG00000172531|ENST00000376745|PPP1CA;ENST00000526510.5_1_11:67166008-67168740:-|nuORF;nc|ENSG00000186298|P36873-2|PPP1CC;nc|ENSG00000172531|P62136-2|PPP1CA;ENST00000532446.5_1_11:67166008-67168991:-|nuORF nc|ENSG00000172531|P62136-3|PPP1CA nc|ENSG00000172531|P62136-3|PPP1CA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.8148193359375 2 585.813325 1169.6121 3.0054 0.0017606 0.41622 0.00024383 3.4217 0.0020045 585.8133913904517 81.723 0.68799 81.723 81.249 81.937 0 111 52 3 0 0 0 0.0029142 6 40803 40495;40556;40625;40683;40748;40803 96.111 24.977 1 17469000 15167 4877 9674 9698 17412;17413;17414;17415;17416;17417 17417 0.03407486654191416 KYPENFFLL 9 Unmodified _KYPENFFLL_ 0 0 0 nc|ENSG00000172531|P62136-3|PPP1CA;ENSG00000186298|ENST00000335007|PPP1CC;ENSG00000213639|ENST00000395366|PPP1CB;ENSG00000172531|ENST00000376745|PPP1CA;ENST00000526510.5_1_11:67166008-67168740:-|nuORF;nc|ENSG00000186298|P36873-2|PPP1CC;nc|ENSG00000172531|P62136-2|PPP1CA;ENST00000532446.5_1_11:67166008-67168991:-|nuORF nc|ENSG00000172531|P62136-3|PPP1CA nc|ENSG00000172531|P62136-3|PPP1CA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.8162231445312 2 585.813325 1169.6121 3.0099 0.0017633 0.15414 9.0295E-05 3.1641 0.0018536 585.813391597428 82.025 0.2428 82.025 81.943 82.186 0 57 30 3 0 0 0 0.010018 1 40957 40957 81.89 10.757 1 28583000 15168 4877 9674 9698 17418 17418 0.03407486654191416 KYPENFFLL 9 Unmodified _KYPENFFLL_ 0 0 0 nc|ENSG00000172531|P62136-3|PPP1CA;ENSG00000186298|ENST00000335007|PPP1CC;ENSG00000213639|ENST00000395366|PPP1CB;ENSG00000172531|ENST00000376745|PPP1CA;ENST00000526510.5_1_11:67166008-67168740:-|nuORF;nc|ENSG00000186298|P36873-2|PPP1CC;nc|ENSG00000172531|P62136-2|PPP1CA;ENST00000532446.5_1_11:67166008-67168991:-|nuORF nc|ENSG00000172531|P62136-3|PPP1CA nc|ENSG00000172531|P62136-3|PPP1CA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.8154296875 2 585.813325 1169.6121 2.5832 0.0015133 0.48072 0.00028161 3.064 0.0017949 585.8135168589079 80.951 1.2668 81.119 80.517 81.783 0.16862 286 105 3 0 0 0 0.0079462 11 39433 39433;39482;39541;39594;39660;39735;39788;39854;39920;39992;40052 85.642 24.284 1 20584000 15169 4877 9674 9698 17419;17420;17421;17422;17423;17424;17425;17426;17427;17428;17429 17419 0.03407486654191416 KYPENFFLL 9 Unmodified _KYPENFFLL_ 0 0 0 nc|ENSG00000172531|P62136-3|PPP1CA;ENSG00000186298|ENST00000335007|PPP1CC;ENSG00000213639|ENST00000395366|PPP1CB;ENSG00000172531|ENST00000376745|PPP1CA;ENST00000526510.5_1_11:67166008-67168740:-|nuORF;nc|ENSG00000186298|P36873-2|PPP1CC;nc|ENSG00000172531|P62136-2|PPP1CA;ENST00000532446.5_1_11:67166008-67168991:-|nuORF nc|ENSG00000172531|P62136-3|PPP1CA nc|ENSG00000172531|P62136-3|PPP1CA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.3179931640625 2 585.813325 1169.6121 3.3464 0.0019604 0.46092 0.00027001 3.8073 0.0022304 585.8135075273805 81.997 1.7568 82.244 81.44 83.197 0.24722 357 106 4 0 0 0 0.0079462 14 37545 37429;37487;37545;37594;37631;37677;37726;37771;37815;37866;37909;37966;38017;38063 85.642 23.492 1 15767000 15170 4877 9674 9698 17430;17431;17432;17433;17434;17435;17436;17437;17438;17439;17440;17441;17442;17443 17432 0.03407486654191416 KYPENFFLL 9 Unmodified _KYPENFFLL_ 0 0 0 nc|ENSG00000172531|P62136-3|PPP1CA;ENSG00000186298|ENST00000335007|PPP1CC;ENSG00000213639|ENST00000395366|PPP1CB;ENSG00000172531|ENST00000376745|PPP1CA;ENST00000526510.5_1_11:67166008-67168740:-|nuORF;nc|ENSG00000186298|P36873-2|PPP1CC;nc|ENSG00000172531|P62136-2|PPP1CA;ENST00000532446.5_1_11:67166008-67168991:-|nuORF nc|ENSG00000172531|P62136-3|PPP1CA nc|ENSG00000172531|P62136-3|PPP1CA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.8150634765625 2 585.813325 1169.6121 3.6172 0.002119 0.12756 7.4724E-05 3.7447 0.0021937 585.8133045862473 81.341 1.6243 82.001 81.224 82.848 0.65998 378 105 4 0 0 0 0.0079462 14 37428 37170;37220;37276;37331;37381;37428;37474;37523;37567;37612;37659;37717;37765;37824 85.642 24.284 1 14722000 15171 4877 9674 9698 17444;17445;17446;17447;17448;17449;17450;17451;17452;17453;17454;17455;17456;17457 17449 0.03407486654191416 KYPHLVAGA 9 Unmodified _KYPHLVAGA_ 0 0 0 ENSG00000176978|ENST00000371579|DPP7 ENSG00000176978|ENST00000371579|DPP7 ENSG00000176978|ENST00000371579|DPP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.2729187011719 2 478.271627 954.528701 3.0415 0.0014546 -0.095716 -4.5778E-05 2.9457 0.0014089 478.27165522225795 40.867 0.39529 40.867 40.649 41.044 0 48 24 3 0 0 0 0.26001 1 18627 18627 19.439 0 1 1131000 15172 5095 9675 9699 17458 17458 0.04961794996984281 KYPHYFPLL 9 Unmodified _KYPHYFPLL_ 0 0 0 ENSG00000172009|ENST00000307741|THOP1 ENSG00000172009|ENST00000307741|THOP1 ENSG00000172009|ENST00000307741|THOP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.324951171875 2 589.32386 1176.63317 NaN NaN NaN NaN NaN NaN NaN 63.452 1 64.11 63.61 64.61 0.65809 0 0 0 0.097886 1 29078 29078 42.095 20.348 1 15173 4851 9676 9700 17459 17459 0.05191496753695901 KYPHYFPVM 9 Unmodified _KYPHYFPVM_ 0 0 0 ENST00000506677.1_1_5:65076017-65081739:+|nuORF;ENST00000506539.5_1_5:65018131-65088776:+|nuORF;ENSG00000123213|ENST00000380985|NLN ENST00000506677.1_1_5:65076017-65081739:+|nuORF ENST00000506677.1_1_5:65076017-65081739:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.2968139648438 2 591.294245 1180.57394 3.5187 0.0020806 0.048864 2.8893E-05 3.5676 0.0021095 591.2946641526496 51.777 0.49915 51.777 51.4 51.899 0 64 32 3 0 0 0 0.02631 4 23700 23591;23638;23700;23750 67.344 51.497 1 844360 15174 2300 9677 9701 17460;17461;17462;17463 17462 -0.009127225321435617 KYPHYFPVM 9 Unmodified _KYPHYFPVM_ 0 0 0 ENST00000506677.1_1_5:65076017-65081739:+|nuORF;ENST00000506539.5_1_5:65018131-65088776:+|nuORF;ENSG00000123213|ENST00000380985|NLN ENST00000506677.1_1_5:65076017-65081739:+|nuORF ENST00000506677.1_1_5:65076017-65081739:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.5331726074219 3 394.531922 1180.57394 2.4036 0.00094831 -0.076446 -3.016E-05 2.3272 0.00091815 394.8663818093131 50.604 0.4212 51.422 51.322 51.743 0.81738 52 22 4 0 0 0 0.22824 2 23052 23052;23150 21.537 16.134 1 1333000 15175 2300 9677 9701 17464;17465 17464 -0.009127225321435617 KYPHYFPVM 9 Unmodified _KYPHYFPVM_ 0 0 0 ENST00000506677.1_1_5:65076017-65081739:+|nuORF;ENST00000506539.5_1_5:65018131-65088776:+|nuORF;ENSG00000123213|ENST00000380985|NLN ENST00000506677.1_1_5:65076017-65081739:+|nuORF ENST00000506677.1_1_5:65076017-65081739:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.296142578125 2 591.294245 1180.57394 3.4666 0.0020498 -0.2386 -0.00014108 3.228 0.0019087 591.2942154384954 51.622 0.25185 51.884 51.744 51.995 0.26227 23 13 2 0 0 0 0.053453 2 23561 23561;23615 57.471 41.624 1 491790 15176 2300 9677 9701 17466;17467 17466 -0.009127225321435617 KYPHYFPVM 9 Unmodified _KYPHYFPVM_ 0 0 0 ENST00000506677.1_1_5:65076017-65081739:+|nuORF;ENST00000506539.5_1_5:65018131-65088776:+|nuORF;ENSG00000123213|ENST00000380985|NLN ENST00000506677.1_1_5:65076017-65081739:+|nuORF ENST00000506677.1_1_5:65076017-65081739:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.5325012207031 3 394.531922 1180.57394 2.8044 0.0011064 -0.39928 -0.00015753 2.4051 0.00094888 394.5315964449563 51.549 0.38513 51.812 51.61 51.995 0.26227 27 19 2 0 0 0 0.55815 1 23591 23591 11.495 6.1978 1 757670 15177 2300 9677 9701 17468 17468 -0.009127225321435617 KYPHYFPVM 9 Unmodified _KYPHYFPVM_ 0 0 0 ENST00000506677.1_1_5:65076017-65081739:+|nuORF;ENST00000506539.5_1_5:65018131-65088776:+|nuORF;ENSG00000123213|ENST00000380985|NLN ENST00000506677.1_1_5:65076017-65081739:+|nuORF ENST00000506677.1_1_5:65076017-65081739:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 591.2955932617188 2 591.294245 1180.57394 3.5826 0.0021184 0.22747 0.0001345 3.8101 0.0022529 591.2943771742465 51.017 0.30589 51.677 51.485 51.791 0.65956 27 17 2 0 0 0 0.057945 2 23341 23280;23341 57.471 41.624 1 492770 15178 2300 9677 9701 17469;17470 17470 -0.009127225321435617 KYPHYFPVM 9 Unmodified _KYPHYFPVM_ 0 0 0 ENST00000506677.1_1_5:65076017-65081739:+|nuORF;ENST00000506539.5_1_5:65018131-65088776:+|nuORF;ENSG00000123213|ENST00000380985|NLN ENST00000506677.1_1_5:65076017-65081739:+|nuORF ENST00000506677.1_1_5:65076017-65081739:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 394.531922 1180.57394 2.6957 0.0010635 0.030994 1.2228E-05 2.7267 0.0010758 394.5319018346694 51.803 0.59607 51.803 51.35 51.946 0 0.16252 1.2804E-05 NaN 21.537 75 39 3 NaN NaN NaN NaN 0 NaN NaN 0 792410 15179 2300 9677 9701 -0.009127225321435617 KYPHYFPVM 9 Unmodified _KYPHYFPVM_ 0 0 0 ENST00000506677.1_1_5:65076017-65081739:+|nuORF;ENST00000506539.5_1_5:65018131-65088776:+|nuORF;ENSG00000123213|ENST00000380985|NLN ENST00000506677.1_1_5:65076017-65081739:+|nuORF ENST00000506677.1_1_5:65076017-65081739:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 591.294245 1180.57394 3.2762 0.0019372 0.15429 9.1229E-05 3.4305 0.0020284 591.2943197622195 50.615 0.27868 51.432 51.364 51.643 0.81738 -0.26022 0.00012528 NaN 67.344 23 14 2 NaN NaN NaN NaN 0 NaN NaN 0 513030 15180 2300 9677 9701 -0.009127225321435617 KYPHYFPVM 9 Unmodified _KYPHYFPVM_ 0 0 0 ENST00000506677.1_1_5:65076017-65081739:+|nuORF;ENST00000506539.5_1_5:65018131-65088776:+|nuORF;ENSG00000123213|ENST00000380985|NLN ENST00000506677.1_1_5:65076017-65081739:+|nuORF ENST00000506677.1_1_5:65076017-65081739:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 394.531922 1180.57394 2.7002 0.0010653 0.41234 0.00016268 3.1126 0.001228 394.5320701157612 50.867 0.3564 51.526 51.435 51.791 0.65956 -0.11435 0.00046416 NaN 21.537 33 20 2 NaN NaN NaN NaN 0 NaN NaN 0 575860 15181 2300 9677 9701 -0.009127225321435617 KYPKEELH 8 Unmodified _KYPKEELH_ 0 0 0 REV__ENSG00000146587|ENST00000396912|RBAK REV__ENSG00000146587|ENST00000396912|RBAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.52294921875 3 348.522192 1042.54475 2.3283 0.00081146 0.69275 0.00024144 3.021 0.0010529 348.52240143226584 17.792 0.51458 18.093 17.771 18.285 0.30158 91 39 3 0 0 0 0.73203 1 8117 8117 3.2813 0 1 397900 + 15182 12478 9678 9702 17471 17471 0.025174564432290936 KYPKFDGLVS 10 Unmodified _KYPKFDGLVS_ 0 0 0 REV__ENSG00000124713|ENST00000372808|GNMT REV__ENSG00000124713|ENST00000372808|GNMT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.3187255859375 2 577.316232 1152.61791 NaN NaN NaN NaN NaN NaN NaN 50.881 1 51.54 51.04 52.04 0.65956 0 0 0 0.97944 1 23266 23266 8.7454 0.83525 1 + 15183 11665 9679 9703 17472 17472 0.04770585165852026 KYPKVWEGF 9 Unmodified _KYPKVWEGF_ 0 0 0 ENSG00000125755|ENST00000245934|SYMPK;ENST00000598364.1_1_19:46318820-46320367:-|nuORF;ENST00000598155.5_1_19:46318820-46327397:-|nuORF ENSG00000125755|ENST00000245934|SYMPK ENSG00000125755|ENST00000245934|SYMPK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 577.3087768554688 2 577.305667 1152.59678 3.7887 0.0021872 -1.1098 -0.00064068 2.6789 0.0015465 577.3043874185039 51.527 0.35976 51.527 51.35 51.71 0 39 20 3 0 0 0 0.0090098 3 23608 23564;23608;23628 83.429 58.438 1 1138200 15184 2420 9680 9704 17473;17474;17475 17474 0.026586198569930275 KYPKVWEGF 9 Unmodified _KYPKVWEGF_ 0 0 0 ENSG00000125755|ENST00000245934|SYMPK;ENST00000598364.1_1_19:46318820-46320367:-|nuORF;ENST00000598155.5_1_19:46318820-46327397:-|nuORF ENSG00000125755|ENST00000245934|SYMPK ENSG00000125755|ENST00000245934|SYMPK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.3040771484375 2 577.305667 1152.59678 3.302 0.0019063 -0.37779 -0.0002181 2.9242 0.0016882 577.3053363827821 50.568 0.26529 51.385 51.202 51.467 0.81738 25 12 3 0 0 0 0.020338 2 23004 23004;23048 67.838 43.818 1 1765700 15185 2420 9680 9704 17476;17477 17476 0.026586198569930275 KYPKVWEGF 9 Unmodified _KYPKVWEGF_ 0 0 0 ENSG00000125755|ENST00000245934|SYMPK;ENST00000598364.1_1_19:46318820-46320367:-|nuORF;ENST00000598155.5_1_19:46318820-46327397:-|nuORF ENSG00000125755|ENST00000245934|SYMPK ENSG00000125755|ENST00000245934|SYMPK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.30712890625 2 577.305667 1152.59678 3.1805 0.0018361 -0.0075032 -4.3316E-06 3.173 0.0018318 577.3058962501058 51.588 0.24673 51.85 51.722 51.969 0.26227 29 12 3 0 0 0 0.020338 1 23567 23567 67.838 50.725 1 854640 15186 2420 9680 9704 17478 17478 0.026586198569930275 KYPKVWEGF 9 Unmodified _KYPKVWEGF_ 0 0 0 ENSG00000125755|ENST00000245934|SYMPK;ENST00000598364.1_1_19:46318820-46320367:-|nuORF;ENST00000598155.5_1_19:46318820-46327397:-|nuORF ENSG00000125755|ENST00000245934|SYMPK ENSG00000125755|ENST00000245934|SYMPK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.3086547851562 2 577.305667 1152.59678 3.5105 0.0020266 -0.81997 -0.00047337 2.6906 0.0015533 577.3047876163394 50.935 0.25229 51.595 51.485 51.738 0.65956 26 14 3 0 0 0 0.026853 3 23278 23270;23278;23334 59.368 42.255 1 704350 15187 2420 9680 9704 17479;17480;17481 17480 0.026586198569930275 KYPLLISRI 9 Unmodified _KYPLLISRI_ 0 0 0 nc|ENSG00000116584|Q92974-3|ARHGEF2;nc|ENSG00000116584|Q92974-2|ARHGEF2;ENSG00000116584|ENST00000361247|ARHGEF2;ENST00000474428.6_1_1:155922555-155932010:-|nuORF;ENST00000608543.1_1_1:155931890-155932010:-|nuORF nc|ENSG00000116584|Q92974-3|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.8533325195312 2 551.852784 1101.69102 3.0075 0.0016597 1.6675 0.0009202 4.675 0.0025799 552.355325000007 53.673 0.57056 54.477 54.436 55.007 0.8035 40 29 2 0 0 0 0.29024 1 24649 24649 17.443 3.0373 1 906130 15188 2034 9681 9705 17482 17482 0.14423758679117782 KYPLLISRI 9 Unmodified _KYPLLISRI_ 0 0 0 nc|ENSG00000116584|Q92974-3|ARHGEF2;nc|ENSG00000116584|Q92974-2|ARHGEF2;ENSG00000116584|ENST00000361247|ARHGEF2;ENST00000474428.6_1_1:155922555-155932010:-|nuORF;ENST00000608543.1_1_1:155931890-155932010:-|nuORF nc|ENSG00000116584|Q92974-3|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 551.8551025390625 2 551.852784 1101.69102 3.3217 0.0018331 0.2713 0.00014972 3.593 0.0019828 551.8528278339132 54.531 0.18684 54.797 54.724 54.911 0.26543 14 7 2 0 0 0 0.47677 1 24956 24956 12.873 2.722 1 251980 15189 2034 9681 9705 17483 17483 0.14423758679117782 KYPLLLQSI 9 Unmodified _KYPLLLQSI_ 0 0 0 ENSG00000076928|ENST00000354532|ARHGEF1;nc|ENSG00000076928|Q92888-3|ARHGEF1;ENST00000600274.5_1_19:42396347-42410935:+|nuORF;nc|ENSG00000076928|Q92888-2|ARHGEF1;ENST00000595897.5_1_19:42402462-42407822:+|nuORF;nc|ENSG00000076928|Q92888-4|ARHGEF1 ENSG00000076928|ENST00000354532|ARHGEF1 ENSG00000076928|ENST00000354532|ARHGEF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.8323974609375 2 537.831517 1073.64848 NaN NaN NaN NaN NaN NaN NaN 71.165 1 71.422 70.922 71.922 0.25786 0 0 0 0.45908 1 32597 32597 20.454 2.3186 1 15190 852 9682 9706 17484 17484 0.11460363550895636 KYPLNLYLL 9 Unmodified _KYPLNLYLL_ 0 0 0 ENSG00000155957|ENST00000358230|TMBIM4 ENSG00000155957|ENST00000358230|TMBIM4 ENSG00000155957|ENST00000358230|TMBIM4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.8427734375 2 568.839342 1135.66413 3.2822 0.0018671 0.051143 2.9092E-05 3.3334 0.0018961 569.3406648856709 80.023 0.45435 80.273 79.985 80.439 0.24947 49 29 2 0 0 0 0.078225 2 36808 36808;36887 50.855 16.668 1 479670 15191 3885 9683 9707 17485;17486 17485 0.10172650067920586 KYPNVFKKI 9 Unmodified _KYPNVFKKI_ 0 0 0 nc|ENSG00000168710|O43865-2|AHCYL1;ENSG00000168710|ENST00000369799|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.5663757324219 3 379.565732 1135.67537 2.936 0.0011144 -0.36732 -0.00013942 2.5687 0.000975 379.5655730053888 31.123 0.44631 31.123 30.943 31.389 0 98 42 3 0 0 0 0.049036 4 14152 14081;14098;14125;14152 47.594 39.439 1 763930 15192 4648 9684 9708 17487;17488;17489;17490 17490 0.11295472162078113 KYPNVFKKI 9 Unmodified _KYPNVFKKI_ 0 0 0 nc|ENSG00000168710|O43865-2|AHCYL1;ENSG00000168710|ENST00000369799|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.56646728515625 3 379.565732 1135.67537 2.9042 0.0011023 -0.81207 -0.00030823 2.0922 0.00079412 379.5652903205272 31.795 0.74515 31.795 31.389 32.134 0 92 68 2 0 0 0 0.035495 3 14220 14220;14312;14424 53.404 42.604 1 578240 15193 4648 9684 9708 17491;17492;17493 17491 0.11295472162078113 KYPNVFKKI 9 Unmodified _KYPNVFKKI_ 0 0 0 nc|ENSG00000168710|O43865-2|AHCYL1;ENSG00000168710|ENST00000369799|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.56634521484375 3 379.565732 1135.67537 2.5695 0.0009753 -0.13541 -5.1398E-05 2.4341 0.0009239 379.56562973238243 29.887 0.44759 30.676 30.581 31.029 0.78921 59 41 2 0 0 0 0.063112 3 13459 13459;13504;13548 41.956 41.956 1 662720 15194 4648 9684 9708 17494;17495;17496 17494 0.11295472162078113 KYPNVFKKI 9 Unmodified _KYPNVFKKI_ 0 0 0 nc|ENSG00000168710|O43865-2|AHCYL1;ENSG00000168710|ENST00000369799|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.5666198730469 3 379.565732 1135.67537 2.5746 0.00097723 -0.8111 -0.00030787 1.7635 0.00066936 379.5653422292773 30.832 0.89898 31.621 31.028 31.927 0.78879 130 70 2 0 0 0 0.049036 6 13902 13725;13769;13835;13902;13948;14001 47.594 39.439 1 458430 15195 4648 9684 9708 17497;17498;17499;17500;17501;17502 17500 0.11295472162078113 KYPNVFKKI 9 Unmodified _KYPNVFKKI_ 0 0 0 nc|ENSG00000168710|O43865-2|AHCYL1;ENSG00000168710|ENST00000369799|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.5667724609375 3 379.565732 1135.67537 3.1974 0.0012136 -0.31463 -0.00011942 2.8827 0.0010942 379.5655186897643 30.788 0.62947 31.045 30.544 31.174 0.25614 75 49 2 0 0 0 0.27615 2 13857 13857;14044 18.373 13.476 1 528360 15196 4648 9684 9708 17503;17504 17503 0.11295472162078113 KYPNVFKKI 9 Unmodified _KYPNVFKKI_ 0 0 0 nc|ENSG00000168710|O43865-2|AHCYL1;ENSG00000168710|ENST00000369799|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.5668029785156 3 379.565732 1135.67537 NaN NaN NaN NaN NaN NaN NaN 30.956 1 31.212 30.712 31.712 0.25614 0 0 0 0.23029 1 14089 14089 29.841 21.685 1 15197 4648 9684 9708 17505 17505 0.11295472162078113 KYPNVFKKI 9 Unmodified _KYPNVFKKI_ 0 0 0 nc|ENSG00000168710|O43865-2|AHCYL1;ENSG00000168710|ENST00000369799|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.5662841796875 3 379.565732 1135.67537 2.7308 0.0010365 -0.26808 -0.00010175 2.4627 0.00093476 379.5656359784545 30.404 1.2016 31.022 30.657 31.858 0.61737 137 79 2 0 0 0 0.063112 5 13981 13981;14036;14072;14128;14152 41.956 30.461 1 733180 15198 4648 9684 9708 17506;17507;17508;17509;17510 17506 0.11295472162078113 KYPNVFKKI 9 Unmodified _KYPNVFKKI_ 0 0 0 nc|ENSG00000168710|O43865-2|AHCYL1;ENSG00000168710|ENST00000369799|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 379.565732 1135.67537 3.2815 0.0012455 -0.51481 -0.0001954 2.7667 0.0010501 379.56552332692314 31.37 0.71204 31.627 31.337 32.049 0.25614 -0.054175 0.00022151 NaN 53.404 96 55 2 NaN NaN NaN NaN 0 NaN NaN 0 436540 15199 4648 9684 9708 0.11295472162078113 KYPNVKMHF 9 Unmodified _KYPNVKMHF_ 0 0 0 nc|ENSG00000117009|O15229-3|KMO;nc|ENSG00000117009|O15229-2|KMO;ENSG00000117009|ENST00000366559|KMO nc|ENSG00000117009|O15229-3|KMO nc|ENSG00000117009|O15229-3|KMO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 388.8744201660156 3 388.539188 1162.59573 2.7288 0.0010603 -0.52952 -0.00020574 2.1993 0.00085451 388.53882681581644 32.294 0.36987 32.294 32.216 32.586 0 38 27 2 0 0 0 0.24524 1 14678 14678 20.415 15.518 1 428190 15200 2058 9685 9709 17511 17511 0.020940822164448036 KYPNVKMHF 9 Unmodified _KYPNVKMHF_ 0 0 0 nc|ENSG00000117009|O15229-3|KMO;nc|ENSG00000117009|O15229-2|KMO;ENSG00000117009|ENST00000366559|KMO nc|ENSG00000117009|O15229-3|KMO nc|ENSG00000117009|O15229-3|KMO MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 388.539188 1162.59573 2.587 0.0010051 -0.1053 -4.0913E-05 2.4817 0.00096423 388.5391118791741 31.344 0.42701 32.132 31.78 32.207 0.78879 -0.080929 0.00033028 NaN 20.415 42 33 2 NaN NaN NaN NaN 0 NaN NaN 0 492170 15201 2058 9685 9709 0.020940822164448036 KYPSPFFVF 9 Unmodified _KYPSPFFVF_ 0 0 0 ENSG00000135829|ENST00000367549|DHX9;ENST00000485081.5_1_1:182847108-182856566:+|nuORF;nc|ENSG00000135829|Q08211-2|DHX9 ENSG00000135829|ENST00000367549|DHX9 ENSG00000135829|ENST00000367549|DHX9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.2994995117188 2 566.29731 1130.58007 2.7164 0.0015383 0.56346 0.00031908 3.2799 0.0018574 566.2977949880488 82.83 0.53181 82.875 82.531 83.063 0.045006 122 58 3 0 0 0 0.017293 2 40971 40904;40971 71.922 46.523 1 18508000 15202 2900 9686 9710 17512;17513 17513 0.020001189710455947 KYPSPFFVF 9 Unmodified _KYPSPFFVF_ 0 0 0 ENSG00000135829|ENST00000367549|DHX9;ENST00000485081.5_1_1:182847108-182856566:+|nuORF;nc|ENSG00000135829|Q08211-2|DHX9 ENSG00000135829|ENST00000367549|DHX9 ENSG00000135829|ENST00000367549|DHX9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 566.2996826171875 2 566.29731 1130.58007 3.5437 0.0020068 0.22368 0.00012667 3.7674 0.0021335 566.2973021492714 83.826 0.81744 84.073 83.598 84.415 0.24722 168 50 4 0 0 0 0.0014219 6 38649 38456;38504;38549;38600;38649;38710 111.29 78.982 1 6155200 15203 2900 9686 9710 17514;17515;17516;17517;17518;17519 17518 0.020001189710455947 KYPSPFFVF 9 Unmodified _KYPSPFFVF_ 0 0 0 ENSG00000135829|ENST00000367549|DHX9;ENST00000485081.5_1_1:182847108-182856566:+|nuORF;nc|ENSG00000135829|Q08211-2|DHX9 ENSG00000135829|ENST00000367549|DHX9 ENSG00000135829|ENST00000367549|DHX9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.2991943359375 2 566.29731 1130.58007 3.7118 0.002102 0.023278 1.3183E-05 3.7351 0.0021152 566.297224737796 83.248 0.76126 83.908 83.491 84.252 0.66019 142 44 4 0 0 0 0.0012577 6 38324 38223;38274;38324;38365;38413;38463 123.45 91.145 1 7215400 15204 2900 9686 9710 17520;17521;17522;17523;17524;17525 17522 0.020001189710455947 KYPSPFFVF 9 Unmodified _KYPSPFFVF_ 0 0 0 ENSG00000135829|ENST00000367549|DHX9;ENST00000485081.5_1_1:182847108-182856566:+|nuORF;nc|ENSG00000135829|Q08211-2|DHX9 ENSG00000135829|ENST00000367549|DHX9 ENSG00000135829|ENST00000367549|DHX9 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 566.29731 1130.58007 2.8848 0.0016337 1.1412 0.00064628 4.026 0.0022799 566.2982963810483 83.676 0.32537 83.676 83.554 83.879 0 -0.20973 0.00096738 NaN 123.45 77 38 3 NaN NaN NaN NaN 0 NaN NaN 0 16203000 15205 2900 9686 9710 0.020001189710455947 KYPVHIYRL 9 Unmodified _KYPVHIYRL_ 0 0 0 ENSG00000197275|ENST00000336148|RAD54B ENSG00000197275|ENST00000336148|RAD54B ENSG00000197275|ENST00000336148|RAD54B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.2373352050781 3 396.901114 1187.68151 3.1821 0.001263 -0.093956 -3.7291E-05 3.0882 0.0012257 396.9010648027689 32.771 0.26203 33.025 32.882 33.144 0.25389 18 11 2 0 0 0 0.94779 1 14917 14917 4.897 0 1 296810 15206 5804 9687 9711 17526 17526 0.09517990393601394 KYQAVTATL 9 Unmodified _KYQAVTATL_ 0 0 0 ENSG00000142541|ENST00000391857|RPL13A;ENST00000478813.1_1_8:81177882-81177960:-|nuORF;ENST00000425147.1_1_21:26734448-26734742:+|nuORF;nc|ENSG00000293056|Q6NVV1|RPL13AP3 ENSG00000142541|ENST00000391857|RPL13A ENSG00000142541|ENST00000391857|RPL13A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 497.78363037109375 2 497.782025 993.549496 NaN NaN NaN NaN NaN NaN NaN 35.628 1 35.628 35.128 36.128 0 0 0 0 0.020959 1 16166 16166 71.922 21.989 1 15207 3315 9688 9712 17527 17527 0.052463405860066814 KYQAVTATL 9 Unmodified _KYQAVTATL_ 0 0 0 ENSG00000142541|ENST00000391857|RPL13A;ENST00000478813.1_1_8:81177882-81177960:-|nuORF;ENST00000425147.1_1_21:26734448-26734742:+|nuORF;nc|ENSG00000293056|Q6NVV1|RPL13AP3 ENSG00000142541|ENST00000391857|RPL13A ENSG00000142541|ENST00000391857|RPL13A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.7838439941406 2 497.782025 993.549496 3.1864 0.0015862 0.001473 7.3323E-07 3.1879 0.0015869 497.7820892142613 35.422 0.33315 35.677 35.509 35.842 0.25524 23 10 3 0 0 0 0.017293 1 16139 16139 71.922 21.067 1 664600 15208 3315 9688 9712 17528 17528 0.052463405860066814 KYQAVTATL 9 Unmodified _KYQAVTATL_ 0 0 0 ENSG00000142541|ENST00000391857|RPL13A;ENST00000478813.1_1_8:81177882-81177960:-|nuORF;ENST00000425147.1_1_21:26734448-26734742:+|nuORF;nc|ENSG00000293056|Q6NVV1|RPL13AP3 ENSG00000142541|ENST00000391857|RPL13A ENSG00000142541|ENST00000391857|RPL13A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.2851867675781 2 497.782025 993.549496 3.2449 0.0016153 0.63175 0.00031448 3.8767 0.0019297 497.7823208400556 35.048 0.27405 35.67 35.565 35.839 0.62294 20 15 2 0 0 0 0.048676 1 16066 16066 47.749 5.6541 1 614060 15209 3315 9688 9712 17529 17529 0.052463405860066814 KYQEEFEHF 9 Unmodified _KYQEEFEHF_ 0 0 0 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 419.5250244140625 3 419.524261 1255.55095 2.8464 0.0011942 -0.24073 -0.00010099 2.6057 0.0010932 419.5240030953638 37.234 0.30167 37.234 37.106 37.407 0 20 10 3 0 0 0 0.020151 1 16913 16913 53.404 44.652 1 680790 15210 821 9689 9713 17530 17530 -0.06660070115890449 KYQEEFEHF 9 Unmodified _KYQEEFEHF_ 0 0 0 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 419.525390625 3 419.524261 1255.55095 2.8062 0.0011773 0.28239 0.00011847 3.0886 0.0012957 419.52427523173367 35.95 0.23498 36.741 36.637 36.872 0.79131 19 8 3 0 0 0 0.015468 1 16315 16315 57.722 45.494 1 690440 15211 821 9689 9713 17531 17531 -0.06660070115890449 KYQEEFEHF 9 Unmodified _KYQEEFEHF_ 0 0 0 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 628.78515625 2 628.782753 1255.55095 3.5548 0.0022352 -0.30422 -0.00019129 3.2506 0.0020439 628.7814272039474 36.009 0.21186 36.8 36.66 36.872 0.79131 13 7 2 0 0 0 0.10584 1 16340 16340 31.268 11.906 1 603570 15212 821 9689 9713 17532 17532 -0.06660070115890449 KYQEEFEHF 9 Unmodified _KYQEEFEHF_ 0 0 0 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 419.524261 1255.55095 3.0653 0.001286 0.29533 0.0001239 3.3606 0.0014099 419.5243391078202 36.802 0.28643 37.432 37.23 37.517 0.62999 0.098879 0.00020185 NaN 53.404 23 12 2 NaN NaN NaN NaN 0 NaN NaN 0 267260 15213 821 9689 9713 -0.06660070115890449 KYQEVTNNL 9 Unmodified _KYQEVTNNL_ 0 0 0 nc|ENSG00000135387|Q14444-2|CAPRIN1;ENSG00000135387|ENST00000341394|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.787353515625 2 554.785296 1107.55604 3.7684 0.0020907 -0.26622 -0.00014769 3.5022 0.001943 554.7851193944804 27.877 0.32248 27.877 27.739 28.062 0 82 26 4 0 0 0 1.0706E-08 3 12575 12530;12575;12618 155.03 72.497 1 6346000 15214 2868 9690 9714 17533;17534;17535 17534 0.006562337467130419 KYQEVTNNL 9 Unmodified _KYQEVTNNL_ 0 0 0 nc|ENSG00000135387|Q14444-2|CAPRIN1;ENSG00000135387|ENST00000341394|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.7863159179688 2 554.785296 1107.55604 3.3275 0.0018461 -0.33915 -0.00018816 2.9884 0.0016579 554.7850497536677 26.894 0.26953 27.672 27.559 27.828 0.7787 60 19 4 0 0 0 0.00027711 2 12057 12057;12100 134.3 65.191 1 8117400 15215 2868 9690 9714 17536;17537 17536 0.006562337467130419 KYQEVTNNL 9 Unmodified _KYQEVTNNL_ 0 0 0 nc|ENSG00000135387|Q14444-2|CAPRIN1;ENSG00000135387|ENST00000341394|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.7872314453125 2 554.785296 1107.55604 3.4369 0.0019068 0.15513 8.6066E-05 3.5921 0.0019928 554.7853098005133 27.842 0.36519 28.104 27.914 28.279 0.26245 69 22 4 0 0 0 1.0071E-05 3 12653 12607;12653;12707 147.06 64.53 1 4133400 15216 2868 9690 9714 17538;17539;17540 17539 0.006562337467130419 KYQEVTNNL 9 Unmodified _KYQEVTNNL_ 0 0 0 nc|ENSG00000135387|Q14444-2|CAPRIN1;ENSG00000135387|ENST00000341394|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.7874145507812 2 554.785296 1107.55604 3.4209 0.0018979 0.36089 0.00020022 3.7818 0.0020981 554.7854178980813 27.457 0.38927 28.078 27.851 28.24 0.62179 85 25 4 0 0 0 1.0071E-05 3 12574 12532;12574;12615 147.06 68.331 1 3650500 15217 2868 9690 9714 17541;17542;17543 17542 0.006562337467130419 KYQEVTNNLEF 11 Unmodified _KYQEVTNNLEF_ 0 0 0 nc|ENSG00000135387|Q14444-2|CAPRIN1;ENSG00000135387|ENST00000341394|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 692.8432006835938 2 692.840799 1383.66705 3.6644 0.0025388 0.02716 1.8817E-05 3.6915 0.0025576 692.8406315180351 50.312 0.31888 50.312 50.166 50.485 0 32 14 3 0 0 0 3.033E-10 2 23052 23000;23052 121.35 86.414 1 1702800 15218 2868 9691 9715 17544;17545 17545 -0.009441713358683046 KYQEVTNNLEF 11 Unmodified _KYQEVTNNLEF_ 0 0 0 nc|ENSG00000135387|Q14444-2|CAPRIN1;ENSG00000135387|ENST00000341394|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 692.843505859375 2 692.840799 1383.66705 3.749 0.0025974 -0.0040771 -2.8248E-06 3.7449 0.0025946 692.8405278671518 49.27 0.31668 50.097 49.936 50.253 0.82705 41 15 4 0 0 0 5.6497E-20 3 22461 22413;22461;22512 143.91 105.73 1 1293800 15219 2868 9691 9715 17546;17547;17548 17547 -0.009441713358683046 KYQEVTNNLEF 11 Unmodified _KYQEVTNNLEF_ 0 0 0 nc|ENSG00000135387|Q14444-2|CAPRIN1;ENSG00000135387|ENST00000341394|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 692.8433227539062 2 692.840799 1383.66705 3.7378 0.0025897 -0.040477 -2.8044E-05 3.6974 0.0025617 692.8408928542332 50.231 0.31034 50.493 50.277 50.587 0.26146 23 11 3 0 0 0 5.6497E-20 2 22943 22943;22995 143.91 98.169 1 1619500 15220 2868 9691 9715 17549;17550 17549 -0.009441713358683046 KYQEVTNNLEF 11 Unmodified _KYQEVTNNLEF_ 0 0 0 nc|ENSG00000135387|Q14444-2|CAPRIN1;ENSG00000135387|ENST00000341394|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 692.8438110351562 2 692.840799 1383.66705 3.9812 0.0027583 -0.10461 -7.2478E-05 3.8766 0.0026859 692.8405317894062 49.665 0.25228 50.322 50.167 50.419 0.65735 25 8 4 0 0 0 3.8128E-15 2 22685 22685;22750 132.38 88.607 1 1473600 15221 2868 9691 9715 17551;17552 17551 -0.009441713358683046 KYQIINEEF 9 Unmodified _KYQIINEEF_ 0 0 0 ENSG00000163755|ENST00000296051|HPS3;nc|ENSG00000163755|Q969F9-2|HPS3;ENST00000486530.1_1_3:148847510-148871436:+|nuORF ENSG00000163755|ENST00000296051|HPS3 ENSG00000163755|ENST00000296051|HPS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 592.3070678710938 2 592.303321 1182.59209 3.7528 0.0022228 0.22713 0.00013453 3.9799 0.0023573 592.3035180455807 53.602 0.32524 53.602 53.417 53.742 0 56 23 3 0 0 0 0.0014219 2 24539 24539;24591 111.29 61.733 1 6616100 15222 4246 9692 9716 17553;17554 17553 0.008096909235518979 KYQIINEEF 9 Unmodified _KYQIINEEF_ 0 0 0 ENSG00000163755|ENST00000296051|HPS3;nc|ENSG00000163755|Q969F9-2|HPS3;ENST00000486530.1_1_3:148847510-148871436:+|nuORF ENSG00000163755|ENST00000296051|HPS3 ENSG00000163755|ENST00000296051|HPS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.3052978515625 2 592.303321 1182.59209 3.189 0.0018888 -0.21127 -0.00012513 2.9777 0.0017637 592.303087898287 52.562 0.34404 53.372 53.175 53.519 0.81066 62 20 4 0 0 0 0.001377 2 23955 23904;23955 114.65 50.689 1 5626300 15223 4246 9692 9716 17555;17556 17556 0.008096909235518979 KYQIINEEF 9 Unmodified _KYQIINEEF_ 0 0 0 ENSG00000163755|ENST00000296051|HPS3;nc|ENSG00000163755|Q969F9-2|HPS3;ENST00000486530.1_1_3:148847510-148871436:+|nuORF ENSG00000163755|ENST00000296051|HPS3 ENSG00000163755|ENST00000296051|HPS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.3058471679688 2 592.303321 1182.59209 3.6993 0.0021911 0.034277 2.0302E-05 3.7336 0.0022114 592.303425843336 53.478 0.36573 53.743 53.567 53.932 0.26462 46 18 3 0 0 0 0.0012577 3 24413 24413;24468;24522 123.45 65.729 1 5222200 15224 4246 9692 9716 17557;17558;17559 17557 0.008096909235518979 KYQIINEEF 9 Unmodified _KYQIINEEF_ 0 0 0 ENSG00000163755|ENST00000296051|HPS3;nc|ENSG00000163755|Q969F9-2|HPS3;ENST00000486530.1_1_3:148847510-148871436:+|nuORF ENSG00000163755|ENST00000296051|HPS3 ENSG00000163755|ENST00000296051|HPS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.3057250976562 2 592.303321 1182.59209 3.6376 0.0021546 -0.065438 -3.8759E-05 3.5722 0.0021158 592.3032574101014 52.97 0.28856 53.635 53.494 53.782 0.6644 39 13 4 0 0 0 0.0013204 2 24242 24189;24242 118.89 57.293 1 5624400 15225 4246 9692 9716 17560;17561 17561 0.008096909235518979 KYQKGFSLW 9 Unmodified _KYQKGFSLW_ 0 0 0 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.313720703125 2 578.811116 1155.60768 3.7643 0.0021788 -0.34188 -0.00019789 3.4224 0.0019809 578.8108753106044 50.656 0.39325 50.656 50.461 50.854 0 57 21 3 0 0 0 6.2995E-15 3 23149 23149;23198;23254 198.25 149.9 1 10953000 15226 720 9693 9717 17562;17563;17564 17562 0.03610022231282528 KYQKGFSLW 9 Unmodified _KYQKGFSLW_ 0 0 0 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 386.2103576660156 3 386.209836 1155.60768 2.8184 0.0010885 -0.5514 -0.00021296 2.267 0.00087555 386.2095481641032 50.653 0.33389 50.653 50.461 50.795 0 53 19 4 0 0 0 0.091193 2 23166 23166;23214 34.932 14.518 1 5963900 15227 720 9693 9717 17565;17566 17565 0.03610022231282528 KYQKGFSLW 9 Unmodified _KYQKGFSLW_ 0 0 0 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.8129272460938 2 578.811116 1155.60768 3.436 0.0019888 -0.21291 -0.00012324 3.2231 0.0018656 578.8109389728295 49.483 0.41436 50.306 50.083 50.497 0.82285 66 21 4 0 0 0 3.1999E-05 3 22537 22487;22537;22579 168.66 97.555 1 4207900 15228 720 9693 9717 17567;17568;17569 17568 0.03610022231282528 KYQKGFSLW 9 Unmodified _KYQKGFSLW_ 0 0 0 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 386.212890625 3 386.209836 1155.60768 2.5985 0.0010036 0.2316 8.9447E-05 2.8301 0.001093 386.2101060980969 49.473 0.35722 50.296 50.104 50.461 0.82285 60 18 5 0 0 0 0.063112 2 22523 22523;22569 41.956 18.166 1 3126800 15229 720 9693 9717 17570;17571 17570 0.03610022231282528 KYQKGFSLW 9 Unmodified _KYQKGFSLW_ 0 0 0 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.81396484375 2 578.811116 1155.60768 3.2706 0.001893 0.047377 2.7422E-05 3.3179 0.0019205 578.8110588937525 50.584 0.39243 50.845 50.668 51.06 0.26146 44 20 3 0 0 0 3.1999E-05 3 23078 23078;23131;23184 155.03 97.555 1 2209900 15230 720 9693 9717 17572;17573;17574 17572 0.03610022231282528 KYQKGFSLW 9 Unmodified _KYQKGFSLW_ 0 0 0 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.813720703125 2 578.811116 1155.60768 3.6429 0.0021086 0.13162 7.618E-05 3.7745 0.0021847 578.8112005503817 49.875 0.3847 50.532 50.373 50.758 0.65735 40 15 4 0 0 0 3.1999E-05 2 22799 22799;22860 155.03 97.304 1 2062000 15231 720 9693 9717 17575;17576 17575 0.03610022231282528 KYQKGFSLW 9 Unmodified _KYQKGFSLW_ 0 0 0 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 386.2096252441406 3 386.209836 1155.60768 2.7778 0.0010728 -1.4146 -0.00054633 1.3632 0.00052649 386.2092103062569 49.877 0.26169 50.534 50.436 50.698 0.65735 28 10 3 0 0 0 0.43294 1 22810 22810 13.615 4.6386 1 1229000 15232 720 9693 9717 17577 17577 0.03610022231282528 KYQKGFSLW 9 Unmodified _KYQKGFSLW_ 0 0 0 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 386.209836 1155.60768 2.7762 0.0010722 -1.0326 -0.00039881 1.7435 0.00067337 386.209067746341 50.557 0.3107 50.818 50.711 51.021 0.26146 0.24284 -0.00045525 NaN 41.956 36 15 3 NaN NaN NaN NaN 0 NaN NaN 0 1312300 15233 720 9693 9717 0.03610022231282528 KYQKGFSLW 9 Unmodified _KYQKGFSLW_ 0 0 0 nc|ENSG00000067167|Q15629-2|TRAM1;ENSG00000067167|ENST00000262213|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 nc|ENSG00000067167|Q15629-2|TRAM1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 386.209836 1155.60768 2.7778 0.0010728 -1.4146 -0.00054633 1.3632 0.00052649 386.2092103062569 49.877 0.26169 50.534 50.436 50.698 0.65735 -0.041066 -0.00089781 NaN 41.956 28 10 3 NaN NaN NaN NaN 0 NaN NaN 0 1229000 15234 720 9693 9717 0.03610022231282528 KYQPRIAVF 9 Unmodified _KYQPRIAVF_ 0 0 0 ENSG00000139372|ENST00000392872|TDG ENSG00000139372|ENST00000392872|TDG ENSG00000139372|ENST00000392872|TDG MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.3658447265625 2 561.326934 1120.63931 3.5713 0.0020047 0.25153 0.00014119 3.8229 0.0021459 561.3268520981466 43.006 0.10806 43.276 43.224 43.332 0.27021 9 6 2 0 0 0 0.0046306 1 19611 19611 54.774 26.287 1 1075500 15235 3146 9694 9718 17578 17578 0.08382014985227215 KYQPRIAVF 9 Unmodified _KYQPRIAVF_ 0 0 0 ENSG00000139372|ENST00000392872|TDG ENSG00000139372|ENST00000392872|TDG ENSG00000139372|ENST00000392872|TDG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.328369140625 2 561.326934 1120.63931 3.6977 0.0020756 -0.84039 -0.00047173 2.8574 0.0016039 561.8277487599204 42.278 0.26904 42.925 42.862 43.131 0.64693 31 20 2 0 0 0 0.015468 1 19395 19395 74.423 45.936 1 1386800 15236 3146 9694 9718 17579 17579 0.08382014985227215 KYQRILERL 9 Unmodified _KYQRILERL_ 0 0 0 OPA1|p.R842Ifs*2|1|0.3|ENSG00000198836|chr3:193664903-193664904|-/TATA|frameshift_variant;nc|ENSG00000198836|O60313-13|OPA1;nc|ENSG00000198836|O60313|OPA1;nc|ENSG00000198836|O60313-9|OPA1;nc|ENSG00000198836|O60313-11|OPA1;nc|ENSG00000198836|O60313-2|OPA1;ENSG00000198836|ENST00000361510|OPA1 OPA1|p.R842Ifs*2|1|0.3|ENSG00000198836|chr3:193664903-193664904|-/TATA|frameshift_variant OPA1|p.R842Ifs*2|1|0.3|ENSG00000198836|chr3:193664903-193664904|-/TATA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 406.91656494140625 3 406.915423 1217.72444 2.763 0.0011243 -0.23371 -9.5099E-05 2.5293 0.0010292 406.91525212422795 28.613 0.31804 29.402 29.239 29.557 0.78921 62 25 3 0 0 0 0.27088 1 12851 12851 18.721 9.745 1 911350 15237 5945 9695 9719 17580 17580 0.12428760451052767 KYQRILERL 9 Unmodified _KYQRILERL_ 0 0 0 OPA1|p.R842Ifs*2|1|0.3|ENSG00000198836|chr3:193664903-193664904|-/TATA|frameshift_variant;nc|ENSG00000198836|O60313-13|OPA1;nc|ENSG00000198836|O60313|OPA1;nc|ENSG00000198836|O60313-9|OPA1;nc|ENSG00000198836|O60313-11|OPA1;nc|ENSG00000198836|O60313-2|OPA1;ENSG00000198836|ENST00000361510|OPA1 OPA1|p.R842Ifs*2|1|0.3|ENSG00000198836|chr3:193664903-193664904|-/TATA|frameshift_variant OPA1|p.R842Ifs*2|1|0.3|ENSG00000198836|chr3:193664903-193664904|-/TATA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.9158020019531 3 406.915423 1217.72444 3.1271 0.0012725 -0.40767 -0.00016589 2.7194 0.0011066 406.9151968239919 29.503 0.41203 29.761 29.579 29.991 0.25804 58 27 3 0 0 0 0.27088 1 13395 13395 18.721 5.8486 1 518120 15238 5945 9695 9719 17581 17581 0.12428760451052767 KYQRILERL 9 Unmodified _KYQRILERL_ 0 0 0 OPA1|p.R842Ifs*2|1|0.3|ENSG00000198836|chr3:193664903-193664904|-/TATA|frameshift_variant;nc|ENSG00000198836|O60313-13|OPA1;nc|ENSG00000198836|O60313|OPA1;nc|ENSG00000198836|O60313-9|OPA1;nc|ENSG00000198836|O60313-11|OPA1;nc|ENSG00000198836|O60313-2|OPA1;ENSG00000198836|ENST00000361510|OPA1 OPA1|p.R842Ifs*2|1|0.3|ENSG00000198836|chr3:193664903-193664904|-/TATA|frameshift_variant OPA1|p.R842Ifs*2|1|0.3|ENSG00000198836|chr3:193664903-193664904|-/TATA|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.5564270019531 3 406.915423 1217.72444 2.9443 0.0011981 -0.36784 -0.00014968 2.5765 0.0010484 406.91522796763365 29.227 0.23157 29.845 29.738 29.97 0.61789 45 17 3 0 0 0 0.10977 1 13376 13376 6.1918 2.3155 1 711750 15239 5945 9695 9719 17582 17582 0.12428760451052767 KYRLKYLRLRK 11 Unmodified _KYRLKYLRLRK_ 0 0 0 ENST00000473629.6_1_11:124492979-124496722:+|nuORF;ENST00000452080.5_1_11:124492979-124496602:+|nuORF;ENSG00000154144|ENST00000441174|TBRG1 ENST00000473629.6_1_11:124492979-124496722:+|nuORF ENST00000473629.6_1_11:124492979-124496722:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 769.4447021484375 2 768.996094 1535.97764 NaN NaN NaN NaN NaN NaN NaN 99.357 1 99.419 98.919 99.919 0.062241 0 0 0 1.0082 1 53694 53694 0 0 1 15240 3806 9696 9720 17583 17583 0.2310861290129651 KYRPLFDYF 9 Unmodified _KYRPLFDYF_ 0 0 0 ENSG00000196305|ENST00000443024|IARS1 ENSG00000196305|ENST00000443024|IARS1 ENSG00000196305|ENST00000443024|IARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 624.8289794921875 2 624.824224 1247.63389 3.8244 0.0023896 2.9509 0.0018438 6.7753 0.0042334 624.8255631206182 66.088 0.15546 66.745 66.612 66.768 0.65672 10 8 2 0 0 0 0.21008 1 30291 30291 22.736 4.6013 1 338940 15241 5731 9697 9721 17584 17584 0.01998291402742325 KYRQKFNTL 9 Unmodified _KYRQKFNTL_ 0 0 0 nc|ENSG00000198399|Q9NZM3-3|ITSN2;ITSN2|p.G1340Efs*9|1|0.18|ENSG00000198399|chr2:24212720-24212720|C/-|frameshift_variant;nc|ENSG00000198399|Q9NZM3-2|ITSN2;ENSG00000198399|ENST00000355123|ITSN2;nc|ENSG00000198399|Q9NZM3-4|ITSN2 nc|ENSG00000198399|Q9NZM3-3|ITSN2 nc|ENSG00000198399|Q9NZM3-3|ITSN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.897216796875 3 399.89614 1196.66659 2.6291 0.0010514 0.28801 0.00011517 2.9171 0.0011665 399.8962653707506 14.424 0.20961 14.424 14.331 14.541 0 37 13 4 0 0 0 0.1229 1 6349 6349 28.495 12.756 1 701880 15242 5888 9698 9722 17585 17585 0.07612498525622868 KYRQKFNTL 9 Unmodified _KYRQKFNTL_ 0 0 0 nc|ENSG00000198399|Q9NZM3-3|ITSN2;ITSN2|p.G1340Efs*9|1|0.18|ENSG00000198399|chr2:24212720-24212720|C/-|frameshift_variant;nc|ENSG00000198399|Q9NZM3-2|ITSN2;ENSG00000198399|ENST00000355123|ITSN2;nc|ENSG00000198399|Q9NZM3-4|ITSN2 nc|ENSG00000198399|Q9NZM3-3|ITSN2 nc|ENSG00000198399|Q9NZM3-3|ITSN2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 399.89614 1196.66659 3.0322 0.0012126 -0.070932 -2.8366E-05 2.9613 0.0011842 399.8961747283161 13.522 0.30404 14.171 14.042 14.346 0.64819 -0.12652 -0.00020193 NaN 28.495 41 20 3 NaN NaN NaN NaN 0 NaN NaN 0 350040 15243 5888 9698 9722 0.07612498525622868 KYRQWQRFNEY 11 Unmodified _KYRQWQRFNEY_ 0 0 0 REV__nc|ENSG00000184507|Q86Y26-2|NUTM1 REV__nc|ENSG00000184507|Q86Y26-2|NUTM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 809.4011840820312 2 809.399681 1616.78481 NaN NaN NaN NaN NaN NaN NaN 82.054 1 82.138 81.638 82.638 0.084106 0 0 0 1.008 1 40448 40448 0.30703 0.30703 1 + 15244 13977 9699 9723 17586 17586 0.0010882604344715219 KYRRYRIWKRR 11 Unmodified _KYRRYRIWKRR_ 0 0 0 REV__nc|ENSG00000205356|Q7Z6L1-3|TECPR1 REV__nc|ENSG00000205356|Q7Z6L1-3|TECPR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 841.0050659179688 2 841.005316 1679.99608 NaN NaN NaN NaN NaN NaN NaN 83.02 1 83.065 82.565 83.565 0.045006 0 0 0 1.0082 1 41097 41097 0 0 1 + 15245 14459 9700 9724 17587 17587 0.1832816759583693 KYRRYRIWKRR 11 Unmodified _KYRRYRIWKRR_ 0 0 0 REV__nc|ENSG00000205356|Q7Z6L1-3|TECPR1 REV__nc|ENSG00000205356|Q7Z6L1-3|TECPR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.073486328125 3 561.00597 1679.99608 NaN NaN NaN NaN NaN NaN NaN 83.16 1 83.205 82.705 83.705 0.045006 0 0 0 1.0082 1 41202 41202 0 0 1 + 15246 14459 9700 9724 17588 17588 0.1832816759583693 KYRSWWHTEHK 11 Unmodified _KYRSWWHTEHK_ 0 0 0 REV__L1MA4A_dup2646|chr7:55461716-55462655:-|1.5252375065868096|0.4304615177296836|1.83|542.0|33|3|sense REV__L1MA4A_dup2646|chr7:55461716-55462655:-|1.5252375065868096|0.4304615177296836|1.83|542.0|33|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.9296264648438 3 519.928503 1556.76368 NaN NaN NaN NaN NaN NaN NaN 77.332 1 77.893 77.393 78.393 0.56091 0 0 0 1.008 1 37505 37505 0.073264 0 1 + 15247 17759 9701 9725 17589 17589 0.007568607345774581 KYSDITIMF 9 Unmodified _KYSDITIMF_ 0 0 0 ENSG00000130005|ENST00000252288|GAMT;nc|ENSG00000130005|Q14353-2|GAMT ENSG00000130005|ENST00000252288|GAMT ENSG00000130005|ENST00000252288|GAMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.286865234375 2 559.283543 1116.55253 2.8299 0.0015827 0.1194 6.678E-05 2.9493 0.0016495 559.2835195320422 71.133 0.25192 71.133 71.005 71.257 0 41 26 2 0 0 0 0.034495 1 34560 34560 53.833 28.433 1 2413700 15248 2569 9702 9726 17590 17590 -0.0010815235150403169 KYSDITIMF 9 Unmodified _KYSDITIMF_ 0 0 0 ENSG00000130005|ENST00000252288|GAMT;nc|ENSG00000130005|Q14353-2|GAMT ENSG00000130005|ENST00000252288|GAMT ENSG00000130005|ENST00000252288|GAMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.2869262695312 2 559.283543 1116.55253 2.7619 0.0015447 0.17022 9.52E-05 2.9321 0.0016399 559.2839854896948 70.203 0.18966 70.906 70.775 70.965 0.70302 39 24 2 0 0 0 0.099775 2 33650 33585;33650 32.786 7.3864 1 1788700 15249 2569 9702 9726 17591;17592 17592 -0.0010815235150403169 KYSDITIMF 9 Unmodified _KYSDITIMF_ 0 0 0 ENSG00000130005|ENST00000252288|GAMT;nc|ENSG00000130005|Q14353-2|GAMT ENSG00000130005|ENST00000252288|GAMT ENSG00000130005|ENST00000252288|GAMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.2841186523438 2 559.283543 1116.55253 3.3302 0.0018625 -0.81817 -0.00045759 2.512 0.0014049 559.2832041459791 71.051 0.17443 71.309 71.23 71.405 0.25786 22 16 2 0 0 0 0.048676 1 32546 32546 47.749 17.112 1 720480 15250 2569 9702 9726 17593 17593 -0.0010815235150403169 KYSDITIMF 9 Unmodified _KYSDITIMF_ 0 0 0 ENSG00000130005|ENST00000252288|GAMT;nc|ENSG00000130005|Q14353-2|GAMT ENSG00000130005|ENST00000252288|GAMT ENSG00000130005|ENST00000252288|GAMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.2831420898438 2 559.283543 1116.55253 3.0724 0.0017184 -1.4021 -0.00078418 1.6703 0.00093419 559.2821098973438 70.483 0.23097 71.145 71.018 71.249 0.66209 22 12 2 0 0 0 0.099775 1 32320 32320 32.786 12.332 1 664430 15251 2569 9702 9726 17594 17594 -0.0010815235150403169 KYSEVFEAI 9 Unmodified _KYSEVFEAI_ 0 0 0 ENSG00000254598|ENST00000528848|CSNK2A3;ENSG00000101266|ENST00000217244|CSNK2A1;ENSG00000070770|ENST00000262506|CSNK2A2;ENST00000460062.6_1_20:480238-524362:-|nuORF;ENST00000609606.5_1_20:480440-489246:-|nuORF;ENST00000608490.1_1_20:485716-489204:-|nuORF ENSG00000254598|ENST00000528848|CSNK2A3 ENSG00000254598|ENST00000528848|CSNK2A3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.2819213867188 2 543.279315 1084.54408 2.8445 0.0015454 2.8874 0.0015687 5.732 0.0031141 543.2806129258287 55.892 0.23023 56.679 56.568 56.798 0.78711 34 18 3 0 0 0 0.088173 1 25500 25500 14.405 0 1 1301900 15252 1278 9703 9727 17595 17595 0.005186170035358373 KYSEVFEAI 9 Unmodified _KYSEVFEAI_ 0 0 0 ENSG00000254598|ENST00000528848|CSNK2A3;ENSG00000101266|ENST00000217244|CSNK2A1;ENSG00000070770|ENST00000262506|CSNK2A2;ENST00000460062.6_1_20:480238-524362:-|nuORF;ENST00000609606.5_1_20:480440-489246:-|nuORF;ENST00000608490.1_1_20:485716-489204:-|nuORF ENSG00000254598|ENST00000528848|CSNK2A3 ENSG00000254598|ENST00000528848|CSNK2A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.28564453125 2 543.279315 1084.54408 3.3394 0.0018142 1.0632 0.0005776 4.4026 0.0023918 543.2795068778856 56.809 0.21882 57.073 56.941 57.16 0.26443 14 8 2 0 0 0 0.017293 1 25963 25963 71.922 21.989 1 1078200 15253 1278 9703 9727 17596 17596 0.005186170035358373 KYSEVFEAI 9 Unmodified _KYSEVFEAI_ 0 0 0 ENSG00000254598|ENST00000528848|CSNK2A3;ENSG00000101266|ENST00000217244|CSNK2A1;ENSG00000070770|ENST00000262506|CSNK2A2;ENST00000460062.6_1_20:480238-524362:-|nuORF;ENST00000609606.5_1_20:480440-489246:-|nuORF;ENST00000608490.1_1_20:485716-489204:-|nuORF ENSG00000254598|ENST00000528848|CSNK2A3 ENSG00000254598|ENST00000528848|CSNK2A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.28125 2 543.279315 1084.54408 NaN NaN NaN NaN NaN NaN NaN 56.898 1 57.162 56.662 57.662 0.26444 0 0 0 0.70806 1 26035 26035 12.241 0.60036 1 15254 1278 9703 9727 17597 17597 0.005186170035358373 KYSEVFEAI 9 Unmodified _KYSEVFEAI_ 0 0 0 ENSG00000254598|ENST00000528848|CSNK2A3;ENSG00000101266|ENST00000217244|CSNK2A1;ENSG00000070770|ENST00000262506|CSNK2A2;ENST00000460062.6_1_20:480238-524362:-|nuORF;ENST00000609606.5_1_20:480440-489246:-|nuORF;ENST00000608490.1_1_20:485716-489204:-|nuORF ENSG00000254598|ENST00000528848|CSNK2A3 ENSG00000254598|ENST00000528848|CSNK2A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.2809448242188 2 543.279315 1084.54408 3.4902 0.0018962 3.3714 0.0018316 6.8616 0.0037278 543.2812060477111 56.091 0.51744 56.759 56.368 56.886 0.66829 47 25 2 0 0 0 0.017293 2 25657 25657;25697 71.922 13.243 1 1204900 15255 1278 9703 9727 17598;17599 17598 0.005186170035358373 KYSKRFPEL 9 Unmodified _KYSKRFPEL_ 0 0 0 ENST00000498612.1_1_19:54622012-54631467:+|nuORF;nc|ENSG00000105618|Q8WWY3-3|PRPF31;ENST00000466404.5_1_19:54621832-54631576:+|nuORF;nc|ENSG00000105618|Q8WWY3-2|PRPF31;nc|ENSG00000105618|Q8WWY3-4|PRPF31;ENSG00000105618|ENST00000321030|PRPF31 ENST00000498612.1_1_19:54622012-54631467:+|nuORF ENST00000498612.1_1_19:54622012-54631467:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.8908386230469 3 389.888874 1166.64479 2.7912 0.0010883 -0.21499 -8.3823E-05 2.5762 0.0010044 389.8888100986492 26.427 0.3082 26.427 26.355 26.663 0 53 31 2 0 0 0 0.78763 1 11873 11873 7.609 0.50723 1 935980 15256 1513 9704 9728 17600 17600 0.06813693777030494 KYSKRFPEL 9 Unmodified _KYSKRFPEL_ 0 0 0 ENST00000498612.1_1_19:54622012-54631467:+|nuORF;nc|ENSG00000105618|Q8WWY3-3|PRPF31;ENST00000466404.5_1_19:54621832-54631576:+|nuORF;nc|ENSG00000105618|Q8WWY3-2|PRPF31;nc|ENSG00000105618|Q8WWY3-4|PRPF31;ENSG00000105618|ENST00000321030|PRPF31 ENST00000498612.1_1_19:54622012-54631467:+|nuORF ENST00000498612.1_1_19:54622012-54631467:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 389.8899230957031 3 389.888874 1166.64479 2.3723 0.00092493 0.47505 0.00018522 2.8473 0.0011101 389.88903514594085 25.336 0.36843 26.1 25.926 26.295 0.76356 71 33 3 0 0 0 0.47677 1 11346 11346 12.873 1.3547 1 893170 15257 1513 9704 9728 17601 17601 0.06813693777030494 KYSLVKNKI 9 Unmodified _KYSLVKNKI_ 0 0 0 ENST00000474991.1_1_1:153580188-153585458:-|nuORF;ENSG00000188643|ENST00000368706|S100A16 ENST00000474991.1_1_1:153580188-153585458:-|nuORF ENST00000474991.1_1_1:153580188-153585458:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 364.8981628417969 3 364.89737 1091.67028 2.7557 0.0010055 -0.092163 -3.363E-05 2.6635 0.00097191 364.8972757173001 18.061 0.29899 18.061 17.903 18.202 0 60 23 3 0 0 0 0.0016705 2 8036 7996;8036 107.56 25.957 1 2286000 15258 5674 9705 9729 17602;17603 17603 0.12811168299458586 KYSLVKNKI 9 Unmodified _KYSLVKNKI_ 0 0 0 ENST00000474991.1_1_1:153580188-153585458:-|nuORF;ENSG00000188643|ENST00000368706|S100A16 ENST00000474991.1_1_1:153580188-153585458:-|nuORF ENST00000474991.1_1_1:153580188-153585458:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 364.8978271484375 3 364.89737 1091.67028 2.213 0.0008075 -0.85536 -0.00031212 1.3576 0.00049538 364.89712641835354 17.681 0.19082 17.881 17.772 17.963 0.20057 34 20 2 0 0 0 0.00047252 1 7817 7817 132.13 37.226 1 3228300 15259 5674 9705 9729 17604 17604 0.12811168299458586 KYSLVKNKI 9 Unmodified _KYSLVKNKI_ 0 0 0 ENST00000474991.1_1_1:153580188-153585458:-|nuORF;ENSG00000188643|ENST00000368706|S100A16 ENST00000474991.1_1_1:153580188-153585458:-|nuORF ENST00000474991.1_1_1:153580188-153585458:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 364.89837646484375 3 364.89737 1091.67028 2.4104 0.00087955 0.49125 0.00017926 2.9017 0.0010588 364.8974558829882 14.872 0.5258 15.179 15.003 15.529 0.3069 146 49 4 0 0 0 0.1229 1 6698 6698 28.495 8.8686 1 769850 15260 5674 9705 9729 17605 17605 0.12811168299458586 KYSLVKNKI 9 Unmodified _KYSLVKNKI_ 0 0 0 ENST00000474991.1_1_1:153580188-153585458:-|nuORF;ENSG00000188643|ENST00000368706|S100A16 ENST00000474991.1_1_1:153580188-153585458:-|nuORF ENST00000474991.1_1_1:153580188-153585458:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.8985900878906 3 364.89737 1091.67028 2.6433 0.00096454 0.87942 0.0003209 3.5227 0.0012854 364.8976318233868 15.084 0.70514 15.738 15.455 16.16 0.65356 232 79 4 0 0 0 0.018018 2 6832 6781;6832 70.929 24.453 1 788850 15261 5674 9705 9729 17606;17607 17607 0.12811168299458586 KYSNMEQSLF 10 Unmodified _KYSNMEQSLF_ 0 0 0 ENSG00000021776|ENST00000156471|AQR;ENST00000543879.6_1_15:35166876-35196659:-|nuORF ENSG00000021776|ENST00000156471|AQR ENSG00000021776|ENST00000156471|AQR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 623.7947387695312 2 623.792263 1245.56997 3.7038 0.0023104 0.34558 0.00021557 4.0494 0.002526 623.7922117288723 52.327 0.28669 52.327 52.11 52.397 0 26 21 2 0 0 0 0.26151 2 23932 23932;23987 32.037 7.0465 1 1345600 15262 461 9706 9730 17608;17609 17608 -0.04298856816512853 KYSNMEQSLF 10 Unmodified _KYSNMEQSLF_ 0 0 0 ENSG00000021776|ENST00000156471|AQR;ENST00000543879.6_1_15:35166876-35196659:-|nuORF ENSG00000021776|ENST00000156471|AQR ENSG00000021776|ENST00000156471|AQR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 624.296142578125 2 623.792263 1245.56997 3.0032 0.0018734 0.30175 0.00018823 3.3049 0.0020616 623.7924765493556 51.207 0.19272 52.025 51.867 52.06 0.81738 28 15 2 0 0 0 0.20595 1 23291 23291 38.615 13.624 1 1197600 15263 461 9706 9730 17610 17610 -0.04298856816512853 KYSNMEQSLF 10 Unmodified _KYSNMEQSLF_ 0 0 0 ENSG00000021776|ENST00000156471|AQR;ENST00000543879.6_1_15:35166876-35196659:-|nuORF ENSG00000021776|ENST00000156471|AQR ENSG00000021776|ENST00000156471|AQR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 623.7954711914062 2 623.792263 1245.56997 3.5435 0.0022104 1.0543 0.00065765 4.5977 0.002868 623.7932908172774 51.749 0.16246 52.411 52.274 52.436 0.66198 15 8 2 0 0 0 0.16248 1 23653 23653 43.982 17.098 1 609240 15264 461 9706 9730 17611 17611 -0.04298856816512853 KYSPFVVSF 9 Unmodified _KYSPFVVSF_ 0 0 0 ENSG00000086544|ENST00000263370|ITPKC ENSG00000086544|ENST00000263370|ITPKC ENSG00000086544|ENST00000263370|ITPKC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.2885131835938 2 537.286943 1072.55933 3.0145 0.0016197 0.84803 0.00045564 3.8626 0.0020753 537.2872740481034 70.104 0.30721 70.361 70.194 70.501 0.25642 45 20 3 0 0 0 0.016363 2 32110 32060;32110 70.332 34.205 1 1888600 15265 983 9707 9731 17612;17613 17613 0.0259552859138239 KYSPFVVSF 9 Unmodified _KYSPFVVSF_ 0 0 0 ENSG00000086544|ENST00000263370|ITPKC ENSG00000086544|ENST00000263370|ITPKC ENSG00000086544|ENST00000263370|ITPKC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.2888793945312 2 537.286943 1072.55933 2.9538 0.001587 0.68353 0.00036725 3.6373 0.0019543 537.2873036044322 69.549 0.27145 70.21 70.065 70.336 0.66071 49 19 3 0 0 0 0.01 2 31861 31861;31908 99.755 47.487 1 2290700 15266 983 9707 9731 17614;17615 17614 0.0259552859138239 KYSPNCKLL 9 Carbamidomethyl (C) _KYSPNC(Carbamidomethyl (C))KLL_ KYSPNC(1)KLL KYSPNC(65)KLL 0 1 0 nc|ENSG00000134333|P00338-5|LDHA;nc|ENSG00000134333|P00338-2|LDHA;ENSG00000134333|ENST00000422447|LDHA;nc|ENSG00000134333|P00338-3|LDHA nc|ENSG00000134333|P00338-5|LDHA nc|ENSG00000134333|P00338-5|LDHA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.804931640625 2 561.802434 1121.59032 3.5944 0.0020193 -0.059928 -3.3667E-05 3.5345 0.0019857 561.8024531024811 27.025 0.3138 27.025 26.875 27.188 0 27 18 2 0 0 0 0.022157 1 12158 12158 65.474 28.967 1 326870 15267 2803 9708 9732 17616 17616 59 0.0343835863395725 KYSPNCKLLI 10 Carbamidomethyl (C) _KYSPNC(Carbamidomethyl (C))KLLI_ KYSPNC(1)KLLI KYSPNC(46)KLLI 0 1 0 nc|ENSG00000134333|P00338-5|LDHA;nc|ENSG00000134333|P00338-2|LDHA;ENSG00000134333|ENST00000422447|LDHA;nc|ENSG00000134333|P00338-3|LDHA nc|ENSG00000134333|P00338-5|LDHA nc|ENSG00000134333|P00338-5|LDHA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 618.3464965820312 2 618.344466 1234.67438 3.8562 0.0023844 -0.94133 -0.00058207 2.9148 0.0018024 618.343574908235 40.111 0.46258 40.111 39.79 40.253 0 29 18 3 0 0 0 0.14784 1 18216 18216 46.022 16.941 1 704130 15268 2803 9709 9733 17617 17617 59 0.06642889730869683 KYSPNCKLLI 10 Carbamidomethyl (C) _KYSPNC(Carbamidomethyl (C))KLLI_ KYSPNC(1)KLLI KYSPNC(43)KLLI 0 1 0 nc|ENSG00000134333|P00338-5|LDHA;nc|ENSG00000134333|P00338-2|LDHA;ENSG00000134333|ENST00000422447|LDHA;nc|ENSG00000134333|P00338-3|LDHA nc|ENSG00000134333|P00338-5|LDHA nc|ENSG00000134333|P00338-5|LDHA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 618.3477783203125 2 618.344466 1234.67438 3.6807 0.0022759 0.54319 0.00033588 4.2239 0.0026118 618.3446506717157 39.913 0.26609 40.18 39.962 40.228 0.26696 17 8 3 0 0 0 0.1707 1 18113 18113 42.835 23.473 1 435050 15269 2803 9709 9733 17618 17618 59 0.06642889730869683 KYSPNCKLLI 10 Carbamidomethyl (C) _KYSPNC(Carbamidomethyl (C))KLLI_ KYSPNC(1)KLLI KYSPNC(43)KLLI 0 1 0 nc|ENSG00000134333|P00338-5|LDHA;nc|ENSG00000134333|P00338-2|LDHA;ENSG00000134333|ENST00000422447|LDHA;nc|ENSG00000134333|P00338-3|LDHA nc|ENSG00000134333|P00338-5|LDHA nc|ENSG00000134333|P00338-5|LDHA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 618.3479614257812 2 618.344466 1234.67438 3.7507 0.0023193 -0.8301 -0.00051329 2.9206 0.001806 618.3436578444891 39.457 0.32819 40.095 39.831 40.159 0.63778 21 11 3 0 0 0 0.1707 1 18008 18008 42.835 13.754 1 558450 15270 2803 9709 9733 17619 17619 59 0.06642889730869683 KYSTKKRQR 9 Unmodified _KYSTKKRQR_ 0 0 0 REV__nc|ENSG00000158691|O43309-2|ZSCAN12 REV__nc|ENSG00000158691|O43309-2|ZSCAN12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.8594970703125 2 597.856921 1193.69929 3.9924 0.0023869 -0.84278 -0.00050386 3.1496 0.001883 597.8562840729154 88.049 1.5851 88.3 87.389 88.974 0.25064 150 71 3 0 0 0 1.2126 1 40602 40602 0.52476 0.52476 1 2539600 + 15271 17994 9710 9734 17620 17620 0.11018705648439209 KYSTKKRQR 9 Unmodified _KYSTKKRQR_ 0 0 0 REV__nc|ENSG00000158691|O43309-2|ZSCAN12 REV__nc|ENSG00000158691|O43309-2|ZSCAN12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.858642578125 2 597.856921 1193.69929 4.1885 0.0025041 -0.64247 -0.00038411 3.5461 0.00212 597.8562632215801 88.623 0.81973 89.301 89.016 89.836 0.67818 65 35 3 0 0 0 1.2126 1 40882 40882 0.52476 0.52476 1 741520 + 15272 17994 9710 9734 17621 17621 0.11018705648439209 KYSVINEINKI 11 Unmodified _KYSVINEINKI_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 440.9234313964844 3 440.922244 1319.7449 NaN NaN NaN NaN NaN NaN NaN 49.333 1 49.333 48.833 49.833 0 0 0 0 0.88712 1 22589 22589 10.527 6.6816 1 15273 4953 9711 9735 17622 17622 0.09781886320206468 KYSVINEINKI 11 Unmodified _KYSVINEINKI_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 440.9227294921875 3 440.922244 1319.7449 2.7549 0.0012147 -0.10852 -4.7851E-05 2.6464 0.0011669 440.92191241856216 48.186 0.17579 49.016 48.916 49.091 0.82915 15 8 2 0 0 0 0.14478 1 21965 21965 23.34 17.816 1 353370 15274 4953 9711 9735 17623 17623 0.09781886320206468 KYSVINEINKI 11 Unmodified _KYSVINEINKI_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 660.8814697265625 2 660.879727 1319.7449 3.8654 0.0025546 0.39718 0.00026249 4.2626 0.002817 660.8797974433147 49.24 0.31539 49.501 49.329 49.645 0.26146 25 11 3 0 0 0 5.7382E-15 2 22474 22474;22535 130.09 93.585 1 1355500 15275 4953 9711 9735 17624;17625 17624 0.09781886320206468 KYSVINEINKI 11 Unmodified _KYSVINEINKI_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 440.92327880859375 3 440.922244 1319.7449 2.9617 0.0013059 -0.025439 -1.1216E-05 2.9363 0.0012947 440.9221894861611 49.202 0.31725 49.463 49.298 49.615 0.26146 31 11 3 0 0 0 3.1377E-06 2 22482 22482;22548 74.094 58.555 1 1858800 15276 4953 9711 9735 17626;17627 17626 0.09781886320206468 KYSVINEINKI 11 Unmodified _KYSVINEINKI_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 660.8829956054688 2 660.879727 1319.7449 4.0759 0.0026937 -0.48024 -0.00031738 3.5956 0.0023763 660.8792739485543 48.801 0.29359 49.456 49.281 49.574 0.65525 24 10 3 0 0 0 2.2745E-53 3 22313 22291;22313;22362 194.76 120.56 1 1081800 15277 4953 9711 9735 17628;17629;17630 17629 0.09781886320206468 KYSVINEINKI 11 Unmodified _KYSVINEINKI_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.258056640625 3 440.922244 1319.7449 3.215 0.0014175 -0.093454 -4.1206E-05 3.1215 0.0013763 440.92206683704495 48.78 0.32314 49.435 49.281 49.604 0.65524 29 11 3 0 0 0 3.1377E-06 2 22304 22304;22360 74.094 57.819 1 1355000 15278 4953 9711 9735 17631;17632 17631 0.09781886320206468 KYTEGVQSL 9 Unmodified _KYTEGVQSL_ 0 0 0 ENSG00000092201|ENST00000216297|SUPT16H;ENST00000537175.1_1_12:16552211-16552709:-|nuORF ENSG00000092201|ENST00000216297|SUPT16H ENSG00000092201|ENST00000216297|SUPT16H MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.7711791992188 2 512.769114 1023.52368 NaN NaN NaN NaN NaN NaN NaN 30.464 1 30.464 29.964 30.964 0 0 0 0 0.036101 1 13762 13762 57.722 2.9484 1 15279 1095 9712 9736 17633 17633 0.01285446343717922 KYTKIFNDF 9 Unmodified _KYTKIFNDF_ 0 0 0 nc|ENSG00000015171|Q15326-6|ZMYND11;nc|ENSG00000015171|Q15326-3|ZMYND11;ENSG00000015171|ENST00000381604|ZMYND11;nc|ENSG00000015171|Q15326-4|ZMYND11;nc|ENSG00000015171|Q15326-5|ZMYND11;nc|ENSG00000015171|Q15326-2|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 588.3110961914062 2 588.308406 1174.60226 3.3094 0.001947 0.086392 5.0825E-05 3.3958 0.0019978 588.3084365389085 46.761 0.39917 46.761 46.585 46.984 0 44 14 4 0 0 0 9.5464E-69 3 21363 21363;21410;21467 236.66 133.31 1 8947700 15280 437 9713 9737 17634;17635;17636 17634 0.02194298648782933 KYTKIFNDF 9 Unmodified _KYTKIFNDF_ 0 0 0 nc|ENSG00000015171|Q15326-6|ZMYND11;nc|ENSG00000015171|Q15326-3|ZMYND11;ENSG00000015171|ENST00000381604|ZMYND11;nc|ENSG00000015171|Q15326-4|ZMYND11;nc|ENSG00000015171|Q15326-5|ZMYND11;nc|ENSG00000015171|Q15326-2|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 392.54229736328125 3 392.541363 1174.60226 2.4571 0.00096451 0.32913 0.0001292 2.7862 0.0010937 392.5414198777699 46.761 0.33942 46.761 46.603 46.943 0 37 11 4 0 0 0 0.012326 2 21412 21365;21412 71.708 45.687 1 4971300 15281 437 9713 9737 17637;17638 17638 0.02194298648782933 KYTKIFNDF 9 Unmodified _KYTKIFNDF_ 0 0 0 nc|ENSG00000015171|Q15326-6|ZMYND11;nc|ENSG00000015171|Q15326-3|ZMYND11;ENSG00000015171|ENST00000381604|ZMYND11;nc|ENSG00000015171|Q15326-4|ZMYND11;nc|ENSG00000015171|Q15326-5|ZMYND11;nc|ENSG00000015171|Q15326-2|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.3101196289062 2 588.308406 1174.60226 3.3216 0.0019541 -0.35384 -0.00020817 2.9678 0.001746 588.3081766415443 45.66 0.34512 46.486 46.313 46.658 0.82621 51 18 4 0 0 0 4.5584E-41 2 20801 20744;20801 208.35 122.71 1 9076400 15282 437 9713 9737 17639;17640 17640 0.02194298648782933 KYTKIFNDF 9 Unmodified _KYTKIFNDF_ 0 0 0 nc|ENSG00000015171|Q15326-6|ZMYND11;nc|ENSG00000015171|Q15326-3|ZMYND11;ENSG00000015171|ENST00000381604|ZMYND11;nc|ENSG00000015171|Q15326-4|ZMYND11;nc|ENSG00000015171|Q15326-5|ZMYND11;nc|ENSG00000015171|Q15326-2|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 392.54205322265625 3 392.541363 1174.60226 2.5416 0.00099767 -0.20464 -8.033E-05 2.3369 0.00091734 392.5412319376841 45.66 0.34512 46.486 46.313 46.658 0.82621 51 18 4 0 0 0 0.029308 3 20803 20745;20803;20854 43.982 16.759 1 4151500 15283 437 9713 9737 17641;17642;17643 17642 0.02194298648782933 KYTKIFNDF 9 Unmodified _KYTKIFNDF_ 0 0 0 nc|ENSG00000015171|Q15326-6|ZMYND11;nc|ENSG00000015171|Q15326-3|ZMYND11;ENSG00000015171|ENST00000381604|ZMYND11;nc|ENSG00000015171|Q15326-4|ZMYND11;nc|ENSG00000015171|Q15326-5|ZMYND11;nc|ENSG00000015171|Q15326-2|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.3104248046875 2 588.308406 1174.60226 3.7366 0.0021983 -0.18199 -0.00010706 3.5546 0.0020912 588.3079888495195 46.672 0.25845 46.938 46.809 47.068 0.26561 18 8 3 0 0 0 9.5464E-69 2 21322 21322;21375 236.66 129.48 1 4514400 15284 437 9713 9737 17644;17645 17644 0.02194298648782933 KYTKIFNDF 9 Unmodified _KYTKIFNDF_ 0 0 0 nc|ENSG00000015171|Q15326-6|ZMYND11;nc|ENSG00000015171|Q15326-3|ZMYND11;ENSG00000015171|ENST00000381604|ZMYND11;nc|ENSG00000015171|Q15326-4|ZMYND11;nc|ENSG00000015171|Q15326-5|ZMYND11;nc|ENSG00000015171|Q15326-2|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.3108520507812 2 588.308406 1174.60226 3.9102 0.0023004 0.28393 0.00016704 4.1941 0.0024674 588.308431351662 46.118 0.31226 46.769 46.567 46.879 0.65104 25 9 3 0 0 0 4.5584E-41 1 21120 21120 208.35 132.59 1 2388700 15285 437 9713 9737 17646 17646 0.02194298648782933 KYTKIFNDF 9 Unmodified _KYTKIFNDF_ 0 0 0 nc|ENSG00000015171|Q15326-6|ZMYND11;nc|ENSG00000015171|Q15326-3|ZMYND11;ENSG00000015171|ENST00000381604|ZMYND11;nc|ENSG00000015171|Q15326-4|ZMYND11;nc|ENSG00000015171|Q15326-5|ZMYND11;nc|ENSG00000015171|Q15326-2|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.3095703125 2 588.308406 1174.60226 NaN NaN NaN NaN NaN NaN NaN 46.244 1 46.896 46.396 47.396 0.65219 0 0 0 0.51934 1 21182 21182 18.373 8.99 1 15286 437 9713 9737 17647 17647 0.02194298648782933 KYTPGFNIA 9 Unmodified _KYTPGFNIA_ 0 0 0 REV__nc|ENSG00000078269|O15056-3|SYNJ2 REV__nc|ENSG00000078269|O15056-3|SYNJ2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.7710876464844 2 505.768917 1009.52328 2.892 0.0014627 0.85738 0.00043363 3.7494 0.0018963 505.76935808685374 46.755 0.28851 46.755 46.62 46.909 0 17 9 2 0 0 0 0.038142 1 21415 21415 52.268 22.044 1 881700 + 15287 10569 9714 9738 17648 17648 0.018900714145161146 KYTPPPHHI 9 Unmodified _KYTPPPHHI_ 0 0 0 ENSG00000168653|ENST00000372969|NDUFS5 ENSG00000168653|ENST00000372969|NDUFS5 ENSG00000168653|ENST00000372969|NDUFS5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.8669738769531 3 363.866181 1088.57671 2.8325 0.0010307 -0.34338 -0.00012494 2.4892 0.00090573 363.8660489039265 12.52 0.1931 12.52 12.467 12.66 0 44 15 4 0 0 0 0.0020408 1 5439 5439 83.429 32.013 1 37474000 15288 4640 9715 9739 17649 17649 0.03596868917043139 KYTPPPHHI 9 Unmodified _KYTPPPHHI_ 0 0 0 ENSG00000168653|ENST00000372969|NDUFS5 ENSG00000168653|ENST00000372969|NDUFS5 ENSG00000168653|ENST00000372969|NDUFS5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 363.8669738769531 3 363.866181 1088.57671 1.8709 0.00068077 -0.10806 -3.9318E-05 1.7629 0.00064145 363.86609672089554 12.392 0.12412 12.654 12.627 12.751 0.26154 30 11 4 0 0 0 5.9868E-06 1 5347 5347 83.429 32.013 1 52992000 15289 4640 9715 9739 17650 17650 0.03596868917043139 KYTPPPHHI 9 Unmodified _KYTPPPHHI_ 0 0 0 ENSG00000168653|ENST00000372969|NDUFS5 ENSG00000168653|ENST00000372969|NDUFS5 ENSG00000168653|ENST00000372969|NDUFS5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.8669738769531 3 363.866181 1088.57671 1.8382 0.00066885 0.27875 0.00010143 2.1169 0.00077028 363.8662456900237 12.385 0.18665 12.692 12.661 12.848 0.30727 22 10 4 0 0 0 0.023109 1 5576 5576 49.554 25.765 1 23619000 15290 4640 9715 9739 17651 17651 0.03596868917043139 KYTPPPHHI 9 Unmodified _KYTPPPHHI_ 0 0 0 ENSG00000168653|ENST00000372969|NDUFS5 ENSG00000168653|ENST00000372969|NDUFS5 ENSG00000168653|ENST00000372969|NDUFS5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.8675842285156 3 363.866181 1088.57671 2.9392 0.0010695 0.27047 9.8416E-05 3.2096 0.0011679 363.866235820974 12.37 0.10889 13.008 12.978 13.087 0.63746 15 6 3 0 0 0 0.0063783 1 5534 5534 70.332 35.4 1 33718000 15291 4640 9715 9739 17652 17652 0.03596868917043139 KYTRNRRRRVR 11 Unmodified _KYTRNRRRRVR_ 0 0 0 ENST00000481195.5_1_5:133561503-133561806:-|nuORF ENST00000481195.5_1_5:133561503-133561806:-|nuORF ENST00000481195.5_1_5:133561503-133561806:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.242919921875 4 390.990912 1559.93454 2.8671 0.001121 -0.63481 -0.0002482 2.2323 0.0008728 390.99061398272926 57.229 0.42161 57.494 57.138 57.56 0.26444 51 24 3 0 0 0 0.91489 1 26186 26186 0 0 1 2442300 15292 8289 9716 9740 17653 17653 0.1769723589654859 KYTRNRRRRVR 11 Unmodified _KYTRNRRRRVR_ 0 0 0 ENST00000481195.5_1_5:133561503-133561806:-|nuORF ENST00000481195.5_1_5:133561503-133561806:-|nuORF ENST00000481195.5_1_5:133561503-133561806:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.9918518066406 4 390.990912 1559.93454 2.8983 0.0011332 -0.13457 -5.2614E-05 2.7637 0.0010806 391.2416564965135 56.802 0.59313 57.471 57.214 57.807 0.66829 73 30 3 0 0 0 0.91489 2 25971 25971;25997 0 0 1 2177400 15293 8289 9716 9740 17654;17655 17654 0.1769723589654859 KYVENFGLI 9 Unmodified _KYVENFGLI_ 0 0 0 ENST00000561636.2_1_15:43423309-43423531:+|nuORF;ENSG00000118363|ENST00000263672|SPCS2 ENST00000561636.2_1_15:43423309-43423531:+|nuORF ENST00000561636.2_1_15:43423309-43423531:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.800048828125 2 541.797675 1081.5808 3.1689 0.0017169 0.096747 5.2417E-05 3.2657 0.0017693 541.7975002490801 63.03 0.25135 63.279 63.149 63.4 0.24965 23 14 2 0 0 0 0.017293 1 28870 28870 71.922 24.174 1 1028000 15294 2110 9717 9741 17656 17656 0.043269136200933644 KYVENFGLI 9 Unmodified _KYVENFGLI_ 0 0 0 ENST00000561636.2_1_15:43423309-43423531:+|nuORF;ENSG00000118363|ENST00000263672|SPCS2 ENST00000561636.2_1_15:43423309-43423531:+|nuORF ENST00000561636.2_1_15:43423309-43423531:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.7991943359375 2 541.797675 1081.5808 3.209 0.0017387 -0.037893 -2.0531E-05 3.1712 0.0017181 541.7976777535935 62.403 0.24517 63.063 62.953 63.198 0.66009 26 16 2 0 0 0 0.017293 1 28610 28610 71.922 18.347 1 946310 15295 2110 9717 9741 17657 17657 0.043269136200933644 KYVERIHYI 9 Unmodified _KYVERIHYI_ 0 0 0 nc|ENSG00000103415|P30519-2|HMOX2;ENSG00000103415|ENST00000570646|HMOX2 nc|ENSG00000103415|P30519-2|HMOX2 nc|ENSG00000103415|P30519-2|HMOX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 407.5659484863281 3 407.564391 1219.67134 2.9092 0.0011857 0.00058845 2.3983E-07 2.9098 0.0011859 407.56442253028644 27.621 0.17739 27.621 27.538 27.716 0 22 14 2 0 0 0 0.1776 1 12428 12428 24.882 12.707 1 785430 15296 1397 9718 9742 17658 17658 0.07029382668383732 KYVERIHYI 9 Unmodified _KYVERIHYI_ 0 0 0 nc|ENSG00000103415|P30519-2|HMOX2;ENSG00000103415|ENST00000570646|HMOX2 nc|ENSG00000103415|P30519-2|HMOX2 nc|ENSG00000103415|P30519-2|HMOX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 407.56561279296875 3 407.564391 1219.67134 2.6786 0.0010917 -0.5135 -0.00020928 2.1651 0.00088243 407.5641974289913 26.683 0.18604 27.462 27.328 27.514 0.7787 23 14 2 0 0 0 0.25718 1 11980 11980 19.626 8.727 1 765090 15297 1397 9718 9742 17659 17659 0.07029382668383732 KYVERIHYI 9 Unmodified _KYVERIHYI_ 0 0 0 nc|ENSG00000103415|P30519-2|HMOX2;ENSG00000103415|ENST00000570646|HMOX2 nc|ENSG00000103415|P30519-2|HMOX2 nc|ENSG00000103415|P30519-2|HMOX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.5654602050781 3 407.564391 1219.67134 2.8831 0.001175 0.20789 8.4729E-05 3.091 0.0012598 407.5643859962284 27.512 0.22363 27.775 27.709 27.933 0.26245 26 17 2 0 0 0 0.30351 1 12509 12509 16.566 7.5896 1 600000 15298 1397 9718 9742 17660 17660 0.07029382668383732 KYVERIHYI 9 Unmodified _KYVERIHYI_ 0 0 0 nc|ENSG00000103415|P30519-2|HMOX2;ENSG00000103415|ENST00000570646|HMOX2 nc|ENSG00000103415|P30519-2|HMOX2 nc|ENSG00000103415|P30519-2|HMOX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 407.5663146972656 3 407.564391 1219.67134 2.8464 0.0011601 -0.21881 -8.918E-05 2.6276 0.0010709 407.5642550756189 27.127 0.27143 27.749 27.637 27.908 0.62179 30 16 2 0 0 0 0.43294 1 12415 12415 13.615 2.097 1 525260 15299 1397 9718 9742 17661 17661 0.07029382668383732 KYVKDFHKF 9 Unmodified _KYVKDFHKF_ 0 0 0 ENSG00000196081|ENST00000418100|ZNF724 ENSG00000196081|ENST00000418100|ZNF724 ENSG00000196081|ENST00000418100|ZNF724 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.8923645019531 3 404.557236 1210.64988 2.7022 0.0010932 0.78153 0.00031617 3.4837 0.0014094 404.5576083674327 16.604 0.52896 16.604 16.134 16.663 0 121 68 2 0 0 0 0.47677 3 7378 7292;7336;7378 12.873 6.2422 1 362780 15300 5716 9719 9743 17662;17663;17664 17664 0.05297997639627283 KYVKDFHKF 9 Unmodified _KYVKDFHKF_ 0 0 0 ENSG00000196081|ENST00000418100|ZNF724 ENSG00000196081|ENST00000418100|ZNF724 ENSG00000196081|ENST00000418100|ZNF724 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.5581970214844 3 404.557236 1210.64988 2.7091 0.001096 0.12008 4.8581E-05 2.8292 0.0011446 404.55725345270037 16.749 0.36776 16.749 16.663 17.031 0 103 41 3 0 0 0 0.094033 3 7490 7397;7441;7490 34.222 23.422 1 367810 15301 5716 9719 9743 17665;17666;17667 17667 0.05297997639627283 KYVKDFHKF 9 Unmodified _KYVKDFHKF_ 0 0 0 ENSG00000196081|ENST00000418100|ZNF724 ENSG00000196081|ENST00000418100|ZNF724 ENSG00000196081|ENST00000418100|ZNF724 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.5585632324219 3 404.557236 1210.64988 2.6552 0.0010742 0.58834 0.00023802 3.2436 0.0013122 404.55743675601644 14.871 0.45761 15.098 14.91 15.367 0.22622 118 43 4 0 0 0 0.088474 3 6552 6510;6552;6598 35.612 24.813 1 806680 15302 5716 9719 9743 17668;17669;17670 17669 0.05297997639627283 KYVKGLISI 9 Unmodified _KYVKGLISI_ 0 0 0 nc|ENSG00000118965|Q9P2L0|WDR35;ENSG00000118965|ENST00000281405|WDR35 nc|ENSG00000118965|Q9P2L0|WDR35 nc|ENSG00000118965|Q9P2L0|WDR35 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.82696533203125 2 510.826235 1019.63792 3.0606 0.0015634 0.088514 4.5215E-05 3.1491 0.0016087 510.8260343925697 43.438 0.23174 44.252 44.174 44.405 0.81444 20 10 3 0 0 0 0.030603 1 19787 19787 55.503 24.866 1 331590 15303 2128 9720 9744 17671 17671 0.1288838089649289 KYVKIFDNF 9 Unmodified _KYVKIFDNF_ 0 0 0 nc|ENSG00000005801|O14628-4|ZNF195;nc|ENSG00000005801|O14628-7|ZNF195;nc|ENSG00000005801|O14628-5|ZNF195;nc|ENSG00000005801|O14628-6|ZNF195;ENSG00000005801|ENST00000399602|ZNF195 nc|ENSG00000005801|O14628-4|ZNF195 nc|ENSG00000005801|O14628-4|ZNF195 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.31982421875 2 587.318774 1172.623 3.6868 0.0021653 -0.1257 -7.3826E-05 3.5611 0.0020915 587.3186096633702 53.228 0.22662 53.228 53.097 53.324 0 24 12 3 0 0 0 0.0057865 2 24352 24352;24402 90.135 56.033 1 1226900 15304 333 9721 9745 17672;17673 17672 0.043588890284581794 KYVKIFDNF 9 Unmodified _KYVKIFDNF_ 0 0 0 nc|ENSG00000005801|O14628-4|ZNF195;nc|ENSG00000005801|O14628-7|ZNF195;nc|ENSG00000005801|O14628-5|ZNF195;nc|ENSG00000005801|O14628-6|ZNF195;ENSG00000005801|ENST00000399602|ZNF195 nc|ENSG00000005801|O14628-4|ZNF195 nc|ENSG00000005801|O14628-4|ZNF195 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.8225708007812 2 587.318774 1172.623 2.8646 0.0016824 0.4673 0.00027445 3.3319 0.0019569 587.3188450148514 52.044 0.26717 52.855 52.745 53.012 0.81066 31 16 3 0 0 0 0.0084842 1 23714 23714 84.522 57.639 1 833370 15305 333 9721 9745 17674 17674 0.043588890284581794 KYVKIFDNF 9 Unmodified _KYVKIFDNF_ 0 0 0 nc|ENSG00000005801|O14628-4|ZNF195;nc|ENSG00000005801|O14628-7|ZNF195;nc|ENSG00000005801|O14628-5|ZNF195;nc|ENSG00000005801|O14628-6|ZNF195;ENSG00000005801|ENST00000399602|ZNF195 nc|ENSG00000005801|O14628-4|ZNF195 nc|ENSG00000005801|O14628-4|ZNF195 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.3209838867188 2 587.318774 1172.623 3.3598 0.0019732 0.49008 0.00028783 3.8498 0.0022611 587.3188031808913 52.554 0.21915 53.216 53.073 53.292 0.66198 11 8 2 0 0 0 0.025135 1 24021 24021 61.602 39.855 1 523700 15306 333 9721 9745 17675 17675 0.043588890284581794 KYVKILYDF 9 Unmodified _KYVKILYDF_ 0 0 0 ENST00000527832.5_1_11:724661-726978:+|nuORF;nc|ENSG00000177106|Q9H6S3-2|EPS8L2;ENST00000531393.5_1_11:721935-726978:+|nuORF;ENST00000526909.5_1_11:710402-726978:+|nuORF;ENSG00000177106|ENST00000318562|EPS8L2;nc|ENSG00000177106|Q9H6S3-3|EPS8L2 ENST00000527832.5_1_11:724661-726978:+|nuORF ENST00000527832.5_1_11:724661-726978:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 594.83837890625 2 594.8368 1187.65905 3.2338 0.0019236 -0.20337 -0.00012097 3.0305 0.0018026 594.8365398146562 55.853 0.21814 55.853 55.758 55.977 0 36 16 3 0 0 0 0.003492 2 25678 25678;25739 103.42 74.338 1 2985700 15307 5104 9722 9746 17676;17677 17676 0.07272346205309077 KYVKILYDF 9 Unmodified _KYVKILYDF_ 0 0 0 ENST00000527832.5_1_11:724661-726978:+|nuORF;nc|ENSG00000177106|Q9H6S3-2|EPS8L2;ENST00000531393.5_1_11:721935-726978:+|nuORF;ENST00000526909.5_1_11:710402-726978:+|nuORF;ENSG00000177106|ENST00000318562|EPS8L2;nc|ENSG00000177106|Q9H6S3-3|EPS8L2 ENST00000527832.5_1_11:724661-726978:+|nuORF ENST00000527832.5_1_11:724661-726978:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 396.89404296875 3 396.893625 1187.65905 2.4468 0.00097112 -0.14475 -5.745E-05 2.302 0.00091367 396.8933606134177 55.83 0.19169 55.83 55.768 55.96 0 23 14 2 0 0 0 0.96953 1 25712 25712 4.5289 2.6225 1 699250 15308 5104 9722 9746 17678 17678 0.07272346205309077 KYVKILYDF 9 Unmodified _KYVKILYDF_ 0 0 0 ENST00000527832.5_1_11:724661-726978:+|nuORF;nc|ENSG00000177106|Q9H6S3-2|EPS8L2;ENST00000531393.5_1_11:721935-726978:+|nuORF;ENST00000526909.5_1_11:710402-726978:+|nuORF;ENSG00000177106|ENST00000318562|EPS8L2;nc|ENSG00000177106|Q9H6S3-3|EPS8L2 ENST00000527832.5_1_11:724661-726978:+|nuORF ENST00000527832.5_1_11:724661-726978:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 396.894287109375 3 396.893625 1187.65905 2.2236 0.00088254 -0.91196 -0.00036195 1.3116 0.00052058 396.89331804408187 54.738 0.20442 55.534 55.427 55.632 0.79552 21 12 2 0 0 0 0.63753 1 24972 24972 10.151 8.4083 1 672350 15309 5104 9722 9746 17679 17679 0.07272346205309077 KYVKILYDF 9 Unmodified _KYVKILYDF_ 0 0 0 ENST00000527832.5_1_11:724661-726978:+|nuORF;nc|ENSG00000177106|Q9H6S3-2|EPS8L2;ENST00000531393.5_1_11:721935-726978:+|nuORF;ENST00000526909.5_1_11:710402-726978:+|nuORF;ENSG00000177106|ENST00000318562|EPS8L2;nc|ENSG00000177106|Q9H6S3-3|EPS8L2 ENST00000527832.5_1_11:724661-726978:+|nuORF ENST00000527832.5_1_11:724661-726978:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 594.839111328125 2 594.8368 1187.65905 3.1467 0.0018718 0.012117 7.2074E-06 3.1588 0.001879 594.8367298538159 54.74 0.23964 55.536 55.412 55.652 0.79552 30 14 3 0 0 0 0.0090824 1 24992 24992 90.135 67.399 1 2385200 15310 5104 9722 9746 17680 17680 0.07272346205309077 KYVKILYDF 9 Unmodified _KYVKILYDF_ 0 0 0 ENST00000527832.5_1_11:724661-726978:+|nuORF;nc|ENSG00000177106|Q9H6S3-2|EPS8L2;ENST00000531393.5_1_11:721935-726978:+|nuORF;ENST00000526909.5_1_11:710402-726978:+|nuORF;ENSG00000177106|ENST00000318562|EPS8L2;nc|ENSG00000177106|Q9H6S3-3|EPS8L2 ENST00000527832.5_1_11:724661-726978:+|nuORF ENST00000527832.5_1_11:724661-726978:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 594.8387451171875 2 594.8368 1187.65905 3.5733 0.0021255 0.2079 0.00012366 3.7812 0.0022492 594.8366339619254 55.831 0.24471 56.097 55.961 56.205 0.26543 23 9 3 0 0 0 0.0022548 1 25521 25521 121.53 92.453 1 1352500 15311 5104 9722 9746 17681 17681 0.07272346205309077 KYVKILYDF 9 Unmodified _KYVKILYDF_ 0 0 0 ENST00000527832.5_1_11:724661-726978:+|nuORF;nc|ENSG00000177106|Q9H6S3-2|EPS8L2;ENST00000531393.5_1_11:721935-726978:+|nuORF;ENST00000526909.5_1_11:710402-726978:+|nuORF;ENSG00000177106|ENST00000318562|EPS8L2;nc|ENSG00000177106|Q9H6S3-3|EPS8L2 ENST00000527832.5_1_11:724661-726978:+|nuORF ENST00000527832.5_1_11:724661-726978:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 594.8389892578125 2 594.8368 1187.65905 3.9116 0.0023268 0.22555 0.00013417 4.1371 0.0024609 594.8368532191414 55.016 0.29463 55.684 55.533 55.828 0.66798 34 12 3 0 0 0 0.01 2 25206 25153;25206 99.755 74.356 1 1400400 15312 5104 9722 9746 17682;17683 17683 0.07272346205309077 KYVKILYDF 9 Unmodified _KYVKILYDF_ 0 0 0 ENST00000527832.5_1_11:724661-726978:+|nuORF;nc|ENSG00000177106|Q9H6S3-2|EPS8L2;ENST00000531393.5_1_11:721935-726978:+|nuORF;ENST00000526909.5_1_11:710402-726978:+|nuORF;ENSG00000177106|ENST00000318562|EPS8L2;nc|ENSG00000177106|Q9H6S3-3|EPS8L2 ENST00000527832.5_1_11:724661-726978:+|nuORF ENST00000527832.5_1_11:724661-726978:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 396.893625 1187.65905 2.8482 0.0011304 0.44265 0.00017569 3.2908 0.0013061 396.8937432193359 55.787 0.21654 56.053 55.961 56.177 0.26543 0.27671 0.00052528 NaN 10.151 14 8 2 NaN NaN NaN NaN 0 NaN NaN 0 432520 15313 5104 9722 9746 0.07272346205309077 KYVKILYDF 9 Unmodified _KYVKILYDF_ 0 0 0 ENST00000527832.5_1_11:724661-726978:+|nuORF;nc|ENSG00000177106|Q9H6S3-2|EPS8L2;ENST00000531393.5_1_11:721935-726978:+|nuORF;ENST00000526909.5_1_11:710402-726978:+|nuORF;ENSG00000177106|ENST00000318562|EPS8L2;nc|ENSG00000177106|Q9H6S3-3|EPS8L2 ENST00000527832.5_1_11:724661-726978:+|nuORF ENST00000527832.5_1_11:724661-726978:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 396.893625 1187.65905 2.86 0.0011351 0.56173 0.00022295 3.4217 0.0013581 396.89377886027586 55.02 0.21907 55.688 55.584 55.803 0.66798 -0.088129 0.00066706 NaN 10.151 14 9 2 NaN NaN NaN NaN 0 NaN NaN 0 382680 15314 5104 9722 9746 0.07272346205309077 KYVKVFHKF 9 Unmodified _KYVKVFHKF_ 0 0 0 ENSG00000172687|ENST00000683779|ZNF738;ENSG00000268696|ENST00000600766|ZNF723;ENSG00000146757|ENST00000328747|ZNF92;ENSG00000196705|ENST00000311048|ZNF431;nc|ENSG00000146757|Q03936-3|ZNF92;ENSG00000173041|ENST00000309683|ZNF680;ZNF92|p.C514Vfs*16|1|0.33|ENSG00000146757|chr7:65399654-65399654|T/-|frameshift_variant;nc|ENSG00000146757|Q03936-2|ZNF92;ENSG00000183850|ENST00000597761|ZNF730;ENST00000600692.5_1_19:21350445-21366834:+|nuORF;ENST00000600766.1_3_19:23032061-23041232:+|nuORF;ENST00000594254.1_1_19:21565732-21566473:+|nuORF;ENSG00000229676|ENST00000456783|ZNF492;ENSG00000197360|ENST00000357774|ZNF98 ENSG00000172687|ENST00000683779|ZNF738;ENSG00000229676|ENST00000456783|ZNF492 ENSG00000172687|ENST00000683779|ZNF738 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.23870849609375 3 399.237726 1194.69135 2.6895 0.0010737 -0.016037 -6.4025E-06 2.6735 0.0010673 399.5721822624509 18.347 0.17189 18.347 18.276 18.448 0 15 9 2 0 0 0 0.26118 1 8166 8166 19.362 14.065 1 223360 15315 4884;5810 9723 9747 17684 17684 0.1017917839897109 KYVKVFHQF 9 Unmodified _KYVKVFHQF_ 0 0 0 ENST00000311237.4_19:20578692-20592633:-|nuORF;ENSG00000256229|ENST00000335117|ZNF486 ENST00000311237.4_19:20578692-20592633:-|nuORF ENST00000311237.4_19:20578692-20592633:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.2266540527344 3 399.225598 1194.65496 2.9355 0.0011719 0.096432 3.8498E-05 3.032 0.0012104 399.2255318675517 28.55 0.26038 28.55 28.444 28.705 0 42 21 3 0 0 0 0.057945 2 12910 12862;12910 43.772 35.617 1 539330 15316 6288 9724 9748 17685;17686 17686 0.06542301502258852 KYVKVFHQF 9 Unmodified _KYVKVFHQF_ 0 0 0 ENST00000311237.4_19:20578692-20592633:-|nuORF;ENSG00000256229|ENST00000335117|ZNF486 ENST00000311237.4_19:20578692-20592633:-|nuORF ENST00000311237.4_19:20578692-20592633:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.2266845703125 3 399.225598 1194.65496 2.7103 0.001082 -0.078452 -3.132E-05 2.6318 0.0010507 399.2254932847602 27.552 0.26595 28.338 28.242 28.508 0.78627 51 24 3 0 0 0 0.02631 2 12405 12359;12405 60.074 51.918 1 584850 15317 6288 9724 9748 17687;17688 17688 0.06542301502258852 KYVKVFHQF 9 Unmodified _KYVKVFHQF_ 0 0 0 ENST00000311237.4_19:20578692-20592633:-|nuORF;ENSG00000256229|ENST00000335117|ZNF486 ENST00000311237.4_19:20578692-20592633:-|nuORF ENST00000311237.4_19:20578692-20592633:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.2266845703125 3 399.225598 1194.65496 2.9368 0.0011724 -0.31094 -0.00012414 2.6258 0.0010483 399.22542131605326 28.566 0.25427 28.826 28.683 28.937 0.2602 25 16 2 0 0 0 0.30982 1 13001 13001 16.149 7.9936 1 429420 15318 6288 9724 9748 17689 17689 0.06542301502258852 KYVKVFHQF 9 Unmodified _KYVKVFHQF_ 0 0 0 ENST00000311237.4_19:20578692-20592633:-|nuORF;ENSG00000256229|ENST00000335117|ZNF486 ENST00000311237.4_19:20578692-20592633:-|nuORF ENST00000311237.4_19:20578692-20592633:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.2263488769531 3 399.225598 1194.65496 2.8589 0.0011413 -0.12295 -4.9084E-05 2.7359 0.0010922 399.22538830803114 28.166 0.29379 28.785 28.614 28.908 0.61947 27 19 2 0 0 0 0.33646 1 12927 12927 15.248 10.351 1 351560 15319 6288 9724 9748 17690 17690 0.06542301502258852 KYVKVLHKF 9 Unmodified _KYVKVLHKF_ 0 0 0 nc|ENSG00000198039|Q14593-2|ZNF273;ENSG00000198039|ENST00000476120|ZNF273 nc|ENSG00000198039|Q14593-2|ZNF273 nc|ENSG00000198039|Q14593-2|ZNF273 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 388.2444763183594 3 387.90961 1160.707 2.1806 0.00084586 -0.28983 -0.00011243 1.8907 0.00073343 387.9095951277967 12.981 0.19813 13.225 13.163 13.361 0.24346 28 17 2 0 0 0 0.21127 1 5653 5653 22.658 0 1 483180 15320 5860 9725 9749 17691 17691 0.13307464916033496 KYVKVLHKF 9 Unmodified _KYVKVLHKF_ 0 0 0 nc|ENSG00000198039|Q14593-2|ZNF273;ENSG00000198039|ENST00000476120|ZNF273 nc|ENSG00000198039|Q14593-2|ZNF273 nc|ENSG00000198039|Q14593-2|ZNF273 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.8858947753906 3 387.90961 1160.707 2.261 0.00087706 -0.95113 -0.00036895 1.3099 0.00050811 387.90978005856186 12.906 0.11926 13.213 13.159 13.279 0.30727 5 3 2 0 0 0 0.96953 1 5839 5839 4.5289 0 1 95825 15321 5860 9725 9749 17692 17692 0.13307464916033496 KYVKVLHKF 9 Unmodified _KYVKVLHKF_ 0 0 0 nc|ENSG00000198039|Q14593-2|ZNF273;ENSG00000198039|ENST00000476120|ZNF273 nc|ENSG00000198039|Q14593-2|ZNF273 nc|ENSG00000198039|Q14593-2|ZNF273 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.8973388671875 3 387.90961 1160.707 NaN NaN NaN NaN NaN NaN NaN 12.707 1 13.35 12.85 13.85 0.64272 0 0 0 0.77239 1 5704 5704 10.151 0 1 15322 5860 9725 9749 17693 17693 0.13307464916033496 KYVSGEFRF 9 Unmodified _KYVSGEFRF_ 0 0 0 ENSG00000124784|ENST00000379834|RIOK1 ENSG00000124784|ENST00000379834|RIOK1 ENSG00000124784|ENST00000379834|RIOK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.7938232421875 2 566.792924 1131.57129 3.3873 0.0019199 -0.60471 -0.00034275 2.7826 0.0015771 566.7927254690455 41.239 0.15442 42.042 41.976 42.13 0.80351 13 8 2 0 0 0 0.17594 1 18719 18719 24.991 7.8781 1 575150 15323 2380 9726 9750 17694 17694 0.01077145334556917 KYVTVYNLI 9 Unmodified _KYVTVYNLI_ 0 0 0 ENST00000560954.5_1_15:50731270-50751199:+|nuORF;ENST00000558892.1_1_15:50731270-50736797:+|nuORF;ENSG00000138592|ENST00000307179|USP8 ENST00000560954.5_1_15:50731270-50751199:+|nuORF ENST00000560954.5_1_15:50731270-50751199:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.822998046875 2 556.82115 1111.62775 3.8065 0.0021196 -0.61516 -0.00034253 3.1914 0.001777 556.8207608936071 67.912 0.16426 68.164 68.068 68.232 0.25227 14 10 2 0 0 0 0.078225 2 31106 31106;31116 38.176 15.145 1 341700 15324 3098 9727 9751 17695;17696 17695 0.07639773171217712 KYWKKKNKCK 10 Unmodified _KYWKKKNKCK_ 0 0 0 REV__ENSG00000206559|ENST00000383768|ZCWPW2 REV__ENSG00000206559|ENST00000383768|ZCWPW2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.3988647460938 2 677.394825 1352.7751 4.5522 0.0030836 0.64727 0.00043846 5.1995 0.0035221 677.8963105564338 96.034 0.56177 96.301 96.097 96.659 0.26751 64 29 3 0 0 0 0.94134 1 44084 44084 1.4819 1.1749 1 1311400 + 15325 14478 9728 9752 17697 17697 0.112819665043844 KYWLYKIEIKR 11 Unmodified _KYWLYKIEIKR_ 0 0 0 ENST00000503370.5_1_4:123814355-123833769:-|nuORF ENST00000503370.5_1_4:123814355-123833769:-|nuORF ENST00000503370.5_1_4:123814355-123833769:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 770.4556884765625 2 770.455936 1538.89732 NaN NaN NaN NaN NaN NaN NaN 54.583 1 55.249 54.749 55.749 0.6665 0 0 0 1.0082 1 24972 24972 0 0 1 15326 8488 9729 9753 17698 17698 0.14942706787587667 KYYKEYWERYK 11 Unmodified _KYYKEYWERYK_ 0 0 0 REV__ENSG00000122257|ENST00000319715|RBBP6 REV__ENSG00000122257|ENST00000319715|RBBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.6118774414062 3 552.612069 1654.81438 NaN NaN NaN NaN NaN NaN NaN 40.156 1 40.956 40.456 41.456 0.80014 0 0 0 1.0082 1 18183 18183 0 0 1 + 15327 11580 9730 9754 17699 17699 0.013163452689468613 KYYSVKNPVLI 11 Unmodified _KYYSVKNPVLI_ 0 0 0 ENST00000485895.6_2_21:40801131-40817670:-|nuORF;ENST00000358268.6_2_21:40801131-40817638:-|nuORF ENST00000485895.6_2_21:40801131-40817670:-|nuORF ENST00000485895.6_2_21:40801131-40817670:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.9287414550781 3 441.927218 1322.75982 2.8534 0.001261 0.4489 0.00019838 3.3023 0.0014594 441.9273304217242 49.471 0.37743 49.471 49.357 49.735 0 37 15 3 0 0 0 0.91068 1 22715 22715 1.3296 0.11481 1 1136100 15328 7188 9731 9755 17700 17700 0.1113537818819168 LAAALCMW 8 Unmodified _LAAALCMW_ 0 0 0 REV__ENST00000524501.1_1_11:89867926-89868807:+|nuORF REV__ENST00000524501.1_1_11:89867926-89868807:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 439.71783447265625 2 439.716784 877.419016 3.2699 0.0014378 -0.69352 -0.00030495 2.5763 0.0011329 439.7164619512273 93.321 0.51572 93.953 93.609 94.124 0.63115 45 25 2 0 0 0 0.73686 1 42972 42972 2.8892 2.0956 1 727030 + 15329 10561 9732 9756 17701 17701 -0.024596699382072984 LAAARLAAA 9 Unmodified _LAAARLAAA_ 0 0 0 ENST00000471856.1_1_1:146649692-146651075:+|nuORF;ENSG00000167004|ENST00000300289|PDIA3;ENST00000469684.1_1_15:44038662-44048907:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 414.25982666015625 2 414.25852 826.502486 3.0658 0.00127 0.0021895 9.0703E-07 3.068 0.0012709 414.25850892664386 28.602 0.27569 28.602 28.455 28.731 0 69 22 4 0 0 0 0.0044949 2 12909 12909;12957 92.822 10.958 1 6494600 15330 4525 9733 9757 17702;17703 17702 0.08229525825493056 LAAARLAAA 9 Unmodified _LAAARLAAA_ 0 0 0 ENST00000471856.1_1_1:146649692-146651075:+|nuORF;ENSG00000167004|ENST00000300289|PDIA3;ENST00000469684.1_1_15:44038662-44048907:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 414.25970458984375 2 414.25852 826.502486 2.7805 0.0011518 0.3042 0.00012602 3.0847 0.0012779 414.2586311180889 27.735 0.36729 28.522 28.349 28.716 0.78627 90 33 4 0 0 0 0.0044949 1 12479 12479 92.822 11.209 1 5186300 15331 4525 9733 9757 17704 17704 0.08229525825493056 LAAARLAAA 9 Unmodified _LAAARLAAA_ 0 0 0 ENST00000471856.1_1_1:146649692-146651075:+|nuORF;ENSG00000167004|ENST00000300289|PDIA3;ENST00000469684.1_1_15:44038662-44048907:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.25982666015625 2 414.25852 826.502486 2.8234 0.0011696 -0.0098266 -4.0708E-06 2.8135 0.0011655 414.25853174123904 28.26 0.38161 28.523 28.335 28.716 0.26245 94 28 4 0 0 0 0.0044949 3 12849 12849;12894;12938 92.822 7.4654 1 23307000 15332 4525 9733 9757 17705;17706;17707 17705 0.08229525825493056 LAAARLAAA 9 Unmodified _LAAARLAAA_ 0 0 0 ENST00000471856.1_1_1:146649692-146651075:+|nuORF;ENSG00000167004|ENST00000300289|PDIA3;ENST00000469684.1_1_15:44038662-44048907:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 827.5121459960938 1 827.509763 826.502486 3.7541 0.0031065 -0.23773 -0.00019672 3.5164 0.0029098 827.5094450919285 28.26 0.19772 28.523 28.446 28.644 0.26245 20 14 2 0 0 0 0.035095 1 12858 12858 53.576 9.1686 1 434120 15333 4525 9733 9757 17708 17708 0.08229525825493056 LAAARLAAA 9 Unmodified _LAAARLAAA_ 0 0 0 ENST00000471856.1_1_1:146649692-146651075:+|nuORF;ENSG00000167004|ENST00000300289|PDIA3;ENST00000469684.1_1_15:44038662-44048907:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.2598571777344 2 414.25852 826.502486 2.9068 0.0012042 -0.062362 -2.5834E-05 2.8444 0.0011783 414.25851750193533 27.848 0.37158 28.467 28.302 28.674 0.61947 78 25 4 0 0 0 0.0044949 1 12777 12777 92.822 0 1 23828000 15334 4525 9733 9757 17709 17709 0.08229525825493056 LAAARLAAA 9 Unmodified _LAAARLAAA_ 0 0 0 ENST00000471856.1_1_1:146649692-146651075:+|nuORF;ENSG00000167004|ENST00000300289|PDIA3;ENST00000469684.1_1_15:44038662-44048907:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF ENST00000471856.1_1_1:146649692-146651075:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 827.5126953125 1 827.509763 826.502486 3.8723 0.0032044 -0.45956 -0.00038029 3.4128 0.0028241 827.5093434077281 27.839 0.1954 28.458 28.387 28.583 0.61947 24 14 2 0 0 0 0.041436 1 12783 12783 50.855 8.7605 1 484350 15335 4525 9733 9757 17710 17710 0.08229525825493056 LAAAVNRH 8 Unmodified _LAAAVNRH_ 0 0 0 REV__ENST00000436411.5_1_7:107204485-107204728:+|nuORF REV__ENST00000436411.5_1_7:107204485-107204728:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 426.24737548828125 2 426.245944 850.477334 3.1122 0.0013266 -0.083443 -3.5567E-05 3.0288 0.001291 426.24582848971244 80.987 0.43223 81.647 81.394 81.826 0.65997 51 20 3 0 0 0 0.74071 1 37306 37306 2.5775 0.27475 1 4632800 + 15336 16306 9734 9758 17711 17711 0.0461147102294035 LAAFLELH 8 Unmodified _LAAFLELH_ 0 0 0 chr9:35676389-35679854|409|25.52|0.17|7.27|+|0|CA9,CA9|1 chr9:35676389-35679854|409|25.52|0.17|7.27|+|0|CA9,CA9|1 chr9:35676389-35679854|409|25.52|0.17|7.27|+|0|CA9,CA9|1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.7624206542969 2 457.260728 912.506903 2.9739 0.0013598 1.8421 0.0008423 4.8159 0.0022021 457.26155920389107 47.535 0.29551 47.798 47.539 47.834 0.26363 17 11 2 0 0 0 0.13779 1 21737 21737 6.3541 0 1 2182400 15337 193 9735 9759 17712 17712 0.04714990248419326 LAALKKVLH 9 Unmodified _LAALKKVLH_ 0 0 0 REV__ENSG00000118873|ENST00000358951|RAB3GAP2 REV__ENSG00000118873|ENST00000358951|RAB3GAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.79388427734375 2 496.834394 991.654236 NaN NaN NaN NaN NaN NaN NaN 74.089 1 74.753 74.253 75.253 0.6644 0 0 0 0.89683 1 34096 34096 4.3292 0.38484 1 + 15338 11483 9736 9760 17713 17713 0.15807506853207087 LAALKKVLH 9 Unmodified _LAALKKVLH_ 0 0 0 REV__ENSG00000118873|ENST00000358951|RAB3GAP2 REV__ENSG00000118873|ENST00000358951|RAB3GAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.8351745605469 2 496.834394 991.654236 NaN NaN NaN NaN NaN NaN NaN 74.576 1 75.24 74.74 75.74 0.6644 0 0 0 0.89683 1 34332 34332 4.3292 0.38484 1 + 15339 11483 9736 9760 17714 17714 0.15807506853207087 LAAMAKLLM 9 Unmodified _LAAMAKLLM_ 0 0 0 REV__ENSG00000125817|ENST00000379751|CENPB REV__ENSG00000125817|ENST00000379751|CENPB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.2838134765625 2 481.282292 960.55003 3.1707 0.001526 -0.090105 -4.3366E-05 3.0806 0.0014826 481.28217149529814 63.936 0.20542 64.592 64.455 64.66 0.65672 17 13 2 0 0 0 0.14729 1 29309 29309 26.884 5.137 1 544310 + 15340 11695 9737 9761 17715 17715 0.06817720709852892 LAASAKLGNL 10 Unmodified _LAASAKLGNL_ 0 0 0 REV__ENSG00000100154|ENST00000397906|TTC28 REV__ENSG00000100154|ENST00000397906|TTC28 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.2917785644531 2 479.290017 956.565481 3.2222 0.0015444 0.86651 0.00041531 4.0887 0.0019597 479.29012030530333 18.857 0.37258 19.518 19.299 19.671 0.66072 50 29 2 0 0 0 0.73282 1 8508 8508 11.64 0 1 758080 + 15341 10808 9738 9762 17716 17716 0.0854604682289164 LAATHEPT 8 Unmodified _LAATHEPT_ 0 0 0 ENSG00000141579|ENST00000269394|ZNF750 ENSG00000141579|ENST00000269394|ZNF750 ENSG00000141579|ENST00000269394|ZNF750 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 839.4306640625 1 839.425758 838.418482 4.0911 0.0034342 -0.10433 -8.7577E-05 3.9868 0.0033466 839.4259002850109 47.155 0.27663 47.419 47.28 47.556 0.26363 15 11 2 0 0 0 0.16336 1 21535 21535 46.921 3.0626 1 375510 15342 3273 9739 9763 17717 17717 -0.00719050062059523 LADAINTEF 9 Unmodified _LADAINTEF_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.249267578125 2 497.248015 992.481476 3.2462 0.0016142 0.28189 0.00014017 3.5281 0.0017543 497.2480356726428 60.622 0.21157 60.878 60.848 61.059 0.25578 26 14 2 0 0 0 0.10837 1 27768 27768 30.637 12.502 1 1434300 15343 483 9740 9764 17718 17718 -0.015065290646703033 LADAINTEF 9 Unmodified _LADAINTEF_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.2490234375 2 497.248015 992.481476 NaN NaN NaN NaN NaN NaN NaN 60.153 1 60.818 60.318 61.318 0.66503 0 0 0 0.45908 1 27541 27541 20.454 8.8133 1 15344 483 9740 9764 17719 17719 -0.015065290646703033 LADEVITVF 9 Unmodified _LADEVITVF_ 0 0 0 nc|ENSG00000097033|Q9Y371-3|SH3GLB1;ENSG00000097033|ENST00000370558|SH3GLB1;nc|ENSG00000097033|Q9Y371-2|SH3GLB1 nc|ENSG00000097033|Q9Y371-3|SH3GLB1 nc|ENSG00000097033|Q9Y371-3|SH3GLB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.7779846191406 2 503.776408 1005.53826 3.108 0.0015658 0.43202 0.00021764 3.5401 0.0017834 503.77645665313196 82.361 0.50497 82.608 82.46 82.965 0.24722 53 26 3 0 0 0 0.041436 1 37898 37898 50.855 6.448 1 1944200 15345 1132 9741 9765 17720 17720 0.03571518491855841 LADEVITVF 9 Unmodified _LADEVITVF_ 0 0 0 nc|ENSG00000097033|Q9Y371-3|SH3GLB1;ENSG00000097033|ENST00000370558|SH3GLB1;nc|ENSG00000097033|Q9Y371-2|SH3GLB1 nc|ENSG00000097033|Q9Y371-3|SH3GLB1 nc|ENSG00000097033|Q9Y371-3|SH3GLB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.7781982421875 2 503.776408 1005.53826 3.357 0.0016912 0.39845 0.00020073 3.7554 0.0018919 503.7765685074179 81.797 0.43345 82.457 82.254 82.688 0.65998 57 28 3 0 0 0 0.026068 2 37695 37643;37695 60.39 13.469 1 2319100 15346 1132 9741 9765 17721;17722 17722 0.03571518491855841 LADHPDAPM 9 Unmodified _LADHPDAPM_ 0 0 0 ENST00000560710.1_1_15:79184565-79186592:+|nuORF;nc|ENSG00000185787|Q9UBU8-3|MORF4L1;ENSG00000185787|ENST00000426013|MORF4L1;nc|ENSG00000185787|Q9UBU8|MORF4L1 ENST00000560710.1_1_15:79184565-79186592:+|nuORF ENST00000560710.1_1_15:79184565-79186592:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.72265625 2 483.72111 965.427666 NaN NaN NaN NaN NaN NaN NaN 26.815 1 26.815 26.315 27.315 0 0 0 0 0.86044 1 12076 12076 7.2892 2.0586 1 15347 5531 9742 9766 17723 17723 -0.056430247680282264 LADHPDAPM 9 Unmodified _LADHPDAPM_ 0 0 0 ENST00000560710.1_1_15:79184565-79186592:+|nuORF;nc|ENSG00000185787|Q9UBU8-3|MORF4L1;ENSG00000185787|ENST00000426013|MORF4L1;nc|ENSG00000185787|Q9UBU8|MORF4L1 ENST00000560710.1_1_15:79184565-79186592:+|nuORF ENST00000560710.1_1_15:79184565-79186592:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.72283935546875 2 483.72111 965.427666 3.0023 0.0014523 0.10991 5.3165E-05 3.1123 0.0015055 483.721078376986 25.728 0.29362 26.491 26.382 26.675 0.76356 24 16 2 0 0 0 0.29781 1 11572 11572 16.942 7.5949 1 236260 15348 5531 9742 9766 17724 17724 -0.056430247680282264 LADHPDAPM 9 Unmodified _LADHPDAPM_ 0 0 0 ENST00000560710.1_1_15:79184565-79186592:+|nuORF;nc|ENSG00000185787|Q9UBU8-3|MORF4L1;ENSG00000185787|ENST00000426013|MORF4L1;nc|ENSG00000185787|Q9UBU8|MORF4L1 ENST00000560710.1_1_15:79184565-79186592:+|nuORF ENST00000560710.1_1_15:79184565-79186592:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.7220458984375 2 483.72111 965.427666 3.1109 0.0015048 -0.28433 -0.00013754 2.8266 0.0013673 483.7208874909428 26.395 0.30264 26.66 26.49 26.793 0.26489 46 23 3 0 0 0 0.22507 2 11998 11952;11998 21.747 13.153 1 361660 15349 5531 9742 9766 17725;17726 17726 -0.056430247680282264 LADHPDAPM 9 Unmodified _LADHPDAPM_ 0 0 0 ENST00000560710.1_1_15:79184565-79186592:+|nuORF;nc|ENSG00000185787|Q9UBU8-3|MORF4L1;ENSG00000185787|ENST00000426013|MORF4L1;nc|ENSG00000185787|Q9UBU8|MORF4L1 ENST00000560710.1_1_15:79184565-79186592:+|nuORF ENST00000560710.1_1_15:79184565-79186592:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.722412109375 2 483.72111 965.427666 3.0789 0.0014893 -0.17401 -8.4174E-05 2.9049 0.0014052 483.720963548764 26.045 0.28507 26.67 26.547 26.832 0.62505 27 20 2 0 0 0 0.12301 1 11939 11939 28.487 17.663 1 319850 15350 5531 9742 9766 17727 17727 -0.056430247680282264 LADHTVHVL 9 Unmodified _LADHTVHVL_ 0 0 0 ENST00000568574.1_1_15:30926543-30927454:+|nuORF;ENST00000566362.1_1_15:30922935-30927517:+|nuORF;ENST00000564902.5_1_15:30917016-30927830:+|nuORF;nc|ENSG00000285077|Q3KRB8|ARHGAP11B;nc|ENSG00000198826|Q6P4F7-2|ARHGAP11A;ARHGAP11A|p.M519Ifs*14|1|0.45|ENSG00000198826|chr15:32636330-32636330|G/-|frameshift_variant;ENSG00000198826|ENST00000361627|ARHGAP11A ENST00000568574.1_1_15:30926543-30927454:+|nuORF ENST00000568574.1_1_15:30926543-30927454:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.7810363769531 2 502.779816 1003.54508 NaN NaN NaN NaN NaN NaN NaN 30.605 1 30.605 30.105 31.105 0 0 0 0 0.019349 1 13828 13828 74.423 32.583 1 15351 62 9743 9767 17728 17728 0.04344876163088429 LADRRRRRPRS 11 Unmodified _LADRRRRRPRS_ 0 0 0 REV__ENST00000270357.9_2_2:241508179-241513275:+|nuORF REV__ENST00000270357.9_2_2:241508179-241513275:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 719.9306030273438 2 719.932348 1437.85014 NaN NaN NaN NaN NaN NaN NaN 53.046 1 53.046 52.546 53.546 0 0 0 0 1.008 1 24294 24294 0.26902 0 1 + 15352 15059 9744 9768 17729 17729 0.1487328507980692 LAELRRRLA 9 Unmodified _LAELRRRLA_ 0 0 0 REV__ENST00000475705.1_1_6:32086681-32087735:-|nuORF REV__ENST00000475705.1_1_6:32086681-32087735:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.5692138671875 3 366.568247 1096.68291 2.8046 0.0010281 -0.013797 -5.0575E-06 2.7908 0.001023 366.5681202779709 19.743 0.178 19.743 19.67 19.848 0 19 13 2 0 0 0 0.1229 1 8817 8817 28.495 2.2264 1 1244900 + 15353 14498 9745 9769 17730 17730 0.13843624482365158 LAELRRRLA 9 Unmodified _LAELRRRLA_ 0 0 0 REV__ENST00000475705.1_1_6:32086681-32087735:-|nuORF REV__ENST00000475705.1_1_6:32086681-32087735:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 366.568247 1096.68291 2.8046 0.0010281 -0.013797 -5.0575E-06 2.7908 0.001023 366.5681202779709 19.743 0.178 19.743 19.67 19.848 0 0 0 NaN 28.495 19 13 2 NaN NaN NaN NaN 0 NaN NaN 0 1244900 + 15354 14498 9745 9769 0.13843624482365158 LAENQDED 8 Unmodified _LAENQDED_ 0 0 0 nc|nan|Q5T4I8-2|C6orf52;ENSG00000137434|ENST00000259983|C6orf52 nc|nan|Q5T4I8-2|C6orf52 nc|nan|Q5T4I8-2|C6orf52 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 467.194091796875 2 467.193436 932.37232 NaN NaN NaN NaN NaN NaN NaN 63.282 1 63.53 63.03 64.03 0.24803 0 0 0 0.99035 1 28981 28981 0.79363 0 1 15355 3016 9746 9770 17731 17731 -0.09657159754806344 LAFNALIHRHR 11 Unmodified _LAFNALIHRHR_ 0 0 0 ENST00000588618.5_1_19:39138385-39212431:+|nuORF;ACTN4|p.D874Rfs*17|1|0.4|ENSG00000130402|chr19:38729309-38729310|-/C|frameshift_variant;ENSG00000130402|ENST00000252699|ACTN4;ENSG00000160460|ENST00000598249|SPTBN4;nc|ENSG00000160460|Q9H254-4|SPTBN4;nc|ENSG00000160460|Q9H254-2|SPTBN4 ENST00000588618.5_1_19:39138385-39212431:+|nuORF;ENSG00000160460|ENST00000598249|SPTBN4 ENSG00000160460|ENST00000598249|SPTBN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 674.3937377929688 2 674.391462 1346.76837 NaN NaN NaN NaN NaN NaN NaN 62.965 1 62.965 62.465 63.465 0 0 0 0 0.97845 1 29569 29569 8.7454 3.8484 1 15356 4061;9 9747 9771 17732 17732 0.10885789668009238 LAGACVEQVR 10 Unmodified _LAGACVEQVR_ 0 0 0 REV__ENSG00000135702|ENST00000336257|CHST5 REV__ENSG00000135702|ENST00000336257|CHST5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.2756958007812 2 523.276583 1044.53861 NaN NaN NaN NaN NaN NaN NaN 27.936 1 28.198 27.698 28.698 0.26245 0 0 0 0.93252 1 12703 12703 16.149 1.3108 1 + 15357 12033 9748 9772 17733 17733 0.018126149400586655 LAGKAKTKGLQ 11 Unmodified _LAGKAKTKGLQ_ 0 0 0 ENSG00000064666|ENST00000263097|CNN2;ENST00000562089.2_1_16:68685393-68685480:-|nuORF ENSG00000064666|ENST00000263097|CNN2 ENSG00000064666|ENST00000263097|CNN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.8528442382812 2 557.850773 1113.68699 3.493 0.0019486 0.043891 2.4485E-05 3.5369 0.0019731 557.8507766433557 15.56 0.71423 15.56 15.229 15.943 0 194 85 3 0 0 0 0.69508 2 6879 6795;6879 11.495 1.4208 1 232260 15358 675 9749 9773 17734;17735 17735 0.13469669185428756 LAGNKAAA 8 Unmodified _LAGNKAAA_ 0 0 0 ENSG00000111271|ENST00000313698|ACAD10;nc|ENSG00000111271|Q6JQN1-5|ACAD10;ENST00000547491.1_1_12:112186933-112194274:+|nuORF;ENST00000512792.2_1_12:112191278-112193633:+|nuORF ENSG00000111271|ENST00000313698|ACAD10 ENSG00000111271|ENST00000313698|ACAD10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 358.20648193359375 2 358.208495 714.402438 NaN NaN NaN NaN NaN NaN NaN 35.777 1 36.403 35.903 36.903 0.62631 0 0 0 0.99035 1 16387 16387 2.5775 0 1 15359 1751 9750 9774 17736 17736 0.03381288491698342 LAGQNQLLL 9 Unmodified _LAGQNQLLL_ 0 0 0 ENSG00000170927|ENST00000371117|PKHD1 ENSG00000170927|ENST00000371117|PKHD1 ENSG00000170927|ENST00000371117|PKHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2911071777344 2 485.290017 968.565481 2.6413 0.0012818 0.069465 3.3711E-05 2.7107 0.0013155 485.290268334749 13.446 0.13845 13.754 13.668 13.806 0.30727 16 9 2 0 0 0 0.7295 1 6065 6065 8.5933 0.68312 1 95723 15360 4777 9751 9775 17737 17737 0.07994046822898326 LAGWGYLAL 9 Unmodified _LAGWGYLAL_ 0 0 0 REV__ENSG00000164061|ENST00000296452|BSN REV__ENSG00000164061|ENST00000296452|BSN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.2672119140625 2 482.268553 962.522553 NaN NaN NaN NaN NaN NaN NaN 32.136 1 32.391 31.891 32.891 0.25452 0 0 0 0.44891 1 14633 14633 20.871 5.024 1 + 15361 13056 9752 9776 17738 17738 0.03979276765460327 LAHADEKSL 9 Unmodified _LAHADEKSL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.2622375488281 2 492.261456 982.50836 2.7806 0.0013688 -0.092966 -4.5764E-05 2.6877 0.001323 492.2615112349103 12.883 0.11001 13.145 13.082 13.192 0.26154 13 8 2 0 0 0 0.21008 1 5609 5609 22.736 3.4793 1 745230 15362 6272 9753 9777 17739 17739 0.016405795465175288 LAHADEKSL 9 Unmodified _LAHADEKSL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.26275634765625 2 492.261456 982.50836 2.5281 0.0012445 -0.009453 -4.6534E-06 2.5186 0.0012398 492.26142395066796 12.826 0.22713 13.133 13.023 13.25 0.30727 10 6 2 0 0 0 0.093314 1 5799 5799 34.402 1.9481 1 478660 15363 6272 9753 9777 17740 17740 0.016405795465175288 LAHADEKSL 9 Unmodified _LAHADEKSL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 492.261456 982.50836 3.4902 0.0017181 0.66908 0.00032936 4.1593 0.0020475 492.2617349670063 12.685 0.16887 13.328 13.244 13.413 0.64272 0.12584 0.000287 NaN 34.402 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 786600 15364 6272 9753 9777 0.016405795465175288 LAHCLMLAL 9 Unmodified _LAHCLMLAL_ 0 0 0 REV__ENSG00000198326|ENST00000380585|TMEM239 REV__ENSG00000198326|ENST00000380585|TMEM239 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.7733459472656 2 492.772091 983.529629 3.3489 0.0016502 -0.90175 -0.00044436 2.4471 0.0012059 492.7717549282946 48.695 0.35224 49.35 49.173 49.525 0.65525 24 12 3 0 0 0 0.23832 1 22327 22327 20.871 0 1 1083500 + 15365 14332 9754 9778 17741 17741 0.03720550050013571 LAHKMSRA 8 Unmodified _LAHKMSRA_ 0 0 0 REV__ENSG00000141639|ENST00000400384|MAPK4 REV__ENSG00000141639|ENST00000400384|MAPK4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 305.1927795410156 3 305.172728 912.496355 1.9293 0.00058876 0.25332 7.7307E-05 2.1826 0.00066607 305.172698204951 14.747 0.24324 14.747 14.638 14.881 0 30 24 2 0 0 0 0.14313 1 6489 6489 0 0 1 75213 + 15366 12302 9755 9779 17742 17742 0.03660684322346697 LAHKMSRA 8 Unmodified _LAHKMSRA_ 0 0 0 REV__ENSG00000141639|ENST00000400384|MAPK4 REV__ENSG00000141639|ENST00000400384|MAPK4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 305.172728 912.496355 2.2759 0.00069456 -0.64881 -0.000198 1.6271 0.00049656 305.17241534576954 14.451 0.10833 14.677 14.611 14.719 0.22622 -0.035089 -0.00043481 NaN 0 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 134850 + 15367 12302 9755 9779 0.03660684322346697 LAHREQVAL 9 Unmodified _LAHREQVAL_ 0 0 0 ENSG00000166508|ENST00000303887|MCM7;nc|ENSG00000166508|P33993-2|MCM7;ENST00000463722.5_1_7:99697202-99698956:-|nuORF ENSG00000166508|ENST00000303887|MCM7 ENSG00000166508|ENST00000303887|MCM7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.800537109375 2 518.79854 1035.58253 3.5748 0.0018546 1.2319 0.00063912 4.8068 0.0024937 518.7985731842946 19.787 0.27089 20.445 20.313 20.584 0.6583 33 19 2 0 0 0 0.060129 1 8985 8985 45.74 15.103 1 604460 15368 4491 9756 9780 17743 17743 0.06615967428706426 LAHREQVAL 9 Unmodified _LAHREQVAL_ 0 0 0 ENSG00000166508|ENST00000303887|MCM7;nc|ENSG00000166508|P33993-2|MCM7;ENST00000463722.5_1_7:99697202-99698956:-|nuORF ENSG00000166508|ENST00000303887|MCM7 ENSG00000166508|ENST00000303887|MCM7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.2023620605469 3 346.201452 1035.58253 2.5853 0.00089502 0.70261 0.00024324 3.2879 0.0011383 346.20167292631544 19.801 0.25546 20.459 20.329 20.584 0.65829 44 18 3 0 0 0 0.43294 1 9009 9009 13.615 2.7159 1 576610 15369 4491 9756 9780 17744 17744 0.06615967428706426 LAHVDVQTL 9 Unmodified _LAHVDVQTL_ 0 0 0 nc|ENSG00000162729|Q969P0-3|IGSF8;ENSG00000162729|ENST00000314485|IGSF8 nc|ENSG00000162729|Q969P0-3|IGSF8 nc|ENSG00000162729|Q969P0-3|IGSF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.3239440917969 2 498.279649 994.544745 NaN NaN NaN NaN NaN NaN NaN 44.024 1 44.673 44.173 45.173 0.64872 0 0 0 0.45908 1 20178 20178 20.454 10.38 1 15370 4161 9757 9781 17745 17745 0.04725456443236453 LAIKLKKKL 9 Unmodified _LAIKLKKKL_ 0 0 0 REV__ENST00000374791.7_1_11:132205045-132205564:+|nuORF REV__ENST00000374791.7_1_11:132205045-132205564:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.8884887695312 2 527.88917 1053.76379 NaN NaN NaN NaN NaN NaN NaN 65.623 1 66.332 65.832 66.832 0.70891 0 0 0 0.91206 1 31051 31051 0.6015 0.076735 1 + 15371 15792 9758 9782 17746 17746 0.23905512472538248 LAILRRRWWKY 11 Unmodified _LAILRRRWWKY_ 0 0 0 nc|ENSG00000196376|Q5T1Q4-2|SLC35F1;ENSG00000196376|ENST00000360388|SLC35F1 nc|ENSG00000196376|Q5T1Q4-2|SLC35F1 nc|ENSG00000196376|Q5T1Q4-2|SLC35F1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 780.96826171875 2 780.967337 1559.92012 NaN NaN NaN NaN NaN NaN NaN 67.3 1 67.3 66.8 67.8 0 0 0 0 1.008 1 32247 32247 0.30703 0 1 15372 5741 9759 9783 17747 17747 0.16255770695738647 LAIMKQLAA 9 Unmodified _LAIMKQLAA_ 0 0 0 REV__USP34|p.E2515Q|1|0.04|ENSG00000115464|chr2:61227119-61227119|C/G|missense_variant REV__USP34|p.E2515Q|1|0.04|ENSG00000115464|chr2:61227119-61227119|C/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.7945861816406 2 479.791338 957.568123 NaN NaN NaN NaN NaN NaN NaN 88.077 1 88.755 88.255 89.255 0.67818 0 0 0 0.90611 1 40568 40568 2.0598 0 1 + 15373 18245 9760 9784 17748 17748 0.08764178956187152 LAIWVVLPSW 10 Unmodified _LAIWVVLPSW_ 0 0 0 nc|ENSG00000065485|Q14554-2|PDIA5;ENSG00000065485|ENST00000316218|PDIA5 nc|ENSG00000065485|Q14554-2|PDIA5 nc|ENSG00000065485|Q14554-2|PDIA5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.2913208007812 2 592.347335 1182.68012 NaN NaN NaN NaN NaN NaN NaN 84.272 1 84.3 83.8 84.8 0.028603 0 0 0 0.99733 1 42002 42002 3.9444 0 1 15374 690 9761 9785 17749 17749 0.09608356304829613 LAKAPLLA 8 Unmodified _LAKAPLLA_ 0 0 0 ENST00000445174.5_1_2:216480087-216485873:-|nuORF ENST00000445174.5_1_2:216480087-216485873:-|nuORF ENST00000445174.5_1_2:216480087-216485873:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.7704162597656 2 398.768189 795.521825 NaN NaN NaN NaN NaN NaN NaN 22.612 1 23.199 22.699 23.699 0.58739 0 0 0 0.99035 1 10061 10061 2.5775 0 1 15375 7968 9762 9786 17750 17750 0.11588482116417254 LAKIEGQRL 9 Unmodified _LAKIEGQRL_ 0 0 0 ENST00000404600.2_1_6:1514778-1515111:-|nuORF ENST00000404600.2_1_6:1514778-1515111:-|nuORF ENST00000404600.2_1_6:1514778-1515111:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.8193969726562 2 514.316566 1026.61858 3.257 0.0016751 0.90544 0.00046568 4.1624 0.0021408 514.3170615927394 19.55 0.26834 19.842 19.765 20.033 0.29239 29 22 2 0 0 0 0.89849 1 8912 8912 5.7319 0 1 233090 15376 7628 9763 9787 17751 17751 0.10633424605589425 LAKIKIRE 8 Unmodified _LAKIKIRE_ 0 0 0 REV__ENSG00000103888|ENST00000394685|CEMIP REV__ENSG00000103888|ENST00000394685|CEMIP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.21875 3 324.218443 969.633501 NaN NaN NaN NaN NaN NaN NaN 16.099 1 16.405 15.905 16.905 0.306 0 0 0 0.99035 1 7285 7285 2.9952 0 1 + 15377 10978 9764 9788 17752 17752 0.14746916473552574 LAKIKWVI 8 Unmodified _LAKIKWVI_ 0 0 0 ENST00000487869.1_1_21:40752343-40763801:+|nuORF;nc|ENSG00000182093|O00258-2|GET1;ENSG00000182093|ENST00000649170|GET1 ENST00000487869.1_1_21:40752343-40763801:+|nuORF ENST00000487869.1_1_21:40752343-40763801:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.2188415527344 3 324.219784 969.637523 NaN NaN NaN NaN NaN NaN NaN 16.555 1 16.86 16.36 17.36 0.30438 0 0 0 0.92256 1 7494 7494 10.824 1.4408 1 15378 5309 9765 9789 17753 17753 0.15149005967271023 LAKIKWVI 8 Unmodified _LAKIKWVI_ 0 0 0 ENST00000487869.1_1_21:40752343-40763801:+|nuORF;nc|ENSG00000182093|O00258-2|GET1;ENSG00000182093|ENST00000649170|GET1 ENST00000487869.1_1_21:40752343-40763801:+|nuORF ENST00000487869.1_1_21:40752343-40763801:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.2187805175781 3 324.219784 969.637523 NaN NaN NaN NaN NaN NaN NaN 16.65 1 16.954 16.454 17.454 0.30438 0 0 0 0.86133 1 7538 7538 14.838 2.5976 1 15379 5309 9765 9789 17754 17754 0.15149005967271023 LAKIKWVI 8 Unmodified _LAKIKWVI_ 0 0 0 ENST00000487869.1_1_21:40752343-40763801:+|nuORF;nc|ENSG00000182093|O00258-2|GET1;ENSG00000182093|ENST00000649170|GET1 ENST00000487869.1_1_21:40752343-40763801:+|nuORF ENST00000487869.1_1_21:40752343-40763801:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.2192687988281 3 324.219784 969.637523 NaN NaN NaN NaN NaN NaN NaN 16.755 1 17.06 16.56 17.56 0.30438 0 0 0 0.92256 1 7586 7586 10.824 1.4408 1 15380 5309 9765 9789 17755 17755 0.15149005967271023 LAKKKKKKS 9 Unmodified _LAKKKKKKS_ 0 0 0 ENST00000205636.3_1_3:32524128-32524239:-|nuORF ENST00000205636.3_1_3:32524128-32524239:-|nuORF ENST00000205636.3_1_3:32524128-32524239:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1058.7454833984375 1 1058.74083 1057.73355 3.1528 0.003338 -0.39868 -0.00042209 2.7541 0.0029159 1059.7432234719622 60.595 0.069298 61.334 61.302 61.372 0.7396 13 8 2 0 0 0 1.101 1 28011 28011 2.3027 2.3027 1 5225500 15381 6391 9766 9790 17756 17756 0.2069915380736802 LAKKQRQI 8 Unmodified _LAKKQRQI_ 0 0 0 REV__nc|ENSG00000142621|B1AJZ9-4|FHAD1 REV__nc|ENSG00000142621|B1AJZ9-4|FHAD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.8212890625 2 492.819276 983.623999 3.1871 0.0015707 -0.0077529 -3.8208E-06 3.1794 0.0015668 492.81936233063414 20.33 0.28002 20.33 20.202 20.482 0 53 24 3 0 0 0 0.7441 1 9058 9058 2.3027 0 1 423220 + 15382 17969 9767 9791 17757 17757 0.13153148188030173 LAKLERLK 8 Unmodified _LAKLERLK_ 0 0 0 nc|ENSG00000033170|Q9BYC5-2|FUT8;ENSG00000033170|ENST00000673929|FUT8 nc|ENSG00000033170|Q9BYC5-2|FUT8 nc|ENSG00000033170|Q9BYC5-2|FUT8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.21905517578125 3 324.218443 969.633501 2.1382 0.00069323 0.012032 3.9009E-06 2.1502 0.00069713 324.2183670568919 16.403 0.21965 16.708 16.558 16.778 0.30438 36 23 2 0 0 0 0.73556 1 7395 7395 2.9952 0 1 60262 15383 503 9768 9792 17758 17758 0.14746916473563942 LAKRLLLQL 9 Unmodified _LAKRLLLQL_ 0 0 0 ENST00000552390.5_1_12:57926966-57928919:-|nuORF;ENSG00000175203|ENST00000548249|DCTN2;nc|ENSG00000175203|Q13561-3|DCTN2;nc|ENSG00000175203|Q13561-2|DCTN2 ENST00000552390.5_1_12:57926966-57928919:-|nuORF ENST00000552390.5_1_12:57926966-57928919:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1068.0594482421875 1 1067.72993 1066.72265 3.4595 0.0036938 1.639 0.0017501 5.0985 0.0054438 1068.7361264921456 59.173 0.10661 59.84 59.787 59.894 0.66703 5 3 2 0 0 0 0.11256 1 27086 27086 2.3027 0 1 498940 15384 5019 9769 9793 17759 17759 0.19195751433107944 LAKYQNIL 8 Unmodified _LAKYQNIL_ 0 0 0 nc|ENSG00000131018|Q8NF91-4|SYNE1;ENSG00000131018|ENST00000367255|SYNE1;nc|ENSG00000131018|Q8NF91-7|SYNE1;ENST00000490135.6_1_6:152637953-152655276:-|nuORF nc|ENSG00000131018|Q8NF91-4|SYNE1 nc|ENSG00000131018|Q8NF91-4|SYNE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.7884826660156 2 481.78711 961.559667 3.2929 0.0015865 -0.0082694 -3.9841E-06 3.2847 0.0015825 481.7871030979961 32.638 0.18214 32.893 32.793 32.975 0.25452 12 8 2 0 0 0 0.34607 1 14885 14885 32.117 0 1 567100 15385 2635 9770 9794 17760 17760 0.07734948311224343 LALCKKPLKPV 11 Unmodified _LALCKKPLKPV_ 0 0 0 REV__nc|ENSG00000164893|Q8TCU3-2|SLC7A13 REV__nc|ENSG00000164893|Q8TCU3-2|SLC7A13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 403.9307861328125 3 403.929905 1208.76789 2.6108 0.0010546 -1.1462 -0.00046299 1.4645 0.00059157 403.92924450782425 44.648 0.36888 44.648 44.601 44.97 0 40 20 3 0 0 0 0.89988 2 20507 20424;20507 2.4348 2.4348 1 1448900 + 15386 13119 9771 9795 17761;17762 17762 0.17185233903933295 LALCKKPLKPV 11 Unmodified _LALCKKPLKPV_ 0 0 0 REV__nc|ENSG00000164893|Q8TCU3-2|SLC7A13 REV__nc|ENSG00000164893|Q8TCU3-2|SLC7A13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 403.9297790527344 3 403.929905 1208.76789 2.5518 0.0010308 -0.95885 -0.00038731 1.593 0.00064346 403.9291031088035 43.416 0.51009 44.23 44.107 44.617 0.81444 45 26 2 0 0 0 0.91104 2 19835 19775;19835 1.2148 0.25256 1 511750 + 15387 13119 9771 9795 17763;17764 17764 0.17185233903933295 LALCKKPLKPV 11 Unmodified _LALCKKPLKPV_ 0 0 0 REV__nc|ENSG00000164893|Q8TCU3-2|SLC7A13 REV__nc|ENSG00000164893|Q8TCU3-2|SLC7A13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.9298400878906 3 403.929905 1208.76789 2.7724 0.0011198 -1.8779 -0.00075853 0.8945 0.00036132 403.92900174571525 44.201 0.55258 44.47 44.429 44.982 0.2694 42 25 2 0 0 0 0.89988 1 20205 20205 2.4348 0.69251 1 2442000 + 15388 13119 9771 9795 17765 17765 0.17185233903933295 LALCKKPLKPV 11 Unmodified _LALCKKPLKPV_ 0 0 0 REV__nc|ENSG00000164893|Q8TCU3-2|SLC7A13 REV__nc|ENSG00000164893|Q8TCU3-2|SLC7A13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 403.9304504394531 3 403.929905 1208.76789 3.0826 0.0012452 -1.0253 -0.00041414 2.0573 0.00083101 403.9292839821141 43.234 0.25561 43.882 43.836 44.091 0.64872 21 9 3 0 0 0 0.89988 1 19860 19860 2.4348 0.69251 1 596510 + 15389 13119 9771 9795 17766 17766 0.17185233903933295 LALCKKPLKPV 11 Unmodified _LALCKKPLKPV_ 0 0 0 REV__nc|ENSG00000164893|Q8TCU3-2|SLC7A13 REV__nc|ENSG00000164893|Q8TCU3-2|SLC7A13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.19964599609375 4 303.199248 1208.76789 2.2708 0.00068851 -0.64599 -0.00019586 1.6248 0.00049265 303.1988889398687 43.23 0.49004 43.879 43.66 44.15 0.64872 58 25 4 0 0 0 0.91068 1 19868 19868 1.3296 1.3296 1 1780900 + 15390 13119 9771 9795 17767 17767 0.17185233903933295 LALCKKPLKPV 11 Unmodified _LALCKKPLKPV_ 0 0 0 REV__nc|ENSG00000164893|Q8TCU3-2|SLC7A13 REV__nc|ENSG00000164893|Q8TCU3-2|SLC7A13 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 403.929905 1208.76789 2.6139 0.0010558 -1.4219 -0.00057434 1.192 0.00048148 403.9292315167957 44.432 0.041756 44.432 44.403 44.444 0 0.05442 5.646E-05 NaN 2.4348 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 501630 + 15391 13119 9771 9795 0.17185233903933295 LALCKKPLKPV 11 Unmodified _LALCKKPLKPV_ 0 0 0 REV__nc|ENSG00000164893|Q8TCU3-2|SLC7A13 REV__nc|ENSG00000164893|Q8TCU3-2|SLC7A13 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 403.929905 1208.76789 2.7724 0.0011198 -1.8779 -0.00075853 0.8945 0.00036132 403.92900174571525 44.201 0.55258 44.47 44.429 44.982 0.2694 0.092574 -0.0004961 NaN 2.4348 42 25 2 NaN NaN NaN NaN 0 NaN NaN 0 2442000 + 15392 13119 9771 9795 0.17185233903933295 LALCKKPLKPV 11 Unmodified _LALCKKPLKPV_ 0 0 0 REV__nc|ENSG00000164893|Q8TCU3-2|SLC7A13 REV__nc|ENSG00000164893|Q8TCU3-2|SLC7A13 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 303.199248 1208.76789 2.1577 0.00065422 -1.2344 -0.00037426 0.92337 0.00027997 303.1989150600644 43.266 0.33116 43.536 43.456 43.787 0.27021 -0.17131 -0.00038013 NaN 1.3296 45 24 2 NaN NaN NaN NaN 0 NaN NaN 0 2275300 + 15393 13119 9771 9795 0.17185233903933295 LALCKKPLKPV 11 Unmodified _LALCKKPLKPV_ 0 0 0 REV__nc|ENSG00000164893|Q8TCU3-2|SLC7A13 REV__nc|ENSG00000164893|Q8TCU3-2|SLC7A13 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 303.199248 1208.76789 2.2708 0.00068851 -0.64599 -0.00019586 1.6248 0.00049265 303.1988889398687 43.23 0.49004 43.879 43.66 44.15 0.64872 0.17131 0.00033344 NaN 1.3296 58 25 4 NaN NaN NaN NaN 0 NaN NaN 0 1780900 + 15394 13119 9771 9795 0.17185233903933295 LALFDVKNN 9 Unmodified _LALFDVKNN_ 0 0 0 ENSG00000147251|ENST00000276202|DOCK11 ENSG00000147251|ENST00000276202|DOCK11 ENSG00000147251|ENST00000276202|DOCK11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.2728881835938 2 517.287474 1032.5604 NaN NaN NaN NaN NaN NaN NaN 14.232 1 14.881 14.381 15.381 0.6482 0 0 0 0.45908 1 6403 6403 20.454 1.1966 1 15395 3556 9772 9796 17768 17768 0.04541742960282136 LALKTLSKK 9 Unmodified _LALKTLSKK_ 0 0 0 ENSG00000167721|ENST00000301364|TSR1 ENSG00000167721|ENST00000301364|TSR1 ENSG00000167721|ENST00000301364|TSR1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.193359375 3 334.562099 1000.66447 2.3335 0.00078068 1.0409 0.00034825 3.3744 0.0011289 334.56245160368826 16.534 0.54718 17.192 16.891 17.439 0.65798 72 55 2 0 0 0 0.11434 1 7361 7361 0.26902 0.26902 1 99821 15396 4576 9773 9797 17769 17769 0.1641606978779464 LALKTLSKK 9 Unmodified _LALKTLSKK_ 0 0 0 ENSG00000167721|ENST00000301364|TSR1 ENSG00000167721|ENST00000301364|TSR1 ENSG00000167721|ENST00000301364|TSR1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.1932067871094 3 334.562099 1000.66447 2.3555 0.00078805 0.99618 0.00033328 3.3517 0.0011213 334.562408063561 15.565 0.050581 16.218 16.187 16.237 0.65356 7 5 2 0 0 0 0.11434 1 7014 7014 0.26902 0.26902 1 22172 15397 4576 9773 9797 17770 17770 0.1641606978779464 LALLLILIVL 10 Unmodified _LALLLILIVL_ 0 0 0 ENSG00000130943|ENST00000253255|PKDREJ ENSG00000130943|ENST00000253255|PKDREJ ENSG00000130943|ENST00000253255|PKDREJ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.3998413085938 2 547.401579 1092.7886 NaN NaN NaN NaN NaN NaN NaN 92.827 1 92.827 92.327 93.327 0 0 0 0 1.0015 1 49420 49420 0.45834 0 1 15398 2631 9774 9798 17771 17771 0.2459214755526773 LALNRCPG 8 Unmodified _LALNRCPG_ 0 0 0 REV__HELZ2|p.D1355Vfs*86|1|0.31|ENSG00000130589|chr20:63564758-63564758|T/-|frameshift_variant REV__HELZ2|p.D1355Vfs*86|1|0.31|ENSG00000130589|chr20:63564758-63564758|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.22943115234375 2 422.228905 842.443257 2.907 0.0012274 -1.6934 -0.00071499 1.2136 0.00051243 422.22804736368136 61.997 0.37437 62.249 62.132 62.506 0.25245 27 18 2 0 0 0 0.7441 1 28380 28380 2.3027 0 1 779510 + 15399 11823 9775 9799 17772 17772 0.015733065396716484 LALQRELEWE 10 Unmodified _LALQRELEWE_ 0 0 0 REV__nc|ENSG00000142606|Q495T6-2|MMEL1 REV__nc|ENSG00000142606|Q495T6-2|MMEL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1286.873779296875 1 1286.67393 1285.66665 3.232 0.0041585 0.22096 0.00028431 3.4529 0.0044428 1287.6779945997348 61.551 0.12618 62.211 62.134 62.26 0.66008 6 5 2 0 0 0 0.12676 1 28189 28189 0.45834 0 1 652940 + 15400 12334 9776 9800 17773 17773 0.035244537349626626 LALRKPPDRR 10 Unmodified _LALRKPPDRR_ 0 0 0 ENST00000464010.5_1_6:5109659-5144431:-|nuORF ENST00000464010.5_1_6:5109659-5144431:-|nuORF ENST00000464010.5_1_6:5109659-5144431:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 306.1947937011719 4 306.19392 1220.74657 1.9742 0.00060449 0.259 7.9304E-05 2.2332 0.0006838 306.1937728125756 56.007 0.3103 56.794 56.615 56.926 0.78711 35 25 2 0 0 0 0.9406 1 25545 25545 0.77653 0.078866 1 996290 15401 8109 9777 9801 17774 17774 0.14502984919431583 LALRKPPDRR 10 Unmodified _LALRKPPDRR_ 0 0 0 ENST00000464010.5_1_6:5109659-5144431:-|nuORF ENST00000464010.5_1_6:5109659-5144431:-|nuORF ENST00000464010.5_1_6:5109659-5144431:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 306.19392 1220.74657 1.9777 0.00060557 0.49567 0.00015177 2.4734 0.00075734 306.4448967367465 56.718 0.15876 56.718 56.645 56.804 0 -0.052601 -3.2878E-05 NaN 0.77653 26 12 3 NaN NaN NaN NaN 0 NaN NaN 0 1438300 15402 8109 9777 9801 0.14502984919431583 LALRKPPDRR 10 Unmodified _LALRKPPDRR_ 0 0 0 ENST00000464010.5_1_6:5109659-5144431:-|nuORF ENST00000464010.5_1_6:5109659-5144431:-|nuORF ENST00000464010.5_1_6:5109659-5144431:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 306.19392 1220.74657 2.1561 0.00066017 0.78543 0.0002405 2.9415 0.00090067 306.1939775890374 56.635 0.29716 56.9 56.735 57.032 0.26543 0.12917 0.00032202 NaN 0.77653 38 17 3 NaN NaN NaN NaN 0 NaN NaN 0 2999000 15403 8109 9777 9801 0.14502984919431583 LALRKPPDRR 10 Unmodified _LALRKPPDRR_ 0 0 0 ENST00000464010.5_1_6:5109659-5144431:-|nuORF ENST00000464010.5_1_6:5109659-5144431:-|nuORF ENST00000464010.5_1_6:5109659-5144431:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 306.19392 1220.74657 2.1694 0.00066427 0.40823 0.000125 2.5777 0.00078926 306.4451106096412 56.003 0.21376 56.671 56.531 56.745 0.66798 -0.099963 -0.00013997 NaN 0.77653 17 8 3 NaN NaN NaN NaN 0 NaN NaN 0 511490 15404 8109 9777 9801 0.14502984919431583 LALRLGRPS 9 Unmodified _LALRLGRPS_ 0 0 0 REV__ENST00000269593.4_1_17:38613016-38613178:+|nuORF REV__ENST00000269593.4_1_17:38613016-38613178:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.20013427734375 3 328.210059 981.608348 NaN NaN NaN NaN NaN NaN NaN 43.878 1 43.878 43.378 44.378 0 0 0 0 0.90519 1 20017 20017 2.2828 0.43854 1 + 15405 15057 9778 9802 17775 17775 0.11680861670993181 LALVHPHD 8 Unmodified _LALVHPHD_ 0 0 0 REV__ENSG00000168702|ENST00000389484|LRP1B REV__ENSG00000168702|ENST00000389484|LRP1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.250244140625 2 451.248152 900.481751 3.0753 0.0013877 0.8868 0.00040016 3.9621 0.0017879 451.24865252619486 66.911 0.37038 67.567 67.29 67.661 0.65672 31 21 2 0 0 0 0.70146 1 30634 30634 5.7604 0.52976 1 687090 + 15406 13361 9779 9803 17776 17776 0.027529354458465605 LALVHPHD 8 Unmodified _LALVHPHD_ 0 0 0 REV__ENSG00000168702|ENST00000389484|LRP1B REV__ENSG00000168702|ENST00000389484|LRP1B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 451.248152 900.481751 2.2318 0.0010071 0.81236 0.00036658 3.0441 0.0013737 451.2495183662638 67.797 0.05925 67.797 67.747 67.806 0 -0.005449 -0.00030812 NaN 5.7604 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 342700 + 15407 13361 9779 9803 0.027529354458465605 LALVHPHD 8 Unmodified _LALVHPHD_ 0 0 0 REV__ENSG00000168702|ENST00000389484|LRP1B REV__ENSG00000168702|ENST00000389484|LRP1B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 451.248152 900.481751 3.0628 0.0013821 1.3865 0.00062565 4.4493 0.0020078 451.2488717809053 67.79 0.54462 68.042 67.652 68.196 0.25227 0.24004 0.00021003 NaN 5.7604 44 30 2 NaN NaN NaN NaN 0 NaN NaN 0 889780 + 15408 13361 9779 9803 0.027529354458465605 LALVRQQL 8 Unmodified _LALVRQQL_ 0 0 0 nc|ENSG00000125844|Q9P2E9-3|RRBP1;ENSG00000125844|ENST00000377813|RRBP1 nc|ENSG00000125844|Q9P2E9-3|RRBP1 nc|ENSG00000125844|Q9P2E9-3|RRBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.8018493652344 2 470.800552 939.58655 2.6901 0.0012665 0.5921 0.00027876 3.2822 0.0015453 470.8005789131668 44.538 0.2636 44.807 44.698 44.962 0.2694 14 8 2 0 0 0 0.045989 1 20368 20368 67.035 17.366 1 509060 15409 2427 9780 9804 17777 17777 0.11434056922405489 LALWRNLP 8 Unmodified _LALWRNLP_ 0 0 0 REV__nc|ENSG00000167210|Q8IVV2|LOXHD1 REV__nc|ENSG00000167210|Q8IVV2|LOXHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.7976989746094 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 43.589 1 43.589 43.089 44.089 0 0 0 0 0.99035 1 19876 19876 5.2307 0.47466 1 + 15410 13282 9781 9805 17778 17778 0.08446074267976655 LALWRNLP 8 Unmodified _LALWRNLP_ 0 0 0 REV__nc|ENSG00000167210|Q8IVV2|LOXHD1 REV__nc|ENSG00000167210|Q8IVV2|LOXHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.2004089355469 3 328.199272 981.575986 2.4125 0.00079178 1.461 0.00047949 3.8735 0.0012713 328.19973474934955 44.686 0.47153 45.336 45.149 45.62 0.64998 24 17 2 0 0 0 0.71384 1 20498 20498 3.2813 1.6287 1 737390 + 15411 13282 9781 9805 17779 17779 0.08446074267976655 LALWRNLP 8 Unmodified _LALWRNLP_ 0 0 0 REV__nc|ENSG00000167210|Q8IVV2|LOXHD1 REV__nc|ENSG00000167210|Q8IVV2|LOXHD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 328.199272 981.575986 2.2707 0.00074524 1.9053 0.00062531 4.176 0.0013706 328.19954458269274 45.426 0.34469 45.694 45.523 45.868 0.26768 0.17879 0.00033325 NaN 3.2813 17 11 3 NaN NaN NaN NaN 0 NaN NaN 0 1072300 + 15412 13282 9781 9805 0.08446074267976655 LALWRNLP 8 Unmodified _LALWRNLP_ 0 0 0 REV__nc|ENSG00000167210|Q8IVV2|LOXHD1 REV__nc|ENSG00000167210|Q8IVV2|LOXHD1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 328.199272 981.575986 2.4125 0.00079178 1.461 0.00047949 3.8735 0.0012713 328.19973474934955 44.686 0.47153 45.336 45.149 45.62 0.64998 -0.17879 -0.00010422 NaN 3.2813 24 17 2 NaN NaN NaN NaN 0 NaN NaN 0 737390 + 15413 13282 9781 9805 0.08446074267976655 LALWVFPG 8 Unmodified _LALWVFPG_ 0 0 0 ENST00000367463.4_1_6:149395342-149395558:+|nuORF ENST00000367463.4_1_6:149395342-149395558:+|nuORF ENST00000367463.4_1_6:149395342-149395558:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.7623291015625 2 451.760364 901.506175 3.6503 0.0016491 0.2483 0.00011217 3.8986 0.0017612 451.76045840960404 99.641 0.075851 99.949 99.896 99.972 0.30835 5 3 2 0 0 0 0.73686 1 46062 46062 2.8892 0 1 1081200 15414 7261 9782 9806 17780 17780 0.051481955993722295 LAMAREWL 8 Unmodified _LAMAREWL_ 0 0 0 REV__ENST00000481328.7_1_11:76905078-76923312:+|nuORF REV__ENST00000481328.7_1_11:76905078-76923312:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.19281005859375 3 330.51275 988.516422 2.1741 0.00071857 1.1406 0.00037697 3.3147 0.0010955 330.51306963558665 27.617 0.28835 28.239 28.071 28.36 0.62178 24 17 2 0 0 0 0.13877 1 12712 12712 6.7232 0 1 285590 + 15415 16701 9783 9807 17781 17781 0.02170435262303272 LAMWDIEREWR 11 Unmodified _LAMWDIEREWR_ 0 0 0 REV__ENSG00000108784|ENST00000225927|NAGLU REV__ENSG00000108784|ENST00000225927|NAGLU MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 752.8712768554688 2 752.871911 1503.72927 NaN NaN NaN NaN NaN NaN NaN 106.95 1 107.55 107.05 108.05 0.60074 0 0 0 1.008 1 49370 49370 0.35063 0 1 + 15416 11154 9784 9808 17782 17782 -0.0024472346851780458 LANQRKRQL 9 Unmodified _LANQRKRQL_ 0 0 0 ENST00000471188.5_1_7:92887474-92887687:+|nuORF;nc|ENSG00000004766|Q96JG6-2|VPS50;ENST00000441602.5_1_7:92883193-92979232:+|nuORF;nc|ENSG00000004766|Q96JG6-3|VPS50;ENSG00000004766|ENST00000305866|VPS50 ENST00000471188.5_1_7:92887474-92887687:+|nuORF ENST00000471188.5_1_7:92887474-92887687:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.23345947265625 3 376.231634 1125.67307 2.5908 0.00097473 0.013547 5.0967E-06 2.6043 0.00097983 376.2319034728314 26.051 0.24602 26.676 26.571 26.817 0.62505 26 17 2 0 0 0 0.75535 1 11935 11935 8.1555 8.1555 1 258330 15417 316 9785 9809 17783 17783 0.11526436476992785 LAPLHLLLL 9 Unmodified _LAPLHLLLL_ 0 0 0 chr12:76866261-76920407|149|29.59|0.01|12.51|-|1|TE_info:MSTB,MSTB_dup6250,ERVL-MaLR,LTR,donor,-,76920407,76920677|CSRP2,None|4 chr12:76866261-76920407|149|29.59|0.01|12.51|-|1|TE_info:MSTB,MSTB_dup6250,ERVL-MaLR,LTR,donor,-,76920407,76920677|CSRP2,None|4 chr12:76866261-76920407|149|29.59|0.01|12.51|-|1|TE_info:MSTB,MSTB_dup6250,ERVL-MaLR,LTR,donor,-,76920407,76920677|CSRP2,None|4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.8973083496094 3 334.895189 1001.66374 NaN NaN NaN NaN NaN NaN NaN 16.28 1 16.584 16.084 17.084 0.30438 0 0 0 0.91342 1 7368 7368 0.26902 0 1 15418 148 9786 9810 17784 17784 0.16297275138776968 LAPLRLIRHH 10 Unmodified _LAPLRLIRHH_ 0 0 0 REV__nc|ENSG00000248905|Q68DA7-2|FMN1 REV__nc|ENSG00000248905|Q68DA7-2|FMN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.383056640625 2 613.385648 1224.75674 NaN NaN NaN NaN NaN NaN NaN 103 1 103.32 102.82 103.82 0.31863 0 0 0 1.0015 1 47631 47631 0.45834 0 1 + 15419 14643 9787 9811 17785 17785 0.15335592644692042 LAPREELL 8 Unmodified _LAPREELL_ 0 0 0 REV__nc|ENSG00000115592|Q9UGI9-2|PRKAG3 REV__nc|ENSG00000115592|Q9UGI9-2|PRKAG3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.7778625488281 2 470.776742 939.538931 3.2993 0.0015532 -0.51578 -0.00024282 2.7835 0.0013104 470.7764510393596 31.813 0.27571 32.068 31.854 32.129 0.25452 26 23 2 0 0 0 0.52777 1 14478 14478 12.532 0 1 216440 + 15420 11374 9788 9812 17786 17786 0.0667435793156983 LAPRRRARPR 10 Unmodified _LAPRRRARPR_ 0 0 0 REV__ENST00000342584.3_1_5:473081-473207:-|nuORF REV__ENST00000342584.3_1_5:473081-473207:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 416.6266784667969 3 416.933923 1247.77994 2.1473 0.00089528 -2.8298 -0.0011799 -0.68256 -0.00028458 416.9323983736934 71.655 0.15269 71.655 71.614 71.767 0 16 13 2 0 0 0 0.12676 1 34834 34834 3.3196 1.8645 1 468720 + 15421 15473 9789 9813 17787 17787 0.16596031482026774 LAPRRRARPR 10 Unmodified _LAPRRRARPR_ 0 0 0 REV__ENST00000342584.3_1_5:473081-473207:-|nuORF REV__ENST00000342584.3_1_5:473081-473207:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 416.933923 1247.77994 2.4255 0.0010113 -3.3639 -0.0014025 -0.93833 -0.00039122 416.93321135289733 71.14 0.08699 71.802 71.736 71.823 0.66209 0.07378 -0.00052275 NaN 3.3196 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 229560 + 15422 15473 9789 9813 0.16596031482026774 LAPRVRRQP 9 Unmodified _LAPRVRRQP_ 0 0 0 REV__ENST00000546828.6_1_12:98909466-98909845:+|nuORF REV__ENST00000546828.6_1_12:98909466-98909845:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.8433837890625 2 546.841074 1091.66759 3.7481 0.0020496 -1.0719 -0.00058614 2.6763 0.0014635 546.8403322130887 96.998 0.51803 97.6 97.358 97.876 0.6019 75 25 4 0 0 0 1.178 1 44521 44521 0.52476 0 1 33054000 + 15423 17252 9790 9814 17788 17788 0.12542757685173456 LAQIERLNNVQ 11 Unmodified _LAQIERLNNVQ_ 0 0 0 REV__nc|ENSG00000080823|Q9UQ07-6|MOK REV__nc|ENSG00000080823|Q9UQ07-6|MOK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 649.1192626953125 2 649.364776 1296.715 NaN NaN NaN NaN NaN NaN NaN 69.994 1 70.655 70.155 71.155 0.66071 0 0 0 1.0073 1 32092 32092 1.1933 0.12188 1 + 15424 10600 9791 9815 17789 17789 0.07850947374822681 LAQWIPFWSH 10 Unmodified _LAQWIPFWSH_ 0 0 0 ENST00000492806.5_1_3:42788640-42799837:-|nuORF ENST00000492806.5_1_3:42788640-42799837:-|nuORF ENST00000492806.5_1_3:42788640-42799837:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 428.7637939453125 3 428.888986 1283.64513 NaN NaN NaN NaN NaN NaN NaN 103.28 1 103.6 103.1 104.1 0.31863 0 0 0 1.0003 1 47751 47751 0.62683 0.17231 1 15425 8409 9792 9816 17790 17790 0.01465113496919912 LAREKLVL 8 Unmodified _LAREKLVL_ 0 0 0 REV__ENSG00000184194|ENST00000332582|GPR173 REV__ENSG00000184194|ENST00000332582|GPR173 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.09210205078125 3 314.542927 940.606951 2.2907 0.00072052 -0.025349 -7.9734E-06 2.2653 0.00071255 314.5429540684805 34.021 0.24227 34.275 34.123 34.365 0.25389 17 10 2 0 0 0 0.14132 1 15500 15500 3.2813 0 1 602490 + 15426 13960 9793 9817 17791 17791 0.13427227582224077 LARFLLLKYQ 10 Unmodified _LARFLLLKYQ_ 0 0 0 ENSG00000155495|ENST00000285879|MAGEC1 ENSG00000155495|ENST00000285879|MAGEC1 ENSG00000155495|ENST00000285879|MAGEC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 632.894775390625 2 632.892441 1263.77033 NaN NaN NaN NaN NaN NaN NaN 13.742 1 14.05 13.55 14.55 0.30727 0 0 0 0.99733 1 6203 6203 3.9444 0.3479 1 15427 3865 9794 9818 17792 17792 0.14899405633286733 LARHHRWLWQ 10 Unmodified _LARHHRWLWQ_ 0 0 0 REV__ENST00000589367.5_1_17:33464890-33466847:-|nuORF REV__ENST00000589367.5_1_17:33464890-33466847:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 701.962646484375 2 701.883804 1401.75306 NaN NaN NaN NaN NaN NaN NaN 108.66 1 109.26 108.76 109.76 0.60264 0 0 0 1.0015 1 50130 50130 0.45834 0.10771 1 + 15428 17568 9795 9819 17793 17793 0.06824922870828232 LARKRRWYKTE 11 Unmodified _LARKRRWYKTE_ 0 0 0 nc|ENSG00000054392|Q5VTY9-5|HHAT;nc|ENSG00000054392|Q5VTY9-2|HHAT nc|ENSG00000054392|Q5VTY9-5|HHAT nc|ENSG00000054392|Q5VTY9-5|HHAT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 753.9356689453125 2 753.936234 1505.85791 NaN NaN NaN NaN NaN NaN NaN 75.788 1 75.788 75.288 76.288 0 0 0 0 1.008 1 37144 37144 0.35063 0 1 15429 9545 9796 9820 17794 17794 0.1252199955672495 LARLHRPRWLR 11 Unmodified _LARLHRPRWLR_ 0 0 0 ENST00000257700.6_1_7:105172682-105177020:+|nuORF ENST00000257700.6_1_7:105172682-105177020:+|nuORF ENST00000257700.6_1_7:105172682-105177020:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 737.4566650390625 2 737.454928 1472.8953 NaN NaN NaN NaN NaN NaN NaN 27.432 1 27.432 26.932 27.932 0 0 0 0 1.008 1 12352 12352 0.30703 0 1 15430 6533 9797 9821 17795 17795 0.17777135613005157 LARLIKKKRKK 11 Unmodified _LARLIKKKRKK_ 0 0 0 L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|41|1|sense L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|41|1|sense L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|41|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 691.8880004882812 2 691.49573 1380.97691 NaN NaN NaN NaN NaN NaN NaN 55.292 1 55.558 55.058 56.058 0.26543 0 0 0 1.0082 1 25284 25284 0 0 1 15431 9468 9798 9822 17796 17796 0.30165818252248755 LARLRGRMPVP 11 Unmodified _LARLRGRMPVP_ 0 0 0 REV__ENST00000377996.5_1_9:35846336-35847153:+|nuORF REV__ENST00000377996.5_1_9:35846336-35847153:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.5934143066406 3 422.592286 1264.75503 3.0654 0.0012954 -0.11432 -4.8313E-05 2.9511 0.0012471 422.5920192710376 56.467 0.57382 57.135 56.845 57.419 0.66829 55 32 2 0 0 0 0.88721 1 25787 25787 1.2148 0 1 1441500 + 15432 15841 9799 9823 17797 17797 0.13324215564421138 LARQLIKKFSN 11 Unmodified _LARQLIKKFSN_ 0 0 0 REV__nc|ENSG00000166451|Q96H22-2|CENPN REV__nc|ENSG00000166451|Q96H22-2|CENPN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 659.4024658203125 2 659.403704 1316.79285 NaN NaN NaN NaN NaN NaN NaN 40.603 1 40.872 40.372 41.372 0.26904 0 0 0 1.0073 1 18472 18472 1.1933 0.735 1 + 15433 13242 9800 9824 17798 17798 0.14713005030898785 LARQVRDI 8 Unmodified _LARQVRDI_ 0 0 0 ENSG00000196544|ENST00000389017|BORCS6 ENSG00000196544|ENST00000389017|BORCS6 ENSG00000196544|ENST00000389017|BORCS6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.1988220214844 3 324.197931 969.571963 2.1429 0.00069473 0.53893 0.00017472 2.6818 0.00086945 324.19812877708466 16.85 0.6057 17.154 16.795 17.401 0.30438 89 55 2 0 0 0 0.69414 2 7581 7581;7671 4.3292 0 1 120570 15434 5754 9801 9825 17799;17800 17799 0.08595984774274257 LARRKIRKKRK 11 Unmodified _LARRKIRKKRK_ 0 0 0 REV__ENSG00000130943|ENST00000253255|PKDREJ REV__ENSG00000130943|ENST00000253255|PKDREJ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 726.7440185546875 2 727.007328 1452.0001 NaN NaN NaN NaN NaN NaN NaN 71.769 1 72.027 71.527 72.527 0.25786 0 0 0 1.0072 1 32915 32915 1.3295 1.0225 1 + 15435 11838 9802 9826 17801 17801 0.2921825708954202 LARTVTLYLFL 11 Unmodified _LARTVTLYLFL_ 0 0 0 ENST00000304411.2_1_3:71804264-71804414:+|nuORF ENST00000304411.2_1_3:71804264-71804414:+|nuORF ENST00000304411.2_1_3:71804264-71804414:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.2033386230469 4 328.202416 1308.78056 2.2456 0.000737 0.64676 0.00021227 2.8923 0.00094927 328.20267313313747 55.266 0.20859 55.266 55.124 55.333 0 25 17 2 0 0 0 0.91104 1 25398 25398 1.2148 0.4383 1 1441600 15436 6826 9803 9827 17802 17802 0.13851968567837503 LARVSCRI 8 Unmodified _LARVSCRI_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;SPTBN1|p.E1055Gfs*20|1|0.19|ENSG00000115306|chr2:54631208-54631224|GAGAGGCCTCCCTGGGA/-|frameshift_variant;nc|ENSG00000070182|P11277-3|SPTB;nc|ENSG00000070182|P11277|SPTB;ENSG00000070182|ENST00000644917|SPTB ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 306.5162658691406 3 306.516495 916.527655 1.9255 0.00059021 -1.5971 -0.00048955 0.3284 0.00010066 306.5159756987171 13.1 0.239 13.344 13.257 13.496 0.24346 27 18 2 0 0 0 0.60101 1 5699 5699 13.906 0 1 270840 15437 1960 9804 9828 17803 17803 0.06605257356443417 LASLNLRP 8 Unmodified _LASLNLRP_ 0 0 0 nc|ENSG00000095066|Q96ED9-2|HOOK2;ENSG00000095066|ENST00000397668|HOOK2 nc|ENSG00000095066|Q96ED9-2|HOOK2 nc|ENSG00000095066|Q96ED9-2|HOOK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.2729797363281 2 442.271627 882.528701 NaN NaN NaN NaN NaN NaN NaN 91.246 1 91.908 91.408 92.408 0.66198 0 0 0 0.99035 1 41991 41991 3.9444 0 1 15438 1115 9805 9829 17804 17804 0.08273794996989636 LASPPLLLLI 10 Unmodified _LASPPLLLLI_ 0 0 0 REV__ENST00000535372.1_1_6:160182524-160183172:-|nuORF REV__ENST00000535372.1_1_6:160182524-160183172:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.20794677734375 3 350.570483 1048.68962 2.3586 0.00082685 2.2547 0.00079042 4.6133 0.0016173 350.9060038312125 36.948 0.10655 37.741 37.674 37.781 0.79342 7 4 2 0 0 0 0.12676 1 16718 16718 0.15932 0 1 151490 + 15439 17174 9806 9830 17805 17805 0.16722124590387466 LASPPLLLLI 10 Unmodified _LASPPLLLLI_ 0 0 0 REV__ENST00000535372.1_1_6:160182524-160183172:-|nuORF REV__ENST00000535372.1_1_6:160182524-160183172:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 350.570483 1048.68962 2.5534 0.00089516 3.1309 0.0010976 5.6844 0.0019928 350.5716538893161 38.049 0.3285 38.049 37.96 38.289 0 0.13889 0.00015499 NaN 0.15932 13 11 2 NaN NaN NaN NaN 0 NaN NaN 0 425220 + 15440 17174 9806 9830 0.16722124590387466 LASPPLLLLI 10 Unmodified _LASPPLLLLI_ 0 0 0 REV__ENST00000535372.1_1_6:160182524-160183172:-|nuORF REV__ENST00000535372.1_1_6:160182524-160183172:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 350.570483 1048.68962 2.6218 0.00091913 2.8444 0.00099716 5.4662 0.0019163 350.571422202116 37.68 0.4078 37.94 37.63 38.038 0.26083 0.030084 -0.00014638 NaN 0.15932 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 248610 + 15441 17174 9806 9830 0.16722124590387466 LASQKINPITN 11 Unmodified _LASQKINPITN_ 0 0 0 REV__ENSG00000119900|ENST00000370435|OGFRL1 REV__ENSG00000119900|ENST00000370435|OGFRL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 400.2397766113281 3 400.231189 1197.67174 NaN NaN NaN NaN NaN NaN NaN 101.23 1 101.83 101.33 102.33 0.59717 0 0 0 1.0063 1 46869 46869 1.0136 0.38675 1 + 15442 11517 9807 9831 17806 17806 0.08080757597554111 LASVAGFLLAL 11 Unmodified _LASVAGFLLAL_ 0 0 0 REV__ENST00000530105.1_1_11:57156392-57157417:-|nuORF REV__ENST00000530105.1_1_11:57156392-57157417:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.2189331054688 2 537.831517 1073.64848 3.233 0.0017388 0.00833 4.4802E-06 3.2413 0.0017433 537.8313359668786 67.637 0.26111 68.295 68.135 68.397 0.65777 30 17 3 0 0 0 0.10283 1 30962 30962 41.84 5.3334 1 862120 + 15443 14066 9808 9832 17807 17807 0.11460363550895636 LASVRRDVFID 11 Unmodified _LASVRRDVFID_ 0 0 0 REV__nc|ENSG00000115592|Q9UGI9-2|PRKAG3 REV__nc|ENSG00000115592|Q9UGI9-2|PRKAG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 430.9117126464844 3 430.910338 1289.70918 NaN NaN NaN NaN NaN NaN NaN 44.904 1 44.904 44.404 45.404 0 0 0 0 0.93332 1 20532 20532 7.0371 0 1 + 15444 11374 9809 9833 17808 17808 0.07591848863171435 LATDRVHFL 9 Unmodified _LATDRVHFL_ 0 0 0 ENST00000450544.1_1_7:63361310-63365003:+|nuORF ENST00000450544.1_1_7:63361310-63365003:+|nuORF ENST00000450544.1_1_7:63361310-63365003:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1071.598876953125 1 1071.59456 1070.58728 3.3474 0.003587 1.543 0.0016535 4.8904 0.0052405 1071.5959121213573 61.447 0.23734 62.11 62.025 62.262 0.66261 16 11 2 0 0 0 1.101 1 28157 28157 2.3027 0 1 667710 15445 8008 9810 9834 17809 17809 0.05480851571473977 LATHMCEE 8 Unmodified _LATHMCEE_ 0 0 0 ENST00000550342.1_3_12:48741727-48744027:-|nuORF ENST00000550342.1_3_12:48741727-48744027:-|nuORF ENST00000550342.1_3_12:48741727-48744027:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 467.1944885253906 2 467.193871 932.373188 NaN NaN NaN NaN NaN NaN NaN 63.388 1 63.636 63.136 64.136 0.24803 0 0 0 0.99035 1 29030 29030 5.7604 0.52976 1 15446 8868 9811 9835 17810 17810 -0.09570359911106152 LATIDLVLSST 11 Unmodified _LATIDLVLSST_ 0 0 0 ENSG00000196778|ENST00000641528|OR52K1 ENSG00000196778|ENST00000641528|OR52K1 ENSG00000196778|ENST00000641528|OR52K1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.6289672851562 2 566.826629 1131.63871 NaN NaN NaN NaN NaN NaN NaN 73.582 1 74.281 73.781 74.781 0.69881 0 0 0 0.98464 1 35497 35497 8.1555 0.8663 1 15447 5776 9812 9836 17811 17811 0.07815130754852362 LATKTEVAL 9 Unmodified _LATKTEVAL_ 0 0 0 nc|ENSG00000047849|P27816-2|MAP4;nc|ENSG00000047849|P27816-6|MAP4;nc|ENSG00000047849|P27816|MAP4;ENSG00000047849|ENST00000683076|MAP4;nc|ENSG00000047849|P27816-5|MAP4 nc|ENSG00000047849|P27816-2|MAP4 nc|ENSG00000047849|P27816-2|MAP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.2859191894531 2 473.2844 944.554247 2.8507 0.0013492 0.53211 0.00025184 3.3828 0.001601 473.28457944497325 36.455 0.37556 36.455 36.265 36.64 0 50 17 4 0 0 0 0.0020727 3 16556 16503;16556;16606 103.42 38.184 1 5347400 15448 562 9813 9837 17812;17813;17814 17813 0.07975224728750163 LATKTEVAL 9 Unmodified _LATKTEVAL_ 0 0 0 nc|ENSG00000047849|P27816-2|MAP4;nc|ENSG00000047849|P27816-6|MAP4;nc|ENSG00000047849|P27816|MAP4;ENSG00000047849|ENST00000683076|MAP4;nc|ENSG00000047849|P27816-5|MAP4 nc|ENSG00000047849|P27816-2|MAP4 nc|ENSG00000047849|P27816-2|MAP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.2859802246094 2 473.2844 944.554247 3.0225 0.0014305 0.3706 0.0001754 3.3931 0.0016059 473.28454121964467 35.636 0.27024 36.427 36.251 36.521 0.79131 36 13 3 0 0 0 0.0043297 2 16173 16115;16173 93.166 36.989 1 4803800 15449 562 9813 9837 17815;17816 17816 0.07975224728750163 LATKTEVAL 9 Unmodified _LATKTEVAL_ 0 0 0 nc|ENSG00000047849|P27816-2|MAP4;nc|ENSG00000047849|P27816-6|MAP4;nc|ENSG00000047849|P27816|MAP4;ENSG00000047849|ENST00000683076|MAP4;nc|ENSG00000047849|P27816-5|MAP4 nc|ENSG00000047849|P27816-2|MAP4 nc|ENSG00000047849|P27816-2|MAP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.2857971191406 2 473.2844 944.554247 2.9428 0.0013928 0.31561 0.00014937 3.2584 0.0015421 473.2845245556224 36.266 0.42053 36.523 36.33 36.751 0.25768 50 16 4 0 0 0 0.0043297 2 16505 16505;16561 93.166 31.808 1 8120900 15450 562 9813 9837 17817;17818 17817 0.07975224728750163 LATKTEVAL 9 Unmodified _LATKTEVAL_ 0 0 0 nc|ENSG00000047849|P27816-2|MAP4;nc|ENSG00000047849|P27816-6|MAP4;nc|ENSG00000047849|P27816|MAP4;ENSG00000047849|ENST00000683076|MAP4;nc|ENSG00000047849|P27816-5|MAP4 nc|ENSG00000047849|P27816-2|MAP4 nc|ENSG00000047849|P27816-2|MAP4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 473.2844 944.554247 3.0991 0.0014668 0.070482 3.3358E-05 3.1696 0.0015001 473.2844380099463 35.704 0.35321 36.33 36.167 36.52 0.62631 -0.10347 -0.00022638 NaN 103.42 45 13 4 NaN NaN NaN NaN 0 NaN NaN 0 8511400 15451 562 9813 9837 0.07975224728750163 LATRKRRI 8 Unmodified _LATRKRRI_ 0 0 0 ENSG00000008256|ENST00000350796|CYTH3;nc|ENSG00000008256|O43739|CYTH3 ENSG00000008256|ENST00000350796|CYTH3 ENSG00000008256|ENST00000350796|CYTH3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.5610656738281 3 338.561203 1012.66178 NaN NaN NaN NaN NaN NaN NaN 12.583 1 12.89 12.39 13.39 0.30727 0 0 0 0.99035 1 5675 5675 1.8442 0.19162 1 15452 374 9814 9838 17819 17819 0.15595659173504828 LATVNLSSL 9 Unmodified _LATVNLSSL_ 0 0 0 nc|ENSG00000196684|Q96JZ2-2|HSH2D;ENSG00000196684|ENST00000613986|HSH2D nc|ENSG00000196684|Q96JZ2-2|HSH2D nc|ENSG00000196684|Q96JZ2-2|HSH2D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 306.51654052734375 3 306.514925 916.522947 2.3868 0.0007316 3.6809 0.0011282 6.0677 0.0018598 306.516157165372 12.787 0.1692 13.43 13.345 13.514 0.64272 7 4 2 0 0 0 0.12301 1 5757 5757 20.415 0 1 624990 15453 5769 9815 9839 17820 17820 0.06134651694674176 LAVAGRWP 8 Unmodified _LAVAGRWP_ 0 0 0 REV__ENSG00000188305|ENST00000342063|PEAK3 REV__ENSG00000188305|ENST00000342063|PEAK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 435.2528381347656 2 435.253237 868.491922 NaN NaN NaN NaN NaN NaN NaN 86.375 1 86.625 86.125 87.125 0.24974 0 0 0 0.99035 1 39753 39753 2.3027 0 1 + 15454 14140 9816 9840 17821 17821 0.05241543171075591 LAVALLFH 8 Unmodified _LAVALLFH_ 0 0 0 nc|ENSG00000163518|Q96PJ5-2|FCRL4;ENSG00000163518|ENST00000271532|FCRL4 nc|ENSG00000163518|Q96PJ5-2|FCRL4 nc|ENSG00000163518|Q96PJ5-2|FCRL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 441.9411926269531 2 442.273638 882.532724 NaN NaN NaN NaN NaN NaN NaN 53.722 1 54.526 54.026 55.026 0.80351 0 0 0 0.99035 1 24516 24516 2.8892 0 1 15455 4215 9817 9841 17822 17822 0.08675884490708086 LAVELARHQ 9 Unmodified _LAVELARHQ_ 0 0 0 nc|ENSG00000056487|Q96EK2-3|PHF21B;ENSG00000056487|ENST00000313237|PHF21B;PHF21B|p.S217Wfs*115|1|0.31|ENSG00000056487|chr22:44913977-44914005|GGAGGGGTGAAGGGGACAGTGATGGGGAG/-|frameshift_variant nc|ENSG00000056487|Q96EK2-3|PHF21B nc|ENSG00000056487|Q96EK2-3|PHF21B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.2025146484375 3 346.201452 1035.58253 2.5853 0.00089502 0.70261 0.00024324 3.2879 0.0011383 346.20167292631544 19.801 0.25546 20.459 20.329 20.584 0.65829 44 18 3 0 0 0 0.30982 1 8966 8966 16.149 2.5342 1 576610 15456 621 9818 9842 17823 17823 0.06615967428706426 LAVKQMHSL 9 Unmodified _LAVKQMHSL_ 0 0 0 REV__nc|ENSG00000121446|A5PLK6-6|RGSL1 REV__nc|ENSG00000121446|A5PLK6-6|RGSL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.2449340820312 2 513.791869 1025.56919 3.6032 0.0018513 -1.7234 -0.00088549 1.8798 0.00096581 513.7907831753072 39.731 0.19457 40.373 40.277 40.471 0.64136 11 7 2 0 0 0 0.10694 1 18182 18182 7.2892 1.5288 1 283370 + 15457 11558 9819 9843 17824 17824 0.05742393325112971 LAVLCEKTLH 10 Unmodified _LAVLCEKTLH_ 0 0 0 REV__ENST00000477078.2_1_10:106037658-106045722:+|nuORF REV__ENST00000477078.2_1_10:106037658-106045722:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.8206176757812 2 563.818084 1125.62162 NaN NaN NaN NaN NaN NaN NaN 55.946 1 56.211 55.711 56.711 0.26543 0 0 0 0.99807 1 25587 25587 3.2813 1.2216 1 + 15458 10433 9820 9844 17825 17825 0.0638293166805397 LAVMIPRRPRE 11 Unmodified _LAVMIPRRPRE_ 0 0 0 ENST00000492485.5_1_22:38106528-38122511:+|nuORF;TRIOBP|p.I1114Tfs*97|1|0.26|ENSG00000100106|chr22:37725894-37725900|GTATTGG/-|frameshift_variant;nc|ENSG00000100106|Q9H2D6-2|TRIOBP;ENSG00000100106|ENST00000644935|TRIOBP ENST00000492485.5_1_22:38106528-38122511:+|nuORF ENST00000492485.5_1_22:38106528-38122511:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.2020568847656 4 335.201316 1336.77616 2.1811 0.00073112 0.62306 0.00020885 2.8042 0.00093998 335.4522526703953 55.255 0.30648 55.521 55.357 55.663 0.26543 27 18 2 0 0 0 0.91359 1 25252 25252 0.40827 0.041592 1 2534300 15459 1177 9821 9845 17826 17826 0.12124180873297519 LAVMIPRRPRE 11 Unmodified _LAVMIPRRPRE_ 0 0 0 ENST00000492485.5_1_22:38106528-38122511:+|nuORF;TRIOBP|p.I1114Tfs*97|1|0.26|ENSG00000100106|chr22:37725894-37725900|GTATTGG/-|frameshift_variant;nc|ENSG00000100106|Q9H2D6-2|TRIOBP;ENSG00000100106|ENST00000644935|TRIOBP ENST00000492485.5_1_22:38106528-38122511:+|nuORF ENST00000492485.5_1_22:38106528-38122511:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.20263671875 4 335.201316 1336.77616 2.2155 0.00074263 0.60258 0.00020199 2.8181 0.00094462 335.2014792542809 54.535 0.73399 55.202 54.824 55.558 0.6665 70 51 2 0 0 0 0.91359 1 25005 25005 0.40827 0 1 3594200 15460 1177 9821 9845 17827 17827 0.12124180873297519 LAVSENHIL 9 Unmodified _LAVSENHIL_ 0 0 0 nc|ENSG00000044115|P35221-3|CTNNA1;ENSG00000044115|ENST00000302763|CTNNA1;nc|ENSG00000044115|P35221-2|CTNNA1 nc|ENSG00000044115|P35221-3|CTNNA1 nc|ENSG00000044115|P35221-3|CTNNA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.2809753417969 2 498.279649 994.544745 3.2589 0.0016238 0.050118 2.4973E-05 3.309 0.0016488 498.2795786975382 46.131 0.30295 46.396 46.232 46.535 0.26561 26 14 2 0 0 0 0.010018 1 21073 21073 81.89 24.419 1 1019300 15461 548 9822 9846 17828 17828 0.04725456443236453 LAVSENHIL 9 Unmodified _LAVSENHIL_ 0 0 0 nc|ENSG00000044115|P35221-3|CTNNA1;ENSG00000044115|ENST00000302763|CTNNA1;nc|ENSG00000044115|P35221-2|CTNNA1 nc|ENSG00000044115|P35221-3|CTNNA1 nc|ENSG00000044115|P35221-3|CTNNA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.28131103515625 2 498.279649 994.544745 3.4733 0.0017307 0.13361 6.6576E-05 3.607 0.0017973 498.27951743473983 45.511 0.33076 46.162 45.938 46.269 0.65104 31 15 3 0 0 0 0.017293 1 20832 20832 71.922 23.576 1 569200 15462 548 9822 9846 17829 17829 0.04725456443236453 LAVSENHIL 9 Unmodified _LAVSENHIL_ 0 0 0 nc|ENSG00000044115|P35221-3|CTNNA1;ENSG00000044115|ENST00000302763|CTNNA1;nc|ENSG00000044115|P35221-2|CTNNA1 nc|ENSG00000044115|P35221-3|CTNNA1 nc|ENSG00000044115|P35221-3|CTNNA1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 498.279649 994.544745 2.8802 0.0014351 0.68022 0.00033894 3.5604 0.0017741 498.27960833309606 46.366 0.2083 46.366 46.24 46.448 0 0.058227 0.00049792 NaN 81.89 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 646250 15463 548 9822 9846 0.04725456443236453 LAVVVAVYL 9 Unmodified _LAVVVAVYL_ 0 0 0 REV__ENSG00000183379|ENST00000331628|SYNDIG1L REV__ENSG00000183379|ENST00000331628|SYNDIG1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.8031005859375 2 473.802229 945.589904 NaN NaN NaN NaN NaN NaN NaN 79.923 1 80.243 79.743 80.743 0.31998 0 0 0 0.90511 1 39057 39057 2.3027 0 1 + 15464 13930 9823 9847 17830 17830 0.11493306976421991 LAWIRVLP 8 Unmodified _LAWIRVLP_ 0 0 0 ENST00000441947.1_1_21:46720298-46720370:-|nuORF ENST00000441947.1_1_21:46720298-46720370:-|nuORF ENST00000441947.1_1_21:46720298-46720370:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.3084716796875 2 484.308013 966.601472 NaN NaN NaN NaN NaN NaN NaN 103.34 1 103.66 103.16 104.16 0.31863 0 0 0 0.99035 1 47778 47778 0.79363 0 1 15465 7939 9824 9848 17831 17831 0.11683548790404075 LAWLLILL 8 Unmodified _LAWLLILL_ 0 0 0 REV__ENSG00000188211|ENST00000338965|NCR3LG1 REV__ENSG00000188211|ENST00000338965|NCR3LG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.8244934082031 2 477.822964 953.631375 NaN NaN NaN NaN NaN NaN NaN 44.731 1 45.552 45.052 46.052 0.82075 0 0 0 0.99035 1 20371 20371 0.79363 0 1 + 15466 14138 9825 9849 17832 17832 0.15270487735745064 LAWLLRPKTL 10 Unmodified _LAWLLRPKTL_ 0 0 0 REV__ENSG00000203668|ENST00000366553|CHML REV__ENSG00000203668|ENST00000366553|CHML MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 404.2495422363281 3 404.260531 1209.75976 NaN NaN NaN NaN NaN NaN NaN 56.473 1 57.142 56.642 57.642 0.66829 0 0 0 0.99976 1 25836 25836 1.9064 0.45126 1 + 15467 14387 9826 9850 17833 17833 0.16327422978838513 LAYLGFLML 9 Unmodified _LAYLGFLML_ 0 0 0 ENSG00000092439|ENST00000646667|TRPM7 ENSG00000092439|ENST00000646667|TRPM7 ENSG00000092439|ENST00000646667|TRPM7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.5342712402344 3 347.533152 1039.57763 2.3168 0.00080518 0.48028 0.00016691 2.7971 0.00097209 347.533223865806 26.343 0.31994 26.968 26.832 27.152 0.62505 39 16 3 0 0 0 0.92809 1 12141 12141 5.7319 2.7366 1 875970 15468 1098 9827 9851 17834 17834 0.05941947241717571 LAYLIWWT 8 Unmodified _LAYLIWWT_ 0 0 0 ENST00000589448.5_1_19:19230741-19243387:-|nuORF;ENSG00000064545|ENST00000162044|TMEM161A;ENST00000591443.1_1_19:19230741-19231736:-|nuORF;ENST00000587406.5_1_19:19230741-19232328:-|nuORF;nc|ENSG00000064545|Q9NX61-2|TMEM161A ENST00000589448.5_1_19:19230741-19243387:-|nuORF ENST00000589448.5_1_19:19230741-19243387:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1065.91552734375 1 1065.57678 1064.5695 3.2784 0.0034934 -0.66471 -0.0007083 2.6137 0.0027851 1065.5777956300046 60.83 0.20812 61.086 61.039 61.247 0.25578 13 8 2 0 0 0 0.14249 1 27848 27848 2.8892 0 1 508790 15469 672 9828 9852 17835 17835 0.03980136316590688 LCCCCNCCCGH 11 Unmodified _LCCCCNCCCGH_ 0 0 0 ENSG00000147570|ENST00000276570|DNAJC5B ENSG00000147570|ENST00000276570|DNAJC5B ENSG00000147570|ENST00000276570|DNAJC5B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.1487426757812 2 581.148388 1160.28222 NaN NaN NaN NaN NaN NaN NaN 61.314 1 61.314 60.814 61.814 0 0 0 0 1.0082 1 28584 28584 0 0 1 15470 3573 9829 9853 17836 17836 -0.29150677810048364 LCCLHADM 8 Unmodified _LCCLHADM_ 0 0 0 ENSG00000076928|ENST00000354532|ARHGEF1;nc|ENSG00000076928|Q92888-3|ARHGEF1;ENST00000600274.5_1_19:42392153-42396275:+|nuORF ENSG00000076928|ENST00000354532|ARHGEF1 ENSG00000076928|ENST00000354532|ARHGEF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.1891174316406 2 453.187534 904.360515 NaN NaN NaN NaN NaN NaN NaN 16.441 1 16.745 16.245 17.245 0.30438 0 0 0 0.99035 1 7441 7441 0.79363 0 1 15471 852 9830 9854 17837 17837 -0.09549094574992978 LCCLHADM 8 Unmodified _LCCLHADM_ 0 0 0 ENSG00000076928|ENST00000354532|ARHGEF1;nc|ENSG00000076928|Q92888-3|ARHGEF1;ENST00000600274.5_1_19:42392153-42396275:+|nuORF ENSG00000076928|ENST00000354532|ARHGEF1 ENSG00000076928|ENST00000354532|ARHGEF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.1885681152344 2 453.187534 904.360515 NaN NaN NaN NaN NaN NaN NaN 16.918 1 17.222 16.722 17.722 0.30438 0 0 0 0.99035 1 7661 7661 0.79363 0 1 15472 852 9830 9854 17838 17838 -0.09549094574992978 LCGKLLWS 8 Unmodified _LCGKLLWS_ 0 0 0 REV__nc|ENSG00000177054|Q8IUH4-2|ZDHHC13 REV__nc|ENSG00000177054|Q8IUH4-2|ZDHHC13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 307.17578125 3 307.173846 918.499709 NaN NaN NaN NaN NaN NaN NaN 30.16 1 30.16 29.66 30.66 0 0 0 0 0.99035 1 13623 13623 1.6526 0.17072 1 + 15473 13723 9831 9855 17839 17839 0.03719934376340461 LCHCMLIRAA 10 Unmodified _LCHCMLIRAA_ 0 0 0 REV__nc|ENSG00000143493|Q9NVH2-4|INTS7 REV__nc|ENSG00000143493|Q9NVH2-4|INTS7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 565.7854614257812 2 565.785207 1129.55586 NaN NaN NaN NaN NaN NaN NaN 58.916 1 59.583 59.083 60.083 0.66703 0 0 0 0.99464 1 26968 26968 6.2058 0.97511 1 + 15474 12370 9832 9856 17840 17840 -0.003735040501169351 LCIKSLQI 8 Unmodified _LCIKSLQI_ 0 0 0 REV__nc|ENSG00000144445|A0AUZ9-2|KANSL1L REV__nc|ENSG00000144445|A0AUZ9-2|KANSL1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 306.8561706542969 3 306.521134 916.541574 2.0366 0.00062427 0.1473 4.5152E-05 2.1839 0.00066942 306.52116816637334 25.906 0.21783 26.531 26.457 26.675 0.62505 22 16 2 0 0 0 0.72814 1 11891 11891 3.5965 0.31518 1 315490 + 15475 12403 9833 9857 17841 17841 0.07996490064874706 LCLKKKKKKKK 11 Unmodified _LCLKKKKKKKK_ 0 0 0 AluSz6_dup29803|chr11:63572851-63572957:-|1.0054337000575218|0.2400240247261108|2.07|539.0|1|1|sense;AluSc5_dup2926|chr7:128469347-128469653:-|2.0398645452387387|0.2522616082610692|3.02|541.0|7|2|sense;AluSp_dup15305|chr5:139552676-139552981:-|1.0466684344505637|0.0913916671487778|3.52|522.0|2|1|sense AluSz6_dup29803|chr11:63572851-63572957:-|1.0054337000575218|0.2400240247261108|2.07|539.0|1|1|sense AluSz6_dup29803|chr11:63572851-63572957:-|1.0054337000575218|0.2400240247261108|2.07|539.0|1|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 686.8793334960938 2 686.981067 1371.94758 NaN NaN NaN NaN NaN NaN NaN 86.288 1 86.288 85.788 86.788 0 0 0 0 1.0072 1 44189 44189 1.3295 0 1 15476 33 9834 9858 17842 17842 0.27648537911727544 LCLVVKRVTRH 11 Unmodified _LCLVVKRVTRH_ 0 0 0 ENST00000508510.5_1_4:76649268-76649475:-|nuORF ENST00000508510.5_1_4:76649268-76649475:-|nuORF ENST00000508510.5_1_4:76649268-76649475:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.9413146972656 3 441.939575 1322.79689 2.9664 0.001311 0.65984 0.00029161 3.6263 0.0016026 442.27423330617216 54.46 0.49653 55.127 54.649 55.145 0.6665 49 29 2 0 0 0 0.91068 1 24908 24908 0.45452 0 1 2531900 15477 8532 9836 9859 17843 17843 0.1484077125294334 LCPAGRLPRRL 11 Unmodified _LCPAGRLPRRL_ 0 0 0 ENST00000566104.1_1_16:67189803-67193780:-|nuORF ENST00000566104.1_1_16:67189803-67193780:-|nuORF ENST00000566104.1_1_16:67189803-67193780:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 313.6929931640625 4 313.692121 1250.73938 2.0517 0.00064361 1.4927 0.00046825 3.5444 0.0011119 313.6923708058296 40.563 0.50684 40.563 40.341 40.848 0 57 26 3 0 0 0 0.91068 1 18405 18405 1.3296 1.3296 1 7400400 15478 9051 9837 9860 17844 17844 0.1240392904737746 LCPKLRTVP 9 Unmodified _LCPKLRTVP_ 0 0 0 REV__ENST00000409572.5_1_2:157186595-157198580:-|nuORF REV__ENST00000409572.5_1_2:157186595-157198580:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1026.6209716796875 1 1026.61285 1025.60557 3.1974 0.0032825 -0.87386 -0.00089712 2.3235 0.0023853 1026.6117753584494 47.621 0.17129 47.621 47.461 47.633 0 13 9 2 0 0 0 0.8705 1 21775 21775 6.2058 1.8765 1 1683800 + 15479 16099 9838 9861 17845 17845 0.09379270221802471 LCPKLRTVP 9 Unmodified _LCPKLRTVP_ 0 0 0 REV__ENST00000409572.5_1_2:157186595-157198580:-|nuORF REV__ENST00000409572.5_1_2:157186595-157198580:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1026.615478515625 1 1026.61285 1025.60557 3.6175 0.0037138 -1.2574 -0.0012909 2.3601 0.0024229 1026.6115839502627 47.236 0.45301 47.499 47.342 47.795 0.26363 31 18 2 0 0 0 0.89849 2 21554 21554;21600 5.7319 3.6721 1 1088400 + 15480 16099 9838 9861 17846;17847 17846 0.09379270221802471 LCPKLRTVP 9 Unmodified _LCPKLRTVP_ 0 0 0 REV__ENST00000409572.5_1_2:157186595-157198580:-|nuORF REV__ENST00000409572.5_1_2:157186595-157198580:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 1026.61285 1025.60557 3.1974 0.0032825 -0.87386 -0.00089712 2.3235 0.0023853 1026.6117753584494 47.621 0.17129 47.621 47.461 47.633 0 0.060827 0.00035399 NaN 6.2058 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 1683800 + 15481 16099 9838 9861 0.09379270221802471 LCPKLRTVP 9 Unmodified _LCPKLRTVP_ 0 0 0 REV__ENST00000409572.5_1_2:157186595-157198580:-|nuORF REV__ENST00000409572.5_1_2:157186595-157198580:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 1026.61285 1025.60557 3.6175 0.0037138 -1.2574 -0.0012909 2.3601 0.0024229 1026.6115839502627 47.236 0.45301 47.499 47.342 47.795 0.26363 -0.060827 -3.9786E-05 NaN 6.2058 31 18 2 NaN NaN NaN NaN 0 NaN NaN 0 1088400 + 15482 16099 9838 9861 0.09379270221802471 LCQWRRRQRRR 11 Unmodified _LCQWRRRQRRR_ 0 0 0 ENST00000370332.5_1_1:92949124-92949509:-|nuORF ENST00000370332.5_1_1:92949124-92949509:-|nuORF ENST00000370332.5_1_1:92949124-92949509:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.4649047851562 2 807.46075 1612.90695 NaN NaN NaN NaN NaN NaN NaN 18.493 1 18.493 17.993 18.993 0 0 0 0 1.0082 1 8217 8217 0 0 1 15483 7300 9839 9862 17848 17848 0.12501009364677884 LCQWRRRQRRR 11 Unmodified _LCQWRRRQRRR_ 0 0 0 ENST00000370332.5_1_1:92949124-92949509:-|nuORF ENST00000370332.5_1_1:92949124-92949509:-|nuORF ENST00000370332.5_1_1:92949124-92949509:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.4597778320312 2 807.46075 1612.90695 NaN NaN NaN NaN NaN NaN NaN 95.834 1 95.834 95.334 96.334 0 0 0 0 1.0082 1 51717 51717 0 0 1 15484 7300 9839 9862 17849 17849 0.12501009364677884 LCQWRRRQRRR 11 Unmodified _LCQWRRRQRRR_ 0 0 0 ENST00000370332.5_1_1:92949124-92949509:-|nuORF ENST00000370332.5_1_1:92949124-92949509:-|nuORF ENST00000370332.5_1_1:92949124-92949509:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 807.4613647460938 2 807.46075 1612.90695 NaN NaN NaN NaN NaN NaN NaN 78.116 1 78.778 78.278 79.278 0.66198 0 0 0 1.0082 1 35998 35998 0 0 1 15485 7300 9839 9862 17850 17850 0.12501009364677884 LCRRFFLKR 9 Unmodified _LCRRFFLKR_ 0 0 0 REV__ENST00000414441.5_1_7:100031292-100031550:+|nuORF REV__ENST00000414441.5_1_7:100031292-100031550:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.87158203125 2 619.868777 1237.723 3.8241 0.0023704 0.69508 0.00043086 4.5192 0.0028013 619.8696079744037 89.535 1.3247 90.213 89.542 90.867 0.67818 146 60 3 0 0 0 1.2078 1 41136 41136 0.6015 0 1 2591400 + 15486 16123 9840 9863 17851 17851 0.11364847881282003 LCSCSCCCCWC 11 Unmodified _LCSCSCCCCWC_ 0 0 0 REV__ENSG00000091844|ENST00000206262|RGS17 REV__ENSG00000091844|ENST00000206262|RGS17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 607.0008544921875 2 607.158421 1212.30229 NaN NaN NaN NaN NaN NaN NaN 75.559 1 75.559 75.059 76.059 0 0 0 0 1.0082 1 37024 37024 0 0 1 + 15487 10735 9841 9864 17852 17852 -0.29536926870082425 LCSIGRMAR 9 Unmodified _LCSIGRMAR_ 0 0 0 REV__RALGAPB|p.S399Nfs*14|1|0.04|ENSG00000170471|chr20:38517649-38517650|-/ATGAAATTATTCTTCATAGGTCAAAATATAT|frameshift_variant REV__RALGAPB|p.S399Nfs*14|1|0.04|ENSG00000170471|chr20:38517649-38517650|-/ATGAAATTATTCTTCATAGGTCAAAATATAT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 336.1918029785156 3 336.181006 1005.52119 NaN NaN NaN NaN NaN NaN NaN 36.837 1 36.837 36.337 37.337 0 0 0 0 0.84134 1 16719 16719 4.897 0.95262 1 + 15488 13438 9842 9865 17853 17853 0.018649961334176623 LCSKLFSF 8 Unmodified _LCSKLFSF_ 0 0 0 ENST00000367388.4_1_1:197886553-197886649:+|nuORF ENST00000367388.4_1_1:197886553-197886649:+|nuORF ENST00000367388.4_1_1:197886553-197886649:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.74945068359375 2 472.749139 943.483725 NaN NaN NaN NaN NaN NaN NaN 63.447 1 63.695 63.195 64.195 0.24803 0 0 0 0.12463 1 29057 29057 48.346 2.3249 1 15489 7258 9843 9866 17854 17854 0.009722281394488164 LCTGVFTRAK 10 Unmodified _LCTGVFTRAK_ 0 0 0 REV__ENSG00000160294|ENST00000291688|MCM3AP REV__ENSG00000160294|ENST00000291688|MCM3AP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.3035888671875 2 548.302601 1094.59065 NaN NaN NaN NaN NaN NaN NaN 84.333 1 84.333 83.833 84.833 0 0 0 0 0.98317 1 42676 42676 8.1555 0.24537 1 + 15490 12872 9844 9867 17855 17855 0.04713778353811904 LCTHWSFL 8 Unmodified _LCTHWSFL_ 0 0 0 REV__nc|ENSG00000146828|Q9BXP2-2|SLC12A9 REV__nc|ENSG00000146828|Q9BXP2-2|SLC12A9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1006.4797973632812 1 1006.4815 1005.47422 3.7429 0.0037672 -4.1065 -0.0041331 -0.36362 -0.00036598 1006.4780955560067 67.858 0.39944 68.11 67.877 68.277 0.25227 40 25 2 0 0 0 0.5438 1 31028 31028 18.135 4.6271 1 1157900 + 15491 12483 9845 9868 17856 17856 -0.02829540146092313 LCTKDYDDMN 10 Unmodified _LCTKDYDDMN_ 0 0 0 REV__ENST00000564306.5_1_15:65892084-65903486:-|nuORF REV__ENST00000564306.5_1_15:65892084-65903486:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.5005187988281 3 406.498618 1216.47402 NaN NaN NaN NaN NaN NaN NaN 46.307 1 46.959 46.459 47.459 0.65219 0 0 0 1.0013 1 21211 21211 0.62683 0 1 + 15492 12172 9846 9869 17857 17857 -0.12555372718907165 LCWKRLRRSS 10 Unmodified _LCWKRLRRSS_ 0 0 0 REV__ENST00000287878.8_2_7:151292482-151372578:-|nuORF REV__ENST00000287878.8_2_7:151292482-151372578:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 652.87646484375 2 652.872048 1303.72954 NaN NaN NaN NaN NaN NaN NaN 92.004 1 92.257 91.757 92.757 0.25253 0 0 0 1.0003 1 42299 42299 1.4819 0.15237 1 + 15493 15114 9847 9870 17858 17858 0.0898274104201846 LDAFALSVI 9 Unmodified _LDAFALSVI_ 0 0 0 REV__nc|ENSG00000164270|Q13639-7|HTR4 REV__nc|ENSG00000164270|Q13639-7|HTR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 948.6107177734375 1 948.54006 947.532783 4.0133 0.0038068 -0.87113 -0.0008263 3.1422 0.0029805 948.5396243346962 92.45 0.1954 93.097 92.997 93.192 0.64714 13 10 2 0 0 0 0.091193 1 42516 42516 46.021 6.0636 1 463130 + 15494 13080 9848 9871 17859 17859 0.056918397000458754 LDAFALSVI 9 Unmodified _LDAFALSVI_ 0 0 0 REV__nc|ENSG00000164270|Q13639-7|HTR4 REV__nc|ENSG00000164270|Q13639-7|HTR4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 948.54006 947.532783 4.2953 0.0040742 1.0652 0.0010104 5.3605 0.0050847 948.5413600312789 92.961 0.18356 93.216 93.146 93.33 0.25497 0.059305 0.0011801 NaN 46.021 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 421800 + 15495 13080 9848 9871 0.056918397000458754 LDAFALSVI 9 Unmodified _LDAFALSVI_ 0 0 0 REV__nc|ENSG00000164270|Q13639-7|HTR4 REV__nc|ENSG00000164270|Q13639-7|HTR4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 948.54006 947.532783 4.0133 0.0038068 -0.87113 -0.0008263 3.1422 0.0029805 948.5396243346962 92.45 0.1954 93.097 92.997 93.192 0.64714 -0.059305 -0.0006566 NaN 46.021 13 10 2 NaN NaN NaN NaN 0 NaN NaN 0 463130 + 15496 13080 9848 9871 0.056918397000458754 LDAMCKYC 8 Unmodified _LDAMCKYC_ 0 0 0 nc|ENSG00000131374|Q92609|TBC1D5;ENSG00000131374|ENST00000696125|TBC1D5 nc|ENSG00000131374|Q92609|TBC1D5 nc|ENSG00000131374|Q92609|TBC1D5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.6978759765625 2 473.695192 945.375831 3.1751 0.001504 1.3215 0.00062601 4.4966 0.00213 473.695904140768 47.297 0.17879 47.561 47.488 47.667 0.26363 10 7 2 0 0 0 0.70799 1 21614 21614 5.2307 0 1 219410 15497 2655 9849 9872 17860 17860 -0.09904227777803953 LDATGARP 8 Unmodified _LDATGARP_ 0 0 0 REV__ENST00000598647.1_1_19:50215929-50216859:+|nuORF REV__ENST00000598647.1_1_19:50215929-50216859:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.7176818847656 2 400.716685 799.418816 2.9032 0.0011634 -0.066192 -2.6524E-05 2.837 0.0011368 400.71664257311994 28.455 0.29103 28.716 28.539 28.83 0.2602 26 16 2 0 0 0 0.57648 1 12929 12929 15.847 3.3156 1 318740 + 15498 17623 9850 9873 17861 17861 0.011083696577998126 LDCVIIRRCPC 11 Unmodified _LDCVIIRRCPC_ 0 0 0 ENST00000532952.5_1_1:1255198-1259988:-|nuORF ENST00000532952.5_1_1:1255198-1259988:-|nuORF ENST00000532952.5_1_1:1255198-1259988:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.88983154296875 3 430.887494 1289.64065 NaN NaN NaN NaN NaN NaN NaN 81.929 1 82.589 82.089 83.089 0.65998 0 0 0 1.0079 1 37751 37751 0.45452 0 1 15499 8739 9851 9874 17862 17862 0.007418216958285484 LDEAQRRKL 9 Unmodified _LDEAQRRKL_ 0 0 0 ENSG00000139641|ENST00000394048|ESYT1;nc|ENSG00000139641|Q9BSJ8-2|ESYT1 ENSG00000139641|ENST00000394048|ESYT1 ENSG00000139641|ENST00000394048|ESYT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.8887634277344 3 376.887645 1127.64111 2.5583 0.00096419 0.28755 0.00010838 2.8458 0.0010726 376.8877737739488 16.797 1.407 17.101 16.153 17.56 0.30438 347 148 3 0 0 0 0.30982 3 7716 7493;7716;7763 16.149 3.2585 1 437530 15500 3157 9852 9875 17863;17864;17865 17864 0.08239024003182749 LDEAQRRKL 9 Unmodified _LDEAQRRKL_ 0 0 0 ENSG00000139641|ENST00000394048|ESYT1;nc|ENSG00000139641|Q9BSJ8-2|ESYT1 ENSG00000139641|ENST00000394048|ESYT1 ENSG00000139641|ENST00000394048|ESYT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.8300170898438 2 564.827829 1127.64111 3.5934 0.0020297 0.71486 0.00040377 4.3083 0.0024334 564.8282490767342 16.924 0.94013 17.585 16.906 17.846 0.66072 128 87 2 0 0 0 1.0894 1 7490 7490 0.45834 0 1 235650 15501 3157 9852 9875 17866 17866 0.08239024003182749 LDEAQRRKL 9 Unmodified _LDEAQRRKL_ 0 0 0 ENSG00000139641|ENST00000394048|ESYT1;nc|ENSG00000139641|Q9BSJ8-2|ESYT1 ENSG00000139641|ENST00000394048|ESYT1 ENSG00000139641|ENST00000394048|ESYT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.8890686035156 3 376.887645 1127.64111 2.7213 0.0010256 0.52512 0.00019791 3.2464 0.0012235 376.8878538358413 16.873 1.2501 17.534 16.596 17.846 0.66072 288 131 3 0 0 0 0.75535 1 7722 7722 8.1555 1.5252 1 602780 15502 3157 9852 9875 17867 17867 0.08239024003182749 LDERSPLQ 8 Unmodified _LDERSPLQ_ 0 0 0 REV__nc|ENSG00000184164|Q6UXH1-2|CRELD2 REV__nc|ENSG00000184164|Q6UXH1-2|CRELD2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.9765319824219 2 479.253631 956.49271 3.1489 0.0015091 0.12138 5.8171E-05 3.2703 0.0015673 479.25366857617814 36.971 0.42527 37.228 37.018 37.444 0.25768 28 13 3 0 0 0 0.13619 1 16909 16909 14.838 0 1 1074700 + 15503 13959 9853 9876 17868 17868 0.012722930294785328 LDERSPLQ 8 Unmodified _LDERSPLQ_ 0 0 0 REV__nc|ENSG00000184164|Q6UXH1-2|CRELD2 REV__nc|ENSG00000184164|Q6UXH1-2|CRELD2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 479.253631 956.49271 3.0719 0.0014722 0.24292 0.00011642 3.3148 0.0015886 479.2538243187544 36.837 0.24909 36.837 36.74 36.989 0 -0.17189 0.00022233 NaN 10.074 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 202830 + 15504 13959 9853 9876 0.012722930294785328 LDFLDILLL 9 Unmodified _LDFLDILLL_ 0 0 0 nc|ENSG00000187048|Q02928-2|CYP4A11;nc|ENSG00000162365|Q5TCH4-2|CYP4A22;ENSG00000187048|ENST00000310638|CYP4A11;ENSG00000162365|ENST00000371891|CYP4A22 nc|ENSG00000187048|Q02928-2|CYP4A11 nc|ENSG00000187048|Q02928-2|CYP4A11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 358.8873291015625 3 358.886359 1073.63725 2.3489 0.00084299 0.37879 0.00013594 2.7277 0.00097893 358.8865158571219 14.179 0.49348 14.406 14.286 14.78 0.22622 52 41 2 0 0 0 1.0601 1 6251 6251 2.9952 0 1 272790 15505 4130 9854 9877 17869 17869 0.10337541456783583 LDFLVPAKHLL 11 Unmodified _LDFLVPAKHLL_ 0 0 0 nc|ENSG00000165801|Q8TER5-4|ARHGEF40;nc|ENSG00000165801|Q8TER5-3|ARHGEF40;ENSG00000165801|ENST00000298694|ARHGEF40 nc|ENSG00000165801|Q8TER5-4|ARHGEF40 nc|ENSG00000165801|Q8TER5-4|ARHGEF40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 317.1968688964844 4 317.195862 1264.75434 2.2317 0.00070788 1.0011 0.00031755 3.2328 0.0010254 317.1960998730227 45.984 0.84563 46.81 46.218 47.064 0.82621 141 43 4 0 0 0 0.88721 1 21032 21032 2.6312 1.4164 1 9758700 15506 4422 9855 9878 17870 17870 0.13255699396381715 LDFLVPAKHLL 11 Unmodified _LDFLVPAKHLL_ 0 0 0 nc|ENSG00000165801|Q8TER5-4|ARHGEF40;nc|ENSG00000165801|Q8TER5-3|ARHGEF40;ENSG00000165801|ENST00000298694|ARHGEF40 nc|ENSG00000165801|Q8TER5-4|ARHGEF40 nc|ENSG00000165801|Q8TER5-4|ARHGEF40 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.7759094238281 3 422.592058 1264.75434 3.1553 0.0013334 1.0326 0.00043638 4.1879 0.0017698 422.59244106210963 48.545 0.86594 49.2 48.587 49.453 0.65524 48 32 2 0 0 0 0.13295 1 22223 22223 1.2148 0 1 925310 15507 4422 9855 9878 17871 17871 0.13255699396381715 LDFSDLKKL 9 Unmodified _LDFSDLKKL_ 0 0 0 REV__ENSG00000154080|ENST00000618847|CHST9 REV__ENSG00000154080|ENST00000618847|CHST9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 360.21112060546875 3 360.209613 1077.60701 NaN NaN NaN NaN NaN NaN NaN 28.344 1 28.344 27.844 28.844 0 0 0 0 0.87786 1 12778 12778 4.1895 0 1 + 15508 12693 9856 9879 17872 17872 0.07131182791590618 LDHCGWENVM 10 Unmodified _LDHCGWENVM_ 0 0 0 REV__nc|ENSG00000059145|Q9H9P5|UNKL REV__nc|ENSG00000059145|Q9H9P5|UNKL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.2512817382812 2 602.249708 1202.48486 2.9018 0.0017476 -2.6601 -0.001602 0.24177 0.0001456 602.2480653264774 76.236 0.2573 76.86 76.74 76.998 0.62397 26 17 2 0 0 0 0.74998 1 36980 36980 10.824 0.75 1 1781500 + 15509 10386 9857 9880 17873 17873 -0.10827925553962814 LDHKTPRAV 9 Unmodified _LDHKTPRAV_ 0 0 0 ENSG00000132623|ENST00000378392|ANKEF1 ENSG00000132623|ENST00000378392|ANKEF1 ENSG00000132623|ENST00000378392|ANKEF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.5267028808594 3 346.201452 1035.58253 2.5853 0.00089502 0.70261 0.00024324 3.2879 0.0011383 346.20167292631544 19.801 0.25546 20.459 20.329 20.584 0.65829 44 18 3 0 0 0 0.84542 1 8949 8949 6.6304 1.3335 1 576610 15510 2716 9858 9881 17874 17874 0.06615967428683689 LDHQQQCLE 9 Unmodified _LDHQQQCLE_ 0 0 0 ENSG00000133030|ENST00000651222|MPRIP ENSG00000133030|ENST00000651222|MPRIP ENSG00000133030|ENST00000651222|MPRIP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.3552856445312 2 557.253305 1112.49206 3.6559 0.0020373 0.46272 0.00025785 4.1186 0.0022951 557.2534432930286 19.225 0.12945 19.883 19.829 19.959 0.65829 10 8 2 0 0 0 0.10694 1 8711 8711 7.2892 0 1 136120 15511 2743 9859 9882 17875 17875 -0.05968869681873912 LDHVNRRR 8 Unmodified _LDHVNRRR_ 0 0 0 REV__ENST00000494883.1_1_9:134396759-134397813:+|nuORF REV__ENST00000494883.1_1_9:134396759-134397813:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1066.4400634765625 1 1065.60243 1064.59516 3.367 0.0035879 -0.26149 -0.00027864 3.1055 0.0033092 1066.6009461425415 32.326 0.047653 33.114 33.082 33.13 0.78795 4 2 2 0 0 0 0.7471 1 14622 14622 0.79363 0 1 395310 + 15512 11829 9860 9883 17876 17876 0.06544423611603634 LDICPRVKE 9 Unmodified _LDICPRVKE_ 0 0 0 REV__nc|ENSG00000157601|P20591-2|MX1 REV__nc|ENSG00000157601|P20591-2|MX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 358.2010192871094 3 358.198831 1071.57467 2.7516 0.0009856 3.4688 0.0012425 6.2203 0.0022281 358.1998793432836 12.863 0.20078 13.505 13.379 13.58 0.64272 9 5 3 0 0 0 0.29523 1 5792 5792 12.175 2.6308 1 282650 + 15513 12806 9861 9884 17877 17877 0.0417407211691625 LDICPRVKE 9 Unmodified _LDICPRVKE_ 0 0 0 REV__nc|ENSG00000157601|P20591-2|MX1 REV__nc|ENSG00000157601|P20591-2|MX1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 358.198831 1071.57467 2.0455 0.00073269 4.1629 0.0014911 6.2084 0.0022238 358.2002222306946 13.193 0.19493 13.501 13.359 13.554 0.30727 -0.0024073 0.00016857 NaN 12.175 16 11 2 NaN NaN NaN NaN 0 NaN NaN 0 209540 + 15514 12806 9861 9884 0.0417407211691625 LDIFCFLSDL 10 Unmodified _LDIFCFLSDL_ 0 0 0 REV__ENST00000526523.1_1_11:9197155-9199748:-|nuORF REV__ENST00000526523.1_1_11:9197155-9199748:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.8668212890625 3 395.866859 1184.57875 NaN NaN NaN NaN NaN NaN NaN 24.524 1 24.795 24.295 25.295 0.27129 0 0 0 0.94858 1 11110 11110 13.615 3.4643 1 + 15515 17093 9862 9885 17878 17878 -0.0061588318003487075 LDIIDTAVF 9 Unmodified _LDIIDTAVF_ 0 0 0 FAM20B|p.L308Sfs*2|1|0.08|ENSG00000116199|chr1:179064477-179064478|-/T|frameshift_variant;ENSG00000116199|ENST00000263733|FAM20B FAM20B|p.L308Sfs*2|1|0.08|ENSG00000116199|chr1:179064477-179064478|-/T|frameshift_variant FAM20B|p.L308Sfs*2|1|0.08|ENSG00000116199|chr1:179064477-179064478|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.1771545410156 3 336.186697 1005.53826 NaN NaN NaN NaN NaN NaN NaN 82.573 1 82.82 82.32 83.32 0.24722 0 0 0 0.89509 1 38009 38009 2.7352 0.64919 1 15516 2019 9863 9886 17879 17879 0.03571518491844472 LDIKPKREG 9 Unmodified _LDIKPKREG_ 0 0 0 REV__ENSG00000073910|ENST00000542859|FRY;REV__FRYL|p.E2601Dfs*12|1|0.03|ENSG00000075539|chr4:48515162-48515163|-/TACTTTCA|frameshift_variant REV__ENSG00000073910|ENST00000542859|FRY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 352.545654296875 3 352.545108 1054.61349 2.0393 0.00071895 0.29347 0.00010346 2.3328 0.00082241 352.5451802849254 13.121 0.27341 13.364 13.257 13.53 0.24346 64 21 4 0 0 0 0.10277 1 5685 5685 32.037 8.2477 1 3727500 + 15517 10509;10530 9864 9887 17880 17880 0.08837120742941806 LDIRNSEY 8 Unmodified _LDIRNSEY_ 0 0 0 nc|ENSG00000147724|Q49AJ0-2|FAM135B;ENST00000482951.6_1_8:139144838-139379577:-|nuORF;ENSG00000147724|ENST00000395297|FAM135B;nc|ENSG00000147724|Q49AJ0-3|FAM135B;nc|ENSG00000147724|Q49AJ0-4|FAM135B nc|ENSG00000147724|Q49AJ0-2|FAM135B nc|ENSG00000147724|Q49AJ0-2|FAM135B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.25323486328125 2 505.251089 1008.48762 3.2432 0.0016386 -0.0066919 -3.3811E-06 3.2365 0.0016352 505.2511841147928 26.473 0.26993 26.738 26.597 26.867 0.26489 33 20 2 0 0 0 0.49219 2 12011 12011;12058 21.747 0 1 320970 15518 3580 9865 9888 17881;17882 17881 -0.016280108331443444 LDITPASSL 9 Unmodified _LDITPASSL_ 0 0 0 ENSG00000204396|ENST00000375688|VWA7;nc|ENSG00000204396|Q9Y334-2|VWA7 ENSG00000204396|ENST00000375688|VWA7 ENSG00000204396|ENST00000375688|VWA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 306.17919921875 3 306.171047 915.491313 NaN NaN NaN NaN NaN NaN NaN 12.677 1 13.32 12.82 13.82 0.64272 0 0 0 0.90228 1 5691 5691 2.9952 0.26005 1 15519 6007 9866 9889 17883 17883 0.030186589407207975 LDIVCRRI 8 Unmodified _LDIVCRRI_ 0 0 0 ENST00000472059.5_1_17:19558694-19578882:+|nuORF;ENST00000476965.5_1_17:19559657-19578882:+|nuORF;ENSG00000072210|ENST00000176643|ALDH3A2;nc|ENSG00000072210|P51648-2|ALDH3A2 ENST00000472059.5_1_17:19558694-19578882:+|nuORF ENST00000472059.5_1_17:19558694-19578882:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.2941589355469 2 494.292037 986.56952 3.0822 0.0015235 2.789 0.0013786 5.8712 0.0029021 494.2951608424555 37.848 0.70714 38.482 37.97 38.677 0.63388 64 23 4 0 0 0 0.58952 1 17293 17293 13.508 0 1 1172100 15520 787 9867 9890 17884 17884 0.07569813044960938 LDKEKEYFDPA 11 Unmodified _LDKEKEYFDPA_ 0 0 0 ENSG00000140836|ENST00000268489|ZFHX3;nc|ENSG00000140836|Q15911-2|ZFHX3 ENSG00000140836|ENST00000268489|ZFHX3 ENSG00000140836|ENST00000268489|ZFHX3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 677.9353637695312 2 677.8299 1353.64525 NaN NaN NaN NaN NaN NaN NaN 79.232 1 79.232 78.732 79.732 0 0 0 0 1.0057 1 39119 39119 3.2813 0.28607 1 15521 3220 9868 9891 17885 17885 -0.017429760844379416 LDKKKMEEL 9 Oxidation (M) _LDKKKM(Oxidation (M))EEL_ LDKKKM(1)EEL LDKKKM(52)EEL 0 0 1 ENSG00000137842|ENST00000260403|TMEM62 ENSG00000137842|ENST00000260403|TMEM62 ENSG00000137842|ENST00000260403|TMEM62 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.3141479492188 2 575.312832 1148.61111 3.3719 0.0019399 -0.73645 -0.00042369 2.6354 0.0015162 575.312526154078 60.626 0.21157 60.881 60.848 61.059 0.25578 24 14 2 0 0 0 0.038142 1 27792 27792 52.268 6.5687 1 1011700 15522 3047 9869 9892 17886 17886 42 0.04274904222961595 LDKLVQRRKRV 11 Unmodified _LDKLVQRRKRV_ 0 0 0 REV__ENSG00000104408|ENST00000220849|EIF3E REV__ENSG00000104408|ENST00000220849|EIF3E MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.9700927734375 3 470.972043 1409.8943 NaN NaN NaN NaN NaN NaN NaN 82.852 1 83.099 82.599 83.599 0.24722 0 0 0 1.0079 1 38137 38137 0.45452 0.31463 1 + 15523 10992 9870 9893 17887 17887 0.2057487645342917 LDKMIRNPASL 11 Unmodified _LDKMIRNPASL_ 0 0 0 nc|ENSG00000154928|P54762-5|EPHB1;ENST00000487222.5_1_7:100401085-100421908:-|nuORF;ENSG00000154928|ENST00000398015|EPHB1;ENSG00000196411|ENST00000358173|EPHB4 nc|ENSG00000154928|P54762-5|EPHB1 nc|ENSG00000154928|P54762-5|EPHB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 629.353515625 2 629.352822 1256.69109 NaN NaN NaN NaN NaN NaN NaN 108.81 1 108.86 108.36 109.36 0.04248 0 0 0 1.0059 1 58732 58732 2.9952 1.151 1 15524 3845 9871 9894 17888 17888 0.07301390616839853 LDKQLKNRN 9 Unmodified _LDKQLKNRN_ 0 0 0 ENST00000541008.5_1_14:22869535-22901673:-|nuORF;ENST00000535351.1_1_14:22869535-22887717:-|nuORF ENST00000541008.5_1_14:22869535-22901673:-|nuORF ENST00000541008.5_1_14:22869535-22901673:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.8301391601562 2 564.827829 1127.64111 3.5934 0.0020297 0.71486 0.00040377 4.3083 0.0024334 564.8282490767342 16.924 0.94013 17.585 16.906 17.846 0.66072 128 87 2 0 0 0 0.75535 2 7591 7591;7640 4.3292 0 1 235650 15525 8763 9872 9895 17889;17890 17889 0.08239024003182749 LDKTTVRKL 9 Unmodified _LDKTTVRKL_ 0 0 0 ENST00000488705.1_1_9:20346443-20382387:-|nuORF;nc|ENSG00000171843|P42568-2|MLLT3;ENSG00000171843|ENST00000380338|MLLT3 ENST00000488705.1_1_9:20346443-20382387:-|nuORF ENST00000488705.1_1_9:20346443-20382387:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 358.5616149902344 3 358.560758 1072.66044 2.1181 0.00075948 0.46392 0.00016634 2.5821 0.00092582 358.5609517092941 13.371 0.22448 13.679 13.582 13.806 0.30727 26 16 2 0 0 0 1.0601 1 6074 6074 2.9952 0 1 144430 15526 4838 9873 9896 17891 17891 0.12701980294104942 LDKVKLRML 9 Unmodified _LDKVKLRML_ 0 0 0 REV__ENST00000553407.5_1_12:121840574-121855729:+|nuORF REV__ENST00000553407.5_1_12:121840574-121855729:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.3548583984375 2 558.352094 1114.68964 NaN NaN NaN NaN NaN NaN NaN 39.284 1 40.082 39.582 40.582 0.79762 0 0 0 0.89683 1 17786 17786 4.3292 0 1 + 15527 13444 9874 9897 17892 17892 0.13687801318747006 LDLFPEDVLE 10 Unmodified _LDLFPEDVLE_ 0 0 0 REV__nc|ENSG00000132849|Q8NI35-5|PATJ REV__nc|ENSG00000132849|Q8NI35-5|PATJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.2056884765625 3 397.204417 1188.59142 3.3073 0.0013137 0.3343 0.00013278 3.6416 0.0014465 397.20462448251675 30.289 0.33671 30.547 30.39 30.726 0.25804 47 18 3 0 0 0 0.68517 1 13843 13843 8.4443 0 1 2987100 + 15528 11914 9875 9898 17893 17893 0.004668514838385818 LDLGIKTSL 9 Unmodified _LDLGIKTSL_ 0 0 0 ENST00000425030.1_1_2:201987361-201987433:+|nuORF ENST00000425030.1_1_2:201987361-201987433:+|nuORF ENST00000425030.1_1_2:201987361-201987433:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.2935485839844 2 480.292225 958.569897 2.8826 0.0013845 0.21082 0.00010125 3.0934 0.0014857 480.29236346758853 76.734 0.34047 76.989 76.842 77.183 0.25533 52 24 3 0 0 0 0.11316 1 35325 35325 38.176 0 1 1548800 15529 7790 9876 9899 17894 17894 0.08895511245816579 LDLGIKTSL 9 Unmodified _LDLGIKTSL_ 0 0 0 ENST00000425030.1_1_2:201987361-201987433:+|nuORF ENST00000425030.1_1_2:201987361-201987433:+|nuORF ENST00000425030.1_1_2:201987361-201987433:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.2296142578125 2 480.292225 958.569897 2.791 0.0013405 0.29534 0.00014185 3.0863 0.0014823 480.2923842795275 76.324 0.30269 76.988 76.827 77.13 0.66387 47 19 3 0 0 0 0.27615 1 35151 35151 19.257 0 1 1290600 15530 7790 9876 9899 17895 17895 0.08895511245816579 LDLKNHSL 8 Unmodified _LDLKNHSL_ 0 0 0 REV__nc|ENSG00000239732|Q9NR96-2|TLR9 REV__nc|ENSG00000239732|Q9NR96-2|TLR9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.2680969238281 2 470.266542 938.51853 2.6653 0.0012534 0.78311 0.00036827 3.4484 0.0016217 470.26691375705263 16.731 0.8725 17.035 16.587 17.459 0.30438 129 82 3 0 0 0 0.31901 4 7665 7474;7527;7574;7665 34.102 0 1 216880 + 15531 14602 9877 9900 17896;17897;17898;17899 17899 0.0468118727176261 LDLKNHSL 8 Unmodified _LDLKNHSL_ 0 0 0 REV__nc|ENSG00000239732|Q9NR96-2|TLR9 REV__nc|ENSG00000239732|Q9NR96-2|TLR9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.2685546875 2 470.266542 938.51853 2.9621 0.001393 0.73654 0.00034637 3.6987 0.0017394 470.2669122676977 16.783 0.90907 17.444 16.914 17.824 0.66072 182 84 3 0 0 0 0.13532 2 7677 7454;7677 49.933 0 1 451120 + 15532 14602 9877 9900 17900;17901 17901 0.0468118727176261 LDLKPRRRKRR 11 Unmodified _LDLKPRRRKRR_ 0 0 0 ENST00000286827.7_1_21:32711646-32711721:-|nuORF ENST00000286827.7_1_21:32711646-32711721:-|nuORF ENST00000286827.7_1_21:32711646-32711721:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 747.6025390625 2 747.484217 1492.95388 NaN NaN NaN NaN NaN NaN NaN 98.948 1 99.014 98.514 99.514 0.066025 0 0 0 1.008 1 53350 53350 0.35063 0 1 15533 6724 9878 9901 17902 17902 0.22712192187464098 LDLKRDGISL 10 Unmodified _LDLKRDGISL_ 0 0 0 REV__ENST00000567273.1_1_X:37765420-37765600:+|nuORF REV__ENST00000567273.1_1_X:37765420-37765600:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.22540283203125 3 377.224034 1128.65027 NaN NaN NaN NaN NaN NaN NaN 23.133 1 23.773 23.273 24.273 0.64051 0 0 0 0.42113 1 10552 10552 28.181 0 1 + 15534 17430 9879 9902 17903 17903 0.09109372568855179 LDLLEKRP 8 Unmodified _LDLLEKRP_ 0 0 0 ENST00000239893.9_1_13:37578680-37580262:+|nuORF ENST00000239893.9_1_13:37578680-37580262:+|nuORF ENST00000239893.9_1_13:37578680-37580262:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.2989807128906 2 492.297842 982.581131 NaN NaN NaN NaN NaN NaN NaN 40.054 1 40.321 39.821 40.821 0.26696 0 0 0 0.48299 1 18223 18223 29.082 2.1979 1 15535 6466 9880 9903 17904 17904 0.08914333339942004 LDLLILNK 8 Unmodified _LDLLILNK_ 0 0 0 REV__ENSG00000178235|ENST00000674365|SLITRK1 REV__ENSG00000178235|ENST00000674365|SLITRK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.3065185546875 2 471.305136 940.595718 NaN NaN NaN NaN NaN NaN NaN 80.72 1 81.379 80.879 81.879 0.65998 0 0 0 0.99035 1 37194 37194 5.2307 0 1 + 15536 13757 9881 9904 17905 17905 0.12304405488100656 LDLLKKLRE 9 Unmodified _LDLLKKLRE_ 0 0 0 REV__ENSG00000119778|ENST00000238789|ATAD2B REV__ENSG00000119778|ENST00000238789|ATAD2B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.55499267578125 3 376.576408 1126.70739 2.2039 0.00082995 -0.29947 -0.00011277 1.9045 0.00071718 376.57624926773593 13.125 0.21723 13.432 13.301 13.518 0.30727 14 11 2 0 0 0 0.11393 1 5930 5930 1.0715 0 1 128260 + 15537 11516 9882 9905 17906 17906 0.14910839845242663 LDLLKKLRE 9 Unmodified _LDLLKKLRE_ 0 0 0 REV__ENSG00000119778|ENST00000238789|ATAD2B REV__ENSG00000119778|ENST00000238789|ATAD2B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 376.576408 1126.70739 2.9372 0.0011061 -0.15905 -5.9894E-05 2.7781 0.0010462 376.5762635730183 12.82 0.13501 13.463 13.379 13.514 0.64272 0.016599 -6.9448E-05 NaN 1.0715 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 254110 + 15538 11516 9882 9905 0.14910839845242663 LDLLLRRPRD 10 Unmodified _LDLLLRRPRD_ 0 0 0 REV__ENSG00000140067|ENST00000556222|FAM181A REV__ENSG00000140067|ENST00000556222|FAM181A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.59368896484375 3 422.926211 1265.7568 NaN NaN NaN NaN NaN NaN NaN 70.15 1 70.81 70.31 71.31 0.66071 0 0 0 0.99877 1 32164 32164 1.3296 0 1 + 15539 12230 9883 9906 17907 17907 0.13455547854027827 LDLLTELLAAQ 11 Unmodified _LDLLTELLAAQ_ 0 0 0 REV__ENSG00000112877|ENST00000264935|CEP72 REV__ENSG00000112877|ENST00000264935|CEP72 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 400.5555114746094 3 400.567578 1198.6809 2.8231 0.0011309 -1.0415 -0.00041719 1.7817 0.00071367 400.56725682790784 26.721 0.34048 27.343 27.149 27.489 0.62179 47 24 3 0 0 0 0.2701 1 12296 12296 25.997 1.0064 1 858040 + 15540 11282 9884 9907 17908 17908 0.08951106163226541 LDLNKLEPSV 10 Unmodified _LDLNKLEPSV_ 0 0 0 REV__ENSG00000110324|ENST00000227752|IL10RA REV__ENSG00000110324|ENST00000227752|IL10RA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.5490417480469 3 376.548406 1126.62339 NaN NaN NaN NaN NaN NaN NaN 25.677 1 25.945 25.445 26.445 0.26777 0 0 0 0.9754 1 11656 11656 5.4027 0 1 + 15541 11200 9885 9908 17909 17909 0.06514263957637922 LDLRLTDKIRR 11 Unmodified _LDLRLTDKIRR_ 0 0 0 ENST00000470239.1_1_6:155579012-155635574:-|nuORF ENST00000470239.1_1_6:155579012-155635574:-|nuORF ENST00000470239.1_1_6:155579012-155635574:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 699.9298706054688 2 699.930617 1397.84668 NaN NaN NaN NaN NaN NaN NaN 105.05 1 105.05 104.55 105.55 0 0 0 0 1.0072 1 57753 57753 1.3295 0 1 15542 8171 9886 9909 17910 17910 0.16367177462552718 LDLSFIKII 9 Unmodified _LDLSFIKII_ 0 0 0 REV__ENST00000532378.5_1_11:14901840-14912470:-|nuORF REV__ENST00000532378.5_1_11:14901840-14912470:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.2966918945312 2 531.333893 1060.65323 NaN NaN NaN NaN NaN NaN NaN 92.042 1 92.125 91.625 92.625 0.082848 0 0 0 0.90611 1 47859 47859 2.0598 0 1 + 15543 17151 9887 9910 17911 17911 0.12533247693659177 LDMHWIRWYLW 11 Unmodified _LDMHWIRWYLW_ 0 0 0 REV__ENST00000467733.1_1_3:156262080-156272878:-|nuORF REV__ENST00000467733.1_1_3:156262080-156272878:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 809.902099609375 2 809.903014 1617.79147 NaN NaN NaN NaN NaN NaN NaN 76.682 1 76.682 76.182 77.182 0 0 0 0 1.008 1 37586 37586 0.35063 0 1 + 15544 11334 9888 9911 17912 17912 0.007290476704838511 LDMMLIGG 8 Unmodified _LDMMLIGG_ 0 0 0 REV__nc|ENSG00000105854|Q15165-3|PON2 REV__nc|ENSG00000105854|Q15165-3|PON2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 425.21600341796875 2 425.214075 848.413596 NaN NaN NaN NaN NaN NaN NaN 15.396 1 16.049 15.549 16.549 0.65356 0 0 0 0.99035 1 6933 6933 2.8892 0 1 + 15545 11059 9889 9912 17913 17913 -0.01667393520654059 LDMTTKIKV 9 Unmodified _LDMTTKIKV_ 0 0 0 REV__ENSG00000146950|ENST00000380913|SHROOM2 REV__ENSG00000146950|ENST00000380913|SHROOM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.20733642578125 3 350.207216 1047.59982 NaN NaN NaN NaN NaN NaN NaN 56.868 1 57.646 57.146 58.146 0.77786 0 0 0 0.90335 1 26012 26012 2.7352 0.89096 1 + 15546 12489 9890 9913 17914 17914 0.07792126919503062 LDNRERLVF 9 Unmodified _LDNRERLVF_ 0 0 0 REV__ENSG00000129636|ENST00000320640|ITFG1 REV__ENSG00000129636|ENST00000320640|ITFG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.32373046875 2 581.32238 1160.63021 NaN NaN NaN NaN NaN NaN NaN 19.433 1 19.73 19.23 20.23 0.29753 0 0 0 0.88916 1 8838 8838 6.2058 0.9089 1 + 15547 11791 9891 9914 17915 17915 0.05631621628890571 LDPFLLLI 8 Unmodified _LDPFLLLI_ 0 0 0 nc|ENSG00000021461|Q9HB55-4|CYP3A43;nc|ENSG00000021461|Q9HB55-3|CYP3A43;ENSG00000021461|ENST00000354829|CYP3A43;nc|ENSG00000021461|Q9HB55-2|CYP3A43 nc|ENSG00000021461|Q9HB55-4|CYP3A43 nc|ENSG00000021461|Q9HB55-4|CYP3A43 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.2970886230469 2 472.296779 942.579005 NaN NaN NaN NaN NaN NaN NaN 30.978 1 31.595 31.095 32.095 0.61737 0 0 0 0.99035 1 14212 14212 5.7604 0 1 15548 457 9892 9915 17916 17916 0.10541904602155228 LDPFSSFS 8 Unmodified _LDPFSSFS_ 0 0 0 ENST00000487284.2_1_7:101917466-101926379:+|nuORF;nc|ENSG00000257923|P39880-9|CUX1;ENST00000558836.5_1_7:101575863-101926379:+|nuORF;nc|ENSG00000257923|Q13948-9|CUX1;nc|ENSG00000257923|Q13948-10|CUX1;nc|ENSG00000257923|Q13948-2|CUX1;nc|ENSG00000257923|Q13948|CUX1;ENST00000560541.5_1_7:101556607-101926379:+|nuORF ENST00000487284.2_1_7:101917466-101926379:+|nuORF ENST00000487284.2_1_7:101917466-101926379:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.213623046875 2 450.210901 898.407249 NaN NaN NaN NaN NaN NaN NaN 73.97 1 73.97 73.47 74.47 0 0 0 0 0.79116 1 36098 36098 19.439 5.9311 1 15549 8350 9893 9916 17917 17917 -0.046018721561722487 LDPHYSTCILS 11 Unmodified _LDPHYSTCILS_ 0 0 0 REV__ENSG00000116183|ENST00000367662|PAPPA2 REV__ENSG00000116183|ENST00000367662|PAPPA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 624.8014526367188 2 624.800088 1247.58562 3.1743 0.0019833 -0.29788 -0.00018611 2.8765 0.0017972 624.7997960320747 53.863 0.3571 54.658 54.477 54.834 0.79552 25 16 2 0 0 0 0.58424 1 24558 24558 16.149 1.3108 1 441800 + 15550 11398 9894 9917 17918 17918 -0.02826570299453124 LDPKILSGS 9 Unmodified _LDPKILSGS_ 0 0 0 REV__ENST00000455934.6_1_2:207008836-207009655:-|nuORF REV__ENST00000455934.6_1_2:207008836-207009655:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.2718811035156 2 465.26875 928.522947 NaN NaN NaN NaN NaN NaN NaN 99.591 1 99.9 99.4 100.4 0.30835 0 0 0 0.89683 1 46030 46030 4.3292 0 1 + 15551 16450 9895 9918 17919 17919 0.055826516946808624 LDPKLLGL 8 Unmodified _LDPKLLGL_ 0 0 0 REV__ENSG00000129696|ENST00000431156|TTI2 REV__ENSG00000129696|ENST00000431156|TTI2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 868.5556640625 1 868.550231 867.542954 3.9261 0.00341 2.9645 0.0025748 6.8906 0.0059849 868.5523210845797 28.95 0.052002 29.21 29.164 29.216 0.2602 7 4 2 0 0 0 0.7441 1 13168 13168 2.3027 0 1 1320800 + 15552 11794 9896 9919 17920 17920 0.10388447425293634 LDPKLLGL 8 Unmodified _LDPKLLGL_ 0 0 0 REV__ENSG00000129696|ENST00000431156|TTI2 REV__ENSG00000129696|ENST00000431156|TTI2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 868.550231 867.542954 4.0434 0.0035119 2.7902 0.0024234 6.8335 0.0059352 868.5523857038252 29.326 0.045156 29.326 29.291 29.336 0 0.065271 -0.00028293 NaN 2.3027 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 264790 + 15553 11794 9896 9919 0.10388447425293634 LDPKLLGL 8 Unmodified _LDPKLLGL_ 0 0 0 REV__ENSG00000129696|ENST00000431156|TTI2 REV__ENSG00000129696|ENST00000431156|TTI2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 868.550231 867.542954 3.9261 0.00341 2.9645 0.0025748 6.8906 0.0059849 868.5523210845797 28.95 0.052002 29.21 29.164 29.216 0.2602 -0.050354 -0.00013148 NaN 2.3027 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1320800 + 15554 11794 9896 9919 0.10388447425293634 LDPKLLGL 8 Unmodified _LDPKLLGL_ 0 0 0 REV__ENSG00000129696|ENST00000431156|TTI2 REV__ENSG00000129696|ENST00000431156|TTI2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 868.550231 867.542954 3.9073 0.0033937 3.3282 0.0028907 7.2355 0.0062844 868.5531073981597 28.626 0.19536 29.246 29.142 29.337 0.61947 -0.014917 0.00018438 NaN 2.3027 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 724470 + 15555 11794 9896 9919 0.10388447425293634 LDPLNDLM 8 Unmodified _LDPLNDLM_ 0 0 0 REV__nc|ENSG00000103932|Q9BWH6-2|RPAP1 REV__nc|ENSG00000103932|Q9BWH6-2|RPAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 930.4639892578125 1 930.460095 929.452819 3.1957 0.0029735 -0.22885 -0.00021293 2.9669 0.0027606 930.4600641159303 80.936 0.59396 80.936 80.698 81.292 0 104 46 4 0 0 0 0.062889 1 40311 40311 61.357 2.6787 1 28041000 + 15556 10979 9897 9920 17921 17921 -0.01472969965448101 LDPLNDLM 8 Unmodified _LDPLNDLM_ 0 0 0 REV__nc|ENSG00000103932|Q9BWH6-2|RPAP1 REV__nc|ENSG00000103932|Q9BWH6-2|RPAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 930.4635009765625 1 930.460095 929.452819 3.5727 0.0033242 -0.20614 -0.0001918 3.3665 0.0031324 930.4601205543809 80.638 0.8857 80.887 80.613 81.499 0.24947 162 54 4 0 0 0 0.062889 1 37129 37129 61.357 2.6787 1 15152000 + 15557 10979 9897 9920 17922 17922 -0.01472969965448101 LDQKKQVRF 9 Unmodified _LDQKKQVRF_ 0 0 0 REV__ENST00000430559.5_1_13:108922691-108955654:+|nuORF REV__ENST00000430559.5_1_13:108922691-108955654:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.89654541015625 3 387.89614 1160.66659 2.2141 0.00085883 0.85553 0.00033186 3.0696 0.0011907 387.8960467675215 12.79 0.12928 13.097 12.996 13.125 0.30727 8 3 3 0 0 0 0.67336 1 5782 5782 9.544 0 1 408110 + 15558 16257 9898 9921 17923 17923 0.09268498525625546 LDQKKQVRF 9 Unmodified _LDQKKQVRF_ 0 0 0 REV__ENST00000430559.5_1_13:108922691-108955654:+|nuORF REV__ENST00000430559.5_1_13:108922691-108955654:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 387.89614 1160.66659 2.7764 0.001077 -0.099731 -3.8685E-05 2.6767 0.0010383 387.8959885350164 13.227 0.16394 13.227 13.103 13.267 0 0.064994 -0.00022197 NaN 9.544 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 213700 + 15559 16257 9898 9921 0.09268498525625546 LDQKKQVRF 9 Unmodified _LDQKKQVRF_ 0 0 0 REV__ENST00000430559.5_1_13:108922691-108955654:+|nuORF REV__ENST00000430559.5_1_13:108922691-108955654:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 387.89614 1160.66659 2.2141 0.00085883 0.85553 0.00033186 3.0696 0.0011907 387.8960467675215 12.79 0.12928 13.097 12.996 13.125 0.30727 -0.064994 0.00088966 NaN 9.544 8 3 3 NaN NaN NaN NaN 0 NaN NaN 0 408110 + 15560 16257 9898 9921 0.09268498525625546 LDQLQPAAPAL 11 Unmodified _LDQLQPAAPAL_ 0 0 0 REV__ENSG00000170145|ENST00000304987|SIK2 REV__ENSG00000170145|ENST00000304987|SIK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.5485534667969 3 379.548518 1135.62372 NaN NaN NaN NaN NaN NaN NaN 16.423 1 16.727 16.227 17.227 0.30438 0 0 0 1.0073 1 7433 7433 1.2148 0.021489 1 + 15561 13424 9899 9922 17924 17924 0.061336836774898984 LDQLQPTY 8 Unmodified _LDQLQPTY_ 0 0 0 REV__ENSG00000016402|ENST00000316649|IL20RA REV__ENSG00000016402|ENST00000316649|IL20RA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.7889099121094 2 489.250557 976.486562 NaN NaN NaN NaN NaN NaN NaN 45.294 1 45.945 45.445 46.445 0.65104 0 0 0 0.99035 1 20756 20756 4.756 0.81161 1 + 15562 10257 9900 9923 17925 17925 -0.0026222520206147237 LDQPKDLL 8 Unmodified _LDQPKDLL_ 0 0 0 REV__ENSG00000183742|ENST00000400331|MACC1 REV__ENSG00000183742|ENST00000400331|MACC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.27032470703125 2 471.26875 940.522947 2.9937 0.0014108 0.39989 0.00018845 3.3936 0.0015993 471.2690386972227 55.821 0.23132 56.489 56.426 56.657 0.66798 13 8 2 0 0 0 0.21358 1 25576 25576 41.84 0 1 372990 + 15563 13944 9901 9924 17926 17926 0.0503065169467618 LDRARLRLR 9 Unmodified _LDRARLRLR_ 0 0 0 ENST00000439120.1_1_7:26438220-26438307:+|nuORF ENST00000439120.1_1_7:26438220-26438307:+|nuORF ENST00000439120.1_1_7:26438220-26438307:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.0547485351562 2 584.872905 1167.73126 NaN NaN NaN NaN NaN NaN NaN 80.29 1 80.61 80.11 81.11 0.31998 0 0 0 0.90611 1 39310 39310 2.0598 0 1 15564 7924 9902 9925 17927 17927 0.1541011812225861 LDRCKVTSY 9 Unmodified _LDRCKVTSY_ 0 0 0 REV__ENST00000549824.1_1_12:53143198-53143681:+|nuORF REV__ENST00000549824.1_1_12:53143198-53143681:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.7781982421875 2 542.776416 1083.53828 NaN NaN NaN NaN NaN NaN NaN 28.475 1 29.095 28.595 29.595 0.61947 0 0 0 0.89683 1 13057 13057 4.3292 0.73274 1 + 15565 17275 9903 9926 17928 17928 -0.00014804779766564025 LDRERERLI 9 Unmodified _LDRERERLI_ 0 0 0 nc|ENSG00000123200|Q5T200-2|ZC3H13;nc|ENSG00000123200|Q5T200|ZC3H13;ENSG00000123200|ENST00000679008|ZC3H13 nc|ENSG00000123200|Q5T200-2|ZC3H13 nc|ENSG00000123200|Q5T200-2|ZC3H13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 400.5683898925781 3 400.566683 1198.67822 2.8232 0.0011309 1.1931 0.00047793 4.0163 0.0016088 400.56725682790784 26.721 0.34048 27.343 27.149 27.489 0.62179 47 24 3 0 0 0 0.26118 1 12231 12231 19.362 0 1 858040 15566 2299 9904 9927 17929 17929 0.08682695548964148 LDRIRKLFRKE 11 Unmodified _LDRIRKLFRKE_ 0 0 0 REV__ENSG00000162434|ENST00000342505|JAK1 REV__ENSG00000162434|ENST00000342505|JAK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 737.4545288085938 2 737.454259 1472.89397 NaN NaN NaN NaN NaN NaN NaN 79.07 1 79.731 79.231 80.231 0.66082 0 0 0 1.008 1 36435 36435 0.35063 0.35063 1 + 15567 12936 9905 9928 17930 17930 0.17643456733571838 LDRIRQKWIKW 11 Unmodified _LDRIRQKWIKW_ 0 0 0 REV__ENST00000438300.1_1_2:133070568-133076306:+|nuORF REV__ENST00000438300.1_1_2:133070568-133076306:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 771.4594116210938 2 771.456802 1540.89905 NaN NaN NaN NaN NaN NaN NaN 69.035 1 69.737 69.237 70.237 0.70218 0 0 0 1.008 1 32974 32974 0.35063 0.043601 1 + 15568 16325 9906 9929 17931 17931 0.15023760596227476 LDRKKNLP 8 Unmodified _LDRKKNLP_ 0 0 0 REV__ENST00000425217.5_2_12:117904834-117909018:-|nuORF REV__ENST00000425217.5_2_12:117904834-117909018:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.30474853515625 2 492.303458 982.592364 NaN NaN NaN NaN NaN NaN NaN 14.345 1 14.652 14.152 15.152 0.3069 0 0 0 0.72306 1 6492 6492 21.747 2.4897 1 + 15569 16208 9907 9930 17932 17932 0.10037155434076794 LDRLEKKKKKK 11 Unmodified _LDRLEKKKKKK_ 0 0 0 ENSG00000138433|ENST00000342016|CIR1 ENSG00000138433|ENST00000342016|CIR1 ENSG00000138433|ENST00000342016|CIR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 471.97845458984375 3 471.980316 1412.91912 NaN NaN NaN NaN NaN NaN NaN 78.465 1 78.465 77.965 78.965 0 0 0 0 1.0079 1 38569 38569 0.45452 0.37117 1 15570 3090 9908 9931 17933 17933 0.2291751153613859 LDRLGRRGL 9 Unmodified _LDRLGRRGL_ 0 0 0 REV__ENST00000407558.8_1_16:3536345-3536525:+|nuORF REV__ENST00000407558.8_1_16:3536345-3536525:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.55352783203125 3 352.552597 1054.63596 2.5516 0.00089956 0.357 0.00012586 2.9086 0.0010254 352.5527352887701 15.317 1.1789 15.317 14.929 16.108 0 410 142 4 0 0 0 0.10277 2 6712 6712;6968 32.037 4.4087 1 1982500 + 15571 16078 9909 9932 17934;17935 17934 0.11082764931256861 LDRLMKWLF 9 Unmodified _LDRLMKWLF_ 0 0 0 ENST00000526149.1_1_16:66586582-66592272:+|nuORF;nc|ENSG00000254788|Q9UBR5-5|CKLF;nc|ENSG00000254788|Q9UBR5-4|CKLF;ENSG00000217555|ENST00000264001|CKLF ENST00000526149.1_1_16:66586582-66592272:+|nuORF ENST00000526149.1_1_16:66586582-66592272:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1222.686767578125 1 1221.68126 1220.67399 3.3253 0.0040625 0.82111 0.0010031 4.1464 0.0050656 1222.6859355201082 22.668 0.044907 23.308 23.289 23.334 0.64051 6 4 2 0 0 0 1.2078 1 10331 10331 0.6015 0 1 1915100 15572 6141 9910 9933 17936 17936 0.07247514801679245 LDRQVRRL 8 Unmodified _LDRQVRRL_ 0 0 0 REV__ENSG00000179270|ENST00000331664|PCARE REV__ENSG00000179270|ENST00000331664|PCARE MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 352.55340576171875 3 352.552597 1054.63596 2.3668 0.00083443 0.23132 8.1554E-05 2.5981 0.00091598 352.5527049981153 14.688 0.36945 14.914 14.759 15.128 0.22622 69 26 4 0 0 0 0.52777 1 6413 6413 19.257 1.1106 1 7303700 + 15573 13792 9911 9934 17937 17937 0.11082764931234124 LDRRATGL 8 Unmodified _LDRRATGL_ 0 0 0 REV__ENST00000601609.1_1_1:203014552-203015555:+|nuORF REV__ENST00000601609.1_1_1:203014552-203015555:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.2662048339844 2 451.264333 900.514114 2.9272 0.001321 0.15839 7.1474E-05 3.0856 0.0013924 451.26439340226426 21.859 0.28257 21.859 21.72 22.002 0 59 23 3 0 0 0 0.57648 1 9757 9757 15.847 0 1 761910 + 15574 12380 9912 9935 17938 17938 0.05987722848840349 LDRRATGL 8 Unmodified _LDRRATGL_ 0 0 0 REV__ENST00000601609.1_1_1:203014552-203015555:+|nuORF REV__ENST00000601609.1_1_1:203014552-203015555:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.26568603515625 2 451.264333 900.514114 3.1686 0.0014299 0.12929 5.8342E-05 3.2979 0.0014882 451.2643558791844 20.913 0.2609 21.566 21.377 21.638 0.65346 46 17 3 0 0 0 0.51067 1 9446 9446 20.454 0 1 1403600 + 15575 12380 9912 9935 17939 17939 0.05987722848840349 LDRRELLYHPV 11 Unmodified _LDRRELLYHPV_ 0 0 0 REV__nc|ENSG00000124074|Q9H0I2-2|ENKD1 REV__nc|ENSG00000124074|Q9H0I2-2|ENKD1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 705.8110961914062 2 705.896243 1409.77793 2.5163 0.0017763 -0.68283 -0.00048201 1.8335 0.0012943 706.3951348584611 96.408 0.019211 96.485 96.472 96.491 0.076538 4 2 2 0 0 0 0.13295 1 51225 51225 1.4819 0 1 9098600 + 15576 11630 9913 9936 17940 17940 0.08943513162898853 LDRRRLRVWRR 11 Unmodified _LDRRRLRVWRR_ 0 0 0 REV__nc|ENSG00000135636|O75923-15|DYSF REV__nc|ENSG00000135636|O75923-15|DYSF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.2996826171875 3 527.993953 1580.96003 NaN NaN NaN NaN NaN NaN NaN 93.494 1 93.58 93.08 94.08 0.086212 0 0 0 1.0082 1 48988 48988 0.073264 0 1 + 15577 12030 9914 9937 17941 17941 0.1927871041900744 LDRVKKSI 8 Unmodified _LDRVKKSI_ 0 0 0 REV__ENSG00000144452|ENST00000272895|ABCA12 REV__ENSG00000144452|ENST00000272895|ABCA12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 320.2070617675781 3 320.206315 957.597115 2.1338 0.00068327 0.38194 0.0001223 2.5158 0.00080557 320.20640286284737 18.366 0.32413 18.668 18.501 18.825 0.30158 56 31 2 0 0 0 0.62895 2 8288 8288;8389 11.64 0 1 614690 + 15578 12404 9915 9938 17942;17943 17942 0.11662039576845018 LDRYTYFFFYR 11 Unmodified _LDRYTYFFFYR_ 0 0 0 Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|172|2|anti-sense Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|172|2|anti-sense Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|172|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.9330444335938 3 530.92951 1589.7667 NaN NaN NaN NaN NaN NaN NaN 29.179 1 29.179 28.679 29.679 0 0 0 0 1.008 1 13167 13167 0.094841 0.011491 1 15579 9385 9916 9939 17944 17944 -0.004593089312720622 LDSIAQLLKEN 11 Unmodified _LDSIAQLLKEN_ 0 0 0 Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|66|2|sense Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|66|2|sense Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|66|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 622.349365234375 2 622.34826 1242.68197 3.8647 0.0024052 -1.9143 -0.0011914 1.9504 0.0012138 622.3468403802856 89.638 0.32174 90.317 90.055 90.377 0.67818 24 16 2 0 0 0 0.89844 1 41238 41238 2.4985 0.65425 1 543650 15580 9379 9917 9940 17945 17945 0.07033320532173093 LDSIAQLLKEN 11 Unmodified _LDSIAQLLKEN_ 0 0 0 Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|66|2|sense Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|66|2|sense Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|66|2|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 622.34826 1242.68197 4.0233 0.0025039 -3.4438 -0.0021433 0.5795 0.00036065 622.3456091293139 89.877 0.092361 90.128 90.073 90.166 0.25137 -0.09408 -0.0011875 NaN 2.4985 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 206050 15581 9379 9917 9940 0.07033320532173093 LDSLGWKLF 9 Unmodified _LDSLGWKLF_ 0 0 0 ENST00000582395.5_1_17:80403674-80408606:-|nuORF ENST00000582395.5_1_17:80403674-80408606:-|nuORF ENST00000582395.5_1_17:80403674-80408606:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.203125 3 360.20257 1077.58588 2.586 0.00093148 -0.3919 -0.00014116 2.1941 0.00079032 360.2023092247784 66.404 0.32428 67.061 66.909 67.233 0.65672 26 16 2 0 0 0 1.1154 1 30497 30497 1.0715 1.0715 1 728400 15582 9156 9918 9941 17946 17946 0.05019217482708882 LDSSLTREKI 10 Unmodified _LDSSLTREKI_ 0 0 0 PRR12|p.N831Mfs*8|1|0.28|ENSG00000126464|chr19:49614937-49614937|A/-|frameshift_variant;nc|ENSG00000126464|Q9ULL5-2|PRR12;ENSG00000126464|ENST00000418929|PRR12 PRR12|p.N831Mfs*8|1|0.28|ENSG00000126464|chr19:49614937-49614937|A/-|frameshift_variant PRR12|p.N831Mfs*8|1|0.28|ENSG00000126464|chr19:49614937-49614937|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.3265991210938 2 581.327328 1160.6401 3.7261 0.0021661 -4.1946 -0.0024384 -0.4685 -0.00027235 581.8267872008379 19.04 0.20499 19.699 19.574 19.779 0.6583 26 17 2 0 0 0 0.72019 1 8609 8609 12.241 0.60036 1 916410 15583 2455 9919 9942 17947 17947 0.06620764843614779 LDTPNGVPGSH 11 Unmodified _LDTPNGVPGSH_ 0 0 0 REV__nc|ENSG00000181350|Q8NAA5-2|LRRC75A REV__nc|ENSG00000181350|Q8NAA5-2|LRRC75A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.26953125 2 547.26727 1092.51999 2.9561 0.0016178 0.66542 0.00036416 3.6215 0.0019819 547.2675511535296 13.423 0.24146 13.666 13.53 13.772 0.24346 50 23 3 0 0 0 0.5535 1 5884 5884 17.113 17.113 1 1078300 + 15584 18063 9920 9943 17948 17948 -0.022572234301151184 LDTPNGVPGSH 11 Unmodified _LDTPNGVPGSH_ 0 0 0 REV__nc|ENSG00000181350|Q8NAA5-2|LRRC75A REV__nc|ENSG00000181350|Q8NAA5-2|LRRC75A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.2697143554688 2 547.26727 1092.51999 3.7499 0.0020522 0.67739 0.00037071 4.4273 0.0024229 547.2675037093912 12.952 0.19316 13.595 13.48 13.673 0.64272 8 5 2 0 0 0 0.83518 1 5824 5824 5.2969 1.3525 1 204690 + 15585 18063 9920 9943 17949 17949 -0.022572234301151184 LDTRKISKL 9 Unmodified _LDTRKISKL_ 0 0 0 REV__ENST00000336505.10_1_9:127783037-127789160:-|nuORF REV__ENST00000336505.10_1_9:127783037-127789160:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 358.56134033203125 3 358.560758 1072.66044 2.6208 0.00093973 -0.35945 -0.00012888 2.2614 0.00081084 358.56059160396484 14.089 0.10626 14.089 14.021 14.127 0 9 5 2 0 0 0 0.75535 1 6208 6208 8.1555 0.54658 1 290720 + 15586 15421 9921 9944 17950 17950 0.12701980294082205 LDTRKISKL 9 Unmodified _LDTRKISKL_ 0 0 0 REV__ENST00000336505.10_1_9:127783037-127789160:-|nuORF REV__ENST00000336505.10_1_9:127783037-127789160:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 358.560758 1072.66044 2.6208 0.00093973 -0.35945 -0.00012888 2.2614 0.00081084 358.56059160396484 14.089 0.10626 14.089 14.021 14.127 0 0 0 NaN 8.1555 9 5 2 NaN NaN NaN NaN 0 NaN NaN 0 290720 + 15587 15421 9921 9944 0.12701980294082205 LDVPVVKV 8 Unmodified _LDVPVVKV_ 0 0 0 ENST00000429051.1_1_1:28858469-28862138:+|nuORF;ENSG00000180198|ENST00000683442|RCC1;nc|ENSG00000180198|P18754-2|RCC1 ENST00000429051.1_1_1:28858469-28862138:+|nuORF ENST00000429051.1_1_1:28858469-28862138:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.7814025878906 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 47.29 1 47.29 46.79 47.79 0 0 0 0 0.94507 1 21648 21648 9.3474 0 1 15588 5242 9922 9945 17951 17951 0.10388447425293634 LDVVKIGTV 9 Unmodified _LDVVKIGTV_ 0 0 0 REV__ENSG00000110955|ENST00000262030|ATP5F1B REV__ENSG00000110955|ENST00000262030|ATP5F1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.29730224609375 2 472.294768 942.574983 3.4537 0.0016312 0.14981 7.0755E-05 3.6035 0.0017019 472.29478643156426 31.288 0.31082 31.544 31.407 31.718 0.25614 50 20 3 0 0 0 0.02631 1 14217 14217 60.074 12.325 1 1074100 + 15589 11219 9923 9946 17952 17952 0.10139815108448147 LDVVTIRS 8 Unmodified _LDVVTIRS_ 0 0 0 ENSG00000117724|ENST00000366955|CENPF ENSG00000117724|ENST00000366955|CENPF ENSG00000117724|ENST00000366955|CENPF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.7703552246094 2 451.768917 901.523281 2.8487 0.0012869 0.35942 0.00016238 3.2081 0.0014493 451.7689801907373 16.039 0.72918 16.039 15.677 16.406 0 113 88 2 0 0 0 0.7471 3 7017 7017;7119;7211 0.79363 0 1 68256 15590 2092 9924 9947 17953;17954;17955 17953 0.06858071414535516 LDWDLEDLIHS 11 Unmodified _LDWDLEDLIHS_ 0 0 0 ENST00000264883.7_1_4:77057559-77065349:-|nuORF ENST00000264883.7_1_4:77057559-77065349:-|nuORF ENST00000264883.7_1_4:77057559-77065349:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.9855346679688 2 678.327524 1354.6405 NaN NaN NaN NaN NaN NaN NaN 78.779 1 79.243 78.743 79.743 0.4642 0 0 0 1.0057 1 38342 38342 3.2813 1.7994 1 15591 6611 9925 9948 17956 17956 -0.022638602272081698 LDWRRRKPARW 11 Unmodified _LDWRRRKPARW_ 0 0 0 ENST00000545932.5_1_12:108956369-108956426:+|nuORF ENST00000545932.5_1_12:108956369-108956426:+|nuORF ENST00000545932.5_1_12:108956369-108956426:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 770.822021484375 2 770.442018 1538.86948 NaN NaN NaN NaN NaN NaN NaN 106.1 1 106.7 106.2 107.2 0.59969 0 0 0 1.008 1 48993 48993 0.35063 0.043601 1 15592 8844 9926 9949 17957 17957 0.12160241370725089 LDYFKKPQV 9 Unmodified _LDYFKKPQV_ 0 0 0 ENST00000464685.1_1_2:99785961-99787892:-|nuORF ENST00000464685.1_1_2:99785961-99787892:-|nuORF ENST00000464685.1_1_2:99785961-99787892:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.8830871582031 3 379.881608 1136.623 NaN NaN NaN NaN NaN NaN NaN 16.315 1 16.973 16.473 17.473 0.65798 0 0 0 0.90965 1 7351 7351 1.1933 0 1 15593 8117 9927 9950 17958 17958 0.06014889028460857 LDYVVLLP 8 Unmodified _LDYVVLLP_ 0 0 0 ENSG00000130702|ENST00000252999|LAMA5 ENSG00000130702|ENST00000252999|LAMA5 ENSG00000130702|ENST00000252999|LAMA5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.2788391113281 2 466.278586 930.54262 NaN NaN NaN NaN NaN NaN NaN 33.227 1 33.481 32.981 33.981 0.25389 0 0 0 0.99035 1 15129 15129 2.8892 0 1 15594 2608 9928 9951 17959 17959 0.07457027705436303 LDYYKMMLL 9 Unmodified _LDYYKMMLL_ 0 0 0 REV__ENSG00000139865|ENST00000553443|TTC6 REV__ENSG00000139865|ENST00000553443|TTC6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 595.295166015625 2 595.303421 1188.59229 4.0368 0.0024031 -0.18118 -0.00010786 3.8556 0.0022953 595.3034404873785 30.289 0.28305 30.547 30.419 30.702 0.25804 39 14 3 0 0 0 0.16976 1 13738 13738 25.399 0 1 1838900 + 15595 12222 9929 9952 17960 17960 0.005536513275728794 LEAAERKGK 9 Unmodified _LEAAERKGK_ 0 0 0 ENST00000484054.3_2_1:113248343-113249720:-|nuORF ENST00000484054.3_2_1:113248343-113249720:-|nuORF ENST00000484054.3_2_1:113248343-113249720:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.2905578613281 2 501.290548 1000.56654 NaN NaN NaN NaN NaN NaN NaN 89.158 1 89.158 88.658 89.658 0 0 0 0 0.87786 1 46486 46486 6.7232 0.36906 1 15596 8322 9930 9953 17961 17961 0.06628261191804086 LEAERKKQ 8 Unmodified _LEAERKKQ_ 0 0 0 ENST00000369586.2_1_6:86445464-86445506:-|nuORF;ENSG00000205670|ENST00000399292|SMIM11 ENST00000369586.2_1_6:86445464-86445506:-|nuORF ENST00000369586.2_1_6:86445464-86445506:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1001.8580932617188 1 1001.57382 1000.56654 3.067 0.0030718 -3.8723 -0.0038783 -0.80526 -0.00080653 1001.5693540069049 91.583 0.029388 91.583 91.572 91.601 0 5 4 2 0 0 0 0.13972 1 48422 48422 8.5933 1.8701 1 10546000 15597 6054 9931 9954 17962 17962 0.06628261191804086 LEAERMTHGYY 11 Unmodified _LEAERMTHGYY_ 0 0 0 nc|ENSG00000178460|Q4G0Z9-3|MCMDC2;nc|ENSG00000178460|Q4G0Z9-2|MCMDC2;nc|ENSG00000178460|Q4G0Z9-4|MCMDC2;ENST00000428734.5_1_8:67786448-67831401:+|nuORF;ENSG00000178460|ENST00000422365|MCMDC2 nc|ENSG00000178460|Q4G0Z9-3|MCMDC2 nc|ENSG00000178460|Q4G0Z9-3|MCMDC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 685.3121337890625 2 685.313894 1368.61324 NaN NaN NaN NaN NaN NaN NaN 100.57 1 100.63 100.13 101.13 0.059723 0 0 0 1.0041 1 54582 54582 5.2969 1.7004 1 15598 5169 9932 9955 17963 17963 -0.056326670392081724 LEAKLLLE 8 Unmodified _LEAKLLLE_ 0 0 0 REV__ENSG00000179142|ENST00000323110|CYP11B2 REV__ENSG00000179142|ENST00000323110|CYP11B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.79229736328125 2 464.789318 927.564084 NaN NaN NaN NaN NaN NaN NaN 25.398 1 26.161 25.661 26.661 0.76356 0 0 0 0.99035 1 11398 11398 2.0598 0 1 + 15599 13785 9933 9956 17964 17964 0.0974041273415196 LEAQLRLV 8 Unmodified _LEAQLRLV_ 0 0 0 REV__nc|ENSG00000177548|Q9H5N1-2|RABEP2 REV__nc|ENSG00000177548|Q9H5N1-2|RABEP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.1969299316406 3 314.530798 940.570566 2.2511 0.00070803 -0.53865 -0.00016942 1.7124 0.0005386 314.530744950299 35.801 0.32301 36.056 35.866 36.189 0.25524 24 11 3 0 0 0 0.14313 1 16354 16354 1.6526 0 1 284630 + 15600 13738 9934 9957 17965 17965 0.0979035068551184 LEARGMDAL 9 Unmodified _LEARGMDAL_ 0 0 0 REV__nc|ENSG00000186010|Q9P0J0-2|NDUFA13 REV__nc|ENSG00000186010|Q9P0J0-2|NDUFA13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.2513427734375 2 488.250034 974.485516 3.0197 0.0014744 0.60753 0.00029663 3.6272 0.001771 488.25028894495614 52.494 0.3877 53.156 52.929 53.316 0.66198 46 17 4 0 0 0 0.64206 1 24070 24070 10.074 0.72649 1 3773200 + 15601 14652 9935 9958 17966 17966 -0.0027476284260501416 LEARWRQRRHH 11 Unmodified _LEARWRQRRHH_ 0 0 0 REV__ENST00000367595.3_1_1:180471306-180471588:-|nuORF REV__ENST00000367595.3_1_1:180471306-180471588:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 772.92724609375 2 772.924523 1543.83449 NaN NaN NaN NaN NaN NaN NaN 103.8 1 103.8 103.3 104.3 0 0 0 0 1.0072 1 57175 57175 1.3295 0.9789 1 + 15602 15666 9936 9959 17967 17967 0.08432998562784633 LEATDMCSCL 10 Unmodified _LEATDMCSCL_ 0 0 0 ENST00000570285.1_1_13:76140977-76197422:+|nuORF;ENST00000563635.5_1_13:76123956-76287321:+|nuORF ENST00000570285.1_1_13:76140977-76197422:+|nuORF ENST00000570285.1_1_13:76140977-76197422:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.219482421875 2 543.219228 1084.4239 NaN NaN NaN NaN NaN NaN NaN 90.652 1 90.652 90.152 91.152 0 0 0 0 0.99225 1 47703 47703 6.7232 2.3939 1 15603 9015 9937 9960 17968 17968 -0.11493198648418002 LEAWFEED 8 Unmodified _LEAWFEED_ 0 0 0 REV__nc|ENSG00000126562|Q96J92-3|WNK4 REV__nc|ENSG00000126562|Q96J92-3|WNK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.7456665039062 2 519.724372 1037.43419 NaN NaN NaN NaN NaN NaN NaN 89.44 1 89.44 88.94 89.94 0 0 0 0 0.95658 1 46707 46707 8.5933 1.304 1 + 15604 11714 9938 9961 17969 17969 -0.08302808335656664 LEAYRDKKEL 10 Unmodified _LEAYRDKKEL_ 0 0 0 PCLO|p.L2497Hfs*9|1|0.05|ENSG00000186472|chr7:82953465-82953466|-/ATGA|frameshift_variant;PCLO|p.G2496Afs*27|1|0.04|ENSG00000186472|chr7:82953466-82953467|-/CTTAAATTTAGTGACTTCAG|frameshift_variant;nc|ENSG00000186472|Q9Y6V0-6|PCLO;ENSG00000186472|ENST00000333891|PCLO;PCLO|p.E2327D|1|0.3|ENSG00000186472|chr7:82953972-82953972|C/A|missense_variant PCLO|p.L2497Hfs*9|1|0.05|ENSG00000186472|chr7:82953465-82953466|-/ATGA|frameshift_variant PCLO|p.L2497Hfs*9|1|0.05|ENSG00000186472|chr7:82953465-82953466|-/ATGA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.5894775390625 2 632.848427 1263.6823 NaN NaN NaN NaN NaN NaN NaN 97.57 1 97.64 97.14 98.14 0.070648 0 0 0 0.99774 1 52206 52206 3.5965 0 1 15605 5572 9939 9962 17970 17970 0.06100740251986281 LECELSRPNV 10 Unmodified _LECELSRPNV_ 0 0 0 nc|ENSG00000154358|Q5VST9|OBSCN;nc|ENSG00000154358|Q5VST9-2|OBSCN;nc|ENSG00000154358|Q5VST9-6|OBSCN;ENSG00000154358|ENST00000680850|OBSCN;nc|ENSG00000154358|Q5VST9-3|OBSCN;nc|ENSG00000154358|Q5VST9-5|OBSCN nc|ENSG00000154358|Q5VST9|OBSCN nc|ENSG00000154358|Q5VST9|OBSCN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.1998291015625 3 387.197379 1158.57031 NaN NaN NaN NaN NaN NaN NaN 92.727 1 92.98 92.48 93.48 0.25253 0 0 0 1.0003 1 42623 42623 0.62683 0.21856 1 15606 3821 9940 9963 17971 17971 -0.0026343709664615744 LECGDIAKST 10 Unmodified _LECGDIAKST_ 0 0 0 REV__nc|ENSG00000162552|P56705-2|WNT4 REV__nc|ENSG00000162552|P56705-2|WNT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.7527465820312 2 518.752607 1035.49066 NaN NaN NaN NaN NaN NaN NaN 85.253 1 85.253 84.753 85.753 0 0 0 0 0.99464 1 43357 43357 6.2058 0.97511 1 + 15607 12942 9941 9964 17972 17972 -0.025665037706403382 LECRRFKRRML 11 Unmodified _LECRRFKRRML_ 0 0 0 ENSG00000160551|ENST00000261716|TAOK1 ENSG00000160551|ENST00000261716|TAOK1 ENSG00000160551|ENST00000261716|TAOK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 754.4249267578125 2 754.426664 1506.83878 NaN NaN NaN NaN NaN NaN NaN 98.381 1 98.681 98.181 99.181 0.29987 0 0 0 1.0072 1 45306 45306 1.3295 0 1 15608 4063 9942 9965 17973 17973 0.10563003669813043 LEDDDDDDDDD 11 Unmodified _LEDDDDDDDDD_ 0 0 0 REV__ENSG00000176887|ENST00000322002|SOX11 REV__ENSG00000176887|ENST00000322002|SOX11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.5432739257812 2 648.697131 1295.37971 NaN NaN NaN NaN NaN NaN NaN 82.892 1 82.937 82.437 83.437 0.045006 0 0 0 1.008 1 41001 41001 0.35063 0.35063 1 + 15609 13713 9943 9966 17974 17974 -0.256165615263626 LEDDRDRGWK 10 Unmodified _LEDDRDRGWK_ 0 0 0 ENSG00000198796|ENST00000361673|ALPK2;ALPK2|p.V710Rfs*14|1|0.11|ENSG00000198796|chr18:58538059-58538060|-/CATAGATTCT|frameshift_variant;ALPK2|p.K711Sfs*28|1|0.11|ENSG00000198796|chr18:58538057-58538058|-/AT|frameshift_variant ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.0814819335938 2 645.315283 1288.61601 NaN NaN NaN NaN NaN NaN NaN 97.386 1 97.457 96.957 97.957 0.070648 0 0 0 0.99812 1 52048 52048 3.2813 0.28607 1 15610 5936 9944 9967 17975 17975 -0.016750755900375225 LEDGPKRYRT 10 Unmodified _LEDGPKRYRT_ 0 0 0 ENST00000510825.5_1_4:16743128-16900108:-|nuORF ENST00000510825.5_1_4:16743128-16900108:-|nuORF ENST00000510825.5_1_4:16743128-16900108:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.7933959960938 2 617.830569 1233.64658 NaN NaN NaN NaN NaN NaN NaN 95.136 1 95.136 94.636 95.636 0 0 0 0 0.99572 1 51160 51160 5.2969 0 1 15611 8560 9945 9968 17976 17976 0.03910702794973986 LEDHYFYDDHR 11 Unmodified _LEDHYFYDDHR_ 0 0 0 REV__RCN2|p.L307R|1|0.34|ENSG00000117906|chr15:76949188-76949188|T/G|missense_variant REV__RCN2|p.L307R|1|0.34|ENSG00000117906|chr15:76949188-76949188|T/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 755.3215942382812 2 755.323305 1508.63206 NaN NaN NaN NaN NaN NaN NaN 93.174 1 93.174 92.674 93.674 0 0 0 0 1.0072 1 49706 49706 1.3295 0 1 + 15612 18204 9946 9969 17977 17977 -0.10191414143810107 LEDPNEIK 8 Unmodified _LEDPNEIK_ 0 0 0 REV__nc|ENSG00000082269|Q9P2D6-4|FAM135A REV__nc|ENSG00000082269|Q9P2D6-4|FAM135A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.4011535644531 2 479.248015 956.481476 2.8595 0.0013704 -0.029785 -1.4275E-05 2.8297 0.0013561 479.2480389853004 60.046 0.28325 60.046 59.964 60.248 0 71 34 3 0 0 0 0.5438 1 27805 27805 18.135 4.6271 1 8647600 + 15613 10614 9947 9970 17978 17978 0.001494709353437429 LEDRVKLQKTW 11 Unmodified _LEDRVKLQKTW_ 0 0 0 ENST00000606197.1_1_6:22146907-22147126:+|nuORF ENST00000606197.1_1_6:22146907-22147126:+|nuORF ENST00000606197.1_1_6:22146907-22147126:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 708.09619140625 2 708.403901 1414.79325 NaN NaN NaN NaN NaN NaN NaN 95.571 1 95.571 95.071 96.071 0 0 0 0 1.0047 1 51496 51496 4.5289 1.2476 1 15614 9319 9948 9971 17979 17979 0.10244379960067818 LEDVGAIQSL 10 Unmodified _LEDVGAIQSL_ 0 0 0 nc|ENSG00000085491|Q6NUK1-2|SLC25A24 nc|ENSG00000085491|Q6NUK1-2|SLC25A24 nc|ENSG00000085491|Q6NUK1-2|SLC25A24 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.8586120605469 3 348.85724 1043.54989 NaN NaN NaN NaN NaN NaN NaN 27.627 1 27.889 27.389 28.389 0.26245 0 0 0 0.97102 1 12562 12562 5.7834 0 1 15615 9568 9949 9972 17980 17980 0.029857155152058112 LEDWTDEEFA 10 Unmodified _LEDWTDEEFA_ 0 0 0 REV__ENSG00000117791|ENST00000366913|MTARC2 REV__ENSG00000117791|ENST00000366913|MTARC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 627.7142944335938 2 627.761683 1253.50881 NaN NaN NaN NaN NaN NaN NaN 94.351 1 94.351 93.851 94.851 0 0 0 0 0.99774 1 50586 50586 3.5965 0 1 + 15616 11454 9950 9973 17981 17981 -0.10780090314960944 LEDYDDDRDDP 11 Unmodified _LEDYDDDRDDP_ 0 0 0 ENST00000532483.5_1_14:73572990-73578268:+|nuORF;ENST00000527449.1_1_14:73574437-73577964:+|nuORF;ENST00000532683.5_1_14:73569902-73577964:+|nuORF;ENSG00000119707|ENST00000261973|RBM25 ENST00000532483.5_1_14:73572990-73578268:+|nuORF ENST00000532483.5_1_14:73572990-73578268:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 684.3317260742188 2 684.265318 1366.51608 NaN NaN NaN NaN NaN NaN NaN 96.696 1 96.696 96.196 97.196 0 0 0 0 1.0057 1 52400 52400 3.2813 0 1 15617 8736 9951 9974 17982 17982 -0.15251402505191436 LEDYEYDEYD 10 Unmodified _LEDYEYDEYD_ 0 0 0 REV__ENST00000478388.1_1_6:31999390-31999952:+|nuORF REV__ENST00000478388.1_1_6:31999390-31999952:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.3143920898438 2 677.253888 1352.49322 NaN NaN NaN NaN NaN NaN NaN 98.472 1 98.538 98.038 99.038 0.066025 0 0 0 0.99733 1 52952 52952 3.9444 0.66309 1 + 15618 14550 9952 9975 17983 17983 -0.16892421622651455 LEEALLVF 8 Unmodified _LEEALLVF_ 0 0 0 ENSG00000177352|ENST00000321895|CCDC71 ENSG00000177352|ENST00000321895|CCDC71 ENSG00000177352|ENST00000321895|CCDC71 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.2670593261719 2 467.268219 932.521884 NaN NaN NaN NaN NaN NaN NaN 52.521 1 53.183 52.683 53.683 0.66198 0 0 0 0.99035 1 24012 24012 5.2307 0 1 15619 5114 9953 9976 17984 17984 0.052924373257724255 LEEEESYEN 9 Unmodified _LEEEESYEN_ 0 0 0 REV__nc|ENSG00000132153|Q7L2E3-3|DHX30 REV__nc|ENSG00000132153|Q7L2E3-3|DHX30 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.7341918945312 2 571.230216 1140.44588 3.6616 0.0020916 0.61355 0.00035048 4.2751 0.0024421 571.230562249803 17.805 0.29808 18.465 18.364 18.662 0.66072 64 39 2 0 0 0 0.80651 1 8014 8014 7.2892 7.2892 1 1801100 + 15620 11879 9954 9977 17985 17985 -0.11872656102991641 LEEEQRWMKEQ 11 Unmodified _LEEEQRWMKEQ_ 0 0 0 REV__ENSG00000261649|ENST00000567390|GOLGA6L7 REV__ENSG00000261649|ENST00000567390|GOLGA6L7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 753.4703979492188 2 753.35629 1504.69803 NaN NaN NaN NaN NaN NaN NaN 99.825 1 99.887 99.387 100.39 0.062241 0 0 0 1.0057 1 54044 54044 3.2813 0 1 + 15621 14694 9955 9978 17986 17986 -0.03413341293276062 LEEIKQWMEE 10 Unmodified _LEEIKQWMEE_ 0 0 0 REV__nc|ENSG00000112640|Q14738-3|PPP2R5D REV__nc|ENSG00000112640|Q14738-3|PPP2R5D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 667.8204956054688 2 667.818478 1333.6224 NaN NaN NaN NaN NaN NaN NaN 105.47 1 106.07 105.57 106.57 0.59969 0 0 0 0.99572 1 48710 48710 5.2969 1.3525 1 + 15622 11277 9956 9979 17987 17987 -0.03106318473533065 LEELALVGR 9 Unmodified _LEELALVGR_ 0 0 0 REV__ENSG00000188037|ENST00000343257|CLCN1 REV__ENSG00000188037|ENST00000343257|CLCN1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.2233581542969 3 333.865958 998.576045 2.3726 0.00079215 2.0062 0.00066979 4.3788 0.0014619 334.20178696245404 35.603 0.088249 36.229 36.167 36.255 0.62631 4 2 2 0 0 0 0.11267 1 16318 16318 2.7352 0 1 89635 + 15623 14128 9957 9980 17988 17988 0.07670029477344542 LEENDDDAYL 10 Unmodified _LEENDDDAYL_ 0 0 0 ENSG00000159079|ENST00000290155|CFAP298 ENSG00000159079|ENST00000290155|CFAP298 ENSG00000159079|ENST00000290155|CFAP298 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.504638671875 3 399.503302 1195.48808 2.8601 0.0011426 0.84842 0.00033895 3.7085 0.0014816 399.50343645938506 28.104 0.26232 28.723 28.583 28.845 0.61947 33 16 3 0 0 0 0.90859 1 12887 12887 1.5923 0 1 260730 15624 4008 9958 9981 17989 17989 -0.10184680694624149 LEERPLLG 8 Unmodified _LEERPLLG_ 0 0 0 ENSG00000155729|ENST00000359878|KCTD18 ENSG00000155729|ENST00000359878|KCTD18 ENSG00000155729|ENST00000359878|KCTD18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.77105712890625 2 463.768917 925.523281 2.8323 0.0013135 0.2345 0.00010875 3.0668 0.0014223 463.7688638274573 25.36 0.26377 25.628 25.508 25.772 0.26777 43 24 2 0 0 0 0.34607 1 11520 11520 32.117 0 1 756010 15625 3874 9959 9982 17990 17990 0.057540714145375205 LEFEEEGTL 9 Unmodified _LEFEEEGTL_ 0 0 0 REV__ENSG00000103657|ENST00000443617|HERC1 REV__ENSG00000103657|ENST00000443617|HERC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.7523193359375 2 533.750587 1065.48662 3.2954 0.0017589 0.62496 0.00033357 3.9204 0.0020925 533.7508786093537 57.528 0.30194 58.197 58.041 58.343 0.66829 39 18 3 0 0 0 0.22507 1 26320 26320 21.747 0 1 1209200 + 15626 10975 9960 9983 17991 17991 -0.04350269992687572 LEFEEEGTL 9 Unmodified _LEFEEEGTL_ 0 0 0 REV__ENSG00000103657|ENST00000443617|HERC1 REV__ENSG00000103657|ENST00000443617|HERC1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 533.750587 1065.48662 2.8305 0.0015108 0.62819 0.00033529 3.4587 0.0018461 533.7509401200064 57.311 0.13284 58.08 57.974 58.106 0.76861 -0.14235 -0.00055989 NaN 21.747 20 14 2 NaN NaN NaN NaN 0 NaN NaN 0 1990700 + 15627 10975 9960 9983 -0.04350269992687572 LEFEEEGTL 9 Unmodified _LEFEEEGTL_ 0 0 0 REV__ENSG00000103657|ENST00000443617|HERC1 REV__ENSG00000103657|ENST00000443617|HERC1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 533.750587 1065.48662 3.2954 0.0017589 0.62496 0.00033357 3.9204 0.0020925 533.7508786093537 57.528 0.30194 58.197 58.041 58.343 0.66829 -0.025709 -0.00056333 NaN 21.747 39 18 3 NaN NaN NaN NaN 0 NaN NaN 0 1209200 + 15628 10975 9960 9983 -0.04350269992687572 LEFLCLLGL 9 Unmodified _LEFLCLLGL_ 0 0 0 ENST00000562866.1_1_16:89783858-89784437:+|nuORF ENST00000562866.1_1_16:89783858-89784437:+|nuORF ENST00000562866.1_1_16:89783858-89784437:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.79266357421875 2 510.793546 1019.57254 3.5132 0.0017945 1.9009 0.00097098 5.4141 0.0027655 510.7943711707455 48.371 0.33559 48.633 48.457 48.793 0.26209 47 22 3 0 0 0 0.050606 1 22155 22155 46.921 3.0626 1 1371000 15629 9002 9961 9984 17992 17992 0.06353643379100049 LEFLKEHDQNY 11 Unmodified _LEFLKEHDQNY_ 0 0 0 REV__nc|ENSG00000117020|Q9Y243-2|AKT3 REV__nc|ENSG00000117020|Q9Y243-2|AKT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 718.5636596679688 2 718.346249 1434.67794 NaN NaN NaN NaN NaN NaN NaN 86.898 1 86.928 86.428 87.428 0.030289 0 0 0 0.98464 1 43843 43843 8.1555 4.8742 1 + 15630 11431 9962 9985 17993 17993 -0.022007689615520576 LEFNHPQI 8 Unmodified _LEFNHPQI_ 0 0 0 nc|ENSG00000133116|Q9UEF7-2|KL;ENSG00000133116|ENST00000380099|KL nc|ENSG00000133116|Q9UEF7-2|KL nc|ENSG00000133116|Q9UEF7-2|KL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.2601013183594 2 499.258717 996.50288 2.7539 0.0013749 1.4892 0.0007435 4.2432 0.0021184 499.25946293426784 58.196 0.28909 58.964 58.854 59.143 0.76861 49 30 2 0 0 0 0.3435 1 26726 26726 32.305 1.6689 1 3839800 15631 2750 9963 9986 17994 17994 0.004489007547249457 LEFYEDYF 8 Unmodified _LEFYEDYF_ 0 0 0 ERAP1|p.P833Hfs*12|1|0.14|ENSG00000164307|chr5:96781150-96781150|A/-|frameshift_variant;ENSG00000164307|ENST00000443439|ERAP1;nc|ENSG00000164307|Q9NZ08-2|ERAP1 ERAP1|p.P833Hfs*12|1|0.14|ENSG00000164307|chr5:96781150-96781150|A/-|frameshift_variant ERAP1|p.P833Hfs*12|1|0.14|ENSG00000164307|chr5:96781150-96781150|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.3766479492188 2 563.242398 1124.47024 NaN NaN NaN NaN NaN NaN NaN 94.454 1 94.454 93.954 94.954 0 0 0 0 0.99035 1 50672 50672 2.5775 0 1 15632 4304 9964 9987 17995 17995 -0.08701351158811121 LEGEEICDM 9 Unmodified _LEGEEICDM_ 0 0 0 REV__ENSG00000182670|ENST00000418766|TTC3 REV__ENSG00000182670|ENST00000418766|TTC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.5242309570312 2 519.70955 1037.40455 NaN NaN NaN NaN NaN NaN NaN 92.341 1 92.424 91.924 92.924 0.082848 0 0 0 0.89683 1 48090 48090 4.3292 0 1 + 15633 13902 9965 9988 17996 17996 -0.1126583166767432 LEGKLKKKK 9 Unmodified _LEGKLKKKK_ 0 0 0 ENSG00000178279|ENST00000312693|TNP2 ENSG00000178279|ENST00000312693|TNP2 ENSG00000178279|ENST00000312693|TNP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.3673706054688 2 536.366059 1070.71756 NaN NaN NaN NaN NaN NaN NaN 85.464 1 85.492 84.992 85.992 0.028603 0 0 0 0.90611 1 42789 42789 2.0598 0 1 15634 5160 9966 9989 17997 17997 0.18503447570446951 LEGQPSPNEGP 11 Unmodified _LEGQPSPNEGP_ 0 0 0 REV__ENSG00000162714|ENST00000682384|ZNF496 REV__ENSG00000162714|ENST00000682384|ZNF496 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.1474609375 2 562.76456 1123.51457 NaN NaN NaN NaN NaN NaN NaN 93.721 1 93.721 93.221 94.221 0 0 0 0 1.0038 1 50098 50098 5.7319 1.4026 1 + 15635 12954 9967 9990 17998 17998 -0.04224947012630764 LEGRRRKRLEE 11 Unmodified _LEGRRRKRLEE_ 0 0 0 REV__ENST00000367806.7_1_1:169396552-169396627:-|nuORF REV__ENST00000367806.7_1_1:169396552-169396627:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.2843322753906 3 481.283057 1440.82734 3.811 0.0018342 0.24388 0.00011737 4.0549 0.0019515 481.28313871394994 95.555 0.51495 95.822 95.679 96.194 0.26751 53 28 2 0 0 0 0.91328 1 44069 44069 0.50596 0.41111 1 469500 + 15636 15671 9968 9991 17999 17999 0.1245622117169205 LEHKKKILKKE 11 Unmodified _LEHKKKILKKE_ 0 0 0 ENST00000427650.2_1_9:69386004-69400453:+|nuORF;nc|ENSG00000291287|Q5SQ80|ANKRD20A2P;nc|ENSG00000276203|Q5VUR7|ANKRD20A3P;nc|ENSG00000172014|Q4UJ75|ANKRD20A4P;ENSG00000260691|ENST00000562196|ANKRD20A1 ENST00000427650.2_1_9:69386004-69400453:+|nuORF ENST00000427650.2_1_9:69386004-69400453:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 697.4478149414062 2 697.448111 1392.88167 NaN NaN NaN NaN NaN NaN NaN 52.401 1 52.401 51.901 52.901 0 0 0 0 1.0082 1 23995 23995 0 0 1 15637 6306 9969 9992 18000 18000 0.20094420270515911 LEHNLALAKMV 11 Unmodified _LEHNLALAKMV_ 0 0 0 ENSG00000179532|ENST00000254579|DNHD1 ENSG00000179532|ENST00000254579|DNHD1 ENSG00000179532|ENST00000254579|DNHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.85009765625 2 619.849916 1237.68528 NaN NaN NaN NaN NaN NaN NaN 88.553 1 88.606 88.106 89.106 0.052155 0 0 0 1.0038 1 45136 45136 5.7319 1.8555 1 15638 5220 9970 9993 18001 18001 0.07594292105113709 LEILWWFWSCS 11 Unmodified _LEILWWFWSCS_ 0 0 0 ENST00000330953.5_1_3:32995068-32995134:+|nuORF ENST00000330953.5_1_3:32995068-32995134:+|nuORF ENST00000330953.5_1_3:32995068-32995134:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 735.2933349609375 2 735.349748 1468.68494 NaN NaN NaN NaN NaN NaN NaN 96.159 1 96.235 95.735 96.735 0.076538 0 0 0 1.0079 1 51018 51018 1.3295 0.9789 1 15639 6986 9971 9994 18002 18002 -0.030651276146954842 LEIMRNIHI 9 Unmodified _LEIMRNIHI_ 0 0 0 ENST00000548534.1_1_12:105538575-105540954:+|nuORF;nc|ENSG00000136051|Q2M389-2|WASHC4;ENST00000311317.8_1_12:105501518-105541426:+|nuORF;ENSG00000136051|ENST00000332180|WASHC4 ENST00000548534.1_1_12:105538575-105540954:+|nuORF ENST00000548534.1_1_12:105538575-105540954:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.2185363769531 3 380.218226 1137.63285 NaN NaN NaN NaN NaN NaN NaN 38.324 1 38.589 38.089 39.089 0.26408 0 0 0 0.90431 1 17450 17450 2.4985 0.75621 1 15640 2923 9972 9995 18003 18003 0.06953753762218184 LEIRPNIVWLA 11 Unmodified _LEIRPNIVWLA_ 0 0 0 ENST00000518028.5_1_5:154239038-154242796:+|nuORF ENST00000518028.5_1_5:154239038-154242796:+|nuORF ENST00000518028.5_1_5:154239038-154242796:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 662.718017578125 2 662.392805 1322.77106 NaN NaN NaN NaN NaN NaN NaN 106.28 1 106.28 105.78 106.78 0 0 0 0 1.0059 1 58367 58367 2.9952 0.26005 1 15641 8604 9973 9996 18004 18004 0.12258200282303733 LEIRQIKLKFI 11 Unmodified _LEIRQIKLKFI_ 0 0 0 ENST00000472398.5_1_21:38529111-38558109:+|nuORF ENST00000472398.5_1_21:38529111-38558109:+|nuORF ENST00000472398.5_1_21:38529111-38558109:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 700.9591064453125 2 700.95303 1399.89151 NaN NaN NaN NaN NaN NaN NaN 96.535 1 96.612 96.112 97.112 0.076538 0 0 0 1.0072 1 51329 51329 1.3295 0 1 15642 8187 9974 9997 18005 18005 0.20755608275908344 LEIRRRDII 9 Unmodified _LEIRRRDII_ 0 0 0 ENSG00000176928|ENST00000652361|GCNT4 ENSG00000176928|ENST00000652361|GCNT4 ENSG00000176928|ENST00000652361|GCNT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.2486572265625 3 395.247173 1182.71969 2.7472 0.0010858 -0.16079 -6.3552E-05 2.5864 0.0010223 395.2471477272661 15.527 0.89386 15.833 15.455 16.349 0.306 211 100 3 0 0 0 1.1154 1 7105 7105 2.7352 0 1 119180 15643 5093 9975 9998 18006 18006 0.13563876308285217 LEISKQFR 8 Unmodified _LEISKQFR_ 0 0 0 REV__nc|ENSG00000163913|Q9HBG6-11|IFT122 REV__nc|ENSG00000163913|Q9HBG6-11|IFT122 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.7917785644531 2 510.795466 1019.57638 3.3929 0.0017331 -3.1975 -0.0016333 0.19533 9.9772E-05 510.79379602486 47.735 0.46725 48.389 48.214 48.682 0.65356 35 19 2 0 0 0 0.4188 1 21931 21931 26.884 0.54238 1 1032500 + 15644 13040 9976 9999 18007 18007 0.06737449197191836 LEKFFHREW 9 Unmodified _LEKFFHREW_ 0 0 0 ENST00000411858.1_1_7:6854458-6863725:-|nuORF ENST00000411858.1_1_7:6854458-6863725:-|nuORF ENST00000411858.1_1_7:6854458-6863725:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 646.3336791992188 2 646.332747 1290.65094 NaN NaN NaN NaN NaN NaN NaN 94.202 1 94.202 93.702 94.702 0 0 0 0 0.90699 1 50464 50464 1.8442 0.19162 1 15645 7675 9977 10000 18008 18008 0.017242120085484203 LEKFRKEQL 9 Unmodified _LEKFRKEQL_ 0 0 0 ENST00000510379.1_1_4:148653338-148778808:+|nuORF;ENSG00000071205|ENST00000336498|ARHGAP10 ENST00000510379.1_1_4:148653338-148778808:+|nuORF ENST00000510379.1_1_4:148653338-148778808:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 397.5690612792969 3 397.567912 1189.68191 2.7109 0.0010778 0.27463 0.00010919 2.9856 0.001187 397.5679662636362 22.137 0.31566 22.137 21.969 22.284 0 65 23 3 0 0 0 0.92418 1 9868 9868 5.2969 0 1 1034400 15646 777 9978 10001 18009 18009 0.09465365322807884 LEKFRKEQL 9 Unmodified _LEKFRKEQL_ 0 0 0 ENST00000510379.1_1_4:148653338-148778808:+|nuORF;ENSG00000071205|ENST00000336498|ARHGAP10 ENST00000510379.1_1_4:148653338-148778808:+|nuORF ENST00000510379.1_1_4:148653338-148778808:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.56878662109375 3 397.567912 1189.68191 2.8988 0.0011525 -1.2933 -0.00051416 1.6055 0.00063832 397.901777301918 21 0.16225 21.287 21.232 21.394 0.28662 57 39 2 0 0 0 0.10584 1 9505 9505 31.268 0 1 4814700 15647 777 9978 10001 18010 18010 0.09465365322807884 LEKIIIPEI 9 Unmodified _LEKIIIPEI_ 0 0 0 nc|ENSG00000124207|P55060-4|CSE1L;nc|ENSG00000124207|P55060-3|CSE1L;ENSG00000124207|ENST00000262982|CSE1L;ENST00000469700.1_1_20:47707305-47712721:+|nuORF nc|ENSG00000124207|P55060-4|CSE1L nc|ENSG00000124207|P55060-4|CSE1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 534.3385620117188 2 534.339175 1066.6638 NaN NaN NaN NaN NaN NaN NaN 22.723 1 23.364 22.864 23.864 0.64051 0 0 0 0.77475 1 10352 10352 10.074 0.6908 1 15648 2348 9979 10002 18011 18011 0.1331323034808065 LEKIKQELI 9 Unmodified _LEKIKQELI_ 0 0 0 REV__nc|ENSG00000144674|Q13439-3|GOLGA4 REV__nc|ENSG00000144674|Q13439-3|GOLGA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 371.90179443359375 3 371.90078 1112.68051 2.7285 0.0010147 -0.24836 -9.2364E-05 2.4801 0.00092235 371.90061960184335 49.71 0.56566 49.971 49.755 50.32 0.26146 62 22 4 0 0 0 0.079031 1 22705 22705 28.495 0 1 6818500 + 15649 12411 9980 10003 18012 18012 0.12867731234041457 LEKILKIWKQL 11 Unmodified _LEKILKIWKQL_ 0 0 0 ENSG00000103740|ENST00000258873|ACSBG1 ENSG00000103740|ENST00000258873|ACSBG1 ENSG00000103740|ENST00000258873|ACSBG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 706.4566040039062 2 706.455405 1410.89626 NaN NaN NaN NaN NaN NaN NaN 102.81 1 102.86 102.36 103.36 0.055092 0 0 0 1.0079 1 55792 55792 1.3295 0 1 15650 1413 9981 10004 18013 18013 0.20724492418685259 LEKKAKRQGPQ 11 Unmodified _LEKKAKRQGPQ_ 0 0 0 ENST00000494896.1_1_10:127668734-127668908:+|nuORF;nc|ENSG00000203780|Q8TC84-2|FANK1;ENSG00000203780|ENST00000368693|FANK1;nc|ENSG00000203780|Q8TC84-3|FANK1 ENST00000494896.1_1_10:127668734-127668908:+|nuORF ENST00000494896.1_1_10:127668734-127668908:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.8851928710938 2 641.883136 1281.75172 4.1103 0.0026383 -0.89893 -0.00057701 3.2114 0.0020613 641.8823640476354 92.382 1.1525 93.029 92.627 93.779 0.64714 85 58 2 0 0 0 0.83518 1 42555 42555 5.2969 3.6443 1 936840 15651 5974 9982 10005 18014 18014 0.12211243991418996 LEKKEKRHRRL 11 Unmodified _LEKKEKRHRRL_ 0 0 0 REV__ENSG00000155100|ENST00000404789|OTUD6B REV__ENSG00000155100|ENST00000404789|OTUD6B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.646240234375 3 498.310947 1491.91101 1.7893 0.00089165 -0.30503 -0.000152 1.4843 0.00073965 498.3110045904624 106.13 0.17079 106.18 106.08 106.25 0.04837 16 7 3 0 0 0 0.91359 1 57423 57423 0.40827 0 1 3290000 + 15652 12736 9983 10006 18015 18015 0.18473377339387298 LEKKERKRKK 10 Unmodified _LEKKERKRKK_ 0 0 0 REV__ENSG00000145220|ENST00000343470|LYAR REV__ENSG00000145220|ENST00000343470|LYAR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 671.9403686523438 2 671.935702 1341.85685 NaN NaN NaN NaN NaN NaN NaN 86.436 1 86.466 85.966 86.966 0.030289 0 0 0 1.0001 1 43495 43495 1.6526 0 1 + 15653 12432 9984 10007 18016 18016 0.19959785187825219 LEKKIGRI 8 Unmodified _LEKKIGRI_ 0 0 0 REV__nc|ENSG00000169760|Q8N2Q7|NLGN1 REV__nc|ENSG00000169760|Q8N2Q7|NLGN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 319.5472412109375 3 319.54656 955.617851 2.0857 0.00066647 0.66798 0.00021345 2.7537 0.00087992 319.54673854128566 14.675 0.2955 14.982 14.867 15.163 0.3069 41 24 2 0 0 0 0.67495 2 6617 6617;6661 7.9102 0 1 343950 + 15654 13401 9985 10008 18017;18018 18017 0.13826629956531633 LEKKIGRI 8 Unmodified _LEKKIGRI_ 0 0 0 REV__nc|ENSG00000169760|Q8N2Q7|NLGN1 REV__nc|ENSG00000169760|Q8N2Q7|NLGN1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 319.54656 955.617851 2.0857 0.00066647 0.66798 0.00021345 2.7537 0.00087992 319.54673854128566 14.675 0.2955 14.982 14.867 15.163 0.3069 -0.19461 -0.00014704 NaN 7.9102 41 24 2 NaN NaN NaN NaN 0 NaN NaN 0 343950 + 15655 13401 9985 10008 0.13826629956531633 LEKKIGRI 8 Unmodified _LEKKIGRI_ 0 0 0 REV__nc|ENSG00000169760|Q8N2Q7|NLGN1 REV__nc|ENSG00000169760|Q8N2Q7|NLGN1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 319.54656 955.617851 2.2212 0.00070978 0.95598 0.00030548 3.1772 0.0010153 319.54684790258773 14.717 0.28472 15.371 15.24 15.525 0.65356 0.19461 0.00012906 NaN 7.9102 39 24 2 NaN NaN NaN NaN 0 NaN NaN 0 368180 + 15656 13401 9985 10008 0.13826629956531633 LEKKKGESL 9 Unmodified _LEKKKGESL_ 0 0 0 REV__nc|ENSG00000204644|Q9NU63-2|ZFP57 REV__nc|ENSG00000204644|Q9NU63-2|ZFP57 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.3099365234375 2 516.308406 1030.60226 3.423 0.0017673 -0.56236 -0.00029035 2.8606 0.001477 516.3082341113159 26.882 0.20793 27.147 27.008 27.216 0.26489 19 12 2 0 0 0 0.36069 1 12213 12213 14.838 0 1 235280 + 15657 14434 9986 10009 18019 18019 0.0881829864881638 LEKKKKERKKL 11 Unmodified _LEKKKKERKKL_ 0 0 0 REV__ENST00000575042.1_1_16:3493766-3500111:+|nuORF REV__ENST00000575042.1_1_16:3493766-3500111:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 714.8935546875 2 714.47466 1426.93477 4.0808 0.0029156 1.1743 0.00083903 5.2551 0.0037546 714.9759487252962 82.968 0.068237 83.628 83.575 83.643 0.66019 4 2 2 0 0 0 0.13295 1 38209 38209 1.3295 0 1 279490 + 15658 17471 9987 10010 18020 18020 0.23837798053205006 LEKKKKKKDRK 11 Unmodified _LEKKKKKKDRK_ 0 0 0 ENSG00000138433|ENST00000342016|CIR1 ENSG00000138433|ENST00000342016|CIR1 ENSG00000138433|ENST00000342016|CIR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 714.9735717773438 2 714.972285 1427.93002 NaN NaN NaN NaN NaN NaN NaN 81.671 1 81.756 81.256 82.256 0.084106 0 0 0 1.0072 1 40194 40194 1.3295 1.3295 1 15659 3090 9988 10011 18021 18021 0.23316913910434778 LEKKKKKKKI 10 Unmodified _LEKKKKKKKI_ 0 0 0 REV__ENST00000471326.5_1_1:154245614-154245674:+|nuORF REV__ENST00000471326.5_1_1:154245614-154245674:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 635.8081665039062 2 635.95029 1269.88603 NaN NaN NaN NaN NaN NaN NaN 84.451 1 84.479 83.979 84.979 0.028603 0 0 0 1.0015 1 42131 42131 0.40072 0.40072 1 + 15660 16604 9989 10012 18022 18022 0.2618792948412647 LEKKKKKKKIL 11 Unmodified _LEKKKKKKKIL_ 0 0 0 REV__ENST00000471326.5_1_1:154245614-154245674:+|nuORF REV__ENST00000471326.5_1_1:154245614-154245674:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 692.4920043945312 2 692.492322 1382.97009 NaN NaN NaN NaN NaN NaN NaN 69.383 1 70.086 69.586 70.586 0.70302 0 0 0 1.008 1 33204 33204 0.35063 0 1 + 15661 16604 9990 10013 18023 18023 0.29392460581038904 LEKKRKKKKIK 11 Unmodified _LEKKRKKKKIK_ 0 0 0 ENSG00000111845|ENST00000379568|PAK1IP1 ENSG00000111845|ENST00000379568|PAK1IP1 ENSG00000111845|ENST00000379568|PAK1IP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 714.1231689453125 2 714.000845 1425.98714 NaN NaN NaN NaN NaN NaN NaN 59.685 1 60.435 59.935 60.935 0.74927 0 0 0 1.008 1 27424 27424 0.35063 0.35063 1 15662 1779 9991 10014 18024 18024 0.2911838118682226 LEKLCKLDY 9 Unmodified _LEKLCKLDY_ 0 0 0 ENSG00000203933|ENST00000370540|CXorf66 ENSG00000203933|ENST00000370540|CXorf66 ENSG00000203933|ENST00000370540|CXorf66 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.4524536132812 2 562.804642 1123.59473 NaN NaN NaN NaN NaN NaN NaN 98.282 1 98.881 98.381 99.381 0.59885 0 0 0 0.86044 1 45294 45294 7.2892 1.0834 1 15663 5981 9992 10015 18025 18025 0.03787823056882189 LEKLENLKW 9 Unmodified _LEKLENLKW_ 0 0 0 nc|ENSG00000131951|Q6ZRR7-2|LRRC9;nc|ENSG00000131951|Q6ZRR7|LRRC9;ENSG00000131951|ENST00000570145|LRRC9 nc|ENSG00000131951|Q6ZRR7-2|LRRC9 nc|ENSG00000131951|Q6ZRR7-2|LRRC9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.8362426757812 2 586.837331 1171.66011 NaN NaN NaN NaN NaN NaN NaN 94.526 1 94.526 94.026 95.026 0 0 0 0 0.89983 1 50725 50725 3.5965 0.31518 1 15664 2677 9993 10016 18026 18026 0.08114560574222196 LEKLFGFLL 9 Unmodified _LEKLFGFLL_ 0 0 0 nc|ENSG00000087269|P78316-2|NOP14;ENSG00000087269|ENST00000416614|NOP14 nc|ENSG00000087269|P78316-2|NOP14 nc|ENSG00000087269|P78316-2|NOP14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.3285522460938 2 540.328611 1078.64267 NaN NaN NaN NaN NaN NaN NaN 43.018 1 43.667 43.167 44.167 0.64872 0 0 0 0.89451 1 19712 19712 1.8442 0 1 15665 9569 9994 10017 18027 18027 0.1064926503922834 LEKLFSLNSEE 11 Unmodified _LEKLFSLNSEE_ 0 0 0 REV__ENST00000471383.5_1_2:202131194-202137540:+|nuORF REV__ENST00000471383.5_1_2:202131194-202137540:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 436.89508056640625 3 436.894242 1307.6609 NaN NaN NaN NaN NaN NaN NaN 10.502 1 10.502 10.002 11.002 0 0 0 0 1.0079 1 4660 4660 0.40827 0.17242 1 + 15666 10407 9995 10018 18028 18028 0.01937310432617778 LEKLLLKVKR 10 Unmodified _LEKLLLKVKR_ 0 0 0 REV__ICE1|p.D767Ifs*5|1|0.24|ENSG00000164151|chr5:5461632-5461632|A/-|frameshift_variant REV__ICE1|p.D767Ifs*5|1|0.24|ENSG00000164151|chr5:5461632-5461632|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.43017578125 2 620.42919 1238.84383 NaN NaN NaN NaN NaN NaN NaN 87.319 1 87.359 86.859 87.859 0.039955 0 0 0 1.0001 1 44177 44177 1.6526 0.32309 1 + 15667 13068 9996 10019 18029 18029 0.23395954075726877 LEKPKQKKNR 10 Unmodified _LEKPKQKKNR_ 0 0 0 ENST00000557983.1_1_15:80423514-80429967:+|nuORF;nc|ENSG00000086666|Q6FIF0-2|ZFAND6;ENSG00000086666|ENST00000261749|ZFAND6 ENST00000557983.1_1_15:80423514-80429967:+|nuORF ENST00000557983.1_1_15:80423514-80429967:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.8944702148438 2 634.893503 1267.77245 3.4059 0.0021624 -1.8883 -0.0011989 1.5176 0.00096352 634.8924686000928 100.42 0.10956 100.42 100.37 100.48 0 13 8 2 0 0 0 0.90196 1 55421 55421 3.5965 0 1 10230000 15668 986 9997 10020 18030 18030 0.14927834371087556 LEKQRLEQQLL 11 Unmodified _LEKQRLEQQLL_ 0 0 0 nc|ENSG00000108840|Q9UQL6-2|HDAC5;ENSG00000108840|ENST00000682912|HDAC5;nc|ENSG00000108840|Q9UQL6-3|HDAC5 nc|ENSG00000108840|Q9UQL6-2|HDAC5 nc|ENSG00000108840|Q9UQL6-2|HDAC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.94390869140625 3 466.608548 1396.80381 3.4053 0.0015889 -0.81344 -0.00037956 2.5919 0.0012094 466.60806622908734 94.245 0.56345 94.505 94.247 94.81 0.25974 43 28 2 0 0 0 0.91184 1 43272 43272 0.32927 0.23443 1 405010 15669 1655 9998 10021 18031 18031 0.12128362614521393 LEKQRLEQQLL 11 Unmodified _LEKQRLEQQLL_ 0 0 0 nc|ENSG00000108840|Q9UQL6-2|HDAC5;ENSG00000108840|ENST00000682912|HDAC5;nc|ENSG00000108840|Q9UQL6-3|HDAC5 nc|ENSG00000108840|Q9UQL6-2|HDAC5 nc|ENSG00000108840|Q9UQL6-2|HDAC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.60980224609375 3 466.608548 1396.80381 3.0529 0.0014245 -0.60931 -0.00028431 2.4436 0.0011402 466.6081629207554 96.207 0.68438 96.814 96.615 97.3 0.60768 105 32 5 0 0 0 0.91184 1 44226 44226 1.0136 0.55906 1 3062300 15670 1655 9998 10021 18032 18032 0.12128362614521393 LEKQRLEQQLL 11 Unmodified _LEKQRLEQQLL_ 0 0 0 nc|ENSG00000108840|Q9UQL6-2|HDAC5;ENSG00000108840|ENST00000682912|HDAC5;nc|ENSG00000108840|Q9UQL6-3|HDAC5 nc|ENSG00000108840|Q9UQL6-2|HDAC5 nc|ENSG00000108840|Q9UQL6-2|HDAC5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.609375 3 466.608548 1396.80381 3.0491 0.0014228 -0.49345 -0.00023025 2.5557 0.0011925 466.6082444436972 95.92 0.53236 96.528 96.158 96.69 0.60769 76 31 4 0 0 0 0.13295 1 44178 44178 0.40827 0.40827 1 1778500 15671 1655 9998 10021 18033 18033 0.12128362614521393 LEKQVILQPMK 11 Unmodified _LEKQVILQPMK_ 0 0 0 REV__PCDH11X|p.F288Sfs*6|1|0.08|ENSG00000102290|chrX:91877102-91877103|-/CCCTA|frameshift_variant REV__PCDH11X|p.F288Sfs*6|1|0.08|ENSG00000102290|chrX:91877102-91877103|-/CCCTA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.9013671875 2 663.894323 1325.77409 4.4501 0.0029544 1.4161 0.00094015 5.8662 0.0038946 663.8949656414477 94.585 0.66898 94.845 94.569 95.238 0.25975 63 37 2 0 0 0 0.91373 1 43415 43415 1.0715 0 1 861090 + 15672 10785 9999 10022 18034 18034 0.12423707344828472 LEKQVILQPMK 11 Unmodified _LEKQVILQPMK_ 0 0 0 REV__PCDH11X|p.F288Sfs*6|1|0.08|ENSG00000102290|chrX:91877102-91877103|-/CCCTA|frameshift_variant REV__PCDH11X|p.F288Sfs*6|1|0.08|ENSG00000102290|chrX:91877102-91877103|-/CCCTA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.895751953125 2 663.894323 1325.77409 4.1261 0.0027393 1.1591 0.00076953 5.2852 0.0035088 663.8951214576948 91.271 1.2233 91.933 91.419 92.642 0.66198 98 62 2 0 0 0 0.91373 1 41933 41933 1.0715 0 1 1499700 + 15673 10785 9999 10022 18035 18035 0.12423707344828472 LEKRKKVKIHY 11 Unmodified _LEKRKKVKIHY_ 0 0 0 ENST00000446606.1_1_9:134116917-134117070:+|nuORF ENST00000446606.1_1_9:134116917-134117070:+|nuORF ENST00000446606.1_1_9:134116917-134117070:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 721.4554443359375 2 721.453728 1440.8929 NaN NaN NaN NaN NaN NaN NaN 92.201 1 92.453 91.953 92.953 0.25253 0 0 0 1.008 1 42387 42387 0.35063 0 1 15674 7977 10000 10023 18036 18036 0.19009242364722923 LEKYLILFV 9 Unmodified _LEKYLILFV_ 0 0 0 REV__nc|ENSG00000100129|Q9Y262-2|EIF3L REV__nc|ENSG00000100129|Q9Y262-2|EIF3L MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.989501953125 2 569.349543 1136.68453 3.8252 0.0021779 1.827 0.0010402 5.6521 0.003218 569.349960319046 106.28 0.12514 106.88 106.81 106.94 0.60075 7 4 2 0 0 0 0.11053 1 49074 49074 4.3292 0 1 123400 + 15675 10806 10001 10024 18037 18037 0.12165820727750543 LEKYRELN 8 Unmodified _LEKYRELN_ 0 0 0 ENSG00000087008|ENST00000356406|ACOX3;nc|ENSG00000087008|O15254-2|ACOX3 ENSG00000087008|ENST00000356406|ACOX3 ENSG00000087008|ENST00000356406|ACOX3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.7921752929688 2 532.790381 1063.56621 2.9128 0.0015519 0.62785 0.00033451 3.5407 0.0018864 532.7906665544203 46.679 0.34074 46.679 46.502 46.842 0 27 12 3 0 0 0 0.4188 1 21427 21427 26.884 0 1 2553400 15676 991 10002 10025 18038 18038 0.03696841471969492 LELKFKLKR 9 Unmodified _LELKFKLKR_ 0 0 0 REV__ENST00000539174.2_1_14:37737866-37745548:+|nuORF REV__ENST00000539174.2_1_14:37737866-37745548:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.888916015625 2 587.887158 1173.75976 NaN NaN NaN NaN NaN NaN NaN 98.261 1 98.556 98.056 99.056 0.29494 0 0 0 0.90611 1 45237 45237 2.0598 0 1 + 15677 12611 10003 10026 18039 18039 0.1798342297884119 LELKKHLL 8 Unmodified _LELKKHLL_ 0 0 0 nc|ENSG00000171169|Q69YI7-2|NAIF1;ENSG00000171169|ENST00000373078|NAIF1 nc|ENSG00000171169|Q69YI7-2|NAIF1 nc|ENSG00000171169|Q69YI7-2|NAIF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.8873291015625 3 331.886694 992.638252 2.1855 0.00072535 0.51649 0.00017142 2.702 0.00089676 331.8868795485883 25.763 0.25102 26.527 26.382 26.633 0.76356 33 14 3 0 0 0 0.59268 1 11600 11600 10.824 0 1 597500 15678 4791 10004 10027 18040 18040 0.14163800616313438 LELKKHLL 8 Unmodified _LELKKHLL_ 0 0 0 nc|ENSG00000171169|Q69YI7-2|NAIF1;ENSG00000171169|ENST00000373078|NAIF1 nc|ENSG00000171169|Q69YI7-2|NAIF1 nc|ENSG00000171169|Q69YI7-2|NAIF1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.2825622558594 2 497.326402 992.638252 3.2366 0.0016096 3.0702 0.0015269 6.3067 0.0031365 497.32606585692486 26.491 0.060295 26.756 26.721 26.781 0.26489 5 3 2 0 0 0 0.083961 1 12027 12027 36.044 0 1 104000 15679 4791 10004 10027 18041 18041 0.14163800616313438 LELKKHLL 8 Unmodified _LELKKHLL_ 0 0 0 nc|ENSG00000171169|Q69YI7-2|NAIF1;ENSG00000171169|ENST00000373078|NAIF1 nc|ENSG00000171169|Q69YI7-2|NAIF1 nc|ENSG00000171169|Q69YI7-2|NAIF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.887451171875 3 331.886694 992.638252 2.1813 0.00072393 0.34809 0.00011553 2.5294 0.00083946 331.88680527099245 25.958 0.31415 26.583 26.438 26.752 0.62505 72 23 4 0 0 0 0.31901 3 11912 11865;11912;11962 39.957 0 1 5011100 15680 4791 10004 10027 18042;18043;18044 18043 0.14163800616313438 LELKKHLL 8 Unmodified _LELKKHLL_ 0 0 0 nc|ENSG00000171169|Q69YI7-2|NAIF1;ENSG00000171169|ENST00000373078|NAIF1 nc|ENSG00000171169|Q69YI7-2|NAIF1 nc|ENSG00000171169|Q69YI7-2|NAIF1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 497.326402 992.638252 3.1605 0.0015718 1.9433 0.00096646 5.1038 0.0025383 497.32672650552274 26.757 0.16076 26.757 26.652 26.813 0 0.080317 0.00023366 NaN 53.576 14 9 2 NaN NaN NaN NaN 0 NaN NaN 0 344290 15681 4791 10004 10027 0.14163800616313438 LELKKHLL 8 Unmodified _LELKKHLL_ 0 0 0 nc|ENSG00000171169|Q69YI7-2|NAIF1;ENSG00000171169|ENST00000373078|NAIF1 nc|ENSG00000171169|Q69YI7-2|NAIF1 nc|ENSG00000171169|Q69YI7-2|NAIF1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 497.326402 992.638252 2.9568 0.0014705 1.509 0.00075044 4.4657 0.0022209 497.32671600905866 25.754 0.20147 26.517 26.431 26.633 0.76356 -0.15931 -0.00019837 NaN 53.576 19 11 2 NaN NaN NaN NaN 0 NaN NaN 0 199890 15682 4791 10004 10027 0.14163800616313438 LELLAQDYKL 10 Unmodified _LELLAQDYKL_ 0 0 0 nc|ENSG00000116688|O95140-2|MFN2;ENSG00000116688|ENST00000235329|MFN2 nc|ENSG00000116688|O95140-2|MFN2 nc|ENSG00000116688|O95140-2|MFN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 402.56549072265625 3 402.564056 1204.67034 2.6531 0.001068 1.1382 0.0004582 3.7913 0.0015263 402.564596583994 35.018 0.29888 35.809 35.661 35.96 0.7907 41 18 3 0 0 0 0.84709 1 15858 15858 3.3196 0.68841 1 275850 15683 2041 10005 10028 18045 18045 0.07619123508811754 LELLAQDYKL 10 Unmodified _LELLAQDYKL_ 0 0 0 nc|ENSG00000116688|O95140-2|MFN2;ENSG00000116688|ENST00000235329|MFN2 nc|ENSG00000116688|O95140-2|MFN2 nc|ENSG00000116688|O95140-2|MFN2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 402.564056 1204.67034 2.5816 0.0010393 1.1292 0.00045458 3.7108 0.0014939 402.5644712074294 36.194 0.26253 36.194 36.034 36.296 0 0.19244 -6.9221E-06 NaN 3.3196 27 12 3 NaN NaN NaN NaN 0 NaN NaN 0 523980 15684 2041 10005 10028 0.07619123508811754 LELLLIRKYI 10 Unmodified _LELLLIRKYI_ 0 0 0 nc|ENSG00000162877|Q6GTS8-2|PM20D1;ENST00000460624.5_1_1:205801865-205819200:-|nuORF;ENSG00000162877|ENST00000367136|PM20D1 nc|ENSG00000162877|Q6GTS8-2|PM20D1 nc|ENSG00000162877|Q6GTS8-2|PM20D1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 637.4157104492188 2 637.415749 1272.81694 NaN NaN NaN NaN NaN NaN NaN 103.65 1 103.65 103.15 104.15 0 0 0 0 1.0001 1 57109 57109 1.6526 0.32309 1 15685 4174 10006 10029 18046 18046 0.19144845464575155 LELLLKQKKF 10 Unmodified _LELLLKQKKF_ 0 0 0 REV__nc|ENSG00000101464|Q9H490-2|PIGU REV__nc|ENSG00000101464|Q9H490-2|PIGU MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 420.2748718261719 3 420.607708 1258.80129 NaN NaN NaN NaN NaN NaN NaN 109.86 1 110.17 109.67 110.67 0.31015 0 0 0 1.0019 1 50636 50636 0.13989 0 1 + 15686 10897 10007 10030 18047 18047 0.18224558947486003 LELLLQEDSRS 11 Unmodified _LELLLQEDSRS_ 0 0 0 ENSG00000179094|ENST00000317276|PER1 ENSG00000179094|ENST00000317276|PER1 ENSG00000179094|ENST00000317276|PER1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 651.849365234375 2 651.848624 1301.6827 NaN NaN NaN NaN NaN NaN NaN 93.019 1 93.019 92.519 93.519 0 0 0 0 1.0041 1 49569 49569 5.2969 0 1 15687 5196 10008 10031 18048 18048 0.04392115181167355 LELLLSYMI 9 Unmodified _LELLLSYMI_ 0 0 0 REV__ENST00000529345.6_1_14:61448346-61550389:+|nuORF REV__ENST00000529345.6_1_14:61448346-61550389:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.5440979003906 3 365.543716 1093.60932 2.605 0.00095225 -0.99328 -0.00036309 1.6117 0.00058916 365.54354735309704 17.018 0.56043 17.679 17.263 17.824 0.66072 105 47 3 0 0 0 1.0755 1 7607 7607 2.7352 2.7352 1 190320 + 15688 17125 10009 10032 18049 18049 0.0662589520502479 LELLLYLLLS 10 Unmodified _LELLLYLLLS_ 0 0 0 REV__ENSG00000125900|ENST00000381623|SIRPD REV__ENSG00000125900|ENST00000381623|SIRPD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 595.4141235351562 2 595.375758 1188.73696 NaN NaN NaN NaN NaN NaN NaN 98.625 1 98.925 98.425 99.425 0.29987 0 0 0 1.0001 1 45464 45464 1.6526 0.17072 1 + 15689 11700 10010 10033 18050 18050 0.1501435907071027 LELLRQLW 8 Unmodified _LELLRQLW_ 0 0 0 nc|ENSG00000116691|Q5JXC2-2|MIIP;ENSG00000116691|ENST00000235332|MIIP nc|ENSG00000116691|Q5JXC2-2|MIIP nc|ENSG00000116691|Q5JXC2-2|MIIP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.21563720703125 3 357.550082 1069.62842 2.5437 0.00090948 1.0579 0.00037825 3.6016 0.0012877 357.55053531429974 49.587 0.28852 50.245 50.085 50.373 0.65735 16 9 2 0 0 0 0.1432 1 22643 22643 0.35063 0 1 308550 15690 2042 10011 10034 18051 18051 0.09638612610956443 LELLVKGP 8 Unmodified _LELLVKGP_ 0 0 0 nc|ENSG00000167613|Q6GTX8-3|LAIR1;nc|ENSG00000167613|Q6GTX8-2|LAIR1 nc|ENSG00000167613|Q6GTX8-3|LAIR1 nc|ENSG00000167613|Q6GTX8-3|LAIR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.7809753417969 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 77.063 1 77.318 76.818 77.818 0.25533 0 0 0 0.99035 1 35487 35487 2.3027 0 1 15691 9739 10012 10035 18052 18052 0.10388447425293634 LELMRELERLR 11 Unmodified _LELMRELERLR_ 0 0 0 REV__nc|ENSG00000197978|A6NEM1-2|GOLGA6L9 REV__nc|ENSG00000197978|A6NEM1-2|GOLGA6L9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.67529296875 3 486.613416 1456.81842 NaN NaN NaN NaN NaN NaN NaN 97.099 1 97.377 96.877 97.877 0.27778 0 0 0 1.0079 1 44601 44601 0.50596 0 1 + 15692 13962 10013 10036 18053 18053 0.1082811149101417 LELPLFVVLLL 11 Unmodified _LELPLFVVLLL_ 0 0 0 ENSG00000177535|ENST00000641149|OR2B11 ENSG00000177535|ENST00000641149|OR2B11 ENSG00000177535|ENST00000641149|OR2B11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 634.6832275390625 2 634.91505 1267.81555 NaN NaN NaN NaN NaN NaN NaN 93.899 1 93.985 93.485 94.485 0.086212 0 0 0 1.0059 1 49294 49294 2.9952 1.3426 1 15693 5121 10014 10037 18054 18054 0.1923521137582611 LELRVKELH 9 Unmodified _LELRVKELH_ 0 0 0 REV__ENSG00000167202|ENST00000300584|TBC1D2B REV__ENSG00000167202|ENST00000300584|TBC1D2B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.8662414550781 3 379.564391 1135.67134 2.4736 0.00093889 -0.039843 -1.5123E-05 2.4337 0.00092376 379.56433169289045 14.416 0.3491 14.642 14.453 14.802 0.22622 50 30 2 0 0 0 0.11393 1 6302 6302 1.0715 0 1 213400 + 15694 13280 10015 10038 18055 18055 0.10893382668359664 LELRVKELH 9 Unmodified _LELRVKELH_ 0 0 0 REV__ENSG00000167202|ENST00000300584|TBC1D2B REV__ENSG00000167202|ENST00000300584|TBC1D2B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 379.564391 1135.67134 2.77 0.0010514 -0.16964 -6.4389E-05 2.6004 0.000987 379.56437967269636 14.918 0.40319 14.918 14.741 15.144 0 0.23271 -1.8213E-05 NaN 2.7352 102 45 3 NaN NaN NaN NaN 0 NaN NaN 0 225030 + 15695 13280 10015 10038 0.10893382668359664 LELRVKELH 9 Unmodified _LELRVKELH_ 0 0 0 REV__ENSG00000167202|ENST00000300584|TBC1D2B REV__ENSG00000167202|ENST00000300584|TBC1D2B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 379.564391 1135.67134 2.5565 0.00097034 -0.5431 -0.00020614 2.0134 0.0007642 379.5643941441912 14.19 0.066271 14.496 14.461 14.527 0.3069 -0.18922 -0.00044347 NaN 2.7352 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 2224000 + 15696 13280 10015 10038 0.10893382668359664 LELSRLQHFYI 11 Unmodified _LELSRLQHFYI_ 0 0 0 ENST00000455762.5_1_4:2025229-2043540:-|nuORF ENST00000455762.5_1_4:2025229-2043540:-|nuORF ENST00000455762.5_1_4:2025229-2043540:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 709.4366455078125 2 709.893169 1417.77178 NaN NaN NaN NaN NaN NaN NaN 58.242 1 59.007 58.507 59.507 0.76499 0 0 0 1.0072 1 26708 26708 1.3295 0.13619 1 15697 8043 10016 10039 18056 18056 0.07960994931386267 LELTTQLTI 9 Unmodified _LELTTQLTI_ 0 0 0 AFF1-ANO6|1|fusion;AFF1-ANO6|2|fusion;nc|ENSG00000177119|Q4KMQ2-3|ANO6;ENSG00000177119|ENST00000320560|ANO6;nc|ENSG00000177119|Q4KMQ2-4|ANO6;nc|ENSG00000177119|Q4KMQ2-2|ANO6 AFF1-ANO6|1|fusion AFF1-ANO6|1|fusion MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.3045654296875 2 516.30279 1030.59103 NaN NaN NaN NaN NaN NaN NaN 37.591 1 37.591 37.091 38.091 0 0 0 0 0.75166 1 17060 17060 10.824 0 1 15698 16 10017 10040 18057 18057 0.07695476554658853 LELVKLLKYIK 11 Unmodified _LELVKLLKYIK_ 0 0 0 HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|10|1|sense HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|10|1|sense HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|10|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 680.7680053710938 2 680.452331 1358.89011 NaN NaN NaN NaN NaN NaN NaN 90.341 1 90.417 89.917 90.917 0.075279 0 0 0 1.0072 1 46530 46530 1.3295 0.9789 1 15699 9416 10018 10041 18058 18058 0.22501974187161977 LELVRGIVLR 10 Unmodified _LELVRGIVLR_ 0 0 0 REV__PTPN13|p.P2038Sfs*15|1|0.05|ENSG00000163629|chr4:86784550-86784551|-/CTCCTCTTCTTTCTTA|frameshift_variant REV__PTPN13|p.P2038Sfs*15|1|0.05|ENSG00000163629|chr4:86784550-86784551|-/CTCCTCTTCTTTCTTA|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1167.6707763671875 1 1167.7572 1166.74993 2.7492 0.0032104 -3.5796 -0.0041801 -0.83037 -0.00096967 1168.756533394485 93.07 0.037247 93.07 93.042 93.08 0 6 5 2 0 0 0 0.12676 1 49604 49604 3.2813 1.2216 1 9435800 + 15700 13012 10019 10042 18059 18059 0.17322234973448758 LELYQLWHD 9 Unmodified _LELYQLWHD_ 0 0 0 ENST00000484909.5_1_2:33707429-33707513:+|nuORF ENST00000484909.5_1_2:33707429-33707513:+|nuORF ENST00000484909.5_1_2:33707429-33707513:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 608.8641357421875 2 608.803488 1215.59242 NaN NaN NaN NaN NaN NaN NaN 97.83 1 98.12 97.62 98.62 0.28923 0 0 0 0.86044 1 44970 44970 7.2892 1.0834 1 15701 8327 10020 10043 18060 18060 -0.0067488935658275295 LEMLRRRLK 9 Unmodified _LEMLRRRLK_ 0 0 0 REV__nc|ENSG00000108395|O94972-2|TRIM37 REV__nc|ENSG00000108395|O94972-2|TRIM37 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 607.8796997070312 2 607.879342 1213.74413 NaN NaN NaN NaN NaN NaN NaN 33.53 1 34.318 33.818 34.818 0.78795 0 0 0 0.89451 1 15173 15173 7.9102 3.1541 1 + 15702 11142 10021 10044 18061 18061 0.14580813190127628 LEMMTCFETN 10 Unmodified _LEMMTCFETN_ 0 0 0 ENSG00000114698|ENST00000354952|PLSCR4 ENSG00000114698|ENST00000354952|PLSCR4 ENSG00000114698|ENST00000354952|PLSCR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 609.7470092773438 2 609.74561 1217.47667 NaN NaN NaN NaN NaN NaN NaN 96.533 1 96.61 96.11 97.11 0.076538 0 0 0 0.99774 1 51327 51327 3.5965 0 1 15703 1919 10022 10045 18062 18062 -0.12337240585588916 LEMNNNKI 8 Unmodified _LEMNNNKI_ 0 0 0 nc|ENSG00000157060|Q9BZQ2-2|SHCBP1L;ENSG00000157060|ENST00000367547|SHCBP1L nc|ENSG00000157060|Q9BZQ2-2|SHCBP1L nc|ENSG00000157060|Q9BZQ2-2|SHCBP1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.2514953613281 2 488.250034 974.485516 3.2423 0.001583 0.18533 9.049E-05 3.4276 0.0016735 488.2500050089314 52.963 0.62182 53.227 53.011 53.633 0.26345 90 43 4 0 0 0 0.56084 1 24301 24301 16.942 1.0951 1 4952200 15704 3937 10023 10046 18063 18063 -0.0027476284260501416 LEMRFRWENNF 11 Unmodified _LEMRFRWENNF_ 0 0 0 nc|ENSG00000115839|Q15042-4|RAB3GAP1;ENSG00000115839|ENST00000264158|RAB3GAP1;nc|ENSG00000115839|Q15042-3|RAB3GAP1 nc|ENSG00000115839|Q15042-4|RAB3GAP1 nc|ENSG00000115839|Q15042-4|RAB3GAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 771.3697509765625 2 771.369535 1540.72452 NaN NaN NaN NaN NaN NaN NaN 105.74 1 106.06 105.56 106.56 0.31782 0 0 0 1.008 1 48809 48809 0.35063 0 1 15705 1994 10024 10047 18064 18064 -0.02421607611267973 LEMVLVRS 8 Unmodified _LEMVLVRS_ 0 0 0 chr5:147850542-147901629|138|20.25|0.11|7.49|-|2|TE_info:MamRep1527,MamRep1527_dup454,LTR,LTR,acceptor,-,147850155,147850542|None,C5orf46|1 chr5:147850542-147901629|138|20.25|0.11|7.49|-|2|TE_info:MamRep1527,MamRep1527_dup454,LTR,LTR,acceptor,-,147850155,147850542|None,C5orf46|1 chr5:147850542-147901629|138|20.25|0.11|7.49|-|2|TE_info:MamRep1527,MamRep1527_dup454,LTR,LTR,acceptor,-,147850155,147850542|None,C5orf46|1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.2752990722656 2 473.773145 945.531738 3.8063 0.0018033 2.9607 0.0014027 6.767 0.003206 473.77531661608487 101.21 0.080048 101.52 101.47 101.55 0.31412 4 2 2 0 0 0 0.14267 1 46846 46846 2.5775 0 1 358330 15706 178 10025 10048 18065 18065 0.05679302059513702 LENISHAVGWL 11 Unmodified _LENISHAVGWL_ 0 0 0 REV__nc|ENSG00000166908|Q8TBX8-2|PIP4K2C REV__nc|ENSG00000166908|Q8TBX8-2|PIP4K2C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.827392578125 2 619.830037 1237.64552 NaN NaN NaN NaN NaN NaN NaN 98.245 1 98.245 97.745 98.745 0 0 0 0 0.94958 1 53738 53738 11.495 1.4208 1 + 15707 13268 10026 10049 18066 18066 0.03620488426076918 LENLVQRRKKR 11 Unmodified _LENLVQRRKKR_ 0 0 0 nc|ENSG00000163126|Q86SG2-2|ANKRD23;ENSG00000163126|ENST00000318357|ANKRD23 nc|ENSG00000163126|Q86SG2-2|ANKRD23 nc|ENSG00000163126|Q86SG2-2|ANKRD23 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 720.4483032226562 2 720.449508 1438.88446 NaN NaN NaN NaN NaN NaN NaN 100.75 1 100.81 100.31 101.31 0.059723 0 0 0 1.0072 1 54686 54686 1.3295 0 1 15708 4195 10027 10050 18067 18067 0.1825768844803406 LEPENEKILDI 11 Unmodified _LEPENEKILDI_ 0 0 0 ENSG00000130254|ENST00000252542|SAFB2;nc|ENSG00000160633|Q15424-2|SAFB;nc|ENSG00000160633|Q15424|SAFB;nc|ENSG00000160633|Q15424-4|SAFB;ENSG00000160633|ENST00000588852|SAFB ENSG00000130254|ENST00000252542|SAFB2;nc|ENSG00000160633|Q15424-2|SAFB ENSG00000130254|ENST00000252542|SAFB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 657.1847534179688 2 656.853375 1311.6922 NaN NaN NaN NaN NaN NaN NaN 76.629 1 76.629 76.129 77.129 0 0 0 0 0.89632 1 37560 37560 16.566 5.0712 1 15709 2580;4069 10028 10051 18068 18068 0.04881883466737236 LEPGVKYSDPC 11 Unmodified _LEPGVKYSDPC_ 0 0 0 ENST00000608405.2_1_21:38640384-38640546:+|nuORF ENST00000608405.2_1_21:38640384-38640546:+|nuORF ENST00000608405.2_1_21:38640384-38640546:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 604.4627075195312 2 604.286814 1206.55907 NaN NaN NaN NaN NaN NaN NaN 96.58 1 96.656 96.156 97.156 0.076538 0 0 0 1.0041 1 51369 51369 5.2969 0.96765 1 15710 9342 10029 10052 18069 18069 -0.03594259190799676 LEPLPGTTGEL 11 Unmodified _LEPLPGTTGEL_ 0 0 0 ENST00000294484.6_2_1:11577566-11579522:+|nuORF ENST00000294484.6_2_1:11577566-11579522:+|nuORF ENST00000294484.6_2_1:11577566-11579522:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.8025512695312 2 563.803154 1125.59175 NaN NaN NaN NaN NaN NaN NaN 43.772 1 44.421 43.921 44.921 0.64872 0 0 0 0.98464 1 20062 20062 8.1555 1.9497 1 15711 6747 10030 10053 18070 18070 0.033982712037413876 LEPPLRWTVRR 11 Unmodified _LEPPLRWTVRR_ 0 0 0 REV__ENSG00000132470|ENST00000200181|ITGB4 REV__ENSG00000132470|ENST00000200181|ITGB4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 711.9204711914062 2 711.920052 1421.82555 NaN NaN NaN NaN NaN NaN NaN 101.62 1 101.62 101.12 102.12 0 0 0 0 1.0041 1 56137 56137 5.2969 1.3525 1 + 15712 11893 10031 10054 18071 18071 0.1315121215372983 LEPQTIESI 9 Unmodified _LEPQTIESI_ 0 0 0 ENSG00000158417|ENST00000289371|EIF5B;EIF5B|p.R914Tfs*7|1|0.08|ENSG00000158417|chr2:99390693-99390694|-/C|frameshift_variant ENSG00000158417|ENST00000289371|EIF5B ENSG00000158417|ENST00000289371|EIF5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.2689208984375 2 515.276772 1028.53899 3.2719 0.0016859 0.61098 0.00031482 3.8828 0.0020007 515.2772477317267 38.132 0.36148 38.765 38.581 38.943 0.63388 27 15 2 0 0 0 0.22507 1 17388 17388 21.747 1.293 1 878830 15713 3986 10032 10055 18072 18072 0.02586313140909624 LEPRRQSL 8 Unmodified _LEPRRQSL_ 0 0 0 chr14:103574170-103584864|143|10.5|0.0|20.0|+|1|TE_info:AluSg,AluSg_dup27341,Alu,SINE,acceptor,+,103584864,103585153|COA8,None|6 chr14:103574170-103584864|143|10.5|0.0|20.0|+|1|TE_info:AluSg,AluSg_dup27341,Alu,SINE,acceptor,+,103584864,103585153|COA8,None|6 chr14:103574170-103584864|143|10.5|0.0|20.0|+|1|TE_info:AluSg,AluSg_dup27341,Alu,SINE,acceptor,+,103584864,103585153|COA8,None|6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.7923889160156 2 499.790715 997.566878 2.9917 0.0014952 0.11001 5.4981E-05 3.1017 0.0015502 499.79065177500667 14.558 0.36756 14.865 14.732 15.1 0.3069 40 26 2 0 0 0 0.67866 1 6590 6590 10.074 3.7198 1 246090 15714 149 10033 10056 18073 18073 0.06799680911672112 LEPRRQSL 8 Unmodified _LEPRRQSL_ 0 0 0 chr14:103574170-103584864|143|10.5|0.0|20.0|+|1|TE_info:AluSg,AluSg_dup27341,Alu,SINE,acceptor,+,103584864,103585153|COA8,None|6 chr14:103574170-103584864|143|10.5|0.0|20.0|+|1|TE_info:AluSg,AluSg_dup27341,Alu,SINE,acceptor,+,103584864,103585153|COA8,None|6 chr14:103574170-103584864|143|10.5|0.0|20.0|+|1|TE_info:AluSg,AluSg_dup27341,Alu,SINE,acceptor,+,103584864,103585153|COA8,None|6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.793212890625 2 499.790715 997.566878 3.3083 0.0016534 0.66639 0.00033305 3.9747 0.0019865 499.7911506678958 14.551 0.34339 15.2 15.142 15.486 0.6482 52 34 2 0 0 0 0.66465 2 6553 6553;6601 7.2892 4.9865 1 627630 15715 149 10033 10056 18074;18075 18074 0.06799680911672112 LEPRRVRVWL 10 Unmodified _LEPRRVRVWL_ 0 0 0 ENST00000264649.10_1_17:40610912-40612943:+|nuORF ENST00000264649.10_1_17:40610912-40612943:+|nuORF ENST00000264649.10_1_17:40610912-40612943:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 662.4505615234375 2 662.404038 1322.79352 NaN NaN NaN NaN NaN NaN NaN 100.52 1 100.52 100.02 101.02 0 0 0 0 1.0001 1 55499 55499 1.6526 0 1 15716 6608 10034 10057 18076 18076 0.1450384447059605 LEPRSLAHR 9 Unmodified _LEPRSLAHR_ 0 0 0 ENST00000490689.3_1_3:157815429-157815600:-|nuORF ENST00000490689.3_1_3:157815429-157815600:-|nuORF ENST00000490689.3_1_3:157815429-157815600:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.552001953125 2 539.809439 1077.60433 NaN NaN NaN NaN NaN NaN NaN 91.077 1 91.077 90.577 91.577 0 0 0 0 0.83378 1 48012 48012 8.1555 2.9249 1 15717 8389 10035 10058 18077 18077 0.0686277217728275 LEPRTLLE 8 Unmodified _LEPRTLLE_ 0 0 0 nc|ENSG00000272391|A8CG34|POM121C;ENSG00000196313|ENST00000434423|POM121 nc|ENSG00000272391|A8CG34|POM121C nc|ENSG00000272391|A8CG34|POM121C MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.8574523925781 3 324.190442 969.549496 2.46 0.00079752 1.1855 0.00038432 3.6455 0.0011818 324.19098658002576 12.658 0.45536 13.301 13.244 13.699 0.64272 22 13 2 0 0 0 0.12371 1 5697 5697 6.2058 0 1 1166100 15718 5732 10036 10059 18078 18078 0.06350340586016046 LEQALRRRE 9 Unmodified _LEQALRRRE_ 0 0 0 nc|ENSG00000177685|Q8N4Y2-2|CRACR2B;ENST00000530688.5_1_11:829331-830866:+|nuORF;nc|ENSG00000177685|Q8N4Y2-3|CRACR2B;ENSG00000177685|ENST00000525077|CRACR2B;ENST00000527763.5_1_11:829331-831706:+|nuORF nc|ENSG00000177685|Q8N4Y2-2|CRACR2B nc|ENSG00000177685|Q8N4Y2-2|CRACR2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.895263671875 3 390.894911 1169.6629 2.9328 0.0011464 -0.49829 -0.00019478 2.4345 0.00095165 390.89461527000486 13.819 0.16785 14.467 14.31 14.477 0.6482 23 13 2 0 0 0 0.27615 1 6170 6170 18.373 0 1 1019100 15719 8715 10037 10060 18079 18079 0.08485828751736335 LEQCRQLYWRR 11 Unmodified _LEQCRQLYWRR_ 0 0 0 nc|ENSG00000204267|Q03519-2|TAP2;ENSG00000204267|ENST00000374897|TAP2 nc|ENSG00000204267|Q03519-2|TAP2 nc|ENSG00000204267|Q03519-2|TAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 775.9046630859375 2 775.904076 1549.7936 NaN NaN NaN NaN NaN NaN NaN 103.41 1 103.47 102.97 103.97 0.055092 0 0 0 1.008 1 56067 56067 0.35063 0 1 15720 5996 10038 10061 18080 18080 0.04069476408290029 LEQFLQQELL 10 Unmodified _LEQFLQQELL_ 0 0 0 ENSG00000099817|ENST00000615234|POLR2E;ENST00000586817.5_1_19:1089487-1094188:-|nuORF ENSG00000099817|ENST00000615234|POLR2E ENSG00000099817|ENST00000615234|POLR2E MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 630.8479614257812 2 630.845353 1259.67615 NaN NaN NaN NaN NaN NaN NaN 100 1 100 99.5 100.5 0 0 0 0 0.96201 1 55112 55112 11.495 0.6952 1 15721 1154 10039 10062 18081 18081 0.05670222020489746 LEQKRNLLS 9 Unmodified _LEQKRNLLS_ 0 0 0 ENST00000515773.5_1_6:43164260-43192180:+|nuORF;nc|ENSG00000112659|Q8IWT3-3|CUL9;ENSG00000112659|ENST00000252050|CUL9 ENST00000515773.5_1_6:43164260-43192180:+|nuORF ENST00000515773.5_1_6:43164260-43192180:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.8268432617188 2 550.824755 1099.63496 3.439 0.0018943 0.50478 0.00027805 3.9438 0.0021723 550.8251216467395 25.58 0.20165 26.205 26.091 26.293 0.62505 37 21 2 0 0 0 0.136 1 11748 11748 27.629 1.3607 1 642840 15722 1816 10040 10063 18082 18082 0.0891250577167284 LEQKWKWLKML 11 Unmodified _LEQKWKWLKML_ 0 0 0 ENST00000455833.6_2_1:19230994-19231414:-|nuORF ENST00000455833.6_2_1:19230994-19231414:-|nuORF ENST00000455833.6_2_1:19230994-19231414:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.62225341796875 3 501.623252 1501.84793 NaN NaN NaN NaN NaN NaN NaN 47.21 1 47.21 46.71 47.71 0 0 0 0 1.0071 1 21611 21611 0.50596 0 1 15723 8045 10041 10064 18083 18083 0.11707675507136628 LEQLRLYLNNL 11 Unmodified _LEQLRLYLNNL_ 0 0 0 REV__nc|ENSG00000171777|Q8TDF6-7|RASGRP4 REV__nc|ENSG00000171777|Q8TDF6-7|RASGRP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 694.6935424804688 2 694.898451 1387.78235 NaN NaN NaN NaN NaN NaN NaN 97.26 1 97.331 96.831 97.831 0.070648 0 0 0 1.0059 1 51943 51943 2.9952 0.26005 1 + 15724 13514 10042 10065 18084 18084 0.10396977585810419 LEQRIQEQ 8 Unmodified _LEQRIQEQ_ 0 0 0 nc|ENSG00000127914|Q99996-5|AKAP9;nc|ENSG00000127914|Q99996-3|AKAP9;ENSG00000127914|ENST00000356239|AKAP9;nc|ENSG00000127914|Q99996-1|AKAP9;nc|ENSG00000127914|Q99996-6|AKAP9 nc|ENSG00000127914|Q99996-5|AKAP9 nc|ENSG00000127914|Q99996-5|AKAP9 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.5618591308594 3 348.520851 1042.54072 1.9037 0.00066347 -1.9084 -0.00066513 -0.0047815 -1.6665E-06 348.5200456352664 12.945 0.16081 13.252 13.159 13.32 0.30727 9 5 2 0 0 0 0.13785 1 5824 5824 8.7454 0 1 194730 15725 2491 10043 10066 18085 18085 0.021153669495106442 LEQRKKRWMA 10 Unmodified _LEQRKKRWMA_ 0 0 0 REV__ENST00000577218.1_1_17:27696748-27696895:-|nuORF REV__ENST00000577218.1_1_17:27696748-27696895:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 673.3809204101562 2 673.379706 1344.74486 NaN NaN NaN NaN NaN NaN NaN 94.453 1 94.539 94.039 95.039 0.086212 0 0 0 0.99812 1 49698 49698 3.2813 0 1 + 15726 17480 10044 10067 18086 18086 0.08627607839207485 LEQRRRQHVLH 11 Unmodified _LEQRRRQHVLH_ 0 0 0 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 736.4234008789062 2 736.421282 1470.82801 NaN NaN NaN NaN NaN NaN NaN 83.262 1 83.307 82.807 83.807 0.045006 0 0 0 1.0047 1 41280 41280 4.5289 1.5336 1 + 15727 12335 10045 10068 18087 18087 0.11143060611425426 LEQRYKREIFR 11 Unmodified _LEQRYKREIFR_ 0 0 0 REV__nc|ENSG00000113360|Q9NRR4-2|DROSHA REV__nc|ENSG00000113360|Q9NRR4-2|DROSHA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 769.4365234375 2 769.433524 1536.85249 NaN NaN NaN NaN NaN NaN NaN 98.205 1 98.494 97.994 98.994 0.28923 0 0 0 1.0073 1 45201 45201 2.9952 2.6446 1 + 15728 11297 10046 10069 18088 18088 0.10554275974277516 LEQSLRLSL 9 Unmodified _LEQSLRLSL_ 0 0 0 REV__ENST00000482413.1_1_22:30769890-30772445:+|nuORF REV__ENST00000482413.1_1_22:30769890-30772445:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.8152465820312 2 529.813856 1057.61316 3.2247 0.0017085 0.64907 0.00034389 3.8738 0.0020524 529.814144726789 28.561 0.32651 29.18 28.972 29.299 0.61947 32 17 2 0 0 0 0.091193 1 13096 13096 18.146 0 1 349270 + 15729 16712 10047 10070 18089 18089 0.08665701023096517 LEQSRPRL 8 Unmodified _LEQSRPRL_ 0 0 0 nc|ENSG00000198758|Q8TE67-3|EPS8L3 nc|ENSG00000198758|Q8TE67-3|EPS8L3 nc|ENSG00000198758|Q8TE67-3|EPS8L3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.7923583984375 2 499.790715 997.566878 3.1005 0.0015496 0.3558 0.00017783 3.4563 0.0017274 499.79082660182 17.599 0.29828 17.599 17.475 17.773 0 34 18 2 0 0 0 0.68959 1 7867 7867 2.3027 0 1 255010 15730 9810 10048 10071 18090 18090 0.06799680911672112 LEQVRLHWWWP 11 Unmodified _LEQVRLHWWWP_ 0 0 0 REV__ENST00000462349.5_1_21:44473992-44479496:-|nuORF REV__ENST00000462349.5_1_21:44473992-44479496:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 775.4059448242188 2 775.406778 1548.799 NaN NaN NaN NaN NaN NaN NaN 50.589 1 51.407 50.907 51.907 0.81738 0 0 0 1.008 1 23042 23042 0.35063 0.043601 1 + 15731 12865 10049 10072 18091 18091 0.046555232624086784 LERAGRRRREW 11 Unmodified _LERAGRRRREW_ 0 0 0 ENST00000332298.9_1_20:62708281-62711274:-|nuORF ENST00000332298.9_1_20:62708281-62711274:-|nuORF ENST00000332298.9_1_20:62708281-62711274:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 742.92041015625 2 742.918907 1483.82326 NaN NaN NaN NaN NaN NaN NaN 71.305 1 72.009 71.509 72.509 0.70386 0 0 0 1.0059 1 34238 34238 2.9952 0 1 15732 6997 10050 10073 18092 18092 0.10070176468639147 LERANIYL 8 Unmodified _LERANIYL_ 0 0 0 REV__ENSG00000102837|ENST00000219022|OLFM4 REV__ENSG00000102837|ENST00000219022|OLFM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.19097900390625 3 331.190553 990.549831 NaN NaN NaN NaN NaN NaN NaN 87.641 1 87.892 87.392 88.392 0.25064 0 0 0 0.99035 1 40333 40333 1.6526 0 1 + 15733 10944 10051 10074 18093 18093 0.05417760305840602 LERARAAEQL 10 Unmodified _LERARAAEQL_ 0 0 0 REV__ENSG00000107816|ENST00000454422|LZTS2 REV__ENSG00000107816|ENST00000454422|LZTS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.8270874023438 2 578.825286 1155.63602 NaN NaN NaN NaN NaN NaN NaN 22.636 1 22.917 22.417 23.417 0.28085 0 0 0 0.31692 1 10217 10217 37.075 0.56844 1 + 15734 11123 10052 10075 18094 18094 0.06442720140557867 LERDKLLRFRK 11 Unmodified _LERDKLLRFRK_ 0 0 0 nc|ENSG00000188385|Q5VZ66|JAKMIP3;ENSG00000188385|ENST00000684848|JAKMIP3 nc|ENSG00000188385|Q5VZ66|JAKMIP3 nc|ENSG00000188385|Q5VZ66|JAKMIP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 737.4857788085938 2 737.454259 1472.89397 NaN NaN NaN NaN NaN NaN NaN 104.82 1 104.82 104.32 105.32 0 0 0 0 1.008 1 57645 57645 0.35063 0 1 15735 5667 10053 10076 18095 18095 0.17643456733571838 LERELWTRLRR 11 Unmodified _LERELWTRLRR_ 0 0 0 REV__AMOTL1|p.Y691Sfs*12|1|0.22|ENSG00000166025|chr11:94859652-94859652|A/-|frameshift_variant REV__AMOTL1|p.Y691Sfs*12|1|0.22|ENSG00000166025|chr11:94859652-94859652|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 764.4485473632812 2 764.446966 1526.87938 NaN NaN NaN NaN NaN NaN NaN 105.58 1 105.63 105.13 106.13 0.050888 0 0 0 1.008 1 57130 57130 0.35063 0 1 + 15736 9960 10054 10077 18096 18096 0.1370138458544261 LERENKKL 8 Unmodified _LERENKKL_ 0 0 0 ENSG00000135736|ENST00000258214|CCDC102A ENSG00000135736|ENST00000258214|CCDC102A ENSG00000135736|ENST00000258214|CCDC102A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.8237915039062 2 515.306198 1028.59784 NaN NaN NaN NaN NaN NaN NaN 12.563 1 13.206 12.706 13.706 0.64272 0 0 0 0.88162 1 5639 5639 13.508 0 1 15737 2892 10055 10078 18097 18097 0.08468834225891442 LERFMCLLC 9 Unmodified _LERFMCLLC_ 0 0 0 ENST00000490191.5_1_6:33240007-33240325:+|nuORF ENST00000490191.5_1_6:33240007-33240325:+|nuORF ENST00000490191.5_1_6:33240007-33240325:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.276123046875 2 564.274141 1126.53373 NaN NaN NaN NaN NaN NaN NaN 92.929 1 93.015 92.515 93.515 0.086212 0 0 0 0.86044 1 48560 48560 7.2892 2.5332 1 15738 8386 10056 10079 18098 18098 -0.024477285185412256 LERGRTYMYP 10 Unmodified _LERGRTYMYP_ 0 0 0 REV__ENSG00000277758|ENST00000615923|SYT15B REV__ENSG00000277758|ENST00000615923|SYT15B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.369873046875 2 643.321522 1284.62849 NaN NaN NaN NaN NaN NaN NaN 95.506 1 95.506 95.006 96.006 0 0 0 0 0.99572 1 51440 51440 5.2969 0 1 + 15739 14402 10057 10080 18099 18099 -0.0024375545135626453 LERHLHLM 8 Unmodified _LERHLHLM_ 0 0 0 ENSG00000185875|ENST00000376356|THNSL1 ENSG00000185875|ENST00000376356|THNSL1 ENSG00000185875|ENST00000376356|THNSL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.7894287109375 2 524.789661 1047.56477 3.1876 0.0016728 -1.1588 -0.00060814 2.0287 0.0010647 524.7891471281122 15.047 0.71034 15.047 14.783 15.494 0 164 79 3 0 0 0 0.72814 1 6703 6703 0.6015 0 1 222920 15740 5537 10058 10081 18100 18100 0.042889289022014054 LERKLKKVRLR 11 Unmodified _LERKLKKVRLR_ 0 0 0 REV__nc|ENSG00000151718|Q6AWC2-5|WWC2 REV__nc|ENSG00000151718|Q6AWC2-5|WWC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 719.9898681640625 2 719.988269 1437.96199 NaN NaN NaN NaN NaN NaN NaN 62.139 1 62.799 62.299 63.299 0.66008 0 0 0 1.0082 1 28471 28471 0 0 1 + 15741 12627 10059 10082 18101 18101 0.2605232638427424 LERLEKNEL 9 Unmodified _LERLEKNEL_ 0 0 0 REV__ENSG00000052723|ENST00000060969|SIKE1 REV__ENSG00000052723|ENST00000060969|SIKE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.323486328125 2 572.322045 1142.62954 NaN NaN NaN NaN NaN NaN NaN 54.055 1 54.32 53.82 54.82 0.26462 0 0 0 0.88916 1 24718 24718 6.2058 0 1 + 15742 10355 10060 10083 18102 18102 0.06392782189186619 LERLIPVIRTN 11 Unmodified _LERLIPVIRTN_ 0 0 0 REV__nc|ENSG00000118690|Q8NEN0-2|ARMC2 REV__nc|ENSG00000118690|Q8NEN0-2|ARMC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.9414367675781 3 441.94175 1322.80342 NaN NaN NaN NaN NaN NaN NaN 55.194 1 55.46 54.96 55.96 0.26543 0 0 0 1.0055 1 25236 25236 3.5927 2.3778 1 + 15743 11478 10061 10084 18103 18103 0.15492987685320259 LERLKRRIE 9 Unmodified _LERLKRRIE_ 0 0 0 REV__ENSG00000166681|ENST00000361298|BEX3 REV__ENSG00000166681|ENST00000361298|BEX3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.9245300292969 3 404.922689 1211.74624 2.7882 0.001129 -0.047246 -1.9131E-05 2.7409 0.0011099 404.9228642917063 17.758 0.1041 18.06 18.007 18.111 0.30159 11 8 2 0 0 0 1.152 1 8054 8054 0.77653 0 1 73408 + 15744 13254 10062 10085 18104 18104 0.14883565199579607 LERLQATLSL 10 Unmodified _LERLQATLSL_ 0 0 0 nc|ENSG00000167612|Q7Z3H0-1|ANKRD33;ENSG00000167612|ENST00000301190|ANKRD33 nc|ENSG00000167612|Q7Z3H0-1|ANKRD33 nc|ENSG00000167612|Q7Z3H0-1|ANKRD33 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.9234619140625 2 572.340238 1142.66592 NaN NaN NaN NaN NaN NaN NaN 93.098 1 93.184 92.684 93.684 0.086212 0 0 0 0.99572 1 48697 48697 5.2969 0.39987 1 15745 9738 10063 10086 18105 18105 0.10029659085921594 LERLREAQR 9 Unmodified _LERLREAQR_ 0 0 0 nc|ENSG00000104880|Q6ZSZ5-2|ARHGEF18;nc|ENSG00000104880|Q6ZSZ5-1|ARHGEF18;nc|ENSG00000104880|Q6ZSZ5-6|ARHGEF18;nc|ENSG00000104880|Q6ZSZ5-5|ARHGEF18;ENSG00000104880|ENST00000668164|ARHGEF18 nc|ENSG00000104880|Q6ZSZ5-2|ARHGEF18 nc|ENSG00000104880|Q6ZSZ5-2|ARHGEF18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 390.89581298828125 3 390.894911 1169.6629 2.5177 0.00098417 -0.4857 -0.00018986 2.032 0.00079431 390.8948689205197 14.165 0.21817 14.391 14.299 14.517 0.22622 33 18 3 0 0 0 0.21127 1 6211 6211 22.658 0 1 348460 15746 1456 10064 10087 18106 18106 0.08485828751759072 LERLRELGVQP 11 Unmodified _LERLRELGVQP_ 0 0 0 nc|ENSG00000133116|Q9UEF7-2|KL;ENSG00000133116|ENST00000380099|KL nc|ENSG00000133116|Q9UEF7-2|KL nc|ENSG00000133116|Q9UEF7-2|KL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 655.384521484375 2 655.382968 1308.75138 4.1189 0.0026995 -0.65052 -0.00042634 3.4684 0.0022731 655.3822800861057 91.255 1.3304 91.917 91.214 92.545 0.66198 143 67 3 0 0 0 0.91137 1 42103 42103 2.7352 2.7352 1 1736400 15747 2750 10065 10088 18107 18107 0.10935824271564343 LERLRQRQRQK 11 Unmodified _LERLRQRQRQK_ 0 0 0 REV__ENSG00000167548|ENST00000301067|KMT2D REV__ENSG00000167548|ENST00000301067|KMT2D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 755.95263671875 2 755.955489 1509.89643 NaN NaN NaN NaN NaN NaN NaN 91.747 1 91.83 91.33 92.33 0.082848 0 0 0 1.008 1 47635 47635 0.35063 0 1 + 15748 13292 10066 10089 18108 18108 0.1618730519123801 LERMHTFHVLL 11 Unmodified _LERMHTFHVLL_ 0 0 0 REV__ENST00000562829.1_1_16:24741141-24788302:+|nuORF REV__ENST00000562829.1_1_16:24741141-24788302:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 698.2999877929688 2 698.381914 1394.74928 NaN NaN NaN NaN NaN NaN NaN 38.929 1 38.929 38.429 39.429 0 0 0 0 1.0059 1 17668 17668 2.9952 0.26005 1 + 15749 17385 10067 10090 18109 18109 0.06769072262113696 LERNDKLWL 9 Unmodified _LERNDKLWL_ 0 0 0 REV__nc|ENSG00000091129|Q92823-3|NRCAM REV__nc|ENSG00000091129|Q92823-3|NRCAM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 396.2247619628906 3 396.224146 1185.65061 3.0002 0.0011888 -0.50527 -0.0002002 2.495 0.00098856 396.22392469595997 36.586 0.28981 36.844 36.673 36.963 0.25768 22 10 3 0 0 0 0.11155 1 16644 16644 29.841 7.0656 1 681890 + 15750 10727 10068 10091 18110 18110 0.06520792288711164 LERNDKLWL 9 Unmodified _LERNDKLWL_ 0 0 0 REV__nc|ENSG00000091129|Q92823-3|NRCAM REV__nc|ENSG00000091129|Q92823-3|NRCAM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 396.2247314453125 3 396.224146 1185.65061 2.9868 0.0011834 0.042192 1.6717E-05 3.029 0.0012002 396.22398193414267 35.938 0.23506 36.565 36.46 36.695 0.62631 13 7 2 0 0 0 0.15661 1 16477 16477 26.268 4.678 1 505100 + 15751 10727 10068 10091 18111 18111 0.06520792288711164 LERNDKLWL 9 Unmodified _LERNDKLWL_ 0 0 0 REV__nc|ENSG00000091129|Q92823-3|NRCAM REV__nc|ENSG00000091129|Q92823-3|NRCAM MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 396.224146 1185.65061 3.0002 0.0011888 -0.50527 -0.0002002 2.495 0.00098856 396.22392469595997 36.586 0.28981 36.844 36.673 36.963 0.25768 0.13949 -0.00014831 NaN 29.841 22 10 3 NaN NaN NaN NaN 0 NaN NaN 0 681890 + 15752 10727 10068 10091 0.06520792288711164 LERNDKLWL 9 Unmodified _LERNDKLWL_ 0 0 0 REV__nc|ENSG00000091129|Q92823-3|NRCAM REV__nc|ENSG00000091129|Q92823-3|NRCAM MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 396.224146 1185.65061 2.9868 0.0011834 0.042192 1.6717E-05 3.029 0.0012002 396.22398193414267 35.938 0.23506 36.565 36.46 36.695 0.62631 -0.13949 0.00050244 NaN 29.841 13 7 2 NaN NaN NaN NaN 0 NaN NaN 0 505100 + 15753 10727 10068 10091 0.06520792288711164 LERNPLRIRK 10 Unmodified _LERNPLRIRK_ 0 0 0 REV__ENSG00000172071|ENST00000303236|EIF2AK3 REV__ENSG00000172071|ENST00000303236|EIF2AK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.9076538085938 2 647.906945 1293.79934 NaN NaN NaN NaN NaN NaN NaN 34.262 1 34.262 33.762 34.762 0 0 0 0 0.99774 1 15529 15529 3.5965 0.60125 1 + 15754 13536 10069 10092 18112 18112 0.16418942982249973 LERNREYTYQW 11 Unmodified _LERNREYTYQW_ 0 0 0 nc|ENSG00000133640|Q96JM4-2|LRRIQ1;ENSG00000133640|ENST00000393217|LRRIQ1;ENST00000528777.3_1_12:85556565-85656835:+|nuORF nc|ENSG00000133640|Q96JM4-2|LRRIQ1 nc|ENSG00000133640|Q96JM4-2|LRRIQ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 779.3793334960938 2 779.375872 1556.73719 NaN NaN NaN NaN NaN NaN NaN 103.79 1 103.79 103.29 104.29 0 0 0 0 1.0072 1 57174 57174 1.3295 0.9789 1 15755 2766 10070 10093 18113 18113 -0.018908729473650965 LERNRFRPF 9 Unmodified _LERNRFRPF_ 0 0 0 REV__nc|ENSG00000091490|Q68CR1-3|SEL1L3 REV__nc|ENSG00000091490|Q68CR1-3|SEL1L3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.23297119140625 3 412.231634 1233.67307 3.005 0.0012388 0.13883 5.7231E-05 3.1438 0.001296 412.2316744805728 29.054 0.32609 29.314 29.164 29.49 0.2602 48 21 3 0 0 0 0.96953 1 13263 13263 4.5289 0.33936 1 620030 + 15756 10733 10071 10094 18114 18114 0.06558436476962015 LERPSKLSIEA 11 Unmodified _LERPSKLSIEA_ 0 0 0 REV__ENSG00000203867|ENST00000369519|RBM20 REV__ENSG00000203867|ENST00000369519|RBM20 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 621.7924194335938 2 621.856252 1241.69795 NaN NaN NaN NaN NaN NaN NaN 92.926 1 92.926 92.426 93.426 0 0 0 0 1.0047 1 49496 49496 4.5289 0 1 + 15757 14392 10072 10095 18115 18115 0.08677026769078111 LERQELESL 9 Unmodified _LERQELESL_ 0 0 0 ENSG00000171060|ENST00000304519|C8orf74 ENSG00000171060|ENST00000304519|C8orf74 ENSG00000171060|ENST00000304519|C8orf74 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.300537109375 2 558.798403 1115.58225 3.3721 0.0018843 -1.8371 -0.0010266 1.535 0.00085777 558.7983418275637 53.726 0.35902 54.391 54.132 54.491 0.6644 27 19 2 0 0 0 0.099775 1 24566 24566 32.786 2.9451 1 685410 15758 4785 10073 10096 18116 18116 0.029085029181942446 LERQLAEYLL 10 Unmodified _LERQLAEYLL_ 0 0 0 REV__ENSG00000283632|ENST00000413988|EXOC3L2 REV__ENSG00000283632|ENST00000413988|EXOC3L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 623.9141235351562 2 624.353345 1246.69214 NaN NaN NaN NaN NaN NaN NaN 96.167 1 96.167 95.667 96.667 0 0 0 0 0.99464 1 51973 51973 6.2058 0.9089 1 + 15759 14768 10074 10097 18117 18117 0.0786592825736534 LERQRSSKIKV 11 Unmodified _LERQRSSKIKV_ 0 0 0 REV__ENSG00000126107|ENST00000372172|HECTD3 REV__ENSG00000126107|ENST00000372172|HECTD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 672.41015625 2 672.409518 1342.80448 NaN NaN NaN NaN NaN NaN NaN 105.52 1 105.84 105.34 106.34 0.31782 0 0 0 1.0073 1 48708 48708 2.9952 0 1 + 15760 11704 10075 10098 18118 18118 0.14679202054207963 LERRIRKIKV 10 Unmodified _LERRIRKIKV_ 0 0 0 REV__ENST00000485662.1_1_1:79125005-79128426:+|nuORF REV__ENST00000485662.1_1_1:79125005-79128426:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 656.2329711914062 2 655.940788 1309.86702 NaN NaN NaN NaN NaN NaN NaN 79.81 1 80.13 79.63 80.63 0.31998 0 0 0 1.0015 1 38996 38996 0.45834 0 1 + 15761 12137 10076 10099 18119 18119 0.22448392913065618 LERRLKLL 8 Unmodified _LERRLKLL_ 0 0 0 REV__nc|ENSG00000002079|Q9H6N6|MYH16 REV__nc|ENSG00000002079|Q9H6N6|MYH16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.570068359375 3 347.569476 1039.6866 2.3769 0.00082615 0.2939 0.00010215 2.6708 0.0009283 347.56959905136927 28.58 0.31158 29.199 29.026 29.337 0.61947 35 15 3 0 0 0 0.58952 1 13081 13081 14.838 0 1 394710 + 15762 17848 10077 10100 18120 18120 0.16834294256227622 LERRLKRIE 9 Unmodified _LERRLKRIE_ 0 0 0 REV__nc|ENSG00000166833|Q8IVL1-8|NAV2 REV__nc|ENSG00000166833|Q8IVL1-8|NAV2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.9240417480469 3 404.922689 1211.74624 2.7776 0.0011247 -0.3309 -0.00013399 2.4467 0.00099072 404.922643054248 13.026 0.23927 13.026 12.929 13.168 0 47 12 5 0 0 0 0.076469 1 5665 5665 36.395 9.3066 1 23100000 + 15763 18028 10078 10101 18121 18121 0.14883565199625082 LERRLKRIE 9 Unmodified _LERRLKRIE_ 0 0 0 REV__nc|ENSG00000166833|Q8IVL1-8|NAV2 REV__nc|ENSG00000166833|Q8IVL1-8|NAV2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.2578430175781 3 404.922689 1211.74624 3.2689 0.0013237 -0.3399 -0.00013763 2.929 0.001186 404.92265759700285 12.55 0.12288 13.193 13.121 13.244 0.64272 10 3 4 0 0 0 0.04013 1 5647 5647 55.249 1.9319 1 62422000 + 15764 18028 10078 10101 18122 18122 0.14883565199625082 LERRLRSL 8 Unmodified _LERRLRSL_ 0 0 0 REV__ENST00000394464.6_1_5:142780416-142782924:-|nuORF REV__ENST00000394464.6_1_5:142780416-142782924:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.20806884765625 3 348.220847 1041.64071 2.5638 0.00089278 0.49711 0.0001731 3.0609 0.0010659 348.2209848228271 43.231 0.068123 43.88 43.851 43.919 0.64872 4 2 2 0 0 0 0.14304 1 19807 19807 0.45834 0 1 109410 + 15765 15968 10079 10102 18123 18123 0.12155649073997665 LERRRKKARL 10 Unmodified _LERRRKKARL_ 0 0 0 nc|ENSG00000198089|A8K8P3-2|SFI1;ENSG00000198089|ENST00000400288|SFI1;nc|ENSG00000198089|A8K8P3-4|SFI1;nc|ENSG00000198089|A8K8P3-10|SFI1;nc|ENSG00000198089|A8K8P3-3|SFI1;nc|ENSG00000198089|A8K8P3-9|SFI1;ENST00000382162.7_1_22:32002284-32014401:+|nuORF nc|ENSG00000198089|A8K8P3-2|SFI1 nc|ENSG00000198089|A8K8P3-2|SFI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 663.4525756835938 2 663.433661 1324.85277 NaN NaN NaN NaN NaN NaN NaN 90.502 1 90.502 90.002 91.002 0 0 0 0 1.0012 1 47587 47587 1.6526 0.17072 1 15766 5867 10080 10103 18124 18124 0.20333740484784357 LERRRKRRHQK 11 Unmodified _LERRRKRRHQK_ 0 0 0 ENST00000233379.8_1_2:96079888-96080107:+|nuORF ENST00000233379.8_1_2:96079888-96080107:+|nuORF ENST00000233379.8_1_2:96079888-96080107:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.9932250976562 3 521.657341 1561.95019 3.0128 0.0015716 -0.14648 -7.6413E-05 2.8663 0.0014952 521.6572458130219 54.833 0.32397 55.628 55.477 55.801 0.79552 42 20 3 0 0 0 0.91391 1 24971 24971 0.08335 0.08335 1 5490600 15767 6450 10081 10104 18125 18125 0.19169522413631057 LERRRRKAQRR 11 Unmodified _LERRRRKAQRR_ 0 0 0 nc|ENSG00000196557|O95180-2|CACNA1H nc|ENSG00000196557|O95180-2|CACNA1H nc|ENSG00000196557|O95180-2|CACNA1H MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 762.9586791992188 2 762.974548 1523.93454 NaN NaN NaN NaN NaN NaN NaN 72.806 1 73.505 73.005 74.005 0.69881 0 0 0 1.008 1 35076 35076 0.35063 0.043601 1 15768 9799 10082 10105 18126 18126 0.19353235896574006 LERSLKNL 8 Unmodified _LERSLKNL_ 0 0 0 ENSG00000187134|ENST00000380872|AKR1C1;ENSG00000151632|ENST00000380753|AKR1C2;nc|ENSG00000151632|P52895-2|AKR1C2;ENST00000460124.5_1_10:5042672-5046051:-|nuORF;ENST00000477661.1_1_10:5005492-5009304:+|nuORF ENSG00000187134|ENST00000380872|AKR1C1 ENSG00000187134|ENST00000380872|AKR1C1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 324.8671875 3 324.86607 971.57638 2.2089 0.0007176 -0.079333 -2.5773E-05 2.1296 0.00069183 324.8659568853003 26.052 0.25428 26.815 26.692 26.946 0.76356 28 15 2 0 0 0 0.68959 1 11672 11672 6.7232 0 1 552960 15769 3720 10083 10106 18127 18127 0.08945449197187827 LERSLKNL 8 Unmodified _LERSLKNL_ 0 0 0 ENSG00000187134|ENST00000380872|AKR1C1;ENSG00000151632|ENST00000380753|AKR1C2;nc|ENSG00000151632|P52895-2|AKR1C2;ENST00000460124.5_1_10:5042672-5046051:-|nuORF;ENST00000477661.1_1_10:5005492-5009304:+|nuORF ENSG00000187134|ENST00000380872|AKR1C1 ENSG00000187134|ENST00000380872|AKR1C1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.86688232421875 3 324.86607 971.57638 2.3504 0.00076358 0.20831 6.7673E-05 2.5587 0.00083125 324.86609061776124 26.67 0.27682 26.934 26.793 27.07 0.26489 48 18 3 0 0 0 0.68959 1 12151 12151 6.7232 0 1 1423800 15770 3720 10083 10106 18128 18128 0.08945449197187827 LERSLKNL 8 Unmodified _LERSLKNL_ 0 0 0 ENSG00000187134|ENST00000380872|AKR1C1;ENSG00000151632|ENST00000380753|AKR1C2;nc|ENSG00000151632|P52895-2|AKR1C2;ENST00000460124.5_1_10:5042672-5046051:-|nuORF;ENST00000477661.1_1_10:5005492-5009304:+|nuORF ENSG00000187134|ENST00000380872|AKR1C1 ENSG00000187134|ENST00000380872|AKR1C1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.8665771484375 3 324.86607 971.57638 2.1024 0.00068301 0.63069 0.00020489 2.7331 0.0008879 324.8661904661507 26.293 0.25982 26.918 26.787 27.047 0.62505 35 14 3 0 0 0 0.68959 1 12093 12093 6.7232 0 1 1030300 15771 3720 10083 10106 18129 18129 0.08945449197187827 LERSLNRVH 9 Unmodified _LERSLNRVH_ 0 0 0 ENSG00000106028|ENST00000265304|SSBP1;ENST00000489378.5_1_7:141438966-141445458:+|nuORF ENSG00000106028|ENST00000265304|SSBP1 ENSG00000106028|ENST00000265304|SSBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.362060546875 2 562.320171 1122.62579 NaN NaN NaN NaN NaN NaN NaN 88.094 1 88.144 87.644 88.644 0.049263 0 0 0 0.77475 1 44790 44790 10.074 1.4806 1 15772 1550 10084 10107 18130 18130 0.06938157206013784 LERWKQRMILE 11 Unmodified _LERWKQRMILE_ 0 0 0 ENST00000467391.1_1_20:17950715-17968822:+|nuORF;ENSG00000125871|ENST00000377710|MGME1 ENST00000467391.1_1_20:17950715-17968822:+|nuORF ENST00000467391.1_1_20:17950715-17968822:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 751.4192504882812 2 751.419028 1500.8235 NaN NaN NaN NaN NaN NaN NaN 91.506 1 91.589 91.089 92.089 0.082848 0 0 0 1.008 1 47442 47442 0.35063 0 1 15773 2430 10085 10108 18131 18131 0.09312415353656434 LERYEEDSK 9 Unmodified _LERYEEDSK_ 0 0 0 REV__ENSG00000055163|ENST00000620254|CYFIP2 REV__ENSG00000055163|ENST00000620254|CYFIP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.7726440429688 2 584.777667 1167.54078 NaN NaN NaN NaN NaN NaN NaN 86.085 1 86.085 85.585 86.585 0 0 0 0 0.87786 1 44026 44026 6.7232 0.51738 1 + 15774 10369 10086 10109 18132 18132 -0.03628677841152239 LERYMRLWLWL 11 Unmodified _LERYMRLWLWL_ 0 0 0 REV__ENST00000396846.7_1_16:3443810-3447235:-|nuORF REV__ENST00000396846.7_1_16:3443810-3447235:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 789.9965209960938 2 789.934314 1577.85407 NaN NaN NaN NaN NaN NaN NaN 90.378 1 90.378 89.878 90.878 0 0 0 0 1.008 1 47478 47478 0.35063 0.35063 1 + 15775 16008 10087 10110 18133 18133 0.0882619373869602 LESAIKAWHG 10 Unmodified _LESAIKAWHG_ 0 0 0 REV__ENSG00000165684|ENST00000684778|SNAPC4 REV__ENSG00000165684|ENST00000684778|SNAPC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.5238647460938 2 556.298373 1110.58219 NaN NaN NaN NaN NaN NaN NaN 96.25 1 96.25 95.75 96.75 0 0 0 0 0.9952 1 52041 52041 5.7319 0 1 + 15776 13180 10088 10111 18134 18134 0.031325477088330445 LESEILKRYKR 11 Unmodified _LESEILKRYKR_ 0 0 0 REV__ENSG00000177294|ENST00000321535|FBXO39 REV__ENSG00000177294|ENST00000321535|FBXO39 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 717.927490234375 2 717.925 1433.83545 NaN NaN NaN NaN NaN NaN NaN 98.636 1 98.702 98.202 99.202 0.066025 0 0 0 1.0061 1 53090 53090 2.7352 1.4057 1 + 15777 13732 10089 10112 18135 18135 0.13588355368460725 LESIEEQL 8 Unmodified _LESIEEQL_ 0 0 0 REV__ENST00000481729.1_1_2:109099595-109100796:+|nuORF REV__ENST00000481729.1_1_2:109099595-109100796:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.7492370605469 2 480.747847 959.481142 2.7689 0.0013311 0.27402 0.00013173 3.0429 0.0014629 480.74792272717093 75.994 0.45814 76.658 76.451 76.909 0.66387 74 36 3 0 0 0 0.31786 1 34984 34984 34.187 1.8818 1 1153800 + 15778 16706 10090 10113 18136 18136 -0.00021948784524283838 LESKRLNL 8 Unmodified _LESKRLNL_ 0 0 0 nc|ENSG00000139370|Q8N697-2|SLC15A4;SLC15A4|p.G462Wfs*65|1|0.36|ENSG00000139370|chr12:128800884-128800885|-/A|frameshift_variant;ENSG00000139370|ENST00000266771|SLC15A4 nc|ENSG00000139370|Q8N697-2|SLC15A4 nc|ENSG00000139370|Q8N697-2|SLC15A4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.79693603515625 2 486.795466 971.57638 3.1098 0.0015138 -0.047635 -2.3188E-05 3.0622 0.0014906 486.7953044778101 26.651 0.23525 26.916 26.813 27.049 0.26489 29 15 2 0 0 0 0.010601 1 12103 12103 78.149 2.3886 1 857490 15779 3145 10091 10114 18137 18137 0.08945449197187827 LESRRPLQ 8 Unmodified _LESRRPLQ_ 0 0 0 ENST00000444067.2_1_1:78312795-78313113:+|nuORF ENST00000444067.2_1_1:78312795-78313113:+|nuORF ENST00000444067.2_1_1:78312795-78313113:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.7923583984375 2 499.790715 997.566878 3.1005 0.0015496 0.3558 0.00017783 3.4563 0.0017274 499.79082660182 17.599 0.29828 17.599 17.475 17.773 0 34 18 2 0 0 0 0.68959 1 7815 7815 2.3027 0 1 255010 15780 7955 10092 10115 18138 18138 0.06799680911672112 LESVFLMWL 9 Unmodified _LESVFLMWL_ 0 0 0 REV__ENST00000586287.1_1_6:41250094-41254393:-|nuORF REV__ENST00000586287.1_1_6:41250094-41254393:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.30615234375 2 569.304278 1136.594 3.7616 0.0021415 0.32492 0.00018498 4.0866 0.0023265 569.3044434520327 20.345 0.33129 20.998 20.834 21.165 0.65346 62 25 3 0 0 0 0.92418 1 9289 9289 2.0598 0 1 599300 + 15781 11666 10093 10116 18139 18139 0.03117028407837097 LESVRLDKEK 10 Unmodified _LESVRLDKEK_ 0 0 0 nc|ENSG00000100014|Q69YQ0-2|SPECC1L;ENSG00000100014|ENST00000314328|SPECC1L nc|ENSG00000100014|Q69YQ0-2|SPECC1L nc|ENSG00000100014|Q69YQ0-2|SPECC1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 608.8517456054688 2 608.848427 1215.6823 NaN NaN NaN NaN NaN NaN NaN 84.629 1 84.629 84.129 85.129 0 0 0 0 0.93823 1 42887 42887 15.248 5.0979 1 15782 1165 10094 10117 18140 18140 0.08308740252005009 LETELEKPFKT 11 Unmodified _LETELEKPFKT_ 0 0 0 ENSG00000073734|ENST00000650372|ABCB11 ENSG00000073734|ENST00000650372|ABCB11 ENSG00000073734|ENST00000650372|ABCB11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 667.8631591796875 2 667.863743 1333.71293 NaN NaN NaN NaN NaN NaN NaN 99.48 1 100.08 99.578 100.58 0.59748 0 0 0 1.0047 1 46004 46004 4.5289 0.58447 1 15783 812 10095 10118 18141 18141 0.05942473846357643 LETLHDAMHET 11 Unmodified _LETLHDAMHET_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 648.366455078125 2 648.798077 1295.5816 NaN NaN NaN NaN NaN NaN NaN 97.121 1 97.121 96.621 97.621 0 0 0 0 1.0059 1 52770 52770 2.9952 0.26005 1 15784 4204 10096 10119 18142 18142 -0.054366597931903016 LETLQKTSVLQ 11 Unmodified _LETLQKTSVLQ_ 0 0 0 ENSG00000134815|ENST00000328771|DHX34 ENSG00000134815|ENST00000328771|DHX34 ENSG00000134815|ENST00000328771|DHX34 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 630.3707275390625 2 630.36391 1258.71327 NaN NaN NaN NaN NaN NaN NaN 97.175 1 97.246 96.746 97.746 0.070648 0 0 0 0.96369 1 51869 51869 10.151 0.76745 1 15785 2831 10097 10120 18143 18143 0.09425893566253762 LETLTKKVSN 10 Unmodified _LETLTKKVSN_ 0 0 0 REV__nc|ENSG00000166130|Q70UQ0-2|IKBIP REV__nc|ENSG00000166130|Q70UQ0-2|IKBIP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.8319702148438 2 566.832246 1131.64994 NaN NaN NaN NaN NaN NaN NaN 44.37 1 45.019 44.519 45.519 0.64998 0 0 0 0.99846 1 20339 20339 2.9952 0 1 + 15786 18025 10098 10121 18144 18144 0.08937952848987152 LETPNPPG 8 Unmodified _LETPNPPG_ 0 0 0 REV__nc|ENSG00000101447|Q9H4H8-2|FAM83D REV__nc|ENSG00000101447|Q9H4H8-2|FAM83D MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 824.5363159179688 1 824.414859 823.407583 2.4849 0.0020485 0.81132 0.00066886 3.2962 0.0027174 824.4185244792887 95.958 0.19131 96.035 95.989 96.18 0.076538 26 23 2 0 0 0 0.13853 1 50904 50904 10.183 0 1 27420000 + 15787 10895 10099 10122 18145 18145 -0.011184524363216042 LETPNPPG 8 Unmodified _LETPNPPG_ 0 0 0 REV__nc|ENSG00000101447|Q9H4H8-2|FAM83D REV__nc|ENSG00000101447|Q9H4H8-2|FAM83D MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 824.414859 823.407583 3.3544 0.0027654 -0.84339 -0.00069531 2.511 0.0020701 824.4155632024203 96.036 0.18619 96.036 95.863 96.049 0 0.00063665 -0.00044608 NaN 10.183 27 21 2 NaN NaN NaN NaN 0 NaN NaN 0 19639000 + 15788 10895 10099 10122 -0.011184524363216042 LETSGKLNMDE 11 Unmodified _LETSGKLNMDE_ 0 0 0 ENSG00000183914|ENST00000572933|DNAH2;nc|ENSG00000183914|Q9P225-2|DNAH2 ENSG00000183914|ENST00000572933|DNAH2 ENSG00000183914|ENST00000572933|DNAH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 618.6771850585938 2 618.79246 1235.57037 NaN NaN NaN NaN NaN NaN NaN 93.401 1 93.487 92.987 93.987 0.086212 0 0 0 1.0041 1 48918 48918 5.2969 0 1 15789 5411 10100 10123 18146 18146 -0.0379948188731305 LETSGNNYKS 10 Unmodified _LETSGNNYKS_ 0 0 0 REV__ENST00000565424.2_1_16:47581373-47581460:+|nuORF REV__ENST00000565424.2_1_16:47581373-47581460:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.7633056640625 2 556.76456 1111.51457 NaN NaN NaN NaN NaN NaN NaN 93.087 1 93.087 92.587 93.587 0 0 0 0 0.97944 1 49627 49627 8.7454 2.5396 1 + 15790 10949 10101 10124 18147 18147 -0.036729470126147135 LETWAEKL 8 Unmodified _LETWAEKL_ 0 0 0 REV__ENSG00000135587|ENST00000258052|SMPD2 REV__ENSG00000135587|ENST00000258052|SMPD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.2705993652344 2 495.26875 988.522947 3.4437 0.0017055 -0.073552 -3.6428E-05 3.3701 0.0016691 495.26847818066403 12.861 0.16698 13.504 13.413 13.58 0.64272 9 4 3 0 0 0 0.57217 1 5795 5795 10.074 0 1 264790 + 15791 12027 10102 10125 18148 18148 0.028226516946460833 LEVDKGGPGER 11 Unmodified _LEVDKGGPGER_ 0 0 0 REV__ENST00000577279.1_1_17:45968747-45973111:-|nuORF REV__ENST00000577279.1_1_17:45968747-45973111:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.7783203125 2 578.801477 1155.5884 3.1876 0.001845 -0.90521 -0.00052394 2.2824 0.0013211 579.3021112978402 52.948 0.15678 53.751 53.66 53.816 0.8035 18 10 2 0 0 0 0.13295 1 24118 24118 10.8 5.9025 1 524410 + 15792 17481 10103 10126 18149 18149 0.016830211497108394 LEVHQRIHI 9 Unmodified _LEVHQRIHI_ 0 0 0 nc|ENSG00000198182|Q96SK3-2|ZNF607;nc|ENSG00000198182|Q96SK3-3|ZNF607;ENSG00000198182|ENST00000355202|ZNF607 nc|ENSG00000198182|Q96SK3-2|ZNF607 nc|ENSG00000198182|Q96SK3-2|ZNF607 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 382.2239990234375 3 382.224368 1143.65128 NaN NaN NaN NaN NaN NaN NaN 12.784 1 12.784 12.284 13.284 0 0 0 0 0.81563 1 5578 5578 8.7454 1.1365 1 15793 5873 10104 10127 18150 18150 0.08519631728427157 LEVPERKAP 9 Unmodified _LEVPERKAP_ 0 0 0 ENSG00000091664|ENST00000263160|SLC17A6 ENSG00000091664|ENST00000263160|SLC17A6 ENSG00000091664|ENST00000263160|SLC17A6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.79931640625 2 519.800749 1037.58694 NaN NaN NaN NaN NaN NaN NaN 88.694 1 88.694 88.194 89.194 0 0 0 0 0.88916 1 46097 46097 6.2058 0 1 15794 1082 10105 10128 18151 18151 0.06965431851608628 LEVPKPRS 8 Unmodified _LEVPKPRS_ 0 0 0 ENSG00000163719|ENST00000296003|MTMR14 ENSG00000163719|ENST00000296003|MTMR14 ENSG00000163719|ENST00000296003|MTMR14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 309.1868896484375 3 309.187032 924.539266 NaN NaN NaN NaN NaN NaN NaN 34.348 1 34.348 33.848 34.848 0 0 0 0 0.96325 1 15570 15570 8.1555 4.2111 1 15795 4243 10106 10129 18152 18152 0.0739777765143117 LEVVQPLL 8 Unmodified _LEVVQPLL_ 0 0 0 REV__ENST00000484589.1_1_7:40027550-40027583:+|nuORF REV__ENST00000484589.1_1_7:40027550-40027583:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 455.7867736816406 2 455.784036 909.553519 NaN NaN NaN NaN NaN NaN NaN 41.236 1 42.039 41.539 42.539 0.80351 0 0 0 0.99035 1 18707 18707 0.6015 0 1 + 15796 16735 10107 10130 18153 18153 0.09512430079723799 LEVVSLQRL 9 Unmodified _LEVVSLQRL_ 0 0 0 REV__ENSG00000175398|ENST00000309675|OR10P1 REV__ENSG00000175398|ENST00000309675|OR10P1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.8226928710938 2 528.824224 1055.63389 NaN NaN NaN NaN NaN NaN NaN 25.617 1 25.617 25.117 26.117 0 0 0 0 0.84134 1 11504 11504 7.9102 3.1541 1 + 15797 13671 10108 10131 18154 18154 0.10830291402771763 LEWDDCMSE 9 Unmodified _LEWDDCMSE_ 0 0 0 REV__ENST00000420070.1_1_20:22528654-22528729:-|nuORF REV__ENST00000420070.1_1_20:22528654-22528729:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.3662109375 2 564.204632 1126.39471 NaN NaN NaN NaN NaN NaN NaN 97.223 1 97.223 96.723 97.723 0 0 0 0 0.90611 1 52860 52860 2.0598 0 1 + 15798 16164 10109 10132 18155 18155 -0.16343019673058734 LEWLKNFAEH 10 Unmodified _LEWLKNFAEH_ 0 0 0 REV__ENSG00000173275|ENST00000339249|ZNF449 REV__ENSG00000173275|ENST00000339249|ZNF449 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 643.4118041992188 2 643.830037 1285.64552 NaN NaN NaN NaN NaN NaN NaN 108.35 1 108.39 107.89 108.89 0.04248 0 0 0 0.99464 1 58510 58510 6.2058 2.6093 1 + 15799 13594 10110 10133 18156 18156 0.014124884261036641 LEWLKQKLFRL 11 Unmodified _LEWLKQKLFRL_ 0 0 0 ENSG00000184908|ENST00000375679|CLCNKB;CLCNKB|p.P342Hfs*109|1|0.34|ENSG00000184908|chr1:16050571-16050572|-/A|frameshift_variant ENSG00000184908|ENST00000375679|CLCNKB ENSG00000184908|ENST00000375679|CLCNKB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 737.4208984375 2 737.450654 1472.88676 3.3637 0.0024805 -0.77353 -0.00057044 2.5901 0.0019101 737.95194704661 104.92 0.041824 104.92 104.89 104.93 0 4 2 2 0 0 0 0.91068 1 57685 57685 1.3295 0 1 275950 15800 5466 10111 10134 18157 18157 0.16922724133178235 LEWRLTLPKPL 11 Unmodified _LEWRLTLPKPL_ 0 0 0 REV__ENST00000496081.5_1_6:29910330-29912419:+|nuORF REV__ENST00000496081.5_1_6:29910330-29912419:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 683.4172973632812 2 683.41628 1364.81801 NaN NaN NaN NaN NaN NaN NaN 95.125 1 95.207 94.707 95.707 0.082001 0 0 0 1.0041 1 50211 50211 5.2969 2.3016 1 + 15801 14476 10112 10135 18158 18158 0.15019059833457504 LEWRPLCVTK 10 Unmodified _LEWRPLCVTK_ 0 0 0 ENST00000506314.1_1_4:109094188-109094809:+|nuORF;ENST00000512637.5_1_4:109094188-109097045:+|nuORF ENST00000506314.1_1_4:109094188-109094809:+|nuORF ENST00000506314.1_1_4:109094188-109094809:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 622.4414672851562 2 622.844633 1243.67471 NaN NaN NaN NaN NaN NaN NaN 41.443 1 41.443 40.943 41.943 0 0 0 0 0.99225 1 18841 18841 6.7232 0 1 15802 8511 10113 10136 18159 18159 0.06262309450698922 LEWRYRRCGRR 11 Unmodified _LEWRYRRCGRR_ 0 0 0 REV__nc|ENSG00000140932|Q8TAZ6-2|CMTM2 REV__nc|ENSG00000140932|Q8TAZ6-2|CMTM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 775.59375 2 775.91531 1549.81607 NaN NaN NaN NaN NaN NaN NaN 97.221 1 97.221 96.721 97.721 0 0 0 0 1.0073 1 52857 52857 1.1933 0 1 + 15803 12269 10114 10137 18160 18160 0.06315120596559609 LEWTRLVD 8 Unmodified _LEWTRLVD_ 0 0 0 ENST00000406175.3_1_2:42513330-42557344:+|nuORF;nc|ENSG00000143924|Q9HC35-2|EML4;ENSG00000143924|ENST00000318522|EML4 ENST00000406175.3_1_2:42513330-42557344:+|nuORF ENST00000406175.3_1_2:42513330-42557344:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.5337219238281 3 344.522192 1030.54475 1.9202 0.00066154 -1.1318 -0.00038993 0.78836 0.00027161 344.52140976866394 13.091 0.27524 13.398 13.187 13.463 0.30727 27 12 3 0 0 0 0.61166 1 5917 5917 13.042 0 1 137850 15804 3401 10115 10138 18161 18161 0.030694564432451443 LEYEWDLVD 9 Unmodified _LEYEWDLVD_ 0 0 0 ENSG00000171714|ENST00000324559|ANO5 ENSG00000171714|ENST00000324559|ANO5 ENSG00000171714|ENST00000324559|ANO5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.2736206054688 2 591.271687 1180.52882 3.1018 0.001834 -0.1644 -9.7204E-05 2.9374 0.0017368 591.2717271170206 13.235 0.32385 13.543 13.388 13.712 0.30727 75 22 4 0 0 0 0.14729 1 5972 5972 26.884 1.8927 1 1561500 15805 4824 10116 10139 18162 18162 -0.05422294584332121 LEYEWDLVD 9 Unmodified _LEYEWDLVD_ 0 0 0 ENSG00000171714|ENST00000324559|ANO5 ENSG00000171714|ENST00000324559|ANO5 ENSG00000171714|ENST00000324559|ANO5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 591.271687 1180.52882 3.1601 0.0018685 -0.32056 -0.00018954 2.8396 0.001679 591.2716522525022 13.232 0.23586 13.475 13.353 13.589 0.24346 -0.007168 -5.002E-05 NaN 26.884 52 17 4 NaN NaN NaN NaN 0 NaN NaN 0 1662600 15806 4824 10116 10139 -0.05422294584332121 LEYEWDLVD 9 Unmodified _LEYEWDLVD_ 0 0 0 ENSG00000171714|ENST00000324559|ANO5 ENSG00000171714|ENST00000324559|ANO5 ENSG00000171714|ENST00000324559|ANO5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 591.271687 1180.52882 4.0137 0.0023732 -0.48985 -0.00028964 3.5238 0.0020835 591.2715238094551 12.787 0.1692 13.43 13.345 13.514 0.64272 -0.052896 -0.00025022 NaN 26.884 14 4 4 NaN NaN NaN NaN 0 NaN NaN 0 3820300 15807 4824 10116 10139 -0.05422294584332121 LEYFNRNRYE 10 Unmodified _LEYFNRNRYE_ 0 0 0 REV__ENSG00000128641|ENST00000392318|MYO1B REV__ENSG00000128641|ENST00000392318|MYO1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 702.3386840820312 2 702.338758 1402.66296 NaN NaN NaN NaN NaN NaN NaN 101.65 1 101.65 101.15 102.15 0 0 0 0 1.0003 1 56155 56155 1.4819 0 1 + 15808 11767 10117 10140 18163 18163 -0.02226216038889106 LEYKKKGI 8 Unmodified _LEYKKKGI_ 0 0 0 REV__ENST00000287701.14_1_8:28909287-28909479:+|nuORF REV__ENST00000287701.14_1_8:28909287-28909479:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 489.8050537109375 2 489.80276 977.590967 2.8152 0.0013789 -0.054358 -2.6625E-05 2.7608 0.0013523 489.8029229514898 12.857 0.11701 13.119 13.05 13.167 0.26154 18 9 3 0 0 0 0.074456 1 5594 5594 57.471 2.6978 1 1593500 + 15809 15112 10118 10141 18164 18164 0.1012752134532775 LEYKKKGI 8 Unmodified _LEYKKKGI_ 0 0 0 REV__ENST00000287701.14_1_8:28909287-28909479:+|nuORF REV__ENST00000287701.14_1_8:28909287-28909479:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.8042297363281 2 489.80276 977.590967 3.4909 0.0017098 0.43729 0.00021419 3.9282 0.001924 489.80295519373095 12.685 0.13507 13.328 13.244 13.379 0.64272 8 3 3 0 0 0 0.37185 1 5706 5706 30.225 1.738 1 1791100 + 15810 15112 10118 10141 18165 18165 0.1012752134532775 LEYKKKGI 8 Unmodified _LEYKKKGI_ 0 0 0 REV__ENST00000287701.14_1_8:28909287-28909479:+|nuORF REV__ENST00000287701.14_1_8:28909287-28909479:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 489.80276 977.590967 2.8152 0.0013789 -0.054358 -2.6625E-05 2.7608 0.0013523 489.8029229514898 12.857 0.11701 13.119 13.05 13.167 0.26154 -0.086961 -0.00015251 NaN 57.471 18 9 3 NaN NaN NaN NaN 0 NaN NaN 0 1593500 + 15811 15112 10118 10141 0.1012752134532775 LEYKKKGI 8 Unmodified _LEYKKKGI_ 0 0 0 REV__ENST00000287701.14_1_8:28909287-28909479:+|nuORF REV__ENST00000287701.14_1_8:28909287-28909479:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 489.80276 977.590967 3.4909 0.0017098 0.43729 0.00021419 3.9282 0.001924 489.80295519373095 12.685 0.13507 13.328 13.244 13.379 0.64272 0.12215 0.00032912 NaN 57.471 8 3 3 NaN NaN NaN NaN 0 NaN NaN 0 1791100 + 15812 15112 10118 10141 0.1012752134532775 LEYLNLSW 8 Unmodified _LEYLNLSW_ 0 0 0 ENSG00000153558|ENST00000484457|FBXL2;ENST00000492662.1_1_3:33414533-33415354:+|nuORF;ENST00000422741.5_1_3:33414627-33427097:+|nuORF;ENST00000432809.5_1_3:33339416-33427097:+|nuORF;ENST00000451636.5_1_3:33400471-33427097:+|nuORF ENSG00000153558|ENST00000484457|FBXL2 ENSG00000153558|ENST00000484457|FBXL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.2686157226562 2 519.26875 1036.52295 NaN NaN NaN NaN NaN NaN NaN 91.162 1 91.162 90.662 91.662 0 0 0 0 0.94507 1 48079 48079 9.3474 0 1 15813 3788 10119 10142 18166 18166 0.006146516946500924 LEYNRIAKDL 10 Unmodified _LEYNRIAKDL_ 0 0 0 nc|ENSG00000088305|Q9UBC3-5|DNMT3B nc|ENSG00000088305|Q9UBC3-5|DNMT3B nc|ENSG00000088305|Q9UBC3-5|DNMT3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.23260498046875 3 412.231189 1233.67174 2.9434 0.0012134 0.76318 0.0003146 3.7066 0.001528 412.2314649186446 28.827 0.47868 29.445 29.04 29.518 0.61789 52 29 3 0 0 0 0.64548 1 13191 13191 15.739 0 1 910390 15814 9572 10120 10143 18167 18167 0.06424757597551434 LEYRESKWLFE 11 Unmodified _LEYRESKWLFE_ 0 0 0 REV__ENSG00000135905|ENST00000258390|DOCK10;REV__nc|ENSG00000135905|Q96BY6-3|DOCK10 REV__ENSG00000135905|ENST00000258390|DOCK10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 750.3876953125 2 750.380091 1498.74563 NaN NaN NaN NaN NaN NaN NaN 68.408 1 68.66 68.16 69.16 0.25227 0 0 0 1.0061 1 31338 31338 2.7352 1.4057 1 + 15815 12043;17951 10121 10144 18168 18168 0.016206809692221213 LEYSILVK 8 Unmodified _LEYSILVK_ 0 0 0 REV__nc|ENSG00000161652|Q6UXV1-2|IZUMO2 REV__nc|ENSG00000161652|Q6UXV1-2|IZUMO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.1943359375 3 322.195304 963.564084 NaN NaN NaN NaN NaN NaN NaN 23.571 1 23.846 23.346 24.346 0.27562 0 0 0 0.99035 1 10659 10659 1.6526 0 1 + 15816 12916 10122 10145 18169 18169 0.08084412734137914 LFADVSFLSTF 11 Unmodified _LFADVSFLSTF_ 0 0 0 ENST00000358064.3_1_12:14921846-14921969:-|nuORF ENST00000358064.3_1_12:14921846-14921969:-|nuORF ENST00000358064.3_1_12:14921846-14921969:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 623.8200073242188 2 623.821347 1245.62814 NaN NaN NaN NaN NaN NaN NaN 69.962 1 70.219 69.719 70.719 0.25642 0 0 0 0.94958 1 32038 32038 11.495 4.393 1 15817 7187 10123 10146 18170 18170 0.015151481004068046 LFAPLEVLLVR 11 Unmodified _LFAPLEVLLVR_ 0 0 0 REV__ENSG00000185215|ENST00000560869|TNFAIP2 REV__ENSG00000185215|ENST00000560869|TNFAIP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 635.4005737304688 2 635.400099 1268.78564 NaN NaN NaN NaN NaN NaN NaN 84.184 1 84.213 83.713 84.713 0.028603 0 0 0 1.0057 1 41935 41935 3.2813 0.28607 1 + 15818 14008 10124 10147 18171 18171 0.16200272430455698 LFARLLLQ 8 Unmodified _LFARLLLQ_ 0 0 0 ENSG00000110344|ENST00000252108|UBE4A;nc|ENSG00000110344|Q14139-2|UBE4A ENSG00000110344|ENST00000252108|UBE4A ENSG00000110344|ENST00000252108|UBE4A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 325.2124938964844 3 325.211289 972.612037 NaN NaN NaN NaN NaN NaN NaN 52.56 1 52.56 52.06 53.06 0 0 0 0 0.99035 1 24069 24069 0.40072 0 1 15819 1710 10125 10148 18172 18172 0.12463531444859655 LFAVFQTTF 9 Unmodified _LFAVFQTTF_ 0 0 0 ENSG00000145623|ENST00000274276|OSMR;nc|ENSG00000145623|Q99650-2|OSMR ENSG00000145623|ENST00000274276|OSMR ENSG00000145623|ENST00000274276|OSMR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.2890625 2 537.286943 1072.55933 2.693 0.0014469 0.6987 0.0003754 3.3917 0.0018223 537.2870761238231 94.976 0.2095 94.976 94.891 95.101 0 34 21 2 0 0 0 0.063575 1 51050 51050 56.541 37.284 1 3762700 15820 3476 10126 10149 18173 18173 0.0259552859138239 LFAVFQTTF 9 Unmodified _LFAVFQTTF_ 0 0 0 ENSG00000145623|ENST00000274276|OSMR;nc|ENSG00000145623|Q99650-2|OSMR ENSG00000145623|ENST00000274276|OSMR ENSG00000145623|ENST00000274276|OSMR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.2892456054688 2 537.286943 1072.55933 3.7181 0.0019977 0.03876 2.0825E-05 3.7568 0.0020185 537.2869410593191 94.75 0.44603 95.009 94.792 95.238 0.25975 41 24 2 0 0 0 0.21008 2 43493 43493;43551 32.117 22.77 1 312010 15821 3476 10126 10149 18174;18175 18174 0.0259552859138239 LFAVFQTTF 9 Unmodified _LFAVFQTTF_ 0 0 0 ENSG00000145623|ENST00000274276|OSMR;nc|ENSG00000145623|Q99650-2|OSMR ENSG00000145623|ENST00000274276|OSMR ENSG00000145623|ENST00000274276|OSMR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.2890625 2 537.286943 1072.55933 3.455 0.0018563 -0.03985 -2.1411E-05 3.4151 0.0018349 537.2866930361866 94.112 0.44025 94.743 94.516 94.956 0.63115 33 23 2 0 0 0 0.46674 1 43288 43288 19.439 10.092 1 427700 15822 3476 10126 10149 18176 18176 0.0259552859138239 LFCTILLLLW 10 Unmodified _LFCTILLLLW_ 0 0 0 nc|ENSG00000168000|Q96G97-3|BSCL2;nc|ENSG00000168000|Q96G97|BSCL2;ENSG00000168000|ENST00000360796|BSCL2 nc|ENSG00000168000|Q96G97-3|BSCL2 nc|ENSG00000168000|Q96G97-3|BSCL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 411.9134216308594 3 412.247123 1233.71954 2.97 0.0012244 -1.5462 -0.00063742 1.4238 0.00058695 412.2462813417355 30.081 0.10966 30.081 30.001 30.111 0 9 6 2 0 0 0 0.88949 1 13591 13591 4.1895 0.31317 1 327680 15823 4591 10127 10150 18177 18177 0.11202740264070599 LFDARSLQARW 11 Unmodified _LFDARSLQARW_ 0 0 0 REV__ENST00000356634.7_1_1:23357106-23376927:+|nuORF REV__ENST00000356634.7_1_1:23357106-23376927:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.9154357910156 3 454.914083 1361.72042 2.5449 0.0011577 0.15532 7.0658E-05 2.7002 0.0012284 454.9141810496088 50.753 0.23605 51.571 51.467 51.703 0.81738 18 12 2 0 0 0 0.8052 1 23130 23130 6.6235 2.5068 1 586660 + 15824 15558 10128 10151 18178 18178 0.054026709573236076 LFDARSLQARW 11 Unmodified _LFDARSLQARW_ 0 0 0 REV__ENST00000356634.7_1_1:23357106-23376927:+|nuORF REV__ENST00000356634.7_1_1:23357106-23376927:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 454.914083 1361.72042 2.5449 0.0011577 0.15532 7.0658E-05 2.7002 0.0012284 454.9141810496088 50.753 0.23605 51.571 51.467 51.703 0.81738 0 0 NaN 6.6235 18 12 2 NaN NaN NaN NaN 0 NaN NaN 0 586660 + 15825 15558 10128 10151 0.054026709573236076 LFDRGVNFV 9 Unmodified _LFDRGVNFV_ 0 0 0 REV__ENST00000321407.2_1_7:127221824-127222049:-|nuORF REV__ENST00000321407.2_1_7:127221824-127222049:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.7890014648438 2 533.787641 1065.56073 3.0457 0.0016258 0.54508 0.00029096 3.5908 0.0019167 533.788048686731 52.607 0.52702 52.607 52.439 52.966 0 93 41 3 0 0 0 0.12301 2 24185 24185;24216 28.487 3.8998 1 1428800 + 15826 15320 10129 10152 18179;18180 18179 0.03057162680147485 LFELSCHTI 9 Unmodified _LFELSCHTI_ 0 0 0 REV__ENST00000468586.5_1_1:62149195-62160394:-|nuORF REV__ENST00000468586.5_1_1:62149195-62160394:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.7687377929688 2 531.76806 1061.52157 3.2867 0.0017478 -2.1408 -0.0011384 1.1459 0.00060936 531.7666116399704 66.25 0.34442 66.498 66.376 66.721 0.24847 30 20 2 0 0 0 0.062556 1 30344 30344 42.095 0.25493 1 711020 + 15827 16568 10130 10153 18181 18181 -0.006733056657367342 LFEVRKHHQ 9 Unmodified _LFEVRKHHQ_ 0 0 0 nc|ENSG00000122778|Q9HCM3-2|KIAA1549;ENSG00000122778|ENST00000422774|KIAA1549 nc|ENSG00000122778|Q9HCM3-2|KIAA1549 nc|ENSG00000122778|Q9HCM3-2|KIAA1549 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 398.5577392578125 3 398.556118 1192.64652 2.7163 0.0010826 0.27745 0.00011058 2.9937 0.0011932 398.55638065367634 13.077 0.093742 13.077 13.036 13.13 0 5 3 2 0 0 0 1.0601 1 5724 5724 2.9952 0 1 153430 15828 2283 10131 10154 18182 18182 0.05790747585660938 LFEVRKHHQ 9 Unmodified _LFEVRKHHQ_ 0 0 0 nc|ENSG00000122778|Q9HCM3-2|KIAA1549;ENSG00000122778|ENST00000422774|KIAA1549 nc|ENSG00000122778|Q9HCM3-2|KIAA1549 nc|ENSG00000122778|Q9HCM3-2|KIAA1549 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 398.556118 1192.64652 2.3034 0.00091804 0.096542 3.8477E-05 2.4 0.00095652 398.5561097715898 12.687 0.087181 12.994 12.936 13.023 0.30727 -0.041472 -3.9169E-05 NaN 2.9952 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 318120 15829 2283 10131 10154 0.05790747585660938 LFFFIWVL 8 Unmodified _LFFFIWVL_ 0 0 0 REV__nc|ENSG00000006576|Q8N3S3-7|PHTF2 REV__nc|ENSG00000006576|Q8N3S3-7|PHTF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.8167724609375 2 542.815139 1083.61573 NaN NaN NaN NaN NaN NaN NaN 29.797 1 30.055 29.555 30.555 0.25804 0 0 0 0.99035 1 13563 13563 6.3541 0.62225 1 + 15830 10191 10132 10155 18183 18183 0.07726201218679307 LFFFQWEWH 9 Unmodified _LFFFQWEWH_ 0 0 0 ENST00000373374.7_1_1:34673819-34684388:+|nuORF ENST00000373374.7_1_1:34673819-34684388:+|nuORF ENST00000373374.7_1_1:34673819-34684388:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.3142700195312 2 670.316566 1338.61858 NaN NaN NaN NaN NaN NaN NaN 44.139 1 44.96 44.46 45.46 0.82075 0 0 0 0.91206 1 20097 20097 0.6015 0.14316 1 15831 7357 10133 10156 18184 18184 -0.03718575394441359 LFFTGWWIII 10 Unmodified _LFFTGWWIII_ 0 0 0 ENST00000480937.5_1_1:25666968-25687193:+|nuORF;ENSG00000183726|ENST00000374358|TMEM50A ENST00000480937.5_1_1:25666968-25687193:+|nuORF ENST00000480937.5_1_1:25666968-25687193:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.3637084960938 2 648.362985 1294.71142 NaN NaN NaN NaN NaN NaN NaN 51.039 1 51.856 51.356 52.356 0.81738 0 0 0 1.0015 1 23248 23248 0.45834 0 1 15832 5401 10134 10157 18185 18185 0.07584929338941038 LFFVLKKKKKK 11 Unmodified _LFFVLKKKKKK_ 0 0 0 ENST00000522197.1_1_8:122652185-122654912:+|nuORF;ENST00000514180.5_1_8:122652059-122653623:+|nuORF ENST00000522197.1_1_8:122652185-122654912:+|nuORF ENST00000522197.1_1_8:122652185-122654912:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 703.9833984375 2 703.984133 1405.95371 NaN NaN NaN NaN NaN NaN NaN 102.47 1 102.79 102.29 103.29 0.31737 0 0 0 1.0082 1 47398 47398 0 0 1 15833 8583 10135 10158 18186 18186 0.26697379414895295 LFFYREYFRDW 11 Unmodified _LFFYREYFRDW_ 0 0 0 ENST00000357429.10_1_7:1036850-1037003:-|nuORF ENST00000357429.10_1_7:1036850-1037003:-|nuORF ENST00000357429.10_1_7:1036850-1037003:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 821.3966064453125 2 821.396076 1640.7776 NaN NaN NaN NaN NaN NaN NaN 50.877 1 51.138 50.638 51.638 0.26146 0 0 0 1.008 1 23252 23252 0.35063 0 1 15834 7176 10136 10159 18187 18187 -0.0171590655700129 LFHFGIPME 9 Unmodified _LFHFGIPME_ 0 0 0 ENSG00000204396|ENST00000375688|VWA7;nc|ENSG00000204396|Q9Y334-2|VWA7 ENSG00000204396|ENST00000375688|VWA7 ENSG00000204396|ENST00000375688|VWA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.7888793945312 2 545.773145 1089.53174 NaN NaN NaN NaN NaN NaN NaN 12.753 1 13.06 12.56 13.56 0.30727 0 0 0 0.90611 1 5754 5754 2.0598 0 1 15835 6007 10137 10160 18188 18188 -0.009446979405083766 LFHIKQLNFLH 11 Unmodified _LFHIKQLNFLH_ 0 0 0 ENST00000535179.1_1_12:14619386-14628955:+|nuORF ENST00000535179.1_1_12:14619386-14628955:+|nuORF ENST00000535179.1_1_12:14619386-14628955:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 353.458251953125 4 353.206762 1408.79794 2.4026 0.00084861 -0.13683 -4.8331E-05 2.2657 0.00080028 353.20657497382183 55.787 0.59377 55.787 55.561 56.155 0 96 43 3 0 0 0 0.88075 1 25737 25737 1.3296 0 1 2292600 15836 8761 10138 10161 18189 18189 0.1098930889352232 LFHIKQLNFLH 11 Unmodified _LFHIKQLNFLH_ 0 0 0 ENST00000535179.1_1_12:14619386-14628955:+|nuORF ENST00000535179.1_1_12:14619386-14628955:+|nuORF ENST00000535179.1_1_12:14619386-14628955:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 353.45794677734375 4 353.206762 1408.79794 2.5411 0.00089752 -0.093913 -3.3171E-05 2.4472 0.00086435 353.45754617075886 56.453 0.72882 56.453 56.1 56.829 0 87 60 2 0 0 0 0.13295 1 25879 25879 1.3296 0 1 4506700 15837 8761 10138 10161 18190 18190 0.1098930889352232 LFHIKQLNFLH 11 Unmodified _LFHIKQLNFLH_ 0 0 0 ENST00000535179.1_1_12:14619386-14628955:+|nuORF ENST00000535179.1_1_12:14619386-14628955:+|nuORF ENST00000535179.1_1_12:14619386-14628955:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 353.2073669433594 4 353.206762 1408.79794 2.3829 0.00084164 -0.33302 -0.00011763 2.0498 0.00072402 353.2066015929157 55.565 0.67946 55.83 55.548 56.227 0.26543 67 35 2 0 0 0 0.88075 1 25453 25453 1.3296 0 1 2616100 15838 8761 10138 10161 18191 18191 0.1098930889352232 LFHIKQLNFLH 11 Unmodified _LFHIKQLNFLH_ 0 0 0 ENST00000535179.1_1_12:14619386-14628955:+|nuORF ENST00000535179.1_1_12:14619386-14628955:+|nuORF ENST00000535179.1_1_12:14619386-14628955:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 353.4582214355469 4 353.206762 1408.79794 2.4027 0.00084865 0.053595 1.893E-05 2.4563 0.00086758 353.206588360315 54.643 0.82857 55.309 55.145 55.974 0.6665 114 49 3 0 0 0 0.9102 1 25066 25066 0.50596 0.051438 1 4147300 15839 8761 10138 10161 18192 18192 0.1098930889352232 LFHIKQLNFLH 11 Unmodified _LFHIKQLNFLH_ 0 0 0 ENST00000535179.1_1_12:14619386-14628955:+|nuORF ENST00000535179.1_1_12:14619386-14628955:+|nuORF ENST00000535179.1_1_12:14619386-14628955:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 353.45867919921875 4 353.206762 1408.79794 2.4583 0.00086827 0.68424 0.00024168 3.1425 0.00111 353.4575334795389 60.73 1.0793 61.393 60.788 61.868 0.66261 106 53 3 0 0 0 0.88075 2 27865 27814;27865 1.3296 0.051438 1 1227000 15840 8761 10138 10161 18193;18194 18194 0.1098930889352232 LFHIKQLNFLH 11 Unmodified _LFHIKQLNFLH_ 0 0 0 ENST00000535179.1_1_12:14619386-14628955:+|nuORF ENST00000535179.1_1_12:14619386-14628955:+|nuORF ENST00000535179.1_1_12:14619386-14628955:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 353.206762 1408.79794 2.2475 0.00079384 -0.030266 -1.069E-05 2.2172 0.00078315 353.20684306424073 61.21 0.45639 61.21 61.005 61.461 0 -0.091108 -0.00048744 NaN 1.3296 59 46 2 NaN NaN NaN NaN 0 NaN NaN 0 1366000 15841 8761 10138 10161 0.1098930889352232 LFHIKQLNFLH 11 Unmodified _LFHIKQLNFLH_ 0 0 0 ENST00000535179.1_1_12:14619386-14628955:+|nuORF ENST00000535179.1_1_12:14619386-14628955:+|nuORF ENST00000535179.1_1_12:14619386-14628955:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 353.206762 1408.79794 2.0675 0.00073025 -0.53281 -0.00018819 1.5347 0.00054206 353.20646072902576 55.825 0.39022 56.612 56.476 56.866 0.78711 0.0705 -0.00034448 NaN 1.3296 67 30 3 NaN NaN NaN NaN 0 NaN NaN 0 1019600 15842 8761 10138 10161 0.1098930889352232 LFHIKQLNFLH 11 Unmodified _LFHIKQLNFLH_ 0 0 0 ENST00000535179.1_1_12:14619386-14628955:+|nuORF ENST00000535179.1_1_12:14619386-14628955:+|nuORF ENST00000535179.1_1_12:14619386-14628955:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 353.206762 1408.79794 1.9847 0.00070099 0.05636 1.9907E-05 2.041 0.0007209 353.45754536217333 54.916 0.42853 55.707 55.408 55.836 0.79117 -0.067833 0.00028423 NaN 1.3296 60 27 4 NaN NaN NaN NaN 0 NaN NaN 0 1527600 15843 8761 10138 10161 0.1098930889352232 LFHIKQLNFLH 11 Unmodified _LFHIKQLNFLH_ 0 0 0 ENST00000535179.1_1_12:14619386-14628955:+|nuORF ENST00000535179.1_1_12:14619386-14628955:+|nuORF ENST00000535179.1_1_12:14619386-14628955:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 353.206762 1408.79794 2.4856 0.00087794 -0.21602 -7.6301E-05 2.2696 0.00080164 353.20645223247965 56.294 0.54277 56.559 56.227 56.77 0.26543 0.017804 0.00010309 NaN 1.3296 70 28 4 NaN NaN NaN NaN 0 NaN NaN 0 1840900 15844 8761 10138 10161 0.1098930889352232 LFHIPRVT 8 Unmodified _LFHIPRVT_ 0 0 0 nc|ENSG00000155066|Q8N271-3|PROM2;ENST00000487138.5_1_2:95944617-95954741:+|nuORF;nc|ENSG00000155066|Q8N271-2|PROM2;ENSG00000155066|ENST00000317620|PROM2 nc|ENSG00000155066|Q8N271-3|PROM2 nc|ENSG00000155066|Q8N271-3|PROM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.79803466796875 2 491.795269 981.575986 3.3123 0.001629 1.7203 0.00084605 5.0326 0.002475 491.79571812320404 65.709 0.70193 65.957 65.535 66.237 0.24848 46 36 2 0 0 0 0.70799 1 30106 30106 5.2307 0 1 564050 15845 3848 10139 10162 18195 18195 0.08446074267999393 LFHIPRVT 8 Unmodified _LFHIPRVT_ 0 0 0 nc|ENSG00000155066|Q8N271-3|PROM2;ENST00000487138.5_1_2:95944617-95954741:+|nuORF;nc|ENSG00000155066|Q8N271-2|PROM2;ENSG00000155066|ENST00000317620|PROM2 nc|ENSG00000155066|Q8N271-3|PROM2 nc|ENSG00000155066|Q8N271-3|PROM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7976379394531 2 491.795269 981.575986 3.3407 0.001643 1.3814 0.00067934 4.7221 0.0023223 491.79572697718265 43.705 0.23346 44.354 44.187 44.42 0.64872 23 14 2 0 0 0 0.70799 1 20046 20046 5.2307 0 1 4206900 15846 3848 10139 10162 18196 18196 0.08446074267999393 LFHIPRVT 8 Unmodified _LFHIPRVT_ 0 0 0 nc|ENSG00000155066|Q8N271-3|PROM2;ENST00000487138.5_1_2:95944617-95954741:+|nuORF;nc|ENSG00000155066|Q8N271-2|PROM2;ENSG00000155066|ENST00000317620|PROM2 nc|ENSG00000155066|Q8N271-3|PROM2 nc|ENSG00000155066|Q8N271-3|PROM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.79827880859375 2 491.795269 981.575986 3.0585 0.0015041 1.8514 0.00091053 4.9099 0.0024147 491.79602354294104 54.088 0.21949 54.755 54.64 54.859 0.6665 25 13 2 0 0 0 0.70799 1 24730 24730 5.2307 0 1 2046200 15847 3848 10139 10162 18197 18197 0.08446074267999393 LFHIPRVT 8 Unmodified _LFHIPRVT_ 0 0 0 nc|ENSG00000155066|Q8N271-3|PROM2;ENST00000487138.5_1_2:95944617-95954741:+|nuORF;nc|ENSG00000155066|Q8N271-2|PROM2;ENSG00000155066|ENST00000317620|PROM2 nc|ENSG00000155066|Q8N271-3|PROM2 nc|ENSG00000155066|Q8N271-3|PROM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.79705810546875 2 491.795269 981.575986 3.2172 0.0015822 1.4403 0.00070832 4.6575 0.0022905 491.79603342402265 59.031 0.6944 59.698 59.245 59.939 0.66703 50 32 2 0 0 0 0.70799 1 27046 27046 5.2307 0 1 755990 15848 3848 10139 10162 18198 18198 0.08446074267999393 LFHIPRVT 8 Unmodified _LFHIPRVT_ 0 0 0 nc|ENSG00000155066|Q8N271-3|PROM2;ENST00000487138.5_1_2:95944617-95954741:+|nuORF;nc|ENSG00000155066|Q8N271-2|PROM2;ENSG00000155066|ENST00000317620|PROM2 nc|ENSG00000155066|Q8N271-3|PROM2 nc|ENSG00000155066|Q8N271-3|PROM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7978210449219 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 65.289 1 65.946 65.446 66.446 0.65672 0 0 0 0.99035 1 29933 29933 5.2307 0 1 15849 3848 10139 10162 18199 18199 0.08446074267999393 LFHIPRVT 8 Unmodified _LFHIPRVT_ 0 0 0 nc|ENSG00000155066|Q8N271-3|PROM2;ENST00000487138.5_1_2:95944617-95954741:+|nuORF;nc|ENSG00000155066|Q8N271-2|PROM2;ENSG00000155066|ENST00000317620|PROM2 nc|ENSG00000155066|Q8N271-3|PROM2 nc|ENSG00000155066|Q8N271-3|PROM2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 491.795269 981.575986 2.8856 0.0014191 2.8836 0.0014181 5.7692 0.0028373 491.7958308670978 54.074 0.12333 54.869 54.817 54.94 0.79552 0.057328 0.00095209 NaN 5.2307 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 90184 15850 3848 10139 10162 0.08446074267999393 LFHLLLLDKPI 11 Unmodified _LFHLLLLDKPI_ 0 0 0 REV__ENST00000443322.1_1_7:66104212-66105443:+|nuORF REV__ENST00000443322.1_1_7:66104212-66105443:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.2125549316406 4 331.211513 1320.81694 1.7594 0.00058274 0.73166 0.00024233 2.4911 0.00082507 331.2116939322085 70.75 0.31813 71.454 71.239 71.557 0.70386 66 41 2 0 0 0 0.91028 1 33940 33940 1.4551 0.94916 1 3044200 + 15851 16361 10140 10163 18200 18200 0.16936845464556427 LFHLLLLDKPI 11 Unmodified _LFHLLLLDKPI_ 0 0 0 REV__ENST00000443322.1_1_7:66104212-66105443:+|nuORF REV__ENST00000443322.1_1_7:66104212-66105443:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.7071533203125 4 331.211513 1320.81694 1.9499 0.00064581 -1.6482 -0.00054589 0.30169 9.9922E-05 331.2112811068215 54.505 0.046471 55.301 55.277 55.323 0.79552 5 3 2 0 0 0 0.13295 1 24878 24878 0.50596 0 1 351200 + 15852 16361 10140 10163 18201 18201 0.16936845464556427 LFHLLLLDKPI 11 Unmodified _LFHLLLLDKPI_ 0 0 0 REV__ENST00000443322.1_1_7:66104212-66105443:+|nuORF REV__ENST00000443322.1_1_7:66104212-66105443:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.2121887207031 4 331.211513 1320.81694 2.1699 0.0007187 0.80847 0.00026778 2.9784 0.00098647 331.2116852554999 71.058 0.45994 71.316 70.959 71.419 0.25786 114 39 4 0 0 0 0.88547 1 32521 32521 3.0723 1.6171 1 2833400 + 15853 16361 10140 10163 18202 18202 0.16936845464556427 LFHLLLLDKPI 11 Unmodified _LFHLLLLDKPI_ 0 0 0 REV__ENST00000443322.1_1_7:66104212-66105443:+|nuORF REV__ENST00000443322.1_1_7:66104212-66105443:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.21246337890625 4 331.211513 1320.81694 2.1699 0.0007187 0.80847 0.00026778 2.9784 0.00098647 331.2116852554999 71.058 0.45994 71.316 70.959 71.419 0.25786 114 39 4 0 0 0 0.13295 1 32588 32588 0.50596 0 1 2833400 + 15854 16361 10140 10163 18203 18203 0.16936845464556427 LFHLLLLDKPI 11 Unmodified _LFHLLLLDKPI_ 0 0 0 REV__ENST00000443322.1_1_7:66104212-66105443:+|nuORF REV__ENST00000443322.1_1_7:66104212-66105443:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 331.211513 1320.81694 1.7594 0.00058274 0.73166 0.00024233 2.4911 0.00082507 331.2116939322085 70.75 0.31813 71.454 71.239 71.557 0.70386 0.11401 -0.00048299 NaN 3.0723 66 41 2 NaN NaN NaN NaN 0 NaN NaN 0 3044200 + 15855 16361 10140 10163 0.16936845464556427 LFHLLLLDKPI 11 Unmodified _LFHLLLLDKPI_ 0 0 0 REV__ENST00000443322.1_1_7:66104212-66105443:+|nuORF REV__ENST00000443322.1_1_7:66104212-66105443:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 331.211513 1320.81694 1.8192 0.00060255 1.3173 0.00043631 3.1365 0.0010389 331.21181300246195 70.409 0.33901 71.071 70.89 71.229 0.66209 -0.26888 0.00029291 NaN 3.0723 66 19 4 NaN NaN NaN NaN 0 NaN NaN 0 3243500 + 15856 16361 10140 10163 0.16936845464556427 LFHLPIALL 9 Unmodified _LFHLPIALL_ 0 0 0 ENSG00000259224|ENST00000412468|SLC35G6;ENSG00000236396|ENST00000588001|SLC35G4;ENSG00000177710|ENST00000382435|SLC35G5;ENSG00000164729|ENST00000297307|SLC35G3 ENSG00000259224|ENST00000412468|SLC35G6 ENSG00000259224|ENST00000412468|SLC35G6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.7059936523438 2 518.83132 1035.64809 NaN NaN NaN NaN NaN NaN NaN 66.499 1 67.155 66.655 67.655 0.65672 0 0 0 0.90511 1 30486 30486 2.3027 0 1 15857 4339 10141 10164 18204 18204 0.13168988621691824 LFHLSIRP 8 Unmodified _LFHLSIRP_ 0 0 0 REV__ENST00000586659.5_1_19:11275055-11275190:-|nuORF REV__ENST00000586659.5_1_19:11275055-11275190:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7969055175781 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 65.112 1 65.769 65.269 66.269 0.65672 0 0 0 0.99035 1 29851 29851 4.756 0 1 + 15858 17543 10142 10165 18205 18205 0.08446074267988024 LFHPSNVEM 9 Oxidation (M) _LFHPSNVEM(Oxidation (M))_ LFHPSNVEM(1) LFHPSNVEM(59) 0 0 1 ENSG00000151694|ENST00000310823|ADAM17 ENSG00000151694|ENST00000310823|ADAM17 ENSG00000151694|ENST00000310823|ADAM17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.2574462890625 2 545.255317 1088.49608 3.9168 0.0021357 -0.32761 -0.00017863 3.5892 0.001957 545.2552906125435 29.111 0.32915 29.111 28.924 29.253 0 71 24 4 0 0 0 0.027384 1 13127 13127 58.679 12.658 1 591870 15859 3725 10143 10166 18206 18206 52 -0.044627801881688356 LFHPSNVEM 9 Oxidation (M) _LFHPSNVEM(Oxidation (M))_ LFHPSNVEM(1) LFHPSNVEM(120) 0 0 1 ENSG00000151694|ENST00000310823|ADAM17 ENSG00000151694|ENST00000310823|ADAM17 ENSG00000151694|ENST00000310823|ADAM17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.2570190429688 2 545.255317 1088.49608 3.5161 0.0019172 -0.40725 -0.00022206 3.1089 0.0016951 545.2552500055499 28.883 0.26999 29.143 28.985 29.255 0.2602 61 22 3 0 0 0 0.0012766 2 13143 13094;13143 122.18 60.822 1 3944000 15860 3725 10143 10166 18207;18208 18208 52 -0.044627801881688356 LFHPSNVEM 9 Oxidation (M) _LFHPSNVEM(Oxidation (M))_ LFHPSNVEM(1) LFHPSNVEM(130) 0 0 1 ENSG00000151694|ENST00000310823|ADAM17 ENSG00000151694|ENST00000310823|ADAM17 ENSG00000151694|ENST00000310823|ADAM17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.25732421875 2 545.255317 1088.49608 3.4731 0.0018937 -0.97234 -0.00053018 2.5007 0.0013635 545.255276119797 28.526 0.63014 29.146 28.727 29.358 0.61947 93 38 4 0 0 0 0.00055091 3 13110 13014;13062;13110 131.27 60.134 1 2439200 15861 3725 10143 10166 18209;18210;18211 18211 52 -0.044627801881688356 LFHPSNVEM 9 Unmodified _LFHPSNVEM_ 0 0 0 ENSG00000151694|ENST00000310823|ADAM17 ENSG00000151694|ENST00000310823|ADAM17 ENSG00000151694|ENST00000310823|ADAM17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.259521484375 2 537.257859 1072.50117 2.993 0.001608 -0.041096 -2.2079E-05 2.9519 0.0015859 537.2578625423904 43.296 0.24552 44.11 44.012 44.257 0.81444 67 25 4 0 0 0 0.010221 2 19728 19680;19728 81.613 20.155 1 12370000 15862 3725 10143 10167 18212;18213 18213 -0.03218476325537267 LFHPSNVEM 9 Unmodified _LFHPSNVEM_ 0 0 0 ENSG00000151694|ENST00000310823|ADAM17 ENSG00000151694|ENST00000310823|ADAM17 ENSG00000151694|ENST00000310823|ADAM17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.2595825195312 2 537.257859 1072.50117 2.8254 0.001518 -0.18203 -9.7796E-05 2.6433 0.0014202 537.2579040847011 44.247 0.38889 44.516 44.377 44.766 0.2694 73 25 4 0 0 0 0.0028306 3 20275 20176;20223;20275 96.285 41.511 1 24170000 15863 3725 10143 10167 18214;18215;18216 18216 -0.03218476325537267 LFHPSNVEM 9 Unmodified _LFHPSNVEM_ 0 0 0 ENSG00000151694|ENST00000310823|ADAM17 ENSG00000151694|ENST00000310823|ADAM17 ENSG00000151694|ENST00000310823|ADAM17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.259765625 2 537.257859 1072.50117 3.402 0.0018277 -0.6196 -0.00033288 2.7824 0.0014948 537.2577113135718 43.768 0.29432 44.417 44.229 44.524 0.64872 69 27 4 0 0 0 0.0016284 3 20045 19994;20045;20083 108 53.223 1 23511000 15864 3725 10143 10167 18217;18218;18219 18218 -0.03218476325537267 LFHWRTRLRRK 11 Unmodified _LFHWRTRLRRK_ 0 0 0 ENST00000560110.1_1_15:44968687-44968816:-|nuORF;ENST00000558573.1_1_15:44968687-45003294:-|nuORF ENST00000560110.1_1_15:44968687-44968816:-|nuORF ENST00000560110.1_1_15:44968687-44968816:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 784.970703125 2 784.973485 1567.93242 NaN NaN NaN NaN NaN NaN NaN 78.94 1 78.94 78.44 79.44 0 0 0 0 1.008 1 38917 38917 0.35063 0.043601 1 15865 8951 10144 10168 18220 18220 0.17116807158754455 LFIATSQKF 9 Unmodified _LFIATSQKF_ 0 0 0 nc|ENSG00000025770|Q6IBW4-2|NCAPH2;ENSG00000025770|ENST00000420993|NCAPH2;nc|ENSG00000025770|Q6IBW4-4|NCAPH2 nc|ENSG00000025770|Q6IBW4-2|NCAPH2 nc|ENSG00000025770|Q6IBW4-2|NCAPH2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.8006591796875 2 527.800217 1053.58588 2.9864 0.0015762 0.6049 0.00031927 3.5913 0.0018955 527.8003205398243 53.506 0.15335 54.309 54.204 54.357 0.80351 19 13 2 0 0 0 0.10584 1 24381 24381 31.268 2.7815 1 1189700 15866 480 10145 10169 18221 18221 0.06123217482695509 LFIATSQKF 9 Unmodified _LFIATSQKF_ 0 0 0 nc|ENSG00000025770|Q6IBW4-2|NCAPH2;ENSG00000025770|ENST00000420993|NCAPH2;nc|ENSG00000025770|Q6IBW4-4|NCAPH2 nc|ENSG00000025770|Q6IBW4-2|NCAPH2 nc|ENSG00000025770|Q6IBW4-2|NCAPH2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.802734375 2 527.800217 1053.58588 3.0673 0.0016189 2.4878 0.0013131 5.5552 0.002932 527.801438703087 54.468 0.28893 54.732 54.509 54.798 0.26462 22 13 2 0 0 0 0.02631 1 24903 24903 60.074 19.625 1 447390 15867 480 10145 10169 18222 18222 0.06123217482695509 LFIATSQKF 9 Unmodified _LFIATSQKF_ 0 0 0 nc|ENSG00000025770|Q6IBW4-2|NCAPH2;ENSG00000025770|ENST00000420993|NCAPH2;nc|ENSG00000025770|Q6IBW4-4|NCAPH2 nc|ENSG00000025770|Q6IBW4-2|NCAPH2 nc|ENSG00000025770|Q6IBW4-2|NCAPH2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.3035278320312 2 527.800217 1053.58588 3.1271 0.0016505 0.96216 0.00050783 4.0893 0.0021583 527.800679844487 53.788 0.14179 54.452 54.349 54.491 0.6644 11 6 2 0 0 0 0.02631 1 24597 24597 60.074 21.923 1 455960 15868 480 10145 10169 18223 18223 0.06123217482695509 LFIATSQKF 9 Unmodified _LFIATSQKF_ 0 0 0 nc|ENSG00000025770|Q6IBW4-2|NCAPH2;ENSG00000025770|ENST00000420993|NCAPH2;nc|ENSG00000025770|Q6IBW4-4|NCAPH2 nc|ENSG00000025770|Q6IBW4-2|NCAPH2 nc|ENSG00000025770|Q6IBW4-2|NCAPH2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 527.800217 1053.58588 3.3689 0.0017781 -0.36164 -0.00019088 3.0073 0.0015872 527.7999072637336 54.663 0.13354 54.663 54.554 54.687 0 0.12418 -0.0013705 NaN 60.074 16 13 2 NaN NaN NaN NaN 0 NaN NaN 0 939450 15869 480 10145 10169 0.06123217482695509 LFIKKFKR 8 Unmodified _LFIKKFKR_ 0 0 0 ENST00000380888.4_1_20:29523054-29523153:-|nuORF ENST00000380888.4_1_20:29523054-29523153:-|nuORF ENST00000380888.4_1_20:29523054-29523153:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 360.57623291015625 3 360.57445 1078.70152 NaN NaN NaN NaN NaN NaN NaN 31.953 1 32.741 32.241 33.241 0.78795 0 0 0 0.99035 1 14442 14442 0.45834 0 1 15870 7476 10146 10170 18224 18224 0.16531786124232895 LFIKKFKR 8 Unmodified _LFIKKFKR_ 0 0 0 ENST00000380888.4_1_20:29523054-29523153:-|nuORF ENST00000380888.4_1_20:29523054-29523153:-|nuORF ENST00000380888.4_1_20:29523054-29523153:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.575927734375 3 360.57445 1078.70152 2.8352 0.0010223 1.3152 0.00047423 4.1505 0.0014965 360.57485829408705 32.645 0.42555 32.9 32.607 33.033 0.2543 37 21 2 0 0 0 0.7471 1 14877 14877 0.45834 0 1 1948300 15871 7476 10146 10170 18225 18225 0.16531786124232895 LFIKKFKR 8 Unmodified _LFIKKFKR_ 0 0 0 ENST00000380888.4_1_20:29523054-29523153:-|nuORF ENST00000380888.4_1_20:29523054-29523153:-|nuORF ENST00000380888.4_1_20:29523054-29523153:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.3603515625 2 540.358037 1078.70152 NaN NaN NaN NaN NaN NaN NaN 33.092 1 33.345 32.845 33.845 0.25389 0 0 0 0.99035 1 15068 15068 0.79363 0 1 15872 7476 10146 10170 18226 18226 0.16531786124232895 LFITAIQSL 9 Unmodified _LFITAIQSL_ 0 0 0 ENSG00000155897|ENST00000286355|ADCY8 ENSG00000155897|ENST00000286355|ADCY8 ENSG00000155897|ENST00000286355|ADCY8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.30474853515625 2 503.302593 1004.59063 NaN NaN NaN NaN NaN NaN NaN 66.483 1 66.731 66.231 67.231 0.24848 0 0 0 0.21088 1 30458 30458 30.637 0 1 15873 3883 10147 10171 18227 18227 0.08852101625473097 LFIYLLIIRIK 11 Unmodified _LFIYLLIIRIK_ 0 0 0 REV__ENSG00000136854|ENST00000373299|STXBP1 REV__ENSG00000136854|ENST00000373299|STXBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 702.9688720703125 2 702.970691 1403.92683 NaN NaN NaN NaN NaN NaN NaN 66.917 1 67.622 67.122 68.122 0.7047 0 0 0 1.008 1 31751 31751 0.35063 0.043601 1 + 15874 12083 10148 10172 18228 18228 0.2410227080374625 LFKDKKAL 8 Unmodified _LFKDKKAL_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 321.5403137207031 3 321.539294 961.596052 1.8744 0.00060268 0.33545 0.00010786 2.2098 0.00071054 321.53936021811575 13.435 0.20998 13.742 13.637 13.847 0.30727 30 14 3 0 0 0 0.5584 1 6043 6043 17.113 4.8722 1 318870 15875 2521 10149 10173 18229 18229 0.11371825207925212 LFKDKKAL 8 Unmodified _LFKDKKAL_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 321.5403747558594 3 321.539294 961.596052 2.3865 0.00076734 0.69484 0.00022342 3.0813 0.00099076 321.5394507534825 12.922 0.19978 13.565 13.446 13.646 0.64272 11 5 3 0 0 0 0.47805 1 5803 5803 22.736 8.8302 1 366360 15876 2521 10149 10173 18230 18230 0.11371825207925212 LFKDKVVL 8 Unmodified _LFKDKVVL_ 0 0 0 nc|ENSG00000126457|Q99873-5|PRMT1;nc|ENSG00000126457|Q99873-2|PRMT1;nc|ENSG00000126457|Q99873-3|PRMT1;ENSG00000126457|ENST00000454376|PRMT1;ENST00000525616.1_1_19:50180537-50188241:+|nuORF nc|ENSG00000126457|Q99873-5|PRMT1 nc|ENSG00000126457|Q99873-5|PRMT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.307861328125 2 481.307678 960.600803 NaN NaN NaN NaN NaN NaN NaN 42.056 1 42.326 41.826 42.826 0.27021 0 0 0 0.14805 1 19175 19175 75.761 0 1 15877 2452 10150 10174 18231 18231 0.1189270935069544 LFKDKVVL 8 Unmodified _LFKDKVVL_ 0 0 0 nc|ENSG00000126457|Q99873-5|PRMT1;nc|ENSG00000126457|Q99873-2|PRMT1;nc|ENSG00000126457|Q99873-3|PRMT1;ENSG00000126457|ENST00000454376|PRMT1;ENST00000525616.1_1_19:50180537-50188241:+|nuORF nc|ENSG00000126457|Q99873-5|PRMT1 nc|ENSG00000126457|Q99873-5|PRMT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.3096923828125 2 481.307678 960.600803 3.3097 0.001593 0.012029 5.7895E-06 3.3217 0.0015988 481.3076670825573 41.314 0.18153 41.958 41.845 42.026 0.64451 22 9 3 0 0 0 0.050638 1 18877 18877 75.761 0 1 2336600 15878 2452 10150 10174 18232 18232 0.1189270935069544 LFKILKLKL 9 Unmodified _LFKILKLKL_ 0 0 0 REV__ARMC9|p.P173A|1|0.21|ENSG00000135931|chr2:231222740-231222740|C/G|missense_variant REV__ARMC9|p.P173A|1|0.21|ENSG00000135931|chr2:231222740-231222740|C/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.7097778320312 2 558.39937 1114.78419 NaN NaN NaN NaN NaN NaN NaN 69.37 1 69.624 69.124 70.124 0.25443 0 0 0 0.91206 1 31769 31769 0.6015 0 1 + 15879 9970 10151 10175 18233 18233 0.23138683132356164 LFKKKKKKK 9 Unmodified _LFKKKKKKK_ 0 0 0 ENST00000527958.5_1_11:117041336-117041564:+|nuORF ENST00000527958.5_1_11:117041336-117041564:+|nuORF ENST00000527958.5_1_11:117041336-117041564:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.1117553710938 2 588.421168 1174.82778 NaN NaN NaN NaN NaN NaN NaN 105.73 1 105.78 105.28 106.28 0.050888 0 0 0 0.91452 1 57215 57215 0 0 1 15880 8686 10152 10176 18234 18234 0.247362926294727 LFKKKKKKKV 10 Unmodified _LFKKKKKKKV_ 0 0 0 ENST00000527958.5_1_11:117041336-117041564:+|nuORF ENST00000527958.5_1_11:117041336-117041564:+|nuORF ENST00000527958.5_1_11:117041336-117041564:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 425.6392822265625 3 425.639342 1273.8962 NaN NaN NaN NaN NaN NaN NaN 10.573 1 10.573 10.073 11.073 0 0 0 0 1.002 1 4684 4684 0 0 1 15881 8686 10153 10177 18235 18235 0.2702053720931872 LFKKREEEI 9 Unmodified _LFKKREEEI_ 0 0 0 REV__nc|ENSG00000077935|Q8NDV3-2|SMC1B REV__nc|ENSG00000077935|Q8NDV3-2|SMC1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 596.3428344726562 2 596.340238 1190.66592 4.1329 0.0024646 0.18724 0.00011166 4.3202 0.0025763 596.340324651356 13.419 0.2874 14.062 13.958 14.246 0.64272 49 20 4 0 0 0 0.22427 1 6056 6056 28.495 0 1 608540 + 15882 10565 10154 10178 18236 18236 0.07821659085902866 LFKLILKKE 9 Unmodified _LFKLILKKE_ 0 0 0 ENST00000525547.5_1_11:112014321-112020942:-|nuORF;nc|ENSG00000150782|Q14116-2|IL18;ENSG00000150782|ENST00000280357|IL18 ENST00000525547.5_1_11:112014321-112020942:-|nuORF ENST00000525547.5_1_11:112014321-112020942:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.3792724609375 2 566.378635 1130.74272 NaN NaN NaN NaN NaN NaN NaN 85.909 1 85.909 85.409 86.409 0 0 0 0 0.90511 1 43880 43880 2.3027 0 1 15883 3679 10155 10179 18237 18237 0.18257502373035095 LFKMLKRTW 9 Unmodified _LFKMLKRTW_ 0 0 0 REV__ENST00000446285.5_1_2:10584666-10585103:-|nuORF REV__ENST00000446285.5_1_2:10584666-10585103:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 612.24462890625 2 611.860086 1221.70562 NaN NaN NaN NaN NaN NaN NaN 91.847 1 92.1 91.6 92.6 0.25253 0 0 0 0.90611 1 42229 42229 2.0598 0.86641 1 + 15884 16062 10156 10180 18238 18238 0.10363507555598517 LFKNDPLFF 9 Unmodified _LFKNDPLFF_ 0 0 0 nc|ENSG00000103642|P83111-2|LACTB;ENSG00000103642|ENST00000261893|LACTB nc|ENSG00000103642|P83111-2|LACTB nc|ENSG00000103642|P83111-2|LACTB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.80712890625 2 570.808042 1139.60153 3.0059 0.0017158 -0.80525 -0.00045965 2.2006 0.0012561 570.8078703909202 77.187 0.37795 77.747 77.445 77.823 0.56091 60 31 3 0 0 0 0.0079462 2 37419 37362;37419 85.642 49.493 1 1323200 15885 1411 10157 10181 18239;18240 18240 0.03731503999733832 LFKNDPLFF 9 Unmodified _LFKNDPLFF_ 0 0 0 nc|ENSG00000103642|P83111-2|LACTB;ENSG00000103642|ENST00000261893|LACTB nc|ENSG00000103642|P83111-2|LACTB nc|ENSG00000103642|P83111-2|LACTB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 570.80859375 2 570.808042 1139.60153 3.3288 0.0019001 -0.66708 -0.00038078 2.6617 0.0015193 570.807808904018 77.792 0.2695 78.045 77.914 78.183 0.25335 32 14 3 0 0 0 0.0063542 2 35801 35801;35860 88.954 32.777 1 1448700 15886 1411 10157 10181 18241;18242 18241 0.03731503999733832 LFKNDPLFF 9 Unmodified _LFKNDPLFF_ 0 0 0 nc|ENSG00000103642|P83111-2|LACTB;ENSG00000103642|ENST00000261893|LACTB nc|ENSG00000103642|P83111-2|LACTB nc|ENSG00000103642|P83111-2|LACTB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.8086547851562 2 570.808042 1139.60153 3.4277 0.0019566 -0.58148 -0.00033191 2.8463 0.0016247 570.8075401773154 77.323 0.29382 77.986 77.842 78.136 0.66302 55 22 3 0 0 0 0.0020791 2 35657 35610;35657 103.35 70.568 1 1139700 15887 1411 10157 10181 18243;18244 18244 0.03731503999733832 LFKQMIWGRIQ 11 Unmodified _LFKQMIWGRIQ_ 0 0 0 REV__MER66B_dup114|chr2:10389000-10389478:+|1.966365985091881|0.037489665215567|5.71|501.0|19|1|anti-sense REV__MER66B_dup114|chr2:10389000-10389478:+|1.966365985091881|0.037489665215567|5.71|501.0|19|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 710.4022827148438 2 710.400107 1418.78566 NaN NaN NaN NaN NaN NaN NaN 92.989 1 93.075 92.575 93.575 0.086212 0 0 0 1.0038 1 48610 48610 5.7319 0.43497 1 + 15888 17833 10158 10182 18245 18245 0.09301949158816569 LFKRISEQF 9 Unmodified _LFKRISEQF_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.33203125 2 584.329673 1166.64479 NaN NaN NaN NaN NaN NaN NaN 39.71 1 40.351 39.851 40.851 0.64136 0 0 0 0.024856 1 18151 18151 70.332 20.663 1 15889 5660;6301;1452 10159 10183 18246 18246 0.06813693777030494 LFKRQAPRK 9 Unmodified _LFKRQAPRK_ 0 0 0 ZSCAN21|p.N246Mfs*240|1|0.3|ENSG00000166529|chr7:100063929-100063929|A/-|frameshift_variant ZSCAN21|p.N246Mfs*240|1|0.3|ENSG00000166529|chr7:100063929-100063929|A/-|frameshift_variant ZSCAN21|p.N246Mfs*240|1|0.3|ENSG00000166529|chr7:100063929-100063929|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.94970703125 2 572.359099 1142.70365 NaN NaN NaN NaN NaN NaN NaN 84.419 1 84.419 83.919 84.919 0 0 0 0 0.89683 1 42736 42736 4.3292 0.38484 1 15890 18299 10160 10184 18247 18247 0.13800214862021676 LFKRRQKW 8 Unmodified _LFKRRQKW_ 0 0 0 REV__ENSG00000126351|ENST00000450525|THRA REV__ENSG00000126351|ENST00000450525|THRA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.3561401367188 2 581.353817 1160.69308 NaN NaN NaN NaN NaN NaN NaN 32.723 1 32.977 32.477 33.477 0.25389 0 0 0 0.99035 1 14902 14902 2.5775 0 1 + 15891 11708 10161 10185 18248 18248 0.11916232207590838 LFLDFLEEFQ 10 Unmodified _LFLDFLEEFQ_ 0 0 0 ENSG00000076003|ENST00000264156|MCM6 ENSG00000076003|ENST00000264156|MCM6 ENSG00000076003|ENST00000264156|MCM6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 650.7908935546875 2 650.826629 1299.63871 NaN NaN NaN NaN NaN NaN NaN 79.736 1 79.736 79.236 80.236 0 0 0 0 0.99464 1 39437 39437 6.2058 0.9089 1 15892 841 10162 10186 18249 18249 0.0008713075485502486 LFLEISTSEN 10 Unmodified _LFLEISTSEN_ 0 0 0 ENSG00000122035|ENST00000241463|RASL11A ENSG00000122035|ENST00000241463|RASL11A ENSG00000122035|ENST00000241463|RASL11A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.7947387695312 2 576.792786 1151.57102 NaN NaN NaN NaN NaN NaN NaN 55.724 1 55.99 55.49 56.49 0.26543 0 0 0 0.99733 1 25486 25486 3.9444 0 1 15893 2254 10163 10187 18250 18250 0.0012968082407951442 LFLEKFFL 8 Unmodified _LFLEKFFL_ 0 0 0 nc|ENSG00000147724|Q49AJ0-2|FAM135B;ENST00000482951.6_1_8:139144838-139379577:-|nuORF;ENSG00000147724|ENST00000395297|FAM135B nc|ENSG00000147724|Q49AJ0-2|FAM135B nc|ENSG00000147724|Q49AJ0-2|FAM135B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.8113403320312 2 528.810054 1055.60555 3.1605 0.0016713 0.19021 0.00010059 3.3507 0.0017719 528.8097916875272 33.048 0.26891 33.666 33.526 33.795 0.61832 22 14 2 0 0 0 0.62155 1 15187 15187 6.7232 0 1 292380 15894 3580 10164 10188 18251 18251 0.07997593493473687 LFLFLFLIRRP 11 Unmodified _LFLFLFLIRRP_ 0 0 0 REV__ENST00000355716.4_1_1:2487866-2488091:+|nuORF REV__ENST00000355716.4_1_1:2487866-2488091:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 718.1693725585938 2 717.952833 1433.89111 NaN NaN NaN NaN NaN NaN NaN 83.253 1 83.253 82.753 83.753 0 0 0 0 1.0071 1 41896 41896 1.4819 0.15237 1 + 15895 15544 10165 10189 18252 18252 0.19152233346721914 LFLFPFHCP 9 Unmodified _LFLFPFHCP_ 0 0 0 REV__nc|ENSG00000071537|Q9UBV2-2|SEL1L REV__nc|ENSG00000071537|Q9UBV2-2|SEL1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.7880859375 2 560.786056 1119.55756 2.935 0.0016459 0.60326 0.0003383 3.5383 0.0019842 560.7859235418487 12.878 0.15323 13.185 13.125 13.279 0.30727 6 4 2 0 0 0 1.101 1 5842 5842 2.3027 0 1 226200 + 15896 10483 10166 10190 18253 18253 0.0025619630177970976 LFLFPFHCP 9 Unmodified _LFLFPFHCP_ 0 0 0 REV__nc|ENSG00000071537|Q9UBV2-2|SEL1L REV__nc|ENSG00000071537|Q9UBV2-2|SEL1L MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 560.786056 1119.55756 2.9557 0.0016575 1.9543 0.0010959 4.91 0.0027534 560.7867143989229 12.913 0.034339 13.156 13.139 13.173 0.24346 -0.014486 0.00064195 NaN 2.3027 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 275580 + 15897 10483 10166 10190 0.0025619630177970976 LFLFPFHCP 9 Unmodified _LFLFPFHCP_ 0 0 0 REV__nc|ENSG00000071537|Q9UBV2-2|SEL1L REV__nc|ENSG00000071537|Q9UBV2-2|SEL1L MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 560.786056 1119.55756 2.935 0.0016459 0.60326 0.0003383 3.5383 0.0019842 560.7859235418487 12.878 0.15323 13.185 13.125 13.279 0.30727 0.014486 -0.00087329 NaN 2.3027 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 226200 + 15898 10483 10166 10190 0.0025619630177970976 LFLFWNHWAFP 11 Unmodified _LFLFWNHWAFP_ 0 0 0 ENST00000522606.5_3_8:42025727-42026576:+|nuORF ENST00000522606.5_3_8:42025727-42026576:+|nuORF ENST00000522606.5_3_8:42025727-42026576:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 739.3756103515625 2 739.374415 1476.73428 NaN NaN NaN NaN NaN NaN NaN 28.171 1 28.791 28.291 29.291 0.61947 0 0 0 1.008 1 12918 12918 0.35063 0.043601 1 15899 8651 10167 10191 18254 18254 0.014979484564037193 LFLGHAPA 8 Unmodified _LFLGHAPA_ 0 0 0 REV__ENST00000493657.1_1_1:1246183-1246756:+|nuORF REV__ENST00000493657.1_1_1:1246183-1246756:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 413.2352294921875 2 413.234513 824.454474 2.7617 0.0011412 -0.62892 -0.00025989 2.1328 0.00088133 413.23416280159665 49.25 0.30482 50.077 49.919 50.224 0.82705 26 15 2 0 0 0 0.7471 1 22439 22439 0.79363 0 1 533110 + 15900 13412 10168 10192 18255 18255 0.03522451905462276 LFLGHAPA 8 Unmodified _LFLGHAPA_ 0 0 0 REV__ENST00000493657.1_1_1:1246183-1246756:+|nuORF REV__ENST00000493657.1_1_1:1246183-1246756:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 413.234513 824.454474 2.6966 0.0011143 -0.62902 -0.00025993 2.0675 0.00085438 413.23435953605326 50.317 0.29191 50.317 50.147 50.439 0 0.1054 9.4175E-05 NaN 0.79363 24 13 3 NaN NaN NaN NaN 0 NaN NaN 0 667050 + 15901 13412 10168 10192 0.03522451905462276 LFLGHAPA 8 Unmodified _LFLGHAPA_ 0 0 0 REV__ENST00000493657.1_1_1:1246183-1246756:+|nuORF REV__ENST00000493657.1_1_1:1246183-1246756:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 413.234513 824.454474 2.9375 0.0012139 -0.82818 -0.00034223 2.1093 0.00087164 413.2342143746551 49.951 0.16867 50.213 50.108 50.277 0.26146 0.0014388 -7.0427E-05 NaN 0.79363 11 5 3 NaN NaN NaN NaN 0 NaN NaN 0 367930 + 15902 13412 10168 10192 0.03522451905462276 LFLGHAPA 8 Unmodified _LFLGHAPA_ 0 0 0 REV__ENST00000493657.1_1_1:1246183-1246756:+|nuORF REV__ENST00000493657.1_1_1:1246183-1246756:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 413.234513 824.454474 3.0196 0.0012478 -0.89451 -0.00036964 2.1251 0.00087818 413.23414705192175 49.582 0.42204 50.239 49.918 50.34 0.65735 0.02761 -0.00012524 NaN 0.79363 23 14 3 NaN NaN NaN NaN 0 NaN NaN 0 619520 + 15903 13412 10168 10192 0.03522451905462276 LFLKKKKKKK 10 Unmodified _LFLKKKKKKK_ 0 0 0 ENST00000344423.9_1_8:28205640-28205820:-|nuORF ENST00000344423.9_1_8:28205640-28205820:-|nuORF ENST00000344423.9_1_8:28205640-28205820:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.8788452148438 2 644.9632 1287.91185 NaN NaN NaN NaN NaN NaN NaN 97.222 1 97.222 96.722 97.722 0 0 0 0 1.002 1 52859 52859 0 0 1 15904 7100 10169 10193 18256 18256 0.27940823726385133 LFLLLLRPAS 10 Unmodified _LFLLLLRPAS_ 0 0 0 REV__TMEM165|p.F237Lfs*7|1|0.24|ENSG00000134851|chr4:55417900-55417900|T/-|frameshift_variant REV__TMEM165|p.F237Lfs*7|1|0.24|ENSG00000134851|chr4:55417900-55417900|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.5823669433594 3 381.581382 1141.72232 1.8879 0.00072037 0.80101 0.00030565 2.6889 0.001026 381.5815838590946 77.878 0.40525 78.439 78.238 78.643 0.56091 72 35 3 0 0 0 0.89607 1 37820 37820 3.8763 1.97 1 2244000 + 15905 11986 10170 10194 18257 18257 0.15712331713234562 LFLLLLRPAS 10 Unmodified _LFLLLLRPAS_ 0 0 0 REV__TMEM165|p.F237Lfs*7|1|0.24|ENSG00000134851|chr4:55417900-55417900|T/-|frameshift_variant REV__TMEM165|p.F237Lfs*7|1|0.24|ENSG00000134851|chr4:55417900-55417900|T/-|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 381.581382 1141.72232 2.1809 0.00083219 1.2663 0.00048319 3.4472 0.0013154 381.9162197260227 78.369 0.19255 78.369 78.26 78.453 0 -0.056423 0.00014679 NaN 3.8763 37 17 3 NaN NaN NaN NaN 0 NaN NaN 0 3325200 + 15906 11986 10170 10194 0.15712331713234562 LFLLLLRPAS 10 Unmodified _LFLLLLRPAS_ 0 0 0 REV__TMEM165|p.F237Lfs*7|1|0.24|ENSG00000134851|chr4:55417900-55417900|T/-|frameshift_variant REV__TMEM165|p.F237Lfs*7|1|0.24|ENSG00000134851|chr4:55417900-55417900|T/-|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 381.581382 1141.72232 1.8879 0.00072037 0.80101 0.00030565 2.6889 0.001026 381.5815838590946 77.878 0.40525 78.439 78.238 78.643 0.56091 0.013637 -0.00038584 NaN 3.8763 72 35 3 NaN NaN NaN NaN 0 NaN NaN 0 2244000 + 15907 11986 10170 10194 0.15712331713234562 LFLLLLRPAS 10 Unmodified _LFLLLLRPAS_ 0 0 0 REV__TMEM165|p.F237Lfs*7|1|0.24|ENSG00000134851|chr4:55417900-55417900|T/-|frameshift_variant REV__TMEM165|p.F237Lfs*7|1|0.24|ENSG00000134851|chr4:55417900-55417900|T/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 381.581382 1141.72232 2.6682 0.0010181 1.4257 0.00054403 4.0939 0.0015622 381.5817912637798 78.215 0.27748 78.468 78.292 78.569 0.25334 0.042786 0.00032931 NaN 3.8763 38 15 3 NaN NaN NaN NaN 0 NaN NaN 0 820880 + 15908 11986 10170 10194 0.15712331713234562 LFLLPDLLI 9 Unmodified _LFLLPDLLI_ 0 0 0 ENST00000558919.1_1_15:62168040-62173146:-|nuORF ENST00000558919.1_1_15:62168040-62173146:-|nuORF ENST00000558919.1_1_15:62168040-62173146:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.56109619140625 3 352.894966 1055.66307 1.8533 0.00065402 0.064506 2.2764E-05 1.9178 0.00067679 353.22905577258484 12.667 0.11395 12.975 12.909 13.023 0.30727 8 3 3 0 0 0 0.1026 1 5726 5726 11.495 11.495 1 772290 15909 8959 10171 10195 18258 18258 0.13746435699044923 LFLPGRVNP 9 Unmodified _LFLPGRVNP_ 0 0 0 REV__nc|ENSG00000120451|Q92543-2|SNX19 REV__nc|ENSG00000120451|Q92543-2|SNX19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.20477294921875 3 338.202793 1011.58655 2.3463 0.00079353 2.0463 0.00069207 4.3926 0.0014856 338.20359519956907 45.426 0.50257 45.694 45.523 46.026 0.26768 27 18 2 0 0 0 0.92418 1 20829 20829 5.2969 1.3525 1 1128500 + 15910 11538 10172 10196 18259 18259 0.08122056922422871 LFLPGRVNP 9 Unmodified _LFLPGRVNP_ 0 0 0 REV__nc|ENSG00000120451|Q92543-2|SNX19 REV__nc|ENSG00000120451|Q92543-2|SNX19 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 338.202793 1011.58655 2.2426 0.00075845 0.63599 0.00021509 2.8786 0.00097355 338.2028320194954 44.596 0.46178 45.416 45.268 45.729 0.82075 -0.18075 -0.0010423 NaN 5.2969 27 22 2 NaN NaN NaN NaN 0 NaN NaN 0 579930 + 15911 11538 10172 10196 0.08122056922422871 LFLPMAVPI 9 Unmodified _LFLPMAVPI_ 0 0 0 nc|ENSG00000087111|Q96S52-2|PIGS;ENSG00000087111|ENST00000308360|PIGS;ENST00000487231.5_1_17:26881240-26882135:-|nuORF;ENST00000492429.2_1_17:26881240-26883317:-|nuORF nc|ENSG00000087111|Q96S52-2|PIGS nc|ENSG00000087111|Q96S52-2|PIGS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.8006286621094 2 500.798632 999.582711 3.5547 0.0017802 0.28943 0.00014495 3.8442 0.0019252 500.7988282438982 89.321 0.35166 89.573 89.373 89.724 0.25118 27 17 2 0 0 0 0.92809 1 41082 41082 5.2307 0 1 926140 15912 996 10173 10197 18260 18260 0.08290251104347135 LFLPMAVPI 9 Unmodified _LFLPMAVPI_ 0 0 0 nc|ENSG00000087111|Q96S52-2|PIGS;ENSG00000087111|ENST00000308360|PIGS;ENST00000487231.5_1_17:26881240-26882135:-|nuORF;ENST00000492429.2_1_17:26881240-26883317:-|nuORF nc|ENSG00000087111|Q96S52-2|PIGS nc|ENSG00000087111|Q96S52-2|PIGS MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 500.798632 999.582711 3.3979 0.0017017 0.02574 1.2891E-05 3.4236 0.0017146 500.79858293442203 88.884 0.3623 89.562 89.423 89.785 0.67818 -0.0054478 -0.00019508 NaN 5.2307 25 15 2 NaN NaN NaN NaN 0 NaN NaN 0 1353500 15913 996 10173 10197 0.08290251104347135 LFLPPMVP 8 Unmodified _LFLPPMVP_ 0 0 0 REV__MUC4|p.S2359Afs*647|1|0.07|ENSG00000145113|chr3:195784506-195784507|-/AGGCT|frameshift_variant REV__MUC4|p.S2359Afs*647|1|0.07|ENSG00000145113|chr3:195784506-195784507|-/AGGCT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.2662353515625 2 457.264425 912.514297 3.1348 0.0014335 0.17549 8.0245E-05 3.3103 0.0015137 457.26442028878307 89.833 0.37317 90.084 89.848 90.221 0.25137 40 16 3 0 0 0 0.7471 1 41266 41266 0.79363 0 1 2189600 + 15914 17844 10174 10198 18261 18261 0.05454006524496435 LFLPPMVP 8 Unmodified _LFLPPMVP_ 0 0 0 REV__MUC4|p.S2359Afs*647|1|0.07|ENSG00000145113|chr3:195784506-195784507|-/AGGCT|frameshift_variant REV__MUC4|p.S2359Afs*647|1|0.07|ENSG00000145113|chr3:195784506-195784507|-/AGGCT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.2662353515625 2 457.264425 912.514297 3.1139 0.0014239 0.48738 0.00022286 3.6013 0.0016468 457.26446779142475 89.441 0.40431 90.119 89.91 90.314 0.67818 52 20 4 0 0 0 0.7471 1 41250 41250 0.79363 0 1 2260100 + 15915 17844 10174 10198 18262 18262 0.05454006524496435 LFLPPVSRWF 10 Unmodified _LFLPPVSRWF_ 0 0 0 REV__ENST00000458098.5_1_2:7001504-7005415:-|nuORF REV__ENST00000458098.5_1_2:7001504-7005415:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 631.5326538085938 2 631.358234 1260.70191 3.2576 0.0020567 3.7379 0.0023599 6.9955 0.0044166 631.8598224538305 82.868 0.050369 82.868 82.826 82.876 0 7 5 2 0 0 0 0.12676 1 41605 41605 3.9444 0.94915 1 8129000 + 15916 16465 10175 10199 18263 18263 0.08199161053425996 LFLPRTDYSF 10 Unmodified _LFLPRTDYSF_ 0 0 0 ENSG00000231389|ENST00000419277|HLA-DPA1;ENST00000479107.1_1_6:33036772-33037066:-|nuORF ENSG00000231389|ENST00000419277|HLA-DPA1 ENSG00000231389|ENST00000419277|HLA-DPA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 629.827392578125 2 629.826963 1257.63937 NaN NaN NaN NaN NaN NaN NaN 70.778 1 71.44 70.94 71.94 0.66209 0 0 0 0.93823 1 32438 32438 15.248 2.7169 1 15917 6182 10176 10200 18264 18264 0.020859701945255438 LFLPYSHFL 9 Unmodified _LFLPYSHFL_ 0 0 0 GGCX|p.D614Wfs*7|1|0.08|ENSG00000115486|chr2:85550970-85550973|GGTC/-|frameshift_variant;nc|ENSG00000115486|P38435-2|GGCX;ENSG00000115486|ENST00000233838|GGCX GGCX|p.D614Wfs*7|1|0.08|ENSG00000115486|chr2:85550970-85550973|GGTC/-|frameshift_variant GGCX|p.D614Wfs*7|1|0.08|ENSG00000115486|chr2:85550970-85550973|GGTC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.8126220703125 2 568.810585 1135.60662 3.4949 0.0019879 0.79262 0.00045085 4.2875 0.0024388 568.8111802950452 83.957 0.27048 84.205 84.047 84.317 0.24722 27 15 2 0 0 0 0.028312 1 38637 38637 57.471 25.166 1 1060500 15918 1973 10177 10201 18265 18265 0.04423807862372087 LFLPYSHFL 9 Unmodified _LFLPYSHFL_ 0 0 0 GGCX|p.D614Wfs*7|1|0.08|ENSG00000115486|chr2:85550970-85550973|GGTC/-|frameshift_variant;nc|ENSG00000115486|P38435-2|GGCX;ENSG00000115486|ENST00000233838|GGCX GGCX|p.D614Wfs*7|1|0.08|ENSG00000115486|chr2:85550970-85550973|GGTC/-|frameshift_variant GGCX|p.D614Wfs*7|1|0.08|ENSG00000115486|chr2:85550970-85550973|GGTC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.8118896484375 2 568.810585 1135.60662 3.7414 0.0021282 0.33122 0.0001884 4.0727 0.0023166 568.8101513859605 83.427 0.29083 84.089 83.909 84.2 0.66219 45 19 3 0 0 0 0.056465 2 38433 38382;38433 44.407 19.008 1 605250 15919 1973 10177 10201 18266;18267 18267 0.04423807862372087 LFLVSAPF 8 Unmodified _LFLVSAPF_ 0 0 0 ENST00000357508.5_1_1:45190214-45190565:+|nuORF ENST00000357508.5_1_1:45190214-45190565:+|nuORF ENST00000357508.5_1_1:45190214-45190565:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 447.259033203125 2 447.260197 892.50584 NaN NaN NaN NaN NaN NaN NaN 57.462 1 58.23 57.73 58.73 0.76861 0 0 0 0.99035 1 26314 26314 5.2307 0.47466 1 15920 7179 10178 10202 18268 18268 0.055287758795202535 LFLYRARTSF 10 Unmodified _LFLYRARTSF_ 0 0 0 REV__ENSG00000177669|ENST00000320542|MBOAT4 REV__ENSG00000177669|ENST00000320542|MBOAT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 637.3543090820312 2 637.356222 1272.69789 NaN NaN NaN NaN NaN NaN NaN 69.099 1 69.758 69.258 70.258 0.65924 0 0 0 0.91283 1 31675 31675 19.257 6.2145 1 + 15921 13741 10179 10203 18269 18269 0.07245071559691496 LFNEHIEAL 9 Unmodified _LFNEHIEAL_ 0 0 0 ENST00000514719.1_1_5:145883057-145886815:+|nuORF;ENST00000503741.5_1_5:145883557-145887476:+|nuORF;ENST00000506524.5_1_5:145862104-145889630:+|nuORF;nc|ENSG00000113649|O14776-2|TCERG1;nc|ENSG00000113649|O14776|TCERG1;ENSG00000113649|ENST00000679501|TCERG1 ENST00000514719.1_1_5:145883057-145886815:+|nuORF;nc|ENSG00000113649|O14776-2|TCERG1 nc|ENSG00000113649|O14776-2|TCERG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.1891479492188 2 543.284931 1084.55531 NaN NaN NaN NaN NaN NaN NaN 67.849 1 68.101 67.601 68.601 0.25227 0 0 0 0.84134 1 31080 31080 7.9102 1.187 1 15922 8585;1868 10180 10204 18270 18270 0.016414390976706272 LFNPFLKRWNK 11 Unmodified _LFNPFLKRWNK_ 0 0 0 REV__nc|ENSG00000163806|Q5MJ70-1|SPDYA REV__nc|ENSG00000163806|Q5MJ70-1|SPDYA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 731.919677734375 2 731.919521 1461.82449 NaN NaN NaN NaN NaN NaN NaN 79.708 1 79.957 79.457 80.457 0.24947 0 0 0 1.008 1 36702 36702 0.30703 0 1 + 15923 13028 10181 10205 18271 18271 0.11204997784830084 LFPAPILRAVP 11 Unmodified _LFPAPILRAVP_ 0 0 0 nc|ENSG00000132185|Q7L513-5|FCRLA;nc|ENSG00000132185|Q7L513-4|FCRLA;nc|ENSG00000132185|Q7L513-14|FCRLA;ENST00000470841.1_1_1:161681590-161683167:+|nuORF;nc|ENSG00000132185|Q7L513-11|FCRLA;nc|ENSG00000132185|Q7L513-3|FCRLA;nc|ENSG00000132185|Q7L513-12|FCRLA;ENSG00000132185|ENST00000236938|FCRLA;nc|ENSG00000132185|Q7L513-2|FCRLA;nc|ENSG00000132185|Q7L513-9|FCRLA;nc|ENSG00000132185|Q7L513-10|FCRLA nc|ENSG00000132185|Q7L513-5|FCRLA nc|ENSG00000132185|Q7L513-5|FCRLA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 398.5865478515625 3 398.585015 1192.73321 2.4893 0.00099222 0.95551 0.00038085 3.4449 0.0013731 398.5853570356953 45.934 0.72938 45.934 45.403 46.132 0 76 35 3 0 0 0 0.89544 2 20967 20917;20967 2.6312 0 1 2738700 15924 2686 10182 10206 18272;18273 18273 0.14455734087505334 LFPAPILRAVP 11 Unmodified _LFPAPILRAVP_ 0 0 0 nc|ENSG00000132185|Q7L513-5|FCRLA;nc|ENSG00000132185|Q7L513-4|FCRLA;nc|ENSG00000132185|Q7L513-14|FCRLA;ENST00000470841.1_1_1:161681590-161683167:+|nuORF;nc|ENSG00000132185|Q7L513-11|FCRLA;nc|ENSG00000132185|Q7L513-3|FCRLA;nc|ENSG00000132185|Q7L513-12|FCRLA;ENSG00000132185|ENST00000236938|FCRLA;nc|ENSG00000132185|Q7L513-2|FCRLA;nc|ENSG00000132185|Q7L513-9|FCRLA;nc|ENSG00000132185|Q7L513-10|FCRLA nc|ENSG00000132185|Q7L513-5|FCRLA nc|ENSG00000132185|Q7L513-5|FCRLA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.91986083984375 3 398.585015 1192.73321 2.9025 0.0011569 0.45239 0.00018032 3.3549 0.0013372 398.58526608964803 45.453 0.89455 45.721 45.231 46.125 0.26768 76 36 3 0 0 0 0.89988 2 20680 20680;20868 2.4348 2.4348 1 3602800 15925 2686 10182 10206 18274;18275 18274 0.14455734087505334 LFPAPILRAVP 11 Unmodified _LFPAPILRAVP_ 0 0 0 nc|ENSG00000132185|Q7L513-5|FCRLA;nc|ENSG00000132185|Q7L513-4|FCRLA;nc|ENSG00000132185|Q7L513-14|FCRLA;ENST00000470841.1_1_1:161681590-161683167:+|nuORF;nc|ENSG00000132185|Q7L513-11|FCRLA;nc|ENSG00000132185|Q7L513-3|FCRLA;nc|ENSG00000132185|Q7L513-12|FCRLA;ENSG00000132185|ENST00000236938|FCRLA;nc|ENSG00000132185|Q7L513-2|FCRLA;nc|ENSG00000132185|Q7L513-9|FCRLA;nc|ENSG00000132185|Q7L513-10|FCRLA nc|ENSG00000132185|Q7L513-5|FCRLA nc|ENSG00000132185|Q7L513-5|FCRLA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.58648681640625 3 398.585015 1192.73321 3.0814 0.0012282 0.3357 0.00013381 3.4171 0.001362 398.58515388496244 44.683 0.71341 45.333 44.828 45.541 0.64998 61 29 3 0 0 0 0.89988 1 20485 20485 2.4348 0 1 2474200 15926 2686 10182 10206 18276 18276 0.14455734087505334 LFPAPILRAVP 11 Unmodified _LFPAPILRAVP_ 0 0 0 nc|ENSG00000132185|Q7L513-5|FCRLA;nc|ENSG00000132185|Q7L513-4|FCRLA;nc|ENSG00000132185|Q7L513-14|FCRLA;ENST00000470841.1_1_1:161681590-161683167:+|nuORF;nc|ENSG00000132185|Q7L513-11|FCRLA;nc|ENSG00000132185|Q7L513-3|FCRLA;nc|ENSG00000132185|Q7L513-12|FCRLA;ENSG00000132185|ENST00000236938|FCRLA;nc|ENSG00000132185|Q7L513-2|FCRLA;nc|ENSG00000132185|Q7L513-9|FCRLA;nc|ENSG00000132185|Q7L513-10|FCRLA nc|ENSG00000132185|Q7L513-5|FCRLA nc|ENSG00000132185|Q7L513-5|FCRLA MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 398.585015 1192.73321 2.4893 0.00099222 0.95551 0.00038085 3.4449 0.0013731 398.5853570356953 45.934 0.72938 45.934 45.403 46.132 0 0.1755 0.00033977 NaN 2.6312 76 35 3 NaN NaN NaN NaN 0 NaN NaN 0 2738700 15927 2686 10182 10206 0.14455734087505334 LFPAPILRAVP 11 Unmodified _LFPAPILRAVP_ 0 0 0 nc|ENSG00000132185|Q7L513-5|FCRLA;nc|ENSG00000132185|Q7L513-4|FCRLA;nc|ENSG00000132185|Q7L513-14|FCRLA;ENST00000470841.1_1_1:161681590-161683167:+|nuORF;nc|ENSG00000132185|Q7L513-11|FCRLA;nc|ENSG00000132185|Q7L513-3|FCRLA;nc|ENSG00000132185|Q7L513-12|FCRLA;ENSG00000132185|ENST00000236938|FCRLA;nc|ENSG00000132185|Q7L513-2|FCRLA;nc|ENSG00000132185|Q7L513-9|FCRLA;nc|ENSG00000132185|Q7L513-10|FCRLA nc|ENSG00000132185|Q7L513-5|FCRLA nc|ENSG00000132185|Q7L513-5|FCRLA MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 398.585015 1192.73321 3.1058 0.0012379 0.23152 9.2279E-05 3.3373 0.0013302 398.5853059755123 45.014 0.29033 45.664 45.515 45.806 0.64999 -0.094864 -0.00052595 NaN 2.6312 18 10 2 NaN NaN NaN NaN 0 NaN NaN 0 1997500 15928 2686 10182 10206 0.14455734087505334 LFPCFALPFTR 11 Unmodified _LFPCFALPFTR_ 0 0 0 REV__ENST00000464307.5_1_11:64374670-64390737:-|nuORF REV__ENST00000464307.5_1_11:64374670-64390737:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 438.1036376953125 3 437.902126 1310.68455 NaN NaN NaN NaN NaN NaN NaN 65.365 1 66.074 65.574 66.574 0.70891 0 0 0 1.0051 1 30909 30909 4.1166 0.27072 1 + 15929 16528 10183 10207 18277 18277 0.041634974560793125 LFPFLVLL 8 Unmodified _LFPFLVLL_ 0 0 0 ENSG00000124107|ENST00000338380|SLPI ENSG00000124107|ENST00000338380|SLPI ENSG00000124107|ENST00000338380|SLPI MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.3097839355469 2 481.30969 960.604826 NaN NaN NaN NaN NaN NaN NaN 38.422 1 39.056 38.556 39.556 0.63388 0 0 0 0.81105 1 17571 17571 17.087 5.9721 1 15930 2336 10184 10208 18278 18278 0.1229479884441389 LFPLPQLRS 9 Unmodified _LFPLPQLRS_ 0 0 0 REV__ENSG00000159708|ENST00000329956|LRRC36 REV__ENSG00000159708|ENST00000329956|LRRC36 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 357.2152099609375 3 357.550082 1069.62842 2.454 0.00087741 0.61511 0.00021993 3.0691 0.0010973 357.55027908982777 49.6 0.24873 50.423 50.248 50.497 0.82285 18 13 2 0 0 0 0.11335 1 22561 22561 2.086 0.60411 1 438630 + 15931 12858 10185 10209 18279 18279 0.09638612610933706 LFPPIPVV 8 Unmodified _LFPPIPVV_ 0 0 0 ENST00000552590.6_1_12:57146068-57146134:-|nuORF ENST00000552590.6_1_12:57146068-57146134:-|nuORF ENST00000552590.6_1_12:57146068-57146134:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.278564453125 2 441.278389 880.542226 NaN NaN NaN NaN NaN NaN NaN 61.327 1 61.327 60.827 61.827 0 0 0 0 0.99035 1 28594 28594 2.8892 0 1 15932 8891 10186 10210 18280 18280 0.09717652776225805 LFQTSETII 9 Unmodified _LFQTSETII_ 0 0 0 ENST00000554399.1_1_14:52907374-53019172:-|nuORF ENST00000554399.1_1_14:52907374-53019172:-|nuORF ENST00000554399.1_1_14:52907374-53019172:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.2880249023438 2 526.28714 1050.55973 3.2549 0.001713 -0.094061 -4.9503E-05 3.1609 0.0016635 526.2868881838414 50.095 0.28981 50.752 50.563 50.853 0.65735 21 10 3 0 0 0 0.071132 1 22902 22902 39.95 0 1 532290 15933 8905 10187 10211 18281 18281 0.03646903520575506 LFRDKVVAL 9 Unmodified _LFRDKVVAL_ 0 0 0 ENST00000524192.6_1_20:61904210-61909556:+|nuORF;ENST00000519531.5_1_20:61904210-61914317:+|nuORF;nc|ENSG00000101199|Q8N6T3-5|ARFGAP1;nc|ENSG00000101199|Q8N6T3-3|ARFGAP1;ENSG00000101199|ENST00000370283|ARFGAP1;nc|ENSG00000101199|Q8N6T3-2|ARFGAP1 ENST00000524192.6_1_20:61904210-61909556:+|nuORF ENST00000524192.6_1_20:61904210-61909556:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.8306884765625 2 530.829309 1059.64407 3.0229 0.0016047 0.038178 2.0266E-05 3.0611 0.0016249 530.8295218133147 45.195 0.26667 45.463 45.274 45.541 0.26768 20 12 2 0 0 0 0.035495 2 20636 20636;20688 53.404 17.277 1 1111300 15934 1271 10188 10212 18282;18283 18282 0.11662899127986748 LFRDKVVAL 9 Unmodified _LFRDKVVAL_ 0 0 0 ENST00000524192.6_1_20:61904210-61909556:+|nuORF;ENST00000519531.5_1_20:61904210-61914317:+|nuORF;nc|ENSG00000101199|Q8N6T3-5|ARFGAP1;nc|ENSG00000101199|Q8N6T3-3|ARFGAP1;ENSG00000101199|ENST00000370283|ARFGAP1;nc|ENSG00000101199|Q8N6T3-2|ARFGAP1 ENST00000524192.6_1_20:61904210-61909556:+|nuORF ENST00000524192.6_1_20:61904210-61909556:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 354.22296142578125 3 354.221965 1059.64407 2.4295 0.0008606 0.32154 0.0001139 2.7511 0.0009745 354.2219956299407 45.168 0.31351 45.436 45.274 45.587 0.26768 35 14 3 0 0 0 0.11458 1 20657 20657 33.445 15.072 1 2079700 15935 1271 10188 10212 18284 18284 0.11662899127986748 LFRDKVVAL 9 Unmodified _LFRDKVVAL_ 0 0 0 ENST00000524192.6_1_20:61904210-61909556:+|nuORF;ENST00000519531.5_1_20:61904210-61914317:+|nuORF;nc|ENSG00000101199|Q8N6T3-5|ARFGAP1;nc|ENSG00000101199|Q8N6T3-3|ARFGAP1;ENSG00000101199|ENST00000370283|ARFGAP1;nc|ENSG00000101199|Q8N6T3-2|ARFGAP1 ENST00000524192.6_1_20:61904210-61909556:+|nuORF ENST00000524192.6_1_20:61904210-61909556:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.8310546875 2 530.829309 1059.64407 3.4223 0.0018167 0.80243 0.00042595 4.2248 0.0022426 530.8298253854435 44.496 0.27475 45.146 44.99 45.265 0.64999 24 10 3 0 0 0 0.069974 2 20428 20377;20428 40.239 14.84 1 761800 15936 1271 10188 10212 18285;18286 18286 0.11662899127986748 LFRDKVVAL 9 Unmodified _LFRDKVVAL_ 0 0 0 ENST00000524192.6_1_20:61904210-61909556:+|nuORF;ENST00000519531.5_1_20:61904210-61914317:+|nuORF;nc|ENSG00000101199|Q8N6T3-5|ARFGAP1;nc|ENSG00000101199|Q8N6T3-3|ARFGAP1;ENSG00000101199|ENST00000370283|ARFGAP1;nc|ENSG00000101199|Q8N6T3-2|ARFGAP1 ENST00000524192.6_1_20:61904210-61909556:+|nuORF ENST00000524192.6_1_20:61904210-61909556:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 354.2229919433594 3 354.221965 1059.64407 2.6412 0.00093557 0.35225 0.00012478 2.9934 0.0010603 354.22202878128 44.496 0.33644 45.146 44.955 45.291 0.64998 33 13 3 0 0 0 0.079031 1 20417 20417 34.932 16.786 1 1704900 15937 1271 10188 10212 18287 18287 0.11662899127986748 LFRDKVVAL 9 Unmodified _LFRDKVVAL_ 0 0 0 ENST00000524192.6_1_20:61904210-61909556:+|nuORF;ENST00000519531.5_1_20:61904210-61914317:+|nuORF;nc|ENSG00000101199|Q8N6T3-5|ARFGAP1;nc|ENSG00000101199|Q8N6T3-3|ARFGAP1;ENSG00000101199|ENST00000370283|ARFGAP1;nc|ENSG00000101199|Q8N6T3-2|ARFGAP1 ENST00000524192.6_1_20:61904210-61909556:+|nuORF ENST00000524192.6_1_20:61904210-61909556:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 354.221965 1059.64407 2.4619 0.00087205 -0.12898 -4.5689E-05 2.3329 0.00082636 354.2218466526112 45.351 0.23798 45.351 45.256 45.494 0 0.090706 -0.00037618 NaN 34.932 16 11 2 NaN NaN NaN NaN 0 NaN NaN 0 546330 15938 1271 10188 10212 0.11662899127986748 LFRDKVVAL 9 Unmodified _LFRDKVVAL_ 0 0 0 ENST00000524192.6_1_20:61904210-61909556:+|nuORF;ENST00000519531.5_1_20:61904210-61914317:+|nuORF;nc|ENSG00000101199|Q8N6T3-5|ARFGAP1;nc|ENSG00000101199|Q8N6T3-3|ARFGAP1;ENSG00000101199|ENST00000370283|ARFGAP1;nc|ENSG00000101199|Q8N6T3-2|ARFGAP1 ENST00000524192.6_1_20:61904210-61909556:+|nuORF ENST00000524192.6_1_20:61904210-61909556:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 354.221965 1059.64407 2.2696 0.00080395 -0.12978 -4.5971E-05 2.1398 0.00075798 354.22188784509376 44.289 0.22097 45.11 45.047 45.268 0.82075 -0.15083 -0.00037703 NaN 34.932 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 303440 15939 1271 10188 10212 0.11662899127986748 LFRELLLL 8 Unmodified _LFRELLLL_ 0 0 0 REV__ENSG00000111962|ENST00000367463|UST REV__ENSG00000111962|ENST00000367463|UST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.8299560546875 2 508.828778 1015.643 2.816 0.0014329 0.27116 0.00013798 3.0872 0.0015708 508.8289778040433 70.747 0.30159 71.409 71.249 71.551 0.66209 46 18 3 0 0 0 0.61796 1 32482 32482 12.532 0 1 2568600 + 15940 11255 10189 10213 18288 18288 0.1358068475908567 LFRHEMYCSMP 11 Unmodified _LFRHEMYCSMP_ 0 0 0 REV__ENSG00000088854|ENST00000252032|DNAAF9 REV__ENSG00000088854|ENST00000252032|DNAAF9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.8749084472656 3 471.875254 1412.60393 NaN NaN NaN NaN NaN NaN NaN 62.418 1 62.668 62.168 63.168 0.24965 0 0 0 1.0074 1 28577 28577 1.1098 0 1 + 15941 10684 10190 10214 18289 18289 -0.085864749207758 LFRKVRKMKPK 11 Unmodified _LFRKVRKMKPK_ 0 0 0 REV__ENST00000424137.2_1_20:34340744-34341539:+|nuORF REV__ENST00000424137.2_1_20:34340744-34341539:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 358.736572265625 4 358.483971 1429.90678 2.7818 0.00099723 0.93255 0.00033431 3.7144 0.0013315 358.73517746353934 48.083 0.39691 48.345 48.134 48.531 0.2621 24 15 2 0 0 0 0.91459 1 21990 21990 0.094841 0.011491 1 385040 + 15942 16200 10191 10215 18290 18290 0.20902196592101063 LFRLLLRFLR 10 Unmodified _LFRLLLRFLR_ 0 0 0 ENSG00000171954|ENST00000269703|CYP4F22 ENSG00000171954|ENST00000269703|CYP4F22 ENSG00000171954|ENST00000269703|CYP4F22 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 673.9441528320312 2 673.942799 1345.87105 NaN NaN NaN NaN NaN NaN NaN 83.153 1 83.153 82.653 83.653 0 0 0 0 0.99983 1 41821 41821 1.8442 0.36234 1 15943 4847 10192 10216 18291 18291 0.2119448240678139 LFRLLLRFLRL 11 Unmodified _LFRLLLRFLRL_ 0 0 0 ENSG00000171954|ENST00000269703|CYP4F22 ENSG00000171954|ENST00000269703|CYP4F22 ENSG00000171954|ENST00000269703|CYP4F22 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 730.4866333007812 2 730.484831 1458.95511 NaN NaN NaN NaN NaN NaN NaN 58.19 1 58.19 57.69 58.69 0 0 0 0 1.0082 1 26841 26841 0 0 1 15944 4847 10193 10217 18292 18292 0.24399013503693823 LFRTWSEKRRR 11 Unmodified _LFRTWSEKRRR_ 0 0 0 ENST00000484717.5_1_3:38035793-38043423:+|nuORF;nc|ENSG00000136059|O15195-2|VILL;ENSG00000136059|ENST00000383759|VILL ENST00000484717.5_1_3:38035793-38043423:+|nuORF ENST00000484717.5_1_3:38035793-38043423:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 767.9365844726562 2 767.939308 1533.86406 NaN NaN NaN NaN NaN NaN NaN 92.813 1 92.813 92.313 93.313 0 0 0 0 1.008 1 49408 49408 0.35063 0 1 15945 2925 10194 10218 18293 18293 0.11848517788234858 LFRVRRRAVKL 11 Unmodified _LFRVRRRAVKL_ 0 0 0 REV__ENST00000357666.8_1_19:53465991-53466108:-|nuORF REV__ENST00000357666.8_1_19:53465991-53466108:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 707.283203125 2 707.467504 1412.92046 NaN NaN NaN NaN NaN NaN NaN 89.462 1 89.526 89.026 90.026 0.064346 0 0 0 1.008 1 45859 45859 0.35063 0 1 + 15946 15568 10195 10219 18294 18294 0.23051190415594647 LFRYFPRLRQ 10 Unmodified _LFRYFPRLRQ_ 0 0 0 REV__ENST00000512908.2_1_5:70398727-70422449:-|nuORF REV__ENST00000512908.2_1_5:70398727-70422449:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 698.4056396484375 2 698.404038 1394.79352 NaN NaN NaN NaN NaN NaN NaN 76.593 1 76.593 76.093 77.093 0 0 0 0 0.99733 1 37540 37540 3.9444 1.2092 1 + 15947 14646 10196 10220 18295 18295 0.11191844470567958 LFSAVERRR 9 Unmodified _LFSAVERRR_ 0 0 0 ENST00000600898.1_1_19:35769575-35770156:+|nuORF;ENST00000594264.1_1_19:35769575-35770156:+|nuORF ENST00000600898.1_1_19:35769575-35770156:+|nuORF ENST00000600898.1_1_19:35769575-35770156:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3321533203125 2 567.330539 1132.64652 3.6436 0.0020671 -0.87711 -0.00049761 2.7665 0.0015695 567.3299142838137 85.817 1.6519 86.066 85.213 86.865 0.24857 189 85 3 0 0 0 1.1154 1 39814 39814 2.0598 0 1 2716600 15948 9262 10197 10221 18296 18296 0.08550747585650242 LFSTFTITR 9 Unmodified _LFSTFTITR_ 0 0 0 nc|ENSG00000104774|O00754-2|MAN2B1;ENSG00000104774|ENST00000456935|MAN2B1;ENST00000469423.1_1_19:12757436-12758173:-|nuORF nc|ENSG00000104774|O00754-2|MAN2B1 nc|ENSG00000104774|O00754-2|MAN2B1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.3018798828125 2 543.303124 1084.5917 NaN NaN NaN NaN NaN NaN NaN 34.793 1 35.047 34.547 35.547 0.25389 0 0 0 0.42757 1 15848 15848 21.747 2.4897 1 15949 1449 10198 10222 18297 18297 0.05278315994360128 LFTALHVTQC 10 Unmodified _LFTALHVTQC_ 0 0 0 ENSG00000144476|ENST00000272928|ACKR3 ENSG00000144476|ENST00000272928|ACKR3 ENSG00000144476|ENST00000272928|ACKR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.3270263671875 2 566.794609 1131.57467 NaN NaN NaN NaN NaN NaN NaN 87.26 1 87.26 86.76 87.76 0 0 0 0 0.99225 1 44945 44945 6.7232 1.9672 1 15950 3428 10199 10223 18298 18298 0.014140721169269455 LFTFNVLII 9 Unmodified _LFTFNVLII_ 0 0 0 REV__ENST00000508262.2_2_4:86938383-87019884:-|nuORF REV__ENST00000508262.2_2_4:86938383-87019884:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.3291625976562 2 540.328611 1078.64267 3.1366 0.0016948 -1.1531 -0.00062303 1.9835 0.0010718 540.328148219797 43.54 0.27873 43.81 43.637 43.916 0.27021 21 9 3 0 0 0 0.96953 1 19934 19934 7.2892 1.5288 1 804980 + 15951 16949 10200 10224 18299 18299 0.1064926503922834 LFTLRLETHRR 11 Unmodified _LFTLRLETHRR_ 0 0 0 REV__ENST00000265748.6_2_7:36429459-36435956:+|nuORF REV__ENST00000265748.6_2_7:36429459-36435956:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 481.284423828125 3 481.284398 1440.83137 2.7733 0.0013347 -1.8524 -0.00089153 0.92089 0.00044321 481.28338532659893 106.02 0.14097 106.02 105.94 106.08 0 9 5 2 0 0 0 0.91345 1 58246 58246 0.45452 0.35968 1 1044100 + 15952 15036 10201 10225 18300 18300 0.12858310665387762 LFTLRLETHRR 11 Unmodified _LFTLRLETHRR_ 0 0 0 REV__ENST00000265748.6_2_7:36429459-36435956:+|nuORF REV__ENST00000265748.6_2_7:36429459-36435956:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 481.28448486328125 3 481.284398 1440.83137 1.8081 0.00087022 -0.97524 -0.00046937 0.83289 0.00040086 481.28389928460194 106.13 0.15555 106.18 106.08 106.24 0.04837 10 6 2 0 0 0 0.91345 1 57440 57440 0.45452 0.35968 1 1962700 + 15953 15036 10201 10225 18301 18301 0.12858310665387762 LFTLRLETHRR 11 Unmodified _LFTLRLETHRR_ 0 0 0 REV__ENST00000265748.6_2_7:36429459-36435956:+|nuORF REV__ENST00000265748.6_2_7:36429459-36435956:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 481.284398 1440.83137 2.7733 0.0013347 -1.8524 -0.00089153 0.92089 0.00044321 481.28338532659893 106.02 0.14097 106.02 105.94 106.08 0 -0.079601 -0.00066621 NaN 0.45452 9 5 2 NaN NaN NaN NaN 0 NaN NaN 0 1044100 + 15954 15036 10201 10225 0.12858310665387762 LFTLRLETHRR 11 Unmodified _LFTLRLETHRR_ 0 0 0 REV__ENST00000265748.6_2_7:36429459-36435956:+|nuORF REV__ENST00000265748.6_2_7:36429459-36435956:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 481.284398 1440.83137 1.8081 0.00087022 -0.97524 -0.00046937 0.83289 0.00040086 481.28389928460194 106.13 0.15555 106.18 106.08 106.24 0.04837 0.079601 0.00060028 NaN 0.45452 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 1962700 + 15955 15036 10201 10225 0.12858310665387762 LFTLYTVL 8 Unmodified _LFTLYTVL_ 0 0 0 TMEM62|p.L489F|1|0.01|ENSG00000137842|chr15:43178692-43178692|G/C|missense_variant TMEM62|p.L489F|1|0.01|ENSG00000137842|chr15:43178692-43178692|G/C|missense_variant TMEM62|p.L489F|1|0.01|ENSG00000137842|chr15:43178692-43178692|G/C|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2891540527344 2 485.286411 968.55827 NaN NaN NaN NaN NaN NaN NaN 49.56 1 49.822 49.322 50.322 0.26146 0 0 0 0.93233 1 22653 22653 10.183 0 1 15956 18278 10202 10226 18302 18302 0.07273314222470617 LFVFFIIYWII 11 Unmodified _LFVFFIIYWII_ 0 0 0 ENSG00000105829|ENST00000222547|BET1 ENSG00000105829|ENST00000222547|BET1 ENSG00000105829|ENST00000222547|BET1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.9554748535156 3 491.956337 1472.84718 NaN NaN NaN NaN NaN NaN NaN 75.755 1 75.755 75.255 76.255 0 0 0 0 1.0079 1 37127 37127 0.50596 0.051438 1 15957 1534 10203 10227 18303 18303 0.12967204129768106 LFVFFIWRLWT 11 Unmodified _LFVFFIWRLWT_ 0 0 0 ENSG00000221843|ENST00000447166|C2orf16 ENSG00000221843|ENST00000447166|C2orf16 ENSG00000221843|ENST00000447166|C2orf16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.9561462402344 3 509.955219 1526.84383 NaN NaN NaN NaN NaN NaN NaN 98.085 1 98.684 98.184 99.184 0.59885 0 0 0 1.0079 1 45165 45165 0.50596 0.09769 1 15958 6147 10204 10228 18304 18304 0.10147954075728194 LFVHFYRRYFW 11 Unmodified _LFVHFYRRYFW_ 0 0 0 ENSG00000188582|ENST00000340634|PAQR9 ENSG00000188582|ENST00000340634|PAQR9 ENSG00000188582|ENST00000340634|PAQR9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 817.4256591796875 2 817.424971 1632.83539 NaN NaN NaN NaN NaN NaN NaN 28.118 1 28.118 27.618 28.618 0 0 0 0 1.0082 1 12673 12673 0 0 1 15959 5670 10205 10229 18305 18305 0.04428400159122248 LFVHFYRRYFW 11 Unmodified _LFVHFYRRYFW_ 0 0 0 ENSG00000188582|ENST00000340634|PAQR9 ENSG00000188582|ENST00000340634|PAQR9 ENSG00000188582|ENST00000340634|PAQR9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 817.4266357421875 2 817.424971 1632.83539 NaN NaN NaN NaN NaN NaN NaN 69.304 1 69.304 68.804 69.804 0 0 0 0 1.0082 1 33459 33459 0 0 1 15960 5670 10205 10229 18306 18306 0.04428400159122248 LFVPIFIL 8 Unmodified _LFVPIFIL_ 0 0 0 REV__nc|ENSG00000182077|Q3KNS1|PTCHD3 REV__nc|ENSG00000182077|Q3KNS1|PTCHD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.3103942871094 2 481.30969 960.604826 NaN NaN NaN NaN NaN NaN NaN 38.894 1 39.158 38.658 39.658 0.26408 0 0 0 0.81105 1 17700 17700 24.21 0 1 + 15961 18066 10206 10230 18307 18307 0.1229479884441389 LFVQIQQKLFF 11 Unmodified _LFVQIQQKLFF_ 0 0 0 REV__ENST00000370691.6_1_20:60885298-60889553:-|nuORF REV__ENST00000370691.6_1_20:60885298-60889553:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.9427185058594 3 470.942979 1409.80711 NaN NaN NaN NaN NaN NaN NaN 55.569 1 55.834 55.334 56.334 0.26543 0 0 0 1.0072 1 25411 25411 0.45452 0 1 + 15962 15730 10207 10231 18308 18308 0.11859657459149275 LFWAPFPSW 9 Unmodified _LFWAPFPSW_ 0 0 0 nc|ENSG00000185670|Q9H5J0|ZBTB3 nc|ENSG00000185670|Q9H5J0|ZBTB3 nc|ENSG00000185670|Q9H5J0|ZBTB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.7884521484375 2 575.789653 1149.56475 NaN NaN NaN NaN NaN NaN NaN 28.188 1 28.188 27.688 28.688 0 0 0 0 0.82031 1 12706 12706 8.5933 0 1 15963 9786 10208 10232 18309 18309 -0.004047478261554716 LFWASKKR 8 Unmodified _LFWASKKR_ 0 0 0 ENSG00000138769|ENST00000307465|CDKL2 ENSG00000138769|ENST00000307465|CDKL2 ENSG00000138769|ENST00000307465|CDKL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 518.3099975585938 2 518.308544 1034.60253 NaN NaN NaN NaN NaN NaN NaN 104.19 1 104.5 104 105 0.31863 0 0 0 0.99035 1 48141 48141 0.79363 0.10326 1 15964 3117 10209 10233 18310 18310 0.08661763159329894 LGAASVAV 8 Unmodified _LGAASVAV_ 0 0 0 REV__ENST00000465519.5_1_3:195925313-195934370:-|nuORF REV__ENST00000465519.5_1_3:195925313-195934370:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 344.206787109375 2 344.205421 686.39629 2.5224 0.00086822 1.1327 0.00038988 3.6551 0.0012581 344.20586101675104 20.182 0.41292 20.182 19.993 20.406 0 57 39 2 0 0 0 0.12327 1 9047 9047 8.5933 0 1 514440 + 15965 13047 10210 10234 18311 18311 0.04054770260188434 LGAASVAV 8 Unmodified _LGAASVAV_ 0 0 0 REV__ENST00000465519.5_1_3:195925313-195934370:-|nuORF REV__ENST00000465519.5_1_3:195925313-195934370:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 344.205421 686.39629 2.3278 0.00080126 1.5565 0.00053575 3.8843 0.001337 344.2059774937149 19.662 0.32255 19.955 19.724 20.046 0.29239 -0.11389 0.00019436 NaN 8.5933 34 27 2 NaN NaN NaN NaN 0 NaN NaN 0 496860 + 15966 13047 10210 10234 0.04054770260188434 LGALLPRLVRL 11 Unmodified _LGALLPRLVRL_ 0 0 0 REV__ENST00000558215.5_1_14:24583994-24584637:+|nuORF REV__ENST00000558215.5_1_14:24583994-24584637:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.265625 2 610.913707 1219.81286 NaN NaN NaN NaN NaN NaN NaN 96.349 1 96.349 95.849 96.849 0 0 0 0 1.0055 1 52119 52119 3.5965 0 1 + 15967 17343 10211 10235 18312 18312 0.21174800761514234 LGALRRLLLR 10 Unmodified _LGALRRLLLR_ 0 0 0 ENSG00000204839|ENST00000398882|MROH6 ENSG00000204839|ENST00000398882|MROH6 ENSG00000204839|ENST00000398882|MROH6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.8455810546875 2 590.903674 1179.7928 NaN NaN NaN NaN NaN NaN NaN 46.131 1 46.961 46.461 47.461 0.82915 0 0 0 1.0015 1 21011 21011 0.45834 0 1 15968 6032 10212 10236 18313 18313 0.21009049821554981 LGARAAALPP 10 Unmodified _LGARAAALPP_ 0 0 0 ENST00000469167.1_1_13:24463081-24463459:-|nuORF;ENSG00000027001|ENST00000382172|MIPEP ENST00000469167.1_1_13:24463081-24463459:-|nuORF ENST00000469167.1_1_13:24463081-24463459:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.2889709472656 2 468.784902 935.55525 2.9773 0.0013957 0.65247 0.00030587 3.6298 0.0017016 468.78508947467844 10.211 0.074032 10.211 10.146 10.22 0 25 15 2 0 0 0 0.88655 1 4562 4562 4.3292 1.44 1 183080 15969 487 10213 10237 18314 18314 0.08489483888308769 LGARGHTI 8 Unmodified _LGARGHTI_ 0 0 0 REV__ENST00000487855.1_1_2:220145378-220147307:+|nuORF REV__ENST00000487855.1_1_2:220145378-220147307:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 412.74163818359375 2 412.740494 823.466435 2.8376 0.0011712 -0.10609 -4.3788E-05 2.7315 0.0011274 412.7404492680646 21.312 0.21353 21.312 21.224 21.438 0 35 20 2 0 0 0 0.66653 1 9524 9524 8.5933 3.3626 1 397710 + 15970 16772 10214 10238 18315 18315 0.047640686486602135 LGARGHTI 8 Unmodified _LGARGHTI_ 0 0 0 REV__ENST00000487855.1_1_2:220145378-220147307:+|nuORF REV__ENST00000487855.1_1_2:220145378-220147307:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.741455078125 2 412.740494 823.466435 NaN NaN NaN NaN NaN NaN NaN 13.122 1 13.765 13.265 14.265 0.64272 0 0 0 0.88162 1 5890 5890 13.508 4.1604 1 + 15971 16772 10214 10238 18316 18316 0.047640686486602135 LGARGHTI 8 Unmodified _LGARGHTI_ 0 0 0 REV__ENST00000487855.1_1_2:220145378-220147307:+|nuORF REV__ENST00000487855.1_1_2:220145378-220147307:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.7416076660156 2 412.740494 823.466435 NaN NaN NaN NaN NaN NaN NaN 20.397 1 21.051 20.551 21.551 0.65346 0 0 0 0.95658 1 9262 9262 8.5933 3.3626 1 + 15972 16772 10214 10238 18317 18317 0.047640686486602135 LGARRKMKPLL 11 Unmodified _LGARRKMKPLL_ 0 0 0 nc|ENSG00000111206|Q08050-2|FOXM1;ENSG00000111206|ENST00000359843|FOXM1;nc|ENSG00000111206|Q08050-3|FOXM1;ENST00000366362.3_1_12:2973410-2973858:-|nuORF nc|ENSG00000111206|Q08050-2|FOXM1 nc|ENSG00000111206|Q08050-2|FOXM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.94873046875 2 641.910642 1281.80673 NaN NaN NaN NaN NaN NaN NaN 95.236 1 95.236 94.736 95.736 0 0 0 0 1.0055 1 51238 51238 3.5965 1.7523 1 15973 1746 10215 10239 18318 18318 0.17709959258331764 LGARTVSSL 9 Unmodified _LGARTVSSL_ 0 0 0 ENST00000231061.8_1_5:151042294-151042486:-|nuORF ENST00000231061.8_1_5:151042294-151042486:-|nuORF ENST00000231061.8_1_5:151042294-151042486:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 903.3799438476562 1 903.525807 902.51853 4.0757 0.0036825 2.8576 0.0025819 6.9333 0.0062644 903.5293843916427 88.883 0.36167 89.562 89.338 89.699 0.67818 27 15 2 0 0 0 0.10694 1 40862 40862 3.9444 0 1 2327200 15974 6445 10216 10240 18319 18319 0.06337187271753919 LGARTVSSL 9 Unmodified _LGARTVSSL_ 0 0 0 ENST00000231061.8_1_5:151042294-151042486:-|nuORF ENST00000231061.8_1_5:151042294-151042486:-|nuORF ENST00000231061.8_1_5:151042294-151042486:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 903.525807 902.51853 4.2592 0.0038483 3.5293 0.0031888 7.7885 0.0070371 903.5308808007402 89.622 0.18792 89.873 89.817 90.005 0.25137 0.15587 0.00046273 NaN 3.9444 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 333030 15975 6445 10216 10240 0.06337187271753919 LGASKTWEELC 11 Unmodified _LGASKTWEELC_ 0 0 0 REV__nc|ENSG00000187240|Q8NCM8-2|DYNC2H1 REV__nc|ENSG00000187240|Q8NCM8-2|DYNC2H1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 618.7484741210938 2 618.800088 1235.58562 NaN NaN NaN NaN NaN NaN NaN 98.826 1 99.423 98.923 99.923 0.59748 0 0 0 0.97175 1 45618 45618 9.3831 3.1773 1 + 15976 14094 10217 10241 18320 18320 -0.02274570299437073 LGASRRGPR 9 Unmodified _LGASRRGPR_ 0 0 0 ENST00000489363.5_2_4:1685574-1685811:-|nuORF ENST00000489363.5_2_4:1685574-1685811:-|nuORF ENST00000489363.5_2_4:1685574-1685811:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2882080078125 2 485.288674 968.562795 NaN NaN NaN NaN NaN NaN NaN 37.009 1 37.639 37.139 38.139 0.62999 0 0 0 0.90777 1 16940 16940 1.6526 0 1 15977 8378 10218 10242 18321 18321 0.07725636208613196 LGAVLYFLYK 10 Unmodified _LGAVLYFLYK_ 0 0 0 ENST00000528533.5_1_11:119180598-119181683:-|nuORF;ENST00000528976.1_1_11:119180930-119182089:-|nuORF;ENSG00000076706|ENST00000264036|MCAM ENST00000528533.5_1_11:119180598-119181683:-|nuORF ENST00000528533.5_1_11:119180598-119181683:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.917236328125 2 593.847167 1185.67978 NaN NaN NaN NaN NaN NaN NaN 93.54 1 93.54 93.04 94.04 0 0 0 0 0.99687 1 49956 49956 4.3292 0 1 15978 848 10219 10243 18322 18322 0.09436936584984323 LGCLRVSEKSR 11 Unmodified _LGCLRVSEKSR_ 0 0 0 REV__ENSG00000172410|ENST00000304526|INSL5 REV__ENSG00000172410|ENST00000304526|INSL5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 624.5237426757812 2 624.348071 1246.68159 NaN NaN NaN NaN NaN NaN NaN 96.632 1 96.632 96.132 97.132 0 0 0 0 0.92731 1 52348 52348 13.615 2.1202 1 + 15979 13549 10220 10244 18323 18323 0.0681162233129271 LGCNRDCG 8 Unmodified _LGCNRDCG_ 0 0 0 REV__nc|ENSG00000135218|P16671-4|CD36 REV__nc|ENSG00000135218|P16671-4|CD36 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 837.3346557617188 1 837.334183 836.326907 2.3555 0.0019724 -1.1075 -0.00092738 1.248 0.001045 837.3328115595863 102.56 0.13322 102.62 102.55 102.68 0.055092 8 4 3 0 0 0 0.14333 1 55689 55689 0.79363 0 1 8875700 + 15980 12004 10221 10245 18324 18324 -0.09780380022539248 LGDNWYVQDLV 11 Unmodified _LGDNWYVQDLV_ 0 0 0 REV__PAPSS1|p.R386Q|1|0.31|ENSG00000138801|chr4:107653571-107653571|C/T|missense_variant REV__PAPSS1|p.R386Q|1|0.31|ENSG00000138801|chr4:107653571-107653571|C/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 661.325927734375 2 661.324785 1320.63502 NaN NaN NaN NaN NaN NaN NaN 59.107 1 59.107 58.607 59.607 0 0 0 0 1.0038 1 27310 27310 5.7319 0 1 + 15981 18196 10222 10246 18325 18325 -0.012475390190274993 LGENLQELRDL 11 Unmodified _LGENLQELRDL_ 0 0 0 ENSG00000152818|ENST00000367545|UTRN;nc|ENSG00000152818|P46939-2|UTRN;nc|ENSG00000152818|P46939-4|UTRN ENSG00000152818|ENST00000367545|UTRN ENSG00000152818|ENST00000367545|UTRN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 650.3530883789062 2 650.348791 1298.68303 NaN NaN NaN NaN NaN NaN NaN 42.38 1 42.65 42.15 43.15 0.27021 0 0 0 0.97175 1 19327 19327 9.3831 0.63772 1 15982 3762 10223 10247 18326 18326 0.04563534901012645 LGEPRAKPKKL 11 Unmodified _LGEPRAKPKKL_ 0 0 0 REV__ENST00000484345.1_1_22:44559764-44563976:+|nuORF REV__ENST00000484345.1_1_22:44559764-44563976:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 618.8939819335938 2 618.892972 1235.77139 NaN NaN NaN NaN NaN NaN NaN 87.434 1 87.434 86.934 87.934 0 0 0 0 1.0041 1 45090 45090 5.2969 2.0156 1 + 15983 16732 10224 10248 18327 18327 0.16293620002170428 LGERRHDEER 10 Unmodified _LGERRHDEER_ 0 0 0 REV__ENSG00000099812|ENST00000215582|MISP REV__ENSG00000099812|ENST00000215582|MISP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 432.8863220214844 3 432.884963 1295.63306 NaN NaN NaN NaN NaN NaN NaN 104.39 1 104.99 104.49 105.49 0.59885 0 0 0 1.0013 1 48244 48244 0.62683 0.12087 1 + 15984 10787 10225 10249 18328 18328 -0.002931549842514869 LGERRHDEER 10 Unmodified _LGERRHDEER_ 0 0 0 REV__ENSG00000099812|ENST00000215582|MISP REV__ENSG00000099812|ENST00000215582|MISP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 432.88592529296875 3 432.884963 1295.63306 NaN NaN NaN NaN NaN NaN NaN 104.5 1 105.1 104.6 105.6 0.59885 0 0 0 1.0018 1 48279 48279 0.15932 0 1 + 15985 10787 10225 10249 18329 18329 -0.002931549842514869 LGESTCGM 8 Unmodified _LGESTCGM_ 0 0 0 REV__ENST00000608354.1_1_22:30642226-30642904:+|nuORF REV__ENST00000608354.1_1_22:30642226-30642904:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.16363525390625 2 399.162039 796.309525 NaN NaN NaN NaN NaN NaN NaN 82.327 1 82.987 82.487 83.487 0.66019 0 0 0 0.99035 1 37932 37932 0.79363 0 1 + 15986 17678 10226 10250 18330 18330 -0.09677720348179264 LGEWEKYHWSF 11 Unmodified _LGEWEKYHWSF_ 0 0 0 REV__ENST00000321599.8_2_3:49762383-49762692:-|nuORF REV__ENST00000321599.8_2_3:49762383-49762692:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 741.345947265625 2 741.346052 1480.67755 NaN NaN NaN NaN NaN NaN NaN 102.72 1 102.78 102.28 103.28 0.055092 0 0 0 1.008 1 55753 55753 0.35063 0 1 + 15987 15323 10227 10251 18331 18331 -0.043561438907772754 LGFFLPFV 8 Unmodified _LGFFLPFV_ 0 0 0 nc|ENSG00000173585|P51686-2|CCR9;ENSG00000173585|ENST00000357632|CCR9 nc|ENSG00000173585|P51686-2|CCR9 nc|ENSG00000173585|P51686-2|CCR9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 313.859619140625 3 313.849468 938.526576 1.6095 0.00050513 -0.040765 -1.2794E-05 1.5687 0.00049234 313.84937321983347 12.801 0.1363 13.108 13.023 13.159 0.30727 5 3 2 0 0 0 0.73686 1 5786 5786 1.8442 0 1 192330 15988 4942 10228 10252 18332 18332 0.054853662591767716 LGFKTPKEAI 10 Unmodified _LGFKTPKEAI_ 0 0 0 ENSG00000142534|ENST00000270625|RPS11;ENST00000600027.5_1_19:49999677-50000944:+|nuORF ENSG00000142534|ENST00000270625|RPS11 ENSG00000142534|ENST00000270625|RPS11 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.7721557617188 2 552.326599 1102.63865 3.6198 0.0019993 -0.9847 -0.00054387 2.6351 0.0014555 552.3257244900536 36.808 0.31802 37.065 36.868 37.186 0.25768 25 10 3 0 0 0 0.12676 1 16801 16801 10.824 0.75 1 759010 15989 3314 10229 10253 18333 18333 0.09143175545523263 LGFLPWHIRLT 11 Unmodified _LGFLPWHIRLT_ 0 0 0 ENSG00000153989|ENST00000368494|NUS1 ENSG00000153989|ENST00000368494|NUS1 ENSG00000153989|ENST00000368494|NUS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 676.8643188476562 2 676.895515 1351.77648 NaN NaN NaN NaN NaN NaN NaN 94.418 1 94.418 93.918 94.918 0 0 0 0 1.0038 1 50644 50644 5.7319 0.83484 1 15990 3797 10230 10254 18334 18334 0.114659238647846 LGFQKRTL 8 Unmodified _LGFQKRTL_ 0 0 0 REV__ENSG00000164647|ENST00000297205|STEAP1 REV__ENSG00000164647|ENST00000297205|STEAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 321.5316467285156 3 321.53091 961.5709 NaN NaN NaN NaN NaN NaN NaN 28.61 1 29.399 28.899 29.899 0.78921 0 0 0 0.94507 1 12888 12888 6.7232 0.99131 1 + 15991 13104 10231 10255 18335 18335 0.08857770405370502 LGFRVLKS 8 Unmodified _LGFRVLKS_ 0 0 0 ENST00000526593.1_1_11:68377055-68380582:+|nuORF ENST00000526593.1_1_11:68377055-68380582:+|nuORF ENST00000526593.1_1_11:68377055-68380582:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 919.1799926757812 1 919.572363 918.565087 4.0924 0.0037633 3.9849 0.0036644 8.0774 0.0074277 919.5804342377711 97.795 0.042435 98.393 98.368 98.411 0.59885 6 4 2 0 0 0 0.13917 1 45000 45000 9.3474 0 1 7831100 15992 8679 10232 10256 18336 18336 0.10254671893710565 LGFWLKVRIQV 11 Unmodified _LGFWLKVRIQV_ 0 0 0 REV__nc|ENSG00000135636|O75923-15|DYSF REV__nc|ENSG00000135636|O75923-15|DYSF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 679.7362060546875 2 679.91899 1357.82343 NaN NaN NaN NaN NaN NaN NaN 91.105 1 91.105 90.605 91.605 0 0 0 0 1.0072 1 48034 48034 1.3295 0 1 + 15993 12030 10233 10257 18337 18337 0.1588278341591831 LGFWLWLFEPG 11 Unmodified _LGFWLWLFEPG_ 0 0 0 REV__ENST00000483574.6_1_1:153748462-153750656:+|nuORF REV__ENST00000483574.6_1_1:153748462-153750656:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 682.8582763671875 2 682.855524 1363.69649 NaN NaN NaN NaN NaN NaN NaN 92.305 1 92.305 91.805 92.805 0 0 0 0 1.0057 1 49015 49015 3.2813 1.6287 1 + 15994 12373 10234 10258 18338 18338 0.029194374709277326 LGFYLRKVLRL 11 Unmodified _LGFYLRKVLRL_ 0 0 0 REV__ENSG00000174529|ENST00000367167|TMEM81 REV__ENSG00000174529|ENST00000367167|TMEM81 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 689.4939575195312 2 689.440089 1376.86563 NaN NaN NaN NaN NaN NaN NaN 109.27 1 109.58 109.08 110.08 0.31015 0 0 0 1.008 1 50374 50374 0.35063 0 1 + 15995 13637 10235 10259 18339 18339 0.1922675882428848 LGGDEWTPTPL 11 Unmodified _LGGDEWTPTPL_ 0 0 0 REV__ENST00000372398.5_1_9:132995959-132996133:+|nuORF REV__ENST00000372398.5_1_9:132995959-132996133:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.29248046875 2 593.292953 1184.57135 NaN NaN NaN NaN NaN NaN NaN 96.393 1 96.393 95.893 96.893 0 0 0 0 1.0038 1 52154 52154 5.7319 0.43497 1 + 15996 15752 10236 10260 18340 18340 -0.013548994561006111 LGGGAPRRPQP 11 Unmodified _LGGGAPRRPQP_ 0 0 0 nc|ENSG00000186684|Q4G0S4|CYP27C1;ENSG00000186684|ENST00000664447|CYP27C1 nc|ENSG00000186684|Q4G0S4|CYP27C1 nc|ENSG00000186684|Q4G0S4|CYP27C1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.2308349609375 2 553.314889 1104.61522 NaN NaN NaN NaN NaN NaN NaN 92.568 1 92.654 92.154 93.154 0.086212 0 0 0 0.93332 1 48282 48282 13.042 0 1 15997 5582 10237 10261 18341 18341 0.06710174551562886 LGGHKSISVS 10 Unmodified _LGGHKSISVS_ 0 0 0 ENSG00000185640|ENST00000330553|KRT79;CON__Q5XKE5 ENSG00000185640|ENST00000330553|KRT79 ENSG00000185640|ENST00000330553|KRT79 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.7789001464844 2 492.777274 983.539994 NaN NaN NaN NaN NaN NaN NaN 91.939 1 91.939 91.439 92.439 0 0 0 0 0.92641 1 48712 48712 17.113 1.2657 1 + 15998 237 10238 10262 18342 18342 0.04756572300482276 LGGHYTIFFRH 11 Unmodified _LGGHYTIFFRH_ 0 0 0 REV__ENSG00000177103|ENST00000651296|DSCAML1 REV__ENSG00000177103|ENST00000651296|DSCAML1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 674.3507690429688 2 674.351471 1346.68839 NaN NaN NaN NaN NaN NaN NaN 96.993 1 97.064 96.564 97.564 0.070648 0 0 0 1.0059 1 51713 51713 2.9952 0 1 + 15999 13727 10239 10263 18343 18343 0.02891303274168422 LGGINARQGL 10 Unmodified _LGGINARQGL_ 0 0 0 REV__ENST00000485559.1_1_22:46749554-46749875:+|nuORF REV__ENST00000485559.1_1_22:46749554-46749875:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.1756591796875 2 499.790715 997.566878 3.1251 0.0015619 -0.66266 -0.00033119 2.4624 0.0012307 499.7904362318123 32.906 0.17772 33.524 33.435 33.613 0.61831 10 7 2 0 0 0 0.12236 1 15076 15076 7.2892 0 1 120810 + 16000 10830 10240 10264 18344 18344 0.06799680911649375 LGGIQINNPFN 11 Unmodified _LGGIQINNPFN_ 0 0 0 REV__ENST00000474198.1_1_5:152870409-152873630:+|nuORF REV__ENST00000474198.1_1_5:152870409-152873630:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 593.8142700195312 2 593.814387 1185.61422 NaN NaN NaN NaN NaN NaN NaN 56.444 1 56.71 56.21 57.21 0.26543 0 0 0 1.0059 1 25823 25823 2.9952 0.69251 1 + 16001 12742 10241 10265 18345 18345 0.028839153919761884 LGGKGPQVRKL 11 Unmodified _LGGKGPQVRKL_ 0 0 0 REV__ENST00000310032.12_1_5:176084950-176085187:+|nuORF REV__ENST00000310032.12_1_5:176084950-176085187:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.2830810546875 2 576.864215 1151.71388 NaN NaN NaN NaN NaN NaN NaN 91.932 1 92.014 91.514 92.514 0.082848 0 0 0 0.9645 1 47774 47774 10.074 0.6908 1 + 16002 15256 10242 10266 18346 18346 0.14408777796620598 LGGKIQMEME 10 Unmodified _LGGKIQMEME_ 0 0 0 ENSG00000256294|ENST00000262894|ZNF225 ENSG00000256294|ENST00000262894|ZNF225 ENSG00000256294|ENST00000262894|ZNF225 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.3314208984375 2 568.277934 1134.54132 2.9337 0.0016671 -0.15657 -8.8974E-05 2.7771 0.0015782 568.2777908326567 86.558 0.045563 86.558 86.526 86.571 0 7 5 2 0 0 0 0.83621 1 44398 44398 6.7232 0.51738 1 12210000 16003 6290 10243 10267 18347 18347 -0.020572977172832907 LGGKRIVAN 9 Unmodified _LGGKRIVAN_ 0 0 0 REV__nc|ENSG00000181085|Q8TD08-2|MAPK15 REV__nc|ENSG00000181085|Q8TD08-2|MAPK15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.2851867675781 2 464.290351 926.566149 NaN NaN NaN NaN NaN NaN NaN 72.798 1 73.462 72.962 73.962 0.66398 0 0 0 0.72654 1 33423 33423 11.64 1.4569 1 + 16004 13841 10244 10268 18348 18348 0.09992886262591583 LGGLKKKKKKL 11 Unmodified _LGGLKKKKKKL_ 0 0 0 REV__ENST00000375664.8_2_10:28908866-28909124:+|nuORF REV__ENST00000375664.8_2_10:28908866-28909124:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.1365356445312 2 620.945008 1239.87546 NaN NaN NaN NaN NaN NaN NaN 85.78 1 85.809 85.309 86.309 0.028603 0 0 0 1.008 1 43016 43016 0.35063 0.043601 1 + 16005 15809 10245 10269 18349 18349 0.26511946829691624 LGGLPVHVPAL 11 Unmodified _LGGLPVHVPAL_ 0 0 0 REV__ENSG00000110274|ENST00000278935|CEP164 REV__ENSG00000110274|ENST00000278935|CEP164 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.8294677734375 2 536.829309 1071.64407 NaN NaN NaN NaN NaN NaN NaN 48.197 1 48.197 47.697 48.697 0 0 0 0 1.0055 1 22070 22070 3.5965 0 1 + 16006 11199 10246 10270 18350 18350 0.11110899127993434 LGGLWGHRDR 10 Unmodified _LGGLWGHRDR_ 0 0 0 nc|ENSG00000237441|O15211-2|RGL2;ENST00000483151.5_1_6:33261379-33266279:-|nuORF;ENSG00000237441|ENST00000497454|RGL2 nc|ENSG00000237441|O15211-2|RGL2 nc|ENSG00000237441|O15211-2|RGL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.1307983398438 2 583.812513 1165.61047 NaN NaN NaN NaN NaN NaN NaN 58.502 1 59.261 58.761 59.761 0.75894 0 0 0 0.98473 1 26834 26834 7.9102 2.1783 1 16007 6204 10247 10271 18351 18351 0.03429290408803354 LGGPIRLAKK 10 Unmodified _LGGPIRLAKK_ 0 0 0 REV__nc|ENSG00000179344|P01920|HLA-DQB1 REV__nc|ENSG00000179344|P01920|HLA-DQB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.577880859375 2 526.850576 1051.6866 NaN NaN NaN NaN NaN NaN NaN 94.153 1 94.153 93.653 94.653 0 0 0 0 0.99687 1 50426 50426 4.3292 0 1 + 16008 18060 10248 10272 18352 18352 0.1628229425621157 LGGPLRQNQL 10 Unmodified _LGGPLRQNQL_ 0 0 0 REV__ENSG00000091106|ENST00000402280|NLRC4 REV__ENSG00000091106|ENST00000402280|NLRC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.88128662109375 3 365.88049 1094.61964 2.6524 0.00097046 -0.55247 -0.00020214 2.0999 0.00076832 365.8802965058951 15.027 0.46205 15.681 15.538 16 0.65356 78 48 2 0 0 0 0.88949 1 6772 6772 4.1895 1.1943 1 215490 + 16009 10725 10249 10273 18353 18353 0.07611638974458401 LGGPLRQNQL 10 Unmodified _LGGPLRQNQL_ 0 0 0 REV__ENSG00000091106|ENST00000402280|NLRC4 REV__ENSG00000091106|ENST00000402280|NLRC4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 365.88049 1094.61964 2.6524 0.00097046 -0.55247 -0.00020214 2.0999 0.00076832 365.8802965058951 15.027 0.46205 15.681 15.538 16 0.65356 0.18757 0.00032897 NaN 4.1895 78 48 2 NaN NaN NaN NaN 0 NaN NaN 0 215490 + 16010 10725 10249 10273 0.07611638974458401 LGGRIKTKKR 10 Unmodified _LGGRIKTKKR_ 0 0 0 REV__ENSG00000198944|ENST00000378693|SOWAHA REV__ENSG00000198944|ENST00000378693|SOWAHA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.8859252929688 2 578.885481 1155.75641 NaN NaN NaN NaN NaN NaN NaN 56.758 1 57.536 57.036 58.036 0.77786 0 0 0 0.99687 1 25959 25959 4.3292 0 1 + 16011 14385 10250 10274 18354 18354 0.1847617292482937 LGGRPTCPLL 10 Unmodified _LGGRPTCPLL_ 0 0 0 REV__nc|ENSG00000182473|Q9UPT5|EXOC7 REV__nc|ENSG00000182473|Q9UPT5|EXOC7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 343.1996154785156 3 342.863672 1025.56919 2.4449 0.00083826 -0.34445 -0.0001181 2.1004 0.00072016 342.8630545873714 39.936 0.60871 39.936 39.616 40.225 0 62 26 4 0 0 0 0.9406 1 18230 18230 0.77653 0 1 3012400 + 16012 18068 10251 10275 18355 18355 0.05742393325112971 LGGRPTCPLL 10 Unmodified _LGGRPTCPLL_ 0 0 0 REV__nc|ENSG00000182473|Q9UPT5|EXOC7 REV__nc|ENSG00000182473|Q9UPT5|EXOC7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.8636779785156 3 342.863672 1025.56919 2.3514 0.00080621 -0.75831 -0.00026 1.5931 0.00054622 342.86293139755116 38.833 0.7632 39.631 39.2 39.963 0.79762 82 36 4 0 0 0 0.9406 1 17648 17648 0.77653 0 1 1812200 + 16013 18068 10251 10275 18356 18356 0.05742393325112971 LGGVFIKKVPD 11 Unmodified _LGGVFIKKVPD_ 0 0 0 REV__nc|ENSG00000197451|Q99729-3|HNRNPAB REV__nc|ENSG00000197451|Q99729-3|HNRNPAB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.8355102539062 2 586.855524 1171.69649 NaN NaN NaN NaN NaN NaN NaN 70.15 1 70.15 69.65 70.65 0 0 0 0 0.94174 1 33992 33992 12.241 2.8575 1 + 16014 14279 10252 10276 18357 18357 0.11751437470934434 LGHEEVVTL 9 Unmodified _LGHEEVVTL_ 0 0 0 nc|ENSG00000115183|Q9C0D5-2|TANC1;TANC1|p.S1845Vfs*14|1|0.11|ENSG00000115183|chr2:159230958-159230959|-/GT|frameshift_variant;ENSG00000115183|ENST00000263635|TANC1 nc|ENSG00000115183|Q9C0D5-2|TANC1 nc|ENSG00000115183|Q9C0D5-2|TANC1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.281494140625 2 498.771657 995.528761 2.9388 0.0014658 0.64216 0.00032029 3.581 0.0017861 498.77197136168957 43.868 0.27698 44.689 44.489 44.766 0.82074 39 18 3 0 0 0 0.10218 1 19904 19904 10.824 0 1 862990 16015 1949 10253 10277 18358 18358 0.030817502063428037 LGHEEVVTL 9 Unmodified _LGHEEVVTL_ 0 0 0 nc|ENSG00000115183|Q9C0D5-2|TANC1;TANC1|p.S1845Vfs*14|1|0.11|ENSG00000115183|chr2:159230958-159230959|-/GT|frameshift_variant;ENSG00000115183|ENST00000263635|TANC1 nc|ENSG00000115183|Q9C0D5-2|TANC1 nc|ENSG00000115183|Q9C0D5-2|TANC1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.3239440917969 2 498.771657 995.528761 3.3705 0.0016811 0.44354 0.00022123 3.814 0.0019023 498.7718855168623 44.132 0.23194 44.782 44.662 44.894 0.64999 18 11 2 0 0 0 0.11315 1 20178 20178 1.8442 0 1 1004300 16016 1949 10253 10277 18359 18359 0.030817502063428037 LGHEEVVTL 9 Unmodified _LGHEEVVTL_ 0 0 0 nc|ENSG00000115183|Q9C0D5-2|TANC1;TANC1|p.S1845Vfs*14|1|0.11|ENSG00000115183|chr2:159230958-159230959|-/GT|frameshift_variant;ENSG00000115183|ENST00000263635|TANC1 nc|ENSG00000115183|Q9C0D5-2|TANC1 nc|ENSG00000115183|Q9C0D5-2|TANC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 498.771657 995.528761 2.9764 0.0014845 0.98989 0.00049373 3.9663 0.0019783 498.7721059509545 44.919 0.23502 44.919 44.798 45.033 0 0.073144 0.00026151 NaN 15.847 15 11 2 NaN NaN NaN NaN 0 NaN NaN 0 930260 16017 1949 10253 10277 0.030817502063428037 LGHEEVVTL 9 Unmodified _LGHEEVVTL_ 0 0 0 nc|ENSG00000115183|Q9C0D5-2|TANC1;TANC1|p.S1845Vfs*14|1|0.11|ENSG00000115183|chr2:159230958-159230959|-/GT|frameshift_variant;ENSG00000115183|ENST00000263635|TANC1 nc|ENSG00000115183|Q9C0D5-2|TANC1 nc|ENSG00000115183|Q9C0D5-2|TANC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 498.771657 995.528761 3.0459 0.0015192 0.79626 0.00039715 3.8422 0.0019164 498.7720905197068 44.725 0.28654 44.993 44.799 45.085 0.26768 0.14733 6.8358E-05 NaN 15.847 24 14 2 NaN NaN NaN NaN 0 NaN NaN 0 1176300 16018 1949 10253 10277 0.030817502063428037 LGHHHQKK 8 Unmodified _LGHHHQKK_ 0 0 0 ENST00000554558.5_1_14:55966046-56046785:-|nuORF ENST00000554558.5_1_14:55966046-56046785:-|nuORF ENST00000554558.5_1_14:55966046-56046785:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.77679443359375 2 492.777942 983.541332 NaN NaN NaN NaN NaN NaN NaN 95.442 1 95.524 95.024 96.024 0.082001 0 0 0 0.89651 1 50447 50447 12.532 1.7076 1 16019 8908 10254 10278 18360 18360 0.04890251179892857 LGHPENSVRA 10 Unmodified _LGHPENSVRA_ 0 0 0 nc|ENSG00000163482|Q9NRP7-2|STK36;ENSG00000163482|ENST00000295709|STK36 nc|ENSG00000163482|Q9NRP7-2|STK36 nc|ENSG00000163482|Q9NRP7-2|STK36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.2864379882812 2 540.283254 1078.55196 2.6346 0.0014234 0.39811 0.00021509 3.0327 0.0016385 540.2835026861337 13.103 0.37685 13.41 13.159 13.536 0.30727 30 17 2 0 0 0 0.78028 1 5925 5925 9.3831 0 1 204480 16020 4213 10255 10279 18361 18361 0.01582189043665494 LGHTEGRPQLK 11 Unmodified _LGHTEGRPQLK_ 0 0 0 MRPS12|p.P51H|1|0.28|ENSG00000128626|chr19:38932435-38932435|C/A|missense_variant MRPS12|p.P51H|1|0.28|ENSG00000128626|chr19:38932435-38932435|C/A|missense_variant MRPS12|p.P51H|1|0.28|ENSG00000128626|chr19:38932435-38932435|C/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 618.6280517578125 2 618.346386 1234.67822 NaN NaN NaN NaN NaN NaN NaN 89.073 1 89.126 88.626 89.626 0.052155 0 0 0 0.97845 1 45557 45557 8.7454 0.58988 1 16021 9525 10256 10280 18362 18362 0.07026695548938733 LGHTLVTVSVN 11 Unmodified _LGHTLVTVSVN_ 0 0 0 NUP210L|p.V790Cfs*8|1|0.05|ENSG00000143552|chr1:154070460-154070461|-/TATGTATACAT|frameshift_variant;nc|ENSG00000143552|Q5VU65-2|NUP210L;ENSG00000143552|ENST00000368559|NUP210L NUP210L|p.V790Cfs*8|1|0.05|ENSG00000143552|chr1:154070460-154070461|-/TATGTATACAT|frameshift_variant NUP210L|p.V790Cfs*8|1|0.05|ENSG00000143552|chr1:154070460-154070461|-/TATGTATACAT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.323974609375 2 570.324588 1138.63462 NaN NaN NaN NaN NaN NaN NaN 85.211 1 85.24 84.74 85.74 0.028603 0 0 0 0.97845 1 42623 42623 8.7454 2.0222 1 16022 3378 10257 10281 18363 18363 0.07085086051802136 LGIALLHSLLL 11 Unmodified _LGIALLHSLLL_ 0 0 0 REV__ENST00000550043.1_1_14:28734103-28734340:+|nuORF REV__ENST00000550043.1_1_14:28734103-28734340:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.988525390625 2 581.881542 1161.74853 NaN NaN NaN NaN NaN NaN NaN 92.439 1 92.522 92.022 93.022 0.082848 0 0 0 1.0046 1 48173 48173 9.3831 4.0862 1 + 16023 13695 10258 10282 18364 18364 0.17412600884699714 LGIFHRAL 8 Unmodified _LGIFHRAL_ 0 0 0 REV__nc|ENSG00000171126|Q8TAE7-2|KCNG3 REV__nc|ENSG00000171126|Q8TAE7-2|KCNG3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.78448486328125 2 463.782162 925.549771 2.7515 0.0012761 1.7335 0.00080397 4.485 0.0020801 463.7829482311857 33.569 0.24751 33.823 33.702 33.95 0.25389 38 15 3 0 0 0 0.69414 1 15303 15303 6.3541 0 1 843420 + 16024 13477 10259 10283 18365 18365 0.08401805096514181 LGIFHRAL 8 Unmodified _LGIFHRAL_ 0 0 0 REV__nc|ENSG00000171126|Q8TAE7-2|KCNG3 REV__nc|ENSG00000171126|Q8TAE7-2|KCNG3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 463.782162 925.549771 2.5192 0.0011684 1.6371 0.00075924 4.1563 0.0019276 463.7831510043113 33.814 0.14281 33.814 33.745 33.888 0 -0.15313 -0.00020216 NaN 6.3541 14 8 2 NaN NaN NaN NaN 0 NaN NaN 0 457300 + 16025 13477 10259 10283 0.08401805096514181 LGIFHRAL 8 Unmodified _LGIFHRAL_ 0 0 0 REV__nc|ENSG00000171126|Q8TAE7-2|KCNG3 REV__nc|ENSG00000171126|Q8TAE7-2|KCNG3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 463.782162 925.549771 2.3934 0.00111 1.9001 0.00088123 4.2935 0.0019912 463.7831318360733 33.263 0.15443 34.051 34.005 34.16 0.78795 0.083339 4.1827E-05 NaN 6.3541 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 219430 + 16026 13477 10259 10283 0.08401805096514181 LGIFHRAL 8 Unmodified _LGIFHRAL_ 0 0 0 REV__nc|ENSG00000171126|Q8TAE7-2|KCNG3 REV__nc|ENSG00000171126|Q8TAE7-2|KCNG3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 463.782162 925.549771 2.7515 0.0012761 1.7335 0.00080397 4.485 0.0020801 463.7829482311857 33.569 0.24751 33.823 33.702 33.95 0.25389 -0.14422 -0.0001127 NaN 6.3541 38 15 3 NaN NaN NaN NaN 0 NaN NaN 0 843420 + 16027 13477 10259 10283 0.08401805096514181 LGIFHRAL 8 Unmodified _LGIFHRAL_ 0 0 0 REV__nc|ENSG00000171126|Q8TAE7-2|KCNG3 REV__nc|ENSG00000171126|Q8TAE7-2|KCNG3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 463.782162 925.549771 2.6806 0.0012432 2.2477 0.0010424 4.9283 0.0022857 463.78302911464266 33.561 0.25685 34.182 34.021 34.278 0.62031 0.21402 0.00036424 NaN 6.3541 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 309710 + 16028 13477 10259 10283 0.08401805096514181 LGIIKRKFRL 10 Unmodified _LGIIKRKFRL_ 0 0 0 REV__nc|ENSG00000100796|Q6IN85-4|PPP4R3A REV__nc|ENSG00000100796|Q6IN85-4|PPP4R3A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.9832153320312 2 622.4217 1242.82885 NaN NaN NaN NaN NaN NaN NaN 54.629 1 55.424 54.924 55.924 0.79552 0 0 0 1.0015 1 24928 24928 0.45834 0 1 + 16029 10848 10260 10284 18366 18366 0.21714506998409888 LGIKVEHKL 9 Unmodified _LGIKVEHKL_ 0 0 0 REV__nc|ENSG00000119125|Q9Y2T3-2|GDA REV__nc|ENSG00000119125|Q9Y2T3-2|GDA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.2226257324219 3 346.221965 1035.64407 NaN NaN NaN NaN NaN NaN NaN 18.336 1 18.997 18.497 19.497 0.66072 0 0 0 0.69911 1 8299 8299 8.1555 0 1 + 16030 11491 10261 10285 18367 18367 0.12766899127996112 LGILKLLPMV 10 Unmodified _LGILKLLPMV_ 0 0 0 ENST00000278200.5_1_11:31484830-31531097:-|nuORF ENST00000278200.5_1_11:31484830-31531097:-|nuORF ENST00000278200.5_1_11:31484830-31531097:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.8621215820312 2 548.861763 1095.70897 NaN NaN NaN NaN NaN NaN NaN 93.182 1 93.268 92.768 93.768 0.086212 0 0 0 0.99687 1 48751 48751 4.3292 0 1 16031 6683 10262 10286 18368 18368 0.16494757609621047 LGILLVLLF 9 Unmodified _LGILLVLLF_ 0 0 0 REV__nc|ENSG00000170537|Q7Z402-2|TMC7 REV__nc|ENSG00000170537|Q7Z402-2|TMC7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.68463134765625 2 500.843897 999.67324 NaN NaN NaN NaN NaN NaN NaN 35.694 1 36.486 35.986 36.986 0.79131 0 0 0 0.90511 1 16178 16178 2.3027 0 1 + 16032 13439 10263 10287 18369 18369 0.1733904342427195 LGILRLRLVE 10 Unmodified _LGILRLRLVE_ 0 0 0 ENST00000429630.1_1_7:143077188-143077587:-|nuORF ENST00000429630.1_1_7:143077188-143077587:-|nuORF ENST00000429630.1_1_7:143077188-143077587:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.957275390625 2 591.390065 1180.76558 NaN NaN NaN NaN NaN NaN NaN 90.998 1 91.073 90.573 91.573 0.075279 0 0 0 0.99774 1 47034 47034 3.5965 0 1 16033 7836 10264 10288 18370 18370 0.18242521490492436 LGIRRREVF 9 Unmodified _LGIRRREVF_ 0 0 0 REV__ENST00000473417.5_1_3:125188296-125239016:-|nuORF REV__ENST00000473417.5_1_3:125188296-125239016:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.5694274902344 3 382.568247 1144.68291 2.8884 0.001105 0.5264 0.00020138 3.4148 0.0013064 382.56841657308996 20.484 0.31333 21.137 20.98 21.294 0.65346 66 26 3 0 0 0 1.101 1 9365 9365 1.1933 0 1 930110 + 16034 11323 10265 10289 18371 18371 0.11635624482369167 LGITNYLKKKF 11 Unmodified _LGITNYLKKKF_ 0 0 0 REV__Harlequin-int_dup17|chr1:46326040-46329561:-|10.003084288088008|0.3399966488246573|4.88|534.0|113|3|sense REV__Harlequin-int_dup17|chr1:46326040-46329561:-|10.003084288088008|0.3399966488246573|4.88|534.0|113|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 662.8576049804688 2 662.903005 1323.79146 NaN NaN NaN NaN NaN NaN NaN 92.158 1 92.241 91.741 92.741 0.082848 0 0 0 1.0055 1 47953 47953 3.5965 0 1 + 16035 17699 10266 10290 18372 18372 0.14251370942110952 LGITSITKKV 10 Unmodified _LGITSITKKV_ 0 0 0 REV__LAMC1|p.C916Vfs*123|1|0.4|ENSG00000135862|chr1:183125494-183125494|C/-|frameshift_variant REV__LAMC1|p.C916Vfs*123|1|0.4|ENSG00000135862|chr1:183125494-183125494|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.0294189453125 2 530.342249 1058.66995 NaN NaN NaN NaN NaN NaN NaN 97.083 1 97.154 96.654 97.654 0.070648 0 0 0 0.99687 1 51786 51786 4.3292 0 1 + 16036 17816 10267 10291 18373 18373 0.14295748579593237 LGKEKRRRFK 10 Unmodified _LGKEKRRRFK_ 0 0 0 REV__nc|ENSG00000102001|O60840-5|CACNA1F REV__nc|ENSG00000102001|O60840-5|CACNA1F MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 659.4152221679688 2 659.414937 1316.81532 NaN NaN NaN NaN NaN NaN NaN 44.207 1 44.207 43.707 44.707 0 0 0 0 0.99733 1 20185 20185 3.9444 0.66309 1 + 16037 10914 10268 10292 18374 18374 0.16958649219145627 LGKIMSLAL 9 Unmodified _LGKIMSLAL_ 0 0 0 REV__nc|ENSG00000178104|Q5VU43-13|PDE4DIP REV__nc|ENSG00000178104|Q5VU43-13|PDE4DIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 316.2013854980469 3 315.864901 944.572874 2.2417 0.00070807 3.8946 0.0012302 6.1363 0.0019382 315.8652580399644 57.201 0.051498 57.465 57.428 57.48 0.26444 5 3 2 0 0 0 1.1154 1 26165 26165 1.0715 0 1 559280 + 16038 18057 10269 10293 18375 18375 0.09837063098962062 LGKKASVP 8 Unmodified _LGKKASVP_ 0 0 0 ENST00000295101.2_1_2:155554859-155555222:+|nuORF ENST00000295101.2_1_2:155554859-155555222:+|nuORF ENST00000295101.2_1_2:155554859-155555222:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.2550354003906 2 400.255446 798.496338 NaN NaN NaN NaN NaN NaN NaN 66.968 1 67.218 66.718 67.718 0.2501 0 0 0 0.99035 1 30677 30677 4.3292 0 1 16039 6755 10270 10294 18376 18376 0.08903007593994516 LGKKKMEKL 9 Unmodified _LGKKKMEKL_ 0 0 0 REV__THSD1|p.D742Vfs*6|1|0.1|ENSG00000136114|chr13:52377745-52377745|T/-|frameshift_variant REV__THSD1|p.D742Vfs*6|1|0.1|ENSG00000136114|chr13:52377745-52377745|T/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.1952819824219 3 358.894972 1073.66309 2.7463 0.00098563 0.29912 0.00010735 3.0454 0.001093 358.89506541622507 12.911 0.16546 13.553 13.446 13.612 0.64272 6 4 2 0 0 0 0.11236 1 5820 5820 2.9952 0 1 119080 + 16040 12061 10271 10295 18377 18377 0.12920112427377717 LGKKQPRIKL 10 Unmodified _LGKKQPRIKL_ 0 0 0 REV__ENST00000423738.4_1_X:100747717-100747888:+|nuORF REV__ENST00000423738.4_1_X:100747717-100747888:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.8986206054688 2 590.898057 1179.78156 NaN NaN NaN NaN NaN NaN NaN 30.559 1 31.348 30.848 31.848 0.78921 0 0 0 1.0019 1 13800 13800 0.40072 0.050084 1 + 16041 16195 10272 10296 18378 18378 0.19886227727420192 LGKKRKKTRWK 11 Unmodified _LGKKRKKTRWK_ 0 0 0 ENST00000498128.1_1_1:46108161-46120330:-|nuORF ENST00000498128.1_1_1:46108161-46120330:-|nuORF ENST00000498128.1_1_1:46108161-46120330:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 714.716796875 2 714.967337 1427.92012 NaN NaN NaN NaN NaN NaN NaN 83.985 1 83.985 83.485 84.485 0 0 0 0 1.0071 1 42414 42414 1.4819 1.1313 1 16042 8461 10273 10297 18379 18379 0.2232777069571057 LGKQRART 8 Unmodified _LGKQRART_ 0 0 0 REV__ENST00000375199.7_1_1:19570195-19571411:-|nuORF REV__ENST00000375199.7_1_1:19570195-19571411:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.28704833984375 2 465.2856 928.556647 2.941 0.0013684 -0.10729 -4.9923E-05 2.8337 0.0013185 465.28549489981765 83.85 0.31788 84.512 84.328 84.646 0.66219 32 20 3 0 0 0 0.71911 1 38626 38626 4.3292 0 1 1190500 + 16043 15799 10274 10298 18380 18380 0.08951117977085232 LGKRKGLNSIV 11 Unmodified _LGKRKGLNSIV_ 0 0 0 ENSG00000177409|ENST00000318238|SAMD9L;nc|ENSG00000177409|Q8IVG5-2|SAMD9L ENSG00000177409|ENST00000318238|SAMD9L ENSG00000177409|ENST00000318238|SAMD9L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.7616577148438 2 592.877322 1183.74009 NaN NaN NaN NaN NaN NaN NaN 95.234 1 95.316 94.816 95.816 0.082001 0 0 0 1.0038 1 50299 50299 5.7319 0 1 16044 5117 10275 10299 18381 18381 0.155570469680697 LGKRSAVLKL 10 Unmodified _LGKRSAVLKL_ 0 0 0 nc|ENSG00000126878|Q9BQI0-3|AIF1L;ENSG00000126878|ENST00000247291|AIF1L;nc|ENSG00000126878|Q9BQI0-2|AIF1L nc|ENSG00000126878|Q9BQI0-3|AIF1L nc|ENSG00000126878|Q9BQI0-3|AIF1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.8621826171875 2 542.863683 1083.71281 NaN NaN NaN NaN NaN NaN NaN 97.784 1 97.784 97.284 98.284 0 0 0 0 0.99225 1 53351 53351 6.7232 0.99131 1 16045 2469 10276 10300 18382 18382 0.1743056342768341 LGKTDWCSNC 10 Unmodified _LGKTDWCSNC_ 0 0 0 REV__RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant REV__RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.735107421875 2 563.736434 1125.45831 NaN NaN NaN NaN NaN NaN NaN 97.88 1 98.169 97.669 98.669 0.28923 0 0 0 0.99225 1 45005 45005 6.7232 0.51738 1 + 16046 13614 10277 10301 18383 18383 -0.09939614445306688 LGKTHLRRQ 9 Unmodified _LGKTHLRRQ_ 0 0 0 nc|ENSG00000215421|Q9C0G0-3|ZNF407;nc|ENSG00000215421|Q9C0G0-2|ZNF407;ENSG00000215421|ENST00000299687|ZNF407 nc|ENSG00000215421|Q9C0G0-3|ZNF407 nc|ENSG00000215421|Q9C0G0-3|ZNF407 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.975830078125 2 554.838531 1107.66251 NaN NaN NaN NaN NaN NaN NaN 96.953 1 96.953 96.453 97.453 0 0 0 0 0.72654 1 52621 52621 11.64 1.5664 1 16047 6132 10278 10302 18384 18384 0.11298453822564625 LGKVSKPV 8 Unmodified _LGKVSKPV_ 0 0 0 nc|ENSG00000179981|Q6ZSZ6-2|TSHZ1;ENSG00000179981|ENST00000580243|TSHZ1 nc|ENSG00000179981|Q6ZSZ6-2|TSHZ1 nc|ENSG00000179981|Q6ZSZ6-2|TSHZ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 827.5384521484375 1 827.534915 826.527639 2.5653 0.0021229 -2.502 -0.0020705 0.063364 5.2436E-05 827.5357993902402 93.264 0.027863 93.351 93.342 93.37 0.086212 6 4 2 0 0 0 0.73686 1 48831 48831 2.8892 0 1 23579000 16048 5237 10279 10303 18385 18385 0.10743580628093241 LGKWRRRRRR 10 Unmodified _LGKWRRRRRR_ 0 0 0 ENST00000453677.1_1_7:104654330-104654752:-|nuORF;ENST00000355628.9_1_3:56716933-56717212:-|nuORF ENST00000453677.1_1_7:104654330-104654752:-|nuORF ENST00000453677.1_1_7:104654330-104654752:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 720.4547119140625 2 720.455794 1438.89703 NaN NaN NaN NaN NaN NaN NaN 61.117 1 61.369 60.869 61.869 0.25245 0 0 0 1.0015 1 27988 27988 0.45834 0 1 16049 8035 10280 10304 18386 18386 0.19514189421624906 LGKWRRRRRRP 11 Unmodified _LGKWRRRRRRP_ 0 0 0 ENST00000453677.1_1_7:104654330-104654752:-|nuORF ENST00000453677.1_1_7:104654330-104654752:-|nuORF ENST00000453677.1_1_7:104654330-104654752:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 769.0414428710938 2 768.982176 1535.9498 NaN NaN NaN NaN NaN NaN NaN 90.197 1 90.197 89.697 90.697 0 0 0 0 1.0071 1 47333 47333 1.4819 1.1313 1 16050 8035 10281 10305 18387 18387 0.20326147484411194 LGKWRRRRRRP 11 Unmodified _LGKWRRRRRRP_ 0 0 0 ENST00000453677.1_1_7:104654330-104654752:-|nuORF ENST00000453677.1_1_7:104654330-104654752:-|nuORF ENST00000453677.1_1_7:104654330-104654752:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 768.98486328125 2 768.982176 1535.9498 NaN NaN NaN NaN NaN NaN NaN 92.439 1 92.439 91.939 92.939 0 0 0 0 1.008 1 49118 49118 0.35063 0 1 16051 8035 10281 10305 18388 18388 0.20326147484411194 LGLHRRLLLR 10 Unmodified _LGLHRRLLLR_ 0 0 0 ENST00000282146.4_1_14:90528455-90650665:+|nuORF ENST00000282146.4_1_14:90528455-90650665:+|nuORF ENST00000282146.4_1_14:90528455-90650665:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 623.9153442382812 2 623.914573 1245.81459 NaN NaN NaN NaN NaN NaN NaN 102.53 1 102.58 102.08 103.08 0.055092 0 0 0 1.0015 1 55654 55654 0.45834 0 1 16052 6698 10282 10306 18389 18389 0.2015185457012194 LGLHVLVKKRK 11 Unmodified _LGLHVLVKKRK_ 0 0 0 REV__ENSG00000152127|ENST00000281923|MGAT5 REV__ENSG00000152127|ENST00000281923|MGAT5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.9060668945312 2 645.940257 1289.86596 NaN NaN NaN NaN NaN NaN NaN 88.044 1 88.083 87.583 88.583 0.039955 0 0 0 1.0082 1 44749 44749 0.35063 0.35063 1 + 16053 12640 10283 10307 18390 18390 0.23262178544177914 LGLINMKFNTF 11 Unmodified _LGLINMKFNTF_ 0 0 0 REV__nc|ENSG00000179934|P51685-2|CCR8 REV__nc|ENSG00000179934|P51685-2|CCR8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 649.4474487304688 2 649.352291 1296.69003 NaN NaN NaN NaN NaN NaN NaN 94.191 1 94.191 93.691 94.691 0 0 0 0 0.97175 1 50455 50455 9.3831 1.473 1 + 16054 13816 10284 10308 18391 18391 0.0535517624791737 LGLIRYVLHKE 11 Unmodified _LGLIRYVLHKE_ 0 0 0 nc|ENSG00000138759|Q86XX4|FRAS1;ENSG00000138759|ENST00000512123|FRAS1 nc|ENSG00000138759|Q86XX4|FRAS1 nc|ENSG00000138759|Q86XX4|FRAS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 671.0549926757812 2 670.906079 1339.79761 NaN NaN NaN NaN NaN NaN NaN 93.28 1 93.28 92.78 93.78 0 0 0 0 1.0038 1 49793 49793 5.7319 0 1 16055 3115 10285 10309 18392 18392 0.14129889173614174 LGLKFLFNFIL 11 Unmodified _LGLKFLFNFIL_ 0 0 0 REV__ENSG00000254585|ENST00000650528|MAGEL2 REV__ENSG00000254585|ENST00000650528|MAGEL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 662.9054565429688 2 662.905017 1323.79548 NaN NaN NaN NaN NaN NaN NaN 91.722 1 91.722 91.222 92.222 0 0 0 0 1.0055 1 48541 48541 3.5965 0 1 + 16056 14667 10286 10310 18393 18393 0.1465346043585214 LGLKKERPRL 10 Unmodified _LGLKKERPRL_ 0 0 0 REV__ENST00000466152.5_1_20:49557422-49575060:-|nuORF REV__ENST00000466152.5_1_20:49557422-49575060:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 605.395263671875 2 605.393139 1208.77173 NaN NaN NaN NaN NaN NaN NaN 91.331 1 91.406 90.906 91.906 0.075279 0 0 0 0.99776 1 47303 47303 6.7232 0 1 + 16057 10149 10287 10311 18394 18394 0.1756903972204782 LGLKLGLKAIK 11 Unmodified _LGLKLGLKAIK_ 0 0 0 REV__nc|ENSG00000119326|Q9UBT7-3|CTNNAL1 REV__nc|ENSG00000119326|Q9UBT7-3|CTNNAL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.2735595703125 2 577.405184 1152.79581 NaN NaN NaN NaN NaN NaN NaN 92.63 1 92.716 92.216 93.216 0.086212 0 0 0 1.0055 1 48331 48331 3.5965 0 1 + 16058 11496 10288 10312 18395 18395 0.22552880155694766 LGLKLLLLLL 10 Unmodified _LGLKLLLLLL_ 0 0 0 ENSG00000159189|ENST00000374640|C1QC ENSG00000159189|ENST00000374640|C1QC ENSG00000159189|ENST00000374640|C1QC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.6776733398438 2 554.907028 1107.7995 NaN NaN NaN NaN NaN NaN NaN 93.294 1 93.38 92.88 93.88 0.086212 0 0 0 1.0015 1 48849 48849 0.45834 0 1 16059 4014 10289 10313 18396 18396 0.24991549929586654 LGLKLLLLLL 10 Unmodified _LGLKLLLLLL_ 0 0 0 ENSG00000159189|ENST00000374640|C1QC ENSG00000159189|ENST00000374640|C1QC ENSG00000159189|ENST00000374640|C1QC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.9945068359375 2 554.907028 1107.7995 NaN NaN NaN NaN NaN NaN NaN 13.878 1 14.527 14.027 15.027 0.6482 0 0 0 1.0015 1 6241 6241 0.45834 0 1 16060 4014 10289 10313 18397 18397 0.24991549929586654 LGLKLLLLLLL 11 Unmodified _LGLKLLLLLLL_ 0 0 0 ENSG00000159189|ENST00000374640|C1QC ENSG00000159189|ENST00000374640|C1QC ENSG00000159189|ENST00000374640|C1QC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.4515380859375 2 611.44906 1220.88357 NaN NaN NaN NaN NaN NaN NaN 65.369 1 65.369 64.869 65.869 0 0 0 0 1.0082 1 31137 31137 0 0 1 16061 4014 10290 10314 18398 18398 0.28196081026499087 LGLKRLPDLIK 11 Unmodified _LGLKRLPDLIK_ 0 0 0 nc|ENSG00000198380|Q06210-2|GFPT1;ENSG00000198380|ENST00000357308|GFPT1 nc|ENSG00000198380|Q06210-2|GFPT1 nc|ENSG00000198380|Q06210-2|GFPT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.4197387695312 2 633.418823 1264.82309 NaN NaN NaN NaN NaN NaN NaN 30.625 1 31.243 30.743 31.743 0.61737 0 0 0 1.0072 1 14051 14051 1.3295 0 1 16062 5886 10291 10315 18399 18399 0.20127363696065004 LGLKRRRWHRR 11 Unmodified _LGLKRRRWHRR_ 0 0 0 REV__ENST00000478577.1_1_17:54650436-54650553:+|nuORF REV__ENST00000478577.1_1_17:54650436-54650553:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 767.4780883789062 2 767.476726 1532.9389 NaN NaN NaN NaN NaN NaN NaN 68.913 1 68.913 68.413 69.413 0 0 0 0 1.008 1 33217 33217 0.35063 0.043601 1 + 16063 16672 10292 10316 18400 18400 0.19374745110121694 LGLLEKKKDYK 11 Unmodified _LGLLEKKKDYK_ 0 0 0 ENSG00000183520|ENST00000373014|UTP11;nc|ENSG00000183520|Q9Y3A2-2|UTP11;ENST00000486563.1_1_1:38478474-38482093:+|nuORF ENSG00000183520|ENST00000373014|UTP11 ENSG00000183520|ENST00000373014|UTP11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 667.9081420898438 2 667.905745 1333.79694 NaN NaN NaN NaN NaN NaN NaN 88.517 1 88.517 88.017 89.017 0 0 0 0 1.0055 1 45953 45953 3.5965 0 1 16064 5387 10293 10317 18401 18401 0.14339049733962383 LGLLEPYFWKK 11 Unmodified _LGLLEPYFWKK_ 0 0 0 nc|ENSG00000132972|Q9BXT8-4|RNF17;nc|ENSG00000132972|Q9BXT8-5|RNF17;ENSG00000132972|ENST00000255324|RNF17 nc|ENSG00000132972|Q9BXT8-4|RNF17 nc|ENSG00000132972|Q9BXT8-4|RNF17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 697.396240234375 2 697.397556 1392.78056 NaN NaN NaN NaN NaN NaN NaN 83.892 1 83.921 83.421 84.421 0.028603 0 0 0 1.0059 1 41730 41730 2.9952 1.5133 1 16065 2741 10294 10318 18402 18402 0.09987968567816097 LGLLKKALIK 10 Unmodified _LGLLKKALIK_ 0 0 0 REV__LPO|p.M592I|1|0.41|ENSG00000167419|chr17:58267431-58267431|G/A|missense_variant REV__LPO|p.M592I|1|0.41|ENSG00000167419|chr17:58267431-58267431|G/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.892333984375 2 548.894452 1095.77435 NaN NaN NaN NaN NaN NaN NaN 95.237 1 95.237 94.737 95.737 0 0 0 0 0.99983 1 51239 51239 1.8442 0 1 + 16066 17818 10295 10319 18403 18403 0.23029495126957045 LGLLLLWLR 9 Unmodified _LGLLLLWLR_ 0 0 0 nc|ENSG00000251546|P04432|IGKV1D-39 nc|ENSG00000251546|P04432|IGKV1D-39 nc|ENSG00000251546|P04432|IGKV1D-39 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.308349609375 2 548.865695 1095.71684 NaN NaN NaN NaN NaN NaN NaN 98.131 1 98.73 98.23 99.23 0.59885 0 0 0 0.90511 1 45196 45196 2.3027 0 1 16067 9850 10296 10320 18404 18404 0.17280652921408546 LGLLLVKIIR 10 Unmodified _LGLLLVKIIR_ 0 0 0 REV__ENST00000479866.5_1_12:48143124-48152369:-|nuORF REV__ENST00000479866.5_1_12:48143124-48152369:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.47314453125 2 569.407727 1136.8009 NaN NaN NaN NaN NaN NaN NaN 97.814 1 97.814 97.314 98.314 0 0 0 0 0.99983 1 53377 53377 1.8442 0 1 + 16068 16682 10297 10321 18405 18405 0.23797184018326334 LGLLNKAKAHI 11 Unmodified _LGLLNKAKAHI_ 0 0 0 nc|ENSG00000119950|P50539-4|MXI1;nc|ENSG00000119950|P50539-2|MXI1;nc|ENSG00000119950|P50539|MXI1;ENSG00000119950|ENST00000332674|MXI1 nc|ENSG00000119950|P50539-4|MXI1 nc|ENSG00000119950|P50539-4|MXI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.37646484375 2 589.374415 1176.73428 NaN NaN NaN NaN NaN NaN NaN 94.174 1 94.174 93.674 94.674 0 0 0 0 1.0034 1 50440 50440 6.2058 0.47393 1 16069 2175 10298 10322 18406 18406 0.15297948456418453 LGLLVYRKRR 10 Unmodified _LGLLVYRKRR_ 0 0 0 ENSG00000125810|ENST00000246006|CD93 ENSG00000125810|ENST00000246006|CD93 ENSG00000125810|ENST00000246006|CD93 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 637.4164428710938 2 637.414406 1272.81426 NaN NaN NaN NaN NaN NaN NaN 95.527 1 95.527 95.027 96.027 0 0 0 0 0.99983 1 51460 51460 1.8442 0 1 16070 2421 10299 10323 18407 18407 0.1887643485024455 LGLPWLRIIA 10 Unmodified _LGLPWLRIIA_ 0 0 0 REV__nc|ENSG00000278259|Q96H55-4|MYO19 REV__nc|ENSG00000278259|Q96H55-4|MYO19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 576.8742065429688 2 576.368601 1150.72265 3.5477 0.0020448 2.0877 0.0012033 5.6354 0.0032481 576.3700138972799 35.846 0.34959 35.846 35.703 36.052 0 34 20 3 0 0 0 0.93628 1 16247 16247 1.6526 0 1 830600 + 16071 14750 10300 10324 18408 18408 0.15331751433086538 LGLPWLRIIA 10 Unmodified _LGLPWLRIIA_ 0 0 0 REV__nc|ENSG00000278259|Q96H55-4|MYO19 REV__nc|ENSG00000278259|Q96H55-4|MYO19 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 576.367919921875 2 576.368601 1150.72265 3.5477 0.0020448 2.0877 0.0012033 5.6354 0.0032481 576.3700138972799 35.846 0.34959 35.846 35.703 36.052 0 34 20 3 0 0 0 0.12676 1 16342 16342 1.6526 0 1 830600 + 16072 14750 10300 10324 18409 18409 0.15331751433086538 LGLPWLRIIA 10 Unmodified _LGLPWLRIIA_ 0 0 0 REV__nc|ENSG00000278259|Q96H55-4|MYO19 REV__nc|ENSG00000278259|Q96H55-4|MYO19 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 576.368601 1150.72265 3.2883 0.0018953 1.603 0.00092394 4.8914 0.0028192 576.3693681202121 35.484 0.48246 35.74 35.537 36.02 0.25524 -0.053236 -0.00015254 NaN 1.6526 46 16 3 NaN NaN NaN NaN 0 NaN NaN 0 1152400 + 16073 14750 10300 10324 0.15331751433086538 LGLRGLPV 8 Unmodified _LGLRGLPV_ 0 0 0 ENST00000432854.5_1_7:44103469-44103637:+|nuORF ENST00000432854.5_1_7:44103469-44103637:+|nuORF ENST00000432854.5_1_7:44103469-44103637:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 824.65234375 1 824.535249 823.527973 3.3167 0.0027347 -4.183 -0.003449 -0.86629 -0.00071429 824.5331508686132 92.012 0.13661 92.012 91.904 92.041 0 21 17 2 0 0 0 0.13779 1 48736 48736 6.3541 0 1 15144000 16074 7865 10301 10325 18410 18410 0.10915000347949899 LGLRGLPV 8 Unmodified _LGLRGLPV_ 0 0 0 ENST00000432854.5_1_7:44103469-44103637:+|nuORF ENST00000432854.5_1_7:44103469-44103637:+|nuORF ENST00000432854.5_1_7:44103469-44103637:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 824.5933837890625 1 824.535249 823.527973 2.5225 0.0020799 -2.8493 -0.0023494 -0.3268 -0.00026946 824.5343795963537 94.733 0.14314 94.815 94.74 94.883 0.082001 28 20 2 0 0 0 0.13779 1 49948 49948 2.8892 0 1 18263000 16075 7865 10301 10325 18411 18411 0.10915000347949899 LGLRGRRRKL 10 Unmodified _LGLRGRRRKL_ 0 0 0 ENST00000440190.1_1_1:40011768-40011846:-|nuORF ENST00000440190.1_1_1:40011768-40011846:-|nuORF ENST00000440190.1_1_1:40011768-40011846:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.0914306640625 2 612.909822 1223.80509 NaN NaN NaN NaN NaN NaN NaN 91.06 1 91.135 90.635 91.635 0.075279 0 0 0 0.99687 1 47083 47083 4.3292 0.38484 1 16076 7931 10302 10326 18412 18412 0.2021408628459085 LGLRLCLLKRR 11 Unmodified _LGLRLCLLKRR_ 0 0 0 REV__ENST00000298564.14_1_5:176084095-176084419:+|nuORF REV__ENST00000298564.14_1_5:176084095-176084419:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 671.095458984375 2 670.937191 1339.85983 NaN NaN NaN NaN NaN NaN NaN 90.393 1 90.393 89.893 90.893 0 0 0 0 1.0055 1 47493 47493 3.5965 2.1146 1 + 16077 15172 10303 10327 18413 18413 0.2034933704096602 LGLRRRRRRL 10 Unmodified _LGLRRRRRRL_ 0 0 0 REV__ENST00000374694.2_1_10:35930658-35931186:-|nuORF REV__ENST00000374694.2_1_10:35930658-35931186:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 676.4542236328125 2 676.45272 1350.89089 NaN NaN NaN NaN NaN NaN NaN 100.39 1 100.39 99.888 100.89 0 0 0 0 1.0015 1 55392 55392 0.45834 0.057624 1 + 16078 15790 10304 10328 18414 18414 0.22947671190104302 LGLRRRRRRLQ 11 Unmodified _LGLRRRRRRLQ_ 0 0 0 REV__ENST00000374694.2_1_10:35930658-35931186:-|nuORF REV__ENST00000374694.2_1_10:35930658-35931186:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.9921875 3 493.990431 1478.94946 NaN NaN NaN NaN NaN NaN NaN 88.53 1 88.582 88.082 89.082 0.052155 0 0 0 1.008 1 45117 45117 0.094841 0 1 + 16079 15790 10305 10329 18415 18415 0.22914727764600684 LGLRRRRRRLQ 11 Unmodified _LGLRRRRRRLQ_ 0 0 0 REV__ENST00000374694.2_1_10:35930658-35931186:-|nuORF REV__ENST00000374694.2_1_10:35930658-35931186:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 740.7390747070312 2 740.482008 1478.94946 NaN NaN NaN NaN NaN NaN NaN 101.6 1 101.92 101.42 102.42 0.31737 0 0 0 1.008 1 47012 47012 0.35063 0 1 + 16080 15790 10305 10329 18416 18416 0.22914727764600684 LGLTELKLPL 10 Unmodified _LGLTELKLPL_ 0 0 0 REV__ENST00000508913.5_1_5:43043449-43044931:+|nuORF REV__ENST00000508913.5_1_5:43043449-43044931:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.8550415039062 2 548.85245 1095.69035 NaN NaN NaN NaN NaN NaN NaN 45.106 1 45.373 44.873 45.873 0.26768 0 0 0 1.0004 1 20617 20617 1.3295 0 1 + 16081 16959 10306 10330 18417 18417 0.14632919239420517 LGLTTLLLL 9 Unmodified _LGLTTLLLL_ 0 0 0 REV__ENST00000222812.7_1_7:73113575-73114067:-|nuORF REV__ENST00000222812.7_1_7:73113575-73114067:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.7401428222656 2 478.823161 955.631769 NaN NaN NaN NaN NaN NaN NaN 47.097 1 47.926 47.426 48.426 0.82915 0 0 0 0.90511 1 21456 21456 2.3027 0 1 + 16082 14831 10307 10331 18418 18418 0.15217862664962922 LGLVFVIWI 9 Unmodified _LGLVFVIWI_ 0 0 0 REV__ENST00000309395.6_1_4:71847778-71847925:+|nuORF REV__ENST00000309395.6_1_4:71847778-71847925:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.83642578125 2 530.333696 1058.65284 2.1069 0.0011173 2.3411 0.0012416 4.448 0.0023589 530.8354809647917 90.887 0.050461 90.962 90.951 91.002 0.075279 7 5 2 0 0 0 0.92809 1 46956 46956 5.2307 0.47466 1 9290000 + 16083 15251 10308 10332 18419 18419 0.12585872764475425 LGLVLFIWWLW 11 Unmodified _LGLVLFIWWLW_ 0 0 0 REV__ENSG00000102471|ENST00000218652|NDFIP2 REV__ENSG00000102471|ENST00000218652|NDFIP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 723.4194946289062 2 723.420834 1444.82712 NaN NaN NaN NaN NaN NaN NaN 49.495 1 50.15 49.65 50.65 0.65524 0 0 0 1.008 1 22640 22640 0.35063 0 1 + 16084 10930 10309 10333 18420 18420 0.12249453189792803 LGLVLPILKLL 11 Unmodified _LGLVLPILKLL_ 0 0 0 REV__ENSG00000117408|ENST00000372343|IPO13 REV__ENSG00000117408|ENST00000372343|IPO13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 596.4243774414062 2 596.425585 1190.83662 NaN NaN NaN NaN NaN NaN NaN 105.88 1 105.93 105.43 106.43 0.04837 0 0 0 1.008 1 57298 57298 0.35063 0.043601 1 + 16085 11441 10310 10334 18421 18421 0.24883221475329265 LGLVLRGP 8 Unmodified _LGLVLRGP_ 0 0 0 ENST00000435439.5_1_22:46481889-46482033:+|nuORF ENST00000435439.5_1_22:46481889-46482033:+|nuORF ENST00000435439.5_1_22:46481889-46482033:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 824.5418090820312 1 824.535249 823.527973 3.3512 0.0027632 3.513 0.0028966 6.8642 0.0056598 824.5394611527971 95.684 0.031494 95.684 95.665 95.696 0 6 4 2 0 0 0 0.14069 1 51598 51598 6.3541 0 1 25910000 16086 7890 10311 10335 18422 18422 0.10915000347961268 LGLVLSLVVM 10 Unmodified _LGLVLSLVVM_ 0 0 0 REV__ENST00000539246.5_1_11:61286101-61314074:-|nuORF REV__ENST00000539246.5_1_11:61286101-61314074:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.8466186523438 2 522.330296 1042.64604 NaN NaN NaN NaN NaN NaN NaN 43.619 1 44.433 43.933 44.933 0.81444 0 0 0 0.99983 1 19856 19856 1.8442 0 1 + 16087 10235 10312 10336 18423 18423 0.12642191821601045 LGLWRYAQHEH 11 Unmodified _LGLWRYAQHEH_ 0 0 0 REV__ENSG00000164978|ENST00000379158|NUDT2 REV__ENSG00000164978|ENST00000379158|NUDT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 705.4061889648438 2 705.357285 1408.70002 NaN NaN NaN NaN NaN NaN NaN 91.402 1 91.402 90.902 91.902 0 0 0 0 1.0055 1 48279 48279 3.5965 0 1 + 16088 13125 10313 10337 18424 18424 0.01201500297520397 LGMAVTKWVAG 11 Unmodified _LGMAVTKWVAG_ 0 0 0 REV__ENST00000587947.5_1_19:38880744-38880980:+|nuORF REV__ENST00000587947.5_1_19:38880744-38880980:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 378.2125549316406 3 378.21096 1131.61105 NaN NaN NaN NaN NaN NaN NaN 57.547 1 58.316 57.816 58.816 0.76861 0 0 0 1.0041 1 26360 26360 2.4348 0.8425 1 + 16089 17556 10314 10338 18425 18425 0.05050949013616446 LGMEAKVKTYD 11 Unmodified _LGMEAKVKTYD_ 0 0 0 nc|ENSG00000129003|Q709C8-4|VPS13C;nc|ENSG00000129003|Q709C8-2|VPS13C;nc|ENSG00000129003|Q709C8-3|VPS13C;ENSG00000129003|ENST00000644861|VPS13C nc|ENSG00000129003|Q709C8-4|VPS13C nc|ENSG00000129003|Q709C8-4|VPS13C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 627.822998046875 2 627.823563 1253.63257 NaN NaN NaN NaN NaN NaN NaN 79.756 1 80.006 79.506 80.506 0.24947 0 0 0 1.0073 1 36724 36724 1.1933 0 1 16090 2535 10315 10339 18426 18426 0.01590289251703325 LGMELQFVKML 11 Unmodified _LGMELQFVKML_ 0 0 0 REV__CSGALNACT2|p.K238*|1|0.17|ENSG00000169826|chr10:43158758-43158759|-/T|frameshift_variant REV__CSGALNACT2|p.K238*|1|0.17|ENSG00000169826|chr10:43158758-43158759|-/T|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 436.90753173828125 3 436.90666 1307.69815 2.6581 0.0011613 -0.03701 -1.617E-05 2.6211 0.0011452 436.906546487025 15.047 0.43611 15.354 15.163 15.599 0.3069 75 45 3 0 0 0 0.9102 1 6774 6774 0.50596 0 1 105100 + 16091 10113 10316 10340 18427 18427 0.05660987173018839 LGMRRFKFDVW 11 Unmodified _LGMRRFKFDVW_ 0 0 0 ENSG00000162104|ENST00000294016|ADCY9 ENSG00000162104|ENST00000294016|ADCY9 ENSG00000162104|ENST00000294016|ADCY9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.93109130859375 3 485.595696 1453.76526 3.0953 0.0015031 -0.89498 -0.0004346 2.2004 0.0010685 485.5952331022094 26.732 0.48584 26.997 26.69 27.176 0.26489 57 32 2 0 0 0 0.89544 1 12188 12188 2.6312 1.3016 1 466130 16092 4121 10317 10341 18428 18428 0.05652778498983935 LGMRRFKFDVW 11 Unmodified _LGMRRFKFDVW_ 0 0 0 ENSG00000162104|ENST00000294016|ADCY9 ENSG00000162104|ENST00000294016|ADCY9 ENSG00000162104|ENST00000294016|ADCY9 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 485.595696 1453.76526 3.1005 0.0015056 -0.89979 -0.00043693 2.2008 0.0010687 485.92952158255343 26.332 0.4941 26.957 26.637 27.131 0.62505 -0.019853 -3.6468E-06 NaN 2.6312 71 29 3 NaN NaN NaN NaN 0 NaN NaN 0 345110 16093 4121 10317 10341 0.05652778498983935 LGMWYWKDETR 11 Unmodified _LGMWYWKDETR_ 0 0 0 ENSG00000165807|ENST00000298705|PPP1R36 ENSG00000165807|ENST00000298705|PPP1R36 ENSG00000165807|ENST00000298705|PPP1R36 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 742.8521728515625 2 742.853187 1483.69182 NaN NaN NaN NaN NaN NaN NaN 48.815 1 48.815 48.315 49.315 0 0 0 0 1.0071 1 22356 22356 1.4819 1.1313 1 16094 4424 10318 10342 18429 18429 -0.03067814734163221 LGMWYWKDETR 11 Unmodified _LGMWYWKDETR_ 0 0 0 ENSG00000165807|ENST00000298705|PPP1R36 ENSG00000165807|ENST00000298705|PPP1R36 ENSG00000165807|ENST00000298705|PPP1R36 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 742.9298706054688 2 742.853187 1483.69182 NaN NaN NaN NaN NaN NaN NaN 44.888 1 45.708 45.208 46.208 0.82075 0 0 0 1.0071 1 20442 20442 1.4819 0.15237 1 16095 4424 10318 10342 18430 18430 -0.03067814734163221 LGMYDSSLAAK 11 Unmodified _LGMYDSSLAAK_ 0 0 0 ENSG00000087008|ENST00000356406|ACOX3;nc|ENSG00000087008|O15254-2|ACOX3;ENST00000510365.5_1_4:8376552-8417570:-|nuORF ENSG00000087008|ENST00000356406|ACOX3 ENSG00000087008|ENST00000356406|ACOX3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.413330078125 2 578.289356 1154.56416 NaN NaN NaN NaN NaN NaN NaN 91.045 1 91.045 90.545 91.545 0 0 0 0 1.0041 1 47987 47987 5.2969 0.54088 1 16096 991 10319 10343 18431 18431 -0.006939553281881672 LGNFRRQLWL 10 Unmodified _LGNFRRQLWL_ 0 0 0 ENSG00000156486|ENST00000287042|KCNS2 ENSG00000156486|ENST00000287042|KCNS2 ENSG00000156486|ENST00000287042|KCNS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 651.8778076171875 2 651.875114 1301.73567 NaN NaN NaN NaN NaN NaN NaN 53.419 1 53.419 52.919 53.919 0 0 0 0 1.0001 1 24474 24474 1.6526 0 1 16097 3913 10320 10344 18432 18432 0.09687582545166151 LGNRVRLRLKK 11 Unmodified _LGNRVRLRLKK_ 0 0 0 AluSc8_dup5967|chr5:1408001-1408339:-|1.0254959645658634|0.0176600485494751|5.86|497.0|1|1|sense AluSc8_dup5967|chr5:1408001-1408339:-|1.0254959645658634|0.0176600485494751|5.86|497.0|1|1|sense AluSc8_dup5967|chr5:1408001-1408339:-|1.0254959645658634|0.0176600485494751|5.86|497.0|1|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 676.8399658203125 2 676.951687 1351.88882 NaN NaN NaN NaN NaN NaN NaN 81.949 1 81.949 81.449 82.449 0 0 0 0 1.0071 1 40878 40878 1.4819 1.1313 1 16098 35 10321 10345 18433 18433 0.22695197661619204 LGNRVWLKQMA 11 Unmodified _LGNRVWLKQMA_ 0 0 0 REV__nc|ENSG00000196383|P0C623|OR4Q2 REV__nc|ENSG00000196383|P0C623|OR4Q2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 658.0950317382812 2 658.368807 1314.72306 NaN NaN NaN NaN NaN NaN NaN 93.988 1 94.248 93.748 94.748 0.25975 0 0 0 1.0072 1 43194 43194 1.3295 0.13619 1 + 16099 18091 10322 10346 18434 18434 0.07828803090615111 LGPFLLPLPAR 11 Unmodified _LGPFLLPLPAR_ 0 0 0 ENST00000439898.1_1_3:50297866-50298034:+|nuORF ENST00000439898.1_1_3:50297866-50298034:+|nuORF ENST00000439898.1_1_3:50297866-50298034:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.91998291015625 3 398.585015 1192.73321 3.0814 0.0012282 0.3357 0.00013381 3.4171 0.001362 398.58515388496244 44.683 0.71341 45.333 44.828 45.541 0.64998 61 29 3 0 0 0 0.91068 1 20376 20376 1.3296 0.25818 1 2474200 16100 7927 10323 10347 18435 18435 0.14455734087528072 LGPKVKIHF 9 Unmodified _LGPKVKIHF_ 0 0 0 REV__ENST00000237536.8_2_20:35414692-35414812:-|nuORF REV__ENST00000237536.8_2_20:35414692-35414812:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.8878173828125 3 346.886805 1037.63859 1.8337 0.0006361 0.66743 0.00023152 2.5012 0.00086762 346.88687971099887 73.002 0.46554 73.666 73.491 73.957 0.66398 131 49 3 0 0 0 1.0601 1 33491 33491 2.9952 0.26005 1 3112700 + 16101 14872 10324 10348 18436 18436 0.12127220336174105 LGPLKLLLI 9 Unmodified _LGPLKLLLI_ 0 0 0 REV__nc|ENSG00000136104|Q5TBB1-2|RNASEH2B REV__nc|ENSG00000136104|Q5TBB1-2|RNASEH2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.3482971191406 2 490.349346 978.684139 NaN NaN NaN NaN NaN NaN NaN 94.355 1 94.441 93.941 94.941 0.086212 0 0 0 0.91206 1 49619 49619 0.6015 0 1 + 16102 12060 10325 10349 18437 18437 0.19394445798559445 LGPLLSWQPL 10 Unmodified _LGPLLSWQPL_ 0 0 0 REV__chr5:172853429-172888699|178|10.35|0.57|4.18|+|2|ERGIC1,ERGIC1|1 REV__chr5:172853429-172888699|178|10.35|0.57|4.18|+|2|ERGIC1,ERGIC1|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 375.2227478027344 3 375.221853 1122.64373 2.5378 0.00095223 0.35735 0.00013408 2.8951 0.0010863 375.2220208483483 30.361 0.31151 31.151 30.961 31.272 0.78921 63 26 3 0 0 0 0.64548 1 13686 13686 15.739 2.6962 1 408890 + 16103 10048 10326 10350 18438 18438 0.08731479408129417 LGPLLSWQPL 10 Unmodified _LGPLLSWQPL_ 0 0 0 REV__chr5:172853429-172888699|178|10.35|0.57|4.18|+|2|ERGIC1,ERGIC1|1 REV__chr5:172853429-172888699|178|10.35|0.57|4.18|+|2|ERGIC1,ERGIC1|1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 375.221853 1122.64373 2.967 0.0011133 0.43806 0.00016437 3.405 0.0012776 375.2220412378576 31.311 0.19636 31.311 31.235 31.432 0 -0.0037198 0.00021871 NaN 15.739 30 17 2 NaN NaN NaN NaN 0 NaN NaN 0 680400 + 16104 10048 10326 10350 0.08731479408129417 LGPLLSWQPL 10 Unmodified _LGPLLSWQPL_ 0 0 0 REV__chr5:172853429-172888699|178|10.35|0.57|4.18|+|2|ERGIC1,ERGIC1|1 REV__chr5:172853429-172888699|178|10.35|0.57|4.18|+|2|ERGIC1,ERGIC1|1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 375.221853 1122.64373 2.5378 0.00095223 0.35735 0.00013408 2.8951 0.0010863 375.2220208483483 30.361 0.31151 31.151 30.961 31.272 0.78921 -0.16443 0.00012786 NaN 15.739 63 26 3 NaN NaN NaN NaN 0 NaN NaN 0 408890 + 16105 10048 10326 10350 0.08731479408129417 LGPLLSWQPL 10 Unmodified _LGPLLSWQPL_ 0 0 0 REV__chr5:172853429-172888699|178|10.35|0.57|4.18|+|2|ERGIC1,ERGIC1|1 REV__chr5:172853429-172888699|178|10.35|0.57|4.18|+|2|ERGIC1,ERGIC1|1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 375.221853 1122.64373 3.2623 0.0012241 -0.060982 -2.2882E-05 3.2013 0.0012012 375.2219375228811 31.191 0.53549 31.447 31.225 31.76 0.25614 0.13225 -0.00034304 NaN 15.739 85 40 3 NaN NaN NaN NaN 0 NaN NaN 0 1386400 + 16106 10048 10326 10350 0.08731479408129417 LGPLLSWQPL 10 Unmodified _LGPLLSWQPL_ 0 0 0 REV__chr5:172853429-172888699|178|10.35|0.57|4.18|+|2|ERGIC1,ERGIC1|1 REV__chr5:172853429-172888699|178|10.35|0.57|4.18|+|2|ERGIC1,ERGIC1|1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 375.221853 1122.64373 2.6871 0.0010083 0.27796 0.0001043 2.9651 0.0011126 375.2219972272981 30.733 0.52393 31.351 31.13 31.654 0.61737 0.035898 3.8493E-05 NaN 15.739 69 31 3 NaN NaN NaN NaN 0 NaN NaN 0 1273900 + 16107 10048 10326 10350 0.08731479408129417 LGPLNSRVLIV 11 Unmodified _LGPLNSRVLIV_ 0 0 0 REV__ENSG00000134569|ENST00000378623|LRP4 REV__ENSG00000134569|ENST00000378623|LRP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.7408447265625 2 590.874248 1179.73394 NaN NaN NaN NaN NaN NaN NaN 94.16 1 94.247 93.747 94.747 0.086212 0 0 0 1.0048 1 49472 49472 5.2969 0 1 + 16108 11968 10327 10351 18439 18439 0.15126528736573164 LGPQEEARAD 10 Unmodified _LGPQEEARAD_ 0 0 0 REV__ENST00000487452.1_1_7:100033550-100034039:-|nuORF REV__ENST00000487452.1_1_7:100033550-100034039:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.1817626953125 2 543.264727 1084.5149 NaN NaN NaN NaN NaN NaN NaN 94.86 1 94.86 94.36 95.36 0 0 0 0 0.97102 1 50976 50976 10.074 2.7847 1 + 16109 16768 10328 10352 18440 18440 -0.0239752729276006 LGQELGLHPLS 11 Unmodified _LGQELGLHPLS_ 0 0 0 ENST00000377456.6_1_6:27219391-27219616:+|nuORF ENST00000377456.6_1_6:27219391-27219616:+|nuORF ENST00000377456.6_1_6:27219391-27219616:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 582.2896118164062 2 582.324588 1162.63462 NaN NaN NaN NaN NaN NaN NaN 88.734 1 88.734 88.234 89.234 0 0 0 0 0.78004 1 46130 46130 21.59 5.441 1 16110 7415 10329 10353 18441 18441 0.059810860518155096 LGQRHIRRRR 10 Unmodified _LGQRHIRRRR_ 0 0 0 nc|ENSG00000143537|Q13444-5|ADAM15;ENST00000527418.5_1_1:155025082-155034975:+|nuORF;nc|ENSG00000143537|Q13444-3|ADAM15;ENSG00000143537|ENST00000356955|ADAM15;nc|ENSG00000143537|Q13444-13|ADAM15;nc|ENSG00000143537|Q13444-10|ADAM15;nc|ENSG00000143537|Q13444-9|ADAM15;nc|ENSG00000143537|Q13444-8|ADAM15;nc|ENSG00000143537|Q13444-2|ADAM15;nc|ENSG00000143537|Q13444-7|ADAM15;nc|ENSG00000143537|Q13444-6|ADAM15;nc|ENSG00000143537|Q13444-12|ADAM15;ENST00000461564.6_1_1:155023817-155033989:+|nuORF;nc|ENSG00000143537|Q13444-4|ADAM15 nc|ENSG00000143537|Q13444-5|ADAM15 nc|ENSG00000143537|Q13444-5|ADAM15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 674.4600830078125 2 674.418877 1346.8232 NaN NaN NaN NaN NaN NaN NaN 97.135 1 97.206 96.706 97.706 0.070648 0 0 0 0.99983 1 51831 51831 1.8442 0.36234 1 16111 3377 10330 10354 18442 18442 0.16366221259295344 LGQRLQHYAK 10 Unmodified _LGQRLQHYAK_ 0 0 0 nc|ENSG00000120694|Q92598-2|HSPH1;nc|ENSG00000120694|Q92598-3|HSPH1;ENSG00000120694|ENST00000320027|HSPH1;nc|ENSG00000120694|Q92598-4|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.2326354980469 3 405.231523 1212.67274 2.1359 0.00086555 -0.2096 -8.4935E-05 1.9263 0.00078062 405.2314215488424 11.336 0.6439 11.615 11.305 11.949 0.2792 275 133 3 0 0 0 0.83621 1 4831 4831 3.5871 0.6607 1 146260 16112 2206 10331 10355 18443 18443 0.0749101675712609 LGQRRYEEVP 10 Unmodified _LGQRRYEEVP_ 0 0 0 REV__nc|ENSG00000171100|Q13496-2|MTM1 REV__nc|ENSG00000171100|Q13496-2|MTM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 623.801513671875 2 623.830569 1245.64658 NaN NaN NaN NaN NaN NaN NaN 89.046 1 89.046 88.546 89.546 0 0 0 0 0.99225 1 46389 46389 6.7232 0.51738 1 + 16113 13472 10332 10356 18444 18444 0.033587027949806725 LGRGFLKYILS 11 Unmodified _LGRGFLKYILS_ 0 0 0 ENST00000358268.6_2_21:40807413-40817472:-|nuORF ENST00000358268.6_2_21:40807413-40817472:-|nuORF ENST00000358268.6_2_21:40807413-40817472:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.3543701171875 2 633.882073 1265.74959 NaN NaN NaN NaN NaN NaN NaN 83.914 1 83.914 83.414 84.414 0 0 0 0 1.0063 1 42362 42362 2.4985 0.84587 1 16114 7189 10333 10357 18445 18445 0.12734815253611487 LGRGGKKK 8 Unmodified _LGRGGKKK_ 0 0 0 REV__ENST00000368490.2_1_1:154300594-154302931:+|nuORF REV__ENST00000368490.2_1_1:154300594-154302931:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.28155517578125 2 422.279786 842.54502 2.941 0.0012419 0.35256 0.00014888 3.2936 0.0013908 422.28008037305847 12.849 0.077341 12.849 12.788 12.865 0 4 2 2 0 0 0 0.70146 1 5613 5613 5.7604 0 1 558310 + 16115 15685 10334 10358 18446 18446 0.1174492095375399 LGRHIFWRRLR 11 Unmodified _LGRHIFWRRLR_ 0 0 0 nc|ENSG00000136869|O00206-3|TLR4;nc|ENSG00000136869|O00206-2|TLR4;ENSG00000136869|ENST00000355622|TLR4 nc|ENSG00000136869|O00206-3|TLR4 nc|ENSG00000136869|O00206-3|TLR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 755.455078125 2 755.454928 1508.8953 NaN NaN NaN NaN NaN NaN NaN 97.717 1 97.717 97.217 98.217 0 0 0 0 1.008 1 53283 53283 0.35063 0 1 16116 2983 10335 10359 18447 18447 0.1612113561300248 LGRILYAPY 9 Unmodified _LGRILYAPY_ 0 0 0 nc|ENSG00000144452|Q86UK0-2|ABCA12;ENSG00000144452|ENST00000272895|ABCA12 nc|ENSG00000144452|Q86UK0-2|ABCA12 nc|ENSG00000144452|Q86UK0-2|ABCA12 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 532.9735717773438 2 533.30821 1064.60187 2.5464 0.001358 1.0973 0.00058521 3.6437 0.0019432 533.8104168122045 70.583 0.15666 71.287 71.261 71.417 0.70386 26 19 2 0 0 0 0.10063 1 33902 33902 1.6526 0 1 1720000 16117 3426 10336 10360 18448 18448 0.07214923719607214 LGRKLRRRKKK 11 Unmodified _LGRKLRRRKKK_ 0 0 0 ENST00000530731.5_1_11:124495676-124501136:+|nuORF;nc|ENSG00000154144|Q3YBR2-2|TBRG1 ENST00000530731.5_1_11:124495676-124501136:+|nuORF ENST00000530731.5_1_11:124495676-124501136:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 719.9967651367188 2 719.999503 1437.98445 NaN NaN NaN NaN NaN NaN NaN 80.776 1 80.776 80.276 81.276 0 0 0 0 1.008 1 40181 40181 0.35063 0.35063 1 16118 8716 10337 10361 18449 18449 0.28297970572498343 LGRLQAAPL 9 Unmodified _LGRLQAAPL_ 0 0 0 REV__ENST00000578552.5_2_17:80015029-80015326:+|nuORF REV__ENST00000578552.5_2_17:80015029-80015326:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.0429382324219 2 469.792727 937.5709 NaN NaN NaN NaN NaN NaN NaN 52.864 1 53.668 53.168 54.168 0.80351 0 0 0 0.90431 1 24090 24090 1.8442 0 1 + 16119 17492 10338 10362 18450 18450 0.0996177040534576 LGRLQHHR 8 Unmodified _LGRLQHHR_ 0 0 0 ENST00000345016.9_1_19:2137013-2137780:-|nuORF ENST00000345016.9_1_19:2137013-2137780:-|nuORF ENST00000345016.9_1_19:2137013-2137780:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.796142578125 2 508.796666 1015.57878 3.4497 0.0017552 -1.7622 -0.00089661 1.6875 0.00085859 508.7955692537129 83.888 0.24483 84.55 84.418 84.662 0.66219 27 14 3 0 0 0 0.7441 1 38618 38618 2.3027 0.4585 1 939240 16120 7108 10339 10363 18451 18451 0.07161342445499486 LGRLWRHWWLR 11 Unmodified _LGRLWRHWWLR_ 0 0 0 ENST00000473038.5_1_1:46033610-46035625:+|nuORF ENST00000473038.5_1_1:46033610-46035625:+|nuORF ENST00000473038.5_1_1:46033610-46035625:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 789.9510498046875 2 789.949479 1577.8844 NaN NaN NaN NaN NaN NaN NaN 95.993 1 95.993 95.493 96.493 0 0 0 0 1.008 1 51848 51848 0.35063 0 1 16121 8193 10340 10364 18452 18452 0.11857733238707624 LGRPVGDS 8 Unmodified _LGRPVGDS_ 0 0 0 REV__chr7:128456023-128457334|256|10.19|0.4|4.68|+|0|HILPDA,None|1 REV__chr7:128456023-128457334|256|10.19|0.4|4.68|+|0|HILPDA,None|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.7176513671875 2 400.716685 799.418816 2.9032 0.0011634 -0.066192 -2.6524E-05 2.837 0.0011368 400.71664257311994 28.455 0.29103 28.716 28.539 28.83 0.2602 26 16 2 0 0 0 0.56084 1 12914 12914 16.942 1.0951 1 318740 + 16122 10055 10341 10365 18453 18453 0.011083696578111812 LGRPVGDS 8 Unmodified _LGRPVGDS_ 0 0 0 REV__chr7:128456023-128457334|256|10.19|0.4|4.68|+|0|HILPDA,None|1 REV__chr7:128456023-128457334|256|10.19|0.4|4.68|+|0|HILPDA,None|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 400.7176208496094 2 400.716685 799.418816 2.8608 0.0011464 0.0070146 2.8109E-06 2.8678 0.0011492 400.7166641564497 27.985 0.31639 28.605 28.474 28.79 0.61947 29 20 2 0 0 0 0.62895 1 12839 12839 11.64 0.81637 1 283790 + 16123 10055 10341 10365 18454 18454 0.011083696578111812 LGRPVGDS 8 Unmodified _LGRPVGDS_ 0 0 0 REV__chr7:128456023-128457334|256|10.19|0.4|4.68|+|0|HILPDA,None|1 REV__chr7:128456023-128457334|256|10.19|0.4|4.68|+|0|HILPDA,None|1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 400.716685 799.418816 2.9511 0.0011825 -0.10371 -4.1558E-05 2.8474 0.001141 400.71660158790917 28.624 0.22424 28.624 28.519 28.744 0 0.031359 -7.4087E-05 NaN 16.942 21 18 2 NaN NaN NaN NaN 0 NaN NaN 0 258130 + 16124 10055 10341 10365 0.011083696578111812 LGRPVGDS 8 Unmodified _LGRPVGDS_ 0 0 0 REV__chr7:128456023-128457334|256|10.19|0.4|4.68|+|0|HILPDA,None|1 REV__chr7:128456023-128457334|256|10.19|0.4|4.68|+|0|HILPDA,None|1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 400.716685 799.418816 2.9032 0.0011634 -0.066192 -2.6524E-05 2.837 0.0011368 400.71664257311994 28.455 0.29103 28.716 28.539 28.83 0.2602 0.12296 -4.4019E-05 NaN 16.942 26 16 2 NaN NaN NaN NaN 0 NaN NaN 0 318740 + 16125 10055 10341 10365 0.011083696578111812 LGRRARVWRRH 11 Unmodified _LGRRARVWRRH_ 0 0 0 ENSG00000204779|ENST00000377420|FOXD4L5;ENSG00000184659|ENST00000377413|FOXD4L4;ENSG00000273514|ENST00000622588|FOXD4L6;ENSG00000187559|ENST00000342833|FOXD4L3;ENSG00000170122|ENST00000382500|FOXD4 ENSG00000204779|ENST00000377420|FOXD4L5 ENSG00000204779|ENST00000377420|FOXD4L5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 731.8118896484375 2 731.939976 1461.8654 NaN NaN NaN NaN NaN NaN NaN 83.521 1 83.566 83.066 84.066 0.045006 0 0 0 1.0071 1 41467 41467 1.4819 0 1 16126 4732 10342 10366 18455 18455 0.15294196667650795 LGRRGCLPAL 10 Unmodified _LGRRGCLPAL_ 0 0 0 REV__nc|ENSG00000285130|Q16595-2|FXN REV__nc|ENSG00000285130|Q16595-2|FXN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.4673461914062 2 528.310761 1054.60697 NaN NaN NaN NaN NaN NaN NaN 57.503 1 58.271 57.771 58.771 0.76861 0 0 0 0.99687 1 26335 26335 4.3292 0.38484 1 + 16127 13130 10343 10367 18456 18456 0.08184904310564889 LGRRPLLRRLP 11 Unmodified _LGRRPLLRRLP_ 0 0 0 REV__nc|ENSG00000099385|Q8WUZ0-2|BCL7C REV__nc|ENSG00000099385|Q8WUZ0-2|BCL7C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 673.947998046875 2 673.946405 1345.87826 NaN NaN NaN NaN NaN NaN NaN 61.808 1 62.539 62.039 63.039 0.73077 0 0 0 1.0057 1 28714 28714 3.2813 0.99853 1 + 16128 17879 10344 10368 18457 18457 0.21915215007220468 LGRRQWWWRRR 11 Unmodified _LGRRQWWWRRR_ 0 0 0 ENST00000296754.7_2_5:96139638-96143632:-|nuORF ENST00000296754.7_2_5:96139638-96143632:-|nuORF ENST00000296754.7_2_5:96139638-96143632:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 828.4656372070312 2 828.466358 1654.91816 NaN NaN NaN NaN NaN NaN NaN 90.11 1 90.175 89.675 90.675 0.064346 0 0 0 1.008 1 46350 46350 0.35063 0.35063 1 16129 6773 10345 10369 18458 18458 0.11690154730467839 LGRRRGRHR 9 Unmodified _LGRRRGRHR_ 0 0 0 REV__ENSG00000161956|ENST00000321337|SENP3 REV__ENSG00000161956|ENST00000321337|SENP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.355712890625 2 582.358288 1162.70202 NaN NaN NaN NaN NaN NaN NaN 99.504 1 99.812 99.312 100.31 0.30835 0 0 0 0.86044 1 45975 45975 7.2892 2.5332 1 + 16130 12922 10346 10370 18459 18459 0.12718018616646987 LGRRRIRPRLR 11 Unmodified _LGRRRIRPRLR_ 0 0 0 REV__nc|ENSG00000159714|Q8WTX9|ZDHHC1 REV__nc|ENSG00000159714|Q8WTX9|ZDHHC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 724.7421264648438 2 724.979102 1447.94365 NaN NaN NaN NaN NaN NaN NaN 84.096 1 84.096 83.596 84.596 0 0 0 0 1.008 1 42498 42498 0.35063 0.043601 1 + 16131 17996 10347 10371 18460 18460 0.23759629252913328 LGRRRRWKLW 10 Unmodified _LGRRRRWKLW_ 0 0 0 REV__ENST00000424349.1_1_3:14988719-14988935:-|nuORF REV__ENST00000424349.1_1_3:14988719-14988935:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 713.9381103515625 2 713.936371 1425.85819 NaN NaN NaN NaN NaN NaN NaN 39.508 1 40.146 39.646 40.646 0.63778 0 0 0 1.0015 1 18055 18055 0.45834 0.057624 1 + 16132 16202 10348 10372 18461 18461 0.1622946406725987 LGRRSAERPV 10 Unmodified _LGRRSAERPV_ 0 0 0 REV__chr5:1436090-1441359|142|12.65|0.01|11.19|-|0|None,SLC6A3|2 REV__chr5:1436090-1441359|142|12.65|0.01|11.19|-|0|None,SLC6A3|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.8099365234375 2 570.833446 1139.65234 NaN NaN NaN NaN NaN NaN NaN 95.614 1 95.696 95.196 96.196 0.082001 0 0 0 0.99225 1 50581 50581 6.7232 1.9672 1 + 16133 10047 10349 10373 18462 18462 0.08809846097301488 LGRVGPRG 8 Unmodified _LGRVGPRG_ 0 0 0 REV__nc|ENSG00000124749|Q96P44-2|COL21A1 REV__nc|ENSG00000124749|Q96P44-2|COL21A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 406.2494201660156 2 406.248486 810.48242 1.9211 0.00078044 0.44731 0.00018172 2.3684 0.00096216 406.24857574559866 82.938 0.38264 82.983 82.796 83.179 0.045006 107 44 3 0 0 0 0.7441 1 40998 40998 2.3027 0 1 27010000 + 16134 11667 10350 10374 18463 18463 0.06959774885569914 LGRVHKRR 8 Unmodified _LGRVHKRR_ 0 0 0 REV__ENST00000434404.2_1_1:229406689-229407103:-|nuORF REV__ENST00000434404.2_1_1:229406689-229407103:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 511.3287658691406 2 511.328134 1020.64171 2.1071 0.0010774 -0.5803 -0.00029672 1.5268 0.0007807 511.3277361427045 93.526 0.21803 93.612 93.5 93.718 0.086212 48 29 2 0 0 0 0.74071 1 48975 48975 2.5775 2.5775 1 12726000 + 16135 16292 10351 10375 18464 18464 0.13221908233549584 LGRVHKRR 8 Unmodified _LGRVHKRR_ 0 0 0 REV__ENST00000434404.2_1_1:229406689-229407103:-|nuORF REV__ENST00000434404.2_1_1:229406689-229407103:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 511.328134 1020.64171 2.754 0.0014082 -1.2782 -0.00065357 1.4758 0.00075462 511.32744103378514 93.987 0.3238 93.987 93.785 94.109 0 0.28427 0.0002409 NaN 2.5775 79 42 3 NaN NaN NaN NaN 0 NaN NaN 0 15954000 + 16136 16292 10351 10375 0.13221908233549584 LGRVHKRR 8 Unmodified _LGRVHKRR_ 0 0 0 REV__ENST00000434404.2_1_1:229406689-229407103:-|nuORF REV__ENST00000434404.2_1_1:229406689-229407103:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 511.328134 1020.64171 2.1071 0.0010774 -0.5803 -0.00029672 1.5268 0.0007807 511.3277361427045 93.526 0.21803 93.612 93.5 93.718 0.086212 -0.089845 0.00095459 NaN 2.5775 48 29 2 NaN NaN NaN NaN 0 NaN NaN 0 12726000 + 16137 16292 10351 10375 0.13221908233549584 LGRVHKRR 8 Unmodified _LGRVHKRR_ 0 0 0 REV__ENST00000434404.2_1_1:229406689-229407103:-|nuORF REV__ENST00000434404.2_1_1:229406689-229407103:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 511.328134 1020.64171 3.9523 0.0020209 -1.7605 -0.0009002 2.1918 0.0011207 511.3271516635701 93.365 0.49214 93.62 93.353 93.845 0.25497 -0.082475 -0.00025237 NaN 2.5775 83 24 4 NaN NaN NaN NaN 0 NaN NaN 0 20636000 + 16138 16292 10351 10375 0.13221908233549584 LGRVHKRR 8 Unmodified _LGRVHKRR_ 0 0 0 REV__ENST00000434404.2_1_1:229406689-229407103:-|nuORF REV__ENST00000434404.2_1_1:229406689-229407103:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 511.328134 1020.64171 3.552 0.0018162 -1.9288 -0.00098625 1.6232 0.00082998 511.32706345757396 92.943 0.46426 93.59 93.345 93.809 0.64714 -0.11195 -0.00042447 NaN 2.5775 86 24 5 NaN NaN NaN NaN 0 NaN NaN 0 29407000 + 16139 16292 10351 10375 0.13221908233549584 LGRVLHRRILE 11 Unmodified _LGRVLHRRILE_ 0 0 0 nc|ENSG00000070985|Q9NZQ8-3|TRPM5;ENSG00000070985|ENST00000696290|TRPM5;nc|ENSG00000070985|Q9NZQ8-2|TRPM5 nc|ENSG00000070985|Q9NZQ8-3|TRPM5 nc|ENSG00000070985|Q9NZQ8-3|TRPM5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 681.4288330078125 2 681.428045 1360.84154 NaN NaN NaN NaN NaN NaN NaN 53.386 1 53.649 53.149 54.149 0.26345 0 0 0 1.008 1 24415 24415 0.35063 0 1 16140 775 10352 10376 18465 18465 0.17554918390669627 LGRWAILAMV 10 Unmodified _LGRWAILAMV_ 0 0 0 nc|ENSG00000134765|Q08554-2|DSC1;ENSG00000134765|ENST00000257198|DSC1 nc|ENSG00000134765|Q08554-2|DSC1 nc|ENSG00000134765|Q08554-2|DSC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.9768676757812 2 565.331162 1128.64777 NaN NaN NaN NaN NaN NaN NaN 89.747 1 89.811 89.311 90.311 0.064346 0 0 0 0.99687 1 46060 46060 4.3292 0.38484 1 16141 2828 10353 10377 18466 18466 0.08859245630173973 LGRWVKHAAW 10 Unmodified _LGRWVKHAAW_ 0 0 0 REV__ENST00000366204.6_1_14:21488585-21489215:-|nuORF REV__ENST00000366204.6_1_14:21488585-21489215:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 612.3430786132812 2 612.343449 1222.67235 NaN NaN NaN NaN NaN NaN NaN 89.242 1 89.307 88.807 89.807 0.064346 0 0 0 0.99774 1 45685 45685 3.5965 0 1 + 16142 15637 10354 10378 18467 18467 0.06991641827926287 LGRYPPFRFVD 11 Unmodified _LGRYPPFRFVD_ 0 0 0 REV__nc|ENSG00000100926|O15321-2|TM9SF1 REV__nc|ENSG00000100926|O15321-2|TM9SF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 683.8672485351562 2 683.866954 1365.71936 NaN NaN NaN NaN NaN NaN NaN 84.063 1 84.063 83.563 84.563 0 0 0 0 1.0072 1 42471 42471 1.3295 0 1 + 16143 17882 10355 10379 18468 18468 0.05112456588403802 LGSGRRAQQL 10 Unmodified _LGSGRRAQQL_ 0 0 0 REV__nc|ENSG00000158079|A2A3K4-2|PTPDC1 REV__nc|ENSG00000158079|A2A3K4-2|PTPDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.3135986328125 2 543.312346 1084.61014 NaN NaN NaN NaN NaN NaN NaN 95.301 1 95.301 94.801 95.801 0 0 0 0 0.99812 1 51283 51283 3.2813 0.97858 1 + 16144 17992 10356 10380 18469 18469 0.07121870688933996 LGSHWHPWMED 11 Unmodified _LGSHWHPWMED_ 0 0 0 ENST00000551743.5_1_14:105849507-105861006:+|nuORF ENST00000551743.5_1_14:105849507-105861006:+|nuORF ENST00000551743.5_1_14:105849507-105861006:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 698.197509765625 2 697.800954 1393.58736 NaN NaN NaN NaN NaN NaN NaN 80.399 1 80.567 80.067 81.067 0.16862 0 0 0 1.0034 1 39399 39399 6.2058 0.47393 1 16145 8884 10357 10381 18470 18470 -0.09369516490824026 LGSKLSKKKK 10 Unmodified _LGSKLSKKKK_ 0 0 0 ENSG00000136045|ENST00000412830|PWP1 ENSG00000136045|ENST00000412830|PWP1 ENSG00000136045|ENST00000412830|PWP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.4766845703125 2 558.876791 1115.73903 NaN NaN NaN NaN NaN NaN NaN 96.009 1 96.277 95.777 96.777 0.2675 0 0 0 1.0015 1 44114 44114 0.45834 0.10771 1 16146 2921 10358 10382 18471 18471 0.18578832599177986 LGSLLKRRPQG 11 Unmodified _LGSLLKRRPQG_ 0 0 0 ENSG00000111321|ENST00000228918|LTBR;nc|ENSG00000111321|P36941-2|LTBR ENSG00000111321|ENST00000228918|LTBR ENSG00000111321|ENST00000228918|LTBR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 612.8812255859375 2 612.880396 1223.74624 2.0625 0.0012641 -0.59043 -0.00036186 1.4721 0.00090222 612.8801041134799 99.945 0.12102 100.01 99.95 100.07 0.062241 16 8 3 0 0 0 0.91137 1 54129 54129 2.7352 0 1 20995000 16147 1755 10359 10383 18472 18472 0.14331565199586294 LGSLLQVDL 9 Unmodified _LGSLLQVDL_ 0 0 0 REV__ENST00000500728.2_1_4:3514388-3514475:-|nuORF REV__ENST00000500728.2_1_4:3514388-3514475:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.2853088378906 2 479.2844 956.554247 2.9601 0.0014187 -2.2567 -0.0010816 0.70338 0.00033712 479.2844275367912 53.825 0.23627 54.489 54.279 54.516 0.6644 20 12 2 0 0 0 0.33646 1 24588 24588 15.847 0 1 357890 + 16148 16879 10360 10384 18473 18473 0.0742322472875685 LGSLLQVDL 9 Unmodified _LGSLLQVDL_ 0 0 0 REV__ENST00000500728.2_1_4:3514388-3514475:-|nuORF REV__ENST00000500728.2_1_4:3514388-3514475:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 479.2844 956.554247 2.8749 0.0013779 -2.4074 -0.0011538 0.46749 0.00022406 479.28414299432205 54.347 0.21457 54.612 54.509 54.723 0.26462 0.061291 -6.9981E-05 NaN 15.847 11 9 2 NaN NaN NaN NaN 0 NaN NaN 0 345730 + 16149 16879 10360 10384 0.0742322472875685 LGSLLQVDL 9 Unmodified _LGSLLQVDL_ 0 0 0 REV__ENST00000500728.2_1_4:3514388-3514475:-|nuORF REV__ENST00000500728.2_1_4:3514388-3514475:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 479.2844 956.554247 2.9601 0.0014187 -2.2567 -0.0010816 0.70338 0.00033712 479.2844275367912 53.825 0.23627 54.489 54.279 54.516 0.6644 -0.061291 7.4476E-05 NaN 15.847 20 12 2 NaN NaN NaN NaN 0 NaN NaN 0 357890 + 16150 16879 10360 10384 0.0742322472875685 LGSRIEKL 8 Unmodified _LGSRIEKL_ 0 0 0 ENST00000561040.1_1_19:47920653-47921004:-|nuORF ENST00000561040.1_1_19:47920653-47921004:-|nuORF ENST00000561040.1_1_19:47920653-47921004:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.8683776855469 3 305.858915 914.554916 NaN NaN NaN NaN NaN NaN NaN 30.301 1 30.559 30.059 31.059 0.25804 0 0 0 0.69067 1 13791 13791 22.736 0 1 16151 8980 10361 10385 18474 18474 0.09422064168484212 LGSTSFSDSCH 11 Unmodified _LGSTSFSDSCH_ 0 0 0 REV__nc|ENSG00000121057|Q92667-2|AKAP1 REV__nc|ENSG00000121057|Q92667-2|AKAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.8155517578125 2 570.734945 1139.45534 NaN NaN NaN NaN NaN NaN NaN 87.883 1 87.883 87.383 88.383 0 0 0 0 1.0059 1 45457 45457 2.9952 0.26005 1 + 16152 11548 10362 10386 18475 18475 -0.1088116629846354 LGSVLGLTSL 10 Unmodified _LGSVLGLTSL_ 0 0 0 REV__ENSG00000146409|ENST00000275227|SLC18B1 REV__ENSG00000146409|ENST00000275227|SLC18B1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.7477722167969 2 480.292225 958.569897 3.304 0.0015869 0.026259 1.2612E-05 3.3303 0.0015995 480.29232243970824 41.105 0.19146 41.75 41.729 41.92 0.64451 17 10 2 0 0 0 0.11956 1 18843 18843 19.257 3.4098 1 1889600 + 16153 12474 10363 10387 18476 18476 0.08895511245816579 LGTGYYLTL 9 Unmodified _LGTGYYLTL_ 0 0 0 ENSG00000165029|ENST00000374736|ABCA1 ENSG00000165029|ENST00000374736|ABCA1 ENSG00000165029|ENST00000374736|ABCA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.77264404296875 2 500.771126 999.527698 NaN NaN NaN NaN NaN NaN NaN 30.759 1 31.548 31.048 32.048 0.78879 0 0 0 0.72654 1 13893 13893 11.64 2.2572 1 16154 4364 10364 10388 18477 18477 0.02791535837422998 LGTHVRQHIA 10 Unmodified _LGTHVRQHIA_ 0 0 0 REV__ENSG00000197483|ENST00000598519|ZNF628 REV__ENSG00000197483|ENST00000598519|ZNF628 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.3231201171875 2 566.322714 1130.63087 NaN NaN NaN NaN NaN NaN NaN 98.988 1 99.585 99.085 100.09 0.59748 0 0 0 0.99774 1 45725 45725 3.5965 0 1 + 16155 14282 10365 10389 18478 18478 0.07078461068635988 LGTKIFNKREI 11 Unmodified _LGTKIFNKREI_ 0 0 0 L1MC5a_dup6065|chr6:25834759-25835527:-|3.3305081510680705|0.0722535869421422|5.53|514.0|11|2|sense L1MC5a_dup6065|chr6:25834759-25835527:-|3.3305081510680705|0.0722535869421422|5.53|514.0|11|2|sense L1MC5a_dup6065|chr6:25834759-25835527:-|3.3305081510680705|0.0722535869421422|5.53|514.0|11|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 660.325439453125 2 659.895712 1317.77687 NaN NaN NaN NaN NaN NaN NaN 85.205 1 85.234 84.734 85.734 0.028603 0 0 0 1.0044 1 42620 42620 4.897 0.36815 1 16156 9441 10366 10390 18479 18479 0.13069298793993767 LGTRKAGVPK 10 Unmodified _LGTRKAGVPK_ 0 0 0 ENST00000553505.1_1_14:24044793-24046767:-|nuORF ENST00000553505.1_1_14:24044793-24046767:-|nuORF ENST00000553505.1_1_14:24044793-24046767:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.82666015625 2 513.824558 1025.63456 NaN NaN NaN NaN NaN NaN NaN 90.801 1 90.801 90.301 91.301 0 0 0 0 0.98317 1 47816 47816 8.1555 0.8663 1 16157 8898 10367 10391 18480 18480 0.12277130842471706 LGTRLRRRRRP 11 Unmodified _LGTRLRRRRRP_ 0 0 0 ENST00000295206.6_1_2:119600812-119604160:-|nuORF ENST00000295206.6_1_2:119600812-119604160:-|nuORF ENST00000295206.6_1_2:119600812-119604160:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 718.963623046875 2 718.960909 1435.90726 NaN NaN NaN NaN NaN NaN NaN 100.45 1 100.76 100.26 101.26 0.31094 0 0 0 1.0071 1 46467 46467 1.4819 0 1 16158 6756 10368 10392 18481 18481 0.20674752356171666 LGVLHFWDK 9 Unmodified _LGVLHFWDK_ 0 0 0 REV__ENSG00000100253|ENST00000216075|MIOX REV__ENSG00000100253|ENST00000216075|MIOX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.804443359375 2 557.805834 1113.59712 NaN NaN NaN NaN NaN NaN NaN 35.316 1 36.107 35.607 36.607 0.79131 0 0 0 0.90511 1 16005 16005 2.3027 0.4585 1 + 16159 10814 10369 10393 18482 18482 0.044860395768409944 LGVLRLLLFKL 11 Unmodified _LGVLRLLLFKL_ 0 0 0 nc|ENSG00000171611|Q6ISU1-2|PTCRA;nc|ENSG00000171611|Q6ISU1-3|PTCRA;ENSG00000171611|ENST00000304672|PTCRA nc|ENSG00000171611|Q6ISU1-2|PTCRA nc|ENSG00000171611|Q6ISU1-2|PTCRA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 642.9707641601562 2 642.941934 1283.86931 NaN NaN NaN NaN NaN NaN NaN 97.869 1 97.869 97.369 98.369 0 0 0 0 1.008 1 53425 53425 0.35063 0 1 16160 4820 10370 10394 18483 18483 0.23873428598153623 LGVNITSLFEL 11 Unmodified _LGVNITSLFEL_ 0 0 0 REV__ENST00000495420.5_1_15:69079601-69113141:-|nuORF REV__ENST00000495420.5_1_15:69079601-69113141:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 402.5657043457031 3 402.564056 1204.67034 2.6531 0.001068 1.1382 0.0004582 3.7913 0.0015263 402.564596583994 35.018 0.29888 35.809 35.661 35.96 0.7907 41 18 3 0 0 0 0.82535 1 15851 15851 2.6312 0 1 275850 + 16161 12241 10371 10395 18484 18484 0.07619123508811754 LGVRIPTV 8 Unmodified _LGVRIPTV_ 0 0 0 ENST00000487904.5_1_2:61408529-61412771:+|nuORF;nc|ENSG00000293434|Q719I0-3|AHSA2P;nc|ENSG00000293434|Q719I0-2|AHSA2P;nc|ENSG00000293434|Q719I0|AHSA2P ENST00000487904.5_1_2:61408529-61412771:+|nuORF ENST00000487904.5_1_2:61408529-61412771:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 427.7756652832031 2 427.776545 853.538538 NaN NaN NaN NaN NaN NaN NaN 63.122 1 63.372 62.872 63.872 0.24965 0 0 0 0.99035 1 28908 28908 4.756 0 1 16162 8357 10372 10396 18485 18485 0.10590983002362009 LGVRVLLRF 9 Unmodified _LGVRVLLRF_ 0 0 0 ENSG00000238227|ENST00000418388|TMEM250 ENSG00000238227|ENST00000418388|TMEM250 ENSG00000238227|ENST00000418388|TMEM250 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.8536376953125 2 536.853119 1071.69168 NaN NaN NaN NaN NaN NaN NaN 96.397 1 96.474 95.974 96.974 0.076538 0 0 0 0.91014 1 51217 51217 2.0598 1.535 1 16163 6207 10373 10397 18486 18486 0.158705981188632 LGVVARWL 8 Unmodified _LGVVARWL_ 0 0 0 ENSG00000145626|ENST00000274278|UGT3A1 ENSG00000145626|ENST00000274278|UGT3A1 ENSG00000145626|ENST00000274278|UGT3A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 305.1927795410156 3 305.192117 912.554522 1.9288 0.00058867 1.0854 0.00033125 3.0142 0.00091991 305.1923464036841 14.683 0.25332 14.683 14.617 14.87 0 42 26 2 0 0 0 0.71911 1 6489 6489 4.3292 2.485 1 129930 16164 3477 10374 10398 18487 18487 0.09474689239266354 LGVVARWL 8 Unmodified _LGVVARWL_ 0 0 0 ENSG00000145626|ENST00000274278|UGT3A1 ENSG00000145626|ENST00000274278|UGT3A1 ENSG00000145626|ENST00000274278|UGT3A1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 305.192117 912.554522 2.2301 0.00068062 0.65867 0.00020102 2.8888 0.00088164 305.1923853853545 13.761 0.14674 14.409 14.31 14.456 0.64819 -0.1371 -0.00032212 NaN 4.3292 16 11 2 NaN NaN NaN NaN 0 NaN NaN 0 350810 16165 3477 10374 10398 0.09474689239266354 LGWDCCWG 8 Unmodified _LGWDCCWG_ 0 0 0 ENST00000473610.5_1_7:150648470-150652738:-|nuORF;ENST00000461280.1_1_7:150646989-150652738:-|nuORF ENST00000473610.5_1_7:150648470-150652738:-|nuORF ENST00000473610.5_1_7:150648470-150652738:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.1782531738281 2 470.178023 938.341494 NaN NaN NaN NaN NaN NaN NaN 98.752 1 99.052 98.552 99.552 0.29987 0 0 0 0.99035 1 45531 45531 0.79363 0 1 16166 8081 10375 10399 18488 18488 -0.13014307874391307 LGWKNLNELE 10 Unmodified _LGWKNLNELE_ 0 0 0 REV__ENST00000586275.1_1_19:10563984-10570204:+|nuORF REV__ENST00000586275.1_1_19:10563984-10570204:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 405.88592529296875 3 405.883789 1214.62954 2.0639 0.00083772 1.234 0.00050088 3.298 0.0013386 405.8841465295639 72.959 0.47316 72.959 72.54 73.013 0 75 44 2 0 0 0 0.90196 1 35344 35344 1.7423 0.28716 1 2148100 + 16167 10437 10376 10400 18489 18489 0.030807821891812637 LGWLVTLRLSI 11 Unmodified _LGWLVTLRLSI_ 0 0 0 REV__ENSG00000158669|ENST00000396987|GPAT4 REV__ENSG00000158669|ENST00000396987|GPAT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 424.26806640625 3 424.267574 1269.78089 NaN NaN NaN NaN NaN NaN NaN 29.994 1 30.252 29.752 30.752 0.25804 0 0 0 0.94958 1 13650 13650 6.2344 0.36622 1 + 16168 12827 10377 10401 18490 18490 0.15679388287708207 LGWMRRSRRRR 11 Unmodified _LGWMRRSRRRR_ 0 0 0 ENST00000326786.4_1_1:157106130-157108182:-|nuORF ENST00000326786.4_1_1:157106130-157108182:-|nuORF ENST00000326786.4_1_1:157106130-157108182:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 765.373779296875 2 765.444569 1528.87458 NaN NaN NaN NaN NaN NaN NaN 97.014 1 97.014 96.514 97.514 0 0 0 0 1.008 1 52681 52681 0.35063 0 1 16169 6959 10378 10402 18491 18491 0.13130221961660027 LGWQLLKLPLD 11 Unmodified _LGWQLLKLPLD_ 0 0 0 MLT2F_dup248|chr2:154470402-154471004:+|1.511260670357291|0.0692278582541501|4.45|519.0|3|1|sense MLT2F_dup248|chr2:154470402-154471004:+|1.511260670357291|0.0692278582541501|4.45|519.0|3|1|sense MLT2F_dup248|chr2:154470402-154471004:+|1.511260670357291|0.0692278582541501|4.45|519.0|3|1|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.6995544433594 4 324.698504 1294.76491 2.3685 0.00076903 0.97435 0.00031637 3.3428 0.0010854 324.6987763561564 44.805 0.62757 45.455 44.913 45.541 0.64998 38 24 2 0 0 0 0.13295 1 20310 20310 0.36667 0.28332 1 849580 16170 9523 10379 10403 18492 18492 0.12931682050793825 LGWRRRLFRFG 11 Unmodified _LGWRRRLFRFG_ 0 0 0 REV__nc|ENSG00000136536|Q9H992-2|MARCHF7 REV__nc|ENSG00000136536|Q9H992-2|MARCHF7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 732.4270629882812 2 732.428379 1462.8422 NaN NaN NaN NaN NaN NaN NaN 90.538 1 91.211 90.711 91.711 0.67271 0 0 0 1.008 1 41670 41670 0.35063 0.043601 1 + 16171 12073 10380 10404 18493 18493 0.12929757830329436 LGWWEFFLILF 11 Unmodified _LGWWEFFLILF_ 0 0 0 ENST00000407008.7_1_17:26369336-26369447:+|nuORF ENST00000407008.7_1_17:26369336-26369447:+|nuORF ENST00000407008.7_1_17:26369336-26369447:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 735.99072265625 2 735.894649 1469.77475 NaN NaN NaN NaN NaN NaN NaN 97.795 1 97.865 97.365 98.365 0.070648 0 0 0 1.0071 1 52390 52390 1.4819 0.28856 1 16172 7648 10381 10405 18494 18494 0.0586487005618892 LGWWKRFTWR 10 Unmodified _LGWWKRFTWR_ 0 0 0 REV__ENST00000313401.3_1_17:30817050-30817605:+|nuORF REV__ENST00000313401.3_1_17:30817050-30817605:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 718.3939819335938 2 718.390931 1434.76731 NaN NaN NaN NaN NaN NaN NaN 82.623 1 82.669 82.169 83.169 0.045006 0 0 0 0.9952 1 40822 40822 5.7319 0.43497 1 + 16173 15278 10382 10406 18495 18495 0.06731575299090764 LGWWWFFSRK 10 Unmodified _LGWWWFFSRK_ 0 0 0 ENSG00000121057|ENST00000337714|AKAP1;nc|ENSG00000121057|Q92667-2|AKAP1 ENSG00000121057|ENST00000337714|AKAP1 ENSG00000121057|ENST00000337714|AKAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 706.4501342773438 2 706.866757 1411.71896 NaN NaN NaN NaN NaN NaN NaN 90.403 1 90.403 89.903 90.903 0 0 0 0 0.99983 1 47503 47503 1.8442 0.36234 1 16174 2222 10383 10407 18496 18496 0.029570816591785842 LGYCYWGSCCC 11 Unmodified _LGYCYWGSCCC_ 0 0 0 REV__ENSG00000144583|ENST00000273067|MARCHF4 REV__ENSG00000144583|ENST00000273067|MARCHF4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 629.3338623046875 2 629.213423 1256.41229 NaN NaN NaN NaN NaN NaN NaN 81.888 1 81.972 81.472 82.472 0.084106 0 0 0 1.0071 1 40332 40332 1.4819 0 1 + 16175 12407 10384 10408 18497 18497 -0.205657189433623 LGYKAKRF 8 Unmodified _LGYKAKRF_ 0 0 0 REV__ENST00000303115.7_1_5:35879366-35879588:+|nuORF REV__ENST00000303115.7_1_5:35879366-35879588:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.7947692871094 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 49.849 1 49.849 49.349 50.349 0 0 0 0 0.99035 1 22823 22823 5.7604 0.52976 1 + 16176 15207 10385 10409 18498 18498 0.08446074267988024 LGYLWLLAPWQ 11 Unmodified _LGYLWLLAPWQ_ 0 0 0 ENSG00000023839|ENST00000647814|ABCC2 ENSG00000023839|ENST00000647814|ABCC2 ENSG00000023839|ENST00000647814|ABCC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 680.3773193359375 2 680.376623 1358.73869 NaN NaN NaN NaN NaN NaN NaN 91.299 1 91.299 90.799 91.799 0 0 0 0 1.0055 1 48186 48186 3.5965 0 1 16177 472 10386 10410 18499 18499 0.07367412879307267 LGYMMCTAFRT 11 Unmodified _LGYMMCTAFRT_ 0 0 0 nc|ENSG00000087116|O95450-2|ADAMTS2;ENSG00000087116|ENST00000251582|ADAMTS2 nc|ENSG00000087116|O95450-2|ADAMTS2 nc|ENSG00000087116|O95450-2|ADAMTS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 647.7840576171875 2 647.293062 1292.57157 NaN NaN NaN NaN NaN NaN NaN 100.64 1 101.23 100.73 101.73 0.59717 0 0 0 1.0071 1 46589 46589 1.4819 0 1 16178 997 10387 10411 18500 18500 -0.06301262323768242 LGYRKVLSK 9 Unmodified _LGYRKVLSK_ 0 0 0 REV__ENST00000419190.1_1_1:201969236-201978969:-|nuORF REV__ENST00000419190.1_1_1:201969236-201978969:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 532.6461181640625 2 532.334759 1062.65496 NaN NaN NaN NaN NaN NaN NaN 91.847 1 91.93 91.43 92.43 0.082848 0 0 0 0.86044 1 47713 47713 7.2892 1.0834 1 + 16179 16156 10388 10412 18501 18501 0.1261430150225351 LGYRKYQPNI 10 Unmodified _LGYRKYQPNI_ 0 0 0 nc|ENSG00000156535|Q6YHK3-4|CD109;ENSG00000156535|ENST00000287097|CD109;nc|ENSG00000156535|Q6YHK3-2|CD109 nc|ENSG00000156535|Q6YHK3-4|CD109 nc|ENSG00000156535|Q6YHK3-4|CD109 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 626.34912109375 2 626.345855 1250.67716 NaN NaN NaN NaN NaN NaN NaN 93.173 1 93.173 92.673 93.673 0 0 0 0 0.99225 1 49705 49705 6.7232 0.51738 1 16180 3916 10389 10413 18502 18502 0.06184481180025614 LGYVLEKRDKE 11 Unmodified _LGYVLEKRDKE_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;TTN|p.R30215Vfs*13|1|0.21|ENSG00000155657|chr2:178545544-178545544|G/-|frameshift_variant;nc|ENSG00000155657|Q8WZ42-5|TTN;nc|ENSG00000155657|Q8WZ42-9|TTN;nc|ENSG00000155657|Q8WZ42-10|TTN;nc|ENSG00000155657|Q8WZ42-3|TTN ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 675.2679443359375 2 675.374809 1348.73507 NaN NaN NaN NaN NaN NaN NaN 108.07 1 108.07 107.57 108.57 0 0 0 0 1.0061 1 59230 59230 2.7352 1.2533 1 16181 3871 10390 10414 18503 18503 0.07464698314811358 LGYWYFRRTWC 11 Unmodified _LGYWYFRRTWC_ 0 0 0 ENSG00000274286|ENST00000620793|ADRA2B ENSG00000274286|ENST00000620793|ADRA2B ENSG00000274286|ENST00000620793|ADRA2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 775.8709716796875 2 775.871714 1549.72887 NaN NaN NaN NaN NaN NaN NaN 33.671 1 34.459 33.959 34.959 0.78795 0 0 0 1.008 1 15242 15242 0.35063 0 1 16182 6341 10391 10415 18504 18504 -0.02400098397720285 LHAIQAFA 8 Unmodified _LHAIQAFA_ 0 0 0 REV__ENSG00000127903|ENST00000537055|ZNF835 REV__ENSG00000127903|ENST00000537055|ZNF835 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.7459716796875 2 435.745245 869.475937 NaN NaN NaN NaN NaN NaN NaN 27.592 1 28.214 27.714 28.714 0.62179 0 0 0 0.99035 1 12650 12650 2.8892 0 1 + 16183 11748 10392 10416 18505 18505 0.03597836934170573 LHAKKIDAL 9 Unmodified _LHAKKIDAL_ 0 0 0 REV__nc|ENSG00000085224|P46100-2|ATRX REV__nc|ENSG00000085224|P46100-2|ATRX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.8790283203125 3 336.878198 1007.61277 2.2121 0.00074521 0.1631 5.4944E-05 2.3752 0.00080015 336.8783315671987 26.727 0.16321 27.348 27.281 27.444 0.62179 14 11 2 0 0 0 0.59921 1 12251 12251 10.8 0.64894 1 237420 + 16184 10641 10393 10417 18506 18506 0.10926326093886018 LHAKKIDAL 9 Unmodified _LHAKKIDAL_ 0 0 0 REV__nc|ENSG00000085224|P46100-2|ATRX REV__nc|ENSG00000085224|P46100-2|ATRX MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 336.878198 1007.61277 2.2121 0.00074521 0.1631 5.4944E-05 2.3752 0.00080015 336.8783315671987 26.727 0.16321 27.348 27.281 27.444 0.62179 -0.019657 -4.2688E-05 NaN 10.8 14 11 2 NaN NaN NaN NaN 0 NaN NaN 0 237420 + 16185 10641 10393 10417 0.10926326093886018 LHCCHGCC 8 Unmodified _LHCCHGCC_ 0 0 0 REV__ENST00000462054.6_2_X:53295593-53296058:-|nuORF REV__ENST00000462054.6_2_X:53295593-53296058:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 438.14520263671875 2 438.142603 874.270654 3.7162 0.0016282 1.5746 0.00068989 5.2908 0.0023181 438.1431775112095 102.07 0.1228 102.39 102.32 102.44 0.31737 8 3 3 0 0 0 0.7471 1 47228 47228 0 0 1 1348800 + 16186 16499 10394 10418 18507 18507 -0.1715104745520648 LHCCHGCC 8 Unmodified _LHCCHGCC_ 0 0 0 REV__ENST00000462054.6_2_X:53295593-53296058:-|nuORF REV__ENST00000462054.6_2_X:53295593-53296058:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 438.142603 874.270654 2.5472 0.001116 1.9584 0.00085808 4.5056 0.0019741 438.1436941746187 102.62 0.096016 102.62 102.57 102.66 0 0.079423 -0.00010627 NaN 0 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 376520 + 16187 16499 10394 10418 -0.1715104745520648 LHCCHGCC 8 Unmodified _LHCCHGCC_ 0 0 0 REV__ENST00000462054.6_2_X:53295593-53296058:-|nuORF REV__ENST00000462054.6_2_X:53295593-53296058:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 438.142603 874.270654 1.5135 0.00066311 2.9823 0.0013067 4.4958 0.0019698 438.14380548881854 102.56 0.081543 102.62 102.55 102.63 0.055092 0.073238 0.00079094 NaN 0 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 628430 + 16188 16499 10394 10418 -0.1715104745520648 LHCCHGCC 8 Unmodified _LHCCHGCC_ 0 0 0 REV__ENST00000462054.6_2_X:53295593-53296058:-|nuORF REV__ENST00000462054.6_2_X:53295593-53296058:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 438.142603 874.270654 3.7162 0.0016282 1.5746 0.00068989 5.2908 0.0023181 438.1431775112095 102.07 0.1228 102.39 102.32 102.44 0.31737 -0.15266 -0.00044264 NaN 0 8 3 3 NaN NaN NaN NaN 0 NaN NaN 0 1348800 + 16189 16499 10394 10418 -0.1715104745520648 LHCTRNFIH 9 Unmodified _LHCTRNFIH_ 0 0 0 nc|ENSG00000078549|P41586-5|ADCYAP1R1;nc|ENSG00000078549|P41586-3|ADCYAP1R1;ENSG00000078549|ENST00000304166|ADCYAP1R1;nc|ENSG00000078549|P41586-4|ADCYAP1R1;nc|ENSG00000078549|P41586-2|ADCYAP1R1;ADCYAP1R1|p.V383Wfs*18|1|0.33|ENSG00000078549|chr7:31103336-31103345|CGTGTTTGAG/-|frameshift_variant nc|ENSG00000078549|P41586-5|ADCYAP1R1 nc|ENSG00000078549|P41586-5|ADCYAP1R1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.7918701171875 2 570.790192 1139.56583 NaN NaN NaN NaN NaN NaN NaN 46.925 1 47.577 47.077 48.077 0.65219 0 0 0 0.52667 1 21490 21490 18.135 1.0221 1 16190 879 10395 10419 18508 18508 0.0016314327108375437 LHDARLLRTI 10 Unmodified _LHDARLLRTI_ 0 0 0 nc|ENSG00000119599|Q8WV16-4|DCAF4;nc|ENSG00000119599|Q8WV16-3|DCAF4;nc|ENSG00000119599|Q8WV16-5|DCAF4;ENSG00000119599|ENST00000358377|DCAF4 nc|ENSG00000119599|Q8WV16-4|DCAF4 nc|ENSG00000119599|Q8WV16-4|DCAF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 604.3682861328125 2 604.367121 1206.71969 2.1545 0.0013021 -0.14123 -8.5355E-05 2.0133 0.0012167 604.3668072835227 99.942 0.10933 100 99.961 100.07 0.062248 19 7 4 0 0 0 0.93584 1 54127 54127 1.4819 0 1 21893000 16191 2152 10396 10420 18509 18509 0.12459876308275852 LHDETLHHML 10 Unmodified _LHDETLHHML_ 0 0 0 REV__nc|ENSG00000116604|Q14814-3|MEF2D REV__nc|ENSG00000116604|Q14814-3|MEF2D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 416.20904541015625 3 415.873007 1244.59719 3.0968 0.0012879 0.15919 6.6203E-05 3.256 0.0013541 415.8729594348504 13.354 0.16601 13.997 13.943 14.109 0.64272 20 12 2 0 0 0 0.90216 1 5997 5997 3.5871 0.85186 1 350440 + 16192 11409 10397 10421 18510 18510 -0.015323284854730446 LHDLTEYEQ 9 Unmodified _LHDLTEYEQ_ 0 0 0 REV__ENSG00000163939|ENST00000707071|PBRM1;REV__PBRM1|p.M1038Sfs*121|1|0.03|ENSG00000163939|chr3:52587363-52587363|A/-|frameshift_variant REV__PBRM1|p.M1038Sfs*121|1|0.03|ENSG00000163939|chr3:52587363-52587363|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 383.5160827636719 3 383.180383 1146.51932 1.8554 0.00071097 0.36849 0.0001412 2.2239 0.00085217 383.51489273899216 66.954 0.13448 67.659 67.586 67.721 0.7047 20 16 2 0 0 0 0.95612 1 31779 31779 2.7352 0 1 965820 + 16193 13042;18197 10398 10422 18511 18511 -0.04808062869847163 LHDLTEYEQ 9 Unmodified _LHDLTEYEQ_ 0 0 0 REV__ENSG00000163939|ENST00000707071|PBRM1;REV__PBRM1|p.M1038Sfs*121|1|0.03|ENSG00000163939|chr3:52587363-52587363|A/-|frameshift_variant REV__PBRM1|p.M1038Sfs*121|1|0.03|ENSG00000163939|chr3:52587363-52587363|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 383.181884765625 3 383.180383 1146.51932 3.0718 0.001177 0.065288 2.5017E-05 3.1371 0.0012021 383.1806530491359 67.659 0.3872 67.911 67.73 68.117 0.25227 73 20 5 0 0 0 0.95612 1 31054 31054 2.7352 0 1 7385100 + 16194 13042;18197 10398 10422 18512 18512 -0.04808062869847163 LHDQFWSYW 9 Unmodified _LHDQFWSYW_ 0 0 0 ENST00000566677.1_1_15:37001404-37100651:+|nuORF;nc|ENSG00000186073|Q9Y2V0-2|CDIN1;ENSG00000186073|ENST00000566621|CDIN1;ENST00000570265.5_1_15:36871929-37039277:+|nuORF ENST00000566677.1_1_15:37001404-37100651:+|nuORF ENST00000566677.1_1_15:37001404-37100651:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.285400390625 2 641.288005 1280.56146 NaN NaN NaN NaN NaN NaN NaN 50.642 1 51.459 50.959 51.959 0.81738 0 0 0 0.90699 1 23066 23066 1.8442 0.19162 1 16195 5553 10399 10423 18513 18513 -0.06760042670794064 LHDRTTKSL 9 Unmodified _LHDRTTKSL_ 0 0 0 nc|ENSG00000099331|Q13459-2|MYO9B;ENSG00000099331|ENST00000682292|MYO9B nc|ENSG00000099331|Q13459-2|MYO9B nc|ENSG00000099331|Q13459-2|MYO9B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.802490234375 2 535.80128 1069.58801 3.374 0.0018078 -0.37439 -0.0002006 2.9996 0.0016072 535.8010579802362 48.531 0.35356 49.187 48.988 49.342 0.65524 21 13 2 0 0 0 0.27958 1 22189 22189 18.146 0 1 969660 16196 1139 10400 10424 18514 18514 0.055996462205030184 LHEADNENCS 10 Unmodified _LHEADNENCS_ 0 0 0 REV__ENSG00000106689|ENST00000373615|LHX2 REV__ENSG00000106689|ENST00000373615|LHX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.2252197265625 2 566.222202 1130.42985 NaN NaN NaN NaN NaN NaN NaN 72.432 1 73.136 72.636 73.636 0.70386 0 0 0 0.99464 1 34866 34866 6.2058 1.4498 1 + 16197 11094 10401 10425 18515 18515 -0.13014640820870227 LHELITMNRRV 11 Unmodified _LHELITMNRRV_ 0 0 0 ENSG00000181958|ENST00000641526|OR4A15;nc|ENSG00000181958|Q8NGL6|OR4A15 ENSG00000181958|ENST00000641526|OR4A15 ENSG00000181958|ENST00000641526|OR4A15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 691.3389892578125 2 691.390271 1380.76599 NaN NaN NaN NaN NaN NaN NaN 93.194 1 93.28 92.78 93.78 0.086212 0 0 0 1.0034 1 48761 48761 6.1918 0.46 1 16198 5306 10402 10426 18516 18516 0.09083573148041069 LHFAKLCL 8 Unmodified _LHFAKLCL_ 0 0 0 REV__ENSG00000163012|ENST00000295131|ZSWIM2 REV__ENSG00000163012|ENST00000295131|ZSWIM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 315.5281982421875 3 315.517724 943.531344 NaN NaN NaN NaN NaN NaN NaN 14.968 1 14.968 14.468 15.468 0 0 0 0 0.91812 1 6606 6606 7.9102 0.62092 1 + 16199 12972 10403 10427 18517 18517 0.05731927130295844 LHFFLQPLRLR 11 Unmodified _LHFFLQPLRLR_ 0 0 0 REV__ENST00000557552.1_1_14:105239464-105240028:-|nuORF REV__ENST00000557552.1_1_14:105239464-105240028:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.3885498046875 3 480.625984 1438.85612 3.8982 0.0018736 0.55165 0.00026514 4.4498 0.0021387 480.6261195673944 109.73 1.179 110.04 109.12 110.3 0.31015 82 46 2 0 0 0 0.91459 1 50282 50282 0.094841 0.011491 1 213190 + 16200 17335 10404 10428 18518 18518 0.15424990538781458 LHFFRPRPVYR 11 Unmodified _LHFFRPRPVYR_ 0 0 0 REV__ENST00000354336.7_1_22:21271864-21272434:+|nuORF REV__ENST00000354336.7_1_22:21271864-21272434:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.61920166015625 3 496.6176 1486.83097 NaN NaN NaN NaN NaN NaN NaN 95.308 1 95.308 94.808 95.808 0 0 0 0 1.0064 1 51288 51288 2.4348 0.35082 1 + 16201 15531 10405 10429 18519 18519 0.10702935736230756 LHFKIQILLM 10 Unmodified _LHFKIQILLM_ 0 0 0 ENST00000467956.1_1_3:33731266-33759494:-|nuORF ENST00000467956.1_1_3:33731266-33759494:-|nuORF ENST00000467956.1_1_3:33731266-33759494:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 628.3859252929688 2 628.383394 1254.75224 3.9708 0.0024952 -0.63718 -0.00040039 3.3336 0.0020948 628.3830225556386 89.208 0.46672 89.886 89.565 90.031 0.67818 34 19 2 0 0 0 0.93534 1 41124 41124 1.8442 0 1 805570 16202 8151 10406 10430 18520 18520 0.1350494738692305 LHFLKVKKVLH 11 Unmodified _LHFLKVKKVLH_ 0 0 0 REV__ENST00000476142.1_1_3:56651192-56651654:+|nuORF REV__ENST00000476142.1_1_3:56651192-56651654:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 454.8000183105469 3 454.630847 1360.87071 NaN NaN NaN NaN NaN NaN NaN 72.549 1 73.213 72.713 73.713 0.66398 0 0 0 1.0059 1 33285 33285 1.2148 0 1 + 16203 16649 10407 10431 18521 18521 0.20471062686942787 LHFLLLHRYFF 11 Unmodified _LHFLLLHRYFF_ 0 0 0 Tigger1_dup9926|chr14:33917986-33920131:+|2.144223155159988|0.1272725466014813|4.07|536.0|45|3|sense Tigger1_dup9926|chr14:33917986-33920131:+|2.144223155159988|0.1272725466014813|4.07|536.0|45|3|sense Tigger1_dup9926|chr14:33917986-33920131:+|2.144223155159988|0.1272725466014813|4.07|536.0|45|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.62030029296875 3 502.618718 1504.83433 NaN NaN NaN NaN NaN NaN NaN 72.009 1 72.009 71.509 72.509 0 0 0 0 1.0071 1 35011 35011 0.50596 0.051438 1 16204 18272 10408 10432 18522 18522 0.10210185790219839 LHFRQLGRQR 10 Unmodified _LHFRQLGRQR_ 0 0 0 ENSG00000129347|ENST00000312962|KRI1;ENST00000536689.5_1_19:10664629-10668377:-|nuORF;ENST00000537363.5_1_19:10664629-10670250:-|nuORF ENSG00000129347|ENST00000312962|KRI1 ENSG00000129347|ENST00000312962|KRI1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.20013427734375 4 328.444269 1309.74797 2.1688 0.00071234 0.89377 0.00029355 3.0626 0.0010059 328.4446021101374 43.86 0.04493 43.86 43.838 43.883 0 4 2 2 0 0 0 0.12676 1 20017 20017 0.69767 0 1 377100 16205 2547 10409 10433 18523 18523 0.10548619008227433 LHGSENIYGG 10 Unmodified _LHGSENIYGG_ 0 0 0 REV__ENST00000472697.5_1_3:142095319-142144369:-|nuORF REV__ENST00000472697.5_1_3:142095319-142144369:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.7493286132812 2 523.748713 1045.48287 NaN NaN NaN NaN NaN NaN NaN 86.607 1 86.607 86.107 87.107 0 0 0 0 0.96627 1 44441 44441 10.824 1.4408 1 + 16206 11318 10410 10434 18524 18524 -0.038048949759058814 LHHKKKLKKKK 11 Unmodified _LHHKKKLKKKK_ 0 0 0 AluSg7_dup2598|chr5:139545417-139545723:-|2.684175430780134|0.1210314063817212|4.47|526.0|4|1|sense AluSg7_dup2598|chr5:139545417-139545723:-|2.684175430780134|0.1210314063817212|4.47|526.0|4|1|sense AluSg7_dup2598|chr5:139545417-139545723:-|2.684175430780134|0.1210314063817212|4.47|526.0|4|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 708.4087524414062 2 708.487905 1414.96126 NaN NaN NaN NaN NaN NaN NaN 109.65 1 109.96 109.46 110.46 0.31015 0 0 0 1.0082 1 50544 50544 0 0 1 16207 37 10411 10435 18525 18525 0.2703753173518635 LHHLPSIK 8 Unmodified _LHHLPSIK_ 0 0 0 REV__nc|ENSG00000129204|P35125-3|USP6 REV__nc|ENSG00000129204|P35125-3|USP6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 315.5280456542969 3 315.527388 943.560336 2.2751 0.00071786 0.0091571 2.8893E-06 2.2843 0.00072075 315.52737407346297 14.663 0.30897 14.889 14.702 15.011 0.22622 56 21 4 0 0 0 0.65723 1 6387 6387 6.7232 2.3939 1 1454900 + 16208 17929 10412 10436 18526 18526 0.08629787750942342 LHHPARPV 8 Unmodified _LHHPARPV_ 0 0 0 REV__ENST00000344575.4_1_7:72848585-72849218:+|nuORF REV__ENST00000344575.4_1_7:72848585-72849218:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.76910400390625 2 463.769586 925.524619 2.8323 0.0013135 -1.2074 -0.00055995 1.6249 0.00075358 463.7688638274573 25.36 0.26377 25.628 25.508 25.772 0.26777 43 24 2 0 0 0 0.69414 1 11567 11567 6.3541 0 1 756010 + 16209 15496 10413 10437 18527 18527 0.05887750293936733 LHHVGVGI 8 Unmodified _LHHVGVGI_ 0 0 0 REV__ENST00000369425.5_1_10:113914335-113914473:-|nuORF REV__ENST00000369425.5_1_10:113914335-113914473:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 416.24676513671875 2 416.245412 830.476272 2.7792 0.0011568 0.28585 0.00011898 3.0651 0.0012758 416.2454954238314 15.146 0.5913 15.146 14.902 15.494 0 96 68 2 0 0 0 0.73686 1 6779 6779 2.8892 0 1 87037 + 16210 15705 10414 10438 18528 18528 0.05425256654052646 LHHVKPLL 8 Unmodified _LHHVKPLL_ 0 0 0 REV__ENST00000562914.1_1_16:56966069-56969248:+|nuORF REV__ENST00000562914.1_1_16:56966069-56969248:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 319.5409240722656 3 319.539517 955.596721 2.5101 0.00080207 1.5447 0.0004936 4.0548 0.0012957 319.5400274780003 32.804 0.27514 33.058 32.869 33.144 0.25389 22 12 3 0 0 0 0.7471 1 14945 14945 0.45834 0 1 293750 + 16211 17386 10415 10439 18529 18529 0.11714664647661266 LHHVKPLL 8 Unmodified _LHHVKPLL_ 0 0 0 REV__ENST00000562914.1_1_16:56966069-56969248:+|nuORF REV__ENST00000562914.1_1_16:56966069-56969248:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 319.539517 955.596721 2.0948 0.00066938 1.9149 0.00061187 4.0097 0.0012812 319.5402253589564 32.164 0.26029 32.782 32.668 32.928 0.61831 -0.13799 0.00016015 NaN 0.45834 30 14 3 NaN NaN NaN NaN 0 NaN NaN 0 252730 + 16212 17386 10415 10439 0.11714664647661266 LHIIVFLV 8 Unmodified _LHIIVFLV_ 0 0 0 ENST00000586659.5_1_19:11275740-11275920:-|nuORF ENST00000586659.5_1_19:11275740-11275920:-|nuORF ENST00000586659.5_1_19:11275740-11275920:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.31292724609375 2 477.312764 952.610974 NaN NaN NaN NaN NaN NaN NaN 80.833 1 81.002 80.502 81.502 0.16862 0 0 0 0.99035 1 39644 39644 0.79363 0 1 16213 9189 10416 10440 18530 18530 0.13277317075949213 LHILHQLRG 9 Unmodified _LHILHQLRG_ 0 0 0 REV__ENST00000416512.1_1_1:32829194-32829446:-|nuORF REV__ENST00000416512.1_1_1:32829194-32829446:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.8950805664062 2 543.830175 1085.6458 NaN NaN NaN NaN NaN NaN NaN 58.607 1 59.366 58.866 59.866 0.75894 0 0 0 0.89509 1 26887 26887 4.756 0.42677 1 + 16214 16132 10417 10441 18531 18531 0.10639952936594455 LHIRRPRK 8 Unmodified _LHIRRPRK_ 0 0 0 REV__nc|ENSG00000105289|O95049-5|TJP3 REV__nc|ENSG00000105289|O95049-5|TJP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.3175048828125 2 538.351609 1074.68866 NaN NaN NaN NaN NaN NaN NaN 72.258 1 72.962 72.462 73.462 0.70386 0 0 0 0.99035 1 34773 34773 0.79363 0.10326 1 + 16215 11024 10418 10442 18532 18532 0.15430767784687305 LHKFLLVRA 9 Unmodified _LHKFLLVRA_ 0 0 0 REV__chr6:166952548-166954706|120|55.59|0.0|22.41|-|1|RNASET2,None|1 REV__chr6:166952548-166954706|120|55.59|0.0|22.41|-|1|RNASET2,None|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.2391662597656 3 366.237838 1095.69168 2.7703 0.0010146 1.1659 0.000427 3.9363 0.0014416 366.2381490108304 40.094 0.59635 40.361 40.135 40.731 0.26696 51 22 3 0 0 0 0.98958 1 18387 18387 4.1895 1.4543 1 3307800 + 16216 10051 10419 10443 18533 18533 0.14766598118853835 LHKIFHLW 8 Unmodified _LHKIFHLW_ 0 0 0 ENST00000510927.5_1_4:106967729-107168455:-|nuORF;nc|ENSG00000145348|Q8TEA7-3|TBCK;nc|ENSG00000145348|Q8TEA7-2|TBCK;ENSG00000145348|ENST00000394708|TBCK ENST00000510927.5_1_4:106967729-107168455:-|nuORF ENST00000510927.5_1_4:106967729-107168455:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.3228149414062 2 547.318912 1092.62327 4.3951 0.0024055 0.64739 0.00035433 5.0424 0.0027598 547.3193152088722 97.68 0.17004 97.969 97.882 98.052 0.28923 25 11 3 0 0 0 0.74071 1 44885 44885 2.5775 0 1 1716400 16217 3461 10420 10444 18534 18534 0.08066353538993098 LHKKILEL 8 Unmodified _LHKKILEL_ 0 0 0 nc|ENSG00000126467|Q9UJT2-2|TSKS;ENSG00000126467|ENST00000246801|TSKS REV__ENST00000464072.1_1_2:191843483-191848388:-|nuORF REV__ENST00000464072.1_1_2:191843483-191848388:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.8875427246094 3 331.886694 992.638252 2.3973 0.00079565 -0.27602 -9.1608E-05 2.1213 0.00070404 331.88664632451554 26.749 0.17849 26.749 26.652 26.831 0 26 10 3 0 0 0 0.52517 1 12043 12043 20.454 0 1 711910 + 16218 11363 10421 10445 18535 18535 0.14163800616313438 LHKKILEL 8 Unmodified _LHKKILEL_ 0 0 0 nc|ENSG00000126467|Q9UJT2-2|TSKS;ENSG00000126467|ENST00000246801|TSKS REV__ENST00000464072.1_1_2:191843483-191848388:-|nuORF REV__ENST00000464072.1_1_2:191843483-191848388:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.8877258300781 3 331.886694 992.638252 2.1855 0.00072535 0.51649 0.00017142 2.702 0.00089676 331.8868795485883 25.763 0.25102 26.527 26.382 26.633 0.76356 33 14 3 0 0 0 0.42655 1 11545 11545 20.454 6.5476 1 597500 + 16219 11363 10421 10445 18536 18536 0.14163800616313438 LHKKILEL 8 Unmodified _LHKKILEL_ 0 0 0 nc|ENSG00000126467|Q9UJT2-2|TSKS;ENSG00000126467|ENST00000246801|TSKS REV__ENST00000464072.1_1_2:191843483-191848388:-|nuORF REV__ENST00000464072.1_1_2:191843483-191848388:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.8872985839844 3 331.886694 992.638252 2.434 0.00080781 0.040721 1.3515E-05 2.4747 0.00082132 331.88669476015 26.334 0.40004 26.599 26.426 26.826 0.26489 96 31 4 0 0 0 0.52517 1 11914 11914 14.838 4.0143 1 5570400 + 16220 11363 10421 10445 18537 18537 0.14163800616313438 LHKKKKRLAK 10 Unmodified _LHKKKKRLAK_ 0 0 0 nc|ENSG00000152953|Q9NY57-2|STK32B;ENSG00000152953|ENST00000282908|STK32B;nc|ENSG00000169302|Q8WU08-3|STK32A;ENST00000306304.10_1_5:146619197-146754823:+|nuORF;nc|ENSG00000165752|Q86UX6-2|STK32C;ENSG00000169302|ENST00000397936|STK32A;ENSG00000165752|ENST00000298630|STK32C nc|ENSG00000152953|Q9NY57-2|STK32B nc|ENSG00000152953|Q9NY57-2|STK32B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 625.4343872070312 2 625.432599 1248.85064 4.5227 0.0028286 -1.5248 -0.00095369 2.9979 0.001875 625.4314369735857 105.39 0.12146 105.71 105.63 105.75 0.31781 10 5 3 0 0 0 0.94217 1 48650 48650 0.45834 0.45834 1 2127600 16221 3766 10422 10446 18538 18538 0.2361731174698889 LHKLITQV 8 Unmodified _LHKLITQV_ 0 0 0 REV__RALGAPB|p.S399Nfs*14|1|0.04|ENSG00000170471|chr20:38517649-38517650|-/ATGAAATTATTCTTCATAGGTCAAAATATAT|frameshift_variant;REV__RALGAPB|p.A220Hfs*53|1|0.05|ENSG00000170471|chr20:38499550-38499551|-/CATCTTTG|frameshift_variant REV__RALGAPB|p.A220Hfs*53|1|0.05|ENSG00000170471|chr20:38499550-38499551|-/CATCTTTG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 317.8716125488281 3 317.871044 950.591301 NaN NaN NaN NaN NaN NaN NaN 41.598 1 42.242 41.742 42.742 0.64451 0 0 0 0.99035 1 19029 19029 3.5965 0 1 + 16222 18203;13438 10423 10447 18539 18539 0.11402941065193772 LHKQLLHQ 8 Unmodified _LHKQLLHQ_ 0 0 0 REV__nc|ENSG00000073282|Q9H3D4-6|TP63 REV__nc|ENSG00000073282|Q9H3D4-6|TP63 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.80511474609375 2 508.803626 1015.5927 3.1907 0.0016234 0.71055 0.00036153 3.9013 0.001985 508.8038752264305 33.206 0.35526 33.826 33.666 34.021 0.62031 29 19 2 0 0 0 0.74071 1 15209 15209 2.5775 0 1 125350 + 16223 17869 10424 10448 18540 18540 0.08552575153953512 LHKRRRLLQLY 11 Unmodified _LHKRRRLLQLY_ 0 0 0 REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 748.470703125 2 748.470244 1494.92593 NaN NaN NaN NaN NaN NaN NaN 34.67 1 35.293 34.793 35.793 0.62294 0 0 0 1.0082 1 15881 15881 0 0 1 + 16224 17140 10425 10449 18541 18541 0.19826869207417985 LHKRSGLL 8 Unmodified _LHKRSGLL_ 0 0 0 REV__ENST00000559051.1_1_15:65411613-65412071:-|nuORF REV__ENST00000559051.1_1_15:65411613-65412071:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 462.29351806640625 2 462.292894 922.571235 NaN NaN NaN NaN NaN NaN NaN 43.69 1 43.69 43.19 44.19 0 0 0 0 0.79116 1 19924 19924 19.439 0 1 + 16225 17352 10426 10450 18542 18542 0.10685190125252575 LHLALRRA 8 Unmodified _LHLALRRA_ 0 0 0 nc|ENSG00000187642|Q5SV97-3|PERM1;ENSG00000187642|ENST00000433179|PERM1 nc|ENSG00000187642|Q5SV97-3|PERM1 nc|ENSG00000187642|Q5SV97-3|PERM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.27880859375 2 475.306336 948.598118 NaN NaN NaN NaN NaN NaN NaN 61.845 1 62.097 61.597 62.597 0.25245 0 0 0 0.99035 1 28316 28316 2.5775 0 1 16226 5627 10427 10451 18543 18543 0.12176298736426361 LHLDPMKF 8 Unmodified _LHLDPMKF_ 0 0 0 REV__ENSG00000124942|ENST00000378024|AHNAK REV__ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.1817626953125 3 334.181001 999.521173 2.3448 0.0007836 0.061652 2.0603E-05 2.4065 0.0008042 334.18104949799056 50.42 0.74634 50.681 50.162 50.909 0.26146 109 32 4 0 0 0 0.64692 1 22982 22982 7.2892 1.5574 1 10782000 + 16227 11669 10428 10452 18544 18544 0.02139319405068818 LHLDPMKF 8 Unmodified _LHLDPMKF_ 0 0 0 REV__ENSG00000124942|ENST00000378024|AHNAK REV__ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.1817932128906 3 334.181001 999.521173 2.3111 0.00077233 0.3372 0.00011269 2.6483 0.00088501 334.18114523047956 49.734 0.68996 50.392 49.952 50.642 0.65735 86 26 4 0 0 0 0.64692 1 22807 22807 7.2892 1.5574 1 10861000 + 16228 11669 10428 10452 18545 18545 0.02139319405068818 LHLEETDE 8 Unmodified _LHLEETDE_ 0 0 0 nc|ENSG00000146350|Q96NH3-5|TBC1D32;ENSG00000146350|ENST00000398212|TBC1D32;nc|ENSG00000146350|Q96NH3-4|TBC1D32 nc|ENSG00000146350|Q96NH3-5|TBC1D32 nc|ENSG00000146350|Q96NH3-5|TBC1D32 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.22747802734375 2 493.227279 984.440005 NaN NaN NaN NaN NaN NaN NaN 65.806 1 66.515 66.015 67.015 0.70891 0 0 0 0.84715 1 31149 31149 15.768 2.2603 1 16229 3511 10429 10453 18546 18546 -0.05283709824004745 LHLGALKQH 9 Unmodified _LHLGALKQH_ 0 0 0 REV__nc|ENSG00000162430|Q9NZV5-2|SELENON REV__nc|ENSG00000162430|Q9NZV5-2|SELENON MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.8050537109375 2 508.803626 1015.5927 3.3256 0.0016921 0.033522 1.7056E-05 3.3591 0.0017091 508.8034195246969 33.719 0.34651 33.973 33.829 34.175 0.25389 27 21 2 0 0 0 0.95612 1 15343 15343 4.756 0 1 229150 + 16230 12935 10430 10454 18547 18547 0.08552575153942144 LHLHARQLIL 10 Unmodified _LHLHARQLIL_ 0 0 0 ENST00000530903.1_1_11:126073315-126075741:-|nuORF;nc|ENSG00000165526|Q96CM3-2|RPUSD4;ENSG00000165526|ENST00000298317|RPUSD4 ENST00000530903.1_1_11:126073315-126075741:-|nuORF ENST00000530903.1_1_11:126073315-126075741:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.26531982421875 3 405.25578 1212.74551 NaN NaN NaN NaN NaN NaN NaN 68.683 1 68.936 68.436 69.436 0.25227 0 0 0 0.99976 1 31464 31464 1.9064 0 1 16231 4407 10431 10455 18548 18548 0.14764770550573303 LHLHQSFATEC 11 Unmodified _LHLHQSFATEC_ 0 0 0 REV__ENSG00000188321|ENST00000603380|ZNF559 REV__ENSG00000188321|ENST00000603380|ZNF559 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 643.304443359375 2 643.303329 1284.59211 NaN NaN NaN NaN NaN NaN NaN 43.747 1 44.017 43.517 44.517 0.2694 0 0 0 0.98464 1 19981 19981 8.1555 0 1 + 16232 14142 10432 10456 18549 18549 -0.0388063234809124 LHLHVGGG 8 Unmodified _LHLHVGGG_ 0 0 0 REV__ENST00000334348.7_2_7:76139746-76139872:+|nuORF REV__ENST00000334348.7_2_7:76139746-76139872:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.2240905761719 2 395.221937 788.429321 NaN NaN NaN NaN NaN NaN NaN 33.83 1 34.45 33.95 34.95 0.62031 0 0 0 0.99035 1 15501 15501 2.8892 0 1 + 16233 15404 10433 10457 18550 18550 0.02664397102910243 LHLIFRLLGP 10 Unmodified _LHLIFRLLGP_ 0 0 0 chr1:205529096-205529295|163|61.21|0.31|7.62|+|2|CDK18,None|1 chr1:205529096-205529295|163|61.21|0.31|7.62|+|2|CDK18,None|1 chr1:205529096-205529295|163|61.21|0.31|7.62|+|2|CDK18,None|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.9210510253906 3 393.585126 1177.73355 3.2016 0.0012601 1.1276 0.00044383 4.3292 0.0017039 393.5856301813946 41.643 0.35756 41.914 41.716 42.074 0.27021 34 16 3 0 0 0 0.93584 1 18966 18966 1.7423 0.78 1 804230 16234 123 10434 10458 18551 18551 0.15179153807366674 LHLKKCQI 8 Unmodified _LHLKKCQI_ 0 0 0 REV__ENST00000524856.1_1_11:65374036-65375591:-|nuORF REV__ENST00000524856.1_1_11:65374036-65375591:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7974548339844 2 491.796955 981.579357 3.0568 0.0015033 -1.5068 -0.00074102 1.55 0.00076231 491.7960094863357 43.665 0.29943 43.935 43.759 44.058 0.2694 26 11 3 0 0 0 0.70146 1 19930 19930 5.7604 0 1 5469200 + 16235 17080 10435 10459 18552 18552 0.08783001050335315 LHLKKCQI 8 Unmodified _LHLKKCQI_ 0 0 0 REV__ENST00000524856.1_1_11:65374036-65375591:-|nuORF REV__ENST00000524856.1_1_11:65374036-65375591:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 491.796955 981.579357 3.3473 0.0016462 -1.8957 -0.00093231 1.4516 0.00071387 491.795877775151 43.115 0.32719 43.763 43.66 43.987 0.64872 -0.085725 -0.0001808 NaN 5.7604 43 18 3 NaN NaN NaN NaN 0 NaN NaN 0 3285400 + 16236 17080 10435 10459 0.08783001050335315 LHLLIYTL 8 Unmodified _LHLLIYTL_ 0 0 0 REV__ENSG00000119906|ENST00000238961|SLF2 REV__ENSG00000119906|ENST00000238961|SLF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 329.22235107421875 3 329.207544 984.600803 NaN NaN NaN NaN NaN NaN NaN 12.746 1 13.388 12.888 13.888 0.64272 0 0 0 0.99035 1 5722 5722 1.8442 0 1 + 16237 11518 10436 10460 18553 18553 0.10788709350720183 LHLLKRLS 8 Unmodified _LHLLKRLS_ 0 0 0 REV__ENSG00000008086|ENST00000623535|CDKL5 REV__ENSG00000008086|ENST00000623535|CDKL5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 327.21923828125 3 327.218555 978.633835 NaN NaN NaN NaN NaN NaN NaN 21.135 1 21.422 20.922 21.922 0.28662 0 0 0 0.12463 1 9582 9582 56.177 8.4284 1 + 16238 10204 10437 10461 18554 18554 0.14366336193427287 LHLLSGKRTQV 11 Unmodified _LHLLSGKRTQV_ 0 0 0 REV__nc|ENSG00000172046|O94966|USP19 REV__nc|ENSG00000172046|O94966|USP19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 417.9230651855469 3 417.922578 1250.7459 2.4262 0.001014 -1.9463 -0.0008134 0.47993 0.00020057 417.92178865569 100.43 0.082108 100.43 100.4 100.48 0 11 6 2 0 0 0 0.88721 1 55419 55419 1.2148 0 1 14075000 + 16239 18049 10438 10462 18555 18555 0.13056145479754377 LHLPIRNTR 9 Unmodified _LHLPIRNTR_ 0 0 0 ENST00000278070.6_1_10:103901398-103901503:+|nuORF ENST00000278070.6_1_10:103901398-103901503:+|nuORF ENST00000278070.6_1_10:103901398-103901503:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.3419189453125 2 560.340907 1118.66726 3.0818 0.0017268 -1.0619 -0.00059504 2.0198 0.0011318 560.3402087512787 98.589 0.1087 98.589 98.529 98.638 0 14 7 3 0 0 0 0.89849 1 54003 54003 5.7319 1.4026 1 25154000 16240 6681 10439 10463 18556 18556 0.11267337965296065 LHLSHLLH 8 Unmodified _LHLSHLLH_ 0 0 0 nc|ENSG00000180259|Q86SH4|PRNT nc|ENSG00000180259|Q86SH4|PRNT nc|ENSG00000180259|Q86SH4|PRNT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.28814697265625 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 61.489 1 61.741 61.241 62.241 0.25245 0 0 0 0.99035 1 28159 28159 6.3541 0 1 16241 9768 10440 10464 18557 18557 0.07004903608185487 LHLSHLLH 8 Unmodified _LHLSHLLH_ 0 0 0 nc|ENSG00000180259|Q86SH4|PRNT nc|ENSG00000180259|Q86SH4|PRNT nc|ENSG00000180259|Q86SH4|PRNT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2872314453125 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 61.621 1 61.874 61.374 62.374 0.25245 0 0 0 0.99035 1 28219 28219 6.3541 0 1 16242 9768 10440 10464 18558 18558 0.07004903608185487 LHLSHLLH 8 Unmodified _LHLSHLLH_ 0 0 0 nc|ENSG00000180259|Q86SH4|PRNT nc|ENSG00000180259|Q86SH4|PRNT nc|ENSG00000180259|Q86SH4|PRNT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2405700683594 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 60.559 1 61.222 60.722 61.722 0.66261 0 0 0 0.99035 1 27727 27727 6.3541 0 1 16243 9768 10440 10464 18559 18559 0.07004903608185487 LHLVCEPFCS 10 Unmodified _LHLVCEPFCS_ 0 0 0 LTR102_Mam_dup160|chr6:31178333-31178586:-|1.6740034964844457|0.4104768247937383|2.03|541.0|4|2|sense LTR102_Mam_dup160|chr6:31178333-31178586:-|1.6740034964844457|0.4104768247937383|2.03|541.0|4|2|sense LTR102_Mam_dup160|chr6:31178333-31178586:-|1.6740034964844457|0.4104768247937383|2.03|541.0|4|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.2676391601562 2 574.26737 1146.52019 3.6087 0.0020723 -0.75638 -0.00043436 2.8523 0.001638 574.2673553398726 67.673 0.32457 67.925 67.779 68.103 0.25227 60 17 5 0 0 0 0.4834 1 30962 30962 21.747 2.4897 1 4701800 16244 9487 10441 10465 18560 18560 -0.047212630261356026 LHLVCEPFCS 10 Unmodified _LHLVCEPFCS_ 0 0 0 LTR102_Mam_dup160|chr6:31178333-31178586:-|1.6740034964844457|0.4104768247937383|2.03|541.0|4|2|sense LTR102_Mam_dup160|chr6:31178333-31178586:-|1.6740034964844457|0.4104768247937383|2.03|541.0|4|2|sense LTR102_Mam_dup160|chr6:31178333-31178586:-|1.6740034964844457|0.4104768247937383|2.03|541.0|4|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 383.1817932128906 3 383.180672 1146.52019 2.7579 0.0010568 -0.28877 -0.00011065 2.4692 0.00094613 383.18079218234027 67.081 0.39572 67.738 67.54 67.936 0.65778 74 22 4 0 0 0 0.82431 1 30719 30719 3.8763 0.28927 1 5214200 16245 9487 10441 10465 18561 18561 -0.047212630261356026 LHLVDAHTHL 10 Unmodified _LHLVDAHTHL_ 0 0 0 nc|ENSG00000167716|Q562E7-4|WDR81;ENSG00000167716|ENST00000409644|WDR81 nc|ENSG00000167716|Q562E7-4|WDR81 nc|ENSG00000167716|Q562E7-4|WDR81 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.3206176757812 2 578.317097 1154.61964 3.7562 0.0021723 -0.06838 -3.9545E-05 3.6878 0.0021327 578.3170270209977 22.018 0.25229 22.018 21.882 22.135 0 41 17 3 0 0 0 0.51828 1 9894 9894 20.454 0 1 297320 16246 4575 10442 10466 18562 18562 0.048516389744463595 LHLVLETI 8 Unmodified _LHLVLETI_ 0 0 0 ENSG00000145781|ENST00000274458|COMMD10 ENSG00000145781|ENST00000274458|COMMD10 ENSG00000145781|ENST00000274458|COMMD10 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.22735595703125 2 469.289485 936.564418 2.6589 0.0012478 2.0287 0.00095203 4.6875 0.0021998 469.29047016196535 52.991 0.11718 53.794 53.756 53.873 0.80351 8 6 2 0 0 0 0.13779 1 24133 24133 6.3541 0 1 495710 16247 3488 10443 10467 18563 18563 0.09359832453992567 LHMDQLQDF 9 Unmodified _LHMDQLQDF_ 0 0 0 ENSG00000158859|ENST00000367996|ADAMTS4;nc|ENSG00000158859|O75173-2|ADAMTS4 ENSG00000158859|ENST00000367996|ADAMTS4 ENSG00000158859|ENST00000367996|ADAMTS4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 382.5140380859375 3 382.846458 1145.51754 NaN NaN NaN NaN NaN NaN NaN 22.148 1 22.148 21.648 22.648 0 0 0 0 0.90511 1 9925 9925 1.1933 0 1 16248 4002 10444 10468 18564 18564 -0.04939395159453852 LHPKVMNTL 9 Unmodified _LHPKVMNTL_ 0 0 0 REV__AluSg_dup22705|chr11:63582852-63583140:+|1.6660853550735777|0.0376293536133263|5.47|502.0|8|3|sense REV__AluSg_dup22705|chr11:63582852-63583140:+|1.6660853550735777|0.0376293536133263|5.47|502.0|8|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.537109375 3 351.535555 1051.58484 2.5357 0.00089139 -0.1273 -4.4751E-05 2.4084 0.00084664 351.53578814958945 14.537 0.19347 15.185 15.104 15.298 0.6482 53 22 3 0 0 0 0.46674 1 6569 6569 13.042 2.8919 1 886490 + 16249 9946 10445 10469 18565 18565 0.06110679842163336 LHPLKKWP 8 Unmodified _LHPLKKWP_ 0 0 0 ENSG00000163792|ENST00000296096|TCF23 ENSG00000163792|ENST00000296096|TCF23 ENSG00000163792|ENST00000296096|TCF23 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 340.2118225097656 3 340.2114 1017.61237 NaN NaN NaN NaN NaN NaN NaN 77.635 1 77.635 77.135 78.135 0 0 0 0 0.99035 1 38082 38082 0.45834 0 1 16250 4248 10446 10470 18566 18566 0.10426951164697584 LHPSAPNGG 9 Unmodified _LHPSAPNGG_ 0 0 0 ENST00000567019.1_1_15:43489502-43501706:-|nuORF;ENSG00000166947|ENST00000441366|EPB42;nc|ENSG00000166947|P16452-2|EPB42 ENST00000567019.1_1_15:43489502-43501706:-|nuORF ENST00000567019.1_1_15:43489502-43501706:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 425.21636962890625 2 425.214309 848.414065 2.7193 0.0011563 0.89193 0.00037926 3.6112 0.0015356 425.21477743717276 17.148 0.50044 17.453 17.179 17.679 0.30438 48 38 2 0 0 0 0.89849 1 7799 7799 5.7319 0.50118 1 109160 16251 4519 10447 10471 18567 18567 -0.016205144849436692 LHQALLHNK 9 Unmodified _LHQALLHNK_ 0 0 0 ENST00000502426.5_1_17:48736553-48755440:+|nuORF;nc|ENSG00000108846|O15438-2|ABCC3;ENSG00000108846|ENST00000285238|ABCC3;nc|ENSG00000108846|O15438-4|ABCC3 ENST00000502426.5_1_17:48736553-48755440:+|nuORF ENST00000502426.5_1_17:48736553-48755440:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 358.862548828125 3 358.545331 1072.61416 2.4297 0.00087115 -0.082259 -2.9494E-05 2.3474 0.00084166 358.54513056110676 26.995 0.084978 27.774 27.729 27.814 0.7787 9 6 2 0 0 0 0.10683 1 12116 12116 8.1555 0.8663 1 184080 16252 1656 10448 10472 18568 18568 0.08075960182668496 LHQHLVLQ 8 Unmodified _LHQHLVLQ_ 0 0 0 ENST00000442060.7_1_5:118860916-118866997:+|nuORF ENST00000442060.7_1_5:118860916-118866997:+|nuORF ENST00000442060.7_1_5:118860916-118866997:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 329.8634338378906 3 329.86266 986.566149 NaN NaN NaN NaN NaN NaN NaN 12.931 1 13.238 12.738 13.738 0.30727 0 0 0 0.20533 1 5833 5833 42.095 2.1372 1 16253 7941 10449 10473 18569 18569 0.07232886262602278 LHQLKGERL 9 Unmodified _LHQLKGERL_ 0 0 0 REV__ENSG00000064270|ENST00000262429|ATP2C2 REV__ENSG00000064270|ENST00000262429|ATP2C2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.8900146484375 3 365.220735 1092.64038 2.6638 0.00097286 0.40409 0.00014758 3.0678 0.0011204 365.2209661793665 18.553 0.30088 19.214 19.089 19.39 0.66072 109 35 4 0 0 0 0.3144 1 8357 8357 10.8 0 1 25441000 + 16254 10409 10450 10474 18570 18570 0.09776229354133648 LHQSLAEEGCL 11 Unmodified _LHQSLAEEGCL_ 0 0 0 REV__ENSG00000140836|ENST00000268489|ZFHX3 REV__ENSG00000140836|ENST00000268489|ZFHX3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 400.5301513671875 3 400.529017 1198.56522 2.9253 0.0011717 0.71523 0.00028647 3.6405 0.0014581 400.52932949896154 38.796 0.31062 39.434 39.307 39.617 0.63778 21 10 3 0 0 0 0.52054 1 17779 17779 10.315 6.1986 1 358750 + 16255 12267 10451 10475 18571 18571 -0.026117409592416152 LHQTALAL 8 Unmodified _LHQTALAL_ 0 0 0 REV__ENST00000567020.6_2_16:2551598-2552264:+|nuORF REV__ENST00000567020.6_2_16:2551598-2552264:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 433.760009765625 2 433.758352 865.502152 NaN NaN NaN NaN NaN NaN NaN 25.756 1 26.024 25.524 26.524 0.26777 0 0 0 0.86524 1 11693 11693 14.582 0 1 + 16256 17428 10452 10476 18572 18572 0.06402106105645089 LHQVEAQLH 9 Unmodified _LHQVEAQLH_ 0 0 0 REV__nc|ENSG00000197555|O43166-3|SIPA1L1 REV__nc|ENSG00000197555|O43166-3|SIPA1L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.789794921875 2 537.788173 1073.56179 3.3778 0.0018165 -0.045986 -2.4731E-05 3.3318 0.0017918 537.7881686494904 27.91 0.23969 27.91 27.789 28.029 0 46 18 3 0 0 0 0.15661 1 12551 12551 28.487 2.4661 1 1579600 + 16257 14287 10453 10477 18573 18573 0.027953770490512397 LHQVEAQLH 9 Unmodified _LHQVEAQLH_ 0 0 0 REV__nc|ENSG00000197555|O43166-3|SIPA1L1 REV__nc|ENSG00000197555|O43166-3|SIPA1L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.7903442382812 2 537.788173 1073.56179 2.9504 0.0015867 0.63672 0.00034242 3.5871 0.0019291 537.7884919433528 27.818 0.30312 28.081 27.914 28.217 0.26245 41 17 3 0 0 0 0.24524 1 12613 12613 21.747 5.8995 1 916080 + 16258 14287 10453 10477 18574 18574 0.027953770490512397 LHQVEAQLH 9 Unmodified _LHQVEAQLH_ 0 0 0 REV__nc|ENSG00000197555|O43166-3|SIPA1L1 REV__nc|ENSG00000197555|O43166-3|SIPA1L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.7898559570312 2 537.788173 1073.56179 3.1827 0.0017116 0.68192 0.00036673 3.8646 0.0020783 537.7884985332981 27.459 0.31106 28.081 27.871 28.182 0.62178 53 21 3 0 0 0 0.24524 1 12534 12534 28.487 2.2187 1 1089600 + 16259 14287 10453 10477 18575 18575 0.027953770490512397 LHRAPEKLR 9 Unmodified _LHRAPEKLR_ 0 0 0 ENSG00000130766|ENST00000253063|SESN2 ENSG00000130766|ENST00000253063|SESN2 ENSG00000130766|ENST00000253063|SESN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.343017578125 2 560.340907 1118.66726 3.7511 0.0021019 -1.2158 -0.00068124 2.5354 0.0014207 560.3401528965048 98.094 0.20642 98.693 98.551 98.758 0.59885 45 19 3 0 0 0 0.95612 1 45136 45136 4.756 0 1 35410000 16260 2619 10454 10478 18576 18576 0.11267337965296065 LHRARALQK 9 Unmodified _LHRARALQK_ 0 0 0 nc|ENSG00000160145|O60229|KALRN;nc|ENSG00000160145|O60229-2|KALRN;ENSG00000160145|ENST00000682506|KALRN;TRIO|p.D1887Lfs*10|1|0.26|ENSG00000038382|chr5:14462916-14462917|-/TT|frameshift_variant;ENST00000515144.5_1_5:14293150-14488426:+|nuORF;nc|ENSG00000038382|O75962-5|TRIO;nc|ENSG00000038382|O75962-2|TRIO;nc|ENSG00000038382|O75962-4|TRIO;ENSG00000038382|ENST00000344204|TRIO nc|ENSG00000160145|O60229|KALRN nc|ENSG00000160145|O60229|KALRN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.8427124023438 2 546.841074 1091.66759 3.7481 0.0020496 -1.0719 -0.00058614 2.6763 0.0014635 546.8403322130887 96.998 0.51803 97.6 97.358 97.876 0.6019 75 25 4 0 0 0 1.1703 1 44576 44576 0.6015 0.6015 1 33054000 16261 9710 10455 10479 18577 18577 0.12542757685150718 LHRARALQK 9 Unmodified _LHRARALQK_ 0 0 0 nc|ENSG00000160145|O60229|KALRN;nc|ENSG00000160145|O60229-2|KALRN;ENSG00000160145|ENST00000682506|KALRN;TRIO|p.D1887Lfs*10|1|0.26|ENSG00000038382|chr5:14462916-14462917|-/TT|frameshift_variant;ENST00000515144.5_1_5:14293150-14488426:+|nuORF;nc|ENSG00000038382|O75962-5|TRIO;nc|ENSG00000038382|O75962-2|TRIO;nc|ENSG00000038382|O75962-4|TRIO;ENSG00000038382|ENST00000344204|TRIO nc|ENSG00000160145|O60229|KALRN nc|ENSG00000160145|O60229|KALRN MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 546.841074 1091.66759 3.3085 0.0018092 -1.1298 -0.0006178 2.1788 0.0011915 546.8403004202015 97.873 0.15952 97.873 97.765 97.924 0 0.19906 -0.00014712 NaN 0.6015 20 13 2 NaN NaN NaN NaN 0 NaN NaN 0 11734000 16262 9710 10455 10479 0.12542757685150718 LHRARALQK 9 Unmodified _LHRARALQK_ 0 0 0 nc|ENSG00000160145|O60229|KALRN;nc|ENSG00000160145|O60229-2|KALRN;ENSG00000160145|ENST00000682506|KALRN;TRIO|p.D1887Lfs*10|1|0.26|ENSG00000038382|chr5:14462916-14462917|-/TT|frameshift_variant;ENST00000515144.5_1_5:14293150-14488426:+|nuORF;nc|ENSG00000038382|O75962-5|TRIO;nc|ENSG00000038382|O75962-2|TRIO;nc|ENSG00000038382|O75962-4|TRIO;ENSG00000038382|ENST00000344204|TRIO nc|ENSG00000160145|O60229|KALRN nc|ENSG00000160145|O60229|KALRN MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 546.841074 1091.66759 4.3953 0.0024035 -1.5531 -0.00084927 2.8423 0.0015543 546.8400673680406 97.425 0.36536 97.714 97.493 97.859 0.28923 0.039474 -0.00061007 NaN 0.6015 52 18 5 NaN NaN NaN NaN 0 NaN NaN 0 37923000 16263 9710 10455 10479 0.12542757685150718 LHRARKQSK 9 Unmodified _LHRARKQSK_ 0 0 0 REV__nc|ENSG00000133710|Q9NQ38-2|SPINK5 REV__nc|ENSG00000133710|Q9NQ38-2|SPINK5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.3440551757812 2 562.343981 1122.67341 3.6826 0.0020709 -1.1234 -0.00063174 2.5592 0.0014391 562.3432381638758 83.181 0.72768 83.841 83.599 84.326 0.66019 60 43 2 0 0 0 1.101 1 38354 38354 2.3027 0 1 928580 + 16264 11943 10456 10480 18578 18578 0.11697856196838075 LHRDLHVAI 9 Unmodified _LHRDLHVAI_ 0 0 0 REV__ENST00000368865.8_1_10:124924074-124924155:+|nuORF REV__ENST00000368865.8_1_10:124924074-124924155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 358.5458679199219 3 358.545331 1072.61416 2.4677 0.0008848 -0.32639 -0.00011703 2.1413 0.00076777 358.54527365825277 27.876 0.24637 28.139 28.033 28.279 0.26245 23 15 2 0 0 0 0.76984 1 12701 12701 8.1555 2.7528 1 237360 + 16265 15694 10457 10481 18579 18579 0.08075960182668496 LHRDLHVAI 9 Unmodified _LHRDLHVAI_ 0 0 0 REV__ENST00000368865.8_1_10:124924074-124924155:+|nuORF REV__ENST00000368865.8_1_10:124924074-124924155:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 358.86212158203125 3 358.545331 1072.61416 2.4677 0.0008848 -0.32639 -0.00011703 2.1413 0.00076777 358.54527365825277 27.876 0.24637 28.139 28.033 28.279 0.26245 23 15 2 0 0 0 0.10127 1 12684 12684 12.241 7.3436 1 237360 + 16266 15694 10457 10481 18580 18580 0.08075960182668496 LHRHHRHRGHL 11 Unmodified _LHRHHRHRGHL_ 0 0 0 ENST00000459850.5_1_9:139905636-139906175:-|nuORF;ENST00000341511.10_1_9:139905550-139906175:-|nuORF ENST00000459850.5_1_9:139905636-139906175:-|nuORF ENST00000459850.5_1_9:139905636-139906175:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.9400329589844 3 485.939959 1454.79805 NaN NaN NaN NaN NaN NaN NaN 60.931 1 61.187 60.687 61.687 0.25578 0 0 0 1.0079 1 27904 27904 0.50596 0 1 16267 7077 10458 10482 18581 18581 0.088841664567326 LHRILLELME 10 Unmodified _LHRILLELME_ 0 0 0 REV__ENSG00000079482|ENST00000355520|OPHN1 REV__ENSG00000079482|ENST00000355520|OPHN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.86572265625 2 633.865566 1265.71658 NaN NaN NaN NaN NaN NaN NaN 78.852 1 79.514 79.014 80.014 0.66198 0 0 0 1.0015 1 36336 36336 0.40072 0 1 + 16268 10583 10459 10483 18582 18582 0.0943486513924654 LHRKFKPP 8 Unmodified _LHRKFKPP_ 0 0 0 REV__ENST00000482519.1_1_1:171675557-171707554:-|nuORF REV__ENST00000482519.1_1_1:171675557-171707554:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.547119140625 3 341.546783 1021.61852 NaN NaN NaN NaN NaN NaN NaN 12.533 1 12.841 12.341 13.341 0.30727 0 0 0 0.9851 1 5652 5652 6.7232 2.1943 1 + 16269 11446 10460 10484 18583 18583 0.10857469396228225 LHRMYKRLRV 10 Unmodified _LHRMYKRLRV_ 0 0 0 ENST00000263347.11_1_16:89973678-89977643:+|nuORF ENST00000263347.11_1_16:89973678-89977643:+|nuORF ENST00000263347.11_1_16:89973678-89977643:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 686.4113159179688 2 686.41134 1370.80813 NaN NaN NaN NaN NaN NaN NaN 87.685 1 88.363 87.863 88.863 0.67747 0 0 0 1.0015 1 40388 40388 0.45834 0 1 16270 6589 10461 10485 18584 18584 0.1375559334708214 LHRPRITR 8 Unmodified _LHRPRITR_ 0 0 0 ENSG00000141384|ENST00000269142|TAF4B ENSG00000141384|ENST00000269142|TAF4B ENSG00000141384|ENST00000269142|TAF4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.828369140625 2 524.827966 1047.64138 2.1489 0.0011278 -0.67267 -0.00035304 1.4763 0.00077479 524.827479578887 95.804 0.29288 95.886 95.726 96.019 0.082001 76 41 3 0 0 0 0.70799 1 50734 50734 5.2307 2.6532 1 22658000 16271 3247 10462 10486 18585 18585 0.11946488513672193 LHRPRITR 8 Unmodified _LHRPRITR_ 0 0 0 ENSG00000141384|ENST00000269142|TAF4B ENSG00000141384|ENST00000269142|TAF4B ENSG00000141384|ENST00000269142|TAF4B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 524.827966 1047.64138 3.5146 0.0018445 -1.3711 -0.00071961 2.1434 0.0011249 524.8272318957291 95.191 0.52116 95.809 95.542 96.063 0.61736 -0.038769 -0.00036981 NaN 5.2307 99 24 5 NaN NaN NaN NaN 0 NaN NaN 0 56722000 16272 3247 10462 10486 0.11946488513672193 LHRRKLRLAIE 11 Unmodified _LHRRKLRLAIE_ 0 0 0 ENSG00000189337|ENST00000376030|KAZN ENSG00000189337|ENST00000376030|KAZN ENSG00000189337|ENST00000376030|KAZN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 468.9720153808594 3 468.968522 1403.88374 NaN NaN NaN NaN NaN NaN NaN 45.803 1 46.63 46.13 47.13 0.82621 0 0 0 1.0079 1 20857 20857 0.50596 0.09769 1 16273 5710 10463 10487 18586 18586 0.19794893799030433 LHRRRLRRI 9 Unmodified _LHRRRLRRI_ 0 0 0 REV__ENST00000554003.1_1_12:57638697-57638930:-|nuORF REV__ENST00000554003.1_1_12:57638697-57638930:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 638.423583984375 2 638.420888 1274.82722 NaN NaN NaN NaN NaN NaN NaN 109.23 1 109.23 108.73 109.73 0 0 0 0 0.91206 1 59752 59752 0.6015 0 1 + 16274 17306 10464 10488 18587 18587 0.20080310753041886 LHRRRRANA 9 Unmodified _LHRRRRANA_ 0 0 0 ENSG00000057593|ENST00000346342|F7;nc|ENSG00000057593|P08709|F7 ENSG00000057593|ENST00000346342|F7 ENSG00000057593|ENST00000346342|F7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.34765625 2 575.344846 1148.67514 3.8802 0.0022325 1.1478 0.00066037 5.028 0.0028928 575.3452960952341 93.651 0.80415 94.282 94.046 94.851 0.63115 84 40 3 0 0 0 1.101 1 43031 43031 2.3027 0 1 3289400 16275 623 10465 10489 18588 18588 0.10674910005468519 LHRRVIRVRL 10 Unmodified _LHRRVIRVRL_ 0 0 0 ENST00000596318.1_1_19:49553653-49553959:-|nuORF ENST00000596318.1_1_19:49553653-49553959:-|nuORF ENST00000596318.1_1_19:49553653-49553959:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 659.4389038085938 2 659.438747 1316.86294 NaN NaN NaN NaN NaN NaN NaN 21.631 1 22.036 21.536 22.536 0.40533 0 0 0 1.002 1 9604 9604 0 0 1 16276 9276 10466 10490 18589 18589 0.2171834821003813 LHRTPSADL 9 Unmodified _LHRTPSADL_ 0 0 0 nc|ENSG00000173210|O94929-4|ABLIM3;nc|ENSG00000173210|O94929-2|ABLIM3;nc|ENSG00000173210|O94929-3|ABLIM3;ENSG00000173210|ENST00000309868|ABLIM3 nc|ENSG00000173210|O94929-4|ABLIM3 nc|ENSG00000173210|O94929-4|ABLIM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.1868591308594 3 337.185691 1008.53524 2.3473 0.00079147 0.39713 0.00013391 2.7444 0.00092537 337.1858555793023 27.6 0.26613 27.863 27.732 27.998 0.26245 44 19 3 0 0 0 0.097139 1 12558 12558 33.445 2.7415 1 2282600 16277 4919 10467 10491 18590 18590 0.03131688157691315 LHRTPSADL 9 Unmodified _LHRTPSADL_ 0 0 0 nc|ENSG00000173210|O94929-4|ABLIM3;nc|ENSG00000173210|O94929-2|ABLIM3;nc|ENSG00000173210|O94929-3|ABLIM3;ENSG00000173210|ENST00000309868|ABLIM3 nc|ENSG00000173210|O94929-4|ABLIM3 nc|ENSG00000173210|O94929-4|ABLIM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 337.1866455078125 3 337.185691 1008.53524 2.2158 0.00074714 0.53795 0.00018139 2.7538 0.00092853 337.18588140888346 27.176 0.27779 27.798 27.665 27.943 0.62179 40 15 3 0 0 0 0.1229 1 12437 12437 28.495 1.2713 1 2183200 16278 4919 10467 10491 18591 18591 0.03131688157691315 LHRVARAGR 9 Unmodified _LHRVARAGR_ 0 0 0 ENSG00000198563|ENST00000396172|DDX39B;nc|ENSG00000198563|Q13838-2|DDX39B;ENST00000587730.5_1_19:14519750-14520297:-|nuORF;ENST00000474961.5_1_6:31498213-31499248:-|nuORF;ENST00000588692.5_1_19:14519750-14520718:-|nuORF;ENST00000462256.5_1_6:31498213-31500844:-|nuORF;ENSG00000123136|ENST00000242776|DDX39A ENSG00000198563|ENST00000396172|DDX39B;ENSG00000123136|ENST00000242776|DDX39A ENSG00000198563|ENST00000396172|DDX39B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 518.3179931640625 2 518.317766 1034.62098 4.2573 0.0022066 -1.7504 -0.00090727 2.5069 0.0012994 518.316878263174 102.04 0.17672 102.36 102.26 102.44 0.31737 16 5 4 0 0 0 1.1154 1 47198 47198 2.0598 0 1 2359000 16279 5901;2294 10468 10492 18592 18592 0.10505317853903762 LHRVARAGR 9 Unmodified _LHRVARAGR_ 0 0 0 ENSG00000198563|ENST00000396172|DDX39B;nc|ENSG00000198563|Q13838-2|DDX39B;ENST00000587730.5_1_19:14519750-14520297:-|nuORF;ENST00000474961.5_1_6:31498213-31499248:-|nuORF;ENST00000588692.5_1_19:14519750-14520718:-|nuORF;ENST00000462256.5_1_6:31498213-31500844:-|nuORF;ENSG00000123136|ENST00000242776|DDX39A ENSG00000198563|ENST00000396172|DDX39B;ENSG00000123136|ENST00000242776|DDX39A ENSG00000198563|ENST00000396172|DDX39B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 518.317766 1034.62098 2.8813 0.0014934 -1.2451 -0.00064538 1.6362 0.00084806 518.3173979341246 102.56 0.13907 102.56 102.49 102.63 0 0.016882 0.00020387 NaN 2.0598 10 5 3 NaN NaN NaN NaN 0 NaN NaN 0 556020 16280 5901;2294 10468 10492 0.10505317853903762 LHRVARAGR 9 Unmodified _LHRVARAGR_ 0 0 0 ENSG00000198563|ENST00000396172|DDX39B;nc|ENSG00000198563|Q13838-2|DDX39B;ENST00000587730.5_1_19:14519750-14520297:-|nuORF;ENST00000474961.5_1_6:31498213-31499248:-|nuORF;ENST00000588692.5_1_19:14519750-14520718:-|nuORF;ENST00000462256.5_1_6:31498213-31500844:-|nuORF;ENSG00000123136|ENST00000242776|DDX39A ENSG00000198563|ENST00000396172|DDX39B;ENSG00000123136|ENST00000242776|DDX39A ENSG00000198563|ENST00000396172|DDX39B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 518.317766 1034.62098 2.1282 0.0011031 0.12566 6.5131E-05 2.2538 0.0011682 518.3175347336066 102.62 0.20823 102.67 102.55 102.76 0.055092 0.12683 0.0016249 NaN 2.0598 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 1136000 16281 5901;2294 10468 10492 0.10505317853903762 LHRVARAGR 9 Unmodified _LHRVARAGR_ 0 0 0 ENSG00000198563|ENST00000396172|DDX39B;nc|ENSG00000198563|Q13838-2|DDX39B;ENST00000587730.5_1_19:14519750-14520297:-|nuORF;ENST00000474961.5_1_6:31498213-31499248:-|nuORF;ENST00000588692.5_1_19:14519750-14520718:-|nuORF;ENST00000462256.5_1_6:31498213-31500844:-|nuORF;ENSG00000123136|ENST00000242776|DDX39A ENSG00000198563|ENST00000396172|DDX39B;ENSG00000123136|ENST00000242776|DDX39A ENSG00000198563|ENST00000396172|DDX39B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 518.317766 1034.62098 4.2573 0.0022066 -1.7504 -0.00090727 2.5069 0.0012994 518.316878263174 102.04 0.17672 102.36 102.26 102.44 0.31737 -0.18751 -0.00031992 NaN 2.0598 16 5 4 NaN NaN NaN NaN 0 NaN NaN 0 2359000 16282 5901;2294 10468 10492 0.10505317853903762 LHRVRQPPS 9 Unmodified _LHRVRQPPS_ 0 0 0 REV__ENST00000264852.8_2_3:113347457-113347640:+|nuORF REV__ENST00000264852.8_2_3:113347457-113347640:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3187866210938 2 545.317432 1088.62031 3.4792 0.0018973 -0.81329 -0.0004435 2.6659 0.0014538 545.3169124440693 83.541 1.7312 83.788 83.088 84.819 0.24722 279 102 3 0 0 0 0.95612 1 38727 38727 4.756 0 1 2574300 + 16283 15024 10469 10493 18593 18593 0.07954478414194455 LHRVTLIG 8 Unmodified _LHRVTLIG_ 0 0 0 REV__ENSG00000129696|ENST00000431156|TTI2 REV__ENSG00000129696|ENST00000431156|TTI2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.88482666015625 3 303.527388 907.560336 2.5152 0.00076342 1.0725 0.00032554 3.5877 0.001089 303.52763528397657 10.879 0.3631 11.512 11.331 11.694 0.63304 45 32 2 0 0 0 0.14355 1 4875 4875 0 0 1 33540 + 16284 11794 10470 10494 18594 18594 0.10285787750967756 LHSHNVFLLF 10 Unmodified _LHSHNVFLLF_ 0 0 0 ENST00000479535.2_1_10:135367796-135372492:-|nuORF ENST00000479535.2_1_10:135367796-135372492:-|nuORF ENST00000479535.2_1_10:135367796-135372492:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.5609130859375 3 409.560869 1225.66078 2.9569 0.0012111 -0.53685 -0.00021987 2.4201 0.00099118 409.56053218287644 63.685 0.30513 64.341 64.233 64.538 0.65672 32 22 2 0 0 0 0.78883 1 29184 29184 8.9762 2.3459 1 736600 16285 8262 10471 10495 18595 18595 0.05697400013946208 LHSHNVFLLF 10 Unmodified _LHSHNVFLLF_ 0 0 0 ENST00000479535.2_1_10:135367796-135372492:-|nuORF ENST00000479535.2_1_10:135367796-135372492:-|nuORF ENST00000479535.2_1_10:135367796-135372492:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 409.560869 1225.66078 2.8734 0.0011768 -0.7314 -0.00029955 2.142 0.00087728 409.8948645970887 64.366 0.31335 64.614 64.388 64.702 0.24803 0.13642 -0.00010966 NaN 8.9762 30 18 2 NaN NaN NaN NaN 0 NaN NaN 0 764750 16286 8262 10471 10495 0.05697400013946208 LHSRHRFTK 9 Unmodified _LHSRHRFTK_ 0 0 0 REV__ENSG00000197808|ENST00000588268|ZNF461 REV__ENSG00000197808|ENST00000588268|ZNF461 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.56207275390625 3 394.559863 1180.65776 NaN NaN NaN NaN NaN NaN NaN 25.398 1 25.665 25.165 26.165 0.26777 0 0 0 0.8911 1 11525 11525 5.7319 1.5423 1 + 16287 14300 10472 10496 18596 18596 0.07465569679789041 LHSTPGTRR 9 Unmodified _LHSTPGTRR_ 0 0 0 ENST00000436583.5_2_X:103217867-103218104:+|nuORF ENST00000436583.5_2_X:103217867-103218104:+|nuORF ENST00000436583.5_2_X:103217867-103218104:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 342.20458984375 3 342.193068 1023.55738 NaN NaN NaN NaN NaN NaN NaN 26.126 1 26.751 26.251 27.251 0.62505 0 0 0 0.86044 1 11979 11979 4.5289 0.58447 1 16288 7900 10473 10497 18597 18597 0.04653912626156398 LHVKGRRV 8 Unmodified _LHVKGRRV_ 0 0 0 nc|ENSG00000006747|Q9Y6U3-2|SCIN;ENSG00000006747|ENST00000297029|SCIN nc|ENSG00000006747|Q9Y6U3-2|SCIN nc|ENSG00000006747|Q9Y6U3-2|SCIN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 322.2110595703125 3 322.210282 963.609017 2.1539 0.000694 0.41057 0.00013229 2.5644 0.00082628 322.21050002642136 15.028 0.52288 15.028 14.783 15.306 0 80 59 2 0 0 0 0.7471 1 6705 6705 1.6526 0 1 119700 16289 358 10474 10498 18598 18598 0.1257570111071118 LHVKHRLV 8 Unmodified _LHVKHRLV_ 0 0 0 ENSG00000125531|ENST00000370097|FNDC11 ENSG00000125531|ENST00000370097|FNDC11 ENSG00000125531|ENST00000370097|FNDC11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.32354736328125 2 501.321986 1000.62942 NaN NaN NaN NaN NaN NaN NaN 44.407 1 44.677 44.177 45.177 0.2694 0 0 0 0.99035 1 20298 20298 2.8892 0 1 16290 2405 10475 10499 18599 18599 0.12912871770515721 LHVKQKEI 8 Unmodified _LHVKQKEI_ 0 0 0 REV__nc|ENSG00000198947|P11532-4|DMD REV__nc|ENSG00000198947|P11532-4|DMD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.20758056640625 3 332.206315 993.597115 2.4239 0.00080525 -0.41442 -0.00013767 2.0095 0.00066758 332.2069519535086 13.196 0.24364 13.839 13.699 13.943 0.64272 28 18 3 0 0 0 0.71911 1 5906 5906 4.3292 0 1 627280 + 16291 14386 10476 10500 18600 18600 0.10006039576853709 LHVKRRRIC 9 Unmodified _LHVKRRRIC_ 0 0 0 ENSG00000151882|ENST00000361115|CCL28 ENSG00000151882|ENST00000361115|CCL28 ENSG00000151882|ENST00000361115|CCL28 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.8679809570312 2 590.864026 1179.7135 NaN NaN NaN NaN NaN NaN NaN 99.642 1 99.642 99.142 100.14 0 0 0 0 0.89509 1 54836 54836 4.756 0.81161 1 16292 3730 10477 10501 18601 18601 0.13083079595776326 LHVKYNYNRF 10 Unmodified _LHVKYNYNRF_ 0 0 0 REV__nc|ENSG00000116678|P48357-5|LEPR REV__nc|ENSG00000116678|P48357-5|LEPR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.9081726074219 3 451.906928 1352.69895 2.9628 0.0013389 0.084775 3.831E-05 3.0476 0.0013772 451.9068540210567 12.614 0.077199 12.614 12.583 12.66 0 11 5 3 0 0 0 0.72158 1 5504 5504 12.175 4.6977 1 1133100 + 16293 11411 10478 10502 18602 18602 0.03671285928589896 LHVLARFLL 9 Unmodified _LHVLARFLL_ 0 0 0 REV__ENSG00000177084|ENST00000320574|POLE REV__ENSG00000177084|ENST00000320574|POLE MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.271240234375 2 541.347669 1080.68079 NaN NaN NaN NaN NaN NaN NaN 27.568 1 28.19 27.69 28.69 0.62179 0 0 0 0.89315 1 12639 12639 5.2307 0 1 + 16294 13724 10479 10503 18603 18603 0.14367195744557648 LHVLLFLH 8 Unmodified _LHVLLFLH_ 0 0 0 REV__ENST00000593901.5_1_19:51140923-51142361:-|nuORF REV__ENST00000593901.5_1_19:51140923-51142361:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.210205078125 3 331.207767 990.601472 NaN NaN NaN NaN NaN NaN NaN 62.973 1 62.973 62.473 63.473 0 0 0 0 0.99035 1 29573 29573 0.45834 0 1 + 16295 17602 10480 10504 18604 18604 0.10579548790428817 LHVLLFLH 8 Unmodified _LHVLLFLH_ 0 0 0 REV__ENST00000593901.5_1_19:51140923-51142361:-|nuORF REV__ENST00000593901.5_1_19:51140923-51142361:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.21014404296875 3 331.207767 990.601472 NaN NaN NaN NaN NaN NaN NaN 69.034 1 69.034 68.534 69.534 0 0 0 0 0.99035 1 33286 33286 0.45834 0 1 + 16296 17602 10480 10504 18605 18605 0.10579548790428817 LHVQVGGDHL 10 Unmodified _LHVQVGGDHL_ 0 0 0 ENST00000562532.2_1_20:30584341-30584887:+|nuORF ENST00000562532.2_1_20:30584341-30584887:+|nuORF ENST00000562532.2_1_20:30584341-30584887:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.7893676757812 2 537.788173 1073.56179 3.1827 0.0017116 0.68192 0.00036673 3.8646 0.0020783 537.7884985332981 27.459 0.31106 28.081 27.871 28.182 0.62178 53 21 3 0 0 0 0.57441 1 12635 12635 15.847 0 1 1089600 16297 8995 10481 10505 18606 18606 0.027953770490512397 LHVVQRPRG 9 Unmodified _LHVVQRPRG_ 0 0 0 REV__chr7:102602405-102605609|148|10.68|0.0|20.03|-|2|TE_info:AluSx1,AluSx1_dup45350,Alu,SINE,donor,-,102605609,102605708|RASA4,None|2 REV__chr7:102602405-102605609|148|10.68|0.0|20.03|-|2|TE_info:AluSx1,AluSx1_dup45350,Alu,SINE,donor,-,102605609,102605708|RASA4,None|2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.3212280273438 2 531.319974 1060.6254 3.5016 0.0018605 -0.93177 -0.00049507 2.5699 0.0013654 531.3194126780111 89.787 0.63899 90.039 89.799 90.438 0.25137 71 28 4 0 0 0 1.1154 1 41304 41304 2.0598 1.3694 1 2543800 + 16298 10054 10482 10506 18607 18607 0.09750782276819336 LHYIDFLSR 9 Unmodified _LHYIDFLSR_ 0 0 0 REV__nc|ENSG00000242019|Q8N743|KIR3DL3 REV__nc|ENSG00000242019|Q8N743|KIR3DL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 388.54644775390625 3 388.545108 1162.61349 2.7862 0.0010826 -0.39483 -0.00015341 2.3914 0.00092917 388.5449767298672 56.95 0.2214 56.95 56.843 57.064 0 38 24 2 0 0 0 0.28387 1 26227 26227 17.863 0 1 1357600 + 16299 14616 10483 10507 18608 18608 0.03869120742933774 LHYIDFLSR 9 Unmodified _LHYIDFLSR_ 0 0 0 REV__nc|ENSG00000242019|Q8N743|KIR3DL3 REV__nc|ENSG00000242019|Q8N743|KIR3DL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 388.5460510253906 3 388.545108 1162.61349 2.2519 0.00087497 -0.41387 -0.00016081 1.838 0.00071416 388.5448574177361 55.929 0.23299 56.716 56.585 56.818 0.78711 43 19 3 0 0 0 0.12685 1 25581 25581 28.234 0 1 1555000 + 16300 14616 10483 10507 18609 18609 0.03869120742933774 LHYLWKLVAI 10 Unmodified _LHYLWKLVAI_ 0 0 0 REV__ENSG00000103043|ENST00000261776|VAC14 REV__ENSG00000103043|ENST00000261776|VAC14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 628.3848266601562 2 628.381709 1254.74886 4.0152 0.0025231 1.1261 0.00070759 5.1412 0.0032307 628.3823606910354 103.91 0.20594 104.51 104.47 104.68 0.59821 66 44 2 0 0 0 0.94217 1 48051 48051 0.45834 0 1 1063300 + 16301 10955 10484 10508 18610 18610 0.1316802060455302 LHYSIALVAL 10 Unmodified _LHYSIALVAL_ 0 0 0 REV__ENST00000310614.11_1_11:73575543-73575603:+|nuORF REV__ENST00000310614.11_1_11:73575543-73575603:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.328857421875 2 550.329142 1098.64373 3.4646 0.0019067 -0.13855 -7.6251E-05 3.326 0.0018304 550.3289591036944 64.364 0.28607 64.612 64.433 64.719 0.24802 30 17 2 0 0 0 0.42206 1 29513 29513 24.021 9.1823 1 1255800 + 16302 15261 10485 10509 18611 18611 0.09835479408138781 LHYSTFMS 8 Unmodified _LHYSTFMS_ 0 0 0 ENSG00000172459|ENST00000624596|OR5AR1 ENSG00000172459|ENST00000624596|OR5AR1 ENSG00000172459|ENST00000624596|OR5AR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.2279357910156 2 493.226028 984.437503 2.5121 0.001239 -0.58687 -0.00028946 1.9252 0.00094958 493.22575670950596 66.868 0.19637 67.573 67.473 67.669 0.7047 37 26 2 0 0 0 0.64692 1 31743 31743 10.183 0 1 1617700 16303 4871 10486 10510 18612 18612 -0.05533836762640476 LHYSTFMS 8 Unmodified _LHYSTFMS_ 0 0 0 ENSG00000172459|ENST00000624596|OR5AR1 ENSG00000172459|ENST00000624596|OR5AR1 ENSG00000172459|ENST00000624596|OR5AR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.22747802734375 2 493.226028 984.437503 3.3768 0.0016655 -0.36384 -0.00017946 3.013 0.0014861 493.22581866687136 66.756 0.89696 67.006 66.561 67.458 0.25011 87 51 2 0 0 0 0.64692 1 30554 30554 10.183 0 1 843450 16304 4871 10486 10510 18613 18613 -0.05533836762640476 LHYSTFMS 8 Unmodified _LHYSTFMS_ 0 0 0 ENSG00000172459|ENST00000624596|OR5AR1 ENSG00000172459|ENST00000624596|OR5AR1 ENSG00000172459|ENST00000624596|OR5AR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.227294921875 2 493.226028 984.437503 3.4318 0.0016926 -0.397 -0.00019581 3.0348 0.0014968 493.22588120146816 67.627 0.42404 67.877 67.728 68.152 0.2501 53 24 3 0 0 0 0.5047 1 30982 30982 20.871 0 1 1678200 16305 4871 10486 10510 18614 18614 -0.05533836762640476 LHYSTFMS 8 Unmodified _LHYSTFMS_ 0 0 0 ENSG00000172459|ENST00000624596|OR5AR1 ENSG00000172459|ENST00000624596|OR5AR1 ENSG00000172459|ENST00000624596|OR5AR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.22772216796875 2 493.226028 984.437503 3.2873 0.0016214 -0.22816 -0.00011254 3.0592 0.0015089 493.22591551692545 66.082 0.89969 66.738 66.348 67.248 0.65672 118 53 3 0 0 0 0.64692 1 30238 30238 10.183 0 1 976700 16306 4871 10486 10510 18615 18615 -0.05533836762640476 LHYSTFMS 8 Unmodified _LHYSTFMS_ 0 0 0 ENSG00000172459|ENST00000624596|OR5AR1 ENSG00000172459|ENST00000624596|OR5AR1 ENSG00000172459|ENST00000624596|OR5AR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.2272033691406 2 493.226028 984.437503 3.2091 0.0015828 -0.14502 -7.1528E-05 3.0641 0.0015113 493.2259794226585 67.027 0.46048 67.685 67.475 67.936 0.65777 65 25 3 0 0 0 0.64692 2 30707 30707;30754 10.183 0 1 2040200 16307 4871 10486 10510 18616;18617 18616 -0.05533836762640476 LHYSTFMS 8 Unmodified _LHYSTFMS_ 0 0 0 ENSG00000172459|ENST00000624596|OR5AR1 ENSG00000172459|ENST00000624596|OR5AR1 ENSG00000172459|ENST00000624596|OR5AR1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 493.226028 984.437503 2.5121 0.001239 -0.58687 -0.00028946 1.9252 0.00094958 493.22575670950596 66.868 0.19637 67.573 67.473 67.669 0.7047 -0.13913 -0.00028555 NaN 20.871 37 26 2 NaN NaN NaN NaN 0 NaN NaN 0 1617700 16308 4871 10486 10510 -0.05533836762640476 LHYSTFMS 8 Unmodified _LHYSTFMS_ 0 0 0 ENSG00000172459|ENST00000624596|OR5AR1 ENSG00000172459|ENST00000624596|OR5AR1 ENSG00000172459|ENST00000624596|OR5AR1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 493.226028 984.437503 3.2091 0.0015828 -0.14502 -7.1528E-05 3.0641 0.0015113 493.2259794226585 67.027 0.46048 67.685 67.475 67.936 0.65777 -0.026504 0.00015031 NaN 20.871 65 25 3 NaN NaN NaN NaN 0 NaN NaN 0 2040200 16309 4871 10486 10510 -0.05533836762640476 LIADIFGESGD 11 Unmodified _LIADIFGESGD_ 0 0 0 nc|ENSG00000163166|Q96ST2-2|IWS1;nc|ENSG00000163166|Q96ST2-3|IWS1;IWS1|p.L692Sfs*51|1|0.05|ENSG00000163166|chr2:127489918-127489919|-/T|frameshift_variant;ENSG00000163166|ENST00000295321|IWS1;ENST00000497888.1_1_2:128260300-128262356:-|nuORF nc|ENSG00000163166|Q96ST2-2|IWS1 nc|ENSG00000163166|Q96ST2-2|IWS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.7779541015625 2 568.777136 1135.53972 NaN NaN NaN NaN NaN NaN NaN 95.576 1 95.658 95.158 96.158 0.082001 0 0 0 1.0038 1 50550 50550 5.7319 0.43497 1 16310 4199 10487 10511 18618 18618 -0.022628922100238924 LIALKKYHS 9 Unmodified _LIALKKYHS_ 0 0 0 ENSG00000132740|ENST00000255078|IGHMBP2 ENSG00000132740|ENST00000255078|IGHMBP2 ENSG00000132740|ENST00000255078|IGHMBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 358.21051025390625 3 358.221965 1071.64407 NaN NaN NaN NaN NaN NaN NaN 39.023 1 39.023 38.523 39.523 0 0 0 0 0.90611 1 17710 17710 1.0715 0.67075 1 16311 2724 10488 10512 18619 18619 0.11110899127993434 LIALKKYHS 9 Unmodified _LIALKKYHS_ 0 0 0 ENSG00000132740|ENST00000255078|IGHMBP2 ENSG00000132740|ENST00000255078|IGHMBP2 ENSG00000132740|ENST00000255078|IGHMBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 358.21136474609375 3 358.221965 1071.64407 NaN NaN NaN NaN NaN NaN NaN 39.156 1 39.156 38.656 39.656 0 0 0 0 0.90611 1 17769 17769 1.0715 0.10919 1 16312 2724 10488 10512 18620 18620 0.11110899127993434 LIALKKYHS 9 Unmodified _LIALKKYHS_ 0 0 0 ENSG00000132740|ENST00000255078|IGHMBP2 ENSG00000132740|ENST00000255078|IGHMBP2 ENSG00000132740|ENST00000255078|IGHMBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 358.2110595703125 3 358.221965 1071.64407 NaN NaN NaN NaN NaN NaN NaN 39.275 1 39.275 38.775 39.775 0 0 0 0 0.90611 1 17823 17823 1.0715 0 1 16313 2724 10488 10512 18621 18621 0.11110899127993434 LIALLREGESL 11 Unmodified _LIALLREGESL_ 0 0 0 ENSG00000136167|ENST00000323076|LCP1 ENSG00000136167|ENST00000323076|LCP1 ENSG00000136167|ENST00000323076|LCP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.2424011230469 3 405.243206 1212.70779 NaN NaN NaN NaN NaN NaN NaN 79.929 1 80.179 79.679 80.679 0.24947 0 0 0 1.0072 1 36803 36803 1.3296 0.36737 1 16314 2930 10489 10513 18622 18622 0.10994214774427746 LIALLREGESL 11 Unmodified _LIALLREGESL_ 0 0 0 ENSG00000136167|ENST00000323076|LCP1 ENSG00000136167|ENST00000323076|LCP1 ENSG00000136167|ENST00000323076|LCP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.2428894042969 3 405.243206 1212.70779 NaN NaN NaN NaN NaN NaN NaN 80.275 1 80.524 80.024 81.024 0.24947 0 0 0 1.0072 1 36962 36962 1.3296 0 1 16315 2930 10489 10513 18623 18623 0.10994214774427746 LIARAGRAKIP 11 Unmodified _LIARAGRAKIP_ 0 0 0 REV__ENSG00000157423|ENST00000393567|HYDIN REV__ENSG00000157423|ENST00000393567|HYDIN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 389.2550048828125 3 389.25578 1164.74551 NaN NaN NaN NaN NaN NaN NaN 45.868 1 46.694 46.194 47.194 0.82621 0 0 0 1.0059 1 20887 20887 1.2148 0.25256 1 + 16316 12801 10490 10514 18624 18624 0.16972770550546556 LIASLAQINL 10 Unmodified _LIASLAQINL_ 0 0 0 REV__nc|ENSG00000080493|Q9Y6R1-3|SLC4A4 REV__nc|ENSG00000080493|Q9Y6R1-3|SLC4A4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.28125 2 528.326599 1054.63865 NaN NaN NaN NaN NaN NaN NaN 60.023 1 60.279 59.779 60.779 0.25578 0 0 0 0.99466 1 27486 27486 6.7232 0 1 + 16317 10593 10491 10515 18625 18625 0.11351175545496517 LIAVERHQLI 10 Unmodified _LIAVERHQLI_ 0 0 0 ENSG00000164128|ENST00000296533|NPY1R ENSG00000164128|ENST00000296533|NPY1R ENSG00000164128|ENST00000296533|NPY1R MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.9126281738281 3 397.91179 1190.71354 NaN NaN NaN NaN NaN NaN NaN 26.904 1 27.526 27.026 28.026 0.62179 0 0 0 0.98985 1 12334 12334 7.1017 1.3699 1 16318 4286 10492 10516 18626 18626 0.12581358076749893 LIDEKLEINL 10 Unmodified _LIDEKLEINL_ 0 0 0 REV__nc|ENSG00000169064|A8MT70-3|ZBBX REV__nc|ENSG00000169064|A8MT70-3|ZBBX MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.5682373046875 3 400.567578 1198.6809 2.9441 0.0011793 -0.86468 -0.00034636 2.0795 0.00083296 400.5673059574092 27.151 0.29228 27.416 27.24 27.532 0.26489 48 19 3 0 0 0 0.12676 1 12349 12349 10.899 1.6552 1 931740 + 16319 13379 10493 10517 18627 18627 0.08951106163249278 LIELRYFL 8 Unmodified _LIELRYFL_ 0 0 0 REV__ENSG00000181458|ENST00000323523|TMEM45A REV__ENSG00000181458|ENST00000323523|TMEM45A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 356.5509948730469 3 356.214699 1065.62227 2.8089 0.0010006 4.3673 0.0015557 7.1763 0.0025563 356.54971837124975 12.585 0.10123 13.228 13.176 13.278 0.64272 4 2 2 0 0 0 0.63902 1 5668 5668 10.824 2.0785 1 1959900 + 16320 13855 10494 10518 18628 18628 0.09208094379414433 LIELRYFL 8 Unmodified _LIELRYFL_ 0 0 0 REV__ENSG00000181458|ENST00000323523|TMEM45A REV__ENSG00000181458|ENST00000323523|TMEM45A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 356.214699 1065.62227 2.6782 0.000954 6.5873 0.0023465 9.2654 0.0033005 356.21706010374044 13.148 0.16228 13.148 13.036 13.199 0 -0.039723 6.1667E-05 NaN 10.824 18 8 3 NaN NaN NaN NaN 0 NaN NaN 0 377280 + 16321 13855 10494 10518 0.09208094379414433 LIELRYFL 8 Unmodified _LIELRYFL_ 0 0 0 REV__ENSG00000181458|ENST00000323523|TMEM45A REV__ENSG00000181458|ENST00000323523|TMEM45A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 356.214699 1065.62227 2.8089 0.0010006 4.3673 0.0015557 7.1763 0.0025563 356.54971837124975 12.585 0.10123 13.228 13.176 13.278 0.64272 0.039723 -0.0023107 NaN 10.824 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 1959900 + 16322 13855 10494 10518 0.09208094379414433 LIEPCPLYY 9 Unmodified _LIEPCPLYY_ 0 0 0 REV__nc|ENSG00000148288|Q8N5D6-3|GBGT1 REV__nc|ENSG00000148288|Q8N5D6-3|GBGT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.7830200195312 2 555.780636 1109.54672 3.3108 0.0018401 -0.83809 -0.00046579 2.4727 0.0013743 556.2807275999932 62.559 0.2625 63.219 63.081 63.344 0.66008 25 15 2 0 0 0 0.95612 1 28703 28703 4.756 0 1 698570 + 16323 17974 10495 10519 18629 18629 -0.003672508631780147 LIERRNVN 8 Unmodified _LIERRNVN_ 0 0 0 REV__nc|ENSG00000175054|Q13535-2|ATR REV__nc|ENSG00000175054|Q13535-2|ATR MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.24566650390625 2 507.296165 1012.57778 3.5065 0.0017788 -0.54165 -0.00027477 2.9649 0.0015041 507.2960833087936 12.91 0.16592 13.552 13.48 13.646 0.64272 7 4 2 0 0 0 0.13972 1 5819 5819 8.5933 0 1 89907 + 16324 13656 10496 10520 18630 18630 0.07199083285945562 LIFEELLHIKA 11 Unmodified _LIFEELLHIKA_ 0 0 0 ENST00000479866.5_1_12:48143124-48152369:-|nuORF;ENST00000482843.5_1_12:48142600-48152369:-|nuORF;nc|ENSG00000079337|O95398-2|RAPGEF3;nc|ENSG00000079337|O95398-3|RAPGEF3;ENSG00000079337|ENST00000449771|RAPGEF3 ENST00000479866.5_1_12:48143124-48152369:-|nuORF ENST00000479866.5_1_12:48143124-48152369:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 442.600830078125 3 442.599101 1324.77547 2.7224 0.0012049 1.0935 0.000484 3.8159 0.0016889 442.5994788676816 45.196 0.91395 46.022 45.56 46.474 0.82621 110 50 3 0 0 0 0.88721 3 20497 20497;20545;20602 1.2148 0.10508 1 987710 16325 893 10497 10521 18631;18632;18633 18631 0.12607664705228672 LIFEELLHIKA 11 Unmodified _LIFEELLHIKA_ 0 0 0 ENST00000479866.5_1_12:48143124-48152369:-|nuORF;ENST00000482843.5_1_12:48142600-48152369:-|nuORF;nc|ENSG00000079337|O95398-2|RAPGEF3;nc|ENSG00000079337|O95398-3|RAPGEF3;ENSG00000079337|ENST00000449771|RAPGEF3 ENST00000479866.5_1_12:48143124-48152369:-|nuORF ENST00000479866.5_1_12:48143124-48152369:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 332.20208740234375 4 332.201145 1324.77547 2.2738 0.00075537 0.59 0.000196 2.8638 0.00095137 332.2011344231241 45.892 0.54728 46.719 46.517 47.064 0.82621 81 26 4 0 0 0 0.88721 1 20855 20855 1.2148 0.10508 1 3405400 16326 893 10497 10521 18634 18634 0.12607664705228672 LIFLGKFVF 9 Unmodified _LIFLGKFVF_ 0 0 0 REV__ENSG00000166801|ENST00000675163|FAM111A REV__ENSG00000166801|ENST00000675163|FAM111A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.3363037109375 2 542.333696 1082.65284 NaN NaN NaN NaN NaN NaN NaN 32.005 1 32.622 32.122 33.122 0.61737 0 0 0 0.90611 1 14676 14676 2.0598 0.40713 1 + 16327 13260 10498 10522 18635 18635 0.11481872764466061 LIFLSWKFRKE 11 Unmodified _LIFLSWKFRKE_ 0 0 0 ENST00000504902.5_1_5:137902775-137902832:-|nuORF ENST00000504902.5_1_5:137902775-137902832:-|nuORF ENST00000504902.5_1_5:137902775-137902832:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 733.794677734375 2 733.929554 1465.84456 NaN NaN NaN NaN NaN NaN NaN 81.204 1 81.372 80.872 81.872 0.16862 0 0 0 1.0082 1 39882 39882 0 0 1 16328 8498 10499 10523 18636 18636 0.1302674872474654 LIFLVKRFKWI 11 Unmodified _LIFLVKRFKWI_ 0 0 0 REV__ENSG00000118246|ENST00000402774|FASTKD2 REV__ENSG00000118246|ENST00000402774|FASTKD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 731.9668579101562 2 731.968483 1461.92241 NaN NaN NaN NaN NaN NaN NaN 44.053 1 44.053 43.553 44.553 0 0 0 0 1.008 1 20104 20104 0.35063 0 1 + 16329 11466 10500 10524 18637 18637 0.20992806380832008 LIGSHPDLSF 10 Unmodified _LIGSHPDLSF_ 0 0 0 ENSG00000140961|ENST00000393306|OSGIN1 ENSG00000140961|ENST00000393306|OSGIN1 ENSG00000140961|ENST00000393306|OSGIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.2865600585938 2 543.284931 1084.55531 3.5604 0.0019343 0.72859 0.00039583 4.289 0.0023301 543.2851962968382 48.302 0.36124 48.564 48.347 48.708 0.26209 33 21 2 0 0 0 0.053995 1 22043 22043 61.357 3.6355 1 1447800 16330 3224 10501 10525 18638 18638 0.0164143909764789 LIHALVFV 8 Unmodified _LIHALVFV_ 0 0 0 REV__nc|ENSG00000169918|Q8TE49|OTUD7A REV__nc|ENSG00000169918|Q8TE49|OTUD7A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.53717041015625 3 304.528618 910.564024 NaN NaN NaN NaN NaN NaN NaN 25.914 1 26.678 26.178 27.178 0.76356 0 0 0 0.99035 1 11634 11634 1.8442 0 1 + 16331 13408 10502 10526 18639 18639 0.10516457524795442 LIHFRRIPIWM 11 Unmodified _LIHFRRIPIWM_ 0 0 0 REV__ENST00000335661.6_1_15:80263082-80263130:-|nuORF REV__ENST00000335661.6_1_15:80263082-80263130:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 741.4322509765625 2 741.431741 1480.84893 NaN NaN NaN NaN NaN NaN NaN 70.119 1 70.78 70.28 71.28 0.66071 0 0 0 1.0082 1 32150 32150 0 0 1 + 16332 15415 10503 10527 18640 18640 0.12773934666711284 LIHKRRSRKQL 11 Unmodified _LIHKRRSRKQL_ 0 0 0 REV__ENST00000559454.5_1_15:49462693-49462759:+|nuORF REV__ENST00000559454.5_1_15:49462693-49462759:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 717.960693359375 2 717.960043 1433.90553 NaN NaN NaN NaN NaN NaN NaN 40.436 1 40.436 39.936 40.936 0 0 0 0 1.008 1 18352 18352 0.35063 0 1 + 16333 17356 10504 10528 18641 18641 0.2059369854760007 LIHLLLGLRK 10 Unmodified _LIHLLLGLRK_ 0 0 0 REV__ENST00000373840.8_1_9:123942493-123942817:-|nuORF REV__ENST00000373840.8_1_9:123942493-123942817:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.4024047851562 2 588.402976 1174.7914 NaN NaN NaN NaN NaN NaN NaN 91.059 1 91.31 90.81 91.81 0.25163 0 0 0 1.002 1 41871 41871 0 0 1 + 16334 15776 10505 10529 18642 18642 0.21099415732760463 LIHMQEEE 8 Unmodified _LIHMQEEE_ 0 0 0 ENSG00000198077|ENST00000301146|CYP2A7 ENSG00000198077|ENST00000301146|CYP2A7 ENSG00000198077|ENST00000301146|CYP2A7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.7415161132812 2 514.739499 1027.46445 3.4702 0.0017863 0.14808 7.6225E-05 3.6183 0.0018625 514.7396069054682 36.856 0.52439 37.486 37.28 37.805 0.62999 47 21 3 0 0 0 0.67495 1 16829 16829 7.9102 0 1 844390 16335 5865 10506 10530 18643 18643 -0.04818772942121541 LIINKDPTL 9 Unmodified _LIINKDPTL_ 0 0 0 ENSG00000125755|ENST00000245934|SYMPK;nc|ENSG00000125755|Q92797-2|SYMPK ENSG00000125755|ENST00000245934|SYMPK ENSG00000125755|ENST00000245934|SYMPK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.3165893554688 2 513.813325 1025.6121 3.5259 0.0018116 -0.046631 -2.396E-05 3.4792 0.0017877 513.813369634253 48.966 0.21695 49.228 49.113 49.33 0.26209 11 7 2 0 0 0 0.063575 1 22391 22391 41.84 3.6641 1 647300 16336 2420 10507 10531 18644 18644 0.10031486654179389 LIINKDPTL 9 Unmodified _LIINKDPTL_ 0 0 0 ENSG00000125755|ENST00000245934|SYMPK;nc|ENSG00000125755|Q92797-2|SYMPK ENSG00000125755|ENST00000245934|SYMPK ENSG00000125755|ENST00000245934|SYMPK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8150634765625 2 513.813325 1025.6121 3.5544 0.0018263 -0.010391 -5.3391E-06 3.544 0.0018209 513.8137031768604 48.521 0.23818 49.176 48.988 49.227 0.65524 15 9 2 0 0 0 0.11458 1 22175 22175 29.082 7.3349 1 495050 16337 2420 10507 10531 18645 18645 0.10031486654179389 LIIRQARL 8 Unmodified _LIIRQARL_ 0 0 0 nc|ENSG00000107731|Q8IZJ1-2|UNC5B;ENSG00000107731|ENST00000335350|UNC5B;nc|ENSG00000156687|Q6UXZ4-2|UNC5D;ENSG00000156687|ENST00000404895|UNC5D nc|ENSG00000107731|Q8IZJ1-2|UNC5B nc|ENSG00000107731|Q8IZJ1-2|UNC5B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.5267333984375 3 328.222188 981.644734 1.6395 0.00053813 0.045453 1.4919E-05 1.685 0.00055305 328.2223459693157 12.561 0.30248 12.868 12.72 13.023 0.30727 46 11 6 0 0 0 0.073935 1 5624 5624 39.957 0 1 244340000 16338 1607 10508 10532 18646 18646 0.1531773856769405 LIIRRLHKV 9 Unmodified _LIIRRLHKV_ 0 0 0 nc|ENSG00000080503|P51531-2|SMARCA2;ENSG00000080503|ENST00000349721|SMARCA2;ENST00000592604.5_1_19:11123597-11172489:+|nuORF;nc|ENSG00000127616|P51532-5|SMARCA4;nc|ENSG00000127616|P51532-2|SMARCA4;nc|ENSG00000127616|P51532-3|SMARCA4;nc|ENSG00000127616|P51532-4|SMARCA4;ENSG00000127616|ENST00000344626|SMARCA4;ENST00000591595.5_1_19:11130023-11172489:+|nuORF;ENST00000585799.5_1_19:11132109-11172489:+|nuORF nc|ENSG00000080503|P51531-2|SMARCA2;ENST00000592604.5_1_19:11123597-11172489:+|nuORF ENST00000592604.5_1_19:11123597-11172489:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 383.2645568847656 3 383.264387 1146.77133 NaN NaN NaN NaN NaN NaN NaN 74.775 1 75.462 74.962 75.962 0.68662 0 0 0 0.91238 1 36146 36146 0.23584 0 1 16339 908;2488 10509 10533 18647 18647 0.20381664792830634 LIKEKSVF 8 Unmodified _LIKEKSVF_ 0 0 0 ENSG00000153147|ENST00000283131|SMARCA5 ENSG00000153147|ENST00000283131|SMARCA5 ENSG00000153147|ENST00000283131|SMARCA5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.2986145019531 2 482.29731 962.580068 NaN NaN NaN NaN NaN NaN NaN 27.693 1 27.955 27.455 28.455 0.26245 0 0 0 0.967 1 12592 12592 7.9102 0 1 16340 3774 10510 10534 18648 18648 0.09728118971042932 LIKEKSVF 8 Unmodified _LIKEKSVF_ 0 0 0 ENSG00000153147|ENST00000283131|SMARCA5 ENSG00000153147|ENST00000283131|SMARCA5 ENSG00000153147|ENST00000283131|SMARCA5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.29852294921875 2 482.29731 962.580068 3.0493 0.0014707 0.044446 2.1436E-05 3.0938 0.0014921 482.2972175901229 27.185 0.18252 27.807 27.726 27.908 0.62179 16 9 2 0 0 0 0.38743 1 12469 12469 29.082 5.061 1 280920 16341 3774 10510 10534 18649 18649 0.09728118971042932 LIKEQRKN 8 Unmodified _LIKEQRKN_ 0 0 0 nc|ENSG00000176225|Q86VV8-3|RTTN;ENSG00000176225|ENST00000640769|RTTN;ENST00000583043.5_1_18:67684852-67806940:-|nuORF nc|ENSG00000176225|Q86VV8-3|RTTN nc|ENSG00000176225|Q86VV8-3|RTTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.5354919433594 3 343.545219 1027.61383 2.4614 0.00084559 0.1189 4.0847E-05 2.5803 0.00088644 343.5452821734068 36.005 0.23957 36.263 36.108 36.348 0.25768 16 12 2 0 0 0 0.74709 1 16370 16370 1.3295 0 1 268040 16342 5068 10511 10535 18650 18650 0.10112540462819197 LIKHKIML 8 Unmodified _LIKHKIML_ 0 0 0 nc|ENSG00000114573|P38606-2|ATP6V1A;ENSG00000114573|ENST00000273398|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 332.5534362792969 3 332.552658 994.636143 NaN NaN NaN NaN NaN NaN NaN 23.159 1 23.435 22.935 23.935 0.27562 0 0 0 0.44558 1 10456 10456 30.637 11.38 1 16343 1913 10512 10536 18651 18651 0.1386104860686146 LIKHKIML 8 Unmodified _LIKHKIML_ 0 0 0 nc|ENSG00000114573|P38606-2|ATP6V1A;ENSG00000114573|ENST00000273398|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.553955078125 3 332.552658 994.636143 2.2729 0.00075586 0.30156 0.00010028 2.5744 0.00085614 332.5526595383869 22.657 0.17382 23.298 23.22 23.393 0.64051 36 20 3 0 0 0 0.45037 1 10311 10311 25.399 10.561 1 2256600 16344 1913 10512 10536 18652 18652 0.1386104860686146 LIKIERKIKKK 11 Unmodified _LIKIERKIKKK_ 0 0 0 REV__ENST00000460062.6_1_20:480238-524362:-|nuORF REV__ENST00000460062.6_1_20:480238-524362:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 698.9893798828125 2 698.989946 1395.96534 NaN NaN NaN NaN NaN NaN NaN 84.668 1 84.697 84.197 85.197 0.028603 0 0 0 1.0082 1 42286 42286 0 0 1 + 16345 10878 10513 10537 18653 18653 0.2831957643822989 LIKIERKIKKK 11 Unmodified _LIKIERKIKKK_ 0 0 0 REV__ENST00000460062.6_1_20:480238-524362:-|nuORF REV__ENST00000460062.6_1_20:480238-524362:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 699.0419311523438 2 698.989946 1395.96534 NaN NaN NaN NaN NaN NaN NaN 105.6 1 105.65 105.15 106.15 0.050888 0 0 0 1.0082 1 57139 57139 0 0 1 + 16346 10878 10513 10537 18654 18654 0.2831957643822989 LIKKKLILIQS 11 Unmodified _LIKKKLILIQS_ 0 0 0 REV__nc|ENSG00000174776|Q8IV35-2|CFAP337 REV__nc|ENSG00000174776|Q8IV35-2|CFAP337 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 648.9533081054688 2 648.952498 1295.89044 NaN NaN NaN NaN NaN NaN NaN 16.768 1 17.427 16.927 17.927 0.6586 0 0 0 1.0082 1 7559 7559 0 0 1 + 16347 13645 10514 10538 18655 18655 0.25433393907042046 LIKKLEASSKK 11 Unmodified _LIKKLEASSKK_ 0 0 0 REV__ENST00000560591.5_1_15:67835673-67951132:+|nuORF REV__ENST00000560591.5_1_15:67835673-67951132:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 622.8506469726562 2 622.900463 1243.78637 NaN NaN NaN NaN NaN NaN NaN 56.352 1 57.13 56.63 57.63 0.77786 0 0 0 1.0061 1 25762 25762 2.7352 0 1 + 16348 12126 10515 10539 18656 18656 0.17423067079494103 LIKKLIIFILK 11 Unmodified _LIKKLIIFILK_ 0 0 0 ENST00000531550.1_1_11:118007744-118012097:-|nuORF;nc|ENSG00000177098|Q8IWT1-3|SCN4B;nc|ENSG00000177098|Q8IWT1-2|SCN4B;ENSG00000177098|ENST00000324727|SCN4B ENST00000531550.1_1_11:118007744-118012097:-|nuORF ENST00000531550.1_1_11:118007744-118012097:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 671.4819946289062 2 671.483434 1340.95232 NaN NaN NaN NaN NaN NaN NaN 99.047 1 99.113 98.613 99.613 0.066025 0 0 0 1.0082 1 53429 53429 0 0 1 16349 5102 10516 10540 18657 18657 0.2954774532618103 LIKLQRKRLPA 11 Unmodified _LIKLQRKRLPA_ 0 0 0 REV__ENST00000458345.5_2_10:104858695-104859708:-|nuORF REV__ENST00000458345.5_2_10:104858695-104859708:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.72967529296875 4 334.729132 1334.88742 2.1558 0.0007216 -0.76571 -0.00025631 1.3901 0.00046529 334.7286326215428 33.507 0.33903 34.128 33.992 34.332 0.62031 17 11 3 0 0 0 0.91459 1 15382 15382 0.094841 0.094841 1 338380 + 16350 16468 10517 10541 18658 18658 0.2333756357288621 LIKLRELHL 9 Unmodified _LIKLRELHL_ 0 0 0 ENSG00000146006|ENST00000274711|LRRTM2 ENSG00000146006|ENST00000274711|LRRTM2 ENSG00000146006|ENST00000274711|LRRTM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.5792846679688 2 567.871508 1133.72846 NaN NaN NaN NaN NaN NaN NaN 89.69 1 89.69 89.19 90.19 0 0 0 0 0.89683 1 46920 46920 4.3292 0.38484 1 16351 3500 10518 10542 18659 18659 0.16694849944747148 LIKLYHEVPSL 11 Unmodified _LIKLYHEVPSL_ 0 0 0 REV__MSH3|p.R938Yfs*14|1|0.07|ENSG00000113318|chr5:80813738-80813739|-/TTATTGTACCAGA|frameshift_variant REV__MSH3|p.R938Yfs*14|1|0.07|ENSG00000113318|chr5:80813738-80813739|-/TTATTGTACCAGA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 438.26409912109375 3 437.927218 1310.75982 3.0351 0.0013292 0.95796 0.00041952 3.9931 0.0017487 437.9274949958067 38.749 0.72941 39.386 38.92 39.649 0.63778 70 26 3 0 0 0 0.91111 1 17765 17765 0.40827 0 1 744430 + 16352 11296 10519 10543 18660 18660 0.11687378188184994 LIKMVTRHVTR 11 Unmodified _LIKMVTRHVTR_ 0 0 0 ENSG00000151779|ENST00000281513|NBAS;nc|ENSG00000151779|A2RRP1-2|NBAS ENSG00000151779|ENST00000281513|NBAS ENSG00000151779|ENST00000281513|NBAS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 339.2098693847656 4 339.209141 1352.80746 1.7534 0.00059477 0.6893 0.00023382 2.4427 0.00082859 339.2092137684839 51.719 0.30909 52.529 52.312 52.622 0.81065 37 17 3 0 0 0 0.91345 1 23549 23549 0.45452 0.45452 1 540850 16353 3728 10520 10544 18661 18661 0.14516753907378188 LIKMVTRHVTR 11 Unmodified _LIKMVTRHVTR_ 0 0 0 ENSG00000151779|ENST00000281513|NBAS;nc|ENSG00000151779|A2RRP1-2|NBAS ENSG00000151779|ENST00000281513|NBAS ENSG00000151779|ENST00000281513|NBAS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 339.209141 1352.80746 2.3672 0.00080298 0.68123 0.00023108 3.0484 0.0010341 339.2093005882795 52.673 0.39714 52.673 52.569 52.966 0 0.10738 6.4048E-05 NaN 0.45452 59 30 3 NaN NaN NaN NaN 0 NaN NaN 0 718450 16354 3728 10520 10544 0.14516753907378188 LIKMVTRHVTR 11 Unmodified _LIKMVTRHVTR_ 0 0 0 ENSG00000151779|ENST00000281513|NBAS;nc|ENSG00000151779|A2RRP1-2|NBAS ENSG00000151779|ENST00000281513|NBAS ENSG00000151779|ENST00000281513|NBAS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 339.209141 1352.80746 2.4511 0.00083142 0.41062 0.00013929 2.8617 0.00097071 339.2092213310885 52.38 0.77131 52.644 52.24 53.011 0.26345 0.078191 -0.00030312 NaN 0.45452 71 38 3 NaN NaN NaN NaN 0 NaN NaN 0 1024600 16355 3728 10520 10544 0.14516753907378188 LIKMVTRHVTR 11 Unmodified _LIKMVTRHVTR_ 0 0 0 ENSG00000151779|ENST00000281513|NBAS;nc|ENSG00000151779|A2RRP1-2|NBAS ENSG00000151779|ENST00000281513|NBAS ENSG00000151779|ENST00000281513|NBAS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 339.209141 1352.80746 2.1607 0.00073295 0.86942 0.00029492 3.0302 0.0010279 339.2094555561341 51.754 0.56014 52.416 52.125 52.685 0.66198 -0.14942 0.00031939 NaN 0.45452 46 31 2 NaN NaN NaN NaN 0 NaN NaN 0 561650 16356 3728 10520 10544 0.14516753907378188 LILEEIETI 9 Unmodified _LILEEIETI_ 0 0 0 ENSG00000179841|ENST00000394718|AKAP5 ENSG00000179841|ENST00000394718|AKAP5 ENSG00000179841|ENST00000394718|AKAP5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.1637573242188 2 536.810448 1071.60634 3.2055 0.0017207 2.1823 0.0011715 5.3877 0.0028922 537.313339866108 51.513 0.14429 51.513 51.4 51.544 0 11 6 2 0 0 0 0.071132 1 23565 23565 36.044 0 1 252640 16357 5231 10521 10545 18662 18662 0.07340343351870615 LILFYLLKL 9 Unmodified _LILFYLLKL_ 0 0 0 REV__HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|391|3|anti-sense REV__HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|391|3|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.3995971679688 2 568.378103 1134.74165 NaN NaN NaN NaN NaN NaN NaN 93.771 1 93.857 93.357 94.357 0.086212 0 0 0 0.90511 1 49203 49203 2.3027 0.9732 1 + 16358 17735 10522 10546 18663 18663 0.17967288004138027 LILILYRPF 9 Unmodified _LILILYRPF_ 0 0 0 REV__ENST00000407073.5_2_2:149216331-149221335:+|nuORF REV__ENST00000407073.5_2_2:149216331-149221335:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.3644409179688 2 574.365527 1146.7165 NaN NaN NaN NaN NaN NaN NaN 61.505 1 61.758 61.258 62.258 0.25245 0 0 0 0.90511 1 28166 28166 2.3027 0.4585 1 + 16359 16075 10523 10547 18664 18664 0.14901233201567265 LILKFIILILN 11 Unmodified _LILKFIILILN_ 0 0 0 ENST00000220531.7_1_15:45898790-45898961:+|nuORF ENST00000220531.7_1_15:45898790-45898961:+|nuORF ENST00000220531.7_1_15:45898790-45898961:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 657.0364379882812 2 656.951967 1311.88938 NaN NaN NaN NaN NaN NaN NaN 107.46 1 107.46 106.96 107.96 0 0 0 0 1.0082 1 58938 58938 0 0 1 16360 6417 10524 10548 18665 18665 0.245911795381744 LILKQGDPKL 10 Unmodified _LILKQGDPKL_ 0 0 0 REV__nc|ENSG00000189308|Q6MZP7-5|LIN54 REV__nc|ENSG00000189308|Q6MZP7-5|LIN54 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 375.2393493652344 3 375.572775 1123.69649 NaN NaN NaN NaN NaN NaN NaN 31.72 1 32.508 32.008 33.008 0.78795 0 0 0 1.0011 1 14330 14330 0.77653 0.078866 1 + 16361 14180 10525 10549 18666 18666 0.13959437470953162 LILLPMSE 8 Unmodified _LILLPMSE_ 0 0 0 ENST00000598479.1_1_19:52918141-52918324:+|nuORF ENST00000598479.1_1_19:52918141-52918324:+|nuORF ENST00000598479.1_1_19:52918141-52918324:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 458.2646789550781 2 458.264622 914.514691 1.4955 0.00068532 -1.3243 -0.0006069 0.17114 7.8427E-05 458.26379374074276 100.62 0.67388 100.68 100.59 101.27 0.059723 60 35 2 0 0 0 0.74071 3 54607 54607;54681;54851 2.5775 0 1 5009000 16362 9290 10526 10550 18667;18668;18669 18667 0.05401381453691556 LILSKGKIVH 10 Unmodified _LILSKGKIVH_ 0 0 0 CON__Q1A7A4 CON__Q1A7A4 CON__Q1A7A4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.307373046875 2 554.366059 1106.71756 NaN NaN NaN NaN NaN NaN NaN 60.909 1 60.909 60.409 61.409 0 0 0 0 0.99464 1 28366 28366 6.2058 2.2614 1 + 16363 226 10527 10551 18670 18670 0.1684744757048975 LILSWFLAFLS 11 Unmodified _LILSWFLAFLS_ 0 0 0 ENST00000443016.1_1_10:11607160-11607337:-|nuORF ENST00000443016.1_1_10:11607160-11607337:-|nuORF ENST00000443016.1_1_10:11607160-11607337:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.5933532714844 3 437.256675 1308.7482 3.559 0.0015562 0.85262 0.00037281 4.4116 0.001929 437.2569287342316 94.44 0.9575 94.699 94.569 95.527 0.25975 86 55 2 0 0 0 0.91345 1 43466 43466 0.45452 0 1 643350 16364 7951 10528 10552 18671 18671 0.10617181164843714 LILSWFLAFLS 11 Unmodified _LILSWFLAFLS_ 0 0 0 ENST00000443016.1_1_10:11607160-11607337:-|nuORF ENST00000443016.1_1_10:11607160-11607337:-|nuORF ENST00000443016.1_1_10:11607160-11607337:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2585754394531 3 437.256675 1308.7482 3.2673 0.0014286 1.1038 0.00048263 4.3711 0.0019113 437.2568458273122 94.154 0.73035 94.785 94.581 95.311 0.63115 84 43 3 0 0 0 0.91345 1 43496 43496 0.45452 0 1 476280 16365 7951 10528 10552 18672 18672 0.10617181164843714 LILVLKKILRI 11 Unmodified _LILVLKKILRI_ 0 0 0 ENST00000392396.7_2_3:195796375-195798346:-|nuORF ENST00000392396.7_2_3:195796375-195798346:-|nuORF ENST00000392396.7_2_3:195796375-195798346:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 661.486328125 2 661.486508 1320.95846 NaN NaN NaN NaN NaN NaN NaN 25.475 1 25.475 24.975 25.975 0 0 0 0 1.0082 1 11439 11439 0 0 1 16366 7514 10529 10553 18673 18673 0.3108226355768693 LILVLKKILRI 11 Unmodified _LILVLKKILRI_ 0 0 0 ENST00000392396.7_2_3:195796375-195798346:-|nuORF ENST00000392396.7_2_3:195796375-195798346:-|nuORF ENST00000392396.7_2_3:195796375-195798346:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 661.6542358398438 2 661.486508 1320.95846 NaN NaN NaN NaN NaN NaN NaN 79.512 1 79.512 79.012 80.012 0 0 0 0 1.0082 1 39296 39296 0 0 1 16367 7514 10529 10553 18674 18674 0.3108226355768693 LILWKHLKL 9 Unmodified _LILWKHLKL_ 0 0 0 REV__MER33_dup8870|chr20:7153349-7153656:+|1.1534418070234096|0.0031684830289868|8.51|501.0|15|3|sense REV__MER33_dup8870|chr20:7153349-7153656:+|1.1534418070234096|0.0031684830289868|8.51|501.0|15|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 388.59478759765625 3 388.593622 1162.75904 2.8168 0.0010946 1.4213 0.0005523 4.2381 0.0016469 388.5938305727102 60.593 0.23495 61.256 61.087 61.322 0.66261 18 11 3 0 0 0 1.129 1 27736 27736 0.96228 0 1 482080 + 16368 17828 10530 10554 18675 18675 0.18416628329782725 LILWKHLKL 9 Unmodified _LILWKHLKL_ 0 0 0 REV__MER33_dup8870|chr20:7153349-7153656:+|1.1534418070234096|0.0031684830289868|8.51|501.0|15|3|sense REV__MER33_dup8870|chr20:7153349-7153656:+|1.1534418070234096|0.0031684830289868|8.51|501.0|15|3|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 388.5669860839844 3 388.593622 1162.75904 2.8168 0.0010946 1.4213 0.0005523 4.2381 0.0016469 388.5938305727102 60.593 0.23495 61.256 61.087 61.322 0.66261 18 11 3 0 0 0 0.11293 1 27747 27747 0.96228 0.72643 1 482080 + 16369 17828 10530 10554 18676 18676 0.18416628329782725 LINLKYLSL 9 Unmodified _LINLKYLSL_ 0 0 0 ENSG00000164342|ENST00000296795|TLR3;chr4:186082550-186082743|473|10.7|0.4|4.75|+|ENST00000513189|TLR3,TLR3;nc|ENSG00000164342|O15455-2|TLR3 ENSG00000164342|ENST00000296795|TLR3 ENSG00000164342|ENST00000296795|TLR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.8406982421875 2 538.839342 1075.66413 3.1558 0.0017004 0.35527 0.00019143 3.511 0.0018919 538.83916343592 77.655 0.17441 78.318 78.26 78.434 0.66303 22 10 3 0 0 0 0.019364 1 35812 35812 69.105 23.084 1 563820 16370 4308 10531 10555 18677 18677 0.12932650067932627 LINYYPPK 8 Unmodified _LINYYPPK_ 0 0 0 REV__nc|ENSG00000121989|P27037-2|ACVR2A REV__nc|ENSG00000121989|P27037-2|ACVR2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.28118896484375 2 504.28166 1006.54877 NaN NaN NaN NaN NaN NaN NaN 30.761 1 31.018 30.518 31.518 0.25614 0 0 0 0.99035 1 13999 13999 2.3027 0.24298 1 + 16371 11570 10532 10556 18678 18678 0.045755459369502205 LIPFLVFLFIV 11 Unmodified _LIPFLVFLFIV_ 0 0 0 nc|ENSG00000137571|Q9H2Y9-3|SLCO5A1;nc|ENSG00000137571|Q9H2Y9-2|SLCO5A1;ENSG00000137571|ENST00000260126|SLCO5A1 nc|ENSG00000137571|Q9H2Y9-3|SLCO5A1 nc|ENSG00000137571|Q9H2Y9-3|SLCO5A1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 440.7829895019531 3 440.949182 1319.82572 2.2668 0.00099954 1.8856 0.00083147 4.1524 0.001831 440.9496194459873 72.41 0.038574 72.41 72.391 72.429 0 5 3 2 0 0 0 0.13295 1 35230 35230 3.0723 0 1 489190 16372 3026 10533 10557 18679 18679 0.17859819101022367 LIQDNPKL 8 Unmodified _LIQDNPKL_ 0 0 0 REV__nc|ENSG00000156110|P55263-3|ADK REV__nc|ENSG00000156110|P55263-3|ADK MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.7424011230469 2 470.776742 939.538931 2.8464 0.00134 0.21894 0.00010307 3.0654 0.0014431 470.7766935304938 32.804 0.19981 33.422 33.352 33.551 0.61831 9 7 2 0 0 0 0.141 1 15040 15040 6.7232 2.3939 1 97743 + 16373 12764 10534 10558 18680 18680 0.0667435793156983 LIQLLHKKK 9 Unmodified _LIQLLHKKK_ 0 0 0 REV__nc|ENSG00000131951|Q6ZRR7-2|LRRC9 REV__nc|ENSG00000131951|Q6ZRR7-2|LRRC9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.8858642578125 2 560.881876 1119.7492 NaN NaN NaN NaN NaN NaN NaN 94.48 1 94.48 93.98 94.98 0 0 0 0 0.90611 1 50692 50692 2.0598 0.21551 1 + 16374 11870 10535 10559 18681 18681 0.19411440324415707 LIRCHIWRTRS 11 Unmodified _LIRCHIWRTRS_ 0 0 0 REV__L1HS_dup1616|chr22:28663284-28669315:+|1.1217790905042195|0.2468976263073953|2.18|496.0|136|3|sense REV__L1HS_dup1616|chr22:28663284-28669315:+|1.1217790905042195|0.2468976263073953|2.18|496.0|136|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 721.3732299804688 2 720.903879 1439.79321 NaN NaN NaN NaN NaN NaN NaN 102.78 1 102.78 102.28 103.28 0 0 0 0 1.0073 1 56711 56711 1.1933 0 1 + 16375 17753 10536 10560 18682 18682 0.09090101479068835 LIRDIEIKRK 10 Unmodified _LIRDIEIKRK_ 0 0 0 REV__MYO1E|p.E819D|1|0.17|ENSG00000157483|chr15:59171920-59171920|T/A|missense_variant REV__MYO1E|p.E819D|1|0.17|ENSG00000157483|chr15:59171920-59171920|T/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 642.6920776367188 2 642.411529 1282.8085 NaN NaN NaN NaN NaN NaN NaN 94.207 1 94.293 93.793 94.793 0.086212 0 0 0 0.9952 1 49502 49502 5.7319 2.4505 1 + 16376 17846 10537 10561 18683 18683 0.17841291547915716 LIRFLPSSLEI 11 Unmodified _LIRFLPSSLEI_ 0 0 0 ENST00000436893.1_1_X:38660859-38660934:-|nuORF ENST00000436893.1_1_X:38660859-38660934:-|nuORF ENST00000436893.1_1_X:38660859-38660934:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 644.3900756835938 2 644.387188 1286.75982 NaN NaN NaN NaN NaN NaN NaN 33.916 1 34.536 34.036 35.036 0.62031 0 0 0 1.0059 1 15540 15540 2.9952 0 1 16377 7901 10538 10562 18684 18684 0.12791378188194358 LIRIRKLTLKR 11 Unmodified _LIRIRKLTLKR_ 0 0 0 ENST00000520763.5_1_8:33342724-33346658:+|nuORF;ENSG00000198042|ENST00000360128|MAK16 ENST00000520763.5_1_8:33342724-33346658:+|nuORF ENST00000520763.5_1_8:33342724-33346658:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 705.4952392578125 2 705.493188 1408.97182 NaN NaN NaN NaN NaN NaN NaN 40.654 1 40.654 40.154 41.154 0 0 0 0 1.0082 1 18456 18456 0.35063 0.35063 1 16378 5861 10539 10563 18685 18685 0.28369514389623873 LIRIRRRIKVK 11 Unmodified _LIRIRRRIKVK_ 0 0 0 REV__nc|ENSG00000105479|Q96M63-5|ODAD1 REV__nc|ENSG00000105479|Q96M63-5|ODAD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 726.0374755859375 2 726.012079 1450.0096 NaN NaN NaN NaN NaN NaN NaN 90.296 1 90.548 90.048 91.048 0.25137 0 0 0 1.008 1 41524 41524 0.35063 0.35063 1 + 16379 11036 10540 10564 18686 18686 0.3026002537505974 LIRITRPP 8 Unmodified _LIRITRPP_ 0 0 0 ENST00000481501.1_1_17:27042472-27042902:-|nuORF ENST00000481501.1_1_17:27042472-27042902:-|nuORF ENST00000481501.1_1_17:27042472-27042902:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.303955078125 2 483.316369 964.618185 NaN NaN NaN NaN NaN NaN NaN 103.13 1 103.18 102.68 103.68 0.055092 0 0 0 0.99035 1 55938 55938 0.79363 0 1 16380 8294 10541 10565 18687 18687 0.13446049676349503 LIRKKKEKKK 10 Unmodified _LIRKKKEKKK_ 0 0 0 REV__ENST00000531243.2_1_1:40041726-40042359:-|nuORF REV__ENST00000531243.2_1_1:40041726-40042359:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 649.9530639648438 2 649.953364 1297.89217 NaN NaN NaN NaN NaN NaN NaN 32.257 1 33.045 32.545 33.545 0.78795 0 0 0 1.0015 1 14588 14588 0.45834 0.10771 1 + 16381 16410 10542 10566 18688 18688 0.2551444771561364 LIRLLKQKLKK 11 Unmodified _LIRLLKQKLKK_ 0 0 0 ENST00000584588.5_1_17:38027782-38031519:+|nuORF ENST00000584588.5_1_17:38027782-38031519:+|nuORF ENST00000584588.5_1_17:38027782-38031519:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 690.9910278320312 2 690.992489 1379.97043 NaN NaN NaN NaN NaN NaN NaN 55.548 1 55.548 55.048 56.048 0 0 0 0 1.0082 1 25537 25537 0 0 1 16382 9168 10543 10567 18689 18689 0.29563880300861456 LIRPLLSVWA 10 Unmodified _LIRPLLSVWA_ 0 0 0 REV__ENST00000479825.1_1_3:57198960-57199332:-|nuORF REV__ENST00000479825.1_1_3:57198960-57199332:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.24884033203125 3 389.913131 1166.71756 2.89 0.0011269 1.1064 0.0004314 3.9964 0.0015583 389.91349240095167 36.3 0.59729 36.557 36.271 36.868 0.25768 56 25 3 0 0 0 0.93628 1 16518 16518 0.69767 0.46182 1 774750 + 16383 16681 10544 10568 18690 18690 0.14087447570477707 LIRRKIWF 8 Unmodified _LIRRKIWF_ 0 0 0 REV__nc|ENSG00000162594|Q5VWK5-5|IL23R REV__nc|ENSG00000162594|Q5VWK5-5|IL23R MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.8955993652344 3 377.909833 1130.70767 2.7728 0.0010479 -1.4715 -0.00055609 1.3013 0.00049177 377.9094836528305 15.011 0.29747 15.664 15.576 15.874 0.65356 33 25 2 0 0 0 0.14244 1 6728 6728 3.5965 1.3137 1 52837 + 16384 18001 10545 10569 18691 18691 0.14754304355733439 LIRVHLMV 8 Unmodified _LIRVHLMV_ 0 0 0 ENSG00000145934|ENST00000518659|TENM2;nc|ENSG00000145934|Q9NT68-2|TENM2 ENSG00000145934|ENST00000518659|TENM2 ENSG00000145934|ENST00000518659|TENM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 490.80908203125 2 490.807322 979.600092 3.1842 0.0015628 0.38866 0.00019076 3.5729 0.0017536 490.8075334559529 49.708 0.29887 49.97 49.782 50.081 0.26146 21 12 2 0 0 0 0.65723 1 22725 22725 9.3474 0 1 458710 16385 3497 10546 10570 18692 18692 0.1094759143002193 LIRVHLMV 8 Unmodified _LIRVHLMV_ 0 0 0 ENSG00000145934|ENST00000518659|TENM2;nc|ENSG00000145934|Q9NT68-2|TENM2 ENSG00000145934|ENST00000518659|TENM2 ENSG00000145934|ENST00000518659|TENM2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 490.807322 979.600092 3.1842 0.0015628 0.38866 0.00019076 3.5729 0.0017536 490.8075334559529 49.708 0.29887 49.97 49.782 50.081 0.26146 0.083459 0.00031804 NaN 9.3474 21 12 2 NaN NaN NaN NaN 0 NaN NaN 0 458710 16386 3497 10546 10570 0.1094759143002193 LIRVHLMV 8 Unmodified _LIRVHLMV_ 0 0 0 ENSG00000145934|ENST00000518659|TENM2;nc|ENSG00000145934|Q9NT68-2|TENM2 ENSG00000145934|ENST00000518659|TENM2 ENSG00000145934|ENST00000518659|TENM2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 490.807322 979.600092 3.2942 0.0016168 -0.091629 -4.4972E-05 3.2026 0.0015719 490.807273561502 49.147 0.21866 49.803 49.664 49.883 0.65524 -0.083459 -0.00015342 NaN 9.3474 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 550450 16387 3497 10546 10570 0.1094759143002193 LISKKKKKKKK 11 Unmodified _LISKKKKKKKK_ 0 0 0 ENST00000359660.9_1_5:107195069-107195318:-|nuORF ENST00000359660.9_1_5:107195069-107195318:-|nuORF ENST00000359660.9_1_5:107195069-107195318:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 678.955078125 2 678.992489 1355.97043 NaN NaN NaN NaN NaN NaN NaN 98.976 1 99.573 99.073 100.07 0.59748 0 0 0 1.008 1 45717 45717 0.35063 0.35063 1 16388 7205 10547 10571 18693 18693 0.3066788030087082 LISVFLPHA 9 Unmodified _LISVFLPHA_ 0 0 0 ENST00000461154.1_1_19:51206993-51207275:-|nuORF ENST00000461154.1_1_19:51206993-51207275:-|nuORF ENST00000461154.1_1_19:51206993-51207275:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.8669128417969 3 332.867411 995.580402 NaN NaN NaN NaN NaN NaN NaN 12.504 1 13.147 12.647 13.647 0.64272 0 0 0 0.89451 1 5609 5609 4.897 0 1 16389 8078 10548 10572 18694 18694 0.08243538690896912 LITNLKRKD 9 Unmodified _LITNLKRKD_ 0 0 0 REV__Harlequin-int_dup274|chr7:135172831-135173811:+|1.6690129096142616|0.3270592348791503|2.35|542.0|57|2|anti-sense REV__Harlequin-int_dup274|chr7:135172831-135173811:+|1.6690129096142616|0.3270592348791503|2.35|542.0|57|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.842041015625 2 550.842948 1099.67134 NaN NaN NaN NaN NaN NaN NaN 55.491 1 56.278 55.778 56.778 0.78711 0 0 0 0.90699 1 25337 25337 1.8442 0 1 + 16390 17710 10549 10573 18695 18695 0.12549382668385078 LIVKQKIRMVV 11 Unmodified _LIVKQKIRMVV_ 0 0 0 REV__ENST00000461221.5_1_17:41245833-41245896:-|nuORF REV__ENST00000461221.5_1_17:41245833-41245896:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.9412231445312 2 663.936325 1325.8581 NaN NaN NaN NaN NaN NaN NaN 104.67 1 105.26 104.76 105.76 0.59885 0 0 0 1.008 1 48348 48348 0.30703 0.03801 1 + 16391 16491 10550 10574 18696 18696 0.20820283232365 LIVLGWWEVVL 11 Unmodified _LIVLGWWEVVL_ 0 0 0 REV__ENST00000486831.5_1_3:138189538-138191915:+|nuORF REV__ENST00000486831.5_1_3:138189538-138191915:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.8971557617188 2 663.894649 1325.77475 4.1405 0.0027489 0.9158 0.00060799 5.0563 0.0033569 663.8952908456082 93.364 0.79803 93.995 93.698 94.496 0.63115 106 38 4 0 0 0 0.91359 1 43021 43021 1.1933 1.1933 1 2955600 + 16392 16757 10551 10575 18697 18697 0.12488870056154155 LIWEVWMPFV 10 Unmodified _LIWEVWMPFV_ 0 0 0 ENSG00000100109|ENST00000407690|TFIP11 ENSG00000100109|ENST00000407690|TFIP11 ENSG00000100109|ENST00000407690|TFIP11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 660.8531494140625 2 660.346477 1318.6784 4.1548 0.0027436 1.9043 0.0012575 6.0591 0.0040011 660.3476968760299 103.17 0.042206 103.77 103.75 103.79 0.59821 10 4 3 0 0 0 0.94217 1 47730 47730 0.45834 0.057624 1 740830 16393 1178 10552 10576 18698 18698 0.031809792245439894 LIWKIRDYKRR 11 Unmodified _LIWKIRDYKRR_ 0 0 0 nc|ENSG00000131323|Q13114-2|TRAF3;ENSG00000131323|ENST00000392745|TRAF3 nc|ENSG00000131323|Q13114-2|TRAF3 nc|ENSG00000131323|Q13114-2|TRAF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 773.9672241210938 2 773.970077 1545.9256 NaN NaN NaN NaN NaN NaN NaN 65.991 1 65.991 65.491 66.491 0 0 0 0 1.008 1 31478 31478 0.26902 0.26902 1 16394 2652 10553 10577 18699 18699 0.17447449487508493 LIWKYYQKQLA 11 Unmodified _LIWKYYQKQLA_ 0 0 0 REV__CHD2|p.N1397Tfs*9|1|0.25|ENSG00000173575|chr15:93002227-93002227|G/-|frameshift_variant;REV__nc|ENSG00000153922|O14646-2|CHD1 REV__nc|ENSG00000153922|O14646-2|CHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 727.4140014648438 2 727.413737 1452.81292 NaN NaN NaN NaN NaN NaN NaN 104.81 1 105.13 104.63 105.63 0.31863 0 0 0 1.008 1 48381 48381 0.35063 0 1 + 16395 10004;12688 10554 10578 18700 18700 0.10462755970843318 LIYEQVVAHL 10 Unmodified _LIYEQVVAHL_ 0 0 0 REV__ENSG00000065308|ENST00000182527|TRAM2 REV__ENSG00000065308|ENST00000182527|TRAM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.8963317871094 3 395.560646 1183.66011 2.9567 0.0011695 0.36574 0.00014467 3.3224 0.0013142 395.5608189288298 64.701 0.24496 64.95 64.903 65.148 0.24802 30 19 2 0 0 0 0.83621 1 29654 29654 3.5871 1.3043 1 1612400 + 16396 10428 10555 10579 18701 18701 0.07562560574228883 LIYEQVVAHL 10 Unmodified _LIYEQVVAHL_ 0 0 0 REV__ENSG00000065308|ENST00000182527|TRAM2 REV__ENSG00000065308|ENST00000182527|TRAM2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 395.560646 1183.66011 2.9567 0.0011695 0.36574 0.00014467 3.3224 0.0013142 395.5608189288298 64.701 0.24496 64.95 64.903 65.148 0.24802 -0.089896 -0.00028649 NaN 3.5871 30 19 2 NaN NaN NaN NaN 0 NaN NaN 0 1612400 + 16397 10428 10555 10579 0.07562560574228883 LIYILYKLGFF 11 Unmodified _LIYILYKLGFF_ 0 0 0 ENSG00000161638|ENST00000293379|ITGA5 ENSG00000161638|ENST00000293379|ITGA5 ENSG00000161638|ENST00000293379|ITGA5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 695.4105834960938 2 695.412675 1388.8108 NaN NaN NaN NaN NaN NaN NaN 34.019 1 34.019 33.519 34.519 0 0 0 0 1.0034 1 15417 15417 6.2058 1.8765 1 16398 4100 10556 10580 18702 18702 0.13194327233009062 LKALERKL 8 Unmodified _LKALERKL_ 0 0 0 nc|ENSG00000172752|A8TX70-2|COL6A5;ENSG00000172752|ENST00000373157|COL6A5;nc|ENSG00000172752|A8TX70|COL6A5 nc|ENSG00000172752|A8TX70-2|COL6A5 nc|ENSG00000172752|A8TX70-2|COL6A5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.21856689453125 3 324.218443 969.633501 2.1382 0.00069323 0.012032 3.9009E-06 2.1502 0.00069713 324.2183670568919 16.403 0.21965 16.708 16.558 16.778 0.30438 36 23 2 0 0 0 0.7471 1 7446 7446 1.1933 0 1 60262 16399 4888 10557 10581 18703 18703 0.1474691647357531 LKARRAQVKHR 11 Unmodified _LKARRAQVKHR_ 0 0 0 ENSG00000076924|ENST00000358368|XAB2;XAB2|p.F209Sfs*78|1|0.15|ENSG00000076924|chr19:7626167-7626167|A/-|frameshift_variant;ENST00000595288.5_1_19:7692592-7692715:-|nuORF ENSG00000076924|ENST00000358368|XAB2 ENSG00000076924|ENST00000358368|XAB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.4784851074219 4 341.469281 1361.84802 2.4905 0.00085043 -4.4004 -0.0015026 -1.9099 -0.00065216 341.71887789322375 37.82 0.26115 38.081 37.951 38.212 0.26083 10 8 2 0 0 0 0.91104 1 17238 17238 1.2148 0.80657 1 162360 16400 851 10558 10582 18704 18704 0.18156856342011451 LKATPVPV 8 Unmodified _LKATPVPV_ 0 0 0 REV__nc|ENSG00000116678|P48357-5|LEPR REV__nc|ENSG00000116678|P48357-5|LEPR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.76666259765625 2 412.765646 823.516739 3.1015 0.0012802 0.4571 0.00018868 3.5586 0.0014689 412.76635134382485 46.541 0.47142 46.806 46.509 46.98 0.26561 27 16 2 0 0 0 0.74709 1 21209 21209 2.0598 0 1 517130 + 16401 11411 10559 10583 18705 18705 0.09792178253815109 LKATPVPV 8 Unmodified _LKATPVPV_ 0 0 0 REV__nc|ENSG00000116678|P48357-5|LEPR REV__nc|ENSG00000116678|P48357-5|LEPR MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 412.765646 823.516739 2.5479 0.0010517 1.4427 0.00059551 3.9906 0.0016472 412.7663026230655 46.825 0.29673 46.825 46.646 46.943 0 0.013224 0.00032962 NaN 2.0598 17 9 2 NaN NaN NaN NaN 0 NaN NaN 0 495030 + 16402 11411 10559 10583 0.09792178253815109 LKATPVPV 8 Unmodified _LKATPVPV_ 0 0 0 REV__nc|ENSG00000116678|P48357-5|LEPR REV__nc|ENSG00000116678|P48357-5|LEPR MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 412.765646 823.516739 2.6517 0.0010945 1.706 0.00070417 4.3576 0.0017987 412.7670084652774 45.977 0.44367 46.804 46.647 47.091 0.82621 -0.0080751 0.00054695 NaN 2.0598 31 21 2 NaN NaN NaN NaN 0 NaN NaN 0 666990 + 16403 11411 10559 10583 0.09792178253815109 LKDGLRVLIPM 11 Unmodified _LKDGLRVLIPM_ 0 0 0 ENSG00000182095|ENST00000430969|TNRC18 ENSG00000182095|ENST00000430969|TNRC18 ENSG00000182095|ENST00000430969|TNRC18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 314.4455261230469 4 314.445517 1253.75296 2.0587 0.00064735 -1.0349 -0.00032541 1.0238 0.00032194 314.4451128300584 54.665 0.25704 55.331 55.301 55.558 0.6665 29 18 2 0 0 0 0.91137 1 25044 25044 1.1098 0.33322 1 1798400 16404 5310 10560 10584 18706 18706 0.13623742035974828 LKDRKPWQVI 10 Unmodified _LKDRKPWQVI_ 0 0 0 REV__nc|ENSG00000173120|Q9Y2K7-5|KDM2A REV__nc|ENSG00000173120|Q9Y2K7-5|KDM2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.8868408203125 2 641.885147 1281.75574 NaN NaN NaN NaN NaN NaN NaN 90.957 1 91.209 90.709 91.709 0.25163 0 0 0 1.0004 1 41824 41824 1.3295 0.13619 1 + 16405 13583 10561 10585 18707 18707 0.12613333485114708 LKEEKQRA 8 Unmodified _LKEEKQRA_ 0 0 0 nc|ENSG00000198901|O43663-3|PRC1;nc|ENSG00000198901|O43663-4|PRC1;ENSG00000198901|ENST00000394249|PRC1;nc|ENSG00000198901|O43663-2|PRC1 nc|ENSG00000198901|O43663-3|PRC1 nc|ENSG00000198901|O43663-3|PRC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.7943420410156 2 501.290548 1000.56654 3.1802 0.0015942 0.52714 0.00026425 3.7073 0.0018584 501.2907464807802 78.42 2.0239 79.082 78.283 80.307 0.66198 237 131 2 0 0 0 0.74071 1 36453 36453 2.5775 0 1 1407600 16406 5958 10562 10586 18708 18708 0.06628261191804086 LKEIRQRKIE 10 Unmodified _LKEIRQRKIE_ 0 0 0 REV__ENSG00000157856|ENST00000288710|DRC1 REV__ENSG00000157856|ENST00000288710|DRC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 438.2738952636719 3 438.273499 1311.79867 2.5464 0.001116 -1.9639 -0.00086073 0.5825 0.00025529 438.2727964052773 100.71 0.088432 100.71 100.65 100.73 0 8 5 2 0 0 0 0.93584 1 55625 55625 1.7423 0 1 6075700 + 16407 12810 10563 10587 18709 18709 0.15524103542543344 LKELLLRLKEL 11 Unmodified _LKELLLRLKEL_ 0 0 0 REV__ENSG00000167701|ENST00000394955|GPT REV__ENSG00000167701|ENST00000394955|GPT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 684.4523315429688 2 684.452862 1366.89117 NaN NaN NaN NaN NaN NaN NaN 81.326 1 81.495 80.995 81.995 0.16862 0 0 0 1.0082 1 39965 39965 0 0 1 + 16408 13301 10564 10588 18710 18710 0.22240188556065732 LKERKRYLKMK 11 Unmodified _LKERKRYLKMK_ 0 0 0 REV__ENST00000393667.7_1_3:121448147-121448746:-|nuORF REV__ENST00000393667.7_1_3:121448147-121448746:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.31134033203125 3 498.309667 1491.90717 2.6833 0.0013371 1.0543 0.00052538 3.7377 0.0018625 498.3101592159233 106.01 0.14097 106.01 105.94 106.08 0 15 5 4 0 0 0 0.91104 1 58244 58244 1.2148 0.80657 1 3030500 + 16409 15956 10565 10589 18711 18711 0.1808957152129551 LKERKRYLKMK 11 Unmodified _LKERKRYLKMK_ 0 0 0 REV__ENST00000393667.7_1_3:121448147-121448746:-|nuORF REV__ENST00000393667.7_1_3:121448147-121448746:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.31170654296875 3 498.309667 1491.90717 4.0585 0.0020224 -0.39112 -0.0001949 3.6674 0.0018275 498.30934197837206 106.05 0.19218 106.36 106.24 106.43 0.31628 22 7 4 0 0 0 0.91359 1 48934 48934 0.40827 0.31342 1 3840400 + 16410 15956 10565 10589 18712 18712 0.1808957152129551 LKERKRYLKMK 11 Unmodified _LKERKRYLKMK_ 0 0 0 REV__ENST00000393667.7_1_3:121448147-121448746:-|nuORF REV__ENST00000393667.7_1_3:121448147-121448746:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.31121826171875 3 498.309667 1491.90717 3.433 0.0017107 0.20447 0.00010189 3.6375 0.0018126 498.3096499689221 106.01 0.19281 106.61 106.52 106.71 0.59969 23 7 4 0 0 0 0.91359 1 48941 48941 0.40827 0.31342 1 3617600 + 16411 15956 10565 10589 18713 18713 0.1808957152129551 LKERKRYLKMK 11 Unmodified _LKERKRYLKMK_ 0 0 0 REV__ENST00000393667.7_1_3:121448147-121448746:-|nuORF REV__ENST00000393667.7_1_3:121448147-121448746:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 498.309667 1491.90717 2.6833 0.0013371 1.0543 0.00052538 3.7377 0.0018625 498.3101592159233 106.01 0.14097 106.01 105.94 106.08 0 -0.17318 0.00091508 NaN 1.2148 15 5 4 NaN NaN NaN NaN 0 NaN NaN 0 3030500 + 16412 15956 10565 10589 0.1808957152129551 LKERKRYLKMK 11 Unmodified _LKERKRYLKMK_ 0 0 0 REV__ENST00000393667.7_1_3:121448147-121448746:-|nuORF REV__ENST00000393667.7_1_3:121448147-121448746:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 498.309667 1491.90717 4.0585 0.0020224 -0.39112 -0.0001949 3.6674 0.0018275 498.30934197837206 106.05 0.19218 106.36 106.24 106.43 0.31628 0.17892 -0.0012458 NaN 1.2148 22 7 4 NaN NaN NaN NaN 0 NaN NaN 0 3840400 + 16413 15956 10565 10589 0.1808957152129551 LKERLQLANNK 11 Unmodified _LKERLQLANNK_ 0 0 0 REV__nc|ENSG00000091128|A4D0S4-3|LAMB4 REV__nc|ENSG00000091128|A4D0S4-3|LAMB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.8985595703125 2 663.896243 1325.77793 4.2628 0.00283 -1.0902 -0.00072376 3.1726 0.0021063 663.8953177378834 91.696 1.0493 91.948 91.424 92.473 0.25214 109 49 3 0 0 0 0.91373 2 42064 42064;42122 1.0715 0 1 867540 + 16414 10726 10566 10590 18714;18715 18714 0.12807513162874784 LKERLQLANNK 11 Unmodified _LKERLQLANNK_ 0 0 0 REV__nc|ENSG00000091128|A4D0S4-3|LAMB4 REV__nc|ENSG00000091128|A4D0S4-3|LAMB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.8982543945312 2 663.896243 1325.77793 4.4046 0.0029242 -1.0403 -0.00069062 3.3643 0.0022336 663.8956239197483 93.78 0.81502 94.035 93.791 94.606 0.25497 112 39 4 0 0 0 0.91373 1 43202 43202 1.0715 0 1 2859300 + 16415 10726 10566 10590 18716 18716 0.12807513162874784 LKERLRNRKTN 11 Unmodified _LKERLRNRKTN_ 0 0 0 REV__ENSG00000243147|ENST00000296102|MRPL33 REV__ENSG00000243147|ENST00000296102|MRPL33 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 476.6246643066406 3 476.623303 1426.84808 3.2936 0.0015698 0.97129 0.00046294 4.2649 0.0020328 476.6236590821628 101.04 0.12881 101.64 101.56 101.69 0.59717 19 5 5 0 0 0 0.91403 1 46783 46783 0.073264 0 1 9740800 + 16416 14627 10567 10591 18717 18717 0.15172811551337873 LKEYWWREYVT 11 Unmodified _LKEYWWREYVT_ 0 0 0 REV__nc|ENSG00000110514|Q8WXG6-6|MADD REV__nc|ENSG00000110514|Q8WXG6-6|MADD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 786.9005126953125 2 786.895909 1571.77726 NaN NaN NaN NaN NaN NaN NaN 108.95 1 109.55 109.05 110.05 0.60264 0 0 0 1.0082 1 50257 50257 0 0 1 + 16417 11207 10568 10592 18718 18718 0.014246737231815132 LKFHHILS 8 Unmodified _LKFHHILS_ 0 0 0 REV__ENST00000483804.5_1_1:161179060-161183980:+|nuORF REV__ENST00000483804.5_1_1:161179060-161183980:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 332.20001220703125 3 332.199272 993.575986 2.3007 0.0007643 0.65471 0.00021749 2.9555 0.0009818 332.199511746565 48.333 0.31349 49.16 49.001 49.315 0.82705 20 14 2 0 0 0 0.74071 1 22047 22047 1.6526 1.6526 1 445410 + 16418 12834 10569 10593 18719 18719 0.0789407426799471 LKFHHILS 8 Unmodified _LKFHHILS_ 0 0 0 REV__ENST00000483804.5_1_1:161179060-161183980:+|nuORF REV__ENST00000483804.5_1_1:161179060-161183980:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 332.2002258300781 3 332.199272 993.575986 2.3822 0.00079138 1.1597 0.00038526 3.542 0.0011766 332.19944684546164 49.361 0.48171 50.188 49.969 50.45 0.82705 52 24 3 0 0 0 0.74071 2 22448 22448;22525 1.6526 0.17072 1 566630 + 16419 12834 10569 10593 18720;18721 18720 0.0789407426799471 LKFHHILS 8 Unmodified _LKFHHILS_ 0 0 0 REV__ENST00000483804.5_1_1:161179060-161183980:+|nuORF REV__ENST00000483804.5_1_1:161179060-161183980:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 332.199272 993.575986 2.2801 0.00075746 1.141 0.00037904 3.4211 0.0011365 332.19961878971304 49.108 0.21428 49.108 48.94 49.154 0 -0.026226 0.00017769 NaN 1.6526 20 11 2 NaN NaN NaN NaN 0 NaN NaN 0 660000 + 16420 12834 10569 10593 0.0789407426799471 LKFHHILS 8 Unmodified _LKFHHILS_ 0 0 0 REV__ENST00000483804.5_1_1:161179060-161183980:+|nuORF REV__ENST00000483804.5_1_1:161179060-161183980:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 332.199272 993.575986 2.2142 0.00073554 1.5031 0.00049934 3.7173 0.0012349 332.1995788637425 50.288 0.48195 50.288 49.935 50.417 0 0.20888 0.00022388 NaN 1.6526 51 23 3 NaN NaN NaN NaN 0 NaN NaN 0 845240 + 16421 12834 10569 10593 0.0789407426799471 LKFHHILS 8 Unmodified _LKFHHILS_ 0 0 0 REV__ENST00000483804.5_1_1:161179060-161183980:+|nuORF REV__ENST00000483804.5_1_1:161179060-161183980:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 332.199272 993.575986 2.3007 0.0007643 0.65471 0.00021749 2.9555 0.0009818 332.199511746565 48.333 0.31349 49.16 49.001 49.315 0.82705 0.026226 -0.00030695 NaN 1.6526 20 14 2 NaN NaN NaN NaN 0 NaN NaN 0 445410 + 16422 12834 10569 10593 0.0789407426799471 LKFHHILS 8 Unmodified _LKFHHILS_ 0 0 0 REV__ENST00000483804.5_1_1:161179060-161183980:+|nuORF REV__ENST00000483804.5_1_1:161179060-161183980:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 332.199272 993.575986 2.3822 0.00079138 1.1597 0.00038526 3.542 0.0011766 332.19944684546164 49.361 0.48171 50.188 49.969 50.45 0.82705 0.10824 -0.00011835 NaN 1.6526 52 24 3 NaN NaN NaN NaN 0 NaN NaN 0 566630 + 16423 12834 10569 10593 0.0789407426799471 LKFHHILS 8 Unmodified _LKFHHILS_ 0 0 0 REV__ENST00000483804.5_1_1:161179060-161183980:+|nuORF REV__ENST00000483804.5_1_1:161179060-161183980:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 332.199272 993.575986 2.4283 0.00080668 1.1272 0.00037445 3.5555 0.0011811 332.19943936444344 49.786 0.6311 50.048 49.562 50.193 0.26146 -0.031799 -0.00015078 NaN 1.6526 55 24 3 NaN NaN NaN NaN 0 NaN NaN 0 865000 + 16424 12834 10569 10593 0.0789407426799471 LKFIRAIRMIR 11 Unmodified _LKFIRAIRMIR_ 0 0 0 REV__ENSG00000162975|ENST00000295082|KCNF1 REV__ENSG00000162975|ENST00000295082|KCNF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.97222900390625 3 472.970986 1415.89113 3.0268 0.0014316 0.32485 0.00015364 3.3517 0.0015852 472.9711154440041 50.702 0.46025 50.702 50.588 51.048 0 46 25 2 0 0 0 0.91459 1 23160 23160 0.094841 0 1 6731800 + 16425 12970 10570 10594 18722 18722 0.1998191007510286 LKGKKVEL 8 Unmodified _LKGKKVEL_ 0 0 0 ENSG00000198887|ENST00000361138|SMC5 ENSG00000198887|ENST00000361138|SMC5 ENSG00000198887|ENST00000361138|SMC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 305.5399475097656 3 305.539294 913.596052 1.9941 0.00060928 0.57826 0.00017668 2.5724 0.00078596 305.53946057147465 18.521 0.29097 18.521 18.376 18.667 0 47 16 4 0 0 0 0.39589 1 8240 8240 29.082 1.4528 1 3452000 16426 5956 10571 10595 18723 18723 0.1357982520794394 LKGLIRHYRTV 11 Unmodified _LKGLIRHYRTV_ 0 0 0 ENSG00000117000|ENST00000372771|RLF ENSG00000117000|ENST00000372771|RLF ENSG00000117000|ENST00000372771|RLF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.4493713378906 4 339.712211 1354.81974 2.4241 0.00082349 -2.8641 -0.00097298 -0.44004 -0.00014949 339.7119577904945 66.104 0.041603 66.76 66.737 66.779 0.65672 4 2 2 0 0 0 0.13295 1 30309 30309 1.4551 0.24029 1 140380 16427 2057 10572 10596 18724 18724 0.1565211364204515 LKGSKKLVLSV 11 Unmodified _LKGSKKLVLSV_ 0 0 0 nc|ENSG00000095397|Q9P202-2|WHRN;ENSG00000095397|ENST00000362057|WHRN nc|ENSG00000095397|Q9P202-2|WHRN nc|ENSG00000095397|Q9P202-2|WHRN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.3948974609375 2 586.392273 1170.76999 NaN NaN NaN NaN NaN NaN NaN 74.689 1 74.948 74.448 75.448 0.25831 0 0 0 1.0044 1 34358 34358 4.897 1.3005 1 16428 1119 10573 10597 18725 18725 0.19143985913410688 LKHFVWERCYF 11 Unmodified _LKHFVWERCYF_ 0 0 0 REV__ENSG00000151458|ENST00000504087|ANKRD50 REV__ENSG00000151458|ENST00000504087|ANKRD50 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 509.9233703613281 3 509.923702 1526.74928 NaN NaN NaN NaN NaN NaN NaN 95.384 1 95.466 94.966 95.966 0.082001 0 0 0 1.0072 1 50403 50403 1.3296 0.82369 1 + 16429 12613 10574 10598 18726 18726 0.006970722620962988 LKIELMIYKKK 11 Unmodified _LKIELMIYKKK_ 0 0 0 REV__nc|ENSG00000128805|Q7Z5H3-3|ARHGAP22 REV__nc|ENSG00000128805|Q7Z5H3-3|ARHGAP22 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.5474548339844 4 352.475546 1405.87308 2.2318 0.00078667 -2.0571 -0.00072507 0.17475 6.1596E-05 352.72546732915936 34.436 0.19449 34.436 34.354 34.548 0 15 9 2 0 0 0 0.13295 1 15595 15595 1.1098 0.70149 1 878810 + 16430 17928 10575 10599 18727 18727 0.18637730309706058 LKIIIIPIIKA 11 Unmodified _LKIIIIPIIKA_ 0 0 0 ENST00000377142.4_1_20:21494349-21494634:-|nuORF ENST00000377142.4_1_20:21494349-21494634:-|nuORF ENST00000377142.4_1_20:21494349-21494634:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 618.1648559570312 2 617.946685 1233.87882 NaN NaN NaN NaN NaN NaN NaN 89.228 1 89.292 88.792 89.792 0.064346 0 0 0 1.0082 1 45675 45675 0 0 1 16431 7408 10576 10600 18728 18728 0.2712319688371281 LKIIPVKNK 9 Unmodified _LKIIPVKNK_ 0 0 0 REV__ENST00000517617.1_1_8:68864752-69023167:+|nuORF REV__ENST00000517617.1_1_8:68864752-69023167:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.24444580078125 3 351.57786 1051.71175 2.4539 0.00086274 -0.13458 -4.7315E-05 2.3193 0.00081543 351.5777008016276 29.023 0.097183 29.812 29.725 29.822 0.78921 7 5 2 0 0 0 0.11393 1 13078 13078 1.0715 0.10919 1 113480 + 16432 10333 10577 10601 18729 18729 0.1879634905878902 LKIKKILCQW 10 Unmodified _LKIKKILCQW_ 0 0 0 REV__ENST00000295770.3_1_3:31677673-31677724:+|nuORF REV__ENST00000295770.3_1_3:31677673-31677724:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 424.9345703125 3 424.933538 1271.77878 3.7562 0.0015962 -1.1132 -0.00047306 2.643 0.0011231 425.26770668214454 103.92 0.17737 104.24 104.1 104.28 0.31863 39 22 2 0 0 0 0.94246 1 48043 48043 0.13989 0 1 677810 + 16433 15142 10578 10602 18730 18730 0.1537663627823349 LKILLLHLLLI 11 Unmodified _LKILLLHLLLI_ 0 0 0 REV__ENST00000256442.9_1_5:68473515-68473575:+|nuORF REV__ENST00000256442.9_1_5:68473515-68473575:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 651.6109008789062 2 651.467784 1300.92102 NaN NaN NaN NaN NaN NaN NaN 28.519 1 29.308 28.808 29.808 0.78921 0 0 0 1.0082 1 12845 12845 0 0 1 + 16434 14936 10579 10603 18731 18731 0.28259172292086987 LKILLRLKVTF 11 Unmodified _LKILLRLKVTF_ 0 0 0 REV__ENST00000495849.5_1_2:191897681-192012929:-|nuORF REV__ENST00000495849.5_1_2:191897681-192012929:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 672.4276733398438 2 672.46049 1342.90643 NaN NaN NaN NaN NaN NaN NaN 91.52 1 91.603 91.103 92.103 0.082848 0 0 0 1.008 1 47454 47454 0.26902 0.26902 1 + 16435 12160 10580 10604 18732 18732 0.24869100143905598 LKILRMVRF 9 Unmodified _LKILRMVRF_ 0 0 0 REV__ENSG00000081248|ENST00000362061|CACNA1S REV__ENSG00000081248|ENST00000362061|CACNA1S MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 588.3764038085938 2 588.375904 1174.73725 NaN NaN NaN NaN NaN NaN NaN 98.071 1 98.071 97.571 98.571 0 0 0 0 0.90699 1 53599 53599 1.8442 0 1 + 16436 10608 10581 10605 18733 18733 0.15687500309559255 LKILSNAKI 9 Unmodified _LKILSNAKI_ 0 0 0 nc|ENSG00000166535|A8K2U0-2|A2ML1;ENSG00000166535|ENST00000299698|A2ML1 nc|ENSG00000166535|A8K2U0-2|A2ML1 nc|ENSG00000166535|A8K2U0-2|A2ML1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.6773681640625 2 500.331685 998.648816 3.1893 0.0015957 0.48093 0.00024062 3.6703 0.0018363 500.33182038727637 35.532 0.32434 35.787 35.594 35.918 0.25524 22 10 3 0 0 0 0.1229 1 16126 16126 28.495 0.86571 1 832220 16437 4492 10582 10606 18734 18734 0.14943783270734912 LKIPIRRR 8 Unmodified _LKIPIRRR_ 0 0 0 REV__ENST00000493361.5_1_7:107384608-107394453:+|nuORF REV__ENST00000493361.5_1_7:107384608-107394453:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.9156188964844 3 351.245215 1050.71382 NaN NaN NaN NaN NaN NaN NaN 3.3249 1 3.3249 2.8249 3.8249 0 0 0 0 0.99035 1 1512 1512 0.40072 0.40072 1 + 16438 11064 10583 10607 18735 18735 0.1904882258725138 LKIQLRSPFRS 11 Unmodified _LKIQLRSPFRS_ 0 0 0 REV__ENST00000424094.6_1_20:57394223-57417237:-|nuORF REV__ENST00000424094.6_1_20:57394223-57417237:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 672.91162109375 2 672.909153 1343.80375 NaN NaN NaN NaN NaN NaN NaN 71.505 1 72.209 71.709 72.709 0.70386 0 0 0 1.0061 1 34346 34346 2.7352 1.2533 1 + 16439 16199 10584 10608 18736 18736 0.14560407405156184 LKIRLGWA 8 Unmodified _LKIRLGWA_ 0 0 0 REV__MER34A_dup1023|chr11:33702486-33702773:+|2.7057717797257563|0.0170586342162612|7.31|542.0|15|2|anti-sense REV__MER34A_dup1023|chr11:33702486-33702773:+|2.7057717797257563|0.0170586342162612|7.31|542.0|15|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 319.5404052734375 3 319.539517 955.596721 NaN NaN NaN NaN NaN NaN NaN 35.078 1 35.701 35.201 36.201 0.62294 0 0 0 0.99035 1 16075 16075 0.45834 0 1 + 16440 17157 10585 10609 18737 18737 0.11714664647661266 LKIRQDGWL 9 Unmodified _LKIRQDGWL_ 0 0 0 REV__ENST00000255390.9_1_17:10584188-10584290:-|nuORF REV__ENST00000255390.9_1_17:10584188-10584290:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.830078125 2 564.82984 1127.64513 NaN NaN NaN NaN NaN NaN NaN 16.32 1 16.624 16.124 17.124 0.30438 0 0 0 0.90965 1 7386 7386 0.6015 0 1 + 16441 14931 10586 10610 18738 18738 0.08641113496878461 LKIVMALLDET 11 Unmodified _LKIVMALLDET_ 0 0 0 REV__ENSG00000205078|ENST00000378644|SYCE1L REV__ENSG00000205078|ENST00000378644|SYCE1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 415.9104309082031 3 415.908947 1244.70501 2.6201 0.0010897 0.38172 0.00015876 3.0018 0.0012485 415.9091931150794 46.115 0.42502 46.115 45.982 46.407 0 30 22 2 0 0 0 0.88721 1 21096 21096 1.2148 0.588 1 725770 + 16442 14451 10587 10611 18739 18739 0.09244623325253087 LKIVMALLDET 11 Unmodified _LKIVMALLDET_ 0 0 0 REV__ENSG00000205078|ENST00000378644|SYCE1L REV__ENSG00000205078|ENST00000378644|SYCE1L MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 415.908947 1244.70501 2.6201 0.0010897 0.38172 0.00015876 3.0018 0.0012485 415.9091931150794 46.115 0.42502 46.115 45.982 46.407 0 -0.13325 8.2916E-05 NaN 1.2148 30 22 2 NaN NaN NaN NaN 0 NaN NaN 0 725770 + 16443 14451 10587 10611 0.09244623325253087 LKIVMALLDET 11 Unmodified _LKIVMALLDET_ 0 0 0 REV__ENSG00000205078|ENST00000378644|SYCE1L REV__ENSG00000205078|ENST00000378644|SYCE1L MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 415.908947 1244.70501 2.6597 0.0011062 0.24281 0.00010099 2.9025 0.0012072 415.9094698826656 45.439 0.26967 46.266 46.105 46.375 0.82621 0.016932 -9.041E-05 NaN 1.2148 21 14 2 NaN NaN NaN NaN 0 NaN NaN 0 332860 + 16444 14451 10587 10611 0.09244623325253087 LKIVMALLDET 11 Unmodified _LKIVMALLDET_ 0 0 0 REV__ENSG00000205078|ENST00000378644|SYCE1L REV__ENSG00000205078|ENST00000378644|SYCE1L MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 415.908947 1244.70501 3.2691 0.0013596 0.2918 0.00012136 3.5609 0.001481 415.90909646788435 45.714 0.44767 46.365 46.119 46.567 0.65104 0.11632 -2.9283E-05 NaN 1.2148 32 16 3 NaN NaN NaN NaN 0 NaN NaN 0 485590 + 16445 14451 10587 10611 0.09244623325253087 LKKCQIIHL 9 Unmodified _LKKCQIIHL_ 0 0 0 nc|ENSG00000293317|Q9H963|ZNF702P nc|ENSG00000293317|Q9H963|ZNF702P nc|ENSG00000293317|Q9H963|ZNF702P MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.342041015625 2 548.338987 1094.66342 NaN NaN NaN NaN NaN NaN NaN 43.019 1 43.29 42.79 43.79 0.27021 0 0 0 0.52667 1 19638 19638 18.135 1.1927 1 16446 9884 10588 10612 18740 18740 0.1198753214723638 LKKFGLGKFK 10 Unmodified _LKKFGLGKFK_ 0 0 0 REV__ENST00000517489.1_1_8:99057319-99057484:-|nuORF REV__ENST00000517489.1_1_8:99057319-99057484:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.37890625 2 583.376426 1164.7383 3.5235 0.0020555 1.1307 0.00065964 4.6542 0.0027152 583.3770884587077 41.623 0.33826 41.623 41.531 41.869 0 65 39 2 0 0 0 0.93584 1 19010 19010 3.5965 1.5367 1 2556900 + 16447 17023 10589 10613 18741 18741 0.16252037950107479 LKKFLALP 8 Unmodified _LKKFLALP_ 0 0 0 REV__ENST00000510223.5_1_4:89394995-89425581:+|nuORF REV__ENST00000510223.5_1_4:89394995-89425581:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.3135681152344 2 465.312764 928.610974 NaN NaN NaN NaN NaN NaN NaN 42.42 1 42.42 41.92 42.92 0 0 0 0 0.99035 1 19312 19312 2.5775 0 1 + 16448 12178 10590 10614 18742 18742 0.14381317075913103 LKKGKLLIKGK 11 Unmodified _LKKGKLLIKGK_ 0 0 0 REV__ENSG00000187091|ENST00000334661|PLCD1 REV__ENSG00000187091|ENST00000334661|PLCD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.62982177734375 3 409.295464 1224.86456 NaN NaN NaN NaN NaN NaN NaN 9.5942 1 9.8898 9.3898 10.39 0.2956 0 0 0 1.0082 1 4276 4276 0 0 1 + 16449 14085 10591 10615 18743 18743 0.261125444553727 LKKGKLLIKGK 11 Unmodified _LKKGKLLIKGK_ 0 0 0 REV__ENSG00000187091|ENST00000334661|PLCD1 REV__ENSG00000187091|ENST00000334661|PLCD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.44189453125 2 613.439558 1224.86456 NaN NaN NaN NaN NaN NaN NaN 0.18295 1 0.48706 -0.012941 0.98706 0.30411 0 0 0 1.0082 1 85 85 0 0 1 + 16450 14085 10591 10615 18744 18744 0.261125444553727 LKKGKLLIKGK 11 Unmodified _LKKGKLLIKGK_ 0 0 0 REV__ENSG00000187091|ENST00000334661|PLCD1 REV__ENSG00000187091|ENST00000334661|PLCD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 613.4418334960938 2 613.439558 1224.86456 NaN NaN NaN NaN NaN NaN NaN 1.9269 1 2.5485 2.0485 3.0485 0.62157 0 0 0 1.0082 1 878 878 0 0 1 + 16451 14085 10591 10615 18745 18745 0.261125444553727 LKKHGKLLMQ 10 Unmodified _LKKHGKLLMQ_ 0 0 0 REV__nc|ENSG00000135119|Q96EX2-3|RNFT2 REV__nc|ENSG00000135119|Q96EX2-3|RNFT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.2520446777344 3 399.249638 1194.72708 NaN NaN NaN NaN NaN NaN NaN 11.236 1 11.236 10.736 11.736 0 0 0 0 1.0018 1 4914 4914 0.15932 0 1 + 16452 17258 10592 10616 18746 18746 0.13750892584334906 LKKIKIIWIKK 11 Unmodified _LKKIKIIWIKK_ 0 0 0 ENST00000202017.5_1_20:30534352-30536619:-|nuORF ENST00000202017.5_1_20:30534352-30536619:-|nuORF ENST00000202017.5_1_20:30534352-30536619:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 706.321044921875 2 705.999783 1409.98501 NaN NaN NaN NaN NaN NaN NaN 30.539 1 31.328 30.828 31.828 0.78921 0 0 0 1.0082 1 13791 13791 0 0 1 16453 6389 10593 10617 18747 18747 0.29641952448992015 LKKIKKLKKHL 11 Unmodified _LKKIKKLKKHL_ 0 0 0 REV__AluJr_dup36459|chr8:30184080-30184323:-|1.145025706390193|0.4885063606504927|1.23|542.0|1|1|sense REV__AluJr_dup36459|chr8:30184080-30184323:-|1.145025706390193|0.4885063606504927|1.23|542.0|1|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 688.9935302734375 2 688.995032 1375.97551 NaN NaN NaN NaN NaN NaN NaN 30.479 1 30.479 29.979 30.979 0 0 0 0 1.0082 1 13769 13769 0 0 1 + 16454 9944 10594 10618 18748 18748 0.30256184163476973 LKKIKLLSLTE 11 Unmodified _LKKIKLLSLTE_ 0 0 0 REV__ENST00000344862.9_1_12:44119226-44119532:-|nuORF REV__ENST00000344862.9_1_12:44119226-44119532:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 643.428955078125 2 643.426313 1284.83807 NaN NaN NaN NaN NaN NaN NaN 38.818 1 39.616 39.116 40.116 0.79762 0 0 0 1.008 1 17584 17584 0.30703 0.30703 1 + 16455 15502 10595 10619 18749 18749 0.20704810773395366 LKKKIEFRRKL 11 Unmodified _LKKKIEFRRKL_ 0 0 0 REV__ENSG00000137815|ENST00000389629|RTF1 REV__ENSG00000137815|ENST00000389629|RTF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 730.2572631835938 2 729.985195 1457.95584 NaN NaN NaN NaN NaN NaN NaN 83.006 1 83.006 82.506 83.506 0 0 0 0 1.008 1 41716 41716 0.26902 0.26902 1 + 16456 12130 10596 10620 18750 18750 0.24517808152700127 LKKKIRKIN 9 Unmodified _LKKKIRKIN_ 0 0 0 REV__ENSG00000172009|ENST00000307741|THOP1 REV__ENSG00000172009|ENST00000307741|THOP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.730224609375 2 570.9006 1139.78665 NaN NaN NaN NaN NaN NaN NaN 86.656 1 86.687 86.187 87.187 0.030289 0 0 0 0.91238 1 43664 43664 0.52476 0.066424 1 + 16457 13532 10597 10621 18751 18751 0.22234531590038387 LKKKKAILKMF 11 Unmodified _LKKKKAILKMF_ 0 0 0 ENST00000336735.8_1_14:81942796-81942856:-|nuORF ENST00000336735.8_1_14:81942796-81942856:-|nuORF ENST00000336735.8_1_14:81942796-81942856:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 337.72845458984375 4 337.728172 1346.88358 2.2714 0.00076711 -0.65753 -0.00022207 1.6139 0.00054504 337.72786523907354 33.04 0.31416 33.04 32.785 33.099 0 29 19 2 0 0 0 0.91489 1 14972 14972 0 0 1 466330 16458 7032 10598 10622 18752 18752 0.22401757754778373 LKKKKAILKMF 11 Unmodified _LKKKKAILKMF_ 0 0 0 ENST00000336735.8_1_14:81942796-81942856:-|nuORF ENST00000336735.8_1_14:81942796-81942856:-|nuORF ENST00000336735.8_1_14:81942796-81942856:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 337.7283935546875 4 337.728172 1346.88358 2.3031 0.00077781 -0.9004 -0.00030409 1.4027 0.00047372 337.7278691802897 31.761 0.36368 32.379 32.303 32.667 0.61736 55 21 4 0 0 0 0.91489 1 14553 14553 0 0 1 1267900 16459 7032 10598 10622 18753 18753 0.22401757754778373 LKKKKKKKKKR 11 Unmodified _LKKKKKKKKKR_ 0 0 0 ENST00000378289.8_1_10:14940166-14940367:-|nuORF ENST00000378289.8_1_10:14940166-14940367:-|nuORF ENST00000378289.8_1_10:14940166-14940367:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 721.1716918945312 2 721.03248 1440.05041 NaN NaN NaN NaN NaN NaN NaN 85.693 1 85.693 85.193 86.193 0 0 0 0 1.008 1 43707 43707 0.30703 0.03801 1 16460 7431 10599 10623 18754 18754 0.3479836669469023 LKKKKKKLF 9 Unmodified _LKKKKKKLF_ 0 0 0 REV__ENST00000375664.8_2_10:28908866-28909124:+|nuORF REV__ENST00000375664.8_2_10:28908866-28909124:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 580.9166259765625 2 580.915719 1159.81688 NaN NaN NaN NaN NaN NaN NaN 46.242 1 46.242 45.742 46.742 0 0 0 0 0.91452 1 21161 21161 0 0 1 + 16461 15809 10600 10624 18755 18755 0.2433689025519925 LKKKKKKLF 9 Unmodified _LKKKKKKLF_ 0 0 0 REV__ENST00000375664.8_2_10:28908866-28909124:+|nuORF REV__ENST00000375664.8_2_10:28908866-28909124:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.218017578125 2 580.915719 1159.81688 NaN NaN NaN NaN NaN NaN NaN 84.249 1 84.249 83.749 84.749 0 0 0 0 0.91452 1 42613 42613 0 0 1 + 16462 15809 10600 10624 18756 18756 0.2433689025519925 LKKKKKKLF 9 Unmodified _LKKKKKKLF_ 0 0 0 REV__ENST00000375664.8_2_10:28908866-28909124:+|nuORF REV__ENST00000375664.8_2_10:28908866-28909124:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.1712036132812 2 580.915719 1159.81688 NaN NaN NaN NaN NaN NaN NaN 89.011 1 89.011 88.511 89.511 0 0 0 0 0.91452 1 46364 46364 0 0 1 + 16463 15809 10600 10624 18757 18757 0.2433689025519925 LKKKKKKLFAL 11 Unmodified _LKKKKKKLFAL_ 0 0 0 REV__ENST00000375664.8_2_10:28908866-28909124:+|nuORF REV__ENST00000375664.8_2_10:28908866-28909124:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 672.9029541015625 2 672.976308 1343.93806 NaN NaN NaN NaN NaN NaN NaN 79.113 1 79.113 78.613 79.613 0 0 0 0 1.0082 1 39033 39033 0 0 1 + 16464 15809 10601 10625 18758 18758 0.2798509289789308 LKKKKKKLFAL 11 Unmodified _LKKKKKKLFAL_ 0 0 0 REV__ENST00000375664.8_2_10:28908866-28909124:+|nuORF REV__ENST00000375664.8_2_10:28908866-28909124:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 672.51318359375 2 672.976308 1343.93806 NaN NaN NaN NaN NaN NaN NaN 55.876 1 56.544 56.044 57.044 0.66798 0 0 0 1.0082 1 25562 25562 0 0 1 + 16465 15809 10601 10625 18759 18759 0.2798509289789308 LKKKKKKLLF 10 Unmodified _LKKKKKKLLF_ 0 0 0 REV__ENST00000336440.3_1_14:69259862-69260099:-|nuORF REV__ENST00000336440.3_1_14:69259862-69260099:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 637.4940795898438 2 637.457751 1272.90095 NaN NaN NaN NaN NaN NaN NaN 97.876 1 98.165 97.665 98.665 0.28923 0 0 0 1.002 1 45002 45002 0 0 1 + 16466 15419 10602 10626 18760 18760 0.27541421352111684 LKKKKKLLLLQ 11 Unmodified _LKKKKKLLLLQ_ 0 0 0 NOS1AP|p.R207Gfs*32|1|0.46|ENSG00000198929|chr1:162355208-162355209|-/GG|frameshift_variant;ENSG00000198929|ENST00000361897|NOS1AP NOS1AP|p.R207Gfs*32|1|0.46|ENSG00000198929|chr1:162355208-162355209|-/GG|frameshift_variant NOS1AP|p.R207Gfs*32|1|0.46|ENSG00000198929|chr1:162355208-162355209|-/GG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 677.0943603515625 2 676.989415 1351.96428 NaN NaN NaN NaN NaN NaN NaN 90.484 1 90.484 89.984 90.984 0 0 0 0 1.0082 1 47572 47572 0 0 1 16467 5965 10603 10627 18761 18761 0.3023736206935155 LKKKKLIKVAR 11 Unmodified _LKKKKLIKVAR_ 0 0 0 REV__ENST00000586358.5_1_19:1207098-1220516:+|nuORF REV__ENST00000586358.5_1_19:1207098-1220516:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 662.9805297851562 2 662.979382 1323.94421 NaN NaN NaN NaN NaN NaN NaN 107.68 1 108 107.5 108.5 0.31421 0 0 0 1.0082 1 49672 49672 0 0 1 + 16468 11460 10604 10628 18762 18762 0.2951961112939898 LKKKKVVPIPV 11 Unmodified _LKKKKVVPIPV_ 0 0 0 REV__ENSG00000103888|ENST00000394685|CEMIP REV__ENSG00000103888|ENST00000394685|CEMIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 624.7691040039062 2 624.941934 1247.86931 NaN NaN NaN NaN NaN NaN NaN 79.047 1 79.047 78.547 79.547 0 0 0 0 1.008 1 38982 38982 0.30703 0 1 + 16469 10978 10605 10629 18763 18763 0.255294285981563 LKKKLVCFKK 10 Unmodified _LKKKLVCFKK_ 0 0 0 REV__ENSG00000148513|ENST00000361713|ANKRD30A REV__ENSG00000148513|ENST00000361713|ANKRD30A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 309.45758056640625 4 309.457156 1233.79952 2.2735 0.00070356 -0.8346 -0.00025827 1.4389 0.00044528 309.4569040080043 44.029 0.73188 44.678 44.512 45.244 0.64872 42 33 2 0 0 0 0.94443 1 20201 20201 0 0 1 2738200 + 16470 12542 10606 10630 18764 18764 0.19197226657888677 LKKKRAATT 9 Unmodified _LKKKRAATT_ 0 0 0 ENSG00000124228|ENST00000618172|DDX27;nc|ENSG00000124228|Q96GQ7|DDX27;ENST00000484427.5_1_20:47835892-47850293:+|nuORF ENSG00000124228|ENST00000618172|DDX27 ENSG00000124228|ENST00000618172|DDX27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.3378601074219 2 508.832383 1015.65021 4.1396 0.0021064 -0.22028 -0.00011209 3.9193 0.0019943 509.3337240903837 102.14 0.26021 102.45 102.32 102.58 0.31737 10 9 2 0 0 0 1.2459 1 47278 47278 0 0 1 261650 16471 2353 10607 10631 18765 18765 0.14301417359490642 LKKKRAATT 9 Unmodified _LKKKRAATT_ 0 0 0 ENSG00000124228|ENST00000618172|DDX27;nc|ENSG00000124228|Q96GQ7|DDX27;ENST00000484427.5_1_20:47835892-47850293:+|nuORF ENSG00000124228|ENST00000618172|DDX27 ENSG00000124228|ENST00000618172|DDX27 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 508.832383 1015.65021 3.5266 0.0017945 -1.0756 -0.00054729 2.451 0.0012472 508.8322252308584 102.07 0.13341 102.67 102.63 102.76 0.59759 0.10835 -0.00074627 NaN 0 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 107400 16472 2353 10607 10631 0.14301417359490642 LKKKSPKL 8 Unmodified _LKKKSPKL_ 0 0 0 REV__nc|ENSG00000007202|Q14667-2|BLTP2 REV__nc|ENSG00000007202|Q14667-2|BLTP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 314.8901672363281 3 314.555055 940.643337 2.2 0.00069203 0.56411 0.00017745 2.7641 0.00086948 314.5552431625737 9.7865 0.54716 9.7865 9.6576 10.205 0 186 110 2 0 0 0 0.70181 1 4373 4373 5.7319 2.1354 1 228840 + 16473 10199 10608 10632 18766 18766 0.17064104478936315 LKKLEDTWYTR 11 Unmodified _LKKLEDTWYTR_ 0 0 0 nc|ENSG00000160746|Q9NW15-2|ANO10;nc|ENSG00000160746|Q9NW15-4|ANO10;nc|ENSG00000160746|Q9NW15-3|ANO10;nc|ENSG00000160746|Q9NW15-5|ANO10;ENSG00000160746|ENST00000292246|ANO10 nc|ENSG00000160746|Q9NW15-2|ANO10 nc|ENSG00000160746|Q9NW15-2|ANO10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 726.89599609375 2 726.895909 1451.77726 NaN NaN NaN NaN NaN NaN NaN 67.606 1 68.308 67.808 68.808 0.70218 0 0 0 1.0061 1 32175 32175 2.7352 0 1 16474 4076 10609 10633 18767 18767 0.06944673723160122 LKKQILLILRK 11 Unmodified _LKKQILLILRK_ 0 0 0 ENST00000354566.7_1_11:85436805-85436946:-|nuORF ENST00000354566.7_1_11:85436805-85436946:-|nuORF ENST00000354566.7_1_11:85436805-85436946:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.3974304199219 3 455.993785 1364.95953 NaN NaN NaN NaN NaN NaN NaN 63.82 1 64.068 63.568 64.568 0.24803 0 0 0 1.0082 1 29229 29229 0 0 1 16475 7143 10610 10634 18768 18768 0.29164477926588006 LKKRKFYLKKR 11 Unmodified _LKKRKFYLKKR_ 0 0 0 ENST00000342992.10_3_2:179540701-179542581:-|nuORF ENST00000342992.10_3_2:179540701-179542581:-|nuORF ENST00000342992.10_3_2:179540701-179542581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 754.5009765625 2 754.501013 1506.98747 NaN NaN NaN NaN NaN NaN NaN 35.215 1 36.007 35.507 36.507 0.79131 0 0 0 1.0082 1 15958 15958 0 0 1 16476 7089 10611 10635 18769 18769 0.25425800906646145 LKKRPRDWESL 11 Unmodified _LKKRPRDWESL_ 0 0 0 ENST00000601340.5_1_19:50061444-50083809:-|nuORF ENST00000601340.5_1_19:50061444-50083809:-|nuORF ENST00000601340.5_1_19:50061444-50083809:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 714.4120483398438 2 714.409518 1426.80448 NaN NaN NaN NaN NaN NaN NaN 73.856 1 74.543 74.043 75.043 0.68662 0 0 0 1.0073 1 35658 35658 1.1933 0.12188 1 16477 9301 10612 10636 18770 18770 0.10815202054209294 LKKVKKEHKL 10 Unmodified _LKKVKKEHKL_ 0 0 0 REV__ENSG00000230561|ENST00000514853|CCDC192 REV__ENSG00000230561|ENST00000514853|CCDC192 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 625.9207153320312 2 625.91899 1249.82343 NaN NaN NaN NaN NaN NaN NaN 54.035 1 54.035 53.535 54.535 0 0 0 0 1.0016 1 24777 24777 0.35063 0.043601 1 + 16478 14575 10613 10637 18771 18771 0.20850783415926344 LKKYFELFRLH 11 Unmodified _LKKYFELFRLH_ 0 0 0 REV__ENSG00000119698|ENST00000304338|PPP4R4 REV__ENSG00000119698|ENST00000304338|PPP4R4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.625732421875 3 498.625761 1492.85546 NaN NaN NaN NaN NaN NaN NaN 83.71 1 83.739 83.239 84.239 0.028603 0 0 0 1.0072 1 41609 41609 1.3296 0.87513 1 + 16479 11510 10614 10638 18772 18772 0.12874151099049413 LKLFLKKKVV 10 Unmodified _LKLFLKKKVV_ 0 0 0 ENSG00000168564|ENST00000504169|CDKN2AIP ENSG00000168564|ENST00000504169|CDKN2AIP ENSG00000168564|ENST00000504169|CDKN2AIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 608.343017578125 2 608.431202 1214.84785 NaN NaN NaN NaN NaN NaN NaN 97.555 1 97.555 97.055 98.055 0 0 0 0 1.0015 1 53136 53136 0.40072 0.40072 1 16480 4633 10615 10639 18773 18773 0.2490204356945469 LKLFLKKKVV 10 Unmodified _LKLFLKKKVV_ 0 0 0 ENSG00000168564|ENST00000504169|CDKN2AIP ENSG00000168564|ENST00000504169|CDKN2AIP ENSG00000168564|ENST00000504169|CDKN2AIP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 608.37109375 2 608.431202 1214.84785 NaN NaN NaN NaN NaN NaN NaN 74.171 1 74.835 74.335 75.335 0.6644 0 0 0 1.002 1 34135 34135 0 0 1 16481 4633 10615 10639 18774 18774 0.2490204356945469 LKLFLLKKKK 10 Unmodified _LKLFLLKKKK_ 0 0 0 ENST00000336440.3_1_14:69259862-69260099:-|nuORF ENST00000336440.3_1_14:69259862-69260099:-|nuORF ENST00000336440.3_1_14:69259862-69260099:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 629.9519653320312 2 629.952301 1257.89005 NaN NaN NaN NaN NaN NaN NaN 53.165 1 53.165 52.665 53.665 0 0 0 0 1.002 1 24350 24350 0 0 1 16482 7031 10616 10640 18775 18775 0.27142018977815496 LKLHLKML 8 Unmodified _LKLHLKML_ 0 0 0 nc|ENSG00000134987|Q8NI36|WDR36;ENSG00000134987|ENST00000513710|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.88763427734375 3 332.552658 994.636143 2.2729 0.00075586 0.30156 0.00010028 2.5744 0.00085614 332.5526595383869 22.657 0.17382 23.298 23.22 23.393 0.64051 36 20 3 0 0 0 0.52517 1 10355 10355 14.838 0 1 2256600 16483 9654 10617 10641 18776 18776 0.1386104860686146 LKLHTTSHLH 10 Unmodified _LKLHTTSHLH_ 0 0 0 ENSG00000100991|ENST00000252015|TRPC4AP;nc|ENSG00000100991|Q8TEL6-3|TRPC4AP;nc|ENSG00000100991|Q8TEL6-2|TRPC4AP ENSG00000100991|ENST00000252015|TRPC4AP ENSG00000100991|ENST00000252015|TRPC4AP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 593.840087890625 2 593.838197 1185.66184 NaN NaN NaN NaN NaN NaN NaN 47.296 1 47.559 47.059 48.059 0.26363 0 0 0 1.0004 1 21613 21613 1.3295 0 1 16484 1255 10618 10642 18777 18777 0.07643614382845954 LKLKKAKLQ 9 Unmodified _LKLKKAKLQ_ 0 0 0 ENST00000568816.5_1_15:45879846-45893495:+|nuORF ENST00000568816.5_1_15:45879846-45893495:+|nuORF ENST00000568816.5_1_15:45879846-45893495:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1069.910400390625 1 1069.74558 1068.7383 3.4494 0.00369 -1.622 -0.0017351 1.8275 0.0019549 1069.7444943142807 47.872 0.12542 48.136 48.038 48.164 0.26363 5 4 2 0 0 0 1.1154 1 21847 21847 2.0598 0 1 434530 16485 9071 10619 10643 18778 18778 0.20668037950122198 LKLKKRHLII 10 Unmodified _LKLKKRHLII_ 0 0 0 REV__ENST00000296422.11_1_4:103911031-103940882:-|nuORF REV__ENST00000296422.11_1_4:103911031-103940882:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 631.8858642578125 2 631.445175 1260.8758 NaN NaN NaN NaN NaN NaN NaN 73.239 1 73.498 72.998 73.998 0.25876 0 0 0 1.002 1 33635 33635 0 0 1 + 16486 15152 10620 10644 18779 18779 0.25579366549573024 LKLKLSKLLKL 11 Unmodified _LKLKLSKLLKL_ 0 0 0 REV__ENST00000294732.11_1_1:197102515-197102575:-|nuORF REV__ENST00000294732.11_1_1:197102515-197102575:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 648.877685546875 2 648.970691 1295.92683 NaN NaN NaN NaN NaN NaN NaN 97.644 1 97.934 97.434 98.434 0.28923 0 0 0 1.0082 1 44871 44871 0 0 1 + 16487 15138 10621 10645 18780 18780 0.29070270803731546 LKLKQKTVTKR 11 Unmodified _LKLKQKTVTKR_ 0 0 0 nc|ENSG00000180777|Q9BXX2|ANKRD30B;ENSG00000180777|ENST00000690538|ANKRD30B nc|ENSG00000180777|Q9BXX2|ANKRD30B nc|ENSG00000180777|Q9BXX2|ANKRD30B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 671.9482421875 2 671.948279 1341.882 NaN NaN NaN NaN NaN NaN NaN 104.53 1 104.58 104.08 105.08 0.052994 0 0 0 1.008 1 56586 56586 0.30703 0 1 16488 5262 10622 10646 18781 18781 0.22473839990402666 LKLLKHRILQL 11 Unmodified _LKLLKHRILQL_ 0 0 0 REV__ENST00000301573.13_1_17:72691237-72694758:-|nuORF REV__ENST00000301573.13_1_17:72691237-72694758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 687.9691772460938 2 687.969014 1373.92348 NaN NaN NaN NaN NaN NaN NaN 52.618 1 53.429 52.929 53.929 0.81065 0 0 0 1.0082 1 23975 23975 0 0 1 + 16489 15192 10623 10647 18782 18782 0.2514702074975048 LKLLKHRILQL 11 Unmodified _LKLLKHRILQL_ 0 0 0 REV__ENST00000301573.13_1_17:72691237-72694758:-|nuORF REV__ENST00000301573.13_1_17:72691237-72694758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 687.9696044921875 2 687.969014 1373.92348 NaN NaN NaN NaN NaN NaN NaN 15.361 1 16.014 15.514 16.514 0.65356 0 0 0 1.0082 1 6917 6917 0 0 1 + 16490 15192 10623 10647 18783 18783 0.2514702074975048 LKLLVLFLKFA 11 Unmodified _LKLLVLFLKFA_ 0 0 0 ENST00000302418.4_1_10:32299749-32299908:-|nuORF ENST00000302418.4_1_10:32299749-32299908:-|nuORF ENST00000302418.4_1_10:32299749-32299908:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 652.938720703125 2 652.93886 1303.86317 NaN NaN NaN NaN NaN NaN NaN 55.494 1 56.281 55.781 56.781 0.78711 0 0 0 1.0082 1 25338 25338 0 0 1 16491 6815 10624 10648 18784 18784 0.22338910366624987 LKLPKKKKPVI 11 Unmodified _LKLPKKKKPVI_ 0 0 0 REV__ENSG00000104332|ENST00000220772|SFRP1 REV__ENSG00000104332|ENST00000220772|SFRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 646.4641723632812 2 646.463033 1290.91151 NaN NaN NaN NaN NaN NaN NaN 69.973 1 70.676 70.176 71.176 0.70302 0 0 0 1.0082 1 33509 33509 0 0 1 + 16492 10990 10625 10649 18785 18785 0.2776940400656258 LKLPWIKHV 9 Unmodified _LKLPWIKHV_ 0 0 0 ENST00000547486.1_1_12:69645004-69651771:+|nuORF ENST00000547486.1_1_12:69645004-69651771:+|nuORF ENST00000547486.1_1_12:69645004-69651771:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.3640747070312 2 567.363319 1132.71209 NaN NaN NaN NaN NaN NaN NaN 15.705 1 15.916 15.416 16.416 0.21108 0 0 0 0.91238 1 6931 6931 0.52476 0.52476 1 16493 8852 10626 10650 18786 18786 0.15103768778612903 LKLRGLKRPE 10 Unmodified _LKLRGLKRPE_ 0 0 0 REV__ENST00000440088.5_1_7:77288286-77288505:-|nuORF REV__ENST00000440088.5_1_7:77288286-77288505:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.9303283691406 3 403.931185 1208.77173 NaN NaN NaN NaN NaN NaN NaN 43.267 1 43.537 43.037 44.037 0.27021 0 0 0 1.0004 1 19763 19763 1.3296 0.36737 1 + 16494 16338 10627 10651 18787 18787 0.17569039722025082 LKLRHRLL 8 Unmodified _LKLRHRLL_ 0 0 0 REV__nc|ENSG00000198797|Q9C0B6-2|BRINP2 REV__nc|ENSG00000198797|Q9C0B6-2|BRINP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.24267578125 3 350.241582 1047.70292 2.6161 0.00091626 0.50978 0.00017855 3.1259 0.0010948 350.2418361135404 19.707 0.23713 20.365 20.276 20.513 0.65829 27 17 2 0 0 0 0.64827 1 8940 8940 10.074 3.3508 1 170340 + 16495 14360 10628 10652 18788 18788 0.18097420212984616 LKLRKICYILK 11 Unmodified _LKLRKICYILK_ 0 0 0 ENST00000356692.9_1_3:73114625-73114730:+|nuORF ENST00000356692.9_1_3:73114625-73114730:+|nuORF ENST00000356692.9_1_3:73114625-73114730:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 695.9492797851562 2 695.951975 1389.8894 NaN NaN NaN NaN NaN NaN NaN 64.567 1 65.224 64.724 65.724 0.65672 0 0 0 1.008 1 29598 29598 0.30703 0.03801 1 16496 7160 10629 10653 18789 18789 0.21004856266472416 LKLRLILIALA 11 Unmodified _LKLRLILIALA_ 0 0 0 REV__nc|ENSG00000291139|Q6ZN68-3|DPY19L2P2 REV__nc|ENSG00000291139|Q6ZN68-3|DPY19L2P2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 618.9435424804688 2 618.941934 1235.86931 NaN NaN NaN NaN NaN NaN NaN 51.052 1 51.712 51.212 52.212 0.65956 0 0 0 1.0082 1 23344 23344 0 0 1 + 16497 18176 10630 10654 18790 18790 0.26081428598217826 LKLWHFFFCPK 11 Unmodified _LKLWHFFFCPK_ 0 0 0 REV__ENSG00000007933|ENST00000367755|FMO3 REV__ENSG00000007933|ENST00000367755|FMO3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 732.9644775390625 2 733.394293 1464.77403 NaN NaN NaN NaN NaN NaN NaN 33.009 1 33.627 33.127 34.127 0.61831 0 0 0 1.0082 1 15129 15129 0 0 1 + 16498 10202 10631 10655 18791 18791 0.06023752135479299 LKLWLNLFR 9 Unmodified _LKLWLNLFR_ 0 0 0 REV__nc|ENSG00000156970|O60566-3|BUB1B REV__nc|ENSG00000156970|O60566-3|BUB1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.8751220703125 2 601.874051 1201.73355 NaN NaN NaN NaN NaN NaN NaN 3.6868 1 4.0631 3.5631 4.5631 0.37632 0 0 0 0.91452 1 1674 1674 0 0 1 + 16499 12789 10632 10656 18792 18792 0.14075153807334573 LKLWLNLFR 9 Unmodified _LKLWLNLFR_ 0 0 0 REV__nc|ENSG00000156970|O60566-3|BUB1B REV__nc|ENSG00000156970|O60566-3|BUB1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.8764038085938 2 601.874051 1201.73355 NaN NaN NaN NaN NaN NaN NaN 4.1436 1 4.5086 4.0086 5.0086 0.36497 0 0 0 0.91452 1 1880 1880 0 0 1 + 16500 12789 10632 10656 18793 18793 0.14075153807334573 LKLWLNLFR 9 Unmodified _LKLWLNLFR_ 0 0 0 REV__nc|ENSG00000156970|O60566-3|BUB1B REV__nc|ENSG00000156970|O60566-3|BUB1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.8755493164062 2 601.874051 1201.73355 NaN NaN NaN NaN NaN NaN NaN 6.1736 1 6.5263 6.0263 7.0263 0.35278 0 0 0 0.91452 1 2794 2794 0 0 1 + 16501 12789 10632 10656 18794 18794 0.14075153807334573 LKLWPRIIL 9 Unmodified _LKLWPRIIL_ 0 0 0 ENST00000311066.9_1_1:14109046-14109127:+|nuORF ENST00000311066.9_1_1:14109046-14109127:+|nuORF ENST00000311066.9_1_1:14109046-14109127:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 384.58306884765625 3 384.593622 1150.75904 2.6653 0.0010251 1.9593 0.00075354 4.6246 0.0017786 384.5945486665748 38.439 0.18908 38.703 38.569 38.758 0.26408 7 5 2 0 0 0 1.0894 1 17489 17489 2.4985 0 1 231300 16502 6866 10633 10657 18795 18795 0.18968628329798776 LKLWPRIIL 9 Unmodified _LKLWPRIIL_ 0 0 0 ENST00000311066.9_1_1:14109046-14109127:+|nuORF ENST00000311066.9_1_1:14109046-14109127:+|nuORF ENST00000311066.9_1_1:14109046-14109127:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 384.5827941894531 3 384.593622 1150.75904 NaN NaN NaN NaN NaN NaN NaN 39.27 1 39.537 39.037 40.037 0.26696 0 0 0 0.91014 1 17869 17869 1.0715 0 1 16503 6866 10633 10657 18796 18796 0.18968628329798776 LKLYYILHF 9 Unmodified _LKLYYILHF_ 0 0 0 ENST00000286448.11_1_X:155172884-155172920:+|nuORF ENST00000286448.11_1_X:155172884-155172920:+|nuORF ENST00000286448.11_1_X:155172884-155172920:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.1810607910156 4 303.181218 1208.69577 2.1824 0.00066166 -1.8185 -0.00055132 0.36394 0.00011034 303.18060536551656 62.031 0.37437 62.284 62.132 62.506 0.25245 33 18 2 0 0 0 1.1703 1 28408 28408 1.1933 0.41681 1 677200 16504 6722 10634 10658 18797 18797 0.09976642821879977 LKMILGKL 8 Unmodified _LKMILGKL_ 0 0 0 REV__ENST00000361804.4_1_10:112356281-112357923:+|nuORF REV__ENST00000361804.4_1_10:112356281-112357923:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 305.53961181640625 3 305.873508 914.598695 2.0641 0.00063136 0.34765 0.00010634 2.4118 0.0007377 305.87359810858686 17.896 0.12391 18.096 17.987 18.111 0.20057 13 8 2 0 0 0 0.13931 1 7913 7913 3.2813 1.7994 1 2815800 + 16505 15631 10635 10659 18798 18798 0.13797957341239453 LKMKILVILH 10 Unmodified _LKMKILVILH_ 0 0 0 ENST00000229179.8_1_12:69082797-69084434:+|nuORF;ENST00000540453.5_1_12:69082797-69083453:+|nuORF ENST00000229179.8_1_12:69082797-69084434:+|nuORF ENST00000229179.8_1_12:69082797-69084434:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 302.70465087890625 4 302.704432 1206.78862 2.1538 0.00065198 -0.78594 -0.00023791 1.3679 0.00041407 302.70426545548315 56.924 0.24075 57.189 57.051 57.292 0.26444 22 9 3 0 0 0 0.94443 1 26052 26052 0 0 1 2042800 16506 6436 10636 10660 18799 18799 0.1934982428360854 LKMKILVILH 10 Unmodified _LKMKILVILH_ 0 0 0 ENST00000229179.8_1_12:69082797-69084434:+|nuORF;ENST00000540453.5_1_12:69082797-69083453:+|nuORF ENST00000229179.8_1_12:69082797-69084434:+|nuORF ENST00000229179.8_1_12:69082797-69084434:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.70501708984375 4 302.704432 1206.78862 2.1749 0.00065836 -0.54243 -0.0001642 1.6325 0.00049416 302.70429322388145 56.186 0.4411 56.855 56.61 57.052 0.66829 54 25 3 0 0 0 0.94443 2 25705 25705;25759 0 0 1 1723500 16507 6436 10636 10660 18800;18801 18800 0.1934982428360854 LKMLILPLIIS 11 Unmodified _LKMLILPLIIS_ 0 0 0 nc|ENSG00000110436|P43004-3|SLC1A2;nc|ENSG00000110436|P43004-2|SLC1A2;ENSG00000110436|ENST00000278379|SLC1A2 nc|ENSG00000110436|P43004-3|SLC1A2 nc|ENSG00000110436|P43004-3|SLC1A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 627.4212036132812 2 627.416903 1252.81925 NaN NaN NaN NaN NaN NaN NaN 104.58 1 104.9 104.4 105.4 0.31863 0 0 0 1.008 1 48281 48281 0.30703 0.30703 1 16508 1717 10637 10661 18802 18802 0.20295557878012005 LKPFKIKL 8 Unmodified _LKPFKIKL_ 0 0 0 REV__ENSG00000274588|ENST00000611977|DGKK REV__ENSG00000274588|ENST00000611977|DGKK MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.3432922363281 2 493.841688 985.668823 3.0013 0.0014822 -0.053208 -2.6276E-05 2.9481 0.0014559 493.84108233215306 17.468 0.31522 17.77 17.676 17.992 0.30159 26 20 2 0 0 0 0.14337 1 7898 7898 0.69038 0 1 154240 + 16509 14730 10638 10662 18803 18803 0.17541579001351693 LKPIQFKILW 10 Unmodified _LKPIQFKILW_ 0 0 0 REV__ENST00000469163.1_1_22:45574133-45574268:+|nuORF REV__ENST00000469163.1_1_22:45574133-45574268:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 643.909423828125 2 643.405184 1284.79581 4.6065 0.0029638 0.11182 7.1944E-05 4.7183 0.0030358 643.4051604462278 109.78 0.97572 110.09 109.33 110.3 0.31015 59 37 2 0 0 0 0.94246 1 50434 50434 0.40072 0.050084 1 182310 + 16510 16575 10639 10663 18804 18804 0.16480880155700106 LKPQYLRH 8 Unmodified _LKPQYLRH_ 0 0 0 REV__ENSG00000135605|ENST00000381501|TEC REV__ENSG00000135605|ENST00000381501|TEC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.8114624023438 2 527.811451 1053.60835 NaN NaN NaN NaN NaN NaN NaN 74.862 1 74.862 74.362 75.362 0 0 0 0 0.967 1 36647 36647 7.9102 1.187 1 + 16511 12028 10640 10664 18805 18805 0.08368861670965089 LKPRSEFL 8 Unmodified _LKPRSEFL_ 0 0 0 ENST00000262995.8_1_4:144392015-144392123:+|nuORF ENST00000262995.8_1_4:144392015-144392123:+|nuORF ENST00000262995.8_1_4:144392015-144392123:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.53192138671875 3 330.530798 988.570566 2.1424 0.00070814 0.47062 0.00015555 2.6131 0.00086369 330.53099027295826 37.872 0.78325 38.506 37.919 38.703 0.63388 56 26 3 0 0 0 0.54363 1 17250 17250 18.146 2.8979 1 778190 16512 6580 10641 10665 18806 18806 0.07582350685515848 LKPWLVAQ 8 Unmodified _LKPWLVAQ_ 0 0 0 ENSG00000117595|ENST00000367021|IRF6;nc|ENSG00000128604|Q13568-6|IRF5;ENST00000461416.1_1_7:128582135-128587139:+|nuORF;ENST00000488569.5_1_7:128577991-128586617:+|nuORF;nc|ENSG00000128604|Q13568-5|IRF5;nc|ENSG00000128604|Q13568-4|IRF5;nc|ENSG00000128604|Q13568|IRF5;nc|ENSG00000128604|Q13568-3|IRF5;ENSG00000128604|ENST00000357234|IRF5 ENSG00000117595|ENST00000367021|IRF6 ENSG00000117595|ENST00000367021|IRF6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 954.5808715820312 1 954.577114 953.569838 4.0267 0.0038438 0.86969 0.00083019 4.8964 0.004674 954.5776685534223 103.16 0.016129 103.76 103.75 103.76 0.59821 4 2 2 0 0 0 0.7471 1 47729 47729 0.69038 0 1 179940 16513 2082 10642 10666 18807 18807 0.09119556036466747 LKQKKRLLIL 10 Unmodified _LKQKKRLLIL_ 0 0 0 REV__ENST00000489408.1_1_3:32023272-32027845:+|nuORF REV__ENST00000489408.1_1_3:32023272-32027845:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 626.9461059570312 2 626.945008 1251.87546 NaN NaN NaN NaN NaN NaN NaN 17.073 1 17.734 17.234 18.234 0.66072 0 0 0 1.002 1 7699 7699 0 0 1 + 16514 16792 10643 10667 18808 18808 0.2595994682969831 LKQKSVFRK 9 Unmodified _LKQKSVFRK_ 0 0 0 ENST00000266880.11_1_12:133417602-133417977:-|nuORF ENST00000266880.11_1_12:133417602-133417977:-|nuORF ENST00000266880.11_1_12:133417602-133417977:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 378.5794982910156 3 378.576631 1132.70806 NaN NaN NaN NaN NaN NaN NaN 44.55 1 44.55 44.05 45.05 0 0 0 0 0.90699 1 20363 20363 0.96228 0 1 16515 6629 10644 10668 18809 18809 0.14701679284939928 LKQKSVLL 8 Unmodified _LKQKSVLL_ 0 0 0 nc|ENSG00000132591|O75616-2|ERAL1;ENST00000471992.1_1_17:27185141-27187568:+|nuORF;ENSG00000132591|ENST00000254928|ERAL1 nc|ENSG00000132591|O75616-2|ERAL1 nc|ENSG00000132591|O75616-2|ERAL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 310.19677734375 3 310.211177 927.611703 2.0393 0.00063263 0.21137 6.5569E-05 2.2507 0.0006982 310.2112892779698 25.767 0.14492 26.392 26.301 26.446 0.62505 21 15 2 0 0 0 0.14161 1 11795 11795 2.9952 0 1 291030 16516 2712 10645 10669 18810 18810 0.1450011172498762 LKQRLSLF 8 Unmodified _LKQRLSLF_ 0 0 0 nc|ENSG00000111860|Q5SZL2-3|CEP85L;nc|ENSG00000111860|Q5SZL2-5|CEP85L;nc|ENSG00000111860|Q5SZL2-2|CEP85L;ENSG00000111860|ENST00000368491|CEP85L;nc|ENSG00000111860|Q5SZL2-4|CEP85L nc|ENSG00000111860|Q5SZL2-3|CEP85L nc|ENSG00000111860|Q5SZL2-3|CEP85L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 335.5468444824219 3 335.54656 1003.61785 2.1608 0.00072506 0.42171 0.0001415 2.5826 0.00086657 335.54661816186245 25.552 0.2324 26.316 26.167 26.399 0.76357 31 20 2 0 0 0 0.66653 1 11480 11480 10.074 0 1 323670 16517 1781 10646 10670 18811 18811 0.11618629956524273 LKQTQTAL 8 Unmodified _LKQTQTAL_ 0 0 0 nc|ENSG00000046651|O75665-3|OFD1;ENSG00000046651|ENST00000340096|OFD1;ENST00000490265.5_1_X:13771424-13787224:+|nuORF nc|ENSG00000046651|O75665-3|OFD1 nc|ENSG00000046651|O75665-3|OFD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.77081298828125 2 451.768917 901.523281 3.1136 0.0014066 0.5784 0.0002613 3.692 0.0016679 451.76915878701345 15.229 0.341 15.883 15.707 16.048 0.65356 61 37 2 0 0 0 0.62895 1 6827 6827 11.64 0 1 79950 16518 552 10647 10671 18812 18812 0.0685807141450141 LKRFQRLP 8 Unmodified _LKRFQRLP_ 0 0 0 REV__ENSG00000144028|ENST00000323853|SNRNP200 REV__ENSG00000144028|ENST00000323853|SNRNP200 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.333984375 2 529.335093 1056.65563 NaN NaN NaN NaN NaN NaN NaN 38.655 1 38.655 38.155 39.155 0 0 0 0 0.99035 1 17544 17544 2.5775 0 1 + 16519 12388 10648 10672 18813 18813 0.12957140941989564 LKRIHRAVLR 10 Unmodified _LKRIHRAVLR_ 0 0 0 nc|ENSG00000196912|Q8N2N9-3|ANKRD36B;nc|ENSG00000196912|Q8N2N9-2|ANKRD36B;ENSG00000196912|ENST00000359901|ANKRD36B;nc|ENSG00000196912|Q8N2N9-4|ANKRD36B nc|ENSG00000196912|Q8N2N9-3|ANKRD36B nc|ENSG00000196912|Q8N2N9-3|ANKRD36B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 631.5326538085938 2 631.420023 1260.82549 NaN NaN NaN NaN NaN NaN NaN 82.857 1 82.857 82.357 83.357 0 0 0 0 1.0015 1 41605 41605 0.40072 0 1 16520 5783 10649 10673 18814 18814 0.2055125694439539 LKRIHRAVLR 10 Unmodified _LKRIHRAVLR_ 0 0 0 nc|ENSG00000196912|Q8N2N9-3|ANKRD36B;nc|ENSG00000196912|Q8N2N9-2|ANKRD36B;ENSG00000196912|ENST00000359901|ANKRD36B;nc|ENSG00000196912|Q8N2N9-4|ANKRD36B nc|ENSG00000196912|Q8N2N9-3|ANKRD36B nc|ENSG00000196912|Q8N2N9-3|ANKRD36B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 631.4730224609375 2 631.420023 1260.82549 NaN NaN NaN NaN NaN NaN NaN 83.441 1 83.486 82.986 83.986 0.045006 0 0 0 1.0015 1 41407 41407 0.40072 0 1 16521 5783 10649 10673 18815 18815 0.2055125694439539 LKRIVKYLRKR 11 Unmodified _LKRIVKYLRKR_ 0 0 0 REV__ENST00000471909.1_1_21:45217249-45223652:+|nuORF REV__ENST00000471909.1_1_21:45217249-45223652:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 736.997802734375 2 736.998637 1471.98272 NaN NaN NaN NaN NaN NaN NaN 64.12 1 64.12 63.62 64.62 0 0 0 0 1.0082 1 30303 30303 0 0 1 + 16522 12867 10650 10674 18816 18816 0.26560916763878595 LKRIVKYLRKR 11 Unmodified _LKRIVKYLRKR_ 0 0 0 REV__ENST00000471909.1_1_21:45217249-45223652:+|nuORF REV__ENST00000471909.1_1_21:45217249-45223652:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 736.9981079101562 2 736.998637 1471.98272 NaN NaN NaN NaN NaN NaN NaN 17.271 1 17.471 16.971 17.971 0.20057 0 0 0 1.0082 1 7638 7638 0 0 1 + 16523 12867 10650 10674 18817 18817 0.26560916763878595 LKRIVKYLRKR 11 Unmodified _LKRIVKYLRKR_ 0 0 0 REV__ENST00000471909.1_1_21:45217249-45223652:+|nuORF REV__ENST00000471909.1_1_21:45217249-45223652:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 736.9960327148438 2 736.998637 1471.98272 NaN NaN NaN NaN NaN NaN NaN 27.051 1 27.316 26.816 27.816 0.26489 0 0 0 1.0082 1 12293 12293 0 0 1 + 16524 12867 10650 10674 18818 18818 0.26560916763878595 LKRKHRLIQRL 11 Unmodified _LKRKHRLIQRL_ 0 0 0 REV__ENST00000537025.6_1_17:66040173-66040476:+|nuORF REV__ENST00000537025.6_1_17:66040173-66040476:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 731.3275146484375 2 730.986061 1459.95757 NaN NaN NaN NaN NaN NaN NaN 92.722 1 92.809 92.309 93.309 0.086212 0 0 0 1.0082 1 48409 48409 0 0 1 + 16525 17184 10651 10675 18819 18819 0.24598861961362672 LKRKLFFLN 9 Unmodified _LKRKLFFLN_ 0 0 0 ENST00000552189.5_1_12:48437372-48437579:-|nuORF ENST00000552189.5_1_12:48437372-48437579:-|nuORF ENST00000552189.5_1_12:48437372-48437579:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.5865478515625 3 393.585126 1177.73355 3.2016 0.0012601 1.1276 0.00044383 4.3292 0.0017039 393.5856301813946 41.643 0.35756 41.914 41.716 42.074 0.27021 34 16 3 0 0 0 1.1849 1 19017 19017 0.96228 0 1 804230 16526 8887 10652 10676 18820 18820 0.15179153807366674 LKRKRKLGVVP 11 Unmodified _LKRKRKLGVVP_ 0 0 0 nc|ENSG00000160208|Q14684-2|RRP1B;ENSG00000160208|ENST00000340648|RRP1B nc|ENSG00000160208|Q14684-2|RRP1B nc|ENSG00000160208|Q14684-2|RRP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 647.1969604492188 2 647.445706 1292.87686 NaN NaN NaN NaN NaN NaN NaN 88.462 1 88.515 88.015 89.015 0.052155 0 0 0 1.0071 1 45062 45062 1.4819 0.28856 1 16527 4047 10653 10677 18821 18821 0.24213580918444677 LKRKTGRK 8 Unmodified _LKRKTGRK_ 0 0 0 ENST00000441170.1_1_4:118496697-118497264:-|nuORF;ENSG00000122643|ENST00000610140|NT5C3A;nc|ENSG00000122643|Q9H0P0|NT5C3A ENST00000441170.1_1_4:118496697-118497264:-|nuORF ENST00000441170.1_1_4:118496697-118497264:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 329.2229309082031 3 329.55757 985.650882 2.5728 0.00084789 -2.252 -0.00074217 0.32077 0.00010571 329.5568933617358 12.585 0.15167 13.228 13.092 13.244 0.64272 6 4 2 0 0 0 0.1432 1 5650 5650 0.35063 0 1 2378900 16528 2274 10654 10678 18822 18822 0.1574825679922469 LKRLILKMRIF 11 Unmodified _LKRLILKMRIF_ 0 0 0 ENST00000359242.7_2_1:86850468-86851163:-|nuORF ENST00000359242.7_2_1:86850468-86851163:-|nuORF ENST00000359242.7_2_1:86850468-86851163:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 715.9740600585938 2 715.973242 1429.93193 NaN NaN NaN NaN NaN NaN NaN 57.18 1 57.949 57.449 58.449 0.76861 0 0 0 1.0082 1 26166 26166 0 0 1 16529 7201 10655 10679 18823 18823 0.23416251394701249 LKRLKKKRR 9 Unmodified _LKRLKKKRR_ 0 0 0 REV__ENST00000429378.5_3_16:242971-256079:-|nuORF REV__ENST00000429378.5_3_16:242971-256079:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.4404907226562 2 613.438215 1224.86188 NaN NaN NaN NaN NaN NaN NaN 9.3099 1 9.6211 9.1211 10.121 0.31115 0 0 0 0.91238 1 4167 4167 0.52476 0 1 + 16530 16240 10656 10680 18824 18824 0.25844133841110306 LKRLKVKKLKK 11 Unmodified _LKRLKVKKLKK_ 0 0 0 REV__nc|ENSG00000111642|Q14839-2|CHD4 REV__nc|ENSG00000111642|Q14839-2|CHD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 461.34356689453125 3 461.341296 1381.00206 NaN NaN NaN NaN NaN NaN NaN 88.457 1 89.135 88.635 89.635 0.67818 0 0 0 1.0082 1 40739 40739 0.094841 0.094841 1 + 16531 11242 10657 10681 18825 18825 0.32679873054826203 LKRPSRRA 8 Unmodified _LKRPSRRA_ 0 0 0 REV__nc|ENSG00000009954|Q9UIG0-2|BAZ1B REV__nc|ENSG00000009954|Q9UIG0-2|BAZ1B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.2035217285156 3 328.545553 982.614831 2.5635 0.00084223 1.521 0.00049971 4.0845 0.0013419 328.54609875655603 48.146 0.24139 48.408 48.263 48.505 0.26209 13 8 2 0 0 0 0.14186 1 22001 22001 5.2969 2.0156 1 559680 + 16532 10219 10658 10682 18826 18826 0.12282799622357743 LKRRKRHWRRF 11 Unmodified _LKRRKRHWRRF_ 0 0 0 REV__ENST00000416673.6_1_2:114369763-114384446:-|nuORF REV__ENST00000416673.6_1_2:114369763-114384446:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 820.0037231445312 2 820.005651 1637.99675 NaN NaN NaN NaN NaN NaN NaN 48.81 1 49.072 48.572 49.572 0.26209 0 0 0 1.0082 1 22313 22313 0 0 1 + 16533 16135 10659 10683 18827 18827 0.20327007035530187 LKRRQSHLWRR 11 Unmodified _LKRRQSHLWRR_ 0 0 0 REV__ENST00000403433.5_2_1:153606765-153609098:+|nuORF REV__ENST00000403433.5_2_1:153606765-153609098:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.6455078125 3 512.64292 1534.90693 3.2495 0.0016658 1.0597 0.00054323 4.3092 0.0022091 512.6435033188168 37.38 0.3954 37.38 37.168 37.563 0 37 14 4 0 0 0 0.91359 2 17008 16948;17008 0.40827 0.31342 1 3354400 + 16534 16052 10660 10684 18828;18829 18829 0.16087332636334395 LKRRQSHLWRR 11 Unmodified _LKRRQSHLWRR_ 0 0 0 REV__ENST00000403433.5_2_1:153606765-153609098:+|nuORF REV__ENST00000403433.5_2_1:153606765-153609098:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.9798583984375 3 512.64292 1534.90693 3.2495 0.0016658 1.0597 0.00054323 4.3092 0.0022091 512.6435033188168 37.38 0.3954 37.38 37.168 37.563 0 37 14 4 0 0 0 0.13295 1 16948 16948 0.08335 0.08335 1 3354400 + 16535 16052 10660 10684 18830 18830 0.16087332636334395 LKRRQSHLWRR 11 Unmodified _LKRRQSHLWRR_ 0 0 0 REV__ENST00000403433.5_2_1:153606765-153609098:+|nuORF REV__ENST00000403433.5_2_1:153606765-153609098:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.6454467773438 3 512.64292 1534.90693 3.2937 0.0016885 1.168 0.00059877 4.4617 0.0022873 512.6434620711747 36.174 0.36076 36.968 36.789 37.149 0.79342 47 14 5 0 0 0 0.91462 1 16417 16417 0.08335 0.08335 1 2768300 + 16536 16052 10660 10684 18831 18831 0.16087332636334395 LKRRQSHLWRR 11 Unmodified _LKRRQSHLWRR_ 0 0 0 REV__ENST00000403433.5_2_1:153606765-153609098:+|nuORF REV__ENST00000403433.5_2_1:153606765-153609098:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.9794921875 3 512.64292 1534.90693 3.5378 0.0018136 0.63629 0.00032619 4.1741 0.0021398 512.6432110329274 37.277 0.37803 37.537 37.35 37.728 0.26083 33 11 4 0 0 0 0.91462 2 16952 16952;17003 0.08335 0.08335 1 2864900 + 16537 16052 10660 10684 18832;18833 18832 0.16087332636334395 LKRRQSHLWRR 11 Unmodified _LKRRQSHLWRR_ 0 0 0 REV__ENST00000403433.5_2_1:153606765-153609098:+|nuORF REV__ENST00000403433.5_2_1:153606765-153609098:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.9794921875 3 512.64292 1534.90693 3.5378 0.0018136 0.63629 0.00032619 4.1741 0.0021398 512.6432110329274 37.277 0.37803 37.537 37.35 37.728 0.26083 33 11 4 0 0 0 0.13295 1 16952 16952 0.08335 0.08335 1 2864900 + 16538 16052 10660 10684 18834 18834 0.16087332636334395 LKRRQSHLWRR 11 Unmodified _LKRRQSHLWRR_ 0 0 0 REV__ENST00000403433.5_2_1:153606765-153609098:+|nuORF REV__ENST00000403433.5_2_1:153606765-153609098:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.645263671875 3 512.64292 1534.90693 3.4793 0.0017836 0.94002 0.0004819 4.4193 0.0022655 512.6433390662356 36.589 0.40233 37.219 37.014 37.416 0.62999 62 16 5 0 0 0 0.91359 1 16728 16728 0.40827 0.32491 1 2431800 + 16539 16052 10660 10684 18835 18835 0.16087332636334395 LKRRRKLGAKR 11 Unmodified _LKRRRKLGAKR_ 0 0 0 REV__ENST00000444704.5_1_12:6761840-6762457:-|nuORF REV__ENST00000444704.5_1_12:6761840-6762457:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 691.47021484375 2 691.470578 1380.9266 NaN NaN NaN NaN NaN NaN NaN 79.496 1 79.747 79.247 80.247 0.25127 0 0 0 1.0082 1 36606 36606 0 0 1 + 16540 16372 10661 10685 18836 18836 0.2513770864709386 LKRSKRKK 8 Unmodified _LKRSKRKK_ 0 0 0 REV__NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant REV__NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.3604736328125 2 522.361642 1042.70873 NaN NaN NaN NaN NaN NaN NaN 78.62 1 78.62 78.12 79.12 0 0 0 0 0.99035 1 38690 38690 0.69038 0 1 + 16541 18186 10662 10686 18837 18837 0.18908518724651913 LKRWRYKL 8 Unmodified _LKRWRYKL_ 0 0 0 REV__nc|ENSG00000161904|Q8NC56-2|LEMD2 REV__nc|ENSG00000161904|Q8NC56-2|LEMD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 388.5799560546875 3 388.245104 1161.71348 2.4879 0.00096593 -1.2464 -0.00048389 1.2416 0.00048203 388.2445840166599 14.133 0.25928 14.359 14.25 14.51 0.22622 42 23 2 0 0 0 0.63902 1 6187 6187 10.824 0 1 382550 + 16542 12921 10663 10687 18838 18838 0.13909402867398057 LKRWRYKL 8 Unmodified _LKRWRYKL_ 0 0 0 REV__nc|ENSG00000161904|Q8NC56-2|LEMD2 REV__nc|ENSG00000161904|Q8NC56-2|LEMD2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 388.245104 1161.71348 2.6498 0.0010288 -1.152 -0.00044726 1.4978 0.0005815 388.24445669234757 14.27 0.084858 14.577 14.527 14.612 0.3069 0.10899 7.9025E-05 NaN 10.824 8 4 2 NaN NaN NaN NaN 0 NaN NaN 0 890720 + 16543 12921 10663 10687 0.13909402867398057 LKSPSLRL 8 Unmodified _LKSPSLRL_ 0 0 0 REV__ENST00000571133.5_1_16:11940681-11941547:-|nuORF REV__ENST00000571133.5_1_16:11940681-11941547:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.29425048828125 2 457.295102 912.575651 NaN NaN NaN NaN NaN NaN NaN 68.003 1 68.661 68.161 69.161 0.65777 0 0 0 0.9851 1 31172 31172 6.7232 0 1 + 16544 17447 10664 10688 18839 18839 0.11586654548113984 LKTFLYSFVLF 11 Unmodified _LKTFLYSFVLF_ 0 0 0 ENST00000503362.1_1_4:177250155-177250254:+|nuORF ENST00000503362.1_1_4:177250155-177250254:+|nuORF ENST00000503362.1_1_4:177250155-177250254:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 689.531982421875 2 689.394482 1376.77441 NaN NaN NaN NaN NaN NaN NaN 108.96 1 109.28 108.78 109.78 0.31168 0 0 0 1.0073 1 50240 50240 1.1933 0 1 16545 8487 10665 10689 18840 18840 0.10109450336312875 LKTKQKWRRK 10 Unmodified _LKTKQKWRRK_ 0 0 0 ENST00000568613.5_1_16:88880849-88909575:-|nuORF;ENST00000565364.1_1_16:88907121-88909575:-|nuORF ENST00000568613.5_1_16:88880849-88909575:-|nuORF ENST00000568613.5_1_16:88880849-88909575:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 686.4386596679688 2 686.438412 1370.86227 NaN NaN NaN NaN NaN NaN NaN 77.444 1 77.7 77.2 78.2 0.25533 0 0 0 1.0015 1 35665 35665 0.40072 0.050084 1 16546 9068 10666 10690 18841 18841 0.19167508770283348 LKTLVKLVKVK 11 Unmodified _LKTLVKLVKVK_ 0 0 0 REV__ENSG00000126947|ENST00000372829|ARMCX1 REV__ENSG00000126947|ENST00000372829|ARMCX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.8244018554688 2 634.955041 1267.89553 NaN NaN NaN NaN NaN NaN NaN 95.293 1 95.293 94.793 95.793 0 0 0 0 1.0082 1 51277 51277 0 0 1 + 16547 11726 10667 10691 18842 18842 0.2722969776962145 LKTRKLLLPDI 11 Unmodified _LKTRKLLLPDI_ 0 0 0 ENST00000336053.10_1_14:21678190-21678226:-|nuORF ENST00000336053.10_1_14:21678190-21678226:-|nuORF ENST00000336053.10_1_14:21678190-21678226:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 655.4327392578125 2 655.43193 1308.84931 NaN NaN NaN NaN NaN NaN NaN 56.495 1 57.273 56.773 57.773 0.77786 0 0 0 1.0073 1 25831 25831 1.1933 0 1 16548 7028 10668 10692 18843 18843 0.20723632867566266 LKTWRDLLK 9 Unmodified _LKTWRDLLK_ 0 0 0 ENST00000508836.1_1_4:159590767-159593157:-|nuORF;ENSG00000205208|ENST00000379205|C4orf46 ENST00000508836.1_1_4:159590767-159593157:-|nuORF ENST00000508836.1_1_4:159590767-159593157:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 586.8624877929688 2 586.861141 1171.70773 3.0924 0.0018148 0.88583 0.00051986 3.9782 0.0023347 586.8619497306341 34.141 0.34959 34.93 34.831 35.181 0.78921 31 19 2 0 0 0 0.29523 1 15547 15547 17.113 5.6182 1 344120 16549 6043 10669 10693 18844 18844 0.12874259565069224 LKTWRDLLK 9 Unmodified _LKTWRDLLK_ 0 0 0 ENST00000508836.1_1_4:159590767-159593157:-|nuORF;ENSG00000205208|ENST00000379205|C4orf46 ENST00000508836.1_1_4:159590767-159593157:-|nuORF ENST00000508836.1_1_4:159590767-159593157:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.8634643554688 2 586.861141 1171.70773 3.4803 0.0020424 -0.064159 -3.7652E-05 3.4161 0.0020048 586.8612785298944 34.463 0.33175 35.086 34.94 35.271 0.62294 19 11 2 0 0 0 0.68285 1 15865 15865 9.3831 9.3831 1 271880 16550 6043 10669 10693 18845 18845 0.12874259565069224 LKTWRDLLK 9 Unmodified _LKTWRDLLK_ 0 0 0 ENST00000508836.1_1_4:159590767-159593157:-|nuORF;ENSG00000205208|ENST00000379205|C4orf46 ENST00000508836.1_1_4:159590767-159593157:-|nuORF ENST00000508836.1_1_4:159590767-159593157:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 586.861141 1171.70773 3.4803 0.0020424 -0.064159 -3.7652E-05 3.4161 0.0020048 586.8612785298944 34.463 0.33175 35.086 34.94 35.271 0.62294 0.077907 -0.00038544 NaN 17.113 19 11 2 NaN NaN NaN NaN 0 NaN NaN 0 271880 16551 6043 10669 10693 0.12874259565069224 LKVGRRVI 8 Unmodified _LKVGRRVI_ 0 0 0 ENST00000287598.10_1_15:40462273-40462805:+|nuORF ENST00000287598.10_1_15:40462273-40462805:+|nuORF ENST00000287598.10_1_15:40462273-40462805:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 314.21881103515625 3 314.218666 939.634169 NaN NaN NaN NaN NaN NaN NaN 41.039 1 41.684 41.184 42.184 0.64451 0 0 0 0.99035 1 18768 18768 0.45834 0 1 16552 6726 10670 10694 18846 18846 0.16193755913252517 LKVIRKKLVHK 11 Unmodified _LKVIRKKLVHK_ 0 0 0 nc|ENSG00000259706|Q58FF3|HSP90B2P nc|ENSG00000259706|Q58FF3|HSP90B2P nc|ENSG00000259706|Q58FF3|HSP90B2P MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 681.4767456054688 2 681.477006 1360.93946 NaN NaN NaN NaN NaN NaN NaN 61.453 1 62.193 61.693 62.693 0.7396 0 0 0 1.0073 1 28498 28498 1.1933 0 1 16553 9858 10671 10695 18847 18847 0.27342726986626076 LKVKKLKKG 9 Unmodified _LKVKKLKKG_ 0 0 0 REV__nc|ENSG00000111642|Q14839-2|CHD4 REV__nc|ENSG00000111642|Q14839-2|CHD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.376953125 2 521.378969 1040.74339 NaN NaN NaN NaN NaN NaN NaN 93.025 1 93.111 92.611 93.611 0.086212 0 0 0 0.91265 1 48640 48640 0.45834 0 1 + 16554 11242 10672 10696 18848 18848 0.2246434181274708 LKVKLFLV 8 Unmodified _LKVKLFLV_ 0 0 0 REV__ENST00000517756.5_1_8:110355687-110355771:+|nuORF REV__ENST00000517756.5_1_8:110355687-110355771:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.33526611328125 2 480.336239 958.657924 NaN NaN NaN NaN NaN NaN NaN 94.489 1 95.106 94.606 95.606 0.61736 0 0 0 0.99035 1 43456 43456 0 0 1 + 16555 17026 10673 10697 18849 18849 0.17694176627071556 LKVLKVARFH 10 Unmodified _LKVLKVARFH_ 0 0 0 ENSG00000154478|ENST00000284674|GPR26 ENSG00000154478|ENST00000284674|GPR26 ENSG00000154478|ENST00000284674|GPR26 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.1996154785156 4 303.450026 1209.771 2.2675 0.00068808 -1.2688 -0.00038502 0.99871 0.00030306 303.44956634270466 39.325 0.157 40.122 40.056 40.213 0.79762 10 6 2 0 0 0 0.12676 1 17826 17826 0.15932 0.01943 1 451300 16556 3826 10674 10698 18850 18850 0.17450245072973303 LKVQQLLHIC 10 Unmodified _LKVQQLLHIC_ 0 0 0 ENST00000496925.5_1_3:184023699-184025408:+|nuORF;nc|ENSG00000175166|Q13200-2|PSMD2;nc|ENSG00000175166|Q13200-3|PSMD2;ENSG00000175166|ENST00000310118|PSMD2 ENST00000496925.5_1_3:184023699-184025408:+|nuORF ENST00000496925.5_1_3:184023699-184025408:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.8577880859375 2 597.855001 1193.69545 4.5876 0.0027427 1.6362 0.00097821 6.2238 0.0037209 597.8560144067434 103.41 0.18556 103.73 103.59 103.78 0.31863 23 14 2 0 0 0 0.93628 1 47816 47816 1.6526 0.17072 1 513830 16557 5016 10675 10699 18851 18851 0.10634899830415634 LKVRNLNL 8 Unmodified _LKVRNLNL_ 0 0 0 REV__ENST00000423902.6_1_8:61591384-61653896:+|nuORF REV__ENST00000423902.6_1_8:61591384-61653896:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.28668212890625 2 485.313826 968.613099 3.2413 0.001573 -0.62195 -0.00030184 2.6193 0.0012712 485.31349752434295 56.159 0.31398 56.827 56.707 57.021 0.66829 42 19 3 0 0 0 0.70799 1 25645 25645 5.2307 0 1 1346400 + 16558 16196 10676 10700 18852 18852 0.12753745813745354 LKVVPPVTL 9 Unmodified _LKVVPPVTL_ 0 0 0 REV__ENST00000495445.5_1_17:3543500-3550817:+|nuORF REV__ENST00000495445.5_1_17:3543500-3550817:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.3214111328125 2 483.323328 964.632104 NaN NaN NaN NaN NaN NaN NaN 57.879 1 57.879 57.379 58.379 0 0 0 0 0.90611 1 26690 26690 2.0598 0.21551 1 + 16559 10316 10677 10701 18853 18853 0.1483728238479216 LKWKEIQA 8 Unmodified _LKWKEIQA_ 0 0 0 REV__ENSG00000155085|ENST00000424296|AK9 REV__ENSG00000155085|ENST00000424296|AK9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.2035827636719 3 339.202682 1014.58622 2.7187 0.00092218 -0.44139 -0.00014972 2.2773 0.00077246 339.2024853681274 41.6 0.22789 41.871 41.716 41.944 0.27021 28 11 3 0 0 0 0.57648 1 18951 18951 12.241 1.4167 1 1891800 + 16560 12733 10678 10702 18854 18854 0.07950637202543476 LKWLDLKDNPL 11 Unmodified _LKWLDLKDNPL_ 0 0 0 ENSG00000108829|ENST00000225972|LRRC59 ENSG00000108829|ENST00000225972|LRRC59 ENSG00000108829|ENST00000225972|LRRC59 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.4501647949219 4 339.448686 1353.76564 2.626 0.00089141 1.0426 0.0003539 3.6686 0.0012453 339.44902989488605 66.264 0.46689 66.513 66.362 66.829 0.24847 87 27 4 0 0 0 0.91137 1 30479 30479 1.1098 0.41209 1 1677600 16561 1653 10679 10703 18855 18855 0.10290476699856299 LKWLLFILFLV 11 Unmodified _LKWLLFILFLV_ 0 0 0 REV__nc|ENSG00000163870|Q86W33-2|TPRA1 REV__nc|ENSG00000163870|Q86W33-2|TPRA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 702.9560546875 2 702.95451 1403.89447 NaN NaN NaN NaN NaN NaN NaN 46.446 1 46.446 45.946 46.946 0 0 0 0 1.0079 1 21260 21260 1.3295 1.0225 1 + 16562 13037 10680 10704 18856 18856 0.20867483400706988 LKWLLFILFLV 11 Unmodified _LKWLLFILFLV_ 0 0 0 REV__nc|ENSG00000163870|Q86W33-2|TPRA1 REV__nc|ENSG00000163870|Q86W33-2|TPRA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 703.45751953125 2 702.95451 1403.89447 3.7539 0.0026388 -1.9688 -0.001384 1.7851 0.0012549 702.9528664295158 45.644 0.73448 45.912 45.803 46.537 0.26768 56 31 2 0 0 0 0.91068 4 20923 20860;20923;21001;21054 1.3295 1.0225 1 1782500 + 16563 13037 10680 10704 18857;18858;18859;18860 18858 0.20867483400706988 LKWLLFILFLV 11 Unmodified _LKWLLFILFLV_ 0 0 0 REV__nc|ENSG00000163870|Q86W33-2|TPRA1 REV__nc|ENSG00000163870|Q86W33-2|TPRA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 702.9560546875 2 702.95451 1403.89447 3.9116 0.0027497 -1.5195 -0.0010682 2.392 0.0016815 703.4551712485254 46.37 0.28664 46.635 46.469 46.756 0.26561 14 10 2 0 0 0 0.91345 1 21203 21203 1.3295 1.3295 1 450450 + 16564 13037 10680 10704 18861 18861 0.20867483400706988 LKWLLFILFLV 11 Unmodified _LKWLLFILFLV_ 0 0 0 REV__nc|ENSG00000163870|Q86W33-2|TPRA1 REV__nc|ENSG00000163870|Q86W33-2|TPRA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 468.97259521484375 3 468.972099 1403.89447 3.1707 0.001487 -1.6815 -0.00078858 1.4892 0.00069838 468.97129254398635 45.657 0.3667 46.308 46.135 46.501 0.65104 22 13 2 0 0 0 0.91345 1 20953 20953 0.45452 0.29519 1 547490 + 16565 13037 10680 10704 18862 18862 0.20867483400706988 LKWLLFILFLV 11 Unmodified _LKWLLFILFLV_ 0 0 0 REV__nc|ENSG00000163870|Q86W33-2|TPRA1 REV__nc|ENSG00000163870|Q86W33-2|TPRA1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 702.95451 1403.89447 3.9116 0.0027497 -1.5195 -0.0010682 2.392 0.0016815 703.4551712485254 46.37 0.28664 46.635 46.469 46.756 0.26561 -0.081534 -0.00012699 NaN 1.3295 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 450450 + 16566 13037 10680 10704 0.20867483400706988 LKWLLFILFLV 11 Unmodified _LKWLLFILFLV_ 0 0 0 REV__nc|ENSG00000163870|Q86W33-2|TPRA1 REV__nc|ENSG00000163870|Q86W33-2|TPRA1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 468.972099 1403.89447 2.9392 0.0013784 -1.9624 -0.00092029 0.97688 0.00045813 468.9710046587067 46.383 0.31551 46.648 46.469 46.785 0.26561 0.23274 -0.00043966 NaN 0.45452 30 11 3 NaN NaN NaN NaN 0 NaN NaN 0 1936200 + 16567 13037 10680 10704 0.20867483400706988 LKWLLFILFLV 11 Unmodified _LKWLLFILFLV_ 0 0 0 REV__nc|ENSG00000163870|Q86W33-2|TPRA1 REV__nc|ENSG00000163870|Q86W33-2|TPRA1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 702.95451 1403.89447 4.1915 0.0029464 -0.58473 -0.00041104 3.6068 0.0025354 702.9534338905501 45.384 0.095684 46.035 46.001 46.097 0.65104 0.061442 0.0018606 NaN 1.3295 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 201810 + 16568 13037 10680 10704 0.20867483400706988 LKWTRKMKRRW 11 Unmodified _LKWTRKMKRRW_ 0 0 0 REV__ENST00000486943.1_3_X:49065690-49065852:-|nuORF REV__ENST00000486943.1_3_X:49065690-49065852:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 794.9745483398438 2 794.972096 1587.92964 NaN NaN NaN NaN NaN NaN NaN 97.11 1 97.11 96.61 97.61 0 0 0 0 1.0082 1 52763 52763 0 0 1 + 16569 16759 10681 10705 18863 18863 0.15919215709595846 LKWWKWLRQKR 11 Unmodified _LKWWKWLRQKR_ 0 0 0 REV__chr12:54283132-54283827|539|56.03|0.0|22.42|+|1|HNRNPA1,HNRNPA1|1 REV__chr12:54283132-54283827|539|56.03|0.0|22.42|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 814.4883422851562 2 814.488437 1626.96232 NaN NaN NaN NaN NaN NaN NaN 68.718 1 69.42 68.92 69.92 0.70218 0 0 0 1.0082 1 32788 32788 0 0 1 + 16570 10027 10682 10706 18864 18864 0.17391746104067352 LKWWQWWIWWW 11 Unmodified _LKWWQWWIWWW_ 0 0 0 REV__chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 REV__chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 902.405029296875 2 902.450988 1802.88742 NaN NaN NaN NaN NaN NaN NaN 98.846 1 98.912 98.412 99.412 0.066025 0 0 0 1.0082 1 53263 53263 0 0 1 + 16571 10026 10683 10707 18865 18865 0.0180956357287414 LKYIKEAVR 9 Unmodified _LKYIKEAVR_ 0 0 0 ENSG00000139926|ENST00000344768|FRMD6;nc|ENSG00000139926|Q96NE9-2|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.9015808105469 3 373.901003 1118.68118 NaN NaN NaN NaN NaN NaN NaN 22.27 1 22.551 22.051 23.051 0.28085 0 0 0 0.036101 1 10066 10066 46.022 0 1 16572 3172 10684 10708 18866 18866 0.12658570673738723 LKYQRILER 9 Unmodified _LKYQRILER_ 0 0 0 OPA1|p.R842Ifs*2|1|0.3|ENSG00000198836|chr3:193664903-193664904|-/TATA|frameshift_variant;nc|ENSG00000198836|O60313-13|OPA1;nc|ENSG00000198836|O60313|OPA1;nc|ENSG00000198836|O60313-9|OPA1;nc|ENSG00000198836|O60313-11|OPA1;nc|ENSG00000198836|O60313-2|OPA1;ENSG00000198836|ENST00000361510|OPA1 OPA1|p.R842Ifs*2|1|0.3|ENSG00000198836|chr3:193664903-193664904|-/TATA|frameshift_variant OPA1|p.R842Ifs*2|1|0.3|ENSG00000198836|chr3:193664903-193664904|-/TATA|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 406.8919677734375 3 406.915423 1217.72444 2.9388 0.0011958 0.11829 4.8134E-05 3.0571 0.001244 406.91544380684013 29.875 0.30529 29.875 29.682 29.987 0 55 24 3 0 0 0 0.11335 1 13410 13410 2.086 0 1 795380 16573 5945 10685 10709 18867 18867 0.1242876045103003 LKYYKLVL 8 Unmodified _LKYYKLVL_ 0 0 0 REV__ENST00000498732.5_1_X:139854537-139854750:+|nuORF REV__ENST00000498732.5_1_X:139854537-139854750:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.3363647460938 2 520.331153 1038.64775 NaN NaN NaN NaN NaN NaN NaN 58.625 1 59.292 58.792 59.792 0.66703 0 0 0 0.81105 1 26836 26836 18.135 0 1 + 16574 16874 10686 10710 18868 18868 0.12997568901823797 LLAAPAPSRAL 11 Unmodified _LLAAPAPSRAL_ 0 0 0 ENSG00000204334|ENST00000697325|ERICH2 ENSG00000204334|ENST00000697325|ERICH2 ENSG00000204334|ENST00000697325|ERICH2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.3334350585938 2 540.332216 1078.64988 4.0338 0.0021796 -2.3233 -0.0012554 1.7105 0.00092423 540.3305906509237 96.788 0.21559 97.066 96.976 97.192 0.27778 22 12 2 0 0 0 0.84422 1 44484 44484 4.897 1.3005 1 518380 16575 6000 10687 10711 18869 18869 0.11369997639667417 LLAIVHVF 8 Unmodified _LLAIVHVF_ 0 0 0 ENST00000444078.5_1_2:231774643-231775150:-|nuORF ENST00000444078.5_1_2:231774643-231775150:-|nuORF ENST00000444078.5_1_2:231774643-231775150:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 304.5371398925781 3 304.528618 910.564024 NaN NaN NaN NaN NaN NaN NaN 45.393 1 45.393 44.893 45.893 0 0 0 0 0.99035 1 20765 20765 4.3292 0 1 16576 7956 10688 10712 18870 18870 0.1051645752480681 LLAIVHVF 8 Unmodified _LLAIVHVF_ 0 0 0 ENST00000444078.5_1_2:231774643-231775150:-|nuORF ENST00000444078.5_1_2:231774643-231775150:-|nuORF ENST00000444078.5_1_2:231774643-231775150:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 304.53741455078125 3 304.528618 910.564024 NaN NaN NaN NaN NaN NaN NaN 45.433 1 45.433 44.933 45.933 0 0 0 0 0.99035 1 20783 20783 1.8442 0 1 16577 7956 10688 10712 18871 18871 0.1051645752480681 LLAIVHVF 8 Unmodified _LLAIVHVF_ 0 0 0 ENST00000444078.5_1_2:231774643-231775150:-|nuORF ENST00000444078.5_1_2:231774643-231775150:-|nuORF ENST00000444078.5_1_2:231774643-231775150:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 304.5274963378906 3 304.528618 910.564024 NaN NaN NaN NaN NaN NaN NaN 45.576 1 45.576 45.076 46.076 0 0 0 0 0.99035 1 20849 20849 1.8442 0 1 16578 7956 10688 10712 18872 18872 0.1051645752480681 LLAIVHVF 8 Unmodified _LLAIVHVF_ 0 0 0 ENST00000444078.5_1_2:231774643-231775150:-|nuORF ENST00000444078.5_1_2:231774643-231775150:-|nuORF ENST00000444078.5_1_2:231774643-231775150:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.5277099609375 3 304.528618 910.564024 2.2103 0.00067311 -2.9031 -0.00088406 -0.69274 -0.00021096 304.5270571061414 40.555 0.26669 41.359 41.164 41.431 0.80351 28 18 2 0 0 0 0.71911 1 18370 18370 4.3292 0 1 1293000 16579 7956 10688 10712 18873 18873 0.1051645752480681 LLAIVHVF 8 Unmodified _LLAIVHVF_ 0 0 0 ENST00000444078.5_1_2:231774643-231775150:-|nuORF ENST00000444078.5_1_2:231774643-231775150:-|nuORF ENST00000444078.5_1_2:231774643-231775150:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.5374450683594 3 304.528618 910.564024 NaN NaN NaN NaN NaN NaN NaN 44.391 1 45.212 44.712 45.712 0.82075 0 0 0 0.99035 1 20215 20215 4.3292 0 1 16580 7956 10688 10712 18874 18874 0.1051645752480681 LLAIVHVF 8 Unmodified _LLAIVHVF_ 0 0 0 ENST00000444078.5_1_2:231774643-231775150:-|nuORF ENST00000444078.5_1_2:231774643-231775150:-|nuORF ENST00000444078.5_1_2:231774643-231775150:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.53717041015625 3 304.528618 910.564024 NaN NaN NaN NaN NaN NaN NaN 44.451 1 45.271 44.771 45.771 0.82075 0 0 0 0.99035 1 20242 20242 1.8442 0 1 16581 7956 10688 10712 18875 18875 0.1051645752480681 LLAKHWKLL 9 Unmodified _LLAKHWKLL_ 0 0 0 ENSG00000167700|ENST00000301327|MFSD3 ENSG00000167700|ENST00000301327|MFSD3 ENSG00000167700|ENST00000301327|MFSD3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.9126892089844 3 374.577972 1120.71209 2.3255 0.00087109 0.63718 0.00023867 2.9627 0.0011098 374.5781927551378 42.323 0.18517 43.132 43.057 43.242 0.80855 45 36 2 0 0 0 0.11267 1 19270 19270 2.7352 0.23671 1 18538000 16582 4574 10689 10713 18876 18876 0.15655768778628953 LLALHVKFLR 10 Unmodified _LLALHVKFLR_ 0 0 0 REV__ENST00000332408.8_1_15:49127111-49135710:-|nuORF REV__ENST00000332408.8_1_15:49127111-49135710:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 403.93084716796875 3 403.932526 1208.77575 NaN NaN NaN NaN NaN NaN NaN 43.47 1 44.118 43.618 44.618 0.64872 0 0 0 1.0011 1 19917 19917 0.77653 0.078866 1 + 16583 15385 10690 10714 18877 18877 0.1797112921574353 LLALKLRRWH 10 Unmodified _LLALKLRRWH_ 0 0 0 nc|ENSG00000262576|Q9Y5G9-2|PCDHGA4;ENSG00000262576|ENST00000571252|PCDHGA4 nc|ENSG00000262576|Q9Y5G9-2|PCDHGA4 nc|ENSG00000262576|Q9Y5G9-2|PCDHGA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 653.4185180664062 2 653.416949 1304.81934 NaN NaN NaN NaN NaN NaN NaN 51.037 1 51.854 51.354 52.354 0.81738 0 0 0 1.0015 1 23247 23247 0.45834 0 1 16584 6315 10691 10715 18878 18878 0.17912738712880127 LLALPVLPVLK 11 Unmodified _LLALPVLPVLK_ 0 0 0 REV__ENST00000225964.9_1_17:48265286-48266811:-|nuORF REV__ENST00000225964.9_1_17:48265286-48266811:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.4115600585938 2 588.409935 1174.80532 NaN NaN NaN NaN NaN NaN NaN 65.171 1 65.419 64.919 65.919 0.24803 0 0 0 1.008 1 29857 29857 0.35063 0.35063 1 + 16585 14837 10692 10716 18879 18879 0.2249064844120312 LLALRIISI 9 Unmodified _LLALRIISI_ 0 0 0 ENST00000487533.1_1_2:9411660-9411717:-|nuORF ENST00000487533.1_1_2:9411660-9411717:-|nuORF ENST00000487533.1_1_2:9411660-9411717:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.3512878417969 2 506.349877 1010.6852 3.2482 0.0016447 0.094212 4.7704E-05 3.3424 0.0016924 506.34996106464695 84.237 0.25053 84.485 84.333 84.584 0.24758 31 12 3 0 0 0 0.0095519 2 38765 38765;38814 82.529 12.331 1 847070 16586 8352 10693 10717 18880;18881 18880 0.18028660167476573 LLALRIISI 9 Unmodified _LLALRIISI_ 0 0 0 ENST00000487533.1_1_2:9411660-9411717:-|nuORF ENST00000487533.1_1_2:9411660-9411717:-|nuORF ENST00000487533.1_1_2:9411660-9411717:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.3516540527344 2 506.349877 1010.6852 3.4038 0.0017235 -0.43119 -0.00021833 2.9727 0.0015052 506.3495426052264 83.757 0.25289 84.42 84.27 84.523 0.66219 29 17 2 0 0 0 0.016529 1 38559 38559 72.968 10.395 1 871810 16587 8352 10693 10717 18882 18882 0.18028660167476573 LLAPAKHLI 9 Unmodified _LLAPAKHLI_ 0 0 0 ENSG00000145632|ENST00000274289|PLK2;ENST00000502671.5_1_5:57749965-57753328:-|nuORF;ENST00000510629.1_1_5:57752724-57753235:-|nuORF ENSG00000145632|ENST00000274289|PLK2 ENSG00000145632|ENST00000274289|PLK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 325.8840026855469 3 325.883172 974.627687 2.3911 0.00077922 0.020408 6.6506E-06 2.4115 0.00078587 325.8832107604407 26.348 0.29061 26.613 26.461 26.751 0.26489 54 22 3 0 0 0 0.29523 2 11988 11942;11988 17.113 0 1 1222300 16588 3478 10694 10718 18883;18884 18884 0.13935817961908015 LLAPAKHLI 9 Unmodified _LLAPAKHLI_ 0 0 0 ENSG00000145632|ENST00000274289|PLK2;ENST00000502671.5_1_5:57749965-57753328:-|nuORF;ENST00000510629.1_1_5:57752724-57753235:-|nuORF ENSG00000145632|ENST00000274289|PLK2 ENSG00000145632|ENST00000274289|PLK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 325.88385009765625 3 325.883172 974.627687 2.1204 0.00069101 0.081266 2.6483E-05 2.2017 0.00071749 325.88324046036274 25.974 0.28795 26.599 26.446 26.734 0.62505 48 21 3 0 0 0 0.5141 1 11895 11895 12.241 2.8575 1 1254300 16589 3478 10694 10718 18885 18885 0.13935817961908015 LLARVFLAL 9 Unmodified _LLARVFLAL_ 0 0 0 nc|ENSG00000141161|Q8IWX7-2|UNC45B;ENSG00000141161|ENST00000394570|UNC45B;nc|ENSG00000141161|Q8IWX7|UNC45B nc|ENSG00000141161|Q8IWX7-2|UNC45B nc|ENSG00000141161|Q8IWX7-2|UNC45B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.33856201171875 2 508.33677 1014.65899 3.4979 0.0017781 0.0069999 3.5583E-06 3.5049 0.0017817 508.3365747014152 87.372 0.38358 87.622 87.439 87.822 0.25065 46 17 4 0 0 0 0.078225 1 40181 40181 50.855 4.8341 1 2400800 16590 3239 10695 10719 18886 18886 0.1522439099597932 LLAVWAPRL 9 Unmodified _LLAVWAPRL_ 0 0 0 REV__GRIN2A|p.F847Lfs*30|1|0.22|ENSG00000183454|chr16:9768906-9768907|AA/-|frameshift_variant REV__GRIN2A|p.F847Lfs*30|1|0.22|ENSG00000183454|chr16:9768906-9768907|AA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.887451171875 3 346.886805 1037.63859 1.8337 0.0006361 0.66743 0.00023152 2.5012 0.00086762 346.88687971099887 73.002 0.46554 73.666 73.491 73.957 0.66398 131 49 3 0 0 0 1.1703 1 33440 33440 1.1933 0 1 3112700 + 16591 17693 10696 10720 18887 18887 0.12127220336174105 LLCCMQMWCWS 11 Unmodified _LLCCMQMWCWS_ 0 0 0 REV__ENST00000442692.2_1_11:68822646-68853210:+|nuORF REV__ENST00000442692.2_1_11:68822646-68853210:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 702.2732543945312 2 702.2755 1402.53645 NaN NaN NaN NaN NaN NaN NaN 33.972 1 34.761 34.261 35.261 0.78921 0 0 0 1.008 1 15381 15381 0.35063 0.35063 1 + 16592 16355 10697 10721 18888 18888 -0.14871964447570463 LLCKKLFI 8 Unmodified _LLCKKLFI_ 0 0 0 REV__nc|ENSG00000140471|Q8NG48-3|LINS1 REV__nc|ENSG00000140471|Q8NG48-3|LINS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.3155822753906 2 489.314449 976.614345 3.3782 0.001653 -0.57037 -0.00027909 2.8078 0.0013739 489.3141095448652 90.571 0.52065 91.243 90.979 91.5 0.67271 88 26 5 0 0 0 0.7471 2 41700 41700;41753 0 0 1 30737000 + 16593 12250 10698 10722 18889;18890 18889 0.1251024385827577 LLCLGQGA 8 Unmodified _LLCLGQGA_ 0 0 0 REV__ENSG00000042781|ENST00000307340|USH2A REV__ENSG00000042781|ENST00000307340|USH2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 387.7117004394531 2 387.712556 773.41056 NaN NaN NaN NaN NaN NaN NaN 60.452 1 61.194 60.694 61.694 0.74222 0 0 0 0.99035 1 27893 27893 2.8892 0 1 + 16594 10324 10699 10723 18891 18891 0.014790994168379257 LLCLKKCV 8 Unmodified _LLCLKKCV_ 0 0 0 ENST00000420115.6_2_3:133306228-133306333:+|nuORF ENST00000420115.6_2_3:133306228-133306333:+|nuORF ENST00000420115.6_2_3:133306228-133306333:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 307.1893615722656 3 307.187098 918.539466 NaN NaN NaN NaN NaN NaN NaN 29.351 1 29.351 28.851 29.851 0 0 0 0 0.99035 1 13245 13245 0.45834 0 1 16595 7748 10700 10724 18892 18892 0.07693738055411359 LLCLKKCV 8 Unmodified _LLCLKKCV_ 0 0 0 ENST00000420115.6_2_3:133306228-133306333:+|nuORF ENST00000420115.6_2_3:133306228-133306333:+|nuORF ENST00000420115.6_2_3:133306228-133306333:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 307.18914794921875 3 307.187098 918.539466 NaN NaN NaN NaN NaN NaN NaN 27.326 1 28.112 27.612 28.612 0.78627 0 0 0 0.99035 1 12284 12284 0.45834 0 1 16596 7748 10700 10724 18893 18893 0.07693738055411359 LLCLSLELL 9 Unmodified _LLCLSLELL_ 0 0 0 nc|ENSG00000204956|Q9Y5H4-2|PCDHGA1;ENSG00000204956|ENST00000517417|PCDHGA1 nc|ENSG00000204956|Q9Y5H4-2|PCDHGA1 nc|ENSG00000204956|Q9Y5H4-2|PCDHGA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.5426940917969 3 339.540195 1015.59875 NaN NaN NaN NaN NaN NaN NaN 24.874 1 25.146 24.646 25.646 0.27129 0 0 0 0.40345 1 11280 11280 22.736 2.1553 1 16597 6036 10701 10725 18894 18894 0.09157912550585934 LLCPAGRLPRR 11 Unmodified _LLCPAGRLPRR_ 0 0 0 ENST00000566104.1_1_16:67189803-67193780:-|nuORF ENST00000566104.1_1_16:67189803-67193780:-|nuORF ENST00000566104.1_1_16:67189803-67193780:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 313.6929931640625 4 313.692121 1250.73938 2.2415 0.00070313 1.1848 0.00037168 3.4263 0.0010748 313.69224850970977 39.977 0.26141 40.777 40.628 40.889 0.80014 40 15 3 0 0 0 0.89065 1 18095 18095 2.8433 2.8433 1 5019700 16598 9051 10702 10726 18895 18895 0.12403929047354723 LLCPAGRLPRR 11 Unmodified _LLCPAGRLPRR_ 0 0 0 ENST00000566104.1_1_16:67189803-67193780:-|nuORF ENST00000566104.1_1_16:67189803-67193780:-|nuORF ENST00000566104.1_1_16:67189803-67193780:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 313.6932373046875 4 313.692121 1250.73938 2.336 0.0007328 1.5788 0.00049527 3.9149 0.0012281 313.6923627605265 39.892 1.0868 40.533 39.686 40.772 0.64136 87 45 3 0 0 0 0.89065 2 18188 18137;18188 2.8433 2.8433 1 7574300 16599 9051 10702 10726 18896;18897 18897 0.12403929047354723 LLCPAGRLPRR 11 Unmodified _LLCPAGRLPRR_ 0 0 0 ENST00000566104.1_1_16:67189803-67193780:-|nuORF ENST00000566104.1_1_16:67189803-67193780:-|nuORF ENST00000566104.1_1_16:67189803-67193780:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 313.9441223144531 4 313.692121 1250.73938 2.3698 0.00074338 1.3339 0.00041844 3.7037 0.0011618 313.6922805597807 40.248 0.18114 40.889 40.772 40.953 0.64135 35 19 4 0 0 0 0.89065 1 18388 18388 2.8433 2.8433 1 7992600 16600 9051 10702 10726 18898 18898 0.12403929047354723 LLCPAGRLPRR 11 Unmodified _LLCPAGRLPRR_ 0 0 0 ENST00000566104.1_1_16:67189803-67193780:-|nuORF ENST00000566104.1_1_16:67189803-67193780:-|nuORF ENST00000566104.1_1_16:67189803-67193780:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 313.692121 1250.73938 2.0152 0.00063216 1.6518 0.00051814 3.667 0.0011503 313.69233764220763 41.105 0.2992 41.105 40.978 41.278 0 0.055555 0.00013276 NaN 2.8433 58 30 4 NaN NaN NaN NaN 0 NaN NaN 0 5029100 16601 9051 10702 10726 0.12403929047354723 LLCPAGRLPRR 11 Unmodified _LLCPAGRLPRR_ 0 0 0 ENST00000566104.1_1_16:67189803-67193780:-|nuORF ENST00000566104.1_1_16:67189803-67193780:-|nuORF ENST00000566104.1_1_16:67189803-67193780:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 313.692121 1250.73938 2.2415 0.00070313 1.1848 0.00037168 3.4263 0.0010748 313.69224850970977 39.977 0.26141 40.777 40.628 40.889 0.80014 0.090224 0.00027533 NaN 2.8433 40 15 3 NaN NaN NaN NaN 0 NaN NaN 0 5019700 16602 9051 10702 10726 0.12403929047354723 LLCPAGRLPRR 11 Unmodified _LLCPAGRLPRR_ 0 0 0 ENST00000566104.1_1_16:67189803-67193780:-|nuORF ENST00000566104.1_1_16:67189803-67193780:-|nuORF ENST00000566104.1_1_16:67189803-67193780:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 313.692121 1250.73938 2.2206 0.00069659 1.7546 0.00055039 3.9752 0.001247 313.69239910326183 40.361 0.40432 41.161 41.023 41.428 0.80014 0.1117 0.00026175 NaN 2.8433 56 28 3 NaN NaN NaN NaN 0 NaN NaN 0 4358800 16603 9051 10702 10726 0.12403929047354723 LLCPPKRQ 8 Unmodified _LLCPPKRQ_ 0 0 0 ENST00000420509.1_1_2:206950883-206951051:+|nuORF ENST00000420509.1_1_2:206950883-206951051:+|nuORF ENST00000420509.1_1_2:206950883-206951051:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.7818908691406 2 477.781305 953.548056 NaN NaN NaN NaN NaN NaN NaN 41.823 1 41.823 41.323 42.323 0 0 0 0 0.99035 1 19029 19029 5.2307 2.6532 1 16604 7751 10703 10727 18899 18899 0.06942428016259328 LLCQAEPWV 9 Unmodified _LLCQAEPWV_ 0 0 0 REV__ENST00000254695.12_1_17:2699757-2861066:+|nuORF REV__ENST00000254695.12_1_17:2699757-2861066:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.772705078125 2 529.770603 1057.52665 3.2372 0.001715 -0.022032 -1.1672E-05 3.2151 0.0017033 529.7706967134613 33.474 0.60715 33.728 33.402 34.009 0.25389 54 33 3 0 0 0 0.95612 1 15323 15323 4.756 0.42677 1 352410 + 16605 14924 10704 10728 18900 18900 0.0001899819685604598 LLCVVVQNSL 10 Unmodified _LLCVVVQNSL_ 0 0 0 REV__ENSG00000119285|ENST00000366582|HEATR1 REV__ENSG00000119285|ENST00000366582|HEATR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.3169555664062 2 544.312635 1086.61072 3.2519 0.00177 3.3361 0.0018159 6.588 0.0035859 544.3152855315532 34.512 0.21424 34.512 34.384 34.599 0 16 12 2 0 0 0 0.4567 1 15647 15647 22.736 2.3217 1 532760 + 16606 11495 10705 10729 18901 18901 0.07087529293767147 LLDILPSR 8 Unmodified _LLDILPSR_ 0 0 0 nc|ENSG00000169372|P78560-2|CRADD;ENST00000549615.5_1_12:94071236-94184481:+|nuORF;ENSG00000169372|ENST00000332896|CRADD nc|ENSG00000169372|P78560-2|CRADD nc|ENSG00000169372|P78560-2|CRADD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.78509521484375 2 463.78711 925.559667 NaN NaN NaN NaN NaN NaN NaN 65.534 1 66.191 65.691 66.691 0.65672 0 0 0 0.99035 1 30044 30044 4.756 0 1 16607 4687 10706 10730 18902 18902 0.0939094831123839 LLDLLVRL 8 Unmodified _LLDLLVRL_ 0 0 0 ENST00000378308.6_2_X:41077824-41078367:+|nuORF ENST00000378308.6_2_X:41077824-41078367:+|nuORF ENST00000378308.6_2_X:41077824-41078367:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.82403564453125 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 54.175 1 54.175 53.675 54.675 0 0 0 0 0.99035 1 24846 24846 2.5775 0 1 16608 7432 10707 10731 18903 18903 0.14868398242049352 LLDLLVRL 8 Unmodified _LLDLLVRL_ 0 0 0 ENST00000378308.6_2_X:41077824-41078367:+|nuORF ENST00000378308.6_2_X:41077824-41078367:+|nuORF ENST00000378308.6_2_X:41077824-41078367:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.8248596191406 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 57.475 1 57.475 56.975 57.975 0 0 0 0 0.99035 1 26493 26493 2.5775 0 1 16609 7432 10707 10731 18904 18904 0.14868398242049352 LLDMSSTF 8 Unmodified _LLDMSSTF_ 0 0 0 ENSG00000168899|ENST00000306384|VAMP5 ENSG00000168899|ENST00000306384|VAMP5 ENSG00000168899|ENST00000306384|VAMP5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.2215881347656 2 457.220411 912.426269 2.5438 0.0011631 0.10806 4.9409E-05 2.6519 0.0012125 457.2205617117485 80.658 0.57951 80.907 80.671 81.251 0.24947 83 34 3 0 0 0 0.60101 1 37139 37139 18.135 0 1 1269600 16610 4658 10708 10732 18905 18905 -0.03344658856769911 LLDRKTVAL 9 Unmodified _LLDRKTVAL_ 0 0 0 ENSG00000119408|ENST00000320246|NEK6;nc|ENSG00000119408|Q9HC98-3|NEK6;nc|ENSG00000119408|Q9HC98-4|NEK6;nc|ENSG00000119408|Q9HC98-2|NEK6 ENSG00000119408|ENST00000320246|NEK6 ENSG00000119408|ENST00000320246|NEK6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.8008422851562 2 514.826766 1027.63898 3.3975 0.0017491 0.4314 0.00022209 3.8289 0.0019712 514.8260106507458 35.35 0.2388 35.605 35.444 35.683 0.25524 12 8 2 0 0 0 0.084747 1 16101 16101 6.7232 0 1 262700 16611 2143 10709 10733 18906 18906 0.12626595265373908 LLDRRRRRRRR 11 Unmodified _LLDRRRRRRRR_ 0 0 0 REV__ENSG00000185052|ENST00000328041|SLC24A3 REV__ENSG00000185052|ENST00000328041|SLC24A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 805.0133666992188 2 805.014538 1608.01452 NaN NaN NaN NaN NaN NaN NaN 45.994 1 45.994 45.494 46.494 0 0 0 0 1.0082 1 21044 21044 0 0 1 + 16612 14003 10710 10734 18907 18907 0.23483722290393416 LLECCACGGRR 11 Unmodified _LLECCACGGRR_ 0 0 0 REV__ENSG00000270806|ENST00000605587|C17orf50 REV__ENSG00000270806|ENST00000605587|C17orf50 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.21923828125 3 394.184311 1179.5311 NaN NaN NaN NaN NaN NaN NaN 65.037 1 65.285 64.785 65.785 0.24803 0 0 0 1.0061 1 29795 29795 1.1098 0 1 + 16613 14714 10711 10735 18908 18908 -0.05148183923529359 LLEEIELNISE 11 Unmodified _LLEEIELNISE_ 0 0 0 ENSG00000132854|ENST00000371153|KANK4 ENSG00000132854|ENST00000371153|KANK4 ENSG00000132854|ENST00000371153|KANK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 651.3469848632812 2 651.345383 1300.67621 NaN NaN NaN NaN NaN NaN NaN 32.186 1 32.974 32.474 33.474 0.78795 0 0 0 1.0059 1 14554 14554 2.9952 0.71247 1 16614 2732 10712 10736 18909 18909 0.037901772298027936 LLEGEESR 8 Unmodified _LLEGEESR_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;PDPR-VIM|1|fusion;nc|ENSG00000135406|P41219-2|PRPH;CON__Q7Z794;CON__Q6IFZ6;nc|ENSG00000170421|P05787-2|KRT8;CON__Q9H552;ENSG00000170421|ENST00000692008|KRT8;CON__P05787;ENST00000409686.2_1_9:102067468-102068890:+|nuORF;ENSG00000135406|ENST00000257860|PRPH;ENSG00000175084|ENST00000373960|DES;ENST00000548657.5_1_12:52639243-52641994:+|nuORF;CON__Q9DCV7;ENST00000546583.5_1_12:53291214-53294602:-|nuORF;ENST00000562317.1_1_16:78082520-78083381:-|nuORF;ENST00000547031.5_1_12:53292389-53294972:-|nuORF;ENST00000552322.5_1_12:52638288-52642544:+|nuORF;ENSG00000189182|ENST00000341809|KRT77;ENSG00000167768|ENST00000252244|KRT1;CON__P04264;ENSG00000135480|ENST00000331817|KRT7;CON__Q3KNV1;CON__P08729;ENSG00000161849|ENST00000257951|KRT84;CON__Q9NSB2;CON__Q6ISB0 ENSG00000026025|ENST00000544301|VIM;ENSG00000167768|ENST00000252244|KRT1;ENSG00000135480|ENST00000331817|KRT7 ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.7400207519531 2 466.737814 931.461075 2.911 0.0013587 1.1999 0.00056003 4.1108 0.0019187 466.73839206309077 14.991 0.35662 15.645 15.525 15.881 0.65356 40 33 2 0 0 0 0.47805 1 6763 6763 22.736 22.736 1 145880 + 16615 483;4579;216 10713 10737 18910 18910 -0.0073969972447684995 LLEGEESR 8 Unmodified _LLEGEESR_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;PDPR-VIM|1|fusion;nc|ENSG00000135406|P41219-2|PRPH;CON__Q7Z794;CON__Q6IFZ6;nc|ENSG00000170421|P05787-2|KRT8;CON__Q9H552;ENSG00000170421|ENST00000692008|KRT8;CON__P05787;ENST00000409686.2_1_9:102067468-102068890:+|nuORF;ENSG00000135406|ENST00000257860|PRPH;ENSG00000175084|ENST00000373960|DES;ENST00000548657.5_1_12:52639243-52641994:+|nuORF;CON__Q9DCV7;ENST00000546583.5_1_12:53291214-53294602:-|nuORF;ENST00000562317.1_1_16:78082520-78083381:-|nuORF;ENST00000547031.5_1_12:53292389-53294972:-|nuORF;ENST00000552322.5_1_12:52638288-52642544:+|nuORF;ENSG00000189182|ENST00000341809|KRT77;ENSG00000167768|ENST00000252244|KRT1;CON__P04264;ENSG00000135480|ENST00000331817|KRT7;CON__Q3KNV1;CON__P08729;ENSG00000161849|ENST00000257951|KRT84;CON__Q9NSB2;CON__Q6ISB0 ENSG00000026025|ENST00000544301|VIM;ENSG00000167768|ENST00000252244|KRT1;ENSG00000135480|ENST00000331817|KRT7 ENSG00000026025|ENST00000544301|VIM MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 466.737814 931.461075 2.5341 0.0011828 0.78008 0.00036409 3.3142 0.0015469 466.73816324645946 15.201 0.36295 15.507 15.313 15.676 0.306 -0.069069 -0.00016387 NaN 22.736 49 35 2 NaN NaN NaN NaN 0 NaN NaN 0 74733 + 16616 483;4579;216 10713 10737 -0.0073969972447684995 LLEHIRKKRHF 11 Unmodified _LLEHIRKKRHF_ 0 0 0 ENSG00000162302|ENST00000334205|RPS6KA4;nc|ENSG00000162302|O75676-2|RPS6KA4 ENSG00000162302|ENST00000334205|RPS6KA4 ENSG00000162302|ENST00000334205|RPS6KA4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.6358337402344 3 492.968522 1475.88374 4.0238 0.0019836 -0.60827 -0.00029986 3.4155 0.0016837 492.9682429252143 106.05 0.14253 106.36 106.27 106.41 0.31628 12 5 3 0 0 0 0.13295 1 48949 48949 0.094841 0.094841 1 913660 16617 4127 10714 10738 18911 18911 0.16482893798979603 LLEHIRKKRHF 11 Unmodified _LLEHIRKKRHF_ 0 0 0 ENSG00000162302|ENST00000334205|RPS6KA4;nc|ENSG00000162302|O75676-2|RPS6KA4 ENSG00000162302|ENST00000334205|RPS6KA4 ENSG00000162302|ENST00000334205|RPS6KA4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 492.968522 1475.88374 2.735 0.0013483 -0.039867 -1.9653E-05 2.6951 0.0013286 492.96841608853913 106.02 0.12674 106.02 105.92 106.04 0 -0.16868 0.00062901 NaN 0.094841 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 847440 16618 4127 10714 10738 0.16482893798979603 LLEKLLPLI 9 Unmodified _LLEKLLPLI_ 0 0 0 REV__nc|ENSG00000083312|Q92973-3|TNPO1 REV__nc|ENSG00000083312|Q92973-3|TNPO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.2441101074219 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 33.115 1 33.368 32.868 33.868 0.25389 0 0 0 0.91206 1 15079 15079 0.26902 0 1 + 16619 10627 10715 10739 18912 18912 0.18194411107424457 LLEKNGKK 8 Unmodified _LLEKNGKK_ 0 0 0 REV__ENST00000587860.1_1_18:46287547-46385927:+|nuORF REV__ENST00000587860.1_1_18:46287547-46385927:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.2943420410156 2 465.292559 928.570566 3.0474 0.0014179 0.12534 5.832E-05 3.1728 0.0014763 465.29277057220287 32.169 0.16009 32.423 32.299 32.459 0.25452 14 9 2 0 0 0 0.29255 1 14630 14630 36.044 3.7387 1 500130 + 16620 17554 10716 10740 18913 18913 0.10342350685516521 LLEKNGKK 8 Unmodified _LLEKNGKK_ 0 0 0 REV__ENST00000587860.1_1_18:46287547-46385927:+|nuORF REV__ENST00000587860.1_1_18:46287547-46385927:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.2942810058594 2 465.292559 928.570566 2.7951 0.0013005 0.16878 7.8533E-05 2.9638 0.0013791 465.292639689341 31.536 0.19877 32.153 32.021 32.219 0.61736 19 13 2 0 0 0 0.29255 1 14456 14456 36.044 3.7387 1 275210 + 16621 17554 10716 10740 18914 18914 0.10342350685516521 LLEKNGKK 8 Unmodified _LLEKNGKK_ 0 0 0 REV__ENST00000587860.1_1_18:46287547-46385927:+|nuORF REV__ENST00000587860.1_1_18:46287547-46385927:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.7518310546875 2 465.292559 928.570566 2.7951 0.0013005 0.16878 7.8533E-05 2.9638 0.0013791 465.292639689341 31.536 0.19877 32.153 32.021 32.219 0.61736 19 13 2 0 0 0 0.10357 1 14469 14469 28.487 3.0875 1 275210 + 16622 17554 10716 10740 18915 18915 0.10342350685516521 LLEMERWK 8 Unmodified _LLEMERWK_ 0 0 0 ENST00000577255.1_1_18:24039580-24056655:-|nuORF;nc|ENSG00000134504|Q719H9|KCTD1;ENSG00000134504|ENST00000580059|KCTD1 ENST00000577255.1_1_18:24039580-24056655:-|nuORF ENST00000577255.1_1_18:24039580-24056655:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.7994995117188 2 552.797152 1103.57975 NaN NaN NaN NaN NaN NaN NaN 39.877 1 40.144 39.644 40.644 0.26696 0 0 0 0.99035 1 18141 18141 2.5775 0.27475 1 16623 2812 10717 10741 18916 18916 0.0321037597952909 LLEMKELV 8 Unmodified _LLEMKELV_ 0 0 0 REV__ENSG00000100151|ENST00000356976|PICK1 REV__ENSG00000100151|ENST00000356976|PICK1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.293212890625 2 487.783179 973.551804 3.403 0.0016599 0.15268 7.4474E-05 3.5557 0.0017344 487.7829342160933 94.924 0.10344 95.541 95.514 95.618 0.61736 7 4 2 0 0 0 0.14267 1 43678 43678 0.69038 0 1 193950 + 16624 10807 10718 10742 18917 18917 0.063970529994549 LLEVLEISI 9 Unmodified _LLEVLEISI_ 0 0 0 ENST00000346964.6_2_3:196863483-196863546:-|nuORF ENST00000346964.6_2_3:196863483-196863546:-|nuORF ENST00000346964.6_2_3:196863483-196863546:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.7991333007812 2 514.815533 1027.61651 3.4958 0.0017997 -0.33168 -0.00017075 3.1641 0.0016289 514.8150737538792 35.523 0.17048 36.149 36.03 36.201 0.62631 6 4 2 0 0 0 0.093314 1 16252 16252 23.148 0 1 134550 16625 7116 10719 10743 18918 18918 0.10380951077104328 LLFFLDPI 8 Unmodified _LLFFLDPI_ 0 0 0 REV__ENST00000357727.6_1_7:28452319-28452490:+|nuORF REV__ENST00000357727.6_1_7:28452319-28452490:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.2906188964844 2 489.288954 976.563355 NaN NaN NaN NaN NaN NaN NaN 18.561 1 19.222 18.722 19.722 0.66072 0 0 0 0.57268 1 8410 8410 26.341 1.6674 1 + 16626 15571 10720 10744 18919 18919 0.07413618085092821 LLFFSQSAI 9 Unmodified _LLFFSQSAI_ 0 0 0 ENST00000555120.1_1_14:89029976-89034221:+|nuORF ENST00000555120.1_1_14:89029976-89034221:+|nuORF ENST00000555120.1_1_14:89029976-89034221:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.79052734375 2 513.286943 1024.55933 3.5233 0.0018085 -0.28539 -0.00014649 3.2379 0.001662 513.2867115711521 48.85 0.56168 49.505 49.201 49.763 0.65525 46 20 3 0 0 0 0.12301 1 22290 22290 28.487 4.4663 1 1355900 16627 8913 10721 10745 18920 18920 0.04803528591378381 LLFGLGHALLF 11 Unmodified _LLFGLGHALLF_ 0 0 0 REV__ENSG00000151117|ENST00000280734|TMEM86A REV__ENSG00000151117|ENST00000280734|TMEM86A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 600.8621826171875 2 600.860609 1199.70667 NaN NaN NaN NaN NaN NaN NaN 67.899 1 68.152 67.652 68.652 0.25227 0 0 0 1.0055 1 31104 31104 3.5965 0.31518 1 + 16628 12605 10722 10746 18921 18921 0.11480045196162791 LLFHLLLLDKP 11 Unmodified _LLFHLLLLDKP_ 0 0 0 REV__ENST00000443322.1_1_7:66104212-66105443:+|nuORF REV__ENST00000443322.1_1_7:66104212-66105443:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.2125549316406 4 331.211513 1320.81694 2.1699 0.0007187 0.80847 0.00026778 2.9784 0.00098647 331.2116852554999 71.058 0.45994 71.316 70.959 71.419 0.25786 114 39 4 0 0 0 0.91028 1 32470 32470 1.4551 0 1 2833400 + 16629 16361 10723 10747 18922 18922 0.16936845464556427 LLFLALFFVFV 11 Unmodified _LLFLALFFVFV_ 0 0 0 REV__LMBRD2|p.D339Vfs*6|1|0.04|ENSG00000164187|chr5:36122384-36122385|-/TTGGTATGTAA|frameshift_variant REV__LMBRD2|p.D339Vfs*6|1|0.04|ENSG00000164187|chr5:36122384-36122385|-/TTGGTATGTAA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 664.9035034179688 2 664.904485 1327.79442 NaN NaN NaN NaN NaN NaN NaN 44.741 1 45.562 45.062 46.062 0.82075 0 0 0 1.0071 1 20375 20375 1.4819 0 1 + 16630 13073 10724 10748 18923 18923 0.14363246066909596 LLFLFLQEI 9 Unmodified _LLFLFLQEI_ 0 0 0 ENST00000481551.5_1_7:92165699-92165855:+|nuORF ENST00000481551.5_1_7:92165699-92165855:+|nuORF ENST00000481551.5_1_7:92165699-92165855:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.3528442382812 2 568.341718 1134.66888 3.6439 0.002071 -2.198 -0.0012492 1.4459 0.00082179 568.3401777290389 35.206 0.23657 35.829 35.698 35.934 0.62294 13 8 2 0 0 0 0.83994 1 16077 16077 6.7232 0 1 235320 16631 8295 10725 10749 18924 18924 0.10693534210690814 LLFLKKKKKK 10 Unmodified _LLFLKKKKKK_ 0 0 0 ENST00000344423.9_1_8:28205640-28205820:-|nuORF ENST00000344423.9_1_8:28205640-28205820:-|nuORF ENST00000344423.9_1_8:28205640-28205820:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 637.0787963867188 2 637.457751 1272.90095 NaN NaN NaN NaN NaN NaN NaN 98.016 1 98.305 97.805 98.805 0.28923 0 0 0 1.002 1 45087 45087 0 0 1 16632 7100 10726 10750 18925 18925 0.27541421352088946 LLFLKKKKKKK 11 Unmodified _LLFLKKKKKKK_ 0 0 0 ENST00000344423.9_1_8:28205640-28205820:-|nuORF ENST00000344423.9_1_8:28205640-28205820:-|nuORF ENST00000344423.9_1_8:28205640-28205820:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 701.5031127929688 2 701.505232 1400.99591 NaN NaN NaN NaN NaN NaN NaN 88.031 1 88.71 88.21 89.21 0.67818 0 0 0 1.0082 1 40547 40547 0 0 1 16633 7100 10727 10751 18926 18926 0.3114535482327483 LLFLMVPI 8 Unmodified _LLFLMVPI_ 0 0 0 MEX3C|p.V560Lfs*50|1|0.31|ENSG00000176624|chr18:51176653-51176653|C/-|frameshift_variant MEX3C|p.V560Lfs*50|1|0.31|ENSG00000176624|chr18:51176653-51176653|C/-|frameshift_variant MEX3C|p.V560Lfs*50|1|0.31|ENSG00000176624|chr18:51176653-51176653|C/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.548095703125 2 473.295725 944.576897 3.0694 0.0014527 0.077802 3.6823E-05 3.1472 0.0014896 473.2956583071556 56.793 0.36374 57.462 57.214 57.578 0.66829 33 19 2 0 0 0 0.14249 1 25926 25926 2.8892 0 1 1065700 16634 9520 10728 10752 18927 18927 0.10239152592680512 LLFLPDVP 8 Unmodified _LLFLPDVP_ 0 0 0 REV__nc|ENSG00000136104|Q5TBB1-2|RNASEH2B REV__nc|ENSG00000136104|Q5TBB1-2|RNASEH2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 457.27423095703125 2 457.273304 912.532055 2.7613 0.0012627 -0.74581 -0.00034104 2.0155 0.00092165 457.2729214695643 49.55 0.26294 49.55 49.419 49.682 0 21 9 3 0 0 0 0.70146 1 22708 22708 2.5775 0 1 509460 + 16635 12060 10729 10753 18928 18928 0.07229045050985405 LLFLPDVP 8 Unmodified _LLFLPDVP_ 0 0 0 REV__nc|ENSG00000136104|Q5TBB1-2|RNASEH2B REV__nc|ENSG00000136104|Q5TBB1-2|RNASEH2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.2748718261719 2 457.273304 912.532055 2.8519 0.0013041 -0.28786 -0.00013163 2.5641 0.0011725 457.27307685033935 49.285 0.26308 49.547 49.408 49.671 0.26146 15 9 2 0 0 0 0.70146 1 22517 22517 5.7604 2.8712 1 753420 + 16636 12060 10729 10753 18929 18929 0.07229045050985405 LLFPLKHTQV 10 Unmodified _LLFPLKHTQV_ 0 0 0 ENST00000432670.6_1_9:95086442-95087580:-|nuORF ENST00000432670.6_1_9:95086442-95087580:-|nuORF ENST00000432670.6_1_9:95086442-95087580:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.73992919921875 3 399.24477 1194.71248 2.776 0.0011083 3.291 0.0013139 6.067 0.0024222 399.2465906050226 80.73 0.21745 80.979 80.884 81.102 0.24947 17 13 2 0 0 0 0.12676 1 37127 37127 1.7423 0.14999 1 269370 16637 7863 10730 10754 18930 18930 0.12291143707830088 LLFPLLLLL 9 Unmodified _LLFPLLLLL_ 0 0 0 REV__nc|ENSG00000072042|Q8TC12-2|RDH11 REV__nc|ENSG00000072042|Q8TC12-2|RDH11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.2490539550781 3 352.24734 1053.72019 NaN NaN NaN NaN NaN NaN NaN 71.167 1 71.829 71.329 72.329 0.66209 0 0 0 0.91342 1 32615 32615 0.26902 0 1 + 16638 10487 10731 10755 18931 18931 0.19547902975432407 LLFPPLPV 8 Unmodified _LLFPPLPV_ 0 0 0 REV__ENST00000155674.9_1_22:17618610-17618835:-|nuORF REV__ENST00000155674.9_1_22:17618610-17618835:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 448.28753662109375 2 448.286214 894.557876 2.8953 0.0012979 -0.85191 -0.0003819 2.0434 0.00091603 448.2857492898898 37.346 0.57049 37.346 36.968 37.538 0 31 21 2 0 0 0 0.69414 2 16836 16836;16933 6.3541 3.4649 1 508470 + 16639 14785 10732 10756 18932;18933 18932 0.10637939293269483 LLFPPLPV 8 Unmodified _LLFPPLPV_ 0 0 0 REV__ENST00000155674.9_1_22:17618610-17618835:-|nuORF REV__ENST00000155674.9_1_22:17618610-17618835:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 448.28778076171875 2 448.286214 894.557876 NaN NaN NaN NaN NaN NaN NaN 35.974 1 36.765 36.265 37.265 0.79131 0 0 0 0.99035 1 16305 16305 6.3541 1.5981 1 + 16640 14785 10732 10756 18934 18934 0.10637939293269483 LLFPPLPV 8 Unmodified _LLFPPLPV_ 0 0 0 REV__ENST00000155674.9_1_22:17618610-17618835:-|nuORF REV__ENST00000155674.9_1_22:17618610-17618835:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 448.2865295410156 2 448.286214 894.557876 NaN NaN NaN NaN NaN NaN NaN 36.756 1 37.013 36.513 37.513 0.25768 0 0 0 0.99035 1 16742 16742 6.3541 3.4649 1 + 16641 14785 10732 10756 18935 18935 0.10637939293269483 LLFPPLPV 8 Unmodified _LLFPPLPV_ 0 0 0 REV__ENST00000155674.9_1_22:17618610-17618835:-|nuORF REV__ENST00000155674.9_1_22:17618610-17618835:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.2868347167969 2 448.286214 894.557876 3.2286 0.0014473 -0.59689 -0.00026758 2.6317 0.0011797 448.28568732243576 36.27 0.44129 36.896 36.601 37.042 0.62631 25 13 2 0 0 0 0.69414 2 16533 16533;16587 6.3541 3.4649 1 612270 + 16642 14785 10732 10756 18936;18937 18936 0.10637939293269483 LLFPPLPV 8 Unmodified _LLFPPLPV_ 0 0 0 REV__ENST00000155674.9_1_22:17618610-17618835:-|nuORF REV__ENST00000155674.9_1_22:17618610-17618835:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 448.286214 894.557876 2.8953 0.0012979 -0.85191 -0.0003819 2.0434 0.00091603 448.2857492898898 37.346 0.57049 37.346 36.968 37.538 0 0.069827 8.5815E-05 NaN 6.3541 31 21 2 NaN NaN NaN NaN 0 NaN NaN 0 508470 + 16643 14785 10732 10756 0.10637939293269483 LLFPPLPV 8 Unmodified _LLFPPLPV_ 0 0 0 REV__ENST00000155674.9_1_22:17618610-17618835:-|nuORF REV__ENST00000155674.9_1_22:17618610-17618835:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 448.286214 894.557876 3.2074 0.0014379 -1.0579 -0.00047423 2.1496 0.00096363 448.2855905001877 36.576 0.28318 37.206 37.046 37.329 0.62999 -0.069827 -9.8848E-05 NaN 6.3541 17 11 2 NaN NaN NaN NaN 0 NaN NaN 0 365030 + 16644 14785 10732 10756 0.10637939293269483 LLFQYLRIKKK 11 Unmodified _LLFQYLRIKKK_ 0 0 0 REV__ENST00000533030.1_1_11:47376780-47400013:-|nuORF REV__ENST00000533030.1_1_11:47376780-47400013:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.98785400390625 4 363.238062 1448.92314 2.7049 0.00098254 0.74238 0.00026966 3.4473 0.0012522 363.23863643120063 48.515 0.76999 49.171 48.683 49.453 0.65525 41 29 2 0 0 0 0.13295 1 22209 22209 0.094841 0.011491 1 1056200 + 16645 10441 10733 10757 18938 18938 0.21663601029854362 LLFRLWRRLWQ 11 Unmodified _LLFRLWRRLWQ_ 0 0 0 REV__ENST00000341418.9_1_15:68114320-68117168:+|nuORF REV__ENST00000341418.9_1_15:68114320-68117168:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 793.629150390625 2 793.975162 1585.93577 NaN NaN NaN NaN NaN NaN NaN 87.768 1 87.768 87.268 88.268 0 0 0 0 1.0082 1 45364 45364 0 0 1 + 16646 15465 10734 10758 18939 18939 0.16624057212789012 LLGARHFV 8 Unmodified _LLGARHFV_ 0 0 0 REV__CFAP61|p.K1093Sfs*45|1|0.08|ENSG00000089101|chr20:20298241-20298242|-/GTAAT|frameshift_variant REV__CFAP61|p.K1093Sfs*45|1|0.08|ENSG00000089101|chr20:20298241-20298242|-/GTAAT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.7766418457031 2 456.774337 911.534121 NaN NaN NaN NaN NaN NaN NaN 87.745 1 88.423 87.923 88.923 0.67818 0 0 0 0.99035 1 40415 40415 2.5775 0.73324 1 + 16647 10003 10735 10759 18940 18940 0.07481518579470503 LLGARRAL 8 Unmodified _LLGARRAL_ 0 0 0 ENST00000338513.1_1_1:35220669-35222948:+|nuORF ENST00000338513.1_1_1:35220669-35222948:+|nuORF ENST00000338513.1_1_1:35220669-35222948:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 435.28839111328125 2 435.287611 868.56067 2.1499 0.00093583 -0.32763 -0.00014261 1.8223 0.00079322 435.2875779434778 12.558 0.20249 12.865 12.733 12.936 0.30727 16 7 4 0 0 0 0.31786 1 5651 5651 34.187 2.0704 1 13437000 16648 7046 10736 10760 18941 18941 0.12113207470781617 LLGARRAL 8 Unmodified _LLGARRAL_ 0 0 0 ENST00000338513.1_1_1:35220669-35222948:+|nuORF ENST00000338513.1_1_1:35220669-35222948:+|nuORF ENST00000338513.1_1_1:35220669-35222948:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.28936767578125 2 435.287611 868.56067 3.4017 0.0014807 -0.65761 -0.00028625 2.7441 0.0011945 435.287313584385 12.495 0.14322 13.138 13.033 13.176 0.64272 13 5 4 0 0 0 0.31786 1 5610 5610 34.187 2.0704 1 13829000 16649 7046 10736 10760 18942 18942 0.12113207470781617 LLGDEGVTV 9 Unmodified _LLGDEGVTV_ 0 0 0 REV__HELZ2|p.D1355Vfs*86|1|0.31|ENSG00000130589|chr20:63564758-63564758|T/-|frameshift_variant REV__HELZ2|p.D1355Vfs*86|1|0.31|ENSG00000130589|chr20:63564758-63564758|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.7469787597656 2 451.745108 901.475663 2.8295 0.0012782 1.2567 0.00056771 4.0862 0.0018459 451.745620112448 49.099 0.39215 49.099 48.859 49.251 0 31 19 2 0 0 0 0.49692 1 22503 22503 12.532 0.89125 1 543730 + 16650 11823 10737 10761 18943 18943 0.020983724236771195 LLGERLLAL 9 Unmodified _LLGERLLAL_ 0 0 0 ENST00000493290.5_1_7:95063638-95064308:-|nuORF;ENST00000469926.5_1_7:95045599-95064308:-|nuORF;ENST00000469716.1_1_7:95053779-95064326:-|nuORF;ENST00000471883.1_1_7:95047556-95064326:-|nuORF;nc|ENSG00000105854|Q15165-3|PON2;ENSG00000105854|ENST00000222572|PON2 ENST00000493290.5_1_7:95063638-95064308:-|nuORF ENST00000493290.5_1_7:95063638-95064308:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.3251953125 2 499.32386 996.633166 2.9114 0.0014537 -0.30355 -0.00015157 2.6078 0.0013021 499.32411978574777 74.259 0.14403 74.517 74.464 74.608 0.25831 30 17 2 0 0 0 0.035495 1 34164 34164 53.404 5.6553 1 912250 16651 1536 10738 10762 18944 18944 0.1347149675369792 LLGIRLFFLLR 11 Unmodified _LLGIRLFFLLR_ 0 0 0 ENST00000371601.4_1_9:139940447-139940597:-|nuORF ENST00000371601.4_1_9:139940447-139940597:-|nuORF ENST00000371601.4_1_9:139940447-139940597:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.3420104980469 3 454.299097 1359.87546 2.3929 0.0010871 3.7724 0.0017138 6.1653 0.0028009 454.63576582707486 60.356 0.045502 61.105 61.062 61.107 0.74927 6 4 2 0 0 0 0.91068 1 27807 27807 1.3296 0.11481 1 3337600 16652 7322 10739 10763 18945 18945 0.20991946829690278 LLGLMPLLRLG 11 Unmodified _LLGLMPLLRLG_ 0 0 0 REV__nc|ENSG00000148358|Q5VW38-3|GPR107 REV__nc|ENSG00000148358|Q5VW38-3|GPR107 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.2588195800781 3 399.258022 1194.75224 2.6519 0.0010588 -1.1742 -0.00046881 1.4777 0.00058997 399.2577414986938 38.947 0.76817 38.947 38.332 39.1 0 76 33 3 0 0 0 0.91028 1 17591 17591 1.4551 0 1 956160 + 16653 12534 10740 10764 18946 18946 0.16264947386889617 LLGLMPLLRLG 11 Unmodified _LLGLMPLLRLG_ 0 0 0 REV__nc|ENSG00000148358|Q5VW38-3|GPR107 REV__nc|ENSG00000148358|Q5VW38-3|GPR107 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.259033203125 3 399.258022 1194.75224 2.2552 0.0009004 -0.56642 -0.00022615 1.6888 0.00067425 399.25793371126963 33.347 0.22495 34.135 34.005 34.23 0.78795 36 13 3 0 0 0 0.91068 1 15060 15060 1.3296 0.70282 1 1220700 + 16654 12534 10740 10764 18947 18947 0.16264947386889617 LLGLMPLLRLG 11 Unmodified _LLGLMPLLRLG_ 0 0 0 REV__nc|ENSG00000148358|Q5VW38-3|GPR107 REV__nc|ENSG00000148358|Q5VW38-3|GPR107 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.3851318359375 2 598.383394 1194.75224 3.7579 0.0022487 -1.4922 -0.00089292 2.2657 0.0013558 598.3823481864666 33.964 0.21583 34.218 34.083 34.298 0.25389 18 9 3 0 0 0 0.88547 1 15502 15502 1.4819 1.1313 1 953810 + 16655 12534 10740 10764 18948 18948 0.16264947386889617 LLGLMPLLRLG 11 Unmodified _LLGLMPLLRLG_ 0 0 0 REV__nc|ENSG00000148358|Q5VW38-3|GPR107 REV__nc|ENSG00000148358|Q5VW38-3|GPR107 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.25909423828125 3 399.258022 1194.75224 3.0229 0.0012069 -0.91014 -0.00036338 2.1128 0.00084354 399.25788092512335 36.603 0.54523 37.233 36.849 37.394 0.62999 54 20 3 0 0 0 0.91068 1 16763 16763 1.3296 0 1 673720 + 16656 12534 10740 10764 18949 18949 0.16264947386889617 LLGLMPLLRLG 11 Unmodified _LLGLMPLLRLG_ 0 0 0 REV__nc|ENSG00000148358|Q5VW38-3|GPR107 REV__nc|ENSG00000148358|Q5VW38-3|GPR107 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 399.258022 1194.75224 3.0702 0.0012258 -1.39 -0.00055496 1.6802 0.00067083 399.2575759316072 36.84 0.28808 37.097 36.929 37.217 0.25768 -0.10434 -0.00037204 NaN 1.3296 25 9 3 NaN NaN NaN NaN 0 NaN NaN 0 1397800 + 16657 12534 10740 10764 0.16264947386889617 LLGLMPLLRLG 11 Unmodified _LLGLMPLLRLG_ 0 0 0 REV__nc|ENSG00000148358|Q5VW38-3|GPR107 REV__nc|ENSG00000148358|Q5VW38-3|GPR107 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 598.383394 1194.75224 3.8696 0.0023155 -1.7183 -0.0010282 2.1513 0.0012873 598.3823448694734 33.448 0.18515 34.068 33.952 34.137 0.62031 -0.075125 -0.00013715 NaN 1.4819 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 301690 + 16658 12534 10740 10764 0.16264947386889617 LLGRWRKKH 9 Unmodified _LLGRWRKKH_ 0 0 0 ENST00000552872.5_1_12:56231631-56234980:-|nuORF;ENSG00000123342|ENST00000322569|MMP19;nc|ENSG00000123342|Q99542-5|MMP19 ENST00000552872.5_1_12:56231631-56234980:-|nuORF ENST00000552872.5_1_12:56231631-56234980:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 398.5863037109375 3 398.58412 1192.73053 NaN NaN NaN NaN NaN NaN NaN 46.752 1 46.752 46.252 47.252 0 0 0 0 0.91059 1 21399 21399 0.96228 0.26461 1 16659 2305 10741 10765 18950 18950 0.14187323473197466 LLGRWRKKH 9 Unmodified _LLGRWRKKH_ 0 0 0 ENST00000552872.5_1_12:56231631-56234980:-|nuORF;ENSG00000123342|ENST00000322569|MMP19;nc|ENSG00000123342|Q99542-5|MMP19 ENST00000552872.5_1_12:56231631-56234980:-|nuORF ENST00000552872.5_1_12:56231631-56234980:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.5863342285156 3 398.58412 1192.73053 NaN NaN NaN NaN NaN NaN NaN 48.011 1 48.273 47.773 48.773 0.26209 0 0 0 0.91059 1 21946 21946 0.96228 0.26461 1 16660 2305 10741 10765 18951 18951 0.14187323473197466 LLHIILRLV 9 Unmodified _LLHIILRLV_ 0 0 0 REV__chr2:69789926-69790680|323|10.1|0.0|19.95|-|1|TE_info:LTR25-int,LTR25-int_dup24,ERV1,LTR,donor,-,69790680,69792971|SMANTIS,None|42 REV__chr2:69789926-69790680|323|10.1|0.0|19.95|-|1|TE_info:LTR25-int,LTR25-int_dup24,ERV1,LTR,donor,-,69790680,69792971|SMANTIS,None|42 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.3780517578125 2 545.378969 1088.74339 NaN NaN NaN NaN NaN NaN NaN 83.708 1 83.737 83.237 84.237 0.028603 0 0 0 0.91452 1 41606 41606 0 0 1 + 16661 10041 10742 10766 18952 18952 0.2025634181272835 LLHKHRSILLR 11 Unmodified _LLHKHRSILLR_ 0 0 0 ENSG00000156671|ENST00000542569|SAMD8;nc|ENSG00000156671|Q96LT4-2|SAMD8 ENSG00000156671|ENST00000542569|SAMD8 ENSG00000156671|ENST00000542569|SAMD8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 693.4490356445312 2 693.446237 1384.87792 NaN NaN NaN NaN NaN NaN NaN 20.87 1 20.87 20.37 21.37 0 0 0 0 1.008 1 9338 9338 0.26902 0.26902 1 16662 3920 10743 10767 18953 18953 0.200877952873725 LLHKRQKFTQG 11 Unmodified _LLHKRQKFTQG_ 0 0 0 REV__ENST00000569901.1_1_16:89804185-89804651:+|nuORF REV__ENST00000569901.1_1_16:89804185-89804651:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.6040344238281 3 452.601727 1354.78335 NaN NaN NaN NaN NaN NaN NaN 44.536 1 44.805 44.305 45.305 0.2694 0 0 0 1.0073 1 20355 20355 1.2148 0.4383 1 + 16663 12830 10744 10768 18954 18954 0.12015236745355651 LLHLLLIKLV 10 Unmodified _LLHLLLIKLV_ 0 0 0 ENST00000256442.9_1_5:68473515-68473575:+|nuORF ENST00000256442.9_1_5:68473515-68473575:+|nuORF ENST00000256442.9_1_5:68473515-68473575:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.9169311523438 2 587.917927 1173.8213 NaN NaN NaN NaN NaN NaN NaN 90.899 1 90.974 90.474 91.474 0.075279 0 0 0 1.002 1 46952 46952 0 0 1 16664 6524 10745 10769 18955 18955 0.2413435467810814 LLHLRMKLDR 10 Unmodified _LLHLRMKLDR_ 0 0 0 REV__ENST00000514430.5_1_4:103612112-103682069:-|nuORF REV__ENST00000514430.5_1_4:103612112-103682069:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 647.891845703125 2 647.892449 1293.77035 NaN NaN NaN NaN NaN NaN NaN 26.199 1 26.978 26.478 27.478 0.7787 0 0 0 1.0015 1 11764 11764 0.40072 0.050084 1 + 16665 17006 10746 10770 18956 18956 0.13521082361603476 LLHLSKRTKRF 11 Unmodified _LLHLSKRTKRF_ 0 0 0 REV__ENST00000482932.5_1_1:156377658-156383882:-|nuORF REV__ENST00000482932.5_1_1:156377658-156383882:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 700.3841552734375 2 699.938245 1397.86194 NaN NaN NaN NaN NaN NaN NaN 29.495 1 29.495 28.995 29.995 0 0 0 0 1.008 1 13313 13313 0.35063 0 1 + 16666 16716 10747 10771 18957 18957 0.17892089050428694 LLHMVLLSIPF 11 Unmodified _LLHMVLLSIPF_ 0 0 0 ENSG00000123353|ENST00000243045|ORMDL2 ENSG00000123353|ENST00000243045|ORMDL2 ENSG00000123353|ENST00000243045|ORMDL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.8850708007812 2 641.883227 1281.7519 4.3362 0.0027834 -1.0473 -0.00067223 3.289 0.0021111 641.8822261805838 92.901 0.75487 93.156 92.728 93.483 0.25497 82 41 3 0 0 0 0.91068 1 42721 42721 1.3295 0.13619 1 770680 16667 2306 10748 10772 18958 18958 0.12229527667068396 LLHSSTAAL 9 Unmodified _LLHSSTAAL_ 0 0 0 REV__ENSG00000171811|ENST00000368586|CFAP46 REV__ENSG00000171811|ENST00000368586|CFAP46 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.7622985839844 2 456.761092 911.507631 2.604 0.0011894 -0.20871 -9.5333E-05 2.3953 0.0010941 456.76111221086325 47.661 0.70651 47.661 47.461 48.168 0 76 44 2 0 0 0 0.22507 1 21976 21976 21.747 0 1 5370200 + 16668 13519 10749 10773 18959 18959 0.04833784897471105 LLHSSTAAL 9 Unmodified _LLHSSTAAL_ 0 0 0 REV__ENSG00000171811|ENST00000368586|CFAP46 REV__ENSG00000171811|ENST00000368586|CFAP46 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.7627258300781 2 456.761092 911.507631 2.9404 0.0013431 -0.29727 -0.00013578 2.6432 0.0012073 456.7609812604135 46.967 0.72743 47.619 47.287 48.015 0.65219 70 39 2 0 0 0 0.22507 1 21615 21615 21.747 0 1 3803900 + 16669 13519 10749 10773 18960 18960 0.04833784897471105 LLHYLFQEREE 11 Unmodified _LLHYLFQEREE_ 0 0 0 REV__DENND5B|p.L1254Cfs*9|1|0.33|ENSG00000170456|chr12:31387669-31387669|A/-|frameshift_variant REV__DENND5B|p.L1254Cfs*9|1|0.33|ENSG00000170456|chr12:31387669-31387669|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.0279235839844 3 492.920903 1475.74088 NaN NaN NaN NaN NaN NaN NaN 88.329 1 88.381 87.881 88.881 0.052155 0 0 0 1.0071 1 44957 44957 1.4551 0.12547 1 + 16670 10126 10750 10774 18961 18961 0.022037968264612573 LLIHLVTSF 9 Unmodified _LLIHLVTSF_ 0 0 0 REV__ENST00000398316.7_1_13:49705333-49705405:+|nuORF REV__ENST00000398316.7_1_13:49705333-49705405:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.8198852539062 2 521.81841 1041.62227 3.0977 0.0016164 0.098076 5.1178E-05 3.1958 0.0016676 521.8184555312398 69.213 0.56151 69.874 69.526 70.087 0.66072 65 40 2 0 0 0 0.54955 1 31628 31628 11.64 0 1 408970 + 16671 16023 10751 10775 18962 18962 0.10312094379423797 LLIHLVTSF 9 Unmodified _LLIHLVTSF_ 0 0 0 REV__ENST00000398316.7_1_13:49705333-49705405:+|nuORF REV__ENST00000398316.7_1_13:49705333-49705405:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 521.81841 1041.62227 3.4432 0.0017967 0.041325 2.1564E-05 3.4846 0.0018183 521.8184473517027 69.836 0.47681 70.093 69.717 70.194 0.25642 0.10939 -2.5865E-05 NaN 11.64 47 30 2 NaN NaN NaN NaN 0 NaN NaN 0 505440 + 16672 16023 10751 10775 0.10312094379423797 LLIHLVTSF 9 Unmodified _LLIHLVTSF_ 0 0 0 REV__ENST00000398316.7_1_13:49705333-49705405:+|nuORF REV__ENST00000398316.7_1_13:49705333-49705405:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 521.81841 1041.62227 3.0977 0.0016164 0.098076 5.1178E-05 3.1958 0.0016676 521.8184555312398 69.213 0.56151 69.874 69.526 70.087 0.66072 -0.10939 3.3363E-05 NaN 11.64 65 40 2 NaN NaN NaN NaN 0 NaN NaN 0 408970 + 16673 16023 10751 10775 0.10312094379423797 LLIILIVLLVV 11 Unmodified _LLIILIVLLVV_ 0 0 0 ENSG00000168899|ENST00000306384|VAMP5 ENSG00000168899|ENST00000306384|VAMP5 ENSG00000168899|ENST00000306384|VAMP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.2556762695312 2 610.951436 1219.88832 NaN NaN NaN NaN NaN NaN NaN 78.438 1 79.1 78.6 79.6 0.66198 0 0 0 1.0082 1 36145 36145 0 0 1 16674 4658 10752 10776 18963 18963 0.28716965169201103 LLIIPFVP 8 Unmodified _LLIIPFVP_ 0 0 0 ENST00000551915.5_1_12:83081308-83379891:+|nuORF;TMTC2|p.A737Qfs*4|1|0.28|ENSG00000179104|chr12:83050953-83050953|A/-|frameshift_variant;ENSG00000179104|ENST00000321196|TMTC2 ENST00000551915.5_1_12:83081308-83379891:+|nuORF ENST00000551915.5_1_12:83081308-83379891:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.5374450683594 3 304.537002 910.589176 2.1622 0.00065846 -1.1839 -0.00036053 0.97831 0.00029793 304.5365410529961 44.465 0.48919 45.286 44.912 45.401 0.82075 37 24 2 0 0 0 0.14333 1 20215 20215 0.45834 0.45834 1 521620 16675 5197 10753 10777 18964 18964 0.13030512327384258 LLIKKHWLWTR 11 Unmodified _LLIKKHWLWTR_ 0 0 0 ENSG00000164975|ENST00000380821|SNAPC3 ENSG00000164975|ENST00000380821|SNAPC3 ENSG00000164975|ENST00000380821|SNAPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.23394775390625 4 374.233045 1492.90307 2.612 0.00097751 -0.1323 -4.951E-05 2.4797 0.000928 374.23286324853086 59.914 0.26073 59.914 59.733 59.993 0 70 29 4 0 0 0 0.91345 1 27650 27650 0.45452 0 1 13012000 16676 4361 10754 10778 18965 18965 0.17633850089919179 LLIKKHWLWTR 11 Unmodified _LLIKKHWLWTR_ 0 0 0 ENSG00000164975|ENST00000380821|SNAPC3 ENSG00000164975|ENST00000380821|SNAPC3 ENSG00000164975|ENST00000380821|SNAPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.2338562011719 4 374.233045 1492.90307 2.1099 0.00078959 0.10858 4.0634E-05 2.2185 0.00083023 374.2330070312219 58.863 0.15348 59.622 59.517 59.671 0.75894 29 16 2 0 0 0 0.91328 1 27019 27019 0.50596 0.051438 1 4477700 16677 4361 10754 10778 18966 18966 0.17633850089919179 LLIKKHWLWTR 11 Unmodified _LLIKKHWLWTR_ 0 0 0 ENSG00000164975|ENST00000380821|SNAPC3 ENSG00000164975|ENST00000380821|SNAPC3 ENSG00000164975|ENST00000380821|SNAPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.2337341308594 4 374.233045 1492.90307 2.0008 0.00074876 -0.16827 -6.2972E-05 1.8325 0.00068579 374.23287176738324 61.215 0.22918 61.955 61.834 62.063 0.7396 57 27 3 0 0 0 0.91345 1 28327 28327 0.45452 0.45452 1 4797300 16678 4361 10754 10778 18967 18967 0.17633850089919179 LLIKKHWLWTR 11 Unmodified _LLIKKHWLWTR_ 0 0 0 ENSG00000164975|ENST00000380821|SNAPC3 ENSG00000164975|ENST00000380821|SNAPC3 ENSG00000164975|ENST00000380821|SNAPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.23382568359375 4 374.233045 1492.90307 2.7504 0.0010293 -0.16713 -6.2546E-05 2.5832 0.00096673 374.23284892241173 59.258 0.60291 59.517 59.316 59.919 0.2593 105 27 5 0 0 0 0.91459 1 27241 27241 0.094841 0 1 13274000 16679 4361 10754 10778 18968 18968 0.17633850089919179 LLIKKHWLWTR 11 Unmodified _LLIKKHWLWTR_ 0 0 0 ENSG00000164975|ENST00000380821|SNAPC3 ENSG00000164975|ENST00000380821|SNAPC3 ENSG00000164975|ENST00000380821|SNAPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.48486328125 4 374.233045 1492.90307 2.7446 0.0010271 -0.026563 -9.9409E-06 2.718 0.0010172 374.23287144898654 61.417 0.48877 61.67 61.459 61.948 0.25245 79 22 4 0 0 0 0.91345 2 28068 28068;28178 0.45452 0.35968 1 5495900 16680 4361 10754 10778 18969;18970 18969 0.17633850089919179 LLIKKHWLWTR 11 Unmodified _LLIKKHWLWTR_ 0 0 0 ENSG00000164975|ENST00000380821|SNAPC3 ENSG00000164975|ENST00000380821|SNAPC3 ENSG00000164975|ENST00000380821|SNAPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.6430358886719 3 498.641634 1492.90307 3.2301 0.0016107 0.74412 0.00037105 3.9743 0.0019817 498.6419669120855 61.415 0.32058 61.667 61.498 61.818 0.25245 25 14 2 0 0 0 0.91459 1 28087 28087 0.094841 0.011491 1 950820 16681 4361 10754 10778 18971 18971 0.17633850089919179 LLIKKHWLWTR 11 Unmodified _LLIKKHWLWTR_ 0 0 0 ENSG00000164975|ENST00000380821|SNAPC3 ENSG00000164975|ENST00000380821|SNAPC3 ENSG00000164975|ENST00000380821|SNAPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.2337951660156 4 374.233045 1492.90307 2.6861 0.0010052 0.18343 6.8647E-05 2.8696 0.0010739 374.23297646009235 58.91 0.59597 59.577 59.092 59.688 0.66703 108 25 5 0 0 0 0.91345 1 26811 26811 0.45452 0 1 10533000 16682 4361 10754 10778 18972 18972 0.17633850089919179 LLIKKHWLWTR 11 Unmodified _LLIKKHWLWTR_ 0 0 0 ENSG00000164975|ENST00000380821|SNAPC3 ENSG00000164975|ENST00000380821|SNAPC3 ENSG00000164975|ENST00000380821|SNAPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 747.9644165039062 2 747.458813 1492.90307 3.9674 0.0029655 0.96234 0.00071931 4.9298 0.0036848 747.9611422020705 58.784 0.52168 59.451 59.153 59.675 0.66703 38 21 2 0 0 0 0.91459 2 26923 26923;26984 0 0 1 696330 16683 4361 10754 10778 18973;18974 18973 0.17633850089919179 LLIKKHWLWTR 11 Unmodified _LLIKKHWLWTR_ 0 0 0 ENSG00000164975|ENST00000380821|SNAPC3 ENSG00000164975|ENST00000380821|SNAPC3 ENSG00000164975|ENST00000380821|SNAPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.2337646484375 4 374.233045 1492.90307 2.6339 0.00098569 0.079077 2.9593E-05 2.713 0.0010153 374.23286513082104 60.929 0.53579 61.591 61.284 61.819 0.66261 98 25 5 0 0 0 0.91345 1 27853 27853 0.45452 0.35968 1 6929700 16684 4361 10754 10778 18975 18975 0.17633850089919179 LLILILLIKKL 11 Unmodified _LLILILLIKKL_ 0 0 0 ENST00000531550.1_1_11:118007744-118012097:-|nuORF;nc|ENSG00000177098|Q8IWT1-3|SCN4B;nc|ENSG00000177098|Q8IWT1-2|SCN4B;ENSG00000177098|ENST00000324727|SCN4B ENST00000531550.1_1_11:118007744-118012097:-|nuORF ENST00000531550.1_1_11:118007744-118012097:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.0706176757812 2 646.98581 1291.95707 NaN NaN NaN NaN NaN NaN NaN 85.935 1 85.935 85.435 86.435 0 0 0 0 1.0082 1 43904 43904 0 0 1 16685 5102 10755 10779 18976 18976 0.3227662946892451 LLILKIAKAKK 11 Unmodified _LLILKIAKAKK_ 0 0 0 REV__CX3CR1|p.E279Rfs*10|1|0.13|ENSG00000168329|chr3:39265676-39265676|A/-|frameshift_variant REV__CX3CR1|p.E279Rfs*10|1|0.13|ENSG00000168329|chr3:39265676-39265676|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.9486694335938 2 619.949759 1237.88496 NaN NaN NaN NaN NaN NaN NaN 49.35 1 49.35 48.85 49.85 0 0 0 0 1.0082 1 22597 22597 0 0 1 + 16686 10118 10756 10780 18977 18977 0.27553715115209343 LLILKIAKAKK 11 Unmodified _LLILKIAKAKK_ 0 0 0 REV__CX3CR1|p.E279Rfs*10|1|0.13|ENSG00000168329|chr3:39265676-39265676|A/-|frameshift_variant REV__CX3CR1|p.E279Rfs*10|1|0.13|ENSG00000168329|chr3:39265676-39265676|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.2777099609375 2 619.949759 1237.88496 NaN NaN NaN NaN NaN NaN NaN 38.054 1 38.849 38.349 39.349 0.79552 0 0 0 1.0082 1 17238 17238 0 0 1 + 16687 10118 10756 10780 18978 18978 0.27553715115209343 LLIMPAMH 8 Unmodified _LLIMPAMH_ 0 0 0 REV__RPS6KA6|p.G625Sfs*19|1|0.06|ENSG00000072133|chrX:84096292-84096293|-/ATATGTAAGTGTTTTGA|frameshift_variant REV__RPS6KA6|p.G625Sfs*19|1|0.06|ENSG00000072133|chrX:84096292-84096293|-/ATATGTAAGTGTTTTGA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.2553405761719 2 463.253534 924.492515 3.3548 0.0015541 0.3313 0.00015348 3.6861 0.0017076 463.2536221634841 93.92 0.30943 94.18 94.079 94.389 0.25974 21 15 2 0 0 0 0.7471 1 43207 43207 0.79363 0 1 268690 + 16688 18206 10757 10781 18979 18979 0.02724878504272965 LLIMRKGSL 9 Unmodified _LLIMRKGSL_ 0 0 0 REV__ENST00000264449.14_2_4:42487606-42487645:-|nuORF REV__ENST00000264449.14_2_4:42487606-42487645:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 344.22052001953125 3 344.219567 1029.63687 2.4938 0.00085841 0.37666 0.00012966 2.8705 0.00098807 344.21981754571027 13.528 0.21612 14.177 14.042 14.258 0.64819 26 14 3 0 0 0 0.30351 1 6074 6074 16.566 0 1 195530 + 16689 15018 10758 10782 18980 18980 0.12323843255921929 LLIMRKGSL 9 Unmodified _LLIMRKGSL_ 0 0 0 REV__ENST00000264449.14_2_4:42487606-42487645:-|nuORF REV__ENST00000264449.14_2_4:42487606-42487645:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 344.219567 1029.63687 2.4277 0.00083566 -0.50837 -0.00017499 1.9193 0.00066067 344.2192468559462 14.466 0.13938 14.466 14.42 14.559 0 0.14449 -0.00049764 NaN 16.566 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 131340 + 16690 15018 10758 10782 0.12323843255921929 LLIMRKGSL 9 Unmodified _LLIMRKGSL_ 0 0 0 REV__ENST00000264449.14_2_4:42487606-42487645:-|nuORF REV__ENST00000264449.14_2_4:42487606-42487645:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 344.219567 1029.63687 2.4938 0.00085841 0.37666 0.00012966 2.8705 0.00098807 344.21981754571027 13.528 0.21612 14.177 14.042 14.258 0.64819 -0.14449 0.00041629 NaN 16.566 26 14 3 NaN NaN NaN NaN 0 NaN NaN 0 195530 + 16691 15018 10758 10782 0.12323843255921929 LLIPLRHLF 9 Unmodified _LLIPLRHLF_ 0 0 0 REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.5791320800781 3 374.577972 1120.71209 2.7434 0.0010276 0.56811 0.0002128 3.3115 0.0012404 374.57820097278466 43.142 0.39763 43.142 42.808 43.205 0 75 33 3 0 0 0 0.98132 3 19525 19525;19578;19640 2.4985 2.4985 1 30967000 + 16692 13284 10759 10783 18981;18982;18983 18981 0.15655768778628953 LLIPLRHLF 9 Unmodified _LLIPLRHLF_ 0 0 0 REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.3657836914062 2 561.363319 1120.71209 3.3779 0.0018962 1.7137 0.00096203 5.0917 0.0028583 561.3639814469286 43.048 0.26825 43.048 42.846 43.114 0 21 14 2 0 0 0 0.98132 1 19566 19566 4.3292 2.2695 1 2147600 + 16693 13284 10759 10783 18984 18984 0.15655768778628953 LLIPLRHLF 9 Unmodified _LLIPLRHLF_ 0 0 0 REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.57965087890625 3 374.577972 1120.71209 2.7485 0.0010295 1.0702 0.00040086 3.8186 0.0014304 374.5782364243182 43.526 0.36343 43.526 43.444 43.808 0 95 41 3 0 0 0 1.1154 1 19956 19956 1.0715 0 1 11389000 + 16694 13284 10759 10783 18985 18985 0.15655768778628953 LLIPLRHLF 9 Unmodified _LLIPLRHLF_ 0 0 0 REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.57904052734375 3 374.577972 1120.71209 NaN NaN NaN NaN NaN NaN NaN 43.262 1 43.262 42.762 43.762 0 0 0 0 0.89683 1 19711 19711 2.4985 0 1 + 16695 13284 10759 10783 18986 18986 0.15655768778628953 LLIPLRHLF 9 Unmodified _LLIPLRHLF_ 0 0 0 REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.5792236328125 3 374.577972 1120.71209 NaN NaN NaN NaN NaN NaN NaN 43.352 1 43.352 42.852 43.852 0 0 0 0 0.90611 1 19757 19757 2.7352 1.6637 1 + 16696 13284 10759 10783 18987 18987 0.15655768778628953 LLIPLRHLF 9 Unmodified _LLIPLRHLF_ 0 0 0 REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.5797119140625 3 374.577972 1120.71209 2.3278 0.00087195 1.1909 0.00044609 3.5188 0.001318 374.5783726489349 42.176 0.099228 42.984 42.908 43.007 0.80856 15 9 2 0 0 0 0.98132 1 19130 19130 2.4985 0 1 13443000 + 16697 13284 10759 10783 18988 18988 0.15655768778628953 LLIPLRHLF 9 Unmodified _LLIPLRHLF_ 0 0 0 REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.5785217285156 3 374.577972 1120.71209 2.3255 0.00087109 0.63718 0.00023867 2.9627 0.0011098 374.5781927551378 42.323 0.18517 43.132 43.057 43.242 0.80855 45 36 2 0 0 0 1.1154 1 19217 19217 2.7352 1.6637 1 18538000 + 16698 13284 10759 10783 18989 18989 0.15655768778628953 LLIPLRHLF 9 Unmodified _LLIPLRHLF_ 0 0 0 REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.8671875 2 561.363319 1120.71209 3.6399 0.0020433 1.3479 0.00075668 4.9879 0.0028 561.3638480362184 42.637 0.269 42.908 42.756 43.025 0.27021 26 11 3 0 0 0 0.98132 1 19423 19423 4.3292 2.2695 1 2661700 + 16699 13284 10759 10783 18990 18990 0.15655768778628953 LLIPLRHLF 9 Unmodified _LLIPLRHLF_ 0 0 0 REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.5795593261719 3 374.577972 1120.71209 2.8079 0.0010518 1.1805 0.00044218 3.9884 0.001494 374.57829578461076 42.725 0.40172 42.995 42.665 43.066 0.27021 58 19 4 0 0 0 0.98132 2 19452 19452;19498 2.4985 1.427 1 24757000 + 16700 13284 10759 10783 18991;18992 18991 0.15655768778628953 LLIPLRHLF 9 Unmodified _LLIPLRHLF_ 0 0 0 REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.3658447265625 2 561.363319 1120.71209 3.5806 0.00201 1.7613 0.00098872 5.3419 0.0029987 561.8658372765929 42.942 0.14656 43.212 43.186 43.332 0.27021 20 12 2 0 0 0 0.95612 1 19611 19611 4.756 0.42677 1 5780100 + 16701 13284 10759 10783 18993 18993 0.15655768778628953 LLIPLRHLF 9 Unmodified _LLIPLRHLF_ 0 0 0 REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.5795593261719 3 374.577972 1120.71209 2.8293 0.0010598 0.7255 0.00027175 3.5548 0.0013316 374.5782600710536 41.643 0.36231 42.287 42.1 42.463 0.64451 69 42 2 0 0 0 0.98132 3 18986 18986;19035;19077 2.4985 2.4985 1 23018000 + 16702 13284 10759 10783 18994;18995;18996 18994 0.15655768778628953 LLIPLRHLF 9 Unmodified _LLIPLRHLF_ 0 0 0 REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.5790100097656 3 374.577972 1120.71209 2.826 0.0010585 1.0261 0.00038435 3.8521 0.0014429 374.57828015394114 41.945 0.2753 42.592 42.501 42.777 0.64693 86 46 2 0 0 0 0.98132 3 19182 19182;19228;19276 2.4985 1.427 1 13932000 + 16703 13284 10759 10783 18997;18998;18999 18997 0.15655768778628953 LLIPLRHLF 9 Unmodified _LLIPLRHLF_ 0 0 0 REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 374.577972 1120.71209 2.3278 0.00087195 1.1909 0.00044609 3.5188 0.001318 374.5783726489349 42.176 0.099228 42.984 42.908 43.007 0.80856 -0.056188 0.000261 NaN 2.4985 15 9 2 NaN NaN NaN NaN 0 NaN NaN 0 13443000 + 16704 13284 10759 10783 0.15655768778628953 LLIPLRHLF 9 Unmodified _LLIPLRHLF_ 0 0 0 REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 374.577972 1120.71209 2.3312 0.00087322 1.4776 0.00055349 3.8089 0.0014267 374.57846907152907 42.044 0.23719 42.853 42.671 42.908 0.80855 0.13051 0.00025474 NaN 2.4985 43 14 4 NaN NaN NaN NaN 0 NaN NaN 0 8849800 + 16705 13284 10759 10783 0.15655768778628953 LLIPLRHLF 9 Unmodified _LLIPLRHLF_ 0 0 0 REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 561.363319 1120.71209 3.6399 0.0020433 1.3479 0.00075668 4.9879 0.0028 561.3638480362184 42.637 0.269 42.908 42.756 43.025 0.27021 -0.071109 1.831E-05 NaN 4.3292 26 11 3 NaN NaN NaN NaN 0 NaN NaN 0 2661700 + 16706 13284 10759 10783 0.15655768778628953 LLIPLRHLF 9 Unmodified _LLIPLRHLF_ 0 0 0 REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 374.577972 1120.71209 2.8079 0.0010518 1.1805 0.00044218 3.9884 0.001494 374.57829578461076 42.725 0.40172 42.995 42.665 43.066 0.27021 -0.045013 0.00024927 NaN 2.4985 58 19 4 NaN NaN NaN NaN 0 NaN NaN 0 24757000 + 16707 13284 10759 10783 0.15655768778628953 LLIPLRHLF 9 Unmodified _LLIPLRHLF_ 0 0 0 REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF REV__ENST00000573295.5_1_17:79211175-79212833:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 374.577972 1120.71209 2.826 0.0010585 1.0261 0.00038435 3.8521 0.0014429 374.57828015394114 41.945 0.2753 42.592 42.501 42.777 0.64693 -0.13051 -0.00025269 NaN 2.4985 86 46 2 NaN NaN NaN NaN 0 NaN NaN 0 13932000 + 16708 13284 10759 10783 0.15655768778628953 LLIRIRKKK 9 Unmodified _LLIRIRKKK_ 0 0 0 REV__ENST00000450917.1_1_2:3523627-3523702:+|nuORF REV__ENST00000450917.1_1_2:3523627-3523702:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.4251098632812 2 584.424242 1166.83393 NaN NaN NaN NaN NaN NaN NaN 92.983 1 93.069 92.569 93.569 0.086212 0 0 0 0.91206 1 48604 48604 0.6015 0 1 + 16709 16408 10760 10784 19000 19000 0.25718810861008023 LLIRIRKKKK 10 Unmodified _LLIRIRKKKK_ 0 0 0 REV__ENST00000450917.1_1_2:3523627-3523702:+|nuORF REV__ENST00000450917.1_1_2:3523627-3523702:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 648.4153442382812 2 648.471724 1294.92889 NaN NaN NaN NaN NaN NaN NaN 92.294 1 92.941 92.441 93.441 0.64714 0 0 0 1.002 1 42464 42464 0 0 1 + 16710 16408 10761 10785 19001 19001 0.2932274433217117 LLISFDKLI 9 Unmodified _LLISFDKLI_ 0 0 0 REV__nc|ENSG00000164756|Q8IWU4-2|SLC30A8 REV__nc|ENSG00000164756|Q8IWU4-2|SLC30A8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.4142456054688 2 531.333893 1060.65323 2.6252 0.0013949 2.9068 0.0015445 5.532 0.0029393 531.3358297275279 86.668 0.047363 86.668 86.629 86.676 0 8 6 2 0 0 0 1.0041 1 44458 44458 3.9444 0.3479 1 6860300 + 16711 13112 10762 10786 19002 19002 0.12533247693681915 LLISFDKLI 9 Unmodified _LLISFDKLI_ 0 0 0 REV__nc|ENSG00000164756|Q8IWU4-2|SLC30A8 REV__nc|ENSG00000164756|Q8IWU4-2|SLC30A8 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 531.333893 1060.65323 2.6252 0.0013949 2.9068 0.0015445 5.532 0.0029393 531.3358297275279 86.668 0.047363 86.668 86.629 86.676 0 0.15052 0.00015557 NaN 3.9444 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 6860300 + 16712 13112 10762 10786 0.12533247693681915 LLISFDKLI 9 Unmodified _LLISFDKLI_ 0 0 0 REV__nc|ENSG00000164756|Q8IWU4-2|SLC30A8 REV__nc|ENSG00000164756|Q8IWU4-2|SLC30A8 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 531.333893 1060.65323 2.2426 0.0011916 2.5271 0.0013427 4.7697 0.0025343 531.8363260164416 86.336 0.055023 86.367 86.333 86.388 0.030289 -0.15052 -0.00024789 NaN 3.9444 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 4966200 + 16713 13112 10762 10786 0.12533247693681915 LLISTHKFWW 10 Unmodified _LLISTHKFWW_ 0 0 0 ENST00000371703.7_1_10:92631554-92631593:+|nuORF ENST00000371703.7_1_10:92631554-92631593:+|nuORF ENST00000371703.7_1_10:92631554-92631593:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 665.8685913085938 2 665.868966 1329.72338 NaN NaN NaN NaN NaN NaN NaN 39.233 1 39.233 38.733 39.733 0 0 0 0 1.0001 1 17804 17804 1.6526 0.32309 1 16714 7323 10763 10787 19003 19003 0.07170546082124929 LLKERDHIL 9 Unmodified _LLKERDHIL_ 0 0 0 ENSG00000156273|ENST00000286800|BACH1 ENSG00000156273|ENST00000286800|BACH1 ENSG00000156273|ENST00000286800|BACH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.5652770996094 3 379.564391 1135.67134 NaN NaN NaN NaN NaN NaN NaN 25.428 1 25.695 25.195 26.195 0.26777 0 0 0 0.66577 1 11540 11540 13.615 2.8154 1 16715 3904 10764 10788 19004 19004 0.10893382668359664 LLKFCPIL 8 Unmodified _LLKFCPIL_ 0 0 0 ENST00000331835.9_2_1:87329096-87329153:-|nuORF ENST00000331835.9_2_1:87329096-87329153:-|nuORF ENST00000331835.9_2_1:87329096-87329153:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.7940368652344 2 473.793349 945.572146 3.1453 0.0014902 -0.24201 -0.00011466 2.9033 0.0013756 473.79328233936013 82.277 0.51887 82.937 82.707 83.226 0.66019 55 30 2 0 0 0 0.7471 1 37985 37985 0.79363 0 1 845930 16716 6994 10765 10789 19005 19005 0.09718268449910283 LLKFQQWREKF 11 Unmodified _LLKFQQWREKF_ 0 0 0 nc|ENSG00000005436|P16383-2|GCFC2;ENSG00000005436|ENST00000321027|GCFC2 nc|ENSG00000005436|P16383-2|GCFC2 nc|ENSG00000005436|P16383-2|GCFC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 761.9276733398438 2 761.930086 1521.84562 NaN NaN NaN NaN NaN NaN NaN 38.274 1 38.274 37.774 38.774 0 0 0 0 1.0071 1 17369 17369 1.4819 1.1313 1 16717 329 10766 10790 19006 19006 0.10556963093654304 LLKIKDTVL 9 Unmodified _LLKIKDTVL_ 0 0 0 ENSG00000159131|ENST00000381815|GART;nc|ENSG00000159131|P22102-2|GART ENSG00000159131|ENST00000381815|GART ENSG00000159131|ENST00000381815|GART MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.8493041992188 2 521.847167 1041.67978 3.5795 0.001868 0.039305 2.0511E-05 3.6188 0.0018885 522.3486148623637 48.014 0.21287 48.276 48.134 48.347 0.26209 14 8 2 0 0 0 0.021401 1 21928 21928 66.457 12.624 1 611140 16718 4009 10767 10791 19007 19007 0.16060936584972296 LLKIQKLTW 9 Unmodified _LLKIQKLTW_ 0 0 0 AluSx1_dup37998|chr6:106769720-106770022:-|1.4011282092327169|0.1005190185147661|3.8|534.0|4|2|sense AluSx1_dup37998|chr6:106769720-106770022:-|1.4011282092327169|0.1005190185147661|3.8|534.0|4|2|sense AluSx1_dup37998|chr6:106769720-106770022:-|1.4011282092327169|0.1005190185147661|3.8|534.0|4|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.5823669433594 3 381.581382 1141.72232 1.9019 0.00072574 1.1315 0.00043175 3.0334 0.0011575 381.5817679399142 77.37 0.25662 77.93 77.804 78.061 0.56091 46 18 3 0 0 0 1.0894 1 37556 37556 2.4985 0.75621 1 2545500 16719 46 10768 10792 19008 19008 0.15712331713211825 LLKKHILVM 9 Unmodified _LLKKHILVM_ 0 0 0 nc|ENSG00000101782|O14730-2|RIOK3;ENSG00000101782|ENST00000339486|RIOK3;ENST00000581302.5_1_18:21033283-21057068:+|nuORF;ENST00000581339.1_1_18:21053400-21057068:+|nuORF nc|ENSG00000101782|O14730-2|RIOK3 nc|ENSG00000101782|O14730-2|RIOK3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.5425109863281 3 365.575462 1093.70456 2.5945 0.00094847 0.26843 9.8131E-05 2.8629 0.0010466 365.90994776357684 30.632 0.21901 31.25 31.152 31.371 0.61737 16 12 2 0 0 0 0.11267 1 14094 14094 2.7352 2.4662 1 227520 16720 1313 10769 10793 19009 19009 0.16145293186741583 LLKKIQKA 8 Unmodified _LLKKIQKA_ 0 0 0 REV__nc|ENSG00000163092|A4UGR9-7|XIRP2 REV__nc|ENSG00000163092|A4UGR9-7|XIRP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.331298828125 2 471.328945 940.643337 NaN NaN NaN NaN NaN NaN NaN 8.2094 1 8.836 8.336 9.336 0.62663 0 0 0 0.99035 1 3702 3702 0 0 1 + 16721 18003 10770 10794 19010 19010 0.17064104478936315 LLKKKIKIIL 10 Unmodified _LLKKKIKIIL_ 0 0 0 Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|37|2|sense Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|37|2|sense Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|37|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 605.946044921875 2 605.454677 1208.8948 NaN NaN NaN NaN NaN NaN NaN 97.896 1 97.967 97.467 98.467 0.070648 0 0 0 1.002 1 52474 52474 0 0 1 16722 9391 10771 10795 19011 19011 0.29870903120604453 LLKKKKKKKK 10 Unmodified _LLKKKKKKKK_ 0 0 0 ENST00000378289.8_1_10:14940166-14940367:-|nuORF ENST00000378289.8_1_10:14940166-14940367:-|nuORF ENST00000378289.8_1_10:14940166-14940367:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 635.475830078125 2 635.476475 1268.9384 NaN NaN NaN NaN NaN NaN NaN 31.282 1 31.899 31.399 32.399 0.61737 0 0 0 1.002 1 14345 14345 0 0 1 16723 7431 10772 10796 19012 19012 0.3146851261772099 LLKKKKKKL 9 Unmodified _LLKKKKKKL_ 0 0 0 ENST00000336440.3_1_14:69259862-69260099:-|nuORF ENST00000336440.3_1_14:69259862-69260099:-|nuORF ENST00000336440.3_1_14:69259862-69260099:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.92333984375 2 563.923544 1125.83253 NaN NaN NaN NaN NaN NaN NaN 44.314 1 44.314 43.814 44.814 0 0 0 0 0.91206 1 20240 20240 0.6015 0 1 16724 7031 10773 10797 19013 19013 0.27465176772261657 LLKKRGRRKRI 11 Unmodified _LLKKRGRRKRI_ 0 0 0 REV__ENST00000440595.5_1_20:32580682-32582022:-|nuORF REV__ENST00000440595.5_1_20:32580682-32582022:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 712.8326416015625 2 712.494053 1422.97355 NaN NaN NaN NaN NaN NaN NaN 87.685 1 87.685 87.185 88.185 0 0 0 0 1.0082 1 45293 45293 0 0 1 + 16725 16342 10774 10798 19014 19014 0.2789856819824763 LLKKRLILLWI 11 Unmodified _LLKKRLILLWI_ 0 0 0 ENST00000358025.7_1_14:64483293-64484313:+|nuORF ENST00000358025.7_1_14:64483293-64484313:+|nuORF ENST00000358025.7_1_14:64483293-64484313:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 705.1514892578125 2 704.991958 1407.96936 NaN NaN NaN NaN NaN NaN NaN 88.764 1 88.816 88.316 89.316 0.052155 0 0 0 1.0082 1 45318 45318 0 0 1 16726 7186 10775 10799 19015 19015 0.2816966593197776 LLKKRRSR 8 Unmodified _LLKKRRSR_ 0 0 0 ENSG00000173442|ENST00000309295|EHBP1L1 ENSG00000173442|ENST00000309295|EHBP1L1 ENSG00000173442|ENST00000309295|EHBP1L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.8604736328125 2 528.859267 1055.70398 NaN NaN NaN NaN NaN NaN NaN 51.837 1 52.647 52.147 53.147 0.81065 0 0 0 0.99035 1 23612 23612 0.79363 0.10326 1 16727 4935 10776 10800 19016 19016 0.1783563458188837 LLKKSYLL 8 Unmodified _LLKKSYLL_ 0 0 0 ENST00000564079.5_1_15:43678079-43678139:+|nuORF ENST00000564079.5_1_15:43678079-43678139:+|nuORF ENST00000564079.5_1_15:43678079-43678139:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.32525634765625 2 489.323328 976.632104 3.288 0.0016089 0.17491 8.5587E-05 3.4629 0.0016945 489.3233739375725 40.348 0.27288 40.617 40.46 40.733 0.26904 13 8 2 0 0 0 0.025972 1 18354 18354 81.89 3.7408 1 1922900 16728 9024 10777 10801 19017 19017 0.14285282384798847 LLKKVKRRLPI 11 Unmodified _LLKKVKRRLPI_ 0 0 0 REV__ENST00000372457.8_1_1:43850123-43850276:-|nuORF REV__ENST00000372457.8_1_1:43850123-43850276:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 682.5533447265625 2 682.484831 1362.95511 NaN NaN NaN NaN NaN NaN NaN 79.357 1 79.677 79.177 80.177 0.31998 0 0 0 1.0082 1 38762 38762 0 0 1 + 16729 15753 10778 10802 19018 19018 0.2881501350370854 LLKLKYDEKIK 11 Unmodified _LLKLKYDEKIK_ 0 0 0 ENSG00000179144|ENST00000313543|GIMAP7 ENSG00000179144|ENST00000313543|GIMAP7 ENSG00000179144|ENST00000313543|GIMAP7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 695.939453125 2 695.937045 1389.85954 NaN NaN NaN NaN NaN NaN NaN 31.551 1 32.34 31.84 32.84 0.78879 0 0 0 1.0072 1 14251 14251 1.3295 0.92882 1 16730 5201 10779 10803 19019 19019 0.18020195802114358 LLKLLVLVH 9 Unmodified _LLKLLVLVH_ 0 0 0 ENST00000426595.1_1_7:55979573-55979666:+|nuORF ENST00000426595.1_1_7:55979573-55979666:+|nuORF ENST00000426595.1_1_7:55979573-55979666:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.2728881835938 2 524.36807 1046.72159 NaN NaN NaN NaN NaN NaN NaN 65.893 1 66.602 66.102 67.102 0.70891 0 0 0 0.91206 1 31198 31198 0.6015 0 1 16731 7809 10780 10804 19020 19020 0.20009537064152028 LLKLRSPR 8 Unmodified _LLKLRSPR_ 0 0 0 REV__ENST00000555988.1_2_14:75356010-75360059:+|nuORF REV__ENST00000555988.1_2_14:75356010-75360059:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.22320556640625 3 328.222188 981.644734 2.5802 0.00084686 -0.20076 -6.5894E-05 2.3794 0.00078097 328.2223285019254 12.495 0.31181 13.138 13.033 13.345 0.64272 23 10 4 0 0 0 0.17174 1 5579 5579 38.176 0 1 246400000 + 16732 17323 10781 10805 19021 19021 0.1531773856769405 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 445.9723815917969 3 445.636721 1333.88834 3.0465 0.0013576 -1.1257 -0.00050166 1.9207 0.00085596 445.6360447779193 30.919 0.23777 30.919 30.806 31.044 0 50 22 3 0 0 0 0.91489 2 13951 13951;13996 0 0 1 2794000 + 16733 17470 10782 10806 19022;19023 19022 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.47955322265625 4 334.47936 1333.88834 2.2027 0.00073676 -1.1072 -0.00037032 1.0956 0.00036644 334.4789124944582 33.171 0.32786 33.171 32.93 33.258 0 84 22 5 0 0 0 0.91462 2 15058 15014;15058 0.08335 0.08335 1 15838000 + 16734 17470 10782 10806 19024;19025 19025 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.47967529296875 4 334.47936 1333.88834 2.1317 0.00071301 -0.95113 -0.00031813 1.1806 0.00039487 334.47898321936134 33.515 0.41035 33.515 33.428 33.839 0 105 38 5 0 0 0 0.91489 3 15188 15188;15233;15324 0 0 1 32525000 + 16735 17470 10782 10806 19026;19027;19028 19026 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.72967529296875 4 334.47936 1333.88834 1.9975 0.00066812 -0.93001 -0.00031107 1.0675 0.00035705 334.4791101848859 34.383 0.44433 34.383 34.211 34.655 0 65 24 4 0 0 0 0.91459 4 15544 15544;15602;15654;15707 0.094841 0.094841 1 1336800 + 16736 17470 10782 10806 19029;19030;19031;19032 19029 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.73089599609375 4 334.47936 1333.88834 2.0585 0.00068853 -0.78095 -0.00026121 1.2776 0.00042732 334.479019669215 34.907 0.34904 34.907 34.613 34.962 0 59 22 4 0 0 0 0.91345 2 15765 15765;15817 0.45452 0.45452 1 14172000 + 16737 17470 10782 10806 19033;19034 19033 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.479736328125 4 334.47936 1333.88834 2.0909 0.00069935 -0.83614 -0.00027967 1.2547 0.00041968 334.4790975187583 35.117 0.31264 35.117 34.955 35.268 0 86 26 4 0 0 0 0.91462 4 15860 15860;15904;15953;15999 0.08335 0.08335 1 10496000 + 16738 17470 10782 10806 19035;19036;19037;19038 19035 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.7300109863281 4 334.47936 1333.88834 2.1323 0.00071322 -0.83045 -0.00027777 1.3019 0.00043545 334.4790403697062 35.422 0.27549 35.422 35.268 35.543 0 54 19 3 0 0 0 0.91489 2 16043 16043;16095 0 0 1 11886000 + 16739 17470 10782 10806 19039;19040 19039 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.4799499511719 4 334.47936 1333.88834 2.3277 0.00077856 -1.1136 -0.00037246 1.2141 0.00040609 334.47902468757593 38.878 0.77869 38.878 38.601 39.379 0 65 31 3 0 0 0 0.91489 4 17592 17592;17650;17705;17824 0 0 1 1120800 + 16740 17470 10782 10806 19041;19042;19043;19044 19041 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.72967529296875 4 334.47936 1333.88834 1.9975 0.00066812 -0.93001 -0.00031107 1.0675 0.00035705 334.4791101848859 34.383 0.44433 34.383 34.211 34.655 0 65 24 4 0 0 0 0.13295 1 15544 15544 0.094841 0.094841 1 1336800 + 16741 17470 10782 10806 19045 19045 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.7307434082031 4 334.47936 1333.88834 2.1317 0.00071301 -0.95113 -0.00031813 1.1806 0.00039487 334.47898321936134 33.515 0.41035 33.515 33.428 33.839 0 105 38 5 0 0 0 0.13295 1 15233 15233 0 0 1 32525000 + 16742 17470 10782 10806 19046 19046 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.73089599609375 4 334.47936 1333.88834 2.0585 0.00068853 -0.78095 -0.00026121 1.2776 0.00042732 334.479019669215 34.907 0.34904 34.907 34.613 34.962 0 59 22 4 0 0 0 0.13295 1 15765 15765 0.45452 0.45452 1 14172000 + 16743 17470 10782 10806 19047 19047 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 445.9723815917969 3 445.636721 1333.88834 3.0465 0.0013576 -1.1257 -0.00050166 1.9207 0.00085596 445.6360447779193 30.919 0.23777 30.919 30.806 31.044 0 50 22 3 0 0 0 0.13295 1 13951 13951 0 0 1 2794000 + 16744 17470 10782 10806 19048 19048 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.7301940917969 4 334.47936 1333.88834 2.0929 0.00070003 -1.076 -0.0003599 1.0169 0.00034013 334.47890976039616 34.139 0.36836 34.928 34.687 35.056 0.78921 69 21 4 0 0 0 0.91462 3 15442 15390;15442;15492 0.08335 0.08335 1 4732900 + 16745 17470 10782 10806 19049;19050;19051 19050 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.4795227050781 4 334.47936 1333.88834 2.1493 0.0007189 -1.0944 -0.00036606 1.0549 0.00035284 334.47889056616737 34.389 0.21627 35.178 35.036 35.252 0.78921 45 12 5 0 0 0 0.91489 2 15539 15539;15588 0 0 1 4335500 + 16746 17470 10782 10806 19052;19053 19052 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.4796142578125 4 334.47936 1333.88834 2.2402 0.00074929 -1.1374 -0.00038044 1.1028 0.00036885 334.4789157689553 34.69 0.64792 35.479 35.406 36.054 0.78921 121 45 4 0 0 0 0.91489 2 15686 15686;15733 0 0 1 11809000 + 16747 17470 10782 10806 19054;19055 19054 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.2233581542969 4 334.47936 1333.88834 2.2402 0.00074929 -1.1374 -0.00038044 1.1028 0.00036885 334.4789157689553 34.69 0.64792 35.479 35.406 36.054 0.78921 121 45 4 0 0 0 0.13295 1 15765 15765 0.45452 0.45452 1 11809000 + 16748 17470 10782 10806 19056 19056 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.4797058105469 4 334.47936 1333.88834 2.7436 0.00091769 -1.1078 -0.00037055 1.6358 0.00054714 334.47900578269184 30.29 0.59628 30.548 30.366 30.963 0.25804 123 37 5 0 0 0 0.91489 1 13810 13810 0 0 1 23227000 + 16749 17470 10782 10806 19057 19057 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.479736328125 4 334.47936 1333.88834 2.6573 0.00088882 -1.273 -0.0004258 1.3843 0.00046302 334.478932966095 32.585 0.3335 32.839 32.685 33.019 0.25452 61 16 6 0 0 0 0.91462 2 14810 14810;14855 0.08335 0.08335 1 38497000 + 16750 17470 10782 10806 19058;19059 19058 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.47967529296875 4 334.47936 1333.88834 2.5859 0.00086493 -1.1225 -0.00037546 1.4634 0.00048948 334.4790330367772 32.937 0.8993 33.191 32.929 33.829 0.25389 128 41 6 0 0 0 0.91489 5 14964 14964;15012;15066;15127;15276 0 0 1 31705000 + 16751 17470 10782 10806 19060;19061;19062;19063;19064 19060 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 667.953857421875 2 667.951444 1333.88834 3.7612 0.0025123 -1.5733 -0.0010509 2.1879 0.0014614 667.9500141146826 34.558 0.29178 34.812 34.672 34.963 0.25389 15 11 2 0 0 0 0.91459 1 15734 15734 0 0 1 740460 + 16752 17470 10782 10806 19065 19065 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.7304992675781 4 334.47936 1333.88834 2.396 0.00080141 -1.1783 -0.00039412 1.2177 0.00040729 334.7296783871893 34.719 0.2519 34.973 34.869 35.121 0.25389 38 15 3 0 0 0 0.91489 1 15825 15825 0 0 1 18440000 + 16753 17470 10782 10806 19066 19066 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.7306213378906 4 334.47936 1333.88834 2.3853 0.00079783 -1.0537 -0.00035245 1.3315 0.00044538 334.47891841600233 34.978 0.2096 35.233 35.111 35.32 0.25524 52 16 4 0 0 0 0.91489 1 15902 15902 0 0 1 14644000 + 16754 17470 10782 10806 19067 19067 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.4796447753906 4 334.47936 1333.88834 2.396 0.00080141 -1.1783 -0.00039412 1.2177 0.00040729 334.7296783871893 34.719 0.2519 34.973 34.869 35.121 0.25389 38 15 3 0 0 0 0.13295 1 15772 15772 0.08335 0.08335 1 18440000 + 16755 17470 10782 10806 19068 19068 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.48016357421875 4 334.47936 1333.88834 2.2353 0.00074767 -0.68746 -0.00022994 1.5479 0.00051773 334.4791585932412 32.366 1.0114 32.984 32.77 33.781 0.61832 147 51 6 0 0 0 0.91489 5 14800 14800;14849;14900;14959;15034 0 0 1 16165000 + 16756 17470 10782 10806 19069;19070;19071;19072;19073 19069 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.4798889160156 4 334.47936 1333.88834 2.1785 0.00072867 -1.0417 -0.00034844 1.1368 0.00038024 334.4790482514855 33.956 0.8799 34.576 33.797 34.677 0.62031 46 40 2 0 0 0 0.91489 2 15508 15508;15561 0 0 1 548760 + 16757 17470 10782 10806 19074;19075 19074 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.4794006347656 4 334.47936 1333.88834 2.3951 0.00080112 -1.0623 -0.0003553 1.3329 0.00044582 334.4789703271267 35.818 1.2723 36.444 35.938 37.21 0.62631 139 43 4 0 0 0 0.91489 3 16346 16346;16460;16534 0 0 1 2796100 + 16758 17470 10782 10806 19076;19077;19078 19076 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.73065185546875 4 334.47936 1333.88834 2.2164 0.00074135 -1.0086 -0.00033736 1.2078 0.00040399 334.4790427448107 37.302 1.3846 37.932 37.653 39.037 0.62999 134 54 3 0 0 0 0.91489 9 16990 16990;17034;17088;17153;17208;17259;17305;17319;17384 0 0 1 1396800 + 16759 17470 10782 10806 19079;19080;19081;19082;19083;19084;19085;19086;19087 19079 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.73028564453125 4 334.47936 1333.88834 2.503 0.00083721 -0.83613 -0.00027967 1.6669 0.00055755 334.7297651889825 40.68 0.28066 41.321 41.229 41.51 0.64136 39 17 3 0 0 0 0.91489 1 18622 18622 0 0 1 1596200 + 16760 17470 10782 10806 19088 19088 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.7301940917969 4 334.47936 1333.88834 2.2164 0.00074135 -1.0086 -0.00033736 1.2078 0.00040399 334.4790427448107 37.302 1.3846 37.932 37.653 39.037 0.62999 134 54 3 0 0 0 0.13295 1 17259 17259 0 0 1 1396800 + 16761 17470 10782 10806 19089 19089 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.72967529296875 4 334.47936 1333.88834 2.1785 0.00072867 -1.0417 -0.00034844 1.1368 0.00038024 334.4790482514855 33.956 0.8799 34.576 33.797 34.677 0.62031 46 40 2 0 0 0 0.13295 1 15382 15382 0 0 1 548760 + 16762 17470 10782 10806 19090 19090 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 334.47936 1333.88834 2.28 0.00076262 -1.1388 -0.00038091 1.1412 0.00038171 334.47892608437587 36.577 1.1952 36.577 35.942 37.137 0 -0.0030008 0.00011876 NaN 0 155 57 4 NaN NaN NaN NaN 0 NaN NaN 0 1475200 + 16763 17470 10782 10806 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 334.47936 1333.88834 2.4916 0.00083338 -0.95285 -0.00031871 1.5387 0.00051467 334.478985369403 30.939 0.4188 30.939 30.79 31.209 0 0.25818 0.00024594 NaN 0 132 38 5 NaN NaN NaN NaN 0 NaN NaN 0 19993000 + 16764 17470 10782 10806 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 334.47936 1333.88834 2.2027 0.00073676 -1.1072 -0.00037032 1.0956 0.00036644 334.4789124944582 33.171 0.32786 33.171 32.93 33.258 0 0.035351 -2.6119E-05 NaN 0.08335 84 22 5 NaN NaN NaN NaN 0 NaN NaN 0 15838000 + 16765 17470 10782 10806 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 334.47936 1333.88834 2.4176 0.00080863 -1.338 -0.00044755 1.0795 0.00036108 334.4788913539469 35.735 1.3251 36.526 36.044 37.369 0.79131 -0.054009 -0.00014779 NaN 0 153 64 3 NaN NaN NaN NaN 0 NaN NaN 0 3465800 + 16766 17470 10782 10806 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 334.47936 1333.88834 2.4206 0.00080966 -1.2153 -0.00040649 1.2053 0.00040316 334.4788822971148 29.797 0.33084 30.586 30.467 30.798 0.78921 -0.094766 -0.00010521 NaN 0 98 31 5 NaN NaN NaN NaN 0 NaN NaN 0 22410000 + 16767 17470 10782 10806 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 334.47936 1333.88834 2.0565 0.00068786 -0.99123 -0.00033155 1.0653 0.00035632 334.47895216686044 32.717 0.14846 33.504 33.467 33.616 0.78795 -0.1196 0.00015249 NaN 0 16 11 2 NaN NaN NaN NaN 0 NaN NaN 0 223410 + 16768 17470 10782 10806 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 334.47936 1333.88834 2.162 0.00072314 -1.0531 -0.00035225 1.1089 0.00037089 334.4789418176775 32.258 0.52355 33.046 32.933 33.456 0.78795 -0.090172 4.6166E-05 NaN 0.08335 141 46 5 NaN NaN NaN NaN 0 NaN NaN 0 17125000 + 16769 17470 10782 10806 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 334.47936 1333.88834 2.1977 0.00073508 -1.0121 -0.00033852 1.1856 0.00039656 334.4789343941256 32.082 0.19632 32.87 32.747 32.944 0.78795 -0.027799 -0.00013415 NaN 0.08335 93 25 4 NaN NaN NaN NaN 0 NaN NaN 0 9902000 + 16770 17470 10782 10806 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 334.47936 1333.88834 2.4081 0.00080547 -1.244 -0.00041608 1.1642 0.00038939 334.47889564916267 34.554 0.44258 34.808 34.443 34.886 0.25389 0.24225 -1.9989E-05 NaN 0.094841 50 20 3 NaN NaN NaN NaN 0 NaN NaN 0 14175000 + 16771 17470 10782 10806 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 334.47936 1333.88834 2.4242 0.00081084 -1.3485 -0.00045106 1.0757 0.00035978 334.4788637985769 36.516 1.1647 36.774 36.053 37.217 0.25768 0.19325 -0.00016185 NaN 0 140 47 4 NaN NaN NaN NaN 0 NaN NaN 0 2539700 + 16772 17470 10782 10806 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 334.47936 1333.88834 2.3816 0.00079661 -1.1142 -0.00037267 1.2675 0.00042394 334.4789255071694 35.164 0.78575 35.419 35.32 36.106 0.25524 -0.001498 -6.8466E-06 NaN 0 110 30 5 NaN NaN NaN NaN 0 NaN NaN 0 12868000 + 16773 17470 10782 10806 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 334.47936 1333.88834 2.4535 0.00082065 -1.9982 -0.00066835 0.45535 0.0001523 334.47886416056076 33.599 0.12091 33.853 33.829 33.95 0.25389 0.22911 -0.0011947 NaN 0 14 8 2 NaN NaN NaN NaN 0 NaN NaN 0 414010 + 16774 17470 10782 10806 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 334.47936 1333.88834 2.3255 0.00077782 -1.3405 -0.00044838 0.98493 0.00032944 334.47888092188043 30.033 0.40667 30.651 30.546 30.952 0.61737 -0.030145 -0.00027277 NaN 0 102 31 4 NaN NaN NaN NaN 0 NaN NaN 0 24519000 + 16775 17470 10782 10806 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 334.47936 1333.88834 2.3089 0.00077227 -1.0724 -0.00035871 1.2364 0.00041356 334.4789393168039 34.885 0.55367 35.508 35.41 35.964 0.62294 0.087667 4.8986E-05 NaN 0 114 35 4 NaN NaN NaN NaN 0 NaN NaN 0 13843000 + 16776 17470 10782 10806 0.2347464189758739 LLKMLKLHLIL 11 Unmodified _LLKMLKLHLIL_ 0 0 0 REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF REV__ENST00000575041.5_1_16:11864830-11868126:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 334.47936 1333.88834 2.2417 0.00074982 -1.2442 -0.00041617 0.9975 0.00033364 334.47889250115384 34.279 0.43627 34.902 34.729 35.165 0.62294 -0.025492 -0.00023306 NaN 0.08335 66 17 5 NaN NaN NaN NaN 0 NaN NaN 0 8355600 + 16777 17470 10782 10806 0.2347464189758739 LLKMPRDV 8 Unmodified _LLKMPRDV_ 0 0 0 ENST00000496669.1_1_3:87101304-87101523:-|nuORF ENST00000496669.1_1_3:87101304-87101523:-|nuORF ENST00000496669.1_1_3:87101304-87101523:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.30987548828125 2 486.288963 970.563372 NaN NaN NaN NaN NaN NaN NaN 97.553 1 97.842 97.342 98.342 0.28923 0 0 0 0.95658 1 44822 44822 8.5933 1.304 1 16778 8447 10783 10807 19091 19091 0.07691294813446348 LLKPKKKKVKA 11 Unmodified _LLKPKKKKVKA_ 0 0 0 REV__ENST00000523897.5_1_8:62496079-62555960:-|nuORF REV__ENST00000523897.5_1_8:62496079-62555960:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 640.9622192382812 2 640.960658 1279.90676 NaN NaN NaN NaN NaN NaN NaN 38.899 1 39.537 39.037 40.037 0.63778 0 0 0 1.008 1 17783 17783 0.35063 0 1 + 16779 14335 10784 10808 19092 19092 0.27800519863785667 LLKQRHVQL 9 Unmodified _LLKQRHVQL_ 0 0 0 ENSG00000273749|ENST00000617928|CYFIP1;ENSG00000055163|ENST00000620254|CYFIP2;nc|ENSG00000055163|Q96F07|CYFIP2;nc|ENSG00000273749|Q7L576-2|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 378.90966796875 3 378.90838 1133.70331 2.8239 0.00107 -0.07884 -2.9873E-05 2.7451 0.0010401 378.9083197907777 17.739 0.22065 17.739 17.646 17.867 0 19 12 2 0 0 0 0.46674 1 7880 7880 13.042 4.2971 1 202020 16780 6340 10785 10809 19093 19093 0.141807951421697 LLKQRHVQL 9 Unmodified _LLKQRHVQL_ 0 0 0 ENSG00000273749|ENST00000617928|CYFIP1;ENSG00000055163|ENST00000620254|CYFIP2;nc|ENSG00000055163|Q96F07|CYFIP2;nc|ENSG00000273749|Q7L576-2|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 378.9092102050781 3 378.90838 1133.70331 2.5544 0.00096789 0.24639 9.3357E-05 2.8008 0.0010612 378.90842049696903 14.538 0.20569 14.844 14.752 14.958 0.3069 36 14 3 0 0 0 0.019364 1 6567 6567 69.105 27.265 1 777380 16781 6340 10785 10809 19094 19094 0.141807951421697 LLKQRHVQL 9 Unmodified _LLKQRHVQL_ 0 0 0 ENSG00000273749|ENST00000617928|CYFIP1;ENSG00000055163|ENST00000620254|CYFIP2;nc|ENSG00000055163|Q96F07|CYFIP2;nc|ENSG00000273749|Q7L576-2|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.90936279296875 3 378.90838 1133.70331 2.7942 0.0010587 0.082594 3.1295E-05 2.8768 0.00109 378.9084869228813 14.614 0.25163 15.267 15.154 15.405 0.65356 58 27 3 0 0 0 0.92418 1 6626 6626 5.2969 0.39987 1 967830 16782 6340 10785 10809 19095 19095 0.141807951421697 LLKREWLLLAK 11 Unmodified _LLKREWLLLAK_ 0 0 0 ENST00000464686.5_1_2:74785845-74804048:-|nuORF;nc|ENSG00000159374|Q8TC57-4|M1AP;ENSG00000159374|ENST00000421985|M1AP ENST00000464686.5_1_2:74785845-74804048:-|nuORF ENST00000464686.5_1_2:74785845-74804048:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 691.9469604492188 2 691.947747 1381.88094 NaN NaN NaN NaN NaN NaN NaN 40.733 1 41.536 41.036 42.036 0.80351 0 0 0 1.0057 1 18459 18459 3.2813 0 1 16783 4020 10786 10810 19096 19096 0.2052762562150292 LLKRKLLLKRK 11 Unmodified _LLKRKLLLKRK_ 0 0 0 ENST00000342992.10_3_2:179510673-179515519:-|nuORF ENST00000342992.10_3_2:179510673-179515519:-|nuORF ENST00000342992.10_3_2:179510673-179515519:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 705.0119018554688 2 705.013756 1408.01296 NaN NaN NaN NaN NaN NaN NaN 70.498 1 71.202 70.702 71.702 0.70386 0 0 0 1.0082 1 33785 33785 0 0 1 16784 7088 10787 10811 19097 19097 0.325272754290836 LLKRYLLKRLN 11 Unmodified _LLKRYLLKRLN_ 0 0 0 ENSG00000172901|ENST00000357872|LVRN ENSG00000172901|ENST00000357872|LVRN ENSG00000172901|ENST00000357872|LVRN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 715.472900390625 2 715.471921 1428.92929 NaN NaN NaN NaN NaN NaN NaN 86.113 1 86.113 85.613 86.613 0 0 0 0 1.0082 1 44051 44051 0.30703 0 1 16785 4901 10788 10812 19098 19098 0.23198119261383 LLKSLLDKL 9 Unmodified _LLKSLLDKL_ 0 0 0 REV__ENST00000537553.5_1_12:30873726-30884436:-|nuORF REV__ENST00000537553.5_1_12:30873726-30884436:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.2909545898438 2 521.847167 1041.67978 NaN NaN NaN NaN NaN NaN NaN 48.194 1 48.194 47.694 48.694 0 0 0 0 0.49214 1 22069 22069 19.257 2.3147 1 + 16786 11216 10789 10813 19099 19099 0.16060936584972296 LLKTDVKLL 9 Unmodified _LLKTDVKLL_ 0 0 0 ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant;nc|ENSG00000171681|Q6VMQ6-5|ATF7IP;ENSG00000171681|ENST00000261168|ATF7IP;nc|ENSG00000171681|Q6VMQ6-4|ATF7IP;ENST00000539659.5_1_12:14576849-14613468:+|nuORF;ENST00000541654.1_1_12:14538317-14613468:+|nuORF;ATF7IP|p.S888Lfs*22|1|0.46|ENSG00000171681|chr12:14460997-14460997|T/-|frameshift_variant;ENST00000537653.5_1_12:14576849-14628955:+|nuORF;nc|ENSG00000171681|Q6VMQ6-2|ATF7IP ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.8486938476562 2 521.847167 1041.67978 3.3284 0.0017369 0.55985 0.00029216 3.8882 0.0020291 521.847545966798 47.33 0.23419 47.983 47.855 48.09 0.65356 23 9 3 0 0 0 0.21008 1 21644 21644 22.736 22.736 1 366830 16787 73 10790 10814 19100 19100 0.16060936584995034 LLKVHRPK 8 Unmodified _LLKVHRPK_ 0 0 0 REV__nc|ENSG00000164694|Q4ZHG4-2|FNDC1 REV__nc|ENSG00000164694|Q4ZHG4-2|FNDC1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 330.47210693359375 3 330.89055 989.649819 2.2904 0.00075788 2.0426 0.00067588 4.333 0.0014338 330.89195979703254 40.157 0.29866 40.157 39.9 40.199 0 15 11 2 0 0 0 0.14346 1 18127 18127 0.45834 0 1 305240 + 16788 13108 10791 10815 19101 19101 0.15458042430316254 LLKVHRPK 8 Unmodified _LLKVHRPK_ 0 0 0 REV__nc|ENSG00000164694|Q4ZHG4-2|FNDC1 REV__nc|ENSG00000164694|Q4ZHG4-2|FNDC1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.4717712402344 3 330.89055 989.649819 2.3132 0.00076542 3.1758 0.0010508 5.489 0.0018163 330.89223238396283 39.171 0.16594 39.436 39.344 39.51 0.26408 9 6 2 0 0 0 0.14346 1 17804 17804 0 0 1 165380 + 16789 13108 10791 10815 19102 19102 0.15458042430316254 LLKVHRPK 8 Unmodified _LLKVHRPK_ 0 0 0 REV__nc|ENSG00000164694|Q4ZHG4-2|FNDC1 REV__nc|ENSG00000164694|Q4ZHG4-2|FNDC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 330.89055 989.649819 2.4254 0.00080253 4.4838 0.0014837 6.9092 0.0022862 330.8921814622629 39.633 0.30908 39.9 39.794 40.103 0.26696 -0.1282 0.00086266 NaN 0.45834 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 186820 + 16790 13108 10791 10815 0.15458042430316254 LLKVMKTYKKK 11 Unmodified _LLKVMKTYKKK_ 0 0 0 REV__nc|ENSG00000131507|Q9BT67-2|NDFIP1 REV__nc|ENSG00000131507|Q9BT67-2|NDFIP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 460.31231689453125 3 460.631748 1378.87341 2.5443 0.001172 -0.52135 -0.00024015 2.0229 0.00093182 460.965903506466 47.117 0.42374 47.117 46.984 47.408 0 30 23 2 0 0 0 0.13295 1 21545 21545 0.45452 0 1 1134300 + 16791 17938 10792 10816 19103 19103 0.19913150029537974 LLKVMKTYKKK 11 Unmodified _LLKVMKTYKKK_ 0 0 0 REV__nc|ENSG00000131507|Q9BT67-2|NDFIP1 REV__nc|ENSG00000131507|Q9BT67-2|NDFIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 460.6329345703125 3 460.631748 1378.87341 NaN NaN NaN NaN NaN NaN NaN 45.24 1 45.508 45.008 46.008 0.26768 0 0 0 1.0072 1 20681 20681 1.3296 0.11481 1 + 16792 17938 10792 10816 19104 19104 0.19913150029537974 LLKVMKTYKKK 11 Unmodified _LLKVMKTYKKK_ 0 0 0 REV__nc|ENSG00000131507|Q9BT67-2|NDFIP1 REV__nc|ENSG00000131507|Q9BT67-2|NDFIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.7259216308594 4 345.72563 1378.87341 2.546 0.00088021 -0.92236 -0.00031888 1.6236 0.00056132 345.72514271712646 44.02 0.74018 44.669 44.524 45.264 0.64872 58 33 4 0 0 0 0.91345 2 20198 20198;20244 0.45452 0.45452 1 4029500 + 16793 17938 10792 10816 19105;19106 19105 0.19913150029537974 LLKWLMGL 8 Unmodified _LLKWLMGL_ 0 0 0 REV__ENST00000531017.5_1_19:50314409-50316363:-|nuORF REV__ENST00000531017.5_1_19:50314409-50316363:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.3028564453125 2 487.298799 972.583045 NaN NaN NaN NaN NaN NaN NaN 18.946 1 19.605 19.105 20.105 0.65885 0 0 0 0.72306 1 8591 8591 14.582 0 1 + 16794 17137 10793 10817 19107 19107 0.09565670824201788 LLKYKIKQTKK 11 Unmodified _LLKYKIKQTKK_ 0 0 0 ENST00000269141.7_1_18:25531653-25531752:-|nuORF ENST00000269141.7_1_18:25531653-25531752:-|nuORF ENST00000269141.7_1_18:25531653-25531752:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 695.9606323242188 2 695.960855 1389.90716 NaN NaN NaN NaN NaN NaN NaN 69.343 1 69.598 69.098 70.098 0.25443 0 0 0 1.0082 1 31757 31757 0 0 1 16795 6639 10794 10818 19108 19108 0.22779894792938649 LLKYLVYIL 9 Unmodified _LLKYLVYIL_ 0 0 0 nc|ENSG00000006283|O43497-27|CACNA1G;nc|ENSG00000006283|O43497-15|CACNA1G;nc|ENSG00000006283|O43497-13|CACNA1G;nc|ENSG00000006283|O43497-6|CACNA1G;nc|ENSG00000006283|O43497-17|CACNA1G;nc|ENSG00000006283|O43497-11|CACNA1G;nc|ENSG00000006283|O43497-25|CACNA1G;nc|ENSG00000006283|O43497-21|CACNA1G;nc|ENSG00000006283|O43497-9|CACNA1G;nc|ENSG00000006283|O43497-8|CACNA1G;nc|ENSG00000006283|O43497-16|CACNA1G;nc|ENSG00000006283|O43497-7|CACNA1G;nc|ENSG00000006283|O43497-12|CACNA1G;nc|ENSG00000006283|O43497-33|CACNA1G;nc|ENSG00000006283|O43497-4|CACNA1G;nc|ENSG00000006283|O43497-20|CACNA1G;nc|ENSG00000006283|O43497-10|CACNA1G;nc|ENSG00000006283|O43497-34|CACNA1G;nc|ENSG00000006283|O43497-22|CACNA1G;nc|ENSG00000006283|O43497-2|CACNA1G;nc|ENSG00000006283|O43497-29|CACNA1G;nc|ENSG00000006283|O43497-30|CACNA1G;nc|ENSG00000006283|O43497-32|CACNA1G;nc|ENSG00000006283|O43497-31|CACNA1G;nc|ENSG00000006283|O43497-5|CACNA1G;nc|ENSG00000006283|O43497-19|CACNA1G;nc|ENSG00000006283|O43497-28|CACNA1G;nc|ENSG00000006283|O43497-18|CACNA1G;nc|ENSG00000006283|O43497-23|CACNA1G;nc|ENSG00000006283|O43497-26|CACNA1G;nc|ENSG00000006283|O43497-3|CACNA1G;nc|ENSG00000006283|O43497-36|CACNA1G;nc|ENSG00000006283|O43497-35|CACNA1G;nc|ENSG00000006283|O43497-24|CACNA1G;ENSG00000006283|ENST00000359106|CACNA1G nc|ENSG00000006283|O43497-27|CACNA1G nc|ENSG00000006283|O43497-27|CACNA1G MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.3709106445312 2 569.367736 1136.72092 NaN NaN NaN NaN NaN NaN NaN 15.959 1 15.959 15.459 16.459 0 0 0 0 0.91206 1 7062 7062 0.6015 0.076735 1 16796 345 10795 10819 19109 19109 0.1580269762446278 LLKYRRRHRKH 11 Unmodified _LLKYRRRHRKH_ 0 0 0 ENSG00000125266|ENST00000646441|EFNB2 ENSG00000125266|ENST00000646441|EFNB2 ENSG00000125266|ENST00000646441|EFNB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 781.9841918945312 2 781.984384 1561.95422 NaN NaN NaN NaN NaN NaN NaN 54.543 1 55.338 54.838 55.838 0.79552 0 0 0 1.0082 1 24887 24887 0 0 1 16797 2393 10796 10820 19110 19110 0.19571611907304032 LLKYRWQM 8 Unmodified _LLKYRWQM_ 0 0 0 REV__ENSG00000177807|ENST00000644903|KCNJ10 REV__ENSG00000177807|ENST00000644903|KCNJ10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.316162109375 2 569.315512 1136.61647 NaN NaN NaN NaN NaN NaN NaN 13.018 1 13.66 13.16 14.16 0.64272 0 0 0 0.99035 1 5842 5842 0.69038 0 1 + 16798 13744 10797 10821 19111 19111 0.05362672596106677 LLLAFRKKK 9 Unmodified _LLLAFRKKK_ 0 0 0 REV__ENST00000422956.6_1_2:113993137-114016997:+|nuORF REV__ENST00000422956.6_1_2:113993137-114016997:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.8846435546875 2 558.884419 1115.75428 NaN NaN NaN NaN NaN NaN NaN 97.947 1 98.018 97.518 98.518 0.070648 0 0 0 0.91206 1 52519 52519 0.6015 0.076735 1 + 16799 15395 10798 10822 19112 19112 0.20103744187031225 LLLAKKKKVHL 11 Unmodified _LLLAKKKKVHL_ 0 0 0 REV__nc|ENSG00000197893|Q86VF7-3|NRAP REV__nc|ENSG00000197893|Q86VF7-3|NRAP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 645.9500122070312 2 645.952833 1289.89111 NaN NaN NaN NaN NaN NaN NaN 77.63 1 77.63 77.13 78.13 0 0 0 0 1.0072 1 38080 38080 1.3295 0.13619 1 + 16800 18100 10799 10823 19113 19113 0.2577623334675536 LLLDLPLKQ 9 Unmodified _LLLDLPLKQ_ 0 0 0 ENST00000426654.6_1_16:69660389-69681075:+|nuORF ENST00000426654.6_1_16:69660389-69681075:+|nuORF ENST00000426654.6_1_16:69660389-69681075:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.5638427734375 3 351.561987 1051.66413 NaN NaN NaN NaN NaN NaN NaN 44.451 1 44.72 44.22 45.22 0.2694 0 0 0 0.91059 1 20318 20318 0.96228 0.0979 1 16801 7811 10800 10824 19114 19114 0.14036650067941991 LLLFRKTFK 9 Unmodified _LLLFRKTFK_ 0 0 0 ENST00000515330.5_1_4:113345070-113346839:+|nuORF ENST00000515330.5_1_4:113345070-113346839:+|nuORF ENST00000515330.5_1_4:113345070-113346839:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.3788452148438 2 583.376426 1164.7383 3.5235 0.0020555 1.1307 0.00065964 4.6542 0.0027152 583.3770884587077 41.623 0.33826 41.623 41.531 41.869 0 65 39 2 0 0 0 1.0755 2 18903 18903;18951 4.756 2.6963 1 2556900 16802 8594 10801 10825 19115;19116 19115 0.16252037950107479 LLLGIHPKEY 10 Unmodified _LLLGIHPKEY_ 0 0 0 L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|92|3|sense L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|92|3|sense L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|92|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.9023742675781 3 394.900891 1181.68084 2.991 0.0011811 0.96072 0.00037939 3.9517 0.0015605 394.90110269478106 82.07 1.0983 82.73 82.375 83.473 0.65998 86 63 2 0 0 0 0.93372 1 38125 38125 2.086 0.17963 1 771720 16803 9461 10802 10826 19117 19117 0.09727150953904129 LLLGWVPTRL 10 Unmodified _LLLGWVPTRL_ 0 0 0 ENSG00000127533|ENST00000248076|F2RL3 ENSG00000127533|ENST00000248076|F2RL3 ENSG00000127533|ENST00000248076|F2RL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.9146728515625 3 389.913131 1166.71756 2.89 0.0011269 1.1064 0.0004314 3.9964 0.0015583 389.91349240095167 36.3 0.59729 36.557 36.271 36.868 0.25768 56 25 3 0 0 0 0.9146 1 16575 16575 3.0723 2.3746 1 774750 16804 2484 10803 10827 19118 19118 0.1408744757045497 LLLGWVPTRL 10 Unmodified _LLLGWVPTRL_ 0 0 0 ENSG00000127533|ENST00000248076|F2RL3 ENSG00000127533|ENST00000248076|F2RL3 ENSG00000127533|ENST00000248076|F2RL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.9139099121094 3 389.913131 1166.71756 2.9091 0.0011343 1.085 0.00042305 3.9941 0.0015574 389.91345867482727 35.68 0.38704 36.307 36.133 36.52 0.62631 28 14 2 0 0 0 0.9146 1 16337 16337 1.4551 0.75745 1 689930 16805 2484 10803 10827 19119 19119 0.1408744757045497 LLLHGLLNVRP 11 Unmodified _LLLHGLLNVRP_ 0 0 0 ENST00000508797.1_1_5:179035408-179036813:+|nuORF ENST00000508797.1_1_5:179035408-179036813:+|nuORF ENST00000508797.1_1_5:179035408-179036813:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 415.7598876953125 3 415.599435 1243.77648 NaN NaN NaN NaN NaN NaN NaN 77.02 1 77.643 77.143 78.143 0.62397 0 0 0 1.0064 1 37343 37343 2.4348 1.808 1 16806 8534 10804 10828 19120 19120 0.16433923864792632 LLLHLLLIKL 10 Unmodified _LLLHLLLIKL_ 0 0 0 ENST00000256442.9_1_5:68473515-68473575:+|nuORF ENST00000256442.9_1_5:68473515-68473575:+|nuORF ENST00000256442.9_1_5:68473515-68473575:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 594.9247436523438 2 594.925752 1187.83695 NaN NaN NaN NaN NaN NaN NaN 93.032 1 93.032 92.532 93.532 0 0 0 0 1.002 1 49579 49579 0 0 1 16807 6524 10805 10829 19121 19121 0.2505464119519729 LLLIKIKPAL 10 Unmodified _LLLIKIKPAL_ 0 0 0 REV__ENSG00000260286|ENST00000565469|ARMH2 REV__ENSG00000260286|ENST00000565469|ARMH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.3648681640625 2 561.404653 1120.79475 NaN NaN NaN NaN NaN NaN NaN 89.82 1 89.884 89.384 90.384 0.064346 0 0 0 0.99983 1 46119 46119 1.8442 0 1 + 16808 14688 10806 10830 19122 19122 0.23918665786800375 LLLILRHLV 9 Unmodified _LLLILRHLV_ 0 0 0 ENST00000230640.9_1_5:54635965-54636001:+|nuORF ENST00000230640.9_1_5:54635965-54636001:+|nuORF ENST00000230640.9_1_5:54635965-54636001:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.4100952148438 2 545.378969 1088.74339 NaN NaN NaN NaN NaN NaN NaN 63.269 1 63.269 62.769 63.769 0 0 0 0 0.91206 1 29749 29749 0.6015 0.14316 1 16809 6443 10807 10831 19123 19123 0.20256341812751089 LLLILRHLV 9 Unmodified _LLLILRHLV_ 0 0 0 ENST00000230640.9_1_5:54635965-54636001:+|nuORF ENST00000230640.9_1_5:54635965-54636001:+|nuORF ENST00000230640.9_1_5:54635965-54636001:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.3839111328125 2 545.378969 1088.74339 NaN NaN NaN NaN NaN NaN NaN 60.966 1 61.706 61.206 62.206 0.7396 0 0 0 0.91206 1 28211 28211 0.6015 0.14316 1 16810 6443 10807 10831 19124 19124 0.20256341812751089 LLLKALVPLLK 11 Unmodified _LLLKALVPLLK_ 0 0 0 ENSG00000123505|ENST00000368885|AMD1;ENST00000508874.1_1_5:43587648-43587864:-|nuORF ENSG00000123505|ENST00000368885|AMD1 ENSG00000123505|ENST00000368885|AMD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 610.9410400390625 2 610.93886 1219.86317 NaN NaN NaN NaN NaN NaN NaN 28.575 1 28.575 28.075 29.075 0 0 0 0 1.0082 1 12886 12886 0 0 1 16811 2317 10808 10832 19125 19125 0.2620291036664639 LLLKALVPLLK 11 Unmodified _LLLKALVPLLK_ 0 0 0 ENSG00000123505|ENST00000368885|AMD1;ENST00000508874.1_1_5:43587648-43587864:-|nuORF ENSG00000123505|ENST00000368885|AMD1 ENSG00000123505|ENST00000368885|AMD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 610.9367065429688 2 610.93886 1219.86317 NaN NaN NaN NaN NaN NaN NaN 26.742 1 27.521 27.021 28.021 0.7787 0 0 0 1.0082 1 12014 12014 0 0 1 16812 2317 10808 10832 19126 19126 0.2620291036664639 LLLKKKKKLIV 11 Unmodified _LLLKKKKKLIV_ 0 0 0 REV__NOS1AP|p.R207Gfs*32|1|0.46|ENSG00000198929|chr1:162355208-162355209|-/GG|frameshift_variant REV__NOS1AP|p.R207Gfs*32|1|0.46|ENSG00000198929|chr1:162355208-162355209|-/GG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 662.4921875 2 662.494333 1322.97411 NaN NaN NaN NaN NaN NaN NaN 44.215 1 44.215 43.715 44.715 0 0 0 0 1.0082 1 20189 20189 0 0 1 + 16813 14383 10809 10833 19127 19127 0.3255455007472392 LLLKLKKW 8 Unmodified _LLLKLKKW_ 0 0 0 nc|ENSG00000137672|Q9Y210-2|TRPC6;nc|ENSG00000137672|Q9Y210-3|TRPC6;ENSG00000137672|ENST00000344327|TRPC6 nc|ENSG00000137672|Q9Y210-2|TRPC6 nc|ENSG00000137672|Q9Y210-2|TRPC6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.365478515625 2 521.362788 1040.71102 NaN NaN NaN NaN NaN NaN NaN 66.043 1 66.043 65.543 66.543 0 0 0 0 0.99035 1 31511 31511 0.69038 0 1 16814 3031 10810 10834 19128 19128 0.19229554409730554 LLLKLLHVK 9 Unmodified _LLLKLLHVK_ 0 0 0 REV__nc|ENSG00000170085|Q8NDZ2-4|SIMC1 REV__nc|ENSG00000170085|Q8NDZ2-4|SIMC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.8837280273438 2 538.881345 1075.74814 NaN NaN NaN NaN NaN NaN NaN 64.525 1 64.525 64.025 65.025 0 0 0 0 0.91265 1 30592 30592 0.45834 0.45834 1 + 16815 18039 10811 10835 19129 19129 0.2132922595551463 LLLKLLHVK 9 Unmodified _LLLKLLHVK_ 0 0 0 REV__nc|ENSG00000170085|Q8NDZ2-4|SIMC1 REV__nc|ENSG00000170085|Q8NDZ2-4|SIMC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.5518188476562 2 538.881345 1075.74814 NaN NaN NaN NaN NaN NaN NaN 69.042 1 69.042 68.542 69.542 0 0 0 0 0.91265 1 33291 33291 0.45834 0.45834 1 + 16816 18039 10811 10835 19130 19130 0.2132922595551463 LLLKLRPLPI 10 Unmodified _LLLKLRPLPI_ 0 0 0 REV__nc|ENSG00000165555|Q6NXP6-2|NOXRED1 REV__nc|ENSG00000165555|Q6NXP6-2|NOXRED1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 588.414794921875 2 588.415552 1174.81655 NaN NaN NaN NaN NaN NaN NaN 86.448 1 86.448 85.948 86.948 0 0 0 0 1.002 1 44319 44319 0 0 1 + 16817 13166 10812 10836 19131 19131 0.23613470535360648 LLLKLRPLPI 10 Unmodified _LLLKLRPLPI_ 0 0 0 REV__nc|ENSG00000165555|Q6NXP6-2|NOXRED1 REV__nc|ENSG00000165555|Q6NXP6-2|NOXRED1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.4180297851562 2 588.415552 1174.81655 NaN NaN NaN NaN NaN NaN NaN 91.258 1 91.92 91.42 92.42 0.66198 0 0 0 1.002 1 41997 41997 0 0 1 + 16818 13166 10812 10836 19132 19132 0.23613470535360648 LLLKLRPLPI 10 Unmodified _LLLKLRPLPI_ 0 0 0 REV__nc|ENSG00000165555|Q6NXP6-2|NOXRED1 REV__nc|ENSG00000165555|Q6NXP6-2|NOXRED1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.4154663085938 2 588.415552 1174.81655 NaN NaN NaN NaN NaN NaN NaN 103.44 1 104.04 103.54 104.54 0.59821 0 0 0 1.002 1 47854 47854 0 0 1 + 16819 13166 10812 10836 19133 19133 0.23613470535360648 LLLKTPPLL 9 Unmodified _LLLKTPPLL_ 0 0 0 REV__ENST00000261401.7_1_12:109039947-109040256:-|nuORF REV__ENST00000261401.7_1_12:109039947-109040256:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.349853515625 2 504.346803 1006.67905 NaN NaN NaN NaN NaN NaN NaN 30.547 1 31.165 30.665 31.665 0.61737 0 0 0 0.91238 1 14016 14016 0.52476 0 1 + 16820 14963 10813 10837 19134 19134 0.175981419359573 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 308.9005432128906 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 9.7901 1 9.7901 9.2901 10.29 0 0 0 0 0.99035 1 4395 4395 0 0 1 16821 2319 10814 10838 19135 19135 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 308.9012145996094 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 9.8921 1 9.8921 9.3921 10.392 0 0 0 0 0.99035 1 4433 4433 0 0 1 16822 2319 10814 10838 19136 19136 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 308.90069580078125 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 10.047 1 10.047 9.5472 10.547 0 0 0 0 0.99035 1 4498 4498 0 0 1 16823 2319 10814 10838 19137 19137 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 308.90081787109375 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 11.221 1 11.221 10.721 11.721 0 0 0 0 0.99035 1 4907 4907 0 0 1 16824 2319 10814 10838 19138 19138 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 308.90093994140625 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 11.323 1 11.323 10.823 11.823 0 0 0 0 0.99035 1 4946 4946 0 0 1 16825 2319 10814 10838 19139 19139 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 308.90087890625 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 11.688 1 11.688 11.188 12.188 0 0 0 0 0.99035 1 5086 5086 0 0 1 16826 2319 10814 10838 19140 19140 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 308.90106201171875 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 11.831 1 11.831 11.331 12.331 0 0 0 0 0.99035 1 5141 5141 0 0 1 16827 2319 10814 10838 19141 19141 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 308.900634765625 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 12.106 1 12.106 11.606 12.606 0 0 0 0 0.99035 1 5249 5249 0 0 1 16828 2319 10814 10838 19142 19142 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 308.90057373046875 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 9.0818 1 9.393 8.893 9.893 0.31115 0 0 0 0.99035 1 4084 4084 0 0 1 16829 2319 10814 10838 19143 19143 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 308.90087890625 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 9.718 1 10.014 9.5136 10.514 0.2956 0 0 0 0.99035 1 4331 4331 0 0 1 16830 2319 10814 10838 19144 19144 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 308.90057373046875 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 11.172 1 11.451 10.951 11.951 0.2792 0 0 0 0.99035 1 4848 4848 0 0 1 16831 2319 10814 10838 19145 19145 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 308.9007873535156 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 11.268 1 11.547 11.047 12.047 0.2792 0 0 0 0.99035 1 4889 4889 0 0 1 16832 2319 10814 10838 19146 19146 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 308.9006652832031 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 11.562 1 11.841 11.341 12.341 0.2792 0 0 0 0.99035 1 5010 5010 0 0 1 16833 2319 10814 10838 19147 19147 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 308.9010314941406 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 11.72 1 12 11.5 12.5 0.2792 0 0 0 0.99035 1 5070 5070 0 0 1 16834 2319 10814 10838 19148 19148 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 308.9009704589844 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 11.806 1 12.067 11.567 12.567 0.26154 0 0 0 0.99035 1 5100 5100 0 0 1 16835 2319 10814 10838 19149 19149 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 308.9005432128906 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 11.925 1 12.187 11.687 12.687 0.26154 0 0 0 0.99035 1 5142 5142 0 0 1 16836 2319 10814 10838 19150 19150 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 308.9004211425781 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 12.173 1 12.435 11.935 12.935 0.26154 0 0 0 0.99035 1 5234 5234 0 0 1 16837 2319 10814 10838 19151 19151 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 308.9008483886719 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 10.234 1 10.541 10.041 11.041 0.307 0 0 0 0.99035 1 4633 4633 0 0 1 16838 2319 10814 10838 19152 19152 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 308.9009704589844 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 11.098 1 11.405 10.905 11.905 0.30727 0 0 0 0.99035 1 5034 5034 0 0 1 16839 2319 10814 10838 19153 19153 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 308.9011535644531 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 11.444 1 11.751 11.251 12.251 0.30727 0 0 0 0.99035 1 5180 5180 0 0 1 16840 2319 10814 10838 19154 19154 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 308.9006042480469 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 11.646 1 11.953 11.453 12.453 0.30727 0 0 0 0.99035 1 5259 5259 0 0 1 16841 2319 10814 10838 19155 19155 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 308.9013671875 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 11.742 1 12.049 11.549 12.549 0.30727 0 0 0 0.99035 1 5298 5298 0 0 1 16842 2319 10814 10838 19156 19156 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 308.9006652832031 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 11.984 1 12.291 11.791 12.791 0.30727 0 0 0 0.99035 1 5393 5393 0 0 1 16843 2319 10814 10838 19157 19157 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 308.90081787109375 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 12.106 1 12.414 11.914 12.914 0.30727 0 0 0 0.99035 1 5443 5443 0 0 1 16844 2319 10814 10838 19158 19158 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.90118408203125 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 11.795 1 12.432 11.932 12.932 0.63746 0 0 0 0.99035 1 5284 5284 0 0 1 16845 2319 10814 10838 19159 19159 0.2134334728691556 LLLKVILL 8 Unmodified _LLLKVILL_ 0 0 0 ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B ENSG00000123570|ENST00000243298|RAB9B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.90081787109375 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 12.007 1 12.645 12.145 13.145 0.63746 0 0 0 0.99035 1 5366 5366 0 0 1 16846 2319 10814 10838 19160 19160 0.2134334728691556 LLLKVKIIKS 10 Unmodified _LLLKVKIIKS_ 0 0 0 REV__ENST00000379380.8_1_5:130517939-130517987:+|nuORF REV__ENST00000379380.8_1_5:130517939-130517987:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.9161987304688 2 577.915384 1153.81622 NaN NaN NaN NaN NaN NaN NaN 96.433 1 96.51 96.01 97.01 0.076538 0 0 0 1.0015 1 51245 51245 0.45834 0 1 + 16847 15865 10815 10839 19161 19161 0.24546050815501985 LLLLHLQIMKS 11 Unmodified _LLLLHLQIMKS_ 0 0 0 ENST00000342506.2_1_2:197672156-197673984:-|nuORF ENST00000342506.2_1_2:197672156-197673984:-|nuORF ENST00000342506.2_1_2:197672156-197673984:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.2004089355469 4 327.957255 1307.79991 2.3869 0.00078281 -1.9911 -0.00065301 0.3958 0.0001298 327.9567540008933 59.227 0.31521 59.487 59.408 59.723 0.2593 15 12 2 0 0 0 0.13295 1 27204 27204 0.50596 0.051438 1 677420 16848 7081 10816 10840 19162 19162 0.1583260158711255 LLLLHLQIMKS 11 Unmodified _LLLLHLQIMKS_ 0 0 0 ENST00000342506.2_1_2:197672156-197673984:-|nuORF ENST00000342506.2_1_2:197672156-197673984:-|nuORF ENST00000342506.2_1_2:197672156-197673984:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 327.957255 1307.79991 2.0255 0.00066428 -2.142 -0.00070248 -0.11648 -3.8199E-05 327.9567875697933 59.837 0.087612 59.837 59.758 59.846 0 0.17502 -0.00014323 NaN 0.50596 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 1104300 16849 7081 10816 10840 0.1583260158711255 LLLLISESM 9 Unmodified _LLLLISESM_ 0 0 0 ENST00000484061.5_1_2:47221411-47251446:+|nuORF;ENST00000491786.5_1_2:47205894-47301059:+|nuORF;ENST00000409825.5_1_2:47184044-47301059:+|nuORF;ENSG00000165914|ENST00000328459|TTC7B;ENSG00000068724|ENST00000319190|TTC7A;nc|ENSG00000165914|Q86TV6-2|TTC7B;nc|ENSG00000068724|Q9ULT0-4|TTC7A ENST00000484061.5_1_2:47221411-47251446:+|nuORF ENST00000484061.5_1_2:47221411-47251446:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 340.20977783203125 3 340.19995 1017.57802 NaN NaN NaN NaN NaN NaN NaN 76.977 1 77.232 76.732 77.732 0.25533 0 0 0 0.90965 1 35447 35447 1.1933 0 1 16850 739 10817 10841 19163 19163 0.06993322170933425 LLLLKHMQH 9 Unmodified _LLLLKHMQH_ 0 0 0 nc|ENSG00000156711|O15264-2|MAPK13;ENSG00000156711|ENST00000211287|MAPK13 nc|ENSG00000156711|O15264-2|MAPK13 nc|ENSG00000156711|O15264-2|MAPK13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.8385620117188 2 566.836611 1131.65867 NaN NaN NaN NaN NaN NaN NaN 11.109 1 11.388 10.888 11.888 0.2792 0 0 0 0.91206 1 4821 4821 0.6015 0 1 16851 3923 10818 10842 19164 19164 0.09810648004463474 LLLLKKKKKL 10 Unmodified _LLLLKKKKKL_ 0 0 0 REV__NOS1AP|p.R207Gfs*32|1|0.46|ENSG00000198929|chr1:162355208-162355209|-/GG|frameshift_variant REV__NOS1AP|p.R207Gfs*32|1|0.46|ENSG00000198929|chr1:162355208-162355209|-/GG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 612.9610595703125 2 612.960126 1223.9057 NaN NaN NaN NaN NaN NaN NaN 75.269 1 75.932 75.432 76.432 0.6635 0 0 0 1.002 1 36439 36439 0 0 1 + 16852 14383 10819 10843 19165 19165 0.302703054948779 LLLLLFFWFLL 11 Unmodified _LLLLLFFWFLL_ 0 0 0 REV__ENST00000464987.5_1_11:850289-864703:+|nuORF REV__ENST00000464987.5_1_11:850289-864703:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 719.44677734375 2 719.44906 1436.88357 NaN NaN NaN NaN NaN NaN NaN 93.789 1 93.876 93.376 94.376 0.086212 0 0 0 1.0071 1 49218 49218 1.4819 0.15237 1 + 16853 16536 10820 10844 19166 19166 0.18260081026437547 LLLLLFLLLV 10 Unmodified _LLLLLFLLLV_ 0 0 0 ENST00000489749.1_1_2:7018228-7023923:+|nuORF ENST00000489749.1_1_2:7018228-7023923:+|nuORF ENST00000489749.1_1_2:7018228-7023923:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.4190063476562 2 585.417229 1168.8199 NaN NaN NaN NaN NaN NaN NaN 45.261 1 46.087 45.587 46.587 0.82621 0 0 0 1.0015 1 20614 20614 0.45834 0 1 16854 8383 10821 10845 19167 19167 0.24224720589381832 LLLLLKLLQLA 11 Unmodified _LLLLLKLLQLA_ 0 0 0 REV__nc|ENSG00000138039|P22888-2|LHCGR REV__nc|ENSG00000138039|P22888-2|LHCGR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 625.946533203125 2 625.944142 1249.87373 NaN NaN NaN NaN NaN NaN NaN 34.706 1 34.706 34.206 35.206 0 0 0 0 1.0082 1 15734 15734 0 0 1 + 16855 12143 10822 10846 19168 19168 0.25878893021103977 LLLLLKRRKRH 11 Unmodified _LLLLLKRRKRH_ 0 0 0 REV__ENST00000416673.6_1_2:114369763-114384446:-|nuORF REV__ENST00000416673.6_1_2:114369763-114384446:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 723.5016479492188 2 723.498804 1444.98306 NaN NaN NaN NaN NaN NaN NaN 36.833 1 37.626 37.126 38.126 0.79342 0 0 0 1.008 1 16691 16691 0.35063 0.35063 1 + 16856 16135 10823 10847 19169 19169 0.27836336483755986 LLLLLLFLLM 10 Unmodified _LLLLLLFLLM_ 0 0 0 REV__ENST00000379565.7_1_X:20173340-20173514:-|nuORF REV__ENST00000379565.7_1_X:20173340-20173514:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.4027099609375 2 601.403264 1200.79198 NaN NaN NaN NaN NaN NaN NaN 32.974 1 33.762 33.262 34.262 0.78795 0 0 0 1.0015 1 14918 14918 0.45834 0 1 + 16857 15867 10824 10848 19170 19170 0.19961074337606988 LLLLLLKRK 9 Unmodified _LLLLLLKRK_ 0 0 0 REV__ENST00000433301.5_1_12:110943436-110952922:+|nuORF REV__ENST00000433301.5_1_12:110943436-110952922:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 555.40869140625 2 555.410269 1108.80599 NaN NaN NaN NaN NaN NaN NaN 87.156 1 87.196 86.696 87.696 0.039955 0 0 0 0.91452 1 44047 44047 0 0 1 + 16858 16281 10825 10849 19171 19171 0.2559348788090574 LLLLLLLALH 10 Unmodified _LLLLLLLALH_ 0 0 0 REV__ENSG00000083857|ENST00000441802|FAT1 REV__ENSG00000083857|ENST00000441802|FAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.8609619140625 2 566.396828 1130.7791 NaN NaN NaN NaN NaN NaN NaN 69.262 1 69.964 69.464 70.464 0.70218 0 0 0 1.0015 1 33136 33136 0.45834 0 1 + 16859 10632 10826 10850 19172 19172 0.21894379269724595 LLLLLLLHL 9 Unmodified _LLLLLLLHL_ 0 0 0 REV__ENST00000553027.1_1_12:49319073-49319295:-|nuORF REV__ENST00000553027.1_1_12:49319073-49319295:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.8772583007812 2 530.878271 1059.74199 NaN NaN NaN NaN NaN NaN NaN 94.46 1 94.46 93.96 94.96 0 0 0 0 0.91206 1 50678 50678 0.6015 0 1 + 16860 11960 10827 10851 19173 19173 0.2145070772398867 LLLLLLLLKLG 11 Unmodified _LLLLLLLLKLG_ 0 0 0 REV__ENSG00000159189|ENST00000374640|C1QC REV__ENSG00000159189|ENST00000374640|C1QC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.4061279296875 2 611.44906 1220.88357 NaN NaN NaN NaN NaN NaN NaN 80.411 1 80.661 80.161 81.161 0.24947 0 0 0 1.0082 1 37024 37024 0 0 1 + 16861 12845 10828 10852 19174 19174 0.2819608102645361 LLLLLLLLKLG 11 Unmodified _LLLLLLLLKLG_ 0 0 0 REV__ENSG00000159189|ENST00000374640|C1QC REV__ENSG00000159189|ENST00000374640|C1QC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.4486083984375 2 611.44906 1220.88357 NaN NaN NaN NaN NaN NaN NaN 95.388 1 95.996 95.496 96.496 0.60769 0 0 0 1.0082 1 43867 43867 0 0 1 + 16862 12845 10828 10852 19175 19175 0.2819608102645361 LLLLLLLLLLL 11 Unmodified _LLLLLLLLLLL_ 0 0 0 nc|ENSG00000185033|Q9NPR2-2|SEMA4B;ENSG00000185033|ENST00000411539|SEMA4B;SEMA4B|p.N175Mfs*161|1|0.16|ENSG00000185033|chr15:90221007-90221008|-/GGACGAGAAGGGGATGTCCA|frameshift_variant;nc|ENSG00000290691|A6NGW2|STRCP1;LRP8|p.L926Pfs*37|1|0.1|ENSG00000157193|chr1:53249457-53249458|-/AGAAGAAAAATGG|frameshift_variant;ENSG00000242866|ENST00000450892|STRC;nc|ENSG00000157193|Q14114-3|LRP8;nc|ENSG00000157193|Q14114-4|LRP8;nc|ENSG00000157193|Q14114-2|LRP8;ENSG00000157193|ENST00000306052|LRP8;nc|ENSG00000204301|Q99466-3|NOTCH4;ENSG00000184992|ENST00000341446|BRI3BP;ENST00000293778.10_2_17:4636851-4637124:-|nuORF;ENSG00000204301|ENST00000375023|NOTCH4;ENSG00000115155|ENST00000272371|OTOF;nc|ENSG00000115155|Q9HC10-4|OTOF;nc|ENSG00000115155|Q9HC10-3|OTOF;ENST00000536100.1_1_12:133182714-133186967:-|nuORF;ENSG00000204583|ENST00000376608|LRCOL1;ENSG00000114554|ENST00000393409|PLXNA1;ENST00000413911.1_1_2:191745560-191746172:-|nuORF nc|ENSG00000185033|Q9NPR2-2|SEMA4B;ENSG00000115155|ENST00000272371|OTOF;REV__ENST00000413911.1_1_2:191745560-191746172:-|nuORF;ENST00000536100.1_1_12:133182714-133186967:-|nuORF;REV__ENSG00000184992|ENST00000341446|BRI3BP;REV__SEMA4B|p.N175Mfs*161|1|0.16|ENSG00000185033|chr15:90221007-90221008|-/GGACGAGAAGGGGATGTCCA|frameshift_variant;ENSG00000114554|ENST00000393409|PLXNA1;REV__ENSG00000204301|ENST00000375023|NOTCH4;REV__nc|ENSG00000290691|A6NGW2|STRCP1 nc|ENSG00000185033|Q9NPR2-2|SEMA4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 631.9772338867188 2 631.974911 1261.93527 NaN NaN NaN NaN NaN NaN NaN 65.321 1 66.03 65.53 66.53 0.70891 0 0 0 1.0082 1 30884 30884 0 0 1 16863 5480;1946;16116;6022;1912;14000;14411;13995;14624 10829 10853 19176 19176 0.3147782472037761 LLLLLLLLLVR 11 Unmodified _LLLLLLLLLVR_ 0 0 0 REV__ENST00000413911.1_1_2:191745560-191746172:-|nuORF REV__ENST00000413911.1_1_2:191745560-191746172:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 646.4739379882812 2 646.475609 1290.93667 NaN NaN NaN NaN NaN NaN NaN 51.274 1 51.934 51.434 52.434 0.65956 0 0 0 1.0082 1 23448 23448 0 0 1 + 16864 16116 10830 10854 19177 19177 0.3028345880911729 LLLLLLLLVYL 11 Unmodified _LLLLLLLLVYL_ 0 0 0 ENSG00000161921|ENST00000293778|CXCL16 ENSG00000161921|ENST00000293778|CXCL16 ENSG00000161921|ENST00000293778|CXCL16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 649.955810546875 2 649.956718 1297.89888 NaN NaN NaN NaN NaN NaN NaN 61.242 1 61.904 61.404 62.404 0.66261 0 0 0 1.0082 1 28041 28041 0 0 1 16865 4109 10831 10855 19178 19178 0.26184947823662696 LLLLLLPELVR 11 Unmodified _LLLLLLPELVR_ 0 0 0 REV__ENSG00000083097|ENST00000349129|DOP1A REV__ENSG00000083097|ENST00000349129|DOP1A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 323.5287780761719 4 323.72325 1290.86389 2.1611 0.00069961 -0.13324 -4.3131E-05 2.0279 0.00065648 323.7231217366851 36.771 0.38884 36.771 36.64 37.029 0 43 16 3 0 0 0 0.13295 1 16649 16649 0 0 1 3878100 + 16866 10623 10832 10856 19179 19179 0.2300970501567008 LLLLLLRLLL 10 Unmodified _LLLLLLRLLL_ 0 0 0 ENST00000498707.5_1_3:64673464-64673620:-|nuORF ENST00000498707.5_1_3:64673464-64673620:-|nuORF ENST00000498707.5_1_3:64673464-64673620:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.9432983398438 2 596.941402 1191.86825 NaN NaN NaN NaN NaN NaN NaN 90.937 1 90.937 90.437 91.437 0 0 0 0 1.002 1 47901 47901 0 0 1 16867 8467 10833 10857 19180 19180 0.27999214229271274 LLLLLLSLPH 10 Unmodified _LLLLLLSLPH_ 0 0 0 nc|ENSG00000143434|Q9H3T2-2|SEMA6C;ENSG00000143434|ENST00000368914|SEMA6C;nc|ENSG00000143434|Q9H3T2-3|SEMA6C nc|ENSG00000143434|Q9H3T2-2|SEMA6C nc|ENSG00000143434|Q9H3T2-2|SEMA6C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.3789672851562 2 566.378635 1130.74272 NaN NaN NaN NaN NaN NaN NaN 93.268 1 93.268 92.768 93.768 0 0 0 0 1.0003 1 49785 49785 1.4819 0.8804 1 16868 3368 10834 10858 19181 19181 0.18257502373035095 LLLLLLVLPP 10 Unmodified _LLLLLLVLPP_ 0 0 0 nc|ENSG00000142513|Q9BZG2-3|ACP4;nc|ENSG00000142513|Q9BZG2-2|ACP4;ENSG00000142513|ENST00000270593|ACP4 nc|ENSG00000142513|Q9BZG2-3|ACP4 nc|ENSG00000142513|Q9BZG2-3|ACP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.313720703125 2 552.393754 1102.77295 NaN NaN NaN NaN NaN NaN NaN 69.817 1 69.817 69.317 70.317 0 0 0 0 1.0015 1 33790 33790 0.45834 0 1 16869 3312 10835 10859 19182 19182 0.22567861038214687 LLLLLPELL 9 Unmodified _LLLLLPELL_ 0 0 0 ENST00000381346.8_1_14:68144805-68144865:-|nuORF ENST00000381346.8_1_14:68144805-68144865:-|nuORF ENST00000381346.8_1_14:68144805-68144865:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.77880859375 2 518.854461 1035.69437 NaN NaN NaN NaN NaN NaN NaN 66.184 1 66.184 65.684 66.684 0 0 0 0 0.91238 1 31607 31607 0.52476 0 1 16870 7483 10836 10860 19183 19183 0.17795008733151008 LLLLLPLLLKV 11 Unmodified _LLLLLPLLLKV_ 0 0 0 ENST00000374369.7_1_20:34025707-34025902:-|nuORF ENST00000374369.7_1_20:34025707-34025902:-|nuORF ENST00000374369.7_1_20:34025707-34025902:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 624.6331176757812 2 624.456885 1246.89922 NaN NaN NaN NaN NaN NaN NaN 18.243 1 18.243 17.743 18.743 0 0 0 0 1.0082 1 8104 8104 0 0 1 16871 7378 10837 10861 19184 19184 0.2856436754348124 LLLLLRHRSRR 11 Unmodified _LLLLLRHRSRR_ 0 0 0 REV__nc|ENSG00000154721|P57087-2|JAM2 REV__nc|ENSG00000154721|P57087-2|JAM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 717.388671875 2 716.970411 1431.92627 NaN NaN NaN NaN NaN NaN NaN 34.87 1 35.66 35.16 36.16 0.78921 0 0 0 1.0071 1 15801 15801 1.4819 0 1 + 16872 12718 10838 10862 19185 19185 0.22758288927229842 LLLLLRRLHRR 11 Unmodified _LLLLLRRLHRR_ 0 0 0 ENST00000379162.8_1_X:24483408-24483594:+|nuORF ENST00000379162.8_1_X:24483408-24483594:+|nuORF ENST00000379162.8_1_X:24483408-24483594:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 729.9988403320312 2 729.996429 1457.9783 NaN NaN NaN NaN NaN NaN NaN 107.72 1 108.03 107.53 108.53 0.31421 0 0 0 1.008 1 49687 49687 0.35063 0.35063 1 16873 7447 10839 10863 19186 19186 0.26763452340992444 LLLLLRRLYRR 11 Unmodified _LLLLLRRLYRR_ 0 0 0 REV__DPEP3|p.A194Vfs*2|1|0.35|ENSG00000141096|chr16:67978528-67978535|GTAGGAGG/-|frameshift_variant REV__DPEP3|p.A194Vfs*2|1|0.35|ENSG00000141096|chr16:67978528-67978535|GTAGGAGG/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 742.9983520507812 2 742.998637 1483.98272 NaN NaN NaN NaN NaN NaN NaN 65.037 1 65.694 65.194 66.194 0.65672 0 0 0 1.0082 1 29816 29816 0 0 1 + 16874 10137 10840 10864 19187 19187 0.2600891676390802 LLLLLWLA 8 Unmodified _LLLLLWLA_ 0 0 0 ENST00000545213.5_1_14:24789074-24794639:-|nuORF;ENST00000554577.5_1_14:24791640-24799178:-|nuORF;ADCY4|p.V1051Kfs*2|1|0.04|ENSG00000129467|chr14:24318499-24318500|-/TT|frameshift_variant;ENSG00000129467|ENST00000418030|ADCY4 REV__ENSG00000077147|ENST00000371142|TM9SF3;REV__TM9SF3|p.R249Kfs*19|1|0.08|ENSG00000077147|chr10:96552971-96552974|TTTC/-|frameshift_variant REV__TM9SF3|p.R249Kfs*19|1|0.08|ENSG00000077147|chr10:96552971-96552974|TTTC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.8238830566406 2 477.822964 953.631375 NaN NaN NaN NaN NaN NaN NaN 10.442 1 10.442 9.9424 10.942 0 0 0 0 0.99035 1 4640 4640 0 0 1 + 16875 10551;18237 10841 10865 19188 19188 0.15270487735733695 LLLLPGLL 8 Unmodified _LLLLPGLL_ 0 0 0 ENST00000321725.10_1_3:52549009-52550096:+|nuORF ENST00000321725.10_1_3:52549009-52550096:+|nuORF ENST00000321725.10_1_3:52549009-52550096:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 426.30218505859375 2 426.301865 850.589176 3.1022 0.0013225 -0.38088 -0.00016237 2.7213 0.0011601 426.3016647012027 80.668 0.24043 81.328 81.18 81.421 0.65998 23 14 2 0 0 0 0.63544 1 37159 37159 11.114 0 1 530670 16876 6934 10842 10866 19189 19189 0.1579051232738493 LLLLPLLLRPL 11 Unmodified _LLLLPLLLRPL_ 0 0 0 REV__ENSG00000180340|ENST00000315323|FZD2 REV__ENSG00000180340|ENST00000315323|FZD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 637.4533081054688 2 637.452134 1272.88972 NaN NaN NaN NaN NaN NaN NaN 63.058 1 63.058 62.558 63.558 0 0 0 0 1.0073 1 29620 29620 1.1933 0 1 + 16877 13823 10843 10867 19190 19190 0.2641859925799963 LLLLPLLVGG 10 Unmodified _LLLLPLLVGG_ 0 0 0 ENSG00000008516|ENST00000336577|MMP25 ENSG00000008516|ENST00000336577|MMP25 ENSG00000008516|ENST00000336577|MMP25 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.5692443847656 3 336.566961 1006.67905 2.3475 0.0007901 2.9389 0.00098915 5.2865 0.0017793 336.56790996543475 28.44 0.10641 28.701 28.668 28.774 0.2602 7 5 2 0 0 0 0.94443 1 12944 12944 0 0 1 210550 16878 380 10844 10868 19191 19191 0.1759814193596867 LLLLPLLVGG 10 Unmodified _LLLLPLLVGG_ 0 0 0 ENSG00000008516|ENST00000336577|MMP25 ENSG00000008516|ENST00000336577|MMP25 ENSG00000008516|ENST00000336577|MMP25 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.568359375 3 336.566961 1006.67905 NaN NaN NaN NaN NaN NaN NaN 27.947 1 28.566 28.066 29.066 0.61947 0 0 0 1.002 1 12815 12815 0 0 1 16879 380 10844 10868 19192 19192 0.1759814193596867 LLLLRRLHRRR 11 Unmodified _LLLLRRLHRRR_ 0 0 0 ENST00000379162.8_1_X:24483408-24483594:+|nuORF ENST00000379162.8_1_X:24483408-24483594:+|nuORF ENST00000379162.8_1_X:24483408-24483594:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 751.5048828125 2 751.504952 1500.99535 NaN NaN NaN NaN NaN NaN NaN 25.803 1 26.428 25.928 26.928 0.62505 0 0 0 1.0082 1 11830 11830 0 0 1 16880 7447 10845 10869 19193 19193 0.264893729467758 LLLLRRPPLR 10 Unmodified _LLLLRRPPLR_ 0 0 0 REV__ENST00000303538.12_1_4:39929740-39979529:-|nuORF REV__ENST00000303538.12_1_4:39929740-39979529:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 624.1062622070312 2 623.927149 1245.83975 NaN NaN NaN NaN NaN NaN NaN 93.827 1 93.827 93.327 94.327 0 0 0 0 1.0018 1 50177 50177 0.45834 0.10771 1 + 16881 15211 10846 10870 19194 19194 0.22665909372676651 LLLLRVLLHW 10 Unmodified _LLLLRVLLHW_ 0 0 0 nc|ENSG00000179869|Q86UQ4-6|ABCA13;nc|ENSG00000179869|Q86UQ4-7|ABCA13;nc|ENSG00000179869|Q86UQ4-5|ABCA13;nc|ENSG00000179869|Q86UQ4-3|ABCA13;nc|ENSG00000179869|Q86UQ4|ABCA13;ENSG00000179869|ENST00000435803|ABCA13;nc|ENSG00000179869|Q86UQ4-4|ABCA13 nc|ENSG00000179869|Q86UQ4-6|ABCA13 nc|ENSG00000179869|Q86UQ4-6|ABCA13 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 638.421142578125 2 638.418626 1274.8227 NaN NaN NaN NaN NaN NaN NaN 90.669 1 91.342 90.842 91.842 0.67271 0 0 0 1.0015 1 41731 41731 0.45834 0.10771 1 16882 5232 10847 10871 19195 19195 0.19627988766887938 LLLLVVILIVK 11 Unmodified _LLLLVVILIVK_ 0 0 0 nc|ENSG00000152894|Q15262|PTPRK;ENSG00000152894|ENST00000368226|PTPRK;nc|ENSG00000152894|Q15262-3|PTPRK;nc|ENSG00000152894|Q15262-4|PTPRK;ENST00000524481.5_1_6:128321419-128841710:-|nuORF;ENST00000531050.5_1_6:128321419-128718758:-|nuORF nc|ENSG00000152894|Q15262|PTPRK;ENST00000531050.5_1_6:128321419-128718758:-|nuORF nc|ENSG00000152894|Q15262|PTPRK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 618.4564819335938 2 618.456885 1234.89922 NaN NaN NaN NaN NaN NaN NaN 107.16 1 107.16 106.66 107.66 0 0 0 0 1.0082 1 58795 58795 0 0 1 16883 3763;8723 10848 10872 19196 19196 0.2911636754349729 LLLLYLSIM 9 Unmodified _LLLLYLSIM_ 0 0 0 REV__nc|ENSG00000138617|Q8N5Y8-2|PARP16 REV__nc|ENSG00000138617|Q8N5Y8-2|PARP16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.8352661132812 2 539.832672 1077.65079 3.5598 0.0019217 0.33904 0.00018302 3.8989 0.0021047 539.8326990306359 89.793 0.5903 90.045 89.848 90.438 0.25136 68 25 4 0 0 0 1.2078 1 41408 41408 0.6015 0 1 1875700 + 16884 12173 10849 10873 19197 19197 0.11507075964345859 LLLMKLTVHK 10 Unmodified _LLLMKLTVHK_ 0 0 0 REV__ENSG00000102452|ENST00000251127|NALCN REV__ENSG00000102452|ENST00000251127|NALCN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.5923156738281 3 399.258022 1194.75224 2.6807 0.0010703 -1.6109 -0.00064318 1.0697 0.0004271 399.2574427930872 35.256 0.3381 36.048 35.834 36.172 0.79132 35 20 2 0 0 0 0.9406 1 15977 15977 0.77653 0 1 684790 + 16885 10929 10850 10874 19198 19198 0.16264947386889617 LLLPLLLPVR 10 Unmodified _LLLPLLLPVR_ 0 0 0 REV__ENSG00000168140|ENST00000304735|VASN REV__ENSG00000168140|ENST00000304735|VASN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.9050903320312 2 573.902277 1145.79 NaN NaN NaN NaN NaN NaN NaN 84.929 1 84.957 84.457 85.457 0.028603 0 0 0 1.0015 1 42463 42463 0.40072 0 1 + 16886 13333 10851 10875 19199 19199 0.2229378164404352 LLLPLLLRPL 10 Unmodified _LLLPLLLRPL_ 0 0 0 REV__ENSG00000180340|ENST00000315323|FZD2 REV__ENSG00000180340|ENST00000315323|FZD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 580.8267822265625 2 580.910102 1159.80565 NaN NaN NaN NaN NaN NaN NaN 95.815 1 95.815 95.315 96.315 0 0 0 0 1.002 1 51703 51703 0 0 1 + 16887 13823 10852 10876 19200 19200 0.23214068161109935 LLLPLLLRPL 10 Unmodified _LLLPLLLRPL_ 0 0 0 REV__ENSG00000180340|ENST00000315323|FZD2 REV__ENSG00000180340|ENST00000315323|FZD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 580.9124145507812 2 580.910102 1159.80565 NaN NaN NaN NaN NaN NaN NaN 35.351 1 36.142 35.642 36.642 0.79131 0 0 0 1.0015 1 16021 16021 0.45834 0 1 + 16888 13823 10852 10876 19201 19201 0.23214068161109935 LLLPMRCR 8 Unmodified _LLLPMRCR_ 0 0 0 REV__ENST00000330714.7_1_21:42780169-42780397:+|nuORF REV__ENST00000330714.7_1_21:42780169-42780397:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.2931823730469 2 501.290982 1000.56741 3.4345 0.0017217 -0.33804 -0.00016946 3.0965 0.0015522 501.29062869035965 94.288 0.45177 94.906 94.677 95.129 0.61736 75 26 4 0 0 0 0.7471 1 43402 43402 0.79363 0 1 1685100 + 16889 15375 10853 10877 19202 19202 0.06715061035504277 LLLPRLPSKM 10 Unmodified _LLLPRLPSKM_ 0 0 0 ENST00000465878.6_2_16:57792547-57792799:-|nuORF ENST00000465878.6_2_16:57792547-57792799:-|nuORF ENST00000465878.6_2_16:57792547-57792799:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.91534423828125 3 389.914255 1166.72094 2.652 0.0010341 -1.3509 -0.00052673 1.3011 0.00050733 389.91367202408975 36.65 0.57417 36.65 36.394 36.968 0 50 25 2 0 0 0 0.9146 2 16573 16573;16623 1.4551 0.82829 1 572620 16890 8129 10854 10878 19203;19204 19203 0.1442437435280226 LLLQLQDRQHF 11 Unmodified _LLLQLQDRQHF_ 0 0 0 nc|ENSG00000140995|Q6ZN54-4|DEF8;nc|ENSG00000140995|Q6ZN54-3|DEF8;ENSG00000140995|ENST00000563594|DEF8;nc|ENSG00000140995|Q6ZN54|DEF8 nc|ENSG00000140995|Q6ZN54-4|DEF8 nc|ENSG00000140995|Q6ZN54-4|DEF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 705.8973388671875 2 705.896243 1409.77793 NaN NaN NaN NaN NaN NaN NaN 87.531 1 87.782 87.282 88.282 0.25064 0 0 0 1.0073 1 40284 40284 1.1933 0 1 16891 3228 10855 10879 19205 19205 0.08943513162876116 LLLRAKES 8 Unmodified _LLLRAKES_ 0 0 0 REV__nc|ENSG00000136811|Q5BJF6-9|ODF2 REV__nc|ENSG00000136811|Q5BJF6-9|ODF2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.7514343261719 2 465.292559 928.570566 3.0474 0.0014179 0.12534 5.832E-05 3.1728 0.0014763 465.29277057220287 32.169 0.16009 32.423 32.299 32.459 0.25452 14 9 2 0 0 0 0.10089 1 14663 14663 30.637 3.7529 1 500130 + 16892 12081 10856 10880 19206 19206 0.10342350685516521 LLLRDFHL 8 Unmodified _LLLRDFHL_ 0 0 0 REV__ENSG00000157423|ENST00000393567|HYDIN REV__ENSG00000157423|ENST00000393567|HYDIN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.810791015625 2 513.808377 1025.6022 3.2658 0.001678 1.1789 0.00060573 4.4447 0.0022837 513.808849935806 44.974 0.45485 45.242 45.052 45.507 0.26768 52 22 3 0 0 0 0.63544 1 20625 20625 11.114 0.93107 1 1876500 + 16893 12801 10857 10881 19207 19207 0.09042343439477918 LLLRDFHL 8 Unmodified _LLLRDFHL_ 0 0 0 REV__ENSG00000157423|ENST00000393567|HYDIN REV__ENSG00000157423|ENST00000393567|HYDIN MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 513.808377 1025.6022 3.5804 0.0018396 1.1652 0.00059868 4.7456 0.0024383 513.8088317453813 44.779 0.24996 45.429 45.291 45.541 0.64999 0.19334 6.5886E-05 NaN 11.114 18 8 3 NaN NaN NaN NaN 0 NaN NaN 0 896110 + 16894 12801 10857 10881 0.09042343439477918 LLLRGGGF 8 Unmodified _LLLRGGGF_ 0 0 0 ENST00000302513.6_1_2:99758144-99758336:+|nuORF ENST00000302513.6_1_2:99758144-99758336:+|nuORF ENST00000302513.6_1_2:99758144-99758336:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 832.507568359375 1 832.503949 831.496673 4.1585 0.003462 0.614 0.00051116 4.7725 0.0039731 832.5044900181239 104.19 0.065666 104.79 104.75 104.81 0.59885 18 14 2 0 0 0 0.7471 1 48173 48173 0.79363 0 1 912080 16895 6816 10858 10882 19208 19208 0.07418427313871234 LLLRQRQPLRR 11 Unmodified _LLLRQRQPLRR_ 0 0 0 REV__ENST00000331569.5_1_8:37554703-37555105:+|nuORF REV__ENST00000331569.5_1_8:37554703-37555105:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.9873962402344 4 362.987572 1447.92118 2.6667 0.00096799 -1.3533 -0.00049122 1.3135 0.00047677 362.9865850506289 49.14 0.67988 49.14 48.966 49.646 0 73 30 3 0 0 0 0.91104 1 22538 22538 1.2148 0.76031 1 1316600 + 16896 15381 10859 10883 19209 19209 0.2151398506462101 LLLRQRQPLRR 11 Unmodified _LLLRQRQPLRR_ 0 0 0 REV__ENST00000331569.5_1_8:37554703-37555105:+|nuORF REV__ENST00000331569.5_1_8:37554703-37555105:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.2388000488281 4 362.987572 1447.92118 2.6086 0.0009469 -1.0437 -0.00037883 1.565 0.00056806 362.98686561816 50.037 0.85546 50.299 49.812 50.668 0.26146 73 33 3 0 0 0 0.91104 1 22791 22791 1.2148 0.76031 1 1614900 + 16897 15381 10859 10883 19210 19210 0.2151398506462101 LLLRQRQPLRR 11 Unmodified _LLLRQRQPLRR_ 0 0 0 REV__ENST00000331569.5_1_8:37554703-37555105:+|nuORF REV__ENST00000331569.5_1_8:37554703-37555105:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.1695556640625 4 362.987572 1447.92118 2.5608 0.00092955 -1.2518 -0.00045438 1.309 0.00047516 362.9864891133694 56.29 0.24756 56.555 56.386 56.633 0.26543 17 10 2 0 0 0 0.13295 1 25754 25754 2.6312 1.9336 1 837450 + 16898 15381 10859 10883 19211 19211 0.2151398506462101 LLLRQRQPLRR 11 Unmodified _LLLRQRQPLRR_ 0 0 0 REV__ENST00000331569.5_1_8:37554703-37555105:+|nuORF REV__ENST00000331569.5_1_8:37554703-37555105:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 362.987572 1447.92118 2.6667 0.00096799 -1.3533 -0.00049122 1.3135 0.00047677 362.9865850506289 49.14 0.67988 49.14 48.966 49.646 0 -0.29835 -5.0583E-05 NaN 1.2148 73 30 3 NaN NaN NaN NaN 0 NaN NaN 0 1316600 + 16899 15381 10859 10883 0.2151398506462101 LLLRQRQPLRR 11 Unmodified _LLLRQRQPLRR_ 0 0 0 REV__ENST00000331569.5_1_8:37554703-37555105:+|nuORF REV__ENST00000331569.5_1_8:37554703-37555105:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 362.987572 1447.92118 2.4064 0.0008735 -1.4864 -0.00053953 0.92005 0.00033397 362.9867872727865 48.562 0.3851 49.39 49.236 49.621 0.82705 -0.048445 -0.00024385 NaN 1.2148 35 21 2 NaN NaN NaN NaN 0 NaN NaN 0 756480 + 16900 15381 10859 10883 0.2151398506462101 LLLRQRQPLRR 11 Unmodified _LLLRQRQPLRR_ 0 0 0 REV__ENST00000331569.5_1_8:37554703-37555105:+|nuORF REV__ENST00000331569.5_1_8:37554703-37555105:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 362.987572 1447.92118 2.6911 0.00097685 -1.2775 -0.00046371 1.4137 0.00051314 362.9868579783589 49.371 0.34403 49.632 49.468 49.812 0.26146 0.19442 5.9455E-05 NaN 1.2148 25 11 3 NaN NaN NaN NaN 0 NaN NaN 0 1106300 + 16901 15381 10859 10883 0.2151398506462101 LLLRQWPI 8 Unmodified _LLLRQWPI_ 0 0 0 REV__nc|ENSG00000105388|P06731-2|CEACAM5 REV__nc|ENSG00000105388|P06731-2|CEACAM5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 346.8876647949219 3 346.886805 1037.63859 1.8589 0.00064484 0.76578 0.00026564 2.6247 0.00091048 346.8869243585926 73.018 0.44501 73.717 73.584 74.029 0.69881 112 42 3 0 0 0 0.72814 1 35230 35230 3.5965 1.098 1 2596700 + 16902 11029 10860 10884 19212 19212 0.12127220336174105 LLLRQWPI 8 Unmodified _LLLRQWPI_ 0 0 0 REV__nc|ENSG00000105388|P06731-2|CEACAM5 REV__nc|ENSG00000105388|P06731-2|CEACAM5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 346.886805 1037.63859 1.8589 0.00064484 0.76578 0.00026564 2.6247 0.00091048 346.8869243585926 73.018 0.44501 73.717 73.584 74.029 0.69881 -0.035416 6.7048E-05 NaN 3.5965 112 42 3 NaN NaN NaN NaN 0 NaN NaN 0 2596700 + 16903 11029 10860 10884 0.12127220336174105 LLLRQWPI 8 Unmodified _LLLRQWPI_ 0 0 0 REV__nc|ENSG00000105388|P06731-2|CEACAM5 REV__nc|ENSG00000105388|P06731-2|CEACAM5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 346.886805 1037.63859 2.215 0.00076835 0.49743 0.00017255 2.7124 0.0009409 346.8868068600587 73.523 0.51397 73.782 73.627 74.141 0.25876 0.029268 -0.00021222 NaN 3.5965 120 50 3 NaN NaN NaN NaN 0 NaN NaN 0 2832300 + 16904 11029 10860 10884 0.12127220336174105 LLLRQWPI 8 Unmodified _LLLRQWPI_ 0 0 0 REV__nc|ENSG00000105388|P06731-2|CEACAM5 REV__nc|ENSG00000105388|P06731-2|CEACAM5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 346.886805 1037.63859 1.8337 0.0006361 0.66743 0.00023152 2.5012 0.00086762 346.88687971099887 73.002 0.46554 73.666 73.491 73.957 0.66398 -0.086628 -3.5304E-05 NaN 3.5965 131 49 3 NaN NaN NaN NaN 0 NaN NaN 0 3112700 + 16905 11029 10860 10884 0.12127220336174105 LLLRRLRWYLF 11 Unmodified _LLLRRLRWYLF_ 0 0 0 REV__nc|ENSG00000076555|O00763-3|ACACB REV__nc|ENSG00000076555|O00763-3|ACACB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 775.0382690429688 2 774.979913 1547.94527 NaN NaN NaN NaN NaN NaN NaN 85.61 1 85.61 85.11 86.11 0 0 0 0 1.008 1 43643 43643 0.30703 0 1 + 16906 10542 10861 10885 19213 19213 0.19321825498309408 LLLSIHLL 8 Unmodified _LLLSIHLL_ 0 0 0 REV__nc|ENSG00000204414|Q14406-4|CSHL1 REV__nc|ENSG00000204414|Q14406-4|CSHL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 461.3109436035156 2 461.310221 920.605889 NaN NaN NaN NaN NaN NaN NaN 79.726 1 80.046 79.546 80.546 0.31998 0 0 0 0.99035 1 38954 38954 0.69038 0 1 + 16907 14416 10862 10886 19214 19214 0.14241013213336373 LLLSILKKLI 10 Unmodified _LLLSILKKLI_ 0 0 0 ENST00000558598.1_1_15:77236162-77236210:+|nuORF ENST00000558598.1_1_15:77236162-77236210:+|nuORF ENST00000558598.1_1_15:77236162-77236210:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.4195556640625 2 577.41776 1152.82097 NaN NaN NaN NaN NaN NaN NaN 21.953 1 22.54 22.04 23.04 0.58739 0 0 0 1.002 1 9753 9753 0 0 1 16908 8952 10863 10887 19215 19215 0.2506693495829495 LLLSKKLIYF 10 Unmodified _LLLSKKLIYF_ 0 0 0 ENST00000601150.5_1_19:59059168-59060232:+|nuORF;nc|ENSG00000130726|Q13263-2|TRIM28;ENSG00000130726|ENST00000253024|TRIM28 ENST00000601150.5_1_19:59059168-59060232:+|nuORF ENST00000601150.5_1_19:59059168-59060232:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.4010009765625 2 619.399567 1236.78458 NaN NaN NaN NaN NaN NaN NaN 58.955 1 58.955 58.455 59.455 0 0 0 0 0.99983 1 27233 27233 1.8442 0 1 16909 2613 10864 10888 19216 19216 0.17566058061561307 LLLTARPRGR 10 Unmodified _LLLTARPRGR_ 0 0 0 nc|ENSG00000179583|P33076-2|CIITA;ENST00000573309.5_1_16:10971115-11002148:+|nuORF;nc|ENSG00000179583|P33076-4|CIITA;ENST00000570546.5_1_16:10971115-11002148:+|nuORF;nc|ENSG00000179583|P33076|CIITA;ENSG00000179583|ENST00000324288|CIITA nc|ENSG00000179583|P33076-2|CIITA nc|ENSG00000179583|P33076-2|CIITA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.8734130859375 2 576.869831 1151.72511 NaN NaN NaN NaN NaN NaN NaN 35.141 1 35.397 34.897 35.897 0.25524 0 0 0 0.99812 1 16013 16013 3.2813 0 1 16910 5222 10865 10889 19217 19217 0.15531599890755388 LLLVELVR 8 Unmodified _LLLVELVR_ 0 0 0 ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.8245849609375 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 54.677 1 54.677 54.177 55.177 0 0 0 0 0.99035 1 25097 25097 0.69038 0 1 16911 936 10866 10890 19218 19218 0.14868398242049352 LLLVELVR 8 Unmodified _LLLVELVR_ 0 0 0 ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.8227233886719 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 57.007 1 57.007 56.507 57.507 0 0 0 0 0.99035 1 26261 26261 0.69038 0 1 16912 936 10866 10890 19219 19219 0.14868398242049352 LLLVELVR 8 Unmodified _LLLVELVR_ 0 0 0 ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.8239440917969 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 47.504 1 48.333 47.833 48.833 0.82915 0 0 0 0.99035 1 21643 21643 0.69038 0 1 16913 936 10866 10890 19220 19220 0.14868398242049352 LLLVELVR 8 Unmodified _LLLVELVR_ 0 0 0 ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.8243713378906 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 56.071 1 56.849 56.349 57.349 0.77786 0 0 0 0.99035 1 25624 25624 0.69038 0 1 16914 936 10866 10890 19221 19221 0.14868398242049352 LLLVELVR 8 Unmodified _LLLVELVR_ 0 0 0 ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 477.8240661621094 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 57.522 1 57.786 57.286 58.286 0.26444 0 0 0 0.99035 1 26333 26333 0.69038 0 1 16915 936 10866 10890 19222 19222 0.14868398242049352 LLLVLIFLFVV 11 Unmodified _LLLVLIFLFVV_ 0 0 0 VANGL1|p.D228Efs*66|1|0.06|ENSG00000173218|chr1:115664139-115664140|-/AAAAAAG|frameshift_variant;nc|ENSG00000173218|Q8TAA9-2|VANGL1;ENSG00000173218|ENST00000355485|VANGL1 VANGL1|p.D228Efs*66|1|0.06|ENSG00000173218|chr1:115664139-115664140|-/AAAAAAG|frameshift_variant VANGL1|p.D228Efs*66|1|0.06|ENSG00000173218|chr1:115664139-115664140|-/AAAAAAG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.528564453125 2 644.935786 1287.85702 NaN NaN NaN NaN NaN NaN NaN 28.329 1 28.329 27.829 28.829 0 0 0 0 1.0082 1 12771 12771 0 0 1 16916 4920 10867 10891 19223 19223 0.22460392135099028 LLLVTLHFRLP 11 Unmodified _LLLVTLHFRLP_ 0 0 0 ENST00000466883.5_1_7:65439694-65439883:-|nuORF ENST00000466883.5_1_7:65439694-65439883:-|nuORF ENST00000466883.5_1_7:65439694-65439883:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.536376953125 3 441.283336 1320.82818 NaN NaN NaN NaN NaN NaN NaN 43.624 1 43.893 43.393 44.393 0.2694 0 0 0 1.0071 1 19925 19925 1.4551 0.24029 1 16917 8140 10868 10892 19224 19224 0.18059667558713954 LLLVTLPQLLW 11 Unmodified _LLLVTLPQLLW_ 0 0 0 REV__ENST00000473080.1_1_1:161475257-161475347:+|nuORF REV__ENST00000473080.1_1_1:161475257-161475347:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.203369140625 4 327.9627 1307.8217 2.2289 0.00073101 0.041524 1.3618E-05 2.2705 0.00074463 328.2129132366306 49.139 0.58446 49.139 48.713 49.297 0 55 31 4 0 0 0 0.91328 1 22321 22321 0.50596 0.34663 1 1469700 + 16918 12358 10869 10893 19225 19225 0.18009729607342706 LLLWRRRQKRR 11 Unmodified _LLLWRRRQKRR_ 0 0 0 ENSG00000197471|ENST00000652691|SPN ENSG00000197471|ENST00000652691|SPN ENSG00000197471|ENST00000652691|SPN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 791.1875610351562 2 791.007859 1580.00117 NaN NaN NaN NaN NaN NaN NaN 80.563 1 80.563 80.063 81.063 0 0 0 0 1.0082 1 40015 40015 0 0 1 16919 5822 10870 10894 19226 19226 0.2343647145844443 LLLWRRRQKRR 11 Unmodified _LLLWRRRQKRR_ 0 0 0 ENSG00000197471|ENST00000652691|SPN ENSG00000197471|ENST00000652691|SPN ENSG00000197471|ENST00000652691|SPN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.6735229492188 3 527.674332 1580.00117 NaN NaN NaN NaN NaN NaN NaN 34.611 1 35.234 34.734 35.734 0.62294 0 0 0 1.008 1 15854 15854 0.08335 0.08335 1 16920 5822 10870 10894 19227 19227 0.2343647145844443 LLMAKPRP 8 Unmodified _LLMAKPRP_ 0 0 0 nc|ENSG00000137135|Q8N4T4-2|ARHGEF39;nc|ENSG00000137135|Q8N4T4-4|ARHGEF39;ENSG00000137135|ENST00000378387|ARHGEF39 nc|ENSG00000137135|Q8N4T4-2|ARHGEF39 nc|ENSG00000137135|Q8N4T4-2|ARHGEF39 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.2853088378906 2 463.286223 924.557893 NaN NaN NaN NaN NaN NaN NaN 90.596 1 91.269 90.769 91.769 0.67271 0 0 0 0.99035 1 41697 41697 0.69038 0.69038 1 16921 2997 10871 10895 19228 19228 0.09259616021620332 LLMKVDWADKE 11 Unmodified _LLMKVDWADKE_ 0 0 0 REV__nc|ENSG00000151694|P78536-2|ADAM17 REV__nc|ENSG00000151694|P78536-2|ADAM17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 449.9034118652344 3 449.904084 1346.69042 NaN NaN NaN NaN NaN NaN NaN 71.167 1 71.167 70.667 71.667 0 0 0 0 1.0072 1 34582 34582 0.45452 0.046251 1 + 16922 12625 10872 10896 19229 19229 0.030945511771051315 LLMSPLLLRQG 11 Unmodified _LLMSPLLLRQG_ 0 0 0 REV__nc|ENSG00000156453|Q08174|PCDH1 REV__nc|ENSG00000156453|Q08174|PCDH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 310.94171142578125 4 310.941605 1239.73731 1.8329 0.00056993 -1.1088 -0.00034476 0.72414 0.00022516 310.9410706666289 47.784 0.33841 47.784 47.686 48.025 0 50 20 3 0 0 0 0.89544 1 21933 21933 2.6312 2.6312 1 4068600 + 16923 12773 10873 10897 19230 19230 0.12703455518908413 LLMSPLLLRQG 11 Unmodified _LLMSPLLLRQG_ 0 0 0 REV__nc|ENSG00000156453|Q08174|PCDH1 REV__nc|ENSG00000156453|Q08174|PCDH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 310.9418640136719 4 310.941605 1239.73731 2.198 0.00068345 -0.72793 -0.00022634 1.4701 0.0004571 310.9411981022465 50.201 0.81408 50.463 49.946 50.76 0.26146 74 34 3 0 0 0 0.91104 1 22952 22952 1.2148 1.2148 1 2619700 + 16924 12773 10873 10897 19231 19231 0.12703455518908413 LLMSPLLLRQG 11 Unmodified _LLMSPLLLRQG_ 0 0 0 REV__nc|ENSG00000156453|Q08174|PCDH1 REV__nc|ENSG00000156453|Q08174|PCDH1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 310.941605 1239.73731 1.8329 0.00056993 -1.1088 -0.00034476 0.72414 0.00022516 310.9410706666289 47.784 0.33841 47.784 47.686 48.025 0 0.18398 3.8804E-06 NaN 2.6312 50 20 3 NaN NaN NaN NaN 0 NaN NaN 0 4068600 + 16925 12773 10873 10897 0.12703455518908413 LLMSPLLLRQG 11 Unmodified _LLMSPLLLRQG_ 0 0 0 REV__nc|ENSG00000156453|Q08174|PCDH1 REV__nc|ENSG00000156453|Q08174|PCDH1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 310.941605 1239.73731 2.1471 0.00066763 -1.3675 -0.00042521 0.77962 0.00024242 310.94112798842195 46.64 0.40881 47.469 47.412 47.821 0.82915 -0.13153 -0.00031793 NaN 2.6312 59 24 3 NaN NaN NaN NaN 0 NaN NaN 0 2674400 + 16926 12773 10873 10897 0.12703455518908413 LLNKSGPV 8 Unmodified _LLNKSGPV_ 0 0 0 ENST00000525083.5_1_11:126145223-126146937:+|nuORF ENST00000525083.5_1_11:126145223-126146937:+|nuORF ENST00000525083.5_1_11:126145223-126146937:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 414.2550048828125 2 414.252903 826.491253 2.6393 0.0010933 0.63451 0.00026285 3.2738 0.0013562 414.2530705876304 35.835 0.32417 35.835 35.658 35.982 0 28 17 2 0 0 0 0.5438 2 16245 16245;16287 18.135 1.1927 1 800100 16927 8669 10874 10898 19232;19233 19232 0.07106703731381003 LLNKSGPV 8 Unmodified _LLNKSGPV_ 0 0 0 ENST00000525083.5_1_11:126145223-126146937:+|nuORF ENST00000525083.5_1_11:126145223-126146937:+|nuORF ENST00000525083.5_1_11:126145223-126146937:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 414.25408935546875 2 414.252903 826.491253 2.692 0.0011152 0.00040317 1.6701E-07 2.6924 0.0011153 414.2527811704434 35.032 0.3582 35.824 35.602 35.961 0.79131 46 23 3 0 0 0 0.45037 2 15830 15830;15876 24.674 6.5389 1 634330 16928 8669 10874 10898 19234;19235 19234 0.07106703731381003 LLNKSGPV 8 Unmodified _LLNKSGPV_ 0 0 0 ENST00000525083.5_1_11:126145223-126146937:+|nuORF ENST00000525083.5_1_11:126145223-126146937:+|nuORF ENST00000525083.5_1_11:126145223-126146937:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.2541809082031 2 414.252903 826.491253 3.0244 0.0012529 0.4296 0.00017796 3.454 0.0014308 414.25303983747256 35.206 0.25307 35.829 35.681 35.934 0.62294 14 9 2 0 0 0 0.5438 1 16151 16151 18.135 4.6271 1 415990 16929 8669 10874 10898 19236 19236 0.07106703731381003 LLNKSGPV 8 Unmodified _LLNKSGPV_ 0 0 0 ENST00000525083.5_1_11:126145223-126146937:+|nuORF ENST00000525083.5_1_11:126145223-126146937:+|nuORF ENST00000525083.5_1_11:126145223-126146937:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 414.252903 826.491253 2.9209 0.00121 -0.18187 -7.5341E-05 2.739 0.0011346 414.2527421994202 35.605 0.36762 35.86 35.683 36.05 0.25524 0.023421 -0.00037997 NaN 24.674 20 12 2 NaN NaN NaN NaN 0 NaN NaN 0 284900 16930 8669 10874 10898 0.07106703731381003 LLNLKIWKAP 10 Unmodified _LLNLKIWKAP_ 0 0 0 nc|ENSG00000188672|P18577-9|RHCE;nc|ENSG00000188672|P18577-4|RHCE;nc|ENSG00000188672|P18577-10|RHCE;nc|ENSG00000188672|P18577-11|RHCE;ENSG00000188672|ENST00000294413|RHCE;ENSG00000187010|ENST00000328664|RHD nc|ENSG00000188672|P18577-9|RHCE nc|ENSG00000188672|P18577-9|RHCE MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.2586975097656 3 399.256898 1194.74886 3.014 0.0012033 0.91839 0.00036667 3.9324 0.00157 399.2573095614665 33.964 0.32744 34.218 34.063 34.391 0.25389 33 14 3 0 0 0 0.93503 1 15499 15499 1.9064 1.1298 1 3617800 16931 5597 10875 10899 19237 19237 0.15928020604565063 LLNRKERMKPS 11 Unmodified _LLNRKERMKPS_ 0 0 0 REV__ENSG00000151690|ENST00000392328|MFSD6 REV__ENSG00000151690|ENST00000392328|MFSD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 343.7038879394531 4 343.702686 1370.78164 2.3494 0.0008075 0.54816 0.0001884 2.8976 0.00099591 343.9537065931668 38.401 1.6106 39.198 38.408 40.018 0.79762 141 71 3 0 0 0 0.91111 1 17700 17700 0.40827 0 1 903460 + 16932 12624 10876 10900 19238 19238 0.11107859665094111 LLNRMLAQKR 10 Unmodified _LLNRMLAQKR_ 0 0 0 REV__ENSG00000184575|ENST00000332707|XPOT REV__ENSG00000184575|ENST00000332707|XPOT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 415.255126953125 3 414.920291 1241.73905 2.8366 0.001177 -0.37574 -0.0001559 2.4608 0.0010211 415.2542661513507 82.341 0.62303 82.588 82.393 83.016 0.24722 42 34 2 0 0 0 0.94099 1 37971 37971 0.69767 0.07084 1 726210 + 16933 13981 10877 10901 19239 19239 0.12784509327502747 LLNSKEAAL 9 Unmodified _LLNSKEAAL_ 0 0 0 nc|ENSG00000160789|P02545-2|LMNA;nc|ENSG00000160789|P02545-6|LMNA;nc|ENSG00000160789|P02545-3|LMNA;ENSG00000160789|ENST00000368300|LMNA;nc|ENSG00000160789|P02545-5|LMNA;nc|ENSG00000160789|P02545-4|LMNA nc|ENSG00000160789|P02545-2|LMNA nc|ENSG00000160789|P02545-2|LMNA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.78314208984375 2 479.782025 957.549496 NaN NaN NaN NaN NaN NaN NaN 34.321 1 34.943 34.443 35.443 0.62294 0 0 0 0.049096 1 15724 15724 53.833 3.8998 1 16934 4080 10878 10902 19240 19240 0.06902340585986622 LLPCFPPLLL 10 Unmodified _LLPCFPPLLL_ 0 0 0 ENST00000271843.8_1_1:153946752-153946992:-|nuORF ENST00000271843.8_1_1:153946752-153946992:-|nuORF ENST00000271843.8_1_1:153946752-153946992:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.3395385742188 2 563.340664 1124.66677 NaN NaN NaN NaN NaN NaN NaN 51.079 1 51.739 51.239 52.239 0.65956 0 0 0 0.95544 1 23356 23356 12.532 1.7076 1 16935 6652 10879 10903 19241 19241 0.10942782201254886 LLPEKIKRKKR 11 Unmodified _LLPEKIKRKKR_ 0 0 0 REV__nc|ENSG00000062038|P22223-2|CDH3 REV__nc|ENSG00000062038|P22223-2|CDH3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 704.9812622070312 2 704.97737 1407.94019 NaN NaN NaN NaN NaN NaN NaN 85.481 1 85.481 84.981 85.981 0 0 0 0 1.008 1 43535 43535 0.35063 0 1 + 16936 10401 10880 10904 19242 19242 0.25253521635659126 LLPETTYRI 9 Unmodified _LLPETTYRI_ 0 0 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.31787109375 2 553.316232 1104.61791 3.5427 0.0019602 0.30111 0.00016661 3.8438 0.0021269 553.3166579489647 53.737 0.21067 54.001 53.907 54.117 0.26462 12 7 2 0 0 0 0.136 1 24581 24581 27.629 11.782 1 329960 16937 829 10881 10905 19243 19243 0.06978585165848017 LLPETTYRI 9 Unmodified _LLPETTYRI_ 0 0 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.3179931640625 2 553.316232 1104.61791 3.3485 0.0018528 -0.66462 -0.00036775 2.6839 0.001485 553.3157890605909 53.181 0.19487 53.845 53.762 53.957 0.6644 11 7 2 0 0 0 0.21008 1 24344 24344 22.736 2.2827 1 390350 16938 829 10881 10905 19244 19244 0.06978585165848017 LLPETTYRI 9 Unmodified _LLPETTYRI_ 0 0 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 553.316232 1104.61791 3.0995 0.001715 -0.34653 -0.00019174 2.753 0.0015233 553.3160977783731 52.991 0.19809 53.794 53.642 53.841 0.80351 -0.085923 -0.00031681 NaN 27.629 14 12 2 NaN NaN NaN NaN 0 NaN NaN 0 650290 16939 829 10881 10905 0.06978585165848017 LLPFDLSIF 9 Unmodified _LLPFDLSIF_ 0 0 0 NISCH|p.K921Nfs*45|1|0.17|ENSG00000010322|chr3:52488255-52488262|GGCCGACT/-|frameshift_variant;ENSG00000010322|ENST00000345716|NISCH;nc|ENSG00000010322|Q9Y2I1-4|NISCH;nc|ENSG00000010322|Q9Y2I1-3|NISCH NISCH|p.K921Nfs*45|1|0.17|ENSG00000010322|chr3:52488255-52488262|GGCCGACT/-|frameshift_variant NISCH|p.K921Nfs*45|1|0.17|ENSG00000010322|chr3:52488255-52488262|GGCCGACT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 532.7993774414062 2 532.804968 1063.59538 3.0896 0.0016462 -2.8638 -0.0015259 0.2258 0.00012031 533.3062825720773 59.28 0.66833 59.539 59.193 59.861 0.2593 48 30 2 0 0 0 0.086747 1 27201 27201 36.044 5.4077 1 3401900 16940 399 10882 10906 19245 19245 0.06612985768219914 LLPGGSKV 8 Unmodified _LLPGGSKV_ 0 0 0 ENST00000381031.7_1_22:46689021-46689117:+|nuORF ENST00000381031.7_1_22:46689021-46689117:+|nuORF ENST00000381031.7_1_22:46689021-46689117:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 385.7442932128906 2 385.742171 769.469789 NaN NaN NaN NaN NaN NaN NaN 102.89 1 102.89 102.39 103.39 0 0 0 0 0.99035 1 56762 56762 2.3027 0 1 16941 7477 10883 10907 19246 19246 0.0758331870266602 LLPGKTYSF 9 Unmodified _LLPGKTYSF_ 0 0 0 nc|ENSG00000102531|Q9Y2H6-2|FNDC3A;ENSG00000102531|ENST00000492622|FNDC3A nc|ENSG00000102531|Q9Y2H6-2|FNDC3A nc|ENSG00000102531|Q9Y2H6-2|FNDC3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.2882690429688 2 513.286943 1024.55933 3.1783 0.0016314 -0.15357 -7.8827E-05 3.0247 0.0015526 513.286846722577 49.419 0.59753 49.419 49.196 49.793 0 63 25 3 0 0 0 0.034495 4 22638 22584;22638;22703;22747 53.833 21.527 1 1945700 16942 1346 10884 10908 19247;19248;19249;19250 19248 0.04803528591378381 LLPGKTYSF 9 Unmodified _LLPGKTYSF_ 0 0 0 nc|ENSG00000102531|Q9Y2H6-2|FNDC3A;ENSG00000102531|ENST00000492622|FNDC3A nc|ENSG00000102531|Q9Y2H6-2|FNDC3A nc|ENSG00000102531|Q9Y2H6-2|FNDC3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.28857421875 2 513.286943 1024.55933 3.2452 0.0016657 -0.40105 -0.00020585 2.8442 0.0014599 513.2865073240631 48.396 0.65809 49.223 48.914 49.572 0.82705 74 34 3 0 0 0 0.057744 4 22078 21968;22026;22078;22142 43.858 20.71 1 1688600 16943 1346 10884 10908 19251;19252;19253;19254 19253 0.04803528591378381 LLPGKTYSF 9 Unmodified _LLPGKTYSF_ 0 0 0 nc|ENSG00000102531|Q9Y2H6-2|FNDC3A;ENSG00000102531|ENST00000492622|FNDC3A nc|ENSG00000102531|Q9Y2H6-2|FNDC3A nc|ENSG00000102531|Q9Y2H6-2|FNDC3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.2885131835938 2 513.286943 1024.55933 3.4783 0.0017854 -0.1093 -5.6104E-05 3.369 0.0017293 513.2868205274851 49.325 0.56613 49.586 49.298 49.864 0.26146 48 20 3 0 0 0 0.10837 3 22494 22494;22558;22622 30.637 8.8899 1 1385900 16944 1346 10884 10908 19255;19256;19257 19255 0.04803528591378381 LLPGKTYSF 9 Unmodified _LLPGKTYSF_ 0 0 0 nc|ENSG00000102531|Q9Y2H6-2|FNDC3A;ENSG00000102531|ENST00000492622|FNDC3A nc|ENSG00000102531|Q9Y2H6-2|FNDC3A nc|ENSG00000102531|Q9Y2H6-2|FNDC3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.2886962890625 2 513.286943 1024.55933 3.5233 0.0018085 -0.28539 -0.00014649 3.2379 0.001662 513.2867115711521 48.85 0.56168 49.505 49.201 49.763 0.65525 46 20 3 0 0 0 0.079031 2 22345 22345;22406 37.974 14.826 1 1355900 16945 1346 10884 10908 19258;19259 19258 0.04803528591378381 LLPGTVYRF 9 Unmodified _LLPGTVYRF_ 0 0 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.4993286132812 2 533.30821 1064.60187 2.8012 0.0014939 0.045663 2.4353E-05 2.8468 0.0015182 533.3082142331543 61.154 0.3181 61.154 60.996 61.314 0 46 32 2 0 0 0 0.043585 2 28450 28450;28481 49.933 19.708 1 1716000 16946 829 10885 10909 19260;19261 19260 0.07214923719607214 LLPGTVYRF 9 Unmodified _LLPGTVYRF_ 0 0 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.310302734375 2 533.30821 1064.60187 3.0768 0.0016409 0.27375 0.00014599 3.3506 0.0017869 533.3082266928623 61.106 0.52701 61.359 61.036 61.563 0.25245 51 24 3 0 0 0 0.063575 1 27955 27955 41.84 11.615 1 1241400 16947 829 10885 10909 19262 19262 0.07214923719607214 LLPGTVYRF 9 Unmodified _LLPGTVYRF_ 0 0 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 533.30821 1064.60187 2.722 0.0014517 2.3744 0.0012663 5.0964 0.002718 533.3092177315516 60.305 0.043221 61.054 61.019 61.062 0.74927 -0.12858 0.002661 NaN 49.933 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1634900 16948 829 10885 10909 0.07214923719607214 LLPGTVYRF 9 Unmodified _LLPGTVYRF_ 0 0 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 533.30821 1064.60187 3.253 0.0017348 -0.49623 -0.00026464 2.7567 0.0014702 533.307846870783 60.502 0.5211 61.165 60.858 61.379 0.66261 -0.018177 -0.0004009 NaN 49.933 52 26 3 NaN NaN NaN NaN 0 NaN NaN 0 1630000 16949 829 10885 10909 0.07214923719607214 LLPIVKLLKRK 11 Unmodified _LLPIVKLLKRK_ 0 0 0 REV__NLRP8|p.N923Kfs*2|1|0.22|ENSG00000179709|chr19:55976190-55976191|-/A|frameshift_variant REV__NLRP8|p.N923Kfs*2|1|0.22|ENSG00000179709|chr19:55976190-55976191|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 661.0393676757812 2 660.976308 1319.93806 NaN NaN NaN NaN NaN NaN NaN 107.29 1 107.34 106.84 107.84 0.045425 0 0 0 1.0082 1 58003 58003 0 0 1 + 16950 13802 10886 10910 19263 19263 0.29089092897834234 LLPKDAVL 8 Unmodified _LLPKDAVL_ 0 0 0 ENST00000278616.8_1_11:108114757-108114799:+|nuORF ENST00000278616.8_1_11:108114757-108114799:+|nuORF ENST00000278616.8_1_11:108114757-108114799:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.7808532714844 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 54.76 1 55.026 54.526 55.526 0.26543 0 0 0 0.94507 1 25029 25029 9.3474 0 1 16951 6686 10887 10911 19264 19264 0.10388447425270897 LLPLKLLVVLL 11 Unmodified _LLPLKLLVVLL_ 0 0 0 REV__ENSG00000186407|ENST00000392619|CD300E REV__ENSG00000186407|ENST00000392619|CD300E MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.449951171875 2 617.44906 1232.88357 NaN NaN NaN NaN NaN NaN NaN 83.183 1 83.183 82.683 83.683 0 0 0 0 1.008 1 41842 41842 0.35063 0 1 + 16952 14054 10888 10912 19265 19265 0.276440810264603 LLPLLPLPLV 10 Unmodified _LLPLLPLPLV_ 0 0 0 ENST00000252137.10_1_22:19124942-19125766:-|nuORF ENST00000252137.10_1_22:19124942-19125766:-|nuORF ENST00000252137.10_1_22:19124942-19125766:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.73370361328125 3 363.254494 1086.74165 NaN NaN NaN NaN NaN NaN NaN 42.682 1 43.329 42.829 43.829 0.64693 0 0 0 1.0018 1 19557 19557 0.15932 0 1 16953 6507 10889 10913 19266 19266 0.2017528800411128 LLPNHSYVF 9 Unmodified _LLPNHSYVF_ 0 0 0 nc|ENSG00000132470|P16144-4|ITGB4;nc|ENSG00000132470|P16144-2|ITGB4;nc|ENSG00000132470|P16144-3|ITGB4;ENSG00000132470|ENST00000200181|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.2927856445312 2 545.290017 1088.56548 2.8739 0.0015671 1.6329 0.00089039 4.5067 0.0024575 545.2909583388195 54.074 0.40607 54.87 54.675 55.081 0.79552 47 22 3 0 0 0 0.057744 2 24691 24641;24691 43.858 11.553 1 498280 16954 2705 10890 10914 19267;19268 19268 0.024740468228856116 LLPNHSYVF 9 Unmodified _LLPNHSYVF_ 0 0 0 nc|ENSG00000132470|P16144-4|ITGB4;nc|ENSG00000132470|P16144-2|ITGB4;nc|ENSG00000132470|P16144-3|ITGB4;ENSG00000132470|ENST00000200181|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.2929077148438 2 545.290017 1088.56548 3.2495 0.0017719 0.53602 0.00029228 3.7855 0.0020642 545.2905051314798 55.184 0.23267 55.45 55.305 55.537 0.26543 19 15 2 0 0 0 0.079031 1 25221 25221 37.974 3.8716 1 1285200 16955 2705 10890 10914 19269 19269 0.024740468228856116 LLPPALKIGLK 11 Unmodified _LLPPALKIGLK_ 0 0 0 ENST00000269919.10_1_19:18475054-18475243:+|nuORF ENST00000269919.10_1_19:18475054-18475243:+|nuORF ENST00000269919.10_1_19:18475054-18475243:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.8995361328125 2 581.899734 1161.78492 NaN NaN NaN NaN NaN NaN NaN 84.512 1 85.178 84.678 85.678 0.66566 0 0 0 1.0082 1 38926 38926 0 0 1 16956 6648 10891 10915 19270 19270 0.21049477781389214 LLPRQSGFVV 10 Unmodified _LLPRQSGFVV_ 0 0 0 REV__ENST00000513286.1_1_4:54441909-54442551:+|nuORF REV__ENST00000513286.1_1_4:54441909-54442551:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.3331298828125 2 558.332216 1114.64988 NaN NaN NaN NaN NaN NaN NaN 32.125 1 32.913 32.413 33.413 0.78795 0 0 0 0.9952 1 14524 14524 5.7319 0.83484 1 + 16957 13443 10892 10916 19271 19271 0.0971399763966474 LLPSLLIMF 9 Unmodified _LLPSLLIMF_ 0 0 0 REV__ENST00000549268.1_1_12:62768286-62777812:+|nuORF REV__ENST00000549268.1_1_12:62768286-62777812:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.821533203125 2 523.819564 1045.62458 3.5139 0.0018407 0.33879 0.00017746 3.8527 0.0020181 523.8196570576868 92.857 0.58342 93.504 93.018 93.601 0.64715 45 32 2 0 0 0 1.101 1 42700 42700 2.3027 0 1 314520 + 16958 17270 10893 10917 19272 19272 0.10358806792896758 LLPSRPRAER 10 Unmodified _LLPSRPRAER_ 0 0 0 nc|ENSG00000178226|Q5K4E3-2|PRSS36;nc|ENSG00000178226|Q5K4E3-3|PRSS36;ENSG00000178226|ENST00000268281|PRSS36 nc|ENSG00000178226|Q5K4E3-2|PRSS36 nc|ENSG00000178226|Q5K4E3-2|PRSS36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.858154296875 2 597.856921 1193.69929 4.0643 0.0024299 -0.53944 -0.00032251 3.5248 0.0021073 597.8564602953894 88.979 0.97191 89.23 88.792 89.763 0.25118 64 42 3 0 0 0 0.93855 1 40762 40762 1.1933 1.1933 1 853210 16959 5157 10894 10918 19273 19273 0.11018705648439209 LLPSRQFGF 9 Unmodified _LLPSRQFGF_ 0 0 0 ENST00000569365.6_1_16:18794333-18800349:-|nuORF;ENSG00000134419|ENST00000322989|RPS15A ENST00000569365.6_1_16:18794333-18800349:-|nuORF ENST00000569365.6_1_16:18794333-18800349:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.7993774414062 2 532.798009 1063.58147 2.9104 0.0015506 1.1816 0.00062957 4.092 0.0021802 532.7984768894554 59.655 0.35188 59.655 59.47 59.821 0 58 29 3 0 0 0 0.044468 2 27632 27577;27632 49.554 15.153 1 2310100 16960 2808 10895 10919 19274;19275 19275 0.05221753059799994 LLPSRQFGF 9 Unmodified _LLPSRQFGF_ 0 0 0 ENST00000569365.6_1_16:18794333-18800349:-|nuORF;ENSG00000134419|ENST00000322989|RPS15A ENST00000569365.6_1_16:18794333-18800349:-|nuORF ENST00000569365.6_1_16:18794333-18800349:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 532.798009 1063.58147 2.795 0.0014892 1.0963 0.0005841 3.8913 0.0020733 532.7985655796437 58.635 0.27201 59.394 59.159 59.431 0.75894 -0.13057 -6.0126E-05 NaN 49.554 42 24 2 NaN NaN NaN NaN 0 NaN NaN 0 2522000 16961 2808 10895 10919 0.05221753059799994 LLPVLILIVKK 11 Unmodified _LLPVLILIVKK_ 0 0 0 nc|ENSG00000160593|Q86YT9-4|JAML;nc|ENSG00000160593|Q86YT9-2|JAML;ENSG00000160593|ENST00000356289|JAML nc|ENSG00000160593|Q86YT9-4|JAML nc|ENSG00000160593|Q86YT9-4|JAML MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 624.9542846679688 2 624.95451 1247.89447 NaN NaN NaN NaN NaN NaN NaN 46.087 1 46.087 45.587 46.587 0 0 0 0 1.0082 1 21088 21088 0 0 1 16962 4066 10896 10920 19276 19276 0.2804348340073375 LLPVWVVLAR 10 Unmodified _LLPVWVVLAR_ 0 0 0 ENST00000468057.5_1_1:205760663-205770562:-|nuORF;ENSG00000133065|ENST00000367137|SLC41A1 ENST00000468057.5_1_1:205760663-205770562:-|nuORF ENST00000468057.5_1_1:205760663-205770562:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.589599609375 3 389.253376 1164.7383 3.0069 0.0011704 0.78595 0.00030593 3.7928 0.0014764 389.25361573458446 40.966 0.50678 41.611 41.455 41.962 0.64451 112 48 4 0 0 0 0.9406 1 18682 18682 0.77653 0.078866 1 44386000 16963 2746 10897 10921 19277 19277 0.16252037950107479 LLPWLPKL 8 Unmodified _LLPWLPKL_ 0 0 0 ENST00000566243.5_2_15:74969356-74988325:-|nuORF;ENST00000568176.5_2_15:74967332-74988325:-|nuORF ENST00000566243.5_2_15:74969356-74988325:-|nuORF ENST00000566243.5_2_15:74969356-74988325:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.3207702636719 2 490.320589 978.626624 NaN NaN NaN NaN NaN NaN NaN 15.895 1 16.553 16.053 17.053 0.65798 0 0 0 0.99035 1 7163 7163 2.5775 0 1 16964 9053 10898 10922 19278 19278 0.1364560359297684 LLPWLPKL 8 Unmodified _LLPWLPKL_ 0 0 0 ENST00000566243.5_2_15:74969356-74988325:-|nuORF;ENST00000568176.5_2_15:74967332-74988325:-|nuORF ENST00000566243.5_2_15:74969356-74988325:-|nuORF ENST00000566243.5_2_15:74969356-74988325:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.320556640625 2 490.320589 978.626624 NaN NaN NaN NaN NaN NaN NaN 16.038 1 16.696 16.196 17.196 0.65798 0 0 0 0.99035 1 7228 7228 2.5775 0 1 16965 9053 10898 10922 19279 19279 0.1364560359297684 LLPWLPKL 8 Unmodified _LLPWLPKL_ 0 0 0 ENST00000566243.5_2_15:74969356-74988325:-|nuORF;ENST00000568176.5_2_15:74967332-74988325:-|nuORF ENST00000566243.5_2_15:74969356-74988325:-|nuORF ENST00000566243.5_2_15:74969356-74988325:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.3206787109375 2 490.320589 978.626624 NaN NaN NaN NaN NaN NaN NaN 16.139 1 16.797 16.297 17.297 0.65798 0 0 0 0.99035 1 7274 7274 2.5775 0 1 16966 9053 10898 10922 19280 19280 0.1364560359297684 LLPWLPKL 8 Unmodified _LLPWLPKL_ 0 0 0 ENST00000566243.5_2_15:74969356-74988325:-|nuORF;ENST00000568176.5_2_15:74967332-74988325:-|nuORF ENST00000566243.5_2_15:74969356-74988325:-|nuORF ENST00000566243.5_2_15:74969356-74988325:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.3212890625 2 490.320589 978.626624 NaN NaN NaN NaN NaN NaN NaN 16.491 1 17.149 16.649 17.649 0.65798 0 0 0 0.99035 1 7431 7431 2.5775 0 1 16967 9053 10898 10922 19281 19281 0.1364560359297684 LLQHLRLKRCY 11 Unmodified _LLQHLRLKRCY_ 0 0 0 REV__ENSG00000132622|ENST00000254963|HSPA12B REV__ENSG00000132622|ENST00000254963|HSPA12B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 721.7921752929688 2 721.924281 1441.83401 NaN NaN NaN NaN NaN NaN NaN 82.035 1 82.035 81.535 82.535 0 0 0 0 1.0072 1 40946 40946 3.2813 1.7994 1 + 16968 11901 10899 10923 19282 19282 0.1307644279872875 LLQKEDTVRRL 11 Unmodified _LLQKEDTVRRL_ 0 0 0 nc|ENSG00000124006|O75147-2|OBSL1;ENST00000465149.1_1_2:220420747-220435459:-|nuORF;nc|ENSG00000124006|O75147-1|OBSL1;nc|ENSG00000124006|O75147-4|OBSL1;ENSG00000124006|ENST00000404537|OBSL1 nc|ENSG00000124006|O75147-2|OBSL1 nc|ENSG00000124006|O75147-2|OBSL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.9103393554688 2 685.90935 1369.80415 4.3936 0.0030136 -0.96591 -0.00066253 3.4277 0.0023511 685.908545510543 93.592 1.1827 93.847 93.255 94.437 0.25497 94 57 2 0 0 0 0.91184 1 43087 43087 0.96228 0 1 715590 16969 2332 10900 10924 19283 19283 0.1340378233435331 LLQKQIRFRRK 11 Unmodified _LLQKQIRFRRK_ 0 0 0 REV__nc|ENSG00000205221|Q6UXI7-2|VIT REV__nc|ENSG00000205221|Q6UXI7-2|VIT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 743.4776000976562 2 743.478069 1484.94158 NaN NaN NaN NaN NaN NaN NaN 91.478 1 91.478 90.978 91.978 0 0 0 0 1.0082 1 48336 48336 0 0 1 + 16970 14456 10901 10925 19284 19284 0.21851155724425553 LLQNKVPLL 9 Unmodified _LLQNKVPLL_ 0 0 0 ENSG00000196850|ENST00000354300|PPTC7 ENSG00000196850|ENST00000354300|PPTC7 ENSG00000196850|ENST00000354300|PPTC7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.5617370605469 3 346.562099 1036.66447 NaN NaN NaN NaN NaN NaN NaN 18.355 1 19.016 18.516 19.516 0.66072 0 0 0 0.43268 1 8308 8308 21.537 0 1 16971 5779 10902 10926 19285 19285 0.14760069787803332 LLQPFRAM 8 Unmodified _LLQPFRAM_ 0 0 0 ENSG00000156232|ENST00000286760|WHAMM ENSG00000156232|ENST00000286760|WHAMM ENSG00000156232|ENST00000286760|WHAMM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.27935791015625 2 488.275855 974.537157 3.3119 0.0016171 2.8276 0.0013807 6.1395 0.0029978 488.2763109519653 39.376 0.32259 40.013 39.785 40.107 0.63778 15 11 2 0 0 0 0.57761 1 18007 18007 15.768 2.2603 1 248720 16972 3901 10903 10927 19286 19286 0.04887025641960463 LLQSMASKK 9 Unmodified _LLQSMASKK_ 0 0 0 REV__nc|ENSG00000111879|Q8NB25-2|FAM184A REV__nc|ENSG00000111879|Q8NB25-2|FAM184A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.2774963378906 2 503.291702 1004.56885 3.0263 0.0015231 0.95171 0.00047899 3.978 0.0020021 503.29205750831716 47.949 0.29353 48.778 48.642 48.935 0.82915 29 12 3 0 0 0 0.75535 1 21821 21821 1.8442 0 1 653040 + 16973 17896 10904 10928 19287 19287 0.06674973605254308 LLREKVEFL 9 Unmodified _LLREKVEFL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 573.8507080078125 2 573.847699 1145.68084 3.3659 0.0019315 0.53832 0.00030892 3.9042 0.0022404 573.8480450875511 49.945 0.23959 50.206 50.081 50.32 0.26146 12 8 2 0 0 0 0.016529 1 22834 22834 72.968 14.289 1 711240 16974 931 10905 10929 19288 19288 0.11383150953906807 LLREKVEFL 9 Unmodified _LLREKVEFL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.90191650390625 3 382.900891 1145.68084 2.8192 0.0010795 0.2333 8.9329E-05 3.0525 0.0011688 382.90084675454546 49.35 0.25803 50.005 49.851 50.109 0.65524 16 8 3 0 0 0 0.21008 1 22590 22590 33.445 11.855 1 1075000 16975 931 10905 10929 19289 19289 0.11383150953906807 LLREKVEFL 9 Unmodified _LLREKVEFL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 573.8491821289062 2 573.847699 1145.68084 3.7312 0.0021411 -0.7902 -0.00045345 2.941 0.0016877 573.8471881147103 49.368 0.1998 50.023 49.883 50.083 0.65524 11 6 2 0 0 0 0.099775 1 22601 22601 32.786 3.7041 1 498260 16976 931 10905 10929 19290 19290 0.11383150953906807 LLREKVEFL 9 Unmodified _LLREKVEFL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 382.900891 1145.68084 2.8102 0.001076 0.35122 0.00013448 3.1614 0.0012105 382.90095710154765 49.928 0.23959 50.19 50.081 50.32 0.26146 0.092243 5.4138E-05 NaN 33.445 20 8 3 NaN NaN NaN NaN 0 NaN NaN 0 869190 16977 931 10905 10929 0.11383150953906807 LLRFIGFA 8 Unmodified _LLRFIGFA_ 0 0 0 REV__ENSG00000158315|ENST00000372990|RHBDL2 REV__ENSG00000158315|ENST00000372990|RHBDL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 468.78753662109375 2 468.786913 935.559273 NaN NaN NaN NaN NaN NaN NaN 10.797 1 10.797 10.297 11.297 0 0 0 0 0.99035 1 4757 4757 0.79363 0 1 + 16978 12820 10906 10930 19291 19291 0.08891573382049955 LLRFNLHLKDK 11 Unmodified _LLRFNLHLKDK_ 0 0 0 nc|ENSG00000117906|Q14257-2|RCN2 nc|ENSG00000117906|Q14257-2|RCN2 nc|ENSG00000117906|Q14257-2|RCN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 698.9254760742188 2 698.924803 1395.83505 NaN NaN NaN NaN NaN NaN NaN 34.785 1 35.039 34.539 35.539 0.25389 0 0 0 1.0057 1 15844 15844 3.2813 0 1 16979 9615 10907 10931 19292 19292 0.15296980439234176 LLRFRRKRRHH 11 Unmodified _LLRFRRKRRHH_ 0 0 0 ENSG00000145888|ENST00000274576|GLRA1;nc|ENSG00000145888|P23415|GLRA1 ENSG00000145888|ENST00000274576|GLRA1 ENSG00000145888|ENST00000274576|GLRA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 787.9910278320312 2 787.990001 1573.96545 NaN NaN NaN NaN NaN NaN NaN 104.15 1 104.2 103.7 104.7 0.052994 0 0 0 1.0082 1 56410 56410 0 0 1 16980 3493 10908 10932 19293 19293 0.20142434001490983 LLRFRRPL 8 Unmodified _LLRFRRPL_ 0 0 0 ENST00000395159.6_2_14:58894112-58894238:-|nuORF ENST00000395159.6_2_14:58894112-58894238:-|nuORF ENST00000395159.6_2_14:58894112-58894238:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.5704040527344 3 357.569699 1069.68727 NaN NaN NaN NaN NaN NaN NaN 25.766 1 26.391 25.891 26.891 0.62505 0 0 0 0.99035 1 11812 11812 1.8442 0.6509 1 16981 7549 10909 10933 19294 19294 0.1552113369593826 LLRHVARV 8 Unmodified _LLRHVARV_ 0 0 0 REV__ENST00000366463.6_1_22:36886057-36894231:-|nuORF REV__ENST00000366463.6_1_22:36886057-36894231:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 321.879150390625 3 321.878533 962.613768 2.3932 0.00077031 -0.025076 -8.0716E-06 2.3681 0.00076224 321.87856999790364 29.112 0.24696 29.372 29.255 29.502 0.2602 24 14 2 0 0 0 0.72385 1 13265 13265 3.9444 0 1 209000 + 16982 10824 10910 10934 19295 19295 0.1309658525345867 LLRKILLRKF 10 Unmodified _LLRKILLRKF_ 0 0 0 nc|ENSG00000050628|P43115-3|PTGER3;nc|ENSG00000050628|P43115-4|PTGER3;nc|ENSG00000050628|P43115-2|PTGER3;ENSG00000050628|ENST00000306666|PTGER3;nc|ENSG00000050628|P43115-7|PTGER3;nc|ENSG00000050628|P43115-8|PTGER3;nc|ENSG00000050628|P43115-9|PTGER3;nc|ENSG00000050628|P43115-5|PTGER3;nc|ENSG00000050628|P43115-11|PTGER3;nc|ENSG00000050628|P43115-6|PTGER3;nc|ENSG00000050628|P43115-12|PTGER3;nc|ENSG00000050628|P43115-10|PTGER3 nc|ENSG00000050628|P43115-3|PTGER3 nc|ENSG00000050628|P43115-3|PTGER3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 650.8943481445312 2 650.453 1298.89145 NaN NaN NaN NaN NaN NaN NaN 35.306 1 35.306 34.806 35.806 0 0 0 0 1.0015 1 16018 16018 0.45834 0.10771 1 16983 586 10911 10935 19296 19296 0.2539565306660734 LLRKKVEVL 9 Unmodified _LLRKKVEVL_ 0 0 0 ENSG00000044446|ENST00000379942|PHKA2 ENSG00000044446|ENST00000379942|PHKA2 ENSG00000044446|ENST00000379942|PHKA2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.5602111816406 3 366.585015 1096.73321 2.7042 0.00099134 0.075634 2.7726E-05 2.7799 0.0010191 366.5849825949056 20.883 0.24289 21.536 21.377 21.62 0.65346 37 16 3 0 0 0 0.11115 1 9445 9445 4.5289 2.7866 1 244090 16984 549 10912 10936 19297 19297 0.18871734087520053 LLRKLVSTV 9 Unmodified _LLRKLVSTV_ 0 0 0 REV__nc|ENSG00000154358|Q5VST9|OBSCN REV__nc|ENSG00000154358|Q5VST9|OBSCN MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.5356750488281 3 343.565732 1027.67537 2.4678 0.00084784 0.23228 7.9805E-05 2.7 0.00092764 343.56587490117033 35.702 0.15929 36.328 36.275 36.434 0.62631 8 6 2 0 0 0 0.11065 1 16366 16366 0.96228 0 1 350210 + 16985 12706 10913 10937 19298 19298 0.16263472162086146 LLRKLVSTV 9 Unmodified _LLRKLVSTV_ 0 0 0 REV__nc|ENSG00000154358|Q5VST9|OBSCN REV__nc|ENSG00000154358|Q5VST9|OBSCN MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 343.565732 1027.67537 2.468 0.00084792 0.54375 0.00018682 3.0117 0.0010347 343.5658499625012 36.342 0.2283 36.599 36.422 36.65 0.25768 0.13555 0.00016552 NaN 0.96228 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 168610 + 16986 12706 10913 10937 0.16263472162086146 LLRKQQKRKRR 11 Unmodified _LLRKQQKRKRR_ 0 0 0 REV__nc|ENSG00000184343|Q9UPE1-2|SRPK3 REV__nc|ENSG00000184343|Q9UPE1-2|SRPK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.0015563964844 3 504.002337 1508.98518 NaN NaN NaN NaN NaN NaN NaN 61.822 1 62.553 62.053 63.053 0.73077 0 0 0 1.0082 1 28722 28722 0.094841 0.094841 1 + 16987 13967 10914 10938 19299 19299 0.25104765221567504 LLRLAARGS 9 Unmodified _LLRLAARGS_ 0 0 0 REV__nc|ENSG00000072110|P12814-4|ACTN1 REV__nc|ENSG00000072110|P12814-4|ACTN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.8059997558594 2 478.803626 955.592698 3.8852 0.0018602 -0.75077 -0.00035947 3.1344 0.0015008 478.8038208739458 102.65 0.16104 102.97 102.87 103.03 0.3182 6 4 2 0 0 0 1.2126 1 47499 47499 0.52476 0 1 94015 + 16988 17868 10915 10939 19300 19300 0.11312575153931448 LLRLAIRLLR 10 Unmodified _LLRLAIRLLR_ 0 0 0 nc|ENSG00000107862|Q92538-3|GBF1;nc|ENSG00000107862|Q92538-2|GBF1;nc|ENSG00000107862|Q92538-1|GBF1;ENSG00000107862|ENST00000369983|GBF1 nc|ENSG00000107862|Q92538-3|GBF1 nc|ENSG00000107862|Q92538-3|GBF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.3871459960938 2 618.934974 1235.8554 NaN NaN NaN NaN NaN NaN NaN 94.545 1 94.631 94.131 95.131 0.086212 0 0 0 1.0015 1 49768 49768 0.40072 0 1 16989 1611 10916 10940 19301 19301 0.24690195889706956 LLRLAIRLLRR 11 Unmodified _LLRLAIRLLRR_ 0 0 0 nc|ENSG00000107862|Q92538-3|GBF1;nc|ENSG00000107862|Q92538-2|GBF1;nc|ENSG00000107862|Q92538-1|GBF1;ENSG00000107862|ENST00000369983|GBF1 nc|ENSG00000107862|Q92538-3|GBF1 nc|ENSG00000107862|Q92538-3|GBF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 696.9844360351562 2 696.98553 1391.95651 NaN NaN NaN NaN NaN NaN NaN 85.45 1 85.45 84.95 85.95 0 0 0 0 1.0082 1 43513 43513 0 0 1 16990 1611 10917 10941 19302 19302 0.2762064759240275 LLRLAYRLR 9 Unmodified _LLRLAYRLR_ 0 0 0 REV__ENST00000465443.5_1_1:45270304-45271347:+|nuORF REV__ENST00000465443.5_1_1:45270304-45271347:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.38232421875 2 587.382574 1172.7506 NaN NaN NaN NaN NaN NaN NaN 44.544 1 45.365 44.865 45.865 0.82075 0 0 0 0.91238 1 20284 20284 0.52476 0 1 + 16991 13615 10918 10942 19303 19303 0.17113074413146023 LLRLGAWLLP 10 Unmodified _LLRLGAWLLP_ 0 0 0 ENST00000481697.5_1_7:102389635-102389809:+|nuORF ENST00000481697.5_1_7:102389635-102389809:+|nuORF ENST00000481697.5_1_7:102389635-102389809:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 384.58270263671875 3 384.581493 1150.72265 NaN NaN NaN NaN NaN NaN NaN 38.312 1 38.312 37.812 38.812 0 0 0 0 0.99733 1 17388 17388 1.9064 0 1 16992 8297 10919 10943 19304 19304 0.15331751433086538 LLRLGAWLLP 10 Unmodified _LLRLGAWLLP_ 0 0 0 ENST00000481697.5_1_7:102389635-102389809:+|nuORF ENST00000481697.5_1_7:102389635-102389809:+|nuORF ENST00000481697.5_1_7:102389635-102389809:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 384.5828552246094 3 384.581493 1150.72265 NaN NaN NaN NaN NaN NaN NaN 42.13 1 42.13 41.63 42.63 0 0 0 0 0.99733 1 19169 19169 3.8763 1.97 1 16993 8297 10919 10943 19305 19305 0.15331751433086538 LLRLGAWLLP 10 Unmodified _LLRLGAWLLP_ 0 0 0 ENST00000481697.5_1_7:102389635-102389809:+|nuORF ENST00000481697.5_1_7:102389635-102389809:+|nuORF ENST00000481697.5_1_7:102389635-102389809:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 384.73699951171875 3 384.581493 1150.72265 2.8579 0.0010991 0.6687 0.00025717 3.5266 0.0013563 384.58180062319553 61.281 0.84143 61.533 60.949 61.79 0.25245 51 39 2 0 0 0 0.12676 1 28134 28134 1.9064 0.1641 1 464080 16994 8297 10919 10943 19306 19306 0.15331751433086538 LLRLGAWLLP 10 Unmodified _LLRLGAWLLP_ 0 0 0 ENST00000481697.5_1_7:102389635-102389809:+|nuORF ENST00000481697.5_1_7:102389635-102389809:+|nuORF ENST00000481697.5_1_7:102389635-102389809:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 384.4881286621094 3 384.581493 1150.72265 2.7463 0.0010562 1.6162 0.00062155 4.3625 0.0016777 384.5820486172138 43.73 0.38744 44 43.627 44.014 0.2694 23 13 2 0 0 0 0.12676 1 19959 19959 1.9064 0.83491 1 662680 16995 8297 10919 10943 19307 19307 0.15331751433086538 LLRLGAWLLP 10 Unmodified _LLRLGAWLLP_ 0 0 0 ENST00000481697.5_1_7:102389635-102389809:+|nuORF ENST00000481697.5_1_7:102389635-102389809:+|nuORF ENST00000481697.5_1_7:102389635-102389809:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 384.7364807128906 3 384.581493 1150.72265 2.8188 0.001084 1.3524 0.00052012 4.1712 0.0016042 384.5820358431419 56.326 0.37529 56.995 56.79 57.165 0.66829 29 24 2 0 0 0 0.12676 1 25786 25786 1.9064 0 1 478810 16996 8297 10919 10943 19308 19308 0.15331751433086538 LLRLGAWLLP 10 Unmodified _LLRLGAWLLP_ 0 0 0 ENST00000481697.5_1_7:102389635-102389809:+|nuORF ENST00000481697.5_1_7:102389635-102389809:+|nuORF ENST00000481697.5_1_7:102389635-102389809:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 384.581493 1150.72265 2.7803 0.0010693 2.3243 0.0008939 5.1046 0.0019631 384.9163471994285 60.501 0.055588 61.164 61.132 61.188 0.66261 -0.18469 0.0016838 NaN 1.9064 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 397920 16997 8297 10919 10943 0.15331751433086538 LLRLICHL 8 Unmodified _LLRLICHL_ 0 0 0 REV__nc|ENSG00000177674|Q6RW13-4|AGTRAP REV__nc|ENSG00000177674|Q6RW13-4|AGTRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.8092346191406 2 490.807322 979.600092 3.2942 0.0016168 -0.091629 -4.4972E-05 3.2026 0.0015719 490.807273561502 49.147 0.21866 49.803 49.664 49.883 0.65524 11 7 2 0 0 0 0.65723 1 22489 22489 9.3474 0 1 550450 + 16998 18056 10920 10944 19309 19309 0.10947591429999193 LLRLIKPKKKV 11 Unmodified _LLRLIKPKKKV_ 0 0 0 ENST00000244043.4_1_20:48123609-48123702:-|nuORF ENST00000244043.4_1_20:48123609-48123702:-|nuORF ENST00000244043.4_1_20:48123609-48123702:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.480712890625 2 668.481757 1334.94896 NaN NaN NaN NaN NaN NaN NaN 28.407 1 29.197 28.697 29.697 0.78921 0 0 0 1.0082 1 12793 12793 0 0 1 16999 6477 10921 10945 19310 19310 0.2948849527213042 LLRLLHRGRRR 11 Unmodified _LLRLLHRGRRR_ 0 0 0 ENST00000413716.6_1_2:55646820-55647000:-|nuORF ENST00000413716.6_1_2:55646820-55647000:-|nuORF ENST00000413716.6_1_2:55646820-55647000:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 723.4738159179688 2 723.473652 1444.93275 NaN NaN NaN NaN NaN NaN NaN 46.199 1 47.028 46.528 47.528 0.82915 0 0 0 1.0071 1 21042 21042 1.4819 0 1 17000 7693 10922 10946 19311 19311 0.2280822687860109 LLRLLRLLQKL 11 Unmodified _LLRLLRLLQKL_ 0 0 0 ENST00000452398.5_1_3:19388190-19491848:+|nuORF;ENSG00000183960|ENST00000328405|KCNH8;ENSG00000089558|ENST00000264661|KCNH4 ENST00000452398.5_1_3:19388190-19491848:+|nuORF ENST00000452398.5_1_3:19388190-19491848:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 689.9871215820312 2 689.984664 1377.95478 NaN NaN NaN NaN NaN NaN NaN 14.046 1 14.046 13.546 14.546 0 0 0 0 1.0082 1 6179 6179 0 0 1 17001 5415 10923 10947 19312 19312 0.28091593783824464 LLRLLRLYWLY 11 Unmodified _LLRLLRLYWLY_ 0 0 0 REV__nc|ENSG00000160145|O60229-2|KALRN REV__nc|ENSG00000160145|O60229-2|KALRN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.14715576171875 3 507.981657 1520.92314 NaN NaN NaN NaN NaN NaN NaN 75.667 1 75.667 75.167 76.167 0 0 0 0 1.0079 1 37080 37080 0.50596 0.09769 1 + 17002 17997 10924 10948 19313 19313 0.18351601029894482 LLRLRKLLKQ 10 Unmodified _LLRLRKLLKQ_ 0 0 0 REV__ENSG00000162595|ENST00000646789|DIRAS3 REV__ENSG00000162595|ENST00000646789|DIRAS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 640.9472045898438 2 640.948082 1279.88161 NaN NaN NaN NaN NaN NaN NaN 88.02 1 88.271 87.771 88.771 0.25064 0 0 0 1.0015 1 40504 40504 0.45834 0 1 + 17003 12944 10925 10949 19314 19314 0.2528646506120822 LLRLRLRKER 10 Unmodified _LLRLRLRKER_ 0 0 0 nc|ENSG00000107593|Q9P0L9-4|PKD2L1;nc|ENSG00000107593|Q9P0L9-3|PKD2L1;nc|ENSG00000107593|Q9P0L9-2|PKD2L1;nc|ENSG00000107593|Q9P0L9-5|PKD2L1;ENSG00000107593|ENST00000318222|PKD2L1 nc|ENSG00000107593|Q9P0L9-4|PKD2L1 nc|ENSG00000107593|Q9P0L9-4|PKD2L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 676.8692626953125 2 676.951687 1351.88882 NaN NaN NaN NaN NaN NaN NaN 40.412 1 40.412 39.912 40.912 0 0 0 0 1.0015 1 18341 18341 0.45834 0 1 17004 1601 10926 10950 19315 19315 0.22695197661619204 LLRLRLRKVAL 11 Unmodified _LLRLRLRKVAL_ 0 0 0 ENST00000590444.5_1_19:6471408-6475578:-|nuORF;nc|ENSG00000205744|Q8IV53-2|DENND1C;ENSG00000205744|ENST00000381480|DENND1C ENST00000590444.5_1_19:6471408-6475578:-|nuORF ENST00000590444.5_1_19:6471408-6475578:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 676.0187377929688 2 675.974631 1349.93471 NaN NaN NaN NaN NaN NaN NaN 107.67 1 107.67 107.17 108.17 0 0 0 0 1.008 1 59037 59037 0.35063 0 1 17005 6056 10927 10951 19316 19316 0.273738428438719 LLRLRLRLRRL 11 Unmodified _LLRLRLRLRRL_ 0 0 0 ENST00000234111.8_1_2:10588250-10588409:-|nuORF ENST00000234111.8_1_2:10588250-10588409:-|nuORF ENST00000234111.8_1_2:10588250-10588409:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.5649719238281 3 493.347444 1477.0205 NaN NaN NaN NaN NaN NaN NaN 70.317 1 71.02 70.52 71.52 0.70302 0 0 0 1.0082 1 33688 33688 0 0 1 17006 6454 10928 10952 19317 19317 0.30107427749362614 LLRLRYRLFR 10 Unmodified _LLRLRYRLFR_ 0 0 0 REV__ENST00000554717.1_1_14:64108067-64108556:-|nuORF REV__ENST00000554717.1_1_14:64108067-64108556:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 703.4471435546875 2 703.44878 1404.88301 NaN NaN NaN NaN NaN NaN NaN 87.595 1 88.27 87.77 88.77 0.67555 0 0 0 1.0015 1 40346 40346 0.40072 0 1 + 17007 17312 10929 10953 19318 19318 0.1967609914993318 LLRMPRRQKP 10 Unmodified _LLRMPRRQKP_ 0 0 0 REV__ENST00000340437.8_1_11:61171383-61171542:-|nuORF REV__ENST00000340437.8_1_11:61171383-61171542:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.2689514160156 3 432.267803 1293.78158 NaN NaN NaN NaN NaN NaN NaN 71.602 1 72.306 71.806 72.806 0.70386 0 0 0 0.99807 1 34400 34400 3.3196 1.0669 1 + 17008 15456 10930 10954 19319 19319 0.14643904455761003 LLRPSNLSI 9 Unmodified _LLRPSNLSI_ 0 0 0 ENST00000412466.1_1_7:66764334-66767385:-|nuORF ENST00000412466.1_1_7:66764334-66767385:-|nuORF ENST00000412466.1_1_7:66764334-66767385:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.21142578125 3 338.209836 1011.60768 2.5483 0.00086186 1.7193 0.0005815 4.2677 0.0014434 338.2106935571709 39.973 0.38229 40.24 40.103 40.485 0.26696 36 15 3 0 0 0 0.26277 1 18271 18271 13.615 0.74226 1 3046800 17009 7680 10931 10955 19320 19320 0.10234022231293238 LLRPSNRPSIV 11 Unmodified _LLRPSNRPSIV_ 0 0 0 REV__nc|ENSG00000113448|Q08499-7|PDE4D REV__nc|ENSG00000113448|Q08499-7|PDE4D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 417.9234619140625 3 417.922578 1250.7459 3.2074 0.0013404 -0.65797 -0.00027498 2.5494 0.0010655 417.9222537716062 100.17 0.13911 100.77 100.68 100.82 0.59717 19 4 6 0 0 0 0.91149 1 46345 46345 0.36667 0.20735 1 17246000 + 17010 17900 10932 10956 19321 19321 0.1305614547973164 LLRPSWLNLHF 11 Unmodified _LLRPSWLNLHF_ 0 0 0 REV__ENST00000268042.6_1_15:98508862-98509219:+|nuORF REV__ENST00000268042.6_1_15:98508862-98509219:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 349.9549255371094 4 349.702849 1394.78229 2.4375 0.00085242 0.2928 0.00010239 2.7303 0.00095481 349.70292255715066 50.228 0.33096 50.228 50.13 50.461 0 22 15 2 0 0 0 0.89309 1 23003 23003 1.1098 0.65524 1 660230 + 17011 15046 10933 10957 19322 19322 0.10069022376433168 LLRPSWLNLHF 11 Unmodified _LLRPSWLNLHF_ 0 0 0 REV__ENST00000268042.6_1_15:98508862-98509219:+|nuORF REV__ENST00000268042.6_1_15:98508862-98509219:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 349.702849 1394.78229 2.4375 0.00085242 0.2928 0.00010239 2.7303 0.00095481 349.70292255715066 50.228 0.33096 50.228 50.13 50.461 0 -0.061011 4.1585E-05 NaN 1.1098 22 15 2 NaN NaN NaN NaN 0 NaN NaN 0 660230 + 17012 15046 10933 10957 0.10069022376433168 LLRPSWLNLHF 11 Unmodified _LLRPSWLNLHF_ 0 0 0 REV__ENST00000268042.6_1_15:98508862-98509219:+|nuORF REV__ENST00000268042.6_1_15:98508862-98509219:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 349.702849 1394.78229 2.5183 0.00088064 0.14631 5.1164E-05 2.6646 0.00093181 349.7028177121689 49.898 0.52646 50.159 49.864 50.391 0.26146 -0.12912 -0.00016333 NaN 1.1098 31 21 2 NaN NaN NaN NaN 0 NaN NaN 0 517330 + 17013 15046 10933 10957 0.10069022376433168 LLRPSWLNLHF 11 Unmodified _LLRPSWLNLHF_ 0 0 0 REV__ENST00000268042.6_1_15:98508862-98509219:+|nuORF REV__ENST00000268042.6_1_15:98508862-98509219:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 349.702849 1394.78229 2.433 0.00085083 0.75706 0.00026475 3.1901 0.0011156 349.70281424171975 49.821 0.11152 50.479 50.451 50.563 0.65735 0.19013 0.000691 NaN 1.1098 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 299330 + 17014 15046 10933 10957 0.10069022376433168 LLRPVKLLRRR 11 Unmodified _LLRPVKLLRRR_ 0 0 0 ENSG00000139044|ENST00000266383|B4GALNT3 ENSG00000139044|ENST00000266383|B4GALNT3 ENSG00000139044|ENST00000266383|B4GALNT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.9713134765625 3 473.996412 1418.96741 NaN NaN NaN NaN NaN NaN NaN 67.828 1 68.53 68.03 69.03 0.70218 0 0 0 1.0082 1 32287 32287 0.094841 0.011491 1 17015 3125 10934 10958 19323 19323 0.2746804996670562 LLRRLRRLERH 11 Unmodified _LLRRLRRLERH_ 0 0 0 REV__ENST00000601530.1_1_19:49224057-49228265:-|nuORF REV__ENST00000601530.1_1_19:49224057-49228265:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.5658264160156 3 506.65857 1516.95388 NaN NaN NaN NaN NaN NaN NaN 73.695 1 73.695 73.195 74.195 0 0 0 0 1.0082 1 35952 35952 0.094841 0 1 + 17016 11040 10935 10959 19324 19324 0.21608192187500208 LLRRRRRRWRR 11 Unmodified _LLRRRRRRWRR_ 0 0 0 REV__ENST00000492275.5_1_21:38445580-38480706:+|nuORF REV__ENST00000492275.5_1_21:38445580-38480706:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 840.5380859375 2 840.540723 1679.06689 NaN NaN NaN NaN NaN NaN NaN 90.724 1 90.724 90.224 91.224 0 0 0 0 1.0082 1 47760 47760 0 0 1 + 17017 15542 10936 10960 19325 19325 0.25452305424005317 LLRRRRRRWRR 11 Unmodified _LLRRRRRRWRR_ 0 0 0 REV__ENST00000492275.5_1_21:38445580-38480706:+|nuORF REV__ENST00000492275.5_1_21:38445580-38480706:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 840.53857421875 2 840.540723 1679.06689 NaN NaN NaN NaN NaN NaN NaN 65.434 1 66.143 65.643 66.643 0.70891 0 0 0 1.0082 1 30951 30951 0 0 1 + 17018 15542 10936 10960 19326 19326 0.25452305424005317 LLRRRRRRWRR 11 Unmodified _LLRRRRRRWRR_ 0 0 0 REV__ENST00000492275.5_1_21:38445580-38480706:+|nuORF REV__ENST00000492275.5_1_21:38445580-38480706:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 840.5372314453125 2 840.540723 1679.06689 NaN NaN NaN NaN NaN NaN NaN 91.901 1 91.983 91.483 92.483 0.082848 0 0 0 1.008 1 47753 47753 0.30703 0.30703 1 + 17019 15542 10936 10960 19327 19327 0.25452305424005317 LLRSKAML 8 Unmodified _LLRSKAML_ 0 0 0 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;nc|ENSG00000127603|Q9UPN3-5|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.293212890625 2 466.291505 930.568457 NaN NaN NaN NaN NaN NaN NaN 25.73 1 25.997 25.497 26.497 0.26777 0 0 0 0.32671 1 11681 11681 34.402 9.0024 1 17020 2487 10937 10961 19328 19328 0.10039598676064543 LLRSKAML 8 Unmodified _LLRSKAML_ 0 0 0 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;nc|ENSG00000127603|Q9UPN3-5|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.2933044433594 2 466.291505 930.568457 NaN NaN NaN NaN NaN NaN NaN 25.399 1 26.028 25.528 26.528 0.62915 0 0 0 0.20935 1 11638 11638 41.84 9.5341 1 17021 2487 10937 10961 19329 19329 0.10039598676064543 LLRTGGPPFP 10 Unmodified _LLRTGGPPFP_ 0 0 0 REV__ENST00000342983.6_1_X:131351517-131351760:-|nuORF REV__ENST00000342983.6_1_X:131351517-131351760:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.2074279785156 3 352.206315 1053.59712 2.638 0.00092912 0.96322 0.00033925 3.6012 0.0012684 352.2066116326584 55.01 0.12856 55.01 54.896 55.025 0 16 12 2 0 0 0 0.93584 1 25239 25239 1.7423 0.26037 1 861710 + 17022 15476 10938 10962 19330 19330 0.07246039576853036 LLRVPASLG 9 Unmodified _LLRVPASLG_ 0 0 0 REV__ENST00000605849.1_1_4:96470971-96471193:+|nuORF REV__ENST00000605849.1_1_4:96470971-96471193:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.2948913574219 2 463.295102 924.575651 NaN NaN NaN NaN NaN NaN NaN 65.297 1 65.954 65.454 66.454 0.65672 0 0 0 0.90111 1 29937 29937 3.2813 0 1 + 17023 17663 10939 10963 19331 19331 0.11034654548132039 LLRVQPLVRT 10 Unmodified _LLRVQPLVRT_ 0 0 0 nc|ENSG00000022976|A8K0R7|ZNF839;nc|ENSG00000022976|A8K0R7-2|ZNF839;ENSG00000022976|ENST00000442396|ZNF839 nc|ENSG00000022976|A8K0R7|ZNF839 nc|ENSG00000022976|A8K0R7|ZNF839 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.93017578125 3 398.927552 1193.76083 NaN NaN NaN NaN NaN NaN NaN 39.151 1 39.415 38.915 39.915 0.26408 0 0 0 0.99995 1 17816 17816 1.7423 0.52744 1 17024 466 10940 10964 19332 19332 0.17169637347751632 LLRVRPLPKL 10 Unmodified _LLRVRPLPKL_ 0 0 0 REV__ENST00000536411.1_1_12:6483977-6484974:-|nuORF REV__ENST00000536411.1_1_12:6483977-6484974:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.9150390625 2 602.91625 1203.81795 NaN NaN NaN NaN NaN NaN NaN 43.131 1 43.946 43.446 44.446 0.81444 0 0 0 1.0015 1 19629 19629 0.45834 0 1 + 17025 17179 10941 10965 19333 19333 0.22419104624100328 LLRWAAKQPI 10 Unmodified _LLRWAAKQPI_ 0 0 0 REV__ENSG00000083857|ENST00000441802|FAT1 REV__ENSG00000083857|ENST00000441802|FAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.77117919921875 3 399.248514 1194.72371 NaN NaN NaN NaN NaN NaN NaN 25.393 1 25.661 25.161 26.161 0.26777 0 0 0 0.99976 1 11523 11523 1.9064 0.83491 1 + 17026 10632 10942 10966 19334 19334 0.13413965801987615 LLRWFSHQPV 10 Unmodified _LLRWFSHQPV_ 0 0 0 ENST00000576408.1_1_16:67964677-67965878:-|nuORF ENST00000576408.1_1_16:67964677-67965878:-|nuORF ENST00000576408.1_1_16:67964677-67965878:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.855224609375 2 641.85639 1281.69823 NaN NaN NaN NaN NaN NaN NaN 28.889 1 28.889 28.389 29.389 0 0 0 0 0.99983 1 13033 13033 1.8442 0.36234 1 17027 9124 10943 10967 19335 19335 0.06864491279543472 LLRWLRPIRRE 11 Unmodified _LLRWLRPIRRE_ 0 0 0 REV__nc|ENSG00000116299|Q6UXG2-3|ELAPOR1 REV__nc|ENSG00000116299|Q6UXG2-3|ELAPOR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 754.4688110351562 2 754.470244 1506.92593 NaN NaN NaN NaN NaN NaN NaN 33.317 1 33.317 32.817 33.817 0 0 0 0 1.008 1 15095 15095 0.35063 0.35063 1 + 17028 11404 10944 10968 19336 19336 0.1927486920735646 LLRWRVFIYW 10 Unmodified _LLRWRVFIYW_ 0 0 0 ENSG00000068650|ENST00000375645|ATP11A ENSG00000068650|ENST00000375645|ATP11A ENSG00000068650|ENST00000375645|ATP11A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.61651611328125 3 484.615197 1450.82376 NaN NaN NaN NaN NaN NaN NaN 79.871 1 79.871 79.371 80.371 0 0 0 0 1.0012 1 39542 39542 0.69767 0.19171 1 17029 737 10945 10969 19337 19337 0.11638203135794356 LLRWRWRWSRM 11 Unmodified _LLRWRWRWSRM_ 0 0 0 REV__ENST00000414613.1_1_2:61164392-61164575:-|nuORF REV__ENST00000414613.1_1_2:61164392-61164575:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 823.4569702148438 2 823.454071 1644.89359 NaN NaN NaN NaN NaN NaN NaN 86.732 1 86.762 86.262 87.262 0.030289 0 0 0 1.008 1 43721 43721 0.30703 0.03801 1 + 17030 16124 10946 10970 19338 19338 0.09693758532716856 LLRWWRRQLLP 11 Unmodified _LLRWWRRQLLP_ 0 0 0 ENST00000393313.5_1_7:127032353-127032743:-|nuORF ENST00000393313.5_1_7:127032353-127032743:-|nuORF ENST00000393313.5_1_7:127032353-127032743:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 384.73828125 4 384.987307 1535.92012 2.6612 0.0010245 1.9661 0.00075691 4.6273 0.0017814 384.9882492067853 44.159 0.12304 44.159 44.041 44.164 0 22 12 2 0 0 0 0.13295 1 20137 20137 0.094841 0.094841 1 2525000 17031 7530 10947 10971 19339 19339 0.17359770695725274 LLSGHPESEES 11 Unmodified _LLSGHPESEES_ 0 0 0 REV__ENSG00000180787|ENST00000318833|ZFP3 REV__ENSG00000180787|ENST00000318833|ZFP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 592.4625244140625 2 592.775125 1183.5357 NaN NaN NaN NaN NaN NaN NaN 33.157 1 33.157 32.657 33.657 0 0 0 0 1.0072 1 15018 15018 1.3295 0.5359 1 + 17032 13830 10948 10972 19340 19340 -0.0487298170376107 LLSPQHNYFI 10 Unmodified _LLSPQHNYFI_ 0 0 0 ENST00000502740.1_1_8:15664207-15664498:-|nuORF ENST00000502740.1_1_8:15664207-15664498:-|nuORF ENST00000502740.1_1_8:15664207-15664498:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 411.22210693359375 3 411.220513 1230.63971 2.7917 0.001148 0.34382 0.00014138 3.1355 0.0012894 411.22098852539 38.376 0.18834 38.64 38.536 38.724 0.26408 8 5 2 0 0 0 0.90859 1 17498 17498 1.5923 0.39894 1 476530 17033 8483 10949 10973 19341 19341 0.03361389914402935 LLSRKLKLKKV 11 Unmodified _LLSRKLKLKKV_ 0 0 0 ENST00000492526.5_1_15:59204769-59209171:-|nuORF ENST00000492526.5_1_15:59204769-59209171:-|nuORF ENST00000492526.5_1_15:59204769-59209171:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 663.6515502929688 2 663.471389 1324.92823 NaN NaN NaN NaN NaN NaN NaN 90.229 1 90.294 89.794 90.794 0.064346 0 0 0 1.008 1 46444 46444 0.30703 0 1 17034 8407 10950 10974 19342 19342 0.27875904892471226 LLSSLEMIL 9 Unmodified _LLSSLEMIL_ 0 0 0 ENSG00000138160|ENST00000260731|KIF11 ENSG00000138160|ENST00000260731|KIF11 ENSG00000138160|ENST00000260731|KIF11 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 340.2106018066406 3 340.19995 1017.57802 2.4273 0.00082577 0.5387 0.00018327 2.966 0.001009 340.20035300862884 14.701 0.20349 15.355 15.23 15.434 0.65356 24 20 2 0 0 0 0.10683 1 6567 6567 4.897 4.897 1 406720 17035 3077 10951 10975 19343 19343 0.06993322170944793 LLSTLLPLPK 10 Unmodified _LLSTLLPLPK_ 0 0 0 ENST00000374282.7_1_1:26316015-26317251:-|nuORF ENST00000374282.7_1_1:26316015-26317251:-|nuORF ENST00000374282.7_1_1:26316015-26317251:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.8626708984375 2 547.862818 1093.71108 NaN NaN NaN NaN NaN NaN NaN 81.2 1 81.86 81.36 82.36 0.65998 0 0 0 1.0003 1 37411 37411 1.4819 0 1 17036 7376 10952 10976 19344 19344 0.16797509619073026 LLSVKKKFIVK 11 Unmodified _LLSVKKKFIVK_ 0 0 0 REV__nc|ENSG00000174501|Q5JPF3-3|ANKRD36C REV__nc|ENSG00000174501|Q5JPF3-3|ANKRD36C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 651.9462280273438 2 651.947216 1301.87988 NaN NaN NaN NaN NaN NaN NaN 32.196 1 32.984 32.484 33.484 0.78795 0 0 0 1.0057 1 14559 14559 3.2813 1.4371 1 + 17037 9963 10953 10977 19345 19345 0.24101411252581784 LLSVPGQKN 9 Unmodified _LLSVPGQKN_ 0 0 0 nc|ENSG00000104093|Q8TDJ6|DMXL2;nc|ENSG00000104093|Q8TDJ6-3|DMXL2;ENSG00000104093|ENST00000560891|DMXL2 nc|ENSG00000104093|Q8TDJ6|DMXL2 nc|ENSG00000104093|Q8TDJ6|DMXL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 319.1921691894531 3 319.190553 954.549831 NaN NaN NaN NaN NaN NaN NaN 53.563 1 54.227 53.727 54.727 0.6644 0 0 0 0.91014 1 24495 24495 1.0715 0.10919 1 17038 1425 10954 10978 19346 19346 0.07073760305854648 LLTAGRLF 8 Unmodified _LLTAGRLF_ 0 0 0 ENST00000412797.1_1_1:25907999-25908206:+|nuORF ENST00000412797.1_1_1:25907999-25908206:+|nuORF ENST00000412797.1_1_1:25907999-25908206:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 445.77838134765625 2 445.776545 889.538538 2.8538 0.0012722 -0.35293 -0.00015733 2.5009 0.0011148 445.7762585043172 56.48 0.38161 56.48 56.329 56.711 0 52 29 2 0 0 0 0.23923 2 26013 25965;26013 39.957 0 1 4978600 17039 7684 10955 10979 19347;19348 19348 0.08934983002359331 LLTGMFLLHLF 11 Unmodified _LLTGMFLLHLF_ 0 0 0 REV__nc|ENSG00000235865|Q9NRJ2|GSN-AS1 REV__nc|ENSG00000235865|Q9NRJ2|GSN-AS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 652.8751831054688 2 652.875402 1303.73625 NaN NaN NaN NaN NaN NaN NaN 104.63 1 105.23 104.73 105.73 0.59885 0 0 0 1.0055 1 48333 48333 3.5965 1.7523 1 + 17040 18147 10956 10980 19349 19349 0.09653241149999303 LLTHSGLLI 9 Unmodified _LLTHSGLLI_ 0 0 0 REV__ENSG00000187553|ENST00000651965|CYP26C1 REV__ENSG00000187553|ENST00000651965|CYP26C1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.80487060546875 2 483.80276 965.590967 NaN NaN NaN NaN NaN NaN NaN 43.226 1 43.496 42.996 43.996 0.27021 0 0 0 0.11902 1 19743 19743 38.151 0 1 + 17041 14102 10957 10981 19350 19350 0.1067952134535517 LLTLILLKLI 10 Unmodified _LLTLILLKLI_ 0 0 0 REV__ENST00000530023.5_2_11:31484759-31531097:-|nuORF REV__ENST00000530023.5_2_11:31484759-31531097:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.9219970703125 2 576.920135 1151.82572 NaN NaN NaN NaN NaN NaN NaN 101.17 1 101.48 100.98 101.98 0.31412 0 0 0 1.002 1 46817 46817 0 0 1 + 17042 17131 10958 10982 19351 19351 0.2558781910104244 LLTLLLLLLL 10 Unmodified _LLTLLLLLLL_ 0 0 0 REV__ENSG00000258818|ENST00000555835|RNASE4 REV__ENSG00000258818|ENST00000555835|RNASE4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.1937255859375 2 569.414686 1136.81482 NaN NaN NaN NaN NaN NaN NaN 89.649 1 89.649 89.149 90.149 0 0 0 0 1.0015 1 46886 46886 0.45834 0 1 + 17043 14684 10959 10983 19352 19352 0.2518841672676899 LLTLLRFRRPL 11 Unmodified _LLTLLRFRRPL_ 0 0 0 ENST00000395159.6_2_14:58894112-58894238:-|nuORF ENST00000395159.6_2_14:58894112-58894238:-|nuORF ENST00000395159.6_2_14:58894112-58894238:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 349.9549255371094 4 350.233045 1396.90307 2.5341 0.00088753 -1.0643 -0.00037274 1.4698 0.00051478 350.48377513516346 50.522 0.63303 50.522 50.009 50.642 0 42 30 2 0 0 0 0.13295 1 23003 23003 1.3296 0.63198 1 660080 17044 7549 10960 10984 19353 19353 0.2204985008991116 LLTLLRFRRPL 11 Unmodified _LLTLLRFRRPL_ 0 0 0 ENST00000395159.6_2_14:58894112-58894238:-|nuORF ENST00000395159.6_2_14:58894112-58894238:-|nuORF ENST00000395159.6_2_14:58894112-58894238:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.5317077636719 4 350.233045 1396.90307 2.5471 0.00089207 -1.423 -0.0004984 1.124 0.00039367 350.2322749096711 49.718 0.49474 49.98 49.782 50.277 0.26146 27 19 2 0 0 0 0.13295 1 22778 22778 0.50596 0.09769 1 615740 17045 7549 10960 10984 19354 19354 0.2204985008991116 LLTPRWQL 8 Unmodified _LLTPRWQL_ 0 0 0 ENSG00000179271|ENST00000316939|GADD45GIP1 ENSG00000179271|ENST00000316939|GADD45GIP1 ENSG00000179271|ENST00000316939|GADD45GIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8109741210938 2 513.808377 1025.6022 3.5591 0.0018287 1.34 0.00068851 4.8991 0.0025172 513.8088443644946 44.216 0.39961 44.866 44.775 45.174 0.64998 44 19 3 0 0 0 0.60592 1 20371 20371 13.508 2.3934 1 2055800 17046 5208 10961 10985 19355 19355 0.09042343439477918 LLTSLLGLRPE 11 Unmodified _LLTSLLGLRPE_ 0 0 0 ENSG00000141456|ENST00000572293|PELP1;PELP1|p.P491Lfs*7|1|0.28|ENSG00000141456|chr17:4674620-4674620|G/-|frameshift_variant ENSG00000141456|ENST00000572293|PELP1 ENSG00000141456|ENST00000572293|PELP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 606.373046875 2 606.371538 1210.72852 3.9482 0.0023941 -2.27 -0.0013764 1.6783 0.0010177 606.3699779015877 103.33 0.20534 103.93 103.84 104.05 0.59821 27 15 2 0 0 0 0.84422 1 47853 47853 4.897 2.3985 1 554420 17047 3257 10962 10986 19356 19356 0.13158805154102993 LLTSVLPTP 9 Unmodified _LLTSVLPTP_ 0 0 0 ENST00000494346.1_1_2:198436734-198482697:-|nuORF;ENSG00000162944|ENST00000295049|RFTN2 ENST00000494346.1_1_2:198436734-198482697:-|nuORF ENST00000494346.1_1_2:198436734-198482697:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.1972351074219 3 314.195304 939.564084 NaN NaN NaN NaN NaN NaN NaN 38.385 1 38.649 38.149 39.149 0.26408 0 0 0 0.91059 1 17477 17477 0.96228 0 1 17048 4181 10963 10987 19357 19357 0.09188412734147278 LLTTRNYIF 9 Unmodified _LLTTRNYIF_ 0 0 0 nc|ENSG00000062282|Q96PD7-2|DGAT2;ENSG00000062282|ENST00000228027|DGAT2;ENST00000603865.1_1_11:75507249-75507624:+|nuORF;ENST00000603363.5_1_11:75507249-75511550:+|nuORF nc|ENSG00000062282|Q96PD7-2|DGAT2 nc|ENSG00000062282|Q96PD7-2|DGAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.2212219238281 3 380.885241 1139.63389 2.0055 0.00076388 1.1079 0.00042197 3.1134 0.0011858 380.88547425905836 62.33 0.29346 63.061 62.893 63.186 0.73077 97 46 3 0 0 0 0.83994 2 29009 29009;29065 4.1895 0.21571 1 7090800 17049 653 10964 10988 19358;19359 19358 0.06966291402750358 LLTTRNYIF 9 Unmodified _LLTTRNYIF_ 0 0 0 nc|ENSG00000062282|Q96PD7-2|DGAT2;ENSG00000062282|ENST00000228027|DGAT2;ENST00000603865.1_1_11:75507249-75507624:+|nuORF;ENST00000603363.5_1_11:75507249-75511550:+|nuORF nc|ENSG00000062282|Q96PD7-2|DGAT2 nc|ENSG00000062282|Q96PD7-2|DGAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.8865966796875 3 380.885241 1139.63389 2.6475 0.0010084 1.1133 0.00042403 3.7607 0.0014324 380.8855920041379 63.301 0.34825 63.549 63.349 63.697 0.24803 70 20 4 0 0 0 0.83994 1 28991 28991 4.1895 1.9067 1 15503000 17050 653 10964 10988 19360 19360 0.06966291402750358 LLTTRNYIF 9 Unmodified _LLTTRNYIF_ 0 0 0 nc|ENSG00000062282|Q96PD7-2|DGAT2;ENSG00000062282|ENST00000228027|DGAT2;ENST00000603865.1_1_11:75507249-75507624:+|nuORF;ENST00000603363.5_1_11:75507249-75511550:+|nuORF nc|ENSG00000062282|Q96PD7-2|DGAT2 nc|ENSG00000062282|Q96PD7-2|DGAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.8868408203125 3 380.885241 1139.63389 2.5525 0.0009722 1.2037 0.00045848 3.7562 0.0014307 380.8856157608159 62.695 0.41955 63.353 63.165 63.584 0.65808 86 26 4 0 0 0 0.83994 1 28731 28731 4.1895 0.60244 1 15647000 17051 653 10964 10988 19361 19361 0.06966291402750358 LLTVNSEFVDW 11 Unmodified _LLTVNSEFVDW_ 0 0 0 ENSG00000152582|ENST00000356031|SPEF2;nc|ENSG00000152582|Q9C093-2|SPEF2;nc|ENSG00000152582|Q9C093-4|SPEF2 ENSG00000152582|ENST00000356031|SPEF2 ENSG00000152582|ENST00000356031|SPEF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 661.835205078125 2 661.834985 1321.65542 NaN NaN NaN NaN NaN NaN NaN 69.209 1 69.464 68.964 69.964 0.25443 0 0 0 1.005 1 31697 31697 4.1895 0.59301 1 17052 3755 10965 10989 19362 19362 0.007456316408024577 LLVFAARR 8 Unmodified _LLVFAARR_ 0 0 0 REV__ENSG00000122375|ENST00000241891|OPN4 REV__ENSG00000122375|ENST00000241891|OPN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.3018798828125 2 473.303262 944.59197 NaN NaN NaN NaN NaN NaN NaN 100.97 1 101.56 101.06 102.06 0.59717 0 0 0 0.99035 1 46747 46747 0.79363 0 1 + 17053 11583 10966 10990 19363 19363 0.11745780504884351 LLVFLIYH 8 Unmodified _LLVFLIYH_ 0 0 0 nc|ENSG00000214160|Q92685-2|ALG3;ENSG00000214160|ENST00000397676|ALG3;ENST00000488976.5_1_3:183962900-183966721:-|nuORF;ENST00000482048.1_1_3:183962900-183966716:-|nuORF;ENST00000461415.5_1_3:183962900-183966669:-|nuORF;ENST00000414845.5_1_3:183961725-183966669:-|nuORF nc|ENSG00000214160|Q92685-2|ALG3;ENST00000461415.5_1_3:183962900-183966669:-|nuORF ENST00000461415.5_1_3:183962900-183966669:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.85870361328125 3 339.875906 1016.60589 2.044 0.0006947 -0.022334 -7.5907E-06 2.0217 0.00068711 339.8760241832061 13.576 0.12052 13.883 13.806 13.927 0.30727 16 10 2 0 0 0 0.14304 1 6098 6098 1.8442 1.8442 1 286790 17054 6110;7699 10967 10991 19364 19364 0.09825013213333023 LLVGGWILSRP 11 Unmodified _LLVGGWILSRP_ 0 0 0 LTR13A_dup7|chr1:43138776-43139741:+|1.031771637262758|0.2457820778445239|2.07|491.0|17|2|sense LTR13A_dup7|chr1:43138776-43139741:+|1.031771637262758|0.2457820778445239|2.07|491.0|17|2|sense LTR13A_dup7|chr1:43138776-43139741:+|1.031771637262758|0.2457820778445239|2.07|491.0|17|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.2496032714844 3 404.248403 1209.72338 2.4016 0.00097084 0.93317 0.00037723 3.3348 0.0013481 404.24869936792953 57.104 0.44711 57.882 57.656 58.103 0.77786 121 45 3 0 0 0 0.84832 1 26102 26102 4.7159 0.18705 1 7043900 17055 9492 10968 10992 19365 19365 0.12690546082126275 LLVIEKKH 8 Unmodified _LLVIEKKH_ 0 0 0 NPHP1|p.P186H|1|0.09|ENSG00000144061|chr2:110168519-110168519|G/T|missense_variant NPHP1|p.P186H|1|0.09|ENSG00000144061|chr2:110168519-110168519|G/T|missense_variant NPHP1|p.P186H|1|0.09|ENSG00000144061|chr2:110168519-110168519|G/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.8204040527344 2 490.318577 978.622602 3.2409 0.0015891 0.77357 0.00037929 4.0145 0.0019684 490.318964131473 16.355 0.32505 17.013 16.824 17.149 0.65798 64 37 2 0 0 0 0.7471 2 7314 7314;7381 2.3027 0 1 53688 17056 9898 10969 10993 19366;19367 19366 0.13243514099281128 LLVKGTIPVEI 11 Unmodified _LLVKGTIPVEI_ 0 0 0 ENSG00000205038|ENST00000378402|PKHD1L1 ENSG00000205038|ENST00000378402|PKHD1L1 ENSG00000205038|ENST00000378402|PKHD1L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.380615234375 2 591.378832 1180.74311 NaN NaN NaN NaN NaN NaN NaN 92.96 1 92.96 92.46 93.46 0 0 0 0 1.0059 1 49523 49523 2.9952 0 1 17057 6042 10970 10994 19368 19368 0.15996877302245593 LLVKILKLII 10 Unmodified _LLVKILKLII_ 0 0 0 ENSG00000198700|ENST00000361565|IPO9 ENSG00000198700|ENST00000361565|IPO9 ENSG00000198700|ENST00000361565|IPO9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 583.4365234375 2 583.435953 1164.85735 NaN NaN NaN NaN NaN NaN NaN 97.814 1 97.885 97.385 98.385 0.070648 0 0 0 1.002 1 52410 52410 0 0 1 17058 5917 10971 10995 19369 19369 0.2815181185499114 LLVKLQRLMHR 11 Unmodified _LLVKLQRLMHR_ 0 0 0 ENSG00000198286|ENST00000396946|CARD11 ENSG00000198286|ENST00000396946|CARD11 ENSG00000198286|ENST00000396946|CARD11 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.2339782714844 4 352.474875 1405.87039 2.5343 0.00089329 0.39762 0.00014015 2.9319 0.0010334 352.7255596012505 34.543 0.25962 34.797 34.646 34.906 0.25389 18 10 3 0 0 0 0.13295 1 15782 15782 0.45452 0.046251 1 750230 17059 5880 10972 10996 19370 19370 0.1836931969539819 LLVKMKKMMMQ 11 Unmodified _LLVKMKKMMMQ_ 0 0 0 REV__ENST00000323557.11_1_6:52935885-52938333:+|nuORF REV__ENST00000323557.11_1_6:52935885-52938333:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 460.89276123046875 3 460.92478 1379.75251 NaN NaN NaN NaN NaN NaN NaN 66.972 1 66.972 66.472 67.472 0 0 0 0 1.0079 1 32045 32045 0.45452 0 1 + 17060 15335 10973 10997 19371 19371 0.07782539728577831 LLVKVKVLRK 10 Unmodified _LLVKVKVLRK_ 0 0 0 REV__nc|ENSG00000032219|P29374-3|ARID4A REV__nc|ENSG00000032219|P29374-3|ARID4A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.4322509765625 2 598.434276 1194.854 NaN NaN NaN NaN NaN NaN NaN 78.523 1 78.776 78.276 79.276 0.25335 0 0 0 1.002 1 36160 36160 0 0 1 + 17061 10292 10974 10998 19372 19372 0.2643656180096059 LLVKVKVLRKV 11 Unmodified _LLVKVKVLRKV_ 0 0 0 REV__nc|ENSG00000032219|P29374-3|ARID4A REV__nc|ENSG00000032219|P29374-3|ARID4A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.9432373046875 2 647.968483 1293.92241 NaN NaN NaN NaN NaN NaN NaN 70.107 1 70.107 69.607 70.607 0 0 0 0 1.0082 1 33961 33961 0 0 1 + 17062 10292 10975 10999 19373 19373 0.28720806380806607 LLVKVKVLRKV 11 Unmodified _LLVKVKVLRKV_ 0 0 0 REV__nc|ENSG00000032219|P29374-3|ARID4A REV__nc|ENSG00000032219|P29374-3|ARID4A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 647.9664306640625 2 647.968483 1293.92241 NaN NaN NaN NaN NaN NaN NaN 100.74 1 100.8 100.3 101.3 0.059723 0 0 0 1.0082 1 54685 54685 0 0 1 + 17063 10292 10975 10999 19374 19374 0.28720806380806607 LLVLEGPKWLQ 11 Unmodified _LLVLEGPKWLQ_ 0 0 0 nc|ENSG00000142973|P13584|CYP4B1;ENSG00000142973|ENST00000371923|CYP4B1 nc|ENSG00000142973|P13584|CYP4B1 nc|ENSG00000142973|P13584|CYP4B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 324.6993103027344 4 324.698504 1294.76491 2.2072 0.00071669 0.96953 0.00031481 3.1768 0.0010315 324.6987479153183 44.601 0.78424 45.422 44.899 45.683 0.82075 54 40 2 0 0 0 0.91168 1 20373 20373 1.0136 0.55906 1 694530 17064 3337 10976 11000 19375 19375 0.12931682050816562 LLVLHRLILLL 11 Unmodified _LLVLHRLILLL_ 0 0 0 REV__ENST00000230640.9_1_5:54635965-54636001:+|nuORF REV__ENST00000230640.9_1_5:54635965-54636001:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 439.5301818847656 3 439.311114 1314.91151 NaN NaN NaN NaN NaN NaN NaN 68.002 1 68.704 68.204 69.204 0.70218 0 0 0 1.0082 1 32390 32390 0.094841 0 1 + 17065 14856 10977 11001 19376 19376 0.26665404006553217 LLVLIAKPLRK 11 Unmodified _LLVLIAKPLRK_ 0 0 0 REV__ENSG00000132005|ENST00000254325|RFX1 REV__ENSG00000132005|ENST00000254325|RFX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.4461669921875 2 632.447383 1262.88021 NaN NaN NaN NaN NaN NaN NaN 36.995 1 37.788 37.288 38.288 0.79342 0 0 0 1.0034 1 16763 16763 6.2058 0 1 + 17066 11874 10978 11002 19377 19377 0.2592883097242975 LLVLLILFFIK 11 Unmodified _LLVLLILFFIK_ 0 0 0 L1CAM|p.C1141F|1|0.12|ENSG00000198910|chrX:153863918-153863918|C/A|missense_variant L1CAM|p.C1141F|1|0.12|ENSG00000198910|chrX:153863918-153863918|C/A|missense_variant L1CAM|p.C1141F|1|0.12|ENSG00000198910|chrX:153863918-153863918|C/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 666.4576416015625 2 666.456885 1330.89922 NaN NaN NaN NaN NaN NaN NaN 64.843 1 65.091 64.591 65.591 0.24803 0 0 0 1.0082 1 29708 29708 0 0 1 17067 9423 10979 11003 19378 19378 0.24700367543505308 LLVLLLLLLL 10 Unmodified _LLVLLLLLLL_ 0 0 0 REV__ENST00000483836.1_1_22:50500014-50511179:-|nuORF REV__ENST00000483836.1_1_22:50500014-50511179:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.42919921875 2 568.425054 1134.83555 NaN NaN NaN NaN NaN NaN NaN 91.056 1 91.131 90.631 91.631 0.075279 0 0 0 0.99983 1 47080 47080 1.8442 0 1 + 17068 10832 10980 11004 19379 19379 0.273530071064215 LLVLLLLLLL 10 Unmodified _LLVLLLLLLL_ 0 0 0 REV__ENST00000483836.1_1_22:50500014-50511179:-|nuORF REV__ENST00000483836.1_1_22:50500014-50511179:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.4269409179688 2 568.425054 1134.83555 NaN NaN NaN NaN NaN NaN NaN 99.368 1 99.673 99.173 100.17 0.30532 0 0 0 0.99983 1 45898 45898 1.8442 0 1 + 17069 10832 10980 11004 19380 19380 0.273530071064215 LLVLLWTGLY 10 Unmodified _LLVLLWTGLY_ 0 0 0 REV__ENSG00000023839|ENST00000647814|ABCC2 REV__ENSG00000023839|ENST00000647814|ABCC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 595.8636474609375 2 595.862818 1189.71108 NaN NaN NaN NaN NaN NaN NaN 31.845 1 32.633 32.133 33.133 0.78795 0 0 0 0.99983 1 14390 14390 1.8442 0 1 + 17070 10272 10981 11005 19381 19381 0.12381509619081044 LLVLRYVAVWV 11 Unmodified _LLVLRYVAVWV_ 0 0 0 ENSG00000184986|ENST00000392519|TMEM121 ENSG00000184986|ENST00000392519|TMEM121 ENSG00000184986|ENST00000392519|TMEM121 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 665.914306640625 2 665.915916 1329.81728 NaN NaN NaN NaN NaN NaN NaN 51.894 1 52.705 52.205 53.205 0.81065 0 0 0 1.008 1 23640 23640 0.35063 0 1 17071 5475 10982 11006 19382 19382 0.16556265184385666 LLVLVLRVRT 10 Unmodified _LLVLVLRVRT_ 0 0 0 ENST00000371959.7_1_X:112021633-112021759:-|nuORF ENST00000371959.7_1_X:112021633-112021759:-|nuORF ENST00000371959.7_1_X:112021633-112021759:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 591.4104614257812 2 591.408258 1180.80196 NaN NaN NaN NaN NaN NaN NaN 108.25 1 108.85 108.35 109.35 0.6019 0 0 0 1.0015 1 49948 49948 0.45834 0.057624 1 17072 7329 10983 11007 19383 19383 0.21879398387204674 LLVLVLVLLV 10 Unmodified _LLVLVLVLLV_ 0 0 0 nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.400146484375 2 547.401579 1092.7886 NaN NaN NaN NaN NaN NaN NaN 91.484 1 91.736 91.236 92.236 0.25163 0 0 0 1.002 1 42066 42066 0 0 1 17073 9630 10984 11008 19384 19384 0.24592147555244992 LLVLWVRAVP 10 Unmodified _LLVLWVRAVP_ 0 0 0 REV__ENSG00000146678|ENST00000275525|IGFBP1 REV__ENSG00000146678|ENST00000275525|IGFBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.2541809082031 3 389.253376 1164.7383 2.5393 0.00098844 1.1663 0.00045397 3.7056 0.0014424 389.25375991511527 46.072 1.0642 46.072 45.494 46.558 0 104 53 2 0 0 0 0.94134 2 21153 21153;21233 0.62683 0.35781 1 1080500 + 17074 12480 10985 11009 19385;19386 19385 0.16252037950107479 LLVLWVRAVP 10 Unmodified _LLVLWVRAVP_ 0 0 0 REV__ENSG00000146678|ENST00000275525|IGFBP1 REV__ENSG00000146678|ENST00000275525|IGFBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.2547302246094 3 389.253376 1164.7383 2.4886 0.00096871 1.5409 0.00059979 4.0295 0.0015685 389.25379269826954 46.693 0.40845 46.693 46.558 46.967 0 26 14 2 0 0 0 0.94134 1 21355 21355 0.62683 0.39098 1 520960 + 17075 12480 10985 11009 19387 19387 0.16252037950107479 LLVLWVRAVP 10 Unmodified _LLVLWVRAVP_ 0 0 0 REV__ENSG00000146678|ENST00000275525|IGFBP1 REV__ENSG00000146678|ENST00000275525|IGFBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.5891418457031 3 389.253376 1164.7383 3.0069 0.0011704 0.78595 0.00030593 3.7928 0.0014764 389.25361573458446 40.966 0.50678 41.611 41.455 41.962 0.64451 112 48 4 0 0 0 0.93584 1 18775 18775 1.7423 1.7423 1 44386000 + 17076 12480 10985 11009 19388 19388 0.16252037950107479 LLVMKKRYV 9 Unmodified _LLVMKKRYV_ 0 0 0 REV__ENST00000471759.5_1_1:76255691-76255869:+|nuORF REV__ENST00000471759.5_1_1:76255691-76255869:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 383.9112548828125 3 383.910733 1148.71037 2.6012 0.00099863 -0.88522 -0.00033984 1.716 0.00065878 383.91002261113096 71.447 0.35376 71.705 71.434 71.788 0.25785 56 27 3 0 0 0 1.178 1 32715 32715 1.0715 0.29493 1 994710 + 17077 16607 10986 11010 19389 19389 0.141963916983741 LLVMKLLHGK 10 Unmodified _LLVMKLLHGK_ 0 0 0 REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 384.58251953125 3 384.582617 1150.72602 2.7544 0.0010593 -1.3979 -0.00053761 1.3565 0.00052169 384.582062582513 48.7 0.23061 48.7 48.554 48.785 0 21 13 2 0 0 0 0.90196 1 22317 22317 1.7423 0 1 754580 + 17078 15032 10987 11011 19390 19390 0.1566867821543383 LLVMKLLHGK 10 Unmodified _LLVMKLLHGK_ 0 0 0 REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.3717651367188 2 576.370287 1150.72602 3.5426 0.0020418 -1.2835 -0.00073978 2.259 0.001302 576.3694211250403 32.638 0.1953 32.893 32.78 32.975 0.25452 18 9 4 0 0 0 0.93713 1 14875 14875 1.4819 0 1 2686300 + 17079 15032 10987 11011 19391 19391 0.1566867821543383 LLVMKLLHGK 10 Unmodified _LLVMKLLHGK_ 0 0 0 REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.3716430664062 2 576.370287 1150.72602 3.4643 0.0019967 -1.2133 -0.0006993 2.251 0.0012974 576.3694973799713 32.969 0.40714 33.222 33.018 33.425 0.25389 27 17 2 0 0 0 0.93713 1 15045 15045 1.4819 1.0812 1 1229800 + 17080 15032 10987 11011 19392 19392 0.1566867821543383 LLVMKLLHGK 10 Unmodified _LLVMKLLHGK_ 0 0 0 REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.3720703125 2 576.370287 1150.72602 3.2883 0.0018953 -1.3211 -0.00076146 1.9672 0.0011338 576.3693681202121 35.484 0.48246 35.74 35.537 36.02 0.25524 46 16 3 0 0 0 0.93713 3 16127 16127;16195;16254 1.4819 1.0812 1 1152400 + 17081 15032 10987 11011 19393;19394;19395 19393 0.1566867821543383 LLVMKLLHGK 10 Unmodified _LLVMKLLHGK_ 0 0 0 REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.3715209960938 2 576.370287 1150.72602 NaN NaN NaN NaN NaN NaN NaN 34.975 1 35.23 34.73 35.73 0.25524 0 0 0 1.0003 1 15937 15937 1.4819 0 1 + 17082 15032 10987 11011 19396 19396 0.1566867821543383 LLVMKLLHGK 10 Unmodified _LLVMKLLHGK_ 0 0 0 REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.3716430664062 2 576.370287 1150.72602 NaN NaN NaN NaN NaN NaN NaN 35.185 1 35.44 34.94 35.94 0.25524 0 0 0 1.0003 1 16033 16033 1.4819 0 1 + 17083 15032 10987 11011 19397 19397 0.1566867821543383 LLVMKLLHGK 10 Unmodified _LLVMKLLHGK_ 0 0 0 REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 384.583984375 3 384.582617 1150.72602 2.7571 0.0010603 -1.2019 -0.00046224 1.5552 0.00059809 384.58199805932907 31.666 0.33388 32.283 32.095 32.429 0.61737 95 29 4 0 0 0 0.90196 3 14473 14473;14514;14565 1.7423 1.7423 1 10559000 + 17084 15032 10987 11011 19398;19399;19400 19398 0.1566867821543383 LLVMKLLHGK 10 Unmodified _LLVMKLLHGK_ 0 0 0 REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 576.370849609375 2 576.370287 1150.72602 3.6838 0.0021232 -0.95787 -0.00055209 2.7259 0.0015712 576.369407580096 31.62 0.10191 32.238 32.151 32.252 0.61736 20 7 3 0 0 0 0.93713 1 14481 14481 1.4819 0 1 1895300 + 17085 15032 10987 11011 19401 19401 0.1566867821543383 LLVMKLLHGK 10 Unmodified _LLVMKLLHGK_ 0 0 0 REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 384.5832824707031 3 384.582617 1150.72602 2.8111 0.0010811 -1.11 -0.00042689 1.7011 0.00065422 384.58205562561005 35.17 0.57212 35.793 35.591 36.163 0.62294 59 22 4 0 0 0 0.90196 2 16143 16143;16201 1.7423 1.7423 1 4168200 + 17086 15032 10987 11011 19402;19403 19402 0.1566867821543383 LLVMKLLHGK 10 Unmodified _LLVMKLLHGK_ 0 0 0 REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 576.370287 1150.72602 3.6359 0.0020956 -2.8457 -0.0016402 0.79017 0.00045543 576.3681076235401 32.68 0.23087 32.68 32.611 32.842 0 -0.1432 -0.0013386 NaN 1.4819 23 16 2 NaN NaN NaN NaN 0 NaN NaN 0 885770 + 17087 15032 10987 11011 0.1566867821543383 LLVMKLLHGK 10 Unmodified _LLVMKLLHGK_ 0 0 0 REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 384.582617 1150.72602 2.7544 0.0010593 -1.3979 -0.00053761 1.3565 0.00052169 384.582062582513 48.7 0.23061 48.7 48.554 48.785 0 0 0 NaN 1.7423 21 13 2 NaN NaN NaN NaN 0 NaN NaN 0 754580 + 17088 15032 10987 11011 0.1566867821543383 LLVMKLLHGK 10 Unmodified _LLVMKLLHGK_ 0 0 0 REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF REV__ENST00000265339.6_1_5:133710138-133716421:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 576.370287 1150.72602 3.5426 0.0020418 -1.2835 -0.00073978 2.259 0.001302 576.3694211250403 32.638 0.1953 32.893 32.78 32.975 0.25452 0.069436 0.00046223 NaN 1.4819 18 9 4 NaN NaN NaN NaN 0 NaN NaN 0 2686300 + 17089 15032 10987 11011 0.1566867821543383 LLVPFLLL 8 Unmodified _LLVPFLLL_ 0 0 0 REV__nc|ENSG00000184999|Q63ZE4-2|SLC22A10 REV__nc|ENSG00000184999|Q63ZE4-2|SLC22A10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.3179016113281 2 464.317515 926.620476 NaN NaN NaN NaN NaN NaN NaN 43.036 1 43.306 42.806 43.806 0.27021 0 0 0 0.2097 1 19645 19645 41.817 0 1 + 17090 18074 10988 11012 19404 19404 0.15423085361476296 LLVRRRFISLK 11 Unmodified _LLVRRRFISLK_ 0 0 0 ENSG00000066279|ENST00000367409|ASPM ENSG00000066279|ENST00000367409|ASPM ENSG00000066279|ENST00000367409|ASPM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 700.96337890625 2 700.964263 1399.91397 NaN NaN NaN NaN NaN NaN NaN 81.31 1 81.558 81.058 82.058 0.24803 0 0 0 1.008 1 37437 37437 0.35063 0 1 17091 703 10989 11013 19405 19405 0.2300125246420066 LLVSPTPSRLL 11 Unmodified _LLVSPTPSRLL_ 0 0 0 ENST00000358015.7_1_9:110045607-110045667:+|nuORF ENST00000358015.7_1_9:110045607-110045667:+|nuORF ENST00000358015.7_1_9:110045607-110045667:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.2515869140625 3 399.251813 1194.73361 NaN NaN NaN NaN NaN NaN NaN 70.612 1 71.274 70.774 71.774 0.66209 0 0 0 1.0062 1 32365 32365 2.6312 0 1 17092 7185 10990 11014 19406 19406 0.14403109016711824 LLVTLLILGP 10 Unmodified _LLVTLLILGP_ 0 0 0 REV__ENSG00000184350|ENST00000389832|MRGPRE REV__ENSG00000184350|ENST00000389832|MRGPRE MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.36279296875 2 526.359911 1050.70527 NaN NaN NaN NaN NaN NaN NaN 32.826 1 33.08 32.58 33.58 0.25389 0 0 0 1.0015 1 14949 14949 0.45834 0 1 + 17093 13970 10991 11015 19407 19407 0.18194411107424457 LLVVRRLRVPK 11 Unmodified _LLVVRRLRVPK_ 0 0 0 nc|ENSG00000032444|Q8IY17-5|PNPLA6;nc|ENSG00000032444|Q8IY17-2|PNPLA6;ENSG00000032444|ENST00000600737|PNPLA6;nc|ENSG00000032444|Q8IY17-3|PNPLA6;nc|ENSG00000032444|Q8IY17|PNPLA6 nc|ENSG00000032444|Q8IY17-5|PNPLA6 nc|ENSG00000032444|Q8IY17-5|PNPLA6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 674.9680786132812 2 674.966806 1347.91906 NaN NaN NaN NaN NaN NaN NaN 33.293 1 33.293 32.793 33.793 0 0 0 0 1.0072 1 15083 15083 1.3295 0 1 17094 498 10992 11016 19408 19408 0.25901556326834907 LLVVVPVSLL 10 Unmodified _LLVVVPVSLL_ 0 0 0 nc|ENSG00000158714|Q9P0V8-2|SLAMF8;ENSG00000158714|ENST00000289707|SLAMF8 nc|ENSG00000158714|Q9P0V8-2|SLAMF8 nc|ENSG00000158714|Q9P0V8-2|SLAMF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.2443542480469 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 29.216 1 29.216 28.716 29.716 0 0 0 0 1.0001 1 13184 13184 0.69767 0 1 17095 3996 10993 11017 19409 19409 0.18194411107424457 LLVWLLVLRLP 11 Unmodified _LLVWLLVLRLP_ 0 0 0 nc|ENSG00000154305|Q5JRA6-2|MIA3;ENSG00000154305|ENST00000344922|MIA3;nc|ENSG00000154305|Q5JRA6-3|MIA3;ENST00000470521.1_1_1:222791452-222819114:+|nuORF nc|ENSG00000154305|Q5JRA6-2|MIA3 nc|ENSG00000154305|Q5JRA6-2|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.7298583984375 4 334.478518 1333.88496 2.4367 0.00081503 -0.65722 -0.00021983 1.7795 0.0005952 334.7288112469053 34.106 0.4855 34.359 33.932 34.418 0.25389 39 23 2 0 0 0 0.91489 1 15472 15472 0.094841 0 1 2581100 17096 3818 10994 11018 19410 19410 0.23137715115194624 LLWFINLLYS 10 Unmodified _LLWFINLLYS_ 0 0 0 REV__ENST00000397195.9_1_17:2497244-2541483:+|nuORF REV__ENST00000397195.9_1_17:2497244-2541483:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.3614501953125 2 641.365724 1280.7169 NaN NaN NaN NaN NaN NaN NaN 84.734 1 84.734 84.234 85.234 0 0 0 0 1.0001 1 42964 42964 1.6526 0 1 + 17097 16014 10995 11019 19411 19411 0.08776608130756358 LLWKNWRLK 9 Unmodified _LLWKNWRLK_ 0 0 0 ENST00000557933.5_1_19:11240172-11241989:+|nuORF;nc|ENSG00000130164|P01130-2|LDLR;nc|ENSG00000130164|P01130-3|LDLR;nc|ENSG00000130164|P01130-6|LDLR;nc|ENSG00000130164|P01130-4|LDLR;nc|ENSG00000130164|P01130-5|LDLR;ENSG00000130164|ENST00000558518|LDLR ENST00000557933.5_1_19:11240172-11241989:+|nuORF ENST00000557933.5_1_19:11240172-11241989:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 419.5937194824219 3 419.592392 1255.75535 3.1615 0.0013265 0.0277 1.1623E-05 3.1892 0.0013382 419.592318563839 87.799 0.6163 88.477 88.239 88.856 0.67818 69 30 4 0 0 0 1.0755 1 40443 40443 2.7352 0.10396 1 1698700 17098 2576 10996 11020 19412 19412 0.13769958555917583 LLWKQVTHL 9 Unmodified _LLWKQVTHL_ 0 0 0 REV__ENST00000428886.6_1_11:6638445-6640631:-|nuORF REV__ENST00000428886.6_1_11:6638445-6640631:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.8988342285156 3 379.897481 1136.67061 2.6177 0.00099446 0.7225 0.00027448 3.3402 0.0012689 379.89772234926966 81.432 0.23227 81.68 81.551 81.783 0.24803 21 12 2 0 0 0 1.0894 1 37491 37491 2.4985 1.427 1 439120 + 17099 13227 10997 11021 19413 19413 0.10774588019307885 LLWKQVTHL 9 Unmodified _LLWKQVTHL_ 0 0 0 REV__ENST00000428886.6_1_11:6638445-6640631:-|nuORF REV__ENST00000428886.6_1_11:6638445-6640631:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.8992614746094 3 379.897481 1136.67061 2.8014 0.0010642 0.92012 0.00034955 3.7215 0.0014138 379.89787751666626 80.749 0.47339 81.409 81.259 81.733 0.65998 35 23 2 0 0 0 1.0894 1 37198 37198 2.4985 0.59211 1 665780 + 17100 13227 10997 11021 19414 19414 0.10774588019307885 LLWLHSLL 8 Unmodified _LLWLHSLL_ 0 0 0 ENSG00000165548|ENST00000298351|TMEM63C ENSG00000165548|ENST00000298351|TMEM63C ENSG00000165548|ENST00000298351|TMEM63C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.20166015625 3 332.207656 993.601138 NaN NaN NaN NaN NaN NaN NaN 46.12 1 46.771 46.271 47.271 0.65104 0 0 0 0.99035 1 21126 21126 3.9444 0.94915 1 17101 4408 10998 11022 19415 19415 0.10408129070572159 LLWLQSKIH 9 Unmodified _LLWLQSKIH_ 0 0 0 REV__ENSG00000146409|ENST00000275227|SLC18B1 REV__ENSG00000146409|ENST00000275227|SLC18B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.8991394042969 3 379.897481 1136.67061 2.5738 0.00097777 1.0558 0.00040109 3.6296 0.0013789 379.89792633420706 80.688 0.44064 80.937 80.81 81.251 0.24947 46 27 2 0 0 0 1.178 1 37169 37169 1.0715 0.3738 1 514570 + 17102 12474 10999 11023 19416 19416 0.10774588019307885 LLWLQSKIH 9 Unmodified _LLWLQSKIH_ 0 0 0 REV__ENSG00000146409|ENST00000275227|SLC18B1 REV__ENSG00000146409|ENST00000275227|SLC18B1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 379.897481 1136.67061 2.5738 0.00097777 1.0558 0.00040109 3.6296 0.0013789 379.89792633420706 80.688 0.44064 80.937 80.81 81.251 0.24947 -0.083806 0.00014466 NaN 1.0715 46 27 2 NaN NaN NaN NaN 0 NaN NaN 0 514570 + 17103 12474 10999 11023 0.10774588019307885 LLWLQSKIH 9 Unmodified _LLWLQSKIH_ 0 0 0 REV__ENSG00000146409|ENST00000275227|SLC18B1 REV__ENSG00000146409|ENST00000275227|SLC18B1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 379.897481 1136.67061 2.7911 0.0010603 0.25075 9.5261E-05 3.0419 0.0011556 379.89761744743987 80.445 0.15243 81.105 81.001 81.154 0.65998 0.083806 -0.00077284 NaN 1.0715 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 344310 + 17104 12474 10999 11023 0.10774588019307885 LLWRVNVP 8 Unmodified _LLWRVNVP_ 0 0 0 REV__ENST00000509678.1_1_4:54915115-54930467:-|nuORF REV__ENST00000509678.1_1_4:54915115-54930467:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 997.6082153320312 1 996.598912 995.591636 3.5371 0.003525 1.0248 0.0010213 4.5618 0.0045463 996.5997413291583 51.84 0.33364 51.84 51.692 52.026 0 47 25 2 0 0 0 0.7441 1 23699 23699 2.3027 0.24298 1 1995600 + 17105 11167 11000 11024 19417 19417 0.09366360785031702 LLWWALLL 8 Unmodified _LLWWALLL_ 0 0 0 ENSG00000129009|ENST00000249842|ISLR ENSG00000129009|ENST00000249842|ISLR ENSG00000129009|ENST00000249842|ISLR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.3237915039062 2 514.320589 1026.62662 NaN NaN NaN NaN NaN NaN NaN 30.013 1 30.271 29.771 30.771 0.25804 0 0 0 0.91812 1 13659 13659 11.114 0 1 17106 2536 11001 11025 19418 19418 0.1143760359298085 LLYAYMDNMD 10 Unmodified _LLYAYMDNMD_ 0 0 0 REV__ENSG00000161714|ENST00000619929|PLCD3 REV__ENSG00000161714|ENST00000619929|PLCD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 624.7650146484375 2 624.7674 1247.52025 NaN NaN NaN NaN NaN NaN NaN 71.05 1 71.308 70.808 71.808 0.25786 0 0 0 1.0003 1 32543 32543 1.4819 0.28856 1 + 17107 12919 11002 11026 19419 19419 -0.09361307816834596 LLYLKRLKIII 11 Unmodified _LLYLKRLKIII_ 0 0 0 ENSG00000131724|ENST00000371666|IL13RA1 ENSG00000131724|ENST00000371666|IL13RA1 ENSG00000131724|ENST00000371666|IL13RA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 693.6873168945312 2 693.483966 1384.95338 NaN NaN NaN NaN NaN NaN NaN 87.292 1 87.332 86.832 87.832 0.039955 0 0 0 1.0082 1 44153 44153 0 0 1 17108 2669 11003 11027 19420 19420 0.27629959695082107 LLYYQKMLQWH 11 Unmodified _LLYYQKMLQWH_ 0 0 0 REV__ENST00000547182.1_1_12:49954113-49956838:-|nuORF REV__ENST00000547182.1_1_12:49954113-49956838:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 761.8975219726562 2 761.897397 1521.78024 NaN NaN NaN NaN NaN NaN NaN 87.415 1 87.455 86.955 87.955 0.039955 0 0 0 1.008 1 44251 44251 0.35063 0 1 + 17109 14114 11004 11028 19421 19421 0.04022225576341043 LMADVVYCPH 10 Unmodified _LMADVVYCPH_ 0 0 0 ENST00000427378.1_1_7:134813580-134814228:+|nuORF ENST00000427378.1_1_7:134813580-134814228:+|nuORF ENST00000427378.1_1_7:134813580-134814228:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 574.2686157226562 2 574.26737 1146.52019 3.6746 0.0021102 -0.81352 -0.00046718 2.861 0.001643 574.2671898663275 67.077 0.46048 67.735 67.475 67.936 0.65777 72 25 4 0 0 0 0.51828 1 30709 30709 20.454 2.3186 1 4203800 17110 7817 11005 11029 19422 19422 -0.0472126302615834 LMAGRPWPGP 10 Unmodified _LMAGRPWPGP_ 0 0 0 REV__ENST00000590056.1_1_18:61033898-61034411:-|nuORF REV__ENST00000590056.1_1_18:61033898-61034411:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.2843627929688 2 541.284211 1080.55387 NaN NaN NaN NaN NaN NaN NaN 53.575 1 53.575 53.075 54.075 0 0 0 0 0.98866 1 24551 24551 7.2892 0.56607 1 + 17111 17550 11006 11030 19423 19423 0.016815265279092273 LMAPSAMTLP 10 Unmodified _LMAPSAMTLP_ 0 0 0 REV__ENSG00000116128|ENST00000234739|BCL9 REV__ENSG00000116128|ENST00000234739|BCL9 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.783447265625 2 516.266838 1030.51912 3.6286 0.0018733 1.3176 0.00068025 4.9462 0.0025536 516.266956863527 48.169 0.081928 48.431 48.375 48.457 0.26209 4 2 2 0 0 0 0.12676 1 22007 22007 6.2058 1.8765 1 242410 + 17112 11395 11007 11031 19424 19424 0.005085226049459379 LMAPSAMTLP 10 Unmodified _LMAPSAMTLP_ 0 0 0 REV__ENSG00000116128|ENST00000234739|BCL9 REV__ENSG00000116128|ENST00000234739|BCL9 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 516.266838 1030.51912 3.2372 0.0016712 1.0482 0.00054115 4.2854 0.0022124 516.2671166613785 48.271 0.15004 48.271 48.139 48.289 0 -0.07994 -4.8263E-05 NaN 6.2058 9 5 2 NaN NaN NaN NaN 0 NaN NaN 0 450310 + 17113 11395 11007 11031 0.005085226049459379 LMCFSRVYE 9 Unmodified _LMCFSRVYE_ 0 0 0 REV__nc|ENSG00000160321|O43345-2|ZNF208;REV__ENSG00000269067|ENST00000594710|ZNF728 REV__ENSG00000269067|ENST00000594710|ZNF728 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.2694091796875 2 574.26737 1146.52019 3.6087 0.0020723 -0.75638 -0.00043436 2.8523 0.001638 574.2673553398726 67.673 0.32457 67.925 67.779 68.103 0.25227 60 17 5 0 0 0 0.10169 1 31011 31011 32.305 1.6689 1 4701800 + 17114 12875;14713 11008 11032 19425 19425 -0.0472126302615834 LMCFSRVYE 9 Unmodified _LMCFSRVYE_ 0 0 0 REV__nc|ENSG00000160321|O43345-2|ZNF208;REV__ENSG00000269067|ENST00000594710|ZNF728 REV__ENSG00000269067|ENST00000594710|ZNF728 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 574.27001953125 2 574.26737 1146.52019 3.6746 0.0021102 -0.81352 -0.00046718 2.861 0.001643 574.2671898663275 67.077 0.46048 67.735 67.475 67.936 0.65777 72 25 4 0 0 0 0.16976 1 30799 30799 25.399 3.6527 1 4203800 + 17115 12875;14713 11008 11032 19426 19426 -0.0472126302615834 LMDFCRGM 8 Unmodified _LMDFCRGM_ 0 0 0 ENST00000495836.1_1_2:69771529-69870271:-|nuORF ENST00000495836.1_1_2:69771529-69870271:-|nuORF ENST00000495836.1_1_2:69771529-69870271:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.7105407714844 2 486.708633 971.402714 2.9769 0.0014489 0.84986 0.00041363 3.8268 0.0018625 486.7089718261159 77.869 0.47942 78.123 77.991 78.471 0.25334 46 27 2 0 0 0 0.70799 1 35901 35901 5.2307 0 1 503100 17116 8438 11009 11033 19427 19427 -0.08413119166596061 LMDKKRGK 8 Unmodified _LMDKKRGK_ 0 0 0 REV__OldhAT1_dup1108|chr4:55076006-55076070:+|1.7830574745460577|0.4104040692677234|2.12|540.0|4|3|sense REV__OldhAT1_dup1108|chr4:55076006-55076070:+|1.7830574745460577|0.4104040692677234|2.12|540.0|4|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 488.29095458984375 2 488.292037 974.56952 NaN NaN NaN NaN NaN NaN NaN 103.18 1 103.18 102.68 103.68 0 0 0 0 0.99035 1 56893 56893 4.756 2.4533 1 + 17117 18191 11010 11034 19428 19428 0.08121813044976989 LMDLRQAC 8 Unmodified _LMDLRQAC_ 0 0 0 ENSG00000131941|ENST00000254260|RHPN2 ENSG00000131941|ENST00000254260|RHPN2 ENSG00000131941|ENST00000254260|RHPN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 317.1577453613281 3 317.157979 948.452107 NaN NaN NaN NaN NaN NaN NaN 53.652 1 53.652 53.152 54.152 0 0 0 0 0.99035 1 24592 24592 1.6526 0 1 17118 2676 11011 11035 19429 19429 -0.024180878861557176 LMDMQVRG 8 Unmodified _LMDMQVRG_ 0 0 0 REV__ENSG00000062822|ENST00000440232|POLD1 REV__ENSG00000062822|ENST00000440232|POLD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 317.1580810546875 3 317.157979 948.452107 NaN NaN NaN NaN NaN NaN NaN 52.986 1 53.65 53.15 54.15 0.6644 0 0 0 0.99035 1 24232 24232 3.5965 1.7523 1 + 17119 10402 11012 11036 19430 19430 -0.024180878861329802 LMFAQTPEDEM 11 Unmodified _LMFAQTPEDEM_ 0 0 0 REV__nc|ENSG00000137337|Q14676-4|MDC1 REV__nc|ENSG00000137337|Q14676-4|MDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.6465148925781 4 328.645345 1310.55227 2.3572 0.00077468 0.059419 1.9528E-05 2.4166 0.00079421 328.6456299465782 26.812 0.38543 27.076 26.924 27.309 0.26489 39 24 2 0 0 0 0.91028 1 12169 12169 1.4551 0.12547 1 321760 + 17120 12107 11013 11037 19431 19431 -0.09057940133675402 LMGGSMCS 8 Unmodified _LMGGSMCS_ 0 0 0 REV__ENST00000411631.2_7:72716055-72716139:+|nuORF REV__ENST00000411631.2_7:72716055-72716139:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 785.3519287109375 1 785.299043 784.291767 4.0218 0.0031583 4.4906 0.0035265 8.5124 0.0066848 785.3038946941655 54.443 0.11015 54.443 54.337 54.447 0 11 7 2 0 0 0 0.73686 1 24951 24951 2.8892 0 1 3605500 + 17121 16107 11014 11038 19432 19432 -0.10900758874697658 LMGSAARAP 9 Unmodified _LMGSAARAP_ 0 0 0 ENST00000397992.5_1_16:72984846-73092758:-|nuORF ENST00000397992.5_1_16:72984846-73092758:-|nuORF ENST00000397992.5_1_16:72984846-73092758:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.2689208984375 2 437.234187 872.453822 2.6446 0.0011563 -1.7126 -0.0007488 0.93205 0.00040753 437.2335729100507 47.049 0.20391 47.878 47.773 47.977 0.82915 17 12 2 0 0 0 0.10218 1 21402 21402 6.7232 0 1 356050 17122 7587 11015 11039 19433 19433 0.012492891941064954 LMGSAARAP 9 Unmodified _LMGSAARAP_ 0 0 0 ENST00000397992.5_1_16:72984846-73092758:-|nuORF ENST00000397992.5_1_16:72984846-73092758:-|nuORF ENST00000397992.5_1_16:72984846-73092758:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 437.234187 872.453822 2.8588 0.00125 -1.272 -0.00055618 1.5868 0.00069378 437.23382865200233 48.146 0.29164 48.146 47.978 48.269 0 0.034588 -0.00014348 NaN 6.7232 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 364930 17123 7587 11015 11039 0.012492891941064954 LMGSAARAP 9 Unmodified _LMGSAARAP_ 0 0 0 ENST00000397992.5_1_16:72984846-73092758:-|nuORF ENST00000397992.5_1_16:72984846-73092758:-|nuORF ENST00000397992.5_1_16:72984846-73092758:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 437.234187 872.453822 3.0568 0.0013365 -1.1394 -0.00049818 1.9174 0.00083834 437.23385500522403 47.441 0.45966 48.095 47.755 48.214 0.65356 -0.016828 -2.7469E-05 NaN 6.7232 27 20 2 NaN NaN NaN NaN 0 NaN NaN 0 301030 17124 7587 11015 11039 0.012492891941064954 LMHIGVFILL 10 Unmodified _LMHIGVFILL_ 0 0 0 nc|ENSG00000167861|Q8IV36-3|HID1;nc|ENSG00000167861|Q8IV36-2|HID1;ENSG00000167861|ENST00000425042|HID1 nc|ENSG00000167861|Q8IV36-3|HID1 nc|ENSG00000167861|Q8IV36-3|HID1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.3518676757812 2 578.351563 1154.68857 NaN NaN NaN NaN NaN NaN NaN 77.178 1 77.434 76.934 77.934 0.25533 0 0 0 0.99687 1 35541 35541 4.3292 0 1 17125 4584 11016 11040 19434 19434 0.1174158694984726 LMIKVKVKDF 10 Unmodified _LMIKVKVKDF_ 0 0 0 REV__nc|ENSG00000083520|Q9Y2L1-2|DIS3 REV__nc|ENSG00000083520|Q9Y2L1-2|DIS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 407.58782958984375 3 407.586027 1219.73625 NaN NaN NaN NaN NaN NaN NaN 68.546 1 68.546 68.046 69.046 0 0 0 0 0.99976 1 33014 33014 1.9064 0.45126 1 + 17126 10628 11017 11041 19435 19435 0.13517241149997972 LMIVKKES 8 Unmodified _LMIVKKES_ 0 0 0 ENST00000421254.1_1_1:117569228-117575092:-|nuORF ENST00000421254.1_1_1:117569228-117575092:-|nuORF ENST00000421254.1_1_1:117569228-117575092:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.2861328125 2 474.283346 946.552139 3.8254 0.0018143 -0.091221 -4.3265E-05 3.7342 0.0017711 474.2838299899191 104.19 0.036667 104.51 104.49 104.53 0.31863 4 2 2 0 0 0 0.74071 1 48150 48150 2.5775 1.7838 1 564050 17127 7757 11018 11042 19436 19436 0.07672472719309553 LMKLKESL 8 Unmodified _LMKLKESL_ 0 0 0 ENST00000604566.1_1_1:3644156-3648116:+|nuORF;nc|ENSG00000078900|O15350-12|TP73;ENST00000603364.5_1_1:3607439-3646013:+|nuORF;nc|ENSG00000078900|O15350-4|TP73;nc|ENSG00000078900|O15350-10|TP73;nc|ENSG00000078900|O15350-9|TP73;nc|ENSG00000078900|O15350-3|TP73;nc|ENSG00000078900|O15350-2|TP73;nc|ENSG00000078900|O15350-6|TP73;nc|ENSG00000078900|O15350-5|TP73;nc|ENSG00000078900|O15350-13|TP73;nc|ENSG00000078900|O15350-11|TP73;nc|ENSG00000078900|O15350-8|TP73;ENSG00000078900|ENST00000378295|TP73 ENST00000604566.1_1_1:3644156-3648116:+|nuORF ENST00000604566.1_1_1:3644156-3648116:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.29229736328125 2 481.291171 960.567789 3.0312 0.0014589 0.51181 0.00024633 3.5431 0.0017052 481.29098959173695 35.433 0.23969 35.688 35.537 35.777 0.25524 11 7 2 0 0 0 0.60101 1 16151 16151 13.906 0 1 202370 17128 886 11019 11043 19437 19437 0.08592759236330494 LMKLLPPPI 9 Unmodified _LMKLLPPPI_ 0 0 0 ENSG00000176102|ENST00000323959|CSTF3 ENSG00000176102|ENST00000323959|CSTF3 ENSG00000176102|ENST00000323959|CSTF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 511.329345703125 2 511.327556 1020.64056 3.552 0.0018162 -0.7999 -0.00040901 2.7521 0.0014072 511.32706345757396 92.943 0.46426 93.59 93.345 93.809 0.64714 86 24 5 0 0 0 1.2459 1 42844 42844 0 0 1 29407000 17129 5065 11020 11044 19438 19438 0.13106513029754296 LMKLVRIPLRN 11 Unmodified _LMKLVRIPLRN_ 0 0 0 REV__ENSG00000183779|ENST00000331569|ZNF703 REV__ENSG00000183779|ENST00000331569|ZNF703 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 338.9711608886719 4 338.969425 1351.8486 2.1232 0.0007197 1.7011 0.00057662 3.8243 0.0012963 338.97039760240494 47.522 0.22711 47.522 47.395 47.623 0 37 12 4 0 0 0 0.91104 1 21743 21743 1.2148 1.0749 1 1488800 + 17130 13948 11021 11045 19439 19439 0.18674514946837917 LMKLVRIPLRN 11 Unmodified _LMKLVRIPLRN_ 0 0 0 REV__ENSG00000183779|ENST00000331569|ZNF703 REV__ENSG00000183779|ENST00000331569|ZNF703 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.9715881347656 4 338.969425 1351.8486 2.6561 0.00090033 1.379 0.00046744 4.0351 0.0013678 338.9704512816553 46.791 0.59065 47.056 46.899 47.49 0.26561 64 20 4 0 0 0 0.91104 1 21367 21367 1.2148 0.76031 1 1215600 + 17131 13948 11021 11045 19440 19440 0.18674514946837917 LMKLVRIPLRN 11 Unmodified _LMKLVRIPLRN_ 0 0 0 REV__ENSG00000183779|ENST00000331569|ZNF703 REV__ENSG00000183779|ENST00000331569|ZNF703 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 338.969425 1351.8486 2.1232 0.0007197 1.7011 0.00057662 3.8243 0.0012963 338.97039760240494 47.522 0.22711 47.522 47.395 47.623 0 0 0 NaN 1.2148 37 12 4 NaN NaN NaN NaN 0 NaN NaN 0 1488800 + 17132 13948 11021 11045 0.18674514946837917 LMKSAKLVH 9 Unmodified _LMKSAKLVH_ 0 0 0 REV__ENSG00000078114|ENST00000377122|NEBL REV__ENSG00000078114|ENST00000377122|NEBL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.8108520507812 2 513.810062 1025.60557 3.0865 0.0015859 -1.4156 -0.00072733 1.671 0.00085855 513.809343693567 45.764 0.37134 45.764 45.595 45.967 0 30 17 2 0 0 0 1.0432 1 20937 20937 3.2813 0.97858 1 982440 + 17133 10567 11022 11046 19441 19441 0.09379270221802471 LMKSAKLVH 9 Unmodified _LMKSAKLVH_ 0 0 0 REV__ENSG00000078114|ENST00000377122|NEBL REV__ENSG00000078114|ENST00000377122|NEBL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.8107299804688 2 513.810062 1025.60557 3.1768 0.0016323 -2.4629 -0.0012654 0.71389 0.00036681 513.8085277243906 44.651 0.34473 45.472 45.385 45.729 0.82075 19 17 2 0 0 0 1.0432 1 20362 20362 3.2813 0.97858 1 423650 + 17134 10567 11022 11046 19442 19442 0.09379270221802471 LMKVLHLQLF 10 Unmodified _LMKVLHLQLF_ 0 0 0 REV__ENST00000543133.5_1_22:18210886-18211162:+|nuORF REV__ENST00000543133.5_1_22:18210886-18211162:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 414.5871887207031 3 414.586138 1240.73659 NaN NaN NaN NaN NaN NaN NaN 48.322 1 48.322 47.822 48.822 0 0 0 0 1.0001 1 22128 22128 0.69767 0 1 + 17135 17231 11023 11047 19443 19443 0.12584660869856634 LMLLLLAR 8 Unmodified _LMLLLLAR_ 0 0 0 REV__ENST00000309862.10_1_17:37829058-37830070:-|nuORF REV__ENST00000309862.10_1_17:37829058-37830070:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.8163757324219 2 471.812073 941.609594 NaN NaN NaN NaN NaN NaN NaN 102.53 1 102.85 102.35 103.35 0.31737 0 0 0 0.99035 1 47426 47426 0.79363 0 1 + 17136 12911 11024 11048 19444 19444 0.13645359715530958 LMLLLLAR 8 Unmodified _LMLLLLAR_ 0 0 0 REV__ENST00000309862.10_1_17:37829058-37830070:-|nuORF REV__ENST00000309862.10_1_17:37829058-37830070:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.8166198730469 2 471.812073 941.609594 3.1835 0.001502 3.8612 0.0018218 7.0447 0.0033238 471.8147964259999 102.46 0.2138 103.05 102.89 103.1 0.59759 14 7 2 0 0 0 0.7471 1 47427 47427 0.79363 0 1 214060 + 17137 12911 11024 11048 19445 19445 0.13645359715530958 LMLLLWKNF 9 Unmodified _LMLLLWKNF_ 0 0 0 ENSG00000064687|ENST00000263094|ABCA7;ABCA7|p.P1501Qfs*17|1|0.44|ENSG00000064687|chr19:1056411-1056411|C/-|frameshift_variant;ENST00000525238.2_1_19:1041360-1041637:+|nuORF;ENST00000530703.1_1_19:1041282-1041597:+|nuORF;ENST00000527496.1_1_19:1041282-1041972:+|nuORF;ENST00000526885.5_1_19:1041282-1042570:+|nuORF ENSG00000064687|ENST00000263094|ABCA7 ENSG00000064687|ENST00000263094|ABCA7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.34521484375 2 589.343738 1176.67292 2.1165 0.0012473 -1.0402 -0.00061306 1.0762 0.00063427 589.3431293436497 104.21 0.31566 104.26 104.15 104.47 0.052994 40 32 2 0 0 0 1.2078 1 56476 56476 0.6015 0 1 434530 17138 676 11025 11049 19446 19446 0.0916530043275543 LMLLTRKIGV 10 Unmodified _LMLLTRKIGV_ 0 0 0 ENST00000451422.1_1_3:15766016-15778544:-|nuORF ENST00000451422.1_1_3:15766016-15778544:-|nuORF ENST00000451422.1_1_3:15766016-15778544:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 572.5362548828125 2 572.367744 1142.72094 NaN NaN NaN NaN NaN NaN NaN 27.68 1 28.466 27.966 28.966 0.78627 0 0 0 1.0001 1 12451 12451 1.6526 1.1943 1 17139 8018 11026 11050 19447 19447 0.15528374352788887 LMLRREIK 8 Unmodified _LMLRREIK_ 0 0 0 ENSG00000162694|ENST00000370114|EXTL2 ENSG00000162694|ENST00000370114|EXTL2 ENSG00000162694|ENST00000370114|EXTL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 353.5552978515625 3 353.55495 1057.64302 2.6592 0.00094016 -0.88833 -0.00031407 1.7708 0.00062608 353.55465055066367 24.058 0.19884 24.058 23.95 24.148 0 72 47 2 0 0 0 0.037007 1 10824 10824 60.074 6.2411 1 12077000 17140 4159 11027 11051 19448 19448 0.11650361487431837 LMLRREIK 8 Unmodified _LMLRREIK_ 0 0 0 ENSG00000162694|ENST00000370114|EXTL2 ENSG00000162694|ENST00000370114|EXTL2 ENSG00000162694|ENST00000370114|EXTL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 353.55572509765625 3 353.55495 1057.64302 1.863 0.00065866 0.26761 9.4614E-05 2.1306 0.00075327 353.5550874680639 23.125 0.30628 23.811 23.589 23.895 0.68536 109 45 3 0 0 0 0.033633 1 10269 10269 62.573 0 1 6366300 17141 4159 11027 11051 19449 19449 0.11650361487431837 LMLRREIK 8 Unmodified _LMLRREIK_ 0 0 0 ENSG00000162694|ENST00000370114|EXTL2 ENSG00000162694|ENST00000370114|EXTL2 ENSG00000162694|ENST00000370114|EXTL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 353.5557556152344 3 353.55495 1057.64302 2.5858 0.00091423 -1.0877 -0.00038455 1.4982 0.00052968 353.5545481576045 23.623 0.070465 23.898 23.856 23.926 0.27562 27 17 2 0 0 0 0.033633 1 10677 10677 62.573 0 1 32024000 17142 4159 11027 11051 19450 19450 0.11650361487431837 LMLRREIK 8 Unmodified _LMLRREIK_ 0 0 0 ENSG00000162694|ENST00000370114|EXTL2 ENSG00000162694|ENST00000370114|EXTL2 ENSG00000162694|ENST00000370114|EXTL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 353.5556335449219 3 353.55495 1057.64302 2.4273 0.00085817 -0.40008 -0.00014145 2.0272 0.00071672 353.5549317161903 23.225 0.22791 23.865 23.72 23.948 0.64051 97 36 4 0 0 0 0.022274 1 10591 10591 71.922 0 1 29800000 17143 4159 11027 11051 19451 19451 0.11650361487431837 LMLTRGNL 8 Unmodified _LMLTRGNL_ 0 0 0 REV__ENST00000358164.9_1_16:30492763-30492847:+|nuORF REV__ENST00000358164.9_1_16:30492763-30492847:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 459.2655029296875 2 459.265487 916.516422 3.0086 0.0013817 1.59 0.00073024 4.5986 0.002112 459.26668092016484 41.607 0.38144 41.877 41.692 42.074 0.27021 36 18 3 0 0 0 0.57648 1 18971 18971 15.847 3.3156 1 895090 + 17144 15579 11028 11052 19452 19452 0.05482435262297258 LMMVRRGRNQ 10 Unmodified _LMMVRRGRNQ_ 0 0 0 REV__ENST00000332624.7_1_2:202316222-202316261:-|nuORF REV__ENST00000332624.7_1_2:202316222-202316261:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 630.8436279296875 2 630.842433 1259.67031 NaN NaN NaN NaN NaN NaN NaN 82.089 1 82.337 81.837 82.837 0.24722 0 0 0 0.99812 1 37785 37785 3.2813 1.4371 1 + 17145 15387 11029 11053 19453 19453 0.05086521756174989 LMPGSRRRAP 10 Unmodified _LMPGSRRRAP_ 0 0 0 ENST00000325926.3_1_2:154334542-154334671:-|nuORF ENST00000325926.3_1_2:154334542-154334671:-|nuORF ENST00000325926.3_1_2:154334542-154334671:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 380.8865051269531 3 380.88547 1139.63458 2.3178 0.00088283 0.68819 0.00026212 3.006 0.001145 380.88562400692376 63.296 0.6755 63.296 62.859 63.534 0 187 75 4 0 0 0 0.8662 1 29768 29768 2.8433 0 1 11495000 17146 6955 11030 11054 19454 19454 0.07034807570812518 LMPGSRRRAP 10 Unmodified _LMPGSRRRAP_ 0 0 0 ENST00000325926.3_1_2:154334542-154334671:-|nuORF ENST00000325926.3_1_2:154334542-154334671:-|nuORF ENST00000325926.3_1_2:154334542-154334671:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.8265380859375 2 570.824566 1139.63458 3.4538 0.0019715 2.3844 0.0013611 5.8382 0.0033326 570.8246732502947 62.257 0.49644 62.917 62.714 63.21 0.66008 90 41 3 0 0 0 0.90859 1 28646 28646 3.2813 1.4371 1 2633600 17147 6955 11030 11054 19455 19455 0.07034807570812518 LMQFCMWI 8 Unmodified _LMQFCMWI_ 0 0 0 REV__ENST00000455395.5_1_X:73511618-73511753:-|nuORF REV__ENST00000455395.5_1_X:73511618-73511753:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.2472534179688 2 536.244852 1070.47515 NaN NaN NaN NaN NaN NaN NaN 38.914 1 39.712 39.212 40.212 0.79762 0 0 0 0.99035 1 17620 17620 2.8892 0 1 + 17148 16443 11031 11055 19456 19456 -0.05726785093042963 LMQSKFYI 8 Oxidation (M) _LM(Oxidation (M))QSKFYI_ LM(1)QSKFYI LM(60)QSKFYI 0 0 1 ENSG00000162434|ENST00000342505|JAK1 ENSG00000162434|ENST00000342505|JAK1 ENSG00000162434|ENST00000342505|JAK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.27294921875 2 523.272978 1044.5314 3.3015 0.0017276 -1.9943 -0.0010435 1.3072 0.00068404 523.2721666540945 56.262 0.35468 56.527 56.279 56.633 0.26543 23 14 2 0 0 0 0.06577 1 25702 25702 60.39 10.457 1 1368600 17149 4139 11032 11056 19457 19457 59 0.01091882339642325 LMREFYSL 8 Unmodified _LMREFYSL_ 0 0 0 nc|ENSG00000088298|Q9BV94-2|EDEM2;ENSG00000088298|ENST00000374492|EDEM2 nc|ENSG00000088298|Q9BV94-2|EDEM2 nc|ENSG00000088298|Q9BV94-2|EDEM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.772216796875 2 529.770603 1057.52665 3.1598 0.001674 0.55739 0.00029529 3.7172 0.0019693 529.7708942880704 32.973 0.59235 33.591 33.246 33.838 0.61831 52 29 2 0 0 0 0.70799 1 15082 15082 5.2307 0.47466 1 345130 17150 1011 11033 11057 19458 19458 0.0001899819685604598 LMRLVAGA 8 Unmodified _LMRLVAGA_ 0 0 0 REV__ENST00000532554.5_1_11:45935680-45939362:-|nuORF REV__ENST00000532554.5_1_11:45935680-45939362:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 415.7510681152344 2 415.749473 829.484393 3.198 0.0013296 1.402 0.00058289 4.6 0.0019125 415.7499180110612 99.905 0.12495 100.5 100.44 100.57 0.59716 9 6 2 0 0 0 0.70799 1 46236 46236 5.2307 2.3415 1 863510 + 17151 17152 11034 11058 19459 19459 0.06283067579158796 LMRRHKRRRRK 11 Unmodified _LMRRHKRRRRK_ 0 0 0 ENST00000478247.1_1_3:183882805-183888540:+|nuORF;nc|ENSG00000161202|Q92997-2|DVL3;ENSG00000161202|ENST00000313143|DVL3 ENST00000478247.1_1_3:183882805-183888540:+|nuORF ENST00000478247.1_1_3:183882805-183888540:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 797.003173828125 2 797.002585 1591.99062 NaN NaN NaN NaN NaN NaN NaN 70.485 1 70.485 69.985 70.985 0 0 0 0 1.0082 1 34209 34209 0 0 1 17152 4094 11035 11059 19460 19460 0.21830165532378487 LMRVVNKIN 9 Unmodified _LMRVVNKIN_ 0 0 0 REV__nc|ENSG00000100592|Q9Y4D1-3|DAAM1 REV__nc|ENSG00000100592|Q9Y4D1-3|DAAM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.8276977539062 2 543.826243 1085.63793 NaN NaN NaN NaN NaN NaN NaN 34.282 1 34.905 34.405 35.405 0.62294 0 0 0 0.89683 1 15706 15706 4.3292 0 1 + 17153 10836 11036 11060 19461 19461 0.09854057624829693 LMSLIINTF 9 Unmodified _LMSLIINTF_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;HSP90AB1|p.R449Pfs*5|1|0.33|ENSG00000096384|chr6:44251765-44251766|-/C|frameshift_variant;HSP90AB1|p.I483Hfs*7|1|0.32|ENSG00000096384|chr6:44251866-44251867|-/C|frameshift_variant;nc|ENSG00000224411|Q14568|HSP90AA2P;ENST00000556554.1_1_14:102552511-102553379:-|nuORF;HSP90AA1|p.K314Efs*5|1|0.28|ENSG00000080824|chr14:102084721-102084722|TT/-|frameshift_variant;nc|ENSG00000205940|Q58FF8|HSP90AB2P;nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000080824|P07900-2|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.29736328125 2 526.296453 1050.57835 3.4986 0.0018413 -1.0289 -0.00054149 2.4697 0.0012998 526.2947618627857 95.496 0.30237 96.104 95.958 96.261 0.60769 29 15 3 0 0 0 0.012869 1 43906 43906 77.984 47.76 1 479410 17154 1127;913 11037 11061 19462 19462 0.055087418907760366 LMSLIINTF 9 Unmodified _LMSLIINTF_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;HSP90AB1|p.R449Pfs*5|1|0.33|ENSG00000096384|chr6:44251765-44251766|-/C|frameshift_variant;HSP90AB1|p.I483Hfs*7|1|0.32|ENSG00000096384|chr6:44251866-44251867|-/C|frameshift_variant;nc|ENSG00000224411|Q14568|HSP90AA2P;ENST00000556554.1_1_14:102552511-102553379:-|nuORF;HSP90AA1|p.K314Efs*5|1|0.28|ENSG00000080824|chr14:102084721-102084722|TT/-|frameshift_variant;nc|ENSG00000205940|Q58FF8|HSP90AB2P;nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000080824|P07900-2|HSP90AA1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 526.296453 1050.57835 4.0984 0.002157 -1.0789 -0.00056781 3.0196 0.0015892 526.7975491271505 96.17 0.29491 96.448 96.303 96.598 0.27778 0.17205 -1.2069E-05 NaN 77.984 22 14 2 NaN NaN NaN NaN 0 NaN NaN 0 669000 17155 1127;913 11037 11061 0.055087418907760366 LMVELKLRPL 10 Unmodified _LMVELKLRPL_ 0 0 0 REV__ENST00000459929.5_1_1:185275751-185278625:-|nuORF REV__ENST00000459929.5_1_1:185275751-185278625:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 606.3825073242188 2 606.380852 1210.74715 3.9991 0.002425 -0.8839 -0.00053598 3.1152 0.001889 606.3798538351685 31.939 0.27107 32.193 32.027 32.299 0.25452 30 16 3 0 0 0 0.93584 1 14550 14550 3.5965 3.2459 1 484400 + 17156 11412 11038 11062 19463 19463 0.15020643524280786 LMVELKLRPL 10 Unmodified _LMVELKLRPL_ 0 0 0 REV__ENST00000459929.5_1_1:185275751-185278625:-|nuORF REV__ENST00000459929.5_1_1:185275751-185278625:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 606.380852 1210.74715 3.9991 0.002425 -0.8839 -0.00053598 3.1152 0.001889 606.3798538351685 31.939 0.27107 32.193 32.027 32.299 0.25452 0.15223 0.00012241 NaN 3.5965 30 16 3 NaN NaN NaN NaN 0 NaN NaN 0 484400 + 17157 11412 11038 11062 0.15020643524280786 LMVELKLRPL 10 Unmodified _LMVELKLRPL_ 0 0 0 REV__ENST00000459929.5_1_1:185275751-185278625:-|nuORF REV__ENST00000459929.5_1_1:185275751-185278625:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 606.380852 1210.74715 3.7319 0.0022629 -1.1367 -0.0006893 2.5951 0.0015736 606.8816044641267 31.272 0.12785 31.889 31.768 31.896 0.61737 -0.15223 -0.00018424 NaN 3.5965 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 380060 + 17158 11412 11038 11062 0.15020643524280786 LMVKIFLILIV 11 Unmodified _LMVKIFLILIV_ 0 0 0 nc|ENSG00000162236|Q13190-2|STX5;ENSG00000162236|ENST00000294179|STX5 nc|ENSG00000162236|Q13190-2|STX5 nc|ENSG00000162236|Q13190-2|STX5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.627197265625 3 434.625822 1300.85564 NaN NaN NaN NaN NaN NaN NaN 67.833 1 68.535 68.035 69.035 0.70218 0 0 0 1.0079 1 32291 32291 0.45452 0 1 17159 4124 11039 11063 19464 19464 0.21724434774705514 LMVSRMAKPEE 11 Unmodified _LMVSRMAKPEE_ 0 0 0 ENSG00000082898|ENST00000401558|XPO1 ENSG00000082898|ENST00000401558|XPO1 ENSG00000082898|ENST00000401558|XPO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.8887939453125 3 430.889669 1289.64718 NaN NaN NaN NaN NaN NaN NaN 17.847 1 18.507 18.007 19.007 0.66072 0 0 0 1.0074 1 8062 8062 1.1098 0.096179 1 17160 934 11040 11064 19465 19465 0.013940381282054659 LMYHLLPS 8 Unmodified _LMYHLLPS_ 0 0 0 REV__ENSG00000119285|ENST00000366582|HEATR1 REV__ENSG00000119285|ENST00000366582|HEATR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.2657165527344 2 487.262413 972.510274 NaN NaN NaN NaN NaN NaN NaN 36.766 1 37.396 36.896 37.896 0.62999 0 0 0 0.93233 1 16832 16832 10.183 2.2732 1 + 17161 11495 11041 11065 19466 19466 0.02291917030777313 LNACLLPGEM 10 Unmodified _LNACLLPGEM_ 0 0 0 ENST00000585058.1_1_17:29850443-29850833:+|nuORF ENST00000585058.1_1_17:29850443-29850833:+|nuORF ENST00000585058.1_1_17:29850443-29850833:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.39599609375 2 530.76192 1059.50929 2.4804 0.0013165 0.58824 0.00031221 3.0686 0.0016287 530.7623550771766 68.046 0.13451 68.748 68.653 68.787 0.70218 26 18 2 0 0 0 0.76575 1 32398 32398 10.074 2.1638 1 1950500 17162 9173 11042 11066 19467 19467 -0.018086654004264346 LNAFLIHVVRP 11 Unmodified _LNAFLIHVVRP_ 0 0 0 REV__ENSG00000279270|ENST00000624978|OR52R1 REV__ENSG00000279270|ENST00000624978|OR52R1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 639.88818359375 2 639.88769 1277.76083 NaN NaN NaN NaN NaN NaN NaN 65.212 1 65.921 65.421 66.421 0.70891 0 0 0 0.94958 1 30811 30811 11.495 5.2889 1 + 17163 14756 11043 11067 19468 19468 0.13305637347752963 LNAKKKILFK 10 Unmodified _LNAKKKILFK_ 0 0 0 REV__ENSG00000222036|ENST00000547889|POTEM;REV__nc|ENSG00000188877|Q6S8J7-2|POTEA REV__ENSG00000222036|ENST00000547889|POTEM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 601.900390625 2 601.902808 1201.79106 NaN NaN NaN NaN NaN NaN NaN 75.234 1 75.492 74.992 75.992 0.25831 0 0 0 0.99812 1 34611 34611 3.2813 1.6287 1 + 17164 14101;18086 11044 11068 19469 19469 0.19823996012928546 LNAKKLDK 8 Unmodified _LNAKKLDK_ 0 0 0 REV__ENST00000352159.8_1_10:90773121-90774204:+|nuORF REV__ENST00000352159.8_1_10:90773121-90774204:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.7923583984375 2 465.292559 928.570566 2.7937 0.0012999 -1.0185 -0.00047388 1.7752 0.00082599 465.2919836049 25.811 0.062122 26.078 26.05 26.112 0.26777 11 7 2 0 0 0 0.14177 1 11714 11714 4.756 0 1 405090 + 17165 10278 11045 11069 19470 19470 0.10342350685505153 LNAKLALEKY 10 Unmodified _LNAKLALEKY_ 0 0 0 nc|ENSG00000125814|Q9H115-2|NAPB;ENSG00000125814|ENST00000377026|NAPB;ENST00000472855.5_1_20:23360446-23370651:-|nuORF;nc|ENSG00000125814|Q9H115-3|NAPB nc|ENSG00000125814|Q9H115-2|NAPB nc|ENSG00000125814|Q9H115-2|NAPB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.400390625 2 581.845156 1161.67576 NaN NaN NaN NaN NaN NaN NaN 98.116 1 98.715 98.215 99.215 0.59885 0 0 0 0.95771 1 45186 45186 13.906 0 1 17166 2423 11046 11070 19471 19471 0.10138847091275238 LNARYYKRYR 10 Unmodified _LNARYYKRYR_ 0 0 0 ENST00000499077.2_2_3:131082982-131083279:+|nuORF ENST00000499077.2_2_3:131082982-131083279:+|nuORF ENST00000499077.2_2_3:131082982-131083279:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 701.8901977539062 2 701.888752 1401.76295 NaN NaN NaN NaN NaN NaN NaN 75.685 1 76.349 75.849 76.849 0.66427 0 0 0 0.99995 1 34873 34873 3.5965 1.9439 1 17167 8468 11047 11071 19472 19472 0.0781406608555244 LNCSEHCDC 9 Unmodified _LNCSEHCDC_ 0 0 0 nc|ENSG00000157890|A6BM72-3|MEGF11;nc|ENSG00000157890|A6BM72-2|MEGF11;nc|ENSG00000157890|A6BM72|MEGF11;ENSG00000157890|ENST00000395614|MEGF11 nc|ENSG00000157890|A6BM72-3|MEGF11 nc|ENSG00000157890|A6BM72-3|MEGF11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.1702880859375 2 512.170069 1022.32559 NaN NaN NaN NaN NaN NaN NaN 68.901 1 69.603 69.103 70.103 0.70218 0 0 0 0.90611 1 32890 32890 2.0598 1.2661 1 17168 3967 11048 11072 19473 19473 -0.18468382173603004 LNDKPTKFP 9 Unmodified _LNDKPTKFP_ 0 0 0 REV__ENST00000485652.1_1_7:105279006-105305718:-|nuORF REV__ENST00000485652.1_1_7:105279006-105305718:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.29833984375 2 530.295299 1058.57605 NaN NaN NaN NaN NaN NaN NaN 88.286 1 88.339 87.839 88.839 0.052155 0 0 0 0.75166 1 44924 44924 10.824 1.4408 1 + 17169 12481 11049 11073 19474 19474 0.049100294773325004 LNEDYHWYKC 10 Unmodified _LNEDYHWYKC_ 0 0 0 REV__ENSG00000109586|ENST00000265000|GALNT7 REV__ENSG00000109586|ENST00000265000|GALNT7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 457.743408203125 3 457.53265 1369.57612 NaN NaN NaN NaN NaN NaN NaN 62.227 1 62.958 62.458 63.458 0.73077 0 0 0 1.0001 1 28980 28980 0.69767 0 1 + 17170 11173 11050 11074 19475 19475 -0.09388338584972189 LNELHREFFMR 11 Unmodified _LNELHREFFMR_ 0 0 0 REV__ENSG00000146221|ENST00000371505|TCTE1 REV__ENSG00000146221|ENST00000371505|TCTE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 497.9242858886719 3 497.922361 1490.74525 NaN NaN NaN NaN NaN NaN NaN 53.22 1 54.023 53.523 54.523 0.80351 0 0 0 1.0073 1 24266 24266 1.2148 0 1 + 17171 12465 11051 11075 19476 19476 0.019509827683577896 LNEMFRRFEKY 11 Unmodified _LNEMFRRFEKY_ 0 0 0 REV__ENST00000480341.5_1_13:22077016-22089705:-|nuORF REV__ENST00000480341.5_1_13:22077016-22089705:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.5960998535156 3 511.594133 1531.76057 NaN NaN NaN NaN NaN NaN NaN 79.194 1 79.194 78.694 79.694 0 0 0 0 1.008 1 39092 39092 0.08335 0 1 + 17172 13161 11052 11076 19477 19477 0.01595849565592289 LNEQWWARWHM 11 Unmodified _LNEQWWARWHM_ 0 0 0 REV__ENST00000540269.6_1_16:84801899-84806156:+|nuORF REV__ENST00000540269.6_1_16:84801899-84806156:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 778.8631591796875 2 778.86442 1555.71429 NaN NaN NaN NaN NaN NaN NaN 63.529 1 63.529 63.029 64.029 0 0 0 0 1.0072 1 29898 29898 1.3295 0 1 + 17173 17209 11053 11077 19478 19478 -0.04134170545876259 LNFHKYMPCWS 11 Unmodified _LNFHKYMPCWS_ 0 0 0 ENST00000526421.5_1_11:102188276-102190656:+|nuORF ENST00000526421.5_1_11:102188276-102190656:+|nuORF ENST00000526421.5_1_11:102188276-102190656:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 476.1421813964844 3 475.886259 1424.63695 NaN NaN NaN NaN NaN NaN NaN 64.224 1 64.224 63.724 64.724 0 0 0 0 1.0072 1 30380 30380 0.45452 0 1 17174 8676 11054 11078 19479 19479 -0.05838524806381429 LNFYHTGKLHY 11 Unmodified _LNFYHTGKLHY_ 0 0 0 KCND2|p.R100H|1|0.07|ENSG00000184408|chr7:120274931-120274931|G/A|missense_variant KCND2|p.R100H|1|0.07|ENSG00000184408|chr7:120274931-120274931|G/A|missense_variant KCND2|p.R100H|1|0.07|ENSG00000184408|chr7:120274931-120274931|G/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 696.8576049804688 2 696.856586 1391.69862 NaN NaN NaN NaN NaN NaN NaN 55.576 1 55.576 55.076 56.076 0 0 0 0 1.0072 1 25552 25552 1.3295 0.13619 1 17175 9422 11055 11079 19480 19480 0.018438662087646662 LNGLKLIVV 9 Unmodified _LNGLKLIVV_ 0 0 0 REV__ENSG00000165029|ENST00000374736|ABCA1 REV__ENSG00000165029|ENST00000374736|ABCA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.8318786621094 2 484.828778 967.643003 2.5799 0.0012508 4.4889 0.0021763 7.0688 0.0034271 484.830472611264 72.625 0.038589 73.289 73.265 73.303 0.66398 5 3 2 0 0 0 0.59776 1 33326 33326 10.824 3.5347 1 1403800 + 17176 13127 11056 11080 19481 19481 0.1578868475909303 LNGYEEGYRRY 11 Unmodified _LNGYEEGYRRY_ 0 0 0 REV__nc|ENSG00000160323|Q76LX8-3|ADAMTS13 REV__nc|ENSG00000160323|Q76LX8-3|ADAMTS13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.8690490722656 3 473.893236 1418.65788 NaN NaN NaN NaN NaN NaN NaN 64.702 1 64.702 64.202 65.202 0 0 0 0 1.0059 1 30708 30708 1.2148 0.70888 1 + 17177 12876 11057 11081 19482 19482 -0.03470519901543412 LNHNRETEQR 10 Unmodified _LNHNRETEQR_ 0 0 0 REV__ENST00000277198.6_1_9:97489003-97521954:+|nuORF REV__ENST00000277198.6_1_9:97489003-97521954:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.8857727050781 3 432.884963 1295.63306 NaN NaN NaN NaN NaN NaN NaN 36.714 1 37.508 37.008 38.008 0.79342 0 0 0 0.99976 1 16638 16638 1.9064 0.12395 1 + 17178 15080 11058 11082 19483 19483 -0.002931549842514869 LNHRRRICER 10 Unmodified _LNHRRRICER_ 0 0 0 REV__ENST00000435706.6_2_3:25686795-25686942:-|nuORF REV__ENST00000435706.6_2_3:25686795-25686942:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 676.8766479492188 2 676.875653 1351.73675 NaN NaN NaN NaN NaN NaN NaN 104.5 1 104.5 104 105 0 0 0 0 1.0015 1 57501 57501 0.40072 0 1 + 17179 16299 11059 11083 19484 19484 0.07495473642416073 LNHWKWGDMRQ 11 Unmodified _LNHWKWGDMRQ_ 0 0 0 ENSG00000111863|ENST00000414691|ADTRP;nc|ENSG00000111863|Q96IZ2-2|ADTRP ENSG00000111863|ENST00000414691|ADTRP ENSG00000111863|ENST00000414691|ADTRP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.42901611328125 3 490.906822 1469.69864 NaN NaN NaN NaN NaN NaN NaN 65.737 1 65.737 65.237 66.237 0 0 0 0 1.0072 1 31333 31333 0.45452 0 1 17180 1782 11060 11084 19485 19485 -0.01742457062914582 LNIGLAILFVH 11 Unmodified _LNIGLAILFVH_ 0 0 0 ENSG00000104369|ENST00000342232|JPH1;ENSG00000149596|ENST00000372980|JPH2 ENSG00000104369|ENST00000342232|JPH1 ENSG00000104369|ENST00000342232|JPH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.2530517578125 3 403.916653 1208.72813 3.2963 0.0013314 1.1929 0.00048184 4.4893 0.0018133 403.9170987756308 88.947 0.48209 89.199 88.975 89.457 0.25118 34 18 3 0 0 0 0.87362 1 40991 40991 1.4551 0.75745 1 851130 17181 1435 11061 11085 19486 19486 0.13211430224896503 LNIIALHRLF 10 Unmodified _LNIIALHRLF_ 0 0 0 REV__nc|ENSG00000254658|Q8NGG1|OR8J2 REV__nc|ENSG00000254658|Q8NGG1|OR8J2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 605.3751220703125 2 605.376958 1208.73936 NaN NaN NaN NaN NaN NaN NaN 74.127 1 74.792 74.292 75.292 0.6644 0 0 0 0.99733 1 34115 34115 3.9444 1.8846 1 + 17182 18150 11062 11086 19487 19487 0.14334252319008556 LNIILTLLAL 10 Unmodified _LNIILTLLAL_ 0 0 0 REV__CLN8|p.P247L|1|0.31|ENSG00000182372|chr8:1780446-1780446|C/T|missense_variant REV__CLN8|p.P247L|1|0.31|ENSG00000182372|chr8:1780446-1780446|C/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.2496643066406 3 366.249521 1095.72673 NaN NaN NaN NaN NaN NaN NaN 27.724 1 28.51 28.01 29.01 0.78627 0 0 0 0.99559 1 12472 12472 5.4027 0.10583 1 + 17183 10064 11063 11087 19488 19488 0.18269796136110017 LNIKSTIYKEE 11 Unmodified _LNIKSTIYKEE_ 0 0 0 REV__ENST00000484629.1_1_3:47307469-47316817:-|nuORF REV__ENST00000484629.1_1_3:47307469-47316817:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 669.368408203125 2 669.369192 1336.72383 NaN NaN NaN NaN NaN NaN NaN 68.716 1 69.375 68.875 69.875 0.65924 0 0 0 1.0074 1 31499 31499 1.0715 0.67075 1 + 17184 10681 11064 11088 19489 19489 0.06893876220692619 LNIYLTLIVL 10 Unmodified _LNIYLTLIVL_ 0 0 0 ENSG00000172139|ENST00000305815|SLC9C1 ENSG00000172139|ENST00000305815|SLC9C1 ENSG00000172139|ENST00000305815|SLC9C1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.878173828125 2 587.875925 1173.7373 NaN NaN NaN NaN NaN NaN NaN 55.942 1 56.729 56.229 57.229 0.78711 0 0 0 1.0001 1 25558 25558 1.6526 1.1279 1 17185 4857 11065 11089 19490 19490 0.15737778790548873 LNKCLRLRVH 10 Unmodified _LNKCLRLRVH_ 0 0 0 REV__nc|ENSG00000166589|O75309-3|CDH16 REV__nc|ENSG00000166589|O75309-3|CDH16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 417.92193603515625 3 417.920403 1250.73938 2.7693 0.0011573 0.88796 0.0003711 3.6573 0.0015284 417.92058204014523 41.113 0.1974 41.113 40.978 41.176 0 32 14 3 0 0 0 0.93584 1 18661 18661 1.7423 1.7423 1 2019100 + 17186 13249 11066 11090 19491 19491 0.1240392904737746 LNKCLRLRVH 10 Unmodified _LNKCLRLRVH_ 0 0 0 REV__nc|ENSG00000166589|O75309-3|CDH16 REV__nc|ENSG00000166589|O75309-3|CDH16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 417.92193603515625 3 417.920403 1250.73938 2.712 0.0011334 0.96317 0.00040253 3.6751 0.0015359 417.92061495976145 39.654 0.49499 40.454 40.148 40.643 0.80014 78 24 4 0 0 0 0.93584 1 17870 17870 1.7423 1.7423 1 1481100 + 17187 13249 11066 11090 19492 19492 0.1240392904737746 LNKCLRLRVH 10 Unmodified _LNKCLRLRVH_ 0 0 0 REV__nc|ENSG00000166589|O75309-3|CDH16 REV__nc|ENSG00000166589|O75309-3|CDH16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 417.92144775390625 3 417.920403 1250.73938 2.6946 0.0011261 0.80478 0.00033633 3.4994 0.0014625 417.92067965066155 39.977 0.21787 40.777 40.643 40.861 0.80014 28 11 3 0 0 0 0.93584 1 18088 18088 1.7423 1.7423 1 2106100 + 17188 13249 11066 11090 19493 19493 0.1240392904737746 LNKCLRLRVH 10 Unmodified _LNKCLRLRVH_ 0 0 0 REV__nc|ENSG00000166589|O75309-3|CDH16 REV__nc|ENSG00000166589|O75309-3|CDH16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 417.9218444824219 3 417.920403 1250.73938 3.1318 0.0013089 0.37757 0.00015779 3.5094 0.0014667 417.92044979776256 40.775 0.25711 41.044 40.947 41.204 0.26904 34 19 2 0 0 0 0.93584 1 18548 18548 1.7423 1.7423 1 2577800 + 17189 13249 11066 11090 19494 19494 0.1240392904737746 LNKCLRLRVH 10 Unmodified _LNKCLRLRVH_ 0 0 0 REV__nc|ENSG00000166589|O75309-3|CDH16 REV__nc|ENSG00000166589|O75309-3|CDH16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 417.9216613769531 3 417.920403 1250.73938 3.2013 0.0013379 0.58721 0.00024541 3.7885 0.0015833 417.92054499544594 39.851 0.49558 40.492 40.221 40.716 0.64136 50 20 4 0 0 0 0.93584 1 18138 18138 1.7423 1.7423 1 3043200 + 17190 13249 11066 11090 19495 19495 0.1240392904737746 LNKCLRLRVH 10 Unmodified _LNKCLRLRVH_ 0 0 0 REV__nc|ENSG00000166589|O75309-3|CDH16 REV__nc|ENSG00000166589|O75309-3|CDH16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 417.9222106933594 3 417.920403 1250.73938 3.2378 0.0013532 0.38788 0.0001621 3.6257 0.0015153 417.9202155479263 40.21 0.35583 40.852 40.527 40.883 0.64136 21 15 3 0 0 0 0.93584 2 18370 18370;18375 1.7423 0 1 4003600 + 17191 13249 11066 11090 19496;19497 19496 0.1240392904737746 LNKCLRLRVH 10 Unmodified _LNKCLRLRVH_ 0 0 0 REV__nc|ENSG00000166589|O75309-3|CDH16 REV__nc|ENSG00000166589|O75309-3|CDH16 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 417.920403 1250.73938 2.6946 0.0011261 0.80478 0.00033633 3.4994 0.0014625 417.92067965066155 39.977 0.21787 40.777 40.643 40.861 0.80014 -0.16918 0.00022793 NaN 1.7423 28 11 3 NaN NaN NaN NaN 0 NaN NaN 0 2106100 + 17192 13249 11066 11090 0.1240392904737746 LNKEQRLIS 9 Unmodified _LNKEQRLIS_ 0 0 0 REV__nc|ENSG00000138814|Q08209-4|PPP3CA REV__nc|ENSG00000138814|Q08209-4|PPP3CA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.8267822265625 2 550.824755 1099.63496 3.6276 0.0019981 0.34602 0.0001906 3.9736 0.0021887 550.8248793036875 25.93 0.23495 26.198 26.06 26.295 0.26777 32 22 2 0 0 0 0.30982 1 11799 11799 16.149 0 1 484480 + 17193 12196 11067 11091 19498 19498 0.0891250577167284 LNKEYQEIFQQ 11 Unmodified _LNKEYQEIFQQ_ 0 0 0 ENSG00000144015|ENST00000272395|TRIM43;ENSG00000144010|ENST00000639673|TRIM43B ENSG00000144015|ENST00000272395|TRIM43 ENSG00000144015|ENST00000272395|TRIM43 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.91632080078125 3 480.577025 1438.70924 NaN NaN NaN NaN NaN NaN NaN 70.396 1 71.099 70.599 71.599 0.70302 0 0 0 1.0073 1 33728 33728 0.40827 0 1 17194 3404 11068 11092 19499 19499 0.007438040725219253 LNKEYREVERK 11 Unmodified _LNKEYREVERK_ 0 0 0 REV__ENSG00000073734|ENST00000650372|ABCB11 REV__ENSG00000073734|ENST00000650372|ABCB11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.08648681640625 3 488.603685 1462.78923 NaN NaN NaN NaN NaN NaN NaN 73.033 1 73.292 72.792 73.792 0.25876 0 0 0 1.0072 1 33537 33537 0.45452 0 1 + 17195 10507 11069 11093 19500 19500 0.07634290466353377 LNKFFWPE 8 Unmodified _LNKFFWPE_ 0 0 0 REV__nc|ENSG00000182866|P06239-2|LCK REV__nc|ENSG00000182866|P06239-2|LCK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.7815551757812 2 540.779285 1079.54402 NaN NaN NaN NaN NaN NaN NaN 15.155 1 15.155 14.655 15.655 0 0 0 0 0.99035 1 6693 6693 4.756 0.42677 1 + 17196 13908 11070 11094 19501 19501 0.0074266179419737455 LNKFFWPE 8 Unmodified _LNKFFWPE_ 0 0 0 REV__nc|ENSG00000182866|P06239-2|LCK REV__nc|ENSG00000182866|P06239-2|LCK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.782958984375 2 540.779285 1079.54402 NaN NaN NaN NaN NaN NaN NaN 14.688 1 14.914 14.414 15.414 0.22622 0 0 0 0.99035 1 6460 6460 4.756 0.42677 1 + 17197 13908 11070 11094 19502 19502 0.0074266179419737455 LNKFRKKYNL 10 Unmodified _LNKFRKKYNL_ 0 0 0 REV__ENST00000380026.7_2_4:104062218-104062926:-|nuORF REV__ENST00000380026.7_2_4:104062218-104062926:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.53839111328125 3 441.934706 1322.78229 NaN NaN NaN NaN NaN NaN NaN 65.132 1 65.132 64.632 65.632 0 0 0 0 0.99774 1 30971 30971 1.7423 0.52744 1 + 17198 15879 11071 11095 19503 19503 0.13381022376483998 LNKKKKKKKQK 11 Unmodified _LNKKKKKKKQK_ 0 0 0 REV__ENST00000528205.1_1_11:57472131-57479651:-|nuORF REV__ENST00000528205.1_1_11:57472131-57479651:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.99310302734375 3 466.992556 1397.95584 NaN NaN NaN NaN NaN NaN NaN 61.65 1 62.381 61.881 62.881 0.73077 0 0 0 1.008 1 28618 28618 0.36667 0.28332 1 + 17199 17113 11072 11096 19504 19504 0.27277808152734906 LNKKKKVC 8 Unmodified _LNKKKKVC_ 0 0 0 REV__ENST00000491834.5_1_3:3192120-3192273:-|nuORF REV__ENST00000491834.5_1_3:3192120-3192273:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.68212890625 2 480.80478 959.595007 NaN NaN NaN NaN NaN NaN NaN 60.982 1 60.982 60.482 61.482 0 0 0 0 0.99035 1 28409 28409 5.2307 0.47466 1 + 17200 16806 11073 11097 19505 19505 0.1135928756739304 LNKKKMYWERK 11 Unmodified _LNKKKMYWERK_ 0 0 0 ENSG00000066697|ENST00000395067|MSANTD3 ENSG00000066697|ENST00000395067|MSANTD3 ENSG00000066697|ENST00000395067|MSANTD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.853759765625 3 508.622023 1522.84424 NaN NaN NaN NaN NaN NaN NaN 62.624 1 63.354 62.854 63.854 0.73077 0 0 0 1.0074 1 29232 29232 1.1098 0.65524 1 17201 710 11074 11098 19506 19506 0.10373005733276841 LNKKKRGRK 9 Unmodified _LNKKKRGRK_ 0 0 0 REV__ENST00000367142.4_1_1:205687259-205687394:-|nuORF REV__ENST00000367142.4_1_1:205687259-205687394:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.8837280273438 2 564.377823 1126.74109 4.4103 0.0024891 2.2485 0.001269 6.6588 0.0037581 564.8811314229933 105.45 0.14069 105.77 105.71 105.85 0.31782 10 5 3 0 0 0 1.2126 1 48692 48692 0.52476 0.066424 1 966850 + 17202 15650 11075 11099 19507 19507 0.18279306127647033 LNKKKRKTR 9 Unmodified _LNKKKRKTR_ 0 0 0 ENST00000372801.5_1_20:43653661-43653724:+|nuORF ENST00000372801.5_1_20:43653661-43653724:+|nuORF ENST00000372801.5_1_20:43653661-43653724:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.3941040039062 2 586.390931 1170.76731 4.3265 0.002537 1.4647 0.00085889 5.7912 0.0033959 586.3918902416613 105.43 0.11587 105.74 105.67 105.78 0.31782 7 4 2 0 0 0 1.2078 1 48677 48677 0.6015 0 1 1311900 17203 7346 11076 11100 19508 19508 0.18875575299125558 LNKKLLEH 8 Unmodified _LNKKLLEH_ 0 0 0 nc|ENSG00000168502|Q9Y4B5-2|MTCL1;nc|ENSG00000168502|Q9Y4B5-3|MTCL1;nc|ENSG00000168502|Q9Y4B5|MTCL1;ENSG00000168502|ENST00000695636|MTCL1;nc|ENSG00000168502|Q9Y4B5-4|MTCL1 nc|ENSG00000168502|Q9Y4B5-2|MTCL1 nc|ENSG00000168502|Q9Y4B5-2|MTCL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 497.8065490722656 2 497.805834 993.597115 NaN NaN NaN NaN NaN NaN NaN 62.213 1 62.213 61.713 62.713 0 0 0 0 0.95426 1 29135 29135 11.64 0.81637 1 17204 4629 11077 11101 19509 19509 0.10006039576865078 LNKKTKTP 8 Unmodified _LNKKTKTP_ 0 0 0 ENST00000489690.1_1_3:149842768-149931467:+|nuORF ENST00000489690.1_1_3:149842768-149931467:+|nuORF ENST00000489690.1_1_3:149842768-149931467:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.2375793457031 2 465.292559 928.570566 NaN NaN NaN NaN NaN NaN NaN 77.632 1 77.632 77.132 78.132 0 0 0 0 0.99035 1 38081 38081 5.2307 0 1 17205 8381 11078 11102 19510 19510 0.10342350685516521 LNKKTLPGVK 10 Unmodified _LNKKTLPGVK_ 0 0 0 ENSG00000177599|ENST00000323169|ZNF491 ENSG00000177599|ENST00000323169|ZNF491 ENSG00000177599|ENST00000323169|ZNF491 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.23919677734375 3 366.572886 1096.69683 NaN NaN NaN NaN NaN NaN NaN 42.944 1 43.592 43.092 44.092 0.64749 0 0 0 0.99807 1 19679 19679 3.3196 1.2336 1 17206 5124 11079 11103 19511 19511 0.15234857190785078 LNKLRLFRKA 10 Unmodified _LNKLRLFRKA_ 0 0 0 ENSG00000171724|ENST00000302536|VAT1L ENSG00000171724|ENST00000302536|VAT1L ENSG00000171724|ENST00000302536|VAT1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 420.2746887207031 3 420.275063 1257.80336 NaN NaN NaN NaN NaN NaN NaN 99.828 1 100.43 99.926 100.93 0.59717 0 0 0 1.0018 1 46188 46188 0.15932 0 1 17207 4826 11080 11104 19512 19512 0.184770324759711 LNKLWKHYNRI 11 Unmodified _LNKLWKHYNRI_ 0 0 0 REV__ENSG00000172967|ENST00000684488|XKR3 REV__ENSG00000172967|ENST00000684488|XKR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.5126953125 3 495.62101 1483.8412 NaN NaN NaN NaN NaN NaN NaN 66.021 1 66.726 66.226 67.226 0.7047 0 0 0 1.0059 1 31268 31268 1.2148 0.70888 1 + 17208 13576 11081 11105 19513 19513 0.11863498670777517 LNKNRKKWIY 10 Unmodified _LNKNRKKWIY_ 0 0 0 ENST00000357162.6_1_8:100589829-100654156:+|nuORF ENST00000357162.6_1_8:100589829-100654156:+|nuORF ENST00000357162.6_1_8:100589829-100654156:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 681.9049682617188 2 681.903871 1361.79319 NaN NaN NaN NaN NaN NaN NaN 60.221 1 60.97 60.47 61.47 0.74927 0 0 0 0.99464 1 27739 27739 6.2058 0.9089 1 17209 7174 11082 11106 19514 19514 0.1267642475077082 LNKQALVEYRQ 11 Unmodified _LNKQALVEYRQ_ 0 0 0 REV__CON__Q9D312 REV__CON__Q9D312 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.5915832519531 3 454.589376 1360.7463 NaN NaN NaN NaN NaN NaN NaN 61.259 1 61.259 60.759 61.759 0 0 0 0 1.0041 1 28555 28555 2.4348 0 1 + + 17210 10104 11083 11107 19515 19515 0.08035520408952834 LNKRKNCLFVK 11 Unmodified _LNKRKNCLFVK_ 0 0 0 REV__nc|ENSG00000164161|Q96QV1-2|HHIP REV__nc|ENSG00000164161|Q96QV1-2|HHIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 681.9052734375 2 681.905556 1361.79656 NaN NaN NaN NaN NaN NaN NaN 65.432 1 66.141 65.641 66.641 0.70891 0 0 0 1.0041 1 30950 30950 5.2969 0 1 + 17211 18013 11084 11108 19516 19516 0.13013351533072637 LNKRRALFRRR 11 Unmodified _LNKRRALFRRR_ 0 0 0 ENST00000563939.2_1_16:67063920-67070621:+|nuORF ENST00000563939.2_1_16:67063920-67070621:+|nuORF ENST00000563939.2_1_16:67063920-67070621:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 743.2243041992188 2 743.471109 1484.92767 NaN NaN NaN NaN NaN NaN NaN 101.05 1 101.65 101.15 102.15 0.59717 0 0 0 1.008 1 46789 46789 0.35063 0.043601 1 17212 9020 11085 11109 19517 19517 0.20459923016005632 LNKRSLIFLFK 11 Unmodified _LNKRSLIFLFK_ 0 0 0 REV__ENSG00000213160|ENST00000392647|KLHL23 REV__ENSG00000213160|ENST00000392647|KLHL23 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 689.9304809570312 2 689.932097 1377.84964 NaN NaN NaN NaN NaN NaN NaN 64.563 1 64.563 64.063 65.063 0 0 0 0 1.0044 1 30615 30615 4.897 1.3005 1 + 17213 14488 11086 11110 19518 19518 0.175830525874062 LNKRYEEEEEE 11 Unmodified _LNKRYEEEEEE_ 0 0 0 ENSG00000129347|ENST00000312962|KRI1;ENST00000478863.5_1_19:10666000-10676642:-|nuORF ENSG00000129347|ENST00000312962|KRI1 ENSG00000129347|ENST00000312962|KRI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 489.8347473144531 3 489.891449 1466.65252 NaN NaN NaN NaN NaN NaN NaN 64.645 1 65.36 64.86 65.86 0.71521 0 0 0 1.0059 1 30465 30465 1.2148 0.76031 1 17214 2547 11087 11111 19519 19519 -0.06214288274622959 LNKRYNRKRFF 11 Unmodified _LNKRYNRKRFF_ 0 0 0 nc|ENSG00000136522|Q9HD33-3|MRPL47;nc|ENSG00000136522|Q9HD33-2|MRPL47;ENSG00000136522|ENST00000476781|MRPL47 nc|ENSG00000136522|Q9HD33-3|MRPL47 nc|ENSG00000136522|Q9HD33-3|MRPL47 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 771.4410400390625 2 771.444226 1540.8739 NaN NaN NaN NaN NaN NaN NaN 61.869 1 61.869 61.369 62.369 0 0 0 0 1.0072 1 28913 28913 1.3295 0 1 17215 2955 11088 11112 19520 19520 0.1250970579362729 LNKVLGIKH 9 Unmodified _LNKVLGIKH_ 0 0 0 nc|ENSG00000072571|O75330-4|HMMR;nc|ENSG00000072571|O75330-2|HMMR;nc|ENSG00000072571|O75330|HMMR;ENSG00000072571|ENST00000393915|HMMR nc|ENSG00000072571|O75330-4|HMMR nc|ENSG00000072571|O75330-4|HMMR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 341.2232360839844 3 341.222076 1020.6444 NaN NaN NaN NaN NaN NaN NaN 96.917 1 97.519 97.019 98.019 0.6019 0 0 0 0.91238 1 44557 44557 0.23584 0 1 17216 793 11089 11113 19521 19521 0.13490318847857452 LNKWFVDGYRQ 11 Unmodified _LNKWFVDGYRQ_ 0 0 0 REV__nc|ENSG00000196388|Q0VD86-2|INCA1 REV__nc|ENSG00000196388|Q0VD86-2|INCA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 713.3674926757812 2 713.367318 1424.72008 NaN NaN NaN NaN NaN NaN NaN 62.682 1 63.405 62.905 63.905 0.72236 0 0 0 1.0059 1 29276 29276 2.9952 0 1 + 17217 14211 11090 11114 19522 19522 0.024712512374662765 LNKYDKTV 8 Unmodified _LNKYDKTV_ 0 0 0 REV__ENST00000457465.3_2_1:145377167-145377200:-|nuORF REV__ENST00000457465.3_2_1:145377167-145377200:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.7767639160156 2 490.7742 979.533846 NaN NaN NaN NaN NaN NaN NaN 14.81 1 15.036 14.536 15.536 0.22622 0 0 0 0.99035 1 6515 6515 2.5775 0 1 + 17218 16462 11091 11115 19523 19523 0.04326054068951635 LNLAEFRSIT 10 Unmodified _LNLAEFRSIT_ 0 0 0 REV__ENST00000559648.1_1_1:167358914-167365774:+|nuORF REV__ENST00000559648.1_1_1:167358914-167365774:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 582.1270141601562 2 582.324588 1162.63462 NaN NaN NaN NaN NaN NaN NaN 88.777 1 88.777 88.277 89.277 0 0 0 0 0.94673 1 46167 46167 13.906 1.6654 1 + 17219 10283 11092 11116 19524 19524 0.059810860518155096 LNLCCIFSEMF 11 Unmodified _LNLCCIFSEMF_ 0 0 0 ENST00000370487.4_1_20:61431489-61431786:+|nuORF ENST00000370487.4_1_20:61431489-61431786:+|nuORF ENST00000370487.4_1_20:61431489-61431786:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 660.2940063476562 2 660.29527 1318.57599 NaN NaN NaN NaN NaN NaN NaN 79.513 1 80.173 79.673 80.673 0.66082 0 0 0 1.0072 1 36636 36636 1.3295 0.13619 1 17220 7303 11093 11117 19525 19525 -0.07055797900852667 LNLFLLPLTRV 11 Unmodified _LNLFLLPLTRV_ 0 0 0 REV__nc|ENSG00000116885|Q8WVF1-4|OSCP1 REV__nc|ENSG00000116885|Q8WVF1-4|OSCP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 433.7423400878906 3 433.611341 1297.81219 NaN NaN NaN NaN NaN NaN NaN 60.752 1 61.492 60.992 61.992 0.7396 0 0 0 1.0048 1 28084 28084 4.4062 2.6639 1 + 17221 11424 11094 11118 19526 19526 0.17519961321772826 LNLGRWYYFRM 11 Unmodified _LNLGRWYYFRM_ 0 0 0 REV__ENST00000335790.7_1_11:8245870-8245915:-|nuORF REV__ENST00000335790.7_1_11:8245870-8245915:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.8533630371094 3 506.927335 1517.76017 NaN NaN NaN NaN NaN NaN NaN 71.664 1 71.664 71.164 72.164 0 0 0 0 1.0072 1 34840 34840 0.45452 0 1 + 17222 15416 11095 11119 19527 19527 0.022004746363563754 LNLGRWYYFRM 11 Unmodified _LNLGRWYYFRM_ 0 0 0 REV__ENST00000335790.7_1_11:8245870-8245915:-|nuORF REV__ENST00000335790.7_1_11:8245870-8245915:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.9870910644531 3 506.927335 1517.76017 NaN NaN NaN NaN NaN NaN NaN 66.843 1 67.547 67.047 68.047 0.7047 0 0 0 1.0072 1 31711 31711 0.45452 0.046251 1 + 17223 15416 11095 11119 19528 19528 0.022004746363563754 LNLILKRPIK 10 Unmodified _LNLILKRPIK_ 0 0 0 REV__ENST00000269187.9_2_18:33689014-33689293:-|nuORF REV__ENST00000269187.9_2_18:33689014-33689293:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.4169311523438 2 604.416083 1206.81761 NaN NaN NaN NaN NaN NaN NaN 45.517 1 45.517 45.017 46.017 0 0 0 0 1.0015 1 20822 20822 0.45834 0.45834 1 + 17224 15051 11096 11120 19529 19529 0.22247684904255038 LNLIRLFLRKL 11 Unmodified _LNLIRLFLRKL_ 0 0 0 REV__ENST00000501122.2_1_11:65197707-65198040:+|nuORF REV__ENST00000501122.2_1_11:65197707-65198040:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.98309326171875 3 466.981768 1397.92348 NaN NaN NaN NaN NaN NaN NaN 62.441 1 62.441 61.941 62.941 0 0 0 0 1.0072 1 29266 29266 1.3296 0.11481 1 + 17225 16881 11097 11121 19530 19530 0.2404302074971838 LNLLKLVLVAI 11 Unmodified _LNLLKLVLVAI_ 0 0 0 REV__ENST00000515200.5_1_5:125819164-125820093:+|nuORF REV__ENST00000515200.5_1_5:125819164-125820093:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 604.9204711914062 2 604.920667 1207.82678 NaN NaN NaN NaN NaN NaN NaN 74.225 1 74.89 74.39 75.39 0.6644 0 0 0 1.0072 1 34161 34161 1.3295 0.92882 1 + 17226 17015 11098 11122 19531 19531 0.23118033469950205 LNLLLEYQK 9 Unmodified _LNLLLEYQK_ 0 0 0 nc|ENSG00000198947|P11532-4|DMD;nc|ENSG00000198947|P11532-11|DMD;nc|ENSG00000198947|P11532|DMD;ENSG00000198947|ENST00000357033|DMD;nc|ENSG00000198947|P11532-3|DMD;nc|ENSG00000198947|P11532-2|DMD nc|ENSG00000198947|P11532-4|DMD nc|ENSG00000198947|P11532-4|DMD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.3333129882812 2 567.331882 1132.64921 2.214 0.0012561 -1.6699 -0.00094739 0.54408 0.00030867 567.8322413079641 103.57 0.34239 103.62 103.46 103.81 0.055092 40 24 2 0 0 0 1.2169 1 56174 56174 0.45834 0 1 303260 17227 5967 11099 11123 19532 19532 0.08819158199935373 LNLLLFKLKE 10 Unmodified _LNLLLFKLKE_ 0 0 0 ENST00000508483.1_1_4:175237641-175237719:+|nuORF ENST00000508483.1_1_4:175237641-175237719:+|nuORF ENST00000508483.1_1_4:175237641-175237719:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 616.22607421875 2 615.894649 1229.77475 NaN NaN NaN NaN NaN NaN NaN 59.953 1 59.953 59.453 60.453 0 0 0 0 0.99774 1 27755 27755 3.5965 0.31518 1 17228 8531 11100 11124 19533 19533 0.16904870056168875 LNLLRNNLFHF 11 Unmodified _LNLLRNNLFHF_ 0 0 0 ENST00000267068.5_2_13:33110518-33110629:-|nuORF ENST00000267068.5_2_13:33110518-33110629:-|nuORF ENST00000267068.5_2_13:33110518-33110629:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.5975646972656 3 467.598094 1399.77245 NaN NaN NaN NaN NaN NaN NaN 73.011 1 73.675 73.175 74.175 0.66398 0 0 0 1.0072 1 33532 33532 1.3296 0 1 17229 6630 11101 11125 19534 19534 0.08855834371070159 LNLQRERLQNW 11 Unmodified _LNLQRERLQNW_ 0 0 0 ENST00000344824.10_2_19:16204506-16212133:+|nuORF ENST00000344824.10_2_19:16204506-16212133:+|nuORF ENST00000344824.10_2_19:16204506-16212133:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 735.401611328125 2 735.402224 1468.78989 NaN NaN NaN NaN NaN NaN NaN 70.503 1 70.503 70.003 71.003 0 0 0 0 1.0059 1 34220 34220 2.9952 1.5133 1 17230 7105 11102 11126 19535 19535 0.07425129906096117 LNLRRKDNSFN 11 Unmodified _LNLRRKDNSFN_ 0 0 0 ENST00000295454.7_1_4:47033615-47033663:+|nuORF ENST00000295454.7_1_4:47033615-47033663:+|nuORF ENST00000295454.7_1_4:47033615-47033663:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 688.8731079101562 2 688.873299 1375.73205 NaN NaN NaN NaN NaN NaN NaN 62.176 1 62.906 62.406 63.406 0.73077 0 0 0 0.98464 1 28947 28947 8.1555 0.54658 1 17231 6758 11103 11127 19536 19536 0.059208679806715736 LNLRRKYRRG 10 Unmodified _LNLRRKYRRG_ 0 0 0 REV__ENSG00000204920|ENST00000270014|ZNF155 REV__ENSG00000204920|ENST00000270014|ZNF155 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 666.4094848632812 2 666.410186 1330.80582 NaN NaN NaN NaN NaN NaN NaN 67.865 1 67.865 67.365 68.365 0 0 0 0 0.99774 1 32613 32613 3.5965 0.60125 1 + 17232 14443 11104 11128 19537 19537 0.15364880933634595 LNLVARLLH 9 Unmodified _LNLVARLLH_ 0 0 0 REV__ENSG00000124486|ENST00000378308|USP9X REV__ENSG00000124486|ENST00000378308|USP9X MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.8370971679688 2 524.834926 1047.6553 NaN NaN NaN NaN NaN NaN NaN 65.01 1 65.719 65.219 66.219 0.70891 0 0 0 0.84134 1 30673 30673 7.9102 0 1 + 17233 11656 11105 11129 19538 19538 0.13337721222137588 LNLVKLMPLKQ 11 Unmodified _LNLVKLMPLKQ_ 0 0 0 REV__ENSG00000164342|ENST00000296795|TLR3 REV__ENSG00000164342|ENST00000296795|TLR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 432.9422607421875 3 432.940581 1295.79991 NaN NaN NaN NaN NaN NaN NaN 63.605 1 63.605 63.105 64.105 0 0 0 0 1.0062 1 29946 29946 2.6312 0.19645 1 + 17234 13087 11106 11130 19539 19539 0.16384601587083125 LNLVVLKGI 9 Unmodified _LNLVVLKGI_ 0 0 0 REV__nc|ENSG00000168356|Q9UI33-2|SCN11A REV__nc|ENSG00000168356|Q9UI33-2|SCN11A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.5374755859375 2 484.828778 967.643003 NaN NaN NaN NaN NaN NaN NaN 76.462 1 77.126 76.626 77.626 0.66387 0 0 0 0.84134 1 35224 35224 7.9102 2.1783 1 + 17235 13345 11107 11131 19540 19540 0.1578868475909303 LNMECSDCI 9 Unmodified _LNMECSDCI_ 0 0 0 REV__ENSG00000198105|ENST00000395867|ZNF248 REV__ENSG00000198105|ENST00000395867|ZNF248 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.1763305664062 2 514.198296 1026.38204 NaN NaN NaN NaN NaN NaN NaN 63.269 1 63.269 62.769 63.769 0 0 0 0 0.89509 1 29750 29750 4.756 1.8668 1 + 17236 14320 11108 11132 19541 19541 -0.13009754336917467 LNMKWRRAKRI 11 Unmodified _LNMKWRRAKRI_ 0 0 0 ENST00000503676.5_1_17:47684685-47685264:-|nuORF ENST00000503676.5_1_17:47684685-47685264:-|nuORF ENST00000503676.5_1_17:47684685-47685264:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.3011474609375 3 491.297873 1470.87179 4.0057 0.001968 2.0545 0.0010094 6.0601 0.0029773 491.29855784582764 105.89 0.1307 106.21 106.11 106.24 0.31782 12 5 3 0 0 0 0.91378 1 48890 48890 0.094841 0.011491 1 511600 17237 8492 11109 11133 19542 19542 0.15518953784180667 LNMKWRRAKRI 11 Unmodified _LNMKWRRAKRI_ 0 0 0 ENST00000503676.5_1_17:47684685-47685264:-|nuORF ENST00000503676.5_1_17:47684685-47685264:-|nuORF ENST00000503676.5_1_17:47684685-47685264:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 491.297873 1470.87179 2.7687 0.0013603 2.3048 0.0011324 5.0736 0.0024926 491.2988316513878 105.79 0.088081 105.79 105.74 105.83 0 -0.1847 -0.0003433 NaN 0.094841 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 751220 17238 8492 11109 11133 0.15518953784180667 LNMKWRRAKRI 11 Unmodified _LNMKWRRAKRI_ 0 0 0 ENST00000503676.5_1_17:47684685-47685264:-|nuORF ENST00000503676.5_1_17:47684685-47685264:-|nuORF ENST00000503676.5_1_17:47684685-47685264:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 491.297873 1470.87179 1.9191 0.00094285 3.682 0.0018089 5.6011 0.0027518 491.29960062842633 105.88 0.080803 105.93 105.89 105.98 0.04837 -0.046388 0.0016864 NaN 0.094841 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 830660 17239 8492 11109 11133 0.15518953784180667 LNMLSALRA 9 Unmodified _LNMLSALRA_ 0 0 0 REV__ENSG00000015479|ENST00000394805|MATR3 REV__ENSG00000015479|ENST00000394805|MATR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.1920166015625 3 330.191788 987.553536 NaN NaN NaN NaN NaN NaN NaN 35.071 1 35.694 35.194 36.194 0.62294 0 0 0 0.86621 1 16072 16072 7.1017 0.89594 1 + 17240 10254 11110 11134 19543 19543 0.05926106808044551 LNMLSTEFY 9 Unmodified _LNMLSTEFY_ 0 0 0 ENST00000305963.2_1_X:135044632-135044698:-|nuORF ENST00000305963.2_1_X:135044632-135044698:-|nuORF ENST00000305963.2_1_X:135044632-135044698:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.2657470703125 2 559.26535 1116.51615 NaN NaN NaN NaN NaN NaN NaN 82.343 1 83.004 82.504 83.504 0.66019 0 0 0 0.90611 1 37939 37939 2.0598 0.21551 1 17241 6837 11111 11135 19544 19544 -0.037450292482162695 LNNPFQYYI 9 Unmodified _LNNPFQYYI_ 0 0 0 ENST00000299612.11_1_17:19286554-19286854:+|nuORF ENST00000299612.11_1_17:19286554-19286854:+|nuORF ENST00000299612.11_1_17:19286554-19286854:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.2935791015625 2 586.292756 1170.57096 NaN NaN NaN NaN NaN NaN NaN 12.83 1 13.137 12.637 13.637 0.30727 0 0 0 0.90777 1 5788 5788 1.6526 0.32309 1 17242 6789 11112 11136 19545 19545 -0.007502743852910498 LNPDAGAAL 9 Unmodified _LNPDAGAAL_ 0 0 0 REV__ENST00000445069.4_1_11:72065347-72145518:-|nuORF REV__ENST00000445069.4_1_11:72065347-72145518:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.225830078125 2 421.224342 840.434132 3.1283 0.0013177 0.27389 0.00011537 3.4022 0.0014331 421.22448227951026 48.031 0.39928 48.293 48.058 48.457 0.26209 35 15 3 0 0 0 0.36069 1 22017 22017 14.838 0 1 1470400 + 17243 12482 11113 11137 19546 19546 0.0075323645500020575 LNPHLSCRVRK 11 Unmodified _LNPHLSCRVRK_ 0 0 0 REV__ENST00000577191.5_1_17:7125289-7125622:+|nuORF REV__ENST00000577191.5_1_17:7125289-7125622:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 662.6148071289062 2 661.87733 1321.74011 3.6862 0.0024398 -2.8754 -0.0019032 0.81074 0.00053661 662.3782390869369 82.798 0.07737 83.045 82.995 83.072 0.24722 4 2 2 0 0 0 0.91111 1 38089 38089 1.1933 0.12188 1 1002600 + 17244 17479 11114 11138 19547 19547 0.09210723696401146 LNPKKFSI 8 Unmodified _LNPKKFSI_ 0 0 0 nc|ENSG00000125571|Q9NZH6-2|IL37;nc|ENSG00000125571|Q9NZH6-4|IL37;ENSG00000125571|ENST00000263326|IL37 nc|ENSG00000125571|Q9NZH6-2|IL37 nc|ENSG00000125571|Q9NZH6-2|IL37 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.73687744140625 2 473.789653 945.564752 NaN NaN NaN NaN NaN NaN NaN 73.118 1 73.118 72.618 73.618 0 0 0 0 0.9101 1 35608 35608 11.64 1.5664 1 17245 2406 11115 11139 19548 19548 0.08979252173844543 LNPWLVWYSRY 11 Unmodified _LNPWLVWYSRY_ 0 0 0 ENST00000510052.5_1_5:10227736-10249985:-|nuORF;ENST00000508553.1_1_5:10236514-10249985:-|nuORF;nc|ENSG00000150756|Q6P4H8-2|ATPSCKMT;ENSG00000150756|ENST00000511437|ATPSCKMT ENST00000510052.5_1_5:10227736-10249985:-|nuORF ENST00000510052.5_1_5:10227736-10249985:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 748.8878173828125 2 748.887887 1495.76122 NaN NaN NaN NaN NaN NaN NaN 74.535 1 74.793 74.293 75.293 0.25831 0 0 0 1.008 1 34286 34286 0.35063 0 1 17246 3677 11116 11140 19549 19549 0.033170122769433874 LNQKILKTFWL 11 Unmodified _LNQKILKTFWL_ 0 0 0 ENST00000588822.1_1_17:74729273-74729410:+|nuORF ENST00000588822.1_1_17:74729273-74729410:+|nuORF ENST00000588822.1_1_17:74729273-74729410:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 468.48486328125 3 468.618495 1402.83366 NaN NaN NaN NaN NaN NaN NaN 61.902 1 61.902 61.402 62.402 0 0 0 0 1.0062 1 28939 28939 2.6312 0.37851 1 17247 9211 11117 11141 19550 19550 0.14835346350514556 LNQKKRRRKK 10 Unmodified _LNQKKRRRKK_ 0 0 0 nc|ENSG00000145734|A6H8Y1-7|BDP1;nc|ENSG00000145734|A6H8Y1-6|BDP1;ENSG00000145734|ENST00000358731|BDP1;BDP1|p.K717Nfs*2|1|0.03|ENSG00000145734|chr5:71502701-71502705|AGCTG/-|frameshift_variant;nc|ENSG00000145734|A6H8Y1-4|BDP1;nc|ENSG00000145734|A6H8Y1-3|BDP1;BDP1|p.V1777Ifs*4|1|0.05|ENSG00000145734|chr5:71522889-71522890|-/AATCTCTA|frameshift_variant;nc|ENSG00000145734|A6H8Y1-2|BDP1;ENST00000508917.6_1_5:70751704-70841064:+|nuORF nc|ENSG00000145734|A6H8Y1-7|BDP1 nc|ENSG00000145734|A6H8Y1-7|BDP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 677.9465942382812 2 677.946936 1353.87932 NaN NaN NaN NaN NaN NaN NaN 80.603 1 81.263 80.763 81.763 0.65998 0 0 0 1.0015 1 37141 37141 0.45834 0 1 17248 3485 11118 11142 19551 19551 0.21653429376101485 LNQLLLPLLQ 10 Unmodified _LNQLLLPLLQ_ 0 0 0 ENST00000544442.5_1_12:121784793-121790143:-|nuORF;ENST00000545801.1_1_12:121785603-121790107:-|nuORF;ENST00000536416.5_1_12:121783870-121790143:-|nuORF;ENSG00000089053|ENST00000261819|ANAPC5 ENST00000544442.5_1_12:121784793-121790143:-|nuORF ENST00000544442.5_1_12:121784793-121790143:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 583.0036010742188 2 582.871174 1163.72779 NaN NaN NaN NaN NaN NaN NaN 64.201 1 64.917 64.417 65.417 0.71521 0 0 0 0.99464 1 30224 30224 6.2058 2.6093 1 17249 1028 11119 11143 19552 19552 0.15248010505047205 LNQRIKSLIVP 11 Unmodified _LNQRIKSLIVP_ 0 0 0 REV__nc|ENSG00000051825|Q99550-2|MPHOSPH9 REV__nc|ENSG00000051825|Q99550-2|MPHOSPH9 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.3211669921875 2 640.906079 1279.79761 3.3315 0.0021352 -3.359 -0.0021528 -0.027469 -1.7605E-05 641.407646679763 95.101 0.034966 95.101 95.076 95.111 0 4 2 2 0 0 0 0.13295 1 51138 51138 3.2813 2.9743 1 2849400 + 17250 10353 11120 11144 19553 19553 0.16889889173648953 LNQRRRRPLRR 11 Unmodified _LNQRRRRPLRR_ 0 0 0 nc|ENSG00000059145|Q9H9P5|UNKL;ENSG00000059145|ENST00000389221|UNKL;nc|ENSG00000059145|Q9H9P5-6|UNKL;ENST00000503648.1_1_16:1451355-1464692:-|nuORF;nc|ENSG00000059145|Q9H9P5-5|UNKL nc|ENSG00000059145|Q9H9P5|UNKL nc|ENSG00000059145|Q9H9P5|UNKL MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 305.1850891113281 5 304.995202 1519.93963 2.1892 0.00066768 -0.60566 -0.00018472 1.5835 0.00048296 304.99518135652585 49.254 0.64613 49.909 49.691 50.338 0.65525 34 22 2 0 0 0 0.13295 1 22586 22586 0.45452 0.45452 1 411930 17251 634 11121 11145 19554 19554 0.20045539759189523 LNQVSRRLETI 11 Unmodified _LNQVSRRLETI_ 0 0 0 REV__CON__Q6IFX2 REV__CON__Q6IFX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 664.8860473632812 2 664.885875 1327.7572 NaN NaN NaN NaN NaN NaN NaN 71.664 1 71.921 71.421 72.421 0.25786 0 0 0 1.0059 1 32852 32852 2.9952 0 1 + + 17252 10098 11122 11146 19555 19555 0.10642922783222275 LNRDLRFR 8 Unmodified _LNRDLRFR_ 0 0 0 ENSG00000166707|ENST00000650639|ZCCHC18 ENSG00000166707|ENST00000650639|ZCCHC18 ENSG00000166707|ENST00000650639|ZCCHC18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3184204101562 2 545.317432 1088.62031 3.3189 0.0018099 -1.1488 -0.00062645 2.1701 0.0011834 545.3166552432793 81.294 0.88069 81.542 80.979 81.86 0.24803 81 52 2 0 0 0 0.7441 1 37374 37374 2.3027 0 1 886180 17253 4499 11123 11147 19556 19556 0.07954478414171717 LNREFRIKLNS 11 Unmodified _LNREFRIKLNS_ 0 0 0 REV__ENSG00000091536|ENST00000647165|MYO15A REV__ENSG00000091536|ENST00000647165|MYO15A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 695.634765625 2 695.401692 1388.78883 NaN NaN NaN NaN NaN NaN NaN 82.288 1 82.288 81.788 82.788 0 0 0 0 1.0063 1 41138 41138 2.4985 0 1 + 17254 10734 11124 11148 19557 19557 0.10998915537197718 LNREVTKMRD 10 Unmodified _LNREVTKMRD_ 0 0 0 REV__ENSG00000136542|ENST00000259056|GALNT5 REV__ENSG00000136542|ENST00000259056|GALNT5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.2267150878906 3 421.227561 1260.66085 NaN NaN NaN NaN NaN NaN NaN 64.379 1 65.094 64.594 65.594 0.71521 0 0 0 0.99776 1 30329 30329 3.5871 0.59182 1 + 17255 12074 11125 11149 19558 19558 0.04095031951624151 LNRFELRL 8 Unmodified _LNRFELRL_ 0 0 0 REV__ENST00000470377.1_1_1:33256708-33272178:-|nuORF REV__ENST00000470377.1_1_1:33256708-33272178:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.8157348632812 2 530.816733 1059.61891 3.2816 0.0017419 -0.4994 -0.00026509 2.7822 0.0014768 530.8164232008194 37.49 0.37949 37.751 37.572 37.951 0.26083 27 11 3 0 0 0 0.57648 1 17154 17154 15.847 5.0233 1 918030 + 17256 16591 11126 11150 19559 19559 0.091488443254093 LNRFELRL 8 Unmodified _LNRFELRL_ 0 0 0 REV__ENST00000470377.1_1_1:33256708-33272178:-|nuORF REV__ENST00000470377.1_1_1:33256708-33272178:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 530.816733 1059.61891 3.1723 0.0016839 -0.49218 -0.00026125 2.6801 0.0014227 530.8164634915865 37.619 0.32278 37.619 37.462 37.784 0 0.089014 -0.00045047 NaN 15.847 18 12 2 NaN NaN NaN NaN 0 NaN NaN 0 417400 + 17257 16591 11126 11150 0.091488443254093 LNRFELRL 8 Unmodified _LNRFELRL_ 0 0 0 REV__ENST00000470377.1_1_1:33256708-33272178:-|nuORF REV__ENST00000470377.1_1_1:33256708-33272178:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 530.816733 1059.61891 3.1355 0.0016644 0.3244 0.0001722 3.4599 0.0018366 530.8168223805543 36.456 0.25774 37.249 37.149 37.407 0.79342 -0.28044 0.00041643 NaN 15.847 21 12 2 NaN NaN NaN NaN 0 NaN NaN 0 200740 + 17258 16591 11126 11150 0.091488443254093 LNRIEKLKQ 9 Unmodified _LNRIEKLKQ_ 0 0 0 REV__ENSG00000034693|ENST00000367591|PEX3 REV__ENSG00000034693|ENST00000367591|PEX3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.2706298828125 2 571.356222 1140.69789 NaN NaN NaN NaN NaN NaN NaN 62.085 1 62.816 62.316 63.316 0.73077 0 0 0 0.88916 1 28885 28885 6.2058 0.47393 1 + 17259 10298 11127 11151 19560 19560 0.13317071559686156 LNRIFFIFF 9 Unmodified _LNRIFFIFF_ 0 0 0 Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|142|1|anti-sense;Harlequin-int_dup446|chr19:20426579-20429510:-|1.2092047156725605|0.0242048410209908|5.64|525.0|162|2|anti-sense Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|142|1|anti-sense Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|142|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 608.8501586914062 2 608.847502 1215.68045 NaN NaN NaN NaN NaN NaN NaN 104.41 1 104.46 103.96 104.96 0.052994 0 0 0 0.90511 1 56532 56532 2.3027 0.24298 1 17260 9388 11128 11152 19561 19561 0.08123776024694962 LNRKAKLI 8 Unmodified _LNRKAKLI_ 0 0 0 REV__nc|ENSG00000166845|Q8IYD9|LAS2 REV__nc|ENSG00000166845|Q8IYD9|LAS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.32635498046875 2 478.324194 954.633835 3.4142 0.0016331 0.19379 9.2694E-05 3.608 0.0017258 478.32462021900363 12.585 0.10123 13.228 13.176 13.278 0.64272 4 2 2 0 0 0 0.72814 1 5671 5671 2.3027 0 1 1543700 + 17261 13264 11129 11153 19562 19562 0.15470336193425283 LNRKLRGRRL 10 Unmodified _LNRKLRGRRL_ 0 0 0 REV__ENSG00000081913|ENST00000262719|PHLPP1 REV__ENSG00000081913|ENST00000262719|PHLPP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.4489135742188 2 641.420554 1280.82655 NaN NaN NaN NaN NaN NaN NaN 61.092 1 61.831 61.331 62.331 0.7396 0 0 0 0.9754 1 28287 28287 9.3831 3.6513 1 + 17262 10612 11130 11154 19563 19563 0.1973747131332857 LNRKQKSKNWD 11 Unmodified _LNRKQKSKNWD_ 0 0 0 REV__ENST00000602725.5_1_1:32374275-32374353:-|nuORF REV__ENST00000602725.5_1_1:32374275-32374353:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.2469177246094 3 472.928392 1415.76335 2.3266 0.0011003 3.1999 0.0015133 5.5265 0.0026136 472.92825060430306 64.307 0.028564 65.023 65.013 65.042 0.71521 5 3 2 0 0 0 0.88721 1 30292 30292 1.2148 0 1 2890800 + 17263 17646 11131 11155 19564 19564 0.07209441014765616 LNRLIMRLNKR 11 Unmodified _LNRLIMRLNKR_ 0 0 0 REV__nc|ENSG00000211698|A0A0C4DH28|TRGV4 REV__nc|ENSG00000211698|A0A0C4DH28|TRGV4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 713.9434204101562 2 713.943005 1425.87146 NaN NaN NaN NaN NaN NaN NaN 79.018 1 79.018 78.518 79.518 0 0 0 0 1.0072 1 38962 38962 1.3295 0 1 + 17264 18120 11132 11156 19565 19565 0.17555534064331368 LNRLRRALM 9 Unmodified _LNRLRRALM_ 0 0 0 REV__nc|ENSG00000079435|Q05469-2|LIPE REV__nc|ENSG00000079435|Q05469-2|LIPE MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.8524780273438 2 571.850584 1141.68662 NaN NaN NaN NaN NaN NaN NaN 12.285 1 12.593 12.093 13.093 0.30727 0 0 0 0.89683 1 5509 5509 4.3292 0.73274 1 + 17265 10582 11133 11157 19566 19566 0.12143970984561747 LNRPRRRIRRK 11 Unmodified _LNRPRRRIRRK_ 0 0 0 REV__ENST00000569093.1_1_16:2479482-2485933:+|nuORF REV__ENST00000569093.1_1_16:2479482-2485933:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 760.903564453125 2 760.995283 1519.97601 NaN NaN NaN NaN NaN NaN NaN 12.618 1 12.618 12.118 13.118 0 0 0 0 1.0082 1 5498 5498 0.30703 0.30703 1 + 17266 9995 11134 11158 19567 19567 0.2368241665590176 LNRQPKRRRR 10 Unmodified _LNRQPKRRRR_ 0 0 0 REV__ENST00000464624.6_1_20:57428320-57466719:+|nuORF REV__ENST00000464624.6_1_20:57428320-57466719:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 690.385986328125 2 690.431984 1378.84942 NaN NaN NaN NaN NaN NaN NaN 106.26 1 106.86 106.36 107.36 0.60065 0 0 0 1.0015 1 49062 49062 0.45834 0.10771 1 + 17267 16532 11135 11159 19568 19568 0.17514490430767182 LNRRKKEKQK 10 Unmodified _LNRRKKEKQK_ 0 0 0 ENST00000373382.5_1_10:70931026-70931143:+|nuORF ENST00000373382.5_1_10:70931026-70931143:+|nuORF ENST00000373382.5_1_10:70931026-70931143:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 664.4180908203125 2 664.417677 1326.8208 NaN NaN NaN NaN NaN NaN NaN 30.658 1 30.658 30.158 31.158 0 0 0 0 1.0015 1 13853 13853 0.45834 0 1 17268 7359 11136 11160 19569 19569 0.1704632801097432 LNRRKKELRR 10 Unmodified _LNRRKKELRR_ 0 0 0 REV__nc|ENSG00000006283|O43497-34|CACNA1G REV__nc|ENSG00000006283|O43497-34|CACNA1G MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 685.009033203125 2 684.936568 1367.85858 NaN NaN NaN NaN NaN NaN NaN 67.793 1 68.495 67.995 68.995 0.70218 0 0 0 0.99812 1 32268 32268 3.2813 0.28607 1 + 17269 17852 11137 11161 19570 19570 0.18936838996432925 LNRRVGEQL 9 Unmodified _LNRRVGEQL_ 0 0 0 ENST00000477048.5_2_1:44399525-44401301:+|nuORF ENST00000477048.5_2_1:44399525-44401301:+|nuORF ENST00000477048.5_2_1:44399525-44401301:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.814453125 2 542.814722 1083.61489 3.4362 0.0018652 -1.0762 -0.00058416 2.3601 0.0012811 542.8143046583091 29.462 0.2194 30.08 29.991 30.211 0.61789 23 13 2 0 0 0 1.0601 1 13557 13557 0 0 1 188820 17270 8239 11138 11162 19571 19571 0.07642754831704224 LNRRYRRQPPQ 11 Unmodified _LNRRYRRQPPQ_ 0 0 0 REV__ENST00000442962.2_1_9:112295731-112296019:-|nuORF REV__ENST00000442962.2_1_9:112295731-112296019:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 742.8082885742188 2 742.421282 1482.82801 NaN NaN NaN NaN NaN NaN NaN 91.423 1 91.505 91.005 92.005 0.082848 0 0 0 1.0059 1 47377 47377 2.9952 1.5133 1 + 17271 16357 11139 11163 19572 19572 0.10591060611409375 LNRTELEML 9 Unmodified _LNRTELEML_ 0 0 0 ENSG00000152818|ENST00000367545|UTRN;nc|ENSG00000152818|P46939-2|UTRN;nc|ENSG00000152818|P46939-4|UTRN ENSG00000152818|ENST00000367545|UTRN ENSG00000152818|ENST00000367545|UTRN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.794677734375 2 559.797349 1117.58014 3.55 0.0019873 -2.2965 -0.0012856 1.2535 0.00070168 559.7957973499348 66.852 0.4097 67.508 67.368 67.778 0.65672 38 23 2 0 0 0 0.33646 1 30731 30731 15.248 0 1 846980 17272 3762 11140 11164 19573 19573 0.02605750908742266 LNRTNRIEIH 10 Unmodified _LNRTNRIEIH_ 0 0 0 REV__nc|ENSG00000165409|P16473-2|TSHR REV__nc|ENSG00000165409|P16473-2|TSHR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3545532226562 2 633.357285 1264.70002 NaN NaN NaN NaN NaN NaN NaN 73.239 1 73.903 73.403 74.403 0.66398 0 0 0 0.99464 1 33649 33649 6.2058 0.47393 1 + 17273 13158 11141 11165 19574 19574 0.0782550029750837 LNRVHLKKKRK 11 Unmodified _LNRVHLKKKRK_ 0 0 0 REV__ENST00000467485.5_1_6:26390412-26390454:+|nuORF REV__ENST00000467485.5_1_6:26390412-26390454:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.008544921875 3 473.984283 1418.93102 NaN NaN NaN NaN NaN NaN NaN 62.102 1 62.833 62.333 63.333 0.73077 0 0 0 1.0079 1 28898 28898 0.45452 0 1 + 17274 16555 11142 11166 19575 19575 0.23831173069993383 LNRYKIRHTRK 11 Unmodified _LNRYKIRHTRK_ 0 0 0 ENSG00000213967|ENST00000594466|ZNF726 ENSG00000213967|ENST00000594466|ZNF726 ENSG00000213967|ENST00000594466|ZNF726 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 742.8499145507812 2 742.949676 1483.8848 NaN NaN NaN NaN NaN NaN NaN 93.91 1 93.91 93.41 94.41 0 0 0 0 1.008 1 50234 50234 0.35063 0 1 17275 6105 11143 11167 19576 19576 0.16221108167906095 LNSKFWKHVR 10 Unmodified _LNSKFWKHVR_ 0 0 0 ENSG00000115602|ENST00000233954|IL1RL1 ENSG00000115602|ENST00000233954|IL1RL1 ENSG00000115602|ENST00000233954|IL1RL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 438.9189147949219 3 438.919168 1313.73567 NaN NaN NaN NaN NaN NaN NaN 72.948 1 73.647 73.147 74.147 0.69881 0 0 0 0.99976 1 35148 35148 1.9064 0.45126 1 17276 1978 11144 11168 19577 19577 0.091355825451501 LNSKKSEKNF 10 Unmodified _LNSKKSEKNF_ 0 0 0 REV__ENSG00000187753|ENST00000339137|C9orf153 REV__ENSG00000187753|ENST00000339137|C9orf153 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.8297729492188 2 597.827495 1193.64044 NaN NaN NaN NaN NaN NaN NaN 74.702 1 74.96 74.46 75.46 0.25831 0 0 0 0.95729 1 34364 34364 12.241 0.60036 1 + 17277 14110 11145 11169 19578 19578 0.051361845634801284 LNTRGVGMQC 10 Unmodified _LNTRGVGMQC_ 0 0 0 REV__ENSG00000107719|ENST00000263563|PALD1 REV__ENSG00000107719|ENST00000263563|PALD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.7597045898438 2 539.760243 1077.50593 NaN NaN NaN NaN NaN NaN NaN 70.694 1 71.398 70.898 71.898 0.70386 0 0 0 0.98664 1 33893 33893 7.609 0.88579 1 + 17278 11120 11146 11170 19579 19579 -0.029719154544181947 LNTRRLFLNEN 11 Unmodified _LNTRRLFLNEN_ 0 0 0 ENSG00000162763|ENST00000294818|LRRC52 ENSG00000162763|ENST00000294818|LRRC52 ENSG00000162763|ENST00000294818|LRRC52 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.9435729980469 3 463.924759 1388.75245 NaN NaN NaN NaN NaN NaN NaN 73.954 1 74.213 73.713 74.713 0.25876 0 0 0 1.0047 1 33983 33983 2.084 0 1 17279 4165 11147 11171 19580 19580 0.07362038640462742 LNVAKHIKV 9 Unmodified _LNVAKHIKV_ 0 0 0 REV__ENSG00000170743|ENST00000318881|SYT9 REV__ENSG00000170743|ENST00000318881|SYT9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.33074951171875 2 511.329476 1020.6444 NaN NaN NaN NaN NaN NaN NaN 74.854 1 74.854 74.354 75.354 0 0 0 0 0.62812 1 36640 36640 14.838 4.0143 1 + 17280 13448 11148 11172 19581 19581 0.13490318847846083 LNVCKYRPKWF 11 Unmodified _LNVCKYRPKWF_ 0 0 0 REV__ENST00000531184.5_1_8:144640550-144641727:+|nuORF REV__ENST00000531184.5_1_8:144640550-144641727:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 727.3922729492188 2 727.392282 1452.77001 NaN NaN NaN NaN NaN NaN NaN 72.548 1 73.252 72.752 73.752 0.70386 0 0 0 1.008 1 34932 34932 0.35063 0 1 + 17281 10994 11149 11173 19582 19582 0.06173662641754163 LNVDQNQNSYR 11 Unmodified _LNVDQNQNSYR_ 0 0 0 HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant;ENSG00000143341|ENST00000271588|HMCN1;nc|ENSG00000143341|Q96RW7-2|HMCN1;HMCN1|p.S4770Kfs*9|1|0.12|ENSG00000143341|chr1:186145444-186145445|-/AGTCTATAAATAG|frameshift_variant HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.3971862792969 3 450.88474 1349.63239 NaN NaN NaN NaN NaN NaN NaN 65.093 1 65.093 64.593 65.593 0 0 0 0 1.0059 1 30946 30946 1.2148 0 1 17282 3360 11150 11174 19583 19583 -0.02843994423960794 LNVFRHFRVDE 11 Unmodified _LNVFRHFRVDE_ 0 0 0 ENST00000552943.5_1_16:699416-703842:+|nuORF;nc|ENSG00000161996|Q96KV7-3|WDR90;ENST00000420061.6_1_16:699416-706047:+|nuORF;nc|ENSG00000161996|Q96KV7-5|WDR90;ENST00000549648.5_1_16:699416-706047:+|nuORF;ENSG00000161996|ENST00000293879|WDR90 ENST00000552943.5_1_16:699416-703842:+|nuORF ENST00000552943.5_1_16:699416-703842:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.086669921875 3 477.921237 1430.74188 NaN NaN NaN NaN NaN NaN NaN 66.518 1 66.518 66.018 67.018 0 0 0 0 1.0059 1 31803 31803 1.2148 0.10508 1 17283 4114 11151 11175 19584 19584 0.04374055986045278 LNVILAECNL 10 Unmodified _LNVILAECNL_ 0 0 0 ENST00000335790.7_1_11:8285039-8285096:-|nuORF ENST00000335790.7_1_11:8285039-8285096:-|nuORF ENST00000335790.7_1_11:8285039-8285096:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.171630859375 2 551.302267 1100.58998 NaN NaN NaN NaN NaN NaN NaN 62.972 1 63.695 63.195 64.195 0.72236 0 0 0 0.9754 1 29450 29450 9.3831 0 1 17284 7026 11152 11176 19585 19585 0.04370938914121325 LNVKELKRKLE 11 Unmodified _LNVKELKRKLE_ 0 0 0 nc|ENSG00000174450|Q8N9W4-2|GOLGA6L2;nc|ENSG00000273756|P0DX02|GOLGA6L26;nc|ENSG00000174450|Q8N9W4-1|GOLGA6L2;ENSG00000273976|ENST00000614055|GOLGA6L1;ENSG00000277322|ENST00000619213|GOLGA6L6;ENST00000567652.1_3_15:28798864-28806522:+|nuORF;nc|ENSG00000227717|P0DX01|GOLGA6L25;nc|ENSG00000237850|P0DX00|GOLGA6L24;ENSG00000277865|ENST00000622895|GOLGA6L22;ENSG00000174450|ENST00000567107|GOLGA6L2 nc|ENSG00000174450|Q8N9W4-2|GOLGA6L2 nc|ENSG00000174450|Q8N9W4-2|GOLGA6L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 685.432861328125 2 685.429919 1368.84528 NaN NaN NaN NaN NaN NaN NaN 63.949 1 64.664 64.164 65.164 0.71521 0 0 0 1.0059 1 30039 30039 2.9952 0.26005 1 17285 4979 11153 11177 19586 19586 0.17561543373858512 LNVKTKKNAP 10 Unmodified _LNVKTKKNAP_ 0 0 0 ENSG00000178974|ENST00000313833|FBXO34 ENSG00000178974|ENST00000313833|FBXO34 ENSG00000178974|ENST00000313833|FBXO34 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 556.841796875 2 556.842948 1111.67134 NaN NaN NaN NaN NaN NaN NaN 43.017 1 43.832 43.332 44.332 0.81444 0 0 0 0.99812 1 19572 19572 3.2813 0.28607 1 17286 5190 11154 11178 19587 19587 0.11997382668369028 LNVKYYRFYDR 11 Unmodified _LNVKYYRFYDR_ 0 0 0 REV__nc|ENSG00000086619|Q86YB8-2|ERO1B REV__nc|ENSG00000086619|Q86YB8-2|ERO1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.0554809570312 3 512.936776 1535.7885 NaN NaN NaN NaN NaN NaN NaN 72.701 1 73.365 72.865 73.865 0.66398 0 0 0 1.0082 1 33365 33365 0.094841 0.011491 1 + 17287 10657 11155 11179 19588 19588 0.04203495817318981 LNVPLIKIP 9 Unmodified _LNVPLIKIP_ 0 0 0 REV__ENSG00000125484|ENST00000372146|GTF3C4 REV__ENSG00000125484|ENST00000372146|GTF3C4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.80712890625 2 503.836603 1005.65865 NaN NaN NaN NaN NaN NaN NaN 65.273 1 65.981 65.481 66.481 0.70891 0 0 0 0.89683 1 30849 30849 4.3292 0 1 + 17288 11683 11156 11180 19589 19589 0.15604971276127344 LNVRRKEVL 9 Unmodified _LNVRRKEVL_ 0 0 0 REV__ENST00000416591.5_1_2:241535566-241537362:+|nuORF REV__ENST00000416591.5_1_2:241535566-241537362:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.2411193847656 3 376.240018 1125.69823 2.7683 0.0010415 -0.8479 -0.00031901 1.9204 0.00072253 376.23970839545757 18.531 0.1116 19.191 19.138 19.25 0.66072 27 16 2 0 0 0 0.27615 1 8386 8386 18.373 0 1 2450900 + 17289 16134 11157 11181 19590 19590 0.14040491279570233 LNVRRKEVL 9 Unmodified _LNVRRKEVL_ 0 0 0 REV__ENST00000416591.5_1_2:241535566-241537362:+|nuORF REV__ENST00000416591.5_1_2:241535566-241537362:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 376.240018 1125.69823 2.8794 0.0010833 -0.58101 -0.0002186 2.2984 0.00086475 376.2397945522118 19.595 0.11892 19.595 19.534 19.652 0 0.25305 -4.4078E-05 NaN 18.373 17 14 2 NaN NaN NaN NaN 0 NaN NaN 0 702920 + 17290 16134 11157 11181 0.14040491279570233 LNVRRRRQVRR 11 Unmodified _LNVRRRRQVRR_ 0 0 0 REV__ENSG00000152402|ENST00000526355|GUCY1A2 REV__ENSG00000152402|ENST00000526355|GUCY1A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 754.9785766601562 2 754.97709 1507.93963 NaN NaN NaN NaN NaN NaN NaN 57.506 1 58.274 57.774 58.774 0.76861 0 0 0 1.008 1 26337 26337 0.30703 0.30703 1 + 17291 12647 11158 11182 19591 19591 0.20597539759182837 LNVVLNTLKRL 11 Unmodified _LNVVLNTLKRL_ 0 0 0 nc|ENSG00000205176|Q8IX06|REXO1L1P nc|ENSG00000205176|Q8IX06|REXO1L1P nc|ENSG00000205176|Q8IX06|REXO1L1P MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 642.2354125976562 2 641.913904 1281.81326 NaN NaN NaN NaN NaN NaN NaN 72.585 1 73.289 72.789 73.789 0.70386 0 0 0 1.0041 1 34957 34957 5.2969 0 1 17292 9816 11159 11183 19592 19592 0.1836217569073142 LNVVLQLL 8 Unmodified _LNVVLQLL_ 0 0 0 nc|ENSG00000141314|P58872-2|RHBDL3;nc|ENSG00000141314|P58872-3|RHBDL3;ENSG00000141314|ENST00000269051|RHBDL3 nc|ENSG00000141314|P58872-2|RHBDL3 nc|ENSG00000141314|P58872-2|RHBDL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 304.5364074707031 3 304.535661 910.585153 NaN NaN NaN NaN NaN NaN NaN 49.43 1 49.43 48.93 49.93 0 0 0 0 0.99035 1 22635 22635 0.40072 0 1 17293 3245 11160 11184 19593 19593 0.12628422833677178 LNWHFERLRQQ 11 Unmodified _LNWHFERLRQQ_ 0 0 0 REV__ENST00000379705.7_1_13:38357476-38444175:-|nuORF REV__ENST00000379705.7_1_13:38357476-38444175:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.4521789550781 3 509.604019 1525.79023 NaN NaN NaN NaN NaN NaN NaN 69.45 1 69.45 68.95 69.95 0 0 0 0 1.0079 1 33536 33536 0.45452 0 1 + 17294 15873 11161 11185 19594 19594 0.04836549625929365 LNWHIKEIWHK 11 Unmodified _LNWHIKEIWHK_ 0 0 0 ENST00000484847.5_1_7:50343903-50367553:+|nuORF ENST00000484847.5_1_7:50343903-50367553:+|nuORF ENST00000484847.5_1_7:50343903-50367553:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 752.4152221679688 2 752.414603 1502.81465 NaN NaN NaN NaN NaN NaN NaN 64.881 1 64.881 64.381 65.381 0 0 0 0 1.0072 1 30824 30824 1.3295 0 1 17295 8325 11162 11186 19595 19595 0.08335809779464398 LNWLKQVKRP 10 Unmodified _LNWLKQVKRP_ 0 0 0 REV__ENSG00000162621|ENST00000294635|LRRC53 REV__ENSG00000162621|ENST00000294635|LRRC53 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.3952026367188 2 641.393139 1280.77173 NaN NaN NaN NaN NaN NaN NaN 72.417 1 72.417 71.917 72.917 0 0 0 0 0.99774 1 35225 35225 3.5965 0 1 + 17296 12948 11163 11187 19596 19596 0.14257039722019726 LNWLVLWP 8 Unmodified _LNWLVLWP_ 0 0 0 REV__ENST00000264039.6_1_2:241407109-241407217:+|nuORF REV__ENST00000264039.6_1_2:241407109-241407217:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.8021850585938 2 520.80002 1039.58549 NaN NaN NaN NaN NaN NaN NaN 72.188 1 72.892 72.392 73.392 0.70386 0 0 0 0.99035 1 34726 34726 5.7604 0.52976 1 + 17297 15010 11164 11188 19597 19597 0.0672784255350507 LNWRRRIREIR 11 Unmodified _LNWRRRIREIR_ 0 0 0 ENSG00000167778|ENST00000301463|SPRYD3;ENST00000550564.1_1_12:53468877-53473168:-|nuORF ENSG00000167778|ENST00000301463|SPRYD3 ENSG00000167778|ENST00000301463|SPRYD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 784.47412109375 2 784.473849 1566.93315 NaN NaN NaN NaN NaN NaN NaN 83.678 1 83.678 83.178 84.178 0 0 0 0 1.008 1 42189 42189 0.35063 0 1 17298 4581 11165 11189 19598 19598 0.1723560180782897 LNWRRRIREIR 11 Unmodified _LNWRRRIREIR_ 0 0 0 ENSG00000167778|ENST00000301463|SPRYD3;ENST00000550564.1_1_12:53468877-53473168:-|nuORF ENSG00000167778|ENST00000301463|SPRYD3 ENSG00000167778|ENST00000301463|SPRYD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 784.827392578125 2 784.473849 1566.93315 NaN NaN NaN NaN NaN NaN NaN 106.12 1 106.17 105.67 106.67 0.04837 0 0 0 1.0072 1 57416 57416 1.3295 1.0225 1 17299 4581 11165 11189 19599 19599 0.1723560180782897 LNWYSKYREQE 11 Unmodified _LNWYSKYREQE_ 0 0 0 MKLN1|p.I366Lfs*9|1|0.26|ENSG00000128585|chr7:131437920-131437920|A/-|frameshift_variant;ENST00000494785.5_1_7:131012658-131163543:+|nuORF;ENSG00000128585|ENST00000352689|MKLN1 MKLN1|p.I366Lfs*9|1|0.26|ENSG00000128585|chr7:131437920-131437920|A/-|frameshift_variant MKLN1|p.I366Lfs*9|1|0.26|ENSG00000128585|chr7:131437920-131437920|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.08343505859375 3 505.912407 1514.71539 NaN NaN NaN NaN NaN NaN NaN 62.188 1 62.919 62.419 63.419 0.73077 0 0 0 1.0072 1 28954 28954 0.45452 0 1 17300 2517 11166 11190 19600 19600 -0.0213767769594142 LNYIQIKRIRE 11 Unmodified _LNYIQIKRIRE_ 0 0 0 nc|ENSG00000156414|Q8NDG6-2|TDRD9;ENSG00000156414|ENST00000409874|TDRD9 nc|ENSG00000156414|Q8NDG6-2|TDRD9 nc|ENSG00000156414|Q8NDG6-2|TDRD9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.6326904296875 3 482.624421 1444.85143 NaN NaN NaN NaN NaN NaN NaN 74.599 1 75.263 74.763 75.763 0.6644 0 0 0 1.0079 1 34344 34344 0.50596 0 1 17301 3909 11167 11191 19601 19601 0.1468006160537243 LNYMAMTRYRE 11 Unmodified _LNYMAMTRYRE_ 0 0 0 REV__nc|ENSG00000197653|Q8IVF4|DNAH10 REV__nc|ENSG00000197653|Q8IVF4|DNAH10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 724.3425903320312 2 724.344671 1446.67479 NaN NaN NaN NaN NaN NaN NaN 71.966 1 72.67 72.17 73.17 0.70386 0 0 0 1.0061 1 34602 34602 2.7352 1.2533 1 + 17302 14297 11168 11192 19602 19602 -0.030680586116204722 LNYVKVPF 8 Unmodified _LNYVKVPF_ 0 0 0 REV__ENST00000260327.8_1_15:44816782-44816941:+|nuORF REV__ENST00000260327.8_1_15:44816782-44816941:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.287109375 2 490.284203 978.553853 NaN NaN NaN NaN NaN NaN NaN 51.477 1 52.294 51.794 52.794 0.81738 0 0 0 0.99035 1 23449 23449 2.5775 0 1 + 17303 14955 11169 11193 19603 19603 0.06371849799563734 LNYYMQDRDCE 11 Unmodified _LNYYMQDRDCE_ 0 0 0 REV__ENSG00000138095|ENST00000260665|LRPPRC REV__ENSG00000138095|ENST00000260665|LRPPRC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.1063232421875 3 483.86396 1448.57005 NaN NaN NaN NaN NaN NaN NaN 71.54 1 71.798 71.298 72.298 0.25786 0 0 0 1.0072 1 32773 32773 0.45452 0 1 + 17304 12147 11170 11194 19604 19604 -0.13629224878786772 LPAADATAL 9 Unmodified _LPAADATAL_ 0 0 0 ENSG00000125872|ENST00000378858|LRRN4;LRRN4|p.L313Sfs*19|1|0.23|ENSG00000125872|chr20:6044604-6044604|G/-|frameshift_variant ENSG00000125872|ENST00000378858|LRRN4 ENSG00000125872|ENST00000378858|LRRN4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 842.4642333984375 1 842.46181 841.454533 3.598 0.0030312 0.50486 0.00042532 4.1028 0.0034565 842.4616381150986 48.221 0.20167 49.05 48.916 49.117 0.82915 13 9 2 0 0 0 0.026068 1 21941 21941 60.39 20.432 1 274390 17305 2431 11171 11195 19605 19605 0.02746407114784688 LPAADPHA 8 Unmodified _LPAADPHA_ 0 0 0 ENST00000421462.5_1_2:159314085-159314565:+|nuORF ENST00000421462.5_1_2:159314085-159314565:+|nuORF ENST00000421462.5_1_2:159314085-159314565:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 396.2063903808594 2 396.205953 790.397353 3.0713 0.0012169 -0.47566 -0.00018846 2.5956 0.0010284 396.20556121222467 92.448 0.5453 93.095 92.841 93.386 0.64714 42 27 2 0 0 0 0.7471 1 42528 42528 0.79363 0 1 510110 17306 7759 11172 11196 19606 19606 -0.006230153709225306 LPAAGVGDMVM 11 Oxidation (M) _LPAAGVGDMVM(Oxidation (M))_ LPAAGVGDM(0.025)VM(0.975) LPAAGVGDM(-16)VM(16) 0 0 1 ENSG00000125691|ENST00000479035|RPL23;ENST00000577760.1_1_17:37008851-37009031:-|nuORF;ENST00000584912.5_1_17:37008851-37009963:-|nuORF ENSG00000125691|ENST00000479035|RPL23 ENSG00000125691|ENST00000479035|RPL23 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.7613525390625 2 538.759378 1075.5042 3.1898 0.0017185 0.86629 0.00046672 4.0561 0.0021852 538.75962824941 53.45 0.31573 53.715 53.552 53.868 0.26462 23 16 2 0 0 0 0.01224 1 24469 24469 64.236 41.5 2 656220 17307 2415 11173 11197 19607 19607 31 -0.03052969263058003 LPAAGVGDMVM 11 Unmodified _LPAAGVGDMVM_ 0 0 0 ENSG00000125691|ENST00000479035|RPL23;ENST00000577760.1_1_17:37008851-37009031:-|nuORF;ENST00000584912.5_1_17:37008851-37009963:-|nuORF ENSG00000125691|ENST00000479035|RPL23 ENSG00000125691|ENST00000479035|RPL23 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.7638549804688 2 530.76192 1059.50929 3.4433 0.0018276 -0.047424 -2.5171E-05 3.3959 0.0018024 530.7620235611547 68.527 0.35943 68.78 68.587 68.946 0.25227 63 25 3 0 0 0 0.031964 3 31398 31357;31398;31447 54.774 37.661 1 906680 17308 2415 11173 11198 19608;19609;19610 19609 -0.018086654004264346 LPAAGVGDMVM 11 Unmodified _LPAAGVGDMVM_ 0 0 0 ENSG00000125691|ENST00000479035|RPL23;ENST00000577760.1_1_17:37008851-37009031:-|nuORF;ENST00000584912.5_1_17:37008851-37009963:-|nuORF ENSG00000125691|ENST00000479035|RPL23 ENSG00000125691|ENST00000479035|RPL23 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.76611328125 2 530.76192 1059.50929 3.1583 0.0016763 0.57498 0.00030518 3.7332 0.0019815 530.7623442587793 68.011 0.35522 68.669 68.467 68.822 0.65777 46 22 3 0 0 0 0.01224 2 31152 31152;31198 64.236 43.783 1 1231500 17309 2415 11173 11198 19611;19612 19611 -0.018086654004264346 LPAARTMR 8 Unmodified _LPAARTMR_ 0 0 0 nc|ENSG00000182095|O15417-2|TNRC18 nc|ENSG00000182095|O15417-2|TNRC18 nc|ENSG00000182095|O15417-2|TNRC18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 458.2649841308594 2 458.263279 914.512005 3.1385 0.0014383 0.87826 0.00040247 4.0168 0.0018408 458.2635390071923 100.52 0.89352 101.11 100.98 101.87 0.59716 81 33 3 0 0 0 0.7441 2 46565 46565;46626 2.3027 1.5091 1 7940100 17310 9771 11174 11199 19613;19614 19613 0.05132970839383688 LPADDYTSL 9 Unmodified _LPADDYTSL_ 0 0 0 ENSG00000103067|ENST00000473183|ESRP2;nc|ENSG00000103067|Q9H6T0|ESRP2 ENSG00000103067|ENST00000473183|ESRP2 ENSG00000103067|ENST00000473183|ESRP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 994.4764404296875 1 994.472768 993.465492 3.6838 0.0036634 -0.27947 -0.00027792 3.4043 0.0033855 994.4722379453973 54.835 0.12047 54.835 54.757 54.877 0 12 9 2 0 0 0 0.023109 1 25173 25173 64.236 26.262 1 558640 17311 1374 11175 11200 19615 19615 -0.03150235301563953 LPADDYTSL 9 Unmodified _LPADDYTSL_ 0 0 0 ENSG00000103067|ENST00000473183|ESRP2;nc|ENSG00000103067|Q9H6T0|ESRP2 ENSG00000103067|ENST00000473183|ESRP2 ENSG00000103067|ENST00000473183|ESRP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 994.4761962890625 1 994.472768 993.465492 3.3083 0.00329 0.46306 0.0004605 3.7713 0.0037505 994.4731769080446 53.796 0.30495 54.6 54.485 54.79 0.8035 22 13 2 0 0 0 0.028312 2 24528 24528;24580 57.471 30.588 1 392290 17312 1374 11175 11200 19616;19617 19616 -0.03150235301563953 LPADPILQAAK 11 Unmodified _LPADPILQAAK_ 0 0 0 ENSG00000219607|ENST00000405617|PPP1R3G ENSG00000219607|ENST00000405617|PPP1R3G ENSG00000219607|ENST00000405617|PPP1R3G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.5608825683594 3 379.560646 1135.66011 2.565 0.00097358 -0.44786 -0.00016999 2.1171 0.00080359 379.56028254632577 29.497 0.18876 30.287 30.185 30.374 0.78921 35 15 3 0 0 0 0.404 1 13280 13280 21.799 0 1 3716000 17313 6144 11176 11201 19618 19618 0.09770560574224874 LPADPILQAAK 11 Unmodified _LPADPILQAAK_ 0 0 0 ENSG00000219607|ENST00000405617|PPP1R3G ENSG00000219607|ENST00000405617|PPP1R3G ENSG00000219607|ENST00000405617|PPP1R3G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.5614929199219 3 379.560646 1135.66011 3.0781 0.0011683 -0.21803 -8.2757E-05 2.8601 0.0010856 379.5604451038542 30.117 0.317 30.375 30.249 30.566 0.25804 73 27 3 0 0 0 0.55555 1 13722 13722 17.049 0 1 2987300 17314 6144 11176 11201 19619 19619 0.09770560574224874 LPADPILQAAK 11 Unmodified _LPADPILQAAK_ 0 0 0 ENSG00000219607|ENST00000405617|PPP1R3G ENSG00000219607|ENST00000405617|PPP1R3G ENSG00000219607|ENST00000405617|PPP1R3G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.5616760253906 3 379.560646 1135.66011 2.7428 0.0010411 -0.39315 -0.00014923 2.3496 0.00089183 379.56048834333717 29.858 0.30861 30.476 30.287 30.595 0.61789 60 25 3 0 0 0 0.55555 2 13657 13657;13701 17.049 0 1 2069300 17315 6144 11176 11201 19620;19621 19620 0.09770560574224874 LPADPILQAAK 11 Unmodified _LPADPILQAAK_ 0 0 0 ENSG00000219607|ENST00000405617|PPP1R3G ENSG00000219607|ENST00000405617|PPP1R3G ENSG00000219607|ENST00000405617|PPP1R3G MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 379.560646 1135.66011 2.9798 0.001131 -0.05491 -2.0842E-05 2.9249 0.0011102 379.56060560243236 30.4 0.28002 30.4 30.253 30.533 0 0.015201 0.00022139 NaN 21.799 41 18 3 NaN NaN NaN NaN 0 NaN NaN 0 3024500 17316 6144 11176 11201 0.09770560574224874 LPADPSLAL 9 Unmodified _LPADPSLAL_ 0 0 0 ENSG00000269190|ENST00000292852|FBXO17 ENSG00000269190|ENST00000292852|FBXO17 ENSG00000269190|ENST00000292852|FBXO17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 896.50927734375 1 896.50876 895.501483 4.1657 0.0037346 0.26879 0.00024097 4.4345 0.0039756 896.5082097788597 69.057 0.21075 69.312 69.225 69.436 0.25443 20 13 2 0 0 0 0.012869 2 31619 31619;31671 77.984 13.064 1 377590 17317 6328 11177 11202 19622;19623 19622 0.04955266665945146 LPADPSLAL 9 Unmodified _LPADPSLAL_ 0 0 0 ENSG00000269190|ENST00000292852|FBXO17 ENSG00000269190|ENST00000292852|FBXO17 ENSG00000269190|ENST00000292852|FBXO17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 896.5127563476562 1 896.50876 895.501483 3.7512 0.003363 0.5687 0.00050984 4.3199 0.0038729 896.509591899579 68.555 0.28969 69.214 69.043 69.333 0.65924 27 19 2 0 0 0 0.020718 1 31391 31391 67.344 13.768 1 484770 17318 6328 11177 11202 19624 19624 0.04955266665945146 LPAEAANRH 9 Unmodified _LPAEAANRH_ 0 0 0 nc|ENSG00000167632|Q96Q05-3|TRAPPC9;ENSG00000167632|ENST00000438773|TRAPPC9;nc|ENSG00000167632|Q96Q05-2|TRAPPC9 nc|ENSG00000167632|Q96Q05-3|TRAPPC9 nc|ENSG00000167632|Q96Q05-3|TRAPPC9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.7611389160156 2 489.759415 977.504277 2.9688 0.001454 0.24549 0.00012023 3.2143 0.0015742 489.75931312445306 76.717 0.33655 76.972 76.797 77.133 0.25533 54 23 3 0 0 0 0.057744 1 35344 35344 43.858 3.4097 1 1977500 17319 4565 11178 11203 19625 19625 0.014625348434606167 LPAEAANRH 9 Unmodified _LPAEAANRH_ 0 0 0 nc|ENSG00000167632|Q96Q05-3|TRAPPC9;ENSG00000167632|ENST00000438773|TRAPPC9;nc|ENSG00000167632|Q96Q05-2|TRAPPC9 nc|ENSG00000167632|Q96Q05-3|TRAPPC9 nc|ENSG00000167632|Q96Q05-3|TRAPPC9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.7603454589844 2 489.759415 977.504277 2.8549 0.0013982 1.102 0.0005397 3.9568 0.0019379 489.7597361950495 76.234 0.37872 76.897 76.715 77.093 0.66387 55 24 3 0 0 0 0.086415 2 35138 35138;35185 36.127 4.0101 1 1882100 17320 4565 11178 11203 19626;19627 19626 0.014625348434606167 LPAEEAPAL 9 Unmodified _LPAEEAPAL_ 0 0 0 ENST00000493307.1_1_7:150020415-150021458:+|nuORF;ENST00000323078.7_1_7:150020415-150033884:+|nuORF;ENST00000463441.5_1_7:150020319-150023055:+|nuORF ENST00000493307.1_1_7:150020415-150021458:+|nuORF ENST00000493307.1_1_7:150020415-150021458:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 455.749267578125 2 455.74765 909.480748 2.7959 0.0012742 1.5115 0.00068888 4.3074 0.0019631 455.7483248534534 51.702 0.23688 52.364 52.199 52.436 0.66198 20 12 2 0 0 0 0.12301 1 23617 23617 28.487 10.352 1 243110 17321 6945 11179 11204 19628 19628 0.02238676286287955 LPAEEAPAL 9 Unmodified _LPAEEAPAL_ 0 0 0 ENST00000493307.1_1_7:150020415-150021458:+|nuORF;ENST00000323078.7_1_7:150020415-150033884:+|nuORF;ENST00000463441.5_1_7:150020319-150023055:+|nuORF ENST00000493307.1_1_7:150020415-150021458:+|nuORF ENST00000493307.1_1_7:150020415-150021458:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 455.74765 909.480748 2.171 0.00098944 0.58816 0.00026805 2.7592 0.0012575 455.74793189155224 51.623 0.23473 52.434 52.291 52.526 0.81066 0.034632 -0.00041918 NaN 28.487 16 12 2 NaN NaN NaN NaN 0 NaN NaN 0 212850 17322 6945 11179 11204 0.02238676286287955 LPAEVLDSL 9 Unmodified _LPAEVLDSL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.77020263671875 2 478.768583 955.522613 2.4782 0.0011865 0.37565 0.00017985 2.8538 0.0013663 478.76878940886263 76.999 0.45629 76.999 76.789 77.245 0 85 31 4 0 0 0 0.0022375 3 37695 37695;37743;37801 101.72 30.588 1 13303000 17323 2210 11180 11205 19629;19630;19631 19629 0.04307231974826209 LPAEVLDSL 9 Unmodified _LPAEVLDSL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 956.5311279296875 1 956.529889 955.522613 3.0739 0.0029403 -0.20938 -0.00020028 2.8645 0.00274 956.5297783262473 77.012 0.32077 77.012 76.854 77.174 0 40 21 3 0 0 0 0.00033079 2 37760 37703;37760 133.7 33.331 1 5061800 17324 2210 11180 11205 19632;19633 19633 0.04307231974826209 LPAEVLDSL 9 Unmodified _LPAEVLDSL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.770263671875 2 478.768583 955.522613 2.4927 0.0011934 -0.10641 -5.0945E-05 2.3863 0.0011425 478.76852916459126 76.103 0.44493 76.727 76.494 76.938 0.62397 98 33 4 0 0 0 0.0022375 3 36853 36804;36853;36910 101.72 20.109 1 14809000 17325 2210 11180 11205 19634;19635;19636 19635 0.04307231974826209 LPAEVLDSL 9 Unmodified _LPAEVLDSL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 956.5324096679688 1 956.529889 955.522613 3.0387 0.0029066 -0.44654 -0.00042713 2.5921 0.0024795 956.5295393350356 76.106 0.31602 76.73 76.576 76.892 0.62397 41 23 2 0 0 0 0.0014044 2 36836 36836;36889 112.59 41.46 1 4193700 17326 2210 11180 11205 19637;19638 19637 0.04307231974826209 LPAEVLDSL 9 Unmodified _LPAEVLDSL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.76995849609375 2 478.768583 955.522613 2.8684 0.0013733 0.13457 6.4427E-05 3.003 0.0014377 478.7687102284781 76.697 0.48878 76.953 76.733 77.222 0.25533 120 35 5 0 0 0 0.0012644 4 35296 35245;35296;35342;35387 123.1 48.673 1 30115000 17327 2210 11180 11205 19639;19640;19641;19642 19640 0.04307231974826209 LPAEVLDSL 9 Unmodified _LPAEVLDSL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 956.5336303710938 1 956.529889 955.522613 3.5115 0.0033588 0.13584 0.00012994 3.6473 0.0034888 956.5297798893577 76.694 0.36288 76.949 76.787 77.149 0.25533 78 25 4 0 0 0 1.1247E-09 4 35311 35261;35311;35354;35405 162.95 61.229 1 6505300 17328 2210 11180 11205 19643;19644;19645;19646 19644 0.04307231974826209 LPAEVLDSL 9 Unmodified _LPAEVLDSL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 956.5323486328125 1 956.529889 955.522613 3.4632 0.0033127 0.37931 0.00036282 3.8425 0.0036755 956.5299087132743 76.236 0.43555 76.9 76.683 77.118 0.66387 81 29 4 0 0 0 3.2716E-05 4 35092 35044;35092;35137;35182 139.54 50.64 1 8228300 17329 2210 11180 11205 19647;19648;19649;19650 19648 0.04307231974826209 LPAEVLDSL 9 Unmodified _LPAEVLDSL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.7701416015625 2 478.768583 955.522613 2.7622 0.0013224 0.42841 0.00020511 3.1906 0.0015276 478.76882897664103 76.242 0.55412 76.906 76.619 77.173 0.66387 125 40 5 0 0 0 0.0022375 4 35105 35049;35105;35155;35200 101.72 20.109 1 25704000 17330 2210 11180 11205 19651;19652;19653;19654 19652 0.04307231974826209 LPAEVPEA 8 Unmodified _LPAEVPEA_ 0 0 0 ENST00000446912.3_2_9:141121428-141121533:+|nuORF ENST00000446912.3_2_9:141121428-141121533:+|nuORF ENST00000446912.3_2_9:141121428-141121533:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 825.4389038085938 1 825.435261 824.427984 3.698 0.0030525 -0.049008 -4.0453E-05 3.649 0.003012 825.4352825137984 76.698 0.28617 76.953 76.827 77.113 0.25533 37 20 3 0 0 0 0.0093032 2 35290 35290;35336 106.85 12.962 1 1262300 17331 7982 11181 11206 19655;19656 19655 0.008747182234742468 LPAEVPEA 8 Unmodified _LPAEVPEA_ 0 0 0 ENST00000446912.3_2_9:141121428-141121533:+|nuORF ENST00000446912.3_2_9:141121428-141121533:+|nuORF ENST00000446912.3_2_9:141121428-141121533:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 825.4371337890625 1 825.435261 824.427984 3.5991 0.0029708 0.51748 0.00042715 4.1166 0.003398 825.4356666689308 76.243 0.30111 76.907 76.765 77.066 0.66387 33 18 2 0 0 0 0.029506 2 35094 35094;35146 78.445 18.65 1 1120400 17332 7982 11181 11206 19657;19658 19657 0.008747182234742468 LPAGDALLQM 10 Unmodified _LPAGDALLQM_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2;ENST00000598182.5_1_19:3980752-3982305:-|nuORF ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.7767944335938 2 514.775885 1027.53722 2.6325 0.0013551 0.28281 0.00014558 2.9153 0.0015007 514.7760043458774 75.339 0.36331 75.339 75.175 75.538 0 53 31 2 0 0 0 0.065124 2 36897 36897;36941 58.679 9.1245 1 1911500 17333 4569 11182 11207 19659;19660 19659 0.024549808513029348 LPAGDALLQM 10 Unmodified _LPAGDALLQM_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2;ENST00000598182.5_1_19:3980752-3982305:-|nuORF ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.7774047851562 2 514.775885 1027.53722 2.7986 0.0014406 -0.099553 -5.1248E-05 2.699 0.0013894 514.7760778357698 74.575 0.28237 75.262 75.052 75.334 0.68662 41 22 3 0 0 0 0.065124 1 36006 36006 58.679 20.503 1 1484700 17334 4569 11182 11207 19661 19661 0.024549808513029348 LPAGDALLQM 10 Unmodified _LPAGDALLQM_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2;ENST00000598182.5_1_19:3980752-3982305:-|nuORF ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.7774658203125 2 514.775885 1027.53722 3.1396 0.0016162 -0.40498 -0.00020847 2.7346 0.0014077 514.7757046083741 75.129 0.37605 75.387 75.186 75.562 0.25831 87 35 3 0 0 0 0.0028139 3 34543 34494;34543;34585 96.285 28.204 1 2771000 17335 4569 11182 11207 19662;19663;19664 19663 0.024549808513029348 LPAGDALLQM 10 Unmodified _LPAGDALLQM_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2;ENST00000598182.5_1_19:3980752-3982305:-|nuORF ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.7771606445312 2 514.775885 1027.53722 2.9601 0.0015238 -0.50609 -0.00026052 2.454 0.0012633 514.7757087700045 74.612 0.36431 75.276 75.103 75.467 0.6644 85 36 3 0 0 0 0.065124 3 34337 34288;34337;34389 58.679 12.979 1 2272900 17336 4569 11182 11207 19665;19666;19667 19666 0.024549808513029348 LPAGEHSF 8 Unmodified _LPAGEHSF_ 0 0 0 ENSG00000197070|ENST00000371421|ARRDC1;ENST00000466367.5_1_9:140500199-140508236:+|nuORF;ENST00000491911.5_1_9:140507208-140508236:+|nuORF ENSG00000197070|ENST00000371421|ARRDC1 ENSG00000197070|ENST00000371421|ARRDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 429.2124938964844 2 429.211235 856.407917 3.0689 0.0013172 0.044684 1.9179E-05 3.1135 0.0013364 429.2111733926917 27.366 0.39126 27.366 27.164 27.556 0 48 28 3 0 0 0 0.045989 1 12326 12326 67.035 32.848 1 663740 17337 5795 11183 11208 19668 19668 -0.026030327164676237 LPAGEHSF 8 Unmodified _LPAGEHSF_ 0 0 0 ENSG00000197070|ENST00000371421|ARRDC1;ENST00000466367.5_1_9:140500199-140508236:+|nuORF;ENST00000491911.5_1_9:140507208-140508236:+|nuORF ENSG00000197070|ENST00000371421|ARRDC1 ENSG00000197070|ENST00000371421|ARRDC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 429.211235 856.407917 2.7262 0.0011701 0.25529 0.00010957 2.9815 0.0012797 429.2111369734293 26.392 0.40569 27.171 27 27.406 0.7787 -0.17389 2.089E-05 NaN 67.035 60 33 2 NaN NaN NaN NaN 0 NaN NaN 0 565640 17338 5795 11183 11208 -0.026030327164676237 LPAGEHSF 8 Unmodified _LPAGEHSF_ 0 0 0 ENSG00000197070|ENST00000371421|ARRDC1;ENST00000466367.5_1_9:140500199-140508236:+|nuORF;ENST00000491911.5_1_9:140507208-140508236:+|nuORF ENSG00000197070|ENST00000371421|ARRDC1 ENSG00000197070|ENST00000371421|ARRDC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 429.211235 856.407917 2.8581 0.0012267 0.48332 0.00020745 3.3415 0.0014342 429.2113151537201 27.209 0.28898 27.472 27.256 27.545 0.26245 0.12703 0.00021664 NaN 67.035 28 19 2 NaN NaN NaN NaN 0 NaN NaN 0 296230 17339 5795 11183 11208 -0.026030327164676237 LPAGEHSF 8 Unmodified _LPAGEHSF_ 0 0 0 ENSG00000197070|ENST00000371421|ARRDC1;ENST00000466367.5_1_9:140500199-140508236:+|nuORF;ENST00000491911.5_1_9:140507208-140508236:+|nuORF ENSG00000197070|ENST00000371421|ARRDC1 ENSG00000197070|ENST00000371421|ARRDC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 429.211235 856.407917 2.931 0.001258 0.30538 0.00013107 3.2364 0.0013891 429.2112555904113 26.748 0.29945 27.37 27.239 27.539 0.62179 0.025333 6.3893E-05 NaN 67.035 30 22 2 NaN NaN NaN NaN 0 NaN NaN 0 295620 17340 5795 11183 11208 -0.026030327164676237 LPAHSDSSI 9 Unmodified _LPAHSDSSI_ 0 0 0 REV__ENSG00000204186|ENST00000374423|ZDBF2 REV__ENSG00000204186|ENST00000374423|ZDBF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.7337951660156 2 463.732532 925.45051 2.6366 0.0012227 0.20418 9.4683E-05 2.8408 0.0013174 463.7326395431211 33.285 0.43338 33.285 32.962 33.396 0 56 34 2 0 0 0 0.020718 1 14973 14973 67.344 0 1 2796600 + 17341 14403 11184 11209 19669 19669 -0.015196823788983238 LPAHSDSSI 9 Unmodified _LPAHSDSSI_ 0 0 0 REV__ENSG00000204186|ENST00000374423|ZDBF2 REV__ENSG00000204186|ENST00000374423|ZDBF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.73406982421875 2 463.732532 925.45051 2.616 0.0012131 0.14155 6.5641E-05 2.7576 0.0012788 463.7326108358264 32.182 0.52786 32.97 32.815 33.343 0.78795 125 55 3 0 0 0 0.020718 1 14633 14633 67.344 0 1 2067400 + 17342 14403 11184 11209 19670 19670 -0.015196823788983238 LPAHSDSSI 9 Unmodified _LPAHSDSSI_ 0 0 0 REV__ENSG00000204186|ENST00000374423|ZDBF2 REV__ENSG00000204186|ENST00000374423|ZDBF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.734130859375 2 463.732532 925.45051 2.8439 0.0013188 0.46606 0.00021613 3.31 0.001535 463.73268965631945 33.017 0.58596 33.271 33.032 33.618 0.25389 57 25 3 0 0 0 0.020718 1 15034 15034 67.344 0 1 999150 + 17343 14403 11184 11209 19671 19671 -0.015196823788983238 LPAHSDSSI 9 Unmodified _LPAHSDSSI_ 0 0 0 REV__ENSG00000204186|ENST00000374423|ZDBF2 REV__ENSG00000204186|ENST00000374423|ZDBF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.7337951660156 2 463.732532 925.45051 2.7481 0.0012744 0.67181 0.00031154 3.4199 0.0015859 463.73279095993786 32.509 0.64085 33.127 32.862 33.503 0.61831 61 30 3 0 0 0 0.041436 1 14859 14859 50.855 0 1 605770 + 17344 14403 11184 11209 19672 19672 -0.015196823788983238 LPAHVIRLLLK 11 Unmodified _LPAHVIRLLLK_ 0 0 0 ENSG00000147324|ENST00000276282|MFHAS1 ENSG00000147324|ENST00000276282|MFHAS1 ENSG00000147324|ENST00000276282|MFHAS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 636.5477905273438 2 636.929357 1271.84416 NaN NaN NaN NaN NaN NaN NaN 73.023 1 73.282 72.782 73.782 0.25876 0 0 0 1.0057 1 33532 33532 3.2813 1.7994 1 17345 3559 11185 11210 19673 19673 0.21911373795592226 LPAKLVLFLYF 11 Unmodified _LPAKLVLFLYF_ 0 0 0 ENST00000380722.2_1_14:85996060-85996315:-|nuORF ENST00000380722.2_1_14:85996060-85996315:-|nuORF ENST00000380722.2_1_14:85996060-85996315:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.94122314453125 3 441.940687 1322.80023 3.1198 0.0013788 -2.1147 -0.00093459 1.0051 0.00044419 442.27408375333954 55.757 0.21466 56.425 56.316 56.531 0.66797 13 7 2 0 0 0 0.91068 1 25534 25534 0.45452 0.046251 1 545840 17346 7471 11186 11211 19674 19674 0.15174344578576893 LPALEIVM 8 Unmodified _LPALEIVM_ 0 0 0 nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B;ENSG00000275052|ENST00000616407|PPP4R3B;nc|ENSG00000275052|Q5MIZ7-3|PPP4R3B nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 885.5138549804688 1 885.511402 884.504126 4.1813 0.0037026 0.25796 0.00022843 4.4393 0.003931 885.5114560001491 88.258 0.2216 88.509 88.375 88.596 0.25064 17 10 2 0 0 0 0.20016 1 40582 40582 42.968 4.8168 1 461190 17347 6345 11187 11212 19675 19675 0.05725398799256709 LPALEIVM 8 Unmodified _LPALEIVM_ 0 0 0 nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B;ENSG00000275052|ENST00000616407|PPP4R3B;nc|ENSG00000275052|Q5MIZ7-3|PPP4R3B nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 885.511402 884.504126 4.1026 0.0036329 1.1321 0.0010025 5.2347 0.0046354 885.5116833134011 87.693 0.17381 88.371 88.265 88.439 0.67818 -0.068692 0.0003465 NaN 42.968 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 524260 17348 6345 11187 11212 0.05725398799256709 LPALRRLLERL 11 Unmodified _LPALRRLLERL_ 0 0 0 ENST00000352681.7_2_16:727083-728243:+|nuORF ENST00000352681.7_2_16:727083-728243:+|nuORF ENST00000352681.7_2_16:727083-728243:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 675.4421997070312 2 675.440621 1348.86669 NaN NaN NaN NaN NaN NaN NaN 69.145 1 69.145 68.645 69.645 0 0 0 0 1.0055 1 33349 33349 3.5965 0.31518 1 17349 7137 11188 11213 19676 19676 0.20620973193194914 LPAPFEESL 9 Unmodified _LPAPFEESL_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;PARP14|p.F753Sfs*5|1|0.07|ENSG00000173193|chr3:122700811-122700812|-/C|frameshift_variant nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1002.517578125 1 1002.51424 1001.50696 3.1931 0.0032012 0.18004 0.0001805 3.3732 0.0033817 1002.5141198217758 74.493 0.38644 74.751 74.59 74.977 0.25831 91 43 3 0 0 0 2.6896000000000002E-30 3 34261 34217;34261;34304 196.94 133.38 1 2335600 17350 4917 11189 11214 19677;19678;19679 19678 0.006269454577591205 LPAPFEESL 9 Unmodified _LPAPFEESL_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;PARP14|p.F753Sfs*5|1|0.07|ENSG00000173193|chr3:122700811-122700812|-/C|frameshift_variant nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.7628479003906 2 501.760758 1001.50696 2.9075 0.0014589 -0.35831 -0.00017979 2.5492 0.0012791 501.76082172342046 74.53 0.42203 74.789 74.58 75.002 0.25831 128 46 4 0 0 0 0.0017402 4 34271 34225;34271;34313;34372 106.85 49.374 1 3562800 17351 4917 11189 11214 19680;19681;19682;19683 19681 0.006269454577591205 LPAPFEESL 9 Unmodified _LPAPFEESL_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;PARP14|p.F753Sfs*5|1|0.07|ENSG00000173193|chr3:122700811-122700812|-/C|frameshift_variant nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1002.515625 1 1002.51424 1001.50696 3.1543 0.0031623 -0.34615 -0.00034702 2.8082 0.0028153 1002.5138338588245 73.977 0.41058 74.641 74.486 74.896 0.6644 111 48 3 0 0 0 5.942E-42 4 34043 33993;34043;34088;34132 216.59 145.87 1 2903000 17352 4917 11189 11214 19684;19685;19686;19687 19685 0.006269454577591205 LPAPFEESL 9 Unmodified _LPAPFEESL_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;PARP14|p.F753Sfs*5|1|0.07|ENSG00000173193|chr3:122700811-122700812|-/C|frameshift_variant nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.76171875 2 501.760758 1001.50696 2.7301 0.0013699 -0.12392 -6.2181E-05 2.6062 0.0013077 501.7606133484594 73.975 0.49873 74.639 74.441 74.939 0.6644 138 58 3 0 0 0 0.0017402 4 34044 33998;34044;34089;34134 106.85 49.374 1 2657500 17353 4917 11189 11214 19688;19689;19690;19691 19689 0.006269454577591205 LPAQEQHR 8 Unmodified _LPAQEQHR_ 0 0 0 nc|ENSG00000075043|O43526-5|KCNQ2 nc|ENSG00000075043|O43526-5|KCNQ2 nc|ENSG00000075043|O43526-5|KCNQ2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.7917785644531 2 489.759415 977.504277 2.8549 0.0013982 1.102 0.0005397 3.9568 0.0019379 489.7597361950495 76.234 0.37872 76.897 76.715 77.093 0.66387 55 24 3 0 0 0 0.72814 1 35037 35037 3.5965 0.60125 1 1882100 17354 9561 11190 11215 19692 19692 0.014625348434719854 LPAQERLRRKR 11 Unmodified _LPAQERLRRKR_ 0 0 0 REV__nc|ENSG00000050628|P43115-6|PTGER3 REV__nc|ENSG00000050628|P43115-6|PTGER3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 711.9418334960938 2 711.94185 1421.86915 NaN NaN NaN NaN NaN NaN NaN 67.884 1 68.587 68.087 69.087 0.70218 0 0 0 1.0055 1 32322 32322 3.5965 2.1146 1 + 17355 17860 11191 11216 19693 19693 0.17508821650881146 LPARIRRRL 9 Unmodified _LPARIRRRL_ 0 0 0 REV__ENST00000390556.6_1_14:106303253-106303379:-|nuORF REV__ENST00000390556.6_1_14:106303253-106303379:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.8884887695312 2 575.885816 1149.75708 3.9016 0.0022469 -0.95189 -0.00054818 2.9497 0.0016987 575.885193858263 104.91 0.1122 105.51 105.44 105.56 0.59885 12 8 2 0 0 0 1.2126 1 48455 48455 0.52476 0.52476 1 555410 + 17356 15920 11192 11217 19694 19694 0.18819012364542687 LPARQHVRSL 10 Unmodified _LPARQHVRSL_ 0 0 0 ENST00000437570.6_1_5:178986888-178987029:+|nuORF ENST00000437570.6_1_5:178986888-178987029:+|nuORF ENST00000437570.6_1_5:178986888-178987029:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 392.9046630859375 3 392.903518 1175.68872 2.8459 0.0011182 0.09762 3.8355E-05 2.9435 0.0011565 392.9035529450537 27.551 0.26637 27.814 27.684 27.95 0.26245 51 20 3 0 0 0 0.21896 1 12485 12485 37.075 6.3712 1 2583300 17357 7907 11193 11218 19695 19695 0.10790722994033786 LPASASSSLL 10 Unmodified _LPASASSSLL_ 0 0 0 ENSG00000167680|ENST00000586582|SEMA6B ENSG00000167680|ENST00000586582|SEMA6B ENSG00000167680|ENST00000586582|SEMA6B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.2683410644531 2 473.266207 944.517862 NaN NaN NaN NaN NaN NaN NaN 25.892 1 26.517 26.017 27.017 0.62505 0 0 0 0.53959 1 11871 11871 29.082 4.0906 1 17358 4572 11194 11219 19696 19696 0.04338347832049294 LPASSSASLL 10 Unmodified _LPASSSASLL_ 0 0 0 ENST00000243045.9_1_12:56213222-56214114:+|nuORF ENST00000243045.9_1_12:56213222-56214114:+|nuORF ENST00000243045.9_1_12:56213222-56214114:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.267578125 2 473.266207 944.517862 2.7476 0.0013004 0.11982 5.6705E-05 2.8674 0.0013571 473.2659943115092 25.566 0.1462 26.33 26.219 26.365 0.76356 18 12 2 0 0 0 0.55057 1 11462 11462 19.257 0 1 184450 17359 6470 11195 11220 19697 19697 0.04338347832049294 LPATRRELW 9 Unmodified _LPATRRELW_ 0 0 0 ENST00000570099.5_1_16:30103880-30104012:-|nuORF ENST00000570099.5_1_16:30103880-30104012:-|nuORF ENST00000570099.5_1_16:30103880-30104012:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.3256225585938 2 571.327465 1140.64038 NaN NaN NaN NaN NaN NaN NaN 13.468 1 13.468 12.968 13.968 0 0 0 0 0.89683 1 5893 5893 4.3292 0.73274 1 17360 9083 11196 11221 19698 19698 0.07568229354114919 LPAVFEEVL 9 Unmodified _LPAVFEEVL_ 0 0 0 ENSG00000013364|ENST00000357402|MVP ENSG00000013364|ENST00000357402|MVP ENSG00000013364|ENST00000357402|MVP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1016.5679321289062 1 1016.56627 1015.559 3.9771 0.004043 -0.40368 -0.00041037 3.5734 0.0036326 1017.5685580405316 92.242 0.27477 92.494 92.343 92.618 0.25254 20 15 2 0 0 0 0.18075 2 42377 42377;42426 24.674 7.5873 1 393760 17361 430 11197 11222 19699;19700 19699 0.05184108871515036 LPAVWSIT 8 Unmodified _LPAVWSIT_ 0 0 0 ENSG00000134757|ENST00000257189|DSG3 ENSG00000134757|ENST00000257189|DSG3 ENSG00000134757|ENST00000257189|DSG3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 443.756591796875 2 443.755278 885.496004 2.9971 0.00133 -0.086253 -3.8275E-05 2.9108 0.0012917 443.75532979934025 54.52 0.19069 55.186 55.074 55.264 0.6665 20 15 2 0 0 0 0.13778 1 24963 24963 49.669 0 1 2005600 17362 2826 11198 11223 19701 19701 0.04867587874127821 LPAVWSIT 8 Unmodified _LPAVWSIT_ 0 0 0 ENSG00000134757|ENST00000257189|DSG3 ENSG00000134757|ENST00000257189|DSG3 ENSG00000134757|ENST00000257189|DSG3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 443.755278 885.496004 2.4457 0.0010853 0.38022 0.00016872 2.826 0.001254 443.7554685494768 54.363 0.30524 55.159 54.985 55.291 0.79552 -0.13564 0.00024849 NaN 49.669 41 18 3 NaN NaN NaN NaN 0 NaN NaN 0 718140 17363 2826 11198 11223 0.04867587874127821 LPAVWSIT 8 Unmodified _LPAVWSIT_ 0 0 0 ENSG00000134757|ENST00000257189|DSG3 ENSG00000134757|ENST00000257189|DSG3 ENSG00000134757|ENST00000257189|DSG3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 443.755278 885.496004 2.6215 0.0011633 -0.53026 -0.0002353 2.0913 0.00092801 443.75516568831966 55.273 0.19706 55.538 55.443 55.64 0.26543 0.24382 -0.00055956 NaN 49.669 16 13 2 NaN NaN NaN NaN 0 NaN NaN 0 1693100 17364 2826 11198 11223 0.04867587874127821 LPCDICGPIL 10 Unmodified _LPCDICGPIL_ 0 0 0 ENSG00000213762|ENST00000396161|ZNF134 ENSG00000213762|ENST00000396161|ZNF134 ENSG00000213762|ENST00000396161|ZNF134 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.2697143554688 2 522.266838 1042.51912 3.3632 0.0017565 -0.022766 -1.189E-05 3.3404 0.0017446 522.2669015696603 27.066 0.36071 27.066 26.916 27.277 0 34 21 2 0 0 0 0.55057 1 12240 12240 19.257 0 1 326320 17365 6098 11199 11224 19702 19702 -0.00043477395047375467 LPCDICGPIL 10 Unmodified _LPCDICGPIL_ 0 0 0 ENSG00000213762|ENST00000396161|ZNF134 ENSG00000213762|ENST00000396161|ZNF134 ENSG00000213762|ENST00000396161|ZNF134 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.2691040039062 2 522.266838 1042.51912 3.2444 0.0016945 0.60803 0.00031755 3.8524 0.002012 522.2673896302216 26.475 0.34452 27.1 26.959 27.303 0.62505 32 21 2 0 0 0 0.38486 1 12134 12134 25.399 0 1 297120 17366 6098 11199 11224 19703 19703 -0.00043477395047375467 LPCEIDPAL 9 Carbamidomethyl (C) _LPC(Carbamidomethyl (C))EIDPAL_ LPC(1)EIDPAL LPC(60)EIDPAL 0 1 0 ENSG00000061676|ENST00000361354|NCKAP1;nc|ENSG00000061676|Q9Y2A7-2|NCKAP1 ENSG00000061676|ENST00000361354|NCKAP1 ENSG00000061676|ENST00000361354|NCKAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.2616577148438 2 514.260068 1026.50558 3.5672 0.0018345 -0.89541 -0.00046047 2.6718 0.001374 514.2598323170623 65.802 0.24422 66.051 65.902 66.147 0.24848 31 14 3 0 0 0 0.026068 1 30151 30151 60.39 14.369 1 956810 17367 648 11200 11225 19704 19704 10 -0.006610119026618122 LPCHLFPTM 9 Carbamidomethyl (C) _LPC(Carbamidomethyl (C))HLFPTM_ LPC(1)HLFPTM LPC(110)HLFPTM 0 1 0 ENST00000082468.11_1_6:26405791-26410201:+|nuORF;nc|ENSG00000026950|O00481-2|BTN3A1;nc|ENSG00000026950|O00481-3|BTN3A1;BTN3A1|p.E427Pfs*12|1|0.03|ENSG00000026950|chr6:26413428-26413429|-/CCCA|frameshift_variant;nc|ENSG00000026950|O00481-4|BTN3A1;ENSG00000026950|ENST00000289361|BTN3A1;ENST00000480110.5_1_6:26444219-26444576:+|nuORF;nc|ENSG00000186470|P78410-3|BTN3A2;nc|ENSG00000186470|P78410-2|BTN3A2;ENSG00000186470|ENST00000377708|BTN3A2;nc|ENSG00000111801|O00478-2|BTN3A3;ENSG00000111801|ENST00000244519|BTN3A3 ENST00000082468.11_1_6:26405791-26410201:+|nuORF ENST00000082468.11_1_6:26405791-26410201:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.2748413085938 2 558.272455 1114.53036 3.7254 0.0020798 -0.36217 -0.00020219 3.3632 0.0018776 558.2724929896577 66.29 0.31068 66.539 66.39 66.7 0.24847 41 17 3 0 0 0 0.0017402 1 30357 30357 106.85 74.54 1 1325900 17368 92 11201 11226 19705 19705 1 -0.022326553009179406 LPCHLFPTM 9 Carbamidomethyl (C) _LPC(Carbamidomethyl (C))HLFPTM_ LPC(1)HLFPTM LPC(94)HLFPTM 0 1 0 ENST00000082468.11_1_6:26405791-26410201:+|nuORF;nc|ENSG00000026950|O00481-2|BTN3A1;nc|ENSG00000026950|O00481-3|BTN3A1;BTN3A1|p.E427Pfs*12|1|0.03|ENSG00000026950|chr6:26413428-26413429|-/CCCA|frameshift_variant;nc|ENSG00000026950|O00481-4|BTN3A1;ENSG00000026950|ENST00000289361|BTN3A1;ENST00000480110.5_1_6:26444219-26444576:+|nuORF;nc|ENSG00000186470|P78410-3|BTN3A2;nc|ENSG00000186470|P78410-2|BTN3A2;ENSG00000186470|ENST00000377708|BTN3A2;nc|ENSG00000111801|O00478-2|BTN3A3;ENSG00000111801|ENST00000244519|BTN3A3 ENST00000082468.11_1_6:26405791-26410201:+|nuORF ENST00000082468.11_1_6:26405791-26410201:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.27392578125 2 558.272455 1114.53036 3.6296 0.0020263 -0.5801 -0.00032385 3.0495 0.0017024 558.2720124929558 65.695 0.28084 66.352 66.177 66.458 0.65672 36 15 3 0 0 0 0.0039848 2 30081 30081;30143 93.883 61.766 1 1390400 17369 92 11201 11226 19706;19707 19706 1 -0.022326553009179406 LPCIENAVL 9 Carbamidomethyl (C) _LPC(Carbamidomethyl (C))IENAVL_ LPC(1)IENAVL LPC(55)IENAVL 0 1 0 ENSG00000154451|ENST00000370459|GBP5;nc|ENSG00000154451|Q96PP8-2|GBP5;ENST00000481145.1_1_1:89729385-89732242:-|nuORF ENSG00000154451|ENST00000370459|GBP5 ENSG00000154451|ENST00000370459|GBP5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.7777099609375 2 514.775885 1027.53722 3.154 0.0016236 -0.23409 -0.0001205 2.9199 0.0015031 514.7758925061017 73.207 0.3883 73.465 73.212 73.6 0.25875 107 46 3 0 0 0 0.032303 1 33630 33630 54.774 12.934 1 1826400 17370 3824 11202 11227 19708 19708 69 0.024549808512801974 LPCKAPYGFI 10 Unmodified _LPCKAPYGFI_ 0 0 0 REV__ENST00000261207.9_2_12:80169574-80169661:-|nuORF REV__ENST00000261207.9_2_12:80169574-80169661:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.2622680664062 2 554.79662 1107.57869 3.6841 0.0020439 -0.7593 -0.00042126 2.9248 0.0016226 555.2983346434321 65.513 0.3327 65.762 65.57 65.902 0.24848 36 15 3 0 0 0 0.88655 1 29950 29950 4.3292 1.44 1 1217900 + 17371 14961 11203 11228 19709 19709 0.029201616106320216 LPCKDAPEL 9 Carbamidomethyl (C) _LPC(Carbamidomethyl (C))KDAPEL_ LPC(1)KDAPEL LPC(70)KDAPEL 0 1 0 ENSG00000182446|ENST00000331134|NPLOC4;nc|ENSG00000182446|Q8TAT6-2|NPLOC4;ENST00000572351.1_1_17:79555189-79563202:-|nuORF ENSG00000182446|ENST00000331134|NPLOC4 ENSG00000182446|ENST00000331134|NPLOC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.7667236328125 2 521.765517 1041.51648 NaN NaN NaN NaN NaN NaN NaN 35.333 1 35.333 34.833 35.833 0 0 0 0 0.021845 1 16031 16031 70.332 34.288 1 17372 5333 11204 11229 19710 19710 87 -0.0026160952838836238 LPCKDAPEL 9 Carbamidomethyl (C) _LPC(Carbamidomethyl (C))KDAPEL_ LPC(1)KDAPEL LPC(100)KDAPEL 0 1 0 ENSG00000182446|ENST00000331134|NPLOC4;nc|ENSG00000182446|Q8TAT6-2|NPLOC4;ENST00000572351.1_1_17:79555189-79563202:-|nuORF ENSG00000182446|ENST00000331134|NPLOC4 ENSG00000182446|ENST00000331134|NPLOC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.7670288085938 2 521.765517 1041.51648 3.3406 0.001743 0.042262 2.2051E-05 3.3828 0.0017651 521.7655180384362 35.134 0.53293 35.39 35.244 35.777 0.25524 54 22 3 0 0 0 0.0020727 3 16031 15975;16031;16087 103.42 65.445 1 1628200 17373 5333 11204 11229 19711;19712;19713 19712 87 -0.0026160952838836238 LPCKDAPEL 9 Carbamidomethyl (C) _LPC(Carbamidomethyl (C))KDAPEL_ LPC(1)KDAPEL LPC(57)KDAPEL 0 1 0 ENSG00000182446|ENST00000331134|NPLOC4;nc|ENSG00000182446|Q8TAT6-2|NPLOC4;ENST00000572351.1_1_17:79555189-79563202:-|nuORF ENSG00000182446|ENST00000331134|NPLOC4 ENSG00000182446|ENST00000331134|NPLOC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.766845703125 2 521.765517 1041.51648 NaN NaN NaN NaN NaN NaN NaN 34.692 1 35.315 34.815 35.815 0.62294 0 0 0 0.037681 1 15892 15892 57.249 26.613 1 17374 5333 11204 11229 19714 19714 87 -0.0026160952838836238 LPCKDAPEL 9 Carbamidomethyl (C) _LPC(Carbamidomethyl (C))KDAPEL_ LPC(1)KDAPEL LPC(86)KDAPEL 0 1 0 ENSG00000182446|ENST00000331134|NPLOC4;nc|ENSG00000182446|Q8TAT6-2|NPLOC4;ENST00000572351.1_1_17:79555189-79563202:-|nuORF ENSG00000182446|ENST00000331134|NPLOC4 ENSG00000182446|ENST00000331134|NPLOC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.7677001953125 2 521.765517 1041.51648 NaN NaN NaN NaN NaN NaN NaN 34.779 1 35.401 34.901 35.901 0.62294 0 0 0 0.0085224 1 15934 15934 86.332 40.311 1 17375 5333 11204 11229 19715 19715 87 -0.0026160952838836238 LPCKDAPEL 9 Carbamidomethyl (C) _LPC(Carbamidomethyl (C))KDAPEL_ 0 1 0 ENSG00000182446|ENST00000331134|NPLOC4;nc|ENSG00000182446|Q8TAT6-2|NPLOC4;ENST00000572351.1_1_17:79555189-79563202:-|nuORF ENSG00000182446|ENST00000331134|NPLOC4 ENSG00000182446|ENST00000331134|NPLOC4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 521.765517 1041.51648 3.2346 0.0016877 -0.30943 -0.00016145 2.9252 0.0015263 521.7654833746302 34.422 0.21627 35.211 35.036 35.252 0.78921 -0.089386 -0.0002754 NaN 103.42 23 12 3 NaN NaN NaN NaN 0 NaN NaN 0 1077400 17376 5333 11204 11229 87 -0.0026160952838836238 LPCMENAVL 9 Carbamidomethyl (C) _LPC(Carbamidomethyl (C))MENAVL_ LPC(1)MENAVL LPC(74)MENAVL 0 1 0 ENSG00000117228|ENST00000370473|GBP1;ENST00000394662.2_1_1:89887573-89889825:+|nuORF;nc|ENSG00000117226|Q9H0R5-4|GBP3;ENSG00000117226|ENST00000370481|GBP3;ENSG00000162645|ENST00000370466|GBP2 ENSG00000117228|ENST00000370473|GBP1;ENSG00000162645|ENST00000370466|GBP2 ENSG00000117228|ENST00000370473|GBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.7557373046875 2 523.754095 1045.49364 3.5706 0.0018701 -0.67888 -0.00035556 2.8917 0.0015145 523.7540665576975 67.224 0.34027 67.475 67.288 67.628 0.2501 58 20 4 0 0 0 0.015468 2 30799 30748;30799 74.423 26.077 1 2347500 17377 2064;4153 11205 11230 19716;19717 19717 48 -0.0272895191749285 LPCMENAVL 9 Carbamidomethyl (C) _LPC(Carbamidomethyl (C))MENAVL_ LPC(1)MENAVL LPC(74)MENAVL 0 1 0 ENSG00000117228|ENST00000370473|GBP1;ENST00000394662.2_1_1:89887573-89889825:+|nuORF;nc|ENSG00000117226|Q9H0R5-4|GBP3;ENSG00000117226|ENST00000370481|GBP3;ENSG00000162645|ENST00000370466|GBP2 ENSG00000117228|ENST00000370473|GBP1;ENSG00000162645|ENST00000370466|GBP2 ENSG00000117228|ENST00000370473|GBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.7559814453125 2 523.754095 1045.49364 3.3643 0.0017621 -0.31487 -0.00016491 3.0495 0.0015972 523.754152970463 66.604 0.39865 67.261 67.075 67.474 0.65672 72 23 4 0 0 0 0.015468 2 30533 30488;30533 74.423 26.077 1 2892400 17378 2064;4153 11205 11230 19718;19719 19719 48 -0.0272895191749285 LPCRELEQL 9 Carbamidomethyl (C) _LPC(Carbamidomethyl (C))RELEQL_ LPC(1)RELEQL LPC(90)RELEQL 0 1 0 nc|ENSG00000182325|Q8N531-2|FBXL6;ENSG00000182325|ENST00000331890|FBXL6 nc|ENSG00000182325|Q8N531-2|FBXL6 nc|ENSG00000182325|Q8N531-2|FBXL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.30517578125 2 579.302798 1156.59104 3.4601 0.0020044 -0.22305 -0.00012921 3.237 0.0018752 579.3028708226095 46.631 0.39709 46.631 46.479 46.876 0 35 14 3 0 0 0 0.0057865 2 21373 21373;21430 90.135 31.456 1 1561800 17379 5327 11206 11231 19720;19721 19720 86 0.019011532830063516 LPCRELEQL 9 Carbamidomethyl (C) _LPC(Carbamidomethyl (C))RELEQL_ LPC(1)RELEQL LPC(70)RELEQL 0 1 0 nc|ENSG00000182325|Q8N531-2|FBXL6;ENSG00000182325|ENST00000331890|FBXL6 nc|ENSG00000182325|Q8N531-2|FBXL6 nc|ENSG00000182325|Q8N531-2|FBXL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 579.3043823242188 2 579.302798 1156.59104 3.308 0.0019163 -0.83927 -0.00048619 2.4687 0.0014301 579.3027866367253 45.687 0.33393 46.514 46.297 46.631 0.82621 41 17 3 0 0 0 0.018453 2 20767 20767;20821 70.332 16.928 1 1321100 17380 5327 11206 11231 19722;19723 19722 86 0.019011532830063516 LPCRELEQL 9 Carbamidomethyl (C) _LPC(Carbamidomethyl (C))RELEQL_ LPC(1)RELEQL LPC(70)RELEQL 0 1 0 nc|ENSG00000182325|Q8N531-2|FBXL6;ENSG00000182325|ENST00000331890|FBXL6 nc|ENSG00000182325|Q8N531-2|FBXL6 nc|ENSG00000182325|Q8N531-2|FBXL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 579.30517578125 2 579.302798 1156.59104 3.5404 0.002051 -0.28542 -0.00016534 3.255 0.0018856 579.3028106592171 46.609 0.27601 46.875 46.675 46.951 0.26561 21 9 3 0 0 0 0.018453 2 21270 21270;21324 70.332 11.653 1 1047900 17381 5327 11206 11231 19724;19725 19724 86 0.019011532830063516 LPCRELEQL 9 Carbamidomethyl (C) _LPC(Carbamidomethyl (C))RELEQL_ LPC(1)RELEQL LPC(77)RELEQL 0 1 0 nc|ENSG00000182325|Q8N531-2|FBXL6;ENSG00000182325|ENST00000331890|FBXL6 nc|ENSG00000182325|Q8N531-2|FBXL6 nc|ENSG00000182325|Q8N531-2|FBXL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 579.3043823242188 2 579.302798 1156.59104 3.9572 0.0022924 -0.14145 -8.194E-05 3.8157 0.0022105 579.3028932606042 46 0.39347 46.651 46.435 46.829 0.65104 26 11 3 0 0 0 0.013715 2 21110 21048;21110 76.825 23.421 1 1044400 17382 5327 11206 11231 19726;19727 19727 86 0.019011532830063516 LPCRQSWN 8 Carbamidomethyl (C) _LPC(Carbamidomethyl (C))RQSWN_ LPC(1)RQSWN LPC(44)RQSWN 0 1 0 CUL1|p.T552Nfs*28|1|0.3|ENSG00000055130|chr7:148789807-148789807|C/-|frameshift_variant CUL1|p.T552Nfs*28|1|0.3|ENSG00000055130|chr7:148789807-148789807|C/-|frameshift_variant CUL1|p.T552Nfs*28|1|0.3|ENSG00000055130|chr7:148789807-148789807|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.7544555664062 2 530.753276 1059.492 3.3523 0.0017792 1.938 0.0010286 5.2903 0.0028079 530.7541453055218 27.693 0.5973 27.693 27.604 28.201 0 99 51 2 0 0 0 0.18676 1 12547 12547 44.407 44.407 1 1992500 17383 252 11207 11232 19728 19728 3 -0.035368248912163835 LPCRQSWN 8 Carbamidomethyl (C) _LPC(Carbamidomethyl (C))RQSWN_ LPC(1)RQSWN LPC(44)RQSWN 0 1 0 CUL1|p.T552Nfs*28|1|0.3|ENSG00000055130|chr7:148789807-148789807|C/-|frameshift_variant CUL1|p.T552Nfs*28|1|0.3|ENSG00000055130|chr7:148789807-148789807|C/-|frameshift_variant CUL1|p.T552Nfs*28|1|0.3|ENSG00000055130|chr7:148789807-148789807|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.75439453125 2 530.753276 1059.492 3.1217 0.0016569 2.6855 0.0014253 5.8072 0.0030822 530.7539150916109 26.733 0.67828 27.512 27.419 28.097 0.7787 63 52 2 0 0 0 0.18676 1 12115 12115 44.407 44.407 1 2002100 17384 252 11207 11232 19729 19729 3 -0.035368248912163835 LPCRRPSLL 9 Unmodified _LPCRRPSLL_ 0 0 0 REV__nc|ENSG00000183242|Q06250|WT1-AS REV__nc|ENSG00000183242|Q06250|WT1-AS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.21240234375 3 352.211183 1053.61172 NaN NaN NaN NaN NaN NaN NaN 68.019 1 68.019 67.519 68.519 0 0 0 0 0.90699 1 32704 32704 0.96228 0 1 + 17385 15994 11208 11233 19730 19730 0.08705788453357854 LPCRRRRVAWP 11 Unmodified _LPCRRRRVAWP_ 0 0 0 REV__ENSG00000165966|ENST00000402685|PDZRN4 REV__ENSG00000165966|ENST00000402685|PDZRN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.6075439453125 3 470.606818 1408.79863 NaN NaN NaN NaN NaN NaN NaN 55.221 1 56.008 55.508 56.508 0.78711 0 0 0 1.0073 1 25207 25207 0.40827 0 1 + 17386 13201 11209 11234 19731 19731 0.11057825061561743 LPCSWGRGPV 10 Unmodified _LPCSWGRGPV_ 0 0 0 REV__ENST00000467201.5_1_7:100174858-100176198:-|nuORF REV__ENST00000467201.5_1_7:100174858-100176198:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.9659423828125 2 536.273844 1070.53313 2.4501 0.0013139 0.11567 6.2032E-05 2.5658 0.001376 536.2713552566183 68.296 0.029526 68.296 68.286 68.315 0 5 4 2 0 0 0 0.12676 1 32883 32883 0.40072 0 1 996590 + 17387 16552 11210 11235 19732 19732 0.0006893614827276906 LPCTAEHGF 9 Carbamidomethyl (C) _LPC(Carbamidomethyl (C))TAEHGF_ LPC(1)TAEHGF LPC(74)TAEHGF 0 1 0 nc|ENSG00000010030|Q9Y603-7|ETV7;ENSG00000010030|ENST00000340181|ETV7;nc|ENSG00000010030|Q9Y603-5|ETV7 nc|ENSG00000010030|Q9Y603-7|ETV7;nc|ENSG00000010030|Q9Y603-5|ETV7 nc|ENSG00000010030|Q9Y603-5|ETV7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.2364501953125 2 516.234384 1030.45422 3.467 0.0017898 -0.38277 -0.0001976 3.0842 0.0015922 516.234173763337 33.888 0.3008 34.142 33.95 34.25 0.25389 26 15 2 0 0 0 0.015468 2 15406 15406;15459 74.423 49.749 1 416580 17388 394;9535 11211 11236 19733;19734 19733 7 -0.05979335876691039 LPCVFYVYLF 10 Unmodified _LPCVFYVYLF_ 0 0 0 REV__ENST00000504704.6_1_4:159690364-159754995:+|nuORF REV__ENST00000504704.6_1_4:159690364-159754995:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.5539855957031 3 421.887594 1262.64095 NaN NaN NaN NaN NaN NaN NaN 30.135 1 30.393 29.893 30.893 0.25804 0 0 0 0.99704 1 13716 13716 4.1895 1.5583 1 + 17389 16912 11212 11237 19735 19735 0.02013887958946725 LPDADKERL 9 Unmodified _LPDADKERL_ 0 0 0 nc|ENSG00000072110|P12814-2|ACTN1;nc|ENSG00000072110|P12814|ACTN1;ENSG00000072110|ENST00000394419|ACTN1;nc|ENSG00000072110|P12814-4|ACTN1 nc|ENSG00000072110|P12814-2|ACTN1 nc|ENSG00000072110|P12814-2|ACTN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.86260986328125 3 352.860984 1055.56112 2.6496 0.00093493 -0.030744 -1.0848E-05 2.6188 0.00092408 352.8609766518255 23.907 0.021667 23.907 23.889 23.911 0 6 4 2 0 0 0 0.0061394 1 10751 10751 73.196 28.804 1 5259700 17390 785 11213 11238 19736 19736 0.035565376093245504 LPDADKERL 9 Unmodified _LPDADKERL_ 0 0 0 nc|ENSG00000072110|P12814-2|ACTN1;nc|ENSG00000072110|P12814|ACTN1;ENSG00000072110|ENST00000394419|ACTN1;nc|ENSG00000072110|P12814-4|ACTN1 nc|ENSG00000072110|P12814-2|ACTN1 nc|ENSG00000072110|P12814-2|ACTN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 352.8609619140625 3 352.860984 1055.56112 1.8754 0.00066175 0.13645 4.8148E-05 2.0118 0.0007099 352.8609422641631 23.26 0.30476 23.946 23.667 23.972 0.68536 59 46 2 0 0 0 0.0079462 2 10327 10327;10372 78.06 30.466 1 7443200 17391 785 11213 11238 19737;19738 19737 0.035565376093245504 LPDADKERL 9 Unmodified _LPDADKERL_ 0 0 0 nc|ENSG00000072110|P12814-2|ACTN1;nc|ENSG00000072110|P12814|ACTN1;ENSG00000072110|ENST00000394419|ACTN1;nc|ENSG00000072110|P12814-4|ACTN1 nc|ENSG00000072110|P12814-2|ACTN1 nc|ENSG00000072110|P12814-2|ACTN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 352.860984 1055.56112 2.431 0.0008578 1.0817 0.00038169 3.5127 0.0012395 353.1957884829242 23.05 0.028698 23.69 23.671 23.699 0.64051 -0.15744 0.00073412 NaN 73.196 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 638080 17392 785 11213 11238 0.035565376093245504 LPDANRDTL 9 Unmodified _LPDANRDTL_ 0 0 0 nc|ENSG00000146376|Q8N392-2|ARHGAP18;ENSG00000146376|ENST00000368149|ARHGAP18 nc|ENSG00000146376|Q8N392-2|ARHGAP18 nc|ENSG00000146376|Q8N392-2|ARHGAP18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.766357421875 2 507.764363 1013.51417 3.6714 0.0018642 0.04961 2.519E-05 3.721 0.0018894 507.7643435286182 30.667 0.27069 30.923 30.743 31.014 0.25614 32 19 2 0 0 0 0.29523 2 13969 13920;13969 17.113 1.1262 1 250270 17393 3513 11214 11239 19739;19740 19740 0.007956780581821477 LPDANRDTL 9 Unmodified _LPDANRDTL_ 0 0 0 nc|ENSG00000146376|Q8N392-2|ARHGAP18;ENSG00000146376|ENST00000368149|ARHGAP18 nc|ENSG00000146376|Q8N392-2|ARHGAP18 nc|ENSG00000146376|Q8N392-2|ARHGAP18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.76611328125 2 507.764363 1013.51417 3.3146 0.001683 0.59521 0.00030223 3.9098 0.0019853 507.7646815480699 30.366 0.2248 30.983 30.814 31.039 0.61737 17 11 2 0 0 0 0.136 1 13914 13914 27.629 10.542 1 368980 17394 3513 11214 11239 19741 19741 0.007956780581821477 LPDANRDTL 9 Unmodified _LPDANRDTL_ 0 0 0 nc|ENSG00000146376|Q8N392-2|ARHGAP18;ENSG00000146376|ENST00000368149|ARHGAP18 nc|ENSG00000146376|Q8N392-2|ARHGAP18 nc|ENSG00000146376|Q8N392-2|ARHGAP18 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 507.764363 1013.51417 3.2232 0.0016366 0.72716 0.00036923 3.9504 0.0020059 507.7647003926119 29.922 0.18435 30.711 30.637 30.822 0.78921 -0.16175 0.00038791 NaN 27.629 23 17 2 NaN NaN NaN NaN 0 NaN NaN 0 443350 17395 3513 11214 11239 0.007956780581821477 LPDARDPAF 9 Unmodified _LPDARDPAF_ 0 0 0 nc|ENSG00000185896|P11279-2|LAMP1;ENSG00000185896|ENST00000332556|LAMP1;ENST00000472564.1_1_13:113975757-113976110:+|nuORF nc|ENSG00000185896|P11279-2|LAMP1 nc|ENSG00000185896|P11279-2|LAMP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.7320861816406 2 501.256174 1000.49779 2.9846 0.0014961 0.81203 0.00040704 3.7967 0.0019031 501.2565779888105 42.422 0.2705 42.422 42.32 42.591 0 56 23 3 0 0 0 0.013782 1 19353 19353 51.63 39.99 1 4727800 17396 5539 11215 11240 19742 19742 -0.002434031079133092 LPDARDPAF 9 Unmodified _LPDARDPAF_ 0 0 0 nc|ENSG00000185896|P11279-2|LAMP1;ENSG00000185896|ENST00000332556|LAMP1;ENST00000472564.1_1_13:113975757-113976110:+|nuORF nc|ENSG00000185896|P11279-2|LAMP1 nc|ENSG00000185896|P11279-2|LAMP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 501.256174 1000.49779 3.3576 0.001683 0.61583 0.00030869 3.9734 0.0019917 501.25648014913133 42.311 0.38466 42.581 42.425 42.81 0.27021 0.16999 1.1584E-05 NaN 43.772 59 22 3 NaN NaN NaN NaN 0 NaN NaN 0 3893600 17397 5539 11215 11240 -0.002434031079133092 LPDARDPAF 9 Unmodified _LPDARDPAF_ 0 0 0 nc|ENSG00000185896|P11279-2|LAMP1;ENSG00000185896|ENST00000332556|LAMP1;ENST00000472564.1_1_13:113975757-113976110:+|nuORF nc|ENSG00000185896|P11279-2|LAMP1 nc|ENSG00000185896|P11279-2|LAMP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 501.256174 1000.49779 3.3972 0.0017029 0.42659 0.00021383 3.8238 0.0019167 501.2563963940215 41.585 0.26843 42.229 42.026 42.295 0.64451 -0.18136 -0.00017813 NaN 43.772 31 14 3 NaN NaN NaN NaN 0 NaN NaN 0 3603600 17398 5539 11215 11240 -0.002434031079133092 LPDDDPTAV 9 Unmodified _LPDDDPTAV_ 0 0 0 ENSG00000158623|ENST00000425248|COPG2 ENSG00000158623|ENST00000425248|COPG2 ENSG00000158623|ENST00000425248|COPG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 471.7257995605469 2 471.724372 941.434192 NaN NaN NaN NaN NaN NaN NaN 40.068 1 40.068 39.568 40.568 0 0 0 0 0.35622 1 18185 18185 24.674 8.9057 1 17399 3992 11216 11241 19743 19743 -0.03886808335664682 LPDDFIDSL 9 Unmodified _LPDDFIDSL_ 0 0 0 ENST00000506677.1_1_5:65076017-65081739:+|nuORF;ENST00000506539.5_1_5:65018131-65088776:+|nuORF;ENSG00000123213|ENST00000380985|NLN ENST00000506677.1_1_5:65076017-65081739:+|nuORF ENST00000506677.1_1_5:65076017-65081739:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.7561645507812 2 517.755672 1033.49679 3.5654 0.001846 -0.41733 -0.00021607 3.1481 0.0016299 517.7551680950055 86.328 0.32795 86.578 86.376 86.704 0.24974 28 13 3 0 0 0 0.032303 2 39704 39704;39761 54.774 14.816 1 1169900 17400 2300 11217 11242 19744;19745 19744 -0.0186166226746991 LPDDFIDSL 9 Unmodified _LPDDFIDSL_ 0 0 0 ENST00000506677.1_1_5:65076017-65081739:+|nuORF;ENST00000506539.5_1_5:65018131-65088776:+|nuORF;ENSG00000123213|ENST00000380985|NLN ENST00000506677.1_1_5:65076017-65081739:+|nuORF ENST00000506677.1_1_5:65076017-65081739:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.7559204101562 2 517.755672 1033.49679 3.5555 0.0018409 -0.75213 -0.00038942 2.8034 0.0014515 517.7550675907128 85.873 0.36549 86.544 86.332 86.698 0.6706 41 24 2 0 0 0 0.023109 2 39541 39496;39541 64.236 22.142 1 1096500 17401 2300 11217 11242 19746;19747 19747 -0.0186166226746991 LPDDGVEL 8 Unmodified _LPDDGVEL_ 0 0 0 ENSG00000170542|ENST00000380698|SERPINB9 ENSG00000170542|ENST00000380698|SERPINB9 ENSG00000170542|ENST00000380698|SERPINB9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 857.4279174804688 1 857.42509 856.417813 4.0145 0.0034421 -0.50063 -0.00042926 3.5138 0.0030128 857.4249100787312 57.005 0.2998 57.673 57.507 57.807 0.66829 19 14 2 0 0 0 0.10141 2 26072 26072;26130 53.576 9.1686 1 799590 17402 4755 11218 11243 19748;19749 19748 -0.01613889501743415 LPDDKVTAL 9 Unmodified _LPDDKVTAL_ 0 0 0 nc|ENSG00000160183|P57727-4|TMPRSS3;nc|ENSG00000160183|P57727-2|TMPRSS3;nc|ENSG00000160183|P57727-3|TMPRSS3;ENST00000474596.5_1_21:43792873-43809176:-|nuORF;ENSG00000160183|ENST00000644384|TMPRSS3;nc|ENSG00000160183|P57727|TMPRSS3;nc|ENSG00000160183|P57727-6|TMPRSS3 nc|ENSG00000160183|P57727-4|TMPRSS3 nc|ENSG00000160183|P57727-4|TMPRSS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.2760314941406 2 486.274032 970.533512 3.2204 0.001566 0.5588 0.00027173 3.7792 0.0018377 486.274180997078 42.42 0.36695 42.691 42.524 42.891 0.27021 38 17 3 0 0 0 0.023885 1 19375 19375 63.227 4.5487 1 1281100 17403 4044 11219 11244 19750 19750 0.0470663434908829 LPDDLGQLTAL 11 Unmodified _LPDDLGQLTAL_ 0 0 0 nc|ENSG00000148356|Q6UWE0-2|LRSAM1;ENSG00000148356|ENST00000300417|LRSAM1 nc|ENSG00000148356|Q6UWE0-2|LRSAM1 nc|ENSG00000148356|Q6UWE0-2|LRSAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.318603515625 2 578.316428 1154.6183 3.311 0.0019148 1.1935 0.00069024 4.5045 0.002605 578.3169131939632 83.624 0.23549 83.871 83.731 83.966 0.24722 20 15 2 0 0 0 0.71079 1 38494 38494 10.8 2.8894 1 327260 17404 3600 11220 11245 19751 19751 0.04717960095035778 LPDDLGQLTAL 11 Unmodified _LPDDLGQLTAL_ 0 0 0 nc|ENSG00000148356|Q6UWE0-2|LRSAM1;ENSG00000148356|ENST00000300417|LRSAM1 nc|ENSG00000148356|Q6UWE0-2|LRSAM1 nc|ENSG00000148356|Q6UWE0-2|LRSAM1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 578.316428 1154.6183 3.7947 0.0021945 0.5709 0.00033016 4.3656 0.0025247 578.3168290097155 83.181 0.31985 83.841 83.625 83.945 0.66019 -0.015203 -0.00056329 NaN 10.8 19 17 2 NaN NaN NaN NaN 0 NaN NaN 0 401580 17405 3600 11220 11245 0.04717960095035778 LPDDPAKTTM 10 Unmodified _LPDDPAKTTM_ 0 0 0 nc|ENSG00000132912|Q9UJW0-2|DCTN4;ENSG00000132912|ENST00000447998|DCTN4;nc|ENSG00000132912|Q9UJW0-3|DCTN4;ENST00000519313.5_1_5:150110976-150138143:-|nuORF;ENST00000521093.1_1_5:150113023-150133188:-|nuORF nc|ENSG00000132912|Q9UJW0-2|DCTN4 nc|ENSG00000132912|Q9UJW0-2|DCTN4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.7701416015625 2 544.768257 1087.52196 3.7284 0.0020311 -0.47499 -0.00025876 3.2534 0.0017724 544.7682849644425 31.754 0.41828 31.754 31.539 31.958 0 101 38 4 0 0 0 0.019652 1 14374 14374 74.772 34.814 1 1648300 17406 2734 11221 11246 19752 19752 -0.018299307365623463 LPDDPAKTTM 10 Unmodified _LPDDPAKTTM_ 0 0 0 nc|ENSG00000132912|Q9UJW0-2|DCTN4;ENSG00000132912|ENST00000447998|DCTN4;nc|ENSG00000132912|Q9UJW0-3|DCTN4;ENST00000519313.5_1_5:150110976-150138143:-|nuORF;ENST00000521093.1_1_5:150113023-150133188:-|nuORF nc|ENSG00000132912|Q9UJW0-2|DCTN4 nc|ENSG00000132912|Q9UJW0-2|DCTN4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.7701416015625 2 544.768257 1087.52196 3.273 0.001783 -0.24522 -0.00013359 3.0277 0.0016494 544.7683605942108 30.917 0.37456 31.706 31.502 31.877 0.78879 87 28 4 0 0 0 1.0164E-05 2 13957 13957;13999 121.5 73.755 1 2042800 17407 2734 11221 11246 19753;19754 19753 -0.018299307365623463 LPDDPAKTTM 10 Unmodified _LPDDPAKTTM_ 0 0 0 nc|ENSG00000132912|Q9UJW0-2|DCTN4;ENSG00000132912|ENST00000447998|DCTN4;nc|ENSG00000132912|Q9UJW0-3|DCTN4;ENST00000519313.5_1_5:150110976-150138143:-|nuORF;ENST00000521093.1_1_5:150113023-150133188:-|nuORF nc|ENSG00000132912|Q9UJW0-2|DCTN4 nc|ENSG00000132912|Q9UJW0-2|DCTN4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.7706909179688 2 544.768257 1087.52196 3.9549 0.0021545 -0.37352 -0.00020348 3.5813 0.001951 544.7683287401517 31.564 0.5777 31.819 31.522 32.1 0.25452 141 45 4 0 0 0 0.18812 1 14283 14283 40.725 22.579 1 1989400 17408 2734 11221 11246 19755 19755 -0.018299307365623463 LPDDPAKTTM 10 Unmodified _LPDDPAKTTM_ 0 0 0 nc|ENSG00000132912|Q9UJW0-2|DCTN4;ENSG00000132912|ENST00000447998|DCTN4;nc|ENSG00000132912|Q9UJW0-3|DCTN4;ENST00000519313.5_1_5:150110976-150138143:-|nuORF;ENST00000521093.1_1_5:150113023-150133188:-|nuORF nc|ENSG00000132912|Q9UJW0-2|DCTN4 nc|ENSG00000132912|Q9UJW0-2|DCTN4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.7703247070312 2 544.768257 1087.52196 3.5027 0.0019082 -0.15859 -8.6395E-05 3.3441 0.0018218 544.7684233217788 31.09 0.48915 31.707 31.421 31.91 0.61737 99 31 4 0 0 0 1.7918E-05 1 14250 14250 118.21 70.461 1 2591900 17409 2734 11221 11246 19756 19756 -0.018299307365623463 LPDDPAKTTM 10 Oxidation (M) _LPDDPAKTTM(Oxidation (M))_ LPDDPAKTTM(1) LPDDPAKTTM(44) 0 0 1 nc|ENSG00000132912|Q9UJW0-2|DCTN4;ENSG00000132912|ENST00000447998|DCTN4;nc|ENSG00000132912|Q9UJW0-3|DCTN4;ENST00000519313.5_1_5:150110976-150138143:-|nuORF;ENST00000521093.1_1_5:150113023-150133188:-|nuORF nc|ENSG00000132912|Q9UJW0-2|DCTN4 nc|ENSG00000132912|Q9UJW0-2|DCTN4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.7698974609375 2 552.765714 1103.51688 3.6799 0.0020341 1.1494 0.00063534 4.8292 0.0026694 552.7664598696927 19.498 0.26358 20.156 20.031 20.294 0.6583 41 18 3 0 0 0 0.16248 1 8837 8837 43.982 23.567 1 622010 17410 2734 11221 11247 19757 19757 41 -0.030742345991939146 LPDDPRQMTL 10 Unmodified _LPDDPRQMTL_ 0 0 0 ENSG00000258289|ENST00000549115|CHURC1;nc|ENSG00000258289|Q8WUH1-2|CHURC1;nc|ENSG00000258289|Q8WUH1-1|CHURC1 ENSG00000258289|ENST00000549115|CHURC1 ENSG00000258289|ENST00000549115|CHURC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.30224609375 2 593.300255 1184.58596 3.5521 0.0021075 -0.5293 -0.00031403 3.0228 0.0017934 593.3000403981113 53.099 0.51714 53.099 52.807 53.324 0 61 28 3 0 0 0 0.0123 4 24355 24255;24303;24355;24403 88.364 53.432 1 1347700 17411 6298 11222 11248 19758;19759;19760;19761 19760 0.001048494204042072 LPDDPRQMTL 10 Unmodified _LPDDPRQMTL_ 0 0 0 ENSG00000258289|ENST00000549115|CHURC1;nc|ENSG00000258289|Q8WUH1-2|CHURC1;nc|ENSG00000258289|Q8WUH1-1|CHURC1 ENSG00000258289|ENST00000549115|CHURC1 ENSG00000258289|ENST00000549115|CHURC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 593.3020629882812 2 593.300255 1184.58596 3.0845 0.00183 -0.12883 -7.6436E-05 2.9556 0.0017536 593.3001623164056 52.101 0.48733 52.912 52.666 53.154 0.81066 75 34 3 0 0 0 0.039166 3 23743 23693;23743;23796 64.927 37.3 1 1349500 17412 6298 11222 11248 19762;19763;19764 19763 0.001048494204042072 LPDDPRQMTL 10 Unmodified _LPDDPRQMTL_ 0 0 0 ENSG00000258289|ENST00000549115|CHURC1;nc|ENSG00000258289|Q8WUH1-2|CHURC1;nc|ENSG00000258289|Q8WUH1-1|CHURC1 ENSG00000258289|ENST00000549115|CHURC1 ENSG00000258289|ENST00000549115|CHURC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 593.3026123046875 2 593.300255 1184.58596 3.7392 0.0022184 -0.19536 -0.00011591 3.5438 0.0021025 593.3002242405147 52.81 0.49557 53.073 52.73 53.226 0.26344 55 22 3 0 0 0 0.020838 3 24119 24068;24119;24178 69.338 30.981 1 1728900 17413 6298 11222 11248 19765;19766;19767 19766 0.001048494204042072 LPDDPRQMTL 10 Unmodified _LPDDPRQMTL_ 0 0 0 ENSG00000258289|ENST00000549115|CHURC1;nc|ENSG00000258289|Q8WUH1-2|CHURC1;nc|ENSG00000258289|Q8WUH1-1|CHURC1 ENSG00000258289|ENST00000549115|CHURC1 ENSG00000258289|ENST00000549115|CHURC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 593.3024291992188 2 593.300255 1184.58596 3.6816 0.0021843 -0.20003 -0.00011868 3.4816 0.0020656 593.3001996301429 52.375 0.47547 53.037 52.757 53.233 0.66198 51 19 3 0 0 0 0.016901 4 23968 23874;23923;23968;24034 84.522 51.077 1 1240100 17414 6298 11222 11248 19768;19769;19770;19771 19770 0.001048494204042072 LPDEDLASF 9 Unmodified _LPDEDLASF_ 0 0 0 nc|ENSG00000048828|Q9NZB2-2|FAM120A;nc|ENSG00000048828|Q9NZB2-5|FAM120A;nc|ENSG00000048828|Q9NZB2-4|FAM120A;ENSG00000048828|ENST00000277165|FAM120A;nc|ENSG00000048828|Q9NZB2-6|FAM120A;FAM120A|p.G386Afs*27|1|0.58|ENSG00000048828|chr9:93516004-93516004|G/-|frameshift_variant nc|ENSG00000048828|Q9NZB2-2|FAM120A nc|ENSG00000048828|Q9NZB2-2|FAM120A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.74365234375 2 503.740022 1005.46549 3.4721 0.0017491 -0.44971 -0.00022654 3.0224 0.0015225 503.73962222147236 67.771 0.4563 68.023 67.821 68.277 0.25227 69 28 3 0 0 0 0.22507 1 31137 31137 21.747 2.3076 1 1648600 17415 572 11223 11249 19772 19772 -0.03702235301557266 LPDEDLASF 9 Unmodified _LPDEDLASF_ 0 0 0 nc|ENSG00000048828|Q9NZB2-2|FAM120A;nc|ENSG00000048828|Q9NZB2-5|FAM120A;nc|ENSG00000048828|Q9NZB2-4|FAM120A;ENSG00000048828|ENST00000277165|FAM120A;nc|ENSG00000048828|Q9NZB2-6|FAM120A;FAM120A|p.G386Afs*27|1|0.58|ENSG00000048828|chr9:93516004-93516004|G/-|frameshift_variant nc|ENSG00000048828|Q9NZB2-2|FAM120A nc|ENSG00000048828|Q9NZB2-2|FAM120A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1006.4765625 1 1006.47277 1005.46549 3.6327 0.0036562 3.7089 0.0037329 7.3415 0.0073891 1006.4777816403571 67.332 0.39789 67.99 67.779 68.177 0.65777 38 23 2 0 0 0 0.071101 1 30806 30806 39.957 11.47 1 956610 17416 572 11223 11249 19773 19773 -0.03702235301557266 LPDEDLASF 9 Unmodified _LPDEDLASF_ 0 0 0 nc|ENSG00000048828|Q9NZB2-2|FAM120A;nc|ENSG00000048828|Q9NZB2-5|FAM120A;nc|ENSG00000048828|Q9NZB2-4|FAM120A;ENSG00000048828|ENST00000277165|FAM120A;nc|ENSG00000048828|Q9NZB2-6|FAM120A;FAM120A|p.G386Afs*27|1|0.58|ENSG00000048828|chr9:93516004-93516004|G/-|frameshift_variant nc|ENSG00000048828|Q9NZB2-2|FAM120A nc|ENSG00000048828|Q9NZB2-2|FAM120A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 1006.47277 1005.46549 3.7429 0.0037672 4.5683 0.0045978 8.3112 0.008365 1006.4780955560067 67.858 0.39944 68.11 67.877 68.277 0.25227 0.060083 0.00045463 NaN 39.957 40 25 2 NaN NaN NaN NaN 0 NaN NaN 0 1157900 17417 572 11223 11249 -0.03702235301557266 LPDEEIFQQL 10 Unmodified _LPDEEIFQQL_ 0 0 0 ENSG00000169019|ENST00000381571|COMMD8 ENSG00000169019|ENST00000381571|COMMD8 ENSG00000169019|ENST00000381571|COMMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 616.3171997070312 2 616.313886 1230.61322 3.4744 0.0021413 0.35924 0.0002214 3.8336 0.0023627 616.3138287194614 82.323 0.27333 82.57 82.41 82.683 0.24722 37 17 3 0 0 0 0.037885 1 37856 37856 65.235 21.377 1 1369600 17418 4665 11224 11250 19774 19774 0.007136562324149054 LPDEEIFQQL 10 Unmodified _LPDEEIFQQL_ 0 0 0 ENSG00000169019|ENST00000381571|COMMD8 ENSG00000169019|ENST00000381571|COMMD8 ENSG00000169019|ENST00000381571|COMMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 616.3159790039062 2 616.313886 1230.61322 3.6942 0.0022768 -0.29058 -0.00017909 3.4036 0.0020977 616.3136485992131 81.724 0.33965 82.384 82.21 82.549 0.65998 44 24 2 0 0 0 0.075518 2 37620 37620;37667 56.177 20.05 1 1374300 17419 4665 11224 11250 19775;19776 19775 0.007136562324149054 LPDEEQEKL 9 Unmodified _LPDEEQEKL_ 0 0 0 nc|ENSG00000001497|Q9Y4W2-3|LAS1L;nc|ENSG00000001497|Q9Y4W2-2|LAS1L;ENSG00000001497|ENST00000374811|LAS1L nc|ENSG00000001497|Q9Y4W2-3|LAS1L nc|ENSG00000001497|Q9Y4W2-3|LAS1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.7796020507812 2 550.777136 1099.53972 3.7866 0.0020856 0.29864 0.00016449 4.0852 0.00225 550.7771953181079 31.093 0.19514 31.093 31.014 31.209 0 30 17 2 0 0 0 0.068032 2 14089 14042;14089 40.725 15.734 1 1230700 17420 296 11225 11251 19777;19778 19778 -0.006068922100439522 LPDEEQEKL 9 Unmodified _LPDEEQEKL_ 0 0 0 nc|ENSG00000001497|Q9Y4W2-3|LAS1L;nc|ENSG00000001497|Q9Y4W2-2|LAS1L;ENSG00000001497|ENST00000374811|LAS1L nc|ENSG00000001497|Q9Y4W2-3|LAS1L nc|ENSG00000001497|Q9Y4W2-3|LAS1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.7791748046875 2 550.777136 1099.53972 NaN NaN NaN NaN NaN NaN NaN 30.11 1 30.899 30.399 31.399 0.78921 0 0 0 0.10523 1 13592 13592 40.725 9.4566 1 17421 296 11225 11251 19779 19779 -0.006068922100439522 LPDEEQEKL 9 Unmodified _LPDEEQEKL_ 0 0 0 nc|ENSG00000001497|Q9Y4W2-3|LAS1L;nc|ENSG00000001497|Q9Y4W2-2|LAS1L;ENSG00000001497|ENST00000374811|LAS1L nc|ENSG00000001497|Q9Y4W2-3|LAS1L nc|ENSG00000001497|Q9Y4W2-3|LAS1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.7796020507812 2 550.777136 1099.53972 4.0126 0.00221 0.083336 4.59E-05 4.0959 0.0022559 550.7772340227831 30.912 0.30428 31.168 31.033 31.337 0.25614 62 34 2 0 0 0 0.082627 2 14045 14045;14093 37.075 20.926 1 588250 17422 296 11225 11251 19780;19781 19780 -0.006068922100439522 LPDEEQEKL 9 Unmodified _LPDEEQEKL_ 0 0 0 nc|ENSG00000001497|Q9Y4W2-3|LAS1L;nc|ENSG00000001497|Q9Y4W2-2|LAS1L;ENSG00000001497|ENST00000374811|LAS1L nc|ENSG00000001497|Q9Y4W2-3|LAS1L nc|ENSG00000001497|Q9Y4W2-3|LAS1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.7796630859375 2 550.777136 1099.53972 3.5418 0.0019507 0.41438 0.00022823 3.9562 0.002179 550.7773108569687 30.496 0.22486 31.114 31.009 31.234 0.61736 36 19 2 0 0 0 0.069974 2 14026 13971;14026 40.239 12.61 1 596120 17423 296 11225 11251 19782;19783 19783 -0.006068922100439522 LPDEFSPAV 9 Unmodified _LPDEFSPAV_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.7464904785156 2 487.745108 973.475663 3.0019 0.0014642 1.3584 0.00066255 4.3603 0.0021267 487.74526265223113 62.936 0.34651 63.185 63.004 63.351 0.24965 34 21 2 0 0 0 0.012869 3 28829 28777;28829;28875 77.984 27.129 1 1866700 17424 4953 11226 11252 19784;19785;19786 19785 -0.012136275763282356 LPDEFSPAV 9 Unmodified _LPDEFSPAV_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 974.4841918945312 1 974.482939 973.475663 3.4996 0.0034103 0.24804 0.00024171 3.7476 0.003652 974.4825855872278 62.941 0.28038 63.191 63.034 63.314 0.24965 34 15 3 0 0 0 0.00054818 2 28794 28794;28840 131.3 90.849 1 2274900 17425 4953 11226 11252 19787;19788 19787 -0.012136275763282356 LPDEFSPAV 9 Unmodified _LPDEFSPAV_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.7469177246094 2 487.745108 973.475663 3.0134 0.0014698 0.41852 0.00020413 3.432 0.0016739 487.7449488908957 62.367 0.34121 63.027 62.842 63.183 0.66009 44 23 2 0 0 0 0.047285 2 28564 28519;28564 48.346 14.159 1 1487300 17426 4953 11226 11252 19789;19790 19790 -0.012136275763282356 LPDEFSPAV 9 Unmodified _LPDEFSPAV_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 974.486328125 1 974.482939 973.475663 3.5679 0.0034769 0.70324 0.00068529 4.2712 0.0041622 974.4827749281027 62.374 0.3605 63.034 62.823 63.183 0.66009 60 25 3 0 0 0 0.00054818 3 28541 28541;28589;28642 131.3 81.629 1 2472800 17427 4953 11226 11252 19791;19792;19793 19791 -0.012136275763282356 LPDEKNVL 8 Unmodified _LPDEKNVL_ 0 0 0 nc|ENSG00000157077|O95405-3|ZFYVE9;ENST00000361625.5_1_1:52698878-52729552:+|nuORF;nc|ENSG00000157077|O95405-2|ZFYVE9;ENSG00000157077|ENST00000287727|ZFYVE9 nc|ENSG00000157077|O95405-3|ZFYVE9 nc|ENSG00000157077|O95405-3|ZFYVE9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.2623596191406 2 464.260925 926.507297 2.7361 0.0012703 0.23328 0.00010831 2.9694 0.0013786 464.2609546054856 34.919 0.37746 35.708 35.553 35.93 0.78921 60 24 3 0 0 0 0.5438 1 15909 15909 18.135 2.2878 1 1159900 17428 3938 11227 11253 19794 19794 0.04110365177609765 LPDEKNVL 8 Unmodified _LPDEKNVL_ 0 0 0 nc|ENSG00000157077|O95405-3|ZFYVE9;ENST00000361625.5_1_1:52698878-52729552:+|nuORF;nc|ENSG00000157077|O95405-2|ZFYVE9;ENSG00000157077|ENST00000287727|ZFYVE9 nc|ENSG00000157077|O95405-3|ZFYVE9 nc|ENSG00000157077|O95405-3|ZFYVE9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.2626647949219 2 464.260925 926.507297 2.6812 0.0012448 0.18683 8.6738E-05 2.868 0.0013315 464.26103860671685 35.612 0.48297 35.868 35.651 36.134 0.25524 42 16 3 0 0 0 0.13532 2 16253 16253;16317 49.933 2.4897 1 1008500 17429 3938 11227 11253 19795;19796 19795 0.04110365177609765 LPDENREVL 9 Unmodified _LPDENREVL_ 0 0 0 nc|ENSG00000164741|Q96QB1-4|DLC1;nc|ENSG00000164741|Q96QB1-1|DLC1;nc|ENSG00000164741|Q96QB1-6|DLC1;ENSG00000164741|ENST00000276297|DLC1;DLC1|p.Q1202H|1|0.29|ENSG00000164741|chr8:13092746-13092746|C/G|missense_variant;nc|ENSG00000130052|Q92502|STARD8;ENSG00000130052|ENST00000374599|STARD8 nc|ENSG00000164741|Q96QB1-4|DLC1 nc|ENSG00000164741|Q96QB1-4|DLC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.787841796875 2 542.785296 1083.55604 3.4694 0.0018831 0.27298 0.00014817 3.7424 0.0020313 542.7853945315238 36.957 0.45606 36.957 36.712 37.168 0 44 18 3 0 0 0 0.057945 1 16813 16813 43.772 14.691 1 1081900 17430 4340 11228 11254 19797 19797 0.01760233746722406 LPDENREVL 9 Unmodified _LPDENREVL_ 0 0 0 nc|ENSG00000164741|Q96QB1-4|DLC1;nc|ENSG00000164741|Q96QB1-1|DLC1;nc|ENSG00000164741|Q96QB1-6|DLC1;ENSG00000164741|ENST00000276297|DLC1;DLC1|p.Q1202H|1|0.29|ENSG00000164741|chr8:13092746-13092746|C/G|missense_variant;nc|ENSG00000130052|Q92502|STARD8;ENSG00000130052|ENST00000374599|STARD8 nc|ENSG00000164741|Q96QB1-4|DLC1 nc|ENSG00000164741|Q96QB1-4|DLC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.7868041992188 2 542.785296 1083.55604 3.2202 0.0017479 0.1701 9.2327E-05 3.3903 0.0018402 542.7853780006295 35.911 0.351 36.703 36.547 36.898 0.79132 32 14 3 0 0 0 0.057456 2 16283 16283;16341 43.982 16.759 1 1143500 17431 4340 11228 11254 19798;19799 19798 0.01760233746722406 LPDENREVL 9 Unmodified _LPDENREVL_ 0 0 0 nc|ENSG00000164741|Q96QB1-4|DLC1;nc|ENSG00000164741|Q96QB1-1|DLC1;nc|ENSG00000164741|Q96QB1-6|DLC1;ENSG00000164741|ENST00000276297|DLC1;DLC1|p.Q1202H|1|0.29|ENSG00000164741|chr8:13092746-13092746|C/G|missense_variant;nc|ENSG00000130052|Q92502|STARD8;ENSG00000130052|ENST00000374599|STARD8 nc|ENSG00000164741|Q96QB1-4|DLC1 nc|ENSG00000164741|Q96QB1-4|DLC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.7874145507812 2 542.785296 1083.55604 3.4418 0.0018682 0.46416 0.00025194 3.906 0.0021201 542.7853652164955 36.848 0.44514 37.106 36.868 37.313 0.25768 35 14 3 0 0 0 0.11155 1 16743 16743 29.841 7.1043 1 1307300 17432 4340 11228 11254 19800 19800 0.01760233746722406 LPDENREVL 9 Unmodified _LPDENREVL_ 0 0 0 nc|ENSG00000164741|Q96QB1-4|DLC1;nc|ENSG00000164741|Q96QB1-1|DLC1;nc|ENSG00000164741|Q96QB1-6|DLC1;ENSG00000164741|ENST00000276297|DLC1;DLC1|p.Q1202H|1|0.29|ENSG00000164741|chr8:13092746-13092746|C/G|missense_variant;nc|ENSG00000130052|Q92502|STARD8;ENSG00000130052|ENST00000374599|STARD8 nc|ENSG00000164741|Q96QB1-4|DLC1 nc|ENSG00000164741|Q96QB1-4|DLC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 542.785296 1083.55604 3.555 0.0019296 0.35317 0.00019169 3.9082 0.0021213 542.7853210100038 36.193 0.47007 36.819 36.635 37.105 0.62631 -0.077119 3.425E-05 NaN 43.982 30 14 3 NaN NaN NaN NaN 0 NaN NaN 0 1095600 17433 4340 11228 11254 0.01760233746722406 LPDERTISL 9 Unmodified _LPDERTISL_ 0 0 0 ENSG00000101138|ENST00000217109|CSTF1 ENSG00000101138|ENST00000217109|CSTF1 ENSG00000101138|ENST00000217109|CSTF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.2928466796875 2 522.290214 1042.56587 3.4044 0.0017781 1.5415 0.00080509 4.9459 0.0025832 522.291307455437 50.846 0.29623 50.846 50.711 51.007 0 39 13 4 0 0 0 0.0071692 1 23282 23282 87.258 28.579 1 9504900 17434 1262 11229 11255 19801 19801 0.046294217521108294 LPDERTISL 9 Unmodified _LPDERTISL_ 0 0 0 ENSG00000101138|ENST00000217109|CSTF1 ENSG00000101138|ENST00000217109|CSTF1 ENSG00000101138|ENST00000217109|CSTF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.2925415039062 2 522.290214 1042.56587 3.4722 0.0018135 1.2022 0.0006279 4.6744 0.0024414 522.2910223464025 49.996 0.35789 50.819 50.612 50.97 0.82285 46 14 4 0 0 0 0.0023958 1 22761 22761 100.09 32.01 1 7566200 17435 1262 11229 11255 19802 19802 0.046294217521108294 LPDERTISL 9 Unmodified _LPDERTISL_ 0 0 0 ENSG00000101138|ENST00000217109|CSTF1 ENSG00000101138|ENST00000217109|CSTF1 ENSG00000101138|ENST00000217109|CSTF1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 522.290214 1042.56587 3.2749 0.0017104 1.9087 0.00099689 5.1835 0.0027073 522.2914318583304 50.742 0.37537 51.004 50.793 51.169 0.26146 0.16559 0.00040327 NaN 100.09 59 17 4 NaN NaN NaN NaN 0 NaN NaN 0 5468700 17436 1262 11229 11255 0.046294217521108294 LPDERTISL 9 Unmodified _LPDERTISL_ 0 0 0 ENSG00000101138|ENST00000217109|CSTF1 ENSG00000101138|ENST00000217109|CSTF1 ENSG00000101138|ENST00000217109|CSTF1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 522.290214 1042.56587 3.3127 0.0017302 1.5557 0.00081253 4.8684 0.0025427 522.2911737776329 50.026 0.38798 50.684 50.507 50.895 0.65735 -0.15414 3.4563E-05 NaN 100.09 52 14 5 NaN NaN NaN NaN 0 NaN NaN 0 4740800 17437 1262 11229 11255 0.046294217521108294 LPDGDHDL 8 Unmodified _LPDGDHDL_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA;ENSG00000109107|ENST00000226253|ALDOC;ENST00000566146.1_1_16:30080209-30080764:+|nuORF nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.2052917480469 2 441.203607 880.392661 3.1751 0.0014009 0.098974 4.3668E-05 3.2741 0.0014445 441.20381747521134 28.347 1.3288 28.347 28.085 29.413 0 267 105 5 0 0 0 0.0081859 8 12853 12704;12754;12807;12853;12900;12945;12996;13062 123.1 0 1 150040000 17438 3661 11230 11256 19803;19804;19805;19806;19807;19808;19809;19810 19806 -0.052319443043188585 LPDGDHDL 8 Unmodified _LPDGDHDL_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA;ENSG00000109107|ENST00000226253|ALDOC;ENST00000566146.1_1_16:30080209-30080764:+|nuORF nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 881.4041137695312 1 881.399938 880.392661 4.0581 0.0035768 0.12769 0.00011255 4.1858 0.0036894 881.4001361936897 28.347 0.34465 28.347 28.186 28.531 0 40 22 2 0 0 0 0.0081859 2 12761 12761;12822 123.1 0 1 2128400 17439 3661 11230 11256 19811;19812 19811 -0.052319443043188585 LPDGDHDL 8 Unmodified _LPDGDHDL_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA;ENSG00000109107|ENST00000226253|ALDOC;ENST00000566146.1_1_16:30080209-30080764:+|nuORF nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 441.20513916015625 2 441.203607 880.392661 2.8584 0.0012611 -0.13003 -5.7371E-05 2.7283 0.0012038 441.20375598644375 27.456 0.96094 28.243 27.905 28.866 0.78627 321 85 5 0 0 0 0.0036564 8 12354 12258;12309;12354;12399;12445;12488;12536;12584 131.3 0 1 128020000 17440 3661 11230 11256 19813;19814;19815;19816;19817;19818;19819;19820 19815 -0.052319443043188585 LPDGDHDL 8 Unmodified _LPDGDHDL_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA;ENSG00000109107|ENST00000226253|ALDOC;ENST00000566146.1_1_16:30080209-30080764:+|nuORF nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 881.4019165039062 1 881.399938 880.392661 3.6856 0.0032485 -0.19269 -0.00016984 3.4929 0.0030787 881.3998587061346 27.445 0.3899 28.231 28.072 28.462 0.78627 63 35 2 0 0 0 0.029979 2 12318 12318;12373 77.984 0 1 1312700 17441 3661 11230 11256 19821;19822 19821 -0.052319443043188585 LPDGDHDL 8 Unmodified _LPDGDHDL_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA;ENSG00000109107|ENST00000226253|ALDOC;ENST00000566146.1_1_16:30080209-30080764:+|nuORF nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 441.203857421875 2 441.203607 880.392661 NaN NaN NaN NaN NaN NaN NaN 28.574 1 29.364 28.864 29.864 0.78921 0 0 0 0.89651 1 12871 12871 12.532 0 1 17442 3661 11230 11256 19823 19823 -0.052319443043188585 LPDGDHDL 8 Unmodified _LPDGDHDL_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA;ENSG00000109107|ENST00000226253|ALDOC;ENST00000566146.1_1_16:30080209-30080764:+|nuORF nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.20501708984375 2 441.203607 880.392661 2.733 0.0012058 0.10864 4.7932E-05 2.8416 0.0012537 441.2038918810422 28.168 0.81471 28.43 28.142 28.957 0.26245 225 58 5 0 0 0 0.0085377 8 12757 12712;12757;12799;12843;12893;12937;12991;13039 117.6 0 1 98149000 17443 3661 11230 11256 19824;19825;19826;19827;19828;19829;19830;19831 19825 -0.052319443043188585 LPDGDHDL 8 Unmodified _LPDGDHDL_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA;ENSG00000109107|ENST00000226253|ALDOC;ENST00000566146.1_1_16:30080209-30080764:+|nuORF nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 881.4044799804688 1 881.399938 880.392661 3.7768 0.0033289 -0.47931 -0.00042246 3.2975 0.0029064 881.3996836321572 28.168 0.44986 28.43 28.266 28.716 0.26245 56 33 2 0 0 0 0.025999 3 12798 12756;12798;12856 81.864 0 1 1177500 17444 3661 11230 11256 19832;19833;19834 19833 -0.052319443043188585 LPDGDHDL 8 Unmodified _LPDGDHDL_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA;ENSG00000109107|ENST00000226253|ALDOC;ENST00000566146.1_1_16:30080209-30080764:+|nuORF nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.2046813964844 2 441.203607 880.392661 NaN NaN NaN NaN NaN NaN NaN 28.831 1 29.091 28.591 29.591 0.2602 0 0 0 0.11481 1 13118 13118 50.855 0 1 17445 3661 11230 11256 19835 19835 -0.052319443043188585 LPDGDHDL 8 Unmodified _LPDGDHDL_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA;ENSG00000109107|ENST00000226253|ALDOC;ENST00000566146.1_1_16:30080209-30080764:+|nuORF nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.2049255371094 2 441.203607 880.392661 3.0078 0.001327 -0.12345 -5.4465E-05 2.8843 0.0012726 441.20376840466315 27.784 0.91989 28.404 28.017 28.937 0.61947 226 62 5 0 0 0 0.0036564 7 12728 12633;12678;12728;12776;12828;12876;12923 131.3 0 1 114960000 17446 3661 11230 11256 19836;19837;19838;19839;19840;19841;19842 19838 -0.052319443043188585 LPDGDHDL 8 Unmodified _LPDGDHDL_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA;ENSG00000109107|ENST00000226253|ALDOC;ENST00000566146.1_1_16:30080209-30080764:+|nuORF nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 881.4038696289062 1 881.399938 880.392661 3.8676 0.0034089 -0.1908 -0.00016817 3.6768 0.0032407 881.3998857156017 27.784 0.4133 28.404 28.219 28.632 0.61947 52 27 2 0 0 0 0.017856 3 12711 12711;12755;12807 89.427 0 1 1719400 17447 3661 11230 11256 19843;19844;19845 19843 -0.052319443043188585 LPDGGKEVL 9 Unmodified _LPDGGKEVL_ 0 0 0 ENST00000512124.6_1_5:31467712-31485015:-|nuORF;nc|ENSG00000113360|Q9NRR4-3|DROSHA;nc|ENSG00000113360|Q9NRR4-2|DROSHA;nc|ENSG00000113360|Q9NRR4-4|DROSHA;ENSG00000113360|ENST00000344624|DROSHA ENST00000512124.6_1_5:31467712-31485015:-|nuORF ENST00000512124.6_1_5:31467712-31485015:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.2625427246094 2 464.260925 926.507297 2.6419 0.0012266 0.59832 0.00027777 3.2403 0.0015043 464.2610701852109 35.802 0.34106 35.802 35.658 35.999 0 41 18 3 0 0 0 0.049036 1 16227 16227 47.594 3.7361 1 1090200 17448 1848 11231 11257 19846 19846 0.04110365177609765 LPDGQVITI 9 Unmodified _LPDGQVITI_ 0 0 0 ENSG00000159251|ENST00000290378|ACTC1;ENSG00000143632|ENST00000366684|ACTA1;nc|ENSG00000163017|P63267-2|ACTG2;ENSG00000163017|ENST00000345517|ACTG2;ENSG00000107796|ENST00000224784|ACTA2;nc|ENSG00000204434|Q9BYX7|POTEKP;ENST00000397487.3_1_2:132383579-132384836:+|nuORF;ENST00000486001.1_1_1:27651822-27652284:+|nuORF;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000574671.5_1_17:79477718-79478688:-|nuORF;ENST00000462494.5_1_7:5567381-5568494:-|nuORF;ENSG00000169067|ENST00000423391|ACTBL2;ENSG00000196604|ENST00000409914|POTEF;ENSG00000188219|ENST00000683005|POTEE;ENSG00000196834|ENST00000451531|POTEI;ENSG00000222038|ENST00000409602|POTEJ ENSG00000159251|ENST00000290378|ACTC1;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.2774353027344 2 478.276575 954.538597 3.3355 0.0015953 0.61084 0.00029215 3.9463 0.0018874 478.2764798164074 68.536 0.4649 68.789 68.587 69.052 0.25227 75 31 3 0 0 0 0.02234 2 31385 31381;31385 65.235 2.6623 1 1734500 17449 832;5762;3384 11232 11258 19847;19848 19848 0.0595093821170849 LPDGQVITI 9 Unmodified _LPDGQVITI_ 0 0 0 ENSG00000159251|ENST00000290378|ACTC1;ENSG00000143632|ENST00000366684|ACTA1;nc|ENSG00000163017|P63267-2|ACTG2;ENSG00000163017|ENST00000345517|ACTG2;ENSG00000107796|ENST00000224784|ACTA2;nc|ENSG00000204434|Q9BYX7|POTEKP;ENST00000397487.3_1_2:132383579-132384836:+|nuORF;ENST00000486001.1_1_1:27651822-27652284:+|nuORF;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000574671.5_1_17:79477718-79478688:-|nuORF;ENST00000462494.5_1_7:5567381-5568494:-|nuORF;ENSG00000169067|ENST00000423391|ACTBL2;ENSG00000196604|ENST00000409914|POTEF;ENSG00000188219|ENST00000683005|POTEE;ENSG00000196834|ENST00000451531|POTEI;ENSG00000222038|ENST00000409602|POTEJ ENSG00000159251|ENST00000290378|ACTC1;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 955.5484008789062 1 955.545874 954.538597 3.9865 0.0038093 -0.61734 -0.00058989 3.3692 0.0032194 955.5461055366632 68.578 0.31539 68.831 68.643 68.958 0.25227 34 23 2 0 0 0 0.02812 1 31425 31425 57.722 12.022 1 394160 17450 832;5762;3384 11232 11258 19849 19849 0.0595093821170849 LPDGQVITI 9 Unmodified _LPDGQVITI_ 0 0 0 ENSG00000159251|ENST00000290378|ACTC1;ENSG00000143632|ENST00000366684|ACTA1;nc|ENSG00000163017|P63267-2|ACTG2;ENSG00000163017|ENST00000345517|ACTG2;ENSG00000107796|ENST00000224784|ACTA2;nc|ENSG00000204434|Q9BYX7|POTEKP;ENST00000397487.3_1_2:132383579-132384836:+|nuORF;ENST00000486001.1_1_1:27651822-27652284:+|nuORF;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000574671.5_1_17:79477718-79478688:-|nuORF;ENST00000462494.5_1_7:5567381-5568494:-|nuORF;ENSG00000169067|ENST00000423391|ACTBL2;ENSG00000196604|ENST00000409914|POTEF;ENSG00000188219|ENST00000683005|POTEE;ENSG00000196834|ENST00000451531|POTEI;ENSG00000222038|ENST00000409602|POTEJ ENSG00000159251|ENST00000290378|ACTC1;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 955.55078125 1 955.545874 954.538597 3.7077 0.0035429 -0.13283 -0.00012692 3.5749 0.0034159 955.546243756074 68.014 0.30389 68.672 68.554 68.858 0.65777 34 20 2 0 0 0 0.024388 3 31192 31146;31192;31237 62.573 20.733 1 616320 17451 832;5762;3384 11232 11258 19850;19851;19852 19851 0.0595093821170849 LPDGQVITI 9 Unmodified _LPDGQVITI_ 0 0 0 ENSG00000159251|ENST00000290378|ACTC1;ENSG00000143632|ENST00000366684|ACTA1;nc|ENSG00000163017|P63267-2|ACTG2;ENSG00000163017|ENST00000345517|ACTG2;ENSG00000107796|ENST00000224784|ACTA2;nc|ENSG00000204434|Q9BYX7|POTEKP;ENST00000397487.3_1_2:132383579-132384836:+|nuORF;ENST00000486001.1_1_1:27651822-27652284:+|nuORF;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000574671.5_1_17:79477718-79478688:-|nuORF;ENST00000462494.5_1_7:5567381-5568494:-|nuORF;ENSG00000169067|ENST00000423391|ACTBL2;ENSG00000196604|ENST00000409914|POTEF;ENSG00000188219|ENST00000683005|POTEE;ENSG00000196834|ENST00000451531|POTEI;ENSG00000222038|ENST00000409602|POTEJ ENSG00000159251|ENST00000290378|ACTC1;ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 478.276575 954.538597 2.4166 0.0011558 0.16185 7.7409E-05 2.5785 0.0012332 478.27639014472186 68.966 0.21097 68.966 68.83 69.041 0 0.15609 -0.00032344 NaN 65.235 36 25 2 NaN NaN NaN NaN 0 NaN NaN 0 2082600 17452 832;5762;3384 11232 11258 0.0595093821170849 LPDGTSLTQTF 11 Unmodified _LPDGTSLTQTF_ 0 0 0 ENSG00000162191|ENST00000301935|UBXN1;nc|ENSG00000162191|Q04323-2|UBXN1 ENSG00000162191|ENST00000301935|UBXN1 ENSG00000162191|ENST00000301935|UBXN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.2996215820312 2 590.298236 1178.58192 2.9007 0.0017123 -0.25189 -0.00014869 2.6488 0.0015636 590.2980860422642 66.334 0.26399 66.334 66.181 66.445 0 65 34 3 0 0 0 0.0013644 1 31665 31665 78.728 47.46 1 4922300 17453 4123 11233 11259 19853 19853 -0.00022916801685823884 LPDGTSLTQTF 11 Unmodified _LPDGTSLTQTF_ 0 0 0 ENSG00000162191|ENST00000301935|UBXN1;nc|ENSG00000162191|Q04323-2|UBXN1 ENSG00000162191|ENST00000301935|UBXN1 ENSG00000162191|ENST00000301935|UBXN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.2987670898438 2 590.298236 1178.58192 2.7971 0.0016511 -0.60399 -0.00035653 2.1931 0.0012946 590.297534520224 65.479 0.4041 66.188 66.052 66.456 0.70891 86 44 3 0 0 0 6.0067E-15 2 30962 30962;31017 129.77 60.667 1 7003000 17454 4123 11233 11259 19854;19855 19854 -0.00022916801685823884 LPDGTSLTQTF 11 Unmodified _LPDGTSLTQTF_ 0 0 0 ENSG00000162191|ENST00000301935|UBXN1;nc|ENSG00000162191|Q04323-2|UBXN1 ENSG00000162191|ENST00000301935|UBXN1 ENSG00000162191|ENST00000301935|UBXN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.3004150390625 2 590.298236 1178.58192 3.8085 0.0022482 0.17445 0.00010298 3.983 0.0023511 590.2983086632568 65.463 0.40909 66.12 65.9 66.309 0.65672 60 22 4 0 0 0 7.8126E-10 2 30006 29954;30006 118.07 59.647 1 5465400 17455 4123 11233 11259 19856;19857 19857 -0.00022916801685823884 LPDGYEFKF 9 Unmodified _LPDGYEFKF_ 0 0 0 ENST00000425542.5_1_22:38072875-38075753:+|nuORF;ENSG00000100097|ENST00000215909|LGALS1;ENST00000472321.1_1_22:38074415-38075753:+|nuORF ENST00000425542.5_1_22:38072875-38075753:+|nuORF ENST00000425542.5_1_22:38072875-38075753:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.2764892578125 2 558.274032 1114.53351 3.7658 0.0021023 -0.57265 -0.0003197 3.1931 0.0017826 558.2735078510505 67.133 0.46227 67.383 67.166 67.628 0.2501 49 29 2 0 0 0 0.025135 3 30765 30699;30765;30819 61.602 25.475 1 709330 17456 1175 11234 11260 19858;19859;19860 19859 -0.019173656509110515 LPDGYEFKF 9 Unmodified _LPDGYEFKF_ 0 0 0 ENST00000425542.5_1_22:38072875-38075753:+|nuORF;ENSG00000100097|ENST00000215909|LGALS1;ENST00000472321.1_1_22:38074415-38075753:+|nuORF ENST00000425542.5_1_22:38072875-38075753:+|nuORF ENST00000425542.5_1_22:38072875-38075753:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.2752685546875 2 558.274032 1114.53351 3.5737 0.0019951 -0.52109 -0.00029091 3.0526 0.0017042 558.2737308151478 66.479 0.43419 67.136 66.98 67.414 0.65672 48 24 3 0 0 0 0.023321 3 30493 30447;30493;30539 63.961 24.003 1 841080 17457 1175 11234 11260 19861;19862;19863 19862 -0.019173656509110515 LPDHEARMI 9 Unmodified _LPDHEARMI_ 0 0 0 REV__ENST00000503926.1_1_4:15009003-15018907:+|nuORF REV__ENST00000503926.1_1_4:15009003-15018907:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.2787475585938 2 541.276583 1080.53861 NaN NaN NaN NaN NaN NaN NaN 64.376 1 64.624 64.124 65.124 0.24803 0 0 0 0.65681 1 29485 29485 13.906 0.86358 1 + 17458 10111 11235 11261 19864 19864 0.0015661494005598797 LPDHINIVL 9 Unmodified _LPDHINIVL_ 0 0 0 nc|ENSG00000120526|Q96RS6-3|NUDCD1;ENST00000519607.5_1_8:110255240-110326067:-|nuORF;nc|ENSG00000120526|Q96RS6-2|NUDCD1;ENSG00000120526|ENST00000239690|NUDCD1 nc|ENSG00000120526|Q96RS6-3|NUDCD1 nc|ENSG00000120526|Q96RS6-3|NUDCD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.8106689453125 2 517.305667 1032.59678 2.6099 0.0013501 1.2838 0.0006641 3.8937 0.0020142 517.3055325458747 70.61 0.13239 70.61 70.578 70.71 0 27 16 2 0 0 0 0.086415 1 34296 34296 36.127 9.7857 1 1726400 17459 2195 11236 11262 19865 19865 0.08178619856971636 LPDHINIVL 9 Unmodified _LPDHINIVL_ 0 0 0 nc|ENSG00000120526|Q96RS6-3|NUDCD1;ENST00000519607.5_1_8:110255240-110326067:-|nuORF;nc|ENSG00000120526|Q96RS6-2|NUDCD1;ENSG00000120526|ENST00000239690|NUDCD1 nc|ENSG00000120526|Q96RS6-3|NUDCD1 nc|ENSG00000120526|Q96RS6-3|NUDCD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.3067626953125 2 517.305667 1032.59678 3.3132 0.0017139 -0.84745 -0.00043839 2.4657 0.0012755 517.3049536070331 70.455 0.28951 70.711 70.526 70.816 0.25642 51 21 3 0 0 0 0.02234 2 32266 32222;32266 65.235 11.402 1 2684400 17460 2195 11236 11262 19866;19867 19867 0.08178619856971636 LPDHINIVL 9 Unmodified _LPDHINIVL_ 0 0 0 nc|ENSG00000120526|Q96RS6-3|NUDCD1;ENST00000519607.5_1_8:110255240-110326067:-|nuORF;nc|ENSG00000120526|Q96RS6-2|NUDCD1;ENSG00000120526|ENST00000239690|NUDCD1 nc|ENSG00000120526|Q96RS6-3|NUDCD1 nc|ENSG00000120526|Q96RS6-3|NUDCD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.3079223632812 2 517.305667 1032.59678 3.0464 0.0015759 -0.13215 -6.836E-05 2.9142 0.0015075 517.3053828206386 69.911 0.3082 70.571 70.415 70.724 0.66072 54 21 3 0 0 0 0.029308 2 32075 32026;32075 56.177 7.8312 1 2156600 17461 2195 11236 11262 19868;19869 19869 0.08178619856971636 LPDHINIVL 9 Unmodified _LPDHINIVL_ 0 0 0 nc|ENSG00000120526|Q96RS6-3|NUDCD1;ENST00000519607.5_1_8:110255240-110326067:-|nuORF;nc|ENSG00000120526|Q96RS6-2|NUDCD1;ENSG00000120526|ENST00000239690|NUDCD1 nc|ENSG00000120526|Q96RS6-3|NUDCD1 nc|ENSG00000120526|Q96RS6-3|NUDCD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 517.305667 1032.59678 2.7949 0.0014458 -0.23053 -0.00011926 2.5644 0.0013266 517.3056799394607 69.779 0.2563 70.482 70.344 70.6 0.70302 -0.11156 5.7626E-06 NaN 65.235 39 26 2 NaN NaN NaN NaN 0 NaN NaN 0 1899100 17462 2195 11236 11262 0.08178619856971636 LPDHPSRSM 9 Unmodified _LPDHPSRSM_ 0 0 0 ENSG00000135245|ENST00000257696|HILPDA ENSG00000135245|ENST00000257696|HILPDA ENSG00000135245|ENST00000257696|HILPDA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 347.1722717285156 3 347.171164 1038.49166 2.4719 0.00085818 -0.48977 -0.00017003 1.9822 0.00068815 347.17104220438557 14.131 0.18303 14.131 14.005 14.189 0 25 11 3 0 0 0 0.22427 1 6215 6215 21.799 8.1846 1 849900 17463 2857 11237 11263 19870 19870 -0.02604244611075046 LPDHPSRSM 9 Unmodified _LPDHPSRSM_ 0 0 0 ENSG00000135245|ENST00000257696|HILPDA ENSG00000135245|ENST00000257696|HILPDA ENSG00000135245|ENST00000257696|HILPDA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.17230224609375 3 347.171164 1038.49166 2.6245 0.00091113 0.40714 0.00014135 3.0316 0.0010525 347.1713576854064 12.952 0.25297 13.595 13.446 13.699 0.64272 12 7 2 0 0 0 0.30351 1 5810 5810 16.566 5.742 1 322840 17464 2857 11237 11263 19871 19871 -0.02604244611075046 LPDHPSRSM 9 Unmodified _LPDHPSRSM_ 0 0 0 ENSG00000135245|ENST00000257696|HILPDA ENSG00000135245|ENST00000257696|HILPDA ENSG00000135245|ENST00000257696|HILPDA MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 347.171164 1038.49166 2.1253 0.00073784 0.54584 0.0001895 2.6711 0.00092734 347.1714048159304 13.494 0.34701 13.737 13.542 13.889 0.24346 0.071223 3.1618E-05 NaN 16.566 57 32 2 NaN NaN NaN NaN 0 NaN NaN 0 452330 17465 2857 11237 11263 -0.02604244611075046 LPDIFRGRPNM 11 Unmodified _LPDIFRGRPNM_ 0 0 0 REV__ENST00000379383.7_1_2:32108462-32117090:-|nuORF REV__ENST00000379383.7_1_2:32108462-32117090:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 658.3515625 2 658.350614 1314.68668 NaN NaN NaN NaN NaN NaN NaN 69.084 1 69.786 69.286 70.286 0.70218 0 0 0 1.0044 1 33012 33012 4.897 0 1 + 17466 15866 11238 11264 19872 19872 0.0419192619392561 LPDINIYQL 9 Unmodified _LPDINIYQL_ 0 0 0 ENST00000366516.5_1_1:245912867-246093251:-|nuORF;nc|ENSG00000185420|Q9H7B4-2|SMYD3;ENST00000366517.5_1_1:245912867-246116553:-|nuORF;nc|ENSG00000185420|Q9H7B4-3|SMYD3;ENSG00000185420|ENST00000490107|SMYD3 ENST00000366516.5_1_1:245912867-246093251:-|nuORF ENST00000366516.5_1_1:245912867-246093251:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.8052368164062 2 544.802957 1087.59136 3.6838 0.0020069 0.058425 3.183E-05 3.7422 0.0020388 544.8030431030696 87.224 0.38465 87.474 87.333 87.718 0.24974 28 17 2 0 0 0 0.061685 2 40156 40156;40211 53.833 6.0841 1 938760 17467 5506 11239 11265 19873;19874 19873 0.05106896274514838 LPDINIYQL 9 Unmodified _LPDINIYQL_ 0 0 0 ENST00000366516.5_1_1:245912867-246093251:-|nuORF;nc|ENSG00000185420|Q9H7B4-2|SMYD3;ENST00000366517.5_1_1:245912867-246116553:-|nuORF;nc|ENSG00000185420|Q9H7B4-3|SMYD3;ENSG00000185420|ENST00000490107|SMYD3 ENST00000366516.5_1_1:245912867-246093251:-|nuORF ENST00000366516.5_1_1:245912867-246093251:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.3070678710938 2 544.802957 1087.59136 3.6516 0.0019894 0.088602 4.8271E-05 3.7402 0.0020377 544.8027965072431 86.812 0.29646 87.487 87.309 87.605 0.67555 17 12 2 0 0 0 0.24272 1 40014 40014 27.629 4.8925 1 664570 17468 5506 11239 11265 19875 19875 0.05106896274514838 LPDINIYQL 9 Unmodified _LPDINIYQL_ 0 0 0 ENST00000366516.5_1_1:245912867-246093251:-|nuORF;nc|ENSG00000185420|Q9H7B4-2|SMYD3;ENST00000366517.5_1_1:245912867-246116553:-|nuORF;nc|ENSG00000185420|Q9H7B4-3|SMYD3;ENSG00000185420|ENST00000490107|SMYD3 ENST00000366516.5_1_1:245912867-246093251:-|nuORF ENST00000366516.5_1_1:245912867-246093251:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 544.802957 1087.59136 3.6516 0.0019894 0.088602 4.8271E-05 3.7402 0.0020377 544.8027965072431 86.812 0.29646 87.487 87.309 87.605 0.67555 0.0066375 1.4034E-05 NaN 53.833 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 664570 17469 5506 11239 11265 0.05106896274514838 LPDKSIASL 9 Unmodified _LPDKSIASL_ 0 0 0 ENSG00000089902|ENST00000262241|RCOR1 ENSG00000089902|ENST00000262241|RCOR1 ENSG00000089902|ENST00000262241|RCOR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.27801513671875 2 472.276575 942.538597 2.7875 0.0013165 -0.35506 -0.00016769 2.4325 0.0011488 472.2762505688285 45.174 0.605 45.174 45.011 45.616 0 64 31 3 0 0 0 0.002702 2 20647 20647;20699 96.936 16.926 1 1617100 17470 1052 11240 11266 19876;19877 19876 0.06502938211713172 LPDKSIASL 9 Unmodified _LPDKSIASL_ 0 0 0 ENSG00000089902|ENST00000262241|RCOR1 ENSG00000089902|ENST00000262241|RCOR1 ENSG00000089902|ENST00000262241|RCOR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.2779541015625 2 472.276575 942.538597 2.7787 0.0013123 -0.00049493 -2.3374E-07 2.7782 0.0013121 472.27637816480575 44.141 0.54895 44.962 44.775 45.324 0.82075 71 30 3 0 0 0 0.001383 2 20104 20104;20156 114.2 14.446 1 1223300 17471 1052 11240 11266 19878;19879 19878 0.06502938211713172 LPDKSIASL 9 Unmodified _LPDKSIASL_ 0 0 0 ENSG00000089902|ENST00000262241|RCOR1 ENSG00000089902|ENST00000262241|RCOR1 ENSG00000089902|ENST00000262241|RCOR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.2776184082031 2 472.276575 942.538597 2.7821 0.0013139 -0.65925 -0.00031135 2.1228 0.0010026 472.2760462579368 45.06 0.55047 45.328 45.037 45.587 0.26768 57 27 3 0 0 0 0.0057865 3 20578 20524;20578;20631 90.135 17.227 1 1741500 17472 1052 11240 11266 19880;19881;19882 19881 0.06502938211713172 LPDKSIASL 9 Unmodified _LPDKSIASL_ 0 0 0 ENSG00000089902|ENST00000262241|RCOR1 ENSG00000089902|ENST00000262241|RCOR1 ENSG00000089902|ENST00000262241|RCOR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.27764892578125 2 472.276575 942.538597 3.1447 0.0014852 -0.74644 -0.00035253 2.3982 0.0011326 472.275934591956 44.409 0.76403 45.059 44.751 45.515 0.64999 61 33 3 0 0 0 0.0027913 2 20356 20306;20356 96.367 9.1593 1 1117300 17473 1052 11240 11266 19883;19884 19884 0.06502938211713172 LPDKTIASL 9 Unmodified _LPDKTIASL_ 0 0 0 nc|ENSG00000117625|Q9P2K3-2|RCOR3;nc|ENSG00000117625|Q9P2K3-4|RCOR3;ENSG00000117625|ENST00000419091|RCOR3;nc|ENSG00000117625|Q9P2K3|RCOR3 nc|ENSG00000117625|Q9P2K3-2|RCOR3 nc|ENSG00000117625|Q9P2K3-2|RCOR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 479.2864074707031 2 479.2844 956.554247 2.871 0.001376 -0.00069346 -3.3237E-07 2.8703 0.0013757 479.28426177489575 46.86 0.27974 46.86 46.704 46.984 0 17 9 2 0 0 0 0.031195 1 21487 21487 59.368 3.8656 1 916420 17474 2086 11241 11267 19885 19885 0.0742322472875685 LPDKTIASL 9 Unmodified _LPDKTIASL_ 0 0 0 nc|ENSG00000117625|Q9P2K3-2|RCOR3;nc|ENSG00000117625|Q9P2K3-4|RCOR3;ENSG00000117625|ENST00000419091|RCOR3;nc|ENSG00000117625|Q9P2K3|RCOR3 nc|ENSG00000117625|Q9P2K3-2|RCOR3 nc|ENSG00000117625|Q9P2K3-2|RCOR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.2848205566406 2 479.2844 956.554247 3.2467 0.0015561 -0.80903 -0.00038775 2.4377 0.0011684 479.2838414663796 46.643 0.25625 46.909 46.785 47.041 0.26561 13 8 2 0 0 0 0.024161 1 21326 21326 76.825 7.7199 1 751130 17475 2086 11241 11267 19886 19886 0.0742322472875685 LPDKTIASL 9 Unmodified _LPDKTIASL_ 0 0 0 nc|ENSG00000117625|Q9P2K3-2|RCOR3;nc|ENSG00000117625|Q9P2K3-4|RCOR3;ENSG00000117625|ENST00000419091|RCOR3;nc|ENSG00000117625|Q9P2K3|RCOR3 nc|ENSG00000117625|Q9P2K3-2|RCOR3 nc|ENSG00000117625|Q9P2K3-2|RCOR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.2868957519531 2 479.2844 956.554247 3.4311 0.0016445 -0.52209 -0.00025023 2.909 0.0013942 479.2840062795644 46.069 0.32764 46.72 46.501 46.829 0.65104 15 9 2 0 0 0 0.099327 1 21143 21143 34.932 17.846 1 677380 17476 2086 11241 11267 19887 19887 0.0742322472875685 LPDKTIASL 9 Unmodified _LPDKTIASL_ 0 0 0 nc|ENSG00000117625|Q9P2K3-2|RCOR3;nc|ENSG00000117625|Q9P2K3-4|RCOR3;ENSG00000117625|ENST00000419091|RCOR3;nc|ENSG00000117625|Q9P2K3|RCOR3 nc|ENSG00000117625|Q9P2K3-2|RCOR3 nc|ENSG00000117625|Q9P2K3-2|RCOR3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 479.2844 956.554247 3.0032 0.0014394 -2.8294 -0.0013561 0.17377 8.3287E-05 479.28308553010316 45.88 0.32669 46.706 46.558 46.884 0.82621 -0.092396 -0.0022861 NaN 76.825 19 16 2 NaN NaN NaN NaN 0 NaN NaN 0 3674900 17477 2086 11241 11267 0.0742322472875685 LPDKTVEFL 9 Unmodified _LPDKTVEFL_ 0 0 0 ENSG00000105127|ENST00000269701|AKAP8;ENST00000598597.6_1_19:15465728-15479935:-|nuORF;ENST00000537303.5_1_19:15472501-15484105:-|nuORF ENSG00000105127|ENST00000269701|AKAP8 ENSG00000105127|ENST00000269701|AKAP8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.8016967773438 2 531.297507 1060.58046 3.1773 0.0016881 0.71278 0.0003787 3.8901 0.0020668 531.2976227906049 59.834 0.28118 60.093 60.021 60.302 0.2593 20 12 2 0 0 0 0.15661 1 27429 27429 26.268 0 1 484760 17478 1470 11242 11268 19888 19888 0.05259493900234702 LPDLEGRTHIF 11 Unmodified _LPDLEGRTHIF_ 0 0 0 ENSG00000161057|ENST00000292644|PSMC2;nc|ENSG00000161057|P35998-2|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 433.23590087890625 3 433.234822 1296.68264 2.8736 0.001245 -0.30493 -0.00013211 2.5687 0.0011129 433.23465169377226 56.408 0.51884 56.408 56.059 56.578 0 127 41 4 0 0 0 3.5832E-05 5 25904 25823;25855;25904;25956;26014 70.321 46.357 1 9875200 17479 4092 11243 11269 19889;19890;19891;19892;19893 19891 0.0461615997185163 LPDLEGRTHIF 11 Unmodified _LPDLEGRTHIF_ 0 0 0 ENSG00000161057|ENST00000292644|PSMC2;nc|ENSG00000161057|P35998-2|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 649.3515625 2 649.348594 1296.68264 3.654 0.0023727 -0.28702 -0.00018638 3.367 0.0021864 649.3484153164094 56.358 0.30412 56.358 56.182 56.486 0 60 25 3 0 0 0 1.9098999999999998E-21 2 25940 25893;25940 150.18 88.575 1 2914900 17480 4092 11243 11269 19894;19895 19895 0.0461615997185163 LPDLEGRTHIF 11 Unmodified _LPDLEGRTHIF_ 0 0 0 ENSG00000161057|ENST00000292644|PSMC2;nc|ENSG00000161057|P35998-2|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 433.23583984375 3 433.234822 1296.68264 2.4403 0.0010572 -0.31868 -0.00013806 2.1217 0.00091918 433.23464849554426 55.46 0.55851 56.247 55.917 56.476 0.78711 131 46 3 0 0 0 1.8773E-09 5 25382 25199;25246;25289;25332;25382 99.864 64.784 1 11033000 17481 4092 11243 11269 19896;19897;19898;19899;19900 19900 0.0461615997185163 LPDLEGRTHIF 11 Unmodified _LPDLEGRTHIF_ 0 0 0 ENSG00000161057|ENST00000292644|PSMC2;nc|ENSG00000161057|P35998-2|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 649.3487548828125 2 649.348594 1296.68264 3.3224 0.0021574 -0.38169 -0.00024785 2.9408 0.0019096 649.3480490890345 55.497 0.36776 56.284 56.094 56.462 0.78711 57 32 2 0 0 0 2.592E-06 2 25334 25275;25334 99.864 61.249 1 3145000 17482 4092 11243 11269 19901;19902 19902 0.0461615997185163 LPDLEGRTHIF 11 Unmodified _LPDLEGRTHIF_ 0 0 0 ENSG00000161057|ENST00000292644|PSMC2;nc|ENSG00000161057|P35998-2|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 433.2361755371094 3 433.234822 1296.68264 2.8309 0.0012265 -0.17376 -7.5278E-05 2.6572 0.0011512 433.2346656970871 56.21 0.43307 56.475 56.227 56.66 0.26543 62 19 5 0 0 0 8.2615E-10 3 25710 25652;25710;25771 106.37 76.011 1 8161800 17483 4092 11243 11269 19903;19904;19905 19904 0.0461615997185163 LPDLEGRTHIF 11 Unmodified _LPDLEGRTHIF_ 0 0 0 ENSG00000161057|ENST00000292644|PSMC2;nc|ENSG00000161057|P35998-2|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 649.3499755859375 2 649.348594 1296.68264 3.7089 0.0024084 -0.15866 -0.00010303 3.5502 0.0023053 649.3484362165427 56.208 0.37157 56.473 56.262 56.633 0.26543 32 15 3 0 0 0 2.0615E-07 2 25677 25677;25738 109.15 70.531 1 2135300 17484 4092 11243 11269 19906;19907 19906 0.0461615997185163 LPDLEGRTHIF 11 Unmodified _LPDLEGRTHIF_ 0 0 0 ENSG00000161057|ENST00000292644|PSMC2;nc|ENSG00000161057|P35998-2|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 433.2360534667969 3 433.234822 1296.68264 3.0741 0.0013318 -0.2519 -0.00010913 2.8222 0.0012227 433.23468788752575 55.457 0.54211 56.125 55.803 56.345 0.66797 67 21 4 0 0 0 0.010286 3 25371 25323;25371;25429 60.943 31.662 1 6149700 17485 4092 11243 11269 19908;19909;19910 19909 0.0461615997185163 LPDLEGRTHIF 11 Unmodified _LPDLEGRTHIF_ 0 0 0 ENSG00000161057|ENST00000292644|PSMC2;nc|ENSG00000161057|P35998-2|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 649.350830078125 2 649.348594 1296.68264 3.953 0.0025669 -0.0077672 -5.0436E-06 3.9453 0.0025618 649.3485362993088 55.48 0.4778 56.148 55.89 56.368 0.66798 44 19 3 0 0 0 3.3776E-33 3 25389 25340;25389;25445 173.14 102.81 1 1971200 17486 4092 11243 11269 19911;19912;19913 19912 0.0461615997185163 LPDLIKEVL 9 Unmodified _LPDLIKEVL_ 0 0 0 nc|ENSG00000198380|Q06210-2|GFPT1;ENSG00000198380|ENST00000357308|GFPT1 nc|ENSG00000198380|Q06210-2|GFPT1 nc|ENSG00000198380|Q06210-2|GFPT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.3253173828125 2 520.323525 1038.6325 2.6803 0.0013946 0.23143 0.00012042 2.9118 0.0015151 520.3236110034812 80.987 0.2309 80.987 80.786 81.017 0 25 15 2 0 0 0 0.0013832 2 40224 40224;40285 114.19 43.854 1 3518000 17487 5886 11244 11270 19914;19915 19914 0.11472657313993295 LPDLIKEVL 9 Unmodified _LPDLIKEVL_ 0 0 0 nc|ENSG00000198380|Q06210-2|GFPT1;ENSG00000198380|ENST00000357308|GFPT1 nc|ENSG00000198380|Q06210-2|GFPT1 nc|ENSG00000198380|Q06210-2|GFPT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.3253784179688 2 520.323525 1038.6325 2.791 0.0014522 -0.15571 -8.1019E-05 2.6353 0.0013712 520.3234774252251 80.073 0.40488 80.393 80.017 80.422 0.31998 42 26 2 0 0 0 0.002702 2 39021 39021;39094 96.936 32.975 1 2716400 17488 5886 11244 11270 19916;19917 19916 0.11472657313993295 LPDLIKEVL 9 Unmodified _LPDLIKEVL_ 0 0 0 nc|ENSG00000198380|Q06210-2|GFPT1;ENSG00000198380|ENST00000357308|GFPT1 nc|ENSG00000198380|Q06210-2|GFPT1 nc|ENSG00000198380|Q06210-2|GFPT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.3245849609375 2 520.323525 1038.6325 3.174 0.0016515 -0.23725 -0.00012344 2.9367 0.001528 520.3232498971379 80.863 0.91368 81.111 80.419 81.332 0.24802 123 56 3 0 0 0 0.002702 6 37100 36988;37041;37100;37155;37206;37258 96.936 31.755 1 1686000 17489 5886 11244 11270 19918;19919;19920;19921;19922;19923 19920 0.11472657313993295 LPDLIKEVL 9 Unmodified _LPDLIKEVL_ 0 0 0 nc|ENSG00000198380|Q06210-2|GFPT1;ENSG00000198380|ENST00000357308|GFPT1 nc|ENSG00000198380|Q06210-2|GFPT1 nc|ENSG00000198380|Q06210-2|GFPT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.3244018554688 2 520.323525 1038.6325 3.4313 0.0017854 -0.24391 -0.00012691 3.1874 0.0016585 520.3231728101238 80.22 0.92702 80.88 80.178 81.105 0.65997 124 59 3 0 0 0 0.0071692 5 36793 36793;36846;36898;36945;37005 87.258 27.252 1 1414300 17490 5886 11244 11270 19924;19925;19926;19927;19928 19924 0.11472657313993295 LPDLTVVGII 10 Unmodified _LPDLTVVGII_ 0 0 0 ENST00000342992.10_3_2:179427622-179427661:-|nuORF ENST00000342992.10_3_2:179427622-179427661:-|nuORF ENST00000342992.10_3_2:179427622-179427661:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.9053955078125 2 520.323525 1038.6325 NaN NaN NaN NaN NaN NaN NaN 79.625 1 79.945 79.445 80.445 0.31998 0 0 0 0.92641 1 38899 38899 17.113 1.8644 1 17491 7087 11245 11271 19929 19929 0.11472657314016033 LPDMEVVGL 9 Unmodified _LPDMEVVGL_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.7579650878906 2 486.757161 971.499769 NaN NaN NaN NaN NaN NaN NaN 81.364 1 81.533 81.033 82.033 0.16862 0 0 0 0.085491 1 39989 39989 44.407 14.182 1 17492 282 11246 11272 19930 19930 0.012878895857056705 LPDMEVVGL 9 Unmodified _LPDMEVVGL_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.7591857910156 2 486.757161 971.499769 2.9644 0.001443 0.42694 0.00020781 3.3914 0.0016508 486.75736360663785 81.835 0.39652 82.083 81.896 82.293 0.24802 60 27 3 0 0 0 0.047285 3 37646 37646;37693;37743 48.346 12.302 1 2233600 17493 282 11246 11272 19931;19932;19933 19931 0.012878895857056705 LPDMEVVGL 9 Unmodified _LPDMEVVGL_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 972.9214477539062 1 972.507045 971.499769 3.4801 0.0033844 -0.0095028 -9.2415E-06 3.4706 0.0033751 972.5069872699405 81.843 0.33498 82.091 81.94 82.275 0.24802 28 23 2 0 0 0 0.032209 1 37672 37672 30.637 5.2372 1 868370 17494 282 11246 11272 19934 19934 0.012878895857056705 LPDMEVVGL 9 Unmodified _LPDMEVVGL_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.75836181640625 2 486.757161 971.499769 3.2935 0.0016031 0.31313 0.00015242 3.6066 0.0017555 486.7573459138664 81.255 0.38586 81.914 81.716 82.102 0.65998 59 25 3 0 0 0 0.047285 3 37438 37388;37438;37500 48.346 18.211 1 1962900 17495 282 11246 11272 19935;19936;19937 19936 0.012878895857056705 LPDMEVVGL 9 Unmodified _LPDMEVVGL_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 972.5111083984375 1 972.507045 971.499769 3.8542 0.0037483 -1.3906 -0.0013523 2.4637 0.0023959 972.5056433785423 81.275 0.3457 81.935 81.697 82.042 0.65997 37 20 2 0 0 0 0.032303 1 37413 37413 54.774 27.89 1 1163700 17496 282 11246 11272 19938 19938 0.012878895857056705 LPDMQMKEPL 10 Unmodified _LPDMQMKEPL_ 0 0 0 ENSG00000051341|ENST00000264233|POLQ;nc|ENSG00000051341|O75417-2|POLQ ENSG00000051341|ENST00000264233|POLQ ENSG00000051341|ENST00000264233|POLQ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 601.2998657226562 2 601.30141 1200.58827 NaN NaN NaN NaN NaN NaN NaN 36.324 1 36.582 36.082 37.082 0.25768 0 0 0 0.99464 1 16546 16546 6.2058 0.47393 1 17497 587 11247 11273 19939 19939 -0.004004381661388834 LPDMVVSHL 9 Oxidation (M) _LPDM(Oxidation (M))VVSHL_ LPDM(1)VVSHL LPDM(92)VVSHL 0 0 1 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;nc|ENSG00000104419|Q92597-3|NDRG1;ENST00000519278.5_1_8:134251123-134266883:-|nuORF ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.76953125 2 513.76806 1025.52157 3.1141 0.0015999 -0.75548 -0.00038814 2.3586 0.0012118 513.7680890030082 47.943 0.49619 47.943 47.773 48.269 0 53 22 3 0 0 0 0.0046538 2 21963 21963;22015 92.491 21.358 1 1130000 17498 1438 11248 11274 19940;19941 19940 13 0.009826943342659433 LPDMVVSHL 9 Oxidation (M) _LPDM(Oxidation (M))VVSHL_ LPDM(1)VVSHL LPDM(92)VVSHL 0 0 1 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;nc|ENSG00000104419|Q92597-3|NDRG1;ENST00000519278.5_1_8:134251123-134266883:-|nuORF ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.7695922851562 2 513.76806 1025.52157 3.238 0.0016636 0.68353 0.00035118 3.9215 0.0020148 513.7684382804104 48.415 0.4324 48.415 48.168 48.6 0 46 27 2 0 0 0 0.0046538 2 22175 22113;22175 92.491 21.358 1 1066800 17499 1438 11248 11274 19942;19943 19943 13 0.009826943342659433 LPDMVVSHL 9 Oxidation (M) _LPDM(Oxidation (M))VVSHL_ LPDM(1)VVSHL LPDM(120)VVSHL 0 0 1 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;nc|ENSG00000104419|Q92597-3|NDRG1;ENST00000519278.5_1_8:134251123-134266883:-|nuORF ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.7701416015625 2 513.76806 1025.52157 3.1243 0.0016052 0.40855 0.0002099 3.5329 0.0018151 513.7684334981369 46.996 0.48201 47.825 47.515 47.997 0.82915 50 24 3 0 0 0 0.0013631 2 21414 21357;21414 115.69 22.87 1 1166000 17500 1438 11248 11274 19944;19945 19945 13 0.009826943342659433 LPDMVVSHL 9 Oxidation (M) _LPDM(Oxidation (M))VVSHL_ LPDM(1)VVSHL LPDM(92)VVSHL 0 0 1 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;nc|ENSG00000104419|Q92597-3|NDRG1;ENST00000519278.5_1_8:134251123-134266883:-|nuORF ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.7694702148438 2 513.76806 1025.52157 3.1525 0.0016197 -0.16276 -8.362E-05 2.9897 0.001536 513.7682482412279 47.373 0.46437 48.202 47.977 48.442 0.82915 55 28 3 0 0 0 0.0046538 3 21608 21562;21608;21651 92.491 27.596 1 804870 17501 1438 11248 11274 19946;19947;19948 19947 13 0.009826943342659433 LPDMVVSHL 9 Oxidation (M) _LPDM(Oxidation (M))VVSHL_ LPDM(1)VVSHL LPDM(110)VVSHL 0 0 1 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;nc|ENSG00000104419|Q92597-3|NDRG1;ENST00000519278.5_1_8:134251123-134266883:-|nuORF ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.7699584960938 2 513.76806 1025.52157 3.6188 0.0018592 -0.31182 -0.0001602 3.307 0.001699 513.7681745498116 47.768 0.37666 48.032 47.888 48.265 0.26363 48 22 3 0 0 0 0.0014219 4 21879 21799;21818;21879;21926 111.29 29.674 1 2069900 17502 1438 11248 11274 19949;19950;19951;19952 19951 13 0.009826943342659433 LPDMVVSHL 9 Oxidation (M) _LPDM(Oxidation (M))VVSHL_ LPDM(1)VVSHL LPDM(120)VVSHL 0 0 1 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;nc|ENSG00000104419|Q92597-3|NDRG1;ENST00000519278.5_1_8:134251123-134266883:-|nuORF ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.7702026367188 2 513.76806 1025.52157 3.5884 0.0018436 0.12892 6.6234E-05 3.7173 0.0019098 513.7683695177195 48.273 0.52502 48.535 48.2 48.725 0.2621 63 28 3 0 0 0 0.0012577 3 22049 21988;22049;22096 123.45 30.628 1 1874100 17503 1438 11248 11274 19953;19954;19955 19954 13 0.009826943342659433 LPDMVVSHL 9 Oxidation (M) _LPDM(Oxidation (M))VVSHL_ LPDM(1)VVSHL LPDM(100)VVSHL 0 0 1 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;nc|ENSG00000104419|Q92597-3|NDRG1;ENST00000519278.5_1_8:134251123-134266883:-|nuORF ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.7700805664062 2 513.76806 1025.52157 3.3669 0.0017298 -0.13666 -7.0212E-05 3.2302 0.0016596 513.7682037196956 47.076 0.51797 47.728 47.57 48.088 0.65219 67 33 3 0 0 0 0.0020408 4 21549 21549;21604;21651;21706 103.75 28.665 1 1545700 17504 1438 11248 11274 19956;19957;19958;19959 19956 13 0.009826943342659433 LPDMVVSHL 9 Oxidation (M) _LPDM(Oxidation (M))VVSHL_ LPDM(1)VVSHL LPDM(110)VVSHL 0 0 1 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;nc|ENSG00000104419|Q92597-3|NDRG1;ENST00000519278.5_1_8:134251123-134266883:-|nuORF ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.7705078125 2 513.76806 1025.52157 3.4322 0.0017633 -0.0095834 -4.9237E-06 3.4226 0.0017584 513.7685862668544 47.651 0.52077 48.305 47.988 48.508 0.65356 66 22 4 0 0 0 0.0014219 3 21763 21763;21819;21869 111.29 29.674 1 1575600 17505 1438 11248 11274 19960;19961;19962 19960 13 0.009826943342659433 LPDMVVSHL 9 Unmodified _LPDMVVSHL_ 0 0 0 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;nc|ENSG00000104419|Q92597-3|NDRG1;ENST00000519278.5_1_8:134251123-134266883:-|nuORF ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.77166748046875 2 505.770603 1009.52665 2.7801 0.0014061 -0.01314 -6.646E-06 2.767 0.0013995 505.77073667956563 61.374 0.56369 61.374 61.013 61.577 0 150 59 3 0 0 0 1.2253E-06 4 28622 28459;28505;28571;28622 149.99 67.404 1 12217000 17506 1438 11248 11275 19963;19964;19965;19966 19966 0.02226998196886143 LPDMVVSHL 9 Unmodified _LPDMVVSHL_ 0 0 0 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;nc|ENSG00000104419|Q92597-3|NDRG1;ENST00000519278.5_1_8:134251123-134266883:-|nuORF ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.7727966308594 2 505.770603 1009.52665 2.7192 0.0013753 -0.46095 -0.00023314 2.2583 0.0011422 505.7705724788397 60.463 0.36344 61.203 60.985 61.348 0.7396 99 45 3 0 0 0 0.0028306 3 27876 27815;27876;27948 96.285 32.048 1 12690000 17507 1438 11248 11275 19967;19968;19969 19968 0.02226998196886143 LPDMVVSHL 9 Unmodified _LPDMVVSHL_ 0 0 0 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;nc|ENSG00000104419|Q92597-3|NDRG1;ENST00000519278.5_1_8:134251123-134266883:-|nuORF ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.77227783203125 2 505.770603 1009.52665 3.2445 0.0016409 -0.36058 -0.00018237 2.8839 0.0014586 505.77057115357445 61.361 0.76877 61.613 61.022 61.79 0.25245 123 35 5 0 0 0 1.2253E-06 6 28045 27890;27939;27992;28045;28091;28145 149.99 64.638 1 14432000 17508 1438 11248 11275 19970;19971;19972;19973;19974;19975 19973 0.02226998196886143 LPDMVVSHL 9 Unmodified _LPDMVVSHL_ 0 0 0 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;nc|ENSG00000104419|Q92597-3|NDRG1;ENST00000519278.5_1_8:134251123-134266883:-|nuORF ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.7719421386719 2 505.770603 1009.52665 3.2565 0.001647 -0.54692 -0.00027662 2.7095 0.0013704 505.7704406705122 60.731 0.75443 61.394 60.872 61.626 0.66261 118 36 4 0 0 0 8.6202E-14 5 27683 27631;27683;27742;27795;27852 164.52 79.158 1 15096000 17509 1438 11248 11275 19976;19977;19978;19979;19980 19977 0.02226998196886143 LPDNDLTTL 9 Unmodified _LPDNDLTTL_ 0 0 0 nc|ENSG00000112851|Q96RT1-7|ERBIN;nc|ENSG00000112851|Q96RT1-6|ERBIN;nc|ENSG00000112851|Q96RT1-4|ERBIN;nc|ENSG00000112851|Q96RT1-5|ERBIN;nc|ENSG00000112851|Q96RT1-3|ERBIN;nc|ENSG00000112851|Q96RT1-9|ERBIN;nc|ENSG00000112851|Q96RT1-2|ERBIN;ENSG00000112851|ENST00000284037|ERBIN;nc|ENSG00000112851|Q96RT1-8|ERBIN nc|ENSG00000112851|Q96RT1-7|ERBIN nc|ENSG00000112851|Q96RT1-7|ERBIN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.2626647949219 2 501.261122 1000.50769 3.2273 0.0016177 0.14146 7.0906E-05 3.3687 0.0016886 501.26108416932686 61.635 0.44383 61.887 61.658 62.102 0.25245 52 21 3 0 0 0 0.0029142 4 28258 28155;28209;28258;28304 96.111 27.006 1 3239900 17510 1823 11249 11276 19981;19982;19983;19984 19983 0.007457401068108993 LPDNDLTTL 9 Unmodified _LPDNDLTTL_ 0 0 0 nc|ENSG00000112851|Q96RT1-7|ERBIN;nc|ENSG00000112851|Q96RT1-6|ERBIN;nc|ENSG00000112851|Q96RT1-4|ERBIN;nc|ENSG00000112851|Q96RT1-5|ERBIN;nc|ENSG00000112851|Q96RT1-3|ERBIN;nc|ENSG00000112851|Q96RT1-9|ERBIN;nc|ENSG00000112851|Q96RT1-2|ERBIN;ENSG00000112851|ENST00000284037|ERBIN;nc|ENSG00000112851|Q96RT1-8|ERBIN nc|ENSG00000112851|Q96RT1-7|ERBIN nc|ENSG00000112851|Q96RT1-7|ERBIN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1001.51806640625 1 1001.51497 1000.50769 3.5181 0.0035234 -0.73015 -0.00073125 2.788 0.0027922 1002.5169384859363 61.594 0.30819 61.846 61.718 62.026 0.25245 18 13 2 0 0 0 0.014491 2 28228 28175;28228 75.761 31.988 1 810590 17511 1823 11249 11276 19985;19986 19986 0.007457401068108993 LPDNDLTTL 9 Unmodified _LPDNDLTTL_ 0 0 0 nc|ENSG00000112851|Q96RT1-7|ERBIN;nc|ENSG00000112851|Q96RT1-6|ERBIN;nc|ENSG00000112851|Q96RT1-4|ERBIN;nc|ENSG00000112851|Q96RT1-5|ERBIN;nc|ENSG00000112851|Q96RT1-3|ERBIN;nc|ENSG00000112851|Q96RT1-9|ERBIN;nc|ENSG00000112851|Q96RT1-2|ERBIN;ENSG00000112851|ENST00000284037|ERBIN;nc|ENSG00000112851|Q96RT1-8|ERBIN nc|ENSG00000112851|Q96RT1-7|ERBIN nc|ENSG00000112851|Q96RT1-7|ERBIN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.2626037597656 2 501.261122 1000.50769 3.188 0.001598 0.18249 9.1473E-05 3.3705 0.0016895 501.26114714772166 61.036 0.44638 61.699 61.477 61.923 0.66261 45 18 3 0 0 0 0.012326 2 27923 27923;27981 78.728 24.895 1 2787100 17512 1823 11249 11276 19987;19988 19987 0.007457401068108993 LPDNDLTTL 9 Unmodified _LPDNDLTTL_ 0 0 0 nc|ENSG00000112851|Q96RT1-7|ERBIN;nc|ENSG00000112851|Q96RT1-6|ERBIN;nc|ENSG00000112851|Q96RT1-4|ERBIN;nc|ENSG00000112851|Q96RT1-5|ERBIN;nc|ENSG00000112851|Q96RT1-3|ERBIN;nc|ENSG00000112851|Q96RT1-9|ERBIN;nc|ENSG00000112851|Q96RT1-2|ERBIN;ENSG00000112851|ENST00000284037|ERBIN;nc|ENSG00000112851|Q96RT1-8|ERBIN nc|ENSG00000112851|Q96RT1-7|ERBIN nc|ENSG00000112851|Q96RT1-7|ERBIN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1001.5193481445312 1 1001.51497 1000.50769 3.6159 0.0036214 -0.69894 -0.0007 2.9169 0.0029214 1001.5144551991757 61.229 0.43682 61.892 61.504 61.941 0.66261 28 18 2 0 0 0 0.0020791 2 27932 27932;28021 103.35 49.521 1 1638400 17513 1823 11249 11276 19989;19990 19989 0.007457401068108993 LPDNDLTTL 9 Unmodified _LPDNDLTTL_ 0 0 0 nc|ENSG00000112851|Q96RT1-7|ERBIN;nc|ENSG00000112851|Q96RT1-6|ERBIN;nc|ENSG00000112851|Q96RT1-4|ERBIN;nc|ENSG00000112851|Q96RT1-5|ERBIN;nc|ENSG00000112851|Q96RT1-3|ERBIN;nc|ENSG00000112851|Q96RT1-9|ERBIN;nc|ENSG00000112851|Q96RT1-2|ERBIN;ENSG00000112851|ENST00000284037|ERBIN;nc|ENSG00000112851|Q96RT1-8|ERBIN nc|ENSG00000112851|Q96RT1-7|ERBIN nc|ENSG00000112851|Q96RT1-7|ERBIN MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 501.261122 1000.50769 2.6484 0.0013275 -0.99989 -0.00050121 1.6485 0.00082633 501.2606711775226 60.99 0.33394 61.73 61.571 61.905 0.7396 -0.042079 -0.0010061 NaN 96.111 57 42 2 NaN NaN NaN NaN 0 NaN NaN 0 4548700 17514 1823 11249 11276 0.007457401068108993 LPDNISSVL 9 Unmodified _LPDNISSVL_ 0 0 0 ENST00000494536.5_1_2:64083453-64109797:+|nuORF;ENST00000466642.5_2_2:64084828-64111237:+|nuORF;ENST00000475550.5_1_2:64069329-64114799:+|nuORF;nc|ENSG00000169764|Q16851-2|UGP2;ENSG00000169764|ENST00000337130|UGP2 ENST00000494536.5_1_2:64083453-64109797:+|nuORF ENST00000494536.5_1_2:64083453-64109797:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 957.5294189453125 1 957.525138 956.517862 3.4222 0.0032768 0.0057448 5.5008E-06 3.4279 0.0032823 957.5247295597343 72.537 0.25132 72.796 72.666 72.917 0.25876 27 20 2 0 0 0 0.024388 1 33340 33340 62.573 18.714 1 404890 17515 4710 11250 11277 19991 19991 0.03786347832055981 LPDNVHYVF 9 Unmodified _LPDNVHYVF_ 0 0 0 ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.283447265625 2 552.279649 1102.54475 3.5473 0.0019591 0.17263 9.5338E-05 3.72 0.0020545 552.279496986625 58.779 0.21297 59.041 59.003 59.216 0.26227 21 12 2 0 0 0 0.093314 2 26972 26921;26972 34.402 20.254 1 555880 17516 524 11251 11278 19992;19993 19993 -0.0024254355676021078 LPDPEDRSF 9 Unmodified _LPDPEDRSF_ 0 0 0 ENST00000362000.9_1_7:65540928-65547388:+|nuORF ENST00000362000.9_1_7:65540928-65547388:+|nuORF ENST00000362000.9_1_7:65540928-65547388:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.2566528320312 2 538.256371 1074.49819 3.1572 0.0016994 -0.33 -0.00017763 2.8272 0.0015218 538.255946052608 40.953 0.33925 40.953 40.785 41.124 0 35 23 2 0 0 0 0.1229 1 18619 18619 28.495 10.348 1 1024600 17517 7234 11252 11279 19994 19994 -0.03608028178700806 LPDPEDRSF 9 Unmodified _LPDPEDRSF_ 0 0 0 ENST00000362000.9_1_7:65540928-65547388:+|nuORF ENST00000362000.9_1_7:65540928-65547388:+|nuORF ENST00000362000.9_1_7:65540928-65547388:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.2576293945312 2 538.256371 1074.49819 NaN NaN NaN NaN NaN NaN NaN 40.142 1 40.942 40.442 41.442 0.80014 0 0 0 0.26309 1 18176 18176 28.495 11.552 1 17518 7234 11252 11279 19995 19995 -0.03608028178700806 LPDPEDRSF 9 Unmodified _LPDPEDRSF_ 0 0 0 ENST00000362000.9_1_7:65540928-65547388:+|nuORF ENST00000362000.9_1_7:65540928-65547388:+|nuORF ENST00000362000.9_1_7:65540928-65547388:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.2591552734375 2 538.256371 1074.49819 NaN NaN NaN NaN NaN NaN NaN 40.401 1 41.042 40.542 41.542 0.64136 0 0 0 0.26309 1 18467 18467 28.495 6.9575 1 17519 7234 11252 11279 19996 19996 -0.03608028178700806 LPDPFTPNL 9 Unmodified _LPDPFTPNL_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.26971435546875 2 507.26875 1012.52295 2.4573 0.0012465 0.10562 5.3576E-05 2.5629 0.0013001 507.26876752110013 79.909 0.31703 80.229 80.032 80.349 0.31998 39 20 2 0 0 0 0.02234 2 39065 39002;39065 65.235 25.23 1 2867200 17520 196 11253 11280 19997;19998 19998 0.01718651694648088 LPDPFTPNL 9 Unmodified _LPDPFTPNL_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.27001953125 2 507.26875 1012.52295 3.0244 0.0015342 -0.19552 -9.9182E-05 2.8289 0.001435 507.26842423901815 80.404 0.40794 80.654 80.402 80.81 0.24947 61 23 3 0 0 0 0.0081238 3 37000 36954;37000;37057 85.272 34.291 1 2824100 17521 196 11253 11280 19999;20000;20001 20000 0.01718651694648088 LPDPFTPNL 9 Unmodified _LPDPFTPNL_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1013.532470703125 1 1013.53022 1012.52295 3.2245 0.0032681 -0.34121 -0.00034583 2.8832 0.0029223 1013.5306332559476 80.365 0.27364 80.615 80.492 80.765 0.24947 22 16 2 0 0 0 0.023321 2 37026 36982;37026 63.961 27.833 1 434810 17522 196 11253 11280 20002;20003 20003 0.01718651694648088 LPDPFTPNL 9 Unmodified _LPDPFTPNL_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.27044677734375 2 507.26875 1012.52295 3.3394 0.001694 0.42569 0.00021594 3.7651 0.0019099 507.2687958093881 79.846 0.41301 80.507 80.306 80.719 0.66082 64 23 4 0 0 0 0.0081238 3 36804 36762;36804;36857 85.272 26.593 1 2861500 17523 196 11253 11280 20004;20005;20006 20005 0.01718651694648088 LPDPFTPNL 9 Unmodified _LPDPFTPNL_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1013.5303955078125 1 1013.53022 1012.52295 3.6788 0.0037285 -0.70973 -0.00071933 2.969 0.0030092 1013.5295224961267 79.828 0.27222 80.489 80.38 80.653 0.66082 24 14 2 0 0 0 0.0095519 2 36788 36788;36838 82.529 27.756 1 623080 17524 196 11253 11280 20007;20008 20007 0.01718651694648088 LPDPGAHPIL 10 Unmodified _LPDPGAHPIL_ 0 0 0 ENST00000553932.5_1_14:39307256-39307550:-|nuORF ENST00000553932.5_1_14:39307256-39307550:-|nuORF ENST00000553932.5_1_14:39307256-39307550:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.2913208007812 2 515.290017 1028.56548 NaN NaN NaN NaN NaN NaN NaN 54.825 1 55.62 55.12 56.12 0.79552 0 0 0 0.040872 1 25021 25021 64.236 9.4628 1 17525 8900 11254 11281 20009 20009 0.05234046822897653 LPDPGAHPIL 10 Unmodified _LPDPGAHPIL_ 0 0 0 ENST00000553932.5_1_14:39307256-39307550:-|nuORF ENST00000553932.5_1_14:39307256-39307550:-|nuORF ENST00000553932.5_1_14:39307256-39307550:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.2908935546875 2 515.290017 1028.56548 3.2745 0.0016873 -0.52245 -0.00026921 2.752 0.0014181 515.2896486931728 55.608 0.33741 55.874 55.704 56.041 0.26543 37 20 2 0 0 0 0.042035 1 25455 25455 64.236 9.4628 1 1852400 17526 8900 11254 11281 20010 20010 0.05234046822897653 LPDPGAHPIL 10 Unmodified _LPDPGAHPIL_ 0 0 0 ENST00000553932.5_1_14:39307256-39307550:-|nuORF ENST00000553932.5_1_14:39307256-39307550:-|nuORF ENST00000553932.5_1_14:39307256-39307550:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.2921142578125 2 515.290017 1028.56548 3.3774 0.0017403 0.04339 2.2359E-05 3.4208 0.0017627 515.2899266889134 54.834 0.31483 55.501 55.381 55.696 0.6665 37 16 3 0 0 0 0.042035 2 25084 25084;25139 64.236 9.4628 1 1340800 17527 8900 11254 11281 20011;20012 20011 0.05234046822897653 LPDPGAHPIL 10 Unmodified _LPDPGAHPIL_ 0 0 0 ENST00000553932.5_1_14:39307256-39307550:-|nuORF ENST00000553932.5_1_14:39307256-39307550:-|nuORF ENST00000553932.5_1_14:39307256-39307550:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 515.290017 1028.56548 3.0761 0.0015851 0.64639 0.00033308 3.7224 0.0019181 515.2900811183439 55.819 0.21814 55.819 55.758 55.977 0 0.088111 0.00079028 NaN 64.236 28 16 2 NaN NaN NaN NaN 0 NaN NaN 0 1403700 17528 8900 11254 11281 0.05234046822897653 LPDPGFQKI 9 Unmodified _LPDPGFQKI_ 0 0 0 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.78662109375 2 507.784567 1013.55458 3.3568 0.0017045 -0.39756 -0.00020188 2.9592 0.0015026 507.7844661654278 50.961 0.30527 50.961 50.767 51.072 0 22 13 2 0 0 0 0.013715 1 23344 23344 76.825 31.125 1 848780 17529 635 11255 11282 20013 20013 0.04834644448601466 LPDPGFQKI 9 Unmodified _LPDPGFQKI_ 0 0 0 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.7855529785156 2 507.784567 1013.55458 3.2043 0.0016271 0.022698 1.1526E-05 3.227 0.0016386 507.78427834871616 50.103 0.35631 50.925 50.727 51.083 0.82285 31 15 3 0 0 0 0.016529 2 22815 22815;22867 72.968 31.128 1 600020 17530 635 11255 11282 20014;20015 20014 0.04834644448601466 LPDPGFQKI 9 Unmodified _LPDPGFQKI_ 0 0 0 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.7860412597656 2 507.784567 1013.55458 3.1711 0.0016102 0.12369 6.2807E-05 3.2947 0.001673 507.78462220024613 50.842 0.46433 51.104 50.815 51.279 0.26146 54 21 3 0 0 0 0.0027913 3 23216 23164;23216;23262 96.367 37.521 1 1770400 17531 635 11255 11282 20016;20017;20018 20017 0.04834644448601466 LPDPGFQKI 9 Unmodified _LPDPGFQKI_ 0 0 0 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.78619384765625 2 507.784567 1013.55458 3.2507 0.0016507 0.014602 7.4149E-06 3.2653 0.0016581 507.78461974740816 50.12 0.49208 50.777 50.507 50.999 0.65735 47 18 3 0 0 0 0.00068611 3 22910 22853;22910;22964 129.77 67.2 1 1565200 17532 635 11255 11282 20019;20020;20021 20020 0.04834644448601466 LPDPGFQKITL 11 Unmodified _LPDPGFQKITL_ 0 0 0 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 614.8529663085938 2 614.850438 1227.68632 3.8119 0.0023437 0.1967 0.00012094 4.0086 0.0024647 614.8507552290312 67.556 0.26106 67.806 67.65 67.911 0.2501 28 12 3 0 0 0 1.5283E-09 1 30931 30931 112.95 67.206 1 1459200 17533 635 11256 11283 20022 20022 0.08158829745707408 LPDPGFQKITL 11 Unmodified _LPDPGFQKITL_ 0 0 0 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 614.8523559570312 2 614.850438 1227.68632 3.5756 0.0021985 -0.034352 -2.1121E-05 3.5413 0.0021774 614.8503062294461 66.961 0.28693 67.618 67.45 67.737 0.65746 37 15 3 0 0 0 0.00094128 2 30678 30678;30726 80.24 48.202 1 941850 17534 635 11256 11283 20023;20024 20023 0.08158829745707408 LPDPIIIHL 9 Unmodified _LPDPIIIHL_ 0 0 0 ENSG00000132549|ENST00000357162|VPS13B;nc|ENSG00000132549|Q7Z7G8-6|VPS13B;nc|ENSG00000132549|Q7Z7G8|VPS13B ENSG00000132549|ENST00000357162|VPS13B ENSG00000132549|ENST00000357162|VPS13B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.81982421875 2 515.81841 1029.62227 2.6618 0.001373 -0.068283 -3.5221E-05 2.5936 0.0013378 515.8182787725167 79.99 0.30952 80.31 80.112 80.422 0.31998 32 18 2 0 0 0 0.0019388 2 39101 39042;39101 104.8 60.392 1 2114400 17535 2710 11257 11284 20025;20026 20026 0.10864094379417111 LPDPIIIHL 9 Unmodified _LPDPIIIHL_ 0 0 0 ENSG00000132549|ENST00000357162|VPS13B;nc|ENSG00000132549|Q7Z7G8-6|VPS13B;nc|ENSG00000132549|Q7Z7G8|VPS13B ENSG00000132549|ENST00000357162|VPS13B ENSG00000132549|ENST00000357162|VPS13B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.8200073242188 2 515.81841 1029.62227 3.2122 0.0016569 -0.19585 -0.00010102 3.0163 0.0015559 515.81814952274 80.516 0.34689 80.765 80.572 80.919 0.24947 52 20 3 0 0 0 0.0019388 2 37086 37040;37086 104.8 55.132 1 2851300 17536 2710 11257 11284 20027;20028 20028 0.10864094379417111 LPDPIIIHL 9 Unmodified _LPDPIIIHL_ 0 0 0 ENSG00000132549|ENST00000357162|VPS13B;nc|ENSG00000132549|Q7Z7G8-6|VPS13B;nc|ENSG00000132549|Q7Z7G8|VPS13B ENSG00000132549|ENST00000357162|VPS13B ENSG00000132549|ENST00000357162|VPS13B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.8203125 2 515.81841 1029.62227 3.4864 0.0017984 0.19833 0.0001023 3.6848 0.0019007 515.8183960560386 79.912 0.33492 80.573 80.408 80.743 0.66082 55 20 4 0 0 0 0.0013377 3 36844 36792;36844;36893 117.6 58.923 1 2201400 17537 2710 11257 11284 20029;20030;20031 20030 0.10864094379417111 LPDPQNISL 9 Unmodified _LPDPQNISL_ 0 0 0 ENST00000423257.1_1_17:17360441-17360570:+|nuORF;ENST00000485209.5_1_1:184027321-184041978:+|nuORF;ENSG00000198860|ENST00000645668|TSEN15 ENST00000423257.1_1_17:17360441-17360570:+|nuORF ENST00000423257.1_1_17:17360441-17360570:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.7731018066406 2 498.771657 995.528761 2.4222 0.0012081 -0.13779 -6.8727E-05 2.2844 0.0011394 498.7716385787336 65.547 0.39424 66.256 66.153 66.548 0.7089 55 42 2 0 0 0 0.078225 1 31076 31076 38.176 9.6887 1 1164800 17538 5951 11258 11285 20032 20032 0.030817502063428037 LPDPQNISL 9 Unmodified _LPDPQNISL_ 0 0 0 ENST00000423257.1_1_17:17360441-17360570:+|nuORF;ENST00000485209.5_1_1:184027321-184041978:+|nuORF;ENSG00000198860|ENST00000645668|TSEN15 ENST00000423257.1_1_17:17360441-17360570:+|nuORF ENST00000423257.1_1_17:17360441-17360570:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.77313232421875 2 498.771657 995.528761 3.3837 0.0016877 -0.19444 -9.6981E-05 3.1893 0.0015907 498.7715810129372 66.2 0.55396 66.449 66.147 66.701 0.24848 72 30 3 0 0 0 0.0046538 4 30351 30248;30294;30351;30407 92.491 27.256 1 1939000 17539 5951 11258 11285 20033;20034;20035;20036 20035 0.030817502063428037 LPDPQNISL 9 Unmodified _LPDPQNISL_ 0 0 0 ENST00000423257.1_1_17:17360441-17360570:+|nuORF;ENST00000485209.5_1_1:184027321-184041978:+|nuORF;ENSG00000198860|ENST00000645668|TSEN15 ENST00000423257.1_1_17:17360441-17360570:+|nuORF ENST00000423257.1_1_17:17360441-17360570:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.7729797363281 2 498.771657 995.528761 3.3258 0.0016588 -0.082448 -4.1123E-05 3.2433 0.0016177 498.7715317080232 65.616 0.53165 66.273 65.962 66.494 0.65672 65 28 3 0 0 0 0.017293 4 30096 30002;30048;30096;30141 71.922 18.203 1 1953700 17540 5951 11258 11285 20037;20038;20039;20040 20039 0.030817502063428037 LPDPRELIEI 10 Unmodified _LPDPRELIEI_ 0 0 0 nc|ENSG00000107862|Q92538-3|GBF1;nc|ENSG00000107862|Q92538-2|GBF1;nc|ENSG00000107862|Q92538-1|GBF1;ENSG00000107862|ENST00000369983|GBF1 nc|ENSG00000107862|Q92538-3|GBF1 nc|ENSG00000107862|Q92538-3|GBF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.8418579101562 2 597.840071 1193.66559 3.6546 0.0021849 0.4651 0.00027806 4.1197 0.0024629 597.8402013607156 82.72 0.49115 82.967 82.643 83.134 0.24722 36 23 2 0 0 0 0.18812 1 38065 38065 40.725 12.23 1 680190 17541 1611 11259 11286 20041 20041 0.07650239366034839 LPDPRELIEI 10 Unmodified _LPDPRELIEI_ 0 0 0 nc|ENSG00000107862|Q92538-3|GBF1;nc|ENSG00000107862|Q92538-2|GBF1;nc|ENSG00000107862|Q92538-1|GBF1;ENSG00000107862|ENST00000369983|GBF1 nc|ENSG00000107862|Q92538-3|GBF1 nc|ENSG00000107862|Q92538-3|GBF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.8425903320312 2 597.840071 1193.66559 4.1483 0.00248 0.21581 0.00012902 4.3642 0.0026091 597.8401158216626 82.089 0.65846 82.749 82.436 83.094 0.65998 60 37 2 0 0 0 0.10862 3 37848 37796;37848;37922 51.488 22.993 1 797990 17542 1611 11259 11286 20042;20043;20044 20043 0.07650239366034839 LPDQDEMDL 9 Unmodified _LPDQDEMDL_ 0 0 0 ENSG00000266412|ENST00000581486|NCOA4;nc|ENSG00000266412|Q13772-3|NCOA4;nc|ENSG00000266412|Q13772-4|NCOA4 ENSG00000266412|ENST00000581486|NCOA4 ENSG00000266412|ENST00000581486|NCOA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.2362670898438 2 538.234247 1074.45394 NaN NaN NaN NaN NaN NaN NaN 56.112 1 56.78 56.28 57.28 0.66829 0 0 0 0.19548 1 25669 25669 31.268 8.1199 1 17543 6324 11260 11287 20045 20045 -0.0803080038722328 LPDQPPYHL 9 Unmodified _LPDQPPYHL_ 0 0 0 ENSG00000156587|ENST00000287156|UBE2L6 ENSG00000156587|ENST00000287156|UBE2L6 ENSG00000156587|ENST00000287156|UBE2L6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.28173828125 2 540.279649 1078.54475 3.1239 0.0016878 0.2309 0.00012475 3.3548 0.0018125 540.2798243889 50.76 0.76929 51.021 50.464 51.234 0.26146 71 36 3 0 0 0 0.0020791 3 23204 23098;23159;23204 103.35 48.58 1 1417700 17544 3918 11261 11288 20046;20047;20048 20048 0.00861456443226416 LPDQPPYHL 9 Unmodified _LPDQPPYHL_ 0 0 0 ENSG00000156587|ENST00000287156|UBE2L6 ENSG00000156587|ENST00000287156|UBE2L6 ENSG00000156587|ENST00000287156|UBE2L6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.28173828125 2 540.279649 1078.54475 3.3234 0.0017955 -0.014777 -7.9838E-06 3.3086 0.0017876 540.2796817936106 50.113 0.524 50.77 50.419 50.943 0.65735 52 21 3 0 0 0 0.0063542 3 22873 22819;22873;22934 88.954 42.933 1 1307600 17545 3918 11261 11288 20049;20050;20051 20050 0.00861456443226416 LPDQTFTAL 9 Unmodified _LPDQTFTAL_ 0 0 0 ENSG00000112379|ENST00000251691|ARFGEF3 ENSG00000112379|ENST00000251691|ARFGEF3 ENSG00000112379|ENST00000251691|ARFGEF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.2685852050781 2 503.266207 1004.51786 3.4574 0.00174 0.13619 6.854E-05 3.5936 0.0018086 503.2662333166167 67.552 0.32117 67.802 67.65 67.971 0.2501 33 16 3 0 0 0 0.048676 1 30940 30940 47.749 7.7914 1 1030500 17546 1808 11262 11289 20052 20052 0.01578347832048621 LPDQTFTAL 9 Unmodified _LPDQTFTAL_ 0 0 0 ENSG00000112379|ENST00000251691|ARFGEF3 ENSG00000112379|ENST00000251691|ARFGEF3 ENSG00000112379|ENST00000251691|ARFGEF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.2691650390625 2 503.266207 1004.51786 3.253 0.0016371 0.29446 0.00014819 3.5474 0.0017853 503.26636705128897 66.985 0.34273 67.643 67.475 67.818 0.65777 35 18 2 0 0 0 0.034495 1 30681 30681 53.833 3.8998 1 1003600 17547 1808 11262 11289 20053 20053 0.01578347832048621 LPDQTFTAL 9 Unmodified _LPDQTFTAL_ 0 0 0 ENSG00000112379|ENST00000251691|ARFGEF3 ENSG00000112379|ENST00000251691|ARFGEF3 ENSG00000112379|ENST00000251691|ARFGEF3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 503.266207 1004.51786 2.4698 0.001243 2.3783 0.0011969 4.8481 0.0024399 503.2676584641652 67.892 0.032654 67.892 67.864 67.897 0 0.11321 0.0020671 NaN 53.833 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 2096300 17548 1808 11262 11289 0.01578347832048621 LPDQTLPIL 9 Unmodified _LPDQTLPIL_ 0 0 0 nc|ENSG00000134644|Q14671-4|PUM1;nc|ENSG00000134644|Q14671-2|PUM1;nc|ENSG00000134644|Q14671|PUM1;ENSG00000134644|ENST00000426105|PUM1 nc|ENSG00000134644|Q14671-4|PUM1 nc|ENSG00000134644|Q14671-4|PUM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.30084228515625 2 505.30005 1008.58555 3.1327 0.0015829 0.20268 0.00010241 3.3354 0.0016854 505.30014494518423 82.747 0.28947 82.994 82.823 83.113 0.24722 23 14 2 0 0 0 0.038142 2 38064 38064;38124 52.268 12.311 1 490120 17549 2820 11263 11290 20054;20055 20054 0.08159797762868948 LPDQTLPIL 9 Unmodified _LPDQTLPIL_ 0 0 0 nc|ENSG00000134644|Q14671-4|PUM1;nc|ENSG00000134644|Q14671-2|PUM1;nc|ENSG00000134644|Q14671|PUM1;ENSG00000134644|ENST00000426105|PUM1 nc|ENSG00000134644|Q14671-4|PUM1 nc|ENSG00000134644|Q14671-4|PUM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.30133056640625 2 505.30005 1008.58555 3.3793 0.0017075 0.32312 0.00016327 3.7024 0.0018708 505.29916446541273 82.138 0.36774 82.798 82.646 83.014 0.65998 42 19 3 0 0 0 0.015098 2 37860 37860;37869 74.929 16.22 1 632220 17550 2820 11263 11290 20056;20057 20056 0.08159797762868948 LPDRDLAL 8 Unmodified _LPDRDLAL_ 0 0 0 ENST00000596119.5_1_19:4175573-4175816:-|nuORF;ENST00000596298.5_1_19:4175573-4182530:-|nuORF;ENSG00000077463|ENST00000337491|SIRT6 ENST00000596119.5_1_19:4175573-4175816:-|nuORF ENST00000596119.5_1_19:4175573-4175816:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.76214599609375 2 456.761092 911.507631 2.604 0.0011894 -0.20871 -9.5333E-05 2.3953 0.0010941 456.76111221086325 47.661 0.70651 47.661 47.461 48.168 0 76 44 2 0 0 0 0.029216 4 21813 21769;21813;21860;21910 78.728 23.947 1 5370200 17551 865 11264 11291 20058;20059;20060;20061 20059 0.04833784897471105 LPDRDLAL 8 Unmodified _LPDRDLAL_ 0 0 0 ENST00000596119.5_1_19:4175573-4175816:-|nuORF;ENST00000596298.5_1_19:4175573-4182530:-|nuORF;ENSG00000077463|ENST00000337491|SIRT6 ENST00000596119.5_1_19:4175573-4175816:-|nuORF ENST00000596119.5_1_19:4175573-4175816:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.7625732421875 2 456.761092 911.507631 2.6655 0.0012175 -0.057165 -2.6111E-05 2.6083 0.0011914 456.7610170181891 46.573 0.60172 47.402 47.24 47.842 0.82915 94 39 3 0 0 0 0.03983 4 21236 21190;21236;21289;21350 69.105 20.759 1 8938300 17552 865 11264 11291 20062;20063;20064;20065 20063 0.04833784897471105 LPDRDLAL 8 Unmodified _LPDRDLAL_ 0 0 0 ENST00000596119.5_1_19:4175573-4175816:-|nuORF;ENST00000596298.5_1_19:4175573-4182530:-|nuORF;ENSG00000077463|ENST00000337491|SIRT6 ENST00000596119.5_1_19:4175573-4175816:-|nuORF ENST00000596119.5_1_19:4175573-4175816:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.7624206542969 2 456.761092 911.507631 2.9784 0.0013604 0.10406 4.7531E-05 3.0824 0.0014079 456.76115762995664 47.598 0.79933 47.862 47.466 48.265 0.26363 67 45 2 0 0 0 0.11952 5 21737 21681;21737;21784;21838;21896 51.63 19.324 1 4068500 17553 865 11264 11291 20066;20067;20068;20069;20070 20067 0.04833784897471105 LPDRDLAL 8 Unmodified _LPDRDLAL_ 0 0 0 ENST00000596119.5_1_19:4175573-4175816:-|nuORF;ENST00000596298.5_1_19:4175573-4182530:-|nuORF;ENSG00000077463|ENST00000337491|SIRT6 ENST00000596119.5_1_19:4175573-4175816:-|nuORF ENST00000596119.5_1_19:4175573-4175816:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.76251220703125 2 456.761092 911.507631 2.9404 0.0013431 -0.29727 -0.00013578 2.6432 0.0012073 456.7609812604135 46.967 0.72743 47.619 47.287 48.015 0.65219 70 39 2 0 0 0 0.066709 4 21481 21423;21481;21522;21567 60.074 20.117 1 3803900 17554 865 11264 11291 20071;20072;20073;20074 20072 0.04833784897471105 LPDRRGPPWQK 11 Unmodified _LPDRRGPPWQK_ 0 0 0 REV__ENST00000223641.4_1_9:101984625-101992644:+|nuORF REV__ENST00000223641.4_1_9:101984625-101992644:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 675.3768920898438 2 675.375478 1348.7364 NaN NaN NaN NaN NaN NaN NaN 75.726 1 76.39 75.89 76.89 0.6635 0 0 0 1.0038 1 36678 36678 5.7319 1.7875 1 + 17555 14834 11265 11292 20075 20075 0.07598377194221939 LPDSIESAL 9 Unmodified _LPDSIESAL_ 0 0 0 ENSG00000092148|ENST00000399332|HECTD1 ENSG00000092148|ENST00000399332|HECTD1 ENSG00000092148|ENST00000399332|HECTD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.7513732910156 2 472.75039 943.486227 3.1321 0.0014807 -0.010529 -4.9776E-06 3.1215 0.0014757 472.7503513839451 66.75 0.58556 67 66.668 67.254 0.2501 76 33 3 0 0 0 0.062556 1 30509 30509 42.095 0 1 1464100 17556 1093 11266 11293 20076 20076 0.012223550780959158 LPDSIESAL 9 Unmodified _LPDSIESAL_ 0 0 0 ENSG00000092148|ENST00000399332|HECTD1 ENSG00000092148|ENST00000399332|HECTD1 ENSG00000092148|ENST00000399332|HECTD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 944.4967041015625 1 944.493504 943.486227 3.9296 0.0037115 -0.072574 -6.8546E-05 3.8571 0.003643 944.4936563598739 66.719 0.51223 66.969 66.712 67.224 0.25011 45 27 2 0 0 0 0.0026885 4 30561 30515;30561;30611;30659 97.075 19.09 1 658830 17557 1093 11266 11293 20077;20078;20079;20080 20078 0.012223550780959158 LPDSIESAL 9 Unmodified _LPDSIESAL_ 0 0 0 ENSG00000092148|ENST00000399332|HECTD1 ENSG00000092148|ENST00000399332|HECTD1 ENSG00000092148|ENST00000399332|HECTD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 944.4959106445312 1 944.493504 943.486227 3.9068 0.00369 -0.12527 -0.00011832 3.7815 0.0035716 944.4931543571506 66.234 0.55206 66.891 66.55 67.103 0.65672 56 32 2 0 0 0 0.00147 4 30389 30229;30287;30341;30389 109.63 20.202 1 986900 17558 1093 11266 11293 20081;20082;20083;20084 20084 0.012223550780959158 LPDSIESAL 9 Unmodified _LPDSIESAL_ 0 0 0 ENSG00000092148|ENST00000399332|HECTD1 ENSG00000092148|ENST00000399332|HECTD1 ENSG00000092148|ENST00000399332|HECTD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.7524108886719 2 472.75039 943.486227 3.0695 0.0014511 0.44525 0.00021049 3.5148 0.0016616 472.7505661677362 66.206 0.63251 66.863 66.494 67.126 0.65672 83 38 3 0 0 0 0.020718 1 30335 30335 67.344 6.9543 1 1653500 17559 1093 11266 11293 20085 20085 0.012223550780959158 LPDSIESAL 9 Unmodified _LPDSIESAL_ 0 0 0 ENSG00000092148|ENST00000399332|HECTD1 ENSG00000092148|ENST00000399332|HECTD1 ENSG00000092148|ENST00000399332|HECTD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 472.75039 943.486227 2.2991 0.0010869 1.3068 0.00061778 3.6059 0.0017047 472.7517122549879 67.135 0.12215 67.135 67.021 67.143 0 0.13533 0.0010057 NaN 67.344 24 15 2 NaN NaN NaN NaN 0 NaN NaN 0 1937400 17560 1093 11266 11293 0.012223550780959158 LPDSVNQLL 9 Unmodified _LPDSVNQLL_ 0 0 0 nc|ENSG00000119777|Q6NUQ4-2|TMEM214;ENSG00000119777|ENST00000238788|TMEM214;ENST00000469445.1_1_2:27263203-27263702:+|nuORF nc|ENSG00000119777|Q6NUQ4-2|TMEM214 nc|ENSG00000119777|Q6NUQ4-2|TMEM214 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.78106689453125 2 499.779482 997.544411 2.9402 0.0014695 0.0020421 1.0206E-06 2.9423 0.0014705 499.779463721191 73.202 0.4465 73.461 73.174 73.62 0.25876 130 52 3 0 0 0 0.0023685 2 33603 33562;33603 100.37 32.291 1 2456700 17561 2167 11267 11294 20086;20087 20087 0.04554036723379795 LPDSVVSIL 9 Unmodified _LPDSVVSIL_ 0 0 0 ENSG00000177150|ENST00000651643|FAM210A ENSG00000177150|ENST00000651643|FAM210A ENSG00000177150|ENST00000651643|FAM210A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.7806091308594 2 471.778951 941.543348 2.9116 0.0013736 0.58583 0.00027638 3.4974 0.00165 471.77913127311245 84.155 0.36137 84.403 84.154 84.515 0.24758 37 19 3 0 0 0 0.041436 2 38711 38687;38711 50.855 6.448 1 749890 17562 5107 11268 11295 20088;20089 20089 0.070238223544834 LPDTILEKL 9 Unmodified _LPDTILEKL_ 0 0 0 nc|ENSG00000225921|Q9UMY1-2|NOL7;ENSG00000225921|ENST00000451315|NOL7 nc|ENSG00000225921|Q9UMY1-2|NOL7 nc|ENSG00000225921|Q9UMY1-2|NOL7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.3164672851562 2 521.313158 1040.61176 3.6854 0.0019212 0.8135 0.00042409 4.4989 0.0023453 521.3135707714257 68.726 0.25231 68.978 68.842 69.094 0.25226 18 14 2 0 0 0 0.061685 1 31492 31492 42.312 9.5268 1 295410 17563 6168 11269 11296 20090 20090 0.09308066934318049 LPDTILEKL 9 Unmodified _LPDTILEKL_ 0 0 0 nc|ENSG00000225921|Q9UMY1-2|NOL7;ENSG00000225921|ENST00000451315|NOL7 nc|ENSG00000225921|Q9UMY1-2|NOL7 nc|ENSG00000225921|Q9UMY1-2|NOL7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.3147583007812 2 521.313158 1040.61176 NaN NaN NaN NaN NaN NaN NaN 68.165 1 68.824 68.324 69.324 0.65924 0 0 0 0.08777 1 31246 31246 43.982 12.714 1 17564 6168 11269 11296 20091 20091 0.09308066934318049 LPDVDLDL 8 Unmodified _LPDVDLDL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.2401428222656 2 450.239658 898.464763 2.2052 0.00099287 0.35491 0.0001598 2.5601 0.0011527 450.23973853678064 76.97 0.39609 77.594 77.403 77.799 0.62397 47 29 2 0 0 0 0.10141 2 37281 37281;37356 53.576 0 1 479850 17565 2385 11270 11297 20092;20093 20092 0.01146970049387619 LPDVDLDL 8 Unmodified _LPDVDLDL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 899.4737548828125 1 899.47204 898.464763 3.0328 0.0027279 -0.4513 -0.00040593 2.5815 0.002322 899.4714290925207 76.99 0.43448 77.614 77.414 77.849 0.62397 57 34 2 0 0 0 0.017856 3 37294 37294;37345;37390 89.427 0 1 1260500 17566 2385 11270 11297 20094;20095;20096 20094 0.01146970049387619 LPDVDLDL 8 Unmodified _LPDVDLDL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 899.4766235351562 1 899.47204 898.464763 3.7831 0.0034028 0.36565 0.0003289 4.1487 0.0037317 899.4711680928633 77.281 0.5219 77.536 77.366 77.888 0.25533 56 36 2 0 0 0 0.06577 3 35613 35543;35613;35698 60.39 0 1 686690 17567 2385 11270 11297 20097;20098;20099 20098 0.01146970049387619 LPDVDLDL 8 Unmodified _LPDVDLDL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 899.4768676757812 1 899.47204 898.464763 3.7264 0.0033518 0.5563 0.00050038 4.2827 0.0038522 899.472449453904 79.244 0.4972 79.495 79.305 79.802 0.25127 54 29 2 0 0 0 0.017856 4 36524 36434;36479;36524;36588 89.427 0 1 1653400 17568 2385 11270 11297 20100;20101;20102;20103 20102 0.01146970049387619 LPDVDLDL 8 Unmodified _LPDVDLDL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.2408142089844 2 450.239658 898.464763 2.6327 0.0011853 0.07849 3.534E-05 2.7112 0.0012207 450.23960504185 79.309 0.45464 79.56 79.287 79.741 0.25127 43 27 2 0 0 0 0.18676 2 36519 36519;36560 44.407 0 1 517010 17569 2385 11270 11297 20104;20105 20104 0.01146970049387619 LPDVDLDL 8 Unmodified _LPDVDLDL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 899.4750366210938 1 899.47204 898.464763 3.656 0.0032885 -0.70546 -0.00063454 2.9506 0.0026539 899.4711050111049 76.81 0.492 77.473 77.362 77.854 0.66303 53 41 2 0 0 0 0.045071 4 35421 35375;35421;35465;35547 67.344 0 1 848850 17570 2385 11270 11297 20106;20107;20108;20109 20107 0.01146970049387619 LPDVDLDL 8 Unmodified _LPDVDLDL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 899.4766235351562 1 899.47204 898.464763 3.9088 0.0035158 0.42343 0.00038086 4.3322 0.0038967 899.472178196266 78.723 0.50185 79.385 79.241 79.743 0.66198 72 33 3 0 0 0 0.009759 3 36298 36251;36298;36356 101.72 0 1 1780300 17571 2385 11270 11297 20110;20111;20112 20111 0.01146970049387619 LPDVDLDL 8 Unmodified _LPDVDLDL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 450.239658 898.464763 3.0662 0.0013805 0.056651 2.5506E-05 3.1229 0.001406 450.23962440636626 78.719 0.4023 79.381 79.241 79.643 0.66198 -0.089396 -8.0928E-06 NaN 44.407 46 26 2 NaN NaN NaN NaN 0 NaN NaN 0 454850 17572 2385 11270 11297 0.01146970049387619 LPDVSLQEF 9 Unmodified _LPDVSLQEF_ 0 0 0 ENSG00000103035|ENST00000219313|PSMD7 ENSG00000103035|ENST00000219313|PSMD7 ENSG00000103035|ENST00000219313|PSMD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.2727661132812 2 524.27149 1046.52843 2.6112 0.001369 0.46104 0.00024171 3.0722 0.0016107 524.2717010224338 77.503 0.39558 77.503 77.328 77.724 0 75 29 3 0 0 0 0.0013204 3 38028 37969;38028;38078 118.89 56.322 1 4334200 17573 1368 11271 11298 20113;20114;20115 20114 0.007023304865015234 LPDVSLQEF 9 Unmodified _LPDVSLQEF_ 0 0 0 ENSG00000103035|ENST00000219313|PSMD7 ENSG00000103035|ENST00000219313|PSMD7 ENSG00000103035|ENST00000219313|PSMD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.2728271484375 2 524.27149 1046.52843 2.7524 0.001443 0.1465 7.6807E-05 2.8989 0.0015198 524.2715202207544 76.572 0.43042 77.196 76.998 77.428 0.62397 61 28 3 0 0 0 0.0013204 3 37118 37062;37118;37167 118.89 40.745 1 5147100 17574 1368 11271 11298 20116;20117;20118 20117 0.007023304865015234 LPDVSLQEF 9 Unmodified _LPDVSLQEF_ 0 0 0 ENSG00000103035|ENST00000219313|PSMD7 ENSG00000103035|ENST00000219313|PSMD7 ENSG00000103035|ENST00000219313|PSMD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.27294921875 2 524.27149 1046.52843 3.2022 0.0016788 -0.08432 -4.4206E-05 3.1179 0.0016346 524.2714000966479 77.169 0.41163 77.425 77.198 77.609 0.25533 94 34 3 0 0 0 0.0020408 4 35508 35462;35508;35555;35602 103.75 50.652 1 3773700 17575 1368 11271 11298 20119;20120;20121;20122 20120 0.007023304865015234 LPDVSLQEF 9 Unmodified _LPDVSLQEF_ 0 0 0 ENSG00000103035|ENST00000219313|PSMD7 ENSG00000103035|ENST00000219313|PSMD7 ENSG00000103035|ENST00000219313|PSMD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.2730712890625 2 524.27149 1046.52843 3.033 0.0015901 -0.015725 -8.2441E-06 3.0173 0.0015819 524.2714735597287 76.722 0.38338 77.385 77.192 77.576 0.66387 77 31 3 0 0 0 0.0013204 3 35352 35296;35352;35403 118.89 50.814 1 3179600 17576 1368 11271 11298 20123;20124;20125 20124 0.007023304865015234 LPDVVLQEL 9 Unmodified _LPDVVLQEL_ 0 0 0 ENSG00000163755|ENST00000296051|HPS3;nc|ENSG00000163755|Q969F9-2|HPS3 ENSG00000163755|ENST00000296051|HPS3 ENSG00000163755|ENST00000296051|HPS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.2979125976562 2 513.297507 1024.58046 3.3139 0.001701 -0.24133 -0.00012388 3.0725 0.0015771 513.2972768394968 82.861 0.34949 83.108 82.909 83.259 0.24722 30 17 2 0 0 0 0.017293 1 38121 38121 71.922 15.745 1 1348200 17577 4246 11272 11299 20126 20126 0.0691549390023738 LPDVVLQEL 9 Unmodified _LPDVVLQEL_ 0 0 0 ENSG00000163755|ENST00000296051|HPS3;nc|ENSG00000163755|Q969F9-2|HPS3 ENSG00000163755|ENST00000296051|HPS3 ENSG00000163755|ENST00000296051|HPS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.300048828125 2 513.297507 1024.58046 3.5186 0.0018061 0.049916 2.5622E-05 3.5685 0.0018317 513.2976531826608 82.283 0.35456 82.943 82.73 83.085 0.66019 39 20 2 0 0 0 0.41574 1 37955 37955 13.906 0.86358 1 901200 17578 4246 11272 11299 20127 20127 0.0691549390023738 LPDYTSPVVL 10 Unmodified _LPDYTSPVVL_ 0 0 0 ENSG00000185721|ENST00000331457|DRG1;ENST00000469673.1_1_22:31822577-31829954:+|nuORF ENSG00000185721|ENST00000331457|DRG1 ENSG00000185721|ENST00000331457|DRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.8046875 2 552.30279 1102.59103 3.3314 0.00184 -0.35282 -0.00019487 2.9786 0.0016451 552.3020009020446 76.108 0.24412 76.365 76.258 76.502 0.25704 31 17 3 0 0 0 0.38486 1 35028 35028 25.399 4.9457 1 779120 17579 5527 11273 11300 20128 20128 0.043834765546762355 LPDYTSPVVL 10 Unmodified _LPDYTSPVVL_ 0 0 0 ENSG00000185721|ENST00000331457|DRG1;ENST00000469673.1_1_22:31822577-31829954:+|nuORF ENSG00000185721|ENST00000331457|DRG1 ENSG00000185721|ENST00000331457|DRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.3042602539062 2 552.30279 1102.59103 3.1278 0.0017275 0.22016 0.00012159 3.3479 0.0018491 552.3027948957467 75.673 0.27925 76.337 76.147 76.427 0.6644 39 24 2 0 0 0 0.22696 2 34835 34780;34835 36.127 10.728 1 570870 17580 5527 11273 11300 20129;20130 20130 0.043834765546762355 LPDYTSPVVL 10 Unmodified _LPDYTSPVVL_ 0 0 0 ENSG00000185721|ENST00000331457|DRG1;ENST00000469673.1_1_22:31822577-31829954:+|nuORF ENSG00000185721|ENST00000331457|DRG1 ENSG00000185721|ENST00000331457|DRG1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 552.30279 1102.59103 2.9964 0.0016549 -0.46218 -0.00025526 2.5342 0.0013997 552.3027088996135 76.484 0.26302 76.484 76.368 76.631 0 0.12011 -0.00022474 NaN 36.127 23 16 2 NaN NaN NaN NaN 0 NaN NaN 0 1064000 17581 5527 11273 11300 0.043834765546762355 LPDYTSPVVL 10 Unmodified _LPDYTSPVVL_ 0 0 0 ENSG00000185721|ENST00000331457|DRG1;ENST00000469673.1_1_22:31822577-31829954:+|nuORF ENSG00000185721|ENST00000331457|DRG1 ENSG00000185721|ENST00000331457|DRG1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 552.30279 1102.59103 2.7419 0.0015144 -1.7478 -0.00096533 0.99407 0.00054903 552.302561858514 75.606 0.15875 76.27 76.131 76.289 0.6635 -0.094126 -0.0016449 NaN 36.127 16 12 2 NaN NaN NaN NaN 0 NaN NaN 0 1128700 17582 5527 11273 11300 0.043834765546762355 LPEAFPITL 9 Unmodified _LPEAFPITL_ 0 0 0 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.7911682128906 2 500.789318 999.564084 3.7787 0.0018924 -0.31876 -0.00015963 3.46 0.0017327 500.7892664691243 92.757 0.38381 93.01 92.801 93.185 0.25254 52 20 3 0 0 0 0.016529 3 42636 42592;42636;42686 92.822 46.021 1 994750 17583 5011 11274 11301 20131;20132;20133 20132 0.06428412734146605 LPEAFPITL 9 Unmodified _LPEAFPITL_ 0 0 0 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.7908630371094 2 500.789318 999.564084 3.4191 0.0017123 -0.20531 -0.00010282 3.2138 0.0016094 500.7891828693726 92.209 0.33992 92.857 92.657 92.997 0.64715 38 14 3 0 0 0 0.0095519 2 42439 42393;42439 92.822 54.774 1 1212200 17584 5011 11274 11301 20134;20135 20135 0.06428412734146605 LPEAFPITL 9 Unmodified _LPEAFPITL_ 0 0 0 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.7911682128906 2 500.789318 999.564084 NaN NaN NaN NaN NaN NaN NaN 92.379 1 93.026 92.526 93.526 0.64714 0 0 0 0.34849 1 42502 42502 34.102 10.954 1 17585 5011 11274 11301 20136 20136 0.06428412734146605 LPEAGGPRTL 10 Unmodified _LPEAGGPRTL_ 0 0 0 ENST00000571735.2_1_19:582536-582838:+|nuORF ENST00000571735.2_1_19:582536-582838:+|nuORF ENST00000571735.2_1_19:582536-582838:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.7873229980469 2 505.785099 1009.55564 2.8234 0.001428 0.26554 0.00013431 3.0889 0.0015623 505.78523557914326 33.976 0.22736 33.976 33.807 34.034 0 25 13 3 0 0 0 0.19222 1 15374 15374 40.239 0 1 883350 17586 9093 11275 11302 20137 20137 0.051248588175326404 LPEAGPGRTL 10 Unmodified _LPEAGPGRTL_ 0 0 0 ENSG00000148926|ENST00000278175|ADM ENSG00000148926|ENST00000278175|ADM ENSG00000148926|ENST00000278175|ADM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.7864990234375 2 505.785099 1009.55564 3.2586 0.0016481 -0.79507 -0.00040213 2.4635 0.001246 505.7846808539327 33.807 0.36151 34.061 33.84 34.201 0.25389 48 21 3 0 0 0 0.15953 2 15385 15334;15385 44.392 3.667 1 909010 17587 3622 11276 11303 20138;20139 20139 0.051248588175326404 LPEAGPGRTL 10 Unmodified _LPEAGPGRTL_ 0 0 0 ENSG00000148926|ENST00000278175|ADM ENSG00000148926|ENST00000278175|ADM ENSG00000148926|ENST00000278175|ADM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.7867736816406 2 505.785099 1009.55564 3.1364 0.0015863 -0.92836 -0.00046955 2.208 0.0011168 505.784518301853 33.225 0.32693 33.845 33.666 33.993 0.62032 46 18 3 0 0 0 0.18812 2 15244 15193;15244 40.725 3.6503 1 835760 17588 3622 11276 11303 20140;20141 20141 0.051248588175326404 LPEAGRPALS 10 Unmodified _LPEAGRPALS_ 0 0 0 ENST00000301770.10_1_11:61034988-61050313:-|nuORF;ENSG00000167992|ENST00000335613|VWCE ENST00000301770.10_1_11:61034988-61050313:-|nuORF ENST00000301770.10_1_11:61034988-61050313:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.78607177734375 2 505.785099 1009.55564 2.7803 0.0014062 -0.69127 -0.00034963 2.089 0.0010566 505.78459111040945 33.028 0.29518 33.816 33.666 33.961 0.78795 37 17 3 0 0 0 0.33566 1 14923 14923 27.223 0 1 657430 17589 4590 11277 11304 20142 20142 0.05124858817509903 LPEDEGHTRTL 11 Unmodified _LPEDEGHTRTL_ 0 0 0 ENSG00000166164|ENST00000394688|BRD7;nc|ENSG00000166164|Q9NPI1-2|BRD7 ENSG00000166164|ENST00000394688|BRD7 ENSG00000166164|ENST00000394688|BRD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 423.2154235839844 3 423.214086 1266.62043 2.9248 0.0012378 0.35232 0.00014911 3.2771 0.0013869 423.2143085540872 20.972 0.41842 20.972 20.792 21.21 0 42 29 2 0 0 0 0.58024 2 9395 9348;9395 17.42 10.79 1 289120 17590 4455 11278 11305 20143;20144 20144 -0.002216111671486942 LPEDEKLGDVL 11 Unmodified _LPEDEKLGDVL_ 0 0 0 REV__ENSG00000153157|ENST00000283141|SYCP2L REV__ENSG00000153157|ENST00000283141|SYCP2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 614.3273315429688 2 614.326993 1226.63943 3.5441 0.0021772 0.53576 0.00032913 4.0798 0.0025063 614.3274276176573 70.036 0.50823 70.292 70.095 70.603 0.25642 63 37 2 0 0 0 0.1322 5 32046 32002;32046;32098;32142;32188 36.506 10.238 1 843770 + 17591 12671 11279 11306 20145;20146;20147;20148;20149 20146 0.03517925403912159 LPEDEKLGDVL 11 Unmodified _LPEDEKLGDVL_ 0 0 0 REV__ENSG00000153157|ENST00000283141|SYCP2L REV__ENSG00000153157|ENST00000283141|SYCP2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 614.3314819335938 2 614.326993 1226.63943 3.2381 0.0019893 0.90374 0.00055519 4.1419 0.0025445 614.3274199636313 69.538 0.48911 70.199 70.008 70.497 0.66071 66 37 2 0 0 0 0.1322 4 31835 31835;31882;31939;31992 36.506 12.362 1 875820 + 17592 12671 11279 11306 20150;20151;20152;20153 20150 0.03517925403912159 LPEDEKLGDVL 11 Unmodified _LPEDEKLGDVL_ 0 0 0 REV__ENSG00000153157|ENST00000283141|SYCP2L REV__ENSG00000153157|ENST00000283141|SYCP2L MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 614.326993 1226.63943 3.5441 0.0021772 0.53576 0.00032913 4.0798 0.0025063 614.3274276176573 70.036 0.50823 70.292 70.095 70.603 0.25642 0.046602 -0.00019626 NaN 36.506 63 37 2 NaN NaN NaN NaN 0 NaN NaN 0 843770 + 17593 12671 11279 11306 0.03517925403912159 LPEDEKLGDVL 11 Unmodified _LPEDEKLGDVL_ 0 0 0 REV__ENSG00000153157|ENST00000283141|SYCP2L REV__ENSG00000153157|ENST00000283141|SYCP2L MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 614.326993 1226.63943 3.2381 0.0019893 0.90374 0.00055519 4.1419 0.0025445 614.3274199636313 69.538 0.48911 70.199 70.008 70.497 0.66071 -0.046602 0.00025586 NaN 36.506 66 37 2 NaN NaN NaN NaN 0 NaN NaN 0 875820 + 17594 12671 11279 11306 0.03517925403912159 LPEDTTSVL 9 Unmodified _LPEDTTSVL_ 0 0 0 ENSG00000075539|ENST00000358350|FRYL;FRYL|p.E2601Dfs*12|1|0.03|ENSG00000075539|chr4:48515162-48515163|-/TACTTTCA|frameshift_variant ENSG00000075539|ENST00000358350|FRYL ENSG00000075539|ENST00000358350|FRYL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.7576599121094 2 487.755672 973.496792 3.3547 0.0016363 -0.28924 -0.00014108 3.0655 0.0014952 487.7556230224756 54.773 0.3032 54.773 54.701 55.005 0 44 31 2 0 0 0 0.012869 2 25197 25139;25197 77.984 27.129 1 1229600 17595 830 11280 11307 20154;20155 20155 0.008983377325193942 LPEDTTSVL 9 Unmodified _LPEDTTSVL_ 0 0 0 ENSG00000075539|ENST00000358350|FRYL;FRYL|p.E2601Dfs*12|1|0.03|ENSG00000075539|chr4:48515162-48515163|-/TACTTTCA|frameshift_variant ENSG00000075539|ENST00000358350|FRYL ENSG00000075539|ENST00000358350|FRYL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 974.5086059570312 1 974.504068 973.496792 3.3177 0.0032332 0.42453 0.00041371 3.7423 0.0036469 974.5039206196542 53.717 0.29185 54.521 54.485 54.776 0.80351 21 12 2 0 0 0 0.023109 2 24530 24530;24592 64.236 30.134 1 361230 17596 830 11280 11307 20156;20157 20156 0.008983377325193942 LPEDTTSVL 9 Unmodified _LPEDTTSVL_ 0 0 0 ENSG00000075539|ENST00000358350|FRYL;FRYL|p.E2601Dfs*12|1|0.03|ENSG00000075539|chr4:48515162-48515163|-/TACTTTCA|frameshift_variant ENSG00000075539|ENST00000358350|FRYL ENSG00000075539|ENST00000358350|FRYL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.7568359375 2 487.755672 973.496792 2.9516 0.0014396 -0.23825 -0.00011621 2.7133 0.0013234 487.75564739427733 53.774 0.49108 54.577 54.436 54.927 0.80351 55 24 3 0 0 0 0.026068 2 24556 24556;24601 60.39 24.345 1 1236800 17597 830 11280 11307 20158;20159 20158 0.008983377325193942 LPEDTTSVL 9 Unmodified _LPEDTTSVL_ 0 0 0 ENSG00000075539|ENST00000358350|FRYL;FRYL|p.E2601Dfs*12|1|0.03|ENSG00000075539|chr4:48515162-48515163|-/TACTTTCA|frameshift_variant ENSG00000075539|ENST00000358350|FRYL ENSG00000075539|ENST00000358350|FRYL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.7578125 2 487.755672 973.496792 NaN NaN NaN NaN NaN NaN NaN 54.012 1 54.679 54.179 55.179 0.6665 0 0 0 0.085491 1 24705 24705 44.407 8.3628 1 17598 830 11280 11307 20160 20160 0.008983377325193942 LPEDTTSVL 9 Unmodified _LPEDTTSVL_ 0 0 0 ENSG00000075539|ENST00000358350|FRYL;FRYL|p.E2601Dfs*12|1|0.03|ENSG00000075539|chr4:48515162-48515163|-/TACTTTCA|frameshift_variant ENSG00000075539|ENST00000358350|FRYL ENSG00000075539|ENST00000358350|FRYL MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 974.504068 973.496792 3.3883 0.0033019 -0.0045707 -4.4542E-06 3.3837 0.0032974 974.5036427840463 54.55 0.25124 54.815 54.66 54.911 0.26543 0.14728 -0.00033546 NaN 64.236 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 381470 17599 830 11280 11307 0.008983377325193942 LPEDTTSVL 9 Unmodified _LPEDTTSVL_ 0 0 0 ENSG00000075539|ENST00000358350|FRYL;FRYL|p.E2601Dfs*12|1|0.03|ENSG00000075539|chr4:48515162-48515163|-/TACTTTCA|frameshift_variant ENSG00000075539|ENST00000358350|FRYL ENSG00000075539|ENST00000358350|FRYL MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 487.755672 973.496792 2.8919 0.0014106 0.42628 0.00020792 3.3182 0.0016185 487.75581286084054 54.665 0.35501 54.93 54.585 54.94 0.26543 0.17012 0.00041609 NaN 77.984 28 15 2 NaN NaN NaN NaN 0 NaN NaN 0 955060 17600 830 11280 11307 0.008983377325193942 LPEEEQQRVL 10 Unmodified _LPEEEQQRVL_ 0 0 0 nc|ENSG00000108312|P17480-2|UBTF;ENSG00000108312|ENST00000436088|UBTF nc|ENSG00000108312|P17480-2|UBTF nc|ENSG00000108312|P17480-2|UBTF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 620.8329467773438 2 620.830234 1239.64592 3.6272 0.0022519 0.013911 8.6362E-06 3.6412 0.0022605 620.8302085030263 35.157 0.38836 35.157 35.068 35.457 0 53 32 2 0 0 0 1.0164E-05 2 15949 15949;15996 121.5 62.135 1 3173500 17601 9590 11281 11308 20161;20162 20161 0.03567863355283407 LPEEEQQRVL 10 Unmodified _LPEEEQQRVL_ 0 0 0 nc|ENSG00000108312|P17480-2|UBTF;ENSG00000108312|ENST00000436088|UBTF nc|ENSG00000108312|P17480-2|UBTF nc|ENSG00000108312|P17480-2|UBTF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.8330078125 2 620.830234 1239.64592 3.2285 0.0020044 0.48429 0.00030066 3.7128 0.002305 620.8305007798349 34.407 0.30477 35.197 34.931 35.236 0.78921 45 17 4 0 0 0 3.3425E-06 2 15516 15516;15562 128.93 77.303 1 1732900 17602 9590 11281 11308 20163;20164 20163 0.03567863355283407 LPEEEQQRVL 10 Unmodified _LPEEEQQRVL_ 0 0 0 nc|ENSG00000108312|P17480-2|UBTF;ENSG00000108312|ENST00000436088|UBTF nc|ENSG00000108312|P17480-2|UBTF nc|ENSG00000108312|P17480-2|UBTF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 620.83154296875 2 620.830234 1239.64592 3.6008 0.0022355 -0.1357 -8.4244E-05 3.4651 0.0021512 620.8303219225245 35.064 0.38365 35.319 35.182 35.566 0.25524 49 20 3 0 0 0 3.3629E-09 3 15960 15960;16008;16067 147.24 76.909 1 2849800 17603 9590 11281 11308 20165;20166;20167 20165 0.03567863355283407 LPEEEQQRVL 10 Unmodified _LPEEEQQRVL_ 0 0 0 nc|ENSG00000108312|P17480-2|UBTF;ENSG00000108312|ENST00000436088|UBTF nc|ENSG00000108312|P17480-2|UBTF nc|ENSG00000108312|P17480-2|UBTF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 620.832275390625 2 620.830234 1239.64592 3.6555 0.0022695 -0.32691 -0.00020296 3.3286 0.0020665 620.8300334064302 34.7 0.37309 35.323 35.085 35.458 0.62294 51 26 3 0 0 0 1.1312E-08 3 15885 15836;15885;15938 139.78 80.413 1 3514800 17604 9590 11281 11308 20168;20169;20170 20169 0.03567863355283407 LPEEGTDADEP 11 Unmodified _LPEEGTDADEP_ 0 0 0 REV__nc|ENSG00000114993|Q9BST9-3|RTKN REV__nc|ENSG00000114993|Q9BST9-3|RTKN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.75048828125 2 586.751315 1171.48808 NaN NaN NaN NaN NaN NaN NaN 70.621 1 70.621 70.121 71.121 0 0 0 0 1.0034 1 34295 34295 6.2058 0.47393 1 + 17605 11339 11282 11309 20171 20171 -0.09080680694614784 LPEEIREPAL 10 Unmodified _LPEEIREPAL_ 0 0 0 ENST00000473995.5_1_1:212955642-212964952:-|nuORF;ENST00000487995.1_1_1:212957698-212965105:-|nuORF;nc|ENSG00000117697|Q96IY1-2|NSL1;ENSG00000117697|ENST00000366977|NSL1 ENST00000473995.5_1_1:212955642-212964952:-|nuORF ENST00000473995.5_1_1:212955642-212964952:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.8248901367188 2 583.824421 1165.63429 NaN NaN NaN NaN NaN NaN NaN 53.04 1 53.304 52.804 53.804 0.26345 0 0 0 0.05599 1 24250 24250 59.368 23.241 1 17606 2090 11283 11310 20172 20172 0.0580966633197022 LPEEIREPAL 10 Unmodified _LPEEIREPAL_ 0 0 0 ENST00000473995.5_1_1:212955642-212964952:-|nuORF;ENST00000487995.1_1_1:212957698-212965105:-|nuORF;nc|ENSG00000117697|Q96IY1-2|NSL1;ENSG00000117697|ENST00000366977|NSL1 ENST00000473995.5_1_1:212955642-212964952:-|nuORF ENST00000473995.5_1_1:212955642-212964952:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.826416015625 2 583.824421 1165.63429 NaN NaN NaN NaN NaN NaN NaN 52.693 1 53.355 52.855 53.855 0.66198 0 0 0 0.04231 1 24092 24092 63.227 27.1 1 17607 2090 11283 11310 20173 20173 0.0580966633197022 LPEENYQVL 9 Unmodified _LPEENYQVL_ 0 0 0 ENSG00000175220|ENST00000311956|ARHGAP1;ENST00000526423.1_1_11:46700589-46702208:-|nuORF ENSG00000175220|ENST00000311956|ARHGAP1 ENSG00000175220|ENST00000311956|ARHGAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.7835083007812 2 552.782222 1103.54989 3.3543 0.0018542 0.29516 0.00016316 3.6494 0.0020173 552.7826517004128 60.08 0.24915 60.08 60.037 60.286 0 47 28 2 0 0 0 0.057744 1 27923 27923 43.858 19.184 1 4219700 17608 5021 11284 11311 20174 20174 0.0022571551519376953 LPEENYQVL 9 Unmodified _LPEENYQVL_ 0 0 0 ENSG00000175220|ENST00000311956|ARHGAP1;ENST00000526423.1_1_11:46700589-46702208:-|nuORF ENSG00000175220|ENST00000311956|ARHGAP1 ENSG00000175220|ENST00000311956|ARHGAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.7843017578125 2 552.782222 1103.54989 2.9586 0.0016355 -0.022709 -1.2553E-05 2.9359 0.0016229 552.7822605132321 58.997 0.43271 59.756 59.641 60.074 0.75894 87 37 3 0 0 0 0.0028306 3 27149 27093;27149;27196 96.285 50.585 1 4945100 17609 5021 11284 11311 20175;20176;20177 20176 0.0022571551519376953 LPEENYQVL 9 Unmodified _LPEENYQVL_ 0 0 0 ENSG00000175220|ENST00000311956|ARHGAP1;ENST00000526423.1_1_11:46700589-46702208:-|nuORF ENSG00000175220|ENST00000311956|ARHGAP1 ENSG00000175220|ENST00000311956|ARHGAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.7847900390625 2 552.782222 1103.54989 3.5908 0.0019849 0.36612 0.00020238 3.9569 0.0021873 552.7822452761462 59.751 0.47676 60.01 59.841 60.318 0.2593 75 26 4 0 0 0 0.0028306 4 27383 27335;27383;27436;27494 96.285 40.108 1 3719900 17610 5021 11284 11311 20178;20179;20180;20181 20179 0.0022571551519376953 LPEENYQVL 9 Unmodified _LPEENYQVL_ 0 0 0 ENSG00000175220|ENST00000311956|ARHGAP1;ENST00000526423.1_1_11:46700589-46702208:-|nuORF ENSG00000175220|ENST00000311956|ARHGAP1 ENSG00000175220|ENST00000311956|ARHGAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.7850341796875 2 552.782222 1103.54989 3.5292 0.0019509 0.22729 0.00012564 3.7565 0.0020765 552.7822882978742 59.284 0.48655 59.951 59.717 60.203 0.66703 57 22 3 0 0 0 0.0028306 3 27110 27110;27156;27210 96.285 39.251 1 3961200 17611 5021 11284 11311 20182;20183;20184 20182 0.0022571551519376953 LPEERELM 8 Unmodified _LPEERELM_ 0 0 0 ENSG00000174123|ENST00000308973|TLR10 ENSG00000174123|ENST00000308973|TLR10 ENSG00000174123|ENST00000308973|TLR10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.7600402832031 2 508.757692 1015.50083 3.2045 0.0016303 -0.087992 -4.4767E-05 3.1165 0.0015855 508.75763672962927 26.845 0.29668 27.466 27.328 27.625 0.62179 34 21 2 0 0 0 0.38743 1 12277 12277 29.082 2.8134 1 426330 17612 4964 11285 11312 20185 20185 -0.00629896045404621 LPEEVSLQEQL 11 Unmodified _LPEEVSLQEQL_ 0 0 0 nc|ENSG00000197714|Q14592-2|ZNF460;ENSG00000197714|ENST00000360338|ZNF460 nc|ENSG00000197714|Q14592-2|ZNF460 nc|ENSG00000197714|Q14592-2|ZNF460 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 642.839111328125 2 642.837725 1283.6609 NaN NaN NaN NaN NaN NaN NaN 66.385 1 66.634 66.134 67.134 0.24848 0 0 0 0.13555 1 30413 30413 41.956 24.513 1 17613 5837 11286 11313 20186 20186 0.030413104326498797 LPEEVSLQEQL 11 Unmodified _LPEEVSLQEQL_ 0 0 0 nc|ENSG00000197714|Q14592-2|ZNF460;ENSG00000197714|ENST00000360338|ZNF460 nc|ENSG00000197714|Q14592-2|ZNF460 nc|ENSG00000197714|Q14592-2|ZNF460 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 642.840576171875 2 642.837725 1283.6609 NaN NaN NaN NaN NaN NaN NaN 65.859 1 66.516 66.016 67.016 0.65672 0 0 0 0.676 1 30194 30194 23.79 10.917 1 17614 5837 11286 11313 20187 20187 0.030413104326498797 LPEFKELAL 9 Unmodified _LPEFKELAL_ 0 0 0 ENSG00000167306|ENST00000285039|MYO5B ENSG00000167306|ENST00000285039|MYO5B ENSG00000167306|ENST00000285039|MYO5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.3079223632812 2 530.307875 1058.6012 2.6879 0.0014254 0.77971 0.00041348 3.4676 0.0018389 530.308402508222 71.228 0.28114 71.891 71.705 71.987 0.66209 34 20 2 0 0 0 0.069974 2 32591 32591;32637 40.239 7.9337 1 543210 17615 4543 11287 11314 20188;20189 20188 0.07424084279887211 LPEFNEVL 8 Unmodified _LPEFNEVL_ 0 0 0 REV__nc|ENSG00000109320|P19838-3|NFKB1 REV__nc|ENSG00000109320|P19838-3|NFKB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.757080078125 2 480.755475 959.496398 2.991 0.0014379 1.1016 0.00052961 4.0926 0.0019675 480.7557279730111 53.937 0.52347 54.201 53.932 54.456 0.26462 41 21 2 0 0 0 0.60101 2 24609 24609;24671 13.906 0.39817 1 406610 + 17616 11168 11288 11315 20190;20191 20190 0.015029628033403242 LPEFNEVL 8 Unmodified _LPEFNEVL_ 0 0 0 REV__nc|ENSG00000109320|P19838-3|NFKB1 REV__nc|ENSG00000109320|P19838-3|NFKB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.757080078125 2 480.755475 959.496398 2.9709 0.0014283 0.019053 9.1596E-06 2.99 0.0014375 480.7553269047252 53.512 0.58673 54.176 53.762 54.349 0.6644 32 27 2 0 0 0 0.60101 1 24468 24468 13.906 0.39817 1 528640 + 17617 11168 11288 11315 20192 20192 0.015029628033403242 LPEGILEAP 9 Unmodified _LPEGILEAP_ 0 0 0 REV__ENSG00000185313|ENST00000449082|SCN10A REV__ENSG00000185313|ENST00000449082|SCN10A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.7652587890625 2 469.7633 937.512048 2.2584 0.0010609 0.80537 0.00037834 3.0638 0.0014393 469.76343009041796 77.086 0.27369 77.086 76.865 77.138 0 27 18 2 0 0 0 0.028312 1 37794 37794 57.471 19.497 1 1342100 + 17618 14015 11289 11316 20193 20193 0.0407924932038668 LPEGILEAP 9 Unmodified _LPEGILEAP_ 0 0 0 REV__ENSG00000185313|ENST00000449082|SCN10A REV__ENSG00000185313|ENST00000449082|SCN10A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.7636413574219 2 469.7633 937.512048 2.282 0.001072 0.43777 0.00020565 2.7197 0.0012776 469.76320335367143 76.111 0.30199 76.735 76.576 76.878 0.62398 36 22 2 0 0 0 0.023109 1 36878 36878 64.236 18.215 1 1097100 + 17619 14015 11289 11316 20194 20194 0.0407924932038668 LPEGILEAP 9 Unmodified _LPEGILEAP_ 0 0 0 REV__ENSG00000185313|ENST00000449082|SCN10A REV__ENSG00000185313|ENST00000449082|SCN10A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 469.7650451660156 2 469.7633 937.512048 2.6697 0.0012541 0.42105 0.00019779 3.0907 0.0014519 469.76345395331475 76.711 0.31694 76.966 76.797 77.113 0.25533 52 22 3 0 0 0 0.015468 2 35337 35291;35337 74.423 14.349 1 2258900 + 17620 14015 11289 11316 20195;20196 20196 0.0407924932038668 LPEGILEAP 9 Unmodified _LPEGILEAP_ 0 0 0 REV__ENSG00000185313|ENST00000449082|SCN10A REV__ENSG00000185313|ENST00000449082|SCN10A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 469.7642822265625 2 469.7633 937.512048 2.5725 0.0012085 0.99367 0.00046679 3.5662 0.0016753 469.76366077568395 76.246 0.38821 76.91 76.692 77.081 0.66387 57 25 3 0 0 0 0.015468 2 35164 35112;35164 74.423 19.649 1 2003200 + 17621 14015 11289 11316 20197;20198 20198 0.0407924932038668 LPEGILEAP 9 Unmodified _LPEGILEAP_ 0 0 0 REV__ENSG00000185313|ENST00000449082|SCN10A REV__ENSG00000185313|ENST00000449082|SCN10A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 469.7633 937.512048 2.2584 0.0010609 0.80537 0.00037834 3.0638 0.0014393 469.76343009041796 77.086 0.27369 77.086 76.865 77.138 0 0.16199 0.00011718 NaN 74.423 27 18 2 NaN NaN NaN NaN 0 NaN NaN 0 1342100 + 17622 14015 11289 11316 0.0407924932038668 LPEGILEAP 9 Unmodified _LPEGILEAP_ 0 0 0 REV__ENSG00000185313|ENST00000449082|SCN10A REV__ENSG00000185313|ENST00000449082|SCN10A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 469.7633 937.512048 2.282 0.001072 0.43777 0.00020565 2.7197 0.0012776 469.76320335367143 76.111 0.30199 76.735 76.576 76.878 0.62398 -0.18904 -0.0002282 NaN 74.423 36 22 2 NaN NaN NaN NaN 0 NaN NaN 0 1097100 + 17623 14015 11289 11316 0.0407924932038668 LPEGILEAP 9 Unmodified _LPEGILEAP_ 0 0 0 REV__ENSG00000185313|ENST00000449082|SCN10A REV__ENSG00000185313|ENST00000449082|SCN10A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 469.7633 937.512048 2.6697 0.0012541 0.42105 0.00019779 3.0907 0.0014519 469.76345395331475 76.711 0.31694 76.966 76.797 77.113 0.25533 0.041631 -0.00024391 NaN 74.423 52 22 3 NaN NaN NaN NaN 0 NaN NaN 0 2258900 + 17624 14015 11289 11316 0.0407924932038668 LPEGILEAP 9 Unmodified _LPEGILEAP_ 0 0 0 REV__ENSG00000185313|ENST00000449082|SCN10A REV__ENSG00000185313|ENST00000449082|SCN10A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 469.7633 937.512048 2.5725 0.0012085 0.99367 0.00046679 3.5662 0.0016753 469.76366077568395 76.246 0.38821 76.91 76.692 77.081 0.66387 -0.014579 0.00029408 NaN 74.423 57 25 3 NaN NaN NaN NaN 0 NaN NaN 0 2003200 + 17625 14015 11289 11316 0.0407924932038668 LPEGKPVQV 9 Unmodified _LPEGKPVQV_ 0 0 0 ENST00000493523.2_1_2:73302651-73316730:-|nuORF;nc|ENSG00000135631|Q9BXF6|RAB11FIP5;ENSG00000135631|ENST00000486777|RAB11FIP5 ENST00000493523.2_1_2:73302651-73316730:-|nuORF ENST00000493523.2_1_2:73302651-73316730:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.7862548828125 2 483.784567 965.554582 3.3802 0.0016353 0.2838 0.0001373 3.664 0.0017726 483.784527358997 31.181 0.26147 31.181 31.11 31.371 0 38 24 2 0 0 0 0.079031 2 14099 14099;14147 37.974 5.6685 1 410400 17626 2883 11290 11317 20199;20200 20199 0.07042644448620194 LPEGKPVQV 9 Unmodified _LPEGKPVQV_ 0 0 0 ENST00000493523.2_1_2:73302651-73316730:-|nuORF;nc|ENSG00000135631|Q9BXF6|RAB11FIP5;ENSG00000135631|ENST00000486777|RAB11FIP5 ENST00000493523.2_1_2:73302651-73316730:-|nuORF ENST00000493523.2_1_2:73302651-73316730:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.78594970703125 2 483.784567 965.554582 3.2379 0.0015664 0.026497 1.2819E-05 3.2644 0.0015793 483.7844384186969 30.431 0.3862 31.22 30.993 31.379 0.78921 54 31 2 0 0 0 0.10837 2 13748 13689;13748 30.637 12.49 1 252250 17627 2883 11290 11317 20201;20202 20202 0.07042644448620194 LPEGKPVQV 9 Unmodified _LPEGKPVQV_ 0 0 0 ENST00000493523.2_1_2:73302651-73316730:-|nuORF;nc|ENSG00000135631|Q9BXF6|RAB11FIP5;ENSG00000135631|ENST00000486777|RAB11FIP5 ENST00000493523.2_1_2:73302651-73316730:-|nuORF ENST00000493523.2_1_2:73302651-73316730:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.78656005859375 2 483.784567 965.554582 NaN NaN NaN NaN NaN NaN NaN 31.003 1 31.259 30.759 31.759 0.25614 0 0 0 0.21088 1 14111 14111 30.637 6.616 1 17628 2883 11290 11317 20203 20203 0.07042644448620194 LPEIYIQLQRE 11 Unmodified _LPEIYIQLQRE_ 0 0 0 ENSG00000103966|ENST00000220325|EHD4 ENSG00000103966|ENST00000220325|EHD4 ENSG00000103966|ENST00000220325|EHD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 701.3916015625 2 701.390459 1400.76637 NaN NaN NaN NaN NaN NaN NaN 73.431 1 74.13 73.63 74.63 0.69881 0 0 0 1.0041 1 35411 35411 5.2969 0 1 17629 1417 11291 11318 20204 20204 0.0820127134888935 LPEKEGEEL 9 Unmodified _LPEKEGEEL_ 0 0 0 ENSG00000177469|ENST00000357037|CAVIN1 ENSG00000177469|ENST00000357037|CAVIN1 ENSG00000177469|ENST00000357037|CAVIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.2686157226562 2 522.266404 1042.51826 3.3632 0.0017565 0.80861 0.00042231 4.1718 0.0021788 522.2669015696603 27.066 0.36071 27.066 26.916 27.277 0 34 21 2 0 0 0 0.15661 1 12189 12189 26.268 0.86883 1 326320 17630 5119 11292 11319 20205 20205 -0.001302772387589357 LPELEELT 8 Unmodified _LPELEELT_ 0 0 0 REV__nc|ENSG00000187240|Q8NCM8-2|DYNC2H1 REV__nc|ENSG00000187240|Q8NCM8-2|DYNC2H1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 943.5004272460938 1 943.498255 942.490978 3.8158 0.0036002 -0.20556 -0.00019394 3.6102 0.0034062 943.496752288084 60.785 0.20638 61.448 61.341 61.548 0.66261 13 9 2 0 0 0 0.03366 1 27824 27824 74.396 0 1 592930 + 17631 14094 11293 11320 20206 20206 0.017432392208434067 LPELLKVSGV 10 Unmodified _LPELLKVSGV_ 0 0 0 nc|ENSG00000145604|Q13309-2|SKP2;ENSG00000145604|ENST00000274255|SKP2 nc|ENSG00000145604|Q13309-2|SKP2 nc|ENSG00000145604|Q13309-2|SKP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 352.2213439941406 3 352.221742 1053.6434 NaN NaN NaN NaN NaN NaN NaN 35.366 1 36.157 35.657 36.657 0.79131 0 0 0 0.7079 1 16028 16028 24.882 10.476 1 17632 3475 11294 11321 20207 20207 0.11872059688289482 LPEPEPPGAM 10 Unmodified _LPEPEPPGAM_ 0 0 0 nc|ENSG00000115561|Q9Y3E7-4|CHMP3;ENSG00000115561|ENST00000263856|CHMP3;nc|ENSG00000115561|Q9Y3E7-3|CHMP3;nc|ENSG00000115561|Q9Y3E7-2|CHMP3 nc|ENSG00000115561|Q9Y3E7-4|CHMP3 nc|ENSG00000115561|Q9Y3E7-4|CHMP3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.1405639648438 2 519.252243 1036.48993 3.311 0.0017193 0.032364 1.6805E-05 3.3434 0.0017361 519.252262531877 51.613 0.19604 51.613 51.557 51.754 0 20 11 2 0 0 0 0.085661 1 23647 23647 30.637 9.7653 1 600850 17633 1976 11295 11322 20208 20208 -0.02685298419692117 LPEPEPPGAM 10 Unmodified _LPEPEPPGAM_ 0 0 0 nc|ENSG00000115561|Q9Y3E7-4|CHMP3;ENSG00000115561|ENST00000263856|CHMP3;nc|ENSG00000115561|Q9Y3E7-3|CHMP3;nc|ENSG00000115561|Q9Y3E7-2|CHMP3 nc|ENSG00000115561|Q9Y3E7-4|CHMP3 nc|ENSG00000115561|Q9Y3E7-4|CHMP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.2529296875 2 519.252243 1036.48993 3.1577 0.0016397 -0.091923 -4.7731E-05 3.0658 0.0015919 519.2521399061106 50.913 0.31975 51.731 51.48 51.8 0.81738 28 16 2 0 0 0 0.042035 1 23184 23184 64.236 40.216 1 977940 17634 1976 11295 11322 20209 20209 -0.02685298419692117 LPEPEPPGAM 10 Unmodified _LPEPEPPGAM_ 0 0 0 nc|ENSG00000115561|Q9Y3E7-4|CHMP3;ENSG00000115561|ENST00000263856|CHMP3;nc|ENSG00000115561|Q9Y3E7-3|CHMP3;nc|ENSG00000115561|Q9Y3E7-2|CHMP3 nc|ENSG00000115561|Q9Y3E7-4|CHMP3 nc|ENSG00000115561|Q9Y3E7-4|CHMP3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.761962890625 2 519.252243 1036.48993 3.2307 0.0016775 0.63328 0.00032883 3.864 0.0020064 519.2526750758357 50.772 0.3252 51.432 51.315 51.64 0.65956 28 18 2 0 0 0 0.12676 1 23184 23184 13.906 9.9617 1 932100 17635 1976 11295 11322 20210 20210 -0.02685298419692117 LPEPNHVML 9 Unmodified _LPEPNHVML_ 0 0 0 ENSG00000131791|ENST00000254101|PRKAB2;ENST00000542698.1_1_12:120117647-120118127:+|nuORF;nc|ENSG00000131791|O43741-2|PRKAB2;ENSG00000111725|ENST00000229328|PRKAB1 ENSG00000131791|ENST00000254101|PRKAB2 ENSG00000131791|ENST00000254101|PRKAB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.9498901367188 2 525.276052 1048.53755 NaN NaN NaN NaN NaN NaN NaN 51.659 1 51.659 51.159 52.159 0 0 0 0 0.098631 1 23650 23650 24.021 8.1734 1 17636 2674 11296 11323 20211 20211 0.015224005711615973 LPEPNHVML 9 Unmodified _LPEPNHVML_ 0 0 0 ENSG00000131791|ENST00000254101|PRKAB2;ENST00000542698.1_1_12:120117647-120118127:+|nuORF;nc|ENSG00000131791|O43741-2|PRKAB2;ENSG00000111725|ENST00000229328|PRKAB1 ENSG00000131791|ENST00000254101|PRKAB2 ENSG00000131791|ENST00000254101|PRKAB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 525.2765502929688 2 525.276052 1048.53755 3.0982 0.0016274 0.31578 0.00016587 3.414 0.0017933 525.2757782911198 50.629 0.23966 51.447 51.364 51.604 0.81738 17 12 2 0 0 0 0.082627 1 23111 23111 32.786 13.529 1 347360 17637 2674 11296 11323 20212 20212 0.015224005711615973 LPEPNHVML 9 Unmodified _LPEPNHVML_ 0 0 0 ENSG00000131791|ENST00000254101|PRKAB2;ENST00000542698.1_1_12:120117647-120118127:+|nuORF;nc|ENSG00000131791|O43741-2|PRKAB2;ENSG00000111725|ENST00000229328|PRKAB1 ENSG00000131791|ENST00000254101|PRKAB2 ENSG00000131791|ENST00000254101|PRKAB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.27880859375 2 525.276052 1048.53755 3.1968 0.0016792 0.72168 0.00037908 3.9184 0.0020583 525.2764821949161 51.329 0.25257 51.592 51.47 51.722 0.26227 17 11 2 0 0 0 0.027096 1 23457 23457 63.961 33.736 1 664530 17638 2674 11296 11323 20213 20213 0.015224005711615973 LPEPNHVML 9 Unmodified _LPEPNHVML_ 0 0 0 ENSG00000131791|ENST00000254101|PRKAB2;ENST00000542698.1_1_12:120117647-120118127:+|nuORF;nc|ENSG00000131791|O43741-2|PRKAB2;ENSG00000111725|ENST00000229328|PRKAB1 ENSG00000131791|ENST00000254101|PRKAB2 ENSG00000131791|ENST00000254101|PRKAB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.7796020507812 2 525.276052 1048.53755 3.1798 0.0016703 0.85675 0.00045003 4.0366 0.0021203 525.2764389569278 50.703 0.2542 51.362 51.158 51.412 0.65956 22 12 2 0 0 0 0.061685 2 23188 23130;23188 45.7 11.597 1 461130 17639 2674 11296 11323 20214;20215 20215 0.015224005711615973 LPEPNKDAI 9 Unmodified _LPEPNKDAI_ 0 0 0 ENSG00000188641|ENST00000370192|DPYD ENSG00000188641|ENST00000370192|DPYD ENSG00000188641|ENST00000370192|DPYD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.77276611328125 2 498.771657 995.528761 2.8704 0.0014317 -0.48068 -0.00023975 2.3897 0.0011919 498.7714181935701 47.715 0.21158 47.715 47.665 47.876 0 29 16 3 0 0 0 0.038142 1 21836 21836 52.268 2.3353 1 1803700 17640 5673 11297 11324 20216 20216 0.030817502063200664 LPEPQQTAL 9 Unmodified _LPEPQQTAL_ 0 0 0 nc|ENSG00000105928|O60443-3|GSDME;ENSG00000105928|ENST00000645220|GSDME;ENST00000469133.1_1_7:24747667-24749942:-|nuORF nc|ENSG00000105928|O60443-3|GSDME nc|ENSG00000105928|O60443-3|GSDME MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.77264404296875 2 498.771657 995.528761 2.8704 0.0014317 -0.48068 -0.00023975 2.3897 0.0011919 498.7714181935701 47.715 0.21158 47.715 47.665 47.876 0 29 16 3 0 0 0 0.024388 1 21886 21886 62.573 7.7991 1 1803700 17641 1541 11298 11325 20217 20217 0.030817502063200664 LPEPQQTAL 9 Unmodified _LPEPQQTAL_ 0 0 0 nc|ENSG00000105928|O60443-3|GSDME;ENSG00000105928|ENST00000645220|GSDME;ENST00000469133.1_1_7:24747667-24749942:-|nuORF nc|ENSG00000105928|O60443-3|GSDME nc|ENSG00000105928|O60443-3|GSDME MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.7727966308594 2 498.771657 995.528761 2.935 0.0014639 -0.051511 -2.5692E-05 2.8835 0.0014382 498.7716275935095 46.814 0.33765 47.644 47.456 47.793 0.82915 32 16 3 0 0 0 0.027384 1 21311 21311 58.679 22.552 1 921150 17642 1541 11298 11325 20218 20218 0.030817502063200664 LPEPQQTAL 9 Unmodified _LPEPQQTAL_ 0 0 0 nc|ENSG00000105928|O60443-3|GSDME;ENSG00000105928|ENST00000645220|GSDME;ENST00000469133.1_1_7:24747667-24749942:-|nuORF nc|ENSG00000105928|O60443-3|GSDME nc|ENSG00000105928|O60443-3|GSDME MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.7725524902344 2 498.771657 995.528761 NaN NaN NaN NaN NaN NaN NaN 47.455 1 47.719 47.219 48.219 0.26363 0 0 0 0.062126 1 21685 21685 49.933 1.5872 1 17643 1541 11298 11325 20219 20219 0.030817502063200664 LPEPQQTAL 9 Unmodified _LPEPQQTAL_ 0 0 0 nc|ENSG00000105928|O60443-3|GSDME;ENSG00000105928|ENST00000645220|GSDME;ENST00000469133.1_1_7:24747667-24749942:-|nuORF nc|ENSG00000105928|O60443-3|GSDME nc|ENSG00000105928|O60443-3|GSDME MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.7727355957031 2 498.771657 995.528761 NaN NaN NaN NaN NaN NaN NaN 46.92 1 47.573 47.073 48.073 0.65219 0 0 0 0.062126 1 21488 21488 49.933 1.5872 1 17644 1541 11298 11325 20220 20220 0.030817502063200664 LPEPSCPQL 9 Carbamidomethyl (C) _LPEPSC(Carbamidomethyl (C))PQL_ LPEPSC(1)PQL LPEPSC(68)PQL 0 1 0 ENSG00000105397|ENST00000525621|TYK2;ENST00000529412.1_1_19:10464673-10468571:-|nuORF ENSG00000105397|ENST00000525621|TYK2 ENSG00000105397|ENST00000525621|TYK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.7587890625 2 520.757692 1039.50083 3.1992 0.001666 -0.074599 -3.8848E-05 3.1246 0.0016271 520.7575458053584 52.69 0.26898 52.69 52.569 52.838 0 40 23 2 0 0 0 0.020151 1 24142 24142 68.081 15.812 1 1318400 17645 1493 11299 11326 20221 20221 36 -0.017338960454253538 LPEPSCPQL 9 Carbamidomethyl (C) _LPEPSC(Carbamidomethyl (C))PQL_ LPEPSC(1)PQL LPEPSC(52)PQL 0 1 0 ENSG00000105397|ENST00000525621|TYK2;ENST00000529412.1_1_19:10464673-10468571:-|nuORF ENSG00000105397|ENST00000525621|TYK2 ENSG00000105397|ENST00000525621|TYK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.757568359375 2 520.757692 1039.50083 2.899 0.0015097 1.3732 0.00071511 4.2723 0.0022248 520.757503387566 51.85 0.60872 52.661 52.463 53.071 0.81065 70 41 3 0 0 0 0.038142 1 23627 23627 52.268 8.4101 1 1337400 17646 1493 11299 11326 20222 20222 36 -0.017338960454253538 LPEPSCPQL 9 Carbamidomethyl (C) _LPEPSC(Carbamidomethyl (C))PQL_ LPEPSC(1)PQL LPEPSC(100)PQL 0 1 0 ENSG00000105397|ENST00000525621|TYK2;ENST00000529412.1_1_19:10464673-10468571:-|nuORF ENSG00000105397|ENST00000525621|TYK2 ENSG00000105397|ENST00000525621|TYK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.7591552734375 2 520.757692 1039.50083 3.398 0.0017696 -0.034333 -1.7879E-05 3.3637 0.0017517 520.7579152447934 52.424 0.22467 52.688 52.575 52.8 0.26345 17 9 2 0 0 0 0.0020408 1 23961 23961 103.75 25.599 1 2180900 17647 1493 11299 11326 20223 20223 36 -0.017338960454253538 LPEQHDCTF 9 Carbamidomethyl (C) _LPEQHDC(Carbamidomethyl (C))TF_ LPEQHDC(1)TF LPEQHDC(40)TF 0 1 0 ENST00000463847.1_1_6:38110907-38120162:+|nuORF;ENSG00000156639|ENST00000287218|ZFAND3 ENST00000463847.1_1_6:38110907-38120162:+|nuORF ENST00000463847.1_1_6:38110907-38120162:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 573.7505493164062 2 573.747856 1145.48116 3.8089 0.0021854 -0.057036 -3.2724E-05 3.7519 0.0021526 573.7478115408217 30.161 0.32563 30.161 30.04 30.366 0 42 20 3 0 0 0 0.069974 1 13605 13605 40.239 25.658 1 737960 17648 3919 11300 11327 20224 20224 71 -0.08576272056188827 LPEQHDCTF 9 Carbamidomethyl (C) _LPEQHDC(Carbamidomethyl (C))TF_ LPEQHDC(1)TF LPEQHDC(50)TF 0 1 0 ENST00000463847.1_1_6:38110907-38120162:+|nuORF;ENSG00000156639|ENST00000287218|ZFAND3 ENST00000463847.1_1_6:38110907-38120162:+|nuORF ENST00000463847.1_1_6:38110907-38120162:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.7496948242188 2 573.747856 1145.48116 3.6334 0.0020847 -0.80089 -0.00045951 2.8325 0.0016252 573.7475331587583 29.242 0.3405 30.031 29.833 30.173 0.78921 57 25 3 0 0 0 0.044468 2 13187 13187;13220 49.554 36.512 1 519340 17649 3919 11300 11327 20225;20226 20225 71 -0.08576272056188827 LPEQHDCTF 9 Carbamidomethyl (C) _LPEQHDC(Carbamidomethyl (C))TF_ LPEQHDC(1)TF LPEQHDC(93)TF 0 1 0 ENST00000463847.1_1_6:38110907-38120162:+|nuORF;ENSG00000156639|ENST00000287218|ZFAND3 ENST00000463847.1_1_6:38110907-38120162:+|nuORF ENST00000463847.1_1_6:38110907-38120162:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 573.7503051757812 2 573.747856 1145.48116 3.6329 0.0020843 0.24929 0.00014303 3.8821 0.0022274 573.7480280630581 29.94 0.46223 30.198 29.999 30.461 0.25804 69 44 2 0 0 0 0.0043297 1 13630 13630 93.166 70.43 1 573090 17650 3919 11300 11327 20227 20227 71 -0.08576272056188827 LPEQHDCTF 9 Carbamidomethyl (C) _LPEQHDC(Carbamidomethyl (C))TF_ LPEQHDC(1)TF LPEQHDC(62)TF 0 1 0 ENST00000463847.1_1_6:38110907-38120162:+|nuORF;ENSG00000156639|ENST00000287218|ZFAND3 ENST00000463847.1_1_6:38110907-38120162:+|nuORF ENST00000463847.1_1_6:38110907-38120162:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 573.7491455078125 2 573.747856 1145.48116 3.6794 0.002111 -0.30252 -0.00017357 3.3769 0.0019375 573.7476044639332 29.773 0.50208 30.39 30.025 30.527 0.61789 69 33 3 0 0 0 0.025135 2 13587 13587;13641 61.602 47.696 1 600570 17651 3919 11300 11327 20228;20229 20228 71 -0.08576272056188827 LPEREAKDLK 10 Unmodified _LPEREAKDLK_ 0 0 0 REV__nc|ENSG00000163913|Q9HBG6-11|IFT122 REV__nc|ENSG00000163913|Q9HBG6-11|IFT122 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 599.8441162109375 2 599.843145 1197.67174 NaN NaN NaN NaN NaN NaN NaN 90.039 1 90.712 90.212 91.212 0.67271 0 0 0 1.0004 1 41451 41451 1.3295 0 1 + 17652 13040 11301 11328 20230 20230 0.08080757597554111 LPERNVPSL 9 Unmodified _LPERNVPSL_ 0 0 0 ENST00000327247.9_1_1:155210492-155214452:-|nuORF ENST00000327247.9_1_1:155210492-155214452:-|nuORF ENST00000327247.9_1_1:155210492-155214452:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.7941284179688 2 512.792924 1023.57129 3.2012 0.0016416 -0.50502 -0.00025897 2.6962 0.0013826 512.7926921568034 40.114 0.37927 40.914 40.628 41.007 0.80014 40 25 2 0 0 0 0.017449 3 18163 18113;18118;18163 71.708 15.57 1 1872000 17653 6962 11302 11329 20231;20232;20233 20233 0.0604514533456495 LPERNVPSL 9 Unmodified _LPERNVPSL_ 0 0 0 ENST00000327247.9_1_1:155210492-155214452:-|nuORF ENST00000327247.9_1_1:155210492-155214452:-|nuORF ENST00000327247.9_1_1:155210492-155214452:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.79345703125 2 512.792924 1023.57129 3.569 0.0018302 -0.58674 -0.00030088 2.9823 0.0015293 512.7924320255617 40.678 0.37494 40.947 40.759 41.134 0.26904 36 21 2 0 0 0 0.0043297 2 18500 18500;18549 93.166 31.808 1 1417200 17654 6962 11302 11329 20234;20235 20234 0.0604514533456495 LPERNVPSL 9 Unmodified _LPERNVPSL_ 0 0 0 ENST00000327247.9_1_1:155210492-155214452:-|nuORF ENST00000327247.9_1_1:155210492-155214452:-|nuORF ENST00000327247.9_1_1:155210492-155214452:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.7944946289062 2 512.792924 1023.57129 NaN NaN NaN NaN NaN NaN NaN 40.205 1 40.847 40.347 41.347 0.64136 0 0 0 0.00058728 1 18371 18371 100.09 27.123 1 17655 6962 11302 11329 20236 20236 0.0604514533456495 LPERQPRF 8 Unmodified _LPERQPRF_ 0 0 0 ENST00000467831.1_1_3:100384035-100384215:-|nuORF;ENSG00000197045|ENST00000358056|GMFB;ENSG00000130755|ENST00000597595|GMFG ENST00000467831.1_1_3:100384035-100384215:-|nuORF ENST00000467831.1_1_3:100384035-100384215:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.7940673828125 2 521.793258 1041.57196 3.4687 0.0018099 -1.4176 -0.00073968 2.0511 0.0010703 521.7925627948223 31.093 0.34829 31.882 31.744 32.092 0.78879 41 26 2 0 0 0 0.57648 1 14106 14106 15.847 1.9411 1 261950 17656 2618 11303 11330 20237 20237 0.05283984774268902 LPERRVLSWR 10 Unmodified _LPERRVLSWR_ 0 0 0 ENST00000397887.7_1_21:46269710-46269758:-|nuORF ENST00000397887.7_1_21:46269710-46269758:-|nuORF ENST00000397887.7_1_21:46269710-46269758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 656.3843994140625 2 656.385845 1310.75714 NaN NaN NaN NaN NaN NaN NaN 58.292 1 58.959 58.459 59.459 0.66703 0 0 0 0.99774 1 26682 26682 3.5965 0.31518 1 17657 7585 11304 11331 20238 20238 0.11418967573877126 LPESTHVEF 9 Unmodified _LPESTHVEF_ 0 0 0 ENSG00000166750|ENST00000299977|SLFN5;nc|ENSG00000166750|Q08AF3-2|SLFN5 ENSG00000166750|ENST00000299977|SLFN5 ENSG00000166750|ENST00000299977|SLFN5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.7636108398438 2 529.761289 1057.50803 3.0082 0.0015936 1.1382 0.00060298 4.1464 0.0021966 529.7620125791378 43.704 0.33113 44.518 44.336 44.667 0.81444 27 16 2 0 0 0 0.032303 1 19908 19908 54.774 24.549 1 401150 17658 4505 11305 11332 20239 20239 -0.018428401733444844 LPESTHVEF 9 Unmodified _LPESTHVEF_ 0 0 0 ENSG00000166750|ENST00000299977|SLFN5;nc|ENSG00000166750|Q08AF3-2|SLFN5 ENSG00000166750|ENST00000299977|SLFN5 ENSG00000166750|ENST00000299977|SLFN5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 529.761289 1057.50803 3.0654 0.0016239 0.54638 0.00028945 3.6118 0.0019134 529.7626791699456 44.9 0.21585 44.9 44.728 44.944 0 0.16629 -0.00058726 NaN 54.774 15 11 2 NaN NaN NaN NaN 0 NaN NaN 0 549780 17659 4505 11305 11332 -0.018428401733444844 LPESTHVEF 9 Unmodified _LPESTHVEF_ 0 0 0 ENSG00000166750|ENST00000299977|SLFN5;nc|ENSG00000166750|Q08AF3-2|SLFN5 ENSG00000166750|ENST00000299977|SLFN5 ENSG00000166750|ENST00000299977|SLFN5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 529.761289 1057.50803 3.4134 0.0018083 1.1368 0.00060222 4.5501 0.0024105 529.7619481756659 44.134 0.19634 44.784 44.631 44.828 0.64998 0.049646 3.8286E-05 NaN 54.774 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 709800 17660 4505 11305 11332 -0.018428401733444844 LPETANSVTL 10 Unmodified _LPETANSVTL_ 0 0 0 ENSG00000115414|ENST00000354785|FN1;nc|ENSG00000115414|P02751-7|FN1;nc|ENSG00000115414|P02751-1|FN1;nc|ENSG00000115414|P02751-4|FN1;nc|ENSG00000115414|P02751-3|FN1;nc|ENSG00000115414|P02751-6|FN1;nc|ENSG00000115414|P02751-5|FN1;nc|ENSG00000115414|P02751-17|FN1;nc|ENSG00000115414|P02751-13|FN1;nc|ENSG00000115414|P02751-11|FN1;nc|ENSG00000115414|P02751-8|FN1;nc|ENSG00000115414|P02751-9|FN1;nc|ENSG00000115414|P02751-14|FN1;nc|ENSG00000115414|P02751-10|FN1;nc|ENSG00000115414|P02751-12|FN1 ENSG00000115414|ENST00000354785|FN1 ENSG00000115414|ENST00000354785|FN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.7830810546875 2 522.782222 1043.54989 3.5171 0.0018387 0.59386 0.00031046 4.111 0.0021491 522.7826074637343 54.313 0.39061 54.313 54.106 54.497 0 50 32 2 0 0 0 0.018808 2 24875 24875;24929 82.529 30.9 1 2672400 17661 1968 11306 11333 20240;20241 20240 0.029857155152058112 LPETANSVTL 10 Unmodified _LPETANSVTL_ 0 0 0 ENSG00000115414|ENST00000354785|FN1;nc|ENSG00000115414|P02751-7|FN1;nc|ENSG00000115414|P02751-1|FN1;nc|ENSG00000115414|P02751-4|FN1;nc|ENSG00000115414|P02751-3|FN1;nc|ENSG00000115414|P02751-6|FN1;nc|ENSG00000115414|P02751-5|FN1;nc|ENSG00000115414|P02751-17|FN1;nc|ENSG00000115414|P02751-13|FN1;nc|ENSG00000115414|P02751-11|FN1;nc|ENSG00000115414|P02751-8|FN1;nc|ENSG00000115414|P02751-9|FN1;nc|ENSG00000115414|P02751-14|FN1;nc|ENSG00000115414|P02751-10|FN1;nc|ENSG00000115414|P02751-12|FN1 ENSG00000115414|ENST00000354785|FN1 ENSG00000115414|ENST00000354785|FN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.7844848632812 2 522.782222 1043.54989 3.1724 0.0016585 0.38784 0.00020275 3.5603 0.0018613 522.7824286429446 53.344 0.31581 54.148 54.018 54.333 0.8035 71 29 3 0 0 0 0.007163 2 24341 24341;24387 92.653 27.418 1 2859100 17662 1968 11306 11333 20242;20243 20242 0.029857155152058112 LPETANSVTL 10 Unmodified _LPETANSVTL_ 0 0 0 ENSG00000115414|ENST00000354785|FN1;nc|ENSG00000115414|P02751-7|FN1;nc|ENSG00000115414|P02751-1|FN1;nc|ENSG00000115414|P02751-4|FN1;nc|ENSG00000115414|P02751-3|FN1;nc|ENSG00000115414|P02751-6|FN1;nc|ENSG00000115414|P02751-5|FN1;nc|ENSG00000115414|P02751-17|FN1;nc|ENSG00000115414|P02751-13|FN1;nc|ENSG00000115414|P02751-11|FN1;nc|ENSG00000115414|P02751-8|FN1;nc|ENSG00000115414|P02751-9|FN1;nc|ENSG00000115414|P02751-14|FN1;nc|ENSG00000115414|P02751-10|FN1;nc|ENSG00000115414|P02751-12|FN1 ENSG00000115414|ENST00000354785|FN1 ENSG00000115414|ENST00000354785|FN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.7837524414062 2 522.782222 1043.54989 3.2631 0.0017059 1.2949 0.00067695 4.558 0.0023829 522.7830158693532 54.113 0.66849 54.378 54.07 54.739 0.26462 59 28 3 0 0 0 0.018808 2 24683 24683;24731 82.529 21.338 1 1224200 17663 1968 11306 11333 20244;20245 20244 0.029857155152058112 LPETPMPLL 9 Unmodified _LPETPMPLL_ 0 0 0 REV__nc|ENSG00000103932|Q9BWH6-2|RPAP1 REV__nc|ENSG00000103932|Q9BWH6-2|RPAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.7845458984375 2 505.783179 1009.5518 NaN NaN NaN NaN NaN NaN NaN 82.931 1 83.178 82.678 83.678 0.24722 0 0 0 0.059045 1 38173 38173 50.855 3.9342 1 + 17664 10979 11307 11334 20246 20246 0.047410529994408535 LPEVDPETM 9 Unmodified _LPEVDPETM_ 0 0 0 ENSG00000188641|ENST00000370192|DPYD ENSG00000188641|ENST00000370192|DPYD ENSG00000188641|ENST00000370192|DPYD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.744140625 2 515.741708 1029.46886 3.4024 0.0017548 0.95338 0.0004917 4.3558 0.0022465 515.742166024278 57.301 0.11984 57.565 57.467 57.587 0.26443 12 9 2 0 0 0 0.071101 1 26205 26205 39.957 28.317 1 853100 17665 5673 11308 11335 20247 20247 -0.044693085192193394 LPEVDPETM 9 Unmodified _LPEVDPETM_ 0 0 0 ENSG00000188641|ENST00000370192|DPYD ENSG00000188641|ENST00000370192|DPYD ENSG00000188641|ENST00000370192|DPYD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.7431030273438 2 515.741708 1029.46886 NaN NaN NaN NaN NaN NaN NaN 56.72 1 57.388 56.888 57.888 0.66829 0 0 0 0.45908 1 25949 25949 20.454 6.9457 1 17666 5673 11308 11335 20248 20248 -0.044693085192193394 LPEVVPNMKP 10 Unmodified _LPEVVPNMKP_ 0 0 0 REV__nc|ENSG00000176946|Q8WY91-2|THAP4 REV__nc|ENSG00000176946|Q8WY91-2|THAP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.21368408203125 3 375.210849 1122.61072 NaN NaN NaN NaN NaN NaN NaN 12.847 1 13.154 12.654 13.654 0.30727 0 0 0 0.99733 1 5796 5796 1.9064 0.71303 1 + 17667 13719 11309 11336 20249 20249 0.0543152929376447 LPEWKENIM 9 Unmodified _LPEWKENIM_ 0 0 0 ENST00000392900.3_1_7:143551228-143582358:-|nuORF;ENST00000414990.2_3_7:143295168-143301929:+|nuORF;nc|ENSG00000198420|Q9Y4C2-2|TCAF1;ENSG00000198420|ENST00000479870|TCAF1 ENST00000392900.3_1_7:143551228-143582358:-|nuORF ENST00000392900.3_1_7:143551228-143582358:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 580.2958984375 2 580.294442 1158.57433 3.5446 0.0020569 -0.56153 -0.00032585 2.9831 0.0017311 580.2942032352304 58.742 0.3045 58.742 58.557 58.861 0 68 25 3 0 0 0 2.5075E-05 2 27081 27081;27130 142.08 98.221 1 6628100 17668 7524 11310 11337 20250;20251 20250 0.0013865239704955457 LPEWKENIM 9 Unmodified _LPEWKENIM_ 0 0 0 ENST00000392900.3_1_7:143551228-143582358:-|nuORF;ENST00000414990.2_3_7:143295168-143301929:+|nuORF;nc|ENSG00000198420|Q9Y4C2-2|TCAF1;ENSG00000198420|ENST00000479870|TCAF1 ENST00000392900.3_1_7:143551228-143582358:-|nuORF ENST00000392900.3_1_7:143551228-143582358:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 580.2955322265625 2 580.294442 1158.57433 3.0335 0.0017603 -0.47318 -0.00027459 2.5603 0.0014857 580.2943751549299 57.612 0.25156 58.381 58.238 58.49 0.76861 58 20 4 0 0 0 0.00068611 2 26368 26368;26419 129.77 74.999 1 7278500 17669 7524 11310 11337 20252;20253 20252 0.0013865239704955457 LPEWKENIM 9 Unmodified _LPEWKENIM_ 0 0 0 ENST00000392900.3_1_7:143551228-143582358:-|nuORF;ENST00000414990.2_3_7:143295168-143301929:+|nuORF;nc|ENSG00000198420|Q9Y4C2-2|TCAF1;ENSG00000198420|ENST00000479870|TCAF1 ENST00000392900.3_1_7:143551228-143582358:-|nuORF ENST00000392900.3_1_7:143551228-143582358:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 580.29736328125 2 580.294442 1158.57433 3.3583 0.0019488 -0.014324 -8.3122E-06 3.344 0.0019405 580.2943759245641 58.455 0.14443 58.717 58.652 58.797 0.26227 41 28 2 0 0 0 0.0010698 2 26757 26757;26797 125.53 81.671 1 6618900 17670 7524 11310 11337 20254;20255 20254 0.0013865239704955457 LPEWKENIM 9 Unmodified _LPEWKENIM_ 0 0 0 ENST00000392900.3_1_7:143551228-143582358:-|nuORF;ENST00000414990.2_3_7:143295168-143301929:+|nuORF;nc|ENSG00000198420|Q9Y4C2-2|TCAF1;ENSG00000198420|ENST00000479870|TCAF1 ENST00000392900.3_1_7:143551228-143582358:-|nuORF ENST00000392900.3_1_7:143551228-143582358:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 580.296630859375 2 580.294442 1158.57433 3.6693 0.0021293 -0.22196 -0.0001288 3.4473 0.0020005 580.7955913742544 57.948 0.27139 58.617 58.386 58.657 0.66829 38 13 4 0 0 0 0.001731 1 26480 26480 106.94 70.434 1 8924900 17671 7524 11310 11337 20256 20256 0.0013865239704955457 LPEWKENIM 9 Unmodified _LPEWKENIM_ 0 0 0 ENST00000392900.3_1_7:143551228-143582358:-|nuORF;ENST00000414990.2_3_7:143295168-143301929:+|nuORF;nc|ENSG00000198420|Q9Y4C2-2|TCAF1;ENSG00000198420|ENST00000479870|TCAF1 ENST00000392900.3_1_7:143551228-143582358:-|nuORF ENST00000392900.3_1_7:143551228-143582358:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 580.2962646484375 2 580.294442 1158.57433 NaN NaN NaN NaN NaN NaN NaN 57.984 1 58.652 58.152 59.152 0.66829 0 0 0 0.0085224 1 26536 26536 86.332 30.155 1 17672 7524 11310 11337 20257 20257 0.0013865239704955457 LPEWKENIM 9 Oxidation (M) _LPEWKENIM(Oxidation (M))_ LPEWKENIM(1) LPEWKENIM(42) 0 0 1 ENST00000392900.3_1_7:143551228-143582358:-|nuORF;ENST00000414990.2_3_7:143295168-143301929:+|nuORF;nc|ENSG00000198420|Q9Y4C2-2|TCAF1;ENSG00000198420|ENST00000479870|TCAF1 ENST00000392900.3_1_7:143551228-143582358:-|nuORF ENST00000392900.3_1_7:143551228-143582358:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.139892578125 2 588.291899 1174.56925 3.2993 0.0019409 0.39814 0.00023422 3.6974 0.0021751 588.7936178438049 45.231 0.28427 46.058 45.911 46.195 0.82621 25 17 2 0 0 0 0.063112 1 20584 20584 41.956 13.782 1 600790 17673 7524 11310 11338 20258 20258 85 -0.011056514655820138 LPEWKENIM 9 Oxidation (M) _LPEWKENIM(Oxidation (M))_ LPEWKENIM(1) LPEWKENIM(64) 0 0 1 ENST00000392900.3_1_7:143551228-143582358:-|nuORF;ENST00000414990.2_3_7:143295168-143301929:+|nuORF;nc|ENSG00000198420|Q9Y4C2-2|TCAF1;ENSG00000198420|ENST00000479870|TCAF1 ENST00000392900.3_1_7:143551228-143582358:-|nuORF ENST00000392900.3_1_7:143551228-143582358:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.2940673828125 2 588.291899 1174.56925 3.5672 0.0020985 -0.10215 -6.0095E-05 3.465 0.0020384 588.2920725862846 46.047 0.44421 46.313 46.123 46.568 0.26561 43 19 3 0 0 0 0.023321 2 21038 21038;21107 63.961 39.94 1 711850 17674 7524 11310 11338 20259;20260 20259 85 -0.011056514655820138 LPEWKENIM 9 Oxidation (M) _LPEWKENIM(Oxidation (M))_ LPEWKENIM(1) LPEWKENIM(50) 0 0 1 ENST00000392900.3_1_7:143551228-143582358:-|nuORF;ENST00000414990.2_3_7:143295168-143301929:+|nuORF;nc|ENSG00000198420|Q9Y4C2-2|TCAF1;ENSG00000198420|ENST00000479870|TCAF1 ENST00000392900.3_1_7:143551228-143582358:-|nuORF ENST00000392900.3_1_7:143551228-143582358:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.2947998046875 2 588.291899 1174.56925 3.8543 0.0022674 -0.011525 -6.7799E-06 3.8427 0.0022607 588.2919784118925 45.48 0.42192 46.131 45.938 46.36 0.65104 47 18 3 0 0 0 0.044468 2 20840 20792;20840 49.554 28.017 1 483350 17675 7524 11310 11338 20261;20262 20262 85 -0.011056514655820138 LPFDSFRTI 9 Unmodified _LPFDSFRTI_ 0 0 0 REV__ENST00000534774.1_1_11:108535817-108546498:+|nuORF REV__ENST00000534774.1_1_11:108535817-108546498:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.295166015625 2 548.295299 1094.57605 3.3314 0.0018266 -0.46654 -0.0002558 2.8649 0.0015708 548.2948744723687 62.564 0.33825 63.224 63.027 63.365 0.66008 33 20 2 0 0 0 0.43926 1 28629 28629 13.508 0.97634 1 1243800 + 17676 10122 11311 11339 20263 20263 0.03254029477329823 LPFHSPPQEAL 11 Unmodified _LPFHSPPQEAL_ 0 0 0 ENSG00000138646|ENST00000264350|HERC5;ENST00000510223.5_1_4:89394995-89425581:+|nuORF;ENST00000502913.1_1_4:89394186-89425581:+|nuORF ENSG00000138646|ENST00000264350|HERC5 ENSG00000138646|ENST00000264350|HERC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 618.3265991210938 2 618.324588 1234.63462 3.4463 0.002131 -0.22374 -0.00013835 3.2226 0.0019926 618.3244672405584 51.466 0.18153 52.126 52.039 52.221 0.65956 12 9 2 0 0 0 0.72546 1 23570 23570 10.151 6.5541 1 179910 17677 3107 11312 11340 20264 20264 0.026690860518328918 LPFKETQEL 9 Unmodified _LPFKETQEL_ 0 0 0 nc|ENSG00000164463|Q8IUR6-2|CREBRF;ENST00000520464.1_1_5:172507634-172535847:+|nuORF;ENSG00000164463|ENST00000296953|CREBRF;nc|ENSG00000164463|Q8IUR6-3|CREBRF nc|ENSG00000164463|Q8IUR6-2|CREBRF nc|ENSG00000164463|Q8IUR6-2|CREBRF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.8020629882812 2 552.800414 1103.58628 3.6059 0.0019933 0.81098 0.00044831 4.4169 0.0024416 552.8004775747332 46.702 0.20948 47.354 47.226 47.435 0.65219 9 6 2 0 0 0 0.26277 1 21411 21411 19.257 0 1 237740 17678 4317 11313 11341 20265 20265 0.03862592411906007 LPFKKSLL 8 Unmodified _LPFKKSLL_ 0 0 0 ENSG00000215193|ENST00000399744|PEX26 ENSG00000215193|ENST00000399744|PEX26 ENSG00000215193|ENST00000399744|PEX26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.3125 2 473.310221 944.605889 2.8525 0.0013501 0.43544 0.0002061 3.2879 0.0015562 473.31053027825186 43.655 0.25218 43.924 43.731 43.983 0.26939 13 7 2 0 0 0 0.17436 1 19909 19909 45.7 15.063 1 585880 17679 6129 11314 11342 20266 20266 0.1313701321331564 LPFKKSLL 8 Unmodified _LPFKKSLL_ 0 0 0 ENSG00000215193|ENST00000399744|PEX26 ENSG00000215193|ENST00000399744|PEX26 ENSG00000215193|ENST00000399744|PEX26 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.311279296875 2 473.310221 944.605889 NaN NaN NaN NaN NaN NaN NaN 43.086 1 43.735 43.235 44.235 0.64872 0 0 0 0.17885 1 19743 19743 36.127 14.38 1 17680 6129 11314 11342 20267 20267 0.1313701321331564 LPFLKEWKREW 11 Unmodified _LPFLKEWKREW_ 0 0 0 REV__ENST00000237172.11_1_6:76203231-76203315:-|nuORF REV__ENST00000237172.11_1_6:76203231-76203315:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 766.4249877929688 2 766.424636 1530.83472 NaN NaN NaN NaN NaN NaN NaN 65.381 1 65.629 65.129 66.129 0.24803 0 0 0 1.008 1 29953 29953 0.35063 0.35063 1 + 17681 14870 11315 11343 20268 20268 0.09053560719394227 LPFLQQSTR 9 Unmodified _LPFLQQSTR_ 0 0 0 REV__ENST00000464156.5_1_2:25038570-25039677:+|nuORF REV__ENST00000464156.5_1_2:25038570-25039677:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.4592895507812 2 545.306198 1088.59784 NaN NaN NaN NaN NaN NaN NaN 58.685 1 59.444 58.944 59.944 0.75894 0 0 0 0.86044 1 26937 26937 7.2892 0.56607 1 + 17682 16526 11316 11344 20269 20269 0.057088342259021374 LPFLVQIQLM 10 Unmodified _LPFLVQIQLM_ 0 0 0 REV__ENST00000463645.1_1_2:132491378-132509159:+|nuORF REV__ENST00000463645.1_1_2:132491378-132509159:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.3547973632812 2 601.354302 1200.69405 NaN NaN NaN NaN NaN NaN NaN 46.878 1 47.707 47.207 48.207 0.82915 0 0 0 0.99687 1 21356 21356 4.3292 0 1 + 17683 16515 11317 11345 20270 20270 0.10173265741627802 LPFPKDASL 9 Unmodified _LPFPKDASL_ 0 0 0 nc|nan|Q6UWU4-2|C6orf89;ENSG00000198663|ENST00000480824|C6orf89;nc|nan|Q6UWU4-3|C6orf89 nc|nan|Q6UWU4-2|C6orf89 nc|nan|Q6UWU4-2|C6orf89 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.2814636230469 2 494.279118 986.543683 2.927 0.0014468 0.54962 0.00027166 3.4766 0.0017184 494.2793912843925 55.937 0.33565 55.937 55.833 56.168 0 54 23 3 0 0 0 0.020338 1 25749 25749 67.838 3.6018 1 1849000 17684 5911 11318 11346 20271 20271 0.04987242074309961 LPFPKDASL 9 Unmodified _LPFPKDASL_ 0 0 0 nc|nan|Q6UWU4-2|C6orf89;ENSG00000198663|ENST00000480824|C6orf89;nc|nan|Q6UWU4-3|C6orf89 nc|nan|Q6UWU4-2|C6orf89 nc|nan|Q6UWU4-2|C6orf89 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.28045654296875 2 494.279118 986.543683 2.7662 0.0013673 -0.078352 -3.8728E-05 2.6879 0.0013286 494.2789570965616 55.039 0.34742 55.827 55.686 56.034 0.78711 61 23 3 0 0 0 0.02812 1 25094 25094 57.722 3.8892 1 1551000 17685 5911 11318 11346 20272 20272 0.04987242074309961 LPFPKDASL 9 Unmodified _LPFPKDASL_ 0 0 0 nc|nan|Q6UWU4-2|C6orf89;ENSG00000198663|ENST00000480824|C6orf89;nc|nan|Q6UWU4-3|C6orf89 nc|nan|Q6UWU4-2|C6orf89 nc|nan|Q6UWU4-2|C6orf89 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.2807312011719 2 494.279118 986.543683 3.0812 0.001523 0.09744 4.8163E-05 3.1786 0.0015711 494.27905617853617 55.865 0.36399 56.131 55.937 56.301 0.26543 40 16 3 0 0 0 0.025135 1 25581 25581 61.602 0.24444 1 3607800 17686 5911 11318 11346 20273 20273 0.04987242074309961 LPFPKDASL 9 Unmodified _LPFPKDASL_ 0 0 0 nc|nan|Q6UWU4-2|C6orf89;ENSG00000198663|ENST00000480824|C6orf89;nc|nan|Q6UWU4-3|C6orf89 nc|nan|Q6UWU4-2|C6orf89 nc|nan|Q6UWU4-2|C6orf89 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.28070068359375 2 494.279118 986.543683 3.1812 0.0015724 0.37117 0.00018346 3.5523 0.0017559 494.2792276319077 55.087 0.44256 55.755 55.533 55.976 0.66798 44 17 3 0 0 0 0.018453 1 25236 25236 70.332 6.0957 1 3237900 17687 5911 11318 11346 20274 20274 0.04987242074309961 LPFPKDASL 9 Unmodified _LPFPKDASL_ 0 0 0 nc|nan|Q6UWU4-2|C6orf89;ENSG00000198663|ENST00000480824|C6orf89;nc|nan|Q6UWU4-3|C6orf89 nc|nan|Q6UWU4-2|C6orf89 nc|nan|Q6UWU4-2|C6orf89 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 494.279118 986.543683 2.7662 0.0013673 -0.078352 -3.8728E-05 2.6879 0.0013286 494.2789570965616 55.039 0.34742 55.827 55.686 56.034 0.78711 -0.085724 -0.0003062 NaN 70.332 61 23 3 NaN NaN NaN NaN 0 NaN NaN 0 1551000 17688 5911 11318 11346 0.04987242074309961 LPFPKLTWALR 11 Unmodified _LPFPKLTWALR_ 0 0 0 ENST00000568684.1_1_16:69959085-69959145:+|nuORF ENST00000568684.1_1_16:69959085-69959145:+|nuORF ENST00000568684.1_1_16:69959085-69959145:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 671.4052734375 2 671.405715 1340.79688 NaN NaN NaN NaN NaN NaN NaN 80.572 1 80.822 80.322 81.322 0.24947 0 0 0 1.0055 1 37097 37097 3.5965 0 1 17689 9069 11319 11347 20275 20275 0.14011094524585133 LPFPLLEV 8 Unmodified _LPFPLLEV_ 0 0 0 nc|ENSG00000148204|Q5IJ48-3|CRB2;ENSG00000148204|ENST00000373631|CRB2 nc|ENSG00000148204|Q5IJ48-3|CRB2 nc|ENSG00000148204|Q5IJ48-3|CRB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.2820739746094 2 464.281129 926.547705 2.4767 0.0011499 -0.97365 -0.00045205 1.503 0.00069783 464.2805083513745 55.291 0.29486 55.557 55.423 55.718 0.26543 45 18 3 0 0 0 0.7471 1 25243 25243 2.5775 0 1 5440000 17690 3593 11320 11348 20276 20276 0.08149331568040452 LPFPSHVL 8 Unmodified _LPFPSHVL_ 0 0 0 nc|ENSG00000070047|Q9P1Y6-2|PHRF1;nc|ENSG00000070047|Q9P1Y6-3|PHRF1;ENSG00000070047|ENST00000264555|PHRF1 nc|ENSG00000070047|Q9P1Y6-2|PHRF1 nc|ENSG00000070047|Q9P1Y6-2|PHRF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 455.2647705078125 2 455.263271 908.511988 NaN NaN NaN NaN NaN NaN NaN 63.099 1 63.348 62.848 63.848 0.24965 0 0 0 0.38365 1 28897 28897 32.117 12.678 1 17691 758 11321 11349 20277 20277 0.054072941110462125 LPFPSNITL 9 Unmodified _LPFPSNITL_ 0 0 0 nc|ENSG00000129566|Q99973-2|TEP1;ENSG00000129566|ENST00000262715|TEP1 nc|ENSG00000129566|Q99973-2|TEP1 nc|ENSG00000129566|Q99973-2|TEP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.2889709472656 2 501.286943 1000.55933 3.2343 0.0016213 -0.27228 -0.00013649 2.962 0.0014848 501.28677658591874 61.37 0.27344 61.622 61.423 61.696 0.25245 28 13 3 0 0 0 0.10837 1 28136 28136 30.637 5.2372 1 807110 17692 2555 11322 11350 20278 20278 0.059075285913763764 LPFRRKRRFL 10 Unmodified _LPFRRKRRFL_ 0 0 0 chr4:22714150-22727566|337|12.21|0.57|4.42|+|1|GBA3,None|1 chr4:22714150-22727566|337|12.21|0.57|4.42|+|1|GBA3,None|1 chr4:22714150-22727566|337|12.21|0.57|4.42|+|1|GBA3,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 694.9387817382812 2 694.941122 1387.86769 NaN NaN NaN NaN NaN NaN NaN 65.616 1 65.864 65.364 66.364 0.24848 0 0 0 1.0015 1 30060 30060 0.45834 0.057624 1 17693 174 11323 11351 20279 20279 0.18927232352780266 LPFSCTKEEL 10 Carbamidomethyl (C) _LPFSC(Carbamidomethyl (C))TKEEL_ LPFSC(1)TKEEL LPFSC(86)TKEEL 0 1 0 nc|ENSG00000075856|Q15020-4|SART3;ENSG00000075856|ENST00000546815|SART3 nc|ENSG00000075856|Q15020-4|SART3 nc|ENSG00000075856|Q15020-4|SART3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 612.3052978515625 2 612.302464 1222.59037 NaN NaN NaN NaN NaN NaN NaN 49.877 1 50.534 50.034 51.034 0.65735 0 0 0 0.14656 1 22814 22814 85.764 43.925 1 17694 838 11324 11352 20280 20280 14 -0.012016861566962689 LPFSLQVFLRD 11 Unmodified _LPFSLQVFLRD_ 0 0 0 ENSG00000171017|ENST00000306708|LRRC8E ENSG00000171017|ENST00000306708|LRRC8E ENSG00000171017|ENST00000306708|LRRC8E MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 667.8799438476562 2 667.876988 1333.73942 NaN NaN NaN NaN NaN NaN NaN 90.233 1 90.905 90.405 91.405 0.67271 0 0 0 1.0059 1 41533 41533 2.9952 1.151 1 17695 4783 11325 11353 20281 20281 0.0859020752836841 LPFVKTCMNQE 11 Unmodified _LPFVKTCMNQE_ 0 0 0 L1MA9_dup7974|chr8:78957327-78958463:+|1.1853824479748034|0.4592876219400165|1.37|540.0|30|2|sense L1MA9_dup7974|chr8:78957327-78958463:+|1.1853824479748034|0.4592876219400165|1.37|540.0|30|2|sense L1MA9_dup7974|chr8:78957327-78958463:+|1.1853824479748034|0.4592876219400165|1.37|540.0|30|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 655.2791748046875 2 655.317591 1308.62063 NaN NaN NaN NaN NaN NaN NaN 69.278 1 69.278 68.778 69.778 0 0 0 0 1.0034 1 33438 33438 6.2058 1.8765 1 17696 9433 11326 11354 20282 20282 -0.021336507631531276 LPFVVLDILC 10 Unmodified _LPFVVLDILC_ 0 0 0 ENSG00000138135|ENST00000371852|CH25H ENSG00000138135|ENST00000371852|CH25H ENSG00000138135|ENST00000371852|CH25H MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.7755126953125 2 566.327753 1130.64095 NaN NaN NaN NaN NaN NaN NaN 91.603 1 91.603 91.103 92.103 0 0 0 0 0.98866 1 48440 48440 7.2892 1.5574 1 17697 3075 11327 11355 20283 20283 0.08085887958964122 LPFWFWFQTFV 11 Unmodified _LPFWFWFQTFV_ 0 0 0 REV__nc|ENSG00000173692|Q99460-2|PSMD1 REV__nc|ENSG00000173692|Q99460-2|PSMD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 759.3836669921875 2 759.384448 1516.75434 NaN NaN NaN NaN NaN NaN NaN 73.303 1 73.967 73.467 74.467 0.66398 0 0 0 1.008 1 33682 33682 0.35063 0.043601 1 + 17698 13608 11328 11356 20284 20284 0.016636993963402347 LPFYYIMP 8 Unmodified _LPFYYIMP_ 0 0 0 REV__ENSG00000109182|ENST00000226432|CWH43 REV__ENSG00000109182|ENST00000226432|CWH43 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.770263671875 2 522.267164 1042.51978 3.2444 0.0016945 -0.016102 -8.4093E-06 3.2283 0.001686 522.2673896302216 26.475 0.34452 27.1 26.959 27.303 0.62505 32 21 2 0 0 0 0.63544 1 12198 12198 11.114 1.0405 1 297120 + 17699 11166 11329 11357 20285 20285 0.000216853163237829 LPGALGLVL 9 Unmodified _LPGALGLVL_ 0 0 0 REV__ENST00000409580.5_1_2:189157859-189158947:+|nuORF REV__ENST00000409580.5_1_2:189157859-189158947:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 852.560302734375 1 852.555316 851.54804 4.089 0.0034861 0.44869 0.00038253 4.5377 0.0038687 852.5556405857376 85.158 0.28015 85.824 85.68 85.96 0.66566 19 12 2 0 0 0 0.029407 1 39248 39248 56.048 0 1 1259100 + 17700 16100 11330 11358 20286 20286 0.11632751287891097 LPGALGLVL 9 Unmodified _LPGALGLVL_ 0 0 0 REV__ENST00000409580.5_1_2:189157859-189158947:+|nuORF REV__ENST00000409580.5_1_2:189157859-189158947:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 852.555316 851.54804 3.9969 0.0034076 -0.61849 -0.0005273 3.3784 0.0028803 852.5544524424696 85.749 0.20454 85.998 85.861 86.066 0.24857 0.086982 -0.0007973 NaN 56.048 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 956390 + 17701 16100 11330 11358 0.11632751287891097 LPGALGLVL 9 Unmodified _LPGALGLVL_ 0 0 0 REV__ENST00000409580.5_1_2:189157859-189158947:+|nuORF REV__ENST00000409580.5_1_2:189157859-189158947:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 852.555316 851.54804 4.089 0.0034861 0.44869 0.00038253 4.5377 0.0038687 852.5556405857376 85.158 0.28015 85.824 85.68 85.96 0.66566 -0.086982 0.00011253 NaN 56.048 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 1259100 + 17702 16100 11330 11358 0.11632751287891097 LPGDFREVL 9 Unmodified _LPGDFREVL_ 0 0 0 ENST00000466102.1_1_7:98248987-98249296:+|nuORF;ENSG00000106236|ENST00000265634|NPTX2 ENST00000466102.1_1_7:98248987-98249296:+|nuORF ENST00000466102.1_1_7:98248987-98249296:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.2886962890625 2 523.287474 1044.5604 3.2248 0.0016875 -0.42301 -0.00022135 2.8018 0.0014662 523.2872319091292 63.068 0.37287 63.317 63.149 63.521 0.24965 55 21 3 0 0 0 0.028592 3 28885 28841;28885;28936 70.332 70.332 1 3598300 17703 1557 11331 11359 20287;20288;20289 20288 0.039897429602888224 LPGDFREVL 9 Unmodified _LPGDFREVL_ 0 0 0 ENST00000466102.1_1_7:98248987-98249296:+|nuORF;ENSG00000106236|ENST00000265634|NPTX2 ENST00000466102.1_1_7:98248987-98249296:+|nuORF ENST00000466102.1_1_7:98248987-98249296:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.2887573242188 2 523.287474 1044.5604 3.1333 0.0016396 -0.24634 -0.00012891 2.8869 0.0015107 523.2873786846452 62.491 0.43068 63.151 62.953 63.384 0.66008 64 27 3 0 0 0 0.044031 3 28683 28584;28635;28683 53.404 53.404 1 3110900 17704 1557 11331 11359 20290;20291;20292 20292 0.039897429602888224 LPGDFREVL 9 Unmodified _LPGDFREVL_ 0 0 0 ENST00000466102.1_1_7:98248987-98249296:+|nuORF;ENSG00000106236|ENST00000265634|NPTX2 ENST00000466102.1_1_7:98248987-98249296:+|nuORF ENST00000466102.1_1_7:98248987-98249296:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 523.287474 1044.5604 2.7566 0.0014425 0.47782 0.00025004 3.2345 0.0016925 523.7888109419603 63.251 0.036949 63.251 63.232 63.269 0 0.011259 0.0008409 NaN 70.332 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 2345500 17705 1557 11331 11359 0.039897429602888224 LPGDYHSD 8 Unmodified _LPGDYHSD_ 0 0 0 REV__ENST00000434401.1_1_20:43593503-43593560:-|nuORF REV__ENST00000434401.1_1_20:43593503-43593560:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 452.19659423828125 2 452.195782 902.377011 NaN NaN NaN NaN NaN NaN NaN 27.757 1 28.376 27.876 28.876 0.61947 0 0 0 0.94507 1 12725 12725 9.3474 0 1 + 17706 16291 11332 11360 20293 20293 -0.07808230821376583 LPGEDHIL 8 Unmodified _LPGEDHIL_ 0 0 0 ENSG00000177666|ENST00000336615|PNPLA2 ENSG00000177666|ENST00000336615|PNPLA2 ENSG00000177666|ENST00000336615|PNPLA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 447.2412414550781 2 447.239993 892.465432 2.7079 0.0012111 0.25253 0.00011294 2.9604 0.001324 447.24011172797776 46.111 0.3539 46.111 45.953 46.307 0 43 18 3 0 0 0 0.013019 1 21106 21106 93.883 50.915 1 4081100 17707 5130 11333 11361 20294 20294 0.01489809489100935 LPGEDHIL 8 Unmodified _LPGEDHIL_ 0 0 0 ENSG00000177666|ENST00000336615|PNPLA2 ENSG00000177666|ENST00000336615|PNPLA2 ENSG00000177666|ENST00000336615|PNPLA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 447.2413024902344 2 447.239993 892.465432 2.715 0.0012143 -0.17596 -7.8696E-05 2.5391 0.0011356 447.23988654658984 45.086 0.40417 45.912 45.689 46.093 0.82621 54 21 3 0 0 0 0.013019 2 20543 20496;20543 93.883 50.915 1 2982900 17708 5130 11333 11361 20295;20296 20296 0.01489809489100935 LPGEDHIL 8 Unmodified _LPGEDHIL_ 0 0 0 ENSG00000177666|ENST00000336615|PNPLA2 ENSG00000177666|ENST00000336615|PNPLA2 ENSG00000177666|ENST00000336615|PNPLA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 447.2413635253906 2 447.239993 892.465432 2.8114 0.0012574 0.15204 6.7998E-05 2.9634 0.0013254 447.24004062787736 45.86 0.41747 46.125 45.927 46.345 0.26561 37 16 3 0 0 0 0.013019 2 20941 20941;20996 93.883 50.915 1 4550900 17709 5130 11333 11361 20297;20298 20297 0.01489809489100935 LPGEDHIL 8 Unmodified _LPGEDHIL_ 0 0 0 ENSG00000177666|ENST00000336615|PNPLA2 ENSG00000177666|ENST00000336615|PNPLA2 ENSG00000177666|ENST00000336615|PNPLA2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 447.239993 892.465432 3.3286 0.0014887 -0.10631 -4.7545E-05 3.2223 0.0014412 447.2399537581 45.213 0.42831 45.864 45.691 46.119 0.65104 -0.13911 -0.00013794 NaN 93.883 44 17 4 NaN NaN NaN NaN 0 NaN NaN 0 3970900 17710 5130 11333 11361 0.01489809489100935 LPGEEEPGL 9 Unmodified _LPGEEEPGL_ 0 0 0 ENST00000265022.7_1_3:186038469-186079749:-|nuORF ENST00000265022.7_1_3:186038469-186079749:-|nuORF ENST00000265022.7_1_3:186038469-186079749:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.7346496582031 2 470.73474 939.454927 NaN NaN NaN NaN NaN NaN NaN 49.329 1 49.59 49.09 50.09 0.26146 0 0 0 0.26328 1 22550 22550 28.487 1.6032 1 17711 6616 11334 11362 20299 20299 -0.01722217955978067 LPGEIINL 8 Unmodified _LPGEIINL_ 0 0 0 REV__ENSG00000116984|ENST00000366577|MTR REV__ENSG00000116984|ENST00000366577|MTR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 868.5178833007812 1 868.513845 867.506569 3.7378 0.0032463 0.68349 0.00059362 4.4212 0.0038399 868.5143715904031 78.745 0.36612 78.996 78.754 79.12 0.25127 33 24 2 0 0 0 0.18676 2 36241 36241;36295 44.407 2.3125 1 426750 + 17712 11426 11335 11363 20300;20301 20300 0.06751570528570028 LPGGGDCG 8 Unmodified _LPGGGDCG_ 0 0 0 ENSG00000128655|ENST00000286063|PDE11A ENSG00000128655|ENST00000286063|PDE11A ENSG00000128655|ENST00000286063|PDE11A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.1426086425781 2 338.141964 674.269375 2.2427 0.00075836 -0.29096 -9.8386E-05 1.9518 0.00065997 338.1419118166029 78.195 0.92419 78.857 78.334 79.259 0.66198 86 57 2 0 0 0 0.7471 1 36040 36040 0.69038 0.69038 1 490810 17713 2522 11336 11364 20302 20302 -0.08078898956443936 LPGGSTDIVI 10 Unmodified _LPGGSTDIVI_ 0 0 0 REV__nc|ENSG00000141401|O14732-2|IMPA2 REV__nc|ENSG00000141401|O14732-2|IMPA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 486.2743835449219 2 486.274032 970.533512 3.247 0.0015789 -0.063863 -3.1055E-05 3.1831 0.0015479 486.2737521570508 36.983 0.36656 36.983 36.801 37.168 0 25 14 2 0 0 0 0.13117 1 16777 16777 48.346 0 1 351270 + 17714 12284 11337 11365 20303 20303 0.0470663434908829 LPGGSTDIVI 10 Unmodified _LPGGSTDIVI_ 0 0 0 REV__nc|ENSG00000141401|O14732-2|IMPA2 REV__nc|ENSG00000141401|O14732-2|IMPA2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 486.274032 970.533512 3.247 0.0015789 -0.063863 -3.1055E-05 3.1831 0.0015479 486.2737521570508 36.983 0.36656 36.983 36.801 37.168 0 0.12877 -6.3782E-05 NaN 48.346 25 14 2 NaN NaN NaN NaN 0 NaN NaN 0 351270 + 17715 12284 11337 11365 0.0470663434908829 LPGGSTDIVI 10 Unmodified _LPGGSTDIVI_ 0 0 0 REV__nc|ENSG00000141401|O14732-2|IMPA2 REV__nc|ENSG00000141401|O14732-2|IMPA2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 486.274032 970.533512 3.2625 0.0015865 0.15171 7.3774E-05 3.4142 0.0016602 486.27378116987285 35.935 0.34065 36.726 36.637 36.978 0.79131 -0.12877 0.00014588 NaN 48.346 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 356830 + 17716 12284 11337 11365 0.0470663434908829 LPGLDPVL 8 Unmodified _LPGLDPVL_ 0 0 0 nc|ENSG00000167397|Q9BQB6-3|VKORC1;nc|ENSG00000167397|Q9BQB6-2|VKORC1 nc|ENSG00000167397|Q9BQB6-3|VKORC1 nc|ENSG00000167397|Q9BQB6-3|VKORC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 823.4957885742188 1 823.492381 822.485105 3.6794 0.00303 1.1154 0.00091849 4.7948 0.0039485 823.4934233968842 79.379 0.33845 79.631 79.479 79.817 0.25127 24 18 2 0 0 0 0.045989 1 36546 36546 67.035 17.366 1 494210 17717 9736 11338 11366 20304 20304 0.06676185499861731 LPGLDPVL 8 Unmodified _LPGLDPVL_ 0 0 0 nc|ENSG00000167397|Q9BQB6-3|VKORC1;nc|ENSG00000167397|Q9BQB6-2|VKORC1 nc|ENSG00000167397|Q9BQB6-3|VKORC1 nc|ENSG00000167397|Q9BQB6-3|VKORC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 823.4963989257812 1 823.492381 822.485105 3.9431 0.0032471 0.27152 0.00022359 4.2146 0.0034707 823.4927054085125 78.815 0.33901 79.477 79.322 79.661 0.66198 41 22 2 0 0 0 0.029506 2 36300 36300;36346 78.445 18.65 1 608530 17718 9736 11338 11366 20305;20306 20305 0.06676185499861731 LPGLEQVL 8 Unmodified _LPGLEQVL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF;nc|ENSG00000173821|Q63HN8-5|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.76165771484375 2 434.760561 867.506569 2.7207 0.0011829 0.7755 0.00033716 3.4962 0.00152 434.76077599443755 78.742 0.47179 78.993 78.678 79.15 0.25127 47 31 2 0 0 0 0.52517 1 36270 36270 19.439 1.304 1 345570 17719 4953 11339 11367 20307 20307 0.06751570528570028 LPGLEQVL 8 Unmodified _LPGLEQVL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF;nc|ENSG00000173821|Q63HN8-5|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7617492675781 2 434.760561 867.506569 2.9719 0.001292 0.079861 3.472E-05 3.0517 0.0013268 434.7604833174925 78.247 0.44308 78.909 78.589 79.032 0.66197 29 25 2 0 0 0 0.47217 1 36093 36093 23.148 1.4018 1 395910 17720 4953 11339 11367 20308 20308 0.06751570528570028 LPGLKQRRGP 10 Unmodified _LPGLKQRRGP_ 0 0 0 ENST00000515156.2_1_5:68927792-68932223:+|nuORF ENST00000515156.2_1_5:68927792-68932223:+|nuORF ENST00000515156.2_1_5:68927792-68932223:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.3499755859375 2 561.348732 1120.68291 NaN NaN NaN NaN NaN NaN NaN 70.721 1 70.977 70.477 71.477 0.25642 0 0 0 1.0003 1 32388 32388 1.4819 0.95714 1 17721 8592 11340 11368 20309 20309 0.1273962448237853 LPGRWAKKQYG 11 Unmodified _LPGRWAKKQYG_ 0 0 0 REV__Harlequin-int_dup204|chr5:139526721-139527362:+|3.47385935140097|0.1073174503437065|5.02|522.0|24|3|sense REV__Harlequin-int_dup204|chr5:139526721-139527362:+|3.47385935140097|0.1073174503437065|5.02|522.0|24|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 652.3675537109375 2 652.367121 1302.71969 NaN NaN NaN NaN NaN NaN NaN 59.094 1 59.761 59.261 60.261 0.66703 0 0 0 1.0057 1 27053 27053 3.2813 0 1 + 17722 17704 11341 11369 20310 20310 0.08043876308261133 LPGSSRAPL 9 Unmodified _LPGSSRAPL_ 0 0 0 ENST00000379789.8_1_10:6275597-6275735:+|nuORF ENST00000379789.8_1_10:6275597-6275735:+|nuORF ENST00000379789.8_1_10:6275597-6275735:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 449.2633972167969 2 449.261259 896.507966 2.8849 0.0012961 0.55306 0.00024847 3.438 0.0015446 449.2613479454045 30.473 0.22522 31.262 31.13 31.355 0.78921 26 17 2 0 0 0 0.5141 1 13740 13740 12.241 1.4167 1 180330 17723 7455 11342 11370 20311 20311 0.055572046173210765 LPGSSRAPL 9 Unmodified _LPGSSRAPL_ 0 0 0 ENST00000379789.8_1_10:6275597-6275735:+|nuORF ENST00000379789.8_1_10:6275597-6275735:+|nuORF ENST00000379789.8_1_10:6275597-6275735:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 449.2626647949219 2 449.261259 896.507966 3.3306 0.0014963 -0.41724 -0.00018745 2.9133 0.0013088 449.26110554930955 31.076 0.24571 31.332 31.225 31.471 0.25614 34 18 2 0 0 0 0.5141 1 14112 14112 12.241 0.60036 1 553350 17724 7455 11342 11370 20312 20312 0.055572046173210765 LPGSSRAPL 9 Unmodified _LPGSSRAPL_ 0 0 0 ENST00000379789.8_1_10:6275597-6275735:+|nuORF ENST00000379789.8_1_10:6275597-6275735:+|nuORF ENST00000379789.8_1_10:6275597-6275735:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 449.2619934082031 2 449.261259 896.507966 3.1072 0.001396 0.22655 0.00010178 3.3338 0.0014977 449.2613442607414 30.631 0.26086 31.248 31.13 31.391 0.61737 23 15 2 0 0 0 0.29523 2 14034 14034;14083 17.113 1.2657 1 522740 17725 7455 11342 11370 20313;20314 20313 0.055572046173210765 LPGSSRAPL 9 Unmodified _LPGSSRAPL_ 0 0 0 ENST00000379789.8_1_10:6275597-6275735:+|nuORF ENST00000379789.8_1_10:6275597-6275735:+|nuORF ENST00000379789.8_1_10:6275597-6275735:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 449.261259 896.507966 2.8849 0.0012961 0.55306 0.00024847 3.438 0.0015446 449.2613479454045 30.473 0.22522 31.262 31.13 31.355 0.78921 -0.018594 0.00046568 NaN 17.113 26 17 2 NaN NaN NaN NaN 0 NaN NaN 0 180330 17726 7455 11342 11370 0.055572046173210765 LPGTEYVV 8 Unmodified _LPGTEYVV_ 0 0 0 ENSG00000115414|ENST00000354785|FN1;nc|ENSG00000115414|P02751-7|FN1;nc|ENSG00000115414|P02751-1|FN1;nc|ENSG00000115414|P02751-4|FN1;nc|ENSG00000115414|P02751-3|FN1;nc|ENSG00000115414|P02751-6|FN1;nc|ENSG00000115414|P02751-5|FN1;nc|ENSG00000115414|P02751-17|FN1;nc|ENSG00000115414|P02751-13|FN1;nc|ENSG00000115414|P02751-8|FN1;nc|ENSG00000115414|P02751-9|FN1;nc|ENSG00000115414|P02751-14|FN1;nc|ENSG00000115414|P02751-10|FN1;ENST00000492816.6_1_2:216249553-216256565:-|nuORF;ENST00000424349.1_1_3:14984935-14985094:-|nuORF ENSG00000115414|ENST00000354785|FN1 ENSG00000115414|ENST00000354785|FN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 877.468505859375 1 877.466561 876.459284 3.8652 0.0033915 0.033576 2.9462E-05 3.8987 0.003421 877.4661999231573 57.13 0.19639 57.395 57.311 57.508 0.26444 14 12 2 0 0 0 0.016327 3 26158 26158;26171;26196 90.836 47.868 1 733030 17727 1968 11343 11371 20315;20316;20317 20315 0.01611291257574976 LPGTEYVV 8 Unmodified _LPGTEYVV_ 0 0 0 ENSG00000115414|ENST00000354785|FN1;nc|ENSG00000115414|P02751-7|FN1;nc|ENSG00000115414|P02751-1|FN1;nc|ENSG00000115414|P02751-4|FN1;nc|ENSG00000115414|P02751-3|FN1;nc|ENSG00000115414|P02751-6|FN1;nc|ENSG00000115414|P02751-5|FN1;nc|ENSG00000115414|P02751-17|FN1;nc|ENSG00000115414|P02751-13|FN1;nc|ENSG00000115414|P02751-8|FN1;nc|ENSG00000115414|P02751-9|FN1;nc|ENSG00000115414|P02751-14|FN1;nc|ENSG00000115414|P02751-10|FN1;ENST00000492816.6_1_2:216249553-216256565:-|nuORF;ENST00000424349.1_1_3:14984935-14985094:-|nuORF ENSG00000115414|ENST00000354785|FN1 ENSG00000115414|ENST00000354785|FN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 877.4714965820312 1 877.466561 876.459284 4.0023 0.0035119 -0.66597 -0.00058437 3.3363 0.0029275 877.4660489600357 56.569 0.24106 57.237 57.127 57.368 0.66829 15 11 2 0 0 0 0.016327 1 25889 25889 90.836 47.868 1 569580 17728 1968 11343 11371 20318 20318 0.01611291257574976 LPHETVLAYFN 11 Unmodified _LPHETVLAYFN_ 0 0 0 REV__nc|ENSG00000290894|Q96TA0|PCDHB18P REV__nc|ENSG00000290894|Q96TA0|PCDHB18P MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.2291564941406 3 435.227556 1302.66084 3.1683 0.0013789 0.40262 0.00017523 3.5709 0.0015541 435.22771860545157 13.507 0.13163 14.156 14.058 14.189 0.6482 12 8 2 0 0 0 0.91137 1 6058 6058 1.1098 0.33322 1 83862 + 17729 18175 11344 11372 20319 20319 0.02161355223256578 LPHHRVIEV 9 Unmodified _LPHHRVIEV_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2;ENST00000572932.1_1_16:16374097-16382502:+|nuORF ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 367.2182312011719 3 367.217214 1098.62981 2.8184 0.001035 -0.23254 -8.5393E-05 2.5859 0.00094958 367.2171414279705 19.972 0.36754 19.972 19.775 20.142 0 99 31 5 0 0 0 0.010904 2 8928 8883;8928 80.676 50.41 1 7386100 17730 1384 11345 11373 20320;20321 20321 0.08444246699696123 LPHHRVIEV 9 Unmodified _LPHHRVIEV_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2;ENST00000572932.1_1_16:16374097-16382502:+|nuORF ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.3242797851562 2 550.322183 1098.62981 3.7089 0.0020411 -0.15103 -8.3117E-05 3.5579 0.001958 550.3221468867783 19.992 0.26157 19.992 19.829 20.09 0 48 22 3 0 0 0 0.025529 2 8932 8890;8932 66.457 35.188 1 1112200 17731 1384 11345 11373 20322;20323 20323 0.08444246699696123 LPHHRVIEV 9 Unmodified _LPHHRVIEV_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2;ENST00000572932.1_1_16:16374097-16382502:+|nuORF ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 367.2181396484375 3 367.217214 1098.62981 2.4895 0.00091417 0.31331 0.00011505 2.8028 0.0010292 367.21735489319803 19.423 0.44818 19.721 19.484 19.932 0.29753 125 43 4 0 0 0 0.020338 3 8863 8774;8820;8863 67.838 45.059 1 24668000 17732 1384 11345 11373 20324;20325;20326 20326 0.08444246699696123 LPHHRVIEV 9 Unmodified _LPHHRVIEV_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2;ENST00000572932.1_1_16:16374097-16382502:+|nuORF ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.3240966796875 2 550.322183 1098.62981 3.3847 0.0018627 0.61326 0.00033749 3.998 0.0022002 550.322392245549 19.425 0.26324 19.723 19.574 19.838 0.29753 58 24 3 0 0 0 0.0053299 3 8825 8780;8825;8870 99.755 63.628 1 3848200 17733 1384 11345 11373 20327;20328;20329 20328 0.08444246699696123 LPHHRVIEV 9 Unmodified _LPHHRVIEV_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2;ENST00000572932.1_1_16:16374097-16382502:+|nuORF ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 367.2183837890625 3 367.217214 1098.62981 2.7209 0.00099916 0.00023976 8.8044E-08 2.7211 0.00099925 367.2172189004889 19.059 0.51116 19.717 19.423 19.934 0.65829 134 40 5 0 0 0 0.015631 3 8619 8570;8619;8663 74.2 45.74 1 20486000 17734 1384 11345 11373 20330;20331;20332 20331 0.08444246699696123 LPHHRVIEV 9 Unmodified _LPHHRVIEV_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2;ENST00000572932.1_1_16:16374097-16382502:+|nuORF ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.3241577148438 2 550.322183 1098.62981 3.6507 0.0020091 0.12409 6.829E-05 3.7748 0.0020773 550.3222174030685 19.055 0.35653 19.714 19.501 19.858 0.65829 73 30 3 0 0 0 0.0014285 3 8635 8585;8635;8685 122.18 122.18 1 4057800 17735 1384 11345 11373 20333;20334;20335 20334 0.08444246699696123 LPHHRVIEV 9 Unmodified _LPHHRVIEV_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2;ENST00000572932.1_1_16:16374097-16382502:+|nuORF ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 367.217214 1098.62981 2.739 0.0010058 -0.24087 -8.8453E-05 2.4981 0.00091734 367.21709598160356 19.281 0.11393 19.939 19.872 19.986 0.6583 0.061796 -0.00024705 NaN 80.676 9 7 2 NaN NaN NaN NaN 0 NaN NaN 0 126750 17736 1384 11345 11373 0.08444246699696123 LPHIMLKM 8 Unmodified _LPHIMLKM_ 0 0 0 REV__UBR3|p.G1350Afs*47|1|0.06|ENSG00000144357|chr2:170007007-170007007|G/-|frameshift_variant REV__UBR3|p.G1350Afs*47|1|0.06|ENSG00000144357|chr2:170007007-170007007|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7847595214844 2 491.782459 981.550365 2.9999 0.0014753 0.69435 0.00034147 3.6943 0.0018168 491.7828755567567 19.42 0.21315 19.717 19.595 19.808 0.29753 30 18 2 0 0 0 0.52517 1 8804 8804 19.439 6.9074 1 892070 + 17737 12399 11346 11374 20336 20336 0.05885140429688818 LPHIMLKM 8 Unmodified _LPHIMLKM_ 0 0 0 REV__UBR3|p.G1350Afs*47|1|0.06|ENSG00000144357|chr2:170007007-170007007|G/-|frameshift_variant REV__UBR3|p.G1350Afs*47|1|0.06|ENSG00000144357|chr2:170007007-170007007|G/-|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 491.782459 981.550365 2.9999 0.0014753 0.69435 0.00034147 3.6943 0.0018168 491.7828755567567 19.42 0.21315 19.717 19.595 19.808 0.29753 -0.0048863 0.00028552 NaN 19.439 30 18 2 NaN NaN NaN NaN 0 NaN NaN 0 892070 + 17738 12399 11346 11374 0.05885140429688818 LPHIMLKM 8 Unmodified _LPHIMLKM_ 0 0 0 REV__UBR3|p.G1350Afs*47|1|0.06|ENSG00000144357|chr2:170007007-170007007|G/-|frameshift_variant REV__UBR3|p.G1350Afs*47|1|0.06|ENSG00000144357|chr2:170007007-170007007|G/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 491.782459 981.550365 3.3278 0.0016365 0.012435 6.1153E-06 3.3402 0.0016426 491.78273792268476 19.069 0.21626 19.727 19.587 19.803 0.65829 0.0048863 -0.00038519 NaN 19.439 24 18 2 NaN NaN NaN NaN 0 NaN NaN 0 788400 + 17739 12399 11346 11374 0.05885140429688818 LPHLGNLGT 9 Unmodified _LPHLGNLGT_ 0 0 0 ENST00000369846.8_2_6:80246944-80247061:-|nuORF ENST00000369846.8_2_6:80246944-80247061:-|nuORF ENST00000369846.8_2_6:80246944-80247061:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 307.8441467285156 3 307.843265 920.507966 2.0142 0.00062007 0.38889 0.00011972 2.4031 0.00073979 307.84342855894226 16.818 0.92547 17.123 16.49 17.415 0.30438 135 90 2 0 0 0 1.0755 1 7682 7682 2.7352 0 1 125210 17740 7295 11347 11375 20337 20337 0.044532046173458184 LPHLGNLGT 9 Unmodified _LPHLGNLGT_ 0 0 0 ENST00000369846.8_2_6:80246944-80247061:-|nuORF ENST00000369846.8_2_6:80246944-80247061:-|nuORF ENST00000369846.8_2_6:80246944-80247061:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 307.84417724609375 3 307.843265 920.507966 2.1545 0.00066325 0.80088 0.00024654 2.9554 0.00090979 307.84356803473105 16.812 0.53368 17.473 17.235 17.769 0.66072 85 48 2 0 0 0 1.178 1 7503 7503 1.0715 0 1 140180 17741 7295 11347 11375 20338 20338 0.044532046173458184 LPHLRLLQKWR 11 Unmodified _LPHLRLLQKWR_ 0 0 0 ENST00000500626.2_1_1:155587203-155618289:-|nuORF ENST00000500626.2_1_1:155587203-155618289:-|nuORF ENST00000500626.2_1_1:155587203-155618289:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 730.4529418945312 2 730.454062 1458.89357 NaN NaN NaN NaN NaN NaN NaN 58.274 1 58.274 57.774 58.774 0 0 0 0 1.008 1 26886 26886 0.35063 0 1 17742 8474 11348 11376 20339 20339 0.182480818043814 LPHNRLVSL 9 Unmodified _LPHNRLVSL_ 0 0 0 ENSG00000163428|ENST00000295628|LRRC58 ENSG00000163428|ENST00000295628|LRRC58 ENSG00000163428|ENST00000295628|LRRC58 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.21533203125 3 350.213581 1047.61891 2.3759 0.00083208 0.98365 0.00034449 3.3596 0.0011766 350.21420139610865 38.319 0.25278 38.583 38.437 38.69 0.26408 18 7 4 0 0 0 0.086415 1 17461 17461 33.445 16.002 1 1061900 17743 4206 11349 11377 20340 20340 0.09700844325402613 LPHNRLVSL 9 Unmodified _LPHNRLVSL_ 0 0 0 ENSG00000163428|ENST00000295628|LRRC58 ENSG00000163428|ENST00000295628|LRRC58 ENSG00000163428|ENST00000295628|LRRC58 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.2149658203125 3 350.213581 1047.61891 2.3336 0.00081727 1.5665 0.0005486 3.9001 0.0013659 350.2143192152025 37.709 0.40932 38.343 38.118 38.528 0.63389 28 13 3 0 0 0 0.10837 1 17248 17248 28.495 8.8686 1 547230 17744 4206 11349 11377 20341 20341 0.09700844325402613 LPHNRLVSL 9 Unmodified _LPHNRLVSL_ 0 0 0 ENSG00000163428|ENST00000295628|LRRC58 ENSG00000163428|ENST00000295628|LRRC58 ENSG00000163428|ENST00000295628|LRRC58 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.8187255859375 2 524.816733 1047.61891 3.2072 0.0016832 0.30265 0.00015883 3.5098 0.001842 524.816748021323 37.719 0.31532 38.353 38.151 38.466 0.63388 19 10 2 0 0 0 0.099775 1 17270 17270 32.786 13.529 1 425460 17745 4206 11349 11377 20342 20342 0.09700844325402613 LPHNRLVSL 9 Unmodified _LPHNRLVSL_ 0 0 0 ENSG00000163428|ENST00000295628|LRRC58 ENSG00000163428|ENST00000295628|LRRC58 ENSG00000163428|ENST00000295628|LRRC58 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 350.213581 1047.61891 2.5372 0.00088854 0.085127 2.9813E-05 2.6223 0.00091836 350.21388576577056 38.576 0.20543 38.576 38.447 38.653 0 0.074955 -0.00089631 NaN 33.445 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 213540 17746 4206 11349 11377 0.09700844325402613 LPHNRLVSL 9 Unmodified _LPHNRLVSL_ 0 0 0 ENSG00000163428|ENST00000295628|LRRC58 ENSG00000163428|ENST00000295628|LRRC58 ENSG00000163428|ENST00000295628|LRRC58 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 524.816733 1047.61891 3.1865 0.0016723 0.74936 0.00039328 3.9359 0.0020656 524.8170267417415 38.332 0.21939 38.596 38.471 38.69 0.26408 0.12157 0.00030165 NaN 32.786 11 6 2 NaN NaN NaN NaN 0 NaN NaN 0 499550 17747 4206 11349 11377 0.09700844325402613 LPHSATVTL 9 Unmodified _LPHSATVTL_ 0 0 0 nc|ENSG00000054611|Q8WUA7-3|TBC1D22A;nc|ENSG00000054611|Q8WUA7-4|TBC1D22A;ENSG00000054611|ENST00000337137|TBC1D22A nc|ENSG00000054611|Q8WUA7-3|TBC1D22A nc|ENSG00000054611|Q8WUA7-3|TBC1D22A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.7708740234375 2 469.768917 937.523281 2.8294 0.0013292 0.90814 0.00042662 3.7376 0.0017558 469.7693977172157 41.019 0.23539 41.019 40.879 41.114 0 29 17 2 0 0 0 0.012869 1 18615 18615 77.984 17.595 1 814050 17748 609 11350 11378 20343 20343 0.052020714145328384 LPHSATVTL 9 Unmodified _LPHSATVTL_ 0 0 0 nc|ENSG00000054611|Q8WUA7-3|TBC1D22A;nc|ENSG00000054611|Q8WUA7-4|TBC1D22A;ENSG00000054611|ENST00000337137|TBC1D22A nc|ENSG00000054611|Q8WUA7-3|TBC1D22A nc|ENSG00000054611|Q8WUA7-3|TBC1D22A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 469.770263671875 2 469.768917 937.523281 3.037 0.0014267 0.39373 0.00018496 3.4308 0.0016117 469.76916128356964 40.776 0.20166 41.045 40.947 41.148 0.26904 19 14 2 0 0 0 0.0061269 2 18570 18525;18570 89.427 29.037 1 796520 17749 609 11350 11378 20344;20345 20345 0.052020714145328384 LPHSGEAQL 9 Unmodified _LPHSGEAQL_ 0 0 0 ENSG00000175115|ENST00000320580|PACS1;nc|ENSG00000175115|Q6VY07-2|PACS1 ENSG00000175115|ENST00000320580|PACS1 ENSG00000175115|ENST00000320580|PACS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 476.2497253417969 2 476.248349 950.482145 3.092 0.0014726 -0.11838 -5.638E-05 2.9736 0.0014162 476.24818868190334 26.125 0.2943 26.125 25.966 26.26 0 110 38 4 0 0 0 0.0020408 3 11732 11690;11732;11780 103.75 39.512 1 28614000 17750 5015 11351 11379 20346;20347;20348 20347 0.004923103750343216 LPHSGEAQL 9 Unmodified _LPHSGEAQL_ 0 0 0 ENSG00000175115|ENST00000320580|PACS1;nc|ENSG00000175115|Q6VY07-2|PACS1 ENSG00000175115|ENST00000320580|PACS1 ENSG00000175115|ENST00000320580|PACS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 476.25 2 476.248349 950.482145 2.7683 0.0013184 0.3816 0.00018174 3.1499 0.0015001 476.24851205828037 25.188 0.33811 25.952 25.762 26.1 0.76356 97 31 4 0 0 0 0.010018 3 11293 11246;11293;11337 81.89 24.419 1 17760000 17751 5015 11351 11379 20349;20350;20351 20350 0.004923103750343216 LPHSGEAQL 9 Unmodified _LPHSGEAQL_ 0 0 0 ENSG00000175115|ENST00000320580|PACS1;nc|ENSG00000175115|Q6VY07-2|PACS1 ENSG00000175115|ENST00000320580|PACS1 ENSG00000175115|ENST00000320580|PACS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 476.2498779296875 2 476.248349 950.482145 3.1066 0.0014795 0.107 5.0957E-05 3.2136 0.0015305 476.24840766968083 25.874 0.47336 26.142 25.902 26.375 0.26777 149 46 5 0 0 0 0.0020408 4 11726 11683;11726;11770;11813 103.75 39.512 1 16428000 17752 5015 11351 11379 20352;20353;20354;20355 20353 0.004923103750343216 LPHSGEAQL 9 Unmodified _LPHSGEAQL_ 0 0 0 ENSG00000175115|ENST00000320580|PACS1;nc|ENSG00000175115|Q6VY07-2|PACS1 ENSG00000175115|ENST00000320580|PACS1 ENSG00000175115|ENST00000320580|PACS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 476.2501525878906 2 476.248349 950.482145 2.9902 0.0014241 0.33866 0.00016128 3.3289 0.0015854 476.2485186701661 25.571 0.45062 26.196 25.953 26.403 0.62505 156 52 4 0 0 0 0.0020408 4 11726 11636;11682;11726;11769 103.75 39.512 1 15477000 17753 5015 11351 11379 20356;20357;20358;20359 20358 0.004923103750343216 LPHTDFTL 8 Unmodified _LPHTDFTL_ 0 0 0 ENST00000586932.5_1_19:39109833-39116793:+|nuORF;ENST00000593062.5_1_19:39109833-39121488:+|nuORF;nc|ENSG00000178982|Q9UBQ5-2|EIF3K;ENSG00000178982|ENST00000248342|EIF3K ENST00000586932.5_1_19:39109833-39116793:+|nuORF ENST00000586932.5_1_19:39109833-39116793:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.2494812011719 2 472.247818 942.481082 2.9758 0.0014053 0.096621 4.5629E-05 3.0724 0.0014509 472.24779910981476 57.206 0.38353 57.206 57.003 57.387 0 100 40 3 0 0 0 0.021444 4 26345 26300;26345;26389;26434 86.121 15.406 1 10515000 17754 5191 11352 11380 20360;20361;20362;20363 20361 0.007540960061533042 LPHTDFTL 8 Unmodified _LPHTDFTL_ 0 0 0 ENST00000586932.5_1_19:39109833-39116793:+|nuORF;ENST00000593062.5_1_19:39109833-39121488:+|nuORF;nc|ENSG00000178982|Q9UBQ5-2|EIF3K;ENSG00000178982|ENST00000248342|EIF3K ENST00000586932.5_1_19:39109833-39116793:+|nuORF ENST00000586932.5_1_19:39109833-39116793:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.2492370605469 2 472.247818 942.481082 2.6241 0.0012392 0.031841 1.5037E-05 2.656 0.0012543 472.24777654581044 56.291 0.35398 57.069 56.894 57.248 0.77786 99 35 4 0 0 0 0.010018 3 25726 25681;25726;25770 98.807 16.943 1 9652500 17755 5191 11352 11380 20364;20365;20366 20365 0.007540960061533042 LPHTDFTL 8 Unmodified _LPHTDFTL_ 0 0 0 ENST00000586932.5_1_19:39109833-39116793:+|nuORF;ENST00000593062.5_1_19:39109833-39121488:+|nuORF;nc|ENSG00000178982|Q9UBQ5-2|EIF3K;ENSG00000178982|ENST00000248342|EIF3K ENST00000586932.5_1_19:39109833-39116793:+|nuORF ENST00000586932.5_1_19:39109833-39116793:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.2488708496094 2 472.247818 942.481082 2.88 0.0013601 0.095351 4.5029E-05 2.9753 0.0014051 472.2477670227653 57.057 0.35673 57.321 57.11 57.467 0.26443 48 17 4 0 0 0 0.0093032 2 26145 26091;26145 106.85 36.13 1 20912000 17756 5191 11352 11380 20367;20368 20368 0.007540960061533042 LPHTDFTL 8 Unmodified _LPHTDFTL_ 0 0 0 ENST00000586932.5_1_19:39109833-39116793:+|nuORF;ENST00000593062.5_1_19:39109833-39121488:+|nuORF;nc|ENSG00000178982|Q9UBQ5-2|EIF3K;ENSG00000178982|ENST00000248342|EIF3K ENST00000586932.5_1_19:39109833-39116793:+|nuORF ENST00000586932.5_1_19:39109833-39116793:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.2489013671875 2 472.247818 942.481082 3.0377 0.0014346 -0.15095 -7.1288E-05 2.8868 0.0013633 472.2476676402407 56.409 0.45123 57.077 56.845 57.296 0.66829 80 25 4 0 0 0 0.021444 4 25774 25725;25774;25820;25872 86.121 21.903 1 15218000 17757 5191 11352 11380 20369;20370;20371;20372 20370 0.007540960061533042 LPHYEPIPF 9 Unmodified _LPHYEPIPF_ 0 0 0 ENST00000512981.5_1_4:48833247-48854006:+|nuORF;nc|ENSG00000109180|Q9NX40-3|OCIAD1;nc|ENSG00000109180|Q9NX40-2|OCIAD1;nc|ENSG00000109180|Q9NX40-4|OCIAD1;ENSG00000109180|ENST00000264312|OCIAD1 ENST00000512981.5_1_4:48833247-48854006:+|nuORF ENST00000512981.5_1_4:48833247-48854006:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.7928466796875 2 556.792392 1111.57023 3.7992 0.0021153 -1.2343 -0.00068725 2.5649 0.0014281 556.7915954756154 67.79 0.22894 68.043 67.913 68.142 0.25227 20 14 2 0 0 0 0.11001 1 31081 31081 30.225 7.0764 1 446340 17758 1671 11353 11381 20373 20373 0.018909309656464757 LPHYEPIPF 9 Unmodified _LPHYEPIPF_ 0 0 0 ENST00000512981.5_1_4:48833247-48854006:+|nuORF;nc|ENSG00000109180|Q9NX40-3|OCIAD1;nc|ENSG00000109180|Q9NX40-2|OCIAD1;nc|ENSG00000109180|Q9NX40-4|OCIAD1;ENSG00000109180|ENST00000264312|OCIAD1 ENST00000512981.5_1_4:48833247-48854006:+|nuORF ENST00000512981.5_1_4:48833247-48854006:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.794921875 2 556.792392 1111.57023 3.5101 0.0019544 0.41859 0.00023307 3.9287 0.0021875 556.7922629696345 67.165 0.23608 67.823 67.699 67.936 0.65777 19 12 2 0 0 0 0.078322 1 30801 30801 38.151 25.109 1 577500 17759 1671 11353 11381 20374 20374 0.018909309656464757 LPIATKEQL 9 Unmodified _LPIATKEQL_ 0 0 0 ENSG00000145860|ENST00000424310|RNF145;nc|ENSG00000145860|Q96MT1-4|RNF145;nc|ENSG00000145860|Q96MT1-3|RNF145;nc|ENSG00000145860|Q96MT1-2|RNF145;nc|ENSG00000145860|Q96MT1-5|RNF145;ENST00000518062.1_1_5:158588183-158590023:-|nuORF ENSG00000145860|ENST00000424310|RNF145 ENSG00000145860|ENST00000424310|RNF145 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.8074035644531 2 506.8055 1011.59645 3.441 0.0017439 -0.38865 -0.00019697 3.0523 0.0015469 506.805253385322 41.332 0.18629 41.977 41.888 42.075 0.64451 15 10 2 0 0 0 0.0017071 2 18919 18906;18919 107.19 31.875 1 1075300 17760 3491 11354 11382 20375;20376 20376 0.0911120013714708 LPIDGANDLF 10 Unmodified _LPIDGANDLF_ 0 0 0 nc|ENSG00000198408|O60502-4|OGA;ENSG00000198408|ENST00000361464|OGA;ENST00000492204.1_1_10:103552448-103553834:-|nuORF nc|ENSG00000198408|O60502-4|OGA nc|ENSG00000198408|O60502-4|OGA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.7793579101562 2 537.776939 1073.53933 3.3277 0.0017896 -2.7326 -0.0014695 0.59512 0.00032004 537.7756911334199 79.832 0.45238 80.493 80.276 80.728 0.66082 54 27 3 0 0 0 0.019962 2 36819 36766;36819 71.922 30.083 1 1763700 17761 5889 11355 11383 20377;20378 20378 0.005497328607361851 LPIDKEEVSL 10 Unmodified _LPIDKEEVSL_ 0 0 0 ENSG00000108055|ENST00000361804|SMC3 ENSG00000108055|ENST00000361804|SMC3 ENSG00000108055|ENST00000361804|SMC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.8203125 2 571.818804 1141.62306 3.517 0.0020111 0.027099 1.5496E-05 3.5441 0.0020266 571.8188239824239 52.837 0.20586 53.1 52.994 53.2 0.26345 18 10 2 0 0 0 0.063572 1 24155 24155 59.052 19.103 1 667650 17762 1620 11356 11384 20379 20379 0.05790844237822057 LPIDKEEVSL 10 Unmodified _LPIDKEEVSL_ 0 0 0 ENSG00000108055|ENST00000361804|SMC3 ENSG00000108055|ENST00000361804|SMC3 ENSG00000108055|ENST00000361804|SMC3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 571.818804 1141.62306 3.2015 0.0018307 0.63368 0.00036235 3.8352 0.0021931 571.8191608165256 52.246 0.20973 53.057 52.952 53.162 0.81066 -0.034655 0.00054479 NaN 59.052 31 15 3 NaN NaN NaN NaN 0 NaN NaN 0 531060 17763 1620 11356 11384 0.05790844237822057 LPIDKEEVSL 10 Unmodified _LPIDKEEVSL_ 0 0 0 ENSG00000108055|ENST00000361804|SMC3 ENSG00000108055|ENST00000361804|SMC3 ENSG00000108055|ENST00000361804|SMC3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 571.818804 1141.62306 3.4595 0.0019782 -0.26343 -0.00015063 3.1961 0.0018276 571.8190090277194 52.455 0.25782 53.117 52.975 53.233 0.66198 0.025827 -0.00048117 NaN 59.052 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 444860 17764 1620 11356 11384 0.05790844237822057 LPIDVTEGEVI 11 Unmodified _LPIDVTEGEVI_ 0 0 0 nc|ENSG00000011304|P26599-1|PTBP1;nc|ENSG00000011304|P26599-2|PTBP1;ENSG00000011304|ENST00000356948|PTBP1;ENST00000590887.5_1_19:797434-804304:+|nuORF;PTBP1|p.E189Gfs*76|1|0.06|ENSG00000011304|chr19:804662-804678|AGAACCTCTTCTACCCT/-|frameshift_variant;ENST00000586944.5_1_19:797434-805231:+|nuORF nc|ENSG00000011304|P26599-1|PTBP1 nc|ENSG00000011304|P26599-1|PTBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 592.8262329101562 2 592.824086 1183.63362 2.8547 0.0016923 0.64326 0.00038134 3.498 0.0020737 592.8241074818995 77.492 0.26317 77.492 77.354 77.617 0 27 18 2 0 0 0 0.15269 1 38063 38063 32.786 14.639 1 1591000 17765 411 11357 11385 20380 20380 0.04914826892263591 LPIDVTEGEVI 11 Unmodified _LPIDVTEGEVI_ 0 0 0 nc|ENSG00000011304|P26599-1|PTBP1;nc|ENSG00000011304|P26599-2|PTBP1;ENSG00000011304|ENST00000356948|PTBP1;ENST00000590887.5_1_19:797434-804304:+|nuORF;PTBP1|p.E189Gfs*76|1|0.06|ENSG00000011304|chr19:804662-804678|AGAACCTCTTCTACCCT/-|frameshift_variant;ENST00000586944.5_1_19:797434-805231:+|nuORF nc|ENSG00000011304|P26599-1|PTBP1 nc|ENSG00000011304|P26599-1|PTBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.8262329101562 2 592.824086 1183.63362 2.9442 0.0017454 -0.39182 -0.00023228 2.5524 0.0015131 592.8240346935 76.646 0.30048 77.27 77.151 77.451 0.62397 26 19 2 0 0 0 0.11324 1 37168 37168 39.95 12.321 1 1636400 17766 411 11357 11385 20381 20381 0.04914826892263591 LPIDVTEGEVI 11 Unmodified _LPIDVTEGEVI_ 0 0 0 nc|ENSG00000011304|P26599-1|PTBP1;nc|ENSG00000011304|P26599-2|PTBP1;ENSG00000011304|ENST00000356948|PTBP1;ENST00000590887.5_1_19:797434-804304:+|nuORF;PTBP1|p.E189Gfs*76|1|0.06|ENSG00000011304|chr19:804662-804678|AGAACCTCTTCTACCCT/-|frameshift_variant;ENST00000586944.5_1_19:797434-805231:+|nuORF nc|ENSG00000011304|P26599-1|PTBP1 nc|ENSG00000011304|P26599-1|PTBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.8265991210938 2 592.824086 1183.63362 3.498 0.0020737 0.068988 4.0898E-05 3.567 0.0021146 592.823997603594 77.011 0.42763 77.266 77.058 77.486 0.25533 93 35 4 0 0 0 1.5936E-06 2 35434 35434;35476 103.75 31.826 1 2545200 17767 411 11357 11385 20382;20383 20382 0.04914826892263591 LPIDVTEGEVI 11 Unmodified _LPIDVTEGEVI_ 0 0 0 nc|ENSG00000011304|P26599-1|PTBP1;nc|ENSG00000011304|P26599-2|PTBP1;ENSG00000011304|ENST00000356948|PTBP1;ENST00000590887.5_1_19:797434-804304:+|nuORF;PTBP1|p.E189Gfs*76|1|0.06|ENSG00000011304|chr19:804662-804678|AGAACCTCTTCTACCCT/-|frameshift_variant;ENST00000586944.5_1_19:797434-805231:+|nuORF nc|ENSG00000011304|P26599-1|PTBP1 nc|ENSG00000011304|P26599-1|PTBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1184.6431884765625 1 1184.6409 1183.63362 3.0168 0.0035738 0.4964 0.00058806 3.5132 0.0041619 1184.641858647307 77.008 0.12866 77.263 77.198 77.326 0.25533 18 12 2 0 0 0 0.21806 1 35448 35448 27.629 9.4825 1 389310 17768 411 11357 11385 20384 20384 0.04914826892263591 LPIDVTEGEVI 11 Unmodified _LPIDVTEGEVI_ 0 0 0 nc|ENSG00000011304|P26599-1|PTBP1;nc|ENSG00000011304|P26599-2|PTBP1;ENSG00000011304|ENST00000356948|PTBP1;ENST00000590887.5_1_19:797434-804304:+|nuORF;PTBP1|p.E189Gfs*76|1|0.06|ENSG00000011304|chr19:804662-804678|AGAACCTCTTCTACCCT/-|frameshift_variant;ENST00000586944.5_1_19:797434-805231:+|nuORF nc|ENSG00000011304|P26599-1|PTBP1 nc|ENSG00000011304|P26599-1|PTBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.8245849609375 2 592.824086 1183.63362 3.537 0.0020968 -0.42042 -0.00024924 3.1166 0.0018476 592.8237084766636 76.638 0.34574 77.302 77.104 77.45 0.66387 63 26 3 0 0 0 0.0032697 2 35263 35263;35323 71.922 24.174 1 2702100 17769 411 11357 11385 20385;20386 20385 0.04914826892263591 LPIDVTEGEVI 11 Unmodified _LPIDVTEGEVI_ 0 0 0 nc|ENSG00000011304|P26599-1|PTBP1;nc|ENSG00000011304|P26599-2|PTBP1;ENSG00000011304|ENST00000356948|PTBP1;ENST00000590887.5_1_19:797434-804304:+|nuORF;PTBP1|p.E189Gfs*76|1|0.06|ENSG00000011304|chr19:804662-804678|AGAACCTCTTCTACCCT/-|frameshift_variant;ENST00000586944.5_1_19:797434-805231:+|nuORF nc|ENSG00000011304|P26599-1|PTBP1 nc|ENSG00000011304|P26599-1|PTBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1184.6435546875 1 1184.6409 1183.63362 3.0278 0.0035868 0.19839 0.00023502 3.2262 0.0038219 1184.6396773199535 76.595 0.086967 77.259 77.186 77.273 0.66387 10 7 2 0 0 0 0.67822 1 35271 35271 12.241 3.4953 1 485660 17770 411 11357 11385 20387 20387 0.04914826892263591 LPIFGSITILL 11 Unmodified _LPIFGSITILL_ 0 0 0 REV__nc|ENSG00000072041|Q9H2J7-2|SLC6A15 REV__nc|ENSG00000072041|Q9H2J7-2|SLC6A15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 396.2538757324219 3 396.253042 1185.7373 NaN NaN NaN NaN NaN NaN NaN 77.74 1 77.74 77.24 78.24 0 0 0 0 1.0072 1 38136 38136 0.45452 0 1 + 17771 17867 11358 11386 20388 20388 0.15185778790578297 LPIFPDLQV 9 Unmodified _LPIFPDLQV_ 0 0 0 ENSG00000213676|ENST00000375203|ATF6B;nc|ENSG00000213676|Q99941-2|ATF6B;ENST00000495579.5_1_6:32088425-32095984:-|nuORF ENSG00000213676|ENST00000375203|ATF6B;ENST00000495579.5_1_6:32088425-32095984:-|nuORF ENSG00000213676|ENST00000375203|ATF6B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.30419921875 2 521.302593 1040.59063 3.5714 0.0018618 0.2544 0.00013262 3.8258 0.0019944 521.3026044590781 96.872 0.25394 97.474 97.332 97.586 0.6019 19 10 2 0 0 0 0.041436 1 44552 44552 50.855 20.63 1 686310 17772 6094;8434 11359 11387 20389 20389 0.0719610162545905 LPIFPDLQV 9 Unmodified _LPIFPDLQV_ 0 0 0 ENSG00000213676|ENST00000375203|ATF6B;nc|ENSG00000213676|Q99941-2|ATF6B;ENST00000495579.5_1_6:32088425-32095984:-|nuORF ENSG00000213676|ENST00000375203|ATF6B;ENST00000495579.5_1_6:32088425-32095984:-|nuORF ENSG00000213676|ENST00000375203|ATF6B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 521.302593 1040.59063 4.2233 0.0022016 -0.14921 -7.7785E-05 4.074 0.0021238 521.3026599718535 97.403 0.14001 97.692 97.632 97.772 0.28923 0.10915 -0.00019494 NaN 50.855 9 5 2 NaN NaN NaN NaN 0 NaN NaN 0 1285300 17773 6094;8434 11359 11387 0.0719610162545905 LPILEPVL 8 Unmodified _LPILEPVL_ 0 0 0 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant;ENST00000528882.5_1_11:57067274-57087552:-|nuORF;ENSG00000149115|ENST00000358252|TNKS1BP1;nc|ENSG00000149115|Q9C0C2-2|TNKS1BP1 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 893.5726928710938 1 893.570632 892.563355 4.3546 0.0038912 -0.075121 -6.7126E-05 4.2795 0.0038241 893.5710133161741 90.885 0.18713 91.136 90.999 91.187 0.25163 20 11 2 0 0 0 0.17426 2 41801 41759;41801 45.75 9.3272 1 514150 17774 3627 11360 11388 20390;20391 20391 0.11277618085068752 LPILEPVL 8 Unmodified _LPILEPVL_ 0 0 0 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant;ENST00000528882.5_1_11:57067274-57087552:-|nuORF;ENSG00000149115|ENST00000358252|TNKS1BP1;nc|ENSG00000149115|Q9C0C2-2|TNKS1BP1 TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant TNKS1BP1|p.Q950Rfs*9|1|0.33|ENSG00000149115|chr11:57309862-57309862|T/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 893.570632 892.563355 4.103 0.0036663 -0.22842 -0.00020411 3.8746 0.0034622 893.5694904750285 90.295 0.18767 90.967 90.903 91.09 0.67271 -0.084351 -0.00011038 NaN 45.75 13 7 2 NaN NaN NaN NaN 0 NaN NaN 0 714970 17775 3627 11360 11388 0.11277618085068752 LPILKMKKH 9 Unmodified _LPILKMKKH_ 0 0 0 ENST00000328249.3_2_1:43295744-43296215:+|nuORF ENST00000328249.3_2_1:43295744-43296215:+|nuORF ENST00000328249.3_2_1:43295744-43296215:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 369.53778076171875 3 369.907212 1106.69981 2.4915 0.00092162 -1.126 -0.00041653 1.3655 0.0005051 369.9065018139368 35.95 0.40935 36.741 36.637 37.047 0.79131 36 15 3 0 0 0 0.11434 1 16281 16281 0.26902 0 1 1667800 17776 6970 11361 11389 20392 20392 0.15072409043955304 LPILKMKKH 9 Unmodified _LPILKMKKH_ 0 0 0 ENST00000328249.3_2_1:43295744-43296215:+|nuORF ENST00000328249.3_2_1:43295744-43296215:+|nuORF ENST00000328249.3_2_1:43295744-43296215:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 369.907212 1106.69981 2.742 0.0010143 -1.6147 -0.0005973 1.1273 0.00041698 369.9065326136488 36.685 0.3537 36.685 36.532 36.886 0 -0.016475 -0.00015745 NaN 0.26902 30 16 2 NaN NaN NaN NaN 0 NaN NaN 0 1912800 17777 6970 11361 11389 0.15072409043955304 LPILKMKKH 9 Unmodified _LPILKMKKH_ 0 0 0 ENST00000328249.3_2_1:43295744-43296215:+|nuORF ENST00000328249.3_2_1:43295744-43296215:+|nuORF ENST00000328249.3_2_1:43295744-43296215:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 369.907212 1106.69981 2.7352 0.0010118 -1.4355 -0.00053102 1.2997 0.00048076 369.9064663807975 36.052 0.4753 36.678 36.567 37.042 0.62631 -0.023081 4.1376E-05 NaN 0.26902 34 14 3 NaN NaN NaN NaN 0 NaN NaN 0 2462800 17778 6970 11361 11389 0.15072409043955304 LPIPFFSRWEC 11 Unmodified _LPIPFFSRWEC_ 0 0 0 ENST00000227525.7_1_11:60681371-60681557:+|nuORF ENST00000227525.7_1_11:60681371-60681557:+|nuORF ENST00000227525.7_1_11:60681371-60681557:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.046630859375 3 465.569036 1393.68528 NaN NaN NaN NaN NaN NaN NaN 68.605 1 69.307 68.807 69.807 0.70218 0 0 0 1.0071 1 32725 32725 0.50596 0 1 17779 6430 11362 11390 20393 20393 0.004182921051778976 LPIRKMKKF 9 Unmodified _LPIRKMKKF_ 0 0 0 ENST00000495836.1_1_2:69771529-69870271:-|nuORF ENST00000495836.1_1_2:69771529-69870271:-|nuORF ENST00000495836.1_1_2:69771529-69870271:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 580.8707885742188 2 580.870454 1159.72636 NaN NaN NaN NaN NaN NaN NaN 59.73 1 59.989 59.489 60.489 0.2593 0 0 0 0.90511 1 27353 27353 2.3027 0 1 17780 8438 11363 11391 20394 20394 0.15288097935285805 LPIYLENQ 8 Unmodified _LPIYLENQ_ 0 0 0 nc|ENSG00000205359|Q86UG4-2|SLCO6A1;ENSG00000205359|ENST00000506729|SLCO6A1 nc|ENSG00000205359|Q86UG4-2|SLCO6A1 nc|ENSG00000205359|Q86UG4-2|SLCO6A1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.1973571777344 3 330.514925 988.522947 2.4976 0.0008255 1.0188 0.00033673 3.5164 0.0011622 330.515163117204 12.855 0.35448 13.498 13.345 13.699 0.64272 24 10 4 0 0 0 0.11901 1 5737 5737 10.824 0.75 1 3432800 17781 6048 11364 11392 20395 20395 0.028226516946460833 LPKDKLDL 8 Unmodified _LPKDKLDL_ 0 0 0 REV__nc|ENSG00000100784|O75582-2|RPS6KA5 REV__nc|ENSG00000100784|O75582-2|RPS6KA5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.2884521484375 2 471.286943 940.559333 2.7733 0.001307 1.056 0.00049768 3.8293 0.0018047 471.2875729294211 38.969 0.28639 39.233 39.058 39.344 0.26408 19 11 2 0 0 0 0.37185 1 17716 17716 30.225 0 1 708100 + 17782 10847 11365 11393 20396 20396 0.0866752859137705 LPKELPEAM 9 Unmodified _LPKELPEAM_ 0 0 0 REV__ENSG00000073910|ENST00000542859|FRY REV__ENSG00000073910|ENST00000542859|FRY MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.2776489257812 2 514.27826 1026.54197 NaN NaN NaN NaN NaN NaN NaN 41.343 1 41.612 41.112 42.112 0.26904 0 0 0 0.59707 1 18830 18830 15.847 0 1 + 17783 10509 11366 11394 20397 20397 0.029758649940504256 LPKESIASI 9 Unmodified _LPKESIASI_ 0 0 0 REV__ENSG00000198920|ENST00000361413|KIAA0753 REV__ENSG00000198920|ENST00000361413|KIAA0753 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.2863464355469 2 479.2844 956.554247 3.0032 0.0014394 -2.8294 -0.0013561 0.17377 8.3287E-05 479.28308553010316 45.88 0.32669 46.706 46.558 46.884 0.82621 19 16 2 0 0 0 0.10437 1 20920 20920 33.445 1.4074 1 3674900 + 17784 14381 11367 11395 20398 20398 0.0742322472875685 LPKHKKLINRP 11 Unmodified _LPKHKKLINRP_ 0 0 0 nc|ENSG00000197057|Q6ZMT9-2|DTHD1;nc|ENSG00000197057|Q6ZMT9|DTHD1;ENSG00000197057|ENST00000639862|DTHD1 nc|ENSG00000197057|Q6ZMT9-2|DTHD1 nc|ENSG00000197057|Q6ZMT9-2|DTHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 672.4374389648438 2 672.435338 1342.85612 NaN NaN NaN NaN NaN NaN NaN 51.139 1 51.139 50.639 51.639 0 0 0 0 1.0072 1 23415 23415 1.3295 0.13619 1 17785 5794 11368 11396 20399 20399 0.1984099053877344 LPKIAETP 8 Unmodified _LPKIAETP_ 0 0 0 REV__ENST00000417748.1_2_2:201994058-201994181:+|nuORF REV__ENST00000417748.1_2_2:201994058-201994181:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.76312255859375 2 434.760561 867.506569 NaN NaN NaN NaN NaN NaN NaN 92.76 1 93.408 92.908 93.908 0.64714 0 0 0 0.99035 1 42675 42675 0.69038 0 1 + 17786 16144 11369 11397 20400 20400 0.06751570528570028 LPKIKAIP 8 Unmodified _LPKIKAIP_ 0 0 0 ENST00000456481.1_1_7:137407104-137407545:+|nuORF;ENST00000489915.1_1_18:6462145-6462637:-|nuORF;ENSG00000089009|ENST00000202773|RPL6 ENST00000456481.1_1_7:137407104-137407545:+|nuORF ENST00000456481.1_1_7:137407104-137407545:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 440.30670166015625 2 440.304939 878.595324 NaN NaN NaN NaN NaN NaN NaN 38.018 1 38.652 38.152 39.152 0.63388 0 0 0 0.88162 1 17389 17389 13.508 0.97634 1 17787 1024 11370 11398 20401 20401 0.1511703055888347 LPKKHRRQIKR 11 Unmodified _LPKKHRRQIKR_ 0 0 0 REV__ENSG00000114656|ENST00000645291|CFAP92 REV__ENSG00000114656|ENST00000645291|CFAP92 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 730.4747924804688 2 730.47586 1458.93717 NaN NaN NaN NaN NaN NaN NaN 65.308 1 66.017 65.517 66.517 0.70891 0 0 0 1.008 1 30875 30875 0.35063 0.043601 1 + 17788 11329 11371 11399 20402 20402 0.22605691301532715 LPKKINLVWT 10 Unmodified _LPKKINLVWT_ 0 0 0 REV__nc|ENSG00000179869|Q86UQ4|ABCA13 REV__nc|ENSG00000179869|Q86UQ4|ABCA13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.59033203125 3 404.588536 1210.74378 2.975 0.0012036 0.93527 0.0003784 3.9102 0.001582 404.58876047475337 34.239 0.61135 34.493 34.391 35.002 0.25389 62 27 3 0 0 0 0.93584 1 15750 15750 1.7423 0.52744 1 1375100 + 17789 13808 11372 11400 20403 20403 0.14683716741910757 LPKKSQVL 8 Unmodified _LPKKSQVL_ 0 0 0 ENSG00000184661|ENST00000330560|CDCA2;CDCA2|p.S605Cfs*25|1|0.07|ENSG00000184661|chr8:25503512-25503513|-/ATGTAAAA|frameshift_variant;CDCA2|p.S605Ffs*27|1|0.04|ENSG00000184661|chr8:25503514-25503515|-/TTGA|frameshift_variant ENSG00000184661|ENST00000330560|CDCA2 ENSG00000184661|ENST00000330560|CDCA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.7996826171875 2 456.797478 911.580402 2.8412 0.0012979 0.66525 0.00030388 3.5065 0.0016018 456.797699992356 17.326 0.24724 17.326 17.191 17.438 0 24 18 2 0 0 0 0.38743 1 7702 7702 29.082 0 1 210710 17790 5456 11373 11401 20404 20404 0.12107538690884212 LPKKSQVL 8 Unmodified _LPKKSQVL_ 0 0 0 ENSG00000184661|ENST00000330560|CDCA2;CDCA2|p.S605Cfs*25|1|0.07|ENSG00000184661|chr8:25503512-25503513|-/ATGTAAAA|frameshift_variant;CDCA2|p.S605Ffs*27|1|0.04|ENSG00000184661|chr8:25503514-25503515|-/TTGA|frameshift_variant ENSG00000184661|ENST00000330560|CDCA2 ENSG00000184661|ENST00000330560|CDCA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.7992248535156 2 456.797478 911.580402 2.5403 0.0011604 1.2233 0.00055881 3.7636 0.0017192 456.7984057269975 14.421 0.13195 14.728 14.683 14.815 0.3069 9 5 2 0 0 0 0.29142 1 6542 6542 36.127 0 1 355800 17791 5456 11373 11401 20405 20405 0.12107538690884212 LPKKVTII 8 Unmodified _LPKKVTII_ 0 0 0 REV__ENSG00000101542|ENST00000262717|CDH20 REV__ENSG00000101542|ENST00000262717|CDH20 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.5482482910156 3 304.547789 910.621539 NaN NaN NaN NaN NaN NaN NaN 32.564 1 33.352 32.852 33.852 0.78795 0 0 0 0.88162 1 14730 14730 10.074 3.3508 1 + 17792 10900 11374 11402 20406 20406 0.16265299730378047 LPKKVTII 8 Unmodified _LPKKVTII_ 0 0 0 REV__ENSG00000101542|ENST00000262717|CDH20 REV__ENSG00000101542|ENST00000262717|CDH20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.54876708984375 3 304.547789 910.621539 2.2998 0.00070038 0.21145 6.4397E-05 2.5112 0.00076478 304.547918616741 33.225 0.32147 33.479 33.297 33.618 0.25389 30 14 3 0 0 0 0.60592 1 15134 15134 10.074 3.3508 1 527500 + 17793 10900 11374 11402 20407 20407 0.16265299730378047 LPKKVTII 8 Unmodified _LPKKVTII_ 0 0 0 REV__ENSG00000101542|ENST00000262717|CDH20 REV__ENSG00000101542|ENST00000262717|CDH20 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.86541748046875 3 304.547789 910.621539 2.2998 0.00070038 0.21145 6.4397E-05 2.5112 0.00076478 304.547918616741 33.225 0.32147 33.479 33.297 33.618 0.25389 30 14 3 0 0 0 0.12371 1 15116 15116 10.074 3.3508 1 527500 + 17794 10900 11374 11402 20408 20408 0.16265299730378047 LPKKVTII 8 Unmodified _LPKKVTII_ 0 0 0 REV__ENSG00000101542|ENST00000262717|CDH20 REV__ENSG00000101542|ENST00000262717|CDH20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 304.5484924316406 3 304.547789 910.621539 2.0424 0.00062202 0.24415 7.4355E-05 2.2866 0.00069637 304.54790411955753 32.722 0.3248 33.341 33.155 33.48 0.61832 29 14 3 0 0 0 0.66653 1 14979 14979 6.2058 0 1 396630 + 17795 10900 11374 11402 20409 20409 0.16265299730378047 LPKKVTII 8 Unmodified _LPKKVTII_ 0 0 0 REV__ENSG00000101542|ENST00000262717|CDH20 REV__ENSG00000101542|ENST00000262717|CDH20 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 304.547789 910.621539 1.748 0.00053236 0.89229 0.00027175 2.6403 0.00080411 304.5480659638399 33.537 0.064495 33.537 33.493 33.558 0 0.084615 0.00056629 NaN 10.074 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 799700 + 17796 10900 11374 11402 0.16265299730378047 LPKKYHVLRF 10 Unmodified _LPKKYHVLRF_ 0 0 0 ENSG00000002726|ENST00000360937|AOC1;nc|ENSG00000002726|P19801-2|AOC1 ENSG00000002726|ENST00000360937|AOC1 ENSG00000002726|ENST00000360937|AOC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 650.8972778320312 2 650.898057 1299.78156 NaN NaN NaN NaN NaN NaN NaN 53.17 1 53.434 52.934 53.934 0.26345 0 0 0 0.99983 1 24312 24312 1.8442 0.19162 1 17797 302 11375 11403 20410 20410 0.14366227727396108 LPKKYSPTTAD 11 Unmodified _LPKKYSPTTAD_ 0 0 0 REV__ENSG00000178409|ENST00000369042|BEND3 REV__ENSG00000178409|ENST00000369042|BEND3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.7641906738281 3 407.555561 1219.64485 3.0517 0.0012437 1.2915 0.00052637 4.3432 0.0017701 407.5560292574671 36.865 0.31802 37.122 36.963 37.281 0.25768 24 10 3 0 0 0 0.13295 1 16729 16729 4.7159 4.7159 1 437700 + 17798 13763 11376 11404 20411 20411 0.04381648986372966 LPKLHIVQV 9 Unmodified _LPKLHIVQV_ 0 0 0 ENSG00000213719|ENST00000375784|CLIC1 ENSG00000213719|ENST00000375784|CLIC1 ENSG00000213719|ENST00000375784|CLIC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.8408813476562 2 523.839677 1045.6648 3.2545 0.0017048 0.15913 8.3356E-05 3.4136 0.0017882 523.8397416932451 50.821 0.50382 51.083 50.73 51.234 0.26146 48 24 3 0 0 0 0.015098 2 23249 23199;23249 74.929 38.802 1 761250 17799 6096 11377 11405 20412;20413 20413 0.14379489507655308 LPKLHIVQV 9 Unmodified _LPKLHIVQV_ 0 0 0 ENSG00000213719|ENST00000375784|CLIC1 ENSG00000213719|ENST00000375784|CLIC1 ENSG00000213719|ENST00000375784|CLIC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.8414916992188 2 523.839677 1045.6648 3.2965 0.0017269 0.00351 1.8387E-06 3.3 0.0017287 523.8397057574053 50.041 0.45215 50.698 50.4 50.853 0.65735 35 18 3 0 0 0 0.027384 1 22898 22898 58.679 26.373 1 544570 17800 6096 11377 11405 20414 20414 0.14379489507655308 LPKLRKRMRKM 11 Unmodified _LPKLRKRMRKM_ 0 0 0 ENSG00000112159|ENST00000369393|MDN1 ENSG00000112159|ENST00000369393|MDN1 ENSG00000112159|ENST00000369393|MDN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 728.9583129882812 2 728.9576 1455.90065 NaN NaN NaN NaN NaN NaN NaN 71.057 1 71.057 70.557 71.557 0 0 0 0 1.008 1 34525 34525 0.35063 0 1 17801 1795 11378 11406 20415 20415 0.1909335508892127 LPKMTRILLY 10 Unmodified _LPKMTRILLY_ 0 0 0 REV__ENSG00000144820|ENST00000273352|ADGRG7 REV__ENSG00000144820|ENST00000273352|ADGRG7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 624.67333984375 2 624.380852 1246.74715 NaN NaN NaN NaN NaN NaN NaN 62.39 1 62.64 62.14 63.14 0.24965 0 0 0 1.0003 1 28562 28562 1.4819 0 1 + 17802 12415 11379 11407 20416 20416 0.13364643524300845 LPKNMKGSI 9 Unmodified _LPKNMKGSI_ 0 0 0 ENST00000461249.1_1_2:27862970-27864135:+|nuORF ENST00000461249.1_1_2:27862970-27864135:+|nuORF ENST00000461249.1_1_2:27862970-27864135:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 329.5569763183594 3 329.860039 986.558287 NaN NaN NaN NaN NaN NaN NaN 13.081 1 13.081 12.581 13.581 0 0 0 0 0.86044 1 5712 5712 4.5289 1.7937 1 17803 8079 11380 11408 20417 20417 0.0644699095081478 LPKNRQIL 8 Unmodified _LPKNRQIL_ 0 0 0 ENSG00000110367|ENST00000534980|DDX6 ENSG00000110367|ENST00000534980|DDX6 ENSG00000110367|ENST00000534980|DDX6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.3155212402344 2 491.313826 980.613099 NaN NaN NaN NaN NaN NaN NaN 19.161 1 19.458 18.958 19.958 0.29753 0 0 0 0.55493 1 8709 8709 26.341 0 1 17804 1711 11381 11409 20418 20418 0.12201745813740672 LPKNRQIL 8 Unmodified _LPKNRQIL_ 0 0 0 ENSG00000110367|ENST00000534980|DDX6 ENSG00000110367|ENST00000534980|DDX6 ENSG00000110367|ENST00000534980|DDX6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.3159484863281 2 491.313826 980.613099 3.3037 0.0016232 0.16464 8.0891E-05 3.4684 0.0017041 491.3139857246104 18.783 0.12291 19.443 19.369 19.492 0.66072 16 8 2 0 0 0 0.58952 1 8483 8483 19.439 19.439 1 672650 17805 1711 11381 11409 20419 20419 0.12201745813740672 LPKPTKGRMRI 11 Unmodified _LPKPTKGRMRI_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;SPTBN1|p.E1055Gfs*20|1|0.19|ENSG00000115306|chr2:54631208-54631224|GAGAGGCCTCCCTGGGA/-|frameshift_variant;nc|ENSG00000173898|O15020-2|SPTBN2;ENSG00000173898|ENST00000533211|SPTBN2;SPTBN2|p.S1719Pfs*11|1|0.21|ENSG00000173898|chr11:66692572-66692572|G/-|frameshift_variant ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000173898|O15020-2|SPTBN2 ENSG00000115306|ENST00000356805|SPTBN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 649.25341796875 2 648.900274 1295.786 NaN NaN NaN NaN NaN NaN NaN 55.785 1 56.572 56.072 57.072 0.78711 0 0 0 1.0057 1 25478 25478 3.2813 0 1 17806 1960;4957 11382 11410 20420 20420 0.14993368878663205 LPKQRRQGL 9 Unmodified _LPKQRRQGL_ 0 0 0 REV__ENST00000375412.9_2_9:96212872-96214941:-|nuORF REV__ENST00000375412.9_2_9:96212872-96214941:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.89703369140625 3 365.896363 1094.66726 2.4587 0.00089963 0.12091 4.4242E-05 2.5796 0.00094387 365.8963911181629 18.086 0.28763 18.388 18.285 18.573 0.30159 58 31 3 0 0 0 1.1154 1 8275 8275 1.0715 0 1 551750 + 17807 15803 11383 11411 20421 20421 0.12371337965328166 LPKRIKLTRF 10 Unmodified _LPKRIKLTRF_ 0 0 0 REV__ENST00000483992.5_1_2:27994849-27995155:+|nuORF REV__ENST00000483992.5_1_2:27994849-27995155:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 636.4188842773438 2 636.419157 1270.82376 NaN NaN NaN NaN NaN NaN NaN 52.083 1 52.893 52.393 53.393 0.81065 0 0 0 1.0015 1 23727 23727 0.45834 0 1 + 17808 16729 11384 11412 20422 20422 0.1991820313576227 LPKRIKLTRFL 11 Unmodified _LPKRIKLTRFL_ 0 0 0 REV__ENST00000483992.5_1_2:27994849-27995155:+|nuORF REV__ENST00000483992.5_1_2:27994849-27995155:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 462.0569763183594 3 462.309885 1383.90782 NaN NaN NaN NaN NaN NaN NaN 70.064 1 70.064 69.564 70.564 0 0 0 0 1.0079 1 33932 33932 0.50596 0 1 + 17809 16729 11385 11413 20423 20423 0.23122734232651965 LPKRKRRDWL 10 Unmodified _LPKRKRRDWL_ 0 0 0 KIF13A|p.S1698Yfs*5|1|0.23|ENSG00000137177|chr6:17764435-17764435|G/-|frameshift_variant;nc|ENSG00000137177|Q9H1H9-3|KIF13A;nc|ENSG00000137177|Q9H1H9-4|KIF13A;nc|ENSG00000137177|Q9H1H9-2|KIF13A;ENSG00000137177|ENST00000259711|KIF13A KIF13A|p.S1698Yfs*5|1|0.23|ENSG00000137177|chr6:17764435-17764435|G/-|frameshift_variant KIF13A|p.S1698Yfs*5|1|0.23|ENSG00000137177|chr6:17764435-17764435|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 684.4234619140625 2 684.422762 1366.83097 NaN NaN NaN NaN NaN NaN NaN 68.484 1 68.484 67.984 68.984 0 0 0 0 0.99983 1 32977 32977 1.8442 0 1 17810 3001 11386 11414 20424 20424 0.16222935736232102 LPKRSDSEL 9 Unmodified _LPKRSDSEL_ 0 0 0 UPF3B|p.P455Lfs*3|1|0.09|ENSG00000125351|chrX:119834968-119834969|-/CAAA|frameshift_variant;nc|ENSG00000125351|Q9BZI7-2|UPF3B;ENSG00000125351|ENST00000276201|UPF3B;ENST00000478840.1_1_X:118972286-118974571:-|nuORF UPF3B|p.P455Lfs*3|1|0.09|ENSG00000125351|chrX:119834968-119834969|-/CAAA|frameshift_variant UPF3B|p.P455Lfs*3|1|0.09|ENSG00000125351|chrX:119834968-119834969|-/CAAA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.7857666015625 2 522.787838 1043.56112 NaN NaN NaN NaN NaN NaN NaN 58.807 1 59.474 58.974 59.974 0.66703 0 0 0 0.75166 1 26917 26917 10.824 1.4408 1 17811 2394 11387 11415 20425 20425 0.04108537609317864 LPKVKHLQP 9 Unmodified _LPKVKHLQP_ 0 0 0 REV__ENSG00000221843|ENST00000447166|C2orf16 REV__ENSG00000221843|ENST00000447166|C2orf16 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.6831665039062 2 530.337301 1058.66005 NaN NaN NaN NaN NaN NaN NaN 95.926 1 95.926 95.426 96.426 0 0 0 0 0.89509 1 51790 51790 4.756 0 1 + 17812 14538 11388 11416 20426 20426 0.13306605364869029 LPKVKTFL 8 Unmodified _LPKVKTFL_ 0 0 0 REV__nc|ENSG00000100345|P35579-2|MYH9;REV__nc|ENSG00000105357|Q7Z406-5|MYH14 REV__nc|ENSG00000105357|Q7Z406-5|MYH14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 315.8765563964844 3 315.875906 944.605889 2.0948 0.00066168 2.2293 0.00070417 4.324 0.0013658 315.87596722636533 37.04 1.3723 37.04 36.801 38.173 0 66 53 2 0 0 0 0.45971 1 16802 16802 24.021 2.4836 1 1721000 + 17813 10822;11027 11389 11417 20427 20427 0.1313701321331564 LPKVKTFL 8 Unmodified _LPKVKTFL_ 0 0 0 REV__nc|ENSG00000100345|P35579-2|MYH9;REV__nc|ENSG00000105357|Q7Z406-5|MYH14 REV__nc|ENSG00000105357|Q7Z406-5|MYH14 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 315.875906 944.605889 2.0948 0.00066168 2.2293 0.00070417 4.324 0.0013658 315.87596722636533 37.04 1.3723 37.04 36.801 38.173 0 0 0 NaN 24.021 66 53 2 NaN NaN NaN NaN 0 NaN NaN 0 1721000 + 17814 10822;11027 11389 11417 0.1313701321331564 LPKVRLLPKVR 11 Unmodified _LPKVRLLPKVR_ 0 0 0 ENST00000573951.1_1_16:3313772-3314576:+|nuORF ENST00000573951.1_1_16:3313772-3314576:+|nuORF ENST00000573951.1_1_16:3313772-3314576:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 659.876953125 2 659.955907 1317.89726 NaN NaN NaN NaN NaN NaN NaN 71.117 1 71.117 70.617 71.617 0 0 0 0 1.0079 1 34554 34554 0.35063 0.043601 1 17815 9110 11390 11418 20428 20428 0.25102751578219795 LPKWIFKTML 10 Unmodified _LPKWIFKTML_ 0 0 0 REV__nc|ENSG00000174227|Q5H8A4-3|PIGG REV__nc|ENSG00000174227|Q5H8A4-3|PIGG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 638.6351928710938 2 638.877945 1275.74134 NaN NaN NaN NaN NaN NaN NaN 71.535 1 71.535 71.035 72.035 0 0 0 0 0.98866 1 34774 34774 7.2892 1.5574 1 + 17816 13626 11391 11419 20429 20429 0.11449545012624185 LPKYHQWLR 9 Unmodified _LPKYHQWLR_ 0 0 0 REV__ENSG00000188152|ENST00000372322|NUTM2G REV__ENSG00000188152|ENST00000372322|NUTM2G MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 620.848388671875 2 620.851107 1239.68766 NaN NaN NaN NaN NaN NaN NaN 55.003 1 55.003 54.503 55.503 0 0 0 0 0.90699 1 25255 25255 1.8442 0 1 + 17817 11839 11392 11420 20430 20430 0.07740508625101938 LPLAEKQRRVL 11 Unmodified _LPLAEKQRRVL_ 0 0 0 ENSG00000183856|ENST00000361170|IQGAP3 ENSG00000183856|ENST00000361170|IQGAP3 ENSG00000183856|ENST00000361170|IQGAP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 661.9193115234375 2 661.916978 1321.8194 NaN NaN NaN NaN NaN NaN NaN 83.983 1 84.645 84.145 85.145 0.66219 0 0 0 1.0059 1 38683 38683 2.9952 1.151 1 17818 5409 11393 11421 20431 20431 0.1713669392220254 LPLAGEEEL 9 Unmodified _LPLAGEEEL_ 0 0 0 ZMAT3|p.P126Qfs*15|1|0.07|ENSG00000172667|chr3:179030895-179030895|A/-|frameshift_variant;nc|ENSG00000172667|Q9HA38-2|ZMAT3;ENSG00000172667|ENST00000311417|ZMAT3 ZMAT3|p.P126Qfs*15|1|0.07|ENSG00000172667|chr3:179030895-179030895|A/-|frameshift_variant ZMAT3|p.P126Qfs*15|1|0.07|ENSG00000172667|chr3:179030895-179030895|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.76019287109375 2 485.758215 969.501877 3.0606 0.0014867 0.017924 8.7068E-06 3.0785 0.0014954 485.75848565320155 62.263 0.18527 62.512 62.337 62.522 0.24965 16 7 3 0 0 0 0.020956 1 28476 28476 67.035 13.46 1 1506900 17819 4882 11394 11422 20432 20432 0.015906415951349118 LPLAGEEEL 9 Unmodified _LPLAGEEEL_ 0 0 0 ZMAT3|p.P126Qfs*15|1|0.07|ENSG00000172667|chr3:179030895-179030895|A/-|frameshift_variant;nc|ENSG00000172667|Q9HA38-2|ZMAT3;ENSG00000172667|ENST00000311417|ZMAT3 ZMAT3|p.P126Qfs*15|1|0.07|ENSG00000172667|chr3:179030895-179030895|A/-|frameshift_variant ZMAT3|p.P126Qfs*15|1|0.07|ENSG00000172667|chr3:179030895-179030895|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 970.5134887695312 1 970.509154 969.501877 3.5985 0.0034924 -1.2287 -0.0011925 2.3698 0.0022999 970.5092242745419 62.216 0.16638 62.466 62.337 62.503 0.24965 10 6 2 0 0 0 0.0061269 1 28484 28484 89.427 29.037 1 752050 17820 4882 11394 11422 20433 20433 0.015906415951349118 LPLAGEEEL 9 Unmodified _LPLAGEEEL_ 0 0 0 ZMAT3|p.P126Qfs*15|1|0.07|ENSG00000172667|chr3:179030895-179030895|A/-|frameshift_variant;nc|ENSG00000172667|Q9HA38-2|ZMAT3;ENSG00000172667|ENST00000311417|ZMAT3 ZMAT3|p.P126Qfs*15|1|0.07|ENSG00000172667|chr3:179030895-179030895|A/-|frameshift_variant ZMAT3|p.P126Qfs*15|1|0.07|ENSG00000172667|chr3:179030895-179030895|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 970.5150756835938 1 970.509154 969.501877 3.6635 0.0035555 1.051 0.00102 4.7145 0.0045755 970.5107889893028 61.603 0.1211 62.263 62.164 62.285 0.66009 7 4 2 0 0 0 0.018173 1 28196 28196 70.716 17.14 1 829500 17821 4882 11394 11422 20434 20434 0.015906415951349118 LPLAGEEEL 9 Unmodified _LPLAGEEEL_ 0 0 0 ZMAT3|p.P126Qfs*15|1|0.07|ENSG00000172667|chr3:179030895-179030895|A/-|frameshift_variant;nc|ENSG00000172667|Q9HA38-2|ZMAT3;ENSG00000172667|ENST00000311417|ZMAT3 ZMAT3|p.P126Qfs*15|1|0.07|ENSG00000172667|chr3:179030895-179030895|A/-|frameshift_variant ZMAT3|p.P126Qfs*15|1|0.07|ENSG00000172667|chr3:179030895-179030895|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.7601318359375 2 485.758215 969.501877 3.0954 0.0015036 0.19616 9.5287E-05 3.2915 0.0015989 485.7581575941649 61.592 0.17686 62.252 62.108 62.285 0.66009 11 8 2 0 0 0 0.020956 1 28203 28203 67.035 3.4725 1 1096000 17822 4882 11394 11422 20435 20435 0.015906415951349118 LPLCWLFL 8 Carbamidomethyl (C) _LPLC(Carbamidomethyl (C))WLFL_ LPLC(1)WLFL LPLC(52)WLFL 0 1 0 nc|ENSG00000165078|Q8N4T0-3|CPA6;nc|ENSG00000165078|Q8N4T0-2|CPA6;ENST00000518549.1_2_8:68395895-68658364:-|nuORF;ENSG00000165078|ENST00000297770|CPA6 nc|ENSG00000165078|Q8N4T0-3|CPA6 nc|ENSG00000165078|Q8N4T0-3|CPA6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.2999877929688 2 531.296256 1060.57796 NaN NaN NaN NaN NaN NaN NaN 59.153 1 59.912 59.412 60.412 0.75894 0 0 0 0.10902 1 27187 27187 52.334 10.517 1 17823 4368 11395 11423 20436 20436 77 0.050093669615534964 LPLCWLFL 8 Carbamidomethyl (C) _LPLC(Carbamidomethyl (C))WLFL_ LPLC(1)WLFL LPLC(42)WLFL 0 1 0 nc|ENSG00000165078|Q8N4T0-3|CPA6;nc|ENSG00000165078|Q8N4T0-2|CPA6;ENST00000518549.1_2_8:68395895-68658364:-|nuORF;ENSG00000165078|ENST00000297770|CPA6 nc|ENSG00000165078|Q8N4T0-3|CPA6 nc|ENSG00000165078|Q8N4T0-3|CPA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.298828125 2 531.296256 1060.57796 3.265 0.0017347 2.1688 0.0011523 5.4338 0.002887 531.297381019555 59.328 0.33925 59.994 59.786 60.125 0.66598 20 14 2 0 0 0 0.21389 1 27195 27195 41.817 9.3636 1 566160 17824 4368 11395 11423 20437 20437 77 0.050093669615534964 LPLDDALLS 9 Unmodified _LPLDDALLS_ 0 0 0 ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 956.5341796875 1 956.529889 955.522613 3.9868 0.0038135 -0.58958 -0.00056395 3.3972 0.0032496 956.5291070109855 90.557 0.2394 91.229 91.09 91.33 0.67271 16 11 2 0 0 0 0.22507 1 41681 41681 21.747 1.293 1 727970 17825 4457 11396 11424 20438 20438 0.043072319748034715 LPLDYFKY 8 Unmodified _LPLDYFKY_ 0 0 0 REV__nc|ENSG00000092200|Q96KN7-4|RPGRIP1 REV__nc|ENSG00000092200|Q96KN7-4|RPGRIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.8053588867188 2 529.781493 1057.54843 NaN NaN NaN NaN NaN NaN NaN 56.018 1 56.686 56.186 57.186 0.66798 0 0 0 0.64864 1 25626 25626 24.021 0.23079 1 + 17826 10740 11397 11425 20439 20439 0.021961262170862028 LPLEEHYRF 9 Unmodified _LPLEEHYRF_ 0 0 0 ENSG00000024422|ENST00000263277|EHD2;nc|ENSG00000013016|Q9NZN3-2|EHD3;ENSG00000110047|ENST00000320631|EHD1;ENSG00000013016|ENST00000322054|EHD3 ENSG00000024422|ENST00000263277|EHD2 ENSG00000024422|ENST00000263277|EHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 401.87799072265625 3 401.876746 1202.60841 2.4368 0.00097928 0.77049 0.00030964 3.2073 0.0012889 401.87681763950565 46.968 0.88462 46.968 46.738 47.623 0 56 44 2 0 0 0 0.022157 1 21484 21484 65.474 39.453 1 4658100 17827 474 11398 11426 20440 20440 0.015208168803155786 LPLEEHYRF 9 Unmodified _LPLEEHYRF_ 0 0 0 ENSG00000024422|ENST00000263277|EHD2;nc|ENSG00000013016|Q9NZN3-2|EHD3;ENSG00000110047|ENST00000320631|EHD1;ENSG00000013016|ENST00000322054|EHD3 ENSG00000024422|ENST00000263277|EHD2 ENSG00000024422|ENST00000263277|EHD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 602.31396484375 2 602.31148 1202.60841 NaN NaN NaN NaN NaN NaN NaN 46.93 1 46.93 46.43 47.43 0 0 0 0 0.016042 1 21483 21483 85.642 31.809 1 17828 474 11398 11426 20441 20441 0.015208168803155786 LPLEEHYRF 9 Unmodified _LPLEEHYRF_ 0 0 0 ENSG00000024422|ENST00000263277|EHD2;nc|ENSG00000013016|Q9NZN3-2|EHD3;ENSG00000110047|ENST00000320631|EHD1;ENSG00000013016|ENST00000322054|EHD3 ENSG00000024422|ENST00000263277|EHD2 ENSG00000024422|ENST00000263277|EHD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 401.8769836425781 3 401.876746 1202.60841 NaN NaN NaN NaN NaN NaN NaN 45.892 1 46.718 46.218 47.218 0.82621 0 0 0 0.024551 1 20900 20900 65.474 36.193 1 17829 474 11398 11426 20442 20442 0.015208168803155786 LPLEEHYRF 9 Unmodified _LPLEEHYRF_ 0 0 0 ENSG00000024422|ENST00000263277|EHD2;nc|ENSG00000013016|Q9NZN3-2|EHD3;ENSG00000110047|ENST00000320631|EHD1;ENSG00000013016|ENST00000322054|EHD3 ENSG00000024422|ENST00000263277|EHD2 ENSG00000024422|ENST00000263277|EHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 602.313232421875 2 602.31148 1202.60841 3.8815 0.0023379 0.040962 2.4672E-05 3.9225 0.0023625 602.310799317823 46.742 0.17244 47.008 46.924 47.096 0.26561 10 5 2 0 0 0 0.012813 1 21377 21377 75.761 30.061 1 866000 17830 474 11398 11426 20443 20443 0.015208168803155786 LPLEEHYRF 9 Unmodified _LPLEEHYRF_ 0 0 0 ENSG00000024422|ENST00000263277|EHD2;nc|ENSG00000013016|Q9NZN3-2|EHD3;ENSG00000110047|ENST00000320631|EHD1;ENSG00000013016|ENST00000322054|EHD3 ENSG00000024422|ENST00000263277|EHD2 ENSG00000024422|ENST00000263277|EHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 602.8136596679688 2 602.31148 1202.60841 4.1642 0.0025081 -0.11491 -6.9212E-05 4.0492 0.0024389 602.3105921995211 46.214 0.2022 46.866 46.703 46.905 0.65104 11 6 2 0 0 0 0.017449 1 21161 21161 69.105 30.929 1 999600 17831 474 11398 11426 20444 20444 0.015208168803155786 LPLEEHYRF 9 Unmodified _LPLEEHYRF_ 0 0 0 ENSG00000024422|ENST00000263277|EHD2;nc|ENSG00000013016|Q9NZN3-2|EHD3;ENSG00000110047|ENST00000320631|EHD1;ENSG00000013016|ENST00000322054|EHD3 ENSG00000024422|ENST00000263277|EHD2 ENSG00000024422|ENST00000263277|EHD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 401.8778381347656 3 401.876746 1202.60841 NaN NaN NaN NaN NaN NaN NaN 46.175 1 46.826 46.326 47.326 0.65104 0 0 0 0.037681 1 21151 21151 57.249 36.668 1 17832 474 11398 11426 20445 20445 0.015208168803155786 LPLEISGSLL 10 Unmodified _LPLEISGSLL_ 0 0 0 REV__ENST00000392750.6_2_3:167402023-167402092:-|nuORF REV__ENST00000392750.6_2_3:167402023-167402092:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.3153686523438 2 521.313158 1040.61176 NaN NaN NaN NaN NaN NaN NaN 59.46 1 60.125 59.625 60.625 0.66503 0 0 0 0.12716 1 27220 27220 52.268 8.4101 1 + 17833 15935 11399 11427 20446 20446 0.09308066934318049 LPLFFYYYYY 10 Unmodified _LPLFFYYYYY_ 0 0 0 REV__Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|243|3|anti-sense REV__Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|243|3|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 726.7259521484375 2 726.34974 1450.68493 NaN NaN NaN NaN NaN NaN NaN 95.095 1 95.712 95.212 96.212 0.61736 0 0 0 1.0015 1 43732 43732 0.45834 0 1 + 17834 17709 11400 11428 20447 20447 -0.022388043430282778 LPLFPLRPRF 10 Unmodified _LPLFPLRPRF_ 0 0 0 REV__ENST00000584471.5_1_17:65375098-65375356:+|nuORF REV__ENST00000584471.5_1_17:65375098-65375356:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 419.2628173828125 3 419.260642 1254.7601 NaN NaN NaN NaN NaN NaN NaN 92.131 1 92.383 91.883 92.883 0.25253 0 0 0 1.0011 1 42355 42355 0.77653 0.27058 1 + 17835 17528 11401 11429 20448 20448 0.1429084269868781 LPLFPLRPRF 10 Unmodified _LPLFPLRPRF_ 0 0 0 REV__ENST00000584471.5_1_17:65375098-65375356:+|nuORF REV__ENST00000584471.5_1_17:65375098-65375356:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 419.2626953125 3 419.260642 1254.7601 NaN NaN NaN NaN NaN NaN NaN 92.34 1 92.593 92.093 93.093 0.25253 0 0 0 1.0011 1 42450 42450 0.77653 0.32202 1 + 17836 17528 11401 11429 20449 20449 0.1429084269868781 LPLFPNILRP 10 Unmodified _LPLFPNILRP_ 0 0 0 REV__ENST00000426861.5_1_17:56598198-56599363:-|nuORF REV__ENST00000426861.5_1_17:56598198-56599363:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.9142150878906 3 393.913131 1178.71756 2.5696 0.0010122 0.33538 0.00013211 2.905 0.0011443 393.91342680274977 48.094 0.24384 48.094 47.978 48.222 0 18 10 2 0 0 0 0.89464 1 22043 22043 1.9064 0.83491 1 313060 + 17837 16221 11402 11430 20450 20450 0.13535447570461656 LPLFPNILRP 10 Unmodified _LPLFPNILRP_ 0 0 0 REV__ENST00000426861.5_1_17:56598198-56599363:-|nuORF REV__ENST00000426861.5_1_17:56598198-56599363:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.23388671875 3 393.913131 1178.71756 2.5696 0.0010122 0.33538 0.00013211 2.905 0.0011443 393.91342680274977 48.094 0.24384 48.094 47.978 48.222 0 18 10 2 0 0 0 0.12676 1 21986 21986 1.9064 0.57673 1 313060 + 17838 16221 11402 11430 20451 20451 0.13535447570461656 LPLFPNILRP 10 Unmodified _LPLFPNILRP_ 0 0 0 REV__ENST00000426861.5_1_17:56598198-56599363:-|nuORF REV__ENST00000426861.5_1_17:56598198-56599363:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 393.913131 1178.71756 3.1513 0.0012413 0.16466 6.4862E-05 3.316 0.0013062 393.91342468607166 47.859 0.23192 48.123 47.986 48.218 0.26363 0.12456 -0.0002976 NaN 1.9064 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 381880 + 17839 16221 11402 11430 0.13535447570461656 LPLFPNILRP 10 Unmodified _LPLFPNILRP_ 0 0 0 REV__ENST00000426861.5_1_17:56598198-56599363:-|nuORF REV__ENST00000426861.5_1_17:56598198-56599363:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 393.913131 1178.71756 2.8144 0.0011086 0.58888 0.00023197 3.4033 0.0013406 393.91338038590675 47.125 0.26026 47.778 47.7 47.96 0.65219 -0.22061 0.00020372 NaN 1.9064 20 13 2 NaN NaN NaN NaN 0 NaN NaN 0 652800 + 17840 16221 11402 11430 0.13535447570461656 LPLGEYAV 8 Unmodified _LPLGEYAV_ 0 0 0 REV__ENSG00000115464|ENST00000398571|USP34 REV__ENSG00000115464|ENST00000398571|USP34 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 861.474365234375 1 861.471646 860.46437 3.6239 0.0031219 -0.30451 -0.00026233 3.3194 0.0028596 861.4714432333687 72.979 0.33353 73.238 73.09 73.424 0.25876 61 36 2 0 0 0 0.0084462 3 33523 33476;33523;33567 119.03 6.47 1 970870 + 17841 11367 11403 11431 20452;20453;20454 20453 0.02855595120183807 LPLHGLRN 8 Unmodified _LPLHGLRN_ 0 0 0 ENSG00000162337|ENST00000294304|LRP5;ENST00000529993.5_1_11:68171724-68216535:+|nuORF ENSG00000162337|ENST00000294304|LRP5 ENSG00000162337|ENST00000294304|LRP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 307.1893615722656 3 307.187255 918.539935 NaN NaN NaN NaN NaN NaN NaN 28.636 1 29.425 28.925 29.925 0.78921 0 0 0 0.99035 1 12900 12900 1.4819 1.0236 1 17842 4128 11404 11432 20455 20455 0.07740617091121749 LPLHKVKSL 9 Unmodified _LPLHKVKSL_ 0 0 0 nc|ENSG00000078304|Q13362-4|PPP2R5C;ENSG00000078304|ENST00000694906|PPP2R5C;nc|ENSG00000078304|Q13362-2|PPP2R5C;nc|ENSG00000078304|Q13362-3|PPP2R5C;nc|ENSG00000078304|Q13362|PPP2R5C;nc|ENSG00000078304|Q13362-5|PPP2R5C;ENST00000495716.1_1_3:52407964-52408519:+|nuORF;ENST00000556218.5_1_14:102349680-102375988:+|nuORF;nc|ENSG00000112640|Q14738-3|PPP2R5D;nc|ENSG00000112640|Q14738-2|PPP2R5D;ENSG00000112640|ENST00000485511|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C;nc|ENSG00000112640|Q14738-3|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.5634460449219 3 345.56221 1033.6648 2.5424 0.00087856 0.56882 0.00019656 3.1112 0.0010751 345.5622702167806 20.753 0.66883 20.753 20.275 20.944 0 122 58 3 0 0 0 0.076469 2 9228 9228;9277 38.615 20.468 1 410480 17843 876;1814 11405 11433 20456;20457 20456 0.1493148950764862 LPLHKVKSL 9 Unmodified _LPLHKVKSL_ 0 0 0 nc|ENSG00000078304|Q13362-4|PPP2R5C;ENSG00000078304|ENST00000694906|PPP2R5C;nc|ENSG00000078304|Q13362-2|PPP2R5C;nc|ENSG00000078304|Q13362-3|PPP2R5C;nc|ENSG00000078304|Q13362|PPP2R5C;nc|ENSG00000078304|Q13362-5|PPP2R5C;ENST00000495716.1_1_3:52407964-52408519:+|nuORF;ENST00000556218.5_1_14:102349680-102375988:+|nuORF;nc|ENSG00000112640|Q14738-3|PPP2R5D;nc|ENSG00000112640|Q14738-2|PPP2R5D;ENSG00000112640|ENST00000485511|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C;nc|ENSG00000112640|Q14738-3|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.5630187988281 3 345.56221 1033.6648 2.3449 0.00081032 -0.71651 -0.0002476 1.6284 0.00056272 345.5620122627239 19.835 0.33807 20.127 19.861 20.199 0.29239 62 39 2 0 0 0 0.025529 2 9020 9013;9020 61.09 36.208 1 2692800 17844 876;1814 11405 11433 20458;20459 20459 0.1493148950764862 LPLHKVKSL 9 Unmodified _LPLHKVKSL_ 0 0 0 nc|ENSG00000078304|Q13362-4|PPP2R5C;ENSG00000078304|ENST00000694906|PPP2R5C;nc|ENSG00000078304|Q13362-2|PPP2R5C;nc|ENSG00000078304|Q13362-3|PPP2R5C;nc|ENSG00000078304|Q13362|PPP2R5C;nc|ENSG00000078304|Q13362-5|PPP2R5C;ENST00000495716.1_1_3:52407964-52408519:+|nuORF;ENST00000556218.5_1_14:102349680-102375988:+|nuORF;nc|ENSG00000112640|Q14738-3|PPP2R5D;nc|ENSG00000112640|Q14738-2|PPP2R5D;ENSG00000112640|ENST00000485511|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C;nc|ENSG00000112640|Q14738-3|PPP2R5D nc|ENSG00000078304|Q13362-4|PPP2R5C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.56317138671875 3 345.56221 1033.6648 2.5551 0.00088295 0.35966 0.00012428 2.9148 0.0010072 345.5622203861339 19.496 0.42243 20.154 19.872 20.294 0.6583 66 30 3 0 0 0 0.025529 2 8834 8834;8879 61.09 37.289 1 1795700 17845 876;1814 11405 11433 20460;20461 20460 0.1493148950764862 LPLLHKKIL 9 Unmodified _LPLLHKKIL_ 0 0 0 REV__ENST00000464072.1_1_2:191843483-191848388:-|nuORF REV__ENST00000464072.1_1_2:191843483-191848388:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1075.745361328125 1 1074.73976 1073.73249 3.4435 0.0037009 2.0297 0.0021814 5.4732 0.0058823 1075.740924048958 44.455 0.11387 45.276 45.21 45.324 0.82074 5 4 2 0 0 0 1.2459 1 20234 20234 0 0 1 234860 + 17846 11363 11406 11434 20462 20462 0.1985693943847764 LPLLLLKLHLW 11 Unmodified _LPLLLLKLHLW_ 0 0 0 nc|ENSG00000143554|Q5K4L6-3|SLC27A3;ENST00000468403.1_1_1:153747811-153748660:+|nuORF;nc|ENSG00000143554|Q5K4L6-2|SLC27A3;ENSG00000143554|ENST00000624995|SLC27A3 nc|ENSG00000143554|Q5K4L6-3|SLC27A3 nc|ENSG00000143554|Q5K4L6-3|SLC27A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 679.9498901367188 2 679.949759 1357.88496 NaN NaN NaN NaN NaN NaN NaN 88.933 1 89.611 89.111 90.111 0.67818 0 0 0 1.008 1 40952 40952 0.35063 0 1 17847 3379 11407 11435 20463 20463 0.22033715115207997 LPLLLLLLLRL 11 Unmodified _LPLLLLLLLRL_ 0 0 0 REV__nc|ENSG00000165731|P07949-2|RET REV__nc|ENSG00000165731|P07949-2|RET MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.4676513671875 2 645.467784 1288.92102 NaN NaN NaN NaN NaN NaN NaN 22.697 1 23.285 22.785 23.785 0.58739 0 0 0 1.0082 1 10100 10100 0 0 1 + 17848 13185 11408 11436 20464 20464 0.288111722920803 LPLLLLLLLRL 11 Unmodified _LPLLLLLLLRL_ 0 0 0 REV__nc|ENSG00000165731|P07949-2|RET REV__nc|ENSG00000165731|P07949-2|RET MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 645.46484375 2 645.467784 1288.92102 NaN NaN NaN NaN NaN NaN NaN 103.75 1 104.07 103.57 104.57 0.31863 0 0 0 1.0082 1 47962 47962 0 0 1 + 17849 13185 11408 11436 20465 20465 0.288111722920803 LPLLLLTV 8 Unmodified _LPLLLLTV_ 0 0 0 ENSG00000125872|ENST00000378858|LRRN4;LRRN4|p.L313Sfs*19|1|0.23|ENSG00000125872|chr20:6044604-6044604|G/-|frameshift_variant;ENST00000506287.1_1_4:8594572-8599194:+|nuORF;nc|ENSG00000109625|Q66K79-2|CPZ;ENSG00000109625|ENST00000360986|CPZ ENSG00000125872|ENST00000378858|LRRN4;nc|ENSG00000109625|Q66K79-2|CPZ ENSG00000125872|ENST00000378858|LRRN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.30682373046875 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 92.687 1 92.94 92.44 93.44 0.25253 0 0 0 0.99035 1 42605 42605 0 0 1 17850 2431;1680 11409 11437 20466 20466 0.15466494981785672 LPLLVLHLLLK 11 Unmodified _LPLLVLHLLLK_ 0 0 0 ENST00000496198.1_1_11:132202560-132205037:+|nuORF;ENST00000483174.1_1_11:132202315-132205037:+|nuORF;ENST00000474900.5_1_11:132180116-132205037:+|nuORF;nc|ENSG00000182667|Q9P121|NTM;nc|ENSG00000182667|Q9P121-2|NTM;nc|ENSG00000182667|Q9P121-4|NTM;ENSG00000182667|ENST00000683400|NTM ENST00000496198.1_1_11:132202560-132205037:+|nuORF ENST00000496198.1_1_11:132202560-132205037:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 636.4454345703125 2 636.444309 1270.87407 NaN NaN NaN NaN NaN NaN NaN 55.967 1 56.233 55.733 56.733 0.26543 0 0 0 1.0071 1 25597 25597 1.4819 1.0236 1 17851 5343 11410 11438 20467 20467 0.24946312740939902 LPLMVMLI 8 2 Oxidation (M) _LPLM(Oxidation (M))VM(Oxidation (M))LI_ LPLM(1)VM(1)LI LPLM(42)VM(42)LI 0 0 2 ENSG00000186867|ENST00000394427|QRFPR ENSG00000186867|ENST00000394427|QRFPR ENSG00000186867|ENST00000394427|QRFPR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.27874755859375 2 481.276675 960.538797 3.2565 0.0015673 0.95647 0.00046033 4.213 0.0020276 481.2770539277801 40.846 0.17825 41.115 40.956 41.134 0.26904 16 12 2 0 0 0 0.21389 1 18584 18584 41.817 15.549 1 792740 17852 5591 11411 11439 20468 20468 71;72 0.05694898615706734 LPLPFLSQR 9 Unmodified _LPLPFLSQR_ 0 0 0 ENST00000269321.11_1_17:79825624-79826158:-|nuORF ENST00000269321.11_1_17:79825624-79826158:-|nuORF ENST00000269321.11_1_17:79825624-79826158:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.55078125 3 357.550082 1069.62842 2.3293 0.00083285 1.0711 0.00038296 3.4004 0.0012158 357.55048919436575 51.784 0.95531 52.446 52.094 53.049 0.66198 111 49 3 0 0 0 0.96953 1 23683 23683 4.5289 1.7937 1 888510 17853 6642 11412 11440 20469 20469 0.09638612610933706 LPLPFLSQR 9 Unmodified _LPLPFLSQR_ 0 0 0 ENST00000269321.11_1_17:79825624-79826158:-|nuORF ENST00000269321.11_1_17:79825624-79826158:-|nuORF ENST00000269321.11_1_17:79825624-79826158:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 357.550082 1069.62842 2.6284 0.00093977 1.0232 0.00036584 3.6515 0.0013056 357.55041608671615 52.681 0.66296 52.681 52.582 53.245 0 0.10559 -8.1564E-05 NaN 4.5289 100 43 3 NaN NaN NaN NaN 0 NaN NaN 0 754470 17854 6642 11412 11440 0.09638612610933706 LPLPFLSQR 9 Unmodified _LPLPFLSQR_ 0 0 0 ENST00000269321.11_1_17:79825624-79826158:-|nuORF ENST00000269321.11_1_17:79825624-79826158:-|nuORF ENST00000269321.11_1_17:79825624-79826158:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 357.550082 1069.62842 1.8239 0.00065214 1.4923 0.00053356 3.3162 0.0011857 357.5505992217987 51.67 0.63971 52.48 52.276 52.916 0.81066 -0.095527 0.00042162 NaN 4.5289 77 40 3 NaN NaN NaN NaN 0 NaN NaN 0 716970 17855 6642 11412 11440 0.09638612610933706 LPLPPPQLSI 10 Unmodified _LPLPPPQLSI_ 0 0 0 ENST00000572585.5_1_17:909322-915797:-|nuORF ENST00000572585.5_1_17:909322-915797:-|nuORF ENST00000572585.5_1_17:909322-915797:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.8316040039062 2 537.831517 1073.64848 2.8262 0.00152 2.0048 0.0010783 4.831 0.0025983 537.8322022072964 70.349 0.39028 71.011 70.874 71.265 0.66209 32 22 2 0 0 0 0.4834 1 32344 32344 21.747 1.293 1 265720 17856 9099 11413 11441 20470 20470 0.11460363550895636 LPLPQKSR 8 Unmodified _LPLPQKSR_ 0 0 0 HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|165|3|anti-sense HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|165|3|anti-sense HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|165|3|anti-sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 313.5317687988281 3 313.53091 937.5709 2.0738 0.0006502 0.46367 0.00014537 2.5375 0.00079557 313.5310673524331 17.339 0.27216 17.339 17.22 17.493 0 29 19 2 0 0 0 0.67192 1 7735 7735 8.1555 1.4324 1 224310 17857 9401 11414 11442 20471 20471 0.09961770405368497 LPLPWFCCAGM 11 Unmodified _LPLPWFCCAGM_ 0 0 0 REV__ENST00000333188.9_1_3:139079995-139080058:-|nuORF REV__ENST00000333188.9_1_3:139079995-139080058:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.3575439453125 2 619.281966 1236.54938 NaN NaN NaN NaN NaN NaN NaN 81.412 1 81.581 81.081 82.081 0.16862 0 0 0 0.99968 1 40019 40019 6.7232 3.1267 1 + 17858 15396 11415 11443 20472 20472 -0.05943442001535004 LPLPWLCHPE 10 Unmodified _LPLPWLCHPE_ 0 0 0 REV__ENST00000472723.1_1_9:130495774-130495906:-|nuORF REV__ENST00000472723.1_1_9:130495774-130495906:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 603.2839965820312 2 602.812802 1203.61105 NaN NaN NaN NaN NaN NaN NaN 46.923 1 46.923 46.423 47.423 0 0 0 0 0.94083 1 21479 21479 14.838 0 1 + 17859 16618 11416 11444 20473 20473 0.01738949013633828 LPLQKYLSFAF 11 Unmodified _LPLQKYLSFAF_ 0 0 0 REV__CON__Q9TTE1 REV__CON__Q9TTE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 663.8773803710938 2 663.876456 1325.73836 NaN NaN NaN NaN NaN NaN NaN 81.098 1 81.098 80.598 81.598 0 0 0 0 1.0072 1 40371 40371 1.3295 0 1 + + 17860 10107 11417 11445 20474 20474 0.08851993159464655 LPLRAKLAT 9 Unmodified _LPLRAKLAT_ 0 0 0 REV__ENST00000299697.11_1_16:66544665-66544833:-|nuORF REV__ENST00000299697.11_1_16:66544665-66544833:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.8258056640625 2 491.824027 981.633501 NaN NaN NaN NaN NaN NaN NaN 32.084 1 32.702 32.202 33.202 0.61831 0 0 0 0.8984 1 14712 14712 3.9444 0 1 + 17861 15178 11418 11446 20475 20475 0.14194916473547892 LPLRKLKVRKG 11 Unmodified _LPLRKLKVRKG_ 0 0 0 ENST00000535834.1_1_19:16254538-16262324:+|nuORF ENST00000535834.1_1_19:16254538-16262324:+|nuORF ENST00000535834.1_1_19:16254538-16262324:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 654.452880859375 2 654.453531 1306.89251 NaN NaN NaN NaN NaN NaN NaN 59.63 1 60.295 59.795 60.795 0.66503 0 0 0 1.008 1 27297 27297 0.35063 0 1 17862 8767 11419 11447 20476 20476 0.25133867435488355 LPLRRRWRRP 10 Unmodified _LPLRRRWRRP_ 0 0 0 ENST00000418337.6_2_7:151292537-151329253:-|nuORF;ENST00000493872.5_1_7:151328836-151329256:-|nuORF ENST00000418337.6_2_7:151292537-151329253:-|nuORF ENST00000418337.6_2_7:151292537-151329253:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 703.4422607421875 2 703.441821 1404.86909 NaN NaN NaN NaN NaN NaN NaN 57.864 1 58.632 58.132 59.132 0.76861 0 0 0 1.0011 1 26524 26524 1.8442 0.36234 1 17863 7732 11420 11448 20477 20477 0.18284866441535996 LPLSNLYETL 10 Unmodified _LPLSNLYETL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000515433.1_1_5:135381935-135382190:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.8231811523438 2 581.821347 1161.62814 3.7421 0.0021773 -0.23276 -0.00013542 3.5094 0.0020418 582.3226658640341 85.899 0.30213 86.57 86.332 86.634 0.6706 24 17 2 0 0 0 0.32471 2 39515 39473;39515 27.629 13.723 1 325770 17864 2210 11421 11449 20478;20479 20479 0.05379148100405473 LPLSSVLRLIK 11 Unmodified _LPLSSVLRLIK_ 0 0 0 REV__ENST00000360351.8_2_2:210444196-210444307:+|nuORF REV__ENST00000360351.8_2_2:210444196-210444307:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.9155883789062 2 619.913373 1237.81219 NaN NaN NaN NaN NaN NaN NaN 73.596 1 73.855 73.355 74.355 0.25876 0 0 0 1.0059 1 33807 33807 2.9952 1.5133 1 + 17865 15608 11422 11450 20480 20480 0.20279961321784867 LPLVKPYL 8 Unmodified _LPLVKPYL_ 0 0 0 nc|ENSG00000070371|P53675-2|CLTCL1;ENSG00000070371|ENST00000427926|CLTCL1;ENST00000496076.1_1_17:57761081-57761370:+|nuORF;nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC;CLTC|p.N1492Kfs*34|1|0.12|ENSG00000141367|chr17:59685097-59685097|T/-|frameshift_variant nc|ENSG00000070371|P53675-2|CLTCL1;nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.8063659667969 2 471.804771 941.59499 2.8202 0.0013306 0.21829 0.00010299 3.0385 0.0014336 471.8048794796976 62.646 0.19666 62.896 62.854 63.051 0.24965 41 26 2 0 0 0 0.077224 1 28680 28680 56.541 12.134 1 3453700 17866 3246;763 11423 11451 20481 20481 0.1218561083902614 LPLWEWYSL 9 Unmodified _LPLWEWYSL_ 0 0 0 REV__ENSG00000215251|ENST00000380266|FASTKD5 REV__ENSG00000215251|ENST00000380266|FASTKD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 604.1675415039062 2 603.813325 1205.6121 NaN NaN NaN NaN NaN NaN NaN 76.593 1 77.257 76.757 77.757 0.66387 0 0 0 0.3934 1 35288 35288 23.148 6.0355 1 + 17867 14524 11424 11452 20482 20482 0.017514866541887386 LPLWLMGL 8 Unmodified _LPLWLMGL_ 0 0 0 ENST00000357028.6_1_9:134735684-134735831:-|nuORF ENST00000357028.6_1_9:134735684-134735831:-|nuORF ENST00000357028.6_1_9:134735684-134735831:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.7795104980469 2 471.777699 941.540846 3.0432 0.0014357 0.46238 0.00021814 3.5056 0.0016539 471.7778969491367 14.995 0.4678 15.648 15.455 15.923 0.65356 111 43 3 0 0 0 0.73686 1 6840 6840 2.8892 0 1 882060 17868 7169 11425 11453 20483 20483 0.067736954158363 LPLYCCMCP 9 Unmodified _LPLYCCMCP_ 0 0 0 REV__nc|ENSG00000198369|Q7Z698-2|SPRED2 REV__nc|ENSG00000198369|Q7Z698-2|SPRED2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.1849975585938 2 521.71507 1041.41559 NaN NaN NaN NaN NaN NaN NaN 61.133 1 61.386 60.886 61.886 0.25245 0 0 0 0.89315 1 27996 27996 5.2307 0.90143 1 + 17869 14336 11426 11454 20484 20484 -0.10346424098747775 LPLYPWAN 8 Unmodified _LPLYPWAN_ 0 0 0 nc|ENSG00000142784|Q8N5D0-5|WDTC1;nc|ENSG00000142784|Q8N5D0-3|WDTC1;ENST00000491239.2_1_1:27614218-27630434:+|nuORF nc|ENSG00000142784|Q8N5D0-5|WDTC1 nc|ENSG00000142784|Q8N5D0-5|WDTC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.2613525390625 2 487.260728 972.506903 NaN NaN NaN NaN NaN NaN NaN 38.57 1 39.368 38.868 39.868 0.79762 0 0 0 0.94507 1 17471 17471 9.3474 1.4373 1 17870 9676 11427 11455 20485 20485 0.019549902484072845 LPMGRGKYK 9 Unmodified _LPMGRGKYK_ 0 0 0 ENSG00000051341|ENST00000264233|POLQ;nc|ENSG00000051341|O75417-2|POLQ;ENST00000474243.1_1_3:121168241-121187219:-|nuORF ENSG00000051341|ENST00000264233|POLQ ENSG00000051341|ENST00000264233|POLQ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 525.2704467773438 2 525.299862 1048.58517 NaN NaN NaN NaN NaN NaN NaN 55.721 1 55.721 55.221 56.221 0 0 0 0 0.86044 1 25625 25625 7.2892 0 1 17871 587 11428 11456 20486 20486 0.06282099562008625 LPMKFKPMK 9 Unmodified _LPMKFKPMK_ 0 0 0 REV__AHNAK2|p.S4999Lfs*33|1|0.15|ENSG00000185567|chr14:104940456-104940456|A/-|frameshift_variant REV__AHNAK2|p.S4999Lfs*33|1|0.15|ENSG00000185567|chr14:104940456-104940456|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.3294067382812 2 560.324491 1118.63443 3.4981 0.0019601 0.71621 0.00040131 4.2143 0.0023614 560.3277585031725 54.908 0.29537 55.574 55.428 55.723 0.6665 39 13 4 0 0 0 0.20384 1 25109 25109 23.148 3.8914 1 1745600 + 17872 9935 11429 11457 20487 20487 0.07985671526603255 LPMLKVLNL 9 Unmodified _LPMLKVLNL_ 0 0 0 ENSG00000164342|ENST00000296795|TLR3;chr4:186082550-186082743|473|10.7|0.4|4.75|+|ENST00000513189|TLR3,TLR3 ENSG00000164342|ENST00000296795|TLR3 ENSG00000164342|ENST00000296795|TLR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.8327026367188 2 520.830463 1039.64637 3.238 0.0016864 0.68197 0.00035519 3.9199 0.0020416 521.3323833728946 81.811 0.28062 82.059 81.88 82.16 0.24803 25 15 2 0 0 0 0.057744 1 37673 37673 43.858 24.601 1 639060 17873 4308 11430 11458 20488 20488 0.12813611541423597 LPMLKVLNL 9 Unmodified _LPMLKVLNL_ 0 0 0 ENSG00000164342|ENST00000296795|TLR3;chr4:186082550-186082743|473|10.7|0.4|4.75|+|ENST00000513189|TLR3,TLR3 ENSG00000164342|ENST00000296795|TLR3 ENSG00000164342|ENST00000296795|TLR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.8316040039062 2 520.830463 1039.64637 3.4536 0.0017987 0.18817 9.8005E-05 3.6418 0.0018967 520.830329147905 81.073 0.38729 81.733 81.485 81.872 0.65998 27 18 2 0 0 0 0.047285 1 37355 37355 48.346 21.462 1 460600 17874 4308 11430 11458 20489 20489 0.12813611541423597 LPMPTEPLL 9 Unmodified _LPMPTEPLL_ 0 0 0 ENST00000565167.1_1_15:41810158-41813973:-|nuORF;nc|ENSG00000103932|Q9BWH6-3|RPAP1;nc|ENSG00000103932|Q9BWH6-2|RPAP1;ENSG00000103932|ENST00000304330|RPAP1 ENST00000565167.1_1_15:41810158-41813973:-|nuORF ENST00000565167.1_1_15:41810158-41813973:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.7856750488281 2 505.783179 1009.5518 3.3828 0.001711 -0.24401 -0.00012342 3.1388 0.0015875 505.78296661044277 82.292 0.28945 82.952 82.795 83.085 0.66019 24 16 2 0 0 0 0.086747 1 37923 37923 36.044 0 1 388550 17875 1416 11431 11459 20490 20490 0.047410529994408535 LPMRKKKRKKK 11 Unmodified _LPMRKKKRKKK_ 0 0 0 REV__nc|ENSG00000170703|Q8N841-4|TTLL6 REV__nc|ENSG00000170703|Q8N841-4|TTLL6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 720.5123291015625 2 720.987215 1439.95988 NaN NaN NaN NaN NaN NaN NaN 100.28 1 100.34 99.843 100.84 0.059723 0 0 0 1.008 1 54379 54379 0.35063 0.043601 1 + 17876 18041 11432 11460 20491 20491 0.25749574374776785 LPMRWIRRKLW 11 Unmodified _LPMRWIRRKLW_ 0 0 0 REV__ENST00000577847.1_1_17:18087769-18087952:-|nuORF REV__ENST00000577847.1_1_17:18087769-18087952:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 777.98291015625 2 777.96374 1553.91293 NaN NaN NaN NaN NaN NaN NaN 98.683 1 98.683 98.183 99.183 0 0 0 0 1.008 1 54071 54071 0.35063 0.35063 1 + 17877 17485 11433 11461 20492 20492 0.15812714823641727 LPMSDQYVKL 10 Unmodified _LPMSDQYVKL_ 0 0 0 nc|ENSG00000065000|O14617-3|AP3D1;nc|ENSG00000065000|O14617-2|AP3D1;nc|ENSG00000065000|O14617|AP3D1;ENSG00000065000|ENST00000643116|AP3D1;nc|ENSG00000065000|O14617-4|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.3176879882812 2 597.315374 1192.6162 3.717 0.0022202 -0.046414 -2.7724E-05 3.6705 0.0021925 597.3153503955625 57.679 0.37463 57.943 57.799 58.174 0.26444 51 20 3 0 0 0 0.0044619 3 26433 26386;26433;26482 94.909 49.209 1 1276000 17878 681 11434 11462 20493;20494;20495 20494 0.02759208085581122 LPMSDQYVKL 10 Unmodified _LPMSDQYVKL_ 0 0 0 nc|ENSG00000065000|O14617-3|AP3D1;nc|ENSG00000065000|O14617-2|AP3D1;nc|ENSG00000065000|O14617|AP3D1;ENSG00000065000|ENST00000643116|AP3D1;nc|ENSG00000065000|O14617-4|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.3172607421875 2 597.315374 1192.6162 4.113 0.0024568 -0.2952 -0.00017633 3.8178 0.0022804 597.315317820822 57.171 0.24384 57.839 57.674 57.918 0.66829 30 12 3 0 0 0 3.4161E-05 2 26123 26123;26188 111.31 61.755 1 1803000 17879 681 11434 11462 20496;20497 20496 0.02759208085581122 LPMSDQYVKL 10 Unmodified _LPMSDQYVKL_ 0 0 0 nc|ENSG00000065000|O14617-3|AP3D1;nc|ENSG00000065000|O14617-2|AP3D1;nc|ENSG00000065000|O14617|AP3D1;ENSG00000065000|ENST00000643116|AP3D1;nc|ENSG00000065000|O14617-4|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 597.315374 1192.6162 3.3488 0.0020003 -0.4646 -0.00027751 2.8842 0.0017228 597.8175281944294 58.043 0.22059 58.043 57.925 58.146 0 0.10125 -0.00033682 NaN 111.31 41 22 3 NaN NaN NaN NaN 0 NaN NaN 0 998210 17880 681 11434 11462 0.02759208085581122 LPMVILTELL 10 Unmodified _LPMVILTELL_ 0 0 0 REV__nc|ENSG00000109163|P30968-2|GNRHR REV__nc|ENSG00000109163|P30968-2|GNRHR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.2370910644531 3 381.234883 1140.68282 NaN NaN NaN NaN NaN NaN NaN 22.194 1 22.781 22.281 23.281 0.58739 0 0 0 0.91216 1 9870 9870 19.362 1.2156 1 + 17881 11165 11435 11463 20498 20498 0.11810443647482316 LPNEELSVI 9 Unmodified _LPNEELSVI_ 0 0 0 REV__nc|ENSG00000158865|Q8WWX8-6|SLC5A11 REV__nc|ENSG00000158865|Q8WWX8-6|SLC5A11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1013.5549926757812 1 1013.55135 1012.54408 3.3795 0.0034253 0.46958 0.00047594 3.849 0.0039012 1013.5511393335959 76.975 0.29351 77.638 77.514 77.807 0.66303 30 25 2 0 0 0 0.020151 2 35492 35446;35492 68.081 3.8716 1 442150 + 17882 12835 11436 11464 20499;20500 20500 0.03830617003529824 LPNIEERIM 9 Unmodified _LPNIEERIM_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.7463989257812 2 557.799891 1113.58523 3.0342 0.0016925 0.57209 0.00031911 3.6063 0.0020116 557.8000148032766 56.121 0.41581 56.899 56.642 57.057 0.77786 56 33 2 0 0 0 0.06495 1 25640 25640 28.495 9.1326 1 1471000 17883 4204 11437 11465 20501 20501 0.03298054771335046 LPNIEERIM 9 Unmodified _LPNIEERIM_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.8017578125 2 557.799891 1113.58523 3.5638 0.0019879 -0.4844 -0.0002702 3.0794 0.0017177 557.7996844656625 56.079 0.5036 56.747 56.479 56.982 0.66829 35 26 2 0 0 0 0.02631 1 25659 25659 60.074 14.374 1 499710 17884 4204 11437 11465 20502 20502 0.03298054771335046 LPNIEERIM 9 Unmodified _LPNIEERIM_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 557.799891 1113.58523 3.584 0.0019991 0.12661 7.0623E-05 3.7106 0.0020698 557.7999889291574 57.014 0.44415 57.014 56.738 57.182 0 0.059309 0.00021503 NaN 60.074 58 47 2 NaN NaN NaN NaN 0 NaN NaN 0 1437400 17885 4204 11437 11465 0.03298054771335046 LPNIEERIM 9 Unmodified _LPNIEERIM_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 557.799891 1113.58523 3.5059 0.0019556 0.22617 0.00012616 3.7321 0.0020817 557.800011575808 56.894 0.19394 57.158 57.008 57.202 0.26444 0.20359 0.0003261 NaN 60.074 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 457890 17886 4204 11437 11465 0.03298054771335046 LPNKHNRET 9 Unmodified _LPNKHNRET_ 0 0 0 LTR19B_dup80|chr6:106743802-106744351:-|4.284117748742692|0.4191254365420057|3.35|537.0|8|2|sense LTR19B_dup80|chr6:106743802-106744351:-|4.284117748742692|0.4191254365420057|3.35|537.0|8|2|sense LTR19B_dup80|chr6:106743802-106744351:-|4.284117748742692|0.4191254365420057|3.35|537.0|8|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.2999267578125 2 554.796529 1107.5785 3.6841 0.0020439 -0.59445 -0.0003298 3.0896 0.0017141 555.2983346434321 65.513 0.3327 65.762 65.57 65.902 0.24848 36 15 3 0 0 0 0.10837 2 30015 30015;30048 30.637 30.637 1 1217900 17887 9496 11438 11466 20503;20504 20503 0.029018779349826218 LPNKHNRET 9 Unmodified _LPNKHNRET_ 0 0 0 LTR19B_dup80|chr6:106743802-106744351:-|4.284117748742692|0.4191254365420057|3.35|537.0|8|2|sense LTR19B_dup80|chr6:106743802-106744351:-|4.284117748742692|0.4191254365420057|3.35|537.0|8|2|sense LTR19B_dup80|chr6:106743802-106744351:-|4.284117748742692|0.4191254365420057|3.35|537.0|8|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.3001708984375 2 554.796529 1107.5785 3.6073 0.0020013 -0.72587 -0.00040271 2.8814 0.0015986 555.2982973140174 64.885 0.29778 65.542 65.394 65.692 0.65672 53 19 4 0 0 0 0.079031 1 29730 29730 37.974 8.8924 1 1374700 17888 9496 11438 11466 20505 20505 0.029018779349826218 LPNQKYYKICI 11 Unmodified _LPNQKYYKICI_ 0 0 0 REV__nc|ENSG00000174442|Q9H900-2|ZWILCH REV__nc|ENSG00000174442|Q9H900-2|ZWILCH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 691.8797607421875 2 691.878673 1381.74279 NaN NaN NaN NaN NaN NaN NaN 75.711 1 76.375 75.875 76.875 0.6635 0 0 0 1.0059 1 36670 36670 2.9952 0 1 + 17889 13632 11439 11467 20506 20506 0.06719134310742447 LPNRVWIHFR 10 Unmodified _LPNRVWIHFR_ 0 0 0 ENST00000352241.8_1_3:70016772-70016910:+|nuORF ENST00000352241.8_1_3:70016772-70016910:+|nuORF ENST00000352241.8_1_3:70016772-70016910:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 669.3836669921875 2 669.383106 1336.75166 NaN NaN NaN NaN NaN NaN NaN 70.392 1 70.648 70.148 71.148 0.25642 0 0 0 0.99733 1 32237 32237 3.9444 0.3479 1 17890 7136 11440 11468 20507 20507 0.09675288782068492 LPNSIYKQVIY 11 Unmodified _LPNSIYKQVIY_ 0 0 0 REV__ENSG00000120440|ENST00000239587|TTLL2 REV__ENSG00000120440|ENST00000239587|TTLL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 669.37890625 2 669.37682 1336.73909 NaN NaN NaN NaN NaN NaN NaN 99.622 1 100.22 99.72 100.72 0.59748 0 0 0 1.0061 1 46079 46079 2.7352 0 1 + 17891 11537 11441 11469 20508 20508 0.0841878780852312 LPNVDLVL 8 Unmodified _LPNVDLVL_ 0 0 0 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 882.5294189453125 1 882.529495 881.522219 3.9679 0.0035018 0.70268 0.00062014 4.6706 0.0041219 882.5298034563258 84.978 0.26131 85.226 85.075 85.336 0.24758 25 13 2 0 0 0 0.026256 2 39071 39071;39126 81.613 3.8861 1 1117700 17892 5780 11442 11470 20509;20510 20509 0.07671857045602337 LPNVDLVL 8 Unmodified _LPNVDLVL_ 0 0 0 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 882.5330810546875 1 882.529495 881.522219 4.084 0.0036043 0.39029 0.00034444 4.4743 0.0039487 882.5296418167325 84.367 0.33625 85.029 84.89 85.226 0.66219 41 19 3 0 0 0 0.037007 1 38872 38872 71.134 3.7897 1 1059000 17893 5780 11442 11470 20511 20511 0.07671857045602337 LPNVRVAE 8 Unmodified _LPNVRVAE_ 0 0 0 REV__ENST00000591006.5_1_17:42397371-42398600:-|nuORF REV__ENST00000591006.5_1_17:42397371-42398600:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 449.2626953125 2 449.261259 896.507966 3.3306 0.0014963 -0.41724 -0.00018745 2.9133 0.0013088 449.26110554930955 31.076 0.24571 31.332 31.225 31.471 0.25614 34 18 2 0 0 0 0.47217 1 14160 14160 23.148 0.41214 1 553350 + 17894 10247 11443 11471 20512 20512 0.05557204617332445 LPNWRKWLLWW 11 Unmodified _LPNWRKWLLWW_ 0 0 0 REV__nc|ENSG00000130653|Q6ZV29-3|PNPLA7 REV__nc|ENSG00000130653|Q6ZV29-3|PNPLA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 799.4448852539062 2 799.443163 1596.87177 NaN NaN NaN NaN NaN NaN NaN 66.051 1 66.051 65.551 66.551 0 0 0 0 1.0082 1 31515 31515 0.35063 0.081612 1 + 17895 11826 11444 11472 20513 20513 0.09721277055837163 LPPALLTCWLL 11 Unmodified _LPPALLTCWLL_ 0 0 0 ENSG00000106018|ENST00000262178|VIPR2 ENSG00000106018|ENST00000262178|VIPR2 ENSG00000106018|ENST00000262178|VIPR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.36279296875 2 620.362127 1238.7097 NaN NaN NaN NaN NaN NaN NaN 33.793 1 34.581 34.081 35.081 0.78795 0 0 0 1.0072 1 15299 15299 1.3295 0.13619 1 17896 1549 11445 11473 20514 20514 0.09989552258662115 LPPDDDDD 8 Unmodified _LPPDDDDD_ 0 0 0 REV__ENSG00000173175|ENST00000462833|ADCY5 REV__ENSG00000173175|ENST00000462833|ADCY5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.1763610839844 2 451.174712 900.334872 NaN NaN NaN NaN NaN NaN NaN 47.681 1 47.945 47.445 48.445 0.26363 0 0 0 0.99035 1 21794 21794 2.8892 0 1 + 17897 13585 11446 11474 20515 20515 -0.11928251020424341 LPPEKELAM 9 Unmodified _LPPEKELAM_ 0 0 0 ENST00000569217.1_1_16:28854298-28855510:-|nuORF;ENSG00000178952|ENST00000313511|TUFM ENST00000569217.1_1_16:28854298-28855510:-|nuORF ENST00000569217.1_1_16:28854298-28855510:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.2806396484375 2 514.27826 1026.54197 NaN NaN NaN NaN NaN NaN NaN 40.593 1 41.235 40.735 41.735 0.64136 0 0 0 0.40345 1 18557 18557 22.736 5.6234 1 17898 5187 11447 11475 20516 20516 0.02975864994073163 LPPEKELAM 9 Unmodified _LPPEKELAM_ 0 0 0 ENST00000569217.1_1_16:28854298-28855510:-|nuORF;ENSG00000178952|ENST00000313511|TUFM ENST00000569217.1_1_16:28854298-28855510:-|nuORF ENST00000569217.1_1_16:28854298-28855510:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.2778930664062 2 514.27826 1026.54197 NaN NaN NaN NaN NaN NaN NaN 40.701 1 41.342 40.842 41.842 0.64136 0 0 0 0.33854 1 18607 18607 25.399 2.2509 1 17899 5187 11447 11475 20517 20517 0.02975864994073163 LPPELWRPC 9 Unmodified _LPPELWRPC_ 0 0 0 REV__ENST00000351288.10_3_2:130930900-130931209:-|nuORF REV__ENST00000351288.10_3_2:130930900-130931209:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.7922973632812 2 555.791869 1109.56919 NaN NaN NaN NaN NaN NaN NaN 36.333 1 36.959 36.459 37.459 0.62631 0 0 0 0.90699 1 16636 16636 1.8442 0 1 + 17900 15523 11448 11476 20518 20518 0.018783933251143026 LPPEMEVAL 9 Unmodified _LPPEMEVAL_ 0 0 0 nc|ENSG00000047849|P27816-2|MAP4;nc|ENSG00000047849|P27816-6|MAP4;nc|ENSG00000047849|P27816|MAP4;ENSG00000047849|ENST00000683076|MAP4 nc|ENSG00000047849|P27816-2|MAP4 nc|ENSG00000047849|P27816-2|MAP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.7670593261719 2 499.764986 997.515419 2.9213 0.00146 0.50736 0.00025356 3.4287 0.0017135 499.765244822026 75.103 0.31741 75.362 75.148 75.465 0.25831 45 31 2 0 0 0 0.09451 2 34510 34510;34566 34.102 18.255 1 604880 17901 562 11449 11477 20519;20520 20519 0.016561761027446664 LPPFLTVSLLR 11 Unmodified _LPPFLTVSLLR_ 0 0 0 nc|ENSG00000085982|Q9NVE5|USP40;ENSG00000085982|ENST00000678225|USP40;nc|ENSG00000085982|Q9NVE5-3|USP40 nc|ENSG00000085982|Q9NVE5|USP40 nc|ENSG00000085982|Q9NVE5|USP40 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 419.2655944824219 3 419.263941 1254.76999 NaN NaN NaN NaN NaN NaN NaN 70.696 1 71.358 70.858 71.858 0.66209 0 0 0 1.0072 1 32402 32402 1.3296 0.11481 1 17902 977 11450 11478 20521 20521 0.1527998591341202 LPPFRKPQ 8 Unmodified _LPPFRKPQ_ 0 0 0 nc|ENSG00000143514|Q13625-2|TP53BP2;nc|ENSG00000143514|Q13625|TP53BP2;ENSG00000143514|ENST00000343537|TP53BP2 nc|ENSG00000143514|Q13625-2|TP53BP2 nc|ENSG00000143514|Q13625-2|TP53BP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.2004089355469 3 328.199272 981.575986 2.2494 0.00073824 1.28 0.00042009 3.5293 0.0011583 328.19956770897966 59.195 0.73398 59.862 59.245 59.979 0.66703 47 34 2 0 0 0 0.74071 1 27073 27073 1.6526 0 1 1852600 17903 3376 11451 11479 20522 20522 0.08446074267999393 LPPGFVGK 8 Unmodified _LPPGFVGK_ 0 0 0 REV__ENSG00000114841|ENST00000420323|DNAH1;REV__ENSG00000118997|ENST00000312428|DNAH7 REV__ENSG00000114841|ENST00000420323|DNAH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.7459411621094 2 407.744714 813.474875 3.0241 0.0012331 -0.02375 -9.684E-06 3.0004 0.0012234 407.74460683451696 26.1 0.45083 26.365 26.135 26.586 0.26489 53 41 2 0 0 0 0.70146 1 11901 11901 5.7604 0 1 464840 + 17904 11333;11487 11452 11480 20523 20523 0.060676225652855464 LPPHIRKRGK 10 Unmodified _LPPHIRKRGK_ 0 0 0 ENST00000529500.1_1_11:47447261-47447800:-|nuORF ENST00000529500.1_1_11:47447261-47447800:-|nuORF ENST00000529500.1_1_11:47447261-47447800:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 401.2611999511719 3 401.259524 1200.75674 NaN NaN NaN NaN NaN NaN NaN 72.681 1 72.939 72.439 73.439 0.25876 0 0 0 1.0011 1 33368 33368 0.77653 0.078866 1 17905 8698 11453 11481 20524 20524 0.1643959264467867 LPPKFVGG 8 Unmodified _LPPKFVGG_ 0 0 0 REV__ENSG00000184271|ENST00000333640|POU6F1 REV__ENSG00000184271|ENST00000333640|POU6F1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 407.7454833984375 2 407.744714 813.474875 2.512 0.0010243 0.75852 0.00030928 3.2705 0.0013335 407.7448329976254 25.46 0.30897 26.224 26.09 26.399 0.76356 49 27 2 0 0 0 0.70146 2 11450 11397;11450 5.7604 5.7604 1 422490 + 17906 13964 11454 11482 20525;20526 20526 0.06067622565296915 LPPKFVGG 8 Unmodified _LPPKFVGG_ 0 0 0 REV__ENSG00000184271|ENST00000333640|POU6F1 REV__ENSG00000184271|ENST00000333640|POU6F1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 407.744714 813.474875 2.512 0.0010243 0.75852 0.00030928 3.2705 0.0013335 407.7448329976254 25.46 0.30897 26.224 26.09 26.399 0.76356 -0.11172 0.00039383 NaN 5.7604 49 27 2 NaN NaN NaN NaN 0 NaN NaN 0 422490 + 17907 13964 11454 11482 0.06067622565296915 LPPKFVGG 8 Unmodified _LPPKFVGG_ 0 0 0 REV__ENSG00000184271|ENST00000333640|POU6F1 REV__ENSG00000184271|ENST00000333640|POU6F1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 407.744714 813.474875 2.8659 0.0011685 0.16167 6.5921E-05 3.0275 0.0012345 407.7446527235911 25.793 0.32236 26.418 26.218 26.54 0.62505 0.082339 -9.289E-05 NaN 5.7604 38 32 2 NaN NaN NaN NaN 0 NaN NaN 0 490040 + 17908 13964 11454 11482 0.06067622565296915 LPPLFTKK 8 Unmodified _LPPLFTKK_ 0 0 0 REV__ENSG00000256053|ENST00000409074|COA8 REV__ENSG00000256053|ENST00000409074|COA8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 315.2046813964844 3 315.204023 942.590239 NaN NaN NaN NaN NaN NaN NaN 32.482 1 32.736 32.236 33.236 0.25452 0 0 0 0.99035 1 14793 14793 0.45834 0.057624 1 + 17909 14674 11455 11483 20527 20527 0.11664726696278649 LPPLFTKK 8 Unmodified _LPPLFTKK_ 0 0 0 REV__ENSG00000256053|ENST00000409074|COA8 REV__ENSG00000256053|ENST00000409074|COA8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 315.20513916015625 3 315.204023 942.590239 NaN NaN NaN NaN NaN NaN NaN 32.593 1 32.847 32.347 33.347 0.25452 0 0 0 0.99035 1 14843 14843 0.45834 0.057624 1 + 17910 14674 11455 11483 20528 20528 0.11664726696278649 LPPLFTKK 8 Unmodified _LPPLFTKK_ 0 0 0 REV__ENSG00000256053|ENST00000409074|COA8 REV__ENSG00000256053|ENST00000409074|COA8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 315.20355224609375 3 315.204023 942.590239 NaN NaN NaN NaN NaN NaN NaN 24.43 1 25.059 24.559 25.559 0.62915 0 0 0 0.99035 1 11178 11178 0.45834 0 1 + 17911 14674 11455 11483 20529 20529 0.11664726696278649 LPPLLLKIRTF 11 Unmodified _LPPLLLKIRTF_ 0 0 0 ENST00000555567.5_1_14:75408765-75409119:-|nuORF ENST00000555567.5_1_14:75408765-75409119:-|nuORF ENST00000555567.5_1_14:75408765-75409119:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 655.9304809570312 2 655.931566 1309.84858 NaN NaN NaN NaN NaN NaN NaN 68.549 1 69.251 68.751 69.751 0.70218 0 0 0 1.0071 1 32687 32687 1.4819 0 1 17912 8917 11456 11484 20530 20530 0.20604838218469013 LPPLLLLVLV 10 Unmodified _LPPLLLLVLV_ 0 0 0 nc|ENSG00000284797|A0A2R8Y7Y5|CIST1 nc|ENSG00000284797|A0A2R8Y7Y5|CIST1 nc|ENSG00000284797|A0A2R8Y7Y5|CIST1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.383544921875 2 545.385929 1088.7573 NaN NaN NaN NaN NaN NaN NaN 91.693 1 91.775 91.275 92.275 0.082848 0 0 0 1.0015 1 47586 47586 0.45834 0 1 17913 9874 11457 11485 20531 20531 0.2164757452117101 LPPLRRSM 8 Unmodified _LPPLRRSM_ 0 0 0 REV__ENST00000416928.6_1_2:177040400-177040706:-|nuORF REV__ENST00000416928.6_1_2:177040400-177040706:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2884826660156 2 485.286754 968.558955 NaN NaN NaN NaN NaN NaN NaN 69.045 1 69.3 68.8 69.8 0.25443 0 0 0 0.99035 1 31629 31629 2.5775 0 1 + 17914 16138 11458 11486 20532 20532 0.07341830390532778 LPPPGVRKIVL 11 Unmodified _LPPPGVRKIVL_ 0 0 0 ENST00000504778.5_1_5:54552318-54579000:-|nuORF;ENSG00000067248|ENST00000251636|DHX29;ENST00000513447.1_1_5:54566383-54570502:-|nuORF ENST00000504778.5_1_5:54552318-54579000:-|nuORF ENST00000504778.5_1_5:54552318-54579000:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 594.8956909179688 2 594.894983 1187.77541 NaN NaN NaN NaN NaN NaN NaN 75.347 1 75.347 74.847 75.847 0 0 0 0 1.0057 1 36919 36919 3.2813 1.4371 1 17915 722 11459 11487 20533 20533 0.18903709495884868 LPPPRPLPKF 10 Unmodified _LPPPRPLPKF_ 0 0 0 REV__nc|ENSG00000095397|Q9P202-3|WHRN REV__nc|ENSG00000095397|Q9P202-3|WHRN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.88665771484375 3 387.90961 1160.707 2.261 0.00087706 -0.95113 -0.00036895 1.3099 0.00050811 387.90978005856186 12.906 0.11926 13.213 13.159 13.279 0.30727 5 3 2 0 0 0 0.90216 1 5823 5823 3.5871 0.85186 1 95825 + 17916 10763 11460 11488 20534 20534 0.13307464916033496 LPPRKAILRKL 11 Unmodified _LPPRKAILRKL_ 0 0 0 REV__nc|ENSG00000123329|Q9BRR9-4|ARHGAP9 REV__nc|ENSG00000123329|Q9BRR9-4|ARHGAP9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 652.9472045898438 2 652.948082 1303.88161 NaN NaN NaN NaN NaN NaN NaN 57.378 1 57.642 57.142 58.142 0.26444 0 0 0 1.008 1 26265 26265 0.35063 0.35063 1 + 17917 11613 11461 11489 20535 20535 0.24182465061198855 LPPWKWKFQLR 11 Unmodified _LPPWKWKFQLR_ 0 0 0 ENST00000342992.10_3_2:179400465-179400825:-|nuORF ENST00000342992.10_3_2:179400465-179400825:-|nuORF ENST00000342992.10_3_2:179400465-179400825:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 749.9393920898438 2 749.937714 1497.86087 NaN NaN NaN NaN NaN NaN NaN 90.109 1 90.781 90.281 91.281 0.67271 0 0 0 1.008 1 41476 41476 0.30703 0 1 17918 7086 11462 11490 20536 20536 0.13185874681539644 LPPWRRRRFL 10 Unmodified _LPPWRRRRFL_ 0 0 0 ENST00000571543.1_1_17:1131443-1132291:-|nuORF ENST00000571543.1_1_17:1131443-1132291:-|nuORF ENST00000571543.1_1_17:1131443-1132291:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 698.9277954101562 2 698.925472 1395.83639 NaN NaN NaN NaN NaN NaN NaN 61.386 1 62.049 61.549 62.549 0.66261 0 0 0 0.99983 1 28111 28111 1.8442 0.36234 1 17919 9090 11463 11491 20537 20537 0.15430659318667495 LPPYYLFM 8 Unmodified _LPPYYLFM_ 0 0 0 REV__ENSG00000204624|ENST00000294484|DISP3 REV__ENSG00000204624|ENST00000294484|DISP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.2683715820312 2 522.267164 1042.51978 3.3505 0.0017498 -0.41605 -0.00021729 2.9344 0.0015325 522.2670233140698 26.896 0.40672 27.161 26.964 27.371 0.26489 38 25 2 0 0 0 0.73686 1 12313 12313 2.8892 0 1 272630 + 17920 14432 11464 11492 20538 20538 0.00021685316301045532 LPQADWII 8 Unmodified _LPQADWII_ 0 0 0 ABCC6|p.R987Lfs*25|1|0.2|ENSG00000091262|chr16:16169681-16169681|C/-|frameshift_variant;ABCC6|p.R1418Gfs*46|1|0.12|ENSG00000091262|chr16:16150729-16150729|G/-|frameshift_variant;ENSG00000091262|ENST00000205557|ABCC6 ABCC6|p.R987Lfs*25|1|0.2|ENSG00000091262|chr16:16169681-16169681|C/-|frameshift_variant ABCC6|p.R987Lfs*25|1|0.2|ENSG00000091262|chr16:16169681-16169681|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.2658996582031 2 478.26601 954.517468 NaN NaN NaN NaN NaN NaN NaN 28.951 1 29.569 29.069 30.069 0.61789 0 0 0 0.37748 1 13275 13275 32.305 3.8186 1 17921 0 11465 11493 20539 20539 0.0383897290286086 LPQDGNGY 8 Unmodified _LPQDGNGY_ 0 0 0 ENST00000469032.1_1_8:91072403-91072958:-|nuORF ENST00000469032.1_1_8:91072403-91072958:-|nuORF ENST00000469032.1_1_8:91072403-91072958:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 432.1998291015625 2 432.198325 862.382096 3.1873 0.0013776 -0.071165 -3.0757E-05 3.1161 0.0013468 432.19828359492004 29.35 0.76515 29.35 28.764 29.529 0 149 64 3 0 0 0 0.5438 2 13193 13037;13193 18.135 18.135 1 1884000 17922 8160 11466 11494 20540;20541 20541 -0.05459926958747019 LPQDGNGY 8 Unmodified _LPQDGNGY_ 0 0 0 ENST00000469032.1_1_8:91072403-91072958:-|nuORF ENST00000469032.1_1_8:91072403-91072958:-|nuORF ENST00000469032.1_1_8:91072403-91072958:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.1996154785156 2 432.198325 862.382096 2.8543 0.0012336 -0.2273 -9.8241E-05 2.627 0.0011354 432.19819940048257 28.391 0.30835 29.18 29.038 29.346 0.78921 49 26 2 0 0 0 0.45037 1 12821 12821 24.674 24.674 1 4022700 17923 8160 11466 11494 20542 20542 -0.05459926958747019 LPQDGNGY 8 Unmodified _LPQDGNGY_ 0 0 0 ENST00000469032.1_1_8:91072403-91072958:-|nuORF ENST00000469032.1_1_8:91072403-91072958:-|nuORF ENST00000469032.1_1_8:91072403-91072958:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 432.1995544433594 2 432.198325 862.382096 2.9674 0.0012825 0.072979 3.1542E-05 3.0404 0.0013141 432.1983464554607 29.127 0.39402 29.387 29.187 29.581 0.2602 61 25 3 0 0 0 0.45037 1 13261 13261 24.674 24.674 1 1430600 17924 8160 11466 11494 20543 20543 -0.05459926958747019 LPQDGNGY 8 Unmodified _LPQDGNGY_ 0 0 0 ENST00000469032.1_1_8:91072403-91072958:-|nuORF ENST00000469032.1_1_8:91072403-91072958:-|nuORF ENST00000469032.1_1_8:91072403-91072958:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 432.19970703125 2 432.198325 862.382096 3.0229 0.0013065 -0.78425 -0.00033895 2.2387 0.00096754 432.19792059315546 28.891 0.39992 29.508 29.235 29.635 0.61789 55 29 2 0 0 0 0.5438 2 13208 13208;13255 18.135 18.135 1 1704800 17925 8160 11466 11494 20544;20545 20544 -0.05459926958747019 LPQDGNGY 8 Unmodified _LPQDGNGY_ 0 0 0 ENST00000469032.1_1_8:91072403-91072958:-|nuORF ENST00000469032.1_1_8:91072403-91072958:-|nuORF ENST00000469032.1_1_8:91072403-91072958:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 432.198325 862.382096 2.8598 0.001236 -0.11349 -4.9052E-05 2.7463 0.001187 432.1983278283091 28.706 0.13065 28.966 28.843 28.974 0.2602 -0.15688 -1.852E-05 NaN 24.674 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 887410 17926 8160 11466 11494 -0.05459926958747019 LPQDGNGY 8 Unmodified _LPQDGNGY_ 0 0 0 ENST00000469032.1_1_8:91072403-91072958:-|nuORF ENST00000469032.1_1_8:91072403-91072958:-|nuORF ENST00000469032.1_1_8:91072403-91072958:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 432.198325 862.382096 2.9993 0.0012963 0.071093 3.0726E-05 3.0704 0.001327 432.1983932483646 28.376 0.55142 28.995 28.685 29.237 0.61947 -0.12766 0.00014104 NaN 24.674 57 34 2 NaN NaN NaN NaN 0 NaN NaN 0 327790 17927 8160 11466 11494 -0.05459926958747019 LPQEDLEAL 9 Unmodified _LPQEDLEAL_ 0 0 0 ENSG00000105568|ENST00000322088|PPP2R1A ENSG00000105568|ENST00000322088|PPP2R1A ENSG00000105568|ENST00000322088|PPP2R1A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.1763305664062 2 514.268947 1026.52334 2.7744 0.0014268 -0.28498 -0.00014656 2.4895 0.0012802 514.268815819153 63.302 0.18274 63.302 63.245 63.428 0 32 19 2 0 0 0 0.0048746 1 29750 29750 47.749 3.8904 1 3211700 17928 1509 11467 11495 20546 20546 0.011140266238726326 LPQEDLEAL 9 Unmodified _LPQEDLEAL_ 0 0 0 ENSG00000105568|ENST00000322088|PPP2R1A ENSG00000105568|ENST00000322088|PPP2R1A ENSG00000105568|ENST00000322088|PPP2R1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.2708740234375 2 514.268947 1026.52334 3.2841 0.0016889 -1.0086 -0.00051867 2.2756 0.0011702 514.2686050724866 63.125 0.35254 63.375 63.169 63.521 0.24965 57 20 4 0 0 0 0.010018 3 28943 28845;28895;28943 81.89 6.9612 1 3104200 17929 1509 11467 11495 20547;20548;20549 20549 0.011140266238726326 LPQEDLEAL 9 Unmodified _LPQEDLEAL_ 0 0 0 ENSG00000105568|ENST00000322088|PPP2R1A ENSG00000105568|ENST00000322088|PPP2R1A ENSG00000105568|ENST00000322088|PPP2R1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1027.5391845703125 1 1027.53062 1026.52334 3.3822 0.0034754 0.38651 0.00039715 3.7688 0.0038725 1027.531026995401 62.553 0.28379 63.213 63.081 63.365 0.66008 28 16 2 0 0 0 0.02812 2 28680 28632;28680 57.722 7.789 1 883530 17930 1509 11467 11495 20550;20551 20551 0.011140266238726326 LPQEDLEAL 9 Unmodified _LPQEDLEAL_ 0 0 0 ENSG00000105568|ENST00000322088|PPP2R1A ENSG00000105568|ENST00000322088|PPP2R1A ENSG00000105568|ENST00000322088|PPP2R1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.2700805664062 2 514.268947 1026.52334 3.2143 0.001653 -0.26922 -0.00013845 2.9451 0.0015146 514.2687257064078 62.592 0.36661 63.25 63.025 63.392 0.6587 51 22 3 0 0 0 0.017293 2 28688 28639;28688 71.922 6.6873 1 3067500 17931 1509 11467 11495 20552;20553 20553 0.011140266238726326 LPQGKEPGL 9 Unmodified _LPQGKEPGL_ 0 0 0 ENST00000475066.1_1_7:154759501-154775093:-|nuORF;nc|ENSG00000157212|Q6ZW49-2|PAXIP1;nc|ENSG00000157212|Q6ZW49-1|PAXIP1;ENST00000457196.5_1_7:154735861-154782774:-|nuORF;ENSG00000157212|ENST00000404141|PAXIP1 ENST00000475066.1_1_7:154759501-154775093:-|nuORF ENST00000475066.1_1_7:154759501-154775093:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.76995849609375 2 469.768917 937.523281 3.1217 0.0014665 0.22014 0.00010341 3.3418 0.0015699 469.7689600628239 29.205 0.27131 29.205 29.032 29.303 0 32 20 2 0 0 0 0.59776 1 13144 13144 10.824 0 1 121510 17932 3943 11468 11496 20554 20554 0.052020714145328384 LPQGKEPGL 9 Unmodified _LPQGKEPGL_ 0 0 0 ENST00000475066.1_1_7:154759501-154775093:-|nuORF;nc|ENSG00000157212|Q6ZW49-2|PAXIP1;nc|ENSG00000157212|Q6ZW49-1|PAXIP1;ENST00000457196.5_1_7:154735861-154782774:-|nuORF;ENSG00000157212|ENST00000404141|PAXIP1 ENST00000475066.1_1_7:154759501-154775093:-|nuORF ENST00000475066.1_1_7:154759501-154775093:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.77001953125 2 469.768917 937.523281 NaN NaN NaN NaN NaN NaN NaN 29.292 1 29.292 28.792 29.792 0 0 0 0 0.65681 1 13218 13218 13.906 0 1 17933 3943 11468 11496 20555 20555 0.052020714145328384 LPQGKEPGL 9 Unmodified _LPQGKEPGL_ 0 0 0 ENST00000475066.1_1_7:154759501-154775093:-|nuORF;nc|ENSG00000157212|Q6ZW49-2|PAXIP1;nc|ENSG00000157212|Q6ZW49-1|PAXIP1;ENST00000457196.5_1_7:154735861-154782774:-|nuORF;ENSG00000157212|ENST00000404141|PAXIP1 ENST00000475066.1_1_7:154759501-154775093:-|nuORF ENST00000475066.1_1_7:154759501-154775093:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 469.768917 937.523281 2.9085 0.0013663 -0.12156 -5.7106E-05 2.7869 0.0013092 469.76883720769763 28.314 0.057911 29.101 29.092 29.15 0.78627 -0.052062 -0.0002597 NaN 10.824 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 331750 17934 3943 11468 11496 0.052020714145328384 LPQGSCFIVEI 11 Unmodified _LPQGSCFIVEI_ 0 0 0 REV__ENST00000278612.8_1_11:108058836-108062880:-|nuORF REV__ENST00000278612.8_1_11:108058836-108062880:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 402.21258544921875 3 402.546008 1204.6162 3.1889 0.0012837 -0.30682 -0.00012351 2.882 0.0011602 402.5462256458441 46.759 0.17244 47.025 46.924 47.096 0.26561 7 5 2 0 0 0 0.1321 1 21361 21361 19.987 0 1 833460 + 17935 15083 11469 11497 20556 20556 0.022072080855878085 LPQHEEICL 9 Carbamidomethyl (C) _LPQHEEIC(Carbamidomethyl (C))L_ LPQHEEIC(1)L LPQHEEIC(86)L 0 1 0 ENSG00000143624|ENST00000318967|INTS3;nc|ENSG00000143624|Q68E01|INTS3;ENST00000481797.5_1_1:153701080-153719633:+|nuORF ENSG00000143624|ENST00000318967|INTS3 ENSG00000143624|ENST00000318967|INTS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.7838745117188 2 569.781699 1137.54884 3.2769 0.0018671 0.5095 0.00029031 3.7864 0.0021574 569.7824878002276 46.794 0.83228 46.794 46.502 47.334 0 41 15 4 0 0 0 0.0079462 2 21413 21413;21466 85.642 19.185 1 5186800 17936 3383 11470 11498 20557;20558 20557 65 -0.014428221253865559 LPQHEEICL 9 Carbamidomethyl (C) _LPQHEEIC(Carbamidomethyl (C))L_ LPQHEEIC(1)L LPQHEEIC(64)L 0 1 0 ENSG00000143624|ENST00000318967|INTS3;nc|ENSG00000143624|Q68E01|INTS3;ENST00000481797.5_1_1:153701080-153719633:+|nuORF ENSG00000143624|ENST00000318967|INTS3 ENSG00000143624|ENST00000318967|INTS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.7847900390625 2 569.781699 1137.54884 3.5158 0.0020033 0.11915 6.7891E-05 3.635 0.0020711 569.782463866062 45.829 0.87866 46.655 46.256 47.135 0.82621 60 28 3 0 0 0 0.023321 1 20848 20848 63.961 16.212 1 4824200 17937 3383 11470 11498 20559 20559 65 -0.014428221253865559 LPQHEEICL 9 Carbamidomethyl (C) _LPQHEEIC(Carbamidomethyl (C))L_ LPQHEEIC(1)L LPQHEEIC(73)L 0 1 0 ENSG00000143624|ENST00000318967|INTS3;nc|ENSG00000143624|Q68E01|INTS3;ENST00000481797.5_1_1:153701080-153719633:+|nuORF ENSG00000143624|ENST00000318967|INTS3 ENSG00000143624|ENST00000318967|INTS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.7838134765625 2 569.781699 1137.54884 3.68 0.0020968 0.42231 0.00024063 4.1023 0.0023374 569.782329516432 46.703 0.8474 46.969 46.675 47.522 0.26561 37 15 4 0 0 0 0.016529 1 21360 21360 72.968 17.465 1 5119300 17938 3383 11470 11498 20560 20560 65 -0.014428221253865559 LPQHEEICL 9 Carbamidomethyl (C) _LPQHEEIC(Carbamidomethyl (C))L_ LPQHEEIC(1)L LPQHEEIC(60)L 0 1 0 ENSG00000143624|ENST00000318967|INTS3;nc|ENSG00000143624|Q68E01|INTS3;ENST00000481797.5_1_1:153701080-153719633:+|nuORF ENSG00000143624|ENST00000318967|INTS3 ENSG00000143624|ENST00000318967|INTS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.7845458984375 2 569.781699 1137.54884 3.9131 0.0022296 1.3325 0.00075922 5.2456 0.0029888 569.7832080633931 46.162 1.0008 46.814 46.501 47.502 0.65104 51 28 4 0 0 0 0.02631 1 21134 21134 60.074 14.053 1 3713500 17939 3383 11470 11498 20561 20561 65 -0.014428221253865559 LPQHHALARQE 11 Unmodified _LPQHHALARQE_ 0 0 0 REV__nc|ENSG00000185189|Q9NSY0-4|NRBP2 REV__nc|ENSG00000185189|Q9NSY0-4|NRBP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 650.353515625 2 650.34946 1298.68437 3.6219 0.0023555 2.3193 0.0015083 5.9412 0.0038638 650.8527238282429 42.498 0.13843 42.498 42.419 42.557 0 13 9 2 0 0 0 0.75723 1 19356 19356 8.7454 1.4562 1 826160 + 17940 18077 11471 11499 20562 20562 0.046972137804459635 LPQHPDVEM 9 Unmodified _LPQHPDVEM_ 0 0 0 ENST00000497453.1_1_1:154524878-154531400:-|nuORF;ENSG00000160714|ENST00000292211|UBE2Q1 ENST00000497453.1_1_1:154524878-154531400:-|nuORF ENST00000497453.1_1_1:154524878-154531400:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.256591796875 2 533.255317 1064.49608 2.9041 0.0015486 0.60088 0.00032042 3.505 0.001869 533.2558601401635 38.329 0.3891 38.593 38.369 38.758 0.26408 35 11 4 0 0 0 0.0013314 1 17424 17424 118.07 53.832 1 3624600 17941 4074 11472 11500 20563 20563 -0.03358780188182209 LPQHPDVEM 9 Unmodified _LPQHPDVEM_ 0 0 0 ENST00000497453.1_1_1:154524878-154531400:-|nuORF;ENSG00000160714|ENST00000292211|UBE2Q1 ENST00000497453.1_1_1:154524878-154531400:-|nuORF ENST00000497453.1_1_1:154524878-154531400:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.25732421875 2 533.255317 1064.49608 3.1252 0.0016665 0.32077 0.00017105 3.446 0.0018376 533.2555944567006 37.791 0.52655 38.424 38.118 38.645 0.63388 58 17 4 0 0 0 0.0012766 3 17268 17219;17268;17331 122.18 57.943 1 2641400 17942 4074 11472 11500 20564;20565;20566 20565 -0.03358780188182209 LPQHPDVEM 9 Unmodified _LPQHPDVEM_ 0 0 0 ENST00000497453.1_1_1:154524878-154531400:-|nuORF;ENSG00000160714|ENST00000292211|UBE2Q1 ENST00000497453.1_1_1:154524878-154531400:-|nuORF ENST00000497453.1_1_1:154524878-154531400:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 533.255317 1064.49608 3.1205 0.001664 0.82594 0.00044044 3.9464 0.0021045 533.2557770929757 38.491 0.4145 38.491 38.265 38.679 0 0.039825 0.00027004 NaN 122.18 53 19 4 NaN NaN NaN NaN 0 NaN NaN 0 2869600 17943 4074 11472 11500 -0.03358780188182209 LPQHPDVEM 9 Unmodified _LPQHPDVEM_ 0 0 0 ENST00000497453.1_1_1:154524878-154531400:-|nuORF;ENSG00000160714|ENST00000292211|UBE2Q1 ENST00000497453.1_1_1:154524878-154531400:-|nuORF ENST00000497453.1_1_1:154524878-154531400:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 533.255317 1064.49608 3.0976 0.0016518 0.78972 0.00042112 3.8873 0.0020729 533.2557584225806 37.501 0.38631 38.297 38.084 38.471 0.79552 -0.15474 0.00023142 NaN 122.18 52 18 4 NaN NaN NaN NaN 0 NaN NaN 0 2485200 17944 4074 11472 11500 -0.03358780188182209 LPQKFYWWFFQ 11 Unmodified _LPQKFYWWFFQ_ 0 0 0 nc|ENSG00000140279|Q9NRD8|DUOX2;ENSG00000140279|ENST00000389039|DUOX2 nc|ENSG00000140279|Q9NRD8|DUOX2 nc|ENSG00000140279|Q9NRD8|DUOX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 795.3978271484375 2 795.40063 1588.78671 NaN NaN NaN NaN NaN NaN NaN 84.796 1 84.825 84.325 85.325 0.028603 0 0 0 1.008 1 42379 42379 0.35063 0 1 17945 3188 11473 11501 20567 20567 0.01586486799328668 LPQKGDVEM 9 Unmodified _LPQKGDVEM_ 0 0 0 nc|ENSG00000130816|P26358-3|DNMT1;nc|ENSG00000130816|P26358|DNMT1;ENSG00000130816|ENST00000359526|DNMT1;ENST00000586588.5_1_19:10244345-10254710:-|nuORF;ENST00000587197.1_1_19:10250720-10250849:-|nuORF nc|ENSG00000130816|P26358-3|DNMT1 nc|ENSG00000130816|P26358-3|DNMT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.75872802734375 2 508.757692 1015.50083 3.1107 0.0015826 -0.074791 -3.8051E-05 3.0359 0.0015445 508.7575292101297 26.515 0.29123 27.293 27.128 27.419 0.7787 36 22 2 0 0 0 0.24524 1 11883 11883 20.415 1.1575 1 385780 17946 2623 11474 11502 20568 20568 -0.00629896045404621 LPQKGDVEM 9 Unmodified _LPQKGDVEM_ 0 0 0 nc|ENSG00000130816|P26358-3|DNMT1;nc|ENSG00000130816|P26358|DNMT1;ENSG00000130816|ENST00000359526|DNMT1;ENST00000586588.5_1_19:10244345-10254710:-|nuORF;ENST00000587197.1_1_19:10250720-10250849:-|nuORF nc|ENSG00000130816|P26358-3|DNMT1 nc|ENSG00000130816|P26358-3|DNMT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.75897216796875 2 508.757692 1015.50083 3.2045 0.0016303 -0.087992 -4.4767E-05 3.1165 0.0015855 508.75763672962927 26.845 0.29668 27.466 27.328 27.625 0.62179 34 21 2 0 0 0 0.063112 1 12324 12324 41.956 12.874 1 426330 17947 2623 11474 11502 20569 20569 -0.00629896045404621 LPQKGDVEM 9 Unmodified _LPQKGDVEM_ 0 0 0 nc|ENSG00000130816|P26358-3|DNMT1;nc|ENSG00000130816|P26358|DNMT1;ENSG00000130816|ENST00000359526|DNMT1;ENST00000586588.5_1_19:10244345-10254710:-|nuORF;ENST00000587197.1_1_19:10250720-10250849:-|nuORF nc|ENSG00000130816|P26358-3|DNMT1 nc|ENSG00000130816|P26358-3|DNMT1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 508.757692 1015.50083 3.1107 0.0015826 -0.074791 -3.8051E-05 3.0359 0.0015445 508.7575292101297 26.515 0.29123 27.293 27.128 27.419 0.7787 -0.086456 8.7537E-06 NaN 41.956 36 22 2 NaN NaN NaN NaN 0 NaN NaN 0 385780 17948 2623 11474 11502 -0.00629896045404621 LPQKGDVEM 9 Unmodified _LPQKGDVEM_ 0 0 0 nc|ENSG00000130816|P26358-3|DNMT1;nc|ENSG00000130816|P26358|DNMT1;ENSG00000130816|ENST00000359526|DNMT1;ENST00000586588.5_1_19:10244345-10254710:-|nuORF;ENST00000587197.1_1_19:10250720-10250849:-|nuORF nc|ENSG00000130816|P26358-3|DNMT1 nc|ENSG00000130816|P26358-3|DNMT1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 508.757692 1015.50083 3.2045 0.0016303 -0.087992 -4.4767E-05 3.1165 0.0015855 508.75763672962927 26.845 0.29668 27.466 27.328 27.625 0.62179 0.086456 -4.6787E-06 NaN 41.956 34 21 2 NaN NaN NaN NaN 0 NaN NaN 0 426330 17949 2623 11474 11502 -0.00629896045404621 LPQKRRLRPRR 11 Unmodified _LPQKRRLRPRR_ 0 0 0 REV__nc|ENSG00000152669|P22674-2|CCNO REV__nc|ENSG00000152669|P22674-2|CCNO MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 738.5905151367188 2 738.478934 1474.94332 NaN NaN NaN NaN NaN NaN NaN 58.325 1 59.084 58.584 59.584 0.75894 0 0 0 1.008 1 26748 26748 0.35063 0 1 + 17950 12655 11475 11503 20570 20570 0.224842095330132 LPQKYYWWFFQ 11 Unmodified _LPQKYYWWFFQ_ 0 0 0 ENST00000561220.6_1_15:45434150-45457096:+|nuORF;nc|ENSG00000137857|Q9NRD9-2|DUOX1;ENSG00000137857|ENST00000389037|DUOX1 ENST00000561220.6_1_15:45434150-45457096:+|nuORF ENST00000561220.6_1_15:45434150-45457096:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 803.39453125 2 803.398087 1604.78162 NaN NaN NaN NaN NaN NaN NaN 77.193 1 77.754 77.254 78.254 0.56091 0 0 0 1.008 1 37427 37427 0.35063 0.35063 1 17951 3049 11476 11504 20571 20571 0.00342182936719837 LPQKYYWWFFQ 11 Unmodified _LPQKYYWWFFQ_ 0 0 0 ENST00000561220.6_1_15:45434150-45457096:+|nuORF;nc|ENSG00000137857|Q9NRD9-2|DUOX1;ENSG00000137857|ENST00000389037|DUOX1 ENST00000561220.6_1_15:45434150-45457096:+|nuORF ENST00000561220.6_1_15:45434150-45457096:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 803.3975219726562 2 803.398087 1604.78162 NaN NaN NaN NaN NaN NaN NaN 75.6 1 76.264 75.764 76.764 0.6644 0 0 0 1.0082 1 34833 34833 0 0 1 17952 3049 11476 11504 20572 20572 0.00342182936719837 LPQQKPQL 8 Unmodified _LPQQKPQL_ 0 0 0 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-4|NAV2;ENSG00000166833|ENST00000349880|NAV2;nc|ENSG00000166833|Q8IVL1-8|NAV2;nc|ENSG00000166833|Q8IVL1-9|NAV2;nc|ENSG00000166833|Q8IVL1-10|NAV2;nc|ENSG00000166833|Q8IVL1-13|NAV2;nc|ENSG00000166833|Q8IVL1-12|NAV2;nc|ENSG00000166833|Q8IVL1-11|NAV2;nc|ENSG00000166833|Q8IVL1-2|NAV2;nc|ENSG00000166833|Q8IVL1|NAV2 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-8|NAV2 nc|ENSG00000166833|Q8IVL1-8|NAV2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 476.2860107421875 2 476.284734 950.554916 2.8891 0.001376 0.3 0.00014289 3.1891 0.0015189 476.28472462072324 26.035 0.32185 26.798 26.654 26.976 0.76356 33 20 2 0 0 0 0.11358 1 11689 11689 63.563 9.9873 1 376440 17953 9530;9735 11477 11505 20573 20573 0.07766064168458797 LPQQKPQL 8 Unmodified _LPQQKPQL_ 0 0 0 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-4|NAV2;ENSG00000166833|ENST00000349880|NAV2;nc|ENSG00000166833|Q8IVL1-8|NAV2;nc|ENSG00000166833|Q8IVL1-9|NAV2;nc|ENSG00000166833|Q8IVL1-10|NAV2;nc|ENSG00000166833|Q8IVL1-13|NAV2;nc|ENSG00000166833|Q8IVL1-12|NAV2;nc|ENSG00000166833|Q8IVL1-11|NAV2;nc|ENSG00000166833|Q8IVL1-2|NAV2;nc|ENSG00000166833|Q8IVL1|NAV2 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-8|NAV2 nc|ENSG00000166833|Q8IVL1-8|NAV2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 476.2860412597656 2 476.284734 950.554916 3.0289 0.0014426 0.38093 0.00018143 3.4098 0.0016241 476.28482686421887 26.672 0.33805 26.937 26.781 27.119 0.26489 63 22 4 0 0 0 0.01453 2 12108 12108;12160 109.63 31.48 1 1421700 17954 9530;9735 11477 11505 20574;20575 20574 0.07766064168458797 LPQQKPQL 8 Unmodified _LPQQKPQL_ 0 0 0 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-4|NAV2;ENSG00000166833|ENST00000349880|NAV2;nc|ENSG00000166833|Q8IVL1-8|NAV2;nc|ENSG00000166833|Q8IVL1-9|NAV2;nc|ENSG00000166833|Q8IVL1-10|NAV2;nc|ENSG00000166833|Q8IVL1-13|NAV2;nc|ENSG00000166833|Q8IVL1-12|NAV2;nc|ENSG00000166833|Q8IVL1-11|NAV2;nc|ENSG00000166833|Q8IVL1-2|NAV2;nc|ENSG00000166833|Q8IVL1|NAV2 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-8|NAV2 nc|ENSG00000166833|Q8IVL1-8|NAV2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 476.2865295410156 2 476.284734 950.554916 2.9774 0.0014181 0.37003 0.00017624 3.3474 0.0015943 476.2848379797379 26.33 0.32397 26.955 26.787 27.111 0.62505 43 17 3 0 0 0 0.0086598 2 12050 12050;12091 123.1 55.016 1 1392900 17955 9530;9735 11477 11505 20576;20577 20576 0.07766064168458797 LPQQKPQL 8 Unmodified _LPQQKPQL_ 0 0 0 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-4|NAV2;ENSG00000166833|ENST00000349880|NAV2;nc|ENSG00000166833|Q8IVL1-8|NAV2;nc|ENSG00000166833|Q8IVL1-9|NAV2;nc|ENSG00000166833|Q8IVL1-10|NAV2;nc|ENSG00000166833|Q8IVL1-13|NAV2;nc|ENSG00000166833|Q8IVL1-12|NAV2;nc|ENSG00000166833|Q8IVL1-11|NAV2;nc|ENSG00000166833|Q8IVL1-2|NAV2;nc|ENSG00000166833|Q8IVL1|NAV2 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-8|NAV2 nc|ENSG00000166833|Q8IVL1-8|NAV2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 476.284734 950.554916 3.1186 0.0014853 -0.20391 -9.7119E-05 2.9147 0.0013882 476.2846916964156 26.958 0.2784 26.958 26.813 27.091 0 0.045501 -0.00047717 NaN 123.1 25 16 2 NaN NaN NaN NaN 0 NaN NaN 0 354570 17956 9530;9735 11477 11505 0.07766064168458797 LPQRKPSL 8 Unmodified _LPQRKPSL_ 0 0 0 ENST00000565288.1_1_15:52844133-52849247:-|nuORF;nc|ENSG00000128989|P56211-2|ARPP19;ENSG00000128989|ENST00000249822|ARPP19 ENST00000565288.1_1_15:52844133-52849247:-|nuORF ENST00000565288.1_1_15:52844133-52849247:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 313.8660888671875 3 313.53091 937.5709 2.035 0.00063802 0.27534 8.6327E-05 2.3103 0.00072435 313.53094374359864 14.328 0.11756 14.635 14.593 14.711 0.3069 11 4 3 0 0 0 0.07371 1 6495 6495 57.722 11.701 1 1012800 17957 2534 11478 11506 20578 20578 0.09961770405368497 LPQRKPSL 8 Unmodified _LPQRKPSL_ 0 0 0 ENST00000565288.1_1_15:52844133-52849247:-|nuORF;nc|ENSG00000128989|P56211-2|ARPP19;ENSG00000128989|ENST00000249822|ARPP19 ENST00000565288.1_1_15:52844133-52849247:-|nuORF ENST00000565288.1_1_15:52844133-52849247:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 469.794189453125 2 469.792727 937.5709 3.0057 0.0014121 0.22415 0.0001053 3.2299 0.0015174 469.79293025326865 14.37 0.10362 15.018 14.967 15.07 0.6482 10 7 2 0 0 0 0.083464 1 6475 6475 47.749 9.5975 1 758640 17958 2534 11478 11506 20579 20579 0.09961770405368497 LPQRKPSL 8 Unmodified _LPQRKPSL_ 0 0 0 ENST00000565288.1_1_15:52844133-52849247:-|nuORF;nc|ENSG00000128989|P56211-2|ARPP19;ENSG00000128989|ENST00000249822|ARPP19 ENST00000565288.1_1_15:52844133-52849247:-|nuORF ENST00000565288.1_1_15:52844133-52849247:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 313.53192138671875 3 313.53091 937.5709 2.2151 0.00069451 0.50397 0.00015801 2.7191 0.00085252 313.53102895782416 14.356 0.16001 15.004 14.944 15.104 0.6482 19 14 2 0 0 0 0.37709 1 6485 6485 29.841 4.4413 1 1693400 17959 2534 11478 11506 20580 20580 0.09961770405368497 LPQRKPSL 8 Unmodified _LPQRKPSL_ 0 0 0 ENST00000565288.1_1_15:52844133-52849247:-|nuORF;nc|ENSG00000128989|P56211-2|ARPP19;ENSG00000128989|ENST00000249822|ARPP19 ENST00000565288.1_1_15:52844133-52849247:-|nuORF ENST00000565288.1_1_15:52844133-52849247:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 469.792727 937.5709 2.6185 0.0012302 -0.83391 -0.00039176 1.7846 0.0008384 469.79264188333786 14.349 0.11756 14.656 14.593 14.711 0.3069 -0.18101 -0.00054517 NaN 47.749 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 407520 17960 2534 11478 11506 0.09961770405368497 LPQRKRKPALC 11 Unmodified _LPQRKRKPALC_ 0 0 0 REV__Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|65|2|sense REV__Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|65|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2689208984375 3 437.267691 1308.78124 3.0872 0.00135 0.56624 0.0002476 3.6535 0.0015976 437.60229076292666 47.604 0.77988 47.868 47.28 48.06 0.26363 108 43 4 0 0 0 0.91068 1 21729 21729 1.3296 0 1 5192500 + 17961 17724 11479 11507 20581 20581 0.139204847359224 LPQTAPQVL 9 Unmodified _LPQTAPQVL_ 0 0 0 ENSG00000171189|ENST00000327783|GRIK1;nc|ENSG00000171189|P39086-2|GRIK1;nc|ENSG00000171189|P39086|GRIK1;ENST00000472429.1_1_21:30971125-31311818:-|nuORF ENSG00000171189|ENST00000327783|GRIK1 ENSG00000171189|ENST00000327783|GRIK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.7869567871094 2 483.784567 965.554582 NaN NaN NaN NaN NaN NaN NaN 30.51 1 31.128 30.628 31.628 0.61737 0 0 0 0.40345 1 13998 13998 22.736 0 1 17962 4792 11480 11508 20582 20582 0.07042644448608826 LPQTGEQEL 9 Unmodified _LPQTGEQEL_ 0 0 0 nc|ENSG00000165458|O15357-2|INPPL1;ENSG00000165458|ENST00000298229|INPPL1 nc|ENSG00000165458|O15357-2|INPPL1 nc|ENSG00000165458|O15357-2|INPPL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.76025390625 2 507.758746 1013.50294 NaN NaN NaN NaN NaN NaN NaN 43.726 1 44.375 43.875 44.875 0.64872 0 0 0 0.13912 1 20041 20041 34.402 4.5611 1 17963 4399 11481 11509 20583 20583 -0.003271440359412736 LPQTRRISL 9 Unmodified _LPQTRRISL_ 0 0 0 nc|ENSG00000198589|P50851-2|LRBA;ENSG00000198589|ENST00000651943|LRBA;nc|ENSG00000198589|P50851|LRBA;ENST00000503716.5_1_4:151186876-151502511:-|nuORF nc|ENSG00000198589|P50851-2|LRBA nc|ENSG00000198589|P50851-2|LRBA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 361.89337158203125 3 361.892619 1082.65603 2.8364 0.0010265 0.0088385 3.1986E-06 2.8452 0.0010297 361.8925416729761 32.685 0.46938 32.939 32.607 33.076 0.25389 37 23 3 0 0 0 0.079031 1 14868 14868 41.956 12.518 1 962760 17964 5904 11482 11510 20584 20584 0.1180051587118669 LPQTRRISL 9 Unmodified _LPQTRRISL_ 0 0 0 nc|ENSG00000198589|P50851-2|LRBA;ENSG00000198589|ENST00000651943|LRBA;nc|ENSG00000198589|P50851|LRBA;ENST00000503716.5_1_4:151186876-151502511:-|nuORF nc|ENSG00000198589|P50851-2|LRBA nc|ENSG00000198589|P50851-2|LRBA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 361.89349365234375 3 361.892619 1082.65603 2.5065 0.0009071 0.65241 0.0002361 3.159 0.0011432 361.8927438150293 32.064 0.38532 32.683 32.458 32.844 0.61831 44 20 3 0 0 0 0.136 1 14704 14704 32.037 8.2364 1 805400 17965 5904 11482 11510 20585 20585 0.1180051587118669 LPQTRRISL 9 Unmodified _LPQTRRISL_ 0 0 0 nc|ENSG00000198589|P50851-2|LRBA;ENSG00000198589|ENST00000651943|LRBA;nc|ENSG00000198589|P50851|LRBA;ENST00000503716.5_1_4:151186876-151502511:-|nuORF nc|ENSG00000198589|P50851-2|LRBA nc|ENSG00000198589|P50851-2|LRBA MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 361.892619 1082.65603 2.5967 0.00093974 0.73088 0.0002645 3.3276 0.0012042 361.8926632115338 32.93 0.27351 32.93 32.768 33.041 0 0.079345 0.00026056 NaN 41.956 25 16 2 NaN NaN NaN NaN 0 NaN NaN 0 233710 17966 5904 11482 11510 0.1180051587118669 LPQTRYVEL 9 Unmodified _LPQTRYVEL_ 0 0 0 ADAM9|p.N283Kfs*23|1|0.05|ENSG00000168615|chr8:39023257-39023258|-/AAAGAAATAAAAGTATATA|frameshift_variant;ADAM9|p.N283Rfs*22|1|0.05|ENSG00000168615|chr8:39023256-39023257|-/AA|frameshift_variant;nc|ENSG00000168615|Q13443-2|ADAM9;ENSG00000168615|ENST00000487273|ADAM9 ADAM9|p.N283Kfs*23|1|0.05|ENSG00000168615|chr8:39023257-39023258|-/AAAGAAATAAAAGTATATA|frameshift_variant ADAM9|p.N283Kfs*23|1|0.05|ENSG00000168615|chr8:39023257-39023258|-/AAAGAAATAAAAGTATATA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.8159790039062 2 559.813856 1117.61316 3.3828 0.0018937 -0.042073 -2.3553E-05 3.3407 0.0018702 559.8134523457944 50.157 0.23595 50.157 50.009 50.245 0 20 12 2 0 0 0 0.24524 1 22975 22975 20.415 3.3016 1 290440 17967 11 11483 11511 20586 20586 0.05905701023084475 LPQTRYVEL 9 Unmodified _LPQTRYVEL_ 0 0 0 ADAM9|p.N283Kfs*23|1|0.05|ENSG00000168615|chr8:39023257-39023258|-/AAAGAAATAAAAGTATATA|frameshift_variant;ADAM9|p.N283Rfs*22|1|0.05|ENSG00000168615|chr8:39023256-39023257|-/AA|frameshift_variant;nc|ENSG00000168615|Q13443-2|ADAM9;ENSG00000168615|ENST00000487273|ADAM9 ADAM9|p.N283Kfs*23|1|0.05|ENSG00000168615|chr8:39023257-39023258|-/AAAGAAATAAAAGTATATA|frameshift_variant ADAM9|p.N283Kfs*23|1|0.05|ENSG00000168615|chr8:39023257-39023258|-/AAAGAAATAAAAGTATATA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.81640625 2 559.813856 1117.61316 3.3882 0.0018967 0.76643 0.00042906 4.1546 0.0023258 559.8143702334828 49.123 0.23614 49.95 49.807 50.043 0.82705 17 11 2 0 0 0 0.19413 1 22395 22395 23.79 6.6769 1 338170 17968 11 11483 11511 20587 20587 0.05905701023084475 LPQTRYVEL 9 Unmodified _LPQTRYVEL_ 0 0 0 ADAM9|p.N283Kfs*23|1|0.05|ENSG00000168615|chr8:39023257-39023258|-/AAAGAAATAAAAGTATATA|frameshift_variant;ADAM9|p.N283Rfs*22|1|0.05|ENSG00000168615|chr8:39023256-39023257|-/AA|frameshift_variant;nc|ENSG00000168615|Q13443-2|ADAM9;ENSG00000168615|ENST00000487273|ADAM9 ADAM9|p.N283Kfs*23|1|0.05|ENSG00000168615|chr8:39023257-39023258|-/AAAGAAATAAAAGTATATA|frameshift_variant ADAM9|p.N283Kfs*23|1|0.05|ENSG00000168615|chr8:39023257-39023258|-/AAAGAAATAAAAGTATATA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.8153686523438 2 559.813856 1117.61316 3.5478 0.0019861 -0.033764 -1.8901E-05 3.514 0.0019672 559.8137681964799 49.942 0.19586 50.203 50.081 50.277 0.26146 15 6 3 0 0 0 0.010904 1 22811 22811 80.676 32.927 1 858140 17969 11 11483 11511 20588 20588 0.05905701023084475 LPQTRYVEL 9 Unmodified _LPQTRYVEL_ 0 0 0 ADAM9|p.N283Kfs*23|1|0.05|ENSG00000168615|chr8:39023257-39023258|-/AAAGAAATAAAAGTATATA|frameshift_variant;ADAM9|p.N283Rfs*22|1|0.05|ENSG00000168615|chr8:39023256-39023257|-/AA|frameshift_variant;nc|ENSG00000168615|Q13443-2|ADAM9;ENSG00000168615|ENST00000487273|ADAM9 ADAM9|p.N283Kfs*23|1|0.05|ENSG00000168615|chr8:39023257-39023258|-/AAAGAAATAAAAGTATATA|frameshift_variant ADAM9|p.N283Kfs*23|1|0.05|ENSG00000168615|chr8:39023257-39023258|-/AAAGAAATAAAAGTATATA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.81640625 2 559.813856 1117.61316 3.5996 0.0020151 0.45411 0.00025422 4.0538 0.0022693 559.8140169103838 49.35 0.25803 50.005 49.851 50.109 0.65525 15 8 2 0 0 0 0.010904 1 22565 22565 80.676 32.927 1 972850 17970 11 11483 11511 20589 20589 0.05905701023084475 LPQWRLRWVQA 11 Unmodified _LPQWRLRWVQA_ 0 0 0 ENSG00000249115|ENST00000203166|HAUS5 ENSG00000249115|ENST00000203166|HAUS5 ENSG00000249115|ENST00000203166|HAUS5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 726.9155883789062 2 726.91477 1451.81499 NaN NaN NaN NaN NaN NaN NaN 57.857 1 58.12 57.62 58.62 0.26227 0 0 0 1.008 1 26489 26489 0.35063 0 1 17971 6259 11484 11512 20590 20590 0.10715229499305678 LPQWTRRRRKK 11 Unmodified _LPQWTRRRRKK_ 0 0 0 REV__ENST00000389793.6_1_1:235993542-235993656:-|nuORF REV__ENST00000389793.6_1_1:235993542-235993656:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 762.9739990234375 2 762.970942 1523.92733 NaN NaN NaN NaN NaN NaN NaN 57.722 1 58.49 57.99 58.99 0.76861 0 0 0 1.008 1 26450 26450 0.35063 0.043601 1 + 17972 15917 11485 11513 20591 20591 0.1863250329611219 LPQYKEREV 9 Unmodified _LPQYKEREV_ 0 0 0 ENSG00000166508|ENST00000303887|MCM7;nc|ENSG00000166508|P33993-2|MCM7;ENST00000463722.5_1_7:99697202-99698956:-|nuORF ENSG00000166508|ENST00000303887|MCM7 ENSG00000166508|ENST00000303887|MCM7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 387.8814392089844 3 387.880267 1160.61897 2.7872 0.0010811 0.14111 5.4732E-05 2.9283 0.0011358 387.880169957909 21.455 0.38535 21.455 21.224 21.61 0 81 39 3 0 0 0 0.29523 2 9621 9577;9621 16.566 8.2794 1 332560 17973 4491 11486 11514 20592;20593 20593 0.04508799534755781 LPRAQLRRLVP 11 Unmodified _LPRAQLRRLVP_ 0 0 0 REV__ENST00000517489.1_1_8:99057319-99057484:-|nuORF REV__ENST00000517489.1_1_8:99057319-99057484:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 659.9227905273438 2 659.925138 1317.83572 NaN NaN NaN NaN NaN NaN NaN 78.851 1 78.851 78.351 79.351 0 0 0 0 1.0072 1 38856 38856 1.3295 0.87119 1 + 17974 17023 11487 11515 20594 20594 0.18951819878975584 LPRCRLAVRVP 11 Unmodified _LPRCRLAVRVP_ 0 0 0 REV__ENSG00000226650|ENST00000435029|KIF4B;REV__ENSG00000090889|ENST00000374403|KIF4A REV__ENSG00000226650|ENST00000435029|KIF4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 320.7011413574219 4 320.699946 1278.77068 2.4369 0.0007815 0.65357 0.0002096 3.0904 0.0009911 320.70020872823284 52.953 0.93101 53.216 52.635 53.566 0.26345 240 54 5 0 0 0 0.88721 1 24294 24294 1.2148 0.10508 1 81768000 + 17975 14559;10719 11488 11516 20595 20595 0.1424450208144208 LPRDRLVL 8 Unmodified _LPRDRLVL_ 0 0 0 nc|ENSG00000077782|P11362-14|FGFR1;nc|ENSG00000077782|P11362-4|FGFR1;nc|ENSG00000077782|P11362-3|FGFR1;nc|ENSG00000077782|P11362-21|FGFR1;ENSG00000077782|ENST00000447712|FGFR1;nc|ENSG00000077782|P11362-19|FGFR1;nc|ENSG00000077782|P11362-7|FGFR1;nc|ENSG00000077782|P11362-2|FGFR1;nc|ENSG00000077782|P11362-20|FGFR1;nc|ENSG00000077782|P11362-6|FGFR1;nc|ENSG00000077782|P11362-5|FGFR1;ENST00000526570.5_1_8:38271148-38285795:-|nuORF;nc|ENSG00000077782|P11362-11|FGFR1;nc|ENSG00000077782|P11362-10|FGFR1;nc|ENSG00000077782|P11362-9|FGFR1;nc|ENSG00000077782|P11362-8|FGFR1;nc|ENSG00000077782|P11362-13|FGFR1;nc|ENSG00000077782|P11362-12|FGFR1 nc|ENSG00000077782|P11362-14|FGFR1;nc|ENSG00000077782|P11362-11|FGFR1 nc|ENSG00000077782|P11362-14|FGFR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 327.8791198730469 3 327.87831 980.613099 NaN NaN NaN NaN NaN NaN NaN 19.678 1 19.678 19.178 20.178 0 0 0 0 0.82664 1 8783 8783 17.113 2.2746 1 17976 869;9563 11489 11517 20596 20596 0.12201745813740672 LPRERSCSACP 11 Unmodified _LPRERSCSACP_ 0 0 0 ENST00000216044.9_1_22:39128126-39128420:+|nuORF ENST00000216044.9_1_22:39128126-39128420:+|nuORF ENST00000216044.9_1_22:39128126-39128420:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 609.7888793945312 2 609.789532 1217.56451 NaN NaN NaN NaN NaN NaN NaN 68.293 1 68.953 68.453 69.453 0.65924 0 0 0 1.0055 1 31305 31305 3.5965 0 1 17977 6401 11490 11518 20597 20597 -0.03556858879983338 LPRGRTFTL 9 Unmodified _LPRGRTFTL_ 0 0 0 ENSG00000123159|ENST00000393033|GIPC1;nc|ENSG00000123159|O14908-2|GIPC1;ENST00000585606.5_1_19:14590895-14591279:-|nuORF ENSG00000123159|ENST00000393033|GIPC1 ENSG00000123159|ENST00000393033|GIPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.8182373046875 2 530.816733 1059.61891 3.1723 0.0016839 -0.49218 -0.00026125 2.6801 0.0014227 530.8164634915865 37.619 0.32278 37.619 37.462 37.784 0 18 12 2 0 0 0 0.8705 1 17080 17080 6.2058 0 1 417400 17978 2297 11491 11519 20598 20598 0.09148844325432037 LPRGRTFTL 9 Unmodified _LPRGRTFTL_ 0 0 0 ENSG00000123159|ENST00000393033|GIPC1;nc|ENSG00000123159|O14908-2|GIPC1;ENST00000585606.5_1_19:14590895-14591279:-|nuORF ENSG00000123159|ENST00000393033|GIPC1 ENSG00000123159|ENST00000393033|GIPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.8185424804688 2 530.816733 1059.61891 3.2816 0.0017419 -0.4994 -0.00026509 2.7822 0.0014768 530.8164232008194 37.49 0.37949 37.751 37.572 37.951 0.26083 27 11 3 0 0 0 0.36069 1 17093 17093 14.838 1.3304 1 918030 17979 2297 11491 11519 20599 20599 0.09148844325432037 LPRGRTFTL 9 Unmodified _LPRGRTFTL_ 0 0 0 ENSG00000123159|ENST00000393033|GIPC1;nc|ENSG00000123159|O14908-2|GIPC1;ENST00000585606.5_1_19:14590895-14591279:-|nuORF ENSG00000123159|ENST00000393033|GIPC1 ENSG00000123159|ENST00000393033|GIPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 354.2143249511719 3 354.213581 1059.61891 2.6891 0.00095253 0.016615 5.8852E-06 2.7057 0.00095841 354.2135382287174 37.489 0.44159 37.75 37.51 37.951 0.26083 35 13 4 0 0 0 0.11155 1 17120 17120 22.775 0.038682 1 2447400 17980 2297 11491 11519 20600 20600 0.09148844325432037 LPRGRTFTL 9 Unmodified _LPRGRTFTL_ 0 0 0 ENSG00000123159|ENST00000393033|GIPC1;nc|ENSG00000123159|O14908-2|GIPC1;ENST00000585606.5_1_19:14590895-14591279:-|nuORF ENSG00000123159|ENST00000393033|GIPC1 ENSG00000123159|ENST00000393033|GIPC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 354.213581 1059.61891 2.6153 0.00092637 0.14932 5.2891E-05 2.7646 0.00097926 354.21357555625633 37.609 0.30307 37.609 37.462 37.765 0 0.085234 -2.2389E-05 NaN 22.775 26 11 3 NaN NaN NaN NaN 0 NaN NaN 0 881390 17981 2297 11491 11519 0.09148844325432037 LPRGRTFTL 9 Unmodified _LPRGRTFTL_ 0 0 0 ENSG00000123159|ENST00000393033|GIPC1;nc|ENSG00000123159|O14908-2|GIPC1;ENST00000585606.5_1_19:14590895-14591279:-|nuORF ENSG00000123159|ENST00000393033|GIPC1 ENSG00000123159|ENST00000393033|GIPC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 354.213581 1059.61891 2.409 0.00085329 0.28424 0.00010068 2.6932 0.00095397 354.2136181914774 36.455 0.4319 37.248 37.049 37.481 0.79342 -0.27494 0.00012098 NaN 22.775 42 21 3 NaN NaN NaN NaN 0 NaN NaN 0 633670 17982 2297 11491 11519 0.09148844325432037 LPRGRTFTL 9 Unmodified _LPRGRTFTL_ 0 0 0 ENSG00000123159|ENST00000393033|GIPC1;nc|ENSG00000123159|O14908-2|GIPC1;ENST00000585606.5_1_19:14590895-14591279:-|nuORF ENSG00000123159|ENST00000393033|GIPC1 ENSG00000123159|ENST00000393033|GIPC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 354.213581 1059.61891 2.5272 0.00089515 0.21615 7.6563E-05 2.7433 0.00097172 354.21364709031747 36.857 0.45802 37.487 37.248 37.706 0.62999 -0.036632 4.8625E-05 NaN 22.775 46 18 3 NaN NaN NaN NaN 0 NaN NaN 0 2068000 17983 2297 11491 11519 0.09148844325432037 LPRHFLWYLTY 11 Unmodified _LPRHFLWYLTY_ 0 0 0 REV__ENSG00000171017|ENST00000306708|LRRC8E REV__ENSG00000171017|ENST00000306708|LRRC8E MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 754.9072265625 2 754.906079 1507.79761 NaN NaN NaN NaN NaN NaN NaN 70.65 1 71.312 70.812 71.812 0.66209 0 0 0 1.008 1 32382 32382 0.35063 0 1 + 17984 13467 11492 11520 20601 20601 0.06401889173662312 LPRHQKHV 8 Unmodified _LPRHQKHV_ 0 0 0 chr19:45213353-45216073|122|23.79|0.21|6.83|-|0|None,EXOC3L2|1 chr19:45213353-45216073|122|23.79|0.21|6.83|-|0|None,EXOC3L2|1 chr19:45213353-45216073|122|23.79|0.21|6.83|-|0|None,EXOC3L2|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.02630615234375 2 507.801417 1013.58828 NaN NaN NaN NaN NaN NaN NaN 54.996 1 55.783 55.283 56.283 0.78711 0 0 0 0.95658 1 25103 25103 8.5933 0.43775 1 17985 159 11493 11521 20602 20602 0.08203110731039942 LPRHRRLW 8 Unmodified _LPRHRRLW_ 0 0 0 REV__ENSG00000077498|ENST00000263321|TYR REV__ENSG00000077498|ENST00000263321|TYR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3438110351562 2 567.343784 1132.67301 NaN NaN NaN NaN NaN NaN NaN 44.529 1 44.798 44.298 45.298 0.2694 0 0 0 0.99035 1 20352 20352 2.8892 0 1 + 17986 10557 11494 11522 20603 20603 0.11198481267661009 LPRILIVHLK 10 Unmodified _LPRILIVHLK_ 0 0 0 ENSG00000134588|ENST00000511190|USP26 ENSG00000134588|ENST00000511190|USP26 ENSG00000134588|ENST00000511190|USP26 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 600.9571533203125 2 601.410801 1200.80705 NaN NaN NaN NaN NaN NaN NaN 74.654 1 75.34 74.84 75.84 0.68662 0 0 0 1.0001 1 36086 36086 1.6526 1.1943 1 17987 2818 11495 11523 20604 20604 0.21467702249810827 LPRKRSSRHRG 11 Unmodified _LPRKRSSRHRG_ 0 0 0 ENSG00000100316|ENST00000216146|RPL3;ENST00000484615.5_1_22:39713464-39715605:-|nuORF;ENST00000460589.5_1_22:39713464-39715412:-|nuORF;ENST00000465618.5_1_22:39712851-39715803:-|nuORF ENSG00000100316|ENST00000216146|RPL3 ENSG00000100316|ENST00000216146|RPL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 675.6019897460938 2 675.402892 1348.79123 NaN NaN NaN NaN NaN NaN NaN 70.118 1 70.118 69.618 70.618 0 0 0 0 1.0051 1 33969 33969 8.1555 4.559 1 17988 1205 11496 11524 20605 20605 0.13078808785485307 LPRLLLFLH 9 Unmodified _LPRLLLFLH_ 0 0 0 REV__ENST00000251127.10_1_13:101795458-101795524:-|nuORF REV__ENST00000251127.10_1_13:101795458-101795524:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.57965087890625 3 374.577972 1120.71209 2.8079 0.0010518 1.1805 0.00044218 3.9884 0.001494 374.57829578461076 42.725 0.40172 42.995 42.665 43.066 0.27021 58 19 4 0 0 0 1.1154 1 19408 19408 1.0715 0 1 24757000 + 17989 14908 11497 11525 20606 20606 0.15655768778628953 LPRLWLPKLL 10 Unmodified _LPRLWLPKLL_ 0 0 0 ENST00000555228.5_1_14:74318578-74325566:+|nuORF ENST00000555228.5_1_14:74318578-74325566:+|nuORF ENST00000555228.5_1_14:74318578-74325566:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 624.913818359375 2 624.913176 1247.8118 NaN NaN NaN NaN NaN NaN NaN 81.936 1 82.184 81.684 82.684 0.24722 0 0 0 1.0015 1 37714 37714 0.45834 0.10771 1 17990 8914 11498 11526 20607 20607 0.19780586392585064 LPRNEADEL 9 Unmodified _LPRNEADEL_ 0 0 0 nc|ENSG00000100342|O14791-3|APOL1;ENSG00000100342|ENST00000397278|APOL1;nc|ENSG00000100342|O14791-2|APOL1 nc|ENSG00000100342|O14791-3|APOL1 nc|ENSG00000100342|O14791-3|APOL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.7706298828125 2 528.769645 1055.52474 3.4182 0.0018075 0.51776 0.00027378 3.936 0.0020812 528.7699176899825 29.292 0.23766 29.292 29.165 29.403 0 28 18 2 0 0 0 0.59921 1 13209 13209 10.8 10.8 1 201030 17991 1206 11499 11527 20608 20608 -0.0008033928738768736 LPRNEADEL 9 Unmodified _LPRNEADEL_ 0 0 0 nc|ENSG00000100342|O14791-3|APOL1;ENSG00000100342|ENST00000397278|APOL1;nc|ENSG00000100342|O14791-2|APOL1 nc|ENSG00000100342|O14791-3|APOL1 nc|ENSG00000100342|O14791-3|APOL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.7716674804688 2 528.769645 1055.52474 3.2851 0.001737 0.56298 0.00029769 3.848 0.0020347 528.7699707954295 29.082 0.33042 29.342 29.225 29.555 0.2602 40 20 3 0 0 0 0.049036 1 13231 13231 47.594 11.467 1 560680 17992 1206 11499 11527 20609 20609 -0.0008033928738768736 LPRNEADEL 9 Unmodified _LPRNEADEL_ 0 0 0 nc|ENSG00000100342|O14791-3|APOL1;ENSG00000100342|ENST00000397278|APOL1;nc|ENSG00000100342|O14791-2|APOL1 nc|ENSG00000100342|O14791-3|APOL1 nc|ENSG00000100342|O14791-3|APOL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.7706909179688 2 528.769645 1055.52474 3.246 0.0017164 -0.068507 -3.6225E-05 3.1774 0.0016801 528.7694399858791 28.829 0.32207 29.447 29.217 29.54 0.61789 27 22 2 0 0 0 0.057945 2 13220 13174;13220 43.772 11.467 1 986780 17993 1206 11499 11527 20610;20611 20611 -0.0008033928738768736 LPRPFRRLF 9 Unmodified _LPRPFRRLF_ 0 0 0 REV__ENSG00000204950|ENST00000378075|LRRC10B REV__ENSG00000204950|ENST00000378075|LRRC10B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 601.3695678710938 2 601.369467 1200.72438 NaN NaN NaN NaN NaN NaN NaN 5.5585 1 6.1814 5.6814 6.6814 0.62294 0 0 0 0.91238 1 2523 2523 0.52476 0.21773 1 + 17994 14446 11500 11528 20612 20612 0.1320480524168488 LPRRHPSGL 9 Unmodified _LPRRHPSGL_ 0 0 0 REV__nc|ENSG00000105662|Q6UUV9-3|CRTC1 REV__nc|ENSG00000105662|Q6UUV9-3|CRTC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 344.8741760253906 3 344.873559 1031.59885 2.4644 0.00084991 -0.17832 -6.1497E-05 2.2861 0.00078841 344.8733863864311 16.191 0.71934 16.191 15.783 16.502 0 159 87 2 0 0 0 1.1703 1 7079 7079 1.1933 0 1 116800 + 17995 11048 11501 11529 20613 20613 0.08431093385456734 LPRRHPSGL 9 Unmodified _LPRRHPSGL_ 0 0 0 REV__nc|ENSG00000105662|Q6UUV9-3|CRTC1 REV__nc|ENSG00000105662|Q6UUV9-3|CRTC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 344.8743896484375 3 344.873559 1031.59885 2.3286 0.00080308 0.24447 8.4311E-05 2.5731 0.00088739 344.8735288438615 15.01 0.37382 15.236 15.011 15.385 0.22622 70 39 2 0 0 0 1.0601 1 6650 6650 2.9952 0 1 214470 + 17996 11048 11501 11529 20614 20614 0.08431093385456734 LPRRLQWQAC 10 Unmodified _LPRRLQWQAC_ 0 0 0 ENST00000302351.8_1_5:73936381-73936522:-|nuORF ENST00000302351.8_1_5:73936381-73936522:-|nuORF ENST00000302351.8_1_5:73936381-73936522:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 635.49072265625 2 635.845499 1269.67644 NaN NaN NaN NaN NaN NaN NaN 51.792 1 52.603 52.103 53.103 0.81065 0 0 0 0.99733 1 23592 23592 3.9444 0.66309 1 17997 6813 11502 11530 20615 20615 0.05239363259352103 LPRRPKRIRI 10 Unmodified _LPRRPKRIRI_ 0 0 0 ENST00000416823.1_1_22:29702661-29703048:+|nuORF ENST00000416823.1_1_22:29702661-29703048:+|nuORF ENST00000416823.1_1_22:29702661-29703048:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 653.0157470703125 2 652.941122 1303.86769 NaN NaN NaN NaN NaN NaN NaN 81.16 1 81.16 80.66 81.66 0 0 0 0 0.99983 1 40408 40408 1.8442 0 1 17998 7718 11503 11531 20616 20616 0.22791232352778934 LPRRRIVVYFK 11 Unmodified _LPRRRIVVYFK_ 0 0 0 REV__nc|ENSG00000166736|P46098-3|HTR3A REV__nc|ENSG00000166736|P46098-3|HTR3A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 723.9581909179688 2 723.956438 1445.89832 NaN NaN NaN NaN NaN NaN NaN 53.163 1 53.828 53.328 54.328 0.6644 0 0 0 1.0071 1 24313 24313 1.4819 1.4819 1 + 17999 13257 11504 11532 20617 20617 0.1932096594714494 LPRRRLRTLPN 11 Unmodified _LPRRRLRTLPN_ 0 0 0 ENST00000562846.1_1_16:67595531-67595669:-|nuORF ENST00000562846.1_1_16:67595531-67595669:-|nuORF ENST00000562846.1_1_16:67595531-67595669:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 696.439208984375 2 696.438944 1390.86333 NaN NaN NaN NaN NaN NaN NaN 73.435 1 74.099 73.599 74.599 0.66398 0 0 0 1.0071 1 33747 33747 1.4819 0 1 18000 9001 11505 11533 20618 20618 0.18353723139216527 LPRRRRPERQE 11 Unmodified _LPRRRRPERQE_ 0 0 0 ENSG00000160460|ENST00000598249|SPTBN4;nc|ENSG00000160460|Q9H254-3|SPTBN4 ENSG00000160460|ENST00000598249|SPTBN4 ENSG00000160460|ENST00000598249|SPTBN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 746.992919921875 2 746.932014 1491.84948 NaN NaN NaN NaN NaN NaN NaN 13.871 1 14.114 13.614 14.614 0.24346 0 0 0 1.0071 1 6082 6082 1.4819 0.15237 1 18001 4061 11506 11534 20619 20619 0.1232244564012035 LPRTFWYWNYN 11 Unmodified _LPRTFWYWNYN_ 0 0 0 nc|ENSG00000106392|Q9NS00-2|C1GALT1;ENSG00000106392|ENST00000436587|C1GALT1 nc|ENSG00000106392|Q9NS00-2|C1GALT1 nc|ENSG00000106392|Q9NS00-2|C1GALT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 779.9705810546875 2 780.375143 1558.73573 NaN NaN NaN NaN NaN NaN NaN 100.76 1 100.76 100.26 101.26 0 0 0 0 1.008 1 55658 55658 0.35063 0 1 18002 1567 11507 11535 20620 20620 -0.02128462245468654 LPRVIVGSS 9 Unmodified _LPRVIVGSS_ 0 0 0 nc|ENSG00000125434|Q3KQZ1-3|SLC25A35;nc|ENSG00000125434|Q3KQZ1-2|SLC25A35;nc|ENSG00000125434|Q3KQZ1-4|SLC25A35;ENSG00000125434|ENST00000577745|SLC25A35 nc|ENSG00000125434|Q3KQZ1-3|SLC25A35 nc|ENSG00000125434|Q3KQZ1-3|SLC25A35 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.286376953125 2 464.284734 926.554916 NaN NaN NaN NaN NaN NaN NaN 12.584 1 12.891 12.391 13.391 0.30727 0 0 0 0.90611 1 5676 5676 2.0598 1.2661 1 18003 2397 11508 11536 20621 20621 0.0887006416847953 LPRVRKEFF 9 Unmodified _LPRVRKEFF_ 0 0 0 ENST00000575531.5_1_16:4407102-4412712:-|nuORF;nc|ENSG00000262246|P57737-2|CORO7;nc|ENSG00000262246|P57737-4|CORO7;ENSG00000262246|ENST00000251166|CORO7;nc|ENSG00000262246|P57737-3|CORO7;ENST00000574849.1_1_16:4407825-4408472:-|nuORF;ENST00000572274.1_1_16:4391391-4409335:-|nuORF ENST00000575531.5_1_16:4407102-4412712:-|nuORF ENST00000575531.5_1_16:4407102-4412712:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.90625 3 397.904747 1190.69241 2.9592 0.0011775 0.49685 0.0001977 3.4561 0.0013752 397.9048834088078 35.452 0.27335 35.707 35.537 35.811 0.25524 14 8 2 0 0 0 0.98958 1 16132 16132 4.1895 1.4543 1 211910 18004 6313 11509 11537 20622 20622 0.10469392767868158 LPSAGDEILE 10 Unmodified _LPSAGDEILE_ 0 0 0 ENST00000425455.2_1_1:121244673-121244892:+|nuORF ENST00000425455.2_1_1:121244673-121244892:+|nuORF ENST00000425455.2_1_1:121244673-121244892:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.2689208984375 2 522.266404 1042.51826 3.3505 0.0017498 1.0395 0.00054287 4.3899 0.0022927 522.2670233140698 26.896 0.40672 27.161 26.964 27.371 0.26489 38 25 2 0 0 0 0.34482 1 12195 12195 26.884 1.4843 1 272630 18005 7797 11510 11538 20623 20623 -0.0013027723873619834 LPSASADAP 9 Unmodified _LPSASADAP_ 0 0 0 REV__ENST00000489071.5_1_20:34135089-34136623:+|nuORF REV__ENST00000489071.5_1_20:34135089-34136623:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 828.4131469726562 1 828.409774 827.402498 4.3468 0.0036009 -0.14096 -0.00011677 4.2058 0.0034841 828.4098288578782 31.489 0.5134 31.745 31.588 32.101 0.25614 59 39 2 0 0 0 0.7295 1 14363 14363 8.5933 0 1 259230 + 18006 16786 11511 11539 20624 20624 -0.01810756298959859 LPSDDKTWN 9 Unmodified _LPSDDKTWN_ 0 0 0 REV__ENST00000433272.6_1_12:59266356-59274151:-|nuORF REV__ENST00000433272.6_1_12:59266356-59274151:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.2595825195312 2 538.256371 1074.49819 3.2012 0.001723 -0.40301 -0.00021692 2.7982 0.0015061 538.2585973214792 26.025 0.61147 26.65 26.457 27.068 0.62505 62 40 3 0 0 0 0.29523 1 11964 11964 17.113 2.5312 1 403160 + 18007 12208 11512 11540 20625 20625 -0.03608028178700806 LPSDTRLVL 9 Unmodified _LPSDTRLVL_ 0 0 0 nc|ENSG00000149131|P05155-2|SERPING1;ENSG00000149131|ENST00000278407|SERPING1;nc|ENSG00000149131|P05155-3|SERPING1 nc|ENSG00000149131|P05155-2|SERPING1 nc|ENSG00000149131|P05155-2|SERPING1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.30419921875 2 507.303124 1012.5917 3.1554 0.0016007 -0.062064 -3.1485E-05 3.0933 0.0015692 507.3029555179681 55.946 0.3429 56.212 56.015 56.357 0.26543 36 13 3 0 0 0 0.025675 2 25557 25557;25609 74.2 22.57 1 2840000 18008 3628 11513 11541 20626;20627 20626 0.08590315994376851 LPSDTRLVL 9 Unmodified _LPSDTRLVL_ 0 0 0 nc|ENSG00000149131|P05155-2|SERPING1;ENSG00000149131|ENST00000278407|SERPING1;nc|ENSG00000149131|P05155-3|SERPING1 nc|ENSG00000149131|P05155-2|SERPING1 nc|ENSG00000149131|P05155-2|SERPING1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.3047180175781 2 507.303124 1012.5917 3.2766 0.0016622 -0.050039 -2.5385E-05 3.2266 0.0016368 507.303133291437 55.195 0.41251 55.863 55.647 56.059 0.66798 41 15 4 0 0 0 0.019629 2 25247 25197;25247 83.429 40.239 1 2715800 18009 3628 11513 11541 20628;20629 20629 0.08590315994376851 LPSEDPYQL 9 Unmodified _LPSEDPYQL_ 0 0 0 ENST00000486056.1_1_9:35733177-35736720:+|nuORF;nc|ENSG00000107175|O43889-3|CREB3;ENSG00000107175|ENST00000353704|CREB3 ENST00000486056.1_1_9:35733177-35736720:+|nuORF ENST00000486056.1_1_9:35733177-35736720:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1061.5181884765625 1 1061.51497 1060.50769 3.2482 0.003448 -0.05814 -6.1717E-05 3.19 0.0033863 1061.5145212283753 58.609 0.27154 58.609 58.424 58.696 0 35 23 2 0 0 0 3.9108E-21 3 27062 26963;27021;27062 181.33 122.65 1 949610 18010 1590 11514 11542 20630;20631;20632 20632 -0.020142598931897737 LPSEDPYQL 9 Unmodified _LPSEDPYQL_ 0 0 0 ENST00000486056.1_1_9:35733177-35736720:+|nuORF;nc|ENSG00000107175|O43889-3|CREB3;ENSG00000107175|ENST00000353704|CREB3 ENST00000486056.1_1_9:35733177-35736720:+|nuORF ENST00000486056.1_1_9:35733177-35736720:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.2627563476562 2 531.261122 1060.50769 3.0455 0.001618 0.19003 0.00010096 3.2355 0.0017189 531.2610923293696 58.608 0.48202 58.608 58.362 58.844 0 94 42 3 0 0 0 0.0014044 3 27026 26982;27026;27082 112.59 64.247 1 2924500 18011 1590 11514 11542 20633;20634;20635 20634 -0.020142598931897737 LPSEDPYQL 9 Unmodified _LPSEDPYQL_ 0 0 0 ENST00000486056.1_1_9:35733177-35736720:+|nuORF;nc|ENSG00000107175|O43889-3|CREB3;ENSG00000107175|ENST00000353704|CREB3 ENST00000486056.1_1_9:35733177-35736720:+|nuORF ENST00000486056.1_1_9:35733177-35736720:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.2628173828125 2 531.261122 1060.50769 2.8206 0.0014985 0.4477 0.00023785 3.2684 0.0017363 531.2615417154493 57.567 0.30216 58.336 58.232 58.534 0.76861 61 24 3 0 0 0 0.0044949 3 26399 26349;26399;26456 92.822 44.476 1 3241000 18012 1590 11514 11542 20636;20637;20638 20637 -0.020142598931897737 LPSEDPYQL 9 Unmodified _LPSEDPYQL_ 0 0 0 ENST00000486056.1_1_9:35733177-35736720:+|nuORF;nc|ENSG00000107175|O43889-3|CREB3;ENSG00000107175|ENST00000353704|CREB3 ENST00000486056.1_1_9:35733177-35736720:+|nuORF ENST00000486056.1_1_9:35733177-35736720:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1061.51806640625 1 1061.51497 1060.50769 3.5217 0.0037384 0.55293 0.00058695 4.0747 0.0043253 1061.5157519901634 57.829 0.31813 58.497 58.312 58.63 0.66829 29 18 2 0 0 0 0.0017071 1 26447 26447 107.19 63.329 1 753530 18013 1590 11514 11542 20639 20639 -0.020142598931897737 LPSEDPYQL 9 Unmodified _LPSEDPYQL_ 0 0 0 ENST00000486056.1_1_9:35733177-35736720:+|nuORF;nc|ENSG00000107175|O43889-3|CREB3;ENSG00000107175|ENST00000353704|CREB3 ENST00000486056.1_1_9:35733177-35736720:+|nuORF ENST00000486056.1_1_9:35733177-35736720:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.2628173828125 2 531.261122 1060.50769 3.3059 0.0017563 -0.078962 -4.195E-05 3.2269 0.0017143 531.2608893042257 57.8 0.40486 58.468 58.225 58.63 0.66829 61 23 3 0 0 0 0.023109 1 26524 26524 64.236 24.279 1 2601800 18014 1590 11514 11542 20640 20640 -0.020142598931897737 LPSEEMVM 8 Unmodified _LPSEEMVM_ 0 0 0 ENSG00000184967|ENST00000330579|NOC4L ENSG00000184967|ENST00000330579|NOC4L ENSG00000184967|ENST00000330579|NOC4L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 935.4237670898438 1 935.421267 934.41399 3.8975 0.0036458 -0.15382 -0.00014389 3.7437 0.0035019 935.420685497737 56.228 0.24311 56.896 56.778 57.021 0.66829 20 14 2 0 0 0 0.045989 1 25713 25713 67.035 42.361 1 635460 18015 5471 11515 11543 20641 20641 -0.05584018591480344 LPSEHQTIL 9 Unmodified _LPSEHQTIL_ 0 0 0 nc|ENSG00000136536|Q9H992-2|MARCHF7;ENSG00000136536|ENST00000409175|MARCHF7 nc|ENSG00000136536|Q9H992-2|MARCHF7 nc|ENSG00000136536|Q9H992-2|MARCHF7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.2855834960938 2 519.284931 1036.55531 3.2636 0.0016947 -0.22985 -0.00011936 3.0337 0.0015754 519.2845533137615 40.302 0.40202 40.302 40.066 40.468 0 31 13 4 0 0 0 0.034495 1 18317 18317 53.833 15.657 1 1547100 18016 2957 11516 11544 20642 20642 0.03849439097666618 LPSEHQTIL 9 Unmodified _LPSEHQTIL_ 0 0 0 nc|ENSG00000136536|Q9H992-2|MARCHF7;ENSG00000136536|ENST00000409175|MARCHF7 nc|ENSG00000136536|Q9H992-2|MARCHF7 nc|ENSG00000136536|Q9H992-2|MARCHF7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 519.2870483398438 2 519.284931 1036.55531 3.5204 0.0018281 0.27373 0.00014214 3.7942 0.0019703 519.2850219676925 40.058 0.41079 40.325 40.168 40.579 0.26696 24 16 2 0 0 0 0.044468 1 18230 18230 49.554 17.249 1 1367000 18017 2957 11516 11544 20643 20643 0.03849439097666618 LPSEHQTIL 9 Unmodified _LPSEHQTIL_ 0 0 0 nc|ENSG00000136536|Q9H992-2|MARCHF7;ENSG00000136536|ENST00000409175|MARCHF7 nc|ENSG00000136536|Q9H992-2|MARCHF7 nc|ENSG00000136536|Q9H992-2|MARCHF7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 519.2867431640625 2 519.284931 1036.55531 3.5527 0.0018449 0.37456 0.0001945 3.9273 0.0020394 519.2851916394318 39.586 0.37842 40.224 40.029 40.407 0.63778 27 17 2 0 0 0 0.02812 2 18084 18084;18139 57.722 49.554 1 1239400 18018 2957 11516 11544 20644;20645 20644 0.03849439097666618 LPSEHQTIL 9 Unmodified _LPSEHQTIL_ 0 0 0 nc|ENSG00000136536|Q9H992-2|MARCHF7;ENSG00000136536|ENST00000409175|MARCHF7 nc|ENSG00000136536|Q9H992-2|MARCHF7 nc|ENSG00000136536|Q9H992-2|MARCHF7 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 519.284931 1036.55531 3.4495 0.0017913 0.42464 0.00022051 3.8741 0.0020118 519.2852365693551 39.252 0.38011 40.05 39.873 40.253 0.79762 -0.17534 0.00016035 NaN 57.722 52 17 4 NaN NaN NaN NaN 0 NaN NaN 0 1040500 18019 2957 11516 11544 0.03849439097666618 LPSEVDKAL 9 Unmodified _LPSEVDKAL_ 0 0 0 nc|ENSG00000108883|Q15029-3|EFTUD2;ENSG00000108883|ENST00000426333|EFTUD2;ENST00000590977.5_1_17:42931463-42936567:-|nuORF;ENST00000586276.5_1_17:42931463-42937758:-|nuORF;ENST00000590367.5_1_17:42931463-42950195:-|nuORF;nc|ENSG00000108883|Q15029-2|EFTUD2 nc|ENSG00000108883|Q15029-3|EFTUD2 nc|ENSG00000108883|Q15029-3|EFTUD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.2756652832031 2 486.274032 970.533512 NaN NaN NaN NaN NaN NaN NaN 40.893 1 41.537 41.037 42.037 0.64451 0 0 0 0.11654 1 18694 18694 38.615 2.4877 1 18020 1658 11517 11545 20646 20646 0.0470663434908829 LPSEVEPEL 9 Unmodified _LPSEVEPEL_ 0 0 0 ENST00000580485.1_1_17:30665207-30669158:-|nuORF;ENSG00000108666|ENST00000577809|C17orf75 ENST00000580485.1_1_17:30665207-30669158:-|nuORF ENST00000580485.1_1_17:30665207-30669158:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.763916015625 2 506.763497 1011.51244 3.2679 0.001656 -1.8227 -0.00092367 1.4452 0.00073238 506.76225825810445 59.365 0.23173 59.624 59.518 59.75 0.2593 12 8 2 0 0 0 0.09451 1 27208 27208 34.102 1.797 1 349670 18021 1643 11518 11546 20647 20647 0.007146242495764454 LPSFDAHLTEL 11 Unmodified _LPSFDAHLTEL_ 0 0 0 nc|ENSG00000168710|O43865-2|AHCYL1;ENSG00000168710|ENST00000369799|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 621.8267211914062 2 621.821878 1241.6292 3.1886 0.0019827 -0.62371 -0.00038784 2.5649 0.0015949 621.8210928709725 71.127 0.25196 71.127 71.016 71.268 0 48 25 3 0 0 0 8.503E-20 1 34543 34543 140.63 92.884 1 3689600 18022 4648 11519 11547 20648 20648 0.018053624693038728 LPSFDAHLTEL 11 Unmodified _LPSFDAHLTEL_ 0 0 0 nc|ENSG00000168710|O43865-2|AHCYL1;ENSG00000168710|ENST00000369799|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.8222045898438 2 621.821878 1241.6292 2.8546 0.001775 -0.56513 -0.00035141 2.2894 0.0014236 621.8214188915548 70.414 0.17827 71.117 70.988 71.166 0.70387 46 18 3 0 0 0 2.4699E-82 1 33702 33702 223.81 172.4 1 2868200 18023 4648 11519 11547 20649 20649 0.018053624693038728 LPSFDAHLTEL 11 Unmodified _LPSFDAHLTEL_ 0 0 0 nc|ENSG00000168710|O43865-2|AHCYL1;ENSG00000168710|ENST00000369799|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 621.8236694335938 2 621.821878 1241.6292 3.4214 0.0021275 -0.5311 -0.00033025 2.8903 0.0017973 621.8215394585213 71.027 0.31477 71.285 71.104 71.419 0.25786 78 30 3 0 0 0 3.3074E-118 3 32519 32475;32519;32563 249.11 178.78 1 4013700 18024 4648 11519 11547 20650;20651;20652 20651 0.018053624693038728 LPSFDAHLTEL 11 Unmodified _LPSFDAHLTEL_ 0 0 0 nc|ENSG00000168710|O43865-2|AHCYL1;ENSG00000168710|ENST00000369799|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 nc|ENSG00000168710|O43865-2|AHCYL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 621.8240966796875 2 621.821878 1241.6292 3.227 0.0020066 0.46179 0.00028715 3.6888 0.0022938 621.822140244441 70.472 0.29826 71.134 71.004 71.302 0.66208 52 17 4 0 0 0 2.9793E-99 3 32317 32279;32317;32371 232.37 167.14 1 3970700 18025 4648 11519 11547 20653;20654;20655 20654 0.018053624693038728 LPSFPFNPQYQ 11 Unmodified _LPSFPFNPQYQ_ 0 0 0 ENST00000537981.5_2_11:63523602-63525863:+|nuORF;nc|ENSG00000133318|O95197-6|RTN3 ENST00000537981.5_2_11:63523602-63525863:+|nuORF ENST00000537981.5_2_11:63523602-63525863:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 669.3302001953125 2 669.32987 1336.64519 NaN NaN NaN NaN NaN NaN NaN 107.05 1 107.1 106.6 107.6 0.045425 0 0 0 1.0041 1 57885 57885 5.2969 2.0156 1 18026 8780 11520 11548 20656 20656 -0.00966931293783091 LPSFSASWFP 10 Unmodified _LPSFSASWFP_ 0 0 0 ENST00000369443.9_1_1:118413138-118413189:-|nuORF ENST00000369443.9_1_1:118413138-118413189:-|nuORF ENST00000369443.9_1_1:118413138-118413189:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.7854614257812 2 569.782025 1137.5495 3.5158 0.0020033 -0.45293 -0.00025807 3.0629 0.0017452 569.782463866062 45.829 0.87866 46.655 46.256 47.135 0.82621 60 28 3 0 0 0 0.51828 1 20916 20916 20.454 1.1966 1 4824200 18027 7293 11521 11549 20657 20657 -0.013776594140153975 LPSGEDYNL 9 Unmodified _LPSGEDYNL_ 0 0 0 nc|ENSG00000165416|Q9Y2Z0|SUGT1;ENSG00000165416|ENST00000310528|SUGT1 nc|ENSG00000165416|Q9Y2Z0|SUGT1 nc|ENSG00000165416|Q9Y2Z0|SUGT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.2398681640625 2 504.237647 1006.46074 NaN NaN NaN NaN NaN NaN NaN 49.9 1 50.722 50.222 51.222 0.82285 0 0 0 0.62812 1 22731 22731 14.838 3.198 1 18028 4398 11522 11550 20658 20658 -0.042231194443274944 LPSKDVQSL 9 Unmodified _LPSKDVQSL_ 0 0 0 nc|ENSG00000109762|Q9H3E2|SNX25;ENSG00000109762|ENST00000652585|SNX25 nc|ENSG00000109762|Q9H3E2|SNX25 nc|ENSG00000109762|Q9H3E2|SNX25 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.7809753417969 2 493.779482 985.544411 3.25 0.0016048 -0.019181 -9.4711E-06 3.2308 0.0015953 493.7794197019037 30.079 0.44526 30.869 30.706 31.152 0.78921 72 41 2 0 0 0 0.021401 1 13546 13546 66.457 0 1 417440 18029 1685 11523 11551 20659 20659 0.05106036723384477 LPSKDVQSL 9 Unmodified _LPSKDVQSL_ 0 0 0 nc|ENSG00000109762|Q9H3E2|SNX25;ENSG00000109762|ENST00000652585|SNX25 nc|ENSG00000109762|Q9H3E2|SNX25 nc|ENSG00000109762|Q9H3E2|SNX25 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.78106689453125 2 493.779482 985.544411 3.2234 0.0015916 0.37771 0.00018651 3.6011 0.0017782 493.77949852939435 30.426 0.38958 31.044 30.831 31.22 0.61737 48 26 2 0 0 0 0.021401 1 13915 13915 66.457 3.884 1 636700 18030 1685 11523 11551 20660 20660 0.05106036723384477 LPSLSAHEL 9 Unmodified _LPSLSAHEL_ 0 0 0 nc|ENSG00000126391|Q9BZ67-3|FRMD8;ENSG00000126391|ENST00000317568|FRMD8 nc|ENSG00000126391|Q9BZ67-3|FRMD8 nc|ENSG00000126391|Q9BZ67-3|FRMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.76751708984375 2 483.766374 965.518196 3.4591 0.0016734 -0.086491 -4.1841E-05 3.3726 0.0016315 483.7662996300788 51.101 0.30359 51.101 50.963 51.266 0 26 16 2 0 0 0 0.017868 1 23405 23405 71.134 29.039 1 457630 18031 2450 11524 11552 20661 20661 0.03405767551907957 LPSLSAHEL 9 Unmodified _LPSLSAHEL_ 0 0 0 nc|ENSG00000126391|Q9BZ67-3|FRMD8;ENSG00000126391|ENST00000317568|FRMD8 nc|ENSG00000126391|Q9BZ67-3|FRMD8 nc|ENSG00000126391|Q9BZ67-3|FRMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.7680969238281 2 483.766374 965.518196 3.1575 0.0015275 -0.071101 -3.4396E-05 3.0864 0.0014931 483.7661413049356 50.238 0.48774 51.061 50.756 51.244 0.82285 33 23 2 0 0 0 0.032303 3 22905 22878;22905;22930 54.774 16.227 1 373460 18032 2450 11524 11552 20662;20663;20664 20663 0.03405767551907957 LPSLSAHEL 9 Unmodified _LPSLSAHEL_ 0 0 0 nc|ENSG00000126391|Q9BZ67-3|FRMD8;ENSG00000126391|ENST00000317568|FRMD8 nc|ENSG00000126391|Q9BZ67-3|FRMD8 nc|ENSG00000126391|Q9BZ67-3|FRMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.767578125 2 483.766374 965.518196 3.0934 0.0014965 0.45136 0.00021835 3.5448 0.0017148 483.76648282466175 50.371 0.48788 51.028 50.729 51.217 0.65735 29 22 2 0 0 0 0.071101 1 23023 23023 39.957 15.937 1 295240 18033 2450 11524 11552 20665 20665 0.03405767551907957 LPSMPEPAL 9 Unmodified _LPSMPEPAL_ 0 0 0 nc|ENSG00000179583|P33076-2|CIITA;ENST00000573309.5_1_16:10971115-11002148:+|nuORF;nc|ENSG00000179583|P33076-4|CIITA;ENST00000570546.5_1_16:10971115-11002148:+|nuORF;nc|ENSG00000179583|P33076|CIITA;ENSG00000179583|ENST00000324288|CIITA;nc|ENSG00000179583|P33076-3|CIITA nc|ENSG00000179583|P33076-2|CIITA nc|ENSG00000179583|P33076-2|CIITA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 954.500244140625 1 954.496481 953.489204 3.744 0.0035736 -0.60266 -0.00057524 3.1413 0.0029984 954.4960176419411 69.819 0.38359 70.074 69.85 70.233 0.25443 58 24 3 0 0 0 0.0026885 3 31953 31899;31953;31998 97.075 61.03 1 1691100 18034 5222 11525 11553 20666;20667;20668 20667 0.01059906931243404 LPSMPEPAL 9 Unmodified _LPSMPEPAL_ 0 0 0 nc|ENSG00000179583|P33076-2|CIITA;ENST00000573309.5_1_16:10971115-11002148:+|nuORF;nc|ENSG00000179583|P33076-4|CIITA;ENST00000570546.5_1_16:10971115-11002148:+|nuORF;nc|ENSG00000179583|P33076|CIITA;ENSG00000179583|ENST00000324288|CIITA;nc|ENSG00000179583|P33076-3|CIITA nc|ENSG00000179583|P33076-2|CIITA nc|ENSG00000179583|P33076-2|CIITA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 477.7535095214844 2 477.751879 953.489204 3.0854 0.0014741 -0.34313 -0.00016393 2.7423 0.0013101 477.7518402935287 69.824 0.4821 70.079 69.798 70.28 0.25501 89 30 4 0 0 0 0.0061269 2 31934 31934;31980 89.427 47.332 1 4915100 18035 5222 11525 11553 20669;20670 20669 0.01059906931243404 LPSMPEPAL 9 Unmodified _LPSMPEPAL_ 0 0 0 nc|ENSG00000179583|P33076-2|CIITA;ENST00000573309.5_1_16:10971115-11002148:+|nuORF;nc|ENSG00000179583|P33076-4|CIITA;ENST00000570546.5_1_16:10971115-11002148:+|nuORF;nc|ENSG00000179583|P33076|CIITA;ENSG00000179583|ENST00000324288|CIITA;nc|ENSG00000179583|P33076-3|CIITA nc|ENSG00000179583|P33076-2|CIITA nc|ENSG00000179583|P33076-2|CIITA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.7534484863281 2 477.751879 953.489204 2.8206 0.0013476 -0.2923 -0.00013964 2.5283 0.0012079 477.75184735187497 69.305 0.43043 69.965 69.746 70.177 0.66071 90 28 4 0 0 0 0.0061269 3 31762 31716;31762;31805 89.427 47.332 1 4461700 18036 5222 11525 11553 20671;20672;20673 20672 0.01059906931243404 LPSMPEPAL 9 Unmodified _LPSMPEPAL_ 0 0 0 nc|ENSG00000179583|P33076-2|CIITA;ENST00000573309.5_1_16:10971115-11002148:+|nuORF;nc|ENSG00000179583|P33076-4|CIITA;ENST00000570546.5_1_16:10971115-11002148:+|nuORF;nc|ENSG00000179583|P33076|CIITA;ENSG00000179583|ENST00000324288|CIITA;nc|ENSG00000179583|P33076-3|CIITA nc|ENSG00000179583|P33076-2|CIITA nc|ENSG00000179583|P33076-2|CIITA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 954.4966430664062 1 954.496481 953.489204 3.5389 0.0033778 -0.38773 -0.00037009 3.1511 0.0030077 954.4962063626169 69.317 0.39131 69.978 69.785 70.177 0.66072 62 26 3 0 0 0 0.0080831 3 31717 31717;31763;31816 85.357 55.132 1 1795700 18037 5222 11525 11553 20674;20675;20676 20674 0.01059906931243404 LPSNDEPIL 9 Unmodified _LPSNDEPIL_ 0 0 0 ENSG00000011405|ENST00000691414|PIK3C2A;ENST00000531428.1_1_11:17113817-17167232:-|nuORF ENSG00000011405|ENST00000691414|PIK3C2A ENSG00000011405|ENST00000691414|PIK3C2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.2630920410156 2 499.263665 996.512776 3.215 0.0016051 -0.93839 -0.0004685 2.2766 0.0011366 499.26311327771856 58.755 0.27534 59.017 58.982 59.257 0.26228 26 16 2 0 0 0 0.038142 1 26931 26931 52.268 12.319 1 881520 18038 414 11526 11554 20677 20677 0.014380439694264169 LPSNTLDRL 9 Unmodified _LPSNTLDRL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.7911987304688 2 514.790381 1027.56621 3.1165 0.0016043 0.25927 0.00013347 3.3758 0.0017378 514.7903462677639 45.598 0.2433 45.598 45.468 45.711 0 24 10 3 0 0 0 0.020338 1 20850 20850 67.838 14.005 1 805850 18039 6272 11527 11555 20678 20678 0.05352841471949432 LPSNTLDRL 9 Unmodified _LPSNTLDRL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.2930908203125 2 514.790381 1027.56621 3.1982 0.0016464 -0.15783 -8.1247E-05 3.0404 0.0015652 514.7905061531756 44.533 0.26114 45.354 45.192 45.453 0.82074 19 12 2 0 0 0 0.020338 1 20262 20262 67.838 14.005 1 776690 18040 6272 11527 11555 20679 20679 0.05352841471949432 LPSNTLDRL 9 Unmodified _LPSNTLDRL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.7916870117188 2 514.790381 1027.56621 3.6026 0.0018546 -0.055201 -2.8417E-05 3.5474 0.0018262 514.7902436354697 44.86 0.24545 45.51 45.346 45.592 0.64998 18 8 3 0 0 0 0.026853 1 20559 20559 59.368 13.669 1 698580 18041 6272 11527 11555 20680 20680 0.05352841471949432 LPSPAIDHEQL 11 Unmodified _LPSPAIDHEQL_ 0 0 0 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;nc|ENSG00000127603|Q9UPN3-5|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 610.3211669921875 2 610.319502 1218.62445 3.2368 0.0019755 -0.54276 -0.00033126 2.694 0.0016442 610.8206085329231 46.705 0.33765 47.535 47.456 47.793 0.82915 33 16 3 0 0 0 6.7267E-10 1 21312 21312 118.81 69.259 1 905730 18042 2487;9629 11528 11556 20681 20681 0.02388478326565746 LPSPAIDHEQL 11 Unmodified _LPSPAIDHEQL_ 0 0 0 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;nc|ENSG00000127603|Q9UPN3-5|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 610.32080078125 2 610.319502 1218.62445 3.7562 0.0022925 -0.30325 -0.00018508 3.453 0.0021074 610.820809121426 47.63 0.52684 47.893 47.556 48.083 0.26363 56 32 2 0 0 0 3.9473E-15 3 21790 21687;21740;21790 132.22 72.146 1 3305000 18043 2487;9629 11528 11556 20682;20683;20684 20684 0.02388478326565746 LPSPAIDHEQL 11 Unmodified _LPSPAIDHEQL_ 0 0 0 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;nc|ENSG00000127603|Q9UPN3-5|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 610.3203125 2 610.319502 1218.62445 3.5761 0.0021826 -0.40133 -0.00024494 3.1748 0.0019376 610.319178975534 46.993 0.49216 47.645 47.344 47.836 0.65219 52 29 2 0 0 0 6.2558E-20 3 21505 21441;21505;21554 143.21 84.534 1 3586000 18044 2487;9629 11528 11556 20685;20686;20687 20686 0.02388478326565746 LPSPAIDHEQL 11 Unmodified _LPSPAIDHEQL_ 0 0 0 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;nc|ENSG00000127603|Q9UPN3-5|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 610.3220825195312 2 610.319502 1218.62445 NaN NaN NaN NaN NaN NaN NaN 47.203 1 47.855 47.355 48.355 0.65219 0 0 0 0.99571 1 21616 21616 7.1017 0 1 18045 2487;9629 11528 11556 20688 20688 0.02388478326565746 LPSPAIDHEQL 11 Unmodified _LPSPAIDHEQL_ 0 0 0 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;nc|ENSG00000127603|Q9UPN3-5|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 610.319502 1218.62445 3.4759 0.0021214 -0.73312 -0.00044744 2.7428 0.001674 610.8205569125793 47.748 0.26899 47.748 47.686 47.955 0 0.042806 -0.00033141 NaN 143.21 25 16 3 NaN NaN NaN NaN 0 NaN NaN 0 2486100 18046 2487;9629 11528 11556 0.02388478326565746 LPSPHAGLL 9 Unmodified _LPSPHAGLL_ 0 0 0 REV__ENST00000448392.5_1_15:42560200-42565602:-|nuORF REV__ENST00000448392.5_1_15:42560200-42565602:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 452.76708984375 2 452.766178 903.517802 2.7555 0.0012476 0.18793 8.5089E-05 2.9434 0.0013327 452.76619301486124 50.02 0.948 50.02 49.419 50.367 0 120 43 3 0 0 0 0.056465 1 22679 22679 44.407 2.5674 1 2987200 + 18047 10980 11529 11557 20689 20689 0.06218392622713509 LPSPLEPPVL 10 Unmodified _LPSPLEPPVL_ 0 0 0 ENST00000589104.5_1_19:5070919-5151519:+|nuORF;nc|ENSG00000127663|O94953|KDM4B;ENSG00000127663|ENST00000159111|KDM4B ENST00000589104.5_1_19:5070919-5151519:+|nuORF ENST00000589104.5_1_19:5070919-5151519:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.3173217773438 2 531.3157 1060.61685 3.133 0.0016646 -0.21932 -0.00011653 2.9137 0.0015481 531.3156412900449 84.092 0.29308 84.34 84.222 84.515 0.24758 28 15 2 0 0 0 0.14785 1 38713 38713 46.021 13.235 1 329930 18048 2489 11530 11558 20690 20690 0.0889637079694694 LPSPLEPPVL 10 Unmodified _LPSPLEPPVL_ 0 0 0 ENST00000589104.5_1_19:5070919-5151519:+|nuORF;nc|ENSG00000127663|O94953|KDM4B;ENSG00000127663|ENST00000159111|KDM4B ENST00000589104.5_1_19:5070919-5151519:+|nuORF ENST00000589104.5_1_19:5070919-5151519:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 531.3157 1060.61685 3.3896 0.0018009 0.14686 7.8028E-05 3.5364 0.001879 531.3157424124643 83.651 0.31133 84.313 84.139 84.45 0.66219 -0.01356 0.0002009 NaN 46.021 32 20 2 NaN NaN NaN NaN 0 NaN NaN 0 504220 18049 2489 11530 11558 0.0889637079694694 LPSPQHIL 8 Unmodified _LPSPQHIL_ 0 0 0 nc|ENSG00000100243|P00387-2|CYB5R3;ENSG00000100243|ENST00000352397|CYB5R3;nc|ENSG00000100243|P00387-3|CYB5R3;ENST00000470741.1_1_22:43027330-43027570:-|nuORF nc|ENSG00000100243|P00387-2|CYB5R3 nc|ENSG00000100243|P00387-2|CYB5R3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 452.7677307128906 2 452.766178 903.517802 2.7555 0.0012476 0.18793 8.5089E-05 2.9434 0.0013327 452.76619301486124 50.02 0.948 50.02 49.419 50.367 0 120 43 3 0 0 0 0.01453 6 22844 22740;22785;22844;22892;22971;23024 92.491 18.069 1 2987200 18050 1195 11531 11559 20691;20692;20693;20694;20695;20696 20693 0.06218392622713509 LPSPQHIL 8 Unmodified _LPSPQHIL_ 0 0 0 nc|ENSG00000100243|P00387-2|CYB5R3;ENSG00000100243|ENST00000352397|CYB5R3;nc|ENSG00000100243|P00387-3|CYB5R3;ENST00000470741.1_1_22:43027330-43027570:-|nuORF nc|ENSG00000100243|P00387-2|CYB5R3 nc|ENSG00000100243|P00387-2|CYB5R3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 452.7674865722656 2 452.766178 903.517802 2.8245 0.0012788 0.075506 3.4186E-05 2.9 0.001313 452.7661344363139 49.123 1.0911 49.95 49.215 50.306 0.82705 143 57 3 0 0 0 0.01453 7 22309 22169;22216;22257;22309;22401;22447;22513 92.491 18.069 1 2377200 18051 1195 11531 11559 20697;20698;20699;20700;20701;20702;20703 20700 0.06218392622713509 LPSPQHIL 8 Unmodified _LPSPQHIL_ 0 0 0 nc|ENSG00000100243|P00387-2|CYB5R3;ENSG00000100243|ENST00000352397|CYB5R3;nc|ENSG00000100243|P00387-3|CYB5R3;ENST00000470741.1_1_22:43027330-43027570:-|nuORF nc|ENSG00000100243|P00387-2|CYB5R3 nc|ENSG00000100243|P00387-2|CYB5R3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.76776123046875 2 452.766178 903.517802 2.8214 0.0012774 0.64818 0.00029347 3.4696 0.0015709 452.7663747631101 49.828 0.96342 50.09 49.427 50.391 0.26146 97 37 3 0 0 0 0.01453 5 22751 22587;22644;22694;22751;22802 92.491 18.069 1 2539000 18052 1195 11531 11559 20704;20705;20706;20707;20708 20707 0.06218392622713509 LPSPQHIL 8 Unmodified _LPSPQHIL_ 0 0 0 nc|ENSG00000100243|P00387-2|CYB5R3;ENSG00000100243|ENST00000352397|CYB5R3;nc|ENSG00000100243|P00387-3|CYB5R3;ENST00000470741.1_1_22:43027330-43027570:-|nuORF nc|ENSG00000100243|P00387-2|CYB5R3 nc|ENSG00000100243|P00387-2|CYB5R3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 452.7676086425781 2 452.766178 903.517802 3.1133 0.0014096 0.40747 0.00018449 3.5208 0.0015941 452.766225491541 49.256 0.8542 49.911 49.31 50.164 0.65524 73 30 3 0 0 0 0.0095787 5 22499 22382;22442;22499;22560;22608 103.75 29.326 1 2380700 18053 1195 11531 11559 20709;20710;20711;20712;20713 20711 0.06218392622713509 LPSQEVQAL 9 Unmodified _LPSQEVQAL_ 0 0 0 ENST00000526058.1_1_11:66360677-66366729:+|nuORF;ENST00000530384.5_1_11:66360639-66366729:+|nuORF;ENSG00000173992|ENST00000533244|CCS ENST00000526058.1_1_11:66360677-66366729:+|nuORF ENST00000526058.1_1_11:66360677-66366729:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.7733459472656 2 492.771657 983.528761 3.0813 0.0015184 -0.21123 -0.00010409 2.8701 0.0014143 492.7714330556731 49.315 0.30453 49.315 49.171 49.475 0 30 12 3 0 0 0 0.029308 1 22571 22571 56.177 2.3442 1 2392000 18054 4961 11532 11560 20714 20714 0.036337502063247484 LPSQEVQAL 9 Unmodified _LPSQEVQAL_ 0 0 0 ENST00000526058.1_1_11:66360677-66366729:+|nuORF;ENST00000530384.5_1_11:66360639-66366729:+|nuORF;ENSG00000173992|ENST00000533244|CCS ENST00000526058.1_1_11:66360677-66366729:+|nuORF ENST00000526058.1_1_11:66360677-66366729:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.7723388671875 2 492.771657 983.528761 3.2853 0.0016189 0.017991 8.8657E-06 3.3033 0.0016277 492.7716542287256 49.156 0.31512 49.418 49.246 49.562 0.26146 26 11 3 0 0 0 0.015098 1 22446 22446 74.929 29.229 1 1387200 18055 4961 11532 11560 20715 20715 0.036337502063247484 LPSQEVQAL 9 Unmodified _LPSQEVQAL_ 0 0 0 ENST00000526058.1_1_11:66360677-66366729:+|nuORF;ENST00000530384.5_1_11:66360639-66366729:+|nuORF;ENSG00000173992|ENST00000533244|CCS ENST00000526058.1_1_11:66360677-66366729:+|nuORF ENST00000526058.1_1_11:66360677-66366729:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.773681640625 2 492.771657 983.528761 3.3489 0.0016502 -0.020611 -1.0157E-05 3.3282 0.0016401 492.7717549282946 48.695 0.35224 49.35 49.173 49.525 0.65525 24 12 3 0 0 0 0.029308 1 22263 22263 56.177 16.227 1 1083500 18056 4961 11532 11560 20716 20716 0.036337502063247484 LPSQEVQAL 9 Unmodified _LPSQEVQAL_ 0 0 0 ENST00000526058.1_1_11:66360677-66366729:+|nuORF;ENST00000530384.5_1_11:66360639-66366729:+|nuORF;ENSG00000173992|ENST00000533244|CCS ENST00000526058.1_1_11:66360677-66366729:+|nuORF ENST00000526058.1_1_11:66360677-66366729:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 492.771657 983.528761 3.1589 0.0015566 -1.7539 -0.00086426 1.405 0.00069235 492.77046104831265 48.322 0.50442 49.149 49.001 49.505 0.82705 -0.15933 -0.0015838 NaN 74.929 49 25 3 NaN NaN NaN NaN 0 NaN NaN 0 1612200 18057 4961 11532 11560 0.036337502063247484 LPSRDQSLL 9 Unmodified _LPSRDQSLL_ 0 0 0 REV__ENSG00000008197|ENST00000008391|TFAP2D REV__ENSG00000008197|ENST00000008391|TFAP2D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.7921752929688 2 514.790381 1027.56621 3.4005 0.0017505 -0.21649 -0.00011145 3.184 0.0016391 514.7903081281327 30.617 0.36605 31.406 31.179 31.545 0.78879 47 28 2 0 0 0 0.078225 1 13836 13836 38.176 3.7738 1 403610 + 18058 10205 11533 11561 20717 20717 0.05352841471949432 LPSRKLVAL 9 Unmodified _LPSRKLVAL_ 0 0 0 nc|ENSG00000128789|Q969U7-2|PSMG2;ENSG00000128789|ENST00000317615|PSMG2 nc|ENSG00000128789|Q969U7-2|PSMG2 nc|ENSG00000128789|Q969U7-2|PSMG2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.8336486816406 2 498.831852 995.649151 3.0994 0.0015461 0.6743 0.00033636 3.7737 0.0018824 498.8321379709176 37.669 0.33161 37.669 37.482 37.813 0 35 12 4 0 0 0 0.03963 2 17115 17058;17115 51.63 15.503 1 1489200 18059 2526 11534 11562 20718;20719 20719 0.15115202990614307 LPSRKLVAL 9 Unmodified _LPSRKLVAL_ 0 0 0 nc|ENSG00000128789|Q969U7-2|PSMG2;ENSG00000128789|ENST00000317615|PSMG2 nc|ENSG00000128789|Q969U7-2|PSMG2 nc|ENSG00000128789|Q969U7-2|PSMG2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.8336181640625 2 498.831852 995.649151 3.0833 0.0015381 0.49865 0.00024874 3.582 0.0017868 498.8319451469948 36.561 0.41268 37.354 37.149 37.562 0.79342 47 20 3 0 0 0 0.057945 2 16589 16540;16589 43.772 29.841 1 711870 18060 2526 11534 11562 20720;20721 20721 0.15115202990614307 LPSRKLVAL 9 Unmodified _LPSRKLVAL_ 0 0 0 nc|ENSG00000128789|Q969U7-2|PSMG2;ENSG00000128789|ENST00000317615|PSMG2 nc|ENSG00000128789|Q969U7-2|PSMG2 nc|ENSG00000128789|Q969U7-2|PSMG2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.8337707519531 2 498.831852 995.649151 3.3795 0.0016858 0.25106 0.00012524 3.6306 0.0018111 498.83193893491057 37.384 0.40923 37.644 37.447 37.856 0.26083 36 12 4 0 0 0 0.0061394 2 17004 17004;17062 89.401 41.652 1 3336300 18061 2526 11534 11562 20722;20723 20722 0.15115202990614307 LPSRKLVAL 9 Unmodified _LPSRKLVAL_ 0 0 0 nc|ENSG00000128789|Q969U7-2|PSMG2;ENSG00000128789|ENST00000317615|PSMG2 nc|ENSG00000128789|Q969U7-2|PSMG2 nc|ENSG00000128789|Q969U7-2|PSMG2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.8336486816406 2 498.831852 995.649151 3.3011 0.0016467 0.43955 0.00021926 3.7407 0.001866 498.83203550547506 36.692 0.40792 37.322 37.109 37.517 0.62999 58 17 4 0 0 0 0.0061394 3 16810 16752;16810;16861 89.401 41.652 1 2262000 18062 2526 11534 11562 20724;20725;20726 20725 0.15115202990614307 LPSRKLVAL 9 Unmodified _LPSRKLVAL_ 0 0 0 nc|ENSG00000128789|Q969U7-2|PSMG2;ENSG00000128789|ENST00000317615|PSMG2 nc|ENSG00000128789|Q969U7-2|PSMG2 nc|ENSG00000128789|Q969U7-2|PSMG2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.89129638671875 3 332.890327 995.649151 2.3598 0.00078554 0.60605 0.00020175 2.9658 0.00098729 332.8905030442319 36.679 0.67571 37.309 37.077 37.752 0.62999 78 27 4 0 0 0 0.086415 1 16807 16807 33.445 11.855 1 4811900 18063 2526 11534 11562 20727 20727 0.15115202990614307 LPSRLHFV 8 Unmodified _LPSRLHFV_ 0 0 0 REV__ENSG00000136011|ENST00000388887|STAB2 REV__ENSG00000136011|ENST00000388887|STAB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.7901306152344 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 44.295 1 44.565 44.065 45.065 0.2694 0 0 0 0.92256 1 20247 20247 10.824 1.4765 1 + 18064 12055 11535 11563 20728 20728 0.07525787750932977 LPSSDTLDL 9 Unmodified _LPSSDTLDL_ 0 0 0 ENSG00000243156|ENST00000441493|MICAL3;nc|ENSG00000243156|Q7RTP6-2|MICAL3;nc|ENSG00000243156|Q7RTP6-4|MICAL3;nc|ENSG00000243156|Q7RTP6-3|MICAL3;nc|ENSG00000243156|Q7RTP6-5|MICAL3 ENSG00000243156|ENST00000441493|MICAL3 ENSG00000243156|ENST00000441493|MICAL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 960.48974609375 1 960.488418 959.481142 3.244 0.0031158 0.32632 0.00031342 3.5703 0.0034292 960.4891981799838 62.654 0.04892 62.654 62.634 62.683 0 9 6 2 0 0 0 0.0019388 1 29384 29384 104.8 23.186 1 5304300 18065 6234 11536 11564 20729 20729 -0.00021948784524283838 LPSSFVEKL 9 Unmodified _LPSSFVEKL_ 0 0 0 SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant;nc|ENSG00000157106|Q96Q15-2|SMG1;ENSG00000157106|ENST00000446231|SMG1;ENST00000523028.5_1_16:21892164-21910369:-|nuORF;ENST00000309865.11_1_16:22482951-22501641:+|nuORF;ENST00000522480.5_1_16:21475086-21478634:-|nuORF;ENST00000566127.1_1_16:29556504-29560080:-|nuORF;ENST00000529428.5_1_16:30296511-30300103:-|nuORF;ENST00000532337.1_1_16:29451232-29458344:-|nuORF SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.2928466796875 2 510.292225 1018.5699 3.186 0.0016258 -0.099608 -5.0829E-05 3.0864 0.001575 510.2919557637382 57.757 0.34845 57.757 57.599 57.947 0 69 32 3 0 0 0 0.0057865 2 26615 26615;26668 90.135 37.867 1 2476200 18066 3939 11537 11565 20730;20731 20730 0.061355112458159056 LPSSFVEKL 9 Unmodified _LPSSFVEKL_ 0 0 0 SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant;nc|ENSG00000157106|Q96Q15-2|SMG1;ENSG00000157106|ENST00000446231|SMG1;ENST00000523028.5_1_16:21892164-21910369:-|nuORF;ENST00000309865.11_1_16:22482951-22501641:+|nuORF;ENST00000522480.5_1_16:21475086-21478634:-|nuORF;ENST00000566127.1_1_16:29556504-29560080:-|nuORF;ENST00000529428.5_1_16:30296511-30300103:-|nuORF;ENST00000532337.1_1_16:29451232-29458344:-|nuORF SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.2938232421875 2 510.292225 1018.5699 2.9012 0.0014804 -0.51798 -0.00026432 2.3832 0.0012161 510.292210549538 56.755 0.30651 57.533 57.399 57.706 0.77786 68 33 3 0 0 0 0.002702 2 25953 25953;26009 96.936 22.007 1 2004200 18067 3939 11537 11565 20732;20733 20732 0.061355112458159056 LPSSFVEKL 9 Unmodified _LPSSFVEKL_ 0 0 0 SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant;nc|ENSG00000157106|Q96Q15-2|SMG1;ENSG00000157106|ENST00000446231|SMG1;ENST00000523028.5_1_16:21892164-21910369:-|nuORF;ENST00000309865.11_1_16:22482951-22501641:+|nuORF;ENST00000522480.5_1_16:21475086-21478634:-|nuORF;ENST00000566127.1_1_16:29556504-29560080:-|nuORF;ENST00000529428.5_1_16:30296511-30300103:-|nuORF;ENST00000532337.1_1_16:29451232-29458344:-|nuORF SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.29388427734375 2 510.292225 1018.5699 3.4095 0.0017398 -0.1972 -0.00010063 3.2123 0.0016392 510.2921229666309 56.908 0.29868 57.576 57.436 57.735 0.66829 35 14 3 0 0 0 0.0057865 2 26062 26005;26062 90.135 31.456 1 2516800 18068 3939 11537 11565 20734;20735 20735 0.061355112458159056 LPSSFVEKL 9 Unmodified _LPSSFVEKL_ 0 0 0 SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant;nc|ENSG00000157106|Q96Q15-2|SMG1;ENSG00000157106|ENST00000446231|SMG1;ENST00000523028.5_1_16:21892164-21910369:-|nuORF;ENST00000309865.11_1_16:22482951-22501641:+|nuORF;ENST00000522480.5_1_16:21475086-21478634:-|nuORF;ENST00000566127.1_1_16:29556504-29560080:-|nuORF;ENST00000529428.5_1_16:30296511-30300103:-|nuORF;ENST00000532337.1_1_16:29451232-29458344:-|nuORF SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 510.292225 1018.5699 3.2908 0.0016793 -0.39416 -0.00020114 2.8966 0.0014781 510.2919028492242 57.477 0.29092 57.742 57.631 57.922 0.26443 0.090063 -0.00012006 NaN 96.936 39 20 3 NaN NaN NaN NaN 0 NaN NaN 0 2564800 18069 3939 11537 11565 0.061355112458159056 LPSSQREVL 9 Unmodified _LPSSQREVL_ 0 0 0 ENST00000455895.6_1_1:32852491-32860037:-|nuORF;ENST00000474414.5_1_1:32852491-32859819:-|nuORF ENST00000455895.6_1_1:32852491-32860037:-|nuORF ENST00000455895.6_1_1:32852491-32860037:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.7919921875 2 514.790381 1027.56621 3.382 0.001741 0.48477 0.00024956 3.8667 0.0019906 514.790751785113 31.484 0.30582 31.484 31.284 31.59 0 43 27 2 0 0 0 0.057945 2 14233 14184;14233 43.772 10.987 1 385310 18070 8046 11538 11566 20736;20737 20737 0.05352841471949432 LPSSQREVL 9 Unmodified _LPSSQREVL_ 0 0 0 ENST00000455895.6_1_1:32852491-32860037:-|nuORF;ENST00000474414.5_1_1:32852491-32859819:-|nuORF ENST00000455895.6_1_1:32852491-32860037:-|nuORF ENST00000455895.6_1_1:32852491-32860037:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.7922973632812 2 514.790381 1027.56621 3.4005 0.0017505 -0.21649 -0.00011145 3.184 0.0016391 514.7903081281327 30.617 0.36605 31.406 31.179 31.545 0.78879 47 28 2 0 0 0 0.11155 1 13779 13779 29.841 3.5724 1 403610 18071 8046 11538 11566 20738 20738 0.05352841471949432 LPSSQREVL 9 Unmodified _LPSSQREVL_ 0 0 0 ENST00000455895.6_1_1:32852491-32860037:-|nuORF;ENST00000474414.5_1_1:32852491-32859819:-|nuORF ENST00000455895.6_1_1:32852491-32860037:-|nuORF ENST00000455895.6_1_1:32852491-32860037:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.7926635742188 2 514.790381 1027.56621 3.9558 0.0020364 0.35946 0.00018505 4.3152 0.0022214 514.7904853732908 31.258 0.35188 31.514 31.366 31.718 0.25614 38 24 2 0 0 0 0.29523 2 14220 14220;14275 17.113 0 1 254590 18072 8046 11538 11566 20739;20740 20739 0.05352841471949432 LPSSQREVL 9 Unmodified _LPSSQREVL_ 0 0 0 ENST00000455895.6_1_1:32852491-32860037:-|nuORF;ENST00000474414.5_1_1:32852491-32859819:-|nuORF ENST00000455895.6_1_1:32852491-32860037:-|nuORF ENST00000455895.6_1_1:32852491-32860037:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.7923583984375 2 514.790381 1027.56621 3.4301 0.0017658 0.67151 0.00034569 4.1016 0.0021115 514.7906019825987 30.84 0.30088 31.457 31.289 31.59 0.61737 26 17 2 0 0 0 0.26277 2 14189 14129;14189 19.257 3.2068 1 299360 18073 8046 11538 11566 20741;20742 20742 0.05352841471949432 LPSTEEAT 8 Unmodified _LPSTEEAT_ 0 0 0 ENST00000396908.8_2_19:36259471-36259852:+|nuORF ENST00000396908.8_2_19:36259471-36259852:+|nuORF ENST00000396908.8_2_19:36259471-36259852:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 848.4064331054688 1 847.404354 846.397078 4.0852 0.0034618 -3.64 -0.0030845 0.44519 0.00037726 847.400709357653 46.577 0.25156 47.23 47.092 47.344 0.65219 13 8 2 0 0 0 0.65723 1 21325 21325 9.3474 0 1 688500 18074 7572 11539 11567 20743 20743 -0.03226479881436717 LPSVIIYIFV 10 Unmodified _LPSVIIYIFV_ 0 0 0 REV__nc|ENSG00000292366|P51809-3|VAMP7 REV__nc|ENSG00000292366|P51809-3|VAMP7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.3574829101562 2 582.357368 1162.70018 NaN NaN NaN NaN NaN NaN NaN 4.0148 1 4.3911 3.8911 4.8911 0.37632 0 0 0 1.002 1 1821 1821 0 0 1 + 18075 11652 11540 11568 20744 20744 0.12534107244755432 LPSWFLFG 8 Unmodified _LPSWFLFG_ 0 0 0 REV__nc|ENSG00000103056|Q9NY59-2|SMPD3 REV__nc|ENSG00000103056|Q9NY59-2|SMPD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.7595520019531 2 483.757821 965.501089 3.3546 0.0016228 0.29722 0.00014378 3.6518 0.0017666 483.7581743388019 90.862 0.36453 91.534 91.33 91.694 0.67271 36 21 3 0 0 0 0.73686 1 41825 41825 2.8892 0 1 416020 + 18076 10956 11541 11569 20745 20745 0.016958917367446702 LPSWFLFG 8 Unmodified _LPSWFLFG_ 0 0 0 REV__nc|ENSG00000103056|Q9NY59-2|SMPD3 REV__nc|ENSG00000103056|Q9NY59-2|SMPD3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 483.757821 965.501089 3.544 0.0017144 1.4032 0.00067882 4.9472 0.0023933 483.7581990238332 91.268 0.25848 91.519 91.423 91.681 0.25164 -0.0074884 0.00074262 NaN 2.8892 11 9 2 NaN NaN NaN NaN 0 NaN NaN 0 341150 + 18077 10956 11541 11569 0.016958917367446702 LPSWFLFG 8 Unmodified _LPSWFLFG_ 0 0 0 REV__nc|ENSG00000103056|Q9NY59-2|SMPD3 REV__nc|ENSG00000103056|Q9NY59-2|SMPD3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 483.757821 965.501089 3.3546 0.0016228 0.29722 0.00014378 3.6518 0.0017666 483.7581743388019 90.862 0.36453 91.534 91.33 91.694 0.67271 0.0074884 -0.00032746 NaN 2.8892 36 21 3 NaN NaN NaN NaN 0 NaN NaN 0 416020 + 18078 10956 11541 11569 0.016958917367446702 LPTAPVTSIH 10 Unmodified _LPTAPVTSIH_ 0 0 0 PROSER1|p.R529Gfs*27|1|0.06|ENSG00000120685|chr13:39013667-39013668|-/ACTCC|frameshift_variant;nc|ENSG00000120685|Q86XN7-2|PROSER1;ENSG00000120685|ENST00000352251|PROSER1 PROSER1|p.R529Gfs*27|1|0.06|ENSG00000120685|chr13:39013667-39013668|-/ACTCC|frameshift_variant PROSER1|p.R529Gfs*27|1|0.06|ENSG00000120685|chr13:39013667-39013668|-/ACTCC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.3589477539062 2 518.295299 1034.57605 NaN NaN NaN NaN NaN NaN NaN 67.46 1 68.162 67.662 68.662 0.70218 0 0 0 0.96627 1 32080 32080 10.824 1.4765 1 18079 2203 11542 11570 20746 20746 0.060140294773418645 LPTDSATVL 9 Unmodified _LPTDSATVL_ 0 0 0 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 916.5028076171875 1 916.498589 915.491313 3.3309 0.0030528 1.0296 0.00094365 4.3605 0.0039964 916.4995561859405 53.874 0.37492 54.669 54.477 54.852 0.79552 26 17 2 0 0 0 0.02812 2 24600 24554;24600 74.423 23.568 1 488890 18080 5780 11543 11571 20747;20748 20748 0.030186589406980602 LPTDSATVL 9 Unmodified _LPTDSATVL_ 0 0 0 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 916.498589 915.491313 3.7374 0.0034254 0.53587 0.00049112 4.2733 0.0039165 916.4985325001056 53.998 0.097893 54.664 54.64 54.738 0.6665 -0.0025288 -0.00036848 NaN 74.423 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 874420 18081 5780 11543 11571 0.030186589406980602 LPTEAEFQL 9 Unmodified _LPTEAEFQL_ 0 0 0 ENSG00000183508|ENST00000369448|TENT5C ENSG00000183508|ENST00000369448|TENT5C ENSG00000183508|ENST00000369448|TENT5C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.2724609375 2 524.27149 1046.52843 3.0843 0.001617 -0.079791 -4.1832E-05 3.0045 0.0015752 524.2712320906776 72.594 0.32849 72.853 72.692 73.021 0.25876 41 26 2 0 0 0 0.023109 1 33311 33311 64.236 24.279 1 774970 18082 5386 11544 11572 20749 20749 0.00702330486478786 LPTEAEFQL 9 Unmodified _LPTEAEFQL_ 0 0 0 ENSG00000183508|ENST00000369448|TENT5C ENSG00000183508|ENST00000369448|TENT5C ENSG00000183508|ENST00000369448|TENT5C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 524.27149 1046.52843 2.678 0.001404 0.26773 0.00014036 2.9458 0.0015444 524.2712560921965 72.113 0.16743 72.776 72.734 72.902 0.66324 -0.03836 0.00025588 NaN 64.236 22 17 2 NaN NaN NaN NaN 0 NaN NaN 0 1095200 18083 5386 11544 11572 0.00702330486478786 LPTEEEWEF 9 Unmodified _LPTEEEWEF_ 0 0 0 nc|ENSG00000129103|Q8NBJ7-2|SUMF2;ENSG00000129103|ENST00000434526|SUMF2;nc|ENSG00000129103|Q8NBJ7-3|SUMF2 nc|ENSG00000129103|Q8NBJ7-2|SUMF2 nc|ENSG00000129103|Q8NBJ7-2|SUMF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.265869140625 2 590.263862 1178.51317 2.8827 0.0017015 0.32701 0.00019302 3.2097 0.0018945 590.2639831473499 76.371 0.45285 76.371 76.082 76.535 0 95 33 4 0 0 0 0.0026885 4 37366 37318;37366;37416;37474 97.075 67.993 1 6409900 18084 2539 11545 11573 20750;20751;20752;20753 20751 -0.06894581101369113 LPTEEEWEF 9 Unmodified _LPTEEEWEF_ 0 0 0 nc|ENSG00000129103|Q8NBJ7-2|SUMF2;ENSG00000129103|ENST00000434526|SUMF2;nc|ENSG00000129103|Q8NBJ7-3|SUMF2 nc|ENSG00000129103|Q8NBJ7-2|SUMF2 nc|ENSG00000129103|Q8NBJ7-2|SUMF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.2662353515625 2 590.263862 1178.51317 2.908 0.0017165 0.10309 6.085E-05 3.0111 0.0017773 590.2636550657224 75.349 0.39375 76.012 75.821 76.214 0.6635 71 26 4 0 0 0 0.0026885 3 36437 36437;36494;36545 97.075 67.21 1 6911200 18085 2539 11545 11573 20754;20755;20756 20754 -0.06894581101369113 LPTEEEWEF 9 Unmodified _LPTEEEWEF_ 0 0 0 nc|ENSG00000129103|Q8NBJ7-2|SUMF2;ENSG00000129103|ENST00000434526|SUMF2;nc|ENSG00000129103|Q8NBJ7-3|SUMF2 nc|ENSG00000129103|Q8NBJ7-2|SUMF2 nc|ENSG00000129103|Q8NBJ7-2|SUMF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 590.2658081054688 2 590.263862 1178.51317 3.3628 0.0019849 -0.067526 -3.9858E-05 3.2953 0.0019451 590.2638182805414 76.058 0.46433 76.315 76.102 76.566 0.25704 99 33 4 0 0 0 0.0026885 3 34950 34950;34998;35045 97.075 64.769 1 5812200 18086 2539 11545 11573 20757;20758;20759 20757 -0.06894581101369113 LPTEEEWEF 9 Unmodified _LPTEEEWEF_ 0 0 0 nc|ENSG00000129103|Q8NBJ7-2|SUMF2;ENSG00000129103|ENST00000434526|SUMF2;nc|ENSG00000129103|Q8NBJ7-3|SUMF2 nc|ENSG00000129103|Q8NBJ7-2|SUMF2 nc|ENSG00000129103|Q8NBJ7-2|SUMF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1179.5247802734375 1 1179.52045 1178.51317 2.9486 0.0034779 -0.031363 -3.6993E-05 2.9172 0.0034409 1179.5205851014316 76.039 0.29505 76.296 76.141 76.436 0.25704 35 21 2 0 0 0 0.047285 2 35022 34977;35022 48.346 19.859 1 787280 18087 2539 11545 11573 20760;20761 20761 -0.06894581101369113 LPTEEEWEF 9 Unmodified _LPTEEEWEF_ 0 0 0 nc|ENSG00000129103|Q8NBJ7-2|SUMF2;ENSG00000129103|ENST00000434526|SUMF2;nc|ENSG00000129103|Q8NBJ7-3|SUMF2 nc|ENSG00000129103|Q8NBJ7-2|SUMF2 nc|ENSG00000129103|Q8NBJ7-2|SUMF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.266845703125 2 590.263862 1178.51317 3.3112 0.0019545 0.142 8.3816E-05 3.4532 0.0020383 590.2638326910588 75.581 0.46867 76.245 76.048 76.516 0.6644 116 41 4 0 0 0 0.0026885 4 34765 34765;34813;34858;34907 97.075 64.769 1 5886400 18088 2539 11545 11573 20762;20763;20764;20765 20762 -0.06894581101369113 LPTEEEWEF 9 Unmodified _LPTEEEWEF_ 0 0 0 nc|ENSG00000129103|Q8NBJ7-2|SUMF2;ENSG00000129103|ENST00000434526|SUMF2;nc|ENSG00000129103|Q8NBJ7-3|SUMF2 nc|ENSG00000129103|Q8NBJ7-2|SUMF2 nc|ENSG00000129103|Q8NBJ7-2|SUMF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1179.5263671875 1 1179.52045 1178.51317 2.9373 0.0034646 0.37555 0.00044297 3.3128 0.0039075 1179.5209248535068 75.622 0.27376 76.286 76.128 76.402 0.6644 40 25 2 0 0 0 0.028312 3 34831 34788;34831;34877 57.471 28.985 1 874050 18089 2539 11545 11573 20766;20767;20768 20767 -0.06894581101369113 LPTEEYEEAM 10 Unmodified _LPTEEYEEAM_ 0 0 0 ENST00000484115.5_1_3:49028265-49040202:+|nuORF;nc|ENSG00000178467|Q9NXG6-2|P4HTM;ENSG00000178467|ENST00000383729|P4HTM;ENST00000472301.5_1_3:49027419-49042675:+|nuORF;nc|ENSG00000178467|Q9NXG6-3|P4HTM;ENST00000485210.1_1_3:49038767-49040202:+|nuORF ENST00000484115.5_1_3:49028265-49040202:+|nuORF ENST00000484115.5_1_3:49028265-49040202:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 606.2644653320312 2 606.260462 1210.50637 3.4117 0.0020683 -2.2395 -0.0013577 1.1722 0.00071065 606.2592314481436 69.665 0.28275 70.326 70.185 70.467 0.66071 34 21 2 0 0 0 0.51828 1 31928 31928 20.454 9.6297 1 594430 18090 5170 11546 11574 20769 20769 -0.09046262044262221 LPTEEYEEAM 10 Unmodified _LPTEEYEEAM_ 0 0 0 ENST00000484115.5_1_3:49028265-49040202:+|nuORF;nc|ENSG00000178467|Q9NXG6-2|P4HTM;ENSG00000178467|ENST00000383729|P4HTM;ENST00000472301.5_1_3:49027419-49042675:+|nuORF;nc|ENSG00000178467|Q9NXG6-3|P4HTM;ENST00000485210.1_1_3:49038767-49040202:+|nuORF ENST00000484115.5_1_3:49028265-49040202:+|nuORF ENST00000484115.5_1_3:49028265-49040202:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 606.260462 1210.50637 3.5655 0.0021616 -2.26 -0.0013702 1.3055 0.00079146 606.258945808628 70.146 0.32043 70.403 70.265 70.585 0.25642 0.038607 -7.1556E-06 NaN 20.454 34 23 2 NaN NaN NaN NaN 0 NaN NaN 0 612940 18091 5170 11546 11574 -0.09046262044262221 LPTEKEVAL 9 Unmodified _LPTEKEVAL_ 0 0 0 nc|ENSG00000047849|P27816-2|MAP4;nc|ENSG00000047849|P27816-6|MAP4;nc|ENSG00000047849|P27816|MAP4;ENSG00000047849|ENST00000683076|MAP4;nc|ENSG00000047849|P27816-5|MAP4 nc|ENSG00000047849|P27816-2|MAP4 nc|ENSG00000047849|P27816-2|MAP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.2911376953125 2 500.289682 998.564812 2.9608 0.0014812 -0.043218 -2.1621E-05 2.9176 0.0014596 500.2896560769217 41.533 0.30142 42.336 42.211 42.512 0.80351 112 47 3 0 0 0 0.00076206 1 18844 18844 128.93 16.339 1 26942000 18092 562 11547 11575 20770 20770 0.06547207383187015 LPTEKEVAL 9 Unmodified _LPTEKEVAL_ 0 0 0 nc|ENSG00000047849|P27816-2|MAP4;nc|ENSG00000047849|P27816-6|MAP4;nc|ENSG00000047849|P27816|MAP4;ENSG00000047849|ENST00000683076|MAP4;nc|ENSG00000047849|P27816-5|MAP4 nc|ENSG00000047849|P27816-2|MAP4 nc|ENSG00000047849|P27816-2|MAP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.2914123535156 2 500.289682 998.564812 3.354 0.001678 0.34502 0.00017261 3.699 0.0018506 500.2899120664802 42.345 0.3952 42.615 42.415 42.81 0.27021 78 23 4 0 0 0 0.0017155 1 19287 19287 107.1 6.7281 1 11206000 18093 562 11547 11575 20771 20771 0.06547207383187015 LPTEKEVAL 9 Unmodified _LPTEKEVAL_ 0 0 0 nc|ENSG00000047849|P27816-2|MAP4;nc|ENSG00000047849|P27816-6|MAP4;nc|ENSG00000047849|P27816|MAP4;ENSG00000047849|ENST00000683076|MAP4;nc|ENSG00000047849|P27816-5|MAP4 nc|ENSG00000047849|P27816-2|MAP4 nc|ENSG00000047849|P27816-2|MAP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.2914733886719 2 500.289682 998.564812 3.3928 0.0016974 0.44235 0.0002213 3.8352 0.0019187 500.2900349106711 41.552 0.31664 42.197 41.978 42.295 0.64451 47 16 4 0 0 0 0.0012852 1 19002 19002 121.53 8.9409 1 12171000 18094 562 11547 11575 20772 20772 0.06547207383187015 LPTENELTF 9 Unmodified _LPTENELTF_ 0 0 0 ENSG00000061676|ENST00000361354|NCKAP1;nc|ENSG00000061676|Q9Y2A7-2|NCKAP1 ENSG00000061676|ENST00000361354|NCKAP1 ENSG00000061676|ENST00000361354|NCKAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.27001953125 2 532.268947 1062.52334 3.2224 0.0017152 0.195 0.00010379 3.4174 0.001819 532.2690086864831 67.428 0.34465 68.086 67.901 68.246 0.65777 45 22 3 0 0 0 0.029308 2 30868 30868;30914 56.177 18.203 1 874350 18095 648 11548 11576 20773;20774 20773 -0.005419733761527823 LPTENELTF 9 Unmodified _LPTENELTF_ 0 0 0 ENSG00000061676|ENST00000361354|NCKAP1;nc|ENSG00000061676|Q9Y2A7-2|NCKAP1 ENSG00000061676|ENST00000361354|NCKAP1 ENSG00000061676|ENST00000361354|NCKAP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 532.268947 1062.52334 3.3511 0.0017837 1.2969 0.00069031 4.648 0.002474 532.2697724368131 67.908 0.35517 68.16 67.973 68.328 0.25227 0.037216 0.00065249 NaN 56.177 50 25 3 NaN NaN NaN NaN 0 NaN NaN 0 1066600 18096 648 11548 11576 -0.005419733761527823 LPTENVDKM 9 Unmodified _LPTENVDKM_ 0 0 0 ENST00000392900.3_1_7:143551228-143582358:-|nuORF;ENST00000414990.2_3_7:143295168-143301929:+|nuORF;nc|ENSG00000198420|Q9Y4C2-2|TCAF1;ENSG00000198420|ENST00000479870|TCAF1 ENST00000392900.3_1_7:143551228-143582358:-|nuORF ENST00000392900.3_1_7:143551228-143582358:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.7646484375 2 523.762975 1045.5114 3.173 0.0016619 -0.44373 -0.00023241 2.7293 0.0014295 523.7629303905092 32.709 0.33743 32.709 32.504 32.842 0 43 22 3 0 0 0 0.044531 1 14819 14819 49.527 24.128 1 623560 18097 7524 11549 11577 20775 20775 -0.009539133909811426 LPTENVDKM 9 Unmodified _LPTENVDKM_ 0 0 0 ENST00000392900.3_1_7:143551228-143582358:-|nuORF;ENST00000414990.2_3_7:143295168-143301929:+|nuORF;nc|ENSG00000198420|Q9Y4C2-2|TCAF1;ENSG00000198420|ENST00000479870|TCAF1 ENST00000392900.3_1_7:143551228-143582358:-|nuORF ENST00000392900.3_1_7:143551228-143582358:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.7646484375 2 523.762975 1045.5114 3.6047 0.001888 -0.42448 -0.00022233 3.1803 0.0016657 523.7626859755864 32.561 0.26233 32.815 32.668 32.93 0.25452 24 13 2 0 0 0 0.015631 2 14795 14795;14867 74.2 39.798 1 754120 18098 7524 11549 11577 20776;20777 20776 -0.009539133909811426 LPTENVDKM 9 Unmodified _LPTENVDKM_ 0 0 0 ENST00000392900.3_1_7:143551228-143582358:-|nuORF;ENST00000414990.2_3_7:143295168-143301929:+|nuORF;nc|ENSG00000198420|Q9Y4C2-2|TCAF1;ENSG00000198420|ENST00000479870|TCAF1 ENST00000392900.3_1_7:143551228-143582358:-|nuORF ENST00000392900.3_1_7:143551228-143582358:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.7649536132812 2 523.762975 1045.5114 3.2945 0.0017255 -0.28643 -0.00015002 3.008 0.0015755 523.7632351017021 31.932 0.32936 32.55 32.381 32.711 0.61736 35 17 3 0 0 0 0.048715 2 14662 14608;14662 47.732 22.741 1 619500 18099 7524 11549 11577 20778;20779 20779 -0.009539133909811426 LPTLLYFYIEM 11 Unmodified _LPTLLYFYIEM_ 0 0 0 ENST00000210313.7_1_9:123579968-123580187:-|nuORF ENST00000210313.7_1_9:123579968-123580187:-|nuORF ENST00000210313.7_1_9:123579968-123580187:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 701.9310302734375 2 701.869982 1401.72541 NaN NaN NaN NaN NaN NaN NaN 57.004 1 57.781 57.281 58.281 0.77786 0 0 0 1.0072 1 26078 26078 1.3295 0.13619 1 18100 6394 11550 11578 20780 20780 0.040617939850562834 LPTNVKDQV 9 Unmodified _LPTNVKDQV_ 0 0 0 nc|ENSG00000105355|O60664-2|PLIN3;nc|ENSG00000105355|O60664-4|PLIN3;nc|ENSG00000105355|O60664-3|PLIN3;ENSG00000105355|ENST00000221957|PLIN3 nc|ENSG00000105355|O60664-2|PLIN3 nc|ENSG00000105355|O60664-2|PLIN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.2874755859375 2 507.284931 1012.55531 3.1377 0.0015917 0.41767 0.00021188 3.5554 0.0018036 507.28487002404415 28.254 0.15372 28.517 28.477 28.631 0.26245 13 10 2 0 0 0 0.5141 1 12891 12891 12.241 2.1667 1 191840 18101 1486 11551 11579 20781 20781 0.04953439097664614 LPTSSGALLS 10 Unmodified _LPTSSGALLS_ 0 0 0 REV__ENSG00000275023|ENST00000621332|MLLT6 REV__ENSG00000275023|ENST00000621332|MLLT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.2674865722656 2 473.266207 944.517862 2.9977 0.0014187 -0.25013 -0.00011838 2.7476 0.0013003 473.2660438445527 26.219 0.18661 26.484 26.388 26.574 0.26489 22 15 2 0 0 0 0.42206 1 11907 11907 24.021 0 1 304080 + 18102 14732 11552 11580 20782 20782 0.04338347832049294 LPTSSGALLS 10 Unmodified _LPTSSGALLS_ 0 0 0 REV__ENSG00000275023|ENST00000621332|MLLT6 REV__ENSG00000275023|ENST00000621332|MLLT6 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 473.266207 944.517862 2.9977 0.0014187 -0.25013 -0.00011838 2.7476 0.0013003 473.2660438445527 26.219 0.18661 26.484 26.388 26.574 0.26489 0.07724 -6.1298E-05 NaN 24.021 22 15 2 NaN NaN NaN NaN 0 NaN NaN 0 304080 + 18103 14732 11552 11580 0.04338347832049294 LPTTRFHQDMW 11 Unmodified _LPTTRFHQDMW_ 0 0 0 REV__CON__Q3ZBD7 REV__CON__Q3ZBD7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 716.3455810546875 2 716.345529 1430.6765 NaN NaN NaN NaN NaN NaN NaN 64.742 1 64.99 64.49 65.49 0.24803 0 0 0 1.0071 1 29661 29661 1.4819 0 1 + + 18104 10096 11553 11581 20783 20783 -0.02160681531336195 LPTVRDWTL 9 Unmodified _LPTVRDWTL_ 0 0 0 nc|ENSG00000179456|Q99592|ZBTB18;ENSG00000179456|ENST00000358704|ZBTB18 nc|ENSG00000179456|Q99592|ZBTB18 nc|ENSG00000179456|Q99592|ZBTB18 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.7171630859375 2 550.808574 1099.60259 NaN NaN NaN NaN NaN NaN NaN 67.224 1 67.474 66.974 67.974 0.2501 0 0 0 0.43268 1 30795 30795 21.537 0.66577 1 18105 5218 11554 11582 20784 20784 0.05677718368656315 LPVAIKHV 8 Unmodified _LPVAIKHV_ 0 0 0 ENSG00000137193|ENST00000373509|PIM1;nc|ENSG00000137193|P11309-2|PIM1 ENSG00000137193|ENST00000373509|PIM1 ENSG00000137193|ENST00000373509|PIM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 438.78887939453125 2 438.786913 875.559273 NaN NaN NaN NaN NaN NaN NaN 72.151 1 72.855 72.355 73.355 0.70386 0 0 0 0.94507 1 34701 34701 9.3474 3.587 1 18106 3002 11555 11583 20785 20785 0.11651573382027891 LPVATDFEF 9 Unmodified _LPVATDFEF_ 0 0 0 nc|ENSG00000112584|Q96EK7-2|FAM120B;ENSG00000112584|ENST00000476287|FAM120B nc|ENSG00000112584|Q96EK7-2|FAM120B nc|ENSG00000112584|Q96EK7-2|FAM120B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1038.51416015625 1 1038.51424 1037.50696 3.6789 0.0038206 -0.80448 -0.00083546 2.8744 0.0029851 1038.51385822359 83.34 0.25229 84.002 83.869 84.121 0.66219 27 16 2 0 0 0 0.020718 2 38373 38373;38428 67.344 45.597 1 592520 18107 1813 11556 11584 20786;20787 20786 -0.010290545422321884 LPVATDFEF 9 Unmodified _LPVATDFEF_ 0 0 0 nc|ENSG00000112584|Q96EK7-2|FAM120B;ENSG00000112584|ENST00000476287|FAM120B nc|ENSG00000112584|Q96EK7-2|FAM120B nc|ENSG00000112584|Q96EK7-2|FAM120B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 519.7623291015625 2 519.760758 1037.50696 3.5132 0.001826 -1.058 -0.00054989 2.4553 0.0012761 519.7605723163184 83.321 0.30577 83.983 83.832 84.138 0.66167 33 19 2 0 0 0 0.035095 1 38381 38381 53.576 33.122 1 910970 18108 1813 11556 11584 20788 20788 -0.010290545422321884 LPVATDFEF 9 Unmodified _LPVATDFEF_ 0 0 0 nc|ENSG00000112584|Q96EK7-2|FAM120B;ENSG00000112584|ENST00000476287|FAM120B nc|ENSG00000112584|Q96EK7-2|FAM120B nc|ENSG00000112584|Q96EK7-2|FAM120B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 519.760758 1037.50696 3.3839 0.0017588 -1.01 -0.00052497 2.3739 0.0012339 519.7605776508293 83.85 0.36061 84.097 83.889 84.25 0.24722 0.057229 2.4768E-05 NaN 53.576 27 21 2 NaN NaN NaN NaN 0 NaN NaN 0 951780 18109 1813 11556 11584 -0.010290545422321884 LPVEDDIDL 9 Unmodified _LPVEDDIDL_ 0 0 0 nc|ENSG00000143870|Q15084-3|PDIA6;ENSG00000143870|ENST00000272227|PDIA6;nc|ENSG00000143870|Q15084-4|PDIA6;nc|ENSG00000143870|Q15084-5|PDIA6;nc|ENSG00000143870|Q15084-2|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.7618408203125 2 514.760955 1027.50736 2.5872 0.0013318 -1.617 -0.00083235 0.97027 0.00049946 514.7603865913247 70.252 0.13865 70.252 70.182 70.321 0 23 14 3 0 0 0 0.071101 1 34047 34047 39.957 9.3208 1 1998600 18110 3399 11557 11585 20789 20789 -0.005296796130551229 LPVEDDIDL 9 Unmodified _LPVEDDIDL_ 0 0 0 nc|ENSG00000143870|Q15084-3|PDIA6;ENSG00000143870|ENST00000272227|PDIA6;nc|ENSG00000143870|Q15084-4|PDIA6;nc|ENSG00000143870|Q15084-5|PDIA6;nc|ENSG00000143870|Q15084-2|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.7619018554688 2 514.760955 1027.50736 2.7087 0.0013943 0.019931 1.026E-05 2.7286 0.0014046 514.7610383797964 69.48 0.34168 70.183 70.031 70.373 0.70302 57 33 2 0 0 0 0.028312 2 33242 33242;33325 57.471 13.613 1 2730200 18111 3399 11557 11585 20790;20791 20790 -0.005296796130551229 LPVEDDIDL 9 Unmodified _LPVEDDIDL_ 0 0 0 nc|ENSG00000143870|Q15084-3|PDIA6;ENSG00000143870|ENST00000272227|PDIA6;nc|ENSG00000143870|Q15084-4|PDIA6;nc|ENSG00000143870|Q15084-5|PDIA6;nc|ENSG00000143870|Q15084-2|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.76220703125 2 514.760955 1027.50736 3.4508 0.0017764 -0.30444 -0.00015671 3.1464 0.0016196 514.7607316759708 69.933 0.39496 70.189 69.983 70.378 0.25642 62 25 3 0 0 0 0.012869 3 32010 31966;32010;32058 77.984 15.076 1 3047700 18112 3399 11557 11585 20792;20793;20794 20793 -0.005296796130551229 LPVEDDIDL 9 Unmodified _LPVEDDIDL_ 0 0 0 nc|ENSG00000143870|Q15084-3|PDIA6;ENSG00000143870|ENST00000272227|PDIA6;nc|ENSG00000143870|Q15084-4|PDIA6;nc|ENSG00000143870|Q15084-5|PDIA6;nc|ENSG00000143870|Q15084-2|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1028.517333984375 1 1028.51463 1027.50736 3.4218 0.0035194 -0.65363 -0.00067227 2.7682 0.0028471 1028.5149530883898 69.913 0.32872 70.17 70.022 70.351 0.25641 39 21 2 0 0 0 0.0080831 2 31985 31985;32030 85.357 14.223 1 1518500 18113 3399 11557 11585 20795;20796 20795 -0.005296796130551229 LPVEDDIDL 9 Unmodified _LPVEDDIDL_ 0 0 0 nc|ENSG00000143870|Q15084-3|PDIA6;ENSG00000143870|ENST00000272227|PDIA6;nc|ENSG00000143870|Q15084-4|PDIA6;nc|ENSG00000143870|Q15084-5|PDIA6;nc|ENSG00000143870|Q15084-2|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.7625732421875 2 514.760955 1027.50736 3.1327 0.0016126 -0.1825 -9.3946E-05 2.9502 0.0015186 514.7607727836828 69.4 0.38272 70.061 69.905 70.288 0.66071 66 27 3 0 0 0 0.012869 3 31833 31784;31833;31875 77.984 9.9036 1 2895100 18114 3399 11557 11585 20797;20798;20799 20798 -0.005296796130551229 LPVEDDIDL 9 Unmodified _LPVEDDIDL_ 0 0 0 nc|ENSG00000143870|Q15084-3|PDIA6;ENSG00000143870|ENST00000272227|PDIA6;nc|ENSG00000143870|Q15084-4|PDIA6;nc|ENSG00000143870|Q15084-5|PDIA6;nc|ENSG00000143870|Q15084-2|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 nc|ENSG00000143870|Q15084-3|PDIA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1028.5185546875 1 1028.51463 1027.50736 3.2891 0.0033829 -0.29869 -0.00030721 2.9905 0.0030757 1028.5148959277403 69.414 0.33481 70.075 69.924 70.259 0.66072 53 24 3 0 0 0 0.015468 2 31867 31806;31867 74.423 13.065 1 1854800 18115 3399 11557 11585 20800;20801 20801 -0.005296796130551229 LPVEEFNEL 9 Unmodified _LPVEEFNEL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.276611328125 2 545.276772 1088.53899 3.0096 0.0016411 0.76955 0.00041962 3.7792 0.0020607 545.2766568920358 73.014 0.25565 73.014 72.85 73.106 0 58 28 3 0 0 0 0.10837 1 35469 35469 30.637 3.7529 1 4776100 18116 931 11558 11586 20802 20802 -0.0017368685910241766 LPVEEFNEL 9 Unmodified _LPVEEFNEL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.2783203125 2 545.276772 1088.53899 2.6545 0.0014474 -0.42189 -0.00023005 2.2326 0.0012174 545.2768000468777 72.086 0.22334 72.79 72.662 72.885 0.70386 36 19 3 0 0 0 0.052704 1 34630 34630 46.021 15.384 1 4937600 18117 931 11558 11586 20803 20803 -0.0017368685910241766 LPVEEFNEL 9 Unmodified _LPVEEFNEL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.2781372070312 2 545.276772 1088.53899 3.2488 0.0017715 0.11819 6.4446E-05 3.367 0.0018359 545.2767531445154 72.59 0.36745 72.849 72.653 73.021 0.25876 81 29 3 0 0 0 0.0080831 3 33323 33277;33323;33377 85.357 16.8 1 3780800 18118 931 11558 11586 20804;20805;20806 20805 -0.0017368685910241766 LPVEEFNEL 9 Unmodified _LPVEEFNEL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1089.5494384765625 1 1089.54627 1088.53899 2.9085 0.0031689 0.29211 0.00031827 3.2006 0.0034872 1089.5466704107132 72.592 0.22394 72.85 72.717 72.941 0.25876 29 19 2 0 0 0 0.086415 1 33303 33303 36.127 8.4982 1 568030 18119 931 11558 11586 20807 20807 -0.0017368685910241766 LPVEEFNELL 10 Unmodified _LPVEEFNELL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 601.8203735351562 2 601.818804 1201.62306 4.0303 0.0024255 0.26501 0.00015949 4.2953 0.002585 601.8187777466459 89.464 0.23863 89.715 89.578 89.817 0.25118 21 11 2 0 0 0 0.048946 1 41126 41126 62.573 28.171 1 555450 18120 931 11559 11587 20808 20808 0.030308442378100153 LPVEGGKGGEF 11 Unmodified _LPVEGGKGGEF_ 0 0 0 ENSG00000112159|ENST00000369393|MDN1;MDN1|p.L3673Pfs*5|1|0.33|ENSG00000112159|chr6:89689875-89689876|-/G|frameshift_variant ENSG00000112159|ENST00000369393|MDN1 ENSG00000112159|ENST00000369393|MDN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.8585205078125 3 363.857351 1088.55022 2.7708 0.0010082 1.2467 0.00045361 4.0175 0.0014618 363.85775569683165 19.722 0.20408 19.722 19.644 19.848 0 33 16 3 0 0 0 0.61022 1 8823 8823 8.7518 0.30748 1 1260700 18121 1795 11560 11588 20809 20809 0.009491352350551097 LPVELSDKQ 9 Unmodified _LPVELSDKQ_ 0 0 0 ENSG00000188994|ENST00000369577|ZNF292;ZNF292|p.S1164Ffs*57|1|0.23|ENSG00000188994|chr6:87257118-87257119|-/T|frameshift_variant;ZNF292|p.E1663Dfs*7|1|0.08|ENSG00000188994|chr6:87258617-87258618|-/TGGC|frameshift_variant;ZNF292|p.E1663Wfs*12|1|0.12|ENSG00000188994|chr6:87258615-87258616|-/TG|frameshift_variant ENSG00000188994|ENST00000369577|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.7916259765625 2 514.784764 1027.55498 3.8651 0.0019897 -0.028144 -1.4488E-05 3.8369 0.0019752 514.7846258297799 31.738 0.59679 31.992 31.716 32.313 0.25452 143 44 4 0 0 0 0.89849 1 14324 14324 5.7319 5.7319 1 2670700 18122 5695 11561 11589 20810 20810 0.04230019377791905 LPVENRLYTYD 11 Unmodified _LPVENRLYTYD_ 0 0 0 ENSG00000113070|ENST00000230990|HBEGF ENSG00000113070|ENST00000230990|HBEGF ENSG00000113070|ENST00000230990|HBEGF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 691.8840942382812 2 691.851167 1381.68778 NaN NaN NaN NaN NaN NaN NaN 97.443 1 97.443 96.943 97.943 0 0 0 0 1.0044 1 53050 53050 4.897 0.36815 1 18123 1832 11562 11590 20811 20811 0.012204190438069418 LPVEQYPEL 9 Unmodified _LPVEQYPEL_ 0 0 0 ENSG00000145934|ENST00000518659|TENM2;nc|ENSG00000145934|Q9NT68-2|TENM2 ENSG00000145934|ENST00000518659|TENM2 ENSG00000145934|ENST00000518659|TENM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.2890014648438 2 544.28714 1086.55973 NaN NaN NaN NaN NaN NaN NaN 64.98 1 65.637 65.137 66.137 0.65672 0 0 0 0.55812 1 29790 29790 17.113 3.2068 1 18124 3497 11563 11591 20812 20812 0.019909035205728287 LPVGSSLSATP 11 Unmodified _LPVGSSLSATP_ 0 0 0 REV__ENST00000321367.7_1_16:30389472-30389706:-|nuORF REV__ENST00000321367.7_1_16:30389472-30389706:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.7864990234375 2 514.784764 1027.55498 3.3803 0.0017401 0.42473 0.00021864 3.8051 0.0019588 514.7848012809941 31.028 0.50744 31.817 31.624 32.132 0.78879 121 38 4 0 0 0 0.67822 1 14134 14134 12.241 2.1667 1 3565800 + 18125 15319 11564 11592 20813 20813 0.04230019377814642 LPVHGEQAL 9 Unmodified _LPVHGEQAL_ 0 0 0 ENST00000493544.1_1_2:242054361-242072488:-|nuORF;nc|ENSG00000115687|Q96RG2-4|PASK;ENSG00000115687|ENST00000234040|PASK;nc|ENSG00000115687|Q96RG2-2|PASK ENST00000493544.1_1_2:242054361-242072488:-|nuORF ENST00000493544.1_1_2:242054361-242072488:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.26806640625 2 482.266542 962.51853 3.145 0.0015167 0.38437 0.00018537 3.5293 0.0017021 482.2667052784908 31.52 0.1834 32.137 32.021 32.204 0.61736 18 12 2 0 0 0 0.36069 1 14453 14453 14.838 0.93222 1 193220 18126 1985 11565 11593 20814 20814 0.03577187271753246 LPVHVFEAL 9 Unmodified _LPVHVFEAL_ 0 0 0 ENSG00000100982|ENST00000372409|PCIF1 ENSG00000100982|ENST00000372409|PCIF1 ENSG00000100982|ENST00000372409|PCIF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.7958374023438 2 512.794935 1023.57532 3.2372 0.00166 -0.041877 -2.1474E-05 3.1953 0.0016386 512.7950514543664 68.363 0.27876 69.022 68.9 69.179 0.65924 35 16 3 0 0 0 0.11001 1 31334 31334 30.225 14.378 1 863740 18127 1253 11566 11594 20815 20815 0.06447234828260662 LPVHVFEAL 9 Unmodified _LPVHVFEAL_ 0 0 0 ENSG00000100982|ENST00000372409|PCIF1 ENSG00000100982|ENST00000372409|PCIF1 ENSG00000100982|ENST00000372409|PCIF1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 512.794935 1023.57532 2.6227 0.0013449 3.1474 0.001614 5.7701 0.0029589 512.7971601893528 68.377 0.094673 69.08 69.031 69.126 0.70218 -0.036436 0.0031194 NaN 30.225 11 8 2 NaN NaN NaN NaN 0 NaN NaN 0 806650 18128 1253 11566 11594 0.06447234828260662 LPVHVFEAL 9 Unmodified _LPVHVFEAL_ 0 0 0 ENSG00000100982|ENST00000372409|PCIF1 ENSG00000100982|ENST00000372409|PCIF1 ENSG00000100982|ENST00000372409|PCIF1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 512.794935 1023.57532 3.6553 0.0018744 0.048294 2.4765E-05 3.7036 0.0018992 512.7946994103283 68.992 0.30136 69.247 69.08 69.381 0.25443 0.13066 -5.903E-05 NaN 30.225 40 19 3 NaN NaN NaN NaN 0 NaN NaN 0 758590 18129 1253 11566 11594 0.06447234828260662 LPVKHIRKQEE 11 Unmodified _LPVKHIRKQEE_ 0 0 0 REV__ENSG00000135355|ENST00000369352|GJA10 REV__ENSG00000135355|ENST00000369352|GJA10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 688.9042358398438 2 688.904068 1375.79358 NaN NaN NaN NaN NaN NaN NaN 85.889 1 86.137 85.637 86.637 0.24857 0 0 0 1.0044 1 39529 39529 4.897 1.6157 1 + 18130 12011 11567 11595 20816 20816 0.12071799679938522 LPVKLLPLLL 10 Unmodified _LPVKLLPLLL_ 0 0 0 REV__nc|ENSG00000284690|A0A0K2S4Q6|CD300H REV__nc|ENSG00000284690|A0A0K2S4Q6|CD300H MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 373.60272216796875 3 373.601894 1117.78385 NaN NaN NaN NaN NaN NaN NaN 66.341 1 67.045 66.545 67.545 0.7047 0 0 0 1.0018 1 31443 31443 0.15932 0.15932 1 + 18131 18163 11568 11596 20817 20817 0.22967263412533612 LPVKLLPLLL 10 Unmodified _LPVKLLPLLL_ 0 0 0 REV__nc|ENSG00000284690|A0A0K2S4Q6|CD300H REV__nc|ENSG00000284690|A0A0K2S4Q6|CD300H MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 373.6028747558594 3 373.601894 1117.78385 NaN NaN NaN NaN NaN NaN NaN 65.922 1 66.578 66.078 67.078 0.65672 0 0 0 1.0018 1 30224 30224 0.15932 0.15932 1 + 18132 18163 11568 11596 20818 20818 0.22967263412533612 LPVLKRKRPV 10 Unmodified _LPVLKRKRPV_ 0 0 0 REV__ENSG00000119707|ENST00000261973|RBM25 REV__ENSG00000119707|ENST00000261973|RBM25 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 603.4115600585938 2 603.413875 1204.8132 NaN NaN NaN NaN NaN NaN NaN 71.952 1 72.656 72.156 73.156 0.70386 0 0 0 0.99687 1 34595 34595 4.3292 0.73274 1 + 18133 11512 11569 11597 20819 20819 0.218982204813301 LPVNDEHVTV 10 Unmodified _LPVNDEHVTV_ 0 0 0 ENSG00000145386|ENST00000274026|CCNA2 ENSG00000145386|ENST00000274026|CCNA2 ENSG00000145386|ENST00000274026|CCNA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.795166015625 2 561.793121 1121.57169 3.4728 0.001951 0.12929 7.2634E-05 3.6021 0.0020236 561.7931849484627 40.103 0.18602 40.103 40.013 40.199 0 12 6 2 0 0 0 0.59951 1 18241 18241 17.443 5.202 1 349880 18134 3463 11570 11598 20820 20820 0.0157652026375672 LPVNDEHVTV 10 Unmodified _LPVNDEHVTV_ 0 0 0 ENSG00000145386|ENST00000274026|CCNA2 ENSG00000145386|ENST00000274026|CCNA2 ENSG00000145386|ENST00000274026|CCNA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.7955322265625 2 561.793121 1121.57169 3.3623 0.0018889 -0.03596 -2.0202E-05 3.3264 0.0018687 561.793330930442 39.143 0.23806 39.941 39.818 40.056 0.79762 16 11 2 0 0 0 0.26151 1 17723 17723 32.037 15.888 1 248900 18135 3463 11570 11598 20821 20821 0.0157652026375672 LPVNDEHVTV 10 Unmodified _LPVNDEHVTV_ 0 0 0 ENSG00000145386|ENST00000274026|CCNA2 ENSG00000145386|ENST00000274026|CCNA2 ENSG00000145386|ENST00000274026|CCNA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.794921875 2 561.793121 1121.57169 3.6307 0.0020397 -0.51845 -0.00029126 3.1122 0.0017484 561.7923381048022 39.91 0.26609 40.177 39.962 40.228 0.26696 12 8 2 0 0 0 0.3681 1 18126 18126 26.021 9.8716 1 329260 18136 3463 11570 11598 20822 20822 0.0157652026375672 LPVQPENAL 9 Unmodified _LPVQPENAL_ 0 0 0 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1;nc|ENSG00000143337|Q5JTV8-4|TOR1AIP1;ENSG00000143337|ENST00000606911|TOR1AIP1;nc|ENSG00000143337|Q5JTV8-3|TOR1AIP1 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.77581787109375 2 490.7742 979.533846 3.3609 0.0016494 -0.17884 -8.7771E-05 3.1821 0.0015617 490.77411942193123 54.641 0.15793 54.641 54.52 54.678 0 21 16 2 0 0 0 0.015098 1 25086 25086 74.929 31.071 1 738790 18137 3359 11571 11599 20823 20823 0.04326054068940266 LPVQPENAL 9 Unmodified _LPVQPENAL_ 0 0 0 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1;nc|ENSG00000143337|Q5JTV8-4|TOR1AIP1;ENSG00000143337|ENST00000606911|TOR1AIP1;nc|ENSG00000143337|Q5JTV8-3|TOR1AIP1 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 490.77581787109375 2 490.7742 979.533846 2.9828 0.0014639 -0.14435 -7.0842E-05 2.8385 0.001393 490.7742415597569 54.378 0.40535 54.643 54.413 54.818 0.26462 47 19 3 0 0 0 0.0028306 3 24814 24814;24863;24906 96.285 31.05 1 1707000 18138 3359 11571 11599 20824;20825;20826 20824 0.04326054068940266 LPVQPENAL 9 Unmodified _LPVQPENAL_ 0 0 0 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1;nc|ENSG00000143337|Q5JTV8-4|TOR1AIP1;ENSG00000143337|ENST00000606911|TOR1AIP1;nc|ENSG00000143337|Q5JTV8-3|TOR1AIP1 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.77587890625 2 490.7742 979.533846 3.0479 0.0014958 -0.36555 -0.0001794 2.6824 0.0013164 490.77414628835584 53.745 0.25026 54.41 54.265 54.516 0.6644 33 13 3 0 0 0 0.0016284 2 24602 24550;24602 108 42.762 1 1819200 18139 3359 11571 11599 20827;20828 20828 0.04326054068940266 LPVQPENAL 9 Unmodified _LPVQPENAL_ 0 0 0 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1;nc|ENSG00000143337|Q5JTV8-4|TOR1AIP1;ENSG00000143337|ENST00000606911|TOR1AIP1;nc|ENSG00000143337|Q5JTV8-3|TOR1AIP1 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 980.542724609375 1 980.541123 979.533846 3.5796 0.0035099 -1.0784 -0.0010574 2.5012 0.0024525 980.5415796306676 53.783 0.17161 54.448 54.319 54.491 0.6644 12 8 2 0 0 0 0.048676 1 24560 24560 47.749 3.8904 1 492060 18140 3359 11571 11599 20829 20829 0.04326054068940266 LPVQPEVAL 9 Unmodified _LPVQPEVAL_ 0 0 0 nc|ENSG00000167978|Q9UQ35-2|SRRM2;ENSG00000167978|ENST00000301740|SRRM2;ENST00000573311.1_1_16:2818098-2819286:+|nuORF;ENST00000574593.1_1_16:2817540-2819884:+|nuORF nc|ENSG00000167978|Q9UQ35-2|SRRM2 nc|ENSG00000167978|Q9UQ35-2|SRRM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.28814697265625 2 483.286943 964.559333 3.3544 0.0016211 -0.49041 -0.00023701 2.864 0.0013841 483.2865328587825 68.26 0.30264 68.512 68.34 68.643 0.25227 39 18 3 0 0 0 0.086415 2 31286 31234;31286 36.127 5.4905 1 930040 18141 4589 11572 11600 20830;20831 20831 0.07563528591379054 LPVQPEVAL 9 Unmodified _LPVQPEVAL_ 0 0 0 nc|ENSG00000167978|Q9UQ35-2|SRRM2;ENSG00000167978|ENST00000301740|SRRM2;ENST00000573311.1_1_16:2818098-2819286:+|nuORF;ENST00000574593.1_1_16:2817540-2819884:+|nuORF nc|ENSG00000167978|Q9UQ35-2|SRRM2 nc|ENSG00000167978|Q9UQ35-2|SRRM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.28857421875 2 483.286943 964.559333 3.1035 0.0014999 -0.083487 -4.0348E-05 3.02 0.0014595 483.2866910186578 67.741 0.32285 68.399 68.246 68.569 0.65777 29 18 2 0 0 0 0.11458 1 31025 31025 29.082 7.5446 1 625380 18142 4589 11572 11600 20832 20832 0.07563528591379054 LPVRLLKRPV 10 Unmodified _LPVRLLKRPV_ 0 0 0 REV__ENST00000565162.2_1_22:19159276-19159567:+|nuORF REV__ENST00000565162.2_1_22:19159276-19159567:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 595.9087524414062 2 595.908425 1189.8023 NaN NaN NaN NaN NaN NaN NaN 55.653 1 56.321 55.821 56.821 0.66798 0 0 0 1.0015 1 25459 25459 0.45834 0 1 + 18143 17412 11573 11601 20833 20833 0.21498818107079387 LPVTRTLI 8 Unmodified _LPVTRTLI_ 0 0 0 ENSG00000177938|ENST00000317658|CAPZA3 ENSG00000177938|ENST00000317658|CAPZA3 ENSG00000177938|ENST00000317658|CAPZA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.7995300292969 2 456.797478 911.580402 2.706 0.0012361 0.61389 0.00028042 3.3198 0.0015165 456.7978371927698 15.831 0.69025 16.042 15.632 16.323 0.21108 174 105 2 0 0 0 0.7471 1 6868 6868 1.8442 0 1 82362 18144 5141 11574 11602 20834 20834 0.1210753869090695 LPVTRTLI 8 Unmodified _LPVTRTLI_ 0 0 0 ENSG00000177938|ENST00000317658|CAPZA3 ENSG00000177938|ENST00000317658|CAPZA3 ENSG00000177938|ENST00000317658|CAPZA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.799560546875 2 456.797478 911.580402 3.0391 0.0013883 0.92502 0.00042255 3.9642 0.0018108 456.79771754730496 14.431 0.13664 15.079 15.02 15.156 0.64819 16 11 2 0 0 0 0.23923 1 6509 6509 39.957 0 1 737500 18145 5141 11574 11602 20835 20835 0.1210753869090695 LPVVDFNEM 9 Oxidation (M) _LPVVDFNEM(Oxidation (M))_ LPVVDFNEM(1) LPVVDFNEM(64) 0 0 1 nc|ENSG00000116044|Q16236-3|NFE2L2;nc|ENSG00000116044|Q16236-2|NFE2L2;ENSG00000116044|ENST00000397062|NFE2L2 nc|ENSG00000116044|Q16236-3|NFE2L2 nc|ENSG00000116044|Q16236-3|NFE2L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.2591552734375 2 540.257525 1078.5005 3.0677 0.0016573 0.155 8.3738E-05 3.2227 0.0017411 540.2576668998815 64.08 0.25313 64.328 64.194 64.447 0.24803 35 15 3 0 0 0 0.023109 2 29320 29320;29383 64.236 43.783 1 722410 18146 2010 11575 11603 20836;20837 20836 19 -0.03561315765273321 LPVVDFNEM 9 Oxidation (M) _LPVVDFNEM(Oxidation (M))_ LPVVDFNEM(1) LPVVDFNEM(55) 0 0 1 nc|ENSG00000116044|Q16236-3|NFE2L2;nc|ENSG00000116044|Q16236-2|NFE2L2;ENSG00000116044|ENST00000397062|NFE2L2 nc|ENSG00000116044|Q16236-3|NFE2L2 nc|ENSG00000116044|Q16236-3|NFE2L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.2595825195312 2 540.257525 1078.5005 3.3271 0.0017975 -0.011835 -6.3939E-06 3.3153 0.0017911 540.2577780872076 63.552 0.2626 64.211 64.058 64.32 0.65808 34 17 3 0 0 0 0.032303 1 29126 29126 54.774 36.639 1 764220 18147 2010 11575 11603 20838 20838 19 -0.03561315765273321 LPVVDFNEM 9 Unmodified _LPVVDFNEM_ 0 0 0 nc|ENSG00000116044|Q16236-3|NFE2L2;nc|ENSG00000116044|Q16236-2|NFE2L2;ENSG00000116044|ENST00000397062|NFE2L2 nc|ENSG00000116044|Q16236-3|NFE2L2 nc|ENSG00000116044|Q16236-3|NFE2L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 532.261474609375 2 532.260068 1062.50558 2.956 0.0015734 0.20355 0.00010834 3.1596 0.0016817 532.260237354123 78.121 0.36125 78.374 78.228 78.589 0.25335 49 20 3 0 0 0 0.0080831 3 35992 35945;35992;36046 85.357 39.657 1 1909800 18148 2010 11575 11604 20839;20840;20841 20840 -0.023170119026417524 LPVVDFNEM 9 Unmodified _LPVVDFNEM_ 0 0 0 nc|ENSG00000116044|Q16236-3|NFE2L2;nc|ENSG00000116044|Q16236-2|NFE2L2;ENSG00000116044|ENST00000397062|NFE2L2 nc|ENSG00000116044|Q16236-3|NFE2L2 nc|ENSG00000116044|Q16236-3|NFE2L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1063.514892578125 1 1063.51286 1062.50558 3.1225 0.0033208 2.1145 0.0022488 5.237 0.0055696 1063.5139327904756 78.152 0.20757 78.405 78.277 78.485 0.25335 15 12 2 0 0 0 0.27976 1 36007 36007 18.135 1.1927 1 420980 18149 2010 11575 11604 20842 20842 -0.023170119026417524 LPVVDFNEM 9 Unmodified _LPVVDFNEM_ 0 0 0 nc|ENSG00000116044|Q16236-3|NFE2L2;nc|ENSG00000116044|Q16236-2|NFE2L2;ENSG00000116044|ENST00000397062|NFE2L2 nc|ENSG00000116044|Q16236-3|NFE2L2 nc|ENSG00000116044|Q16236-3|NFE2L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.26171875 2 532.260068 1062.50558 3.0957 0.0016477 0.30923 0.00016459 3.4049 0.0018123 532.2601872665662 77.705 0.30385 78.368 78.215 78.519 0.66303 46 18 3 0 0 0 0.015468 2 35837 35792;35837 74.423 43.154 1 1789900 18150 2010 11575 11604 20843;20844 20844 -0.023170119026417524 LPVYWKQLRLK 11 Unmodified _LPVYWKQLRLK_ 0 0 0 REV__nc|ENSG00000182287|P56377|AP1S2 REV__nc|ENSG00000182287|P56377|AP1S2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 722.4452514648438 2 722.445372 1442.87619 NaN NaN NaN NaN NaN NaN NaN 80.475 1 81.135 80.635 81.635 0.65998 0 0 0 1.008 1 37083 37083 0.35063 0 1 + 18151 13886 11576 11605 20845 20845 0.17246741478743388 LPWCFSLL 8 Unmodified _LPWCFSLL_ 0 0 0 ENST00000289805.9_1_16:89763547-89763736:-|nuORF ENST00000289805.9_1_16:89763547-89763736:-|nuORF ENST00000289805.9_1_16:89763547-89763736:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.7612609863281 2 489.759507 977.50446 2.5804 0.0012638 0.12446 6.0957E-05 2.7048 0.0013247 489.7594608511545 77.031 0.28812 77.031 76.865 77.153 0 28 19 2 0 0 0 0.45037 1 37774 37774 24.674 5.2349 1 1215200 18152 6732 11577 11606 20846 20846 0.014808185191100165 LPWCILLRL 9 Unmodified _LPWCILLRL_ 0 0 0 ENST00000416144.5_1_7:99160096-99161679:+|nuORF;ENST00000422422.5_1_7:99158252-99161679:+|nuORF ENST00000416144.5_1_7:99160096-99161679:+|nuORF ENST00000416144.5_1_7:99160096-99161679:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.2449951171875 3 376.231695 1125.67326 2.5908 0.00097473 -0.14852 -5.5877E-05 2.4423 0.00091886 376.2319034728314 26.051 0.24602 26.676 26.571 26.817 0.62505 26 17 2 0 0 0 0.94779 1 11982 11982 4.897 0.36815 1 258330 18153 7710 11578 11607 20847 20847 0.11544720152642185 LPWWGSILL 9 Unmodified _LPWWGSILL_ 0 0 0 nc|ENSG00000163626|Q8N8Q8-2|COX18;nc|ENSG00000163626|Q8N8Q8-3|COX18;ENST00000421792.2_1_4:73934271-73935366:-|nuORF;nc|ENSG00000163626|Q8N8Q8-4|COX18;nc|ENSG00000163626|Q8N8Q8|COX18;ENSG00000163626|ENST00000507544|COX18 nc|ENSG00000163626|Q8N8Q8-2|COX18 nc|ENSG00000163626|Q8N8Q8-2|COX18 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.8119506835938 2 542.813128 1083.6117 NaN NaN NaN NaN NaN NaN NaN 67.279 1 67.529 67.029 68.029 0.2501 0 0 0 0.30236 1 30820 30820 26.884 3.0939 1 18154 4232 11579 11608 20848 20848 0.07324111725006333 LPYADYWYDIL 11 Unmodified _LPYADYWYDIL_ 0 0 0 ENSG00000142235|ENST00000600059|LMTK3 ENSG00000142235|ENST00000600059|LMTK3 ENSG00000142235|ENST00000600059|LMTK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 716.345703125 2 716.345186 1430.67582 NaN NaN NaN NaN NaN NaN NaN 66.189 1 66.893 66.393 67.393 0.7047 0 0 0 1.0057 1 31360 31360 3.2813 1.7994 1 18155 3304 11580 11609 20849 20849 -0.02229197699375618 LPYGREDVL 9 Unmodified _LPYGREDVL_ 0 0 0 ENSG00000163131|ENST00000368985|CTSS;nc|ENSG00000163131|P25774-2|CTSS ENSG00000163131|ENST00000368985|CTSS ENSG00000163131|ENST00000368985|CTSS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.2875366210938 2 531.284931 1060.55531 2.9109 0.0015465 0.6482 0.00034438 3.5591 0.0018909 531.2854245692222 46.931 0.2638 46.931 46.738 47.002 0 17 9 2 0 0 0 0.15661 1 21459 21459 26.268 5.8145 1 785390 18156 4196 11581 11610 20850 20850 0.02745439097657254 LPYGREDVL 9 Unmodified _LPYGREDVL_ 0 0 0 ENSG00000163131|ENST00000368985|CTSS;nc|ENSG00000163131|P25774-2|CTSS ENSG00000163131|ENST00000368985|CTSS ENSG00000163131|ENST00000368985|CTSS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.2868041992188 2 531.284931 1060.55531 3.3365 0.0017726 0.11015 5.8523E-05 3.4467 0.0018312 531.2849782073608 46.75 0.47593 47.016 46.838 47.314 0.26561 40 15 3 0 0 0 0.025135 3 21397 21344;21397;21452 61.602 21.645 1 15258000 18157 4196 11581 11610 20851;20852;20853 20852 0.02745439097657254 LPYGREDVL 9 Unmodified _LPYGREDVL_ 0 0 0 ENSG00000163131|ENST00000368985|CTSS;nc|ENSG00000163131|P25774-2|CTSS ENSG00000163131|ENST00000368985|CTSS ENSG00000163131|ENST00000368985|CTSS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.28662109375 2 531.284931 1060.55531 3.5258 0.0018732 0.13428 7.1342E-05 3.6601 0.0019445 531.2849792500213 46.233 0.56607 46.885 46.601 47.167 0.65184 56 21 3 0 0 0 0.023321 3 21192 21136;21192;21249 63.961 24.003 1 12980000 18158 4196 11581 11610 20854;20855;20856 20855 0.02745439097657254 LPYGREDVL 9 Unmodified _LPYGREDVL_ 0 0 0 ENSG00000163131|ENST00000368985|CTSS;nc|ENSG00000163131|P25774-2|CTSS ENSG00000163131|ENST00000368985|CTSS ENSG00000163131|ENST00000368985|CTSS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 531.284931 1060.55531 3.0564 0.0016238 0.31514 0.00016743 3.3715 0.0017912 531.2853692154318 45.883 0.22872 46.709 46.674 46.903 0.82621 -0.17598 0.00013148 NaN 63.961 15 11 2 NaN NaN NaN NaN 0 NaN NaN 0 1164600 18159 4196 11581 11610 0.02745439097657254 LPYHGDTLSM 10 Unmodified _LPYHGDTLSM_ 0 0 0 nc|ENSG00000106366|P05121-2|SERPINE1;ENSG00000106366|ENST00000223095|SERPINE1 nc|ENSG00000106366|P05121-2|SERPINE1 nc|ENSG00000106366|P05121-2|SERPINE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.270263671875 2 567.268424 1132.5223 3.7053 0.0021019 -0.43824 -0.0002486 3.2671 0.0018533 567.2678350551129 46.549 0.27943 46.815 46.62 46.899 0.26561 17 9 3 0 0 0 0.0069609 1 21271 21271 92.822 18.399 1 848190 18160 1566 11582 11611 20857 20857 -0.038665110166903105 LPYHGDTLSM 10 Unmodified _LPYHGDTLSM_ 0 0 0 nc|ENSG00000106366|P05121-2|SERPINE1;ENSG00000106366|ENST00000223095|SERPINE1 nc|ENSG00000106366|P05121-2|SERPINE1 nc|ENSG00000106366|P05121-2|SERPINE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.2692260742188 2 567.268424 1132.5223 3.9018 0.0022134 -0.052005 -2.9501E-05 3.8498 0.0021839 567.2684477953246 45.948 0.41021 46.599 46.36 46.77 0.65104 24 12 3 0 0 0 0.018908 1 21050 21050 81.613 7.1903 1 651660 18161 1566 11582 11611 20858 20858 -0.038665110166903105 LPYHGESISM 10 Unmodified _LPYHGESISM_ 0 0 0 ENSG00000135919|ENST00000409304|SERPINE2;nc|ENSG00000135919|P07093|SERPINE2;nc|ENSG00000135919|P07093-3|SERPINE2;ENST00000478966.1_1_2:224840586-224849719:-|nuORF ENSG00000135919|ENST00000409304|SERPINE2 ENSG00000135919|ENST00000409304|SERPINE2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.2711791992188 2 567.268424 1132.5223 3.3435 0.0018967 0.60622 0.00034389 3.9497 0.0022406 567.2687736883473 44.323 0.14987 44.323 44.253 44.403 0 17 11 2 0 0 0 0.018908 1 20251 20251 81.613 17.377 1 1564900 18162 2911 11583 11612 20859 20859 -0.038665110166903105 LPYHGESISM 10 Unmodified _LPYHGESISM_ 0 0 0 ENSG00000135919|ENST00000409304|SERPINE2;nc|ENSG00000135919|P07093|SERPINE2;nc|ENSG00000135919|P07093-3|SERPINE2;ENST00000478966.1_1_2:224840586-224849719:-|nuORF ENSG00000135919|ENST00000409304|SERPINE2 ENSG00000135919|ENST00000409304|SERPINE2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.2702026367188 2 567.268424 1132.5223 3.7268 0.0021141 0.18304 0.00010383 3.9099 0.002218 567.268499354361 43.697 0.11606 44.346 44.281 44.397 0.64872 13 6 3 0 0 0 0.020048 1 20048 20048 71.134 6.8973 1 1062500 18163 2911 11583 11612 20860 20860 -0.038665110166903105 LPYHGESISM 10 Unmodified _LPYHGESISM_ 0 0 0 ENSG00000135919|ENST00000409304|SERPINE2;nc|ENSG00000135919|P07093|SERPINE2;nc|ENSG00000135919|P07093-3|SERPINE2;ENST00000478966.1_1_2:224840586-224849719:-|nuORF ENSG00000135919|ENST00000409304|SERPINE2 ENSG00000135919|ENST00000409304|SERPINE2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 567.268424 1132.5223 3.3725 0.0019131 -0.50659 -0.00028737 2.8659 0.0016257 567.2679278140288 43.26 0.078709 44.075 44.064 44.142 0.81444 -0.17321 -0.00084726 NaN 81.613 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 1747200 18164 2911 11583 11612 -0.038665110166903105 LPYIKQEV 8 Unmodified _LPYIKQEV_ 0 0 0 ENSG00000047315|ENST00000314595|POLR2B ENSG00000047315|ENST00000314595|POLR2B ENSG00000047315|ENST00000314595|POLR2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.28802490234375 2 495.286943 988.559333 3.047 0.0015091 0.080973 4.0105E-05 3.1279 0.0015492 495.28694095846765 44.055 0.29408 44.324 44.074 44.368 0.2694 49 30 3 0 0 0 0.0069601 3 20093 20048;20093;20145 144.35 62.737 1 3298400 18165 555 11584 11613 20861;20862;20863 20862 0.0645952859136969 LPYIKQEV 8 Unmodified _LPYIKQEV_ 0 0 0 ENSG00000047315|ENST00000314595|POLR2B ENSG00000047315|ENST00000314595|POLR2B ENSG00000047315|ENST00000314595|POLR2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.2889099121094 2 495.286943 988.559333 3.3456 0.001657 0.33822 0.00016752 3.6838 0.0018245 495.28713488986637 43.562 0.62116 44.211 43.776 44.397 0.64872 49 37 2 0 0 0 0.0069601 4 19931 19817;19883;19931;19997 131.27 51.456 1 2158700 18166 555 11584 11613 20864;20865;20866;20867 20866 0.0645952859136969 LPYIKQEV 8 Unmodified _LPYIKQEV_ 0 0 0 ENSG00000047315|ENST00000314595|POLR2B ENSG00000047315|ENST00000314595|POLR2B ENSG00000047315|ENST00000314595|POLR2B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 495.286943 988.559333 2.9936 0.0014827 -0.41687 -0.00020647 2.5767 0.0012762 495.28692150853436 44.306 0.13654 44.306 44.266 44.403 0 0.025348 -0.00057242 NaN 144.35 11 9 2 NaN NaN NaN NaN 0 NaN NaN 0 1163600 18167 555 11584 11613 0.0645952859136969 LPYNWHAQYFQ 11 Unmodified _LPYNWHAQYFQ_ 0 0 0 REV__ENST00000310653.10_2_11:73388346-73388475:-|nuORF REV__ENST00000310653.10_2_11:73388346-73388475:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 733.9541015625 2 733.846219 1465.67788 NaN NaN NaN NaN NaN NaN NaN 79.415 1 80.075 79.575 80.575 0.66082 0 0 0 1.008 1 36592 36592 0.35063 0 1 + 18168 15262 11585 11614 20868 20868 -0.03632724170915935 LPYPLTSSR 9 Unmodified _LPYPLTSSR_ 0 0 0 ENST00000514900.5_1_3:129137104-129137362:-|nuORF ENST00000514900.5_1_3:129137104-129137362:-|nuORF ENST00000514900.5_1_3:129137104-129137362:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.2866821289062 2 517.287474 1032.5604 NaN NaN NaN NaN NaN NaN NaN 56.478 1 56.744 56.244 57.244 0.26543 0 0 0 0.89509 1 25839 25839 4.756 1.1595 1 18169 8587 11586 11615 20869 20869 0.04541742960282136 LPYQRRYRER 10 Unmodified _LPYQRRYRER_ 0 0 0 nc|ENSG00000179335|P49761-3|CLK3;ENSG00000179335|ENST00000395066|CLK3;nc|ENSG00000179335|P49761-2|CLK3;ENST00000454830.6_1_15:74908152-74912599:+|nuORF nc|ENSG00000179335|P49761-3|CLK3 nc|ENSG00000179335|P49761-3|CLK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 718.5883178710938 2 718.897109 1435.77966 NaN NaN NaN NaN NaN NaN NaN 70.494 1 70.494 69.994 70.994 0 0 0 0 0.99983 1 34214 34214 1.8442 0.36234 1 18170 5211 11587 11616 20870 20870 0.07920566971483822 LPYVGKELNM 10 Unmodified _LPYVGKELNM_ 0 0 0 ENSG00000124570|ENST00000380539|SERPINB6 ENSG00000124570|ENST00000380539|SERPINB6 ENSG00000124570|ENST00000380539|SERPINB6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.3120727539062 2 582.310092 1162.60563 3.3766 0.0019662 0.86195 0.00050192 4.2386 0.0024682 582.310432578896 57.579 0.41594 57.843 57.799 58.215 0.26444 42 24 2 0 0 0 0.26151 2 26484 26427;26484 32.037 18.131 1 339690 18171 2365 11588 11617 20871;20872 20872 0.03083225431169012 LPYVGKELNM 10 Unmodified _LPYVGKELNM_ 0 0 0 ENSG00000124570|ENST00000380539|SERPINB6 ENSG00000124570|ENST00000380539|SERPINB6 ENSG00000124570|ENST00000380539|SERPINB6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 582.310092 1162.60563 3.6566 0.0021293 1.0448 0.00060838 4.7013 0.0027376 582.3103991193179 57.196 0.20543 57.865 57.704 57.91 0.66829 0.010628 0.00016313 NaN 32.037 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 505140 18172 2365 11588 11617 0.03083225431169012 LPYYLNDY 8 Unmodified _LPYYLNDY_ 0 0 0 ENSG00000169989|ENST00000304337|TIGD4 ENSG00000169989|ENST00000304337|TIGD4 ENSG00000169989|ENST00000304337|TIGD4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.7548828125 2 530.752933 1059.49131 3.1653 0.00168 -0.20626 -0.00010947 2.959 0.0015705 530.7529188316873 27.433 1.0104 28.055 27.665 28.676 0.62178 172 66 4 0 0 0 0.7471 1 12825 12825 1.8442 0 1 3163400 18173 4725 11589 11618 20873 20873 -0.036053410593012813 LQAGKILLYYK 11 Unmodified _LQAGKILLYYK_ 0 0 0 ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENST00000523989.1_1_8:43052051-43052222:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.2684326171875 3 437.267463 1308.78056 2.9259 0.0012794 -0.26342 -0.00011518 2.6625 0.0011642 437.2672522888458 48.365 0.50598 48.365 48.111 48.617 0 71 30 3 0 0 0 0.89988 1 22201 22201 2.4348 1.325 1 1774200 18174 8625 11590 11619 20874 20874 0.13851968567837503 LQAGKILLYYK 11 Unmodified _LQAGKILLYYK_ 0 0 0 ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENST00000523989.1_1_8:43052051-43052222:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.60357666015625 3 437.267463 1308.78056 2.9346 0.0012832 0.63228 0.00027647 3.5669 0.0015597 437.26725331312014 48.867 0.43531 48.867 48.6 49.036 0 61 23 3 0 0 0 0.89988 1 22367 22367 2.4348 0.18206 1 1668500 18175 8625 11590 11619 20875 20875 0.13851968567837503 LQAGKILLYYK 11 Unmodified _LQAGKILLYYK_ 0 0 0 ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENST00000523989.1_1_8:43052051-43052222:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.268798828125 3 437.267463 1308.78056 2.8836 0.0012609 0.96682 0.00042276 3.8505 0.0016837 437.26774739425275 49.355 1.0501 49.355 49.022 50.072 0 163 49 4 0 0 0 0.85532 3 22651 22651;22701;22746 4.4062 1.9714 1 8602100 18176 8625 11590 11619 20876;20877;20878 20876 0.13851968567837503 LQAGKILLYYK 11 Unmodified _LQAGKILLYYK_ 0 0 0 ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENST00000523989.1_1_8:43052051-43052222:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.2691650390625 3 437.267463 1308.78056 2.9505 0.0012902 1.1872 0.00051914 4.1378 0.0018093 437.60226328809813 51.807 0.78082 51.807 51.266 52.047 0 107 50 3 0 0 0 0.84832 1 23706 23706 4.7159 2.632 1 3239400 18177 8625 11590 11619 20879 20879 0.13851968567837503 LQAGKILLYYK 11 Unmodified _LQAGKILLYYK_ 0 0 0 ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENST00000523989.1_1_8:43052051-43052222:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.4541931152344 4 328.202416 1308.78056 2.2324 0.00073266 1.0735 0.00035232 3.3058 0.001085 328.20260826831463 47.806 0.41728 48.635 48.39 48.807 0.82915 67 18 4 0 0 0 0.89988 1 21746 21746 2.4348 0.69251 1 3367600 18178 8625 11590 11619 20880 20880 0.13851968567837503 LQAGKILLYYK 11 Unmodified _LQAGKILLYYK_ 0 0 0 ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENST00000523989.1_1_8:43052051-43052222:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.26898193359375 3 437.267463 1308.78056 2.7892 0.0012196 0.82038 0.00035873 3.6096 0.0015783 437.26768950357035 48.562 1.1142 49.389 48.805 49.919 0.82705 118 58 3 0 0 0 0.85532 1 22094 22094 4.4062 1.9714 1 3177500 18179 8625 11590 11619 20881 20881 0.13851968567837503 LQAGKILLYYK 11 Unmodified _LQAGKILLYYK_ 0 0 0 ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENST00000523989.1_1_8:43052051-43052222:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.2688293457031 3 437.267463 1308.78056 2.8283 0.0012367 0.76491 0.00033447 3.5932 0.0015712 437.26768406317467 48.763 0.49987 49.59 49.505 50.005 0.82705 51 27 2 0 0 0 0.91104 1 22237 22237 1.2148 0.4383 1 1977200 18180 8625 11590 11619 20882 20882 0.13851968567837503 LQAGKILLYYK 11 Unmodified _LQAGKILLYYK_ 0 0 0 ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENST00000523989.1_1_8:43052051-43052222:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.4010620117188 2 655.397556 1308.78056 3.971 0.0026026 1.3283 0.00087055 5.2992 0.0034731 655.3982112379214 47.977 0.47301 48.239 47.984 48.457 0.26209 27 19 2 0 0 0 0.85532 2 21972 21907;21972 2.7352 0.23671 1 459690 18181 8625 11590 11619 20883;20884 20884 0.13851968567837503 LQAGKILLYYK 11 Unmodified _LQAGKILLYYK_ 0 0 0 ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENST00000523989.1_1_8:43052051-43052222:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2685852050781 3 437.267463 1308.78056 3.049 0.0013333 -0.062165 -2.7183E-05 2.9869 0.0013061 437.2671652819365 48.377 0.41255 48.639 48.403 48.816 0.26209 72 25 3 0 0 0 0.89988 1 22106 22106 2.4348 0.18206 1 2674700 18182 8625 11590 11619 20885 20885 0.13851968567837503 LQAGKILLYYK 11 Unmodified _LQAGKILLYYK_ 0 0 0 ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENST00000523989.1_1_8:43052051-43052222:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2691955566406 3 437.267463 1308.78056 3.0737 0.001344 0.87846 0.00038412 3.9522 0.0017282 437.26766316545127 46.951 0.67994 47.603 47.196 47.876 0.65219 76 36 3 0 0 0 0.89544 2 21420 21420;21483 2.6312 1.4164 1 4995300 18183 8625 11590 11619 20886;20887 20886 0.13851968567837503 LQAGKILLYYK 11 Unmodified _LQAGKILLYYK_ 0 0 0 ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENST00000523989.1_1_8:43052051-43052222:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.26904296875 3 437.267463 1308.78056 3.2062 0.001402 0.98732 0.00043172 4.1935 0.0018337 437.26772062992023 48.493 1.1974 49.148 48.621 49.818 0.65525 149 45 4 0 0 0 0.85532 1 22224 22224 4.4062 0.52982 1 4130600 18184 8625 11590 11619 20888 20888 0.13851968567837503 LQAGKILLYYK 11 Unmodified _LQAGKILLYYK_ 0 0 0 ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENST00000523989.1_1_8:43052051-43052222:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2691345214844 3 437.267463 1308.78056 2.9166 0.0012753 1.1024 0.00048204 4.019 0.0017574 437.2678464523284 50.769 0.49729 51.428 51.193 51.69 0.65956 75 27 3 0 0 0 0.85532 2 23229 23229;23274 4.4062 1.9714 1 3016400 18185 8625 11590 11619 20889;20890 20889 0.13851968567837503 LQAGKILLYYK 11 Unmodified _LQAGKILLYYK_ 0 0 0 ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENST00000523989.1_1_8:43052051-43052222:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF ENST00000519705.1_1_8:43052051-43054709:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 437.267463 1308.78056 2.6718 0.0011683 0.042935 1.8774E-05 2.7147 0.0011871 437.26731682472007 47.337 0.47731 48.166 47.93 48.407 0.82915 -0.14623 0.00026052 NaN 2.4348 56 29 2 NaN NaN NaN NaN 0 NaN NaN 0 1365700 18186 8625 11590 11619 0.13851968567837503 LQALKRRHI 9 Unmodified _LQALKRRHI_ 0 0 0 REV__nc|ENSG00000117226|Q9H0R5-4|GBP3 REV__nc|ENSG00000117226|Q9H0R5-4|GBP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.86767578125 2 567.864549 1133.71454 NaN NaN NaN NaN NaN NaN NaN 44.997 1 45.265 44.765 45.765 0.26768 0 0 0 0.90699 1 20567 20567 1.8442 0.36234 1 + 18187 11437 11591 11620 20891 20891 0.15303617236327227 LQALQKGERKK 11 Unmodified _LQALQKGERKK_ 0 0 0 ENSG00000198874|ENST00000359626|TYW1;nc|ENSG00000198874|Q9NV66-2|TYW1;TYW1B|p.S547Gfs*16|1|0.08|ENSG00000277149|chr7:72616818-72616819|-/TTCC|frameshift_variant;ENSG00000277149|ENST00000620995|TYW1B ENSG00000198874|ENST00000359626|TYW1 ENSG00000198874|ENST00000359626|TYW1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 433.60302734375 3 433.601616 1297.78302 3.7298 0.0016172 -1.769 -0.00076702 1.9608 0.00085022 433.60084054918315 98.666 0.159 98.966 98.887 99.046 0.29987 19 11 3 0 0 0 0.91068 1 45493 45493 1.3296 0.63198 1 1267500 18188 5954 11592 11621 20892 20892 0.14603817025476928 LQALQKGERKK 11 Unmodified _LQALQKGERKK_ 0 0 0 ENSG00000198874|ENST00000359626|TYW1;nc|ENSG00000198874|Q9NV66-2|TYW1;TYW1B|p.S547Gfs*16|1|0.08|ENSG00000277149|chr7:72616818-72616819|-/TTCC|frameshift_variant;ENSG00000277149|ENST00000620995|TYW1B ENSG00000198874|ENST00000359626|TYW1 ENSG00000198874|ENST00000359626|TYW1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 433.601616 1297.78302 3.266 0.0014162 -0.6391 -0.00027712 2.6269 0.001139 433.6011116298532 98.44 0.11818 99.039 98.956 99.074 0.59885 0.036475 0.00085796 NaN 1.3296 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 1187600 18189 5954 11592 11621 0.14603817025476928 LQANHNLR 8 Unmodified _LQANHNLR_ 0 0 0 nc|ENSG00000142405|P59046-2|NLRP12;ENSG00000142405|ENST00000324134|NLRP12;nc|ENSG00000142405|P59046-7|NLRP12 nc|ENSG00000142405|P59046-2|NLRP12 nc|ENSG00000142405|P59046-2|NLRP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 322.51458740234375 3 322.51403 964.520262 NaN NaN NaN NaN NaN NaN NaN 0.69595 1 1.091 0.59098 1.591 0.39503 0 0 0 0.99035 1 320 320 3.2813 1.6287 1 18190 3307 11593 11622 20893 20893 0.036582410803816856 LQASDKIY 8 Unmodified _LQASDKIY_ 0 0 0 ENSG00000150471|ENST00000683033|ADGRL3;nc|ENSG00000150471|Q9HAR2-3|ADGRL3;nc|ENSG00000150471|Q9HAR2-2|ADGRL3;nc|ENSG00000150471|Q9HAR2|ADGRL3;nc|ENSG00000150471|Q9HAR2-4|ADGRL3 ENSG00000150471|ENST00000683033|ADGRL3 ENSG00000150471|ENST00000683033|ADGRL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 313.1803894042969 3 313.171159 936.491647 NaN NaN NaN NaN NaN NaN NaN 76.335 1 76.998 76.498 77.498 0.66387 0 0 0 0.99035 1 35165 35165 1.6526 0 1 18191 3668 11594 11623 20894 20894 0.020860786605680914 LQCVKGPRA 9 Unmodified _LQCVKGPRA_ 0 0 0 REV__nc|ENSG00000111405|P21128-3|ENDOU REV__nc|ENSG00000111405|P21128-3|ENDOU MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.2168273925781 3 324.520016 970.53822 2.2146 0.00071867 -1.5843 -0.00051414 0.63025 0.00020453 324.5195322021856 51.255 0.18776 51.517 51.378 51.566 0.2622 12 8 2 0 0 0 0.10586 1 23381 23381 0.96228 0.56156 1 332520 + 18192 11230 11595 11624 20895 20895 0.051772400108689 LQCVKGPRA 9 Unmodified _LQCVKGPRA_ 0 0 0 REV__nc|ENSG00000111405|P21128-3|ENDOU REV__nc|ENSG00000111405|P21128-3|ENDOU MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 324.520016 970.53822 2.0804 0.00067513 -2.3466 -0.0007615 -0.26617 -8.6377E-05 324.5194211031472 50.753 0.23293 51.57 51.434 51.667 0.81738 0.14071 -0.0006943 NaN 0.96228 23 12 3 NaN NaN NaN NaN 0 NaN NaN 0 264190 + 18193 11230 11595 11624 0.051772400108689 LQCVKGPRA 9 Unmodified _LQCVKGPRA_ 0 0 0 REV__nc|ENSG00000111405|P21128-3|ENDOU REV__nc|ENSG00000111405|P21128-3|ENDOU MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 324.520016 970.53822 2.0865 0.00067712 -1.4173 -0.00045994 0.66924 0.00021718 324.5195488854462 50.544 0.27021 51.202 51.067 51.338 0.65735 -0.22789 0.00021039 NaN 0.96228 21 14 2 NaN NaN NaN NaN 0 NaN NaN 0 267180 + 18194 11230 11595 11624 0.051772400108689 LQCVRKRLLH 10 Unmodified _LQCVRKRLLH_ 0 0 0 nc|ENSG00000198089|A8K8P3-2|SFI1;ENSG00000198089|ENST00000400288|SFI1;nc|ENSG00000198089|A8K8P3-4|SFI1;nc|ENSG00000198089|A8K8P3-10|SFI1;nc|ENSG00000198089|A8K8P3-3|SFI1;nc|ENSG00000198089|A8K8P3-9|SFI1;ENST00000382162.7_1_22:32002284-32014401:+|nuORF nc|ENSG00000198089|A8K8P3-2|SFI1 nc|ENSG00000198089|A8K8P3-2|SFI1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.59381103515625 3 422.592286 1264.75503 2.9623 0.0012518 0.83244 0.00035178 3.7947 0.0016036 422.5925499846885 46.119 0.54383 46.385 46.024 46.568 0.26561 79 23 4 0 0 0 0.93713 1 21098 21098 1.7423 1.7423 1 5836400 18195 5867 11596 11625 20896 20896 0.13324215564421138 LQCVRKRLLH 10 Unmodified _LQCVRKRLLH_ 0 0 0 nc|ENSG00000198089|A8K8P3-2|SFI1;ENSG00000198089|ENST00000400288|SFI1;nc|ENSG00000198089|A8K8P3-4|SFI1;nc|ENSG00000198089|A8K8P3-10|SFI1;nc|ENSG00000198089|A8K8P3-3|SFI1;nc|ENSG00000198089|A8K8P3-9|SFI1;ENST00000382162.7_1_22:32002284-32014401:+|nuORF nc|ENSG00000198089|A8K8P3-2|SFI1 nc|ENSG00000198089|A8K8P3-2|SFI1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.92816162109375 3 422.592286 1264.75503 3.283 0.0013874 0.58611 0.00024769 3.8691 0.001635 422.5923992642799 45.569 1.1841 46.22 45.721 46.905 0.65104 158 44 5 0 0 0 0.93713 1 20927 20927 1.7423 1.7423 1 4626900 18196 5867 11596 11625 20897 20897 0.13324215564421138 LQCVRKRLLH 10 Unmodified _LQCVRKRLLH_ 0 0 0 nc|ENSG00000198089|A8K8P3-2|SFI1;ENSG00000198089|ENST00000400288|SFI1;nc|ENSG00000198089|A8K8P3-4|SFI1;nc|ENSG00000198089|A8K8P3-10|SFI1;nc|ENSG00000198089|A8K8P3-3|SFI1;nc|ENSG00000198089|A8K8P3-9|SFI1;ENST00000382162.7_1_22:32002284-32014401:+|nuORF nc|ENSG00000198089|A8K8P3-2|SFI1 nc|ENSG00000198089|A8K8P3-2|SFI1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 317.19708251953125 4 317.196034 1264.75503 2.4347 0.00077228 1.0194 0.00032336 3.4541 0.0010956 317.19628456850245 45.969 0.57444 46.62 46.33 46.905 0.65104 68 18 5 0 0 0 0.93713 1 21146 21146 0.62683 0.62683 1 8339400 18197 5867 11596 11625 20898 20898 0.13324215564421138 LQDAEIAR 8 Unmodified _LQDAEIAR_ 0 0 0 ENSG00000197956|ENST00000368719|S100A6 ENSG00000197956|ENST00000368719|S100A6 ENSG00000197956|ENST00000368719|S100A6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 458.2261047363281 2 458.248349 914.482145 2.5974 0.0011903 -0.0046374 -2.1251E-06 2.5928 0.0011881 458.24837863631893 19.62 0.14292 19.912 19.832 19.975 0.29239 17 10 2 0 0 0 0.10553 1 8902 8902 29.082 5.061 1 321420 18198 5854 11597 11626 20899 20899 0.021483103750369992 LQDAEIAR 8 Unmodified _LQDAEIAR_ 0 0 0 ENSG00000197956|ENST00000368719|S100A6 ENSG00000197956|ENST00000368719|S100A6 ENSG00000197956|ENST00000368719|S100A6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 458.2259521484375 2 458.248349 914.482145 3.0682 0.001406 -2.0837 -0.00095485 0.98447 0.00045113 458.2472374044131 19.265 0.15664 19.923 19.829 19.986 0.6583 16 10 2 0 0 0 0.10089 1 8731 8731 30.637 10.183 1 266950 18199 5854 11597 11626 20900 20900 0.021483103750369992 LQDLQDWQQAL 11 Unmodified _LQDLQDWQQAL_ 0 0 0 REV__nc|ENSG00000197694|Q13813-3|SPTAN1 REV__nc|ENSG00000197694|Q13813-3|SPTAN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 679.3428344726562 2 679.340966 1356.66738 3.8174 0.0025933 1.3434 0.00091266 5.1608 0.003506 679.3421450044733 60.238 0.32833 60.494 60.367 60.696 0.25578 36 16 3 0 0 0 0.79438 1 27577 27577 7.1017 1.3699 1 617630 + 18200 14298 11598 11627 20901 20901 0.003312483840090863 LQDLQDWQQAL 11 Unmodified _LQDLQDWQQAL_ 0 0 0 REV__nc|ENSG00000197694|Q13813-3|SPTAN1 REV__nc|ENSG00000197694|Q13813-3|SPTAN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 679.3458862304688 2 679.340966 1356.66738 3.9669 0.0026949 2.2127 0.0015032 6.1796 0.0041981 679.3430436780704 59.696 0.33341 60.361 60.274 60.608 0.66503 28 16 2 0 0 0 0.79438 1 27378 27378 7.1017 1.3699 1 613900 + 18201 14298 11598 11627 20902 20902 0.003312483840090863 LQDLQDWQQAL 11 Unmodified _LQDLQDWQQAL_ 0 0 0 REV__nc|ENSG00000197694|Q13813-3|SPTAN1 REV__nc|ENSG00000197694|Q13813-3|SPTAN1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 679.340966 1356.66738 3.8174 0.0025933 1.3434 0.00091266 5.1608 0.003506 679.3421450044733 60.238 0.32833 60.494 60.367 60.696 0.25578 0.066275 -0.00054743 NaN 7.1017 36 16 3 NaN NaN NaN NaN 0 NaN NaN 0 617630 + 18202 14298 11598 11627 0.003312483840090863 LQDLQDWQQAL 11 Unmodified _LQDLQDWQQAL_ 0 0 0 REV__nc|ENSG00000197694|Q13813-3|SPTAN1 REV__nc|ENSG00000197694|Q13813-3|SPTAN1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 679.340966 1356.66738 3.9669 0.0026949 2.2127 0.0015032 6.1796 0.0041981 679.3430436780704 59.696 0.33341 60.361 60.274 60.608 0.66503 -0.066275 0.0006336 NaN 7.1017 28 16 2 NaN NaN NaN NaN 0 NaN NaN 0 613900 + 18203 14298 11598 11627 0.003312483840090863 LQEILMRKK 9 Unmodified _LQEILMRKK_ 0 0 0 REV__nc|ENSG00000102786|Q9UL03-3|INTS6 REV__nc|ENSG00000102786|Q9UL03-3|INTS6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 580.0265502929688 2 579.855001 1157.69545 NaN NaN NaN NaN NaN NaN NaN 11.88 1 12.517 12.017 13.017 0.63746 0 0 0 0.91238 1 5318 5318 0.52476 0 1 + 18204 10940 11599 11628 20903 20903 0.12290899830372837 LQERRRLL 8 Unmodified _LQERRRLL_ 0 0 0 ENSG00000160460|ENST00000598249|SPTBN4;nc|ENSG00000160460|Q9H254-4|SPTBN4;nc|ENSG00000160460|Q9H254-3|SPTBN4;ENST00000596900.5_1_19:41036434-41060733:+|nuORF;nc|ENSG00000160460|Q9H254-5|SPTBN4 ENSG00000160460|ENST00000598249|SPTBN4 ENSG00000160460|ENST00000598249|SPTBN4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.2179870605469 3 361.896363 1082.66726 2.378 0.00086059 -0.83784 -0.00030321 1.5402 0.00055738 361.89622488341706 14.214 0.074557 14.521 14.501 14.576 0.3069 8 5 2 0 0 0 0.13619 1 6441 6441 6.2058 0 1 1786400 18205 4061 11600 11629 20904 20904 0.1292333796532148 LQFGLLRQ 8 Unmodified _LQFGLLRQ_ 0 0 0 REV__nc|ENSG00000196821|Q9H6K1-2|ILRUN REV__nc|ENSG00000196821|Q9H6K1-2|ILRUN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 325.53167724609375 3 325.53091 973.5709 2.0099 0.00065429 -0.16488 -5.3674E-05 1.845 0.00060062 325.5308397575439 24.614 0.24505 25.35 25.269 25.514 0.73623 47 34 2 0 0 0 0.26384 1 11065 11065 30.637 5.2372 1 1664700 + 18206 14242 11601 11630 20905 20905 0.0830577040536582 LQFTYIPMEL 10 Unmodified _LQFTYIPMEL_ 0 0 0 REV__nc|ENSG00000169918|Q8TE49|OTUD7A REV__nc|ENSG00000169918|Q8TE49|OTUD7A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 418.56561279296875 3 418.886142 1253.6366 NaN NaN NaN NaN NaN NaN NaN 26.586 1 27.364 26.864 27.864 0.7787 0 0 0 0.9952 1 11942 11942 3.0723 0.98626 1 + 18207 13408 11602 11631 20906 20906 0.01992378745399037 LQGLRVKMRHI 11 Unmodified _LQGLRVKMRHI_ 0 0 0 REV__ENST00000572253.5_1_17:78061710-78071334:+|nuORF REV__ENST00000572253.5_1_17:78061710-78071334:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.9439697265625 3 450.943208 1349.80779 NaN NaN NaN NaN NaN NaN NaN 72.492 1 73.196 72.696 73.696 0.70386 0 0 0 1.0059 1 34901 34901 1.2148 0 1 + 18208 12295 11603 11632 20907 20907 0.14688173627223478 LQGRTPSTRL 10 Unmodified _LQGRTPSTRL_ 0 0 0 REV__NBEAL1|p.L1448*|1|0.12|ENSG00000144426|chr2:203136636-203136636|T/-|frameshift_variant REV__NBEAL1|p.L1448*|1|0.12|ENSG00000144426|chr2:203136636-203136636|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.8309936523438 2 564.827829 1127.64111 3.5934 0.0020297 0.71486 0.00040377 4.3083 0.0024334 564.8282490767342 16.924 0.94013 17.585 16.906 17.846 0.66072 128 87 2 0 0 0 0.93584 1 7429 7429 0.35063 0 1 235650 + 18209 12402 11604 11633 20908 20908 0.08239024003160011 LQGVYVLAATS 11 Unmodified _LQGVYVLAATS_ 0 0 0 ENST00000484913.5_1_7:92116773-92148321:-|nuORF;ENSG00000127980|ENST00000248633|PEX1;ENST00000496420.5_1_7:92123531-92130970:-|nuORF;nc|ENSG00000127980|O43933-2|PEX1 ENST00000484913.5_1_7:92116773-92148321:-|nuORF ENST00000484913.5_1_7:92116773-92148321:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.9220581054688 2 561.313689 1120.61282 NaN NaN NaN NaN NaN NaN NaN 81.723 1 81.808 81.308 82.308 0.084106 0 0 0 1.0061 1 40229 40229 2.7352 0 1 18210 2495 11605 11634 20909 20909 0.05734281303239186 LQHFFLVALVL 11 Unmodified _LQHFFLVALVL_ 0 0 0 REV__ENSG00000126950|ENST00000372930|TMEM35A REV__ENSG00000126950|ENST00000372930|TMEM35A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 650.3969116210938 2 650.394816 1298.77508 4.6081 0.0029971 0.57865 0.00037635 5.1868 0.0033734 650.3950503837718 104.68 0.28461 105 104.85 105.14 0.31863 96 59 2 0 0 0 0.91459 1 48316 48316 0.35063 0.35063 1 883020 + 18211 11727 11606 11635 20910 20910 0.13764289776031546 LQIAQDTG 8 Unmodified _LQIAQDTG_ 0 0 0 nc|ENSG00000196367|Q9Y4A5-2|TRRAP;nc|ENSG00000196367|Q9Y4A5|TRRAP;ENSG00000196367|ENST00000456197|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.2254638671875 2 423.2218 844.429047 NaN NaN NaN NaN NaN NaN NaN 68.654 1 68.906 68.406 69.406 0.25227 0 0 0 0.99035 1 31451 31451 5.2307 0 1 18212 5739 11607 11636 20911 20911 0.0006093259238468818 LQIELTQLTRR 11 Unmodified _LQIELTQLTRR_ 0 0 0 REV__ENSG00000173908|ENST00000306658|KRT28 REV__ENSG00000173908|ENST00000306658|KRT28 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.6094970703125 3 457.608659 1369.80415 3.1411 0.0014374 -0.76643 -0.00035072 2.3746 0.0010866 457.60827451486574 94.97 0.94132 95.588 94.942 95.884 0.61737 128 52 4 0 0 0 0.91391 1 43567 43567 0.08335 0 1 1783600 + + 18213 10100 11608 11637 20912 20912 0.13403782334330572 LQIKKKKKKKK 11 Unmodified _LQIKKKKKKKK_ 0 0 0 REV__ENST00000433510.2_1_17:46713761-46713989:-|nuORF REV__ENST00000433510.2_1_17:46713761-46713989:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 699.5042724609375 2 699.505764 1396.99697 NaN NaN NaN NaN NaN NaN NaN 46.89 1 47.719 47.219 48.219 0.82915 0 0 0 1.0082 1 21361 21361 0 0 1 + 18214 16285 11609 11638 20913 20913 0.31435569192194635 LQIQRNVTL 9 Unmodified _LQIQRNVTL_ 0 0 0 ENSG00000186480|ENST00000340368|INSIG1;nc|ENSG00000186480|O15503-2|INSIG1;ENSG00000125629|ENST00000245787|INSIG2 ENSG00000186480|ENST00000340368|INSIG1 ENSG00000186480|ENST00000340368|INSIG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.8299560546875 2 542.827298 1083.64004 3.339 0.0018125 1.4608 0.00079296 4.7998 0.0026055 543.3298544460536 45.903 0.24109 46.169 46.024 46.265 0.26561 15 8 2 0 0 0 0.0023958 1 20990 20990 100.09 25.891 1 571530 18215 5574 11610 11639 20914 20914 0.10156809634281672 LQIQRNVTL 9 Unmodified _LQIQRNVTL_ 0 0 0 ENSG00000186480|ENST00000340368|INSIG1;nc|ENSG00000186480|O15503-2|INSIG1;ENSG00000125629|ENST00000245787|INSIG2 ENSG00000186480|ENST00000340368|INSIG1 ENSG00000186480|ENST00000340368|INSIG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.8292236328125 2 542.827298 1083.64004 3.6733 0.001994 2.4433 0.0013263 6.1166 0.0033203 543.3302413034542 45.228 0.27386 45.879 45.751 46.025 0.65104 25 10 4 0 0 0 0.071132 2 20762 20718;20762 39.95 13.682 1 305480 18216 5574 11610 11639 20915;20916 20916 0.10156809634281672 LQIRGGVP 8 Unmodified _LQIRGGVP_ 0 0 0 REV__nc|ENSG00000187824|Q6QAJ8-2|TMEM220 REV__nc|ENSG00000187824|Q6QAJ8-2|TMEM220 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 420.259765625 2 420.25852 838.502486 NaN NaN NaN NaN NaN NaN NaN 83.794 1 84.456 83.956 84.956 0.66219 0 0 0 0.99035 1 38595 38595 2.3027 0 1 + 18217 14117 11611 11640 20917 20917 0.0767752582552248 LQKDYVQL 8 Unmodified _LQKDYVQL_ 0 0 0 ENSG00000173275|ENST00000339249|ZNF449 ENSG00000173275|ENST00000339249|ZNF449 ENSG00000173275|ENST00000339249|ZNF449 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.784912109375 2 503.782025 1005.5495 3.3664 0.0016959 0.17575 8.8538E-05 3.5421 0.0017845 503.7820999396189 36.27 0.37761 36.896 36.695 37.073 0.62631 18 11 2 0 0 0 0.49219 1 16626 16626 21.747 2.4897 1 340410 18218 4926 11612 11641 20918 20918 0.04694340585979262 LQKKAHEL 8 Unmodified _LQKKAHEL_ 0 0 0 nc|ENSG00000131351|Q9BT25-2|HAUS8;nc|ENSG00000131351|Q9BT25-3|HAUS8;ENSG00000131351|ENST00000253669|HAUS8;HAUS8|p.K187T|1|0.23|ENSG00000131351|chr19:17058634-17058634|T/G|missense_variant nc|ENSG00000131351|Q9BT25-2|HAUS8 nc|ENSG00000131351|Q9BT25-2|HAUS8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.7908020019531 2 483.790184 965.565815 3.0743 0.0014873 0.28688 0.00013879 3.3611 0.0016261 483.79034234611163 26.763 0.30908 27.028 26.88 27.189 0.26489 50 19 4 0 0 0 0.44001 1 12217 12217 25.399 1.3787 1 2527900 18219 2653 11613 11642 20919 20919 0.08165466542754984 LQKKNGLSL 9 Unmodified _LQKKNGLSL_ 0 0 0 ENSG00000122386|ENST00000219091|ZNF205 ENSG00000122386|ENST00000219091|ZNF205 ENSG00000122386|ENST00000219091|ZNF205 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.8127136230469 2 500.811116 999.60768 3.253 0.0016291 0.53999 0.00027044 3.793 0.0018996 500.8113698372753 17.193 0.49351 17.853 17.452 17.945 0.66072 61 39 2 0 0 0 0.89544 1 7663 7663 8.7454 0 1 186050 18220 2266 11614 11643 20920 20920 0.10786022231286552 LQKKREQVL 9 Unmodified _LQKKREQVL_ 0 0 0 nc|ENSG00000117477|Q5TID7-2|CCDC181;nc|ENSG00000117477|Q5TID7-3|CCDC181;ENSG00000117477|ENST00000367806|CCDC181 nc|ENSG00000117477|Q5TID7-2|CCDC181 nc|ENSG00000117477|Q5TID7-2|CCDC181 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.2405700683594 3 381.239907 1140.69789 2.1908 0.00083521 0.0085914 3.2754E-06 2.1994 0.00083849 381.2398764602969 12.923 0.21494 13.23 13.125 13.34 0.30727 14 7 3 0 0 0 0.136 1 5835 5835 26.021 2.0566 1 619900 18221 2075 11615 11644 20921 20921 0.13317071559686156 LQKKREQVL 9 Unmodified _LQKKREQVL_ 0 0 0 nc|ENSG00000117477|Q5TID7-2|CCDC181;nc|ENSG00000117477|Q5TID7-3|CCDC181;ENSG00000117477|ENST00000367806|CCDC181 nc|ENSG00000117477|Q5TID7-2|CCDC181 nc|ENSG00000117477|Q5TID7-2|CCDC181 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 381.239907 1140.69789 3.0012 0.0011442 0.78684 0.00029998 3.7881 0.0014442 381.240103499251 12.757 0.13537 13.399 13.345 13.48 0.64272 0.084574 0.00044728 NaN 26.021 9 3 4 NaN NaN NaN NaN 0 NaN NaN 0 843440 18222 2075 11615 11644 0.13317071559686156 LQKKRNYDSWR 11 Unmodified _LQKKRNYDSWR_ 0 0 0 REV__nc|ENSG00000172752|A8TX70-2|COL6A5 REV__nc|ENSG00000172752|A8TX70-2|COL6A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.60504150390625 3 498.603908 1492.78989 NaN NaN NaN NaN NaN NaN NaN 75.624 1 76.289 75.789 76.789 0.6644 0 0 0 1.0079 1 34845 34845 0.40827 0 1 + 18223 13559 11616 11645 20922 20922 0.06321129906064016 LQKLKSSL 8 Unmodified _LQKLKSSL_ 0 0 0 REV__nc|ENSG00000116731|Q13029-5|PRDM2 REV__nc|ENSG00000116731|Q13029-5|PRDM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 306.1988525390625 3 306.199049 915.575317 NaN NaN NaN NaN NaN NaN NaN 24.736 1 25.473 24.973 25.973 0.73623 0 0 0 0.99035 1 11086 11086 1.6526 0 1 + 18224 11416 11617 11646 20923 20923 0.11415234828268694 LQKLKSSL 8 Unmodified _LQKLKSSL_ 0 0 0 REV__nc|ENSG00000116731|Q13029-5|PRDM2 REV__nc|ENSG00000116731|Q13029-5|PRDM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 306.1995849609375 3 306.199049 915.575317 NaN NaN NaN NaN NaN NaN NaN 25.02 1 25.757 25.257 26.257 0.73623 0 0 0 0.99035 1 11221 11221 1.6526 0 1 + 18225 11416 11617 11646 20924 20924 0.11415234828268694 LQKLKSSL 8 Unmodified _LQKLKSSL_ 0 0 0 REV__nc|ENSG00000116731|Q13029-5|PRDM2 REV__nc|ENSG00000116731|Q13029-5|PRDM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 306.1991882324219 3 306.199049 915.575317 NaN NaN NaN NaN NaN NaN NaN 40.783 1 41.586 41.086 42.086 0.80351 0 0 0 0.99035 1 18484 18484 1.6526 0 1 + 18226 11416 11617 11646 20925 20925 0.11415234828268694 LQKLKSSL 8 Unmodified _LQKLKSSL_ 0 0 0 REV__nc|ENSG00000116731|Q13029-5|PRDM2 REV__nc|ENSG00000116731|Q13029-5|PRDM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 306.19976806640625 3 306.199049 915.575317 NaN NaN NaN NaN NaN NaN NaN 42.219 1 42.489 41.989 42.989 0.27021 0 0 0 0.99035 1 19253 19253 1.6526 0 1 + 18227 11416 11617 11646 20926 20926 0.11415234828268694 LQKMKESL 8 Unmodified _LQKMKESL_ 0 0 0 ENSG00000147872|ENST00000276914|PLIN2;ENST00000464326.1_1_9:19108613-19116611:-|nuORF ENSG00000147872|ENST00000276914|PLIN2 ENSG00000147872|ENST00000276914|PLIN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.57421875 2 488.778428 975.542302 NaN NaN NaN NaN NaN NaN NaN 17.708 1 18.369 17.869 18.869 0.66072 0 0 0 0.60351 1 7996 7996 25.399 3.6527 1 18228 3585 11618 11647 20927 20927 0.05355284713925812 LQKMRRKL 8 Unmodified _LQKMRRKL_ 0 0 0 ENST00000492092.1_1_22:50644878-50655786:+|nuORF;ENST00000380903.6_1_22:50639465-50655786:+|nuORF;ENSG00000073169|ENST00000380903|SELENOO ENST00000492092.1_1_22:50644878-50655786:+|nuORF ENST00000492092.1_1_22:50644878-50655786:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.8431396484375 2 536.842228 1071.6699 3.2587 0.0017494 -0.19286 -0.00010353 3.0658 0.0016459 536.8419174876899 37.052 0.25461 37.682 37.517 37.771 0.62999 16 9 2 0 0 0 0.74071 1 16970 16970 2.5775 0 1 237200 18229 805 11619 11648 20928 20928 0.13693470098610305 LQKMRRKL 8 Unmodified _LQKMRRKL_ 0 0 0 ENST00000492092.1_1_22:50644878-50655786:+|nuORF;ENST00000380903.6_1_22:50639465-50655786:+|nuORF;ENSG00000073169|ENST00000380903|SELENOO ENST00000492092.1_1_22:50644878-50655786:+|nuORF ENST00000492092.1_1_22:50644878-50655786:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 536.842228 1071.6699 3.0805 0.0016538 0.54969 0.0002951 3.6302 0.0019489 536.8423476828427 37.658 0.22203 37.919 37.789 38.011 0.26083 0.11863 0.00033903 NaN 2.5775 12 6 2 NaN NaN NaN NaN 0 NaN NaN 0 352170 18230 805 11619 11648 0.13693470098610305 LQKMRRKL 8 Unmodified _LQKMRRKL_ 0 0 0 ENST00000492092.1_1_22:50644878-50655786:+|nuORF;ENST00000380903.6_1_22:50639465-50655786:+|nuORF;ENSG00000073169|ENST00000380903|SELENOO ENST00000492092.1_1_22:50644878-50655786:+|nuORF ENST00000492092.1_1_22:50644878-50655786:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 536.842228 1071.6699 3.2587 0.0017494 -0.19286 -0.00010353 3.0658 0.0016459 536.8419174876899 37.052 0.25461 37.682 37.517 37.771 0.62999 -0.11863 -0.00045823 NaN 2.5775 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 237200 18231 805 11619 11648 0.13693470098610305 LQKNPIWHEGE 11 Unmodified _LQKNPIWHEGE_ 0 0 0 ENSG00000132464|ENST00000396073|ENAM ENSG00000132464|ENST00000396073|ENAM ENSG00000132464|ENST00000396073|ENAM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.8995056152344 3 450.89821 1349.6728 2.8906 0.0013034 0.085136 3.8388E-05 2.9758 0.0013418 450.8980205679105 51.03 0.30489 51.69 51.526 51.831 0.65956 26 16 2 0 0 0 0.83518 1 23342 23342 2.4348 1.22 1 607400 18232 2702 11620 11649 20929 20929 0.011949719664926306 LQKPKIWSL 9 Unmodified _LQKPKIWSL_ 0 0 0 ENST00000558180.2_1_16:54318400-54319510:-|nuORF;ENSG00000177508|ENST00000329734|IRX3 ENST00000558180.2_1_16:54318400-54319510:-|nuORF ENST00000558180.2_1_16:54318400-54319510:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.846435546875 2 556.844959 1111.67537 NaN NaN NaN NaN NaN NaN NaN 50.027 1 50.288 49.788 50.788 0.26146 0 0 0 0.796 1 22862 22862 9.3831 2.0939 1 18233 5120 11621 11650 20930 20930 0.12399472162087477 LQKPKVKI 8 Unmodified _LQKPKVKI_ 0 0 0 REV__nc|ENSG00000055957|P19827-2|ITIH1 REV__nc|ENSG00000055957|P19827-2|ITIH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 318.55621337890625 3 318.555055 952.643337 2.1181 0.00067473 0.63735 0.00020303 2.7554 0.00087776 318.55516399166544 17.993 0.48195 18.295 18.019 18.501 0.30158 64 49 2 0 0 0 0.74071 1 8074 8074 1.6526 0 1 229100 + 18234 10374 11622 11651 20931 20931 0.16512104478943002 LQKRIEVRV 9 Unmodified _LQKRIEVRV_ 0 0 0 nc|ENSG00000186416|O15226|NKRF;nc|ENSG00000186416|O15226-2|NKRF;ENSG00000186416|ENST00000688521|NKRF nc|ENSG00000186416|O15226|NKRF nc|ENSG00000186416|O15226|NKRF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.8629150390625 2 570.864215 1139.71388 NaN NaN NaN NaN NaN NaN NaN 70.749 1 71.411 70.911 71.911 0.66209 0 0 0 0.90777 1 32425 32425 1.6526 0 1 18235 5568 11623 11652 20932 20932 0.14960777796591174 LQKRWFALP 9 Unmodified _LQKRWFALP_ 0 0 0 REV__ENSG00000137875|ENST00000260442|BCL2L10 REV__ENSG00000137875|ENST00000260442|BCL2L10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 386.89801025390625 3 386.897593 1157.67095 2.6938 0.0010422 -1.6457 -0.0006367 1.0481 0.00040551 386.8970517983738 14.314 0.12786 14.314 14.279 14.406 0 11 6 2 0 0 0 0.75535 1 6312 6312 8.1555 0 1 155390 + 18236 12133 11624 11653 20933 20933 0.09842007739166547 LQKTVMIPP 9 Unmodified _LQKTVMIPP_ 0 0 0 REV__nc|ENSG00000196091|Q00872-5|MYBPC1 REV__nc|ENSG00000196091|Q00872-5|MYBPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.8071899414062 2 513.804445 1025.59434 4.0083 0.0020595 1.1743 0.00060337 5.1826 0.0026629 513.8047943820819 93.365 0.43153 93.62 93.414 93.845 0.25497 47 20 3 0 0 0 0.80651 2 42917 42917;42973 7.2892 2.96 1 3751900 + 18237 14188 11625 11654 20934;20935 20934 0.08256448127667682 LQKTVMIPP 9 Unmodified _LQKTVMIPP_ 0 0 0 REV__nc|ENSG00000196091|Q00872-5|MYBPC1 REV__nc|ENSG00000196091|Q00872-5|MYBPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.806396484375 2 513.804445 1025.59434 3.5953 0.0018473 0.4509 0.00023167 4.0462 0.002079 513.8045288793668 92.943 0.4111 93.59 93.368 93.779 0.64714 54 21 3 0 0 0 0.80651 1 42762 42762 7.2892 2.96 1 4584200 + 18238 14188 11625 11654 20936 20936 0.08256448127667682 LQKVKAELE 9 Unmodified _LQKVKAELE_ 0 0 0 ENSG00000278057|ENST00000617225|TEX28 ENSG00000278057|ENST00000617225|TEX28 ENSG00000278057|ENST00000617225|TEX28 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 353.2141418457031 3 353.213246 1056.61791 2.6692 0.00094281 0.11453 4.0454E-05 2.7838 0.00098327 353.21329172094596 25.352 0.35921 25.62 25.455 25.814 0.26777 112 36 4 0 0 0 0.071101 1 11489 11489 29.841 2.6173 1 9070800 18239 6356 11626 11655 20937 20937 0.09186585165844008 LQKVKAELE 9 Unmodified _LQKVKAELE_ 0 0 0 ENSG00000278057|ENST00000617225|TEX28 ENSG00000278057|ENST00000617225|TEX28 ENSG00000278057|ENST00000617225|TEX28 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 353.213246 1056.61791 2.3925 0.00084506 -0.31526 -0.00011135 2.0772 0.00073371 353.21318571244325 25.028 0.26763 25.657 25.521 25.789 0.62915 0.018614 -0.00023599 NaN 29.841 109 51 3 NaN NaN NaN NaN 0 NaN NaN 0 7391400 18240 6356 11626 11655 0.09186585165844008 LQKVLEEKM 9 Unmodified _LQKVLEEKM_ 0 0 0 ENST00000476050.5_1_1:209941981-209948930:+|nuORF;nc|ENSG00000009790|Q9Y228-3|TRAF3IP3;nc|ENSG00000009790|Q9Y228-2|TRAF3IP3;ENSG00000009790|ENST00000367025|TRAF3IP3 ENST00000476050.5_1_1:209941981-209948930:+|nuORF ENST00000476050.5_1_1:209941981-209948930:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.21575927734375 3 373.21437 1116.62128 2.7324 0.0010198 -0.36813 -0.00013739 2.3643 0.00088237 373.2143002932422 39.61 0.37092 39.877 39.666 40.037 0.26696 35 14 3 0 0 0 0.76984 1 18068 18068 4.897 1.0207 1 2788800 18241 390 11627 11656 20938 20938 0.06763511948201995 LQKVLEEKM 9 Unmodified _LQKVLEEKM_ 0 0 0 ENST00000476050.5_1_1:209941981-209948930:+|nuORF;nc|ENSG00000009790|Q9Y228-3|TRAF3IP3;nc|ENSG00000009790|Q9Y228-2|TRAF3IP3;ENSG00000009790|ENST00000367025|TRAF3IP3 ENST00000476050.5_1_1:209941981-209948930:+|nuORF ENST00000476050.5_1_1:209941981-209948930:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 373.2156677246094 3 373.21437 1116.62128 2.7327 0.0010199 0.0035152 1.3119E-06 2.7362 0.0010212 373.21442014208964 39.222 0.48777 39.86 39.649 40.137 0.63778 43 17 4 0 0 0 0.49692 1 17962 17962 8.1555 3.2585 1 2956600 18242 390 11627 11656 20939 20939 0.06763511948201995 LQLAETLLFH 10 Unmodified _LQLAETLLFH_ 0 0 0 REV__ENSG00000129744|ENST00000250693|ART1 REV__ENSG00000129744|ENST00000250693|ART1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.56182861328125 3 395.560646 1183.66011 2.965 0.0011728 0.81073 0.00032069 3.7757 0.0014935 395.5610076794473 64.473 0.38409 65.129 64.961 65.345 0.65672 35 16 3 0 0 0 0.83621 1 29588 29588 3.5871 1.5011 1 810720 + 18243 11795 11628 11657 20940 20940 0.07562560574228883 LQLERKRRYFT 11 Unmodified _LQLERKRRYFT_ 0 0 0 MCUR1|p.D155Y|1|0.04|ENSG00000050393|chr6:13806997-13806997|C/A|missense_variant MCUR1|p.D155Y|1|0.04|ENSG00000050393|chr6:13806997-13806997|C/A|missense_variant MCUR1|p.D155Y|1|0.04|ENSG00000050393|chr6:13806997-13806997|C/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.95947265625 3 503.959803 1508.85758 NaN NaN NaN NaN NaN NaN NaN 89.162 1 89.84 89.34 90.34 0.67818 0 0 0 1.0082 1 41054 41054 0.094841 0 1 18244 9512 11629 11658 20941 20941 0.1235057983687966 LQLIRHKLLKL 11 Unmodified _LQLIRHKLLKL_ 0 0 0 ENST00000301573.13_1_17:72691237-72694758:-|nuORF ENST00000301573.13_1_17:72691237-72694758:-|nuORF ENST00000301573.13_1_17:72691237-72694758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 687.9706420898438 2 687.969014 1373.92348 NaN NaN NaN NaN NaN NaN NaN 99.904 1 99.904 99.404 100.4 0 0 0 0 1.008 1 55045 55045 0.30703 0.03801 1 18245 6804 11630 11659 20942 20942 0.25147020749727744 LQLKRRRTE 9 Unmodified _LQLKRRRTE_ 0 0 0 ENSG00000015479|ENST00000394805|MATR3 ENSG00000015479|ENST00000394805|MATR3 ENSG00000015479|ENST00000394805|MATR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 400.58465576171875 3 400.582556 1198.72584 2.7666 0.0011083 2.4145 0.00096721 5.1811 0.0020755 400.58353061852824 12.734 0.12024 12.734 12.685 12.806 0 16 6 3 0 0 0 0.093314 1 5559 5559 26.021 0 1 1567700 18246 439 11631 11660 20943 20943 0.13442394539811175 LQLLKRKLPLL 11 Unmodified _LQLLKRKLPLL_ 0 0 0 REV__ENST00000392370.7_1_2:188252095-188252167:-|nuORF REV__ENST00000392370.7_1_2:188252095-188252167:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 667.9656372070312 2 667.96594 1333.91733 NaN NaN NaN NaN NaN NaN NaN 64.977 1 64.977 64.477 65.477 0 0 0 0 1.0082 1 30881 30881 0 0 1 + 18247 15926 11632 11661 20944 20944 0.26372502518233887 LQLLKRKLPLL 11 Unmodified _LQLLKRKLPLL_ 0 0 0 REV__ENST00000392370.7_1_2:188252095-188252167:-|nuORF REV__ENST00000392370.7_1_2:188252095-188252167:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 667.9225463867188 2 667.96594 1333.91733 NaN NaN NaN NaN NaN NaN NaN 75.004 1 75.004 74.504 75.504 0 0 0 0 1.0082 1 36738 36738 0 0 1 + 18248 15926 11632 11661 20945 20945 0.26372502518233887 LQLLQAIWMYT 11 Unmodified _LQLLQAIWMYT_ 0 0 0 LTR7B_dup81|chr2:34736773-34737161:+|2.883411903852937|0.2968767232142372|3.28|529.0|19|1|anti-sense LTR7B_dup81|chr2:34736773-34737161:+|2.883411903852937|0.2968767232142372|3.28|529.0|19|1|anti-sense LTR7B_dup81|chr2:34736773-34737161:+|2.883411903852937|0.2968767232142372|3.28|529.0|19|1|anti-sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 690.3778686523438 2 690.373223 1378.73189 4.6268 0.0031942 0.66231 0.00045724 5.2891 0.0036514 690.3735357657544 104.7 0.22772 105.02 104.89 105.12 0.31863 70 46 2 0 0 0 0.91111 1 48363 48363 1.1933 0 1 562570 18249 9506 11633 11662 20946 20946 0.05767731936430209 LQLLRAQRVV 10 Unmodified _LQLLRAQRVV_ 0 0 0 REV__ENST00000426654.6_1_16:69660389-69681075:+|nuORF REV__ENST00000426654.6_1_16:69660389-69681075:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.25946044921875 3 399.259302 1194.75608 NaN NaN NaN NaN NaN NaN NaN 60.727 1 61.466 60.966 61.966 0.7396 0 0 0 0.99807 1 28070 28070 3.3196 0 1 + 18250 16219 11634 11663 20947 20947 0.16648753204958666 LQLQELFTRS 10 Unmodified _LQLQELFTRS_ 0 0 0 nc|ENSG00000116337|Q01433-4|AMPD2;ENST00000486282.6_1_1:110163774-110168851:+|nuORF nc|ENSG00000116337|Q01433-4|AMPD2 nc|ENSG00000116337|Q01433-4|AMPD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.2325134277344 3 412.231189 1233.67174 2.9434 0.0012134 0.76318 0.0003146 3.7066 0.001528 412.2314649186446 28.827 0.47868 29.445 29.04 29.518 0.61789 52 29 3 0 0 0 0.84738 1 13251 13251 6.1918 0.40842 1 910390 18251 9611 11635 11664 20948 20948 0.06424757597551434 LQLRLLLRIPL 11 Unmodified _LQLRLLLRIPL_ 0 0 0 nc|ENSG00000101955|P78539-3|SRPX;nc|ENSG00000101955|P78539-5|SRPX;nc|ENSG00000101955|P78539-2|SRPX;ENSG00000101955|ENST00000378533|SRPX nc|ENSG00000101955|P78539-3|SRPX nc|ENSG00000101955|P78539-3|SRPX MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 674.0033569335938 2 674.463564 1346.91258 NaN NaN NaN NaN NaN NaN NaN 97.415 1 98.017 97.517 98.517 0.6019 0 0 0 1.0082 1 44790 44790 0 0 1 18252 1321 11636 11665 20949 20949 0.2529961837544761 LQLRRRRRARP 11 Unmodified _LQLRRRRRARP_ 0 0 0 REV__ENST00000504087.5_1_4:125633653-125633758:-|nuORF REV__ENST00000504087.5_1_4:125633653-125633758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 739.9488525390625 2 739.474183 1476.93381 NaN NaN NaN NaN NaN NaN NaN 107.59 1 107.64 107.14 108.14 0.045425 0 0 0 1.008 1 58152 58152 0.30703 0.30703 1 + 18253 16910 11637 11666 20950 20950 0.21442441247540955 LQLTKKQLQ 9 Unmodified _LQLTKKQLQ_ 0 0 0 REV__ENST00000460314.1_1_1:209953741-209954724:+|nuORF REV__ENST00000460314.1_1_1:209953741-209954724:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.7742309570312 2 550.345323 1098.67609 3.6197 0.0019921 0.90551 0.00049835 4.5252 0.0024904 550.346279502827 37.702 0.24026 37.962 37.822 38.063 0.26083 9 7 2 0 0 0 0.10694 1 17212 17212 3.9444 0 1 254910 + 18254 10216 11638 11667 20951 20951 0.1307026681113257 LQLTKKQLQ 9 Unmodified _LQLTKKQLQ_ 0 0 0 REV__ENST00000460314.1_1_1:209953741-209954724:+|nuORF REV__ENST00000460314.1_1_1:209953741-209954724:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 550.345323 1098.67609 3.5418 0.0019492 0.11807 6.4977E-05 3.6598 0.0020142 550.3454615187381 37.045 0.18235 37.675 37.545 37.728 0.62999 -0.14354 -0.00011088 NaN 3.9444 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 112110 + 18255 10216 11638 11667 0.1307026681113257 LQMACLPF 8 Unmodified _LQMACLPF_ 0 0 0 REV__nc|ENSG00000162736|Q92542-2|NCSTN REV__nc|ENSG00000162736|Q92542-2|NCSTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 461.7314453125 2 461.729892 921.445231 3.5255 0.0016278 -0.089238 -4.1204E-05 3.4362 0.0015866 461.7297232807231 96.394 0.48588 96.672 96.464 96.95 0.27779 49 24 3 0 0 0 0.74071 1 44247 44247 2.5775 0 1 650480 + 18256 12956 11639 11668 20952 20952 -0.01863400766740142 LQMACLPF 8 Unmodified _LQMACLPF_ 0 0 0 REV__nc|ENSG00000162736|Q92542-2|NCSTN REV__nc|ENSG00000162736|Q92542-2|NCSTN MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 461.729892 921.445231 3.5255 0.0016278 -0.089238 -4.1204E-05 3.4362 0.0015866 461.7297232807231 96.394 0.48588 96.672 96.464 96.95 0.27779 -0.11454 -2.0746E-05 NaN 2.5775 49 24 3 NaN NaN NaN NaN 0 NaN NaN 0 650480 + 18257 12956 11639 11668 -0.01863400766740142 LQNHVFPLF 9 Unmodified _LQNHVFPLF_ 0 0 0 ENSG00000205339|ENST00000379719|IPO7 ENSG00000205339|ENST00000379719|IPO7 ENSG00000205339|ENST00000379719|IPO7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.8079223632812 2 557.805834 1113.59712 3.3842 0.0018877 0.20649 0.00011518 3.5907 0.0020029 557.805804202881 76.853 0.3669 77.109 76.932 77.299 0.25533 40 30 2 0 0 0 0.062556 2 35383 35371;35383 42.095 13.608 1 644660 18258 6046 11640 11669 20953;20954 20954 0.04486039576818257 LQNHVFPLF 9 Unmodified _LQNHVFPLF_ 0 0 0 ENSG00000205339|ENST00000379719|IPO7 ENSG00000205339|ENST00000379719|IPO7 ENSG00000205339|ENST00000379719|IPO7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.8065185546875 2 557.805834 1113.59712 3.1857 0.001777 0.66234 0.00036946 3.848 0.0021465 557.8059915987643 76.367 0.31789 77.03 76.827 77.145 0.66387 35 20 2 0 0 0 0.071101 1 35167 35167 39.957 16.809 1 549120 18259 6046 11640 11669 20955 20955 0.04486039576818257 LQNIIKTLRVP 11 Unmodified _LQNIIKTLRVP_ 0 0 0 nc|ENSG00000061987|Q7Z3U7-3|MON2;ENST00000551307.5_1_12:62954224-62986526:+|nuORF;nc|ENSG00000061987|Q7Z3U7-2|MON2;nc|ENSG00000061987|Q7Z3U7-6|MON2;ENST00000547095.5_1_12:62864501-62986526:+|nuORF;nc|ENSG00000061987|Q7Z3U7-5|MON2;ENSG00000061987|ENST00000393630|MON2 nc|ENSG00000061987|Q7Z3U7-3|MON2 nc|ENSG00000061987|Q7Z3U7-3|MON2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.2808532714844 3 432.278362 1293.81326 NaN NaN NaN NaN NaN NaN NaN 58.16 1 58.928 58.428 59.428 0.76861 0 0 0 1.0063 1 26665 26665 1.0136 0.31591 1 18260 651 11641 11670 20956 20956 0.17810175690669894 LQNNRIGLLQP 11 Unmodified _LQNNRIGLLQP_ 0 0 0 ENSG00000185924|ENST00000331238|RTN4RL1 ENSG00000185924|ENST00000331238|RTN4RL1 ENSG00000185924|ENST00000331238|RTN4RL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.37158203125 2 633.369861 1264.72517 4.0832 0.0025862 -1.0921 -0.00069171 2.9911 0.0018945 633.3691838395806 92.5 1.1702 93.147 92.609 93.779 0.64714 142 59 3 0 0 0 0.88721 1 42494 42494 2.9952 0 1 1329200 18261 5543 11642 11671 20957 20957 0.1033955510006308 LQNPKLTRPAQ 11 Unmodified _LQNPKLTRPAQ_ 0 0 0 ENSG00000164880|ENST00000404767|INTS1 ENSG00000164880|ENST00000404767|INTS1 ENSG00000164880|ENST00000404767|INTS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5827941894531 3 422.582333 1264.72517 NaN NaN NaN NaN NaN NaN NaN 91.648 1 91.9 91.4 92.4 0.25163 0 0 0 1.0074 1 42140 42140 0.36667 0.037403 1 18262 4351 11643 11672 20958 20958 0.10339555100085818 LQPERYELW 9 Unmodified _LQPERYELW_ 0 0 0 ENST00000589104.5_1_19:5070919-5151519:+|nuORF;nc|ENSG00000127663|O94953|KDM4B;ENSG00000127663|ENST00000159111|KDM4B;nc|ENSG00000127663|O94953-2|KDM4B ENST00000589104.5_1_19:5070919-5151519:+|nuORF ENST00000589104.5_1_19:5070919-5151519:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 617.3248291015625 2 617.316763 1232.61897 3.0227 0.0018659 -0.40607 -0.00025067 2.6166 0.0016153 617.3161761977118 59.749 0.26257 60.498 60.283 60.545 0.74927 39 19 3 0 0 0 0.078225 2 27416 27416;27445 38.176 17.722 1 2563200 18263 2489 11644 11673 20959;20960 20959 0.011967995347504257 LQPIAVAS 8 Unmodified _LQPIAVAS_ 0 0 0 ENSG00000138439|ENST00000392238|FAM117B ENSG00000138439|ENST00000392238|FAM117B ENSG00000138439|ENST00000392238|FAM117B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.73883056640625 2 399.739628 797.464704 NaN NaN NaN NaN NaN NaN NaN 81.425 1 81.594 81.094 82.094 0.16862 0 0 0 0.99035 1 40025 40025 4.756 0 1 18264 3092 11645 11674 20961 20961 0.05787014840041138 LQPIAVAS 8 Unmodified _LQPIAVAS_ 0 0 0 ENSG00000138439|ENST00000392238|FAM117B ENSG00000138439|ENST00000392238|FAM117B ENSG00000138439|ENST00000392238|FAM117B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.7391357421875 2 399.739628 797.464704 NaN NaN NaN NaN NaN NaN NaN 80.124 1 80.784 80.284 81.284 0.65998 0 0 0 0.99035 1 36919 36919 4.756 0 1 18265 3092 11645 11674 20962 20962 0.05787014840041138 LQPKLIRKKR 10 Unmodified _LQPKLIRKKR_ 0 0 0 REV__ENST00000479165.1_1_6:79650412-79665440:-|nuORF REV__ENST00000479165.1_1_6:79650412-79665440:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.4795532226562 2 640.437881 1278.86121 NaN NaN NaN NaN NaN NaN NaN 80.853 1 81.022 80.522 81.522 0.16862 0 0 0 1.0015 1 39657 39657 0.40072 0.050084 1 + 18266 12467 11646 11675 20963 20963 0.23293294401378262 LQPKMRWKLLG 11 Unmodified _LQPKMRWKLLG_ 0 0 0 REV__ENSG00000134516|ENST00000520908|DOCK2 REV__ENSG00000134516|ENST00000520908|DOCK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.6124572753906 3 457.276075 1368.8064 3.6054 0.0016487 0.78811 0.00036039 4.3935 0.0020091 457.2763255177037 99.697 0.20657 100.01 99.913 100.12 0.30835 20 10 3 0 0 0 0.91068 1 46076 46076 0.45452 0 1 3559000 + 18267 11966 11647 11676 20964 20964 0.13674539538487807 LQPKQFPFL 9 Unmodified _LQPKQFPFL_ 0 0 0 ENSG00000068654|ENST00000263857|POLR1A ENSG00000068654|ENST00000263857|POLR1A ENSG00000068654|ENST00000263857|POLR1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.3262939453125 2 559.32386 1116.63317 NaN NaN NaN NaN NaN NaN NaN 71.475 1 71.732 71.232 72.232 0.25786 0 0 0 0.52667 1 32742 32742 18.135 4.6271 1 18268 738 11648 11677 20965 20965 0.07951496753685205 LQPKQFPFL 9 Unmodified _LQPKQFPFL_ 0 0 0 ENSG00000068654|ENST00000263857|POLR1A ENSG00000068654|ENST00000263857|POLR1A ENSG00000068654|ENST00000263857|POLR1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.3238525390625 2 559.32386 1116.63317 NaN NaN NaN NaN NaN NaN NaN 70.887 1 71.549 71.049 72.049 0.66209 0 0 0 0.22092 1 32488 32488 30.225 8.6878 1 18269 738 11648 11677 20966 20966 0.07951496753685205 LQQLRRLRRLR 11 Unmodified _LQQLRRLRRLR_ 0 0 0 REV__ENST00000551099.5_1_12:113659271-113664634:+|nuORF REV__ENST00000551099.5_1_12:113659271-113664634:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 754.5385131835938 2 754.492042 1506.96953 NaN NaN NaN NaN NaN NaN NaN 99.125 1 99.424 98.924 99.924 0.29987 0 0 0 1.008 1 45758 45758 0.30703 0.30703 1 + 18270 17283 11649 11678 20967 20967 0.23632478704507776 LQQQTFKIRM 10 Unmodified _LQQQTFKIRM_ 0 0 0 RAD23A|p.V59Qfs*7|1|0.19|ENSG00000179262|chr19:12947948-12947955|ATGTCCCT/-|frameshift_variant;ENST00000588329.5_1_19:13056723-13059660:+|nuORF;nc|ENSG00000179262|P54725-2|RAD23A;nc|ENSG00000179262|P54725-3|RAD23A;ENSG00000179262|ENST00000586534|RAD23A RAD23A|p.V59Qfs*7|1|0.19|ENSG00000179262|chr19:12947948-12947955|ATGTCCCT/-|frameshift_variant RAD23A|p.V59Qfs*7|1|0.19|ENSG00000179262|chr19:12947948-12947955|ATGTCCCT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 646.8602905273438 2 646.860815 1291.70708 NaN NaN NaN NaN NaN NaN NaN 70.506 1 70.762 70.262 71.262 0.25642 0 0 0 1.0003 1 32290 32290 1.4819 0 1 18271 5207 11650 11679 20968 20968 0.0728909685369672 LQRFLRSR 8 Unmodified _LQRFLRSR_ 0 0 0 REV__ENST00000229812.7_1_6:36507941-36515235:-|nuORF REV__ENST00000229812.7_1_6:36507941-36515235:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.3294677734375 2 538.327799 1074.64105 1.9096 0.001028 -0.2354 -0.00012672 1.6742 0.00090127 538.3274671311444 97.418 0.24803 97.488 97.367 97.615 0.070656 68 33 3 0 0 0 0.72814 1 52094 52094 5.2307 0.47466 1 21527000 + 18272 14854 11651 11680 20969 20969 0.10671068793840277 LQRFLRSR 8 Unmodified _LQRFLRSR_ 0 0 0 REV__ENST00000229812.7_1_6:36507941-36515235:-|nuORF REV__ENST00000229812.7_1_6:36507941-36515235:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 538.327799 1074.64105 1.9096 0.001028 -0.2354 -0.00012672 1.6742 0.00090127 538.3274671311444 97.418 0.24803 97.488 97.367 97.615 0.070656 -0.18074 0.00060933 NaN 5.2307 68 33 3 NaN NaN NaN NaN 0 NaN NaN 0 21527000 + 18273 14854 11651 11680 0.10671068793840277 LQRGRPWS 8 Unmodified _LQRGRPWS_ 0 0 0 ENST00000461408.2_1_15:59041051-59041905:-|nuORF ENST00000461408.2_1_15:59041051-59041905:-|nuORF ENST00000461408.2_1_15:59041051-59041905:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.28045654296875 2 500.277775 998.540997 NaN NaN NaN NaN NaN NaN NaN 40.15 1 40.417 39.917 40.917 0.26696 0 0 0 0.94507 1 18268 18268 9.3474 0.75416 1 18274 8084 11652 11681 20970 20970 0.04166831460031517 LQRHHRLRKLL 11 Unmodified _LQRHHRLRKLL_ 0 0 0 ENST00000429770.5_2_3:50402382-50403264:-|nuORF;ENST00000483620.1_1_3:50402099-50403170:-|nuORF ENST00000429770.5_2_3:50402382-50403264:-|nuORF ENST00000429770.5_2_3:50402382-50403264:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 735.0761108398438 2 735.468035 1468.92152 NaN NaN NaN NaN NaN NaN NaN 77.585 1 78.146 77.646 78.646 0.56091 0 0 0 1.008 1 37626 37626 0.30703 0 1 18275 7837 11653 11682 20971 20971 0.20581404784479673 LQRHIHFLL 9 Unmodified _LQRHIHFLL_ 0 0 0 ENST00000395631.6_2_14:53339566-53339602:-|nuORF ENST00000395631.6_2_14:53339566-53339602:-|nuORF ENST00000395631.6_2_14:53339566-53339602:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 392.9064025878906 3 392.904859 1175.69275 2.7096 0.0010646 -0.34731 -0.00013646 2.3623 0.00092816 392.90495876019713 14.953 0.86415 15.26 15.045 15.91 0.3069 171 85 3 0 0 0 1.0601 1 6912 6912 2.9952 0.90923 1 268340 18276 7556 11654 11683 20972 20972 0.11192812487729498 LQRIAQLQL 9 Unmodified _LQRIAQLQL_ 0 0 0 nc|ENSG00000099917|Q96RN5-3|MED15;nc|ENSG00000099917|Q96RN5-2|MED15;ENSG00000099917|ENST00000263205|MED15;ENST00000492381.5_1_22:20909161-20940988:+|nuORF nc|ENSG00000099917|Q96RN5-3|MED15 nc|ENSG00000099917|Q96RN5-3|MED15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.8405151367188 2 541.837665 1081.66078 3.5105 0.0019021 1.3007 0.00070476 4.8112 0.0026069 541.8383597882753 13.448 0.17141 14.091 14.012 14.184 0.64272 20 11 2 0 0 0 0.26118 1 6041 6041 14.838 4.0143 1 118600 18277 1160 11655 11684 20973 20973 0.1232140001393418 LQRKRQNAL 9 Unmodified _LQRKRQNAL_ 0 0 0 REV__ENST00000471188.5_1_7:92887474-92887687:+|nuORF REV__ENST00000471188.5_1_7:92887474-92887687:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.2440490722656 3 376.231634 1125.67307 2.7764 0.0010446 -0.78483 -0.00029528 1.9916 0.0007493 376.23147399018006 26.382 0.3019 26.647 26.565 26.867 0.26489 31 23 2 0 0 0 0.75535 1 11994 11994 8.1555 0 1 194750 + 18278 10165 11656 11685 20974 20974 0.11526436476970048 LQRLGRTT 8 Unmodified _LQRLGRTT_ 0 0 0 REV__ENST00000389154.7_2_12:111893963-111895049:-|nuORF REV__ENST00000389154.7_2_12:111893963-111895049:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.7864685058594 2 472.785433 943.556313 3.7782 0.0017863 -0.261 -0.0001234 3.5172 0.0016629 472.78507620420186 98.635 0.1447 98.935 98.861 99.006 0.29987 15 11 2 0 0 0 0.74071 1 45478 45478 2.5775 0 1 1894200 + 18279 15907 11657 11686 20975 20975 0.08227698257212523 LQRLGRTT 8 Unmodified _LQRLGRTT_ 0 0 0 REV__ENST00000389154.7_2_12:111893963-111895049:-|nuORF REV__ENST00000389154.7_2_12:111893963-111895049:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 472.785433 943.556313 3.7782 0.0017863 -0.261 -0.0001234 3.5172 0.0016629 472.78507620420186 98.635 0.1447 98.935 98.861 99.006 0.29987 -0.02408 -0.00046184 NaN 2.5775 15 11 2 NaN NaN NaN NaN 0 NaN NaN 0 1894200 + 18280 15907 11657 11686 0.08227698257212523 LQRLGRTT 8 Unmodified _LQRLGRTT_ 0 0 0 REV__ENST00000389154.7_2_12:111893963-111895049:-|nuORF REV__ENST00000389154.7_2_12:111893963-111895049:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 472.785433 943.556313 3.2117 0.0015184 0.49736 0.00023515 3.7091 0.0017536 472.78535381623874 98.384 0.14679 98.983 98.914 99.061 0.59885 0.02408 0.00025525 NaN 2.5775 22 11 3 NaN NaN NaN NaN 0 NaN NaN 0 2780700 + 18281 15907 11657 11686 0.08227698257212523 LQRQKLQQL 9 Unmodified _LQRQKLQQL_ 0 0 0 nc|ENSG00000101280|Q9Y264-2|ANGPT4;ENSG00000101280|ENST00000381922|ANGPT4 nc|ENSG00000101280|Q9Y264-2|ANGPT4 nc|ENSG00000101280|Q9Y264-2|ANGPT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.855712890625 2 577.853847 1153.69314 NaN NaN NaN NaN NaN NaN NaN 42.774 1 43.421 42.921 43.921 0.64693 0 0 0 0.11997 1 19600 19600 37.974 5.6685 1 18282 1279 11658 11687 20976 20976 0.12244187416945351 LQRQLDRRVRL 11 Unmodified _LQRQLDRRVRL_ 0 0 0 REV__ENST00000421812.2_1_1:120165667-120165793:-|nuORF REV__ENST00000421812.2_1_1:120165667-120165793:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.9400634765625 3 484.967181 1451.87971 NaN NaN NaN NaN NaN NaN NaN 72.851 1 72.851 72.351 73.351 0 0 0 0 1.0072 1 35449 35449 1.3296 0.21989 1 + 18283 16180 11659 11688 20977 20977 0.17184804305293255 LQRRLDKKL 9 Unmodified _LQRRLDKKL_ 0 0 0 ENSG00000132740|ENST00000255078|IGHMBP2 ENSG00000132740|ENST00000255078|IGHMBP2 ENSG00000132740|ENST00000255078|IGHMBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.378173828125 2 585.377489 1168.74043 NaN NaN NaN NaN NaN NaN NaN 33.559 1 34.346 33.846 34.846 0.78795 0 0 0 0.91238 1 15188 15188 0.52476 0 1 18284 2724 11660 11689 20978 20978 0.1628046668793104 LQRRPGSR 8 Unmodified _LQRRPGSR_ 0 0 0 REV__nc|ENSG00000186638|Q5T7B8-3|KIF24 REV__nc|ENSG00000186638|Q5T7B8-3|KIF24 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.28875732421875 2 485.288674 968.562795 NaN NaN NaN NaN NaN NaN NaN 68.939 1 69.194 68.694 69.694 0.25443 0 0 0 0.99035 1 31580 31580 3.9444 1.3669 1 + 18285 14064 11661 11690 20979 20979 0.07725636208613196 LQRRRQLRRR 10 Unmodified _LQRRRQLRRR_ 0 0 0 REV__ENSG00000215612|ENST00000400677|HMX1 REV__ENSG00000215612|ENST00000400677|HMX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 719.55908203125 2 719.458533 1436.90251 NaN NaN NaN NaN NaN NaN NaN 107.49 1 107.54 107.04 108.04 0.045425 0 0 0 1.0015 1 58101 58101 0.40072 0.050084 1 + 18286 14527 11662 11691 20980 20980 0.20153868213401438 LQRRRQLRRRR 11 Unmodified _LQRRRQLRRRR_ 0 0 0 REV__ENSG00000215612|ENST00000400677|HMX1 REV__ENSG00000215612|ENST00000400677|HMX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.87060546875 3 532.008485 1593.00362 NaN NaN NaN NaN NaN NaN NaN 60.478 1 60.478 59.978 60.978 0 0 0 0 1.008 1 28092 28092 0.36667 0.28332 1 + 18287 14527 11663 11692 20981 20981 0.2308431991609723 LQRSARLAL 9 Unmodified _LQRSARLAL_ 0 0 0 AKIP1|p.C129Afs*4|1|0.31|ENSG00000166452|chr11:8914907-8914907|T/-|frameshift_variant;nc|ENSG00000166452|Q9NQ31-3|AKIP1;nc|ENSG00000166452|Q9NQ31-2|AKIP1;ENSG00000166452|ENST00000309377|AKIP1 AKIP1|p.C129Afs*4|1|0.31|ENSG00000166452|chr11:8914907-8914907|T/-|frameshift_variant AKIP1|p.C129Afs*4|1|0.31|ENSG00000166452|chr11:8914907-8914907|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.323486328125 2 514.322183 1026.62981 3.4281 0.0017632 -0.13291 -6.8358E-05 3.2952 0.0016948 514.3219870559113 29.776 0.28734 30.394 30.148 30.435 0.61789 28 16 2 0 0 0 0.75535 1 13629 13629 7.9102 2.1497 1 447270 18288 22 11664 11693 20982 20982 0.11756246699678741 LQRSGDEEKY 10 Unmodified _LQRSGDEEKY_ 0 0 0 nc|ENSG00000188312|Q6IPU0-2|CENPP nc|ENSG00000188312|Q6IPU0-2|CENPP nc|ENSG00000188312|Q6IPU0-2|CENPP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 612.85595703125 2 612.796392 1223.57823 NaN NaN NaN NaN NaN NaN NaN 88.901 1 89.579 89.079 90.079 0.67818 0 0 0 0.9952 1 40938 40938 5.7319 0.43497 1 18289 9790 11665 11694 20983 20983 -0.024615865755322375 LQRTFLQASY 10 Unmodified _LQRTFLQASY_ 0 0 0 ENSG00000006071|ENST00000389817|ABCC8;nc|ENSG00000006071|Q09428-2|ABCC8;nc|ENSG00000069431|O60706|ABCC9;ENSG00000069431|ENST00000261200|ABCC9 ENSG00000006071|ENST00000389817|ABCC8 ENSG00000006071|ENST00000389817|ABCC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.8280639648438 2 613.830037 1225.64552 NaN NaN NaN NaN NaN NaN NaN 90.317 1 90.569 90.069 91.069 0.25137 0 0 0 0.94673 1 41533 41533 13.906 3.0821 1 18290 341 11666 11695 20984 20984 0.04172488426070231 LQRVDFNFV 9 Unmodified _LQRVDFNFV_ 0 0 0 REV__ENSG00000064763|ENST00000536681|FAR2 REV__ENSG00000064763|ENST00000536681|FAR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.8617858886719 3 379.873224 1136.59784 2.3176 0.0008804 0.29515 0.00011212 2.6128 0.00099252 379.87331731342573 25.518 0.5991 26.281 26.107 26.706 0.76356 111 43 3 0 0 0 0.19413 1 11606 11606 23.79 7.2239 1 1057700 + 18291 10417 11667 11696 20985 20985 0.03500834225883409 LQVGLQLRNKN 11 Unmodified _LQVGLQLRNKN_ 0 0 0 REV__nc|ENSG00000171502|Q17RW2-2|COL24A1 REV__nc|ENSG00000171502|Q17RW2-2|COL24A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.8825073242188 2 641.883136 1281.75172 4.131 0.0026516 -0.40254 -0.00025838 3.7284 0.0023932 641.8826889380277 89.752 0.99398 90.004 89.517 90.511 0.25137 91 45 3 0 0 0 0.91111 1 41157 41157 1.1933 0 1 954720 + 18292 13500 11668 11697 20986 20986 0.12211243991396259 LQVKKKKKKKF 11 Unmodified _LQVKKKKKKKF_ 0 0 0 REV__ENST00000527958.5_1_11:117041336-117041564:+|nuORF REV__ENST00000527958.5_1_11:117041336-117041564:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 702.4249267578125 2 701.984664 1401.95478 NaN NaN NaN NaN NaN NaN NaN 57.749 1 58.517 58.017 59.017 0.76861 0 0 0 1.0082 1 26464 26464 0 0 1 + 18293 17110 11669 11698 20987 20987 0.26987593783792363 LQVLHLYWGYY 11 Unmodified _LQVLHLYWGYY_ 0 0 0 ENSG00000154227|ENST00000679737|CERS3 ENSG00000154227|ENST00000679737|CERS3 ENSG00000154227|ENST00000679737|CERS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 727.8764038085938 2 727.876988 1453.73942 NaN NaN NaN NaN NaN NaN NaN 42.214 1 42.484 41.984 42.984 0.27021 0 0 0 1.008 1 19251 19251 0.35063 0 1 18294 3810 11670 11699 20988 20988 0.030702075283670638 LQVVLSPL 8 Unmodified _LQVVLSPL_ 0 0 0 REV__ENSG00000260903|ENST00000562532|XKR7 REV__ENSG00000260903|ENST00000562532|XKR7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.78082275390625 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 50.548 1 50.81 50.31 51.31 0.26146 0 0 0 0.99035 1 23104 23104 2.5775 0 1 + 18295 14689 11671 11700 20989 20989 0.10388447425293634 LQWLLLEPV 9 Unmodified _LQWLLLEPV_ 0 0 0 REV__ENSG00000170075|ENST00000367282|GPR37L1 REV__ENSG00000170075|ENST00000367282|GPR37L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.8179931640625 2 555.831517 1109.64848 NaN NaN NaN NaN NaN NaN NaN 94.765 1 94.765 94.265 95.265 0 0 0 0 0.86044 1 50913 50913 7.2892 0.18751 1 + 18296 13420 11672 11701 20990 20990 0.09804363550892958 LQWLRRRWWRR 11 Unmodified _LQWLRRRWWRR_ 0 0 0 REV__ENST00000284971.7_1_21:27102007-27107256:-|nuORF REV__ENST00000284971.7_1_21:27102007-27107256:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 856.4966430664062 2 856.497659 1710.98076 NaN NaN NaN NaN NaN NaN NaN 87.989 1 88.029 87.529 88.529 0.039955 0 0 0 1.0082 1 44706 44706 0 0 1 + 18297 15106 11673 11702 20991 20991 0.1537130079864255 LQYEQESYVPV 11 Unmodified _LQYEQESYVPV_ 0 0 0 REV__ENSG00000178028|ENST00000372289|DMAP1 REV__ENSG00000178028|ENST00000372289|DMAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.82958984375 2 677.8299 1353.64525 NaN NaN NaN NaN NaN NaN NaN 107.27 1 107.32 106.82 107.82 0.045425 0 0 0 1.0057 1 57994 57994 3.2813 0 1 + 18298 13749 11674 11703 20992 20992 -0.017429760844379416 LQYKKHIPHFL 11 Unmodified _LQYKKHIPHFL_ 0 0 0 REV__SMC1B|p.C523F|1|0.27|ENSG00000077935|chr22:45389875-45389875|C/A|missense_variant REV__SMC1B|p.C523F|1|0.27|ENSG00000077935|chr22:45389875-45389875|C/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 356.7110900878906 4 356.710674 1422.81359 2.4872 0.00088719 0.065712 2.344E-05 2.5529 0.00091063 356.9614538070859 62.627 0.382 62.877 62.75 63.132 0.24965 109 50 3 0 0 0 0.91328 1 28665 28665 0.50596 0.051438 1 11710000 + 18299 18213 11675 11704 20993 20993 0.11909595410565998 LQYKKSYDDA 10 Unmodified _LQYKKSYDDA_ 0 0 0 ENSG00000077097|ENST00000264331|TOP2B;nc|ENSG00000077097|Q02880-2|TOP2B;ENST00000491510.1_1_3:25668659-25671642:-|nuORF ENSG00000077097|ENST00000264331|TOP2B ENSG00000077097|ENST00000264331|TOP2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.037109375 2 615.803685 1229.59282 NaN NaN NaN NaN NaN NaN NaN 82.842 1 82.887 82.387 83.387 0.045006 0 0 0 0.99812 1 40968 40968 3.2813 0 1 18300 855 11676 11705 20994 20994 -0.012795144273695769 LRAAQPPL 8 Unmodified _LRAAQPPL_ 0 0 0 REV__ENST00000535479.5_1_12:7086310-7087113:-|nuORF REV__ENST00000535479.5_1_12:7086310-7087113:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 433.26776123046875 2 433.266345 864.518136 3.3902 0.0014689 -0.57375 -0.00024859 2.8164 0.0012203 433.2660366463801 12.495 0.17692 13.138 13.067 13.244 0.64272 10 5 3 0 0 0 0.5438 1 5636 5636 18.135 0 1 5598700 + 18301 17175 11677 11706 20995 20995 0.08045812342561476 LRAFSNTE 8 Unmodified _LRAFSNTE_ 0 0 0 ENST00000523223.1_1_5:170679154-170679559:+|nuORF ENST00000523223.1_1_5:170679154-170679559:+|nuORF ENST00000523223.1_1_5:170679154-170679559:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 313.20458984375 3 313.162775 936.466495 NaN NaN NaN NaN NaN NaN NaN 59.659 1 59.919 59.419 60.419 0.2593 0 0 0 0.99035 1 27319 27319 1.4819 0 1 18302 8655 11678 11707 20996 20996 -0.00427976141986619 LRAILHFIVP 10 Unmodified _LRAILHFIVP_ 0 0 0 LRRK2|p.I1533Sfs*15|1|0.16|ENSG00000188906|chr12:40314027-40314027|A/-|frameshift_variant;ENSG00000188906|ENST00000298910|LRRK2 LRRK2|p.I1533Sfs*15|1|0.16|ENSG00000188906|chr12:40314027-40314027|A/-|frameshift_variant LRRK2|p.I1533Sfs*15|1|0.16|ENSG00000188906|chr12:40314027-40314027|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.58697509765625 3 393.585126 1177.73355 3.0664 0.0012069 1.2203 0.00048029 4.2867 0.0016872 393.58561561969424 40.649 0.2229 41.291 41.268 41.491 0.64136 19 13 2 0 0 0 0.91298 2 18594 18594;18649 3.0723 0.98626 1 612760 18303 5690 11679 11708 20997;20998 20997 0.15179153807343937 LRAINQRLL 9 Unmodified _LRAINQRLL_ 0 0 0 nc|ENSG00000103313|O15553-3|MEFV;nc|ENSG00000103313|O15553-1|MEFV;ENSG00000103313|ENST00000219596|MEFV nc|ENSG00000103313|O15553-3|MEFV nc|ENSG00000103313|O15553-3|MEFV MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.849365234375 2 548.851107 1095.68766 NaN NaN NaN NaN NaN NaN NaN 83.99 1 83.99 83.49 84.49 0 0 0 0 0.86044 1 42418 42418 7.2892 0.56607 1 18304 1390 11680 11709 20999 20999 0.14364508625135386 LRAKREQEV 9 Unmodified _LRAKREQEV_ 0 0 0 nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11 nc|ENSG00000133392|P35749-4|MYH11 nc|ENSG00000133392|P35749-4|MYH11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.830322265625 2 564.827829 1127.64111 3.5934 0.0020297 0.71486 0.00040377 4.3083 0.0024334 564.8282490767342 16.924 0.94013 17.585 16.906 17.846 0.66072 128 87 2 0 0 0 1.0894 1 7539 7539 1.8442 0 1 235650 18305 2759 11681 11710 21000 21000 0.08239024003182749 LRALNALLQ 9 Unmodified _LRALNALLQ_ 0 0 0 REV__ENST00000460899.5_1_10:76994802-76995157:-|nuORF REV__ENST00000460899.5_1_10:76994802-76995157:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.3189392089844 2 506.319109 1010.62366 NaN NaN NaN NaN NaN NaN NaN 58.614 1 59.373 58.873 59.873 0.75894 0 0 0 0.87786 1 26892 26892 6.7232 0.51738 1 + 18306 13174 11682 11711 21001 21001 0.11877728468175519 LRARNHRWL 9 Unmodified _LRARNHRWL_ 0 0 0 ENST00000228284.7_1_12:108917047-108917161:-|nuORF ENST00000228284.7_1_12:108917047-108917161:-|nuORF ENST00000228284.7_1_12:108917047-108917161:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.3575439453125 2 611.357422 1220.70029 NaN NaN NaN NaN NaN NaN NaN 103.85 1 104.45 103.95 104.95 0.59821 0 0 0 0.91238 1 48031 48031 0.52476 0 1 18307 6433 11683 11712 21002 21002 0.09876964808040611 LRAVIDKRAK 10 Unmodified _LRAVIDKRAK_ 0 0 0 REV__nc|ENSG00000115677|Q00341-2|HDLBP REV__nc|ENSG00000115677|Q00341-2|HDLBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 390.58868408203125 3 390.587418 1168.74043 2.557 0.00099873 0.011742 4.5861E-06 2.5687 0.0010033 390.58750089940395 14.765 0.3842 14.991 14.802 15.186 0.22622 71 27 3 0 0 0 0.68517 1 6456 6456 8.4443 0 1 883250 + 18308 11380 11684 11713 21003 21003 0.1628046668793104 LRCVRLLRIFK 11 Unmodified _LRCVRLLRIFK_ 0 0 0 nc|ENSG00000151067|Q13936-2|CACNA1C;nc|ENSG00000151067|Q13936-6|CACNA1C;nc|ENSG00000151067|Q13936-34|CACNA1C;nc|ENSG00000151067|Q13936-28|CACNA1C;nc|ENSG00000151067|Q13936-36|CACNA1C;nc|ENSG00000151067|Q13936-33|CACNA1C;nc|ENSG00000151067|Q13936-14|CACNA1C;nc|ENSG00000151067|Q13936-18|CACNA1C;nc|ENSG00000151067|Q13936-11|CACNA1C;nc|ENSG00000151067|Q13936-5|CACNA1C;ENSG00000151067|ENST00000399655|CACNA1C;nc|ENSG00000151067|Q13936-17|CACNA1C;nc|ENSG00000151067|Q13936-4|CACNA1C;nc|ENSG00000151067|Q13936-8|CACNA1C;nc|ENSG00000151067|Q13936|CACNA1C;nc|ENSG00000151067|Q13936-3|CACNA1C;nc|ENSG00000151067|Q13936-9|CACNA1C;nc|ENSG00000151067|Q13936-10|CACNA1C;nc|ENSG00000151067|Q13936-31|CACNA1C;nc|ENSG00000151067|Q13936-30|CACNA1C;nc|ENSG00000151067|Q13936-13|CACNA1C;nc|ENSG00000151067|Q13936-27|CACNA1C;nc|ENSG00000151067|Q13936-24|CACNA1C;nc|ENSG00000151067|Q13936-19|CACNA1C;nc|ENSG00000151067|Q13936-35|CACNA1C;nc|ENSG00000151067|Q13936-20|CACNA1C;nc|ENSG00000151067|Q13936-21|CACNA1C;nc|ENSG00000151067|Q13936-22|CACNA1C;nc|ENSG00000151067|Q13936-23|CACNA1C;nc|ENSG00000151067|Q13936-37|CACNA1C;nc|ENSG00000151067|Q13936-7|CACNA1C;nc|ENSG00000151067|Q13936-26|CACNA1C;nc|ENSG00000151067|Q13936-15|CACNA1C;nc|ENSG00000151067|Q13936-16|CACNA1C;nc|ENSG00000151067|Q13936-29|CACNA1C;nc|ENSG00000151067|Q13936-25|CACNA1C;nc|ENSG00000151067|Q13936-32|CACNA1C;CACNA1C|p.V939Ffs*12|1|0.13|ENSG00000151067|chr12:2597251-2597251|G/-|frameshift_variant;nc|ENSG00000102001|O60840-4|CACNA1F;nc|ENSG00000102001|O60840-5|CACNA1F;nc|ENSG00000102001|O60840-7|CACNA1F;nc|ENSG00000102001|O60840-6|CACNA1F;ENSG00000102001|ENST00000323022|CACNA1F;nc|ENSG00000102001|O60840|CACNA1F nc|ENSG00000151067|Q13936-2|CACNA1C;nc|ENSG00000102001|O60840-4|CACNA1F nc|ENSG00000151067|Q13936-2|CACNA1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.97314453125 3 472.970986 1415.89113 2.9064 0.0013746 0.63446 0.00030008 3.5408 0.0016747 472.97125014861945 50.079 0.39628 50.341 50.223 50.619 0.26146 27 14 2 0 0 0 0.91459 1 22956 22956 0.094841 0 1 3774200 18309 3689;9577 11685 11714 21004 21004 0.19981910075080123 LRCVRLLRIFK 11 Unmodified _LRCVRLLRIFK_ 0 0 0 nc|ENSG00000151067|Q13936-2|CACNA1C;nc|ENSG00000151067|Q13936-6|CACNA1C;nc|ENSG00000151067|Q13936-34|CACNA1C;nc|ENSG00000151067|Q13936-28|CACNA1C;nc|ENSG00000151067|Q13936-36|CACNA1C;nc|ENSG00000151067|Q13936-33|CACNA1C;nc|ENSG00000151067|Q13936-14|CACNA1C;nc|ENSG00000151067|Q13936-18|CACNA1C;nc|ENSG00000151067|Q13936-11|CACNA1C;nc|ENSG00000151067|Q13936-5|CACNA1C;ENSG00000151067|ENST00000399655|CACNA1C;nc|ENSG00000151067|Q13936-17|CACNA1C;nc|ENSG00000151067|Q13936-4|CACNA1C;nc|ENSG00000151067|Q13936-8|CACNA1C;nc|ENSG00000151067|Q13936|CACNA1C;nc|ENSG00000151067|Q13936-3|CACNA1C;nc|ENSG00000151067|Q13936-9|CACNA1C;nc|ENSG00000151067|Q13936-10|CACNA1C;nc|ENSG00000151067|Q13936-31|CACNA1C;nc|ENSG00000151067|Q13936-30|CACNA1C;nc|ENSG00000151067|Q13936-13|CACNA1C;nc|ENSG00000151067|Q13936-27|CACNA1C;nc|ENSG00000151067|Q13936-24|CACNA1C;nc|ENSG00000151067|Q13936-19|CACNA1C;nc|ENSG00000151067|Q13936-35|CACNA1C;nc|ENSG00000151067|Q13936-20|CACNA1C;nc|ENSG00000151067|Q13936-21|CACNA1C;nc|ENSG00000151067|Q13936-22|CACNA1C;nc|ENSG00000151067|Q13936-23|CACNA1C;nc|ENSG00000151067|Q13936-37|CACNA1C;nc|ENSG00000151067|Q13936-7|CACNA1C;nc|ENSG00000151067|Q13936-26|CACNA1C;nc|ENSG00000151067|Q13936-15|CACNA1C;nc|ENSG00000151067|Q13936-16|CACNA1C;nc|ENSG00000151067|Q13936-29|CACNA1C;nc|ENSG00000151067|Q13936-25|CACNA1C;nc|ENSG00000151067|Q13936-32|CACNA1C;CACNA1C|p.V939Ffs*12|1|0.13|ENSG00000151067|chr12:2597251-2597251|G/-|frameshift_variant;nc|ENSG00000102001|O60840-4|CACNA1F;nc|ENSG00000102001|O60840-5|CACNA1F;nc|ENSG00000102001|O60840-7|CACNA1F;nc|ENSG00000102001|O60840-6|CACNA1F;ENSG00000102001|ENST00000323022|CACNA1F;nc|ENSG00000102001|O60840|CACNA1F nc|ENSG00000151067|Q13936-2|CACNA1C;nc|ENSG00000102001|O60840-4|CACNA1F nc|ENSG00000151067|Q13936-2|CACNA1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.3068542480469 3 472.970986 1415.89113 3.0562 0.0014455 0.60287 0.00028514 3.659 0.0017306 472.97125128551284 49.419 0.70016 50.074 49.734 50.434 0.65524 34 24 2 0 0 0 0.91459 1 22671 22671 0.094841 0 1 2959100 18310 3689;9577 11685 11714 21005 21005 0.19981910075080123 LRCVVPAR 8 Unmodified _LRCVVPAR_ 0 0 0 ENST00000462742.1_1_21:45751724-45754149:-|nuORF ENST00000462742.1_1_21:45751724-45754149:-|nuORF ENST00000462742.1_1_21:45751724-45754149:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.18511962890625 3 305.184857 912.532741 2.2888 0.00069851 -1.1657 -0.00035577 1.1231 0.00034275 305.18438789061526 49.281 0.42538 49.543 49.329 49.755 0.26146 38 15 4 0 0 0 0.1432 1 22531 22531 0.35063 0.35063 1 2957600 18311 8096 11686 11715 21006 21006 0.07297561219047566 LRCVVPAR 8 Unmodified _LRCVVPAR_ 0 0 0 ENST00000462742.1_1_21:45751724-45754149:-|nuORF ENST00000462742.1_1_21:45751724-45754149:-|nuORF ENST00000462742.1_1_21:45751724-45754149:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 305.184857 912.532741 1.8957 0.00057855 -1.4953 -0.00045636 0.40037 0.00012219 305.18434739917456 49.559 0.34116 49.559 49.394 49.735 0 -0.16707 4.8725E-05 NaN 0.35063 32 13 3 NaN NaN NaN NaN 0 NaN NaN 0 2515100 18312 8096 11686 11715 0.07297561219047566 LRCVVPAR 8 Unmodified _LRCVVPAR_ 0 0 0 ENST00000462742.1_1_21:45751724-45754149:-|nuORF ENST00000462742.1_1_21:45751724-45754149:-|nuORF ENST00000462742.1_1_21:45751724-45754149:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 305.184857 912.532741 2.32 0.00070804 -2.1652 -0.00066079 0.1548 4.7244E-05 305.1841346789313 49.108 0.58212 49.935 49.741 50.323 0.82705 0.20872 -0.00056459 NaN 0.35063 72 28 3 NaN NaN NaN NaN 0 NaN NaN 0 3077300 18313 8096 11686 11715 0.07297561219047566 LRCVVPAR 8 Unmodified _LRCVVPAR_ 0 0 0 ENST00000462742.1_1_21:45751724-45754149:-|nuORF ENST00000462742.1_1_21:45751724-45754149:-|nuORF ENST00000462742.1_1_21:45751724-45754149:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 305.184857 912.532741 2.2031 0.00067234 -1.2308 -0.00037564 0.97221 0.0002967 305.18443026752055 49.212 0.54165 49.868 49.734 50.275 0.65524 0.14164 0.00029089 NaN 0.35063 40 18 3 NaN NaN NaN NaN 0 NaN NaN 0 5264900 18314 8096 11686 11715 0.07297561219047566 LRDRAGAAL 9 Unmodified _LRDRAGAAL_ 0 0 0 nc|ENSG00000177943|Q6UXC1-3|MAMDC4;ENSG00000177943|ENST00000317446|MAMDC4;nc|ENSG00000177943|Q6UXC1|MAMDC4 nc|ENSG00000177943|Q6UXC1-3|MAMDC4 nc|ENSG00000177943|Q6UXC1-3|MAMDC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.8551025390625 3 314.854164 941.540663 2.0552 0.0006471 0.50731 0.00015973 2.5626 0.00080683 314.85430965080485 14.973 0.56198 15.28 15.045 15.607 0.3069 151 55 4 0 0 0 0.071101 1 6746 6746 36.506 0 1 852960 18315 5142 11688 11716 21007 21007 0.06755411740175532 LRDRGLFAL 9 Unmodified _LRDRGLFAL_ 0 0 0 ENST00000367922.7_1_1:162750048-162750228:+|nuORF ENST00000367922.7_1_1:162750048-162750228:+|nuORF ENST00000367922.7_1_1:162750048-162750228:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.8193359375 2 530.816733 1059.61891 3.3088 0.0017564 0.019387 1.0291E-05 3.3282 0.0017667 530.8167005146216 36.87 0.32175 37.5 37.303 37.625 0.62999 23 12 2 0 0 0 0.59776 1 16898 16898 10.824 0 1 676900 18316 7271 11689 11717 21008 21008 0.09148844325432037 LRDTKGFSL 9 Unmodified _LRDTKGFSL_ 0 0 0 nc|ENSG00000149636|Q9H410-3|DSN1;nc|ENSG00000149636|Q9H410-2|DSN1;nc|ENSG00000149636|Q9H410-4|DSN1;ENSG00000149636|ENST00000373750|DSN1 nc|ENSG00000149636|Q9H410-3|DSN1 nc|ENSG00000149636|Q9H410-3|DSN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.794189453125 2 518.792924 1035.57129 3.3749 0.0017509 -0.86328 -0.00044786 2.5116 0.001303 518.7925937092457 45.607 0.26092 46.433 46.297 46.558 0.82621 25 14 2 0 0 0 0.30982 1 20823 20823 16.149 0 1 801300 18317 3651 11690 11718 21009 21009 0.05493145334571636 LREEMRTYQYR 11 Unmodified _LREEMRTYQYR_ 0 0 0 ENST00000514667.1_1_5:130940379-131080327:-|nuORF;ENST00000307954.12_1_5:131055067-131080342:-|nuORF;ENST00000510461.5_1_5:131066679-131080342:-|nuORF ENST00000514667.1_1_5:130940379-131080327:-|nuORF ENST00000514667.1_1_5:130940379-131080327:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.594970703125 3 515.592792 1543.75655 NaN NaN NaN NaN NaN NaN NaN 60.73 1 60.73 60.23 61.23 0 0 0 0 1.0082 1 28259 28259 0.094841 0 1 18318 6847 11691 11719 21010 21010 0.006417600718805261 LREKVEFL 8 Unmodified _LREKVEFL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.20745849609375 3 345.206203 1032.59678 2.4985 0.0008625 1.0486 0.00036198 3.5471 0.0012245 345.20663813514807 35.989 0.41193 36.615 36.317 36.729 0.62631 25 14 3 0 0 0 0.17473 1 16489 16489 38.615 11.392 1 1720100 18319 931 11692 11720 21011 21011 0.08178619856994374 LREKWHFIRWL 11 Unmodified _LREKWHFIRWL_ 0 0 0 REV__ENST00000360566.6_1_2:10269382-10269442:+|nuORF REV__ENST00000360566.6_1_2:10269382-10269442:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.6344604492188 3 528.636772 1582.88849 NaN NaN NaN NaN NaN NaN NaN 45.847 1 46.673 46.173 47.173 0.82621 0 0 0 1.0079 1 20877 20877 0.50596 0.41111 1 + 18320 15613 11693 11721 21012 21012 0.12035777941787273 LRELKKKLFKR 11 Unmodified _LRELKKKLFKR_ 0 0 0 ENST00000354588.7_1_11:62430524-62435168:-|nuORF ENST00000354588.7_1_11:62430524-62435168:-|nuORF ENST00000354588.7_1_11:62430524-62435168:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 729.9417114257812 2 729.985195 1457.95584 NaN NaN NaN NaN NaN NaN NaN 91.797 1 91.797 91.297 92.297 0 0 0 0 1.0082 1 48599 48599 0 0 1 18321 7144 11694 11722 21013 21013 0.24517808152700127 LRELLFHV 8 Unmodified _LRELLFHV_ 0 0 0 REV__ENSG00000135966|ENST00000393359|TGFBRAP1 REV__ENSG00000135966|ENST00000393359|TGFBRAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.87591552734375 3 342.874677 1025.6022 2.3998 0.00082282 1.0162 0.00034842 3.4159 0.0011712 342.8750213262062 49.146 0.36454 49.973 49.722 50.087 0.82705 57 18 4 0 0 0 0.70799 1 22400 22400 3.5965 0 1 3378900 + 18322 12051 11695 11723 21014 21014 0.09042343439477918 LRELLFHV 8 Unmodified _LRELLFHV_ 0 0 0 REV__ENSG00000135966|ENST00000393359|TGFBRAP1 REV__ENSG00000135966|ENST00000393359|TGFBRAP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 342.874677 1025.6022 2.3376 0.0008015 1.3586 0.00046582 3.6962 0.0012673 342.8751408698817 50.16 0.33264 50.16 49.912 50.245 0 0.064866 -9.6473E-05 NaN 3.5965 47 17 3 NaN NaN NaN NaN 0 NaN NaN 0 5248400 + 18323 12051 11695 11723 0.09042343439477918 LRELLFHV 8 Unmodified _LRELLFHV_ 0 0 0 REV__ENSG00000135966|ENST00000393359|TGFBRAP1 REV__ENSG00000135966|ENST00000393359|TGFBRAP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 342.874677 1025.6022 2.3998 0.00082282 1.0162 0.00034842 3.4159 0.0011712 342.8750213262062 49.146 0.36454 49.973 49.722 50.087 0.82705 -0.12192 -0.00044869 NaN 3.5965 57 18 4 NaN NaN NaN NaN 0 NaN NaN 0 3378900 + 18324 12051 11695 11723 0.09042343439477918 LRELLFHV 8 Unmodified _LRELLFHV_ 0 0 0 REV__ENSG00000135966|ENST00000393359|TGFBRAP1 REV__ENSG00000135966|ENST00000393359|TGFBRAP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 342.874677 1025.6022 2.4853 0.00085216 1.7055 0.00058476 4.1908 0.0014369 342.87524625950994 49.828 0.35329 50.09 49.839 50.193 0.26146 -0.0051787 0.00026034 NaN 3.5965 47 14 4 NaN NaN NaN NaN 0 NaN NaN 0 5647600 + 18325 12051 11695 11723 0.09042343439477918 LRELLFHV 8 Unmodified _LRELLFHV_ 0 0 0 REV__ENSG00000135966|ENST00000393359|TGFBRAP1 REV__ENSG00000135966|ENST00000393359|TGFBRAP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 342.874677 1025.6022 2.4117 0.0008269 1.6049 0.00055027 4.0165 0.0013772 342.87516123211884 49.501 0.99322 50.157 49.734 50.727 0.65561 0.062233 0.00015688 NaN 3.5965 111 36 4 NaN NaN NaN NaN 0 NaN NaN 0 11562000 + 18326 12051 11695 11723 0.09042343439477918 LRELPVDSL 9 Unmodified _LRELPVDSL_ 0 0 0 ENST00000497639.5_1_10:69644980-69647288:+|nuORF ENST00000497639.5_1_10:69644980-69647288:+|nuORF ENST00000497639.5_1_10:69644980-69647288:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.302978515625 2 521.300581 1040.58661 3.4185 0.0017821 -0.87821 -0.00045781 2.5403 0.0013242 521.3007773904193 35.339 0.41428 35.965 35.685 36.099 0.62631 23 14 3 0 0 0 0.044468 1 16202 16202 49.554 7.5987 1 484380 18327 8455 11696 11724 21015 21015 0.06794012131740601 LRELRGSVL 9 Unmodified _LRELRGSVL_ 0 0 0 ENST00000578804.5_2_17:62501906-62501942:-|nuORF ENST00000578804.5_2_17:62501906-62501942:-|nuORF ENST00000578804.5_2_17:62501906-62501942:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.2179870605469 3 348.217102 1041.62948 NaN NaN NaN NaN NaN NaN NaN 29.344 1 29.604 29.104 30.104 0.2602 0 0 0 0.79105 1 13353 13353 9.544 1.0997 1 18328 9139 11697 11725 21016 21016 0.11032826979840138 LRELSLWLDPL 11 Unmodified _LRELSLWLDPL_ 0 0 0 ENST00000546652.6_2_12:53848615-53849765:+|nuORF ENST00000546652.6_2_12:53848615-53849765:+|nuORF ENST00000546652.6_2_12:53848615-53849765:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.4499816894531 4 339.448686 1353.76564 2.6442 0.00089758 0.80801 0.00027428 3.4522 0.0011719 339.44890316869265 66.707 0.44637 66.957 66.831 67.277 0.2501 60 25 3 0 0 0 0.904 1 30592 30592 2.2527 0.92309 1 1287200 18329 8847 11698 11726 21017 21017 0.10290476699856299 LRELSLWLDPL 11 Unmodified _LRELSLWLDPL_ 0 0 0 ENST00000546652.6_2_12:53848615-53849765:+|nuORF ENST00000546652.6_2_12:53848615-53849765:+|nuORF ENST00000546652.6_2_12:53848615-53849765:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 452.2636413574219 3 452.262489 1353.76564 3.1156 0.001409 1.132 0.00051198 4.2476 0.001921 452.26282407855814 66.155 0.3876 66.812 66.577 66.965 0.65672 31 23 2 0 0 0 0.86186 1 30346 30346 4.1166 1.6818 1 400590 18330 8847 11698 11726 21018 21018 0.10290476699856299 LRERAADSD 9 Unmodified _LRERAADSD_ 0 0 0 ENST00000379983.6_1_15:70959504-70959603:-|nuORF ENST00000379983.6_1_15:70959504-70959603:-|nuORF ENST00000379983.6_1_15:70959504-70959603:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.755126953125 2 516.757069 1031.49959 NaN NaN NaN NaN NaN NaN NaN 96.145 1 96.145 95.645 96.645 0 0 0 0 0.77475 1 51955 51955 10.074 0 1 18331 7460 11699 11727 21019 21019 -0.01490394089955771 LRERPHLRGRW 11 Unmodified _LRERPHLRGRW_ 0 0 0 REV__ENST00000359518.7_1_11:6486953-6494439:-|nuORF REV__ENST00000359518.7_1_11:6486953-6494439:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.6215515136719 3 492.620004 1474.83818 3.5916 0.0017693 -0.21336 -0.0001051 3.3782 0.0016642 492.6199658348165 4.3274 0.44902 4.9499 4.7309 5.18 0.62252 51 37 3 0 0 0 0.91459 1 1889 1889 0.094841 0 1 59459 + 18332 15598 11700 11728 21020 21020 0.11975668336594936 LRERRNYRRRR 11 Unmodified _LRERRNYRRRR_ 0 0 0 ENST00000371361.3_1_10:96112804-96114802:-|nuORF ENST00000371361.3_1_10:96112804-96114802:-|nuORF ENST00000371361.3_1_10:96112804-96114802:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 815.984375 2 815.982904 1629.95125 NaN NaN NaN NaN NaN NaN NaN 82.675 1 82.72 82.22 83.22 0.045006 0 0 0 1.008 1 40857 40857 0.26902 0.26902 1 18333 7318 11701 11729 21021 21021 0.16147736782500033 LREVMLRKKH 10 Unmodified _LREVMLRKKH_ 0 0 0 REV__nc|ENSG00000136153|Q8WWI1-5|LMO7 REV__nc|ENSG00000136153|Q8WWI1-5|LMO7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 655.4004516601562 2 655.397899 1308.78124 3.6689 0.0024046 0.73264 0.00048017 4.4015 0.0028848 655.3982104035153 49.339 0.91315 49.339 49.078 49.991 0 90 41 3 0 0 0 0.93658 1 22754 22754 1.3295 0.13619 1 2065300 + 18334 12065 11702 11730 21022 21022 0.13920484735899663 LREVMLRKKH 10 Unmodified _LREVMLRKKH_ 0 0 0 REV__nc|ENSG00000136153|Q8WWI1-5|LMO7 REV__nc|ENSG00000136153|Q8WWI1-5|LMO7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 655.400634765625 2 655.397899 1308.78124 4.0827 0.0026758 -0.0070129 -4.5962E-06 4.0757 0.0026712 655.8992669089951 48.511 0.28716 49.166 48.939 49.227 0.65524 18 11 2 0 0 0 0.94165 1 22138 22138 1.3295 0.80477 1 633080 + 18335 12065 11702 11730 21023 21023 0.13920484735899663 LRFEIWFRRRR 11 Unmodified _LRFEIWFRRRR_ 0 0 0 ENSG00000153404|ENST00000637938|PLEKHG4B;ENST00000504041.1_1_5:169407-179718:+|nuORF ENSG00000153404|ENST00000637938|PLEKHG4B ENSG00000153404|ENST00000637938|PLEKHG4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.6578979492188 3 545.654937 1633.94298 NaN NaN NaN NaN NaN NaN NaN 21.268 1 21.268 20.768 21.768 0 0 0 0 1.0082 1 9520 9520 0 0 1 18336 3787 11703 11731 21024 21024 0.15136789813163887 LRFEIWFRRRR 11 Unmodified _LRFEIWFRRRR_ 0 0 0 ENSG00000153404|ENST00000637938|PLEKHG4B;ENST00000504041.1_1_5:169407-179718:+|nuORF ENSG00000153404|ENST00000637938|PLEKHG4B ENSG00000153404|ENST00000637938|PLEKHG4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 817.5137329101562 2 817.978767 1633.94298 NaN NaN NaN NaN NaN NaN NaN 105.42 1 105.47 104.97 105.97 0.050888 0 0 0 1.0082 1 57031 57031 0 0 1 18337 3787 11703 11731 21025 21025 0.15136789813163887 LRFFLATYF 9 Unmodified _LRFFLATYF_ 0 0 0 ENST00000539542.5_2_5:118485906-118486047:+|nuORF ENST00000539542.5_2_5:118485906-118486047:+|nuORF ENST00000539542.5_2_5:118485906-118486047:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.3525390625 2 589.32386 1176.63317 NaN NaN NaN NaN NaN NaN NaN 57.003 1 57.003 56.503 57.503 0 0 0 0 0.89509 1 26259 26259 4.756 0.81161 1 18338 8793 11704 11732 21026 21026 0.05191496753695901 LRFGFKKITPV 11 Unmodified _LRFGFKKITPV_ 0 0 0 ENSG00000187775|ENST00000389840|DNAH17;ENST00000586052.5_1_17:76475094-76487566:-|nuORF ENSG00000187775|ENST00000389840|DNAH17 ENSG00000187775|ENST00000389840|DNAH17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 435.9384460449219 3 435.939569 1304.79688 NaN NaN NaN NaN NaN NaN NaN 27.844 1 28.631 28.131 29.131 0.78627 0 0 0 1.0075 1 12528 12528 1.0136 0.55906 1 18339 5635 11705 11733 21027 21027 0.15667094524565073 LRFIIWKRLRF 11 Unmodified _LRFIIWKRLRF_ 0 0 0 REV__ENSG00000132382|ENST00000254718|MYBBP1A;REV__ENST00000573175.1_1_17:4451225-4453465:-|nuORF REV__ENSG00000132382|ENST00000254718|MYBBP1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 517.1441650390625 3 516.661029 1546.96126 NaN NaN NaN NaN NaN NaN NaN 90.903 1 90.979 90.479 91.479 0.075279 0 0 0 1.0073 1 46958 46958 1.2148 1.1504 1 + 18340 11887;17460 11706 11734 21028 21028 0.2096553173519169 LRFKKKKKK 9 Unmodified _LRFKKKKKK_ 0 0 0 ENST00000341776.6_1_6:15521185-15521434:+|nuORF ENST00000341776.6_1_6:15521185-15521434:+|nuORF ENST00000341776.6_1_6:15521185-15521434:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.2227783203125 2 602.424242 1202.83393 NaN NaN NaN NaN NaN NaN NaN 93.589 1 93.675 93.175 94.175 0.086212 0 0 0 0.91452 1 49065 49065 0 0 1 18341 7078 11707 11735 21029 21029 0.24062810861005346 LRFKKTLLF 9 Unmodified _LRFKKTLLF_ 0 0 0 REV__ENSG00000124564|ENST00000397060|SLC17A3 REV__ENSG00000124564|ENST00000397060|SLC17A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.2424621582031 3 389.253376 1164.7383 NaN NaN NaN NaN NaN NaN NaN 54.332 1 54.999 54.499 55.499 0.6665 0 0 0 0.89288 1 24852 24852 5.2969 1.7098 1 + 18342 11659 11708 11736 21030 21030 0.16252037950107479 LRFLLWRVLWF 11 Unmodified _LRFLLWRVLWF_ 0 0 0 REV__nc|ENSG00000100258|Q9BU23-3|LMF2 REV__nc|ENSG00000100258|Q9BU23-3|LMF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.9768676757812 3 516.978247 1547.91291 NaN NaN NaN NaN NaN NaN NaN 97.053 1 97.053 96.553 97.553 0 0 0 0 1.0073 1 52713 52713 1.2148 0 1 + 18343 10815 11709 11737 21031 21031 0.1608703809531562 LRGKKKRKKF 10 Unmodified _LRGKKKRKKF_ 0 0 0 ENSG00000124228|ENST00000618172|DDX27;nc|ENSG00000124228|Q96GQ7|DDX27;ENST00000471144.1_1_20:47852884-47860241:+|nuORF;ENST00000484427.5_1_20:47852594-47860368:+|nuORF ENSG00000124228|ENST00000618172|DDX27 ENSG00000124228|ENST00000618172|DDX27 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 644.9385986328125 2 644.938048 1287.86154 NaN NaN NaN NaN NaN NaN NaN 53.497 1 54.3 53.8 54.8 0.80351 0 0 0 1.0015 1 24404 24404 0.45834 0.10771 1 18344 2353 11710 11738 21032 21032 0.22912714121252975 LRGLRWRRRRR 11 Unmodified _LRGLRWRRRRR_ 0 0 0 REV__ENST00000507139.5_1_5:139028301-139059434:+|nuORF REV__ENST00000507139.5_1_5:139028301-139059434:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 790.9998779296875 2 791.0009 1579.98725 NaN NaN NaN NaN NaN NaN NaN 87.839 1 87.839 87.339 88.339 0 0 0 0 1.0082 1 45419 45419 0 0 1 + 18345 15199 11711 11739 21033 21033 0.2204523875002451 LRGSQYAHL 9 Unmodified _LRGSQYAHL_ 0 0 0 REV__nc|ENSG00000258436|Q7Z5J4-2|RAI1 REV__nc|ENSG00000258436|Q7Z5J4-2|RAI1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.2674560546875 2 522.78289 1043.55123 3.4733 0.0018158 0.30027 0.00015697 3.7736 0.0019728 522.7830594459051 29.35 0.22825 29.35 29.237 29.466 0 31 19 2 0 0 0 0.41574 1 13232 13232 13.906 0 1 298930 + 18346 18154 11712 11740 21034 21034 0.031193943946163927 LRGSQYAHL 9 Unmodified _LRGSQYAHL_ 0 0 0 REV__nc|ENSG00000258436|Q7Z5J4-2|RAI1 REV__nc|ENSG00000258436|Q7Z5J4-2|RAI1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.2674560546875 2 522.78289 1043.55123 3.4733 0.0018158 0.30027 0.00015697 3.7736 0.0019728 522.7830594459051 29.35 0.22825 29.35 29.237 29.466 0 31 19 2 0 0 0 0.098156 1 13232 13232 13.906 0 1 298930 + 18347 18154 11712 11740 21035 21035 0.031193943946163927 LRGSQYAHL 9 Unmodified _LRGSQYAHL_ 0 0 0 REV__nc|ENSG00000258436|Q7Z5J4-2|RAI1 REV__nc|ENSG00000258436|Q7Z5J4-2|RAI1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.78466796875 2 522.78289 1043.55123 3.4356 0.0017961 0.49002 0.00025618 3.9256 0.0020523 522.7828785419233 29.127 0.19087 29.387 29.299 29.49 0.2602 20 10 2 0 0 0 0.26277 1 13264 13264 19.257 0 1 331740 + 18348 18154 11712 11740 21036 21036 0.031193943946163927 LRGSQYAHL 9 Unmodified _LRGSQYAHL_ 0 0 0 REV__nc|ENSG00000258436|Q7Z5J4-2|RAI1 REV__nc|ENSG00000258436|Q7Z5J4-2|RAI1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 522.78289 1043.55123 3.4356 0.0017961 0.49002 0.00025618 3.9256 0.0020523 522.7828785419233 29.127 0.19087 29.387 29.299 29.49 0.2602 0.01826 7.4178E-05 NaN 19.257 20 10 2 NaN NaN NaN NaN 0 NaN NaN 0 331740 + 18349 18154 11712 11740 0.031193943946163927 LRHEWWRWWGW 11 Unmodified _LRHEWWRWWGW_ 0 0 0 REV__ENST00000564785.5_1_15:75650962-75651301:-|nuORF REV__ENST00000564785.5_1_15:75650962-75651301:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 849.4158935546875 2 849.415469 1696.81638 NaN NaN NaN NaN NaN NaN NaN 79.93 1 79.93 79.43 80.43 0 0 0 0 1.008 1 39575 39575 0.35063 0.043601 1 + 18350 17405 11713 11741 21037 21037 -0.004151364119707068 LRHLAALE 8 Unmodified _LRHLAALE_ 0 0 0 ENST00000470040.5_1_1:228334217-228334421:+|nuORF ENST00000470040.5_1_1:228334217-228334421:+|nuORF ENST00000470040.5_1_1:228334217-228334421:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.1969299316406 3 308.187143 921.5396 NaN NaN NaN NaN NaN NaN NaN 20.908 1 21.561 21.061 22.061 0.65346 0 0 0 0.99035 1 9490 9490 1.6526 0 1 18351 8169 11714 11742 21038 21038 0.0756919737126509 LRHLAALE 8 Unmodified _LRHLAALE_ 0 0 0 ENST00000470040.5_1_1:228334217-228334421:+|nuORF ENST00000470040.5_1_1:228334217-228334421:+|nuORF ENST00000470040.5_1_1:228334217-228334421:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.19708251953125 3 308.187143 921.5396 NaN NaN NaN NaN NaN NaN NaN 26.946 1 27.568 27.068 28.068 0.62179 0 0 0 0.99035 1 12354 12354 1.6526 0 1 18352 8169 11714 11742 21039 21039 0.0756919737126509 LRHQRGLRL 9 Unmodified _LRHQRGLRL_ 0 0 0 nc|ENSG00000166004|Q9C0D2-4|CEP295;nc|ENSG00000166004|Q9C0D2-2|CEP295;ENSG00000166004|ENST00000325212|CEP295;nc|ENSG00000166004|Q9C0D2-3|CEP295 nc|ENSG00000166004|Q9C0D2-4|CEP295 nc|ENSG00000166004|Q9C0D2-4|CEP295 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 383.5653991699219 3 383.575624 1147.70504 NaN NaN NaN NaN NaN NaN NaN 13.098 1 13.74 13.24 14.24 0.64272 0 0 0 0.70806 1 5878 5878 12.241 0.74595 1 18353 4443 11715 11743 21040 21040 0.1370984895077072 LRHRRRRPVRR 11 Unmodified _LRHRRRRPVRR_ 0 0 0 REV__ENST00000459979.2_1_2:177001390-177003756:+|nuORF REV__ENST00000459979.2_1_2:177001390-177003756:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 779.6725463867188 2 779.498524 1556.9825 NaN NaN NaN NaN NaN NaN NaN 97.572 1 97.643 97.143 98.143 0.070648 0 0 0 1.0082 1 52210 52210 0 0 1 + 18354 16474 11716 11744 21041 21041 0.22628354607240908 LRHWLELRAA 10 Unmodified _LRHWLELRAA_ 0 0 0 ENST00000540469.5_1_12:132195753-132196293:+|nuORF ENST00000540469.5_1_12:132195753-132196293:+|nuORF ENST00000540469.5_1_12:132195753-132196293:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.2477722167969 3 422.247285 1263.72002 2.7275 0.0011517 -1.4711 -0.00062119 1.2563 0.00053048 422.58097064978006 37.1 0.15202 37.893 37.849 38.001 0.79342 11 7 2 0 0 0 0.90196 1 16842 16842 1.7423 0.14999 1 451130 18355 8803 11717 11745 21042 21042 0.09871296028131837 LRHWLELRAA 10 Unmodified _LRHWLELRAA_ 0 0 0 ENST00000540469.5_1_12:132195753-132196293:+|nuORF ENST00000540469.5_1_12:132195753-132196293:+|nuORF ENST00000540469.5_1_12:132195753-132196293:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 632.8699340820312 2 632.867289 1263.72002 NaN NaN NaN NaN NaN NaN NaN 37.42 1 38.05 37.55 38.55 0.62999 0 0 0 0.95729 1 17124 17124 12.241 0.74595 1 18356 8803 11717 11745 21043 21043 0.09871296028131837 LRIRIKMRK 9 Unmodified _LRIRIKMRK_ 0 0 0 nc|ENSG00000133678|Q8TBM7-3|TMEM254 nc|ENSG00000133678|Q8TBM7-3|TMEM254 nc|ENSG00000133678|Q8TBM7-3|TMEM254 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.27447509765625 3 405.272777 1212.7965 NaN NaN NaN NaN NaN NaN NaN 36.928 1 37.722 37.222 38.222 0.79342 0 0 0 0.91238 1 16734 16734 0.23584 0 1 18357 9647 11718 11746 21044 21044 0.19861396323744884 LRIRIKMRK 9 Unmodified _LRIRIKMRK_ 0 0 0 nc|ENSG00000133678|Q8TBM7-3|TMEM254 nc|ENSG00000133678|Q8TBM7-3|TMEM254 nc|ENSG00000133678|Q8TBM7-3|TMEM254 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.2744445800781 3 405.272777 1212.7965 NaN NaN NaN NaN NaN NaN NaN 37.052 1 37.846 37.346 38.346 0.79342 0 0 0 0.91238 1 16789 16789 0.23584 0 1 18358 9647 11718 11746 21045 21045 0.19861396323744884 LRIRIKMRK 9 Unmodified _LRIRIKMRK_ 0 0 0 nc|ENSG00000133678|Q8TBM7-3|TMEM254 nc|ENSG00000133678|Q8TBM7-3|TMEM254 nc|ENSG00000133678|Q8TBM7-3|TMEM254 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.2742004394531 3 405.272777 1212.7965 NaN NaN NaN NaN NaN NaN NaN 38.226 1 39.021 38.521 39.521 0.79552 0 0 0 0.91238 1 17315 17315 0.23584 0 1 18359 9647 11718 11746 21046 21046 0.19861396323744884 LRIRIKMRK 9 Unmodified _LRIRIKMRK_ 0 0 0 nc|ENSG00000133678|Q8TBM7-3|TMEM254 nc|ENSG00000133678|Q8TBM7-3|TMEM254 nc|ENSG00000133678|Q8TBM7-3|TMEM254 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.2750549316406 3 405.272777 1212.7965 NaN NaN NaN NaN NaN NaN NaN 38.405 1 39.039 38.539 39.539 0.63388 0 0 0 0.91238 1 17564 17564 0.23584 0 1 18360 9647 11718 11746 21047 21047 0.19861396323744884 LRIRIKMRK 9 Unmodified _LRIRIKMRK_ 0 0 0 nc|ENSG00000133678|Q8TBM7-3|TMEM254 nc|ENSG00000133678|Q8TBM7-3|TMEM254 nc|ENSG00000133678|Q8TBM7-3|TMEM254 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.2744445800781 3 405.272777 1212.7965 NaN NaN NaN NaN NaN NaN NaN 38.852 1 39.49 38.99 39.99 0.63778 0 0 0 0.91238 1 17763 17763 0.23584 0 1 18361 9647 11718 11746 21048 21048 0.19861396323744884 LRITTGVLVAL 11 Unmodified _LRITTGVLVAL_ 0 0 0 REV__ENSG00000186806|ENST00000335624|VSIG10L REV__ENSG00000186806|ENST00000335624|VSIG10L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.3768920898438 2 578.376623 1154.73869 NaN NaN NaN NaN NaN NaN NaN 47.411 1 48.064 47.564 48.564 0.65356 0 0 0 1.0038 1 21708 21708 5.7319 2.1354 1 + 18362 14071 11719 11747 21049 21049 0.1675141287933002 LRIVLKHRKWK 11 Unmodified _LRIVLKHRKWK_ 0 0 0 ENST00000328709.7_1_2:99216911-99216989:-|nuORF ENST00000328709.7_1_2:99216911-99216989:-|nuORF ENST00000328709.7_1_2:99216911-99216989:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 738.9855346679688 2 738.98553 1475.95651 NaN NaN NaN NaN NaN NaN NaN 84.231 1 84.231 83.731 84.731 0 0 0 0 1.0082 1 42600 42600 0 0 1 18363 6973 11720 11748 21050 21050 0.23756647592426816 LRKEISRLRHF 11 Unmodified _LRKEISRLRHF_ 0 0 0 REV__nc|ENSG00000011478|Q9NXS2-3|QPCTL REV__nc|ENSG00000011478|Q9NXS2-3|QPCTL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 727.9415283203125 2 727.938776 1453.863 NaN NaN NaN NaN NaN NaN NaN 69.019 1 69.274 68.774 69.774 0.25443 0 0 0 1.008 1 31617 31617 0.30703 0.30703 1 + 18364 10238 11721 11749 21051 21051 0.15422303419336458 LRKFIYRAVWA 11 Unmodified _LRKFIYRAVWA_ 0 0 0 REV__nc|ENSG00000111684|Q6P1A2-2|LPCAT3 REV__nc|ENSG00000111684|Q6P1A2-2|LPCAT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 712.3394775390625 2 711.922064 1421.82957 NaN NaN NaN NaN NaN NaN NaN 109.43 1 109.74 109.24 110.24 0.31015 0 0 0 1.0073 1 50445 50445 1.1933 0.12188 1 + 18365 11246 11722 11750 21052 21052 0.1355330164744828 LRKFRLRIVP 10 Unmodified _LRKFRLRIVP_ 0 0 0 REV__nc|ENSG00000183087|Q14393-5|GAS6 REV__nc|ENSG00000183087|Q14393-5|GAS6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 649.4342041015625 2 649.432599 1296.85064 NaN NaN NaN NaN NaN NaN NaN 67.066 1 67.771 67.271 68.271 0.7047 0 0 0 1.0015 1 31833 31833 0.40072 0 1 + 18366 13916 11723 11751 21053 21053 0.2140931174697016 LRKILLRKWLL 11 Unmodified _LRKILLRKWLL_ 0 0 0 ENST00000369393.7_1_6:90432849-90433274:-|nuORF ENST00000369393.7_1_6:90432849-90433274:-|nuORF ENST00000369393.7_1_6:90432849-90433274:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 726.5009765625 2 726.500481 1450.98641 NaN NaN NaN NaN NaN NaN NaN 33.228 1 33.848 33.348 34.348 0.62031 0 0 0 1.0082 1 15229 15229 0 0 1 18367 7292 11724 11752 21054 21054 0.27895586537806594 LRKKAKIFKRM 11 Unmodified _LRKKAKIFKRM_ 0 0 0 REV__ENSG00000154479|ENST00000447353|CFAP210 REV__ENSG00000154479|ENST00000447353|CFAP210 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 355.19073486328125 4 355.483971 1417.90678 2.4201 0.00086031 -0.32817 -0.00011666 2.0919 0.00074365 355.48366490490895 46.359 0.40403 46.359 46.044 46.448 0 28 20 2 0 0 0 0.13295 1 21257 21257 0 0 1 931460 + 18368 12708 11725 11753 21055 21055 0.21454196592117114 LRKKKRIYL 9 Unmodified _LRKKKRIYL_ 0 0 0 REV__nc|nan|Q9UK00-2|C3orf18 REV__nc|nan|Q9UK00-2|C3orf18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 609.3019409179688 2 609.413875 1216.8132 NaN NaN NaN NaN NaN NaN NaN 97.694 1 97.694 97.194 98.194 0 0 0 0 0.91238 1 53264 53264 0.52476 0 1 + 18369 10679 11726 11754 21056 21056 0.21346220481359524 LRKKLHWA 8 Unmodified _LRKKLHWA_ 0 0 0 nc|ENSG00000164989|Q6TFL3-3|CCDC171;ENSG00000164989|ENST00000380701|CCDC171;nc|ENSG00000164989|Q6TFL3-4|CCDC171 nc|ENSG00000164989|Q6TFL3-3|CCDC171 nc|ENSG00000164989|Q6TFL3-3|CCDC171 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.3308715820312 2 526.329811 1050.64507 NaN NaN NaN NaN NaN NaN NaN 34.474 1 35.097 34.597 35.597 0.62294 0 0 0 0.99035 1 15792 15792 0.79363 0.19213 1 18370 4363 11727 11755 21057 21057 0.12177158287545353 LRKKLIRKMKL 11 Unmodified _LRKKLIRKMKL_ 0 0 0 nc|ENSG00000071794|Q14527-2|HLTF;ENSG00000071794|ENST00000310053|HLTF nc|ENSG00000071794|Q14527-2|HLTF nc|ENSG00000071794|Q14527-2|HLTF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 713.9917602539062 2 713.991966 1425.96938 NaN NaN NaN NaN NaN NaN NaN 29.573 1 29.573 29.073 30.073 0 0 0 0 1.0082 1 13349 13349 0 0 1 18371 780 11728 11756 21058 21058 0.27343342660310554 LRKLGGQIL 9 Unmodified _LRKLGGQIL_ 0 0 0 ENST00000321990.4_1_17:29185227-29185266:+|nuORF ENST00000321990.4_1_17:29185227-29185266:+|nuORF ENST00000321990.4_1_17:29185227-29185266:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 333.55706787109375 3 333.222076 996.6444 NaN NaN NaN NaN NaN NaN NaN 32.453 1 32.708 32.208 33.208 0.25452 0 0 0 0.31736 1 14780 14780 26.268 0.86883 1 18372 6937 11729 11757 21059 21059 0.14594318847866816 LRKPLPLE 8 Unmodified _LRKPLPLE_ 0 0 0 ENST00000586500.1_1_19:13993617-13994323:-|nuORF ENST00000586500.1_1_19:13993617-13994323:-|nuORF ENST00000586500.1_1_19:13993617-13994323:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 322.863525390625 3 322.542927 964.606951 2.0702 0.00066773 0.3264 0.00010528 2.3966 0.00077301 322.54318172230717 26.526 0.19557 27.151 27.047 27.243 0.62505 11 9 2 0 0 0 0.14132 1 12128 12128 3.2813 0 1 132300 18373 9186 11730 11758 21060 21060 0.12323227582226082 LRKPLVVQRT 10 Unmodified _LRKPLVVQRT_ 0 0 0 ENSG00000007545|ENST00000397412|CRAMP1 ENSG00000007545|ENST00000397412|CRAMP1 ENSG00000007545|ENST00000397412|CRAMP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 403.9303894042969 3 403.931185 1208.77173 NaN NaN NaN NaN NaN NaN NaN 46.196 1 46.196 45.696 46.696 0 0 0 0 0.99837 1 21139 21139 3.0723 2.3746 1 18374 366 11731 11759 21061 21061 0.17569039722025082 LRKQHQLHKH 10 Unmodified _LRKQHQLHKH_ 0 0 0 ENSG00000131409|ENST00000652263|LRRC4B ENSG00000131409|ENST00000652263|LRRC4B ENSG00000131409|ENST00000652263|LRRC4B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 662.8916625976562 2 662.889087 1323.76362 NaN NaN NaN NaN NaN NaN NaN 85.014 1 85.262 84.762 85.762 0.24757 0 0 0 1.0001 1 39124 39124 1.6526 0.17072 1 18375 2659 11732 11760 21062 21062 0.11468905525248374 LRKRKLLG 8 Unmodified _LRKRKLLG_ 0 0 0 ENSG00000089022|ENST00000550735|MAPKAPK5;nc|ENSG00000089022|Q8IW41|MAPKAPK5 ENSG00000089022|ENST00000550735|MAPKAPK5 ENSG00000089022|ENST00000550735|MAPKAPK5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.34765625 2 492.345461 982.676368 3.5904 0.0017677 1.0232 0.00050377 4.6136 0.0022715 492.34585633783473 10.422 0.48688 11.055 10.912 11.399 0.63304 73 43 2 0 0 0 0.7471 2 4692 4692;4737 0.69038 0 1 89801 18376 1025 11733 11761 21063;21064 21063 0.18433731321658797 LRKTKILV 8 Unmodified _LRKTKILV_ 0 0 0 nc|ENSG00000103222|P33527-5|ABCC1;nc|ENSG00000103222|P33527-2|ABCC1;nc|ENSG00000103222|P33527-3|ABCC1;ENSG00000103222|ENST00000399410|ABCC1;nc|ENSG00000103222|P33527-9|ABCC1 nc|ENSG00000103222|P33527-5|ABCC1 nc|ENSG00000103222|P33527-5|ABCC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.2311096191406 3 324.230572 969.669886 1.6262 0.00052727 0.76138 0.00024686 2.3876 0.00077414 324.2306256684354 12.593 0.12158 12.901 12.848 12.969 0.30727 7 3 3 0 0 0 0.13532 1 5693 5693 49.933 4.2334 1 4276400 18377 1383 11734 11762 21065 21065 0.18383793370264812 LRKTKILV 8 Unmodified _LRKTKILV_ 0 0 0 nc|ENSG00000103222|P33527-5|ABCC1;nc|ENSG00000103222|P33527-2|ABCC1;nc|ENSG00000103222|P33527-3|ABCC1;ENSG00000103222|ENST00000399410|ABCC1;nc|ENSG00000103222|P33527-9|ABCC1 nc|ENSG00000103222|P33527-5|ABCC1 nc|ENSG00000103222|P33527-5|ABCC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.2315673828125 3 324.230572 969.669886 2.5241 0.0008184 0.64024 0.00020758 3.1644 0.001026 324.2307162205552 12.517 0.11782 13.16 13.092 13.21 0.64272 5 3 2 0 0 0 0.44001 1 5635 5635 25.399 4.9457 1 4365700 18378 1383 11734 11762 21066 21066 0.18383793370264812 LRKTKILV 8 Unmodified _LRKTKILV_ 0 0 0 nc|ENSG00000103222|P33527-5|ABCC1;nc|ENSG00000103222|P33527-2|ABCC1;nc|ENSG00000103222|P33527-3|ABCC1;ENSG00000103222|ENST00000399410|ABCC1;nc|ENSG00000103222|P33527-9|ABCC1 nc|ENSG00000103222|P33527-5|ABCC1 nc|ENSG00000103222|P33527-5|ABCC1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 324.230572 969.669886 2.2718 0.00073657 -0.32901 -0.00010668 1.9427 0.0006299 324.2304925567426 13.046 0.1352 13.046 12.995 13.13 0 0.010761 -0.00061172 NaN 49.933 12 6 2 NaN NaN NaN NaN 0 NaN NaN 0 550050 18379 1383 11734 11762 0.18383793370264812 LRKVLKLNL 9 Unmodified _LRKVLKLNL_ 0 0 0 ENSG00000174844|ENST00000495027|DNAH12;nc|ENSG00000174844|Q6ZR08|DNAH12 ENSG00000174844|ENST00000495027|DNAH12 ENSG00000174844|ENST00000495027|DNAH12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.2574768066406 3 366.257009 1095.7492 2.6876 0.00098434 -0.87653 -0.00032103 1.811 0.0006633 366.25661459080425 26.256 0.33298 26.521 26.388 26.721 0.26489 70 27 4 0 0 0 1.0894 1 11972 11972 2.4985 0 1 1281100 18380 4999 11735 11763 21067 21067 0.20515440324379597 LRKVSEKYQ 9 Unmodified _LRKVSEKYQ_ 0 0 0 REV__ENSG00000061794|ENST00000081029|MRPS35 REV__ENSG00000061794|ENST00000081029|MRPS35 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 384.5730285644531 3 384.224146 1149.65061 2.717 0.0010439 0.16587 6.373E-05 2.8829 0.0011077 384.22413563037634 14.294 0.11328 14.294 14.241 14.354 0 15 6 3 0 0 0 0.11065 1 6308 6308 4.897 0 1 553170 + 18381 10400 11736 11764 21068 21068 0.08176792288713841 LRLAILKYLFI 11 Unmodified _LRLAILKYLFI_ 0 0 0 nc|ENSG00000165181|Q5VXU9-3|SHOC1 nc|ENSG00000165181|Q5VXU9-3|SHOC1 nc|ENSG00000165181|Q5VXU9-3|SHOC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.9692687988281 3 454.967236 1361.87988 2.7609 0.0012561 0.95574 0.00043483 3.7167 0.001691 454.96772518825395 35.878 0.38853 36.134 35.866 36.254 0.25524 25 15 2 0 0 0 0.91459 1 16303 16303 0.094841 0 1 268260 18382 9731 11737 11765 21069 21069 0.2134141125259248 LRLAILKYLFI 11 Unmodified _LRLAILKYLFI_ 0 0 0 nc|ENSG00000165181|Q5VXU9-3|SHOC1 nc|ENSG00000165181|Q5VXU9-3|SHOC1 nc|ENSG00000165181|Q5VXU9-3|SHOC1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 454.967236 1361.87988 2.7064 0.0012313 1.8027 0.00082015 4.509 0.0020515 454.96791744943687 35.946 0.24736 35.946 35.825 36.072 0 -0.093855 0.00051267 NaN 0.094841 30 15 3 NaN NaN NaN NaN 0 NaN NaN 0 551600 18383 9731 11737 11765 0.2134141125259248 LRLAILKYLFI 11 Unmodified _LRLAILKYLFI_ 0 0 0 nc|ENSG00000165181|Q5VXU9-3|SHOC1 nc|ENSG00000165181|Q5VXU9-3|SHOC1 nc|ENSG00000165181|Q5VXU9-3|SHOC1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 454.967236 1361.87988 2.7609 0.0012561 0.95574 0.00043483 3.7167 0.001691 454.96772518825395 35.878 0.38853 36.134 35.866 36.254 0.25524 0.093855 -0.00064329 NaN 0.094841 25 15 2 NaN NaN NaN NaN 0 NaN NaN 0 268260 18384 9731 11737 11765 0.2134141125259248 LRLAVHGIKYW 11 Unmodified _LRLAVHGIKYW_ 0 0 0 REV__CABIN1|p.I1015Lfs*44|1|0.05|ENSG00000099991|chr22:24084710-24084711|-/TTGAAAAAAAG|frameshift_variant REV__CABIN1|p.I1015Lfs*44|1|0.05|ENSG00000099991|chr22:24084710-24084711|-/TTGAAAAAAAG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 339.7047424316406 4 339.70412 1354.78738 2.2484 0.0007638 0.21261 7.2225E-05 2.461 0.00083602 339.9547761539074 41.274 0.19398 42.077 41.936 42.13 0.8035 18 12 3 0 0 0 0.91328 1 18699 18699 0.50596 0 1 454730 + 18385 9983 11738 11766 21070 21070 0.124173262390741 LRLAVHGIKYW 11 Unmodified _LRLAVHGIKYW_ 0 0 0 REV__CABIN1|p.I1015Lfs*44|1|0.05|ENSG00000099991|chr22:24084710-24084711|-/TTGAAAAAAAG|frameshift_variant REV__CABIN1|p.I1015Lfs*44|1|0.05|ENSG00000099991|chr22:24084710-24084711|-/TTGAAAAAAAG|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 339.70412 1354.78738 2.2484 0.0007638 0.21261 7.2225E-05 2.461 0.00083602 339.9547761539074 41.274 0.19398 42.077 41.936 42.13 0.8035 0.044894 0.00045164 NaN 0.50596 18 12 3 NaN NaN NaN NaN 0 NaN NaN 0 454730 + 18386 9983 11738 11766 0.124173262390741 LRLAVHGIKYW 11 Unmodified _LRLAVHGIKYW_ 0 0 0 REV__CABIN1|p.I1015Lfs*44|1|0.05|ENSG00000099991|chr22:24084710-24084711|-/TTGAAAAAAAG|frameshift_variant REV__CABIN1|p.I1015Lfs*44|1|0.05|ENSG00000099991|chr22:24084710-24084711|-/TTGAAAAAAAG|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 339.70412 1354.78738 2.7068 0.00091951 -0.43998 -0.00014946 2.2668 0.00077005 339.70404294854825 41.732 0.27362 42.002 41.8 42.074 0.27021 -0.029837 -0.00043512 NaN 0.50596 21 10 3 NaN NaN NaN NaN 0 NaN NaN 0 747010 + 18387 9983 11738 11766 0.124173262390741 LRLCLERLKVL 11 Unmodified _LRLCLERLKVL_ 0 0 0 nc|ENSG00000119950|P50539-4|MXI1;nc|ENSG00000119950|P50539-2|MXI1;nc|ENSG00000119950|P50539|MXI1;ENSG00000119950|ENST00000332674|MXI1 nc|ENSG00000119950|P50539-4|MXI1 nc|ENSG00000119950|P50539-4|MXI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 678.4322509765625 2 678.431407 1354.84826 NaN NaN NaN NaN NaN NaN NaN 26.189 1 26.189 25.689 26.689 0 0 0 0 1.008 1 11777 11777 0.30703 0.03801 1 18388 2175 11739 11767 21071 21071 0.18503095226992627 LRLIKPKKKVP 11 Unmodified _LRLIKPKKKVP_ 0 0 0 ENST00000244043.4_1_20:48123609-48123702:-|nuORF ENST00000244043.4_1_20:48123609-48123702:-|nuORF ENST00000244043.4_1_20:48123609-48123702:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 660.7626342773438 2 660.466107 1318.91766 NaN NaN NaN NaN NaN NaN NaN 95.19 1 95.272 94.772 95.772 0.082001 0 0 0 1.008 1 50266 50266 0.35063 0.35063 1 18389 6477 11740 11768 21072 21072 0.2709592223804975 LRLKWRLHKRL 11 Unmodified _LRLKWRLHKRL_ 0 0 0 REV__ENST00000342992.10_3_2:179396097-179396157:-|nuORF REV__ENST00000342992.10_3_2:179396097-179396157:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.8248291015625 3 507.000045 1517.9783 2.5335 0.0012845 -0.91824 -0.00046555 1.6152 0.00081891 507.3333190074889 66.105 0.025436 66.105 66.093 66.119 0 4 2 2 0 0 0 0.13295 1 31558 31558 0.08335 0.08335 1 4480800 + 18390 15477 11741 11769 21073 21073 0.2400345234100314 LRLLKILLVLH 11 Unmodified _LRLLKILLVLH_ 0 0 0 ENST00000342756.9_1_4:57357643-57361536:+|nuORF ENST00000342756.9_1_4:57357643-57361536:+|nuORF ENST00000342756.9_1_4:57357643-57361536:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 665.9703979492188 2 665.968483 1329.92241 NaN NaN NaN NaN NaN NaN NaN 70.122 1 70.122 69.622 70.622 0 0 0 0 1.0082 1 33972 33972 0 0 1 18391 7083 11742 11770 21074 21074 0.27064806380826667 LRLLKILLVLH 11 Unmodified _LRLLKILLVLH_ 0 0 0 ENST00000342756.9_1_4:57357643-57361536:+|nuORF ENST00000342756.9_1_4:57357643-57361536:+|nuORF ENST00000342756.9_1_4:57357643-57361536:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 665.9725952148438 2 665.968483 1329.92241 NaN NaN NaN NaN NaN NaN NaN 106.22 1 106.22 105.72 106.72 0 0 0 0 1.0082 1 58335 58335 0 0 1 18392 7083 11742 11770 21075 21075 0.27064806380826667 LRLLLFKLLL 10 Unmodified _LRLLLFKLLL_ 0 0 0 nc|ENSG00000171611|Q6ISU1-2|PTCRA;nc|ENSG00000171611|Q6ISU1-3|PTCRA;ENSG00000171611|ENST00000304672|PTCRA nc|ENSG00000171611|Q6ISU1-2|PTCRA nc|ENSG00000171611|Q6ISU1-2|PTCRA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 621.4393310546875 2 621.439027 1240.8635 NaN NaN NaN NaN NaN NaN NaN 95.019 1 95.286 94.786 95.786 0.2675 0 0 0 1.002 1 43660 43660 0 0 1 18393 4820 11743 11771 21076 21076 0.2527033008652779 LRLLLPFILH 10 Unmodified _LRLLLPFILH_ 0 0 0 REV__HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|11|1|sense REV__HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|11|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 618.0360107421875 2 617.905351 1233.79615 NaN NaN NaN NaN NaN NaN NaN 95.358 1 95.358 94.858 95.858 0 0 0 0 1.0011 1 51324 51324 1.8442 0.36234 1 + 18394 17726 11744 11772 21077 21077 0.18860299875541386 LRLLQLVKRIK 11 Unmodified _LRLLQLVKRIK_ 0 0 0 REV__ENST00000461513.1_1_17:49579856-49580498:-|nuORF REV__ENST00000461513.1_1_17:49579856-49580498:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 690.534423828125 2 690.482289 1378.95002 NaN NaN NaN NaN NaN NaN NaN 96.234 1 96.234 95.734 96.734 0 0 0 0 1.0082 1 52026 52026 0 0 1 + 18395 16496 11745 11773 21078 21078 0.27570709641054236 LRLLQLVKRIK 11 Unmodified _LRLLQLVKRIK_ 0 0 0 REV__ENST00000461513.1_1_17:49579856-49580498:-|nuORF REV__ENST00000461513.1_1_17:49579856-49580498:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 690.9116821289062 2 690.482289 1378.95002 NaN NaN NaN NaN NaN NaN NaN 109.96 1 110.57 110.07 111.07 0.60264 0 0 0 1.0082 1 50706 50706 0 0 1 + 18396 16496 11745 11773 21079 21079 0.27570709641054236 LRLLQMQRAK 10 Unmodified _LRLLQMQRAK_ 0 0 0 ENSG00000017797|ENST00000383432|RALBP1 ENSG00000017797|ENST00000383432|RALBP1 ENSG00000017797|ENST00000383432|RALBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 419.5937194824219 3 419.592175 1255.7547 3.1615 0.0013265 0.5456 0.00022893 3.7071 0.0015555 419.592318563839 87.799 0.6163 88.477 88.239 88.856 0.67818 69 30 4 0 0 0 0.90216 1 40394 40394 3.5871 1.5011 1 1698700 18397 443 11746 11774 21080 21080 0.13704795844569162 LRLLQMQRAK 10 Unmodified _LRLLQMQRAK_ 0 0 0 ENSG00000017797|ENST00000383432|RALBP1 ENSG00000017797|ENST00000383432|RALBP1 ENSG00000017797|ENST00000383432|RALBP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 419.592175 1255.7547 3.2105 0.0013471 0.60776 0.00025501 3.8182 0.0016021 419.59238879670653 88.408 0.64121 88.659 88.39 89.031 0.25093 0.091264 3.9233E-05 NaN 3.5871 78 29 3 NaN NaN NaN NaN 0 NaN NaN 0 1842000 18398 443 11746 11774 0.13704795844569162 LRLLQSGRR 9 Unmodified _LRLLQSGRR_ 0 0 0 ENST00000431881.6_1_14:23235910-23236084:+|nuORF;ENST00000557299.5_1_14:23235910-23236645:+|nuORF;ENST00000483939.6_1_14:23235910-23237424:+|nuORF;ENST00000473744.5_1_14:23235910-23239613:+|nuORF;ENST00000495424.5_1_14:23235916-23239613:+|nuORF;nc|ENSG00000155463|Q15070-3|OXA1L;ENSG00000155463|ENST00000612549|OXA1L ENST00000431881.6_1_14:23235910-23236084:+|nuORF ENST00000431881.6_1_14:23235910-23236084:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.90106201171875 3 366.899996 1097.67816 NaN NaN NaN NaN NaN NaN NaN 62.649 1 62.899 62.399 63.399 0.24965 0 0 0 0.90519 1 28686 28686 2.2828 0.69049 1 18399 3864 11747 11775 21081 21081 0.1332274033959493 LRLLRITRVE 10 Unmodified _LRLLRITRVE_ 0 0 0 ENST00000426538.6_1_16:58426452-58426581:+|nuORF ENST00000426538.6_1_16:58426452-58426581:+|nuORF ENST00000426538.6_1_16:58426452-58426581:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 634.9110717773438 2 634.911696 1267.80884 NaN NaN NaN NaN NaN NaN NaN 12.213 1 12.85 12.35 13.35 0.63746 0 0 0 1.002 1 5444 5444 0 0 1 18400 7805 11748 11776 21082 21082 0.18564711267731582 LRLLRLYWLYW 11 Unmodified _LRLLRLYWLYW_ 0 0 0 REV__nc|ENSG00000160145|O60229-2|KALRN REV__nc|ENSG00000160145|O60229-2|KALRN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 797.966552734375 2 797.966471 1593.91839 NaN NaN NaN NaN NaN NaN NaN 103.48 1 103.48 102.98 103.98 0 0 0 0 1.0082 1 57030 57030 0 0 1 + 18401 17997 11749 11777 21083 21083 0.145187168871189 LRLPRMSLLPR 11 Unmodified _LRLPRMSLLPR_ 0 0 0 REV__ENST00000465025.1_1_1:228335125-228336550:+|nuORF REV__ENST00000465025.1_1_1:228335125-228336550:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.71533203125 4 338.714325 1350.82819 2.435 0.00082477 0.49425 0.00016741 2.9293 0.00099218 338.71444083974166 65.48 0.802 66.137 65.692 66.494 0.65672 62 46 2 0 0 0 0.91111 1 30086 30086 1.2148 0.80657 1 794040 + 18402 16537 11750 11778 21084 21084 0.16681344287030697 LRLQGLSTAS 10 Unmodified _LRLQGLSTAS_ 0 0 0 ENST00000502100.2_1_5:25190936-25302336:+|nuORF ENST00000502100.2_1_5:25190936-25302336:+|nuORF ENST00000502100.2_1_5:25190936-25302336:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.3056640625 2 523.303655 1044.59276 3.1749 0.0016614 0.49552 0.00025931 3.6704 0.0019207 523.3038771301912 81.305 1.8213 81.553 80.719 82.541 0.24803 235 115 3 0 0 0 0.93788 1 37779 37779 1.3295 0.13619 1 2183000 18403 8477 11751 11779 21085 21085 0.07224530363282611 LRLWKRRWFVL 11 Unmodified _LRLWKRRWFVL_ 0 0 0 nc|ENSG00000105559|Q9H4M7-2|PLEKHA4;ENSG00000105559|ENST00000263265|PLEKHA4 nc|ENSG00000105559|Q9H4M7-2|PLEKHA4 nc|ENSG00000105559|Q9H4M7-2|PLEKHA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 786.9828491210938 2 786.98553 1571.95651 NaN NaN NaN NaN NaN NaN NaN 83.291 1 83.291 82.791 83.791 0 0 0 0 1.008 1 41922 41922 0.35063 0.35063 1 18404 1508 11752 11780 21086 21086 0.19340647592434834 LRLYKKKKKIK 11 Unmodified _LRLYKKKKKIK_ 0 0 0 REV__ENST00000376510.7_1_10:23409918-23410092:+|nuORF REV__ENST00000376510.7_1_10:23409918-23410092:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 723.5046997070312 2 723.505764 1444.99697 NaN NaN NaN NaN NaN NaN NaN 64.348 1 65.005 64.505 65.505 0.65672 0 0 0 1.0082 1 29499 29499 0 0 1 + 18405 15822 11753 11781 21087 21087 0.29227569192198644 LRNSRLLDF 9 Unmodified _LRNSRLLDF_ 0 0 0 REV__ENSG00000138756|ENST00000502613|BMP2K REV__ENSG00000138756|ENST00000502613|BMP2K MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.55322265625 3 378.552374 1132.63529 2.7234 0.001031 -0.44687 -0.00016917 2.2766 0.0008618 378.5522646247203 29.711 0.34536 30.329 30.102 30.447 0.61789 46 20 3 0 0 0 1.0601 1 13556 13556 2.9952 0 1 624990 + 18406 12187 11754 11782 21088 21088 0.07427925491492715 LRNTKSEI 8 Unmodified _LRNTKSEI_ 0 0 0 ENSG00000185069|ENST00000332411|KRT76;CON__Q01546;ENSG00000186442|ENST00000417996|KRT3;CON__P12035 ENSG00000185069|ENST00000332411|KRT76 ENSG00000185069|ENST00000332411|KRT76 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 320.8547668457031 3 320.853941 959.539994 2.2786 0.00073111 0.18168 5.8291E-05 2.4603 0.0007894 320.8539708033966 14.827 0.29511 15.053 14.91 15.205 0.22622 61 23 4 0 0 0 0.45037 1 6507 6507 19.257 1.1106 1 1333500 + 18407 224 11755 11783 21089 21089 0.058605723004689025 LRPDMVLEL 9 Unmodified _LRPDMVLEL_ 0 0 0 nc|ENSG00000070371|P53675-2|CLTCL1;ENSG00000070371|ENST00000427926|CLTCL1;ENST00000412649.5_1_22:19170842-19171202:-|nuORF nc|ENSG00000070371|P53675-2|CLTCL1 nc|ENSG00000070371|P53675-2|CLTCL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.3037719726562 2 543.30481 1084.59507 NaN NaN NaN NaN NaN NaN NaN 71.556 1 72.219 71.719 72.719 0.66324 0 0 0 0.48891 1 32798 32798 19.362 7.7216 1 18408 763 11756 11784 21090 21090 0.05615242776730156 LRPKREKRPRL 11 Unmodified _LRPKREKRPRL_ 0 0 0 ENSG00000169592|ENST00000563197|INO80E;ENST00000569957.5_1_16:30012641-30012857:+|nuORF;ENST00000562441.5_1_16:30012641-30015954:+|nuORF ENSG00000169592|ENST00000563197|INO80E ENSG00000169592|ENST00000563197|INO80E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.23828125 4 362.987572 1447.92118 2.7292 0.00099065 -1.6335 -0.00059295 1.0956 0.0003977 362.9866853511218 50.573 0.41105 50.573 50.291 50.702 0 54 20 4 0 0 0 0.91068 1 23141 23141 1.3296 0.63198 1 1093400 18409 4698 11757 11785 21091 21091 0.2151398506462101 LRPKREKRPRL 11 Unmodified _LRPKREKRPRL_ 0 0 0 ENSG00000169592|ENST00000563197|INO80E;ENST00000569957.5_1_16:30012641-30012857:+|nuORF;ENST00000562441.5_1_16:30012641-30015954:+|nuORF ENSG00000169592|ENST00000563197|INO80E ENSG00000169592|ENST00000563197|INO80E MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.2388000488281 4 362.987572 1447.92118 2.6086 0.0009469 -1.0437 -0.00037883 1.565 0.00056806 362.98686561816 50.037 0.85546 50.299 49.812 50.668 0.26146 73 33 3 0 0 0 0.13295 1 22791 22791 0.45452 0 1 1614900 18410 4698 11757 11785 21092 21092 0.2151398506462101 LRPKREKRPRL 11 Unmodified _LRPKREKRPRL_ 0 0 0 ENSG00000169592|ENST00000563197|INO80E;ENST00000569957.5_1_16:30012641-30012857:+|nuORF;ENST00000562441.5_1_16:30012641-30015954:+|nuORF ENSG00000169592|ENST00000563197|INO80E ENSG00000169592|ENST00000563197|INO80E MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 362.987572 1447.92118 2.4725 0.00089748 -2.0766 -0.00075379 0.39584 0.00014368 363.23763490009026 49.685 0.21861 50.508 50.373 50.591 0.82285 0.072305 -0.00062984 NaN 1.3296 19 13 2 NaN NaN NaN NaN 0 NaN NaN 0 1146400 18411 4698 11757 11785 0.2151398506462101 LRPKREKRPRL 11 Unmodified _LRPKREKRPRL_ 0 0 0 ENSG00000169592|ENST00000563197|INO80E;ENST00000569957.5_1_16:30012641-30012857:+|nuORF;ENST00000562441.5_1_16:30012641-30015954:+|nuORF ENSG00000169592|ENST00000563197|INO80E ENSG00000169592|ENST00000563197|INO80E MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 362.987572 1447.92118 2.5879 0.00093937 -1.5098 -0.00054803 1.0781 0.00039134 363.2381469485519 49.705 0.3156 50.362 50.085 50.4 0.65735 -0.073527 0.00019323 NaN 1.3296 15 10 3 NaN NaN NaN NaN 0 NaN NaN 0 492280 18412 4698 11757 11785 0.2151398506462101 LRPLKAPRF 9 Unmodified _LRPLKAPRF_ 0 0 0 REV__ENST00000601004.1_1_19:23567552-23568092:+|nuORF REV__ENST00000601004.1_1_19:23567552-23568092:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.57061767578125 3 366.569588 1096.68693 2.8158 0.0010322 -0.87475 -0.00032066 1.9411 0.00071154 366.5692066808006 21.63 0.18467 21.63 21.528 21.713 0 25 18 2 0 0 0 1.0601 1 9706 9706 2.9952 0.26005 1 114040 + 18413 17638 11758 11786 21093 21093 0.1424571397606087 LRPLKAPRF 9 Unmodified _LRPLKAPRF_ 0 0 0 REV__ENST00000601004.1_1_19:23567552-23568092:+|nuORF REV__ENST00000601004.1_1_19:23567552-23568092:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 366.569588 1096.68693 2.8158 0.0010322 -0.87475 -0.00032066 1.9411 0.00071154 366.5692066808006 21.63 0.18467 21.63 21.528 21.713 0 0 0 NaN 2.9952 25 18 2 NaN NaN NaN NaN 0 NaN NaN 0 114040 + 18414 17638 11758 11786 0.1424571397606087 LRPNWRRRWWR 11 Unmodified _LRPNWRRRWWR_ 0 0 0 REV__ENST00000463462.5_1_7:148982563-148988696:+|nuORF REV__ENST00000463462.5_1_7:148982563-148988696:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 841.4724731445312 2 841.474183 1680.93381 NaN NaN NaN NaN NaN NaN NaN 101.2 1 101.8 101.3 102.3 0.59717 0 0 0 1.0082 1 46855 46855 0 0 1 + 18415 16216 11759 11787 21094 21094 0.12058441247518203 LRPPIMIM 8 Unmodified _LRPPIMIM_ 0 0 0 ENSG00000001630|ENST00000003100|CYP51A1;nc|ENSG00000001630|Q16850-2|CYP51A1;ENST00000419457.1_1_13:29296686-29297403:-|nuORF ENSG00000001630|ENST00000003100|CYP51A1;ENST00000419457.1_1_13:29296686-29297403:-|nuORF ENSG00000001630|ENST00000003100|CYP51A1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2884826660156 2 485.782459 969.550365 3.3464 0.0016256 2.4656 0.0011977 5.812 0.0028234 485.7823870272146 69.003 0.169 69.257 69.192 69.361 0.25443 14 11 2 0 0 0 0.14132 1 31629 31629 8.5933 6.2905 1 172050 18416 297;7741 11760 11788 21095 21095 0.06437140429704868 LRPVKLEFPL 10 Unmodified _LRPVKLEFPL_ 0 0 0 ENSG00000204366|ENST00000375527|ZBTB12 ENSG00000204366|ENST00000375527|ZBTB12 ENSG00000204366|ENST00000375527|ZBTB12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 404.5899658203125 3 404.588536 1210.74378 2.9165 0.00118 0.90962 0.00036802 3.8261 0.001548 404.5887410745076 31.845 0.51869 32.463 32.287 32.806 0.61736 79 32 4 0 0 0 0.94099 1 14703 14703 0.69767 0 1 1257900 18417 6003 11761 11789 21096 21096 0.14683716741933495 LRQFFFVCLL 10 Unmodified _LRQFFFVCLL_ 0 0 0 ENST00000393357.6_1_1:114301402-114301543:-|nuORF ENST00000393357.6_1_1:114301402-114301543:-|nuORF ENST00000393357.6_1_1:114301402-114301543:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 643.3622436523438 2 643.359919 1284.70529 NaN NaN NaN NaN NaN NaN NaN 82.162 1 82.409 81.909 82.909 0.24722 0 0 0 1.0001 1 37819 37819 1.6526 0.17072 1 18418 7531 11762 11790 21097 21097 0.0743208783578666 LRQKWHSLFLR 11 Unmodified _LRQKWHSLFLR_ 0 0 0 ENSG00000047188|ENST00000161863|YTHDC2;ENST00000512600.1_1_5:112917089-112917407:+|nuORF ENSG00000047188|ENST00000161863|YTHDC2 ENSG00000047188|ENST00000161863|YTHDC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 742.4361572265625 2 742.43587 1482.85719 NaN NaN NaN NaN NaN NaN NaN 21.762 1 21.762 21.262 22.262 0 0 0 0 1.008 1 9749 9749 0.30703 0 1 18419 554 11763 11791 21098 21098 0.13507204907682535 LRQLAMIQN 9 Unmodified _LRQLAMIQN_ 0 0 0 REV__nc|ENSG00000168014|Q4AC94-2|C2CD3 REV__nc|ENSG00000168014|Q4AC94-2|C2CD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.8106689453125 2 543.808051 1085.60155 3.0939 0.0016825 0.69069 0.0003756 3.7846 0.0020581 543.8084322550036 47.905 0.25611 48.734 48.619 48.875 0.82915 23 10 3 0 0 0 0.24465 1 21822 21822 20.454 1.1966 1 514760 + 18420 13322 11764 11792 21099 21099 0.06217180728117455 LRQLAMIQN 9 Unmodified _LRQLAMIQN_ 0 0 0 REV__nc|ENSG00000168014|Q4AC94-2|C2CD3 REV__nc|ENSG00000168014|Q4AC94-2|C2CD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.8098754882812 2 543.808051 1085.60155 3.6034 0.0019595 0.42291 0.00022998 4.0263 0.0021895 543.8084187534394 48.787 0.32289 49.442 49.252 49.574 0.65524 22 11 3 0 0 0 0.10837 1 22314 22314 30.637 5.6456 1 839590 + 18421 13322 11764 11792 21100 21100 0.06217180728117455 LRQLAMIQN 9 Unmodified _LRQLAMIQN_ 0 0 0 REV__nc|ENSG00000168014|Q4AC94-2|C2CD3 REV__nc|ENSG00000168014|Q4AC94-2|C2CD3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 543.808051 1085.60155 3.5069 0.0019071 0.016489 8.9668E-06 3.5234 0.001916 543.8079099358968 49.215 0.20679 49.215 49.118 49.324 0 -0.16275 -0.00039707 NaN 30.637 14 8 2 NaN NaN NaN NaN 0 NaN NaN 0 778920 + 18422 13322 11764 11792 0.06217180728117455 LRQMRRQFRR 10 Unmodified _LRQMRRQFRR_ 0 0 0 REV__ENST00000454020.1_3_2:234756047-234763110:-|nuORF REV__ENST00000454020.1_3_2:234756047-234763110:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.94915771484375 3 482.949356 1445.82624 NaN NaN NaN NaN NaN NaN NaN 94.148 1 94.779 94.279 95.279 0.63115 0 0 0 1.0018 1 43302 43302 0.15932 0.064481 1 + 18423 11617 11765 11793 21101 21101 0.12115728321782626 LRQPVEWV 8 Unmodified _LRQPVEWV_ 0 0 0 REV__ENSG00000185386|ENST00000330651|MAPK11 REV__ENSG00000185386|ENST00000330651|MAPK11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.2928466796875 2 513.790184 1025.56581 3.2428 0.0016661 2.0027 0.001029 5.2455 0.0026951 513.7907758823166 39.934 0.29361 39.934 39.772 40.066 0 32 12 3 0 0 0 0.7441 1 18101 18101 2.3027 0.24298 1 870430 + 18424 14018 11766 11794 21102 21102 0.05405466542742943 LRQRKKKRRRR 11 Unmodified _LRQRKKKRRRR_ 0 0 0 REV__ENST00000361428.2_3_6:43308074-43308122:-|nuORF REV__ENST00000361428.2_3_6:43308074-43308122:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 791.028076171875 2 791.029657 1580.04476 NaN NaN NaN NaN NaN NaN NaN 82.705 1 82.952 82.452 83.452 0.24722 0 0 0 1.0082 1 38068 38068 0 0 1 + 18425 15623 11767 11795 21103 21103 0.27794080955595746 LRQRRRQRWRP 11 Unmodified _LRQRRRQRWRP_ 0 0 0 REV__ENST00000374355.7_1_X:69672199-69672442:+|nuORF REV__ENST00000374355.7_1_X:69672199-69672442:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 804.4861450195312 2 804.48254 1606.95053 NaN NaN NaN NaN NaN NaN NaN 69.273 1 69.273 68.773 69.773 0 0 0 0 1.0072 1 33434 33434 1.3295 1.3295 1 + 18426 15783 11768 11796 21104 21104 0.17132942133457618 LRQSRLQDI 9 Unmodified _LRQSRLQDI_ 0 0 0 REV__nc|ENSG00000100629|Q6ZU80-1|CEP128 REV__nc|ENSG00000100629|Q6ZU80-1|CEP128 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.8887023925781 3 376.887645 1127.64111 2.5583 0.00096419 0.28755 0.00010838 2.8458 0.0010726 376.8877737739488 16.797 1.407 17.101 16.153 17.56 0.30438 347 148 3 0 0 0 0.81759 1 7444 7444 7.1017 0 1 437530 + 18427 10841 11769 11797 21105 21105 0.08239024003182749 LRQTLWPL 8 Unmodified _LRQTLWPL_ 0 0 0 nc|ENSG00000158109|Q5T0D9-2|TPRG1L;ENSG00000158109|ENST00000378344|TPRG1L nc|ENSG00000158109|Q5T0D9-2|TPRG1L nc|ENSG00000158109|Q5T0D9-2|TPRG1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.810302734375 2 513.808377 1025.6022 3.5591 0.0018287 1.34 0.00068851 4.8991 0.0025172 513.8088443644946 44.216 0.39961 44.866 44.775 45.174 0.64998 44 19 3 0 0 0 0.65723 1 20258 20258 9.3474 0 1 2055800 18428 3975 11770 11798 21106 21106 0.09042343439477918 LRQYRNKA 8 Unmodified _LRQYRNKA_ 0 0 0 REV__PRR12|p.N831Mfs*8|1|0.28|ENSG00000126464|chr19:49614937-49614937|A/-|frameshift_variant REV__PRR12|p.N831Mfs*8|1|0.28|ENSG00000126464|chr19:49614937-49614937|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.20684814453125 3 350.205197 1047.59376 NaN NaN NaN NaN NaN NaN NaN 44.79 1 45.611 45.111 46.111 0.82075 0 0 0 0.99035 1 20398 20398 1.6526 0.17072 1 + 18429 11711 11771 11799 21107 21107 0.07186789522825165 LRQYRNKA 8 Unmodified _LRQYRNKA_ 0 0 0 REV__PRR12|p.N831Mfs*8|1|0.28|ENSG00000126464|chr19:49614937-49614937|A/-|frameshift_variant REV__PRR12|p.N831Mfs*8|1|0.28|ENSG00000126464|chr19:49614937-49614937|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.217041015625 3 350.205197 1047.59376 NaN NaN NaN NaN NaN NaN NaN 69.397 1 70.058 69.558 70.558 0.66071 0 0 0 0.99035 1 31813 31813 3.9444 0 1 + 18430 11711 11771 11799 21108 21108 0.07186789522825165 LRRAARRF 8 Unmodified _LRRAARRF_ 0 0 0 REV__nc|ENSG00000154358|Q5VST9|OBSCN REV__nc|ENSG00000154358|Q5VST9|OBSCN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.3291625976562 2 523.328134 1044.64171 NaN NaN NaN NaN NaN NaN NaN 53.819 1 54.619 54.119 55.119 0.80013 0 0 0 0.99035 1 24559 24559 2.5775 0 1 + 18431 12706 11772 11800 21109 21109 0.1211790823354022 LRRAMELRRRR 11 Unmodified _LRRAMELRRRR_ 0 0 0 nc|ENSG00000137776|Q9NWH9-3|SLTM;ENSG00000137776|ENST00000380516|SLTM nc|ENSG00000137776|Q9NWH9-3|SLTM nc|ENSG00000137776|Q9NWH9-3|SLTM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 756.9606323242188 2 756.960052 1511.90555 NaN NaN NaN NaN NaN NaN NaN 83.237 1 83.485 82.985 83.985 0.24722 0 0 0 1.008 1 38316 38316 0.26902 0.26902 1 18432 3040 11773 11801 21110 21110 0.17007375275898085 LRREVYSFG 9 Unmodified _LRREVYSFG_ 0 0 0 ENST00000595601.1_1_19:17651040-17654446:+|nuORF;nc|ENSG00000167483|Q86XR2-6|NIBAN3;nc|ENSG00000167483|Q86XR2-5|NIBAN3;nc|ENSG00000167483|Q86XR2-7|NIBAN3;nc|ENSG00000167483|Q86XR2-4|NIBAN3;ENSG00000167483|ENST00000599164|NIBAN3;nc|ENSG00000167483|Q86XR2-3|NIBAN3;nc|ENSG00000167483|Q86XR2-2|NIBAN3;nc|ENSG00000167483|Q86XR2|NIBAN3 ENST00000595601.1_1_19:17651040-17654446:+|nuORF ENST00000595601.1_1_19:17651040-17654446:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.8045043945312 2 563.803823 1125.59309 3.8914 0.002194 -0.21371 -0.00012049 3.6776 0.0020735 563.8037144022716 30.275 0.26488 30.533 30.437 30.702 0.25804 22 13 2 0 0 0 1.129 1 13835 13835 1.8442 0.19162 1 708360 18433 4554 11774 11802 21111 21111 0.035319500831292316 LRRIKTKF 8 Unmodified _LRRIKTKF_ 0 0 0 REV__ENSG00000129173|ENST00000250024|E2F8 REV__ENSG00000129173|ENST00000250024|E2F8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.124267578125 2 531.350743 1060.68693 NaN NaN NaN NaN NaN NaN NaN 55.818 1 56.605 56.105 57.105 0.78711 0 0 0 0.99035 1 25496 25496 0.79363 0 1 + 18434 11780 11775 11803 21112 21112 0.15901713976086285 LRRILLELIIF 11 Unmodified _LRRILLELIIF_ 0 0 0 ENST00000378239.5_2_2:54040143-54041723:+|nuORF ENST00000378239.5_2_2:54040143-54041723:+|nuORF ENST00000378239.5_2_2:54040143-54041723:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 700.4158935546875 2 699.963397 1397.91224 NaN NaN NaN NaN NaN NaN NaN 47.781 1 48.044 47.544 48.544 0.26363 0 0 0 1.0082 1 21841 21841 0 0 1 18435 7430 11776 11804 21113 21113 0.22920198655606328 LRRKAYDITL 10 Unmodified _LRRKAYDITL_ 0 0 0 REV__ENSG00000070018|ENST00000261349|LRP6 REV__ENSG00000070018|ENST00000261349|LRP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 624.5481567382812 2 624.874779 1247.73501 NaN NaN NaN NaN NaN NaN NaN 85.233 1 85.899 85.399 86.399 0.66566 0 0 0 1.0015 1 39251 39251 0.40072 0 1 + 18436 10472 11777 11805 21114 21114 0.1210474310544214 LRRKLWRRPRR 11 Unmodified _LRRKLWRRPRR_ 0 0 0 REV__ENST00000251102.12_1_16:57965650-57974178:-|nuORF REV__ENST00000251102.12_1_16:57965650-57974178:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 797.0109252929688 2 797.013476 1592.0124 NaN NaN NaN NaN NaN NaN NaN 61.168 1 61.908 61.408 62.408 0.7396 0 0 0 1.0082 1 28328 28328 0 0 1 + 18437 14907 11778 11806 21115 21115 0.24007293552585907 LRRKRLFG 8 Unmodified _LRRKRLFG_ 0 0 0 ENST00000421386.1_2_2:224466893-224466935:-|nuORF ENST00000421386.1_2_2:224466893-224466935:-|nuORF ENST00000421386.1_2_2:224466893-224466935:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.3392944335938 2 523.34071 1044.66687 NaN NaN NaN NaN NaN NaN NaN 54.562 1 55.357 54.857 55.857 0.79552 0 0 0 0.99035 1 24896 24896 0.79363 0 1 18438 7758 11779 11807 21116 21116 0.14631963036140405 LRRKRRRMFRR 11 Unmodified _LRRKRRRMFRR_ 0 0 0 REV__ENST00000391975.5_1_2:242194961-242195633:-|nuORF REV__ENST00000391975.5_1_2:242194961-242195633:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 816.008056640625 2 816.01041 1630.00627 NaN NaN NaN NaN NaN NaN NaN 72.342 1 72.342 71.842 72.842 0 0 0 0 1.0082 1 35190 35190 0 0 1 + 18439 15924 11780 11808 21117 21117 0.216464520494128 LRRKWRRWHLQ 11 Unmodified _LRRKWRRWHLQ_ 0 0 0 nc|ENSG00000114812|P32241-2|VIPR1;ENST00000498102.1_1_3:42576287-42577770:+|nuORF;nc|ENSG00000114812|P32241-3|VIPR1;nc|ENSG00000114812|P32241-4|VIPR1;nc|ENSG00000114812|P32241-5|VIPR1;ENSG00000114812|ENST00000325123|VIPR1 nc|ENSG00000114812|P32241-2|VIPR1 nc|ENSG00000114812|P32241-2|VIPR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 817.9861450195312 2 817.984384 1633.95422 NaN NaN NaN NaN NaN NaN NaN 83.303 1 83.303 82.803 83.803 0 0 0 0 1.0082 1 41931 41931 0 0 1 18440 9603 11781 11809 21118 21118 0.16259611907344151 LRRLLHRWRRL 11 Unmodified _LRRLLHRWRRL_ 0 0 0 REV__ENST00000342232.4_1_8:75233190-75233559:-|nuORF REV__ENST00000342232.4_1_8:75233190-75233559:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 788.0034790039062 2 788.002577 1573.9906 NaN NaN NaN NaN NaN NaN NaN 89.245 1 89.309 88.809 89.809 0.064346 0 0 0 1.0082 1 45688 45688 0 0 1 + 18441 15471 11782 11810 21119 21119 0.2265648880406843 LRRLLVKHKVG 11 Unmodified _LRRLLVKHKVG_ 0 0 0 REV__ENSG00000148411|ENST00000277554|NACC2 REV__ENSG00000148411|ENST00000277554|NACC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 440.2963562011719 3 440.297979 1317.87211 NaN NaN NaN NaN NaN NaN NaN 76.085 1 76.709 76.209 77.209 0.62397 0 0 0 1.0073 1 36858 36858 0.40827 0.26837 1 + 18442 12537 11783 11811 21120 21120 0.22588696775665085 LRRLRPRRWQQ 11 Unmodified _LRRLRPRRWQQ_ 0 0 0 REV__ENSG00000136378|ENST00000388820|ADAMTS7 REV__ENSG00000136378|ENST00000388820|ADAMTS7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 782.975830078125 2 782.974016 1563.93348 NaN NaN NaN NaN NaN NaN NaN 104.01 1 104.01 103.51 104.51 0 0 0 0 1.0082 1 57275 57275 0 0 1 + 18443 12067 11784 11812 21121 21121 0.1740702152767426 LRRLRWYFFTR 11 Unmodified _LRRLRWYFFTR_ 0 0 0 REV__nc|ENSG00000278540|Q13085-3|ACACA REV__nc|ENSG00000278540|Q13085-3|ACACA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.4622192382812 2 807.462419 1612.91028 NaN NaN NaN NaN NaN NaN NaN 97.404 1 97.404 96.904 97.904 0 0 0 0 1.0082 1 53018 53018 0 0 1 + 18444 14751 11785 11813 21122 21122 0.12834582690311436 LRRLVRLLHRL 11 Unmodified _LRRLVRLLHRL_ 0 0 0 REV__ENST00000590513.2_1_17:40706270-40706666:-|nuORF REV__ENST00000590513.2_1_17:40706270-40706666:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 722.9892578125 2 722.988604 1443.96265 NaN NaN NaN NaN NaN NaN NaN 104.64 1 104.69 104.19 105.19 0.052994 0 0 0 1.0082 1 56636 56636 0 0 1 + 18445 17575 11786 11814 21123 21123 0.25843165823971503 LRRMMTATFI 10 Unmodified _LRRMMTATFI_ 0 0 0 ENST00000377269.3_1_X:47071876-47072398:+|nuORF ENST00000377269.3_1_X:47071876-47072398:+|nuORF ENST00000377269.3_1_X:47071876-47072398:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.8963317871094 3 413.894866 1238.66277 2.3918 0.00098997 0.59233 0.00024516 2.9842 0.0012351 413.8951373056682 13.101 0.21723 13.408 13.301 13.518 0.30727 29 11 3 0 0 0 0.72019 1 5886 5886 7.4771 2.0744 1 355110 18446 7411 11787 11815 21124 21124 0.05298369435877248 LRRMRKKRW 9 Unmodified _LRRMRKKRW_ 0 0 0 REV__ENST00000451383.1_1_2:67108241-67108316:-|nuORF REV__ENST00000451383.1_1_2:67108241-67108316:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 665.4129028320312 2 665.411675 1328.8088 NaN NaN NaN NaN NaN NaN NaN 24.839 1 25.575 25.075 26.075 0.73623 0 0 0 0.91238 1 11134 11134 0.52476 0 1 + 18447 14567 11788 11816 21125 21125 0.15754432786798134 LRRQIARF 8 Unmodified _LRRQIARF_ 0 0 0 REV__ENST00000496029.1_1_7:33423429-33429869:+|nuORF REV__ENST00000496029.1_1_7:33423429-33429869:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.2451171875 2 530.330342 1058.64613 NaN NaN NaN NaN NaN NaN NaN 66.08 1 66.08 65.58 66.58 0 0 0 0 0.967 1 31538 31538 7.9102 1.187 1 + 18448 11587 11789 11817 21126 21126 0.11915372656449108 LRRQYDELRQK 11 Unmodified _LRRQYDELRQK_ 0 0 0 REV__ENST00000529970.5_1_11:120278459-120348246:+|nuORF REV__ENST00000529970.5_1_11:120278459-120348246:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.2848815917969 3 502.282946 1503.82701 3.1211 0.0015677 2.1572 0.0010835 5.2783 0.0026512 502.28402859325416 43.624 0.28173 43.893 43.701 43.983 0.2694 15 8 3 0 0 0 0.904 1 19936 19936 2.2527 0.79761 1 592820 + 18449 14246 11790 11818 21127 21127 0.09524801451811982 LRRRKKLQNLH 11 Unmodified _LRRRKKLQNLH_ 0 0 0 REV__nc|ENSG00000043514|Q9H3H1-6|TRIT1 REV__nc|ENSG00000043514|Q9H3H1-6|TRIT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.487060546875 4 366.236385 1460.91643 2.7417 0.0010041 0.43543 0.00015947 3.1772 0.0011636 366.23737929138093 44.207 1.0954 44.857 44.525 45.62 0.64998 84 46 3 0 0 0 0.91391 1 20305 20305 0.08335 0 1 2022600 + 18450 10328 11791 11819 21128 21128 0.20441100921880206 LRRRKRFKRQP 11 Unmodified _LRRRKRFKRQP_ 0 0 0 ENSG00000251493|ENST00000615637|FOXD1;ENSG00000186564|ENST00000334793|FOXD2 ENSG00000251493|ENST00000615637|FOXD1 ENSG00000251493|ENST00000615637|FOXD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 770.9854125976562 2 770.992209 1539.96987 NaN NaN NaN NaN NaN NaN NaN 97.801 1 97.871 97.371 98.371 0.070648 0 0 0 1.008 1 52396 52396 0.30703 0.30703 1 18451 6268 11792 11820 21129 21129 0.22147898424373125 LRRRKVHREVI 11 Unmodified _LRRRKVHREVI_ 0 0 0 nc|nan|Q5JPI3-2|C3orf38;ENSG00000179021|ENST00000318887|C3orf38 nc|nan|Q5JPI3-2|C3orf38 nc|nan|Q5JPI3-2|C3orf38 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.2365417480469 4 366.236385 1460.91643 2.3165 0.00084839 0.14412 5.2783E-05 2.4606 0.00090117 366.2371905380282 44.636 0.8249 45.456 45.029 45.854 0.82075 82 40 3 0 0 0 0.91391 1 20308 20308 0.08335 0.010087 1 1882400 18452 5193 11793 11821 21130 21130 0.2044110092185747 LRRRKVHREVI 11 Unmodified _LRRRKVHREVI_ 0 0 0 nc|nan|Q5JPI3-2|C3orf38;ENSG00000179021|ENST00000318887|C3orf38 nc|nan|Q5JPI3-2|C3orf38 nc|nan|Q5JPI3-2|C3orf38 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.23858642578125 4 366.236385 1460.91643 2.7417 0.0010041 0.43543 0.00015947 3.1772 0.0011636 366.23737929138093 44.207 1.0954 44.857 44.525 45.62 0.64998 84 46 3 0 0 0 0.91391 1 20253 20253 0.08335 0.08335 1 2022600 18453 5193 11793 11821 21131 21131 0.2044110092185747 LRRRLRRFLFL 11 Unmodified _LRRRLRRFLFL_ 0 0 0 REV__ENST00000368655.4_1_1:153800818-153895301:-|nuORF REV__ENST00000368655.4_1_1:153800818-153895301:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.097900390625 3 516.003678 1544.9892 NaN NaN NaN NaN NaN NaN NaN 68.505 1 69.207 68.707 69.707 0.70218 0 0 0 1.0082 1 32663 32663 0 0 1 + 18454 15689 11794 11822 21132 21132 0.23850854715283276 LRRRLRRFLFL 11 Unmodified _LRRRLRRFLFL_ 0 0 0 REV__ENST00000368655.4_1_1:153800818-153895301:-|nuORF REV__ENST00000368655.4_1_1:153800818-153895301:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 773.5035400390625 2 773.501878 1544.9892 NaN NaN NaN NaN NaN NaN NaN 100.4 1 100.46 99.964 100.96 0.059723 0 0 0 1.0082 1 54469 54469 0 0 1 + 18455 15689 11794 11822 21133 21133 0.23850854715283276 LRRRQVLEGS 10 Unmodified _LRRRQVLEGS_ 0 0 0 ENST00000505306.5_1_17:48133647-48154208:+|nuORF;ENSG00000005884|ENST00000320031|ITGA3;nc|ENSG00000005884|P26006-1|ITGA3;ENST00000506401.6_1_17:48148218-48152910:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.2467041015625 3 405.242311 1212.7051 NaN NaN NaN NaN NaN NaN NaN 79.759 1 80.008 79.508 80.508 0.24947 0 0 0 0.99976 1 36725 36725 1.9064 0.1641 1 18456 335 11795 11823 21134 21134 0.10725804160119878 LRRRRFKMRR 10 Unmodified _LRRRRFKMRR_ 0 0 0 ENSG00000023171|ENST00000635736|GRAMD1B ENSG00000023171|ENST00000635736|GRAMD1B ENSG00000023171|ENST00000635736|GRAMD1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 737.9608154296875 2 737.959855 1473.90516 NaN NaN NaN NaN NaN NaN NaN 54.588 1 54.588 54.088 55.088 0 0 0 0 1.0015 1 25053 25053 0.40072 0.093686 1 18457 467 11796 11824 21135 21135 0.1871600034671701 LRRRRRRKWRE 11 Unmodified _LRRRRRRKWRE_ 0 0 0 REV__ENST00000326402.8_2_11:92930946-92931072:-|nuORF REV__ENST00000326402.8_2_11:92930946-92931072:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 834.8086547851562 2 834.516914 1667.01927 NaN NaN NaN NaN NaN NaN NaN 89.933 1 89.998 89.498 90.498 0.064346 0 0 0 1.0082 1 46214 46214 0 0 1 + 18458 15354 11797 11825 21136 21136 0.2124460643317434 LRRRWRRRRPS 11 Unmodified _LRRRWRRRRPS_ 0 0 0 REV__ENST00000375344.7_1_9:97136898-97137102:+|nuORF REV__ENST00000375344.7_1_9:97136898-97137102:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.2493896484375 4 399.498904 1593.96651 3.0079 0.0012017 -0.12702 -5.0744E-05 2.8809 0.0011509 399.49880047802515 53.744 0.23087 53.744 53.676 53.906 0 18 14 2 0 0 0 0.13295 1 24654 24654 0.08335 0.010087 1 1321100 + 18459 15801 11798 11826 21137 21137 0.1932864837035595 LRRRWRRRRPS 11 Unmodified _LRRRWRRRRPS_ 0 0 0 REV__ENST00000375344.7_1_9:97136898-97137102:+|nuORF REV__ENST00000375344.7_1_9:97136898-97137102:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 399.498904 1593.96651 3.0927 0.0012355 -0.61811 -0.00024693 2.4746 0.00098859 399.4987663537625 53.417 0.31947 53.681 53.456 53.775 0.26424 -0.031437 -0.00042258 NaN 0.08335 23 19 2 NaN NaN NaN NaN 0 NaN NaN 0 892700 + 18460 15801 11798 11826 0.1932864837035595 LRRRWRRRRWG 11 Unmodified _LRRRWRRRRWG_ 0 0 0 REV__ENST00000597330.1_1_19:58557520-58558126:+|nuORF REV__ENST00000597330.1_1_19:58557520-58558126:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 827.4954223632812 2 827.498524 1652.9825 NaN NaN NaN NaN NaN NaN NaN 72.382 1 72.382 71.882 72.882 0 0 0 0 1.0082 1 35210 35210 0 0 1 + 18461 17620 11799 11827 21138 21138 0.18212354607248926 LRRRYLRLRY 10 Unmodified _LRRRYLRLRY_ 0 0 0 ENSG00000147119|ENST00000276055|CHST7 ENSG00000147119|ENST00000276055|CHST7 ENSG00000147119|ENST00000276055|CHST7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 732.9544677734375 2 732.954761 1463.89497 NaN NaN NaN NaN NaN NaN NaN 100.48 1 100.79 100.29 101.29 0.31412 0 0 0 1.0015 1 46480 46480 0.40072 0.050084 1 18462 3545 11800 11828 21139 21139 0.1815771589315318 LRRVPYRERTL 11 Unmodified _LRRVPYRERTL_ 0 0 0 REV__ENST00000463932.1_1_2:242674639-242675412:+|nuORF REV__ENST00000463932.1_1_2:242674639-242675412:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.295654296875 3 486.959915 1457.85791 3.4077 0.0016594 -1.565 -0.00076212 1.8426 0.00089728 487.2938885269671 95.933 1.2153 96.541 95.874 97.089 0.60769 110 64 2 0 0 0 0.91345 1 44099 44099 0.45452 0.31463 1 1261300 + 18463 13836 11801 11829 21140 21140 0.1472999955672094 LRRWFLWRRRR 11 Unmodified _LRRWFLWRRRR_ 0 0 0 ENST00000368742.3_1_1:153234210-153234426:+|nuORF ENST00000368742.3_1_1:153234210-153234426:+|nuORF ENST00000368742.3_1_1:153234210-153234426:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.6763305664062 3 567.678076 1700.0124 NaN NaN NaN NaN NaN NaN NaN 81.077 1 81.077 80.577 81.577 0 0 0 0 1.0082 1 40357 40357 0 0 1 18464 7285 11802 11830 21141 21141 0.19039293552577874 LRRYSVDLR 9 Unmodified _LRRYSVDLR_ 0 0 0 nc|ENSG00000138030|P50053-2|KHK nc|ENSG00000138030|P50053-2|KHK nc|ENSG00000138030|P50053-2|KHK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.3430786132812 2 589.343646 1176.67274 NaN NaN NaN NaN NaN NaN NaN 103.89 1 103.89 103.39 104.39 0 0 0 0 0.91238 1 57220 57220 0.52476 0 1 18465 9662 11803 11831 21142 21142 0.09147016757128767 LRRYVRPFFLL 11 Unmodified _LRRYVRPFFLL_ 0 0 0 REV__ENST00000434837.7_1_6:37665242-37665689:-|nuORF REV__ENST00000434837.7_1_6:37665242-37665689:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.9707336425781 3 493.969751 1478.88742 3.2398 0.0016004 -0.48162 -0.00023791 2.7582 0.0013624 493.9693772443709 55.741 0.29385 56.409 56.316 56.61 0.66798 20 10 3 0 0 0 0.8052 1 25521 25521 6.6235 4.3707 1 947960 + 18466 16295 11804 11832 21143 21143 0.167135635728755 LRRYVRPFFLL 11 Unmodified _LRRYVRPFFLL_ 0 0 0 REV__ENST00000434837.7_1_6:37665242-37665689:-|nuORF REV__ENST00000434837.7_1_6:37665242-37665689:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 493.969751 1478.88742 2.8499 0.0014077 -0.45954 -0.000227 2.3903 0.0011807 493.96932679543437 55.897 0.18306 56.684 56.635 56.818 0.78711 0.066163 4.3702E-05 NaN 6.6235 24 14 3 NaN NaN NaN NaN 0 NaN NaN 0 816080 + 18467 16295 11804 11832 0.167135635728755 LRRYVRPFFLL 11 Unmodified _LRRYVRPFFLL_ 0 0 0 REV__ENST00000434837.7_1_6:37665242-37665689:-|nuORF REV__ENST00000434837.7_1_6:37665242-37665689:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 493.969751 1478.88742 3.1454 0.0015538 -0.52542 -0.00025954 2.62 0.0012942 494.304114592797 56.496 0.18619 56.761 56.696 56.882 0.26543 0.14312 -5.3931E-05 NaN 6.6235 20 12 2 NaN NaN NaN NaN 0 NaN NaN 0 698310 + 18468 16295 11804 11832 0.167135635728755 LRRYVRPFFLL 11 Unmodified _LRRYVRPFFLL_ 0 0 0 REV__ENST00000434837.7_1_6:37665242-37665689:-|nuORF REV__ENST00000434837.7_1_6:37665242-37665689:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 493.969751 1478.88742 3.2398 0.0016004 -0.48162 -0.00023791 2.7582 0.0013624 493.9693772443709 55.741 0.29385 56.409 56.316 56.61 0.66798 -0.20928 1.0972E-05 NaN 6.6235 20 10 3 NaN NaN NaN NaN 0 NaN NaN 0 947960 + 18469 16295 11804 11832 0.167135635728755 LRSIPQPG 8 Unmodified _LRSIPQPG_ 0 0 0 REV__nc|ENSG00000051180|Q06609-2|RAD51 REV__nc|ENSG00000051180|Q06609-2|RAD51 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.25732421875 2 434.255977 866.497401 2.957 0.0012841 0.52134 0.0002264 3.4783 0.0015105 434.256174914501 26.395 0.24302 27.02 26.888 27.131 0.62505 20 12 2 0 0 0 0.51067 1 12092 12092 20.454 3.5113 1 439880 + 18470 10351 11805 11833 21144 21144 0.05881221962897598 LRSIPQPG 8 Unmodified _LRSIPQPG_ 0 0 0 REV__nc|ENSG00000051180|Q06609-2|RAD51 REV__nc|ENSG00000051180|Q06609-2|RAD51 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 434.255977 866.497401 2.6986 0.0011719 -0.052042 -2.2599E-05 2.6466 0.0011493 434.25622040828495 26.097 0.18356 26.86 26.763 26.946 0.76357 -0.11211 -0.00043838 NaN 20.454 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 159360 + 18471 10351 11805 11833 0.05881221962897598 LRSIPQPG 8 Unmodified _LRSIPQPG_ 0 0 0 REV__nc|ENSG00000051180|Q06609-2|RAD51 REV__nc|ENSG00000051180|Q06609-2|RAD51 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 434.255977 866.497401 2.957 0.0012841 0.52134 0.0002264 3.4783 0.0015105 434.256174914501 26.395 0.24302 27.02 26.888 27.131 0.62505 0.048211 5.9617E-05 NaN 20.454 20 12 2 NaN NaN NaN NaN 0 NaN NaN 0 439880 + 18472 10351 11805 11833 0.05881221962897598 LRSPLRQFFFV 11 Unmodified _LRSPLRQFFFV_ 0 0 0 ENST00000393357.6_1_1:114301402-114301543:-|nuORF ENST00000393357.6_1_1:114301402-114301543:-|nuORF ENST00000393357.6_1_1:114301402-114301543:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.6074523925781 3 470.60659 1408.79794 2.8923 0.0013611 0.33101 0.00015578 3.2233 0.0015169 470.6065623333013 54.738 0.74872 55.405 55.337 56.085 0.6665 58 36 3 0 0 0 0.91149 1 25295 25295 0.36667 0.037403 1 1481200 18473 7531 11806 11834 21145 21145 0.10989308893476846 LRSQVSELFL 10 Unmodified _LRSQVSELFL_ 0 0 0 REV__nc|ENSG00000275835|Q96RT8-2|TUBGCP5 REV__nc|ENSG00000275835|Q96RT8-2|TUBGCP5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 397.8968200683594 3 397.895917 1190.66592 2.4925 0.00099175 -0.58647 -0.00023335 1.906 0.00075839 397.89563292032005 13.863 0.14644 14.107 14.04 14.186 0.24346 35 19 2 0 0 0 0.3084 1 6058 6058 28.234 0 1 3024300 + 18474 14739 11807 11835 21146 21146 0.07821659085880128 LRSSNPLTSL 10 Unmodified _LRSSNPLTSL_ 0 0 0 ENST00000569952.1_1_16:72142713-72143598:+|nuORF ENST00000569952.1_1_16:72142713-72143598:+|nuORF ENST00000569952.1_1_16:72142713-72143598:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.3113403320312 2 544.308938 1086.60332 NaN NaN NaN NaN NaN NaN NaN 48.049 1 48.878 48.378 49.378 0.82915 0 0 0 0.9754 1 21889 21889 9.3831 0.035688 1 18475 9080 11808 11836 21147 21147 0.06348513017701407 LRSVTRPL 8 Unmodified _LRSVTRPL_ 0 0 0 REV__nc|ENSG00000144481|Q7Z2W7-4|TRPM8 REV__nc|ENSG00000144481|Q7Z2W7-4|TRPM8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 471.29998779296875 2 471.298176 940.581799 2.9596 0.0013949 -0.1698 -8.0025E-05 2.7898 0.0013149 471.2981267533219 21.871 0.24239 21.871 21.745 21.987 0 34 20 2 0 0 0 0.7471 1 9838 9838 1.8442 0 1 141500 + 18476 12405 11809 11837 21148 21148 0.1091317277964663 LRSWFLSEF 9 Unmodified _LRSWFLSEF_ 0 0 0 ENST00000399075.6_1_4:120219886-120221493:-|nuORF ENST00000399075.6_1_4:120219886-120221493:-|nuORF ENST00000399075.6_1_4:120219886-120221493:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 395.5410461425781 3 395.541475 1183.60259 NaN NaN NaN NaN NaN NaN NaN 22.33 1 22.918 22.418 23.418 0.58739 0 0 0 0.75242 1 9933 9933 10.8 5.3968 1 18477 7597 11810 11838 21149 21149 0.018137183686576464 LRTFLPLPQ 9 Unmodified _LRTFLPLPQ_ 0 0 0 ENST00000487162.1_1_22:50967153-50967951:-|nuORF ENST00000487162.1_1_22:50967153-50967951:-|nuORF ENST00000487162.1_1_22:50967153-50967951:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.8289184570312 2 542.829309 1083.64407 NaN NaN NaN NaN NaN NaN NaN 42.919 1 43.734 43.234 44.234 0.81444 0 0 0 0.8974 1 19514 19514 3.5965 0 1 18478 8346 11811 11839 21150 21150 0.10558899127977384 LRTITIAVLP 10 Unmodified _LRTITIAVLP_ 0 0 0 REV__ENSG00000171860|ENST00000307637|C3AR1 REV__ENSG00000171860|ENST00000307637|C3AR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.8558349609375 2 548.858067 1095.70158 NaN NaN NaN NaN NaN NaN NaN 45.366 1 45.634 45.134 46.134 0.26768 0 0 0 0.99846 1 20738 20738 2.9952 0 1 + 18479 13523 11812 11840 21151 21151 0.15755741333555306 LRTNNRRCCY 10 Unmodified _LRTNNRRCCY_ 0 0 0 ENSG00000167548|ENST00000301067|KMT2D;nc|ENSG00000167548|O14686-3|KMT2D ENSG00000167548|ENST00000301067|KMT2D ENSG00000167548|ENST00000301067|KMT2D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 433.395263671875 3 433.545007 1297.61319 NaN NaN NaN NaN NaN NaN NaN 65.849 1 66.558 66.058 67.058 0.70891 0 0 0 0.99812 1 31173 31173 1.5923 0.52082 1 18480 4561 11813 11841 21152 21152 -0.023709455201924357 LRTRRRRRRRR 11 Unmodified _LRTRRRRRRRR_ 0 0 0 ENST00000333602.10_1_3:195635568-195635940:-|nuORF ENST00000333602.10_1_3:195635568-195635940:-|nuORF ENST00000333602.10_1_3:195635568-195635940:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 819.531005859375 2 819.53343 1637.05231 NaN NaN NaN NaN NaN NaN NaN 70.125 1 70.828 70.328 71.328 0.70302 0 0 0 1.008 1 33590 33590 0.26902 0 1 18481 7014 11814 11842 21153 21153 0.2592623327586807 LRVFRARL 8 Unmodified _LRVFRARL_ 0 0 0 REV__ENSG00000230778|ENST00000434396|ANKRD63 REV__ENSG00000230778|ENST00000434396|ANKRD63 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.8364868164062 2 515.83526 1029.65597 NaN NaN NaN NaN NaN NaN NaN 59.898 1 59.898 59.398 60.398 0 0 0 0 0.99035 1 27718 27718 5.2307 0.90143 1 + 18482 14577 11815 11843 21154 21154 0.14232560661844218 LRVKYITRDF 10 Unmodified _LRVKYITRDF_ 0 0 0 REV__ENSG00000204967|ENST00000530339|PCDHA4 REV__ENSG00000204967|ENST00000530339|PCDHA4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.259033203125 3 437.590828 1309.75066 3.7172 0.0016266 1.3177 0.00057662 5.0349 0.0022032 437.5915244262354 105.53 0.37776 105.84 105.67 106.05 0.31782 22 14 2 0 0 0 0.12676 1 48646 48646 0.62683 0.17231 1 745750 + 18483 14447 11816 11844 21155 21155 0.10817029622489827 LRVLIHLIM 9 Unmodified _LRVLIHLIM_ 0 0 0 ENSG00000123104|ENST00000381340|ITPR2 ENSG00000123104|ENST00000381340|ITPR2 ENSG00000123104|ENST00000381340|ITPR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 369.90765380859375 3 369.907212 1106.69981 2.7684 0.001024 -1.2304 -0.00045513 1.538 0.00056891 369.90652979683705 36.837 0.69118 37.095 36.847 37.538 0.25768 55 22 3 0 0 0 1.2289 1 16798 16798 0.26902 0 1 2617900 18484 2293 11817 11845 21156 21156 0.15072409043932566 LRVLIHLIM 9 Unmodified _LRVLIHLIM_ 0 0 0 ENSG00000123104|ENST00000381340|ITPR2 ENSG00000123104|ENST00000381340|ITPR2 ENSG00000123104|ENST00000381340|ITPR2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 369.907212 1106.69981 2.8034 0.001037 -1.8038 -0.00066726 0.99953 0.00036973 369.9064405167543 37.179 0.42729 37.179 37.01 37.438 0 0.041984 -0.00029604 NaN 0.26902 40 15 3 NaN NaN NaN NaN 0 NaN NaN 0 2961000 18485 2293 11817 11845 0.15072409043932566 LRVYVVDTPML 11 Unmodified _LRVYVVDTPML_ 0 0 0 REV__nc|ENSG00000132259|Q8IV77-2|CNGA4 REV__nc|ENSG00000132259|Q8IV77-2|CNGA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 652.99951171875 2 653.365398 1304.71624 NaN NaN NaN NaN NaN NaN NaN 84.319 1 84.348 83.848 84.848 0.028603 0 0 0 1.0041 1 42036 42036 5.2969 0 1 + 18486 11881 11818 11846 21157 21157 0.07607445419398573 LRWCVKHRRRW 11 Unmodified _LRWCVKHRRRW_ 0 0 0 REV__ENST00000304877.17_2_6:125475035-125541268:+|nuORF REV__ENST00000304877.17_2_6:125475035-125541268:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 798.4511108398438 2 798.451862 1594.88917 NaN NaN NaN NaN NaN NaN NaN 88.345 1 88.397 87.897 88.897 0.052155 0 0 0 1.0082 1 44971 44971 0 0 1 + 18487 15221 11819 11847 21158 21158 0.11552294109833383 LRWFLWRLLWR 11 Unmodified _LRWFLWRLLWR_ 0 0 0 ENST00000264649.10_1_17:40610912-40612943:+|nuORF ENST00000264649.10_1_17:40610912-40612943:+|nuORF ENST00000264649.10_1_17:40610912-40612943:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.7626342773438 3 548.992779 1643.95651 NaN NaN NaN NaN NaN NaN NaN 79.008 1 79.008 78.508 79.508 0 0 0 0 1.0073 1 38956 38956 0.40827 0.32491 1 18488 6608 11820 11848 21159 21159 0.1602864759242948 LRWGRRAE 8 Unmodified _LRWGRRAE_ 0 0 0 REV__ENST00000484069.1_1_X:64743438-64749476:-|nuORF REV__ENST00000484069.1_1_X:64743438-64749476:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.8263549804688 2 522.296499 1042.57845 3.368 0.0017591 -0.77419 -0.00040436 2.5938 0.0013548 522.2961140745625 17.017 0.29559 17.678 17.506 17.802 0.66072 40 24 2 0 0 0 0.14313 1 7651 7651 0.69038 0 1 88091 + 18489 10155 11821 11849 21160 21160 0.05885922725656201 LRWIFFVF 8 Unmodified _LRWIFFVF_ 0 0 0 REV__ENSG00000221843|ENST00000447166|C2orf16 REV__ENSG00000221843|ENST00000447166|C2orf16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.3255615234375 2 564.323663 1126.63277 4.0811 0.0023031 0.41901 0.00023646 4.5001 0.0025395 564.3239917785494 91.968 0.39008 92.221 92.121 92.511 0.25253 25 18 2 0 0 0 0.74071 1 42341 42341 2.5775 0.27475 1 220550 + 18490 14538 11822 11850 21161 21161 0.0745212182450814 LRWRHWRRRLE 11 Unmodified _LRWRHWRRRLE_ 0 0 0 REV__ENSG00000215644|ENST00000400723|GCGR REV__ENSG00000215644|ENST00000400723|GCGR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 832.4766235351562 2 832.479466 1662.94438 NaN NaN NaN NaN NaN NaN NaN 28.668 1 29.457 28.957 29.957 0.78921 0 0 0 1.0082 1 12915 12915 0 0 1 + 18491 14528 11823 11851 21162 21162 0.13942423901926304 LRWRNRARNR 10 Unmodified _LRWRNRARNR_ 0 0 0 nc|ENSG00000223806|Q6XXX2|LINC00114 nc|ENSG00000223806|Q6XXX2|LINC00114 nc|ENSG00000223806|Q6XXX2|LINC00114 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 699.4103393554688 2 699.408509 1396.80247 4.1462 0.0028999 0.41451 0.00028991 4.5607 0.0031898 699.408644440052 93.719 0.52988 94.35 94.161 94.691 0.63115 39 24 2 0 0 0 0.94246 1 43174 43174 0.40072 0 1 470490 18492 9835 11824 11852 21163 21163 0.11993630879624106 LRYEIESIL 9 Unmodified _LRYEIESIL_ 0 0 0 REV__ENST00000507699.1_1_4:169819634-169847533:+|nuORF REV__ENST00000507699.1_1_4:169819634-169847533:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.3228759765625 2 568.321514 1134.62847 3.4697 0.0019719 0.8724 0.0004958 4.3421 0.0024677 568.3219955971805 50.49 0.29604 50.49 50.312 50.608 0 31 12 3 0 0 0 0.24465 2 23139 23093;23139 20.454 0 1 1170000 + 18493 11779 11825 11853 21164;21165 21165 0.06654567820282864 LRYEIESIL 9 Unmodified _LRYEIESIL_ 0 0 0 REV__ENST00000507699.1_1_4:169819634-169847533:+|nuORF REV__ENST00000507699.1_1_4:169819634-169847533:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.3234252929688 2 568.321514 1134.62847 3.6084 0.0020507 -0.8516 -0.00048398 2.7568 0.0015668 568.3211786677124 49.795 0.39061 50.453 50.277 50.668 0.65735 25 15 2 0 0 0 0.3144 1 22771 22771 15.847 0 1 784140 + 18494 11779 11825 11853 21166 21166 0.06654567820282864 LRYEIESIL 9 Unmodified _LRYEIESIL_ 0 0 0 REV__ENST00000507699.1_1_4:169819634-169847533:+|nuORF REV__ENST00000507699.1_1_4:169819634-169847533:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 568.321514 1134.62847 3.4697 0.0019719 0.8724 0.0004958 4.3421 0.0024677 568.3219955971805 50.49 0.29604 50.49 50.312 50.608 0 0.035078 0.00059799 NaN 20.454 31 12 3 NaN NaN NaN NaN 0 NaN NaN 0 1170000 + 18495 11779 11825 11853 0.06654567820282864 LRYEIESIL 9 Unmodified _LRYEIESIL_ 0 0 0 REV__ENST00000507699.1_1_4:169819634-169847533:+|nuORF REV__ENST00000507699.1_1_4:169819634-169847533:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 568.321514 1134.62847 3.445 0.0019579 0.158 8.9793E-05 3.603 0.0020477 568.3219005152596 50.426 0.23098 50.687 50.529 50.76 0.26146 0.23208 -0.00021403 NaN 20.454 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 835090 + 18496 11779 11825 11853 0.06654567820282864 LRYFKLRLRLI 11 Unmodified _LRYFKLRLRLI_ 0 0 0 REV__MER4-int_dup1854|chrY:4104844-4107652:+|1.373527874812219|0.2382143427425708|2.53|399.0|46|2|sense REV__MER4-int_dup1854|chrY:4104844-4107652:+|1.373527874812219|0.2382143427425708|2.53|399.0|46|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.7498474121094 4 373.497507 1489.96092 2.7601 0.0010309 1.9459 0.00072679 4.7059 0.0017577 373.4980139686984 60.419 0.19384 60.674 60.526 60.719 0.25578 30 10 4 0 0 0 0.91489 1 27641 27641 0 0 1 1165600 + 18497 17831 11826 11854 21167 21167 0.23554112015335704 LRYFKLRLRLI 11 Unmodified _LRYFKLRLRLI_ 0 0 0 REV__MER4-int_dup1854|chrY:4104844-4107652:+|1.373527874812219|0.2382143427425708|2.53|399.0|46|2|sense REV__MER4-int_dup1854|chrY:4104844-4107652:+|1.373527874812219|0.2382143427425708|2.53|399.0|46|2|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 373.497507 1489.96092 2.7601 0.0010309 1.9459 0.00072679 4.7059 0.0017577 373.4980139686984 60.419 0.19384 60.674 60.526 60.719 0.25578 -0.12715 -0.00030876 NaN 0 30 10 4 NaN NaN NaN NaN 0 NaN NaN 0 1165600 + 18498 17831 11826 11854 0.23554112015335704 LRYFKLRLRLI 11 Unmodified _LRYFKLRLRLI_ 0 0 0 REV__MER4-int_dup1854|chrY:4104844-4107652:+|1.373527874812219|0.2382143427425708|2.53|399.0|46|2|sense REV__MER4-int_dup1854|chrY:4104844-4107652:+|1.373527874812219|0.2382143427425708|2.53|399.0|46|2|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 373.497507 1489.96092 2.6801 0.001001 2.4715 0.00092311 5.1516 0.0019241 373.4984217769536 60.264 0.24642 60.929 60.843 61.09 0.66503 0.12715 0.00047654 NaN 0 20 12 2 NaN NaN NaN NaN 0 NaN NaN 0 562140 + 18499 17831 11826 11854 0.23554112015335704 LRYPIVTPR 9 Unmodified _LRYPIVTPR_ 0 0 0 ACAN|p.P1841Lfs*10|1|0.28|ENSG00000157766|chr15:88858104-88858104|C/-|frameshift_variant;nc|ENSG00000157766|P16112-3|ACAN;nc|ENSG00000157766|P16112-2|ACAN;nc|ENSG00000157766|P16112|ACAN;ENSG00000157766|ENST00000560601|ACAN ACAN|p.P1841Lfs*10|1|0.28|ENSG00000157766|chr15:88858104-88858104|C/-|frameshift_variant ACAN|p.P1841Lfs*10|1|0.28|ENSG00000157766|chr15:88858104-88858104|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 372.2206726074219 3 372.229231 1113.66586 NaN NaN NaN NaN NaN NaN NaN 42.11 1 42.918 42.418 43.418 0.80855 0 0 0 0.89451 1 19119 19119 4.897 1.5774 1 18500 4 11827 11855 21168 21168 0.1135770387654702 LRYRLWGIT 9 Unmodified _LRYRLWGIT_ 0 0 0 REV__TMC2|p.S589*|1|0.06|ENSG00000149488|chr20:2613215-2613216|TC/-|frameshift_variant REV__TMC2|p.S589*|1|0.06|ENSG00000149488|chr20:2613215-2613216|TC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.3453979492188 2 589.345658 1176.67676 NaN NaN NaN NaN NaN NaN NaN 84.601 1 84.848 84.348 85.348 0.24757 0 0 0 0.90611 1 38938 38938 2.0598 0 1 + 18501 12570 11828 11856 21169 21169 0.09549106250847217 LRYTLEINVRA 11 Unmodified _LRYTLEINVRA_ 0 0 0 nc|ENSG00000161905|P16050-2|ALOX15;ENSG00000161905|ENST00000293761|ALOX15 nc|ENSG00000161905|P16050-2|ALOX15 nc|ENSG00000161905|P16050-2|ALOX15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 674.3900756835938 2 674.390793 1346.76703 NaN NaN NaN NaN NaN NaN NaN 60.355 1 60.355 59.855 60.855 0 0 0 0 0.99571 1 28003 28003 7.1017 0.89594 1 18502 4107 11829 11857 21170 21170 0.10752110788621394 LRYWLPFLVRL 11 Unmodified _LRYWLPFLVRL_ 0 0 0 ENST00000558624.1_1_14:24587936-24588083:+|nuORF ENST00000558624.1_1_14:24587936-24588083:+|nuORF ENST00000558624.1_1_14:24587936-24588083:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 738.4446411132812 2 738.447914 1474.88128 NaN NaN NaN NaN NaN NaN NaN 65.305 1 65.305 64.805 65.805 0 0 0 0 1.0059 1 31094 31094 2.9952 0.26005 1 18503 8954 11830 11858 21171 21171 0.1628304534133349 LSAARILF 8 Unmodified _LSAARILF_ 0 0 0 REV__ENST00000345317.6_1_7:26894494-26904350:-|nuORF REV__ENST00000345317.6_1_7:26894494-26904350:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 445.7772216796875 2 445.776545 889.538538 2.4495 0.001092 0.1072 4.7786E-05 2.5567 0.0011397 445.7766207051377 55.457 0.35421 56.245 56.122 56.476 0.78711 57 30 2 0 0 0 0.15009 2 25352 25307;25352 48.346 0 1 5215700 + 18504 15505 11831 11859 21172;21173 21173 0.08934983002382069 LSAARILF 8 Unmodified _LSAARILF_ 0 0 0 REV__ENST00000345317.6_1_7:26894494-26904350:-|nuORF REV__ENST00000345317.6_1_7:26894494-26904350:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 445.77813720703125 2 445.776545 889.538538 3.1319 0.0013961 -0.23458 -0.00010457 2.8973 0.0012916 445.77631681894195 55.654 0.38518 56.322 56.179 56.564 0.66797 21 13 2 0 0 0 0.15009 1 25465 25465 48.346 8.3885 1 1736100 + 18505 15505 11831 11859 21174 21174 0.08934983002382069 LSAARILF 8 Unmodified _LSAARILF_ 0 0 0 REV__ENST00000345317.6_1_7:26894494-26904350:-|nuORF REV__ENST00000345317.6_1_7:26894494-26904350:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 445.776545 889.538538 2.4495 0.001092 0.1072 4.7786E-05 2.5567 0.0011397 445.7766207051377 55.457 0.35421 56.245 56.122 56.476 0.78711 -0.18442 0.00021172 NaN 48.346 57 30 2 NaN NaN NaN NaN 0 NaN NaN 0 5215700 + 18506 15505 11831 11859 0.08934983002382069 LSAARILF 8 Unmodified _LSAARILF_ 0 0 0 REV__ENST00000345317.6_1_7:26894494-26904350:-|nuORF REV__ENST00000345317.6_1_7:26894494-26904350:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 445.776545 889.538538 2.8022 0.0012491 -0.0065602 -2.9244E-06 2.7956 0.0012462 445.7764492254202 56.404 0.35876 56.669 56.484 56.842 0.26543 0.2405 0.0001103 NaN 48.346 46 22 3 NaN NaN NaN NaN 0 NaN NaN 0 2336000 + 18507 15505 11831 11859 0.08934983002382069 LSAARILF 8 Unmodified _LSAARILF_ 0 0 0 REV__ENST00000345317.6_1_7:26894494-26904350:-|nuORF REV__ENST00000345317.6_1_7:26894494-26904350:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 445.776545 889.538538 3.1319 0.0013961 -0.23458 -0.00010457 2.8973 0.0012916 445.77631681894195 55.654 0.38518 56.322 56.179 56.564 0.66797 -0.10701 -9.2995E-05 NaN 48.346 21 13 2 NaN NaN NaN NaN 0 NaN NaN 0 1736100 + 18508 15505 11831 11859 0.08934983002382069 LSAARLSHFPW 11 Unmodified _LSAARLSHFPW_ 0 0 0 REV__ENST00000354258.4_1_6:32820192-32820818:-|nuORF REV__ENST00000354258.4_1_6:32820192-32820818:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 428.90118408203125 3 428.899773 1283.67749 2.3883 0.0010243 0.60731 0.00026047 2.9956 0.0012848 428.90016410592 72.024 0.91272 72.687 72.094 73.007 0.66324 195 72 4 0 0 0 0.904 1 33004 33004 2.2527 2.2527 1 4105900 + 18509 15530 11832 11860 21175 21175 0.046999008999137004 LSAARVLLLL 10 Unmodified _LSAARVLLLL_ 0 0 0 ENST00000505322.5_1_1:2100378-2116445:+|nuORF ENST00000505322.5_1_1:2100378-2116445:+|nuORF ENST00000505322.5_1_1:2100378-2116445:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1068.7987060546875 1 1068.71394 1067.70667 3.6285 0.0038778 0.49872 0.00053299 4.1272 0.0044108 1068.7144421749315 91.201 0.31102 91.863 91.753 92.064 0.66198 14 12 2 0 0 0 0.90859 1 42015 42015 3.2813 0.97858 1 13619000 18510 8502 11833 11861 21176 21176 0.17552045196180188 LSADLRHGRRM 11 Unmodified _LSADLRHGRRM_ 0 0 0 REV__ENSG00000132702|ENST00000255039|HAPLN2 REV__ENSG00000132702|ENST00000255039|HAPLN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 656.3558349609375 2 656.356762 1310.69897 NaN NaN NaN NaN NaN NaN NaN 76.677 1 77.301 76.801 77.801 0.62397 0 0 0 1.0047 1 37173 37173 4.5289 0 1 + 18511 11908 11834 11862 21177 21177 0.056049626569574684 LSAKQRLSL 9 Unmodified _LSAKQRLSL_ 0 0 0 nc|ENSG00000285188|Q08493-2|PDE4C;ENSG00000105650|ENST00000262805|PDE4C;nc|ENSG00000285188|Q08493|PDE4C nc|ENSG00000285188|Q08493-2|PDE4C nc|ENSG00000285188|Q08493-2|PDE4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.3180847167969 2 508.316566 1014.61858 3.211 0.0016322 0.50042 0.00025437 3.7114 0.0018866 508.3165723765515 28.481 0.31134 28.741 28.583 28.894 0.2602 35 19 3 0 0 0 0.1776 2 12916 12916;13015 20.415 6.0752 1 739050 18512 1517 11835 11863 21178;21179 21178 0.11185424605582739 LSAKQRLSL 9 Unmodified _LSAKQRLSL_ 0 0 0 nc|ENSG00000285188|Q08493-2|PDE4C;ENSG00000105650|ENST00000262805|PDE4C;nc|ENSG00000285188|Q08493|PDE4C nc|ENSG00000285188|Q08493-2|PDE4C nc|ENSG00000285188|Q08493-2|PDE4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.21429443359375 3 339.213469 1014.61858 2.2788 0.00077299 -0.19238 -6.526E-05 2.0864 0.00070773 339.21342185607307 28.109 0.37033 28.729 28.538 28.908 0.61947 52 24 3 0 0 0 0.11155 1 12879 12879 29.841 6.0508 1 492730 18513 1517 11835 11863 21180 21180 0.11185424605582739 LSAKQRLSL 9 Unmodified _LSAKQRLSL_ 0 0 0 nc|ENSG00000285188|Q08493-2|PDE4C;ENSG00000105650|ENST00000262805|PDE4C;nc|ENSG00000285188|Q08493|PDE4C nc|ENSG00000285188|Q08493-2|PDE4C nc|ENSG00000285188|Q08493-2|PDE4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.3180847167969 2 508.316566 1014.61858 3.2419 0.0016479 -0.099452 -5.0553E-05 3.1425 0.0015974 508.3164264539241 28.099 0.37033 28.719 28.538 28.908 0.61947 42 24 2 0 0 0 0.12685 1 12941 12941 23.79 3.3752 1 594370 18514 1517 11835 11863 21181 21181 0.11185424605582739 LSCRWWTCWFR 11 Unmodified _LSCRWWTCWFR_ 0 0 0 ENST00000569069.1_1_15:75658861-75660070:-|nuORF ENST00000569069.1_1_15:75658861-75660070:-|nuORF ENST00000569069.1_1_15:75658861-75660070:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 772.3568115234375 2 772.357916 1542.70128 NaN NaN NaN NaN NaN NaN NaN 105.7 1 105.7 105.2 106.2 0 0 0 0 1.0072 1 58083 58083 1.3295 0.9789 1 18515 9073 11836 11864 21182 21182 -0.04836324929624425 LSCVTTEF 8 Unmodified _LSCVTTEF_ 0 0 0 REV__ENSG00000198765|ENST00000369522|SYCP1 REV__ENSG00000198765|ENST00000369522|SYCP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.21240234375 2 450.212586 898.410619 2.2843 0.0010284 -0.50941 -0.00022934 1.7749 0.00079908 450.21230610765576 73.075 0.44846 73.774 73.567 74.016 0.69881 88 42 3 0 0 0 0.65723 1 35258 35258 9.3474 0 1 1332100 + 18516 14357 11837 11865 21183 21183 -0.04264945373847695 LSDFLEVL 8 Unmodified _LSDFLEVL_ 0 0 0 REV__nc|ENSG00000132972|Q9BXT8-4|RNF17 REV__nc|ENSG00000132972|Q9BXT8-4|RNF17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 935.5119018554688 1 935.508425 934.501149 4.0564 0.0037948 0.30027 0.0002809 4.3566 0.0040757 935.50850802915 95.483 0.30763 96.091 95.934 96.242 0.60769 38 15 3 0 0 0 0.021444 2 43936 43886;43936 86.121 0 1 1752900 + 18517 11917 11838 11866 21184;21185 21185 0.03127846946108548 LSDFLEVL 8 Unmodified _LSDFLEVL_ 0 0 0 REV__nc|ENSG00000132972|Q9BXT8-4|RNF17 REV__nc|ENSG00000132972|Q9BXT8-4|RNF17 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 935.508425 934.501149 4.0564 0.0037948 0.30027 0.0002809 4.3566 0.0040757 935.50850802915 95.483 0.30763 96.091 95.934 96.242 0.60769 -0.16984 0.00017198 NaN 86.121 38 15 3 NaN NaN NaN NaN 0 NaN NaN 0 1752900 + 18518 11917 11838 11866 0.03127846946108548 LSDIFEVI 8 Unmodified _LSDIFEVI_ 0 0 0 ENST00000461039.1_1_1:64021028-64034235:+|nuORF;nc|ENSG00000203965|A8K855-2|EFCAB7;ENSG00000203965|ENST00000371088|EFCAB7 ENST00000461039.1_1_1:64021028-64034235:+|nuORF ENST00000461039.1_1_1:64021028-64034235:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 935.516357421875 1 935.508425 934.501149 4.551 0.0042575 -0.58666 -0.00054883 3.9643 0.0037086 935.5076526352924 96.153 0.30014 96.43 96.223 96.523 0.27778 24 14 2 0 0 0 0.045989 2 44136 44136;44187 67.035 0 1 1873400 18519 5983 11839 11867 21186;21187 21186 0.031278469460858105 LSDIFEVI 8 Unmodified _LSDIFEVI_ 0 0 0 ENST00000461039.1_1_1:64021028-64034235:+|nuORF;nc|ENSG00000203965|A8K855-2|EFCAB7;ENSG00000203965|ENST00000371088|EFCAB7 ENST00000461039.1_1_1:64021028-64034235:+|nuORF ENST00000461039.1_1_1:64021028-64034235:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.2591552734375 2 468.257851 934.501149 3.5793 0.0016761 -0.35142 -0.00016455 3.2279 0.0015115 468.25763018078646 96.139 0.3072 96.417 96.259 96.566 0.27779 27 14 3 0 0 0 0.13778 1 44150 44150 49.669 0 1 824140 18520 5983 11839 11867 21188 21188 0.031278469460858105 LSDKYLKI 8 Unmodified _LSDKYLKI_ 0 0 0 REV__ENSG00000196865|ENST00000369301|NHLRC2 REV__ENSG00000196865|ENST00000369301|NHLRC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.2973327636719 2 490.294768 978.574983 NaN NaN NaN NaN NaN NaN NaN 35.487 1 36.278 35.778 36.778 0.79131 0 0 0 0.99035 1 16084 16084 4.756 0 1 + 18521 14243 11840 11868 21189 21189 0.08483815108411363 LSDMFELDL 9 Unmodified _LSDMFELDL_ 0 0 0 ENST00000565932.5_1_16:28734455-28746831:+|nuORF;nc|ENSG00000184110|Q99613-2|EIF3C;ENSG00000184110|ENST00000331666|EIF3C;ENSG00000205609|ENST00000380876|EIF3CL ENST00000565932.5_1_16:28734455-28746831:+|nuORF ENST00000565932.5_1_16:28734455-28746831:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.7588500976562 2 541.757358 1081.50016 3.2324 0.0017512 -1.7172 -0.00093028 1.5152 0.00082088 541.7561696130257 83.022 0.37825 83.269 83.157 83.536 0.24722 26 20 2 0 0 0 0.3144 1 38312 38312 15.847 4.2069 1 255470 18522 5422 11841 11869 21190 21190 -0.03732735485095873 LSEKQKQIIPV 11 Unmodified _LSEKQKQIIPV_ 0 0 0 nc|ENSG00000189056|P78509-3|RELN;nc|ENSG00000189056|P78509-2|RELN;ENSG00000189056|ENST00000428762|RELN nc|ENSG00000189056|P78509-3|RELN nc|ENSG00000189056|P78509-3|RELN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 642.1084594726562 2 641.890095 1281.76564 NaN NaN NaN NaN NaN NaN NaN 80.284 1 80.604 80.104 81.104 0.31998 0 0 0 0.98464 1 39304 39304 8.1555 1.9497 1 18523 5700 11842 11870 21191 21191 0.13602476699838917 LSERCPNL 8 Unmodified _LSERCPNL_ 0 0 0 FBXL13|p.N528Tfs*8|1|0.22|ENSG00000161040|chr7:102877519-102877519|T/-|frameshift_variant;nc|ENSG00000161040|Q8NEE6-3|FBXL13;nc|ENSG00000161040|Q8NEE6-2|FBXL13;nc|ENSG00000161040|Q8NEE6|FBXL13;ENSG00000161040|ENST00000440067|FBXL13 FBXL13|p.N528Tfs*8|1|0.22|ENSG00000161040|chr7:102877519-102877519|T/-|frameshift_variant FBXL13|p.N528Tfs*8|1|0.22|ENSG00000161040|chr7:102877519-102877519|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.237060546875 2 466.236927 930.459301 NaN NaN NaN NaN NaN NaN NaN 81.295 1 81.295 80.795 81.795 0 0 0 0 0.20533 1 40484 40484 42.095 7.9921 1 18524 4091 11843 11871 21192 21192 -0.008710320140835393 LSETLHRLEKK 11 Unmodified _LSETLHRLEKK_ 0 0 0 REV__ENSG00000175985|ENST00000322564|PLEKHD1 REV__ENSG00000175985|ENST00000322564|PLEKHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.3978881835938 2 677.396076 1352.7776 4.387 0.0029717 -0.76167 -0.00051596 3.6253 0.0024558 677.3954164200313 93.571 1.2453 93.826 93.02 94.265 0.25497 130 64 3 0 0 0 0.91345 1 43116 43116 0.30703 0 1 1020800 + 18525 13686 11844 11872 21193 21193 0.11532093442997393 LSEVLELVL 9 Unmodified _LSEVLELVL_ 0 0 0 SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant;nc|ENSG00000135317|Q9Y5W7-3|SNX14;nc|ENSG00000135317|Q9Y5W7-4|SNX14;ENSG00000135317|ENST00000314673|SNX14;ENST00000508980.5_1_6:86270935-86284080:-|nuORF;SNX14|p.L337*|1|0.35|ENSG00000135317|chr6:85547210-85547210|A/-|frameshift_variant SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.8056335449219 2 507.807708 1013.60086 NaN NaN NaN NaN NaN NaN NaN 66.416 1 67.073 66.573 67.573 0.65672 0 0 0 0.69911 1 30449 30449 12.532 3.9383 1 18526 2863 11845 11873 21194 21194 0.09460664560037912 LSEYRRRRQQR 11 Unmodified _LSEYRRRRQQR_ 0 0 0 nc|ENSG00000148840|Q5VV67-2|PPRC1;ENSG00000148840|ENST00000278070|PPRC1 nc|ENSG00000148840|Q5VV67-2|PPRC1 nc|ENSG00000148840|Q5VV67-2|PPRC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 774.4361572265625 2 774.434921 1546.85529 NaN NaN NaN NaN NaN NaN NaN 70.485 1 71.189 70.689 71.689 0.70386 0 0 0 1.0072 1 33778 33778 1.3295 0.9789 1 18527 3617 11846 11874 21195 21195 0.10373544151775604 LSFAKKRKSNS 11 Unmodified _LSFAKKRKSNS_ 0 0 0 REV__ENSG00000157502|ENST00000357175|PWWP3B REV__ENSG00000157502|ENST00000357175|PWWP3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.3724975585938 2 633.369861 1264.72517 4.2694 0.0027041 -0.9001 -0.0005701 3.3693 0.002134 633.3692298680046 91.899 1.3015 92.152 91.424 92.725 0.25253 203 62 4 0 0 0 0.91068 1 42206 42206 1.3295 1.3295 1 4722900 + 18528 12803 11847 11875 21196 21196 0.10339555100085818 LSFFYFVKI 9 Unmodified _LSFFYFVKI_ 0 0 0 TAS2R39|p.L230Cfs*2|1|0.21|ENSG00000236398|chr7:143184104-143184104|C/-|frameshift_variant;ENSG00000236398|ENST00000446620|TAS2R39 TAS2R39|p.L230Cfs*2|1|0.21|ENSG00000236398|chr7:143184104-143184104|C/-|frameshift_variant TAS2R39|p.L230Cfs*2|1|0.21|ENSG00000236398|chr7:143184104-143184104|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 582.326416015625 2 582.328611 1162.64267 NaN NaN NaN NaN NaN NaN NaN 60.584 1 60.584 60.084 61.084 0 0 0 0 0.89683 1 28167 28167 4.3292 0.38484 1 18529 6203 11848 11876 21197 21197 0.06785265039229671 LSFHLGFLPV 10 Unmodified _LSFHLGFLPV_ 0 0 0 ENST00000574081.5_2_17:5113263-5113524:-|nuORF ENST00000574081.5_2_17:5113263-5113524:-|nuORF ENST00000574081.5_2_17:5113263-5113524:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.218994140625 3 377.218332 1128.63317 3.0343 0.0011446 -1.3907 -0.00052461 1.6436 0.00061998 377.2178859221882 12.495 0.10922 13.138 13.067 13.176 0.64272 5 3 2 0 0 0 0.89607 1 5621 5621 3.8763 0.28927 1 5005000 18530 9111 11849 11877 21198 21198 0.07399496753691892 LSFLYFLFHWF 11 Unmodified _LSFLYFLFHWF_ 0 0 0 REV__ENST00000358812.8_1_6:96034307-96034382:+|nuORF REV__ENST00000358812.8_1_6:96034307-96034382:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 760.3002319335938 2 760.392273 1518.76999 NaN NaN NaN NaN NaN NaN NaN 107.37 1 107.97 107.47 108.47 0.6019 0 0 0 1.0072 1 49558 49558 1.3295 0 1 + 18531 15586 11850 11878 21199 21199 0.03135985913377226 LSFMSDKI 8 Unmodified _LSFMSDKI_ 0 0 0 REV__nc|ENSG00000143603|Q9UGI6-2|KCNN3 REV__nc|ENSG00000143603|Q9UGI6-2|KCNN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.74627685546875 2 470.744053 939.473554 NaN NaN NaN NaN NaN NaN NaN 43.265 1 43.914 43.414 44.414 0.64872 0 0 0 0.72306 1 19827 19827 21.747 0 1 + 18532 17971 11851 11879 21200 21200 0.0013962041419972593 LSFNILLLVVI 11 Unmodified _LSFNILLLVVI_ 0 0 0 ENST00000576487.5_1_17:7011095-7018009:-|nuORF;nc|ENSG00000161944|P07307-3|ASGR2;nc|ENSG00000161944|P07307-2|ASGR2;ENSG00000161944|ENST00000691900|ASGR2;nc|ENSG00000161944|P07307|ASGR2 ENST00000576487.5_1_17:7011095-7018009:-|nuORF ENST00000576487.5_1_17:7011095-7018009:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 622.4048461914062 2 622.40485 1242.79515 NaN NaN NaN NaN NaN NaN NaN 108.32 1 108.36 107.86 108.86 0.04248 0 0 0 1.0061 1 58495 58495 2.7352 1.0826 1 18533 4111 11852 11880 21201 21201 0.1834604071598278 LSFPKKILHP 10 Unmodified _LSFPKKILHP_ 0 0 0 REV__HERVH-int_dup515|chr2:34793914-34794525:+|2.1477617939098304|0.3159007483226581|2.77|519.0|3|1|sense REV__HERVH-int_dup515|chr2:34793914-34794525:+|2.1477617939098304|0.3159007483226581|2.77|519.0|3|1|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.23406982421875 3 393.913131 1178.71756 2.6606 0.0010481 0.99417 0.00039162 3.6548 0.0014397 393.9136441739114 48.808 0.34938 48.808 48.617 48.966 0 28 19 2 0 0 0 0.12676 1 22369 22369 1.5923 0.39894 1 341780 + 18534 17732 11853 11881 21202 21202 0.13535447570461656 LSFPKKILHP 10 Unmodified _LSFPKKILHP_ 0 0 0 REV__HERVH-int_dup515|chr2:34793914-34794525:+|2.1477617939098304|0.3159007483226581|2.77|519.0|3|1|sense REV__HERVH-int_dup515|chr2:34793914-34794525:+|2.1477617939098304|0.3159007483226581|2.77|519.0|3|1|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 393.913131 1178.71756 3.102 0.0012219 0.50984 0.00020083 3.6118 0.0014227 393.91334374649927 48.511 0.15899 48.773 48.657 48.816 0.26209 0.067939 -0.00014493 NaN 1.5923 15 9 2 NaN NaN NaN NaN 0 NaN NaN 0 655420 + 18535 17732 11853 11881 0.13535447570461656 LSGARVNAKDS 11 Unmodified _LSGARVNAKDS_ 0 0 0 nc|ENSG00000206560|O15084|ANKRD28;ENSG00000206560|ENST00000683139|ANKRD28;nc|ENSG00000206560|O15084-1|ANKRD28;ENST00000498524.5_1_3:15727727-15838055:-|nuORF nc|ENSG00000206560|O15084|ANKRD28 nc|ENSG00000206560|O15084|ANKRD28 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.3016357421875 2 559.301644 1116.58874 NaN NaN NaN NaN NaN NaN NaN 12.378 1 12.685 12.185 13.185 0.30727 0 0 0 0.96369 1 5568 5568 10.151 1.995 1 18536 6075 11854 11882 21203 21203 0.03510440869581544 LSGGPCGPME 10 Unmodified _LSGGPCGPME_ 0 0 0 REV__THE1B-int_dup1888|chr6:111282961-111284170:-|1.7370166059662973|0.0871552847339515|4.32|531.0|32|3|sense REV__THE1B-int_dup1888|chr6:111282961-111284170:-|1.7370166059662973|0.0871552847339515|4.32|531.0|32|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.2024230957031 2 474.201696 946.388838 NaN NaN NaN NaN NaN NaN NaN 85.989 1 85.989 85.489 86.489 0 0 0 0 0.99464 1 43946 43946 6.2058 0.97511 1 + 18537 18229 11855 11883 21204 21204 -0.08650073394039737 LSGHLPRRL 9 Unmodified _LSGHLPRRL_ 0 0 0 ENSG00000233198|ENST00000445101|RNF224 ENSG00000233198|ENST00000445101|RNF224 ENSG00000233198|ENST00000445101|RNF224 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.207763671875 3 350.217325 1047.63015 NaN NaN NaN NaN NaN NaN NaN 51.318 1 51.58 51.08 52.08 0.26227 0 0 0 0.90335 1 23452 23452 2.7352 0 1 18538 6191 11856 11884 21205 21205 0.1082366641956014 LSGHLPRRL 9 Unmodified _LSGHLPRRL_ 0 0 0 ENSG00000233198|ENST00000445101|RNF224 ENSG00000233198|ENST00000445101|RNF224 ENSG00000233198|ENST00000445101|RNF224 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.20721435546875 3 350.217325 1047.63015 NaN NaN NaN NaN NaN NaN NaN 51.926 1 52.188 51.688 52.688 0.26227 0 0 0 0.90335 1 23737 23737 2.7352 0 1 18539 6191 11856 11884 21206 21206 0.1082366641956014 LSGLVHERVKQ 11 Unmodified _LSGLVHERVKQ_ 0 0 0 REV__nc|ENSG00000166473|Q7Z442-4|PKD1L2 REV__nc|ENSG00000166473|Q7Z442-4|PKD1L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.371826171875 2 633.369861 1264.72517 4.079 0.0025835 -0.99884 -0.00063264 3.0801 0.0019509 633.3691578354671 91.522 1.3285 92.184 91.419 92.747 0.66198 211 67 4 0 0 0 0.91149 1 41878 41878 1.0715 1.0715 1 5118200 + 18540 15177 11857 11885 21207 21207 0.1033955510006308 LSGPSLLLAFH 11 Unmodified _LSGPSLLLAFH_ 0 0 0 ENST00000550585.5_1_12:53854847-53856295:+|nuORF ENST00000550585.5_1_12:53854847-53856295:+|nuORF ENST00000550585.5_1_12:53854847-53856295:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.8329467773438 2 577.832049 1153.64954 NaN NaN NaN NaN NaN NaN NaN 69.616 1 69.87 69.37 70.37 0.25443 0 0 0 1.0071 1 31879 31879 1.4819 0 1 18541 8871 11858 11886 21208 21208 0.07886577919794036 LSGPVLNG 8 Unmodified _LSGPVLNG_ 0 0 0 ENSG00000198597|ENST00000355537|ZNF536 ENSG00000198597|ENST00000355537|ZNF536 ENSG00000198597|ENST00000355537|ZNF536 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.71893310546875 2 378.716153 755.417754 NaN NaN NaN NaN NaN NaN NaN 47.677 1 48.33 47.83 48.83 0.65356 0 0 0 0.99035 1 21825 21825 2.0598 0 1 18542 5905 11859 11887 21209 21209 0.03026155288910104 LSGSSCCCCCC 11 Unmodified _LSGSSCCCCCC_ 0 0 0 ENSG00000080709|ENST00000673685|KCNN2 ENSG00000080709|ENST00000673685|KCNN2 ENSG00000080709|ENST00000673685|KCNN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.6910400390625 2 534.640919 1067.26728 NaN NaN NaN NaN NaN NaN NaN 73.648 1 73.648 73.148 74.148 0 0 0 0 1.008 1 35928 35928 0.35063 0.35063 1 18543 912 11860 11888 21210 21210 -0.2636584640638375 LSGTLRRQPV 10 Unmodified _LSGTLRRQPV_ 0 0 0 REV__ENSG00000136011|ENST00000388887|STAB2 REV__ENSG00000136011|ENST00000388887|STAB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.8360595703125 2 563.838197 1125.66184 NaN NaN NaN NaN NaN NaN NaN 81.541 1 81.625 81.125 82.125 0.084106 0 0 0 0.96627 1 40100 40100 10.824 2.9138 1 + 18544 12055 11861 11889 21211 21211 0.10403614382857995 LSHEESVSF 9 Unmodified _LSHEESVSF_ 0 0 0 nc|ENSG00000105856|O60381-2|HBP1;nc|ENSG00000105856|O60381-3|HBP1;ENSG00000105856|ENST00000222574|HBP1 nc|ENSG00000105856|O60381-2|HBP1 nc|ENSG00000105856|O60381-2|HBP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.3125 2 517.743096 1033.47164 3.3712 0.0017454 0.7933 0.00041072 4.1645 0.0021562 517.7431679716674 34.49 0.23602 35.113 34.987 35.223 0.62294 11 7 2 0 0 0 0.062228 1 15800 15800 20.454 8.8133 1 225320 18545 1538 11862 11890 21212 21212 -0.04375717070047358 LSHSGLADH 9 Unmodified _LSHSGLADH_ 0 0 0 nc|ENSG00000078687|Q9HCJ0-4|TNRC6C;ENSG00000078687|ENST00000696270|TNRC6C nc|ENSG00000078687|Q9HCJ0-4|TNRC6C nc|ENSG00000078687|Q9HCJ0-4|TNRC6C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 468.7317810058594 2 468.730323 935.446094 2.6036 0.0012204 -0.1058 -4.9592E-05 2.4978 0.0011708 468.7302680567135 17.895 0.095608 18.095 18.015 18.111 0.20057 10 6 2 0 0 0 0.3144 1 7920 7920 15.847 1.9411 1 1119300 18546 882 11863 11891 21213 21213 -0.02421146801816576 LSHWEPVR 8 Unmodified _LSHWEPVR_ 0 0 0 ENST00000583106.1_1_18:75691552-75694631:-|nuORF ENST00000583106.1_1_18:75691552-75694631:-|nuORF ENST00000583106.1_1_18:75691552-75694631:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.7335815429688 2 512.272158 1022.52976 3.2048 0.0016417 -0.9562 -0.00048983 2.2486 0.0011519 512.2718878544749 37.064 0.25452 37.857 37.73 37.985 0.79342 14 11 2 0 0 0 0.13917 1 16839 16839 9.3474 4.1168 1 324980 18547 9159 11864 11892 21214 21214 0.01940009365887363 LSHWEPVR 8 Unmodified _LSHWEPVR_ 0 0 0 ENST00000583106.1_1_18:75691552-75694631:-|nuORF ENST00000583106.1_1_18:75691552-75694631:-|nuORF ENST00000583106.1_1_18:75691552-75694631:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 512.272158 1022.52976 3.2247 0.0016519 -1.9303 -0.00098884 1.2944 0.00066309 512.2714228027501 38.103 0.24422 38.103 37.96 38.204 0 0.12319 -0.00047204 NaN 9.3474 11 8 2 NaN NaN NaN NaN 0 NaN NaN 0 363860 18548 9159 11864 11892 0.01940009365887363 LSIFRRRVL 9 Unmodified _LSIFRRRVL_ 0 0 0 REV__ENSG00000066279|ENST00000367409|ASPM REV__ENSG00000066279|ENST00000367409|ASPM MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.5185241699219 3 387.252258 1158.73495 2.787 0.0010793 0.15725 6.0897E-05 2.9443 0.0011402 387.25227689540736 31.504 0.15118 32.121 32.039 32.19 0.61737 12 10 2 0 0 0 0.099014 1 14412 14412 14.405 2.2306 1 227620 + 18549 10440 11865 11893 21215 21215 0.16192787896125083 LSINVWLVKLL 11 Unmodified _LSINVWLVKLL_ 0 0 0 REV__ENST00000220751.4_1_8:90802644-90802779:+|nuORF REV__ENST00000220751.4_1_8:90802644-90802779:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 649.3884887695312 2 649.415749 1296.81694 NaN NaN NaN NaN NaN NaN NaN 105.16 1 105.21 104.71 105.71 0.050888 0 0 0 1.0061 1 56887 56887 2.7352 1.0826 1 + 18550 14821 11866 11894 21216 21216 0.1804084546456579 LSKFFFLIL 9 Unmodified _LSKFFFLIL_ 0 0 0 ENST00000519765.1_1_8:101164023-101165541:+|nuORF ENST00000519765.1_1_8:101164023-101165541:+|nuORF ENST00000519765.1_1_8:101164023-101165541:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.5658264160156 3 376.566961 1126.67905 NaN NaN NaN NaN NaN NaN NaN 12.483 1 13.126 12.626 13.626 0.64272 0 0 0 0.8506 1 5599 5599 7.609 1.4171 1 18551 8628 11867 11895 21217 21217 0.12078141935967324 LSKHLRVLPA 10 Unmodified _LSKHLRVLPA_ 0 0 0 ENSG00000182348|ENST00000333190|ZNF804B ENSG00000182348|ENST00000333190|ZNF804B ENSG00000182348|ENST00000333190|ZNF804B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1133.7218017578125 1 1133.71534 1132.70806 2.956 0.0033513 1.5037 0.0017048 4.4598 0.0050561 1133.7156798345775 44.253 0.073227 44.522 44.473 44.546 0.2694 7 4 2 0 0 0 0.90196 1 20228 20228 3.5965 0 1 1497000 18552 5332 11868 11896 21218 21218 0.14701679284939928 LSKILRHKRK 10 Unmodified _LSKILRHKRK_ 0 0 0 ENST00000578492.5_1_17:62750240-62754721:-|nuORF ENST00000578492.5_1_17:62750240-62754721:-|nuORF ENST00000578492.5_1_17:62750240-62754721:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 639.925048828125 2 639.92768 1277.84081 NaN NaN NaN NaN NaN NaN NaN 69.725 1 69.98 69.48 70.48 0.25443 0 0 0 1.0001 1 31929 31929 1.6526 1.2519 1 18553 9136 11869 11897 21219 21219 0.21300123741571042 LSKITFVFKQI 11 Unmodified _LSKITFVFKQI_ 0 0 0 ENST00000551503.5_1_12:46849617-46849752:+|nuORF ENST00000551503.5_1_12:46849617-46849752:+|nuORF ENST00000551503.5_1_12:46849617-46849752:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 442.27496337890625 3 441.939346 1322.79621 2.4745 0.0010936 1.1374 0.00050264 3.6119 0.0015962 442.2740310835994 54.219 0.42262 55.015 54.675 55.097 0.79552 30 23 2 0 0 0 0.91149 1 24747 24747 0.36667 0 1 381970 18554 8879 11870 11898 21220 21220 0.1477225508488118 LSKKKRLKKKK 11 Unmodified _LSKKKRLKKKK_ 0 0 0 REV__nc|ENSG00000103994|Q9H2Y7-2|ZNF106 REV__nc|ENSG00000103994|Q9H2Y7-2|ZNF106 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 462.5848693847656 3 462.332801 1383.97657 NaN NaN NaN NaN NaN NaN NaN 9.6165 1 9.6165 9.1165 10.116 0 0 0 0 1.0082 1 4321 4321 0 0 1 + 18555 10981 11871 11899 21221 21221 0.2999439853238073 LSKKKRLKKKK 11 Unmodified _LSKKKRLKKKK_ 0 0 0 REV__nc|ENSG00000103994|Q9H2Y7-2|ZNF106 REV__nc|ENSG00000103994|Q9H2Y7-2|ZNF106 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 692.99462890625 2 692.995563 1383.97657 NaN NaN NaN NaN NaN NaN NaN 80.774 1 80.774 80.274 81.274 0 0 0 0 1.0082 1 40179 40179 0 0 1 + 18556 10981 11871 11899 21222 21222 0.2999439853238073 LSKKKRLKKKK 11 Unmodified _LSKKKRLKKKK_ 0 0 0 REV__nc|ENSG00000103994|Q9H2Y7-2|ZNF106 REV__nc|ENSG00000103994|Q9H2Y7-2|ZNF106 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 692.9940185546875 2 692.995563 1383.97657 NaN NaN NaN NaN NaN NaN NaN 85.489 1 85.738 85.238 86.238 0.24857 0 0 0 1.0082 1 39340 39340 0 0 1 + 18557 10981 11871 11899 21223 21223 0.2999439853238073 LSKLLVRRFHR 11 Unmodified _LSKLLVRRFHR_ 0 0 0 REV__nc|ENSG00000168522|P49354-2|FNTA REV__nc|ENSG00000168522|P49354-2|FNTA MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 475.7073974609375 3 475.636883 1423.88882 2.3177 0.0011024 -0.37052 -0.00017624 1.9472 0.00092614 475.97076236088697 69.762 0.022202 69.762 69.745 69.767 0 4 2 2 0 0 0 0.13295 1 33740 33740 0.08335 0 1 5221900 + 18558 18033 11872 11900 21224 21224 0.19383197661636586 LSKLRRRWELF 11 Unmodified _LSKLRRRWELF_ 0 0 0 REV__ENST00000456222.1_1_3:42605456-42610538:-|nuORF REV__ENST00000456222.1_1_3:42605456-42610538:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 752.4744262695312 2 752.448977 1502.8834 NaN NaN NaN NaN NaN NaN NaN 98.919 1 99.219 98.719 99.719 0.29987 0 0 0 1.0057 1 45636 45636 3.2813 1.9518 1 + 18559 10752 11873 11901 21225 21225 0.15207474079147687 LSKLTQKKMRV 11 Unmodified _LSKLTQKKMRV_ 0 0 0 REV__ENST00000435945.1_1_Y:28761086-28769767:-|nuORF REV__ENST00000435945.1_1_Y:28761086-28769767:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 666.4116821289062 2 666.413214 1330.81188 NaN NaN NaN NaN NaN NaN NaN 99.073 1 99.073 98.573 99.573 0 0 0 0 1.0044 1 54386 54386 4.897 1.9018 1 + 18560 16303 11874 11902 21226 21226 0.15970218330267016 LSKQQPPP 8 Unmodified _LSKQQPPP_ 0 0 0 REV__GRM1|p.A1134Nfs*7|1|0.14|ENSG00000152822|chr6:146434610-146434611|-/AATCATCC|frameshift_variant REV__GRM1|p.A1134Nfs*7|1|0.14|ENSG00000152822|chr6:146434610-146434611|-/AATCATCC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 447.7573547363281 2 447.75581 893.497067 2.944 0.0013182 0.016217 7.2613E-06 2.9603 0.0013255 447.7559352170301 21.008 0.18645 21.008 20.891 21.077 0 15 11 2 0 0 0 0.70799 1 9405 9405 5.2307 0.47466 1 148400 + 18561 12660 11875 11903 21227 21227 0.046058022430429446 LSKQQPPP 8 Unmodified _LSKQQPPP_ 0 0 0 REV__GRM1|p.A1134Nfs*7|1|0.14|ENSG00000152822|chr6:146434610-146434611|-/AATCATCC|frameshift_variant REV__GRM1|p.A1134Nfs*7|1|0.14|ENSG00000152822|chr6:146434610-146434611|-/AATCATCC|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 447.75581 893.497067 2.944 0.0013182 0.016217 7.2613E-06 2.9603 0.0013255 447.7559352170301 21.008 0.18645 21.008 20.891 21.077 0 0.18633 0.00017293 NaN 5.2307 15 11 2 NaN NaN NaN NaN 0 NaN NaN 0 148400 + 18562 12660 11875 11903 0.046058022430429446 LSKQQPPP 8 Unmodified _LSKQQPPP_ 0 0 0 REV__GRM1|p.A1134Nfs*7|1|0.14|ENSG00000152822|chr6:146434610-146434611|-/AATCATCC|frameshift_variant REV__GRM1|p.A1134Nfs*7|1|0.14|ENSG00000152822|chr6:146434610-146434611|-/AATCATCC|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 447.75581 893.497067 3.2857 0.0014712 -0.38198 -0.00017103 2.9037 0.0013001 447.75581623624635 19.977 0.22356 20.635 20.513 20.737 0.6583 -0.18633 -0.00018366 NaN 5.2307 33 21 2 NaN NaN NaN NaN 0 NaN NaN 0 120640 + 18563 12660 11875 11903 0.046058022430429446 LSKRKLELQ 9 Unmodified _LSKRKLELQ_ 0 0 0 REV__nc|ENSG00000148356|Q6UWE0-3|LRSAM1 REV__nc|ENSG00000148356|Q6UWE0-3|LRSAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.85205078125 2 557.850773 1113.68699 3.493 0.0019486 0.043891 2.4485E-05 3.5369 0.0019731 557.8507766433557 15.56 0.71423 15.56 15.229 15.943 0 194 85 3 0 0 0 0.46674 1 6920 6920 13.042 1.5478 1 232260 + 18564 12533 11876 11904 21228 21228 0.1346966918540602 LSKTREKH 8 Unmodified _LSKTREKH_ 0 0 0 REV__ENSG00000188738|ENST00000424728|FSIP2 REV__ENSG00000188738|ENST00000424728|FSIP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.7928161621094 2 499.790715 997.566878 2.9917 0.0014952 0.11001 5.4981E-05 3.1017 0.0015502 499.79065177500667 14.558 0.36756 14.865 14.732 15.1 0.3069 40 26 2 0 0 0 0.7471 1 6658 6658 0.79363 0 1 246090 + 18565 14156 11877 11905 21229 21229 0.06799680911649375 LSKWDLPVF 9 Unmodified _LSKWDLPVF_ 0 0 0 ENSG00000141469|ENST00000321925|SLC14A1;nc|ENSG00000141469|Q13336-2|SLC14A1 ENSG00000141469|ENST00000321925|SLC14A1 ENSG00000141469|ENST00000321925|SLC14A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.8097534179688 2 552.808042 1103.60153 3.6478 0.0020166 -0.73409 -0.00040581 2.9138 0.0016107 552.8079917689053 82.552 0.35379 83.212 83.028 83.382 0.66019 45 22 3 0 0 0 0.21008 1 38032 38032 22.736 5.6234 1 606530 18566 3259 11878 11906 21230 21230 0.05387503999736509 LSKWDLPVF 9 Unmodified _LSKWDLPVF_ 0 0 0 ENSG00000141469|ENST00000321925|SLC14A1;nc|ENSG00000141469|Q13336-2|SLC14A1 ENSG00000141469|ENST00000321925|SLC14A1 ENSG00000141469|ENST00000321925|SLC14A1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 552.808042 1103.60153 3.4858 0.001927 0.18329 0.00010132 3.6691 0.0020283 552.80809243695 83.103 0.26762 83.35 83.218 83.486 0.24722 0.069108 0.00064493 NaN 22.736 26 14 2 NaN NaN NaN NaN 0 NaN NaN 0 685710 18567 3259 11878 11906 0.05387503999736509 LSLEPFRMDYC 11 Unmodified _LSLEPFRMDYC_ 0 0 0 REV__nc|ENSG00000158793|Q86X76-5|NIT1 REV__nc|ENSG00000158793|Q86X76-5|NIT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 687.5563354492188 2 687.315048 1372.61554 NaN NaN NaN NaN NaN NaN NaN 109.87 1 110.47 109.97 110.97 0.60264 0 0 0 1.0072 1 50663 50663 1.3295 0 1 + 18568 12829 11879 11907 21231 21231 -0.055859546257579495 LSLFFWHFHWL 11 Unmodified _LSLFFWHFHWL_ 0 0 0 REV__ENST00000368020.5_1_1:161009216-161009363:-|nuORF REV__ENST00000368020.5_1_1:161009216-161009363:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 766.9639282226562 2 766.895515 1531.77648 NaN NaN NaN NaN NaN NaN NaN 106.74 1 107.34 106.84 107.84 0.60074 0 0 0 1.0059 1 49276 49276 2.9952 1.6657 1 + 18569 15676 11880 11908 21232 21232 0.03185923864793949 LSLFHSIVAL 10 Unmodified _LSLFHSIVAL_ 0 0 0 ENSG00000205038|ENST00000378402|PKHD1L1 ENSG00000205038|ENST00000378402|PKHD1L1 ENSG00000205038|ENST00000378402|PKHD1L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.330810546875 2 550.329142 1098.64373 3.4646 0.0019067 -0.13855 -7.6251E-05 3.326 0.0018304 550.3289591036944 64.364 0.28607 64.612 64.433 64.719 0.24802 30 17 2 0 0 0 0.25925 1 29462 29462 32.305 0 1 1255800 18570 6042 11881 11909 21233 21233 0.09835479408138781 LSLFLYIFTKI 11 Unmodified _LSLFLYIFTKI_ 0 0 0 nc|ENSG00000140675|P31639-2|SLC5A2;ENSG00000140675|ENST00000330498|SLC5A2 nc|ENSG00000140675|P31639-2|SLC5A2 nc|ENSG00000140675|P31639-2|SLC5A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 679.4149169921875 2 679.410132 1356.80571 NaN NaN NaN NaN NaN NaN NaN 85.814 1 86.062 85.562 86.562 0.24857 0 0 0 1.0038 1 39488 39488 5.7319 1.4026 1 18571 3214 11882 11910 21234 21234 0.14158023370396222 LSLLSLTALV 10 Unmodified _LSLLSLTALV_ 0 0 0 ENST00000554012.5_1_14:96176842-96178095:-|nuORF;ENST00000402399.5_1_14:96176839-96178138:-|nuORF ENST00000554012.5_1_14:96176842-96178095:-|nuORF ENST00000554012.5_1_14:96176842-96178095:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.8901672363281 3 343.889992 1028.64815 1.6803 0.00057785 -1.0811 -0.00037177 0.59926 0.00020608 343.88957033625053 11.085 0.15419 11.392 11.282 11.436 0.30727 30 18 2 0 0 0 0.94443 1 4987 4987 0 0 1 35191 18572 7615 11883 11911 21235 21235 0.13496943831000863 LSLMMVLI 8 Unmodified _LSLMMVLI_ 0 0 0 REV__ENST00000481463.5_1_3:195101781-195102681:-|nuORF REV__ENST00000481463.5_1_3:195101781-195102681:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 307.1855773925781 3 307.183354 918.528232 NaN NaN NaN NaN NaN NaN NaN 19.762 1 20.054 19.554 20.554 0.29239 0 0 0 0.82924 1 8993 8993 16.942 0.79319 1 + 18573 16704 11884 11912 21236 21236 0.06570915961276569 LSLPFGWTP 9 Unmodified _LSLPFGWTP_ 0 0 0 ENSG00000121053|ENST00000225371|EPX;ENST00000580346.5_1_17:56316099-56327997:+|nuORF;ENST00000578403.5_1_17:56316099-56327997:+|nuORF;nc|ENSG00000167419|P22079-2|LPO;ENSG00000167419|ENST00000262290|LPO ENSG00000121053|ENST00000225371|EPX ENSG00000121053|ENST00000225371|EPX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.2743835449219 2 509.273835 1016.53312 NaN NaN NaN NaN NaN NaN NaN 28.362 1 28.362 27.862 28.862 0 0 0 0 0.90611 1 12786 12786 2.0598 0 1 18574 2221 11885 11913 21237 21237 0.025512594198971783 LSLPFPSNE 9 Unmodified _LSLPFPSNE_ 0 0 0 REV__ENST00000541399.1_1_12:6602602-6602671:+|nuORF REV__ENST00000541399.1_1_12:6602602-6602671:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 335.1752624511719 3 335.17468 1002.50221 2.433 0.00081548 -0.91154 -0.00030552 1.5215 0.00050996 335.17438523557666 12.827 0.15822 12.827 12.77 12.929 0 11 6 2 0 0 0 0.96953 1 5610 5610 4.5289 0.58447 1 1174500 + 18575 17202 11886 11914 21238 21238 0.0010606131500026095 LSLQKFWQ 8 Unmodified _LSLQKFWQ_ 0 0 0 nc|ENSG00000119760|O94864-4|SUPT7L;nc|ENSG00000119760|O94864-2|SUPT7L;ENSG00000119760|ENST00000337768|SUPT7L nc|ENSG00000119760|O94864-4|SUPT7L nc|ENSG00000119760|O94864-4|SUPT7L MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1050.0721435546875 1 1049.57784 1048.57057 3.4608 0.0036324 1.5874 0.0016661 5.0482 0.0052984 1049.5820488579495 24.36 0.020025 24.36 24.346 24.366 0 5 3 2 0 0 0 0.14146 1 10939 10939 5.2307 0 1 1803900 18576 2165 11887 11915 21239 21239 0.04822350685526544 LSLRQKLF 8 Unmodified _LSLRQKLF_ 0 0 0 REV__nc|ENSG00000111860|Q5SZL2-3|CEP85L REV__nc|ENSG00000111860|Q5SZL2-3|CEP85L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.5475769042969 3 335.54656 1003.61785 2.4686 0.00082834 0.16075 5.3941E-05 2.6294 0.00088228 335.54658544756336 26.224 0.29029 26.489 26.341 26.631 0.26489 44 25 2 0 0 0 0.36624 1 11913 11913 31.268 3.6395 1 597450 + 18577 11252 11888 11916 21240 21240 0.11618629956524273 LSLTAKRM 8 Unmodified _LSLTAKRM_ 0 0 0 ENSG00000075673|ENST00000381946|ATP12A;nc|ENSG00000075673|P54707-2|ATP12A ENSG00000075673|ENST00000381946|ATP12A ENSG00000075673|ENST00000381946|ATP12A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 460.27508544921875 2 460.273312 918.532072 3.0414 0.0013999 0.51039 0.00023492 3.5518 0.0016348 460.2734856323317 19.428 0.19138 20.086 19.974 20.165 0.65829 29 13 3 0 0 0 0.49519 1 8821 8821 26.884 6.43 1 606720 18578 835 11889 11917 21241 21241 0.06954721779356987 LSLVKSPRGLW 11 Unmodified _LSLVKSPRGLW_ 0 0 0 REV__ENSG00000172476|ENST00000304236|RAB40A REV__ENSG00000172476|ENST00000304236|RAB40A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 628.3856201171875 2 628.379697 1254.74484 NaN NaN NaN NaN NaN NaN NaN 90.894 1 91.145 90.645 91.645 0.25163 0 0 0 1.0072 1 41795 41795 1.3295 0.72803 1 + 18579 10919 11890 11918 21242 21242 0.1276593111085731 LSLWGAPQK 9 Unmodified _LSLWGAPQK_ 0 0 0 nc|ENSG00000071909|Q8WXR4-3|MYO3B;nc|ENSG00000071909|Q8WXR4-2|MYO3B;nc|ENSG00000071909|Q8WXR4-4|MYO3B;ENSG00000071909|ENST00000408978|MYO3B;nc|ENSG00000071909|Q8WXR4-7|MYO3B nc|ENSG00000071909|Q8WXR4-3|MYO3B nc|ENSG00000071909|Q8WXR4-3|MYO3B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.3044128417969 2 500.284734 998.554916 NaN NaN NaN NaN NaN NaN NaN 34.437 1 35.06 34.56 35.56 0.62294 0 0 0 0.8984 1 15776 15776 3.9444 1.3669 1 18580 783 11891 11919 21243 21243 0.05558064168474175 LSMCEASFAS 10 Unmodified _LSMCEASFAS_ 0 0 0 ENSG00000120498|ENST00000374333|TEX11;nc|ENSG00000120498|Q8IYF3|TEX11 ENSG00000120498|ENST00000374333|TEX11 ENSG00000120498|ENST00000374333|TEX11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.2191162109375 2 523.220085 1044.42562 NaN NaN NaN NaN NaN NaN NaN 32.801 1 33.42 32.92 33.92 0.61831 0 0 0 1.0003 1 15037 15037 1.4819 0.68827 1 18581 2192 11892 11920 21244 21244 -0.09481821568147097 LSMLSDYA 8 Unmodified _LSMLSDYA_ 0 0 0 REV__ENSG00000131386|ENST00000339732|GALNT15 REV__ENSG00000131386|ENST00000339732|GALNT15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.21337890625 2 450.212586 898.410619 2.2843 0.0010284 -0.50941 -0.00022934 1.7749 0.00079908 450.21230610765576 73.075 0.44846 73.774 73.567 74.016 0.69881 88 42 3 0 0 0 0.70799 1 35307 35307 5.2307 0 1 1332100 + 18582 11856 11893 11921 21245 21245 -0.04264945373847695 LSNLPRLLS 9 Unmodified _LSNLPRLLS_ 0 0 0 REV__ENSG00000160445|ENST00000291900|ZER1 REV__ENSG00000160445|ENST00000291900|ZER1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.8127136230469 2 506.811116 1011.60768 3.3551 0.0017004 0.34532 0.00017501 3.7004 0.0018754 506.81137348344083 40.013 0.38752 40.28 40.071 40.458 0.26696 35 15 3 0 0 0 0.020338 1 18229 18229 67.838 1.3815 1 2810100 + 18583 12880 11894 11922 21246 21246 0.10234022231293238 LSNRPTTL 8 Unmodified _LSNRPTTL_ 0 0 0 REV__nc|ENSG00000074047|P10070-2|GLI2 REV__nc|ENSG00000074047|P10070-2|GLI2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.26025390625 2 451.258717 900.50288 NaN NaN NaN NaN NaN NaN NaN 14.941 1 15.167 14.667 15.667 0.22622 0 0 0 0.99035 1 6576 6576 2.0598 1.2661 1 + 18584 10511 11895 11923 21247 21247 0.0486490075469419 LSNYRGSF 8 Unmodified _LSNYRGSF_ 0 0 0 nc|ENSG00000124205|P14138-3|EDN3;nc|ENSG00000124205|P14138-2|EDN3;ENSG00000124205|ENST00000337938|EDN3 nc|ENSG00000124205|P14138-3|EDN3 nc|ENSG00000124205|P14138-3|EDN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 315.1593933105469 3 315.159253 942.45593 NaN NaN NaN NaN NaN NaN NaN 72.917 1 73.616 73.116 74.116 0.69881 0 0 0 0.99035 1 35131 35131 3.2813 0.78282 1 18585 2347 11896 11924 21248 21248 -0.017599587964241437 LSPAGYCFCF 10 Unmodified _LSPAGYCFCF_ 0 0 0 ENST00000489476.5_1_2:73956300-73964431:-|nuORF;ENST00000463231.5_1_2:73956300-73964442:-|nuORF ENST00000489476.5_1_2:73956300-73964431:-|nuORF ENST00000489476.5_1_2:73956300-73964431:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.0323486328125 2 554.235538 1106.45652 NaN NaN NaN NaN NaN NaN NaN 80.251 1 80.251 79.751 80.751 0 0 0 0 0.99774 1 39795 39795 3.5965 1.019 1 18586 8101 11897 11925 21249 21249 -0.09244623463246171 LSPIRTRLWRV 11 Unmodified _LSPIRTRLWRV_ 0 0 0 REV__ENST00000305560.10_1_15:45694595-45694670:+|nuORF REV__ENST00000305560.10_1_15:45694595-45694670:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 698.9286499023438 2 698.93042 1395.84629 NaN NaN NaN NaN NaN NaN NaN 73.27 1 73.969 73.469 74.469 0.69881 0 0 0 1.0065 1 35312 35312 2.2828 1.0894 1 + 18587 15227 11898 11926 21250 21250 0.16419802533391703 LSPKAAEN 8 Unmodified _LSPKAAEN_ 0 0 0 ENSG00000177706|ENST00000313766|FAM20C ENSG00000177706|ENST00000313766|FAM20C ENSG00000177706|ENST00000313766|FAM20C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 415.2248229980469 2 415.224342 828.434132 2.8759 0.0011941 -1.317 -0.00054685 1.5589 0.00064728 415.22367253942167 78.04 0.28285 78.702 78.557 78.84 0.66198 24 15 2 0 0 0 0.7471 1 35958 35958 1.8442 0 1 408260 18588 5133 11899 11927 21251 21251 0.013052364549821505 LSPKAAEN 8 Unmodified _LSPKAAEN_ 0 0 0 ENSG00000177706|ENST00000313766|FAM20C ENSG00000177706|ENST00000313766|FAM20C ENSG00000177706|ENST00000313766|FAM20C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 415.224342 828.434132 2.7947 0.0011604 -1.9577 -0.00081287 0.83701 0.00034755 415.22347010802207 78.393 0.39213 78.646 78.443 78.836 0.25335 -0.027851 -0.0002149 NaN 1.8442 34 20 2 NaN NaN NaN NaN 0 NaN NaN 0 438930 18589 5133 11899 11927 0.013052364549821505 LSPPFEPTL 9 Unmodified _LSPPFEPTL_ 0 0 0 REV__ENST00000478241.6_2_12:56229026-56229119:+|nuORF REV__ENST00000478241.6_2_12:56229026-56229119:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.7731628417969 2 500.771126 999.527698 3.2351 0.0016201 0.75887 0.00038002 3.994 0.0020001 500.77165246549174 31.109 0.39629 31.726 31.485 31.881 0.61737 60 25 3 0 0 0 0.80651 1 14204 14204 7.2892 2.0586 1 731810 + 18590 16669 11900 11928 21252 21252 0.02791535837422998 LSPQDQVSL 9 Unmodified _LSPQDQVSL_ 0 0 0 REV__nc|ENSG00000080802|O95628-3|CNOT4 REV__nc|ENSG00000080802|O95628-3|CNOT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.76300048828125 2 493.761289 985.508025 3.1148 0.001538 -0.2308 -0.00011396 2.884 0.001424 493.76111144142453 50.381 0.30636 51.204 51.021 51.327 0.82285 44 14 4 0 0 0 0.02234 1 22913 22913 65.235 6.5562 1 2967300 + 18591 10599 11901 11929 21253 21253 0.014691598266608707 LSPRQSRYYAR 11 Unmodified _LSPRQSRYYAR_ 0 0 0 REV__ENSG00000235194|ENST00000452015|PPP1R3E REV__ENSG00000235194|ENST00000452015|PPP1R3E MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 698.8761596679688 2 698.875842 1395.73713 NaN NaN NaN NaN NaN NaN NaN 108.73 1 108.73 108.23 109.23 0 0 0 0 1.0047 1 59516 59516 4.5289 1.5336 1 + 18592 14588 11902 11930 21254 21254 0.0550917184325499 LSPTSPRLL 9 Unmodified _LSPTSPRLL_ 0 0 0 ENST00000571669.6_1_17:2323092-2323221:-|nuORF ENST00000571669.6_1_17:2323092-2323221:-|nuORF ENST00000571669.6_1_17:2323092-2323221:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.2759704589844 2 492.297842 982.581131 NaN NaN NaN NaN NaN NaN NaN 69.134 1 69.388 68.888 69.888 0.25443 0 0 0 0.75166 1 31669 31669 10.824 2.9138 1 18593 9091 11903 11931 21255 21255 0.08914333339953373 LSPWVLWVM 9 Unmodified _LSPWVLWVM_ 0 0 0 REV__ENST00000505061.5_1_15:42104230-42104302:+|nuORF REV__ENST00000505061.5_1_15:42104230-42104302:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 565.8087158203125 2 565.806988 1129.59942 3.7515 0.0021226 0.21014 0.0001189 3.9617 0.0022415 565.8070337519277 19.74 0.25268 20.399 20.294 20.547 0.6583 26 18 2 0 0 0 1.178 1 8946 8946 0.52476 0 1 242250 + 18594 16916 11904 11932 21256 21256 0.03980751990297904 LSQEAELLKER 11 Unmodified _LSQEAELLKER_ 0 0 0 REV__ENSG00000163060|ENST00000295201|TEKT4 REV__ENSG00000163060|ENST00000295201|TEKT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 658.3621215820312 2 658.364441 1314.71433 NaN NaN NaN NaN NaN NaN NaN 58.012 1 58.781 58.281 59.281 0.76861 0 0 0 1.0075 1 26594 26594 0.96228 0.50394 1 + 18595 12974 11905 11933 21257 21257 0.06956107935116052 LSQHGSILM 9 Unmodified _LSQHGSILM_ 0 0 0 nc|ENSG00000163482|Q9NRP7-2|STK36;ENSG00000163482|ENST00000295709|STK36 nc|ENSG00000163482|Q9NRP7-2|STK36 nc|ENSG00000163482|Q9NRP7-2|STK36 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 329.1874084472656 3 329.176027 984.506251 NaN NaN NaN NaN NaN NaN NaN 69.833 1 70.536 70.036 71.036 0.70302 0 0 0 0.88916 1 33436 33436 6.6304 3.3491 1 18596 4213 11906 11934 21258 21258 0.013378275370655501 LSQKFLKILKR 11 Unmodified _LSQKFLKILKR_ 0 0 0 ENST00000381989.3_1_13:25009479-25009596:-|nuORF ENST00000381989.3_1_13:25009479-25009596:-|nuORF ENST00000381989.3_1_13:25009479-25009596:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 687.4556274414062 2 687.453197 1372.89184 NaN NaN NaN NaN NaN NaN NaN 69.197 1 69.197 68.697 69.697 0 0 0 0 1.0072 1 33381 33381 1.3295 0 1 18597 7489 11907 11935 21259 21259 0.22031027995762997 LSQKKKIKRK 10 Unmodified _LSQKKKIKRK_ 0 0 0 AluSq2_dup18061|chr5:139546037-139546340:-|2.2684182816549257|0.1342600248197837|4.08|522.0|6|2|sense AluSq2_dup18061|chr5:139546037-139546340:-|2.2684182816549257|0.1342600248197837|4.08|522.0|6|2|sense AluSq2_dup18061|chr5:139546037-139546340:-|2.2684182816549257|0.1342600248197837|4.08|522.0|6|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 628.9066772460938 2 628.929889 1255.84522 NaN NaN NaN NaN NaN NaN NaN 80.186 1 80.506 80.006 81.006 0.31998 0 0 0 0.99733 1 39222 39222 3.9444 0.66309 1 18598 39 11908 11936 21260 21260 0.22753588164482608 LSQRDYYDD 9 Unmodified _LSQRDYYDD_ 0 0 0 REV__ENSG00000091536|ENST00000647165|MYO15A REV__ENSG00000091536|ENST00000647165|MYO15A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.970947265625 2 587.754192 1173.49383 NaN NaN NaN NaN NaN NaN NaN 79.838 1 79.838 79.338 80.338 0 0 0 0 0.86044 1 39519 39519 7.2892 0 1 + 18599 10734 11909 11937 21261 21261 -0.08597537392279264 LSQRFYPLLR 10 Unmodified _LSQRFYPLLR_ 0 0 0 REV__ENSG00000174579|ENST00000309993|MSL2 REV__ENSG00000174579|ENST00000309993|MSL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 646.5493774414062 2 646.877322 1291.74009 NaN NaN NaN NaN NaN NaN NaN 105.36 1 105.36 104.86 105.86 0 0 0 0 0.99812 1 57896 57896 3.2813 0 1 + 18600 13638 11910 11938 21262 21262 0.10589046968061666 LSQRIIPLKK 10 Unmodified _LSQRIIPLKK_ 0 0 0 nc|ENSG00000197566|Q9P2J8-2|ZNF624;ENST00000579528.1_1_17:16525604-16527848:-|nuORF;ENSG00000197566|ENST00000311331|ZNF624 nc|ENSG00000197566|Q9P2J8-2|ZNF624 nc|ENSG00000197566|Q9P2J8-2|ZNF624 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.3956298828125 2 598.39789 1194.78123 NaN NaN NaN NaN NaN NaN NaN 80.652 1 80.901 80.401 81.401 0.24947 0 0 0 1.0006 1 37134 37134 1.1933 0.66858 1 18601 5828 11911 11939 21263 21263 0.19162808007536114 LSQTSLRTSKS 11 Unmodified _LSQTSLRTSKS_ 0 0 0 REV__ENST00000585975.5_1_16:5141835-5143519:-|nuORF REV__ENST00000585975.5_1_16:5141835-5143519:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.0222778320312 2 604.335684 1206.65681 NaN NaN NaN NaN NaN NaN NaN 87.646 1 87.646 87.146 88.146 0 0 0 0 0.97602 1 45255 45255 8.9762 0.82072 1 + 18602 17537 11912 11940 21264 21264 0.06175265729575585 LSRAGRIR 8 Unmodified _LSRAGRIR_ 0 0 0 REV__ENST00000229395.7_1_12:27091523-27091565:+|nuORF REV__ENST00000229395.7_1_12:27091523-27091565:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.8145751953125 2 464.793592 927.572632 2.7526 0.0012794 -2.9268 -0.0013604 -0.17416 -8.0947E-05 464.792099154511 29.053 0.12466 29.313 29.225 29.35 0.2602 10 7 2 0 0 0 0.13972 1 13236 13236 8.5933 0 1 311590 + 18603 14849 11913 11941 21265 21265 0.10594824213967513 LSRDRDPA 8 Unmodified _LSRDRDPA_ 0 0 0 ENSG00000255181|ENST00000542437|CCDC166 ENSG00000255181|ENST00000542437|CCDC166 ENSG00000255181|ENST00000542437|CCDC166 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.24517822265625 2 465.243598 928.472643 3.2329 0.0015041 -0.44253 -0.00020589 2.7903 0.0012982 465.2435944118497 31.231 0.25796 31.487 31.309 31.567 0.25614 25 20 2 0 0 0 0.68261 1 14187 14187 7.2892 0 1 276310 18604 6282 11914 11942 21266 21266 0.005545420895032294 LSRDSTYKLL 10 Unmodified _LSRDSTYKLL_ 0 0 0 ENST00000504859.5_1_5:125807941-125819298:+|nuORF;nc|ENSG00000155324|Q96HH9-5|GRAMD2B;nc|ENSG00000155324|Q96HH9-4|GRAMD2B;ENSG00000155324|ENST00000285689|GRAMD2B;nc|ENSG00000155324|Q96HH9-2|GRAMD2B;nc|ENSG00000155324|Q96HH9-3|GRAMD2B ENST00000504859.5_1_5:125807941-125819298:+|nuORF ENST00000504859.5_1_5:125807941-125819298:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.228759765625 3 399.227556 1194.66084 2.8118 0.0011226 1.0753 0.0004293 3.8871 0.0015519 399.22807733462605 18.24 0.18378 18.542 18.457 18.641 0.30159 21 17 2 0 0 0 0.90196 1 8265 8265 1.7423 0.41263 1 155350 18605 3860 11915 11943 21267 21267 0.07129355223287348 LSRGAISI 8 Unmodified _LSRGAISI_ 0 0 0 REV__CON__P41361 REV__CON__P41361 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 408.75140380859375 2 408.750527 815.486502 NaN NaN NaN NaN NaN NaN NaN 28.482 1 28.742 28.242 29.242 0.2602 0 0 0 0.48299 1 12955 12955 29.082 0 1 + + 18606 10083 11916 11944 21268 21268 0.07137819588615457 LSRHDRWQMV 10 Unmodified _LSRHDRWQMV_ 0 0 0 REV__ENST00000581320.1_1_17:8191674-8192331:-|nuORF REV__ENST00000581320.1_1_17:8191674-8192331:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 664.338623046875 2 664.338038 1326.66152 NaN NaN NaN NaN NaN NaN NaN 107.34 1 107.34 106.84 107.84 0 0 0 0 0.99733 1 58880 58880 3.9444 0.3479 1 + 18607 17511 11917 11945 21269 21269 0.011258713913093743 LSRKRRPRFCL 11 Unmodified _LSRKRRPRFCL_ 0 0 0 REV__ENST00000424605.5_1_9:2535977-2539406:-|nuORF REV__ENST00000424605.5_1_9:2535977-2539406:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 716.3314819335938 2 716.427522 1430.84049 NaN NaN NaN NaN NaN NaN NaN 100.03 1 100.03 99.534 100.53 0 0 0 0 1.0057 1 55135 55135 3.2813 0.28607 1 + 18608 16204 11918 11946 21270 21270 0.14230380750086624 LSRLGLILLLL 11 Unmodified _LSRLGLILLLL_ 0 0 0 ENSG00000065308|ENST00000182527|TRAM2 ENSG00000065308|ENST00000182527|TRAM2 ENSG00000065308|ENST00000182527|TRAM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 612.4500122070312 2 612.426116 1222.83768 NaN NaN NaN NaN NaN NaN NaN 72.25 1 72.954 72.454 73.454 0.70386 0 0 0 1.008 1 34768 34768 0.35063 0 1 18609 686 11919 11947 21271 21271 0.23517435844223655 LSRLLSLL 8 Unmodified _LSRLLSLL_ 0 0 0 REV__ENST00000394334.6_1_X:131203626-131203674:+|nuORF REV__ENST00000394334.6_1_X:131203626-131203674:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 305.5400085449219 3 305.539294 913.596052 NaN NaN NaN NaN NaN NaN NaN 17.962 1 18.162 17.662 18.662 0.20057 0 0 0 0.50246 1 7966 7966 29.082 5.061 1 + 18610 15966 11920 11948 21272 21272 0.1357982520794394 LSRLRQQDI 9 Unmodified _LSRLRQQDI_ 0 0 0 nc|ENSG00000164488|Q5SW24-4|DACT2;ENSG00000164488|ENST00000366795|DACT2 nc|ENSG00000164488|Q5SW24-4|DACT2 nc|ENSG00000164488|Q5SW24-4|DACT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.8885498046875 3 376.887645 1127.64111 2.8522 0.001075 -0.54683 -0.00020609 2.3054 0.00086887 376.8874545794753 18.319 0.32604 18.319 18.183 18.509 0 26 17 2 0 0 0 0.22744 1 8137 8137 21.59 2.2282 1 280290 18611 4320 11921 11949 21273 21273 0.08239024003160011 LSRLRQQDI 9 Unmodified _LSRLRQQDI_ 0 0 0 nc|ENSG00000164488|Q5SW24-4|DACT2;ENSG00000164488|ENST00000366795|DACT2 nc|ENSG00000164488|Q5SW24-4|DACT2 nc|ENSG00000164488|Q5SW24-4|DACT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.888671875 3 376.887645 1127.64111 2.5583 0.00096419 0.28755 0.00010838 2.8458 0.0010726 376.8877737739488 16.797 1.407 17.101 16.153 17.56 0.30438 347 148 3 0 0 0 0.19413 2 7670 7579;7670 23.79 4.4278 1 437530 18612 4320 11921 11949 21274;21275 21275 0.08239024003160011 LSRLRQQDI 9 Unmodified _LSRLRQQDI_ 0 0 0 nc|ENSG00000164488|Q5SW24-4|DACT2;ENSG00000164488|ENST00000366795|DACT2 nc|ENSG00000164488|Q5SW24-4|DACT2 nc|ENSG00000164488|Q5SW24-4|DACT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.8891906738281 3 376.887645 1127.64111 2.7213 0.0010256 0.52512 0.00019791 3.2464 0.0012235 376.8878538358413 16.873 1.2501 17.534 16.596 17.846 0.66072 288 131 3 0 0 0 0.11155 4 7537 7489;7537;7581;7673 29.841 6.0508 1 602780 18613 4320 11921 11949 21276;21277;21278;21279 21277 0.08239024003160011 LSRNDERTL 9 Unmodified _LSRNDERTL_ 0 0 0 REV__nc|ENSG00000138336|Q8NFU7-3|TET1 REV__nc|ENSG00000138336|Q8NFU7-3|TET1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.5144653320312 2 552.293819 1102.57309 2.7572 0.0015228 -1.7108 -0.00094487 1.0464 0.00057793 552.2931900788552 72.29 0.15735 72.994 72.913 73.07 0.70386 26 17 2 0 0 0 0.098886 1 34748 34748 4.3292 0 1 1806600 + 18614 12158 11922 11950 21280 21280 0.025901543525151283 LSRPREAAL 9 Unmodified _LSRPREAAL_ 0 0 0 REV__ENST00000591419.2_2_19:10610689-10613347:-|nuORF REV__ENST00000591419.2_2_19:10610689-10613347:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.198486328125 3 338.201452 1011.58253 NaN NaN NaN NaN NaN NaN NaN 12.784 1 13.427 12.927 13.927 0.64272 0 0 0 0.86621 1 5739 5739 7.1017 2.2047 1 + 18615 17585 11923 11951 21281 21281 0.07719967428693053 LSRRKRRRKR 10 Unmodified _LSRRKRRRKR_ 0 0 0 REV__nc|ENSG00000213471|A6NNM8-2|TTLL13 REV__nc|ENSG00000213471|A6NNM8-2|TTLL13 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 706.3306274414062 2 706.468901 1410.92325 NaN NaN NaN NaN NaN NaN NaN 107.9 1 108.22 107.72 108.72 0.31421 0 0 0 1.0012 1 49771 49771 1.6526 0.32309 1 + 18616 14494 11924 11952 21282 21282 0.23422458593086048 LSRRKRRRPV 10 Unmodified _LSRRKRRRPV_ 0 0 0 ENST00000334512.9_1_10:80878683-80899487:+|nuORF ENST00000334512.9_1_10:80878683-80899487:+|nuORF ENST00000334512.9_1_10:80878683-80899487:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 662.4339599609375 2 662.431453 1322.84835 NaN NaN NaN NaN NaN NaN NaN 109.99 1 110.03 109.53 110.53 0.041008 0 0 0 0.99976 1 59294 59294 3.9444 0.66309 1 18617 7018 11925 11953 21283 21283 0.19984276061859418 LSRRLLLLLFL 11 Unmodified _LSRRLLLLLFL_ 0 0 0 REV__ENST00000490872.1_1_2:219254703-219256473:+|nuORF REV__ENST00000490872.1_1_2:219254703-219256473:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 678.9578857421875 2 678.958115 1355.90168 NaN NaN NaN NaN NaN NaN NaN 107.35 1 107.39 106.89 107.89 0.045425 0 0 0 1.0072 1 58029 58029 1.3295 0.9789 1 + 18618 16799 11926 11954 21284 21284 0.2379621600118753 LSRRRGRRFH 10 Unmodified _LSRRRGRRFH_ 0 0 0 REV__nc|ENSG00000172869|Q9Y485|DMXL1 REV__nc|ENSG00000172869|Q9Y485|DMXL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 670.8972778320312 2 670.897777 1339.781 NaN NaN NaN NaN NaN NaN NaN 54.135 1 54.135 53.635 54.635 0 0 0 0 1.0003 1 24826 24826 1.4819 0.15237 1 + 18619 13567 11927 11955 21285 21285 0.1247024585093186 LSRRRLRELRR 11 Unmodified _LSRRRLRELRR_ 0 0 0 REV__ENSG00000178878|ENST00000356591|APOLD1 REV__ENSG00000178878|ENST00000356591|APOLD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 755.981201171875 2 755.979299 1509.94404 NaN NaN NaN NaN NaN NaN NaN 72.248 1 72.952 72.452 73.452 0.70386 0 0 0 1.0079 1 34767 34767 1.3295 0.9789 1 + 18620 13773 11928 11956 21286 21286 0.20947004182085038 LSRRWRRWNRF 11 Unmodified _LSRRWRRWNRF_ 0 0 0 nc|ENSG00000157388|Q01668-4|CACNA1D;nc|ENSG00000157388|Q01668-3|CACNA1D;ENSG00000157388|ENST00000350061|CACNA1D;nc|ENSG00000157388|Q01668-2|CACNA1D nc|ENSG00000157388|Q01668-4|CACNA1D nc|ENSG00000157388|Q01668-4|CACNA1D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 816.9613037109375 2 816.958366 1631.90218 NaN NaN NaN NaN NaN NaN NaN 81.842 1 81.842 81.342 82.342 0 0 0 0 1.0082 1 40807 40807 0 0 1 18621 3948 11929 11957 21287 21287 0.11150448493572185 LSRRWRRWNRF 11 Unmodified _LSRRWRRWNRF_ 0 0 0 nc|ENSG00000157388|Q01668-4|CACNA1D;nc|ENSG00000157388|Q01668-3|CACNA1D;ENSG00000157388|ENST00000350061|CACNA1D;nc|ENSG00000157388|Q01668-2|CACNA1D nc|ENSG00000157388|Q01668-4|CACNA1D nc|ENSG00000157388|Q01668-4|CACNA1D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.0087280273438 3 544.97467 1631.90218 NaN NaN NaN NaN NaN NaN NaN 73.473 1 74.137 73.637 74.637 0.66398 0 0 0 1.008 1 33766 33766 0.094841 0 1 18622 3948 11929 11957 21288 21288 0.11150448493572185 LSSILKMYG 9 Unmodified _LSSILKMYG_ 0 0 0 ENST00000549185.5_3_14:31803609-31872202:-|nuORF;nc|ENSG00000129493|Q86XA9-2|HEATR5A;nc|ENSG00000129493|Q86XA9|HEATR5A;ENSG00000129493|ENST00000543095|HEATR5A ENST00000549185.5_3_14:31803609-31872202:-|nuORF ENST00000549185.5_3_14:31803609-31872202:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.2837219238281 2 506.280803 1010.54705 NaN NaN NaN NaN NaN NaN NaN 28.163 1 28.95 28.45 29.45 0.78627 0 0 0 0.56337 1 12678 12678 16.942 0 1 18623 2551 11930 11958 21289 21289 0.04220168856681994 LSSRWKNWWVR 11 Unmodified _LSSRWKNWWVR_ 0 0 0 ENST00000486875.1_1_20:5107738-5156066:+|nuORF;ENST00000468817.5_1_20:5109393-5167506:+|nuORF;ENSG00000101290|ENST00000460006|CDS2 ENST00000486875.1_1_20:5107738-5156066:+|nuORF ENST00000486875.1_1_20:5107738-5156066:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 759.4104614257812 2 759.409852 1516.80515 NaN NaN NaN NaN NaN NaN NaN 53.826 1 54.09 53.59 54.59 0.26462 0 0 0 1.0072 1 24615 24615 1.3295 0.87119 1 18624 1280 11931 11959 21290 21290 0.06742041493907891 LSTAIIQIRVE 11 Unmodified _LSTAIIQIRVE_ 0 0 0 REV__ADH4|p.F365Lfs*3|1|0.19|ENSG00000198099|chr4:99126620-99126620|T/-|frameshift_variant REV__ADH4|p.F365Lfs*3|1|0.19|ENSG00000198099|chr4:99126620-99126620|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.89208984375 2 621.874445 1241.73434 NaN NaN NaN NaN NaN NaN NaN 80.104 1 80.424 79.924 80.924 0.31998 0 0 0 0.94174 1 39157 39157 12.241 0.74595 1 + 18625 9929 11932 11960 21291 21291 0.12313903665767612 LSTILNVLDKL 11 Unmodified _LSTILNVLDKL_ 0 0 0 REV__nc|ENSG00000163625|Q8IZQ1-2|WDFY3 REV__nc|ENSG00000163625|Q8IZQ1-2|WDFY3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 410.2572021484375 3 410.255223 1227.74384 NaN NaN NaN NaN NaN NaN NaN 58.444 1 59.111 58.611 59.611 0.66703 0 0 0 1.0072 1 26754 26754 1.3296 0 1 + 18626 13011 11933 11961 21292 21292 0.13907671951278644 LSVDPTEWL 9 Unmodified _LSVDPTEWL_ 0 0 0 REV__nc|ENSG00000132768|Q9BQC3-2|DPH2 REV__nc|ENSG00000132768|Q9BQC3-2|DPH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.2705078125 2 530.27149 1058.52843 NaN NaN NaN NaN NaN NaN NaN 39.446 1 40.084 39.584 40.584 0.63778 0 0 0 0.84134 1 18027 18027 7.9102 0 1 + 18627 11910 11934 11962 21293 21293 0.0015033048646273528 LSVGLGLGAVP 11 Unmodified _LSVGLGLGAVP_ 0 0 0 ENST00000571243.1_1_17:7228777-7229792:-|nuORF ENST00000571243.1_1_17:7228777-7229792:-|nuORF ENST00000571243.1_1_17:7228777-7229792:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.80108642578125 2 491.800217 981.585882 NaN NaN NaN NaN NaN NaN NaN 82.232 1 82.479 81.979 82.979 0.24722 0 0 0 1.0057 1 37851 37851 3.2813 0 1 18628 9088 11935 11963 21294 21294 0.09435217482712233 LSVPSLLPGS 10 Unmodified _LSVPSLLPGS_ 0 0 0 REV__ENST00000377658.8_1_1:6651099-6651537:-|nuORF REV__ENST00000377658.8_1_1:6651099-6651537:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2870788574219 2 485.2844 968.554247 NaN NaN NaN NaN NaN NaN NaN 57.826 1 58.494 57.994 58.994 0.66829 0 0 0 0.99812 1 26462 26462 3.2813 0.70383 1 + 18629 15836 11936 11964 21295 21295 0.06871224728763536 LSVSWIYISL 10 Unmodified _LSVSWIYISL_ 0 0 0 REV__LTR102_Mam_dup160|chr6:31178333-31178586:-|1.6740034964844457|0.4104768247937383|2.03|541.0|6|3|sense REV__LTR102_Mam_dup160|chr6:31178333-31178586:-|1.6740034964844457|0.4104768247937383|2.03|541.0|6|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.56085205078125 3 394.225264 1179.65396 2.4907 0.0009819 0.1693 6.6742E-05 2.66 0.0010486 394.2253468772916 13.46 0.21948 13.767 13.619 13.838 0.30727 24 15 2 0 0 0 0.7069 1 6061 6061 12.873 0 1 219750 + 18630 17820 11937 11965 21296 21296 0.07132042342686873 LSVSWIYISL 10 Unmodified _LSVSWIYISL_ 0 0 0 REV__LTR102_Mam_dup160|chr6:31178333-31178586:-|1.6740034964844457|0.4104768247937383|2.03|541.0|6|3|sense REV__LTR102_Mam_dup160|chr6:31178333-31178586:-|1.6740034964844457|0.4104768247937383|2.03|541.0|6|3|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 394.225264 1179.65396 2.4907 0.0009819 0.1693 6.6742E-05 2.66 0.0010486 394.2253468772916 13.46 0.21948 13.767 13.619 13.838 0.30727 0.026015 0.00049102 NaN 12.873 24 15 2 NaN NaN NaN NaN 0 NaN NaN 0 219750 + 18631 17820 11937 11965 0.07132042342686873 LSVSWIYISL 10 Unmodified _LSVSWIYISL_ 0 0 0 REV__LTR102_Mam_dup160|chr6:31178333-31178586:-|1.6740034964844457|0.4104768247937383|2.03|541.0|6|3|sense REV__LTR102_Mam_dup160|chr6:31178333-31178586:-|1.6740034964844457|0.4104768247937383|2.03|541.0|6|3|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 394.225264 1179.65396 3.0526 0.0012034 -0.66386 -0.00026171 2.3888 0.00094171 394.2249809119589 13.073 0.16178 13.715 13.58 13.742 0.64272 -0.026015 -0.00049433 NaN 12.873 12 5 3 NaN NaN NaN NaN 0 NaN NaN 0 514220 + 18632 17820 11937 11965 0.07132042342686873 LSVVSCRAGAL 11 Unmodified _LSVVSCRAGAL_ 0 0 0 REV__ENST00000299697.11_1_16:66545117-66545318:-|nuORF REV__ENST00000299697.11_1_16:66545117-66545318:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.3011474609375 2 538.300059 1074.58556 2.5539 0.0013748 0.75364 0.00040568 3.3075 0.0017805 538.3006812764086 13.145 0.27355 13.452 13.32 13.594 0.30727 40 17 3 0 0 0 0.7342 1 5898 5898 4.897 1.6157 1 494340 + 18633 15179 11938 11966 21297 21297 0.051254744912057504 LSVYFKKMI 9 Unmodified _LSVYFKKMI_ 0 0 0 REV__nc|ENSG00000132554|Q8NE09-2|RGS22 REV__nc|ENSG00000132554|Q8NE09-2|RGS22 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.8294067382812 2 564.827921 1127.64129 3.3688 0.0019028 0.20078 0.0001134 3.5696 0.0020162 564.8281330903466 16.856 0.81587 17.161 16.668 17.484 0.30438 96 76 2 0 0 0 1.1703 1 7518 7518 0 0 1 117690 + 18634 11898 11939 11967 21298 21298 0.08257307678832149 LSWCFYHWMQ 10 Unmodified _LSWCFYHWMQ_ 0 0 0 REV__ENST00000504117.1_1_5:93752768-93812878:-|nuORF REV__ENST00000504117.1_1_5:93752768-93812878:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 700.7987670898438 2 700.799368 1399.58418 NaN NaN NaN NaN NaN NaN NaN 73.847 1 73.847 73.347 74.347 0 0 0 0 1.0001 1 36027 36027 1.6526 0 1 + 18635 14010 11940 11968 21299 21299 -0.09962482869241285 LSWDPSHG 8 Unmodified _LSWDPSHG_ 0 0 0 GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant;nc|ENSG00000116580|Q3T8J9-2|GON4L;nc|ENSG00000116580|Q3T8J9-3|GON4L;ENSG00000116580|ENST00000368331|GON4L;ENST00000488251.1_1_1:155801400-155823571:-|nuORF;ENST00000471341.5_1_1:155785942-155827007:-|nuORF GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 449.7073669433594 2 449.706317 897.398081 2.9617 0.0013319 0.48315 0.00021728 3.4448 0.0015492 449.7064384436355 31.961 0.2405 31.961 31.825 32.065 0 35 22 2 0 0 0 0.42655 1 14457 14457 26.341 0 1 556110 18636 9365 11941 11969 21300 21300 -0.05472220721844678 LSWDPSHG 8 Unmodified _LSWDPSHG_ 0 0 0 GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant;nc|ENSG00000116580|Q3T8J9-2|GON4L;nc|ENSG00000116580|Q3T8J9-3|GON4L;ENSG00000116580|ENST00000368331|GON4L;ENST00000488251.1_1_1:155801400-155823571:-|nuORF;ENST00000471341.5_1_1:155785942-155827007:-|nuORF GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 449.70751953125 2 449.706317 897.398081 2.883 0.0012965 0.69254 0.00031144 3.5755 0.0016079 449.7065464430315 30.939 0.20272 31.727 31.641 31.843 0.78879 23 14 2 0 0 0 0.42655 1 13966 13966 26.341 0 1 445280 18637 9365 11941 11969 21301 21301 -0.05472220721844678 LSWDPSHG 8 Unmodified _LSWDPSHG_ 0 0 0 GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant;nc|ENSG00000116580|Q3T8J9-2|GON4L;nc|ENSG00000116580|Q3T8J9-3|GON4L;ENSG00000116580|ENST00000368331|GON4L;ENST00000488251.1_1_1:155801400-155823571:-|nuORF;ENST00000471341.5_1_1:155785942-155827007:-|nuORF GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 449.7081604003906 2 449.706317 897.398081 3.2228 0.0014493 0.78235 0.00035183 4.0052 0.0018011 449.7064017261713 31.914 0.20499 32.169 32.027 32.232 0.25452 16 12 2 0 0 0 0.52517 1 14509 14509 19.439 0 1 160560 18638 9365 11941 11969 21302 21302 -0.05472220721844678 LSWDPSHG 8 Unmodified _LSWDPSHG_ 0 0 0 GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant;nc|ENSG00000116580|Q3T8J9-2|GON4L;nc|ENSG00000116580|Q3T8J9-3|GON4L;ENSG00000116580|ENST00000368331|GON4L;ENST00000488251.1_1_1:155801400-155823571:-|nuORF;ENST00000471341.5_1_1:155785942-155827007:-|nuORF GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 449.706317 897.398081 3.0817 0.0013859 0.21393 9.6206E-05 3.2957 0.0014821 449.70663149672663 31.327 0.18445 31.945 31.836 32.021 0.61736 -0.0056908 -0.00030159 NaN 26.341 13 10 2 NaN NaN NaN NaN 0 NaN NaN 0 165760 18639 9365 11941 11969 -0.05472220721844678 LSWFPFYYMLK 11 Unmodified _LSWFPFYYMLK_ 0 0 0 ENST00000497856.6_1_5:112228472-112256990:-|nuORF;nc|ENSG00000129625|Q00765-2|REEP5;ENSG00000129625|ENST00000379638|REEP5 ENST00000497856.6_1_5:112228472-112256990:-|nuORF ENST00000497856.6_1_5:112228472-112256990:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 747.5008544921875 2 747.878142 1493.74173 NaN NaN NaN NaN NaN NaN NaN 108.45 1 108.76 108.26 109.26 0.31168 0 0 0 1.0073 1 50013 50013 1.1933 0 1 18640 2557 11942 11970 21303 21303 0.014609199417918717 LSWKKRIL 8 Unmodified _LSWKKRIL_ 0 0 0 ENST00000303924.4_1_8:122625978-122626098:-|nuORF ENST00000303924.4_1_8:122625978-122626098:-|nuORF ENST00000303924.4_1_8:122625978-122626098:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.5618591308594 3 348.562321 1042.66514 NaN NaN NaN NaN NaN NaN NaN 12.911 1 13.218 12.718 13.718 0.30727 0 0 0 0.99035 1 5824 5824 1.8442 0 1 18641 6824 11943 11971 21304 21304 0.14550909227500597 LSWKPRLE 8 Unmodified _LSWKPRLE_ 0 0 0 REV__ENST00000324871.11_1_12:58164900-58164960:-|nuORF REV__ENST00000324871.11_1_12:58164900-58164960:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.7998046875 2 514.798009 1027.58147 3.4785 0.0017907 0.81104 0.00041752 4.2896 0.0022083 514.7985166242172 35.319 0.35443 35.944 35.744 36.098 0.62535 18 11 2 0 0 0 0.72385 1 16191 16191 3.9444 0.3479 1 265480 + 18642 15347 11944 11972 21305 21305 0.06877753059779934 LSWKPRLE 8 Unmodified _LSWKPRLE_ 0 0 0 REV__ENST00000324871.11_1_12:58164900-58164960:-|nuORF REV__ENST00000324871.11_1_12:58164900-58164960:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 514.798009 1027.58147 3.0724 0.0015817 1.984 0.0010214 5.0564 0.002603 514.7985982179778 35.449 0.40059 35.449 35.361 35.762 0 -0.32277 0.00070801 NaN 3.9444 34 20 2 NaN NaN NaN NaN 0 NaN NaN 0 500540 + 18643 15347 11944 11972 0.06877753059779934 LSWKPRLE 8 Unmodified _LSWKPRLE_ 0 0 0 REV__ENST00000324871.11_1_12:58164900-58164960:-|nuORF REV__ENST00000324871.11_1_12:58164900-58164960:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 514.798009 1027.58147 3.294 0.0016957 1.3193 0.00067917 4.6133 0.0023749 514.7988442362258 35.037 0.29888 35.828 35.662 35.961 0.79131 0.056428 2.3584E-05 NaN 3.9444 25 18 2 NaN NaN NaN NaN 0 NaN NaN 0 181020 + 18644 15347 11944 11972 0.06877753059779934 LSWKPRLE 8 Unmodified _LSWKPRLE_ 0 0 0 REV__ENST00000324871.11_1_12:58164900-58164960:-|nuORF REV__ENST00000324871.11_1_12:58164900-58164960:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 514.798009 1027.58147 3.4062 0.0017535 1.2853 0.00066166 4.6915 0.0024152 514.7986512491818 35.61 0.48941 35.865 35.713 36.203 0.25524 0.093897 -1.1434E-05 NaN 3.9444 35 17 3 NaN NaN NaN NaN 0 NaN NaN 0 465640 + 18645 15347 11944 11972 0.06877753059779934 LSWKPRLE 8 Unmodified _LSWKPRLE_ 0 0 0 REV__ENST00000324871.11_1_12:58164900-58164960:-|nuORF REV__ENST00000324871.11_1_12:58164900-58164960:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 514.798009 1027.58147 3.4785 0.0017907 0.81104 0.00041752 4.2896 0.0022083 514.7985166242172 35.319 0.35443 35.944 35.744 36.098 0.62535 0.17245 -0.00049971 NaN 3.9444 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 265480 + 18646 15347 11944 11972 0.06877753059779934 LSWRRRRWKR 10 Unmodified _LSWRRRRWKR_ 0 0 0 ENST00000557821.5_1_15:40588574-40589003:-|nuORF;ENST00000260402.7_1_15:40588574-40589003:-|nuORF ENST00000557821.5_1_15:40588574-40589003:-|nuORF ENST00000557821.5_1_15:40588574-40589003:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 750.9551391601562 2 750.450177 1498.8858 4.667 0.0035023 1.7234 0.0012933 6.3904 0.0047957 750.4518097145327 100.64 0.49484 100.95 100.85 101.35 0.31412 46 16 3 0 0 0 0.94246 3 46570 46570;46646;46707 0.40072 0.050084 1 4123700 18647 6544 11945 11973 21306;21307;21308 21306 0.15631367327478074 LSWRRRRWKR 10 Unmodified _LSWRRRRWKR_ 0 0 0 ENST00000557821.5_1_15:40588574-40589003:-|nuORF;ENST00000260402.7_1_15:40588574-40589003:-|nuORF ENST00000557821.5_1_15:40588574-40589003:-|nuORF ENST00000557821.5_1_15:40588574-40589003:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 750.9573364257812 2 750.450177 1498.8858 4.1617 0.0031232 2.1179 0.0015894 6.2797 0.0047126 750.4515077319321 100.5 0.58158 101.1 101 101.59 0.59716 45 19 3 0 0 0 0.93628 2 46628 46628;46691 1.6526 0.58116 1 4663700 18648 6544 11945 11973 21309;21310 21309 0.15631367327478074 LSWRRRRWKR 10 Unmodified _LSWRRRRWKR_ 0 0 0 ENST00000557821.5_1_15:40588574-40589003:-|nuORF;ENST00000260402.7_1_15:40588574-40589003:-|nuORF ENST00000557821.5_1_15:40588574-40589003:-|nuORF ENST00000557821.5_1_15:40588574-40589003:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 750.450177 1498.8858 3.3677 0.0025273 2.2153 0.0016625 5.583 0.0041897 750.9541072916647 100.98 0.069527 100.98 100.94 101.01 0 -0.028566 0.00039194 NaN 1.6526 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1556700 18649 6544 11945 11973 0.15631367327478074 LSYFKMAGI 9 Unmodified _LSYFKMAGI_ 0 0 0 ENST00000471702.2_2_3:132339980-132400782:-|nuORF;ENST00000469042.5_1_3:132298334-132378619:-|nuORF;nc|ENSG00000240303|Q709F0-3|ACAD11;nc|ENSG00000240303|Q709F0-2|ACAD11;ENSG00000240303|ENST00000264990|ACAD11 ENST00000471702.2_2_3:132339980-132400782:-|nuORF ENST00000471702.2_2_3:132339980-132400782:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.2774047851562 2 515.275521 1028.53649 3.2719 0.0016859 3.0392 0.001566 6.3111 0.003252 515.2772477317267 38.132 0.36148 38.765 38.581 38.943 0.63388 27 15 2 0 0 0 0.11458 1 17423 17423 29.082 2.1979 1 878830 18650 6215 11946 11974 21311 21311 0.02336186202251156 LSYHKRKRWFI 11 Unmodified _LSYHKRKRWFI_ 0 0 0 REV__ENST00000583028.1_1_17:62175367-62207458:-|nuORF REV__ENST00000583028.1_1_17:62175367-62207458:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 767.4443359375 2 767.443695 1532.87284 NaN NaN NaN NaN NaN NaN NaN 81.227 1 81.396 80.896 81.896 0.16862 0 0 0 1.0057 1 39898 39898 3.2813 2.8806 1 + 18651 17520 11947 11975 21312 21312 0.12771491424746273 LSYPPSTMSL 10 Unmodified _LSYPPSTMSL_ 0 0 0 REV__ENST00000240316.4_1_17:55016405-55016435:-|nuORF REV__ENST00000240316.4_1_17:55016405-55016435:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.8520202636719 3 365.851209 1094.5318 1.9717 0.00072135 -0.80649 -0.00029506 1.1652 0.0004263 365.85103146247496 12.767 0.12198 13.075 12.969 13.091 0.30727 7 3 3 0 0 0 0.70333 1 5763 5763 11.518 0 1 1726000 + 18652 14877 11948 11976 21313 21313 -0.011687427311699139 LSYRWRRRKRT 11 Unmodified _LSYRWRRRKRT_ 0 0 0 REV__ENST00000433071.2_1_21:32931573-32932426:+|nuORF REV__ENST00000433071.2_1_21:32931573-32932426:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.6451416015625 3 526.646442 1576.9175 NaN NaN NaN NaN NaN NaN NaN 90.258 1 90.323 89.823 90.823 0.064346 0 0 0 1.0079 1 46469 46469 0.40827 0.31342 1 + 18653 16277 11949 11977 21314 21314 0.15211315290730454 LTAFRDLLFTT 11 Unmodified _LTAFRDLLFTT_ 0 0 0 ENSG00000111863|ENST00000414691|ADTRP;nc|ENSG00000111863|Q96IZ2-2|ADTRP;ENST00000485323.2_1_6:11738840-11768613:-|nuORF;nc|ENSG00000111863|Q96IZ2-3|ADTRP ENSG00000111863|ENST00000414691|ADTRP ENSG00000111863|ENST00000414691|ADTRP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 649.3630981445312 2 649.36117 1296.70779 NaN NaN NaN NaN NaN NaN NaN 94.556 1 94.643 94.143 95.143 0.086212 0 0 0 1.0034 1 49778 49778 6.1918 0.46 1 18654 1782 11950 11978 21315 21315 0.0713021477440634 LTAPEILLHPW 11 Unmodified _LTAPEILLHPW_ 0 0 0 ENSG00000173334|ENST00000311922|TRIB1;nc|ENSG00000173334|Q96RU8-2|TRIB1 ENSG00000173334|ENST00000311922|TRIB1 ENSG00000173334|ENST00000311922|TRIB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 645.3685913085938 2 645.366256 1288.71796 NaN NaN NaN NaN NaN NaN NaN 106.08 1 106.08 105.58 106.58 0 0 0 0 0.97175 1 58271 58271 9.3831 5.4387 1 18655 4929 11951 11979 21316 21316 0.0851482249968285 LTARVASLYP 10 Unmodified _LTARVASLYP_ 0 0 0 REV__ENST00000479956.1_1_3:9834805-9839462:+|nuORF REV__ENST00000479956.1_1_3:9834805-9839462:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 364.21441650390625 3 364.213358 1089.61824 NaN NaN NaN NaN NaN NaN NaN 57.486 1 57.486 56.986 57.986 0 0 0 0 0.99559 1 26498 26498 5.4027 0.5057 1 + 18656 14612 11952 11980 21317 21317 0.0770200488568662 LTCAWQQHEDH 11 Unmodified _LTCAWQQHEDH_ 0 0 0 nc|ENSG00000185973|Q9NVH6-6|TMLHE;nc|ENSG00000185973|Q9NVH6-5|TMLHE;ENSG00000185973|ENST00000334398|TMLHE;nc|ENSG00000185973|Q9NVH6-8|TMLHE;ENST00000487422.1_1_X:154753982-154774937:-|nuORF;nc|ENSG00000185973|Q9NVH6-4|TMLHE;nc|ENSG00000185973|Q9NVH6-2|TMLHE;nc|ENSG00000185973|Q9NVH6-3|TMLHE nc|ENSG00000185973|Q9NVH6-6|TMLHE nc|ENSG00000185973|Q9NVH6-6|TMLHE MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 684.298583984375 2 684.293493 1366.57243 NaN NaN NaN NaN NaN NaN NaN 94.837 1 94.919 94.419 95.419 0.082001 0 0 0 1.0038 1 49994 49994 5.7319 1.7875 1 18657 5550 11953 11981 21318 21318 -0.09619008358822612 LTCCCFCCCC 10 Unmodified _LTCCCFCCCC_ 0 0 0 ENSG00000163793|ENST00000296097|DNAJC5G ENSG00000163793|ENST00000296097|DNAJC5G ENSG00000163793|ENST00000296097|DNAJC5G MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.7096557617188 2 551.144783 1100.27501 NaN NaN NaN NaN NaN NaN NaN 67.458 1 67.458 66.958 67.958 0 0 0 0 1.002 1 32363 32363 0 0 1 18658 4249 11954 11982 21319 21319 -0.271114104104754 LTCCCFCCCCC 11 Unmodified _LTCCCFCCCCC_ 0 0 0 ENSG00000163793|ENST00000296097|DNAJC5G ENSG00000163793|ENST00000296097|DNAJC5G ENSG00000163793|ENST00000296097|DNAJC5G MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.6507568359375 2 602.649375 1203.2842 NaN NaN NaN NaN NaN NaN NaN 72.58 1 73.284 72.784 73.784 0.70386 0 0 0 1.0082 1 34952 34952 0 0 1 18659 4249 11955 11983 21320 21320 -0.3093138511644611 LTCCYCCCC 9 Unmodified _LTCCYCCCC_ 0 0 0 nc|ENSG00000101152|Q9H3Z4-2|DNAJC5;ENSG00000101152|ENST00000360864|DNAJC5 nc|ENSG00000101152|Q9H3Z4-2|DNAJC5 nc|ENSG00000101152|Q9H3Z4-2|DNAJC5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.63592529296875 2 507.637648 1013.26074 NaN NaN NaN NaN NaN NaN NaN 95.967 1 96.043 95.543 96.543 0.076538 0 0 0 0.90611 1 50878 50878 2.0598 2.0598 1 18660 1264 11956 11984 21321 21321 -0.24535739567113524 LTDCHDCQ 8 Unmodified _LTDCHDCQ_ 0 0 0 REV__PLCE1|p.Q1778Pfs*42|1|0.42|ENSG00000138193|chr10:94298540-94298541|-/C|frameshift_variant REV__PLCE1|p.Q1778Pfs*42|1|0.42|ENSG00000138193|chr10:94298540-94298541|-/C|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 934.5404052734375 1 934.339328 933.332052 3.2905 0.0030744 -0.56396 -0.00052693 2.7265 0.0025475 934.3388400409711 92.199 0.037827 92.199 92.167 92.205 0 7 5 2 0 0 0 0.14111 1 48919 48919 5.7604 0 1 16708000 + 18661 12154 11957 11985 21322 21322 -0.13728120950588618 LTDCHDCQ 8 Unmodified _LTDCHDCQ_ 0 0 0 REV__PLCE1|p.Q1778Pfs*42|1|0.42|ENSG00000138193|chr10:94298540-94298541|-/C|frameshift_variant REV__PLCE1|p.Q1778Pfs*42|1|0.42|ENSG00000138193|chr10:94298540-94298541|-/C|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 934.4074096679688 1 934.339328 933.332052 2.5314 0.0023652 -3.4812 -0.0032526 -0.94975 -0.00088738 934.338353582921 93.075 0.15001 93.161 93.069 93.219 0.086205 26 18 2 0 0 0 0.14111 1 48618 48618 5.7604 0 1 25555000 + 18662 12154 11957 11985 21323 21323 -0.13728120950588618 LTDDQDEV 8 Unmodified _LTDDQDEV_ 0 0 0 nc|ENSG00000135677|P15586-2|GNS;ENSG00000135677|ENST00000258145|GNS nc|ENSG00000135677|P15586-2|GNS nc|ENSG00000135677|P15586-2|GNS MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 934.4746704101562 1 934.399997 933.392721 2.4679 0.002306 1.3142 0.001228 3.7822 0.003534 934.4017898770592 95.154 0.17422 95.236 95.122 95.296 0.082008 26 20 2 0 0 0 0.13972 1 50214 50214 4.756 0 1 18754000 18663 2887 11958 11986 21324 21324 -0.07663989094987755 LTDRVIQLQQV 11 Unmodified _LTDRVIQLQQV_ 0 0 0 REV__nc|ENSG00000188779|P84550-2|SKOR1 REV__nc|ENSG00000188779|P84550-2|SKOR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 656.8798828125 2 656.882801 1311.75105 NaN NaN NaN NaN NaN NaN NaN 70.173 1 70.173 69.673 70.673 0 0 0 0 0.99038 1 34011 34011 7.609 0.88579 1 + 18664 14159 11959 11987 21325 21325 0.10764404551696316 LTEIKRDLL 9 Unmodified _LTEIKRDLL_ 0 0 0 REV__nc|ENSG00000104093|Q8TDJ6-2|DMXL2 REV__nc|ENSG00000104093|Q8TDJ6-2|DMXL2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.7870483398438 2 550.837331 1099.66011 3.5024 0.0019293 0.1597 8.7971E-05 3.6621 0.0020172 550.8369224613336 45.823 0.19286 46.088 45.954 46.147 0.26561 11 7 2 0 0 0 0.05306 1 20966 20966 18.146 0 1 405410 + 18665 10983 11960 11988 21326 21326 0.11426560574227551 LTELCPLL 8 Unmodified _LTELCPLL_ 0 0 0 ENST00000461141.5_1_3:183952309-183959823:+|nuORF ENST00000461141.5_1_3:183952309-183959823:+|nuORF ENST00000461141.5_1_3:183952309-183959823:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.2569274902344 2 451.256797 900.499041 NaN NaN NaN NaN NaN NaN NaN 70.656 1 70.912 70.412 71.412 0.25642 0 0 0 0.88162 1 32359 32359 13.508 0.97634 1 18666 8077 11961 11989 21327 21327 0.044810949366365094 LTFLLLFVI 9 Unmodified _LTFLLLFVI_ 0 0 0 ENSG00000167191|ENST00000300571|GPRC5B;nc|ENSG00000167191|Q9NZH0-2|GPRC5B ENSG00000167191|ENST00000300571|GPRC5B ENSG00000167191|ENST00000300571|GPRC5B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 360.2228088378906 3 360.235211 1077.6838 NaN NaN NaN NaN NaN NaN NaN 44.1 1 44.921 44.421 45.421 0.82075 0 0 0 0.73102 1 20080 20080 11.495 1.1795 1 18667 4536 11962 11990 21328 21328 0.14807026078710805 LTFRLLFYRYV 11 Unmodified _LTFRLLFYRYV_ 0 0 0 REV__ENST00000493181.1_1_2:200812997-200820193:-|nuORF REV__ENST00000493181.1_1_2:200812997-200820193:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 745.9305419921875 2 745.929554 1489.84456 NaN NaN NaN NaN NaN NaN NaN 87.359 1 87.359 86.859 87.859 0 0 0 0 1.0059 1 45023 45023 2.9952 1.5133 1 + 18668 16815 11963 11991 21329 21329 0.1192274872478265 LTFRRLEP 8 Unmodified _LTFRRLEP_ 0 0 0 REV__ENST00000597230.2_1_19:58789893-58790073:-|nuORF REV__ENST00000597230.2_1_19:58789893-58790073:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 344.2078857421875 3 344.538064 1030.59236 2.5721 0.00088618 2.309 0.00079555 4.8811 0.0016817 344.5393034367584 12.639 0.043766 12.639 12.617 12.66 0 4 2 2 0 0 0 0.13931 1 5503 5503 6.2058 0.47393 1 868390 + 18669 17619 11964 11992 21330 21330 0.07829155434069435 LTFYLFIHLML 11 Unmodified _LTFYLFIHLML_ 0 0 0 REV__Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|228|3|anti-sense REV__Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|228|3|anti-sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 705.7474365234375 2 705.896334 1409.77812 3.3205 0.0023439 1.1249 0.00079403 4.4453 0.0031379 706.3967862797695 96.718 0.037483 96.718 96.703 96.741 0 6 4 2 0 0 0 0.13295 1 52422 52422 6.2058 0.47393 1 19827000 + 18670 17698 11965 11993 21331 21331 0.08961796838525515 LTGHFLPI 8 Unmodified _LTGHFLPI_ 0 0 0 REV__nc|ENSG00000131148|O43402-2|EMC8 REV__nc|ENSG00000131148|O43402-2|EMC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 449.2623291015625 2 449.263271 896.511988 NaN NaN NaN NaN NaN NaN NaN 31.233 1 31.233 30.733 31.733 0 0 0 0 0.88162 1 14126 14126 13.508 0 1 + 18671 11847 11966 11994 21332 21332 0.05959294111039526 LTGNLIASLAH 11 Unmodified _LTGNLIASLAH_ 0 0 0 ENSG00000151687|ENST00000684021|ANKAR;ENST00000433782.6_1_2:190593496-190609506:+|nuORF;ENST00000441800.5_1_2:190593140-190625849:+|nuORF ENSG00000151687|ENST00000684021|ANKAR ENSG00000151687|ENST00000684021|ANKAR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.7814331054688 2 555.319306 1108.62406 NaN NaN NaN NaN NaN NaN NaN 14.464 1 14.771 14.271 15.271 0.3069 0 0 0 1.0061 1 6545 6545 2.7352 0.43246 1 18672 3722 11967 11995 21333 21333 0.07409103397367289 LTHKRILKFLK 11 Unmodified _LTHKRILKFLK_ 0 0 0 ENST00000546531.5_1_12:49396684-49399341:-|nuORF;nc|ENSG00000181929|P54619-2|PRKAG1;ENSG00000181929|ENST00000548065|PRKAG1;nc|ENSG00000181929|P54619-3|PRKAG1;ENST00000550448.5_1_12:49398244-49398481:-|nuORF ENST00000546531.5_1_12:49396684-49399341:-|nuORF ENST00000546531.5_1_12:49396684-49399341:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 698.5826416015625 2 698.961189 1395.90782 NaN NaN NaN NaN NaN NaN NaN 98.365 1 98.365 97.865 98.865 0 0 0 0 1.0072 1 53825 53825 1.3295 0 1 18673 5304 11968 11996 21334 21334 0.2257073423268139 LTHQKKKL 8 Unmodified _LTHQKKKL_ 0 0 0 nc|ENSG00000173391|P78380-2|OLR1;nc|ENSG00000173391|P78380-3|OLR1;ENSG00000173391|ENST00000309539|OLR1 nc|ENSG00000173391|P78380-2|OLR1 nc|ENSG00000173391|P78380-2|OLR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.281494140625 2 498.321651 994.62875 NaN NaN NaN NaN NaN NaN NaN 43.726 1 44.54 44.04 45.04 0.81444 0 0 0 0.99035 1 19904 19904 2.8892 0.31174 1 18674 4931 11969 11997 21335 21335 0.13122032330807087 LTIELIKP 8 Unmodified _LTIELIKP_ 0 0 0 REV__nc|ENSG00000152527|Q8IVE3-2|PLEKHH2 REV__nc|ENSG00000152527|Q8IVE3-2|PLEKHH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.80194091796875 2 463.799686 925.584819 NaN NaN NaN NaN NaN NaN NaN 39.648 1 39.915 39.415 40.415 0.26696 0 0 0 0.99035 1 18039 18039 0 0 1 + 18675 12652 11970 11998 21336 21336 0.11905003113815837 LTIRTNTSG 9 Unmodified _LTIRTNTSG_ 0 0 0 REV__nc|ENSG00000179832|Q8NDA8-4|MROH1 REV__nc|ENSG00000179832|Q8NDA8-4|MROH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.767822265625 2 481.766906 961.519259 3.2421 0.0015619 -0.82304 -0.00039651 2.419 0.0011654 481.7663737966173 48.158 0.33541 48.812 48.562 48.897 0.65356 16 11 2 0 0 0 1.0601 1 22034 22034 2.9952 0.10602 1 185010 + 18676 18062 11971 11999 21337 21337 0.036959819208163935 LTIRTNTSG 9 Unmodified _LTIRTNTSG_ 0 0 0 REV__nc|ENSG00000179832|Q8NDA8-4|MROH1 REV__nc|ENSG00000179832|Q8NDA8-4|MROH1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 481.766906 961.519259 3.022 0.0014559 -1.1719 -0.00056457 1.8501 0.00089132 481.7660769950528 47.808 0.28057 48.637 48.481 48.761 0.82915 -0.087299 -0.00019401 NaN 2.9952 12 11 2 NaN NaN NaN NaN 0 NaN NaN 0 169230 + 18677 18062 11971 11999 0.036959819208163935 LTIRTNTSG 9 Unmodified _LTIRTNTSG_ 0 0 0 REV__nc|ENSG00000179832|Q8NDA8-4|MROH1 REV__nc|ENSG00000179832|Q8NDA8-4|MROH1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 481.766906 961.519259 3.2421 0.0015619 -0.82304 -0.00039651 2.419 0.0011654 481.7663737966173 48.158 0.33541 48.812 48.562 48.897 0.65356 0.087299 0.00014211 NaN 2.9952 16 11 2 NaN NaN NaN NaN 0 NaN NaN 0 185010 + 18678 18062 11971 11999 0.036959819208163935 LTISWQKKKWR 11 Unmodified _LTISWQKKKWR_ 0 0 0 REV__ENST00000361060.5_1_2:69575455-69581668:-|nuORF REV__ENST00000361060.5_1_2:69575455-69581668:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 737.5459594726562 2 737.438078 1472.8616 NaN NaN NaN NaN NaN NaN NaN 80.044 1 80.044 79.544 80.544 0 0 0 0 1.008 1 39638 39638 0.35063 0.043601 1 + 18679 15620 11972 12000 21338 21338 0.14408669330600787 LTIWIWRRV 9 Unmodified _LTIWIWRRV_ 0 0 0 REV__ENST00000476618.5_1_2:174034605-174047659:+|nuORF REV__ENST00000476618.5_1_2:174034605-174047659:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.7629089355469 3 414.920509 1241.7397 3.1001 0.0012863 -0.95756 -0.00039731 2.1425 0.00088897 414.92037341154554 81.983 0.63702 82.643 82.436 83.073 0.65998 47 35 2 0 0 0 0.11393 1 37971 37971 0.23584 0.095952 1 634470 + 18680 16656 11973 12001 21339 21339 0.12849672038873905 LTIWIWRRVE 10 Unmodified _LTIWIWRRVE_ 0 0 0 REV__ENST00000476618.5_1_2:174034605-174047659:+|nuORF REV__ENST00000476618.5_1_2:174034605-174047659:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.7029724121094 4 343.702849 1370.78229 2.3838 0.00081933 0.10369 3.564E-05 2.4875 0.00085497 343.70245031396354 38.857 1.4889 39.121 38.471 39.959 0.26408 101 57 3 0 0 0 0.93713 1 17629 17629 1.7423 1.2363 1 1056300 + 18681 16656 11974 12002 21340 21340 0.11173022376442532 LTKDSRLPI 9 Unmodified _LTKDSRLPI_ 0 0 0 nc|ENSG00000115355|Q3V6T2-5|CCDC88A;nc|ENSG00000115355|Q3V6T2-4|CCDC88A;nc|ENSG00000115355|Q3V6T2-2|CCDC88A;nc|ENSG00000115355|Q3V6T2-3|CCDC88A;ENSG00000115355|ENST00000436346|CCDC88A nc|ENSG00000115355|Q3V6T2-5|CCDC88A nc|ENSG00000115355|Q3V6T2-5|CCDC88A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.8172607421875 2 521.816399 1041.61824 NaN NaN NaN NaN NaN NaN NaN 60.003 1 60.259 59.759 60.759 0.25624 0 0 0 0.65681 1 27477 27477 13.906 0 1 18682 1964 11975 12003 21341 21341 0.09910004885705348 LTKFSWFLFLL 11 Unmodified _LTKFSWFLFLL_ 0 0 0 REV__ENST00000375651.6_1_6:31785473-31785653:+|nuORF REV__ENST00000375651.6_1_6:31785473-31785653:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 707.908447265625 2 707.910299 1413.80605 NaN NaN NaN NaN NaN NaN NaN 100.12 1 100.12 99.623 100.62 0 0 0 0 1.0057 1 55198 55198 3.2813 0.28607 1 + 18683 15808 11976 12004 21342 21342 0.11569443090274945 LTKIKSKKKK 10 Unmodified _LTKIKSKKKK_ 0 0 0 REV__nc|ENSG00000156675|Q6WKZ4-2|RAB11FIP1 REV__nc|ENSG00000156675|Q6WKZ4-2|RAB11FIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 601.8079833984375 2 601.421365 1200.82818 NaN NaN NaN NaN NaN NaN NaN 38.291 1 38.291 37.791 38.791 0 0 0 0 0.99774 1 17377 17377 3.5965 0 1 + 18684 12780 11977 12005 21343 21343 0.23579667558669826 LTKKFLLKK 9 Unmodified _LTKKFLLKK_ 0 0 0 ENSG00000091536|ENST00000647165|MYO15A ENSG00000091536|ENST00000647165|MYO15A ENSG00000091536|ENST00000647165|MYO15A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.23974609375 2 559.886627 1117.7587 NaN NaN NaN NaN NaN NaN NaN 87.629 1 87.669 87.169 88.169 0.039955 0 0 0 0.90611 1 44417 44417 2.0598 0.21551 1 18685 1079 11978 12006 21344 21344 0.20453208609956164 LTKKKKKKK 9 Unmodified _LTKKKKKKK_ 0 0 0 REV__ENST00000297857.3_1_8:124261964-124262105:-|nuORF;REV__L1PB1_dup3131|chr4:69117282-69117596:+|1.59905624223008|0.0293046000434249|5.77|526.0|1|1|sense REV__L1PB1_dup3131|chr4:69117282-69117596:+|1.59905624223008|0.0293046000434249|5.77|526.0|1|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.4119262695312 2 565.410801 1128.80705 NaN NaN NaN NaN NaN NaN NaN 81.579 1 81.579 81.079 82.079 0 0 0 0 0.91452 1 40658 40658 0 0 1 + 18686 17804;15168 11979 12007 21345 21345 0.2477970224983892 LTKKQKKHL 9 Unmodified _LTKKQKKHL_ 0 0 0 ENSG00000117597|ENST00000491415|UTP25 ENSG00000117597|ENST00000491415|UTP25 ENSG00000117597|ENST00000491415|UTP25 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.3701171875 2 562.369133 1122.72371 NaN NaN NaN NaN NaN NaN NaN 91.387 1 91.639 91.139 92.139 0.25163 0 0 0 0.90511 1 42023 42023 2.3027 0.4585 1 18687 2083 11980 12008 21346 21346 0.16725965801970233 LTKLFQKL 8 Unmodified _LTKLFQKL_ 0 0 0 REV__ENSG00000164332|ENST00000296786|UBLCP1 REV__ENSG00000164332|ENST00000296786|UBLCP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.8839416503906 3 330.883061 989.627353 2.1657 0.00071658 0.65468 0.00021662 2.8203 0.0009332 330.8832642086997 14.59 0.25422 14.897 14.779 15.033 0.3069 42 19 3 0 0 0 0.36624 1 6585 6585 30.637 11.38 1 342610 + 18688 13086 11981 12009 21347 21347 0.13212398242023937 LTKLFQKL 8 Unmodified _LTKLFQKL_ 0 0 0 REV__ENSG00000164332|ENST00000296786|UBLCP1 REV__ENSG00000164332|ENST00000296786|UBLCP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 330.883061 989.627353 2.1657 0.00071658 0.65468 0.00021662 2.8203 0.0009332 330.8832642086997 14.59 0.25422 14.897 14.779 15.033 0.3069 0 0 NaN 30.637 42 19 3 NaN NaN NaN NaN 0 NaN NaN 0 342610 + 18689 13086 11981 12009 0.13212398242023937 LTKQELLHEL 10 Unmodified _LTKQELLHEL_ 0 0 0 REV__ENST00000460573.5_1_9:97767442-97823116:+|nuORF REV__ENST00000460573.5_1_9:97767442-97823116:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 612.3101806640625 2 612.353345 1222.69214 NaN NaN NaN NaN NaN NaN NaN 95.183 1 95.265 94.765 95.765 0.082001 0 0 0 0.99774 1 50262 50262 3.5965 0 1 + 18690 12521 11982 12010 21348 21348 0.08969928257397441 LTKQKTRTV 9 Unmodified _LTKQKTRTV_ 0 0 0 nc|ENSG00000126583|P05129-2|PRKCG;ENSG00000126583|ENST00000263431|PRKCG nc|ENSG00000126583|P05129-2|PRKCG nc|ENSG00000126583|P05129-2|PRKCG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.87109375 2 537.835123 1073.65569 NaN NaN NaN NaN NaN NaN NaN 85.685 1 85.685 85.185 86.185 0 0 0 0 0.84134 1 43702 43702 7.9102 0 1 18691 2458 11983 12011 21349 21349 0.12181096151334714 LTLEAVKRLI 10 Unmodified _LTLEAVKRLI_ 0 0 0 ENSG00000169299|ENST00000381967|PGM2 ENSG00000169299|ENST00000381967|PGM2 ENSG00000169299|ENST00000381967|PGM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.5201416015625 2 578.376623 1154.73869 NaN NaN NaN NaN NaN NaN NaN 92.544 1 92.544 92.044 93.044 0 0 0 0 1.0003 1 49204 49204 1.4819 0.8804 1 18692 4682 11984 12012 21350 21350 0.1675141287933002 LTLIRRLFF 9 Unmodified _LTLIRRLFF_ 0 0 0 REV__ENST00000336967.7_1_19:54378000-54378504:+|nuORF REV__ENST00000336967.7_1_19:54378000-54378504:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.5865783691406 3 393.585126 1177.73355 3.2016 0.0012601 1.1276 0.00044383 4.3292 0.0017039 393.5856301813946 41.643 0.35756 41.914 41.716 42.074 0.27021 34 16 3 0 0 0 1.1138 1 18907 18907 2.086 0.49373 1 804230 + 18693 15425 11985 12013 21351 21351 0.15179153807343937 LTLIRRLFF 9 Unmodified _LTLIRRLFF_ 0 0 0 REV__ENST00000336967.7_1_19:54378000-54378504:+|nuORF REV__ENST00000336967.7_1_19:54378000-54378504:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 393.585126 1177.73355 2.5616 0.0010082 1.8265 0.0007189 4.3881 0.0017271 393.5858755094239 42.142 0.094009 42.142 42.068 42.162 0 0.1571 0.00044502 NaN 2.086 8 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1101100 + 18694 15425 11985 12013 0.15179153807343937 LTLKRKRKKK 10 Unmodified _LTLKRKRKKK_ 0 0 0 REV__ENST00000437916.2_1_2:45148822-45149500:-|nuORF REV__ENST00000437916.2_1_2:45148822-45149500:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 650.443115234375 2 649.958981 1297.90341 NaN NaN NaN NaN NaN NaN NaN 89.426 1 89.49 88.99 89.99 0.064346 0 0 0 1.0016 1 45833 45833 0.35063 0.35063 1 + 18695 16319 11986 12014 21352 21352 0.2663726980977117 LTLLIVRRL 9 Unmodified _LTLLIVRRL_ 0 0 0 ENST00000372059.6_1_X:109459854-109561030:-|nuORF ENST00000372059.6_1_X:109459854-109561030:-|nuORF ENST00000372059.6_1_X:109459854-109561030:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 365.9195251464844 3 366.257009 1095.7492 2.2753 0.00083334 -1.6435 -0.00060193 0.63185 0.00023142 366.2561708809636 25.745 0.47398 26.509 26.232 26.706 0.76356 20 12 2 0 0 0 1.2289 1 11476 11476 0.26902 0 1 397730 18696 7331 11987 12015 21353 21353 0.20515440324402334 LTLLIVRRL 9 Unmodified _LTLLIVRRL_ 0 0 0 ENST00000372059.6_1_X:109459854-109561030:-|nuORF ENST00000372059.6_1_X:109459854-109561030:-|nuORF ENST00000372059.6_1_X:109459854-109561030:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.25726318359375 3 366.257009 1095.7492 2.6876 0.00098434 -0.87653 -0.00032103 1.811 0.0006633 366.25661459080425 26.256 0.33298 26.521 26.388 26.721 0.26489 70 27 4 0 0 0 1.0601 1 11993 11993 2.9952 0 1 1281100 18697 7331 11987 12015 21354 21354 0.20515440324402334 LTLLIVRRL 9 Unmodified _LTLLIVRRL_ 0 0 0 ENST00000372059.6_1_X:109459854-109561030:-|nuORF ENST00000372059.6_1_X:109459854-109561030:-|nuORF ENST00000372059.6_1_X:109459854-109561030:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.25616455078125 3 366.257009 1095.7492 2.4958 0.00091411 -0.68497 -0.00025087 1.8108 0.00066323 366.2566718136208 25.905 0.31302 26.53 26.387 26.7 0.62505 58 26 3 0 0 0 1.0601 1 11926 11926 2.9952 0 1 1340500 18698 7331 11987 12015 21355 21355 0.20515440324402334 LTLLLFLRKLH 11 Unmodified _LTLLLFLRKLH_ 0 0 0 ENSG00000065325|ENST00000262441|GLP2R;ENST00000458005.2_1_17:9738090-9769219:+|nuORF ENSG00000065325|ENST00000262441|GLP2R ENSG00000065325|ENST00000262441|GLP2R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 683.9498901367188 2 683.95029 1365.88603 NaN NaN NaN NaN NaN NaN NaN 93.787 1 93.873 93.373 94.373 0.086212 0 0 0 1.0072 1 49217 49217 3.2813 0 1 18699 687 11988 12016 21356 21356 0.2177192948413449 LTLLSVPLGSP 11 Unmodified _LTLLSVPLGSP_ 0 0 0 REV__ENSG00000139329|ENST00000266718|LUM REV__ENSG00000139329|ENST00000266718|LUM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.56103515625 3 366.225264 1095.65396 2.4146 0.00088429 -2.1303 -0.00078018 0.28429 0.00010412 366.2243397276852 14.255 0.20978 14.562 14.501 14.711 0.3069 17 11 2 0 0 0 0.63351 1 6491 6491 14.218 2.7003 1 2405900 + + 18700 10086 11989 12017 21357 21357 0.10996042342708279 LTLNIRRP 8 Unmodified _LTLNIRRP_ 0 0 0 ENSG00000086967|ENST00000357701|MYBPC2 ENSG00000086967|ENST00000357701|MYBPC2 ENSG00000086967|ENST00000357701|MYBPC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.20037841796875 3 328.210059 981.608348 NaN NaN NaN NaN NaN NaN NaN 45.901 1 46.167 45.667 46.667 0.26561 0 0 0 0.99035 1 20987 20987 3.5965 1.3137 1 18701 989 11990 12018 21358 21358 0.11680861670993181 LTLPQTRQRAK 11 Unmodified _LTLPQTRQRAK_ 0 0 0 nc|ENSG00000122188|Q8IWV1-2|LAX1;nc|ENSG00000122188|Q8IWV1-3|LAX1;ENSG00000122188|ENST00000442561|LAX1 nc|ENSG00000122188|Q8IWV1-2|LAX1 nc|ENSG00000122188|Q8IWV1-2|LAX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 656.397216796875 2 656.39641 1310.77827 NaN NaN NaN NaN NaN NaN NaN 64.437 1 65.152 64.652 65.652 0.71521 0 0 0 0.94958 1 30358 30358 11.495 3.3392 1 18702 2259 11991 12019 21359 21359 0.13530932882758862 LTLQRFTH 8 Unmodified _LTLQRFTH_ 0 0 0 DNMT3A|p.E616Dfs*35|1|0.15|ENSG00000119772|chr2:25244158-25244158|T/-|frameshift_variant DNMT3A|p.E616Dfs*35|1|0.15|ENSG00000119772|chr2:25244158-25244158|T/-|frameshift_variant DNMT3A|p.E616Dfs*35|1|0.15|ENSG00000119772|chr2:25244158-25244158|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.2887878417969 2 508.287808 1014.56106 3.0708 0.0015609 -0.19691 -0.00010009 2.8739 0.0014608 508.28767978070965 47.898 0.50233 48.727 48.481 48.983 0.82915 56 22 3 0 0 0 0.60101 1 21887 21887 12.532 0 1 1774300 18703 274 11992 12020 21360 21360 0.05436582400000134 LTLRPRSPRPM 11 Unmodified _LTLRPRSPRPM_ 0 0 0 REV__ENST00000602529.1_1_1:228463255-228463756:-|nuORF REV__ENST00000602529.1_1_1:228463255-228463756:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.698486328125 4 331.697404 1322.76051 2.3226 0.00077039 0.99898 0.00033136 3.3215 0.0011017 331.6976901239594 49.468 0.48391 50.123 49.95 50.434 0.65524 42 17 4 0 0 0 0.90879 1 22619 22619 1.9275 0.18523 1 2123100 + 18704 17643 11993 12021 21361 21361 0.11203894356231103 LTLRPRSPRPM 11 Unmodified _LTLRPRSPRPM_ 0 0 0 REV__ENST00000602529.1_1_1:228463255-228463756:-|nuORF REV__ENST00000602529.1_1_1:228463255-228463756:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 331.697404 1322.76051 2.3955 0.00079458 0.25067 8.3146E-05 2.6462 0.00087773 331.69749064076854 49.727 0.31552 50.55 50.382 50.698 0.82285 0.19843 -0.00066428 NaN 1.9275 38 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1532300 + 18705 17643 11993 12021 0.11203894356231103 LTLRPRSPRPM 11 Unmodified _LTLRPRSPRPM_ 0 0 0 REV__ENST00000602529.1_1_1:228463255-228463756:-|nuORF REV__ENST00000602529.1_1_1:228463255-228463756:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 331.697404 1322.76051 2.3601 0.00078283 0.99765 0.00033092 3.3577 0.0011137 331.6976653133425 50.12 0.33597 50.382 50.193 50.529 0.26146 0.030138 0.00032681 NaN 1.9275 38 12 5 NaN NaN NaN NaN 0 NaN NaN 0 2003700 + 18706 17643 11993 12021 0.11203894356231103 LTLRTVPHIE 10 Unmodified _LTLRTVPHIE_ 0 0 0 ENST00000299601.9_1_15:52244138-52245371:-|nuORF ENST00000299601.9_1_15:52244138-52245371:-|nuORF ENST00000299601.9_1_15:52244138-52245371:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.5694274902344 3 393.567912 1177.68191 2.2975 0.00090422 0.88304 0.00034754 3.1805 0.0012518 393.56835850578085 12.835 0.1582 13.142 13.058 13.216 0.30727 11 4 3 0 0 0 0.3084 1 5804 5804 28.234 1.1452 1 582670 18707 6788 11994 12022 21362 21362 0.10017365322801197 LTLRTVPHIE 10 Unmodified _LTLRTVPHIE_ 0 0 0 ENST00000299601.9_1_15:52244138-52245371:-|nuORF ENST00000299601.9_1_15:52244138-52245371:-|nuORF ENST00000299601.9_1_15:52244138-52245371:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 393.567912 1177.68191 3.1501 0.0012398 0.09507 3.7417E-05 3.2452 0.0012772 393.5682569168628 12.679 0.10089 13.322 13.244 13.345 0.64272 0.049158 6.4085E-06 NaN 28.234 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 890670 18708 6788 11994 12022 0.10017365322801197 LTLTAGKL 8 Unmodified _LTLTAGKL_ 0 0 0 REV__ENSG00000167306|ENST00000285039|MYO5B REV__ENSG00000167306|ENST00000285039|MYO5B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 408.7640686035156 2 408.763104 815.511654 NaN NaN NaN NaN NaN NaN NaN 35.383 1 36.174 35.674 36.674 0.79131 0 0 0 0.18359 1 16036 16036 68.081 3.8444 1 + 18709 13285 11995 12023 21363 21363 0.09651874391192905 LTLVPKGP 8 Unmodified _LTLVPKGP_ 0 0 0 REV__ENST00000540458.5_1_12:6950693-6952146:+|nuORF REV__ENST00000540458.5_1_12:6950693-6952146:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 824.532958984375 1 824.524016 823.516739 4.1596 0.0034297 2.0362 0.0016789 6.1958 0.0051085 824.5300919241135 99.485 0.073135 100.08 100.03 100.1 0.59748 5 4 2 0 0 0 0.70146 1 46013 46013 5.7604 0 1 1506300 + 18710 17212 11996 12024 21364 21364 0.09792178253815109 LTLWLLKKGP 10 Unmodified _LTLWLLKKGP_ 0 0 0 ENST00000566814.1_1_22:26909701-26909914:+|nuORF ENST00000566814.1_1_22:26909701-26909914:+|nuORF ENST00000566814.1_1_22:26909701-26909914:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.42333984375 2 584.876259 1167.73797 3.1603 0.0018484 2.1788 0.0012743 5.3391 0.0031227 585.3775842871091 96.29 0.027473 96.29 96.28 96.308 0 5 3 2 0 0 0 0.12676 1 52073 52073 0.40072 0 1 4191500 18711 9056 11997 12025 21365 21365 0.1608061823026219 LTMHRIVI 8 Unmodified _LTMHRIVI_ 0 0 0 nc|ENSG00000172575|O95267-4|RASGRP1;nc|ENSG00000172575|O95267-5|RASGRP1;nc|ENSG00000172575|O95267-3|RASGRP1;nc|ENSG00000172575|O95267-2|RASGRP1;ENSG00000172575|ENST00000310803|RASGRP1 nc|ENSG00000172575|O95267-4|RASGRP1 nc|ENSG00000172575|O95267-4|RASGRP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7986755371094 2 491.796955 981.579357 3.1858 0.0015668 -0.24159 -0.00011881 2.9442 0.001448 491.7967972399181 42.971 0.095329 43.242 43.217 43.312 0.27021 9 6 2 0 0 0 0.74071 1 19631 19631 2.5775 0 1 1942100 18712 4879 11998 12026 21366 21366 0.08783001050335315 LTMRIFPLRRR 11 Unmodified _LTMRIFPLRRR_ 0 0 0 REV__ENST00000262113.8_1_8:2026969-2037879:+|nuORF REV__ENST00000262113.8_1_8:2026969-2037879:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 729.8975830078125 2 729.945547 1457.87654 NaN NaN NaN NaN NaN NaN NaN 97.434 1 97.434 96.934 97.934 0 0 0 0 1.0057 1 53043 53043 3.2813 0 1 + 18713 14976 11999 12027 21367 21367 0.16591837926898734 LTPDPQPG 8 Unmodified _LTPDPQPG_ 0 0 0 ENST00000415602.5_3_20:62694892-62695267:+|nuORF ENST00000415602.5_3_20:62694892-62695267:+|nuORF ENST00000415602.5_3_20:62694892-62695267:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 824.5362548828125 1 824.414859 823.407583 3.3435 0.0027564 -0.31356 -0.00025851 3.0299 0.0024979 824.4154094710857 94.806 0.10789 94.806 94.745 94.853 0 17 14 2 0 0 0 0.13853 1 50937 50937 10.183 0.83596 1 15749000 18714 7704 12000 12028 21368 21368 -0.011184524363329729 LTPDPQPG 8 Unmodified _LTPDPQPG_ 0 0 0 ENST00000415602.5_3_20:62694892-62695267:+|nuORF ENST00000415602.5_3_20:62694892-62695267:+|nuORF ENST00000415602.5_3_20:62694892-62695267:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 824.414859 823.407583 2.5191 0.0020768 1.298 0.0010701 3.8171 0.0031469 824.4167190921736 94.827 0.040787 94.909 94.893 94.934 0.082001 0.05172 0.0010257 NaN 10.183 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 17047000 18715 7704 12000 12028 -0.011184524363329729 LTPPAKRFP 9 Unmodified _LTPPAKRFP_ 0 0 0 REV__ENST00000487903.5_1_13:113537693-113537786:+|nuORF REV__ENST00000487903.5_1_13:113537693-113537786:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.812255859375 2 513.808377 1025.6022 3.3183 0.001705 1.701 0.000874 5.0193 0.002579 513.8098750213537 49.166 0.17243 49.993 49.871 50.043 0.82705 10 8 2 0 0 0 0.98132 1 22411 22411 4.3292 0.38484 1 298090 + 18716 16775 12001 12029 21369 21369 0.0904234343945518 LTPRIFHL 8 Unmodified _LTPRIFHL_ 0 0 0 ENST00000585090.1_1_18:3249531-3249615:+|nuORF ENST00000585090.1_1_18:3249531-3249615:+|nuORF ENST00000585090.1_1_18:3249531-3249615:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 996.6036376953125 1 996.598912 995.591636 3.5371 0.003525 1.0248 0.0010213 4.5618 0.0045463 996.5997413291583 51.84 0.33364 51.84 51.692 52.026 0 47 25 2 0 0 0 0.71384 1 23789 23789 4.756 2.1785 1 1995600 18717 9174 12002 12030 21370 21370 0.09366360785031702 LTPRIFHL 8 Unmodified _LTPRIFHL_ 0 0 0 ENST00000585090.1_1_18:3249531-3249615:+|nuORF ENST00000585090.1_1_18:3249531-3249615:+|nuORF ENST00000585090.1_1_18:3249531-3249615:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 996.6019897460938 1 996.598912 995.591636 3.38 0.0033685 1.8019 0.0017958 5.1819 0.0051642 996.600531593019 51.46 0.27472 51.723 51.585 51.86 0.26228 31 12 3 0 0 0 0.71384 1 23488 23488 4.756 2.1785 1 4363400 18718 9174 12002 12030 21371 21371 0.09366360785031702 LTQADEMAN 9 Unmodified _LTQADEMAN_ 0 0 0 REV__nc|ENSG00000196975|P09525|ANXA4 REV__nc|ENSG00000196975|P09525|ANXA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.7236633300781 2 496.721307 991.42806 3.0988 0.0015393 0.088175 4.3798E-05 3.187 0.001583 496.7214640574822 38.498 0.41652 39.295 39.117 39.534 0.79762 45 19 3 0 0 0 0.0095519 1 17403 17403 82.529 10.607 1 1889100 + 18719 14250 12003 12031 21372 21372 -0.0679964983884247 LTQADEMAN 9 Unmodified _LTQADEMAN_ 0 0 0 REV__nc|ENSG00000196975|P09525|ANXA4 REV__nc|ENSG00000196975|P09525|ANXA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.7231750488281 2 496.721307 991.42806 3.248 0.0016134 -0.24133 -0.00011987 3.0067 0.0014935 496.72147102234015 39.02 0.45343 39.658 39.408 39.861 0.63778 48 16 4 0 0 0 0.0024283 1 17830 17830 99.755 7.2638 1 2511000 + 18720 14250 12003 12031 21373 21373 -0.0679964983884247 LTQATVQPL 9 Unmodified _LTQATVQPL_ 0 0 0 ENSG00000238083|ENST00000576629|LRRC37A2;ENSG00000176681|ENST00000320254|LRRC37A;ENSG00000176809|ENST00000584306|LRRC37A3 ENSG00000238083|ENST00000576629|LRRC37A2 ENSG00000238083|ENST00000576629|LRRC37A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.7835388183594 2 485.782025 969.549496 3.4221 0.0016624 -0.12998 -6.3142E-05 3.2921 0.0015992 485.7818455407976 39.859 0.43975 40.5 40.277 40.716 0.64136 45 17 3 0 0 0 0.078225 1 18272 18272 38.176 3.7738 1 4427700 18721 5084 12004 12032 21374 21374 0.0635034058598194 LTQGVVKRI 9 Unmodified _LTQGVVKRI_ 0 0 0 nc|ENSG00000144744|Q8TBC4-2|UBA3;ENSG00000144744|ENST00000361055|UBA3 nc|ENSG00000144744|Q8TBC4-2|UBA3 nc|ENSG00000144744|Q8TBC4-2|UBA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.54278564453125 3 338.553715 1012.63931 2.6313 0.00089085 -0.38362 -0.00012988 2.2477 0.00076097 338.5533555120456 12.652 0.13474 13.295 13.21 13.345 0.64272 7 3 3 0 0 0 0.55815 1 5659 5659 11.495 0 1 1332200 18722 3445 12005 12033 21375 21375 0.1335001498522388 LTQLLLCASL 10 Unmodified _LTQLLLCASL_ 0 0 0 ENSG00000149635|ENST00000279028|OCSTAMP ENSG00000149635|ENST00000279028|OCSTAMP ENSG00000149635|ENST00000279028|OCSTAMP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.2143859863281 3 358.879099 1073.61547 2.8807 0.0010338 -0.16319 -5.8566E-05 2.7175 0.00097526 358.87903741682123 32.328 0.23697 32.582 32.526 32.763 0.25452 18 14 2 0 0 0 0.76575 1 14755 14755 8.9762 0 1 687610 18723 3650 12006 12034 21376 21376 0.08160413436553426 LTQLVEDPI 9 Unmodified _LTQLVEDPI_ 0 0 0 REV__ZNF148|p.Q640Sfs*7|1|0.36|ENSG00000163848|chr3:125232809-125232809|A/-|frameshift_variant REV__ZNF148|p.Q640Sfs*7|1|0.36|ENSG00000163848|chr3:125232809-125232809|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.2891845703125 2 514.28714 1026.55973 3.1625 0.0016265 -0.064792 -3.3322E-05 3.0978 0.0015931 514.2870997803577 72.238 0.27516 72.497 72.349 72.625 0.25876 40 24 2 0 0 0 0.043585 1 33188 33188 49.933 0 1 887940 + 18724 13035 12007 12035 21377 21377 0.04750903520562133 LTQRTKNTI 9 Unmodified _LTQRTKNTI_ 0 0 0 REV__Harlequin-int_dup218|chr6:31181866-31182438:-|2.116216060176825|0.3787525668952435|2.48|540.0|4|1|sense REV__Harlequin-int_dup218|chr6:31181866-31182438:-|2.116216060176825|0.3787525668952435|2.48|540.0|4|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 358.880126953125 3 358.880379 1073.61931 2.4695 0.00088624 -2.0075 -0.00072047 0.46191 0.00016577 358.87949773044613 32.187 0.28153 32.805 32.647 32.928 0.61831 27 15 2 0 0 0 0.78763 1 14759 14759 7.609 0 1 356950 + 18725 17705 12008 12036 21378 21378 0.08544219254599739 LTQRWVRI 8 Unmodified _LTQRWVRI_ 0 0 0 REV__nc|ENSG00000076108|Q9UIF9-2|BAZ2A REV__nc|ENSG00000076108|Q9UIF9-2|BAZ2A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.5511169433594 3 357.885576 1070.6349 2.6063 0.00093275 -1.184 -0.00042375 1.4222 0.000509 357.8844821512103 49.224 0.68082 49.224 48.713 49.394 0 48 36 2 0 0 0 0.14286 1 22504 22504 2.7352 0.23671 1 886960 + 18726 10539 12009 12037 21379 21379 0.10240550562321005 LTQSKRGEL 9 Unmodified _LTQSKRGEL_ 0 0 0 REV__ENST00000399537.8_1_7:5346437-5346644:-|nuORF REV__ENST00000399537.8_1_7:5346437-5346644:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 344.53387451171875 3 344.532979 1030.57711 2.5966 0.0008946 -0.22068 -7.6033E-05 2.3759 0.00081857 344.5328628732464 12.888 0.40939 13.531 13.413 13.822 0.64272 32 18 3 0 0 0 0.093314 1 5787 5787 32.037 0 1 1496900 + 18727 16035 12010 12038 21380 21380 0.06304243846238933 LTQTVFFSNK 10 Unmodified _LTQTVFFSNK_ 0 0 0 ENSG00000198185|ENST00000692313|ZNF334 ENSG00000198185|ENST00000692313|ZNF334 ENSG00000198185|ENST00000692313|ZNF334 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.5495910644531 3 395.548518 1183.62372 3.006 0.001189 0.028045 1.1093E-05 3.0341 0.0012001 395.5484267734367 26.261 0.34877 26.526 26.372 26.721 0.26489 82 29 4 0 0 0 0.70333 1 11917 11917 11.518 3.3624 1 1417300 18728 5874 12011 12039 21381 21381 0.03925683677516645 LTRKRVIHRRR 11 Unmodified _LTRKRVIHRRR_ 0 0 0 REV__ENSG00000146648|ENST00000275493|EGFR REV__ENSG00000146648|ENST00000275493|EGFR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 746.416015625 2 745.984384 1489.95422 NaN NaN NaN NaN NaN NaN NaN 100.39 1 100.99 100.49 101.49 0.59717 0 0 0 1.0072 1 46468 46468 1.3295 1.3295 1 + 18729 12479 12012 12040 21382 21382 0.22883611907309387 LTRLALAWP 9 Unmodified _LTRLALAWP_ 0 0 0 ENST00000487235.5_1_1:153927539-153927596:-|nuORF;ENST00000476883.5_1_1:153925810-153930559:-|nuORF ENST00000487235.5_1_1:153927539-153927596:-|nuORF ENST00000487235.5_1_1:153927539-153927596:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 347.54791259765625 3 347.54656 1039.61785 2.8645 0.00099556 1.0174 0.0003536 3.882 0.0013492 347.546861101894 53.816 0.69564 53.816 53.641 54.337 0 91 52 3 0 0 0 1.1022 1 24734 24734 2.2828 0 1 1738700 18730 8237 12013 12041 21383 21383 0.09962629956521596 LTRNFRKR 8 Unmodified _LTRNFRKR_ 0 0 0 REV__ENST00000332830.8_2_17:27234686-27239753:-|nuORF REV__ENST00000332830.8_2_17:27234686-27239753:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.2139892578125 3 364.224591 1089.65194 NaN NaN NaN NaN NaN NaN NaN 59.748 1 60.413 59.913 60.913 0.66503 0 0 0 0.99035 1 27350 27350 3.5965 0 1 + 18731 15392 12014 12042 21384 21384 0.11070471168113727 LTRNLSYLF 9 Unmodified _LTRNLSYLF_ 0 0 0 REV__nc|ENSG00000140527|Q6P2C0-2|WDR93 REV__nc|ENSG00000140527|Q6P2C0-2|WDR93 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.214599609375 3 376.213358 1125.61824 2.7271 0.001026 0.32974 0.00012405 3.0568 0.00115 376.2136012513024 55.468 0.48521 55.468 55.21 55.695 0 75 39 4 0 0 0 0.11157 1 25445 25445 4.1895 0.59301 1 3373800 + 18732 12253 12015 12043 21385 21385 0.06046004885683942 LTRNLSYLF 9 Unmodified _LTRNLSYLF_ 0 0 0 REV__nc|ENSG00000140527|Q6P2C0-2|WDR93 REV__nc|ENSG00000140527|Q6P2C0-2|WDR93 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.21429443359375 3 376.213358 1125.61824 2.0765 0.00078122 0.68789 0.00025879 2.7644 0.00104 376.2136556882595 55.07 0.35919 55.858 55.727 56.086 0.78711 74 24 4 0 0 0 1.0252 1 25130 25130 3.5871 0.26742 1 1141800 + 18733 12253 12015 12043 21386 21386 0.06046004885683942 LTRNLSYLF 9 Unmodified _LTRNLSYLF_ 0 0 0 REV__nc|ENSG00000140527|Q6P2C0-2|WDR93 REV__nc|ENSG00000140527|Q6P2C0-2|WDR93 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 376.213358 1125.61824 2.0765 0.00078122 0.68789 0.00025879 2.7644 0.00104 376.2136556882595 55.07 0.35919 55.858 55.727 56.086 0.78711 0 0 NaN 3.5871 74 24 4 NaN NaN NaN NaN 0 NaN NaN 0 1141800 + 18734 12253 12015 12043 0.06046004885683942 LTRPGHRRRRR 11 Unmodified _LTRPGHRRRRR_ 0 0 0 REV__ENST00000319004.5_1_17:651256-655482:-|nuORF REV__ENST00000319004.5_1_17:651256-655482:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 731.217041015625 2 730.948333 1459.88211 NaN NaN NaN NaN NaN NaN NaN 100.32 1 100.38 99.883 100.88 0.059723 0 0 0 1.0072 1 54406 54406 1.3295 0 1 + 18735 15304 12016 12044 21387 21387 0.1705669755363033 LTRQLELFA 9 Unmodified _LTRQLELFA_ 0 0 0 REV__ENSG00000261787|ENST00000563496|TCF24 REV__ENSG00000261787|ENST00000563496|TCF24 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 364.2145080566406 3 364.213358 1089.61824 NaN NaN NaN NaN NaN NaN NaN 56.712 1 57.49 56.99 57.99 0.77786 0 0 0 0.86621 1 25936 25936 7.1017 0 1 + 18736 14695 12017 12045 21388 21388 0.07702004885709357 LTRRERRRLLR 11 Unmodified _LTRRERRRLLR_ 0 0 0 LETM2|p.E302Dfs*16|1|0.07|ENSG00000165046|chr8:38400974-38400974|A/-|frameshift_variant;nc|ENSG00000165046|Q2VYF4-2|LETM2;ENSG00000165046|ENST00000379957|LETM2 LETM2|p.E302Dfs*16|1|0.07|ENSG00000165046|chr8:38400974-38400974|A/-|frameshift_variant LETM2|p.E302Dfs*16|1|0.07|ENSG00000165046|chr8:38400974-38400974|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.9927978515625 3 508.993841 1523.95969 NaN NaN NaN NaN NaN NaN NaN 96.912 1 96.912 96.412 97.412 0 0 0 0 1.0079 1 52587 52587 0.45452 0.046251 1 18737 4366 12018 12046 21389 21389 0.21867290699151454 LTRRKQLLK 9 Unmodified _LTRRKQLLK_ 0 0 0 REV__ENSG00000102904|ENST00000561639|TSNAXIP1 REV__ENSG00000102904|ENST00000561639|TSNAXIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.3869018554688 2 578.387857 1154.76116 NaN NaN NaN NaN NaN NaN NaN 71.975 1 72.638 72.138 73.138 0.66324 0 0 0 0.87786 1 32990 32990 6.7232 0.51738 1 + 18738 10950 12019 12047 21390 21390 0.189970570675996 LTRRKQLLKR 10 Unmodified _LTRRKQLLKR_ 0 0 0 REV__ENSG00000102904|ENST00000561639|TSNAXIP1 REV__ENSG00000102904|ENST00000561639|TSNAXIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 656.4898681640625 2 656.438412 1310.86227 NaN NaN NaN NaN NaN NaN NaN 65.072 1 65.781 65.281 66.281 0.70891 0 0 0 0.99812 1 30715 30715 3.2813 0 1 + 18739 10950 12020 12048 21391 21391 0.2192750877029539 LTRRMEFQRKK 11 Unmodified _LTRRMEFQRKK_ 0 0 0 REV__ENST00000420261.1_1_6:32846995-32847538:-|nuORF REV__ENST00000420261.1_1_6:32846995-32847538:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 746.5402221679688 2 746.930094 1491.84564 NaN NaN NaN NaN NaN NaN NaN 87.082 1 87.082 86.582 87.582 0 0 0 0 1.0072 1 44800 44800 1.3295 0 1 + 18740 16165 12021 12049 21392 21392 0.11938639822028563 LTRRPRLIEK 10 Unmodified _LTRRPRLIEK_ 0 0 0 REV__ENSG00000106804|ENST00000223642|C5 REV__ENSG00000106804|ENST00000223642|C5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.4121704101562 2 641.409321 1280.80409 NaN NaN NaN NaN NaN NaN NaN 90.548 1 90.548 90.048 91.048 0 0 0 0 0.99733 1 47622 47622 3.9444 0 1 + + 18741 11099 12022 12050 21393 21393 0.17491827125036252 LTRRRRFSRTV 11 Unmodified _LTRRRRFSRTV_ 0 0 0 ENSG00000145526|ENST00000382275|CDH18 ENSG00000145526|ENST00000382275|CDH18 ENSG00000145526|ENST00000382275|CDH18 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 724.4130859375 2 724.439475 1446.8644 NaN NaN NaN NaN NaN NaN NaN 99.674 1 99.982 99.482 100.48 0.30835 0 0 0 1.0072 1 46070 46070 1.3295 0 1 18742 3472 12023 12051 21394 21394 0.15883937508101553 LTRRWYWYYIR 11 Unmodified _LTRRWYWYYIR_ 0 0 0 REV__ENSG00000163686|ENST00000478253|ABHD6 REV__ENSG00000163686|ENST00000478253|ABHD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 838.5521850585938 2 838.446434 1674.87832 NaN NaN NaN NaN NaN NaN NaN 89.996 1 89.996 89.496 90.496 0 0 0 0 1.0082 1 47171 47171 0.30703 0.30703 1 + 18743 13016 12024 12052 21395 21395 0.0678717021655757 LTRVKYVKLKR 11 Unmodified _LTRVKYVKLKR_ 0 0 0 REV__Tigger3b_dup1519|chr4:22823170-22824367:+|1.7655105813976355|0.1032405959314167|4.1|519.0|12|1|sense REV__Tigger3b_dup1519|chr4:22823170-22824367:+|1.7655105813976355|0.1032405959314167|4.1|519.0|12|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 702.46142578125 2 702.464096 1402.91364 NaN NaN NaN NaN NaN NaN NaN 103.28 1 103.28 102.78 103.78 0 0 0 0 1.008 1 56938 56938 0.35063 0 1 + 18744 18234 12025 12053 21396 21396 0.22829832744332634 LTRVPRTGRR 10 Unmodified _LTRVPRTGRR_ 0 0 0 ENST00000261401.7_1_12:109039947-109040256:-|nuORF ENST00000261401.7_1_12:109039947-109040256:-|nuORF ENST00000261401.7_1_12:109039947-109040256:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.1998596191406 4 303.691544 1210.73707 2.3318 0.00070814 3.223 0.00097879 5.5548 0.0016869 303.6921908301686 40.165 0.13555 40.432 40.38 40.515 0.26696 6 4 2 0 0 0 0.12676 1 18312 18312 1.7423 1.6343 1 189320 18745 6556 12026 12054 21397 21397 0.14013216633929915 LTSIKSTTLRV 11 Unmodified _LTSIKSTTLRV_ 0 0 0 nc|ENSG00000174437|P16615-5|ATP2A2;nc|ENSG00000174437|P16615-2|ATP2A2;nc|ENSG00000174437|P16615-3|ATP2A2;ENSG00000174437|ENST00000539276|ATP2A2 nc|ENSG00000174437|P16615-5|ATP2A2 nc|ENSG00000174437|P16615-5|ATP2A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 609.831787109375 2 609.874445 1217.73434 NaN NaN NaN NaN NaN NaN NaN 92.186 1 92.269 91.769 92.769 0.082848 0 0 0 1.0041 1 47976 47976 5.2969 1.3525 1 18746 4976 12027 12055 21398 21398 0.134179036657315 LTTESMPF 8 Unmodified _LTTESMPF_ 0 0 0 nc|ENSG00000079385|P13688-2|CEACAM1;ENSG00000079385|ENST00000161559|CEACAM1;ENST00000403136.1_1_19:43025413-43032607:-|nuORF;nc|ENSG00000079385|P13688-4|CEACAM1;ENST00000344391.9_1_19:43023158-43032553:-|nuORF;nc|ENSG00000079385|P13688-11|CEACAM1;nc|ENSG00000079385|P13688-9|CEACAM1;nc|ENSG00000079385|P13688-3|CEACAM1;nc|ENSG00000079385|P13688-6|CEACAM1;ENST00000377806.7_1_19:43023094-43032607:-|nuORF;nc|ENSG00000079385|P13688-5|CEACAM1;nc|ENSG00000079385|P13688-8|CEACAM1;nc|ENSG00000079385|P13688-10|CEACAM1;nc|ENSG00000079385|P13688-7|CEACAM1 nc|ENSG00000079385|P13688-2|CEACAM1 nc|ENSG00000079385|P13688-2|CEACAM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.2220153808594 2 463.220411 924.426269 NaN NaN NaN NaN NaN NaN NaN 28.384 1 28.644 28.144 29.144 0.2602 0 0 0 0.99035 1 12910 12910 2.5775 0 1 18747 894 12028 12056 21399 21399 -0.03896658856774593 LTTKRFLEL 9 Unmodified _LTTKRFLEL_ 0 0 0 ENSG00000101412|ENST00000343380|E2F1 ENSG00000101412|ENST00000343380|E2F1 ENSG00000101412|ENST00000343380|E2F1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.8419799804688 2 560.839874 1119.66519 3.6842 0.0020662 -0.040703 -2.2828E-05 3.6435 0.0020434 560.8396962730714 48.729 0.22233 49.384 49.252 49.474 0.65524 14 7 3 0 0 0 0.099775 1 22275 22275 32.786 2.1491 1 513930 18748 1292 12029 12057 21400 21400 0.11014864436833705 LTTLKKIWKFI 11 Unmodified _LTTLKKIWKFI_ 0 0 0 REV__ENST00000464167.5_1_3:197682669-197682726:+|nuORF REV__ENST00000464167.5_1_3:197682669-197682726:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.3011779785156 3 464.298874 1389.87479 3.5483 0.0016475 0.59491 0.00027622 4.1433 0.0019237 464.29905858537614 109.71 1.7986 110.02 108.5 110.3 0.31015 148 75 2 0 0 0 0.91459 9 50082 50082;50237;50349;50404;50454;50507;50561;50612;50660 0.094841 0.094841 1 371290 + 18749 16527 12030 12058 21401;21402;21403;21404;21405;21406;21407;21408;21409 21401 0.19545107389967598 LTTRLYKADL 10 Unmodified _LTTRLYKADL_ 0 0 0 REV__nc|ENSG00000157703|Q8N434-2|SVOPL REV__nc|ENSG00000157703|Q8N434-2|SVOPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.56927490234375 3 398.567801 1192.68157 2.9429 0.0011729 1.0197 0.00040643 3.9626 0.0015794 398.5683177297761 49.645 0.20679 50.302 50.167 50.373 0.65735 15 6 3 0 0 0 0.70333 1 22720 22720 11.518 0 1 978950 + 18750 12809 12031 12059 21410 21410 0.09293945602939857 LTTSEMEQLR 10 Unmodified _LTTSEMEQLR_ 0 0 0 USP24|p.Y2252Ifs*5|1|0.16|ENSG00000162402|chr1:55085953-55085953|A/-|frameshift_variant;ENSG00000162402|ENST00000294383|USP24 USP24|p.Y2252Ifs*5|1|0.16|ENSG00000162402|chr1:55085953-55085953|A/-|frameshift_variant USP24|p.Y2252Ifs*5|1|0.16|ENSG00000162402|chr1:55085953-55085953|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 403.22125244140625 3 403.204422 1206.59144 NaN NaN NaN NaN NaN NaN NaN 27.715 1 28.501 28.001 29.001 0.78627 0 0 0 1.0004 1 12468 12468 0.56317 0.32733 1 18751 4134 12032 12060 21411 21411 -0.003594717877831499 LTTYPWPG 8 Unmodified _LTTYPWPG_ 0 0 0 REV__nc|ENSG00000148219|O75129-2|ASTN2 REV__nc|ENSG00000148219|O75129-2|ASTN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 934.4732055664062 1 934.466895 933.459619 2.4894 0.0023262 1.1232 0.0010496 3.6125 0.0033758 934.4698940139456 94.444 0.10146 94.53 94.45 94.551 0.086212 18 14 2 0 0 0 0.64692 1 49684 49684 10.183 1.5901 1 18329000 + 18752 12526 12033 12061 21412 21412 -0.00977289022569039 LTVLLPMML 9 Unmodified _LTVLLPMML_ 0 0 0 REV__ENST00000287706.7_1_16:15141723-15141856:-|nuORF REV__ENST00000287706.7_1_16:15141723-15141856:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 344.2078857421875 3 344.206158 1029.59665 NaN NaN NaN NaN NaN NaN NaN 12.627 1 12.627 12.127 13.127 0 0 0 0 0.84134 1 5503 5503 4.897 0 1 + 18753 15113 12034 12062 21413 21413 0.08303160541117904 LTVQRKLF 8 Unmodified _LTVQRKLF_ 0 0 0 nc|ENSG00000178997|Q8NHP7-2|EXD1 nc|ENSG00000178997|Q8NHP7-2|EXD1 nc|ENSG00000178997|Q8NHP7-2|EXD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.5472106933594 3 335.54656 1003.61785 2.4686 0.00082834 0.16075 5.3941E-05 2.6294 0.00088228 335.54658544756336 26.224 0.29029 26.489 26.341 26.631 0.26489 44 25 2 0 0 0 0.47217 1 11957 11957 24.021 0 1 597450 18754 9764 12035 12063 21414 21414 0.11618629956524273 LTVSRQARRL 10 Unmodified _LTVSRQARRL_ 0 0 0 REV__CON__Q2KIH2 REV__CON__Q2KIH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.5853271484375 3 400.582556 1198.72584 NaN NaN NaN NaN NaN NaN NaN 12.529 1 12.836 12.336 13.336 0.30727 0 0 0 0.9754 1 5650 5650 5.4027 1.2132 1 + + 18755 10090 12036 12064 21415 21415 0.13442394539811175 LTVTPTVSLI 10 Unmodified _LTVTPTVSLI_ 0 0 0 ENSG00000170482|ENST00000348729|SLC23A1;nc|ENSG00000170482|Q9UHI7-2|SLC23A1 ENSG00000170482|ENST00000348729|SLC23A1 ENSG00000170482|ENST00000348729|SLC23A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.321044921875 2 522.320983 1042.62741 NaN NaN NaN NaN NaN NaN NaN 97.331 1 97.402 96.902 97.902 0.070648 0 0 0 0.9754 1 52002 52002 9.3831 1.7742 1 18756 4751 12037 12065 21416 21416 0.10780353451377778 LTVVIRLAKF 10 Unmodified _LTVVIRLAKF_ 0 0 0 REV__ENSG00000159596|ENST00000372025|TMEM69 REV__ENSG00000159596|ENST00000372025|TMEM69 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 580.1439208984375 2 580.381709 1158.74886 NaN NaN NaN NaN NaN NaN NaN 93.704 1 93.79 93.29 94.29 0.086212 0 0 0 1.0001 1 49154 49154 1.6526 0 1 + 18757 12857 12038 12066 21417 21417 0.17584020604522266 LTWILKAPKWI 11 Unmodified _LTWILKAPKWI_ 0 0 0 ENST00000378024.8_2_11:62290097-62290190:-|nuORF ENST00000378024.8_2_11:62290097-62290190:-|nuORF ENST00000378024.8_2_11:62290097-62290190:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 684.923583984375 2 684.923741 1367.83293 NaN NaN NaN NaN NaN NaN NaN 102.71 1 102.71 102.21 103.21 0 0 0 0 1.0072 1 56678 56678 1.3295 0 1 18758 7423 12039 12067 21418 21418 0.16372551701442717 LTWKKIIKFL 10 Unmodified _LTWKKIIKFL_ 0 0 0 ENSG00000112249|ENST00000369162|ASCC3;nc|ENSG00000112249|Q8N3C0-3|ASCC3;ENST00000468245.2_1_6:101296020-101315873:-|nuORF;nc|ENSG00000112249|Q8N3C0-4|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.5934448242188 2 645.420834 1288.82712 NaN NaN NaN NaN NaN NaN NaN 108.54 1 108.58 108.08 109.08 0.04248 0 0 0 1.0001 1 58600 58600 1.6526 0.17072 1 18759 1798 12040 12068 21419 21419 0.1942545318977409 LTWKLLTILIL 11 Unmodified _LTWKLLTILIL_ 0 0 0 ENST00000265827.7_1_7:127014698-127014806:-|nuORF ENST00000265827.7_1_7:127014698-127014806:-|nuORF ENST00000265827.7_1_7:127014698-127014806:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 663.4580078125 2 663.941599 1325.86865 NaN NaN NaN NaN NaN NaN NaN 95.13 1 95.212 94.712 95.712 0.082001 0 0 0 1.0072 1 50215 50215 1.3295 0.9789 1 18760 6623 12041 12069 21420 21420 0.21874589158483104 LTWKNQNIHYM 11 Unmodified _LTWKNQNIHYM_ 0 0 0 REV__ENSG00000171659|ENST00000378142|GPR34 REV__ENSG00000171659|ENST00000378142|GPR34 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 724.198486328125 2 724.361179 1446.7078 NaN NaN NaN NaN NaN NaN NaN 100.16 1 100.47 99.972 100.97 0.30835 0 0 0 1.0061 1 46326 46326 2.7352 1.0826 1 + 18761 13508 12042 12070 21421 21421 0.0023189150276721193 LTWLGIVDRL 10 Unmodified _LTWLGIVDRL_ 0 0 0 REV__ENST00000329517.10_1_22:19808897-19842427:-|nuORF REV__ENST00000329517.10_1_22:19808897-19842427:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.9044494628906 3 395.904524 1184.69174 NaN NaN NaN NaN NaN NaN NaN 25.245 1 25.513 25.013 26.013 0.26777 0 0 0 0.92432 1 11455 11455 17.443 0 1 + 18762 15367 12043 12071 21422 21422 0.10678553328170892 LTWRRLLF 8 Unmodified _LTWRRLLF_ 0 0 0 ENST00000269143.7_1_18:12329763-12337353:-|nuORF ENST00000269143.7_1_18:12329763-12337353:-|nuORF ENST00000269143.7_1_18:12329763-12337353:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.8365478515625 2 552.837468 1103.66038 NaN NaN NaN NaN NaN NaN NaN 66.662 1 67.319 66.819 67.819 0.65672 0 0 0 0.99035 1 30560 30560 2.8892 0.58649 1 18763 6640 12044 12072 21423 21423 0.11270025084741064 LTYEKVNLSSI 11 Unmodified _LTYEKVNLSSI_ 0 0 0 ENST00000564530.5_1_16:57254621-57272884:+|nuORF;RSPRY1|p.M489*|1|0.38|ENSG00000159579|chr16:57231255-57231255|A/-|frameshift_variant;ENSG00000159579|ENST00000394420|RSPRY1 ENST00000564530.5_1_16:57254621-57272884:+|nuORF ENST00000564530.5_1_16:57254621-57272884:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.8495483398438 2 633.850635 1265.68672 NaN NaN NaN NaN NaN NaN NaN 99.185 1 99.247 98.747 99.747 0.062241 0 0 0 0.91901 1 53546 53546 14.405 4.2548 1 18764 4029 12045 12073 21424 21424 0.0645020467491122 LTYLWSLKI 9 Unmodified _LTYLWSLKI_ 0 0 0 nc|ENSG00000137764|Q13163-4|MAP2K5;nc|ENSG00000137764|Q13163-2|MAP2K5;nc|ENSG00000137764|Q13163-3|MAP2K5;ENSG00000137764|ENST00000178640|MAP2K5 nc|ENSG00000137764|Q13163-4|MAP2K5 nc|ENSG00000137764|Q13163-4|MAP2K5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.56378173828125 3 379.561987 1135.66413 3.1813 0.0012075 2.2452 0.00085219 5.4265 0.0020597 379.5629533144037 31.908 0.42572 32.163 31.966 32.392 0.25452 46 28 2 0 0 0 0.55815 1 14569 14569 11.495 6.5977 1 508480 18765 3037 12046 12074 21425 21425 0.10172650067943323 LTYSSRTGLS 10 Unmodified _LTYSSRTGLS_ 0 0 0 ENST00000524583.5_1_4:190862056-190863091:+|nuORF ENST00000524583.5_1_4:190862056-190863091:+|nuORF ENST00000524583.5_1_4:190862056-190863091:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.7838134765625 2 542.785296 1083.55604 NaN NaN NaN NaN NaN NaN NaN 92.956 1 92.956 92.456 93.456 0 0 0 0 0.99464 1 49520 49520 6.2058 0 1 18766 8664 12047 12075 21426 21426 0.01760233746722406 LTYWYHLH 8 Unmodified _LTYWYHLH_ 0 0 0 HERVK-int_dup102|chr7:4583489-4590929:-|1.365261944516419|0.4463608682754711|1.61|525.0|111|2|sense HERVK-int_dup102|chr7:4583489-4590929:-|1.365261944516419|0.4463608682754711|1.61|525.0|111|2|sense HERVK-int_dup102|chr7:4583489-4590929:-|1.365261944516419|0.4463608682754711|1.61|525.0|111|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.1918640136719 3 378.190665 1131.55016 NaN NaN NaN NaN NaN NaN NaN 80.91 1 81.57 81.07 82.07 0.65998 0 0 0 0.99035 1 37280 37280 1.6526 0.58116 1 18767 9406 12048 12076 21427 21427 -0.010348199743020814 LVALARPWT 9 Unmodified _LVALARPWT_ 0 0 0 REV__ENST00000498308.1_1_7:5111775-5112846:+|nuORF REV__ENST00000498308.1_1_7:5111775-5112846:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.87506103515625 3 342.874677 1025.6022 2.2587 0.00077445 1.1648 0.00039937 3.4235 0.0011738 342.8749620037021 44.655 0.45781 45.476 45.324 45.782 0.82075 66 22 4 0 0 0 1.1154 1 20307 20307 1.0715 0 1 5500300 + 18768 16869 12049 12077 21428 21428 0.09042343439477918 LVALIHMVKK 10 Unmodified _LVALIHMVKK_ 0 0 0 ENST00000494880.5_1_1:185269193-185269247:-|nuORF ENST00000494880.5_1_1:185269193-185269247:-|nuORF ENST00000494880.5_1_1:185269193-185269247:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.3715209960938 2 576.370287 1150.72602 3.4643 0.0019967 -1.2133 -0.0006993 2.251 0.0012974 576.3694973799713 32.969 0.40714 33.222 33.018 33.425 0.25389 27 17 2 0 0 0 0.94246 1 14976 14976 0.40072 0 1 1229800 18769 8426 12050 12078 21429 21429 0.1566867821543383 LVAWIALWVV 10 Unmodified _LVAWIALWVV_ 0 0 0 REV__ENSG00000111432|ENST00000229030|FZD10 REV__ENSG00000111432|ENST00000229030|FZD10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.1915893554688 2 585.357702 1168.70085 NaN NaN NaN NaN NaN NaN NaN 9.3928 1 10.022 9.5222 10.522 0.62936 0 0 0 1.002 1 4230 4230 0 0 1 + 18770 11233 12051 12079 21430 21430 0.12324946684475435 LVCIGRRP 8 Unmodified _LVCIGRRP_ 0 0 0 nc|ENSG00000091140|P09622-2|DLD;nc|ENSG00000091140|P09622-3|DLD;ENSG00000091140|ENST00000205402|DLD nc|ENSG00000091140|P09622-2|DLD nc|ENSG00000091140|P09622-2|DLD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.18475341796875 3 305.184857 912.532741 NaN NaN NaN NaN NaN NaN NaN 53.672 1 53.937 53.437 54.437 0.26462 0 0 0 0.99035 1 24547 24547 1.6526 0 1 18771 1075 12052 12080 21431 21431 0.07297561219047566 LVCLAMPAL 9 Unmodified _LVCLAMPAL_ 0 0 0 REV__ENST00000229794.8_3_6:35996028-36020516:+|nuORF REV__ENST00000229794.8_3_6:35996028-36020516:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.7638854980469 2 465.761192 929.507831 2.8004 0.0013043 0.96156 0.00044786 3.7619 0.0017522 465.7615914461065 29.102 0.26168 29.72 29.55 29.812 0.61789 30 19 2 0 0 0 0.08506 1 13330 13330 36.466 36.466 1 1240500 + 18772 14853 12053 12081 21432 21432 0.040257453014532985 LVCLAMPAL 9 Unmodified _LVCLAMPAL_ 0 0 0 REV__ENST00000229794.8_3_6:35996028-36020516:+|nuORF REV__ENST00000229794.8_3_6:35996028-36020516:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 465.761192 929.507831 3.031 0.0014117 0.31678 0.00014755 3.3478 0.0015593 465.761156865792 29.735 0.16597 29.735 29.642 29.808 0 0.092648 -0.00044747 NaN 36.466 15 12 2 NaN NaN NaN NaN 0 NaN NaN 0 294670 + 18773 14853 12053 12081 0.040257453014532985 LVCLAMPAL 9 Unmodified _LVCLAMPAL_ 0 0 0 REV__ENST00000229794.8_3_6:35996028-36020516:+|nuORF REV__ENST00000229794.8_3_6:35996028-36020516:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 465.761192 929.507831 2.8502 0.0013275 0.94284 0.00043914 3.793 0.0017666 465.7616081092842 28.712 0.23887 29.501 29.389 29.627 0.78921 -0.14091 0.00013572 NaN 36.466 25 19 2 NaN NaN NaN NaN 0 NaN NaN 0 227300 + 18774 14853 12053 12081 0.040257453014532985 LVCLAMPAL 9 Unmodified _LVCLAMPAL_ 0 0 0 REV__ENST00000229794.8_3_6:35996028-36020516:+|nuORF REV__ENST00000229794.8_3_6:35996028-36020516:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 465.761192 929.507831 2.8467 0.0013259 0.79915 0.00037221 3.6458 0.0016981 465.76165561570343 29.353 0.30759 29.613 29.502 29.809 0.2602 -0.029159 1.8688E-06 NaN 36.466 35 18 2 NaN NaN NaN NaN 0 NaN NaN 0 537470 + 18775 14853 12053 12081 0.040257453014532985 LVCLAMPAL 9 Unmodified _LVCLAMPAL_ 0 0 0 REV__ENST00000229794.8_3_6:35996028-36020516:+|nuORF REV__ENST00000229794.8_3_6:35996028-36020516:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 465.761192 929.507831 2.8004 0.0013043 0.96156 0.00044786 3.7619 0.0017522 465.7615914461065 29.102 0.26168 29.72 29.55 29.812 0.61789 0.077419 0.00015316 NaN 36.466 30 19 2 NaN NaN NaN NaN 0 NaN NaN 0 1240500 + 18776 14853 12053 12081 0.040257453014532985 LVCLVLEAWQ 10 Unmodified _LVCLVLEAWQ_ 0 0 0 ENSG00000044090|ENST00000265348|CUL7;nc|ENSG00000044090|Q14999-2|CUL7;ENST00000515773.5_1_6:43164260-43192180:+|nuORF;nc|ENSG00000112659|Q8IWT3-3|CUL9;ENSG00000112659|ENST00000252050|CUL9 ENSG00000044090|ENST00000265348|CUL7;ENST00000515773.5_1_6:43164260-43192180:+|nuORF ENST00000515773.5_1_6:43164260-43192180:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.2841186523438 2 587.32046 1172.62637 3.669 0.0021549 2.4138 0.0014177 6.0828 0.0035725 587.3225434080806 36.146 0.24385 36.772 36.635 36.879 0.62631 13 7 3 0 0 0 0.12589 1 16528 16528 11.495 0 1 208540 18777 547;1816 12054 12082 21433 21433 0.046958158108054704 LVCVLPVRN 9 Unmodified _LVCVLPVRN_ 0 0 0 ENST00000547063.5_1_12:112568363-112572820:+|nuORF ENST00000547063.5_1_12:112568363-112572820:+|nuORF ENST00000547063.5_1_12:112568363-112572820:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.5386657714844 3 338.203917 1011.58992 2.2895 0.00077432 -0.75034 -0.00025377 1.5392 0.00052055 338.2036716275116 47.167 0.38419 47.819 47.677 48.061 0.65219 38 19 3 0 0 0 1.178 1 21592 21592 1.0715 0 1 625070 18778 8849 12055 12083 21434 21434 0.08458983704758793 LVDEMEEK 8 Unmodified _LVDEMEEK_ 0 0 0 ENST00000478932.1_1_21:17250099-17250791:+|nuORF;nc|ENSG00000155313|Q9UHP3|USP25;nc|ENSG00000155313|Q9UHP3-1|USP25;ENSG00000155313|ENST00000400183|USP25 ENST00000478932.1_1_21:17250099-17250791:+|nuORF ENST00000478932.1_1_21:17250099-17250791:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.73223876953125 2 496.733883 991.453213 NaN NaN NaN NaN NaN NaN NaN 57.811 1 58.579 58.079 59.079 0.76861 0 0 0 0.93233 1 26495 26495 10.183 0 1 18779 3859 12056 12084 21435 21435 -0.04285595036253653 LVDLLPDLF 9 Unmodified _LVDLLPDLF_ 0 0 0 REV__ENSG00000059588|ENST00000040877|TARBP1 REV__ENSG00000059588|ENST00000040877|TARBP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.77294921875 2 522.802426 1043.5903 3.3802 0.0017672 0.78341 0.00040957 4.1636 0.0021767 522.8029501999032 56.036 0.22553 56.704 56.564 56.79 0.66809 15 11 2 0 0 0 0.096915 1 25632 25632 8.5933 0.68312 1 517770 + 18780 10387 12057 12085 21436 21436 0.07024681905591024 LVDPASHTL 9 Unmodified _LVDPASHTL_ 0 0 0 nc|ENSG00000135622|O95754-2|SEMA4F;ENSG00000135622|ENST00000357877|SEMA4F nc|ENSG00000135622|O95754-2|SEMA4F nc|ENSG00000135622|O95754-2|SEMA4F MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 476.7599182128906 2 476.758549 951.502546 3.0036 0.001432 -0.066108 -3.1518E-05 2.9375 0.0014005 476.7585118365693 36.945 0.33851 36.945 36.767 37.106 0 28 14 3 0 0 0 0.017868 1 16784 16784 71.134 38.828 1 796760 18781 2881 12058 12086 21437 21437 0.024854810348642786 LVDPASHTL 9 Unmodified _LVDPASHTL_ 0 0 0 nc|ENSG00000135622|O95754-2|SEMA4F;ENSG00000135622|ENST00000357877|SEMA4F nc|ENSG00000135622|O95754-2|SEMA4F nc|ENSG00000135622|O95754-2|SEMA4F MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 476.759765625 2 476.758549 951.502546 3.0748 0.001466 -0.080812 -3.8528E-05 2.994 0.0014274 476.75846123239444 35.952 0.24986 36.744 36.622 36.872 0.79132 20 9 3 0 0 0 0.012748 2 16286 16286;16339 78.149 42.105 1 683910 18782 2881 12058 12086 21438;21439 21438 0.024854810348642786 LVDPASHTL 9 Unmodified _LVDPASHTL_ 0 0 0 nc|ENSG00000135622|O95754-2|SEMA4F;ENSG00000135622|ENST00000357877|SEMA4F nc|ENSG00000135622|O95754-2|SEMA4F nc|ENSG00000135622|O95754-2|SEMA4F MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 476.76031494140625 2 476.758549 951.502546 3.1966 0.001524 -0.041795 -1.9926E-05 3.1548 0.0015041 476.7584526886373 36.168 0.33788 36.795 36.541 36.879 0.62631 20 10 3 0 0 0 0.010221 1 16545 16545 81.613 41.656 1 524160 18783 2881 12058 12086 21440 21440 0.024854810348642786 LVDPASHTL 9 Unmodified _LVDPASHTL_ 0 0 0 nc|ENSG00000135622|O95754-2|SEMA4F;ENSG00000135622|ENST00000357877|SEMA4F nc|ENSG00000135622|O95754-2|SEMA4F nc|ENSG00000135622|O95754-2|SEMA4F MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 476.758549 951.502546 3.0914 0.0014739 -0.22663 -0.00010805 2.8648 0.0013658 476.75833878367354 36.758 0.36031 37.015 36.826 37.186 0.25768 0.14046 -0.00011939 NaN 81.613 21 12 2 NaN NaN NaN NaN 0 NaN NaN 0 475930 18784 2881 12058 12086 0.024854810348642786 LVDRAVNR 8 Unmodified _LVDRAVNR_ 0 0 0 nc|ENSG00000132680|Q7Z7F0-3|KHDC4;nc|ENSG00000132680|Q7Z7F0-2|KHDC4;ENSG00000132680|ENST00000368321|KHDC4;nc|ENSG00000132680|Q7Z7F0-4|KHDC4;ENST00000466713.1_1_1:155896424-155904164:-|nuORF nc|ENSG00000132680|Q7Z7F0-3|KHDC4 nc|ENSG00000132680|Q7Z7F0-3|KHDC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.7779846191406 2 471.777608 941.540663 2.6886 0.0012684 0.2485 0.00011724 2.9371 0.0013857 471.7777292044752 14.975 0.41842 15.282 15.115 15.534 0.3069 104 42 3 0 0 0 0.74709 1 6701 6701 2.0598 2.0598 1 343060 18785 2719 12059 12087 21441 21441 0.06755411740186901 LVDRYLQTYK 10 Unmodified _LVDRYLQTYK_ 0 0 0 nc|ENSG00000185739|Q86TD4-3|SRL;ENSG00000185739|ENST00000399609|SRL;nc|ENSG00000185739|Q86TD4-1|SRL nc|ENSG00000185739|Q86TD4-3|SRL nc|ENSG00000185739|Q86TD4-3|SRL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 649.9972534179688 2 649.858795 1297.70304 NaN NaN NaN NaN NaN NaN NaN 57.081 1 57.081 56.581 57.581 0 0 0 0 0.91986 1 26298 26298 18.146 4.2403 1 18786 5528 12060 12088 21442 21442 0.0660933063165885 LVDWRKPLLWQ 11 Unmodified _LVDWRKPLLWQ_ 0 0 0 ENSG00000103089|ENST00000219368|FA2H ENSG00000103089|ENST00000219368|FA2H ENSG00000103089|ENST00000219368|FA2H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 364.2142028808594 4 364.213315 1452.82415 2.7896 0.001016 -0.18642 -6.7896E-05 2.6032 0.0009481 364.4640411746979 56.947 0.33741 56.947 56.767 57.104 0 65 35 3 0 0 0 0.91391 1 26242 26242 0.08335 0 1 1540900 18787 1375 12061 12089 21443 21443 0.11585578065000846 LVEDPEMP 8 Unmodified _LVEDPEMP_ 0 0 0 REV__ENSG00000177084|ENST00000320574|POLE REV__ENSG00000177084|ENST00000320574|POLE MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.2036437988281 2 465.217869 928.421184 NaN NaN NaN NaN NaN NaN NaN 69.409 1 70.07 69.57 70.57 0.66071 0 0 0 0.99035 1 31819 31819 5.2307 0 1 + 18788 13724 12062 12090 21444 21444 -0.04588962719401479 LVEKIKKLPLL 11 Unmodified _LVEKIKKLPLL_ 0 0 0 ENST00000558173.5_1_15:45047145-45048685:+|nuORF;ENSG00000185880|ENST00000329464|TRIM69 ENST00000558173.5_1_15:45047145-45048685:+|nuORF ENST00000558173.5_1_15:45047145-45048685:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.4510498046875 2 647.447049 1292.87954 NaN NaN NaN NaN NaN NaN NaN 78.655 1 78.655 78.155 79.155 0 0 0 0 1.008 1 38716 38716 0.35063 0 1 18789 5538 12063 12091 21445 21445 0.24481991532752545 LVERLLHF 8 Unmodified _LVERLLHF_ 0 0 0 REV__ENSG00000147571|ENST00000276571|CRH REV__ENSG00000147571|ENST00000276571|CRH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.8110961914062 2 513.808377 1025.6022 3.057 0.0015707 1.7225 0.00088501 4.7794 0.0024557 513.809243243936 46.261 0.25767 46.261 46.085 46.342 0 23 12 2 0 0 0 0.66653 1 21187 21187 8.5933 1.304 1 2123000 + 18790 12512 12064 12092 21446 21446 0.0904234343945518 LVFCKDIRYKI 11 Unmodified _LVFCKDIRYKI_ 0 0 0 REV__ENST00000535257.1_1_12:122391860-122397069:+|nuORF REV__ENST00000535257.1_1_12:122391860-122397069:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 699.1232299804688 2 699.402315 1396.79008 NaN NaN NaN NaN NaN NaN NaN 84.077 1 84.077 83.577 84.577 0 0 0 0 1.0038 1 42482 42482 5.7319 2.7366 1 + 18791 17172 12065 12093 21447 21447 0.10755413581705398 LVFLPWYKNYI 11 Unmodified _LVFLPWYKNYI_ 0 0 0 REV__ENSG00000104660|ENST00000321250|LEPROTL1 REV__ENSG00000104660|ENST00000321250|LEPROTL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 728.4064331054688 2 728.405381 1454.79621 NaN NaN NaN NaN NaN NaN NaN 95.397 1 96.005 95.505 96.505 0.60769 0 0 0 1.0079 1 43871 43871 1.3295 0 1 + 18792 10997 12066 12094 21448 21448 0.08700255084909259 LVFPMLGKQW 10 Unmodified _LVFPMLGKQW_ 0 0 0 ENST00000562674.1_1_16:51177212-51185152:-|nuORF ENST00000562674.1_1_16:51177212-51185152:-|nuORF ENST00000562674.1_1_16:51177212-51185152:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 610.353271484375 2 609.83882 1217.66309 2.1504 0.0013114 2.4863 0.0015163 4.6367 0.0028276 610.3440027906563 97.98 0.031815 98.051 98.028 98.06 0.070648 4 2 2 0 0 0 0.88655 1 52543 52543 4.3292 0 1 8457700 18793 8997 12067 12095 21449 21449 0.06296112427389744 LVFRILKKCYR 11 Unmodified _LVFRILKKCYR_ 0 0 0 ENSG00000163825|ENST00000296142|RTP3 ENSG00000163825|ENST00000296142|RTP3 ENSG00000163825|ENST00000296142|RTP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.4742431640625 4 360.473338 1437.86425 2.0105 0.00072472 -0.052374 -1.8879E-05 1.9581 0.00070584 360.4732909578026 12.991 0.23842 13.298 13.187 13.426 0.30727 30 10 4 0 0 0 0.81464 1 5868 5868 2.8433 0.4085 1 552950 18794 4255 12068 12096 21450 21450 0.16282801463898977 LVFVIVLAI 9 Unmodified _LVFVIVLAI_ 0 0 0 REV__nc|ENSG00000111666|Q8WUD6-2|CHPT1 REV__nc|ENSG00000111666|Q8WUD6-2|CHPT1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.2517395019531 2 493.836071 985.65759 3.6852 0.0018199 -0.11623 -5.7398E-05 3.5689 0.0017625 493.8370039864619 31.051 0.11225 31.307 31.225 31.337 0.25614 11 8 2 0 0 0 0.10319 1 14134 14134 9.3474 0 1 172690 + 18795 10005 12069 12097 21451 21451 0.16418756907205534 LVGFKFNV 8 Unmodified _LVGFKFNV_ 0 0 0 REV__nc|ENSG00000136895|Q5VVW2-2|GARNL3 REV__nc|ENSG00000136895|Q5VVW2-2|GARNL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 462.2886657714844 2 462.271096 922.527639 NaN NaN NaN NaN NaN NaN NaN 47.963 1 48.617 48.117 49.117 0.65356 0 0 0 0.93233 1 21954 21954 10.183 3.8293 1 + 18796 12087 12070 12098 21452 21452 0.0632758062808989 LVGLHYIWE 9 Unmodified _LVGLHYIWE_ 0 0 0 ENST00000373606.7_1_20:35945124-35945295:+|nuORF ENST00000373606.7_1_20:35945124-35945295:+|nuORF ENST00000373606.7_1_20:35945124-35945295:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.4468994140625 2 565.305667 1128.59678 NaN NaN NaN NaN NaN NaN NaN 92.09 1 92.09 91.59 92.59 0 0 0 0 0.89315 1 48833 48833 5.2307 0.47466 1 18797 7365 12071 12099 21453 21453 0.03762619856979654 LVHLKLHL 8 Unmodified _LVHLKLHL_ 0 0 0 nc|ENSG00000120519|Q0GE19-3|SLC10A7;ENSG00000120519|ENST00000335472|SLC10A7;nc|ENSG00000120519|Q0GE19-1|SLC10A7;nc|ENSG00000120519|Q0GE19-5|SLC10A7;nc|ENSG00000120519|Q0GE19-4|SLC10A7 nc|ENSG00000120519|Q0GE19-3|SLC10A7 nc|ENSG00000120519|Q0GE19-3|SLC10A7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.3242492675781 2 486.821287 971.628021 3.1078 0.0015129 0.69503 0.00033836 3.8028 0.0018513 486.8216072028861 27.505 0.26708 28.127 27.973 28.24 0.62178 28 18 2 0 0 0 0.63902 1 12652 12652 9.3474 0 1 241550 18798 2194 12072 12100 21454 21454 0.14107237681753304 LVHLLEKYLLF 11 Unmodified _LVHLLEKYLLF_ 0 0 0 ENST00000435063.2_1_8:80677999-80678687:-|nuORF ENST00000435063.2_1_8:80677999-80678687:-|nuORF ENST00000435063.2_1_8:80677999-80678687:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.28485107421875 3 463.283113 1386.82751 3.5566 0.0016477 1.1415 0.00052885 4.6981 0.0021766 463.28349439645405 105.78 0.18566 106.1 105.99 106.17 0.31782 16 7 3 0 0 0 0.13295 1 48826 48826 0.50596 0.09769 1 889300 18799 7888 12073 12101 21455 21455 0.1495682811896586 LVHLLEKYLLF 11 Unmodified _LVHLLEKYLLF_ 0 0 0 ENST00000435063.2_1_8:80677999-80678687:-|nuORF ENST00000435063.2_1_8:80677999-80678687:-|nuORF ENST00000435063.2_1_8:80677999-80678687:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 463.283113 1386.82751 3.0456 0.001411 1.2482 0.00057829 4.2938 0.0019893 463.61814141887305 105.77 0.17699 106.37 106.26 106.44 0.59969 0.13405 8.9034E-05 NaN 0.50596 12 5 3 NaN NaN NaN NaN 0 NaN NaN 0 865960 18800 7888 12073 12101 0.1495682811896586 LVHLLPVR 8 Unmodified _LVHLLPVR_ 0 0 0 ENST00000296530.12_1_4:159092453-159092546:-|nuORF ENST00000296530.12_1_4:159092453-159092546:-|nuORF ENST00000296530.12_1_4:159092453-159092546:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 316.2115783691406 3 316.2114 945.612371 NaN NaN NaN NaN NaN NaN NaN 43.058 1 43.706 43.206 44.206 0.64872 0 0 0 0.99035 1 19730 19730 1.8442 1.3859 1 18801 6770 12074 12102 21456 21456 0.1373895116469157 LVHSRWTKA 9 Unmodified _LVHSRWTKA_ 0 0 0 nc|ENSG00000123360|Q01064-2|PDE1B;ENSG00000123360|ENST00000243052|PDE1B nc|ENSG00000123360|Q01064-2|PDE1B nc|ENSG00000123360|Q01064-2|PDE1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.3162841796875 2 549.314358 1096.61416 NaN NaN NaN NaN NaN NaN NaN 97.367 1 97.438 96.938 97.938 0.070648 0 0 0 0.87786 1 52030 52030 6.7232 1.9672 1 18802 2308 12075 12103 21457 21457 0.06971960182636394 LVIALIKLLF 10 Unmodified _LVIALIKLLF_ 0 0 0 REV__ENST00000314393.5_1_8:123793760-123875761:+|nuORF REV__ENST00000314393.5_1_8:123793760-123875761:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.8973388671875 2 571.899203 1141.78385 NaN NaN NaN NaN NaN NaN NaN 71.197 1 71.455 70.955 71.955 0.25786 0 0 0 1.0015 1 32612 32612 0.45834 0 1 + 18803 15282 12076 12104 21458 21458 0.2186326341250151 LVIGLRRSP 9 Unmodified _LVIGLRRSP_ 0 0 0 REV__ENST00000269321.11_1_17:79825624-79826158:-|nuORF REV__ENST00000269321.11_1_17:79825624-79826158:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.554931640625 3 337.553826 1009.63965 2.5941 0.00087566 -0.50156 -0.0001693 2.0926 0.00070635 337.55382802594926 32.985 0.40365 33.239 32.998 33.402 0.25389 34 17 3 0 0 0 0.43294 1 15038 15038 13.615 1.3742 1 395860 + 18804 15053 12077 12105 21459 21459 0.13521434705080537 LVIGLRRSP 9 Unmodified _LVIGLRRSP_ 0 0 0 REV__ENST00000269321.11_1_17:79825624-79826158:-|nuORF REV__ENST00000269321.11_1_17:79825624-79826158:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 337.55474853515625 3 337.553826 1009.63965 2.2593 0.00076265 0.26697 9.0117E-05 2.5263 0.00085277 337.55396507027325 32.468 0.50611 33.087 32.754 33.26 0.61831 41 26 2 0 0 0 0.43294 1 14872 14872 13.615 6.5131 1 368470 + 18805 15053 12077 12105 21460 21460 0.13521434705080537 LVIGLRRSP 9 Unmodified _LVIGLRRSP_ 0 0 0 REV__ENST00000269321.11_1_17:79825624-79826158:-|nuORF REV__ENST00000269321.11_1_17:79825624-79826158:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 337.553826 1009.63965 2.5941 0.00087566 -0.50156 -0.0001693 2.0926 0.00070635 337.55382802594926 32.985 0.40365 33.239 32.998 33.402 0.25389 0.076041 -0.00037178 NaN 13.615 34 17 3 NaN NaN NaN NaN 0 NaN NaN 0 395860 + 18806 15053 12077 12105 0.13521434705080537 LVIGLRRSP 9 Unmodified _LVIGLRRSP_ 0 0 0 REV__ENST00000269321.11_1_17:79825624-79826158:-|nuORF REV__ENST00000269321.11_1_17:79825624-79826158:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 337.553826 1009.63965 2.2593 0.00076265 0.26697 9.0117E-05 2.5263 0.00085277 337.55396507027325 32.468 0.50611 33.087 32.754 33.26 0.61831 -0.076041 0.00040648 NaN 13.615 41 26 2 NaN NaN NaN NaN 0 NaN NaN 0 368470 + 18807 15053 12077 12105 0.13521434705080537 LVIHLLGVGL 10 Unmodified _LVIHLLGVGL_ 0 0 0 REV__ENSG00000128699|ENST00000392349|ORMDL1 REV__ENSG00000128699|ENST00000392349|ORMDL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.230224609375 3 345.23046 1032.66955 2.4741 0.00085414 -0.52995 -0.00018295 1.9442 0.00067119 345.2300357546651 16.529 0.35133 16.529 16.215 16.566 0 61 41 2 0 0 0 0.93372 2 7281 7261;7281 2.086 0 1 67073 + 18808 11769 12078 12106 21461;21462 21462 0.1545237365041885 LVIHLLGVGL 10 Unmodified _LVIHLLGVGL_ 0 0 0 REV__ENSG00000128699|ENST00000392349|ORMDL1 REV__ENSG00000128699|ENST00000392349|ORMDL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 344.8743896484375 3 345.23046 1032.66955 2.3302 0.00080446 -0.97347 -0.00033607 1.3567 0.00046838 345.2298000339564 14.986 0.25188 15.212 15.078 15.33 0.22622 53 29 2 0 0 0 0.12676 1 6650 6650 2.086 0 1 174100 + 18809 11769 12078 12106 21463 21463 0.1545237365041885 LVIHLLGVGL 10 Unmodified _LVIHLLGVGL_ 0 0 0 REV__ENSG00000128699|ENST00000392349|ORMDL1 REV__ENSG00000128699|ENST00000392349|ORMDL1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 345.23046 1032.66955 2.4741 0.00085414 -0.52995 -0.00018295 1.9442 0.00067119 345.2300357546651 16.529 0.35133 16.529 16.215 16.566 0 0 0 NaN 2.086 61 41 2 NaN NaN NaN NaN 0 NaN NaN 0 67073 + 18810 11769 12078 12106 0.1545237365041885 LVIRVWFFL 9 Unmodified _LVIRVWFFL_ 0 0 0 REV__chr10:89462624-89506310|321|10.73|0.6|4.16|-|2|TE_info:L1PA7,L1PA7_dup9423,L1,LINE,donor,+,89506310,89511743|SLC16A12,None|14 REV__chr10:89462624-89506310|321|10.73|0.6|4.16|-|2|TE_info:L1PA7,L1PA7_dup9423,L1,LINE,donor,+,89506310,89511743|SLC16A12,None|14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.5812683105469 3 398.246222 1191.71684 2.4159 0.00096212 0.15217 6.0602E-05 2.5681 0.0010227 398.2461539240058 53.496 0.19957 54.3 54.187 54.387 0.80351 43 18 3 0 0 0 0.75535 1 24391 24391 8.1555 0 1 1379900 + 18811 10016 12079 12107 21464 21464 0.12864652921416564 LVISRHAHNL 10 Unmodified _LVISRHAHNL_ 0 0 0 REV__ENSG00000144962|ENST00000351008|SPATA16 REV__ENSG00000144962|ENST00000351008|SPATA16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 580.3387451171875 2 580.338364 1158.66217 NaN NaN NaN NaN NaN NaN NaN 62.158 1 62.411 61.911 62.911 0.25245 0 0 0 0.97102 1 28457 28457 10.074 0.6908 1 + 18812 12422 12080 12108 21465 21465 0.08919034102700607 LVKAKKVLISS 11 Unmodified _LVKAKKVLISS_ 0 0 0 REV__nc|ENSG00000168769|Q6N021-3|TET2 REV__nc|ENSG00000168769|Q6N021-3|TET2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 593.4022216796875 2 593.400099 1184.78564 4.0746 0.0024179 -0.346 -0.00020531 3.7286 0.0022126 593.3999349446027 103.25 0.17957 103.85 103.76 103.94 0.59821 16 11 2 0 0 0 0.91391 1 47783 47783 0.30703 0.30703 1 165420 + 18813 18034 12081 12109 21466 21466 0.20064272430477104 LVKALAPI 8 Unmodified _LVKALAPI_ 0 0 0 REV__nc|ENSG00000064655|O00167-2|EYA2 REV__nc|ENSG00000064655|O00167-2|EYA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.78582763671875 2 412.783839 823.553125 NaN NaN NaN NaN NaN NaN NaN 102.79 1 103.39 102.89 103.89 0.59759 0 0 0 0.99035 1 47572 47572 0.79363 0 1 + 18814 10415 12082 12110 21467 21467 0.1342905515049324 LVKALHPRLKK 11 Unmodified _LVKALHPRLKK_ 0 0 0 REV__nc|ENSG00000130305|Q96P11|NSUN5 REV__nc|ENSG00000130305|Q96P11|NSUN5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 651.9398803710938 2 651.940257 1301.86596 NaN NaN NaN NaN NaN NaN NaN 69.247 1 69.907 69.407 70.407 0.66071 0 0 0 1.0082 1 31742 31742 0 0 1 + 18815 11813 12083 12111 21468 21468 0.22710178544116388 LVKFPQNPP 9 Unmodified _LVKFPQNPP_ 0 0 0 REV__ENST00000552847.5_1_12:88429328-88439561:+|nuORF REV__ENST00000552847.5_1_12:88429328-88439561:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 347.20501708984375 3 347.202682 1038.58622 NaN NaN NaN NaN NaN NaN NaN 58.228 1 58.996 58.496 59.496 0.76861 0 0 0 0.90611 1 26700 26700 1.0715 0 1 + 18816 17296 12084 12112 21469 21469 0.06846637202556849 LVKHQVVH 8 Unmodified _LVKHQVVH_ 0 0 0 ENSG00000240563|ENST00000498273|L1TD1 ENSG00000240563|ENST00000498273|L1TD1 ENSG00000240563|ENST00000498273|L1TD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.2934875488281 2 480.292894 958.571235 3.0956 0.0014868 -1.3161 -0.00063213 1.7794 0.00085465 480.29239401654434 14.427 0.13529 14.427 14.354 14.49 0 12 8 2 0 0 0 0.64827 1 6376 6376 8.5933 1.8701 1 239890 18817 6218 12085 12113 21470 21470 0.0902919012522716 LVKKEKIL 8 Unmodified _LVKKEKIL_ 0 0 0 ENST00000510291.5_1_6:82923995-82924100:-|nuORF ENST00000510291.5_1_6:82923995-82924100:-|nuORF ENST00000510291.5_1_6:82923995-82924100:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.83843994140625 2 485.836603 969.658653 3.2072 0.0015582 0.038963 1.893E-05 3.2461 0.0015771 485.83653403056235 25.582 0.2514 25.85 25.729 25.98 0.26777 62 25 3 0 0 0 0.57761 1 11671 11671 15.768 1.1865 1 1781100 18818 8553 12086 12114 21471 21471 0.17260971276130022 LVKKKKKKKKS 11 Unmodified _LVKKKKKKKKS_ 0 0 0 ENST00000263464.7_1_11:102193503-102193566:+|nuORF ENST00000263464.7_1_11:102193503-102193566:+|nuORF ENST00000263464.7_1_11:102193503-102193566:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 671.5078735351562 2 671.984664 1341.95478 NaN NaN NaN NaN NaN NaN NaN 106.34 1 106.34 105.84 106.84 0 0 0 0 1.008 1 58397 58397 0.35063 0.35063 1 18819 6593 12087 12115 21472 21472 0.2974759378382714 LVKKKKKQLI 10 Unmodified _LVKKKKKQLI_ 0 0 0 REV__ENST00000265339.6_1_5:133726122-133726257:+|nuORF REV__ENST00000265339.6_1_5:133726122-133726257:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.4415283203125 2 613.439558 1224.86456 NaN NaN NaN NaN NaN NaN NaN 0.80087 1 1.1944 0.69443 1.6944 0.39356 0 0 0 1.002 1 368 368 0 0 1 + 18820 15033 12088 12116 21473 21473 0.26112544455418174 LVKKKKKQLI 10 Unmodified _LVKKKKKQLI_ 0 0 0 REV__ENST00000265339.6_1_5:133726122-133726257:+|nuORF REV__ENST00000265339.6_1_5:133726122-133726257:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.4412231445312 2 613.439558 1224.86456 NaN NaN NaN NaN NaN NaN NaN 0.011681 1 0.31579 -0.18421 0.81579 0.30411 0 0 0 1.002 1 6 6 0 0 1 + 18821 15033 12088 12116 21474 21474 0.26112544455418174 LVKKKKKQLI 10 Unmodified _LVKKKKKQLI_ 0 0 0 REV__ENST00000265339.6_1_5:133726122-133726257:+|nuORF REV__ENST00000265339.6_1_5:133726122-133726257:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.4409790039062 2 613.439558 1224.86456 NaN NaN NaN NaN NaN NaN NaN 1.4468 1 1.7509 1.2509 2.2509 0.30411 0 0 0 1.002 1 661 661 0 0 1 + 18822 15033 12088 12116 21475 21475 0.26112544455418174 LVKKKKKQLI 10 Unmodified _LVKKKKKQLI_ 0 0 0 REV__ENST00000265339.6_1_5:133726122-133726257:+|nuORF REV__ENST00000265339.6_1_5:133726122-133726257:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.4412231445312 2 613.439558 1224.86456 NaN NaN NaN NaN NaN NaN NaN 1.7356 1 2.0397 1.5397 2.5397 0.30411 0 0 0 1.002 1 792 792 0 0 1 + 18823 15033 12088 12116 21476 21476 0.26112544455418174 LVKKKKKQLI 10 Unmodified _LVKKKKKQLI_ 0 0 0 REV__ENST00000265339.6_1_5:133726122-133726257:+|nuORF REV__ENST00000265339.6_1_5:133726122-133726257:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.4406127929688 2 613.439558 1224.86456 NaN NaN NaN NaN NaN NaN NaN 3.1909 1 3.4951 2.9951 3.9951 0.3042 0 0 0 1.002 1 1448 1448 0 0 1 + 18824 15033 12088 12116 21477 21477 0.26112544455418174 LVKKKKKQLI 10 Unmodified _LVKKKKKQLI_ 0 0 0 REV__ENST00000265339.6_1_5:133726122-133726257:+|nuORF REV__ENST00000265339.6_1_5:133726122-133726257:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 613.4400024414062 2 613.439558 1224.86456 NaN NaN NaN NaN NaN NaN NaN 2.7992 1 3.4213 2.9213 3.9213 0.6221 0 0 0 1.002 1 1273 1273 0 0 1 + 18825 15033 12088 12116 21478 21478 0.26112544455418174 LVKKKKKQLI 10 Unmodified _LVKKKKKQLI_ 0 0 0 REV__ENST00000265339.6_1_5:133726122-133726257:+|nuORF REV__ENST00000265339.6_1_5:133726122-133726257:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 613.4412231445312 2 613.439558 1224.86456 NaN NaN NaN NaN NaN NaN NaN 8.6362 1 9.2629 8.7629 9.7629 0.62663 0 0 0 1.002 1 3892 3892 0 0 1 + 18826 15033 12088 12116 21479 21479 0.26112544455418174 LVKKKWNL 8 Unmodified _LVKKKWNL_ 0 0 0 ENST00000581230.5_1_17:62498125-62502378:-|nuORF;ENSG00000108654|ENST00000225792|DDX5;ENST00000585223.1_1_17:62500698-62502378:-|nuORF;nc|ENSG00000108654|P17844-2|DDX5 ENST00000581230.5_1_17:62498125-62502378:-|nuORF ENST00000581230.5_1_17:62498125-62502378:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 343.5594482421875 3 343.558688 1027.65424 2.5093 0.00086209 0.091158 3.1318E-05 2.6004 0.0008934 343.5586813511206 19.792 0.20493 19.792 19.693 19.898 0 21 14 2 0 0 0 0.72385 1 8866 8866 3.9444 3.9444 1 822910 18827 1642 12089 12117 21480 21480 0.1415150685320441 LVKKKWNL 8 Unmodified _LVKKKWNL_ 0 0 0 ENST00000581230.5_1_17:62498125-62502378:-|nuORF;ENSG00000108654|ENST00000225792|DDX5;ENST00000585223.1_1_17:62500698-62502378:-|nuORF;nc|ENSG00000108654|P17844-2|DDX5 ENST00000581230.5_1_17:62498125-62502378:-|nuORF ENST00000581230.5_1_17:62498125-62502378:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.5593566894531 3 343.558688 1027.65424 NaN NaN NaN NaN NaN NaN NaN 19.069 1 19.367 18.867 19.867 0.29753 0 0 0 0.20533 1 8665 8665 42.095 5.9675 1 18828 1642 12089 12117 21481 21481 0.1415150685320441 LVKLKNWK 8 Unmodified _LVKLKNWK_ 0 0 0 REV__UTRN|p.K1847Ffs*66|1|0.06|ENSG00000152818|chr6:144516945-144516946|-/TTTAA|frameshift_variant REV__UTRN|p.K1847Ffs*66|1|0.06|ENSG00000152818|chr6:144516945-144516946|-/TTTAA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 343.5594787597656 3 343.558688 1027.65424 2.5093 0.00086209 0.091158 3.1318E-05 2.6004 0.0008934 343.5586813511206 19.792 0.20493 19.792 19.693 19.898 0 21 14 2 0 0 0 0.23923 1 8821 8821 39.957 5.8549 1 822910 + 18829 18246 12090 12118 21482 21482 0.1415150685320441 LVKLKNWK 8 Unmodified _LVKLKNWK_ 0 0 0 REV__UTRN|p.K1847Ffs*66|1|0.06|ENSG00000152818|chr6:144516945-144516946|-/TTTAA|frameshift_variant REV__UTRN|p.K1847Ffs*66|1|0.06|ENSG00000152818|chr6:144516945-144516946|-/TTTAA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.8938903808594 3 343.558688 1027.65424 2.3061 0.0007923 -1.4265 -0.0004901 0.87962 0.0003022 343.5580633381778 18.984 0.040989 19.282 19.264 19.305 0.29753 13 8 2 0 0 0 0.36624 1 8623 8623 30.637 0 1 2714000 + 18830 18246 12090 12118 21483 21483 0.1415150685320441 LVKLKNWK 8 Unmodified _LVKLKNWK_ 0 0 0 REV__UTRN|p.K1847Ffs*66|1|0.06|ENSG00000152818|chr6:144516945-144516946|-/TTTAA|frameshift_variant REV__UTRN|p.K1847Ffs*66|1|0.06|ENSG00000152818|chr6:144516945-144516946|-/TTTAA|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 343.558688 1027.65424 2.3061 0.0007923 -1.4265 -0.0004901 0.87962 0.0003022 343.5580633381778 18.984 0.040989 19.282 19.264 19.305 0.29753 0.040065 0.00045173 NaN 30.637 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 2714000 + 18831 18246 12090 12118 0.1415150685320441 LVKLKNWK 8 Unmodified _LVKLKNWK_ 0 0 0 REV__UTRN|p.K1847Ffs*66|1|0.06|ENSG00000152818|chr6:144516945-144516946|-/TTTAA|frameshift_variant REV__UTRN|p.K1847Ffs*66|1|0.06|ENSG00000152818|chr6:144516945-144516946|-/TTTAA|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 343.558688 1027.65424 2.4646 0.00084672 -2.4794 -0.00085183 -0.014857 -5.1044E-06 343.55751118512717 18.541 0.12412 19.202 19.165 19.289 0.66072 -0.040065 -0.00063345 NaN 30.637 25 16 2 NaN NaN NaN NaN 0 NaN NaN 0 3025700 + 18832 18246 12090 12118 0.1415150685320441 LVKLLALRLK 10 Unmodified _LVKLLALRLK_ 0 0 0 REV__FOCAD|p.P1713Tfs*24|1|0.31|ENSG00000188352|chr9:20990253-20990254|-/G|frameshift_variant REV__FOCAD|p.P1713Tfs*24|1|0.31|ENSG00000188352|chr9:20990253-20990254|-/G|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.0875244140625 2 583.921001 1165.82745 NaN NaN NaN NaN NaN NaN NaN 96.698 1 96.775 96.275 97.275 0.076538 0 0 0 1.0015 1 51465 51465 0.45834 0 1 + 18833 14146 12091 12119 21484 21484 0.25116872909620724 LVKLPVIVKL 10 Unmodified _LVKLPVIVKL_ 0 0 0 nc|ENSG00000048649|Q96T23-3|RSF1;nc|ENSG00000048649|Q96T23-2|RSF1;ENSG00000048649|ENST00000308488|RSF1 nc|ENSG00000048649|Q96T23-3|RSF1 nc|ENSG00000048649|Q96T23-3|RSF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.4028930664062 2 561.404653 1120.79475 NaN NaN NaN NaN NaN NaN NaN 101.44 1 102.04 101.54 102.54 0.59717 0 0 0 1.0015 1 46967 46967 0.45834 0 1 18834 569 12092 12120 21485 21485 0.23918665786800375 LVKNKITL 8 Unmodified _LVKNKITL_ 0 0 0 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000140575|ENST00000268182|IQGAP1;ENST00000560020.1_1_15:91017736-91017973:+|nuORF IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.814697265625 2 464.813128 927.611703 2.6837 0.0012474 0.50843 0.00023633 3.1921 0.0014837 464.81325472311966 26.905 0.25008 27.17 27.027 27.277 0.26489 27 15 2 0 0 0 0.059272 1 12214 12214 62.573 7.7991 1 400860 18835 3209 12093 12121 21486 21486 0.1450011172498762 LVKNKITL 8 Unmodified _LVKNKITL_ 0 0 0 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000140575|ENST00000268182|IQGAP1;ENST00000560020.1_1_15:91017736-91017973:+|nuORF IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.81488037109375 2 464.813128 927.611703 2.7055 0.0012575 0.46399 0.00021567 3.1695 0.0014732 464.8133042602356 26.491 0.25062 27.116 26.979 27.23 0.62505 24 13 3 0 0 0 0.025972 2 12124 12124;12179 81.89 27.117 1 476720 18836 3209 12093 12121 21487;21488 21487 0.1450011172498762 LVKRNLAMH 9 Unmodified _LVKRNLAMH_ 0 0 0 REV__ENSG00000157423|ENST00000393567|HYDIN REV__ENSG00000157423|ENST00000393567|HYDIN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.318603515625 2 541.318586 1080.62262 NaN NaN NaN NaN NaN NaN NaN 49.493 1 50.316 49.816 50.816 0.82285 0 0 0 0.90611 1 22546 22546 2.0598 0 1 + 18837 12801 12094 12122 21489 21489 0.08553190827615254 LVKRRGRW 8 Unmodified _LVKRRGRW_ 0 0 0 ENSG00000171421|ENST00000505059|MRPL36 ENSG00000171421|ENST00000505059|MRPL36 ENSG00000171421|ENST00000505059|MRPL36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.83984375 2 535.838334 1069.66212 3.2845 0.00176 -0.066812 -3.58E-05 3.2177 0.0017242 535.8382764984678 15.474 0.95626 16.127 15.735 16.691 0.65356 305 122 3 0 0 0 0.63902 1 6947 6947 9.3474 9.3474 1 330100 18838 4800 12095 12123 21490 21490 0.13007078893360813 LVKTKEEL 8 Unmodified _LVKTKEEL_ 0 0 0 ENSG00000092820|ENST00000367075|EZR;ENST00000486888.1_1_3:104221713-104221830:+|nuORF ENSG00000092820|ENST00000367075|EZR ENSG00000092820|ENST00000367075|EZR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.2940368652344 2 480.292225 958.569897 2.9924 0.0014372 0.045324 2.1769E-05 3.0377 0.001459 480.29227407709334 14.066 0.13826 14.293 14.25 14.389 0.22622 16 13 2 0 0 0 0.42759 1 6175 6175 19.257 3.4098 1 208380 18839 1101 12096 12124 21491 21491 0.08895511245793841 LVKTKEEL 8 Unmodified _LVKTKEEL_ 0 0 0 ENSG00000092820|ENST00000367075|EZR;ENST00000486888.1_1_3:104221713-104221830:+|nuORF ENSG00000092820|ENST00000367075|EZR ENSG00000092820|ENST00000367075|EZR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.2935791015625 2 480.292225 958.569897 2.8051 0.0013473 -0.72228 -0.00034691 2.0828 0.0010004 480.29206983837423 14.075 0.035082 14.382 14.365 14.4 0.3069 5 3 2 0 0 0 0.027217 1 6371 6371 92.653 3.6995 1 4266200 18840 1101 12096 12124 21492 21492 0.08895511245793841 LVKTKEEL 8 Unmodified _LVKTKEEL_ 0 0 0 ENSG00000092820|ENST00000367075|EZR;ENST00000486888.1_1_3:104221713-104221830:+|nuORF ENSG00000092820|ENST00000367075|EZR ENSG00000092820|ENST00000367075|EZR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.2937927246094 2 480.292225 958.569897 3.2354 0.0015539 0.1049 5.0381E-05 3.3403 0.0016043 480.29219213332544 13.588 0.26118 14.236 14.099 14.361 0.6482 49 17 4 0 0 0 0.027217 2 6091 6091;6138 92.653 3.8215 1 951300 18841 1101 12096 12124 21493;21494 21493 0.08895511245793841 LVKTKEEL 8 Unmodified _LVKTKEEL_ 0 0 0 ENSG00000092820|ENST00000367075|EZR;ENST00000486888.1_1_3:104221713-104221830:+|nuORF ENSG00000092820|ENST00000367075|EZR ENSG00000092820|ENST00000367075|EZR MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 480.292225 958.569897 3.0956 0.0014868 0.076148 3.6573E-05 3.1717 0.0015233 480.29239401654434 14.427 0.13529 14.427 14.354 14.49 0 0.092906 0.00010594 NaN 92.653 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 239890 18842 1101 12096 12124 0.08895511245793841 LVKWNVAL 8 Unmodified _LVKWNVAL_ 0 0 0 REV__ENST00000594376.6_1_2:70221143-70221227:-|nuORF REV__ENST00000594376.6_1_2:70221143-70221227:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.7916259765625 2 471.792195 941.569838 NaN NaN NaN NaN NaN NaN NaN 31.712 1 31.966 31.466 32.466 0.25452 0 0 0 0.94507 1 14439 14439 9.3474 0 1 + 18843 17604 12097 12125 21495 21495 0.09671556036448692 LVLFVAIVL 9 Unmodified _LVLFVAIVL_ 0 0 0 nc|ENSG00000003989|P52569-2|SLC7A2;ENSG00000003989|ENST00000494857|SLC7A2;nc|ENSG00000003989|P52569-3|SLC7A2 nc|ENSG00000003989|P52569-2|SLC7A2 nc|ENSG00000003989|P52569-2|SLC7A2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.2514953613281 2 493.836071 985.65759 3.2179 0.0015891 -2.4227 -0.0011964 0.79522 0.00039271 493.8352015289807 30.613 0.21901 31.23 31.152 31.371 0.61736 16 12 2 0 0 0 0.052547 1 14040 14040 28.173 7.302 1 259420 18844 9534 12098 12126 21496 21496 0.1641875690722827 LVLKMCKKI 9 Unmodified _LVLKMCKKI_ 0 0 0 REV__ENST00000471257.5_1_1:235377084-235377189:-|nuORF REV__ENST00000471257.5_1_1:235377084-235377189:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.2305908203125 3 359.229186 1074.66573 NaN NaN NaN NaN NaN NaN NaN 67.649 1 67.649 67.149 68.149 0 0 0 0 0.90611 1 32491 32491 1.0715 0 1 + 18845 16602 12099 12127 21497 21497 0.13138244560695966 LVLKRFSL 8 Unmodified _LVLKRFSL_ 0 0 0 REV__ENSG00000275183|ENST00000611161|LENG9 REV__ENSG00000275183|ENST00000611161|LENG9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 325.8841857910156 3 325.883172 974.627687 2.1204 0.00069101 0.081266 2.6483E-05 2.2017 0.00071749 325.88324046036274 25.974 0.28795 26.599 26.446 26.734 0.62505 48 21 3 0 0 0 0.71911 1 11944 11944 4.3292 0 1 1254300 + 18846 14735 12100 12128 21498 21498 0.13935817961908015 LVLLEPKG 8 Unmodified _LVLLEPKG_ 0 0 0 REV__ENST00000508859.6_1_5:751252-755178:-|nuORF REV__ENST00000508859.6_1_5:751252-755178:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.78106689453125 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 37.015 1 37.808 37.308 38.308 0.79342 0 0 0 0.99035 1 16772 16772 2.5775 0 1 + 18847 16958 12101 12129 21499 21499 0.10388447425293634 LVLLEPKG 8 Unmodified _LVLLEPKG_ 0 0 0 REV__ENST00000508859.6_1_5:751252-755178:-|nuORF REV__ENST00000508859.6_1_5:751252-755178:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.78155517578125 2 434.778754 867.542954 3.0125 0.0013098 0.19438 8.4511E-05 3.2069 0.0013943 434.78008068772994 37.286 1.129 37.547 36.994 38.123 0.26083 84 36 4 0 0 0 0.7471 1 17202 17202 0.69038 0 1 692050 + 18848 16958 12101 12129 21500 21500 0.10388447425293634 LVLLEPKG 8 Unmodified _LVLLEPKG_ 0 0 0 REV__ENST00000508859.6_1_5:751252-755178:-|nuORF REV__ENST00000508859.6_1_5:751252-755178:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.7809143066406 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 38.954 1 39.218 38.718 39.718 0.26408 0 0 0 0.99035 1 17727 17727 0.69038 0 1 + 18849 16958 12101 12129 21501 21501 0.10388447425293634 LVLLEPKG 8 Unmodified _LVLLEPKG_ 0 0 0 REV__ENST00000508859.6_1_5:751252-755178:-|nuORF REV__ENST00000508859.6_1_5:751252-755178:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.78131103515625 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 43.027 1 43.297 42.797 43.797 0.27021 0 0 0 0.99035 1 19641 19641 0.69038 0 1 + 18850 16958 12101 12129 21502 21502 0.10388447425293634 LVLLEPKG 8 Unmodified _LVLLEPKG_ 0 0 0 REV__ENST00000508859.6_1_5:751252-755178:-|nuORF REV__ENST00000508859.6_1_5:751252-755178:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7812194824219 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 40.831 1 41.475 40.975 41.975 0.64451 0 0 0 0.99035 1 18666 18666 0.69038 0 1 + 18851 16958 12101 12129 21503 21503 0.10388447425293634 LVLLEPKG 8 Unmodified _LVLLEPKG_ 0 0 0 REV__ENST00000508859.6_1_5:751252-755178:-|nuORF REV__ENST00000508859.6_1_5:751252-755178:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7813415527344 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 42.346 1 42.993 42.493 43.493 0.64693 0 0 0 0.99035 1 19397 19397 0.69038 0 1 + 18852 16958 12101 12129 21504 21504 0.10388447425293634 LVLLEPKG 8 Unmodified _LVLLEPKG_ 0 0 0 REV__ENST00000508859.6_1_5:751252-755178:-|nuORF REV__ENST00000508859.6_1_5:751252-755178:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7808837890625 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 46.518 1 47.17 46.67 47.67 0.65219 0 0 0 0.99035 1 21307 21307 0.69038 0 1 + 18853 16958 12101 12129 21505 21505 0.10388447425293634 LVLLFVMVA 9 Unmodified _LVLLFVMVA_ 0 0 0 nc|ENSG00000003989|P52569-2|SLC7A2;ENSG00000003989|ENST00000494857|SLC7A2;nc|ENSG00000003989|P52569-3|SLC7A2 nc|ENSG00000003989|P52569-2|SLC7A2 nc|ENSG00000003989|P52569-2|SLC7A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 502.8152770996094 2 502.814282 1003.61401 2.0001 0.0010057 0.74062 0.00037239 2.7407 0.0013781 502.81450333293236 93.487 0.3465 93.573 93.438 93.784 0.086212 104 45 3 0 0 0 1.101 1 49081 49081 2.3027 2.3027 1 31519000 18854 9534 12102 12130 21506 21506 0.11234824138432487 LVLLKLKKL 9 Unmodified _LVLLKLKKL_ 0 0 0 REV__ENST00000231572.7_1_5:167920941-167921575:+|nuORF REV__ENST00000231572.7_1_5:167920941-167921575:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.0079345703125 2 534.39937 1066.78419 NaN NaN NaN NaN NaN NaN NaN 61.375 1 61.375 60.875 61.875 0 0 0 0 0.91452 1 28619 28619 0 0 1 + 18855 14858 12103 12131 21507 21507 0.25346683132352155 LVLLLHLLMVI 11 Unmodified _LVLLLHLLMVI_ 0 0 0 ENST00000509268.1_1_5:82400826-82406918:+|nuORF ENST00000509268.1_1_5:82400826-82406918:+|nuORF ENST00000509268.1_1_5:82400826-82406918:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 638.924560546875 2 638.924895 1275.83524 NaN NaN NaN NaN NaN NaN NaN 26.552 1 27.177 26.677 27.677 0.62505 0 0 0 1.0082 1 12172 12172 0 0 1 18856 8537 12104 12132 21508 21508 0.2083526411490766 LVLLLLRVLHV 11 Unmodified _LVLLLLRVLHV_ 0 0 0 ENST00000558791.5_1_15:44719859-44751301:+|nuORF ENST00000558791.5_1_15:44719859-44751301:+|nuORF ENST00000558791.5_1_15:44719859-44751301:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.4488525390625 2 644.447383 1286.88021 NaN NaN NaN NaN NaN NaN NaN 62.412 1 62.412 61.912 62.912 0 0 0 0 1.008 1 29249 29249 0.35063 0.043601 1 18857 8958 12105 12133 21509 21509 0.2482483097246586 LVLLRRASWV 10 Unmodified _LVLLRRASWV_ 0 0 0 REV__nc|ENSG00000158296|Q8WWT9-5|SLC13A3 REV__nc|ENSG00000158296|Q8WWT9-5|SLC13A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.92388916015625 3 404.92403 1211.75026 2.4083 0.00097516 -1.2061 -0.00048836 1.2022 0.0004868 404.9234669145716 33.974 0.38572 34.763 34.634 35.02 0.78921 32 23 2 0 0 0 0.94099 1 15424 15424 0.69767 0.69767 1 321000 + 18858 12819 12106 12134 21510 21510 0.15285654693320794 LVLPMWAI 8 Unmodified _LVLPMWAI_ 0 0 0 ENSG00000168575|ENST00000520262|SLC20A2 ENSG00000168575|ENST00000520262|SLC20A2 ENSG00000168575|ENST00000520262|SLC20A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.7789611816406 2 471.777699 941.540846 2.6886 0.0012684 0.05464 2.5778E-05 2.7432 0.0012942 471.7777292044752 14.975 0.41842 15.282 15.115 15.534 0.3069 104 42 3 0 0 0 0.69414 1 6825 6825 6.3541 0 1 343060 18859 4636 12107 12135 21511 21511 0.06773695415813563 LVLRCHRRRK 10 Unmodified _LVLRCHRRRK_ 0 0 0 nc|ENSG00000163518|Q96PJ5-2|FCRL4;ENSG00000163518|ENST00000271532|FCRL4 nc|ENSG00000163518|Q96PJ5-2|FCRL4 nc|ENSG00000163518|Q96PJ5-2|FCRL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.9171142578125 2 668.914581 1335.81461 NaN NaN NaN NaN NaN NaN NaN 52.966 1 53.769 53.269 54.269 0.80351 0 0 0 1.0001 1 24139 24139 1.6526 0.17072 1 18860 4215 12108 12136 21512 21512 0.16013531298426642 LVLRLRRQPI 10 Unmodified _LVLRLRRQPI_ 0 0 0 ENST00000272091.7_1_1:226180251-226183014:-|nuORF;nc|ENSG00000143751|Q6IQ49-3|SDE2 ENST00000272091.7_1_1:226180251-226183014:-|nuORF ENST00000272091.7_1_1:226180251-226183014:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.5841064453125 2 632.422231 1262.82991 NaN NaN NaN NaN NaN NaN NaN 56.704 1 57.482 56.982 57.982 0.77786 0 0 0 1.0015 1 25932 25932 0.45834 0 1 18861 6653 12109 12137 21513 21513 0.2090072136732033 LVLRRRKRRRI 11 Unmodified _LVLRRRKRRRI_ 0 0 0 ENST00000496567.5_1_9:97782205-97782394:+|nuORF ENST00000496567.5_1_9:97782205-97782394:+|nuORF ENST00000496567.5_1_9:97782205-97782394:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 761.5241088867188 2 761.523676 1521.0328 NaN NaN NaN NaN NaN NaN NaN 68.908 1 68.908 68.408 69.408 0 0 0 0 1.0082 1 33213 33213 0 0 1 18862 8446 12110 12138 21514 21514 0.2931246421242122 LVLVLLKLKKL 11 Unmodified _LVLVLLKLKKL_ 0 0 0 REV__ENST00000231572.7_1_5:167920941-167921575:+|nuORF REV__ENST00000231572.7_1_5:167920941-167921575:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.2727661132812 2 640.475609 1278.93667 NaN NaN NaN NaN NaN NaN NaN 85.45 1 85.479 84.979 85.979 0.028603 0 0 0 1.0082 1 42780 42780 0 0 1 + 18863 14858 12111 12139 21515 21515 0.30835458809110605 LVLYRRLQRDP 11 Unmodified _LVLYRRLQRDP_ 0 0 0 REV__ENST00000473899.1_1_2:220473145-220474007:+|nuORF REV__ENST00000473899.1_1_2:220473145-220474007:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 714.9280395507812 2 714.925335 1427.83612 NaN NaN NaN NaN NaN NaN NaN 72.023 1 72.727 72.227 73.227 0.70386 0 0 0 1.0057 1 34632 34632 3.2813 0.28607 1 + 18864 12408 12112 12140 21516 21516 0.1393119480817404 LVMLKHLQ 8 Unmodified _LVMLKHLQ_ 0 0 0 nc|ENSG00000114248|Q6UY01-3|LRRC31;nc|ENSG00000114248|Q6UY01-4|LRRC31;nc|ENSG00000114248|Q6UY01-2|LRRC31;ENSG00000114248|ENST00000316428|LRRC31 nc|ENSG00000114248|Q6UY01-3|LRRC31 nc|ENSG00000114248|Q6UY01-3|LRRC31 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.9559326171875 2 491.29933 980.584108 NaN NaN NaN NaN NaN NaN NaN 47.241 1 47.241 46.741 47.741 0 0 0 0 0.99035 1 21625 21625 2.5775 0 1 18865 1893 12113 12141 21517 21517 0.09303885193105543 LVMLKHLQVL 10 Unmodified _LVMLKHLQVL_ 0 0 0 nc|ENSG00000114248|Q6UY01-3|LRRC31;nc|ENSG00000114248|Q6UY01-4|LRRC31;nc|ENSG00000114248|Q6UY01-2|LRRC31;ENSG00000114248|ENST00000316428|LRRC31 nc|ENSG00000114248|Q6UY01-3|LRRC31 nc|ENSG00000114248|Q6UY01-3|LRRC31 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.5860900878906 3 398.586138 1192.73659 3.1957 0.0012738 -0.24455 -9.7473E-05 2.9512 0.0011763 398.92059232266615 46.721 0.66761 46.986 46.756 47.423 0.26561 38 22 2 0 0 0 0.93584 1 21462 21462 1.7423 0.54893 1 1316500 18866 1893 12114 12142 21518 21518 0.14792660869852625 LVMLKHLQVL 10 Unmodified _LVMLKHLQVL_ 0 0 0 nc|ENSG00000114248|Q6UY01-3|LRRC31;nc|ENSG00000114248|Q6UY01-4|LRRC31;nc|ENSG00000114248|Q6UY01-2|LRRC31;ENSG00000114248|ENST00000316428|LRRC31 nc|ENSG00000114248|Q6UY01-3|LRRC31 nc|ENSG00000114248|Q6UY01-3|LRRC31 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 398.586138 1192.73659 2.5649 0.0010224 -0.48175 -0.00019202 2.0832 0.00083033 398.9201422940919 46.199 0.28764 47.029 46.868 47.156 0.82915 0.021107 -0.00013296 NaN 1.7423 20 12 2 NaN NaN NaN NaN 0 NaN NaN 0 261110 18867 1893 12114 12142 0.14792660869852625 LVNLRNRRV 9 Unmodified _LVNLRNRRV_ 0 0 0 ENSG00000024526|ENST00000456315|DEPDC1 ENSG00000024526|ENST00000456315|DEPDC1 ENSG00000024526|ENST00000456315|DEPDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.3610229492188 2 570.359631 1138.70471 3.8087 0.0021723 -0.96884 -0.00055259 2.8398 0.0016197 570.3589123148702 91.54 0.56792 92.202 91.995 92.562 0.66197 61 28 3 0 0 0 1.2126 1 42223 42223 0.52476 0.066424 1 1564100 18868 475 12115 12143 21519 21519 0.14090429230918744 LVNPPRPLFI 10 Unmodified _LVNPPRPLFI_ 0 0 0 REV__nc|ENSG00000182257|Q9NV39|PRR34 REV__nc|ENSG00000182257|Q9NV39|PRR34 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.25494384765625 3 389.241248 1164.70191 2.8564 0.0011118 0.86012 0.00033479 3.7165 0.0014466 389.24162971221654 39.419 0.35872 39.686 39.409 39.767 0.26696 19 13 2 0 0 0 0.93584 1 17838 17838 1.7423 1.7423 1 254220 + 18869 18067 12116 12144 21520 21520 0.1261516105339524 LVNRYRNKA 9 Unmodified _LVNRYRNKA_ 0 0 0 REV__nc|ENSG00000080031|Q9HD43-3|PTPRH REV__nc|ENSG00000080031|Q9HD43-3|PTPRH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.3320922851562 2 567.330539 1132.64652 3.738 0.0021207 -0.80606 -0.0004573 2.9319 0.0016634 567.329888988863 85.423 1.7358 86.089 85.344 87.08 0.66566 236 91 4 0 0 0 1.129 1 39670 39670 1.8442 0.36234 1 3198100 + 18870 10588 12117 12145 21521 21521 0.08550747585650242 LVNTEWEL 8 Unmodified _LVNTEWEL_ 0 0 0 ENST00000447600.1_1_1:11159921-11162000:+|nuORF ENST00000447600.1_1_1:11159921-11162000:+|nuORF ENST00000447600.1_1_1:11159921-11162000:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.2596435546875 2 502.258382 1002.50221 2.4971 0.0012542 -0.3824 -0.00019207 2.1147 0.0010621 502.2582475969626 12.592 0.11663 12.899 12.819 12.936 0.30727 5 3 2 0 0 0 0.71911 1 5696 5696 2.8892 0 1 1318100 18871 7986 12118 12146 21522 21522 0.0010606131498889226 LVNVYSCTDK 10 Unmodified _LVNVYSCTDK_ 0 0 0 REV__ENSG00000163754|ENST00000345003|GYG1 REV__ENSG00000163754|ENST00000345003|GYG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.1915588378906 3 381.190113 1140.54851 NaN NaN NaN NaN NaN NaN NaN 80.848 1 81.096 80.596 81.596 0.24803 0 0 0 0.99812 1 37225 37225 1.5923 0.52082 1 + 18872 13024 12119 12147 21523 21523 -0.016142418452318452 LVNVYSCTDK 10 Unmodified _LVNVYSCTDK_ 0 0 0 REV__ENSG00000163754|ENST00000345003|GYG1 REV__ENSG00000163754|ENST00000345003|GYG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.1913146972656 3 381.190113 1140.54851 NaN NaN NaN NaN NaN NaN NaN 80.45 1 81.11 80.61 81.61 0.65998 0 0 0 0.99812 1 37072 37072 1.5923 0 1 + 18873 13024 12119 12147 21524 21524 -0.016142418452318452 LVNWIWRFYFE 11 Unmodified _LVNWIWRFYFE_ 0 0 0 ENSG00000136240|ENST00000258739|KDELR2 ENSG00000136240|ENST00000258739|KDELR2 ENSG00000136240|ENST00000258739|KDELR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 786.901123046875 2 786.903537 1571.79252 NaN NaN NaN NaN NaN NaN NaN 74.036 1 74.036 73.536 74.536 0 0 0 0 1.008 1 36131 36131 0.30703 0.03801 1 18874 2936 12120 12148 21525 21525 0.02949585311012015 LVPLLLLIHT 10 Unmodified _LVPLLLLIHT_ 0 0 0 REV__ENSG00000204624|ENST00000294484|DISP3 REV__ENSG00000204624|ENST00000294484|DISP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.33056640625 2 566.378635 1130.74272 NaN NaN NaN NaN NaN NaN NaN 91.484 1 91.566 91.066 92.066 0.082848 0 0 0 1.0001 1 47426 47426 1.6526 0 1 + 18875 14432 12121 12149 21526 21526 0.18257502373035095 LVPLLPML 8 Unmodified _LVPLLPML_ 0 0 0 REV__ENST00000361906.7_1_22:38617127-38617379:-|nuORF REV__ENST00000361906.7_1_22:38617127-38617379:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 448.2875671386719 2 448.2879 894.561247 2.8156 0.0012622 -1.8757 -0.00084086 0.93986 0.00042133 448.28688202943664 36.524 0.35848 37.317 37.049 37.407 0.79342 22 17 2 0 0 0 0.7471 1 16553 16553 0.79363 0 1 199630 + 18876 15632 12122 12150 21527 21527 0.10974866075616774 LVPLLVLVPKV 11 Unmodified _LVPLLVLVPKV_ 0 0 0 REV__nc|ENSG00000180264|Q7Z7M1|ADGRD2 REV__nc|ENSG00000180264|Q7Z7M1|ADGRD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 595.4155883789062 2 595.41776 1188.82097 NaN NaN NaN NaN NaN NaN NaN 51.913 1 52.723 52.223 53.223 0.81065 0 0 0 1.0082 1 23649 23649 0 0 1 + 18877 13821 12123 12151 21528 21528 0.23410934958246798 LVPPLIFP 8 Unmodified _LVPPLIFP_ 0 0 0 REV__CCDC7|p.R194Ifs*11|1|0.11|ENSG00000216937|chr10:32726823-32726824|-/TCTCTATATTT|frameshift_variant REV__CCDC7|p.R194Ifs*11|1|0.11|ENSG00000216937|chr10:32726823-32726824|-/TCTCTATATTT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.2869567871094 2 448.286214 894.557876 3.2074 0.0014379 -1.0579 -0.00047423 2.1496 0.00096363 448.2855905001877 36.576 0.28318 37.206 37.046 37.329 0.62999 17 11 2 0 0 0 0.7471 1 16759 16759 0.79363 0 1 365030 + 18878 9993 12124 12152 21529 21529 0.10637939293269483 LVPSITNITRV 11 Unmodified _LVPSITNITRV_ 0 0 0 ENST00000294785.9_1_1:160324037-160325488:+|nuORF ENST00000294785.9_1_1:160324037-160325488:+|nuORF ENST00000294785.9_1_1:160324037-160325488:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.3717651367188 2 606.869163 1211.72377 2.1217 0.0012876 -0.17937 -0.00010886 1.9423 0.0011787 607.3691750959218 104.38 0.11105 104.43 104.38 104.49 0.052994 13 12 2 0 0 0 0.13295 1 56530 56530 0 0 1 534280 18879 6751 12125 12153 21530 21530 0.12637921011264552 LVPSLLDEI 9 Unmodified _LVPSLLDEI_ 0 0 0 nc|ENSG00000135476|Q14674-2|ESPL1;ENSG00000135476|ENST00000257934|ESPL1 nc|ENSG00000135476|Q14674-2|ESPL1 nc|ENSG00000135476|Q14674-2|ESPL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.79388427734375 2 499.792058 997.569563 3.4642 0.0017314 -0.58429 -0.00029202 2.8799 0.0014394 499.7920739097974 87.934 0.23805 88.185 88.062 88.3 0.25064 9 8 2 0 0 0 0.96953 1 40475 40475 7.2892 0 1 246840 18880 2875 12126 12154 21531 21531 0.07068091525934506 LVPVFPHL 8 Unmodified _LVPVFPHL_ 0 0 0 ENSG00000176769|ENST00000368642|TCERG1L ENSG00000176769|ENST00000368642|TCERG1L ENSG00000176769|ENST00000368642|TCERG1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 461.2806091308594 2 461.281463 920.548374 NaN NaN NaN NaN NaN NaN NaN 12.483 1 12.79 12.29 13.29 0.30727 0 0 0 0.967 1 5627 5627 2.8892 0 1 18881 5088 12127 12155 21532 21532 0.084921710077424 LVPWVAVRRLP 11 Unmodified _LVPWVAVRRLP_ 0 0 0 REV__nc|ENSG00000171763|Q9BVQ7-3|AFG2B REV__nc|ENSG00000171763|Q9BVQ7-3|AFG2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 653.3596801757812 2 653.411332 1304.80811 NaN NaN NaN NaN NaN NaN NaN 95.096 1 95.096 94.596 95.596 0 0 0 0 1.0055 1 51127 51127 3.5965 0 1 + 18882 13513 12128 12156 21533 21533 0.16789916618745337 LVQWKQVLNEG 11 Unmodified _LVQWKQVLNEG_ 0 0 0 REV__ENST00000535123.6_1_12:53673494-53681766:+|nuORF REV__ENST00000535123.6_1_12:53673494-53681766:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 657.36962890625 2 657.364244 1312.71394 NaN NaN NaN NaN NaN NaN NaN 69.921 1 70.624 70.124 71.124 0.70302 0 0 0 1.0059 1 33480 33480 2.9952 0 1 + 18883 12021 12129 12157 21534 21534 0.070087330059323 LVRCPRPLVGR 11 Unmodified _LVRCPRPLVGR_ 0 0 0 REV__ENSG00000176170|ENST00000592299|SPHK1 REV__ENSG00000176170|ENST00000592299|SPHK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.19708251953125 4 317.196034 1264.75503 2.4694 0.00078327 0.54313 0.00017228 3.0125 0.00095555 317.1961480717587 46.698 0.47327 46.963 46.568 47.041 0.26561 45 16 3 0 0 0 0.91068 1 21372 21372 0.45452 0 1 14192000 + 18884 13694 12130 12158 21535 21535 0.133242155643984 LVRCPRPLVGR 11 Unmodified _LVRCPRPLVGR_ 0 0 0 REV__ENSG00000176170|ENST00000592299|SPHK1 REV__ENSG00000176170|ENST00000592299|SPHK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 317.197021484375 4 317.196034 1264.75503 2.4347 0.00077228 1.0194 0.00032336 3.4541 0.0010956 317.19628456850245 45.969 0.57444 46.62 46.33 46.905 0.65104 68 18 5 0 0 0 0.91068 2 21029 21029;21089 0.45452 0.45452 1 8339400 + 18885 13694 12130 12158 21536;21537 21536 0.133242155643984 LVRCPRPLVGR 11 Unmodified _LVRCPRPLVGR_ 0 0 0 REV__ENSG00000176170|ENST00000592299|SPHK1 REV__ENSG00000176170|ENST00000592299|SPHK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 317.1969299316406 4 317.196034 1264.75503 2.3321 0.00073973 0.87169 0.0002765 3.2038 0.0010162 317.19626167726824 46.446 0.59716 47.098 46.906 47.503 0.65219 70 22 5 0 0 0 0.91068 1 21300 21300 0.45452 0.046251 1 10320000 + 18886 13694 12130 12158 21538 21538 0.133242155643984 LVRGLLLLPC 10 Unmodified _LVRGLLLLPC_ 0 0 0 ENST00000324557.8_1_3:183967532-183975309:+|nuORF ENST00000324557.8_1_3:183967532-183975309:+|nuORF ENST00000324557.8_1_3:183967532-183975309:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.2356872558594 3 366.235217 1095.68382 NaN NaN NaN NaN NaN NaN NaN 68.201 1 68.86 68.36 69.36 0.65924 0 0 0 0.99733 1 31263 31263 1.9064 0.25375 1 18887 6951 12131 12159 21539 21539 0.13980702807066336 LVRIFNRRQ 9 Unmodified _LVRIFNRRQ_ 0 0 0 ENST00000417626.6_1_3:50325358-50325592:-|nuORF ENST00000417626.6_1_3:50325358-50325592:-|nuORF ENST00000417626.6_1_3:50325358-50325592:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.3695678710938 2 601.367456 1200.72036 NaN NaN NaN NaN NaN NaN NaN 5.1962 1 5.549 5.049 6.049 0.35278 0 0 0 0.91206 1 2358 2358 0.6015 0 1 18888 7723 12132 12160 21540 21540 0.1280271574796643 LVRIFRKKKRI 11 Unmodified _LVRIFRKKKRI_ 0 0 0 TMEM71|p.S114Vfs*16|1|0.25|ENSG00000165071|chr8:132747032-132747032|T/-|frameshift_variant;nc|ENSG00000165071|Q6P5X7-3|TMEM71;ENSG00000165071|ENST00000677595|TMEM71 TMEM71|p.S114Vfs*16|1|0.25|ENSG00000165071|chr8:132747032-132747032|T/-|frameshift_variant TMEM71|p.S114Vfs*16|1|0.25|ENSG00000165071|chr8:132747032-132747032|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 729.0006713867188 2 729.00118 1455.98781 NaN NaN NaN NaN NaN NaN NaN 49.99 1 49.99 49.49 50.49 0 0 0 0 1.0082 1 22887 22887 0 0 1 18889 4367 12133 12161 21541 21541 0.27805220626510163 LVRKKRLIVL 10 Unmodified _LVRKKRLIVL_ 0 0 0 nc|ENSG00000050130|Q9P055-3|JKAMP;ENSG00000050130|ENST00000616435|JKAMP;nc|ENSG00000050130|Q9P055-5|JKAMP;nc|ENSG00000050130|Q9P055-2|JKAMP nc|ENSG00000050130|Q9P055-3|JKAMP nc|ENSG00000050130|Q9P055-3|JKAMP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.4442749023438 2 619.445175 1236.8758 NaN NaN NaN NaN NaN NaN NaN 98.054 1 98.054 97.554 98.554 0 0 0 0 1.0015 1 53582 53582 0.45834 0 1 18890 581 12134 12162 21542 21542 0.26683366549536913 LVRLLKRSK 9 Unmodified _LVRLLKRSK_ 0 0 0 REV__ENST00000524307.5_1_8:124089445-124141439:+|nuORF REV__ENST00000524307.5_1_8:124089445-124141439:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.1666259765625 2 556.88495 1111.75535 NaN NaN NaN NaN NaN NaN NaN 93.466 1 93.552 93.052 94.052 0.086212 0 0 0 0.90777 1 48968 48968 1.6526 0.17072 1 + 18891 12784 12135 12163 21543 21543 0.20393958555928293 LVRLVRLIKVV 11 Unmodified _LVRLVRLIKVV_ 0 0 0 REV__nc|ENSG00000102001|O60840-5|CACNA1F;REV__ENSG00000081248|ENST00000362061|CACNA1S;REV__nc|ENSG00000151067|Q13936-2|CACNA1C;REV__nc|ENSG00000157388|Q01668-4|CACNA1D REV__ENSG00000081248|ENST00000362061|CACNA1S MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 654.4663696289062 2 654.466107 1306.91766 NaN NaN NaN NaN NaN NaN NaN 65.234 1 65.234 64.734 65.734 0 0 0 0 1.0073 1 31043 31043 1.1933 0.88631 1 + 18892 10608;10914;12604;12799 12136 12164 21544 21544 0.27647922238043066 LVRNRRFQL 9 Unmodified _LVRNRRFQL_ 0 0 0 nc|ENSG00000205482|P0DV79|SPDYE18;ENSG00000185040|ENST00000633306|SPDYE16 nc|ENSG00000205482|P0DV79|SPDYE18 nc|ENSG00000205482|P0DV79|SPDYE18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 601.3698120117188 2 601.367456 1200.72036 NaN NaN NaN NaN NaN NaN NaN 7.7383 1 7.7383 7.2383 8.2383 0 0 0 0 0.91206 1 3491 3491 0.6015 0 1 18893 5482 12137 12165 21545 21545 0.12802715747989168 LVRPAGKR 8 Unmodified _LVRPAGKR_ 0 0 0 REV__ENSG00000102996|ENST00000219271|MMP15 REV__ENSG00000102996|ENST00000219271|MMP15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 449.28045654296875 2 448.793061 895.571569 NaN NaN NaN NaN NaN NaN NaN 65.379 1 65.627 65.127 66.127 0.24803 0 0 0 0.99035 1 29952 29952 2.3027 1.6124 1 + 18894 10954 12138 12166 21546 21546 0.11960609845084491 LVRPPAGAAL 10 Unmodified _LVRPPAGAAL_ 0 0 0 ENSG00000139718|ENST00000604567|SETD1B;nc|ENSG00000139718|Q9UPS6-2|SETD1B ENSG00000139718|ENST00000604567|SETD1B ENSG00000139718|ENST00000604567|SETD1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 322.21270751953125 3 322.202793 963.58655 NaN NaN NaN NaN NaN NaN NaN 31.192 1 31.192 30.692 31.692 0 0 0 0 1.0011 1 14107 14107 0.77653 0.31819 1 18895 3162 12139 12167 21547 21547 0.10330056922407493 LVRRDQRSKH 10 Unmodified _LVRRDQRSKH_ 0 0 0 ENST00000535606.1_1_12:32112753-32113746:+|nuORF ENST00000535606.1_1_12:32112753-32113746:+|nuORF ENST00000535606.1_1_12:32112753-32113746:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.8741455078125 2 647.876176 1293.7378 NaN NaN NaN NaN NaN NaN NaN 47.795 1 47.795 47.295 48.295 0 0 0 0 0.99774 1 21888 21888 3.5965 0.31518 1 18896 8764 12140 12168 21548 21548 0.10268011282960288 LVRRRKRRFFG 11 Unmodified _LVRRRKRRFFG_ 0 0 0 ENSG00000186479|ENST00000334025|RGS7BP ENSG00000186479|ENST00000334025|RGS7BP ENSG00000186479|ENST00000334025|RGS7BP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 745.9679565429688 2 745.968203 1489.92185 NaN NaN NaN NaN NaN NaN NaN 79.418 1 79.738 79.238 80.238 0.31998 0 0 0 1.008 1 38797 38797 0.35063 0 1 18897 5573 12141 12169 21549 21549 0.19648824504315598 LVRRRRRQM 9 Unmodified _LVRRRRRQM_ 0 0 0 REV__ENSG00000130294|ENST00000498729|KIF1A REV__ENSG00000130294|ENST00000498729|KIF1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 424.2647399902344 3 424.263163 1269.76766 NaN NaN NaN NaN NaN NaN NaN 10.988 1 11.267 10.767 11.767 0.2792 0 0 0 0.91206 1 4770 4770 0.26902 0.1097 1 + 18898 11810 12142 12170 21550 21550 0.1435667174732771 LVRSREVSV 9 Unmodified _LVRSREVSV_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD;ENST00000567791.1_1_16:66955609-66957656:-|nuORF ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.8769226074219 3 348.876857 1043.60874 2.2925 0.00079982 0.23622 8.2413E-05 2.5288 0.00088223 348.8768405652536 14.649 0.28288 14.955 14.833 15.115 0.3069 58 22 3 0 0 0 0.02812 2 6602 6602;6649 53.317 27.296 1 964150 18899 4495 12143 12171 21551;21552 21551 0.08868236600187629 LVRSREVSV 9 Unmodified _LVRSREVSV_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD;ENST00000567791.1_1_16:66955609-66957656:-|nuORF ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.8775939941406 3 348.876857 1043.60874 2.5071 0.00087467 0.3878 0.0001353 2.8949 0.00101 348.8769547386747 14.701 0.29418 15.354 15.23 15.525 0.65356 60 25 3 0 0 0 0.053453 2 6591 6591;6681 42.312 21.732 1 1034000 18900 4495 12143 12171 21553;21554 21553 0.08868236600187629 LVRWKSAVAM 10 Unmodified _LVRWKSAVAM_ 0 0 0 ENST00000271526.8_1_1:156737345-156737426:+|nuORF ENST00000271526.8_1_1:156737345-156737426:+|nuORF ENST00000271526.8_1_1:156737345-156737426:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 580.837646484375 2 580.834069 1159.65358 NaN NaN NaN NaN NaN NaN NaN 61.074 1 61.814 61.314 62.314 0.7396 0 0 0 0.96627 1 28276 28276 10.824 0 1 18901 6651 12144 12172 21555 21555 0.08014344141838592 LVRYNQQND 9 Unmodified _LVRYNQQND_ 0 0 0 nc|ENSG00000136895|Q5VVW2-5|GARNL3;ENSG00000136895|ENST00000373387|GARNL3;nc|ENSG00000136895|Q5VVW2-3|GARNL3;nc|ENSG00000136895|Q5VVW2-2|GARNL3 nc|ENSG00000136895|Q5VVW2-5|GARNL3 nc|ENSG00000136895|Q5VVW2-5|GARNL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.3209228515625 2 575.285994 1148.55744 NaN NaN NaN NaN NaN NaN NaN 79.623 1 79.623 79.123 80.123 0 0 0 0 0.86044 1 39379 39379 7.2892 1.9923 1 18902 2986 12145 12173 21556 21556 -0.010901321645178541 LVRYRFIP 8 Unmodified _LVRYRFIP_ 0 0 0 ENST00000328257.12_1_11:73964935-73965235:+|nuORF ENST00000328257.12_1_11:73964935-73965235:+|nuORF ENST00000328257.12_1_11:73964935-73965235:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.520751953125 2 532.324194 1062.63383 NaN NaN NaN NaN NaN NaN NaN 58.135 1 58.135 57.635 58.635 0 0 0 0 0.99035 1 26815 26815 2.5775 0 1 18903 6971 12146 12174 21557 21557 0.10502336193394513 LVSCWCFHDQW 11 Unmodified _LVSCWCFHDQW_ 0 0 0 ENST00000335875.8_1_19:49812318-49812962:-|nuORF;ENST00000597969.5_1_19:49809336-49813046:-|nuORF ENST00000335875.8_1_19:49812318-49812962:-|nuORF ENST00000335875.8_1_19:49812318-49812962:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 712.2996826171875 2 712.299733 1422.58491 NaN NaN NaN NaN NaN NaN NaN 62.655 1 63.313 62.813 63.813 0.65808 0 0 0 1.008 1 28714 28714 0.35063 0 1 18904 7027 12147 12175 21558 21558 -0.10947688220176133 LVSEMDYDEQL 11 Unmodified _LVSEMDYDEQL_ 0 0 0 REV__ENSG00000170542|ENST00000380698|SERPINB9 REV__ENSG00000170542|ENST00000380698|SERPINB9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 671.3013916015625 2 671.297575 1340.5806 NaN NaN NaN NaN NaN NaN NaN 59.367 1 60.117 59.617 60.617 0.74927 0 0 0 1.0034 1 27278 27278 6.2058 2.9245 1 + 18905 13440 12148 12176 21559 21559 -0.07606918952728847 LVSRKCIGVF 10 Unmodified _LVSRKCIGVF_ 0 0 0 ENSG00000103994|ENST00000564754|ZNF106;nc|ENSG00000103994|Q9H2Y7|ZNF106;nc|ENSG00000103994|Q9H2Y7-2|ZNF106 ENSG00000103994|ENST00000564754|ZNF106 ENSG00000103994|ENST00000564754|ZNF106 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.57952880859375 3 374.554838 1120.64269 2.8204 0.0010564 -1.8357 -0.00068755 0.98479 0.00036886 374.5541502559257 42.344 0.1638 42.991 42.948 43.112 0.64693 16 11 2 0 0 0 0.12676 1 19414 19414 2.6312 0.97861 1 459230 18906 1418 12149 12177 21560 21560 0.08718941767574506 LVSRRRRRLRS 11 Unmodified _LVSRRRRRLRS_ 0 0 0 REV__ENST00000426250.3_1_12:72665645-72666709:-|nuORF REV__ENST00000426250.3_1_12:72665645-72666709:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 364.21441650390625 4 364.486734 1453.91783 2.7621 0.0010068 -1.2785 -0.00046598 1.4837 0.00054078 364.48625084618703 57.456 0.17347 57.456 57.358 57.531 0 34 20 3 0 0 0 0.13295 1 26498 26498 0.40827 0.26837 1 604390 + 18907 16214 12150 12178 21561 21561 0.209027350106453 LVSRRRRRLRS 11 Unmodified _LVSRRRRRLRS_ 0 0 0 REV__ENST00000426250.3_1_12:72665645-72666709:-|nuORF REV__ENST00000426250.3_1_12:72665645-72666709:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.4654846191406 4 364.486734 1453.91783 2.6247 0.00095666 -0.64702 -0.00023583 1.9777 0.00072083 364.73748875359 56.508 0.24496 57.177 57.052 57.296 0.66829 19 14 2 0 0 0 0.13295 1 25837 25837 1.0136 0.87368 1 1096100 + 18908 16214 12150 12178 21562 21562 0.209027350106453 LVSSIIVAK 9 Unmodified _LVSSIIVAK_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;TTN|p.R30215Vfs*13|1|0.21|ENSG00000155657|chr2:178545544-178545544|G/-|frameshift_variant;nc|ENSG00000155657|Q8WZ42-5|TTN;nc|ENSG00000155657|Q8WZ42-9|TTN;nc|ENSG00000155657|Q8WZ42-10|TTN;nc|ENSG00000155657|Q8WZ42-3|TTN ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.72271728515625 2 465.305136 928.595718 2.663 0.0012391 0.63358 0.00029481 3.2966 0.0015339 465.30523678551293 37.892 0.22973 38.526 38.415 38.645 0.63388 11 7 2 0 0 0 0.11053 1 17294 17294 4.3292 0.38484 1 160490 18909 3871 12151 12179 21563 21563 0.128564054880826 LVTHFRGA 8 Unmodified _LVTHFRGA_ 0 0 0 REV__ENST00000505222.5_1_6:82901346-82950269:-|nuORF REV__ENST00000505222.5_1_6:82901346-82950269:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.75799560546875 2 450.756144 899.497735 2.9103 0.0013119 0.19731 8.8937E-05 3.1076 0.0014008 450.7563781554624 33.245 0.30016 33.498 33.342 33.642 0.25389 19 13 2 0 0 0 0.71384 1 15153 15153 4.756 0 1 96751 + 18910 10182 12152 12180 21564 21564 0.043966416827515786 LVTHFRGA 8 Unmodified _LVTHFRGA_ 0 0 0 REV__ENST00000505222.5_1_6:82901346-82950269:-|nuORF REV__ENST00000505222.5_1_6:82901346-82950269:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 450.756144 899.497735 2.9103 0.0013119 0.19731 8.8937E-05 3.1076 0.0014008 450.7563781554624 33.245 0.30016 33.498 33.342 33.642 0.25389 0.07007 0.0001315 NaN 4.756 19 13 2 NaN NaN NaN NaN 0 NaN NaN 0 96751 + 18911 10182 12152 12180 0.043966416827515786 LVTHFRGA 8 Unmodified _LVTHFRGA_ 0 0 0 REV__ENST00000505222.5_1_6:82901346-82950269:-|nuORF REV__ENST00000505222.5_1_6:82901346-82950269:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 450.756144 899.497735 2.9778 0.0013423 -0.092103 -4.1516E-05 2.8857 0.0013008 450.75607306784053 32.74 0.18957 33.358 33.246 33.435 0.61831 -0.07007 -0.0001294 NaN 4.756 11 8 2 NaN NaN NaN NaN 0 NaN NaN 0 120180 + 18912 10182 12152 12180 0.043966416827515786 LVTPNHLH 8 Unmodified _LVTPNHLH_ 0 0 0 REV__ENST00000484514.1_1_3:78710132-78763649:-|nuORF REV__ENST00000484514.1_1_3:78710132-78763649:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.7626037597656 2 465.761426 929.5083 2.8502 0.0013275 0.43936 0.00020463 3.2895 0.0015321 465.7616081092842 28.712 0.23887 29.501 29.389 29.627 0.78921 25 19 2 0 0 0 0.62895 1 12948 12948 11.64 0.52583 1 227300 + 18913 13402 12153 12181 21565 21565 0.04072624337175057 LVTVLQRRRP 10 Unmodified _LVTVLQRRRP_ 0 0 0 ENSG00000198569|ENST00000673835|SLC34A3 ENSG00000198569|ENST00000673835|SLC34A3 ENSG00000198569|ENST00000673835|SLC34A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 413.2673645019531 3 413.266568 1236.77787 NaN NaN NaN NaN NaN NaN NaN 16.108 1 16.319 15.819 16.819 0.21108 0 0 0 1.0018 1 7112 7112 0.15932 0 1 18914 5902 12154 12182 21566 21566 0.1689555795353499 LVVDRMRIII 10 Unmodified _LVVDRMRIII_ 0 0 0 REV__nc|ENSG00000240935|Q15195|PLGLA REV__nc|ENSG00000240935|Q15195|PLGLA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.385986328125 2 614.383926 1226.7533 NaN NaN NaN NaN NaN NaN NaN 28.36 1 28.36 27.86 28.86 0 0 0 0 0.99774 1 12785 12785 3.5965 0.60125 1 + 18915 11576 12155 12183 21567 21567 0.14899161755806745 LVVIMLWAW 9 Unmodified _LVVIMLWAW_ 0 0 0 REV__ENST00000302640.12_1_3:4558245-4669470:+|nuORF REV__ENST00000302640.12_1_3:4558245-4669470:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 565.8276977539062 2 565.825181 1129.63581 NaN NaN NaN NaN NaN NaN NaN 59.544 1 60.293 59.793 60.793 0.74927 0 0 0 0.89315 1 27359 27359 5.2307 1.2863 1 + 18916 15204 12156 12184 21568 21568 0.07617628887010142 LVVLILEPL 9 Unmodified _LVVLILEPL_ 0 0 0 REV__ENST00000480399.1_1_1:49224892-49242626:-|nuORF REV__ENST00000480399.1_1_1:49224892-49242626:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.8957214355469 3 336.894966 1007.66307 NaN NaN NaN NaN NaN NaN NaN 107.88 1 108.48 107.98 108.98 0.6019 0 0 0 0.91452 1 49782 49782 0 0 1 + 18917 16688 12157 12185 21569 21569 0.15954435699018177 LVVLSCKS 8 Unmodified _LVVLSCKS_ 0 0 0 ENSG00000228083|ENST00000380222|IFNA14;ENSG00000197919|ENST00000276927|IFNA1;ENSG00000120235|ENST00000380210|IFNA6;ENSG00000233816|ENST00000610660|IFNA13 ENSG00000228083|ENST00000380222|IFNA14 ENSG00000228083|ENST00000380222|IFNA14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 424.75225830078125 2 424.749139 847.483725 NaN NaN NaN NaN NaN NaN NaN 33.087 1 33.087 32.587 33.587 0 0 0 0 0.99035 1 14986 14986 0.79363 0 1 18918 2184 12158 12186 21570 21570 0.05388228139440798 LVVRNFIFR 9 Unmodified _LVVRNFIFR_ 0 0 0 REV__nc|ENSG00000158623|Q9UBF2-2|COPG2 REV__nc|ENSG00000158623|Q9UBF2-2|COPG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.3578491210938 2 582.356025 1162.6975 NaN NaN NaN NaN NaN NaN NaN 2.362 1 2.7484 2.2484 3.2484 0.38641 0 0 0 0.91238 1 1074 1074 0.52476 0 1 + 18919 12826 12159 12187 21571 21571 0.12265696630493039 LVVRNFIFR 9 Unmodified _LVVRNFIFR_ 0 0 0 REV__nc|ENSG00000158623|Q9UBF2-2|COPG2 REV__nc|ENSG00000158623|Q9UBF2-2|COPG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.3575439453125 2 582.356025 1162.6975 NaN NaN NaN NaN NaN NaN NaN 6.5194 1 6.8591 6.3591 7.3591 0.33974 0 0 0 0.91238 1 2944 2944 0.52476 0 1 + 18920 12826 12159 12187 21572 21572 0.12265696630493039 LVWKYCKL 8 Unmodified _LVWKYCKL_ 0 0 0 REV__nc|ENSG00000103599|Q86VS3-4|IQCH REV__nc|ENSG00000103599|Q86VS3-4|IQCH MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.8002319335938 2 526.801706 1051.58886 NaN NaN NaN NaN NaN NaN NaN 50.865 1 51.525 51.025 52.025 0.65956 0 0 0 0.97647 1 23259 23259 10.183 0.83596 1 + 18921 10974 12160 12188 21573 21573 0.06512769335859048 LVWNQSFKEKK 11 Unmodified _LVWNQSFKEKK_ 0 0 0 ENST00000306467.9_1_5:122713129-122714049:-|nuORF ENST00000306467.9_1_5:122713129-122714049:-|nuORF ENST00000306467.9_1_5:122713129-122714049:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 704.173828125 2 703.893169 1405.77178 NaN NaN NaN NaN NaN NaN NaN 71.501 1 71.758 71.258 72.258 0.25786 0 0 0 1.0059 1 32754 32754 2.9952 0 1 18922 6841 12161 12189 21574 21574 0.08512994931356843 LVWQKLLLWG 10 Unmodified _LVWQKLLLWG_ 0 0 0 nc|ENSG00000145476|Q6ZWL3-2|CYP4V2;ENSG00000145476|ENST00000378802|CYP4V2 nc|ENSG00000145476|Q6ZWL3-2|CYP4V2 nc|ENSG00000145476|Q6ZWL3-2|CYP4V2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 628.3843994140625 2 628.381709 1254.74886 3.9808 0.0025014 1.4465 0.00090894 5.4272 0.0034104 628.3824665529593 90.829 0.31682 91.501 91.447 91.764 0.67271 20 17 2 0 0 0 0.93628 1 41811 41811 1.6526 0 1 266970 18923 3470 12162 12190 21575 21575 0.1316802060455302 LVWVLLVL 8 Unmodified _LVWVLLVL_ 0 0 0 REV__ENSG00000188389|ENST00000334409|PDCD1 REV__ENSG00000188389|ENST00000334409|PDCD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.8251037597656 2 477.822964 953.631375 NaN NaN NaN NaN NaN NaN NaN 38.233 1 38.233 37.733 38.733 0 0 0 0 0.99035 1 17351 17351 2.8892 0 1 + 18924 14147 12163 12191 21576 21576 0.15270487735745064 LVYEAIIMVLE 11 Unmodified _LVYEAIIMVLE_ 0 0 0 nc|ENSG00000150593|Q53EL6-2|PDCD4;ENSG00000150593|ENST00000280154|PDCD4 nc|ENSG00000150593|Q53EL6-2|PDCD4 nc|ENSG00000150593|Q53EL6-2|PDCD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 646.95703125 2 646.862157 1291.70976 NaN NaN NaN NaN NaN NaN NaN 94.656 1 94.742 94.242 95.242 0.086212 0 0 0 1.0038 1 49853 49853 5.7319 0 1 18925 3670 12164 12192 21577 21577 0.07557507468004587 LVYLYYQRRRR 11 Unmodified _LVYLYYQRRRR_ 0 0 0 nc|ENSG00000107897|Q5T8D3-4|ACBD5;nc|ENSG00000107897|Q5T8D3-2|ACBD5;ENSG00000107897|ENST00000396271|ACBD5;nc|ENSG00000107897|Q5T8D3|ACBD5 nc|ENSG00000107897|Q5T8D3-4|ACBD5 nc|ENSG00000107897|Q5T8D3-4|ACBD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 793.4580688476562 2 793.457333 1584.90011 NaN NaN NaN NaN NaN NaN NaN 59.161 1 59.161 58.661 59.661 0 0 0 0 1.008 1 27338 27338 0.35063 0 1 18926 1614 12165 12193 21578 21578 0.13105974965083078 LVYNHCEHGCP 11 Unmodified _LVYNHCEHGCP_ 0 0 0 ENSG00000110799|ENST00000261405|VWF ENSG00000110799|ENST00000261405|VWF ENSG00000110799|ENST00000261405|VWF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 424.51531982421875 3 424.514714 1270.52231 NaN NaN NaN NaN NaN NaN NaN 11.367 1 11.367 10.867 11.867 0 0 0 0 1.0071 1 4965 4965 1.4551 0.67859 1 18927 1729 12166 12194 21579 21579 -0.10212834288336126 LWAFRKWKWYQ 11 Unmodified _LWAFRKWKWYQ_ 0 0 0 nc|ENSG00000130294|Q12756|KIF1A;ENSG00000130294|ENST00000498729|KIF1A;nc|ENSG00000130294|Q12756-2|KIF1A nc|ENSG00000130294|Q12756|KIF1A nc|ENSG00000130294|Q12756|KIF1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 806.43310546875 2 806.432796 1610.85104 NaN NaN NaN NaN NaN NaN NaN 58.724 1 59.391 58.891 59.891 0.66703 0 0 0 1.0082 1 26880 26880 0 0 1 18928 2582 12167 12195 21580 21580 0.07004686676168603 LWAKPGFV 8 Unmodified _LWAKPGFV_ 0 0 0 REV__ENST00000487316.1_1_2:25015871-25015946:-|nuORF REV__ENST00000487316.1_1_2:25015871-25015946:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 306.5136413574219 3 306.512968 916.517074 1.9816 0.0006074 -0.075834 -2.3244E-05 1.9058 0.00058415 306.51291906064324 14.724 0.231 15.03 14.932 15.163 0.3069 30 18 2 0 0 0 0.7471 1 6686 6686 0.45834 0 1 170770 + 18929 16766 12168 12196 21581 21581 0.05547597973668417 LWAPRPFNL 9 Unmodified _LWAPRPFNL_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.3181762695312 2 557.313826 1112.6131 2.8754 0.0016025 0.12573 7.0069E-05 3.0011 0.0016725 557.314103503777 73.953 0.21278 73.953 73.902 74.115 0 31 21 2 0 0 0 0.015468 1 36114 36114 74.423 15.744 1 2248600 18930 4968 12169 12197 21582 21582 0.061297458137460126 LWAPRPFNL 9 Unmodified _LWAPRPFNL_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.4117431640625 2 557.313826 1112.6131 2.8136 0.001568 0.66068 0.00036821 3.4742 0.0019362 557.3142992619896 72.968 0.18501 73.667 73.551 73.736 0.69881 20 17 2 0 0 0 0.023109 1 35137 35137 64.236 24.279 1 2255900 18931 4968 12169 12197 21583 21583 0.061297458137460126 LWAPRPFNL 9 Unmodified _LWAPRPFNL_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.3145141601562 2 557.313826 1112.6131 3.259 0.0018163 -1.2087 -0.00067363 2.0503 0.0011426 557.8145213338414 73.786 0.19014 74.045 73.899 74.089 0.25876 28 19 2 0 0 0 0.086747 1 33874 33874 36.044 9.1605 1 1366400 18932 4968 12169 12197 21584 21584 0.061297458137460126 LWAWILLL 8 Unmodified _LWAWILLL_ 0 0 0 ENSG00000022355|ENST00000393943|GABRA1 ENSG00000022355|ENST00000393943|GABRA1 ENSG00000022355|ENST00000393943|GABRA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.7789916992188 2 514.320589 1026.62662 NaN NaN NaN NaN NaN NaN NaN 30.224 1 30.224 29.724 30.724 0 0 0 0 0.99035 1 13652 13652 2.8892 0 1 18933 463 12170 12198 21585 21585 0.11437603593003587 LWDHNQVL 8 Unmodified _LWDHNQVL_ 0 0 0 REV__ENST00000435844.3_2_20:18548090-18550131:+|nuORF REV__ENST00000435844.3_2_20:18548090-18550131:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.6949462890625 2 512.764166 1023.51378 2.9591 0.0015173 -0.36145 -0.00018534 2.5976 0.001332 512.7642560560734 50.865 0.3008 51.682 51.499 51.8 0.81738 25 15 2 0 0 0 0.39589 1 23195 23195 28.487 0 1 472790 + 18934 16301 12171 12199 21586 21586 0.0029630312899371347 LWDLYTRYRFF 11 Unmodified _LWDLYTRYRFF_ 0 0 0 REV__nc|ENSG00000125505|Q96N66-3|MBOAT7 REV__nc|ENSG00000125505|Q96N66-3|MBOAT7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 790.4088134765625 2 790.406444 1578.79833 NaN NaN NaN NaN NaN NaN NaN 104.07 1 104.39 103.89 104.89 0.31863 0 0 0 1.0082 1 48090 48090 0.30703 0.30703 1 + 18935 11684 12172 12200 21587 21587 0.03208683822663261 LWESEPSL 8 Unmodified _LWESEPSL_ 0 0 0 REV__ENST00000579014.5_1_18:6942080-7042306:-|nuORF REV__ENST00000579014.5_1_18:6942080-7042306:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.7389831542969 2 480.737283 959.460012 3.081 0.0014811 0.061136 2.939E-05 3.1421 0.0015105 480.737270747917 50.35 0.24002 50.35 50.199 50.439 0 12 10 2 0 0 0 0.70799 1 23077 23077 5.2307 0 1 201600 + 18936 10908 12173 12201 21588 21588 -0.021339140933832823 LWESEPSL 8 Unmodified _LWESEPSL_ 0 0 0 REV__ENST00000579014.5_1_18:6942080-7042306:-|nuORF REV__ENST00000579014.5_1_18:6942080-7042306:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 480.737283 959.460012 3.1706 0.0015242 -0.087571 -4.2099E-05 3.0831 0.0014821 480.7371795857171 49.584 0.22894 50.241 50.111 50.34 0.65735 -0.054197 -8.8108E-05 NaN 5.2307 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 301810 + 18937 10908 12173 12201 -0.021339140933832823 LWESSVGPAL 10 Unmodified _LWESSVGPAL_ 0 0 0 chr1:65420143-65425303|130|14.65|0.56|4.7|+|2|None,LEPROT|1 chr1:65420143-65425303|130|14.65|0.56|4.7|+|2|None,LEPROT|1 chr1:65420143-65425303|130|14.65|0.56|4.7|+|2|None,LEPROT|1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.2828979492188 2 529.779482 1057.54441 2.5237 0.001337 1.0702 0.00056699 3.5939 0.001904 529.7794774591569 51.558 0.1787 52.376 52.274 52.453 0.81738 14 9 2 0 0 0 0.12452 1 23518 23518 15.847 5.7733 1 335380 18938 127 12174 12202 21589 21589 0.017940367233904908 LWFCYDKCFWN 11 Unmodified _LWFCYDKCFWN_ 0 0 0 ENST00000399782.5_1_22:18178956-18185051:+|nuORF ENST00000399782.5_1_22:18178956-18185051:+|nuORF ENST00000399782.5_1_22:18178956-18185051:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 762.8223266601562 2 762.825583 1523.63661 NaN NaN NaN NaN NaN NaN NaN 52.678 1 53.34 52.84 53.84 0.66198 0 0 0 1.008 1 24085 24085 0.35063 0.043601 1 18939 7605 12175 12203 21590 21590 -0.10425944526264175 LWFWWLEYYYT 11 Unmodified _LWFWWLEYYYT_ 0 0 0 REV__ENST00000473467.5_1_2:74685729-74687181:+|nuORF REV__ENST00000473467.5_1_2:74685729-74687181:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 835.3902587890625 2 835.389928 1668.7653 NaN NaN NaN NaN NaN NaN NaN 74.989 1 75.653 75.153 76.153 0.6644 0 0 0 1.0082 1 34536 34536 0 0 1 + 18940 14603 12176 12204 21591 21591 -0.042329430199970375 LWHKWRRLL 9 Unmodified _LWHKWRRLL_ 0 0 0 REV__nc|ENSG00000170949|Q9HCG1-2|ZNF160 REV__nc|ENSG00000170949|Q9HCG1-2|ZNF160 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 436.6015930175781 3 436.59977 1306.77748 3.7207 0.0016244 0.6325 0.00027615 4.3532 0.0019006 436.5999403592525 109.58 1.6764 109.89 108.63 110.3 0.31015 121 70 3 0 0 0 1.2289 2 50100 50100;50366 0.26902 0.14616 1 204310 + 18941 18043 12177 12205 21592;21593 21592 0.1363618302436862 LWHTLLSH 8 Unmodified _LWHTLLSH_ 0 0 0 REV__Tigger3b_dup1519|chr4:22823170-22824367:+|1.7655105813976355|0.1032405959314167|4.1|519.0|31|2|sense REV__Tigger3b_dup1519|chr4:22823170-22824367:+|1.7655105813976355|0.1032405959314167|4.1|519.0|31|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.1778869628906 3 336.187143 1005.5396 NaN NaN NaN NaN NaN NaN NaN 82.422 1 83.082 82.582 83.582 0.66019 0 0 0 0.99035 1 37976 37976 1.8442 0 1 + 18942 18235 12178 12206 21594 21594 0.03705197371300528 LWKCFAQY 8 Unmodified _LWKCFAQY_ 0 0 0 REV__nc|ENSG00000096696|P15924-2|DSP REV__nc|ENSG00000096696|P15924-2|DSP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.7626953125 2 529.760038 1057.50552 3.201 0.0016957 0.53144 0.00028153 3.7324 0.0019773 529.7601223820799 37.466 0.78426 38.096 37.889 38.673 0.62999 32 19 2 0 0 0 0.65723 1 17192 17192 9.3474 2.0582 1 585530 + 18943 10139 12179 12207 21595 21595 -0.02092967111980215 LWKGKMKPPA 10 Unmodified _LWKGKMKPPA_ 0 0 0 ENSG00000160994|ENST00000292574|CCDC105 ENSG00000160994|ENST00000292574|CCDC105 ENSG00000160994|ENST00000292574|CCDC105 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.3397216796875 2 578.338987 1154.66342 NaN NaN NaN NaN NaN NaN NaN 60.965 1 61.627 61.127 62.127 0.66261 0 0 0 1.0003 1 27914 27914 1.4819 0.15237 1 18944 4088 12180 12208 21596 21596 0.09227532147247075 LWKGVALLR 9 Unmodified _LWKGVALLR_ 0 0 0 REV__ENSG00000179163|ENST00000374479|FUCA1 REV__ENSG00000179163|ENST00000374479|FUCA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.5640869140625 3 352.562321 1054.66514 NaN NaN NaN NaN NaN NaN NaN 57.202 1 57.467 56.967 57.967 0.26444 0 0 0 0.90431 1 26181 26181 2.4985 0.84587 1 + 18945 13788 12181 12209 21597 21597 0.13998909227507284 LWKLLKVVK 9 Unmodified _LWKLLKVVK_ 0 0 0 ENSG00000170430|ENST00000651593|MGMT ENSG00000170430|ENST00000651593|MGMT ENSG00000170430|ENST00000651593|MGMT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.8898315429688 2 563.88917 1125.76379 NaN NaN NaN NaN NaN NaN NaN 103.79 1 103.84 103.34 104.34 0.052994 0 0 0 0.91452 1 56239 56239 0 0 1 18946 4748 12182 12210 21598 21598 0.20593512472578368 LWKLPHRRY 9 Unmodified _LWKLPHRRY_ 0 0 0 REV__nc|ENSG00000114902|Q9Y6A9|SPCS1 REV__nc|ENSG00000114902|Q9Y6A9|SPCS1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 317.8742980957031 4 317.939825 1267.73019 1.9735 0.00062744 0.64575 0.00020531 2.6192 0.00083275 317.9398642951317 53.669 0.76014 54.334 53.731 54.491 0.6644 51 36 2 0 0 0 0.11393 1 24595 24595 1.0715 0 1 567410 + 18947 11337 12183 12211 21599 21599 0.10703903753369559 LWLEETLP 8 Unmodified _LWLEETLP_ 0 0 0 REV__nc|ENSG00000075856|Q15020-4|SART3 REV__nc|ENSG00000075856|Q15020-4|SART3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.77362060546875 2 500.771126 999.527698 3.6864 0.0018461 0.17063 8.5448E-05 3.8571 0.0019315 500.77141025971815 31.608 0.46321 31.863 31.541 32.004 0.25452 75 35 3 0 0 0 0.7441 1 14305 14305 2.3027 0 1 548270 + 18948 10536 12184 12212 21600 21600 0.027915358374457355 LWLIRAPRLRP 11 Unmodified _LWLIRAPRLRP_ 0 0 0 REV__ENST00000457390.1_1:148932843-148933312:+|nuORF REV__ENST00000457390.1_1:148932843-148933312:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 348.4770202636719 4 348.475304 1389.87211 2.311 0.00080531 1.5942 0.00055554 3.9052 0.0013609 348.7261179857649 40.402 0.24206 41.203 41.083 41.325 0.80014 38 14 4 0 0 0 0.91345 1 18337 18337 0.45452 0.29519 1 1973900 + 18949 16461 12185 12213 21601 21601 0.1927669677565973 LWLIRAPRLRP 11 Unmodified _LWLIRAPRLRP_ 0 0 0 REV__ENST00000457390.1_1:148932843-148933312:+|nuORF REV__ENST00000457390.1_1:148932843-148933312:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 348.47760009765625 4 348.475304 1389.87211 2.311 0.00080531 1.5942 0.00055554 3.9052 0.0013609 348.7261179857649 40.402 0.24206 41.203 41.083 41.325 0.80014 38 14 4 0 0 0 0.13295 1 18278 18278 0.45452 0.31463 1 1973900 + 18950 16461 12185 12213 21602 21602 0.1927669677565973 LWLIRAPRLRP 11 Unmodified _LWLIRAPRLRP_ 0 0 0 REV__ENST00000457390.1_1:148932843-148933312:+|nuORF REV__ENST00000457390.1_1:148932843-148933312:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 348.475304 1389.87211 2.4782 0.00086358 2.5559 0.00089067 5.0341 0.0017543 348.47626807721736 40.989 0.27681 40.989 40.862 41.139 0 -0.10684 0.00034203 NaN 0.45452 47 20 3 NaN NaN NaN NaN 0 NaN NaN 0 2669300 + 18951 16461 12185 12213 0.1927669677565973 LWLPAKRG 8 Unmodified _LWLPAKRG_ 0 0 0 REV__nc|ENSG00000185920|Q13635-3|PTCH1 REV__nc|ENSG00000185920|Q13635-3|PTCH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 314.1966552734375 3 314.19575 939.565421 NaN NaN NaN NaN NaN NaN NaN 34.942 1 35.565 35.065 36.065 0.62294 0 0 0 0.99035 1 16012 16012 1.8442 0.19162 1 + 18952 14034 12186 12214 21603 21603 0.09322091613557859 LWLRQALRLH 10 Unmodified _LWLRQALRLH_ 0 0 0 ENST00000270357.9_2_2:241508179-241513275:+|nuORF ENST00000270357.9_2_2:241508179-241513275:+|nuORF ENST00000270357.9_2_2:241508179-241513275:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 653.4003295898438 2 653.398756 1304.78296 NaN NaN NaN NaN NaN NaN NaN 69.691 1 69.945 69.445 70.445 0.25443 0 0 0 1.0015 1 31913 31913 0.45834 0 1 18953 6649 12187 12215 21604 21604 0.1427586181616789 LWLSLPVRLP 10 Unmodified _LWLSLPVRLP_ 0 0 0 ENST00000400968.6_1_1:193028645-193038169:+|nuORF;ENST00000432079.5_1_1:193028645-193044961:+|nuORF ENST00000400968.6_1_1:193028645-193038169:+|nuORF ENST00000400968.6_1_1:193028645-193038169:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.5867614746094 3 398.585015 1192.73321 3.0814 0.0012282 0.3357 0.00013381 3.4171 0.001362 398.58515388496244 44.683 0.71341 45.333 44.828 45.541 0.64998 61 29 3 0 0 0 0.93584 1 20547 20547 1.7423 1.7423 1 2474200 18954 7612 12188 12216 21605 21605 0.14455734087528072 LWLVRLRP 8 Unmodified _LWLVRLRP_ 0 0 0 REV__ENST00000462742.1_1_21:45751724-45754149:-|nuORF REV__ENST00000462742.1_1_21:45751724-45754149:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.5641784667969 3 351.562433 1051.66547 2.7205 0.00095644 1.7331 0.00060928 4.4536 0.0015657 351.56325718640784 46.656 0.36029 46.921 46.62 46.98 0.26561 21 12 2 0 0 0 0.7471 1 21302 21302 1.6526 0 1 2152700 + 18955 12869 12189 12217 21606 21606 0.14170328947352573 LWLVRLRP 8 Unmodified _LWLVRLRP_ 0 0 0 REV__ENST00000462742.1_1_21:45751724-45754149:-|nuORF REV__ENST00000462742.1_1_21:45751724-45754149:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 351.562433 1051.66547 2.3323 0.00081996 2.4053 0.00084562 4.7376 0.0016656 351.56329526866574 46.817 0.34628 46.817 46.62 46.967 0 -0.020634 0.0002762 NaN 1.6526 19 11 2 NaN NaN NaN NaN 0 NaN NaN 0 481750 + 18956 12869 12189 12217 0.14170328947352573 LWLVRLRP 8 Unmodified _LWLVRLRP_ 0 0 0 REV__ENST00000462742.1_1_21:45751724-45754149:-|nuORF REV__ENST00000462742.1_1_21:45751724-45754149:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 351.562433 1051.66547 2.3012 0.00080901 2.1804 0.00076654 4.4815 0.0015755 351.5633293564887 46.097 0.24992 46.926 46.868 47.118 0.82915 0.088505 3.8959E-05 NaN 1.6526 18 10 2 NaN NaN NaN NaN 0 NaN NaN 0 376430 + 18957 12869 12189 12217 0.14170328947352573 LWLVRLRP 8 Unmodified _LWLVRLRP_ 0 0 0 REV__ENST00000462742.1_1_21:45751724-45754149:-|nuORF REV__ENST00000462742.1_1_21:45751724-45754149:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 351.562433 1051.66547 2.765 0.00097206 2.221 0.00078082 4.9859 0.0017529 351.5632323211783 46.034 0.38698 46.686 46.412 46.799 0.65104 -0.15187 8.1798E-05 NaN 1.6526 21 11 2 NaN NaN NaN NaN 0 NaN NaN 0 757810 + 18958 12869 12189 12217 0.14170328947352573 LWLVYRPSI 9 Unmodified _LWLVYRPSI_ 0 0 0 REV__ENST00000420783.7_1_3:49051272-49051362:+|nuORF REV__ENST00000420783.7_1_3:49051272-49051362:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 573.84033203125 2 573.837134 1145.65972 NaN NaN NaN NaN NaN NaN NaN 42.573 1 42.843 42.343 43.343 0.27021 0 0 0 0.42757 1 19414 19414 21.747 4.6338 1 + 18959 16172 12190 12218 21607 21607 0.09271185645025071 LWMWWRRNRRG 11 Unmodified _LWMWWRRNRRG_ 0 0 0 nc|ENSG00000158220|A0FGR9-2|ESYT3;ENST00000486831.5_1_3:138153640-138188991:+|nuORF;ENSG00000158220|ENST00000389567|ESYT3 nc|ENSG00000158220|A0FGR9-2|ESYT3 nc|ENSG00000158220|A0FGR9-2|ESYT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.4080200195312 3 539.621239 1615.84189 NaN NaN NaN NaN NaN NaN NaN 93.845 1 93.845 93.345 94.345 0 0 0 0 1.0082 1 50190 50190 0 0 1 18960 3979 12191 12219 21608 21608 0.05860014838845018 LWMWWRRNRRG 11 Unmodified _LWMWWRRNRRG_ 0 0 0 nc|ENSG00000158220|A0FGR9-2|ESYT3;ENST00000486831.5_1_3:138153640-138188991:+|nuORF;ENSG00000158220|ENST00000389567|ESYT3 nc|ENSG00000158220|A0FGR9-2|ESYT3 nc|ENSG00000158220|A0FGR9-2|ESYT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.5852661132812 3 539.621239 1615.84189 NaN NaN NaN NaN NaN NaN NaN 94.552 1 94.638 94.138 95.138 0.086212 0 0 0 1.0082 1 49774 49774 0 0 1 18961 3979 12191 12219 21609 21609 0.05860014838845018 LWPILIKLNKI 11 Unmodified _LWPILIKLNKI_ 0 0 0 REV__nc|ENSG00000198513|Q8WXF7-2|ATL1 REV__nc|ENSG00000198513|Q8WXF7-2|ATL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 338.2043762207031 4 338.477246 1349.87988 2.3878 0.00080821 0.84368 0.00028557 3.2315 0.0010938 338.47744760187044 40.001 0.57158 40.001 39.653 40.225 0 49 24 3 0 0 0 0.13295 1 18004 18004 0.094841 0 1 318920 + 18962 14338 12192 12220 21610 21610 0.2189341125260853 LWPILIKLNKI 11 Unmodified _LWPILIKLNKI_ 0 0 0 REV__nc|ENSG00000198513|Q8WXF7-2|ATL1 REV__nc|ENSG00000198513|Q8WXF7-2|ATL1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 338.477246 1349.87988 2.3393 0.00079179 0.30162 0.00010209 2.6409 0.00089389 338.4772303719951 38.889 0.47391 39.686 39.418 39.891 0.79762 -0.11351 -0.00082038 NaN 0.094841 35 22 2 NaN NaN NaN NaN 0 NaN NaN 0 216710 + 18963 14338 12192 12220 0.2189341125260853 LWPILIKLNKI 11 Unmodified _LWPILIKLNKI_ 0 0 0 REV__nc|ENSG00000198513|Q8WXF7-2|ATL1 REV__nc|ENSG00000198513|Q8WXF7-2|ATL1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 338.477246 1349.87988 2.4132 0.0008168 1.3323 0.00045097 3.7455 0.0012678 338.4775855096654 39.204 0.47007 39.841 39.559 40.029 0.63778 0.041621 0.00057512 NaN 0.094841 29 16 3 NaN NaN NaN NaN 0 NaN NaN 0 452900 + 18964 14338 12192 12220 0.2189341125260853 LWPLGRLVVI 10 Unmodified _LWPLGRLVVI_ 0 0 0 ENST00000332598.6_1_5:177022592-177022790:+|nuORF ENST00000332598.6_1_5:177022592-177022790:+|nuORF ENST00000332598.6_1_5:177022592-177022790:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1165.7486572265625 1 1165.74558 1164.7383 3.1972 0.0037271 1.2128 0.0014138 4.41 0.0051409 1165.7469540091197 39.17 0.35855 39.17 39.021 39.379 0 35 13 3 0 0 0 0.94364 1 17865 17865 0 0 1 3593300 18965 7004 12193 12221 21611 21611 0.16252037950130216 LWPVLITVRP 10 Unmodified _LWPVLITVRP_ 0 0 0 REV__ENST00000540839.7_3_16:67563547-67572402:+|nuORF REV__ENST00000540839.7_3_16:67563547-67572402:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 398.5865173339844 3 398.585015 1192.73321 2.4643 0.00098222 0.75724 0.00030182 3.2215 0.001284 398.5854210515705 46.353 0.34666 46.353 46.132 46.479 0 46 18 3 0 0 0 0.85597 1 21149 21149 5.7834 3.5007 1 3183000 + 18966 17214 12194 12222 21612 21612 0.14455734087528072 LWPVLITVRP 10 Unmodified _LWPVLITVRP_ 0 0 0 REV__ENST00000540839.7_3_16:67563547-67572402:+|nuORF REV__ENST00000540839.7_3_16:67563547-67572402:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 398.585015 1192.73321 2.5767 0.001027 0.98005 0.00039063 3.5567 0.0014177 398.58551930483077 45.301 0.40623 46.127 45.995 46.401 0.82621 -0.1128 0.00013039 NaN 5.7834 53 24 3 NaN NaN NaN NaN 0 NaN NaN 0 1139100 + 18967 17214 12194 12222 0.14455734087528072 LWQRRRWFVLL 11 Unmodified _LWQRRRWFVLL_ 0 0 0 REV__ENST00000595444.1_2_19:17403433-17403508:+|nuORF REV__ENST00000595444.1_2_19:17403433-17403508:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.9795532226562 3 524.98065 1571.92012 NaN NaN NaN NaN NaN NaN NaN 52.929 1 53.593 53.093 54.093 0.6644 0 0 0 1.0079 1 24205 24205 0.50596 0.41111 1 + 18968 17609 12195 12223 21613 21613 0.15703770695722596 LWQRTVPL 8 Unmodified _LWQRTVPL_ 0 0 0 nc|ENSG00000134987|Q8NI36|WDR36;ENST00000505303.5_1_5:110428043-110447004:+|nuORF;ENST00000515784.1_1_5:110428046-110430680:+|nuORF nc|ENSG00000134987|Q8NI36|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.2042541503906 3 338.202793 1011.58655 2.406 0.0008137 1.1195 0.00037861 3.5254 0.0011923 338.20313289027894 39.392 0.50654 39.659 39.347 39.853 0.26696 53 19 3 0 0 0 0.70717 1 17882 17882 5.2969 0.39987 1 854630 18969 9654 12196 12224 21614 21614 0.08122056922411502 LWQRTVPL 8 Unmodified _LWQRTVPL_ 0 0 0 nc|ENSG00000134987|Q8NI36|WDR36;ENST00000505303.5_1_5:110428043-110447004:+|nuORF;ENST00000515784.1_1_5:110428046-110430680:+|nuORF nc|ENSG00000134987|Q8NI36|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.2038269042969 3 338.202793 1011.58655 2.5737 0.00087045 1.4881 0.00050327 4.0618 0.0013737 338.20330882525565 39.955 0.43807 40.596 40.428 40.866 0.64136 28 18 2 0 0 0 0.66465 1 18287 18287 8.7454 2.5396 1 1070000 18970 9654 12196 12224 21615 21615 0.08122056922411502 LWQRTVPL 8 Unmodified _LWQRTVPL_ 0 0 0 nc|ENSG00000134987|Q8NI36|WDR36;ENST00000505303.5_1_5:110428043-110447004:+|nuORF;ENST00000515784.1_1_5:110428046-110430680:+|nuORF nc|ENSG00000134987|Q8NI36|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 338.202793 1011.58655 2.3614 0.00079862 1.368 0.00046265 3.7293 0.0012613 338.203151453664 40.733 0.20959 40.733 40.669 40.879 0 0.1006 -0.00014138 NaN 8.7454 17 10 3 NaN NaN NaN NaN 0 NaN NaN 0 1568500 18971 9654 12196 12224 0.08122056922411502 LWQRTVPL 8 Unmodified _LWQRTVPL_ 0 0 0 nc|ENSG00000134987|Q8NI36|WDR36;ENST00000505303.5_1_5:110428043-110447004:+|nuORF;ENST00000515784.1_1_5:110428046-110430680:+|nuORF nc|ENSG00000134987|Q8NI36|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 338.202793 1011.58655 2.3191 0.00078434 1.5212 0.00051448 3.8403 0.0012988 338.2032925048564 39.621 0.5632 40.421 40.256 40.819 0.80014 -0.21144 1.41E-05 NaN 8.7454 59 28 3 NaN NaN NaN NaN 0 NaN NaN 0 759460 18972 9654 12196 12224 0.08122056922411502 LWQRTVPL 8 Unmodified _LWQRTVPL_ 0 0 0 nc|ENSG00000134987|Q8NI36|WDR36;ENST00000505303.5_1_5:110428043-110447004:+|nuORF;ENST00000515784.1_1_5:110428046-110430680:+|nuORF nc|ENSG00000134987|Q8NI36|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 338.202793 1011.58655 2.6073 0.00088178 1.59 0.00053773 4.1972 0.0014195 338.20331977306 40.511 0.46903 40.78 40.551 41.02 0.26904 0.14737 8.3862E-05 NaN 8.7454 39 19 3 NaN NaN NaN NaN 0 NaN NaN 0 1909500 18973 9654 12196 12224 0.08122056922411502 LWRGWAPTVLR 11 Unmodified _LWRGWAPTVLR_ 0 0 0 ENST00000429674.5_1_7:87471003-87485667:-|nuORF;ENSG00000075303|ENST00000341119|SLC25A40 ENST00000429674.5_1_7:87471003-87485667:-|nuORF ENST00000429674.5_1_7:87471003-87485667:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.4496154785156 4 339.44902 1353.76697 1.7867 0.00060649 0.00074371 2.5245E-07 1.7874 0.00060674 339.4488564681965 67.005 0.21913 67.005 66.916 67.135 0 32 28 2 0 0 0 0.91137 1 32095 32095 1.1098 0 1 1122400 18974 827 12197 12225 21616 21616 0.10424155579244143 LWRGWAPTVLR 11 Unmodified _LWRGWAPTVLR_ 0 0 0 ENST00000429674.5_1_7:87471003-87485667:-|nuORF;ENSG00000075303|ENST00000341119|SLC25A40 ENST00000429674.5_1_7:87471003-87485667:-|nuORF ENST00000429674.5_1_7:87471003-87485667:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.44964599609375 4 339.44902 1353.76697 2.4448 0.00082988 0.36798 0.00012491 2.8128 0.00095479 339.6998674196163 65.683 0.51831 66.339 66.191 66.709 0.65672 86 30 4 0 0 0 0.91137 1 30098 30098 1.1098 0.41209 1 2319800 18975 827 12197 12225 21617 21617 0.10424155579244143 LWRHFRKVFIQ 11 Unmodified _LWRHFRKVFIQ_ 0 0 0 ENST00000563230.1_1_16:79123974-79135149:+|nuORF ENST00000563230.1_1_16:79123974-79135149:+|nuORF ENST00000563230.1_1_16:79123974-79135149:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.6356506347656 3 510.63325 1528.87792 4.1783 0.0021336 1.5839 0.0008088 5.7622 0.0029424 510.96817389446545 99.378 0.27402 99.686 99.538 99.812 0.30835 41 16 3 0 0 0 0.91391 1 45878 45878 0.08335 0.08335 1 3561000 18976 9005 12198 12226 21618 21618 0.13463795287339053 LWRHWRRETYP 11 Unmodified _LWRHWRRETYP_ 0 0 0 PLA2G4F|p.A565Cfs*6|1|0.31|ENSG00000168907|chr15:42145662-42145663|-/A|frameshift_variant;ENSG00000168907|ENST00000397272|PLA2G4F;nc|ENSG00000168907|Q68DD2-3|PLA2G4F;nc|ENSG00000168907|Q68DD2-2|PLA2G4F PLA2G4F|p.A565Cfs*6|1|0.31|ENSG00000168907|chr15:42145662-42145663|-/A|frameshift_variant PLA2G4F|p.A565Cfs*6|1|0.31|ENSG00000168907|chr15:42145662-42145663|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 800.418701171875 2 800.418208 1598.82186 NaN NaN NaN NaN NaN NaN NaN 89.874 1 89.938 89.438 90.438 0.064346 0 0 0 1.0082 1 46161 46161 0 0 1 18977 4660 12199 12227 21619 21619 0.04640542379911494 LWRRPRRRPRR 11 Unmodified _LWRRPRRRPRR_ 0 0 0 REV__ENST00000251102.12_1_16:57965650-57974178:-|nuORF REV__ENST00000251102.12_1_16:57965650-57974178:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 802.9999389648438 2 803.0009 1603.98725 NaN NaN NaN NaN NaN NaN NaN 91.527 1 91.527 91.027 92.027 0 0 0 0 1.0082 1 48376 48376 0 0 1 + 18978 14907 12200 12228 21620 21620 0.20941238750015145 LWRRRWSFFYC 11 Unmodified _LWRRRWSFFYC_ 0 0 0 ENST00000374500.9_1_6:33385885-33386053:-|nuORF ENST00000374500.9_1_6:33385885-33386053:-|nuORF ENST00000374500.9_1_6:33385885-33386053:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.435791015625 3 540.606595 1618.79796 NaN NaN NaN NaN NaN NaN NaN 63.817 1 63.817 63.317 64.317 0 0 0 0 1.008 1 30091 30091 0.08335 0.08335 1 18979 7381 12201 12229 21621 21621 0.013309856218711502 LWRWPSIPRL 10 Unmodified _LWRWPSIPRL_ 0 0 0 REV__TMEM19|p.A181Efs*12|1|0.24|ENSG00000139291|chr12:71697435-71697447|CTGGCCTGCTCTG/-|frameshift_variant REV__TMEM19|p.A181Efs*12|1|0.24|ENSG00000139291|chr12:71697435-71697447|CTGGCCTGCTCTG/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 441.9286804199219 3 441.927663 1322.76116 2.8335 0.0012522 -0.78048 -0.00034491 2.0531 0.00090731 441.9273445128899 48.982 0.23095 49.809 49.662 49.893 0.82705 22 12 2 0 0 0 0.93726 1 22302 22302 1.4551 0.24029 1 539830 + 18980 12210 12202 12230 21622 21622 0.11269057067602262 LWRWPSIPRL 10 Unmodified _LWRWPSIPRL_ 0 0 0 REV__TMEM19|p.A181Efs*12|1|0.24|ENSG00000139291|chr12:71697435-71697447|CTGGCCTGCTCTG/-|frameshift_variant REV__TMEM19|p.A181Efs*12|1|0.24|ENSG00000139291|chr12:71697435-71697447|CTGGCCTGCTCTG/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.9286804199219 3 441.927663 1322.76116 2.7908 0.0012333 -0.10663 -4.7124E-05 2.6841 0.0011862 442.26201367374085 50.43 0.28642 50.691 50.529 50.815 0.26146 26 14 2 0 0 0 0.94134 1 23043 23043 0.62683 0 1 1018700 + 18981 12210 12202 12230 21623 21623 0.11269057067602262 LWRWPSIPRL 10 Unmodified _LWRWPSIPRL_ 0 0 0 REV__TMEM19|p.A181Efs*12|1|0.24|ENSG00000139291|chr12:71697435-71697447|CTGGCCTGCTCTG/-|frameshift_variant REV__TMEM19|p.A181Efs*12|1|0.24|ENSG00000139291|chr12:71697435-71697447|CTGGCCTGCTCTG/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.9290771484375 3 441.927663 1322.76116 3.227 0.0014261 -1.2334 -0.00054507 1.9936 0.00088104 442.2609884575533 48.626 0.49107 49.281 49.173 49.664 0.65524 23 17 2 0 0 0 0.93584 1 22261 22261 1.7423 0 1 848920 + 18982 12210 12202 12230 21624 21624 0.11269057067602262 LWRWPSIPRL 10 Unmodified _LWRWPSIPRL_ 0 0 0 REV__TMEM19|p.A181Efs*12|1|0.24|ENSG00000139291|chr12:71697435-71697447|CTGGCCTGCTCTG/-|frameshift_variant REV__TMEM19|p.A181Efs*12|1|0.24|ENSG00000139291|chr12:71697435-71697447|CTGGCCTGCTCTG/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.9290771484375 3 441.927663 1322.76116 3.1314 0.0013839 -0.78917 -0.00034876 2.3422 0.0010351 441.92749365265956 49.455 0.4395 50.11 50.01 50.449 0.65525 22 16 3 0 0 0 0.93584 1 22724 22724 1.7423 0.41263 1 770620 + 18983 12210 12202 12230 21625 21625 0.11269057067602262 LWRWVRPRHE 10 Unmodified _LWRWVRPRHE_ 0 0 0 REV__nc|ENSG00000095383|Q9BYX2-6|TBC1D2 REV__nc|ENSG00000095383|Q9BYX2-6|TBC1D2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 717.8970336914062 2 717.896912 1433.77927 NaN NaN NaN NaN NaN NaN NaN 103.51 1 103.51 103.01 104.01 0 0 0 0 1.0003 1 57042 57042 1.4819 0.51963 1 + 18984 10762 12203 12231 21626 21626 0.0797319204230007 LWSFRRRRRKK 11 Unmodified _LWSFRRRRRKK_ 0 0 0 ENST00000331161.8_1_10:25304892-25304985:-|nuORF ENST00000331161.8_1_10:25304892-25304985:-|nuORF ENST00000331161.8_1_10:25304892-25304985:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 794.9896850585938 2 794.992209 1587.96987 NaN NaN NaN NaN NaN NaN NaN 61.614 1 61.867 61.367 62.367 0.25245 0 0 0 1.0082 1 28216 28216 0 0 1 18985 6989 12204 12232 21627 21627 0.19939898424377134 LWVSRLLRHRK 11 Unmodified _LWVSRLLRHRK_ 0 0 0 SLC45A3|p.P435Lfs*107|1|0.14|ENSG00000158715|chr1:205659592-205659592|G/-|frameshift_variant;ENSG00000158715|ENST00000367145|SLC45A3 SLC45A3|p.P435Lfs*107|1|0.14|ENSG00000158715|chr1:205659592-205659592|G/-|frameshift_variant SLC45A3|p.P435Lfs*107|1|0.14|ENSG00000158715|chr1:205659592-205659592|G/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.2393798828125 4 366.732206 1462.89972 2.5507 0.00093542 1.6209 0.00059443 4.1716 0.0015299 366.9838883235073 43.698 0.40403 43.967 43.627 44.031 0.26939 22 14 2 0 0 0 0.13295 1 19837 19837 0.40827 0.24894 1 1516300 18986 3997 12205 12233 21628 21628 0.18678600035900672 LWWEKRQHYRE 11 Unmodified _LWWEKRQHYRE_ 0 0 0 ENST00000411999.1_1_2:197893450-197893558:-|nuORF ENST00000411999.1_1_2:197893450-197893558:-|nuORF ENST00000411999.1_1_2:197893450-197893558:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 815.9163818359375 2 815.915498 1629.81644 NaN NaN NaN NaN NaN NaN NaN 63.167 1 63.826 63.326 64.326 0.65808 0 0 0 1.0082 1 28945 28945 0 0 1 18987 7678 12206 12234 21629 21629 0.026728187973958484 LWWRRRRHLKR 11 Unmodified _LWWRRRRHLKR_ 0 0 0 REV__ENST00000297293.5_1_7:97832983-97833265:+|nuORF REV__ENST00000297293.5_1_7:97832983-97833265:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 555.0055541992188 3 555.006193 1661.99675 NaN NaN NaN NaN NaN NaN NaN 70.179 1 70.882 70.382 71.382 0.70302 0 0 0 1.0082 1 33617 33617 0 0 1 + 18988 15164 12207 12235 21630 21630 0.19223007035566297 LWWRRRRHLKR 11 Unmodified _LWWRRRRHLKR_ 0 0 0 REV__ENST00000297293.5_1_7:97832983-97833265:+|nuORF REV__ENST00000297293.5_1_7:97832983-97833265:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 832.0048217773438 2 832.005651 1661.99675 NaN NaN NaN NaN NaN NaN NaN 42.448 1 43.095 42.595 43.595 0.64693 0 0 0 1.0082 1 19444 19444 0 0 1 + 18989 15164 12207 12235 21631 21631 0.19223007035566297 LWYKKCHRRWL 11 Unmodified _LWYKKCHRRWL_ 0 0 0 REV__ENSG00000110429|ENST00000265651|FBXO3 REV__ENSG00000110429|ENST00000265651|FBXO3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 794.939697265625 2 794.937722 1587.86089 NaN NaN NaN NaN NaN NaN NaN 79.731 1 79.731 79.231 80.231 0 0 0 0 1.0059 1 39434 39434 2.9952 1.6657 1 + 18990 11204 12208 12236 21632 21632 0.0904755140988982 LYADVGGKQF 10 Unmodified _LYADVGGKQF_ 0 0 0 ENST00000460616.5_1_X:153061851-153063636:+|nuORF;ENST00000485612.5_1_X:153061851-153063885:+|nuORF;ENSG00000180879|ENST00000370086|SSR4 ENST00000460616.5_1_X:153061851-153063636:+|nuORF ENST00000460616.5_1_X:153061851-153063636:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.2869873046875 2 549.284931 1096.55531 NaN NaN NaN NaN NaN NaN NaN 43.396 1 43.396 42.896 43.896 0 0 0 0 2.5644000000000003E-25 1 19778 19778 165.72 110.95 1 18991 5266 12209 12237 21633 21633 0.010894390976773138 LYADVGGKQF 10 Unmodified _LYADVGGKQF_ 0 0 0 ENST00000460616.5_1_X:153061851-153063636:+|nuORF;ENST00000485612.5_1_X:153061851-153063885:+|nuORF;ENSG00000180879|ENST00000370086|SSR4 ENST00000460616.5_1_X:153061851-153063636:+|nuORF ENST00000460616.5_1_X:153061851-153063636:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.287109375 2 549.284931 1096.55531 NaN NaN NaN NaN NaN NaN NaN 42.335 1 43.144 42.644 43.644 0.80855 0 0 0 2.5838000000000004E-35 1 19229 19229 171.09 106.85 1 18992 5266 12209 12237 21634 21634 0.010894390976773138 LYADVGGKQF 10 Unmodified _LYADVGGKQF_ 0 0 0 ENST00000460616.5_1_X:153061851-153063636:+|nuORF;ENST00000485612.5_1_X:153061851-153063885:+|nuORF;ENSG00000180879|ENST00000370086|SSR4 ENST00000460616.5_1_X:153061851-153063636:+|nuORF ENST00000460616.5_1_X:153061851-153063636:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.28662109375 2 549.284931 1096.55531 3.5186 0.0019327 0.063633 3.4953E-05 3.5822 0.0019677 549.284930763904 43.263 0.2926 43.533 43.409 43.702 0.27021 63 28 3 0 0 0 2.1067E-13 3 19731 19731;19773;19824 155.03 96.347 1 4794800 18993 5266 12209 12237 21635;21636;21637 21635 0.010894390976773138 LYADVGGKQF 10 Unmodified _LYADVGGKQF_ 0 0 0 ENST00000460616.5_1_X:153061851-153063636:+|nuORF;ENST00000485612.5_1_X:153061851-153063885:+|nuORF;ENSG00000180879|ENST00000370086|SSR4 ENST00000460616.5_1_X:153061851-153063636:+|nuORF ENST00000460616.5_1_X:153061851-153063636:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.2866821289062 2 549.284931 1096.55531 3.6774 0.0020199 -0.38905 -0.0002137 3.2883 0.0018062 549.2846560563835 42.72 0.31123 43.367 43.201 43.513 0.64693 60 31 2 0 0 0 1.5947E-28 3 19570 19518;19570;19616 185.05 124.98 1 4123700 18994 5266 12209 12237 21638;21639;21640 21639 0.010894390976773138 LYANMFERL 9 Unmodified _LYANMFERL_ 0 0 0 ENSG00000004478|ENST00000001008|FKBP4 ENSG00000004478|ENST00000001008|FKBP4 ENSG00000004478|ENST00000001008|FKBP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.7965698242188 2 578.794609 1155.57467 3.0566 0.0017691 -1.0657 -0.00061682 1.9909 0.0011523 578.794013603366 67.649 0.20455 67.649 67.532 67.736 0 47 28 2 0 0 0 0.034495 1 32476 32476 53.833 25.346 1 5066800 18995 313 12210 12238 21641 21641 0.003100721169175813 LYANMFERL 9 Unmodified _LYANMFERL_ 0 0 0 ENSG00000004478|ENST00000001008|FKBP4 ENSG00000004478|ENST00000001008|FKBP4 ENSG00000004478|ENST00000001008|FKBP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.7967529296875 2 578.794609 1155.57467 2.7087 0.0015678 -0.83682 -0.00048435 1.8719 0.0010834 578.7944965014087 66.442 0.26058 67.147 67.02 67.281 0.7047 73 32 3 0 0 0 0.024388 2 31466 31466;31515 62.573 35.689 1 4325300 18996 313 12210 12238 21642;21643 21642 0.003100721169175813 LYANMFERL 9 Unmodified _LYANMFERL_ 0 0 0 ENSG00000004478|ENST00000001008|FKBP4 ENSG00000004478|ENST00000001008|FKBP4 ENSG00000004478|ENST00000001008|FKBP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.796630859375 2 578.794609 1155.57467 3.5906 0.0020782 -0.067804 -3.9244E-05 3.5228 0.002039 578.7947468946069 67.552 0.27573 67.802 67.664 67.94 0.25011 36 13 3 0 0 0 0.021401 2 30983 30930;30983 66.457 35.82 1 3190100 18997 313 12210 12238 21644;21645 21645 0.003100721169175813 LYANMFERL 9 Unmodified _LYANMFERL_ 0 0 0 ENSG00000004478|ENST00000001008|FKBP4 ENSG00000004478|ENST00000001008|FKBP4 ENSG00000004478|ENST00000001008|FKBP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.796142578125 2 578.794609 1155.57467 3.6635 0.0021204 0.80576 0.00046637 4.4692 0.0025868 578.7945262495101 66.917 0.3529 67.574 67.402 67.755 0.65672 68 20 5 0 0 0 0.012326 3 30651 30651;30700;30750 78.728 46.423 1 2566300 18998 313 12210 12238 21646;21647;21648 21646 0.003100721169175813 LYAYSTRLF 9 Unmodified _LYAYSTRLF_ 0 0 0 HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant;ENSG00000143341|ENST00000271588|HMCN1;nc|ENSG00000143341|Q96RW7-2|HMCN1 HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 378.5382995605469 3 378.537842 1132.5917 2.1289 0.00080589 0.078367 2.9665E-05 2.2073 0.00083555 378.5377501674601 55.472 0.37081 56.259 56.135 56.505 0.78711 64 31 3 0 0 0 0.64206 1 25345 25345 6.6304 0 1 3809600 18999 3360 12211 12239 21649 21649 0.030703159943413993 LYCDTVCCCI 10 Unmodified _LYCDTVCCCI_ 0 0 0 REV__nc|ENSG00000142197|Q9Y3R5-2|DOP1B REV__nc|ENSG00000142197|Q9Y3R5-2|DOP1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.220703125 2 568.218174 1134.42179 3.4816 0.0019783 2.3797 0.0013522 5.8613 0.0033305 568.2191522624448 37.405 0.29415 37.405 37.244 37.538 0 17 10 2 0 0 0 0.82431 1 17000 17000 7.2892 2.5332 1 845980 + 19000 12318 12212 12240 21650 21650 -0.1400395065786597 LYCGKTLLF 9 Carbamidomethyl (C) _LYC(Carbamidomethyl (C))GKTLLF_ LYC(1)GKTLLF LYC(53)GKTLLF 0 1 0 nc|ENSG00000050130|Q9P055-3|JKAMP;ENSG00000050130|ENST00000616435|JKAMP;nc|ENSG00000050130|Q9P055-5|JKAMP nc|ENSG00000050130|Q9P055-3|JKAMP nc|ENSG00000050130|Q9P055-3|JKAMP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.8032836914062 2 557.801903 1113.58925 2.8169 0.0015713 0.15922 8.8812E-05 2.9762 0.0016601 557.801874657147 62.758 0.15792 63.481 63.427 63.585 0.72236 37 22 2 0 0 0 0.035495 1 29332 29332 53.404 7.7044 1 7097600 19001 581 12213 12241 21651 21651 9 0.037001442650534955 LYCGKTLLF 9 Carbamidomethyl (C) _LYC(Carbamidomethyl (C))GKTLLF_ LYC(1)GKTLLF LYC(100)GKTLLF 0 1 0 nc|ENSG00000050130|Q9P055-3|JKAMP;ENSG00000050130|ENST00000616435|JKAMP;nc|ENSG00000050130|Q9P055-5|JKAMP nc|ENSG00000050130|Q9P055-3|JKAMP nc|ENSG00000050130|Q9P055-3|JKAMP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.8037109375 2 557.801903 1113.58925 3.3506 0.001869 -0.38586 -0.00021523 2.9647 0.0016537 557.8018271619201 63.717 0.31514 63.965 63.813 64.129 0.24803 50 18 3 0 0 0 0.0024283 2 29155 29155;29205 99.755 45.922 1 4096900 19002 581 12213 12241 21652;21653 21652 9 0.037001442650534955 LYCGKTLLF 9 Carbamidomethyl (C) _LYC(Carbamidomethyl (C))GKTLLF_ LYC(1)GKTLLF LYC(100)GKTLLF 0 1 0 nc|ENSG00000050130|Q9P055-3|JKAMP;ENSG00000050130|ENST00000616435|JKAMP;nc|ENSG00000050130|Q9P055-5|JKAMP nc|ENSG00000050130|Q9P055-3|JKAMP nc|ENSG00000050130|Q9P055-3|JKAMP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.8040771484375 2 557.801903 1113.58925 3.4183 0.0019067 -0.28118 -0.00015684 3.1371 0.0017499 557.8018011764365 63.131 0.33953 63.789 63.608 63.947 0.65809 50 19 3 0 0 0 0.0024283 3 28935 28891;28935;28978 99.755 27.833 1 4590200 19003 581 12213 12241 21654;21655;21656 21655 9 0.037001442650534955 LYDEVCKKL 9 Unmodified _LYDEVCKKL_ 0 0 0 REV__ENST00000484264.1_1_4:1746256-1746676:+|nuORF REV__ENST00000484264.1_1_4:1746256-1746676:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.796142578125 2 555.796817 1109.57908 NaN NaN NaN NaN NaN NaN NaN 62.907 1 63.565 63.065 64.065 0.65808 0 0 0 0.62812 1 28827 28827 14.838 0 1 + 19004 10251 12214 12242 21657 21657 0.028675365398157737 LYDICFRTL 9 Carbamidomethyl (C) _LYDIC(Carbamidomethyl (C))FRTL_ LYDIC(1)FRTL LYDIC(120)FRTL 0 1 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENSG00000101162|ENST00000217133|TUBB1;CON__ENSEMBL:ENSBTAP00000025008;ENST00000518096.1_1_8:30209523-30210210:+|nuORF;ENST00000404155.1_1_6:3177457-3179994:-|nuORF;ENST00000450755.1_1_X:122696050-122696458:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 600.809326171875 2 600.807716 1199.60088 3.7282 0.0022399 -0.29422 -0.00017677 3.4339 0.0020631 600.8076289128899 69.876 0.28107 70.132 70.001 70.282 0.25642 59 18 4 0 0 0 0.0013355 2 32009 31964;32009 117.76 67.828 1 4899000 19005 5660;6301;1452 12215 12243 21658;21659 21659 34 0.009063412883961064 LYDICFRTL 9 Carbamidomethyl (C) _LYDIC(Carbamidomethyl (C))FRTL_ LYDIC(1)FRTL LYDIC(110)FRTL 0 1 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENSG00000101162|ENST00000217133|TUBB1;CON__ENSEMBL:ENSBTAP00000025008;ENST00000518096.1_1_8:30209523-30210210:+|nuORF;ENST00000404155.1_1_6:3177457-3179994:-|nuORF;ENST00000450755.1_1_X:122696050-122696458:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 600.8095703125 2 600.807716 1199.60088 3.6383 0.0021859 -0.47337 -0.00028441 3.165 0.0019015 600.8075654057692 69.375 0.3104 70.036 69.874 70.185 0.66072 67 21 4 0 0 0 0.0017155 2 31818 31771;31818 107.1 48.421 1 4807300 19006 5660;6301;1452 12215 12243 21660;21661 21661 34 0.009063412883961064 LYDIILKNF 9 Unmodified _LYDIILKNF_ 0 0 0 ENSG00000092010|ENST00000206451|PSME1 ENSG00000092010|ENST00000206451|PSME1 ENSG00000092010|ENST00000206451|PSME1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.8309326171875 2 569.828975 1137.6434 2.9071 0.0016566 -0.11735 -6.687E-05 2.7898 0.0015897 569.8289142901999 78.333 0.27383 78.333 78.179 78.453 0 65 24 3 0 0 0 0.010904 2 38520 38460;38520 99.799 43.916 1 15148000 19007 1088 12216 12244 21662;21663 21663 0.08008059688290814 LYDIILKNF 9 Unmodified _LYDIILKNF_ 0 0 0 ENSG00000092010|ENST00000206451|PSME1 ENSG00000092010|ENST00000206451|PSME1 ENSG00000092010|ENST00000206451|PSME1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.8305053710938 2 569.828975 1137.6434 2.9684 0.0016915 -0.082556 -4.7043E-05 2.8858 0.0016444 569.8288698209745 77.351 0.32935 77.912 77.786 78.115 0.56091 73 23 4 0 0 0 0.0011142 3 37537 37482;37537;37584 152.41 81.279 1 13063000 19008 1088 12216 12244 21664;21665;21666 21665 0.08008059688290814 LYDIILKNF 9 Unmodified _LYDIILKNF_ 0 0 0 ENSG00000092010|ENST00000206451|PSME1 ENSG00000092010|ENST00000206451|PSME1 ENSG00000092010|ENST00000206451|PSME1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.8302612304688 2 569.828975 1137.6434 3.3447 0.0019059 -0.093015 -5.3003E-05 3.2517 0.0018529 569.8288595154016 77.946 0.37884 78.199 78.021 78.4 0.25335 63 20 4 0 0 0 5.9221E-14 3 35920 35870;35920;35975 189.78 100.82 1 6789000 19009 1088 12216 12244 21667;21668;21669 21668 0.08008059688290814 LYDIILKNF 9 Unmodified _LYDIILKNF_ 0 0 0 ENSG00000092010|ENST00000206451|PSME1 ENSG00000092010|ENST00000206451|PSME1 ENSG00000092010|ENST00000206451|PSME1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.8306884765625 2 569.828975 1137.6434 3.4436 0.0019623 -0.0071868 -4.0953E-06 3.4364 0.0019582 569.8288991541725 77.528 0.32217 78.191 78.013 78.335 0.66303 60 19 4 0 0 0 9.5847E-09 3 35737 35684;35737;35794 174.73 85.824 1 6527300 19010 1088 12216 12244 21670;21671;21672 21671 0.08008059688290814 LYDIVFKHF 9 Unmodified _LYDIVFKHF_ 0 0 0 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497|SP100;ENSG00000067066|ENST00000340126|SP100;nc|ENSG00000067066|P23497-7|SP100;nc|ENSG00000067066|P23497-6|SP100;nc|ENSG00000067066|P23497-2|SP100;nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-3|SP100 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.55072021484375 3 394.54997 1180.62808 2.7476 0.001084 -0.013828 -5.4559E-06 2.7337 0.0010786 394.54986943024903 63.708 0.28915 63.956 63.794 64.083 0.24803 41 16 3 0 0 0 0.19064 2 29153 29153;29199 28.495 17.695 1 2710700 19011 719;9554 12217 12245 21673;21674 21673 0.04499192891103121 LYDIVFKHF 9 Unmodified _LYDIVFKHF_ 0 0 0 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497|SP100;ENSG00000067066|ENST00000340126|SP100;nc|ENSG00000067066|P23497-7|SP100;nc|ENSG00000067066|P23497-6|SP100;nc|ENSG00000067066|P23497-2|SP100;nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-3|SP100 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.3228759765625 2 591.321317 1180.62808 3.4128 0.0020181 -1.8282 -0.001081 1.5846 0.00093702 591.3210890403604 63.688 0.25544 63.936 63.813 64.069 0.24803 32 14 3 0 0 0 0.02234 1 29173 29173 65.235 32.93 1 705260 19012 719;9554 12217 12245 21675 21675 0.04499192891103121 LYDIVFKHF 9 Unmodified _LYDIVFKHF_ 0 0 0 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497|SP100;ENSG00000067066|ENST00000340126|SP100;nc|ENSG00000067066|P23497-7|SP100;nc|ENSG00000067066|P23497-6|SP100;nc|ENSG00000067066|P23497-2|SP100;nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-3|SP100 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.55108642578125 3 394.54997 1180.62808 2.7639 0.0010905 0.46438 0.00018322 3.2282 0.0012737 394.5499474208356 63.142 0.26873 63.8 63.65 63.918 0.65808 36 15 3 0 0 0 0.079031 2 28915 28915;28966 41.956 21.541 1 2569900 19013 719;9554 12217 12245 21676;21677 21676 0.04499192891103121 LYDIVFKHF 9 Unmodified _LYDIVFKHF_ 0 0 0 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497|SP100;ENSG00000067066|ENST00000340126|SP100;nc|ENSG00000067066|P23497-7|SP100;nc|ENSG00000067066|P23497-6|SP100;nc|ENSG00000067066|P23497-2|SP100;nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-3|SP100 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 591.321317 1180.62808 3.6579 0.002163 -1.2883 -0.00076178 2.3696 0.0014012 591.3212333384881 63.137 0.22502 63.795 63.676 63.901 0.65808 -0.070515 0.00031477 NaN 65.235 27 12 3 NaN NaN NaN NaN 0 NaN NaN 0 1346900 19014 719;9554 12217 12245 0.04499192891103121 LYDKQYVLY 9 Unmodified _LYDKQYVLY_ 0 0 0 REV__ENST00000254770.2_1_7:55499387-55499579:+|nuORF REV__ENST00000254770.2_1_7:55499387-55499579:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 402.2125549316406 3 402.213135 1203.61758 NaN NaN NaN NaN NaN NaN NaN 26.864 1 27.643 27.143 28.143 0.7787 0 0 0 0.89683 1 12070 12070 2.4985 0.75621 1 + 19015 14925 12218 12246 21678 21678 0.023911654459880083 LYDLVTEKM 9 Unmodified _LYDLVTEKM_ 0 0 0 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.290771484375 2 556.288825 1110.5631 3.4443 0.001916 -0.74127 -0.00041236 2.7031 0.0015037 556.2886169486281 54.714 0.1599 55.38 55.345 55.505 0.6665 17 11 2 0 0 0 0.049036 1 25052 25052 47.594 11.467 1 728010 19016 2211 12219 12247 21679 21679 0.01223830302933493 LYDLVTEKM 9 Unmodified _LYDLVTEKM_ 0 0 0 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 556.288825 1110.5631 3.3551 0.0018664 0.58536 0.00032563 3.9405 0.002192 556.2889588732155 55.491 0.21917 55.756 55.616 55.835 0.26543 0.18776 0.00043892 NaN 47.594 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 635800 19017 2211 12219 12247 0.01223830302933493 LYDPCTVMF 9 Carbamidomethyl (C) _LYDPC(Carbamidomethyl (C))TVMF_ LYDPC(1)TVMF LYDPC(44)TVMF 0 1 0 ENST00000585769.5_1_18:77736771-77746670:-|nuORF;ENSG00000141759|ENST00000269601|TXNL4A ENST00000585769.5_1_18:77736771-77746670:-|nuORF ENST00000585769.5_1_18:77736771-77746670:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.2538452148438 2 573.253928 1144.4933 2.988 0.0017129 0.77184 0.00044246 3.7598 0.0021553 573.2546766969309 77.012 0.29887 77.636 77.527 77.826 0.62398 33 24 2 0 0 0 0.056465 1 37365 37365 44.407 33.583 1 490880 19018 3286 12220 12248 21680 21680 64 -0.07316371637352859 LYDPVISKL 9 Unmodified _LYDPVISKL_ 0 0 0 nc|ENSG00000187778|Q96EZ8-3|MCRS1;ENSG00000187778|ENST00000343810|MCRS1;nc|ENSG00000187778|Q96EZ8-2|MCRS1 nc|ENSG00000187778|Q96EZ8-3|MCRS1 nc|ENSG00000187778|Q96EZ8-3|MCRS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.3096923828125 2 524.307875 1046.6012 3.3757 0.0017699 -0.0034165 -1.7913E-06 3.3723 0.0017681 524.3078674705401 60.735 0.23487 60.99 60.869 61.104 0.25578 20 13 2 0 0 0 0.053359 1 27802 27802 45.74 20.341 1 879670 19019 5636 12221 12249 21681 21681 0.07976084279880524 LYDPVISKL 9 Unmodified _LYDPVISKL_ 0 0 0 nc|ENSG00000187778|Q96EZ8-3|MCRS1;ENSG00000187778|ENST00000343810|MCRS1;nc|ENSG00000187778|Q96EZ8-2|MCRS1 nc|ENSG00000187778|Q96EZ8-3|MCRS1 nc|ENSG00000187778|Q96EZ8-3|MCRS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.3093872070312 2 524.307875 1046.6012 3.3385 0.0017504 -0.055901 -2.9309E-05 3.2826 0.0017211 524.3078710967625 60.101 0.14592 60.766 60.748 60.894 0.66503 18 11 2 0 0 0 0.076469 1 27548 27548 38.615 17.078 1 1224300 19020 5636 12221 12249 21682 21682 0.07976084279880524 LYDPVISKL 9 Unmodified _LYDPVISKL_ 0 0 0 nc|ENSG00000187778|Q96EZ8-3|MCRS1;ENSG00000187778|ENST00000343810|MCRS1;nc|ENSG00000187778|Q96EZ8-2|MCRS1 nc|ENSG00000187778|Q96EZ8-3|MCRS1 nc|ENSG00000187778|Q96EZ8-3|MCRS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 524.307875 1046.6012 2.9143 0.001528 1.8947 0.00099342 4.809 0.0025214 524.3073483724012 60.887 0.054779 60.887 60.867 60.922 0 0.0057833 0.0019959 NaN 45.74 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 1972300 19021 5636 12221 12249 0.07976084279880524 LYDTVTHTF 9 Unmodified _LYDTVTHTF_ 0 0 0 HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|120|3|sense HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|120|3|sense HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|120|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.7716064453125 2 548.769114 1095.52368 3.4564 0.0018968 0.004141 2.2724E-06 3.4605 0.001899 548.7687457757146 46.773 0.38104 46.773 46.603 46.984 0 39 13 4 0 0 0 0.0010612 2 21391 21391;21454 125.62 77.279 1 2445900 19022 9417 12222 12250 21683;21684 21683 -0.020265536563101705 LYDTVTHTF 9 Unmodified _LYDTVTHTF_ 0 0 0 HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|120|3|sense HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|120|3|sense HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|120|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.7700805664062 2 548.769114 1095.52368 3.1939 0.0017527 0.30822 0.00016914 3.5021 0.0019218 548.768686452597 45.816 0.31549 46.642 46.474 46.789 0.82621 38 16 3 0 0 0 0.0019388 1 20838 20838 104.8 70.697 1 3036400 19023 9417 12222 12250 21685 21685 -0.020265536563101705 LYDTVTHTF 9 Unmodified _LYDTVTHTF_ 0 0 0 HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|120|3|sense HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|120|3|sense HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|120|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.7715454101562 2 548.769114 1095.52368 3.749 0.0020574 -1.4761 -0.00081001 2.273 0.0012473 548.7685449336794 46.634 0.19581 46.9 46.785 46.98 0.26561 12 6 2 0 0 0 0.0026885 1 21338 21338 97.075 62.673 1 1102100 19024 9417 12222 12250 21686 21686 -0.020265536563101705 LYDTVTHTF 9 Unmodified _LYDTVTHTF_ 0 0 0 HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|120|3|sense HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|120|3|sense HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|120|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.7705078125 2 548.769114 1095.52368 3.8461 0.0021106 0.13896 7.626E-05 3.985 0.0021869 548.7686922778227 46.103 0.25532 46.754 46.6 46.856 0.65104 17 7 3 0 0 0 0.0014044 1 21115 21115 112.59 72.636 1 572150 19025 9417 12222 12250 21687 21687 -0.020265536563101705 LYEEAFTVF 9 Unmodified _LYEEAFTVF_ 0 0 0 nc|ENSG00000070371|P53675-2|CLTCL1;ENSG00000070371|ENST00000427926|CLTCL1 nc|ENSG00000070371|P53675-2|CLTCL1 nc|ENSG00000070371|P53675-2|CLTCL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.7757568359375 2 559.773865 1117.53318 3.7346 0.0020905 -0.27694 -0.00015503 3.4577 0.0019355 559.773721966597 86.849 0.31045 87.099 86.928 87.239 0.24974 31 14 3 0 0 0 0.028312 2 39949 39949;39996 57.471 28.39 1 1069100 19026 763 12223 12251 21688;21689 21688 -0.02088785370756341 LYEEAFTVF 9 Unmodified _LYEEAFTVF_ 0 0 0 nc|ENSG00000070371|P53675-2|CLTCL1;ENSG00000070371|ENST00000427926|CLTCL1 nc|ENSG00000070371|P53675-2|CLTCL1 nc|ENSG00000070371|P53675-2|CLTCL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.7767944335938 2 559.773865 1117.53318 3.6847 0.0020626 -1.4514 -0.00081248 2.2333 0.0012501 559.7732660446502 86.355 0.31899 87.026 86.807 87.126 0.67061 23 14 2 0 0 0 0.062556 1 39756 39756 42.095 18.946 1 1213500 19027 763 12223 12251 21690 21690 -0.02088785370756341 LYEGDPKIYDK 11 Unmodified _LYEGDPKIYDK_ 0 0 0 REV__ENST00000573134.1_1_18:2539001-2552773:-|nuORF REV__ENST00000573134.1_1_18:2539001-2552773:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 670.8419799804688 2 670.840268 1339.66598 NaN NaN NaN NaN NaN NaN NaN 103.97 1 104.57 104.07 105.07 0.59821 0 0 0 1.0075 1 48081 48081 0.96228 0.43751 1 + 19028 10902 12224 12252 21691 21691 0.009736142952306182 LYEKDIQLF 9 Unmodified _LYEKDIQLF_ 0 0 0 ENSG00000166971|ENST00000394657|AKTIP;nc|ENSG00000166971|Q9H8T0-2|AKTIP;ENST00000514047.1_1_5:24171013-24171163:+|nuORF ENSG00000166971|ENST00000394657|AKTIP ENSG00000166971|ENST00000394657|AKTIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 585.3209228515625 2 584.816064 1167.61758 3.3777 0.0019753 1.5504 0.00090672 4.9281 0.0028821 584.81723840744 64.377 0.18764 64.625 64.514 64.702 0.24803 18 11 2 0 0 0 0.071132 1 29466 29466 39.95 10.868 1 991370 19029 4523 12225 12253 21692 21692 0.04047165445990686 LYEKDIQLF 9 Unmodified _LYEKDIQLF_ 0 0 0 ENSG00000166971|ENST00000394657|AKTIP;nc|ENSG00000166971|Q9H8T0-2|AKTIP;ENST00000514047.1_1_5:24171013-24171163:+|nuORF ENSG00000166971|ENST00000394657|AKTIP ENSG00000166971|ENST00000394657|AKTIP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.81689453125 2 584.816064 1167.61758 NaN NaN NaN NaN NaN NaN NaN 64.465 1 64.713 64.213 65.213 0.24803 0 0 0 0.098631 1 29527 29527 41.956 5.4894 1 19030 4523 12225 12253 21693 21693 0.04047165445990686 LYEKDIQLF 9 Unmodified _LYEKDIQLF_ 0 0 0 ENSG00000166971|ENST00000394657|AKTIP;nc|ENSG00000166971|Q9H8T0-2|AKTIP;ENST00000514047.1_1_5:24171013-24171163:+|nuORF ENSG00000166971|ENST00000394657|AKTIP ENSG00000166971|ENST00000394657|AKTIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.8180541992188 2 584.816064 1167.61758 3.5497 0.0020759 0.31975 0.000187 3.8695 0.0022629 584.8162433830714 63.808 0.24618 64.465 64.338 64.585 0.65672 24 15 2 0 0 0 0.017293 2 29222 29222;29278 71.922 25.901 1 839830 19031 4523 12225 12253 21694;21695 21694 0.04047165445990686 LYELSKTVM 9 Unmodified _LYELSKTVM_ 0 0 0 REV__ENSG00000146263|ENST00000683635|MMS22L REV__ENSG00000146263|ENST00000683635|MMS22L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.2920532226562 2 542.291368 1082.56818 NaN NaN NaN NaN NaN NaN NaN 37.994 1 37.994 37.494 38.494 0 0 0 0 0.7971 1 17242 17242 9.3474 0.75416 1 + 19032 12468 12226 12254 21696 21696 0.030201341655583747 LYENPTTANI 10 Unmodified _LYENPTTANI_ 0 0 0 ENST00000555952.5_1_14:52037074-52045767:+|nuORF ENST00000555952.5_1_14:52037074-52045767:+|nuORF ENST00000555952.5_1_14:52037074-52045767:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.19384765625 3 379.192511 1134.5557 2.6043 0.00098754 0.81123 0.00030761 3.4156 0.0012952 379.192825835942 18.616 0.27504 18.914 18.69 18.965 0.29753 42 32 2 0 0 0 0.89607 1 8343 8343 3.8763 1.3778 1 1955700 19033 8920 12227 12255 21697 21697 -0.00619185973164349 LYEQAFQLL 9 Unmodified _LYEQAFQLL_ 0 0 0 nc|ENSG00000102871|Q15628-2|TRADD;ENSG00000102871|ENST00000345057|TRADD nc|ENSG00000102871|Q15628-2|TRADD nc|ENSG00000102871|Q15628-2|TRADD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.8049926757812 2 562.802957 1123.59136 3.7831 0.0021292 -0.026328 -1.4818E-05 3.7568 0.0021143 562.8028486183495 87.465 0.24091 87.715 87.581 87.822 0.25064 23 10 3 0 0 0 0.136 1 40238 40238 27.629 15.388 1 741010 19034 1357 12228 12256 21698 21698 0.03450896274512161 LYEQAFQLL 9 Unmodified _LYEQAFQLL_ 0 0 0 nc|ENSG00000102871|Q15628-2|TRADD;ENSG00000102871|ENST00000345057|TRADD nc|ENSG00000102871|Q15628-2|TRADD nc|ENSG00000102871|Q15628-2|TRADD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.8052368164062 2 562.802957 1123.59136 NaN NaN NaN NaN NaN NaN NaN 87.572 1 87.822 87.322 88.322 0.25064 0 0 0 0.13912 1 40302 40302 34.402 17.289 1 19035 1357 12228 12256 21699 21699 0.03450896274512161 LYEQAFQLL 9 Unmodified _LYEQAFQLL_ 0 0 0 nc|ENSG00000102871|Q15628-2|TRADD;ENSG00000102871|ENST00000345057|TRADD nc|ENSG00000102871|Q15628-2|TRADD nc|ENSG00000102871|Q15628-2|TRADD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.3058471679688 2 562.802957 1123.59136 3.7097 0.0020879 -0.16354 -9.2042E-05 3.5462 0.0019958 562.8032121895207 87.051 0.261 87.727 87.488 87.749 0.67554 22 10 3 0 0 0 0.063575 1 40065 40065 41.84 19.103 1 656940 19036 1357 12228 12256 21700 21700 0.03450896274512161 LYERGFENI 9 Unmodified _LYERGFENI_ 0 0 0 nc|ENSG00000119777|Q6NUQ4-2|TMEM214;ENSG00000119777|ENST00000238788|TMEM214;ENST00000478980.1_1_2:27256012-27257182:+|nuORF;ENST00000495312.1_1_2:27255799-27258254:+|nuORF nc|ENSG00000119777|Q6NUQ4-2|TMEM214 nc|ENSG00000119777|Q6NUQ4-2|TMEM214 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.7885131835938 2 570.787838 1139.56112 3.2508 0.0018555 0.0776 4.4293E-05 3.3284 0.0018998 570.7881969025124 47.528 0.1732 47.528 47.422 47.595 0 14 8 2 0 0 0 0.02812 1 21751 21751 57.722 19.748 1 781060 19037 2167 12229 12257 21701 21701 -0.003074623906513807 LYERGFENI 9 Unmodified _LYERGFENI_ 0 0 0 nc|ENSG00000119777|Q6NUQ4-2|TMEM214;ENSG00000119777|ENST00000238788|TMEM214;ENST00000478980.1_1_2:27256012-27257182:+|nuORF;ENST00000495312.1_1_2:27255799-27258254:+|nuORF nc|ENSG00000119777|Q6NUQ4-2|TMEM214 nc|ENSG00000119777|Q6NUQ4-2|TMEM214 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.7907104492188 2 570.787838 1139.56112 3.4907 0.0019925 -0.27736 -0.00015831 3.2134 0.0018342 570.7878147540465 46.375 0.23435 47.204 47.067 47.301 0.82915 22 13 2 0 0 0 0.018453 2 21128 21128;21147 70.332 30.375 1 728120 19038 2167 12229 12257 21702;21703 21702 -0.003074623906513807 LYERGFENI 9 Unmodified _LYERGFENI_ 0 0 0 nc|ENSG00000119777|Q6NUQ4-2|TMEM214;ENSG00000119777|ENST00000238788|TMEM214;ENST00000478980.1_1_2:27256012-27257182:+|nuORF;ENST00000495312.1_1_2:27255799-27258254:+|nuORF nc|ENSG00000119777|Q6NUQ4-2|TMEM214 nc|ENSG00000119777|Q6NUQ4-2|TMEM214 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 570.790283203125 2 570.787838 1139.56112 3.6635 0.0020911 0.85191 0.00048626 4.5154 0.0025773 570.7885600930072 47.402 0.19065 47.665 47.556 47.747 0.26363 11 6 2 0 0 0 0.02812 1 21688 21688 57.722 19.748 1 329310 19039 2167 12229 12257 21704 21704 -0.003074623906513807 LYERGFENI 9 Unmodified _LYERGFENI_ 0 0 0 nc|ENSG00000119777|Q6NUQ4-2|TMEM214;ENSG00000119777|ENST00000238788|TMEM214;ENST00000478980.1_1_2:27256012-27257182:+|nuORF;ENST00000495312.1_1_2:27255799-27258254:+|nuORF nc|ENSG00000119777|Q6NUQ4-2|TMEM214 nc|ENSG00000119777|Q6NUQ4-2|TMEM214 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 570.787838 1139.56112 3.6689 0.0020942 0.9532 0.00054407 4.6221 0.0026382 570.7886704823202 46.849 0.19288 47.501 47.344 47.537 0.65219 0.026449 0.00075709 NaN 70.332 12 5 3 NaN NaN NaN NaN 0 NaN NaN 0 497970 19040 2167 12229 12257 -0.003074623906513807 LYERSRHPKL 10 Unmodified _LYERSRHPKL_ 0 0 0 REV__nc|ENSG00000138182|Q96Q89-2|KIF20B REV__nc|ENSG00000138182|Q96Q89-2|KIF20B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 649.86865234375 2 649.870028 1297.7255 NaN NaN NaN NaN NaN NaN NaN 67.861 1 68.563 68.063 69.063 0.70218 0 0 0 0.98866 1 32309 32309 7.2892 2.3922 1 + 19041 17957 12230 12258 21705 21705 0.08854974819951167 LYFDVDENRF 10 Unmodified _LYFDVDENRF_ 0 0 0 REV__nc|ENSG00000143393|Q9UBF8-2|PI4KB REV__nc|ENSG00000143393|Q9UBF8-2|PI4KB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 439.87603759765625 3 439.875182 1316.60372 3.0398 0.0013372 0.10537 4.635E-05 3.1452 0.0013835 439.87522756663543 51.427 0.26743 51.427 51.308 51.575 0 18 13 2 0 0 0 0.90216 1 23539 23539 3.5871 0.95582 1 440210 + 19042 12367 12231 12259 21706 21706 -0.041921120531242195 LYGKIAEAF 9 Unmodified _LYGKIAEAF_ 0 0 0 ENSG00000123159|ENST00000393033|GIPC1;ENST00000587811.1_1_19:14593203-14593794:-|nuORF ENSG00000123159|ENST00000393033|GIPC1 ENSG00000123159|ENST00000393033|GIPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.280517578125 2 506.279118 1010.54368 3.2396 0.0016402 0.34498 0.00017466 3.5846 0.0018148 506.2791323902599 53.171 0.2983 53.171 53.013 53.311 0 44 16 4 0 0 0 0.021401 2 24332 24332;24382 66.457 35.82 1 2925100 19043 2297 12232 12260 21707;21708 21707 0.038832420743119656 LYGKIAEAF 9 Unmodified _LYGKIAEAF_ 0 0 0 ENSG00000123159|ENST00000393033|GIPC1;ENST00000587811.1_1_19:14593203-14593794:-|nuORF ENSG00000123159|ENST00000393033|GIPC1 ENSG00000123159|ENST00000393033|GIPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.2809143066406 2 506.279118 1010.54368 2.6448 0.001339 0.20442 0.00010349 2.8492 0.0014425 506.27915682993444 52.045 0.28872 52.856 52.723 53.012 0.81066 52 18 4 0 0 0 0.021401 2 23685 23685;23733 66.457 30.33 1 2728900 19044 2297 12232 12260 21709;21710 21709 0.038832420743119656 LYGKIAEAF 9 Unmodified _LYGKIAEAF_ 0 0 0 ENSG00000123159|ENST00000393033|GIPC1;ENST00000587811.1_1_19:14593203-14593794:-|nuORF ENSG00000123159|ENST00000393033|GIPC1 ENSG00000123159|ENST00000393033|GIPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.2805480957031 2 506.279118 1010.54368 3.3448 0.0016934 -0.24069 -0.00012186 3.1041 0.0015715 506.27895771583997 52.921 0.35719 53.185 53.011 53.368 0.26345 53 23 3 0 0 0 0.0061394 2 24186 24186;24231 89.401 51.225 1 3384400 19045 2297 12232 12260 21711;21712 21711 0.038832420743119656 LYGKIAEAF 9 Unmodified _LYGKIAEAF_ 0 0 0 ENSG00000123159|ENST00000393033|GIPC1;ENST00000587811.1_1_19:14593203-14593794:-|nuORF ENSG00000123159|ENST00000393033|GIPC1 ENSG00000123159|ENST00000393033|GIPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.28094482421875 2 506.279118 1010.54368 3.0881 0.0015634 0.62919 0.00031855 3.7173 0.001882 506.27927772106506 52.495 0.28662 53.157 53.006 53.292 0.66198 28 11 3 0 0 0 0.016529 1 23994 23994 72.968 34.817 1 2486300 19046 2297 12232 12260 21713 21713 0.038832420743119656 LYGKVQEL 8 Unmodified _LYGKVQEL_ 0 0 0 REV__nc|ENSG00000163817|Q9NP91-2|SLC6A20 REV__nc|ENSG00000163817|Q9NP91-2|SLC6A20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 475.2728271484375 2 475.271293 948.528032 2.7577 0.0013107 0.60433 0.00028722 3.3621 0.0015979 475.27143670978865 34.237 0.25246 35.026 34.911 35.163 0.78921 32 13 3 0 0 0 0.078308 2 15488 15488;15541 56.177 0 1 687730 + 19047 13032 12233 12261 21714;21715 21714 0.05170955557275647 LYGKVQEL 8 Unmodified _LYGKVQEL_ 0 0 0 REV__nc|ENSG00000163817|Q9NP91-2|SLC6A20 REV__nc|ENSG00000163817|Q9NP91-2|SLC6A20 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.27294921875 2 475.271293 948.528032 NaN NaN NaN NaN NaN NaN NaN 35.084 1 35.339 34.839 35.839 0.25524 0 0 0 0.16411 1 15987 15987 85.357 0 1 + 19048 13032 12233 12261 21716 21716 0.05170955557275647 LYGKVQEL 8 Unmodified _LYGKVQEL_ 0 0 0 REV__nc|ENSG00000163817|Q9NP91-2|SLC6A20 REV__nc|ENSG00000163817|Q9NP91-2|SLC6A20 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.2726135253906 2 475.271293 948.528032 NaN NaN NaN NaN NaN NaN NaN 34.663 1 35.286 34.786 35.786 0.62294 0 0 0 0.25642 1 15878 15878 74.423 0 1 + 19049 13032 12233 12261 21717 21717 0.05170955557275647 LYGLNWGNNF 10 Unmodified _LYGLNWGNNF_ 0 0 0 REV__ENSG00000168412|ENST00000307161|MTNR1A REV__ENSG00000168412|ENST00000307161|MTNR1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 599.28955078125 2 599.288005 1196.56146 NaN NaN NaN NaN NaN NaN NaN 59.719 1 59.719 59.219 60.219 0 0 0 0 0.41039 1 27620 27620 32.305 1.6689 1 + 19050 13348 12234 12262 21718 21718 -0.02896042670818133 LYGLNWGNNF 10 Unmodified _LYGLNWGNNF_ 0 0 0 REV__ENSG00000168412|ENST00000307161|MTNR1A REV__ENSG00000168412|ENST00000307161|MTNR1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 599.2905883789062 2 599.288005 1196.56146 NaN NaN NaN NaN NaN NaN NaN 59.847 1 60.107 59.607 60.607 0.2593 0 0 0 0.68715 1 27407 27407 25.399 1.3787 1 + 19051 13348 12234 12262 21719 21719 -0.02896042670818133 LYGRARLGSE 10 Unmodified _LYGRARLGSE_ 0 0 0 ENST00000317623.8_2_14:60558690-60558942:+|nuORF ENST00000317623.8_2_14:60558690-60558942:+|nuORF ENST00000317623.8_2_14:60558690-60558942:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.3076171875 2 561.306729 1120.59891 NaN NaN NaN NaN NaN NaN NaN 47.473 1 48.302 47.802 48.802 0.82915 0 0 0 0.94673 1 21629 21629 13.906 3.8321 1 19052 6913 12235 12263 21720 21720 0.04343048594796528 LYGRHFNYL 9 Unmodified _LYGRHFNYL_ 0 0 0 nc|ENSG00000121274|Q8NDF8-5|TENT4B;ENSG00000121274|ENST00000561678|TENT4B;ENST00000562717.1_1_16:50188117-50258568:+|nuORF;nc|ENSG00000121274|Q8NDF8-4|TENT4B;nc|ENSG00000121274|Q8NDF8-2|TENT4B;nc|ENSG00000121274|Q8NDF8|TENT4B;nc|ENSG00000121274|Q8NDF8-3|TENT4B nc|ENSG00000121274|Q8NDF8-5|TENT4B nc|ENSG00000121274|Q8NDF8-5|TENT4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.8082885742188 2 591.806365 1181.59818 3.4284 0.0020289 -0.087601 -5.1843E-05 3.3408 0.0019771 591.8061988160283 41.104 0.19156 41.104 40.962 41.153 0 28 14 3 0 0 0 0.015468 2 18666 18610;18666 74.423 20.847 1 1097600 19053 2225 12236 12264 21721;21722 21722 0.014642539457554449 LYGRHFNYL 9 Unmodified _LYGRHFNYL_ 0 0 0 nc|ENSG00000121274|Q8NDF8-5|TENT4B;ENSG00000121274|ENST00000561678|TENT4B;ENST00000562717.1_1_16:50188117-50258568:+|nuORF;nc|ENSG00000121274|Q8NDF8-4|TENT4B;nc|ENSG00000121274|Q8NDF8-2|TENT4B;nc|ENSG00000121274|Q8NDF8|TENT4B;nc|ENSG00000121274|Q8NDF8-3|TENT4B nc|ENSG00000121274|Q8NDF8-5|TENT4B nc|ENSG00000121274|Q8NDF8-5|TENT4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.8740234375 3 394.873336 1181.59818 2.5705 0.001015 -0.55322 -0.00021845 2.0173 0.00079656 394.8730784272393 40.101 0.30795 40.901 40.69 40.997 0.80014 43 21 3 0 0 0 0.086747 1 18136 18136 32.786 13.16 1 3172400 19054 2225 12236 12264 21723 21723 0.014642539457554449 LYGRHFNYL 9 Unmodified _LYGRHFNYL_ 0 0 0 nc|ENSG00000121274|Q8NDF8-5|TENT4B;ENSG00000121274|ENST00000561678|TENT4B;ENST00000562717.1_1_16:50188117-50258568:+|nuORF;nc|ENSG00000121274|Q8NDF8-4|TENT4B;nc|ENSG00000121274|Q8NDF8-2|TENT4B;nc|ENSG00000121274|Q8NDF8|TENT4B;nc|ENSG00000121274|Q8NDF8-3|TENT4B nc|ENSG00000121274|Q8NDF8-5|TENT4B nc|ENSG00000121274|Q8NDF8-5|TENT4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.8089599609375 2 591.806365 1181.59818 NaN NaN NaN NaN NaN NaN NaN 40.088 1 40.888 40.388 41.388 0.80014 0 0 0 0.025241 1 18151 18151 64.236 26.085 1 19055 2225 12236 12264 21724 21724 0.014642539457554449 LYGRHFNYL 9 Unmodified _LYGRHFNYL_ 0 0 0 nc|ENSG00000121274|Q8NDF8-5|TENT4B;ENSG00000121274|ENST00000561678|TENT4B;ENST00000562717.1_1_16:50188117-50258568:+|nuORF;nc|ENSG00000121274|Q8NDF8-4|TENT4B;nc|ENSG00000121274|Q8NDF8-2|TENT4B;nc|ENSG00000121274|Q8NDF8|TENT4B;nc|ENSG00000121274|Q8NDF8-3|TENT4B nc|ENSG00000121274|Q8NDF8-5|TENT4B nc|ENSG00000121274|Q8NDF8-5|TENT4B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 394.873336 1181.59818 2.6081 0.0010299 -0.28869 -0.000114 2.3194 0.00091589 394.8732305407401 41.117 0.1986 41.117 40.968 41.166 0 0.074311 0.00032557 NaN 32.786 30 14 3 NaN NaN NaN NaN 0 NaN NaN 0 1936500 19056 2225 12236 12264 0.014642539457554449 LYGRHFNYL 9 Unmodified _LYGRHFNYL_ 0 0 0 nc|ENSG00000121274|Q8NDF8-5|TENT4B;ENSG00000121274|ENST00000561678|TENT4B;ENST00000562717.1_1_16:50188117-50258568:+|nuORF;nc|ENSG00000121274|Q8NDF8-4|TENT4B;nc|ENSG00000121274|Q8NDF8-2|TENT4B;nc|ENSG00000121274|Q8NDF8|TENT4B;nc|ENSG00000121274|Q8NDF8-3|TENT4B nc|ENSG00000121274|Q8NDF8-5|TENT4B nc|ENSG00000121274|Q8NDF8-5|TENT4B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 394.873336 1181.59818 3.0955 0.0012223 -0.67267 -0.00026562 2.4228 0.00095672 394.87301598073697 40.468 0.10842 41.109 41.04 41.148 0.64136 0.066835 -0.00012931 NaN 32.786 21 12 2 NaN NaN NaN NaN 0 NaN NaN 0 1140700 19057 2225 12236 12264 0.014642539457554449 LYGRKLDLL 9 Unmodified _LYGRKLDLL_ 0 0 0 REV__ENST00000460571.1_1_1:95711973-95712171:+|nuORF REV__ENST00000460571.1_1_1:95711973-95712171:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.83642578125 2 545.834591 1089.65463 3.0951 0.0016894 0.64071 0.00034972 3.7358 0.0020391 545.834829380908 46.42 0.19189 47.249 47.138 47.33 0.82915 27 11 4 0 0 0 0.24272 1 21176 21176 21.537 0 1 1640800 + 19058 16479 12237 12265 21725 21725 0.11338881782421595 LYGRNFNYL 9 Unmodified _LYGRNFNYL_ 0 0 0 ENST00000514697.1_1_5:6746314-6755055:+|nuORF;nc|ENSG00000112941|Q5XG87-2|TENT4A;ENSG00000112941|ENST00000230859|TENT4A ENST00000514697.1_1_5:6746314-6755055:+|nuORF ENST00000514697.1_1_5:6746314-6755055:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 580.3006591796875 2 580.298373 1158.58219 3.1976 0.0018555 1.4763 0.00085669 4.6739 0.0027122 580.2993859099095 54.383 0.25359 54.648 54.524 54.777 0.26462 23 11 3 0 0 0 0.041436 1 24847 24847 50.855 6.448 1 445870 19059 1826 12238 12266 21726 21726 0.009245477088597909 LYGRNFNYL 9 Unmodified _LYGRNFNYL_ 0 0 0 ENST00000514697.1_1_5:6746314-6755055:+|nuORF;nc|ENSG00000112941|Q5XG87-2|TENT4A;ENSG00000112941|ENST00000230859|TENT4A ENST00000514697.1_1_5:6746314-6755055:+|nuORF ENST00000514697.1_1_5:6746314-6755055:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 580.2992553710938 2 580.298373 1158.58219 3.4698 0.0020135 1.0909 0.00063305 4.5607 0.0026466 580.2991868795335 53.735 0.20704 54.399 54.309 54.516 0.6644 18 10 2 0 0 0 0.028312 1 24577 24577 57.471 13.064 1 536280 19060 1826 12238 12266 21727 21727 0.009245477088597909 LYGRNFNYL 9 Unmodified _LYGRNFNYL_ 0 0 0 ENST00000514697.1_1_5:6746314-6755055:+|nuORF;nc|ENSG00000112941|Q5XG87-2|TENT4A;ENSG00000112941|ENST00000230859|TENT4A ENST00000514697.1_1_5:6746314-6755055:+|nuORF ENST00000514697.1_1_5:6746314-6755055:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 580.298373 1158.58219 3.9047 0.0022659 1.2441 0.00072195 5.1488 0.0029878 580.2985555778871 54.447 0.20198 54.447 54.319 54.52 0 -0.050729 -3.709E-05 NaN 57.471 20 17 2 NaN NaN NaN NaN 0 NaN NaN 0 1629400 19061 1826 12238 12266 0.009245477088597909 LYHANQCRL 9 Unmodified _LYHANQCRL_ 0 0 0 REV__nc|ENSG00000138759|Q86XX4-5|FRAS1 REV__nc|ENSG00000138759|Q86XX4-5|FRAS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.2833862304688 2 559.2822 1116.54985 3.4025 0.001903 -1.2934 -0.0007234 2.1091 0.0011796 559.2814318485512 54.292 0.19532 54.959 54.808 55.003 0.6665 13 8 2 0 0 0 0.22507 1 24820 24820 21.747 2.3847 1 882060 + 19062 12188 12239 12267 21728 21728 -0.0037656296578916226 LYHANQCRL 9 Unmodified _LYHANQCRL_ 0 0 0 REV__nc|ENSG00000138759|Q86XX4-5|FRAS1 REV__nc|ENSG00000138759|Q86XX4-5|FRAS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 559.2822 1116.54985 3.0662 0.0017149 -0.89914 -0.00050288 2.167 0.001212 559.2818948193203 53.796 0.18569 54.599 54.541 54.727 0.8035 -0.1797 0.00039444 NaN 21.747 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 204880 + 19063 12188 12239 12267 -0.0037656296578916226 LYHANQCRL 9 Unmodified _LYHANQCRL_ 0 0 0 REV__nc|ENSG00000138759|Q86XX4-5|FRAS1 REV__nc|ENSG00000138759|Q86XX4-5|FRAS1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 559.2822 1116.54985 3.4025 0.001903 -1.2934 -0.0007234 2.1091 0.0011796 559.2814318485512 54.292 0.19532 54.959 54.808 55.003 0.6665 0.1797 -4.661E-05 NaN 21.747 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 882060 + 19064 12188 12239 12267 -0.0037656296578916226 LYHDIFSRL 9 Unmodified _LYHDIFSRL_ 0 0 0 ENST00000588207.1_1_18:57637691-57638603:+|nuORF;ENST00000606261.1_1_7:26224125-26225400:+|nuORF;ENSG00000050344|ENST00000056233|NFE2L3 ENST00000588207.1_1_18:57637691-57638603:+|nuORF ENST00000588207.1_1_18:57637691-57638603:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 388.544921875 3 388.545108 1162.61349 2.2519 0.00087497 -0.41387 -0.00016081 1.838 0.00071416 388.5448574177361 55.929 0.23299 56.716 56.585 56.818 0.78711 43 19 3 0 0 0 0.012065 1 25531 25531 40.725 0 1 1555000 19065 583 12240 12268 21729 21729 0.03869120742956511 LYHDIFSRL 9 Unmodified _LYHDIFSRL_ 0 0 0 ENST00000588207.1_1_18:57637691-57638603:+|nuORF;ENST00000606261.1_1_7:26224125-26225400:+|nuORF;ENSG00000050344|ENST00000056233|NFE2L3 ENST00000588207.1_1_18:57637691-57638603:+|nuORF ENST00000588207.1_1_18:57637691-57638603:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 388.545108 1162.61349 2.7862 0.0010826 -0.39483 -0.00015341 2.3914 0.00092917 388.5449767298672 56.95 0.2214 56.95 56.843 57.064 0 0.045768 0.00019403 NaN 40.725 38 24 2 NaN NaN NaN NaN 0 NaN NaN 0 1357600 19066 583 12240 12268 0.03869120742956511 LYHDIFSRL 9 Unmodified _LYHDIFSRL_ 0 0 0 ENST00000588207.1_1_18:57637691-57638603:+|nuORF;ENST00000606261.1_1_7:26224125-26225400:+|nuORF;ENSG00000050344|ENST00000056233|NFE2L3 ENST00000588207.1_1_18:57637691-57638603:+|nuORF ENST00000588207.1_1_18:57637691-57638603:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 388.545108 1162.61349 2.8364 0.0011021 -1.2098 -0.00047008 1.6265 0.00063199 388.5446099359464 56.881 0.19854 57.145 57.031 57.229 0.26443 0.24074 -0.00075599 NaN 40.725 13 7 2 NaN NaN NaN NaN 0 NaN NaN 0 810340 19067 583 12240 12268 0.03869120742956511 LYHDIFSRL 9 Unmodified _LYHDIFSRL_ 0 0 0 ENST00000588207.1_1_18:57637691-57638603:+|nuORF;ENST00000606261.1_1_7:26224125-26225400:+|nuORF;ENSG00000050344|ENST00000056233|NFE2L3 ENST00000588207.1_1_18:57637691-57638603:+|nuORF ENST00000588207.1_1_18:57637691-57638603:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 388.545108 1162.61349 2.853 0.0011085 -0.77971 -0.00030295 2.0733 0.00080558 388.54481219462764 56.138 0.30107 56.807 56.658 56.959 0.66829 -0.098035 -0.0002546 NaN 40.725 29 18 2 NaN NaN NaN NaN 0 NaN NaN 0 891340 19068 583 12240 12268 0.03869120742956511 LYHNWRHAF 9 Unmodified _LYHNWRHAF_ 0 0 0 ENSG00000128655|ENST00000286063|PDE11A;nc|ENSG00000128655|Q9HCR9-4|PDE11A;nc|ENSG00000128655|Q9HCR9-3|PDE11A;nc|ENSG00000128655|Q9HCR9-2|PDE11A;ENST00000497003.5_1_2:178552959-178791632:-|nuORF ENSG00000128655|ENST00000286063|PDE11A ENSG00000128655|ENST00000286063|PDE11A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 415.209716796875 3 415.20883 1242.60466 2.7946 0.0011604 0.0019701 8.1799E-07 2.7966 0.0011612 415.2087360262743 28.679 0.29208 29.469 29.335 29.627 0.78921 53 25 3 0 0 0 0.136 1 12932 12932 27.629 20.02 1 494630 19069 2522 12241 12269 21730 21730 -0.006938081028692977 LYIAKPRMLF 10 Unmodified _LYIAKPRMLF_ 0 0 0 REV__ENST00000488564.2_1_7:27881117-27881465:+|nuORF REV__ENST00000488564.2_1_7:27881117-27881465:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 417.9159240722656 3 417.914255 1250.72094 NaN NaN NaN NaN NaN NaN NaN 65.801 1 66.457 65.957 66.957 0.65672 0 0 0 0.99741 1 30166 30166 3.8763 0.28927 1 + 19070 16781 12242 12270 21731 21731 0.1056037435282633 LYIDWTENYKH 11 Unmodified _LYIDWTENYKH_ 0 0 0 CON__Q1A7A4 CON__Q1A7A4 CON__Q1A7A4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 741.3577880859375 2 741.356616 1480.69868 3.6041 0.0026719 -2.1155 -0.0015684 1.4885 0.0011035 741.8568668796082 45.171 0.17421 45.997 45.896 46.07 0.82621 13 10 2 0 0 0 0.1322 1 20575 20575 36.506 18.36 1 969680 + 19071 226 12243 12271 21732 21732 -0.02244178581918277 LYIDWTENYKH 11 Unmodified _LYIDWTENYKH_ 0 0 0 CON__Q1A7A4 CON__Q1A7A4 CON__Q1A7A4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 741.356689453125 2 741.356616 1480.69868 3.846 0.0028513 -2.0528 -0.0015218 1.7933 0.0013295 741.3557444013338 46.049 0.20662 46.315 46.198 46.405 0.26561 20 9 3 0 0 0 0.34052 1 21057 21057 23.79 12.966 1 386420 + 19072 226 12243 12271 21733 21733 -0.02244178581918277 LYIDWTENYKH 11 Unmodified _LYIDWTENYKH_ 0 0 0 CON__Q1A7A4 CON__Q1A7A4 CON__Q1A7A4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 741.3578491210938 2 741.356616 1480.69868 4.1997 0.0031135 -2.4292 -0.0018009 1.7705 0.0013126 741.3551888702423 45.489 0.30174 46.14 45.938 46.24 0.65104 23 14 2 0 0 0 0.5133 1 20826 20826 18.373 8.99 1 366520 + 19073 226 12243 12271 21734 21734 -0.02244178581918277 LYIDWTENYKH 11 Unmodified _LYIDWTENYKH_ 0 0 0 CON__Q1A7A4 CON__Q1A7A4 CON__Q1A7A4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 741.356616 1480.69868 3.5698 0.0026465 -0.24224 -0.00017958 3.3276 0.0024669 741.3571857103794 46.23 0.071365 46.23 46.209 46.281 0 0.059636 0.0026488 NaN 36.506 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 932050 + 19074 226 12243 12271 -0.02244178581918277 LYIFNSSSFL 10 Unmodified _LYIFNSSSFL_ 0 0 0 REV__nc|ENSG00000164796|Q7Z407-5|CSMD3 REV__nc|ENSG00000164796|Q7Z407-5|CSMD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.5420227050781 3 397.541252 1189.60193 3.2554 0.0012941 -0.69973 -0.00027817 2.5557 0.001016 397.8754553634222 41.511 0.27301 41.781 41.671 41.944 0.27021 43 16 4 0 0 0 0.7484 1 18882 18882 10.899 1.1347 1 2686700 + 19075 13114 12244 12272 21735 21735 0.014708789289670676 LYIGWDKHYGF 11 Unmodified _LYIGWDKHYGF_ 0 0 0 ENST00000557929.5_1_15:78834269-78838932:+|nuORF;nc|ENSG00000041357|P25789-2|PSMA4;PSMA4|p.I194Sfs*6|1|0.21|ENSG00000041357|chr15:78546646-78546647|-/AGCAA|frameshift_variant;ENSG00000041357|ENST00000044462|PSMA4 ENST00000557929.5_1_15:78834269-78838932:+|nuORF ENST00000557929.5_1_15:78834269-78838932:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.8990173339844 3 466.89955 1397.67682 2.7277 0.0012736 0.011346 5.2975E-06 2.739 0.0012789 467.2339943929937 64.624 0.197 64.872 64.79 64.987 0.24803 40 27 2 0 0 0 0.022526 2 29591 29591;29646 53.47 42.67 1 6084500 19076 537 12245 12273 21736;21737 21736 -0.006109385398303857 LYIGWDKHYGF 11 Unmodified _LYIGWDKHYGF_ 0 0 0 ENST00000557929.5_1_15:78834269-78838932:+|nuORF;nc|ENSG00000041357|P25789-2|PSMA4;PSMA4|p.I194Sfs*6|1|0.21|ENSG00000041357|chr15:78546646-78546647|-/AGCAA|frameshift_variant;ENSG00000041357|ENST00000044462|PSMA4 ENST00000557929.5_1_15:78834269-78838932:+|nuORF ENST00000557929.5_1_15:78834269-78838932:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.23492431640625 3 466.89955 1397.67682 2.9041 0.0013559 -0.33371 -0.00015581 2.5704 0.0012001 467.2338173027112 64.106 0.13428 64.762 64.65 64.784 0.65672 21 15 2 0 0 0 0.039466 2 29348 29344;29348 37.251 25.377 1 6554300 19077 537 12245 12273 21738;21739 21739 -0.006109385398303857 LYIGWDKHYGF 11 Unmodified _LYIGWDKHYGF_ 0 0 0 ENST00000557929.5_1_15:78834269-78838932:+|nuORF;nc|ENSG00000041357|P25789-2|PSMA4;PSMA4|p.I194Sfs*6|1|0.21|ENSG00000041357|chr15:78546646-78546647|-/AGCAA|frameshift_variant;ENSG00000041357|ENST00000044462|PSMA4 ENST00000557929.5_1_15:78834269-78838932:+|nuORF ENST00000557929.5_1_15:78834269-78838932:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.90142822265625 3 466.89955 1397.67682 NaN NaN NaN NaN NaN NaN NaN 64.131 1 64.787 64.287 65.287 0.65672 0 0 0 0.016712 1 29396 29396 43.477 38.074 1 19078 537 12245 12273 21740 21740 -0.006109385398303857 LYIGWDKHYGF 11 Unmodified _LYIGWDKHYGF_ 0 0 0 ENST00000557929.5_1_15:78834269-78838932:+|nuORF;nc|ENSG00000041357|P25789-2|PSMA4;PSMA4|p.I194Sfs*6|1|0.21|ENSG00000041357|chr15:78546646-78546647|-/AGCAA|frameshift_variant;ENSG00000041357|ENST00000044462|PSMA4 ENST00000557929.5_1_15:78834269-78838932:+|nuORF ENST00000557929.5_1_15:78834269-78838932:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 466.89955 1397.67682 2.2592 0.0010548 0.39272 0.00018336 2.6519 0.0012382 467.2335279522678 64.681 0.12479 64.681 64.648 64.773 0 -0.090897 0.00060828 NaN 53.47 27 18 2 NaN NaN NaN NaN 0 NaN NaN 0 4206300 19079 537 12245 12273 -0.006109385398303857 LYIQTDHLFF 10 Unmodified _LYIQTDHLFF_ 0 0 0 ENSG00000137845|ENST00000260408|ADAM10;ENST00000396136.6_1_15:58889748-58968450:-|nuORF ENSG00000137845|ENST00000260408|ADAM10 ENSG00000137845|ENST00000260408|ADAM10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 649.3391723632812 2 648.834788 1295.65502 3.6128 0.0023441 1.0871 0.00070534 4.6999 0.0030494 648.8353194225332 81.743 0.20916 81.991 81.837 82.046 0.24803 13 10 2 0 0 0 0.32471 1 37607 37607 27.629 11.782 1 629700 19080 3048 12246 12274 21741 21741 0.019022567116053324 LYIQTDHLFF 10 Unmodified _LYIQTDHLFF_ 0 0 0 ENSG00000137845|ENST00000260408|ADAM10;ENST00000396136.6_1_15:58889748-58968450:-|nuORF ENSG00000137845|ENST00000260408|ADAM10 ENSG00000137845|ENST00000260408|ADAM10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 648.8366088867188 2 648.834788 1295.65502 4.0176 0.0026067 -0.66107 -0.00042892 3.3565 0.0021778 648.8344814534107 81.038 0.21147 81.698 81.594 81.805 0.65998 14 9 2 0 0 0 0.0691 1 37354 37354 57.722 32.323 1 498860 19081 3048 12246 12274 21742 21742 0.019022567116053324 LYIVEPLKF 9 Unmodified _LYIVEPLKF_ 0 0 0 ENSG00000094975|ENST00000263688|SUCO;nc|ENSG00000094975|Q9UBS9-2|SUCO ENSG00000094975|ENST00000263688|SUCO ENSG00000094975|ENST00000263688|SUCO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.3349609375 2 561.333893 1120.65323 2.7508 0.0015441 0.50466 0.00028328 3.2554 0.0018274 561.8360487726565 77.708 0.23047 78.269 78.201 78.431 0.56091 35 21 2 0 0 0 0.057945 1 37733 37733 43.772 14.691 1 3333700 19082 1113 12247 12275 21743 21743 0.09773247693647136 LYIVEPLKF 9 Unmodified _LYIVEPLKF_ 0 0 0 ENSG00000094975|ENST00000263688|SUCO;nc|ENSG00000094975|Q9UBS9-2|SUCO ENSG00000094975|ENST00000263688|SUCO ENSG00000094975|ENST00000263688|SUCO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.3359985351562 2 561.333893 1120.65323 3.422 0.0019209 0.30391 0.0001706 3.7259 0.0020915 561.3340087364198 78.118 0.30904 78.371 78.241 78.55 0.25335 47 17 3 0 0 0 0.03963 3 35974 35934;35974;36029 51.63 24.746 1 1430300 19083 1113 12247 12275 21744;21745;21746 21745 0.09773247693647136 LYIVEPLKF 9 Unmodified _LYIVEPLKF_ 0 0 0 ENSG00000094975|ENST00000263688|SUCO;nc|ENSG00000094975|Q9UBS9-2|SUCO ENSG00000094975|ENST00000263688|SUCO ENSG00000094975|ENST00000263688|SUCO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.3357543945312 2 561.333893 1120.65323 3.3884 0.001902 1.2022 0.00067484 4.5906 0.0025768 561.3340036148792 77.664 0.34537 78.327 78.136 78.481 0.66303 46 20 3 0 0 0 0.02631 2 35823 35776;35823 60.074 23.947 1 1506100 19084 1113 12247 12275 21747;21748 21748 0.09773247693647136 LYIVEPLKF 9 Unmodified _LYIVEPLKF_ 0 0 0 ENSG00000094975|ENST00000263688|SUCO;nc|ENSG00000094975|Q9UBS9-2|SUCO ENSG00000094975|ENST00000263688|SUCO ENSG00000094975|ENST00000263688|SUCO MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 561.333893 1120.65323 2.8829 0.0016183 -0.43507 -0.00024422 2.4479 0.0013741 561.3335786253573 78.627 0.10926 78.627 78.592 78.701 0 0.2289 -0.00071421 NaN 60.074 14 8 2 NaN NaN NaN NaN 0 NaN NaN 0 3828900 19085 1113 12247 12275 0.09773247693647136 LYIVHPTMF 9 Unmodified _LYIVHPTMF_ 0 0 0 ENSG00000175220|ENST00000311956|ARHGAP1 ENSG00000175220|ENST00000311956|ARHGAP1 ENSG00000175220|ENST00000311956|ARHGAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.7987060546875 2 560.79662 1119.57869 2.8107 0.0015762 -2.2227 -0.0012465 0.58797 0.00032973 560.7948872700924 69.985 0.19045 69.985 69.857 70.048 0 32 20 2 0 0 0 0.028312 1 33865 33865 57.471 38.032 1 2987500 19086 5021 12248 12276 21749 21749 0.02368161610615971 LYIVHPTMF 9 Unmodified _LYIVHPTMF_ 0 0 0 ENSG00000175220|ENST00000311956|ARHGAP1 ENSG00000175220|ENST00000311956|ARHGAP1 ENSG00000175220|ENST00000311956|ARHGAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.7982177734375 2 560.79662 1119.57869 3.6352 0.0020386 0.22154 0.00012424 3.8568 0.0021629 560.796630593927 69.712 0.27399 69.967 69.819 70.093 0.25443 38 16 3 0 0 0 3.8618E-05 2 31945 31893;31945 137.59 109.1 1 1917000 19087 5021 12248 12276 21750;21751 21751 0.02368161610615971 LYIVHPTMF 9 Unmodified _LYIVHPTMF_ 0 0 0 ENSG00000175220|ENST00000311956|ARHGAP1 ENSG00000175220|ENST00000311956|ARHGAP1 ENSG00000175220|ENST00000311956|ARHGAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.7977905273438 2 560.79662 1119.57869 3.286 0.0018428 -0.053475 -2.9988E-05 3.2325 0.0018128 560.7965648523 69.163 0.24866 69.824 69.707 69.956 0.66071 45 15 4 0 0 0 0.00054818 2 31685 31685;31737 131.3 102.81 1 1710500 19088 5021 12248 12276 21752;21753 21752 0.02368161610615971 LYIVHPTMF 9 Unmodified _LYIVHPTMF_ 0 0 0 ENSG00000175220|ENST00000311956|ARHGAP1 ENSG00000175220|ENST00000311956|ARHGAP1 ENSG00000175220|ENST00000311956|ARHGAP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 560.79662 1119.57869 2.7498 0.0015421 -4.8618 -0.0027265 -2.112 -0.0011844 560.7935755320221 69.197 0.021225 69.9 69.88 69.901 0.70218 -0.019251 -0.005262 NaN 137.59 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 2639400 19089 5021 12248 12276 0.02368161610615971 LYIYPQSLNF 10 Unmodified _LYIYPQSLNF_ 0 0 0 nc|ENSG00000116641|Q96N67-4|DOCK7;nc|ENSG00000116641|Q96N67-3|DOCK7;nc|ENSG00000116641|Q96N67-5|DOCK7;nc|ENSG00000116641|Q96N67-2|DOCK7;nc|ENSG00000116641|Q96N67-6|DOCK7;ENSG00000116641|ENST00000635253|DOCK7;DOCK7|p.E1876Lfs*12|1|0.03|ENSG00000116641|chr1:62476133-62476134|-/GTGCAATTTTGTTTGAGAAAGA|frameshift_variant;nc|ENSG00000116641|Q96N67-7|DOCK7 nc|ENSG00000116641|Q96N67-4|DOCK7 nc|ENSG00000116641|Q96N67-4|DOCK7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 629.3323364257812 2 629.329339 1256.64412 3.8616 0.0024302 1.1427 0.00071915 5.0043 0.0031494 629.3299068307593 86.325 0.19963 86.575 86.423 86.623 0.24974 15 8 2 0 0 0 0.11978 1 39707 39707 49.933 20.851 1 1068500 19090 2035 12249 12277 21754 21754 0.026068543373185094 LYIYPQSLNF 10 Unmodified _LYIYPQSLNF_ 0 0 0 nc|ENSG00000116641|Q96N67-4|DOCK7;nc|ENSG00000116641|Q96N67-3|DOCK7;nc|ENSG00000116641|Q96N67-5|DOCK7;nc|ENSG00000116641|Q96N67-2|DOCK7;nc|ENSG00000116641|Q96N67-6|DOCK7;ENSG00000116641|ENST00000635253|DOCK7;DOCK7|p.E1876Lfs*12|1|0.03|ENSG00000116641|chr1:62476133-62476134|-/GTGCAATTTTGTTTGAGAAAGA|frameshift_variant;nc|ENSG00000116641|Q96N67-7|DOCK7 nc|ENSG00000116641|Q96N67-4|DOCK7 nc|ENSG00000116641|Q96N67-4|DOCK7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 629.3327026367188 2 629.329339 1256.64412 3.968 0.0024971 0.048278 3.0383E-05 4.0162 0.0025275 629.3290314808819 85.79 0.26702 86.46 86.332 86.599 0.67061 22 15 2 0 0 0 0.037885 1 39485 39485 65.235 29.108 1 540010 19091 2035 12249 12277 21755 21755 0.026068543373185094 LYIYRKWHRKE 11 Unmodified _LYIYRKWHRKE_ 0 0 0 REV__ENSG00000101343|ENST00000536226|CRNKL1 REV__ENSG00000101343|ENST00000536226|CRNKL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 796.090576171875 2 796.446434 1590.87832 NaN NaN NaN NaN NaN NaN NaN 96.239 1 96.239 95.739 96.739 0 0 0 0 1.0082 1 52031 52031 0.30703 0.30703 1 + 19092 10889 12250 12278 21756 21756 0.10651170216510764 LYKGLNPATL 10 Unmodified _LYKGLNPATL_ 0 0 0 nc|ENSG00000134324|Q14693-6|LPIN1;nc|ENSG00000134324|Q14693|LPIN1;nc|ENSG00000134324|Q14693-2|LPIN1;nc|ENSG00000134324|Q14693-4|LPIN1;ENSG00000134324|ENST00000674199|LPIN1;nc|ENSG00000134324|Q14693-5|LPIN1;nc|ENSG00000134324|Q14693-7|LPIN1 nc|ENSG00000134324|Q14693-6|LPIN1 nc|ENSG00000134324|Q14693-6|LPIN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.6475830078125 2 545.318774 1088.623 NaN NaN NaN NaN NaN NaN NaN 79.889 1 80.55 80.05 81.05 0.66082 0 0 0 0.99572 1 36811 36811 5.2969 0.96765 1 19093 2802 12251 12279 21757 21757 0.08222889028479585 LYKHVVQI 8 Unmodified _LYKHVVQI_ 0 0 0 SCAF4|p.F186Lfs*36|1|0.23|ENSG00000156304|chr21:31701812-31701818|AGCAGCA/-|frameshift_variant;ENST00000485790.1_1_21:33073145-33104086:-|nuORF;SCAF4|p.P721Hfs*25|1|0.28|ENSG00000156304|chr21:31685611-31685617|TGGAGGA/-|frameshift_variant;nc|ENSG00000156304|O95104-2|SCAF4;ENSG00000156304|ENST00000286835|SCAF4 SCAF4|p.F186Lfs*36|1|0.23|ENSG00000156304|chr21:31701812-31701818|AGCAGCA/-|frameshift_variant SCAF4|p.F186Lfs*36|1|0.23|ENSG00000156304|chr21:31701812-31701818|AGCAGCA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.3034973144531 2 500.302927 998.591301 NaN NaN NaN NaN NaN NaN NaN 18.411 1 18.712 18.212 19.212 0.30158 0 0 0 0.60351 1 8347 8347 18.135 6.4947 1 19094 3906 12252 12280 21758 21758 0.09194941065175044 LYKKIIKRLLK 11 Unmodified _LYKKIIKRLLK_ 0 0 0 CON__P02777 CON__P02777 CON__P02777 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 708.4976806640625 2 708.494865 1414.97518 NaN NaN NaN NaN NaN NaN NaN 58.994 1 58.994 58.494 59.494 0 0 0 0 1.008 1 27254 27254 0.30703 0 1 + 19095 214 12253 12281 21759 21759 0.28428764443651744 LYKKRFTK 8 Unmodified _LYKKRFTK_ 0 0 0 REV__ENST00000487990.5_1_21:35932136-35932283:-|nuORF REV__ENST00000487990.5_1_21:35932136-35932283:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.3380737304688 2 542.337301 1082.66005 NaN NaN NaN NaN NaN NaN NaN 32.108 1 32.726 32.226 33.226 0.61831 0 0 0 0.99035 1 14723 14723 2.0598 0.21551 1 + 19096 16776 12254 12282 21760 21760 0.12202605364882402 LYKLMLRRFG 10 Unmodified _LYKLMLRRFG_ 0 0 0 nc|ENSG00000256061|Q8WXU2-3|DNAAF4 nc|ENSG00000256061|Q8WXU2-3|DNAAF4 nc|ENSG00000256061|Q8WXU2-3|DNAAF4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.8851318359375 2 648.884093 1295.75363 NaN NaN NaN NaN NaN NaN NaN 6.1847 1 6.5375 6.0375 7.0375 0.35278 0 0 0 1.0015 1 2799 2799 0.40072 0 1 19097 9855 12255 12283 21761 21761 0.11758581475646679 LYKPKQEVKF 10 Unmodified _LYKPKQEVKF_ 0 0 0 nc|ENSG00000156535|Q6YHK3-4|CD109;ENSG00000156535|ENST00000287097|CD109;nc|ENSG00000156535|Q6YHK3-3|CD109 nc|ENSG00000156535|Q6YHK3-4|CD109 nc|ENSG00000156535|Q6YHK3-4|CD109 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 427.25286865234375 3 427.251813 1278.73361 NaN NaN NaN NaN NaN NaN NaN 24.381 1 25.118 24.618 25.618 0.73623 0 0 0 0.65234 1 10922 10922 17.863 9.1114 1 19098 3916 12256 12284 21762 21762 0.10539109016690418 LYKSLNPNL 9 Unmodified _LYKSLNPNL_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.305419921875 2 531.303124 1060.5917 NaN NaN NaN NaN NaN NaN NaN 42.613 1 42.613 42.113 43.113 0 0 0 0 0.020377 1 19401 19401 72.968 31.128 1 19099 2480 12257 12285 21763 21763 0.06382315994369492 LYKTQVFRWLL 11 Unmodified _LYKTQVFRWLL_ 0 0 0 ENST00000420509.1_1_2:206951183-206951264:+|nuORF ENST00000420509.1_1_2:206951183-206951264:+|nuORF ENST00000420509.1_1_2:206951183-206951264:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 733.931884765625 2 733.929554 1465.84456 NaN NaN NaN NaN NaN NaN NaN 103.73 1 103.73 103.23 104.23 0 0 0 0 1.0073 1 57142 57142 1.1933 0 1 19100 7753 12258 12286 21764 21764 0.13026748724792014 LYLARAAAP 9 Unmodified _LYLARAAAP_ 0 0 0 REV__ENST00000486831.5_1_3:138153627-138153909:+|nuORF REV__ENST00000486831.5_1_3:138153627-138153909:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.281005859375 2 473.279452 944.544351 2.9854 0.0014129 -0.21879 -0.00010355 2.7666 0.0013094 473.27923731943235 52.996 0.27277 52.996 52.876 53.149 0 26 14 2 0 0 0 0.12301 1 24265 24265 28.487 2.1456 1 919350 + 19101 16756 12259 12287 21765 21765 0.06986081514025955 LYLCERLVRFW 11 Unmodified _LYLCERLVRFW_ 0 0 0 ENSG00000165168|ENST00000378588|CYBB ENSG00000165168|ENST00000378588|CYBB ENSG00000165168|ENST00000378588|CYBB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 749.908935546875 2 749.405389 1496.79623 3.6176 0.0027111 -1.4109 -0.0010574 2.2067 0.0016537 749.4043010468764 79.687 0.17977 79.937 79.855 80.034 0.24947 30 11 3 0 0 0 0.67822 1 36679 36679 12.241 8.9593 1 955860 19102 4377 12260 12288 21766 21766 0.06769931813232688 LYLCERLVRFW 11 Unmodified _LYLCERLVRFW_ 0 0 0 ENSG00000165168|ENST00000378588|CYBB ENSG00000165168|ENST00000378588|CYBB ENSG00000165168|ENST00000378588|CYBB MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 749.405389 1496.79623 3.9794 0.0029822 -1.51 -0.0011316 2.4694 0.0018506 749.905998483209 79.138 0.21666 79.799 79.707 79.924 0.66082 -0.06898 -6.4364E-05 NaN 12.241 27 13 3 NaN NaN NaN NaN 0 NaN NaN 0 829310 19103 4377 12260 12288 0.06769931813232688 LYLCQALWYI 10 Unmodified _LYLCQALWYI_ 0 0 0 REV__ENST00000375310.5_2_13:115000559-115004790:+|nuORF REV__ENST00000375310.5_2_13:115000559-115004790:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 643.4461669921875 2 643.33611 1284.65767 NaN NaN NaN NaN NaN NaN NaN 79.019 1 79.483 78.983 79.983 0.4642 0 0 0 0.99733 1 38527 38527 3.9444 0.3479 1 + 19104 11803 12261 12289 21767 21767 0.026723888449168953 LYLDEAHSI 9 Unmodified _LYLDEAHSI_ 0 0 0 ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.7715454101562 2 530.769114 1059.52368 3.0364 0.0016116 0.34522 0.00018323 3.3816 0.0017949 530.7695553066108 48.041 0.18377 48.041 47.955 48.139 0 14 8 2 0 0 0 0.028312 1 22002 22002 57.471 0 1 331430 19105 1229 12262 12290 21768 21768 -0.0037055365628475556 LYLDEAHSI 9 Unmodified _LYLDEAHSI_ 0 0 0 ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.7716674804688 2 530.769114 1059.52368 3.0697 0.0016293 1.0461 0.00055522 4.1158 0.0021845 530.7700000604174 49.785 0.3494 49.785 49.586 49.935 0 34 15 3 0 0 0 0.015468 2 22756 22756;22820 74.423 0 1 778900 19106 1229 12262 12290 21769;21770 21769 -0.0037055365628475556 LYLDEAHSI 9 Unmodified _LYLDEAHSI_ 0 0 0 ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.7713623046875 2 530.769114 1059.52368 3.1252 0.0016587 1.8599 0.00098719 4.9851 0.0026459 530.7702068145262 48.714 0.31262 49.542 49.394 49.707 0.82705 28 17 2 0 0 0 0.0044949 2 22192 22175;22192 92.822 0 1 728820 19107 1229 12262 12290 21771;21772 21772 -0.0037055365628475556 LYLDEAHSI 9 Unmodified _LYLDEAHSI_ 0 0 0 ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.7708129882812 2 530.769114 1059.52368 3.3603 0.0017836 0.57766 0.00030661 3.938 0.0020902 530.7694604706335 47.98 0.33839 48.242 48.037 48.375 0.26209 20 13 2 0 0 0 0.010221 2 21912 21912;21971 81.613 0 1 686480 19108 1229 12262 12290 21773;21774 21773 -0.0037055365628475556 LYLDEAHSI 9 Unmodified _LYLDEAHSI_ 0 0 0 ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.7710571289062 2 530.769114 1059.52368 3.186 0.001691 0.4512 0.00023948 3.6372 0.0019305 530.7692583865054 49.617 0.33144 49.878 49.698 50.029 0.26146 31 13 3 0 0 0 0.0044949 2 22669 22669;22723 92.822 0 1 1027700 19109 1229 12262 12290 21775;21776 21775 -0.0037055365628475556 LYLDEAHSI 9 Unmodified _LYLDEAHSI_ 0 0 0 ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.77099609375 2 530.769114 1059.52368 3.2441 0.0017219 0.68347 0.00036277 3.9276 0.0020847 530.7695083138603 47.394 0.29129 48.047 47.855 48.147 0.65356 25 12 3 0 0 0 0.012869 2 21728 21674;21728 77.984 0 1 526370 19110 1229 12262 12290 21777;21778 21778 -0.0037055365628475556 LYLDEAHSI 9 Unmodified _LYLDEAHSI_ 0 0 0 ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.7709350585938 2 530.769114 1059.52368 3.3533 0.0017798 0.62737 0.00033299 3.9807 0.0021128 530.7693310706809 49.125 0.24818 49.78 49.635 49.883 0.65524 18 8 3 0 0 0 0.010221 1 22457 22457 81.613 0 1 1389300 19111 1229 12262 12290 21779 21779 -0.0037055365628475556 LYLDEAHSI 9 Unmodified _LYLDEAHSI_ 0 0 0 ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 530.769114 1059.52368 2.9573 0.0015696 0.20114 0.00010676 3.1584 0.0016764 530.769260825622 47.027 0.15369 47.857 47.735 47.889 0.82915 -0.19013 -0.00034816 NaN 81.613 14 8 2 NaN NaN NaN NaN 0 NaN NaN 0 384990 19112 1229 12262 12290 -0.0037055365628475556 LYLDEPHTRPL 11 Unmodified _LYLDEPHTRPL_ 0 0 0 REV__ENST00000509943.1_1_17:48286340-48286481:+|nuORF REV__ENST00000509943.1_1_17:48286340-48286481:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.91070556640625 3 451.910227 1352.70885 NaN NaN NaN NaN NaN NaN NaN 14.083 1 14.083 13.583 14.583 0 0 0 0 1.0072 1 6196 6196 0.45452 0 1 + 19113 16966 12263 12291 21780 21780 0.04660429143336842 LYLENIDEF 9 Unmodified _LYLENIDEF_ 0 0 0 ENSG00000077514|ENST00000263681|POLD3;ENST00000532497.5_1_11:74303703-74322559:+|nuORF;ENST00000527458.5_1_11:74303652-74303820:+|nuORF;ENST00000532784.5_1_11:74303703-74306426:+|nuORF ENSG00000077514|ENST00000263681|POLD3 ENSG00000077514|ENST00000263681|POLD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.283935546875 2 578.282054 1154.54956 NaN NaN NaN NaN NaN NaN NaN 80.699 1 81.359 80.859 81.859 0.65998 0 0 0 0.52667 1 37185 37185 18.135 0 1 19114 866 12264 12292 21781 21781 -0.02153704204670248 LYLEPQGTLF 10 Unmodified _LYLEPQGTLF_ 0 0 0 nc|ENSG00000065243|Q16513-5|PKN2;nc|ENSG00000065243|Q16513-4|PKN2;nc|ENSG00000065243|Q16513-2|PKN2;ENSG00000065243|ENST00000370521|PKN2 nc|ENSG00000065243|Q16513-5|PKN2 nc|ENSG00000065243|Q16513-5|PKN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.818603515625 2 590.816064 1179.61758 3.8659 0.002284 -0.11097 -6.5565E-05 3.7549 0.0022185 590.8159257497462 84.339 0.21672 85.001 84.89 85.107 0.66219 21 12 2 0 0 0 0.27335 1 38850 38850 30.637 17.594 1 401070 19115 684 12265 12293 21782 21782 0.034951654459973724 LYLEPQGTLF 10 Unmodified _LYLEPQGTLF_ 0 0 0 nc|ENSG00000065243|Q16513-5|PKN2;nc|ENSG00000065243|Q16513-4|PKN2;nc|ENSG00000065243|Q16513-2|PKN2;ENSG00000065243|ENST00000370521|PKN2 nc|ENSG00000065243|Q16513-5|PKN2 nc|ENSG00000065243|Q16513-5|PKN2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 590.816064 1179.61758 3.6461 0.0021542 0.62056 0.00036664 4.2667 0.0025208 590.8166919603309 84.907 0.24283 85.155 85.005 85.247 0.24758 0.076992 0.00057713 NaN 30.637 14 13 2 NaN NaN NaN NaN 0 NaN NaN 0 392920 19116 684 12265 12293 0.034951654459973724 LYLERLSSL 9 Unmodified _LYLERLSSL_ 0 0 0 REV__ENSG00000174348|ENST00000312553|PODN REV__ENSG00000174348|ENST00000312553|PODN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.315673828125 2 547.316232 1092.61791 NaN NaN NaN NaN NaN NaN NaN 69.699 1 69.954 69.454 70.454 0.25443 0 0 0 0.20925 1 31917 31917 39.95 5.548 1 + 19117 13630 12266 12294 21783 21783 0.0753058516584133 LYLGCNELASF 11 Unmodified _LYLGCNELASF_ 0 0 0 ENSG00000176020|ENST00000320431|AMIGO3 ENSG00000176020|ENST00000320431|AMIGO3 ENSG00000176020|ENST00000320431|AMIGO3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 615.2979736328125 2 615.297181 1228.57981 3.7454 0.0023045 -2.4485 -0.0015066 1.2969 0.00079796 615.2952461637094 90.592 0.10466 91.265 91.225 91.33 0.67271 7 4 2 0 0 0 0.80294 1 41710 41710 6.7232 1.4925 1 388570 19118 5059 12267 12295 21784 21784 -0.02533668811156531 LYLGDGYVI 9 Unmodified _LYLGDGYVI_ 0 0 0 nc|ENSG00000127252|Q9HDD0-2|PLAAT1;ENSG00000127252|ENST00000264735|PLAAT1 nc|ENSG00000127252|Q9HDD0-2|PLAAT1 nc|ENSG00000127252|Q9HDD0-2|PLAAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1012.539306640625 1 1012.53497 1011.5277 3.2445 0.0032851 -0.84346 -0.00085403 2.401 0.0024311 1012.5340578174546 79.955 0.20578 80.205 80.129 80.335 0.24947 19 14 2 0 0 0 0.0061269 1 36865 36865 89.427 0 1 533160 19119 9627 12268 12296 21785 21785 0.02239535837418316 LYLGIRQVS 9 Unmodified _LYLGIRQVS_ 0 0 0 ENSG00000125741|ENST00000263275|OPA3;nc|ENSG00000125741|Q9H6K4-2|OPA3 ENSG00000125741|ENST00000263275|OPA3 ENSG00000125741|ENST00000263275|OPA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.843994140625 2 524.811116 1047.60768 NaN NaN NaN NaN NaN NaN NaN 53.682 1 54.485 53.985 54.985 0.80351 0 0 0 0.90511 1 24498 24498 2.3027 0 1 19120 2417 12269 12297 21786 21786 0.08578022231290561 LYLGRAEEF 9 Unmodified _LYLGRAEEF_ 0 0 0 nc|ENSG00000033100|Q9P2E5-2|CHPF2;ENSG00000033100|ENST00000035307|CHPF2 nc|ENSG00000033100|Q9P2E5-2|CHPF2 nc|ENSG00000033100|Q9P2E5-2|CHPF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.2887573242188 2 549.284931 1096.55531 2.7309 0.0015 1.6467 0.00090451 4.3776 0.0024045 549.2861907204411 51.282 0.19999 52.099 52.06 52.26 0.81738 18 14 2 0 0 0 0.1229 1 23393 23393 28.495 6.7479 1 862060 19121 502 12270 12298 21787 21787 0.010894390976545765 LYLIRLLMVIL 11 Unmodified _LYLIRLLMVIL_ 0 0 0 nc|ENSG00000144554|Q9BXW9-3|FANCD2;ENSG00000144554|ENST00000675286|FANCD2;nc|ENSG00000144554|Q9BXW9-1|FANCD2 nc|ENSG00000144554|Q9BXW9-3|FANCD2 nc|ENSG00000144554|Q9BXW9-3|FANCD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 680.4446411132812 2 680.443452 1358.87235 NaN NaN NaN NaN NaN NaN NaN 85.778 1 86.448 85.948 86.948 0.67061 0 0 0 1.008 1 39499 39499 0.35063 0 1 19122 3432 12271 12299 21788 21788 0.20726935660673007 LYLKALEGF 9 Unmodified _LYLKALEGF_ 0 0 0 ENSG00000116016|ENST00000263734|EPAS1 ENSG00000116016|ENST00000263734|EPAS1 ENSG00000116016|ENST00000263734|EPAS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.3052978515625 2 527.302593 1052.59063 3.0267 0.001596 -0.15136 -7.9814E-05 2.8753 0.0015162 527.3028251309195 72.213 0.17328 72.472 72.388 72.562 0.25876 17 14 2 0 0 0 0.099775 1 33169 33169 32.786 13.424 1 487230 19123 2007 12272 12300 21789 21789 0.06644101625443 LYLKALEGF 9 Unmodified _LYLKALEGF_ 0 0 0 ENSG00000116016|ENST00000263734|EPAS1 ENSG00000116016|ENST00000263734|EPAS1 ENSG00000116016|ENST00000263734|EPAS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.3013916015625 2 527.302593 1052.59063 2.6239 0.0013836 -0.40703 -0.00021463 2.2169 0.001169 527.3021673767105 71.874 0.19266 72.537 72.414 72.606 0.66324 17 12 2 0 0 0 0.03963 1 32923 32923 51.63 15.503 1 424410 19124 2007 12272 12300 21790 21790 0.06644101625443 LYLKALEGF 9 Unmodified _LYLKALEGF_ 0 0 0 ENSG00000116016|ENST00000263734|EPAS1 ENSG00000116016|ENST00000263734|EPAS1 ENSG00000116016|ENST00000263734|EPAS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 527.302593 1052.59063 2.5349 0.0013366 0.91257 0.0004812 3.4475 0.0018179 527.302872232754 72.529 0.14403 72.529 72.456 72.6 0 0.015936 0.00078495 NaN 51.63 15 14 2 NaN NaN NaN NaN 0 NaN NaN 0 786360 19125 2007 12272 12300 0.06644101625443 LYLKEEWSF 9 Unmodified _LYLKEEWSF_ 0 0 0 REV__ENSG00000110169|ENST00000265983|HPX REV__ENSG00000110169|ENST00000265983|HPX MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 607.8088989257812 2 607.808239 1213.60193 NaN NaN NaN NaN NaN NaN NaN 57.173 1 57.841 57.341 58.341 0.66829 0 0 0 0.89315 1 26160 26160 5.2307 0 1 + 19126 11198 12273 12301 21791 21791 0.003668789289349661 LYLKEVTKF 9 Unmodified _LYLKEVTKF_ 0 0 0 nc|ENSG00000025039|Q9NQL2-2|RRAGD;ENSG00000116954|ENST00000373001|RRAGC;ENSG00000025039|ENST00000369415|RRAGD nc|ENSG00000025039|Q9NQL2-2|RRAGD nc|ENSG00000025039|Q9NQL2-2|RRAGD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.8394775390625 2 570.8368 1139.65905 3.4401 0.0019637 -0.68381 -0.00039035 2.7563 0.0015734 570.8365823291906 48.1 0.17796 48.1 48.044 48.222 0 9 6 2 0 0 0 0.1229 1 22044 22044 28.495 13.913 1 254330 19127 476 12274 12302 21792 21792 0.09480346205327805 LYLKEVTKF 9 Unmodified _LYLKEVTKF_ 0 0 0 nc|ENSG00000025039|Q9NQL2-2|RRAGD;ENSG00000116954|ENST00000373001|RRAGC;ENSG00000025039|ENST00000369415|RRAGD nc|ENSG00000025039|Q9NQL2-2|RRAGD nc|ENSG00000025039|Q9NQL2-2|RRAGD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.22857666015625 3 380.893625 1139.65905 2.337 0.00089016 -0.03785 -1.4417E-05 2.2992 0.00087574 380.89359226689237 47.018 0.23937 47.847 47.705 47.944 0.82915 24 13 2 0 0 0 0.19064 1 21433 21433 17.443 10.341 1 410270 19128 476 12274 12302 21793 21793 0.09480346205327805 LYLKEVTKF 9 Unmodified _LYLKEVTKF_ 0 0 0 nc|ENSG00000025039|Q9NQL2-2|RRAGD;ENSG00000116954|ENST00000373001|RRAGC;ENSG00000025039|ENST00000369415|RRAGD nc|ENSG00000025039|Q9NQL2-2|RRAGD nc|ENSG00000025039|Q9NQL2-2|RRAGD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 570.8385620117188 2 570.8368 1139.65905 3.6569 0.0020875 -1.5742 -0.00089859 2.0827 0.0011889 570.8362237956728 48.003 0.13754 48.265 48.181 48.319 0.2621 8 5 2 0 0 0 0.22824 1 21945 21945 21.537 11.354 1 226830 19129 476 12274 12302 21794 21794 0.09480346205327805 LYLKEVTKF 9 Unmodified _LYLKEVTKF_ 0 0 0 nc|ENSG00000025039|Q9NQL2-2|RRAGD;ENSG00000116954|ENST00000373001|RRAGC;ENSG00000025039|ENST00000369415|RRAGD nc|ENSG00000025039|Q9NQL2-2|RRAGD nc|ENSG00000025039|Q9NQL2-2|RRAGD MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 380.893625 1139.65905 2.6982 0.0010277 -0.016605 -6.3246E-06 2.6816 0.0010214 380.89349362079565 48.132 0.21085 48.132 48.011 48.222 0 0.06662 -0.00011801 NaN 17.443 17 8 3 NaN NaN NaN NaN 0 NaN NaN 0 430760 19130 476 12274 12302 0.09480346205327805 LYLKEVTKF 9 Unmodified _LYLKEVTKF_ 0 0 0 nc|ENSG00000025039|Q9NQL2-2|RRAGD;ENSG00000116954|ENST00000373001|RRAGC;ENSG00000025039|ENST00000369415|RRAGD nc|ENSG00000025039|Q9NQL2-2|RRAGD nc|ENSG00000025039|Q9NQL2-2|RRAGD MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 380.893625 1139.65905 3.0032 0.0011439 -0.4033 -0.00015361 2.5999 0.0009903 380.8933786427892 48.014 0.18462 48.276 48.162 48.347 0.26209 0.21046 -0.00055988 NaN 17.443 13 7 2 NaN NaN NaN NaN 0 NaN NaN 0 533930 19131 476 12274 12302 0.09480346205327805 LYLKEVTKF 9 Unmodified _LYLKEVTKF_ 0 0 0 nc|ENSG00000025039|Q9NQL2-2|RRAGD;ENSG00000116954|ENST00000373001|RRAGC;ENSG00000025039|ENST00000369415|RRAGD nc|ENSG00000025039|Q9NQL2-2|RRAGD nc|ENSG00000025039|Q9NQL2-2|RRAGD MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 380.893625 1139.65905 2.7133 0.0010335 0.80345 0.00030603 3.5168 0.0013395 380.89392468316976 47.353 0.23568 48.006 47.877 48.113 0.65356 -0.058997 0.00081905 NaN 17.443 14 9 2 NaN NaN NaN NaN 0 NaN NaN 0 365550 19132 476 12274 12302 0.09480346205327805 LYLKKRWT 8 Unmodified _LYLKKRWT_ 0 0 0 REV__nc|ENSG00000185842|Q0VDD8|DNAH14 REV__nc|ENSG00000185842|Q0VDD8|DNAH14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.3367309570312 2 554.337301 1106.66005 NaN NaN NaN NaN NaN NaN NaN 33.758 1 34.012 33.512 34.512 0.25389 0 0 0 0.99035 1 15372 15372 2.8892 0 1 + 19133 18079 12275 12303 21795 21795 0.11098605364873038 LYLKVKGNVF 10 Unmodified _LYLKVKGNVF_ 0 0 0 ENSG00000108298|ENST00000225430|RPL19;ENST00000498753.1_1_3:141762467-141763034:-|nuORF;ENST00000472309.1_1_4:179208113-179208287:+|nuORF;ENST00000429272.1_1_2:131051524-131051887:+|nuORF;ENST00000418154.1_1_1:64254543-64254969:-|nuORF ENSG00000108298|ENST00000225430|RPL19 ENSG00000108298|ENST00000225430|RPL19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.2423095703125 3 394.241137 1179.70158 2.6384 0.0010402 0.10997 4.3354E-05 2.7484 0.0010835 394.24115542458685 50.417 0.30532 50.417 50.245 50.55 0 42 12 4 0 0 0 0.27335 1 23069 23069 20.581 3.1383 1 3437700 19134 1627 12276 12304 21796 21796 0.118917413335339 LYLKVKGNVF 10 Unmodified _LYLKVKGNVF_ 0 0 0 ENSG00000108298|ENST00000225430|RPL19;ENST00000498753.1_1_3:141762467-141763034:-|nuORF;ENST00000472309.1_1_4:179208113-179208287:+|nuORF;ENST00000429272.1_1_2:131051524-131051887:+|nuORF;ENST00000418154.1_1_1:64254543-64254969:-|nuORF ENSG00000108298|ENST00000225430|RPL19 ENSG00000108298|ENST00000225430|RPL19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.2420959472656 3 394.241137 1179.70158 2.6658 0.001051 -0.14691 -5.7919E-05 2.5189 0.00099306 394.24110199716614 49.47 0.35722 50.293 50.104 50.461 0.82285 51 18 4 0 0 0 0.053995 2 22545 22501;22545 43.982 15.487 1 2835900 19135 1627 12276 12304 21797;21798 21798 0.118917413335339 LYLKVKGNVF 10 Unmodified _LYLKVKGNVF_ 0 0 0 ENSG00000108298|ENST00000225430|RPL19;ENST00000498753.1_1_3:141762467-141763034:-|nuORF;ENST00000472309.1_1_4:179208113-179208287:+|nuORF;ENST00000429272.1_1_2:131051524-131051887:+|nuORF;ENST00000418154.1_1_1:64254543-64254969:-|nuORF ENSG00000108298|ENST00000225430|RPL19 ENSG00000108298|ENST00000225430|RPL19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.8587036132812 2 590.858067 1179.70158 3.5171 0.0020781 -0.36234 -0.00021409 3.1547 0.001864 590.858177255975 49.471 0.26045 50.294 50.149 50.41 0.82285 28 12 3 0 0 0 0.019635 1 22516 22516 74.929 17.207 1 1126000 19136 1627 12276 12304 21799 21799 0.118917413335339 LYLKVKGNVF 10 Unmodified _LYLKVKGNVF_ 0 0 0 ENSG00000108298|ENST00000225430|RPL19;ENST00000498753.1_1_3:141762467-141763034:-|nuORF;ENST00000472309.1_1_4:179208113-179208287:+|nuORF;ENST00000429272.1_1_2:131051524-131051887:+|nuORF;ENST00000418154.1_1_1:64254543-64254969:-|nuORF ENSG00000108298|ENST00000225430|RPL19 ENSG00000108298|ENST00000225430|RPL19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 590.8605346679688 2 590.858067 1179.70158 3.5541 0.0021 0.066452 3.9264E-05 3.6206 0.0021392 590.8579280619024 50.168 0.25586 50.429 50.302 50.557 0.26146 22 9 3 0 0 0 0.016003 1 22911 22911 85.272 27.55 1 1158400 19137 1627 12276 12304 21800 21800 0.118917413335339 LYLKVKGNVF 10 Unmodified _LYLKVKGNVF_ 0 0 0 ENSG00000108298|ENST00000225430|RPL19;ENST00000498753.1_1_3:141762467-141763034:-|nuORF;ENST00000472309.1_1_4:179208113-179208287:+|nuORF;ENST00000429272.1_1_2:131051524-131051887:+|nuORF;ENST00000418154.1_1_1:64254543-64254969:-|nuORF ENSG00000108298|ENST00000225430|RPL19 ENSG00000108298|ENST00000225430|RPL19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.2419738769531 3 394.241137 1179.70158 2.902 0.0011441 -0.14573 -5.7452E-05 2.7563 0.0010866 394.2410466849403 50.187 0.31034 50.448 50.277 50.587 0.26146 32 11 4 0 0 0 0.16336 1 22932 22932 30.703 13.261 1 3338900 19138 1627 12276 12304 21801 21801 0.118917413335339 LYLKVKGNVF 10 Unmodified _LYLKVKGNVF_ 0 0 0 ENSG00000108298|ENST00000225430|RPL19;ENST00000498753.1_1_3:141762467-141763034:-|nuORF;ENST00000472309.1_1_4:179208113-179208287:+|nuORF;ENST00000429272.1_1_2:131051524-131051887:+|nuORF;ENST00000418154.1_1_1:64254543-64254969:-|nuORF ENSG00000108298|ENST00000225430|RPL19 ENSG00000108298|ENST00000225430|RPL19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.24285888671875 3 394.241137 1179.70158 2.9095 0.0011471 -0.38738 -0.00015272 2.5222 0.00099434 394.2410312295873 49.551 0.30079 50.208 50.039 50.34 0.65735 28 10 4 0 0 0 0.026062 2 22649 22649;22709 49.527 17.49 1 3136300 19139 1627 12276 12304 21802;21803 21802 0.118917413335339 LYLKVKGNVF 10 Unmodified _LYLKVKGNVF_ 0 0 0 ENSG00000108298|ENST00000225430|RPL19;ENST00000498753.1_1_3:141762467-141763034:-|nuORF;ENST00000472309.1_1_4:179208113-179208287:+|nuORF;ENST00000429272.1_1_2:131051524-131051887:+|nuORF;ENST00000418154.1_1_1:64254543-64254969:-|nuORF ENSG00000108298|ENST00000225430|RPL19 ENSG00000108298|ENST00000225430|RPL19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.8596801757812 2 590.858067 1179.70158 3.7804 0.0022337 -0.6391 -0.00037762 3.1413 0.0018561 590.8575367583268 49.556 0.22166 50.213 50.085 50.306 0.65735 19 7 3 0 0 0 3.4213E-05 1 22658 22658 111.29 38.319 1 1241800 19140 1627 12276 12304 21804 21804 0.118917413335339 LYLKVKGNVF 10 Unmodified _LYLKVKGNVF_ 0 0 0 ENSG00000108298|ENST00000225430|RPL19;ENST00000498753.1_1_3:141762467-141763034:-|nuORF;ENST00000472309.1_1_4:179208113-179208287:+|nuORF;ENST00000429272.1_1_2:131051524-131051887:+|nuORF;ENST00000418154.1_1_1:64254543-64254969:-|nuORF ENSG00000108298|ENST00000225430|RPL19 ENSG00000108298|ENST00000225430|RPL19 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 590.858067 1179.70158 3.4666 0.0020483 -0.23233 -0.00013728 3.2343 0.001911 590.8579301575406 50.411 0.30532 50.411 50.245 50.55 0 0.074235 7.7483E-05 NaN 111.29 28 12 3 NaN NaN NaN NaN 0 NaN NaN 0 1306400 19141 1627 12276 12304 0.118917413335339 LYLKVLERF 9 Unmodified _LYLKVLERF_ 0 0 0 REV__ENSG00000198812|ENST00000361484|LRRC10 REV__ENSG00000198812|ENST00000361484|LRRC10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.24249267578125 3 394.241137 1179.70158 2.6384 0.0010402 0.10997 4.3354E-05 2.7484 0.0010835 394.24115542458685 50.417 0.30532 50.417 50.245 50.55 0 42 12 4 0 0 0 0.59776 1 23124 23124 7.1017 0.90987 1 3437700 + 19142 14362 12277 12305 21805 21805 0.118917413335339 LYLKVLERF 9 Unmodified _LYLKVLERF_ 0 0 0 REV__ENSG00000198812|ENST00000361484|LRRC10 REV__ENSG00000198812|ENST00000361484|LRRC10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.24310302734375 3 394.241137 1179.70158 2.6658 0.001051 -0.14691 -5.7919E-05 2.5189 0.00099306 394.24110199716614 49.47 0.35722 50.293 50.104 50.461 0.82285 51 18 4 0 0 0 0.76984 1 22594 22594 4.897 1.0207 1 2835900 + 19143 14362 12277 12305 21806 21806 0.118917413335339 LYLLQSVNQLL 11 Unmodified _LYLLQSVNQLL_ 0 0 0 nc|ENSG00000101596|A6NHR9-2|SMCHD1;ENSG00000101596|ENST00000320876|SMCHD1 nc|ENSG00000101596|A6NHR9-2|SMCHD1 nc|ENSG00000101596|A6NHR9-2|SMCHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 652.3829956054688 2 652.384645 1302.75474 NaN NaN NaN NaN NaN NaN NaN 81.085 1 81.085 80.585 81.585 0 0 0 0 0.98464 1 40362 40362 8.1555 1.9497 1 19144 1302 12278 12306 21807 21807 0.1154707432556279 LYLMMPEI 8 Unmodified _LYLMMPEI_ 0 0 0 REV__ENST00000604105.1_1_15:21135288-21138168:-|nuORF REV__ENST00000604105.1_1_15:21135288-21138168:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.2610168457031 2 505.258482 1008.50241 3.1422 0.0015876 0.4975 0.00025137 3.6397 0.001839 505.2587436480202 50.514 0.31697 50.775 50.647 50.964 0.26146 34 16 3 0 0 0 0.59268 1 23162 23162 14.582 2.0501 1 795500 + 19145 17652 12279 12307 21808 21808 -0.001499782810014949 LYLNILELY 9 Unmodified _LYLNILELY_ 0 0 0 REV__ENSG00000115423|ENST00000389394|DNAH6 REV__ENSG00000115423|ENST00000389394|DNAH6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.328369140625 2 577.328808 1152.64306 NaN NaN NaN NaN NaN NaN NaN 67.984 1 68.237 67.737 68.737 0.25227 0 0 0 0.84134 1 31142 31142 7.9102 0.62092 1 + 19146 11365 12280 12308 21809 21809 0.07284639968429474 LYLPQEQL 8 Unmodified _LYLPQEQL_ 0 0 0 nc|nan|Q9GZU0-2|C6orf62;ENSG00000112308|ENST00000378119|C6orf62 nc|nan|Q9GZU0-2|C6orf62 nc|nan|Q9GZU0-2|C6orf62 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1003.55224609375 1 1003.54587 1002.5386 3.2414 0.0032529 0.60901 0.00061117 3.8504 0.0038641 1003.5465749210455 72.343 0.41029 72.601 72.491 72.901 0.25875 54 34 2 0 0 0 0.31493 1 33202 33202 42.095 13.608 1 535160 19147 1803 12281 12309 21810 21810 0.03742938211712499 LYLPTLTHF 9 Unmodified _LYLPTLTHF_ 0 0 0 ENST00000537473.2_1_12:57058103-57058217:-|nuORF ENST00000537473.2_1_12:57058103-57058217:-|nuORF ENST00000537473.2_1_12:57058103-57058217:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.2079467773438 2 552.808042 1103.60153 3.4112 0.0018858 0.9843 0.00054413 4.3955 0.0024299 552.8087516250547 78.117 0.2438 78.37 78.241 78.485 0.25335 22 14 2 0 0 0 0.024236 1 35969 35969 42.095 18.946 1 390750 19148 8777 12282 12310 21811 21811 0.05387503999736509 LYLPTLTHF 9 Unmodified _LYLPTLTHF_ 0 0 0 ENST00000537473.2_1_12:57058103-57058217:-|nuORF ENST00000537473.2_1_12:57058103-57058217:-|nuORF ENST00000537473.2_1_12:57058103-57058217:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 552.808042 1103.60153 3.3618 0.0018584 0.24077 0.0001331 3.6026 0.0019915 552.808268574678 77.637 0.22966 78.3 78.236 78.466 0.66302 -0.034902 -0.00052172 NaN 42.095 24 14 2 NaN NaN NaN NaN 0 NaN NaN 0 426860 19149 8777 12282 12310 0.05387503999736509 LYLPVRQG 8 Unmodified _LYLPVRQG_ 0 0 0 REV__nc|ENSG00000205307|Q8TEE9|SAP25 REV__nc|ENSG00000205307|Q8TEE9|SAP25 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.2815246582031 2 473.279452 944.544351 2.3928 0.0011325 1.4378 0.00068046 3.8306 0.0018129 473.28019971699086 51.897 0.2773 52.707 52.557 52.834 0.81065 34 19 2 0 0 0 0.5438 1 23637 23637 18.135 2.2878 1 1478200 + 19150 14457 12283 12311 21812 21812 0.06986081514037323 LYLRKLIKL 9 Unmodified _LYLRKLIKL_ 0 0 0 REV__ENSG00000121871|ENST00000475390|SLITRK3 REV__ENSG00000121871|ENST00000475390|SLITRK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 580.3994140625 2 580.399902 1158.78525 NaN NaN NaN NaN NaN NaN NaN 95.563 1 95.645 95.145 96.145 0.082001 0 0 0 0.91206 1 50541 50541 0.6015 0 1 + 19151 11565 12284 12312 21813 21813 0.2122089750125724 LYLYSMWAGL 10 Unmodified _LYLYSMWAGL_ 0 0 0 ENST00000376954.5_1_X:47775298-47775454:+|nuORF ENST00000376954.5_1_X:47775298-47775454:+|nuORF ENST00000376954.5_1_X:47775298-47775454:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 608.8079223632812 2 608.807185 1215.59982 NaN NaN NaN NaN NaN NaN NaN 65.521 1 65.769 65.269 66.269 0.24848 0 0 0 0.41039 1 30017 30017 32.305 0 1 19152 7405 12285 12313 21814 21814 0.000641269195057248 LYMKNGQGF 9 Unmodified _LYMKNGQGF_ 0 0 0 nc|ENSG00000127314|P61224-4|RAP1B;ENST00000494982.1_1_1:112233982-112249293:+|nuORF;nc|ENSG00000127314|P61224-3|RAP1B;nc|ENSG00000254893|A6NIZ1|RAP1BL;ENSG00000127314|ENST00000250559|RAP1B;ENSG00000116473|ENST00000369709|RAP1A nc|ENSG00000127314|P61224-4|RAP1B nc|ENSG00000127314|P61224-4|RAP1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.2617797851562 2 529.260402 1056.50625 2.9967 0.001586 -0.12111 -6.4098E-05 2.8755 0.0015219 529.2603935219761 35.703 0.31995 35.703 35.484 35.804 0 31 15 3 0 0 0 0.0080831 1 16174 16174 85.357 40.95 1 1063900 19153 2028 12286 12314 21815 21815 -0.019741724629284363 LYMKNGQGF 9 Unmodified _LYMKNGQGF_ 0 0 0 nc|ENSG00000127314|P61224-4|RAP1B;ENST00000494982.1_1_1:112233982-112249293:+|nuORF;nc|ENSG00000127314|P61224-3|RAP1B;nc|ENSG00000254893|A6NIZ1|RAP1BL;ENSG00000127314|ENST00000250559|RAP1B;ENSG00000116473|ENST00000369709|RAP1A nc|ENSG00000127314|P61224-4|RAP1B nc|ENSG00000127314|P61224-4|RAP1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.2622680664062 2 529.260402 1056.50625 3.0586 0.0016188 0.30074 0.00015917 3.3594 0.001778 529.2604630925589 34.709 0.19436 35.498 35.406 35.6 0.78921 26 15 2 0 0 0 0.0023685 2 15712 15712;15758 100.37 52.026 1 1377900 19154 2028 12286 12314 21816;21817 21816 -0.019741724629284363 LYMQRLGEI 9 Unmodified _LYMQRLGEI_ 0 0 0 ENSG00000104738|ENST00000649973|MCM4 ENSG00000104738|ENST00000649973|MCM4 ENSG00000104738|ENST00000649973|MCM4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.8710021972656 3 374.870715 1121.59032 2.9616 0.0011102 -1.2808 -0.00048012 1.6808 0.0006301 374.8702855807726 27.017 0.39481 27.017 26.864 27.259 0 50 24 3 0 0 0 1.0601 1 12224 12224 2.9952 2.9952 1 555350 19155 1447 12287 12315 21818 21818 0.034383586339799876 LYMRIRDNW 9 Unmodified _LYMRIRDNW_ 0 0 0 ENSG00000100596|ENST00000216484|SPTLC2;ENSG00000172296|ENST00000399002|SPTLC3;ENST00000557566.1_1_14:78045296-78063654:-|nuORF ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.8865661621094 3 422.885247 1265.63391 2.8731 0.001215 0.19209 8.1233E-05 3.0652 0.0012962 422.8852954063834 48.542 0.26449 48.542 48.401 48.665 0 38 16 3 0 0 0 0.43294 2 22256 22204;22256 13.615 3.4643 1 550700 19156 1229 12288 12316 21819;21820 21820 0.011719681311205932 LYMRIRDNW 9 Unmodified _LYMRIRDNW_ 0 0 0 ENSG00000100596|ENST00000216484|SPTLC2;ENSG00000172296|ENST00000399002|SPTLC3;ENST00000557566.1_1_14:78045296-78063654:-|nuORF ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.77606201171875 3 422.885247 1265.63391 3.0798 0.0013024 0.32758 0.00013853 3.4074 0.0014409 422.8853765351562 48.524 0.18262 48.787 48.691 48.873 0.26209 12 8 2 0 0 0 0.1108 1 22191 22191 3.0723 0 1 341690 19157 1229 12288 12316 21821 21821 0.011719681311205932 LYMRIRDNW 9 Unmodified _LYMRIRDNW_ 0 0 0 ENSG00000100596|ENST00000216484|SPTLC2;ENSG00000172296|ENST00000399002|SPTLC3;ENST00000557566.1_1_14:78045296-78063654:-|nuORF ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 423.02667236328125 3 422.885247 1265.63391 3.0899 0.0013067 -0.22401 -9.4731E-05 2.8659 0.001212 422.8851186420252 47.99 0.19555 48.644 48.534 48.729 0.65356 14 7 3 0 0 0 0.10587 1 21949 21949 6.1918 2.3155 1 282670 19158 1229 12288 12316 21822 21822 0.011719681311205932 LYNDRMFRI 9 Unmodified _LYNDRMFRI_ 0 0 0 ENST00000518876.1_1_8:97243285-97244208:-|nuORF;ENST00000519322.1_1_8:97243965-97247767:-|nuORF;ENSG00000156467|ENST00000287022|UQCRB;nc|ENSG00000156467|P14927-2|UQCRB ENST00000518876.1_1_8:97243285-97244208:-|nuORF ENST00000518876.1_1_8:97243285-97244208:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 410.2171936035156 3 409.881614 1226.62301 2.8537 0.0011697 -0.13615 -5.5807E-05 2.7175 0.0011139 409.8815485637842 51.448 0.33716 51.448 51.287 51.624 0 44 17 3 0 0 0 0.097139 2 23582 23525;23582 33.445 15.582 1 1245100 19159 3911 12289 12317 21823;21824 21824 0.018765657568110328 LYNDRMFRI 9 Unmodified _LYNDRMFRI_ 0 0 0 ENST00000518876.1_1_8:97243285-97244208:-|nuORF;ENST00000519322.1_1_8:97243965-97247767:-|nuORF;ENSG00000156467|ENST00000287022|UQCRB;nc|ENSG00000156467|P14927-2|UQCRB ENST00000518876.1_1_8:97243285-97244208:-|nuORF ENST00000518876.1_1_8:97243285-97244208:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.3229370117188 2 614.318783 1226.62301 3.8683 0.0023764 -0.43366 -0.00026641 3.4347 0.00211 614.3185886259301 51.409 0.22718 51.409 51.33 51.557 0 17 11 2 0 0 0 0.24272 1 23551 23551 27.629 13.723 1 385060 19160 3911 12289 12317 21825 21825 0.018765657568110328 LYNDRMFRI 9 Unmodified _LYNDRMFRI_ 0 0 0 ENST00000518876.1_1_8:97243285-97244208:-|nuORF;ENST00000519322.1_1_8:97243965-97247767:-|nuORF;ENSG00000156467|ENST00000287022|UQCRB;nc|ENSG00000156467|P14927-2|UQCRB ENST00000518876.1_1_8:97243285-97244208:-|nuORF ENST00000518876.1_1_8:97243285-97244208:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.8823547363281 3 409.881614 1226.62301 2.6014 0.0010663 -0.89429 -0.00036655 1.7071 0.00069971 409.8814533446263 50.493 0.26734 51.316 51.145 51.412 0.82265 31 11 4 0 0 0 0.21127 2 22965 22965;23019 22.658 6.0922 1 1291000 19161 3911 12289 12317 21826;21827 21826 0.018765657568110328 LYNDRMFRI 9 Unmodified _LYNDRMFRI_ 0 0 0 ENST00000518876.1_1_8:97243285-97244208:-|nuORF;ENST00000519322.1_1_8:97243965-97247767:-|nuORF;ENSG00000156467|ENST00000287022|UQCRB;nc|ENSG00000156467|P14927-2|UQCRB ENST00000518876.1_1_8:97243285-97244208:-|nuORF ENST00000518876.1_1_8:97243285-97244208:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 409.881614 1226.62301 2.8134 0.0011532 0.23957 9.8196E-05 3.053 0.0012514 409.88184143380477 50.797 0.22295 51.456 51.295 51.518 0.65956 0.04966 0.0007336 NaN 33.445 15 11 2 NaN NaN NaN NaN 0 NaN NaN 0 867150 19162 3911 12289 12317 0.018765657568110328 LYNFYIYS 8 Unmodified _LYNFYIYS_ 0 0 0 REV__ENSG00000148483|ENST00000377495|TMEM236 REV__ENSG00000148483|ENST00000377495|TMEM236 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.765625 2 541.7633 1081.51205 3.4703 0.0018801 -0.47349 -0.00025652 2.9968 0.0016236 541.7633752259643 36.796 0.64355 37.426 37.109 37.752 0.62999 105 26 6 0 0 0 0.62895 1 16963 16963 11.64 0 1 18803000 + 19163 12541 12290 12318 21828 21828 -0.02544750679635399 LYNGKTTKL 9 Unmodified _LYNGKTTKL_ 0 0 0 ENSG00000069345|ENST00000317089|DNAJA2 ENSG00000069345|ENST00000317089|DNAJA2 ENSG00000069345|ENST00000317089|DNAJA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 346.5386657714844 3 346.537842 1036.5917 2.507 0.00086878 0.52616 0.00018234 3.0332 0.0010511 346.53785860538164 17.325 0.26862 17.325 17.158 17.427 0 50 20 3 0 0 0 0.31604 1 7719 7719 15.739 8.1297 1 685090 19164 750 12291 12319 21829 21829 0.07486315994356119 LYNGKTTKL 9 Unmodified _LYNGKTTKL_ 0 0 0 ENSG00000069345|ENST00000317089|DNAJA2 ENSG00000069345|ENST00000317089|DNAJA2 ENSG00000069345|ENST00000317089|DNAJA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 346.53900146484375 3 346.537842 1036.5917 2.2734 0.00078782 0.45587 0.00015797 2.7293 0.00094579 346.5379490125082 14.494 0.22094 14.801 14.711 14.932 0.3069 20 13 2 0 0 0 0.24272 1 6581 6581 20.581 8.9406 1 576970 19165 750 12291 12319 21830 21830 0.07486315994356119 LYNGKTTKL 9 Unmodified _LYNGKTTKL_ 0 0 0 ENSG00000069345|ENST00000317089|DNAJA2 ENSG00000069345|ENST00000317089|DNAJA2 ENSG00000069345|ENST00000317089|DNAJA2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 346.537842 1036.5917 2.489 0.00086253 0.77986 0.00027025 3.2688 0.0011328 346.53800495647295 14.541 0.17086 15.189 15.104 15.275 0.6482 0.19421 0.0001818 NaN 20.581 26 20 2 NaN NaN NaN NaN 0 NaN NaN 0 471420 19166 750 12291 12319 0.07486315994356119 LYNPKITSEL 10 Unmodified _LYNPKITSEL_ 0 0 0 nc|ENSG00000080345|Q5UIP0-2|RIF1;ENSG00000080345|ENST00000444746|RIF1 nc|ENSG00000080345|Q5UIP0-2|RIF1 nc|ENSG00000080345|Q5UIP0-2|RIF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.3289184570312 2 589.326796 1176.63904 3.4936 0.0020589 0.17538 0.00010335 3.669 0.0021622 589.3269839812043 50.411 0.32423 50.411 50.245 50.569 0 31 13 3 0 0 0 3.3629E-09 2 23054 23054;23108 147.24 67.644 1 2358000 19167 906 12292 12320 21831;21832 21831 0.057785504747243976 LYNPKITSEL 10 Unmodified _LYNPKITSEL_ 0 0 0 nc|ENSG00000080345|Q5UIP0-2|RIF1;ENSG00000080345|ENST00000444746|RIF1 nc|ENSG00000080345|Q5UIP0-2|RIF1 nc|ENSG00000080345|Q5UIP0-2|RIF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.3292846679688 2 589.326796 1176.63904 3.4646 0.0020418 0.02831 1.6684E-05 3.4929 0.0020585 589.3266104902517 49.495 0.31238 50.317 50.134 50.446 0.82285 38 15 3 0 0 0 1.1373E-13 2 22540 22540;22587 159.1 72.769 1 1975100 19168 906 12292 12320 21833;21834 21833 0.057785504747243976 LYNPKITSEL 10 Unmodified _LYNPKITSEL_ 0 0 0 nc|ENSG00000080345|Q5UIP0-2|RIF1;ENSG00000080345|ENST00000444746|RIF1 nc|ENSG00000080345|Q5UIP0-2|RIF1 nc|ENSG00000080345|Q5UIP0-2|RIF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.3289184570312 2 589.326796 1176.63904 3.508 0.0020673 -0.19579 -0.00011538 3.3122 0.001952 589.3267739404149 50.219 0.29874 50.48 50.32 50.619 0.26146 25 10 3 0 0 0 4.1527E-20 1 22967 22967 171.46 75.098 1 1659200 19169 906 12292 12320 21835 21835 0.057785504747243976 LYNPKITSEL 10 Unmodified _LYNPKITSEL_ 0 0 0 nc|ENSG00000080345|Q5UIP0-2|RIF1;ENSG00000080345|ENST00000444746|RIF1 nc|ENSG00000080345|Q5UIP0-2|RIF1 nc|ENSG00000080345|Q5UIP0-2|RIF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.3291625976562 2 589.326796 1176.63904 3.6922 0.0021759 0.44443 0.00026191 4.1366 0.0024378 589.3268543140656 49.625 0.25916 50.282 50.141 50.4 0.65735 26 8 4 0 0 0 3.4924E-06 1 22693 22693 128.57 42.241 1 1441300 19170 906 12292 12320 21836 21836 0.057785504747243976 LYNRTMVQL 9 Unmodified _LYNRTMVQL_ 0 0 0 ENST00000565932.5_1_16:28734455-28746831:+|nuORF;nc|ENSG00000184110|Q99613-2|EIF3C;ENSG00000184110|ENST00000331666|EIF3C;ENSG00000205609|ENST00000380876|EIF3CL ENST00000565932.5_1_16:28734455-28746831:+|nuORF ENST00000565932.5_1_16:28734455-28746831:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.3106079101562 2 569.307884 1136.60121 3.6125 0.0020566 -0.59311 -0.00033766 3.0194 0.001719 569.3077036706703 48.967 0.21115 49.229 49.088 49.299 0.26209 11 7 2 0 0 0 0.069974 1 22386 22386 40.239 11.158 1 534160 19171 5422 12293 12321 21837 21837 0.038377610082534375 LYNRTMVQL 9 Unmodified _LYNRTMVQL_ 0 0 0 ENST00000565932.5_1_16:28734455-28746831:+|nuORF;nc|ENSG00000184110|Q99613-2|EIF3C;ENSG00000184110|ENST00000331666|EIF3C;ENSG00000205609|ENST00000380876|EIF3CL ENST00000565932.5_1_16:28734455-28746831:+|nuORF ENST00000565932.5_1_16:28734455-28746831:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.3092651367188 2 569.307884 1136.60121 3.7534 0.0021369 -0.42178 -0.00024013 3.3317 0.0018967 569.3077374650954 48.489 0.21268 49.144 48.939 49.152 0.65524 15 8 2 0 0 0 0.049036 1 22151 22151 47.594 11.467 1 364890 19172 5422 12293 12321 21838 21838 0.038377610082534375 LYPCIDSHL 9 Carbamidomethyl (C) _LYPC(Carbamidomethyl (C))IDSHL_ LYPC(1)IDSHL LYPC(82)IDSHL 0 1 0 ENSG00000186480|ENST00000340368|INSIG1 ENSG00000186480|ENST00000340368|INSIG1 ENSG00000186480|ENST00000340368|INSIG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.2727661132812 2 559.270967 1116.52738 3.3734 0.0018866 -0.91191 -0.00051001 2.4615 0.0013766 559.2710831970995 53.535 0.21854 54.199 54.101 54.319 0.6644 27 11 3 0 0 0 0.010037 1 24474 24474 81.864 63.729 1 738460 19173 5574 12294 12322 21839 21839 91 -0.026222071540814795 LYPDHFHLL 9 Unmodified _LYPDHFHLL_ 0 0 0 ENST00000487483.6_1_19:46886892-46890886:+|nuORF;ENST00000467502.6_1_19:46886456-46890886:+|nuORF;ENST00000486994.5_1_19:46886892-46893600:+|nuORF;ENSG00000011485|ENST00000012443|PPP5C ENST00000487483.6_1_19:46886892-46890886:+|nuORF ENST00000487483.6_1_19:46886892-46890886:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 385.5392150878906 3 385.537953 1153.59203 2.539 0.00097888 0.12555 4.8403E-05 2.6645 0.0010273 385.5380060213778 59.514 0.24241 59.514 59.362 59.604 0 43 19 3 0 0 0 0.49692 1 27515 27515 8.1555 3.2585 1 1460400 19174 419 12295 12323 21840 21840 0.021377357142227993 LYPDHFHLL 9 Unmodified _LYPDHFHLL_ 0 0 0 ENST00000487483.6_1_19:46886892-46890886:+|nuORF;ENST00000467502.6_1_19:46886456-46890886:+|nuORF;ENST00000486994.5_1_19:46886892-46893600:+|nuORF;ENSG00000011485|ENST00000012443|PPP5C ENST00000487483.6_1_19:46886892-46890886:+|nuORF ENST00000487483.6_1_19:46886892-46890886:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 385.5384521484375 3 385.537953 1153.59203 2.2211 0.00085631 -0.38772 -0.00014948 1.8334 0.00070683 385.87213855500556 58.372 0.29263 59.131 58.988 59.28 0.75894 60 25 3 0 0 0 0.27976 1 26760 26760 12.241 9.7422 1 1521000 19175 419 12295 12323 21841 21841 0.021377357142227993 LYPDHFHLL 9 Unmodified _LYPDHFHLL_ 0 0 0 ENST00000487483.6_1_19:46886892-46890886:+|nuORF;ENST00000467502.6_1_19:46886456-46890886:+|nuORF;ENST00000486994.5_1_19:46886892-46893600:+|nuORF;ENSG00000011485|ENST00000012443|PPP5C ENST00000487483.6_1_19:46886892-46890886:+|nuORF ENST00000487483.6_1_19:46886892-46890886:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 385.5390319824219 3 385.537953 1153.59203 2.8652 0.0011046 -0.53405 -0.0002059 2.3311 0.00089874 385.53774005465084 59.232 0.29572 59.491 59.273 59.569 0.2593 30 13 3 0 0 0 0.49692 1 27135 27135 12.241 7.3436 1 768570 19176 419 12295 12323 21842 21842 0.021377357142227993 LYPDHFHLL 9 Unmodified _LYPDHFHLL_ 0 0 0 ENST00000487483.6_1_19:46886892-46890886:+|nuORF;ENST00000467502.6_1_19:46886456-46890886:+|nuORF;ENST00000486994.5_1_19:46886892-46893600:+|nuORF;ENSG00000011485|ENST00000012443|PPP5C ENST00000487483.6_1_19:46886892-46890886:+|nuORF ENST00000487483.6_1_19:46886892-46890886:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 385.537953 1153.59203 2.8062 0.0010819 -0.21066 -8.1217E-05 2.5955 0.0010007 385.53789049094786 58.556 0.32546 59.223 59.052 59.378 0.66703 -0.11688 -4.3514E-06 NaN 12.241 24 12 3 NaN NaN NaN NaN 0 NaN NaN 0 799500 19177 419 12295 12323 0.021377357142227993 LYPEGLAQL 9 Unmodified _LYPEGLAQL_ 0 0 0 ENSG00000159720|ENST00000290949|ATP6V0D1;ENST00000563305.1_1_16:67472744-67473248:-|nuORF ENSG00000159720|ENST00000290949|ATP6V0D1 ENSG00000159720|ENST00000290949|ATP6V0D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.2779846191406 2 502.276575 1002.5386 2.4451 0.0012281 0.47219 0.00023717 2.9173 0.0014653 502.2769520726997 72.761 0.44373 72.761 72.549 72.992 0 75 41 2 0 0 0 0.044468 2 35428 35376;35428 54.774 20.586 1 2553900 19178 4032 12296 12324 21843;21844 21844 0.03742938211712499 LYPEGLAQL 9 Unmodified _LYPEGLAQL_ 0 0 0 ENSG00000159720|ENST00000290949|ATP6V0D1;ENST00000563305.1_1_16:67472744-67473248:-|nuORF ENSG00000159720|ENST00000290949|ATP6V0D1 ENSG00000159720|ENST00000290949|ATP6V0D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 502.27923583984375 2 502.276575 1002.5386 2.5456 0.0012786 0.96381 0.0004841 3.5094 0.0017627 502.27711631346085 71.921 0.36295 72.625 72.451 72.814 0.70386 49 35 2 0 0 0 0.063112 3 34580 34516;34580;34628 54.774 26.6 1 3240900 19179 4032 12296 12324 21845;21846;21847 21846 0.03742938211712499 LYPEGLAQL 9 Unmodified _LYPEGLAQL_ 0 0 0 ENSG00000159720|ENST00000290949|ATP6V0D1;ENST00000563305.1_1_16:67472744-67473248:-|nuORF ENSG00000159720|ENST00000290949|ATP6V0D1 ENSG00000159720|ENST00000290949|ATP6V0D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.2776794433594 2 502.276575 1002.5386 2.9603 0.0014869 0.27831 0.00013979 3.2386 0.0016267 502.27666395136276 72.391 0.68176 72.65 72.349 73.031 0.25876 132 58 3 0 0 0 0.021401 5 33282 33126;33187;33232;33282;33335 85.357 34.502 1 2138700 19180 4032 12296 12324 21848;21849;21850;21851;21852 21851 0.03742938211712499 LYPEGLAQL 9 Unmodified _LYPEGLAQL_ 0 0 0 ENSG00000159720|ENST00000290949|ATP6V0D1;ENST00000563305.1_1_16:67472744-67473248:-|nuORF ENSG00000159720|ENST00000290949|ATP6V0D1 ENSG00000159720|ENST00000290949|ATP6V0D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1003.550048828125 1 1003.54587 1002.5386 3.2414 0.0032529 0.60901 0.00061117 3.8504 0.0038641 1003.5465749210455 72.343 0.41029 72.601 72.491 72.901 0.25875 54 34 2 0 0 0 0.053359 2 33249 33249;33301 58.679 24.491 1 535160 19181 4032 12296 12324 21853;21854 21853 0.03742938211712499 LYPEGLAQL 9 Unmodified _LYPEGLAQL_ 0 0 0 ENSG00000159720|ENST00000290949|ATP6V0D1;ENST00000563305.1_1_16:67472744-67473248:-|nuORF ENSG00000159720|ENST00000290949|ATP6V0D1 ENSG00000159720|ENST00000290949|ATP6V0D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.2791748046875 2 502.276575 1002.5386 2.5925 0.0013021 0.87028 0.00043712 3.4627 0.0017393 502.27695696245047 72.018 0.52679 72.682 72.393 72.919 0.66324 109 43 3 0 0 0 0.025135 4 33014 32916;32964;33014;33069 78.149 32.128 1 2452700 19182 4032 12296 12324 21855;21856;21857;21858 21857 0.03742938211712499 LYPEVFEKF 9 Unmodified _LYPEVFEKF_ 0 0 0 ENSG00000156802|ENST00000287394|ATAD2;ENST00000517666.5_1_8:124333376-124408650:-|nuORF;ENST00000521903.5_1_8:124361561-124413087:-|nuORF;ENST00000521496.5_1_8:124357024-124408597:-|nuORF;nc|ENSG00000156802|Q6PL18-2|ATAD2;ATAD2|p.L665Cfs*24|1|0.08|ENSG00000156802|chr8:123347311-123347312|-/AATTCAGAACAAATAAAACA|frameshift_variant ENSG00000156802|ENST00000287394|ATAD2 ENSG00000156802|ENST00000287394|ATAD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.3070678710938 2 586.305332 1170.59611 NaN NaN NaN NaN NaN NaN NaN 69.88 1 70.136 69.636 70.636 0.25642 0 0 0 0.43268 1 32000 32000 21.537 6.6987 1 19183 3925 12297 12325 21859 21859 0.01763780417286398 LYPLTNYTF 9 Unmodified _LYPLTNYTF_ 0 0 0 ENSG00000167005|ENST00000300291|NUDT21;ENST00000567110.1_1_16:56481699-56485159:-|nuORF ENSG00000167005|ENST00000300291|NUDT21 ENSG00000167005|ENST00000300291|NUDT21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 566.2918090820312 2 566.289682 1130.56481 3.4385 0.0019472 0.11667 6.607E-05 3.5552 0.0020133 566.2896838115024 82.105 0.61404 82.352 82.093 82.707 0.24722 81 45 2 0 0 0 0.041436 2 37801 37801;37879 50.855 14.728 1 853090 19184 4526 12298 12326 21860;21861 21860 0.00475207383169618 LYPLTNYTF 9 Unmodified _LYPLTNYTF_ 0 0 0 ENSG00000167005|ENST00000300291|NUDT21;ENST00000567110.1_1_16:56481699-56485159:-|nuORF ENSG00000167005|ENST00000300291|NUDT21 ENSG00000167005|ENST00000300291|NUDT21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.29150390625 2 566.289682 1130.56481 3.6783 0.002083 0.12159 6.8856E-05 3.7999 0.0021518 566.289583395683 81.396 0.58035 82.056 81.872 82.452 0.65998 93 49 2 0 0 0 0.09451 2 37572 37572;37627 34.102 5.0209 1 986320 19185 4526 12298 12326 21862;21863 21862 0.00475207383169618 LYPLVIPWL 9 Unmodified _LYPLVIPWL_ 0 0 0 LTR13A_dup7|chr1:43138776-43139741:+|1.031771637262758|0.2457820778445239|2.07|491.0|52|2|anti-sense LTR13A_dup7|chr1:43138776-43139741:+|1.031771637262758|0.2457820778445239|2.07|491.0|52|2|anti-sense LTR13A_dup7|chr1:43138776-43139741:+|1.031771637262758|0.2457820778445239|2.07|491.0|52|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.3435668945312 2 557.338978 1112.6634 NaN NaN NaN NaN NaN NaN NaN 38.833 1 39.097 38.597 39.597 0.26408 0 0 0 0.7971 1 17672 17672 9.3474 0 1 19186 9495 12299 12327 21864 21864 0.11157855418900908 LYPNIDKDHAF 11 Unmodified _LYPNIDKDHAF_ 0 0 0 ENSG00000115415|ENST00000361099|STAT1;nc|ENSG00000115415|P42224-2|STAT1 ENSG00000115415|ENST00000361099|STAT1 ENSG00000115415|ENST00000361099|STAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 666.835693359375 2 666.832777 1331.651 4.0919 0.0027286 0.2501 0.00016677 4.342 0.0028954 666.8327682742593 43.2 0.30511 43.848 43.786 44.091 0.64872 30 13 3 0 0 0 0.023273 2 19871 19808;19871 57.249 39.411 1 673570 19187 1969 12300 12328 21865;21866 21866 -0.0015583278209305718 LYPQFMFHL 9 Oxidation (M) _LYPQFM(Oxidation (M))FHL_ LYPQFM(1)FHL LYPQFM(50)FHL 0 0 1 nc|ENSG00000100934|Q15436-2|SEC23A;ENSG00000100934|ENST00000307712|SEC23A;ENSG00000101310|ENST00000650089|SEC23B nc|ENSG00000100934|Q15436-2|SEC23A nc|ENSG00000100934|Q15436-2|SEC23A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.3005981445312 2 606.299527 1210.5845 2.805 0.0017007 -0.29744 -0.00018034 2.5076 0.0015203 606.3000547510717 77.848 0.24546 78.409 78.268 78.514 0.56091 48 22 3 0 0 0 0.044201 1 37773 37773 49.669 30.412 1 3401400 19188 1251 12301 12329 21867 21867 10 -0.012367398777087146 LYPQFMFHL 9 Oxidation (M) _LYPQFM(Oxidation (M))FHL_ LYPQFM(1)FHL LYPQFM(57)FHL 0 0 1 nc|ENSG00000100934|Q15436-2|SEC23A;ENSG00000100934|ENST00000307712|SEC23A;ENSG00000101310|ENST00000650089|SEC23B nc|ENSG00000100934|Q15436-2|SEC23A nc|ENSG00000100934|Q15436-2|SEC23A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 606.3020629882812 2 606.299527 1210.5845 3.4551 0.0020948 0.029437 1.7848E-05 3.4845 0.0021127 606.2998342015758 78.508 0.35025 78.761 78.569 78.919 0.25335 52 17 4 0 0 0 0.029028 2 36142 36142;36191 56.541 33.805 1 2387800 19189 1251 12301 12329 21868;21869 21868 10 -0.012367398777087146 LYPQFMFHL 9 Oxidation (M) _LYPQFM(Oxidation (M))FHL_ LYPQFM(1)FHL LYPQFM(57)FHL 0 0 1 nc|ENSG00000100934|Q15436-2|SEC23A;ENSG00000100934|ENST00000307712|SEC23A;ENSG00000101310|ENST00000650089|SEC23B nc|ENSG00000100934|Q15436-2|SEC23A nc|ENSG00000100934|Q15436-2|SEC23A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 606.3016967773438 2 606.299527 1210.5845 3.6166 0.0021927 0.15654 9.4909E-05 3.7731 0.0022876 606.2995224989423 78.009 0.32556 78.671 78.498 78.824 0.66197 50 18 4 0 0 0 0.029028 2 35970 35918;35970 56.541 27.46 1 2551000 19190 1251 12301 12329 21870;21871 21871 10 -0.012367398777087146 LYPQFMFHL 9 Unmodified _LYPQFMFHL_ 0 0 0 nc|ENSG00000100934|Q15436-2|SEC23A;ENSG00000100934|ENST00000307712|SEC23A;ENSG00000101310|ENST00000650089|SEC23B nc|ENSG00000100934|Q15436-2|SEC23A nc|ENSG00000100934|Q15436-2|SEC23A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.3047485351562 2 598.30207 1194.58959 3.8437 0.0022997 0.25315 0.00015146 4.0968 0.0024511 598.3021796596134 85.75 0.29696 85.999 85.824 86.121 0.24857 32 13 4 0 0 0 0.029028 2 39426 39426;39486 56.541 24.236 1 3565400 19191 1251 12301 12330 21872;21873 21872 7.563984922853706E-05 LYPQFMFHL 9 Unmodified _LYPQFMFHL_ 0 0 0 nc|ENSG00000100934|Q15436-2|SEC23A;ENSG00000100934|ENST00000307712|SEC23A;ENSG00000101310|ENST00000650089|SEC23B nc|ENSG00000100934|Q15436-2|SEC23A nc|ENSG00000100934|Q15436-2|SEC23A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 598.3047485351562 2 598.30207 1194.58959 4.15 0.002483 0.037154 2.2229E-05 4.1872 0.0025052 598.3021135607587 85.099 0.34698 85.764 85.575 85.922 0.66566 41 15 4 0 0 0 0.029028 2 39202 39151;39202 56.541 24.236 1 3265800 19192 1251 12301 12330 21874;21875 21875 7.563984922853706E-05 LYPQFMFHL 9 Unmodified _LYPQFMFHL_ 0 0 0 nc|ENSG00000100934|Q15436-2|SEC23A;ENSG00000100934|ENST00000307712|SEC23A;ENSG00000101310|ENST00000650089|SEC23B nc|ENSG00000100934|Q15436-2|SEC23A nc|ENSG00000100934|Q15436-2|SEC23A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 598.30207 1194.58959 2.8491 0.0017046 -2.0224 -0.00121 0.82667 0.0004946 598.3009176194169 85.774 0.050217 85.774 85.745 85.795 0 -0.071712 -0.0025483 NaN 56.541 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 10469000 19193 1251 12301 12330 7.563984922853706E-05 LYPQLRLL 8 Unmodified _LYPQLRLL_ 0 0 0 REV__ENST00000512003.7_1_5:109946270-109963572:-|nuORF REV__ENST00000512003.7_1_5:109946270-109963572:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.30316162109375 2 508.318577 1014.6226 NaN NaN NaN NaN NaN NaN NaN 49.529 1 50.187 49.687 50.687 0.65735 0 0 0 0.51272 1 22657 22657 28.173 3.4993 1 + 19194 14079 12302 12331 21876 21876 0.11587514099278451 LYPRSIGPV 9 Unmodified _LYPRSIGPV_ 0 0 0 REV__nc|ENSG00000183495|Q96L91-4|EP400 REV__nc|ENSG00000183495|Q96L91-4|EP400 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.006103515625 2 501.292559 1000.57057 NaN NaN NaN NaN NaN NaN NaN 95.411 1 95.411 94.911 95.911 0 0 0 0 0.75166 1 51367 51367 10.824 0.75 1 + 19195 13936 12303 12332 21877 21877 0.07030350685522535 LYPSIIQEF 9 Unmodified _LYPSIIQEF_ 0 0 0 ENSG00000101868|ENST00000379068|POLA1;nc|ENSG00000101868|P09884|POLA1 ENSG00000101868|ENST00000379068|POLA1 ENSG00000101868|ENST00000379068|POLA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.2978515625 2 555.297507 1108.58046 3.662 0.0020335 -0.73897 -0.00041035 2.9231 0.0016232 555.2969796837676 86.109 0.28265 86.78 86.618 86.9 0.67061 37 19 2 0 0 0 0.028312 2 39616 39616;39684 57.471 34.323 1 659240 19196 1316 12304 12333 21878;21879 21878 0.030514939002614483 LYPSKSILL 9 Unmodified _LYPSKSILL_ 0 0 0 ENST00000486774.1_1_17:25972868-25974145:+|nuORF;ENST00000584386.5_1_17:25958291-25974145:+|nuORF;nc|ENSG00000168961|O00182-5|LGALS9;nc|ENSG00000168961|O00182-4|LGALS9;nc|ENSG00000168961|O00182-3|LGALS9;nc|ENSG00000168961|O00182-2|LGALS9;nc|ENSG00000168961|O00182-6|LGALS9;ENSG00000168961|ENST00000395473|LGALS9 ENST00000486774.1_1_17:25972868-25974145:+|nuORF ENST00000486774.1_1_17:25972868-25974145:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.3193359375 2 517.318243 1032.62193 3.4626 0.0017913 0.12683 6.561E-05 3.5894 0.0018569 517.3184652056724 57.874 0.28722 58.543 58.343 58.63 0.66829 28 16 2 0 0 0 0.22744 1 26466 26466 29.082 0 1 665470 19197 4663 12305 12334 21880 21880 0.10692674659571821 LYPSKSILL 9 Unmodified _LYPSKSILL_ 0 0 0 ENST00000486774.1_1_17:25972868-25974145:+|nuORF;ENST00000584386.5_1_17:25958291-25974145:+|nuORF;nc|ENSG00000168961|O00182-5|LGALS9;nc|ENSG00000168961|O00182-4|LGALS9;nc|ENSG00000168961|O00182-3|LGALS9;nc|ENSG00000168961|O00182-2|LGALS9;nc|ENSG00000168961|O00182-6|LGALS9;ENSG00000168961|ENST00000395473|LGALS9 ENST00000486774.1_1_17:25972868-25974145:+|nuORF ENST00000486774.1_1_17:25972868-25974145:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.3202514648438 2 517.318243 1032.62193 NaN NaN NaN NaN NaN NaN NaN 57.963 1 58.631 58.131 59.131 0.66829 0 0 0 0.51934 1 26526 26526 19.257 0 1 19198 4663 12305 12334 21881 21881 0.10692674659571821 LYPSKSILL 9 Unmodified _LYPSKSILL_ 0 0 0 ENST00000486774.1_1_17:25972868-25974145:+|nuORF;ENST00000584386.5_1_17:25958291-25974145:+|nuORF;nc|ENSG00000168961|O00182-5|LGALS9;nc|ENSG00000168961|O00182-4|LGALS9;nc|ENSG00000168961|O00182-3|LGALS9;nc|ENSG00000168961|O00182-2|LGALS9;nc|ENSG00000168961|O00182-6|LGALS9;ENSG00000168961|ENST00000395473|LGALS9 ENST00000486774.1_1_17:25972868-25974145:+|nuORF ENST00000486774.1_1_17:25972868-25974145:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 517.318243 1032.62193 3.154 0.0016316 0.50939 0.00026351 3.6634 0.0018952 517.3187324671734 58.79 0.14568 58.79 58.758 58.904 0 0.1238 0.00020649 NaN 29.082 14 9 2 NaN NaN NaN NaN 0 NaN NaN 0 486170 19199 4663 12305 12334 0.10692674659571821 LYQDGVFKF 9 Unmodified _LYQDGVFKF_ 0 0 0 ENSG00000166971|ENST00000394657|AKTIP;nc|ENSG00000166971|Q9H8T0-2|AKTIP;ENST00000514047.1_1_5:24170479-24171004:+|nuORF;ENST00000563108.5_1_16:53528870-53534189:-|nuORF ENSG00000166971|ENST00000394657|AKTIP ENSG00000166971|ENST00000394657|AKTIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.7939453125 2 558.78985 1115.56515 2.9205 0.001632 -0.585 -0.00032689 2.3355 0.0013051 559.2910255140115 65.325 0.16596 65.325 65.29 65.456 0 30 21 2 0 0 0 0.10584 1 31153 31153 31.268 8.5321 1 8391700 19200 4523 12306 12335 21882 21882 0.011986271030536955 LYQDGVFKF 9 Unmodified _LYQDGVFKF_ 0 0 0 ENSG00000166971|ENST00000394657|AKTIP;nc|ENSG00000166971|Q9H8T0-2|AKTIP;ENST00000514047.1_1_5:24170479-24171004:+|nuORF;ENST00000563108.5_1_16:53528870-53534189:-|nuORF ENSG00000166971|ENST00000394657|AKTIP ENSG00000166971|ENST00000394657|AKTIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.7919311523438 2 558.78985 1115.56515 3.6175 0.0020214 -0.37195 -0.00020784 3.2455 0.0018136 558.7897946424112 64.62 0.30222 65.277 65.124 65.426 0.65672 24 11 3 0 0 0 0.0076144 1 29628 29628 86.332 30.155 1 2756200 19201 4523 12306 12335 21883 21883 0.011986271030536955 LYQDGVFKF 9 Unmodified _LYQDGVFKF_ 0 0 0 ENSG00000166971|ENST00000394657|AKTIP;nc|ENSG00000166971|Q9H8T0-2|AKTIP;ENST00000514047.1_1_5:24170479-24171004:+|nuORF;ENST00000563108.5_1_16:53528870-53534189:-|nuORF ENSG00000166971|ENST00000394657|AKTIP ENSG00000166971|ENST00000394657|AKTIP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 558.78985 1115.56515 2.7552 0.0015396 -1.0358 -0.00057881 1.7193 0.00096075 558.7897070795556 64.26 0.16679 64.975 64.875 65.042 0.71521 -0.27005 -0.00078962 NaN 86.332 40 24 2 NaN NaN NaN NaN 0 NaN NaN 0 7414900 19202 4523 12306 12335 0.011986271030536955 LYQDGVFKF 9 Unmodified _LYQDGVFKF_ 0 0 0 ENSG00000166971|ENST00000394657|AKTIP;nc|ENSG00000166971|Q9H8T0-2|AKTIP;ENST00000514047.1_1_5:24170479-24171004:+|nuORF;ENST00000563108.5_1_16:53528870-53534189:-|nuORF ENSG00000166971|ENST00000394657|AKTIP ENSG00000166971|ENST00000394657|AKTIP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 558.78985 1115.56515 3.641 0.0020346 0.004004 2.2374E-06 3.645 0.0020368 558.7896694100783 65.157 0.33946 65.405 65.249 65.588 0.24802 0.15946 0.00037248 NaN 86.332 45 16 4 NaN NaN NaN NaN 0 NaN NaN 0 3160500 19203 4523 12306 12335 0.011986271030536955 LYQEVFGRL 9 Unmodified _LYQEVFGRL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.8087768554688 2 562.808574 1123.60259 NaN NaN NaN NaN NaN NaN NaN 63.06 1 63.06 62.56 63.56 0 0 0 0 0.088893 1 29621 29621 43.772 9.5851 1 19204 931 12307 12336 21884 21884 0.04573718368669688 LYQEVFGRL 9 Unmodified _LYQEVFGRL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.8112182617188 2 562.808574 1123.60259 3.434 0.0019327 -0.086523 -4.8696E-05 3.3475 0.001884 562.8082601005468 63.031 0.2665 63.28 63.169 63.435 0.24965 27 15 3 0 0 0 0.02631 1 28862 28862 60.074 29.437 1 915750 19205 931 12307 12336 21885 21885 0.04573718368669688 LYQEVFGRL 9 Unmodified _LYQEVFGRL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.810546875 2 562.808574 1123.60259 3.3611 0.0018917 -0.22826 -0.00012847 3.1329 0.0017632 562.8083858403161 62.417 0.26215 63.077 62.936 63.198 0.66009 26 17 2 0 0 0 0.02631 2 28640 28572;28640 60.074 29.437 1 739920 19206 931 12307 12336 21886;21887 21887 0.04573718368669688 LYQFNPAFF 9 Unmodified _LYQFNPAFF_ 0 0 0 ENST00000586932.5_1_19:39109833-39116793:+|nuORF;ENST00000593062.5_1_19:39109833-39121488:+|nuORF;nc|ENSG00000178982|Q9UBQ5-2|EIF3K;ENSG00000178982|ENST00000248342|EIF3K ENST00000586932.5_1_19:39109833-39116793:+|nuORF ENST00000586932.5_1_19:39109833-39116793:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 573.7862548828125 2 573.784567 1145.55458 3.8435 0.0022054 0.17032 9.773E-05 4.0139 0.0023031 573.7844848634506 91.283 0.25597 91.534 91.402 91.658 0.25163 23 9 3 0 0 0 0.018173 2 41983 41934;41983 70.716 50.262 1 970510 19207 5191 12308 12337 21888;21889 21889 -0.012373555513931933 LYQFNPAFF 9 Unmodified _LYQFNPAFF_ 0 0 0 ENST00000586932.5_1_19:39109833-39116793:+|nuORF;ENST00000593062.5_1_19:39109833-39121488:+|nuORF;nc|ENSG00000178982|Q9UBQ5-2|EIF3K;ENSG00000178982|ENST00000248342|EIF3K ENST00000586932.5_1_19:39109833-39116793:+|nuORF ENST00000586932.5_1_19:39109833-39116793:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 573.7866821289062 2 573.784567 1145.55458 3.8428 0.0022049 -0.12046 -6.912E-05 3.7223 0.0021358 573.7842863354634 90.698 0.28879 91.371 91.225 91.514 0.67271 39 16 3 0 0 0 0.026068 2 41765 41715;41765 60.39 47.858 1 727000 19208 5191 12308 12337 21890;21891 21891 -0.012373555513931933 LYQFNPAFF 9 Unmodified _LYQFNPAFF_ 0 0 0 ENST00000586932.5_1_19:39109833-39116793:+|nuORF;ENST00000593062.5_1_19:39109833-39121488:+|nuORF;nc|ENSG00000178982|Q9UBQ5-2|EIF3K;ENSG00000178982|ENST00000248342|EIF3K ENST00000586932.5_1_19:39109833-39116793:+|nuORF ENST00000586932.5_1_19:39109833-39116793:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1146.5650634765625 1 1146.56186 1145.55458 3.5103 0.0040248 -1.1796 -0.0013525 2.3307 0.0026723 1146.5604785858234 90.686 0.19188 91.359 91.263 91.454 0.67271 14 10 2 0 0 0 0.7295 1 41719 41719 8.5933 0 1 353450 19209 5191 12308 12337 21892 21892 -0.012373555513931933 LYQFNPAFF 9 Unmodified _LYQFNPAFF_ 0 0 0 ENST00000586932.5_1_19:39109833-39116793:+|nuORF;ENST00000593062.5_1_19:39109833-39121488:+|nuORF;nc|ENSG00000178982|Q9UBQ5-2|EIF3K;ENSG00000178982|ENST00000248342|EIF3K ENST00000586932.5_1_19:39109833-39116793:+|nuORF ENST00000586932.5_1_19:39109833-39116793:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 1146.56186 1145.55458 3.6402 0.0041737 1.5008 0.0017208 5.141 0.0058945 1147.564998686959 91.306 0.18354 91.557 91.498 91.681 0.25164 0.099106 0.0022742 NaN 8.5933 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 353030 19210 5191 12308 12337 -0.012373555513931933 LYQHAVEYF 9 Unmodified _LYQHAVEYF_ 0 0 0 VPS4A|p.K148Nfs*60|1|0.65|ENSG00000132612|chr16:69318915-69318916|-/CAAT|frameshift_variant;ENSG00000132612|ENST00000254950|VPS4A VPS4A|p.K148Nfs*60|1|0.65|ENSG00000132612|chr16:69318915-69318916|-/CAAT|frameshift_variant VPS4A|p.K148Nfs*60|1|0.65|ENSG00000132612|chr16:69318915-69318916|-/CAAT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.287353515625 2 585.284931 1168.55531 3.5748 0.0020923 1.0617 0.00062138 4.6365 0.0027137 585.2853715573 50.459 0.2137 50.459 50.336 50.55 0 13 8 2 0 0 0 0.19064 1 23112 23112 24.021 6.9077 1 395780 19211 2714 12309 12338 21893 21893 -0.022225609023507786 LYQHAVEYF 9 Unmodified _LYQHAVEYF_ 0 0 0 VPS4A|p.K148Nfs*60|1|0.65|ENSG00000132612|chr16:69318915-69318916|-/CAAT|frameshift_variant;ENSG00000132612|ENST00000254950|VPS4A VPS4A|p.K148Nfs*60|1|0.65|ENSG00000132612|chr16:69318915-69318916|-/CAAT|frameshift_variant VPS4A|p.K148Nfs*60|1|0.65|ENSG00000132612|chr16:69318915-69318916|-/CAAT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.2866821289062 2 585.284931 1168.55531 3.323 0.0019449 0.082897 4.8519E-05 3.4059 0.0019934 585.2847508836843 49.372 0.23621 50.199 50.087 50.323 0.82705 15 10 2 0 0 0 0.19064 1 22517 22517 24.021 13.947 1 275690 19212 2714 12309 12338 21894 21894 -0.022225609023507786 LYQHAVEYF 9 Unmodified _LYQHAVEYF_ 0 0 0 VPS4A|p.K148Nfs*60|1|0.65|ENSG00000132612|chr16:69318915-69318916|-/CAAT|frameshift_variant;ENSG00000132612|ENST00000254950|VPS4A VPS4A|p.K148Nfs*60|1|0.65|ENSG00000132612|chr16:69318915-69318916|-/CAAT|frameshift_variant VPS4A|p.K148Nfs*60|1|0.65|ENSG00000132612|chr16:69318915-69318916|-/CAAT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 585.2865600585938 2 585.284931 1168.55531 NaN NaN NaN NaN NaN NaN NaN 50.439 1 50.7 50.2 51.2 0.26146 0 0 0 0.21088 1 23051 23051 30.637 11.198 1 19213 2714 12309 12338 21895 21895 -0.022225609023507786 LYQHAVEYF 9 Unmodified _LYQHAVEYF_ 0 0 0 VPS4A|p.K148Nfs*60|1|0.65|ENSG00000132612|chr16:69318915-69318916|-/CAAT|frameshift_variant;ENSG00000132612|ENST00000254950|VPS4A VPS4A|p.K148Nfs*60|1|0.65|ENSG00000132612|chr16:69318915-69318916|-/CAAT|frameshift_variant VPS4A|p.K148Nfs*60|1|0.65|ENSG00000132612|chr16:69318915-69318916|-/CAAT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.7886352539062 2 585.284931 1168.55531 3.5342 0.0020685 0.39062 0.00022862 3.9249 0.0022972 585.2851593766577 49.804 0.22311 50.462 50.34 50.563 0.65735 13 9 2 0 0 0 0.14729 1 22795 22795 26.884 12.302 1 607940 19214 2714 12309 12338 21896 21896 -0.022225609023507786 LYQKDFLRI 9 Unmodified _LYQKDFLRI_ 0 0 0 ENSG00000139926|ENST00000344768|FRMD6;nc|ENSG00000139926|Q96NE9-2|FRMD6;nc|ENSG00000139926|Q96NE9-3|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.2340393066406 3 399.232641 1194.67609 2.5797 0.0010299 0.3849 0.00015367 2.9646 0.0011836 399.23316357478353 52.626 0.25663 52.626 52.5 52.757 0 57 24 3 0 0 0 0.053453 1 24122 24122 42.312 8.8676 1 1699900 19215 3172 12310 12339 21897 21897 0.08654266811140587 LYQKDFLRI 9 Unmodified _LYQKDFLRI_ 0 0 0 ENSG00000139926|ENST00000344768|FRMD6;nc|ENSG00000139926|Q96NE9-2|FRMD6;nc|ENSG00000139926|Q96NE9-3|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 598.3468017578125 2 598.345323 1194.67609 NaN NaN NaN NaN NaN NaN NaN 52.683 1 52.683 52.183 53.183 0 0 0 0 0.12784 1 24128 24128 36.506 13.358 1 19216 3172 12310 12339 21898 21898 0.08654266811140587 LYQKDFLRI 9 Unmodified _LYQKDFLRI_ 0 0 0 ENSG00000139926|ENST00000344768|FRMD6;nc|ENSG00000139926|Q96NE9-2|FRMD6;nc|ENSG00000139926|Q96NE9-3|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 598.346435546875 2 598.345323 1194.67609 2.8952 0.0017323 0.020828 1.2462E-05 2.916 0.0017448 598.3451916201449 51.58 0.15645 52.397 52.268 52.425 0.81738 12 8 2 0 0 0 0.081012 1 23506 23506 21.537 4.5947 1 488760 19217 3172 12310 12339 21899 21899 0.08654266811140587 LYQKDFLRI 9 Unmodified _LYQKDFLRI_ 0 0 0 ENSG00000139926|ENST00000344768|FRMD6;nc|ENSG00000139926|Q96NE9-2|FRMD6;nc|ENSG00000139926|Q96NE9-3|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.5686340332031 3 399.232641 1194.67609 2.9982 0.001197 0.83217 0.00033223 3.8303 0.0015292 399.2332926984378 52.412 0.17217 52.676 52.558 52.73 0.26345 11 7 2 0 0 0 0.22824 1 23974 23974 20.581 11.037 1 637250 19218 3172 12310 12339 21900 21900 0.08654266811140587 LYQKDFLRI 9 Unmodified _LYQKDFLRI_ 0 0 0 ENSG00000139926|ENST00000344768|FRMD6;nc|ENSG00000139926|Q96NE9-2|FRMD6;nc|ENSG00000139926|Q96NE9-3|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.6026000976562 2 598.345323 1194.67609 NaN NaN NaN NaN NaN NaN NaN 52.376 1 52.639 52.139 53.139 0.26345 0 0 0 0.19548 1 23944 23944 31.268 15.119 1 19219 3172 12310 12339 21901 21901 0.08654266811140587 LYQKDFLRI 9 Unmodified _LYQKDFLRI_ 0 0 0 ENSG00000139926|ENST00000344768|FRMD6;nc|ENSG00000139926|Q96NE9-2|FRMD6;nc|ENSG00000139926|Q96NE9-3|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.2340393066406 3 399.232641 1194.67609 NaN NaN NaN NaN NaN NaN NaN 51.909 1 52.571 52.071 53.071 0.66198 0 0 0 0.43268 1 23738 23738 20.581 6.1756 1 19220 3172 12310 12339 21902 21902 0.08654266811140587 LYQKDFLRI 9 Unmodified _LYQKDFLRI_ 0 0 0 ENSG00000139926|ENST00000344768|FRMD6;nc|ENSG00000139926|Q96NE9-2|FRMD6;nc|ENSG00000139926|Q96NE9-3|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 399.232641 1194.67609 2.0382 0.00081373 0.45938 0.0001834 2.4976 0.00099713 399.23313707672787 51.565 0.25476 52.383 52.249 52.504 0.81738 -0.17889 -2.8434E-05 NaN 42.312 36 15 3 NaN NaN NaN NaN 0 NaN NaN 0 1330900 19221 3172 12310 12339 0.08654266811140587 LYQLHEPSL 9 Unmodified _LYQLHEPSL_ 0 0 0 REV__ENSG00000122121|ENST00000371106|XPNPEP2 REV__ENSG00000122121|ENST00000371106|XPNPEP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.2199096679688 2 550.292756 1098.57096 3.4901 0.0019206 -0.19997 -0.00011004 3.2901 0.0018105 550.2928556003627 31.953 0.19501 32.57 32.504 32.699 0.61737 13 8 2 0 0 0 0.10986 1 14626 14626 4.756 1.8668 1 170700 + 19222 11572 12311 12340 21903 21903 0.025617256147143053 LYQLQVNTL 9 Unmodified _LYQLQVNTL_ 0 0 0 ENSG00000164105|ENST00000296504|SAP30 ENSG00000164105|ENST00000296504|SAP30 ENSG00000164105|ENST00000296504|SAP30 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.3104248046875 2 546.308406 1090.60226 3.6261 0.0019809 0.50377 0.00027521 4.1298 0.0022562 546.3085448925767 69.741 0.25174 69.995 69.819 70.071 0.25443 21 14 2 0 0 0 0.09451 1 31957 31957 34.102 16.99 1 352160 19223 4283 12312 12341 21904 21904 0.06058298648804339 LYQLQVNTL 9 Unmodified _LYQLQVNTL_ 0 0 0 ENSG00000164105|ENST00000296504|SAP30 ENSG00000164105|ENST00000296504|SAP30 ENSG00000164105|ENST00000296504|SAP30 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.3096313476562 2 546.308406 1090.60226 NaN NaN NaN NaN NaN NaN NaN 69.222 1 69.882 69.382 70.382 0.66071 0 0 0 0.13032 1 31731 31731 36.044 19.102 1 19224 4283 12312 12341 21905 21905 0.06058298648804339 LYQPNFNTNF 10 Unmodified _LYQPNFNTNF_ 0 0 0 ENSG00000273749|ENST00000617928|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 ENSG00000273749|ENST00000617928|CYFIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 629.301513671875 2 629.29857 1256.58259 3.789 0.0023844 -0.081071 -5.1018E-05 3.7079 0.0023334 629.2986187337249 67.509 0.14085 68.166 68.049 68.19 0.65777 13 8 2 0 0 0 0.55057 1 30930 30930 19.257 11.347 1 430480 19225 6340 12313 12342 21906 21906 -0.03544077361948439 LYQRAFQHL 9 Unmodified _LYQRAFQHL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 392.5504150390625 3 392.548852 1174.62473 2.3325 0.00091562 1.071 0.00042042 3.4035 0.001336 392.5491063443518 34.368 0.20844 34.368 34.271 34.479 0 27 9 4 0 0 0 0.084899 2 15572 15547;15572 36.506 16.092 1 3026200 19226 6272 12314 12343 21907;21908 21908 0.0443994283707525 LYQRAFQHL 9 Unmodified _LYQRAFQHL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 588.3224487304688 2 588.31964 1174.62473 3.1846 0.0018736 0.98704 0.0005807 4.1716 0.0024543 588.3202912216049 34.364 0.19321 34.364 34.271 34.464 0 16 8 3 0 0 0 0.0076144 1 15597 15597 85.272 34.417 1 1048000 19227 6272 12314 12343 21909 21909 0.0443994283707525 LYQRAFQHL 9 Unmodified _LYQRAFQHL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.3224487304688 2 588.31964 1174.62473 2.9675 0.0017458 1.0604 0.00062388 4.0279 0.0023697 588.3201779870054 33.446 0.30837 34.234 34.054 34.363 0.78795 35 18 3 0 0 0 3.9104E-05 1 15119 15119 156.16 102.58 1 1046200 19228 6272 12314 12343 21910 21910 0.0443994283707525 LYQRAFQHL 9 Unmodified _LYQRAFQHL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 392.54998779296875 3 392.548852 1174.62473 2.1854 0.00085787 0.70096 0.00027516 2.8863 0.001133 392.54903514553973 33.451 0.25502 34.239 34.091 34.346 0.78795 31 15 3 0 0 0 0.10584 1 15131 15131 31.268 13.826 1 1095700 19229 6272 12314 12343 21911 21911 0.0443994283707525 LYQRAFQHL 9 Unmodified _LYQRAFQHL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 392.5498352050781 3 392.548852 1174.62473 2.9246 0.001148 -0.32623 -0.00012806 2.5984 0.00102 392.5486873886542 34.355 0.29633 34.609 34.516 34.812 0.25389 28 12 3 0 0 0 0.084899 1 15648 15648 36.506 9.283 1 1826400 19230 6272 12314 12343 21912 21912 0.0443994283707525 LYQRAFQHL 9 Unmodified _LYQRAFQHL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.3217163085938 2 588.31964 1174.62473 3.534 0.0020791 0.40826 0.00024019 3.9422 0.0023193 588.3193996144234 34.35 0.19631 34.604 34.532 34.728 0.25389 17 8 3 0 0 0 0.0020727 1 15657 15657 115.69 79.648 1 642470 19231 6272 12314 12343 21913 21913 0.0443994283707525 LYQRAFQHL 9 Unmodified _LYQRAFQHL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 392.54937744140625 3 392.548852 1174.62473 2.7479 0.0010787 0.15657 6.1463E-05 2.9045 0.0011401 392.5487483360655 33.95 0.31902 34.57 34.407 34.726 0.62031 35 17 3 0 0 0 0.59921 2 15530 15530;15584 10.8 1.8233 1 1134500 19232 6272 12314 12343 21914;21915 21914 0.0443994283707525 LYQRAFQHL 9 Unmodified _LYQRAFQHL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.3218994140625 2 588.31964 1174.62473 3.4926 0.0020548 0.75512 0.00044425 4.2477 0.002499 588.319772386473 33.946 0.17639 34.566 34.482 34.658 0.62031 15 8 2 0 0 0 0.049036 1 15552 15552 52.268 35.326 1 505990 19233 6272 12314 12343 21916 21916 0.0443994283707525 LYQRAFQHL 9 Unmodified _LYQRAFQHL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 392.548852 1174.62473 2.7479 0.0010787 0.15657 6.1463E-05 2.9045 0.0011401 392.5487483360655 33.95 0.31902 34.57 34.407 34.726 0.62031 0.12372 -0.00012399 NaN 36.506 35 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1134500 19234 6272 12314 12343 0.0443994283707525 LYQVEKEMEE 10 Unmodified _LYQVEKEMEE_ 0 0 0 nc|ENSG00000089177|Q96L93-5|KIF16B;nc|ENSG00000089177|Q96L93-6|KIF16B;nc|ENSG00000089177|Q96L93-4|KIF16B;ENSG00000089177|ENST00000354981|KIF16B;nc|ENSG00000089177|Q96L93-2|KIF16B nc|ENSG00000089177|Q96L93-5|KIF16B nc|ENSG00000089177|Q96L93-5|KIF16B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 649.3052368164062 2 649.302661 1296.59077 NaN NaN NaN NaN NaN NaN NaN 54.403 1 54.668 54.168 55.168 0.26462 0 0 0 0.91049 1 24871 24871 17.113 0 1 19235 1037 12315 12344 21917 21917 -0.04566311227472397 LYRKKQAKP 9 Unmodified _LYRKKQAKP_ 0 0 0 REV__ENSG00000174231|ENST00000304992|PRPF8 REV__ENSG00000174231|ENST00000304992|PRPF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.355712890625 2 566.353483 1130.69241 NaN NaN NaN NaN NaN NaN NaN 40.835 1 41.48 40.98 41.98 0.64451 0 0 0 0.89509 1 18668 18668 4.756 0 1 + 19236 13627 12316 12345 21918 21918 0.132293927678802 LYRKWWLYKQI 11 Unmodified _LYRKWWLYKQI_ 0 0 0 REV__ENSG00000118402|ENST00000369816|ELOVL4 REV__ENSG00000118402|ENST00000369816|ELOVL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 798.9547729492188 2 798.956104 1595.89765 NaN NaN NaN NaN NaN NaN NaN 93.301 1 93.387 92.887 93.887 0.086212 0 0 0 1.008 1 48856 48856 0.30703 0.30703 1 + 19237 11470 12317 12346 21919 21919 0.1235412650746639 LYRLKFNEF 9 Unmodified _LYRLKFNEF_ 0 0 0 nc|ENSG00000188042|P56559|ARL4C;ENSG00000188042|ENST00000339728|ARL4C nc|ENSG00000188042|P56559|ARL4C nc|ENSG00000188042|P56559|ARL4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 410.561767578125 3 410.560758 1228.66044 2.5668 0.0010538 0.24805 0.00010184 2.8149 0.0011557 410.5608402988142 55.876 0.32023 55.876 55.758 56.079 0 73 24 4 0 0 0 0.027384 2 25722 25671;25722 53.404 24.909 1 9212300 19238 5650 12318 12347 21920;21921 21921 0.05525980294078181 LYRLKFNEF 9 Unmodified _LYRLKFNEF_ 0 0 0 nc|ENSG00000188042|P56559|ARL4C;ENSG00000188042|ENST00000339728|ARL4C nc|ENSG00000188042|P56559|ARL4C nc|ENSG00000188042|P56559|ARL4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 615.3411865234375 2 615.337498 1228.66044 3.5912 0.0022098 -0.2473 -0.00015217 3.3439 0.0020576 615.3372366175164 55.858 0.23024 55.858 55.768 55.999 0 45 17 3 0 0 0 2.5075E-05 2 25747 25697;25747 142.08 56.438 1 4625300 19239 5650 12318 12347 21922;21923 21923 0.05525980294078181 LYRLKFNEF 9 Unmodified _LYRLKFNEF_ 0 0 0 nc|ENSG00000188042|P56559|ARL4C;ENSG00000188042|ENST00000339728|ARL4C nc|ENSG00000188042|P56559|ARL4C nc|ENSG00000188042|P56559|ARL4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 410.5616760253906 3 410.560758 1228.66044 2.3008 0.00094463 -0.17499 -7.1844E-05 2.1258 0.00087279 410.56064994403835 54.737 0.35403 55.533 55.341 55.695 0.79552 61 21 4 0 0 0 0.032303 3 24979 24925;24979;25024 57.722 31.454 1 7936800 19240 5650 12318 12347 21924;21925;21926 21925 0.05525980294078181 LYRLKFNEF 9 Unmodified _LYRLKFNEF_ 0 0 0 nc|ENSG00000188042|P56559|ARL4C;ENSG00000188042|ENST00000339728|ARL4C nc|ENSG00000188042|P56559|ARL4C nc|ENSG00000188042|P56559|ARL4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 615.338623046875 2 615.337498 1228.66044 2.966 0.0018251 -0.083213 -5.1204E-05 2.8828 0.0017739 615.3371679324025 54.714 0.29198 55.51 55.36 55.652 0.79552 39 17 3 0 0 0 6.4275E-06 1 24955 24955 148.27 72.507 1 2903300 19241 5650 12318 12347 21927 21927 0.05525980294078181 LYRLKFNEF 9 Unmodified _LYRLKFNEF_ 0 0 0 nc|ENSG00000188042|P56559|ARL4C;ENSG00000188042|ENST00000339728|ARL4C nc|ENSG00000188042|P56559|ARL4C nc|ENSG00000188042|P56559|ARL4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 615.8399047851562 2 615.337498 1228.66044 3.4659 0.0021327 0.17121 0.00010535 3.6371 0.002238 615.337756160666 55.879 0.264 56.145 56.015 56.279 0.26543 24 10 3 0 0 0 0.0027913 1 25549 25549 96.367 46.812 1 2029700 19242 5650 12318 12347 21928 21928 0.05525980294078181 LYRLKFNEF 9 Unmodified _LYRLKFNEF_ 0 0 0 nc|ENSG00000188042|P56559|ARL4C;ENSG00000188042|ENST00000339728|ARL4C nc|ENSG00000188042|P56559|ARL4C nc|ENSG00000188042|P56559|ARL4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 615.8421630859375 2 615.337498 1228.66044 3.5551 0.0021876 0.22179 0.00013648 3.7769 0.0023241 615.3374325989272 55.143 0.34479 55.811 55.631 55.976 0.66798 27 13 3 0 0 0 0.0027913 2 25217 25217;25280 96.367 46.812 1 1413700 19243 5650 12318 12347 21929;21930 21929 0.05525980294078181 LYRLKFNEF 9 Unmodified _LYRLKFNEF_ 0 0 0 nc|ENSG00000188042|P56559|ARL4C;ENSG00000188042|ENST00000339728|ARL4C nc|ENSG00000188042|P56559|ARL4C nc|ENSG00000188042|P56559|ARL4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 410.56182861328125 3 410.560758 1228.66044 2.9489 0.0012107 0.61875 0.00025404 3.5677 0.0014647 410.5611112484967 55.143 0.3667 55.811 55.609 55.976 0.66798 41 14 4 0 0 0 0.16976 1 25225 25225 18.373 3.9677 1 3118700 19244 5650 12318 12347 21931 21931 0.05525980294078181 LYRLYKPILWR 11 Unmodified _LYRLYKPILWR_ 0 0 0 ENSG00000146918|ENST00000356309|NCAPG2;nc|ENSG00000146918|Q86XI2-2|NCAPG2;NCAPG2|p.Q736Tfs*12|1|0.06|ENSG00000146918|chr7:158656560-158656561|-/AGAGTTGAGT|frameshift_variant;ENST00000467785.5_1_7:158448006-158486027:-|nuORF;NCAPG2|p.W495Gfs*25|1|0.14|ENSG00000146918|chr7:158664747-158664747|A/-|frameshift_variant ENSG00000146918|ENST00000356309|NCAPG2 ENSG00000146918|ENST00000356309|NCAPG2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 380.9833984375 4 380.982961 1519.90274 2.51 0.00095625 -0.15788 -6.0151E-05 2.3521 0.0008961 380.9828569255762 47.552 0.3644 47.552 47.231 47.595 0 35 19 3 0 0 0 0.13295 1 21672 21672 0.094841 0 1 874410 19245 3538 12319 12348 21932 21932 0.16358430370064525 LYRRQGKL 8 Unmodified _LYRRQGKL_ 0 0 0 nc|ENSG00000137171|Q9NSK0-5|KLC4;nc|ENSG00000174996|Q9H0B6-2|KLC2;ENSG00000137171|ENST00000347162|KLC4;ENSG00000174996|ENST00000394067|KLC2;nc|ENSG00000137171|Q9NSK0-3|KLC4;ENST00000469987.1_1_6:43039891-43040499:+|nuORF nc|ENSG00000137171|Q9NSK0-5|KLC4 nc|ENSG00000137171|Q9NSK0-5|KLC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.3175048828125 2 517.3169 1032.61925 3.2442 0.0016783 -0.2442 -0.00012633 3 0.0015519 517.3167439241937 18.159 0.22654 18.46 18.362 18.588 0.30158 59 25 3 0 0 0 0.68959 1 8201 8201 5.2307 3.1709 1 688270 19246 3000 12320 12349 21933 21933 0.10424264045286691 LYRRRRDRP 9 Unmodified _LYRRRRDRP_ 0 0 0 nc|ENSG00000169756|P48059-5|LIMS1;ENST00000449684.6_1_2:109237798-109277146:+|nuORF nc|ENSG00000169756|P48059-5|LIMS1 nc|ENSG00000169756|P48059-5|LIMS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 644.0752563476562 2 644.378886 1286.74322 NaN NaN NaN NaN NaN NaN NaN 109.21 1 109.81 109.31 110.31 0.60264 0 0 0 0.91265 1 50373 50373 0.45834 0.057624 1 19247 9749 12321 12350 21934 21934 0.11131734865443832 LYRRSRRRRRL 11 Unmodified _LYRRSRRRRRL_ 0 0 0 REV__ENST00000245157.9_1_16:56553867-56553957:-|nuORF REV__ENST00000245157.9_1_16:56553867-56553957:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 794.500244140625 2 794.49819 1586.98183 NaN NaN NaN NaN NaN NaN NaN 93.46 1 93.546 93.046 94.046 0.086212 0 0 0 1.0082 1 48963 48963 0.26902 0.26902 1 + 19248 14890 12322 12351 21935 21935 0.21181515167563703 LYSDRHYDL 9 Unmodified _LYSDRHYDL_ 0 0 0 nc|ENSG00000110713|P52948-6|NUP98;ENSG00000110713|ENST00000324932|NUP98;nc|ENSG00000110713|P52948|NUP98 nc|ENSG00000110713|P52948-6|NUP98 nc|ENSG00000110713|P52948-6|NUP98 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.5653381347656 3 394.524372 1180.55129 2.7001 0.0010652 -0.27195 -0.00010729 2.4281 0.00095796 394.52433112712373 30.253 0.22432 31.043 30.881 31.105 0.78921 32 20 2 0 0 0 0.10916 1 13640 13640 6.6304 1.2277 1 203110 19249 1726 12323 12352 21936 21936 -0.03176650396039804 LYSEVSHLL 9 Unmodified _LYSEVSHLL_ 0 0 0 ENSG00000164327|ENST00000357387|RICTOR;nc|ENSG00000164327|Q6R327-3|RICTOR ENSG00000164327|ENST00000357387|RICTOR ENSG00000164327|ENST00000357387|RICTOR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.78857421875 2 530.787307 1059.56006 NaN NaN NaN NaN NaN NaN NaN 59.536 1 60.201 59.701 60.701 0.66503 0 0 0 0.025241 1 27254 27254 64.236 19.829 1 19250 4306 12324 12353 21937 21937 0.032663232404502196 LYSEWCSWL 9 Unmodified _LYSEWCSWL_ 0 0 0 nc|ENSG00000126217|O15068-8|MCF2L nc|ENSG00000126217|O15068-8|MCF2L nc|ENSG00000126217|O15068-8|MCF2L MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 396.2303771972656 3 396.179437 1185.51648 2.6377 0.001045 -0.93913 -0.00037206 1.6986 0.00067293 396.1790856308143 36.615 0.1702 37.408 37.27 37.44 0.79342 11 8 2 0 0 0 0.11267 1 16584 16584 2.7352 0.23671 1 109490 19251 9625 12325 12354 21938 21938 -0.06885609528353598 LYSHLVDYF 9 Unmodified _LYSHLVDYF_ 0 0 0 ENSG00000088256|ENST00000078429|GNA11;ENST00000590534.1_1_19:3119101-3121174:+|nuORF;ENST00000586180.1_1_19:3118803-3121174:+|nuORF ENSG00000088256|ENST00000078429|GNA11 ENSG00000088256|ENST00000078429|GNA11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.7905883789062 2 578.787307 1155.56006 3.643 0.0021085 0.54921 0.00031787 4.1922 0.0024264 579.2891141431004 68.5 0.13544 68.752 68.658 68.793 0.25227 15 11 2 0 0 0 0.14729 1 31371 31371 26.884 11.036 1 291560 19252 1010 12326 12355 21939 21939 -0.01149676759587237 LYSIAKNYS 9 Unmodified _LYSIAKNYS_ 0 0 0 REV__nc|ENSG00000059769|Q9H1X3-2|DNAJC25 REV__nc|ENSG00000059769|Q9H1X3-2|DNAJC25 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.2794189453125 2 529.779482 1057.54441 2.9325 0.0015536 -2.4828 -0.0013153 0.44967 0.00023823 529.7773219303112 72.332 0.04776 72.591 72.562 72.609 0.25875 5 3 2 0 0 0 0.10586 1 33211 33211 7.9102 2.6133 1 282090 + 19253 10390 12327 12356 21940 21940 0.017940367233904908 LYSLVILRM 9 Unmodified _LYSLVILRM_ 0 0 0 REV__ENSG00000167825|ENST00000301532|OR5I1 REV__ENSG00000167825|ENST00000301532|OR5I1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.3367309570312 2 554.33337 1106.65219 NaN NaN NaN NaN NaN NaN NaN 81.213 1 81.873 81.373 82.373 0.65998 0 0 0 0.89315 1 37417 37417 5.2307 2.3415 1 + 19254 13311 12328 12357 21941 21941 0.10312710053108276 LYSMASYIL 9 Unmodified _LYSMASYIL_ 0 0 0 OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant;OTOGL|p.M2037Kfs*21|1|0.04|ENSG00000165899|chr12:80358721-80358722|-/AAACAAT|frameshift_variant;ENSG00000165899|ENST00000547103|OTOGL OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.7719116210938 2 530.772811 1059.53107 NaN NaN NaN NaN NaN NaN NaN 49.233 1 49.888 49.388 50.388 0.65524 0 0 0 0.59707 1 22522 22522 15.847 4.2069 1 19255 4433 12329 12358 21942 21942 0.0036846261978098482 LYSSEQLLI 9 Unmodified _LYSSEQLLI_ 0 0 0 ENSG00000168209|ENST00000307365|DDIT4 ENSG00000168209|ENST00000307365|DDIT4 ENSG00000168209|ENST00000307365|DDIT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.2960815429688 2 533.294965 1064.57538 2.4924 0.0013292 0.57474 0.00030651 3.0671 0.0016357 533.2952169362313 75.088 0.27584 75.088 74.971 75.247 0 62 25 3 0 0 0 0.025323 1 36838 36838 61.357 21.4 1 3779100 19256 4613 12330 12359 21943 21943 0.04567190037619184 LYSSEQLLI 9 Unmodified _LYSSEQLLI_ 0 0 0 ENSG00000168209|ENST00000307365|DDIT4 ENSG00000168209|ENST00000307365|DDIT4 ENSG00000168209|ENST00000307365|DDIT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.2959594726562 2 533.294965 1064.57538 2.6143 0.0013942 0.17743 9.4624E-05 2.7917 0.0014888 533.2949072113131 74.158 0.26808 74.845 74.757 75.026 0.68662 45 21 3 0 0 0 0.028312 1 35846 35846 57.471 17.514 1 3370700 19257 4613 12330 12359 21944 21944 0.04567190037619184 LYSSEQLLI 9 Unmodified _LYSSEQLLI_ 0 0 0 ENSG00000168209|ENST00000307365|DDIT4 ENSG00000168209|ENST00000307365|DDIT4 ENSG00000168209|ENST00000307365|DDIT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.2969970703125 2 533.294965 1064.57538 2.742 0.0014623 -0.33243 -0.00017728 2.4095 0.001285 533.294627336355 74.807 0.3413 75.066 74.907 75.248 0.25831 69 31 3 0 0 0 0.041436 1 34426 34426 50.855 4.8341 1 2163900 19258 4613 12330 12359 21945 21945 0.04567190037619184 LYSSEQLLI 9 Unmodified _LYSSEQLLI_ 0 0 0 ENSG00000168209|ENST00000307365|DDIT4 ENSG00000168209|ENST00000307365|DDIT4 ENSG00000168209|ENST00000307365|DDIT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.2965087890625 2 533.294965 1064.57538 2.7526 0.001468 -0.14219 -7.583E-05 2.6104 0.0013921 533.2947981924984 74.298 0.3401 74.962 74.797 75.138 0.6644 89 39 3 0 0 0 0.071101 1 34176 34176 39.957 12.329 1 2725500 19259 4613 12330 12359 21946 21946 0.04567190037619184 LYSSYFSFA 9 Unmodified _LYSSYFSFA_ 0 0 0 REV__ENSG00000196466|ENST00000430385|ZNF799 REV__ENSG00000196466|ENST00000430385|ZNF799 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.7546997070312 2 542.752933 1083.49131 NaN NaN NaN NaN NaN NaN NaN 96.101 1 96.101 95.601 96.601 0 0 0 0 0.89509 1 51921 51921 4.756 0.42677 1 + 19260 13832 12331 12360 21947 21947 -0.04709341059287908 LYSYYYVYRRQ 11 Unmodified _LYSYYYVYRRQ_ 0 0 0 REV__PTEN|p.R189Kfs*7|1|0.16|ENSG00000171862|chr10:87952169-87952170|-/TAAAGAATCATCTGGATTA|frameshift_variant REV__PTEN|p.R189Kfs*7|1|0.16|ENSG00000171862|chr10:87952169-87952170|-/TAAAGAATCATCTGGATTA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 787.4353637695312 2 787.393533 1572.77251 NaN NaN NaN NaN NaN NaN NaN 107.65 1 107.96 107.46 108.46 0.31421 0 0 0 1.008 1 49657 49657 0.30703 0 1 + 19261 13524 12332 12361 21948 21948 0.00903789580411285 LYTDRTEKL 9 Unmodified _LYTDRTEKL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000515433.1_1_5:135381935-135382190:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 380.54315185546875 3 380.208273 1137.60299 2.8635 0.0010887 -0.87142 -0.00033132 1.9921 0.00075742 380.2079450169131 23.07 0.1254 23.07 23.017 23.143 0 37 23 2 0 0 0 0.044531 1 10370 10370 49.527 7.6876 1 14426000 19262 2210 12333 12362 21949 21949 0.03969093297860127 LYTDRTEKL 9 Unmodified _LYTDRTEKL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000515433.1_1_5:135381935-135382190:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 380.2095947265625 3 380.208273 1137.60299 2.0204 0.00076819 0.069697 2.6499E-05 2.0901 0.00079469 380.20828579947926 22.048 0.21667 22.636 22.519 22.736 0.58739 71 40 2 0 0 0 0.025135 3 9802 9758;9802;9844 61.602 11.669 1 8890800 19263 2210 12333 12362 21950;21951;21952 21951 0.03969093297860127 LYTDRTEKL 9 Unmodified _LYTDRTEKL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000515433.1_1_5:135381935-135382190:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.81103515625 2 569.808771 1137.60299 NaN NaN NaN NaN NaN NaN NaN 21.995 1 22.582 22.082 23.082 0.58739 0 0 0 0.026003 1 9773 9773 76.825 12.588 1 19264 2210 12333 12362 21953 21953 0.03969093297860127 LYTDRTEKL 9 Unmodified _LYTDRTEKL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000515433.1_1_5:135381935-135382190:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.209228515625 3 380.208273 1137.60299 2.792 0.0010615 -0.64735 -0.00024613 2.1446 0.00081539 380.2080468492171 22.846 0.16636 23.122 23.037 23.203 0.27562 52 34 2 0 0 0 0.035495 2 10279 10279;10319 53.404 14.191 1 9821300 19265 2210 12333 12362 21954;21955 21954 0.03969093297860127 LYTDRTEKL 9 Unmodified _LYTDRTEKL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000515433.1_1_5:135381935-135382190:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.2088623046875 3 380.208273 1137.60299 2.7373 0.0010408 -0.39888 -0.00015166 2.3384 0.0008891 380.2081695197403 22.355 0.14999 22.996 22.951 23.101 0.64051 46 32 2 0 0 0 0.025135 2 10160 10160;10202 61.602 19.289 1 10064000 19266 2210 12333 12362 21956;21957 21956 0.03969093297860127 LYTDRTEKL 9 Unmodified _LYTDRTEKL_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000515433.1_1_5:135381935-135382190:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.8111572265625 2 569.808771 1137.60299 NaN NaN NaN NaN NaN NaN NaN 22.343 1 22.983 22.483 23.483 0.64051 0 0 0 0.016962 1 10168 10168 93.166 24.061 1 19267 2210 12333 12362 21958 21958 0.03969093297860127 LYTEKFEEF 9 Unmodified _LYTEKFEEF_ 0 0 0 ENSG00000084652|ENST00000373610|TXLNA ENSG00000084652|ENST00000373610|TXLNA ENSG00000084652|ENST00000373610|TXLNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 603.2906494140625 2 603.289879 1204.56521 3.343 0.0020168 0.12297 7.4185E-05 3.4659 0.002091 603.2898789015611 55.705 0.29215 55.705 55.54 55.833 0 72 22 4 0 0 0 0.001383 3 25558 25558;25609;25663 114.2 68.181 1 26584000 19268 958 12334 12363 21959;21960;21961 21959 -0.028894176876065103 LYTEKFEEF 9 Unmodified _LYTEKFEEF_ 0 0 0 ENSG00000084652|ENST00000373610|TXLNA ENSG00000084652|ENST00000373610|TXLNA ENSG00000084652|ENST00000373610|TXLNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 603.2915649414062 2 603.289879 1204.56521 3.0714 0.0018529 0.14607 8.8124E-05 3.2175 0.0019411 603.2898395602919 54.545 0.42554 55.341 55.113 55.538 0.79552 93 27 4 0 0 0 0.00038954 4 24867 24820;24867;24919;24967 133.05 87.031 1 20110000 19269 958 12334 12363 21962;21963;21964;21965 21963 -0.028894176876065103 LYTEKFEEF 9 Unmodified _LYTEKFEEF_ 0 0 0 ENSG00000084652|ENST00000373610|TXLNA ENSG00000084652|ENST00000373610|TXLNA ENSG00000084652|ENST00000373610|TXLNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 603.2918090820312 2 603.289879 1204.56521 3.5006 0.0021119 0.051882 3.13E-05 3.5525 0.0021432 603.2897966909004 55.671 0.44092 55.937 55.736 56.177 0.26543 74 23 4 0 0 0 0.001731 3 25470 25424;25470;25533 106.94 63.082 1 18022000 19270 958 12334 12363 21966;21967;21968 21967 -0.028894176876065103 LYTEKFEEF 9 Unmodified _LYTEKFEEF_ 0 0 0 ENSG00000084652|ENST00000373610|TXLNA ENSG00000084652|ENST00000373610|TXLNA ENSG00000084652|ENST00000373610|TXLNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 603.2919311523438 2 603.289879 1204.56521 3.7945 0.0022892 0.14493 8.7437E-05 3.9395 0.0023766 603.289906131208 54.93 0.39011 55.597 55.412 55.802 0.6665 67 17 5 0 0 0 0.0024283 3 25094 25094;25147;25202 99.755 53.734 1 16437000 19271 958 12334 12363 21969;21970;21971 21969 -0.028894176876065103 LYTGTVSSF 9 Unmodified _LYTGTVSSF_ 0 0 0 nc|ENSG00000185033|Q9NPR2-2|SEMA4B;ENSG00000185033|ENST00000411539|SEMA4B nc|ENSG00000185033|Q9NPR2-2|SEMA4B nc|ENSG00000185033|Q9NPR2-2|SEMA4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 974.4855346679688 1 974.482939 973.475663 3.5953 0.0035035 -0.35719 -0.00034808 3.2381 0.0031555 974.4824582271384 56.55 0.27135 56.55 56.401 56.672 0 38 21 2 0 0 0 0.0061269 3 26027 25981;26027;26083 89.427 14.811 1 3364500 19272 5480 12335 12364 21972;21973;21974 21973 -0.012136275763168669 LYTGTVSSF 9 Unmodified _LYTGTVSSF_ 0 0 0 nc|ENSG00000185033|Q9NPR2-2|SEMA4B;ENSG00000185033|ENST00000411539|SEMA4B nc|ENSG00000185033|Q9NPR2-2|SEMA4B nc|ENSG00000185033|Q9NPR2-2|SEMA4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 974.4869384765625 1 974.482939 973.475663 3.2633 0.00318 -0.44827 -0.00043683 2.815 0.0027432 974.4825786709262 55.706 0.26046 56.493 56.346 56.606 0.78711 33 19 2 0 0 0 0.012869 2 25413 25413;25467 77.984 17.595 1 2338800 19273 5480 12335 12364 21975;21976 21975 -0.012136275763168669 LYTGTVSSF 9 Unmodified _LYTGTVSSF_ 0 0 0 nc|ENSG00000185033|Q9NPR2-2|SEMA4B;ENSG00000185033|ENST00000411539|SEMA4B nc|ENSG00000185033|Q9NPR2-2|SEMA4B nc|ENSG00000185033|Q9NPR2-2|SEMA4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 974.4852294921875 1 974.482939 973.475663 3.5661 0.0034751 -0.51126 -0.00049821 3.0548 0.0029769 974.4824438325991 56.425 0.28746 56.691 56.542 56.829 0.26543 31 19 2 0 0 0 0.086747 2 25782 25782;25832 36.044 12.896 1 1612500 19274 5480 12335 12364 21977;21978 21977 -0.012136275763168669 LYTGTVSSF 9 Unmodified _LYTGTVSSF_ 0 0 0 nc|ENSG00000185033|Q9NPR2-2|SEMA4B;ENSG00000185033|ENST00000411539|SEMA4B nc|ENSG00000185033|Q9NPR2-2|SEMA4B nc|ENSG00000185033|Q9NPR2-2|SEMA4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.7467346191406 2 487.745108 973.475663 3.2347 0.0015777 0.46545 0.00022702 3.7001 0.0018047 487.7450444263598 55.766 0.19593 56.434 56.368 56.564 0.66798 9 6 2 0 0 0 0.7295 1 25548 25548 8.5933 2.2392 1 255540 19275 5480 12335 12364 21979 21979 -0.012136275763168669 LYTGTVSSF 9 Unmodified _LYTGTVSSF_ 0 0 0 nc|ENSG00000185033|Q9NPR2-2|SEMA4B;ENSG00000185033|ENST00000411539|SEMA4B nc|ENSG00000185033|Q9NPR2-2|SEMA4B nc|ENSG00000185033|Q9NPR2-2|SEMA4B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 487.745108 973.475663 3.2042 0.0015628 -0.038043 -1.8555E-05 3.1662 0.0015443 487.74504339703367 56.525 0.23394 56.525 56.455 56.689 0 0.045379 -0.00027126 NaN 8.5933 25 18 2 NaN NaN NaN NaN 0 NaN NaN 0 1371100 19276 5480 12335 12364 -0.012136275763168669 LYTPEHHLI 9 Unmodified _LYTPEHHLI_ 0 0 0 ENST00000519356.1_1_8:33331766-33367302:-|nuORF;ENSG00000129696|ENST00000431156|TTI2 ENST00000519356.1_1_8:33331766-33367302:-|nuORF ENST00000519356.1_1_8:33331766-33367302:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.87054443359375 3 374.869591 1121.58694 2.7744 0.00104 -0.37714 -0.00014138 2.3972 0.00089865 374.86948017563543 36.548 0.32034 36.548 36.347 36.668 0 35 15 3 0 0 0 0.069137 1 16583 16583 36.127 24.632 1 785890 19277 2562 12336 12365 21980 21980 0.031014318516326966 LYTPEHHLI 9 Unmodified _LYTPEHHLI_ 0 0 0 ENST00000519356.1_1_8:33331766-33367302:-|nuORF;ENSG00000129696|ENST00000431156|TTI2 ENST00000519356.1_1_8:33331766-33367302:-|nuORF ENST00000519356.1_1_8:33331766-33367302:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.8708190917969 3 374.869591 1121.58694 2.5433 0.00095341 0.19947 7.4774E-05 2.7428 0.0010282 374.86974045514364 35.618 0.28797 36.41 36.233 36.521 0.79132 30 14 3 0 0 0 0.10245 3 16121 16121;16126;16176 29.082 24.185 1 815910 19278 2562 12336 12365 21981;21982;21983 21981 0.031014318516326966 LYTPEHHLI 9 Unmodified _LYTPEHHLI_ 0 0 0 ENST00000519356.1_1_8:33331766-33367302:-|nuORF;ENSG00000129696|ENST00000431156|TTI2 ENST00000519356.1_1_8:33331766-33367302:-|nuORF ENST00000519356.1_1_8:33331766-33367302:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.7398681640625 3 374.869591 1121.58694 2.7655 0.0010367 0.026662 9.9947E-06 2.7922 0.0010467 374.86962148105755 35.821 0.20249 36.447 36.317 36.52 0.62631 15 7 3 0 0 0 0.10127 1 16400 16400 12.241 12.241 1 466470 19279 2562 12336 12365 21984 21984 0.031014318516326966 LYTRTSELF 9 Unmodified _LYTRTSELF_ 0 0 0 REV__ENSG00000181790|ENST00000517894|ADGRB1 REV__ENSG00000181790|ENST00000517894|ADGRB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 565.7994995117188 2 565.298039 1128.58152 3.8155 0.0021569 -0.30923 -0.00017481 3.5063 0.0019821 565.2992388064993 67.676 0.2471 67.928 67.821 68.068 0.25227 29 13 3 0 0 0 0.26277 1 30999 30999 19.257 0 1 880060 + 19280 13864 12337 12366 21985 21985 0.02237708269126415 LYVGKTSLI 9 Unmodified _LYVGKTSLI_ 0 0 0 ENSG00000100228|ENST00000263116|RAB36 ENSG00000100228|ENST00000263116|RAB36 ENSG00000100228|ENST00000263116|RAB36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 497.3043518066406 2 497.302593 992.590633 3.2598 0.0016211 0.35202 0.00017506 3.6118 0.0017962 497.3027213296416 53.362 0.2182 53.362 53.245 53.463 0 29 16 2 0 0 0 0.02631 2 24418 24418;24479 60.074 15.443 1 1462700 19281 1192 12338 12367 21986;21987 21986 0.09404101625477779 LYVGKTSLI 9 Unmodified _LYVGKTSLI_ 0 0 0 ENSG00000100228|ENST00000263116|RAB36 ENSG00000100228|ENST00000263116|RAB36 ENSG00000100228|ENST00000263116|RAB36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 497.3041687011719 2 497.302593 992.590633 2.7049 0.0013452 0.35152 0.00017481 3.0564 0.00152 497.3026778071666 52.322 0.24524 53.133 52.997 53.242 0.81065 47 18 3 0 0 0 0.02631 1 23829 23829 60.074 16.302 1 1367600 19282 1192 12338 12367 21988 21988 0.09404101625477779 LYVGKTSLI 9 Unmodified _LYVGKTSLI_ 0 0 0 ENSG00000100228|ENST00000263116|RAB36 ENSG00000100228|ENST00000263116|RAB36 ENSG00000100228|ENST00000263116|RAB36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.3039245605469 2 497.302593 992.590633 3.0335 0.0015086 -0.1692 -8.4144E-05 2.8643 0.0014244 497.30247863833984 52.6 0.22489 53.261 53.049 53.274 0.66198 14 8 2 0 0 0 0.048676 1 24020 24020 47.749 11.622 1 754640 19283 1192 12338 12367 21989 21989 0.09404101625477779 LYVVDLKKF 9 Unmodified _LYVVDLKKF_ 0 0 0 ENSG00000102595|ENST00000376747|UGGT2;nc|ENSG00000136731|Q9NYU2-2|UGGT1;ENSG00000136731|ENST00000259253|UGGT1 ENSG00000102595|ENST00000376747|UGGT2;nc|ENSG00000136731|Q9NYU2-2|UGGT1 nc|ENSG00000136731|Q9NYU2-2|UGGT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 375.8975830078125 3 375.561987 1123.66413 2.785 0.0010459 -0.63232 -0.00023747 2.1526 0.00080845 375.561583665513 58.203 0.16482 58.203 58.073 58.238 0 26 16 2 0 0 0 0.076469 1 26830 26830 38.615 10.12 1 1111400 19284 2968;1349 12339 12368 21990 21990 0.10724650067936636 LYVVDLKKF 9 Unmodified _LYVVDLKKF_ 0 0 0 ENSG00000102595|ENST00000376747|UGGT2;nc|ENSG00000136731|Q9NYU2-2|UGGT1;ENSG00000136731|ENST00000259253|UGGT1 ENSG00000102595|ENST00000376747|UGGT2;nc|ENSG00000136731|Q9NYU2-2|UGGT1 nc|ENSG00000136731|Q9NYU2-2|UGGT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 375.56256103515625 3 375.561987 1123.66413 2.1693 0.0008147 0.040844 1.534E-05 2.2101 0.00083004 375.5618396138751 57.133 0.18826 57.904 57.843 58.031 0.77163 41 19 3 0 0 0 0.076469 1 26156 26156 38.615 10.12 1 1353500 19285 2968;1349 12339 12368 21991 21991 0.10724650067936636 LYWEKRMRSRE 11 Unmodified _LYWEKRMRSRE_ 0 0 0 REV__ENST00000401878.7_2_7:155570161-155570317:+|nuORF REV__ENST00000401878.7_2_7:155570161-155570317:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.60498046875 3 518.605032 1552.79327 NaN NaN NaN NaN NaN NaN NaN 57.713 1 58.481 57.981 58.981 0.76861 0 0 0 1.008 1 26443 26443 0.094841 0.011491 1 + 19286 16047 12340 12369 21992 21992 0.03898056688399265 LYWINKRRRY 10 Unmodified _LYWINKRRRY_ 0 0 0 ENSG00000186118|ENST00000334122|TEX38 ENSG00000186118|ENST00000334122|TEX38 ENSG00000186118|ENST00000334122|TEX38 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 734.7507934570312 2 734.42022 1466.82589 NaN NaN NaN NaN NaN NaN NaN 84.093 1 84.121 83.621 84.621 0.028603 0 0 0 0.99733 1 41870 41870 3.9444 0.66309 1 19287 5555 12341 12370 21993 21993 0.11114631873601866 LYWKFSRCKLR 11 Unmodified _LYWKFSRCKLR_ 0 0 0 REV__nc|ENSG00000182870|Q9HCQ5-2|GALNT9 REV__nc|ENSG00000182870|Q9HCQ5-2|GALNT9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 750.4197387695312 2 750.418831 1498.82311 NaN NaN NaN NaN NaN NaN NaN 62.485 1 62.485 61.985 62.985 0 0 0 0 1.008 1 29288 29288 0.30703 0.30703 1 + 19288 10022 12342 12371 21994 21994 0.09365040424427207 LYWKWLWAKWM 11 Unmodified _LYWKWLWAKWM_ 0 0 0 ENST00000377833.8_1_10:17147498-17151673:-|nuORF ENST00000377833.8_1_10:17147498-17151673:-|nuORF ENST00000377833.8_1_10:17147498-17151673:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 805.923583984375 2 805.920675 1609.8268 NaN NaN NaN NaN NaN NaN NaN 45.849 1 46.676 46.176 47.176 0.82621 0 0 0 1.008 1 20878 20878 0.30703 0.30703 1 19289 7422 12343 12372 21995 21995 0.04627710198269597 LYWRRKQRKEL 11 Unmodified _LYWRRKQRKEL_ 0 0 0 nc|ENSG00000154134|Q96MS0-2|ROBO3;ENSG00000154134|ENST00000397801|ROBO3 nc|ENSG00000154134|Q96MS0-2|ROBO3 nc|ENSG00000154134|Q96MS0-2|ROBO3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 788.4649047851562 2 788.465158 1574.91576 NaN NaN NaN NaN NaN NaN NaN 34.659 1 34.659 34.159 35.159 0 0 0 0 1.0082 1 15713 15713 0 0 1 19290 3805 12344 12373 21996 21996 0.15130261482158858 LYWSHPRKF 9 Unmodified _LYWSHPRKF_ 0 0 0 ENST00000557367.2_1_14:50053001-50053064:-|nuORF;ENSG00000213741|ENST00000245458|RPS29;nc|ENSG00000213741|P62273-2|RPS29;ENST00000554075.1_1_14:50052568-50053064:-|nuORF ENST00000557367.2_1_14:50053001-50053064:-|nuORF ENST00000557367.2_1_14:50053001-50053064:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 411.8902893066406 3 411.889097 1232.64546 NaN NaN NaN NaN NaN NaN NaN 30.89 1 30.89 30.39 31.39 0 0 0 0 0.29408 1 13963 13963 27.223 17.679 1 19291 6097 12345 12374 21997 21997 0.03844533216738455 LYWSHPRKF 9 Unmodified _LYWSHPRKF_ 0 0 0 ENST00000557367.2_1_14:50053001-50053064:-|nuORF;ENSG00000213741|ENST00000245458|RPS29;nc|ENSG00000213741|P62273-2|RPS29;ENST00000554075.1_1_14:50052568-50053064:-|nuORF ENST00000557367.2_1_14:50053001-50053064:-|nuORF ENST00000557367.2_1_14:50053001-50053064:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 411.89068603515625 3 411.889097 1232.64546 3.3341 0.0013733 -0.095939 -3.9516E-05 3.2381 0.0013338 411.88914568039934 30.518 0.32224 30.774 30.628 30.95 0.25614 28 18 2 0 0 0 1.1022 1 13939 13939 2.2828 1.8283 1 259990 19292 6097 12345 12374 21998 21998 0.03844533216738455 LYWSHPRKF 9 Unmodified _LYWSHPRKF_ 0 0 0 ENST00000557367.2_1_14:50053001-50053064:-|nuORF;ENSG00000213741|ENST00000245458|RPS29;nc|ENSG00000213741|P62273-2|RPS29;ENST00000554075.1_1_14:50052568-50053064:-|nuORF ENST00000557367.2_1_14:50053001-50053064:-|nuORF ENST00000557367.2_1_14:50053001-50053064:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 411.89031982421875 3 411.889097 1232.64546 2.9943 0.0012333 0.2962 0.000122 3.2905 0.0013553 411.8893068178888 30.209 0.21896 30.826 30.733 30.952 0.61736 14 9 2 0 0 0 0.22744 1 13898 13898 21.59 13.146 1 297520 19293 6097 12345 12374 21999 21999 0.03844533216738455 LYYGVTCMCTR 11 Unmodified _LYYGVTCMCTR_ 0 0 0 REV__ENSG00000168702|ENST00000389484|LRP1B REV__ENSG00000168702|ENST00000389484|LRP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.2907104492188 2 655.290519 1308.56648 NaN NaN NaN NaN NaN NaN NaN 70.885 1 71.142 70.642 71.642 0.25642 0 0 0 1.0057 1 32463 32463 3.2813 0 1 + 19294 13361 12346 12375 22000 22000 -0.07545566186377073 LYYIKLRSLP 10 Unmodified _LYYIKLRSLP_ 0 0 0 REV__ENST00000374199.8_1_9:116054008-116054197:+|nuORF REV__ENST00000374199.8_1_9:116054008-116054197:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.5939025878906 3 422.592058 1264.75434 NaN NaN NaN NaN NaN NaN NaN 50.916 1 50.916 50.416 51.416 0 0 0 0 1.0003 1 23313 23313 0.62683 0.17231 1 + 19295 15781 12347 12376 22001 22001 0.13255699396358978 LYYIKLRSLP 10 Unmodified _LYYIKLRSLP_ 0 0 0 REV__ENST00000374199.8_1_9:116054008-116054197:+|nuORF REV__ENST00000374199.8_1_9:116054008-116054197:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.59344482421875 3 422.592058 1264.75434 2.6938 0.0011384 1.0911 0.00046109 3.7849 0.0015995 422.592456816052 45.797 0.78267 46.624 46.256 47.039 0.82621 113 40 4 0 0 0 0.90859 1 20983 20983 1.5923 0.37745 1 5485100 + 19296 15781 12347 12376 22002 22002 0.13255699396358978 LYYIKLRSLP 10 Unmodified _LYYIKLRSLP_ 0 0 0 REV__ENST00000374199.8_1_9:116054008-116054197:+|nuORF REV__ENST00000374199.8_1_9:116054008-116054197:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.59344482421875 3 422.592058 1264.75434 3.0927 0.001307 0.86636 0.00036612 3.9591 0.0016731 422.5922995577965 46.655 0.50031 46.921 46.568 47.068 0.26561 33 17 2 0 0 0 0.90859 3 21194 21194;21245;21311 1.5923 0.37745 1 6827100 + 19297 15781 12347 12376 22003;22004;22005 22003 0.13255699396358978 LYYIKLRSLP 10 Unmodified _LYYIKLRSLP_ 0 0 0 REV__ENST00000374199.8_1_9:116054008-116054197:+|nuORF REV__ENST00000374199.8_1_9:116054008-116054197:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.19671630859375 4 317.195862 1264.75434 2.412 0.00076508 0.79479 0.00025211 3.2068 0.0010172 317.19598383412705 49.021 1.1792 49.283 48.745 49.924 0.26207 66 46 2 0 0 0 0.93713 1 22416 22416 0.62683 0.17231 1 525020 + 19298 15781 12347 12376 22006 22006 0.13255699396358978 LYYIKLRSLP 10 Unmodified _LYYIKLRSLP_ 0 0 0 REV__ENST00000374199.8_1_9:116054008-116054197:+|nuORF REV__ENST00000374199.8_1_9:116054008-116054197:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.59344482421875 3 422.592058 1264.75434 2.8074 0.0011864 1.3301 0.00056208 4.1375 0.0017485 422.5923908356561 51.001 0.16349 51.262 51.195 51.358 0.26146 9 6 2 0 0 0 0.93713 1 23331 23331 0.62683 0 1 455610 + 19299 15781 12347 12376 22007 22007 0.13255699396358978 LYYIKLRSLP 10 Unmodified _LYYIKLRSLP_ 0 0 0 REV__ENST00000374199.8_1_9:116054008-116054197:+|nuORF REV__ENST00000374199.8_1_9:116054008-116054197:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 317.195862 1264.75434 2.0713 0.00065699 0.73373 0.00023274 2.805 0.00088973 317.4468912394419 49.313 0.98029 49.313 48.742 49.722 0 0.027716 -0.00017621 NaN 0.62683 56 47 2 NaN NaN NaN NaN 0 NaN NaN 0 699240 + 19300 15781 12347 12376 0.13255699396358978 LYYIKLRSLP 10 Unmodified _LYYIKLRSLP_ 0 0 0 REV__ENST00000374199.8_1_9:116054008-116054197:+|nuORF REV__ENST00000374199.8_1_9:116054008-116054197:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 317.195862 1264.75434 2.412 0.00076508 0.79479 0.00025211 3.2068 0.0010172 317.19598383412705 49.021 1.1792 49.283 48.745 49.924 0.26207 -0.0024684 -9.8741E-05 NaN 0.62683 66 46 2 NaN NaN NaN NaN 0 NaN NaN 0 525020 + 19301 15781 12347 12376 0.13255699396358978 LYYIKLRSLP 10 Unmodified _LYYIKLRSLP_ 0 0 0 REV__ENST00000374199.8_1_9:116054008-116054197:+|nuORF REV__ENST00000374199.8_1_9:116054008-116054197:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 317.195862 1264.75434 2.2714 0.00072046 1.1751 0.00037274 3.4465 0.0010932 317.1961750336518 48.605 0.73299 49.26 49.085 49.818 0.65525 -0.025248 0.0003838 NaN 0.62683 30 27 2 NaN NaN NaN NaN 0 NaN NaN 0 411910 + 19302 15781 12347 12376 0.13255699396358978 LYYITGNLETF 11 Unmodified _LYYITGNLETF_ 0 0 0 nc|ENSG00000091490|Q68CR1-3|SEL1L3;nc|ENSG00000091490|Q68CR1-2|SEL1L3;ENSG00000091490|ENST00000399878|SEL1L3 nc|ENSG00000091490|Q68CR1-3|SEL1L3 nc|ENSG00000091490|Q68CR1-3|SEL1L3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 667.3363647460938 2 667.337361 1332.66017 NaN NaN NaN NaN NaN NaN NaN 43.727 1 43.997 43.497 44.497 0.2694 0 0 0 0.97175 1 19971 19971 9.3831 1.2276 1 19303 1078 12348 12377 22008 22008 0.007145157835566351 LYYLLHWYRER 11 Unmodified _LYYLLHWYRER_ 0 0 0 ENSG00000139547|ENST00000398138|RDH16;ENSG00000025423|ENST00000322165|HSD17B6 ENSG00000139547|ENST00000398138|RDH16 ENSG00000139547|ENST00000398138|RDH16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 806.4247436523438 2 806.425168 1610.83578 NaN NaN NaN NaN NaN NaN NaN 42.735 1 43.381 42.881 43.881 0.64693 0 0 0 1.0082 1 19581 19581 0 0 1 19304 478 12349 12378 22009 22009 0.054797750882926266 LYYLVFTL 8 Unmodified _LYYLVFTL_ 0 0 0 ENST00000480424.6_1_16:629069-630269:+|nuORF;ENSG00000007541|ENST00000321878|PIGQ;nc|ENSG00000007541|Q9BRB3|PIGQ ENST00000480424.6_1_16:629069-630269:+|nuORF ENST00000480424.6_1_16:629069-630269:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.2940673828125 2 516.294236 1030.57392 NaN NaN NaN NaN NaN NaN NaN 85.627 1 86.298 85.798 86.798 0.67061 0 0 0 0.44644 1 39432 39432 30.198 2.0251 1 19305 365 12350 12379 22010 22010 0.05985600739518304 LYYPDEWL 8 Unmodified _LYYPDEWL_ 0 0 0 REV__nc|ENSG00000187240|Q8NCM8-2|DYNC2H1 REV__nc|ENSG00000187240|Q8NCM8-2|DYNC2H1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.7630004882812 2 549.760758 1097.50696 3.6582 0.0020111 -0.79299 -0.00043596 2.8652 0.0015752 549.7604004765594 25.058 0.32046 25.326 25.188 25.508 0.26777 105 46 3 0 0 0 0.59268 1 11448 11448 14.582 0 1 3622300 + 19306 14094 12351 12380 22011 22011 -0.0378905454224423 LYYQRRQRHRK 11 Unmodified _LYYQRRQRHRK_ 0 0 0 ZBTB11|p.A610Lfs*25|1|0.14|ENSG00000066422|chr3:101660001-101660002|CA/-|frameshift_variant;ENSG00000066422|ENST00000312938|ZBTB11 ZBTB11|p.A610Lfs*25|1|0.14|ENSG00000066422|chr3:101660001-101660002|CA/-|frameshift_variant ZBTB11|p.A610Lfs*25|1|0.14|ENSG00000066422|chr3:101660001-101660002|CA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 802.4559936523438 2 802.455656 1602.89676 NaN NaN NaN NaN NaN NaN NaN 82.12 1 82.78 82.28 83.28 0.65998 0 0 0 1.0082 1 37839 37839 0.30703 0.30703 1 19307 707 12352 12381 22012 22012 0.11942724911068581 LYYQTNYLL 9 Unmodified _LYYQTNYLL_ 0 0 0 ENSG00000243279|ENST00000553851|PRAF2 ENSG00000243279|ENST00000553851|PRAF2 ENSG00000243279|ENST00000553851|PRAF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 595.8111572265625 2 595.808239 1189.60193 3.9917 0.0023783 0.86943 0.00051801 4.8612 0.0028963 595.808762218842 41.502 0.21777 41.772 41.726 41.944 0.27021 16 10 2 0 0 0 0.5141 1 18914 18914 7.9102 0 1 792710 19308 6236 12353 12382 22013 22013 0.014708789289670676 LYYQTNYLL 9 Unmodified _LYYQTNYLL_ 0 0 0 ENSG00000243279|ENST00000553851|PRAF2 ENSG00000243279|ENST00000553851|PRAF2 ENSG00000243279|ENST00000553851|PRAF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.5426025390625 3 397.541252 1189.60193 3.2554 0.0012941 -0.69973 -0.00027817 2.5557 0.001016 397.8754553634222 41.511 0.27301 41.781 41.671 41.944 0.27021 43 16 4 0 0 0 0.43294 1 18936 18936 13.615 2.8154 1 2686700 19309 6236 12353 12382 22014 22014 0.014708789289670676 LYYYRDRDWRW 11 Unmodified _LYYYRDRDWRW_ 0 0 0 ENSG00000243811|ENST00000216099|APOBEC3D ENSG00000243811|ENST00000216099|APOBEC3D ENSG00000243811|ENST00000216099|APOBEC3D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 846.4044799804688 2 846.407506 1690.80046 NaN NaN NaN NaN NaN NaN NaN 95.964 1 96.041 95.541 96.541 0.076538 0 0 0 1.0082 1 50875 50875 0 0 1 19310 6241 12354 12383 22015 22015 -0.017308874395212115 LYYYRKVFEEF 11 Unmodified _LYYYRKVFEEF_ 0 0 0 REV__nc|ENSG00000071909|Q8WXR4-6|MYO3B REV__nc|ENSG00000071909|Q8WXR4-6|MYO3B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.8223876953125 3 519.597649 1555.77112 NaN NaN NaN NaN NaN NaN NaN 95.544 1 95.626 95.126 96.126 0.082001 0 0 0 1.0079 1 50526 50526 0.50596 0 1 19311 10485 12355 12384 22016 22016 0.015461554916555542 MAAMILLI 8 Unmodified _MAAMILLI_ 0 0 0 ENSG00000115816|ENST00000234170|CEBPZ ENSG00000115816|ENST00000234170|CEBPZ ENSG00000115816|ENST00000234170|CEBPZ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 438.26165771484375 2 438.258285 874.502017 NaN NaN NaN NaN NaN NaN NaN 19.558 1 20.217 19.717 20.717 0.6583 0 0 0 0.91812 1 8876 8876 11.114 0 1 19312 1991 12356 12385 22017 22017 0.05974646789798044 MACGCDCDCNH 11 Unmodified _MACGCDCDCNH_ 0 0 0 ENST00000451025.6_2_6:43608345-43608465:+|nuORF ENST00000451025.6_2_6:43608345-43608465:+|nuORF ENST00000451025.6_2_6:43608345-43608465:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 585.81298828125 2 586.158322 1170.30209 NaN NaN NaN NaN NaN NaN NaN 82.952 1 83.2 82.7 83.7 0.24722 0 0 0 1.0082 1 38183 38183 0 0 1 19313 8014 12357 12386 22018 22018 -0.2762488727407799 MADGNQAQL 9 Unmodified _MADGNQAQL_ 0 0 0 nc|ENSG00000011304|P26599-1|PTBP1;nc|ENSG00000011304|P26599-2|PTBP1;ENSG00000011304|ENST00000356948|PTBP1;ENST00000586944.5_1_19:807712-810823:+|nuORF nc|ENSG00000011304|P26599-1|PTBP1 nc|ENSG00000011304|P26599-1|PTBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.217529296875 2 474.216192 946.41783 3.0928 0.0014666 -0.046954 -2.2267E-05 3.0458 0.0014444 474.2160268562971 27.408 0.19937 27.408 27.249 27.448 0 25 14 2 0 0 0 0.027384 1 12314 12314 58.679 24.576 1 422470 19314 411 12358 12387 22019 22019 -0.05752212773404608 MADGNQAQL 9 Unmodified _MADGNQAQL_ 0 0 0 nc|ENSG00000011304|P26599-1|PTBP1;nc|ENSG00000011304|P26599-2|PTBP1;ENSG00000011304|ENST00000356948|PTBP1;ENST00000586944.5_1_19:807712-810823:+|nuORF nc|ENSG00000011304|P26599-1|PTBP1 nc|ENSG00000011304|P26599-1|PTBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.2171630859375 2 474.216192 946.41783 2.9169 0.0013832 0.35315 0.00016747 3.2701 0.0015507 474.21649578286207 26.589 0.23159 27.368 27.215 27.446 0.7787 25 17 2 0 0 0 0.057744 1 11932 11932 43.858 16.975 1 330900 19315 411 12358 12387 22020 22020 -0.05752212773404608 MADGNQAQL 9 Unmodified _MADGNQAQL_ 0 0 0 nc|ENSG00000011304|P26599-1|PTBP1;nc|ENSG00000011304|P26599-2|PTBP1;ENSG00000011304|ENST00000356948|PTBP1;ENST00000586944.5_1_19:807712-810823:+|nuORF nc|ENSG00000011304|P26599-1|PTBP1 nc|ENSG00000011304|P26599-1|PTBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.218017578125 2 474.216192 946.41783 2.9322 0.0013905 0.36776 0.0001744 3.3 0.0015649 474.2163497157434 27.185 0.26777 27.448 27.29 27.558 0.26245 30 18 2 0 0 0 0.027384 2 12343 12343;12390 58.679 24.576 1 531870 19316 411 12358 12387 22021;22022 22021 -0.05752212773404608 MADGNQAQL 9 Unmodified _MADGNQAQL_ 0 0 0 nc|ENSG00000011304|P26599-1|PTBP1;nc|ENSG00000011304|P26599-2|PTBP1;ENSG00000011304|ENST00000356948|PTBP1;ENST00000586944.5_1_19:807712-810823:+|nuORF nc|ENSG00000011304|P26599-1|PTBP1 nc|ENSG00000011304|P26599-1|PTBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.2177734375 2 474.216192 946.41783 2.924 0.0013866 -0.11585 -5.4938E-05 2.8082 0.0013317 474.21605562053344 26.826 0.23869 27.448 27.3 27.539 0.62178 27 16 2 0 0 0 0.043585 1 12282 12282 49.933 23.049 1 479050 19317 411 12358 12387 22023 22023 -0.05752212773404608 MADNSSDECEE 11 Unmodified _MADNSSDECEE_ 0 0 0 ENSG00000118096|ENST00000264021|IFT46;nc|ENSG00000118096|Q9NQC8-2|IFT46 ENSG00000118096|ENST00000264021|IFT46 ENSG00000118096|ENST00000264021|IFT46 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 615.2006225585938 2 615.200275 1228.386 NaN NaN NaN NaN NaN NaN NaN 86.847 1 86.878 86.378 87.378 0.030289 0 0 0 1.008 1 43806 43806 0.35063 0.043601 1 19318 2104 12359 12388 22024 22024 -0.21906038100155456 MADRGEARL 9 Unmodified _MADRGEARL_ 0 0 0 ENSG00000175643|ENST00000312499|RMI2 ENSG00000175643|ENST00000312499|RMI2 ENSG00000175643|ENST00000312499|RMI2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 340.175537109375 3 340.174797 1017.50256 NaN NaN NaN NaN NaN NaN NaN 13.496 1 13.804 13.304 14.304 0.30727 0 0 0 0.88916 1 6089 6089 6.6304 2.686 1 19319 5040 12360 12389 22025 22025 -0.005488422367875501 MADSDFLAL 9 Unmodified _MADSDFLAL_ 0 0 0 nc|ENSG00000116171|P22307-6|SCP2;nc|ENSG00000116171|P22307-2|SCP2;nc|ENSG00000116171|P22307-4|SCP2;nc|ENSG00000116171|P22307-7|SCP2;nc|ENSG00000116171|P22307-8|SCP2;ENSG00000116171|ENST00000371514|SCP2 nc|ENSG00000116171|P22307-6|SCP2 nc|ENSG00000116171|P22307-6|SCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7328186035156 2 491.731143 981.447733 3.2901 0.0016178 -1.278 -0.00062843 2.0121 0.00098941 491.7307123852918 81.061 0.21548 81.721 81.552 81.767 0.65998 12 9 2 0 0 0 0.20384 1 37314 37314 23.148 2.2772 1 666610 19320 2017 12361 12390 22026 22026 -0.04373273828082347 MADTFLEHM 9 Unmodified _MADTFLEHM_ 0 0 0 nc|ENSG00000067225|P14618-2|PKM;ENSG00000067225|ENST00000335181|PKM;ENST00000564276.1_1_15:72502555-72511438:-|nuORF nc|ENSG00000067225|P14618-2|PKM nc|ENSG00000067225|P14618-2|PKM MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.3085327148438 2 547.735902 1093.45725 3.5815 0.0019617 -0.69137 -0.00037869 2.8901 0.001583 547.7357596369618 60.744 0.16787 61 60.892 61.059 0.25578 12 9 2 0 0 0 0.0284 1 27829 27829 39.957 27.426 1 332260 19321 721 12362 12391 22027 22027 -0.08573828814201079 MAEEEEEEETW 11 Unmodified _MAEEEEEEETW_ 0 0 0 REV__nc|ENSG00000147166|Q9UKP3-2|ITGB1BP2 REV__nc|ENSG00000147166|Q9UKP3-2|ITGB1BP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 706.2642211914062 2 706.26393 1410.51331 NaN NaN NaN NaN NaN NaN NaN 43.771 1 44.04 43.54 44.54 0.2694 0 0 0 1.008 1 19992 19992 0.35063 0 1 + 19322 12495 12363 12392 22028 22028 -0.17552993954359408 MAERGAHVF 9 Unmodified _MAERGAHVF_ 0 0 0 ENSG00000064313|ENST00000378164|TAF2 ENSG00000064313|ENST00000378164|TAF2 ENSG00000064313|ENST00000378164|TAF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.2525634765625 2 509.250369 1016.48618 3.4634 0.0017637 0.87345 0.0004448 4.3369 0.0022085 509.25093925888046 20.421 0.27617 21.075 20.932 21.208 0.65346 37 23 2 0 0 0 0.81759 1 9286 9286 6.7232 2.3939 1 142570 19323 669 12364 12393 22029 22029 -0.02139923402887689 MAFHQEHEV 9 Unmodified _MAFHQEHEV_ 0 0 0 ENST00000475971.5_1_7:893033-912965:+|nuORF;ENST00000413171.6_1_7:892397-912965:+|nuORF;nc|ENSG00000164828|O94901-6|SUN1;nc|ENSG00000164828|O94901-5|SUN1;ENSG00000164828|ENST00000401592|SUN1;nc|ENSG00000164828|O94901-9|SUN1 ENST00000475971.5_1_7:893033-912965:+|nuORF ENST00000475971.5_1_7:893033-912965:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.5038757324219 3 376.502803 1126.48658 2.8827 0.0010853 -0.27625 -0.00010401 2.6064 0.00098133 376.5026740175679 19.94 0.19596 19.94 19.829 20.025 0 28 14 3 0 0 0 0.057744 1 8901 8901 33.445 19.04 1 949720 19324 4348 12365 12394 22030 22030 -0.0716054847371197 MAFHQEHEV 9 Unmodified _MAFHQEHEV_ 0 0 0 ENST00000475971.5_1_7:893033-912965:+|nuORF;ENST00000413171.6_1_7:892397-912965:+|nuORF;nc|ENSG00000164828|O94901-6|SUN1;nc|ENSG00000164828|O94901-5|SUN1;ENSG00000164828|ENST00000401592|SUN1;nc|ENSG00000164828|O94901-9|SUN1 ENST00000475971.5_1_7:893033-912965:+|nuORF ENST00000475971.5_1_7:893033-912965:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.2520141601562 2 564.250566 1126.48658 NaN NaN NaN NaN NaN NaN NaN 19.957 1 19.957 19.457 20.457 0 0 0 0 0.13628 1 8912 8912 34.932 19.085 1 19325 4348 12365 12394 22031 22031 -0.0716054847371197 MAFHQEHEV 9 Unmodified _MAFHQEHEV_ 0 0 0 ENST00000475971.5_1_7:893033-912965:+|nuORF;ENST00000413171.6_1_7:892397-912965:+|nuORF;nc|ENSG00000164828|O94901-6|SUN1;nc|ENSG00000164828|O94901-5|SUN1;ENSG00000164828|ENST00000401592|SUN1;nc|ENSG00000164828|O94901-9|SUN1 ENST00000475971.5_1_7:893033-912965:+|nuORF ENST00000475971.5_1_7:893033-912965:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.5039978027344 3 376.502803 1126.48658 2.5929 0.00097625 -0.10913 -4.1088E-05 2.4838 0.00093516 376.5027431670235 19.532 0.18314 19.825 19.712 19.895 0.29239 41 17 3 0 0 0 0.071101 1 8875 8875 36.506 19.94 1 599740 19326 4348 12365 12394 22032 22032 -0.0716054847371197 MAFHQEHEV 9 Unmodified _MAFHQEHEV_ 0 0 0 ENST00000475971.5_1_7:893033-912965:+|nuORF;ENST00000413171.6_1_7:892397-912965:+|nuORF;nc|ENSG00000164828|O94901-6|SUN1;nc|ENSG00000164828|O94901-5|SUN1;ENSG00000164828|ENST00000401592|SUN1;nc|ENSG00000164828|O94901-9|SUN1 ENST00000475971.5_1_7:893033-912965:+|nuORF ENST00000475971.5_1_7:893033-912965:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.2532348632812 2 564.250566 1126.48658 3.4041 0.0019208 0.18575 0.00010481 3.5899 0.0020256 564.2504070313337 19.517 0.090313 19.814 19.776 19.866 0.29713 12 9 2 0 0 0 0.26118 1 8876 8876 19.362 9.288 1 139060 19327 4348 12365 12394 22033 22033 -0.0716054847371197 MAFHQEHEV 9 Unmodified _MAFHQEHEV_ 0 0 0 ENST00000475971.5_1_7:893033-912965:+|nuORF;ENST00000413171.6_1_7:892397-912965:+|nuORF;nc|ENSG00000164828|O94901-6|SUN1;nc|ENSG00000164828|O94901-5|SUN1;ENSG00000164828|ENST00000401592|SUN1;nc|ENSG00000164828|O94901-9|SUN1 ENST00000475971.5_1_7:893033-912965:+|nuORF ENST00000475971.5_1_7:893033-912965:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.5039978027344 3 376.502803 1126.48658 2.8193 0.0010615 -0.47592 -0.00017919 2.3434 0.00088229 376.5026936335367 19.134 0.20336 19.792 19.685 19.888 0.65829 32 17 3 0 0 0 0.16976 1 8669 8669 23.79 13.639 1 414450 19328 4348 12365 12394 22034 22034 -0.0716054847371197 MAFHQEHEV 9 Unmodified _MAFHQEHEV_ 0 0 0 ENST00000475971.5_1_7:893033-912965:+|nuORF;ENST00000413171.6_1_7:892397-912965:+|nuORF;nc|ENSG00000164828|O94901-6|SUN1;nc|ENSG00000164828|O94901-5|SUN1;ENSG00000164828|ENST00000401592|SUN1;nc|ENSG00000164828|O94901-9|SUN1 ENST00000475971.5_1_7:893033-912965:+|nuORF ENST00000475971.5_1_7:893033-912965:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.2526245117188 2 564.250566 1126.48658 3.6939 0.0020843 -0.068363 -3.8574E-05 3.6255 0.0020457 564.2506220510501 19.142 0.14592 19.8 19.742 19.888 0.6583 16 10 2 0 0 0 0.082627 1 8686 8686 37.075 21.227 1 209160 19329 4348 12365 12394 22035 22035 -0.0716054847371197 MAFLFVLSL 9 Unmodified _MAFLFVLSL_ 0 0 0 REV__ENSG00000162630|ENST00000367434|B3GALT2 REV__ENSG00000162630|ENST00000367434|B3GALT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 347.5341796875 3 347.533152 1039.57763 2.2757 0.00079087 0.26585 9.2393E-05 2.5415 0.00088327 347.53334521567973 26.102 0.27496 26.865 26.735 27.01 0.76356 38 18 3 0 0 0 0.7295 1 11756 11756 8.7454 3.4485 1 352750 + 19330 12949 12366 12395 22036 22036 0.05941947241717571 MAGAGPKR 8 Unmodified _MAGAGPKR_ 0 0 0 nc|ENSG00000260727|Q8MH63|SLC7A5P1;nc|ENSG00000258186|Q9GIP4-1|SLC7A5P2;nc|ENSG00000258186|Q9GIP4|SLC7A5P2;ENST00000522841.6_1_16:21495824-21531728:-|nuORF;ENSG00000103257|ENST00000261622|SLC7A5 nc|ENSG00000260727|Q8MH63|SLC7A5P1;ENSG00000103257|ENST00000261622|SLC7A5 ENSG00000103257|ENST00000261622|SLC7A5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.2685241699219 2 394.215798 786.417042 2.6582 0.0010479 -1.7594 -0.00069358 0.89879 0.00035432 394.215254179752 40.491 0.1124 40.491 40.4 40.512 0 5 3 2 0 0 0 0.14267 1 18364 18364 2.5775 0 1 360100 19331 1387;9859 12367 12396 22037 22037 0.015290373681978053 MAGAGPKR 8 Unmodified _MAGAGPKR_ 0 0 0 nc|ENSG00000260727|Q8MH63|SLC7A5P1;nc|ENSG00000258186|Q9GIP4-1|SLC7A5P2;nc|ENSG00000258186|Q9GIP4|SLC7A5P2;ENST00000522841.6_1_16:21495824-21531728:-|nuORF;ENSG00000103257|ENST00000261622|SLC7A5 nc|ENSG00000260727|Q8MH63|SLC7A5P1;ENSG00000103257|ENST00000261622|SLC7A5 ENSG00000103257|ENST00000261622|SLC7A5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 394.215798 786.417042 2.5924 0.001022 -2.2518 -0.00088769 0.34058 0.00013426 394.2150115171114 39.486 0.13886 40.286 40.198 40.337 0.80014 -0.10207 -0.00026566 NaN 2.5775 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 142460 19332 1387;9859 12367 12396 0.015290373681978053 MAHADPTEL 9 Unmodified _MAHADPTEL_ 0 0 0 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2;ENSG00000130640|ENST00000252936|TUBGCP2;nc|ENSG00000130640|Q9BSJ2-4|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.7283935546875 2 492.726392 983.438231 3.352 0.0016516 0.013073 6.4414E-06 3.3651 0.001658 492.72633895692604 29.705 0.22722 29.705 29.603 29.83 0 29 18 2 0 0 0 0.056465 1 13408 13408 44.407 15.325 1 625690 19333 2604 12368 12397 22038 22038 -0.05415042113622803 MAHADPTEL 9 Unmodified _MAHADPTEL_ 0 0 0 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2;ENSG00000130640|ENST00000252936|TUBGCP2;nc|ENSG00000130640|Q9BSJ2-4|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.7283020019531 2 492.726392 983.438231 3.2543 0.0016035 -0.18676 -9.2022E-05 3.0675 0.0015114 492.7264825515173 28.819 0.29831 29.608 29.411 29.709 0.78921 44 25 2 0 0 0 0.056465 2 12993 12947;12993 44.407 10.305 1 314730 19334 2604 12368 12397 22039;22040 22040 -0.05415042113622803 MAHADPTEL 9 Unmodified _MAHADPTEL_ 0 0 0 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2;ENSG00000130640|ENST00000252936|TUBGCP2;nc|ENSG00000130640|Q9BSJ2-4|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.72894287109375 2 492.726392 983.438231 3.3027 0.0016273 0.12893 6.3528E-05 3.4316 0.0016908 492.7264496050408 29.41 0.35887 29.668 29.448 29.807 0.25804 43 22 2 0 0 0 0.056465 3 13332 13332;13384;13433 44.407 15.325 1 526330 19335 2604 12368 12397 22041;22042;22043 22041 -0.05415042113622803 MAHADPTEL 9 Unmodified _MAHADPTEL_ 0 0 0 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2;ENSG00000130640|ENST00000252936|TUBGCP2;nc|ENSG00000130640|Q9BSJ2-4|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.7273864746094 2 492.726392 983.438231 3.1897 0.0015716 0.4281 0.00021094 3.6178 0.0017826 492.72653941323597 29.101 0.27557 29.719 29.579 29.854 0.61789 35 19 2 0 0 0 0.020718 2 13360 13314;13360 67.344 18.998 1 741260 19336 2604 12368 12397 22044;22045 22045 -0.05415042113622803 MAHQLESIL 9 Unmodified _MAHQLESIL_ 0 0 0 ENST00000264110.6_1_2:176001189-176015807:-|nuORF ENST00000264110.6_1_2:176001189-176015807:-|nuORF ENST00000264110.6_1_2:176001189-176015807:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.2757568359375 2 521.273509 1040.53247 NaN NaN NaN NaN NaN NaN NaN 53.792 1 54.595 54.095 55.095 0.80351 0 0 0 0.12987 1 24547 24547 36.127 5.9022 1 19337 6601 12369 12398 22046 22046 0.013820967085393931 MAKKHLEI 8 Unmodified _MAKKHLEI_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;ENST00000518337.1_1_8:74128289-74128592:-|nuORF;nc|ENSG00000183199|Q58FF7|HSP90AB3P;ENST00000505987.1_1_4:88814417-88815164:+|nuORF ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000183199|Q58FF7|HSP90AB3P ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2821044921875 2 485.281137 968.547722 2.4292 0.0011789 0.23982 0.00011638 2.6691 0.0012952 485.28116642545973 12.767 0.15583 13.075 12.969 13.125 0.30727 9 4 3 0 0 0 0.28626 1 5781 5781 29.082 13.234 1 521920 19338 1127;9778 12370 12399 22047 22047 0.0621900829637525 MAKKHLEI 8 Unmodified _MAKKHLEI_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;ENST00000518337.1_1_8:74128289-74128592:-|nuORF;nc|ENSG00000183199|Q58FF7|HSP90AB3P;ENST00000505987.1_1_4:88814417-88815164:+|nuORF ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000183199|Q58FF7|HSP90AB3P ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2828369140625 2 485.281137 968.547722 3.4884 0.0016929 -0.070143 -3.4039E-05 3.4183 0.0016588 485.2813048233997 12.644 0.16859 13.287 13.176 13.345 0.64272 7 4 3 0 0 0 0.35763 1 5700 5700 30.637 15.798 1 1245500 19339 1127;9778 12370 12399 22048 22048 0.0621900829637525 MAKMHIFQP 9 Unmodified _MAKMHIFQP_ 0 0 0 ENSG00000174844|ENST00000495027|DNAH12;nc|ENSG00000174844|Q6ZR08|DNAH12 ENSG00000174844|ENST00000495027|DNAH12 ENSG00000174844|ENST00000495027|DNAH12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 551.3505859375 2 551.780447 1101.54634 NaN NaN NaN NaN NaN NaN NaN 14.379 1 14.686 14.186 15.186 0.3069 0 0 0 0.90699 1 6507 6507 1.8442 0.19162 1 19340 4999 12371 12400 22049 22049 -0.0003694906401960907 MANVELSSL 9 Unmodified _MANVELSSL_ 0 0 0 nc|ENSG00000143401|Q9BTT0-3|ANP32E;nc|ENSG00000143401|Q9BTT0-2|ANP32E;ENSG00000143401|ENST00000583931|ANP32E nc|ENSG00000143401|Q9BTT0-3|ANP32E nc|ENSG00000143401|Q9BTT0-3|ANP32E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.2455749511719 2 482.244418 962.474282 2.9331 0.0014145 1.0372 0.00050019 3.9703 0.0019147 482.244435383247 63.098 0.21351 63.347 63.222 63.435 0.24965 18 12 2 0 0 0 0.36069 1 28915 28915 14.838 4.0143 1 543100 19341 3365 12372 12401 22050 22050 -0.008455849367237533 MANVELSSL 9 Unmodified _MANVELSSL_ 0 0 0 nc|ENSG00000143401|Q9BTT0-3|ANP32E;nc|ENSG00000143401|Q9BTT0-2|ANP32E;ENSG00000143401|ENST00000583931|ANP32E nc|ENSG00000143401|Q9BTT0-3|ANP32E nc|ENSG00000143401|Q9BTT0-3|ANP32E MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 482.244418 962.474282 2.9497 0.0014225 0.30148 0.00014539 3.2511 0.0015678 482.244257659531 62.542 0.13842 63.202 63.131 63.27 0.66008 -0.072699 -0.00025866 NaN 14.838 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 391700 19342 3365 12372 12401 -0.008455849367237533 MAPARLFAL 9 Unmodified _MAPARLFAL_ 0 0 0 nc|ENSG00000124145|P31431-2|SDC4;ENSG00000124145|ENST00000372733|SDC4 nc|ENSG00000124145|P31431-2|SDC4 nc|ENSG00000124145|P31431-2|SDC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.28424072265625 2 495.28368 988.552807 2.5117 0.001244 1.0434 0.00051679 3.5551 0.0017608 495.2839632648919 68.408 0.26825 69.11 68.967 69.236 0.70217 42 25 2 0 0 0 0.59776 1 32635 32635 10.824 2.2306 1 1678400 19343 2340 12373 12402 22051 22051 0.05807312159004141 MAPARLFAL 9 Unmodified _MAPARLFAL_ 0 0 0 nc|ENSG00000124145|P31431-2|SDC4;ENSG00000124145|ENST00000372733|SDC4 nc|ENSG00000124145|P31431-2|SDC4 nc|ENSG00000124145|P31431-2|SDC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.2859191894531 2 495.28368 988.552807 3.4272 0.0016975 -0.42751 -0.00021174 2.9997 0.0014857 495.2835336171631 69.157 0.40444 69.411 69.237 69.641 0.25443 72 25 4 0 0 0 0.028312 3 31694 31648;31694;31738 57.471 28.985 1 5122400 19344 2340 12373 12402 22052;22053;22054 22053 0.05807312159004141 MAPARLFAL 9 Unmodified _MAPARLFAL_ 0 0 0 nc|ENSG00000124145|P31431-2|SDC4;ENSG00000124145|ENST00000372733|SDC4 nc|ENSG00000124145|P31431-2|SDC4 nc|ENSG00000124145|P31431-2|SDC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.2850036621094 2 495.28368 988.552807 3.0286 0.0015 -0.075754 -3.7519E-05 2.9529 0.0014625 495.28370709055423 68.592 0.40874 69.251 69.043 69.452 0.65924 90 28 4 0 0 0 0.020718 3 31454 31405;31454;31503 67.344 22.937 1 5536500 19345 2340 12373 12402 22055;22056;22057 22056 0.05807312159004141 MAPARLFAL 9 Oxidation (M) _M(Oxidation (M))APARLFAL_ M(1)APARLFAL M(46)APARLFAL 0 0 1 nc|ENSG00000124145|P31431-2|SDC4;ENSG00000124145|ENST00000372733|SDC4 nc|ENSG00000124145|P31431-2|SDC4 nc|ENSG00000124145|P31431-2|SDC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.2834167480469 2 503.281137 1004.54772 3.1405 0.0015806 0.84578 0.00042566 3.9863 0.0020062 503.2816069598522 61.608 0.13795 62.268 62.147 62.285 0.66008 9 5 2 0 0 0 0.052704 1 28217 28217 46.021 13.715 1 872670 19346 2340 12373 12403 22058 22058 23 0.0456300829639531 MASKRVQEL 9 Unmodified _MASKRVQEL_ 0 0 0 ENST00000433430.5_1_2:233196570-233200992:+|nuORF;ENST00000429283.2_1_2:233194466-233199371:+|nuORF;ENST00000445090.5_1_2:233194598-233200857:+|nuORF;ENSG00000144535|ENST00000325385|DIS3L2 ENST00000433430.5_1_2:233196570-233200992:+|nuORF ENST00000433430.5_1_2:233196570-233200992:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.2933349609375 2 531.292233 1060.56991 3.0912 0.0016423 -0.86016 -0.00045699 2.231 0.0011853 531.2916224013901 49.44 0.51234 49.44 49.134 49.646 0 37 20 3 0 0 0 0.093314 1 22630 22630 34.402 7.5181 1 999090 19347 3431 12374 12404 22059 22059 0.042051879741620724 MAVIDGNVM 9 Unmodified _MAVIDGNVM_ 0 0 0 ENSG00000132361|ENST00000651024|CLUH;nc|ENSG00000132361|O75153|CLUH ENSG00000132361|ENST00000651024|CLUH ENSG00000132361|ENST00000651024|CLUH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.2281494140625 2 475.227713 948.440874 3.0405 0.0014449 -0.37298 -0.00017725 2.6676 0.0012677 475.22752711974005 60.741 0.26281 60.997 60.892 61.154 0.25578 20 13 2 0 0 0 0.056465 1 27813 27813 44.407 26.272 1 675430 19348 2694 12375 12405 22060 22060 -0.03540909980279139 MAVSEGALSEL 11 Unmodified _MAVSEGALSEL_ 0 0 0 ENST00000488141.5_1_22:37892668-37892779:-|nuORF ENST00000488141.5_1_22:37892668-37892779:-|nuORF ENST00000488141.5_1_22:37892668-37892779:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.7725219726562 2 553.773539 1105.53253 2.6362 0.0014599 -1.307 -0.00072376 1.3293 0.00073612 553.7721784249761 66.829 0.15254 67.533 67.457 67.61 0.7047 27 20 2 0 0 0 0.091757 1 31715 31715 43.858 16.229 1 1313600 19349 8361 12376 12406 22061 22061 -0.016019480821341858 MAVSEGALSEL 11 Unmodified _MAVSEGALSEL_ 0 0 0 ENST00000488141.5_1_22:37892668-37892779:-|nuORF ENST00000488141.5_1_22:37892668-37892779:-|nuORF ENST00000488141.5_1_22:37892668-37892779:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.7752075195312 2 553.773539 1105.53253 3.7831 0.002095 -0.41367 -0.00022908 3.3694 0.0018659 553.7734518674272 67.465 0.33037 67.715 67.58 67.911 0.2501 27 17 2 0 0 0 0.010663 1 30918 30918 65.235 28.729 1 957650 19350 8361 12376 12406 22062 22062 -0.016019480821341858 MAVSEGALSEL 11 Unmodified _MAVSEGALSEL_ 0 0 0 ENST00000488141.5_1_22:37892668-37892779:-|nuORF ENST00000488141.5_1_22:37892668-37892779:-|nuORF ENST00000488141.5_1_22:37892668-37892779:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.7769775390625 2 553.773539 1105.53253 3.5292 0.0019544 0.25648 0.00014203 3.7857 0.0020964 553.7736928128603 66.964 0.30584 67.622 67.45 67.756 0.65763 28 16 2 0 0 0 0.05848 2 30666 30666;30714 49.933 17.147 1 922740 19351 8361 12376 12406 22063;22064 22063 -0.016019480821341858 MAVSEGALSEL 11 Unmodified _MAVSEGALSEL_ 0 0 0 ENST00000488141.5_1_22:37892668-37892779:-|nuORF ENST00000488141.5_1_22:37892668-37892779:-|nuORF ENST00000488141.5_1_22:37892668-37892779:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 553.773539 1105.53253 2.9552 0.0016365 0.62445 0.00034581 3.5796 0.0019823 553.7736682133198 67.82 0.17395 67.82 67.682 67.856 0 0.14719 0.00083374 NaN 65.235 25 19 2 NaN NaN NaN NaN 0 NaN NaN 0 1810100 19352 8361 12376 12406 -0.016019480821341858 MCACACMCTC 10 Unmodified _MCACACMCTC_ 0 0 0 ENST00000544665.7_1_16:31343047-31343377:+|nuORF ENST00000544665.7_1_16:31343047-31343377:+|nuORF ENST00000544665.7_1_16:31343047-31343377:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.7592163085938 2 520.136958 1038.25936 NaN NaN NaN NaN NaN NaN NaN 73.24 1 73.939 73.439 74.439 0.69881 0 0 0 1.0015 1 35298 35298 0.45834 0.45834 1 19353 8836 12377 12407 22065 22065 -0.2582369692752309 MCDECCFEE 9 Unmodified _MCDECCFEE_ 0 0 0 REV__ENST00000493328.5_1_1:35455862-35480681:-|nuORF REV__ENST00000493328.5_1_1:35455862-35480681:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.4332885742188 2 554.658146 1107.30174 NaN NaN NaN NaN NaN NaN NaN 96.919 1 96.996 96.496 97.496 0.076538 0 0 0 0.91452 1 51648 51648 0 0 1 + 19354 13036 12378 12408 22066 22066 -0.24761983722305558 MCEFCLKYMKS 11 Unmodified _MCEFCLKYMKS_ 0 0 0 nc|ENSG00000136504|O95251-3|KAT7;nc|ENSG00000136504|O95251-5|KAT7;nc|ENSG00000136504|O95251-2|KAT7;nc|ENSG00000136504|O95251-4|KAT7;ENSG00000136504|ENST00000259021|KAT7;ENST00000444292.2_1_X:95228575-95229244:-|nuORF;ENST00000512616.5_1_17:47892935-47904861:+|nuORF nc|ENSG00000136504|O95251-3|KAT7 nc|ENSG00000136504|O95251-3|KAT7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 691.8836059570312 2 691.802405 1381.59026 NaN NaN NaN NaN NaN NaN NaN 92.826 1 92.826 92.326 93.326 0 0 0 0 1.0061 1 49418 49418 2.7352 1.0826 1 19355 2953 12379 12409 22067 22067 -0.08527468744227917 MCLTLLGF 8 Unmodified _MCLTLLGF_ 0 0 0 ENSG00000198829|ENST00000362032|SUCNR1 ENSG00000198829|ENST00000362032|SUCNR1 ENSG00000198829|ENST00000362032|SUCNR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 449.23565673828125 2 449.232267 896.449982 NaN NaN NaN NaN NaN NaN NaN 104.75 1 105.35 104.85 105.85 0.59885 0 0 0 0.99035 1 48387 48387 5.7604 0 1 19356 5943 12380 12410 22068 22068 -0.0023851662396054962 MCPEWIGS 8 Unmodified _MCPEWIGS_ 0 0 0 ENST00000371733.7_1_1:51934175-51934211:-|nuORF ENST00000371733.7_1_1:51934175-51934211:-|nuORF ENST00000371733.7_1_1:51934175-51934211:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 461.7144775390625 2 461.693506 921.37246 NaN NaN NaN NaN NaN NaN NaN 68.643 1 68.643 68.143 69.143 0 0 0 0 0.99035 1 33065 33065 2.5775 0 1 19357 7324 12381 12411 22069 22069 -0.0913715456014188 MCSSWSCDEC 10 Unmodified _MCSSWSCDEC_ 0 0 0 REV__ENST00000221114.7_1_8:30013886-30021668:+|nuORF REV__ENST00000221114.7_1_8:30013886-30021668:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.6696166992188 2 575.669045 1149.32354 NaN NaN NaN NaN NaN NaN NaN 18.733 1 18.948 18.448 19.448 0.21445 0 0 0 1.002 1 8346 8346 0 0 1 + 19358 14822 12382 12412 22070 22070 -0.24515178973706497 MDCNCSCDNRS 11 Unmodified _MDCNCSCDNRS_ 0 0 0 REV__ENSG00000242120|ENST00000567252|MDFIC2 REV__ENSG00000242120|ENST00000567252|MDFIC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 624.19677734375 2 624.199032 1246.38351 NaN NaN NaN NaN NaN NaN NaN 35.492 1 35.492 34.992 35.992 0 0 0 0 1.008 1 16104 16104 0.26902 0 1 + 19359 14617 12383 12413 22071 22071 -0.2298248831048113 MDCWAFHYN 9 Unmodified _MDCWAFHYN_ 0 0 0 ENST00000442552.7_1_1:17085068-17087541:-|nuORF;nc|ENSG00000186715|Q2TV78-2|MST1L;nc|ENSG00000186715|Q2TV78|MST1L ENST00000442552.7_1_1:17085068-17087541:-|nuORF ENST00000442552.7_1_1:17085068-17087541:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.728759765625 2 593.725869 1185.43719 3.4219 0.0020317 1.7421 0.0010344 5.1641 0.003066 593.726763898192 52.796 0.22064 52.796 52.675 52.895 0 23 14 2 0 0 0 0.83994 1 24202 24202 6.7232 0.51738 1 287710 19360 7945 12384 12414 22072 22072 -0.1481157975415499 MDCWAFHYN 9 Unmodified _MDCWAFHYN_ 0 0 0 ENST00000442552.7_1_1:17085068-17087541:-|nuORF;nc|ENSG00000186715|Q2TV78-2|MST1L;nc|ENSG00000186715|Q2TV78|MST1L ENST00000442552.7_1_1:17085068-17087541:-|nuORF ENST00000442552.7_1_1:17085068-17087541:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 593.725869 1185.43719 2.9793 0.0017689 1.6497 0.00097946 4.629 0.0027484 593.7266503549474 51.749 0.19066 52.56 52.463 52.653 0.81065 -0.16236 8.3478E-05 NaN 6.7232 15 11 2 NaN NaN NaN NaN 0 NaN NaN 0 330360 19361 7945 12384 12414 -0.1481157975415499 MDCWAFHYN 9 Unmodified _MDCWAFHYN_ 0 0 0 ENST00000442552.7_1_1:17085068-17087541:-|nuORF;nc|ENSG00000186715|Q2TV78-2|MST1L;nc|ENSG00000186715|Q2TV78|MST1L ENST00000442552.7_1_1:17085068-17087541:-|nuORF ENST00000442552.7_1_1:17085068-17087541:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 593.725869 1185.43719 3.7013 0.0021975 1.3853 0.00082248 5.0865 0.00302 593.7269945755838 52.149 0.24008 52.811 52.609 52.849 0.66198 0.088754 -0.00023048 NaN 6.7232 13 10 2 NaN NaN NaN NaN 0 NaN NaN 0 213160 19362 7945 12384 12414 -0.1481157975415499 MDDMDDEDDDD 11 Unmodified _MDDMDDEDDDD_ 0 0 0 ENST00000509659.5_1_4:88898870-88904045:+|nuORF;nc|ENSG00000118785|P10451-5|SPP1;ENSG00000118785|ENST00000395080|SPP1;nc|ENSG00000118785|P10451-3|SPP1 ENST00000509659.5_1_4:88898870-88904045:+|nuORF ENST00000509659.5_1_4:88898870-88904045:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 665.6842651367188 2 665.682112 1329.34967 NaN NaN NaN NaN NaN NaN NaN 71.686 1 72.389 71.889 72.889 0.70386 0 0 0 1.0082 1 34448 34448 0 0 1 19363 8545 12385 12415 22073 22073 -0.3018295978756669 MDEDSDWSNGF 11 Unmodified _MDEDSDWSNGF_ 0 0 0 REV__ENSG00000091536|ENST00000647165|MYO15A REV__ENSG00000091536|ENST00000647165|MYO15A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 652.1115112304688 2 651.7326 1301.45065 3.7315 0.0024319 -0.024582 -1.6021E-05 3.7069 0.0024159 651.7324982687875 57.779 0.35172 58.043 57.942 58.294 0.26444 33 20 2 0 0 0 0.13295 1 26544 26544 4.5289 0 1 713400 + 19364 10734 12386 12416 22074 22074 -0.1880209523189933 MDEDSDWSNGF 11 Unmodified _MDEDSDWSNGF_ 0 0 0 REV__ENSG00000091536|ENST00000647165|MYO15A REV__ENSG00000091536|ENST00000647165|MYO15A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 651.7326 1301.45065 3.4086 0.0022215 -1.4171 -0.00092355 1.9915 0.0012979 651.7316148934541 57.304 0.12059 58.072 57.974 58.094 0.76861 0.014657 -0.0014431 NaN 4.5289 21 13 2 NaN NaN NaN NaN 0 NaN NaN 0 906090 + 19365 10734 12386 12416 -0.1880209523189933 MDHAFLLL 8 Unmodified _MDHAFLLL_ 0 0 0 ENSG00000163810|ENST00000296125|TGM4 ENSG00000163810|ENST00000296125|TGM4 ENSG00000163810|ENST00000296125|TGM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.255615234375 2 480.254588 958.494624 NaN NaN NaN NaN NaN NaN NaN 38.426 1 38.426 37.926 38.926 0 0 0 0 0.79116 1 17440 17440 19.439 2.3524 1 19366 4253 12387 12417 22075 22075 0.013716305137450036 MDHAFLLL 8 Unmodified _MDHAFLLL_ 0 0 0 ENSG00000163810|ENST00000296125|TGM4 ENSG00000163810|ENST00000296125|TGM4 ENSG00000163810|ENST00000296125|TGM4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.2564392089844 2 480.254588 958.494624 2.9909 0.0014364 -0.055525 -2.6666E-05 2.9354 0.0014097 480.2546599294087 38.088 0.40955 38.349 38.123 38.532 0.26083 39 12 4 0 0 0 0.52517 1 17409 17409 19.439 2.3524 1 5114100 19367 4253 12387 12417 22076 22076 0.013716305137450036 MDHAFLLL 8 Unmodified _MDHAFLLL_ 0 0 0 ENSG00000163810|ENST00000296125|TGM4 ENSG00000163810|ENST00000296125|TGM4 ENSG00000163810|ENST00000296125|TGM4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 480.254588 958.494624 3.1407 0.0015083 -0.18107 -8.6961E-05 2.9596 0.0014214 480.25458387454205 38.264 0.38038 38.264 38.044 38.424 0 0.071321 1.117E-05 NaN 19.439 36 14 3 NaN NaN NaN NaN 0 NaN NaN 0 5091200 19368 4253 12387 12417 0.013716305137450036 MDHAFLLL 8 Unmodified _MDHAFLLL_ 0 0 0 ENSG00000163810|ENST00000296125|TGM4 ENSG00000163810|ENST00000296125|TGM4 ENSG00000163810|ENST00000296125|TGM4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 480.254588 958.494624 3.0618 0.0014704 -0.36168 -0.0001737 2.7001 0.0012967 480.2544910189301 37.287 0.42165 38.083 37.852 38.273 0.79552 -0.1095 -0.0001623 NaN 19.439 62 20 4 NaN NaN NaN NaN 0 NaN NaN 0 3959400 19369 4253 12387 12417 0.013716305137450036 MDHAFLLL 8 Unmodified _MDHAFLLL_ 0 0 0 ENSG00000163810|ENST00000296125|TGM4 ENSG00000163810|ENST00000296125|TGM4 ENSG00000163810|ENST00000296125|TGM4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 480.254588 958.494624 3.0696 0.0014742 -0.16857 -8.0957E-05 2.9011 0.0013932 480.25462959787035 37.443 0.43839 38.073 37.862 38.3 0.62999 -0.11879 2.3179E-05 NaN 19.439 43 14 5 NaN NaN NaN NaN 0 NaN NaN 0 4583400 19370 4253 12387 12417 0.013716305137450036 MDLEKERI 8 Unmodified _MDLEKERI_ 0 0 0 REV__ENSG00000154240|ENST00000535342|CEP112 REV__ENSG00000154240|ENST00000535342|CEP112 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.1834411621094 3 345.18307 1032.52738 2.4577 0.00084836 -0.77305 -0.00026685 1.6846 0.00058151 345.1826958563482 15.476 0.64418 15.476 15.208 15.853 0 135 76 2 0 0 0 0.73686 2 6781 6781;6884 1.8442 0 1 121530 + 19371 12701 12388 12418 22077;22078 22077 0.01241792845917189 MDLISRTR 8 Unmodified _MDLISRTR_ 0 0 0 nc|ENSG00000188687|Q9BY07-6|SLC4A5;nc|ENSG00000188687|Q9BY07-4|SLC4A5;nc|ENSG00000188687|Q9BY07-8|SLC4A5;ENST00000451608.2_1_2:74452054-74542150:-|nuORF;ENSG00000188687|ENST00000394019|SLC4A5;nc|ENSG00000188687|Q9BY07|SLC4A5;nc|ENSG00000188687|Q9BY07-2|SLC4A5 nc|ENSG00000188687|Q9BY07-6|SLC4A5 nc|ENSG00000188687|Q9BY07-6|SLC4A5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.183837890625 3 331.183293 990.528049 2.3575 0.00078075 -0.58432 -0.00019352 1.7731 0.00058723 331.18337342044447 26.973 0.21086 27.752 27.658 27.869 0.7787 31 15 4 0 0 0 0.67495 1 12157 12157 5.7319 0 1 917370 19372 5677 12389 12419 22079 22079 0.032406322856331826 MDLISRTR 8 Unmodified _MDLISRTR_ 0 0 0 nc|ENSG00000188687|Q9BY07-6|SLC4A5;nc|ENSG00000188687|Q9BY07-4|SLC4A5;nc|ENSG00000188687|Q9BY07-8|SLC4A5;ENST00000451608.2_1_2:74452054-74542150:-|nuORF;ENSG00000188687|ENST00000394019|SLC4A5;nc|ENSG00000188687|Q9BY07|SLC4A5;nc|ENSG00000188687|Q9BY07-2|SLC4A5 nc|ENSG00000188687|Q9BY07-6|SLC4A5 nc|ENSG00000188687|Q9BY07-6|SLC4A5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.1841735839844 3 331.183293 990.528049 2.2774 0.00075422 -0.61601 -0.00020401 1.6613 0.00055021 331.1833215821405 27.879 0.32079 28.142 27.97 28.291 0.26245 56 20 4 0 0 0 0.51067 1 12642 12642 16.149 1.7437 1 1510400 19373 5677 12389 12419 22080 22080 0.032406322856331826 MDLISRTR 8 Unmodified _MDLISRTR_ 0 0 0 nc|ENSG00000188687|Q9BY07-6|SLC4A5;nc|ENSG00000188687|Q9BY07-4|SLC4A5;nc|ENSG00000188687|Q9BY07-8|SLC4A5;ENST00000451608.2_1_2:74452054-74542150:-|nuORF;ENSG00000188687|ENST00000394019|SLC4A5;nc|ENSG00000188687|Q9BY07|SLC4A5;nc|ENSG00000188687|Q9BY07-2|SLC4A5 nc|ENSG00000188687|Q9BY07-6|SLC4A5 nc|ENSG00000188687|Q9BY07-6|SLC4A5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.5181579589844 3 331.183293 990.528049 2.1754 0.00072046 -0.43409 -0.00014376 1.7413 0.0005767 331.1834985106161 27.488 0.32855 28.11 27.927 28.255 0.62178 56 22 4 0 0 0 0.49219 1 12552 12552 17.113 5.6182 1 958890 19374 5677 12389 12419 22081 22081 0.032406322856331826 MDLRLPQE 8 Unmodified _MDLRLPQE_ 0 0 0 ENST00000395748.7_1_4:75312256-75312388:+|nuORF ENST00000395748.7_1_4:75312256-75312388:+|nuORF ENST00000395748.7_1_4:75312256-75312388:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.2578125 2 501.257859 1000.50117 2.4919 0.0012491 -1.3085 -0.00065589 1.1834 0.00059319 501.25694633715847 76.833 0.45013 77.457 77.299 77.749 0.62397 67 32 3 0 0 0 0.74071 1 37346 37346 2.5775 0 1 1305500 19375 7559 12390 12420 22082 22082 0.0009352367444535048 MDLSDWLVTP 10 Unmodified _MDLSDWLVTP_ 0 0 0 ENSG00000266412|ENST00000581486|NCOA4;nc|ENSG00000266412|Q13772-3|NCOA4;nc|ENSG00000266412|Q13772-4|NCOA4 ENSG00000266412|ENST00000581486|NCOA4 ENSG00000266412|ENST00000581486|NCOA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.7857666015625 2 588.783907 1175.55326 3.7671 0.002218 -0.52752 -0.0003106 3.2396 0.0019074 588.7837179986951 43.885 0.31546 44.533 44.434 44.75 0.64872 66 23 6 0 0 0 0.66557 1 20130 20130 14.838 0.93222 1 14789000 19376 6324 12391 12421 22083 22083 -0.027493577024642946 MDMRVPAQR 9 Unmodified _MDMRVPAQR_ 0 0 0 nc|ENSG00000242580|A0A0B4J1Z2|IGKV1D-43 nc|ENSG00000242580|A0A0B4J1Z2|IGKV1D-43 nc|ENSG00000242580|A0A0B4J1Z2|IGKV1D-43 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.5563354492188 2 552.27606 1102.53757 3.3787 0.001866 -2.8327 -0.0015644 0.54596 0.00030152 552.7747321287073 59.885 0.042831 59.885 59.862 59.905 0 6 5 2 0 0 0 0.10218 1 27696 27696 10.824 1.4765 1 8680400 19377 9847 12392 12422 22084 22084 -0.009599227005082867 MDPFNHRIF 9 Unmodified _MDPFNHRIF_ 0 0 0 ENST00000395526.8_1_10:51946049-51946148:-|nuORF ENST00000395526.8_1_10:51946049-51946148:-|nuORF ENST00000395526.8_1_10:51946049-51946148:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.78662109375 2 588.784576 1175.5546 3.2645 0.0019221 -1.0632 -0.00062599 2.2014 0.0012961 588.7841972085138 43.587 0.49576 44.401 44.156 44.652 0.81444 105 25 6 0 0 0 0.26277 1 19932 19932 19.257 5.3509 1 10713000 19378 7555 12393 12423 22085 22085 -0.02615678823053713 MDPIWQIHH 9 Unmodified _MDPIWQIHH_ 0 0 0 ENST00000244221.8_1_2:71429679-71429715:-|nuORF ENST00000244221.8_1_2:71429679-71429715:-|nuORF ENST00000244221.8_1_2:71429679-71429715:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.7864379882812 2 588.784576 1175.5546 3.2645 0.0019221 -1.0632 -0.00062599 2.2014 0.0012961 588.7841972085138 43.587 0.49576 44.401 44.156 44.652 0.81444 105 25 6 0 0 0 0.10837 3 19882 19774;19828;19882 30.637 5.2372 1 10713000 19379 6479 12394 12424 22086;22087;22088 22088 -0.026156788230309758 MDPKDVREWQH 11 Unmodified _MDPKDVREWQH_ 0 0 0 nc|ENSG00000126602|Q12931-2|TRAP1;ENSG00000126602|ENST00000246957|TRAP1;ENST00000573872.5_1_16:3721765-3727644:-|nuORF nc|ENSG00000126602|Q12931-2|TRAP1 nc|ENSG00000126602|Q12931-2|TRAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 720.8431396484375 2 720.838068 1439.66158 3.796 0.0027363 1.8953 0.0013662 5.6913 0.0041025 720.8397725825021 52.306 0.32899 52.569 52.426 52.755 0.26228 40 18 3 0 0 0 0.64715 3 23926 23881;23926;23983 13.615 1.8048 1 1713000 19380 2459 12395 12425 22089;22090;22091 22090 -0.04066173399314721 MDPQSRSLKN 10 Unmodified _MDPQSRSLKN_ 0 0 0 nc|ENSG00000185264|O43247-2|CIMIP4;ENSG00000185264|ENST00000381821|TEX33 nc|ENSG00000185264|O43247-2|CIMIP4 nc|ENSG00000185264|O43247-2|CIMIP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.2938842773438 2 588.295504 1174.57646 NaN NaN NaN NaN NaN NaN NaN 40.049 1 40.691 40.191 41.191 0.64136 0 0 0 0.98317 1 18299 18299 8.1555 0 1 19381 5501 12396 12426 22092 22092 -0.0038491886512019846 MDPVSLLW 8 Oxidation (M) _M(Oxidation (M))DPVSLLW_ M(1)DPVSLLW M(74)DPVSLLW 0 0 1 ENSG00000065060|ENST00000192788|BLTP3A ENSG00000065060|ENST00000192788|BLTP3A ENSG00000065060|ENST00000192788|BLTP3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 488.7454528808594 2 488.744053 975.473554 2.9362 0.001435 0.17406 8.5073E-05 3.1102 0.0015201 488.7442081490881 34.99 0.57659 34.99 34.599 35.175 0 58 40 2 0 0 0 0.03366 2 15835 15835;15944 74.396 11.481 1 3127300 19382 682 12397 12427 22093;22094 22093 3 -0.015163795857802143 MDPVSLLW 8 Oxidation (M) _M(Oxidation (M))DPVSLLW_ M(1)DPVSLLW M(74)DPVSLLW 0 0 1 ENSG00000065060|ENST00000192788|BLTP3A ENSG00000065060|ENST00000192788|BLTP3A ENSG00000065060|ENST00000192788|BLTP3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.7456359863281 2 488.744053 975.473554 3.1073 0.0015187 0.043635 2.1327E-05 3.1509 0.00154 488.744225950699 34.839 0.60968 35.093 34.729 35.338 0.25476 71 38 2 0 0 0 0.03366 1 15867 15867 74.396 26.05 1 4386100 19383 682 12397 12427 22095 22095 3 -0.015163795857802143 MDPVSLLW 8 Oxidation (M) _M(Oxidation (M))DPVSLLW_ M(1)DPVSLLW M(64)DPVSLLW 0 0 1 ENSG00000065060|ENST00000192788|BLTP3A ENSG00000065060|ENST00000192788|BLTP3A ENSG00000065060|ENST00000192788|BLTP3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.7453308105469 2 488.744053 975.473554 3.1502 0.0015396 -1.3238 -0.00064699 1.8264 0.00089263 488.74383610062677 34.383 0.51665 35.006 34.755 35.271 0.62294 60 19 4 0 0 0 0.056325 1 15739 15739 63.563 6.0915 1 2447400 19384 682 12397 12427 22096 22096 3 -0.015163795857802143 MDPVSLLW 8 Unmodified _MDPVSLLW_ 0 0 0 ENSG00000065060|ENST00000192788|BLTP3A ENSG00000065060|ENST00000192788|BLTP3A ENSG00000065060|ENST00000192788|BLTP3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.7481384277344 2 480.746596 959.478639 3.0548 0.0014686 -0.80687 -0.0003879 2.2479 0.0010807 480.7463779687859 41.846 0.47187 41.846 41.645 42.117 0 96 40 3 0 0 0 0.16336 2 19026 19026;19072 46.921 18.434 1 5400200 19385 682 12397 12428 22097;22098 22097 -0.002720757231713833 MDPVSLLW 8 Unmodified _MDPVSLLW_ 0 0 0 ENSG00000065060|ENST00000192788|BLTP3A ENSG00000065060|ENST00000192788|BLTP3A ENSG00000065060|ENST00000192788|BLTP3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.74737548828125 2 480.746596 959.478639 3.0051 0.0014447 -0.46496 -0.00022353 2.5402 0.0012212 480.74639277108037 40.965 0.30745 41.769 41.628 41.936 0.80351 71 32 3 0 0 0 0.26384 2 18528 18528;18579 38.151 16.405 1 6022300 19386 682 12397 12428 22099;22100 22099 -0.002720757231713833 MDPVSLLW 8 Unmodified _MDPVSLLW_ 0 0 0 ENSG00000065060|ENST00000192788|BLTP3A ENSG00000065060|ENST00000192788|BLTP3A ENSG00000065060|ENST00000192788|BLTP3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.7482604980469 2 480.746596 959.478639 3.3228 0.0015974 -0.64105 -0.00030818 2.6817 0.0012892 480.74656235084933 41.647 0.35756 41.917 41.716 42.074 0.27021 54 16 4 0 0 0 0.16336 2 18960 18960;19013 46.921 18.434 1 5390500 19387 682 12397 12428 22101;22102 22101 -0.002720757231713833 MDPVSLLW 8 Unmodified _MDPVSLLW_ 0 0 0 ENSG00000065060|ENST00000192788|BLTP3A ENSG00000065060|ENST00000192788|BLTP3A ENSG00000065060|ENST00000192788|BLTP3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.74786376953125 2 480.746596 959.478639 3.3148 0.0015936 -0.65801 -0.00031633 2.6568 0.0012772 480.7462425863187 41.057 0.20733 41.701 41.638 41.845 0.64451 27 19 2 0 0 0 0.37185 1 18777 18777 30.225 8.4782 1 11384000 19388 682 12397 12428 22103 22103 -0.002720757231713833 MDRRMVFLIRW 11 Unmodified _MDRRMVFLIRW_ 0 0 0 REV__ENST00000502537.1_1_4:86863224-86863332:+|nuORF REV__ENST00000502537.1_1_4:86863224-86863332:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1522.815185546875 1 1522.81336 1521.80608 3.3442 0.0050925 -3.878 -0.0059055 -0.53386 -0.00081298 1522.8118995156588 34.909 0.23627 35.532 35.445 35.681 0.62294 24 21 2 0 0 0 0.91378 1 16041 16041 0.35063 0 1 3467300 + 19389 16893 12398 12429 22104 22104 0.06604796546980651 MDSDAPYQ 8 Unmodified _MDSDAPYQ_ 0 0 0 REV__ENST00000320892.10_1_2:7057533-7081179:+|nuORF REV__ENST00000320892.10_1_2:7057533-7081179:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 309.45745849609375 3 309.456859 925.348747 NaN NaN NaN NaN NaN NaN NaN 42.664 1 42.934 42.434 43.434 0.27021 0 0 0 0.99035 1 19457 19457 0.45834 0 1 + 19390 15314 12399 12430 22105 22105 -0.11691296792980665 MDSDWLMGE 9 Unmodified _MDSDWLMGE_ 0 0 0 nc|ENSG00000097033|Q9Y371-3|SH3GLB1;ENSG00000097033|ENST00000370558|SH3GLB1;nc|ENSG00000097033|Q9Y371-2|SH3GLB1 nc|ENSG00000097033|Q9Y371-3|SH3GLB1 nc|ENSG00000097033|Q9Y371-3|SH3GLB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.21142578125 2 542.209718 1082.40488 3.3594 0.0018215 0.8288 0.00044938 4.1882 0.0022709 542.2102811308896 28.231 0.4225 28.85 28.632 29.054 0.61947 53 29 2 0 0 0 0.98132 1 12917 12917 4.3292 0 1 276760 19391 1132 12400 12431 22106 22106 -0.13302411947802284 MDVCYSSI 8 Unmodified _MDVCYSSI_ 0 0 0 ENSG00000186509|ENST00000335397|OR9Q1 ENSG00000186509|ENST00000335397|OR9Q1 ENSG00000186509|ENST00000335397|OR9Q1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 459.1921691894531 2 459.190796 916.36704 NaN NaN NaN NaN NaN NaN NaN 60.874 1 61.537 61.037 62.037 0.66261 0 0 0 0.99035 1 27873 27873 0.69038 0 1 19392 5577 12401 12432 22107 22107 -0.09448878142620742 MDVEMKLVYID 11 Unmodified _MDVEMKLVYID_ 0 0 0 ENSG00000144962|ENST00000351008|SPATA16 ENSG00000144962|ENST00000351008|SPATA16 ENSG00000144962|ENST00000351008|SPATA16 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 678.3328247070312 2 678.332907 1354.65126 NaN NaN NaN NaN NaN NaN NaN 87.991 1 88.031 87.531 88.531 0.039955 0 0 0 1.0073 1 44709 44709 1.1933 0.79263 1 19393 3453 12402 12433 22108 22108 -0.011879171687496637 MDVQEIEMLL 10 Unmodified _MDVQEIEMLL_ 0 0 0 REV__nc|ENSG00000175166|Q13200-2|PSMD2 REV__nc|ENSG00000175166|Q13200-2|PSMD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 610.8015747070312 2 610.7987 1219.58285 3.4538 0.0021096 0.54217 0.00033116 3.996 0.0024408 610.7992342916328 38.176 0.35373 38.44 38.216 38.569 0.26408 18 10 2 0 0 0 0.68517 1 17400 17400 13.906 0 1 832460 + 19394 13662 12403 12434 22109 22109 -0.018161617485930037 MDVQEIEMLL 10 Unmodified _MDVQEIEMLL_ 0 0 0 REV__nc|ENSG00000175166|Q13200-2|PSMD2 REV__nc|ENSG00000175166|Q13200-2|PSMD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 610.8010864257812 2 610.7987 1219.58285 3.5026 0.0021394 0.70315 0.00042948 4.2057 0.0025689 610.7989825399155 37.522 0.39344 38.156 37.97 38.363 0.63388 30 12 4 0 0 0 0.68517 1 17217 17217 13.906 0 1 670610 + 19395 13662 12403 12434 22110 22110 -0.018161617485930037 MDVQGIVIW 9 Unmodified _MDVQGIVIW_ 0 0 0 REV__nc|ENSG00000187240|Q8NCM8-2|DYNC2H1 REV__nc|ENSG00000187240|Q8NCM8-2|DYNC2H1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.7803955078125 2 530.778428 1059.5423 3.1414 0.0016674 -0.1845 -9.7928E-05 2.9569 0.0015694 530.7785569744717 39.439 0.4398 39.439 39.177 39.616 0 45 16 4 0 0 0 0.3144 1 17853 17853 15.847 15.847 1 3148100 + 19396 14094 12404 12435 22111 22111 0.014912847139157748 MDVQGIVIW 9 Unmodified _MDVQGIVIW_ 0 0 0 REV__nc|ENSG00000187240|Q8NCM8-2|DYNC2H1 REV__nc|ENSG00000187240|Q8NCM8-2|DYNC2H1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.7789916992188 2 530.778428 1059.5423 3.1033 0.0016472 -0.096183 -5.1052E-05 3.0072 0.0015961 530.7785090576677 38.334 0.46532 39.129 38.871 39.336 0.79565 61 19 4 0 0 0 0.3144 2 17298 17298;17354 15.847 4.7327 1 2958600 + 19397 14094 12404 12435 22112;22113 22112 0.014912847139157748 MDVQGIVIW 9 Unmodified _MDVQGIVIW_ 0 0 0 REV__nc|ENSG00000187240|Q8NCM8-2|DYNC2H1 REV__nc|ENSG00000187240|Q8NCM8-2|DYNC2H1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.7807006835938 2 530.778428 1059.5423 3.227 0.0017128 -0.11259 -5.976E-05 3.1144 0.0016531 530.7785589650068 38.752 0.57212 39.39 39.045 39.617 0.63778 57 20 4 0 0 0 0.3144 1 17692 17692 15.847 15.847 1 3068200 + 19398 14094 12404 12435 22114 22114 0.014912847139157748 MDVQGIVIW 9 Unmodified _MDVQGIVIW_ 0 0 0 REV__nc|ENSG00000187240|Q8NCM8-2|DYNC2H1 REV__nc|ENSG00000187240|Q8NCM8-2|DYNC2H1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 530.778428 1059.5423 3.1414 0.0016674 -0.1845 -9.7928E-05 2.9569 0.0015694 530.7785569744717 39.439 0.4398 39.439 39.177 39.616 0 0.11245 -0.00010363 NaN 15.847 45 16 4 NaN NaN NaN NaN 0 NaN NaN 0 3148100 + 19399 14094 12404 12435 0.014912847139157748 MDVQGIVIW 9 Unmodified _MDVQGIVIW_ 0 0 0 REV__nc|ENSG00000187240|Q8NCM8-2|DYNC2H1 REV__nc|ENSG00000187240|Q8NCM8-2|DYNC2H1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 530.778428 1059.5423 3.1033 0.0016472 -0.096183 -5.1052E-05 3.0072 0.0015961 530.7785090576677 38.334 0.46532 39.129 38.871 39.336 0.79565 -0.1969 -9.8799E-06 NaN 15.847 61 19 4 NaN NaN NaN NaN 0 NaN NaN 0 2958600 + 19400 14094 12404 12435 0.014912847139157748 MDWLVRNVTY 10 Unmodified _MDWLVRNVTY_ 0 0 0 ENSG00000093072|ENST00000399837|ADA2 ENSG00000093072|ENST00000399837|ADA2 ENSG00000093072|ENST00000399837|ADA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.8861083984375 3 432.885024 1295.63324 NaN NaN NaN NaN NaN NaN NaN 13.061 1 13.304 12.804 13.804 0.24346 0 0 0 1.0012 1 5691 5691 0.69767 0 1 19401 1107 12405 12436 22115 22115 -0.002748713086020871 MECWCSVEL 9 Unmodified _MECWCSVEL_ 0 0 0 ENST00000584445.5_1_17:80438345-80438627:+|nuORF ENST00000584445.5_1_17:80438345-80438627:+|nuORF ENST00000584445.5_1_17:80438345-80438627:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.2196655273438 2 550.216488 1098.41842 NaN NaN NaN NaN NaN NaN NaN 50.404 1 51.226 50.726 51.726 0.82285 0 0 0 0.89683 1 22959 22959 4.3292 1.7518 1 19402 9167 12406 12437 22116 22116 -0.12684877440233322 MECWCSVEL 9 Unmodified _MECWCSVEL_ 0 0 0 ENST00000584445.5_1_17:80438345-80438627:+|nuORF ENST00000584445.5_1_17:80438345-80438627:+|nuORF ENST00000584445.5_1_17:80438345-80438627:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.219970703125 2 550.216488 1098.41842 NaN NaN NaN NaN NaN NaN NaN 55.097 1 55.765 55.265 56.265 0.66798 0 0 0 0.89509 1 25212 25212 4.756 2.4533 1 19403 9167 12406 12437 22117 22117 -0.12684877440233322 MECWCSVEL 9 Unmodified _MECWCSVEL_ 0 0 0 ENST00000584445.5_1_17:80438345-80438627:+|nuORF ENST00000584445.5_1_17:80438345-80438627:+|nuORF ENST00000584445.5_1_17:80438345-80438627:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.2177734375 2 550.216488 1098.41842 NaN NaN NaN NaN NaN NaN NaN 66.592 1 67.249 66.749 67.749 0.65672 0 0 0 0.89683 1 30528 30528 4.3292 0.73274 1 19404 9167 12406 12437 22118 22118 -0.12684877440233322 MEDGCCCC 8 Unmodified _MEDGCCCC_ 0 0 0 REV__nc|ENSG00000135272|Q9P1T7-1|MDFIC REV__nc|ENSG00000135272|Q9P1T7-1|MDFIC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.1367492675781 2 432.09667 862.178787 NaN NaN NaN NaN NaN NaN NaN 63.018 1 63.74 63.24 64.24 0.72236 0 0 0 0.99035 1 29478 29478 0 0 1 + 19405 17948 12407 12438 22119 22119 -0.2578151865455993 MEEEAGQTSI 10 Unmodified _MEEEAGQTSI_ 0 0 0 ENSG00000160445|ENST00000291900|ZER1 ENSG00000160445|ENST00000291900|ZER1 ENSG00000160445|ENST00000291900|ZER1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.7395629882812 2 547.737154 1093.45975 3.4434 0.0018861 -0.25921 -0.00014198 3.1842 0.0017441 547.7371663462749 34.952 0.75116 34.952 34.733 35.484 0 123 59 3 0 0 0 0.091802 5 15779 15779;15826;15878;15933;15985 53.833 2.203 1 4438700 19406 4060 12408 12439 22120;22121;22122;22123;22124 22120 -0.08323701875519873 MEEEAGQTSI 10 Unmodified _MEEEAGQTSI_ 0 0 0 ENSG00000160445|ENST00000291900|ZER1 ENSG00000160445|ENST00000291900|ZER1 ENSG00000160445|ENST00000291900|ZER1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.7383422851562 2 547.737154 1093.45975 3.0036 0.0016452 0.039783 2.1791E-05 3.0433 0.001667 547.7373585721665 34.222 0.52241 35.011 34.73 35.252 0.78921 101 30 4 0 0 0 0.091802 4 15441 15391;15441;15491;15538 53.833 2.203 1 3965800 19407 4060 12408 12439 22125;22126;22127;22128 22126 -0.08323701875519873 MEEEAGQTSI 10 Unmodified _MEEEAGQTSI_ 0 0 0 ENSG00000160445|ENST00000291900|ZER1 ENSG00000160445|ENST00000291900|ZER1 ENSG00000160445|ENST00000291900|ZER1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.739013671875 2 547.737154 1093.45975 3.5258 0.0019312 0.2048 0.00011218 3.7306 0.0020434 547.7372956548143 34.85 0.73756 35.105 34.856 35.594 0.25524 88 45 2 0 0 0 0.091802 6 15868 15798;15816;15868;15921;15986;16034 53.833 2.203 1 4642300 19408 4060 12408 12439 22129;22130;22131;22132;22133;22134 22131 -0.08323701875519873 MEEEAGQTSI 10 Unmodified _MEEEAGQTSI_ 0 0 0 ENSG00000160445|ENST00000291900|ZER1 ENSG00000160445|ENST00000291900|ZER1 ENSG00000160445|ENST00000291900|ZER1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.7390747070312 2 547.737154 1093.45975 3.5008 0.0019175 -0.36258 -0.0001986 3.1382 0.0017189 547.7370434997299 34.479 0.606 35.102 34.798 35.404 0.62294 77 32 4 0 0 0 0.15015 1 15876 15876 45.7 1.9272 1 3070900 19409 4060 12408 12439 22135 22135 -0.08323701875519873 MEEEAGQTSI 10 Unmodified _MEEEAGQTSI_ 0 0 0 ENSG00000160445|ENST00000291900|ZER1 ENSG00000160445|ENST00000291900|ZER1 ENSG00000160445|ENST00000291900|ZER1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 547.737154 1093.45975 3.0036 0.0016452 0.039783 2.1791E-05 3.0433 0.001667 547.7373585721665 34.222 0.52241 35.011 34.73 35.252 0.78921 -0.031427 0.0001498 NaN 53.833 101 30 4 NaN NaN NaN NaN 0 NaN NaN 0 3965800 19410 4060 12408 12439 -0.08323701875519873 MEETVIPSTM 10 Unmodified _MEETVIPSTM_ 0 0 0 ENST00000514616.5_1_5:137194760-137194853:-|nuORF ENST00000514616.5_1_5:137194760-137194853:-|nuORF ENST00000514616.5_1_5:137194760-137194853:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.260009765625 2 569.26195 1136.50935 NaN NaN NaN NaN NaN NaN NaN 28.496 1 28.756 28.256 29.256 0.2602 0 0 0 0.99464 1 12962 12962 6.2058 1.4498 1 19411 8584 12409 12440 22136 22136 -0.053447101911160644 MEHAYYAS 8 Unmodified _MEHAYYAS_ 0 0 0 ENSG00000114480|ENST00000429644|GBE1;ENST00000498468.1_1_3:81691930-81695646:-|nuORF ENSG00000114480|ENST00000429644|GBE1 ENSG00000114480|ENST00000429644|GBE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.2020263671875 2 486.20001 970.385467 3.322 0.0016152 0.024963 1.2137E-05 3.347 0.0016273 486.2002262326423 19.051 0.18879 19.709 19.601 19.79 0.6583 28 16 2 0 0 0 0.68959 1 8621 8621 5.2307 0 1 663920 19412 1906 12410 12441 22137 22137 -0.10091000176419129 MEKLVLVLAHL 11 Unmodified _MEKLVLVLAHL_ 0 0 0 ENSG00000137628|ENST00000393743|DDX60;ENST00000507815.1_1_4:169157339-169158551:-|nuORF ENSG00000137628|ENST00000393743|DDX60 ENSG00000137628|ENST00000393743|DDX60 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 317.1969299316406 4 317.196705 1264.75771 1.9504 0.00061866 -0.74171 -0.00023527 1.2087 0.00038339 317.19639790187335 52.288 1.2257 52.95 52.158 53.384 0.66198 230 63 5 0 0 0 0.91104 3 23636 23636;23681;23774 1.2148 1.2148 1 9836900 19413 3030 12411 12442 22138;22139;22140 22138 0.13592626178729006 MEKMQRLLHV 10 Unmodified _MEKMQRLLHV_ 0 0 0 REV__nc|ENSG00000189337|Q674X7-3|KAZN REV__nc|ENSG00000189337|Q674X7-3|KAZN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 428.9022216796875 3 428.902021 1283.68423 NaN NaN NaN NaN NaN NaN NaN 71.973 1 72.231 71.731 72.731 0.25786 0 0 0 0.99837 1 33028 33028 3.0723 0.44103 1 + 19414 14182 12412 12443 22141 22141 0.053737544646082824 MELSKKIAE 9 Unmodified _MELSKKIAE_ 0 0 0 nc|ENSG00000141127|O60256-3|PRPSAP2;nc|ENSG00000141127|O60256-2|PRPSAP2;ENSG00000141127|ENST00000268835|PRPSAP2 nc|ENSG00000141127|O60256-3|PRPSAP2 nc|ENSG00000141127|O60256-3|PRPSAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.2076721191406 3 350.195087 1047.56343 NaN NaN NaN NaN NaN NaN NaN 39.213 1 39.851 39.351 40.351 0.63778 0 0 0 0.90335 1 17924 17924 2.7352 0.23671 1 19415 3238 12413 12444 22142 22142 0.04155250022790824 MEMEEERRIGM 11 Unmodified _MEMEEERRIGM_ 0 0 0 REV__ENSG00000165675|ENST00000394363|ENOX2 REV__ENSG00000165675|ENST00000394363|ENOX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 705.7507934570312 2 705.812347 1409.61014 NaN NaN NaN NaN NaN NaN NaN 30.384 1 31.173 30.673 31.673 0.78921 0 0 0 1.0072 1 13719 13719 1.3295 0 1 + 19416 13179 12414 12445 22143 22143 -0.07828001479902014 MEMHLDLL 8 Unmodified _MEMHLDLL_ 0 0 0 REV__ENSG00000172840|ENST00000311765|PDP2 REV__ENSG00000172840|ENST00000311765|PDP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.4181823730469 2 501.243363 1000.47217 3.3198 0.001664 0.41414 0.00020758 3.734 0.0018716 501.24362224307606 80.974 0.18133 81.634 81.552 81.733 0.65998 10 7 2 0 0 0 0.13672 1 37336 37336 13.508 2.684 1 354150 + 19417 13566 12415 12446 22144 22144 -0.028043369461784096 MEMYAIYQQ 9 Unmodified _MEMYAIYQQ_ 0 0 0 ENSG00000187033|ENST00000335556|SAMD7 ENSG00000187033|ENST00000335556|SAMD7 ENSG00000187033|ENST00000335556|SAMD7 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.2083740234375 3 392.840315 1175.49912 2.924 0.0011487 -2.288 -0.00089883 0.63597 0.00024983 392.83916240851295 35.44 0.23388 36.067 35.967 36.201 0.62631 10 6 2 0 0 0 0.11383 1 16205 16205 1.1933 0.41681 1 171710 19418 5598 12416 12447 22145 22145 -0.0816127312568824 MENEDVFGNRI 11 Unmodified _MENEDVFGNRI_ 0 0 0 nc|ENSG00000166783|Q9Y4F3-3|MARF1;nc|ENSG00000166783|Q9Y4F3-4|MARF1;nc|ENSG00000166783|Q9Y4F3-5|MARF1;ENSG00000166783|ENST00000396368|MARF1 nc|ENSG00000166783|Q9Y4F3-3|MARF1 nc|ENSG00000166783|Q9Y4F3-3|MARF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.9288024902344 3 441.871443 1322.5925 NaN NaN NaN NaN NaN NaN NaN 50.881 1 50.881 50.381 51.381 0 0 0 0 1.0072 1 23297 23297 0.45452 0 1 19419 4506 12417 12448 22146 22146 -0.055892574188646904 MEPASTREDS 10 Unmodified _MEPASTREDS_ 0 0 0 ENST00000327857.6_2_8:6873489-6873558:-|nuORF ENST00000327857.6_2_8:6873489-6873558:-|nuORF ENST00000327857.6_2_8:6873489-6873558:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.8306884765625 3 374.829244 1121.4659 3.0129 0.0011293 -0.49989 -0.00018738 2.513 0.00094193 374.8293444705339 27.579 0.36156 27.579 27.334 27.696 0 76 29 4 0 0 0 0.66557 2 12369 12369;12416 8.9762 3.5735 1 4604200 19420 6967 12418 12449 22147;22148 22147 -0.08997183644032702 MEPASTREDS 10 Unmodified _MEPASTREDS_ 0 0 0 ENST00000327857.6_2_8:6873489-6873558:-|nuORF ENST00000327857.6_2_8:6873489-6873558:-|nuORF ENST00000327857.6_2_8:6873489-6873558:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.8302917480469 3 374.829244 1121.4659 2.565 0.00096143 -0.31283 -0.00011726 2.2521 0.00084417 374.82949268711235 26.922 0.37729 27.544 27.328 27.706 0.62179 76 28 4 0 0 0 0.66557 1 12349 12349 8.9762 0.53194 1 1693200 19421 6967 12418 12449 22149 22149 -0.08997183644032702 MEPTMKFSL 9 Unmodified _MEPTMKFSL_ 0 0 0 nc|ENSG00000054654|Q8WXH0|SYNE2;ENSG00000054654|ENST00000555002|SYNE2;SYNE2|p.F1990Lfs*7|1|0.2|ENSG00000054654|chr14:64025137-64025137|T/-|frameshift_variant nc|ENSG00000054654|Q8WXH0|SYNE2 nc|ENSG00000054654|Q8WXH0|SYNE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.2662353515625 2 542.264296 1082.51404 NaN NaN NaN NaN NaN NaN NaN 59.298 1 59.298 58.798 59.798 0 0 0 0 0.75166 1 27407 27407 10.824 2.9138 1 19422 610 12419 12450 22150 22150 -0.023917812576655706 MEREHLIF 8 Unmodified _MEREHLIF_ 0 0 0 nc|ENSG00000197283|Q96PV0-3|SYNGAP1;ENST00000479510.2_1_6:33387852-33406697:+|nuORF;nc|ENSG00000197283|Q96PV0-2|SYNGAP1;nc|ENSG00000197283|Q96PV0-4|SYNGAP1;ENSG00000197283|ENST00000646630|SYNGAP1 nc|ENSG00000197283|Q96PV0-3|SYNGAP1 nc|ENSG00000197283|Q96PV0-3|SYNGAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.7781372070312 2 537.773677 1073.5328 2.8277 0.0015207 2.4985 0.0013436 5.3262 0.0028643 537.7758091082914 80.386 0.4883 80.635 80.322 80.81 0.24947 70 28 3 0 0 0 0.18676 1 37021 37021 44.407 2.3125 1 1525800 19423 9803 12420 12451 22151 22151 -0.0010248357161799504 MERLRLPVT 9 Unmodified _MERLRLPVT_ 0 0 0 REV__ENST00000442133.8_1_10:75256199-75264836:+|nuORF REV__ENST00000442133.8_1_10:75256199-75264836:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 372.2206726074219 3 372.218226 1113.63285 NaN NaN NaN NaN NaN NaN NaN 41.406 1 42.209 41.709 42.709 0.80351 0 0 0 0.90699 1 18783 18783 0.96228 0 1 + 19424 16350 12421 12452 22152 22152 0.08057753762204811 MERRRPRLLRR 11 Unmodified _MERRRPRLLRR_ 0 0 0 ENST00000341285.7_2_4:15656858-15657005:-|nuORF ENST00000341285.7_2_4:15656858-15657005:-|nuORF ENST00000341285.7_2_4:15656858-15657005:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 770.0927124023438 2 769.967877 1537.9212 NaN NaN NaN NaN NaN NaN NaN 59.008 1 59.675 59.175 60.175 0.66703 0 0 0 1.008 1 27012 27012 0.26902 0.26902 1 19425 7074 12422 12453 22153 22153 0.17375661792971187 MERYQPNM 8 Unmodified _MERYQPNM_ 0 0 0 REV__nc|ENSG00000005339|Q92793-2|CREBBP REV__nc|ENSG00000005339|Q92793-2|CREBBP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 534.735595703125 2 534.733694 1067.45284 NaN NaN NaN NaN NaN NaN NaN 42.145 1 42.953 42.453 43.453 0.80855 0 0 0 0.99035 1 19135 19135 2.5775 0.27475 1 + 19426 10179 12423 12454 22154 22154 -0.07819293237116653 MEVKRDGVR 9 Unmodified _MEVKRDGVR_ 0 0 0 ENST00000574871.1_1_17:4798302-4798913:+|nuORF ENST00000574871.1_1_17:4798302-4798913:+|nuORF ENST00000574871.1_1_17:4798302-4798913:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.8668212890625 3 363.865964 1088.57606 2.0267 0.00073746 -0.030145 -1.0969E-05 1.9966 0.0007265 363.8659626995338 12.972 0.22859 13.279 13.159 13.388 0.30727 25 9 4 0 0 0 0.21008 1 5858 5858 16.566 2.1605 1 928900 19427 9114 12424 12455 22155 22155 0.035317062056719806 MEVKRDGVR 9 Unmodified _MEVKRDGVR_ 0 0 0 ENST00000574871.1_1_17:4798302-4798913:+|nuORF ENST00000574871.1_1_17:4798302-4798913:+|nuORF ENST00000574871.1_1_17:4798302-4798913:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 363.865964 1088.57606 2.0389 0.00074187 -0.56826 -0.00020677 1.4706 0.0005351 363.86578385509654 13.026 0.13447 13.269 13.198 13.333 0.24346 -0.0048947 -0.00020874 NaN 16.566 19 11 2 NaN NaN NaN NaN 0 NaN NaN 0 509160 19428 9114 12424 12455 0.035317062056719806 MFEDDTFVYM 10 Unmodified _MFEDDTFVYM_ 0 0 0 nc|ENSG00000114948|O75077-3|ADAM23;nc|ENSG00000114948|O75077-2|ADAM23;ENSG00000114948|ENST00000264377|ADAM23 nc|ENSG00000114948|O75077-3|ADAM23 nc|ENSG00000114948|O75077-3|ADAM23 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 649.3617553710938 2 649.259407 1296.50426 NaN NaN NaN NaN NaN NaN NaN 59.919 1 59.919 59.419 60.419 0 0 0 0 0.99983 1 27732 27732 1.8442 0 1 19429 1932 12425 12456 22156 22156 -0.13213014053712868 MFELAWML 8 Unmodified _MFELAWML_ 0 0 0 nc|ENSG00000093009|O75419-2|CDC45;ENSG00000093009|ENST00000263201|CDC45;nc|ENSG00000093009|O75419-3|CDC45 nc|ENSG00000093009|O75419-2|CDC45 nc|ENSG00000093009|O75419-2|CDC45 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.7522583007812 2 520.750824 1039.4871 3.4995 0.0018224 -0.57632 -0.00030012 2.9232 0.0015223 520.7504053516559 83.516 0.43372 84.178 83.93 84.363 0.66219 82 28 4 0 0 0 0.5047 1 38508 38508 20.871 6.2895 1 3524700 19430 1105 12426 12457 22157 22157 -0.031068450781958745 MFKKRRRRARK 11 Unmodified _MFKKRRRRARK_ 0 0 0 nc|ENSG00000172403|Q9UMS6-5|SYNPO2;nc|ENSG00000172403|Q9UMS6|SYNPO2;nc|ENSG00000172403|Q9UMS6-3|SYNPO2;nc|ENSG00000172403|Q9UMS6-4|SYNPO2;ENSG00000172403|ENST00000307142|SYNPO2 nc|ENSG00000172403|Q9UMS6-5|SYNPO2 nc|ENSG00000172403|Q9UMS6-5|SYNPO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 766.9849243164062 2 766.980787 1531.94702 NaN NaN NaN NaN NaN NaN NaN 85.355 1 85.355 84.855 85.855 0 0 0 0 1.0082 1 43439 43439 0 0 1 19431 4870 12427 12458 22158 22158 0.2023255603526195 MFPLPRILF 9 Unmodified _MFPLPRILF_ 0 0 0 nc|ENSG00000003989|P52569-2|SLC7A2 nc|ENSG00000003989|P52569-2|SLC7A2 nc|ENSG00000003989|P52569-2|SLC7A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.3327026367188 2 567.33063 1132.64671 3.8021 0.002157 -0.97549 -0.00055343 2.8266 0.0016036 567.3300254958021 103 0.12104 103.6 103.53 103.65 0.59821 9 3 3 0 0 0 1.2078 1 47673 47673 0.6015 0.076735 1 963870 19432 9534 12428 12459 22159 22159 0.08569031261276905 MFRRKAFL 8 Unmodified _MFRRKAFL_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;ENSG00000261456|ENST00000568584|TUBB8;ENSG00000173213|ENST00000308911|TUBB8B;ENST00000518096.1_1_8:30210219-30210855:+|nuORF;ENST00000290377.9_1_9:141071128-141071713:+|nuORF;ENST00000415481.1_1_1:809210-809726:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 356.8763122558594 3 356.876023 1067.60624 2.6557 0.00094777 -0.80938 -0.00028885 1.8464 0.00065892 356.8757039202243 24.548 0.17869 24.82 24.748 24.927 0.27129 55 37 2 0 0 0 0.06577 2 11152 11106;11152 60.39 36.6 1 5709400 19433 5660;6301;1452 12429 12460 22160;22161 22161 0.07514109661542534 MFRRKAFL 8 Unmodified _MFRRKAFL_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;ENSG00000261456|ENST00000568584|TUBB8;ENSG00000173213|ENST00000308911|TUBB8B;ENST00000518096.1_1_8:30210219-30210855:+|nuORF;ENST00000290377.9_1_9:141071128-141071713:+|nuORF;ENST00000415481.1_1_1:809210-809726:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 356.8770446777344 3 356.876023 1067.60624 NaN NaN NaN NaN NaN NaN NaN 24.717 1 24.988 24.488 25.488 0.27129 0 0 0 0.76538 1 11205 11205 20.454 10.91 1 19434 5660;6301;1452 12429 12460 22162 22162 0.07514109661542534 MFSIRLPNKY 10 Unmodified _MFSIRLPNKY_ 0 0 0 ENSG00000165996|ENST00000361271|HACD1 ENSG00000165996|ENST00000361271|HACD1 ENSG00000165996|ENST00000361271|HACD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 634.845703125 2 634.844633 1267.67471 NaN NaN NaN NaN NaN NaN NaN 29.041 1 29.301 28.801 29.801 0.2602 0 0 0 0.99846 1 13216 13216 2.9952 0 1 19435 4442 12430 12461 22163 22163 0.051583094507350324 MFVFKERWFWR 11 Unmodified _MFVFKERWFWR_ 0 0 0 ENSG00000157227|ENST00000311852|MMP14 ENSG00000157227|ENST00000311852|MMP14 ENSG00000157227|ENST00000311852|MMP14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.6151733398438 3 544.614979 1630.82311 NaN NaN NaN NaN NaN NaN NaN 81.652 1 81.652 81.152 82.152 0 0 0 0 1.0082 1 40702 40702 0 0 1 19436 3945 12431 12462 22164 22164 0.0329304042440981 MFYQLKNKHM 10 Unmodified _MFYQLKNKHM_ 0 0 0 REV__nc|ENSG00000253729|P78527-2|PRKDC REV__nc|ENSG00000253729|P78527-2|PRKDC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 670.3345336914062 2 670.336118 1338.65768 NaN NaN NaN NaN NaN NaN NaN 107.68 1 107.99 107.49 108.49 0.31421 0 0 0 1.0015 1 49671 49671 0.45834 0 1 + 19437 14662 12432 12463 22165 22165 0.0019006557324701134 MGAHLVVF 8 Unmodified _MGAHLVVF_ 0 0 0 nc|ENSG00000205846|Q6EIG7-2|CLEC6A;ENSG00000205846|ENST00000382073|CLEC6A nc|ENSG00000205846|Q6EIG7-2|CLEC6A nc|ENSG00000205846|Q6EIG7-2|CLEC6A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.23846435546875 2 437.236199 872.457844 2.7032 0.0011819 1.4371 0.00062835 4.1403 0.0018103 437.2369318166406 81.354 0.2691 81.602 81.54 81.809 0.24802 19 14 2 0 0 0 0.73686 1 37499 37499 2.8892 0.58649 1 331630 19438 6059 12433 12464 22166 22166 0.016513786878363135 MGCPIMGK 8 Unmodified _MGCPIMGK_ 0 0 0 REV__ENST00000505256.6_1_2:97312155-97317763:+|nuORF REV__ENST00000505256.6_1_2:97312155-97317763:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 418.69769287109375 2 418.694995 835.375437 NaN NaN NaN NaN NaN NaN NaN 41.754 1 42.024 41.524 42.524 0.27021 0 0 0 0.99035 1 19023 19023 0.79363 0.10326 1 + 19439 16918 12434 12465 22167 22167 -0.04883602706979673 MGGLFSTS 8 Unmodified _MGGLFSTS_ 0 0 0 REV__ENST00000411618.1_1_9:30800375-30800732:-|nuORF REV__ENST00000411618.1_1_9:30800375-30800732:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 799.3692016601562 1 799.365466 798.35819 4.0076 0.0032036 -0.48175 -0.00038509 3.5259 0.0028185 799.3649672985773 80.113 0.41228 80.773 80.559 80.971 0.65997 39 27 2 0 0 0 0.42655 1 36926 36926 26.341 5.4701 1 624080 + 19440 16106 12435 12466 22168 22168 -0.04905483716777326 MGGLFSTS 8 Unmodified _MGGLFSTS_ 0 0 0 REV__ENST00000411618.1_1_9:30800375-30800732:-|nuORF REV__ENST00000411618.1_1_9:30800375-30800732:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 799.365466 798.35819 3.6359 0.0029064 0.34334 0.00027445 3.9792 0.0031808 799.3654840427732 80.582 0.55159 80.831 80.687 81.238 0.24947 0.029279 0.00025099 NaN 26.341 48 32 2 NaN NaN NaN NaN 0 NaN NaN 0 816220 + 19441 16106 12435 12466 -0.04905483716777326 MGGLFSTS 8 Unmodified _MGGLFSTS_ 0 0 0 REV__ENST00000411618.1_1_9:30800375-30800732:-|nuORF REV__ENST00000411618.1_1_9:30800375-30800732:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 799.365466 798.35819 4.0076 0.0032036 -0.48175 -0.00038509 3.5259 0.0028185 799.3649672985773 80.113 0.41228 80.773 80.559 80.971 0.65997 -0.029279 -0.00040855 NaN 26.341 39 27 2 NaN NaN NaN NaN 0 NaN NaN 0 624080 + 19442 16106 12435 12466 -0.04905483716777326 MGKKKGKK 8 Unmodified _MGKKKGKK_ 0 0 0 nc|ENSG00000172403|Q9UMS6-5|SYNPO2;nc|ENSG00000172403|Q9UMS6|SYNPO2;nc|ENSG00000172403|Q9UMS6-3|SYNPO2;nc|ENSG00000172403|Q9UMS6-4|SYNPO2;ENSG00000172403|ENST00000307142|SYNPO2 nc|ENSG00000172403|Q9UMS6-5|SYNPO2 nc|ENSG00000172403|Q9UMS6-5|SYNPO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 302.1967468261719 3 302.196874 903.568792 NaN NaN NaN NaN NaN NaN NaN 48.327 1 48.327 47.827 48.827 0 0 0 0 0.99035 1 22130 22130 0 0 1 19443 4870 12436 12467 22169 22169 0.11315018395919196 MGKKKGKK 8 Unmodified _MGKKKGKK_ 0 0 0 nc|ENSG00000172403|Q9UMS6-5|SYNPO2;nc|ENSG00000172403|Q9UMS6|SYNPO2;nc|ENSG00000172403|Q9UMS6-3|SYNPO2;nc|ENSG00000172403|Q9UMS6-4|SYNPO2;ENSG00000172403|ENST00000307142|SYNPO2 nc|ENSG00000172403|Q9UMS6-5|SYNPO2 nc|ENSG00000172403|Q9UMS6-5|SYNPO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 302.1969909667969 3 302.196874 903.568792 NaN NaN NaN NaN NaN NaN NaN 48.464 1 48.464 47.964 48.964 0 0 0 0 0.99035 1 22194 22194 0 0 1 19444 4870 12436 12467 22170 22170 0.11315018395919196 MGKKKGKK 8 Unmodified _MGKKKGKK_ 0 0 0 nc|ENSG00000172403|Q9UMS6-5|SYNPO2;nc|ENSG00000172403|Q9UMS6|SYNPO2;nc|ENSG00000172403|Q9UMS6-3|SYNPO2;nc|ENSG00000172403|Q9UMS6-4|SYNPO2;ENSG00000172403|ENST00000307142|SYNPO2 nc|ENSG00000172403|Q9UMS6-5|SYNPO2 nc|ENSG00000172403|Q9UMS6-5|SYNPO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 302.19696044921875 3 302.196874 903.568792 NaN NaN NaN NaN NaN NaN NaN 49.369 1 49.369 48.869 49.869 0 0 0 0 0.99035 1 22608 22608 0 0 1 19445 4870 12436 12467 22171 22171 0.11315018395919196 MGKKKGKK 8 Unmodified _MGKKKGKK_ 0 0 0 nc|ENSG00000172403|Q9UMS6-5|SYNPO2;nc|ENSG00000172403|Q9UMS6|SYNPO2;nc|ENSG00000172403|Q9UMS6-3|SYNPO2;nc|ENSG00000172403|Q9UMS6-4|SYNPO2;ENSG00000172403|ENST00000307142|SYNPO2 nc|ENSG00000172403|Q9UMS6-5|SYNPO2 nc|ENSG00000172403|Q9UMS6-5|SYNPO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.19671630859375 3 302.196874 903.568792 NaN NaN NaN NaN NaN NaN NaN 50.922 1 51.582 51.082 52.082 0.65956 0 0 0 0.99035 1 23285 23285 0 0 1 19446 4870 12436 12467 22172 22172 0.11315018395919196 MGLSTILG 8 Unmodified _MGLSTILG_ 0 0 0 nc|ENSG00000137713|P30154-5|PPP2R1B;ENSG00000137713|ENST00000527614|PPP2R1B;nc|ENSG00000137713|P30154-2|PPP2R1B;ENST00000534521.5_1_11:111612322-111631898:-|nuORF;nc|ENSG00000137713|P30154-3|PPP2R1B nc|ENSG00000137713|P30154-5|PPP2R1B nc|ENSG00000137713|P30154-5|PPP2R1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 396.2222595214844 2 396.220214 790.425876 NaN NaN NaN NaN NaN NaN NaN 54.665 1 54.93 54.43 55.43 0.26543 0 0 0 0.99035 1 24986 24986 5.2307 0 1 19447 3033 12437 12468 22173 22173 0.022279662140363143 MGLSTILG 8 Unmodified _MGLSTILG_ 0 0 0 nc|ENSG00000137713|P30154-5|PPP2R1B;ENSG00000137713|ENST00000527614|PPP2R1B;nc|ENSG00000137713|P30154-2|PPP2R1B;ENST00000534521.5_1_11:111612322-111631898:-|nuORF;nc|ENSG00000137713|P30154-3|PPP2R1B nc|ENSG00000137713|P30154-5|PPP2R1B nc|ENSG00000137713|P30154-5|PPP2R1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 396.22149658203125 2 396.220214 790.425876 NaN NaN NaN NaN NaN NaN NaN 53.878 1 54.544 54.044 55.044 0.6665 0 0 0 0.99035 1 24639 24639 5.2307 0 1 19448 3033 12437 12468 22174 22174 0.022279662140363143 MGPKKRPL 8 Unmodified _MGPKKRPL_ 0 0 0 REV__ENSG00000154640|ENST00000348354|BTG3 REV__ENSG00000154640|ENST00000348354|BTG3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.78369140625 2 463.783847 925.553142 2.8269 0.0013111 -1.2514 -0.00058039 1.5755 0.00073068 463.7830501502638 31.042 0.21228 31.66 31.527 31.74 0.61737 31 14 3 0 0 0 0.7471 1 14230 14230 0.79363 0.10326 1 452710 + 19449 12714 12438 12469 22175 22175 0.08738731878850103 MGPKKRPL 8 Unmodified _MGPKKRPL_ 0 0 0 REV__ENSG00000154640|ENST00000348354|BTG3 REV__ENSG00000154640|ENST00000348354|BTG3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 463.783847 925.553142 2.8816 0.0013365 -1.5564 -0.00072182 1.3253 0.00061463 463.7830961902744 31.961 0.19297 31.961 31.837 32.03 0 0.067901 0.00016329 NaN 0.79363 30 17 2 NaN NaN NaN NaN 0 NaN NaN 0 658740 + 19450 12714 12438 12469 0.08738731878850103 MGPKKRPL 8 Unmodified _MGPKKRPL_ 0 0 0 REV__ENSG00000154640|ENST00000348354|BTG3 REV__ENSG00000154640|ENST00000348354|BTG3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 463.783847 925.553142 3.1321 0.0014526 -2.0907 -0.00096964 1.0414 0.00048297 463.7828740339771 31.803 0.22972 32.058 31.941 32.171 0.25452 0.16497 -0.00033235 NaN 0.79363 31 18 2 NaN NaN NaN NaN 0 NaN NaN 0 622200 + 19451 12714 12438 12469 0.08738731878850103 MGPKKRPL 8 Unmodified _MGPKKRPL_ 0 0 0 REV__ENSG00000154640|ENST00000348354|BTG3 REV__ENSG00000154640|ENST00000348354|BTG3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 463.783847 925.553142 2.8269 0.0013111 -1.2514 -0.00058039 1.5755 0.00073068 463.7830501502638 31.042 0.21228 31.66 31.527 31.74 0.61737 -0.23287 0.00044614 NaN 0.79363 31 14 3 NaN NaN NaN NaN 0 NaN NaN 0 452710 + 19452 12714 12438 12469 0.08738731878850103 MGRRPKGRA 9 Unmodified _MGRRPKGRA_ 0 0 0 REV__ENSG00000109851|ENST00000524983|DBX1 REV__ENSG00000109851|ENST00000524983|DBX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 343.53582763671875 3 343.53466 1027.58215 2.2095 0.00075903 0.65719 0.00022577 2.8667 0.00098479 343.53484594465544 35.041 0.5116 35.041 34.85 35.361 0 78 43 2 0 0 0 1.129 5 15830 15830;15879;15928;15987;16002 0.96228 0.96228 1 2551500 + 19453 11185 12439 12470 22176;22177;22178;22179;22180 22176 0.06946269227864832 MGRRPKGRA 9 Unmodified _MGRRPKGRA_ 0 0 0 REV__ENSG00000109851|ENST00000524983|DBX1 REV__ENSG00000109851|ENST00000524983|DBX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.5356140136719 3 343.53466 1027.58215 2.4517 0.00084223 1.0209 0.0003507 3.4725 0.0011929 343.53490393352314 34.874 0.50023 35.129 34.856 35.357 0.25524 47 34 2 0 0 0 1.129 2 15821 15821;15869 0.96228 0.96228 1 4593700 + 19454 11185 12439 12470 22181;22182 22181 0.06946269227864832 MGRRPKGRA 9 Unmodified _MGRRPKGRA_ 0 0 0 REV__ENSG00000109851|ENST00000524983|DBX1 REV__ENSG00000109851|ENST00000524983|DBX1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.5356140136719 3 343.53466 1027.58215 2.4517 0.00084223 1.0209 0.0003507 3.4725 0.0011929 343.53490393352314 34.874 0.50023 35.129 34.856 35.357 0.25524 47 34 2 0 0 0 0.11053 1 15995 15995 0.96228 0.96228 1 4593700 + 19455 11185 12439 12470 22183 22183 0.06946269227864832 MGRRPKGRA 9 Unmodified _MGRRPKGRA_ 0 0 0 REV__ENSG00000109851|ENST00000524983|DBX1 REV__ENSG00000109851|ENST00000524983|DBX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.53546142578125 3 343.53466 1027.58215 2.3405 0.00080403 1.5998 0.00054959 3.9403 0.0013536 343.53487585658445 34.424 0.54674 35.047 34.755 35.301 0.62294 62 21 4 0 0 0 1.129 1 15798 15798 0.96228 0 1 1901200 + 19456 11185 12439 12470 22184 22184 0.06946269227864832 MGTVPRLRPR 10 Unmodified _MGTVPRLRPR_ 0 0 0 DIAPH1|p.A1052Lfs*8|1|0.21|ENSG00000131504|chr5:141527693-141527693|A/-|frameshift_variant;nc|ENSG00000131504|O60610-2|DIAPH1;nc|ENSG00000131504|O60610-3|DIAPH1;ENSG00000131504|ENST00000389054|DIAPH1 DIAPH1|p.A1052Lfs*8|1|0.21|ENSG00000131504|chr5:141527693-141527693|A/-|frameshift_variant DIAPH1|p.A1052Lfs*8|1|0.21|ENSG00000131504|chr5:141527693-141527693|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.90155029296875 3 394.90112 1181.68153 2.991 0.0011811 0.38212 0.0001509 3.3731 0.001332 394.90110269478106 82.07 1.0983 82.73 82.375 83.473 0.65998 86 63 2 0 0 0 0.90216 1 37795 37795 3.5871 3.5871 1 771720 19457 268 12440 12471 22185 22185 0.0979566712196629 MHAKIKARRQ 10 Unmodified _MHAKIKARRQ_ 0 0 0 L1MEi_dup2526|chr7:128464755-128464925:+|1.2635864189758297|0.2531340175070153|2.32|532.0|7|3|sense L1MEi_dup2526|chr7:128464755-128464925:+|1.2635864189758297|0.2531340175070153|2.32|532.0|7|3|sense L1MEi_dup2526|chr7:128464755-128464925:+|1.2635864189758297|0.2531340175070153|2.32|532.0|7|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.871826171875 2 619.866766 1237.71898 NaN NaN NaN NaN NaN NaN NaN 89.845 1 90.097 89.597 90.597 0.25137 0 0 0 1.0001 1 41318 41318 1.6526 0.17072 1 19458 9454 12441 12472 22186 22186 0.10962758387586291 MHKLLHIL 8 Unmodified _MHKLLHIL_ 0 0 0 ENSG00000162779|ENST00000367618|AXDND1;nc|ENSG00000162779|Q5T1B0-2|AXDND1;ENST00000461179.2_1_1:179339175-179437601:+|nuORF ENSG00000162779|ENST00000367618|AXDND1 ENSG00000162779|ENST00000367618|AXDND1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.7756652832031 2 502.807322 1003.60009 3.3003 0.0016594 1.6213 0.00081519 4.9216 0.0024746 503.30729076575665 57.427 0.59293 58.095 58.009 58.602 0.66829 58 38 2 0 0 0 0.13917 1 26392 26392 9.3474 0 1 1623800 19459 4168 12442 12473 22187 22187 0.09843591430012566 MHLKILKKRHK 11 Unmodified _MHLKILKKRHK_ 0 0 0 ENST00000313732.8_1_16:85029551-85029593:-|nuORF ENST00000313732.8_1_16:85029551-85029593:-|nuORF ENST00000313732.8_1_16:85029551-85029593:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.9753112792969 3 477.974619 1430.90203 NaN NaN NaN NaN NaN NaN NaN 84.025 1 84.054 83.554 84.554 0.028603 0 0 0 1.0072 1 41825 41825 0.45452 0.046251 1 19460 6887 12443 12474 22188 22188 0.20381312449353572 MHLRRSRKN 9 Unmodified _MHLRRSRKN_ 0 0 0 ENST00000333896.5_1_2:54882331-54883075:+|nuORF ENST00000333896.5_1_2:54882331-54883075:+|nuORF ENST00000333896.5_1_2:54882331-54883075:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.8974304199219 3 399.896369 1196.66728 3.0322 0.0012126 -0.64231 -0.00025686 2.3899 0.0009557 399.8961747283161 13.522 0.30404 14.171 14.042 14.346 0.64819 41 20 3 0 0 0 1.0601 1 6104 6104 2.9952 0.26005 1 350040 19461 7015 12444 12475 22189 22189 0.07681014693662291 MHLSELVN 8 Unmodified _MHLSELVN_ 0 0 0 REV__ENSG00000129173|ENST00000250024|E2F8 REV__ENSG00000129173|ENST00000250024|E2F8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 314.8292236328125 3 314.828627 941.464052 2.0034 0.00063073 0.34574 0.00010885 2.3491 0.00073958 314.82861752517283 13.386 0.15666 13.629 13.509 13.666 0.24346 20 12 2 0 0 0 0.73203 1 5824 5824 3.2813 0 1 179110 + 19462 11780 12445 12476 22190 22190 -0.009021478713066244 MHLSELVN 8 Unmodified _MHLSELVN_ 0 0 0 REV__ENSG00000129173|ENST00000250024|E2F8 REV__ENSG00000129173|ENST00000250024|E2F8 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 314.828627 941.464052 2.0034 0.00063073 0.34574 0.00010885 2.3491 0.00073958 314.82861752517283 13.386 0.15666 13.629 13.509 13.666 0.24346 -0.014326 -0.00026883 NaN 3.2813 20 12 2 NaN NaN NaN NaN 0 NaN NaN 0 179110 + 19463 11780 12445 12476 -0.009021478713066244 MHLSELVN 8 Unmodified _MHLSELVN_ 0 0 0 REV__ENSG00000129173|ENST00000250024|E2F8 REV__ENSG00000129173|ENST00000250024|E2F8 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 314.828627 941.464052 1.803 0.00056764 0.63843 0.000201 2.4414 0.00076863 314.8287948131436 13.399 0.24023 13.706 13.536 13.776 0.30727 0.063028 7.6149E-06 NaN 3.2813 31 19 2 NaN NaN NaN NaN 0 NaN NaN 0 133310 + 19464 11780 12445 12476 -0.009021478713066244 MHLSELVN 8 Unmodified _MHLSELVN_ 0 0 0 REV__ENSG00000129173|ENST00000250024|E2F8 REV__ENSG00000129173|ENST00000250024|E2F8 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 314.828627 941.464052 2.3429 0.0007376 1.1289 0.00035541 3.4718 0.001093 314.82891025148575 12.952 0.19316 13.595 13.48 13.673 0.64272 -0.048702 0.00047087 NaN 3.2813 9 5 2 NaN NaN NaN NaN 0 NaN NaN 0 365210 + 19465 11780 12445 12476 -0.009021478713066244 MHQGHLLQL 9 Unmodified _MHQGHLLQL_ 0 0 0 REV__ENSG00000142632|ENST00000270747|ARHGEF19 REV__ENSG00000142632|ENST00000270747|ARHGEF19 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.6559448242188 2 538.787118 1075.55968 NaN NaN NaN NaN NaN NaN NaN 69.549 1 69.804 69.304 70.304 0.25443 0 0 0 0.26328 1 31849 31849 28.487 4.4663 1 + 19466 12339 12446 12477 22191 22191 0.02492625039599261 MHVLVLRRRKR 11 Unmodified _MHVLVLRRRKR_ 0 0 0 ENST00000496567.5_1_9:97782205-97782394:+|nuORF ENST00000496567.5_1_9:97782205-97782394:+|nuORF ENST00000496567.5_1_9:97782205-97782394:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 732.3839721679688 2 732.464439 1462.91432 NaN NaN NaN NaN NaN NaN NaN 44.542 1 44.542 44.042 45.042 0 0 0 0 1.0082 1 20359 20359 0 0 1 19467 8446 12447 12478 22192 22192 0.20138348912382753 MICDTDPEL 9 Carbamidomethyl (C) _MIC(Carbamidomethyl (C))DTDPEL_ MIC(1)DTDPEL MIC(51)DTDPEL 0 1 0 nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000100796|Q6IN85-2|PPP4R3A;ENSG00000100796|ENST00000554943|PPP4R3A;nc|ENSG00000100796|Q6IN85-4|PPP4R3A;nc|ENSG00000224960|Q6ZMV5-2|PPP4R3C;ENSG00000224960|ENST00000412172|PPP4R3C;nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B;ENSG00000275052|ENST00000616407|PPP4R3B;nc|ENSG00000275052|Q5MIZ7-3|PPP4R3B nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.7896728515625 2 547.23065 1092.44675 3.8097 0.0020848 0.039259 2.1484E-05 3.849 0.0021063 547.2307918689065 51.464 0.33716 51.464 51.287 51.624 0 41 17 3 0 0 0 0.0096869 1 23568 23568 50.855 35.008 1 894630 19468 6345;1241 12448 12479 22193 22193 28 -0.0957785625928409 MICDTDPEL 9 Carbamidomethyl (C) _MIC(Carbamidomethyl (C))DTDPEL_ MIC(1)DTDPEL MIC(51)DTDPEL 0 1 0 nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000100796|Q6IN85-2|PPP4R3A;ENSG00000100796|ENST00000554943|PPP4R3A;nc|ENSG00000100796|Q6IN85-4|PPP4R3A;nc|ENSG00000224960|Q6ZMV5-2|PPP4R3C;ENSG00000224960|ENST00000412172|PPP4R3C;nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B;ENSG00000275052|ENST00000616407|PPP4R3B;nc|ENSG00000275052|Q5MIZ7-3|PPP4R3B nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.78955078125 2 547.23065 1092.44675 3.4148 0.0018687 -0.22005 -0.00012042 3.1948 0.0017483 547.2308534679834 51.347 0.2185 51.61 51.47 51.688 0.26228 20 9 3 0 0 0 0.0096869 1 23443 23443 50.855 29.108 1 1639500 19469 6345;1241 12448 12479 22194 22194 28 -0.0957785625928409 MICDTDPEL 9 Carbamidomethyl (C) _MIC(Carbamidomethyl (C))DTDPEL_ MIC(1)DTDPEL MIC(78)DTDPEL 0 1 0 nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000100796|Q6IN85-2|PPP4R3A;ENSG00000100796|ENST00000554943|PPP4R3A;nc|ENSG00000100796|Q6IN85-4|PPP4R3A;nc|ENSG00000224960|Q6ZMV5-2|PPP4R3C;ENSG00000224960|ENST00000412172|PPP4R3C;nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B;ENSG00000275052|ENST00000616407|PPP4R3B;nc|ENSG00000275052|Q5MIZ7-3|PPP4R3B nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.2325439453125 2 547.23065 1092.44675 3.3881 0.0018541 0.2807 0.00015361 3.6688 0.0020077 547.2308116762671 50.752 0.28456 51.411 51.253 51.538 0.65956 28 15 2 0 0 0 0.012869 1 23230 23230 77.984 35.89 1 1475300 19470 6345;1241 12448 12479 22195 22195 28 -0.0957785625928409 MIEYLSSYV 9 Unmodified _MIEYLSSYV_ 0 0 0 REV__ENST00000267859.7_1_15:59955189-59955258:-|nuORF REV__ENST00000267859.7_1_15:59955189-59955258:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 368.8487854003906 3 368.847576 1103.5209 2.7858 0.0010275 0.85393 0.00031497 3.6397 0.0013425 368.8481234709779 41.218 0.32439 41.862 41.702 42.026 0.64451 70 19 5 0 0 0 0.29781 1 18913 18913 11.495 0 1 104510000 + 19471 15044 12449 12480 22196 22196 -0.026721451054299905 MIHGIEPML 9 Unmodified _MIHGIEPML_ 0 0 0 nc|ENSG00000057663|Q9H1Y0-2|ATG5;ENSG00000057663|ENST00000369076|ATG5 nc|ENSG00000057663|Q9H1Y0-2|ATG5 nc|ENSG00000057663|Q9H1Y0-2|ATG5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.7688598632812 2 520.767006 1039.51946 3.4033 0.0017723 -0.80885 -0.00042122 2.5945 0.0013511 520.7667662254793 61.315 0.27272 61.567 61.403 61.676 0.25245 31 13 3 0 0 0 0.050606 2 28064 28064;28122 46.921 27.482 1 705530 19472 624 12450 12481 22197;22198 22197 0.0012794232482065127 MIHGIEPML 9 Unmodified _MIHGIEPML_ 0 0 0 nc|ENSG00000057663|Q9H1Y0-2|ATG5;ENSG00000057663|ENST00000369076|ATG5 nc|ENSG00000057663|Q9H1Y0-2|ATG5 nc|ENSG00000057663|Q9H1Y0-2|ATG5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.7689819335938 2 520.767006 1039.51946 3.3617 0.0017507 0.021691 1.1296E-05 3.3834 0.001762 520.7672855886647 60.663 0.24799 61.325 61.17 61.418 0.66261 23 12 2 0 0 0 0.029028 1 27770 27770 56.541 41.96 1 791690 19473 624 12450 12481 22199 22199 0.0012794232482065127 MIHRFWYNYRQ 11 Unmodified _MIHRFWYNYRQ_ 0 0 0 nc|ENSG00000171509|Q9HBX9-5|RXFP1;nc|ENSG00000171509|Q9HBX9-4|RXFP1;nc|ENSG00000171509|Q9HBX9-2|RXFP1;ENSG00000171509|ENST00000307765|RXFP1 nc|ENSG00000171509|Q9HBX9-5|RXFP1 nc|ENSG00000171509|Q9HBX9-5|RXFP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 807.7924194335938 2 807.393345 1612.77214 NaN NaN NaN NaN NaN NaN NaN 17.794 1 17.994 17.494 18.494 0.20057 0 0 0 1.0072 1 7886 7886 1.3295 0 1 19474 4810 12451 12482 22200 22200 -0.009739086204263003 MIIVAFALI 9 Unmodified _MIIVAFALI_ 0 0 0 nc|ENSG00000197822|Q16625-4|OCLN;nc|ENSG00000197822|Q16625-3|OCLN;ENSG00000197822|ENST00000396442|OCLN nc|ENSG00000197822|Q16625-4|OCLN nc|ENSG00000197822|Q16625-4|OCLN MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.83392333984375 2 495.806457 989.598361 3.2889 0.0016307 0.59337 0.0002942 3.8823 0.0019249 495.8067293909325 85.122 0.67136 85.37 85.23 85.901 0.24758 70 38 2 0 0 0 0.10908 1 39384 39384 5.2307 0 1 735560 19475 5843 12452 12483 22201 22201 0.10314537621388808 MIIVAFALI 9 Unmodified _MIIVAFALI_ 0 0 0 nc|ENSG00000197822|Q16625-4|OCLN;nc|ENSG00000197822|Q16625-3|OCLN;ENSG00000197822|ENST00000396442|OCLN nc|ENSG00000197822|Q16625-4|OCLN nc|ENSG00000197822|Q16625-4|OCLN MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 495.806457 989.598361 3.3507 0.0016613 0.61325 0.00030405 3.964 0.0019654 495.8066718820362 84.801 0.71986 85.466 85.257 85.977 0.66566 0.048124 1.4416E-05 NaN 5.2307 70 36 3 NaN NaN NaN NaN 0 NaN NaN 0 694480 19476 5843 12452 12483 0.10314537621388808 MIKKKKRRKMK 11 Unmodified _MIKKKKRRKMK_ 0 0 0 EZH2|p.T386Lfs*44|1|0.06|ENSG00000106462|chr7:148817946-148817947|-/ATAAAGACCAGAGTTATCTCAAGAATGTGTAG|frameshift_variant;ENST00000492143.5_1_7:148514953-148515082:-|nuORF;ENST00000460911.5_1_7:148514453-148515082:-|nuORF EZH2|p.T386Lfs*44|1|0.06|ENSG00000106462|chr7:148817946-148817947|-/ATAAAGACCAGAGTTATCTCAAGAATGTGTAG|frameshift_variant EZH2|p.T386Lfs*44|1|0.06|ENSG00000106462|chr7:148817946-148817947|-/ATAAAGACCAGAGTTATCTCAAGAATGTGTAG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 737.8914794921875 2 737.981075 1473.9476 NaN NaN NaN NaN NaN NaN NaN 85.443 1 85.443 84.943 85.943 0 0 0 0 1.0082 1 43509 43509 0 0 1 19477 9356 12453 12484 22202 22202 0.2295821464006167 MIKWVVYFL 9 Unmodified _MIKWVVYFL_ 0 0 0 REV__nc|ENSG00000140455|Q9Y6I4-2|USP3 REV__nc|ENSG00000140455|Q9Y6I4-2|USP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 599.8409423828125 2 599.838288 1197.66202 NaN NaN NaN NaN NaN NaN NaN 90.804 1 91.477 90.977 91.977 0.67271 0 0 0 0.89509 1 41793 41793 4.756 0.42677 1 + 19478 12249 12454 12485 22203 22203 0.07109898058479303 MILNKALM 8 Unmodified _MILNKALM_ 0 0 0 nc|ENSG00000237541|P01909|HLA-DQA1 nc|ENSG00000237541|P01909|HLA-DQA1 nc|ENSG00000237541|P01909|HLA-DQA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.2687683105469 2 467.266642 932.51873 NaN NaN NaN NaN NaN NaN NaN 52.44 1 53.101 52.601 53.601 0.66198 0 0 0 0.75172 1 23975 23975 20.871 0 1 19479 9842 12455 12486 22204 22204 0.04977147675754168 MILPLPLRKP 10 Unmodified _MILPLPLRKP_ 0 0 0 nc|ENSG00000152076|Q96LY2|CCDC74B;ENST00000496704.1_1_2:130897130-130898075:-|nuORF;ENSG00000163040|ENST00000409856|CCDC74A;ENSG00000152076|ENST00000409943|CCDC74B;nc|ENSG00000163040|Q96AQ1|CCDC74A nc|ENSG00000152076|Q96LY2|CCDC74B nc|ENSG00000152076|Q96LY2|CCDC74B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.255126953125 3 393.2545 1176.74167 2.9969 0.0011786 -1.4587 -0.00057364 1.5382 0.00060492 393.25389997200205 44.029 0.18228 44.678 44.541 44.723 0.64872 8 6 2 0 0 0 0.94217 1 20190 20190 0.15932 0 1 1233300 19480 9692 12456 12487 22205 22205 0.16036964732484194 MILTKQGRRM 10 Unmodified _MILTKQGRRM_ 0 0 0 MGA|p.L263*|1|0.27|ENSG00000174197|chr15:41669678-41669678|G/-|frameshift_variant;MGA|p.A602Vfs*3|1|0.13|ENSG00000174197|chr15:41696814-41696815|-/TTTT|frameshift_variant;MGA|p.Q992Rfs*2|1|0.24|ENSG00000174197|chr15:41711239-41711239|C/-|frameshift_variant;MGA|p.L1186Cfs*13|1|0.1|ENSG00000174197|chr15:41727305-41727305|T/-|frameshift_variant;MGA|p.R2396Qfs*8|1|0.14|ENSG00000174197|chr15:41757835-41757835|G/-|frameshift_variant;nc|ENSG00000174197|Q8IWI9-3|MGA;nc|ENSG00000174197|Q8IWI9|MGA;ENSG00000174197|ENST00000703841|MGA MGA|p.L263*|1|0.27|ENSG00000174197|chr15:41669678-41669678|G/-|frameshift_variant MGA|p.L263*|1|0.27|ENSG00000174197|chr15:41669678-41669678|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 617.3504638671875 2 617.34956 1232.68457 NaN NaN NaN NaN NaN NaN NaN 59.107 1 59.866 59.366 60.366 0.75894 0 0 0 0.99464 1 27165 27165 6.2058 0 1 19481 4965 12457 12488 22206 22206 0.07753174184449563 MIQKLFVVDHV 11 Unmodified _MIQKLFVVDHV_ 0 0 0 ENSG00000090686|ENST00000308271|USP48;nc|ENSG00000090686|Q86UV5-8|USP48;nc|ENSG00000090686|Q86UV5-2|USP48;nc|ENSG00000090686|Q86UV5-5|USP48;ENST00000464577.1_1_1:22028060-22030944:-|nuORF ENSG00000090686|ENST00000308271|USP48 ENSG00000090686|ENST00000308271|USP48 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 664.87646484375 2 664.873391 1327.73223 NaN NaN NaN NaN NaN NaN NaN 54.899 1 55.695 55.195 56.195 0.79552 0 0 0 0.97845 1 25055 25055 8.7454 0.58988 1 19482 1066 12458 12489 22207 22207 0.08147151656294227 MIQLHVILL 9 Unmodified _MIQLHVILL_ 0 0 0 ENST00000540271.1_1_12:10467413-10467494:+|nuORF ENST00000540271.1_1_12:10467413-10467494:+|nuORF ENST00000540271.1_1_12:10467413-10467494:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.5588989257812 2 540.335913 1078.65727 NaN NaN NaN NaN NaN NaN NaN 57.151 1 57.92 57.42 58.42 0.76861 0 0 0 0.89683 1 26151 26151 4.3292 2.2695 1 19483 8801 12459 12490 22208 22208 0.1210901391571042 MISGQQRIM 9 Unmodified _MISGQQRIM_ 0 0 0 REV__ENST00000489437.1_1_3:50148162-50148207:+|nuORF REV__ENST00000489437.1_1_3:50148162-50148207:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.1839599609375 2 532.272986 1062.53142 NaN NaN NaN NaN NaN NaN NaN 54.929 1 54.929 54.429 55.429 0 0 0 0 0.89509 1 25219 25219 4.756 0 1 + 19484 16346 12460 12491 22209 22209 0.0026555906797511852 MISPLTFSS 9 Unmodified _MISPLTFSS_ 0 0 0 REV__ENST00000558530.1_1_20:35238119-35240623:+|nuORF REV__ENST00000558530.1_1_20:35238119-35240623:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.75079345703125 2 491.749336 981.484119 3.1593 0.0015536 -0.58582 -0.00028808 2.5735 0.0012655 491.7490819818183 83.957 0.33012 84.204 84.062 84.392 0.24722 26 18 2 0 0 0 0.54955 1 38638 38638 11.64 0 1 546010 + 19485 17346 12461 12492 22210 22210 -0.007363969313701091 MISPLTFSS 9 Unmodified _MISPLTFSS_ 0 0 0 REV__ENST00000558530.1_1_20:35238119-35240623:+|nuORF REV__ENST00000558530.1_1_20:35238119-35240623:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 491.749336 981.484119 3.1593 0.0015536 -0.58582 -0.00028808 2.5735 0.0012655 491.7490819818183 83.957 0.33012 84.204 84.062 84.392 0.24722 0.021513 -0.00021426 NaN 11.64 26 18 2 NaN NaN NaN NaN 0 NaN NaN 0 546010 + 19486 17346 12461 12492 -0.007363969313701091 MISPLTFSS 9 Unmodified _MISPLTFSS_ 0 0 0 REV__ENST00000558530.1_1_20:35238119-35240623:+|nuORF REV__ENST00000558530.1_1_20:35238119-35240623:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 491.749336 981.484119 3.3371 0.001641 -0.027526 -1.3536E-05 3.3095 0.0016275 491.7492951561564 83.499 0.27337 84.161 84.038 84.312 0.66219 -0.021513 0.00033482 NaN 11.64 28 16 2 NaN NaN NaN NaN 0 NaN NaN 0 446150 + 19487 17346 12461 12492 -0.007363969313701091 MITDLEERL 9 Unmodified _MITDLEERL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.2915649414062 2 560.289356 1118.56416 3.4772 0.0019482 0.61934 0.00034701 4.0966 0.0022953 560.2896944244783 57.834 0.30322 57.834 57.716 58.019 0 77 27 4 0 0 0 0.0076144 2 26692 26637;26692 86.332 31.848 1 6720600 19488 1207 12462 12493 22211;22212 22212 0.009620446718372477 MITDLEERL 9 Unmodified _MITDLEERL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.2904663085938 2 560.289356 1118.56416 3.0775 0.0017243 0.056465 3.1637E-05 3.1339 0.0017559 560.2894730241023 56.896 0.28465 57.674 57.537 57.822 0.77786 66 28 3 0 0 0 0.0024283 2 26055 25994;26055 99.755 34.52 1 6043000 19489 1207 12462 12493 22213;22214 22214 0.009620446718372477 MITDLEERL 9 Unmodified _MITDLEERL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.291015625 2 560.289356 1118.56416 3.61 0.0020226 -0.076933 -4.3105E-05 3.533 0.0019795 560.2893718940821 57.037 0.34513 57.705 57.521 57.866 0.66829 51 15 4 0 0 0 1.3294E-08 2 26066 26066;26108 152.89 66.554 1 8228200 19490 1207 12462 12493 22215;22216 22215 0.009620446718372477 MITDLEERL 9 Unmodified _MITDLEERL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 560.289356 1118.56416 3.5206 0.0019725 -0.38905 -0.00021798 3.1315 0.0017545 560.2892886596433 57.554 0.31485 57.818 57.71 58.025 0.26444 0.060574 -0.00044349 NaN 152.89 61 19 4 NaN NaN NaN NaN 0 NaN NaN 0 6678400 19491 1207 12462 12493 0.009620446718372477 MITDLEERL 9 Oxidation (M) _M(Oxidation (M))ITDLEERL_ M(1)ITDLEERL M(46)ITDLEERL 0 0 1 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.2884521484375 2 568.286814 1134.55907 3.5233 0.0020023 0.75452 0.00042878 4.2778 0.002431 568.2869275509296 50.272 0.17601 51.095 50.989 51.165 0.82285 14 9 2 0 0 0 0.053359 1 22897 22897 45.74 18.517 1 387130 19492 1207 12462 12494 22217 22217 8 -0.002822591907943206 MITDLEERL 9 Oxidation (M) _M(Oxidation (M))ITDLEERL_ 0 0 1 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 568.286814 1134.55907 3.6597 0.0020798 1.9022 0.001081 5.562 0.0031608 568.288053851375 51.13 0.19896 51.13 51.031 51.23 0 0.029148 0.00031278 NaN 45.74 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 430850 19493 1207 12462 12494 8 -0.002822591907943206 MITDLEERL 9 Oxidation (M) _M(Oxidation (M))ITDLEERL_ 0 0 1 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 568.286814 1134.55907 3.3946 0.0019291 1.542 0.00087631 4.9366 0.0028054 568.2882147193862 51.11 0.18974 51.371 51.279 51.469 0.26146 0.27009 -9.6641E-05 NaN 45.74 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 872820 19494 1207 12462 12494 8 -0.002822591907943206 MITDLEERL 9 Oxidation (M) _M(Oxidation (M))ITDLEERL_ 0 0 1 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 568.286814 1134.55907 3.5499 0.0020174 3.5219 0.0020014 7.0718 0.0040188 568.2894074441558 50.151 0.30077 50.808 50.642 50.943 0.65735 -0.29295 0.0021536 NaN 45.74 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 431160 19495 1207 12462 12494 8 -0.002822591907943206 MITVFKIKLKT 11 Unmodified _MITVFKIKLKT_ 0 0 0 Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|35|2|sense Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|35|2|sense Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|35|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.212158203125 4 331.212355 1320.82032 1.6336 0.00054106 -1.0874 -0.00036016 0.54617 0.0001809 331.4627882781207 71.518 0.41689 71.518 71.233 71.65 0 104 41 3 0 0 0 0.91391 1 34710 34710 0.08335 0 1 2651400 19496 9390 12463 12495 22218 22218 0.1727377224688098 MITVFKIKLKT 11 Unmodified _MITVFKIKLKT_ 0 0 0 Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|35|2|sense Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|35|2|sense Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|35|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.2122802734375 4 331.212355 1320.82032 1.7724 0.00058703 -1.002 -0.00033189 0.77034 0.00025515 331.21187995197516 70.703 0.30248 71.365 71.217 71.52 0.66209 67 18 4 0 0 0 0.91068 1 32468 32468 0.45452 0.45452 1 4027600 19497 9390 12463 12495 22219 22219 0.1727377224688098 MITVFKIKLKT 11 Unmodified _MITVFKIKLKT_ 0 0 0 Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|35|2|sense Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|35|2|sense Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|35|2|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 331.212355 1320.82032 1.6362 0.00054193 -1.2557 -0.00041591 0.38048 0.00012602 331.21174596698336 71.821 0.36086 71.821 71.607 71.967 0 0.16897 3.2285E-05 NaN 0.45452 84 34 3 NaN NaN NaN NaN 0 NaN NaN 0 2511300 19498 9390 12463 12495 0.1727377224688098 MITVFKIKLKT 11 Unmodified _MITVFKIKLKT_ 0 0 0 Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|35|2|sense Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|35|2|sense Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|35|2|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 331.212355 1320.82032 1.7714 0.00058672 -1.3966 -0.00046258 0.37481 0.00012414 331.2117763986922 71.163 0.21657 71.867 71.767 71.984 0.70386 0.21492 -0.00015439 NaN 0.45452 48 26 3 NaN NaN NaN NaN 0 NaN NaN 0 2851600 19499 9390 12463 12495 0.1727377224688098 MITVFKIKLKT 11 Unmodified _MITVFKIKLKT_ 0 0 0 Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|35|2|sense Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|35|2|sense Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|35|2|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 331.212355 1320.82032 2.1619 0.00071604 -1.462 -0.00048424 0.69984 0.0002318 331.2117527262189 71.296 0.41906 71.554 71.398 71.817 0.25786 -0.097767 -0.00024103 NaN 0.45452 94 33 4 NaN NaN NaN NaN 0 NaN NaN 0 3667400 19500 9390 12463 12495 0.1727377224688098 MIWVCRMEF 9 Unmodified _MIWVCRMEF_ 0 0 0 ENST00000578327.1_3_18:5293292-5294813:-|nuORF ENST00000578327.1_3_18:5293292-5294813:-|nuORF ENST00000578327.1_3_18:5293292-5294813:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.5376892089844 3 405.522152 1213.54463 NaN NaN NaN NaN NaN NaN NaN 39.7 1 39.967 39.467 40.467 0.26696 0 0 0 0.84134 1 18062 18062 4.897 0 1 19501 9135 12464 12496 22220 22220 -0.05360326144295868 MIYRKALRL 9 Unmodified _MIYRKALRL_ 0 0 0 nc|ENSG00000125257|O15439-3|ABCC4;nc|ENSG00000125257|O15439-2|ABCC4;ENSG00000125257|ENST00000645237|ABCC4 nc|ENSG00000125257|O15439-3|ABCC4 nc|ENSG00000125257|O15439-3|ABCC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 388.9094543457031 3 388.574233 1162.70087 2.9924 0.0011628 -0.41474 -0.00016116 2.5777 0.0010016 388.57408201607586 29.325 0.25344 29.585 29.45 29.704 0.2602 34 16 3 0 0 0 0.22507 2 13357 13307;13357 20.415 10.264 1 438600 19502 2392 12465 12497 22221;22222 22222 0.12602623412863068 MIYRKALRL 9 Unmodified _MIYRKALRL_ 0 0 0 nc|ENSG00000125257|O15439-3|ABCC4;nc|ENSG00000125257|O15439-2|ABCC4;ENSG00000125257|ENST00000645237|ABCC4 nc|ENSG00000125257|O15439-3|ABCC4 nc|ENSG00000125257|O15439-3|ABCC4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 388.574233 1162.70087 2.7937 0.0010856 0.45371 0.0001763 3.2474 0.0012619 388.5742429398342 29.068 0.19713 29.686 29.579 29.776 0.61789 0.050616 0.00077062 NaN 20.415 21 13 2 NaN NaN NaN NaN 0 NaN NaN 0 729980 19503 2392 12465 12497 0.12602623412863068 MIYVLYFEFWF 11 Unmodified _MIYVLYFEFWF_ 0 0 0 nc|ENSG00000156096|P06133-3|UGT2B4;nc|ENSG00000156096|P06133-2|UGT2B4;ENSG00000156096|ENST00000305107|UGT2B4 nc|ENSG00000156096|P06133-3|UGT2B4 nc|ENSG00000156096|P06133-3|UGT2B4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 779.779541015625 2 779.377974 1556.7414 NaN NaN NaN NaN NaN NaN NaN 26.811 1 27.076 26.576 27.576 0.26489 0 0 0 1.008 1 12183 12183 0.35063 0.043601 1 19504 3894 12466 12498 22223 22223 -0.01470499778042722 MKAAFILVRH 10 Unmodified _MKAAFILVRH_ 0 0 0 REV__ENST00000403716.5_1_2:131906479-131906620:+|nuORF REV__ENST00000403716.5_1_2:131906479-131906620:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 396.23828125 3 395.902349 1184.68522 3.0715 0.001216 -0.5375 -0.0002128 2.534 0.0010032 395.90235159795276 92.69 0.23927 93.337 93.223 93.462 0.64715 26 13 3 0 0 0 0.93713 1 42659 42659 0.62683 0 1 301550 + 19505 16056 12467 12499 22224 22224 0.10026336895816712 MKAFILDGPKF 11 Unmodified _MKAFILDGPKF_ 0 0 0 REV__ENST00000484265.1_1_9:15506557-15510916:-|nuORF REV__ENST00000484265.1_1_9:15506557-15510916:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.5704040527344 3 422.902015 1265.68422 NaN NaN NaN NaN NaN NaN NaN 34.016 1 34.016 33.516 34.516 0 0 0 0 0.97845 1 15416 15416 4.4062 2.1534 1 + 19506 13126 12468 12500 22225 22225 0.062000777362527515 MKAFILDGPKF 11 Unmodified _MKAFILDGPKF_ 0 0 0 REV__ENST00000484265.1_1_9:15506557-15510916:-|nuORF REV__ENST00000484265.1_1_9:15506557-15510916:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.9055480957031 3 422.902015 1265.68422 NaN NaN NaN NaN NaN NaN NaN 33.234 1 34.022 33.522 34.522 0.78795 0 0 0 0.97845 1 15038 15038 4.4062 1.0865 1 + 19507 13126 12468 12500 22226 22226 0.062000777362527515 MKDIKFGCDI 10 Unmodified _MKDIKFGCDI_ 0 0 0 ENST00000461436.1_1_3:152019736-152019862:+|nuORF ENST00000461436.1_1_3:152019736-152019862:+|nuORF ENST00000461436.1_1_3:152019736-152019862:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.52947998046875 3 390.52796 1168.56205 3.009 0.0011751 0.60487 0.00023622 3.6139 0.0014113 390.5282087374419 19.864 0.41904 20.523 20.329 20.748 0.6583 120 35 4 0 0 0 0.78028 1 9091 9091 8.4443 3.5473 1 2714000 19508 8085 12469 12501 22227 22227 -0.015487073376334592 MKEIRKPGRK 10 Unmodified _MKEIRKPGRK_ 0 0 0 ENSG00000102786|ENST00000311234|INTS6;nc|ENSG00000102786|Q9UL03-3|INTS6 ENSG00000102786|ENST00000311234|INTS6 ENSG00000102786|ENST00000311234|INTS6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 414.5871887207031 3 414.920291 1241.73905 2.7794 0.0011532 -0.6505 -0.0002699 2.1289 0.00088333 415.25402241417027 48.349 0.61387 48.349 48.139 48.753 0 45 37 2 0 0 0 0.12676 1 22128 22128 0.69767 0.07084 1 654450 19509 1354 12470 12502 22228 22228 0.12784509327525484 MKEKLQKI 8 Unmodified _MKEKLQKI_ 0 0 0 REV__ENST00000415772.5_1_7:72302228-72304559:+|nuORF REV__ENST00000415772.5_1_7:72302228-72304559:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.8771667480469 3 339.875689 1016.60524 2.044 0.0006947 0.61704 0.00020972 2.661 0.00090442 339.8760241832061 13.576 0.12052 13.883 13.806 13.927 0.30727 16 10 2 0 0 0 0.67495 1 6124 6124 5.7319 0 1 286790 + 19510 11713 12471 12503 22229 22229 0.09759850501961864 MKEQMVFEK 9 Unmodified _MKEQMVFEK_ 0 0 0 ENSG00000005243|ENST00000621465|COPZ2 ENSG00000005243|ENST00000621465|COPZ2 ENSG00000005243|ENST00000621465|COPZ2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.5295104980469 3 390.52796 1168.56205 3.009 0.0011751 0.60487 0.00023622 3.6139 0.0014113 390.5282087374419 19.864 0.41904 20.523 20.329 20.748 0.6583 120 35 4 0 0 0 0.68285 1 8959 8959 6.1918 0 1 2714000 19511 325 12472 12504 22230 22230 -0.015487073376334592 MKHLKLALLV 10 Unmodified _MKHLKLALLV_ 0 0 0 REV__ENSG00000119922|ENST00000371826|IFIT2 REV__ENSG00000119922|ENST00000371826|IFIT2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.2552490234375 3 389.2545 1164.74167 2.9402 0.0011445 -1.3746 -0.00053507 1.5656 0.00060941 389.25392289511916 39.922 0.50568 40.189 39.723 40.228 0.26696 29 17 2 0 0 0 0.12676 1 17953 17953 0.15932 0.15932 1 586350 + 19512 11521 12473 12505 22231 22231 0.1658896473245477 MKIKFLKKK 9 Unmodified _MKIKFLKKK_ 0 0 0 REV__L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|15|1|sense REV__L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|15|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 388.5956726074219 3 388.594745 1162.76241 2.8313 0.0011002 -1.1764 -0.00045715 1.6548 0.00064306 388.5943358062107 60.316 0.21579 60.981 60.874 61.09 0.66503 18 10 2 0 0 0 1.2459 1 27599 27599 0 0 1 469570 + 19513 17780 12474 12506 22232 22232 0.18753555112130016 MKIKHILLLG 10 Unmodified _MKIKHILLLG_ 0 0 0 ENST00000397033.6_1_2:182386922-182386958:+|nuORF ENST00000397033.6_1_2:182386922-182386958:+|nuORF ENST00000397033.6_1_2:182386922-182386958:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 583.3790283203125 2 583.378112 1164.74167 3.2122 0.0018739 -1.086 -0.00063353 2.1262 0.0012404 583.3772530585713 38.25 0.080536 39.046 39.006 39.087 0.79552 4 2 2 0 0 0 0.94099 1 17341 17341 0.40072 0.40072 1 775900 19514 7575 12475 12507 22233 22233 0.16588964732477507 MKIKHILLLG 10 Unmodified _MKIKHILLLG_ 0 0 0 ENST00000397033.6_1_2:182386922-182386958:+|nuORF ENST00000397033.6_1_2:182386922-182386958:+|nuORF ENST00000397033.6_1_2:182386922-182386958:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.3787841796875 2 583.378112 1164.74167 3.6955 0.0021558 -1.5673 -0.0009143 2.1282 0.0012415 583.3772319578775 41.477 0.18092 41.747 41.661 41.842 0.27021 23 14 2 0 0 0 0.93503 1 18937 18937 0.40072 0 1 1989900 19515 7575 12475 12507 22234 22234 0.16588964732477507 MKIKHILLLG 10 Unmodified _MKIKHILLLG_ 0 0 0 ENST00000397033.6_1_2:182386922-182386958:+|nuORF ENST00000397033.6_1_2:182386922-182386958:+|nuORF ENST00000397033.6_1_2:182386922-182386958:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.3794555664062 2 583.378112 1164.74167 3.398 0.0019823 -0.99076 -0.00057799 2.4073 0.0014043 583.3773821700743 38.08 0.44246 38.714 38.553 38.995 0.63388 37 18 3 0 0 0 0.94134 1 17408 17408 1.4819 1.4819 1 10813000 19516 7575 12475 12507 22235 22235 0.16588964732477507 MKIKHILLLG 10 Unmodified _MKIKHILLLG_ 0 0 0 ENST00000397033.6_1_2:182386922-182386958:+|nuORF ENST00000397033.6_1_2:182386922-182386958:+|nuORF ENST00000397033.6_1_2:182386922-182386958:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 583.378112 1164.74167 3.5995 0.0020999 -1.4289 -0.00083361 2.1706 0.0012663 583.3771188286784 39.18 0.41607 39.18 38.989 39.405 0 -0.031862 -0.00018403 NaN 0.40072 53 15 4 NaN NaN NaN NaN 0 NaN NaN 0 11643000 19517 7575 12475 12507 0.16588964732477507 MKIKHILLLG 10 Unmodified _MKIKHILLLG_ 0 0 0 ENST00000397033.6_1_2:182386922-182386958:+|nuORF ENST00000397033.6_1_2:182386922-182386958:+|nuORF ENST00000397033.6_1_2:182386922-182386958:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 583.378112 1164.74167 3.3214 0.0019376 -1.2057 -0.00070337 2.1157 0.0012343 583.3772999786797 39.003 0.60098 39.267 38.974 39.575 0.26408 0.054932 7.6443E-05 NaN 0.40072 80 23 4 NaN NaN NaN NaN 0 NaN NaN 0 13311000 19518 7575 12475 12507 0.16588964732477507 MKIKHILLLG 10 Unmodified _MKIKHILLLG_ 0 0 0 ENST00000397033.6_1_2:182386922-182386958:+|nuORF ENST00000397033.6_1_2:182386922-182386958:+|nuORF ENST00000397033.6_1_2:182386922-182386958:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 583.378112 1164.74167 3.5111 0.0020483 -1.2281 -0.00071646 2.283 0.0013318 583.3772055821696 38.718 0.55652 39.355 38.877 39.434 0.63778 0.14332 5.0269E-05 NaN 0.40072 49 20 4 NaN NaN NaN NaN 0 NaN NaN 0 2937100 19519 7575 12475 12507 0.16588964732477507 MKKGKKVS 8 Unmodified _MKKGKKVS_ 0 0 0 nc|ENSG00000142949|P10586-2|PTPRF;ENSG00000142949|ENST00000359947|PTPRF nc|ENSG00000142949|P10586-2|PTPRF nc|ENSG00000142949|P10586-2|PTPRF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 453.2873840332031 2 453.28368 904.552807 NaN NaN NaN NaN NaN NaN NaN 82.511 1 83.171 82.671 83.671 0.66019 0 0 0 0.99035 1 38016 38016 0.69038 0 1 19520 3336 12476 12508 22236 22236 0.09671312159014178 MKKKKIKKKK 10 Unmodified _MKKKKIKKKK_ 0 0 0 ENST00000530859.1_1_11:108029671-108040846:-|nuORF;ENSG00000149308|ENST00000278612|NPAT ENST00000530859.1_1_11:108029671-108040846:-|nuORF ENST00000530859.1_1_11:108029671-108040846:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.458984375 2 644.454685 1286.89482 NaN NaN NaN NaN NaN NaN NaN 105.27 1 105.27 104.77 105.77 0 0 0 0 1.002 1 57857 57857 0 0 1 19521 3639 12477 12509 22237 22237 0.2628457984894794 MKKKKKLA 8 Unmodified _MKKKKKLA_ 0 0 0 REV__nc|ENSG00000105825|P48307-2|TFPI2 REV__nc|ENSG00000105825|P48307-2|TFPI2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 974.7381591796875 1 974.654319 973.647042 3.0631 0.0029854 -0.42469 -0.00041393 2.6384 0.0025715 974.657244507156 82.032 0.027992 82.032 82.017 82.045 0 5 3 2 0 0 0 0.14355 1 40949 40949 0 0 1 10637000 + 19522 11056 12478 12510 22238 22238 0.15916450981148955 MKKKRKKKKNK 11 Unmodified _MKKKRKKKKNK_ 0 0 0 REV__L1MA4_dup3583|chr6:111280046-111281058:-|1.4875210951429825|0.0665886712262598|4.48|528.0|16|2|sense REV__L1MA4_dup3583|chr6:111280046-111281058:-|1.4875210951429825|0.0665886712262598|4.48|528.0|16|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 722.98486328125 2 722.984672 1443.95479 NaN NaN NaN NaN NaN NaN NaN 103.13 1 103.18 102.68 103.68 0.055092 0 0 0 1.0082 1 55939 55939 0 0 1 + 19523 17757 12479 12511 22239 22239 0.25057270512161267 MKKKRLLLR 9 Unmodified _MKKKRLLLR_ 0 0 0 ENSG00000123407|ENST00000243103|HOXC12 ENSG00000123407|ENST00000243103|HOXC12 ENSG00000123407|ENST00000243103|HOXC12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.0951538085938 2 593.402453 1184.79035 NaN NaN NaN NaN NaN NaN NaN 54.209 1 54.209 53.709 54.709 0 0 0 0 0.91238 1 24862 24862 0.52476 0 1 19524 2312 12480 12512 22240 22240 0.20534878092234976 MKKLNKFKRKK 11 Unmodified _MKKLNKFKRKK_ 0 0 0 L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 724.96875 2 724.965948 1447.91734 3.6405 0.0026393 0.35487 0.00025727 3.9954 0.0028965 724.965902900044 44.747 0.5895 45.014 44.666 45.255 0.26768 71 27 3 0 0 0 0.91459 1 20455 20455 0 0 1 2770900 19525 9479 12481 12513 22241 22241 0.2113017924655196 MKKLNKFKRKK 11 Unmodified _MKKLNKFKRKK_ 0 0 0 L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense L1PA7_dup4106|chr5:32799630-32801237:+|1.0120814117850971|0.2212924775537839|2.19|529.0|7|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 725.4703979492188 2 724.965948 1447.91734 3.683 0.00267 0.74058 0.0005369 4.4236 0.0032069 725.4678519751775 45.247 0.60162 45.515 45.172 45.774 0.26768 62 25 3 0 0 0 0.91459 1 20563 20563 0 0 1 2797400 19526 9479 12481 12513 22242 22242 0.2113017924655196 MKKMSYWSG 9 Unmodified _MKKMSYWSG_ 0 0 0 REV__CON__P02676 REV__CON__P02676 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 373.1780700683594 3 373.17715 1116.50962 NaN NaN NaN NaN NaN NaN NaN 104.09 1 104.69 104.19 105.19 0.59885 0 0 0 0.90611 1 48132 48132 1.0715 0 1 + + 19527 10077 12482 12514 22243 22243 -0.043972456805704496 MKKYRNLCQ 9 Unmodified _MKKYRNLCQ_ 0 0 0 REV__nc|ENSG00000110841|Q86W92-3|PPFIBP1 REV__nc|ENSG00000110841|Q86W92-3|PPFIBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 395.2085266113281 3 395.207333 1182.60017 2.6612 0.0010517 -0.01455 -5.7504E-06 2.6466 0.001046 395.2073671727455 57.729 0.25564 57.729 57.558 57.814 0 39 26 2 0 0 0 0.96953 1 26629 26629 4.5289 1.7937 1 901400 + 19528 17890 12483 12515 22244 22244 0.01617223367702536 MKKYRNLCQ 9 Unmodified _MKKYRNLCQ_ 0 0 0 REV__nc|ENSG00000110841|Q86W92-3|PPFIBP1 REV__nc|ENSG00000110841|Q86W92-3|PPFIBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 395.5428466796875 3 395.207333 1182.60017 2.3472 0.00092761 0.12771 5.0471E-05 2.4749 0.00097808 395.20729696576103 56.735 0.23566 57.513 57.35 57.586 0.77786 39 24 2 0 0 0 0.78763 1 25922 25922 7.609 0.50723 1 789570 + 19529 17890 12483 12515 22245 22245 0.01617223367702536 MKKYRNLCQ 9 Unmodified _MKKYRNLCQ_ 0 0 0 REV__nc|ENSG00000110841|Q86W92-3|PPFIBP1 REV__nc|ENSG00000110841|Q86W92-3|PPFIBP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 395.207333 1182.60017 2.3472 0.00092761 0.12771 5.0471E-05 2.4749 0.00097808 395.20729696576103 56.735 0.23566 57.513 57.35 57.586 0.77786 -0.10806 8.3418E-05 NaN 7.609 39 24 2 NaN NaN NaN NaN 0 NaN NaN 0 789570 + 19530 17890 12483 12515 0.01617223367702536 MKLLLKHLTL 10 Unmodified _MKLLLKHLTL_ 0 0 0 nc|ENSG00000109163|P30968-2|GNRHR;ENSG00000109163|ENST00000226413|GNRHR nc|ENSG00000109163|P30968-2|GNRHR nc|ENSG00000109163|P30968-2|GNRHR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.1997985839844 4 303.199248 1208.76789 2.3668 0.00071761 -1.0823 -0.00032816 1.2845 0.00038946 303.19879265034234 40.512 1.0089 40.781 40.073 41.082 0.26904 96 43 3 0 0 0 0.94165 1 18418 18418 0.56317 0.56317 1 3258600 19531 1670 12484 12516 22246 22246 0.17185233903956032 MKLLLKHLTL 10 Unmodified _MKLLLKHLTL_ 0 0 0 nc|ENSG00000109163|P30968-2|GNRHR;ENSG00000109163|ENST00000226413|GNRHR nc|ENSG00000109163|P30968-2|GNRHR nc|ENSG00000109163|P30968-2|GNRHR MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 303.199248 1208.76789 1.9328 0.00058603 -1.031 -0.00031259 0.90186 0.00027344 303.19878369755247 40.809 0.29134 40.809 40.628 40.919 0 0.026376 0.00033768 NaN 0.56317 38 15 4 NaN NaN NaN NaN 0 NaN NaN 0 2282900 19532 1670 12484 12516 0.17185233903956032 MKLLLKHLTL 10 Unmodified _MKLLLKHLTL_ 0 0 0 nc|ENSG00000109163|P30968-2|GNRHR;ENSG00000109163|ENST00000226413|GNRHR nc|ENSG00000109163|P30968-2|GNRHR nc|ENSG00000109163|P30968-2|GNRHR MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 303.199248 1208.76789 2.2349 0.00067761 -2.0394 -0.00061834 0.19548 5.9269E-05 303.44933401421474 40.041 0.26288 40.841 40.663 40.926 0.80014 0.058395 -0.00088532 NaN 0.56317 27 16 2 NaN NaN NaN NaN 0 NaN NaN 0 1607300 19533 1670 12484 12516 0.17185233903956032 MKLLLKHLTL 10 Unmodified _MKLLLKHLTL_ 0 0 0 nc|ENSG00000109163|P30968-2|GNRHR;ENSG00000109163|ENST00000226413|GNRHR nc|ENSG00000109163|P30968-2|GNRHR nc|ENSG00000109163|P30968-2|GNRHR MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 303.199248 1208.76789 2.3668 0.00071761 -1.0823 -0.00032816 1.2845 0.00038946 303.19879265034234 40.512 1.0089 40.781 40.073 41.082 0.26904 -0.0016155 0.00027541 NaN 0.56317 96 43 3 NaN NaN NaN NaN 0 NaN NaN 0 3258600 19534 1670 12484 12516 0.17185233903956032 MKLLLKHLTL 10 Unmodified _MKLLLKHLTL_ 0 0 0 nc|ENSG00000109163|P30968-2|GNRHR;ENSG00000109163|ENST00000226413|GNRHR nc|ENSG00000109163|P30968-2|GNRHR nc|ENSG00000109163|P30968-2|GNRHR MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 303.199248 1208.76789 2.3765 0.00072054 -1.3359 -0.00040504 1.0406 0.00031551 303.19882137360213 40.058 0.40277 40.7 40.471 40.874 0.64135 -0.083155 -3.2103E-05 NaN 0.56317 40 17 3 NaN NaN NaN NaN 0 NaN NaN 0 3235000 19535 1670 12484 12516 0.17185233903956032 MKLLPKILAH 10 Unmodified _MKLLPKILAH_ 0 0 0 nc|ENSG00000020577|Q9UPU9-2|SAMD4A;nc|ENSG00000020577|Q9UPU9-3|SAMD4A;ENSG00000020577|ENST00000554335|SAMD4A;ENST00000557013.1_1_14:55168817-55201659:+|nuORF;ENST00000555112.1_1_14:55034634-55169324:+|nuORF nc|ENSG00000020577|Q9UPU9-2|SAMD4A nc|ENSG00000020577|Q9UPU9-2|SAMD4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 388.9178466796875 3 388.582617 1162.72602 2.6121 0.001015 -1.0259 -0.00039863 1.5862 0.00061639 388.916841074032 52.208 0.39637 52.208 51.923 52.32 0 40 28 2 0 0 0 0.94134 1 23897 23897 0.62683 0.39098 1 655380 19536 454 12485 12517 22247 22247 0.15116678215440515 MKLLPKILAH 10 Unmodified _MKLLPKILAH_ 0 0 0 nc|ENSG00000020577|Q9UPU9-2|SAMD4A;nc|ENSG00000020577|Q9UPU9-3|SAMD4A;ENSG00000020577|ENST00000554335|SAMD4A;ENST00000557013.1_1_14:55168817-55201659:+|nuORF;ENST00000555112.1_1_14:55034634-55169324:+|nuORF nc|ENSG00000020577|Q9UPU9-2|SAMD4A nc|ENSG00000020577|Q9UPU9-2|SAMD4A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 388.582617 1162.72602 2.6121 0.001015 -1.0259 -0.00039863 1.5862 0.00061639 388.916841074032 52.208 0.39637 52.208 51.923 52.32 0 -0.095094 -0.00034941 NaN 0.62683 40 28 2 NaN NaN NaN NaN 0 NaN NaN 0 655380 19537 454 12485 12517 0.15116678215440515 MKLLPKILAH 10 Unmodified _MKLLPKILAH_ 0 0 0 nc|ENSG00000020577|Q9UPU9-2|SAMD4A;nc|ENSG00000020577|Q9UPU9-3|SAMD4A;ENSG00000020577|ENST00000554335|SAMD4A;ENST00000557013.1_1_14:55168817-55201659:+|nuORF;ENST00000555112.1_1_14:55034634-55169324:+|nuORF nc|ENSG00000020577|Q9UPU9-2|SAMD4A nc|ENSG00000020577|Q9UPU9-2|SAMD4A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 388.582617 1162.72602 1.9413 0.00075435 0.94008 0.0003653 2.8814 0.0011197 388.5823126505352 51.581 0.18478 52.398 52.268 52.453 0.81738 0.095094 0.0019424 NaN 0.62683 17 10 3 NaN NaN NaN NaN 0 NaN NaN 0 365010 19538 454 12485 12517 0.15116678215440515 MKLRWFLKRWR 11 Unmodified _MKLRWFLKRWR_ 0 0 0 ENSG00000149639|ENST00000237536|SOGA1;nc|ENSG00000149639|O94964-1|MTCL2;nc|ENSG00000149639|O94964-4|MTCL2 ENSG00000149639|ENST00000237536|SOGA1 ENSG00000149639|ENST00000237536|SOGA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 810.3949584960938 2 810.477015 1618.93948 NaN NaN NaN NaN NaN NaN NaN 107.99 1 107.99 107.49 108.49 0 0 0 0 1.0082 1 59189 59189 0 0 1 19539 3652 12486 12518 22248 22248 0.15476403714956177 MKMMMKKRKKR 11 Unmodified _MKMMMKKRKKR_ 0 0 0 REV__ENST00000533683.6_2_19:14199897-14200170:-|nuORF REV__ENST00000533683.6_2_19:14199897-14200170:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 748.4315185546875 2 748.432047 1494.84954 NaN NaN NaN NaN NaN NaN NaN 76.879 1 77.134 76.634 77.634 0.25533 0 0 0 1.008 1 35401 35401 0.30703 0 1 + 19540 17162 12487 12519 22249 22249 0.12190946728219387 MKMRRKRRRKK 11 Unmodified _MKMRRKRRRKK_ 0 0 0 ENST00000216190.12_1_22:36906978-36907630:-|nuORF ENST00000216190.12_1_22:36906978-36907630:-|nuORF ENST00000216190.12_1_22:36906978-36907630:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 787.4952392578125 2 787.495747 1572.97694 NaN NaN NaN NaN NaN NaN NaN 44.266 1 44.266 43.766 44.766 0 0 0 0 1.0082 1 20217 20217 0 0 1 19541 6405 12488 12520 22250 22250 0.21337171708933056 MKPKPRIL 8 Unmodified _MKPKPRIL_ 0 0 0 ENST00000481250.1_1_4:156294267-156297002:-|nuORF;MAP9|p.S305Kfs*6|1|0.78|ENSG00000164114|chr4:155360304-155360305|-/T|frameshift_variant;nc|ENSG00000164114|Q49MG5-2|MAP9;ENSG00000164114|ENST00000311277|MAP9 ENST00000481250.1_1_4:156294267-156297002:-|nuORF ENST00000481250.1_1_4:156294267-156297002:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.2036437988281 3 328.212524 981.615742 2.2443 0.00073662 -1.3739 -0.00045094 0.87041 0.00028568 328.2122115824031 47.887 0.5793 48.716 48.424 49.003 0.82915 43 26 3 0 0 0 0.72814 1 21928 21928 3.5965 1.9439 1 691890 19542 4284 12489 12521 22251 22251 0.12419877947058922 MKPKPRIL 8 Unmodified _MKPKPRIL_ 0 0 0 ENST00000481250.1_1_4:156294267-156297002:-|nuORF;MAP9|p.S305Kfs*6|1|0.78|ENSG00000164114|chr4:155360304-155360305|-/T|frameshift_variant;nc|ENSG00000164114|Q49MG5-2|MAP9;ENSG00000164114|ENST00000311277|MAP9 ENST00000481250.1_1_4:156294267-156297002:-|nuORF ENST00000481250.1_1_4:156294267-156297002:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.20330810546875 3 328.212524 981.615742 2.2417 0.00073575 -1.1207 -0.00036783 1.121 0.00036792 328.2122940331942 47.527 0.33559 48.18 47.962 48.297 0.65356 31 13 3 0 0 0 0.7471 1 21751 21751 1.6526 1.6526 1 527330 19543 4284 12489 12521 22252 22252 0.12419877947058922 MKPKPRIL 8 Unmodified _MKPKPRIL_ 0 0 0 ENST00000481250.1_1_4:156294267-156297002:-|nuORF;MAP9|p.S305Kfs*6|1|0.78|ENSG00000164114|chr4:155360304-155360305|-/T|frameshift_variant;nc|ENSG00000164114|Q49MG5-2|MAP9;ENSG00000164114|ENST00000311277|MAP9 ENST00000481250.1_1_4:156294267-156297002:-|nuORF ENST00000481250.1_1_4:156294267-156297002:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 328.212524 981.615742 2.2722 0.00074577 -1.2654 -0.00041531 1.0068 0.00033046 328.2121627714768 48.485 0.30639 48.485 48.359 48.665 0 -0.11549 4.8775E-05 NaN 3.5965 37 20 3 NaN NaN NaN NaN 0 NaN NaN 0 1003900 19544 4284 12489 12521 0.12419877947058922 MKPKPRIL 8 Unmodified _MKPKPRIL_ 0 0 0 ENST00000481250.1_1_4:156294267-156297002:-|nuORF;MAP9|p.S305Kfs*6|1|0.78|ENSG00000164114|chr4:155360304-155360305|-/T|frameshift_variant;nc|ENSG00000164114|Q49MG5-2|MAP9;ENSG00000164114|ENST00000311277|MAP9 ENST00000481250.1_1_4:156294267-156297002:-|nuORF ENST00000481250.1_1_4:156294267-156297002:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 328.212524 981.615742 2.1991 0.00072177 -1.7995 -0.0005906 0.39963 0.00013116 328.21203563422114 47.396 0.24836 48.226 48.159 48.407 0.82915 0.022661 -0.00025615 NaN 1.6526 36 16 3 NaN NaN NaN NaN 0 NaN NaN 0 347270 19545 4284 12489 12521 0.12419877947058922 MKRIWIHRR 9 Unmodified _MKRIWIHRR_ 0 0 0 nc|ENSG00000236438|C9JC47|FAM157A nc|ENSG00000236438|C9JC47|FAM157A nc|ENSG00000236438|C9JC47|FAM157A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.3850708007812 2 648.385126 1294.7557 NaN NaN NaN NaN NaN NaN NaN 4.0366 1 4.4129 3.9129 4.9129 0.37632 0 0 0 0.91238 1 1831 1831 0.52476 0.12405 1 19546 9841 12490 12522 22253 22253 0.12011055004131777 MKRNRWLQMWR 11 Unmodified _MKRNRWLQMWR_ 0 0 0 ENST00000496445.5_1_10:114207222-114224375:+|nuORF ENST00000496445.5_1_10:114207222-114224375:+|nuORF ENST00000496445.5_1_10:114207222-114224375:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 802.9246826171875 2 802.924289 1603.83402 NaN NaN NaN NaN NaN NaN NaN 92.806 1 92.806 92.306 93.306 0 0 0 0 1.0082 1 49401 49401 0 0 1 19547 8444 12491 12523 22254 22254 0.056261195270508324 MKRNVRRR 8 Unmodified _MKRNVRRR_ 0 0 0 REV__nc|ENSG00000143379|Q15047-3|SETDB1 REV__nc|ENSG00000143379|Q15047-3|SETDB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.3422241210938 2 558.338175 1114.6618 NaN NaN NaN NaN NaN NaN NaN 27.895 1 28.514 28.014 29.014 0.61947 0 0 0 0.99035 1 12791 12791 0.69038 0.16561 1 + 19548 12365 12492 12524 22255 22255 0.1090533590186169 MKRQLPLP 8 Unmodified _MKRQLPLP_ 0 0 0 REV__ENST00000355295.4_1_9:100237699-100240749:+|nuORF REV__ENST00000355295.4_1_9:100237699-100240749:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.2035827636719 3 328.200395 981.579357 2.3649 0.00077618 0.54171 0.00017779 2.9067 0.00095396 328.2009983637336 51.444 0.44849 51.444 51.149 51.598 0 59 22 4 0 0 0 0.14313 1 23488 23488 1.6526 0 1 5683000 + 19549 15539 12493 12525 22256 22256 0.08783001050358052 MKRRKLRARW 10 Unmodified _MKRRKLRARW_ 0 0 0 REV__nc|ENSG00000109920|Q8N3X1-2|FNBP4 REV__nc|ENSG00000109920|Q8N3X1-2|FNBP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 700.9312133789062 2 700.930232 1399.84591 NaN NaN NaN NaN NaN NaN NaN 65.857 1 66.514 66.014 67.014 0.65672 0 0 0 1.0015 1 30193 30193 0.40072 0 1 + 19550 11189 12494 12526 22257 22257 0.16198104332556795 MKRYLVVHQ 9 Unmodified _MKRYLVVHQ_ 0 0 0 ENSG00000142556|ENST00000270649|ZNF614 ENSG00000142556|ENST00000270649|ZNF614 ENSG00000142556|ENST00000270649|ZNF614 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.3314208984375 2 587.331693 1172.64883 NaN NaN NaN NaN NaN NaN NaN 35.719 1 35.974 35.474 36.474 0.25524 0 0 0 0.90699 1 16270 16270 1.8442 0.36234 1 19551 3317 12495 12527 22258 22258 0.06941459999097788 MKSKKKKKKLK 11 Unmodified _MKSKKKKKKLK_ 0 0 0 REV__BBX|p.F697Ifs*8|1|0.34|ENSG00000114439|chr3:107778396-107778397|-/A|frameshift_variant REV__BBX|p.F697Ifs*8|1|0.34|ENSG00000114439|chr3:107778396-107778397|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 687.6268920898438 2 687.970699 1373.92685 NaN NaN NaN NaN NaN NaN NaN 45.333 1 45.333 44.833 45.833 0 0 0 0 1.008 1 20736 20736 0.26902 0.26902 1 + 19552 9977 12496 12528 22259 22259 0.25483947532075035 MKSKKLKKKID 11 Unmodified _MKSKKLKKKID_ 0 0 0 nc|ENSG00000133640|Q96JM4-2|LRRIQ1;ENSG00000133640|ENST00000393217|LRRIQ1 nc|ENSG00000133640|Q96JM4-2|LRRIQ1 nc|ENSG00000133640|Q96JM4-2|LRRIQ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 449.6248779296875 3 449.623252 1345.84793 3.6677 0.0016491 1.0287 0.00046255 4.6964 0.0021116 449.6235999957375 109.47 1.8544 109.78 108.45 110.3 0.31015 164 77 3 0 0 0 0.91465 1 50333 50333 0.073264 0.073264 1 256680 19553 2766 12497 12529 22260 22260 0.18883675507140651 MKVLIKMIKQ 10 Unmodified _MKVLIKMIKQ_ 0 0 0 REV__ENST00000395472.2_1_14:55509742-55509793:+|nuORF REV__ENST00000395472.2_1_14:55509742-55509793:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 411.2602233886719 3 411.259145 1230.75561 NaN NaN NaN NaN NaN NaN NaN 95.394 1 95.661 95.161 96.161 0.2675 0 0 0 1.0012 1 43831 43831 0.69767 0 1 + 19554 15986 12498 12530 22261 22261 0.14945874169256967 MKVLINHG 8 Unmodified _MKVLINHG_ 0 0 0 REV__nc|ENSG00000151812|A4IF30|SLC35F4 REV__nc|ENSG00000151812|A4IF30|SLC35F4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.26092529296875 2 456.260205 910.505857 NaN NaN NaN NaN NaN NaN NaN 68.39 1 69.049 68.549 69.549 0.65924 0 0 0 0.99035 1 31349 31349 2.5775 0.27475 1 + 19555 17984 12499 12531 22262 22262 0.047024526078757845 MKYLQKWKRY 10 Unmodified _MKYLQKWKRY_ 0 0 0 DNAH10|p.Q3799Rfs*47|1|0.35|ENSG00000197653|chr12:123924415-123924415|C/-|frameshift_variant;nc|ENSG00000197653|Q8IVF4|DNAH10;ENSG00000197653|ENST00000673944|DNAH10;ENST00000467219.5_1_12:124265674-124298205:+|nuORF;nc|ENSG00000197653|Q8IVF4-2|DNAH10 DNAH10|p.Q3799Rfs*47|1|0.35|ENSG00000197653|chr12:123924415-123924415|C/-|frameshift_variant DNAH10|p.Q3799Rfs*47|1|0.35|ENSG00000197653|chr12:123924415-123924415|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 722.398681640625 2 722.400107 1442.78566 NaN NaN NaN NaN NaN NaN NaN 53.973 1 53.973 53.473 54.473 0 0 0 0 1.0015 1 24748 24748 0.40072 0 1 19556 270 12500 12532 22263 22263 0.08197949158807205 MLAKEKIH 8 Unmodified _MLAKEKIH_ 0 0 0 REV__ENSG00000184867|ENST00000356824|ARMCX2 REV__ENSG00000184867|ENST00000356824|ARMCX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.8574523925781 3 323.856517 968.547722 NaN NaN NaN NaN NaN NaN NaN 12.691 1 13.333 12.833 13.833 0.64272 0 0 0 0.82664 1 5697 5697 17.113 0.96379 1 + 19557 13990 12501 12533 22264 22264 0.062190082963979876 MLDGMIRC 8 Unmodified _MLDGMIRC_ 0 0 0 REV__ENST00000577561.1_1_17:73214398-73221993:+|nuORF REV__ENST00000577561.1_1_17:73214398-73221993:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.7186279296875 2 469.716459 937.418364 2.3315 0.0010951 0.7078 0.00033247 3.0393 0.0014276 469.71686678901955 73.07 0.35926 73.769 73.657 74.016 0.69881 51 35 2 0 0 0 0.67495 1 35215 35215 7.9102 7.9102 1 941440 + 19558 11680 12502 12534 22265 22265 -0.05284832649567761 MLDQRMLM 8 2 Oxidation (M) _M(Oxidation (M))LDQRM(Oxidation (M))LM_ M(1)LDQRM(0.995)LM(0.005) M(40)LDQRM(23)LM(-23) 0 0 2 REV__ENST00000442352.1_1_13:19782657-19801502:-|nuORF REV__ENST00000442352.1_1_13:19782657-19801502:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.2491455078125 2 535.24558 1068.47661 3.093 0.0016555 -0.18263 -9.775E-05 2.9104 0.0015578 535.2462435488397 38.732 0.7322 38.732 38.424 39.156 0 74 31 3 0 0 0 0.15009 1 17501 17501 48.346 17.709 3 1206900 + 19559 11556 12503 12535 22266 22266 92;93 -0.05489195794916668 MLDQRMLM 8 2 Oxidation (M) _M(Oxidation (M))LDQRM(Oxidation (M))LM_ M(1)LDQRM(0.987)LM(0.013) M(42)LDQRM(19)LM(-19) 0 0 2 REV__ENST00000442352.1_1_13:19782657-19801502:-|nuORF REV__ENST00000442352.1_1_13:19782657-19801502:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.247802734375 2 535.24558 1068.47661 3.0822 0.0016497 -1.2444 -0.00066608 1.8378 0.00098366 535.2465724224038 38.097 0.91048 38.731 38.304 39.215 0.63388 108 35 4 0 0 0 0.21011 1 17487 17487 42.095 9.9776 3 1209300 + 19560 11556 12503 12535 22267 22267 92;93 -0.05489195794916668 MLETDDIGY 9 Unmodified _MLETDDIGY_ 0 0 0 REV__nc|ENSG00000076108|Q9UIF9-2|BAZ2A REV__nc|ENSG00000076108|Q9UIF9-2|BAZ2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.82562255859375 3 352.823319 1055.44813 NaN NaN NaN NaN NaN NaN NaN 84.043 1 84.29 83.79 84.79 0.24722 0 0 0 0.59707 1 38684 38684 15.248 1.3424 1 + 19561 10539 12504 12536 22268 22268 -0.07737898898881213 MLFFIYAI 8 Unmodified _MLFFIYAI_ 0 0 0 nc|ENSG00000141837|O00555-5|CACNA1A;nc|ENSG00000141837|O00555-3|CACNA1A;nc|ENSG00000141837|O00555-2|CACNA1A;nc|ENSG00000141837|O00555-6|CACNA1A;nc|ENSG00000141837|O00555-4|CACNA1A;ENSG00000141837|ENST00000360228|CACNA1A;ENST00000593267.2_2_19:13345733-13346085:-|nuORF;nc|ENSG00000148408|Q00975-2|CACNA1B;ENSG00000148408|ENST00000371372|CACNA1B;nc|ENSG00000198216|Q15878-2|CACNA1E;nc|ENSG00000198216|Q15878-3|CACNA1E;ENSG00000198216|ENST00000367573|CACNA1E nc|ENSG00000141837|O00555-5|CACNA1A;nc|ENSG00000148408|Q00975-2|CACNA1B;nc|ENSG00000198216|Q15878-2|CACNA1E nc|ENSG00000148408|Q00975-2|CACNA1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.8545837402344 3 339.854114 1016.54051 2.3939 0.00081358 -0.40994 -0.00013932 1.984 0.00067426 339.854052273058 15.763 0.59713 15.763 15.448 16.045 0 139 72 3 0 0 0 0.73686 1 6921 6921 1.8442 0 1 124230 19562 3605;3287;5876 12505 12537 22269 22269 0.0329027569595155 MLFKVTER 8 Unmodified _MLFKVTER_ 0 0 0 ENST00000428210.5_1_2:61720980-61752425:-|nuORF ENST00000428210.5_1_2:61720980-61752425:-|nuORF ENST00000428210.5_1_2:61720980-61752425:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.86083984375 3 341.860039 1022.55829 2.3957 0.00081899 -0.85604 -0.00029265 1.5396 0.00052634 341.8600688256778 39.17 0.36037 39.434 39.279 39.64 0.26408 31 13 3 0 0 0 0.47805 1 17840 17840 22.736 5.6234 1 614820 19563 7822 12506 12538 22270 22270 0.047909909508234705 MLFKVTER 8 Unmodified _MLFKVTER_ 0 0 0 ENST00000428210.5_1_2:61720980-61752425:-|nuORF ENST00000428210.5_1_2:61720980-61752425:-|nuORF ENST00000428210.5_1_2:61720980-61752425:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 341.860039 1022.55829 2.3406 0.00080017 -1.1158 -0.00038143 1.2249 0.00041874 341.8600626721002 38.788 0.74082 39.426 38.845 39.586 0.63778 -0.003785 -0.00016828 NaN 22.736 35 28 2 NaN NaN NaN NaN 0 NaN NaN 0 478330 19564 7822 12506 12538 0.047909909508234705 MLFVWLTWILW 11 Unmodified _MLFVWLTWILW_ 0 0 0 REV__ENST00000199448.8_2_7:37990187-37990421:+|nuORF REV__ENST00000199448.8_2_7:37990187-37990421:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 754.4132690429688 2 754.412152 1506.80975 NaN NaN NaN NaN NaN NaN NaN 89.583 1 89.835 89.335 90.335 0.25137 0 0 0 1.008 1 41201 41201 0.30703 0 1 + 19565 14790 12507 12539 22271 22271 0.07661789592475543 MLGKLRII 8 Unmodified _MLGKLRII_ 0 0 0 REV__ENSG00000164199|ENST00000405460|ADGRV1 REV__ENSG00000164199|ENST00000405460|ADGRV1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.31201171875 2 472.309698 942.604843 3.0619 0.0014462 0.42961 0.00020291 3.4915 0.0016491 472.3099111689338 53.212 0.22807 53.475 53.323 53.551 0.26345 25 18 2 0 0 0 0.23254 1 24317 24317 40.449 8.3316 1 989660 + 19566 13076 12508 12540 22272 22272 0.1312447557276073 MLGKLRII 8 Unmodified _MLGKLRII_ 0 0 0 REV__ENSG00000164199|ENST00000405460|ADGRV1 REV__ENSG00000164199|ENST00000405460|ADGRV1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.3111572265625 2 472.309698 942.604843 2.8009 0.0013229 0.10251 4.8419E-05 2.9034 0.0013713 472.30982643516853 52.701 0.16454 53.363 53.255 53.42 0.66198 16 11 2 0 0 0 0.23254 1 24094 24094 40.449 8.3316 1 1148000 + 19567 13076 12508 12540 22273 22273 0.1312447557276073 MLGKLRII 8 Unmodified _MLGKLRII_ 0 0 0 REV__ENSG00000164199|ENST00000405460|ADGRV1 REV__ENSG00000164199|ENST00000405460|ADGRV1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 472.309698 942.604843 3.0619 0.0014462 0.42961 0.00020291 3.4915 0.0016491 472.3099111689338 53.212 0.22807 53.475 53.323 53.551 0.26345 0.05624 0.00010889 NaN 40.449 25 18 2 NaN NaN NaN NaN 0 NaN NaN 0 989660 + 19568 13076 12508 12540 0.1312447557276073 MLGKLRII 8 Unmodified _MLGKLRII_ 0 0 0 REV__ENSG00000164199|ENST00000405460|ADGRV1 REV__ENSG00000164199|ENST00000405460|ADGRV1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 472.309698 942.604843 2.8009 0.0013229 0.10251 4.8419E-05 2.9034 0.0013713 472.30982643516853 52.701 0.16454 53.363 53.255 53.42 0.66198 -0.05624 -0.00020009 NaN 40.449 16 11 2 NaN NaN NaN NaN 0 NaN NaN 0 1148000 + 19569 13076 12508 12540 0.1312447557276073 MLGPDLRRLPR 11 Unmodified _MLGPDLRRLPR_ 0 0 0 REV__ENSG00000105738|ENST00000222345|SIPA1L3 REV__ENSG00000105738|ENST00000222345|SIPA1L3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.9491271972656 4 331.697404 1322.76051 2.4328 0.00080696 0.57226 0.00018982 3.0051 0.00099677 331.9484321648921 50.734 0.2774 50.734 50.661 50.938 0 35 14 3 0 0 0 0.91068 1 23252 23252 1.3296 0 1 2049100 + 19570 11052 12509 12541 22274 22274 0.11203894356231103 MLGPDLRRLPR 11 Unmodified _MLGPDLRRLPR_ 0 0 0 REV__ENSG00000105738|ENST00000222345|SIPA1L3 REV__ENSG00000105738|ENST00000222345|SIPA1L3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.9493408203125 4 331.697404 1322.76051 2.4021 0.00079678 0.52541 0.00017428 2.9275 0.00097106 331.6974744553385 50.043 0.41308 50.865 50.658 51.071 0.82285 51 17 4 0 0 0 0.91068 1 22779 22779 1.3296 0.55311 1 1047300 + 19571 11052 12509 12541 22275 22275 0.11203894356231103 MLGPDLRRLPR 11 Unmodified _MLGPDLRRLPR_ 0 0 0 REV__ENSG00000105738|ENST00000222345|SIPA1L3 REV__ENSG00000105738|ENST00000222345|SIPA1L3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.6981201171875 4 331.697404 1322.76051 2.3248 0.00077113 0.6588 0.00021852 2.9836 0.00098965 331.6974547428054 50.391 0.41154 50.652 50.497 50.909 0.26146 56 19 4 0 0 0 0.91068 1 23061 23061 1.3296 0.31607 1 2395600 + 19572 11052 12509 12541 22276 22276 0.11203894356231103 MLGPDLRRLPR 11 Unmodified _MLGPDLRRLPR_ 0 0 0 REV__ENSG00000105738|ENST00000222345|SIPA1L3 REV__ENSG00000105738|ENST00000222345|SIPA1L3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 331.697404 1322.76051 2.4328 0.00080696 0.57226 0.00018982 3.0051 0.00099677 331.9484321648921 50.734 0.2774 50.734 50.661 50.938 0 -0.016431 -7.9551E-06 NaN 1.3296 35 14 3 NaN NaN NaN NaN 0 NaN NaN 0 2049100 + 19573 11052 12509 12541 0.11203894356231103 MLGPDLRRLPR 11 Unmodified _MLGPDLRRLPR_ 0 0 0 REV__ENSG00000105738|ENST00000222345|SIPA1L3 REV__ENSG00000105738|ENST00000222345|SIPA1L3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 331.697404 1322.76051 2.4021 0.00079678 0.52541 0.00017428 2.9275 0.00097106 331.6974744553385 50.043 0.41308 50.865 50.658 51.071 0.82285 0.11478 -7.0112E-05 NaN 1.3296 51 17 4 NaN NaN NaN NaN 0 NaN NaN 0 1047300 + 19574 11052 12509 12541 0.11203894356231103 MLHFDPWL 8 Unmodified _MLHFDPWL_ 0 0 0 ENST00000392882.6_1_14:100800324-100800474:-|nuORF ENST00000392882.6_1_14:100800324-100800474:-|nuORF ENST00000392882.6_1_14:100800324-100800474:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.7621459960938 2 529.760038 1057.50552 3.1388 0.0016628 1.4142 0.00074918 4.553 0.002412 529.760764160498 38.022 0.40622 38.283 38.093 38.5 0.26083 22 12 3 0 0 0 0.65723 1 17370 17370 9.3474 2.0582 1 533640 19575 7523 12510 12542 22277 22277 -0.02092967111980215 MLHSALGLCL 10 Unmodified _MLHSALGLCL_ 0 0 0 ENSG00000173467|ENST00000310398|AGR3 ENSG00000173467|ENST00000310398|AGR3 ENSG00000173467|ENST00000310398|AGR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.106689453125 2 529.28028 1056.54601 NaN NaN NaN NaN NaN NaN NaN 71.541 1 72.245 71.745 72.745 0.70386 0 0 0 0.62767 1 34367 34367 26.884 1.4843 1 19576 4936 12511 12543 22278 22278 0.01999631216108355 MLILPRILNL 10 Unmodified _MLILPRILNL_ 0 0 0 REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.2584228515625 3 399.258022 1194.75224 2.3177 0.00092538 -1.1254 -0.00044934 1.1923 0.00047604 399.25761022480094 34.375 0.25835 34.375 34.29 34.548 0 31 12 3 0 0 0 0.93503 2 15628 15583;15628 1.9064 1.9064 1 1815600 + 19577 17140 12512 12544 22279;22280 22280 0.16264947386912354 MLILPRILNL 10 Unmodified _MLILPRILNL_ 0 0 0 REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.2584533691406 3 399.258022 1194.75224 2.3692 0.00094592 -1.1097 -0.00044305 1.2595 0.00050287 399.5918180087481 34.805 0.297 34.805 34.629 34.926 0 42 17 3 0 0 0 0.93584 1 15738 15738 1.7423 0 1 2055700 + 19578 17140 12512 12544 22281 22281 0.16264947386912354 MLILPRILNL 10 Unmodified _MLILPRILNL_ 0 0 0 REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.25946044921875 3 399.258022 1194.75224 2.5188 0.0010056 -0.66268 -0.00026458 1.8561 0.00074106 399.25795287130495 35.911 0.31578 35.911 35.703 36.019 0 41 18 3 0 0 0 0.93584 1 16246 16246 1.7423 1.7423 1 846280 + 19579 17140 12512 12544 22282 22282 0.16264947386912354 MLILPRILNL 10 Unmodified _MLILPRILNL_ 0 0 0 REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.2593078613281 3 399.258022 1194.75224 2.5518 0.0010188 -0.66694 -0.00026628 1.8849 0.00075256 399.25785906912307 36.16 0.34251 36.16 35.982 36.325 0 43 17 4 0 0 0 0.94099 1 16458 16458 0.69767 0.69767 1 1256800 + 19580 17140 12512 12544 22283 22283 0.16264947386912354 MLILPRILNL 10 Unmodified _MLILPRILNL_ 0 0 0 REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.25933837890625 3 399.258022 1194.75224 2.6121 0.0010429 -0.39082 -0.00015604 2.2213 0.00088687 399.2579683042511 36.676 0.30769 36.676 36.532 36.84 0 37 14 3 0 0 0 0.94099 1 16702 16702 0.69767 0.19171 1 953140 + 19581 17140 12512 12544 22284 22284 0.16264947386912354 MLILPRILNL 10 Unmodified _MLILPRILNL_ 0 0 0 REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.2586669921875 3 399.258022 1194.75224 2.6519 0.0010588 -1.1742 -0.00046881 1.4777 0.00058997 399.2577414986938 38.947 0.76817 38.947 38.332 39.1 0 76 33 3 0 0 0 0.93503 1 17492 17492 1.9064 1.9064 1 956160 + 19582 17140 12512 12544 22285 22285 0.16264947386912354 MLILPRILNL 10 Unmodified _MLILPRILNL_ 0 0 0 REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.5925598144531 3 399.258022 1194.75224 2.2552 0.0009004 -0.56642 -0.00022615 1.6888 0.00067425 399.25793371126963 33.347 0.22495 34.135 34.005 34.23 0.78795 36 13 3 0 0 0 0.93584 1 15101 15101 1.7423 0.41263 1 1220700 + 19583 17140 12512 12544 22286 22286 0.16264947386912354 MLILPRILNL 10 Unmodified _MLILPRILNL_ 0 0 0 REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.25830078125 3 399.258022 1194.75224 2.3066 0.00092093 -2.1555 -0.00086059 0.15114 6.0344E-05 399.25708829875083 33.747 0.04163 34.535 34.514 34.556 0.78795 6 4 2 0 0 0 0.90216 1 15280 15280 3.5871 1.6807 1 815110 + 19584 17140 12512 12544 22287 22287 0.16264947386912354 MLILPRILNL 10 Unmodified _MLILPRILNL_ 0 0 0 REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.25830078125 3 399.258022 1194.75224 2.7227 0.001087 -1.7026 -0.00067976 1.0201 0.00040728 399.25733857898155 35.837 0.3252 36.629 36.547 36.872 0.79131 22 13 2 0 0 0 0.90216 1 16312 16312 3.5871 1.6807 1 984430 + 19585 17140 12512 12544 22288 22288 0.16264947386912354 MLILPRILNL 10 Unmodified _MLILPRILNL_ 0 0 0 REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.2588195800781 3 399.258022 1194.75224 2.9658 0.0011841 -1.3716 -0.00054763 1.5942 0.00063649 399.25748379051333 35.539 0.34593 35.794 35.62 35.966 0.25524 20 11 2 0 0 0 0.93503 1 16165 16165 1.9064 1.4519 1 1788000 + 19586 17140 12512 12544 22289 22289 0.16264947386912354 MLILPRILNL 10 Unmodified _MLILPRILNL_ 0 0 0 REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.2595520019531 3 399.258022 1194.75224 2.9773 0.0011887 -0.70013 -0.00027953 2.2772 0.00090917 399.25781680836593 35.437 0.55371 36.063 35.701 36.255 0.62631 44 18 3 0 0 0 0.94099 1 16116 16116 0.69767 0.69767 1 1185300 + 19587 17140 12512 12544 22290 22290 0.16264947386912354 MLILPRILNL 10 Unmodified _MLILPRILNL_ 0 0 0 REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.2592468261719 3 399.258022 1194.75224 3.0229 0.0012069 -0.91014 -0.00036338 2.1128 0.00084354 399.25788092512335 36.603 0.54523 37.233 36.849 37.394 0.62999 54 20 3 0 0 0 0.94099 1 16716 16716 0.69767 0.69767 1 673720 + 19588 17140 12512 12544 22291 22291 0.16264947386912354 MLILPRILNL 10 Unmodified _MLILPRILNL_ 0 0 0 REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.2588195800781 3 399.258022 1194.75224 2.8051 0.00112 -0.71661 -0.00028611 2.0885 0.00083385 399.2579212355866 37.879 0.90369 38.513 37.825 38.729 0.63388 53 31 2 0 0 0 0.94099 1 17354 17354 0.69767 0.69767 1 764970 + 19589 17140 12512 12544 22292 22292 0.16264947386912354 MLILPRILNL 10 Unmodified _MLILPRILNL_ 0 0 0 REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 399.258022 1194.75224 2.6336 0.0010515 -1.4196 -0.0005668 1.2139 0.00048467 399.2575650362495 37.779 0.64674 38.575 38.044 38.691 0.79552 -0.12789 -0.00032165 NaN 1.9064 52 29 2 NaN NaN NaN NaN 0 NaN NaN 0 667830 + 19590 17140 12512 12544 0.16264947386912354 MLILPRILNL 10 Unmodified _MLILPRILNL_ 0 0 0 REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 399.258022 1194.75224 2.8271 0.0011287 -1.4225 -0.00056793 1.4046 0.0005608 399.25751823639223 38.512 0.63517 38.776 38.281 38.916 0.26408 0.072943 -0.00032503 NaN 1.9064 35 21 2 NaN NaN NaN NaN 0 NaN NaN 0 3828600 + 19591 17140 12512 12544 0.16264947386912354 MLILPRILNL 10 Unmodified _MLILPRILNL_ 0 0 0 REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF REV__ENST00000531443.5_1_8:107696561-107715155:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 399.258022 1194.75224 2.8051 0.00112 -0.71661 -0.00028611 2.0885 0.00083385 399.2579212355866 37.879 0.90369 38.513 37.825 38.729 0.63388 -0.18963 0.00052042 NaN 1.9064 53 31 2 NaN NaN NaN NaN 0 NaN NaN 0 764970 + 19592 17140 12512 12544 0.16264947386912354 MLKIFLTPGFV 11 Unmodified _MLKIFLTPGFV_ 0 0 0 LTR30_dup35|chr4:69116520-69117223:+|4.948180749754446|0.1119489561624759|5.47|538.0|17|3|sense LTR30_dup35|chr4:69116520-69117223:+|4.948180749754446|0.1119489561624759|5.47|538.0|17|3|sense LTR30_dup35|chr4:69116520-69117223:+|4.948180749754446|0.1119489561624759|5.47|538.0|17|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.0423583984375 2 633.369952 1264.72535 4.0585 0.0025705 -1.1959 -0.00075746 2.8626 0.0018131 633.3689003896008 88.697 0.75892 88.948 88.659 89.417 0.25118 55 30 3 0 0 0 0.91068 2 41005 40803;41005 1.3295 0.735 1 1070400 19593 9501 12513 12545 22293;22294 22294 0.1035783877571248 MLKIRSEF 8 Unmodified _MLKIRSEF_ 0 0 0 ENSG00000182718|ENST00000451270|ANXA2;nc|ENSG00000182718|P07355-2|ANXA2;ENST00000560014.5_1_15:60639831-60644581:-|nuORF;nc|ENSG00000231991|A6NMY6|ANXA2P2 ENSG00000182718|ENST00000451270|ANXA2 ENSG00000182718|ENST00000451270|ANXA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.2879028320312 2 512.28642 1022.55829 3.2969 0.001689 -0.13592 -6.9631E-05 3.161 0.0016193 512.2863821967072 39.188 0.32277 39.452 39.317 39.64 0.26408 16 11 2 0 0 0 0.212 1 17827 17827 41.84 3.8656 1 362190 19594 5346 12514 12546 22295 22295 0.047909909508234705 MLKLVRLKL 9 Unmodified _MLKLVRLKL_ 0 0 0 nc|ENSG00000130159|Q9BQ95-4|ECSIT;nc|ENSG00000130159|Q9BQ95-2|ECSIT;ENSG00000130159|ENST00000270517|ECSIT nc|ENSG00000130159|Q9BQ95-4|ECSIT nc|ENSG00000130159|Q9BQ95-4|ECSIT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.2325439453125 2 557.380655 1112.74676 NaN NaN NaN NaN NaN NaN NaN 80.463 1 80.463 79.963 80.963 0 0 0 0 0.89683 1 39952 39952 4.3292 2.485 1 19595 9635 12515 12547 22296 22296 0.19489268595089015 MLKMVWIS 8 Unmodified _MLKMVWIS_ 0 0 0 ENSG00000047188|ENST00000161863|YTHDC2;YTHDC2|p.L804*|1|0.43|ENSG00000047188|chr5:113563461-113563468|TAATTGTA/-|frameshift_variant ENSG00000047188|ENST00000161863|YTHDC2 ENSG00000047188|ENST00000161863|YTHDC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.3498840332031 2 504.274467 1006.53438 NaN NaN NaN NaN NaN NaN NaN 28.016 1 28.278 27.778 28.778 0.26245 0 0 0 0.99035 1 12740 12740 4.756 0.42677 1 19596 554 12516 12548 22297 22297 0.03137434192797173 MLKRKWRTF 9 Unmodified _MLKRKWRTF_ 0 0 0 ENST00000577944.5_2_17:80397520-80400257:+|nuORF ENST00000577944.5_2_17:80397520-80400257:+|nuORF ENST00000577944.5_2_17:80397520-80400257:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.3726806640625 2 633.36861 1264.72267 4.3306 0.0027429 0.76858 0.00048679 5.0992 0.0032297 633.3691355742404 92.926 1.1022 93.181 92.701 93.803 0.25497 140 57 3 0 0 0 1.2078 2 42563 42563;42807 0.6015 0.6015 1 1333400 19597 9134 12517 12549 22298;22299 22298 0.1008942816142735 MLKRPIKKK 9 Unmodified _MLKRPIKKK_ 0 0 0 REV__nc|ENSG00000183495|Q96L91-4|EP400 REV__nc|ENSG00000183495|Q96L91-4|EP400 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.25787353515625 3 381.258245 1140.7529 NaN NaN NaN NaN NaN NaN NaN 44.731 1 45.381 44.881 45.881 0.64998 0 0 0 0.91014 1 20502 20502 1.0715 0.61694 1 + 19598 13936 12518 12550 22300 22300 0.18815786826598924 MLKTHRAL 8 Unmodified _MLKTHRAL_ 0 0 0 ENST00000520632.5_1_8:96057824-96057860:+|nuORF ENST00000520632.5_1_8:96057824-96057860:+|nuORF ENST00000520632.5_1_8:96057824-96057860:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2882385253906 2 485.286754 968.558955 NaN NaN NaN NaN NaN NaN NaN 63.434 1 63.682 63.182 64.182 0.24803 0 0 0 0.99035 1 29051 29051 2.8892 0 1 19599 8633 12519 12551 22301 22301 0.07341830390521409 MLKVINRKYK 10 Unmodified _MLKVINRKYK_ 0 0 0 ENSG00000182798|ENST00000400004|MAGEB17 ENSG00000182798|ENST00000400004|MAGEB17 ENSG00000182798|ENST00000400004|MAGEB17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 431.9350280761719 3 431.600559 1291.77985 NaN NaN NaN NaN NaN NaN NaN 62.05 1 62.781 62.281 63.281 0.73077 0 0 0 0.99774 1 28865 28865 1.7423 0 1 19600 5351 12520 12552 22302 22302 0.14562850647121195 MLLAVCDG 8 Unmodified _MLLAVCDG_ 0 0 0 REV__SLC27A2|p.Y180Lfs*8|1|0.05|ENSG00000140284|chr15:50197558-50197559|-/T|frameshift_variant REV__SLC27A2|p.Y180Lfs*8|1|0.05|ENSG00000140284|chr15:50197558-50197559|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 411.1971740722656 2 411.198425 820.382296 NaN NaN NaN NaN NaN NaN NaN 58.498 1 59.165 58.665 59.665 0.66703 0 0 0 0.99035 1 26778 26778 5.2307 0 1 + 19601 12235 12521 12553 22303 22303 -0.035079665547641525 MLLEAFHL 8 Unmodified _MLLEAFHL_ 0 0 0 REV__CNOT8|p.C256Wfs*12|1|0.2|ENSG00000155508|chr5:154875326-154875339|TGTGGGCGGCTCTA/-|frameshift_variant REV__CNOT8|p.C256Wfs*12|1|0.2|ENSG00000155508|chr5:154875326-154875339|TGTGGGCGGCTCTA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.26544189453125 2 487.262413 972.510274 NaN NaN NaN NaN NaN NaN NaN 37.287 1 37.917 37.417 38.417 0.62999 0 0 0 0.93233 1 17064 17064 10.183 1.5901 1 + 19602 10066 12522 12554 22304 22304 0.02291917030777313 MLLEQALHM 9 Unmodified _MLLEQALHM_ 0 0 0 REV__HSMAR1_dup181|chr4:110369775-110371037:+|1.406924177428169|0.301435488831076|2.22|538.0|26|3|sense REV__HSMAR1_dup181|chr4:110369775-110371037:+|1.406924177428169|0.301435488831076|2.22|538.0|26|3|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.30419921875 2 543.277738 1084.54092 3.1652 0.0017196 2.5093 0.0013632 5.6744 0.0030828 543.2789731407181 70.951 0.19391 71.209 71.048 71.242 0.25786 23 16 2 0 0 0 0.096132 1 32465 32465 14.838 9.0778 1 401570 + 19603 17743 12523 12555 22305 22305 0.002033273535062108 MLLKKLKKLKP 11 Unmodified _MLLKKLKKLKP_ 0 0 0 REV__ENSG00000136982|ENST00000313655|DSCC1 REV__ENSG00000136982|ENST00000313655|DSCC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 670.4666748046875 2 670.464719 1338.91488 NaN NaN NaN NaN NaN NaN NaN 54.52 1 54.52 54.02 55.02 0 0 0 0 1.008 1 25018 25018 0.35063 0 1 + 19604 12092 12524 12556 22306 22306 0.25898330788891144 MLLKVRRAS 9 Unmodified _MLLKVRRAS_ 0 0 0 nc|ENSG00000185332|Q8N8V8|TMEM105 nc|ENSG00000185332|Q8N8V8|TMEM105 nc|ENSG00000185332|Q8N8V8|TMEM105 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 358.3927001953125 3 358.558583 1072.65392 NaN NaN NaN NaN NaN NaN NaN 68.239 1 68.492 67.992 68.992 0.25227 0 0 0 0.89602 1 31260 31260 4.5289 0.93237 1 19605 9784 12525 12557 22307 22307 0.12049763861728024 MLLKYLKAI 9 Unmodified _MLLKYLKAI_ 0 0 0 REV__nc|ENSG00000081014|Q9UPM8-2|AP4E1 REV__nc|ENSG00000081014|Q9UPM8-2|AP4E1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.8458251953125 2 546.846113 1091.67767 NaN NaN NaN NaN NaN NaN NaN 65.007 1 65.664 65.164 66.164 0.65672 0 0 0 0.90511 1 29802 29802 2.3027 0 1 + 19606 10605 12526 12558 22308 22308 0.13550184575524327 MLLLLLLLL 9 Unmodified _MLLLLLLLL_ 0 0 0 nc|ENSG00000283654|A0A1B0GTW7-3|CIROP;nc|ENSG00000283654|A0A1B0GTW7-2|CIROP;ENSG00000283654|ENST00000637218|CIROP nc|ENSG00000283654|A0A1B0GTW7-3|CIROP nc|ENSG00000283654|A0A1B0GTW7-3|CIROP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.8690795898438 2 527.869057 1053.72356 NaN NaN NaN NaN NaN NaN NaN 80.555 1 80.555 80.055 81.055 0 0 0 0 0.90965 1 40008 40008 0.6015 0 1 19607 6372 12527 12559 22309 22309 0.19884829757779698 MLLSARGPAL 10 Unmodified _MLLSARGPAL_ 0 0 0 REV__ENST00000609350.1_1_2:128644229-128644535:+|nuORF REV__ENST00000609350.1_1_2:128644229-128644535:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.53582763671875 3 343.535555 1027.58484 2.3962 0.00082317 -1.3407 -0.00046057 1.0555 0.00036261 343.53483310482267 34.927 0.26095 35.549 35.48 35.741 0.62294 47 21 3 0 0 0 0.80609 1 16064 16064 4.7159 0.30977 1 3086200 + 19608 17664 12528 12560 22310 22310 0.07214679842149962 MLLSARGPAL 10 Unmodified _MLLSARGPAL_ 0 0 0 REV__ENST00000609350.1_1_2:128644229-128644535:+|nuORF REV__ENST00000609350.1_1_2:128644229-128644535:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 343.535555 1027.58484 2.2656 0.0007783 -1.507 -0.00051771 0.75854 0.00026059 343.53497666787746 35.492 0.40046 35.492 35.343 35.743 0 0.013734 5.1532E-05 NaN 4.7159 38 19 2 NaN NaN NaN NaN 0 NaN NaN 0 2512200 + 19609 17664 12528 12560 0.07214679842149962 MLLSARGPAL 10 Unmodified _MLLSARGPAL_ 0 0 0 REV__ENST00000609350.1_1_2:128644229-128644535:+|nuORF REV__ENST00000609350.1_1_2:128644229-128644535:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 343.535555 1027.58484 2.2459 0.00077155 -1.7399 -0.00059772 0.50601 0.00017383 343.53492131461417 34.604 0.30281 35.393 35.339 35.642 0.78921 -0.084938 -0.00018848 NaN 4.7159 43 26 2 NaN NaN NaN NaN 0 NaN NaN 0 3170600 + 19610 17664 12528 12560 0.07214679842149962 MLLSPLLVRL 10 Unmodified _MLLSPLLVRL_ 0 0 0 ENST00000606771.1_1_6:17706507-17706798:+|nuORF ENST00000606771.1_1_6:17706507-17706798:+|nuORF ENST00000606771.1_1_6:17706507-17706798:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 385.695556640625 3 385.582505 1153.72569 2.8011 0.00108 0.82827 0.00031937 3.6293 0.0013994 385.58277459745756 56.566 0.34146 56.831 56.624 56.965 0.26543 39 23 2 0 0 0 0.12676 1 25809 25809 1.7423 1.7423 1 3762800 19611 9328 12529 12561 22311 22311 0.1549725849558854 MLLVKRRY 8 Unmodified _MLLVKRRY_ 0 0 0 REV__nc|ENSG00000094841|Q96BW1-3|UPRT REV__nc|ENSG00000094841|Q96BW1-3|UPRT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 360.2226257324219 3 360.223311 1077.6481 NaN NaN NaN NaN NaN NaN NaN 32.996 1 32.996 32.496 33.496 0 0 0 0 0.99035 1 14945 14945 1.6526 0.69035 1 + 19612 10754 12530 12562 22312 22312 0.11238665350060728 MLLVLVVLIPV 11 Unmodified _MLLVLVVLIPV_ 0 0 0 ENSG00000131094|ENST00000253407|C1QL1 ENSG00000131094|ENST00000253407|C1QL1 ENSG00000131094|ENST00000253407|C1QL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 604.9058837890625 2 604.906171 1207.79779 NaN NaN NaN NaN NaN NaN NaN 84.415 1 84.443 83.943 84.943 0.028603 0 0 0 1.0071 1 42101 42101 1.4819 0 1 19613 2639 12531 12563 22313 22313 0.20220172849303708 MLLYTQNIHLF 11 Unmodified _MLLYTQNIHLF_ 0 0 0 REV__TBC1D8B|p.L930Yfs*38|1|0.07|ENSG00000133138|chrX:106868452-106868452|T/-|frameshift_variant REV__TBC1D8B|p.L930Yfs*38|1|0.07|ENSG00000133138|chrX:106868452-106868452|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 696.87255859375 2 696.870848 1391.72714 NaN NaN NaN NaN NaN NaN NaN 56.49 1 57.267 56.767 57.767 0.77786 0 0 0 1.0071 1 25828 25828 1.4819 0.28856 1 + 19614 11927 12532 12564 22314 22314 0.04694847793666668 MLMLYVHG 8 Unmodified _MLMLYVHG_ 0 0 0 REV__ENST00000583277.1_1_17:7467715-7468388:+|nuORF REV__ENST00000583277.1_1_17:7467715-7468388:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.24530029296875 2 482.243166 962.47178 NaN NaN NaN NaN NaN NaN NaN 59.826 1 60.491 59.991 60.991 0.66503 0 0 0 0.64244 1 27385 27385 24.21 7.1234 1 + 19615 17522 12533 12565 22315 22315 -0.010957118753822215 MLNCKNCL 8 Unmodified _MLNCKNCL_ 0 0 0 REV__ENSG00000175893|ENST00000380916|ZDHHC21 REV__ENSG00000175893|ENST00000380916|ZDHHC21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 469.7171630859375 2 469.716459 937.418364 2.5548 0.0012 0.80156 0.0003765 3.3563 0.0015765 469.71688800188 73.608 0.47064 73.867 73.566 74.037 0.25876 68 44 2 0 0 0 0.70799 1 33850 33850 5.2307 0 1 933570 + 19616 13683 12534 12566 22316 22316 -0.05284832649567761 MLPGMVVP 8 Unmodified _MLPGMVVP_ 0 0 0 REV__nc|ENSG00000065150|O00410-2|IPO5 REV__nc|ENSG00000065150|O00410-2|IPO5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.2289733886719 2 422.226985 842.439417 3.0342 0.0012811 1.8745 0.00079148 4.9087 0.0020726 422.22784207395176 63.88 0.24575 64.537 64.404 64.65 0.65672 24 15 2 0 0 0 0.73686 1 29250 29250 2.8892 0 1 459010 + 19617 10427 12535 12567 22317 22317 0.011895007216139675 MLPGVLQQF 9 Unmodified _MLPGVLQQF_ 0 0 0 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;ENST00000518010.5_1_8:134269105-134296554:-|nuORF;nc|ENSG00000104419|Q92597-3|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.782958984375 2 516.78097 1031.54739 3.3202 0.0017158 0.33438 0.0001728 3.6546 0.0018886 516.7809096181853 82.342 0.27371 82.589 82.46 82.734 0.24722 25 15 2 0 0 0 0.050606 2 37910 37893;37910 46.921 18.434 1 925120 19618 1438 12536 12568 22318;22319 22319 0.03287588576517919 MLPGVLQQF 9 Unmodified _MLPGVLQQF_ 0 0 0 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;ENST00000518010.5_1_8:134269105-134296554:-|nuORF;nc|ENSG00000104419|Q92597-3|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.7820434570312 2 516.78097 1031.54739 3.5288 0.0018236 0.41163 0.00021272 3.9404 0.0020363 516.7811638826118 81.719 0.30769 82.379 82.216 82.523 0.65998 38 22 2 0 0 0 0.050606 1 37675 37675 46.921 18.434 1 733440 19619 1438 12536 12568 22320 22320 0.03287588576517919 MLPHDKVFQL 10 Unmodified _MLPHDKVFQL_ 0 0 0 REV__nc|ENSG00000187764|Q92854-2|SEMA4D REV__nc|ENSG00000187764|Q92854-2|SEMA4D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 307.85626220703125 4 307.669318 1226.64816 2.4658 0.00075864 -0.20308 -6.2482E-05 2.2627 0.00069616 307.66909616614623 12.495 0.083971 13.138 13.092 13.176 0.64272 4 2 2 0 0 0 0.93372 1 5594 5594 2.086 1.3095 1 475520 + 19620 14112 12537 12569 22321 22321 0.043906205593884806 MLPPLPVPAA 10 Unmodified _MLPPLPVPAA_ 0 0 0 ENST00000558085.6_1_22:17082792-17082855:+|nuORF;ENST00000558084.5_1_7:152132979-152133087:-|nuORF ENST00000558085.6_1_22:17082792-17082855:+|nuORF ENST00000558085.6_1_22:17082792-17082855:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.2952575683594 2 503.293714 1004.57287 3.8447 0.001935 -0.68921 -0.00034688 3.1555 0.0015881 503.29321277476646 93.752 0.32046 94.006 93.845 94.166 0.25497 38 14 3 0 0 0 0.93534 1 43106 43106 1.8442 1.1539 1 1260000 19621 8947 12538 12570 22322 22322 0.07077063098961389 MLPPLPVPAA 10 Unmodified _MLPPLPVPAA_ 0 0 0 ENST00000558085.6_1_22:17082792-17082855:+|nuORF;ENST00000558084.5_1_7:152132979-152133087:-|nuORF ENST00000558085.6_1_22:17082792-17082855:+|nuORF ENST00000558085.6_1_22:17082792-17082855:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 503.293714 1004.57287 3.8447 0.001935 -0.68921 -0.00034688 3.1555 0.0015881 503.29321277476646 93.752 0.32046 94.006 93.845 94.166 0.25497 0.012595 9.9845E-05 NaN 1.8442 38 14 3 NaN NaN NaN NaN 0 NaN NaN 0 1260000 19622 8947 12538 12570 0.07077063098961389 MLPSRLTV 8 Unmodified _MLPSRLTV_ 0 0 0 ENST00000590564.5_1_19:30787074-30787137:+|nuORF ENST00000590564.5_1_19:30787074-30787137:+|nuORF ENST00000590564.5_1_19:30787074-30787137:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 458.7695007324219 2 458.767863 915.521173 3.0085 0.0013802 0.43603 0.00020004 3.4446 0.0015802 458.7680453922529 67.912 0.30389 68.164 67.973 68.277 0.25227 29 19 2 0 0 0 0.58446 1 31124 31124 19.257 0 1 686300 19623 9226 12539 12571 22323 22323 0.06003319405056118 MLPSRLTV 8 Unmodified _MLPSRLTV_ 0 0 0 ENST00000590564.5_1_19:30787074-30787137:+|nuORF ENST00000590564.5_1_19:30787074-30787137:+|nuORF ENST00000590564.5_1_19:30787074-30787137:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 458.767863 915.521173 2.9007 0.0013308 0.45784 0.00021004 3.3586 0.0015408 458.76808607349403 67.366 0.34111 68.024 67.779 68.12 0.65777 -0.070084 9.7095E-06 NaN 19.257 32 19 2 NaN NaN NaN NaN 0 NaN NaN 0 426340 19624 9226 12539 12571 0.06003319405056118 MLPYFNYLM 9 Unmodified _MLPYFNYLM_ 0 0 0 REV__ENSG00000168538|ENST00000334690|TRAPPC11 REV__ENSG00000168538|ENST00000334690|TRAPPC11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 596.2352905273438 2 596.282489 1190.55042 NaN NaN NaN NaN NaN NaN NaN 86.721 1 86.97 86.47 87.47 0.24974 0 0 0 0.89509 1 39921 39921 4.756 0.42677 1 + 19625 13354 12540 12572 22324 22324 -0.037229043609613655 MLQRIRLLLRE 11 Unmodified _MLQRIRLLLRE_ 0 0 0 ENST00000305997.7_1_2:8996496-8996592:-|nuORF ENST00000305997.7_1_2:8996496-8996592:-|nuORF ENST00000305997.7_1_2:8996496-8996592:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 720.9461669921875 2 720.945213 1439.87587 NaN NaN NaN NaN NaN NaN NaN 54.03 1 54.03 53.53 54.53 0 0 0 0 1.0034 1 24775 24775 6.2058 2.0163 1 19626 6838 12541 12573 22325 22325 0.1735299848721752 MLRASHQI 8 Unmodified _MLRASHQI_ 0 0 0 ENST00000256951.9_1_12:13369307-13369334:+|nuORF ENST00000256951.9_1_12:13369307-13369334:+|nuORF ENST00000256951.9_1_12:13369307-13369334:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 319.1765441894531 3 319.17625 954.50692 2.3077 0.00073655 -0.18632 -5.9467E-05 2.1213 0.00067708 319.17614399435564 13.121 0.25773 13.764 13.612 13.87 0.64272 22 16 2 0 0 0 0.60101 1 5879 5879 13.906 0.86358 1 1002900 19627 6526 12542 12574 22326 22326 0.02784666976765493 MLREQVAQL 9 Unmodified _MLREQVAQL_ 0 0 0 ENSG00000177606|ENST00000371222|JUN ENSG00000177606|ENST00000371222|JUN ENSG00000177606|ENST00000371222|JUN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.3017578125 2 544.300059 1086.58556 3.7123 0.0020206 -0.50111 -0.00027275 3.2112 0.0017479 544.2996694172266 41.461 0.15797 41.732 41.684 41.842 0.27021 19 10 2 0 0 0 0.0061394 1 18898 18898 89.401 13.64 1 1649000 19628 5126 12543 12575 22327 22327 0.045734744911896996 MLREQVAQL 9 Unmodified _MLREQVAQL_ 0 0 0 ENSG00000177606|ENST00000371222|JUN ENSG00000177606|ENST00000371222|JUN ENSG00000177606|ENST00000371222|JUN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.8024291992188 2 544.300059 1086.58556 3.6777 0.0020018 -0.30222 -0.0001645 3.3755 0.0018373 544.2997313605648 40.889 0.18715 41.533 41.368 41.555 0.64451 21 10 3 0 0 0 0.097139 1 18664 18664 33.445 3.2201 1 3112200 19629 5126 12543 12575 22328 22328 0.045734744911896996 MLRNKLVRL 9 Unmodified _MLRNKLVRL_ 0 0 0 nc|ENSG00000177963|Q9NPQ8-4|RIC8A;ENSG00000177963|ENST00000526104|RIC8A;nc|ENSG00000177963|Q9NPQ8-3|RIC8A;nc|ENSG00000177963|Q9NPQ8-2|RIC8A nc|ENSG00000177963|Q9NPQ8-4|RIC8A nc|ENSG00000177963|Q9NPQ8-4|RIC8A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.57958984375 3 381.577866 1141.71177 2.8241 0.0010776 -0.51635 -0.00019703 2.3078 0.0008806 381.5776734267743 28.906 0.19067 29.166 29.047 29.237 0.2602 21 15 2 0 0 0 0.035495 1 13130 13130 53.404 32.989 1 544420 19630 5143 12544 12576 22329 22329 0.14658025787161932 MLRNKLVRL 9 Unmodified _MLRNKLVRL_ 0 0 0 nc|ENSG00000177963|Q9NPQ8-4|RIC8A;ENSG00000177963|ENST00000526104|RIC8A;nc|ENSG00000177963|Q9NPQ8-3|RIC8A;nc|ENSG00000177963|Q9NPQ8-2|RIC8A nc|ENSG00000177963|Q9NPQ8-4|RIC8A nc|ENSG00000177963|Q9NPQ8-4|RIC8A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.57843017578125 3 381.577866 1141.71177 2.6995 0.0010301 -0.51821 -0.00019774 2.1813 0.00083233 381.5777746804166 28.561 0.29497 29.18 29.026 29.321 0.61947 32 14 3 0 0 0 0.091193 2 13080 13080;13131 34.932 21.317 1 387540 19631 5143 12544 12576 22330;22331 22330 0.14658025787161932 MLRPRVTTL 9 Unmodified _MLRPRVTTL_ 0 0 0 nc|ENSG00000065000|O14617-3|AP3D1;nc|ENSG00000065000|O14617-2|AP3D1;nc|ENSG00000065000|O14617|AP3D1;ENSG00000065000|ENST00000643116|AP3D1;nc|ENSG00000065000|O14617-4|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.8877868652344 3 362.886588 1085.63793 2.6059 0.00094565 0.9698 0.00035193 3.5757 0.0012976 362.8864381278217 34.581 0.26476 34.835 34.672 34.936 0.25389 28 10 4 0 0 0 0.029308 1 15747 15747 51.415 41.871 1 1542800 19632 681 12545 12577 22332 22332 0.09854057624806956 MLRPRVTTL 9 Unmodified _MLRPRVTTL_ 0 0 0 nc|ENSG00000065000|O14617-3|AP3D1;nc|ENSG00000065000|O14617-2|AP3D1;nc|ENSG00000065000|O14617|AP3D1;ENSG00000065000|ENST00000643116|AP3D1;nc|ENSG00000065000|O14617-4|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.8303833007812 2 543.826243 1085.63793 3.4068 0.0018527 0.83982 0.00045671 4.2467 0.0023094 543.8266897245551 34.562 0.26476 34.816 34.672 34.936 0.25389 17 10 2 0 0 0 0.09451 1 15755 15755 34.102 20.196 1 995210 19633 681 12545 12577 22333 22333 0.09854057624806956 MLRPRVTTL 9 Unmodified _MLRPRVTTL_ 0 0 0 nc|ENSG00000065000|O14617-3|AP3D1;nc|ENSG00000065000|O14617-2|AP3D1;nc|ENSG00000065000|O14617|AP3D1;ENSG00000065000|ENST00000643116|AP3D1;nc|ENSG00000065000|O14617-4|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.88720703125 3 362.886588 1085.63793 2.4823 0.0009008 0.092076 3.3413E-05 2.5744 0.00093422 362.8864635409431 34.165 0.25965 34.785 34.677 34.937 0.62031 23 12 3 0 0 0 0.053453 1 15669 15669 35.612 24.813 1 1536100 19634 681 12545 12577 22334 22334 0.09854057624806956 MLRPVHQRR 9 Unmodified _MLRPVHQRR_ 0 0 0 REV__ENSG00000187961|ENST00000338591|KLHL17 REV__ENSG00000187961|ENST00000338591|KLHL17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 596.8458251953125 2 596.845833 1191.67711 NaN NaN NaN NaN NaN NaN NaN 43.388 1 44.203 43.703 44.703 0.81444 0 0 0 0.91238 1 19751 19751 0.52476 0 1 + 19635 14125 12546 12578 22335 22335 0.08894202699048037 MLSGIDILI 9 Unmodified _MLSGIDILI_ 0 0 0 ENSG00000180785|ENST00000396952|OR51E1 ENSG00000180785|ENST00000396952|OR51E1 ENSG00000180785|ENST00000396952|OR51E1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 974.893310546875 1 974.559081 973.551804 3.9569 0.0038563 -0.17384 -0.00016941 3.7831 0.0036868 974.5597032290076 94.926 0.26566 95.544 95.416 95.681 0.61736 15 11 2 0 0 0 0.20384 1 43603 43603 23.148 0 1 723420 19636 5263 12547 12579 22336 22336 0.06397052999443531 MLSSLNDECK 10 Unmodified _MLSSLNDECK_ 0 0 0 ENSG00000168143|ENST00000306858|FAM83B ENSG00000168143|ENST00000306858|FAM83B ENSG00000168143|ENST00000306858|FAM83B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.3106689453125 2 570.257199 1138.49985 3.3162 0.0018911 -0.82439 -0.00047011 2.4918 0.001421 570.2567502863938 53.663 0.21842 54.466 54.436 54.654 0.8035 14 10 2 0 0 0 0.11762 1 24568 24568 21.537 3.402 1 828210 19637 4611 12548 12580 22337 22337 -0.06386478476633783 MLWLWLHDWRR 11 Unmodified _MLWLWLHDWRR_ 0 0 0 nc|ENSG00000132768|Q9BQC3-3|DPH2 nc|ENSG00000132768|Q9BQC3-3|DPH2 nc|ENSG00000132768|Q9BQC3-3|DPH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 806.7908325195312 2 806.421905 1610.82926 NaN NaN NaN NaN NaN NaN NaN 108.59 1 109.19 108.69 109.69 0.60264 0 0 0 1.0082 1 50099 50099 0 0 1 19638 9643 12549 12581 22338 22338 0.04827558655915709 MLWRLHWRRLL 11 Unmodified _MLWRLHWRRLL_ 0 0 0 nc|ENSG00000204580|Q08345-2|DDR1;nc|ENSG00000204580|Q08345-6|DDR1;ENSG00000204580|ENST00000376568|DDR1;nc|ENSG00000204580|Q08345-5|DDR1;ENST00000465966.4_1_6:30861134-30864801:+|nuORF nc|ENSG00000204580|Q08345-2|DDR1 nc|ENSG00000204580|Q08345-2|DDR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 790.281005859375 2 790.461365 1578.90818 NaN NaN NaN NaN NaN NaN NaN 82.336 1 82.336 81.836 82.836 0 0 0 0 1.0071 1 41183 41183 1.4819 0 1 19639 6021 12550 12582 22339 22339 0.14187830680884872 MLYYYLWLRWR 11 Unmodified _MLYYYLWLRWR_ 0 0 0 ENST00000306621.7_1_4:76955462-76955498:-|nuORF ENST00000306621.7_1_4:76955462-76955498:-|nuORF ENST00000306621.7_1_4:76955462-76955498:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.9584350585938 3 554.958635 1661.85407 NaN NaN NaN NaN NaN NaN NaN 66.672 1 66.672 66.172 67.172 0 0 0 0 1.0082 1 31888 31888 0 0 1 19640 6842 12551 12583 22340 22340 0.04962193738629139 MMACCLSD 8 Unmodified _MMACCLSD_ 0 0 0 ENSG00000088256|ENST00000078429|GNA11;ENST00000586763.1_1_19:3094649-3114956:+|nuORF ENSG00000088256|ENST00000078429|GNA11 ENSG00000088256|ENST00000078429|GNA11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.15283203125 2 437.152302 872.290052 NaN NaN NaN NaN NaN NaN NaN 73.498 1 73.756 73.256 74.256 0.25876 0 0 0 0.99035 1 33760 33760 2.5775 0 1 19641 1010 12552 12584 22341 22341 -0.15120135954953184 MMAKKHLEI 9 Unmodified _MMAKKHLEI_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;ENST00000518337.1_1_8:74128289-74128592:-|nuORF;nc|ENSG00000183199|Q58FF7|HSP90AB3P;ENST00000505987.1_1_4:88814417-88815164:+|nuORF ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000183199|Q58FF7|HSP90AB3P ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 367.537353515625 3 367.536679 1099.58821 2.6092 0.00095897 -0.19043 -6.999E-05 2.4187 0.00088898 367.53662803677753 17.581 0.22432 18.242 18.121 18.345 0.66072 61 27 3 0 0 0 0.061685 1 7944 7944 42.312 28.698 1 1383600 19642 1127;9778 12553 12585 22342 22342 0.04239606624514636 MMAKKHLEI 9 Unmodified _MMAKKHLEI_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;ENST00000518337.1_1_8:74128289-74128592:-|nuORF;nc|ENSG00000183199|Q58FF7|HSP90AB3P;ENST00000505987.1_1_4:88814417-88815164:+|nuORF ENSG00000096384|ENST00000371646|HSP90AB1;nc|ENSG00000183199|Q58FF7|HSP90AB3P ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 367.536679 1099.58821 2.4719 0.0009085 0.017641 6.4838E-06 2.4895 0.00091498 367.5368510352341 17.674 0.42084 17.976 17.724 18.145 0.30159 -0.13287 0.000112 NaN 42.312 90 30 4 NaN NaN NaN NaN 0 NaN NaN 0 599190 19643 1127;9778 12553 12585 0.04239606624514636 MMDWDVNRFF 10 Unmodified _MMDWDVNRFF_ 0 0 0 REV__ENSG00000163558|ENST00000295797|PRKCI REV__ENSG00000163558|ENST00000295797|PRKCI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.20001220703125 3 454.198614 1359.57401 2.6739 0.0012145 2.2991 0.0010443 4.9731 0.0022588 454.19985090270455 44.324 0.25314 45.145 45.015 45.268 0.82075 28 13 3 0 0 0 0.90859 1 20206 20206 1.5923 0.26264 1 367590 + 19644 13003 12554 12586 22343 22343 -0.09139090594453592 MMDWDVNRFF 10 Unmodified _MMDWDVNRFF_ 0 0 0 REV__ENSG00000163558|ENST00000295797|PRKCI REV__ENSG00000163558|ENST00000295797|PRKCI MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 454.198614 1359.57401 2.7066 0.0012293 3.7696 0.0017121 6.4761 0.0029414 454.5346816132057 45.482 0.26945 45.482 45.346 45.616 0 0.16829 0.0009511 NaN 1.5923 20 12 2 NaN NaN NaN NaN 0 NaN NaN 0 344130 + 19645 13003 12554 12586 -0.09139090594453592 MMDWDVNRFF 10 Unmodified _MMDWDVNRFF_ 0 0 0 REV__ENSG00000163558|ENST00000295797|PRKCI REV__ENSG00000163558|ENST00000295797|PRKCI MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 454.198614 1359.57401 2.6739 0.0012145 2.2991 0.0010443 4.9731 0.0022588 454.19985090270455 44.324 0.25314 45.145 45.015 45.268 0.82075 -0.16829 -0.0010525 NaN 1.5923 28 13 3 NaN NaN NaN NaN 0 NaN NaN 0 367590 + 19646 13003 12554 12586 -0.09139090594453592 MMKLIINSL 9 Unmodified _MMKLIINSL_ 0 0 0 ENST00000548462.5_1_12:104324233-104336580:+|nuORF;ENSG00000166598|ENST00000299767|HSP90B1;ENST00000559111.1_1_15:99797871-99798159:+|nuORF ENST00000548462.5_1_12:104324233-104336580:+|nuORF ENST00000548462.5_1_12:104324233-104336580:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.8082275390625 2 531.806131 1061.59771 2.8634 0.0015228 0.27817 0.00014793 3.1415 0.0016707 531.8063613422768 72.136 0.26559 72.395 72.261 72.527 0.25876 48 26 2 0 0 0 0.0081238 2 33130 33083;33130 85.272 52.967 1 2269500 19647 4496 12555 12587 22344;22345 22345 0.0693737491005777 MMKLIINSL 9 Unmodified _MMKLIINSL_ 0 0 0 ENST00000548462.5_1_12:104324233-104336580:+|nuORF;ENSG00000166598|ENST00000299767|HSP90B1;ENST00000559111.1_1_15:99797871-99798159:+|nuORF ENST00000548462.5_1_12:104324233-104336580:+|nuORF ENST00000548462.5_1_12:104324233-104336580:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.8074951171875 2 531.806131 1061.59771 2.5876 0.0013761 -0.1527 -8.1206E-05 2.4349 0.0012949 531.806413195964 71.766 0.32036 72.429 72.286 72.606 0.66324 50 20 4 0 0 0 3.3938E-05 2 32912 32866;32912 139.14 82.961 1 2564500 19648 4496 12555 12587 22346;22347 22347 0.0693737491005777 MNAIREERDRL 11 Unmodified _MNAIREERDRL_ 0 0 0 nc|ENSG00000171444|P23508|MCC;ENSG00000171444|ENST00000408903|MCC;ENST00000505604.1_1_5:112437417-112440086:-|nuORF;ENST00000502648.5_1_5:112437417-112458501:-|nuORF nc|ENSG00000171444|P23508|MCC nc|ENSG00000171444|P23508|MCC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.2471618652344 3 468.245503 1401.71468 2.7636 0.001294 1.6109 0.0007543 4.3745 0.0020483 468.24628276863734 28.701 0.12367 28.962 28.856 28.98 0.2602 13 11 2 0 0 0 0.89309 1 13033 13033 1.1098 0 1 419600 19649 4801 12556 12588 22348 22348 0.02989204383334254 MNDNTTDNIRS 11 Unmodified _MNDNTTDNIRS_ 0 0 0 REV__ENSG00000130294|ENST00000498729|KIF1A REV__ENSG00000130294|ENST00000498729|KIF1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 427.858642578125 3 427.522702 1279.54628 3.2601 0.0013938 1.0031 0.00042884 4.2632 0.0018226 427.5231339878796 30.431 0.32619 30.689 30.517 30.843 0.25779 40 16 3 0 0 0 0.89844 1 13873 13873 1.0136 0.55906 1 740360 + 19650 11810 12557 12589 22349 22349 -0.08231322321012158 MNEQDIRYRD 10 Unmodified _MNEQDIRYRD_ 0 0 0 nc|ENSG00000137764|Q13163-4|MAP2K5;nc|ENSG00000137764|Q13163-2|MAP2K5;nc|ENSG00000137764|Q13163-3|MAP2K5;ENSG00000137764|ENST00000178640|MAP2K5;ENST00000560591.5_1_15:67835673-67951132:+|nuORF nc|ENSG00000137764|Q13163-4|MAP2K5 nc|ENSG00000137764|Q13163-4|MAP2K5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 670.6732788085938 2 670.3066 1338.59865 3.5471 0.0023776 -0.55776 -0.00037387 2.9893 0.0020037 670.3065600391551 14.505 0.23075 14.812 14.711 14.942 0.3069 35 14 4 0 0 0 0.12676 1 6614 6614 1.4819 0 1 1277500 19651 3037 12558 12590 22350 22350 -0.05710739187361469 MNHNYMYWYRQ 11 Unmodified _MNHNYMYWYRQ_ 0 0 0 nc|ENSG00000211724|A0A0A6YYG2|TRBV6-6 nc|ENSG00000211724|A0A0A6YYG2|TRBV6-6 nc|ENSG00000211724|A0A0A6YYG2|TRBV6-6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 803.3394775390625 2 803.33992 1604.66529 NaN NaN NaN NaN NaN NaN NaN 88.382 1 88.434 87.934 88.934 0.052155 0 0 0 1.0082 1 44999 44999 0 0 1 19652 9822 12559 12591 22351 22351 -0.11285826897119478 MNHNYMYWYRQ 11 Unmodified _MNHNYMYWYRQ_ 0 0 0 nc|ENSG00000211724|A0A0A6YYG2|TRBV6-6 nc|ENSG00000211724|A0A0A6YYG2|TRBV6-6 nc|ENSG00000211724|A0A0A6YYG2|TRBV6-6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 803.3397827148438 2 803.33992 1604.66529 NaN NaN NaN NaN NaN NaN NaN 91.649 1 91.732 91.232 92.232 0.082848 0 0 0 1.0082 1 47553 47553 0 0 1 19653 9822 12559 12591 22352 22352 -0.11285826897119478 MNKYKVVL 8 Unmodified _MNKYKVVL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.7933654785156 2 497.791338 993.568123 3.5318 0.0017581 0.38054 0.00018943 3.9123 0.0019475 497.79158335244296 32.262 0.28516 32.517 32.364 32.649 0.25452 38 22 2 0 0 0 0.051348 1 14662 14662 67.344 41.003 1 1831900 19654 1384 12560 12592 22353 22353 0.07108178956207212 MNKYKVVL 8 Unmodified _MNKYKVVL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 332.1974792480469 3 332.196651 993.568123 2.7146 0.00090178 -0.50467 -0.00016765 2.2099 0.00073413 332.196566968602 32.255 0.31355 32.51 32.335 32.649 0.25452 62 24 3 0 0 0 0.38743 1 14713 14713 29.082 5.061 1 3107900 19655 1384 12560 12592 22354 22354 0.07108178956207212 MNKYKVVL 8 Unmodified _MNKYKVVL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.79327392578125 2 497.791338 993.568123 3.2039 0.0015949 0.58892 0.00029316 3.7928 0.001888 497.79160978370584 31.665 0.27171 32.282 32.11 32.381 0.61736 45 25 2 0 0 0 0.051348 1 14488 14488 57.471 32.797 1 2385700 19656 1384 12560 12592 22355 22355 0.07108178956207212 MNKYKVVL 8 Unmodified _MNKYKVVL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.19732666015625 3 332.196651 993.568123 2.2638 0.00075202 -0.03032 -1.0072E-05 2.2335 0.00074195 332.1967010956006 31.674 0.28466 32.292 32.11 32.394 0.61737 62 26 3 0 0 0 0.36624 1 14523 14523 30.637 5.2372 1 3140000 19657 1384 12560 12592 22356 22356 0.07108178956207212 MNLYSKST 8 Unmodified _MNLYSKST_ 0 0 0 REV__nc|ENSG00000175198|P05165-3|PCCA REV__nc|ENSG00000175198|P05165-3|PCCA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 315.15789794921875 3 315.156632 942.448068 NaN NaN NaN NaN NaN NaN NaN 65.89 1 66.599 66.099 67.099 0.70891 0 0 0 0.99035 1 31196 31196 1.4819 0 1 + 19658 13664 12561 12593 22357 22357 -0.02545854108200274 MNSPTGLKAK 10 Unmodified _MNSPTGLKAK_ 0 0 0 REV__ENSG00000165632|ENST00000344293|TAF3 REV__ENSG00000165632|ENST00000344293|TAF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.6309204101562 2 523.786784 1045.55902 NaN NaN NaN NaN NaN NaN NaN 14.588 1 15.239 14.739 15.739 0.65136 0 0 0 0.9754 1 6570 6570 9.3831 0 1 + 19659 13172 12562 12594 22358 22358 0.03805785599865885 MNTWIQAI 8 Unmodified _MNTWIQAI_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.7517395019531 2 488.74967 975.484787 NaN NaN NaN NaN NaN NaN NaN 53.659 1 54.323 53.823 54.823 0.6644 0 0 0 0.89651 1 24539 24539 12.532 0 1 19660 1960 12563 12595 22359 22359 -0.003935574916454243 MPAAQEGAVAF 11 Unmodified _MPAAQEGAVAF_ 0 0 0 nc|ENSG00000231925|O15533-4|TAPBP;nc|ENSG00000231925|O15533-2|TAPBP;ENSG00000231925|ENST00000434618|TAPBP;nc|ENSG00000231925|O15533-3|TAPBP;ENST00000480730.5_1_6:33272736-33281818:-|nuORF nc|ENSG00000231925|O15533-4|TAPBP nc|ENSG00000231925|O15533-4|TAPBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.2645874023438 2 546.263142 1090.51173 2.8142 0.0015373 -0.32877 -0.0001796 2.4855 0.0013577 546.2627553956535 55.043 0.37923 55.83 55.666 56.046 0.78711 40 25 2 0 0 0 0.057399 1 25113 25113 45.74 20.341 1 633530 19661 6185 12564 12596 22360 22360 -0.02990493671131844 MPAAQEGAVAF 11 Unmodified _MPAAQEGAVAF_ 0 0 0 nc|ENSG00000231925|O15533-4|TAPBP;nc|ENSG00000231925|O15533-2|TAPBP;ENSG00000231925|ENST00000434618|TAPBP;nc|ENSG00000231925|O15533-3|TAPBP;ENST00000480730.5_1_6:33272736-33281818:-|nuORF nc|ENSG00000231925|O15533-4|TAPBP nc|ENSG00000231925|O15533-4|TAPBP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.2822265625 2 546.263142 1090.51173 3.4305 0.001874 -1.1516 -0.00062908 2.2789 0.0012449 546.2616461662521 55.819 0.31804 56.084 55.961 56.279 0.26543 20 13 2 0 0 0 0.13089 1 25507 25507 32.037 12.78 1 660850 19662 6185 12564 12596 22361 22361 -0.02990493671131844 MPAAQEGAVAF 11 Unmodified _MPAAQEGAVAF_ 0 0 0 nc|ENSG00000231925|O15533-4|TAPBP;nc|ENSG00000231925|O15533-2|TAPBP;ENSG00000231925|ENST00000434618|TAPBP;nc|ENSG00000231925|O15533-3|TAPBP;ENST00000480730.5_1_6:33272736-33281818:-|nuORF nc|ENSG00000231925|O15533-4|TAPBP nc|ENSG00000231925|O15533-4|TAPBP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 546.263142 1090.51173 3.5316 0.0019292 -1.2693 -0.00069338 2.2623 0.0012358 546.2624295034667 55.894 0.26871 55.894 55.81 56.079 0 -0.0056106 -0.00060091 NaN 45.74 33 19 2 NaN NaN NaN NaN 0 NaN NaN 0 781900 19663 6185 12564 12596 -0.02990493671131844 MPAAQEGAVAF 11 Unmodified _MPAAQEGAVAF_ 0 0 0 nc|ENSG00000231925|O15533-4|TAPBP;nc|ENSG00000231925|O15533-2|TAPBP;ENSG00000231925|ENST00000434618|TAPBP;nc|ENSG00000231925|O15533-3|TAPBP;ENST00000480730.5_1_6:33272736-33281818:-|nuORF nc|ENSG00000231925|O15533-4|TAPBP nc|ENSG00000231925|O15533-4|TAPBP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 546.263142 1090.51173 3.5194 0.0019225 -0.12611 -6.889E-05 3.3933 0.0018536 546.2626773958164 55.122 0.34479 55.79 55.631 55.976 0.66798 -0.10946 0.00064807 NaN 45.74 23 13 2 NaN NaN NaN NaN 0 NaN NaN 0 879520 19664 6185 12564 12596 -0.02990493671131844 MPAEEFREL 9 Unmodified _MPAEEFREL_ 0 0 0 ENST00000427443.5_1_16:58550827-58552930:+|nuORF;ENST00000463954.1_1_16:58551888-58552930:+|nuORF;nc|ENSG00000103037|Q8TBK2-2|SETD6;ENSG00000103037|ENST00000219315|SETD6 ENST00000427443.5_1_16:58550827-58552930:+|nuORF ENST00000427443.5_1_16:58550827-58552930:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.2698974609375 2 561.268424 1120.5223 3.5186 0.0019749 0.79664 0.00044713 4.3152 0.002422 561.2691386230739 50.009 0.25018 50.666 50.532 50.783 0.65735 12 8 2 0 0 0 0.59921 1 22877 22877 10.8 2.2062 1 122520 19665 1369 12565 12597 22362 22362 -0.03314511016696997 MPAETIKEL 9 Unmodified _MPAETIKEL_ 0 0 0 ENSG00000122870|ENST00000373886|BICC1;nc|ENSG00000122870|Q9H694-2|BICC1 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.277099609375 2 516.275718 1030.53688 3.193 0.0016485 -0.50304 -0.00025971 2.69 0.0013888 516.2755591435453 43.793 0.5611 43.793 43.579 44.14 0 110 47 4 0 0 0 0.0013314 4 19945 19900;19945;19990;20046 118.07 49.988 1 13313000 19666 2285 12566 12598 22363;22364;22365;22366 22364 0.022835611314576454 MPAETIKEL 9 Unmodified _MPAETIKEL_ 0 0 0 ENSG00000122870|ENST00000373886|BICC1;nc|ENSG00000122870|Q9H694-2|BICC1 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.2779541015625 2 516.275718 1030.53688 3.2379 0.0016716 -0.52438 -0.00027072 2.7135 0.0014009 516.275520449246 42.631 0.40269 43.44 43.327 43.73 0.80855 125 57 3 0 0 0 0.00068611 5 19368 19328;19368;19414;19459;19512 129.77 64.537 1 13692000 19667 2285 12566 12598 22367;22368;22369;22370;22371 22368 0.022835611314576454 MPAETIKEL 9 Unmodified _MPAETIKEL_ 0 0 0 ENSG00000122870|ENST00000373886|BICC1;nc|ENSG00000122870|Q9H694-2|BICC1 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.2776489257812 2 516.275718 1030.53688 3.3181 0.001713 -0.71392 -0.00036858 2.6041 0.0013444 516.2752960816352 43.704 0.73241 43.973 43.599 44.331 0.2694 115 47 4 0 0 0 0.0013314 7 19916 19810;19864;19916;19976;20016;20022;20105 118.07 49.988 1 7785900 19668 2285 12566 12598 22372;22373;22374;22375;22376;22377;22378 22374 0.022835611314576454 MPAETIKEL 9 Unmodified _MPAETIKEL_ 0 0 0 ENSG00000122870|ENST00000373886|BICC1;nc|ENSG00000122870|Q9H694-2|BICC1 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.2770385742188 2 516.275718 1030.53688 3.5714 0.0018438 -0.55415 -0.00028609 3.0173 0.0015577 516.2754272986681 43.097 0.79805 43.746 43.359 44.157 0.64872 118 48 3 0 0 0 0.0013314 7 19657 19611;19657;19706;19750;19796;19853;19893 118.07 49.988 1 7271100 19669 2285 12566 12598 22379;22380;22381;22382;22383;22384;22385 22380 0.022835611314576454 MPAETIKEL 9 Unmodified _MPAETIKEL_ 0 0 0 ENSG00000122870|ENST00000373886|BICC1;nc|ENSG00000122870|Q9H694-2|BICC1 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 516.275718 1030.53688 3.2267 0.0016659 1.3084 0.00067547 4.535 0.0023413 516.2766618184615 43.06 0.078976 43.875 43.813 43.892 0.81444 0.028119 0.0019423 NaN 118.07 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 3277400 19670 2285 12566 12598 0.022835611314576454 MPAETIKEL 9 Oxidation (M) _M(Oxidation (M))PAETIKEL_ M(1)PAETIKEL M(86)PAETIKEL 0 0 1 ENSG00000122870|ENST00000373886|BICC1;nc|ENSG00000122870|Q9H694-2|BICC1 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.2750244140625 2 524.273175 1046.5318 3.3319 0.0017468 -0.12509 -6.5582E-05 3.2068 0.0016813 524.2729947194666 34.723 0.21072 34.977 34.791 35.002 0.25389 14 9 2 0 0 0 0.0076144 1 15797 15797 86.332 27.653 1 1118500 19671 2285 12566 12599 22386 22386 22 0.01039257268826077 MPAETIKEL 9 Oxidation (M) _M(Oxidation (M))PAETIKEL_ M(1)PAETIKEL M(73)PAETIKEL 0 0 1 ENSG00000122870|ENST00000373886|BICC1;nc|ENSG00000122870|Q9H694-2|BICC1 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.2754516601562 2 524.273175 1046.5318 3.2872 0.0017234 0.22922 0.00012017 3.5164 0.0018436 524.2731922472822 34.564 0.30046 35.187 34.987 35.288 0.62294 17 10 2 0 0 0 0.016529 1 15834 15834 72.968 31.128 1 512420 19672 2285 12566 12599 22387 22387 22 0.01039257268826077 MPAETIKEL 9 Oxidation (M) _M(Oxidation (M))PAETIKEL_ 0 0 1 ENSG00000122870|ENST00000373886|BICC1;nc|ENSG00000122870|Q9H694-2|BICC1 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 524.273175 1046.5318 3.0311 0.0015891 0.28606 0.00014997 3.3172 0.0017391 524.2732667513966 33.92 0.19546 34.709 34.61 34.806 0.78921 -0.14548 0.0003712 NaN 86.332 22 12 2 NaN NaN NaN NaN 0 NaN NaN 0 416310 19673 2285 12566 12599 22 0.01039257268826077 MPAETIKEL 9 Oxidation (M) _M(Oxidation (M))PAETIKEL_ 0 0 1 ENSG00000122870|ENST00000373886|BICC1;nc|ENSG00000122870|Q9H694-2|BICC1 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 524.273175 1046.5318 3.2533 0.0017056 -0.123 -6.4485E-05 3.1304 0.0016412 524.2731295348322 34.255 0.2114 34.878 34.776 34.987 0.62294 0.023106 -5.7713E-05 NaN 86.332 15 8 3 NaN NaN NaN NaN 0 NaN NaN 0 665130 19674 2285 12566 12599 22 0.01039257268826077 MPAFIFEHI 9 Unmodified _MPAFIFEHI_ 0 0 0 nc|ENSG00000137575|O00560-3|SDCBP;nc|ENSG00000137575|O00560-2|SDCBP;ENSG00000137575|ENST00000260130|SDCBP nc|ENSG00000137575|O00560-3|SDCBP nc|ENSG00000137575|O00560-3|SDCBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.78466796875 2 552.78097 1103.54739 3.5718 0.0019744 0.29694 0.00016414 3.8687 0.0021386 552.7811043117111 79.838 0.24528 80.499 80.44 80.686 0.66082 19 13 2 0 0 0 0.071101 1 36823 36823 39.957 25.376 1 480320 19675 3029 12567 12600 22388 22388 -0.00024411423441961233 MPALAPPEVVM 11 Unmodified _MPALAPPEVVM_ 0 0 0 ENST00000455094.1_1_6:30454046-30454364:+|nuORF;ENSG00000132341|ENST00000543796|RAN ENST00000455094.1_1_6:30454046-30454364:+|nuORF ENST00000455094.1_1_6:30454046-30454364:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.7252807617188 2 577.801045 1153.58754 3.1454 0.0018174 2.5259 0.0014595 5.6713 0.0032769 577.801482367476 81.19 0.19498 81.438 81.332 81.527 0.24803 16 11 2 0 0 0 0.74281 1 37344 37344 9.3831 3.6513 1 493550 19676 2692 12568 12601 22389 22389 0.016887671848053287 MPALAPPEVVM 11 Unmodified _MPALAPPEVVM_ 0 0 0 ENST00000455094.1_1_6:30454046-30454364:+|nuORF;ENSG00000132341|ENST00000543796|RAN ENST00000455094.1_1_6:30454046-30454364:+|nuORF ENST00000455094.1_1_6:30454046-30454364:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.8030395507812 2 577.801045 1153.58754 NaN NaN NaN NaN NaN NaN NaN 80.677 1 81.337 80.837 81.837 0.65998 0 0 0 0.87973 1 37175 37175 18.146 2.2992 1 19677 2692 12568 12601 22390 22390 0.016887671848053287 MPALFSDHTF 10 Unmodified _MPALFSDHTF_ 0 0 0 ENST00000525268.2_1_11:77612547-77635854:-|nuORF;ENST00000533180.1_1_11:77612465-77632469:-|nuORF;nc|ENSG00000149262|Q96HW7-3|INTS4;ENST00000433818.6_1_11:77629258-77692594:-|nuORF;ENSG00000149262|ENST00000534064|INTS4 ENST00000525268.2_1_11:77612547-77635854:-|nuORF ENST00000525268.2_1_11:77612547-77635854:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.2672119140625 2 583.270967 1164.52738 NaN NaN NaN NaN NaN NaN NaN 69.822 1 70.077 69.577 70.577 0.25479 0 0 0 0.30445 1 31973 31973 37.974 20.861 1 19678 3636 12569 12602 22391 22391 -0.048302071540774705 MPALFSDHTF 10 Unmodified _MPALFSDHTF_ 0 0 0 ENST00000525268.2_1_11:77612547-77635854:-|nuORF;ENST00000533180.1_1_11:77612465-77632469:-|nuORF;nc|ENSG00000149262|Q96HW7-3|INTS4;ENST00000433818.6_1_11:77629258-77692594:-|nuORF;ENSG00000149262|ENST00000534064|INTS4 ENST00000525268.2_1_11:77612547-77635854:-|nuORF ENST00000525268.2_1_11:77612547-77635854:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.2728881835938 2 583.270967 1164.52738 NaN NaN NaN NaN NaN NaN NaN 69.216 1 69.877 69.377 70.377 0.66071 0 0 0 0.031039 1 31728 31728 71.134 42.052 1 19679 3636 12569 12602 22392 22392 -0.048302071540774705 MPANGETVTL 10 Unmodified _MPANGETVTL_ 0 0 0 nc|ENSG00000127054|Q5TA45-2|INTS11;nc|ENSG00000127054|Q5TA45-4|INTS11;nc|ENSG00000127054|Q5TA45-3|INTS11;ENSG00000127054|ENST00000435064|INTS11;nc|ENSG00000127054|Q5TA45-5|INTS11;ENST00000497304.6_1_1:1247871-1248066:-|nuORF;ENST00000485710.5_1_1:1247522-1249186:-|nuORF;ENST00000470030.6_1_1:1247241-1248711:-|nuORF nc|ENSG00000127054|Q5TA45-2|INTS11 nc|ENSG00000127054|Q5TA45-2|INTS11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.7561645507812 2 516.755149 1031.49575 3.2321 0.0016702 -0.40804 -0.00021086 2.8241 0.0014594 516.7549017197321 50.268 0.75859 50.268 50.009 50.767 0 85 40 3 0 0 0 0.018878 3 22965 22965;23023;23082 81.89 38.032 1 1527700 19680 2473 12570 12603 22393;22394;22395 22393 -0.018741999080248206 MPANGETVTL 10 Unmodified _MPANGETVTL_ 0 0 0 nc|ENSG00000127054|Q5TA45-2|INTS11;nc|ENSG00000127054|Q5TA45-4|INTS11;nc|ENSG00000127054|Q5TA45-3|INTS11;ENSG00000127054|ENST00000435064|INTS11;nc|ENSG00000127054|Q5TA45-5|INTS11;ENST00000497304.6_1_1:1247871-1248066:-|nuORF;ENST00000485710.5_1_1:1247522-1249186:-|nuORF;ENST00000470030.6_1_1:1247241-1248711:-|nuORF nc|ENSG00000127054|Q5TA45-2|INTS11 nc|ENSG00000127054|Q5TA45-2|INTS11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1032.5068359375 1 1032.50302 1031.49575 3.3687 0.0034782 -0.066667 -6.8833E-05 3.3021 0.0034094 1032.5034897095968 50.233 0.53634 50.233 50.072 50.608 0 40 25 2 0 0 0 0.019545 2 23009 23009;23087 75.761 45.92 1 599140 19681 2473 12570 12603 22396;22397 22396 -0.018741999080248206 MPANGETVTL 10 Unmodified _MPANGETVTL_ 0 0 0 nc|ENSG00000127054|Q5TA45-2|INTS11;nc|ENSG00000127054|Q5TA45-4|INTS11;nc|ENSG00000127054|Q5TA45-3|INTS11;ENSG00000127054|ENST00000435064|INTS11;nc|ENSG00000127054|Q5TA45-5|INTS11;ENST00000497304.6_1_1:1247871-1248066:-|nuORF;ENST00000485710.5_1_1:1247522-1249186:-|nuORF;ENST00000470030.6_1_1:1247241-1248711:-|nuORF nc|ENSG00000127054|Q5TA45-2|INTS11 nc|ENSG00000127054|Q5TA45-2|INTS11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.7565307617188 2 516.755149 1031.49575 3.4268 0.0017708 -0.71579 -0.00036989 2.711 0.0014009 516.7548028935712 49.403 0.82471 50.227 49.933 50.757 0.82396 99 42 3 0 0 0 0.019545 5 22509 22418;22462;22509;22563;22632 75.761 33.921 1 1232200 19682 2473 12570 12603 22398;22399;22400;22401;22402 22400 -0.018741999080248206 MPANGETVTL 10 Unmodified _MPANGETVTL_ 0 0 0 nc|ENSG00000127054|Q5TA45-2|INTS11;nc|ENSG00000127054|Q5TA45-4|INTS11;nc|ENSG00000127054|Q5TA45-3|INTS11;ENSG00000127054|ENST00000435064|INTS11;nc|ENSG00000127054|Q5TA45-5|INTS11;ENST00000497304.6_1_1:1247871-1248066:-|nuORF;ENST00000485710.5_1_1:1247522-1249186:-|nuORF;ENST00000470030.6_1_1:1247241-1248711:-|nuORF nc|ENSG00000127054|Q5TA45-2|INTS11 nc|ENSG00000127054|Q5TA45-2|INTS11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.7571411132812 2 516.755149 1031.49575 3.3862 0.0017498 -1.1475 -0.00059299 2.2387 0.0011568 516.7544957532343 50.131 0.85574 50.392 50.108 50.964 0.26146 73 36 3 0 0 0 0.059328 3 22854 22854;22905;22970 60.074 25.672 1 1463900 19683 2473 12570 12603 22403;22404;22405 22403 -0.018741999080248206 MPANGETVTL 10 Unmodified _MPANGETVTL_ 0 0 0 nc|ENSG00000127054|Q5TA45-2|INTS11;nc|ENSG00000127054|Q5TA45-4|INTS11;nc|ENSG00000127054|Q5TA45-3|INTS11;ENSG00000127054|ENST00000435064|INTS11;nc|ENSG00000127054|Q5TA45-5|INTS11;ENST00000497304.6_1_1:1247871-1248066:-|nuORF;ENST00000485710.5_1_1:1247522-1249186:-|nuORF;ENST00000470030.6_1_1:1247241-1248711:-|nuORF nc|ENSG00000127054|Q5TA45-2|INTS11 nc|ENSG00000127054|Q5TA45-2|INTS11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1032.50537109375 1 1032.50302 1031.49575 3.3428 0.0034515 -0.63574 -0.0006564 2.7071 0.0027951 1032.502446357754 50.122 0.4265 50.384 50.193 50.619 0.26146 20 15 2 0 0 0 0.091802 1 22937 22937 53.833 23.992 1 458170 19684 2473 12570 12603 22406 22406 -0.018741999080248206 MPANGETVTL 10 Unmodified _MPANGETVTL_ 0 0 0 nc|ENSG00000127054|Q5TA45-2|INTS11;nc|ENSG00000127054|Q5TA45-4|INTS11;nc|ENSG00000127054|Q5TA45-3|INTS11;ENSG00000127054|ENST00000435064|INTS11;nc|ENSG00000127054|Q5TA45-5|INTS11;ENST00000497304.6_1_1:1247871-1248066:-|nuORF;ENST00000485710.5_1_1:1247522-1249186:-|nuORF;ENST00000470030.6_1_1:1247241-1248711:-|nuORF nc|ENSG00000127054|Q5TA45-2|INTS11 nc|ENSG00000127054|Q5TA45-2|INTS11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.7559814453125 2 516.755149 1031.49575 3.4519 0.0017838 -1.1134 -0.00057536 2.3385 0.0012084 516.7544287027304 49.565 0.77086 50.222 50.012 50.783 0.65735 57 29 3 0 0 0 0.059328 4 22622 22622;22680;22738;22788 60.074 20.117 1 1363400 19685 2473 12570 12603 22407;22408;22409;22410 22407 -0.018741999080248206 MPANGETVTL 10 Unmodified _MPANGETVTL_ 0 0 0 nc|ENSG00000127054|Q5TA45-2|INTS11;nc|ENSG00000127054|Q5TA45-4|INTS11;nc|ENSG00000127054|Q5TA45-3|INTS11;ENSG00000127054|ENST00000435064|INTS11;nc|ENSG00000127054|Q5TA45-5|INTS11;ENST00000497304.6_1_1:1247871-1248066:-|nuORF;ENST00000485710.5_1_1:1247522-1249186:-|nuORF;ENST00000470030.6_1_1:1247241-1248711:-|nuORF nc|ENSG00000127054|Q5TA45-2|INTS11 nc|ENSG00000127054|Q5TA45-2|INTS11 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 1032.50302 1031.49575 3.6235 0.0037413 -0.66761 -0.00068931 2.9559 0.003052 1032.5022915042575 49.421 0.40835 50.244 50.001 50.41 0.82285 -0.031961 -0.00011887 NaN 75.761 27 20 2 NaN NaN NaN NaN 0 NaN NaN 0 369430 19686 2473 12570 12603 -0.018741999080248206 MPANGETVTL 10 Unmodified _MPANGETVTL_ 0 0 0 nc|ENSG00000127054|Q5TA45-2|INTS11;nc|ENSG00000127054|Q5TA45-4|INTS11;nc|ENSG00000127054|Q5TA45-3|INTS11;ENSG00000127054|ENST00000435064|INTS11;nc|ENSG00000127054|Q5TA45-5|INTS11;ENST00000497304.6_1_1:1247871-1248066:-|nuORF;ENST00000485710.5_1_1:1247522-1249186:-|nuORF;ENST00000470030.6_1_1:1247241-1248711:-|nuORF nc|ENSG00000127054|Q5TA45-2|INTS11 nc|ENSG00000127054|Q5TA45-2|INTS11 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 1032.50302 1031.49575 3.6053 0.0037225 -1.0059 -0.0010386 2.5994 0.0026839 1032.5019177417453 49.586 0.37997 50.243 50.039 50.419 0.65735 -0.032989 -0.00046814 NaN 75.761 21 13 2 NaN NaN NaN NaN 0 NaN NaN 0 420790 19687 2473 12570 12603 -0.018741999080248206 MPCDEESGRCL 11 2 Carbamidomethyl (C) _MPC(Carbamidomethyl (C))DEESGRC(Carbamidomethyl (C))L_ MPC(1)DEESGRC(1)L MPC(53)DEESGRC(53)L 0 2 0 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 677.2687377929688 2 677.265229 1352.51591 3.8444 0.0026037 -0.26397 -0.00017878 3.5804 0.0024249 677.2653271714519 26.923 0.43179 26.923 26.733 27.164 0 60 27 3 0 0 0 0.039944 1 12121 12121 53.317 43.934 1 521270 19688 5780 12571 12604 22411 22411 93;94 -0.14625140302018735 MPCDEESGRCL 11 2 Carbamidomethyl (C) _MPC(Carbamidomethyl (C))DEESGRC(Carbamidomethyl (C))L_ MPC(1)DEESGRC(1)L MPC(50)DEESGRC(50)L 0 2 0 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.2674560546875 2 677.265229 1352.51591 3.5805 0.002425 -0.040802 -2.7633E-05 3.5397 0.0023973 677.2652997351123 25.838 0.50788 26.602 26.447 26.954 0.76356 68 30 3 0 0 0 0.059527 1 11593 11593 49.742 36.699 1 372570 19689 5780 12571 12604 22412 22412 93;94 -0.14625140302018735 MPDDLLTTL 9 Oxidation (M) _M(Oxidation (M))PDDLLTTL_ M(1)PDDLLTTL M(110)PDDLLTTL 0 0 1 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.7586669921875 2 517.757358 1033.50016 2.6564 0.0013754 0.23609 0.00012224 2.8925 0.0014976 517.7575991311619 75.982 0.58044 75.982 75.71 76.291 0 111 46 4 0 0 0 0.00147 4 37214 37171;37214;37263;37317 109.63 58.774 1 4990200 19690 2505 12572 12605 22413;22414;22415;22416 22414 34 -0.015247354851226191 MPDDLLTTL 9 Oxidation (M) _M(Oxidation (M))PDDLLTTL_ M(1)PDDLLTTL M(44)PDDLLTTL 0 0 1 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1034.51123046875 1 1034.50744 1033.50016 2.8113 0.0029083 0.56575 0.00058527 3.3771 0.0034936 1034.5087602056508 75.927 0.34984 75.927 75.79 76.14 0 29 24 2 0 0 0 0.056465 1 37209 37209 44.407 22.66 1 1008800 19691 2505 12572 12605 22417 22417 34 -0.015247354851226191 MPDDLLTTL 9 Oxidation (M) _M(Oxidation (M))PDDLLTTL_ M(1)PDDLLTTL M(110)PDDLLTTL 0 0 1 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 517.7583618164062 2 517.757358 1033.50016 2.8718 0.0014869 -0.41426 -0.00021449 2.4575 0.0012724 517.7572857074456 75.156 0.46673 75.82 75.652 76.119 0.6635 72 31 3 0 0 0 0.00147 2 36389 36326;36389 109.63 56.054 1 6008200 19692 2505 12572 12605 22418;22419 22419 34 -0.015247354851226191 MPDDLLTTL 9 Oxidation (M) _M(Oxidation (M))PDDLLTTL_ M(1)PDDLLTTL M(130)PDDLLTTL 0 0 1 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.759033203125 2 517.757358 1033.50016 3.1742 0.0016435 -0.35868 -0.00018571 2.8156 0.0014578 517.7573407823877 75.699 0.52952 75.956 75.743 76.272 0.25704 144 45 4 0 0 0 0.00054818 4 34879 34788;34831;34879;34925 131.3 65.222 1 9328300 19693 2505 12572 12605 22420;22421;22422;22423 22422 34 -0.015247354851226191 MPDDLLTTL 9 Oxidation (M) _M(Oxidation (M))PDDLLTTL_ M(1)PDDLLTTL M(78)PDDLLTTL 0 0 1 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1034.5120849609375 1 1034.50744 1033.50016 3.1296 0.0032376 0.64098 0.0006631 3.7706 0.0039007 1034.5080244309072 75.714 0.38129 75.971 75.805 76.187 0.25704 55 30 2 0 0 0 0.012869 3 34845 34794;34845;34895 77.984 29.638 1 1375400 19694 2505 12572 12605 22424;22425;22426 22425 34 -0.015247354851226191 MPDDLLTTL 9 Oxidation (M) _M(Oxidation (M))PDDLLTTL_ M(1)PDDLLTTL M(130)PDDLLTTL 0 0 1 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.7586059570312 2 517.757358 1033.50016 2.9864 0.0015462 -0.37309 -0.00019317 2.6133 0.001353 517.757262451716 75.232 0.56161 75.896 75.654 76.216 0.6644 135 46 4 0 0 0 0.00054818 4 34635 34592;34635;34683;34733 131.3 70.908 1 9378200 19695 2505 12572 12605 22427;22428;22429;22430 22428 34 -0.015247354851226191 MPDDLLTTL 9 Oxidation (M) _M(Oxidation (M))PDDLLTTL_ M(1)PDDLLTTL M(78)PDDLLTTL 0 0 1 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1034.5106201171875 1 1034.50744 1033.50016 3.1389 0.0032472 -0.16754 -0.00017332 2.9714 0.0030739 1034.5076838706332 75.19 0.37762 75.854 75.742 76.119 0.6644 62 29 3 0 0 0 0.012869 2 34643 34643;34691 77.984 20.513 1 1592700 19696 2505 12572 12605 22431;22432 22431 34 -0.015247354851226191 MPDDLLTTL 9 Unmodified _MPDDLLTTL_ 0 0 0 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.7615661621094 2 509.759901 1017.50525 2.6361 0.0013438 0.32544 0.0001659 2.9616 0.0015097 509.7600896830288 84.411 0.29612 84.411 84.275 84.571 0 82 35 3 0 0 0 0.0026885 2 42703 42703;42770 97.075 39.603 1 20640000 19697 2505 12572 12606 22433;22434 22433 -0.002804316225024195 MPDDLLTTL 9 Unmodified _MPDDLLTTL_ 0 0 0 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1018.52099609375 1 1018.51252 1017.50525 2.9438 0.0029983 -0.042603 -4.3392E-05 2.9012 0.0029549 1018.5135053745178 84.416 0.15695 84.416 84.33 84.487 0 18 17 2 0 0 0 0.086747 1 42728 42728 36.044 7.5574 1 13021000 19698 2505 12572 12606 22435 22435 -0.002804316225024195 MPDDLLTTL 9 Unmodified _MPDDLLTTL_ 0 0 0 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 509.7615661621094 2 509.759901 1017.50525 2.3724 0.0012093 0.27515 0.00014026 2.6475 0.0013496 509.76013325498735 83.56 0.33646 83.605 83.417 83.753 0.045006 89 42 3 0 0 0 0.0026885 2 41533 41460;41533 97.075 27.129 1 28713000 19699 2505 12572 12606 22436;22437 22437 -0.002804316225024195 MPDDLLTTL 9 Unmodified _MPDDLLTTL_ 0 0 0 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.7615966796875 2 509.759901 1017.50525 3.3108 0.0016877 -0.25521 -0.00013009 3.0556 0.0015576 509.76003612356305 83.991 0.60919 84.238 83.938 84.547 0.24722 128 34 5 0 0 0 0.0080831 4 38677 38573;38625;38677;38725 85.357 27.885 1 55730000 19700 2505 12572 12606 22438;22439;22440;22441 22440 -0.002804316225024195 MPDDLLTTL 9 Unmodified _MPDDLLTTL_ 0 0 0 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1018.5159301757812 1 1018.51252 1017.50525 3.4336 0.0034972 -0.069361 -7.0645E-05 3.3643 0.0034265 1018.5127617152332 83.976 0.44566 84.224 83.988 84.433 0.24722 78 24 4 0 0 0 0.028312 2 38676 38584;38676 57.471 9.1255 1 12460000 19701 2505 12572 12606 22442;22443 22443 -0.002804316225024195 MPDDLLTTL 9 Unmodified _MPDDLLTTL_ 0 0 0 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.76171875 2 509.759901 1017.50525 3.4673 0.0017675 -0.55712 -0.000284 2.9101 0.0014835 509.7598816069056 83.511 0.72377 84.173 83.852 84.575 0.66219 162 46 5 0 0 0 0.0026885 5 38412 38366;38412;38460;38507;38557 97.075 35.89 1 42979000 19702 2505 12572 12606 22444;22445;22446;22447;22448 22445 -0.002804316225024195 MPDDLLTTL 9 Unmodified _MPDDLLTTL_ 0 0 0 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 ENSG00000128272|ENST00000674920|ATF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1018.5159301757812 1 1018.51252 1017.50525 3.7448 0.0038142 -0.47279 -0.00048154 3.272 0.0033326 1018.5123036067218 83.515 0.47078 84.177 83.909 84.38 0.66219 98 30 4 0 0 0 0.028312 3 38426 38379;38426;38523 57.471 6.2513 1 12915000 19703 2505 12572 12606 22449;22450;22451 22450 -0.002804316225024195 MPDDSYMVDYF 11 Unmodified _MPDDSYMVDYF_ 0 0 0 ENST00000540608.5_1_18:21119776-21166285:-|nuORF;nc|ENSG00000141458|O15118-2|NPC1;ENSG00000141458|ENST00000269228|NPC1 ENST00000540608.5_1_18:21119776-21166285:-|nuORF ENST00000540608.5_1_18:21119776-21166285:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 691.7677612304688 2 691.767597 1381.52064 NaN NaN NaN NaN NaN NaN NaN 83.659 1 84.321 83.821 84.821 0.66219 0 0 0 0.97845 1 38532 38532 8.7454 4.801 1 19704 3258 12573 12607 22452 22452 -0.1548593288760003 MPDEATPHYF 10 Unmodified _MPDEATPHYF_ 0 0 0 ENSG00000112893|ENST00000261483|MAN2A1 ENSG00000112893|ENST00000261483|MAN2A1 ENSG00000112893|ENST00000261483|MAN2A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.2615356445312 2 604.258056 1206.50156 NaN NaN NaN NaN NaN NaN NaN 47.981 1 47.981 47.481 48.481 0 0 0 0 0.078651 1 21973 21973 75.761 64.266 1 19705 1825 12574 12608 22453 22453 -0.09343101396370912 MPDEATPHYF 10 Unmodified _MPDEATPHYF_ 0 0 0 ENSG00000112893|ENST00000261483|MAN2A1 ENSG00000112893|ENST00000261483|MAN2A1 ENSG00000112893|ENST00000261483|MAN2A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 604.2607421875 2 604.258056 1206.50156 3.7874 0.0022886 0.66855 0.00040398 4.4559 0.0026925 604.2587023580231 47.321 0.23568 47.975 47.877 48.113 0.65356 12 9 2 0 0 0 0.62316 1 21685 21685 19.257 14.928 1 218660 19706 1825 12574 12608 22454 22454 -0.09343101396370912 MPDEATPHYF 10 Unmodified _MPDEATPHYF_ 0 0 0 ENSG00000112893|ENST00000261483|MAN2A1 ENSG00000112893|ENST00000261483|MAN2A1 ENSG00000112893|ENST00000261483|MAN2A1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 604.258056 1206.50156 3.3013 0.0019948 0.66648 0.00040273 3.9678 0.0023976 604.2581861788251 46.849 0.24901 47.678 47.544 47.793 0.82915 -0.14857 -1.507E-06 NaN 19.257 17 9 2 NaN NaN NaN NaN 0 NaN NaN 0 342760 19707 1825 12574 12608 -0.09343101396370912 MPDEENDE 8 Unmodified _MPDEENDE_ 0 0 0 REV__ENSG00000182963|ENST00000592524|GJC1 REV__ENSG00000182963|ENST00000592524|GJC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 489.6732482910156 2 489.671479 977.328406 3.2914 0.0016117 2.4329 0.0011913 5.7244 0.0028031 489.6724599051605 36.095 0.29998 36.887 36.724 37.024 0.79131 18 10 2 0 0 0 0.73686 1 16376 16376 2.8892 0.58649 1 310070 + 19708 13912 12575 12609 22455 22455 -0.16116512243445413 MPDEENDE 8 Unmodified _MPDEENDE_ 0 0 0 REV__ENSG00000182963|ENST00000592524|GJC1 REV__ENSG00000182963|ENST00000592524|GJC1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 489.671479 977.328406 3.2015 0.0015677 2.7923 0.0013673 5.9938 0.002935 489.67254384781484 37.184 0.37803 37.184 37.029 37.407 0 0.093565 -0.00010328 NaN 2.8892 24 13 2 NaN NaN NaN NaN 0 NaN NaN 0 370570 + 19709 13912 12575 12609 -0.16116512243445413 MPDEENDE 8 Unmodified _MPDEENDE_ 0 0 0 REV__ENSG00000182963|ENST00000592524|GJC1 REV__ENSG00000182963|ENST00000592524|GJC1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 489.671479 977.328406 3.2914 0.0016117 2.4329 0.0011913 5.7244 0.0028031 489.6724599051605 36.095 0.29998 36.887 36.724 37.024 0.79131 -0.20343 -0.00045524 NaN 2.8892 18 10 2 NaN NaN NaN NaN 0 NaN NaN 0 310070 + 19710 13912 12575 12609 -0.16116512243445413 MPDEENDE 8 Unmodified _MPDEENDE_ 0 0 0 REV__ENSG00000182963|ENST00000592524|GJC1 REV__ENSG00000182963|ENST00000592524|GJC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 489.671479 977.328406 3.2671 0.0015998 3.0393 0.0014883 6.3065 0.0030881 489.672543510654 37.059 0.49534 37.32 37.105 37.6 0.26083 0.2293 0.00013867 NaN 2.8892 24 15 2 NaN NaN NaN NaN 0 NaN NaN 0 280470 + 19711 13912 12575 12609 -0.16116512243445413 MPDEENDE 8 Unmodified _MPDEENDE_ 0 0 0 REV__ENSG00000182963|ENST00000592524|GJC1 REV__ENSG00000182963|ENST00000592524|GJC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 489.671479 977.328406 3.3182 0.0016248 3.3284 0.0016298 6.6466 0.0032546 489.67275785605426 36.344 0.39766 36.971 36.879 37.277 0.62631 -0.11943 0.00042174 NaN 2.8892 20 14 2 NaN NaN NaN NaN 0 NaN NaN 0 160570 + 19712 13912 12575 12609 -0.16116512243445413 MPDFDLHL 8 Oxidation (M) _M(Oxidation (M))PDFDLHL_ M(1)PDFDLHL M(97)PDFDLHL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.2318420410156 2 502.23131 1002.44807 2.507 0.0012591 0.60495 0.00030382 3.1119 0.0015629 502.23166086637923 65.859 0.3494 65.859 65.546 65.895 0 65 41 2 0 0 0 0.010172 2 31341 31294;31341 97.075 43.499 1 2834900 19713 2385 12576 12610 22456;22457 22457 25 -0.053058541082123156 MPDFDLHL 8 Oxidation (M) _M(Oxidation (M))PDFDLHL_ M(1)PDFDLHL M(44)PDFDLHL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.1271667480469 2 502.23131 1002.44807 NaN NaN NaN NaN NaN NaN NaN 65.416 1 65.416 64.916 65.916 0 0 0 0 0.16884 1 31168 31168 44.407 18.066 1 19714 2385 12576 12610 22458 22458 25 -0.053058541082123156 MPDFDLHL 8 Oxidation (M) _M(Oxidation (M))PDFDLHL_ M(1)PDFDLHL M(89)PDFDLHL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 502.2317199707031 2 502.23131 1002.44807 2.4745 0.0012427 -0.17984 -9.0323E-05 2.2946 0.0011524 502.2315352269184 64.801 0.29108 65.516 65.341 65.632 0.71521 56 35 2 0 0 0 0.017856 2 30549 30501;30549 89.427 38.599 1 2037800 19715 2385 12576 12610 22459;22460 22460 25 -0.053058541082123156 MPDFDLHL 8 Oxidation (M) _M(Oxidation (M))PDFDLHL_ M(1)PDFDLHL M(110)PDFDLHL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.2335205078125 2 502.23131 1002.44807 3.2998 0.0016573 -0.11739 -5.8956E-05 3.1824 0.0015983 502.23131104850586 65.143 0.5609 65.391 65.111 65.672 0.24802 62 26 3 0 0 0 0.0093032 3 29825 29777;29825;29880 106.85 45.181 1 1939300 19716 2385 12576 12610 22461;22462;22463 22462 25 -0.053058541082123156 MPDFDLHL 8 Oxidation (M) _M(Oxidation (M))PDFDLHL_ M(1)PDFDLHL M(130)PDFDLHL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.2328796386719 2 502.23131 1002.44807 3.362 0.0016885 -0.19402 -9.7445E-05 3.168 0.001591 502.23128280941677 65.557 1.0295 65.806 65.552 66.581 0.24848 124 56 3 0 0 0 0.0048575 3 30099 30099;30149;30205 129.2 62.165 1 2605100 19717 2385 12576 12610 22464;22465;22466 22464 25 -0.053058541082123156 MPDFDLHL 8 Oxidation (M) _M(Oxidation (M))PDFDLHL_ M(1)PDFDLHL M(120)PDFDLHL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.2330017089844 2 502.23131 1002.44807 3.3325 0.0016737 -0.25281 -0.00012697 3.0797 0.0015467 502.23127770534 64.977 1.3436 65.634 64.946 66.29 0.65672 177 75 3 0 0 0 0.0083292 5 29729 29506;29551;29619;29676;29729 120.86 61.062 1 2848400 19718 2385 12576 12610 22467;22468;22469;22470;22471 22471 25 -0.053058541082123156 MPDFDLHL 8 Unmodified _MPDFDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.2354431152344 2 494.233853 986.453153 2.4674 0.0012195 0.24302 0.00012011 2.7105 0.0013396 494.2340454150097 75.028 0.71865 75.028 74.846 75.565 0 215 66 4 0 0 0 0.0083292 6 36795 36680;36733;36795;36846;36890;36932 120.86 61.062 1 49581000 19719 2385 12576 12611 22472;22473;22474;22475;22476;22477 22474 -0.04061550245603485 MPDFDLHL 8 Unmodified _MPDFDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.2352600097656 2 494.233853 986.453153 2.6529 0.0013111 -0.28303 -0.00013988 2.3698 0.0011713 494.233789744829 74.066 0.76747 74.752 74.539 75.306 0.68661 204 63 4 0 0 0 0.0093032 7 35747 35689;35747;35802;35856;35909;35960;36016 106.85 47.05 1 59055000 19720 2385 12576 12611 22478;22479;22480;22481;22482;22483;22484 22479 -0.04061550245603485 MPDFDLHL 8 Unmodified _MPDFDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.2349548339844 2 494.233853 986.453153 2.8937 0.0014302 -0.36983 -0.00018278 2.5239 0.0012474 494.2338921291066 74.752 0.79861 75.011 74.786 75.585 0.25831 238 75 5 0 0 0 0.013019 7 34370 34326;34370;34417;34463;34508;34552;34595 93.883 44.214 1 23484000 19721 2385 12576 12611 22485;22486;22487;22488;22489;22490;22491 22486 -0.04061550245603485 MPDFDLHL 8 Unmodified _MPDFDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.2349548339844 2 494.233853 986.453153 2.7222 0.0013454 -0.24539 -0.00012128 2.4768 0.0012241 494.23386414206686 74.298 0.85619 74.962 74.631 75.487 0.6644 316 93 5 0 0 0 0.013019 7 34133 34090;34133;34175;34221;34266;34308;34357 93.883 44.214 1 25153000 19722 2385 12576 12611 22492;22493;22494;22495;22496;22497;22498 22493 -0.04061550245603485 MPDFDLNL 8 Unmodified _MPDFDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.7270202636719 2 482.725861 963.437169 2.2954 0.001108 0.10558 5.0967E-05 2.401 0.001159 482.72597022467954 85.057 0.39176 85.085 84.932 85.324 0.02861 82 39 3 0 0 0 0.037436 4 42539 42486;42539;42590;42662 70.716 14.174 1 3132900 19723 2385 12577 12612 22499;22500;22501;22502 22500 -0.04601256482521876 MPDFDLNL 8 Unmodified _MPDFDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.7274475097656 2 482.725861 963.437169 3.1723 0.0015313 -0.012942 -6.2476E-06 3.1593 0.0015251 482.72596609333806 85.598 0.44415 85.847 85.622 86.066 0.24857 47 18 3 0 0 0 0.06577 3 39393 39342;39393;39457 60.39 13.469 1 1957100 19724 2385 12577 12612 22503;22504;22505 22504 -0.04601256482521876 MPDFDLNL 8 Unmodified _MPDFDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 964.4486083984375 1 964.444445 963.437169 3.7562 0.0036227 0.49241 0.0004749 4.2486 0.0040976 964.4448739942715 85.56 0.34233 85.809 85.696 86.038 0.24857 24 13 2 0 0 0 0.16336 1 39359 39359 46.921 12.734 1 844490 19725 2385 12577 12612 22506 22506 -0.04601256482521876 MPDFDLNL 8 Unmodified _MPDFDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.7274475097656 2 482.725861 963.437169 3.3054 0.0015956 0.12864 6.2096E-05 3.434 0.0016577 482.7259878817562 85.07 0.61833 85.736 85.458 86.077 0.66566 62 28 3 0 0 0 0.06577 4 39171 39125;39171;39219;39269 60.39 13.469 1 1846600 19726 2385 12577 12612 22507;22508;22509;22510 22508 -0.04601256482521876 MPDFDLNL 8 Unmodified _MPDFDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 964.4475708007812 1 964.444445 963.437169 3.9302 0.0037904 -0.33644 -0.00032448 3.5937 0.0034659 964.443812041134 85.072 0.55171 85.738 85.503 86.055 0.66566 43 24 2 0 0 0 0.10141 3 39241 39129;39179;39241 53.576 6.6547 1 999140 19727 2385 12577 12612 22511;22512;22513 22513 -0.04601256482521876 MPDGPVAL 8 Unmodified _MPDGPVAL_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 400.2055969238281 2 400.204564 798.394575 2.4732 0.00098978 0.39311 0.00015732 2.8663 0.0011471 400.2047147970178 59.296 0.28894 59.296 59.262 59.551 0 36 24 2 0 0 0 0.37185 2 27420 27420;27473 30.225 10.786 1 2957000 19728 282 12578 12613 22514;22515 22514 -0.012686068200764566 MPDGPVAL 8 Unmodified _MPDGPVAL_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 400.2055969238281 2 400.204564 798.394575 2.3442 0.00093815 0.055301 2.2132E-05 2.3995 0.00096029 400.20454690222556 58.405 0.37062 59.164 58.979 59.349 0.75894 52 30 2 0 0 0 0.45037 2 26745 26745;26791 24.674 5.2349 1 1458800 19729 282 12578 12613 22516;22517 22516 -0.012686068200764566 MPDGPVAL 8 Unmodified _MPDGPVAL_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 799.4046020507812 1 799.401852 798.394575 3.3446 0.0026737 -0.41709 -0.00033342 2.9275 0.0023403 799.4017854229991 58.405 0.34212 59.164 58.994 59.336 0.75894 60 27 3 0 0 0 0.045989 1 26839 26839 67.035 30.569 1 2963700 19730 282 12578 12613 22518 22518 -0.012686068200764566 MPDGPVAL 8 Unmodified _MPDGPVAL_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.2057800292969 2 400.204564 798.394575 2.9987 0.0012001 -0.21233 -8.4975E-05 2.7863 0.0011151 400.2045412524206 59.024 0.53111 59.284 59.065 59.596 0.2593 59 25 3 0 0 0 0.56084 2 26996 26996;27102 16.942 3.4344 1 1424500 19731 282 12578 12613 22519;22520 22519 -0.012686068200764566 MPDGPVAL 8 Unmodified _MPDGPVAL_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 400.2055358886719 2 400.204564 798.394575 2.9557 0.0011829 -0.1103 -4.4142E-05 2.8454 0.0011388 400.2045011237809 58.44 0.42702 59.107 58.98 59.407 0.66703 35 20 2 0 0 0 0.37185 3 26781 26721;26781;26832 30.225 4.1604 1 1711900 19732 282 12578 12613 22521;22522;22523 22522 -0.012686068200764566 MPDGPVAL 8 Unmodified _MPDGPVAL_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 799.401852 798.394575 3.5842 0.0028652 0.52197 0.00041726 4.1062 0.0032825 799.4018295420725 59.306 0.36706 59.306 59.209 59.576 0 0.076693 0.00051888 NaN 67.035 53 33 2 NaN NaN NaN NaN 0 NaN NaN 0 3426400 19733 282 12578 12613 -0.012686068200764566 MPDGPVAL 8 Unmodified _MPDGPVAL_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 799.401852 798.394575 3.8669 0.0030912 -0.30485 -0.0002437 3.5621 0.0028475 799.4020413046167 59.068 0.54757 59.327 59.048 59.596 0.2593 0.097318 -0.00014208 NaN 67.035 63 26 3 NaN NaN NaN NaN 0 NaN NaN 0 2183100 19734 282 12578 12613 -0.012686068200764566 MPDGPVAL 8 Unmodified _MPDGPVAL_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 799.401852 798.394575 3.9772 0.0031794 0.14216 0.00011364 4.1194 0.003293 799.4019606501801 58.454 0.49782 59.121 58.967 59.465 0.66703 -0.10853 0.00021526 NaN 67.035 53 24 3 NaN NaN NaN NaN 0 NaN NaN 0 3494100 19735 282 12578 12613 -0.012686068200764566 MPDGQFKDISL 11 Oxidation (M) _M(Oxidation (M))PDGQFKDISL_ M(1)PDGQFKDISL M(82)PDGQFKDISL 0 0 1 ENSG00000117450|ENST00000319248|PRDX1 ENSG00000117450|ENST00000319248|PRDX1 ENSG00000117450|ENST00000319248|PRDX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.8075561523438 2 633.805371 1265.59619 4.1665 0.0026407 -0.6085 -0.00038567 3.558 0.0022551 633.8051336714638 53.849 0.39261 53.849 53.641 54.034 0 48 27 2 0 0 0 0.00032384 2 24704 24652;24704 82.445 57.454 1 1355600 19736 2073 12579 12614 22524;22525 22525 21 -0.025985876450249634 MPDGQFKDISL 11 Oxidation (M) _M(Oxidation (M))PDGQFKDISL_ M(1)PDGQFKDISL M(77)PDGQFKDISL 0 0 1 ENSG00000117450|ENST00000319248|PRDX1 ENSG00000117450|ENST00000319248|PRDX1 ENSG00000117450|ENST00000319248|PRDX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.8073120117188 2 633.805371 1265.59619 3.2994 0.0020912 -0.15614 -9.8961E-05 3.1432 0.0019922 633.805362769988 52.822 0.51062 53.625 53.362 53.873 0.8035 57 33 2 0 0 0 0.0018346 2 24093 24016;24093 77.049 48.554 1 1523000 19737 2073 12579 12614 22526;22527 22527 21 -0.025985876450249634 MPDGQFKDISL 11 Oxidation (M) _M(Oxidation (M))PDGQFKDISL_ M(1)PDGQFKDISL M(89)PDGQFKDISL 0 0 1 ENSG00000117450|ENST00000319248|PRDX1 ENSG00000117450|ENST00000319248|PRDX1 ENSG00000117450|ENST00000319248|PRDX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.8074340820312 2 633.805371 1265.59619 3.7737 0.0023918 -0.19896 -0.0001261 3.5747 0.0022657 633.8053927481775 53.629 0.50305 53.894 53.714 54.217 0.26462 55 21 4 0 0 0 0.00010478 3 24576 24524;24576;24627 88.576 40.827 1 2039000 19738 2073 12579 12614 22528;22529;22530 22529 21 -0.025985876450249634 MPDGQFKDISL 11 Oxidation (M) _M(Oxidation (M))PDGQFKDISL_ M(1)PDGQFKDISL M(99)PDGQFKDISL 0 0 1 ENSG00000117450|ENST00000319248|PRDX1 ENSG00000117450|ENST00000319248|PRDX1 ENSG00000117450|ENST00000319248|PRDX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.807373046875 2 633.805371 1265.59619 3.7334 0.0023663 -0.37015 -0.0002346 3.3633 0.0021317 633.8051966991734 53.125 0.44943 53.789 53.622 54.071 0.6644 48 19 3 0 0 0 2.9082E-06 3 24270 24270;24325;24379 98.634 48.038 1 2075300 19739 2073 12579 12614 22531;22532;22533 22531 21 -0.025985876450249634 MPDGQFKDISL 11 Unmodified _MPDGQFKDISL_ 0 0 0 ENSG00000117450|ENST00000319248|PRDX1 ENSG00000117450|ENST00000319248|PRDX1 ENSG00000117450|ENST00000319248|PRDX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 625.8098754882812 2 625.807913 1249.60127 3.5336 0.0022113 -0.64983 -0.00040667 2.8838 0.0018047 625.8075525937538 60.86 0.51915 60.86 60.694 61.213 0 130 54 3 0 0 0 0.00094128 4 28371 28316;28371;28422;28479 80.24 58.703 1 17407000 19740 2073 12579 12615 22534;22535;22536;22537 22535 -0.01354283782393395 MPDGQFKDISL 11 Unmodified _MPDGQFKDISL_ 0 0 0 ENSG00000117450|ENST00000319248|PRDX1 ENSG00000117450|ENST00000319248|PRDX1 ENSG00000117450|ENST00000319248|PRDX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 625.8097534179688 2 625.807913 1249.60127 3.0892 0.0019333 0.16237 0.00010161 3.2516 0.0020349 625.8076697531193 59.966 0.40837 60.716 60.467 60.875 0.74927 101 46 3 0 0 0 3.6556E-15 1 27527 27527 132.57 84.818 1 14262000 19741 2073 12579 12615 22538 22538 -0.01354283782393395 MPDGQFKDISL 11 Unmodified _MPDGQFKDISL_ 0 0 0 ENSG00000117450|ENST00000319248|PRDX1 ENSG00000117450|ENST00000319248|PRDX1 ENSG00000117450|ENST00000319248|PRDX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 625.8104248046875 2 625.807913 1249.60127 3.7126 0.0023234 0.016191 1.0132E-05 3.7288 0.0023335 625.8077016532968 60.813 0.65186 61.069 60.869 61.521 0.25578 109 32 5 0 0 0 6.4933E-20 6 27828 27775;27828;27886;27938;27984;28038 142.94 95.192 1 12099000 19742 2073 12579 12615 22539;22540;22541;22542;22543;22544 22540 -0.01354283782393395 MPDGQFKDISL 11 Unmodified _MPDGQFKDISL_ 0 0 0 ENSG00000117450|ENST00000319248|PRDX1 ENSG00000117450|ENST00000319248|PRDX1 ENSG00000117450|ENST00000319248|PRDX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 625.81005859375 2 625.807913 1249.60127 3.7826 0.0023672 -0.13008 -8.1406E-05 3.6526 0.0022858 625.8076603636044 60.253 0.61328 60.919 60.748 61.361 0.66503 114 35 5 0 0 0 6.4933E-20 6 27622 27527;27570;27622;27670;27720;27765 142.94 110.15 1 10845000 19743 2073 12579 12615 22545;22546;22547;22548;22549;22550 22547 -0.01354283782393395 MPDHDSTAL 9 Unmodified _MPDHDSTAL_ 0 0 0 ENSG00000117707|ENST00000366958|PROX1 ENSG00000117707|ENST00000366958|PROX1 ENSG00000117707|ENST00000366958|PROX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.5111083984375 2 493.716024 985.417496 NaN NaN NaN NaN NaN NaN NaN 85.472 1 85.721 85.221 86.221 0.24857 0 0 0 0.8984 1 39332 39332 3.9444 0 1 19744 2091 12580 12616 22551 22551 -0.07579632493275312 MPDHTDVSL 9 Unmodified _MPDHTDVSL_ 0 0 0 ENSG00000138134|ENST00000371926|STAMBPL1;nc|ENSG00000138134|Q96FJ0-2|STAMBPL1 ENSG00000138134|ENST00000371926|STAMBPL1 ENSG00000138134|ENST00000371926|STAMBPL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.7331237792969 2 507.731674 1013.4488 3.1366 0.0015925 -0.18432 -9.3585E-05 2.9522 0.001499 507.7318192021124 38.55 0.63338 38.55 38.356 38.989 0 71 28 3 0 0 0 0.023109 4 17473 17473;17525;17573;17636 64.236 34.012 1 1727900 19745 3074 12581 12617 22552;22553;22554;22555 22552 -0.057390594591765876 MPDHTDVSL 9 Unmodified _MPDHTDVSL_ 0 0 0 ENSG00000138134|ENST00000371926|STAMBPL1;nc|ENSG00000138134|Q96FJ0-2|STAMBPL1 ENSG00000138134|ENST00000371926|STAMBPL1 ENSG00000138134|ENST00000371926|STAMBPL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.7330627441406 2 507.731674 1013.4488 3.1214 0.0015848 -0.23891 -0.0001213 2.8824 0.0014635 507.7316850177807 37.574 0.55938 38.37 38.162 38.722 0.79552 60 24 4 0 0 0 0.0080831 3 17051 17008;17051;17104 85.357 56.87 1 1378400 19746 3074 12581 12617 22556;22557;22558 22557 -0.057390594591765876 MPDHTDVSL 9 Unmodified _MPDHTDVSL_ 0 0 0 ENSG00000138134|ENST00000371926|STAMBPL1;nc|ENSG00000138134|Q96FJ0-2|STAMBPL1 ENSG00000138134|ENST00000371926|STAMBPL1 ENSG00000138134|ENST00000371926|STAMBPL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.7334289550781 2 507.731674 1013.4488 3.092 0.0015699 -0.00018645 -9.4667E-08 3.0918 0.0015698 507.73189468008866 38.371 0.48101 38.635 38.471 38.952 0.26408 33 17 3 0 0 0 0.047285 2 17454 17454;17517 48.346 18.121 1 2454800 19747 3074 12581 12617 22559;22560 22559 -0.057390594591765876 MPDHTDVSL 9 Unmodified _MPDHTDVSL_ 0 0 0 ENSG00000138134|ENST00000371926|STAMBPL1;nc|ENSG00000138134|Q96FJ0-2|STAMBPL1 ENSG00000138134|ENST00000371926|STAMBPL1 ENSG00000138134|ENST00000371926|STAMBPL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.73358154296875 2 507.731674 1013.4488 3.1647 0.0016068 -0.99542 -0.00050541 2.1693 0.0011014 507.7318600511641 37.799 0.66167 38.433 38.212 38.873 0.63388 65 25 4 0 0 0 0.041436 3 17316 17258;17316;17367 50.855 22.368 1 1376600 19748 3074 12581 12617 22561;22562;22563 22562 -0.057390594591765876 MPDHVIPEI 9 Unmodified _MPDHVIPEI_ 0 0 0 nc|ENSG00000108406|Q8IX18-4|DHX40;nc|ENSG00000108406|Q8IX18-3|DHX40;nc|ENSG00000108406|Q8IX18-2|DHX40;ENSG00000108406|ENST00000251241|DHX40 nc|ENSG00000108406|Q8IX18-4|DHX40 nc|ENSG00000108406|Q8IX18-4|DHX40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 525.7702026367188 2 525.76806 1049.52157 2.9242 0.0015375 0.0048241 2.5364E-06 2.929 0.00154 525.7681167552196 59.399 0.47676 60.148 59.925 60.402 0.74927 92 34 3 0 0 0 0.038142 4 27305 27224;27263;27305;27353 52.268 19.963 1 2946600 19749 1632 12582 12618 22564;22565;22566;22567 22566 -0.001213056657661582 MPDHVIPEI 9 Unmodified _MPDHVIPEI_ 0 0 0 nc|ENSG00000108406|Q8IX18-4|DHX40;nc|ENSG00000108406|Q8IX18-3|DHX40;nc|ENSG00000108406|Q8IX18-2|DHX40;ENSG00000108406|ENST00000251241|DHX40 nc|ENSG00000108406|Q8IX18-4|DHX40 nc|ENSG00000108406|Q8IX18-4|DHX40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.77001953125 2 525.76806 1049.52157 3.3678 0.0017707 -0.49951 -0.00026262 2.8683 0.0015081 525.7678258576477 60.214 0.50101 60.47 60.148 60.649 0.25578 60 24 3 0 0 0 0.052704 4 27546 27495;27546;27593;27651 46.021 11.919 1 1700800 19750 1632 12582 12618 22568;22569;22570;22571 22569 -0.001213056657661582 MPDHVIPEI 9 Unmodified _MPDHVIPEI_ 0 0 0 nc|ENSG00000108406|Q8IX18-4|DHX40;nc|ENSG00000108406|Q8IX18-3|DHX40;nc|ENSG00000108406|Q8IX18-2|DHX40;ENSG00000108406|ENST00000251241|DHX40 nc|ENSG00000108406|Q8IX18-4|DHX40 nc|ENSG00000108406|Q8IX18-4|DHX40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.76953125 2 525.76806 1049.52157 3.3117 0.0017412 -0.48877 -0.00025698 2.8229 0.0014842 525.7679071639006 59.597 0.44712 60.262 60.031 60.478 0.66503 49 19 3 0 0 0 0.038142 3 27324 27222;27272;27324 52.268 12.311 1 2183500 19751 1632 12582 12618 22572;22573;22574 22574 -0.001213056657661582 MPDHVIPEI 9 Unmodified _MPDHVIPEI_ 0 0 0 nc|ENSG00000108406|Q8IX18-4|DHX40;nc|ENSG00000108406|Q8IX18-3|DHX40;nc|ENSG00000108406|Q8IX18-2|DHX40;ENSG00000108406|ENST00000251241|DHX40 nc|ENSG00000108406|Q8IX18-4|DHX40 nc|ENSG00000108406|Q8IX18-4|DHX40 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 525.76806 1049.52157 2.9307 0.0015409 0.33875 0.0001781 3.2694 0.001719 525.768259153057 60.475 0.14528 60.475 60.39 60.535 0 0.13618 0.000665 NaN 52.268 26 17 2 NaN NaN NaN NaN 0 NaN NaN 0 4476000 19752 1632 12582 12618 -0.001213056657661582 MPDIDFNL 8 Unmodified _MPDIDFNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.7277526855469 2 482.725861 963.437169 3.1 0.0014964 -0.044048 -2.1263E-05 3.0559 0.0014752 482.7258713288245 84.479 0.82428 84.726 84.369 85.193 0.24758 126 45 4 0 0 0 0.06577 7 38821 38775;38821;38864;38911;38970;39013;39077 60.39 22.238 1 3494400 19753 2385 12583 12619 22575;22576;22577;22578;22579;22580;22581 22576 -0.04601256482499139 MPDIDFNL 8 Unmodified _MPDIDFNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 964.4473266601562 1 964.444445 963.437169 3.6829 0.0035519 0.36167 0.00034881 4.0445 0.0039007 964.4446257252928 84.525 0.63988 84.773 84.474 85.114 0.24757 61 36 2 0 0 0 0.056325 5 38849 38801;38849;38903;38956;39005 63.563 25.412 1 1251700 19754 2385 12583 12619 22582;22583;22584;22585;22586 22583 -0.04601256482499139 MPDIDFNL 8 Unmodified _MPDIDFNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.72723388671875 2 482.725861 963.437169 3.2992 0.0015926 -0.46366 -0.00022382 2.8356 0.0013688 482.7257358402234 83.981 0.69588 84.643 84.363 85.059 0.66219 90 40 4 0 0 0 0.037436 5 38656 38605;38656;38702;38751;38794 70.716 20.63 1 2922900 19755 2385 12583 12619 22587;22588;22589;22590;22591 22588 -0.04601256482499139 MPDIDFNL 8 Unmodified _MPDIDFNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 964.4462890625 1 964.444445 963.437169 3.9235 0.003784 -0.98086 -0.00094599 2.9426 0.002838 964.4422885743822 84.002 0.46493 84.664 84.45 84.915 0.66219 35 24 2 0 0 0 0.12673 2 38619 38619;38673 50.855 20.63 1 1474400 19756 2385 12583 12619 22592;22593 22592 -0.04601256482499139 MPDLAHVM 8 Unmodified _MPDLAHVM_ 0 0 0 nc|ENSG00000138032|O75688-4|PPM1B;nc|ENSG00000138032|O75688-2|PPM1B;ENSG00000138032|ENST00000282412|PPM1B;ENST00000488866.1_1_2:44445059-44445709:+|nuORF;nc|ENSG00000138032|O75688-3|PPM1B nc|ENSG00000138032|O75688-4|PPM1B nc|ENSG00000138032|O75688-4|PPM1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.2189025878906 2 457.217149 912.419744 2.7317 0.001249 0.72783 0.00033277 3.4595 0.0015817 457.21749612491834 58.146 0.29982 58.409 58.133 58.433 0.26227 28 17 2 0 0 0 0.42655 1 26610 26610 26.341 16.994 1 880090 19757 3063 12584 12620 22594 22594 -0.039968752891468284 MPDLAHVM 8 Unmodified _MPDLAHVM_ 0 0 0 nc|ENSG00000138032|O75688-4|PPM1B;nc|ENSG00000138032|O75688-2|PPM1B;ENSG00000138032|ENST00000282412|PPM1B;ENST00000488866.1_1_2:44445059-44445709:+|nuORF;nc|ENSG00000138032|O75688-3|PPM1B nc|ENSG00000138032|O75688-4|PPM1B nc|ENSG00000138032|O75688-4|PPM1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.2178649902344 2 457.217149 912.419744 3.0046 0.0013737 -0.43011 -0.00019666 2.5744 0.0011771 457.21693122256903 57.608 0.40207 58.276 58.026 58.428 0.66829 40 27 2 0 0 0 0.40037 1 26344 26344 28.173 18.826 1 774810 19758 3063 12584 12620 22595 22595 -0.039968752891468284 MPDLDLHL 8 Unmodified _MPDLDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.24310302734375 2 477.241678 952.468803 2.3814 0.0011365 -0.12102 -5.7755E-05 2.2603 0.0010787 477.2417032364704 72.144 0.61826 72.144 71.862 72.48 0 139 60 3 0 0 0 0.010018 4 35050 34994;35050;35099;35153 98.807 39.012 1 7287400 19759 2385 12585 12621 22596;22597;22598;22599 22597 -0.009332637285410783 MPDLDLHL 8 Unmodified _MPDLDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.243408203125 2 477.241678 952.468803 2.4647 0.0011762 -0.089778 -4.2846E-05 2.3749 0.0011334 477.24172820906546 71.237 0.48075 71.941 71.781 72.261 0.70386 140 55 3 0 0 0 0.010018 3 34166 34166;34218;34274 98.807 39.012 1 8860200 19760 2385 12585 12621 22600;22601;22602 22600 -0.009332637285410783 MPDLDLHL 8 Unmodified _MPDLDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 477.2433166503906 2 477.241678 952.468803 2.7902 0.0013316 -0.27626 -0.00013184 2.514 0.0011998 477.2415598787922 71.775 0.416 72.032 71.925 72.341 0.25785 112 46 3 0 0 0 0.021444 2 32907 32907;32964 86.121 36.452 1 7649600 19761 2385 12585 12621 22603;22604 22603 -0.009332637285410783 MPDLDLHL 8 Unmodified _MPDLDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.24322509765625 2 477.241678 952.468803 2.4872 0.001187 0.22127 0.0001056 2.7085 0.0012926 477.2419097149901 71.369 0.63731 72.032 71.755 72.393 0.66324 135 44 4 0 0 0 0.010018 3 32697 32650;32697;32754 98.807 39.012 1 6540200 19762 2385 12585 12621 22605;22606;22607 22606 -0.009332637285410783 MPDLDLHL 8 Unmodified _MPDLDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 477.241678 952.468803 2.4704 0.001179 1.2559 0.00059935 3.7263 0.0017783 477.24267867485474 71.567 0.038239 72.271 72.254 72.293 0.70387 0.063086 0.0012181 NaN 98.807 9 5 2 NaN NaN NaN NaN 0 NaN NaN 0 657560 19763 2385 12585 12621 -0.009332637285410783 MPDLDLHL 8 Oxidation (M) _M(Oxidation (M))PDLDLHL_ M(1)PDLDLHL M(44)PDLDLHL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.240478515625 2 485.239135 968.463718 NaN NaN NaN NaN NaN NaN NaN 61.066 1 61.729 61.229 62.229 0.66261 0 0 0 0.16884 1 27962 27962 44.407 12.29 1 19764 2385 12585 12622 22608 22608 26 -0.021775675911499093 MPDLDLNL 8 Unmodified _MPDLDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.73565673828125 2 465.733686 929.452819 2.2383 0.0010424 0.02299 1.0707E-05 2.2613 0.0010531 465.7338437283556 80.89 0.70377 80.89 80.685 81.389 0 124 54 4 0 0 0 0.022274 5 40172 40172;40244;40295;40353;40418 85.357 0 1 31965000 19765 2385 12586 12623 22609;22610;22611;22612;22613 22609 -0.014729699654594697 MPDLDLNL 8 Unmodified _MPDLDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 930.4636840820312 1 930.460095 929.452819 3.1957 0.0029735 -0.22885 -0.00021293 2.9669 0.0027606 930.4600641159303 80.936 0.59396 80.936 80.698 81.292 0 104 46 4 0 0 0 0.045071 3 40255 40192;40255;40403 67.344 0 1 28041000 19766 2385 12586 12623 22614;22615;22616 22615 -0.014729699654594697 MPDLDLNL 8 Unmodified _MPDLDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.7344665527344 2 465.733686 929.452819 2.1772 0.001014 0.17653 8.2218E-05 2.3537 0.0010962 465.73394359925555 77.459 0.19913 78.02 77.916 78.115 0.56091 21 13 2 0 0 0 0.49219 2 37581 37564;37581 21.747 0 1 733870 19767 2385 12586 12623 22617;22618 22618 -0.014729699654594697 MPDLDLNL 8 Unmodified _MPDLDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.7344665527344 2 465.733686 929.452819 2.0977 0.00097698 0.23947 0.00011153 2.3372 0.0010885 465.73395647967976 80.091 0.35081 80.411 80.209 80.56 0.31998 54 27 4 0 0 0 0.013019 2 39133 39067;39133 93.883 0 1 16768000 19768 2385 12586 12623 22619;22620 22620 -0.014729699654594697 MPDLDLNL 8 Unmodified _MPDLDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 930.4617919921875 1 930.460095 929.452819 2.9284 0.0027247 0.32288 0.00030043 3.2512 0.0030251 930.4607286154236 80.096 0.25131 80.416 80.244 80.495 0.31998 31 18 3 0 0 0 0.21011 1 39111 39111 42.095 0 1 15729000 19769 2385 12586 12623 22621 22621 -0.014729699654594697 MPDLDLNL 8 Unmodified _MPDLDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.73443603515625 2 465.733686 929.452819 2.0895 0.00097315 0.056174 2.6162E-05 2.1457 0.00099931 465.7337464300152 80.32 0.59167 80.64 80.456 81.048 0.31998 114 54 3 0 0 0 0.013019 5 39378 39201;39294;39378;39443;39507 93.883 0 1 16161000 19770 2385 12586 12623 22622;22623;22624;22625;22626 22624 -0.014729699654594697 MPDLDLNL 8 Unmodified _MPDLDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 930.4618530273438 1 930.460095 929.452819 2.9202 0.0027171 0.45267 0.0004212 3.3728 0.0031383 930.4606832365989 80.321 0.4368 80.641 80.531 80.968 0.31998 77 38 3 0 0 0 0.15009 2 39411 39336;39411 48.346 0 1 19436000 19771 2385 12586 12623 22627;22628 22628 -0.014729699654594697 MPDLDLNL 8 Unmodified _MPDLDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.7351989746094 2 465.733686 929.452819 2.5067 0.0011674 0.083386 3.8836E-05 2.5901 0.0012063 465.73386945153254 80.636 0.96974 80.886 80.572 81.542 0.24947 207 60 5 0 0 0 0.025999 9 37125 37022;37077;37125;37174;37223;37272;37318;37364;37410 81.864 0 1 22506000 19772 2385 12586 12623 22629;22630;22631;22632;22633;22634;22635;22636;22637 22631 -0.014729699654594697 MPDLDLNL 8 Unmodified _MPDLDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 930.4637451171875 1 930.460095 929.452819 3.5727 0.0033242 -0.20614 -0.0001918 3.3665 0.0031324 930.4601205543809 80.638 0.8857 80.887 80.613 81.499 0.24947 162 54 4 0 0 0 0.045071 6 37271 37035;37085;37173;37222;37271;37317 67.344 0 1 15152000 19773 2385 12586 12623 22638;22639;22640;22641;22642;22643 22642 -0.014729699654594697 MPDLDLNL 8 Unmodified _MPDLDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 930.4639892578125 1 930.460095 929.452819 3.6787 0.0034229 0.36278 0.00033755 4.0415 0.0037604 930.4608037118849 82.322 0.57843 82.569 82.349 82.927 0.24722 64 33 3 0 0 0 0.10141 3 37925 37829;37925;37974 53.576 0 1 1659200 19774 2385 12586 12623 22644;22645;22646 22645 -0.014729699654594697 MPDLDLNL 8 Unmodified _MPDLDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.73468017578125 2 465.733686 929.452819 2.611 0.001216 0.21619 0.00010069 2.8272 0.0013167 465.7338851633833 82.323 0.63512 82.57 82.292 82.927 0.24722 85 38 3 0 0 0 0.12673 3 37854 37854;37897;37951 50.855 0 1 2657800 19775 2385 12586 12623 22647;22648;22649 22647 -0.014729699654594697 MPDLDLNL 8 Unmodified _MPDLDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 930.4628295898438 1 930.460095 929.452819 3.9209 0.0036482 -0.29955 -0.00027872 3.6213 0.0033695 930.4600155966993 80.111 0.82096 80.771 80.49 81.311 0.65998 167 51 4 0 0 0 0.029979 8 37085 36802;36852;36896;36942;36986;37034;37085;37145 77.984 0 1 16166000 19776 2385 12586 12623 22650;22651;22652;22653;22654;22655;22656;22657 22656 -0.014729699654594697 MPDLDLNL 8 Unmodified _MPDLDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.7352600097656 2 465.733686 929.452819 2.8803 0.0013414 -0.052215 -2.4318E-05 2.828 0.0013171 465.73378911962794 80.116 0.93306 80.776 80.471 81.404 0.65998 197 58 5 0 0 0 0.025999 8 36853 36808;36853;36897;36943;36987;37035;37086;37138 81.864 0 1 19034000 19777 2385 12586 12623 22658;22659;22660;22661;22662;22663;22664;22665 22659 -0.014729699654594697 MPDLDLNL 8 Unmodified _MPDLDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 930.4642944335938 1 930.460095 929.452819 3.9679 0.003692 -0.045573 -4.2404E-05 3.9224 0.0036496 930.4603348902338 81.738 0.50555 82.398 82.168 82.673 0.65998 72 37 3 0 0 0 0.12673 5 37728 37581;37625;37671;37728;37787 50.855 0 1 1723600 19778 2385 12586 12623 22666;22667;22668;22669;22670 22669 -0.014729699654594697 MPDLDLNL 8 Unmodified _MPDLDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.7352600097656 2 465.733686 929.452819 2.9259 0.0013627 -0.36581 -0.00017037 2.5601 0.0011923 465.73364562250055 81.718 0.6414 82.378 82.089 82.73 0.65998 105 48 3 0 0 0 0.31901 3 37651 37651;37705;37761 34.102 0 1 2682500 19779 2385 12586 12623 22671;22672;22673 22671 -0.014729699654594697 MPDLDLNL 8 Unmodified _MPDLDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 465.733686 929.452819 2.2523 0.001049 0.19541 9.1011E-05 2.4477 0.00114 465.7335327096186 82.598 0.10031 82.598 82.526 82.626 0 0.082649 0.00022626 NaN 50.855 14 12 2 NaN NaN NaN NaN 0 NaN NaN 0 3342700 19780 2385 12586 12623 -0.014729699654594697 MPDLDLNL 8 Unmodified _MPDLDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 465.733686 929.452819 2.5995 0.0012107 1.1525 0.00053676 3.752 0.0017474 465.7340246951462 77.806 0.25423 78.06 77.945 78.2 0.25335 0.010735 0.00046133 NaN 21.747 19 13 2 NaN NaN NaN NaN 0 NaN NaN 0 357100 19781 2385 12586 12623 -0.014729699654594697 MPDLDLNL 8 Unmodified _MPDLDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 465.733686 929.452819 2.6249 0.0012225 1.0788 0.00050245 3.7038 0.001725 465.7340496687669 77.403 0.20979 78.066 78.006 78.215 0.66302 0.017668 0.00039272 NaN 21.747 15 12 2 NaN NaN NaN NaN 0 NaN NaN 0 334780 19782 2385 12586 12623 -0.014729699654594697 MPDLENRL 8 Unmodified _MPDLENRL_ 0 0 0 ENSG00000168807|ENST00000336278|SNTB2 ENSG00000168807|ENST00000336278|SNTB2 ENSG00000168807|ENST00000336278|SNTB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.2515563964844 2 494.250034 986.485516 NaN NaN NaN NaN NaN NaN NaN 46.78 1 47.609 47.109 48.109 0.82915 0 0 0 0.82664 1 21313 21313 17.113 8.5196 1 19783 4654 12587 12624 22674 22674 -0.008267628425983276 MPDLENRL 8 Unmodified _MPDLENRL_ 0 0 0 ENSG00000168807|ENST00000336278|SNTB2 ENSG00000168807|ENST00000336278|SNTB2 ENSG00000168807|ENST00000336278|SNTB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.2515563964844 2 494.250034 986.485516 3.4089 0.0016849 0.25851 0.00012777 3.6674 0.0018126 494.25015146762473 47.694 0.23584 47.957 47.9 48.136 0.26363 22 14 2 0 0 0 0.29142 1 21808 21808 36.127 22.221 1 1297900 19784 4654 12587 12624 22675 22675 -0.008267628425983276 MPDLENRL 8 Unmodified _MPDLENRL_ 0 0 0 ENSG00000168807|ENST00000336278|SNTB2 ENSG00000168807|ENST00000336278|SNTB2 ENSG00000168807|ENST00000336278|SNTB2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 494.250034 986.485516 2.9086 0.0014376 0.30934 0.00015289 3.218 0.0015905 494.25004951237304 47.782 0.22738 47.782 47.702 47.93 0 -0.038926 -3.9E-05 NaN 36.127 18 12 2 NaN NaN NaN NaN 0 NaN NaN 0 870610 19785 4654 12587 12624 -0.008267628425983276 MPDLENRL 8 Unmodified _MPDLENRL_ 0 0 0 ENSG00000168807|ENST00000336278|SNTB2 ENSG00000168807|ENST00000336278|SNTB2 ENSG00000168807|ENST00000336278|SNTB2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 494.250034 986.485516 3.156 0.0015599 0.50662 0.0002504 3.6627 0.0018103 494.2503274649051 47.07 0.26089 47.723 47.677 47.938 0.65219 -0.097904 0.00015602 NaN 36.127 28 14 2 NaN NaN NaN NaN 0 NaN NaN 0 916260 19786 4654 12587 12624 -0.008267628425983276 MPDLENRLIEL 11 Unmodified _MPDLENRLIEL_ 0 0 0 ENSG00000168807|ENST00000336278|SNTB2 ENSG00000168807|ENST00000336278|SNTB2 ENSG00000168807|ENST00000336278|SNTB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 671.8572387695312 2 671.855395 1341.69624 3.1132 0.0020916 -0.74361 -0.0004996 2.3695 0.001592 671.8550195514413 76.142 0.24089 76.142 76.025 76.266 0 37 19 3 0 0 0 0.00012345 2 37300 37300;37372 87.123 66.709 1 1047500 19787 4654 12588 12625 22676;22677 22676 0.03905649688795165 MPDLENRLIEL 11 Unmodified _MPDLENRLIEL_ 0 0 0 ENSG00000168807|ENST00000336278|SNTB2 ENSG00000168807|ENST00000336278|SNTB2 ENSG00000168807|ENST00000336278|SNTB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 671.8575439453125 2 671.855395 1341.69624 3.5402 0.0023785 0.37663 0.00025304 3.9169 0.0026316 671.8553747952541 75.956 0.25471 76.213 76.039 76.294 0.25705 34 18 3 0 0 0 0.0030829 2 34927 34927;34976 72.59 20.96 1 616880 19788 4654 12588 12625 22678;22679 22678 0.03905649688795165 MPDLENRLIEL 11 Unmodified _MPDLENRLIEL_ 0 0 0 ENSG00000168807|ENST00000336278|SNTB2 ENSG00000168807|ENST00000336278|SNTB2 ENSG00000168807|ENST00000336278|SNTB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 671.8585815429688 2 671.855395 1341.69624 3.5454 0.002382 0.32626 0.0002192 3.8717 0.0026012 671.8554272819582 75.468 0.15985 76.133 76.014 76.174 0.6644 24 14 2 0 0 0 0.0030829 1 34745 34745 72.59 57.341 1 913290 19789 4654 12588 12625 22680 22680 0.03905649688795165 MPDLENRLIEL 11 Unmodified _MPDLENRLIEL_ 0 0 0 ENSG00000168807|ENST00000336278|SNTB2 ENSG00000168807|ENST00000336278|SNTB2 ENSG00000168807|ENST00000336278|SNTB2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 671.855395 1341.69624 3.173 0.0021318 -0.45651 -0.00030671 2.7165 0.0018251 672.356464899105 75.167 0.15273 75.83 75.763 75.916 0.66349 -0.24919 -0.0005115 NaN 87.123 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 2548300 19790 4654 12588 12625 0.03905649688795165 MPDLENRVL 9 Unmodified _MPDLENRVL_ 0 0 0 ENSG00000185745|ENST00000371804|IFIT1;nc|ENSG00000185745|P09914-2|IFIT1;IFIT1|p.D345Cfs*2|1|0.12|ENSG00000185745|chr10:89403304-89403305|-/TTGTG|frameshift_variant ENSG00000185745|ENST00000371804|IFIT1 ENSG00000185745|ENST00000371804|IFIT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.7858276367188 2 543.784241 1085.55393 3.3059 0.0017977 -0.20147 -0.00010956 3.1045 0.0016882 543.7842831903614 54.127 0.27772 54.392 54.217 54.494 0.26462 21 12 2 0 0 0 0.084899 2 24734 24734;24792 36.506 18.36 1 465080 19791 5529 12589 12626 22681;22682 22681 0.0145748173724769 MPDLENRVL 9 Unmodified _MPDLENRVL_ 0 0 0 ENSG00000185745|ENST00000371804|IFIT1;nc|ENSG00000185745|P09914-2|IFIT1;IFIT1|p.D345Cfs*2|1|0.12|ENSG00000185745|chr10:89403304-89403305|-/TTGTG|frameshift_variant ENSG00000185745|ENST00000371804|IFIT1 ENSG00000185745|ENST00000371804|IFIT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.78662109375 2 543.784241 1085.55393 3.3024 0.0017958 0.13542 7.3638E-05 3.4378 0.0018694 543.7843742519101 53.527 0.27179 54.191 54.024 54.296 0.6644 20 12 2 0 0 0 0.11155 1 24483 24483 29.841 16.798 1 657750 19792 5529 12589 12626 22683 22683 0.0145748173724769 MPDLIKEC 8 Unmodified _MPDLIKEC_ 0 0 0 ENST00000539664.2_1_7:28994294-28994399:-|nuORF ENST00000539664.2_1_7:28994294-28994399:-|nuORF ENST00000539664.2_1_7:28994294-28994399:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.7309875488281 2 474.730089 947.445625 3.064 0.0014546 -0.64503 -0.00030621 2.419 0.0011484 474.7300281306695 54.864 0.3578 54.864 54.694 55.052 0 84 37 3 0 0 0 0.51067 1 25140 25140 20.454 3.5113 1 1442800 19793 8795 12590 12627 22684 22684 -0.03020025837531648 MPDLIKEC 8 Unmodified _MPDLIKEC_ 0 0 0 ENST00000539664.2_1_7:28994294-28994399:-|nuORF ENST00000539664.2_1_7:28994294-28994399:-|nuORF ENST00000539664.2_1_7:28994294-28994399:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.7318420410156 2 474.730089 947.445625 NaN NaN NaN NaN NaN NaN NaN 53.987 1 54.653 54.153 55.153 0.6665 0 0 0 0.76538 1 24693 24693 20.454 4.6064 1 19794 8795 12590 12627 22685 22685 -0.03020025837531648 MPDLPEKL 8 Unmodified _MPDLPEKL_ 0 0 0 nc|ENSG00000130731|Q96S19-6|METTL26;nc|ENSG00000130731|Q96S19-4|METTL26 nc|ENSG00000130731|Q96S19-6|METTL26 nc|ENSG00000130731|Q96S19-6|METTL26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 471.753173828125 2 471.751879 941.489204 3.2072 0.001513 -0.22994 -0.00010847 2.9773 0.0014045 471.7518244972219 54.24 0.63929 54.24 53.956 54.596 0 150 55 3 0 0 0 0.00077252 3 24885 24885;24937;24987 136.33 78.862 1 22095000 19795 9639 12591 12628 22686;22687;22688 22686 0.016119069312708234 MPDLPEKL 8 Unmodified _MPDLPEKL_ 0 0 0 nc|ENSG00000130731|Q96S19-6|METTL26;nc|ENSG00000130731|Q96S19-4|METTL26 nc|ENSG00000130731|Q96S19-6|METTL26 nc|ENSG00000130731|Q96S19-6|METTL26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 471.7528076171875 2 471.751879 941.489204 2.7079 0.0012774 -0.45867 -0.00021638 2.2492 0.0010611 471.75170560615953 53.184 0.5561 53.987 53.756 54.312 0.80351 140 50 3 0 0 0 0.00019857 4 24169 24169;24212;24265;24318 144.35 83.961 1 23016000 19796 9639 12591 12628 22689;22690;22691;22692 22689 0.016119069312708234 MPDLPEKL 8 Unmodified _MPDLPEKL_ 0 0 0 nc|ENSG00000130731|Q96S19-6|METTL26;nc|ENSG00000130731|Q96S19-4|METTL26 nc|ENSG00000130731|Q96S19-6|METTL26 nc|ENSG00000130731|Q96S19-6|METTL26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.753173828125 2 471.751879 941.489204 2.8214 0.001331 0.18957 8.943E-05 3.011 0.0014204 471.7520317424791 54.009 0.81557 54.273 53.962 54.777 0.26462 97 36 3 0 0 0 0.0036737 5 24747 24633;24693;24747;24797;24856 131.27 70.878 1 17826000 19797 9639 12591 12628 22693;22694;22695;22696;22697 22695 0.016119069312708234 MPDLPEKL 8 Unmodified _MPDLPEKL_ 0 0 0 nc|ENSG00000130731|Q96S19-6|METTL26;nc|ENSG00000130731|Q96S19-4|METTL26 nc|ENSG00000130731|Q96S19-6|METTL26 nc|ENSG00000130731|Q96S19-6|METTL26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.7531433105469 2 471.751879 941.489204 2.8082 0.0013248 0.069577 3.2823E-05 2.8778 0.0013576 471.75195845038354 53.456 0.58191 54.121 53.865 54.447 0.6644 78 28 3 0 0 0 0.00077252 3 24430 24430;24480;24532 136.33 68.99 1 22419000 19798 9639 12591 12628 22698;22699;22700 22698 0.016119069312708234 MPDLPEKL 8 Oxidation (M) _M(Oxidation (M))PDLPEKL_ M(1)PDLPEKL M(63)PDLPEKL 0 0 1 nc|ENSG00000130731|Q96S19-6|METTL26;nc|ENSG00000130731|Q96S19-4|METTL26 nc|ENSG00000130731|Q96S19-6|METTL26 nc|ENSG00000130731|Q96S19-6|METTL26 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.7508850097656 2 479.749336 957.484119 NaN NaN NaN NaN NaN NaN NaN 42.992 1 43.262 42.762 43.762 0.27021 0 0 0 0.1085 1 19625 19625 62.573 40.826 1 19799 9639 12591 12629 22701 22701 91 0.0036760306865062375 MPDLPNVGL 9 Unmodified _MPDLPNVGL_ 0 0 0 nc|ENSG00000134014|Q9H9T3-4|ELP3;nc|ENSG00000134014|Q9H9T3-5|ELP3;nc|ENSG00000134014|Q9H9T3-2|ELP3;ENSG00000134014|ENST00000256398|ELP3 nc|ENSG00000134014|Q9H9T3-4|ELP3 nc|ENSG00000134014|Q9H9T3-4|ELP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.2494201660156 2 478.249503 954.484453 2.4376 0.0011658 -0.34148 -0.00016331 2.0961 0.0010025 478.24942804561414 77.558 0.24669 78.119 77.903 78.15 0.56091 26 16 2 0 0 0 0.19064 1 37571 37571 24.021 4.5816 1 1538700 19800 2782 12592 12630 22702 22702 0.005390227884959131 MPDLPNVGL 9 Unmodified _MPDLPNVGL_ 0 0 0 nc|ENSG00000134014|Q9H9T3-4|ELP3;nc|ENSG00000134014|Q9H9T3-5|ELP3;nc|ENSG00000134014|Q9H9T3-2|ELP3;ENSG00000134014|ENST00000256398|ELP3 nc|ENSG00000134014|Q9H9T3-4|ELP3 nc|ENSG00000134014|Q9H9T3-4|ELP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.25048828125 2 478.249503 954.484453 2.9129 0.0013931 -0.051273 -2.4521E-05 2.8616 0.0013686 478.2493807356294 77.866 0.40212 78.119 77.945 78.348 0.25335 43 22 2 0 0 0 0.093314 2 35873 35820;35873 34.402 9.4938 1 1243800 19801 2782 12592 12630 22703;22704 22704 0.005390227884959131 MPDLPNVGL 9 Unmodified _MPDLPNVGL_ 0 0 0 nc|ENSG00000134014|Q9H9T3-4|ELP3;nc|ENSG00000134014|Q9H9T3-5|ELP3;nc|ENSG00000134014|Q9H9T3-2|ELP3;ENSG00000134014|ENST00000256398|ELP3 nc|ENSG00000134014|Q9H9T3-4|ELP3 nc|ENSG00000134014|Q9H9T3-4|ELP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 955.49609375 1 955.49173 954.484453 3.5645 0.0034059 -0.63114 -0.00060304 2.9334 0.0028028 955.4914176800153 77.869 0.37757 78.123 77.991 78.369 0.25335 29 20 2 0 0 0 0.029308 2 35885 35833;35885 56.177 35.723 1 537530 19802 2782 12592 12630 22705;22706 22706 0.005390227884959131 MPDLPNVGL 9 Unmodified _MPDLPNVGL_ 0 0 0 nc|ENSG00000134014|Q9H9T3-4|ELP3;nc|ENSG00000134014|Q9H9T3-5|ELP3;nc|ENSG00000134014|Q9H9T3-2|ELP3;ENSG00000134014|ENST00000256398|ELP3 nc|ENSG00000134014|Q9H9T3-4|ELP3 nc|ENSG00000134014|Q9H9T3-4|ELP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.2507019042969 2 478.249503 954.484453 2.9205 0.0013967 -0.27008 -0.00012917 2.6504 0.0012676 478.2496260027311 77.446 0.40562 78.109 77.947 78.353 0.66303 50 26 3 0 0 0 0.093314 3 35709 35659;35709;35778 34.402 11.253 1 1009600 19803 2782 12592 12630 22707;22708;22709 22708 0.005390227884959131 MPDLPNVGL 9 Unmodified _MPDLPNVGL_ 0 0 0 nc|ENSG00000134014|Q9H9T3-4|ELP3;nc|ENSG00000134014|Q9H9T3-5|ELP3;nc|ENSG00000134014|Q9H9T3-2|ELP3;ENSG00000134014|ENST00000256398|ELP3 nc|ENSG00000134014|Q9H9T3-4|ELP3 nc|ENSG00000134014|Q9H9T3-4|ELP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 955.4949951171875 1 955.49173 954.484453 3.6254 0.0034641 -0.32509 -0.00031062 3.3003 0.0031534 955.4914194092795 77.44 0.2753 78.103 77.994 78.269 0.66303 26 17 2 0 0 0 0.034495 2 35707 35662;35707 53.833 29.812 1 751300 19804 2782 12592 12630 22710;22711 22711 0.005390227884959131 MPDLPNVGL 9 Unmodified _MPDLPNVGL_ 0 0 0 nc|ENSG00000134014|Q9H9T3-4|ELP3;nc|ENSG00000134014|Q9H9T3-5|ELP3;nc|ENSG00000134014|Q9H9T3-2|ELP3;ENSG00000134014|ENST00000256398|ELP3 nc|ENSG00000134014|Q9H9T3-4|ELP3 nc|ENSG00000134014|Q9H9T3-4|ELP3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 478.249503 954.484453 2.4693 0.0011809 -0.05358 -2.5625E-05 2.4157 0.0011553 478.24943543343227 78.307 0.26318 78.307 78.167 78.43 0 0.14318 6.2701E-05 NaN 34.402 28 23 2 NaN NaN NaN NaN 0 NaN NaN 0 1280000 19805 2782 12592 12630 0.005390227884959131 MPDNQIITL 9 Unmodified _MPDNQIITL_ 0 0 0 ENSG00000145934|ENST00000518659|TENM2;nc|ENSG00000145934|Q9NT68-2|TENM2 ENSG00000145934|ENST00000518659|TENM2 ENSG00000145934|ENST00000518659|TENM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.77490234375 2 522.773342 1043.53213 2.5695 0.0013432 0.42108 0.00022013 2.9905 0.0015634 522.7734368915898 71.692 0.78596 71.692 71.257 72.043 0 181 77 4 0 0 0 0.0063542 4 34871 34776;34824;34871;34982 88.954 23.719 1 7015800 19806 3497 12593 12631 22712;22713;22714;22715 22714 0.012106769886713664 MPDNQIITL 9 Unmodified _MPDNQIITL_ 0 0 0 ENSG00000145934|ENST00000518659|TENM2;nc|ENSG00000145934|Q9NT68-2|TENM2 ENSG00000145934|ENST00000518659|TENM2 ENSG00000145934|ENST00000518659|TENM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.7748413085938 2 522.773342 1043.53213 2.8164 0.0014724 -0.1423 -7.439E-05 2.6741 0.001398 522.7734809460743 70.899 0.50134 71.603 71.421 71.923 0.70386 121 65 3 0 0 0 0.012326 2 34000 33946;34000 78.728 13.493 1 8193600 19807 3497 12593 12631 22716;22717 22717 0.012106769886713664 MPDNQIITL 9 Unmodified _MPDNQIITL_ 0 0 0 ENSG00000145934|ENST00000518659|TENM2;nc|ENSG00000145934|Q9NT68-2|TENM2 ENSG00000145934|ENST00000518659|TENM2 ENSG00000145934|ENST00000518659|TENM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1044.545166015625 1 1044.53941 1043.53213 2.9996 0.0031333 0.1964 0.00020515 3.196 0.0033384 1044.5390081633964 70.889 0.33095 71.551 71.389 71.72 0.66209 29 20 2 0 0 0 0.41574 2 32499 32435;32499 13.906 2.66 1 460320 19808 3497 12593 12631 22718;22719 22719 0.012106769886713664 MPDNQIITL 9 Unmodified _MPDNQIITL_ 0 0 0 ENSG00000145934|ENST00000518659|TENM2;nc|ENSG00000145934|Q9NT68-2|TENM2 ENSG00000145934|ENST00000518659|TENM2 ENSG00000145934|ENST00000518659|TENM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.7753295898438 2 522.773342 1043.53213 2.8171 0.0014727 1.706 0.00089187 4.5232 0.0023646 522.7736522799943 70.877 0.94766 71.54 70.948 71.896 0.66208 145 59 4 0 0 0 0.019364 4 32500 32452;32500;32550;32601 69.105 3.8699 1 4005800 19809 3497 12593 12631 22720;22721;22722;22723 22721 0.012106769886713664 MPDNTAAQKV 10 Unmodified _MPDNTAAQKV_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.7683715820312 2 537.766049 1073.51754 3.2107 0.0017266 0.050223 2.7008E-05 3.261 0.0017536 537.7660836181884 19.451 0.16572 19.451 19.373 19.538 0 39 23 2 0 0 0 2.0293000000000002E-20 2 8696 8648;8696 174.48 128.46 1 4311900 19810 1207;2759 12594 12632 22724;22725 22725 -0.01627395159448497 MPDNTAAQKV 10 Unmodified _MPDNTAAQKV_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.768310546875 2 537.766049 1073.51754 2.886 0.001552 0.43113 0.00023185 3.3171 0.0017838 537.7664663041415 19.03 0.097691 19.327 19.298 19.395 0.29753 19 12 2 0 0 0 0.0010781 1 8641 8641 104.48 73.848 1 1499700 19811 1207;2759 12594 12632 22726 22726 -0.01627395159448497 MPDNTAAQKV 10 Unmodified _MPDNTAAQKV_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11 ENSG00000100345|ENST00000216181|MYH9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.7673950195312 2 537.766049 1073.51754 NaN NaN NaN NaN NaN NaN NaN 18.923 1 19.221 18.721 19.721 0.29753 0 0 0 0.14656 1 8594 8594 85.764 61.744 1 19812 1207;2759 12594 12632 22727 22727 -0.01627395159448497 MPDNTAAQKV 10 Unmodified _MPDNTAAQKV_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11 ENSG00000100345|ENST00000216181|MYH9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.7677001953125 2 537.766049 1073.51754 NaN NaN NaN NaN NaN NaN NaN 18.541 1 19.202 18.702 19.702 0.66072 0 0 0 2.6035E-10 1 8400 8400 139.38 93.357 1 19813 1207;2759 12594 12632 22728 22728 -0.01627395159448497 MPDNTAAQKV 10 Unmodified _MPDNTAAQKV_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11 ENSG00000100345|ENST00000216181|MYH9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.7686157226562 2 537.766049 1073.51754 NaN NaN NaN NaN NaN NaN NaN 18.637 1 19.297 18.797 19.797 0.66072 0 0 0 0.059156 1 8447 8447 59.052 40.906 1 19814 1207;2759 12594 12632 22729 22729 -0.01627395159448497 MPDPTPFLL 9 Unmodified _MPDPTPFLL_ 0 0 0 nc|ENSG00000119242|Q53HC0-2|CCDC92;ENSG00000119242|ENST00000238156|CCDC92 nc|ENSG00000119242|Q53HC0-2|CCDC92 nc|ENSG00000119242|Q53HC0-2|CCDC92 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.7698364257812 2 515.767529 1029.5205 3.9942 0.0020601 -0.54389 -0.00028052 3.4503 0.0017796 515.7672663347331 92.619 0.54649 92.871 92.558 93.105 0.25253 71 27 4 0 0 0 0.020718 3 42561 42506;42561;42610 67.344 24.376 1 2014700 19815 2135 12595 12633 22730;22731;22732 22731 0.006924799653461378 MPDPTPFLL 9 Unmodified _MPDPTPFLL_ 0 0 0 nc|ENSG00000119242|Q53HC0-2|CCDC92;ENSG00000119242|ENST00000238156|CCDC92 nc|ENSG00000119242|Q53HC0-2|CCDC92 nc|ENSG00000119242|Q53HC0-2|CCDC92 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.7693481445312 2 515.767529 1029.5205 3.6184 0.0018662 -0.57041 -0.0002942 3.0479 0.001572 515.7673445526116 92.056 0.50388 92.713 92.43 92.934 0.65665 64 23 3 0 0 0 0.012869 3 42389 42287;42333;42389 77.984 33.577 1 1392300 19816 2135 12595 12633 22733;22734;22735 22735 0.006924799653461378 MPDRPRLGL 9 Unmodified _MPDRPRLGL_ 0 0 0 ENST00000505306.5_1_17:48133647-48154208:+|nuORF;ENSG00000005884|ENST00000320031|ITGA3;nc|ENSG00000005884|P26006-1|ITGA3 ENST00000505306.5_1_17:48133647-48154208:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.1995849609375 3 352.199054 1053.57533 2.5555 0.00090005 0.078065 2.7495E-05 2.6336 0.00092755 352.1990571266264 38.802 0.4637 38.802 38.636 39.1 0 30 18 2 0 0 0 0.3144 1 17638 17638 15.248 9.0427 1 411310 19817 335 12596 12634 22736 22736 0.05068911556622879 MPDRPRLGL 9 Unmodified _MPDRPRLGL_ 0 0 0 ENST00000505306.5_1_17:48133647-48154208:+|nuORF;ENSG00000005884|ENST00000320031|ITGA3;nc|ENSG00000005884|P26006-1|ITGA3 ENST00000505306.5_1_17:48133647-48154208:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.55108642578125 3 352.199054 1053.57533 2.3053 0.00081194 0.20866 7.3489E-05 2.514 0.00088543 352.1990346993708 37.943 0.42623 38.576 38.415 38.841 0.63388 22 16 2 0 0 0 0.11065 1 17371 17371 2.4985 0.75621 1 214940 19818 335 12596 12634 22737 22737 0.05068911556622879 MPDRPRLGL 9 Unmodified _MPDRPRLGL_ 0 0 0 ENST00000505306.5_1_17:48133647-48154208:+|nuORF;ENSG00000005884|ENST00000320031|ITGA3;nc|ENSG00000005884|P26006-1|ITGA3 ENST00000505306.5_1_17:48133647-48154208:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 352.199054 1053.57533 2.3642 0.00083265 0.075472 2.6581E-05 2.4396 0.00085923 352.19899364631806 37.744 0.31615 38.539 38.406 38.722 0.79552 -0.099894 -3.7399E-05 NaN 7.1017 17 13 2 NaN NaN NaN NaN 0 NaN NaN 0 534510 19819 335 12596 12634 0.05068911556622879 MPDSAAALL 9 Unmodified _MPDSAAALL_ 0 0 0 nc|ENSG00000105928|O60443-3|GSDME;ENSG00000105928|ENST00000645220|GSDME;nc|ENSG00000105928|O60443-2|GSDME nc|ENSG00000105928|O60443-3|GSDME nc|ENSG00000105928|O60443-3|GSDME MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 888.4509887695312 1 888.44953 887.442254 3.192 0.0028359 -0.18898 -0.0001679 3.003 0.002668 888.4492803836512 67.145 0.18271 67.145 66.979 67.162 0 42 23 3 0 0 0 0.012869 2 32079 32079;32127 77.984 13.748 1 4300000 19820 1541 12597 12635 22738;22739 22738 -0.005969526198896347 MPDSAAALL 9 Unmodified _MPDSAAALL_ 0 0 0 nc|ENSG00000105928|O60443-3|GSDME;ENSG00000105928|ENST00000645220|GSDME;nc|ENSG00000105928|O60443-2|GSDME nc|ENSG00000105928|O60443-3|GSDME nc|ENSG00000105928|O60443-3|GSDME MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 888.4507446289062 1 888.44953 887.442254 2.9488 0.0026199 -0.27835 -0.0002473 2.6705 0.0023726 888.4493602300433 66.185 0.27689 66.89 66.728 67.005 0.7047 66 35 2 0 0 0 0.012869 3 31398 31294;31345;31398 77.984 13.748 1 5874800 19821 1541 12597 12635 22740;22741;22742 22742 -0.005969526198896347 MPDSAAALL 9 Unmodified _MPDSAAALL_ 0 0 0 nc|ENSG00000105928|O60443-3|GSDME;ENSG00000105928|ENST00000645220|GSDME;nc|ENSG00000105928|O60443-2|GSDME nc|ENSG00000105928|O60443-3|GSDME nc|ENSG00000105928|O60443-3|GSDME MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 888.4534301757812 1 888.44953 887.442254 4.1115 0.0036528 -0.56927 -0.00050577 3.5422 0.0031471 888.4491495885557 66.799 0.37158 67.049 66.852 67.224 0.2501 50 19 3 0 0 0 0.012869 3 30591 30542;30591;30641 77.984 13.748 1 3435800 19822 1541 12597 12635 22743;22744;22745 22744 -0.005969526198896347 MPDSAAALL 9 Unmodified _MPDSAAALL_ 0 0 0 nc|ENSG00000105928|O60443-3|GSDME;ENSG00000105928|ENST00000645220|GSDME;nc|ENSG00000105928|O60443-2|GSDME nc|ENSG00000105928|O60443-3|GSDME nc|ENSG00000105928|O60443-3|GSDME MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 888.452880859375 1 888.44953 887.442254 4.0096 0.0035623 -0.054385 -4.8318E-05 3.9552 0.003514 888.449786859676 66.231 0.41119 66.887 66.664 67.075 0.65672 72 24 4 0 0 0 0.012869 3 30397 30307;30353;30397 77.984 13.748 1 5222000 19823 1541 12597 12635 22746;22747;22748 22748 -0.005969526198896347 MPDSAAALL 9 Oxidation (M) _M(Oxidation (M))PDSAAALL_ M(1)PDSAAALL M(51)PDSAAALL 0 0 1 nc|ENSG00000105928|O60443-3|GSDME;ENSG00000105928|ENST00000645220|GSDME;nc|ENSG00000105928|O60443-2|GSDME nc|ENSG00000105928|O60443-3|GSDME nc|ENSG00000105928|O60443-3|GSDME MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.72705078125 2 452.725861 903.437169 NaN NaN NaN NaN NaN NaN NaN 56.254 1 56.52 56.02 57.02 0.26543 0 0 0 0.059045 1 25731 25731 50.855 8.7605 1 19824 1541 12597 12636 22749 22749 15 -0.018412564825098343 MPDSENPTSVF 11 Unmodified _MPDSENPTSVF_ 0 0 0 ENST00000531123.5_1_1:33290993-33299636:+|nuORF;ENST00000356689.7_1_1:33290993-33299636:+|nuORF;nc|ENSG00000116497|Q96BU1-2|S100PBP;ENSG00000116497|ENST00000373475|S100PBP ENST00000531123.5_1_1:33290993-33299636:+|nuORF ENST00000531123.5_1_1:33290993-33299636:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 612.26806640625 2 612.266078 1222.5176 3.5709 0.0021863 -0.16398 -0.0001004 3.4069 0.0020859 612.2662473682144 60.918 0.32524 61.174 61.025 61.35 0.25578 25 13 2 0 0 0 0.16104 2 27879 27879;27958 31.268 21.194 1 391480 19825 7159 12598 12637 22750;22751 22750 -0.08475439950143482 MPDSENPTSVF 11 Unmodified _MPDSENPTSVF_ 0 0 0 ENST00000531123.5_1_1:33290993-33299636:+|nuORF;ENST00000356689.7_1_1:33290993-33299636:+|nuORF;nc|ENSG00000116497|Q96BU1-2|S100PBP;ENSG00000116497|ENST00000373475|S100PBP ENST00000531123.5_1_1:33290993-33299636:+|nuORF ENST00000531123.5_1_1:33290993-33299636:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 612.2681274414062 2 612.266078 1222.5176 3.5447 0.0021703 0.31088 0.00019034 3.8555 0.0023606 612.2661599180232 60.345 0.34125 61.01 60.874 61.215 0.66503 26 16 2 0 0 0 0.44818 2 27627 27627;27640 20.415 9.5906 1 503700 19826 7159 12598 12637 22752;22753 22752 -0.08475439950143482 MPDSGRPAF 9 Unmodified _MPDSGRPAF_ 0 0 0 ENST00000462483.1_1_X:47087946-47088164:+|nuORF;ENSG00000102225|ENST00000357227|CDK16;nc|ENSG00000102225|Q00536-3|CDK16;nc|ENSG00000102225|Q00536-2|CDK16 ENST00000462483.1_1_X:47087946-47088164:+|nuORF ENST00000462483.1_1_X:47087946-47088164:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 489.2308349609375 2 489.229102 976.443651 3.0672 0.0015005 -0.18944 -9.2682E-05 2.8777 0.0014079 489.2290378931975 32.222 0.39244 33.01 32.893 33.286 0.78795 52 39 2 0 0 0 0.72052 1 14604 14604 8.7454 3.5147 1 444580 19827 1336 12599 12638 22754 22754 -0.0455131853112789 MPDSGRPAF 9 Unmodified _MPDSGRPAF_ 0 0 0 ENST00000462483.1_1_X:47087946-47088164:+|nuORF;ENSG00000102225|ENST00000357227|CDK16;nc|ENSG00000102225|Q00536-3|CDK16;nc|ENSG00000102225|Q00536-2|CDK16 ENST00000462483.1_1_X:47087946-47088164:+|nuORF ENST00000462483.1_1_X:47087946-47088164:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.231201171875 2 489.229102 976.443651 3.2477 0.0015889 0.72662 0.00035548 3.9743 0.0019444 489.2295593297127 33.104 0.60223 33.357 33.1 33.702 0.25389 38 26 2 0 0 0 0.10837 1 15105 15105 30.637 18.105 1 330780 19828 1336 12599 12638 22755 22755 -0.0455131853112789 MPDSGRPAF 9 Unmodified _MPDSGRPAF_ 0 0 0 ENST00000462483.1_1_X:47087946-47088164:+|nuORF;ENSG00000102225|ENST00000357227|CDK16;nc|ENSG00000102225|Q00536-3|CDK16;nc|ENSG00000102225|Q00536-2|CDK16 ENST00000462483.1_1_X:47087946-47088164:+|nuORF ENST00000462483.1_1_X:47087946-47088164:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.231201171875 2 489.229102 976.443651 3.1171 0.001525 0.57319 0.00028042 3.6903 0.0018054 489.229317509483 32.653 0.57464 33.271 33.038 33.613 0.61831 42 25 2 0 0 0 0.27958 3 14965 14918;14965;15031 18.146 5.6148 1 277710 19829 1336 12599 12638 22756;22757;22758 22757 -0.0455131853112789 MPDTPEPI 8 Unmodified _MPDTPEPI_ 0 0 0 nc|ENSG00000177663|Q96F46-2|IL17RA;ENSG00000177663|ENST00000319363|IL17RA nc|ENSG00000177663|Q96F46-2|IL17RA nc|ENSG00000177663|Q96F46-2|IL17RA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.2126159667969 2 450.212586 898.410619 2.5323 0.0011401 -0.11155 -5.0221E-05 2.4207 0.0010898 450.2123314169047 73.578 0.47691 73.837 73.641 74.118 0.25875 73 46 2 0 0 0 0.65723 3 33791 33791;33833;33842 9.3474 1.0044 1 869550 19830 5129 12600 12639 22759;22760;22761 22759 -0.04264945373847695 MPDTPEPI 8 Unmodified _MPDTPEPI_ 0 0 0 nc|ENSG00000177663|Q96F46-2|IL17RA;ENSG00000177663|ENST00000319363|IL17RA nc|ENSG00000177663|Q96F46-2|IL17RA nc|ENSG00000177663|Q96F46-2|IL17RA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.2132873535156 2 450.212586 898.410619 2.5041 0.0011274 -0.30119 -0.0001356 2.2029 0.00099177 450.21245646239447 73.067 0.41876 73.731 73.573 73.992 0.66398 60 42 2 0 0 0 0.65723 1 33578 33578 9.3474 2.9933 1 602420 19831 5129 12600 12639 22762 22762 -0.04264945373847695 MPDVDFNL 8 Unmodified _MPDVDFNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 475.71905517578125 2 475.718036 949.421518 2.3934 0.0011386 -0.23399 -0.00011131 2.1594 0.0010273 475.71804710511503 78.346 0.58553 78.346 78.116 78.701 0 118 54 4 0 0 0 0.013019 4 38453 38398;38453;38514;38608 93.883 29.647 1 12590000 19832 2385 12601 12640 22763;22764;22765;22766 22764 -0.055215429995541854 MPDVDFNL 8 Unmodified _MPDVDFNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 950.4304809570312 1 950.428795 949.421518 3.1063 0.0029523 -0.55901 -0.0005313 2.5473 0.002421 950.4280128076207 78.453 0.31392 78.453 78.157 78.471 0 50 28 2 0 0 0 0.074456 3 38535 38418;38480;38535 57.471 27.247 1 9210400 19833 2385 12601 12640 22767;22768;22769 22769 -0.055215429995541854 MPDVDFNL 8 Unmodified _MPDVDFNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 475.718994140625 2 475.718036 949.421518 2.3796 0.001132 -0.51947 -0.00024712 1.8601 0.00088491 475.71787682644083 77.531 0.7862 78.092 77.823 78.61 0.56091 152 63 4 0 0 0 0.013019 5 37574 37522;37574;37617;37693;37764 93.883 29.647 1 12226000 19834 2385 12601 12640 22770;22771;22772;22773;22774 22771 -0.055215429995541854 MPDVDFNL 8 Unmodified _MPDVDFNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 950.43115234375 1 950.428795 949.421518 2.9998 0.0028511 -0.63435 -0.00060291 2.3654 0.0022482 950.4280870751107 77.555 0.25583 78.116 77.903 78.159 0.5609 38 17 3 0 0 0 0.16336 2 37549 37549;37599 46.921 16.696 1 4846200 19835 2385 12601 12640 22775;22776 22775 -0.055215429995541854 MPDVDFNL 8 Unmodified _MPDVDFNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 950.4293212890625 1 950.428795 949.421518 3.5819 0.0034044 -0.42462 -0.00040358 3.1573 0.0030008 950.4285071138185 77.883 0.72911 78.136 77.93 78.659 0.25335 98 41 3 0 0 0 0.045071 6 35805 35805;35857;35900;35942;35987;36033 67.344 41.003 1 3913200 19836 2385 12601 12640 22777;22778;22779;22780;22781;22782 22777 -0.055215429995541854 MPDVDFNL 8 Unmodified _MPDVDFNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.71923828125 2 475.718036 949.421518 2.8923 0.0013759 -0.16766 -7.9761E-05 2.7247 0.0012962 475.71809074155743 77.94 0.88766 78.193 77.886 78.774 0.25335 158 50 4 0 0 0 0.037436 5 35858 35806;35858;35907;35959;36010 70.716 24.695 1 10258000 19837 2385 12601 12640 22783;22784;22785;22786;22787 22784 -0.055215429995541854 MPDVDFNL 8 Unmodified _MPDVDFNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.7193298339844 2 475.718036 949.421518 2.8946 0.001377 -0.040077 -1.9065E-05 2.8545 0.0013579 475.7181741427956 77.494 0.77853 78.157 77.873 78.652 0.66302 162 53 5 0 0 0 0.033633 5 35735 35646;35691;35735;35783;35832 74.423 28.402 1 7624600 19838 2385 12601 12640 22788;22789;22790;22791;22792 22790 -0.055215429995541854 MPDVDFNL 8 Unmodified _MPDVDFNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 950.4310913085938 1 950.428795 949.421518 3.6472 0.0034664 -0.20007 -0.00019016 3.4472 0.0032763 950.4286731614973 77.525 0.6433 78.188 77.947 78.59 0.66303 100 41 3 0 0 0 0.16336 6 35649 35649;35690;35734;35782;35831;35884 46.921 18.609 1 3440400 19839 2385 12601 12640 22793;22794;22795;22796;22797;22798 22793 -0.055215429995541854 MPDVDFNL 8 Oxidation (M) _M(Oxidation (M))PDVDFNL_ M(1)PDVDFNL M(51)PDVDFNL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.717529296875 2 483.715493 965.416433 3.2801 0.0015866 -0.14323 -6.9282E-05 3.1369 0.0015174 483.7154160153098 66.855 0.46019 67.105 66.888 67.348 0.2501 47 26 2 0 0 0 0.12673 3 30678 30585;30628;30678 50.855 32.72 1 881240 19840 2385 12601 12641 22799;22800;22801 22801 27 -0.06765846862163016 MPDVDFNL 8 Oxidation (M) _M(Oxidation (M))PDVDFNL_ M(1)PDVDFNL M(71)PDVDFNL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.7165222167969 2 483.715493 965.416433 3.3102 0.0016012 0.0938 4.5373E-05 3.404 0.0016466 483.71543489162866 67.44 0.80923 67.691 67.324 68.134 0.2501 86 47 2 0 0 0 0.037436 6 30932 30737;30787;30836;30880;30932;30984 70.716 42.229 1 948720 19841 2385 12601 12641 22802;22803;22804;22805;22806;22807 22806 27 -0.06765846862163016 MPDVDFNL 8 Oxidation (M) _M(Oxidation (M))PDVDFNL_ M(1)PDVDFNL M(51)PDVDFNL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.71685791015625 2 483.715493 965.416433 3.2345 0.0015646 -0.0012211 -5.9066E-07 3.2332 0.001564 483.71550930370023 66.363 0.58119 67.019 66.709 67.29 0.65672 61 34 2 0 0 0 0.12673 3 30431 30382;30431;30479 50.855 35.087 1 845190 19842 2385 12601 12641 22808;22809;22810 22809 27 -0.06765846862163016 MPDVDFNL 8 Oxidation (M) _M(Oxidation (M))PDVDFNL_ M(1)PDVDFNL M(94)PDVDFNL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.7163391113281 2 483.715493 965.416433 3.1912 0.0015436 0.20927 0.00010123 3.4004 0.0016448 483.7154791104539 66.797 0.7676 67.454 67.218 67.985 0.65672 98 45 3 0 0 0 0.013019 5 30652 30551;30602;30652;30702;30758 93.883 55.732 1 983530 19843 2385 12601 12641 22811;22812;22813;22814;22815 22813 27 -0.06765846862163016 MPDVDFNL 8 Oxidation (M) _M(Oxidation (M))PDVDFNL_ 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 483.715493 965.416433 2.6155 0.0012651 1.2037 0.00058223 3.8191 0.0018474 483.7156398929968 67.768 0.1706 67.768 67.705 67.876 0 0.13015 0.00097065 NaN 93.883 26 18 2 NaN NaN NaN NaN 0 NaN NaN 0 1239000 19844 2385 12601 12641 27 -0.06765846862163016 MPDVDLHL 8 Oxidation (M) _M(Oxidation (M))PDVDLHL_ M(1)PDVDLHL M(150)PDVDLHL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.233154296875 2 478.23131 954.448068 3.2833 0.0015702 -0.31755 -0.00015186 2.9657 0.0014183 478.23120097265894 53.359 1.1669 53.359 53.056 54.223 0 166 84 4 0 0 0 6.4859E-07 7 24423 24326;24376;24423;24470;24524;24580;24646 153.26 78.866 1 4490500 19845 2385 12602 12642 22816;22817;22818;22819;22820;22821;22822 22818 28 -0.030978541082163247 MPDVDLHL 8 Oxidation (M) _M(Oxidation (M))PDVDLHL_ M(1)PDVDLHL M(99)PDVDLHL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.2326965332031 2 478.23131 954.448068 2.4707 0.0011816 -0.39452 -0.00018867 2.0762 0.00099291 478.2311279281042 51.649 0.61277 52.459 52.242 52.855 0.81065 98 41 4 0 0 0 0.010018 2 23493 23493;23542 98.807 58.359 1 3624200 19846 2385 12602 12642 22823;22824 22823 28 -0.030978541082163247 MPDVDLHL 8 Oxidation (M) _M(Oxidation (M))PDVDLHL_ M(1)PDVDLHL M(120)PDVDLHL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.2325134277344 2 478.23131 954.448068 2.6736 0.0012786 -0.28452 -0.00013607 2.3891 0.0011426 478.23120196723045 52.328 0.97359 53.138 52.834 53.808 0.81066 177 66 4 0 0 0 0.0081859 8 23823 23734;23777;23823;23880;23924;23967;24023;24073 123.1 59.533 1 4689400 19847 2385 12602 12642 22825;22826;22827;22828;22829;22830;22831;22832 22827 28 -0.030978541082163247 MPDVDLHL 8 Oxidation (M) _M(Oxidation (M))PDVDLHL_ M(1)PDVDLHL M(110)PDVDLHL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.23272705078125 2 478.23131 954.448068 3.0503 0.0014587 -0.72601 -0.0003472 2.3243 0.0011115 478.2309875692103 52.417 0.54768 52.681 52.427 52.974 0.26345 70 26 3 0 0 0 0.0087076 3 23947 23947;24005;24065 114.94 58.403 1 4173500 19848 2385 12602 12642 22833;22834;22835 22833 28 -0.030978541082163247 MPDVDLHL 8 Oxidation (M) _M(Oxidation (M))PDVDLHL_ M(1)PDVDLHL M(130)PDVDLHL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.2325744628906 2 478.23131 954.448068 3.1507 0.0015068 -0.46571 -0.00022271 2.685 0.0012841 478.2311244571082 52.969 1.5593 53.232 52.948 54.507 0.26345 202 86 3 0 0 0 0.0048575 9 24169 24118;24169;24218;24262;24309;24353;24406;24470;24520 129.2 62.165 1 6898600 19849 2385 12602 12642 22836;22837;22838;22839;22840;22841;22842;22843;22844 22837 28 -0.030978541082163247 MPDVDLHL 8 Oxidation (M) _M(Oxidation (M))PDVDLHL_ M(1)PDVDLHL M(140)PDVDLHL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.2327880859375 2 478.23131 954.448068 2.922 0.0013974 -0.25421 -0.00012157 2.6678 0.0012758 478.23121414968153 52.602 1.4401 53.264 52.958 54.398 0.66198 152 74 3 0 0 0 0.00041985 7 24015 23960;24015;24066;24122;24170;24228;24276 137.59 74.022 1 7049200 19850 2385 12602 12642 22845;22846;22847;22848;22849;22850;22851 22846 28 -0.030978541082163247 MPDVDLHL 8 Unmodified _MPDVDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.23455810546875 2 470.233853 938.453153 2.5805 0.0012134 0.25017 0.00011764 2.8307 0.0013311 470.23396132100027 60.791 0.20732 60.791 60.684 60.891 0 35 21 2 0 0 0 0.03366 1 28260 28260 74.396 53.943 1 3955000 19851 2385 12602 12643 22852 22852 -0.018535502456074937 MPDVDLHL 8 Unmodified _MPDVDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.23541259765625 2 470.233853 938.453153 2.3509 0.0011055 -0.0012431 -5.8454E-07 2.3497 0.0011049 470.23397095741035 64.07 0.62602 64.07 63.783 64.41 0 252 105 3 0 0 0 0.013019 6 30295 30111;30162;30230;30295;30363;30435 93.883 59.696 1 60858000 19852 2385 12602 12643 22853;22854;22855;22856;22857;22858 22856 -0.018535502456074937 MPDVDLHL 8 Unmodified _MPDVDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.2345275878906 2 470.233853 938.453153 2.4803 0.0011663 -0.53468 -0.00025142 1.9456 0.0009149 470.233504006697 59.832 0.23075 60.582 60.445 60.676 0.74927 47 25 2 0 0 0 0.013019 2 27523 27475;27523 93.883 59.696 1 5100200 19853 2385 12602 12643 22859;22860 22860 -0.018535502456074937 MPDVDLHL 8 Unmodified _MPDVDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.2350158691406 2 470.233853 938.453153 2.3326 0.0010969 -0.28983 -0.00013629 2.0428 0.0009606 470.23378621675465 62.943 0.74078 63.665 63.417 64.158 0.72236 282 98 4 0 0 0 0.0093032 7 29433 29326;29380;29433;29488;29539;29593;29656 106.85 63.877 1 91676000 19854 2385 12602 12643 22861;22862;22863;22864;22865;22866;22867 22863 -0.018535502456074937 MPDVDLHL 8 Unmodified _MPDVDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.2353515625 2 470.233853 938.453153 2.8922 0.00136 -0.070006 -3.2919E-05 2.8222 0.0013271 470.2339336328856 60.593 0.26833 60.849 60.757 61.025 0.25578 50 25 3 0 0 0 0.0093032 2 27740 27740;27785 106.85 72.658 1 3992400 19855 2385 12602 12643 22868;22869 22868 -0.018535502456074937 MPDVDLHL 8 Unmodified _MPDVDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.2353820800781 2 470.233853 938.453153 2.6714 0.0012562 -0.14044 -6.6038E-05 2.531 0.0011902 470.23407990487556 63.742 1.0218 63.99 63.697 64.719 0.24803 231 62 5 0 0 0 0.0093032 9 29182 29086;29135;29182;29233;29284;29334;29374;29426;29470 106.85 65.71 1 97825000 19856 2385 12602 12643 22870;22871;22872;22873;22874;22875;22876;22877;22878 22872 -0.018535502456074937 MPDVDLHL 8 Unmodified _MPDVDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 939.464599609375 1 939.460429 938.453153 3.5575 0.0033421 0.45773 0.00043002 4.0152 0.0037721 939.4609849420466 63.651 0.40034 63.899 63.794 64.194 0.24803 33 23 2 0 0 0 0.045071 2 29164 29164;29217 67.344 35.227 1 1167500 19857 2385 12602 12643 22879;22880 22879 -0.018535502456074937 MPDVDLHL 8 Unmodified _MPDVDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.2348327636719 2 470.233853 938.453153 2.949 0.0013867 -0.35507 -0.00016697 2.5939 0.0012197 470.2337131948894 60.01 0.27406 60.675 60.517 60.791 0.66503 48 28 2 0 0 0 0.013019 2 27482 27436;27482 93.883 44.214 1 5382400 19858 2385 12602 12643 22881;22882 22882 -0.018535502456074937 MPDVDLHL 8 Unmodified _MPDVDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.2357177734375 2 470.233853 938.453153 2.8411 0.001336 -0.04842 -2.2769E-05 2.7927 0.0013132 470.2340965132517 63.143 0.97938 63.801 63.527 64.507 0.65808 225 62 5 0 0 0 0.0093032 8 28913 28863;28913;28964;29013;29057;29108;29158;29213 106.85 61.766 1 106930000 19859 2385 12602 12643 22883;22884;22885;22886;22887;22888;22889;22890 22884 -0.018535502456074937 MPDVDLHL 8 Unmodified _MPDVDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 939.4641723632812 1 939.460429 938.453153 3.7433 0.0035167 -0.21943 -0.00020614 3.5239 0.0033105 939.4602484801591 63.128 0.40751 63.786 63.608 64.015 0.65809 51 23 3 0 0 0 0.017856 4 28934 28889;28934;28977;29031 89.427 48.978 1 1520300 19860 2385 12602 12643 22891;22892;22893;22894 22892 -0.018535502456074937 MPDVDLHL 8 Unmodified _MPDVDLHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 470.233853 938.453153 2.3065 0.0010846 0.011877 5.5849E-06 2.3184 0.0010902 470.2333254893804 63.464 0.048195 64.186 64.158 64.206 0.72236 0.10393 7.0862E-05 NaN 106.85 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 2462400 19861 2385 12602 12643 -0.018535502456074937 MPDVDLHM 8 Oxidation (M) _MPDVDLHM(Oxidation (M))_ MPDVDLHM(1) M(-74)PDVDLHM(74) 0 0 1 ENSG00000124942|ENST00000378024|AHNAK;AHNAK|p.L2126M|1|0.18|ENSG00000124942|chr11:62528041-62528041|A/T|missense_variant ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.2108459472656 2 487.209521 972.404488 3.2324 0.0015749 0.10054 4.8986E-05 3.3329 0.0016238 487.20970955993295 39.244 0.58899 39.244 38.962 39.551 0 44 21 3 0 0 0 0.03366 2 17779 17779;17832 74.396 56.261 2 794270 19862 2385 12603 12644 22895;22896 22895 29 -0.08281786877000741 MPDVDLHM 8 Oxidation (M) _MPDVDLHM(Oxidation (M))_ MPDVDLHM(1) M(-70)PDVDLHM(70) 0 0 1 ENSG00000124942|ENST00000378024|AHNAK;AHNAK|p.L2126M|1|0.18|ENSG00000124942|chr11:62528041-62528041|A/T|missense_variant ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.21124267578125 2 487.209521 972.404488 3.2017 0.0015599 -0.31691 -0.0001544 2.8848 0.0014055 487.2095147886046 38.223 0.48429 39.018 38.815 39.299 0.79552 37 19 3 0 0 0 0.037436 1 17296 17296 70.716 54.868 2 833350 19863 2385 12603 12644 22897 22897 29 -0.08281786877000741 MPDVDLHM 8 Oxidation (M) _MPDVDLHM(Oxidation (M))_ MPDVDLHM(1) M(-74)PDVDLHM(74) 0 0 1 ENSG00000124942|ENST00000378024|AHNAK;AHNAK|p.L2126M|1|0.18|ENSG00000124942|chr11:62528041-62528041|A/T|missense_variant ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2109069824219 2 487.209521 972.404488 2.9943 0.0014589 -0.11007 -5.3629E-05 2.8843 0.0014052 487.20959980590726 38.913 0.56909 39.177 38.974 39.543 0.26408 45 22 3 0 0 0 0.03366 3 17712 17660;17712;17764 74.396 56.261 2 1259900 19864 2385 12603 12644 22898;22899;22900 22899 29 -0.08281786877000741 MPDVDLHM 8 Oxidation (M) _MPDVDLHM(Oxidation (M))_ MPDVDLHM(1) M(-63)PDVDLHM(63) 0 0 1 ENSG00000124942|ENST00000378024|AHNAK;AHNAK|p.L2126M|1|0.18|ENSG00000124942|chr11:62528041-62528041|A/T|missense_variant ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.2113037109375 2 487.209521 972.404488 3.1345 0.0015272 -0.036071 -1.7574E-05 3.0984 0.0015096 487.2096963473159 38.613 0.65442 39.251 38.877 39.532 0.63778 50 24 3 0 0 0 0.056325 2 17628 17628;17695 63.563 51.031 2 677290 19865 2385 12603 12644 22901;22902 22901 29 -0.08281786877000741 MPDVDLHM 8 Unmodified _MPDVDLHM_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK;AHNAK|p.L2126M|1|0.18|ENSG00000124942|chr11:62528041-62528041|A/T|missense_variant ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 479.2134704589844 2 479.212063 956.409574 3.0241 0.0014492 -0.53569 -0.00025671 2.4884 0.0011925 479.21209435344 56.3 0.68974 56.3 56.048 56.738 0 150 56 4 0 0 0 0.017856 4 25844 25844;25885;25934;25982 89.427 48.978 1 8822500 19866 2385 12603 12645 22903;22904;22905;22906 22903 -0.0703748301439191 MPDVDLHM 8 Unmodified _MPDVDLHM_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK;AHNAK|p.L2126M|1|0.18|ENSG00000124942|chr11:62528041-62528041|A/T|missense_variant ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.2131652832031 2 479.212063 956.409574 2.7129 0.0013001 -0.83429 -0.0003998 1.8786 0.00090027 479.2119509021924 55.465 0.77847 56.252 55.917 56.696 0.78711 180 64 4 0 0 0 0.017856 6 25278 25234;25278;25322;25373;25423;25482 89.427 48.978 1 10777000 19867 2385 12603 12645 22907;22908;22909;22910;22911;22912 22908 -0.0703748301439191 MPDVDLHM 8 Unmodified _MPDVDLHM_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK;AHNAK|p.L2126M|1|0.18|ENSG00000124942|chr11:62528041-62528041|A/T|missense_variant ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.2131652832031 2 479.212063 956.409574 2.9883 0.001432 -0.52926 -0.00025363 2.459 0.0011784 479.2119784734313 56.153 0.61236 56.419 56.205 56.818 0.26543 81 32 4 0 0 0 0.029979 2 25650 25650;25708 77.984 45.867 1 8353400 19868 2385 12603 12645 22913;22914 22913 -0.0703748301439191 MPDVDLHM 8 Unmodified _MPDVDLHM_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK;AHNAK|p.L2126M|1|0.18|ENSG00000124942|chr11:62528041-62528041|A/T|missense_variant ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.2135009765625 2 479.212063 956.409574 3.1367 0.0015031 -0.25015 -0.00011988 2.8866 0.0013833 479.21204416244734 55.431 0.75409 56.099 55.856 56.61 0.66798 76 29 3 0 0 0 0.017856 4 25387 25335;25387;25443;25507 89.427 48.978 1 6562900 19869 2385 12603 12645 22915;22916;22917;22918 22916 -0.0703748301439191 MPDVDLNL 8 Unmodified _MPDVDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 916.4474487304688 1 916.444445 915.437169 3.1751 0.0029098 -0.24685 -0.00022623 2.9282 0.0026836 916.4443221023586 73.965 0.62317 73.965 73.727 74.351 0 157 65 3 0 0 0 0.06577 6 36062 36007;36062;36110;36158;36212;36274 60.39 6.814 1 16938000 19870 2385 12604 12646 22919;22920;22921;22922;22923;22924 22920 -0.023932564825145164 MPDVDLNL 8 Unmodified _MPDVDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 458.7271423339844 2 458.725861 915.437169 2.1769 0.00099859 0.20209 9.2702E-05 2.379 0.0010913 458.72604805763024 73.947 0.66203 73.947 73.705 74.367 0 198 69 4 0 0 0 0.037436 6 36063 36009;36063;36111;36159;36213;36275 70.716 22.37 1 19545000 19871 2385 12604 12646 22925;22926;22927;22928;22929;22930 22926 -0.023932564825145164 MPDVDLNL 8 Unmodified _MPDVDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 458.7270812988281 2 458.725861 915.437169 2.277 0.0010445 -0.037171 -1.7051E-05 2.2399 0.0010275 458.725913113623 73.039 0.86244 73.738 73.511 74.374 0.69881 239 83 4 0 0 0 0.025999 7 35150 35104;35150;35200;35252;35292;35339;35436 81.864 25.323 1 20484000 19872 2385 12604 12646 22931;22932;22933;22934;22935;22936;22937 22932 -0.023932564825145164 MPDVDLNL 8 Unmodified _MPDVDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 916.4471435546875 1 916.444445 915.437169 3.1067 0.0028471 -0.59972 -0.00054961 2.507 0.0022975 916.4441641735966 73.071 0.53893 73.77 73.531 74.07 0.69881 147 51 4 0 0 0 0.062889 4 35302 35113;35161;35257;35302 61.357 15.983 1 14378000 19873 2385 12604 12646 22938;22939;22940;22941 22941 -0.023932564825145164 MPDVDLNL 8 Unmodified _MPDVDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 916.4473876953125 1 916.444445 915.437169 3.5588 0.0032614 -0.5101 -0.00046748 3.0487 0.0027939 916.4442268305097 73.56 0.73639 73.819 73.54 74.276 0.25876 195 74 4 0 0 0 0.029979 7 33906 33672;33714;33763;33813;33861;33906;33949 77.984 17.595 1 8154200 19874 2385 12604 12646 22942;22943;22944;22945;22946;22947;22948 22947 -0.023932564825145164 MPDVDLNL 8 Unmodified _MPDVDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 458.7275695800781 2 458.725861 915.437169 2.4627 0.0011297 0.078613 3.6062E-05 2.5413 0.0011658 458.72597900179505 73.554 0.84169 73.813 73.507 74.349 0.25876 233 87 4 0 0 0 0.037436 7 33821 33673;33722;33769;33821;33871;33917;33969 70.716 23.795 1 11144000 19875 2385 12604 12646 22949;22950;22951;22952;22953;22954;22955 22952 -0.023932564825145164 MPDVDLNL 8 Unmodified _MPDVDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 916.447265625 1 916.444445 915.437169 3.3156 0.0030386 -0.55999 -0.0005132 2.7556 0.0025254 916.4442158352125 73.07 0.71596 73.734 73.491 74.207 0.66398 199 76 4 0 0 0 0.029979 7 33690 33455;33503;33548;33596;33643;33690;33733 77.984 17.595 1 10114000 19876 2385 12604 12646 22956;22957;22958;22959;22960;22961;22962 22961 -0.023932564825145164 MPDVDLNL 8 Unmodified _MPDVDLNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 458.72686767578125 2 458.725861 915.437169 2.3463 0.0010763 -0.12393 -5.6851E-05 2.2224 0.0010195 458.72590779306245 73.068 0.71819 73.732 73.482 74.2 0.66397 212 76 4 0 0 0 0.037436 8 33554 33456;33510;33554;33598;33644;33692;33736;33791 70.716 23.795 1 10780000 19877 2385 12604 12646 22963;22964;22965;22966;22967;22968;22969;22970 22965 -0.023932564825145164 MPDVDLNL 8 Oxidation (M) _M(Oxidation (M))PDVDLNL_ M(1)PDVDLNL M(54)PDVDLNL 0 0 1 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.7236328125 2 466.723318 931.432083 NaN NaN NaN NaN NaN NaN NaN 62.25 1 62.5 62 63 0.24965 0 0 0 0.10417 1 28500 28500 53.576 23.351 1 19878 2385 12604 12647 22971 22971 30 -0.036375603451233474 MPDVELNL 8 Unmodified _MPDVELNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.7350158691406 2 465.733686 929.452819 2.1811 0.0010158 0.46076 0.00021459 2.6418 0.0012304 465.73389265183596 75.123 0.41399 75.123 74.993 75.407 0 68 40 2 0 0 0 0.21011 2 36820 36820;36879 42.095 6.0504 1 1982800 19879 2385 12605 12648 22972;22973 22972 -0.014729699654594697 MPDVELNL 8 Unmodified _MPDVELNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.73419189453125 2 465.733686 929.452819 2.2705 0.0010574 -0.059993 -2.7941E-05 2.2105 0.0010295 465.73366321858066 74.385 0.41064 75.071 74.864 75.274 0.68661 58 31 2 0 0 0 0.21011 3 35946 35884;35946;35999 42.095 6.0504 1 1880200 19880 2385 12605 12648 22974;22975;22976 22975 -0.014729699654594697 MPDVELNL 8 Unmodified _MPDVELNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.7341613769531 2 465.733686 929.452819 2.4153 0.0011249 0.39227 0.00018269 2.8075 0.0013076 465.73385341422664 74.9 0.48853 75.158 74.935 75.424 0.2583 74 45 2 0 0 0 0.21011 2 34452 34452;34503 42.095 6.0504 1 1081000 19881 2385 12605 12648 22977;22978 22977 -0.014729699654594697 MPDVELNL 8 Unmodified _MPDVELNL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.7348327636719 2 465.733686 929.452819 2.3345 0.0010872 -0.0061725 -2.8747E-06 2.3283 0.0010844 465.7336992647447 74.35 0.42976 75.015 74.854 75.284 0.6644 83 47 2 0 0 0 0.39589 2 34231 34231;34281 28.487 5.3384 1 1205600 19882 2385 12605 12648 22979;22980 22979 -0.014729699654594697 MPEAEENKQII 11 Unmodified _MPEAEENKQII_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 651.326904296875 2 651.323928 1300.6333 3.7455 0.0024395 0.56278 0.00036655 4.3082 0.0028061 651.3242091288399 37.64 0.39849 37.64 37.462 37.86 0 35 15 3 0 0 0 1.1831E-06 2 17067 17067;17128 105.35 65.106 1 1216200 19883 1700 12606 12649 22981;22982 22981 -0.0049891609926362435 MPEAEENKQII 11 Unmodified _MPEAEENKQII_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 651.3255615234375 2 651.323928 1300.6333 3.7029 0.0024118 -0.078421 -5.1078E-05 3.6245 0.0023607 651.3239533508763 36.595 0.47438 37.388 37.174 37.648 0.79342 57 22 3 0 0 0 9.1496E-05 3 16570 16521;16570;16624 89.609 56.164 1 873450 19884 1700 12606 12649 22983;22984;22985 22984 -0.0049891609926362435 MPEAEENKQII 11 Unmodified _MPEAEENKQII_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 651.3262329101562 2 651.323928 1300.6333 3.8949 0.0025368 0.17275 0.00011252 4.0676 0.0026494 651.3242407545255 37.509 0.52141 37.77 37.541 38.063 0.26083 46 16 4 0 0 0 1.2201E-09 3 17121 17049;17121;17193 115.06 74.82 1 1979000 19885 1700 12606 12649 22986;22987;22988 22987 -0.0049891609926362435 MPEAEENKQII 11 Unmodified _MPEAEENKQII_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 651.3262939453125 2 651.323928 1300.6333 3.9746 0.0025888 -0.047217 -3.0753E-05 3.9274 0.002558 651.3239106309497 36.903 0.55536 37.533 37.266 37.821 0.62999 69 23 4 0 0 0 2.1816E-10 4 16881 16823;16881;16930;16978 121.93 81.69 1 1506600 19886 1700 12606 12649 22989;22990;22991;22992 22990 -0.0049891609926362435 MPEAEKRKL 9 Unmodified _MPEAEKRKL_ 0 0 0 nc|ENSG00000112033|Q03181-4|PPARD;nc|ENSG00000112033|Q03181-2|PPARD;nc|ENSG00000112033|Q03181-3|PPARD;ENSG00000112033|ENST00000360694|PPARD nc|ENSG00000112033|Q03181-4|PPARD nc|ENSG00000112033|Q03181-4|PPARD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 367.8746337890625 3 367.874348 1100.60121 2.8906 0.0010634 -1.3139 -0.00048335 1.5767 0.00058002 367.8741082896078 12.434 0.044193 12.434 12.408 12.452 0 14 7 3 0 0 0 0.024388 1 5400 5400 49.527 17.49 1 4418600 19887 1789 12607 12650 22993 22993 0.05493761008256115 MPEAEKRKL 9 Unmodified _MPEAEKRKL_ 0 0 0 nc|ENSG00000112033|Q03181-4|PPARD;nc|ENSG00000112033|Q03181-2|PPARD;nc|ENSG00000112033|Q03181-3|PPARD;ENSG00000112033|ENST00000360694|PPARD nc|ENSG00000112033|Q03181-4|PPARD nc|ENSG00000112033|Q03181-4|PPARD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 367.8745422363281 3 367.874348 1100.60121 1.8717 0.00068855 -0.46074 -0.0001695 1.4109 0.00051905 367.8742367495896 12.349 0.033329 12.611 12.594 12.627 0.26154 10 4 3 0 0 0 0.024388 1 5328 5328 49.527 27.937 1 6310200 19888 1789 12607 12650 22994 22994 0.05493761008256115 MPEDLVEAL 9 Unmodified _MPEDLVEAL_ 0 0 0 HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant;nc|ENSG00000133835|P51659-3|HSD17B4;ENSG00000133835|ENST00000510025|HSD17B4;nc|ENSG00000133835|P51659-2|HSD17B4;ENST00000515235.6_1_5:118788237-118827866:+|nuORF HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.7542724609375 2 508.752075 1015.4896 2.5466 0.0012956 0.069683 3.5451E-05 2.6163 0.001331 508.75218094453265 77.529 0.2849 78.09 77.874 78.159 0.56091 29 19 2 0 0 0 0.09451 1 37558 37558 34.102 17.16 1 1161300 19889 2772 12608 12651 22995 22995 -0.017527181395621483 MPEDLVEAL 9 Unmodified _MPEDLVEAL_ 0 0 0 HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant;nc|ENSG00000133835|P51659-3|HSD17B4;ENSG00000133835|ENST00000510025|HSD17B4;nc|ENSG00000133835|P51659-2|HSD17B4;ENST00000515235.6_1_5:118788237-118827866:+|nuORF HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.7538146972656 2 508.752075 1015.4896 3.1673 0.0016114 -0.28452 -0.00014475 2.8828 0.0014666 508.7520934105754 77.865 0.34624 78.118 77.945 78.292 0.25335 43 19 3 0 0 0 0.071101 1 35836 35836 39.957 13.074 1 1374700 19890 2772 12608 12651 22996 22996 -0.017527181395621483 MPEDLVEAL 9 Unmodified _MPEDLVEAL_ 0 0 0 HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant;nc|ENSG00000133835|P51659-3|HSD17B4;ENSG00000133835|ENST00000510025|HSD17B4;nc|ENSG00000133835|P51659-2|HSD17B4;ENST00000515235.6_1_5:118788237-118827866:+|nuORF HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.75433349609375 2 508.752075 1015.4896 3.1228 0.0015887 0.0096994 4.9346E-06 3.1325 0.0015937 508.7522533641125 77.413 0.32169 78.076 77.915 78.237 0.66303 42 22 3 0 0 0 0.028312 1 35673 35673 57.471 23.369 1 1241100 19891 2772 12608 12651 22997 22997 -0.017527181395621483 MPEEESAKVCL 11 Carbamidomethyl (C) _MPEEESAKVC(Carbamidomethyl (C))L_ MPEEESAKVC(1)L MPEEESAKVC(69)L 0 1 0 nc|ENSG00000113522|Q92878-3|RAD50;ENSG00000113522|ENST00000378823|RAD50;nc|ENSG00000113522|Q92878-2|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 646.7992553710938 2 646.796688 1291.57882 4.1353 0.0026747 -0.35605 -0.00023029 3.7792 0.0024444 646.7967494291327 40.713 0.22651 41.354 41.247 41.473 0.64136 23 14 2 0 0 0 0.005097 1 18612 18612 68.76 60.014 1 410890 19892 1858 12609 12652 22998 22998 44 -0.05530251242316808 MPEELDISQL 10 Unmodified _MPEELDISQL_ 0 0 0 ENST00000537267.5_1_12:6966716-6975238:+|nuORF;nc|ENSG00000111667|P45974-2|USP5;ENSG00000111667|ENST00000229268|USP5 ENST00000537267.5_1_12:6966716-6975238:+|nuORF ENST00000537267.5_1_12:6966716-6975238:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.790771484375 2 587.786647 1173.55874 NaN NaN NaN NaN NaN NaN NaN 75.999 1 76.256 75.756 76.756 0.25704 0 0 0 0.79388 1 34985 34985 22.736 7.898 1 19893 1769 12610 12653 22999 22999 -0.0210967891061955 MPEEQREGL 9 Unmodified _MPEEQREGL_ 0 0 0 ENSG00000125875|ENST00000354200|TBC1D20;nc|ENSG00000125875|Q96BZ9-3|TBC1D20 ENSG00000125875|ENST00000354200|TBC1D20 ENSG00000125875|ENST00000354200|TBC1D20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.758056640625 2 544.755681 1087.49681 3.7748 0.0020563 0.050743 2.7643E-05 3.8255 0.002084 544.7560788352816 27.492 0.177 27.492 27.427 27.604 0 23 14 2 0 0 0 0.19064 1 12381 12381 24.021 8.1734 1 981480 19894 2432 12611 12654 23000 23000 -0.04343985539117057 MPEEQREGL 9 Unmodified _MPEEQREGL_ 0 0 0 ENSG00000125875|ENST00000354200|TBC1D20;nc|ENSG00000125875|Q96BZ9-3|TBC1D20 ENSG00000125875|ENST00000354200|TBC1D20 ENSG00000125875|ENST00000354200|TBC1D20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.2578735351562 2 544.755681 1087.49681 3.1449 0.0017132 -0.0073321 -3.9942E-06 3.1376 0.0017092 544.7556160399492 26.523 0.2768 27.301 27.156 27.433 0.7787 40 21 3 0 0 0 0.27958 1 11898 11898 18.146 2.2992 1 638860 19895 2432 12611 12654 23001 23001 -0.04343985539117057 MPEEQREGL 9 Unmodified _MPEEQREGL_ 0 0 0 ENSG00000125875|ENST00000354200|TBC1D20;nc|ENSG00000125875|Q96BZ9-3|TBC1D20 ENSG00000125875|ENST00000354200|TBC1D20 ENSG00000125875|ENST00000354200|TBC1D20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.7587890625 2 544.755681 1087.49681 3.407 0.001856 0.35723 0.00019461 3.7642 0.0020506 544.7557680816565 27.362 0.22538 27.625 27.506 27.732 0.26245 34 22 2 0 0 0 0.19064 2 12462 12412;12462 24.021 8.1734 1 421780 19896 2432 12611 12654 23002;23003 23003 -0.04343985539117057 MPEEQREGL 9 Unmodified _MPEEQREGL_ 0 0 0 ENSG00000125875|ENST00000354200|TBC1D20;nc|ENSG00000125875|Q96BZ9-3|TBC1D20 ENSG00000125875|ENST00000354200|TBC1D20 ENSG00000125875|ENST00000354200|TBC1D20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.7578125 2 544.755681 1087.49681 3.3854 0.0018442 0.48402 0.00026367 3.8694 0.0021079 544.7560085716423 26.994 0.31816 27.615 27.429 27.747 0.62178 33 23 2 0 0 0 0.19064 2 12358 12358;12406 24.021 2.2739 1 454220 19897 2432 12611 12654 23004;23005 23004 -0.04343985539117057 MPEGLTPLATL 11 Unmodified _MPEGLTPLATL_ 0 0 0 ENSG00000131941|ENST00000254260|RHPN2;ENST00000566346.2_1_16:33401403-33412789:+|nuORF;nc|ENSG00000131941|Q8IUC4-2|RHPN2;nc|ENSG00000258628|A8MT19|RHPN2P1 ENSG00000131941|ENST00000254260|RHPN2 ENSG00000131941|ENST00000254260|RHPN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.8106689453125 2 571.809925 1141.6053 3.4999 0.0020013 -0.15058 -8.6102E-05 3.3493 0.0019152 571.8100142534265 85.18 0.37934 85.429 85.261 85.641 0.24857 51 24 3 0 0 0 0.049185 3 39176 39176;39223;39290 51.63 32.373 1 686260 19898 2676 12612 12655 23006;23007;23008 23006 0.040158057113103496 MPEGLTPLATL 11 Unmodified _MPEGLTPLATL_ 0 0 0 ENSG00000131941|ENST00000254260|RHPN2;ENST00000566346.2_1_16:33401403-33412789:+|nuORF;nc|ENSG00000131941|Q8IUC4-2|RHPN2;nc|ENSG00000258628|A8MT19|RHPN2P1 ENSG00000131941|ENST00000254260|RHPN2 ENSG00000131941|ENST00000254260|RHPN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.812255859375 2 571.809925 1141.6053 3.7807 0.0021619 0.28898 0.00016524 4.0697 0.0023271 571.8102142599508 84.63 0.34251 85.296 85.063 85.405 0.66566 34 20 2 0 0 0 0.0045522 2 38966 38966;38998 69.105 48.651 1 647690 19899 2676 12612 12655 23009;23010 23009 0.040158057113103496 MPEKEPSVL 9 Unmodified _MPEKEPSVL_ 0 0 0 nc|ENSG00000155229|Q96T76-5|MMS19;ENSG00000155229|ENST00000438925|MMS19;nc|ENSG00000155229|Q96T76-8|MMS19;nc|ENSG00000155229|Q96T76-9|MMS19;ENST00000495415.5_1_10:99221527-99223714:-|nuORF nc|ENSG00000155229|Q96T76-5|MMS19 nc|ENSG00000155229|Q96T76-5|MMS19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.2696533203125 2 515.267893 1028.52123 3.1991 0.0016484 0.41823 0.0002155 3.6173 0.0018639 515.26801902874 36.436 1.0191 36.436 36.034 37.053 0 146 47 4 0 0 0 0.015631 6 16504 16455;16504;16558;16615;16671;16718 74.2 36.226 1 5613500 19900 3854 12613 12656 23011;23012;23013;23014;23015;23016 23012 0.00811274614420654 MPEKEPSVL 9 Unmodified _MPEKEPSVL_ 0 0 0 nc|ENSG00000155229|Q96T76-5|MMS19;ENSG00000155229|ENST00000438925|MMS19;nc|ENSG00000155229|Q96T76-8|MMS19;nc|ENSG00000155229|Q96T76-9|MMS19;ENST00000495415.5_1_10:99221527-99223714:-|nuORF nc|ENSG00000155229|Q96T76-5|MMS19 nc|ENSG00000155229|Q96T76-5|MMS19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.2697143554688 2 515.267893 1028.52123 3.4194 0.0017619 0.0063886 3.2919E-06 3.4258 0.0017652 515.2679836931351 35.527 0.82285 36.318 36.02 36.842 0.79131 108 42 4 0 0 0 0.013715 6 16174 16020;16071;16118;16174;16220;16302 76.825 38.851 1 5252400 19901 3854 12613 12656 23017;23018;23019;23020;23021;23022 23020 0.00811274614420654 MPEKEPSVL 9 Unmodified _MPEKEPSVL_ 0 0 0 nc|ENSG00000155229|Q96T76-5|MMS19;ENSG00000155229|ENST00000438925|MMS19;nc|ENSG00000155229|Q96T76-8|MMS19;nc|ENSG00000155229|Q96T76-9|MMS19;ENST00000495415.5_1_10:99221527-99223714:-|nuORF nc|ENSG00000155229|Q96T76-5|MMS19 nc|ENSG00000155229|Q96T76-5|MMS19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.2698974609375 2 515.267893 1028.52123 3.4341 0.0017695 0.36657 0.00018888 3.8006 0.0019583 515.267865492661 36.313 0.91101 36.571 36.191 37.102 0.25768 117 38 4 0 0 0 0.010904 7 16526 16403;16415;16469;16526;16586;16639;16731 80.676 42.702 1 4847200 19902 3854 12613 12656 23023;23024;23025;23026;23027;23028;23029 23026 0.00811274614420654 MPEKEPSVL 9 Unmodified _MPEKEPSVL_ 0 0 0 nc|ENSG00000155229|Q96T76-5|MMS19;ENSG00000155229|ENST00000438925|MMS19;nc|ENSG00000155229|Q96T76-8|MMS19;nc|ENSG00000155229|Q96T76-9|MMS19;ENST00000495415.5_1_10:99221527-99223714:-|nuORF nc|ENSG00000155229|Q96T76-5|MMS19 nc|ENSG00000155229|Q96T76-5|MMS19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.2702026367188 2 515.267893 1028.52123 3.5214 0.0018145 0.23105 0.00011905 3.7524 0.0019335 515.2678695604457 35.715 0.81463 36.342 36.03 36.845 0.62631 85 28 4 0 0 0 0.018453 6 16488 16294;16309;16367;16422;16488;16547 70.332 32.358 1 5054200 19903 3854 12613 12656 23030;23031;23032;23033;23034;23035 23034 0.00811274614420654 MPEKEPSVL 9 Oxidation (M) _M(Oxidation (M))PEKEPSVL_ M(1)PEKEPSVL M(64)PEKEPSVL 0 0 1 nc|ENSG00000155229|Q96T76-5|MMS19;ENSG00000155229|ENST00000438925|MMS19;nc|ENSG00000155229|Q96T76-8|MMS19;nc|ENSG00000155229|Q96T76-9|MMS19;ENST00000495415.5_1_10:99221527-99223714:-|nuORF nc|ENSG00000155229|Q96T76-5|MMS19 nc|ENSG00000155229|Q96T76-5|MMS19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.2674560546875 2 523.26535 1044.51615 3.3953 0.0017767 0.22337 0.00011688 3.6187 0.0018935 523.2652496237982 28.93 0.46414 29.19 29.026 29.49 0.2602 51 32 2 0 0 0 0.023321 2 13209 13161;13209 63.961 33.324 1 551230 19904 3854 12613 12657 23036;23037 23037 55 -0.004330292482109144 MPEKEPSVL 9 Oxidation (M) _M(Oxidation (M))PEKEPSVL_ M(1)PEKEPSVL M(58)PEKEPSVL 0 0 1 nc|ENSG00000155229|Q96T76-5|MMS19;ENSG00000155229|ENST00000438925|MMS19;nc|ENSG00000155229|Q96T76-8|MMS19;nc|ENSG00000155229|Q96T76-9|MMS19;ENST00000495415.5_1_10:99221527-99223714:-|nuORF nc|ENSG00000155229|Q96T76-5|MMS19 nc|ENSG00000155229|Q96T76-5|MMS19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.2662353515625 2 523.26535 1044.51615 3.2938 0.0017236 -0.71973 -0.00037661 2.5741 0.0013469 523.2646049578119 28.624 0.51804 29.244 28.922 29.44 0.61947 68 28 3 0 0 0 0.02812 1 13130 13130 57.722 13.864 1 445710 19905 3854 12613 12657 23038 23038 55 -0.004330292482109144 MPEKEPSVL 9 Oxidation (M) _M(Oxidation (M))PEKEPSVL_ 0 0 1 nc|ENSG00000155229|Q96T76-5|MMS19;ENSG00000155229|ENST00000438925|MMS19;nc|ENSG00000155229|Q96T76-8|MMS19;nc|ENSG00000155229|Q96T76-9|MMS19;ENST00000495415.5_1_10:99221527-99223714:-|nuORF nc|ENSG00000155229|Q96T76-5|MMS19 nc|ENSG00000155229|Q96T76-5|MMS19 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 523.26535 1044.51615 3.434 0.0017969 0.22839 0.00011951 3.6624 0.0019164 523.2652995385376 28.362 0.060226 29.148 29.098 29.158 0.78627 -0.072258 0.00044508 NaN 63.961 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 478960 19906 3854 12613 12657 55 -0.004330292482109144 MPELVQHKL 9 Unmodified _MPELVQHKL_ 0 0 0 nc|ENSG00000175216|Q14008-2|CKAP5;ENSG00000175216|ENST00000529230|CKAP5;nc|ENSG00000175216|Q14008-3|CKAP5 nc|ENSG00000175216|Q14008-2|CKAP5 nc|ENSG00000175216|Q14008-2|CKAP5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.8741760253906 3 365.539077 1093.5954 2.7338 0.00099931 -0.29673 -0.00010847 2.4371 0.00089085 365.5388988489773 37.009 0.59677 37.266 36.847 37.444 0.25768 35 19 2 0 0 0 0.22744 1 16837 16837 21.59 12.207 1 701180 19907 5020 12614 12658 23039 23039 0.05234662496582132 MPELVQHKL 9 Unmodified _MPELVQHKL_ 0 0 0 nc|ENSG00000175216|Q14008-2|CKAP5;ENSG00000175216|ENST00000529230|CKAP5;nc|ENSG00000175216|Q14008-3|CKAP5 nc|ENSG00000175216|Q14008-2|CKAP5 nc|ENSG00000175216|Q14008-2|CKAP5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.5394287109375 3 365.539077 1093.5954 2.7006 0.00098716 -0.57413 -0.00020987 2.1264 0.00077729 365.5388262979443 36.27 0.56411 36.896 36.541 37.105 0.62631 28 17 2 0 0 0 0.30351 1 16629 16629 16.566 9.4642 1 643100 19908 5020 12614 12658 23040 23040 0.05234662496582132 MPELVQHKL 9 Unmodified _MPELVQHKL_ 0 0 0 nc|ENSG00000175216|Q14008-2|CKAP5;ENSG00000175216|ENST00000529230|CKAP5;nc|ENSG00000175216|Q14008-3|CKAP5 nc|ENSG00000175216|Q14008-2|CKAP5 nc|ENSG00000175216|Q14008-2|CKAP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.8070678710938 2 547.804977 1093.5954 NaN NaN NaN NaN NaN NaN NaN 36.411 1 37.038 36.538 37.538 0.62751 0 0 0 0.89089 1 16673 16673 8.7454 5.1489 1 19909 5020 12614 12658 23041 23041 0.05234662496582132 MPENESNSL 9 Unmodified _MPENESNSL_ 0 0 0 ENST00000511405.1_1_5:111575355-111600594:-|nuORF;ENSG00000129595|ENST00000261486|EPB41L4A ENST00000511405.1_1_5:111575355-111600594:-|nuORF ENST00000511405.1_1_5:111575355-111600594:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.7204895019531 2 510.718764 1019.42298 3.2564 0.0016631 0.20088 0.00010259 3.4573 0.0017657 510.7185787397937 29.188 0.46381 29.978 29.662 30.126 0.78921 50 34 2 0 0 0 0.55815 1 13137 13137 11.495 2.1473 1 248250 19910 2556 12615 12659 23042 23042 -0.08595953701444614 MPEPASRCL 9 Carbamidomethyl (C) _MPEPASRC(Carbamidomethyl (C))L_ MPEPASRC(1)L MPEPASRC(100)L 0 1 0 nc|ENSG00000137161|Q9BT09-2|CNPY3;ENSG00000137161|ENST00000372836|CNPY3 nc|ENSG00000137161|Q9BT09-2|CNPY3 nc|ENSG00000137161|Q9BT09-2|CNPY3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.7510375976562 2 530.749344 1059.48414 3.3018 0.0017524 -0.24536 -0.00013023 3.0564 0.0016222 530.7493872793157 30.979 0.37419 30.979 30.749 31.123 0 100 36 3 0 0 0 0.0024241 3 13966 13916;13966;14014 99.799 41.12 1 6042200 19911 2999 12616 12660 23043;23044;23045 23044 60 -0.043227202030038825 MPEPASRCL 9 Carbamidomethyl (C) _MPEPASRC(Carbamidomethyl (C))L_ MPEPASRC(1)L MPEPASRC(110)L 0 1 0 nc|ENSG00000137161|Q9BT09-2|CNPY3;ENSG00000137161|ENST00000372836|CNPY3 nc|ENSG00000137161|Q9BT09-2|CNPY3 nc|ENSG00000137161|Q9BT09-2|CNPY3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.7508544921875 2 530.749344 1059.48414 3.2009 0.0016989 -0.57472 -0.00030503 2.6262 0.0013938 530.7492751397455 29.953 0.41156 30.742 30.549 30.961 0.78921 125 38 5 0 0 0 0.00143 3 13506 13464;13506;13553 110.67 51.996 1 5267600 19912 2999 12616 12660 23046;23047;23048 23047 60 -0.043227202030038825 MPEPASRCL 9 Carbamidomethyl (C) _MPEPASRC(Carbamidomethyl (C))L_ MPEPASRC(1)L MPEPASRC(73)L 0 1 0 nc|ENSG00000137161|Q9BT09-2|CNPY3;ENSG00000137161|ENST00000372836|CNPY3 nc|ENSG00000137161|Q9BT09-2|CNPY3 nc|ENSG00000137161|Q9BT09-2|CNPY3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.7517700195312 2 530.749344 1059.48414 3.5716 0.0018956 -0.13062 -6.9326E-05 3.441 0.0018263 530.7492585557462 30.747 0.56626 31.003 30.628 31.194 0.25614 135 48 4 0 0 0 0.016529 3 13967 13967;14010;14054 72.968 31.128 1 2443400 19913 2999 12616 12660 23049;23050;23051 23049 60 -0.043227202030038825 MPEPASRCL 9 Carbamidomethyl (C) _MPEPASRC(Carbamidomethyl (C))L_ MPEPASRC(1)L MPEPASRC(93)L 0 1 0 nc|ENSG00000137161|Q9BT09-2|CNPY3;ENSG00000137161|ENST00000372836|CNPY3 nc|ENSG00000137161|Q9BT09-2|CNPY3 nc|ENSG00000137161|Q9BT09-2|CNPY3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.7512817382812 2 530.749344 1059.48414 3.2788 0.0017402 0.27055 0.0001436 3.5493 0.0018838 530.7495395290638 30.386 0.39265 31.004 30.777 31.17 0.61737 81 26 4 0 0 0 0.004576 3 13925 13871;13925;13970 92.653 34.994 1 2786700 19914 2999 12616 12660 23052;23053;23054 23053 60 -0.043227202030038825 MPEPDAQRF 9 Unmodified _MPEPDAQRF_ 0 0 0 nc|ENSG00000149554|O14757-2|CHEK1;nc|ENSG00000149554|O14757-3|CHEK1;ENSG00000149554|ENST00000438015|CHEK1 nc|ENSG00000149554|O14757-2|CHEK1 nc|ENSG00000149554|O14757-2|CHEK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.7549438476562 2 545.752941 1089.49133 3.5959 0.0019625 -0.38499 -0.00021011 3.2109 0.0017524 545.752650198188 36.327 0.34636 36.327 36.167 36.513 0 28 14 3 0 0 0 0.03963 2 16498 16498;16549 51.63 28.481 1 391980 19915 3648 12617 12661 23055;23056 23055 -0.04983664330939064 MPEPDAQRF 9 Unmodified _MPEPDAQRF_ 0 0 0 nc|ENSG00000149554|O14757-2|CHEK1;nc|ENSG00000149554|O14757-3|CHEK1;ENSG00000149554|ENST00000438015|CHEK1 nc|ENSG00000149554|O14757-2|CHEK1 nc|ENSG00000149554|O14757-2|CHEK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.7550659179688 2 545.752941 1089.49133 NaN NaN NaN NaN NaN NaN NaN 36.424 1 36.682 36.182 37.182 0.25768 0 0 0 0.46004 1 16592 16592 20.415 6.0092 1 19916 3648 12617 12661 23057 23057 -0.04983664330939064 MPEPDAQRF 9 Unmodified _MPEPDAQRF_ 0 0 0 nc|ENSG00000149554|O14757-2|CHEK1;nc|ENSG00000149554|O14757-3|CHEK1;ENSG00000149554|ENST00000438015|CHEK1 nc|ENSG00000149554|O14757-2|CHEK1 nc|ENSG00000149554|O14757-2|CHEK1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 545.752941 1089.49133 3.2705 0.0017849 0.66269 0.00036166 3.9331 0.0021465 545.7529386596568 35.441 0.3263 36.232 36.033 36.359 0.79131 -0.047386 0.0007937 NaN 51.63 25 19 2 NaN NaN NaN NaN 0 NaN NaN 0 439020 19917 3648 12617 12661 -0.04983664330939064 MPEPTVLSL 9 Unmodified _MPEPTVLSL_ 0 0 0 ENSG00000196683|ENST00000358435|TOMM7 ENSG00000196683|ENST00000358435|TOMM7 ENSG00000196683|ENST00000358435|TOMM7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 986.5270385742188 1 986.522695 985.515419 3.4339 0.0033876 0.018851 1.8597E-05 3.4528 0.0034062 986.52233972449 78.063 0.24619 78.316 78.183 78.429 0.25335 27 14 2 0 0 0 0.015468 2 35958 35906;35958 74.423 23.568 1 905990 19918 5768 12618 12662 23058;23059 23059 0.022081761027379798 MPEPTVLSL 9 Unmodified _MPEPTVLSL_ 0 0 0 ENSG00000196683|ENST00000358435|TOMM7 ENSG00000196683|ENST00000358435|TOMM7 ENSG00000196683|ENST00000358435|TOMM7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.76654052734375 2 493.764986 985.515419 3.0597 0.0015108 -0.039475 -1.9491E-05 3.0202 0.0014913 493.76497965894794 78.054 0.36044 78.307 78.125 78.485 0.25335 54 21 3 0 0 0 0.012869 2 35962 35911;35962 77.984 33.577 1 2259100 19919 5768 12618 12662 23060;23061 23061 0.022081761027379798 MPEPTVLSL 9 Unmodified _MPEPTVLSL_ 0 0 0 ENSG00000196683|ENST00000358435|TOMM7 ENSG00000196683|ENST00000358435|TOMM7 ENSG00000196683|ENST00000358435|TOMM7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 986.5258178710938 1 986.522695 985.515419 3.5495 0.0035016 0.23347 0.00023033 3.783 0.003732 986.5229355509202 77.583 0.23077 78.246 78.155 78.386 0.66303 25 13 2 0 0 0 0.017868 2 35784 35736;35784 71.134 25.249 1 967930 19920 5768 12618 12662 23062;23063 23063 0.022081761027379798 MPEPTVLSL 9 Unmodified _MPEPTVLSL_ 0 0 0 ENSG00000196683|ENST00000358435|TOMM7 ENSG00000196683|ENST00000358435|TOMM7 ENSG00000196683|ENST00000358435|TOMM7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.7664794921875 2 493.764986 985.515419 3.0398 0.0015009 0.4942 0.00024402 3.534 0.0017449 493.7651816350185 77.621 0.32938 78.284 78.105 78.434 0.66302 47 19 3 0 0 0 0.015468 2 35746 35746;35801 74.423 74.423 1 2403900 19921 5768 12618 12662 23064;23065 23064 0.022081761027379798 MPEPTVLSL 9 Unmodified _MPEPTVLSL_ 0 0 0 ENSG00000196683|ENST00000358435|TOMM7 ENSG00000196683|ENST00000358435|TOMM7 ENSG00000196683|ENST00000358435|TOMM7 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 493.764986 985.515419 2.5545 0.0012613 1.3356 0.00065949 3.8901 0.0019208 493.766080487447 77.683 0.094452 78.244 78.19 78.284 0.5609 -0.034474 0.0011332 NaN 77.984 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 1734800 19922 5768 12618 12662 0.022081761027379798 MPEPTVLSL 9 Oxidation (M) _M(Oxidation (M))PEPTVLSL_ M(1)PEPTVLSL M(42)PEPTVLSL 0 0 1 ENSG00000196683|ENST00000358435|TOMM7 ENSG00000196683|ENST00000358435|TOMM7 ENSG00000196683|ENST00000358435|TOMM7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.7642822265625 2 501.762443 1001.51033 NaN NaN NaN NaN NaN NaN NaN 69.653 1 69.908 69.408 70.408 0.25443 0 0 0 0.097886 1 31896 31896 42.095 13.608 1 19923 5768 12618 12663 23066 23066 75 0.009638722401291488 MPEPVYFHC 9 Unmodified _MPEPVYFHC_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10;nc|ENSG00000128607|Q6PID8-2|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.7422485351562 2 561.740988 1121.46742 3.6475 0.0020489 -1.2812 -0.00071968 2.3663 0.0013293 561.7405096508552 27.565 0.27378 27.565 27.383 27.656 0 41 21 3 0 0 0 0.050606 2 12435 12392;12435 46.921 22.247 1 1945500 19924 2520 12619 12664 23067;23068 23068 -0.08845221088949984 MPEPVYFHC 9 Unmodified _MPEPVYFHC_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10;nc|ENSG00000128607|Q6PID8-2|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.8303527832031 3 374.829751 1121.46742 2.4164 0.00090574 -1.6062 -0.00060205 0.81021 0.00030369 374.82947368358816 26.591 0.4296 27.37 27.077 27.507 0.7787 101 33 4 0 0 0 0.078322 3 11873 11873;11924;11972 27.629 10.516 1 2915900 19925 2520 12619 12664 23069;23070;23071 23069 -0.08845221088949984 MPEPVYFHC 9 Unmodified _MPEPVYFHC_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10;nc|ENSG00000128607|Q6PID8-2|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.7424926757812 2 561.740988 1121.46742 3.3438 0.0018784 -1.5019 -0.0008437 1.8419 0.0010347 561.7407087611628 26.6 0.32836 27.379 27.143 27.471 0.7787 71 25 4 0 0 0 0.078322 3 11929 11884;11929;11979 38.151 13.477 1 1503200 19926 2520 12619 12664 23072;23073;23074 23073 -0.08845221088949984 MPEPVYFHC 9 Unmodified _MPEPVYFHC_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10;nc|ENSG00000128607|Q6PID8-2|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.742431640625 2 561.740988 1121.46742 3.5006 0.0019664 -0.71089 -0.00039933 2.7897 0.0015671 561.7410263017861 27.311 0.31252 27.573 27.382 27.695 0.26245 64 28 3 0 0 0 0.050606 2 12422 12378;12422 46.921 22.247 1 1011800 19927 2520 12619 12664 23075;23076 23076 -0.08845221088949984 MPEPVYFHC 9 Unmodified _MPEPVYFHC_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10;nc|ENSG00000128607|Q6PID8-2|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.8310546875 3 374.829751 1121.46742 2.6751 0.0010027 -1.0463 -0.00039219 1.6288 0.00061052 374.82963062418764 27.347 0.34921 27.609 27.382 27.732 0.26245 85 31 3 0 0 0 0.078322 3 12382 12382;12426;12469 34.402 11.665 1 1746600 19928 2520 12619 12664 23077;23078;23079 23077 -0.08845221088949984 MPEPVYFHC 9 Unmodified _MPEPVYFHC_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10;nc|ENSG00000128607|Q6PID8-2|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.7427368164062 2 561.740988 1121.46742 NaN NaN NaN NaN NaN NaN NaN 27.436 1 27.699 27.199 28.199 0.26245 0 0 0 0.3934 1 12473 12473 23.148 6.2061 1 19929 2520 12619 12664 23080 23080 -0.08845221088949984 MPEPVYFHC 9 Unmodified _MPEPVYFHC_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10;nc|ENSG00000128607|Q6PID8-2|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.742919921875 2 561.740988 1121.46742 3.4409 0.0019329 -1.3197 -0.00074131 2.1212 0.0011916 561.7408777583771 26.924 0.37607 27.546 27.314 27.69 0.62178 72 28 4 0 0 0 0.078322 3 12298 12298;12344;12389 38.151 13.477 1 1085600 19930 2520 12619 12664 23081;23082;23083 23081 -0.08845221088949984 MPEQIVIHAL 10 Unmodified _MPEQIVIHAL_ 0 0 0 STAG2|p.E750Dfs*31|1|0.27|ENSG00000101972|chrX:124066420-124066430|AAAGCAGCTCT/-|frameshift_variant;STAG2|p.L995*|1|0.54|ENSG00000101972|chrX:124083478-124083478|T/-|frameshift_variant;nc|ENSG00000101972|Q8N3U4|STAG2;ENSG00000101972|ENST00000371145|STAG2 STAG2|p.E750Dfs*31|1|0.27|ENSG00000101972|chrX:124066420-124066430|AAAGCAGCTCT/-|frameshift_variant STAG2|p.E750Dfs*31|1|0.27|ENSG00000101972|chrX:124066420-124066430|AAAGCAGCTCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.8197021484375 2 575.818084 1149.62162 3.1364 0.001806 0.14459 8.3256E-05 3.2809 0.0018892 575.8181979805261 63.821 0.29385 64.069 63.932 64.226 0.24802 39 18 3 0 0 0 0.019235 2 29261 29206;29261 100.09 82.978 1 1666600 19931 1323 12620 12665 23084;23085 23085 0.05278931668067344 MPEQIVIHAL 10 Unmodified _MPEQIVIHAL_ 0 0 0 STAG2|p.E750Dfs*31|1|0.27|ENSG00000101972|chrX:124066420-124066430|AAAGCAGCTCT/-|frameshift_variant;STAG2|p.L995*|1|0.54|ENSG00000101972|chrX:124083478-124083478|T/-|frameshift_variant;nc|ENSG00000101972|Q8N3U4|STAG2;ENSG00000101972|ENST00000371145|STAG2 STAG2|p.E750Dfs*31|1|0.27|ENSG00000101972|chrX:124066420-124066430|AAAGCAGCTCT/-|frameshift_variant STAG2|p.E750Dfs*31|1|0.27|ENSG00000101972|chrX:124066420-124066430|AAAGCAGCTCT/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 575.818084 1149.62162 3.6062 0.0020765 -0.90809 -0.00052289 2.6981 0.0015536 575.8178797825258 63.242 0.2695 63.901 63.746 64.015 0.65808 -0.084114 -0.0005642 NaN 100.09 39 15 3 NaN NaN NaN NaN 0 NaN NaN 0 1851900 19932 1323 12620 12665 0.05278931668067344 MPERAVFRL 9 Unmodified _MPERAVFRL_ 0 0 0 ENSG00000132382|ENST00000254718|MYBBP1A;nc|ENSG00000132382|Q9BQG0-2|MYBBP1A;ENST00000573175.1_1_17:4451225-4453465:-|nuORF ENSG00000132382|ENST00000254718|MYBBP1A;ENST00000573175.1_1_17:4451225-4453465:-|nuORF ENSG00000132382|ENST00000254718|MYBBP1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 373.8775634765625 3 373.542821 1117.60663 2.6567 0.0009924 -0.7599 -0.00028386 1.8968 0.00070854 373.5425994474477 46.35 0.25602 46.35 46.223 46.479 0 18 13 2 0 0 0 0.21008 1 21212 21212 16.566 11.669 1 891720 19933 2696;9106 12621 12666 23086 23086 0.05253484590730295 MPERAVFRL 9 Unmodified _MPERAVFRL_ 0 0 0 ENSG00000132382|ENST00000254718|MYBBP1A;nc|ENSG00000132382|Q9BQG0-2|MYBBP1A;ENST00000573175.1_1_17:4451225-4453465:-|nuORF ENSG00000132382|ENST00000254718|MYBBP1A;ENST00000573175.1_1_17:4451225-4453465:-|nuORF ENSG00000132382|ENST00000254718|MYBBP1A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 373.542821 1117.60663 2.3614 0.00088209 -0.13383 -4.999E-05 2.2276 0.0008321 373.54282807527494 45.233 0.28427 46.059 45.911 46.195 0.82621 -0.17119 0.0003076 NaN 16.566 29 17 2 NaN NaN NaN NaN 0 NaN NaN 0 541060 19934 2696;9106 12621 12666 0.05253484590730295 MPERAVFRL 9 Unmodified _MPERAVFRL_ 0 0 0 ENSG00000132382|ENST00000254718|MYBBP1A;nc|ENSG00000132382|Q9BQG0-2|MYBBP1A;ENST00000573175.1_1_17:4451225-4453465:-|nuORF ENSG00000132382|ENST00000254718|MYBBP1A;ENST00000573175.1_1_17:4451225-4453465:-|nuORF ENSG00000132382|ENST00000254718|MYBBP1A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 373.542821 1117.60663 2.7642 0.0010326 -0.27766 -0.00010372 2.4866 0.00092883 373.5427684758159 46.101 0.36915 46.367 46.198 46.568 0.26561 0.13674 0.00014642 NaN 16.566 26 16 2 NaN NaN NaN NaN 0 NaN NaN 0 420520 19935 2696;9106 12621 12666 0.05253484590730295 MPERAVFRL 9 Unmodified _MPERAVFRL_ 0 0 0 ENSG00000132382|ENST00000254718|MYBBP1A;nc|ENSG00000132382|Q9BQG0-2|MYBBP1A;ENST00000573175.1_1_17:4451225-4453465:-|nuORF ENSG00000132382|ENST00000254718|MYBBP1A;ENST00000573175.1_1_17:4451225-4453465:-|nuORF ENSG00000132382|ENST00000254718|MYBBP1A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 373.542821 1117.60663 2.9118 0.0010877 -0.50718 -0.00018945 2.4046 0.00089821 373.5426436350628 45.493 0.34787 46.145 45.983 46.33 0.65104 -0.085428 -0.00011079 NaN 16.566 27 15 2 NaN NaN NaN NaN 0 NaN NaN 0 376180 19936 2696;9106 12621 12666 0.05253484590730295 MPESEEIAQLL 11 Unmodified _MPESEEIAQLL_ 0 0 0 ENSG00000108465|ENST00000338399|CDK5RAP3;nc|ENSG00000108465|Q96JB5-4|CDK5RAP3;ENST00000579853.5_1_17:46048512-46051060:+|nuORF;ENST00000581708.5_1_17:46048512-46051791:+|nuORF;ENST00000584063.5_1_17:46048512-46051888:+|nuORF;ENST00000584525.5_1_17:46048512-46051498:+|nuORF;ENST00000583182.5_1_17:46048501-46051888:+|nuORF ENSG00000108465|ENST00000338399|CDK5RAP3 ENSG00000108465|ENST00000338399|CDK5RAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 630.538818359375 2 630.313029 1258.6115 3.6418 0.0022955 0.14108 8.8923E-05 3.7828 0.0023844 630.3131014913266 82.765 0.13545 83.013 82.909 83.045 0.24722 10 6 2 0 0 0 0.84422 1 38051 38051 4.897 0.95262 1 537070 19937 1633 12622 12667 23087 23087 -0.00745720847839948 MPESEEIAQLL 11 Unmodified _MPESEEIAQLL_ 0 0 0 ENSG00000108465|ENST00000338399|CDK5RAP3;nc|ENSG00000108465|Q96JB5-4|CDK5RAP3;ENST00000579853.5_1_17:46048512-46051060:+|nuORF;ENST00000581708.5_1_17:46048512-46051791:+|nuORF;ENST00000584063.5_1_17:46048512-46051888:+|nuORF;ENST00000584525.5_1_17:46048512-46051498:+|nuORF;ENST00000583182.5_1_17:46048501-46051888:+|nuORF ENSG00000108465|ENST00000338399|CDK5RAP3 ENSG00000108465|ENST00000338399|CDK5RAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 630.3170166015625 2 630.313029 1258.6115 3.9602 0.0024961 0.23553 0.00014846 4.1957 0.0026446 630.3129808733675 82.19 0.23183 82.85 82.688 82.919 0.65997 20 12 2 0 0 0 0.61022 1 37852 37852 15.248 3.6082 1 442320 19938 1633 12622 12667 23088 23088 -0.00745720847839948 MPESGPSYEF 10 Unmodified _MPESGPSYEF_ 0 0 0 ENST00000553714.1_1_14:53110290-53113110:-|nuORF;ENST00000554019.5_1_14:53110290-53130527:-|nuORF;ENSG00000197930|ENST00000395686|ERO1A ENST00000553714.1_1_14:53110290-53113110:-|nuORF ENST00000553714.1_1_14:53110290-53113110:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 572.2379760742188 2 572.23679 1142.45903 3.239 0.0018535 -0.26407 -0.00015111 2.9749 0.0017023 572.236483465324 55.3 0.35196 56.087 55.742 56.094 0.78711 34 24 2 0 0 0 0.16336 1 25195 25195 43.858 26.916 1 543620 19939 5850 12623 12668 23089 23089 -0.1065049652459038 MPESGVAL 8 Unmodified _MPESGVAL_ 0 0 0 ENSG00000171109|ENST00000471841|MFN1;nc|ENSG00000171109|Q8IWA4-2|MFN1;nc|ENSG00000171109|Q8IWA4-3|MFN1 ENSG00000171109|ENST00000471841|MFN1 ENSG00000171109|ENST00000471841|MFN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 803.3989868164062 1 803.396767 802.38949 3.7368 0.0030021 -0.65493 -0.00052617 3.0818 0.0024759 803.3965387944958 49.182 0.55667 49.182 49 49.556 0 50 26 3 0 0 0 0.029506 3 22560 22509;22560;22623 78.445 37.996 1 2597800 19940 4787 12624 12669 23090;23091;23092 23091 -0.019609106826806055 MPESGVAL 8 Unmodified _MPESGVAL_ 0 0 0 ENSG00000171109|ENST00000471841|MFN1;nc|ENSG00000171109|Q8IWA4-2|MFN1;nc|ENSG00000171109|Q8IWA4-3|MFN1 ENSG00000171109|ENST00000471841|MFN1 ENSG00000171109|ENST00000471841|MFN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 803.4002075195312 1 803.396767 802.38949 3.6235 0.0029111 -0.19573 -0.00015725 3.4278 0.0027538 803.3964810514777 48.278 0.58699 49.107 48.85 49.437 0.82894 58 29 3 0 0 0 0.03366 4 21927 21927;21980;22037;22097 74.396 36.245 1 1942100 19941 4787 12624 12669 23093;23094;23095;23096 23093 -0.019609106826806055 MPESGVAL 8 Unmodified _MPESGVAL_ 0 0 0 ENSG00000171109|ENST00000471841|MFN1;nc|ENSG00000171109|Q8IWA4-2|MFN1;nc|ENSG00000171109|Q8IWA4-3|MFN1 ENSG00000171109|ENST00000471841|MFN1 ENSG00000171109|ENST00000471841|MFN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 803.3995361328125 1 803.396767 802.38949 3.9682 0.003188 0.42281 0.00033968 4.391 0.0035277 803.397162033026 49.053 0.58387 49.315 49.087 49.671 0.26146 34 21 2 0 0 0 0.029506 2 22408 22408;22472 78.445 37.996 1 1843200 19942 4787 12624 12669 23097;23098 23097 -0.019609106826806055 MPESGVAL 8 Unmodified _MPESGVAL_ 0 0 0 ENSG00000171109|ENST00000471841|MFN1;nc|ENSG00000171109|Q8IWA4-2|MFN1;nc|ENSG00000171109|Q8IWA4-3|MFN1 ENSG00000171109|ENST00000471841|MFN1 ENSG00000171109|ENST00000471841|MFN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 803.3994750976562 1 803.396767 802.38949 4.0956 0.0032904 0.077048 6.19E-05 4.1726 0.0033523 803.3968295363262 48.551 0.61181 49.206 48.939 49.551 0.65524 41 23 2 0 0 0 0.029506 3 22221 22146;22221;22270 78.445 37.996 1 1860800 19943 4787 12624 12669 23099;23100;23101 23100 -0.019609106826806055 MPETTETVL 9 Unmodified _MPETTETVL_ 0 0 0 ENSG00000231389|ENST00000419277|HLA-DPA1 ENSG00000231389|ENST00000419277|HLA-DPA1 ENSG00000231389|ENST00000419277|HLA-DPA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.7518310546875 2 510.749533 1019.48451 NaN NaN NaN NaN NaN NaN NaN 52.335 1 52.335 51.835 52.835 0 0 0 0 0.097886 1 23964 23964 42.095 16.695 1 19944 6182 12625 12670 23102 23102 -0.02445022002166297 MPETTETVL 9 Unmodified _MPETTETVL_ 0 0 0 ENSG00000231389|ENST00000419277|HLA-DPA1 ENSG00000231389|ENST00000419277|HLA-DPA1 ENSG00000231389|ENST00000419277|HLA-DPA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.7508850097656 2 510.749533 1019.48451 NaN NaN NaN NaN NaN NaN NaN 51.502 1 52.319 51.819 52.819 0.81738 0 0 0 0.26328 1 23460 23460 28.487 5.3384 1 19945 6182 12625 12670 23103 23103 -0.02445022002166297 MPETTETVL 9 Unmodified _MPETTETVL_ 0 0 0 ENSG00000231389|ENST00000419277|HLA-DPA1 ENSG00000231389|ENST00000419277|HLA-DPA1 ENSG00000231389|ENST00000419277|HLA-DPA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.75091552734375 2 510.749533 1019.48451 3.2974 0.0016842 -0.47089 -0.00024051 2.8265 0.0014436 510.74946574763544 52.163 0.60958 52.425 52.145 52.754 0.26227 100 37 3 0 0 0 0.0022375 4 23802 23752;23802;23849;23893 101.72 50.867 1 6222800 19946 6182 12625 12670 23104;23105;23106;23107 23105 -0.02445022002166297 MPETTETVL 9 Unmodified _MPETTETVL_ 0 0 0 ENSG00000231389|ENST00000419277|HLA-DPA1 ENSG00000231389|ENST00000419277|HLA-DPA1 ENSG00000231389|ENST00000419277|HLA-DPA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1020.4953002929688 1 1020.49179 1019.48451 3.3896 0.0034591 1.2559 0.0012817 4.6455 0.0047407 1020.4926159407631 52.15 0.4069 52.412 52.202 52.609 0.26227 35 25 2 0 0 0 0.012869 3 23871 23774;23820;23871 77.984 34.671 1 1420800 19947 6182 12625 12670 23108;23109;23110 23110 -0.02445022002166297 MPETTETVL 9 Unmodified _MPETTETVL_ 0 0 0 ENSG00000231389|ENST00000419277|HLA-DPA1 ENSG00000231389|ENST00000419277|HLA-DPA1 ENSG00000231389|ENST00000419277|HLA-DPA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.75128173828125 2 510.749533 1019.48451 3.1736 0.0016209 -0.15678 -8.0076E-05 3.0168 0.0015409 510.74957362598394 51.557 0.70841 52.217 51.949 52.658 0.65956 128 42 4 0 0 0 0.0022375 5 23600 23504;23555;23600;23660;23716 101.72 41.332 1 4369200 19948 6182 12625 12670 23111;23112;23113;23114;23115 23113 -0.02445022002166297 MPETTETVL 9 Unmodified _MPETTETVL_ 0 0 0 ENSG00000231389|ENST00000419277|HLA-DPA1 ENSG00000231389|ENST00000419277|HLA-DPA1 ENSG00000231389|ENST00000419277|HLA-DPA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1020.4953002929688 1 1020.49179 1019.48451 3.4273 0.0034976 0.10711 0.0001093 3.5344 0.0036069 1020.4922798915258 51.576 0.44899 52.236 52.011 52.46 0.65956 53 25 3 0 0 0 0.018173 4 23605 23517;23564;23605;23662 70.716 34.671 1 837530 19949 6182 12625 12670 23116;23117;23118;23119 23118 -0.02445022002166297 MPETTETVL 9 Unmodified _MPETTETVL_ 0 0 0 ENSG00000231389|ENST00000419277|HLA-DPA1 ENSG00000231389|ENST00000419277|HLA-DPA1 ENSG00000231389|ENST00000419277|HLA-DPA1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 510.749533 1019.48451 3.0412 0.0015533 -1.4114 -0.00072086 1.6298 0.00083243 510.7495585067606 52.437 0.057209 52.437 52.41 52.467 0 0.077292 -0.0011204 NaN 101.72 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 345980 19950 6182 12625 12670 -0.02445022002166297 MPETYQARL 9 Unmodified _MPETYQARL_ 0 0 0 ENSG00000104889|ENST00000221486|RNASEH2A ENSG00000104889|ENST00000221486|RNASEH2A ENSG00000104889|ENST00000221486|RNASEH2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.7781372070312 2 554.776416 1107.53828 3.5483 0.0019685 -0.67521 -0.00037459 2.8731 0.0015939 554.7761998958563 39.052 0.31137 39.052 38.865 39.177 0 24 11 3 0 0 0 0.012326 2 17692 17692;17744 78.728 53.329 1 886940 19951 1460 12626 12671 23120;23121 23120 -0.011188047797986655 MPETYQARL 9 Unmodified _MPETYQARL_ 0 0 0 ENSG00000104889|ENST00000221486|RNASEH2A ENSG00000104889|ENST00000221486|RNASEH2A ENSG00000104889|ENST00000221486|RNASEH2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.7786254882812 2 554.776416 1107.53828 3.2922 0.0018264 2.0957 0.0011626 5.3879 0.0029891 554.778294792015 37.894 0.34631 38.689 38.558 38.904 0.79552 22 11 3 0 0 0 0.019364 1 17182 17182 69.105 31.131 1 957180 19952 1460 12626 12671 23122 23122 -0.011188047797986655 MPETYQARL 9 Unmodified _MPETYQARL_ 0 0 0 ENSG00000104889|ENST00000221486|RNASEH2A ENSG00000104889|ENST00000221486|RNASEH2A ENSG00000104889|ENST00000221486|RNASEH2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.7784423828125 2 554.776416 1107.53828 3.3977 0.001885 1.7454 0.0009683 5.1431 0.0028533 554.7778223908 38.789 0.33868 39.053 38.916 39.255 0.26408 17 13 2 0 0 0 0.012326 1 17653 17653 78.728 40.754 1 630040 19953 1460 12626 12671 23123 23123 -0.011188047797986655 MPETYQARL 9 Unmodified _MPETYQARL_ 0 0 0 ENSG00000104889|ENST00000221486|RNASEH2A ENSG00000104889|ENST00000221486|RNASEH2A ENSG00000104889|ENST00000221486|RNASEH2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.778076171875 2 554.776416 1107.53828 3.4119 0.0018928 1.1709 0.00064958 4.5827 0.0025424 554.7773577962679 38.427 0.41528 39.061 38.857 39.272 0.63388 32 16 3 0 0 0 0.053453 3 17586 17525;17586;17645 45.7 21.679 1 396900 19954 1460 12626 12671 23124;23125;23126 23125 -0.011188047797986655 MPEWRVKATCV 11 Unmodified _MPEWRVKATCV_ 0 0 0 ATP13A3|p.T754Ifs*18|1|0.35|ENSG00000133657|chr3:194431877-194431878|-/TCAA|frameshift_variant;nc|ENSG00000133657|Q9H7F0|ATP13A3;ENSG00000133657|ENST00000645319|ATP13A3 ATP13A3|p.T754Ifs*18|1|0.35|ENSG00000133657|chr3:194431877-194431878|-/TCAA|frameshift_variant ATP13A3|p.T754Ifs*18|1|0.35|ENSG00000133657|chr3:194431877-194431878|-/TCAA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 660.3313598632812 2 660.333575 1318.6526 NaN NaN NaN NaN NaN NaN NaN 42.689 1 43.336 42.836 43.836 0.64693 0 0 0 0.32224 1 19560 19560 31.268 3.6395 1 19955 80 12627 12672 23127 23127 0.006017617106635953 MPFEEFEKL 9 Unmodified _MPFEEFEKL_ 0 0 0 nc|ENSG00000117009|O15229-3|KMO;nc|ENSG00000117009|O15229-2|KMO;ENSG00000117009|ENST00000366559|KMO nc|ENSG00000117009|O15229-3|KMO nc|ENSG00000117009|O15229-3|KMO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.2797241210938 2 585.281 1168.54745 2.9108 0.0017036 0.37455 0.00021922 3.2853 0.0019228 585.2812637307308 70.753 0.27615 70.753 70.617 70.893 0 40 28 2 0 0 0 0.001383 2 34325 34325;34406 114.2 85.12 1 3073100 19956 2058 12628 12673 23128;23129 23128 -0.030084562141155402 MPFEEFEKL 9 Unmodified _MPFEEFEKL_ 0 0 0 nc|ENSG00000117009|O15229-3|KMO;nc|ENSG00000117009|O15229-2|KMO;ENSG00000117009|ENST00000366559|KMO nc|ENSG00000117009|O15229-3|KMO nc|ENSG00000117009|O15229-3|KMO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.2830200195312 2 585.281 1168.54745 2.6807 0.001569 0.85304 0.00049927 3.5338 0.0020683 585.2815406509117 69.834 0.30037 70.537 70.394 70.695 0.70302 54 31 2 0 0 0 0.0013314 2 33457 33403;33457 118.07 74.21 1 2839600 19957 2058 12628 12673 23130;23131 23131 -0.030084562141155402 MPFEEFEKL 9 Unmodified _MPFEEFEKL_ 0 0 0 nc|ENSG00000117009|O15229-3|KMO;nc|ENSG00000117009|O15229-2|KMO;ENSG00000117009|ENST00000366559|KMO nc|ENSG00000117009|O15229-3|KMO nc|ENSG00000117009|O15229-3|KMO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 585.2832641601562 2 585.281 1168.54745 3.2777 0.0019184 0.15969 9.3463E-05 3.4374 0.0020119 585.2816313228454 70.73 0.37637 70.987 70.796 71.172 0.25642 52 22 3 0 0 0 0.001731 3 32404 32351;32404;32453 106.94 74.154 1 1867300 19958 2058 12628 12673 23132;23133;23134 23133 -0.030084562141155402 MPFEEFEKL 9 Unmodified _MPFEEFEKL_ 0 0 0 nc|ENSG00000117009|O15229-3|KMO;nc|ENSG00000117009|O15229-2|KMO;ENSG00000117009|ENST00000366559|KMO nc|ENSG00000117009|O15229-3|KMO nc|ENSG00000117009|O15229-3|KMO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.2828369140625 2 585.281 1168.54745 3.1111 0.0018209 -0.61723 -0.00036125 2.4939 0.0014596 585.2811412792439 70.227 0.34599 70.888 70.682 71.028 0.66125 53 21 3 0 0 0 0.0020727 3 32198 32147;32156;32198 103.42 77.151 1 2202800 19959 2058 12628 12673 23135;23136;23137 23137 -0.030084562141155402 MPFEREQL 8 Unmodified _MPFEREQL_ 0 0 0 nc|ENSG00000136731|Q9NYU2-2|UGGT1;ENSG00000136731|ENST00000259253|UGGT1;ENST00000438277.5_1_2:128855105-128928859:+|nuORF nc|ENSG00000136731|Q9NYU2-2|UGGT1 nc|ENSG00000136731|Q9NYU2-2|UGGT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.2589721679688 2 525.257859 1048.50117 3.1787 0.0016696 0.16967 8.9122E-05 3.3484 0.0017588 525.2579532860086 44.86 0.38067 45.128 44.938 45.318 0.26768 34 21 2 0 0 0 0.23923 2 20494 20494;20552 39.957 11.784 1 945420 19960 2968 12629 12674 23138;23139 23138 -0.021144763255506405 MPFEREQL 8 Unmodified _MPFEREQL_ 0 0 0 nc|ENSG00000136731|Q9NYU2-2|UGGT1;ENSG00000136731|ENST00000259253|UGGT1;ENST00000438277.5_1_2:128855105-128928859:+|nuORF nc|ENSG00000136731|Q9NYU2-2|UGGT1 nc|ENSG00000136731|Q9NYU2-2|UGGT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.2593383789062 2 525.257859 1048.50117 3.4584 0.0018165 0.2937 0.00015427 3.7521 0.0019708 525.2578340382606 44.261 0.29921 44.911 44.793 45.092 0.64998 27 15 2 0 0 0 0.15009 2 20298 20298;20358 48.346 16.04 1 1029500 19961 2968 12629 12674 23140;23141 23140 -0.021144763255506405 MPFGQQQMPML 11 Oxidation (M) _MPFGQQQM(Oxidation (M))PML_ MPFGQQQM(0.929)PM(0.07)L M(-39)PFGQQQM(11)PM(-11)L 0 0 1 REV__nc|ENSG00000275066|Q9UMZ2-9|SYNRG REV__nc|ENSG00000275066|Q9UMZ2-9|SYNRG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 662.3006591796875 2 662.298344 1322.58213 3.6282 0.0024029 -0.87608 -0.00058022 2.7521 0.0018227 662.7993527235576 63.167 0.23235 63.417 63.289 63.521 0.24965 27 13 3 0 0 0 0.10283 1 28923 28923 41.84 16.849 3 578050 + 19962 14733 12630 12675 23142 23142 99 -0.06625279669333395 MPFHWKQEEL 10 Unmodified _MPFHWKQEEL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF;nc|ENSG00000166888|P42226-3|STAT6 ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 448.8863220214844 3 448.885024 1343.63324 3.0312 0.0013607 -0.25236 -0.00011328 2.7788 0.0012474 448.88493205595427 51.3 0.30449 51.3 51.113 51.418 0 37 15 3 0 0 0 0.75049 1 23499 23499 9.7643 3.1408 1 651440 19963 4511 12631 12676 23143 23143 -0.024828713085753407 MPFHWKQEEL 10 Unmodified _MPFHWKQEEL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF;nc|ENSG00000166888|P42226-3|STAT6 ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 672.8240356445312 2 672.823898 1343.63324 NaN NaN NaN NaN NaN NaN NaN 51.292 1 51.292 50.792 51.792 0 0 0 0 0.50917 1 23484 23484 29.841 16.226 1 19964 4511 12631 12676 23144 23144 -0.024828713085753407 MPFHWKQEEL 10 Unmodified _MPFHWKQEEL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF;nc|ENSG00000166888|P42226-3|STAT6 ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 672.8289184570312 2 672.823898 1343.63324 NaN NaN NaN NaN NaN NaN NaN 51.355 1 51.355 50.855 51.855 0 0 0 0 0.95729 1 23512 23512 12.241 7.3436 1 19965 4511 12631 12676 23145 23145 -0.024828713085753407 MPFHWKQEEL 10 Unmodified _MPFHWKQEEL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF;nc|ENSG00000166888|P42226-3|STAT6 ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 448.88604736328125 3 448.885024 1343.63324 2.7429 0.0012312 -0.27341 -0.00012273 2.4695 0.0011085 448.8850267721753 50.358 0.30202 51.181 51.044 51.346 0.82285 29 14 3 0 0 0 0.9146 1 22993 22993 1.4551 0 1 661480 19966 4511 12631 12676 23146 23146 -0.024828713085753407 MPFHWKQEEL 10 Unmodified _MPFHWKQEEL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF;nc|ENSG00000166888|P42226-3|STAT6 ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 449.220703125 3 448.885024 1343.63324 2.6929 0.0012088 0.28741 0.00012901 2.9803 0.0013378 448.8851720076782 51.352 0.15612 51.614 51.509 51.665 0.26227 14 6 3 0 0 0 0.24962 1 23461 23461 29.281 22.244 1 822420 19967 4511 12631 12676 23147 23147 -0.024828713085753407 MPFHWKQEEL 10 Unmodified _MPFHWKQEEL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF;nc|ENSG00000166888|P42226-3|STAT6 ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.8865051269531 3 448.885024 1343.63324 2.9707 0.0013335 0.21564 9.6798E-05 3.1864 0.0014303 448.88512838522206 50.716 0.25809 51.375 51.193 51.451 0.65956 21 12 2 0 0 0 0.87461 1 23216 23216 4.7159 3.1236 1 743830 19968 4511 12631 12676 23148 23148 -0.024828713085753407 MPFQDGKPFNL 11 Unmodified _MPFQDGKPFNL_ 0 0 0 ENST00000412609.5_1_19:40170059-40174276:+|nuORF;ENST00000598164.2_1_19:40172096-40174784:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 647.321533203125 2 647.318448 1292.62234 4.0626 0.0026298 -0.47591 -0.00030807 3.5867 0.0023217 647.3182447023879 68.583 0.54066 68.835 68.57 69.111 0.25227 126 36 4 0 0 0 9.5961E-20 5 31373 31328;31373;31420;31473;31521 139.38 107.34 1 3767200 19969 7681 12632 12677 23149;23150;23151;23152;23153 23150 -0.012262736828688503 MPFQDGKPFNL 11 Unmodified _MPFQDGKPFNL_ 0 0 0 ENST00000412609.5_1_19:40170059-40174276:+|nuORF;ENST00000598164.2_1_19:40172096-40174784:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 647.32080078125 2 647.318448 1292.62234 3.8245 0.0024757 -0.2667 -0.00017264 3.5578 0.002303 647.3183402237748 68.013 0.48384 68.671 68.467 68.951 0.65778 104 31 4 0 0 0 3.0908E-26 4 31181 31135;31181;31229;31289 162.31 123.7 1 4323900 19970 7681 12632 12677 23154;23155;23156;23157 23155 -0.012262736828688503 MPFQDGKPFNL 11 Oxidation (M) _M(Oxidation (M))PFQDGKPFNL_ M(1)PFQDGKPFNL M(44)PFQDGKPFNL 0 0 1 ENST00000412609.5_1_19:40170059-40174276:+|nuORF;ENST00000598164.2_1_19:40172096-40174784:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 655.3177490234375 2 655.315906 1308.61726 3.9527 0.0025902 -0.21763 -0.00014262 3.735 0.0024476 655.3158700104408 58.867 0.28086 59.534 59.407 59.688 0.66703 24 13 2 0 0 0 0.09108 1 26942 26942 43.982 34.599 1 481100 19971 7681 12632 12678 23158 23158 87 -0.024705775454776813 MPFRGYAVL 9 Unmodified _MPFRGYAVL_ 0 0 0 ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.2830200195312 2 527.281137 1052.54772 3.2834 0.0017313 -1.304 -0.00068757 1.9794 0.0010437 527.2809469454852 61.619 0.33011 61.872 61.696 62.026 0.25245 44 14 4 0 0 0 0.091193 2 28193 28193;28251 46.021 35.838 1 1680000 19972 4706 12633 12679 23159;23160 23159 0.02355008296399319 MPFRGYAVL 9 Unmodified _MPFRGYAVL_ 0 0 0 ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.2826538085938 2 527.281137 1052.54772 3.2448 0.0017109 -1.5478 -0.0008161 1.697 0.00089482 527.2811022357599 61 0.34286 61.663 61.477 61.819 0.66261 43 14 4 0 0 0 0.057945 2 27933 27874;27933 39.957 39.957 1 2055500 19973 4706 12633 12679 23161;23162 23162 0.02355008296399319 MPFVKTCL 8 Carbamidomethyl (C) _MPFVKTC(Carbamidomethyl (C))L_ MPFVKTC(1)L MPFVKTC(89)L 0 1 0 nc|ENSG00000105971|P51636-2|CAV2;ENST00000495841.1_1_7:116140184-116146172:+|nuORF;ENSG00000105971|ENST00000222693|CAV2 nc|ENSG00000105971|P51636-2|CAV2 nc|ENSG00000105971|P51636-2|CAV2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.25775146484375 2 498.256274 994.497995 2.9778 0.0014837 -0.20449 -0.00010189 2.7733 0.0013818 498.2562918411977 55.27 0.3285 55.536 55.357 55.685 0.26543 50 19 3 0 0 0 0.018424 2 25272 25227;25272 88.904 17.77 1 10379000 19974 1544 12634 12680 23163;23164 23164 37 0.0005255729608961701 MPFVKTCL 8 Carbamidomethyl (C) _MPFVKTC(Carbamidomethyl (C))L_ MPFVKTC(1)L MPFVKTC(85)L 0 1 0 nc|ENSG00000105971|P51636-2|CAV2;ENST00000495841.1_1_7:116140184-116146172:+|nuORF;ENSG00000105971|ENST00000222693|CAV2 nc|ENSG00000105971|P51636-2|CAV2 nc|ENSG00000105971|P51636-2|CAV2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.2579650878906 2 498.256274 994.497995 3.1236 0.0015563 -0.65633 -0.00032702 2.4673 0.0012293 498.2562248968352 54.499 0.2883 55.166 54.976 55.264 0.6665 66 21 4 0 0 0 0.022365 2 24920 24876;24920 85.272 17.928 1 11424000 19975 1544 12634 12680 23165;23166 23166 37 0.0005255729608961701 MPGMSRGFSS 10 Unmodified _MPGMSRGFSS_ 0 0 0 REV__ENST00000233575.6_1_2:27594154-27595553:+|nuORF REV__ENST00000233575.6_1_2:27594154-27595553:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.23681640625 2 528.733694 1055.45284 3.4077 0.0018017 0.084319 4.4582E-05 3.492 0.0018463 528.733816512022 83.493 0.32213 84.155 84.006 84.328 0.66219 37 20 3 0 0 0 0.70333 1 38476 38476 13.042 2.2185 1 621740 + 19976 14864 12635 12681 23167 23167 -0.07267293237077865 MPHDAIILL 9 Unmodified _MPHDAIILL_ 0 0 0 ENSG00000070269|ENST00000261556|TMEM260 ENSG00000070269|ENST00000261556|TMEM260 ENSG00000070269|ENST00000261556|TMEM260 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.78985595703125 2 511.788795 1021.56304 2.546 0.001303 0.1346 6.8886E-05 2.6806 0.0013719 511.788746129899 71.678 0.22714 71.678 71.562 71.79 0 34 21 2 0 0 0 0.14729 1 34853 34853 26.884 26.884 1 654350 19977 762 12636 12682 23168 23168 0.0531187509358233 MPHDAIILL 9 Unmodified _MPHDAIILL_ 0 0 0 ENSG00000070269|ENST00000261556|TMEM260 ENSG00000070269|ENST00000261556|TMEM260 ENSG00000070269|ENST00000261556|TMEM260 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 511.788795 1021.56304 2.546 0.001303 0.1346 6.8886E-05 2.6806 0.0013719 511.788746129899 71.678 0.22714 71.678 71.562 71.79 0 0.10427 -2.0261E-05 NaN 26.884 34 21 2 NaN NaN NaN NaN 0 NaN NaN 0 654350 19978 762 12636 12682 0.0531187509358233 MPHDAIILL 9 Unmodified _MPHDAIILL_ 0 0 0 ENSG00000070269|ENST00000261556|TMEM260 ENSG00000070269|ENST00000261556|TMEM260 ENSG00000070269|ENST00000261556|TMEM260 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 511.788795 1021.56304 3.1273 0.0016005 -0.32271 -0.00016516 2.8046 0.0014354 511.7886031807054 71.371 0.22069 71.629 71.519 71.74 0.25785 0.055117 -0.00048835 NaN 26.884 32 19 2 NaN NaN NaN NaN 0 NaN NaN 0 419230 19979 762 12636 12682 0.0531187509358233 MPHDAIILL 9 Unmodified _MPHDAIILL_ 0 0 0 ENSG00000070269|ENST00000261556|TMEM260 ENSG00000070269|ENST00000261556|TMEM260 ENSG00000070269|ENST00000261556|TMEM260 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 511.788795 1021.56304 2.8601 0.0014638 0.47363 0.0002424 3.3337 0.0017062 511.7890792922373 70.752 0.23187 71.415 71.302 71.534 0.66209 -0.15939 0.00032676 NaN 26.884 22 13 2 NaN NaN NaN NaN 0 NaN NaN 0 553700 19980 762 12636 12682 0.0531187509358233 MPHDLITQL 9 Unmodified _MPHDLITQL_ 0 0 0 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2;ENSG00000130640|ENST00000252936|TUBGCP2;nc|ENSG00000130640|Q9BSJ2-4|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.2830810546875 2 534.281334 1066.54812 2.8582 0.0015271 0.42952 0.00022948 3.2877 0.0017566 534.2817768323528 60.178 0.22292 60.178 60.074 60.297 0 57 24 3 0 0 0 0.012748 2 27903 27903;27952 78.149 21.972 1 8683400 19981 2604 12637 12683 23169;23170 23169 0.017503832255897578 MPHDLITQL 9 Unmodified _MPHDLITQL_ 0 0 0 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2;ENSG00000130640|ENST00000252936|TUBGCP2;nc|ENSG00000130640|Q9BSJ2-4|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 534.2835083007812 2 534.281334 1066.54812 2.7843 0.0014876 0.43779 0.0002339 3.2221 0.0017215 534.2816466648912 59.023 0.28867 59.782 59.676 59.965 0.75894 71 24 4 0 0 0 0.020151 2 27157 27105;27157 68.081 17.226 1 8002200 19982 2604 12637 12683 23171;23172 23172 0.017503832255897578 MPHDLITQL 9 Unmodified _MPHDLITQL_ 0 0 0 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2;ENSG00000130640|ENST00000252936|TUBGCP2;nc|ENSG00000130640|Q9BSJ2-4|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 534.2835083007812 2 534.281334 1066.54812 3.0628 0.0016364 0.3006 0.0001606 3.3634 0.001797 534.281537360917 59.914 0.36624 60.173 59.988 60.354 0.2593 46 18 4 0 0 0 0.020151 3 27389 27389;27443;27491 68.081 25.986 1 4041100 19983 2604 12637 12683 23173;23174;23175 23173 0.017503832255897578 MPHDLITQL 9 Unmodified _MPHDLITQL_ 0 0 0 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2;ENSG00000130640|ENST00000252936|TUBGCP2;nc|ENSG00000130640|Q9BSJ2-4|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 534.2835083007812 2 534.281334 1066.54812 3.2425 0.0017324 -0.62756 -0.0003353 2.615 0.0013971 534.2809924752477 59.316 0.50061 59.983 59.702 60.203 0.66703 46 23 3 0 0 0 0.012748 2 27123 27123;27172 78.149 19.471 1 5119900 19984 2604 12637 12683 23176;23177 23176 0.017503832255897578 MPHEDCITAL 10 Carbamidomethyl (C) _MPHEDC(Carbamidomethyl (C))ITAL_ MPHEDC(1)ITAL MPHEDC(68)ITAL 0 1 0 ENST00000436347.5_1_2:190313199-190340140:+|nuORF;ENSG00000115368|ENST00000314761|WDR75 ENST00000436347.5_1_2:190313199-190340140:+|nuORF ENST00000436347.5_1_2:190313199-190340140:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.7680053710938 2 593.765191 1185.51583 3.218 0.0019108 -0.26943 -0.00015998 2.9486 0.0017508 593.7655040374214 46.789 0.32218 46.789 46.62 46.943 0 27 10 4 0 0 0 0.026062 1 21414 21414 68.081 41.197 1 1188300 19985 1966 12638 12684 23178 23178 46 -0.06950772239747494 MPHEDCITAL 10 Carbamidomethyl (C) _MPHEDC(Carbamidomethyl (C))ITAL_ MPHEDC(1)ITAL MPHEDC(52)ITAL 0 1 0 ENST00000436347.5_1_2:190313199-190340140:+|nuORF;ENSG00000115368|ENST00000314761|WDR75 ENST00000436347.5_1_2:190313199-190340140:+|nuORF ENST00000436347.5_1_2:190313199-190340140:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 593.7675170898438 2 593.765191 1185.51583 3.8736 0.0023 -0.29366 -0.00017436 3.58 0.0021257 593.7653187855592 46.689 0.23011 46.954 46.838 47.068 0.26561 13 7 2 0 0 0 0.10303 1 21376 21376 52.268 21.632 1 1663100 19986 1966 12638 12684 23179 23179 46 -0.06950772239747494 MPHEDCITAL 10 Carbamidomethyl (C) _MPHEDC(Carbamidomethyl (C))ITAL_ MPHEDC(1)ITAL MPHEDC(59)ITAL 0 1 0 ENST00000436347.5_1_2:190313199-190340140:+|nuORF;ENSG00000115368|ENST00000314761|WDR75 ENST00000436347.5_1_2:190313199-190340140:+|nuORF ENST00000436347.5_1_2:190313199-190340140:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 593.7669067382812 2 593.765191 1185.51583 4.1962 0.0024915 -1.0951 -0.00065023 3.1011 0.0018413 593.7650299929287 46.125 0.27884 46.776 46.6 46.879 0.65104 20 8 3 0 0 0 0.065124 1 21125 21125 58.679 28.042 1 1011800 19987 1966 12638 12684 23180 23180 46 -0.06950772239747494 MPHEKHYTL 9 Unmodified _MPHEKHYTL_ 0 0 0 nc|ENSG00000142731|O00444-2|PLK4;nc|ENSG00000142731|O00444-3|PLK4;ENSG00000142731|ENST00000270861|PLK4 nc|ENSG00000142731|O00444-2|PLK4 nc|ENSG00000142731|O00444-2|PLK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 385.859619140625 3 385.858698 1154.55426 2.6244 0.0010126 -0.70888 -0.00027353 1.9155 0.00073912 385.8585083350257 14.33 0.11756 14.637 14.593 14.711 0.3069 8 4 2 0 0 0 0.30351 1 6503 6503 16.566 2.951 1 1525000 19988 9675 12639 12685 23181 23181 -0.016830985428896383 MPHEKHYTL 9 Unmodified _MPHEKHYTL_ 0 0 0 nc|ENSG00000142731|O00444-2|PLK4;nc|ENSG00000142731|O00444-3|PLK4;ENSG00000142731|ENST00000270861|PLK4 nc|ENSG00000142731|O00444-2|PLK4 nc|ENSG00000142731|O00444-2|PLK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 385.8602294921875 3 385.858698 1154.55426 2.8717 0.0011081 0.13095 5.0527E-05 3.0026 0.0011586 386.19320245417646 14.345 0.13598 14.994 14.919 15.055 0.6482 23 12 3 0 0 0 0.2095 1 6459 6459 22.775 7.0363 1 2443400 19989 9675 12639 12685 23182 23182 -0.016830985428896383 MPHGDLAGSR 10 Unmodified _MPHGDLAGSR_ 0 0 0 ENST00000155926.8_1_2:12880843-12881014:+|nuORF ENST00000155926.8_1_2:12880843-12881014:+|nuORF ENST00000155926.8_1_2:12880843-12881014:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.751708984375 2 520.750733 1039.48691 3.4995 0.0018224 -0.40069 -0.00020866 3.0988 0.0016137 520.7504053516559 83.516 0.43372 84.178 83.93 84.363 0.66219 82 28 4 0 0 0 0.22696 1 38414 38414 36.127 7.6402 1 3524700 19990 6383 12640 12686 23183 23183 -0.03125128753845274 MPHHDASTF 9 Unmodified _MPHHDASTF_ 0 0 0 nc|ENSG00000083444|Q02809-2|PLOD1;ENSG00000083444|ENST00000196061|PLOD1;ENST00000481933.1_1_1:12032919-12034862:+|nuORF nc|ENSG00000083444|Q02809-2|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.7249145507812 2 521.724184 1041.43381 3.2189 0.0016794 0.14562 7.5975E-05 3.3645 0.0017554 521.7243111594676 15.267 0.43629 15.267 15.031 15.467 0 97 52 2 0 0 0 0.98132 1 6713 6713 4.3292 1.7518 1 102040 19991 9567 12641 12687 23184 23184 -0.08524506536514309 MPHHDASTF 9 Unmodified _MPHHDASTF_ 0 0 0 nc|ENSG00000083444|Q02809-2|PLOD1;ENSG00000083444|ENST00000196061|PLOD1;ENST00000481933.1_1_1:12032919-12034862:+|nuORF nc|ENSG00000083444|Q02809-2|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.7263793945312 2 521.724184 1041.43381 3.4039 0.0017759 0.42179 0.00022006 3.8257 0.001996 521.7244098629285 14.666 0.17998 14.892 14.814 14.994 0.22622 18 10 2 0 0 0 0.028312 1 6455 6455 57.471 21.427 1 387980 19992 9567 12641 12687 23185 23185 -0.08524506536514309 MPHVPITTL 9 Unmodified _MPHVPITTL_ 0 0 0 nc|ENSG00000164190|Q6KC79-2|NIPBL;ENSG00000164190|ENST00000282516|NIPBL;NIPBL|p.D836Ifs*11|1|0.21|ENSG00000164190|chr5:36985683-36985683|G/-|frameshift_variant;NIPBL|p.E879Kfs*50|1|0.32|ENSG00000164190|chr5:36985813-36985813|G/-|frameshift_variant;nc|ENSG00000164190|Q6KC79-3|NIPBL nc|ENSG00000164190|Q6KC79-2|NIPBL nc|ENSG00000164190|Q6KC79-2|NIPBL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.7831115722656 2 504.78097 1007.54739 2.7586 0.0013925 -0.35739 -0.0001804 2.4012 0.0012121 504.7811384723593 59.407 0.27586 60.156 59.981 60.257 0.74927 35 20 2 0 0 0 0.0061269 2 27312 27264;27312 89.427 66.278 1 818370 19993 4293 12642 12688 23186;23187 23187 0.04391588576527283 MPHVPITTL 9 Unmodified _MPHVPITTL_ 0 0 0 nc|ENSG00000164190|Q6KC79-2|NIPBL;ENSG00000164190|ENST00000282516|NIPBL;NIPBL|p.D836Ifs*11|1|0.21|ENSG00000164190|chr5:36985683-36985683|G/-|frameshift_variant;NIPBL|p.E879Kfs*50|1|0.32|ENSG00000164190|chr5:36985813-36985813|G/-|frameshift_variant;nc|ENSG00000164190|Q6KC79-3|NIPBL nc|ENSG00000164190|Q6KC79-2|NIPBL nc|ENSG00000164190|Q6KC79-2|NIPBL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.78253173828125 2 504.78097 1007.54739 3.2609 0.0016461 -0.60826 -0.00030704 2.6527 0.001339 504.780747701461 60.174 0.33506 60.43 60.227 60.562 0.25578 32 16 3 0 0 0 0.0061269 2 27531 27531;27574 89.427 60.94 1 718970 19994 4293 12642 12688 23188;23189 23188 0.04391588576527283 MPHVPITTL 9 Unmodified _MPHVPITTL_ 0 0 0 nc|ENSG00000164190|Q6KC79-2|NIPBL;ENSG00000164190|ENST00000282516|NIPBL;NIPBL|p.D836Ifs*11|1|0.21|ENSG00000164190|chr5:36985683-36985683|G/-|frameshift_variant;NIPBL|p.E879Kfs*50|1|0.32|ENSG00000164190|chr5:36985813-36985813|G/-|frameshift_variant;nc|ENSG00000164190|Q6KC79-3|NIPBL nc|ENSG00000164190|Q6KC79-2|NIPBL nc|ENSG00000164190|Q6KC79-2|NIPBL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.78253173828125 2 504.78097 1007.54739 3.2661 0.0016486 -0.31316 -0.00015808 2.9529 0.0014906 504.78100461529317 59.59 0.29245 60.255 60.102 60.394 0.66503 25 12 3 0 0 0 0.035095 1 27269 27269 53.576 35.441 1 791950 19995 4293 12642 12688 23190 23190 0.04391588576527283 MPHVQDPSL 9 Unmodified _MPHVQDPSL_ 0 0 0 nc|ENSG00000142949|P10586-2|PTPRF;ENSG00000142949|ENST00000359947|PTPRF nc|ENSG00000142949|P10586-2|PTPRF nc|ENSG00000142949|P10586-2|PTPRF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.2516479492188 2 512.250034 1022.48552 3.1941 0.0016362 0.93849 0.00048074 4.1326 0.0021169 512.2510185229763 40.734 0.26574 40.734 40.628 40.894 0 22 13 3 0 0 0 0.015098 1 18515 18515 74.929 26.583 1 1458700 19996 3336 12643 12689 23191 23191 -0.02482762842601005 MPHVQDPSL 9 Unmodified _MPHVQDPSL_ 0 0 0 nc|ENSG00000142949|P10586-2|PTPRF;ENSG00000142949|ENST00000359947|PTPRF nc|ENSG00000142949|P10586-2|PTPRF nc|ENSG00000142949|P10586-2|PTPRF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.2516479492188 2 512.250034 1022.48552 3.1995 0.0016389 1.9219 0.00098448 5.1213 0.0026234 512.2514201700329 39.92 0.62625 40.72 40.235 40.861 0.80014 51 32 3 0 0 0 0.027384 1 18039 18039 58.679 20.528 1 835490 19997 3336 12643 12689 23192 23192 -0.02482762842601005 MPHVQDPSL 9 Unmodified _MPHVQDPSL_ 0 0 0 nc|ENSG00000142949|P10586-2|PTPRF;ENSG00000142949|ENST00000359947|PTPRF nc|ENSG00000142949|P10586-2|PTPRF nc|ENSG00000142949|P10586-2|PTPRF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.2530517578125 2 512.250034 1022.48552 3.5415 0.0018141 0.49167 0.00025186 4.0332 0.002066 512.2504619113445 40.59 0.31154 40.859 40.644 40.956 0.26904 23 12 2 0 0 0 0.02234 2 18435 18435;18493 65.235 17.534 1 1016700 19998 3336 12643 12689 23193;23194 23193 -0.02482762842601005 MPHVQDPSL 9 Unmodified _MPHVQDPSL_ 0 0 0 nc|ENSG00000142949|P10586-2|PTPRF;ENSG00000142949|ENST00000359947|PTPRF nc|ENSG00000142949|P10586-2|PTPRF nc|ENSG00000142949|P10586-2|PTPRF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.25146484375 2 512.250034 1022.48552 3.6241 0.0018565 0.21935 0.00011236 3.8435 0.0019688 512.2496871642065 40.147 0.22448 40.788 40.601 40.826 0.64136 11 7 2 0 0 0 0.027384 1 18334 18334 58.679 15.711 1 2133000 19999 3336 12643 12689 23195 23195 -0.02482762842601005 MPIGPDVSL 9 Unmodified _MPIGPDVSL_ 0 0 0 ENST00000533841.1_1_15:45709932-45713405:+|nuORF;ENSG00000171763|ENST00000305560|SPATA5L1 ENST00000533841.1_1_15:45709932-45713405:+|nuORF ENST00000533841.1_1_15:45709932-45713405:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.7463684082031 2 464.744053 927.473554 2.4681 0.001147 0.39592 0.000184 2.864 0.001331 464.7441948032793 71.508 0.12274 71.766 71.665 71.788 0.25785 16 8 2 0 0 0 0.22824 1 32741 32741 30.225 12.09 1 476170 20000 4829 12644 12690 23196 23196 0.00691620414204408 MPIGPDVSL 9 Unmodified _MPIGPDVSL_ 0 0 0 ENST00000533841.1_1_15:45709932-45713405:+|nuORF;ENSG00000171763|ENST00000305560|SPATA5L1 ENST00000533841.1_1_15:45709932-45713405:+|nuORF ENST00000533841.1_1_15:45709932-45713405:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.74560546875 2 464.744053 927.473554 2.2657 0.001053 0.81693 0.00037966 3.0826 0.0014326 464.74440429267173 70.992 0.2942 71.654 71.508 71.803 0.66209 27 18 2 0 0 0 0.22824 2 32514 32514;32567 30.225 12.09 1 583980 20001 4829 12644 12690 23197;23198 23197 0.00691620414204408 MPIGPDVSL 9 Unmodified _MPIGPDVSL_ 0 0 0 ENST00000533841.1_1_15:45709932-45713405:+|nuORF;ENSG00000171763|ENST00000305560|SPATA5L1 ENST00000533841.1_1_15:45709932-45713405:+|nuORF ENST00000533841.1_1_15:45709932-45713405:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 464.744053 927.473554 2.4681 0.001147 0.39592 0.000184 2.864 0.001331 464.7441948032793 71.508 0.12274 71.766 71.665 71.788 0.25785 0.055961 -0.00027964 NaN 30.225 16 8 2 NaN NaN NaN NaN 0 NaN NaN 0 476170 20002 4829 12644 12690 0.00691620414204408 MPIHSDIL 8 Unmodified _MPIHSDIL_ 0 0 0 ENST00000505222.5_1_6:82901346-82950269:-|nuORF;nc|ENSG00000005700|Q9P2D0-2|IBTK;ENST00000369751.2_1_6:82901346-82950269:-|nuORF;ENSG00000005700|ENST00000306270|IBTK ENST00000505222.5_1_6:82901346-82950269:-|nuORF ENST00000505222.5_1_6:82901346-82950269:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.2457275390625 2 463.244221 924.473888 2.9371 0.0013606 0.15339 7.1059E-05 3.0905 0.0014316 463.24437325661404 49.041 0.26681 49.697 49.551 49.818 0.65524 14 9 2 0 0 0 0.5047 1 22426 22426 20.871 6.2895 1 619690 20003 332 12645 12691 23199 23199 0.00863040134061066 MPIKDNAL 8 Unmodified _MPIKDNAL_ 0 0 0 ENSG00000121931|ENST00000369763|LRIF1 ENSG00000121931|ENST00000369763|LRIF1 ENSG00000121931|ENST00000369763|LRIF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.2454528808594 2 451.244221 900.473888 NaN NaN NaN NaN NaN NaN NaN 33.889 1 34.677 34.177 35.177 0.78795 0 0 0 0.72306 1 15343 15343 21.747 4.8044 1 20004 2249 12646 12692 23200 23200 0.019670401340590615 MPITEVFKEEM 11 Unmodified _MPITEVFKEEM_ 0 0 0 nc|ENSG00000131473|P53396-2|ACLY;ENSG00000131473|ENST00000352035|ACLY;nc|ENSG00000131473|P53396-3|ACLY nc|ENSG00000131473|P53396-2|ACLY nc|ENSG00000131473|P53396-2|ACLY MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 676.8952026367188 2 677.325082 1352.63561 NaN NaN NaN NaN NaN NaN NaN 68.697 1 69.399 68.899 69.899 0.70218 0 0 0 0.51996 1 32777 32777 27.088 8.7153 1 20005 2662 12647 12693 23201 23201 -0.026602036858093925 MPITEVFKEEM 11 Unmodified _MPITEVFKEEM_ 0 0 0 nc|ENSG00000131473|P53396-2|ACLY;ENSG00000131473|ENST00000352035|ACLY;nc|ENSG00000131473|P53396-3|ACLY nc|ENSG00000131473|P53396-2|ACLY nc|ENSG00000131473|P53396-2|ACLY MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.3267211914062 2 677.325082 1352.63561 NaN NaN NaN NaN NaN NaN NaN 68.883 1 69.585 69.085 70.085 0.70218 0 0 0 0.12653 1 32880 32880 42.835 24.462 1 20006 2662 12647 12693 23202 23202 -0.026602036858093925 MPITEVFKEEM 11 Unmodified _MPITEVFKEEM_ 0 0 0 nc|ENSG00000131473|P53396-2|ACLY;ENSG00000131473|ENST00000352035|ACLY;nc|ENSG00000131473|P53396-3|ACLY nc|ENSG00000131473|P53396-2|ACLY nc|ENSG00000131473|P53396-2|ACLY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.3258666992188 2 677.325082 1352.63561 3.879 0.0026274 -0.60557 -0.00041017 3.2735 0.0022172 677.3246819474473 69.691 0.55874 69.946 69.549 70.108 0.25443 91 36 3 0 0 0 3.9473E-15 4 31839 31792;31839;31891;31947 132.22 95.714 1 1695100 20007 2662 12647 12693 23203;23204;23205;23206 23204 -0.026602036858093925 MPITEVFKEEM 11 Unmodified _MPITEVFKEEM_ 0 0 0 nc|ENSG00000131473|P53396-2|ACLY;ENSG00000131473|ENST00000352035|ACLY;nc|ENSG00000131473|P53396-3|ACLY nc|ENSG00000131473|P53396-2|ACLY nc|ENSG00000131473|P53396-2|ACLY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 677.3275146484375 2 677.325082 1352.63561 3.7039 0.0025088 -0.8296 -0.00056191 2.8743 0.0019469 677.3248438824575 69.193 0.54547 69.854 69.453 69.999 0.66071 102 37 4 0 0 0 9.4703E-15 5 31718 31575;31624;31672;31718;31766 125.66 98.433 1 1474900 20008 2662 12647 12693 23207;23208;23209;23210;23211 23210 -0.026602036858093925 MPIVLELIP 9 Unmodified _MPIVLELIP_ 0 0 0 ENST00000427426.1_1_1:568752-568815:+|nuORF;ENSG00000198712|ENST00000361739|MT-CO2 ENST00000427426.1_1_1:568752-568815:+|nuORF ENST00000427426.1_1_1:568752-568815:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.810302734375 2 512.809196 1023.60384 NaN NaN NaN NaN NaN NaN NaN 100.33 1 100.39 99.887 100.89 0.059723 0 0 0 0.35622 1 54410 54410 24.674 6.3008 1 20009 5918 12648 12694 23212 23212 0.09298216413208138 MPIYEAADKAL 11 Unmodified _MPIYEAADKAL_ 0 0 0 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.3175659179688 2 611.312832 1220.61111 3.5922 0.0021959 -0.44845 -0.00027414 3.1437 0.0019218 611.3126648874627 55.504 0.46625 55.504 55.229 55.695 0 86 37 4 0 0 0 4.3338E-07 2 25514 25460;25514 108.26 71.703 1 9087200 20010 2481 12649 12695 23213;23214 23214 0.009629042229562401 MPIYEAADKAL 11 Unmodified _MPIYEAADKAL_ 0 0 0 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 611.3147583007812 2 611.312832 1220.61111 3.002 0.0018351 -0.076812 -4.6956E-05 2.9252 0.0017882 611.3128227212087 54.453 0.82463 55.249 54.587 55.412 0.79552 150 47 4 0 0 0 7.6068E-10 5 24767 24671;24715;24767;24816;24862 118.21 81.703 1 5047500 20011 2481 12649 12695 23215;23216;23217;23218;23219 23217 0.009629042229562401 MPIYEAADKAL 11 Unmodified _MPIYEAADKAL_ 0 0 0 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.3137817382812 2 611.312832 1220.61111 3.3242 0.0020321 -0.20548 -0.00012561 3.1187 0.0019065 611.3127028188082 55.391 0.52546 55.657 55.34 55.865 0.26543 80 29 4 0 0 0 7.6068E-10 4 25283 25235;25283;25339;25393 118.21 80.034 1 5096600 20012 2481 12649 12695 23220;23221;23222;23223 23221 0.009629042229562401 MPIYEAADKAL 11 Unmodified _MPIYEAADKAL_ 0 0 0 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.3150634765625 2 611.312832 1220.61111 3.4778 0.002126 -0.43505 -0.00026595 3.0428 0.0018601 611.3126308254899 54.668 0.53026 55.335 55.028 55.558 0.6665 105 41 3 0 0 0 4.3338E-07 4 24979 24925;24979;25028;25072 108.26 71.756 1 6314600 20013 2481 12649 12695 23224;23225;23226;23227 23225 0.009629042229562401 MPIYEAADKAL 11 Unmodified _MPIYEAADKAL_ 0 0 0 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.3131103515625 2 611.312832 1220.61111 NaN NaN NaN NaN NaN NaN NaN 54.343 1 55.01 54.51 55.51 0.6665 0 0 0 0.51359 1 24857 24857 27.223 0.33958 1 20014 2481 12649 12695 23228 23228 0.009629042229562401 MPIYEAADKAL 11 Oxidation (M) _M(Oxidation (M))PIYEAADKAL_ M(1)PIYEAADKAL M(65)PIYEAADKAL 0 0 1 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.312744140625 2 619.310289 1236.60602 NaN NaN NaN NaN NaN NaN NaN 46.947 1 46.947 46.447 47.447 0 0 0 0 0.012399 1 21490 21490 64.927 24.969 1 20015 2481 12649 12696 23229 23229 32 -0.0028139963965259085 MPIYEAADKAL 11 Oxidation (M) _M(Oxidation (M))PIYEAADKAL_ M(1)PIYEAADKAL M(100)PIYEAADKAL 0 0 1 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.3134765625 2 619.310289 1236.60602 3.8247 0.0023687 0.074269 4.5996E-05 3.899 0.0024147 619.3106882659421 46.716 0.28425 46.982 46.899 47.184 0.26561 14 9 2 0 0 0 2.3749E-06 1 21382 21382 100.71 74.441 1 688270 20016 2481 12649 12696 23230 23230 32 -0.0028139963965259085 MPIYEAADKAL 11 Oxidation (M) _M(Oxidation (M))PIYEAADKAL_ M(1)PIYEAADKAL M(76)PIYEAADKAL 0 0 1 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.3138427734375 2 619.310289 1236.60602 NaN NaN NaN NaN NaN NaN NaN 46.18 1 46.831 46.331 47.331 0.65104 0 0 0 0.0010663 1 21153 21153 75.571 27.225 1 20017 2481 12649 12696 23231 23231 32 -0.0028139963965259085 MPIYEAADKAL 11 Oxidation (M) _M(Oxidation (M))PIYEAADKAL_ M(1)PIYEAADKAL M(77)PIYEAADKAL 0 0 1 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.4287719726562 2 619.310289 1236.60602 NaN NaN NaN NaN NaN NaN NaN 46.205 1 46.856 46.356 47.356 0.65104 0 0 0 0.0012194 1 21164 21164 77.049 37.091 1 20018 2481 12649 12696 23232 23232 32 -0.0028139963965259085 MPIYEAADKAL 11 Oxidation (M) _M(Oxidation (M))PIYEAADKAL_ M(1)PIYEAADKAL M(77)PIYEAADKAL 0 0 1 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.3130493164062 2 619.310289 1236.60602 NaN NaN NaN NaN NaN NaN NaN 46.314 1 46.966 46.466 47.466 0.65219 0 0 0 0.0012194 1 21214 21214 77.049 37.091 1 20019 2481 12649 12696 23233 23233 32 -0.0028139963965259085 MPKELKLS 8 Unmodified _MPKELKLS_ 0 0 0 ENST00000517510.5_1_19:48707456-48744240:-|nuORF;ENST00000522773.5_1_19:48714969-48736545:-|nuORF;nc|ENSG00000105483|Q9Y2G2-7|CARD8;ENST00000522051.5_1_19:48714969-48735770:-|nuORF;nc|ENSG00000105483|Q9Y2G2-1|CARD8;nc|ENSG00000105483|Q9Y2G2-4|CARD8;ENSG00000105483|ENST00000651546|CARD8 ENST00000517510.5_1_19:48707456-48744240:-|nuORF ENST00000517510.5_1_19:48707456-48744240:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.2765808105469 2 473.275521 944.536489 3.0533 0.001445 -0.28294 -0.00013391 2.7703 0.0013111 473.27543726798774 29.267 0.40497 29.527 29.299 29.704 0.2602 58 24 3 0 0 0 0.45971 1 13371 13371 24.021 2.4836 1 437710 20020 1500 12650 12697 23234 23234 0.06200186202261193 MPKETIVTL 9 Unmodified _MPKETIVTL_ 0 0 0 ENST00000297438.6_1_8:90914343-90921838:+|nuORF ENST00000297438.6_1_8:90914343-90921838:+|nuORF ENST00000297438.6_1_8:90914343-90921838:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.2965087890625 2 516.293911 1030.57327 3.458 0.0017853 0.51162 0.00026415 3.9696 0.0020495 516.2944714244213 49.71 0.38043 49.972 49.812 50.193 0.26146 40 15 3 0 0 0 0.24465 1 22808 22808 20.454 1.1966 1 1676800 20021 6774 12651 12698 23235 23235 0.05920438028169883 MPKIKMPK 8 Unmodified _MPKIKMPK_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.86328125 3 324.862615 971.566015 NaN NaN NaN NaN NaN NaN NaN 23.06 1 23.7 23.2 24.2 0.64051 0 0 0 0.32671 1 10516 10516 34.402 11.665 1 20022 2385 12652 12699 23236 23236 0.0790942694674186 MPKKMVPSK 9 Unmodified _MPKKMVPSK_ 0 0 0 REV__nc|ENSG00000204406|Q9P267-2|MBD5 REV__nc|ENSG00000204406|Q9P267-2|MBD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 349.20233154296875 3 349.201407 1044.58239 NaN NaN NaN NaN NaN NaN NaN 72.531 1 73.195 72.695 73.695 0.66398 0 0 0 0.8984 1 33275 33275 2.2828 0 1 + 20023 14415 12653 12700 23237 23237 0.06188508112836644 MPKKNRIAI 9 Unmodified _MPKKNRIAI_ 0 0 0 chr6:34425221-34425583|539|22.39|0.0|21.09|-|ENST00000494077|RPS10-NUDT3,RPS10;ENSG00000124614|ENST00000648437|RPS10;nc|ENSG00000101278|Q9NQ39|RPS10P5 chr6:34425221-34425583|539|22.39|0.0|21.09|-|ENST00000494077|RPS10-NUDT3,RPS10 chr6:34425221-34425583|539|22.39|0.0|21.09|-|ENST00000494077|RPS10-NUDT3,RPS10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.5556945800781 3 357.55495 1069.64302 2.5955 0.00092804 0.22363 7.996E-05 2.8192 0.001008 357.5549605674992 14.283 0.16546 14.283 14.241 14.406 0 15 9 2 0 0 0 0.10584 1 6292 6292 31.268 16.02 1 710680 20024 187 12654 12701 23238 23238 0.11098361487438524 MPKKNRIAI 9 Unmodified _MPKKNRIAI_ 0 0 0 chr6:34425221-34425583|539|22.39|0.0|21.09|-|ENST00000494077|RPS10-NUDT3,RPS10;ENSG00000124614|ENST00000648437|RPS10;nc|ENSG00000101278|Q9NQ39|RPS10P5 chr6:34425221-34425583|539|22.39|0.0|21.09|-|ENST00000494077|RPS10-NUDT3,RPS10 chr6:34425221-34425583|539|22.39|0.0|21.09|-|ENST00000494077|RPS10-NUDT3,RPS10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.55596923828125 3 357.55495 1069.64302 2.6487 0.00094705 -0.67121 -0.00023999 1.9775 0.00070705 357.5545891723208 13.176 0.38045 13.818 13.759 14.14 0.64272 44 29 3 0 0 0 0.17594 2 5909 5909;5963 24.991 9.7425 1 975000 20025 187 12654 12701 23239;23240 23239 0.11098361487438524 MPKKRQALV 9 Unmodified _MPKKRQALV_ 0 0 0 ENSG00000104824|ENST00000221419|HNRNPL;ENST00000568980.1_1_15:34781792-34782686:-|nuORF;nc|ENSG00000104824|P14866-2|HNRNPL ENSG00000104824|ENST00000221419|HNRNPL ENSG00000104824|ENST00000221419|HNRNPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.5568542480469 3 357.55495 1069.64302 2.6487 0.00094705 -0.67121 -0.00023999 1.9775 0.00070705 357.5545891723208 13.176 0.38045 13.818 13.759 14.14 0.64272 44 29 3 0 0 0 1.0894 1 6011 6011 2.4985 0 1 975000 20026 1451 12655 12702 23241 23241 0.11098361487438524 MPKLKPVEL 9 Unmodified _MPKLKPVEL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.8224487304688 2 527.820095 1053.62564 3.5053 0.0018501 0.90648 0.00047846 4.4117 0.0023286 527.8202298160799 45.304 0.40621 45.955 45.691 46.097 0.65104 28 16 2 0 0 0 0.094033 1 20705 20705 43.772 36.483 1 601430 20027 6272 12656 12703 23242 23242 0.10097021161755038 MPKLKPVEL 9 Unmodified _MPKLKPVEL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 527.820095 1053.62564 3.2441 0.0017123 1.3488 0.00071191 4.5929 0.0024242 527.8199332908843 45.916 0.37147 46.182 45.954 46.326 0.26561 0.11349 0.00035086 NaN 43.772 22 14 2 NaN NaN NaN NaN 0 NaN NaN 0 808330 20028 6272 12656 12703 0.10097021161755038 MPKMKMPKFSM 11 Unmodified _MPKMKMPKFSM_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.76751708984375 3 452.561731 1354.66336 2.8862 0.0013062 -0.56627 -0.00025627 2.3199 0.0010499 452.5615630630601 49.261 0.27067 49.522 49.427 49.698 0.26146 16 9 2 0 0 0 0.13295 1 22587 22587 4.8923 1.016 1 343300 20029 2385 12657 12704 23243 23243 0.00021704769073949137 MPKVHIEF 8 Unmodified _MPKVHIEF_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.7693176269531 2 500.767863 999.521173 3.1568 0.0015808 -0.35159 -0.00017606 2.8052 0.0014048 500.7678700282176 50.627 0.55 50.627 50.245 50.795 0 80 28 4 0 0 0 0.0099301 3 23157 23111;23157;23204 99.799 76.651 1 4561700 20030 1983 12658 12705 23244;23245;23246 23245 0.02139319405068818 MPKVHIEF 8 Unmodified _MPKVHIEF_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.7693786621094 2 500.767863 999.521173 3.1325 0.0015687 -0.31909 -0.00015979 2.8134 0.0014089 500.76771044452465 49.646 0.59678 50.469 50.039 50.636 0.82285 80 31 3 0 0 0 0.01453 4 22586 22541;22586;22634;22690 92.491 69.343 1 3043100 20031 1983 12658 12705 23247;23248;23249;23250 23248 0.02139319405068818 MPKVHIEF 8 Unmodified _MPKVHIEF_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.7696533203125 2 500.767863 999.521173 3.149 0.0015769 -0.38912 -0.00019486 2.7599 0.0013821 500.7677594110686 50.408 0.82783 50.669 50.081 50.909 0.26146 99 35 4 0 0 0 0.0089417 5 23008 22897;22953;23008;23056;23113 111.29 84.403 1 10437000 20032 1983 12658 12705 23251;23252;23253;23254;23255 23253 0.02139319405068818 MPKVHIEF 8 Unmodified _MPKVHIEF_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.7694396972656 2 500.767863 999.521173 3.2493 0.0016271 -0.33998 -0.00017025 2.9093 0.0014569 500.76779739626164 49.745 0.60656 50.403 50.012 50.618 0.65735 76 23 4 0 0 0 0.0081505 4 22705 22648;22705;22759;22808 123.45 91.334 1 9698200 20033 1983 12658 12705 23256;23257;23258;23259 23257 0.02139319405068818 MPKVHIEF 8 Unmodified _MPKVHIEF_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.1820373535156 3 334.181001 999.521173 2.3111 0.00077233 0.3372 0.00011269 2.6483 0.00088501 334.18114523047956 49.734 0.68996 50.392 49.952 50.642 0.65735 86 26 4 0 0 0 0.61796 1 22706 22706 9.3831 0.63772 1 10861000 20034 1983 12658 12705 23260 23260 0.02139319405068818 MPKVHIEF 8 Oxidation (M) _M(Oxidation (M))PKVHIEF_ M(1)PKVHIEF M(50)PKVHIEF 0 0 1 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.7666320800781 2 508.76532 1015.51609 3.4189 0.0017394 0.27369 0.00013924 3.6926 0.0018787 508.7654185860377 40.086 0.20775 40.353 40.307 40.515 0.26696 14 8 2 0 0 0 0.13532 1 18274 18274 49.933 49.933 1 751810 20035 1983 12658 12706 23261 23261 18 0.00895015542459987 MPKVKMPK 8 Unmodified _MPKVKMPK_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 320.19134521484375 3 320.190731 957.550365 NaN NaN NaN NaN NaN NaN NaN 18.653 1 18.653 18.153 19.153 0 0 0 0 0.9101 1 8290 8290 8.7454 3.0136 1 20036 2385 12659 12707 23262 23262 0.0698914042970955 MPKVKMPK 8 Unmodified _MPKVKMPK_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 320.52581787109375 3 320.190731 957.550365 2.1189 0.00067845 0.67729 0.00021686 2.7962 0.00089532 320.1910305144447 17.326 1.4082 17.63 16.497 17.905 0.30438 193 126 2 0 0 0 0.4188 5 7878 7717;7773;7820;7878;7926 22.736 9.6938 1 206210 20037 2385 12659 12707 23263;23264;23265;23266;23267 23266 0.0698914042970955 MPKVKMPK 8 Unmodified _MPKVKMPK_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 320.1918029785156 3 320.190731 957.550365 2.1659 0.00069351 0.68877 0.00022054 2.8547 0.00091405 320.19100348069605 17.418 0.94141 18.079 17.228 18.169 0.66072 147 78 2 0 0 0 0.23923 3 7807 7759;7807;7852 47.749 13.347 1 541300 20038 2385 12659 12707 23268;23269;23270 23269 0.0698914042970955 MPKVKMPKFSM 11 Unmodified _MPKVKMPKFSM_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.9056396484375 3 441.904374 1322.69129 2.9949 0.0013234 -0.27897 -0.00012328 2.7159 0.0012002 441.9042720688687 48.759 0.66359 49.021 48.745 49.408 0.26209 43 26 2 0 0 0 0.40826 1 22382 22382 21.666 17.26 1 864960 20039 2385 12660 12708 23271 23271 0.04285351020826056 MPKVKMPKFSM 11 Unmodified _MPKVKMPKFSM_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.905029296875 3 441.904374 1322.69129 3.2072 0.0014173 -0.65168 -0.00028798 2.5556 0.0011293 441.90435175294317 48.377 0.9566 49.03 48.413 49.37 0.65356 85 37 3 0 0 0 0.35487 2 22137 22137;22241 23.34 15.053 1 553470 20040 2385 12660 12708 23272;23273 23272 0.04285351020826056 MPKVKMPKFSM 11 Unmodified _MPKVKMPKFSM_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 441.904374 1322.69129 2.7266 0.0012049 0.13444 5.941E-05 2.861 0.0012643 441.9043072431571 48.009 0.50233 48.838 48.481 48.983 0.82915 -0.12494 0.00067074 NaN 23.34 37 22 2 NaN NaN NaN NaN 0 NaN NaN 0 314370 20041 2385 12660 12708 0.04285351020826056 MPKVKTIEL 9 Unmodified _MPKVKTIEL_ 0 0 0 ENSG00000164308|ENST00000437043|ERAP2;nc|ENSG00000164308|Q6P179-4|ERAP2;nc|ENSG00000164308|Q6P179-2|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.8194580078125 2 529.817553 1057.62055 3.0584 0.0016204 0.27615 0.00014631 3.3345 0.0017667 529.8176064447134 42.82 0.37033 42.82 42.591 42.961 0 34 19 2 0 0 0 0.0076144 2 19475 19475;19526 86.332 67.075 1 1208400 20042 4305 12661 12709 23274;23275 23274 0.09404717299162257 MPKVKTIEL 9 Unmodified _MPKVKTIEL_ 0 0 0 ENSG00000164308|ENST00000437043|ERAP2;nc|ENSG00000164308|Q6P179-4|ERAP2;nc|ENSG00000164308|Q6P179-2|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.818115234375 2 529.817553 1057.62055 NaN NaN NaN NaN NaN NaN NaN 41.87 1 42.679 42.179 43.179 0.80855 0 0 0 0.028243 1 19006 19006 60.074 40.817 1 20043 4305 12661 12709 23276 23276 0.09404717299162257 MPKVKTIEL 9 Unmodified _MPKVKTIEL_ 0 0 0 ENSG00000164308|ENST00000437043|ERAP2;nc|ENSG00000164308|Q6P179-4|ERAP2;nc|ENSG00000164308|Q6P179-2|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.81982421875 2 529.817553 1057.62055 3.2741 0.0017347 0.22901 0.00012133 3.5031 0.001856 529.817834902775 42.637 0.55528 42.908 42.47 43.025 0.27021 65 28 3 0 0 0 0.0014317 5 19430 19265;19321;19373;19430;19484 110.55 79.916 1 7146200 20044 4305 12661 12709 23277;23278;23279;23280;23281 23280 0.09404717299162257 MPKVKTIEL 9 Unmodified _MPKVKTIEL_ 0 0 0 ENSG00000164308|ENST00000437043|ERAP2;nc|ENSG00000164308|Q6P179-4|ERAP2;nc|ENSG00000164308|Q6P179-2|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.8199462890625 2 529.817553 1057.62055 3.4275 0.0018159 1.1294 0.00059837 4.5569 0.0024143 530.3198328463477 41.652 0.35167 42.296 41.962 42.313 0.64451 24 19 2 0 0 0 0.0076144 2 19054 18991;19054 86.332 60.064 1 7820300 20045 4305 12661 12709 23282;23283 23283 0.09404717299162257 MPLEDMNEF 9 Unmodified _MPLEDMNEF_ 0 0 0 ENSG00000117748|ENST00000373912|RPA2;nc|ENSG00000117748|P15927-2|RPA2;nc|ENSG00000117748|P15927-3|RPA2 ENSG00000117748|ENST00000373912|RPA2 ENSG00000117748|ENST00000373912|RPA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.235595703125 2 563.233193 1124.45183 2.7943 0.0015738 -0.014265 -8.0343E-06 2.78 0.0015658 563.2332737047758 71.24 0.39231 71.24 71.109 71.501 0 89 41 3 0 0 0 0.052704 2 34650 34597;34650 46.021 32.115 1 2329100 20046 2093 12662 12710 23284;23285 23285 -0.1054155239667125 MPLEDMNEF 9 Unmodified _MPLEDMNEF_ 0 0 0 ENSG00000117748|ENST00000373912|RPA2;nc|ENSG00000117748|P15927-2|RPA2;nc|ENSG00000117748|P15927-3|RPA2 ENSG00000117748|ENST00000373912|RPA2 ENSG00000117748|ENST00000373912|RPA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.2319946289062 2 563.233193 1124.45183 NaN NaN NaN NaN NaN NaN NaN 70.415 1 71.119 70.619 71.619 0.70386 0 0 0 0.37214 1 33739 33739 24.021 15.427 1 20047 2093 12662 12710 23286 23286 -0.1054155239667125 MPLEDMNEF 9 Unmodified _MPLEDMNEF_ 0 0 0 ENSG00000117748|ENST00000373912|RPA2;nc|ENSG00000117748|P15927-2|RPA2;nc|ENSG00000117748|P15927-3|RPA2 ENSG00000117748|ENST00000373912|RPA2 ENSG00000117748|ENST00000373912|RPA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.234619140625 2 563.233193 1124.45183 NaN NaN NaN NaN NaN NaN NaN 70.554 1 71.257 70.757 71.757 0.70386 0 0 0 0.11997 1 33818 33818 37.974 25.442 1 20048 2093 12662 12710 23287 23287 -0.1054155239667125 MPLEDMNEF 9 Unmodified _MPLEDMNEF_ 0 0 0 ENSG00000117748|ENST00000373912|RPA2;nc|ENSG00000117748|P15927-2|RPA2;nc|ENSG00000117748|P15927-3|RPA2 ENSG00000117748|ENST00000373912|RPA2 ENSG00000117748|ENST00000373912|RPA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.2346801757812 2 563.233193 1124.45183 3.339 0.0018806 -1.0419 -0.00058686 2.2971 0.0012938 563.2329241796867 71.125 0.49351 71.382 71.138 71.632 0.25786 98 45 3 0 0 0 0.010221 6 32545 32476;32498;32545;32587;32633;32684 81.613 57.593 1 1926500 20049 2093 12662 12710 23288;23289;23290;23291;23292;23293 23290 -0.1054155239667125 MPLEDMNEF 9 Unmodified _MPLEDMNEF_ 0 0 0 ENSG00000117748|ENST00000373912|RPA2;nc|ENSG00000117748|P15927-2|RPA2;nc|ENSG00000117748|P15927-3|RPA2 ENSG00000117748|ENST00000373912|RPA2 ENSG00000117748|ENST00000373912|RPA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.2351684570312 2 563.233193 1124.45183 3.0794 0.0017344 -0.64801 -0.00036498 2.4313 0.0013694 563.2333707651347 70.632 0.4798 71.294 71.029 71.508 0.66208 78 27 4 0 0 0 0.010221 3 32319 32319;32363;32407 81.613 54.729 1 1932400 20050 2093 12662 12710 23294;23295;23296 23294 -0.1054155239667125 MPLEEGDTF 9 Unmodified _MPLEEGDTF_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 519.7278442382812 2 519.726058 1037.43756 NaN NaN NaN NaN NaN NaN NaN 59.275 1 59.534 59.034 60.034 0.2593 0 0 0 0.097886 1 27144 27144 42.095 30.454 1 20051 5704 12663 12711 23297 23297 -0.07965881553309373 MPLEEGDTF 9 Unmodified _MPLEEGDTF_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 519.7286376953125 2 519.726058 1037.43756 3.4019 0.0017681 -0.49354 -0.0002565 2.9084 0.0015115 519.7259641308992 58.747 0.45979 59.414 59.184 59.644 0.66703 26 18 2 0 0 0 0.047285 2 26845 26845;26914 48.346 33.764 1 457580 20052 5704 12663 12711 23298;23299 23298 -0.07965881553309373 MPLEEGDTF 9 Unmodified _MPLEEGDTF_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1039.452880859375 1 1038.44484 1037.43756 3.567 0.0037042 0.0063935 6.6393E-06 3.5734 0.0037108 1038.4445956007178 58.775 0.30087 59.442 59.245 59.546 0.66703 13 11 2 0 0 0 0.7295 1 26907 26907 8.5933 0.68312 1 359320 20053 5704 12663 12711 23300 23300 -0.07965881553309373 MPLESSSSM 9 Unmodified _MPLESSSSM_ 0 0 0 ENSG00000179933|ENST00000319074|C14orf119 ENSG00000179933|ENST00000319074|C14orf119 ENSG00000179933|ENST00000319074|C14orf119 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.8412780761719 2 484.706811 967.399068 2.8647 0.0013885 0.87585 0.00042453 3.7405 0.0018131 484.707202738157 80.644 0.47215 80.893 80.687 81.159 0.24947 44 27 2 0 0 0 0.78763 1 37071 37071 3.9444 1.6417 1 549250 20054 5236 12664 12712 23301 23301 -0.08593510459468234 MPLESSSSM 9 Unmodified _MPLESSSSM_ 0 0 0 ENSG00000179933|ENST00000319074|C14orf119 ENSG00000179933|ENST00000319074|C14orf119 ENSG00000179933|ENST00000319074|C14orf119 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.7102355957031 2 484.706811 967.399068 3.2465 0.0015736 0.7951 0.00038539 4.0416 0.001959 484.70711893695824 80.13 0.40952 80.79 80.592 81.001 0.65998 44 27 2 0 0 0 0.59921 1 36907 36907 6.7232 0 1 534600 20055 5236 12664 12712 23302 23302 -0.08593510459468234 MPLGSAVDIL 10 Unmodified _MPLGSAVDIL_ 0 0 0 ENSG00000112118|ENST00000596288|MCM3;nc|ENSG00000112118|P25205-2|MCM3 ENSG00000112118|ENST00000596288|MCM3 ENSG00000112118|ENST00000596288|MCM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.2796325683594 2 508.27826 1014.54197 3.2528 0.0016533 -0.38613 -0.00019626 2.8667 0.0014571 508.2781006719114 83.599 0.39691 83.846 83.683 84.08 0.24722 65 26 3 0 0 0 0.01969 2 38487 38487;38538 74.423 42.117 1 1000100 20056 1792 12665 12713 23303;23304 23303 0.03527864994077845 MPLGSAVDIL 10 Unmodified _MPLGSAVDIL_ 0 0 0 ENSG00000112118|ENST00000596288|MCM3;nc|ENSG00000112118|P25205-2|MCM3 ENSG00000112118|ENST00000596288|MCM3 ENSG00000112118|ENST00000596288|MCM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.2799377441406 2 508.27826 1014.54197 3.4374 0.0017472 -0.31001 -0.00015757 3.1274 0.0015896 508.2780880520811 83.104 0.42351 83.764 83.555 83.978 0.66019 48 22 3 0 0 0 0.029124 2 38298 38254;38298 67.344 38.857 1 934530 20057 1792 12665 12713 23305;23306 23306 0.03527864994077845 MPLGSAVDIL 10 Unmodified _MPLGSAVDIL_ 0 0 0 ENSG00000112118|ENST00000596288|MCM3;nc|ENSG00000112118|P25205-2|MCM3 ENSG00000112118|ENST00000596288|MCM3 ENSG00000112118|ENST00000596288|MCM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1015.5537109375 1 1015.54924 1014.54197 3.7522 0.0038105 -0.12104 -0.00012292 3.6312 0.0036876 1015.5493387766567 83.122 0.19257 83.782 83.674 83.867 0.66019 18 10 2 0 0 0 0.19461 1 38262 38262 39.957 18.211 1 378400 20058 1792 12665 12713 23307 23307 0.03527864994077845 MPLLIAWG 8 Unmodified _MPLLIAWG_ 0 0 0 REV__ITPR3|p.R1536W|1|0.27|ENSG00000096433|chr6:33683215-33683215|C/T|missense_variant REV__ITPR3|p.R1536W|1|0.27|ENSG00000096433|chr6:33683215-33683215|C/T|missense_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.2760314941406 2 450.754224 899.493896 3.1131 0.0014032 0.77903 0.00035115 3.8921 0.0017544 450.75452699436556 88.683 0.3358 88.934 88.752 89.088 0.25118 40 14 3 0 0 0 0.14333 1 40756 40756 0.79363 0 1 3479100 + 20059 17748 12666 12714 23308 23308 0.040128358646711604 MPLLIAWG 8 Unmodified _MPLLIAWG_ 0 0 0 REV__ITPR3|p.R1536W|1|0.27|ENSG00000096433|chr6:33683215-33683215|C/T|missense_variant REV__ITPR3|p.R1536W|1|0.27|ENSG00000096433|chr6:33683215-33683215|C/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.75555419921875 2 450.754224 899.493896 3.228 0.001455 0.19331 8.7137E-05 3.4213 0.0015422 450.7543108741403 88.272 0.4306 88.95 88.747 89.178 0.67818 49 17 4 0 0 0 0.7471 1 40711 40711 0.79363 0 1 3902200 + 20060 17748 12666 12714 23309 23309 0.040128358646711604 MPLLKSEV 8 Unmodified _MPLLKSEV_ 0 0 0 ENST00000470611.5_1_1:11136930-11139812:-|nuORF;ENST00000474216.5_1_1:11137420-11140866:-|nuORF;nc|ENSG00000171824|Q01780-2|EXOSC10;ENSG00000171824|ENST00000376936|EXOSC10 ENST00000470611.5_1_1:11136930-11139812:-|nuORF ENST00000470611.5_1_1:11136930-11139812:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 458.763916015625 2 458.762246 915.50994 NaN NaN NaN NaN NaN NaN NaN 45.69 1 45.957 45.457 46.457 0.26768 0 0 0 0.87555 1 20888 20888 13.906 0 1 20061 4837 12667 12715 23310 23310 0.04880497310921328 MPLLLLSYL 9 Unmodified _MPLLLLSYL_ 0 0 0 ENST00000412716.7_1_12:51636901-51636967:+|nuORF ENST00000412716.7_1_12:51636901-51636967:+|nuORF ENST00000412716.7_1_12:51636901-51636967:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.8187255859375 2 531.817021 1061.61949 3.332 0.001772 -0.62566 -0.00033274 2.7063 0.0014393 531.8169149133302 80.867 1.4486 81.527 80.802 82.25 0.65998 140 94 3 0 0 0 1.1154 1 37109 37109 2.0598 0 1 1263900 20062 7683 12668 12716 23311 23311 0.09114502930242452 MPLLRQEEL 9 Unmodified _MPLLRQEEL_ 0 0 0 ENSG00000024422|ENST00000263277|EHD2;ENST00000540884.1_1_19:48232905-48244686:+|nuORF;nc|ENSG00000024422|Q9NZN4-2|EHD2 ENSG00000024422|ENST00000263277|EHD2 ENSG00000024422|ENST00000263277|EHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.8110961914062 2 564.807716 1127.60088 3.784 0.0021372 -0.48702 -0.00027507 3.2969 0.0018621 564.8076030866441 53.73 0.28909 53.73 53.629 53.918 0 43 19 3 0 0 0 0.0012577 2 24627 24627;24680 123.45 79.592 1 4349000 20063 474 12669 12717 23312;23313 23312 0.042183412884014615 MPLLRQEEL 9 Unmodified _MPLLRQEEL_ 0 0 0 ENSG00000024422|ENST00000263277|EHD2;ENST00000540884.1_1_19:48232905-48244686:+|nuORF;nc|ENSG00000024422|Q9NZN4-2|EHD2 ENSG00000024422|ENST00000263277|EHD2 ENSG00000024422|ENST00000263277|EHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.808837890625 2 564.807716 1127.60088 3.1837 0.0017982 -0.39145 -0.00022109 2.7922 0.0015771 564.807579155409 52.758 0.32437 53.562 53.362 53.687 0.80351 49 21 3 0 0 0 1.8233E-05 3 24043 23991;23999;24043 144.35 92.082 1 4149100 20064 474 12669 12717 23314;23315;23316 23316 0.042183412884014615 MPLLRQEEL 9 Unmodified _MPLLRQEEL_ 0 0 0 ENSG00000024422|ENST00000263277|EHD2;ENST00000540884.1_1_19:48232905-48244686:+|nuORF;nc|ENSG00000024422|Q9NZN4-2|EHD2 ENSG00000024422|ENST00000263277|EHD2 ENSG00000024422|ENST00000263277|EHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.8095092773438 2 564.807716 1127.60088 3.6169 0.0020428 -0.25873 -0.00014613 3.3581 0.0018967 564.8076377170548 53.542 0.37096 53.807 53.618 53.989 0.26462 56 17 4 0 0 0 0.00055091 3 24443 24443;24497;24553 131.27 87.409 1 14477000 20065 474 12669 12717 23317;23318;23319 23317 0.042183412884014615 MPLLRQEEL 9 Unmodified _MPLLRQEEL_ 0 0 0 ENSG00000024422|ENST00000263277|EHD2;ENST00000540884.1_1_19:48232905-48244686:+|nuORF;nc|ENSG00000024422|Q9NZN4-2|EHD2 ENSG00000024422|ENST00000263277|EHD2 ENSG00000024422|ENST00000263277|EHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.8095703125 2 564.807716 1127.60088 3.3939 0.0019169 -0.26285 -0.00014846 3.131 0.0017684 564.8076402861653 53.032 0.32122 53.696 53.52 53.841 0.6644 44 13 4 0 0 0 0.0012577 2 24267 24215;24267 123.45 71.182 1 15155000 20066 474 12669 12717 23320;23321 23321 0.042183412884014615 MPLNVADLI 9 Oxidation (M) _M(Oxidation (M))PLNVADLI_ M(1)PLNVADLI M(64)PLNVADLI 0 0 1 ENSG00000161960|ENST00000293831|EIF4A1;ENST00000581621.1_1_17:7481648-7481801:+|nuORF ENSG00000161960|ENST00000293831|EIF4A1 ENSG00000161960|ENST00000293831|EIF4A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.2717590332031 2 501.270435 1000.52632 3.2562 0.0016322 -0.70319 -0.00035249 2.553 0.0012797 501.2700580382915 84.635 0.30931 84.882 84.781 85.09 0.24757 33 16 3 0 0 0 0.023109 2 38995 38941;38995 64.236 24.279 1 1176800 20067 4112 12670 12718 23322;23323 23323 57 0.026075784770227983 MPLNVADLI 9 Oxidation (M) _M(Oxidation (M))PLNVADLI_ M(1)PLNVADLI M(55)PLNVADLI 0 0 1 ENSG00000161960|ENST00000293831|EIF4A1;ENST00000581621.1_1_17:7481648-7481801:+|nuORF ENSG00000161960|ENST00000293831|EIF4A1 ENSG00000161960|ENST00000293831|EIF4A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1001.5369873046875 1 1001.53359 1000.52632 3.5473 0.0035528 -1.0707 -0.0010723 2.4766 0.0024804 1001.5330014526386 84.654 0.24468 84.902 84.819 85.064 0.24758 22 11 3 0 0 0 0.032303 2 38947 38947;38992 54.774 23.505 1 936580 20068 4112 12670 12718 23324;23325 23324 57 0.026075784770227983 MPLNVADLI 9 Oxidation (M) _M(Oxidation (M))PLNVADLI_ M(1)PLNVADLI M(74)PLNVADLI 0 0 1 ENSG00000161960|ENST00000293831|EIF4A1;ENST00000581621.1_1_17:7481648-7481801:+|nuORF ENSG00000161960|ENST00000293831|EIF4A1 ENSG00000161960|ENST00000293831|EIF4A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.27130126953125 2 501.270435 1000.52632 3.3726 0.0016906 -0.098765 -4.9508E-05 3.2738 0.0016411 501.270378015238 84.142 0.24007 84.804 84.675 84.915 0.66219 24 11 3 0 0 0 0.015468 2 38743 38722;38743 74.423 24.49 1 946240 20069 4112 12670 12718 23326;23327 23327 57 0.026075784770227983 MPLNVADLI 9 Oxidation (M) _M(Oxidation (M))PLNVADLI_ M(1)PLNVADLI M(64)PLNVADLI 0 0 1 ENSG00000161960|ENST00000293831|EIF4A1;ENST00000581621.1_1_17:7481648-7481801:+|nuORF ENSG00000161960|ENST00000293831|EIF4A1 ENSG00000161960|ENST00000293831|EIF4A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1001.5358276367188 1 1001.53359 1000.52632 3.804 0.0038098 -0.060899 -6.0993E-05 3.7431 0.0037488 1001.5328506165997 84.118 0.22347 84.78 84.691 84.915 0.66219 19 10 3 0 0 0 0.023109 1 38750 38750 64.236 16.488 1 1262200 20070 4112 12670 12718 23328 23328 57 0.026075784770227983 MPLNVADLI 9 Unmodified _MPLNVADLI_ 0 0 0 ENSG00000161960|ENST00000293831|EIF4A1;ENST00000581621.1_1_17:7481648-7481801:+|nuORF ENSG00000161960|ENST00000293831|EIF4A1 ENSG00000161960|ENST00000293831|EIF4A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 985.5416870117188 1 985.53868 984.531403 4.1725 0.0041121 0.76328 0.00075225 4.9357 0.0048644 985.5391189817491 93.365 0.33669 93.62 93.43 93.767 0.25497 19 14 2 0 0 0 0.034495 2 42893 42893;42959 60.39 31.903 1 1061300 20071 4112 12670 12719 23329;23330 23329 0.03851882339631629 MPLNVADLI 9 Unmodified _MPLNVADLI_ 0 0 0 ENSG00000161960|ENST00000293831|EIF4A1;ENST00000581621.1_1_17:7481648-7481801:+|nuORF ENSG00000161960|ENST00000293831|EIF4A1 ENSG00000161960|ENST00000293831|EIF4A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.27496337890625 2 493.272978 984.531403 3.3952 0.0016747 0.25837 0.00012745 3.6535 0.0018022 493.2731735316982 92.748 0.42809 93.395 93.173 93.601 0.64715 62 23 4 0 0 0 0.0079462 2 42663 42613;42663 97.075 28.994 1 3832500 20072 4112 12670 12719 23331;23332 23332 0.03851882339631629 MPLNVADLI 9 Unmodified _MPLNVADLI_ 0 0 0 ENSG00000161960|ENST00000293831|EIF4A1;ENST00000581621.1_1_17:7481648-7481801:+|nuORF ENSG00000161960|ENST00000293831|EIF4A1 ENSG00000161960|ENST00000293831|EIF4A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 985.5425415039062 1 985.53868 984.531403 3.9082 0.0038517 -0.43792 -0.00043158 3.4703 0.0034201 985.5386529911456 92.784 0.2585 93.431 93.257 93.516 0.64715 35 14 3 0 0 0 0.053453 2 42641 42641;42681 60.39 24.263 1 1076100 20073 4112 12670 12719 23333;23334 23333 0.03851882339631629 MPLNVADLI 9 Unmodified _MPLNVADLI_ 0 0 0 ENSG00000161960|ENST00000293831|EIF4A1;ENST00000581621.1_1_17:7481648-7481801:+|nuORF ENSG00000161960|ENST00000293831|EIF4A1 ENSG00000161960|ENST00000293831|EIF4A1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 493.272978 984.531403 3.7858 0.0018674 0.74325 0.00036663 4.529 0.0022341 493.27334699585305 93.365 0.49214 93.62 93.353 93.845 0.25497 0.1122 0.00028145 NaN 97.075 48 24 2 NaN NaN NaN NaN 0 NaN NaN 0 4908200 20074 4112 12670 12719 0.03851882339631629 MPLQDSISL 9 Unmodified _MPLQDSISL_ 0 0 0 ENSG00000182446|ENST00000331134|NPLOC4;nc|ENSG00000182446|Q8TAT6-2|NPLOC4 ENSG00000182446|ENST00000331134|NPLOC4 ENSG00000182446|ENST00000331134|NPLOC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.2612609863281 2 502.260068 1002.50558 2.6178 0.0013148 0.57205 0.00028732 3.1899 0.0016021 502.2603680048049 71.459 0.39285 72.122 71.976 72.369 0.66324 52 26 3 0 0 0 0.097139 1 32795 32795 43.858 13.222 1 1209700 20075 5333 12671 12720 23335 23335 0.00442988097347552 MPLVKFVFI 9 Unmodified _MPLVKFVFI_ 0 0 0 REV__nc|ENSG00000165923|Q5U5Z8-2|AGBL2 REV__nc|ENSG00000165923|Q5U5Z8-2|AGBL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.2218017578125 3 365.220796 1092.64056 2.7824 0.0010162 0.31301 0.00011432 3.0954 0.0011305 365.2209295015445 12.967 0.21911 13.61 13.48 13.699 0.64272 11 6 2 0 0 0 1.101 1 5851 5851 1.1933 0 1 202570 + 20076 13198 12672 12721 23336 23336 0.09794513029783047 MPLVKFVFI 9 Unmodified _MPLVKFVFI_ 0 0 0 REV__nc|ENSG00000165923|Q5U5Z8-2|AGBL2 REV__nc|ENSG00000165923|Q5U5Z8-2|AGBL2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 365.220796 1092.64056 2.1459 0.00078372 0.61993 0.00022641 2.7658 0.0010101 365.2209861038337 13.335 0.17535 13.642 13.554 13.729 0.30727 0.016323 0.0001125 NaN 1.1933 18 13 2 NaN NaN NaN NaN 0 NaN NaN 0 108830 + 20077 13198 12672 12721 0.09794513029783047 MPLVKFVFI 9 Unmodified _MPLVKFVFI_ 0 0 0 REV__nc|ENSG00000165923|Q5U5Z8-2|AGBL2 REV__nc|ENSG00000165923|Q5U5Z8-2|AGBL2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 365.220796 1092.64056 2.7824 0.0010162 0.31301 0.00011432 3.0954 0.0011305 365.2209295015445 12.967 0.21911 13.61 13.48 13.699 0.64272 -0.016323 -0.00022378 NaN 1.1933 11 6 2 NaN NaN NaN NaN 0 NaN NaN 0 202570 + 20078 13198 12672 12721 0.09794513029783047 MPLVKSVTV 9 Unmodified _MPLVKSVTV_ 0 0 0 ERAP1|p.P833Hfs*12|1|0.14|ENSG00000164307|chr5:96781150-96781150|A/-|frameshift_variant;ENSG00000164307|ENST00000443439|ERAP1;nc|ENSG00000164307|Q9NZ08-2|ERAP1 ERAP1|p.P833Hfs*12|1|0.14|ENSG00000164307|chr5:96781150-96781150|A/-|frameshift_variant ERAP1|p.P833Hfs*12|1|0.14|ENSG00000164307|chr5:96781150-96781150|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.29168701171875 2 487.291171 972.567789 NaN NaN NaN NaN NaN NaN NaN 49.788 1 50.611 50.111 51.111 0.82285 0 0 0 0.60042 1 22681 22681 21.537 8.0291 1 20079 4304 12673 12722 23337 23337 0.08040759236348549 MPLVKSVTV 9 Unmodified _MPLVKSVTV_ 0 0 0 ERAP1|p.P833Hfs*12|1|0.14|ENSG00000164307|chr5:96781150-96781150|A/-|frameshift_variant;ENSG00000164307|ENST00000443439|ERAP1;nc|ENSG00000164307|Q9NZ08-2|ERAP1 ERAP1|p.P833Hfs*12|1|0.14|ENSG00000164307|chr5:96781150-96781150|A/-|frameshift_variant ERAP1|p.P833Hfs*12|1|0.14|ENSG00000164307|chr5:96781150-96781150|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2922058105469 2 487.291171 972.567789 3.0541 0.0014882 -0.59782 -0.00029131 2.4563 0.0011969 487.29091783559903 50.279 0.2523 50.541 50.415 50.668 0.26146 19 8 3 0 0 0 0.0026238 1 22963 22963 118.07 78.119 1 1752000 20080 4304 12673 12722 23338 23338 0.08040759236348549 MPLVKSVTV 9 Unmodified _MPLVKSVTV_ 0 0 0 ERAP1|p.P833Hfs*12|1|0.14|ENSG00000164307|chr5:96781150-96781150|A/-|frameshift_variant;ENSG00000164307|ENST00000443439|ERAP1;nc|ENSG00000164307|Q9NZ08-2|ERAP1 ERAP1|p.P833Hfs*12|1|0.14|ENSG00000164307|chr5:96781150-96781150|A/-|frameshift_variant ERAP1|p.P833Hfs*12|1|0.14|ENSG00000164307|chr5:96781150-96781150|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.2928466796875 2 487.291171 972.567789 3.2314 0.0015746 -0.52784 -0.00025721 2.7035 0.0013174 487.29088572682286 49.625 0.25916 50.282 50.141 50.4 0.65735 20 8 3 0 0 0 0.012813 1 22687 22687 96.111 96.111 1 1496600 20081 4304 12673 12722 23339 23339 0.08040759236348549 MPMGSLEHEGL 11 Unmodified _MPMGSLEHEGL_ 0 0 0 ENSG00000178685|ENST00000313028|PARP10 ENSG00000178685|ENST00000313028|PARP10 ENSG00000178685|ENST00000313028|PARP10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 600.7756958007812 2 600.773016 1199.53148 3.6237 0.002177 -0.25939 -0.00015584 3.3643 0.0020212 600.7730626433466 51.202 0.30257 51.202 51.048 51.35 0 40 14 4 0 0 0 4.7485E-15 2 23428 23428;23489 131.27 110.81 1 1749800 20082 5176 12674 12723 23340;23341 23340 -0.06030485722681078 MPMGSLEHEGL 11 Unmodified _MPMGSLEHEGL_ 0 0 0 ENSG00000178685|ENST00000313028|PARP10 ENSG00000178685|ENST00000313028|PARP10 ENSG00000178685|ENST00000313028|PARP10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 600.7750244140625 2 600.773016 1199.53148 3.4433 0.0020686 -0.25346 -0.00015227 3.1898 0.0019164 600.7729357682636 50.346 0.30636 51.169 51.021 51.327 0.82285 38 14 3 0 0 0 9.804800000000001E-20 2 22949 22898;22949 139.14 112.87 1 1457100 20083 5176 12674 12723 23342;23343 23343 -0.06030485722681078 MPMGSLEHEGL 11 Unmodified _MPMGSLEHEGL_ 0 0 0 ENSG00000178685|ENST00000313028|PARP10 ENSG00000178685|ENST00000313028|PARP10 ENSG00000178685|ENST00000313028|PARP10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 600.7756958007812 2 600.773016 1199.53148 3.5682 0.0021437 -0.57159 -0.0003434 2.9966 0.0018003 600.7730313929956 51.227 0.27841 51.488 51.306 51.584 0.26146 39 12 4 0 0 0 8.7233E-33 2 23415 23369;23415 166.45 138.82 1 3491900 20084 5176 12674 12723 23344;23345 23345 -0.06030485722681078 MPMGSLEHEGL 11 Unmodified _MPMGSLEHEGL_ 0 0 0 ENSG00000178685|ENST00000313028|PARP10 ENSG00000178685|ENST00000313028|PARP10 ENSG00000178685|ENST00000313028|PARP10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 600.7754516601562 2 600.773016 1199.53148 3.8109 0.0022895 -0.25319 -0.00015211 3.5577 0.0021374 600.7731298912212 50.544 0.36716 51.202 50.999 51.366 0.65735 63 18 4 0 0 0 1.7471000000000002E-25 3 23116 23068;23116;23169 155.03 122.24 1 3206800 20085 5176 12674 12723 23346;23347;23348 23347 -0.06030485722681078 MPMKVKQL 8 Unmodified _MPMKVKQL_ 0 0 0 ENSG00000155561|ENST00000285968|NUP205;NUP205|p.H1034Tfs*4|1|0.19|ENSG00000155561|chr7:135607274-135607274|T/-|frameshift_variant ENSG00000155561|ENST00000285968|NUP205 ENSG00000155561|ENST00000285968|NUP205 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 325.5235900878906 3 325.52237 973.545279 2.3161 0.00075395 0.014495 4.7184E-06 2.3306 0.00075867 325.5224660578828 26.78 0.31145 26.78 26.642 26.953 0 34 20 2 0 0 0 0.23254 2 12038 12038;12089 39.957 24.11 1 647010 20086 3868 12675 12724 23349;23350 23349 0.05744836567089351 MPMKVKQL 8 Unmodified _MPMKVKQL_ 0 0 0 ENSG00000155561|ENST00000285968|NUP205;NUP205|p.H1034Tfs*4|1|0.19|ENSG00000155561|chr7:135607274-135607274|T/-|frameshift_variant ENSG00000155561|ENST00000285968|NUP205 ENSG00000155561|ENST00000285968|NUP205 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.78167724609375 2 487.779916 973.545279 3.3252 0.001622 -0.077452 -3.7779E-05 3.2478 0.0015842 487.7797237070085 26.757 0.201 26.757 26.652 26.853 0 18 12 2 0 0 0 0.26384 1 12069 12069 38.151 13.477 1 270460 20087 3868 12675 12724 23351 23351 0.05744836567089351 MPMKVKQL 8 Unmodified _MPMKVKQL_ 0 0 0 ENSG00000155561|ENST00000285968|NUP205;NUP205|p.H1034Tfs*4|1|0.19|ENSG00000155561|chr7:135607274-135607274|T/-|frameshift_variant ENSG00000155561|ENST00000285968|NUP205 ENSG00000155561|ENST00000285968|NUP205 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 325.52301025390625 3 325.52237 973.545279 2.1816 0.00071016 0.14114 4.5944E-05 2.3228 0.00075611 325.52235520835063 25.824 0.35033 26.587 26.447 26.797 0.76356 35 21 2 0 0 0 0.23254 3 11585 11585;11632;11640 32.305 16.458 1 586220 20088 3868 12675 12724 23352;23353;23354 23352 0.05744836567089351 MPMKVKQL 8 Unmodified _MPMKVKQL_ 0 0 0 ENSG00000155561|ENST00000285968|NUP205;NUP205|p.H1034Tfs*4|1|0.19|ENSG00000155561|chr7:135607274-135607274|T/-|frameshift_variant ENSG00000155561|ENST00000285968|NUP205 ENSG00000155561|ENST00000285968|NUP205 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.7816467285156 2 487.779916 973.545279 3.0894 0.001507 -0.1997 -9.7412E-05 2.8897 0.0014096 487.7798895090178 25.844 0.25444 26.608 26.481 26.735 0.76357 18 14 2 0 0 0 0.37185 1 11615 11615 30.225 12.09 1 330680 20089 3868 12675 12724 23355 23355 0.05744836567089351 MPMKVKQL 8 Unmodified _MPMKVKQL_ 0 0 0 ENSG00000155561|ENST00000285968|NUP205;NUP205|p.H1034Tfs*4|1|0.19|ENSG00000155561|chr7:135607274-135607274|T/-|frameshift_variant ENSG00000155561|ENST00000285968|NUP205 ENSG00000155561|ENST00000285968|NUP205 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 325.52313232421875 3 325.52237 973.545279 2.3708 0.00077174 -0.23975 -7.8043E-05 2.131 0.00069369 325.5223716997347 26.488 0.34468 26.753 26.608 26.952 0.26489 59 25 3 0 0 0 0.23254 2 12020 12020;12069 32.305 16.458 1 1364400 20090 3868 12675 12724 23356;23357 23356 0.05744836567089351 MPMKVKQL 8 Unmodified _MPMKVKQL_ 0 0 0 ENSG00000155561|ENST00000285968|NUP205;NUP205|p.H1034Tfs*4|1|0.19|ENSG00000155561|chr7:135607274-135607274|T/-|frameshift_variant ENSG00000155561|ENST00000285968|NUP205 ENSG00000155561|ENST00000285968|NUP205 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.78179931640625 2 487.779916 973.545279 3.1391 0.0015312 -0.2828 -0.00013794 2.8563 0.0013933 487.77991863268886 26.514 0.27764 26.779 26.621 26.898 0.26489 41 20 3 0 0 0 0.017856 2 12040 12040;12088 89.427 51.276 1 547370 20091 3868 12675 12724 23358;23359 23358 0.05744836567089351 MPMKVKQL 8 Unmodified _MPMKVKQL_ 0 0 0 ENSG00000155561|ENST00000285968|NUP205;NUP205|p.H1034Tfs*4|1|0.19|ENSG00000155561|chr7:135607274-135607274|T/-|frameshift_variant ENSG00000155561|ENST00000285968|NUP205 ENSG00000155561|ENST00000285968|NUP205 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.78173828125 2 487.779916 973.545279 3.1054 0.0015148 -0.71318 -0.00034788 2.3922 0.0011669 487.7800553205706 26.142 0.29599 26.767 26.663 26.959 0.62505 47 17 4 0 0 0 0.009759 2 11999 11958;11999 101.72 63.571 1 734460 20092 3868 12675 12724 23360;23361 23361 0.05744836567089351 MPMKVKQL 8 Unmodified _MPMKVKQL_ 0 0 0 ENSG00000155561|ENST00000285968|NUP205;NUP205|p.H1034Tfs*4|1|0.19|ENSG00000155561|chr7:135607274-135607274|T/-|frameshift_variant ENSG00000155561|ENST00000285968|NUP205 ENSG00000155561|ENST00000285968|NUP205 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 325.5233154296875 3 325.52237 973.545279 2.1127 0.00068774 0.16804 5.4701E-05 2.2808 0.00074244 325.5225595775328 26.125 0.35519 26.75 26.624 26.979 0.62505 51 21 3 0 0 0 0.23254 2 12022 11970;12022 32.305 13.049 1 1093000 20093 3868 12675 12724 23362;23363 23363 0.05744836567089351 MPMNVADLI 9 Oxidation (M) _M(Oxidation (M))PMNVADLI_ M(0.863)PM(0.137)NVADLI M(8)PM(-8)NVADLI 0 0 1 ENSG00000141543|ENST00000649764|EIF4A3;ENSG00000156976|ENST00000323963|EIF4A2;nc|ENSG00000156976|Q14240-2|EIF4A2 ENSG00000141543|ENST00000649764|EIF4A3 ENSG00000141543|ENST00000649764|EIF4A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.75262451171875 2 510.248646 1018.48274 3.16 0.0016124 2.6398 0.0013469 5.7997 0.0029593 510.2490812889192 78.692 0.53265 78.943 78.754 79.287 0.25127 55 38 2 0 0 0 0.062556 1 36215 36215 42.095 22.656 2 874970 20094 3267 12676 12725 23364 23364 48 -0.02576354291750249 MPMNVADLI 9 Unmodified _MPMNVADLI_ 0 0 0 ENSG00000141543|ENST00000649764|EIF4A3;ENSG00000156976|ENST00000323963|EIF4A2;nc|ENSG00000156976|Q14240-2|EIF4A2 ENSG00000141543|ENST00000649764|EIF4A3 ENSG00000141543|ENST00000649764|EIF4A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.2544250488281 2 502.251188 1002.48782 3.4446 0.00173 -0.47181 -0.00023697 2.9728 0.0014931 502.25126154590146 87.573 0.36922 87.823 87.62 87.99 0.25064 44 15 4 0 0 0 0.0080831 2 40262 40262;40321 85.357 41.498 1 3826700 20095 3267 12676 12726 23365;23366 23365 -0.013320504291414181 MPMNVADLI 9 Unmodified _MPMNVADLI_ 0 0 0 ENSG00000141543|ENST00000649764|EIF4A3;ENSG00000156976|ENST00000323963|EIF4A2;nc|ENSG00000156976|Q14240-2|EIF4A2 ENSG00000141543|ENST00000649764|EIF4A3 ENSG00000141543|ENST00000649764|EIF4A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1003.4981079101562 1 1003.4951 1002.48782 3.7261 0.0037392 1.0354 0.001039 4.7615 0.0047782 1003.4960968288397 87.631 0.25616 87.882 87.67 87.926 0.25064 20 10 3 0 0 0 0.086747 1 40299 40299 36.044 22.138 1 967530 20096 3267 12676 12726 23367 23367 -0.013320504291414181 MPMNVADLI 9 Unmodified _MPMNVADLI_ 0 0 0 ENSG00000141543|ENST00000649764|EIF4A3;ENSG00000156976|ENST00000323963|EIF4A2;nc|ENSG00000156976|Q14240-2|EIF4A2 ENSG00000141543|ENST00000649764|EIF4A3 ENSG00000141543|ENST00000649764|EIF4A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.2536926269531 2 502.251188 1002.48782 3.3963 0.0017058 -0.58674 -0.00029469 2.8095 0.0014111 502.2512361756361 87.063 0.3984 87.739 87.514 87.912 0.67555 43 17 4 0 0 0 0.0026885 2 40123 40073;40123 97.075 44.806 1 3120600 20097 3267 12676 12726 23368;23369 23369 -0.013320504291414181 MPMTPGAAL 9 Unmodified _MPMTPGAAL_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 444.72039794921875 2 444.719524 887.424495 NaN NaN NaN NaN NaN NaN NaN 58.27 1 59.029 58.529 59.529 0.75894 0 0 0 0.085491 1 26722 26722 44.407 10.22 1 20098 5547 12677 12727 23370 23370 -0.023719911463899734 MPMTPGAAL 9 Unmodified _MPMTPGAAL_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 444.7203674316406 2 444.719524 887.424495 2.8522 0.0012684 -0.83536 -0.0003715 2.0168 0.00089693 444.7195571726564 58.77 0.37462 59.032 58.944 59.319 0.26228 54 23 4 0 0 0 0.0077156 2 26914 26914;26962 86.121 51.934 1 1755200 20099 5547 12677 12727 23371;23372 23371 -0.023719911463899734 MPMTPGAAL 9 Oxidation (M) _M(Oxidation (M))PMTPGAAL_ M(0.892)PM(0.108)TPGAAL M(9.2)PM(-9.2)TPGAAL 0 0 1 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 452.718505859375 2 452.716981 903.41941 3.0929 0.0014002 -0.23168 -0.00010489 2.8613 0.0012953 452.7170499608897 46.81 0.36953 47.462 47.167 47.537 0.65219 14 11 2 0 0 0 0.035095 1 21440 21440 53.576 19.388 2 283160 20100 5547 12677 12728 23373 23373 70 -0.036162950089988044 MPMVTDNKM 9 Unmodified _MPMVTDNKM_ 0 0 0 nc|ENSG00000175054|Q13535-2|ATR;nc|ENSG00000175054|Q13535-3|ATR;ENSG00000175054|ENST00000350721|ATR nc|ENSG00000175054|Q13535-2|ATR nc|ENSG00000175054|Q13535-2|ATR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.7416381835938 2 533.740131 1065.46571 3.1801 0.0016973 -0.21136 -0.00011281 2.9687 0.0015845 534.2412143169065 37.201 0.34824 37.462 37.252 37.6 0.26083 16 10 2 0 0 0 0.22824 1 16980 16980 21.537 12.154 1 309950 20101 5010 12678 12729 23374 23374 -0.06440598169228906 MPMVTDNKM 9 Unmodified _MPMVTDNKM_ 0 0 0 nc|ENSG00000175054|Q13535-2|ATR;nc|ENSG00000175054|Q13535-3|ATR;ENSG00000175054|ENST00000350721|ATR nc|ENSG00000175054|Q13535-2|ATR nc|ENSG00000175054|Q13535-2|ATR MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 533.740131 1065.46571 3.1391 0.0016755 1.1733 0.00062623 4.3124 0.0023017 533.7408555978966 37.351 0.13441 37.351 37.244 37.378 0 0.025145 0.0014333 NaN 21.537 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 274370 20102 5010 12678 12729 -0.06440598169228906 MPMVTDNKM 9 Unmodified _MPMVTDNKM_ 0 0 0 nc|ENSG00000175054|Q13535-2|ATR;nc|ENSG00000175054|Q13535-3|ATR;ENSG00000175054|ENST00000350721|ATR nc|ENSG00000175054|Q13535-2|ATR nc|ENSG00000175054|Q13535-2|ATR MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 533.740131 1065.46571 3.342 0.0017838 -0.74565 -0.00039799 2.5963 0.0013858 533.7404238751685 36.534 0.26617 37.164 37.014 37.28 0.62999 -0.16148 -0.00061514 NaN 21.537 21 10 3 NaN NaN NaN NaN 0 NaN NaN 0 225070 20103 5010 12678 12729 -0.06440598169228906 MPNENIPEL 9 Unmodified _MPNENIPEL_ 0 0 0 ENST00000460499.5_1_2:27659579-27664676:+|nuORF;ENSG00000115216|ENST00000379852|NRBP1 ENST00000460499.5_1_2:27659579-27664676:+|nuORF ENST00000460499.5_1_2:27659579-27664676:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.7562866210938 2 528.755149 1055.49575 NaN NaN NaN NaN NaN NaN NaN 62.899 1 63.149 62.649 63.649 0.24965 0 0 0 0.078562 1 28805 28805 45.7 9.5726 1 20104 1952 12679 12730 23375 23375 -0.029781999080341848 MPNLDSVTL 9 Unmodified _MPNLDSVTL_ 0 0 0 nc|ENSG00000133103|Q9Y2V7-2|COG6;ENSG00000133103|ENST00000455146|COG6 nc|ENSG00000133103|Q9Y2V7-2|COG6 nc|ENSG00000133103|Q9Y2V7-2|COG6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.2556457519531 2 495.252243 988.489932 2.628 0.0013015 1.0173 0.00050381 3.6453 0.0018054 495.2532724216997 73.136 0.26888 73.835 73.721 73.99 0.69881 45 25 2 0 0 0 0.034495 1 35282 35282 53.833 11.738 1 1550000 20105 2749 12680 12731 23376 23376 -0.004772984196847574 MPNLDSVTL 9 Unmodified _MPNLDSVTL_ 0 0 0 nc|ENSG00000133103|Q9Y2V7-2|COG6;ENSG00000133103|ENST00000455146|COG6 nc|ENSG00000133103|Q9Y2V7-2|COG6 nc|ENSG00000133103|Q9Y2V7-2|COG6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.7516174316406 2 495.252243 988.489932 2.9187 0.0014455 0.14947 7.4025E-05 3.0682 0.0015195 495.2523663352943 73.742 0.36287 74 73.828 74.191 0.25876 51 37 2 0 0 0 0.26277 1 33863 33863 19.257 2.1441 1 789540 20106 2749 12680 12731 23377 23377 -0.004772984196847574 MPNTLTEAEKL 11 Unmodified _MPNTLTEAEKL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 623.8240356445312 2 623.821021 1245.62749 NaN NaN NaN NaN NaN NaN NaN 50.593 1 50.854 50.354 51.354 0.26146 0 0 0 0.96196 1 23124 23124 10.315 6.7187 1 20107 1960 12681 12732 23378 23378 0.01449985389081121 MPNTLTEAEKL 11 Unmodified _MPNTLTEAEKL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 623.8221435546875 2 623.821021 1245.62749 3.7194 0.0023202 0.37608 0.00023461 4.0954 0.0025548 623.8214622930128 49.803 0.27887 50.46 50.419 50.698 0.65735 17 11 2 0 0 0 0.10555 1 22816 22816 41.347 26.942 1 476230 20108 1960 12681 12732 23379 23379 0.01449985389081121 MPNTLTEAEKL 11 Unmodified _MPNTLTEAEKL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 623.7265625 2 623.821021 1245.62749 NaN NaN NaN NaN NaN NaN NaN 49.663 1 50.32 49.82 50.82 0.65735 0 0 0 1.0052 1 22716 22716 3.8763 0.59502 1 20109 1960 12681 12732 23380 23380 0.01449985389081121 MPNVKVAVF 9 Unmodified _MPNVKVAVF_ 0 0 0 ENSG00000198563|ENST00000396172|DDX39B;nc|ENSG00000198563|Q13838-2|DDX39B;DDX39B|p.A178*|1|0.23|ENSG00000198563|chr6:31536585-31536586|-/AG|frameshift_variant;ENST00000481456.1_1_6:31503008-31508408:-|nuORF ENSG00000198563|ENST00000396172|DDX39B ENSG00000198563|ENST00000396172|DDX39B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.7856750488281 2 502.783513 1003.55247 3.2589 0.0016385 -0.74516 -0.00037465 2.5138 0.0012639 502.7836050913334 59.805 0.30374 60.47 60.325 60.628 0.66503 30 14 3 0 0 0 0.02234 2 27359 27359;27410 65.235 49.388 1 1013600 20110 5901 12682 12733 23381;23382 23381 0.05083892439165538 MPNVKVAVF 9 Unmodified _MPNVKVAVF_ 0 0 0 ENSG00000198563|ENST00000396172|DDX39B;nc|ENSG00000198563|Q13838-2|DDX39B;DDX39B|p.A178*|1|0.23|ENSG00000198563|chr6:31536585-31536586|-/AG|frameshift_variant;ENST00000481456.1_1_6:31503008-31508408:-|nuORF ENSG00000198563|ENST00000396172|DDX39B ENSG00000198563|ENST00000396172|DDX39B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 502.783513 1003.55247 3.2541 0.0016361 0.046864 2.3563E-05 3.301 0.0016597 502.78355357154186 60.453 0.20643 60.709 60.526 60.732 0.25578 0.11931 0.00036532 NaN 65.235 20 12 3 NaN NaN NaN NaN 0 NaN NaN 0 1576300 20111 5901 12682 12733 0.05083892439165538 MPPHPGPPPYF 11 Unmodified _MPPHPGPPPYF_ 0 0 0 REV__ENSG00000089486|ENST00000567695|CDIP1 REV__ENSG00000089486|ENST00000567695|CDIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 618.7966918945312 2 618.797152 1235.57975 3.2743 0.0020261 1.6851 0.0010427 4.9594 0.0030689 618.7973032752498 79.274 0.1815 79.274 79.194 79.376 0 22 16 2 0 0 0 0.71024 1 39201 39201 10.824 1.4408 1 7825600 + 20112 10699 12683 12734 23383 23383 -0.028616240204655696 MPQDLSEAL 9 Unmodified _MPQDLSEAL_ 0 0 0 ENSG00000100292|ENST00000216117|HMOX1;HMOX1|p.E81Afs*57|1|0.17|ENSG00000100292|chr22:35386781-35386788|GAAGAGCT/-|frameshift_variant ENSG00000100292|ENST00000216117|HMOX1 ENSG00000100292|ENST00000216117|HMOX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.7486877441406 2 502.241875 1002.4692 3.2405 0.0016275 1.2929 0.00064935 4.5334 0.0022769 502.24243587708025 60.988 0.23293 61.243 61.154 61.387 0.25578 13 9 2 0 0 0 0.21008 1 27931 27931 22.736 4.6013 1 328590 20113 1201 12684 12735 23384 23384 -0.03193888799353317 MPQEEQEL 8 Unmodified _MPQEEQEL_ 0 0 0 ENSG00000204256|ENST00000374825|BRD2;nc|ENSG00000204256|P25440-2|BRD2;nc|ENSG00000204256|P25440-4|BRD2;nc|ENSG00000204256|P25440-3|BRD2 ENSG00000204256|ENST00000374825|BRD2 ENSG00000204256|ENST00000374825|BRD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.2255554199219 2 502.223682 1002.43281 2.9505 0.0014818 1.2157 0.00061055 4.1661 0.0020923 502.2242206799527 35.817 0.30618 35.817 35.703 36.009 0 29 17 2 0 0 0 0.05432 1 16278 16278 64.236 19.829 1 801900 20114 5994 12685 12736 23385 23385 -0.06830765696065555 MPQEEQEL 8 Unmodified _MPQEEQEL_ 0 0 0 ENSG00000204256|ENST00000374825|BRD2;nc|ENSG00000204256|P25440-2|BRD2;nc|ENSG00000204256|P25440-4|BRD2;nc|ENSG00000204256|P25440-3|BRD2 ENSG00000204256|ENST00000374825|BRD2 ENSG00000204256|ENST00000374825|BRD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 502.72674560546875 2 502.223682 1002.43281 3.0402 0.0015269 0.31951 0.00016046 3.3597 0.0016873 502.2239646518999 34.907 0.32775 35.696 35.568 35.896 0.78921 44 21 3 0 0 0 0.29142 1 15812 15812 36.127 2.0246 1 480050 20115 5994 12685 12736 23386 23386 -0.06830765696065555 MPQEEQEL 8 Unmodified _MPQEEQEL_ 0 0 0 ENSG00000204256|ENST00000374825|BRD2;nc|ENSG00000204256|P25440-2|BRD2;nc|ENSG00000204256|P25440-4|BRD2;nc|ENSG00000204256|P25440-3|BRD2 ENSG00000204256|ENST00000374825|BRD2 ENSG00000204256|ENST00000374825|BRD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.22625732421875 2 502.223682 1002.43281 3.1967 0.0016055 0.02716 1.3641E-05 3.2239 0.0016191 502.22405813429236 35.779 0.49132 36.034 35.777 36.268 0.25524 33 19 3 0 0 0 0.17174 1 16280 16280 46.021 1.6139 1 467310 20116 5994 12685 12736 23387 23387 -0.06830765696065555 MPQEEQEL 8 Unmodified _MPQEEQEL_ 0 0 0 ENSG00000204256|ENST00000374825|BRD2;nc|ENSG00000204256|P25440-2|BRD2;nc|ENSG00000204256|P25440-4|BRD2;nc|ENSG00000204256|P25440-3|BRD2 ENSG00000204256|ENST00000374825|BRD2 ENSG00000204256|ENST00000374825|BRD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.2256164550781 2 502.223682 1002.43281 3.3043 0.0016595 0.49851 0.00025036 3.8028 0.0019098 502.22389735067725 35.411 0.32425 36.037 35.842 36.167 0.62631 16 9 2 0 0 0 0.26626 1 16207 16207 37.974 5.6685 1 414520 20117 5994 12685 12736 23388 23388 -0.06830765696065555 MPQKERESI 9 Unmodified _MPQKERESI_ 0 0 0 ENSG00000141543|ENST00000649764|EIF4A3;ENST00000575978.1_1_17:78111144-78112096:-|nuORF ENSG00000141543|ENST00000649764|EIF4A3 ENSG00000141543|ENST00000649764|EIF4A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 373.528564453125 3 373.193858 1116.55974 2.9284 0.0010929 -0.4487 -0.00016745 2.4797 0.0009254 373.1936744905069 12.817 0.42811 12.817 12.747 13.175 0 38 21 2 0 0 0 0.061685 1 5604 5604 42.312 19.538 1 2512500 20118 3267 12686 12737 23389 23389 0.0061258024893504626 MPQKERESI 9 Unmodified _MPQKERESI_ 0 0 0 ENSG00000141543|ENST00000649764|EIF4A3;ENST00000575978.1_1_17:78111144-78112096:-|nuORF ENSG00000141543|ENST00000649764|EIF4A3 ENSG00000141543|ENST00000649764|EIF4A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 373.1949157714844 3 373.193858 1116.55974 1.9476 0.00072684 0.12183 4.5467E-05 2.0694 0.00077231 373.19387926445376 12.6 0.091236 12.861 12.818 12.909 0.26154 14 10 2 0 0 0 0.025529 1 5466 5466 61.09 28.192 1 5367600 20119 3267 12686 12737 23390 23390 0.0061258024893504626 MPQKERESI 9 Unmodified _MPQKERESI_ 0 0 0 ENSG00000141543|ENST00000649764|EIF4A3;ENST00000575978.1_1_17:78111144-78112096:-|nuORF ENSG00000141543|ENST00000649764|EIF4A3 ENSG00000141543|ENST00000649764|EIF4A3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.5504150390625 3 373.193858 1116.55974 1.9989 0.00074599 -0.091755 -3.4242E-05 1.9072 0.00071174 373.19368376496396 12.558 0.23841 12.865 12.819 13.058 0.30727 20 7 3 0 0 0 0.098276 1 5694 5694 11.518 6.4704 1 3400400 20120 3267 12686 12737 23391 23391 0.0061258024893504626 MPQKERESI 9 Unmodified _MPQKERESI_ 0 0 0 ENSG00000141543|ENST00000649764|EIF4A3;ENST00000575978.1_1_17:78111144-78112096:-|nuORF ENSG00000141543|ENST00000649764|EIF4A3 ENSG00000141543|ENST00000649764|EIF4A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 373.1947937011719 3 373.193858 1116.55974 2.9891 0.0011155 -0.5033 -0.00018783 2.4858 0.00092769 373.1936743953306 12.504 0.25256 13.147 13.092 13.345 0.64272 11 7 3 0 0 0 0.59333 2 5630 5630;5654 10.899 3.6934 1 1676800 20121 3267 12686 12737 23392;23393 23392 0.0061258024893504626 MPQKERESIM 10 Unmodified _MPQKERESIM_ 0 0 0 ENSG00000141543|ENST00000649764|EIF4A3;ENST00000575978.1_1_17:78111144-78112096:-|nuORF ENSG00000141543|ENST00000649764|EIF4A3 ENSG00000141543|ENST00000649764|EIF4A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 416.8749694824219 3 416.874019 1247.60023 2.8612 0.0011928 0.11101 4.6278E-05 2.9722 0.001239 416.87406935822725 19.632 0.39566 19.632 19.575 19.97 0 49 33 2 0 0 0 0.2848 2 8755 8755;8835 29.281 18.382 1 2279800 20122 3267 12687 12738 23394;23395 23394 -0.013668214229483056 MPQKERESIM 10 Unmodified _MPQKERESIM_ 0 0 0 ENSG00000141543|ENST00000649764|EIF4A3;ENST00000575978.1_1_17:78111144-78112096:-|nuORF ENSG00000141543|ENST00000649764|EIF4A3 ENSG00000141543|ENST00000649764|EIF4A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 416.8748779296875 3 416.874019 1247.60023 2.7696 0.0011546 -0.39362 -0.00016409 2.376 0.00099049 416.8738817826897 19.204 0.33733 19.502 19.405 19.742 0.29753 83 34 3 0 0 0 0.30981 3 8752 8703;8752;8798 28.181 16.663 1 1317900 20123 3267 12687 12738 23396;23397;23398 23397 -0.013668214229483056 MPQKERESIM 10 Unmodified _MPQKERESIM_ 0 0 0 ENSG00000141543|ENST00000649764|EIF4A3;ENST00000575978.1_1_17:78111144-78112096:-|nuORF ENSG00000141543|ENST00000649764|EIF4A3 ENSG00000141543|ENST00000649764|EIF4A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 417.21075439453125 3 416.874019 1247.60023 3.0908 0.0012885 0.067558 2.8163E-05 3.1584 0.0013167 416.87407109504716 18.701 0.49311 19.362 19.237 19.73 0.66072 68 41 2 0 0 0 0.071652 4 8446 8446;8473;8495;8544 57.108 43.589 1 1011000 20124 3267 12687 12738 23399;23400;23401;23402 23399 -0.013668214229483056 MPQSMPEYAL 10 Unmodified _MPQSMPEYAL_ 0 0 0 LONP2|p.L685Qfs*5|1|0.06|ENSG00000102910|chr16:48347621-48347622|-/AAAGTCCTTGT|frameshift_variant;nc|ENSG00000102910|Q86WA8-2|LONP2;ENSG00000102910|ENST00000285737|LONP2 LONP2|p.L685Qfs*5|1|0.06|ENSG00000102910|chr16:48347621-48347622|-/AAAGTCCTTGT|frameshift_variant LONP2|p.L685Qfs*5|1|0.06|ENSG00000102910|chr16:48347621-48347622|-/AAAGTCCTTGT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.76708984375 2 583.76466 1165.51477 3.4256 0.0019997 -0.41446 -0.00024194 3.0112 0.0017578 583.7646404761434 64.646 0.38987 64.894 64.817 65.207 0.24803 81 34 3 0 0 0 0.014734 3 29597 29597;29644;29689 86.332 50.205 1 4992800 20125 1361 12688 12739 23403;23404;23405 23403 -0.0613698660861246 MPQSMPEYAL 10 Unmodified _MPQSMPEYAL_ 0 0 0 LONP2|p.L685Qfs*5|1|0.06|ENSG00000102910|chr16:48347621-48347622|-/AAAGTCCTTGT|frameshift_variant;nc|ENSG00000102910|Q86WA8-2|LONP2;ENSG00000102910|ENST00000285737|LONP2 LONP2|p.L685Qfs*5|1|0.06|ENSG00000102910|chr16:48347621-48347622|-/AAAGTCCTTGT|frameshift_variant LONP2|p.L685Qfs*5|1|0.06|ENSG00000102910|chr16:48347621-48347622|-/AAAGTCCTTGT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.7661743164062 2 583.76466 1165.51477 NaN NaN NaN NaN NaN NaN NaN 64.199 1 64.855 64.355 65.355 0.65672 0 0 0 0.057365 1 29428 29428 76.825 40.698 1 20126 1361 12688 12739 23406 23406 -0.0613698660861246 MPQSMPEYAL 10 Unmodified _MPQSMPEYAL_ 0 0 0 LONP2|p.L685Qfs*5|1|0.06|ENSG00000102910|chr16:48347621-48347622|-/AAAGTCCTTGT|frameshift_variant;nc|ENSG00000102910|Q86WA8-2|LONP2;ENSG00000102910|ENST00000285737|LONP2 LONP2|p.L685Qfs*5|1|0.06|ENSG00000102910|chr16:48347621-48347622|-/AAAGTCCTTGT|frameshift_variant LONP2|p.L685Qfs*5|1|0.06|ENSG00000102910|chr16:48347621-48347622|-/AAAGTCCTTGT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.7669677734375 2 583.76466 1165.51477 NaN NaN NaN NaN NaN NaN NaN 64.299 1 64.956 64.456 65.456 0.65672 0 0 0 0.094737 1 29477 29477 55.503 26.421 1 20127 1361 12688 12739 23407 23407 -0.0613698660861246 MPRHLAEEHSI 11 Unmodified _MPRHLAEEHSI_ 0 0 0 REV__ENSG00000180988|ENST00000317037|OR52N2 REV__ENSG00000180988|ENST00000317037|OR52N2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 660.3323974609375 2 660.329879 1318.6452 3.7417 0.0024708 -0.88244 -0.0005827 2.8593 0.0018881 660.3296257532368 43.236 0.076199 43.507 43.451 43.527 0.27021 13 7 2 0 0 0 0.12301 1 19744 19744 38.176 13.294 1 1029900 + 20128 13838 12689 12740 23408 23408 -0.0013725456542488246 MPRIKELVDLI 11 Unmodified _MPRIKELVDLI_ 0 0 0 REV__MED12L|p.Y484Sfs*2|1|0.03|ENSG00000144893|chr3:151165935-151165936|CT/-|frameshift_variant REV__MED12L|p.Y484Sfs*2|1|0.03|ENSG00000144893|chr3:151165935-151165936|CT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.9005737304688 2 663.894323 1325.77409 4.4501 0.0029544 1.4161 0.00094015 5.8662 0.0038946 663.8949656414477 94.585 0.66898 94.845 94.569 95.238 0.25975 63 37 2 0 0 0 0.91345 1 43505 43505 0.30703 0 1 861090 + 20129 12420 12690 12741 23409 23409 0.12423707344851209 MPRIKELVDLI 11 Unmodified _MPRIKELVDLI_ 0 0 0 REV__MED12L|p.Y484Sfs*2|1|0.03|ENSG00000144893|chr3:151165935-151165936|CT/-|frameshift_variant REV__MED12L|p.Y484Sfs*2|1|0.03|ENSG00000144893|chr3:151165935-151165936|CT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.897216796875 2 663.894323 1325.77409 4.1369 0.0027464 0.95514 0.00063412 5.092 0.0033806 663.8950744037554 92.938 0.46426 93.585 93.345 93.809 0.64714 59 24 3 0 0 0 0.91345 1 42857 42857 0.30703 0 1 1705000 + 20130 12420 12690 12741 23410 23410 0.12423707344851209 MPSASMTRL 9 Unmodified _MPSASMTRL_ 0 0 0 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;nc|ENSG00000104419|Q92597-3|NDRG1;ENST00000519278.5_1_8:134251123-134266883:-|nuORF;nc|ENSG00000103034|Q9ULP0-2|NDRG4;nc|ENSG00000103034|Q9ULP0-8|NDRG4;nc|ENSG00000103034|Q9ULP0-5|NDRG4;nc|ENSG00000103034|Q9ULP0-7|NDRG4;nc|ENSG00000103034|Q9ULP0-3|NDRG4;nc|ENSG00000103034|Q9ULP0-6|NDRG4 ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 497.2479553222656 2 497.246437 992.478322 3.069 0.001526 -0.21702 -0.00010791 2.8519 0.0014181 497.2465315661326 40.333 0.34045 40.333 40.172 40.512 0 25 11 3 0 0 0 0.00143 2 18282 18282;18347 110.67 53.203 1 1587700 20131 1438 12691 12742 23411;23412 23411 -0.018218187146771925 MPSASMTRL 9 Unmodified _MPSASMTRL_ 0 0 0 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;nc|ENSG00000104419|Q92597-3|NDRG1;ENST00000519278.5_1_8:134251123-134266883:-|nuORF;nc|ENSG00000103034|Q9ULP0-2|NDRG4;nc|ENSG00000103034|Q9ULP0-8|NDRG4;nc|ENSG00000103034|Q9ULP0-5|NDRG4;nc|ENSG00000103034|Q9ULP0-7|NDRG4;nc|ENSG00000103034|Q9ULP0-3|NDRG4;nc|ENSG00000103034|Q9ULP0-6|NDRG4 ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 497.24786376953125 2 497.246437 992.478322 3.0925 0.0015378 -0.27741 -0.00013794 2.8151 0.0013998 497.2463666465507 39.302 0.42752 40.1 39.873 40.301 0.79762 46 19 3 0 0 0 0.035495 2 17809 17758;17809 53.404 25.231 1 1043200 20132 1438 12691 12742 23413;23414 23414 -0.018218187146771925 MPSASMTRL 9 Unmodified _MPSASMTRL_ 0 0 0 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;nc|ENSG00000104419|Q92597-3|NDRG1;ENST00000519278.5_1_8:134251123-134266883:-|nuORF;nc|ENSG00000103034|Q9ULP0-2|NDRG4;nc|ENSG00000103034|Q9ULP0-8|NDRG4;nc|ENSG00000103034|Q9ULP0-5|NDRG4;nc|ENSG00000103034|Q9ULP0-7|NDRG4;nc|ENSG00000103034|Q9ULP0-3|NDRG4;nc|ENSG00000103034|Q9ULP0-6|NDRG4 ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.750244140625 2 497.246437 992.478322 3.3453 0.0016634 -0.29564 -0.00014701 3.0497 0.0015164 497.24652708990595 40.155 0.31447 40.422 40.295 40.609 0.26696 27 12 3 0 0 0 0.0095519 2 18243 18243;18294 82.529 40.435 1 1641000 20133 1438 12691 12742 23415;23416 23415 -0.018218187146771925 MPSASMTRL 9 Unmodified _MPSASMTRL_ 0 0 0 ENSG00000104419|ENST00000323851|NDRG1;nc|ENSG00000104419|Q92597-2|NDRG1;nc|ENSG00000104419|Q92597-3|NDRG1;ENST00000519278.5_1_8:134251123-134266883:-|nuORF;nc|ENSG00000103034|Q9ULP0-2|NDRG4;nc|ENSG00000103034|Q9ULP0-8|NDRG4;nc|ENSG00000103034|Q9ULP0-5|NDRG4;nc|ENSG00000103034|Q9ULP0-7|NDRG4;nc|ENSG00000103034|Q9ULP0-3|NDRG4;nc|ENSG00000103034|Q9ULP0-6|NDRG4 ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.2481994628906 2 497.246437 992.478322 3.405 0.0016931 -0.80729 -0.00040142 2.5977 0.0012917 497.24637276985237 39.661 0.33001 40.298 40.174 40.504 0.63778 31 16 4 0 0 0 0.016529 2 18119 18119;18175 72.968 44.795 1 1610000 20134 1438 12691 12742 23417;23418 23417 -0.018218187146771925 MPSDVLEVT 9 Unmodified _MPSDVLEVT_ 0 0 0 ENSG00000161960|ENST00000293831|EIF4A1;ENST00000578324.5_1_17:7477602-7481249:+|nuORF;nc|ENSG00000161960|P60842-2|EIF4A1;ENST00000581621.1_1_17:7476159-7481249:+|nuORF;ENST00000577731.1_1_17:7478540-7480862:+|nuORF;ENST00000581544.5_1_17:7477924-7481249:+|nuORF ENSG00000161960|ENST00000293831|EIF4A1 ENSG00000161960|ENST00000293831|EIF4A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.745849609375 2 495.74425 989.473948 3.2534 0.0016128 -0.19458 -9.6463E-05 3.0588 0.0015164 495.7443674031269 60.302 0.29638 60.558 60.399 60.696 0.25578 33 14 3 0 0 0 0.032303 1 27619 27619 54.774 20.671 1 1158900 20135 4112 12692 12743 23419 23419 -0.021210046566011442 MPSDVLEVT 9 Unmodified _MPSDVLEVT_ 0 0 0 ENSG00000161960|ENST00000293831|EIF4A1;ENST00000578324.5_1_17:7477602-7481249:+|nuORF;nc|ENSG00000161960|P60842-2|EIF4A1;ENST00000581621.1_1_17:7476159-7481249:+|nuORF;ENST00000577731.1_1_17:7478540-7480862:+|nuORF;ENST00000581544.5_1_17:7477924-7481249:+|nuORF ENSG00000161960|ENST00000293831|EIF4A1 ENSG00000161960|ENST00000293831|EIF4A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.74517822265625 2 495.74425 989.473948 3.2243 0.0015985 -0.31803 -0.00015766 2.9063 0.0014408 495.7441957687461 59.765 0.29682 60.43 60.274 60.571 0.66503 30 14 3 0 0 0 0.16976 1 27393 27393 25.399 4.9457 1 1308700 20136 4112 12692 12743 23420 23420 -0.021210046566011442 MPSEDVVSL 9 Unmodified _MPSEDVVSL_ 0 0 0 ENSG00000069329|ENST00000299138|VPS35;ENST00000568784.6_1_16:46694386-46722246:-|nuORF ENSG00000069329|ENST00000299138|VPS35 ENSG00000069329|ENST00000299138|VPS35 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 976.466552734375 1 976.465574 975.458298 3.1565 0.0030823 -0.34812 -0.00033993 2.8084 0.0027423 976.4655425265405 61.103 0.21838 61.843 61.786 62.005 0.7396 34 25 2 0 0 0 0.0080831 2 28283 28283;28336 85.357 21.12 1 3083800 20137 749 12693 12744 23421;23422 23421 -0.030412911736448223 MPSEDVVSL 9 Unmodified _MPSEDVVSL_ 0 0 0 ENSG00000069329|ENST00000299138|VPS35;ENST00000568784.6_1_16:46694386-46722246:-|nuORF ENSG00000069329|ENST00000299138|VPS35 ENSG00000069329|ENST00000299138|VPS35 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 976.4696044921875 1 976.465574 975.458298 3.6084 0.0035234 -0.064772 -6.3247E-05 3.5436 0.0034602 976.465957972818 61.857 0.39913 62.11 61.964 62.363 0.25245 43 22 2 0 0 0 0.0080831 3 28337 28295;28337;28393 85.357 21.12 1 4217300 20138 749 12693 12744 23423;23424;23425 23424 -0.030412911736448223 MPSEDVVSL 9 Unmodified _MPSEDVVSL_ 0 0 0 ENSG00000069329|ENST00000299138|VPS35;ENST00000568784.6_1_16:46694386-46722246:-|nuORF ENSG00000069329|ENST00000299138|VPS35 ENSG00000069329|ENST00000299138|VPS35 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.7383728027344 2 488.736425 975.458298 3.1299 0.0015297 -0.12082 -5.9047E-05 3.0091 0.0014707 488.7364853671558 61.889 0.39188 62.141 61.948 62.34 0.25245 30 22 2 0 0 0 0.062556 1 28347 28347 42.095 2.1372 1 1285100 20139 749 12693 12744 23426 23426 -0.030412911736448223 MPSEDVVSL 9 Unmodified _MPSEDVVSL_ 0 0 0 ENSG00000069329|ENST00000299138|VPS35;ENST00000568784.6_1_16:46694386-46722246:-|nuORF ENSG00000069329|ENST00000299138|VPS35 ENSG00000069329|ENST00000299138|VPS35 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 976.4674072265625 1 976.465574 975.458298 3.6741 0.0035876 -0.92163 -0.00089994 2.7524 0.0026877 976.4650987292617 61.277 0.43338 61.94 61.733 62.166 0.66261 41 24 2 0 0 0 0.020718 3 28007 28007;28057;28103 67.344 16.489 1 5030700 20140 749 12693 12744 23427;23428;23429 23427 -0.030412911736448223 MPSEDVVSL 9 Unmodified _MPSEDVVSL_ 0 0 0 ENSG00000069329|ENST00000299138|VPS35;ENST00000568784.6_1_16:46694386-46722246:-|nuORF ENSG00000069329|ENST00000299138|VPS35 ENSG00000069329|ENST00000299138|VPS35 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 488.736425 975.458298 3.1265 0.001528 -0.029722 -1.4526E-05 3.0967 0.0015135 488.7365581041303 61.265 0.30774 61.928 61.803 62.11 0.66261 -0.10658 4.975E-05 NaN 42.095 30 17 2 NaN NaN NaN NaN 0 NaN NaN 0 2492600 20141 749 12693 12744 -0.030412911736448223 MPSERCLSI 9 Unmodified _MPSERCLSI_ 0 0 0 KLHL32|p.Q10K|1|0.35|ENSG00000186231|chr6:96976001-96976001|C/A|missense_variant;nc|ENSG00000186231|Q96NJ5-3|KLHL32;nc|ENSG00000186231|Q96NJ5-2|KLHL32;ENSG00000186231|ENST00000369261|KLHL32 KLHL32|p.Q10K|1|0.35|ENSG00000186231|chr6:96976001-96976001|C/A|missense_variant KLHL32|p.Q10K|1|0.35|ENSG00000186231|chr6:96976001-96976001|C/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.2530517578125 2 518.25172 1034.48889 3.525 0.0018268 -1.1474 -0.00059462 2.3776 0.0012322 518.2509802356991 54.468 0.47954 54.468 54.106 54.586 0 58 43 2 0 0 0 0.093314 1 24948 24948 34.402 4.1769 1 1861500 20142 5561 12694 12745 23430 23430 -0.026978360602470275 MPSERCLSI 9 Unmodified _MPSERCLSI_ 0 0 0 KLHL32|p.Q10K|1|0.35|ENSG00000186231|chr6:96976001-96976001|C/A|missense_variant;nc|ENSG00000186231|Q96NJ5-3|KLHL32;nc|ENSG00000186231|Q96NJ5-2|KLHL32;ENSG00000186231|ENST00000369261|KLHL32 KLHL32|p.Q10K|1|0.35|ENSG00000186231|chr6:96976001-96976001|C/A|missense_variant KLHL32|p.Q10K|1|0.35|ENSG00000186231|chr6:96976001-96976001|C/A|missense_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 518.25172 1034.48889 3.3158 0.0017184 -1.7471 -0.00090545 1.5687 0.00081298 518.2509062104356 54.097 0.62247 54.361 53.962 54.584 0.26462 0.038027 1.1972E-05 NaN 34.402 81 27 4 NaN NaN NaN NaN 0 NaN NaN 0 1623600 20143 5561 12694 12745 -0.026978360602470275 MPSGLQQQF 9 Unmodified _MPSGLQQQF_ 0 0 0 REV__chr2:87030897-87031816|148|12.06|0.0|20.2|-|2|TE_info:MLT1G3,MLT1G3_dup275,ERVL-MaLR,LTR,acceptor,-,87030632,87030897|None,ANAPC1P2|4 REV__chr2:87030897-87031816|148|12.06|0.0|20.2|-|2|TE_info:MLT1G3,MLT1G3_dup275,ERVL-MaLR,LTR,acceptor,-,87030632,87030897|None,ANAPC1P2|4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.2532958984375 2 518.250034 1034.48552 3.525 0.0018268 2.1047 0.0010908 5.6298 0.0029176 518.2509802356991 54.468 0.47954 54.468 54.106 54.586 0 58 43 2 0 0 0 0.16976 1 24898 24898 25.399 1.3787 1 1861500 + 20144 10042 12695 12746 23431 23431 -0.030347628425943185 MPSGLQQQF 9 Unmodified _MPSGLQQQF_ 0 0 0 REV__chr2:87030897-87031816|148|12.06|0.0|20.2|-|2|TE_info:MLT1G3,MLT1G3_dup275,ERVL-MaLR,LTR,acceptor,-,87030632,87030897|None,ANAPC1P2|4 REV__chr2:87030897-87031816|148|12.06|0.0|20.2|-|2|TE_info:MLT1G3,MLT1G3_dup275,ERVL-MaLR,LTR,acceptor,-,87030632,87030897|None,ANAPC1P2|4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.252685546875 2 518.250034 1034.48552 3.2007 0.0016588 1.2488 0.00064718 4.4495 0.0023059 518.2505981442929 53.424 0.30106 54.227 54.086 54.387 0.80351 69 28 3 0 0 0 0.16976 1 24400 24400 25.399 4.9457 1 2008300 + 20145 10042 12695 12746 23432 23432 -0.030347628425943185 MPSITYSA 8 Unmodified _MPSITYSA_ 0 0 0 ENSG00000204178|ENST00000374343|MACO1;nc|ENSG00000204178|Q8N5G2-3|MACO1;nc|ENSG00000204178|Q8N5G2-2|MACO1 ENSG00000204178|ENST00000374343|MACO1 ENSG00000204178|ENST00000374343|MACO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 435.2093505859375 2 435.207304 868.400055 2.8771 0.0012521 0.19801 8.6177E-05 3.0751 0.0013383 435.20755259481854 83.981 0.21484 84.229 84.135 84.349 0.24722 22 12 2 0 0 0 0.45037 1 38639 38639 24.674 5.2349 1 465960 20146 5989 12696 12747 23433 23433 -0.03940928028259805 MPSPVSPKL 9 Unmodified _MPSPVSPKL_ 0 0 0 ENSG00000072364|ENST00000265343|AFF4 ENSG00000072364|ENST00000265343|AFF4 ENSG00000072364|ENST00000265343|AFF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.77044677734375 2 478.267696 954.520839 2.9818 0.0014261 -0.71588 -0.00034238 2.266 0.0010837 478.2675325035405 44.472 0.17817 44.472 44.31 44.488 0 21 12 2 0 0 0 0.33646 1 20290 20290 15.248 2.7169 1 4211200 20147 790 12697 12748 23434 23434 0.041758996852195196 MPSPVSPKL 9 Unmodified _MPSPVSPKL_ 0 0 0 ENSG00000072364|ENST00000265343|AFF4 ENSG00000072364|ENST00000265343|AFF4 ENSG00000072364|ENST00000265343|AFF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.2691955566406 2 478.267696 954.520839 2.9163 0.0013948 -0.15884 -7.5969E-05 2.7575 0.0013188 478.26755266499345 43.302 0.27893 44.116 44.057 44.336 0.81444 43 19 3 0 0 0 0.011692 2 19706 19706;19755 79.596 45.494 1 1553400 20148 790 12697 12748 23435;23436 23435 0.041758996852195196 MPSPVSPKL 9 Unmodified _MPSPVSPKL_ 0 0 0 ENSG00000072364|ENST00000265343|AFF4 ENSG00000072364|ENST00000265343|AFF4 ENSG00000072364|ENST00000265343|AFF4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.26885986328125 2 478.267696 954.520839 NaN NaN NaN NaN NaN NaN NaN 43.99 1 44.259 43.759 44.759 0.2694 0 0 0 0.020377 1 20099 20099 72.968 38.866 1 20149 790 12697 12748 23437 23437 0.041758996852195196 MPSPVSPKL 9 Unmodified _MPSPVSPKL_ 0 0 0 ENSG00000072364|ENST00000265343|AFF4 ENSG00000072364|ENST00000265343|AFF4 ENSG00000072364|ENST00000265343|AFF4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.2689514160156 2 478.267696 954.520839 NaN NaN NaN NaN NaN NaN NaN 44.107 1 44.377 43.877 44.877 0.2694 0 0 0 0.014646 1 20155 20155 79.596 35.738 1 20150 790 12697 12748 23438 23438 0.041758996852195196 MPSPVSPKL 9 Unmodified _MPSPVSPKL_ 0 0 0 ENSG00000072364|ENST00000265343|AFF4 ENSG00000072364|ENST00000265343|AFF4 ENSG00000072364|ENST00000265343|AFF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.26947021484375 2 478.267696 954.520839 3.2391 0.0015492 -0.24044 -0.00011499 2.9987 0.0014342 478.26757927001046 43.63 0.21986 44.279 44.177 44.397 0.64872 26 15 2 0 0 0 0.0024283 2 19964 19964;20018 99.755 61.781 1 2048900 20151 790 12697 12748 23439;23440 23439 0.041758996852195196 MPSQFRDIL 9 Unmodified _MPSQFRDIL_ 0 0 0 ENSG00000100393|ENST00000263253|EP300 ENSG00000100393|ENST00000263253|EP300 ENSG00000100393|ENST00000263253|EP300 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.7889404296875 2 553.786784 1105.55902 3.5521 0.0019671 -0.11799 -6.5341E-05 3.4341 0.0019017 553.7868576106569 61.866 0.34908 62.118 61.928 62.277 0.25245 46 20 3 0 0 0 0.0079462 2 28333 28290;28333 85.642 26.963 1 3029000 20152 1214 12698 12749 23441;23442 23442 0.010457855998993182 MPSQFRDIL 9 Unmodified _MPSQFRDIL_ 0 0 0 ENSG00000100393|ENST00000263253|EP300 ENSG00000100393|ENST00000263253|EP300 ENSG00000100393|ENST00000263253|EP300 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.7890014648438 2 553.786784 1105.55902 3.448 0.0019095 0.25826 0.00014302 3.7063 0.0020525 553.7869225366834 61.247 0.28542 61.909 61.757 62.043 0.66261 27 16 2 0 0 0 0.018453 1 28032 28032 70.332 28.492 1 2653400 20153 1214 12698 12749 23443 23443 0.010457855998993182 MPSRPEASL 9 Unmodified _MPSRPEASL_ 0 0 0 ENST00000549913.6_1_12:113306162-113306792:+|nuORF ENST00000549913.6_1_12:113306162-113306792:+|nuORF ENST00000549913.6_1_12:113306162-113306792:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.251220703125 2 494.250034 986.485516 3.2427 0.0016027 -0.18161 -8.9762E-05 3.0611 0.001513 494.24986163708826 30.198 0.37365 30.987 30.767 31.141 0.78921 61 34 2 0 0 0 0.19064 1 13644 13644 24.021 4.6586 1 319600 20154 8863 12699 12750 23444 23444 -0.008267628425983276 MPSRPEASL 9 Unmodified _MPSRPEASL_ 0 0 0 ENST00000549913.6_1_12:113306162-113306792:+|nuORF ENST00000549913.6_1_12:113306162-113306792:+|nuORF ENST00000549913.6_1_12:113306162-113306792:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.2518310546875 2 494.250034 986.485516 3.6579 0.0018079 -0.54978 -0.00027173 3.1081 0.0015362 494.24985732287735 30.928 0.57812 31.184 30.814 31.393 0.25614 139 58 3 0 0 0 0.019364 2 13987 13987;14134 69.105 9.7365 1 2237800 20155 8863 12699 12750 23445;23446 23445 -0.008267628425983276 MPSRPEASL 9 Unmodified _MPSRPEASL_ 0 0 0 ENST00000549913.6_1_12:113306162-113306792:+|nuORF ENST00000549913.6_1_12:113306162-113306792:+|nuORF ENST00000549913.6_1_12:113306162-113306792:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.25274658203125 2 494.250034 986.485516 3.2237 0.0015933 -0.13092 -6.4707E-05 3.0927 0.0015286 494.2501585315571 30.506 0.45279 31.123 30.869 31.322 0.61737 88 30 4 0 0 0 0.019364 1 13941 13941 69.105 1.2667 1 2250100 20156 8863 12699 12750 23447 23447 -0.008267628425983276 MPSRPELSA 9 Unmodified _MPSRPELSA_ 0 0 0 ENSG00000115963|ENST00000263895|RND3 ENSG00000115963|ENST00000263895|RND3 ENSG00000115963|ENST00000263895|RND3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.2515869140625 2 494.250034 986.485516 3.6579 0.0018079 -0.54978 -0.00027173 3.1081 0.0015362 494.24985732287735 30.928 0.57812 31.184 30.814 31.393 0.25614 139 58 3 0 0 0 0.0043297 3 14036 13997;14036;14079 93.166 17.405 1 2237800 20157 2003 12700 12751 23448;23449;23450 23449 -0.008267628425869589 MPSRPELSA 9 Unmodified _MPSRPELSA_ 0 0 0 ENSG00000115963|ENST00000263895|RND3 ENSG00000115963|ENST00000263895|RND3 ENSG00000115963|ENST00000263895|RND3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.2517395019531 2 494.250034 986.485516 3.2237 0.0015933 -0.13092 -6.4707E-05 3.0927 0.0015286 494.2501585315571 30.506 0.45279 31.123 30.869 31.322 0.61737 88 30 4 0 0 0 0.0043297 2 13987 13987;14040 93.166 26.709 1 2250100 20158 2003 12700 12751 23451;23452 23451 -0.008267628425869589 MPSRPELSA 9 Unmodified _MPSRPELSA_ 0 0 0 ENSG00000115963|ENST00000263895|RND3 ENSG00000115963|ENST00000263895|RND3 ENSG00000115963|ENST00000263895|RND3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 494.250034 986.485516 3.2389 0.0016008 0.019617 9.6956E-06 3.2585 0.0016105 494.25004442512966 31.115 0.23386 31.115 31.03 31.264 0 0.012688 0.00026941 NaN 93.166 36 22 2 NaN NaN NaN NaN 0 NaN NaN 0 603680 20159 2003 12700 12751 -0.008267628425869589 MPSSDTTVTF 10 Unmodified _MPSSDTTVTF_ 0 0 0 ENSG00000095015|ENST00000399503|MAP3K1 ENSG00000095015|ENST00000399503|MAP3K1 ENSG00000095015|ENST00000399503|MAP3K1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.247314453125 2 543.244615 1084.47468 NaN NaN NaN NaN NaN NaN NaN 53.717 1 54.521 54.021 55.021 0.80351 0 0 0 0.47727 1 24514 24514 30.637 3.7529 1 20160 1114 12701 12752 23453 23453 -0.06418210007564085 MPSSDTTVTF 10 Unmodified _MPSSDTTVTF_ 0 0 0 ENSG00000095015|ENST00000399503|MAP3K1 ENSG00000095015|ENST00000399503|MAP3K1 ENSG00000095015|ENST00000399503|MAP3K1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.2467041015625 2 543.244615 1084.47468 NaN NaN NaN NaN NaN NaN NaN 53.844 1 54.639 54.139 55.139 0.79552 0 0 0 0.91283 1 24570 24570 19.257 3.4098 1 20161 1114 12701 12752 23454 23454 -0.06418210007564085 MPSSDTTVTF 10 Unmodified _MPSSDTTVTF_ 0 0 0 ENSG00000095015|ENST00000399503|MAP3K1 ENSG00000095015|ENST00000399503|MAP3K1 ENSG00000095015|ENST00000399503|MAP3K1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.2462768554688 2 543.244615 1084.47468 3.1746 0.0017246 0.14803 8.0415E-05 3.3226 0.001805 543.2447495542988 54.541 0.4297 54.807 54.481 54.911 0.26543 30 19 2 0 0 0 0.21136 1 24893 24893 37.974 11.09 1 584450 20162 1114 12701 12752 23455 23455 -0.06418210007564085 MPSSDTTVTF 10 Unmodified _MPSSDTTVTF_ 0 0 0 ENSG00000095015|ENST00000399503|MAP3K1 ENSG00000095015|ENST00000399503|MAP3K1 ENSG00000095015|ENST00000399503|MAP3K1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.2462768554688 2 543.244615 1084.47468 3.2912 0.0017879 0.63086 0.00034271 3.922 0.0021306 543.2446991814853 53.832 0.11502 54.496 54.401 54.516 0.6644 7 4 2 0 0 0 0.16336 1 24625 24625 43.858 16.975 1 529480 20163 1114 12701 12752 23456 23456 -0.06418210007564085 MPSSDTTVTF 10 Unmodified _MPSSDTTVTF_ 0 0 0 ENSG00000095015|ENST00000399503|MAP3K1 ENSG00000095015|ENST00000399503|MAP3K1 ENSG00000095015|ENST00000399503|MAP3K1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.2469482421875 2 543.244615 1084.47468 NaN NaN NaN NaN NaN NaN NaN 54.085 1 54.752 54.252 55.252 0.6665 0 0 0 0.68715 1 24737 24737 25.399 3.6527 1 20164 1114 12701 12752 23457 23457 -0.06418210007564085 MPSSREDFL 9 Unmodified _MPSSREDFL_ 0 0 0 ENSG00000171940|ENST00000371471|ZNF217 ENSG00000171940|ENST00000371471|ZNF217 ENSG00000171940|ENST00000371471|ZNF217 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.755859375 2 541.252774 1080.491 3.2643 0.0017668 0.20838 0.00011279 3.4726 0.0018796 541.2528192644123 45.241 0.56242 45.241 45.033 45.595 0 47 29 2 0 0 0 0.043585 1 20720 20720 49.933 17.147 1 1461100 20165 4842 12702 12753 23458 23458 -0.0460308405079104 MPSSREDFL 9 Unmodified _MPSSREDFL_ 0 0 0 ENSG00000171940|ENST00000371471|ZNF217 ENSG00000171940|ENST00000371471|ZNF217 ENSG00000171940|ENST00000371471|ZNF217 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.2545776367188 2 541.252774 1080.491 2.9984 0.0016229 0.32484 0.00017582 3.3232 0.0017987 541.2527920557674 44.061 0.6577 44.882 44.61 45.268 0.82074 77 41 3 0 0 0 0.024388 3 20124 20069;20124;20176 62.573 40.826 1 1824000 20166 4842 12702 12753 23459;23460;23461 23460 -0.0460308405079104 MPSSREDFL 9 Unmodified _MPSSREDFL_ 0 0 0 ENSG00000171940|ENST00000371471|ZNF217 ENSG00000171940|ENST00000371471|ZNF217 ENSG00000171940|ENST00000371471|ZNF217 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.2547607421875 2 541.252774 1080.491 3.1535 0.0017069 0.14926 8.0786E-05 3.3028 0.0017877 541.2528415250334 45.258 0.74762 45.526 45.12 45.868 0.26768 66 31 3 0 0 0 0.024388 3 20671 20671;20728;20788 62.573 30.838 1 3325300 20167 4842 12702 12753 23462;23463;23464 23462 -0.0460308405079104 MPSSREDFL 9 Unmodified _MPSSREDFL_ 0 0 0 ENSG00000171940|ENST00000371471|ZNF217 ENSG00000171940|ENST00000371471|ZNF217 ENSG00000171940|ENST00000371471|ZNF217 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.2549438476562 2 541.252774 1080.491 3.5597 0.0019267 -0.21787 -0.00011792 3.3418 0.0018088 541.2527866814643 44.698 0.76606 45.348 44.894 45.66 0.64998 80 30 4 0 0 0 0.024388 4 20468 20419;20468;20519;20582 62.573 35.689 1 2252500 20168 4842 12702 12753 23465;23466;23467;23468 23466 -0.0460308405079104 MPSTRDYEI 9 Unmodified _MPSTRDYEI_ 0 0 0 nc|ENSG00000169398|Q05397-7|PTK2;nc|ENSG00000169398|Q05397|PTK2;nc|ENSG00000169398|Q05397-5|PTK2;ENST00000519899.5_1_8:141756852-141774450:-|nuORF;nc|ENSG00000169398|Q05397-4|PTK2;nc|ENSG00000169398|Q05397-3|PTK2;nc|ENSG00000169398|Q05397-2|PTK2 nc|ENSG00000169398|Q05397-7|PTK2 nc|ENSG00000169398|Q05397-7|PTK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.2598266601562 2 556.258056 1110.50156 3.5323 0.0019649 0.097383 5.417E-05 3.6297 0.0020191 556.2580933735172 40.334 0.29441 40.334 40.199 40.493 0 20 9 3 0 0 0 0.030603 1 18292 18292 55.503 23.197 1 1481200 20169 9748 12703 12754 23469 23469 -0.0492710139637893 MPSTRDYEI 9 Unmodified _MPSTRDYEI_ 0 0 0 nc|ENSG00000169398|Q05397-7|PTK2;nc|ENSG00000169398|Q05397|PTK2;nc|ENSG00000169398|Q05397-5|PTK2;ENST00000519899.5_1_8:141756852-141774450:-|nuORF;nc|ENSG00000169398|Q05397-4|PTK2;nc|ENSG00000169398|Q05397-3|PTK2;nc|ENSG00000169398|Q05397-2|PTK2 nc|ENSG00000169398|Q05397-7|PTK2 nc|ENSG00000169398|Q05397-7|PTK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 556.25927734375 2 556.258056 1110.50156 3.3156 0.0018443 -0.70946 -0.00039464 2.6061 0.0014497 556.2578195667585 39.232 0.35308 40.03 39.86 40.213 0.79762 42 16 4 0 0 0 0.044468 2 17742 17742;17794 49.554 24.155 1 1392600 20170 9748 12703 12754 23470;23471 23470 -0.0492710139637893 MPSTRDYEI 9 Unmodified _MPSTRDYEI_ 0 0 0 nc|ENSG00000169398|Q05397-7|PTK2;nc|ENSG00000169398|Q05397|PTK2;nc|ENSG00000169398|Q05397-5|PTK2;ENST00000519899.5_1_8:141756852-141774450:-|nuORF;nc|ENSG00000169398|Q05397-4|PTK2;nc|ENSG00000169398|Q05397-3|PTK2;nc|ENSG00000169398|Q05397-2|PTK2 nc|ENSG00000169398|Q05397-7|PTK2 nc|ENSG00000169398|Q05397-7|PTK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.2593383789062 2 556.258056 1110.50156 3.6943 0.002055 -0.29679 -0.00016509 3.3975 0.0018899 556.2580778094613 40.317 0.24281 40.586 40.434 40.677 0.2684 16 7 3 0 0 0 0.02631 1 18326 18326 60.074 25.672 1 1526000 20171 9748 12703 12754 23472 23472 -0.0492710139637893 MPSTRDYEI 9 Unmodified _MPSTRDYEI_ 0 0 0 nc|ENSG00000169398|Q05397-7|PTK2;nc|ENSG00000169398|Q05397|PTK2;nc|ENSG00000169398|Q05397-5|PTK2;ENST00000519899.5_1_8:141756852-141774450:-|nuORF;nc|ENSG00000169398|Q05397-4|PTK2;nc|ENSG00000169398|Q05397-3|PTK2;nc|ENSG00000169398|Q05397-2|PTK2 nc|ENSG00000169398|Q05397-7|PTK2 nc|ENSG00000169398|Q05397-7|PTK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.2608642578125 2 556.258056 1110.50156 3.737 0.0020787 -0.20435 -0.00011367 3.5326 0.001965 556.2581110437644 39.867 0.27279 40.508 40.328 40.601 0.64136 22 11 3 0 0 0 0.049036 3 18195 18195;18247;18260 47.594 22.195 1 1191400 20172 9748 12703 12754 23473;23474;23475 23473 -0.0492710139637893 MPSVFQNVL 9 Unmodified _MPSVFQNVL_ 0 0 0 ENSG00000171940|ENST00000371471|ZNF217 ENSG00000171940|ENST00000371471|ZNF217 ENSG00000171940|ENST00000371471|ZNF217 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.7728881835938 2 517.770603 1033.52665 3.3911 0.0017558 -0.091631 -4.7444E-05 3.2994 0.0017083 517.770718320753 83.573 0.43967 83.82 83.623 84.062 0.24722 62 29 3 0 0 0 0.052704 2 38520 38470;38520 46.021 13.904 1 507800 20173 4842 12704 12755 23476;23477 23477 0.011229981968881475 MPSVFQNVL 9 Unmodified _MPSVFQNVL_ 0 0 0 ENSG00000171940|ENST00000371471|ZNF217 ENSG00000171940|ENST00000371471|ZNF217 ENSG00000171940|ENST00000371471|ZNF217 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.7716674804688 2 517.770603 1033.52665 3.5387 0.0018322 0.091759 4.751E-05 3.6305 0.0018797 517.770654659796 83.096 0.41765 83.757 83.575 83.992 0.66019 35 22 2 0 0 0 0.10169 1 38266 38266 32.305 17.724 1 614280 20174 4842 12704 12755 23478 23478 0.011229981968881475 MPSVPDFETL 10 Unmodified _MPSVPDFETL_ 0 0 0 ENST00000486810.5_1_17:17171351-17179368:-|nuORF;ENST00000462236.1_1_17:17171268-17179473:-|nuORF;nc|ENSG00000141030|Q9UNS2-2|COPS3;ENSG00000141030|ENST00000268717|COPS3 ENST00000486810.5_1_17:17171351-17179368:-|nuORF ENST00000486810.5_1_17:17171351-17179368:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.2734985351562 2 568.270632 1134.52671 3.3566 0.0019075 1.431 0.0008132 4.7876 0.0027207 568.2717297211541 81.721 0.32025 81.969 81.715 82.035 0.24802 33 14 3 0 0 0 0.011654 2 37582 37582;37641 88.904 63.504 1 721910 20175 3232 12705 12756 23479;23480 23479 -0.03517046593765372 MPSVPDFETL 10 Unmodified _MPSVPDFETL_ 0 0 0 ENST00000486810.5_1_17:17171351-17179368:-|nuORF;ENST00000462236.1_1_17:17171268-17179473:-|nuORF;nc|ENSG00000141030|Q9UNS2-2|COPS3;ENSG00000141030|ENST00000268717|COPS3 ENST00000486810.5_1_17:17171351-17179368:-|nuORF ENST00000486810.5_1_17:17171351-17179368:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.2741088867188 2 568.270632 1134.52671 3.6897 0.0020967 0.087274 4.9595E-05 3.777 0.0021463 568.2707690343451 81.024 0.33318 81.684 81.503 81.837 0.65998 31 15 3 0 0 0 0.020048 3 37337 37337;37387;37394 71.134 47.985 1 929670 20176 3232 12705 12756 23481;23482;23483 23481 -0.03517046593765372 MPTKETTKL 9 Unmodified _MPTKETTKL_ 0 0 0 nc|ENSG00000156970|O60566-3|BUB1B;ENSG00000156970|ENST00000287598|BUB1B;nc|ENSG00000156970|O60566-2|BUB1B nc|ENSG00000156970|O60566-3|BUB1B nc|ENSG00000156970|O60566-3|BUB1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.7906494140625 2 524.788992 1047.56343 3.1876 0.0016728 0.11541 6.0565E-05 3.303 0.0017334 524.7891471281122 15.047 0.71034 15.047 14.783 15.494 0 164 79 3 0 0 0 0.35367 3 6613 6570;6613;6655 20.415 12.504 1 222920 20177 3933 12706 12757 23484;23485;23486 23485 0.041552500227680866 MPTKETTKL 9 Unmodified _MPTKETTKL_ 0 0 0 nc|ENSG00000156970|O60566-3|BUB1B;ENSG00000156970|ENST00000287598|BUB1B;nc|ENSG00000156970|O60566-2|BUB1B nc|ENSG00000156970|O60566-3|BUB1B nc|ENSG00000156970|O60566-3|BUB1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.1961364746094 3 350.195087 1047.56343 2.5171 0.00088149 0.17966 6.2915E-05 2.6968 0.0009444 350.1952019059285 15.039 1.1905 15.039 14.731 15.922 0 323 139 4 0 0 0 0.14419 4 6622 6582;6622;6665;6707 27.088 10.186 1 552150 20178 3933 12706 12757 23487;23488;23489;23490 23488 0.041552500227680866 MPTKETTKL 9 Unmodified _MPTKETTKL_ 0 0 0 nc|ENSG00000156970|O60566-3|BUB1B;ENSG00000156970|ENST00000287598|BUB1B;nc|ENSG00000156970|O60566-2|BUB1B nc|ENSG00000156970|O60566-3|BUB1B nc|ENSG00000156970|O60566-3|BUB1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.7905883789062 2 524.788992 1047.56343 3.298 0.0017307 -0.72495 -0.00038044 2.573 0.0013503 524.788837658086 14.597 0.26283 14.823 14.731 14.994 0.22622 42 18 3 0 0 0 0.035342 1 6412 6412 65.474 36.392 1 651200 20179 3933 12706 12757 23491 23491 0.041552500227680866 MPTKETTKL 9 Unmodified _MPTKETTKL_ 0 0 0 nc|ENSG00000156970|O60566-3|BUB1B;ENSG00000156970|ENST00000287598|BUB1B;nc|ENSG00000156970|O60566-2|BUB1B nc|ENSG00000156970|O60566-3|BUB1B nc|ENSG00000156970|O60566-3|BUB1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.1959533691406 3 350.195087 1047.56343 2.366 0.00082855 -0.33221 -0.00011634 2.0337 0.00071221 350.19505465394093 14.597 0.39681 14.823 14.702 15.099 0.22622 76 27 4 0 0 0 0.0527 1 6443 6443 46.022 8.9477 1 1651400 20180 3933 12706 12757 23492 23492 0.041552500227680866 MPTKETTKL 9 Unmodified _MPTKETTKL_ 0 0 0 nc|ENSG00000156970|O60566-3|BUB1B;ENSG00000156970|ENST00000287598|BUB1B;nc|ENSG00000156970|O60566-2|BUB1B nc|ENSG00000156970|O60566-3|BUB1B nc|ENSG00000156970|O60566-3|BUB1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.1954650878906 3 350.195087 1047.56343 2.2962 0.00080412 -0.44398 -0.00015548 1.8522 0.00064864 350.19489878396536 14.202 0.15204 14.509 14.48 14.632 0.3069 17 11 2 0 0 0 0.14419 1 6439 6439 27.088 9.6457 1 2828600 20181 3933 12706 12757 23493 23493 0.041552500227680866 MPTKETTKL 9 Unmodified _MPTKETTKL_ 0 0 0 nc|ENSG00000156970|O60566-3|BUB1B;ENSG00000156970|ENST00000287598|BUB1B;nc|ENSG00000156970|O60566-2|BUB1B nc|ENSG00000156970|O60566-3|BUB1B nc|ENSG00000156970|O60566-3|BUB1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.7907104492188 2 524.788992 1047.56343 3.4038 0.0017863 0.491 0.00025767 3.8948 0.0020439 524.7891573124994 14.158 0.028232 14.806 14.794 14.822 0.6482 6 4 2 0 0 0 0.027127 1 6371 6371 63.227 32.591 1 2249300 20182 3933 12706 12757 23494 23494 0.041552500227680866 MPTKETTKL 9 Unmodified _MPTKETTKL_ 0 0 0 nc|ENSG00000156970|O60566-3|BUB1B;ENSG00000156970|ENST00000287598|BUB1B;nc|ENSG00000156970|O60566-2|BUB1B nc|ENSG00000156970|O60566-3|BUB1B nc|ENSG00000156970|O60566-3|BUB1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.1952819824219 3 350.195087 1047.56343 NaN NaN NaN NaN NaN NaN NaN 14.14 1 14.788 14.288 15.288 0.6482 0 0 0 0.076832 1 6358 6358 46.022 2.0405 1 20183 3933 12706 12757 23495 23495 0.041552500227680866 MPTKETTKL 9 Unmodified _MPTKETTKL_ 0 0 0 nc|ENSG00000156970|O60566-3|BUB1B;ENSG00000156970|ENST00000287598|BUB1B;nc|ENSG00000156970|O60566-2|BUB1B nc|ENSG00000156970|O60566-3|BUB1B nc|ENSG00000156970|O60566-3|BUB1B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 350.195087 1047.56343 2.5044 0.00087702 -1.4338 -0.0005021 1.0706 0.00037492 350.19462602687065 14.473 0.19409 14.473 14.374 14.569 0 0.087638 -0.00041734 NaN 27.088 21 14 2 NaN NaN NaN NaN 0 NaN NaN 0 148780 20184 3933 12706 12757 0.041552500227680866 MPTKTIEVL 9 Unmodified _MPTKTIEVL_ 0 0 0 ENST00000544140.5_1_11:73555872-73571072:+|nuORF;nc|ENSG00000175581|Q96GC5-3|MRPL48;ENSG00000175581|ENST00000310614|MRPL48 ENST00000544140.5_1_11:73555872-73571072:+|nuORF ENST00000544140.5_1_11:73555872-73571072:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.29638671875 2 516.293911 1030.57327 3.1852 0.0016445 0.18629 9.6182E-05 3.3714 0.0017407 516.2941365727621 49.997 0.37693 49.997 49.822 50.199 0 55 18 4 0 0 0 0.035495 2 22860 22860;22914 53.404 19.302 1 2628700 20185 5038 12707 12758 23496;23497 23496 0.05920438028169883 MPTKTIEVL 9 Unmodified _MPTKTIEVL_ 0 0 0 ENST00000544140.5_1_11:73555872-73571072:+|nuORF;nc|ENSG00000175581|Q96GC5-3|MRPL48;ENSG00000175581|ENST00000310614|MRPL48 ENST00000544140.5_1_11:73555872-73571072:+|nuORF ENST00000544140.5_1_11:73555872-73571072:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.2954711914062 2 516.293911 1030.57327 3.401 0.0017559 -0.81903 -0.00042286 2.5819 0.001333 516.2939063048434 49.037 0.41156 49.864 49.675 50.087 0.82705 71 21 5 0 0 0 0.035495 2 22344 22284;22344 53.404 21.502 1 2119500 20186 5038 12707 12758 23498;23499 23499 0.05920438028169883 MPTKTIEVL 9 Unmodified _MPTKTIEVL_ 0 0 0 ENST00000544140.5_1_11:73555872-73571072:+|nuORF;nc|ENSG00000175581|Q96GC5-3|MRPL48;ENSG00000175581|ENST00000310614|MRPL48 ENST00000544140.5_1_11:73555872-73571072:+|nuORF ENST00000544140.5_1_11:73555872-73571072:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.2954711914062 2 516.293911 1030.57327 3.458 0.0017853 0.51162 0.00026415 3.9696 0.0020495 516.2944714244213 49.71 0.38043 49.972 49.812 50.193 0.26146 40 15 3 0 0 0 0.018453 2 22747 22687;22747 70.332 35.93 1 1676800 20187 5038 12707 12758 23500;23501 23501 0.05920438028169883 MPTKTIEVL 9 Unmodified _MPTKTIEVL_ 0 0 0 ENST00000544140.5_1_11:73555872-73571072:+|nuORF;nc|ENSG00000175581|Q96GC5-3|MRPL48;ENSG00000175581|ENST00000310614|MRPL48 ENST00000544140.5_1_11:73555872-73571072:+|nuORF ENST00000544140.5_1_11:73555872-73571072:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.2978515625 2 516.293911 1030.57327 3.513 0.0018137 0.78484 0.00040521 4.2979 0.002219 516.2946400728646 49.147 0.31733 49.803 49.664 49.982 0.65524 25 10 3 0 0 0 0.063112 2 22478 22478;22548 41.956 9.0024 1 1792500 20188 5038 12707 12758 23502;23503 23502 0.05920438028169883 MPTMRLLSF 9 Unmodified _MPTMRLLSF_ 0 0 0 ENST00000532074.5_1_1:155984857-155990687:-|nuORF;ENST00000484320.6_1_1:155988041-155990687:-|nuORF;ENST00000368311.5_1_1:155984733-155990735:-|nuORF;ENST00000472898.5_1_1:155981561-155990687:-|nuORF ENST00000532074.5_1_1:155984857-155990687:-|nuORF ENST00000532074.5_1_1:155984857-155990687:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.2900390625 2 548.288105 1094.56166 3.4368 0.0018843 -0.30888 -0.00016936 3.1279 0.001715 548.2881009104126 77.577 0.34071 77.83 77.651 77.991 0.25335 61 22 4 0 0 0 0.0071692 2 35744 35699;35744 87.258 63.468 1 3108200 20189 7276 12708 12759 23504;23505 23505 0.018159177331881438 MPTMRLLSF 9 Unmodified _MPTMRLLSF_ 0 0 0 ENST00000532074.5_1_1:155984857-155990687:-|nuORF;ENST00000484320.6_1_1:155988041-155990687:-|nuORF;ENST00000368311.5_1_1:155984733-155990735:-|nuORF;ENST00000472898.5_1_1:155981561-155990687:-|nuORF ENST00000532074.5_1_1:155984857-155990687:-|nuORF ENST00000532074.5_1_1:155984857-155990687:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.2896728515625 2 548.288105 1094.56166 3.2973 0.0018079 -0.58338 -0.00031986 2.714 0.001488 548.2881799984108 77.101 0.33992 77.764 77.575 77.915 0.66303 63 26 3 0 0 0 0.010904 3 35526 35481;35526;35569 80.676 51.594 1 3195100 20190 7276 12708 12759 23506;23507;23508 23507 0.018159177331881438 MPTMRLLSF 9 Unmodified _MPTMRLLSF_ 0 0 0 ENST00000532074.5_1_1:155984857-155990687:-|nuORF;ENST00000484320.6_1_1:155988041-155990687:-|nuORF;ENST00000368311.5_1_1:155984733-155990735:-|nuORF;ENST00000472898.5_1_1:155981561-155990687:-|nuORF ENST00000532074.5_1_1:155984857-155990687:-|nuORF ENST00000532074.5_1_1:155984857-155990687:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 548.288105 1094.56166 3.0899 0.0016942 -0.099558 -5.4586E-05 2.9904 0.0016396 548.2876691474494 77.85 0.21195 77.85 77.795 78.007 0 0.035382 0.00035662 NaN 87.258 32 18 2 NaN NaN NaN NaN 0 NaN NaN 0 2309600 20191 7276 12708 12759 0.018159177331881438 MPTQEVQEL 9 Unmodified _MPTQEVQEL_ 0 0 0 nc|ENSG00000109046|Q9Y6I7-4|WSB1;ENST00000467843.6_1_17:25636020-25639392:+|nuORF;nc|ENSG00000109046|Q9Y6I7-2|WSB1;ENSG00000109046|ENST00000262394|WSB1 nc|ENSG00000109046|Q9Y6I7-4|WSB1 nc|ENSG00000109046|Q9Y6I7-4|WSB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.7628173828125 2 537.760432 1073.50631 3.2401 0.0017424 0.51243 0.00027556 3.7525 0.0020179 537.7605542134648 48.21 0.23792 48.472 48.347 48.585 0.26209 15 9 2 0 0 0 0.136 1 22053 22053 27.629 4.8925 1 460680 20192 1663 12709 12760 23509 23509 -0.027502172536060243 MPTQEVQEL 9 Unmodified _MPTQEVQEL_ 0 0 0 nc|ENSG00000109046|Q9Y6I7-4|WSB1;ENST00000467843.6_1_17:25636020-25639392:+|nuORF;nc|ENSG00000109046|Q9Y6I7-2|WSB1;ENSG00000109046|ENST00000262394|WSB1 nc|ENSG00000109046|Q9Y6I7-4|WSB1 nc|ENSG00000109046|Q9Y6I7-4|WSB1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 537.760432 1073.50631 3.1286 0.0016824 0.76154 0.00040952 3.8902 0.002092 537.760399496712 48.287 0.19613 48.287 48.168 48.364 0 -0.027894 7.8956E-05 NaN 27.629 16 11 2 NaN NaN NaN NaN 0 NaN NaN 0 765770 20193 1663 12709 12760 -0.027502172536060243 MPTQEVQEL 9 Unmodified _MPTQEVQEL_ 0 0 0 nc|ENSG00000109046|Q9Y6I7-4|WSB1;ENST00000467843.6_1_17:25636020-25639392:+|nuORF;nc|ENSG00000109046|Q9Y6I7-2|WSB1;ENSG00000109046|ENST00000262394|WSB1 nc|ENSG00000109046|Q9Y6I7-4|WSB1 nc|ENSG00000109046|Q9Y6I7-4|WSB1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 537.760432 1073.50631 2.9839 0.0016046 0.71659 0.00038535 3.7005 0.00199 537.7610263509943 47.319 0.25502 48.148 48.05 48.305 0.82915 -0.16665 3.0618E-05 NaN 27.629 24 14 2 NaN NaN NaN NaN 0 NaN NaN 0 998830 20194 1663 12709 12760 -0.027502172536060243 MPTQEVQEL 9 Unmodified _MPTQEVQEL_ 0 0 0 nc|ENSG00000109046|Q9Y6I7-4|WSB1;ENST00000467843.6_1_17:25636020-25639392:+|nuORF;nc|ENSG00000109046|Q9Y6I7-2|WSB1;ENSG00000109046|ENST00000262394|WSB1 nc|ENSG00000109046|Q9Y6I7-4|WSB1 nc|ENSG00000109046|Q9Y6I7-4|WSB1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 537.760432 1073.50631 3.3048 0.0017772 0.77165 0.00041496 4.0764 0.0021921 537.7606929145708 47.698 0.28577 48.351 48.172 48.458 0.65356 0.036729 8.9828E-05 NaN 27.629 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 489620 20195 1663 12709 12760 -0.027502172536060243 MPVDDVIGTL 10 Unmodified _MPVDDVIGTL_ 0 0 0 nc|ENSG00000140157|Q8N8Q9-2|NIPA2;ENSG00000140157|ENST00000337451|NIPA2 nc|ENSG00000140157|Q8N8Q9-2|NIPA2 nc|ENSG00000140157|Q8N8Q9-2|NIPA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.27587890625 2 530.273175 1058.5318 2.9877 0.0015843 0.33824 0.00017936 3.326 0.0017637 530.2735167595544 79.206 0.30863 79.457 79.249 79.557 0.25127 32 20 2 0 0 0 0.66557 1 36437 36437 14.838 2.3067 1 578340 20196 3183 12710 12761 23510 23510 0.00487257268855501 MPVDDVIGTL 10 Unmodified _MPVDDVIGTL_ 0 0 0 nc|ENSG00000140157|Q8N8Q9-2|NIPA2;ENSG00000140157|ENST00000337451|NIPA2 nc|ENSG00000140157|Q8N8Q9-2|NIPA2 nc|ENSG00000140157|Q8N8Q9-2|NIPA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.2750244140625 2 530.273175 1058.5318 3.2374 0.0017167 0.64695 0.00034306 3.8843 0.0020598 530.273493874576 78.654 0.25569 79.316 79.199 79.454 0.66198 23 15 2 0 0 0 0.16336 2 36228 36220;36228 43.858 24.419 1 656040 20197 3183 12710 12761 23511;23512 23512 0.00487257268855501 MPVDERDL 8 Unmodified _MPVDERDL_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.7362060546875 2 487.734217 973.453881 3.3134 0.0016161 -2.0322 -0.00099116 1.2812 0.00062491 487.73347539224045 35.651 0.4894 36.442 36.095 36.585 0.79131 37 25 2 0 0 0 0.38743 2 16055 16055;16116 29.082 9.8246 1 756460 20198 4495 12711 12762 23513;23514 23513 -0.033907555965583924 MPVDERDLQA 10 Unmodified _MPVDERDLQA_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.2844848632812 2 587.282063 1172.54957 3.5063 0.0020592 -0.1 -5.873E-05 3.4063 0.0020005 587.2821708753587 36.711 0.5913 36.711 36.461 37.053 0 88 26 4 0 0 0 2.6657E-05 5 16650 16597;16650;16700;16747;16795 114.5 86.868 1 7440200 20199 4495 12712 12763 23515;23516;23517;23518;23519 23516 -0.029800274763147172 MPVDERDLQA 10 Unmodified _MPVDERDLQA_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.2844848632812 2 587.282063 1172.54957 3.4256 0.0020118 -0.25439 -0.0001494 3.1712 0.0018624 587.2821118044374 35.799 0.4884 36.59 36.384 36.872 0.79131 65 20 4 0 0 0 7.6551E-09 4 16228 16181;16228;16273;16323 143.21 97.473 1 13466000 20200 4495 12712 12763 23520;23521;23522;23523 23521 -0.029800274763147172 MPVDERDLQA 10 Unmodified _MPVDERDLQA_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.2843627929688 2 587.282063 1172.54957 3.5513 0.0020856 -0.15474 -9.0879E-05 3.3966 0.0019948 587.2820953184307 36.625 0.62454 36.883 36.625 37.249 0.25768 82 22 5 0 0 0 1.0164E-05 4 16672 16627;16672;16728;16781 121.5 88.718 1 6943500 20201 4495 12712 12763 23524;23525;23526;23527 23525 -0.029800274763147172 MPVDERDLQA 10 Unmodified _MPVDERDLQA_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.2841186523438 2 587.282063 1172.54957 3.6594 0.0021491 -0.2112 -0.00012404 3.4482 0.0020251 587.2820428154296 36.049 0.67733 36.675 36.46 37.138 0.62631 63 21 5 0 0 0 4.5124E-07 3 16528 16467;16528;16582 135.86 104.6 1 7149800 20202 4495 12712 12763 23528;23529;23530 23529 -0.029800274763147172 MPVDERDLQAA 11 Unmodified _MPVDERDLQAA_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 622.8031005859375 2 622.80062 1243.58669 3.8536 0.0024 -0.39267 -0.00024455 3.461 0.0021555 622.8005135159914 38.321 0.40186 38.321 38.146 38.548 0 34 16 3 0 0 0 9.2463E-05 2 17385 17385;17436 115.06 87.836 1 2014200 20203 4495 12713 12764 23531;23532 23531 -0.025363559305333183 MPVDERDLQAA 11 Unmodified _MPVDERDLQAA_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 622.803466796875 2 622.80062 1243.58669 3.5539 0.0022134 0.034552 2.1519E-05 3.5885 0.0022349 622.800893987017 38.182 0.41401 38.446 38.216 38.63 0.26408 25 12 3 0 0 0 3.1355E-06 1 17412 17412 105.35 83.755 1 1252200 20204 4495 12713 12764 23533 23533 -0.025363559305333183 MPVDERDLQAA 11 Unmodified _MPVDERDLQAA_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 622.80062 1243.58669 3.4173 0.0021283 -1.2311 -0.00076675 2.1862 0.0013615 622.8004916340424 37.326 0.45059 38.122 37.935 38.385 0.79552 -0.15605 -0.00092106 NaN 105.35 46 20 3 NaN NaN NaN NaN 0 NaN NaN 0 1629700 20205 4495 12713 12764 -0.025363559305333183 MPVDERDLQAA 11 Unmodified _MPVDERDLQAA_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 622.80062 1243.58669 3.6226 0.0022562 -0.93359 -0.00058144 2.689 0.0016747 622.8008454884144 37.589 0.37978 38.223 38.058 38.438 0.63388 -0.055042 -0.00055045 NaN 105.35 31 12 4 NaN NaN NaN NaN 0 NaN NaN 0 1189900 20206 4495 12713 12764 -0.025363559305333183 MPVDSFNSM 9 Unmodified _MPVDSFNSM_ 0 0 0 ENST00000588207.1_1_18:57637691-57638603:+|nuORF;ENST00000606261.1_1_7:26224125-26225400:+|nuORF;ENSG00000050344|ENST00000056233|NFE2L3 ENST00000588207.1_1_18:57637691-57638603:+|nuORF ENST00000588207.1_1_18:57637691-57638603:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.21630859375 2 514.214803 1026.41505 3.3755 0.0017357 -0.18139 -9.3272E-05 3.1941 0.0016425 514.2146696823477 57.5 0.31973 57.764 57.705 58.025 0.26444 37 20 2 0 0 0 0.0044949 2 26340 26340;26399 92.822 58.72 1 1166100 20207 583 12714 12765 23534;23535 23534 -0.09709804222575258 MPVDSFNSM 9 Unmodified _MPVDSFNSM_ 0 0 0 ENST00000588207.1_1_18:57637691-57638603:+|nuORF;ENST00000606261.1_1_7:26224125-26225400:+|nuORF;ENSG00000050344|ENST00000056233|NFE2L3 ENST00000588207.1_1_18:57637691-57638603:+|nuORF ENST00000588207.1_1_18:57637691-57638603:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.2164916992188 2 514.214803 1026.41505 3.4806 0.0017898 -0.16541 -8.5055E-05 3.3152 0.0017047 514.2146074474717 57.042 0.33583 57.71 57.551 57.887 0.66829 23 14 2 0 0 0 0.038142 2 26095 26095;26159 52.268 30.522 1 851710 20208 583 12714 12765 23536;23537 23536 -0.09709804222575258 MPVETFSEF 9 Unmodified _MPVETFSEF_ 0 0 0 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1086.4849853515625 1 1086.48122 1085.47395 2.6221 0.0028488 0.39147 0.00042532 3.0135 0.0032742 1086.4816177238451 73.725 0.22837 73.725 73.62 73.849 0 35 19 2 0 0 0 0.00147 2 35978 35925;35978 109.63 38.914 1 4091100 20209 2481 12715 12766 23538;23539 23539 -0.06537004656593126 MPVETFSEF 9 Unmodified _MPVETFSEF_ 0 0 0 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.7462768554688 2 543.74425 1085.47395 2.9143 0.0015846 -0.06053 -3.2913E-05 2.8538 0.0015517 543.7442278777868 73.749 0.35256 73.749 73.57 73.922 0 101 34 4 0 0 0 0.018173 3 35926 35926;35984;36031 70.716 10.326 1 11022000 20210 2481 12715 12766 23540;23541;23542 23540 -0.06537004656593126 MPVETFSEF 9 Unmodified _MPVETFSEF_ 0 0 0 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1086.4844970703125 1 1086.48122 1085.47395 3.0341 0.0032965 -0.3093 -0.00033604 2.7248 0.0029605 1086.4810906493772 72.789 0.27796 73.488 73.362 73.64 0.69881 54 23 3 0 0 0 0.0022375 3 35082 35034;35082;35133 101.72 36.613 1 4298600 20211 2481 12715 12766 23543;23544;23545 23544 -0.06537004656593126 MPVETFSEF 9 Unmodified _MPVETFSEF_ 0 0 0 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.744873046875 2 543.74425 1085.47395 2.6492 0.0014405 0.090477 4.9196E-05 2.7397 0.0014897 543.7443523116468 72.801 0.41237 73.5 73.315 73.727 0.69881 113 39 4 0 0 0 0.0022375 3 35035 35035;35083;35134 101.72 41.332 1 11556000 20212 2481 12715 12766 23546;23547;23548 23546 -0.06537004656593126 MPVETFSEF 9 Unmodified _MPVETFSEF_ 0 0 0 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.7460327148438 2 543.74425 1085.47395 3.1346 0.0017044 -0.085587 -4.6538E-05 3.0491 0.0016579 543.7441732430065 73.483 0.40124 73.741 73.548 73.95 0.25876 93 37 3 0 0 0 0.026068 3 33737 33689;33737;33782 60.39 9.5345 1 4694900 20213 2481 12715 12766 23549;23550;23551 23550 -0.06537004656593126 MPVETFSEF 9 Unmodified _MPVETFSEF_ 0 0 0 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1086.4853515625 1 1086.48122 1085.47395 2.886 0.0031356 -0.12333 -0.000134 2.7627 0.0030016 1086.481042120535 73.483 0.29919 73.742 73.557 73.856 0.25876 46 26 2 0 0 0 0.0061269 3 33743 33696;33743;33787 89.427 45.02 1 1521800 20214 2481 12715 12766 23552;23553;23554 23553 -0.06537004656593126 MPVETFSEF 9 Unmodified _MPVETFSEF_ 0 0 0 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1086.484619140625 1 1086.48122 1085.47395 2.8098 0.0030528 -0.12731 -0.00013832 2.6825 0.0029145 1086.4806579553995 72.986 0.28613 73.65 73.516 73.802 0.66398 48 27 2 0 0 0 0.015468 3 33515 33469;33515;33569 74.423 30.016 1 1693200 20215 2481 12715 12766 23555;23556;23557 23556 -0.06537004656593126 MPVETFSEF 9 Unmodified _MPVETFSEF_ 0 0 0 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.7457275390625 2 543.74425 1085.47395 2.8856 0.001569 -0.13145 -7.1474E-05 2.7542 0.0014976 543.7442768250526 72.999 0.36978 73.663 73.47 73.839 0.66397 93 37 3 0 0 0 0.012869 3 33529 33476;33529;33584 77.984 17.595 1 4773800 20216 2481 12715 12766 23558;23559;23560 23559 -0.06537004656593126 MPVETFSEF 9 Oxidation (M) _M(Oxidation (M))PVETFSEF_ M(1)PVETFSEF M(60)PVETFSEF 0 0 1 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 551.7433471679688 2 551.741708 1101.46886 3.3968 0.0018741 -0.69667 -0.00038438 2.7001 0.0014897 551.7412799990146 63.972 0.43362 64.22 64.035 64.468 0.24802 42 26 3 0 0 0 0.026068 1 29316 29316 60.39 24.345 1 932470 20217 2481 12715 12767 23561 23561 33 -0.07781308519224694 MPVETFSEF 9 Oxidation (M) _M(Oxidation (M))PVETFSEF_ M(1)PVETFSEF M(60)PVETFSEF 0 0 1 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;ENST00000486515.1_1_1:19401328-19404299:-|nuORF nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.7437744140625 2 551.741708 1101.46886 3.4756 0.0019176 -0.45547 -0.0002513 3.0201 0.0016663 551.741337908151 63.472 0.41622 64.13 63.888 64.304 0.65809 41 27 2 0 0 0 0.026068 1 29076 29076 60.39 24.345 1 663380 20218 2481 12715 12767 23562 23562 33 -0.07781308519224694 MPVFPDFKM 9 Unmodified _MPVFPDFKM_ 0 0 0 nc|ENSG00000006712|Q8N7H5-3|PAF1;ENSG00000006712|ENST00000221265|PAF1 nc|ENSG00000006712|Q8N7H5-3|PAF1 nc|ENSG00000006712|Q8N7H5-3|PAF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.270751953125 2 556.269381 1110.52421 2.9331 0.0016316 -0.10716 -5.961E-05 2.826 0.001572 556.2693903183493 78.077 0.17296 78.077 77.951 78.124 0 21 15 2 0 0 0 0.078225 1 38308 38308 38.176 21.233 1 2695700 20219 355 12716 12768 23563 23563 -0.02663173532437213 MPVFPDFKM 9 Unmodified _MPVFPDFKM_ 0 0 0 nc|ENSG00000006712|Q8N7H5-3|PAF1;ENSG00000006712|ENST00000221265|PAF1 nc|ENSG00000006712|Q8N7H5-3|PAF1 nc|ENSG00000006712|Q8N7H5-3|PAF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 556.2711791992188 2 556.269381 1110.52421 2.7319 0.0015197 -0.072029 -4.0067E-05 2.6599 0.0014796 556.2693934747763 76.972 0.3479 77.596 77.451 77.799 0.62397 57 25 3 0 0 0 0.0095519 1 37327 37327 82.529 54.042 1 1206600 20220 355 12716 12768 23564 23564 -0.02663173532437213 MPVFPDFKM 9 Unmodified _MPVFPDFKM_ 0 0 0 nc|ENSG00000006712|Q8N7H5-3|PAF1;ENSG00000006712|ENST00000221265|PAF1 nc|ENSG00000006712|Q8N7H5-3|PAF1 nc|ENSG00000006712|Q8N7H5-3|PAF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.27001953125 2 556.269381 1110.52421 3.4292 0.0019075 -0.75586 -0.00042046 2.6733 0.0014871 556.2692049301361 77.696 0.35545 77.95 77.809 78.164 0.25335 45 20 3 0 0 0 0.013715 2 35760 35760;35807 76.825 40.781 1 1358000 20221 355 12716 12768 23565;23566 23565 -0.02663173532437213 MPVFPDFKM 9 Unmodified _MPVFPDFKM_ 0 0 0 nc|ENSG00000006712|Q8N7H5-3|PAF1;ENSG00000006712|ENST00000221265|PAF1 nc|ENSG00000006712|Q8N7H5-3|PAF1 nc|ENSG00000006712|Q8N7H5-3|PAF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.2716064453125 2 556.269381 1110.52421 3.3013 0.0018364 -0.26954 -0.00014994 3.0318 0.0016865 556.2694743103697 77.273 0.29369 77.936 77.76 78.054 0.66303 58 24 3 0 0 0 0.019364 2 35618 35572;35618 69.105 40.618 1 1319000 20222 355 12716 12768 23567;23568 23568 -0.02663173532437213 MPVFPDFKM 9 Oxidation (M) _MPVFPDFKM(Oxidation (M))_ MPVFPDFKM(1) M(-58)PVFPDFKM(58) 0 0 1 nc|ENSG00000006712|Q8N7H5-3|PAF1;ENSG00000006712|ENST00000221265|PAF1 nc|ENSG00000006712|Q8N7H5-3|PAF1 nc|ENSG00000006712|Q8N7H5-3|PAF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.2701416015625 2 564.266838 1126.51912 3.4576 0.001951 -1.0488 -0.00059182 2.4087 0.0013592 564.2672673203318 64.285 0.41752 64.533 64.226 64.644 0.24803 32 26 2 0 0 0 0.02812 1 29453 29453 57.722 34.574 2 411960 20223 355 12716 12769 23569 23569 0 -0.03907477395068781 MPVGDPPRTVL 11 Unmodified _MPVGDPPRTVL_ 0 0 0 ENSG00000103067|ENST00000473183|ESRP2;nc|ENSG00000103067|Q9H6T0|ESRP2 ENSG00000103067|ENST00000473183|ESRP2 ENSG00000103067|ENST00000473183|ESRP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.3231201171875 2 591.320991 1180.62743 NaN NaN NaN NaN NaN NaN NaN 48.917 1 49.179 48.679 49.679 0.26209 0 0 0 0.88712 1 22361 22361 17.443 6.6431 1 20224 1374 12717 12770 23570 23570 0.044340301797319626 MPVGERNTH 9 Unmodified _MPVGERNTH_ 0 0 0 REV__ENST00000473770.5_1_22:32015600-32017204:-|nuORF REV__ENST00000473770.5_1_22:32015600-32017204:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.75146484375 2 520.750733 1039.48691 3.3803 0.0017603 0.20409 0.00010628 3.5844 0.0018666 520.7506843756862 83.991 0.38271 84.239 84.033 84.415 0.24722 56 21 3 0 0 0 0.12301 2 38620 38620;38662 28.487 21.747 1 4168300 + 20225 14614 12718 12771 23571;23572 23571 -0.03125128753845274 MPVHAAVQM 9 Unmodified _MPVHAAVQM_ 0 0 0 nc|ENSG00000071794|Q14527-2|HLTF;ENSG00000071794|ENST00000310053|HLTF nc|ENSG00000071794|Q14527-2|HLTF nc|ENSG00000071794|Q14527-2|HLTF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.2443542480469 2 492.243698 982.472843 3.2932 0.0016211 -0.89594 -0.00044102 2.3973 0.00118 492.2435316336424 36.626 0.23591 37.256 37.141 37.377 0.62999 23 10 3 0 0 0 0.68496 1 16791 16791 9.3474 0 1 181490 20226 780 12719 12772 23573 23573 -0.019094975064831488 MPVLDVKL 8 Unmodified _MPVLDVKL_ 0 0 0 nc|ENSG00000114125|Q9UBF6-3|RNF7 nc|ENSG00000114125|Q9UBF6-3|RNF7 nc|ENSG00000114125|Q9UBF6-3|RNF7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.7734680175781 2 457.772614 913.530675 3.0379 0.0013907 -0.14198 -6.4993E-05 2.8959 0.0013257 457.7727738727723 68.29 0.23685 68.542 68.386 68.623 0.25227 29 14 3 0 0 0 0.49519 1 31288 31288 21.537 1.0834 1 624730 20227 9601 12720 12773 23574 23574 0.07045087690585206 MPVLDVKL 8 Unmodified _MPVLDVKL_ 0 0 0 nc|ENSG00000114125|Q9UBF6-3|RNF7 nc|ENSG00000114125|Q9UBF6-3|RNF7 nc|ENSG00000114125|Q9UBF6-3|RNF7 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 457.772614 913.530675 2.874 0.0013157 0.53385 0.00024438 3.4079 0.00156 457.77293274476267 67.736 0.22713 68.393 68.259 68.486 0.65777 -0.074512 0.00034388 NaN 21.537 23 12 2 NaN NaN NaN NaN 0 NaN NaN 0 348930 20228 9601 12720 12773 0.07045087690585206 MPVLEQSVL 9 Unmodified _MPVLEQSVL_ 0 0 0 ENSG00000073614|ENST00000399788|KDM5A;nc|ENSG00000073614|P29375-2|KDM5A;ENST00000497100.5_1_X:53227940-53240837:-|nuORF;KDM5C|p.G845Rfs*2|1|0.5|ENSG00000126012|chrX:53197854-53197860|GTAGACC/-|frameshift_variant;KDM5C|p.E886Rfs*49|1|0.59|ENSG00000126012|chrX:53197011-53197011|C/-|frameshift_variant;KDM5C|p.H988Tfs*18|1|0.35|ENSG00000126012|chrX:53196705-53196705|G/-|frameshift_variant;nc|ENSG00000126012|P41229-4|KDM5C;KDM5C|p.R1396Lfs*17|1|0.18|ENSG00000126012|chrX:53193560-53193567|GGGGGCCC/-|frameshift_variant;KDM5C|p.D1414Efs*54|1|0.32|ENSG00000126012|chrX:53193502-53193512|TGTGGTTCTCA/-|frameshift_variant;nc|ENSG00000126012|P41229-3|KDM5C;nc|ENSG00000126012|P41229-2|KDM5C;nc|ENSG00000126012|P41229-5|KDM5C;ENSG00000126012|ENST00000375401|KDM5C ENSG00000073614|ENST00000399788|KDM5A ENSG00000073614|ENST00000399788|KDM5A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.27899169921875 2 508.27826 1014.54197 2.4971 0.0012692 0.81928 0.00041642 3.3163 0.0016856 508.2787248685775 72.675 0.24586 72.675 72.528 72.774 0 33 21 2 0 0 0 0.09451 1 35336 35336 34.102 5.6156 1 1124800 20229 810 12721 12774 23575 23575 0.03527864994077845 MPVLEQSVL 9 Unmodified _MPVLEQSVL_ 0 0 0 ENSG00000073614|ENST00000399788|KDM5A;nc|ENSG00000073614|P29375-2|KDM5A;ENST00000497100.5_1_X:53227940-53240837:-|nuORF;KDM5C|p.G845Rfs*2|1|0.5|ENSG00000126012|chrX:53197854-53197860|GTAGACC/-|frameshift_variant;KDM5C|p.E886Rfs*49|1|0.59|ENSG00000126012|chrX:53197011-53197011|C/-|frameshift_variant;KDM5C|p.H988Tfs*18|1|0.35|ENSG00000126012|chrX:53196705-53196705|G/-|frameshift_variant;nc|ENSG00000126012|P41229-4|KDM5C;KDM5C|p.R1396Lfs*17|1|0.18|ENSG00000126012|chrX:53193560-53193567|GGGGGCCC/-|frameshift_variant;KDM5C|p.D1414Efs*54|1|0.32|ENSG00000126012|chrX:53193502-53193512|TGTGGTTCTCA/-|frameshift_variant;nc|ENSG00000126012|P41229-3|KDM5C;nc|ENSG00000126012|P41229-2|KDM5C;nc|ENSG00000126012|P41229-5|KDM5C;ENSG00000126012|ENST00000375401|KDM5C ENSG00000073614|ENST00000399788|KDM5A ENSG00000073614|ENST00000399788|KDM5A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.27734375 2 508.27826 1014.54197 2.6013 0.0013222 -0.67014 -0.00034062 1.9312 0.00098158 508.27784263068395 71.817 0.13976 72.521 72.437 72.577 0.70386 24 15 2 0 0 0 0.24465 1 34536 34536 20.454 2.3186 1 1814700 20230 810 12721 12774 23576 23576 0.03527864994077845 MPVLEQSVL 9 Unmodified _MPVLEQSVL_ 0 0 0 ENSG00000073614|ENST00000399788|KDM5A;nc|ENSG00000073614|P29375-2|KDM5A;ENST00000497100.5_1_X:53227940-53240837:-|nuORF;KDM5C|p.G845Rfs*2|1|0.5|ENSG00000126012|chrX:53197854-53197860|GTAGACC/-|frameshift_variant;KDM5C|p.E886Rfs*49|1|0.59|ENSG00000126012|chrX:53197011-53197011|C/-|frameshift_variant;KDM5C|p.H988Tfs*18|1|0.35|ENSG00000126012|chrX:53196705-53196705|G/-|frameshift_variant;nc|ENSG00000126012|P41229-4|KDM5C;KDM5C|p.R1396Lfs*17|1|0.18|ENSG00000126012|chrX:53193560-53193567|GGGGGCCC/-|frameshift_variant;KDM5C|p.D1414Efs*54|1|0.32|ENSG00000126012|chrX:53193502-53193512|TGTGGTTCTCA/-|frameshift_variant;nc|ENSG00000126012|P41229-3|KDM5C;nc|ENSG00000126012|P41229-2|KDM5C;nc|ENSG00000126012|P41229-5|KDM5C;ENSG00000126012|ENST00000375401|KDM5C ENSG00000073614|ENST00000399788|KDM5A ENSG00000073614|ENST00000399788|KDM5A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.2789611816406 2 508.27826 1014.54197 3.0321 0.0015412 -0.1986 -0.00010094 2.8335 0.0014402 508.2782453256957 72.133 0.28702 72.391 72.292 72.579 0.25876 63 27 3 0 0 0 0.14729 3 33089 33089;33095;33154 26.884 8.8133 1 1357000 20231 810 12721 12774 23577;23578;23579 23577 0.03527864994077845 MPVLEQSVL 9 Unmodified _MPVLEQSVL_ 0 0 0 ENSG00000073614|ENST00000399788|KDM5A;nc|ENSG00000073614|P29375-2|KDM5A;ENST00000497100.5_1_X:53227940-53240837:-|nuORF;KDM5C|p.G845Rfs*2|1|0.5|ENSG00000126012|chrX:53197854-53197860|GTAGACC/-|frameshift_variant;KDM5C|p.E886Rfs*49|1|0.59|ENSG00000126012|chrX:53197011-53197011|C/-|frameshift_variant;KDM5C|p.H988Tfs*18|1|0.35|ENSG00000126012|chrX:53196705-53196705|G/-|frameshift_variant;nc|ENSG00000126012|P41229-4|KDM5C;KDM5C|p.R1396Lfs*17|1|0.18|ENSG00000126012|chrX:53193560-53193567|GGGGGCCC/-|frameshift_variant;KDM5C|p.D1414Efs*54|1|0.32|ENSG00000126012|chrX:53193502-53193512|TGTGGTTCTCA/-|frameshift_variant;nc|ENSG00000126012|P41229-3|KDM5C;nc|ENSG00000126012|P41229-2|KDM5C;nc|ENSG00000126012|P41229-5|KDM5C;ENSG00000126012|ENST00000375401|KDM5C ENSG00000073614|ENST00000399788|KDM5A ENSG00000073614|ENST00000399788|KDM5A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.2798767089844 2 508.27826 1014.54197 2.6429 0.0013433 -0.058395 -2.9681E-05 2.5845 0.0013136 508.27827833240343 71.771 0.31926 72.434 72.27 72.59 0.66324 44 20 3 0 0 0 0.041436 2 32914 32867;32914 50.855 20.63 1 1549400 20232 810 12721 12774 23580;23581 23581 0.03527864994077845 MPVLKVVL 8 Unmodified _MPVLKVVL_ 0 0 0 nc|ENSG00000138674|O94979-3|SEC31A;nc|ENSG00000138674|O94979-9|SEC31A;nc|ENSG00000138674|O94979-2|SEC31A;ENSG00000138674|ENST00000395310|SEC31A;nc|ENSG00000138674|O94979-8|SEC31A;nc|ENSG00000138674|O94979-6|SEC31A;nc|ENSG00000138674|O94979-10|SEC31A;nc|ENSG00000138674|O94979-4|SEC31A;ENST00000505479.1_1_4:83740229-83742267:-|nuORF;nc|ENSG00000138674|O94979-7|SEC31A nc|ENSG00000138674|O94979-3|SEC31A nc|ENSG00000138674|O94979-3|SEC31A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 449.79541015625 2 449.793349 897.572146 2.7171 0.0012221 0.9575 0.00043068 3.6746 0.0016528 449.7938295817107 70.452 0.34177 70.708 70.474 70.816 0.25642 60 25 3 0 0 0 0.10141 3 32246 32199;32246;32296 53.576 32.704 1 1305800 20233 3111 12722 12775 23582;23583;23584 23583 0.11926268449906274 MPVLKVVL 8 Unmodified _MPVLKVVL_ 0 0 0 nc|ENSG00000138674|O94979-3|SEC31A;nc|ENSG00000138674|O94979-9|SEC31A;nc|ENSG00000138674|O94979-2|SEC31A;ENSG00000138674|ENST00000395310|SEC31A;nc|ENSG00000138674|O94979-8|SEC31A;nc|ENSG00000138674|O94979-6|SEC31A;nc|ENSG00000138674|O94979-10|SEC31A;nc|ENSG00000138674|O94979-4|SEC31A;ENST00000505479.1_1_4:83740229-83742267:-|nuORF;nc|ENSG00000138674|O94979-7|SEC31A nc|ENSG00000138674|O94979-3|SEC31A nc|ENSG00000138674|O94979-3|SEC31A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 449.7951965332031 2 449.793349 897.572146 2.7261 0.0012262 0.94282 0.00042407 3.6689 0.0016503 449.7938043351924 69.868 0.30064 70.529 70.352 70.652 0.66072 47 21 3 0 0 0 0.10141 2 32054 32004;32054 53.576 32.704 1 1277800 20234 3111 12722 12775 23585;23586 23586 0.11926268449906274 MPVLRREFHRR 11 Unmodified _MPVLRREFHRR_ 0 0 0 REV__ENST00000475627.1_1_6:32918275-32920806:-|nuORF REV__ENST00000475627.1_1_6:32918275-32920806:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.6189880371094 3 499.617494 1495.83065 NaN NaN NaN NaN NaN NaN NaN 55.483 1 55.483 54.983 55.983 0 0 0 0 1.0073 1 25501 25501 0.40827 0 1 + 20235 16644 12723 12776 23587 23587 0.10257192744688837 MPVMEQSVL 9 Unmodified _MPVMEQSVL_ 0 0 0 nc|ENSG00000117139|Q9UGL1-2|KDM5B;ENSG00000117139|ENST00000367265|KDM5B;KDM5B|p.D895Vfs*26|1|0.35|ENSG00000117139|chr1:202741628-202741628|T/-|frameshift_variant nc|ENSG00000117139|Q9UGL1-2|KDM5B nc|ENSG00000117139|Q9UGL1-2|KDM5B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.2586669921875 2 517.256471 1032.49839 NaN NaN NaN NaN NaN NaN NaN 65.638 1 65.638 65.138 66.138 0 0 0 0 0.21088 1 31283 31283 30.637 2.1497 1 20236 2061 12724 12777 23588 23588 -0.01656067774706571 MPVMEQSVL 9 Unmodified _MPVMEQSVL_ 0 0 0 nc|ENSG00000117139|Q9UGL1-2|KDM5B;ENSG00000117139|ENST00000367265|KDM5B;KDM5B|p.D895Vfs*26|1|0.35|ENSG00000117139|chr1:202741628-202741628|T/-|frameshift_variant nc|ENSG00000117139|Q9UGL1-2|KDM5B nc|ENSG00000117139|Q9UGL1-2|KDM5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.2578735351562 2 517.256471 1032.49839 3.5449 0.0018336 -0.62417 -0.00032286 2.9208 0.0015108 517.2563992911902 65.364 0.3018 65.612 65.416 65.717 0.24803 30 14 3 0 0 0 0.052704 2 29967 29915;29967 46.021 26.764 1 1241100 20237 2061 12724 12777 23589;23590 23590 -0.01656067774706571 MPVMEQSVL 9 Unmodified _MPVMEQSVL_ 0 0 0 nc|ENSG00000117139|Q9UGL1-2|KDM5B;ENSG00000117139|ENST00000367265|KDM5B;KDM5B|p.D895Vfs*26|1|0.35|ENSG00000117139|chr1:202741628-202741628|T/-|frameshift_variant nc|ENSG00000117139|Q9UGL1-2|KDM5B nc|ENSG00000117139|Q9UGL1-2|KDM5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.2579345703125 2 517.256471 1032.49839 3.504 0.0018125 -0.95247 -0.00049267 2.5515 0.0013198 517.2560972705492 64.787 0.26144 65.444 65.319 65.58 0.65672 29 14 3 0 0 0 0.09451 2 29683 29683;29737 34.102 12.356 1 1447800 20238 2061 12724 12777 23591;23592 23591 -0.01656067774706571 MPVPEILQL 9 Unmodified _MPVPEILQL_ 0 0 0 nc|ENSG00000184719|Q5VYX0-2|RNLS;ENSG00000184719|ENST00000331772|RNLS nc|ENSG00000184719|Q5VYX0-2|RNLS nc|ENSG00000184719|Q5VYX0-2|RNLS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.298095703125 2 520.296453 1038.57835 4.0462 0.0021052 -0.32954 -0.00017146 3.7166 0.0019337 520.2964036202833 94.177 0.34164 94.437 94.257 94.599 0.25975 33 15 3 0 0 0 0.16976 2 43265 43265;43335 25.399 25.399 1 932630 20239 5458 12725 12778 23593;23594 23593 0.060607418907920874 MPVPEILQL 9 Unmodified _MPVPEILQL_ 0 0 0 nc|ENSG00000184719|Q5VYX0-2|RNLS;ENSG00000184719|ENST00000331772|RNLS nc|ENSG00000184719|Q5VYX0-2|RNLS nc|ENSG00000184719|Q5VYX0-2|RNLS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.2979736328125 2 520.296453 1038.57835 3.5666 0.0018557 -0.21666 -0.00011273 3.3499 0.001743 520.296421445716 93.566 0.42 94.197 93.975 94.395 0.63115 32 17 3 0 0 0 0.16976 1 43058 43058 25.399 25.399 1 922010 20240 5458 12725 12778 23595 23595 0.060607418907920874 MPVPEILQL 9 Unmodified _MPVPEILQL_ 0 0 0 nc|ENSG00000184719|Q5VYX0-2|RNLS;ENSG00000184719|ENST00000331772|RNLS nc|ENSG00000184719|Q5VYX0-2|RNLS nc|ENSG00000184719|Q5VYX0-2|RNLS MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 520.296453 1038.57835 3.5666 0.0018557 -0.21666 -0.00011273 3.3499 0.001743 520.296421445716 93.566 0.42 94.197 93.975 94.395 0.63115 -0.12027 5.493E-05 NaN 25.399 32 17 3 NaN NaN NaN NaN 0 NaN NaN 0 922010 20241 5458 12725 12778 0.060607418907920874 MPVSEEVPL 9 Unmodified _MPVSEEVPL_ 0 0 0 nc|ENSG00000130653|Q6ZV29-4|PNPLA7;nc|ENSG00000130653|Q6ZV29-3|PNPLA7;nc|ENSG00000130653|Q6ZV29|PNPLA7;ENSG00000130653|ENST00000406427|PNPLA7 nc|ENSG00000130653|Q6ZV29-4|PNPLA7 nc|ENSG00000130653|Q6ZV29-4|PNPLA7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.75653076171875 2 500.754618 999.494683 3.2115 0.0016082 -0.060069 -3.008E-05 3.1515 0.0015781 500.7548339498247 83.976 0.41942 84.223 84.033 84.452 0.24722 57 23 3 0 0 0 0.11001 1 38650 38650 30.225 5.5509 1 1922800 20242 9638 12726 12779 23596 23596 -0.005084142769192113 MPVSEEVPL 9 Unmodified _MPVSEEVPL_ 0 0 0 nc|ENSG00000130653|Q6ZV29-4|PNPLA7;nc|ENSG00000130653|Q6ZV29-3|PNPLA7;nc|ENSG00000130653|Q6ZV29|PNPLA7;ENSG00000130653|ENST00000406427|PNPLA7 nc|ENSG00000130653|Q6ZV29-4|PNPLA7 nc|ENSG00000130653|Q6ZV29-4|PNPLA7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.7564392089844 2 500.754618 999.494683 3.3665 0.0016858 -0.61221 -0.00030656 2.7543 0.0013792 500.75464448631874 83.501 0.39986 84.163 83.98 84.38 0.66219 63 26 3 0 0 0 0.27976 1 38499 38499 18.135 1.1927 1 1441400 20243 9638 12726 12779 23597 23597 -0.005084142769192113 MPVTKGDFEL 10 Unmodified _MPVTKGDFEL_ 0 0 0 ENSG00000102781|ENST00000380615|KATNAL1 ENSG00000102781|ENST00000380615|KATNAL1 ENSG00000102781|ENST00000380615|KATNAL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.7879028320312 2 568.78645 1135.55835 3.1986 0.0018193 -0.58017 -0.00032999 2.6184 0.0014893 568.786387178432 54.218 0.48336 55.014 54.817 55.3 0.79552 59 28 3 0 0 0 0.22376 1 24727 24727 36.506 10.238 1 523770 20244 1353 12727 12780 23598 23598 -0.004010538398460994 MPVTKGDFEL 10 Unmodified _MPVTKGDFEL_ 0 0 0 ENSG00000102781|ENST00000380615|KATNAL1 ENSG00000102781|ENST00000380615|KATNAL1 ENSG00000102781|ENST00000380615|KATNAL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.78955078125 2 568.78645 1135.55835 NaN NaN NaN NaN NaN NaN NaN 55.437 1 55.703 55.203 56.203 0.26543 0 0 0 0.93823 1 25351 25351 15.248 3.0078 1 20245 1353 12727 12780 23599 23599 -0.004010538398460994 MPVTKGDFEL 10 Unmodified _MPVTKGDFEL_ 0 0 0 ENSG00000102781|ENST00000380615|KATNAL1 ENSG00000102781|ENST00000380615|KATNAL1 ENSG00000102781|ENST00000380615|KATNAL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.7864990234375 2 568.78645 1135.55835 NaN NaN NaN NaN NaN NaN NaN 54.57 1 55.236 54.736 55.736 0.6665 0 0 0 0.15436 1 24966 24966 49.554 11.379 1 20246 1353 12727 12780 23600 23600 -0.004010538398460994 MPVVDSGNRQ 10 Unmodified _MPVVDSGNRQ_ 0 0 0 ENSG00000154274|ENST00000381980|C4orf19 ENSG00000154274|ENST00000381980|C4orf19 ENSG00000154274|ENST00000381980|C4orf19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.7706909179688 2 551.769123 1101.52369 NaN NaN NaN NaN NaN NaN NaN 31.351 1 31.351 30.851 31.851 0 0 0 0 0.98985 1 14181 14181 7.1017 0.89594 1 20247 3816 12728 12781 23601 23601 -0.023008769279385888 MPYGFHGTF 9 Unmodified _MPYGFHGTF_ 0 0 0 ENST00000532673.1_1_11:112086906-112088594:+|nuORF;nc|ENSG00000197580|Q9BYV7-6|BCO2;nc|ENSG00000197580|Q9BYV7-5|BCO2;nc|ENSG00000197580|Q9BYV7-4|BCO2;nc|ENSG00000197580|Q9BYV7-2|BCO2;ENSG00000197580|ENST00000357685|BCO2 ENST00000532673.1_1_11:112086906-112088594:+|nuORF ENST00000532673.1_1_11:112086906-112088594:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.735107421875 2 528.73402 1055.45349 3.2203 0.0017027 -0.20493 -0.00010835 3.0153 0.0015943 528.7337394487753 83.991 0.30597 84.239 84.062 84.368 0.24722 28 17 2 0 0 0 0.29523 1 38621 38621 18.135 7.3111 1 1018400 20248 5829 12729 12782 23602 23602 -0.07202130525752182 MPYGFHGTF 9 Unmodified _MPYGFHGTF_ 0 0 0 ENST00000532673.1_1_11:112086906-112088594:+|nuORF;nc|ENSG00000197580|Q9BYV7-6|BCO2;nc|ENSG00000197580|Q9BYV7-5|BCO2;nc|ENSG00000197580|Q9BYV7-4|BCO2;nc|ENSG00000197580|Q9BYV7-2|BCO2;ENSG00000197580|ENST00000357685|BCO2 ENST00000532673.1_1_11:112086906-112088594:+|nuORF ENST00000532673.1_1_11:112086906-112088594:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.7357788085938 2 528.73402 1055.45349 3.4076 0.0018017 -0.53218 -0.00028138 2.8755 0.0015204 528.733816512022 83.493 0.32213 84.155 84.006 84.328 0.66219 37 20 3 0 0 0 0.55815 1 38416 38416 11.64 4.9171 1 621740 20249 5829 12729 12782 23603 23603 -0.07202130525752182 MPYGSRENSL 10 Unmodified _MPYGSRENSL_ 0 0 0 ENST00000601764.5_1_19:4697564-4723732:-|nuORF;ENST00000597145.5_1_19:4685559-4714096:-|nuORF;nc|ENSG00000142002|Q86TI2-4|DPP9;nc|ENSG00000142002|Q86TI2|DPP9;ENSG00000142002|ENST00000262960|DPP9 ENST00000601764.5_1_19:4697564-4723732:-|nuORF ENST00000601764.5_1_19:4697564-4723732:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 577.271240234375 2 577.268955 1152.52336 3.9139 0.0022594 0.01544 8.9131E-06 3.9294 0.0022683 577.2692106132206 29.898 0.29867 29.898 29.758 30.057 0 35 23 2 0 0 0 0.54773 1 13551 13551 19.362 11.452 1 386010 20250 3291 12730 12783 23604 23604 -0.04680296647779869 MPYGSRENSL 10 Unmodified _MPYGSRENSL_ 0 0 0 ENST00000601764.5_1_19:4697564-4723732:-|nuORF;ENST00000597145.5_1_19:4685559-4714096:-|nuORF;nc|ENSG00000142002|Q86TI2-4|DPP9;nc|ENSG00000142002|Q86TI2|DPP9;ENSG00000142002|ENST00000262960|DPP9 ENST00000601764.5_1_19:4697564-4723732:-|nuORF ENST00000601764.5_1_19:4697564-4723732:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.2714233398438 2 577.268955 1152.52336 3.5126 0.0020277 -0.20396 -0.00011774 3.3086 0.00191 577.2687375906705 28.85 0.36448 29.639 29.457 29.822 0.78921 51 28 2 0 0 0 0.72019 2 12961 12961;13009 12.241 4.3305 1 564340 20251 3291 12730 12783 23605;23606 23605 -0.04680296647779869 MPYGSRENSL 10 Unmodified _MPYGSRENSL_ 0 0 0 ENST00000601764.5_1_19:4697564-4723732:-|nuORF;ENST00000597145.5_1_19:4685559-4714096:-|nuORF;nc|ENSG00000142002|Q86TI2-4|DPP9;nc|ENSG00000142002|Q86TI2|DPP9;ENSG00000142002|ENST00000262960|DPP9 ENST00000601764.5_1_19:4697564-4723732:-|nuORF ENST00000601764.5_1_19:4697564-4723732:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.271484375 2 577.268955 1152.52336 3.513 0.002028 -0.046502 -2.6844E-05 3.4665 0.0020011 577.2691772211379 29.662 0.4407 29.92 29.702 30.142 0.25804 88 34 3 0 0 0 0.17772 4 13480 13435;13480;13527;13575 41.956 29.424 1 493260 20252 3291 12730 12783 23607;23608;23609;23610 23608 -0.04680296647779869 MPYGSRENSL 10 Unmodified _MPYGSRENSL_ 0 0 0 ENST00000601764.5_1_19:4697564-4723732:-|nuORF;ENST00000597145.5_1_19:4685559-4714096:-|nuORF;nc|ENSG00000142002|Q86TI2-4|DPP9;nc|ENSG00000142002|Q86TI2|DPP9;ENSG00000142002|ENST00000262960|DPP9 ENST00000601764.5_1_19:4697564-4723732:-|nuORF ENST00000601764.5_1_19:4697564-4723732:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.271240234375 2 577.268955 1152.52336 3.6808 0.0021248 -0.32319 -0.00018657 3.3576 0.0019382 577.268891586738 29.348 0.51075 29.965 29.776 30.287 0.61789 79 34 3 0 0 0 0.1225 4 13455 13410;13455;13507;13555 49.554 31.794 1 707130 20253 3291 12730 12783 23611;23612;23613;23614 23612 -0.04680296647779869 MPYGSRENSL 10 Unmodified _MPYGSRENSL_ 0 0 0 ENST00000601764.5_1_19:4697564-4723732:-|nuORF;ENST00000597145.5_1_19:4685559-4714096:-|nuORF;nc|ENSG00000142002|Q86TI2-4|DPP9;nc|ENSG00000142002|Q86TI2|DPP9;ENSG00000142002|ENST00000262960|DPP9 ENST00000601764.5_1_19:4697564-4723732:-|nuORF ENST00000601764.5_1_19:4697564-4723732:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 577.268955 1152.52336 3.5126 0.0020277 -0.20396 -0.00011774 3.3086 0.00191 577.2687375906705 28.85 0.36448 29.639 29.457 29.822 0.78921 -0.21654 -3.961E-05 NaN 49.554 51 28 2 NaN NaN NaN NaN 0 NaN NaN 0 564340 20254 3291 12730 12783 -0.04680296647779869 MPYIKTSL 8 Unmodified _MPYIKTSL_ 0 0 0 ENSG00000122729|ENST00000309951|ACO1 ENSG00000122729|ENST00000309951|ACO1 ENSG00000122729|ENST00000309951|ACO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 476.7632141113281 2 476.762246 951.50994 2.942 0.0014027 -0.27074 -0.00012908 2.6713 0.0012736 476.7621535137681 51.913 0.45247 52.175 51.934 52.386 0.26227 74 35 3 0 0 0 0.090253 2 23705 23705;23751 54.774 31.625 1 2484300 20255 2281 12731 12784 23615;23616 23615 0.03224497310930019 MPYIKTSL 8 Unmodified _MPYIKTSL_ 0 0 0 ENSG00000122729|ENST00000309951|ACO1 ENSG00000122729|ENST00000309951|ACO1 ENSG00000122729|ENST00000309951|ACO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 476.76385498046875 2 476.762246 951.50994 2.9059 0.0013854 0.11463 5.4653E-05 3.0205 0.0014401 476.76230054653007 51.285 0.3974 51.944 51.778 52.176 0.65956 70 29 3 0 0 0 0.090253 1 23482 23482 54.774 31.625 1 2864100 20256 2281 12731 12784 23617 23617 0.03224497310930019 MPYIKTSL 8 Unmodified _MPYIKTSL_ 0 0 0 ENSG00000122729|ENST00000309951|ACO1 ENSG00000122729|ENST00000309951|ACO1 ENSG00000122729|ENST00000309951|ACO1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 476.762246 951.50994 2.9185 0.0013914 -0.28577 -0.00013625 2.6327 0.0012552 476.7622440611132 52.138 0.24398 52.138 52.006 52.25 0 0.065053 -0.00025216 NaN 54.774 20 16 2 NaN NaN NaN NaN 0 NaN NaN 0 528590 20257 2281 12731 12784 0.03224497310930019 MPYIKTSL 8 Unmodified _MPYIKTSL_ 0 0 0 ENSG00000122729|ENST00000309951|ACO1 ENSG00000122729|ENST00000309951|ACO1 ENSG00000122729|ENST00000309951|ACO1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 476.762246 951.50994 2.544 0.0012129 0.69698 0.00033229 3.241 0.0015452 476.7625200497781 51.215 0.22963 52.033 51.897 52.127 0.81738 -0.03965 0.00068491 NaN 54.774 20 17 2 NaN NaN NaN NaN 0 NaN NaN 0 494680 20258 2281 12731 12784 0.03224497310930019 MPYLEHESF 9 Unmodified _MPYLEHESF_ 0 0 0 ENSG00000097046|ENST00000234626|CDC7 ENSG00000097046|ENST00000234626|CDC7 ENSG00000097046|ENST00000234626|CDC7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.7568359375 2 576.755149 1151.49575 3.4483 0.0019888 -0.15112 -8.7161E-05 3.2972 0.0019017 576.755111528017 53.204 0.36057 53.467 53.273 53.633 0.26344 67 28 3 0 0 0 0.0012997 3 24339 24289;24339;24393 120.45 103.51 1 2393400 20259 1133 12732 12785 23618;23619;23620 23619 -0.07394199908048904 MPYLEHESF 9 Unmodified _MPYLEHESF_ 0 0 0 ENSG00000097046|ENST00000234626|CDC7 ENSG00000097046|ENST00000234626|CDC7 ENSG00000097046|ENST00000234626|CDC7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.2582397460938 2 576.755149 1151.49575 3.5095 0.0020241 0.099516 5.7397E-05 3.609 0.0020815 576.7551510497241 52.737 0.36419 53.399 53.201 53.565 0.66198 51 23 3 0 0 0 0.0019388 2 24124 24071;24124 104.8 87.686 1 3171300 20260 1133 12732 12785 23621;23622 23622 -0.07394199908048904 MPYLEHESF 9 Unmodified _MPYLEHESF_ 0 0 0 ENSG00000097046|ENST00000234626|CDC7 ENSG00000097046|ENST00000234626|CDC7 ENSG00000097046|ENST00000234626|CDC7 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 576.755149 1151.49575 3.0499 0.001759 0.50258 0.00028986 3.5525 0.0020489 576.7554171705347 52.302 0.32676 53.113 52.936 53.262 0.81065 -0.23859 0.00039288 NaN 120.45 56 23 3 NaN NaN NaN NaN 0 NaN NaN 0 1471800 20261 1133 12732 12785 -0.07394199908048904 MQHQCTCCQ 9 Unmodified _MQHQCTCCQ_ 0 0 0 ENSG00000117983|ENST00000529681|MUC5B ENSG00000117983|ENST00000529681|MUC5B ENSG00000117983|ENST00000529681|MUC5B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 361.12823486328125 3 361.127585 1080.36093 NaN NaN NaN NaN NaN NaN NaN 69.726 1 70.429 69.929 70.929 0.70302 0 0 0 0.91342 1 33381 33381 0.26902 0 1 20262 2099 12733 12786 23623 23623 -0.1760404291744635 MQICLSKKKV 10 Unmodified _MQICLSKKKV_ 0 0 0 REV__nc|ENSG00000196535|Q92614-5|MYO18A REV__nc|ENSG00000196535|Q92614-5|MYO18A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.3446655273438 2 589.343412 1176.67227 3.821 0.0022519 -0.18164 -0.00010705 3.6394 0.0021448 589.3430143066869 88.579 0.75498 89.258 89.081 89.836 0.67818 74 32 3 0 0 0 0.93713 1 40977 40977 1.4819 0 1 1294300 + 20263 14228 12734 12787 23624 23624 0.09100137721384272 MQIRKTTFTFR 11 Unmodified _MQIRKTTFTFR_ 0 0 0 REV__ENST00000263228.3_1_9:33920018-33920222:+|nuORF REV__ENST00000263228.3_1_9:33920018-33920222:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 714.8935546875 2 714.892646 1427.77074 NaN NaN NaN NaN NaN NaN NaN 82.944 1 83.605 83.105 84.105 0.66019 0 0 0 0.99038 1 38209 38209 7.609 2.3121 1 + 20264 14997 12735 12788 23625 23625 0.07396457290792569 MQKRKEMQL 9 Unmodified _MQKRKEMQL_ 0 0 0 nc|ENSG00000116560|P23246-2|SFPQ;ENSG00000116560|ENST00000357214|SFPQ nc|ENSG00000116560|P23246-2|SFPQ nc|ENSG00000116560|P23246-2|SFPQ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.88385009765625 3 397.882737 1190.62638 NaN NaN NaN NaN NaN NaN NaN 12.565 1 12.872 12.372 13.372 0.30727 0 0 0 0.46004 1 5667 5667 20.415 3.3016 1 20265 2033 12736 12789 23626 23626 0.03869492539183739 MQLLNWQSS 9 Unmodified _MQLLNWQSS_ 0 0 0 ENST00000345330.8_1_15:73852933-73853083:-|nuORF ENST00000345330.8_1_15:73852933-73853083:-|nuORF ENST00000345330.8_1_15:73852933-73853083:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.7704467773438 2 553.768591 1105.52263 3.4942 0.001935 0.25561 0.00014155 3.7498 0.0020765 553.7689560835325 49.977 0.30183 50.634 50.481 50.783 0.65735 25 10 3 0 0 0 0.64206 1 22911 22911 10.074 0 1 580080 20266 7111 12737 12790 23627 23627 -0.02591091296835657 MQRARPTL 8 Oxidation (M) _M(Oxidation (M))QRARPTL_ M(1)QRARPTL M(44)QRARPTL 0 0 1 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.7725830078125 2 494.771468 987.528384 3.1808 0.0015738 -0.13787 -6.8212E-05 3.0429 0.0015055 494.7713715325887 12.759 0.14735 12.759 12.685 12.833 0 16 7 3 0 0 0 0.19187 1 5571 5571 43.858 25.723 1 2662300 20267 3527 12738 12791 23628 23628 51 0.034120520055012094 MQRARPTL 8 Oxidation (M) _M(Oxidation (M))QRARPTL_ 0 0 1 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 494.771468 987.528384 3.5462 0.0017545 -0.75648 -0.00037428 2.7897 0.0013803 494.7710281253161 12.495 0.11782 13.138 13.092 13.21 0.64272 0.24677 -0.00087636 NaN 43.858 9 3 4 NaN NaN NaN NaN 0 NaN NaN 0 12140000 20268 3527 12738 12791 51 0.034120520055012094 MQRARPTL 8 Unmodified _MQRARPTL_ 0 0 0 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 486.7753601074219 2 486.774011 971.533469 3.2129 0.001564 -0.35015 -0.00017044 2.8628 0.0013935 486.7740247689817 14.218 0.24501 14.218 14.109 14.354 0 63 18 5 0 0 0 0.13532 2 6236 6236;6285 49.933 23.049 1 55598000 20269 3527 12738 12792 23629;23630 23629 0.04656355868121409 MQRARPTL 8 Unmodified _MQRARPTL_ 0 0 0 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 324.8526306152344 3 324.851766 971.533469 2.1771 0.00070724 0.15447 5.0179E-05 2.3316 0.00075742 324.85202655196366 14.219 0.31154 14.219 14.127 14.439 0 79 22 5 0 0 0 0.099011 2 6243 6243;6290 45.74 21.719 1 157800000 20270 3527 12738 12792 23631;23632 23631 0.04656355868121409 MQRARPTL 8 Unmodified _MQRARPTL_ 0 0 0 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 324.8524475097656 3 324.851766 971.533469 2.1209 0.00068898 -0.63488 -0.00020624 1.486 0.00048273 324.85170413929563 13.683 0.24273 13.926 13.791 14.033 0.24346 94 25 5 0 0 0 0.19187 2 5953 5953;5997 36.506 18.133 1 76346000 20271 3527 12738 12792 23633;23634 23633 0.04656355868121409 MQRARPTL 8 Unmodified _MQRARPTL_ 0 0 0 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.7751770019531 2 486.774011 971.533469 3.0153 0.0014678 -0.87207 -0.0004245 2.1433 0.0010433 486.7737561098989 13.68 0.21323 13.924 13.811 14.024 0.24346 74 22 4 0 0 0 0.042878 2 5955 5955;5999 68.081 33.978 1 30020000 20272 3527 12738 12792 23635;23636 23635 0.04656355868121409 MQRARPTL 8 Unmodified _MQRARPTL_ 0 0 0 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.852294921875 3 324.851766 971.533469 2.0557 0.00066779 -0.50856 -0.00016521 1.5471 0.00050258 324.85169207026064 13.962 0.43797 14.27 13.913 14.351 0.30727 187 68 4 0 0 0 0.23933 5 6255 6158;6207;6255;6296;6337 33.445 15.299 1 152670000 20273 3527 12738 12792 23637;23638;23639;23640;23641 23639 0.04656355868121409 MQRARPTL 8 Unmodified _MQRARPTL_ 0 0 0 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.7750549316406 2 486.774011 971.533469 2.7442 0.0013358 -0.040805 -1.9863E-05 2.7034 0.0013159 486.7740076497385 13.703 0.15396 14.01 13.927 14.081 0.30727 23 14 2 0 0 0 0.52777 1 6184 6184 19.257 6.2145 1 1209300 20274 3527 12738 12792 23642 23642 0.04656355868121409 MQRARPTL 8 Unmodified _MQRARPTL_ 0 0 0 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.77435302734375 2 486.774011 971.533469 2.8166 0.001371 -0.53432 -0.00026009 2.2823 0.0011109 486.7738200816123 13.955 0.25709 14.263 14.081 14.338 0.30727 119 50 3 0 0 0 0.042878 2 6262 6262;6303 68.081 38.999 1 72389000 20275 3527 12738 12792 23643;23644 23643 0.04656355868121409 MQRARPTL 8 Unmodified _MQRARPTL_ 0 0 0 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.7754211425781 2 486.774011 971.533469 3.3647 0.0016379 -0.63995 -0.00031151 2.7248 0.0013263 486.7739782262484 13.119 0.39255 13.761 13.58 13.972 0.64272 98 24 5 0 0 0 0.036198 4 5855 5839;5855;5899;5944 71.922 39.137 1 89216000 20276 3527 12738 12792 23645;23646;23647;23648 23646 0.04656355868121409 MQRARPTL 8 Unmodified _MQRARPTL_ 0 0 0 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.8526916503906 3 324.851766 971.533469 2.3657 0.0007685 -0.068628 -2.2294E-05 2.2971 0.0007462 324.8520054947242 13.119 0.42326 13.762 13.58 14.003 0.64272 106 27 5 0 0 0 0.29142 3 5898 5854;5898;5943 31.268 15.002 1 155570000 20277 3527 12738 12792 23649;23650;23651 23650 0.04656355868121409 MQRARPTL 8 Unmodified _MQRARPTL_ 0 0 0 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 324.851766 971.533469 2.2682 0.00073682 -0.81462 -0.00026463 1.4536 0.00047219 324.8515188620934 14.237 0.097403 14.463 14.42 14.517 0.22622 0.14594 -0.0004498 NaN 45.74 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 136340 20278 3527 12738 12792 0.04656355868121409 MQRARPTLWAA 11 Unmodified _MQRARPTLWAA_ 0 0 0 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.23773193359375 3 434.23628 1299.68701 2.8776 0.0012496 0.051899 2.2537E-05 2.9295 0.0012721 434.23634140880114 36.374 0.29604 36.374 36.236 36.532 0 31 12 3 0 0 0 0.78698 2 16507 16507;16562 7.4291 3.842 1 823240 20279 3527 12739 12793 23652;23653 23652 0.049153459137869504 MQRARPTLWAA 11 Unmodified _MQRARPTLWAA_ 0 0 0 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.2382507324219 3 434.23628 1299.68701 2.8608 0.0012423 0.475 0.00020626 3.3358 0.0014485 434.2367933458113 35.383 0.26213 36.175 36.033 36.295 0.79131 29 15 3 0 0 0 0.70479 2 16014 16014;16062 11.065 8.8126 1 770950 20280 3527 12739 12793 23654;23655 23654 0.049153459137869504 MQRARPTLWAA 11 Unmodified _MQRARPTLWAA_ 0 0 0 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.2379150390625 3 434.23628 1299.68701 2.8749 0.0012484 -0.25199 -0.00010942 2.6229 0.0011389 434.2363356784773 36.307 0.40295 36.564 36.348 36.751 0.25768 48 15 5 0 0 0 0.1281 2 16495 16495;16550 37.251 32.845 1 3674200 20281 3527 12739 12793 23656;23657 23656 0.049153459137869504 MQRARPTLWAA 11 Unmodified _MQRARPTLWAA_ 0 0 0 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 650.8538208007812 2 650.850781 1299.68701 3.7566 0.002445 -0.010286 -6.6946E-06 3.7464 0.0024383 650.8507833362019 36.315 0.37778 36.572 36.396 36.774 0.25768 33 14 3 0 0 0 0.11339 2 16510 16510;16566 34.932 26.777 1 1251700 20282 3527 12739 12793 23658;23659 23658 0.049153459137869504 MQRARPTLWAA 11 Unmodified _MQRARPTLWAA_ 0 0 0 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.5720520019531 3 434.23628 1299.68701 3.1476 0.0013668 -0.61424 -0.00026673 2.5333 0.0011001 434.2361935706775 35.749 0.35321 36.375 36.167 36.52 0.62631 43 13 5 0 0 0 0.15998 2 16348 16348;16399 31.462 27.056 1 3675900 20283 3527 12739 12793 23660;23661 23660 0.049153459137869504 MQRARPTLWAA 11 Unmodified _MQRARPTLWAA_ 0 0 0 ENSG00000146674|ENST00000613132|IGFBP3;nc|ENSG00000146674|P17936-2|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 ENSG00000146674|ENST00000613132|IGFBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 650.8524169921875 2 650.850781 1299.68701 4.0242 0.0026191 -0.42994 -0.00027983 3.5942 0.0023393 650.8507192668626 35.767 0.23659 36.394 36.255 36.491 0.62631 24 9 4 0 0 0 0.1209 1 16368 16368 33.445 28.548 1 911170 20284 3527 12739 12793 23662 23662 0.049153459137869504 MRAKKKKKKKK 11 Unmodified _MRAKKKKKKKK_ 0 0 0 ENSG00000183354|ENST00000399933|KIAA2026;KIAA2026|p.N1948Kfs*5|1|0.04|ENSG00000183354|chr9:5920152-5920153|-/AGTCTCCAGC|frameshift_variant ENSG00000183354|ENST00000399933|KIAA2026 ENSG00000183354|ENST00000399933|KIAA2026 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 701.48388671875 2 701.481766 1400.94898 NaN NaN NaN NaN NaN NaN NaN 76.152 1 76.41 75.91 76.91 0.25704 0 0 0 1.0082 1 35058 35058 0 0 1 20285 5377 12740 12794 23663 23663 0.2645417200048996 MREIEGQL 8 Unmodified _MREIEGQL_ 0 0 0 REV__nc|ENSG00000054654|Q8WXH0|SYNE2 REV__nc|ENSG00000054654|Q8WXH0|SYNE2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.25201416015625 2 488.250034 974.485516 3.2423 0.001583 0.18533 9.049E-05 3.4276 0.0016735 488.2500050089314 52.963 0.62182 53.227 53.011 53.633 0.26345 90 43 4 0 0 0 0.12673 1 24212 24212 50.855 0 1 4952200 + 20286 10365 12741 12795 23664 23664 -0.002747628425822768 MRFYTRLF 8 Unmodified _MRFYTRLF_ 0 0 0 REV__ENSG00000003989|ENST00000494857|SLC7A2 REV__ENSG00000003989|ENST00000494857|SLC7A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3059692382812 2 567.299862 1132.58517 NaN NaN NaN NaN NaN NaN NaN 60.165 1 60.421 59.921 60.921 0.25578 0 0 0 0.82924 1 27550 27550 16.942 2.104 1 + 20287 10161 12742 12796 23665 23665 0.024180995620099566 MRKIREIVL 9 Unmodified _MRKIREIVL_ 0 0 0 nc|ENSG00000155508|Q9UFF9-3|CNOT8;CNOT8|p.C256Wfs*12|1|0.2|ENSG00000155508|chr5:154875326-154875339|TGTGGGCGGCTCTA/-|frameshift_variant;ENSG00000155508|ENST00000285896|CNOT8 nc|ENSG00000155508|Q9UFF9-3|CNOT8 nc|ENSG00000155508|Q9UFF9-3|CNOT8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 386.5787658691406 3 386.577754 1156.71143 3.1067 0.001201 -0.56037 -0.00021663 2.5464 0.00098437 386.57766615955575 32.56 0.35114 32.814 32.668 33.019 0.25452 47 17 4 0 0 0 0.27958 1 14821 14821 12.873 3.8964 1 1536900 20288 198 12743 12797 23666 23666 0.13934606067300592 MRKLRKTHD 9 Unmodified _MRKLRKTHD_ 0 0 0 ENSG00000175175|ENST00000308249|PPM1E;nc|ENSG00000175175|Q8WY54-3|PPM1E ENSG00000175175|ENST00000308249|PPM1E ENSG00000175175|ENST00000308249|PPM1E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.56207275390625 3 395.560875 1183.66079 2.9768 0.0011775 -0.14567 -5.7622E-05 2.8311 0.0011199 395.56085871737787 65.418 0.91332 66.075 65.58 66.494 0.65672 84 54 2 0 0 0 1.0041 1 30052 30052 4.5289 3.047 1 579110 20289 5017 12744 12798 23667 23667 0.07631076742291043 MRKQYKKKR 9 Unmodified _MRKQYKKKR_ 0 0 0 REV__ENSG00000124383|ENST00000244230|MPHOSPH10 REV__ENSG00000124383|ENST00000244230|MPHOSPH10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.5937194824219 3 422.592286 1264.75503 2.2623 0.00095604 0.83559 0.00035311 3.0979 0.0013091 422.59253356023953 52.044 0.62896 52.854 52.418 53.047 0.81065 85 42 4 0 0 0 1.2126 1 23527 23527 0.23584 0.23584 1 2687300 + 20290 11653 12745 12799 23668 23668 0.13324215564421138 MRKRKRKKRR 10 Unmodified _MRKRKRKKRR_ 0 0 0 ENST00000554578.5_1_12:57642832-57642988:-|nuORF ENST00000554578.5_1_12:57642832-57642988:-|nuORF ENST00000554578.5_1_12:57642832-57642988:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 722.4163818359375 2 721.975505 1441.93646 NaN NaN NaN NaN NaN NaN NaN 89.877 1 90.549 90.049 91.049 0.67271 0 0 0 1.0015 1 41378 41378 0.40072 0 1 20291 8910 12746 12800 23669 23669 0.23316573380816408 MRLEFLRIL 9 Unmodified _MRLEFLRIL_ 0 0 0 DOCK8|p.N1266Ifs*5|1|0.21|ENSG00000107099|chr9:418160-418160|G/-|frameshift_variant;nc|ENSG00000107099|Q8NF50-4|DOCK8;nc|ENSG00000107099|Q8NF50-3|DOCK8;nc|ENSG00000107099|Q8NF50-2|DOCK8;ENSG00000107099|ENST00000432829|DOCK8 DOCK8|p.N1266Ifs*5|1|0.21|ENSG00000107099|chr9:418160-418160|G/-|frameshift_variant DOCK8|p.N1266Ifs*5|1|0.21|ENSG00000107099|chr9:418160-418160|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 595.8587646484375 2 595.857544 1189.70053 NaN NaN NaN NaN NaN NaN NaN 10.299 1 10.299 9.7993 10.799 0 0 0 0 0.90611 1 4595 4595 2.0598 0 1 20292 275 12747 12801 23670 23670 0.11327203693008414 MRLHLLLLIL 10 Unmodified _MRLHLLLLIL_ 0 0 0 nc|ENSG00000206034|Q30KR1|DEFB109B nc|ENSG00000206034|Q30KR1|DEFB109B nc|ENSG00000206034|Q30KR1|DEFB109B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 309.53704833984375 4 309.457156 1233.79952 1.9889 0.00061548 -0.95901 -0.00029677 1.0299 0.00031871 309.4567618300358 39.693 0.34668 39.693 39.593 39.94 0 25 16 2 0 0 0 0.12676 1 18079 18079 0.15932 0.01943 1 438420 20293 9817 12748 12802 23671 23671 0.19197226657934152 MRLHLLLLIL 10 Unmodified _MRLHLLLLIL_ 0 0 0 nc|ENSG00000206034|Q30KR1|DEFB109B nc|ENSG00000206034|Q30KR1|DEFB109B nc|ENSG00000206034|Q30KR1|DEFB109B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 309.53729248046875 4 309.457156 1233.79952 2.142 0.00066287 -0.59714 -0.00018479 1.5449 0.00047808 309.7078460550951 39.081 0.4697 39.345 39.17 39.64 0.26408 24 18 2 0 0 0 0.12676 1 17753 17753 0.13989 0.13989 1 502720 20294 9817 12748 12802 23672 23672 0.19197226657934152 MRLKNHRWYKK 11 Unmodified _MRLKNHRWYKK_ 0 0 0 ENST00000443754.1_1_9:67328347-67334199:-|nuORF ENST00000443754.1_1_9:67328347-67334199:-|nuORF ENST00000443754.1_1_9:67328347-67334199:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 780.4927978515625 2 780.440629 1558.86671 NaN NaN NaN NaN NaN NaN NaN 97.716 1 97.787 97.287 98.287 0.070648 0 0 0 1.008 1 52333 52333 0.30703 0.03801 1 20295 7954 12749 12803 23673 23673 0.10962649921566481 MRLRPRRW 8 Unmodified _MRLRPRRW_ 0 0 0 ENST00000461735.1_2_7:150763758-150763836:+|nuORF ENST00000461735.1_2_7:150763758-150763836:+|nuORF ENST00000461735.1_2_7:150763758-150763836:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.844970703125 2 585.843094 1169.67163 NaN NaN NaN NaN NaN NaN NaN 10.074 1 10.369 9.8695 10.869 0.2956 0 0 0 0.99035 1 4452 4452 2.5775 0.51773 1 20296 8089 12750 12804 23674 23674 0.09358523907212657 MRMKWWLFWDQ 11 Unmodified _MRMKWWLFWDQ_ 0 0 0 ENST00000557925.1_1_19:8315741-8320784:+|nuORF ENST00000557925.1_1_19:8315741-8320784:+|nuORF ENST00000557925.1_1_19:8315741-8320784:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 813.88916015625 2 813.889049 1625.76355 NaN NaN NaN NaN NaN NaN NaN 100.81 1 101.12 100.62 101.62 0.31412 0 0 0 1.0082 1 46648 46648 0 0 1 20297 8945 12751 12805 23675 23675 -0.02430598581281629 MRNPYLQER 9 Unmodified _MRNPYLQER_ 0 0 0 REV__ENST00000554334.5_1_14:65482315-65499209:+|nuORF REV__ENST00000554334.5_1_14:65482315-65499209:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 403.2210693359375 3 402.873118 1205.59753 2.9255 0.0011786 1.294 0.00052133 4.2196 0.0016999 402.8741739251612 29.167 0.043091 29.785 29.769 29.812 0.61789 5 3 2 0 0 0 0.11201 1 13374 13374 1.9064 0.9441 1 118150 + 20298 17308 12752 12806 23676 23676 0.002950912343976597 MRPRKAFLL 9 Unmodified _MRPRKAFLL_ 0 0 0 ENSG00000155660|ENST00000652332|PDIA4 ENSG00000155660|ENST00000652332|PDIA4 ENSG00000155660|ENST00000652332|PDIA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 377.8998718261719 3 377.898828 1130.67465 3.1447 0.0011884 -0.65973 -0.00024931 2.485 0.00093907 377.8984373069312 30.518 0.22949 30.774 30.628 30.857 0.25614 30 11 3 0 0 0 0.54955 1 13867 13867 16.149 10.852 1 673470 20299 3873 12753 12807 23677 23677 0.11454354241391229 MRPRKAFLL 9 Unmodified _MRPRKAFLL_ 0 0 0 ENSG00000155660|ENST00000652332|PDIA4 ENSG00000155660|ENST00000652332|PDIA4 ENSG00000155660|ENST00000652332|PDIA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.8993835449219 3 377.898828 1130.67465 2.728 0.0010309 -0.45532 -0.00017207 2.2726 0.00085883 377.89855945615403 30.146 0.2659 30.763 30.657 30.923 0.61737 24 15 2 0 0 0 0.3144 1 13847 13847 10.8 6.61 1 732730 20300 3873 12753 12807 23678 23678 0.11454354241391229 MRPTLAGSYVC 11 Unmodified _MRPTLAGSYVC_ 0 0 0 REV__ENSG00000166682|ENST00000299882|TMPRSS5 REV__ENSG00000166682|ENST00000299882|TMPRSS5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 599.291015625 2 599.291376 1196.5682 NaN NaN NaN NaN NaN NaN NaN 91.665 1 92.327 91.827 92.827 0.66198 0 0 0 1.0074 1 42182 42182 1.0715 0.46996 1 + 20301 13255 12754 12808 23679 23679 -0.022221891061008137 MRPWVYYK 8 Unmodified _MRPWVYYK_ 0 0 0 REV__ENSG00000273079|ENST00000609686|GRIN2B REV__ENSG00000273079|ENST00000609686|GRIN2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.7986450195312 2 571.794412 1141.57427 4.2686 0.0024407 0.76454 0.00043716 5.0331 0.0028779 571.7946021228934 102.45 0.15144 102.77 102.68 102.84 0.31736 11 4 4 0 0 0 0.7471 1 47418 47418 0.69038 0 1 638760 + 20302 14722 12755 12809 23680 23680 0.009146971877044052 MRQKAVSL 8 Unmodified _MRQKAVSL_ 0 0 0 ENSG00000126709|ENST00000361157|IFI6;nc|ENSG00000126709|P09912-2|IFI6;nc|ENSG00000126709|P09912-3|IFI6 ENSG00000126709|ENST00000361157|IFI6 ENSG00000126709|ENST00000361157|IFI6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.7714538574219 2 466.770937 931.527321 NaN NaN NaN NaN NaN NaN NaN 16.865 1 16.865 16.365 17.365 0 0 0 0 0.89651 1 7481 7481 12.532 3.1841 1 20303 2463 12756 12810 23681 23681 0.058818376365934455 MRQKAVSL 8 Unmodified _MRQKAVSL_ 0 0 0 ENSG00000126709|ENST00000361157|IFI6;nc|ENSG00000126709|P09912-2|IFI6;nc|ENSG00000126709|P09912-3|IFI6 ENSG00000126709|ENST00000361157|IFI6 ENSG00000126709|ENST00000361157|IFI6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 311.51708984375 3 311.516383 931.527321 2.0178 0.00062859 0.50823 0.00015832 2.5261 0.00078691 311.51658832823375 14.461 0.2129 14.768 14.654 14.867 0.3069 29 9 4 0 0 0 0.26384 1 6532 6532 37.974 15.238 1 4962000 20304 2463 12756 12810 23682 23682 0.058818376365934455 MRQKAVSL 8 Unmodified _MRQKAVSL_ 0 0 0 ENSG00000126709|ENST00000361157|IFI6;nc|ENSG00000126709|P09912-2|IFI6;nc|ENSG00000126709|P09912-3|IFI6 ENSG00000126709|ENST00000361157|IFI6 ENSG00000126709|ENST00000361157|IFI6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.7721862792969 2 466.770937 931.527321 2.529 0.0011805 0.32408 0.00015127 2.8531 0.0013317 466.77118238763677 14.461 0.2129 14.768 14.654 14.867 0.3069 24 9 3 0 0 0 0.033633 1 6533 6533 74.423 26.077 1 3295900 20305 2463 12756 12810 23683 23683 0.058818376365934455 MRQKAVSL 8 Unmodified _MRQKAVSL_ 0 0 0 ENSG00000126709|ENST00000361157|IFI6;nc|ENSG00000126709|P09912-2|IFI6;nc|ENSG00000126709|P09912-3|IFI6 ENSG00000126709|ENST00000361157|IFI6 ENSG00000126709|ENST00000361157|IFI6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 311.5170593261719 3 311.516383 931.527321 2.2137 0.00068959 0.43465 0.0001354 2.6483 0.00082499 311.5165752070822 14.429 0.17677 15.077 14.993 15.17 0.6482 38 15 3 0 0 0 0.37185 2 6482 6482;6527 24.021 8.4331 1 5797100 20306 2463 12756 12810 23684;23685 23684 0.058818376365934455 MRQKAVSL 8 Unmodified _MRQKAVSL_ 0 0 0 ENSG00000126709|ENST00000361157|IFI6;nc|ENSG00000126709|P09912-2|IFI6;nc|ENSG00000126709|P09912-3|IFI6 ENSG00000126709|ENST00000361157|IFI6 ENSG00000126709|ENST00000361157|IFI6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.772705078125 2 466.770937 931.527321 2.9307 0.0013679 -0.14564 -6.798E-05 2.785 0.0013 466.77105235665397 14.434 0.17677 15.082 14.993 15.17 0.64819 44 15 4 0 0 0 0.022274 2 6486 6486;6526 85.357 31.781 1 7417300 20307 2463 12756 12810 23686;23687 23686 0.058818376365934455 MRRERQRRQRG 11 Unmodified _MRRERQRRQRG_ 0 0 0 ENST00000579009.1_1_17:16842557-16842860:-|nuORF ENST00000579009.1_1_17:16842557-16842860:-|nuORF ENST00000579009.1_1_17:16842557-16842860:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.2889099121094 3 510.286919 1527.83893 4.1686 0.0021272 -0.42403 -0.00021638 3.7445 0.0019108 510.2865371072419 105.93 0.17046 106.25 106.15 106.32 0.31689 15 6 3 0 0 0 0.91459 1 48906 48906 0.094841 0 1 798120 20308 9140 12757 12811 23688 23688 0.09612139714022305 MRRERQRRQRG 11 Unmodified _MRRERQRRQRG_ 0 0 0 ENST00000579009.1_1_17:16842557-16842860:-|nuORF ENST00000579009.1_1_17:16842557-16842860:-|nuORF ENST00000579009.1_1_17:16842557-16842860:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 510.286919 1527.83893 2.7917 0.0014246 0.64966 0.00033151 3.4414 0.0017561 510.62140234358617 105.93 0.1352 105.93 105.83 105.97 0 -0.15762 0.00055637 NaN 0.094841 9 5 2 NaN NaN NaN NaN 0 NaN NaN 0 775520 20309 9140 12757 12811 0.09612139714022305 MRRKFFTL 8 Unmodified _MRRKFFTL_ 0 0 0 REV__ENST00000481464.5_1_1:19927449-19952892:+|nuORF REV__ENST00000481464.5_1_1:19927449-19952892:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.8816223144531 3 366.879545 1097.6168 NaN NaN NaN NaN NaN NaN NaN 16.639 1 16.944 16.444 17.444 0.30438 0 0 0 0.99035 1 7533 7533 0.45834 0 1 + 20310 13598 12758 12812 23689 23689 0.07190092315977381 MRRKRKQQKRL 11 Unmodified _MRRKRKQQKRL_ 0 0 0 nc|ENSG00000184343|Q9UPE1-2|SRPK3;nc|ENSG00000184343|Q9UPE1-3|SRPK3;nc|ENSG00000184343|Q9UPE1-4|SRPK3;ENSG00000184343|ENST00000370101|SRPK3 nc|ENSG00000184343|Q9UPE1-2|SRPK3 nc|ENSG00000184343|Q9UPE1-2|SRPK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.6134338378906 3 509.98781 1526.9416 NaN NaN NaN NaN NaN NaN NaN 64.402 1 64.65 64.15 65.15 0.24803 0 0 0 1.008 1 29498 29498 0.094841 0.011491 1 20311 5432 12759 12813 23690 23690 0.19920832452794457 MRRMRRRRRWT 11 Unmodified _MRRMRRRRRWT_ 0 0 0 ENST00000281708.8_1_4:153271275-153332654:-|nuORF ENST00000281708.8_1_4:153271275-153332654:-|nuORF ENST00000281708.8_1_4:153271275-153332654:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 830.9719848632812 2 830.970428 1659.9263 NaN NaN NaN NaN NaN NaN NaN 80.059 1 80.059 79.559 80.559 0 0 0 0 1.0082 1 39647 39647 0 0 1 20312 6694 12760 12814 23691 23691 0.12273642383934202 MRRMRRRRRWT 11 Unmodified _MRRMRRRRRWT_ 0 0 0 ENST00000281708.8_1_4:153271275-153332654:-|nuORF ENST00000281708.8_1_4:153271275-153332654:-|nuORF ENST00000281708.8_1_4:153271275-153332654:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 830.921630859375 2 830.970428 1659.9263 NaN NaN NaN NaN NaN NaN NaN 98.655 1 98.655 98.155 99.155 0 0 0 0 1.0082 1 54049 54049 0 0 1 20313 6694 12760 12814 23692 23692 0.12273642383934202 MRRRRKRRSTL 11 Unmodified _MRRRRKRRSTL_ 0 0 0 REV__ENST00000502669.5_1_4:8230233-8239327:+|nuORF REV__ENST00000502669.5_1_4:8230233-8239327:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 758.4659423828125 2 758.465501 1514.91645 NaN NaN NaN NaN NaN NaN NaN 52.09 1 52.9 52.4 53.4 0.81065 0 0 0 1.0082 1 23730 23730 0 0 1 + 20314 14889 12761 12815 23693 23693 0.1795877765023306 MRRRRRKQRKK 11 Unmodified _MRRRRRKQRKK_ 0 0 0 ENST00000579674.1_1_17:27898877-27899117:+|nuORF;ENSG00000167543|ENST00000301057|TP53I13 ENST00000579674.1_1_17:27898877-27899117:+|nuORF ENST00000579674.1_1_17:27898877-27899117:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 800.0625 2 800.007867 1598.00118 NaN NaN NaN NaN NaN NaN NaN 34.024 1 34.278 33.778 34.778 0.25389 0 0 0 1.0072 1 15494 15494 1.3295 1.3295 1 20315 4560 12762 12816 23694 23694 0.22610148186822698 MRRRRRWTRRV 11 Unmodified _MRRRRRWTRRV_ 0 0 0 ENST00000281708.8_1_4:153271275-153332654:-|nuORF ENST00000281708.8_1_4:153271275-153332654:-|nuORF ENST00000281708.8_1_4:153271275-153332654:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 814.9862670898438 2 814.984392 1627.95423 NaN NaN NaN NaN NaN NaN NaN 65.209 1 65.918 65.418 66.418 0.70891 0 0 0 1.0082 1 30808 30808 0 0 1 20316 6694 12763 12817 23695 23695 0.1653728863568631 MRRRRVRL 8 Unmodified _MRRRRVRL_ 0 0 0 ENST00000492897.3_1_17:46669706-46679621:+|nuORF ENST00000492897.3_1_17:46669706-46679621:+|nuORF ENST00000492897.3_1_17:46669706-46679621:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.5784606933594 3 381.576971 1141.70908 2.0066 0.00076568 0.81389 0.00031056 2.8205 0.0010762 381.5772505985709 8.5831 0.52163 8.8893 8.574 9.0956 0.30618 53 45 2 0 0 0 0.7471 1 3957 3957 0 0 1 36853 20317 8411 12764 12818 23696 23696 0.14389615172876802 MRRRRVRL 8 Unmodified _MRRRRVRL_ 0 0 0 ENST00000492897.3_1_17:46669706-46679621:+|nuORF ENST00000492897.3_1_17:46669706-46679621:+|nuORF ENST00000492897.3_1_17:46669706-46679621:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.5782470703125 3 381.576971 1141.70908 3.1255 0.0011926 0.2398 9.1503E-05 3.3653 0.0012841 381.577057746441 6.9554 0.46611 7.5801 7.4386 7.9047 0.62473 67 41 2 0 0 0 0.7471 1 3208 3208 0 0 1 74508 20318 8411 12764 12818 23697 23697 0.14389615172876802 MRRRWRRRRFA 11 Unmodified _MRRRWRRRRFA_ 0 0 0 REV__nc|ENSG00000135636|O75923-15|DYSF REV__nc|ENSG00000135636|O75923-15|DYSF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.6548461914062 3 549.655166 1645.94367 3.7405 0.002056 -3.8965 -0.0021417 -0.15598 -8.5736E-05 549.9874817185962 105.96 0.096375 106.56 106.49 106.58 0.59969 9 3 3 0 0 0 0.91391 1 48935 48935 0.08335 0 1 498220 + 20319 12030 12765 12819 23698 23698 0.14653305981232734 MRRRWRRRRFA 11 Unmodified _MRRRWRRRRFA_ 0 0 0 REV__nc|ENSG00000135636|O75923-15|DYSF REV__nc|ENSG00000135636|O75923-15|DYSF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 823.9821166992188 2 823.97911 1645.94367 NaN NaN NaN NaN NaN NaN NaN 71.489 1 72.152 71.652 72.652 0.66324 0 0 0 1.0082 1 32768 32768 0 0 1 + 20320 12030 12765 12819 23699 23699 0.14653305981232734 MRRRWRRRRFA 11 Unmodified _MRRRWRRRRFA_ 0 0 0 REV__nc|ENSG00000135636|O75923-15|DYSF REV__nc|ENSG00000135636|O75923-15|DYSF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 823.981689453125 2 823.97911 1645.94367 NaN NaN NaN NaN NaN NaN NaN 102.24 1 102.84 102.34 103.34 0.59759 0 0 0 1.0082 1 47329 47329 0 0 1 + 20321 12030 12765 12819 23700 23700 0.14653305981232734 MRRWYMDEEYR 11 Unmodified _MRRWYMDEEYR_ 0 0 0 REV__ENSG00000056097|ENST00000265069|ZFR REV__ENSG00000056097|ENST00000265069|ZFR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 817.8639526367188 2 817.86376 1633.71297 NaN NaN NaN NaN NaN NaN NaN 28.88 1 29.669 29.169 30.169 0.78921 0 0 0 1.0082 1 13014 13014 0 0 1 + 20322 10375 12766 12820 23701 23701 -0.07854172696897876 MRRYLRYRWEW 11 Unmodified _MRRYLRYRWEW_ 0 0 0 REV__ENSG00000153930|ENST00000682825|ANKFN1 REV__ENSG00000153930|ENST00000682825|ANKFN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 857.942626953125 2 857.940993 1713.86743 NaN NaN NaN NaN NaN NaN NaN 57.561 1 57.561 57.061 58.061 0 0 0 0 1.0082 1 26535 26535 0 0 1 + 20323 12689 12767 12821 23702 23702 0.03905444570614236 MRSVCQMMMEY 11 Unmodified _MRSVCQMMMEY_ 0 0 0 REV__nc|ENSG00000137409|Q9NZJ7-2|MTCH1 REV__nc|ENSG00000137409|Q9NZJ7-2|MTCH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 704.783203125 2 704.781147 1407.54774 NaN NaN NaN NaN NaN NaN NaN 1.2356 1 1.5397 1.0397 2.0397 0.30411 0 0 0 1.0082 1 565 565 0 0 1 + 20324 12110 12768 12822 23703 23703 -0.13973187144051735 MRTERDHE 8 Unmodified _MRTERDHE_ 0 0 0 REV__nc|ENSG00000197705|Q9P2G3-2|KLHL14 REV__nc|ENSG00000197705|Q9P2G3-2|KLHL14 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 358.2110595703125 3 358.49794 1072.47199 2.6393 0.00094619 0.84673 0.00030355 3.4861 0.0012497 358.4981021230006 39.318 0.28854 39.318 39.177 39.465 0 23 10 3 0 0 0 0.1432 1 17823 17823 1.4819 1.4819 1 595840 + 20325 14299 12769 12823 23704 23704 -0.061346206218331645 MRTERDHE 8 Unmodified _MRTERDHE_ 0 0 0 REV__nc|ENSG00000197705|Q9P2G3-2|KLHL14 REV__nc|ENSG00000197705|Q9P2G3-2|KLHL14 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 358.49794 1072.47199 2.3849 0.000855 1.086 0.00038933 3.471 0.0012443 358.498155621896 38.167 0.36294 38.963 38.752 39.115 0.79552 -0.28874 8.7201E-05 NaN 1.4819 29 12 3 NaN NaN NaN NaN 0 NaN NaN 0 279130 + 20326 14299 12769 12823 -0.061346206218331645 MRTERDHE 8 Unmodified _MRTERDHE_ 0 0 0 REV__nc|ENSG00000197705|Q9P2G3-2|KLHL14 REV__nc|ENSG00000197705|Q9P2G3-2|KLHL14 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 358.49794 1072.47199 2.5042 0.00089775 1.3871 0.00049727 3.8913 0.001395 358.498324784205 39.095 0.42181 39.359 39.218 39.64 0.26408 0.1076 0.000411 NaN 1.4819 29 16 3 NaN NaN NaN NaN 0 NaN NaN 0 544910 + 20327 14299 12769 12823 -0.061346206218331645 MRTERDHE 8 Unmodified _MRTERDHE_ 0 0 0 REV__nc|ENSG00000197705|Q9P2G3-2|KLHL14 REV__nc|ENSG00000197705|Q9P2G3-2|KLHL14 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 358.49794 1072.47199 2.4839 0.00089049 0.84636 0.00030342 3.3303 0.0011939 358.49821436441385 38.728 0.51035 39.366 39.076 39.586 0.63778 0.11484 -0.00017054 NaN 1.4819 29 18 2 NaN NaN NaN NaN 0 NaN NaN 0 413520 + 20328 14299 12769 12823 -0.061346206218331645 MRTVIVQDK 9 Unmodified _MRTVIVQDK_ 0 0 0 ENSG00000081479|ENST00000649046|LRP2;LRP2|p.N4549Kfs*8|1|0.33|ENSG00000081479|chr2:169132655-169132655|A/-|frameshift_variant ENSG00000081479|ENST00000649046|LRP2 ENSG00000081479|ENST00000649046|LRP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.87567138671875 3 363.874348 1088.60121 2.8455 0.0010354 0.69026 0.00025117 3.5357 0.0012866 363.87474723564645 12.719 0.13535 13.362 13.278 13.413 0.64272 11 3 4 0 0 0 0.16976 1 5729 5729 18.373 3.9677 1 2628400 20329 920 12770 12824 23705 23705 0.060457610082494284 MRVMAPRAL 9 Unmodified _MRVMAPRAL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000484378.1_1_6:31239370-31239848:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 349.2120056152344 3 348.865018 1043.57323 NaN NaN NaN NaN NaN NaN NaN 12.355 1 12.993 12.493 13.493 0.63746 0 0 0 0.58778 1 5523 5523 16.149 1.1919 1 20330 6014 12771 12825 23706 23706 0.053181595471869514 MSCDSESDSQD 11 Unmodified _MSCDSESDSQD_ 0 0 0 REV__nc|ENSG00000163947|Q9NR81-4|ARHGEF3 REV__nc|ENSG00000163947|Q9NR81-4|ARHGEF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.182861328125 2 602.19245 1202.37035 NaN NaN NaN NaN NaN NaN NaN 50.552 1 51.369 50.869 51.869 0.81738 0 0 0 1.008 1 23025 23025 0.35063 0 1 + 20331 13044 12772 12826 23707 23707 -0.22274324617228558 MSEFCCSFECC 11 Unmodified _MSEFCCSFECC_ 0 0 0 ENST00000448223.6_1_2:17845258-17845345:-|nuORF ENST00000448223.6_1_2:17845258-17845345:-|nuORF ENST00000448223.6_1_2:17845258-17845345:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.6947631835938 2 644.694205 1287.37386 NaN NaN NaN NaN NaN NaN NaN 86.688 1 86.688 86.188 87.188 0 0 0 0 1.0082 1 44504 44504 0 0 1 20332 7994 12773 12827 23708 23708 -0.25833392640197417 MSHKRIML 8 Unmodified _MSHKRIML_ 0 0 0 nc|ENSG00000196419|P12956-2|XRCC6;ENSG00000196419|ENST00000360079|XRCC6 nc|ENSG00000196419|P12956-2|XRCC6 nc|ENSG00000196419|P12956-2|XRCC6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 339.1907958984375 3 339.189502 1014.54668 2.271 0.00077031 0.25832 8.7618E-05 2.5293 0.00085793 339.1897165792614 15.71 0.53392 15.921 15.632 16.166 0.21108 143 80 2 0 0 0 0.7471 1 6858 6858 0.40072 0.40072 1 77879 20333 5743 12774 12828 23709 23709 0.03998470655847086 MSHKRIML 8 Unmodified _MSHKRIML_ 0 0 0 nc|ENSG00000196419|P12956-2|XRCC6;ENSG00000196419|ENST00000360079|XRCC6 nc|ENSG00000196419|P12956-2|XRCC6 nc|ENSG00000196419|P12956-2|XRCC6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.1902160644531 3 339.189502 1014.54668 2.222 0.00075368 0.55327 0.00018766 2.7753 0.00094135 339.1897515908869 14.539 0.22573 14.846 14.732 14.958 0.3069 26 15 2 0 0 0 0.3435 1 6564 6564 32.786 16.939 1 954980 20334 5743 12774 12828 23710 23710 0.03998470655847086 MSHKRIML 8 Unmodified _MSHKRIML_ 0 0 0 nc|ENSG00000196419|P12956-2|XRCC6;ENSG00000196419|ENST00000360079|XRCC6 nc|ENSG00000196419|P12956-2|XRCC6 nc|ENSG00000196419|P12956-2|XRCC6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.52471923828125 3 339.189502 1014.54668 2.4228 0.0008218 0.35478 0.00012034 2.7776 0.00094214 339.18979533385516 14.558 0.17196 15.206 15.115 15.287 0.64819 46 20 3 0 0 0 0.4188 1 6539 6539 21.537 7.6309 1 1377900 20335 5743 12774 12828 23711 23711 0.03998470655847086 MSLLCVRVK 9 Unmodified _MSLLCVRVK_ 0 0 0 ENSG00000198722|ENST00000635942|UNC13B;nc|ENSG00000198722|O14795|UNC13B;nc|ENSG00000198722|O14795-2|UNC13B ENSG00000198722|ENST00000635942|UNC13B ENSG00000198722|ENST00000635942|UNC13B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.20745849609375 3 350.20504 1047.59329 NaN NaN NaN NaN NaN NaN NaN 57.083 1 57.347 56.847 57.847 0.26444 0 0 0 0.90335 1 26123 26123 2.7352 1.0826 1 20336 5920 12775 12829 23712 23712 0.07139910487126144 MSSCCNGQ 8 Unmodified _MSSCCNGQ_ 0 0 0 ENST00000211314.4_1_6:52550851-52550977:+|nuORF ENST00000211314.4_1_6:52550851-52550977:+|nuORF ENST00000211314.4_1_6:52550851-52550977:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 829.271240234375 1 829.26372 828.256444 4.3358 0.0035955 1.2436 0.0010313 5.5795 0.0046268 829.2672948048746 9.1019 1.7021 9.7286 8.8505 10.553 0.62663 240 123 3 0 0 0 0.14337 1 4319 4319 0.69038 0 1 64027 20337 6395 12776 12830 23713 23713 -0.1645542140249745 MSVRLPQSI 9 Acetyl (Protein N-term) _(Acetyl (Protein N-term))MSVRLPQSI_ 1 0 0 ARHGEF11|p.T962Nfs*7|1|0.37|ENSG00000132694|chr1:156944421-156944422|TA/-|frameshift_variant;nc|ENSG00000132694|O15085|ARHGEF11;ENSG00000132694|ENST00000368194|ARHGEF11 ARHGEF11|p.T962Nfs*7|1|0.37|ENSG00000132694|chr1:156944421-156944422|TA/-|frameshift_variant ARHGEF11|p.T962Nfs*7|1|0.37|ENSG00000132694|chr1:156944421-156944422|TA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.7963256835938 2 536.794609 1071.57467 2.9554 0.0015864 0.073364 3.9381E-05 3.0288 0.0016258 536.7947745254831 28.6 0.22793 28.86 28.736 28.964 0.2602 31 16 2 0 0 0 0.024388 1 13037 13037 62.573 6.3957 1 953190 20338 65 12777 12831 23714 23714 0.0417407211691625 MTEVIIHTPKV 11 Unmodified _MTEVIIHTPKV_ 0 0 0 REV__ENSG00000131389|ENST00000622186|SLC6A6 REV__ENSG00000131389|ENST00000622186|SLC6A6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.35986328125 2 634.357573 1266.70059 3.8137 0.0024193 -1.0918 -0.00069261 2.7219 0.0017267 634.3563410090755 37.908 0.27924 37.908 37.765 38.044 0 15 10 2 0 0 0 0.44818 1 17216 17216 20.415 2.2682 1 557530 + 20339 11857 12778 12832 23715 23715 0.07791158902318784 MTEVIIHTPKV 11 Unmodified _MTEVIIHTPKV_ 0 0 0 REV__ENSG00000131389|ENST00000622186|SLC6A6 REV__ENSG00000131389|ENST00000622186|SLC6A6 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 634.357573 1266.70059 3.8137 0.0024193 -1.0918 -0.00069261 2.7219 0.0017267 634.3563410090755 37.908 0.27924 37.908 37.765 38.044 0 0.10936 -0.0010513 NaN 20.415 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 557530 + 20340 11857 12778 12832 0.07791158902318784 MTEVIIHTPKV 11 Unmodified _MTEVIIHTPKV_ 0 0 0 REV__ENSG00000131389|ENST00000622186|SLC6A6 REV__ENSG00000131389|ENST00000622186|SLC6A6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 634.357573 1266.70059 3.5295 0.002239 0.037941 2.4068E-05 3.5675 0.0022631 634.3578689349631 36.788 0.25083 37.581 37.505 37.756 0.79342 -0.21774 0.00038202 NaN 20.415 13 10 2 NaN NaN NaN NaN 0 NaN NaN 0 262980 + 20341 11857 12778 12832 0.07791158902318784 MTEVIIHTPKV 11 Unmodified _MTEVIIHTPKV_ 0 0 0 REV__ENSG00000131389|ENST00000622186|SLC6A6 REV__ENSG00000131389|ENST00000622186|SLC6A6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 634.357573 1266.70059 3.8178 0.0024218 0.10529 6.6794E-05 3.923 0.0024886 634.3578393253299 37.749 0.23731 38.009 37.856 38.093 0.26083 0.21053 0.00046747 NaN 20.415 20 7 3 NaN NaN NaN NaN 0 NaN NaN 0 587250 + 20342 11857 12778 12832 0.07791158902318784 MTLKTIYERI 10 Unmodified _MTLKTIYERI_ 0 0 0 nc|ENSG00000134313|Q9ULH0-2|KIDINS220;ENST00000488729.5_1_2:8870852-8965899:-|nuORF;nc|ENSG00000134313|Q9ULH0-4|KIDINS220;ENSG00000134313|ENST00000256707|KIDINS220 nc|ENSG00000134313|Q9ULH0-2|KIDINS220 nc|ENSG00000134313|Q9ULH0-2|KIDINS220 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 634.3602905273438 2 634.357573 1266.70059 3.9173 0.0024849 -0.48006 -0.00030453 3.4372 0.0021804 634.3576738329156 37.067 0.26623 37.697 37.573 37.839 0.62999 27 11 3 0 0 0 0.70333 1 16962 16962 13.042 0 1 344640 20343 2799 12779 12833 23716 23716 0.07791158902341522 MTLNFYRDL 9 Unmodified _MTLNFYRDL_ 0 0 0 REV__ENSG00000171124|ENST00000303225|FUT3 REV__ENSG00000171124|ENST00000303225|FUT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 588.7446899414062 2 586.792066 1171.56958 3.4395 0.0020183 -0.13523 -7.935E-05 3.3042 0.0019389 586.7920356336626 52.199 0.33831 52.199 52.006 52.344 0 63 23 4 0 0 0 0.83994 1 23888 23888 6.7232 0.99131 1 3975000 + 20344 13476 12780 12834 23717 23717 -0.009342317456912497 MTREVIYKV 9 Unmodified _MTREVIYKV_ 0 0 0 REV__ENST00000506539.5_1_5:65018131-65088776:+|nuORF REV__ENST00000506539.5_1_5:65018131-65088776:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.820068359375 2 569.818084 1137.62162 3.2994 0.00188 -0.067159 -3.8268E-05 3.2322 0.0018418 569.8178983838609 46.526 0.17774 46.526 46.407 46.585 0 10 7 2 0 0 0 0.36069 1 21298 21298 14.838 3.198 1 472750 + 20345 11610 12781 12835 23718 23718 0.0583093166803792 MTREVIYKV 9 Unmodified _MTREVIYKV_ 0 0 0 REV__ENST00000506539.5_1_5:65018131-65088776:+|nuORF REV__ENST00000506539.5_1_5:65018131-65088776:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 569.818084 1137.62162 3.2994 0.00188 -0.067159 -3.8268E-05 3.2322 0.0018418 569.8178983838609 46.526 0.17774 46.526 46.407 46.585 0 0.064198 8.6261E-05 NaN 14.838 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 472750 + 20346 11610 12781 12835 0.0583093166803792 MTRRRRPVKEP 11 Unmodified _MTRRRRPVKEP_ 0 0 0 REV__nc|ENSG00000181191|Q8NG27-2|PJA1 REV__nc|ENSG00000181191|Q8NG27-2|PJA1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.61480712890625 3 475.9455 1424.81467 2.9889 0.0014225 2.8473 0.0013552 5.8362 0.0027777 475.94682528813644 62.283 0.39927 62.532 62.136 62.536 0.24965 32 20 2 0 0 0 0.13295 1 28394 28394 2.2527 0.32522 1 18399000 + 20347 13846 12782 12836 23719 23719 0.11925486507811911 MTTSGGGG 8 Unmodified _MTTSGGGG_ 0 0 0 ENSG00000024048|ENST00000372901|UBR2;nc|ENSG00000024048|Q8IWV8|UBR2;nc|ENSG00000024048|Q8IWV8-2|UBR2 ENSG00000024048|ENST00000372901|UBR2 ENSG00000024048|ENST00000372901|UBR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.14056396484375 2 334.139421 666.26429 NaN NaN NaN NaN NaN NaN NaN 32.904 1 32.904 32.404 33.404 0 0 0 0 0.99035 1 14903 14903 5.7604 4.9668 1 20348 473 12783 12837 23720 23720 -0.08219202819054772 MTTSGGGG 8 Unmodified _MTTSGGGG_ 0 0 0 ENSG00000024048|ENST00000372901|UBR2;nc|ENSG00000024048|Q8IWV8|UBR2;nc|ENSG00000024048|Q8IWV8-2|UBR2 ENSG00000024048|ENST00000372901|UBR2 ENSG00000024048|ENST00000372901|UBR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.14068603515625 2 334.139421 666.26429 NaN NaN NaN NaN NaN NaN NaN 32.577 1 33.365 32.865 33.865 0.78795 0 0 0 0.99035 1 14736 14736 2.5775 1.7838 1 20349 473 12783 12837 23721 23721 -0.08219202819054772 MTVLIRLH 8 Unmodified _MTVLIRLH_ 0 0 0 ENST00000519231.5_1_8:66695020-66754180:-|nuORF ENST00000519231.5_1_8:66695020-66754180:-|nuORF ENST00000519231.5_1_8:66695020-66754180:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.2008972167969 3 328.200395 981.579357 NaN NaN NaN NaN NaN NaN NaN 42.656 1 43.465 42.965 43.965 0.80855 0 0 0 0.99035 1 19385 19385 3.5965 0 1 20350 8617 12784 12838 23722 23722 0.08783001050335315 MTVLIRLH 8 Unmodified _MTVLIRLH_ 0 0 0 ENST00000519231.5_1_8:66695020-66754180:-|nuORF ENST00000519231.5_1_8:66695020-66754180:-|nuORF ENST00000519231.5_1_8:66695020-66754180:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.2005920410156 3 328.200395 981.579357 NaN NaN NaN NaN NaN NaN NaN 42.747 1 43.556 43.056 44.056 0.80855 0 0 0 0.99035 1 19431 19431 3.5965 0 1 20351 8617 12784 12838 23723 23723 0.08783001050335315 MVAQNPGEWML 11 Unmodified _MVAQNPGEWML_ 0 0 0 ENST00000490639.5_1_3:148895590-148939579:-|nuORF;ENSG00000047457|ENST00000264613|CP;ENST00000489736.5_1_3:148904295-148925363:-|nuORF ENST00000490639.5_1_3:148895590-148939579:-|nuORF ENST00000490639.5_1_3:148895590-148939579:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 638.7998657226562 2 638.296659 1274.57876 3.5632 0.0022744 0.93777 0.00059857 4.5009 0.0028729 638.2970213009482 79.494 0.25907 79.745 79.636 79.895 0.25127 19 13 2 0 0 0 0.15269 1 36611 36611 32.786 21.145 1 444800 20352 558 12785 12839 23724 23724 -0.047542064516619575 MVAQNPGEWML 11 Unmodified _MVAQNPGEWML_ 0 0 0 ENST00000490639.5_1_3:148895590-148939579:-|nuORF;ENSG00000047457|ENST00000264613|CP;ENST00000489736.5_1_3:148904295-148925363:-|nuORF ENST00000490639.5_1_3:148895590-148939579:-|nuORF ENST00000490639.5_1_3:148895590-148939579:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 638.297607421875 2 638.296659 1274.57876 3.943 0.0025168 0.46883 0.00029925 4.4118 0.002816 638.2964864914076 79.026 0.27478 79.687 79.545 79.82 0.66082 25 16 2 0 0 0 0.12301 1 36400 36400 38.176 26.535 1 312730 20353 558 12785 12839 23725 23725 -0.047542064516619575 MVARARRLI 9 Unmodified _MVARARRLI_ 0 0 0 ENST00000533796.1_1_11:755745-760254:+|nuORF;ENST00000530119.5_1_11:747481-760254:+|nuORF;nc|ENSG00000177156|P37837-2|TALDO1;ENSG00000177156|ENST00000319006|TALDO1 ENST00000533796.1_1_11:755745-760254:+|nuORF;nc|ENSG00000177156|P37837-2|TALDO1 ENST00000533796.1_1_11:755745-760254:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.2236633300781 3 362.562327 1084.66515 2.9357 0.0010644 0.85441 0.00030978 3.7901 0.0013741 362.89781589323627 88.96 0.38912 89.211 89.056 89.445 0.25118 37 14 4 0 0 0 0.11402 1 40875 40875 0.96228 0.56156 1 1325500 20354 8749;5108 12786 12840 23726 23726 0.126205859558695 MVDDCDCH 8 Unmodified _MVDDCDCH_ 0 0 0 ENST00000399586.2_1_X:74960734-74966719:-|nuORF ENST00000399586.2_1_X:74960734-74966719:-|nuORF ENST00000399586.2_1_X:74960734-74966719:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.2900695800781 2 469.146063 936.277573 NaN NaN NaN NaN NaN NaN NaN 68.383 1 68.383 67.883 68.883 0 0 0 0 0.99035 1 32921 32921 0.69038 0.69038 1 20355 7600 12787 12841 23727 23727 -0.19311456093657853 MVDDRLVTM 9 Unmodified _MVDDRLVTM_ 0 0 0 ENST00000491681.1_1_3:128514210-128516981:+|nuORF;ENSG00000075785|ENST00000265062|RAB7A ENST00000491681.1_1_3:128514210-128516981:+|nuORF ENST00000491681.1_1_3:128514210-128516981:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.266845703125 2 540.264827 1078.5151 3.2588 0.0017606 -0.39889 -0.0002155 2.8599 0.0015451 540.264644086816 49.526 0.19228 49.526 49.394 49.586 0 10 6 2 0 0 0 0.088474 1 22680 22680 35.612 19.765 1 281820 20356 837 12788 12842 23728 23728 -0.021015668887685024 MVDDRLVTM 9 Unmodified _MVDDRLVTM_ 0 0 0 ENST00000491681.1_1_3:128514210-128516981:+|nuORF;ENSG00000075785|ENST00000265062|RAB7A ENST00000491681.1_1_3:128514210-128516981:+|nuORF ENST00000491681.1_1_3:128514210-128516981:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.2659301757812 2 540.264827 1078.5151 3.2959 0.0017806 -0.87627 -0.00047342 2.4196 0.0013072 540.2645042262823 49.371 0.20201 49.632 49.496 49.698 0.26146 13 6 3 0 0 0 0.076469 1 22578 22578 38.615 19.358 1 399960 20357 837 12788 12842 23729 23729 -0.021015668887685024 MVDDRLVTM 9 Unmodified _MVDDRLVTM_ 0 0 0 ENST00000491681.1_1_3:128514210-128516981:+|nuORF;ENSG00000075785|ENST00000265062|RAB7A ENST00000491681.1_1_3:128514210-128516981:+|nuORF ENST00000491681.1_1_3:128514210-128516981:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 540.264827 1078.5151 3.4751 0.0018775 0.2512 0.00013571 3.7263 0.0020132 540.265108651624 48.871 0.18134 49.526 49.453 49.635 0.65524 -0.035361 0.00063483 NaN 38.615 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 192560 20358 837 12788 12842 -0.021015668887685024 MVDGKPVNL 9 Unmodified _MVDGKPVNL_ 0 0 0 ENST00000488373.5_1_7:6415539-6442074:+|nuORF;ENSG00000169750|ENST00000306897|RAC3;ENSG00000136238|ENST00000348035|RAC1;nc|ENSG00000136238|P63000-2|RAC1 ENST00000488373.5_1_7:6415539-6442074:+|nuORF ENST00000488373.5_1_7:6415539-6442074:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.7642822265625 2 486.762778 971.511002 3.0804 0.0014994 0.54093 0.00026331 3.6214 0.0017628 486.76279100563363 35.539 0.39994 35.794 35.594 35.994 0.25524 31 13 3 0 0 0 0.004576 1 16164 16164 92.653 48.246 1 1732800 20359 2935 12789 12843 23730 23730 0.024107116798290917 MVDGKPVNL 9 Unmodified _MVDGKPVNL_ 0 0 0 ENST00000488373.5_1_7:6415539-6442074:+|nuORF;ENSG00000169750|ENST00000306897|RAC3;ENSG00000136238|ENST00000348035|RAC1;nc|ENSG00000136238|P63000-2|RAC1 ENST00000488373.5_1_7:6415539-6442074:+|nuORF ENST00000488373.5_1_7:6415539-6442074:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.7640075683594 2 486.762778 971.511002 3.2366 0.0015754 0.50399 0.00024532 3.7406 0.0018208 486.7628584246517 35.13 0.29289 35.753 35.641 35.934 0.62294 28 12 3 0 0 0 0.014491 1 16082 16082 75.761 39.634 1 1098800 20360 2935 12789 12843 23731 23731 0.024107116798290917 MVDGTLLLL 9 Unmodified _MVDGTLLLL_ 0 0 0 ENSG00000204592|ENST00000376630|HLA-E;ENST00000484194.1_1_6:30457308-30457777:+|nuORF ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 974.5636596679688 1 974.559081 973.551804 4.3556 0.0042448 -0.54972 -0.00053574 3.8059 0.003709 974.5584390140111 95.501 0.23253 95.768 95.668 95.901 0.2675 21 13 2 0 0 0 0.11001 1 43877 43877 30.225 5.5509 1 577600 20361 6023 12790 12844 23732 23732 0.06397052999466268 MVDGTLLLL 9 Unmodified _MVDGTLLLL_ 0 0 0 ENSG00000204592|ENST00000376630|HLA-E;ENST00000484194.1_1_6:30457308-30457777:+|nuORF ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 974.5619506835938 1 974.559081 973.551804 3.9569 0.0038563 -0.17384 -0.00016941 3.7831 0.0036868 974.5597032290076 94.926 0.26566 95.544 95.416 95.681 0.61736 15 11 2 0 0 0 0.056465 1 43660 43660 44.407 8.3628 1 723420 20362 6023 12790 12844 23733 23733 0.06397052999466268 MVDRRKREP 9 Unmodified _MVDRRKREP_ 0 0 0 REV__ENSG00000140443|ENST00000650285|IGF1R REV__ENSG00000140443|ENST00000650285|IGF1R MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 396.2221984863281 3 396.22063 1185.64006 2.8655 0.0011354 0.6803 0.00026955 3.5458 0.0014049 396.2207772147545 54.237 1.1345 54.502 53.776 54.91 0.26462 127 50 3 0 0 0 1.1022 1 24702 24702 2.2828 0.82766 1 1083800 + 20363 12246 12791 12845 23734 23734 0.05466486362638534 MVEELEKAL 9 Unmodified _MVEELEKAL_ 0 0 0 ENSG00000065427|ENST00000302445|KARS1;nc|ENSG00000065427|Q15046-2|KARS1 ENSG00000065427|ENST00000302445|KARS1 ENSG00000065427|ENST00000302445|KARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.2828369140625 2 531.281 1060.54745 2.8946 0.0015378 1.4059 0.00074694 4.3005 0.0022848 531.2813404535436 54.651 0.20512 54.916 54.724 54.929 0.26543 11 8 2 0 0 0 0.011692 1 24949 24949 79.596 23.419 1 1211200 20364 689 12792 12846 23735 23735 0.01959543785869755 MVETHDPIL 9 Unmodified _MVETHDPIL_ 0 0 0 ENST00000411772.5_2_15:43699583-43738985:-|nuORF;nc|ENSG00000067369|Q12888|TP53BP1;nc|ENSG00000067369|Q12888-3|TP53BP1;ENSG00000067369|ENST00000382044|TP53BP1;TP53BP1|p.E1130Kfs*14|1|0.19|ENSG00000067369|chr15:43432470-43432470|C/-|frameshift_variant;TP53BP1|p.N1428Cfs*49|1|0.21|ENSG00000067369|chr15:43420686-43420689|AGTT/-|frameshift_variant;TP53BP1|p.L1477Rfs*8|1|0.24|ENSG00000067369|chr15:43420542-43420543|AG/-|frameshift_variant;ENST00000572085.5_1_15:43707600-43785241:-|nuORF ENST00000411772.5_2_15:43699583-43738985:-|nuORF ENST00000411772.5_2_15:43699583-43738985:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.7678833007812 2 527.765517 1053.51648 3.0994 0.0016357 0.17092 9.0206E-05 3.2703 0.0017259 527.7653629877045 44.461 0.16866 44.461 44.31 44.479 0 18 11 2 0 0 0 0.010221 1 20273 20273 81.613 47.511 1 3651300 20365 723 12793 12847 23736 23736 -0.008136095283589384 MVETHDPIL 9 Unmodified _MVETHDPIL_ 0 0 0 ENST00000411772.5_2_15:43699583-43738985:-|nuORF;nc|ENSG00000067369|Q12888|TP53BP1;nc|ENSG00000067369|Q12888-3|TP53BP1;ENSG00000067369|ENST00000382044|TP53BP1;TP53BP1|p.E1130Kfs*14|1|0.19|ENSG00000067369|chr15:43432470-43432470|C/-|frameshift_variant;TP53BP1|p.N1428Cfs*49|1|0.21|ENSG00000067369|chr15:43420686-43420689|AGTT/-|frameshift_variant;TP53BP1|p.L1477Rfs*8|1|0.24|ENSG00000067369|chr15:43420542-43420543|AG/-|frameshift_variant;ENST00000572085.5_1_15:43707600-43785241:-|nuORF ENST00000411772.5_2_15:43699583-43738985:-|nuORF ENST00000411772.5_2_15:43699583-43738985:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.7673950195312 2 527.765517 1053.51648 3.0784 0.0016247 -0.43242 -0.00022822 2.646 0.0013965 527.7655789581828 43.353 0.27528 44.168 44.082 44.357 0.81444 46 16 4 0 0 0 0.0044949 2 19764 19714;19764 92.822 50.728 1 2431900 20366 723 12793 12847 23737;23738 23738 -0.008136095283589384 MVETHDPIL 9 Unmodified _MVETHDPIL_ 0 0 0 ENST00000411772.5_2_15:43699583-43738985:-|nuORF;nc|ENSG00000067369|Q12888|TP53BP1;nc|ENSG00000067369|Q12888-3|TP53BP1;ENSG00000067369|ENST00000382044|TP53BP1;TP53BP1|p.E1130Kfs*14|1|0.19|ENSG00000067369|chr15:43432470-43432470|C/-|frameshift_variant;TP53BP1|p.N1428Cfs*49|1|0.21|ENSG00000067369|chr15:43420686-43420689|AGTT/-|frameshift_variant;TP53BP1|p.L1477Rfs*8|1|0.24|ENSG00000067369|chr15:43420542-43420543|AG/-|frameshift_variant;ENST00000572085.5_1_15:43707600-43785241:-|nuORF ENST00000411772.5_2_15:43699583-43738985:-|nuORF ENST00000411772.5_2_15:43699583-43738985:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.7669677734375 2 527.765517 1053.51648 3.0615 0.0016158 0.096998 5.1192E-05 3.1585 0.001667 527.7655945552515 44.182 0.27885 44.452 44.357 44.636 0.2694 40 23 2 0 0 0 0.0063783 2 20173 20173;20224 88.904 54.801 1 6693600 20367 723 12793 12847 23739;23740 23739 -0.008136095283589384 MVETHDPIL 9 Unmodified _MVETHDPIL_ 0 0 0 ENST00000411772.5_2_15:43699583-43738985:-|nuORF;nc|ENSG00000067369|Q12888|TP53BP1;nc|ENSG00000067369|Q12888-3|TP53BP1;ENSG00000067369|ENST00000382044|TP53BP1;TP53BP1|p.E1130Kfs*14|1|0.19|ENSG00000067369|chr15:43432470-43432470|C/-|frameshift_variant;TP53BP1|p.N1428Cfs*49|1|0.21|ENSG00000067369|chr15:43420686-43420689|AGTT/-|frameshift_variant;TP53BP1|p.L1477Rfs*8|1|0.24|ENSG00000067369|chr15:43420542-43420543|AG/-|frameshift_variant;ENST00000572085.5_1_15:43707600-43785241:-|nuORF ENST00000411772.5_2_15:43699583-43738985:-|nuORF ENST00000411772.5_2_15:43699583-43738985:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.7671508789062 2 527.765517 1053.51648 3.4187 0.0018043 -0.50194 -0.00026491 2.9168 0.0015394 527.7656750790351 43.647 0.20972 44.296 44.187 44.397 0.64872 35 13 4 0 0 0 0.0023685 2 20037 19985;20037 100.37 58.277 1 3496000 20368 723 12793 12847 23741;23742 23742 -0.008136095283589384 MVHGDDDCSC 10 Unmodified _MVHGDDDCSC_ 0 0 0 REV__ENSG00000101542|ENST00000262717|CDH20 REV__ENSG00000101542|ENST00000262717|CDH20 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.8082885742188 2 541.172809 1080.33107 NaN NaN NaN NaN NaN NaN NaN 70.785 1 71.448 70.948 71.948 0.66209 0 0 0 0.99983 1 32441 32441 1.8442 1.1539 1 + 20369 10900 12794 12848 23743 23743 -0.2058870338178167 MVKEYMIQF 9 Unmodified _MVKEYMIQF_ 0 0 0 nc|ENSG00000130589|Q9BYK8-2|HELZ2;ENSG00000130589|ENST00000467148|HELZ2;nc|ENSG00000130589|Q9BYK8|HELZ2 nc|ENSG00000130589|Q9BYK8-2|HELZ2 nc|ENSG00000130589|Q9BYK8-2|HELZ2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 594.7923583984375 2 594.79322 1187.57189 NaN NaN NaN NaN NaN NaN NaN 35.346 1 35.346 34.846 35.846 0 0 0 0 0.82031 1 16037 16037 8.5933 1.8701 1 20370 2601 12795 12849 23744 23744 -0.014395193322570776 MVKIIGSKH 9 Unmodified _MVKIIGSKH_ 0 0 0 ENSG00000162598|ENST00000371201|C1orf87 ENSG00000162598|ENST00000371201|C1orf87 ENSG00000162598|ENST00000371201|C1orf87 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.2154235839844 3 338.203917 1011.58992 2.4928 0.00084307 -0.87206 -0.00029493 1.6207 0.00054814 338.203714271183 41.46 0.25261 42.104 42.026 42.279 0.64451 23 13 2 0 0 0 1.0755 1 19041 19041 2.7352 1.0826 1 1209800 20371 4146 12796 12850 23745 23745 0.08458983704770162 MVKIIGSKH 9 Unmodified _MVKIIGSKH_ 0 0 0 ENSG00000162598|ENST00000371201|C1orf87 ENSG00000162598|ENST00000371201|C1orf87 ENSG00000162598|ENST00000371201|C1orf87 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 338.203917 1011.58992 2.6912 0.00091018 -0.9315 -0.00031504 1.7597 0.00059514 338.2036170572619 41.765 0.23227 42.035 41.842 42.074 0.27021 -0.034704 -2.6695E-05 NaN 2.7352 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 426780 20372 4146 12796 12850 0.08458983704770162 MVKIIGSKH 9 Unmodified _MVKIIGSKH_ 0 0 0 ENSG00000162598|ENST00000371201|C1orf87 ENSG00000162598|ENST00000371201|C1orf87 ENSG00000162598|ENST00000371201|C1orf87 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 338.203917 1011.58992 2.4928 0.00084307 -0.87206 -0.00029493 1.6207 0.00054814 338.203714271183 41.46 0.25261 42.104 42.026 42.279 0.64451 0.034704 3.3619E-05 NaN 2.7352 23 13 2 NaN NaN NaN NaN 0 NaN NaN 0 1209800 20373 4146 12796 12850 0.08458983704770162 MVKKKVVF 8 Unmodified _MVKKKVVF_ 0 0 0 nc|ENSG00000142230|Q9UBE0-2|SAE1;nc|ENSG00000142230|Q9UBE0-3|SAE1;ENSG00000142230|ENST00000270225|SAE1 nc|ENSG00000142230|Q9UBE0-2|SAE1 nc|ENSG00000142230|Q9UBE0-2|SAE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 326.87799072265625 3 326.877141 977.609594 2.217 0.0007247 -0.22625 -7.3954E-05 1.9908 0.00065075 326.8771888089995 14.071 0.13677 14.071 13.99 14.127 0 19 7 4 0 0 0 0.42655 1 6191 6191 26.884 21.152 1 1640600 20374 3303 12797 12851 23746 23746 0.1198935971552828 MVKKKVVF 8 Unmodified _MVKKKVVF_ 0 0 0 nc|ENSG00000142230|Q9UBE0-2|SAE1;nc|ENSG00000142230|Q9UBE0-3|SAE1;ENSG00000142230|ENST00000270225|SAE1 nc|ENSG00000142230|Q9UBE0-2|SAE1 nc|ENSG00000142230|Q9UBE0-2|SAE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.8135070800781 2 489.812073 977.609594 3.1651 0.0015503 -0.93923 -0.00046005 2.2259 0.0010903 489.8117421427216 14.069 0.088544 14.069 14.021 14.109 0 10 4 3 0 0 0 0.045071 1 6194 6194 67.344 58.751 1 654800 20375 3303 12797 12851 23747 23747 0.1198935971552828 MVKKKVVF 8 Unmodified _MVKKKVVF_ 0 0 0 nc|ENSG00000142230|Q9UBE0-2|SAE1;nc|ENSG00000142230|Q9UBE0-3|SAE1;ENSG00000142230|ENST00000270225|SAE1 nc|ENSG00000142230|Q9UBE0-2|SAE1 nc|ENSG00000142230|Q9UBE0-2|SAE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 489.8135070800781 2 489.812073 977.609594 2.9791 0.0014592 -0.039553 -1.9374E-05 2.9396 0.0014398 489.81196869500764 13.457 0.20809 13.701 13.573 13.781 0.24346 29 20 2 0 0 0 0.18676 1 5863 5863 44.407 35.814 1 416190 20376 3303 12797 12851 23748 23748 0.1198935971552828 MVKKKVVF 8 Unmodified _MVKKKVVF_ 0 0 0 nc|ENSG00000142230|Q9UBE0-2|SAE1;nc|ENSG00000142230|Q9UBE0-3|SAE1;ENSG00000142230|ENST00000270225|SAE1 nc|ENSG00000142230|Q9UBE0-2|SAE1 nc|ENSG00000142230|Q9UBE0-2|SAE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 326.8782653808594 3 326.877141 977.609594 2.0603 0.00067347 0.92982 0.00030394 2.9901 0.0009774 326.87738483809727 13.459 0.33633 13.702 13.454 13.791 0.24346 51 31 2 0 0 0 0.45037 1 5873 5873 25.399 19.194 1 1187300 20377 3303 12797 12851 23749 23749 0.1198935971552828 MVKKKVVF 8 Unmodified _MVKKKVVF_ 0 0 0 nc|ENSG00000142230|Q9UBE0-2|SAE1;nc|ENSG00000142230|Q9UBE0-3|SAE1;ENSG00000142230|ENST00000270225|SAE1 nc|ENSG00000142230|Q9UBE0-2|SAE1 nc|ENSG00000142230|Q9UBE0-2|SAE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.8122253417969 2 489.812073 977.609594 2.6806 0.001313 0.11727 5.7439E-05 2.7978 0.0013704 489.81220347187127 13.395 0.24246 13.702 13.564 13.806 0.30727 38 18 3 0 0 0 0.12673 2 6020 6020;6064 50.855 42.262 1 340930 20378 3303 12797 12851 23750;23751 23750 0.1198935971552828 MVKKKVVF 8 Unmodified _MVKKKVVF_ 0 0 0 nc|ENSG00000142230|Q9UBE0-2|SAE1;nc|ENSG00000142230|Q9UBE0-3|SAE1;ENSG00000142230|ENST00000270225|SAE1 nc|ENSG00000142230|Q9UBE0-2|SAE1 nc|ENSG00000142230|Q9UBE0-2|SAE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 326.8778076171875 3 326.877141 977.609594 1.8928 0.0006187 1.523 0.00049785 3.4158 0.0011165 326.87729174588645 13.391 0.43872 13.698 13.408 13.847 0.30727 71 31 4 0 0 0 0.37185 2 6025 6025;6070 30.637 20.563 1 976740 20379 3303 12797 12851 23752;23753 23752 0.1198935971552828 MVKKKVVF 8 Unmodified _MVKKKVVF_ 0 0 0 nc|ENSG00000142230|Q9UBE0-2|SAE1;nc|ENSG00000142230|Q9UBE0-3|SAE1;ENSG00000142230|ENST00000270225|SAE1 nc|ENSG00000142230|Q9UBE0-2|SAE1 nc|ENSG00000142230|Q9UBE0-2|SAE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.32061767578125 2 489.812073 977.609594 3.4313 0.0016807 1.4468 0.00070865 4.8781 0.0023893 489.81229632888255 12.888 0.2333 13.531 13.413 13.646 0.64272 11 6 2 0 0 0 0.045071 2 5782 5782;5790 67.344 58.751 1 886260 20380 3303 12797 12851 23754;23755 23754 0.1198935971552828 MVKKKVVF 8 Unmodified _MVKKKVVF_ 0 0 0 nc|ENSG00000142230|Q9UBE0-2|SAE1;nc|ENSG00000142230|Q9UBE0-3|SAE1;ENSG00000142230|ENST00000270225|SAE1 nc|ENSG00000142230|Q9UBE0-2|SAE1 nc|ENSG00000142230|Q9UBE0-2|SAE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 326.87835693359375 3 326.877141 977.609594 2.4557 0.00080271 2.3782 0.00077737 4.8339 0.0015801 326.8774463051374 12.884 0.26711 13.526 13.379 13.646 0.64272 20 7 4 0 0 0 0.42655 1 5801 5801 26.884 20.16 1 1532700 20381 3303 12797 12851 23756 23756 0.1198935971552828 MVKSALLLRRH 11 Unmodified _MVKSALLLRRH_ 0 0 0 REV__ENST00000302538.9_1_17:907276-907657:-|nuORF REV__ENST00000302538.9_1_17:907276-907657:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.70733642578125 4 331.7065 1322.79689 1.9804 0.00065692 0.86738 0.00028772 2.8478 0.00094463 331.706703321403 54.421 0.72131 55.216 54.817 55.538 0.79552 95 44 4 0 0 0 0.89844 2 24945 24878;24945 1.0136 1.0136 1 1706700 + 20382 15203 12798 12852 23757;23758 23758 0.1484077125294334 MVKSALLLRRH 11 Unmodified _MVKSALLLRRH_ 0 0 0 REV__ENST00000302538.9_1_17:907276-907657:-|nuORF REV__ENST00000302538.9_1_17:907276-907657:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.70684814453125 4 331.7065 1322.79689 2.1056 0.00069844 0.74065 0.00024568 2.8463 0.00094412 331.95757550694304 53.394 0.1935 54.059 53.938 54.132 0.6644 13 7 2 0 0 0 0.89844 1 24411 24411 1.0136 0 1 1898000 + 20383 15203 12798 12852 23759 23759 0.1484077125294334 MVLKLKKEP 9 Unmodified _MVLKLKKEP_ 0 0 0 REV__ENSG00000188986|ENST00000343053|NELFB REV__ENSG00000188986|ENST00000343053|NELFB MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.2236328125 3 362.563222 1084.66784 2.7189 0.00098576 -0.64256 -0.00023297 2.0763 0.00075279 362.5636106043388 88.362 0.454 89.04 88.778 89.232 0.67818 49 18 4 0 0 0 0.11393 1 40722 40722 1.0715 0 1 854800 + 20384 14169 12799 12853 23760 23760 0.12888996570131894 MVLQLLFYRI 10 Unmodified _MVLQLLFYRI_ 0 0 0 REV__ENST00000335508.10_1_2:198270141-198272747:-|nuORF REV__ENST00000335508.10_1_2:198270141-198272747:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.3844604492188 2 648.380852 1294.74715 NaN NaN NaN NaN NaN NaN NaN 3.87 1 4.2463 3.7463 4.7463 0.37632 0 0 0 1.0015 1 1756 1756 0.45834 0.10771 1 + 20385 15414 12800 12854 23761 23761 0.11156643524304855 MVLYRRCIVF 10 Unmodified _MVLYRRCIVF_ 0 0 0 REV__nc|ENSG00000292332|P26951-2|IL3RA REV__nc|ENSG00000292332|P26951-2|IL3RA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 650.0844116210938 2 650.356854 1298.69915 NaN NaN NaN NaN NaN NaN NaN 89.928 1 90.601 90.101 91.101 0.67271 0 0 0 1.0003 1 41401 41401 1.4819 0 1 + 20386 14012 12801 12855 23762 23762 0.06175246332577444 MVNKVLVRHR 10 Unmodified _MVNKVLVRHR_ 0 0 0 ENSG00000198793|ENST00000361445|MTOR ENSG00000198793|ENST00000361445|MTOR ENSG00000198793|ENST00000361445|MTOR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 417.9217529296875 3 417.920403 1250.73938 3.0805 0.0012874 0.63063 0.00026355 3.7111 0.001551 417.92057430439877 40.427 0.52695 40.696 40.31 40.836 0.26904 53 19 3 0 0 0 0.93584 1 18259 18259 1.7423 0 1 4349900 20387 5935 12802 12856 23763 23763 0.1240392904737746 MVNKVLVRHR 10 Unmodified _MVNKVLVRHR_ 0 0 0 ENSG00000198793|ENST00000361445|MTOR ENSG00000198793|ENST00000361445|MTOR ENSG00000198793|ENST00000361445|MTOR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 417.9220275878906 3 417.920403 1250.73938 3.2013 0.0013379 0.58721 0.00024541 3.7885 0.0015833 417.92054499544594 39.851 0.49558 40.492 40.221 40.716 0.64136 50 20 4 0 0 0 0.93584 1 18190 18190 1.7423 1.7423 1 3043200 20388 5935 12802 12856 23764 23764 0.1240392904737746 MVNKVLVRHR 10 Unmodified _MVNKVLVRHR_ 0 0 0 ENSG00000198793|ENST00000361445|MTOR ENSG00000198793|ENST00000361445|MTOR ENSG00000198793|ENST00000361445|MTOR MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 417.920403 1250.73938 2.7947 0.0011679 0.34964 0.00014612 3.1443 0.0013141 417.92037846686134 40.755 0.20959 40.755 40.669 40.879 0 0.029388 -0.00016864 NaN 1.7423 30 10 4 NaN NaN NaN NaN 0 NaN NaN 0 5136000 20389 5935 12802 12856 0.1240392904737746 MVPPKIDAK 9 Unmodified _MVPPKIDAK_ 0 0 0 ENST00000475455.1_1_3:133419788-133419902:+|nuORF;ENST00000490470.5_1_3:133407133-133426371:+|nuORF ENST00000475455.1_1_3:133419788-133419902:+|nuORF ENST00000475455.1_1_3:133419788-133419902:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 333.5302734375 3 333.528289 997.563038 NaN NaN NaN NaN NaN NaN NaN 16.833 1 17.033 16.533 17.533 0.20057 0 0 0 0.89983 1 7444 7444 2.086 0 1 20390 8220 12803 12857 23765 23765 0.06415875093591694 MVQEHDEPIL 10 Unmodified _MVQEHDEPIL_ 0 0 0 nc|ENSG00000187109|P55209-3|NAP1L1;nc|ENSG00000187109|P55209-2|NAP1L1;ENSG00000187109|ENST00000618691|NAP1L1 nc|ENSG00000187109|P55209-3|NAP1L1 nc|ENSG00000187109|P55209-3|NAP1L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 605.795166015625 2 605.792263 1209.56997 3.7516 0.0022727 0.62261 0.00037717 4.3742 0.0026499 605.7923635348119 42.379 0.33977 42.649 42.47 42.81 0.27021 36 18 3 0 0 0 0.05298 2 19340 19293;19340 61.602 36.203 1 760550 20391 5601 12804 12858 23766;23767 23767 -0.02642856816510175 MVQEHDEPIL 10 Unmodified _MVQEHDEPIL_ 0 0 0 nc|ENSG00000187109|P55209-3|NAP1L1;nc|ENSG00000187109|P55209-2|NAP1L1;ENSG00000187109|ENST00000618691|NAP1L1 nc|ENSG00000187109|P55209-3|NAP1L1 nc|ENSG00000187109|P55209-3|NAP1L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 605.7951049804688 2 605.792263 1209.56997 3.9169 0.0023728 0.83825 0.00050781 4.7551 0.0028806 605.7925116216834 41.608 0.12896 42.252 42.133 42.262 0.64451 10 5 2 0 0 0 0.019715 1 19010 19010 74.2 41.894 1 972160 20392 5601 12804 12858 23768 23768 -0.02642856816510175 MVRPYRHQL 9 Unmodified _MVRPYRHQL_ 0 0 0 REV__ENST00000492084.5_1_6:31654991-31670409:-|nuORF REV__ENST00000492084.5_1_6:31654991-31670409:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 600.332275390625 2 600.326942 1198.63933 NaN NaN NaN NaN NaN NaN NaN 39.227 1 39.865 39.365 40.365 0.63778 0 0 0 0.90699 1 17930 17930 1.8442 0 1 + 20393 14417 12805 12859 23769 23769 0.04795691713593442 MVRRDLTVLPR 11 Unmodified _MVRRDLTVLPR_ 0 0 0 ENST00000600887.1_1_10:75256658-75259448:+|nuORF;ENST00000595935.1_1_10:75256658-75264307:+|nuORF;ENST00000600607.5_2_10:75256658-75272986:+|nuORF ENST00000600887.1_1_10:75256658-75259448:+|nuORF ENST00000600887.1_1_10:75256658-75259448:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.9556884765625 4 339.703957 1354.78672 2.2995 0.00078116 0.82424 0.00028 3.1238 0.0010612 339.7041836292665 42.487 0.38905 42.487 42.362 42.751 0 45 27 2 0 0 0 0.91104 1 19343 19343 1.2148 0.76031 1 844730 20394 9273 12806 12860 23770 23770 0.12352163527702942 MVRRDLTVLPR 11 Unmodified _MVRRDLTVLPR_ 0 0 0 ENST00000600887.1_1_10:75256658-75259448:+|nuORF;ENST00000595935.1_1_10:75256658-75264307:+|nuORF;ENST00000600607.5_2_10:75256658-75272986:+|nuORF ENST00000600887.1_1_10:75256658-75259448:+|nuORF ENST00000600887.1_1_10:75256658-75259448:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 339.703957 1354.78672 2.5853 0.00087825 0.61 0.00020722 3.1953 0.0010855 339.7042151280882 42.386 0.43066 42.656 42.434 42.864 0.27021 0.084479 -0.00017359 NaN 1.2148 38 23 2 NaN NaN NaN NaN 0 NaN NaN 0 553220 20395 9273 12806 12860 0.12352163527702942 MVSDEYEQL 9 Unmodified _MVSDEYEQL_ 0 0 0 ENST00000482732.1_1_X:153627802-153628024:+|nuORF;ENST00000489200.5_1_X:153627802-153628283:+|nuORF;ENST00000491035.5_1_X:153626749-153628283:+|nuORF;ENST00000467168.5_1_X:153626860-153629039:+|nuORF;ENSG00000165496|ENST00000298283|RPL10L;ENSG00000147403|ENST00000369817|RPL10 ENST00000482732.1_1_X:153627802-153628024:+|nuORF ENST00000482732.1_1_X:153627802-153628024:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.2437133789062 2 557.242072 1112.46959 3.4229 0.0019074 -0.54295 -0.00030255 2.88 0.0016048 557.2419786023913 49.927 0.30338 49.927 49.769 50.072 0 29 13 3 0 0 0 0.028312 1 22835 22835 57.471 28.985 1 1056500 20396 3561 12807 12861 23771 23771 -0.08214513870143492 MVSDEYEQL 9 Unmodified _MVSDEYEQL_ 0 0 0 ENST00000482732.1_1_X:153627802-153628024:+|nuORF;ENST00000489200.5_1_X:153627802-153628283:+|nuORF;ENST00000491035.5_1_X:153626749-153628283:+|nuORF;ENST00000467168.5_1_X:153626860-153629039:+|nuORF;ENSG00000165496|ENST00000298283|RPL10L;ENSG00000147403|ENST00000369817|RPL10 ENST00000482732.1_1_X:153627802-153628024:+|nuORF ENST00000482732.1_1_X:153627802-153628024:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.2430419921875 2 557.242072 1112.46959 3.36 0.0018723 -0.53505 -0.00029815 2.8249 0.0015742 557.2417868793341 48.978 0.36626 49.805 49.602 49.969 0.82705 35 19 2 0 0 0 0.028312 1 22319 22319 57.471 28.985 1 781920 20397 3561 12807 12861 23772 23772 -0.08214513870143492 MVSDEYEQL 9 Unmodified _MVSDEYEQL_ 0 0 0 ENST00000482732.1_1_X:153627802-153628024:+|nuORF;ENST00000489200.5_1_X:153627802-153628283:+|nuORF;ENST00000491035.5_1_X:153626749-153628283:+|nuORF;ENST00000467168.5_1_X:153626860-153629039:+|nuORF;ENSG00000165496|ENST00000298283|RPL10L;ENSG00000147403|ENST00000369817|RPL10 ENST00000482732.1_1_X:153627802-153628024:+|nuORF ENST00000482732.1_1_X:153627802-153628024:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.2443237304688 2 557.242072 1112.46959 3.5892 0.002 -0.097827 -5.4513E-05 3.4913 0.0019455 557.2419770662648 49.326 0.3456 49.982 49.763 50.109 0.65524 28 11 3 0 0 0 0.028312 1 22562 22562 57.471 28.985 1 961030 20398 3561 12807 12861 23773 23773 -0.08214513870143492 MVSTEPLAL 9 Unmodified _MVSTEPLAL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;nc|ENSG00000163359|P12111-4|COL6A3;ENST00000491769.1_1_2:238233419-238250825:-|nuORF;ENST00000493608.1_1_2:238242084-238243404:-|nuORF nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.7562255859375 2 480.757161 959.499769 2.5154 0.0012093 -0.54211 -0.00026062 1.9733 0.00094868 480.75699920415514 68.147 0.26773 68.147 67.946 68.214 0 55 39 2 0 0 0 0.078322 1 32729 32729 38.151 13.477 1 3085200 20399 4204 12808 12862 23774 23774 0.018398895856762465 MVSTEPLAL 9 Unmodified _MVSTEPLAL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;nc|ENSG00000163359|P12111-4|COL6A3;ENST00000491769.1_1_2:238233419-238250825:-|nuORF;ENST00000493608.1_1_2:238242084-238243404:-|nuORF nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.7585144042969 2 480.757161 959.499769 3.3038 0.0015883 0.080764 3.8828E-05 3.3846 0.0016272 480.7572686434323 67.664 0.44416 67.916 67.73 68.174 0.25227 46 25 2 0 0 0 0.029028 3 31012 30963;31012;31065 56.541 18.39 1 1099100 20400 4204 12808 12862 23775;23776;23777 23776 0.018398895856762465 MVSTEPLAL 9 Unmodified _MVSTEPLAL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;nc|ENSG00000163359|P12111-4|COL6A3;ENST00000491769.1_1_2:238233419-238250825:-|nuORF;ENST00000493608.1_1_2:238242084-238243404:-|nuORF nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 960.510009765625 1 960.507045 959.499769 3.9199 0.0037651 -0.32904 -0.00031605 3.5909 0.003449 960.5068173620643 67.724 0.36322 67.976 67.779 68.142 0.25227 28 21 2 0 0 0 0.26001 2 31004 31004;31061 19.439 10.092 1 410830 20401 4204 12808 12862 23778;23779 23778 0.018398895856762465 MVSTEPLAL 9 Unmodified _MVSTEPLAL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;nc|ENSG00000163359|P12111-4|COL6A3;ENST00000491769.1_1_2:238233419-238250825:-|nuORF;ENST00000493608.1_1_2:238242084-238243404:-|nuORF nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.7596435546875 2 480.757161 959.499769 3.1294 0.0015045 0.4386 0.00021086 3.568 0.0017154 480.75741874487915 67.161 0.41457 67.819 67.6 68.015 0.65778 43 24 2 0 0 0 0.015487 3 30784 30733;30784;30829 74.396 20.821 1 1053400 20402 4204 12808 12862 23780;23781;23782 23781 0.018398895856762465 MVSTEPLAL 9 Unmodified _MVSTEPLAL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;nc|ENSG00000163359|P12111-4|COL6A3;ENST00000491769.1_1_2:238233419-238250825:-|nuORF;ENST00000493608.1_1_2:238242084-238243404:-|nuORF nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 960.511474609375 1 960.507045 959.499769 3.7955 0.0036456 -0.71621 -0.00068792 3.0793 0.0029577 960.5064988011201 67.15 0.34148 67.808 67.632 67.973 0.65778 26 19 2 0 0 0 0.26001 1 30772 30772 19.439 2.4967 1 446270 20403 4204 12808 12862 23783 23783 0.018398895856762465 MVTDDFVV 8 Unmodified _MVTDDFVV_ 0 0 0 ENSG00000277791|ENST00000619426|PSMB3 ENSG00000277791|ENST00000619426|PSMB3 ENSG00000277791|ENST00000619426|PSMB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.2218017578125 2 463.220411 924.426269 2.9022 0.0013444 0.30886 0.00014307 3.211 0.0014874 463.22056933344686 69.297 0.25791 69.552 69.401 69.659 0.25443 26 15 2 0 0 0 0.64692 2 31706 31706;31753 10.183 1.5901 1 382600 20404 6355 12809 12863 23784;23785 23784 -0.03896658856785962 MVTDDFVV 8 Unmodified _MVTDDFVV_ 0 0 0 ENSG00000277791|ENST00000619426|PSMB3 ENSG00000277791|ENST00000619426|PSMB3 ENSG00000277791|ENST00000619426|PSMB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.2216491699219 2 463.220411 924.426269 2.6341 0.0012202 0.32456 0.00015034 2.9587 0.0013705 463.2204813814833 68.751 0.2483 69.41 69.294 69.542 0.65924 25 17 2 0 0 0 0.64692 1 31510 31510 10.183 4.423 1 276650 20405 6355 12809 12863 23786 23786 -0.03896658856785962 MVVVNAQLIF 10 Unmodified _MVVVNAQLIF_ 0 0 0 REV__ENSG00000145087|ENST00000471454|STXBP5L REV__ENSG00000145087|ENST00000471454|STXBP5L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 378.5533752441406 3 378.551094 1132.63145 NaN NaN NaN NaN NaN NaN NaN 30.197 1 30.197 29.697 30.697 0 0 0 0 0.99733 1 13640 13640 1.9064 0.57673 1 + 20406 12424 12810 12864 23787 23787 0.07044119673423666 MVYPRRNL 8 Unmodified _MVYPRRNL_ 0 0 0 ENSG00000061676|ENST00000361354|NCKAP1;nc|ENSG00000061676|Q9Y2A7-2|NCKAP1 ENSG00000061676|ENST00000361354|NCKAP1 ENSG00000061676|ENST00000361354|NCKAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.790771484375 2 524.789661 1047.56477 3.1876 0.0016728 -1.1588 -0.00060814 2.0287 0.0010647 524.7891471281122 15.047 0.71034 15.047 14.783 15.494 0 164 79 3 0 0 0 0.7471 2 6755 6755;6800 0.69038 0 1 222920 20407 648 12811 12865 23788;23789 23788 0.042889289022014054 MVYPRRNL 8 Unmodified _MVYPRRNL_ 0 0 0 ENSG00000061676|ENST00000361354|NCKAP1;nc|ENSG00000061676|Q9Y2A7-2|NCKAP1 ENSG00000061676|ENST00000361354|NCKAP1 ENSG00000061676|ENST00000361354|NCKAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.20751953125 3 350.195533 1047.56477 NaN NaN NaN NaN NaN NaN NaN 39.245 1 39.512 39.012 40.012 0.26696 0 0 0 0.99035 1 17858 17858 1.8442 0 1 20408 648 12811 12865 23790 23790 0.042889289022014054 MWDRCFNI 8 Unmodified _MWDRCFNI_ 0 0 0 ENST00000607092.1_1_7:101459320-101559506:+|nuORF;ENST00000547394.6_1_7:101459320-101713628:+|nuORF;ENST00000437600.8_1_7:101459221-101671393:+|nuORF ENST00000607092.1_1_7:101459320-101559506:+|nuORF ENST00000607092.1_1_7:101459320-101559506:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.7396240234375 2 542.73878 1083.46301 3.4721 0.0018844 -1.1309 -0.00061379 2.3412 0.0012706 542.7380970152811 51.858 0.34332 51.858 51.624 51.967 0 48 26 2 0 0 0 0.37185 2 23736 23692;23736 30.225 30.225 1 2225200 20409 7908 12812 12866 23791;23792 23792 -0.07538685511872245 MWDRCFNI 8 Unmodified _MWDRCFNI_ 0 0 0 ENST00000607092.1_1_7:101459320-101559506:+|nuORF;ENST00000547394.6_1_7:101459320-101713628:+|nuORF;ENST00000437600.8_1_7:101459221-101671393:+|nuORF ENST00000607092.1_1_7:101459320-101559506:+|nuORF ENST00000607092.1_1_7:101459320-101559506:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.7390747070312 2 542.73878 1083.46301 2.833 0.0015376 -0.60329 -0.00032743 2.2297 0.0012101 542.7385206466321 50.92 0.33111 51.738 51.536 51.867 0.81738 33 18 2 0 0 0 0.37185 1 23194 23194 30.225 30.225 1 1716800 20410 7908 12812 12866 23793 23793 -0.07538685511872245 MWDRCFNI 8 Unmodified _MWDRCFNI_ 0 0 0 ENST00000607092.1_1_7:101459320-101559506:+|nuORF;ENST00000547394.6_1_7:101459320-101713628:+|nuORF;ENST00000437600.8_1_7:101459221-101671393:+|nuORF ENST00000607092.1_1_7:101459320-101559506:+|nuORF ENST00000607092.1_1_7:101459320-101559506:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.7403564453125 2 542.73878 1083.46301 3.2341 0.0017553 -0.81145 -0.0004404 2.4227 0.0013149 542.7383718501037 51.714 0.33855 51.976 51.774 52.113 0.26228 47 22 3 0 0 0 0.47217 2 23596 23596;23644 23.148 23.148 1 2019600 20411 7908 12812 12866 23794;23795 23794 -0.07538685511872245 MWDRCFNI 8 Unmodified _MWDRCFNI_ 0 0 0 ENST00000607092.1_1_7:101459320-101559506:+|nuORF;ENST00000547394.6_1_7:101459320-101713628:+|nuORF;ENST00000437600.8_1_7:101459221-101671393:+|nuORF ENST00000607092.1_1_7:101459320-101559506:+|nuORF ENST00000607092.1_1_7:101459320-101559506:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.7401123046875 2 542.73878 1083.46301 3.2586 0.0017686 -0.74009 -0.00040167 2.5185 0.0013669 542.738410600648 51.163 0.32385 51.823 51.626 51.949 0.65956 46 21 3 0 0 0 0.37185 2 23408 23364;23408 30.225 30.225 1 2107500 20412 7908 12812 12866 23796;23797 23797 -0.07538685511872245 MWDRCFNI 8 Unmodified _MWDRCFNI_ 0 0 0 ENST00000607092.1_1_7:101459320-101559506:+|nuORF;ENST00000547394.6_1_7:101459320-101713628:+|nuORF;ENST00000437600.8_1_7:101459221-101671393:+|nuORF ENST00000607092.1_1_7:101459320-101559506:+|nuORF ENST00000607092.1_1_7:101459320-101559506:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 542.73878 1083.46301 3.2341 0.0017553 -0.81145 -0.0004404 2.4227 0.0013149 542.7383718501037 51.714 0.33855 51.976 51.774 52.113 0.26228 0.12785 3.5323E-05 NaN 30.225 47 22 3 NaN NaN NaN NaN 0 NaN NaN 0 2019600 20413 7908 12812 12866 -0.07538685511872245 MWDRCFNI 8 Unmodified _MWDRCFNI_ 0 0 0 ENST00000607092.1_1_7:101459320-101559506:+|nuORF;ENST00000547394.6_1_7:101459320-101713628:+|nuORF;ENST00000437600.8_1_7:101459221-101671393:+|nuORF ENST00000607092.1_1_7:101459320-101559506:+|nuORF ENST00000607092.1_1_7:101459320-101559506:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 542.73878 1083.46301 3.2586 0.0017686 -0.74009 -0.00040167 2.5185 0.0013669 542.738410600648 51.163 0.32385 51.823 51.626 51.949 0.65956 -0.025972 0.00011278 NaN 30.225 46 21 3 NaN NaN NaN NaN 0 NaN NaN 0 2107500 20414 7908 12812 12866 -0.07538685511872245 MWFWILWRFWH 11 Unmodified _MWFWILWRFWH_ 0 0 0 ENSG00000090266|ENST00000247866|NDUFB2 ENSG00000090266|ENST00000247866|NDUFB2 ENSG00000090266|ENST00000247866|NDUFB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 854.0565185546875 2 854.423916 1706.83328 NaN NaN NaN NaN NaN NaN NaN 92.292 1 92.939 92.439 93.439 0.64714 0 0 0 1.0082 1 42463 42463 0 0 1 20415 1055 12813 12867 23798 23798 0.008136481496421766 MWIQKKMRMK 10 Unmodified _MWIQKKMRMK_ 0 0 0 REV__ENST00000498070.5_1_1:202464586-202471035:+|nuORF REV__ENST00000498070.5_1_1:202464586-202471035:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 690.3772583007812 2 690.377263 1378.73997 NaN NaN NaN NaN NaN NaN NaN 104.62 1 105.22 104.72 105.72 0.59885 0 0 0 1.002 1 48330 48330 0 0 1 + 20416 16865 12814 12868 23799 23799 0.06575264380535373 MWKEGNRIHF 10 Unmodified _MWKEGNRIHF_ 0 0 0 HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant;nc|ENSG00000133835|P51659-3|HSD17B4;ENSG00000133835|ENST00000510025|HSD17B4;nc|ENSG00000133835|P51659-2|HSD17B4;ENST00000507353.1_1_5:118861592-118865690:+|nuORF;ENST00000515235.6_1_5:118829562-118961685:+|nuORF;ENST00000442060.7_1_5:118860916-118866997:+|nuORF HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant;ENST00000442060.7_1_5:118860916-118866997:+|nuORF HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 439.8894348144531 3 439.88888 1316.64481 2.6602 0.0011702 0.14478 6.3688E-05 2.805 0.0012339 440.22324454581064 34.949 0.2545 34.949 34.825 35.079 0 30 19 2 0 0 0 0.055899 1 15846 15846 60.899 31.618 1 3131700 20417 2772;7941 12815 12869 23800 23800 -0.0008462949463137193 MWKEGNRIHF 10 Unmodified _MWKEGNRIHF_ 0 0 0 HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant;nc|ENSG00000133835|P51659-3|HSD17B4;ENSG00000133835|ENST00000510025|HSD17B4;nc|ENSG00000133835|P51659-2|HSD17B4;ENST00000507353.1_1_5:118861592-118865690:+|nuORF;ENST00000515235.6_1_5:118829562-118961685:+|nuORF;ENST00000442060.7_1_5:118860916-118866997:+|nuORF HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant;ENST00000442060.7_1_5:118860916-118866997:+|nuORF HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 439.8897399902344 3 439.88888 1316.64481 2.4926 0.0010965 0.041428 1.8224E-05 2.534 0.0011147 439.8890018334611 33.861 0.23333 34.649 34.571 34.805 0.78795 39 15 3 0 0 0 0.17471 2 15316 15316;15366 42.312 23.169 1 1281400 20418 2772;7941 12815 12869 23801;23802 23801 -0.0008462949463137193 MWKEGNRIHF 10 Unmodified _MWKEGNRIHF_ 0 0 0 HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant;nc|ENSG00000133835|P51659-3|HSD17B4;ENSG00000133835|ENST00000510025|HSD17B4;nc|ENSG00000133835|P51659-2|HSD17B4;ENST00000507353.1_1_5:118861592-118865690:+|nuORF;ENST00000515235.6_1_5:118829562-118961685:+|nuORF;ENST00000442060.7_1_5:118860916-118866997:+|nuORF HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant;ENST00000442060.7_1_5:118860916-118866997:+|nuORF HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 439.8901672363281 3 439.88888 1316.64481 2.8341 0.0012467 -0.06103 -2.6846E-05 2.7731 0.0012198 439.88880722335983 35.037 0.22822 35.292 35.216 35.444 0.25524 15 12 2 0 0 0 0.26151 1 15996 15996 32.037 15.763 1 654800 20419 2772;7941 12815 12869 23803 23803 -0.0008462949463137193 MWKEGNRIHF 10 Unmodified _MWKEGNRIHF_ 0 0 0 HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant;nc|ENSG00000133835|P51659-3|HSD17B4;ENSG00000133835|ENST00000510025|HSD17B4;nc|ENSG00000133835|P51659-2|HSD17B4;ENST00000507353.1_1_5:118861592-118865690:+|nuORF;ENST00000515235.6_1_5:118829562-118961685:+|nuORF;ENST00000442060.7_1_5:118860916-118866997:+|nuORF HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant;ENST00000442060.7_1_5:118860916-118866997:+|nuORF HSD17B4|p.A662Lfs*7|1|0.22|ENSG00000133835|chr5:119531392-119531392|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 439.8901672363281 3 439.88888 1316.64481 3.0528 0.0013429 -0.79208 -0.00034843 2.2608 0.00099448 439.8887074122747 34.63 0.20275 35.253 35.085 35.288 0.62294 16 7 3 0 0 0 0.23131 1 15862 15862 35.612 20.774 1 587270 20420 2772;7941 12815 12869 23804 23804 -0.0008462949463137193 MWLQQRLKGL 10 Unmodified _MWLQQRLKGL_ 0 0 0 ENSG00000116685|ENST00000376572|KIAA2013;nc|ENSG00000116685|Q8IYS2-2|KIAA2013 ENSG00000116685|ENST00000376572|KIAA2013 ENSG00000116685|ENST00000376572|KIAA2013 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 424.91448974609375 3 424.913025 1271.71725 NaN NaN NaN NaN NaN NaN NaN 52.521 1 53.332 52.832 53.832 0.81065 0 0 0 0.99807 1 23930 23930 3.3196 0 1 20421 2040 12816 12870 23805 23805 0.09225704578943805 MWRRRRPGRR 10 Unmodified _MWRRRRPGRR_ 0 0 0 ENSG00000110665|ENST00000381153|C11orf21 ENSG00000110665|ENST00000381153|C11orf21 ENSG00000110665|ENST00000381153|C11orf21 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 713.9130249023438 2 713.912904 1425.81126 NaN NaN NaN NaN NaN NaN NaN 104.19 1 104.51 104.01 105.01 0.31863 0 0 0 1.0015 1 48142 48142 0.45834 0.15131 1 20422 1723 12817 12871 23806 23806 0.11538281244452264 MWSPTHPALF 10 Unmodified _MWSPTHPALF_ 0 0 0 ENST00000435916.1_1_10:52025510-52026503:+|nuORF;ENST00000479806.1_1_2:172583261-172604396:+|nuORF;nc|ENSG00000077380|Q13409-6|DYNC1I2;nc|ENSG00000077380|Q13409-3|DYNC1I2;nc|ENSG00000077380|Q13409-7|DYNC1I2;nc|ENSG00000077380|Q13409-2|DYNC1I2;nc|ENSG00000077380|Q13409-5|DYNC1I2;ENSG00000077380|ENST00000397119|DYNC1I2 ENST00000435916.1_1_10:52025510-52026503:+|nuORF ENST00000435916.1_1_10:52025510-52026503:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.74462890625 2 593.789327 1185.5641 2.7807 0.0016511 0.55095 0.00032715 3.3316 0.0019783 593.7891789593685 71.397 0.18997 71.397 71.29 71.48 0 21 18 2 0 0 0 0.51828 1 34733 34733 20.454 9.6297 1 826900 20423 862 12818 12872 23807 23807 -0.021259105375293075 MYEEWDAF 8 Unmodified _MYEEWDAF_ 0 0 0 ENST00000460138.5_1_6:7882234-7882414:-|nuORF ENST00000460138.5_1_6:7882234-7882414:-|nuORF ENST00000460138.5_1_6:7882234-7882414:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.2613525390625 2 545.71295 1089.41135 NaN NaN NaN NaN NaN NaN NaN 85.978 1 86.008 85.508 86.508 0.030289 0 0 0 0.99035 1 43143 43143 2.8892 0.15402 1 20424 8068 12819 12873 23808 23808 -0.12978150724802617 MYFWKRFCFWK 11 Unmodified _MYFWKRFCFWK_ 0 0 0 nc|ENSG00000121446|A5PLK6-3|RGSL1;nc|ENSG00000121446|A5PLK6-2|RGSL1;ENSG00000121446|ENST00000294854|RGSL1 nc|ENSG00000121446|A5PLK6-3|RGSL1 nc|ENSG00000121446|A5PLK6-3|RGSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 821.3965454101562 2 821.39651 1640.77847 NaN NaN NaN NaN NaN NaN NaN 76.927 1 77.551 77.051 78.051 0.62397 0 0 0 1.0082 1 37299 37299 0 0 1 20425 2230 12820 12874 23809 23809 -0.016291067132897297 MYFWKRFCFWK 11 Unmodified _MYFWKRFCFWK_ 0 0 0 nc|ENSG00000121446|A5PLK6-3|RGSL1;nc|ENSG00000121446|A5PLK6-2|RGSL1;ENSG00000121446|ENST00000294854|RGSL1 nc|ENSG00000121446|A5PLK6-3|RGSL1 nc|ENSG00000121446|A5PLK6-3|RGSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 821.3969116210938 2 821.39651 1640.77847 NaN NaN NaN NaN NaN NaN NaN 45.816 1 46.467 45.967 46.967 0.65104 0 0 0 1.0082 1 20991 20991 0 0 1 20426 2230 12820 12874 23810 23810 -0.016291067132897297 MYGFVNHAL 9 Unmodified _MYGFVNHAL_ 0 0 0 ENSG00000061918|ENST00000264424|GUCY1B1;nc|ENSG00000061918|Q02153-2|GUCY1B1;ENST00000505764.5_1_4:156680217-156693886:+|nuORF ENSG00000061918|ENST00000264424|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.2564697265625 2 526.25512 1050.49569 3.2155 0.0016922 -0.31004 -0.00016316 2.9054 0.001529 526.2551688103265 55.129 0.2316 55.129 55.061 55.292 0 38 21 3 0 0 0 0.018173 1 25312 25312 70.716 42.542 1 2091700 20427 649 12821 12875 23811 23811 -0.027541551173726475 MYGFVNHAL 9 Unmodified _MYGFVNHAL_ 0 0 0 ENSG00000061918|ENST00000264424|GUCY1B1;nc|ENSG00000061918|Q02153-2|GUCY1B1;ENST00000505764.5_1_4:156680217-156693886:+|nuORF ENSG00000061918|ENST00000264424|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.2564697265625 2 526.25512 1050.49569 2.9728 0.0015644 0.15376 8.092E-05 3.1266 0.0016454 526.2549180301227 53.884 0.35417 54.679 54.515 54.869 0.79552 38 16 3 0 0 0 0.0039848 2 24611 24560;24611 93.883 65.71 1 1445600 20428 649 12821 12875 23812;23813 23813 -0.027541551173726475 MYGFVNHAL 9 Unmodified _MYGFVNHAL_ 0 0 0 ENSG00000061918|ENST00000264424|GUCY1B1;nc|ENSG00000061918|Q02153-2|GUCY1B1;ENST00000505764.5_1_4:156680217-156693886:+|nuORF ENSG00000061918|ENST00000264424|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.2561645507812 2 526.25512 1050.49569 3.0515 0.0016058 0.51668 0.00027191 3.5681 0.0018778 526.2552944620461 55.096 0.24036 55.361 55.217 55.457 0.26543 16 12 2 0 0 0 0.018173 1 25188 25188 70.716 38.599 1 2784700 20429 649 12821 12875 23814 23814 -0.027541551173726475 MYGFVNHAL 9 Unmodified _MYGFVNHAL_ 0 0 0 ENSG00000061918|ENST00000264424|GUCY1B1;nc|ENSG00000061918|Q02153-2|GUCY1B1;ENST00000505764.5_1_4:156680217-156693886:+|nuORF ENSG00000061918|ENST00000264424|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.2566528320312 2 526.25512 1050.49569 3.176 0.0016714 -0.13484 -7.0958E-05 3.0412 0.0016004 526.2549900399697 54.35 0.26007 55.016 54.859 55.119 0.6665 30 13 3 0 0 0 0.010037 2 24824 24824;24870 81.864 53.691 1 2085800 20430 649 12821 12875 23815;23816 23815 -0.027541551173726475 MYGKVYRI 8 Unmodified _MYGKVYRI_ 0 0 0 nc|ENSG00000163882|P52434-4|POLR2H;nc|ENSG00000163882|P52434-3|POLR2H;ENSG00000163882|ENST00000456318|POLR2H;ENST00000476003.1_1_3:184084469-184086079:+|nuORF nc|ENSG00000163882|P52434-4|POLR2H nc|ENSG00000163882|P52434-4|POLR2H MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.283203125 2 515.281137 1028.54772 NaN NaN NaN NaN NaN NaN NaN 30.203 1 30.203 29.703 30.703 0 0 0 0 0.67718 1 13643 13643 23.148 9.6405 1 20431 9720 12822 12876 23817 23817 0.03459008296385946 MYGYNLRL 8 Unmodified _MYGYNLRL_ 0 0 0 ENST00000422544.2_1_4:157732155-157771439:-|nuORF ENST00000422544.2_1_4:157732155-157771439:-|nuORF ENST00000422544.2_1_4:157732155-157771439:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.2622680664062 2 515.262945 1028.51134 NaN NaN NaN NaN NaN NaN NaN 29.156 1 29.774 29.274 30.274 0.61789 0 0 0 0.99035 1 13371 13371 0.79363 0 1 20432 7770 12823 12877 23818 23818 -0.0017786860032629193 MYHTHFSEL 9 Unmodified _MYHTHFSEL_ 0 0 0 CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant;nc|ENSG00000182158|Q70SY1-2|CREB3L2;ENSG00000182158|ENST00000330387|CREB3L2;nc|ENSG00000182158|Q70SY1-3|CREB3L2 CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant CREB3L2|p.Y401Lfs*22|1|0.16|ENSG00000182158|chr7:137885057-137885063|GAAGGAT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 388.8437194824219 3 388.842936 1163.50698 2.5232 0.00098113 0.12678 4.9296E-05 2.65 0.0010304 388.8428593346722 34.962 0.1223 35.751 35.66 35.782 0.78921 10 8 2 0 0 0 1.0755 1 15856 15856 2.7352 1.5419 1 243640 20433 244 12824 12878 23819 23819 -0.06823377813861953 MYINEVERL 9 Unmodified _MYINEVERL_ 0 0 0 ENSG00000152104|ENST00000366956|PTPN14 ENSG00000152104|ENST00000366956|PTPN14 ENSG00000152104|ENST00000366956|PTPN14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.7996826171875 2 583.797349 1165.58014 3.4352 0.0020055 -1.0269 -0.00059952 2.4083 0.001406 583.7966958817497 55.956 0.21262 55.956 55.866 56.079 0 34 14 3 0 0 0 0.02812 1 25762 25762 57.722 29.235 1 1893600 20434 3738 12825 12879 23820 23820 0.0039775090874627494 MYINEVERL 9 Unmodified _MYINEVERL_ 0 0 0 ENSG00000152104|ENST00000366956|PTPN14 ENSG00000152104|ENST00000366956|PTPN14 ENSG00000152104|ENST00000366956|PTPN14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 583.7979736328125 2 583.797349 1165.58014 2.827 0.0016504 -0.0022671 -1.3235E-06 2.8247 0.0016491 583.7969933157168 54.894 0.30394 55.689 55.575 55.879 0.79552 36 20 3 0 0 0 0.014491 2 25035 25035;25126 75.761 39.634 1 1909600 20435 3738 12825 12879 23821;23822 23821 0.0039775090874627494 MYINEVERL 9 Unmodified _MYINEVERL_ 0 0 0 ENSG00000152104|ENST00000366956|PTPN14 ENSG00000152104|ENST00000366956|PTPN14 ENSG00000152104|ENST00000366956|PTPN14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.7994384765625 2 583.797349 1165.58014 3.338 0.0019487 0.36357 0.00021225 3.7016 0.002161 583.797487514399 55.953 0.19939 56.218 56.101 56.301 0.26543 19 8 3 0 0 0 0.018453 1 25593 25593 70.332 34.205 1 1062600 20436 3738 12825 12879 23823 23823 0.0039775090874627494 MYINEVERL 9 Unmodified _MYINEVERL_ 0 0 0 ENSG00000152104|ENST00000366956|PTPN14 ENSG00000152104|ENST00000366956|PTPN14 ENSG00000152104|ENST00000366956|PTPN14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.7987670898438 2 583.797349 1165.58014 3.5505 0.0020728 0.042832 2.5005E-05 3.5934 0.0020978 583.7973003326767 55.239 0.25257 55.907 55.755 56.007 0.66798 16 8 2 0 0 0 0.02812 1 25266 25266 57.722 15.882 1 901980 20437 3738 12825 12879 23824 23824 0.0039775090874627494 MYISNRHEF 9 Unmodified _MYISNRHEF_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2;ENST00000478436.1_1_3:145794517-145794673:-|nuORF nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.5231628417969 3 399.522086 1195.54443 2.9261 0.001169 -0.31358 -0.00012528 2.6125 0.0010438 399.5220508589829 28.972 0.39009 28.972 28.787 29.177 0 105 31 4 0 0 0 0.019184 4 13102 13012;13060;13102;13149 69.338 44.457 1 2679800 20438 3765 12826 12880 23825;23826;23827;23828 23827 -0.04552286548300799 MYISNRHEF 9 Unmodified _MYISNRHEF_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2;ENST00000478436.1_1_3:145794517-145794673:-|nuORF nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 599.2827758789062 2 598.77949 1195.54443 3.6579 0.0021902 0.50863 0.00030456 4.1665 0.0024948 598.779743504375 28.973 0.34279 28.973 28.822 29.165 0 57 27 3 0 0 0 0.071239 3 13084 13044;13084;13128 35.612 28.495 1 535410 20439 3765 12826 12880 23829;23830;23831 23830 -0.04552286548300799 MYISNRHEF 9 Unmodified _MYISNRHEF_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2;ENST00000478436.1_1_3:145794517-145794673:-|nuORF nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.523193359375 3 399.522086 1195.54443 2.7181 0.0010859 -0.30615 -0.00012231 2.4119 0.00096361 399.52204625946297 28.001 0.35211 28.787 28.558 28.91 0.78627 92 31 4 0 0 0 0.061685 3 12623 12531;12576;12623 42.312 28.094 1 2916800 20440 3765 12826 12880 23832;23833;23834 23834 -0.04552286548300799 MYISNRHEF 9 Unmodified _MYISNRHEF_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2;ENST00000478436.1_1_3:145794517-145794673:-|nuORF nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 598.78076171875 2 598.77949 1195.54443 3.57 0.0021376 -0.22632 -0.00013551 3.3436 0.0020021 598.7793770062134 28 0.24926 28.786 28.616 28.866 0.78627 40 21 3 0 0 0 0.051645 2 12610 12569;12610 49.527 26.791 1 525720 20441 3765 12826 12880 23835;23836 23836 -0.04552286548300799 MYISNRHEF 9 Unmodified _MYISNRHEF_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2;ENST00000478436.1_1_3:145794517-145794673:-|nuORF nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.5233459472656 3 399.522086 1195.54443 3.0062 0.0012011 -0.33969 -0.00013572 2.6665 0.0010653 399.5219895128952 28.886 0.28283 29.146 29.002 29.285 0.2602 48 22 3 0 0 0 0.074077 2 13123 13123;13169 39.213 24.808 1 2061900 20442 3765 12826 12880 23837;23838 23837 -0.04552286548300799 MYISNRHEF 9 Unmodified _MYISNRHEF_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2;ENST00000478436.1_1_3:145794517-145794673:-|nuORF nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.78271484375 2 598.77949 1195.54443 NaN NaN NaN NaN NaN NaN NaN 28.862 1 29.122 28.622 29.622 0.2602 0 0 0 0.093916 1 13132 13132 45.74 24.869 1 20443 3765 12826 12880 23839 23839 -0.04552286548300799 MYISNRHEF 9 Unmodified _MYISNRHEF_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2;ENST00000478436.1_1_3:145794517-145794673:-|nuORF nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.5229797363281 3 399.522086 1195.54443 2.8821 0.0011515 -0.40758 -0.00016284 2.4745 0.00098861 399.5219469957938 28.552 0.3855 29.171 28.972 29.358 0.61947 57 20 4 0 0 0 0.10277 3 13054 13054;13104;13158 32.037 19.863 1 806340 20444 3765 12826 12880 23840;23841;23842 23840 -0.04552286548300799 MYISNRHEF 9 Unmodified _MYISNRHEF_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2;ENST00000478436.1_1_3:145794517-145794673:-|nuORF nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 599.2836303710938 2 598.77949 1195.54443 3.9516 0.0023661 -0.21113 -0.00012642 3.7404 0.0022397 598.7794071962519 28.578 0.27956 29.198 29.041 29.321 0.61947 29 13 3 0 0 0 0.14214 2 13069 13069;13119 18.373 6.1324 1 305490 20445 3765 12826 12880 23843;23844 23843 -0.04552286548300799 MYKLLRRLKKK 11 Unmodified _MYKLLRRLKKK_ 0 0 0 REV__ENSG00000196284|ENST00000371459|SUPT3H REV__ENSG00000196284|ENST00000371459|SUPT3H MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.956787109375 3 492.990158 1475.94864 NaN NaN NaN NaN NaN NaN NaN 89.603 1 89.603 89.103 90.103 0 0 0 0 1.0079 1 46848 46848 0.40827 0.31342 1 + 20446 14202 12827 12881 23845 23845 0.22970752280639317 MYKMHYLF 8 Unmodified _MYKMHYLF_ 0 0 0 REV__nc|ENSG00000112282|Q9ULK4-4|MED23 REV__nc|ENSG00000112282|Q9ULK4-4|MED23 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.7726440429688 2 566.769548 1131.52454 NaN NaN NaN NaN NaN NaN NaN 45.83 1 46.481 45.981 46.981 0.65104 0 0 0 0.99035 1 20997 20997 5.7604 0.52976 1 + 20447 11267 12828 12882 23846 23846 -0.03595753812601288 MYLKTVDKF 9 Unmodified _MYLKTVDKF_ 0 0 0 nc|ENSG00000196459|P0DI81-2|TRAPPC2;ENSG00000256060|ENST00000543226|TRAPPC2B;ENSG00000196459|ENST00000380579|TRAPPC2;nc|ENSG00000196459|P0DI81-3|TRAPPC2 nc|ENSG00000196459|P0DI81-2|TRAPPC2 nc|ENSG00000196459|P0DI81-2|TRAPPC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 382.20880126953125 3 382.207216 1143.59982 3.0865 0.0011797 -0.75376 -0.00028809 2.3327 0.00089159 382.2070399532813 41.559 0.21462 41.83 41.752 41.966 0.27021 16 9 3 0 0 0 0.076469 1 18940 18940 38.615 15.957 1 590150 20448 5747 12829 12883 23847 23847 0.033761269194883425 MYLMIKAF 8 Unmodified _MYLMIKAF_ 0 0 0 nc|ENSG00000164039|Q9BUT1-3|BDH2;nc|ENSG00000164039|Q9BUT1-2|BDH2;ENST00000492366.5_1_4:104007535-104017411:-|nuORF;ENSG00000164039|ENST00000296424|BDH2 nc|ENSG00000164039|Q9BUT1-3|BDH2 nc|ENSG00000164039|Q9BUT1-3|BDH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.7671813964844 2 508.769017 1015.52348 NaN NaN NaN NaN NaN NaN NaN 39.811 1 40.078 39.578 40.578 0.26696 0 0 0 0.99035 1 18111 18111 5.7604 0 1 20449 4274 12830 12884 23848 23848 0.0163403181850299 MYLSKFYEL 9 Unmodified _MYLSKFYEL_ 0 0 0 nc|ENSG00000133816|O94851|MICAL2;nc|ENSG00000133816|O94851-3|MICAL2;ENSG00000133816|ENST00000683283|MICAL2;nc|ENSG00000133816|O94851-2|MICAL2;ENST00000530691.5_1_11:12229562-12281716:+|nuORF;nc|ENSG00000133816|O94851-5|MICAL2;nc|ENSG00000133816|O94851-6|MICAL2;nc|ENSG00000133816|O94851-4|MICAL2 nc|ENSG00000133816|O94851|MICAL2 nc|ENSG00000133816|O94851|MICAL2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.9683227539062 2 597.299193 1192.58383 2.7074 0.0016171 0.72838 0.00043506 3.4358 0.0020522 597.8017294824729 70.434 0.12051 70.434 70.391 70.512 0 23 14 2 0 0 0 0.034619 1 34201 34201 38.176 12.776 1 2661900 20450 9650 12831 12885 23849 23849 -0.004755793174126666 MYLSKFYEL 9 Unmodified _MYLSKFYEL_ 0 0 0 nc|ENSG00000133816|O94851|MICAL2;nc|ENSG00000133816|O94851-3|MICAL2;ENSG00000133816|ENST00000683283|MICAL2;nc|ENSG00000133816|O94851-2|MICAL2;ENST00000530691.5_1_11:12229562-12281716:+|nuORF;nc|ENSG00000133816|O94851-5|MICAL2;nc|ENSG00000133816|O94851-6|MICAL2;nc|ENSG00000133816|O94851-4|MICAL2 nc|ENSG00000133816|O94851|MICAL2 nc|ENSG00000133816|O94851|MICAL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 597.3004760742188 2 597.299193 1192.58383 2.9265 0.001748 0.077309 4.6176E-05 3.0038 0.0017942 597.2988720407648 69.428 0.16589 70.131 70.055 70.22 0.70302 27 15 2 0 0 0 0.057945 1 33207 33207 43.772 23.358 1 1551000 20451 9650 12831 12885 23850 23850 -0.004755793174126666 MYLSKFYEL 9 Unmodified _MYLSKFYEL_ 0 0 0 nc|ENSG00000133816|O94851|MICAL2;nc|ENSG00000133816|O94851-3|MICAL2;ENSG00000133816|ENST00000683283|MICAL2;nc|ENSG00000133816|O94851-2|MICAL2;ENST00000530691.5_1_11:12229562-12281716:+|nuORF;nc|ENSG00000133816|O94851-5|MICAL2;nc|ENSG00000133816|O94851-6|MICAL2;nc|ENSG00000133816|O94851-4|MICAL2 nc|ENSG00000133816|O94851|MICAL2 nc|ENSG00000133816|O94851|MICAL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.3016357421875 2 597.299193 1192.58383 3.6328 0.0021698 0.39002 0.00023296 4.0228 0.0024028 597.299316759701 70.446 0.22339 70.703 70.593 70.816 0.25641 21 14 2 0 0 0 0.15661 1 32299 32299 26.268 12.362 1 520500 20452 9650 12831 12885 23851 23851 -0.004755793174126666 MYLSKFYEL 9 Unmodified _MYLSKFYEL_ 0 0 0 nc|ENSG00000133816|O94851|MICAL2;nc|ENSG00000133816|O94851-3|MICAL2;ENSG00000133816|ENST00000683283|MICAL2;nc|ENSG00000133816|O94851-2|MICAL2;ENST00000530691.5_1_11:12229562-12281716:+|nuORF;nc|ENSG00000133816|O94851-5|MICAL2;nc|ENSG00000133816|O94851-6|MICAL2;nc|ENSG00000133816|O94851-4|MICAL2 nc|ENSG00000133816|O94851|MICAL2 nc|ENSG00000133816|O94851|MICAL2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 597.299193 1192.58383 3.6802 0.0021982 -0.7329 -0.00043776 2.9473 0.0017604 597.2982748493924 69.937 0.18397 70.598 70.497 70.681 0.66071 -0.052472 -0.00088811 NaN 26.268 13 11 2 NaN NaN NaN NaN 0 NaN NaN 0 498480 20453 9650 12831 12885 -0.004755793174126666 MYLVLQPV 8 Unmodified _MYLVLQPV_ 0 0 0 REV__ENSG00000282608|ENST00000241356|ADORA3 REV__ENSG00000282608|ENST00000241356|ADORA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.27532958984375 2 481.772614 961.530675 3.2895 0.0015848 -1.7357 -0.00083619 1.5539 0.00074862 481.77152638416106 43.303 0.25561 43.951 43.836 44.091 0.64872 15 9 2 0 0 0 0.74071 1 19874 19874 2.5775 0 1 260870 + 20454 14761 12832 12886 23852 23852 0.04837087690577846 MYLVSKWLV 9 Unmodified _MYLVSKWLV_ 0 0 0 REV__ENST00000324106.8_1_2:204591403-204591589:+|nuORF REV__ENST00000324106.8_1_2:204591403-204591589:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.2188720703125 3 380.215822 1137.62564 NaN NaN NaN NaN NaN NaN NaN 38.446 1 38.71 38.21 39.21 0.26408 0 0 0 0.89509 1 17504 17504 2.7352 1.0826 1 + 20455 15338 12833 12887 23853 23853 0.06233021161756369 MYNSVSQKL 9 Unmodified _MYNSVSQKL_ 0 0 0 ENSG00000137200|ENST00000373451|CMTR1 ENSG00000137200|ENST00000373451|CMTR1 ENSG00000137200|ENST00000373451|CMTR1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.2950439453125 2 535.270967 1068.52738 3.5091 0.0018783 0.29946 0.00016029 3.8086 0.0020386 535.2713163327156 31.349 0.18207 31.605 31.506 31.688 0.25614 14 13 2 0 0 0 0.099794 1 14264 14264 8.7454 3.5147 1 121470 20456 3003 12834 12888 23854 23854 -0.004142071540627512 MYNSVSQKL 9 Unmodified _MYNSVSQKL_ 0 0 0 ENSG00000137200|ENST00000373451|CMTR1 ENSG00000137200|ENST00000373451|CMTR1 ENSG00000137200|ENST00000373451|CMTR1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.294677734375 2 535.270967 1068.52738 3.2342 0.0017312 0.055779 2.9857E-05 3.29 0.001761 535.2713274056565 30.81 0.13629 31.428 31.391 31.527 0.61737 11 7 2 0 0 0 0.1026 1 14146 14146 11.495 5.2889 1 127660 20457 3003 12834 12888 23855 23855 -0.004142071540627512 MYPAFAESF 9 Unmodified _MYPAFAESF_ 0 0 0 nc|ENSG00000173826|Q9H252-2|KCNH6;ENSG00000173826|ENST00000314672|KCNH6;nc|ENSG00000173826|Q9H252-1|KCNH6 nc|ENSG00000173826|Q9H252-2|KCNH6 nc|ENSG00000173826|Q9H252-2|KCNH6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.7345581054688 2 531.733686 1061.45282 3.3058 0.0017578 -0.68988 -0.00036683 2.6159 0.001391 531.7332583288016 48.152 0.26355 48.414 48.289 48.552 0.26209 16 9 2 0 0 0 0.7295 1 22019 22019 8.5933 2.8329 1 527300 20458 4954 12835 12889 23856 23856 -0.07544969965465498 MYPYIFHVL 9 Unmodified _MYPYIFHVL_ 0 0 0 nc|ENSG00000048828|Q9NZB2-2|FAM120A;nc|ENSG00000048828|Q9NZB2-5|FAM120A;nc|ENSG00000048828|Q9NZB2-4|FAM120A;ENSG00000048828|ENST00000277165|FAM120A;nc|ENSG00000048828|Q9NZB2-6|FAM120A;ENST00000475933.1_1_9:96291769-96293007:+|nuORF nc|ENSG00000048828|Q9NZB2-2|FAM120A nc|ENSG00000048828|Q9NZB2-2|FAM120A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.8059692382812 2 591.804445 1181.59434 3.6293 0.0021478 -0.60977 -0.00036086 3.0195 0.001787 591.804376525419 84.206 0.37029 84.454 84.25 84.62 0.24757 28 19 2 0 0 0 0.08506 1 38750 38750 36.466 27.119 1 285170 20459 572 12836 12890 23857 23857 0.010804481276863953 MYQEHINEI 9 Unmodified _MYQEHINEI_ 0 0 0 ENST00000537064.5_1_12:133201285-133234573:-|nuORF;ENSG00000177084|ENST00000320574|POLE ENST00000537064.5_1_12:133201285-133234573:-|nuORF ENST00000537064.5_1_12:133201285-133234573:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 588.7742309570312 2 588.771331 1175.52811 3.5148 0.0020694 0.92048 0.00054195 4.4353 0.0026114 588.7719885767527 38.824 0.30907 38.824 38.653 38.962 0 23 12 3 0 0 0 0.02812 1 17613 17613 57.722 19.748 1 721770 20460 5101 12837 12891 23858 23858 -0.05263412505019005 MYQEHINEI 9 Unmodified _MYQEHINEI_ 0 0 0 ENST00000537064.5_1_12:133201285-133234573:-|nuORF;ENSG00000177084|ENST00000320574|POLE ENST00000537064.5_1_12:133201285-133234573:-|nuORF ENST00000537064.5_1_12:133201285-133234573:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.7730102539062 2 588.771331 1175.52811 3.377 0.0019883 1.9611 0.0011546 5.3381 0.0031429 588.7718320172768 37.69 0.21867 38.485 38.419 38.637 0.79552 16 9 3 0 0 0 0.030603 1 17094 17094 55.503 30.103 1 661820 20461 5101 12837 12891 23859 23859 -0.05263412505019005 MYSDVWKQL 9 Unmodified _MYSDVWKQL_ 0 0 0 ENST00000393448.6_1_5:179018652-179028988:+|nuORF;nc|ENSG00000176783|Q96T51-2|RUFY1;ENSG00000176783|ENST00000319449|RUFY1 ENST00000393448.6_1_5:179018652-179028988:+|nuORF ENST00000393448.6_1_5:179018652-179028988:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 585.2888793945312 2 585.286617 1168.55868 3.323 0.0019449 1.2489 0.00073095 4.5718 0.0026758 585.2874721660074 63.144 0.32555 63.393 63.222 63.547 0.24965 30 19 2 0 0 0 0.02812 1 28926 28926 57.722 42.884 1 1622000 20462 5089 12838 12892 23860 23860 -0.018856341199807503 MYSVNGYTF 9 Unmodified _MYSVNGYTF_ 0 0 0 ENST00000490639.5_1_3:148895590-148939579:-|nuORF;ENSG00000047457|ENST00000264613|CP ENST00000490639.5_1_3:148895590-148939579:-|nuORF ENST00000490639.5_1_3:148895590-148939579:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.2373046875 2 541.236593 1080.45863 2.461 0.001332 0.68303 0.00036968 3.1441 0.0017017 541.2371187022952 66.85 0.17368 67.555 67.479 67.653 0.7047 35 23 2 0 0 0 0.11001 1 31718 31718 30.225 20.151 1 1907000 20463 558 12839 12893 23861 23861 -0.07837871453784828 MYSVNGYTF 9 Unmodified _MYSVNGYTF_ 0 0 0 ENST00000490639.5_1_3:148895590-148939579:-|nuORF;ENSG00000047457|ENST00000264613|CP ENST00000490639.5_1_3:148895590-148939579:-|nuORF ENST00000490639.5_1_3:148895590-148939579:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.2391967773438 2 541.236593 1080.45863 3.523 0.0019068 -0.55791 -0.00030196 2.9651 0.0016048 541.2368159703354 67.912 0.289 68.164 68.01 68.299 0.25227 29 19 2 0 0 0 0.086747 1 31095 31095 36.044 19.102 1 1144800 20464 558 12839 12893 23862 23862 -0.07837871453784828 MYSVNGYTF 9 Unmodified _MYSVNGYTF_ 0 0 0 ENST00000490639.5_1_3:148895590-148939579:-|nuORF;ENSG00000047457|ENST00000264613|CP ENST00000490639.5_1_3:148895590-148939579:-|nuORF ENST00000490639.5_1_3:148895590-148939579:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.2384643554688 2 541.236593 1080.45863 3.3665 0.0018221 0.55728 0.00030162 3.9238 0.0021237 541.2368133289295 67.36 0.30372 68.017 67.873 68.177 0.65777 34 18 3 0 0 0 0.056465 2 30873 30873;30923 44.407 26.261 1 941190 20465 558 12839 12893 23863;23864 23863 -0.07837871453784828 MYTLGITNF 9 Unmodified _MYTLGITNF_ 0 0 0 ENSG00000111229|ENST00000228825|ARPC3;ENST00000467622.2_1_12:110874278-110874939:-|nuORF;ENST00000397300.2_1_11:93921617-93921950:-|nuORF ENSG00000111229|ENST00000228825|ARPC3 ENSG00000111229|ENST00000228825|ARPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.26416015625 2 530.26261 1058.51067 3.3891 0.0017971 -0.17843 -9.4616E-05 3.2106 0.0017025 530.2621453990535 82.306 0.24588 82.966 82.862 83.108 0.66019 22 14 2 0 0 0 0.032303 1 37944 37944 54.774 27.89 1 395420 20466 1747 12840 12894 23865 23865 -0.016247080400262348 MYTLGITNF 9 Unmodified _MYTLGITNF_ 0 0 0 ENSG00000111229|ENST00000228825|ARPC3;ENST00000467622.2_1_12:110874278-110874939:-|nuORF;ENST00000397300.2_1_11:93921617-93921950:-|nuORF ENSG00000111229|ENST00000228825|ARPC3 ENSG00000111229|ENST00000228825|ARPC3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 530.26261 1058.51067 3.0911 0.0016391 -0.37355 -0.00019808 2.7176 0.001441 530.2628842655284 82.904 0.16708 83.151 83.113 83.28 0.24722 0.092291 -6.8869E-05 NaN 54.774 15 8 3 NaN NaN NaN NaN 0 NaN NaN 0 461240 20467 1747 12840 12894 -0.016247080400262348 MYTRNTVLL 9 Unmodified _MYTRNTVLL_ 0 0 0 ENST00000467790.5_1_1:79116146-79116191:+|nuORF ENST00000467790.5_1_1:79116146-79116191:+|nuORF ENST00000467790.5_1_1:79116146-79116191:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.8046264648438 2 555.802434 1109.59032 3.697 0.0020548 -0.45197 -0.00025121 3.2451 0.0018036 555.8021400437342 48.6 0.21696 48.862 48.762 48.979 0.26209 13 8 2 0 0 0 0.099775 1 22236 22236 32.786 17.947 1 566090 20468 8147 12841 12895 23866 23866 0.03990358633973301 MYTRNTVLL 9 Unmodified _MYTRNTVLL_ 0 0 0 ENST00000467790.5_1_1:79116146-79116191:+|nuORF ENST00000467790.5_1_1:79116146-79116191:+|nuORF ENST00000467790.5_1_1:79116146-79116191:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.8043823242188 2 555.802434 1109.59032 3.5904 0.0019956 0.057977 3.2224E-05 3.6484 0.0020278 555.8023718397081 48.015 0.25123 48.668 48.534 48.785 0.65356 14 9 2 0 0 0 0.11458 1 21969 21969 29.082 14.243 1 423130 20469 8147 12841 12895 23867 23867 0.03990358633973301 MYVMSLWDIHL 11 Unmodified _MYVMSLWDIHL_ 0 0 0 REV__ENSG00000162769|ENST00000366971|FLVCR1 REV__ENSG00000162769|ENST00000366971|FLVCR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.7403564453125 3 469.898165 1406.67266 NaN NaN NaN NaN NaN NaN NaN 48.022 1 48.851 48.351 49.351 0.82915 0 0 0 1.0071 1 21877 21877 0.50596 0.09769 1 + 20470 12960 12842 12896 23868 23868 -0.014404873493958803 MYYKEAFWK 9 Unmodified _MYYKEAFWK_ 0 0 0 nc|ENSG00000189221|P21397-2|MAOA;ENSG00000189221|ENST00000338702|MAOA nc|ENSG00000189221|P21397-2|MAOA nc|ENSG00000189221|P21397-2|MAOA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5400390625 3 422.538965 1264.59507 2.6993 0.0011406 -1.4376 -0.00060743 1.2618 0.00053314 422.8728261997742 14.809 0.22113 15.116 15.033 15.254 0.3069 21 19 2 0 0 0 1.2169 1 6699 6699 0.20686 0 1 83243 20471 5708 12843 12897 23869 23869 -0.026647572232832317 NAAFATVAAI 10 Unmodified _NAAFATVAAI_ 0 0 0 REV__ENSG00000138356|ENST00000374700|AOX1 REV__ENSG00000138356|ENST00000374700|AOX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.7627258300781 2 474.761092 947.507631 NaN NaN NaN NaN NaN NaN NaN 46.078 1 46.906 46.406 47.406 0.82783 0 0 0 0.39115 1 20987 20987 32.786 6.5175 1 + 20472 12159 12844 12898 23870 23870 0.031777848974684275 NAAFATVAAI 10 Unmodified _NAAFATVAAI_ 0 0 0 REV__ENSG00000138356|ENST00000374700|AOX1 REV__ENSG00000138356|ENST00000374700|AOX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.76220703125 2 474.761092 947.507631 3.2058 0.001522 -0.62811 -0.0002982 2.5776 0.0012238 474.76068302395663 46.817 0.2986 47.082 46.951 47.249 0.26561 22 9 3 0 0 0 0.24154 1 21455 21455 34.402 5.3201 1 1983700 + 20473 12159 12844 12898 23871 23871 0.031777848974684275 NAAFKDVAL 9 Unmodified _NAAFKDVAL_ 0 0 0 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1;nc|ENSG00000143337|Q5JTV8-4|TOR1AIP1;ENSG00000143337|ENST00000606911|TOR1AIP1;nc|ENSG00000143337|Q5JTV8-3|TOR1AIP1;ENSG00000169905|ENST00000609928|TOR1AIP2 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.7625732421875 2 474.761092 947.507631 2.8989 0.0013763 0.2719 0.00012909 3.1708 0.0015054 474.76109918632466 45.983 0.21114 46.809 46.692 46.903 0.82621 22 10 3 0 0 0 0.0020727 1 20933 20933 103.42 17.778 1 1830300 20474 3359 12845 12899 23872 23872 0.031777848974684275 NAAFKDVAL 9 Unmodified _NAAFKDVAL_ 0 0 0 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1;nc|ENSG00000143337|Q5JTV8-4|TOR1AIP1;ENSG00000143337|ENST00000606911|TOR1AIP1;nc|ENSG00000143337|Q5JTV8-3|TOR1AIP1;ENSG00000169905|ENST00000609928|TOR1AIP2 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.76129150390625 2 474.761092 947.507631 3.2058 0.001522 -0.62811 -0.0002982 2.5776 0.0012238 474.76068302395663 46.817 0.2986 47.082 46.951 47.249 0.26561 22 9 3 0 0 0 1.7347E-05 1 21389 21389 83.429 16.972 1 1983700 20475 3359 12845 12899 23873 23873 0.031777848974684275 NAAFKDVAL 9 Unmodified _NAAFKDVAL_ 0 0 0 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1;nc|ENSG00000143337|Q5JTV8-4|TOR1AIP1;ENSG00000143337|ENST00000606911|TOR1AIP1;nc|ENSG00000143337|Q5JTV8-3|TOR1AIP1;ENSG00000169905|ENST00000609928|TOR1AIP2 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 474.761092 947.507631 2.7116 0.0012874 -1.6639 -0.00078993 1.0477 0.00049742 474.7601959507787 46.981 0.30491 46.981 46.842 47.147 0 -0.011299 -0.00031811 NaN 83.429 26 14 2 NaN NaN NaN NaN 0 NaN NaN 0 1999400 20476 3359 12845 12899 0.031777848974684275 NAAFKDVAL 9 Unmodified _NAAFKDVAL_ 0 0 0 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1;nc|ENSG00000143337|Q5JTV8-4|TOR1AIP1;ENSG00000143337|ENST00000606911|TOR1AIP1;nc|ENSG00000143337|Q5JTV8-3|TOR1AIP1;ENSG00000169905|ENST00000609928|TOR1AIP2 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1 nc|ENSG00000143337|Q5JTV8-2|TOR1AIP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 474.761092 947.507631 3.3058 0.0015694 -2.3148 -0.001099 0.99095 0.00047046 474.7602520487862 46.262 0.34367 46.915 46.704 47.047 0.65219 -0.078152 -0.00093621 NaN 83.429 23 13 2 NaN NaN NaN NaN 0 NaN NaN 0 1997800 20477 3359 12845 12899 0.031777848974684275 NACWELYCL 9 2 Carbamidomethyl (C) _NAC(Carbamidomethyl (C))WELYC(Carbamidomethyl (C))L_ NAC(1)WELYC(1)L NAC(100)WELYC(100)L 0 2 0 ENSG00000167552|ENST00000301071|TUBA1A;ENSG00000075886|ENST00000321253|TUBA3D;ENSG00000152086|ENST00000312988|TUBA3E;ENSG00000198033|ENST00000400113|TUBA3C;ENSG00000167553|ENST00000301072|TUBA1C;nc|ENSG00000198033|P0DPH7-2|TUBA3C;ENSG00000123416|ENST00000336023|TUBA1B;ENSG00000127824|ENST00000248437|TUBA4A;ENST00000548363.1_1_12:49580068-49582762:-|nuORF;nc|ENSG00000127824|P68366-2|TUBA4A;ENST00000462806.5_1_2:220116196-220118580:-|nuORF;nc|ENSG00000123416|P68363-2|TUBA1B;ENST00000442868.1_1_1:202826910-202828194:-|nuORF;ENST00000551324.5_1_12:49523262-49525083:-|nuORF;ENST00000550254.1_1_12:49580073-49582762:-|nuORF;ENST00000443294.5_1_1:202822362-202830656:-|nuORF;ENST00000430114.1_1_1:202827276-202830656:-|nuORF;ENST00000475683.1_1_2:220116706-220118580:-|nuORF ENSG00000167552|ENST00000301071|TUBA1A ENSG00000167552|ENST00000301071|TUBA1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 614.7615966796875 2 614.759909 1227.50526 3.4422 0.0021161 -0.032704 -2.0105E-05 3.4095 0.002096 614.7601067967288 82.019 0.30949 82.267 82.124 82.434 0.24722 77 26 4 0 0 0 0.0023685 1 37757 37757 100.37 25.442 1 2601000 20478 839 12846 12900 23874 23874 16;17 -0.09938754894142221 NACWELYCL 9 2 Carbamidomethyl (C) _NAC(Carbamidomethyl (C))WELYC(Carbamidomethyl (C))L_ NAC(1)WELYC(1)L NAC(59)WELYC(59)L 0 2 0 ENSG00000167552|ENST00000301071|TUBA1A;ENSG00000075886|ENST00000321253|TUBA3D;ENSG00000152086|ENST00000312988|TUBA3E;ENSG00000198033|ENST00000400113|TUBA3C;ENSG00000167553|ENST00000301072|TUBA1C;nc|ENSG00000198033|P0DPH7-2|TUBA3C;ENSG00000123416|ENST00000336023|TUBA1B;ENSG00000127824|ENST00000248437|TUBA4A;ENST00000548363.1_1_12:49580068-49582762:-|nuORF;nc|ENSG00000127824|P68366-2|TUBA4A;ENST00000462806.5_1_2:220116196-220118580:-|nuORF;nc|ENSG00000123416|P68363-2|TUBA1B;ENST00000442868.1_1_1:202826910-202828194:-|nuORF;ENST00000551324.5_1_12:49523262-49525083:-|nuORF;ENST00000550254.1_1_12:49580073-49582762:-|nuORF;ENST00000443294.5_1_1:202822362-202830656:-|nuORF;ENST00000430114.1_1_1:202827276-202830656:-|nuORF;ENST00000475683.1_1_2:220116706-220118580:-|nuORF ENSG00000167552|ENST00000301071|TUBA1A ENSG00000167552|ENST00000301071|TUBA1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 614.7628784179688 2 614.759909 1227.50526 3.665 0.0022531 -0.32022 -0.00019686 3.3448 0.0020563 614.7599824574683 81.401 0.35783 82.061 81.872 82.23 0.65997 88 30 4 0 0 0 0.027384 1 37507 37507 58.679 10.93 1 1814400 20479 839 12846 12900 23875 23875 16;17 -0.09938754894142221 NADAIVVKL 9 Unmodified _NADAIVVKL_ 0 0 0 ENSG00000197157|ENST00000354725|SND1 ENSG00000197157|ENST00000354725|SND1 ENSG00000197157|ENST00000354725|SND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 471.7862243652344 2 471.784567 941.554582 3.0535 0.0014406 0.113 5.331E-05 3.1665 0.0014939 471.7844097358263 54.729 0.25107 54.729 54.596 54.847 0 42 25 3 0 0 0 0.0039585 1 25111 25111 93.938 33.864 1 2037500 20480 5798 12847 12901 23876 23876 0.08146644448606821 NADAIVVKL 9 Unmodified _NADAIVVKL_ 0 0 0 ENSG00000197157|ENST00000354725|SND1 ENSG00000197157|ENST00000354725|SND1 ENSG00000197157|ENST00000354725|SND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.78570556640625 2 471.784567 941.554582 2.7106 0.0012788 0.26932 0.00012706 2.98 0.0014059 471.7846111982951 54.424 0.34039 54.689 54.509 54.849 0.26462 35 15 3 0 0 0 0.0013832 2 24865 24865;24917 114.19 54.113 1 1988400 20481 5798 12847 12901 23877;23878 23877 0.08146644448606821 NADAIVVKL 9 Unmodified _NADAIVVKL_ 0 0 0 ENSG00000197157|ENST00000354725|SND1 ENSG00000197157|ENST00000354725|SND1 ENSG00000197157|ENST00000354725|SND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.7855529785156 2 471.784567 941.554582 2.8162 0.0013287 -0.21537 -0.00010161 2.6009 0.001227 471.7843873887681 53.767 0.21988 54.432 54.296 54.516 0.6644 30 11 3 0 0 0 0.0011142 2 24573 24573;24622 125.04 46.31 1 2282400 20482 5798 12847 12901 23879;23880 23879 0.08146644448606821 NADAIVVKL 9 Unmodified _NADAIVVKL_ 0 0 0 ENSG00000197157|ENST00000354725|SND1 ENSG00000197157|ENST00000354725|SND1 ENSG00000197157|ENST00000354725|SND1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 471.784567 941.554582 2.6522 0.0012512 -0.4501 -0.00021235 2.2021 0.0010389 471.78433815530605 53.595 0.20909 54.399 54.275 54.485 0.80351 -0.163 -0.00044909 NaN 125.04 29 18 3 NaN NaN NaN NaN 0 NaN NaN 0 3425000 20483 5798 12847 12901 0.08146644448606821 NADLRKLAV 9 Unmodified _NADLRKLAV_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;ENSG00000261456|ENST00000568584|TUBB8;ENSG00000173213|ENST00000308911|TUBB8B;ENSG00000101162|ENST00000217133|TUBB1;CON__ENSEMBL:ENSBTAP00000025008;ENST00000478631.6_2_1:53460811-53461279:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.3023376464844 2 500.300916 998.587279 NaN NaN NaN NaN NaN NaN NaN 34.761 1 35.015 34.515 35.515 0.25389 0 0 0 0.022721 1 15834 15834 83.429 41.589 1 20484 5660;6301;1452 12848 12902 23881 23881 0.08792851571456595 NADLRKLAV 9 Unmodified _NADLRKLAV_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;ENSG00000261456|ENST00000568584|TUBB8;ENSG00000173213|ENST00000308911|TUBB8B;ENSG00000101162|ENST00000217133|TUBB1;CON__ENSEMBL:ENSBTAP00000025008;ENST00000478631.6_2_1:53460811-53461279:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.30316162109375 2 500.300916 998.587279 3.17 0.001586 0.51505 0.00025768 3.6851 0.0018437 500.30125324391093 34.305 0.25266 34.928 34.798 35.051 0.62294 21 9 3 0 0 0 0.013552 1 15712 15712 83.429 41.589 1 975580 20485 5660;6301;1452 12848 12902 23882 23882 0.08792851571456595 NADPIAKYL 9 Unmodified _NADPIAKYL_ 0 0 0 ENSG00000172716|ENST00000685675|SLFN11 ENSG00000172716|ENST00000685675|SLFN11 ENSG00000172716|ENST00000685675|SLFN11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.7767028808594 2 502.7742 1003.53385 3.0065 0.0015116 0.52619 0.00026455 3.5327 0.0017761 502.7745063147261 58.524 0.28636 58.524 58.409 58.696 0 56 25 3 0 0 0 0.024388 2 26997 26997;27043 62.573 35.689 1 1185100 20486 4885 12849 12903 23883;23884 23883 0.032220540689422705 NADPIAKYL 9 Unmodified _NADPIAKYL_ 0 0 0 ENSG00000172716|ENST00000685675|SLFN11 ENSG00000172716|ENST00000685675|SLFN11 ENSG00000172716|ENST00000685675|SLFN11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.7759704589844 2 502.7742 1003.53385 3.2935 0.0016559 0.21385 0.00010752 3.5073 0.0017634 502.77417464560597 57.793 0.43031 58.461 58.2 58.63 0.66829 63 25 3 0 0 0 0.018453 3 26448 26392;26448;26525 70.332 42.703 1 1765800 20487 4885 12849 12903 23885;23886;23887 23886 0.032220540689422705 NADPILISL 9 Unmodified _NADPILISL_ 0 0 0 ENSG00000110880|ENST00000261401|CORO1C;nc|ENSG00000110880|Q9ULV4-2|CORO1C;nc|ENSG00000110880|Q9ULV4-3|CORO1C ENSG00000110880|ENST00000261401|CORO1C ENSG00000110880|ENST00000261401|CORO1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 955.5528564453125 1 955.545874 954.538597 3.7267 0.0035611 -0.70637 -0.00067497 3.0203 0.0028861 955.5459890022081 84.636 0.25528 84.883 84.727 84.982 0.24758 15 13 2 0 0 0 0.035495 2 38925 38925;38994 53.404 10.479 1 609220 20488 1734 12850 12904 23888;23889 23888 0.05950938211731227 NADPQAVTM 9 Oxidation (M) _NADPQAVTM(Oxidation (M))_ NADPQAVTM(1) NADPQAVTM(160) 0 0 1 nc|ENSG00000102316|Q9UNF1-2|MAGED2;ENSG00000102316|ENST00000375068|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 481.7176208496094 2 481.716024 961.417496 3.2179 0.0015501 -0.13056 -6.2892E-05 3.0874 0.0014872 481.716036677316 18.604 0.31014 18.604 18.376 18.686 0 56 19 4 0 0 0 3.8587E-09 3 8249 8201;8249;8301 160.69 102.01 1 3002200 20489 1340 12851 12905 23890;23891;23892 23891 12 -0.0647563249325458 NADPQAVTM 9 Oxidation (M) _NADPQAVTM(Oxidation (M))_ NADPQAVTM(1) NADPQAVTM(170) 0 0 1 nc|ENSG00000102316|Q9UNF1-2|MAGED2;ENSG00000102316|ENST00000375068|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 481.7164611816406 2 481.716024 961.417496 NaN NaN NaN NaN NaN NaN NaN 18.068 1 18.269 17.769 18.769 0.20057 0 0 0 3.6053000000000005E-33 1 8019 8019 171.09 78.595 1 20490 1340 12851 12905 23893 23893 12 -0.0647563249325458 NADPQAVTM 9 Oxidation (M) _NADPQAVTM(Oxidation (M))_ NADPQAVTM(1) NADPQAVTM(140) 0 0 1 nc|ENSG00000102316|Q9UNF1-2|MAGED2;ENSG00000102316|ENST00000375068|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.71734619140625 2 481.716024 961.417496 2.8825 0.0013885 -0.034388 -1.6565E-05 2.8481 0.001372 481.71613167537987 18.069 0.47067 18.371 18.145 18.616 0.30159 149 48 4 0 0 0 8.7541E-05 3 8238 8151;8192;8238 136.39 74.373 1 2640700 20491 1340 12851 12905 23894;23895;23896 23896 12 -0.0647563249325458 NADPQAVTM 9 Oxidation (M) _NADPQAVTM(Oxidation (M))_ NADPQAVTM(1) NADPQAVTM(170) 0 0 1 nc|ENSG00000102316|Q9UNF1-2|MAGED2;ENSG00000102316|ENST00000375068|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.7174072265625 2 481.716024 961.417496 3.1736 0.0015288 -0.44832 -0.00021596 2.7253 0.0013128 481.71598433538634 17.764 0.34325 18.425 18.268 18.611 0.66072 113 46 4 0 0 0 2.4683E-14 4 8045 7957;7998;8045;8088 173.69 81.195 1 4624100 20492 1340 12851 12905 23897;23898;23899;23900 23899 12 -0.0647563249325458 NADPQAVTM 9 Unmodified _NADPQAVTM_ 0 0 0 nc|ENSG00000102316|Q9UNF1-2|MAGED2;ENSG00000102316|ENST00000375068|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.7201843261719 2 473.718567 945.422581 2.6999 0.001279 0.06083 2.8816E-05 2.7608 0.0013078 473.71870876728553 33.641 0.37437 33.641 33.483 33.857 0 99 30 4 0 0 0 0.00068611 4 15242 15201;15242;15291;15337 129.77 69.383 1 27098000 20493 1340 12851 12906 23901;23902;23903;23904 23902 -0.052313286306457485 NADPQAVTM 9 Unmodified _NADPQAVTM_ 0 0 0 nc|ENSG00000102316|Q9UNF1-2|MAGED2;ENSG00000102316|ENST00000375068|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 946.4362182617188 1 946.429858 945.422581 3.4845 0.0032978 -0.41442 -0.00039222 3.0701 0.0029056 946.4297051469562 33.638 0.30789 33.638 33.512 33.82 0 84 25 4 0 0 0 2.5075E-05 3 15216 15216;15264;15310 142.08 87.306 1 20897000 20494 1340 12851 12906 23905;23906;23907 23905 -0.052313286306457485 NADPQAVTM 9 Unmodified _NADPQAVTM_ 0 0 0 nc|ENSG00000102316|Q9UNF1-2|MAGED2;ENSG00000102316|ENST00000375068|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.72027587890625 2 473.718567 945.422581 2.6488 0.0012548 0.35068 0.00016612 2.9995 0.0014209 473.71899041436683 32.816 0.50332 33.604 33.326 33.829 0.78795 129 34 5 0 0 0 0.00068611 4 14810 14763;14810;14856;14904 129.77 69.383 1 31617000 20495 1340 12851 12906 23908;23909;23910;23911 23909 -0.052313286306457485 NADPQAVTM 9 Unmodified _NADPQAVTM_ 0 0 0 nc|ENSG00000102316|Q9UNF1-2|MAGED2;ENSG00000102316|ENST00000375068|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 946.4339599609375 1 946.429858 945.422581 3.3137 0.0031362 -0.36781 -0.00034811 2.9459 0.0027881 946.4303970746937 32.819 0.38285 33.607 33.414 33.796 0.78795 73 26 4 0 0 0 0.00038954 4 14830 14782;14830;14879;14920 133.05 83.751 1 3572900 20496 1340 12851 12906 23912;23913;23914;23915 23913 -0.052313286306457485 NADPQAVTM 9 Unmodified _NADPQAVTM_ 0 0 0 nc|ENSG00000102316|Q9UNF1-2|MAGED2;ENSG00000102316|ENST00000375068|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 946.4330444335938 1 946.429858 945.422581 3.7801 0.0035776 -0.3544 -0.00033541 3.4257 0.0032421 946.4298378457903 33.444 0.44287 33.698 33.476 33.919 0.25389 79 24 5 0 0 0 0.00097604 4 15251 15156;15207;15251;15295 126.57 74.298 1 10180000 20497 1340 12851 12906 23916;23917;23918;23919 23918 -0.052313286306457485 NADPQAVTM 9 Unmodified _NADPQAVTM_ 0 0 0 nc|ENSG00000102316|Q9UNF1-2|MAGED2;ENSG00000102316|ENST00000375068|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.7203674316406 2 473.718567 945.422581 3.0244 0.0014327 0.32589 0.00015438 3.3503 0.0015871 473.71890012980447 33.415 0.50672 33.669 33.425 33.932 0.25389 94 27 5 0 0 0 0.00068611 3 15168 15168;15217;15268 129.77 69.383 1 18986000 20498 1340 12851 12906 23920;23921;23922 23920 -0.052313286306457485 NADPQAVTM 9 Unmodified _NADPQAVTM_ 0 0 0 nc|ENSG00000102316|Q9UNF1-2|MAGED2;ENSG00000102316|ENST00000375068|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 946.4329223632812 1 946.429858 945.422581 3.7207 0.0035213 -0.14763 -0.00013972 3.573 0.0033816 946.4298939057583 33.012 0.46513 33.63 33.352 33.817 0.61831 69 22 4 0 0 0 0.00097604 4 15141 15039;15091;15141;15190 126.57 80.545 1 5437500 20499 1340 12851 12906 23923;23924;23925;23926 23925 -0.052313286306457485 NADPQAVTM 9 Unmodified _NADPQAVTM_ 0 0 0 nc|ENSG00000102316|Q9UNF1-2|MAGED2;ENSG00000102316|ENST00000375068|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 nc|ENSG00000102316|Q9UNF1-2|MAGED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.720458984375 2 473.718567 945.422581 2.9154 0.0013811 0.28064 0.00013294 3.1961 0.001514 473.7189309866356 32.978 0.6003 33.596 33.26 33.86 0.61831 97 29 5 0 0 0 0.00068611 4 15059 15059;15108;15159;15203 129.77 74.999 1 20994000 20500 1340 12851 12906 23927;23928;23929;23930 23927 -0.052313286306457485 NADSSNTAL 9 Unmodified _NADSSNTAL_ 0 0 0 nc|ENSG00000147162|O15294-4|OGT;nc|ENSG00000147162|O15294-2|OGT;nc|ENSG00000147162|O15294-3|OGT;ENSG00000147162|ENST00000373719|OGT nc|ENSG00000147162|O15294-4|OGT nc|ENSG00000147162|O15294-4|OGT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 892.4049682617188 1 892.400666 891.393389 4.1126 0.0036701 0.030852 2.7532E-05 4.1434 0.0036976 892.401068903531 19.83 0.24926 20.489 20.383 20.632 0.65829 35 19 3 0 0 0 0.10837 1 9025 9025 30.637 15.798 1 263860 20501 3552 12852 12907 23931 23931 -0.056651496552831304 NAEKFDYVM 9 Unmodified _NAEKFDYVM_ 0 0 0 nc|ENSG00000115419|O94925-3|GLS;ENSG00000115419|ENST00000320717|GLS;ENST00000461965.5_1_2:191775005-191792247:+|nuORF nc|ENSG00000115419|O94925-3|GLS nc|ENSG00000115419|O94925-3|GLS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.75634765625 2 558.755149 1115.49575 3.7651 0.0021038 -0.74972 -0.00041891 3.0154 0.0016849 558.7550454907204 47.722 0.20751 47.986 47.928 48.136 0.26363 16 10 2 0 0 0 0.27958 1 21857 21857 18.146 10.857 1 677130 20502 1970 12853 12908 23932 23932 -0.05738199908023489 NAEKFDYVM 9 Unmodified _NAEKFDYVM_ 0 0 0 nc|ENSG00000115419|O94925-3|GLS;ENSG00000115419|ENST00000320717|GLS;ENST00000461965.5_1_2:191775005-191792247:+|nuORF nc|ENSG00000115419|O94925-3|GLS nc|ENSG00000115419|O94925-3|GLS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.7554321289062 2 558.755149 1115.49575 3.4767 0.0019426 -0.58199 -0.00032519 2.8947 0.0016174 558.7545500481685 47.061 0.24171 47.713 47.677 47.919 0.65219 21 13 2 0 0 0 0.093314 1 21601 21601 34.402 19.563 1 533500 20503 1970 12853 12908 23933 23933 -0.05738199908023489 NAEKFDYVM 9 Unmodified _NAEKFDYVM_ 0 0 0 nc|ENSG00000115419|O94925-3|GLS;ENSG00000115419|ENST00000320717|GLS;ENST00000461965.5_1_2:191775005-191792247:+|nuORF nc|ENSG00000115419|O94925-3|GLS nc|ENSG00000115419|O94925-3|GLS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 558.755149 1115.49575 3.2946 0.0018409 -1.534 -0.00085714 1.7606 0.00098375 558.7552630694137 47.725 0.15467 47.725 47.697 47.852 0 -0.082948 -0.00091274 NaN 34.402 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 1509000 20504 1970 12853 12908 -0.05738199908023489 NAELWQVSW 9 Unmodified _NAELWQVSW_ 0 0 0 nc|ENSG00000144895|Q9BY44-2|EIF2A;nc|ENSG00000144895|Q9BY44-4|EIF2A;nc|ENSG00000144895|Q9BY44-3|EIF2A;ENSG00000144895|ENST00000460851|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.7763671875 2 566.774731 1131.53491 3.3204 0.0018819 -0.12345 -6.9968E-05 3.197 0.001812 566.7744926022424 55.538 0.31189 55.538 55.424 55.736 0 62 23 5 0 0 0 0.057744 3 25515 25515;25576;25615 43.858 11.073 1 13038000 20505 3451 12854 12909 23934;23935;23936 23934 -0.025597315621325833 NAELWQVSW 9 Unmodified _NAELWQVSW_ 0 0 0 nc|ENSG00000144895|Q9BY44-2|EIF2A;nc|ENSG00000144895|Q9BY44-4|EIF2A;nc|ENSG00000144895|Q9BY44-3|EIF2A;ENSG00000144895|ENST00000460851|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.7764282226562 2 566.774731 1131.53491 3.143 0.0017814 0.2103 0.0001192 3.3533 0.0019006 566.7748092557754 54.327 0.46536 55.122 54.894 55.36 0.79552 87 29 4 0 0 0 0.038142 4 24773 24725;24773;24824;24880 52.268 30.637 1 6076900 20506 3451 12854 12909 23937;23938;23939;23940 23938 -0.025597315621325833 NAELWQVSW 9 Unmodified _NAELWQVSW_ 0 0 0 nc|ENSG00000144895|Q9BY44-2|EIF2A;nc|ENSG00000144895|Q9BY44-4|EIF2A;nc|ENSG00000144895|Q9BY44-3|EIF2A;ENSG00000144895|ENST00000460851|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 566.7763061523438 2 566.774731 1131.53491 3.3862 0.0019192 -0.089038 -5.0464E-05 3.2971 0.0018687 566.7745948747895 55.605 0.54202 55.871 55.663 56.205 0.26543 80 28 4 0 0 0 0.057744 3 25423 25377;25423;25471 43.858 11.073 1 18951000 20507 3451 12854 12909 23941;23942;23943 23942 -0.025597315621325833 NAELWQVSW 9 Unmodified _NAELWQVSW_ 0 0 0 nc|ENSG00000144895|Q9BY44-2|EIF2A;nc|ENSG00000144895|Q9BY44-4|EIF2A;nc|ENSG00000144895|Q9BY44-3|EIF2A;ENSG00000144895|ENST00000460851|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.7767333984375 2 566.774731 1131.53491 3.5323 0.002002 0.070496 3.9955E-05 3.6028 0.002042 566.7746902047991 54.848 0.50925 55.515 55.345 55.855 0.6665 77 26 5 0 0 0 0.057744 3 25092 25038;25092;25149 43.858 11.073 1 14037000 20508 3451 12854 12909 23944;23945;23946 23945 -0.025597315621325833 NAEPEPRSL 9 Unmodified _NAEPEPRSL_ 0 0 0 nc|ENSG00000164402|Q92599-2|SEPTIN8;nc|ENSG00000164402|Q92599-4|SEPTIN8;ENSG00000164402|ENST00000378719|SEPTIN8;ENST00000481794.5_1_5:132099854-132112889:-|nuORF nc|ENSG00000164402|Q92599-2|SEPTIN8 nc|ENSG00000164402|Q92599-2|SEPTIN8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.75830078125 2 506.756538 1011.49852 NaN NaN NaN NaN NaN NaN NaN 21.669 1 22.074 21.574 22.574 0.40533 0 0 0 0.020377 1 9623 9623 72.968 19.135 1 20509 4311 12855 12910 23947 23947 -0.006766084588548438 NAEPEPRSL 9 Unmodified _NAEPEPRSL_ 0 0 0 nc|ENSG00000164402|Q92599-2|SEPTIN8;nc|ENSG00000164402|Q92599-4|SEPTIN8;ENSG00000164402|ENST00000378719|SEPTIN8;ENST00000481794.5_1_5:132099854-132112889:-|nuORF nc|ENSG00000164402|Q92599-2|SEPTIN8 nc|ENSG00000164402|Q92599-2|SEPTIN8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.7576599121094 2 506.756538 1011.49852 NaN NaN NaN NaN NaN NaN NaN 21.758 1 22.345 21.845 22.845 0.58739 0 0 0 0.026167 1 9665 9665 62.573 16.873 1 20510 4311 12855 12910 23948 23948 -0.006766084588548438 NAEPEPRSL 9 Unmodified _NAEPEPRSL_ 0 0 0 nc|ENSG00000164402|Q92599-2|SEPTIN8;nc|ENSG00000164402|Q92599-4|SEPTIN8;ENSG00000164402|ENST00000378719|SEPTIN8;ENST00000481794.5_1_5:132099854-132112889:-|nuORF nc|ENSG00000164402|Q92599-2|SEPTIN8 nc|ENSG00000164402|Q92599-2|SEPTIN8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.75775146484375 2 506.756538 1011.49852 NaN NaN NaN NaN NaN NaN NaN 22.219 1 22.5 22 23 0.28085 0 0 0 0.0064866 1 10044 10044 89.401 35.568 1 20511 4311 12855 12910 23949 23949 -0.006766084588548438 NAESGRGQVM 10 Unmodified _NAESGRGQVM_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-4|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.7471313476562 2 524.745647 1047.47674 3.2411 0.0017008 -0.98811 -0.00051851 2.253 0.0011823 524.7453668547872 13.499 0.18562 13.499 13.376 13.561 0 69 26 3 0 0 0 4.5124E-07 2 5907 5862;5907 135.86 97.889 1 11854000 20512 381 12856 12911 23950;23951 23951 -0.045097364790763095 NAESGRGQVM 10 Unmodified _NAESGRGQVM_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-4|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.7443237304688 2 524.745647 1047.47674 2.9021 0.0015229 -0.37097 -0.00019466 2.5311 0.0013282 524.7456170051702 12.883 0.16536 13.145 13.065 13.23 0.26154 41 13 4 0 0 0 1.7856999999999998E-28 2 5591 5591;5633 184.36 132.09 1 19724000 20513 381 12856 12911 23952;23953 23952 -0.045097364790763095 NAESGRGQVM 10 Unmodified _NAESGRGQVM_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-4|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.74755859375 2 524.745647 1047.47674 2.7034 0.0014186 -0.35865 -0.0001882 2.3447 0.0012304 524.7459559896713 12.835 0.25557 13.143 13.023 13.279 0.30727 30 7 6 0 0 0 1.7856999999999998E-28 2 5789 5789;5848 184.36 132.73 1 55185000 20514 381 12856 12911 23954;23955 23954 -0.045097364790763095 NAESGRGQVM 10 Unmodified _NAESGRGQVM_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-4|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.747802734375 2 524.745647 1047.47674 3.5894 0.0018835 -0.58692 -0.00030798 3.0025 0.0015755 524.7457758232271 12.719 0.16887 13.362 13.278 13.446 0.64272 17 4 5 0 0 0 1.1373E-13 1 5711 5711 159.1 115.24 1 102560000 20515 381 12856 12911 23956 23956 -0.045097364790763095 NAFEDSFSSIL 11 Unmodified _NAFEDSFSSIL_ 0 0 0 nc|ENSG00000116044|Q16236-3|NFE2L2;nc|ENSG00000116044|Q16236-2|NFE2L2;ENSG00000116044|ENST00000397062|NFE2L2 nc|ENSG00000116044|Q16236-3|NFE2L2 nc|ENSG00000116044|Q16236-3|NFE2L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 615.2907104492188 2 615.287868 1228.56118 3.9264 0.0024159 0.075268 4.6311E-05 4.0016 0.0024622 615.2877172359856 89.431 0.2939 89.682 89.539 89.833 0.25118 35 14 3 0 0 0 0.071291 1 41149 41149 47.594 34.552 1 974240 20516 2010 12857 12912 23957 23957 -0.043955071813115865 NAFEDSFSSIL 11 Unmodified _NAFEDSFSSIL_ 0 0 0 nc|ENSG00000116044|Q16236-3|NFE2L2;nc|ENSG00000116044|Q16236-2|NFE2L2;ENSG00000116044|ENST00000397062|NFE2L2 nc|ENSG00000116044|Q16236-3|NFE2L2 nc|ENSG00000116044|Q16236-3|NFE2L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 615.2893676757812 2 615.287868 1228.56118 NaN NaN NaN NaN NaN NaN NaN 88.897 1 89.575 89.075 90.075 0.67818 0 0 0 0.081727 1 40936 40936 47.594 31.747 1 20517 2010 12857 12912 23958 23958 -0.043955071813115865 NAFEELVAF 9 Unmodified _NAFEELVAF_ 0 0 0 ENSG00000112118|ENST00000596288|MCM3;nc|ENSG00000112118|P25205-2|MCM3 ENSG00000112118|ENST00000596288|MCM3 ENSG00000112118|ENST00000596288|MCM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.2604370117188 2 520.258382 1038.50221 3.8525 0.0020043 0.43127 0.00022437 4.2838 0.0022287 520.2585726641238 91.22 0.31085 91.472 91.272 91.583 0.25163 20 13 2 0 0 0 0.02234 1 41924 41924 65.235 45.978 1 698230 20518 1792 12858 12913 23959 23959 -0.015499386850024166 NAFEELVAF 9 Unmodified _NAFEELVAF_ 0 0 0 ENSG00000112118|ENST00000596288|MCM3;nc|ENSG00000112118|P25205-2|MCM3 ENSG00000112118|ENST00000596288|MCM3 ENSG00000112118|ENST00000596288|MCM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.2600708007812 2 520.258382 1038.50221 3.5497 0.0018468 -0.76144 -0.00039614 2.7883 0.0014506 520.2577360989354 90.599 0.36279 91.272 91.036 91.398 0.67271 29 16 2 0 0 0 0.071132 1 41673 41673 39.95 21.803 1 910630 20519 1792 12858 12913 23960 23960 -0.015499386850024166 NAFKEITTM 9 Unmodified _NAFKEITTM_ 0 0 0 ENST00000486078.1_1_1:89325774-89329699:-|nuORF;ENST00000494819.5_1_1:89324456-89357188:-|nuORF;ENSG00000137947|ENST00000370500|GTF2B ENST00000486078.1_1_1:89325774-89329699:-|nuORF ENST00000486078.1_1_1:89325774-89329699:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.766845703125 2 527.765517 1053.51648 3.0118 0.0015895 -0.047745 -2.5198E-05 2.9641 0.0015643 527.765447846192 47.883 0.25311 47.883 47.741 47.994 0 33 12 4 0 0 0 1.4684E-06 2 21958 21898;21958 149.91 64.272 1 3153800 20520 3058 12859 12914 23961;23962 23962 -0.008136095283816758 NAFKEITTM 9 Unmodified _NAFKEITTM_ 0 0 0 ENST00000486078.1_1_1:89325774-89329699:-|nuORF;ENST00000494819.5_1_1:89324456-89357188:-|nuORF;ENSG00000137947|ENST00000370500|GTF2B ENST00000486078.1_1_1:89325774-89329699:-|nuORF ENST00000486078.1_1_1:89325774-89329699:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.767333984375 2 527.765517 1053.51648 3.0794 0.0016252 -0.089711 -4.7347E-05 2.9897 0.0015779 527.7655496279793 46.678 0.28422 47.507 47.421 47.705 0.82915 38 17 3 0 0 0 0.0010698 2 21244 21244;21297 125.53 49.768 1 3788200 20521 3058 12859 12914 23963;23964 23963 -0.008136095283816758 NAFKEITTM 9 Unmodified _NAFKEITTM_ 0 0 0 ENST00000486078.1_1_1:89325774-89329699:-|nuORF;ENST00000494819.5_1_1:89324456-89357188:-|nuORF;ENSG00000137947|ENST00000370500|GTF2B ENST00000486078.1_1_1:89325774-89329699:-|nuORF ENST00000486078.1_1_1:89325774-89329699:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.767578125 2 527.765517 1053.51648 3.4704 0.0018316 -0.25694 -0.0001356 3.2135 0.001696 527.7654737176972 47.851 0.35146 48.115 47.969 48.32 0.26363 44 15 4 0 0 0 2.9434E-05 3 21892 21837;21892;21954 140.63 59.072 1 3826300 20522 3058 12859 12914 23965;23966;23967 23966 -0.008136095283816758 NAFKEITTM 9 Unmodified _NAFKEITTM_ 0 0 0 ENST00000486078.1_1_1:89325774-89329699:-|nuORF;ENST00000494819.5_1_1:89324456-89357188:-|nuORF;ENSG00000137947|ENST00000370500|GTF2B ENST00000486078.1_1_1:89325774-89329699:-|nuORF ENST00000486078.1_1_1:89325774-89329699:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.7676391601562 2 527.765517 1053.51648 3.2456 0.0017129 0.013547 7.1498E-06 3.2592 0.0017201 527.7656522396704 47.24 0.37326 47.892 47.715 48.088 0.65219 58 17 4 0 0 0 2.9434E-05 2 21649 21599;21649 140.63 64.872 1 3324600 20523 3058 12859 12914 23968;23969 23969 -0.008136095283816758 NAFKEITTM 9 Oxidation (M) _NAFKEITTM(Oxidation (M))_ NAFKEITTM(1) NAFKEITTM(64) 0 0 1 ENST00000486078.1_1_1:89325774-89329699:-|nuORF;ENST00000494819.5_1_1:89324456-89357188:-|nuORF;ENSG00000137947|ENST00000370500|GTF2B ENST00000486078.1_1_1:89325774-89329699:-|nuORF ENST00000486078.1_1_1:89325774-89329699:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.764404296875 2 535.762975 1069.5114 3.2599 0.0017465 0.10031 5.3744E-05 3.3602 0.0018003 535.7629821423674 32.34 0.23697 32.595 32.526 32.763 0.25452 19 14 2 0 0 0 0.023321 1 14734 14734 63.961 22.121 1 792340 20524 3058 12859 12915 23970 23970 43 -0.02057913391013244 NAFKEITTM 9 Oxidation (M) _NAFKEITTM(Oxidation (M))_ NAFKEITTM(1) NAFKEITTM(48) 0 0 1 ENST00000486078.1_1_1:89325774-89329699:-|nuORF;ENST00000494819.5_1_1:89324456-89357188:-|nuORF;ENSG00000137947|ENST00000370500|GTF2B ENST00000486078.1_1_1:89325774-89329699:-|nuORF ENST00000486078.1_1_1:89325774-89329699:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.7645874023438 2 535.762975 1069.5114 3.2005 0.0017147 0.47456 0.00025425 3.675 0.001969 535.7632367020481 31.758 0.26863 32.375 32.303 32.572 0.61737 26 17 2 0 0 0 0.049036 1 14580 14580 47.594 19.966 1 620730 20525 3058 12859 12915 23971 23971 43 -0.02057913391013244 NAIKDYEL 8 Unmodified _NAIKDYEL_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.25213623046875 2 483.250557 964.486562 3.2297 0.0015608 3.062 0.0014797 6.2918 0.0030405 483.25153209110846 40.192 0.60184 40.192 39.709 40.311 0 54 24 3 0 0 0 0.13884 2 18214 18214;18278 49.554 11.58 1 892660 20526 5155 12860 12916 23972;23973 23972 0.002897747979545784 NAIKDYEL 8 Unmodified _NAIKDYEL_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.25244140625 2 483.250557 964.486562 3.1334 0.0015142 1.5144 0.00073186 4.6479 0.0022461 483.25142630090863 39.022 0.51654 39.82 39.465 39.981 0.79762 46 24 3 0 0 0 0.11952 2 17696 17649;17696 51.63 13.656 1 833480 20527 5155 12860 12916 23974;23975 23975 0.002897747979545784 NAIKDYEL 8 Unmodified _NAIKDYEL_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.2514343261719 2 483.250557 964.486562 3.1973 0.0015451 -0.04677 -2.2601E-05 3.1505 0.0015225 483.25052379804646 40.064 0.28678 40.331 40.228 40.515 0.26696 22 12 2 0 0 0 0.018369 2 18237 18237;18297 88.954 34.18 1 1523000 20528 5155 12860 12916 23976;23977 23976 0.002897747979545784 NAIKDYEL 8 Unmodified _NAIKDYEL_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.2518615722656 2 483.250557 964.486562 3.347 0.0016174 -0.49941 -0.00024134 2.8475 0.0013761 483.250295544474 39.623 0.28524 40.261 40.159 40.444 0.63778 27 14 3 0 0 0 0.03983 1 18127 18127 69.105 23.084 1 1108800 20529 5155 12860 12916 23978 23978 0.002897747979545784 NAKHEGFV 8 Unmodified _NAKHEGFV_ 0 0 0 REV__ENSG00000146085|ENST00000274813|MMUT REV__ENSG00000146085|ENST00000274813|MMUT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.2314758300781 2 451.229959 900.445365 NaN NaN NaN NaN NaN NaN NaN 60.441 1 60.697 60.197 61.197 0.25578 0 0 0 0.99035 1 27674 27674 5.7604 0.52976 1 + 20530 12461 12861 12917 23979 23979 -0.0088394145084294 NAKLVPVL 8 Unmodified _NAKLVPVL_ 0 0 0 nc|ENSG00000177156|P37837-2|TALDO1;ENSG00000177156|ENST00000319006|TALDO1 nc|ENSG00000177156|P37837-2|TALDO1 nc|ENSG00000177156|P37837-2|TALDO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 427.2685241699219 2 427.278921 852.543289 NaN NaN NaN NaN NaN NaN NaN 101.91 1 102.23 101.73 102.73 0.31737 0 0 0 0.99035 1 47149 47149 0.69038 0 1 20531 5108 12862 12918 23980 23980 0.11111867145143606 NAKVAEVL 8 Unmodified _NAKVAEVL_ 0 0 0 ENST00000471788.1_1_2:207651391-207655428:+|nuORF;nc|ENSG00000118246|Q9NYY8-2|FASTKD2;ENST00000487777.5_1_2:207631381-207653673:+|nuORF;ENSG00000118246|ENST00000402774|FASTKD2 ENST00000471788.1_1_2:207651391-207655428:+|nuORF ENST00000471788.1_1_2:207651391-207655428:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.2519226074219 2 422.25036 842.486168 2.944 0.0012431 0.26187 0.00011058 3.2059 0.0013537 422.2504591992251 27.989 0.2075 28.608 28.538 28.745 0.61947 23 12 2 0 0 0 0.37185 1 12868 12868 30.225 3.8835 1 353050 20532 2107 12863 12919 23981 23981 0.05862399868760804 NAKVVVVL 8 Unmodified _NAKVVVVL_ 0 0 0 nc|ENSG00000107562|P48061-3|CXCL12;ENST00000488591.1_1_10:44876209-44880453:-|nuORF;ENSG00000107562|ENST00000343575|CXCL12;nc|ENSG00000107562|P48061-5|CXCL12;nc|ENSG00000107562|P48061|CXCL12;nc|ENSG00000107562|P48061-6|CXCL12;nc|ENSG00000107562|P48061-7|CXCL12;nc|ENSG00000107562|P48061-4|CXCL12 nc|ENSG00000107562|P48061-3|CXCL12 nc|ENSG00000107562|P48061-3|CXCL12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.28045654296875 2 421.278921 840.543289 2.989 0.0012592 -0.0079454 -3.3472E-06 2.9811 0.0012559 421.2789163210629 47.359 0.33475 48.013 47.838 48.172 0.65356 22 14 2 0 0 0 0.26384 1 21675 21675 38.151 3.9638 1 266480 20533 9588 12864 12920 23982 23982 0.11663867145136919 NAMEDAQTL 9 Unmodified _NAMEDAQTL_ 0 0 0 nc|ENSG00000196975|P09525|ANXA4;ENSG00000196975|ENST00000394295|ANXA4 nc|ENSG00000196975|P09525|ANXA4 nc|ENSG00000196975|P09525|ANXA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.7226257324219 2 496.721307 991.42806 3.059 0.0015195 0.16556 8.2235E-05 3.2245 0.0016017 496.7214316937555 39.488 0.35122 39.488 39.321 39.672 0 34 13 3 0 0 0 0.0046538 2 17904 17904;17954 92.491 50.652 1 2550900 20534 5790 12865 12921 23983;23984 23983 -0.06799649838819732 NAMEDAQTL 9 Unmodified _NAMEDAQTL_ 0 0 0 nc|ENSG00000196975|P09525|ANXA4;ENSG00000196975|ENST00000394295|ANXA4 nc|ENSG00000196975|P09525|ANXA4 nc|ENSG00000196975|P09525|ANXA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.7229309082031 2 496.721307 991.42806 3.0988 0.0015393 0.088175 4.3798E-05 3.187 0.001583 496.7214640574822 38.498 0.41652 39.295 39.117 39.534 0.79762 45 19 3 0 0 0 0.0017071 1 17456 17456 107.19 17.786 1 1889100 20535 5790 12865 12921 23985 23985 -0.06799649838819732 NAMEDAQTL 9 Unmodified _NAMEDAQTL_ 0 0 0 nc|ENSG00000196975|P09525|ANXA4;ENSG00000196975|ENST00000394295|ANXA4 nc|ENSG00000196975|P09525|ANXA4 nc|ENSG00000196975|P09525|ANXA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.72296142578125 2 496.721307 991.42806 3.1831 0.0015811 -0.27035 -0.00013429 2.9127 0.0014468 496.72136191976114 39.349 0.48961 39.616 39.389 39.879 0.26696 47 18 4 0 0 0 0.0013204 2 17926 17871;17926 118.89 48.508 1 2727100 20536 5790 12865 12921 23986;23987 23987 -0.06799649838819732 NAMEDAQTL 9 Unmodified _NAMEDAQTL_ 0 0 0 nc|ENSG00000196975|P09525|ANXA4;ENSG00000196975|ENST00000394295|ANXA4 nc|ENSG00000196975|P09525|ANXA4 nc|ENSG00000196975|P09525|ANXA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.7230529785156 2 496.721307 991.42806 3.248 0.0016134 -0.24133 -0.00011987 3.0067 0.0014935 496.72147102234015 39.02 0.45343 39.658 39.408 39.861 0.63778 48 16 4 0 0 0 0.0029142 1 17880 17880 96.111 20.35 1 2511000 20537 5790 12865 12921 23988 23988 -0.06799649838819732 NANDIGMDYDY 11 Unmodified _NANDIGMDYDY_ 0 0 0 nc|ENSG00000150687|O95084-2|PRSS23;ENSG00000150687|ENST00000280258|PRSS23 nc|ENSG00000150687|O95084-2|PRSS23 nc|ENSG00000150687|O95084-2|PRSS23 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 645.754638671875 2 645.750792 1289.48703 3.7383 0.002414 0.14619 9.4402E-05 3.8845 0.0025084 645.7512790036257 77.441 0.26486 78.104 77.972 78.237 0.66303 38 16 4 0 0 0 0.75723 1 35682 35682 8.7454 0.83525 1 868510 20538 3674 12866 12922 23989 23989 -0.14613218335148304 NAQKEIATL 9 Unmodified _NAQKEIATL_ 0 0 0 ENSG00000047410|ENST00000367478|TPR;TPR|p.E1017Rfs*5|1|0.04|ENSG00000047410|chr1:186346182-186346183|-/G|frameshift_variant ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.2779846191406 2 494.277106 986.53966 3.2469 0.0016048 0.13343 6.5953E-05 3.3803 0.0016708 494.2772488834667 30.683 0.26928 31.472 31.328 31.597 0.78879 48 21 3 0 0 0 0.00068611 2 13885 13833;13885 129.77 43.44 1 899600 20539 557 12867 12923 23990;23991 23991 0.04585152580614249 NAQKEIATL 9 Unmodified _NAQKEIATL_ 0 0 0 ENSG00000047410|ENST00000367478|TPR;TPR|p.E1017Rfs*5|1|0.04|ENSG00000047410|chr1:186346182-186346183|-/G|frameshift_variant ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 494.277106 986.53966 3.2146 0.0015889 0.85615 0.00042318 4.0707 0.0020121 494.2774225236776 31.528 0.28769 31.528 31.389 31.677 0 -0.094069 0.00041127 NaN 129.77 58 26 3 NaN NaN NaN NaN 0 NaN NaN 0 902070 20540 557 12867 12923 0.04585152580614249 NAQKEIATL 9 Unmodified _NAQKEIATL_ 0 0 0 ENSG00000047410|ENST00000367478|TPR;TPR|p.E1017Rfs*5|1|0.04|ENSG00000047410|chr1:186346182-186346183|-/G|frameshift_variant ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 494.277106 986.53966 3.6759 0.0018169 0.22102 0.00010924 3.8969 0.0019262 494.27723894233725 31.566 0.39903 31.82 31.586 31.985 0.25452 0.19846 -0.00021659 NaN 129.77 67 30 3 NaN NaN NaN NaN 0 NaN NaN 0 793760 20541 557 12867 12923 0.04585152580614249 NAQKEIATL 9 Unmodified _NAQKEIATL_ 0 0 0 ENSG00000047410|ENST00000367478|TPR;TPR|p.E1017Rfs*5|1|0.04|ENSG00000047410|chr1:186346182-186346183|-/G|frameshift_variant ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 494.277106 986.53966 3.2089 0.0015861 0.51318 0.00025366 3.7221 0.0018398 494.2773702081119 31.05 0.37355 31.667 31.485 31.858 0.61737 0.04548 7.2232E-05 NaN 129.77 57 24 3 NaN NaN NaN NaN 0 NaN NaN 0 695260 20542 557 12867 12923 0.04585152580614249 NASEDRLEL 9 Unmodified _NASEDRLEL_ 0 0 0 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.7606811523438 2 523.759278 1045.504 3.2106 0.0016816 -0.053556 -2.805E-05 3.157 0.0016535 523.7592990863141 38.901 0.24498 38.901 38.744 38.989 0 18 9 2 0 0 0 0.022157 1 17639 17639 65.474 15.919 1 601180 20543 5011 12868 12924 23992 23992 -0.01692929667046883 NASEDRLEL 9 Unmodified _NASEDRLEL_ 0 0 0 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.7606201171875 2 523.759278 1045.504 3.1753 0.0016631 -0.43219 -0.00022636 2.7431 0.0014367 523.7589993689496 38.696 0.29364 38.96 38.821 39.115 0.26408 25 12 3 0 0 0 0.022157 1 17616 17616 65.474 8.2246 1 970620 20544 5011 12868 12924 23993 23993 -0.01692929667046883 NASEDRLEL 9 Unmodified _NASEDRLEL_ 0 0 0 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.7589111328125 2 523.759278 1045.504 3.182 0.0016666 -0.34303 -0.00017967 2.8389 0.0014869 523.758831653429 38.23 0.33848 38.863 38.677 39.015 0.63388 38 15 3 0 0 0 0.091193 2 17459 17459;17518 34.932 6.4376 1 823180 20545 5011 12868 12924 23994;23995 23994 -0.01692929667046883 NASEDRLEL 9 Unmodified _NASEDRLEL_ 0 0 0 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 523.759278 1045.504 3.332 0.0017452 0.39466 0.00020671 3.7267 0.0019519 523.7591939968579 37.725 0.27238 38.52 38.419 38.691 0.79552 -0.29089 0.00063936 NaN 65.474 17 11 2 NaN NaN NaN NaN 0 NaN NaN 0 389460 20546 5011 12868 12924 -0.01692929667046883 NASIIMSILS 10 Unmodified _NASIIMSILS_ 0 0 0 REV__ENST00000274498.8_1_5:142602160-142602241:+|nuORF REV__ENST00000274498.8_1_5:142602160-142602241:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.1957092285156 3 350.195087 1047.56343 2.5009 0.00087581 -0.79293 -0.00027768 1.708 0.00059813 350.194658821857 15.444 1.0111 16.098 15.735 16.746 0.65356 357 131 4 0 0 0 0.85597 1 6968 6968 5.7834 0 1 364320 + 20547 15072 12869 12925 23996 23996 0.04155250022790824 NASTDYDL 8 Unmodified _NASTDYDL_ 0 0 0 ENSG00000100316|ENST00000216146|RPL3;ENST00000417615.1_1_14:99439218-99439536:-|nuORF;ENST00000481985.5_1_22:39710087-39711482:-|nuORF;ENST00000474162.1_1_5:60686735-60687614:-|nuORF ENSG00000100316|ENST00000216146|RPL3;ENST00000474162.1_1_5:60686735-60687614:-|nuORF ENSG00000100316|ENST00000216146|RPL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 898.3805541992188 1 898.378868 897.371591 3.8073 0.0034204 -0.8623 -0.00077467 2.945 0.0026457 898.3781759499096 38.473 0.19533 38.473 38.424 38.62 0 13 9 2 0 0 0 0.31901 1 17505 17505 34.102 0 1 333040 20548 1205;8204 12870 12926 23997 23997 -0.08119954403866814 NASTDYDL 8 Unmodified _NASTDYDL_ 0 0 0 ENSG00000100316|ENST00000216146|RPL3;ENST00000417615.1_1_14:99439218-99439536:-|nuORF;ENST00000481985.5_1_22:39710087-39711482:-|nuORF;ENST00000474162.1_1_5:60686735-60687614:-|nuORF ENSG00000100316|ENST00000216146|RPL3;ENST00000474162.1_1_5:60686735-60687614:-|nuORF ENSG00000100316|ENST00000216146|RPL3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 898.378868 897.371591 3.7746 0.003391 0.52965 0.00047583 4.3042 0.0038668 898.3794147672949 37.942 0.31353 38.576 38.389 38.703 0.63388 0.051466 0.00060444 NaN 34.102 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 235080 20549 1205;8204 12870 12926 -0.08119954403866814 NATIRNVL 8 Unmodified _NATIRNVL_ 0 0 0 PI4KA|p.S1815*|1|0.23|ENSG00000241973|chr22:20714476-20714477|-/A|frameshift_variant;ENSG00000241973|ENST00000255882|PI4KA;ENST00000450651.5_1_22:21841260-21846319:-|nuORF;nc|ENSG00000290425|Q8N8J0|PI4KAP1;nc|ENSG00000183506|A4QPH2-2|PI4KAP2;ENST00000462560.6_1_22:21830876-21842641:-|nuORF;ENST00000467443.5_1_22:21831964-21846319:-|nuORF;nc|ENSG00000183506|A4QPH2-4|PI4KAP2;nc|ENSG00000183506|A4QPH2|PI4KAP2;ENST00000360806.9_2_22:21827645-21842641:-|nuORF;nc|ENSG00000241973|P42356-2|PI4KA PI4KA|p.S1815*|1|0.23|ENSG00000241973|chr22:20714476-20714477|-/A|frameshift_variant PI4KA|p.S1815*|1|0.23|ENSG00000241973|chr22:20714476-20714477|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.7678527832031 2 450.766709 899.518865 2.9705 0.001339 0.080801 3.6422E-05 3.0513 0.0013754 450.7666810081972 37.687 0.23838 38.321 38.151 38.389 0.63388 11 7 2 0 0 0 0.56084 1 17260 17260 16.942 4.4107 1 231300 20550 6228 12871 12927 23998 23998 0.06508606991610577 NATNVEQSF 9 Unmodified _NATNVEQSF_ 0 0 0 nc|ENSG00000138069|P62820-3|RAB1A;ENSG00000138069|ENST00000409784|RAB1A;nc|ENSG00000138069|P62820-2|RAB1A nc|ENSG00000138069|P62820-3|RAB1A nc|ENSG00000138069|P62820-3|RAB1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.2352294921875 2 505.232896 1008.45124 3.1289 0.0015808 1.1435 0.00057773 4.2724 0.0021586 505.2335384713055 37.83 0.26817 37.83 37.667 37.935 0 17 10 2 0 0 0 0.012326 1 17163 17163 78.728 49.646 1 566430 20551 3067 12872 12928 23999 23999 -0.052648877298452135 NATNVEQSF 9 Unmodified _NATNVEQSF_ 0 0 0 nc|ENSG00000138069|P62820-3|RAB1A;ENSG00000138069|ENST00000409784|RAB1A;nc|ENSG00000138069|P62820-2|RAB1A nc|ENSG00000138069|P62820-3|RAB1A nc|ENSG00000138069|P62820-3|RAB1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.2348937988281 2 505.232896 1008.45124 3.1032 0.0015678 0.53573 0.00027067 3.6389 0.0018385 505.2330819012278 36.819 0.36893 37.612 37.462 37.831 0.79342 24 15 2 0 0 0 0.025323 2 16720 16673;16720 61.357 41.918 1 307410 20552 3067 12872 12928 24000;24001 24001 -0.052648877298452135 NATNVEQSF 9 Unmodified _NATNVEQSF_ 0 0 0 nc|ENSG00000138069|P62820-3|RAB1A;ENSG00000138069|ENST00000409784|RAB1A;nc|ENSG00000138069|P62820-2|RAB1A nc|ENSG00000138069|P62820-3|RAB1A nc|ENSG00000138069|P62820-3|RAB1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.2352600097656 2 505.232896 1008.45124 3.2492 0.0016416 0.28223 0.00014259 3.5314 0.0017842 505.2330929053274 37.828 0.35382 38.089 37.889 38.243 0.26083 19 11 2 0 0 0 0.025323 2 17192 17192;17253 61.357 41.918 1 471410 20553 3067 12872 12928 24002;24003 24002 -0.052648877298452135 NATNVEQSF 9 Unmodified _NATNVEQSF_ 0 0 0 nc|ENSG00000138069|P62820-3|RAB1A;ENSG00000138069|ENST00000409784|RAB1A;nc|ENSG00000138069|P62820-2|RAB1A nc|ENSG00000138069|P62820-3|RAB1A nc|ENSG00000138069|P62820-3|RAB1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.2344665527344 2 505.232896 1008.45124 3.2262 0.00163 0.72883 0.00036823 3.9551 0.0019982 505.23323174901014 37.299 0.32649 37.929 37.728 38.054 0.62999 22 13 2 0 0 0 0.038142 2 17095 17037;17095 52.268 35.326 1 493080 20554 3067 12872 12928 24004;24005 24005 -0.052648877298452135 NAWDKEPVL 9 Unmodified _NAWDKEPVL_ 0 0 0 ENSG00000170906|ENST00000485876|NDUFA3 ENSG00000170906|ENST00000485876|NDUFA3 ENSG00000170906|ENST00000485876|NDUFA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.2787475585938 2 536.277106 1070.53966 3.3192 0.00178 0.080268 4.3046E-05 3.3994 0.001823 536.277095873476 51 0.43518 51 50.795 51.23 0 45 20 3 0 0 0 6.4275E-06 3 23319 23319;23363;23410 148.27 89.589 1 6079500 20555 4773 12873 12929 24006;24007;24008 24006 0.007211525806042118 NAWDKEPVL 9 Unmodified _NAWDKEPVL_ 0 0 0 ENSG00000170906|ENST00000485876|NDUFA3 ENSG00000170906|ENST00000485876|NDUFA3 ENSG00000170906|ENST00000485876|NDUFA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.279296875 2 536.277106 1070.53966 3.1917 0.0017116 0.19879 0.0001066 3.3905 0.0018182 536.27714633441 50.051 0.41308 50.874 50.658 51.071 0.82285 37 17 3 0 0 0 3.8587E-09 2 22776 22776;22830 160.69 96.453 1 3411400 20556 4773 12873 12929 24009;24010 24009 0.007211525806042118 NAWDKEPVL 9 Unmodified _NAWDKEPVL_ 0 0 0 ENSG00000170906|ENST00000485876|NDUFA3 ENSG00000170906|ENST00000485876|NDUFA3 ENSG00000170906|ENST00000485876|NDUFA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.279052734375 2 536.277106 1070.53966 2.8505 0.0015287 0.42971 0.00023044 3.2802 0.0017591 536.2773927940547 51.055 0.37352 51.317 51.076 51.449 0.26146 31 16 2 0 0 0 9.5847E-09 2 23334 23285;23334 155.95 90.719 1 3073500 20557 4773 12873 12929 24011;24012 24012 0.007211525806042118 NAWDKEPVL 9 Unmodified _NAWDKEPVL_ 0 0 0 ENSG00000170906|ENST00000485876|NDUFA3 ENSG00000170906|ENST00000485876|NDUFA3 ENSG00000170906|ENST00000485876|NDUFA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.2789916992188 2 536.277106 1070.53966 3.1409 0.0016844 0.38361 0.00020572 3.5245 0.0018901 536.2772824203635 50.347 0.43956 51.005 50.812 51.251 0.65735 39 21 2 0 0 0 0.0012852 3 23043 22990;23043;23088 121.53 66.761 1 2097400 20558 4773 12873 12929 24013;24014;24015 24014 0.007211525806042118 NCANCGYWNC 10 Unmodified _NCANCGYWNC_ 0 0 0 ENST00000422797.5_1_2:109288812-109289630:+|nuORF ENST00000422797.5_1_2:109288812-109289630:+|nuORF ENST00000422797.5_1_2:109288812-109289630:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.1915283203125 2 574.191336 1146.36812 NaN NaN NaN NaN NaN NaN NaN 11.355 1 11.355 10.855 11.855 0 0 0 0 1.002 1 4960 4960 0 0 1 20559 7771 12874 12930 24016 24016 -0.1992098704536147 NCCCDPDCS 9 Unmodified _NCCCDPDCS_ 0 0 0 ENST00000464809.5_1_12:111052207-111065748:+|nuORF;ENST00000478122.6_1_12:111052207-111066834:+|nuORF;nc|ENSG00000204852|Q2MV58-5|TCTN1;nc|ENSG00000204852|Q2MV58-4|TCTN1;ENST00000495659.6_1_12:111052207-111085694:+|nuORF;nc|ENSG00000204852|Q2MV58-3|TCTN1;nc|ENSG00000204852|Q2MV58|TCTN1;ENSG00000204852|ENST00000397659|TCTN1 ENST00000464809.5_1_12:111052207-111065748:+|nuORF ENST00000464809.5_1_12:111052207-111065748:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 479.74609375 2 480.121731 958.228908 NaN NaN NaN NaN NaN NaN NaN 78.648 1 78.648 78.148 79.148 0 0 0 0 0.91452 1 38712 38712 0 0 1 20560 6034 12875 12931 24017 24017 -0.25187692725057786 NCCCRCCFCC 10 Unmodified _NCCCRCCFCC_ 0 0 0 ENSG00000183067|ENST00000380588|IGSF5 ENSG00000183067|ENST00000380588|IGSF5 ENSG00000183067|ENST00000380588|IGSF5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.15185546875 2 579.150931 1156.28731 NaN NaN NaN NaN NaN NaN NaN 95.768 1 95.768 95.268 96.268 0 0 0 0 1.002 1 51660 51660 0 0 1 20561 5361 12876 12932 24018 24018 -0.28458373947432847 NCEDFMDI 8 Unmodified _NCEDFMDI_ 0 0 0 ENST00000566383.1_1_16:53412501-53418166:+|nuORF ENST00000566383.1_1_16:53412501-53418166:+|nuORF ENST00000566383.1_1_16:53412501-53418166:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.684326171875 2 493.683336 985.352118 3.0285 0.0014951 -1.1287 -0.00055724 1.8997 0.00093786 493.6824508145047 19.417 0.19077 19.714 19.617 19.808 0.29753 41 16 4 0 0 0 0.70146 1 8832 8832 5.7604 0 1 1444400 20562 9054 12877 12933 24019 24019 -0.1411437001062268 NCEDFMDI 8 Unmodified _NCEDFMDI_ 0 0 0 ENST00000566383.1_1_16:53412501-53418166:+|nuORF ENST00000566383.1_1_16:53412501-53418166:+|nuORF ENST00000566383.1_1_16:53412501-53418166:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 493.683336 985.352118 3.1639 0.001562 -1.5995 -0.00078966 1.5644 0.00077231 493.6823151094269 19.815 0.18013 19.815 19.729 19.909 0 0.069005 -0.00011602 NaN 5.7604 31 12 3 NaN NaN NaN NaN 0 NaN NaN 0 1037300 20563 9054 12877 12933 -0.1411437001062268 NCEDFMDI 8 Unmodified _NCEDFMDI_ 0 0 0 ENST00000566383.1_1_16:53412501-53418166:+|nuORF ENST00000566383.1_1_16:53412501-53418166:+|nuORF ENST00000566383.1_1_16:53412501-53418166:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 493.683336 985.352118 3.33 0.001644 -1.5904 -0.00078516 1.7396 0.0008588 493.68214408121435 19.051 0.22694 19.709 19.587 19.814 0.65829 -0.036955 -0.00010701 NaN 5.7604 50 19 3 NaN NaN NaN NaN 0 NaN NaN 0 1989100 20564 9054 12877 12933 -0.1411437001062268 NCKAGLTG 8 Unmodified _NCKAGLTG_ 0 0 0 nc|ENSG00000165323|Q8TDW7|FAT3;ENSG00000165323|ENST00000525166|FAT3 nc|ENSG00000165323|Q8TDW7|FAT3 nc|ENSG00000165323|Q8TDW7|FAT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.19195556640625 2 382.191988 762.369423 NaN NaN NaN NaN NaN NaN NaN 82.369 1 83.029 82.529 83.529 0.66019 0 0 0 0.99035 1 37951 37951 5.2307 0 1 20565 4391 12878 12934 24020 24020 -0.02126661622651227 NCKNCAVKWKP 11 Unmodified _NCKNCAVKWKP_ 0 0 0 REV__ENSG00000100038|ENST00000357179|TOP3B REV__ENSG00000100038|ENST00000357179|TOP3B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.89080810546875 3 430.88637 1289.63728 NaN NaN NaN NaN NaN NaN NaN 67.345 1 67.595 67.095 68.095 0.2501 0 0 0 1.0073 1 30851 30851 1.2148 0.51716 1 + 20566 10800 12879 12935 24021 24021 0.0040489491345852 NCKNCAVKWKP 11 Unmodified _NCKNCAVKWKP_ 0 0 0 REV__ENSG00000100038|ENST00000357179|TOP3B REV__ENSG00000100038|ENST00000357179|TOP3B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.8895568847656 3 430.88637 1289.63728 NaN NaN NaN NaN NaN NaN NaN 76.784 1 77.04 76.54 77.54 0.25533 0 0 0 1.0062 1 35357 35357 2.6312 1.4164 1 + 20567 10800 12879 12935 24022 24022 0.0040489491345852 NCRRRLFHLFW 11 Unmodified _NCRRRLFHLFW_ 0 0 0 ENST00000543133.5_1_22:18121580-18138445:+|nuORF ENST00000543133.5_1_22:18121580-18138445:+|nuORF ENST00000543133.5_1_22:18121580-18138445:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 774.4115600585938 2 774.411872 1546.80919 NaN NaN NaN NaN NaN NaN NaN 73.507 1 73.507 73.007 74.007 0 0 0 0 1.0071 1 35849 35849 1.4819 0.15237 1 20568 8825 12880 12936 24023 24023 0.05765807716011295 NCSWDFDADT 10 Unmodified _NCSWDFDADT_ 0 0 0 ENST00000565182.5_1_16:46741618-46744787:-|nuORF;nc|ENSG00000140795|Q32MK0-4|MYLK3;ENSG00000140795|ENST00000394809|MYLK3 ENST00000565182.5_1_16:46741618-46744787:-|nuORF ENST00000565182.5_1_16:46741618-46744787:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.2140502929688 2 587.211303 1172.40805 NaN NaN NaN NaN NaN NaN NaN 42.921 1 42.921 42.421 43.421 0 0 0 0 0.99812 1 19541 19541 3.2813 1.2216 1 20569 3218 12881 12937 24024 24024 -0.1712544556944522 NDDDDDCAD 9 Unmodified _NDDDDDCAD_ 0 0 0 REV__CON__Q28194 REV__CON__Q28194 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.53485107421875 2 499.138001 996.261449 NaN NaN NaN NaN NaN NaN NaN 16.931 1 16.931 16.431 17.431 0 0 0 0 0.91452 1 7511 7511 0 0 1 + + 20570 10089 12882 12938 24025 24025 -0.23683167525211957 NDDDDDDDGDD 11 Unmodified _NDDDDDDDGDD_ 0 0 0 nc|ENSG00000106462|Q15910-5|EZH2;nc|ENSG00000106462|Q15910-3|EZH2;nc|ENSG00000106462|Q15910-4|EZH2;nc|ENSG00000106462|Q15910|EZH2;ENSG00000106462|ENST00000320356|EZH2;ENST00000483012.1_1_7:148516133-148534012:-|nuORF;ENST00000498186.5_1_7:148514900-148581332:-|nuORF;EZH2|p.T386Lfs*44|1|0.06|ENSG00000106462|chr7:148817946-148817947|-/ATAAAGACCAGAGTTATCTCAAGAATGTGTAG|frameshift_variant nc|ENSG00000106462|Q15910-5|EZH2;EZH2|p.T386Lfs*44|1|0.06|ENSG00000106462|chr7:148817946-148817947|-/ATAAAGACCAGAGTTATCTCAAGAATGTGTAG|frameshift_variant nc|ENSG00000106462|Q15910-5|EZH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.1654052734375 2 613.165998 1224.31744 NaN NaN NaN NaN NaN NaN NaN 87.846 1 87.886 87.386 88.386 0.039955 0 0 0 1.0082 1 44588 44588 0 0 1 20571 1572;9356 12883 12939 24026 24026 -0.2857428787469871 NDDSLNVAL 9 Unmodified _NDDSLNVAL_ 0 0 0 nc|ENSG00000009335|Q15386-3|UBE3C;nc|ENSG00000009335|Q15386-2|UBE3C;ENSG00000009335|ENST00000348165|UBE3C nc|ENSG00000009335|Q15386-3|UBE3C nc|ENSG00000009335|Q15386-3|UBE3C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.7364807128906 2 480.735271 959.45599 3.0285 0.0014559 0.23357 0.00011228 3.262 0.0015682 480.73513758485547 32.972 0.22844 33.591 33.435 33.664 0.61831 13 9 2 0 0 0 0.49692 1 15113 15113 12.532 1.7076 1 257850 20572 387 12884 12940 24027 24027 -0.025360035871017317 NDDSLNVAL 9 Unmodified _NDDSLNVAL_ 0 0 0 nc|ENSG00000009335|Q15386-3|UBE3C;nc|ENSG00000009335|Q15386-2|UBE3C;ENSG00000009335|ENST00000348165|UBE3C nc|ENSG00000009335|Q15386-3|UBE3C nc|ENSG00000009335|Q15386-3|UBE3C MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 480.735271 959.45599 3.1142 0.0014971 -0.077179 -3.7103E-05 3.037 0.00146 480.73508933251094 33.376 0.27192 33.63 33.527 33.799 0.25389 0.019571 -0.000114 NaN 12.532 15 12 2 NaN NaN NaN NaN 0 NaN NaN 0 181770 20573 387 12884 12940 -0.025360035871017317 NDEKYKAVSI 10 Unmodified _NDEKYKAVSI_ 0 0 0 ENSG00000099956|ENST00000644036|SMARCB1;nc|ENSG00000099956|Q12824-2|SMARCB1;ENST00000491967.1_1_22:24135798-24143581:+|nuORF ENSG00000099956|ENST00000644036|SMARCB1 ENSG00000099956|ENST00000644036|SMARCB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.5404052734375 3 389.539911 1165.5979 2.7506 0.0010714 -1.0622 -0.00041377 1.6884 0.00065768 389.53943891558004 13.307 0.11559 13.307 13.267 13.383 0 14 10 2 0 0 0 0.9178 1 5838 5838 2.8433 0.3448 1 275460 20574 1162 12885 12941 24028 24028 0.02172789435235245 NDEKYKAVSI 10 Unmodified _NDEKYKAVSI_ 0 0 0 ENSG00000099956|ENST00000644036|SMARCB1;nc|ENSG00000099956|Q12824-2|SMARCB1;ENST00000491967.1_1_22:24135798-24143581:+|nuORF ENSG00000099956|ENST00000644036|SMARCB1 ENSG00000099956|ENST00000644036|SMARCB1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 389.539911 1165.5979 2.248 0.0008757 -0.43162 -0.00016813 1.8164 0.00070756 389.54008007968247 12.857 0.12979 13.164 13.058 13.187 0.30727 -0.071538 0.00065645 NaN 2.8433 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 160540 20575 1162 12885 12941 0.02172789435235245 NDFWARLLER 10 Unmodified _NDFWARLLER_ 0 0 0 nc|ENSG00000076716|O75487-2|GPC4;ENSG00000076716|ENST00000370828|GPC4;ENSG00000183098|ENST00000377047|GPC6 nc|ENSG00000076716|O75487-2|GPC4 nc|ENSG00000076716|O75487-2|GPC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 660.3494873046875 2 660.346386 1318.67822 3.3378 0.0022041 1.5429 0.0010189 4.8807 0.0032229 660.3472500143108 103.25 0.040329 103.25 103.22 103.26 0 8 2 4 0 0 0 0.93713 1 56927 56927 1.4819 0 1 579230 20576 849 12886 12942 24029 24029 0.03162695548940064 NDGNSGSG 8 Unmodified _NDGNSGSG_ 0 0 0 REV__nc|ENSG00000161249|Q6E0U4-7|DMKN REV__nc|ENSG00000161249|Q6E0U4-7|DMKN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 354.1342468261719 2 354.133182 706.251811 NaN NaN NaN NaN NaN NaN NaN 69.911 1 70.614 70.114 71.114 0.70302 0 0 0 0.99035 1 33475 33475 2.3027 0.24298 1 + + 20577 10072 12887 12943 24030 24030 -0.11306522957738707 NDPSIELTL 9 Unmodified _NDPSIELTL_ 0 0 0 REV__ENSG00000121440|ENST00000263666|PDZRN3 REV__ENSG00000121440|ENST00000263666|PDZRN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.2629699707031 2 501.261122 1000.50769 3.188 0.001598 0.18249 9.1473E-05 3.3705 0.0016895 501.26114714772166 61.036 0.44638 61.699 61.477 61.923 0.66261 45 18 3 0 0 0 0.22824 1 28034 28034 21.537 2.28 1 2787100 + 20578 11557 12888 12944 24031 24031 0.007457401068108993 NDSEEALTAL 10 Unmodified _NDSEEALTAL_ 0 0 0 ENST00000495993.1_1_3:53905208-53907064:-|nuORF;nc|ENSG00000113812|Q9H981-3|ACTR8;nc|ENSG00000113812|Q9H981-2|ACTR8;ENSG00000113812|ENST00000335754|ACTR8 ENST00000495993.1_1_3:53905208-53907064:-|nuORF ENST00000495993.1_1_3:53905208-53907064:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.310302734375 2 531.751118 1061.48768 NaN NaN NaN NaN NaN NaN NaN 43.68 1 43.949 43.449 44.449 0.2694 0 0 0 0.98866 1 19950 19950 7.2892 2.0586 1 20579 1877 12889 12945 24032 24032 -0.040600556238359786 NEACCIDDG 9 Unmodified _NEACCIDDG_ 0 0 0 REV__ENSG00000109911|ENST00000640961|ELP4 REV__ENSG00000109911|ENST00000640961|ELP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.1632995605469 2 470.162767 938.310982 2.8885 0.0013581 -0.98186 -0.00046163 1.9066 0.00089642 470.1621630596681 38.006 0.67777 38.006 37.611 38.289 0 66 25 3 0 0 0 1.0041 1 17177 17177 3.9444 1.3669 1 2316100 + 20580 11187 12890 12946 24033 24033 -0.16064131050097785 NEADFRWQRRV 11 Unmodified _NEADFRWQRRV_ 0 0 0 ENSG00000112379|ENST00000251691|ARFGEF3;ARFGEF3|p.G800Efs*20|1|0.16|ENSG00000112379|chr6:138280099-138280099|T/-|frameshift_variant ENSG00000112379|ENST00000251691|ARFGEF3 ENSG00000112379|ENST00000251691|ARFGEF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.91912841796875 3 492.920008 1475.73819 NaN NaN NaN NaN NaN NaN NaN 88.802 1 88.854 88.354 89.354 0.052155 0 0 0 1.0072 1 45350 45350 1.3296 0.21989 1 20581 1808 12891 12947 24034 24034 0.019353862121533894 NEFDTSQLYLC 11 Unmodified _NEFDTSQLYLC_ 0 0 0 REV__nc|ENSG00000007174|Q9NYC9-2|DNAH9 REV__nc|ENSG00000007174|Q9NYC9-2|DNAH9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 666.7952270507812 2 666.79246 1331.57037 NaN NaN NaN NaN NaN NaN NaN 99.511 1 99.573 99.073 100.07 0.062241 0 0 0 1.0038 1 53820 53820 5.7319 0.83484 1 + 20582 10198 12892 12948 24035 24035 -0.08215481887282294 NEGYATEIM 9 Unmodified _NEGYATEIM_ 0 0 0 REV__ENSG00000185875|ENST00000376356|THNSL1 REV__ENSG00000185875|ENST00000376356|THNSL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.2257080078125 2 514.223682 1026.43281 3.3257 0.0017102 0.00091455 4.7028E-07 3.3266 0.0017106 514.2237967332524 50.735 0.70766 50.997 50.697 51.404 0.26146 88 34 4 0 0 0 0.68285 1 23274 23274 9.3831 0.035688 1 1984100 + 20583 14033 12893 12949 24036 24036 -0.07934765696086288 NEICRFQWP 9 Unmodified _NEICRFQWP_ 0 0 0 REV__nc|ENSG00000172890|Q6IA69-2|NADSYN1 REV__nc|ENSG00000172890|Q6IA69-2|NADSYN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.1914978027344 3 398.190447 1191.54951 2.6384 0.0010506 0.1584 6.3075E-05 2.7968 0.0011136 398.1905519537019 39.201 0.4765 39.999 39.756 40.232 0.79762 55 22 3 0 0 0 0.59776 1 17740 17740 7.1017 0 1 1799200 + 20584 13569 12894 12950 24037 24037 -0.03859982685639807 NEICRFQWP 9 Unmodified _NEICRFQWP_ 0 0 0 REV__nc|ENSG00000172890|Q6IA69-2|NADSYN1 REV__nc|ENSG00000172890|Q6IA69-2|NADSYN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.1913757324219 3 398.190447 1191.54951 3.1153 0.0012405 -0.5423 -0.00021594 2.573 0.0010246 398.1903292541173 39.802 0.29359 40.443 40.254 40.548 0.64135 27 12 3 0 0 0 0.59776 1 18163 18163 7.1017 2.9122 1 802960 + 20585 13569 12894 12950 24038 24038 -0.03859982685639807 NEITFTNEK 9 Unmodified _NEITFTNEK_ 0 0 0 REV__ENST00000536373.5_1_18:33718798-33725056:+|nuORF REV__ENST00000536373.5_1_18:33718798-33725056:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1095.5391845703125 1 1095.53168 1094.5244 3.3629 0.0036842 -0.6823 -0.00074748 2.6806 0.0029367 1095.5299042528122 48.139 0.24139 48.401 48.263 48.505 0.26209 12 8 2 0 0 0 0.10169 1 22002 22002 32.305 0 1 474290 + 20586 11980 12895 12951 24039 24039 -0.019077590072583916 NEKKEKVTAKN 11 Unmodified _NEKKEKVTAKN_ 0 0 0 REV__ENST00000495910.6_1_17:29579973-29580084:+|nuORF REV__ENST00000495910.6_1_17:29579973-29580084:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.7777709960938 2 644.864608 1287.71466 NaN NaN NaN NaN NaN NaN NaN 72.428 1 72.428 71.928 72.928 0 0 0 0 1.0007 1 35231 35231 6.6304 0.42459 1 + 20587 14239 12896 12952 24040 24040 0.08231527654993442 NEKKREKRRKK 11 Unmodified _NEKKREKRRKK_ 0 0 0 nc|ENSG00000165113|Q5VSY0-2|GKAP1;ENSG00000165113|ENST00000376371|GKAP1 nc|ENSG00000165113|Q5VSY0-2|GKAP1 nc|ENSG00000165113|Q5VSY0-2|GKAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.6475524902344 3 500.646219 1498.91683 NaN NaN NaN NaN NaN NaN NaN 74.366 1 75.052 74.552 75.552 0.68662 0 0 0 1.0074 1 35942 35942 0.36667 0.27183 1 20588 4372 12897 12953 24041 24041 0.18732475851038544 NEKLFEENM 9 Unmodified _NEKLFEENM_ 0 0 0 REV__ENSG00000134588|ENST00000511190|USP26 REV__ENSG00000134588|ENST00000511190|USP26 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.3360595703125 2 577.263339 1152.51212 3.3055 0.0019081 2.5018 0.0014442 5.8072 0.0033523 577.2644444004643 46.728 0.15988 47.557 47.515 47.675 0.82915 9 6 2 0 0 0 0.10127 1 21290 21290 12.241 4.3305 1 526360 + 20589 11971 12898 12954 24042 24042 -0.058031187419373964 NELRICYRWWY 11 Unmodified _NELRICYRWWY_ 0 0 0 REV__ENSG00000004142|ENST00000540200|POLDIP2 REV__ENSG00000004142|ENST00000540200|POLDIP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 801.3876953125 2 801.387728 1600.7609 NaN NaN NaN NaN NaN NaN NaN 45.322 1 45.59 45.09 46.09 0.26768 0 0 0 1.008 1 20718 20718 0.30703 0 1 + 20590 10163 12899 12955 24043 24043 -0.015447307145677769 NELSEPKMPTF 11 Unmodified _NELSEPKMPTF_ 0 0 0 REV__ENSG00000075702|ENST00000401500|WDR62 REV__ENSG00000075702|ENST00000401500|WDR62 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 646.8731689453125 2 646.813196 1291.61184 NaN NaN NaN NaN NaN NaN NaN 48.669 1 49.496 48.996 49.996 0.82705 0 0 0 1.0034 1 22172 22172 6.2058 0 1 + 20591 10533 12900 12956 24044 24044 -0.02230301127997336 NELYSQVKL 9 Unmodified _NELYSQVKL_ 0 0 0 REV__ENSG00000112561|ENST00000373033|TFEB REV__ENSG00000112561|ENST00000373033|TFEB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.29833984375 2 547.298039 1092.58152 3.1448 0.0017211 0.23781 0.00013015 3.3826 0.0018513 547.2980671614996 45.292 0.24717 46.118 45.995 46.242 0.82621 26 14 2 0 0 0 0.83994 1 20672 20672 6.7232 0 1 955340 + 20592 11276 12901 12957 24045 24045 0.0389370826915183 NENIHPSEIE 10 Unmodified _NENIHPSEIE_ 0 0 0 REV__ENSG00000196074|ENST00000357552|SYCP2 REV__ENSG00000196074|ENST00000357552|SYCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.52056884765625 3 394.519287 1180.53603 2.9154 0.0011502 -0.4505 -0.00017773 2.4649 0.00097246 394.5193361761752 56.173 0.40663 56.841 56.658 57.064 0.66829 72 24 4 0 0 0 0.83831 1 25658 25658 6.6235 0.43161 1 5117100 + 20593 14187 12902 12958 24046 24046 -0.04701561983915781 NEPNLMLEP 9 Unmodified _NEPNLMLEP_ 0 0 0 REV__nc|ENSG00000090615|Q08378-4|GOLGA3 REV__nc|ENSG00000090615|Q08378-4|GOLGA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.7575073242188 2 528.755149 1055.49575 NaN NaN NaN NaN NaN NaN NaN 62.259 1 62.919 62.419 63.419 0.66008 0 0 0 0.13912 1 28529 28529 34.402 0 1 + 20594 10715 12903 12959 24047 24047 -0.029781999080114474 NEPYSIHQL 9 Unmodified _NEPYSIHQL_ 0 0 0 REV__ENST00000397861.6_1_17:54910471-54911016:-|nuORF REV__ENST00000397861.6_1_17:54910471-54911016:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.7741088867188 2 550.772188 1099.52982 3.5046 0.0019302 0.30734 0.00016927 3.8119 0.0020995 550.7722217587828 37.258 0.34555 37.888 37.681 38.027 0.62999 42 14 4 0 0 0 0.030603 1 17020 17020 55.503 3.2344 1 1708800 + 20595 16020 12904 12960 24048 24048 -0.015960354247454234 NERFEKLCRSI 11 Unmodified _NERFEKLCRSI_ 0 0 0 nc|ENSG00000151148|Q7Z3V4-3|UBE3B;nc|ENSG00000151148|Q7Z3V4-2|UBE3B;ENSG00000151148|ENST00000342494|UBE3B nc|ENSG00000151148|Q7Z3V4-3|UBE3B nc|ENSG00000151148|Q7Z3V4-3|UBE3B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 697.8613891601562 2 697.864086 1393.71362 NaN NaN NaN NaN NaN NaN NaN 99.688 1 99.75 99.25 100.25 0.062241 0 0 0 0.95688 1 53940 53940 10.8 2.644 1 20596 3692 12905 12961 24049 24049 0.03250990014453237 NESFIKKENSI 11 Unmodified _NESFIKKENSI_ 0 0 0 REV__nc|ENSG00000176601|Q56UN5-4|MAP3K19 REV__nc|ENSG00000176601|Q56UN5-4|MAP3K19 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.1361389160156 3 436.897987 1307.67213 3.2155 0.0014048 0.38293 0.0001673 3.5984 0.0015721 436.8980043815517 20.34 0.30007 20.993 20.834 21.134 0.65346 35 22 2 0 0 0 0.13295 1 9212 9212 1.1098 0 1 123160 + 20597 13709 12906 12962 24050 24050 0.030601325267753055 NEVVVLIV 8 Unmodified _NEVVVLIV_ 0 0 0 nc|ENSG00000284680|Q96RD0|OR8B2;nc|ENSG00000284609|Q8NGG8|OR8B3 nc|ENSG00000284680|Q96RD0|OR8B2 nc|ENSG00000284680|Q96RD0|OR8B2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 442.2908020019531 2 442.776211 883.537869 3.0255 0.0013396 1.243 0.00055038 4.2685 0.00189 442.776612059501 37.384 0.21643 37.645 37.541 37.758 0.26083 11 6 2 0 0 0 0.13672 1 17035 17035 13.508 0 1 377520 20598 9872 12907 12963 24051 24051 0.09144143562673435 NEVVVLIV 8 Unmodified _NEVVVLIV_ 0 0 0 nc|ENSG00000284680|Q96RD0|OR8B2;nc|ENSG00000284609|Q8NGG8|OR8B3 nc|ENSG00000284680|Q96RD0|OR8B2 nc|ENSG00000284680|Q96RD0|OR8B2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 442.776211 883.537869 3.1705 0.0014038 1.321 0.00058491 4.4915 0.0019887 442.77686593821664 36.7 0.24902 37.33 37.167 37.416 0.62999 -0.15738 2.4937E-05 NaN 13.508 17 11 2 NaN NaN NaN NaN 0 NaN NaN 0 161180 20599 9872 12907 12963 0.09144143562673435 NEWFWYRRHCF 11 Unmodified _NEWFWYRRHCF_ 0 0 0 ENST00000415794.1_1_3:139212993-139213512:+|nuORF ENST00000415794.1_1_3:139212993-139213512:+|nuORF ENST00000415794.1_1_3:139212993-139213512:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 822.369873046875 2 822.369869 1642.72519 NaN NaN NaN NaN NaN NaN NaN 74.514 1 74.514 74.014 75.014 0 0 0 0 1.0082 1 36403 36403 0 0 1 20600 7705 12908 12964 24052 24052 -0.07046768171585427 NEWFWYRRHCF 11 Unmodified _NEWFWYRRHCF_ 0 0 0 ENST00000415794.1_1_3:139212993-139213512:+|nuORF ENST00000415794.1_1_3:139212993-139213512:+|nuORF ENST00000415794.1_1_3:139212993-139213512:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 822.3741455078125 2 822.369869 1642.72519 NaN NaN NaN NaN NaN NaN NaN 103.33 1 103.93 103.43 104.43 0.59821 0 0 0 1.0082 1 47804 47804 0 0 1 20601 7705 12908 12964 24053 24053 -0.07046768171585427 NFDNILNSF 9 Unmodified _NFDNILNSF_ 0 0 0 ENST00000551127.5_1_12:113726380-113729792:+|nuORF;ENST00000552077.5_1_12:113726380-113733878:+|nuORF;ENSG00000186815|ENST00000335509|TPCN1;nc|ENSG00000186815|Q9ULQ1-3|TPCN1 ENST00000551127.5_1_12:113726380-113729792:+|nuORF ENST00000551127.5_1_12:113726380-113729792:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.2608032226562 2 542.258914 1082.50327 NaN NaN NaN NaN NaN NaN NaN 89.066 1 89.318 88.818 89.818 0.25118 0 0 0 0.55812 1 40968 40968 17.113 10.39 1 20602 5586 12909 12965 24054 24054 -0.03467724316078602 NFDNPVYL 8 Unmodified _NFDNPVYL_ 0 0 0 nc|ENSG00000147852|P98155-2|VLDLR;ENSG00000147852|ENST00000382100|VLDLR nc|ENSG00000147852|P98155-2|VLDLR nc|ENSG00000147852|P98155-2|VLDLR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 981.4685668945312 1 981.467623 980.460347 3.8546 0.0037832 0.6758 0.00066328 4.5304 0.0044465 981.4679263750761 68.054 0.21217 68.306 68.174 68.386 0.25227 21 16 2 0 0 0 0.090253 1 31164 31164 54.774 20.671 1 459230 20603 3582 12910 12966 24055 24055 -0.030664943735246197 NFDNPVYL 8 Unmodified _NFDNPVYL_ 0 0 0 nc|ENSG00000147852|P98155-2|VLDLR;ENSG00000147852|ENST00000382100|VLDLR nc|ENSG00000147852|P98155-2|VLDLR nc|ENSG00000147852|P98155-2|VLDLR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 981.4720458984375 1 981.467623 980.460347 3.6926 0.0036242 -0.12284 -0.00012056 3.5698 0.0035036 981.4670636847045 67.558 0.16039 68.216 68.099 68.259 0.65777 15 11 2 0 0 0 0.06577 2 30940 30940;30982 60.39 9.5345 1 571790 20604 3582 12910 12966 24056;24057 24056 -0.030664943735246197 NFISVRQQF 9 Unmodified _NFISVRQQF_ 0 0 0 ENST00000491005.5_1_1:220324899-220327342:-|nuORF;ENSG00000118873|ENST00000358951|RAB3GAP2 ENST00000491005.5_1_1:220324899-220327342:-|nuORF ENST00000491005.5_1_1:220324899-220327342:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.2183532714844 3 380.204974 1137.59309 NaN NaN NaN NaN NaN NaN NaN 39.829 1 40.096 39.596 40.596 0.26696 0 0 0 0.90431 1 18120 18120 2.4985 0.41248 1 20605 2125 12911 12967 24058 24058 0.029799500831359182 NFKKHVEL 8 Unmodified _NFKKHVEL_ 0 0 0 nc|ENSG00000084093|Q13127-4|REST;ENSG00000084093|ENST00000309042|REST nc|ENSG00000084093|Q13127-4|REST nc|ENSG00000084093|Q13127-4|REST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.7920227050781 2 507.790184 1013.56581 3.4276 0.0017405 0.25203 0.00012798 3.6797 0.0018685 507.7900819408807 13.24 0.13486 13.883 13.808 13.943 0.64272 16 9 2 0 0 0 0.36624 1 5947 5947 30.637 15.798 1 262050 20606 952 12912 12968 24059 24059 0.05957466542747625 NFKKHVEL 8 Unmodified _NFKKHVEL_ 0 0 0 nc|ENSG00000084093|Q13127-4|REST;ENSG00000084093|ENST00000309042|REST nc|ENSG00000084093|Q13127-4|REST nc|ENSG00000084093|Q13127-4|REST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.86346435546875 3 338.862548 1013.56581 2.4723 0.00083776 0.78889 0.00026732 3.2611 0.0011051 338.8628222088125 13.263 0.21557 13.906 13.769 13.984 0.64272 39 16 4 0 0 0 0.60592 1 5965 5965 10.074 4.777 1 848950 20607 952 12912 12968 24060 24060 0.05957466542747625 NFKKHVEL 8 Unmodified _NFKKHVEL_ 0 0 0 nc|ENSG00000084093|Q13127-4|REST;ENSG00000084093|ENST00000309042|REST nc|ENSG00000084093|Q13127-4|REST nc|ENSG00000084093|Q13127-4|REST MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 338.862548 1013.56581 2.3566 0.00079857 1.021 0.00034599 3.3777 0.0011446 338.86296454439105 14.278 0.13341 14.278 14.241 14.374 0 0.18584 0.00015442 NaN 10.074 18 7 3 NaN NaN NaN NaN 0 NaN NaN 0 455990 20608 952 12912 12968 0.05957466542747625 NFKKIHFI 8 Unmodified _NFKKIHFI_ 0 0 0 ENST00000583220.5_1_18:20716467-20776816:+|nuORF;nc|ENSG00000134508|Q8TDN4-2|CABLES1;ENSG00000134508|ENST00000256925|CABLES1 ENST00000583220.5_1_18:20716467-20776816:+|nuORF ENST00000583220.5_1_18:20716467-20776816:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 349.5439147949219 3 349.543038 1045.60729 NaN NaN NaN NaN NaN NaN NaN 13.426 1 14.069 13.569 14.569 0.64272 0 0 0 0.99035 1 6031 6031 1.8442 0 1 20609 2813 12913 12969 24061 24061 0.08630647302061334 NFKRRFSL 8 Unmodified _NFKRRFSL_ 0 0 0 ENSG00000117266|ENST00000429964|CDK18;nc|ENSG00000117266|Q07002-3|CDK18;chr1:205523297-205523546|511|23.31|0.94|4.63|+|ENST00000443813|CDK18,CDK18 ENSG00000117266|ENST00000429964|CDK18 ENSG00000117266|ENST00000429964|CDK18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 356.5426940917969 3 356.541809 1066.6036 2.6785 0.00095501 -0.15126 -5.393E-05 2.5273 0.00090108 356.5417580226898 25.067 0.29006 25.335 25.218 25.508 0.26777 78 40 2 0 0 0 0.49519 2 11421 11359;11421 21.537 12.154 1 3058400 20610 2066 12914 12970 24062;24063 24063 0.07295977528224284 NFKRRFSL 8 Unmodified _NFKRRFSL_ 0 0 0 ENSG00000117266|ENST00000429964|CDK18;nc|ENSG00000117266|Q07002-3|CDK18;chr1:205523297-205523546|511|23.31|0.94|4.63|+|ENST00000443813|CDK18,CDK18 ENSG00000117266|ENST00000429964|CDK18 ENSG00000117266|ENST00000429964|CDK18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 356.5426025390625 3 356.541809 1066.6036 2.425 0.00086462 -0.4309 -0.00015363 1.9941 0.00071099 356.54158394275976 24.76 0.089912 25.389 25.38 25.47 0.62915 22 15 2 0 0 0 0.44584 1 11344 11344 24.991 14.167 1 5166300 20611 2066 12914 12970 24064 24064 0.07295977528224284 NFPFRCRFPR 10 Unmodified _NFPFRCRFPR_ 0 0 0 nc|ENSG00000129255|O75352-2|MPDU1 nc|ENSG00000129255|O75352-2|MPDU1 nc|ENSG00000129255|O75352-2|MPDU1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 670.3458251953125 2 670.345666 1338.67678 NaN NaN NaN NaN NaN NaN NaN 15.137 1 15.137 14.637 15.637 0 0 0 0 1.0015 1 6684 6684 0.40072 0 1 20612 9633 12915 12971 24065 24065 0.020987829791920376 NFQIEHHLF 9 Unmodified _NFQIEHHLF_ 0 0 0 nc|ENSG00000149485|O60427-2|FADS1;nc|ENSG00000149485|O60427|FADS1;ENSG00000149485|ENST00000350997|FADS1;ENST00000522359.2_1_11:61630757-61632750:+|nuORF;nc|ENSG00000274150|A8MWK0|FADS2B;ENSG00000221968|ENST00000278829|FADS3;ENST00000533676.5_1_11:61641288-61643947:-|nuORF;nc|ENSG00000134824|O95864-2|FADS2;nc|ENSG00000134824|O95864-4|FADS2;ENSG00000134824|ENST00000278840|FADS2 nc|ENSG00000149485|O60427-2|FADS1;ENSG00000221968|ENST00000278829|FADS3;nc|ENSG00000134824|O95864-2|FADS2 ENSG00000221968|ENST00000278829|FADS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 592.79736328125 2 592.795998 1183.57744 3.5948 0.002131 -0.19539 -0.00011583 3.3994 0.0020151 592.7960079168033 51.38 0.39051 51.38 51.167 51.557 0 39 19 3 0 0 0 0.0017071 2 23507 23507;23561 107.19 42.951 1 976150 20613 6155;9653;3646 12916 12972 24066;24067 24066 -0.007003364339425389 NFQIEHHLF 9 Unmodified _NFQIEHHLF_ 0 0 0 nc|ENSG00000149485|O60427-2|FADS1;nc|ENSG00000149485|O60427|FADS1;ENSG00000149485|ENST00000350997|FADS1;ENST00000522359.2_1_11:61630757-61632750:+|nuORF;nc|ENSG00000274150|A8MWK0|FADS2B;ENSG00000221968|ENST00000278829|FADS3;ENST00000533676.5_1_11:61641288-61643947:-|nuORF;nc|ENSG00000134824|O95864-2|FADS2;nc|ENSG00000134824|O95864-4|FADS2;ENSG00000134824|ENST00000278840|FADS2 nc|ENSG00000149485|O60427-2|FADS1;ENSG00000221968|ENST00000278829|FADS3;nc|ENSG00000134824|O95864-2|FADS2 ENSG00000221968|ENST00000278829|FADS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 395.5341796875 3 395.533091 1183.57744 2.7803 0.0010997 0.092165 3.6454E-05 2.8724 0.0011361 395.53312543672325 51.37 0.40827 51.37 51.167 51.575 0 50 20 3 0 0 0 0.10245 2 23515 23515;23573 22.736 10.496 1 990900 20614 6155;9653;3646 12916 12972 24068;24069 24068 -0.007003364339425389 NFQIEHHLF 9 Unmodified _NFQIEHHLF_ 0 0 0 nc|ENSG00000149485|O60427-2|FADS1;nc|ENSG00000149485|O60427|FADS1;ENSG00000149485|ENST00000350997|FADS1;ENST00000522359.2_1_11:61630757-61632750:+|nuORF;nc|ENSG00000274150|A8MWK0|FADS2B;ENSG00000221968|ENST00000278829|FADS3;ENST00000533676.5_1_11:61641288-61643947:-|nuORF;nc|ENSG00000134824|O95864-2|FADS2;nc|ENSG00000134824|O95864-4|FADS2;ENSG00000134824|ENST00000278840|FADS2 nc|ENSG00000149485|O60427-2|FADS1;ENSG00000221968|ENST00000278829|FADS3;nc|ENSG00000134824|O95864-2|FADS2 ENSG00000221968|ENST00000278829|FADS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 395.53375244140625 3 395.533091 1183.57744 2.5282 0.00099999 -0.33887 -0.00013403 2.1893 0.00086596 395.5329827083071 50.471 0.22495 51.294 51.145 51.37 0.82285 24 9 3 0 0 0 0.086747 1 22964 22964 32.786 17.537 1 1142600 20615 6155;9653;3646 12916 12972 24070 24070 -0.007003364339425389 NFQIEHHLF 9 Unmodified _NFQIEHHLF_ 0 0 0 nc|ENSG00000149485|O60427-2|FADS1;nc|ENSG00000149485|O60427|FADS1;ENSG00000149485|ENST00000350997|FADS1;ENST00000522359.2_1_11:61630757-61632750:+|nuORF;nc|ENSG00000274150|A8MWK0|FADS2B;ENSG00000221968|ENST00000278829|FADS3;ENST00000533676.5_1_11:61641288-61643947:-|nuORF;nc|ENSG00000134824|O95864-2|FADS2;nc|ENSG00000134824|O95864-4|FADS2;ENSG00000134824|ENST00000278840|FADS2 nc|ENSG00000149485|O60427-2|FADS1;ENSG00000221968|ENST00000278829|FADS3;nc|ENSG00000134824|O95864-2|FADS2 ENSG00000221968|ENST00000278829|FADS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.7971801757812 2 592.795998 1183.57744 3.4241 0.0020298 -0.37885 -0.00022458 3.0453 0.0018052 592.7956771243812 50.456 0.23199 51.279 51.165 51.397 0.82285 17 9 2 0 0 0 0.0029142 1 22977 22977 96.111 41.337 1 957890 20616 6155;9653;3646 12916 12972 24071 24071 -0.007003364339425389 NFQIEHHLF 9 Unmodified _NFQIEHHLF_ 0 0 0 nc|ENSG00000149485|O60427-2|FADS1;nc|ENSG00000149485|O60427|FADS1;ENSG00000149485|ENST00000350997|FADS1;ENST00000522359.2_1_11:61630757-61632750:+|nuORF;nc|ENSG00000274150|A8MWK0|FADS2B;ENSG00000221968|ENST00000278829|FADS3;ENST00000533676.5_1_11:61641288-61643947:-|nuORF;nc|ENSG00000134824|O95864-2|FADS2;nc|ENSG00000134824|O95864-4|FADS2;ENSG00000134824|ENST00000278840|FADS2 nc|ENSG00000149485|O60427-2|FADS1;ENSG00000221968|ENST00000278829|FADS3;nc|ENSG00000134824|O95864-2|FADS2 ENSG00000221968|ENST00000278829|FADS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.7981567382812 2 592.795998 1183.57744 3.5081 0.0020796 0.33841 0.00020061 3.8465 0.0022802 592.7963438870047 51.321 0.17548 51.583 51.49 51.665 0.26228 11 7 2 0 0 0 0.010221 1 23481 23481 81.613 41.656 1 570710 20617 6155;9653;3646 12916 12972 24072 24072 -0.007003364339425389 NFQIEHHLF 9 Unmodified _NFQIEHHLF_ 0 0 0 nc|ENSG00000149485|O60427-2|FADS1;nc|ENSG00000149485|O60427|FADS1;ENSG00000149485|ENST00000350997|FADS1;ENST00000522359.2_1_11:61630757-61632750:+|nuORF;nc|ENSG00000274150|A8MWK0|FADS2B;ENSG00000221968|ENST00000278829|FADS3;ENST00000533676.5_1_11:61641288-61643947:-|nuORF;nc|ENSG00000134824|O95864-2|FADS2;nc|ENSG00000134824|O95864-4|FADS2;ENSG00000134824|ENST00000278840|FADS2 nc|ENSG00000149485|O60427-2|FADS1;ENSG00000221968|ENST00000278829|FADS3;nc|ENSG00000134824|O95864-2|FADS2 ENSG00000221968|ENST00000278829|FADS3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 395.533091 1183.57744 2.8246 0.0011172 1.2205 0.00048276 4.0451 0.0016 395.53292112159284 51.334 0.13762 51.597 51.528 51.665 0.26227 0.17648 0.0015232 NaN 32.786 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 762510 20618 6155;9653;3646 12916 12972 -0.007003364339425389 NFQIEHHLF 9 Unmodified _NFQIEHHLF_ 0 0 0 nc|ENSG00000149485|O60427-2|FADS1;nc|ENSG00000149485|O60427|FADS1;ENSG00000149485|ENST00000350997|FADS1;ENST00000522359.2_1_11:61630757-61632750:+|nuORF;nc|ENSG00000274150|A8MWK0|FADS2B;ENSG00000221968|ENST00000278829|FADS3;ENST00000533676.5_1_11:61641288-61643947:-|nuORF;nc|ENSG00000134824|O95864-2|FADS2;nc|ENSG00000134824|O95864-4|FADS2;ENSG00000134824|ENST00000278840|FADS2 nc|ENSG00000149485|O60427-2|FADS1;ENSG00000221968|ENST00000278829|FADS3;nc|ENSG00000134824|O95864-2|FADS2 ENSG00000221968|ENST00000278829|FADS3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 592.795998 1183.57744 3.7001 0.0021934 1.1309 0.0006704 4.831 0.0028638 592.7968787098988 50.741 0.21558 51.401 51.219 51.435 0.65956 -0.010058 0.0012177 NaN 107.19 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 575280 20619 6155;9653;3646 12916 12972 -0.007003364339425389 NFSSSNFAKQM 11 Unmodified _NFSSSNFAKQM_ 0 0 0 REV__ENSG00000100401|ENST00000356244|RANGAP1 REV__ENSG00000100401|ENST00000356244|RANGAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 630.7894287109375 2 630.787512 1259.56047 3.8631 0.0024368 0.73667 0.00046468 4.5997 0.0029015 630.7882115143921 65.449 0.2012 65.697 65.535 65.736 0.24823 13 8 2 0 0 0 0.3022 1 29968 29968 24.991 2.2547 1 783330 + 20620 10828 12917 12973 24073 24073 -0.058926251020466225 NFSSSNFAKQM 11 Unmodified _NFSSSNFAKQM_ 0 0 0 REV__ENSG00000100401|ENST00000356244|RANGAP1 REV__ENSG00000100401|ENST00000356244|RANGAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 630.7905883789062 2 630.787512 1259.56047 3.9407 0.0024857 0.28866 0.00018209 4.2293 0.0026678 630.7877660225967 64.811 0.29651 65.468 65.294 65.591 0.65672 26 16 3 0 0 0 0.14087 1 29710 29710 34.932 5.8505 1 904140 + 20621 10828 12917 12973 24074 24074 -0.058926251020466225 NFSSSNFAKQM 11 Unmodified _NFSSSNFAKQM_ 0 0 0 REV__ENSG00000100401|ENST00000356244|RANGAP1 REV__ENSG00000100401|ENST00000356244|RANGAP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 630.787512 1259.56047 3.8631 0.0024368 0.73667 0.00046468 4.5997 0.0029015 630.7882115143921 65.449 0.2012 65.697 65.535 65.736 0.24823 0.11449 0.00036621 NaN 34.932 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 783330 + 20622 10828 12917 12973 -0.058926251020466225 NFSSSNFAKQM 11 Unmodified _NFSSSNFAKQM_ 0 0 0 REV__ENSG00000100401|ENST00000356244|RANGAP1 REV__ENSG00000100401|ENST00000356244|RANGAP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 630.787512 1259.56047 3.9407 0.0024857 0.28866 0.00018209 4.2293 0.0026678 630.7877660225967 64.811 0.29651 65.468 65.294 65.591 0.65672 -0.11449 -0.00019899 NaN 34.932 26 16 3 NaN NaN NaN NaN 0 NaN NaN 0 904140 + 20623 10828 12917 12973 -0.058926251020466225 NFTNVAATF 9 Unmodified _NFTNVAATF_ 0 0 0 nc|ENSG00000131473|P53396-2|ACLY;ENSG00000131473|ENST00000352035|ACLY;ENST00000588547.1_1_17:40060903-40061877:-|nuORF nc|ENSG00000131473|P53396-2|ACLY nc|ENSG00000131473|P53396-2|ACLY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.74371337890625 2 492.742899 983.471246 3.3148 0.0016334 -0.49096 -0.00024192 2.8239 0.0013915 492.74262593364193 65.509 0.28609 65.757 65.616 65.902 0.24848 24 13 2 0 0 0 0.057744 2 30000 30000;30046 43.858 20.71 1 849870 20624 2662 12918 12974 24075;24076 24075 -0.02115091999246488 NFTNVAATF 9 Unmodified _NFTNVAATF_ 0 0 0 nc|ENSG00000131473|P53396-2|ACLY;ENSG00000131473|ENST00000352035|ACLY;ENST00000588547.1_1_17:40060903-40061877:-|nuORF nc|ENSG00000131473|P53396-2|ACLY nc|ENSG00000131473|P53396-2|ACLY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.74383544921875 2 492.742899 983.471246 3.2977 0.0016249 -0.18289 -9.0115E-05 3.1148 0.0015348 492.7426297787184 64.951 0.24831 65.607 65.468 65.717 0.65672 38 17 3 0 0 0 0.012326 2 29787 29738;29787 78.728 44.626 1 795540 20625 2662 12918 12974 24077;24078 24078 -0.02115091999246488 NFTVHKQIKVV 11 Unmodified _NFTVHKQIKVV_ 0 0 0 REV__nc|ENSG00000140105|P23381-2|WARS1 REV__nc|ENSG00000140105|P23381-2|WARS1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.92901611328125 3 438.262712 1311.76631 2.7795 0.0012182 -1.4168 -0.00062094 1.3627 0.00059723 438.5965131282131 39.032 0.19336 39.297 39.255 39.448 0.26408 13 8 2 0 0 0 0.13295 1 17787 17787 2.4348 0.97967 1 1039200 + 20626 12232 12919 12975 24079 24079 0.12289316139526818 NGATRKLAL 9 Unmodified _NGATRKLAL_ 0 0 0 nc|ENSG00000086061|P31689-2|DNAJA1;ENSG00000086061|ENST00000330899|DNAJA1 nc|ENSG00000086061|P31689-2|DNAJA1 nc|ENSG00000086061|P31689-2|DNAJA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.2895812988281 2 472.287808 942.561064 3.155 0.0014901 0.70696 0.00033389 3.8619 0.0018239 472.28814958744573 20.039 0.32529 20.696 20.532 20.858 0.65696 63 29 3 0 0 0 0.020921 3 9096 9049;9096;9138 55.503 17.529 1 340260 20627 979 12920 12976 24080;24081;24082 24081 0.08748582399982752 NGKITAYILFY 11 Unmodified _NGKITAYILFY_ 0 0 0 ENSG00000187323|ENST00000442544|DCC ENSG00000187323|ENST00000442544|DCC ENSG00000187323|ENST00000442544|DCC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 652.1121826171875 2 651.858264 1301.70197 NaN NaN NaN NaN NaN NaN NaN 58.204 1 58.467 57.967 58.967 0.26227 0 0 0 0.94174 1 26651 26651 12.241 0 1 20628 5613 12921 12977 24083 24083 0.06319116262761781 NGLKSLSA 8 Unmodified _NGLKSLSA_ 0 0 0 ENST00000494058.5_1_6:31934804-31935971:+|nuORF;ENST00000461915.5_1_6:31934795-31936203:+|nuORF;ENST00000484835.1_1_6:31934891-31936687:+|nuORF;ENSG00000204351|ENST00000375394|SKIC2 ENST00000494058.5_1_6:31934804-31935971:+|nuORF ENST00000494058.5_1_6:31934804-31935971:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 395.2269592285156 2 395.226885 788.439217 1.9395 0.00076656 -1.4935 -0.00059026 0.44606 0.00017629 395.2262667923269 79.942 0.31138 80.262 80.086 80.398 0.31998 30 18 2 0 0 0 0.74071 1 39114 39114 2.5775 0 1 1769700 20629 6002 12922 12978 24084 24084 0.03653540317611714 NGLKSLSA 8 Unmodified _NGLKSLSA_ 0 0 0 ENST00000494058.5_1_6:31934804-31935971:+|nuORF;ENST00000461915.5_1_6:31934795-31936203:+|nuORF;ENST00000484835.1_1_6:31934891-31936687:+|nuORF;ENSG00000204351|ENST00000375394|SKIC2 ENST00000494058.5_1_6:31934804-31935971:+|nuORF ENST00000494058.5_1_6:31934804-31935971:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 395.226885 788.439217 2.736 0.0010813 -1.6635 -0.00065745 1.0725 0.00042389 395.22614223193983 80.066 0.43208 80.316 80.115 80.547 0.24947 0.00047451 -3.8382E-05 NaN 2.5775 65 27 3 NaN NaN NaN NaN 0 NaN NaN 0 2840500 20630 6002 12922 12978 0.03653540317611714 NGLKSLSA 8 Unmodified _NGLKSLSA_ 0 0 0 ENST00000494058.5_1_6:31934804-31935971:+|nuORF;ENST00000461915.5_1_6:31934795-31936203:+|nuORF;ENST00000484835.1_1_6:31934891-31936687:+|nuORF;ENSG00000204351|ENST00000375394|SKIC2 ENST00000494058.5_1_6:31934804-31935971:+|nuORF ENST00000494058.5_1_6:31934804-31935971:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 395.226885 788.439217 2.9219 0.0011548 -1.6245 -0.00064206 1.2974 0.00051275 395.2261070122583 79.707 0.41062 80.368 80.149 80.559 0.66082 0.05286 -7.5872E-06 NaN 2.5775 57 24 3 NaN NaN NaN NaN 0 NaN NaN 0 3850200 20631 6002 12922 12978 0.03653540317611714 NGQIQEHAL 9 Unmodified _NGQIQEHAL_ 0 0 0 ENST00000553854.1_1_14:82128143-82128728:+|nuORF ENST00000553854.1_1_14:82128143-82128728:+|nuORF ENST00000553854.1_1_14:82128143-82128728:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.925048828125 2 505.256705 1008.49886 NaN NaN NaN NaN NaN NaN NaN 56.793 1 57.057 56.557 57.557 0.26444 0 0 0 0.86044 1 25986 25986 7.2892 1.5574 1 20632 8899 12923 12979 24085 24085 -0.005051887389981857 NGQPRKKG 8 Unmodified _NGQPRKKG_ 0 0 0 nc|ENSG00000197603|Q9H799-5|CPLANE1;nc|ENSG00000197603|Q9H799|CPLANE1;ENSG00000197603|ENST00000651892|CPLANE1 nc|ENSG00000197603|Q9H799-5|CPLANE1 nc|ENSG00000197603|Q9H799-5|CPLANE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.7574157714844 2 442.756675 883.498798 2.6953 0.0011934 0.51009 0.00022584 3.2054 0.0014192 442.75666395321906 75.615 0.30727 76.28 76.119 76.427 0.6644 62 28 3 0 0 0 0.70799 1 34889 34889 5.2307 0 1 1743200 20633 5831 12924 12980 24086 24086 0.052388560516646976 NGRFHYRFRK 10 Unmodified _NGRFHYRFRK_ 0 0 0 REV__ENSG00000135249|ENST00000257700|RINT1 REV__ENSG00000135249|ENST00000257700|RINT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 690.8787231445312 2 690.873437 1379.73232 NaN NaN NaN NaN NaN NaN NaN 104.74 1 105.34 104.84 105.84 0.59885 0 0 0 1.0015 1 48384 48384 0.45834 0.057624 1 + 20634 12006 12925 12981 24087 24087 0.057643324911623495 NGRIHPLL 8 Unmodified _NGRIHPLL_ 0 0 0 REV__ENST00000546564.5_1_12:120636605-120638589:-|nuORF REV__ENST00000546564.5_1_12:120636605-120638589:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 307.18914794921875 3 307.187255 918.539935 NaN NaN NaN NaN NaN NaN NaN 27.81 1 28.596 28.096 29.096 0.78627 0 0 0 0.99035 1 12512 12512 0.40072 0 1 + 20635 10692 12926 12982 24088 24088 0.07740617091144486 NGRQKIAAL 9 Unmodified _NGRQKIAAL_ 0 0 0 nc|ENSG00000151914|Q03001|DST;DST|p.I5232Sfs*5|1|0.18|ENSG00000151914|chr6:56470139-56470139|T/-|frameshift_variant;ENSG00000151914|ENST00000680361|DST;DST|p.L2377Sfs*24|1|0.05|ENSG00000151914|chr6:56568573-56568574|-/TATCTCAAGAAATTACAAG|frameshift_variant;DST|p.V3868Mfs*36|1|0.21|ENSG00000151914|chr6:56515641-56515653|AGTTCTTCAGTAC/-|frameshift_variant;nc|ENSG00000151914|Q03001-9|DST nc|ENSG00000151914|Q03001|DST nc|ENSG00000151914|Q03001|DST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.7949523925781 2 485.793258 969.571963 3.2272 0.0015678 0.50016 0.00024297 3.7274 0.0018107 485.7935774990295 16.681 0.36842 17.339 17.225 17.594 0.65798 46 34 2 0 0 0 0.76984 1 7545 7545 7.9102 0 1 112930 20636 9690 12927 12983 24089 24089 0.08595984774274257 NGRRRPRA 8 Unmodified _NGRRRPRA_ 0 0 0 ENSG00000171865|ENST00000315212|RNASEH1;ENST00000464986.5_1_2:3597961-3599836:-|nuORF ENSG00000171865|ENST00000315212|RNASEH1 ENSG00000171865|ENST00000315212|RNASEH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.79449462890625 2 491.791915 981.569278 3.6138 0.0017772 0.077827 3.8275E-05 3.6916 0.0018155 491.79184320790546 90.962 0.44604 91.213 90.977 91.423 0.25163 54 24 4 0 0 0 0.7471 1 41760 41760 0.79363 0 1 3260300 20637 4839 12928 12984 24090 24090 0.07775574159984444 NGRSLLRP 8 Unmodified _NGRSLLRP_ 0 0 0 ENSG00000173546|ENST00000308508|CSPG4 ENSG00000173546|ENST00000308508|CSPG4 ENSG00000173546|ENST00000308508|CSPG4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.7736511230469 2 456.772326 911.530098 2.7726 0.0012664 0.93495 0.00042706 3.7075 0.0016935 456.7725016773706 84.163 0.39468 84.411 84.209 84.604 0.24758 55 21 4 0 0 0 0.70799 2 38694 38694;38746 5.2307 0 1 2441500 20638 4938 12929 12985 24091;24092 24091 0.07079429085763422 NGRSLLRP 8 Unmodified _NGRSLLRP_ 0 0 0 ENSG00000173546|ENST00000308508|CSPG4 ENSG00000173546|ENST00000308508|CSPG4 ENSG00000173546|ENST00000308508|CSPG4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.7729797363281 2 456.772326 911.530098 3.0894 0.0014112 0.050175 2.2918E-05 3.1396 0.0014341 456.77221093474145 83.855 0.38664 84.518 84.288 84.675 0.66219 62 24 4 0 0 0 0.70799 1 38665 38665 5.2307 0 1 3334500 20639 4938 12929 12985 24093 24093 0.07079429085763422 NGSIKPAPR 9 Unmodified _NGSIKPAPR_ 0 0 0 ENST00000460613.5_1_3:188925173-188937392:+|nuORF ENST00000460613.5_1_3:188925173-188937392:+|nuORF ENST00000460613.5_1_3:188925173-188937392:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.2738037109375 2 470.272158 938.529764 2.8147 0.0013237 0.48364 0.00022744 3.2983 0.0015511 470.2722753005348 83.311 0.27801 83.558 83.466 83.744 0.24722 22 15 2 0 0 0 1.1022 1 38367 38367 1.6526 0 1 179830 20640 8073 12930 12986 24094 24094 0.058040093658974 NGSIKPAPR 9 Unmodified _NGSIKPAPR_ 0 0 0 ENST00000460613.5_1_3:188925173-188937392:+|nuORF ENST00000460613.5_1_3:188925173-188937392:+|nuORF ENST00000460613.5_1_3:188925173-188937392:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.273681640625 2 470.272158 938.529764 3.0381 0.0014287 0.25327 0.00011911 3.2914 0.0015478 470.2721327054437 86.742 0.29778 86.992 86.907 87.204 0.24974 29 13 3 0 0 0 1.0755 1 39986 39986 2.0598 1.535 1 1812300 20641 8073 12930 12986 24095 24095 0.058040093658974 NGSSGGGG 8 Unmodified _NGSSGGGG_ 0 0 0 REV__nc|ENSG00000276644|Q9UI36-4|DACH1 REV__nc|ENSG00000276644|Q9UI36-4|DACH1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.3566284179688 1 592.232144 591.224868 2.7548 0.0016315 2.352 0.001393 5.1068 0.0030244 592.2338002136363 82.543 0.041199 82.627 82.599 82.64 0.084106 5 3 2 0 0 0 0.14355 1 40779 40779 0 0 1 919670 + 20642 14742 12931 12987 24096 24096 -0.08709586778263656 NGSSKSKL 8 Unmodified _NGSSKSKL_ 0 0 0 REV__ENSG00000156172|ENST00000286688|CFAP418 REV__ENSG00000156172|ENST00000286688|CFAP418 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 410.7306823730469 2 410.729792 819.445031 3.559 0.0014618 -1.2449 -0.00051133 2.3141 0.00095047 410.7290597403423 93.365 0.59092 93.62 93.308 93.899 0.25497 58 28 3 0 0 0 0.7471 1 42927 42927 0.79363 0 1 956140 + 20643 12766 12932 12988 24097 24097 0.028086388292877018 NGSSKSKL 8 Unmodified _NGSSKSKL_ 0 0 0 REV__ENSG00000156172|ENST00000286688|CFAP418 REV__ENSG00000156172|ENST00000286688|CFAP418 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 410.729792 819.445031 3.1602 0.001298 -1.1816 -0.00048532 1.9786 0.00081266 410.72911530502415 93.31 0.63125 93.941 93.609 94.24 0.63115 0.16065 2.2382E-05 NaN 0.79363 60 30 3 NaN NaN NaN NaN 0 NaN NaN 0 830540 + 20644 12766 12932 12988 0.028086388292877018 NGTHRLVV 8 Unmodified _NGTHRLVV_ 0 0 0 REV__ENST00000567420.1_1_16:15141297-15141917:-|nuORF REV__ENST00000567420.1_1_16:15141297-15141917:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 448.2602844238281 2 448.259051 894.503549 2.8418 0.0012739 0.27991 0.00012547 3.1217 0.0013993 448.2590767657083 84.159 0.41122 84.407 84.193 84.604 0.24757 56 22 4 0 0 0 0.7471 1 38790 38790 0.79363 0 1 2930300 + 20645 12792 12933 12989 24098 24098 0.05207740194430244 NGTMEPSGEVP 11 Unmodified _NGTMEPSGEVP_ 0 0 0 ENST00000254846.9_1_17:7748945-7749936:+|nuORF;KDM6B|p.P36Lfs*162|1|0.31|ENSG00000132510|chr17:7845657-7845657|C/-|frameshift_variant ENST00000254846.9_1_17:7748945-7749936:+|nuORF ENST00000254846.9_1_17:7748945-7749936:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.2462158203125 2 559.245146 1116.47574 NaN NaN NaN NaN NaN NaN NaN 28.076 1 28.862 28.362 29.362 0.78627 0 0 0 1.0041 1 12636 12636 5.2969 0.39987 1 20646 6514 12934 12990 24099 24099 -0.07783995638624219 NGYKRVLAL 9 Unmodified _NGYKRVLAL_ 0 0 0 nc|ENSG00000089157|P05388-2|RPLP0;nc|ENSG00000213553|Q8NHW5|RPLP0P6;ENSG00000089157|ENST00000392514|RPLP0 nc|ENSG00000089157|P05388-2|RPLP0 nc|ENSG00000089157|P05388-2|RPLP0 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.3132934570312 2 517.311284 1032.60801 NaN NaN NaN NaN NaN NaN NaN 35.05 1 35.05 34.55 35.55 0 0 0 0 0.015961 1 15895 15895 78.149 51.266 1 20647 1035 12935 12991 24100 24100 0.09301441951129163 NGYKRVLAL 9 Unmodified _NGYKRVLAL_ 0 0 0 nc|ENSG00000089157|P05388-2|RPLP0;nc|ENSG00000213553|Q8NHW5|RPLP0P6;ENSG00000089157|ENST00000392514|RPLP0 nc|ENSG00000089157|P05388-2|RPLP0 nc|ENSG00000089157|P05388-2|RPLP0 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.3132934570312 2 517.311284 1032.60801 NaN NaN NaN NaN NaN NaN NaN 34.93 1 35.185 34.685 35.685 0.25524 0 0 0 0.0026876 1 15916 15916 96.285 60.158 1 20648 1035 12935 12991 24101 24101 0.09301441951129163 NGYKRVLAL 9 Unmodified _NGYKRVLAL_ 0 0 0 nc|ENSG00000089157|P05388-2|RPLP0;nc|ENSG00000213553|Q8NHW5|RPLP0P6;ENSG00000089157|ENST00000392514|RPLP0 nc|ENSG00000089157|P05388-2|RPLP0 nc|ENSG00000089157|P05388-2|RPLP0 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.3125 2 517.311284 1032.60801 3.3726 0.0017447 -0.17765 -9.1902E-05 3.195 0.0016528 517.3110740931834 34.489 0.304 35.112 34.919 35.223 0.62294 24 10 3 0 0 0 0.012748 1 15800 15800 78.149 51.266 1 714790 20649 1035 12935 12991 24102 24102 0.09301441951129163 NGYKRVLAL 9 Unmodified _NGYKRVLAL_ 0 0 0 nc|ENSG00000089157|P05388-2|RPLP0;nc|ENSG00000213553|Q8NHW5|RPLP0P6;ENSG00000089157|ENST00000392514|RPLP0 nc|ENSG00000089157|P05388-2|RPLP0 nc|ENSG00000089157|P05388-2|RPLP0 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 517.311284 1032.60801 3.1291 0.0016187 0.22365 0.00011569 3.3528 0.0017344 517.3114248716874 34.132 0.25254 34.921 34.751 35.003 0.78921 -0.095314 0.00032433 NaN 78.149 21 14 2 NaN NaN NaN NaN 0 NaN NaN 0 413080 20650 1035 12935 12991 0.09301441951129163 NHAEAGTP 8 Unmodified _NHAEAGTP_ 0 0 0 REV__ENST00000502875.1_1_4:141563950-141565549:-|nuORF REV__ENST00000502875.1_1_4:141563950-141565549:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.68463134765625 2 398.682842 795.351131 NaN NaN NaN NaN NaN NaN NaN 92.552 1 93.199 92.699 93.699 0.64714 0 0 0 0.99035 1 42581 42581 2.5775 0 1 + 20651 16897 12936 12992 24103 24103 -0.05473080272986408 NHIKVEYDF 9 Unmodified _NHIKVEYDF_ 0 0 0 REV__nc|ENSG00000091181|Q01344-3|IL5RA REV__nc|ENSG00000091181|Q01344-3|IL5RA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.7941284179688 2 582.787838 1163.56112 NaN NaN NaN NaN NaN NaN NaN 43.546 1 44.361 43.861 44.861 0.81444 0 0 0 0.87786 1 19823 19823 6.7232 0 1 + 20652 10730 12937 12993 24104 24104 -0.014114623906834822 NHVRHLHKRV 10 Unmodified _NHVRHLHKRV_ 0 0 0 CUL2|p.V577Efs*14|1|0.06|ENSG00000108094|chr10:35016349-35016350|-/TATT|frameshift_variant;CUL2|p.V577Mfs*18|1|0.06|ENSG00000108094|chr10:35016350-35016351|-/CAAAGAATTTAAGCAT|frameshift_variant;ENSG00000108094|ENST00000374749|CUL2;nc|ENSG00000108094|Q13617-2|CUL2 CUL2|p.V577Efs*14|1|0.06|ENSG00000108094|chr10:35016349-35016350|-/TATT|frameshift_variant CUL2|p.V577Efs*14|1|0.06|ENSG00000108094|chr10:35016349-35016350|-/TATT|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 648.6363525390625 2 648.381429 1294.7483 3.8586 0.0025018 0.46506 0.00030154 4.3236 0.0028034 648.3817565416895 7.5204 0.087493 7.5204 7.4875 7.575 0 16 11 2 0 0 0 0.12676 1 3414 3414 0.40072 0 1 37877 20653 253 12938 12994 24105 24105 0.11272038728043299 NHVRHLHKRV 10 Unmodified _NHVRHLHKRV_ 0 0 0 CUL2|p.V577Efs*14|1|0.06|ENSG00000108094|chr10:35016349-35016350|-/TATT|frameshift_variant;CUL2|p.V577Mfs*18|1|0.06|ENSG00000108094|chr10:35016350-35016351|-/CAAAGAATTTAAGCAT|frameshift_variant;ENSG00000108094|ENST00000374749|CUL2;nc|ENSG00000108094|Q13617-2|CUL2 CUL2|p.V577Efs*14|1|0.06|ENSG00000108094|chr10:35016349-35016350|-/TATT|frameshift_variant CUL2|p.V577Efs*14|1|0.06|ENSG00000108094|chr10:35016349-35016350|-/TATT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.3840942382812 2 648.381429 1294.7483 NaN NaN NaN NaN NaN NaN NaN 4.4152 1 4.7802 4.2802 5.2802 0.36497 0 0 0 1.0015 1 2003 2003 0.40072 0 1 20654 253 12938 12994 24106 24106 0.11272038728043299 NHYQKREYQC 10 Unmodified _NHYQKREYQC_ 0 0 0 USP9X|p.A2384E|1|0.74|ENSG00000124486|chrX:41229342-41229342|C/A|missense_variant USP9X|p.A2384E|1|0.74|ENSG00000124486|chrX:41229342-41229342|C/A|missense_variant USP9X|p.A2384E|1|0.74|ENSG00000124486|chrX:41229342-41229342|C/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.8761901855469 3 456.875299 1367.60407 NaN NaN NaN NaN NaN NaN NaN 27.095 1 27.873 27.373 28.373 0.7787 0 0 0 1.0015 1 12177 12177 0.13989 0.04505 1 20655 18289 12939 12995 24107 24107 -0.06503015604880602 NIAGHRVFLF 10 Unmodified _NIAGHRVFLF_ 0 0 0 ENST00000379589.3_1_13:39917692-39917869:-|nuORF ENST00000379589.3_1_13:39917692-39917869:-|nuORF ENST00000379589.3_1_13:39917692-39917869:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.8901062011719 3 391.889097 1172.64546 2.8918 0.0011332 -0.1898 -7.438E-05 2.702 0.0010589 391.8890250134023 35.569 0.59706 35.825 35.509 36.106 0.25524 51 20 3 0 0 0 0.27335 1 16218 16218 20.581 0.95498 1 4393500 20656 7452 12940 12996 24108 24108 0.06604533216750497 NIAGPDAAL 9 Unmodified _NIAGPDAAL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 841.4445190429688 1 841.441409 840.434132 3.7168 0.0031275 0.31873 0.00026819 4.0355 0.0033957 841.4416523332317 48.161 0.27851 48.161 48.011 48.289 0 27 11 3 0 0 0 0.0028306 2 22063 22013;22063 96.285 29.052 1 1034400 20657 2385 12941 12997 24109;24110 24110 0.0075323645500020575 NIAGPDAAL 9 Unmodified _NIAGPDAAL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.2256164550781 2 421.224342 840.434132 2.7757 0.0011692 0.5449 0.00022953 3.3206 0.0013987 421.2245362754054 48.181 0.33015 48.181 47.994 48.324 0 31 15 3 0 0 0 0.043585 2 22075 22019;22075 49.933 3.912 1 1701200 20658 2385 12941 12997 24111;24112 24112 0.0075323645500020575 NIAGPDAAL 9 Unmodified _NIAGPDAAL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 841.443603515625 1 841.441409 840.434132 3.5001 0.0029451 0.30596 0.00025744 3.8061 0.0032026 841.4416190213798 47.246 0.29989 48.076 47.915 48.215 0.82915 27 16 2 0 0 0 0.0063542 1 21541 21541 88.954 19.849 1 937800 20659 2385 12941 12997 24113 24113 0.0075323645500020575 NIAGPDAAL 9 Unmodified _NIAGPDAAL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.22625732421875 2 421.224342 840.434132 2.6034 0.0010966 1.0481 0.00044147 3.6514 0.0015381 421.22473935260626 47.263 0.36971 48.092 47.878 48.248 0.82915 46 21 3 0 0 0 0.079031 1 21551 21551 37.974 1.847 1 1560400 20660 2385 12941 12997 24114 24114 0.0075323645500020575 NIAGPDAAL 9 Unmodified _NIAGPDAAL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.22607421875 2 421.224342 840.434132 3.1283 0.0013177 0.27389 0.00011537 3.4022 0.0014331 421.22448227951026 48.031 0.39928 48.293 48.058 48.457 0.26209 35 15 3 0 0 0 0.052704 2 21951 21898;21951 46.021 11.09 1 1470400 20661 2385 12941 12997 24115;24116 24116 0.0075323645500020575 NIAGPDAAL 9 Unmodified _NIAGPDAAL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 841.4456176757812 1 841.441409 840.434132 4.0858 0.0034379 1.1855 0.00099756 5.2713 0.0044355 841.4425894034637 48.014 0.32315 48.276 48.134 48.457 0.26209 21 12 2 0 0 0 0.0028306 1 21948 21948 96.285 17.557 1 885840 20662 2385 12941 12997 24117 24117 0.0075323645500020575 NIAGPDAAL 9 Unmodified _NIAGPDAAL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 841.4444580078125 1 841.441409 840.434132 3.9449 0.0033194 0.15977 0.00013444 4.1046 0.0034538 841.4417267971394 47.455 0.37713 48.108 47.92 48.297 0.65356 30 15 3 0 0 0 0.0016284 2 21738 21694;21738 108 36.863 1 906250 20663 2385 12941 12997 24118;24119 24119 0.0075323645500020575 NIAGPDAAL 9 Unmodified _NIAGPDAAL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.22552490234375 2 421.224342 840.434132 3.0065 0.0012664 0.35449 0.00014932 3.361 0.0014157 421.22453918203917 47.457 0.39634 48.11 47.901 48.297 0.65356 35 16 3 0 0 0 0.029308 1 21739 21739 56.177 12.319 1 918120 20664 2385 12941 12997 24120 24120 0.0075323645500020575 NIARVRFVY 9 Unmodified _NIARVRFVY_ 0 0 0 REV__nc|ENSG00000101605|P52179-2|MYOM1 REV__nc|ENSG00000101605|P52179-2|MYOM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.4752807617188 2 569.330008 1136.64546 NaN NaN NaN NaN NaN NaN NaN 94.741 1 94.823 94.323 95.323 0.082001 0 0 0 0.84134 1 49920 49920 7.9102 0 1 + 20665 10905 12942 12998 24121 24121 0.08260533216753174 NIAVLLPLLFV 11 Unmodified _NIAVLLPLLFV_ 0 0 0 REV__ENSG00000176900|ENST00000322049|OR51T1 REV__ENSG00000176900|ENST00000322049|OR51T1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 605.9263305664062 2 606.391742 1210.76893 NaN NaN NaN NaN NaN NaN NaN 68.333 1 68.333 67.833 68.833 0 0 0 0 0.98464 1 32896 32896 8.1555 2.8586 1 + 20666 13714 12943 12999 24122 24122 0.17197771544510942 NIDFFYLRFHV 11 Unmodified _NIDFFYLRFHV_ 0 0 0 REV__ENST00000469535.5_1_1:207934598-207940656:+|nuORF REV__ENST00000469535.5_1_1:207934598-207940656:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.92059326171875 3 490.922467 1469.74557 NaN NaN NaN NaN NaN NaN NaN 77.307 1 77.307 76.807 77.807 0 0 0 0 1.0071 1 37907 37907 1.4551 0.44154 1 + 20667 16578 12944 13000 24123 24123 0.02948725759847548 NIDFNRWHYEH 11 Unmodified _NIDFNRWHYEH_ 0 0 0 nc|ENSG00000172915|Q8NFP9|NBEA;ENSG00000172915|ENST00000379939|NBEA;nc|ENSG00000172915|Q8NFP9-2|NBEA;nc|ENSG00000172915|Q8NFP9-3|NBEA nc|ENSG00000172915|Q8NFP9|NBEA nc|ENSG00000172915|Q8NFP9|NBEA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 511.1914367675781 3 510.900613 1529.68001 NaN NaN NaN NaN NaN NaN NaN 64.588 1 65.303 64.803 65.803 0.71521 0 0 0 1.0072 1 30434 30434 0.45452 0 1 20668 4902 12945 13001 24124 24124 -0.06364295433104417 NIDVREPEL 9 Unmodified _NIDVREPEL_ 0 0 0 ENSG00000153201|ENST00000283195|RANBP2;RANBP2|p.T2182Hfs*3|1|0.08|ENSG00000153201|chr2:108767080-108767080|A/-|frameshift_variant ENSG00000153201|ENST00000283195|RANBP2 ENSG00000153201|ENST00000283195|RANBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.7874145507812 2 542.785296 1083.55604 NaN NaN NaN NaN NaN NaN NaN 48.175 1 48.437 47.937 48.937 0.26209 0 0 0 0.31736 1 22020 22020 26.268 7.0112 1 20669 3777 12946 13002 24125 24125 0.01760233746722406 NIEGPDAKL 9 Unmodified _NIEGPDAKL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.7570495605469 2 478.756007 955.497461 2.8934 0.0013852 -0.0199 -9.527E-06 2.8735 0.0013757 478.75598267748467 33.441 0.33486 33.441 33.271 33.606 0 97 38 3 0 0 0 0.002702 5 15149 15107;15149;15195;15200;15231 96.936 20.111 1 17465000 20670 2385 12947 13003 24126;24127;24128;24129;24130 24127 0.01793177172248761 NIEGPDAKL 9 Unmodified _NIEGPDAKL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.7571716308594 2 478.756007 955.497461 2.845 0.001362 0.15472 7.4074E-05 2.9997 0.0014361 478.75605946838334 32.397 0.48064 33.185 32.986 33.467 0.78795 115 38 4 0 0 0 0.011692 6 14625 14578;14584;14625;14671;14722;14732 79.596 6.6284 1 12201000 20671 2385 12947 13003 24131;24132;24133;24134;24135;24136 24133 0.01793177172248761 NIEGPDAKL 9 Unmodified _NIEGPDAKL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.7577209472656 2 478.756007 955.497461 3.1506 0.0015084 0.07526 3.6031E-05 3.2258 0.0015444 478.7560637227282 33.17 0.62436 33.424 33.204 33.829 0.25389 84 29 5 0 0 0 0.011692 6 15109 15037;15047;15054;15109;15157;15211 79.596 6.6559 1 10497000 20672 2385 12947 13003 24137;24138;24139;24140;24141;24142 24140 0.01793177172248761 NIEGPDAKL 9 Unmodified _NIEGPDAKL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.75738525390625 2 478.756007 955.497461 3.0235 0.0014475 0.24274 0.00011621 3.2663 0.0015638 478.7561418453941 32.675 0.6082 33.294 33.005 33.613 0.61831 80 27 4 0 0 0 0.011692 4 14975 14930;14975;15025;15060 79.596 6.6284 1 9681200 20673 2385 12947 13003 24143;24144;24145;24146 24144 0.01793177172248761 NIFHMWRYYNF 11 Unmodified _NIFHMWRYYNF_ 0 0 0 ENSG00000157315|ENST00000288025|TMED6 ENSG00000157315|ENST00000288025|TMED6 ENSG00000157315|ENST00000288025|TMED6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.95166015625 3 530.915206 1589.72379 NaN NaN NaN NaN NaN NaN NaN 92.159 1 92.159 91.659 92.659 0 0 0 0 1.0082 1 48893 48893 0.094841 0.011491 1 20674 3946 12948 13004 24147 24147 -0.04748402260315743 NIFKLLLIHV 10 Unmodified _NIFKLLLIHV_ 0 0 0 REV__ENST00000319715.8_2_16:24551838-24551922:+|nuORF REV__ENST00000319715.8_2_16:24551838-24551922:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.1994934082031 4 303.198405 1208.76451 2.1645 0.00065628 1.3403 0.00040639 3.5049 0.0010627 303.1987491226491 42.145 0.24839 42.953 42.72 42.968 0.80856 26 15 2 0 0 0 0.94099 1 19058 19058 0.69767 0.07084 1 4739900 + 20675 15311 12949 13005 24148 24148 0.1684830712160874 NIFKLLLIHV 10 Unmodified _NIFKLLLIHV_ 0 0 0 REV__ENST00000319715.8_2_16:24551838-24551922:+|nuORF REV__ENST00000319715.8_2_16:24551838-24551922:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 303.198405 1208.76451 1.859 0.00056366 0.96847 0.00029364 2.8275 0.00085729 303.19858701720193 43.004 0.37179 43.004 42.673 43.045 0 0.029346 -0.00049511 NaN 0.69767 21 19 2 NaN NaN NaN NaN 0 NaN NaN 0 1588300 + 20676 15311 12949 13005 0.1684830712160874 NIFKLLLIHV 10 Unmodified _NIFKLLLIHV_ 0 0 0 REV__ENST00000319715.8_2_16:24551838-24551922:+|nuORF REV__ENST00000319715.8_2_16:24551838-24551922:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 303.198405 1208.76451 2.2679 0.00068763 1.3402 0.00040635 3.6081 0.001094 303.1987726817433 42.761 0.43913 43.031 42.605 43.044 0.27021 0.057085 -4.4257E-05 NaN 0.69767 26 20 2 NaN NaN NaN NaN 0 NaN NaN 0 5639600 + 20677 15311 12949 13005 0.1684830712160874 NIFKLLLIHV 10 Unmodified _NIFKLLLIHV_ 0 0 0 REV__ENST00000319715.8_2_16:24551838-24551922:+|nuORF REV__ENST00000319715.8_2_16:24551838-24551922:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 303.198405 1208.76451 2.2819 0.00069187 1.4958 0.00045351 3.7777 0.0011454 303.19890558668476 42.262 0.33621 42.909 42.832 43.168 0.64693 -0.065531 0.00014438 NaN 0.69767 66 27 3 NaN NaN NaN NaN 0 NaN NaN 0 2726600 + 20678 15311 12949 13005 0.1684830712160874 NIFLVQFRLKH 11 Unmodified _NIFLVQFRLKH_ 0 0 0 ENST00000261574.9_1_13:98674841-98674961:+|nuORF ENST00000261574.9_1_13:98674841-98674961:+|nuORF ENST00000261574.9_1_13:98674841-98674961:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 707.92578125 2 707.919521 1413.82449 NaN NaN NaN NaN NaN NaN NaN 96.296 1 96.574 96.074 97.074 0.27778 0 0 0 1.0073 1 44245 44245 1.1933 0 1 20679 6561 12950 13006 24149 24149 0.13412997784826075 NIFRIVDNHRF 11 Unmodified _NIFRIVDNHRF_ 0 0 0 REV__ENSG00000282419|ENST00000632372|TEX13D REV__ENSG00000282419|ENST00000632372|TEX13D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.74676513671875 3 477.593232 1429.75787 NaN NaN NaN NaN NaN NaN NaN 64.199 1 64.914 64.414 65.414 0.71521 0 0 0 1.0059 1 30223 30223 1.2148 0.70888 1 + 20680 14760 12951 13007 24150 24150 0.060177622229275585 NIFVLYVFK 9 Unmodified _NIFVLYVFK_ 0 0 0 ENST00000488625.6_1_10:31817466-31817604:+|nuORF ENST00000488625.6_1_10:31817466-31817604:+|nuORF ENST00000488625.6_1_10:31817466-31817604:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.8342895507812 2 571.83406 1141.65357 NaN NaN NaN NaN NaN NaN NaN 67.033 1 67.737 67.237 68.237 0.7047 0 0 0 0.89683 1 31814 31814 4.3292 0 1 20681 8371 12952 13008 24151 24151 0.08840667413528536 NIHKREMTFKR 11 Unmodified _NIHKREMTFKR_ 0 0 0 REV__ENST00000591790.5_1_19:56953420-56953624:-|nuORF REV__ENST00000591790.5_1_19:56953420-56953624:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 730.4010620117188 2 730.40117 1458.78779 NaN NaN NaN NaN NaN NaN NaN 72.903 1 73.162 72.662 73.662 0.25876 0 0 0 1.0072 1 33472 33472 1.3295 0 1 + 20682 17587 12953 13009 24152 24152 0.07674377896591977 NIHLTRSL 8 Unmodified _NIHLTRSL_ 0 0 0 nc|ENSG00000293247|Q96P09|BIRC8 nc|ENSG00000293247|Q96P09|BIRC8 nc|ENSG00000293247|Q96P09|BIRC8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 318.5232238769531 3 318.522414 952.545414 2.1964 0.00069961 -0.31801 -0.00010129 1.8784 0.00059832 318.52236200424255 28.317 0.2308 28.577 28.483 28.714 0.2602 23 15 2 0 0 0 0.65679 1 12903 12903 9.3831 0 1 280150 20683 9883 12954 13010 24153 24153 0.06724295882941078 NIHLTRSL 8 Unmodified _NIHLTRSL_ 0 0 0 nc|ENSG00000293247|Q96P09|BIRC8 nc|ENSG00000293247|Q96P09|BIRC8 nc|ENSG00000293247|Q96P09|BIRC8 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 318.522414 952.545414 2.0659 0.00065803 0.0005396 1.7187E-07 2.0664 0.0006582 318.52240449782875 27.947 0.15779 28.566 28.474 28.632 0.61947 -0.0055234 0.00014952 NaN 9.3831 17 10 2 NaN NaN NaN NaN 0 NaN NaN 0 156360 20684 9883 12954 13010 0.06724295882941078 NIILPKILAKL 11 Unmodified _NIILPKILAKL_ 0 0 0 ENSG00000165972|ENST00000344280|CCDC38 ENSG00000165972|ENST00000344280|CCDC38 ENSG00000165972|ENST00000344280|CCDC38 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 618.51220703125 2 618.426116 1234.83768 NaN NaN NaN NaN NaN NaN NaN 94.354 1 94.44 93.94 94.94 0.086212 0 0 0 1.008 1 49618 49618 0.35063 0 1 20685 4440 12955 13011 24154 24154 0.22965435844230342 NIIREEAVL 9 Unmodified _NIIREEAVL_ 0 0 0 nc|ENSG00000104067|Q07157-2|TJP1;nc|ENSG00000104067|Q07157|TJP1;ENSG00000104067|ENST00000614355|TJP1 nc|ENSG00000104067|Q07157-2|TJP1 nc|ENSG00000104067|Q07157-2|TJP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.2670288085938 2 528.806031 1055.59751 3.351 0.001772 1.2625 0.00066762 4.6135 0.0024397 528.806284229001 47.948 0.25123 48.602 48.534 48.785 0.65356 15 9 2 0 0 0 0.10127 1 21979 21979 12.241 2.8575 1 269680 20686 1423 12956 13012 24155 24155 0.07193414506036788 NIITRKGVQI 10 Unmodified _NIITRKGVQI_ 0 0 0 REV__ENSG00000183763|ENST00000331456|TRAIP REV__ENSG00000183763|ENST00000331456|TRAIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.2412414550781 3 381.239907 1140.69789 3.0012 0.0011442 0.78684 0.00029998 3.7881 0.0014442 381.240103499251 12.757 0.13537 13.399 13.345 13.48 0.64272 9 3 4 0 0 0 0.84709 1 5747 5747 3.3196 0.88486 1 843440 + 20687 13946 12957 13013 24156 24156 0.13317071559708893 NIKEKLFSL 9 Unmodified _NIKEKLFSL_ 0 0 0 ENSG00000127989|ENST00000351870|MTERF1 ENSG00000127989|ENST00000351870|MTERF1 ENSG00000127989|ENST00000351870|MTERF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.3292846679688 2 546.326599 1090.63865 3.5817 0.0019568 0.4739 0.00025891 4.0556 0.0022157 546.3267082994856 52.526 0.15334 52.789 52.701 52.855 0.26345 8 5 2 0 0 0 0.026853 1 24020 24020 59.368 7.9531 1 529860 20688 2496 12958 13014 24157 24157 0.09695175545516577 NIKEKLFSL 9 Unmodified _NIKEKLFSL_ 0 0 0 ENSG00000127989|ENST00000351870|MTERF1 ENSG00000127989|ENST00000351870|MTERF1 ENSG00000127989|ENST00000351870|MTERF1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 546.326599 1090.63865 2.6024 0.0014217 2.4459 0.0013363 5.0483 0.002758 546.8301388911309 51.66 0.09399 52.471 52.432 52.526 0.81065 -0.17503 0.0018871 NaN 59.368 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 228630 20689 2496 12958 13014 0.09695175545516577 NIKGLLKTL 9 Unmodified _NIKGLLKTL_ 0 0 0 DNAH10|p.Q3799Rfs*47|1|0.35|ENSG00000197653|chr12:123924415-123924415|C/-|frameshift_variant;nc|ENSG00000197653|Q8IVF4|DNAH10;ENSG00000197653|ENST00000673944|DNAH10 DNAH10|p.Q3799Rfs*47|1|0.35|ENSG00000197653|chr12:123924415-123924415|C/-|frameshift_variant DNAH10|p.Q3799Rfs*47|1|0.35|ENSG00000197653|chr12:123924415-123924415|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.3331604003906 2 500.331685 998.648816 2.9853 0.0014937 0.4549 0.0002276 3.4402 0.0017213 500.3320372337624 34.79 0.27917 35.579 35.447 35.726 0.78921 35 21 2 0 0 0 0.027384 1 15790 15790 58.679 8.7458 1 1376300 20690 270 12959 13015 24158 24158 0.1494378327075765 NIKGLLKTL 9 Unmodified _NIKGLLKTL_ 0 0 0 DNAH10|p.Q3799Rfs*47|1|0.35|ENSG00000197653|chr12:123924415-123924415|C/-|frameshift_variant;nc|ENSG00000197653|Q8IVF4|DNAH10;ENSG00000197653|ENST00000673944|DNAH10 DNAH10|p.Q3799Rfs*47|1|0.35|ENSG00000197653|chr12:123924415-123924415|C/-|frameshift_variant DNAH10|p.Q3799Rfs*47|1|0.35|ENSG00000197653|chr12:123924415-123924415|C/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.25506591796875 2 500.331685 998.648816 2.9327 0.0014673 0.99364 0.00049715 3.9263 0.0019645 500.3321970010847 43.865 0.087605 44.686 44.635 44.723 0.82075 7 5 2 0 0 0 0.098156 1 19958 19958 9.3831 0.035688 1 233590 20691 270 12959 13015 24159 24159 0.1494378327075765 NIKIKNGM 8 Unmodified _NIKIKNGM_ 0 0 0 ENSG00000101557|ENST00000261601|USP14 ENSG00000101557|ENST00000261601|USP14 ENSG00000101557|ENST00000261601|USP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 306.513427734375 3 306.51275 916.516422 1.9816 0.0006074 0.63314 0.00019406 2.6148 0.00080146 306.51291906064324 14.724 0.231 15.03 14.932 15.163 0.3069 30 18 2 0 0 0 0.70146 1 6642 6642 3.9444 0.3479 1 170770 20692 1300 12960 13016 24160 24160 0.05482435262297258 NIKKKKLYRR 10 Unmodified _NIKKKKLYRR_ 0 0 0 REV__ENST00000367696.6_1_1:173962170-173991250:-|nuORF REV__ENST00000367696.6_1_1:173962170-173991250:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 673.9407958984375 2 673.940788 1345.86702 NaN NaN NaN NaN NaN NaN NaN 63.534 1 63.534 63.034 64.034 0 0 0 0 0.99774 1 29903 29903 3.5965 0.60125 1 + 20693 15669 12961 13017 24161 24161 0.2079239291306294 NIKKVIWLFL 10 Unmodified _NIKKVIWLFL_ 0 0 0 REV__nc|ENSG00000169994|Q6PIF6-2|MYO7B REV__nc|ENSG00000169994|Q6PIF6-2|MYO7B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 425.2743835449219 3 425.272548 1272.79581 NaN NaN NaN NaN NaN NaN NaN 62.764 1 62.764 62.264 63.264 0 0 0 0 0.99995 1 29438 29438 1.7423 0.41263 1 + 20694 13416 12962 13018 24162 24162 0.1703288015569342 NIKNRKVHL 9 Unmodified _NIKNRKVHL_ 0 0 0 PRR16|p.E230K|1|0.05|ENSG00000184838|chr5:120686482-120686482|G/A|missense_variant PRR16|p.E230K|1|0.05|ENSG00000184838|chr5:120686482-120686482|G/A|missense_variant PRR16|p.E230K|1|0.05|ENSG00000184838|chr5:120686482-120686482|G/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.3497924804688 2 561.348732 1120.68291 NaN NaN NaN NaN NaN NaN NaN 69.344 1 70.047 69.547 70.547 0.70302 0 0 0 0.89683 1 33183 33183 4.3292 0 1 20695 9913 12963 13019 24163 24163 0.12739624482355794 NIKQKMQEL 9 Unmodified _NIKQKMQEL_ 0 0 0 nc|ENSG00000011426|Q9NQW6-2|ANLN;ENSG00000011426|ENST00000265748|ANLN nc|ENSG00000011426|Q9NQW6-2|ANLN nc|ENSG00000011426|Q9NQW6-2|ANLN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.87921142578125 3 377.877869 1130.61178 2.669 0.0010085 0.093954 3.5503E-05 2.7629 0.001044 377.87793617804266 23.017 0.21906 23.658 23.586 23.805 0.64051 49 30 2 0 0 0 0.49692 2 10473 10473;10519 12.241 5.1389 1 1285900 20696 415 12964 13020 24164;24165 24164 0.05169743662690962 NIKQKMQEL 9 Unmodified _NIKQKMQEL_ 0 0 0 nc|ENSG00000011426|Q9NQW6-2|ANLN;ENSG00000011426|ENST00000265748|ANLN nc|ENSG00000011426|Q9NQW6-2|ANLN nc|ENSG00000011426|Q9NQW6-2|ANLN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.3155517578125 2 566.313166 1130.61178 3.5429 0.0020064 0.26939 0.00015256 3.8123 0.002159 566.3134184795873 23.075 0.23827 23.716 23.567 23.805 0.64051 61 33 2 0 0 0 1.4684E-06 3 10518 10475;10518;10563 149.91 83.528 1 2324300 20697 415 12964 13020 24166;24167;24168 24167 0.05169743662690962 NIKQQNLRWL 10 Unmodified _NIKQQNLRWL_ 0 0 0 ENST00000258436.9_1_2:103334818-103334878:-|nuORF ENST00000258436.9_1_2:103334818-103334878:-|nuORF ENST00000258436.9_1_2:103334818-103334878:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 656.8805541992188 2 656.877853 1311.74115 NaN NaN NaN NaN NaN NaN NaN 80.356 1 80.356 79.856 80.856 0 0 0 0 0.99733 1 39877 39877 3.9444 0.66309 1 20698 6539 12965 13021 24169 24169 0.09775261336994845 NIKRFRRRSQR 11 Unmodified _NIKRFRRRSQR_ 0 0 0 REV__ENSG00000109756|ENST00000691494|RAPGEF2;REV__nc|ENSG00000158987|Q8TEU7-2|RAPGEF6 REV__ENSG00000109756|ENST00000691494|RAPGEF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 758.9544677734375 2 758.955824 1515.89709 NaN NaN NaN NaN NaN NaN NaN 60.533 1 61.272 60.772 61.772 0.7396 0 0 0 1.0072 1 27944 27944 1.3295 0.13619 1 + 20699 11177;12838 12966 13022 24170 24170 0.1597814463098075 NIKRGKHMDFL 11 Unmodified _NIKRGKHMDFL_ 0 0 0 nc|ENSG00000163166|Q96ST2-2|IWS1;nc|ENSG00000163166|Q96ST2-3|IWS1;IWS1|p.L692Sfs*51|1|0.05|ENSG00000163166|chr2:127489918-127489919|-/T|frameshift_variant;ENSG00000163166|ENST00000295321|IWS1 nc|ENSG00000163166|Q96ST2-2|IWS1 nc|ENSG00000163166|Q96ST2-2|IWS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 453.61981201171875 3 453.583568 1357.72887 NaN NaN NaN NaN NaN NaN NaN 67.588 1 68.29 67.79 68.79 0.70218 0 0 0 0.97845 1 32161 32161 4.4062 0.81909 1 20700 4199 12967 13023 24171 24171 0.06431901602309154 NIKRKNKHGW 10 Unmodified _NIKRKNKHGW_ 0 0 0 ENSG00000130312|ENST00000252602|MRPL34 ENSG00000130312|ENST00000252602|MRPL34 ENSG00000130312|ENST00000252602|MRPL34 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 640.8724975585938 2 640.870363 1279.72617 NaN NaN NaN NaN NaN NaN NaN 67.832 1 67.832 67.332 68.332 0 0 0 0 0.99464 1 32594 32594 6.2058 0.47393 1 20701 2587 12968 13024 24172 24172 0.09749814259635059 NIKSIFII 8 Unmodified _NIKSIFII_ 0 0 0 ENST00000462992.1_1_1:171292253-171302174:+|nuORF ENST00000462992.1_1_1:171292253-171302174:+|nuORF ENST00000462992.1_1_1:171292253-171302174:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.3009338378906 2 474.299853 946.585153 NaN NaN NaN NaN NaN NaN NaN 75.116 1 75.374 74.874 75.874 0.25831 0 0 0 0.967 1 34554 34554 7.9102 1.5561 1 20702 8098 12969 13025 24173 24173 0.10972422833663131 NIKSIFII 8 Unmodified _NIKSIFII_ 0 0 0 ENST00000462992.1_1_1:171292253-171302174:+|nuORF ENST00000462992.1_1_1:171292253-171302174:+|nuORF ENST00000462992.1_1_1:171292253-171302174:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.3023986816406 2 474.299853 946.585153 NaN NaN NaN NaN NaN NaN NaN 75.127 1 75.385 74.885 75.885 0.25831 0 0 0 0.37748 1 34560 34560 32.305 5.4218 1 20703 8098 12969 13025 24174 24174 0.10972422833663131 NILKISFKRKK 11 Unmodified _NILKISFKRKK_ 0 0 0 nc|ENSG00000070159|P26045-3|PTPN3;nc|ENSG00000070159|P26045-2|PTPN3;ENSG00000070159|ENST00000374541|PTPN3 nc|ENSG00000070159|P26045-3|PTPN3 nc|ENSG00000070159|P26045-3|PTPN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 687.9512329101562 2 687.950821 1373.88709 NaN NaN NaN NaN NaN NaN NaN 64.855 1 64.855 64.355 65.355 0 0 0 0 1.0063 1 30807 30807 2.4985 1.0166 1 20704 760 12970 13026 24175 24175 0.2151014385299277 NIMEPSLLQF 10 Unmodified _NIMEPSLLQF_ 0 0 0 nc|ENSG00000077254|Q8TEY7-3|USP33;USP33|p.E841Rfs*22|1|0.25|ENSG00000077254|chr1:77701451-77701451|T/-|frameshift_variant;ENSG00000077254|ENST00000370794|USP33;nc|ENSG00000077254|Q8TEY7|USP33 nc|ENSG00000077254|Q8TEY7-3|USP33 nc|ENSG00000077254|Q8TEY7-3|USP33 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 596.3063354492188 2 596.307549 1190.60055 NaN NaN NaN NaN NaN NaN NaN 76.385 1 77.049 76.549 77.549 0.66387 0 0 0 0.99774 1 35188 35188 3.5965 0 1 20705 859 12971 13027 24176 24176 0.012869215685441304 NINSILDRPRL 11 Unmodified _NINSILDRPRL_ 0 0 0 REV__ENSG00000109471|ENST00000226730|IL2 REV__ENSG00000109471|ENST00000226730|IL2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.2007141113281 4 328.443935 1309.74663 2.1607 0.00070967 1.5617 0.00051293 3.7224 0.0012226 328.44439592077407 44.288 0.22934 44.557 44.503 44.732 0.2694 13 9 2 0 0 0 0.13295 1 20273 20273 1.3296 0.63198 1 1051700 + 20706 11171 12972 13028 24177 24177 0.10414940128771377 NIPWYQSMFNW 11 Unmodified _NIPWYQSMFNW_ 0 0 0 nc|ENSG807|P61550|ERVS71-1 nc|ENSG807|P61550|ERVS71-1 nc|ENSG807|P61550|ERVS71-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.0088806152344 3 495.892179 1484.65471 NaN NaN NaN NaN NaN NaN NaN 61.132 1 61.871 61.371 62.371 0.7396 0 0 0 1.0072 1 28308 28308 0.45452 0 1 20707 9887 12973 13029 24178 24178 -0.06823486279881763 NIPWYQSMFNW 11 Unmodified _NIPWYQSMFNW_ 0 0 0 nc|ENSG807|P61550|ERVS71-1 nc|ENSG807|P61550|ERVS71-1 nc|ENSG807|P61550|ERVS71-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.8726501464844 3 495.892179 1484.65471 NaN NaN NaN NaN NaN NaN NaN 72.031 1 72.694 72.194 73.194 0.66324 0 0 0 1.0072 1 33017 33017 0.45452 0 1 20708 9887 12973 13029 24179 24179 -0.06823486279881763 NIQISEKFRE 10 Unmodified _NIQISEKFRE_ 0 0 0 REV__nc|ENSG00000165115|Q86VH2-3|KIF27 REV__nc|ENSG00000165115|Q86VH2-3|KIF27 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 632.0546264648438 2 632.338227 1262.6619 NaN NaN NaN NaN NaN NaN NaN 83.276 1 83.936 83.436 84.436 0.66019 0 0 0 0.99464 1 38357 38357 6.2058 0 1 + 20709 13137 12974 13030 24180 24180 0.04107569592179061 NIQRKYLKHQT 11 Unmodified _NIQRKYLKHQT_ 0 0 0 nc|ENSG00000163554|P02549-2|SPTA1;ENSG00000163554|ENST00000643759|SPTA1 nc|ENSG00000163554|P02549-2|SPTA1 nc|ENSG00000163554|P02549-2|SPTA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 714.9066772460938 2 714.907142 1427.79973 NaN NaN NaN NaN NaN NaN NaN 61.185 1 61.925 61.425 62.425 0.7396 0 0 0 0.98464 1 28338 28338 8.1555 3.6267 1 20710 4224 12975 13031 24181 24181 0.10294317911439066 NIRKFILERNR 11 Unmodified _NIRKFILERNR_ 0 0 0 ENST00000593450.1_1_19:22654203-22654530:+|nuORF ENST00000593450.1_1_19:22654203-22654530:+|nuORF ENST00000593450.1_1_19:22654203-22654530:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.3698425292969 3 486.959915 1457.85791 NaN NaN NaN NaN NaN NaN NaN 64.938 1 65.647 65.147 66.147 0.70891 0 0 0 1.0079 1 30623 30623 0.45452 0 1 20711 9257 12976 13032 24182 24182 0.14729999556743678 NIRKKADL 8 Unmodified _NIRKKADL_ 0 0 0 REV__ENSG00000055163|ENST00000620254|CYFIP2 REV__ENSG00000055163|ENST00000620254|CYFIP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 319.8669738769531 3 319.866181 956.576714 2.1733 0.00069518 -0.71403 -0.0002284 1.4593 0.00046679 319.8659751357654 13.537 0.18201 13.537 13.436 13.618 0 52 31 2 0 0 0 0.17174 1 5934 5934 46.021 11.619 1 6381300 + 20712 10369 12977 13033 24183 24183 0.09668868917037798 NIRKKADL 8 Unmodified _NIRKKADL_ 0 0 0 REV__ENSG00000055163|ENST00000620254|CYFIP2 REV__ENSG00000055163|ENST00000620254|CYFIP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 319.8668212890625 3 319.866181 956.576714 1.9109 0.00061124 0.05942 1.9007E-05 1.9704 0.00063025 319.8661920925755 12.952 0.2089 13.195 13.087 13.296 0.24346 43 17 3 0 0 0 0.36624 1 5661 5661 30.637 0 1 7617300 + 20713 10369 12977 13033 24184 24184 0.09668868917037798 NIRKSKKK 8 Unmodified _NIRKSKKK_ 0 0 0 ENSG00000160818|ENST00000368232|GPATCH4;nc|ENSG00000160818|Q5T3I0-3|GPATCH4 ENSG00000160818|ENST00000368232|GPATCH4 ENSG00000160818|ENST00000368232|GPATCH4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.5183410644531 2 501.33255 1000.65055 NaN NaN NaN NaN NaN NaN NaN 68.818 1 69.52 69.02 70.02 0.70218 0 0 0 0.99035 1 32841 32841 5.2307 0 1 20714 4082 12978 13034 24185 24185 0.1502483707937472 NIRKSKKKKR 10 Unmodified _NIRKSKKKKR_ 0 0 0 ENSG00000160818|ENST00000368232|GPATCH4;nc|ENSG00000160818|Q5T3I0-3|GPATCH4 ENSG00000160818|ENST00000368232|GPATCH4 ENSG00000160818|ENST00000368232|GPATCH4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 643.430908203125 2 643.430587 1284.84662 NaN NaN NaN NaN NaN NaN NaN 74.926 1 75.184 74.684 75.684 0.25831 0 0 0 1.0015 1 34466 34466 0.45834 0 1 20715 4082 12979 13035 24186 24186 0.21559222253267762 NIRKVRKKVK 10 Unmodified _NIRKVRKKVK_ 0 0 0 ADNP2|p.K740Sfs*3|1|0.37|ENSG00000101544|chr18:80137630-80137630|A/-|frameshift_variant;ADNP2|p.K753*|1|0.04|ENSG00000101544|chr18:80137668-80137669|-/T|frameshift_variant;ENSG00000101544|ENST00000262198|ADNP2 ADNP2|p.K740Sfs*3|1|0.37|ENSG00000101544|chr18:80137630-80137630|A/-|frameshift_variant ADNP2|p.K740Sfs*3|1|0.37|ENSG00000101544|chr18:80137630-80137630|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 634.9371337890625 2 634.935506 1267.85646 NaN NaN NaN NaN NaN NaN NaN 75.317 1 75.982 75.482 76.482 0.6644 0 0 0 1.0001 1 34695 34695 1.6526 0.17072 1 20716 14 12980 13036 24187 24187 0.23324410258624084 NIRLKRPLKM 10 Unmodified _NIRLKRPLKM_ 0 0 0 ENSG00000178445|ENST00000321612|GLDC ENSG00000178445|ENST00000321612|GLDC ENSG00000178445|ENST00000321612|GLDC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 634.9017333984375 2 634.902817 1267.79108 NaN NaN NaN NaN NaN NaN NaN 66.86 1 67.565 67.065 68.065 0.7047 0 0 0 0.99774 1 31721 31721 3.5965 0.31518 1 20717 5168 12981 13037 24188 24188 0.1678967274126535 NIRLKRRRLME 11 Unmodified _NIRLKRRRLME_ 0 0 0 REV__ENST00000263073.10_1_17:2203445-2203508:-|nuORF REV__ENST00000263073.10_1_17:2203445-2203508:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.6134338378906 3 495.636666 1483.88817 NaN NaN NaN NaN NaN NaN NaN 69.65 1 70.353 69.853 70.853 0.70302 0 0 0 1.0072 1 33343 33343 0.45452 0.046251 1 + 20718 14996 12982 13038 24189 24189 0.16558034950276124 NIRQKVKEL 9 Unmodified _NIRQKVKEL_ 0 0 0 ENSG00000113282|ENST00000411809|CLINT1;nc|ENSG00000113282|Q14677-2|CLINT1;nc|ENSG00000113282|Q14677-3|CLINT1 ENSG00000113282|ENST00000411809|CLINT1 ENSG00000113282|ENST00000411809|CLINT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.5689697265625 3 376.568024 1126.68224 2.2801 0.0008586 -0.15057 -5.6699E-05 2.1295 0.0008019 376.5678421044031 13.361 0.24503 13.669 13.545 13.79 0.30727 43 19 3 0 0 0 0.78763 1 6000 6000 7.609 2.3121 1 255040 20719 1844 12983 13039 24190 24190 0.12396785042665215 NIRQKVKEL 9 Unmodified _NIRQKVKEL_ 0 0 0 ENSG00000113282|ENST00000411809|CLINT1;nc|ENSG00000113282|Q14677-2|CLINT1;nc|ENSG00000113282|Q14677-3|CLINT1 ENSG00000113282|ENST00000411809|CLINT1 ENSG00000113282|ENST00000411809|CLINT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.5693054199219 3 376.568024 1126.68224 2.9049 0.0010939 -0.48467 -0.00018251 2.4203 0.0009114 376.56788005142073 12.936 0.19316 13.579 13.48 13.673 0.64272 13 5 3 0 0 0 0.053359 1 5817 5817 45.74 12.295 1 416220 20720 1844 12983 13039 24191 24191 0.12396785042665215 NIRQKVKEL 9 Unmodified _NIRQKVKEL_ 0 0 0 ENSG00000113282|ENST00000411809|CLINT1;nc|ENSG00000113282|Q14677-2|CLINT1;nc|ENSG00000113282|Q14677-3|CLINT1 ENSG00000113282|ENST00000411809|CLINT1 ENSG00000113282|ENST00000411809|CLINT1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 376.568024 1126.68224 2.1929 0.00082578 -0.047058 -1.772E-05 2.1459 0.00080806 376.56791271694135 13.454 0.14908 13.698 13.559 13.708 0.24346 0.049336 0.00013938 NaN 45.74 19 11 2 NaN NaN NaN NaN 0 NaN NaN 0 339770 20721 1844 12983 13039 0.12396785042665215 NIRRIAEVAK 10 Unmodified _NIRRIAEVAK_ 0 0 0 nc|ENSG00000198682|O95340|PAPSS2;ENSG00000198682|ENST00000456849|PAPSS2 nc|ENSG00000198682|O95340|PAPSS2 nc|ENSG00000198682|O95340|PAPSS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.57647705078125 3 390.57529 1168.70404 NaN NaN NaN NaN NaN NaN NaN 12.443 1 13.086 12.586 13.586 0.64272 0 0 0 0.96627 1 5576 5576 6.1918 1.4759 1 20722 5914 12984 13040 24192 24192 0.126435897912188 NIRRPLVK 8 Unmodified _NIRRPLVK_ 0 0 0 nc|ENSG00000143164|Q58WW2|DCAF6;nc|ENSG00000143164|Q58WW2-2|DCAF6;nc|ENSG00000143164|Q58WW2-4|DCAF6;ENSG00000143164|ENST00000367840|DCAF6;ENST00000478668.1_1_1:168014424-168033024:+|nuORF nc|ENSG00000143164|Q58WW2|DCAF6 nc|ENSG00000143164|Q58WW2|DCAF6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.0931396484375 2 498.327268 994.639983 NaN NaN NaN NaN NaN NaN NaN 73.744 1 74.431 73.931 74.931 0.68662 0 0 0 0.95426 1 35582 35582 11.64 3.7301 1 20723 3348 12985 13041 24193 24193 0.14244854424953246 NIRSEEGELL 10 Unmodified _NIRSEEGELL_ 0 0 0 REV__ENSG00000175084|ENST00000373960|DES REV__ENSG00000175084|ENST00000373960|DES MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 580.3048095703125 2 580.30131 1158.58807 3.6434 0.0021142 0.83891 0.00048682 4.4823 0.0026011 580.3010829550227 15.654 0.35159 15.654 15.414 15.766 0 52 41 2 0 0 0 0.93628 1 6866 6866 1.6526 0 1 74258 + 20724 13659 12986 13042 24194 24194 0.0151160142986555 NISNINKLRWN 11 Unmodified _NISNINKLRWN_ 0 0 0 REV__nc|ENSG00000130164|P01130-2|LDLR REV__nc|ENSG00000130164|P01130-2|LDLR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 458.21209716796875 3 457.921237 1370.74188 NaN NaN NaN NaN NaN NaN NaN 70.121 1 70.121 69.621 70.621 0 0 0 0 1.0059 1 33971 33971 1.2148 0 1 + 20725 11802 12987 13043 24195 24195 0.07134055986034582 NISQLYYTL 9 Unmodified _NISQLYYTL_ 0 0 0 REV__nc|ENSG00000165186|Q96NR3-3|PTCHD1 REV__nc|ENSG00000165186|Q96NR3-3|PTCHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.7954711914062 2 557.792589 1113.57063 2.7951 0.0015591 0.56687 0.0003162 3.362 0.0018753 557.7931667780681 72.025 0.18633 72.729 72.644 72.83 0.70386 19 14 2 0 0 0 0.22507 1 34629 34629 21.747 0 1 1957800 + 20726 13145 12988 13044 24196 24196 0.01838305894852965 NISQLYYTL 9 Unmodified _NISQLYYTL_ 0 0 0 REV__nc|ENSG00000165186|Q96NR3-3|PTCHD1 REV__nc|ENSG00000165186|Q96NR3-3|PTCHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.4668579101562 2 557.792589 1113.57063 NaN NaN NaN NaN NaN NaN NaN 72.508 1 72.767 72.267 73.267 0.25876 0 0 0 0.75166 1 33286 33286 10.824 0 1 + 20727 13145 12988 13044 24197 24197 0.01838305894852965 NISQLYYTL 9 Unmodified _NISQLYYTL_ 0 0 0 REV__nc|ENSG00000165186|Q96NR3-3|PTCHD1 REV__nc|ENSG00000165186|Q96NR3-3|PTCHD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 557.792589 1113.57063 2.8606 0.0015956 1.2841 0.00071626 4.1447 0.0023119 557.7927766482836 72.946 0.133 72.946 72.826 72.959 0 0.10863 0.00060199 NaN 21.747 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 1829600 + 20728 13145 12988 13044 0.01838305894852965 NISQLYYTL 9 Unmodified _NISQLYYTL_ 0 0 0 REV__nc|ENSG00000165186|Q96NR3-3|PTCHD1 REV__nc|ENSG00000165186|Q96NR3-3|PTCHD1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 557.792589 1113.57063 2.7951 0.0015591 0.56687 0.0003162 3.362 0.0018753 557.7931667780681 72.025 0.18633 72.729 72.644 72.83 0.70386 -0.10863 -0.00019813 NaN 21.747 19 14 2 NaN NaN NaN NaN 0 NaN NaN 0 1957800 + 20729 13145 12988 13044 0.01838305894852965 NITFNCCNHC 10 Unmodified _NITFNCCNHC_ 0 0 0 ENSG00000117475|ENST00000367808|BLZF1 ENSG00000117475|ENST00000367808|BLZF1 ENSG00000117475|ENST00000367808|BLZF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.7198486328125 2 584.720261 1167.42597 NaN NaN NaN NaN NaN NaN NaN 62.999 1 63.721 63.221 64.221 0.72236 0 0 0 0.99464 1 29466 29466 6.2058 0 1 20730 2074 12989 13045 24198 24198 -0.1510472511995431 NITKKKKL 8 Unmodified _NITKKKKL_ 0 0 0 nc|ENSG00000214595|Q6ZMW3-2|EML6;ENSG00000214595|ENST00000356458|EML6 nc|ENSG00000214595|Q6ZMW3-2|EML6 nc|ENSG00000214595|Q6ZMW3-2|EML6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.84405517578125 2 486.831852 971.649151 NaN NaN NaN NaN NaN NaN NaN 79.862 1 80.111 79.611 80.611 0.24947 0 0 0 0.99035 1 36772 36772 0.79363 0 1 20731 6115 12990 13046 24199 24199 0.16219202990612303 NIVCTFCFLYC 11 Unmodified _NIVCTFCFLYC_ 0 0 0 ENST00000374994.8_2_9:101915367-101915715:+|nuORF ENST00000374994.8_2_9:101915367-101915715:+|nuORF ENST00000374994.8_2_9:101915367-101915715:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 663.2918090820312 2 663.289988 1324.56542 NaN NaN NaN NaN NaN NaN NaN 61.167 1 61.167 60.667 61.667 0 0 0 0 1.0059 1 28508 28508 2.9952 0 1 20732 7389 12991 13047 24200 24200 -0.08387780555267454 NIVDCDMS 8 Unmodified _NIVDCDMS_ 0 0 0 REV__nc|ENSG00000152894|Q15262|PTPRK REV__nc|ENSG00000152894|Q15262|PTPRK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 448.678955078125 2 448.678053 895.341554 NaN NaN NaN NaN NaN NaN NaN 62.023 1 62.754 62.254 63.254 0.73077 0 0 0 0.99035 1 28851 28851 5.2307 0 1 + 20733 12661 12992 13048 24201 24201 -0.11030352665045484 NIVEKTRLPV 10 Unmodified _NIVEKTRLPV_ 0 0 0 nc|ENSG00000141441|Q9H706-2|GAREM1;nc|ENSG00000141441|Q9H706-3|GAREM1;ENSG00000141441|ENST00000269209|GAREM1 nc|ENSG00000141441|Q9H706-2|GAREM1 nc|ENSG00000141441|Q9H706-2|GAREM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.3254089355469 3 390.239796 1167.69756 NaN NaN NaN NaN NaN NaN NaN 71.157 1 71.415 70.915 71.915 0.25786 0 0 0 0.9962 1 32594 32594 2.6312 0.54727 1 20734 3252 12993 13049 24202 24202 0.12041651839831502 NIVKDRYVRVS 11 Unmodified _NIVKDRYVRVS_ 0 0 0 nc|ENSG00000151092|Q96IV0-3|NGLY1;nc|ENSG00000151092|Q96IV0-2|NGLY1;ENSG00000151092|ENST00000280700|NGLY1;nc|ENSG00000151092|Q96IV0-5|NGLY1;ENST00000467224.5_1_3:25761125-25775431:-|nuORF;ENST00000496726.5_1_3:25760953-25775482:-|nuORF nc|ENSG00000151092|Q96IV0-3|NGLY1 nc|ENSG00000151092|Q96IV0-3|NGLY1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 674.8876342773438 2 674.888418 1347.76228 NaN NaN NaN NaN NaN NaN NaN 64.156 1 64.156 63.656 64.656 0 0 0 0 1.0044 1 30332 30332 4.897 0 1 20735 3690 12994 13050 24203 24203 0.10231226645851166 NIVKIKVQELF 11 Unmodified _NIVKIKVQELF_ 0 0 0 ENST00000462774.1_1_1:157739644-157746863:-|nuORF;ENSG00000132704|ENST00000361516|FCRL2 ENST00000462774.1_1_1:157739644-157746863:-|nuORF ENST00000462774.1_1_1:157739644-157746863:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 665.908203125 2 665.908288 1329.80202 NaN NaN NaN NaN NaN NaN NaN 75.701 1 76.365 75.865 76.865 0.66387 0 0 0 1.0044 1 34880 34880 4.897 1.6157 1 20736 2722 12995 13051 24204 24204 0.15031353596555164 NIVKKQWHWRQ 11 Unmodified _NIVKKQWHWRQ_ 0 0 0 REV__nc|ENSG00000117009|O15229-3|KMO REV__nc|ENSG00000117009|O15229-3|KMO MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.76959228515625 3 508.28451 1521.8317 2.7686 0.0014072 -3.7615 -0.0019119 -0.99298 -0.00050472 508.28399228493834 73.651 0.034874 74.316 74.29 74.325 0.6644 5 4 2 0 0 0 0.13295 1 33859 33859 0.40827 0.31342 1 1320400 + 20737 11429 12996 13052 24205 24205 0.09165730385279858 NIVKMFRFTHV 11 Unmodified _NIVKMFRFTHV_ 0 0 0 ENSG00000215251|ENST00000380266|FASTKD5 ENSG00000215251|ENST00000380266|FASTKD5 ENSG00000215251|ENST00000380266|FASTKD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.2412414550781 3 464.592063 1390.75436 NaN NaN NaN NaN NaN NaN NaN 69.893 1 70.596 70.096 71.096 0.70302 0 0 0 1.0059 1 33466 33466 1.2148 0.70888 1 20738 6130 12997 13053 24206 24206 0.07461376124706476 NIVKVIRSIL 10 Unmodified _NIVKVIRSIL_ 0 0 0 nc|ENSG00000146426|Q8IVF5-3|TIAM2;nc|ENSG00000146426|Q8IVF5-4|TIAM2;ENSG00000146426|ENST00000682666|TIAM2;nc|ENSG00000146426|Q8IVF5-5|TIAM2;nc|ENSG00000146426|Q8IVF5-2|TIAM2 nc|ENSG00000146426|Q8IVF5-3|TIAM2 nc|ENSG00000146426|Q8IVF5-3|TIAM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.8854370117188 2 577.884616 1153.75468 NaN NaN NaN NaN NaN NaN NaN 77.154 1 77.715 77.215 78.215 0.56091 0 0 0 0.99464 1 37407 37407 6.2058 0.47393 1 20739 3519 12998 13054 24207 24207 0.18395119116235037 NIVLALMKRK 10 Unmodified _NIVLALMKRK_ 0 0 0 REV__ENST00000359358.8_1_18:30253844-30254171:-|nuORF REV__ENST00000359358.8_1_18:30253844-30254171:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.3775634765625 2 593.378643 1184.74273 NaN NaN NaN NaN NaN NaN NaN 73.99 1 73.99 73.49 74.49 0 0 0 0 0.99774 1 36108 36108 3.5965 0 1 + 20740 15595 12999 13055 24208 24208 0.15775179101387948 NIVLRKKKRK 10 Unmodified _NIVLRKKKRK_ 0 0 0 REV__nc|ENSG00000170703|Q8N841-3|TTLL6 REV__nc|ENSG00000170703|Q8N841-3|TTLL6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 642.2421264648438 2 641.943331 1281.87211 NaN NaN NaN NaN NaN NaN NaN 86.857 1 86.857 86.357 87.357 0 0 0 0 1.0015 1 44631 44631 0.45834 0.057624 1 + 20741 13447 13000 13056 24209 24209 0.24244696775667762 NIVLSNPKKRN 11 Unmodified _NIVLSNPKKRN_ 0 0 0 ECHDC3|p.S210Lfs*34|1|0.3|ENSG00000134463|chr10:11763258-11763258|T/-|frameshift_variant;ENSG00000134463|ENST00000379215|ECHDC3 ECHDC3|p.S210Lfs*34|1|0.3|ENSG00000134463|chr10:11763258-11763258|T/-|frameshift_variant ECHDC3|p.S210Lfs*34|1|0.3|ENSG00000134463|chr10:11763258-11763258|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.885986328125 2 641.883136 1281.75172 4.131 0.0026516 -0.40254 -0.00025838 3.7284 0.0023932 641.8826889380277 89.752 0.99398 90.004 89.517 90.511 0.25137 91 45 3 0 0 0 0.91149 1 41204 41204 1.0715 0.10919 1 954720 20742 283 13001 13057 24210 24210 0.12211243991418996 NIVSCISLIS 10 Unmodified _NIVSCISLIS_ 0 0 0 REV__ENSG00000229292|ENST00000341750|RFPL4AL1 REV__ENSG00000229292|ENST00000341750|RFPL4AL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.1954345703125 3 350.195087 1047.56343 2.5009 0.00087581 -0.79293 -0.00027768 1.708 0.00059813 350.194658821857 15.444 1.0111 16.098 15.735 16.746 0.65356 357 131 4 0 0 0 0.90778 1 6926 6926 3.3196 0.47636 1 364320 + 20743 14548 13002 13058 24211 24211 0.041552500228135614 NIVVRECCE 9 Unmodified _NIVVRECCE_ 0 0 0 REV__nc|ENSG00000177301|P16389-2|KCNA2 REV__nc|ENSG00000177301|P16389-2|KCNA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.8642578125 2 532.746802 1063.47905 NaN NaN NaN NaN NaN NaN NaN 47.172 1 47.172 46.672 47.672 0 0 0 0 0.86044 1 21594 21594 7.2892 1.0834 1 + 20744 11227 13003 13059 24212 24212 -0.050150240656194 NIWFAEFWEEN 11 Unmodified _NIWFAEFWEEN_ 0 0 0 GRM6|p.P689Lfs*24|1|0.27|ENSG00000113262|chr5:178986188-178986188|G/-|frameshift_variant;ENSG00000113262|ENST00000517717|GRM6 GRM6|p.P689Lfs*24|1|0.27|ENSG00000113262|chr5:178986188-178986188|G/-|frameshift_variant GRM6|p.P689Lfs*24|1|0.27|ENSG00000113262|chr5:178986188-178986188|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.553466796875 3 495.55422 1483.64083 NaN NaN NaN NaN NaN NaN NaN 64.519 1 64.519 64.019 65.019 0 0 0 0 1.0072 1 30587 30587 0.45452 0 1 20745 1841 13004 13060 24213 24213 -0.08164440507334803 NIYHRCEFKI 10 Unmodified _NIYHRCEFKI_ 0 0 0 ENSG00000125149|ENST00000219139|PHAF1 ENSG00000125149|ENST00000219139|PHAF1 ENSG00000125149|ENST00000219139|PHAF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 441.1967468261719 3 441.560652 1321.66013 NaN NaN NaN NaN NaN NaN NaN 62.128 1 62.859 62.359 63.359 0.73077 0 0 0 0.99733 1 28918 28918 1.9064 0 1 20746 2389 13005 13061 24214 24214 0.012162373025603301 NIYKKYWPRRE 11 Unmodified _NIYKKYWPRRE_ 0 0 0 ENST00000347053.7_1_7:107002482-107002769:-|nuORF ENST00000347053.7_1_7:107002482-107002769:-|nuORF ENST00000347053.7_1_7:107002482-107002769:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.3493041992188 3 518.284287 1551.83103 2.7379 0.001419 -3.4721 -0.0017995 -0.73419 -0.00038052 518.6159962147316 66.212 0.017159 66.917 66.906 66.923 0.7047 4 2 2 0 0 0 0.13295 1 31370 31370 0.45452 0.35968 1 1996700 20747 7117 13006 13062 24215 24215 0.0771889094553444 NKACGTVA 8 Unmodified _NKACGTVA_ 0 0 0 ENST00000486863.1_1_6:108798417-108841055:+|nuORF;ENSG00000135537|ENST00000368977|AFG1L ENST00000486863.1_1_6:108798417-108841055:+|nuORF ENST00000486863.1_1_6:108798417-108841055:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.1922302246094 2 382.191988 762.369423 NaN NaN NaN NaN NaN NaN NaN 82.217 1 82.877 82.377 83.377 0.66006 0 0 0 0.99035 1 37883 37883 5.2307 0 1 20748 2878 13007 13063 24216 24216 -0.021266616226625956 NKADVILKY 9 Unmodified _NKADVILKY_ 0 0 0 ENST00000464196.5_1_Y:22749894-22750047:+|nuORF;ENST00000485584.1_1_Y:22749894-22754229:+|nuORF;ENST00000465253.1_1_Y:22737757-22750047:+|nuORF;ENSG00000198692|ENST00000361365|EIF1AY;ENSG00000173674|ENST00000379607|EIF1AX ENST00000464196.5_1_Y:22749894-22750047:+|nuORF ENST00000464196.5_1_Y:22749894-22750047:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 532.3133544921875 2 532.310949 1062.60735 3.1211 0.0016614 0.69583 0.0003704 3.8169 0.0020318 532.3110714646762 33.853 0.33118 34.107 33.919 34.25 0.25389 43 17 3 0 0 0 0.0020335 2 15396 15396;15445 103.82 61.984 1 1176800 20749 4945 13008 13064 24217;24218 24217 0.07854602511406483 NKADVILKY 9 Unmodified _NKADVILKY_ 0 0 0 ENST00000464196.5_1_Y:22749894-22750047:+|nuORF;ENST00000485584.1_1_Y:22749894-22754229:+|nuORF;ENST00000465253.1_1_Y:22737757-22750047:+|nuORF;ENSG00000198692|ENST00000361365|EIF1AY;ENSG00000173674|ENST00000379607|EIF1AX ENST00000464196.5_1_Y:22749894-22750047:+|nuORF ENST00000464196.5_1_Y:22749894-22750047:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.3125610351562 2 532.310949 1062.60735 3.1188 0.0016602 0.67515 0.00035939 3.794 0.0020196 532.311285712115 33.302 0.39202 33.922 33.715 34.107 0.62031 46 19 3 0 0 0 0.0013832 2 15237 15237;15291 114.19 64.253 1 889180 20750 4945 13008 13064 24219;24220 24219 0.07854602511406483 NKADVILKY 9 Unmodified _NKADVILKY_ 0 0 0 ENST00000464196.5_1_Y:22749894-22750047:+|nuORF;ENST00000485584.1_1_Y:22749894-22754229:+|nuORF;ENST00000465253.1_1_Y:22737757-22750047:+|nuORF;ENSG00000198692|ENST00000361365|EIF1AY;ENSG00000173674|ENST00000379607|EIF1AX ENST00000464196.5_1_Y:22749894-22750047:+|nuORF ENST00000464196.5_1_Y:22749894-22750047:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 532.310949 1062.60735 2.7947 0.0014877 1.188 0.00063236 3.9827 0.00212 532.3117319971147 33.019 0.22802 33.807 33.601 33.829 0.78795 -0.13848 0.00048846 NaN 114.19 18 12 2 NaN NaN NaN NaN 0 NaN NaN 0 373200 20751 4945 13008 13064 0.07854602511406483 NKAIIKAF 8 Unmodified _NKAIIKAF_ 0 0 0 ENST00000381249.3_1_2:18736773-18736848:-|nuORF ENST00000381249.3_1_2:18736773-18736848:-|nuORF ENST00000381249.3_1_2:18736773-18736848:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.78289794921875 2 452.78437 903.554188 NaN NaN NaN NaN NaN NaN NaN 52.444 1 52.707 52.207 53.207 0.26345 0 0 0 0.99035 1 23976 23976 2.3027 0 1 20752 7481 13009 13065 24221 24221 0.09855269519414378 NKAPKPRA 8 Unmodified _NKAPKPRA_ 0 0 0 REV__ENST00000419303.5_1_22:22348995-22398182:-|nuORF REV__ENST00000419303.5_1_22:22348995-22398182:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.2703857421875 2 441.269419 880.524284 NaN NaN NaN NaN NaN NaN NaN 84.341 1 84.588 84.088 85.088 0.24757 0 0 0 0.99035 1 38818 38818 2.3027 0 1 + 20753 16157 13010 13066 24222 24222 0.07924330574076066 NKASLTPL 8 Unmodified _NKASLTPL_ 0 0 0 nc|ENSG00000180777|Q9BXX2|ANKRD30B;ENSG00000180777|ENST00000690538|ANKRD30B;ANKRD30A|p.I450Ffs*59|1|0.07|ENSG00000148513|chr10:37142244-37142245|-/TTTCT|frameshift_variant;nc|ENSG00000180777|Q9BXX2-2|ANKRD30B;ANKRD30B|p.L634*|1|0.3|ENSG00000180777|chr18:14796388-14796388|T/-|frameshift_variant;ENSG00000148513|ENST00000361713|ANKRD30A nc|ENSG00000180777|Q9BXX2|ANKRD30B nc|ENSG00000180777|Q9BXX2|ANKRD30B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.2502136230469 2 422.25036 842.486168 2.8301 0.001195 0.45014 0.00019007 3.2802 0.0013851 422.25058386493777 28.437 0.25183 28.697 28.522 28.774 0.2602 25 14 2 0 0 0 0.59268 1 12898 12898 14.582 0 1 373710 20754 5262 13011 13067 24223 24223 0.05862399868760804 NKCATQWV 8 Unmodified _NKCATQWV_ 0 0 0 REV__nc|ENSG00000119402|Q9UKT8-2|FBXW2 REV__nc|ENSG00000119402|Q9UKT8-2|FBXW2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.15814208984375 3 317.156855 948.448736 NaN NaN NaN NaN NaN NaN NaN 53.48 1 53.745 53.245 54.245 0.26462 0 0 0 0.99035 1 24459 24459 1.4819 0 1 + 20755 11499 13012 13068 24224 24224 -0.027550146685030086 NKCCESGD 8 Unmodified _NKCCESGD_ 0 0 0 ENSG00000180884|ENST00000404801|ZNF792 ENSG00000180884|ENST00000404801|ZNF792 ENSG00000180884|ENST00000404801|ZNF792 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 428.1531066894531 2 428.152203 854.289852 NaN NaN NaN NaN NaN NaN NaN 58.696 1 58.696 58.196 59.196 0 0 0 0 0.99035 1 27097 27097 2.3027 0 1 20756 5267 13013 13069 24225 24225 -0.14312096358946746 NKCCYCSC 8 Unmodified _NKCCYCSC_ 0 0 0 REV__ENST00000495782.1_1_3:113801459-113804748:+|nuORF REV__ENST00000495782.1_1_3:113801459-113804748:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 462.3757019042969 2 462.147551 922.28055 NaN NaN NaN NaN NaN NaN NaN 77.577 1 77.577 77.077 78.077 0 0 0 0 0.99035 1 38054 38054 2.3027 1.6124 1 + 20757 12620 13014 13070 24226 24226 -0.18369904240501 NKCCYCSC 8 Unmodified _NKCCYCSC_ 0 0 0 REV__ENST00000495782.1_1_3:113801459-113804748:+|nuORF REV__ENST00000495782.1_1_3:113801459-113804748:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.1774597167969 2 462.147551 922.28055 NaN NaN NaN NaN NaN NaN NaN 75.622 1 75.879 75.379 76.379 0.25704 0 0 0 0.99035 1 34805 34805 2.3027 1.6124 1 + 20758 12620 13014 13070 24227 24227 -0.18369904240501 NKCCYCSC 8 Unmodified _NKCCYCSC_ 0 0 0 REV__ENST00000495782.1_1_3:113801459-113804748:+|nuORF REV__ENST00000495782.1_1_3:113801459-113804748:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.453369140625 2 462.147551 922.28055 NaN NaN NaN NaN NaN NaN NaN 76.761 1 77.016 76.516 77.516 0.25533 0 0 0 0.99035 1 35346 35346 2.3027 1.6124 1 + 20759 12620 13014 13070 24228 24228 -0.18369904240501 NKCCYCSC 8 Unmodified _NKCCYCSC_ 0 0 0 REV__ENST00000495782.1_1_3:113801459-113804748:+|nuORF REV__ENST00000495782.1_1_3:113801459-113804748:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.1474609375 2 462.147551 922.28055 NaN NaN NaN NaN NaN NaN NaN 77.369 1 77.625 77.125 78.125 0.25533 0 0 0 0.99035 1 35631 35631 2.3027 2.3027 1 + 20760 12620 13014 13070 24229 24229 -0.18369904240501 NKCCYCSC 8 Unmodified _NKCCYCSC_ 0 0 0 REV__ENST00000495782.1_1_3:113801459-113804748:+|nuORF REV__ENST00000495782.1_1_3:113801459-113804748:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.51947021484375 2 462.147551 922.28055 NaN NaN NaN NaN NaN NaN NaN 77.495 1 77.749 77.249 78.249 0.25335 0 0 0 0.99035 1 35689 35689 2.3027 1.6124 1 + 20761 12620 13014 13070 24230 24230 -0.18369904240501 NKCCYCSC 8 Unmodified _NKCCYCSC_ 0 0 0 REV__ENST00000495782.1_1_3:113801459-113804748:+|nuORF REV__ENST00000495782.1_1_3:113801459-113804748:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.14788818359375 2 462.147551 922.28055 NaN NaN NaN NaN NaN NaN NaN 78.814 1 79.066 78.566 79.566 0.25127 0 0 0 0.99035 1 36293 36293 2.3027 2.3027 1 + 20762 12620 13014 13070 24231 24231 -0.18369904240501 NKCCYCSC 8 Unmodified _NKCCYCSC_ 0 0 0 REV__ENST00000495782.1_1_3:113801459-113804748:+|nuORF REV__ENST00000495782.1_1_3:113801459-113804748:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.1481018066406 2 462.147551 922.28055 NaN NaN NaN NaN NaN NaN NaN 91.926 1 92.178 91.678 92.678 0.25253 0 0 0 0.99035 1 42264 42264 0.69038 0.69038 1 + 20763 12620 13014 13070 24232 24232 -0.18369904240501 NKCCYCSC 8 Unmodified _NKCCYCSC_ 0 0 0 REV__ENST00000495782.1_1_3:113801459-113804748:+|nuORF REV__ENST00000495782.1_1_3:113801459-113804748:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 462.1485290527344 2 462.147551 922.28055 NaN NaN NaN NaN NaN NaN NaN 80.895 1 81.555 81.055 82.055 0.65998 0 0 0 0.99035 1 37273 37273 2.3027 1.6124 1 + 20764 12620 13014 13070 24233 24233 -0.18369904240501 NKCDDCGKDFS 11 Unmodified _NKCDDCGKDFS_ 0 0 0 ZNF287|p.Y452N|1|0.37|ENSG00000141040|chr17:16552788-16552788|A/T|missense_variant ZNF287|p.Y452N|1|0.37|ENSG00000141040|chr17:16552788-16552788|A/T|missense_variant ZNF287|p.Y452N|1|0.37|ENSG00000141040|chr17:16552788-16552788|A/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 411.16522216796875 3 411.162117 1230.46452 NaN NaN NaN NaN NaN NaN NaN 66.441 1 67.145 66.645 67.645 0.7047 0 0 0 1.0073 1 31497 31497 0.40827 0.24894 1 20765 18294 13015 13071 24234 24234 -0.14149141004440935 NKCDDCGKDFS 11 Unmodified _NKCDDCGKDFS_ 0 0 0 ZNF287|p.Y452N|1|0.37|ENSG00000141040|chr17:16552788-16552788|A/T|missense_variant ZNF287|p.Y452N|1|0.37|ENSG00000141040|chr17:16552788-16552788|A/T|missense_variant ZNF287|p.Y452N|1|0.37|ENSG00000141040|chr17:16552788-16552788|A/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 411.165283203125 3 411.162117 1230.46452 NaN NaN NaN NaN NaN NaN NaN 67.122 1 67.824 67.324 68.324 0.70218 0 0 0 1.0073 1 31862 31862 0.40827 0 1 20766 18294 13015 13071 24235 24235 -0.14149141004440935 NKCDTYGM 8 Unmodified _NKCDTYGM_ 0 0 0 REV__nc|ENSG00000143970|Q76L83-2|ASXL2 REV__nc|ENSG00000143970|Q76L83-2|ASXL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 311.13531494140625 3 311.126456 930.357538 NaN NaN NaN NaN NaN NaN NaN 76.852 1 77.107 76.607 77.607 0.25533 0 0 0 0.99035 1 35389 35389 1.4819 1.0236 1 + 20767 12386 13016 13072 24236 24236 -0.11042646428154512 NKCDTYGM 8 Unmodified _NKCDTYGM_ 0 0 0 REV__nc|ENSG00000143970|Q76L83-2|ASXL2 REV__nc|ENSG00000143970|Q76L83-2|ASXL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.9635925292969 2 466.186045 930.357538 NaN NaN NaN NaN NaN NaN NaN 64.777 1 65.433 64.933 65.933 0.65672 0 0 0 0.99035 1 29695 29695 2.3027 1.5091 1 + 20768 12386 13016 13072 24237 24237 -0.11042646428154512 NKCEEQEEPS 10 Unmodified _NKCEEQEEPS_ 0 0 0 REV__ENSG00000153201|ENST00000283195|RANBP2 REV__ENSG00000153201|ENST00000283195|RANBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 398.1647033691406 3 398.164404 1191.47138 NaN NaN NaN NaN NaN NaN NaN 58.944 1 58.944 58.444 59.444 0 0 0 0 1.0003 1 27227 27227 0.62683 0.21856 1 + 20769 12673 13017 13073 24238 24238 -0.1166950485221605 NKCEGVRN 8 Unmodified _NKCEGVRN_ 0 0 0 ENST00000450622.1_1_7:54819967-54820069:-|nuORF ENST00000450622.1_1_7:54819967-54820069:-|nuORF ENST00000450622.1_1_7:54819967-54820069:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 307.1539306640625 3 307.151993 918.434149 NaN NaN NaN NaN NaN NaN NaN 60.973 1 61.228 60.728 61.728 0.25578 0 0 0 0.99035 1 27923 27923 3.2813 1.4371 1 20770 8010 13018 13074 24239 24239 -0.028330868166449363 NKCEMLDHFDI 11 Unmodified _NKCEMLDHFDI_ 0 0 0 ENSG00000157423|ENST00000393567|HYDIN ENSG00000157423|ENST00000393567|HYDIN ENSG00000157423|ENST00000393567|HYDIN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 455.5081481933594 3 455.537296 1363.59006 NaN NaN NaN NaN NaN NaN NaN 77.552 1 77.552 77.052 78.052 0 0 0 0 1.0073 1 38041 38041 0.40827 0 1 20771 3950 13019 13075 24240 24240 -0.07719429148210111 NKCEQSIT 8 Unmodified _NKCEQSIT_ 0 0 0 REV__nc|ENSG00000139908|Q6SA08-3|TSSK4 REV__nc|ENSG00000139908|Q6SA08-3|TSSK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 461.7183837890625 2 461.718567 921.422581 NaN NaN NaN NaN NaN NaN NaN 80.414 1 80.583 80.083 81.083 0.16862 0 0 0 0.99035 1 39409 39409 2.3027 0 1 + 20772 12223 13020 13076 24241 24241 -0.04127328630659122 NKCEWYGRFS 10 Unmodified _NKCEWYGRFS_ 0 0 0 REV__ZNF345|p.D17Y|1|0.05|ENSG00000251247|chr19:36876879-36876879|G/T|missense_variant REV__ZNF345|p.D17Y|1|0.05|ENSG00000251247|chr19:36876879-36876879|G/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.5308837890625 3 430.52924 1288.56589 NaN NaN NaN NaN NaN NaN NaN 44.839 1 45.489 44.989 45.989 0.64998 0 0 0 1.0013 1 20550 20550 0.62683 0.4675 1 + 20773 18251 13021 13077 24242 24242 -0.06684901519565756 NKCFAELI 8 Unmodified _NKCFAELI_ 0 0 0 REV__nc|ENSG00000004399|Q9Y4D7-2|PLXND1 REV__nc|ENSG00000004399|Q9Y4D7-2|PLXND1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 313.0771484375 3 313.165239 936.473888 NaN NaN NaN NaN NaN NaN NaN 71.599 1 71.599 71.099 72.099 0 0 0 0 0.99035 1 34807 34807 3.2813 1.7994 1 + 20774 10164 13022 13078 24243 24243 0.0031104013405638398 NKCGESFR 8 Unmodified _NKCGESFR_ 0 0 0 ENST00000399604.4_1_17:5084193-5085186:-|nuORF ENST00000399604.4_1_17:5084193-5085186:-|nuORF ENST00000399604.4_1_17:5084193-5085186:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.1394958496094 3 314.14836 939.42325 NaN NaN NaN NaN NaN NaN NaN 66.722 1 66.972 66.472 67.472 0.2501 0 0 0 0.99035 1 30566 30566 1.4819 0.51963 1 20775 7601 13023 13079 24244 24244 -0.048884891909324324 NKCGPQRSNCE 11 Unmodified _NKCGPQRSNCE_ 0 0 0 REV__ENSG00000164411|ENST00000525899|GJB7 REV__ENSG00000164411|ENST00000525899|GJB7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.51214599609375 3 412.513373 1234.51829 NaN NaN NaN NaN NaN NaN NaN 61.725 1 62.385 61.885 62.885 0.66008 0 0 0 1.0073 1 28271 28271 0.40827 0 1 + 20776 13092 13024 13080 24245 24245 -0.08958923782051897 NKCHGSTS 8 Unmodified _NKCHGSTS_ 0 0 0 REV__ENST00000358951.6_1_1:220323782-220323881:-|nuORF REV__ENST00000358951.6_1_1:220323782-220323881:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 417.26727294921875 2 417.182152 832.349751 NaN NaN NaN NaN NaN NaN NaN 71.218 1 71.881 71.381 72.381 0.66209 0 0 0 0.99035 1 32639 32639 2.3027 0.4585 1 + 20777 15589 13025 13081 24246 24246 -0.07313037633400654 NKCMFFSS 8 Unmodified _NKCMFFSS_ 0 0 0 REV__ENSG00000168702|ENST00000389484|LRP1B REV__ENSG00000168702|ENST00000389484|LRP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.2078857421875 2 482.206781 962.399009 NaN NaN NaN NaN NaN NaN NaN 83.377 1 84.04 83.54 84.54 0.66219 0 0 0 0.99035 1 38403 38403 2.3027 0.24298 1 + 20778 13361 13026 13082 24247 24247 -0.08369465668806697 NKCMHGLP 8 Unmodified _NKCMHGLP_ 0 0 0 REV__nc|ENSG00000165300|O94991-2|SLITRK5 REV__nc|ENSG00000165300|O94991-2|SLITRK5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.2160339355469 2 450.21494 898.415328 NaN NaN NaN NaN NaN NaN NaN 74.987 1 74.987 74.487 75.487 0 0 0 0 0.99035 1 36728 36728 2.3027 0 1 + 20779 13151 13027 13083 24248 24248 -0.037943397120557165 NKCNFVLGP 9 Unmodified _NKCNFVLGP_ 0 0 0 ENST00000474964.5_1_3:127323572-127340613:+|nuORF;ENSG00000073111|ENST00000265056|MCM2;ENST00000477668.5_1_3:127323572-127337961:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF ENST00000474964.5_1_3:127323572-127340613:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.1739196777344 3 331.172505 990.495686 NaN NaN NaN NaN NaN NaN NaN 70.138 1 70.798 70.298 71.298 0.66071 0 0 0 0.90699 1 32159 32159 0.96228 0 1 20780 802 13028 13084 24249 24249 5.844882628025516E-05 NKCRKVFSKR 10 Unmodified _NKCRKVFSKR_ 0 0 0 REV__ENST00000522590.1_1_6:154480965-154534056:-|nuORF REV__ENST00000522590.1_1_6:154480965-154534056:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.58343505859375 3 422.580158 1264.71864 NaN NaN NaN NaN NaN NaN NaN 91.909 1 92.162 91.662 92.662 0.25253 0 0 0 1.0003 1 42257 42257 0.62683 0.26015 1 + 20781 10519 13029 13085 24250 24250 0.096873386677089 NKCRKVFSKR 10 Unmodified _NKCRKVFSKR_ 0 0 0 REV__ENST00000522590.1_1_6:154480965-154534056:-|nuORF REV__ENST00000522590.1_1_6:154480965-154534056:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5830993652344 3 422.580158 1264.71864 NaN NaN NaN NaN NaN NaN NaN 92.044 1 92.297 91.797 92.797 0.25253 0 0 0 1.0003 1 42317 42317 0.62683 0.17231 1 + 20782 10519 13029 13085 24251 24251 0.096873386677089 NKCRKVFSKR 10 Unmodified _NKCRKVFSKR_ 0 0 0 REV__ENST00000522590.1_1_6:154480965-154534056:-|nuORF REV__ENST00000522590.1_1_6:154480965-154534056:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5828857421875 3 422.580158 1264.71864 NaN NaN NaN NaN NaN NaN NaN 92.147 1 92.4 91.9 92.9 0.25253 0 0 0 1.0003 1 42363 42363 0.62683 0.35781 1 + 20783 10519 13029 13085 24252 24252 0.096873386677089 NKCRKVFSKR 10 Unmodified _NKCRKVFSKR_ 0 0 0 REV__ENST00000522590.1_1_6:154480965-154534056:-|nuORF REV__ENST00000522590.1_1_6:154480965-154534056:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5829772949219 3 422.580158 1264.71864 NaN NaN NaN NaN NaN NaN NaN 92.389 1 92.641 92.141 93.141 0.25253 0 0 0 1.0003 1 42472 42472 0.62683 0.39098 1 + 20784 10519 13029 13085 24253 24253 0.096873386677089 NKCRKVFSKR 10 Unmodified _NKCRKVFSKR_ 0 0 0 REV__ENST00000522590.1_1_6:154480965-154534056:-|nuORF REV__ENST00000522590.1_1_6:154480965-154534056:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5826721191406 3 422.580158 1264.71864 NaN NaN NaN NaN NaN NaN NaN 92.578 1 92.831 92.331 93.331 0.25253 0 0 0 1.0003 1 42556 42556 0.62683 0.39098 1 + 20785 10519 13029 13085 24254 24254 0.096873386677089 NKCRKVFSKR 10 Unmodified _NKCRKVFSKR_ 0 0 0 REV__ENST00000522590.1_1_6:154480965-154534056:-|nuORF REV__ENST00000522590.1_1_6:154480965-154534056:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5834045410156 3 422.580158 1264.71864 NaN NaN NaN NaN NaN NaN NaN 92.876 1 93.131 92.631 93.631 0.25497 0 0 0 1.0003 1 42690 42690 0.62683 0.17231 1 + 20786 10519 13029 13085 24255 24255 0.096873386677089 NKCRKVFSKR 10 Unmodified _NKCRKVFSKR_ 0 0 0 REV__ENST00000522590.1_1_6:154480965-154534056:-|nuORF REV__ENST00000522590.1_1_6:154480965-154534056:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.58294677734375 3 422.580158 1264.71864 NaN NaN NaN NaN NaN NaN NaN 92.53 1 93.177 92.677 93.677 0.64714 0 0 0 1.0003 1 42571 42571 0.62683 0.17231 1 + 20787 10519 13029 13085 24256 24256 0.096873386677089 NKCRLIRG 8 Unmodified _NKCRLIRG_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.6604919433594 2 480.282003 958.549453 NaN NaN NaN NaN NaN NaN NaN 76.637 1 76.637 76.137 77.137 0 0 0 0 0.99035 1 37563 37563 4.756 0.42677 1 20788 282 13030 13086 24257 24257 0.06852062105008372 NKCSGTAH 8 Unmodified _NKCSGTAH_ 0 0 0 REV__nc|ENSG00000009413|O60673-2|REV3L REV__nc|ENSG00000009413|O60673-2|REV3L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 409.011474609375 2 409.184694 816.354836 NaN NaN NaN NaN NaN NaN NaN 68.719 1 68.719 68.219 69.219 0 0 0 0 0.99035 1 33105 33105 2.3027 1.5091 1 + 20789 10214 13031 13087 24258 24258 -0.06068733770791823 NKCSGTAH 8 Unmodified _NKCSGTAH_ 0 0 0 REV__nc|ENSG00000009413|O60673-2|REV3L REV__nc|ENSG00000009413|O60673-2|REV3L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 409.1842956542969 2 409.184694 816.354836 NaN NaN NaN NaN NaN NaN NaN 74.319 1 74.319 73.819 74.819 0 0 0 0 0.99035 1 36295 36295 2.3027 1.5091 1 + 20790 10214 13031 13087 24259 24259 -0.06068733770791823 NKCSGTAH 8 Unmodified _NKCSGTAH_ 0 0 0 REV__nc|ENSG00000009413|O60673-2|REV3L REV__nc|ENSG00000009413|O60673-2|REV3L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.1841735839844 2 409.184694 816.354836 NaN NaN NaN NaN NaN NaN NaN 73.349 1 74.013 73.513 74.513 0.66398 0 0 0 0.99035 1 33705 33705 2.3027 1.5091 1 + 20791 10214 13031 13087 24260 24260 -0.06068733770791823 NKCSKGST 8 Unmodified _NKCSKGST_ 0 0 0 ENST00000370765.10_1_6:56483328-56483529:-|nuORF ENST00000370765.10_1_6:56483328-56483529:-|nuORF ENST00000370765.10_1_6:56483328-56483529:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.2679443359375 2 412.700177 823.385802 NaN NaN NaN NaN NaN NaN NaN 64.061 1 64.309 63.809 64.809 0.24803 0 0 0 0.99035 1 29340 29340 2.3027 0 1 20792 7307 13032 13088 24261 24261 -0.03295580456551761 NKCSYDCCDCK 11 Unmodified _NKCSYDCCDCK_ 0 0 0 REV__nc|ENSG00000172273|Q9BQA5-2|HINFP REV__nc|ENSG00000172273|Q9BQA5-2|HINFP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 427.8182067871094 3 427.817076 1280.4294 NaN NaN NaN NaN NaN NaN NaN 66.727 1 66.977 66.477 67.477 0.2501 0 0 0 1.0073 1 30568 30568 0.40827 0.26837 1 + 20793 13544 13033 13089 24262 24262 -0.1995984312825385 NKCVFCWRH 9 Unmodified _NKCVFCWRH_ 0 0 0 ENSG00000198874|ENST00000359626|TYW1 ENSG00000198874|ENST00000359626|TYW1 ENSG00000198874|ENST00000359626|TYW1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.1871032714844 3 398.188272 1191.54299 NaN NaN NaN NaN NaN NaN NaN 68.416 1 69.119 68.619 69.619 0.70218 0 0 0 0.91059 1 32616 32616 0.96228 0.18574 1 20794 5954 13034 13090 24263 24263 -0.04512199118016724 NKCWFLSYIKP 11 Unmodified _NKCWFLSYIKP_ 0 0 0 ENSG00000229453|ENST00000434006|SPINK8 ENSG00000229453|ENST00000434006|SPINK8 ENSG00000229453|ENST00000434006|SPINK8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.9056091308594 3 466.912803 1397.71658 NaN NaN NaN NaN NaN NaN NaN 68.508 1 69.21 68.71 69.71 0.70218 0 0 0 1.0059 1 32664 32664 1.2148 0.10508 1 20795 6177 13035 13091 24264 24264 0.033628651392518805 NKCWSPTLSSC 11 Unmodified _NKCWSPTLSSC_ 0 0 0 ENST00000450743.5_1_7:43992334-43992490:+|nuORF ENST00000450743.5_1_7:43992334-43992490:+|nuORF ENST00000450743.5_1_7:43992334-43992490:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.1851501464844 3 409.182853 1224.52673 NaN NaN NaN NaN NaN NaN NaN 80.863 1 81.111 80.611 81.611 0.24803 0 0 0 1.0064 1 37232 37232 2.4348 1.7371 1 20796 8011 13036 13092 24265 24265 -0.07655369865437933 NKCYNGPCC 9 Unmodified _NKCYNGPCC_ 0 0 0 REV__ENSG00000107984|ENST00000373970|DKK1 REV__ENSG00000107984|ENST00000373970|DKK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.4608459472656 3 334.459441 1000.35649 NaN NaN NaN NaN NaN NaN NaN 67.076 1 67.327 66.827 67.827 0.2501 0 0 0 0.90699 1 30727 30727 0.96228 0 1 + 20797 11133 13037 13093 24266 24266 -0.1436718406870341 NKDDQEEDEDS 11 Unmodified _NKDDQEEDEDS_ 0 0 0 REV__ENSG00000168876|ENST00000544612|ANKRD49 REV__ENSG00000168876|ENST00000544612|ANKRD49 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.83160400390625 3 441.832147 1322.47461 NaN NaN NaN NaN NaN NaN NaN 65.378 1 65.378 64.878 65.878 0 0 0 0 1.008 1 31143 31143 0.08335 0 1 + 20798 13371 13038 13094 24267 24267 -0.17372583264500463 NKEEDTDEP 9 Unmodified _NKEEDTDEP_ 0 0 0 REV__ENSG00000136492|ENST00000259008|BRIP1 REV__ENSG00000136492|ENST00000259008|BRIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.4836120605469 3 359.484131 1075.43056 NaN NaN NaN NaN NaN NaN NaN 40.882 1 41.151 40.651 41.651 0.26904 0 0 0 0.91014 1 18603 18603 1.0715 0.67075 1 + 20799 12072 13039 13095 24268 24268 -0.10413522900194039 NKEEDTDEP 9 Unmodified _NKEEDTDEP_ 0 0 0 REV__ENSG00000136492|ENST00000259008|BRIP1 REV__ENSG00000136492|ENST00000259008|BRIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.4837951660156 3 359.484131 1075.43056 NaN NaN NaN NaN NaN NaN NaN 40.67 1 41.311 40.811 41.811 0.64136 0 0 0 0.91014 1 18593 18593 1.0715 0.56551 1 + 20800 12072 13039 13095 24269 24269 -0.10413522900194039 NKEEEWEREWT 11 Unmodified _NKEEEWEREWT_ 0 0 0 nc|ENSG00000169918|Q8TE49|OTUD7A nc|ENSG00000169918|Q8TE49|OTUD7A nc|ENSG00000169918|Q8TE49|OTUD7A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.6868896484375 3 512.563555 1534.66884 NaN NaN NaN NaN NaN NaN NaN 70.677 1 70.677 70.177 71.177 0 0 0 0 1.0079 1 34327 34327 0.45452 0.35968 1 20801 9750 13040 13096 24270 24270 -0.07711162317900744 NKELIFER 8 Unmodified _NKELIFER_ 0 0 0 REV__ZNF22|p.Y55Ifs*128|1|0.12|ENSG00000165512|chr10:45003528-45003528|C/-|frameshift_variant REV__ZNF22|p.Y55Ifs*128|1|0.12|ENSG00000165512|chr10:45003528-45003528|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.2077331542969 3 350.197708 1047.57129 NaN NaN NaN NaN NaN NaN NaN 38.823 1 39.62 39.12 40.12 0.79762 0 0 0 0.99035 1 17586 17586 3.2813 0 1 + 20802 18250 13041 13097 24271 24271 0.049411453345555856 NKELTRSL 8 Unmodified _NKELTRSL_ 0 0 0 ANKRD12|p.K1142Lfs*10|1|0.12|ENSG00000101745|chr18:9256689-9256690|-/TTTAAGGCTT|frameshift_variant ANKRD12|p.K1142Lfs*10|1|0.12|ENSG00000101745|chr18:9256689-9256690|-/TTTAAGGCTT|frameshift_variant ANKRD12|p.K1142Lfs*10|1|0.12|ENSG00000101745|chr18:9256689-9256690|-/TTTAAGGCTT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 320.85467529296875 3 320.853941 959.539994 2.1511 0.00069018 0.48101 0.00015433 2.6321 0.00084451 320.8540201179334 15.875 0.98688 15.875 15.377 16.363 0 301 119 3 0 0 0 0.67495 1 6936 6936 5.7319 0 1 430910 20803 57 13042 13098 24272 24272 0.058605723004689025 NKETLVKRLKK 11 Unmodified _NKETLVKRLKK_ 0 0 0 ENSG00000157741|ENST00000473989|UBN2;nc|ENSG00000157741|Q6ZU65-2|UBN2 ENSG00000157741|ENST00000473989|UBN2 ENSG00000157741|ENST00000473989|UBN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 452.95977783203125 3 452.961033 1355.86127 NaN NaN NaN NaN NaN NaN NaN 78.333 1 78.797 78.297 79.297 0.4642 0 0 0 1.0064 1 38079 38079 2.4348 0 1 20804 3960 13043 13099 24273 24273 0.1975724961071137 NKFGKISL 8 Unmodified _NKFGKISL_ 0 0 0 nc|ENSG00000188227|Q6ZN11-3|ZNF793;nc|ENSG00000188227|Q6ZN11-2|ZNF793;ENSG00000188227|ENST00000627814|ZNF793 nc|ENSG00000188227|Q6ZN11-3|ZNF793 nc|ENSG00000188227|Q6ZN11-3|ZNF793 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.52349853515625 2 453.774003 905.533452 NaN NaN NaN NaN NaN NaN NaN 50.16 1 50.421 49.921 50.921 0.26146 0 0 0 0.94507 1 22923 22923 9.3474 0 1 20805 5659 13044 13100 24274 24274 0.076906791397505 NKFLVFKKK 9 Unmodified _NKFLVFKKK_ 0 0 0 ENSG00000147912|ENST00000432825|FBXO10;ENST00000276960.7_1_9:37515899-37521812:-|nuORF;nc|ENSG00000147912|Q9UK96-2|FBXO10;ENST00000541804.1_1_9:37512546-37588833:-|nuORF ENSG00000147912|ENST00000432825|FBXO10 ENSG00000147912|ENST00000432825|FBXO10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 384.5826110839844 3 384.581493 1150.72265 2.7562 0.00106 1.1476 0.00044136 3.9039 0.0015014 384.581801036514 34.678 0.42458 35.301 35.115 35.539 0.62294 58 34 3 0 0 0 1.129 1 15969 15969 0.96228 0.33545 1 4896300 20806 3586 13045 13101 24275 24275 0.15331751433086538 NKFPRRIP 8 Unmodified _NKFPRRIP_ 0 0 0 ENST00000328902.9_1_7:150325594-150329348:-|nuORF;nc|ENSG00000133561|Q6P9H5-2|GIMAP6 ENST00000328902.9_1_7:150325594-150329348:-|nuORF ENST00000328902.9_1_7:150325594-150329348:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 343.1997985839844 3 343.210171 1026.60868 NaN NaN NaN NaN NaN NaN NaN 42.501 1 42.501 42.001 43.001 0 0 0 0 0.99035 1 19350 19350 3.5965 0 1 20807 6976 13046 13102 24276 24276 0.0964428139084248 NKFVDVFH 8 Unmodified _NKFVDVFH_ 0 0 0 REV__ENST00000535179.1_1_12:14619386-14628955:+|nuORF REV__ENST00000535179.1_1_12:14619386-14628955:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.2624816894531 2 503.261259 1004.50797 NaN NaN NaN NaN NaN NaN NaN 59.521 1 59.781 59.281 60.281 0.2593 0 0 0 0.99035 1 27257 27257 2.5775 0.27475 1 + 20808 17171 13047 13103 24277 24277 0.005892046173357812 NKFVVSHLI 9 Unmodified _NKFVVSHLI_ 0 0 0 AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant;ENSG00000153207|ENST00000648844|AHCTF1;nc|ENSG00000153207|Q8WYP5-3|AHCTF1;nc|ENSG00000153207|Q8WYP5-2|AHCTF1;ENST00000470300.5_1_1:247027247-247061635:-|nuORF AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.879150390625 3 352.878198 1055.61277 2.781 0.00098134 1.0141 0.00035785 3.7951 0.0013392 352.8784250546624 41.178 0.21614 41.447 41.38 41.596 0.26904 27 20 2 0 0 0 0.98132 1 18737 18737 2.4985 0 1 1772600 20809 18 13048 13104 24278 24278 0.08718326093912765 NKGGKDKH 8 Unmodified _NKGGKDKH_ 0 0 0 ENST00000320560.12_1_12:45725150-45740856:+|nuORF ENST00000320560.12_1_12:45725150-45740856:+|nuORF ENST00000320560.12_1_12:45725150-45740856:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 442.242431640625 2 442.240858 882.467164 3.1577 0.0013965 0.6013 0.00026592 3.759 0.0016624 442.24104067779894 88.669 0.43404 88.92 88.688 89.122 0.25118 45 18 3 0 0 0 0.7441 2 40788 40788;40846 2.3027 1.5091 1 2867200 20810 6922 13049 13105 24279;24280 24279 0.021228632976999506 NKGGKDVT 8 Unmodified _NKGGKDVT_ 0 0 0 nc|ENSG00000196273|Q86TU6|LINC00523 nc|ENSG00000196273|Q86TU6|LINC00523 nc|ENSG00000196273|Q86TU6|LINC00523 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.72259521484375 2 409.721967 817.429381 2.6958 0.0011045 -1.3807 -0.00056571 1.3151 0.00053882 409.7213404427054 69.23 0.29034 69.891 69.734 70.025 0.66071 31 19 2 0 0 0 0.7441 1 31713 31713 2.3027 0 1 585960 20811 9796 13050 13106 24281 24281 0.01336352312227973 NKGIKASR 8 Unmodified _NKGIKASR_ 0 0 0 REV__ENSG00000163637|ENST00000638394|PRICKLE2 REV__ENSG00000163637|ENST00000638394|PRICKLE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2677307128906 2 437.266876 872.519199 NaN NaN NaN NaN NaN NaN NaN 54.516 1 54.781 54.281 55.281 0.26513 0 0 0 0.97647 1 24921 24921 7.2892 2.0586 1 + 20812 13015 13051 13107 24282 24282 0.0778402671146523 NKGIKASR 8 Unmodified _NKGIKASR_ 0 0 0 REV__ENSG00000163637|ENST00000638394|PRICKLE2 REV__ENSG00000163637|ENST00000638394|PRICKLE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.0335998535156 2 437.266876 872.519199 NaN NaN NaN NaN NaN NaN NaN 54.651 1 54.917 54.417 55.417 0.26543 0 0 0 0.99035 1 24980 24980 4.3292 0.38484 1 + 20813 13015 13051 13107 24283 24283 0.0778402671146523 NKGKGGET 8 Unmodified _NKGKGGET_ 0 0 0 ENST00000285900.9_1_5:152870247-152870406:+|nuORF ENST00000285900.9_1_5:152870247-152870406:+|nuORF ENST00000285900.9_1_5:152870247-152870406:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.7073974609375 2 395.706317 789.398081 NaN NaN NaN NaN NaN NaN NaN 79.822 1 80.071 79.571 80.571 0.24947 0 0 0 0.99035 1 36754 36754 2.3027 0 1 20814 6719 13052 13108 24284 24284 -0.005042207218707517 NKGKLIIPT 9 Unmodified _NKGKLIIPT_ 0 0 0 REV__ENSG00000221866|ENST00000321063|PLXNA4 REV__ENSG00000221866|ENST00000321063|PLXNA4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.2033386230469 3 328.546449 982.617516 2.2474 0.00073837 -0.84941 -0.00027907 1.398 0.0004593 328.5461175110799 48.91 0.33979 48.91 48.753 49.093 0 33 18 3 0 0 0 0.11293 1 22365 22365 2.4985 2.4985 1 536650 + 20815 14540 13053 13109 24285 24285 0.12551210236654242 NKGKLSKT 8 Unmodified _NKGKLSKT_ 0 0 0 REV__nc|ENSG00000082269|Q9P2D6-4|FAM135A REV__nc|ENSG00000082269|Q9P2D6-4|FAM135A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 438.2685852050781 2 438.269084 874.523616 NaN NaN NaN NaN NaN NaN NaN 76.588 1 77.252 76.752 77.752 0.66387 0 0 0 0.99035 1 35285 35285 2.3027 0.4585 1 + 20816 10614 13054 13110 24286 24286 0.08133491134378801 NKGLMLLAV 9 Unmodified _NKGLMLLAV_ 0 0 0 REV__nc|nan|Q8N0U7-2|C1orf87 REV__nc|nan|Q8N0U7-2|C1orf87 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 320.20831298828125 3 320.196651 957.568123 NaN NaN NaN NaN NaN NaN NaN 57.828 1 58.09 57.59 58.59 0.26227 0 0 0 0.90611 1 26476 26476 1.0715 0 1 + 20817 18183 13055 13111 24287 24287 0.08764178956209889 NKGLRGRG 8 Unmodified _NKGLRGRG_ 0 0 0 nc|ENSG00000117523|Q9Y520-2|PRRC2C;nc|ENSG00000117523|Q9Y520-3|PRRC2C;nc|ENSG00000117523|Q9Y520-6|PRRC2C;nc|ENSG00000117523|Q9Y520-4|PRRC2C;nc|ENSG00000117523|Q9Y520-5|PRRC2C;nc|ENSG00000117523|Q9Y520|PRRC2C;ENSG00000117523|ENST00000647382|PRRC2C;PRRC2C|p.I863Kfs*12|1|0.09|ENSG00000117523|chr1:171540060-171540063|TCAG/-|frameshift_variant;PRRC2C|p.P1391Qfs*3|1|0.19|ENSG00000117523|chr1:171541644-171541648|CAAGA/-|frameshift_variant;PRRC2C|p.I2096Ffs*11|1|0.06|ENSG00000117523|chr1:171566405-171566406|-/ATTCT|frameshift_variant nc|ENSG00000117523|Q9Y520-2|PRRC2C nc|ENSG00000117523|Q9Y520-2|PRRC2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 429.25787353515625 2 429.256843 856.499132 2.6313 0.0011295 0.04153 1.7827E-05 2.6728 0.0011473 429.25671306372993 72.87 0.32549 73.129 72.941 73.266 0.25876 67 29 3 0 0 0 0.7441 1 33491 33491 2.3027 0 1 1736700 20818 2078 13056 13112 24288 24288 0.06514275771519351 NKGPSYGL 8 Unmodified _NKGPSYGL_ 0 0 0 ENSG00000064666|ENST00000263097|CNN2;ENST00000562015.5_1_19:1026660-1026978:+|nuORF;nc|ENSG00000064666|Q99439-2|CNN2;nc|ENSG00000117519|Q15417-3|CNN3;ENSG00000117519|ENST00000370206|CNN3 ENSG00000064666|ENST00000263097|CNN2;nc|ENSG00000117519|Q15417-3|CNN3 nc|ENSG00000117519|Q15417-3|CNN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 418.2207336425781 2 418.21906 834.423567 2.9282 0.0012246 0.088709 3.71E-05 3.0169 0.0012617 418.2191169223269 26.924 0.28095 26.924 26.765 27.046 0 45 16 3 0 0 0 0.0083552 2 12096 12096;12145 120.45 3.1978 1 2386700 20819 675;2077 13057 13113 24289;24290 24289 -0.0002674619944400547 NKGPSYGL 8 Unmodified _NKGPSYGL_ 0 0 0 ENSG00000064666|ENST00000263097|CNN2;ENST00000562015.5_1_19:1026660-1026978:+|nuORF;nc|ENSG00000064666|Q99439-2|CNN2;nc|ENSG00000117519|Q15417-3|CNN3;ENSG00000117519|ENST00000370206|CNN3 ENSG00000064666|ENST00000263097|CNN2;nc|ENSG00000117519|Q15417-3|CNN3 nc|ENSG00000117519|Q15417-3|CNN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 418.22021484375 2 418.21906 834.423567 2.6239 0.0010974 0.45416 0.00018994 3.0781 0.0012873 418.21930471787533 26.002 0.35983 26.766 26.57 26.93 0.76356 56 21 3 0 0 0 0.0083552 2 11633 11633;11676 120.45 2.8517 1 2085200 20820 675;2077 13057 13113 24291;24292 24291 -0.0002674619944400547 NKGPSYGL 8 Unmodified _NKGPSYGL_ 0 0 0 ENSG00000064666|ENST00000263097|CNN2;ENST00000562015.5_1_19:1026660-1026978:+|nuORF;nc|ENSG00000064666|Q99439-2|CNN2;nc|ENSG00000117519|Q15417-3|CNN3;ENSG00000117519|ENST00000370206|CNN3 ENSG00000064666|ENST00000263097|CNN2;nc|ENSG00000117519|Q15417-3|CNN3 nc|ENSG00000117519|Q15417-3|CNN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 418.22021484375 2 418.21906 834.423567 2.9197 0.0012211 0.23614 9.8759E-05 3.1558 0.0013198 418.2191998285006 26.84 0.35348 27.105 26.924 27.277 0.26489 58 22 3 0 0 0 0.0083552 3 12162 12162;12209;12259 120.45 3.901 1 2373900 20821 675;2077 13057 13113 24293;24294;24295 24293 -0.0002674619944400547 NKGPSYGL 8 Unmodified _NKGPSYGL_ 0 0 0 ENSG00000064666|ENST00000263097|CNN2;ENST00000562015.5_1_19:1026660-1026978:+|nuORF;nc|ENSG00000064666|Q99439-2|CNN2;nc|ENSG00000117519|Q15417-3|CNN3;ENSG00000117519|ENST00000370206|CNN3 ENSG00000064666|ENST00000263097|CNN2;nc|ENSG00000117519|Q15417-3|CNN3 nc|ENSG00000117519|Q15417-3|CNN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 418.2206115722656 2 418.21906 834.423567 2.8953 0.0012109 0.12465 5.2131E-05 3.02 0.001263 418.2192098149734 26.446 0.36659 27.071 26.888 27.255 0.62505 51 19 3 0 0 0 0.0083552 3 12129 12081;12129;12177 120.45 3.7266 1 2253100 20822 675;2077 13057 13113 24296;24297;24298 24297 -0.0002674619944400547 NKGRQLVRR 9 Unmodified _NKGRQLVRR_ 0 0 0 ENST00000338920.8_1_1:171501629-171501689:+|nuORF ENST00000338920.8_1_1:171501629-171501689:+|nuORF ENST00000338920.8_1_1:171501629-171501689:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.2391357421875 3 376.235379 1125.68431 NaN NaN NaN NaN NaN NaN NaN 91.961 1 92.214 91.714 92.714 0.25253 0 0 0 0.91059 1 42280 42280 0.96228 0.33545 1 20823 7051 13058 13114 24299 24299 0.12649258571127575 NKGRRRAQRV 10 Unmodified _NKGRRRAQRV_ 0 0 0 REV__THSD7A|p.I1441Pfs*15|1|0.06|ENSG00000005108|chr7:11401885-11401886|-/GGTGAGGATCTAGGCTTTGG|frameshift_variant REV__THSD7A|p.I1441Pfs*15|1|0.06|ENSG00000005108|chr7:11401885-11401886|-/GGTGAGGATCTAGGCTTTGG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 310.94189453125 4 310.941894 1239.73847 2.0771 0.00064586 -1.5007 -0.00046663 0.5764 0.00017923 310.94124871711443 47.097 0.21513 47.749 47.66 47.876 0.65219 36 13 3 0 0 0 0.93584 1 21614 21614 1.7423 0.52744 1 3066600 + 20824 10174 13059 13115 24300 24300 0.12818850722669595 NKHKLGVLL 9 Unmodified _NKHKLGVLL_ 0 0 0 REV__AluSz_dup92746|chr19:8370431-8370725:+|2.024774437320444|0.4902100207963893|2.05|539.0|3|1|sense REV__AluSz_dup92746|chr19:8370431-8370725:+|2.024774437320444|0.4902100207963893|2.05|539.0|3|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.22381591796875 3 341.222076 1020.6444 NaN NaN NaN NaN NaN NaN NaN 96.975 1 97.253 96.753 97.753 0.27778 0 0 0 0.91238 1 44553 44553 0.23584 0 1 + 20825 9956 13060 13116 24301 24301 0.1349031884786882 NKIAPTVWKL 10 Unmodified _NKIAPTVWKL_ 0 0 0 ENSG00000116260|ENST00000367602|QSOX1;nc|ENSG00000116260|O00391-2|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.573486328125 3 390.572886 1168.69683 2.6434 0.0010324 0.09443 3.6882E-05 2.7378 0.0010693 390.57321403603294 72.438 0.31204 72.697 72.549 72.861 0.25876 40 25 2 0 0 0 0.93584 1 33236 33236 1.7423 1.7423 1 547420 20826 2023 13061 13117 24302 24302 0.1192285719080246 NKIFFFKDRFF 11 Unmodified _NKIFFFKDRFF_ 0 0 0 ENSG00000262406|ENST00000571244|MMP12 ENSG00000262406|ENST00000571244|MMP12 ENSG00000262406|ENST00000571244|MMP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.5874328613281 3 503.606478 1507.79761 NaN NaN NaN NaN NaN NaN NaN 77.633 1 77.886 77.386 78.386 0.25335 0 0 0 1.008 1 35753 35753 0.08335 0 1 20827 6314 13062 13118 24303 24303 0.06401889173616837 NKIHLFLVLL 10 Unmodified _NKIHLFLVLL_ 0 0 0 REV__ENSG00000085265|ENST00000371806|FCN1 REV__ENSG00000085265|ENST00000371806|FCN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 303.1991882324219 4 303.198405 1208.76451 1.8732 0.00056795 1.2564 0.00038094 3.1296 0.00094889 303.1988262421141 44.247 0.34953 44.247 44.053 44.403 0 47 35 2 0 0 0 0.94099 1 20168 20168 0.69767 0.24315 1 4775000 + 20828 10642 13063 13119 24304 24304 0.16848307121586004 NKIIRLIRYR 10 Unmodified _NKIIRLIRYR_ 0 0 0 ENSG00000188997|ENST00000340067|KCTD21 ENSG00000188997|ENST00000340067|KCTD21 ENSG00000188997|ENST00000340067|KCTD21 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 449.222900390625 3 448.957734 1343.85137 NaN NaN NaN NaN NaN NaN NaN 69.106 1 69.106 68.606 69.606 0 0 0 0 1.0013 1 33326 33326 0.62683 0 1 20829 5697 13064 13120 24305 24305 0.19320106396003212 NKIKSSSD 8 Unmodified _NKIKSSSD_ 0 0 0 nc|ENSG00000105855|P26012-2|ITGB8;ENSG00000105855|ENST00000222573|ITGB8 nc|ENSG00000105855|P26012-2|ITGB8 nc|ENSG00000105855|P26012-2|ITGB8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 439.2544250488281 2 439.732532 877.45051 3.2234 0.0014174 -1.7775 -0.00078165 1.4458 0.00063577 439.73195997509106 85.573 0.3619 86.244 86.031 86.392 0.67061 20 16 2 0 0 0 0.74709 1 39456 39456 2.0598 0 1 512760 20830 1537 13065 13121 24306 24306 0.006883176210976671 NKIKTTRI 8 Unmodified _NKIKTTRI_ 0 0 0 ENSG00000183662|ENST00000478136|TAFA1 ENSG00000183662|ENST00000478136|TAFA1 ENSG00000183662|ENST00000478136|TAFA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 325.2225646972656 3 325.209948 972.608014 NaN NaN NaN NaN NaN NaN NaN 59.609 1 60.358 59.858 60.858 0.74927 0 0 0 0.99035 1 27388 27388 3.2813 1.7994 1 20831 5396 13066 13122 24307 24307 0.12061441951118468 NKIKTTRI 8 Unmodified _NKIKTTRI_ 0 0 0 ENSG00000183662|ENST00000478136|TAFA1 ENSG00000183662|ENST00000478136|TAFA1 ENSG00000183662|ENST00000478136|TAFA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.252197265625 2 487.311284 972.608014 NaN NaN NaN NaN NaN NaN NaN 76.649 1 77.312 76.812 77.812 0.66387 0 0 0 0.95658 1 35314 35314 8.5933 0.68312 1 20832 5396 13066 13122 24308 24308 0.12061441951118468 NKILVTHFV 9 Unmodified _NKILVTHFV_ 0 0 0 nc|ENSG00000213439|P0C628|OR5AC1 nc|ENSG00000213439|P0C628|OR5AC1 nc|ENSG00000213439|P0C628|OR5AC1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 357.21533203125 3 357.550082 1069.62842 2.4686 0.00088265 0.94476 0.0003378 3.4134 0.0012204 357.8844194293346 49.863 0.39412 50.686 50.515 50.91 0.82285 25 17 2 0 0 0 0.11267 1 22715 22715 1.0715 0 1 352310 20833 9828 13067 13123 24309 24309 0.09638612610956443 NKILVTHFV 9 Unmodified _NKILVTHFV_ 0 0 0 nc|ENSG00000213439|P0C628|OR5AC1 nc|ENSG00000213439|P0C628|OR5AC1 nc|ENSG00000213439|P0C628|OR5AC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.55126953125 3 357.550082 1069.62842 2.5823 0.00092331 0.80144 0.00028655 3.3838 0.0012099 357.5504666235687 52.432 0.70988 52.696 52.301 53.011 0.26345 70 32 3 0 0 0 1.0755 1 23888 23888 2.7352 0 1 1327200 20834 9828 13067 13123 24310 24310 0.09638612610956443 NKILVTHFV 9 Unmodified _NKILVTHFV_ 0 0 0 nc|ENSG00000213439|P0C628|OR5AC1 nc|ENSG00000213439|P0C628|OR5AC1 nc|ENSG00000213439|P0C628|OR5AC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.55157470703125 3 357.550082 1069.62842 2.3293 0.00083285 1.0711 0.00038296 3.4004 0.0012158 357.55048919436575 51.784 0.95531 52.446 52.094 53.049 0.66198 111 49 3 0 0 0 1.0755 1 23606 23606 2.7352 2.7352 1 888510 20835 9828 13067 13123 24311 24311 0.09638612610956443 NKITKPQY 8 Unmodified _NKITKPQY_ 0 0 0 REV__ENSG00000172382|ENST00000302641|PRSS27 REV__ENSG00000172382|ENST00000302641|PRSS27 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.2021484375 3 331.190553 990.549831 NaN NaN NaN NaN NaN NaN NaN 73.292 1 73.292 72.792 73.792 0 0 0 0 0.99035 1 35706 35706 3.2813 0.99853 1 + 20836 13546 13068 13124 24312 24312 0.05417760305851971 NKITVVGV 8 Unmodified _NKITVVGV_ 0 0 0 nc|ENSG00000134333|P00338-5|LDHA;nc|ENSG00000134333|P00338-2|LDHA;ENSG00000134333|ENST00000422447|LDHA;nc|ENSG00000134333|P00338-3|LDHA;ENST00000469976.2_1_11:18418389-18418551:+|nuORF;ENST00000494573.6_1_11:18418389-18421097:+|nuORF;ENST00000544151.1_1_12:21807353-21810687:-|nuORF;nc|ENSG00000134333|P00338-4|LDHA;ENSG00000111716|ENST00000350669|LDHB nc|ENSG00000134333|P00338-5|LDHA nc|ENSG00000134333|P00338-5|LDHA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 415.2621765136719 2 415.260728 828.506903 3.7859 0.0015721 1.9822 0.00082312 5.7681 0.0023953 415.2615718114966 98.004 0.12582 98.293 98.241 98.366 0.28923 13 8 2 0 0 0 0.71911 1 45080 45080 4.3292 0 1 2843600 20837 2803 13069 13125 24313 24313 0.08578990248429363 NKITVVGV 8 Unmodified _NKITVVGV_ 0 0 0 nc|ENSG00000134333|P00338-5|LDHA;nc|ENSG00000134333|P00338-2|LDHA;ENSG00000134333|ENST00000422447|LDHA;nc|ENSG00000134333|P00338-3|LDHA;ENST00000469976.2_1_11:18418389-18418551:+|nuORF;ENST00000494573.6_1_11:18418389-18421097:+|nuORF;ENST00000544151.1_1_12:21807353-21810687:-|nuORF;nc|ENSG00000134333|P00338-4|LDHA;ENSG00000111716|ENST00000350669|LDHB nc|ENSG00000134333|P00338-5|LDHA nc|ENSG00000134333|P00338-5|LDHA MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 415.260728 828.506903 3.1973 0.0013277 2.7866 0.0011572 5.984 0.0024849 415.26178233311333 97.525 0.26739 98.124 98.01 98.278 0.59885 -0.084558 0.00022927 NaN 4.3292 36 16 3 NaN NaN NaN NaN 0 NaN NaN 0 1453200 20838 2803 13069 13125 0.08578990248429363 NKIVAAIV 8 Unmodified _NKIVAAIV_ 0 0 0 REV__ENSG00000171517|ENST00000370611|LPAR3 REV__ENSG00000171517|ENST00000370611|LPAR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.2712707519531 2 414.271096 826.527639 NaN NaN NaN NaN NaN NaN NaN 79.525 1 79.776 79.276 80.276 0.25127 0 0 0 0.99035 1 36619 36619 2.3027 0 1 + 20839 13501 13070 13126 24314 24314 0.10743580628070504 NKIVAAIV 8 Unmodified _NKIVAAIV_ 0 0 0 REV__ENSG00000171517|ENST00000370611|LPAR3 REV__ENSG00000171517|ENST00000370611|LPAR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.27117919921875 2 414.271096 826.527639 NaN NaN NaN NaN NaN NaN NaN 80.713 1 80.963 80.463 81.463 0.24947 0 0 0 0.99035 1 37162 37162 0.69038 0 1 + 20840 13501 13070 13126 24315 24315 0.10743580628070504 NKIVAAIV 8 Unmodified _NKIVAAIV_ 0 0 0 REV__ENSG00000171517|ENST00000370611|LPAR3 REV__ENSG00000171517|ENST00000370611|LPAR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.2708740234375 2 414.271096 826.527639 NaN NaN NaN NaN NaN NaN NaN 81.896 1 82.556 82.056 83.056 0.65998 0 0 0 0.99035 1 37736 37736 2.3027 0 1 + 20841 13501 13070 13126 24316 24316 0.10743580628070504 NKKAAPRA 8 Unmodified _NKKAAPRA_ 0 0 0 ENST00000568570.1_1_16:31993258-32005419:+|nuORF;nc|ENSG00000275832|Q9P227-2|ARHGAP23;ENSG00000275832|ENST00000622683|ARHGAP23 ENST00000568570.1_1_16:31993258-32005419:+|nuORF ENST00000568570.1_1_16:31993258-32005419:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 428.2626953125 2 428.261594 854.508634 3.0171 0.0012921 -0.14513 -6.2152E-05 2.872 0.00123 428.2614651843856 85.781 0.62501 86.03 85.772 86.397 0.24857 83 29 4 0 0 0 0.7441 1 39574 39574 2.3027 1.5091 1 43902000 20842 6348 13071 13127 24317 24317 0.07556044057025701 NKKAAPRA 8 Unmodified _NKKAAPRA_ 0 0 0 ENST00000568570.1_1_16:31993258-32005419:+|nuORF;nc|ENSG00000275832|Q9P227-2|ARHGAP23;ENSG00000275832|ENST00000622683|ARHGAP23 ENST00000568570.1_1_16:31993258-32005419:+|nuORF ENST00000568570.1_1_16:31993258-32005419:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 428.26324462890625 2 428.261594 854.508634 3.7451 0.0016039 -0.44337 -0.00018988 3.3017 0.001414 428.2613342951928 97.339 0.55659 97.628 97.17 97.727 0.28923 44 26 2 0 0 0 0.7441 2 44622 44622;44673 2.3027 1.5091 1 784010 20843 6348 13071 13127 24318;24319 24318 0.07556044057025701 NKKAAPRA 8 Unmodified _NKKAAPRA_ 0 0 0 ENST00000568570.1_1_16:31993258-32005419:+|nuORF;nc|ENSG00000275832|Q9P227-2|ARHGAP23;ENSG00000275832|ENST00000622683|ARHGAP23 ENST00000568570.1_1_16:31993258-32005419:+|nuORF ENST00000568570.1_1_16:31993258-32005419:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 428.26312255859375 2 428.261594 854.508634 3.18 0.0013619 0.08362 3.5811E-05 3.2636 0.0013977 428.26165548952747 85.465 0.67668 86.13 85.865 86.541 0.66566 112 33 5 0 0 0 0.7441 3 39267 39267;39328;39430 2.3027 1.6124 1 58125000 20844 6348 13071 13127 24320;24321;24322 24320 0.07556044057025701 NKKAAPRA 8 Unmodified _NKKAAPRA_ 0 0 0 ENST00000568570.1_1_16:31993258-32005419:+|nuORF;nc|ENSG00000275832|Q9P227-2|ARHGAP23;ENSG00000275832|ENST00000622683|ARHGAP23 ENST00000568570.1_1_16:31993258-32005419:+|nuORF ENST00000568570.1_1_16:31993258-32005419:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 428.26287841796875 2 428.261594 854.508634 3.2473 0.0013907 -0.36175 -0.00015492 2.8855 0.0012358 428.2614965750361 96.838 0.53049 97.44 97.267 97.798 0.6019 50 24 3 0 0 0 0.7441 1 44519 44519 2.3027 0.24298 1 981360 20845 6348 13071 13127 24323 24323 0.07556044057025701 NKKGGGTA 8 Unmodified _NKKGGGTA_ 0 0 0 ENSG00000105866|ENST00000222584|SP4 ENSG00000105866|ENST00000222584|SP4 ENSG00000105866|ENST00000222584|SP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.703857421875 2 366.703577 731.392602 NaN NaN NaN NaN NaN NaN NaN 86.244 1 86.915 86.415 87.415 0.67061 0 0 0 0.99035 1 39716 39716 2.3027 0 1 20846 1539 13072 13128 24324 24324 0.01616100486319283 NKKGKENNR 9 Unmodified _NKKGKENNR_ 0 0 0 REV__ENST00000072516.7_2_3:190366486-190366627:+|nuORF REV__ENST00000072516.7_2_3:190366486-190366627:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.88262939453125 3 363.203744 1086.5894 2.6754 0.00097172 1.503 0.00054591 4.1784 0.0015176 363.2043121898767 40.789 0.2328 40.789 40.729 40.962 0 13 13 2 0 0 0 0.10173 1 18555 18555 12.873 5.2637 1 622780 + 20847 14783 13073 13129 24325 24325 0.04957280309258749 NKKGNFIL 8 Unmodified _NKKGNFIL_ 0 0 0 ENSG00000177565|ENST00000457928|TBL1XR1 ENSG00000177565|ENST00000457928|TBL1XR1 ENSG00000177565|ENST00000457928|TBL1XR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.2806091308594 2 467.279452 932.544351 2.9214 0.0013651 -0.063433 -2.9641E-05 2.858 0.0013355 467.2793619681155 56.872 0.22076 57.54 57.453 57.674 0.66829 16 10 2 0 0 0 0.5438 1 26035 26035 18.135 3.5533 1 698720 20848 5122 13074 13130 24326 24326 0.07538081514042005 NKKGNFIL 8 Unmodified _NKKGNFIL_ 0 0 0 ENSG00000177565|ENST00000457928|TBL1XR1 ENSG00000177565|ENST00000457928|TBL1XR1 ENSG00000177565|ENST00000457928|TBL1XR1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 467.279452 932.544351 2.7303 0.0012758 -0.069873 -3.265E-05 2.6604 0.0012432 467.2792662983597 57.54 0.23167 57.804 57.71 57.942 0.26443 0.13202 -2.2933E-06 NaN 18.135 18 13 2 NaN NaN NaN NaN 0 NaN NaN 0 504060 20849 5122 13074 13130 0.07538081514042005 NKKIGQLIY 9 Unmodified _NKKIGQLIY_ 0 0 0 ENSG00000165164|ENST00000378653|CFAP47 ENSG00000165164|ENST00000378653|CFAP47 ENSG00000165164|ENST00000378653|CFAP47 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.14990234375 3 359.553603 1075.63898 2.7246 0.00097964 0.16189 5.8209E-05 2.8865 0.0010379 359.5536204422119 52.998 0.3299 52.998 52.819 53.149 0 48 17 4 0 0 0 0.10847 1 24331 24331 4.1895 0 1 1840400 20850 4376 13075 13131 24327 24327 0.10418595265377917 NKKIKLFFK 9 Unmodified _NKKIKLFFK_ 0 0 0 ENST00000409458.3_2_7:23296839-23297073:+|nuORF ENST00000409458.3_2_7:23296839-23297073:+|nuORF ENST00000409458.3_2_7:23296839-23297073:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.2543029785156 3 389.253376 1164.7383 3.0891 0.0012024 0.66568 0.00025912 3.7548 0.0014616 389.25309173104534 46.644 0.55798 46.91 46.756 47.314 0.26561 32 18 2 0 0 0 1.178 2 21350 21350;21415 1.0715 0 1 2486900 20851 7660 13076 13132 24328;24329 24328 0.16252037950107479 NKKIPTIVRP 10 Unmodified _NKKIPTIVRP_ 0 0 0 ZNF564|p.G427Vfs*15|1|0.23|ENSG00000249709|chr19:12526828-12526829|-/CA|frameshift_variant;ENSG00000249709|ENST00000339282|ZNF564;ENST00000593682.1_1_19:12637262-12688404:-|nuORF ZNF564|p.G427Vfs*15|1|0.23|ENSG00000249709|chr19:12526828-12526829|-/CA|frameshift_variant ZNF564|p.G427Vfs*15|1|0.23|ENSG00000249709|chr19:12526828-12526829|-/CA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.2547302246094 3 389.252036 1164.73428 NaN NaN NaN NaN NaN NaN NaN 46.249 1 46.901 46.401 47.401 0.65219 0 0 0 1.0003 1 21184 21184 1.4551 0.75745 1 20852 6261 13077 13133 24330 24330 0.15849948456411767 NKKIWWIIR 9 Unmodified _NKKIWWIIR_ 0 0 0 ENSG00000065325|ENST00000262441|GLP2R;ENST00000458005.2_1_17:9738090-9769219:+|nuORF ENSG00000065325|ENST00000262441|GLP2R ENSG00000065325|ENST00000262441|GLP2R MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 419.6706848144531 3 419.592392 1255.75535 3.1615 0.0013265 0.0277 1.1623E-05 3.1892 0.0013382 419.592318563839 87.799 0.6163 88.477 88.239 88.856 0.67818 69 30 4 0 0 0 1.178 1 40557 40557 1.0715 0.3738 1 1698700 20853 687 13078 13134 24331 24331 0.1376995855594032 NKKKKEKLYF 10 Unmodified _NKKKKEKLYF_ 0 0 0 REV__ENST00000342085.8_1_16:2647774-2647957:+|nuORF REV__ENST00000342085.8_1_16:2647774-2647957:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 442.6034851074219 3 442.602845 1324.78671 NaN NaN NaN NaN NaN NaN NaN 62.668 1 62.668 62.168 63.168 0 0 0 0 1.0012 1 29387 29387 0.69767 0.07084 1 + 20854 15469 13079 13135 24332 24332 0.13730486799363462 NKKKKLLH 8 Unmodified _NKKKKLLH_ 0 0 0 REV__ENST00000252725.9_1_7:98992108-98992360:+|nuORF REV__ENST00000252725.9_1_7:98992108-98992360:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.89581298828125 3 336.894071 1007.66038 NaN NaN NaN NaN NaN NaN NaN 109.33 1 109.94 109.44 110.44 0.60264 0 0 0 0.99035 1 50428 50428 0.40072 0 1 + 20855 14914 13080 13136 24333 24333 0.15686025084755784 NKKKLRKNLKQ 11 Unmodified _NKKKLRKNLKQ_ 0 0 0 ENST00000461256.5_1_2:42795323-42836639:+|nuORF ENST00000461256.5_1_2:42795323-42836639:+|nuORF ENST00000461256.5_1_2:42795323-42836639:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.207763671875 4 350.232039 1396.89905 2.5755 0.00090201 1.7922 0.0006277 4.3677 0.0015297 350.4835365954918 52.921 0.44269 52.921 52.74 53.183 0 33 25 2 0 0 0 0.13295 1 24267 24267 0.08335 0 1 315410 20856 8080 13081 13137 24334 24334 0.21647760596215448 NKKKPLLCP 9 Unmodified _NKKKPLLCP_ 0 0 0 REV__nc|ENSG00000123575|Q6PEV8-2|FAM199X REV__nc|ENSG00000123575|Q6PEV8-2|FAM199X MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 347.547607421875 3 347.547684 1039.62122 2.0013 0.00069555 -0.69464 -0.00024142 1.3067 0.00045414 347.5470662821183 54.516 0.3768 55.312 55.035 55.412 0.79552 51 23 3 0 0 0 0.11393 1 24911 24911 1.0715 0.10919 1 557330 + 20857 11620 13082 13138 24335 24335 0.10299556738868887 NKKKPLLCP 9 Unmodified _NKKKPLLCP_ 0 0 0 REV__nc|ENSG00000123575|Q6PEV8-2|FAM199X REV__nc|ENSG00000123575|Q6PEV8-2|FAM199X MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 347.547684 1039.62122 2.3471 0.00081573 -1.7613 -0.00061215 0.58578 0.00020359 347.54704621933615 54.656 0.4492 55.322 55.196 55.645 0.6665 0.0052102 -0.00030299 NaN 1.0715 53 30 2 NaN NaN NaN NaN 0 NaN NaN 0 2621600 + 20858 11620 13082 13138 0.10299556738868887 NKKKTKKIKEK 11 Unmodified _NKKKTKKIKEK_ 0 0 0 nc|ENSG00000282100|Q58FF6|HSP90AB4P nc|ENSG00000282100|Q58FF6|HSP90AB4P nc|ENSG00000282100|Q58FF6|HSP90AB4P MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 686.9536743164062 2 686.953561 1371.89257 NaN NaN NaN NaN NaN NaN NaN 70.149 1 70.405 69.905 70.905 0.25642 0 0 0 1.0082 1 32125 32125 0 0 1 20859 9870 13083 13139 24336 24336 0.22149822644837514 NKKLMNFAK 9 Unmodified _NKKLMNFAK_ 0 0 0 REV__nc|ENSG00000138380|Q8N187-3|CARF REV__nc|ENSG00000138380|Q8N187-3|CARF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.2128601074219 3 365.211071 1092.61138 2.6429 0.00096522 1.3302 0.00048582 3.9731 0.001451 365.2120037480699 35.411 0.52491 36.038 35.771 36.296 0.62631 24 17 3 0 0 0 1.0894 1 16217 16217 2.4985 1.5362 1 1049500 + 20860 12161 13084 13140 24337 24337 0.0687836873348715 NKKLPIELR 9 Unmodified _NKKLPIELR_ 0 0 0 ENSG00000144362|ENST00000359744|PHOSPHO2 ENSG00000144362|ENST00000359744|PHOSPHO2 ENSG00000144362|ENST00000359744|PHOSPHO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.8574829101562 2 555.853316 1109.69208 NaN NaN NaN NaN NaN NaN NaN 108.04 1 108.36 107.86 108.86 0.31421 0 0 0 0.91238 1 49832 49832 0.52476 0 1 20861 3419 13085 13141 24338 24338 0.14161973048021537 NKKLPKELLLR 11 Unmodified _NKKLPKELLLR_ 0 0 0 ENSG00000153558|ENST00000484457|FBXL2;ENST00000497411.5_1_3:33319004-33339218:+|nuORF;ENST00000283627.10_1_3:33319004-33400787:+|nuORF;ENST00000483037.5_1_3:33319849-33342019:+|nuORF;nc|ENSG00000153558|Q9UKC9-2|FBXL2;nc|ENSG00000108306|Q96IG2-2|FBXL20;ENSG00000108306|ENST00000264658|FBXL20 ENSG00000153558|ENST00000484457|FBXL2 ENSG00000153558|ENST00000484457|FBXL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.17333984375 3 451.297645 1350.87111 NaN NaN NaN NaN NaN NaN NaN 56.726 1 57.504 57.004 58.004 0.77786 0 0 0 1.0053 1 25943 25943 3.8459 2.3908 1 20862 3788 13086 13142 24339 24339 0.2097043761614259 NKKNILKT 8 Unmodified _NKKNILKT_ 0 0 0 REV__ENST00000538944.1_1_11:68512411-68514777:-|nuORF REV__ENST00000538944.1_1_11:68512411-68514777:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 320.2079772949219 3 320.206315 957.597115 NaN NaN NaN NaN NaN NaN NaN 57.693 1 57.958 57.458 58.458 0.26444 0 0 0 0.99035 1 26414 26414 1.4819 0.41044 1 + 20863 17196 13087 13143 24340 24340 0.11662039576845018 NKKNISKIA 9 Unmodified _NKKNISKIA_ 0 0 0 REV__ENSG00000083290|ENST00000395544|ULK2 REV__ENSG00000083290|ENST00000395544|ULK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.21240234375 3 339.213469 1014.61858 NaN NaN NaN NaN NaN NaN NaN 67.163 1 67.82 67.32 68.32 0.65777 0 0 0 0.8974 1 30787 30787 4.1895 1.9067 1 + 20864 10625 13088 13144 24341 24341 0.11185424605548633 NKKNKLTQ 8 Unmodified _NKKNKLTQ_ 0 0 0 ENSG00000125730|ENST00000245907|C3;CON__Q2UVX4 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2950439453125 2 487.293091 972.571629 3.1877 0.0015533 0.06083 2.9642E-05 3.2485 0.001583 487.29298025470536 85.121 0.72693 85.369 85.174 85.901 0.24758 87 41 3 0 0 0 0.7441 2 39131 39131;39236 2.3027 0 1 967810 20865 2416 13089 13145 24342;24343 24342 0.08424565054417599 NKKNLRWKK 9 Unmodified _NKKNLRWKK_ 0 0 0 ENST00000395442.5_1_10:55568369-55568990:-|nuORF ENST00000395442.5_1_10:55568369-55568990:-|nuORF ENST00000395442.5_1_10:55568369-55568990:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 304.4425964355469 4 304.442466 1213.74076 2.042 0.00062167 -0.52133 -0.00015871 1.5207 0.00046296 304.69310920514596 53.077 0.27137 53.077 52.895 53.167 0 22 14 3 0 0 0 1.1849 1 24313 24313 0.96228 0 1 436470 20866 7553 13090 13146 24344 24344 0.14243886407780337 NKKNRKEPLK 10 Unmodified _NKKNRKEPLK_ 0 0 0 REV__ENST00000495376.5_1_3:98489996-98502446:+|nuORF REV__ENST00000495376.5_1_3:98489996-98502446:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 418.9269714355469 3 418.926211 1253.7568 3.2103 0.0013449 -1.1899 -0.00049846 2.0205 0.00084644 418.9255784445039 96.824 0.35414 97.426 97.267 97.621 0.6019 32 15 3 0 0 0 0.94134 1 44567 44567 0.62683 0.21856 1 990570 + 20867 16841 13091 13147 24345 24345 0.1400754785402114 NKKNSGAW 8 Unmodified _NKKNSGAW_ 0 0 0 REV__ENSG00000204020|ENST00000404459|LIPN REV__ENSG00000204020|ENST00000404459|LIPN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 302.1606140136719 3 302.159365 903.456264 NaN NaN NaN NaN NaN NaN NaN 53.679 1 53.944 53.444 54.444 0.26462 0 0 0 0.99035 1 24550 24550 1.4819 0 1 + 20868 14397 13092 13148 24346 24346 0.0006746092342382326 NKKNSIVVV 9 Unmodified _NKKNSIVVV_ 0 0 0 REV__ZBTB24|p.V199Cfs*3|1|0.29|ENSG00000112365|chr6:109481432-109481433|-/A|frameshift_variant REV__ZBTB24|p.V199Cfs*3|1|0.29|ENSG00000112365|chr6:109481432-109481433|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.21112060546875 3 334.209836 999.60768 2.3719 0.0007927 1.3832 0.00046228 3.7551 0.001255 334.21036745778224 27.09 0.23967 27.355 27.258 27.498 0.26489 25 15 2 0 0 0 0.81759 1 12346 12346 7.1017 0 1 443920 + 20869 11272 13093 13149 24347 24347 0.10786022231275183 NKKNYVIYV 9 Unmodified _NKKNYVIYV_ 0 0 0 ENST00000538944.1_1_11:68512411-68514777:-|nuORF ENST00000538944.1_1_11:68512411-68514777:-|nuORF ENST00000538944.1_1_11:68512411-68514777:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 380.88616943359375 3 380.885241 1139.63389 2.0055 0.00076388 1.1079 0.00042197 3.1134 0.0011858 380.88547425905836 62.33 0.29346 63.061 62.893 63.186 0.73077 97 46 3 0 0 0 0.98132 1 28956 28956 2.4985 0.21571 1 7090800 20870 8788 13094 13150 24348 24348 0.06966291402750358 NKKNYVIYV 9 Unmodified _NKKNYVIYV_ 0 0 0 ENST00000538944.1_1_11:68512411-68514777:-|nuORF ENST00000538944.1_1_11:68512411-68514777:-|nuORF ENST00000538944.1_1_11:68512411-68514777:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.886474609375 3 380.885241 1139.63389 2.6475 0.0010084 1.1133 0.00042403 3.7607 0.0014324 380.8855920041379 63.301 0.34825 63.549 63.349 63.697 0.24803 70 20 4 0 0 0 0.98132 1 29036 29036 2.4985 0 1 15503000 20871 8788 13094 13150 24349 24349 0.06966291402750358 NKKQVSYFL 9 Unmodified _NKKQVSYFL_ 0 0 0 THE1B-int_dup1888|chr6:111282961-111284170:-|1.7370166059662973|0.0871552847339515|4.32|531.0|51|2|anti-sense THE1B-int_dup1888|chr6:111282961-111284170:-|1.7370166059662973|0.0871552847339515|4.32|531.0|51|2|anti-sense THE1B-int_dup1888|chr6:111282961-111284170:-|1.7370166059662973|0.0871552847339515|4.32|531.0|51|2|anti-sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.2147521972656 3 376.213358 1125.61824 2.099 0.00078968 1.0518 0.00039568 3.1508 0.0011854 376.2136815504201 55.406 0.27513 56.194 56.022 56.297 0.78711 56 24 4 0 0 0 0.81759 1 25252 25252 7.1017 3.1573 1 1443600 20872 18264 13095 13151 24350 24350 0.060460048857066795 NKKQVSYFL 9 Unmodified _NKKQVSYFL_ 0 0 0 THE1B-int_dup1888|chr6:111282961-111284170:-|1.7370166059662973|0.0871552847339515|4.32|531.0|51|2|anti-sense THE1B-int_dup1888|chr6:111282961-111284170:-|1.7370166059662973|0.0871552847339515|4.32|531.0|51|2|anti-sense THE1B-int_dup1888|chr6:111282961-111284170:-|1.7370166059662973|0.0871552847339515|4.32|531.0|51|2|anti-sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.2147216796875 3 376.213358 1125.61824 2.6517 0.00099762 0.73861 0.00027788 3.3904 0.0012755 376.213603144372 56.018 0.6312 56.283 55.937 56.568 0.26543 86 26 4 0 0 0 0.81759 1 25610 25610 7.1017 0 1 3026000 20873 18264 13095 13151 24351 24351 0.060460048857066795 NKKQVSYFL 9 Unmodified _NKKQVSYFL_ 0 0 0 THE1B-int_dup1888|chr6:111282961-111284170:-|1.7370166059662973|0.0871552847339515|4.32|531.0|51|2|anti-sense THE1B-int_dup1888|chr6:111282961-111284170:-|1.7370166059662973|0.0871552847339515|4.32|531.0|51|2|anti-sense THE1B-int_dup1888|chr6:111282961-111284170:-|1.7370166059662973|0.0871552847339515|4.32|531.0|51|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.2148132324219 3 376.213358 1125.61824 NaN NaN NaN NaN NaN NaN NaN 62.086 1 62.339 61.839 62.839 0.25245 0 0 0 0.906 1 28424 28424 2.086 0.34373 1 20874 18264 13095 13151 24352 24352 0.060460048857066795 NKKRKHKRKLN 11 Unmodified _NKKRKHKRKLN_ 0 0 0 REV__ENSG00000175931|ENST00000319380|UBE2O REV__ENSG00000175931|ENST00000319380|UBE2O MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.749755859375 3 483.979421 1448.91643 3.023 0.0014631 2.6884 0.0013011 5.7114 0.0027642 483.9813805230787 46.785 0.17101 46.785 46.738 46.909 0 7 5 2 0 0 0 0.13295 1 21455 21455 0.094841 0 1 259410 + 20875 13685 13096 13152 24353 24353 0.2099310092187352 NKKRKRKKRKK 11 Unmodified _NKKRKRKKRKK_ 0 0 0 REV__nc|ENSG00000186566|Q9UKJ3-2|GPATCH8 REV__nc|ENSG00000186566|Q9UKJ3-2|GPATCH8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 749.84326171875 2 749.51806 1497.02157 NaN NaN NaN NaN NaN NaN NaN 106.9 1 107.5 107 108 0.60074 0 0 0 1.008 1 49348 49348 0.30703 0 1 + 20876 14062 13097 13153 24354 24354 0.2929364211825032 NKKRRKMVLVF 11 Unmodified _NKKRRKMVLVF_ 0 0 0 REV__nc|ENSG00000165300|O94991-2|SLITRK5 REV__nc|ENSG00000165300|O94991-2|SLITRK5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 710.3458862304688 2 709.942473 1417.87039 NaN NaN NaN NaN NaN NaN NaN 74.094 1 74.094 73.594 74.594 0 0 0 0 1.0057 1 36162 36162 3.2813 1.9518 1 + 20877 13151 13098 13154 24355 24355 0.17817319695404876 NKKTIIGLVIG 11 Unmodified _NKKTIIGLVIG_ 0 0 0 REV__nc|ENSG00000109572|P51790-2|CLCN3 REV__nc|ENSG00000109572|P51790-2|CLCN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.041259765625 2 578.376623 1154.73869 NaN NaN NaN NaN NaN NaN NaN 47.228 1 47.88 47.38 48.38 0.65219 0 0 0 1.0075 1 21627 21627 0.96228 0 1 + 20878 17889 13099 13155 24356 24356 0.16751412879307281 NKKVANLKH 9 Unmodified _NKKVANLKH_ 0 0 0 ENST00000536573.6_1_12:1213918-1353789:+|nuORF;nc|ENSG00000082805|Q8IUD2-5|ERC1;nc|ENSG00000082805|Q8IUD2-4|ERC1;nc|ENSG00000082805|Q8IUD2-2|ERC1;nc|ENSG00000082805|Q8IUD2-3|ERC1;ENSG00000082805|ENST00000360905|ERC1;ENSG00000187672|ENST00000288221|ERC2 ENST00000536573.6_1_12:1213918-1353789:+|nuORF ENST00000536573.6_1_12:1213918-1353789:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.2175598144531 3 351.217214 1050.62981 NaN NaN NaN NaN NaN NaN NaN 74.869 1 75.128 74.628 75.628 0.25831 0 0 0 0.91014 1 34439 34439 1.0715 0 1 20879 933 13100 13156 24357 24357 0.10652246699669377 NKKVANLKH 9 Unmodified _NKKVANLKH_ 0 0 0 ENST00000536573.6_1_12:1213918-1353789:+|nuORF;nc|ENSG00000082805|Q8IUD2-5|ERC1;nc|ENSG00000082805|Q8IUD2-4|ERC1;nc|ENSG00000082805|Q8IUD2-2|ERC1;nc|ENSG00000082805|Q8IUD2-3|ERC1;ENSG00000082805|ENST00000360905|ERC1;ENSG00000187672|ENST00000288221|ERC2 ENST00000536573.6_1_12:1213918-1353789:+|nuORF ENST00000536573.6_1_12:1213918-1353789:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.2174987792969 3 351.217214 1050.62981 NaN NaN NaN NaN NaN NaN NaN 84.976 1 85.224 84.724 85.724 0.24757 0 0 0 0.91014 1 39107 39107 1.0715 0 1 20880 933 13100 13156 24358 24358 0.10652246699669377 NKKVAVELK 9 Unmodified _NKKVAVELK_ 0 0 0 nc|ENSG00000166783|Q9Y4F3-3|MARF1;nc|ENSG00000166783|Q9Y4F3-4|MARF1;nc|ENSG00000166783|Q9Y4F3-5|MARF1;ENSG00000166783|ENST00000396368|MARF1;nc|ENSG00000166783|Q9Y4F3-6|MARF1;ENST00000548216.2_1_16:15729470-15733102:-|nuORF nc|ENSG00000166783|Q9Y4F3-3|MARF1 nc|ENSG00000166783|Q9Y4F3-3|MARF1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.1999816894531 3 343.553603 1027.63898 3.0104 0.0010342 -0.83705 -0.00028757 2.1733 0.00074666 343.5532528956688 31.216 0.1748 31.472 31.378 31.552 0.25614 21 13 2 0 0 0 0.11293 1 14170 14170 2.4985 0 1 199400 20881 4506 13101 13157 24359 24359 0.12626595265373908 NKLAVSPN 8 Unmodified _NKLAVSPN_ 0 0 0 ENSG00000177853|ENST00000316045|ZNF518A ENSG00000177853|ENST00000316045|ZNF518A ENSG00000177853|ENST00000316045|ZNF518A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.73931884765625 2 421.74016 841.465767 NaN NaN NaN NaN NaN NaN NaN 74.173 1 74.431 73.931 74.931 0.25876 0 0 0 0.99035 1 34098 34098 4.3292 0 1 20882 5137 13102 13158 24360 24360 0.03869229208953584 NKLGKEVLV 9 Unmodified _NKLGKEVLV_ 0 0 0 ENSG00000217128|ENST00000510461|FNIP1;nc|ENSG00000217128|Q8TF40-3|FNIP1 ENSG00000217128|ENST00000510461|FNIP1 ENSG00000217128|ENST00000510461|FNIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.3369445800781 3 333.878087 998.612431 2.0031 0.0006688 2.1427 0.00071539 4.1458 0.0013842 333.87868736288465 55.686 0.072838 56.473 56.418 56.491 0.78711 5 4 2 0 0 0 0.98132 1 25420 25420 2.4985 0 1 397970 20883 6140 13103 13159 24361 24361 0.11306906374045411 NKLGLQKAKHL 11 Unmodified _NKLGLQKAKHL_ 0 0 0 REV__ENSG00000177000|ENST00000376590|MTHFR REV__ENSG00000177000|ENST00000376590|MTHFR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 417.2644348144531 3 417.262823 1248.76664 NaN NaN NaN NaN NaN NaN NaN 75.845 1 76.508 76.008 77.008 0.6635 0 0 0 1.0073 1 36738 36738 1.2148 0.80657 1 + 20884 13722 13104 13160 24362 24362 0.15220735859406886 NKLIAQKQ 8 Unmodified _NKLIAQKQ_ 0 0 0 ENSG00000014123|ENST00000369278|UFL1;nc|ENSG00000014123|O94874-3|UFL1 ENSG00000014123|ENST00000369278|UFL1 ENSG00000014123|ENST00000369278|UFL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 471.788330078125 2 471.790184 941.565815 NaN NaN NaN NaN NaN NaN NaN 74.308 1 74.995 74.495 75.495 0.68662 0 0 0 0.89651 1 35913 35913 12.532 3.1484 1 20885 433 13105 13161 24363 24363 0.0926946654275298 NKLIVIHIV 9 Unmodified _NKLIVIHIV_ 0 0 0 Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|154|2|anti-sense Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|154|2|anti-sense Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|154|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.2334899902344 3 350.234093 1047.68045 NaN NaN NaN NaN NaN NaN NaN 52.58 1 52.58 52.08 53.08 0 0 0 0 0.91014 1 24079 24079 1.0715 0.3738 1 20886 9384 13106 13162 24364 24364 0.158517760246923 NKLKIKKC 8 Unmodified _NKLKIKKC_ 0 0 0 REV__L1PB1_dup998|chr2:34715538-34720489:-|4.098121381973527|0.252296353110605|4.02|532.0|148|3|sense REV__L1PB1_dup998|chr2:34715538-34720489:-|4.098121381973527|0.252296353110605|4.02|532.0|148|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.8132019042969 2 487.812605 973.610657 NaN NaN NaN NaN NaN NaN NaN 79.997 1 79.997 79.497 80.497 0 0 0 0 0.99035 1 39611 39611 2.5775 0.27475 1 + 20887 17810 13107 13163 24365 24365 0.12279574084425349 NKLKTITAY 9 Unmodified _NKLKTITAY_ 0 0 0 ENSG00000137574|ENST00000260129|TGS1 ENSG00000137574|ENST00000260129|TGS1 ENSG00000137574|ENST00000260129|TGS1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.24432373046875 3 351.209725 1050.60735 2.3438 0.00082315 0.69223 0.00024312 3.036 0.0010663 351.20998601782406 26.723 0.13737 27.344 27.275 27.412 0.62179 14 10 2 0 0 0 0.11316 1 12272 12272 2.2828 1.2113 1 250480 20888 3028 13108 13164 24366 24366 0.08406602511422534 NKLKTQYCWLN 11 Unmodified _NKLKTQYCWLN_ 0 0 0 REV__ENST00000523561.1_1_8:99044328-99047937:+|nuORF REV__ENST00000523561.1_1_8:99044328-99047937:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.91070556640625 3 470.911462 1409.71256 NaN NaN NaN NaN NaN NaN NaN 71.364 1 71.364 70.864 71.864 0 0 0 0 1.0074 1 34689 34689 1.1098 0 1 + 20889 17066 13109 13165 24367 24367 0.024087756455401177 NKLKVLKH 8 Unmodified _NKLKVLKH_ 0 0 0 ENST00000330736.9_1_16:89334888-89371640:-|nuORF;ENSG00000167522|ENST00000301030|ANKRD11;ANKRD11|p.P753Rfs*6|1|0.24|ENSG00000167522|chr16:89284284-89284284|G/-|frameshift_variant;ANKRD11|p.V1303Sfs*15|1|0.19|ENSG00000167522|chr16:89282635-89282635|C/-|frameshift_variant ENST00000330736.9_1_16:89334888-89371640:-|nuORF ENST00000330736.9_1_16:89334888-89371640:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.41778564453125 2 490.324194 978.633835 NaN NaN NaN NaN NaN NaN NaN 60.697 1 61.436 60.936 61.936 0.7396 0 0 0 0.89651 1 28053 28053 12.532 1.7076 1 20890 4558 13110 13166 24368 24368 0.14366336193415918 NKLKVQAQ 8 Unmodified _NKLKVQAQ_ 0 0 0 ENSG00000174799|ENST00000257287|CEP135 ENSG00000174799|ENST00000257287|CEP135 ENSG00000174799|ENST00000257287|CEP135 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.7842712402344 2 464.782359 927.550165 NaN NaN NaN NaN NaN NaN NaN 65.148 1 65.148 64.648 65.648 0 0 0 0 0.81105 1 30984 30984 18.135 4.2289 1 20891 4997 13111 13167 24369 24369 0.08349180025697933 NKLLARAAPA 10 Unmodified _NKLLARAAPA_ 0 0 0 nc|ENSG00000134769|Q9Y4J8-4|DTNA;nc|ENSG00000134769|Q9Y4J8-3|DTNA;nc|ENSG00000134769|Q9Y4J8|DTNA;ENSG00000134769|ENST00000444659|DTNA;nc|ENSG00000134769|Q9Y4J8-6|DTNA;nc|ENSG00000134769|Q9Y4J8-11|DTNA nc|ENSG00000134769|Q9Y4J8-4|DTNA nc|ENSG00000134769|Q9Y4J8-4|DTNA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.2131042480469 3 342.213581 1023.61891 NaN NaN NaN NaN NaN NaN NaN 29.528 1 30.317 29.817 30.817 0.78921 0 0 0 1.0012 1 13313 13313 0.69767 0.29695 1 20892 2829 13112 13168 24370 24370 0.10804844325400609 NKLLFLLL 8 Unmodified _NKLLFLLL_ 0 0 0 REV__ENSG00000124212|ENST00000244043|PTGIS REV__ENSG00000124212|ENST00000244043|PTGIS MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 325.0531005859375 3 325.219673 972.637189 2.4418 0.00079411 -0.42725 -0.00013895 2.0145 0.00065516 325.2195308316095 42.669 0.5148 42.939 42.511 43.025 0.27021 31 25 2 0 0 0 0.14313 1 19397 19397 1.6526 0 1 1141000 + 20893 11643 13113 13169 24371 24371 0.14977586247414365 NKLLGKNGTG 10 Unmodified _NKLLGKNGTG_ 0 0 0 TPX2|p.E658Dfs*24|1|0.32|ENSG00000088325|chr20:31798392-31798392|A/-|frameshift_variant;ENSG00000088325|ENST00000300403|TPX2;nc|ENSG00000088325|Q9ULW0-2|TPX2 TPX2|p.E658Dfs*24|1|0.32|ENSG00000088325|chr20:31798392-31798392|A/-|frameshift_variant TPX2|p.E658Dfs*24|1|0.32|ENSG00000088325|chr20:31798392-31798392|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.2923889160156 2 501.290548 1000.56654 3.0512 0.0015295 0.63904 0.00032035 3.6902 0.0018499 501.2907932816766 78.748 1.673 78.999 78.211 79.884 0.25127 201 105 2 0 0 0 0.90859 1 36114 36114 3.2813 0.54611 1 1159000 20894 1012 13114 13170 24372 24372 0.06628261191804086 NKLLGKNGTG 10 Unmodified _NKLLGKNGTG_ 0 0 0 TPX2|p.E658Dfs*24|1|0.32|ENSG00000088325|chr20:31798392-31798392|A/-|frameshift_variant;ENSG00000088325|ENST00000300403|TPX2;nc|ENSG00000088325|Q9ULW0-2|TPX2 TPX2|p.E658Dfs*24|1|0.32|ENSG00000088325|chr20:31798392-31798392|A/-|frameshift_variant TPX2|p.E658Dfs*24|1|0.32|ENSG00000088325|chr20:31798392-31798392|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.2925109863281 2 501.290548 1000.56654 3.1802 0.0015942 0.52714 0.00026425 3.7073 0.0018584 501.2907464807802 78.42 2.0239 79.082 78.283 80.307 0.66198 237 131 2 0 0 0 0.90859 1 35825 35825 3.2813 0.54611 1 1407600 20895 1012 13114 13170 24373 24373 0.06628261191804086 NKLRGPKS 8 Unmodified _NKLRGPKS_ 0 0 0 nc|ENSG00000176731|Q8N0T1-2|RBIS;ENST00000523245.1_1_8:86129602-86132627:-|nuORF;ENSG00000176731|ENST00000619594|RBIS nc|ENSG00000176731|Q8N0T1-2|RBIS nc|ENSG00000176731|Q8N0T1-2|RBIS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.275390625 2 450.274701 898.534849 1.8534 0.00083455 0.26539 0.0001195 2.1188 0.00095405 450.27469641160707 88.561 0.34267 88.613 88.406 88.749 0.052147 100 46 3 0 0 0 0.74709 1 45191 45191 2.0598 0.21551 1 37735000 20896 5087 13115 13171 24374 24374 0.08152313228515595 NKLRVAVPLLS 11 Unmodified _NKLRVAVPLLS_ 0 0 0 ENST00000575714.5_1_16:4408319-4455566:-|nuORF;ENST00000573773.5_1_16:4411919-4414432:-|nuORF;ENST00000571756.5_1_16:4411919-4455566:-|nuORF;ENST00000575531.5_1_16:4407102-4412712:-|nuORF;nc|ENSG00000262246|P57737-2|CORO7;nc|ENSG00000262246|P57737-4|CORO7;ENSG00000262246|ENST00000251166|CORO7;nc|ENSG00000262246|P57737-3|CORO7 ENST00000575714.5_1_16:4408319-4455566:-|nuORF;ENST00000575531.5_1_16:4407102-4412712:-|nuORF ENST00000575531.5_1_16:4407102-4412712:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.93011474609375 3 403.92744 1208.76049 NaN NaN NaN NaN NaN NaN NaN 43.808 1 44.077 43.577 44.577 0.2694 0 0 0 0.97845 1 20011 20011 4.4062 2.8139 1 20897 6313;9121 13116 13172 24375 24375 0.16446217627890292 NKLTKKKT 8 Unmodified _NKLTKKKT_ 0 0 0 REV__nc|ENSG00000084093|Q13127-4|REST REV__nc|ENSG00000084093|Q13127-4|REST MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.81201171875 2 480.813659 959.612765 NaN NaN NaN NaN NaN NaN NaN 60.068 1 60.817 60.317 61.317 0.74927 0 0 0 0.99035 1 27640 27640 2.5775 0 1 + 20898 10634 13117 13173 24376 24376 0.13134326093893378 NKLTKRLKS 9 Unmodified _NKLTKRLKS_ 0 0 0 ENST00000461652.2_1_13:31835091-31857210:+|nuORF;ENSG00000187676|ENST00000343307|B3GLCT ENST00000461652.2_1_13:31835091-31857210:+|nuORF ENST00000461652.2_1_13:31835091-31857210:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.9876403808594 3 363.236385 1086.68733 NaN NaN NaN NaN NaN NaN NaN 41.902 1 42.549 42.049 43.049 0.64693 0 0 0 0.90519 1 19180 19180 2.2828 0.80087 1 20899 5628 13118 13174 24377 24377 0.14745088905260673 NKLYFHSM 8 Unmodified _NKLYFHSM_ 0 0 0 ENST00000563779.5_1_16:81009934-81010045:-|nuORF ENST00000563779.5_1_16:81009934-81010045:-|nuORF ENST00000563779.5_1_16:81009934-81010045:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.1853942871094 3 347.172505 1038.49569 NaN NaN NaN NaN NaN NaN NaN 80.41 1 81.07 80.57 81.57 0.65998 0 0 0 0.99035 1 37054 37054 1.6526 0.17072 1 20900 9019 13119 13175 24378 24378 -0.022021551173565967 NKMFSAEYEFF 11 Unmodified _NKMFSAEYEFF_ 0 0 0 nc|ENSG00000182670|P53804-3|TTC3;nc|ENSG00000182670|P53804-2|TTC3;ENSG00000182670|ENST00000418766|TTC3;ENST00000472398.5_1_21:38529111-38558109:+|nuORF nc|ENSG00000182670|P53804-3|TTC3;ENST00000472398.5_1_21:38529111-38558109:+|nuORF nc|ENSG00000182670|P53804-3|TTC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 471.4436340332031 3 471.544556 1411.61184 NaN NaN NaN NaN NaN NaN NaN 68.014 1 68.014 67.514 68.514 0 0 0 0 1.0072 1 32701 32701 0.45452 0 1 20901 5344;8187 13120 13176 24379 24379 -0.07750301127975945 NKMHLRKALKS 11 Unmodified _NKMHLRKALKS_ 0 0 0 nc|ENSG00000134874|Q86YF9-2|DZIP1;ENSG00000134874|ENST00000376829|DZIP1 nc|ENSG00000134874|Q86YF9-2|DZIP1 nc|ENSG00000134874|Q86YF9-2|DZIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 332.2020568847656 4 332.201316 1324.77616 2.2587 0.00075036 0.62544 0.00020777 2.8842 0.00095813 332.2014026852753 45.405 1.0472 46.231 45.51 46.558 0.82621 179 56 4 0 0 0 0.91149 1 20421 20421 0.36667 0.22678 1 2565600 20902 2833 13121 13177 24380 24380 0.12676180873268095 NKMPVIRV 8 Unmodified _NKMPVIRV_ 0 0 0 REV__ENST00000426595.1_1_7:55954988-55955081:+|nuORF REV__ENST00000426595.1_1_7:55954988-55955081:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 319.5292053222656 3 319.528512 955.563706 2.515 0.00080361 -1.0678 -0.00034118 1.4472 0.00046243 319.5280943402053 32.734 0.35194 32.988 32.852 33.204 0.25389 24 15 2 0 0 0 0.7471 1 14892 14892 1.6526 0 1 197320 + 20903 16218 13122 13178 24381 24381 0.08414714533296319 NKMPVIRV 8 Unmodified _NKMPVIRV_ 0 0 0 REV__ENST00000426595.1_1_7:55954988-55955081:+|nuORF REV__ENST00000426595.1_1_7:55954988-55955081:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 319.87493896484375 3 319.528512 955.563706 2.1021 0.00067168 -0.31517 -0.00010071 1.7869 0.00057097 319.52832638629656 32.1 0.43238 32.719 32.43 32.862 0.61832 37 23 2 0 0 0 0.14313 1 14744 14744 1.6526 0 1 134660 + 20904 16218 13122 13178 24382 24382 0.08414714533296319 NKNIKKFL 8 Unmodified _NKNIKKFL_ 0 0 0 ENST00000522354.1_1_8:69760984-69761020:-|nuORF ENST00000522354.1_1_8:69760984-69761020:-|nuORF ENST00000522354.1_1_8:69760984-69761020:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.54742431640625 3 335.54656 1003.61785 2.2255 0.00074675 0.71457 0.00023977 2.9401 0.00098652 335.5467582329026 16.907 0.57841 17.211 16.923 17.501 0.30438 101 52 3 0 0 0 0.70146 1 7639 7639 3.9444 0 1 174230 20905 8650 13123 13179 24383 24383 0.11618629956512905 NKNIKKFL 8 Unmodified _NKNIKKFL_ 0 0 0 ENST00000522354.1_1_8:69760984-69761020:-|nuORF ENST00000522354.1_1_8:69760984-69761020:-|nuORF ENST00000522354.1_1_8:69760984-69761020:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.5473327636719 3 335.54656 1003.61785 2.3354 0.00078363 1.0165 0.00034107 3.3518 0.0011247 335.5468163106837 16.809 0.63602 17.47 17.058 17.694 0.66072 121 59 3 0 0 0 0.70146 1 7507 7507 3.9444 0 1 209960 20906 8650 13123 13179 24384 24384 0.11618629956512905 NKNKAGQMA 9 Unmodified _NKNKAGQMA_ 0 0 0 REV__nc|ENSG00000164175|Q9UMX9-4|SLC45A2 REV__nc|ENSG00000164175|Q9UMX9-4|SLC45A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 321.1685485839844 3 321.167643 960.481099 NaN NaN NaN NaN NaN NaN NaN 89.141 1 89.392 88.892 89.892 0.25118 0 0 0 0.91014 1 41000 41000 1.0715 0.61312 1 + 20907 13072 13124 13180 24385 24385 -0.0007222726550253356 NKNKARPR 8 Unmodified _NKNKARPR_ 0 0 0 REV__ENST00000470393.1_1_3:98526911-98531458:-|nuORF REV__ENST00000470393.1_1_3:98526911-98531458:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.2990417480469 2 492.296499 982.578445 NaN NaN NaN NaN NaN NaN NaN 51.805 1 51.805 51.305 52.305 0 0 0 0 0.99035 1 23717 23717 4.756 0.42677 1 + 20908 16592 13125 13181 24386 24386 0.08645922725645505 NKNKARPR 8 Unmodified _NKNKARPR_ 0 0 0 REV__ENST00000470393.1_1_3:98526911-98531458:-|nuORF REV__ENST00000470393.1_1_3:98526911-98531458:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.25079345703125 2 492.296499 982.578445 NaN NaN NaN NaN NaN NaN NaN 65.679 1 66.336 65.836 66.836 0.65672 0 0 0 0.99035 1 30110 30110 4.756 0 1 + 20909 16592 13125 13181 24387 24387 0.08645922725645505 NKNKGGKR 8 Unmodified _NKNKGGKR_ 0 0 0 REV__ENST00000296785.7_1_5:72858805-72861416:-|nuORF REV__ENST00000296785.7_1_5:72858805-72861416:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.27130126953125 2 451.26995 900.525347 2.2402 0.0010109 0.34326 0.0001549 2.5834 0.0011658 451.270039310823 75.822 0.27092 76.485 76.345 76.616 0.6635 38 22 2 0 0 0 0.7441 1 36757 36757 2.3027 0 1 1166300 + 20910 15159 13126 13182 24388 24388 0.07110544942997876 NKNKGGKR 8 Unmodified _NKNKGGKR_ 0 0 0 REV__ENST00000296785.7_1_5:72858805-72861416:-|nuORF REV__ENST00000296785.7_1_5:72858805-72861416:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.27166748046875 2 451.26995 900.525347 2.5835 0.0011659 0.69165 0.00031212 3.2752 0.001478 451.27025279375795 75.995 0.29939 76.252 76.082 76.381 0.25704 54 22 3 0 0 0 0.7441 2 34945 34945;35009 2.3027 0.24298 1 1535900 + 20911 15159 13126 13182 24389;24390 24389 0.07110544942997876 NKNKGGKR 8 Unmodified _NKNKGGKR_ 0 0 0 REV__ENST00000296785.7_1_5:72858805-72861416:-|nuORF REV__ENST00000296785.7_1_5:72858805-72861416:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.2717590332031 2 451.26995 900.525347 2.663 0.0012017 0.3519 0.0001588 3.0149 0.0013605 451.27006861109186 75.622 0.30727 76.286 76.119 76.427 0.6644 53 28 2 0 0 0 0.7441 1 34852 34852 2.3027 0 1 2038200 + 20912 15159 13126 13182 24391 24391 0.07110544942997876 NKNKIRNIHHI 11 Unmodified _NKNKIRNIHHI_ 0 0 0 REV__L1PBa_dup1914|chr16:20454552-20458311:+|1.873729371871474|0.2397336971051269|2.97|524.0|33|1|sense REV__L1PBa_dup1914|chr16:20454552-20458311:+|1.873729371871474|0.2397336971051269|2.97|524.0|33|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 693.9103393554688 2 693.907476 1385.8004 NaN NaN NaN NaN NaN NaN NaN 61.472 1 61.472 60.972 61.972 0 0 0 0 1.0041 1 28674 28674 5.2969 0.39987 1 + 20913 17813 13127 13183 24392 24392 0.12293157351177797 NKNKITITN 9 Unmodified _NKNKITITN_ 0 0 0 ENSG00000044574|ENST00000324460|HSPA5;ENST00000509378.1_1_4:165110937-165111516:+|nuORF ENSG00000044574|ENST00000324460|HSPA5 ENSG00000044574|ENST00000324460|HSPA5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.3070678710938 2 523.303655 1044.59276 NaN NaN NaN NaN NaN NaN NaN 79.749 1 79.999 79.499 80.499 0.24947 0 0 0 0.90699 1 36721 36721 1.8442 0.19162 1 20914 550 13128 13184 24393 24393 0.07224530363282611 NKNKIVPF 8 Unmodified _NKNKIVPF_ 0 0 0 REV__ENSG00000011260|ENST00000225298|UTP18 REV__ENSG00000011260|ENST00000225298|UTP18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.28973388671875 2 480.287277 958.560001 3.2956 0.0015828 1.3916 0.00066838 4.6872 0.0022512 480.28795950818653 88.927 0.15689 89.605 89.565 89.721 0.67818 9 5 2 0 0 0 0.7441 1 40984 40984 2.3027 0.24298 1 297630 + 20915 10233 13129 13185 24394 24394 0.07906368031081001 NKNKKIDK 8 Unmodified _NKNKKIDK_ 0 0 0 REV__nc|ENSG00000150093|P05556-2|ITGB1 REV__nc|ENSG00000150093|P05556-2|ITGB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.3028259277344 2 494.300916 986.587279 3.3971 0.0016792 0.21019 0.0001039 3.6073 0.0017831 494.3010506939187 92.907 0.98569 93.554 93.303 94.289 0.64714 140 49 5 0 0 0 0.7471 1 42842 42842 0.69038 0.088878 1 67270000 + 20916 12585 13130 13186 24395 24395 0.09344851571472645 NKNKLHLKG 9 Unmodified _NKNKLHLKG_ 0 0 0 REV__AluSx1_dup115567|chr22:37850323-37850638:-|1.098550202306117|0.0814422826841487|3.75|540.0|11|3|sense REV__AluSx1_dup115567|chr22:37850323-37850638:-|1.098550202306117|0.0814422826841487|3.75|540.0|11|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.2176208496094 3 351.217214 1050.62981 2.3422 0.00082262 1.8332 0.00064385 4.1754 0.0014665 351.21718341737187 63.659 0.34499 63.907 63.587 63.932 0.24803 24 18 2 0 0 0 1.0894 1 29159 29159 2.4985 0.21571 1 607910 + 20917 9953 13131 13187 24396 24396 0.10652246699692114 NKNKLHLKG 9 Unmodified _NKNKLHLKG_ 0 0 0 REV__AluSx1_dup115567|chr22:37850323-37850638:-|1.098550202306117|0.0814422826841487|3.75|540.0|11|3|sense REV__AluSx1_dup115567|chr22:37850323-37850638:-|1.098550202306117|0.0814422826841487|3.75|540.0|11|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.218505859375 3 351.217214 1050.62981 NaN NaN NaN NaN NaN NaN NaN 68.101 1 68.353 67.853 68.853 0.25227 0 0 0 0.90519 1 31197 31197 2.2828 1.2113 1 + 20918 9953 13131 13187 24397 24397 0.10652246699692114 NKNKLHLKG 9 Unmodified _NKNKLHLKG_ 0 0 0 REV__AluSx1_dup115567|chr22:37850323-37850638:-|1.098550202306117|0.0814422826841487|3.75|540.0|11|3|sense REV__AluSx1_dup115567|chr22:37850323-37850638:-|1.098550202306117|0.0814422826841487|3.75|540.0|11|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.2176818847656 3 351.217214 1050.62981 NaN NaN NaN NaN NaN NaN NaN 69.256 1 69.51 69.01 70.01 0.25443 0 0 0 0.90519 1 31718 31718 2.2828 0 1 + 20919 9953 13131 13187 24398 24398 0.10652246699692114 NKNKLHLKG 9 Unmodified _NKNKLHLKG_ 0 0 0 REV__AluSx1_dup115567|chr22:37850323-37850638:-|1.098550202306117|0.0814422826841487|3.75|540.0|11|3|sense REV__AluSx1_dup115567|chr22:37850323-37850638:-|1.098550202306117|0.0814422826841487|3.75|540.0|11|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.2176513671875 3 351.217214 1050.62981 NaN NaN NaN NaN NaN NaN NaN 76.831 1 77.087 76.587 77.587 0.25533 0 0 0 0.90519 1 35379 35379 2.2828 0.5405 1 + 20920 9953 13131 13187 24399 24399 0.10652246699692114 NKNKNVKP 8 Unmodified _NKNKNVKP_ 0 0 0 REV__ENSG00000187091|ENST00000334661|PLCD1 REV__ENSG00000187091|ENST00000334661|PLCD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.58843994140625 2 471.279983 940.545414 NaN NaN NaN NaN NaN NaN NaN 76.926 1 77.589 77.089 78.089 0.66303 0 0 0 0.99035 1 35448 35448 4.756 1.1595 1 + 20921 14085 13132 13188 24400 24400 0.0727629588294576 NKNKNVKP 8 Unmodified _NKNKNVKP_ 0 0 0 REV__ENSG00000187091|ENST00000334661|PLCD1 REV__ENSG00000187091|ENST00000334661|PLCD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.2814025878906 2 471.279983 940.545414 NaN NaN NaN NaN NaN NaN NaN 77.651 1 78.315 77.815 78.815 0.66303 0 0 0 0.99035 1 35786 35786 4.756 0.42677 1 + 20922 14085 13132 13188 24401 24401 0.0727629588294576 NKNKRKKH 8 Unmodified _NKNKRKKH_ 0 0 0 REV__nc|ENSG00000163875|Q9HAF1-2|MEAF6 REV__nc|ENSG00000163875|Q9HAF1-2|MEAF6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.55224609375 3 351.552708 1051.63629 NaN NaN NaN NaN NaN NaN NaN 64.789 1 65.037 64.537 65.537 0.24803 0 0 0 0.99035 1 29683 29683 6.2058 3.7073 1 + 20923 13039 13133 13189 24402 24402 0.11254184651079413 NKNKSHVL 8 Unmodified _NKNKSHVL_ 0 0 0 ENST00000392952.7_1_10:116195035-116195137:-|nuORF ENST00000392952.7_1_10:116195035-116195137:-|nuORF ENST00000392952.7_1_10:116195035-116195137:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.2740478515625 2 470.272158 938.529764 3.0616 0.0014398 0.44973 0.0002115 3.5114 0.0016513 470.2723352993269 83.029 0.23218 83.689 83.599 83.831 0.66019 21 12 2 0 0 0 0.7471 1 38256 38256 2.3027 0 1 241970 20924 7525 13134 13190 24403 24403 0.05804009365908769 NKNKTKRKK 9 Unmodified _NKNKTKRKK_ 0 0 0 REV__ENST00000306376.9_1_3:185765504-185765672:-|nuORF REV__ENST00000306376.9_1_3:185765504-185765672:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 572.867919921875 2 572.867289 1143.72002 NaN NaN NaN NaN NaN NaN NaN 57.448 1 58.116 57.616 58.616 0.66829 0 0 0 0.91238 1 26288 26288 0.52476 0 1 + 20925 15232 13135 13191 24404 24404 0.15391296028133183 NKNKVKNV 8 Unmodified _NKNKVKNV_ 0 0 0 REV__ENSG00000115816|ENST00000234170|CEBPZ REV__ENSG00000115816|ENST00000234170|CEBPZ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.2891540527344 2 472.287808 942.561064 1.8837 0.00088965 0.65271 0.00030827 2.5364 0.0011979 472.288095146516 91.099 0.35159 91.174 91.016 91.367 0.075279 123 51 3 0 0 0 0.7471 1 47186 47186 0.69038 0 1 33726000 + 20926 11383 13136 13192 24405 24405 0.0874858239999412 NKNLKKDLKH 10 Unmodified _NKNLKKDLKH_ 0 0 0 ENST00000414961.2_1_2:214162027-214228821:+|nuORF;nc|ENSG00000144451|Q8N0X2-4|SPAG16;nc|ENSG00000144451|Q8N0X2-3|SPAG16;nc|ENSG00000144451|Q8N0X2-5|SPAG16;ENSG00000144451|ENST00000331683|SPAG16 ENST00000414961.2_1_2:214162027-214228821:+|nuORF ENST00000414961.2_1_2:214162027-214228821:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 413.2512512207031 3 413.250695 1236.73025 3.1897 0.0013181 -0.95029 -0.00039271 2.2394 0.00092542 413.25014274381437 96.851 0.45332 97.453 97.267 97.72 0.6019 50 20 4 0 0 0 0.94099 1 44551 44551 0.69767 0 1 1450400 20927 3425 13137 13193 24406 24406 0.12135858962665225 NKNSGFGML 9 Unmodified _NKNSGFGML_ 0 0 0 REV__nc|ENSG00000116117|Q8TEW8-5|PARD3B REV__nc|ENSG00000116117|Q8TEW8-5|PARD3B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 323.170654296875 3 323.160377 966.459301 NaN NaN NaN NaN NaN NaN NaN 50.241 1 50.241 49.741 50.741 0 0 0 0 0.91099 1 23002 23002 0.86438 0.40604 1 + 20928 11392 13138 13194 24407 24407 -0.025270320140634794 NKPALLPV 8 Unmodified _NKPALLPV_ 0 0 0 ENSG00000130054|ENST00000252338|NALF2 ENSG00000130054|ENST00000252338|NALF2 ENSG00000130054|ENST00000252338|NALF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 426.2734069824219 2 426.271096 850.527639 NaN NaN NaN NaN NaN NaN NaN 72.397 1 72.656 72.156 73.156 0.25876 0 0 0 0.99035 1 33234 33234 2.3027 0 1 20929 2571 13139 13195 24408 24408 0.09639580628095246 NKPLAKQRP 9 Unmodified _NKPLAKQRP_ 0 0 0 REV__nc|ENSG00000125864|Q12934-3|BFSP1 REV__nc|ENSG00000125864|Q12934-3|BFSP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.5550537109375 3 351.217214 1050.62981 NaN NaN NaN NaN NaN NaN NaN 69.882 1 70.138 69.638 70.638 0.25642 0 0 0 0.90519 1 32001 32001 2.2828 0 1 + 20930 11698 13140 13196 24409 24409 0.10652246699692114 NKPLAKQRP 9 Unmodified _NKPLAKQRP_ 0 0 0 REV__nc|ENSG00000125864|Q12934-3|BFSP1 REV__nc|ENSG00000125864|Q12934-3|BFSP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.21905517578125 3 351.217214 1050.62981 NaN NaN NaN NaN NaN NaN NaN 74.516 1 75.18 74.68 75.68 0.6644 0 0 0 0.90431 1 34303 34303 2.4985 0.21571 1 + 20931 11698 13140 13196 24410 24410 0.10652246699692114 NKPLTLII 8 Unmodified _NKPLTLII_ 0 0 0 REV__ENSG00000110367|ENST00000534980|DDX6 REV__ENSG00000110367|ENST00000534980|DDX6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 304.5367126464844 3 304.535661 910.585153 NaN NaN NaN NaN NaN NaN NaN 24.411 1 24.411 23.911 24.911 0 0 0 0 0.99035 1 10971 10971 0.40072 0 1 + 20932 11202 13141 13197 24411 24411 0.1262842283365444 NKPVKRKKK 9 Unmodified _NKPVKRKKK_ 0 0 0 REV__Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|19|1|sense REV__Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|19|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.3478393554688 2 563.382574 1124.7506 NaN NaN NaN NaN NaN NaN NaN 84.021 1 84.268 83.768 84.768 0.24722 0 0 0 0.91238 1 38673 38673 0.52476 0 1 + 20933 17697 13142 13198 24412 24412 0.19321074413164752 NKQGSGRTR 9 Unmodified _NKQGSGRTR_ 0 0 0 REV__nc|nan|Q9H972-2|C14orf93 REV__nc|nan|Q9H972-2|C14orf93 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.18804931640625 3 335.184573 1002.53189 NaN NaN NaN NaN NaN NaN NaN 70.401 1 70.658 70.158 71.158 0.25642 0 0 0 0.89288 1 32242 32242 5.2969 0.76802 1 + 20934 10849 13143 13199 24413 24413 0.030724381037202875 NKQKFVLK 8 Unmodified _NKQKFVLK_ 0 0 0 nc|ENSG00000169679|O43683-2|BUB1;nc|ENSG00000169679|O43683-3|BUB1;ENSG00000169679|ENST00000302759|BUB1 nc|ENSG00000169679|O43683-2|BUB1 nc|ENSG00000169679|O43683-2|BUB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.5474548339844 3 335.54656 1003.61785 2.3354 0.00078363 1.0165 0.00034107 3.3518 0.0011247 335.5468163106837 16.809 0.63602 17.47 17.058 17.694 0.66072 121 59 3 0 0 0 0.61796 1 7603 7603 9.3831 2.66 1 209960 20935 4702 13144 13200 24414 24414 0.11618629956524273 NKQKKRRKKKK 11 Unmodified _NKQKKRRKKKK_ 0 0 0 TIMELESS|p.E974Kfs*31|1|0.04|ENSG00000111602|chr12:56421083-56421084|-/ATTTCCTTAGGCTT|frameshift_variant;nc|ENSG00000111602|Q9UNS1-2|TIMELESS;ENSG00000111602|ENST00000553532|TIMELESS TIMELESS|p.E974Kfs*31|1|0.04|ENSG00000111602|chr12:56421083-56421084|-/ATTTCCTTAGGCTT|frameshift_variant TIMELESS|p.E974Kfs*31|1|0.04|ENSG00000111602|chr12:56421083-56421084|-/ATTTCCTTAGGCTT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.6649169921875 3 490.666954 1468.97903 NaN NaN NaN NaN NaN NaN NaN 62.739 1 62.739 62.239 63.239 0 0 0 0 1.0073 1 29424 29424 1.2148 0.76031 1 20936 18276 13145 13201 24415 24415 0.2633024699002817 NKQKLGSKT 9 Unmodified _NKQKLGSKT_ 0 0 0 REV__ENST00000489193.1_1_3:86062314-86062485:+|nuORF REV__ENST00000489193.1_1_3:86062314-86062485:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 335.2020263671875 3 335.201341 1002.58219 NaN NaN NaN NaN NaN NaN NaN 55.296 1 55.296 54.796 55.796 0 0 0 0 0.87786 1 25401 25401 4.1895 1.9067 1 + 20937 16787 13146 13202 24416 24416 0.08100547708852446 NKQKLGSKT 9 Unmodified _NKQKLGSKT_ 0 0 0 REV__ENST00000489193.1_1_3:86062314-86062485:+|nuORF REV__ENST00000489193.1_1_3:86062314-86062485:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.20208740234375 3 335.201341 1002.58219 NaN NaN NaN NaN NaN NaN NaN 53.891 1 54.558 54.058 55.058 0.6665 0 0 0 0.89983 1 24646 24646 2.086 0.97625 1 + 20938 16787 13146 13202 24417 24417 0.08100547708852446 NKQKLLIKL 9 Unmodified _NKQKLLIKL_ 0 0 0 REV__nc|ENSG00000104635|Q15043-2|SLC39A14 REV__nc|ENSG00000104635|Q15043-2|SLC39A14 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.2536315917969 3 366.585015 1096.73321 2.6129 0.00095784 1.114 0.00040837 3.7269 0.0013662 366.58527372619034 30.19 0.16898 30.808 30.754 30.923 0.61736 9 7 2 0 0 0 0.11267 1 13901 13901 2.7352 0.82882 1 307960 + 20939 10996 13147 13203 24418 24418 0.18871734087520053 NKQKLLIKL 9 Unmodified _NKQKLLIKL_ 0 0 0 REV__nc|ENSG00000104635|Q15043-2|SLC39A14 REV__nc|ENSG00000104635|Q15043-2|SLC39A14 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 366.585015 1096.73321 3.0343 0.0011123 1.0209 0.00037426 4.0552 0.0014866 366.5852776697435 30.535 0.19456 30.791 30.725 30.919 0.25614 -0.0071307 0.00035187 NaN 2.7352 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 206910 + 20940 10996 13147 13203 0.18871734087520053 NKQKPLICQ 9 Unmodified _NKQKPLICQ_ 0 0 0 ENST00000261488.10_1_13:44058165-44241601:-|nuORF ENST00000261488.10_1_13:44058165-44241601:-|nuORF ENST00000261488.10_1_13:44058165-44241601:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.3028564453125 2 536.302601 1070.59065 3.1391 0.0016835 -0.98129 -0.00052627 2.1579 0.0011573 536.301960046143 61.444 0.3102 62.106 61.977 62.287 0.66261 41 16 3 0 0 0 1.0894 1 28197 28197 1.8442 0 1 2528500 20941 6560 13148 13204 24419 24419 0.05817778353821268 NKQKSVTAK 9 Unmodified _NKQKSVTAK_ 0 0 0 ENST00000495739.1_1_3:21478408-21552461:-|nuORF;ENSG00000151789|ENST00000281523|ZNF385D ENST00000495739.1_1_3:21478408-21552461:-|nuORF ENST00000495739.1_1_3:21478408-21552461:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 335.2017822265625 3 335.201341 1002.58219 NaN NaN NaN NaN NaN NaN NaN 55.426 1 55.426 54.926 55.926 0 0 0 0 0.87786 1 25472 25472 4.1895 0.31317 1 20942 3729 13149 13205 24420 24420 0.08100547708852446 NKQKSVTAK 9 Unmodified _NKQKSVTAK_ 0 0 0 ENST00000495739.1_1_3:21478408-21552461:-|nuORF;ENSG00000151789|ENST00000281523|ZNF385D ENST00000495739.1_1_3:21478408-21552461:-|nuORF ENST00000495739.1_1_3:21478408-21552461:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 335.2019958496094 3 335.201341 1002.58219 NaN NaN NaN NaN NaN NaN NaN 55.537 1 55.537 55.037 56.037 0 0 0 0 0.87786 1 25532 25532 4.1895 0 1 20943 3729 13149 13205 24421 24421 0.08100547708852446 NKQLIIIL 8 Unmodified _NKQLIIIL_ 0 0 0 REV__ENST00000409181.1_1_2:203072019-203075498:-|nuORF REV__ENST00000409181.1_1_2:203072019-203075498:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.8244934082031 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 52.377 1 52.377 51.877 52.877 0 0 0 0 0.99035 1 23984 23984 0.69038 0 1 + 20944 16091 13150 13206 24422 24422 0.14868398242049352 NKQLIIIL 8 Unmodified _NKQLIIIL_ 0 0 0 REV__ENST00000409181.1_1_2:203072019-203075498:-|nuORF REV__ENST00000409181.1_1_2:203072019-203075498:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.8236389160156 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 54.564 1 55.359 54.859 55.859 0.79552 0 0 0 0.99035 1 24897 24897 0.69038 0 1 + 20945 16091 13150 13206 24423 24423 0.14868398242049352 NKQLIIIL 8 Unmodified _NKQLIIIL_ 0 0 0 REV__ENST00000409181.1_1_2:203072019-203075498:-|nuORF REV__ENST00000409181.1_1_2:203072019-203075498:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.8242492675781 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 57.439 1 58.107 57.607 58.607 0.66829 0 0 0 0.99035 1 26284 26284 0.69038 0 1 + 20946 16091 13150 13206 24424 24424 0.14868398242049352 NKQLIIIL 8 Unmodified _NKQLIIIL_ 0 0 0 REV__ENST00000409181.1_1_2:203072019-203075498:-|nuORF REV__ENST00000409181.1_1_2:203072019-203075498:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.8243408203125 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 66.03 1 66.687 66.187 67.187 0.65672 0 0 0 0.99035 1 30273 30273 0.69038 0 1 + 20947 16091 13150 13206 24425 24425 0.14868398242049352 NKQLVRIARL 10 Unmodified _NKQLVRIARL_ 0 0 0 REV__ENSG00000064313|ENST00000378164|TAF2 REV__ENSG00000064313|ENST00000378164|TAF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.26446533203125 3 404.262935 1209.76697 NaN NaN NaN NaN NaN NaN NaN 43.958 1 44.227 43.727 44.727 0.2694 0 0 0 1.0012 1 20084 20084 0.69767 0 1 + 20948 10411 13151 13207 24426 24426 0.1704815557927759 NKQRKRKLKR 10 Unmodified _NKQRKRKLKR_ 0 0 0 nc|ENSG00000080854|Q9UPX0|IGSF9B;ENSG00000080854|ENST00000533871|IGSF9B nc|ENSG00000080854|Q9UPX0|IGSF9B nc|ENSG00000080854|Q9UPX0|IGSF9B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.21038818359375 4 339.477106 1353.87932 2.6155 0.00088789 -0.26949 -9.1484E-05 2.346 0.00079641 339.4770175421715 51.092 0.082684 51.092 51.031 51.113 0 5 3 2 0 0 0 0.12676 1 23382 23382 0.13989 0 1 258060 20949 914 13152 13208 24427 24427 0.21653429376101485 NKRFVKKRFVI 11 Unmodified _NKRFVKKRFVI_ 0 0 0 REV__ENSG00000165323|ENST00000525166|FAT3 REV__ENSG00000165323|ENST00000525166|FAT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.8755798339844 3 478.973384 1433.89832 NaN NaN NaN NaN NaN NaN NaN 53.129 1 53.932 53.432 54.432 0.80351 0 0 0 1.0073 1 24219 24219 0.40827 0.31342 1 + 20950 13153 13153 13209 24428 24428 0.19872965947138255 NKRIMHRISSL 11 Unmodified _NKRIMHRISSL_ 0 0 0 REV__ENSG00000108107|ENST00000344063|RPL28 REV__ENSG00000108107|ENST00000344063|RPL28 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 452.5991516113281 3 452.262717 1353.76632 3.1156 0.001409 0.62683 0.00028349 3.7424 0.0016925 452.26282407855814 66.155 0.3876 66.812 66.577 66.965 0.65672 31 23 2 0 0 0 0.89988 1 30297 30297 2.4348 1.22 1 400590 + 20951 11136 13154 13210 24429 24429 0.10358992867941197 NKRKFFICVLH 11 Unmodified _NKRKFFICVLH_ 0 0 0 ENST00000558906.5_1_15:50152393-50311102:-|nuORF;ENST00000559726.5_1_15:50152393-50311102:-|nuORF;ENSG00000104043|ENST00000284509|ATP8B4 ENST00000558906.5_1_15:50152393-50311102:-|nuORF ENST00000558906.5_1_15:50152393-50311102:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 468.93701171875 3 468.935942 1403.786 NaN NaN NaN NaN NaN NaN NaN 71.921 1 72.625 72.125 73.125 0.70386 0 0 0 1.0059 1 34577 34577 1.2148 0.70888 1 20952 1420 13155 13211 24430 24430 0.1002536887867791 NKRKLLKVIPL 11 Unmodified _NKRKLLKVIPL_ 0 0 0 NLRP8|p.N923Kfs*2|1|0.22|ENSG00000179709|chr19:55976190-55976191|-/A|frameshift_variant;nc|ENSG00000179709|Q86W28-2|NLRP8;ENSG00000179709|ENST00000291971|NLRP8 NLRP8|p.N923Kfs*2|1|0.22|ENSG00000179709|chr19:55976190-55976191|-/A|frameshift_variant NLRP8|p.N923Kfs*2|1|0.22|ENSG00000179709|chr19:55976190-55976191|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.3074645996094 3 441.306252 1320.89693 NaN NaN NaN NaN NaN NaN NaN 97.112 1 97.39 96.89 97.89 0.27778 0 0 0 1.0079 1 44607 44607 0.45452 0.046251 1 20953 5227 13156 13212 24431 24431 0.2493133185841998 NKRKLLKVIPL 11 Unmodified _NKRKLLKVIPL_ 0 0 0 NLRP8|p.N923Kfs*2|1|0.22|ENSG00000179709|chr19:55976190-55976191|-/A|frameshift_variant;nc|ENSG00000179709|Q86W28-2|NLRP8;ENSG00000179709|ENST00000291971|NLRP8 NLRP8|p.N923Kfs*2|1|0.22|ENSG00000179709|chr19:55976190-55976191|-/A|frameshift_variant NLRP8|p.N923Kfs*2|1|0.22|ENSG00000179709|chr19:55976190-55976191|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.3074951171875 3 441.306252 1320.89693 NaN NaN NaN NaN NaN NaN NaN 92.106 1 92.754 92.254 93.254 0.64714 0 0 0 1.0082 1 42380 42380 0.08335 0.08335 1 20954 5227 13156 13212 24432 24432 0.2493133185841998 NKRKLRKMELL 11 Unmodified _NKRKLRKMELL_ 0 0 0 nc|ENSG00000169570|Q8NBA8-2|DTWD2;ENSG00000169570|ENST00000510708|DTWD2 nc|ENSG00000169570|Q8NBA8-2|DTWD2 nc|ENSG00000169570|Q8NBA8-2|DTWD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.2243957519531 3 476.965901 1427.87587 NaN NaN NaN NaN NaN NaN NaN 62.114 1 62.114 61.614 62.614 0 0 0 0 1.0061 1 29078 29078 1.1098 0 1 20955 4696 13157 13213 24433 24433 0.1790499848723357 NKRKLSSK 8 Unmodified _NKRKLSSK_ 0 0 0 ENSG00000031081|ENST00000264245|ARHGAP31 ENSG00000031081|ENST00000264245|ARHGAP31 ENSG00000031081|ENST00000264245|ARHGAP31 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.802734375 2 480.801083 959.587613 3.5035 0.0016845 -0.12412 -5.9678E-05 3.3794 0.0016248 480.8010078608042 90.965 0.70213 91.217 90.934 91.637 0.25163 133 34 5 0 0 0 0.7441 1 41735 41735 2.3027 1.5091 1 48395000 20956 495 13158 13214 24434 24434 0.10620271291327299 NKRPVLVLQNE 11 Unmodified _NKRPVLVLQNE_ 0 0 0 ENSG00000134317|ENST00000324907|GRHL1;nc|ENSG00000134317|Q9NZI5-3|GRHL1 ENSG00000134317|ENST00000324907|GRHL1 ENSG00000134317|ENST00000324907|GRHL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.5931396484375 3 437.257738 1308.75138 3.3761 0.0014762 -1.1458 -0.00050103 2.2302 0.00097519 437.25705831996004 91.88 1.3259 92.133 91.475 92.801 0.25253 128 64 3 0 0 0 0.91345 1 42373 42373 0.45452 0.046251 1 557110 20957 2800 13159 13215 24435 24435 0.10935824271564343 NKRQLLLFLAL 11 Unmodified _NKRQLLLFLAL_ 0 0 0 REV__ENSG00000146233|ENST00000275016|CYP39A1 REV__ENSG00000146233|ENST00000275016|CYP39A1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 332.8725280761719 4 332.965774 1327.83399 2.3518 0.00078307 0.91982 0.00030627 3.2716 0.0010893 332.96616062362114 52.118 0.14876 52.38 52.262 52.411 0.26228 10 6 2 0 0 0 0.13295 1 23823 23823 0.45452 0.31463 1 879880 + 20958 12466 13160 13216 24436 24436 0.18318766070387937 NKRRKLKNKR 10 Unmodified _NKRRKLKNKR_ 0 0 0 nc|ENSG00000139154|Q6ZN18-3|AEBP2;ENSG00000139154|ENST00000266508|AEBP2;nc|ENSG00000139154|Q6ZN18|AEBP2 nc|ENSG00000139154|Q6ZN18-3|AEBP2 nc|ENSG00000139154|Q6ZN18-3|AEBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 447.6291198730469 3 447.628499 1339.86367 NaN NaN NaN NaN NaN NaN NaN 79.846 1 80.166 79.666 80.666 0.31998 0 0 0 1.0015 1 39013 39013 0.13989 0.017027 1 20959 3131 13161 13217 24437 24437 0.20733142859057807 NKRRKTSVFIL 11 Unmodified _NKRRKTSVFIL_ 0 0 0 ENST00000539976.1_1_16:89981432-89981549:+|nuORF ENST00000539976.1_1_16:89981432-89981549:+|nuORF ENST00000539976.1_1_16:89981432-89981549:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.44482421875 3 454.617377 1360.8303 NaN NaN NaN NaN NaN NaN NaN 69.484 1 70.187 69.687 70.687 0.70302 0 0 0 1.006 1 33254 33254 2.8433 0.21205 1 20960 8799 13162 13218 24438 24438 0.164320962965121 NKRRLLYPSGW 11 Unmodified _NKRRLLYPSGW_ 0 0 0 ENST00000483439.1_1_6:112375437-112376017:+|nuORF;nc|ENSG00000112761|O95389-2|CCN6 ENST00000483439.1_1_6:112375437-112376017:+|nuORF ENST00000483439.1_1_6:112375437-112376017:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.9282531738281 3 463.929844 1388.7677 NaN NaN NaN NaN NaN NaN NaN 79.569 1 79.889 79.389 80.389 0.31998 0 0 0 1.0064 1 38872 38872 2.4348 1.9803 1 20961 8312 13163 13219 24439 24439 0.08886950228315982 NKRRQREKLK 10 Unmodified _NKRRQREKLK_ 0 0 0 REV__nc|ENSG00000173011|Q86TJ2-3|TADA2B REV__nc|ENSG00000173011|Q86TJ2-3|TADA2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 452.4271545410156 3 452.616259 1354.82695 NaN NaN NaN NaN NaN NaN NaN 67.084 1 67.084 66.584 67.584 0 0 0 0 1.0014 1 32110 32110 0.56317 0.057215 1 + 20962 13579 13164 13220 24440 24440 0.16372846242506967 NKRRRGCPIL 10 Unmodified _NKRRRGCPIL_ 0 0 0 ENSG00000155366|ENST00000339083|RHOC;ENST00000473074.1_1_1:113244164-113245337:-|nuORF ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 404.9098815917969 3 404.908386 1211.70333 3.1332 0.0012686 0.5456 0.00022092 3.6788 0.0014896 404.9085068609446 92.649 0.28891 93.296 93.173 93.462 0.64714 26 16 2 0 0 0 0.93584 1 42633 42633 1.7423 0.28716 1 193100 20963 3862 13165 13221 24441 24441 0.10594471870535926 NKRRRGCPIL 10 Unmodified _NKRRRGCPIL_ 0 0 0 ENSG00000155366|ENST00000339083|RHOC;ENST00000473074.1_1_1:113244164-113245337:-|nuORF ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 404.90936279296875 3 404.908386 1211.70333 3.1375 0.0012704 0.24096 9.7568E-05 3.3784 0.001368 404.9084241315956 93.428 0.20859 94.059 93.936 94.145 0.63115 17 10 2 0 0 0 0.93584 1 42974 42974 1.7423 0.96574 1 307530 20964 3862 13165 13221 24442 24442 0.10594471870535926 NKRRRGCPIL 10 Unmodified _NKRRRGCPIL_ 0 0 0 ENSG00000155366|ENST00000339083|RHOC;ENST00000473074.1_1_1:113244164-113245337:-|nuORF ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 404.908386 1211.70333 3.6001 0.0014577 -0.14469 -5.8587E-05 3.4554 0.0013991 404.90834697942324 93.726 0.24741 93.981 93.845 94.093 0.25497 -0.038737 -0.00029027 NaN 1.7423 13 10 2 NaN NaN NaN NaN 0 NaN NaN 0 215450 20965 3862 13165 13221 0.10594471870535926 NKRRRGCPIL 10 Unmodified _NKRRRGCPIL_ 0 0 0 ENSG00000155366|ENST00000339083|RHOC;ENST00000473074.1_1_1:113244164-113245337:-|nuORF ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 404.908386 1211.70333 3.5535 0.0014388 -0.29193 -0.0001182 3.2616 0.0013206 404.90841001554026 93.008 0.23561 93.263 93.158 93.394 0.25497 -0.016606 -0.00054265 NaN 1.7423 21 13 2 NaN NaN NaN NaN 0 NaN NaN 0 241570 20966 3862 13165 13221 0.10594471870535926 NKRRRGCPIL 10 Unmodified _NKRRRGCPIL_ 0 0 0 ENSG00000155366|ENST00000339083|RHOC;ENST00000473074.1_1_1:113244164-113245337:-|nuORF ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 404.908386 1211.70333 3.1375 0.0012704 0.24096 9.7568E-05 3.3784 0.001368 404.9084241315956 93.428 0.20859 94.059 93.936 94.145 0.63115 0.038737 0.00017819 NaN 1.7423 17 10 2 NaN NaN NaN NaN 0 NaN NaN 0 307530 20967 3862 13165 13221 0.10594471870535926 NKRRRGCPIL 10 Unmodified _NKRRRGCPIL_ 0 0 0 ENSG00000155366|ENST00000339083|RHOC;ENST00000473074.1_1_1:113244164-113245337:-|nuORF ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 404.908386 1211.70333 3.1332 0.0012686 0.5456 0.00022092 3.6788 0.0014896 404.9085068609446 92.649 0.28891 93.296 93.173 93.462 0.64714 0.016606 0.00047472 NaN 1.7423 26 16 2 NaN NaN NaN NaN 0 NaN NaN 0 193100 20968 3862 13165 13221 0.10594471870535926 NKRRVRLH 8 Unmodified _NKRRVRLH_ 0 0 0 REV__ENSG00000162409|ENST00000371244|PRKAA2 REV__ENSG00000162409|ENST00000371244|PRKAA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 360.2290954589844 3 360.228336 1077.66318 NaN NaN NaN NaN NaN NaN NaN 77.256 1 77.256 76.756 77.756 0 0 0 0 0.99035 1 37882 37882 1.4819 0 1 + 20969 12932 13166 13222 24443 24443 0.12745293262264568 NKRVREIFFNY 11 Unmodified _NKRVREIFFNY_ 0 0 0 REV__DNAH3|p.L3142Cfs*14|1|0.19|ENSG00000158486|chr16:20964459-20964459|A/-|frameshift_variant REV__DNAH3|p.L3142Cfs*14|1|0.19|ENSG00000158486|chr16:20964459-20964459|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.93988037109375 3 495.936887 1484.78883 NaN NaN NaN NaN NaN NaN NaN 71.703 1 72.407 71.907 72.907 0.70386 0 0 0 1.0061 1 34461 34461 1.1098 0.65524 1 + 20970 10132 13167 13223 24444 24444 0.06582915537182998 NKSKKLKI 8 Unmodified _NKSKKLKI_ 0 0 0 REV__ENST00000555324.1_1_14:94545323-94547480:-|nuORF REV__ENST00000555324.1_1_14:94545323-94547480:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.24066162109375 2 479.824027 957.633501 NaN NaN NaN NaN NaN NaN NaN 72.547 1 72.806 72.306 73.306 0.25876 0 0 0 0.99035 1 33304 33304 2.5775 0 1 + 20971 10702 13168 13224 24445 24445 0.15298916473545887 NKSKKLKI 8 Unmodified _NKSKKLKI_ 0 0 0 REV__ENST00000555324.1_1_14:94545323-94547480:-|nuORF REV__ENST00000555324.1_1_14:94545323-94547480:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.1661071777344 2 479.824027 957.633501 NaN NaN NaN NaN NaN NaN NaN 80.685 1 80.934 80.434 81.434 0.24947 0 0 0 0.99035 1 37149 37149 0.69038 0 1 + 20972 10702 13168 13224 24446 24446 0.15298916473545887 NKSKKLKI 8 Unmodified _NKSKKLKI_ 0 0 0 REV__ENST00000555324.1_1_14:94545323-94547480:-|nuORF REV__ENST00000555324.1_1_14:94545323-94547480:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.2871398925781 2 479.824027 957.633501 NaN NaN NaN NaN NaN NaN NaN 88.731 1 88.982 88.482 89.482 0.25118 0 0 0 0.99035 1 40826 40826 0.69038 0 1 + 20973 10702 13168 13224 24447 24447 0.15298916473545887 NKSKKLKI 8 Unmodified _NKSKKLKI_ 0 0 0 REV__ENST00000555324.1_1_14:94545323-94547480:-|nuORF REV__ENST00000555324.1_1_14:94545323-94547480:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.2905578613281 2 479.824027 957.633501 NaN NaN NaN NaN NaN NaN NaN 89.652 1 89.904 89.404 90.404 0.25137 0 0 0 0.99035 1 41232 41232 0.69038 0 1 + 20974 10702 13168 13224 24448 24448 0.15298916473545887 NKSPEFYEEF 10 Unmodified _NKSPEFYEEF_ 0 0 0 ENSG00000130158|ENST00000294618|DOCK6 ENSG00000130158|ENST00000294618|DOCK6 ENSG00000130158|ENST00000294618|DOCK6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 430.27886962890625 3 430.527671 1288.56118 NaN NaN NaN NaN NaN NaN NaN 43.023 1 43.023 42.523 43.523 0 0 0 0 1.0015 1 19588 19588 0.13989 0.017027 1 20975 2575 13169 13225 24449 24449 -0.07155507181346366 NKSPEFYEEF 10 Unmodified _NKSPEFYEEF_ 0 0 0 ENSG00000130158|ENST00000294618|DOCK6 ENSG00000130158|ENST00000294618|DOCK6 ENSG00000130158|ENST00000294618|DOCK6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.5291748046875 3 430.527671 1288.56118 NaN NaN NaN NaN NaN NaN NaN 42.288 1 42.935 42.435 43.435 0.64693 0 0 0 1.0015 1 19370 19370 0.13989 0 1 20976 2575 13169 13225 24450 24450 -0.07155507181346366 NKSRVKPP 8 Unmodified _NKSRVKPP_ 0 0 0 REV__ENST00000507947.5_1_4:76580183-76582836:-|nuORF REV__ENST00000507947.5_1_4:76580183-76582836:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 309.5370178222656 3 309.190776 924.550499 1.953 0.00060386 1.1521 0.00035622 3.1051 0.00096008 309.19107214529333 40.965 0.1304 40.965 40.848 40.978 0 10 9 2 0 0 0 0.14313 1 18608 18608 1.6526 0 1 315470 + 20977 16946 13170 13226 24451 24451 0.0852059974556596 NKTDVVLIL 9 Unmodified _NKTDVVLIL_ 0 0 0 nc|ENSG00000167657|O43293-2|DAPK3;ENSG00000167657|ENST00000545797|DAPK3 nc|ENSG00000167657|O43293-2|DAPK3 nc|ENSG00000167657|O43293-2|DAPK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.814208984375 2 507.813325 1013.6121 3.3711 0.0017119 0.60625 0.00030786 3.9774 0.0020198 507.8136232212312 65.239 0.28252 65.487 65.333 65.616 0.24802 29 14 3 0 0 0 0.034495 2 29883 29883;29933 53.833 5.8701 1 961100 20978 4568 13171 13227 24452;24453 24452 0.10583486654206808 NKTDVVLIL 9 Unmodified _NKTDVVLIL_ 0 0 0 nc|ENSG00000167657|O43293-2|DAPK3;ENSG00000167657|ENST00000545797|DAPK3 nc|ENSG00000167657|O43293-2|DAPK3 nc|ENSG00000167657|O43293-2|DAPK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.8153991699219 2 507.813325 1013.6121 3.3842 0.0017185 0.24864 0.00012626 3.6328 0.0018448 507.81348814045884 64.602 0.26991 65.258 65.124 65.394 0.65672 20 9 3 0 0 0 0.034495 1 29630 29630 53.833 1.5644 1 1119600 20979 4568 13171 13227 24454 24454 0.10583486654206808 NKTLKMKKAHL 11 Unmodified _NKTLKMKKAHL_ 0 0 0 REV__ENSG00000110925|ENST00000228515|CSRNP2 REV__ENSG00000110925|ENST00000228515|CSRNP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.9347229003906 3 437.93583 1310.78566 NaN NaN NaN NaN NaN NaN NaN 77.575 1 78.135 77.635 78.635 0.56091 0 0 0 1.0041 1 37621 37621 2.4348 0.69251 1 + 20980 11218 13172 13228 24455 24455 0.14269949158824602 NKTLKSVI 8 Unmodified _NKTLKSVI_ 0 0 0 REV__ENST00000395699.3_1_7:44923210-44923270:-|nuORF REV__ENST00000395699.3_1_7:44923210-44923270:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.7861022949219 2 451.78711 901.559667 NaN NaN NaN NaN NaN NaN NaN 59.676 1 60.341 59.841 60.841 0.66503 0 0 0 0.99035 1 27318 27318 4.756 0 1 + 20981 15989 13173 13229 24456 24456 0.10494948311225016 NKTPLDKST 9 Unmodified _NKTPLDKST_ 0 0 0 ENSG00000169018|ENST00000306917|FEM1B ENSG00000169018|ENST00000306917|FEM1B ENSG00000169018|ENST00000306917|FEM1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.1860656738281 3 335.185468 1002.53457 NaN NaN NaN NaN NaN NaN NaN 79.765 1 80.014 79.514 80.514 0.24947 0 0 0 0.90431 1 36728 36728 2.4985 0 1 20982 4664 13174 13230 24457 24457 0.033408487179940494 NKTPLDKST 9 Unmodified _NKTPLDKST_ 0 0 0 ENSG00000169018|ENST00000306917|FEM1B ENSG00000169018|ENST00000306917|FEM1B ENSG00000169018|ENST00000306917|FEM1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.1856384277344 3 335.185468 1002.53457 NaN NaN NaN NaN NaN NaN NaN 75.501 1 76.166 75.666 76.666 0.6644 0 0 0 0.89602 1 34786 34786 4.5289 0 1 20983 4664 13174 13230 24458 24458 0.033408487179940494 NKTTERHL 8 Unmodified _NKTTERHL_ 0 0 0 ENST00000493315.1_1_2:63631156-63711794:-|nuORF;nc|ENSG00000143951|O95876-3|WDPCP;nc|ENSG00000143951|O95876-2|WDPCP;ENST00000409835.5_1_2:63587012-63815411:-|nuORF;ENSG00000143951|ENST00000272321|WDPCP ENST00000493315.1_1_2:63631156-63711794:-|nuORF ENST00000493315.1_1_2:63631156-63711794:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.7746887207031 2 499.772522 997.530492 2.7452 0.001372 0.0034225 1.7105E-06 2.7487 0.0013737 499.77276414652874 70.623 0.24989 71.285 71.154 71.404 0.66209 26 15 2 0 0 0 0.70146 1 32415 32415 5.7604 0.028577 1 303480 20984 3403 13175 13231 24459 24459 0.03162804014948506 NKTVRPTK 8 Unmodified _NKTVRPTK_ 0 0 0 REV__ENST00000545700.5_1_12:6562264-6567817:+|nuORF REV__ENST00000545700.5_1_12:6562264-6567817:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.2890930175781 2 472.287808 942.561064 2.4361 0.0011505 0.83572 0.0003947 3.2718 0.0015452 472.2882226959301 91.602 0.3425 91.602 91.44 91.783 0 121 48 3 0 0 0 0.73203 1 48340 48340 4.756 0 1 34244000 + 20985 12205 13176 13232 24460 24460 0.0874858239999412 NKTVRPTK 8 Unmodified _NKTVRPTK_ 0 0 0 REV__ENST00000545700.5_1_12:6562264-6567817:+|nuORF REV__ENST00000545700.5_1_12:6562264-6567817:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 472.287808 942.561064 3.4147 0.0016127 1.5222 0.00071893 4.9369 0.0023317 472.2887607059889 91.663 0.14322 91.915 91.868 92.011 0.25163 0.15654 0.00053265 NaN 4.756 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 133720 + 20986 12205 13176 13232 0.0874858239999412 NKURUSAS 8 Unmodified _NKURUSAS_ 0 0 0 REV__ENSG00000250722|ENST00000514985|SELENOP REV__ENSG00000250722|ENST00000514985|SELENOP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.5901794433594 2 482.63628 963.258008 NaN NaN NaN NaN NaN NaN NaN 70.247 1 70.95 70.45 71.45 0.70302 0 0 0 0.99035 1 33651 33651 0 0 0 + 20987 14656 13177 13233 24461 24461 -0.2250907211627009 NKVGDFGV 8 Unmodified _NKVGDFGV_ 0 0 0 ENST00000588319.1_1_17:39768340-39768940:-|nuORF ENST00000588319.1_1_17:39768340-39768940:-|nuORF ENST00000588319.1_1_17:39768340-39768940:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 418.22015380859375 2 418.21906 834.423567 NaN NaN NaN NaN NaN NaN NaN 96.01 1 96.618 96.118 97.118 0.60769 0 0 0 0.99035 1 44148 44148 0.69038 0 1 20988 9203 13178 13234 24462 24462 -0.000267461994212681 NKVLETKWA 9 Unmodified _NKVLETKWA_ 0 0 0 ENSG00000185640|ENST00000330553|KRT79;CON__Q5XKE5;CON__Q8VED5;ENSG00000170454|ENST00000252245|KRT75;CON__O95678 ENSG00000185640|ENST00000330553|KRT79 ENSG00000185640|ENST00000330553|KRT79 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.54315185546875 3 363.541475 1087.60259 NaN NaN NaN NaN NaN NaN NaN 35.483 1 35.483 34.983 35.983 0 0 0 0 0.8984 1 16100 16100 2.2828 0 1 + 20989 237 13179 13235 24463 24463 0.06229718368649628 NKVPVVDVL 9 Unmodified _NKVPVVDVL_ 0 0 0 REV__nc|ENSG00000173826|Q9H252-3|KCNH6 REV__nc|ENSG00000173826|Q9H252-3|KCNH6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.2040710449219 3 328.20257 981.585882 NaN NaN NaN NaN NaN NaN NaN 53.581 1 54.384 53.884 54.884 0.80351 0 0 0 0.89683 1 24447 24447 2.4985 1.427 1 + 20990 10368 13180 13236 24464 24464 0.09435217482700864 NKVRGVQQLIQ 11 Unmodified _NKVRGVQQLIQ_ 0 0 0 nc|ENSG00000196236|Q9NQH7-3|XPNPEP3;nc|ENSG00000196236|Q9NQH7-5|XPNPEP3;nc|ENSG00000196236|Q9NQH7-2|XPNPEP3;nc|ENSG00000196236|Q9NQH7-4|XPNPEP3;ENSG00000196236|ENST00000357137|XPNPEP3 nc|ENSG00000196236|Q9NQH7-3|XPNPEP3 nc|ENSG00000196236|Q9NQH7-3|XPNPEP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 428.25872802734375 3 428.257849 1281.75172 3.2157 0.0013771 -0.93806 -0.00040173 2.2776 0.00097541 428.2574333849101 91.582 0.73048 92.244 91.941 92.672 0.66198 63 36 2 0 0 0 0.91111 1 42096 42096 0.40827 0 1 530520 20991 5729 13181 13237 24465 24465 0.12211243991418996 NKWPRWTPILI 11 Unmodified _NKWPRWTPILI_ 0 0 0 REV__nc|ENSG00000122136|Q9NY56-4|OBP2A REV__nc|ENSG00000122136|Q9NY56-4|OBP2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.28009033203125 3 475.278473 1422.81359 2.9023 0.0013794 0.39066 0.00018567 3.293 0.0015651 475.27841991313517 62.078 0.30817 62.738 62.628 62.936 0.66008 65 35 3 0 0 0 0.91137 2 28482 28424;28482 1.1098 0 1 4213100 + 20992 17914 13182 13238 24466;24467 24467 0.11909595410565998 NKYCLKLL 8 Unmodified _NKYCLKLL_ 0 0 0 REV__ENST00000558585.5_1_15:69729043-69730634:+|nuORF REV__ENST00000558585.5_1_15:69729043-69730634:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 332.197265625 3 332.196651 993.568123 2.3359 0.00077599 -0.011575 -3.8453E-06 2.3244 0.00077215 332.19656683755954 32.307 0.21735 32.307 32.198 32.415 0 29 20 2 0 0 0 0.63902 2 14604 14604;14668 10.824 0 1 512650 + 20993 17347 13183 13239 24468;24469 24468 0.07108178956184474 NKYFEMLEF 9 Unmodified _NKYFEMLEF_ 0 0 0 nc|ENSG00000163625|Q8IZQ1-2|WDFY3;ENSG00000163625|ENST00000295888|WDFY3;WDFY3|p.K581Sfs*10|1|0.22|ENSG00000163625|chr4:84817537-84817537|T/-|frameshift_variant;ENST00000426414.6_1_4:85730999-85781744:-|nuORF nc|ENSG00000163625|Q8IZQ1-2|WDFY3 nc|ENSG00000163625|Q8IZQ1-2|WDFY3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 407.92425537109375 3 407.526725 1219.55835 2.9851 0.0012165 -1.6385 -0.00066772 1.3466 0.00054879 407.52589600359244 55.647 0.24731 56.315 56.209 56.456 0.66798 16 8 2 0 0 0 0.11195 1 25455 25455 3.8763 1.3778 1 1285300 20994 4231 13184 13240 24470 24470 -0.04265053839867505 NKYFEMLEF 9 Unmodified _NKYFEMLEF_ 0 0 0 nc|ENSG00000163625|Q8IZQ1-2|WDFY3;ENSG00000163625|ENST00000295888|WDFY3;WDFY3|p.K581Sfs*10|1|0.22|ENSG00000163625|chr4:84817537-84817537|T/-|frameshift_variant;ENST00000426414.6_1_4:85730999-85781744:-|nuORF nc|ENSG00000163625|Q8IZQ1-2|WDFY3 nc|ENSG00000163625|Q8IZQ1-2|WDFY3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 407.526725 1219.55835 2.9168 0.0011887 -2.0337 -0.00082878 0.88314 0.00035991 407.5259109514678 56.404 0.28857 56.67 56.515 56.803 0.26543 0.18769 -0.00018571 NaN 3.8763 33 18 2 NaN NaN NaN NaN 0 NaN NaN 0 1483800 20995 4231 13184 13240 -0.04265053839867505 NKYKLYPWIH 10 Unmodified _NKYKLYPWIH_ 0 0 0 ENSG00000156017|ENST00000376834|CARNMT1 ENSG00000156017|ENST00000376834|CARNMT1 ENSG00000156017|ENST00000376834|CARNMT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 681.3740844726562 2 681.371872 1360.72919 NaN NaN NaN NaN NaN NaN NaN 26.316 1 26.316 25.816 26.816 0 0 0 0 1.0015 1 11841 11841 0.45834 0.10771 1 20996 3892 13185 13241 24471 24471 0.06325644593789548 NLAERIKSL 9 Unmodified _NLAERIKSL_ 0 0 0 ENSG00000110344|ENST00000252108|UBE4A;nc|ENSG00000110344|Q14139-2|UBE4A ENSG00000110344|ENST00000252108|UBE4A ENSG00000110344|ENST00000252108|UBE4A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.3153686523438 2 522.314023 1042.61349 NaN NaN NaN NaN NaN NaN NaN 41.269 1 41.538 41.038 42.038 0.26904 0 0 0 0.00024627 1 18794 18794 100.71 32.87 1 20997 1710 13186 13242 24472 24472 0.0938912074293512 NLAERIKSL 9 Unmodified _NLAERIKSL_ 0 0 0 ENSG00000110344|ENST00000252108|UBE4A;nc|ENSG00000110344|Q14139-2|UBE4A ENSG00000110344|ENST00000252108|UBE4A ENSG00000110344|ENST00000252108|UBE4A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.3162231445312 2 522.314023 1042.61349 NaN NaN NaN NaN NaN NaN NaN 41.385 1 41.654 41.154 42.154 0.26904 0 0 0 0.020249 1 18849 18849 73.196 13.828 1 20998 1710 13186 13242 24473 24473 0.0938912074293512 NLAERIKSL 9 Unmodified _NLAERIKSL_ 0 0 0 ENSG00000110344|ENST00000252108|UBE4A;nc|ENSG00000110344|Q14139-2|UBE4A ENSG00000110344|ENST00000252108|UBE4A ENSG00000110344|ENST00000252108|UBE4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.3162841796875 2 522.314023 1042.61349 3.558 0.0018584 0.46052 0.00024054 4.0185 0.0020989 522.3141720637785 40.628 0.25304 41.269 41.175 41.428 0.64136 32 17 2 0 0 0 0.019184 1 18610 18610 69.338 21.744 1 923730 20999 1710 13186 13242 24474 24474 0.0938912074293512 NLAFYWWERC 10 Unmodified _NLAFYWWERC_ 0 0 0 REV__nc|ENSG00000048707|Q5THJ4-2|VPS13D REV__nc|ENSG00000048707|Q5THJ4-2|VPS13D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 694.3156127929688 2 694.31624 1386.61793 NaN NaN NaN NaN NaN NaN NaN 107.91 1 108.51 108.01 109.01 0.6019 0 0 0 1.0015 1 49796 49796 0.45834 0 1 + 21000 10342 13187 13243 24475 24475 -0.059917381058085084 NLALPRQKAK 10 Unmodified _NLALPRQKAK_ 0 0 0 REV__ENSG00000100038|ENST00000357179|TOP3B REV__ENSG00000100038|ENST00000357179|TOP3B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.8571166992188 2 569.85639 1137.69823 NaN NaN NaN NaN NaN NaN NaN 62.937 1 62.937 62.437 63.437 0 0 0 0 0.99464 1 29550 29550 6.2058 0 1 + 21001 10800 13188 13244 24476 24476 0.13488491279554182 NLALQKFQSL 10 Unmodified _NLALQKFQSL_ 0 0 0 REV__ENSG00000162391|ENST00000302250|FAM151A REV__ENSG00000162391|ENST00000302250|FAM151A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.42333984375 2 581.334956 1160.65536 NaN NaN NaN NaN NaN NaN NaN 93.831 1 93.917 93.417 94.417 0.086212 0 0 0 0.91283 1 49247 49247 19.257 2.1441 1 + 21002 12930 13189 13245 24477 24477 0.08145676431468019 NLAQYIFLH 9 Unmodified _NLAQYIFLH_ 0 0 0 ENSG00000139304|ENST00000644991|PTPRQ;nc|ENSG00000139304|Q9UMZ3|PTPRQ ENSG00000139304|ENST00000644991|PTPRQ ENSG00000139304|ENST00000644991|PTPRQ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.8062744140625 2 559.803291 1117.59203 3.6252 0.0020294 -0.7945 -0.00044476 2.8307 0.0015846 559.8027815687453 36.596 0.28502 37.226 37.109 37.394 0.62999 34 12 3 0 0 0 0.76984 1 16815 16815 7.9102 0.62092 1 259290 21003 3142 13190 13246 24478 24478 0.03793735714225477 NLCCSFSCLM 10 Unmodified _NLCCSFSCLM_ 0 0 0 REV__ENST00000366654.4_1_1:231155070-231155202:-|nuORF REV__ENST00000366654.4_1_1:231155070-231155202:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.5332641601562 2 560.718341 1119.42213 NaN NaN NaN NaN NaN NaN NaN 76.522 1 76.522 76.022 77.022 0 0 0 0 0.99733 1 37504 37504 3.9444 0 1 + 21004 15644 13191 13247 24479 24479 -0.1328053093800463 NLCFEERDFVP 11 Unmodified _NLCFEERDFVP_ 0 0 0 ENSG00000187554|ENST00000642603|TLR5 ENSG00000187554|ENST00000642603|TLR5 ENSG00000187554|ENST00000642603|TLR5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 684.8185424804688 2 684.81627 1367.61799 NaN NaN NaN NaN NaN NaN NaN 90.963 1 90.963 90.463 91.463 0 0 0 0 1.0071 1 47920 47920 1.4819 0.15237 1 21005 5621 13192 13248 24480 24480 -0.051117828964606815 NLDCHRSLLH 10 Unmodified _NLDCHRSLLH_ 0 0 0 ENST00000223500.8_1_9:33280807-33280885:+|nuORF ENST00000223500.8_1_9:33280807-33280885:+|nuORF ENST00000223500.8_1_9:33280807-33280885:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.5498046875 2 604.303664 1206.59277 NaN NaN NaN NaN NaN NaN NaN 89.82 1 89.82 89.32 90.32 0 0 0 0 0.99464 1 47024 47024 6.2058 0.47393 1 21006 6426 13193 13249 24481 24481 -0.0022579290834983112 NLDDCSMYED 10 Unmodified _NLDDCSMYED_ 0 0 0 nc|ENSG00000105369|P11912-2|CD79A;ENSG00000105369|ENST00000221972|CD79A nc|ENSG00000105369|P11912-2|CD79A nc|ENSG00000105369|P11912-2|CD79A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.709228515625 2 602.710279 1203.406 NaN NaN NaN NaN NaN NaN NaN 53.762 1 54.566 54.066 55.066 0.80351 0 0 0 1.0001 1 24534 24534 1.6526 1.1279 1 21007 1489 13194 13250 24482 24482 -0.187562423695681 NLDHMRKRER 10 Unmodified _NLDHMRKRER_ 0 0 0 REV__ENSG00000177468|ENST00000367734|OLIG3 REV__ENSG00000177468|ENST00000367734|OLIG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.755126953125 2 677.859669 1353.70478 NaN NaN NaN NaN NaN NaN NaN 91.644 1 91.727 91.227 92.227 0.082848 0 0 0 1.0003 1 47548 47548 1.4819 0.15237 1 + 21008 13737 13195 13251 24483 24483 0.04208061168628774 NLDISSLKM 9 Unmodified _NLDISSLKM_ 0 0 0 REV__nc|ENSG00000154358|Q5VST9|OBSCN REV__nc|ENSG00000154358|Q5VST9|OBSCN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.77471923828125 2 510.773342 1019.53213 NaN NaN NaN NaN NaN NaN NaN 96.94 1 97.012 96.512 97.512 0.071381 0 0 0 0.79105 1 51667 51667 9.3831 0 1 + 21009 12706 13196 13252 24484 24484 0.023146769886807306 NLDKRKKKKTR 11 Unmodified _NLDKRKKKKTR_ 0 0 0 REV__nc|ENSG00000144029|P82675-2|MRPS5 REV__nc|ENSG00000144029|P82675-2|MRPS5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 707.9523315429688 2 707.951884 1413.88921 NaN NaN NaN NaN NaN NaN NaN 65.933 1 66.642 66.142 67.142 0.70891 0 0 0 1.0073 1 31221 31221 1.1933 0.79263 1 + 21010 12389 13197 13253 24485 24485 0.19882572590813652 NLDRRNNYSNW 11 Unmodified _NLDRRNNYSNW_ 0 0 0 REV__ENST00000556716.5_1_14:21486897-21488105:-|nuORF REV__ENST00000556716.5_1_14:21486897-21488105:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.5666809082031 3 484.564001 1450.67017 NaN NaN NaN NaN NaN NaN NaN 72.157 1 72.415 71.915 72.915 0.25876 0 0 0 1.0072 1 33119 33119 0.45452 0 1 + 21011 13187 13198 13254 24486 24486 -0.037134834384687565 NLEDHEWCENM 11 Unmodified _NLEDHEWCENM_ 0 0 0 nc|ENSG00000176463|Q9UIG8-4|SLCO3A1;ENST00000555549.5_1_15:92641439-92706362:+|nuORF;ENSG00000176463|ENST00000318445|SLCO3A1 nc|ENSG00000176463|Q9UIG8-4|SLCO3A1 nc|ENSG00000176463|Q9UIG8-4|SLCO3A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.84771728515625 3 473.84831 1418.5231 NaN NaN NaN NaN NaN NaN NaN 75.106 1 75.771 75.271 76.271 0.6644 0 0 0 1.0072 1 34593 34593 0.45452 0 1 21012 5080 13199 13255 24487 24487 -0.16942084429933857 NLEKLKYLLLT 11 Unmodified _NLEKLKYLLLT_ 0 0 0 nc|ENSG00000196912|Q8N2N9-3|ANKRD36B;nc|ENSG00000196912|Q8N2N9-2|ANKRD36B;ENSG00000196912|ENST00000359901|ANKRD36B;nc|ENSG00000196912|Q8N2N9-4|ANKRD36B;ANKRD36|p.Y1630Sfs*5|1|0.17|ENSG00000135976|chr2:97245476-97245476|A/-|frameshift_variant;ENSG00000135976|ENST00000420699|ANKRD36;nc|ENSG00000135976|A6QL64-4|ANKRD36;ENST00000452478.2_1_2:97779461-97784257:+|nuORF;nc|ENSG00000135976|A6QL64-5|ANKRD36 nc|ENSG00000196912|Q8N2N9-3|ANKRD36B nc|ENSG00000196912|Q8N2N9-3|ANKRD36B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 674.6403198242188 2 674.415946 1346.81734 NaN NaN NaN NaN NaN NaN NaN 74.861 1 74.861 74.361 75.361 0 0 0 0 1.0041 1 36646 36646 5.2969 0 1 21013 5783 13200 13256 24488 24488 0.1578022039377629 NLERLRKRVRQ 11 Unmodified _NLERLRKRVRQ_ 0 0 0 ENST00000494766.5_1_13:115000559-115007787:+|nuORF;nc|ENSG00000130177|Q13042-3|CDC16;nc|ENSG00000130177|Q13042-2|CDC16;ENSG00000130177|ENST00000356221|CDC16;ENST00000375310.5_2_13:115000559-115004790:+|nuORF ENST00000494766.5_1_13:115000559-115007787:+|nuORF ENST00000494766.5_1_13:115000559-115007787:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 734.4495239257812 2 734.452582 1466.89061 NaN NaN NaN NaN NaN NaN NaN 75.855 1 76.519 76.019 77.019 0.66387 0 0 0 1.0059 1 34953 34953 2.9952 1.3426 1 21014 2577 13201 13257 24489 24489 0.17584206679589443 NLEVIRAFHW 10 Unmodified _NLEVIRAFHW_ 0 0 0 REV__ENSG00000100739|ENST00000216629|BDKRB1 REV__ENSG00000100739|ENST00000216629|BDKRB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 428.9010925292969 3 428.899773 1283.67749 2.3883 0.0010243 0.60731 0.00026047 2.9956 0.0012848 428.90016410592 72.024 0.91272 72.687 72.094 73.007 0.66324 195 72 4 0 0 0 0.90778 1 32863 32863 3.3196 1.5774 1 4105900 + 21015 10846 13202 13258 24490 24490 0.046999008999137004 NLFHFTYYFNS 11 Unmodified _NLFHFTYYFNS_ 0 0 0 REV__ENSG00000188833|ENST00000371506|ENTPD8 REV__ENSG00000188833|ENST00000371506|ENTPD8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.89703369140625 3 484.890944 1451.651 NaN NaN NaN NaN NaN NaN NaN 63.811 1 63.811 63.311 64.311 0 0 0 0 1.0072 1 30086 30086 0.45452 0 1 + 21016 14161 13203 13259 24491 24491 -0.05675832782094403 NLFINQLL 8 Unmodified _NLFINQLL_ 0 0 0 REV__ENST00000496091.1_1_6:28882986-28887935:-|nuORF REV__ENST00000496091.1_1_6:28882986-28887935:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.7888488769531 2 487.78711 973.559667 NaN NaN NaN NaN NaN NaN NaN 59.47 1 60.22 59.72 60.72 0.74927 0 0 0 0.79116 1 27325 27325 19.439 0 1 + 21017 16847 13204 13260 24492 24492 0.07182948311253767 NLFLNLLSL 9 Unmodified _NLFLNLLSL_ 0 0 0 ENSG00000011405|ENST00000691414|PIK3C2A ENSG00000011405|ENST00000691414|PIK3C2A ENSG00000011405|ENST00000691414|PIK3C2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.817626953125 2 523.815867 1045.61718 NaN NaN NaN NaN NaN NaN NaN 13.654 1 14.302 13.802 14.802 0.6482 0 0 0 0.75166 1 6135 6135 10.824 0 1 21018 414 13205 13261 24493 24493 0.09619790516831017 NLFREQQRTLY 11 Unmodified _NLFREQQRTLY_ 0 0 0 ENSG00000169402|ENST00000404077|RSPH10B2;ENSG00000155026|ENST00000404406|RSPH10B ENSG00000169402|ENST00000404077|RSPH10B2 ENSG00000169402|ENST00000404077|RSPH10B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.1146545410156 3 489.92828 1466.76301 NaN NaN NaN NaN NaN NaN NaN 77.487 1 78.048 77.548 78.548 0.56091 0 0 0 1.0072 1 37587 37587 0.45452 0 1 21019 4689 13206 13262 24494 24494 0.048300212949015986 NLFRHRKRHIR 11 Unmodified _NLFRHRKRHIR_ 0 0 0 ENSG00000186496|ENST00000589332|ZNF396 ENSG00000186496|ENST00000589332|ZNF396 ENSG00000186496|ENST00000589332|ZNF396 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 511.9222106933594 3 511.643031 1531.90726 NaN NaN NaN NaN NaN NaN NaN 71.689 1 71.947 71.447 72.447 0.25786 0 0 0 1.0079 1 32867 32867 0.45452 0 1 21020 5575 13207 13263 24495 24495 0.16258752356202422 NLFRHWRVHT 10 Unmodified _NLFRHWRVHT_ 0 0 0 ENSG00000183647|ENST00000597700|ZNF530;ENST00000598297.1_1_19:58116980-58118690:+|nuORF;nc|ENSG00000183647|Q6P9A1|ZNF530 ENSG00000183647|ENST00000597700|ZNF530 ENSG00000183647|ENST00000597700|ZNF530 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.2428894042969 3 455.914417 1364.72142 NaN NaN NaN NaN NaN NaN NaN 70.766 1 71.47 70.97 71.97 0.70386 0 0 0 0.99812 1 33939 33939 1.5923 0.37745 1 21021 5395 13208 13264 24496 24496 0.05364930116866162 NLFSFLLR 8 Unmodified _NLFSFLLR_ 0 0 0 nc|ENSG00000115750|Q53T94-3|TAF1B;ENSG00000115750|ENST00000263663|TAF1B nc|ENSG00000115750|Q53T94-3|TAF1B nc|ENSG00000115750|Q53T94-3|TAF1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 337.20025634765625 3 337.19916 1008.57565 NaN NaN NaN NaN NaN NaN NaN 25.477 1 26.106 25.606 26.606 0.62915 0 0 0 0.99035 1 11675 11675 1.4819 0 1 21022 1987 13209 13265 24497 24497 0.07170654548156108 NLFSTFFPL 9 Unmodified _NLFSTFFPL_ 0 0 0 REV__ENST00000565934.1_1_16:8943319-8943457:+|nuORF REV__ENST00000565934.1_1_16:8943319-8943457:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.283203125 2 543.286943 1084.55933 NaN NaN NaN NaN NaN NaN NaN 47.408 1 48.238 47.738 48.738 0.82915 0 0 0 0.86044 1 21599 21599 7.2892 1.0834 1 + 21023 17419 13210 13266 24498 24498 0.020435285913890766 NLFWELSYQYM 11 Unmodified _NLFWELSYQYM_ 0 0 0 REV__ENSG00000114841|ENST00000420323|DNAH1 REV__ENSG00000114841|ENST00000420323|DNAH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.5646667480469 3 498.563839 1492.66969 NaN NaN NaN NaN NaN NaN NaN 78.138 1 78.138 77.638 78.638 0 0 0 0 1.008 1 38369 38369 0.094841 0 1 + 21024 11333 13211 13267 24499 24499 -0.0569403920253535 NLFYIEER 8 Unmodified _NLFYIEER_ 0 0 0 REV__nc|ENSG00000095713|Q9NQ79-3|CRTAC1 REV__nc|ENSG00000095713|Q9NQ79-3|CRTAC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.35400390625 2 542.277106 1082.53966 NaN NaN NaN NaN NaN NaN NaN 14.397 1 14.624 14.124 15.124 0.22622 0 0 0 0.99035 1 6326 6326 2.5775 0 1 + 21025 10767 13212 13268 24500 24500 0.0016915258061089844 NLGLLHKYYVK 11 Unmodified _NLGLLHKYYVK_ 0 0 0 nc|ENSG00000116786|Q8IWE5-2|PLEKHM2;ENSG00000116786|ENST00000375799|PLEKHM2 nc|ENSG00000116786|Q8IWE5-2|PLEKHM2 nc|ENSG00000116786|Q8IWE5-2|PLEKHM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 674.2132568359375 2 674.392805 1346.77106 NaN NaN NaN NaN NaN NaN NaN 61.266 1 61.266 60.766 61.766 0 0 0 0 0.98464 1 28559 28559 8.1555 3.2585 1 21026 2051 13213 13269 24501 24501 0.11154200282317106 NLHLRKRWKR 10 Unmodified _NLHLRKRWKR_ 0 0 0 ENST00000575471.2_1_16:31925765-31927799:+|nuORF;ENSG00000185947|ENST00000300870|ZNF267 ENST00000575471.2_1_16:31925765-31927799:+|nuORF ENST00000575471.2_1_16:31925765-31927799:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 703.93505859375 2 703.933828 1405.8531 NaN NaN NaN NaN NaN NaN NaN 95.731 1 95.998 95.498 96.498 0.2675 0 0 0 1.0015 1 43987 43987 0.40072 0 1 21027 5546 13214 13270 24502 24502 0.1664116020460824 NLHRNEDPER 10 Unmodified _NLHRNEDPER_ 0 0 0 ENSG00000112115|ENST00000648244|IL17A ENSG00000112115|ENST00000648244|IL17A ENSG00000112115|ENST00000648244|IL17A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.3110961914062 2 640.310532 1278.60651 NaN NaN NaN NaN NaN NaN NaN 74.501 1 75.187 74.687 75.687 0.68662 0 0 0 1.0001 1 36010 36010 1.6526 0 1 21028 1791 13215 13271 24503 24503 -0.021648438755846655 NLHRSRKKIK 10 Unmodified _NLHRSRKKIK_ 0 0 0 nc|ENSG00000172987|Q8WWQ2-4|HPSE2;nc|ENSG00000172987|Q8WWQ2-3|HPSE2;nc|ENSG00000172987|Q8WWQ2-2|HPSE2;ENSG00000172987|ENST00000370552|HPSE2 nc|ENSG00000172987|Q8WWQ2-4|HPSE2 nc|ENSG00000172987|Q8WWQ2-4|HPSE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.4522094726562 2 640.407112 1278.79967 NaN NaN NaN NaN NaN NaN NaN 35.514 1 36.305 35.805 36.805 0.79131 0 0 0 1.0001 1 16096 16096 1.6526 0 1 21029 4910 13216 13272 24504 24504 0.1714236270213405 NLHSFRKF 8 Unmodified _NLHSFRKF_ 0 0 0 REV__ENSG00000131127|ENST00000240499|ZNF141 REV__ENSG00000131127|ENST00000240499|ZNF141 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.5302734375 3 350.194409 1047.5614 2.3104 0.00080909 0.82767 0.00028984 3.1381 0.0010989 350.1945685382891 15.329 0.87448 15.635 15.313 16.188 0.306 176 91 2 0 0 0 0.7471 1 7031 7031 1.8442 0 1 280720 + 21030 11846 13217 13273 24505 24505 0.039520021198541144 NLIAVLAKYI 10 Unmodified _NLIAVLAKYI_ 0 0 0 ENST00000477069.5_1_9:131747266-131765892:+|nuORF;nc|ENSG00000095319|Q5SRE5-2|NUP188;ENSG00000095319|ENST00000372577|NUP188 ENST00000477069.5_1_9:131747266-131765892:+|nuORF ENST00000477069.5_1_9:131747266-131765892:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.392822265625 2 559.352617 1116.69068 NaN NaN NaN NaN NaN NaN NaN 71.836 1 72.094 71.594 72.594 0.25786 0 0 0 0.9754 1 32951 32951 9.3831 0.63772 1 21031 1117 13218 13274 24506 24506 0.1370033895927918 NLIEKSASL 9 Unmodified _NLIEKSASL_ 0 0 0 ENSG00000057252|ENST00000367619|SOAT1;nc|ENSG00000057252|P35610-3|SOAT1;nc|ENSG00000057252|P35610-2|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.7811584472656 2 487.779482 973.544411 3.0715 0.0014982 0.36289 0.00017701 3.4343 0.0016752 487.77940215263897 39.317 0.29512 39.584 39.389 39.684 0.26696 15 10 2 0 0 0 0.10584 1 17861 17861 31.268 2.1868 1 472290 21032 622 13219 13275 24507 24507 0.056580367233777906 NLIEKSASL 9 Unmodified _NLIEKSASL_ 0 0 0 ENSG00000057252|ENST00000367619|SOAT1;nc|ENSG00000057252|P35610-3|SOAT1;nc|ENSG00000057252|P35610-2|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.7818298339844 2 487.779482 973.544411 3.2078 0.0015647 0.068662 3.3492E-05 3.2765 0.0015982 487.7794506379325 38.882 0.27559 39.52 39.374 39.649 0.63778 18 9 3 0 0 0 0.043585 1 17769 17769 49.933 13.806 1 404980 21033 622 13219 13275 24508 24508 0.056580367233777906 NLIHHKDLSW 10 Unmodified _NLIHHKDLSW_ 0 0 0 REV__nc|ENSG00000145934|Q9NT68-2|TENM2 REV__nc|ENSG00000145934|Q9NT68-2|TENM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 631.9476318359375 2 631.835654 1261.65676 NaN NaN NaN NaN NaN NaN NaN 101.9 1 101.96 101.46 102.46 0.057198 0 0 0 0.99774 1 55334 55334 3.5965 0 1 + 21034 12460 13220 13276 24509 24509 0.03639310520225081 NLIHQLVKAKL 11 Unmodified _NLIHQLVKAKL_ 0 0 0 REV__nc|ENSG00000196367|Q9Y4A5-2|TRRAP REV__nc|ENSG00000196367|Q9Y4A5-2|TRRAP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 638.9076538085938 2 638.908622 1275.80269 NaN NaN NaN NaN NaN NaN NaN 77.218 1 77.218 76.718 77.718 0 0 0 0 1.0064 1 37862 37862 5.2969 1.7004 1 + 21035 14208 13221 13277 24510 24510 0.1758219303626447 NLIILANNSL 10 Unmodified _NLIILANNSL_ 0 0 0 nc|ENSG00000164136|P40933-2|IL15;ENSG00000164136|ENST00000320650|IL15 nc|ENSG00000164136|P40933-2|IL15 nc|ENSG00000164136|P40933-2|IL15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 361.9019470214844 3 362.21688 1083.62881 NaN NaN NaN NaN NaN NaN NaN 19.582 1 19.582 19.082 20.082 0 0 0 0 0.7512 1 8737 8737 23.801 8.8439 1 21036 4288 13222 13278 24511 24511 0.09033987540124144 NLIKKTVL 8 Unmodified _NLIKKTVL_ 0 0 0 ENSG00000163811|ENST00000407426|WDR43;WDR43|p.A657Gfs*4|1|0.01|ENSG00000163811|chr2:28946714-28946715|-/GGAA|frameshift_variant;ENST00000466067.1_1_2:29147965-29158512:+|nuORF ENSG00000163811|ENST00000407426|WDR43 ENSG00000163811|ENST00000407426|WDR43 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.8143310546875 2 464.813128 927.611703 3.0384 0.0014123 0.020152 9.3668E-06 3.0586 0.0014217 464.8130637136497 29.397 0.32633 29.397 29.203 29.529 0 84 27 4 0 0 0 0.00036904 3 13297 13208;13252;13297 139.14 27.851 1 3874000 21037 4254 13223 13279 24512;24513;24514 24514 0.1450011172498762 NLIKKTVL 8 Unmodified _NLIKKTVL_ 0 0 0 ENSG00000163811|ENST00000407426|WDR43;WDR43|p.A657Gfs*4|1|0.01|ENSG00000163811|chr2:28946714-28946715|-/GGAA|frameshift_variant;ENST00000466067.1_1_2:29147965-29158512:+|nuORF ENSG00000163811|ENST00000407426|WDR43 ENSG00000163811|ENST00000407426|WDR43 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.814453125 2 464.813128 927.611703 2.8482 0.0013239 -0.037964 -1.7646E-05 2.8103 0.0013063 464.81304703920995 28.417 0.25959 29.207 29.095 29.354 0.78921 52 22 3 0 0 0 0.0063663 2 12820 12767;12820 126.57 26.767 1 5563100 21038 4254 13223 13279 24515;24516 24516 0.1450011172498762 NLIKKTVL 8 Unmodified _NLIKKTVL_ 0 0 0 ENSG00000163811|ENST00000407426|WDR43;WDR43|p.A657Gfs*4|1|0.01|ENSG00000163811|chr2:28946714-28946715|-/GGAA|frameshift_variant;ENST00000466067.1_1_2:29147965-29158512:+|nuORF ENSG00000163811|ENST00000407426|WDR43 ENSG00000163811|ENST00000407426|WDR43 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 310.2120361328125 3 310.211177 927.611703 2.3451 0.00072748 0.042147 1.3075E-05 2.3873 0.00074055 310.21114321269533 28.429 0.22294 29.218 29.112 29.335 0.78921 35 18 3 0 0 0 0.57648 1 12810 12810 12.241 0 1 2673100 21039 4254 13223 13279 24517 24517 0.1450011172498762 NLIKKTVL 8 Unmodified _NLIKKTVL_ 0 0 0 ENSG00000163811|ENST00000407426|WDR43;WDR43|p.A657Gfs*4|1|0.01|ENSG00000163811|chr2:28946714-28946715|-/GGAA|frameshift_variant;ENST00000466067.1_1_2:29147965-29158512:+|nuORF ENSG00000163811|ENST00000407426|WDR43 ENSG00000163811|ENST00000407426|WDR43 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.8145446777344 2 464.813128 927.611703 2.7356 0.0012715 0.027806 1.2925E-05 2.7634 0.0012845 464.81308186403754 28.958 0.366 29.218 29.068 29.434 0.2602 69 24 4 0 0 0 0.0096139 3 13184 13138;13184;13236 103.35 22.222 1 8271200 21040 4254 13223 13279 24518;24519;24520 24519 0.1450011172498762 NLIKKTVL 8 Unmodified _NLIKKTVL_ 0 0 0 ENSG00000163811|ENST00000407426|WDR43;WDR43|p.A657Gfs*4|1|0.01|ENSG00000163811|chr2:28946714-28946715|-/GGAA|frameshift_variant;ENST00000466067.1_1_2:29147965-29158512:+|nuORF ENSG00000163811|ENST00000407426|WDR43 ENSG00000163811|ENST00000407426|WDR43 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 310.2118225097656 3 310.211177 927.611703 2.2627 0.00070191 0.17687 5.4867E-05 2.4395 0.00075677 310.2111814795706 28.95 0.30205 29.21 29.068 29.37 0.2602 52 21 3 0 0 0 0.57648 1 13167 13167 12.241 0 1 3460400 21041 4254 13223 13279 24521 24521 0.1450011172498762 NLIKKTVL 8 Unmodified _NLIKKTVL_ 0 0 0 ENSG00000163811|ENST00000407426|WDR43;WDR43|p.A657Gfs*4|1|0.01|ENSG00000163811|chr2:28946714-28946715|-/GGAA|frameshift_variant;ENST00000466067.1_1_2:29147965-29158512:+|nuORF ENSG00000163811|ENST00000407426|WDR43 ENSG00000163811|ENST00000407426|WDR43 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.8143615722656 2 464.813128 927.611703 2.7713 0.0012882 -0.27962 -0.00012997 2.4917 0.0011582 464.8129560440739 28.633 0.38832 29.252 29.041 29.43 0.61947 60 18 4 0 0 0 0.00036904 3 13171 13079;13126;13171 139.14 27.851 1 6250600 21042 4254 13223 13279 24522;24523;24524 24524 0.1450011172498762 NLIKLLYLK 9 Unmodified _NLIKLLYLK_ 0 0 0 REV__nc|ENSG00000170185|Q8NB14-2|USP38 REV__nc|ENSG00000170185|Q8NB14-2|USP38 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.6615600585938 2 559.37081 1116.72707 NaN NaN NaN NaN NaN NaN NaN 92.861 1 93.116 92.616 93.616 0.25497 0 0 0 0.91206 1 42683 42683 0.6015 0 1 + 21043 18040 13224 13280 24525 24525 0.1733721585596868 NLIKWIRNWCQ 11 Unmodified _NLIKWIRNWCQ_ 0 0 0 REV__ENST00000368841.6_1_1:151666322-151666445:+|nuORF REV__ENST00000368841.6_1_1:151666322-151666445:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.5773620605469 3 491.930968 1472.77107 NaN NaN NaN NaN NaN NaN NaN 75.979 1 76.603 76.103 77.103 0.62397 0 0 0 1.0072 1 36807 36807 1.3296 0.21989 1 + 21044 15693 13225 13281 24526 24526 0.05359877010687342 NLILVAAIF 9 Unmodified _NLILVAAIF_ 0 0 0 REV__ENSG00000132405|ENST00000409757|TBC1D14 REV__ENSG00000132405|ENST00000409757|TBC1D14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.34075927734375 2 487.307678 972.600803 NaN NaN NaN NaN NaN NaN NaN 63.128 1 63.128 62.628 63.628 0 0 0 0 0.75166 1 29659 29659 10.824 2.2306 1 + 21045 11889 13226 13282 24527 24527 0.11340709350702127 NLILVTWW 8 Unmodified _NLILVTWW_ 0 0 0 REV__ENST00000358151.8_1_9:114289573-114289636:+|nuORF REV__ENST00000358151.8_1_9:114289573-114289636:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.7962036132812 2 522.797478 1043.5804 NaN NaN NaN NaN NaN NaN NaN 64.987 1 64.987 64.487 65.487 0 0 0 0 0.89651 1 30886 30886 12.532 4.376 1 + 21046 15578 13227 13283 24528 24528 0.060355386908895525 NLIMHKRIHN 10 Unmodified _NLIMHKRIHN_ 0 0 0 ENSG00000270011|ENST00000541595|ZNF559-ZNF177;ENSG00000188629|ENST00000683217|ZNF177 ENSG00000270011|ENST00000541595|ZNF559-ZNF177 ENSG00000270011|ENST00000541595|ZNF559-ZNF177 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 638.357666015625 2 638.358773 1274.70299 NaN NaN NaN NaN NaN NaN NaN 74.955 1 75.619 75.119 76.119 0.6644 0 0 0 1.0001 1 34520 34520 1.6526 0 1 21047 5671 13228 13284 24529 24529 0.07663052150678595 NLIPRFPRRIR 11 Unmodified _NLIPRFPRRIR_ 0 0 0 REV__ENST00000261693.10_1_12:125267275-125270928:-|nuORF REV__ENST00000261693.10_1_12:125267275-125270928:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 479.9705810546875 3 479.968633 1436.88407 NaN NaN NaN NaN NaN NaN NaN 63.786 1 63.786 63.286 64.286 0 0 0 0 1.0072 1 30068 30068 0.45452 0 1 + 21048 14968 13229 13285 24530 24530 0.18310313518873045 NLIRNKLSL 9 Unmodified _NLIRNKLSL_ 0 0 0 REV__ENST00000481285.5_1_X:118146936-118151650:+|nuORF REV__ENST00000481285.5_1_X:118146936-118151650:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.89599609375 3 357.560869 1069.66078 2.1836 0.00078077 0.28573 0.00010217 2.4693 0.00088294 357.561496033178 13.62 0.18553 13.928 13.806 13.992 0.30727 24 16 2 0 0 0 0.24524 1 6149 6149 20.415 5.1661 1 398200 + 21049 13673 13230 13286 24531 24531 0.1287340001395023 NLIRNKLSL 9 Unmodified _NLIRNKLSL_ 0 0 0 REV__ENST00000481285.5_1_X:118146936-118151650:+|nuORF REV__ENST00000481285.5_1_X:118146936-118151650:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 357.560869 1069.66078 2.6023 0.00093049 -0.52924 -0.00018924 2.0731 0.00074126 357.5609305579793 14.161 0.061496 14.161 14.127 14.189 0 0.11649 -0.0007366 NaN 20.415 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 169340 + 21050 13673 13230 13286 0.1287340001395023 NLKARILKRKR 11 Unmodified _NLKARILKRKR_ 0 0 0 ENST00000557439.5_1_14:104171572-104171944:-|nuORF ENST00000557439.5_1_14:104171572-104171944:-|nuORF ENST00000557439.5_1_14:104171572-104171944:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.98529052734375 3 465.984283 1394.93102 NaN NaN NaN NaN NaN NaN NaN 60.394 1 61.144 60.644 61.644 0.74927 0 0 0 1.0079 1 27857 27857 0.45452 0.046251 1 21051 8939 13231 13287 24532 24532 0.24935173070002747 NLKEEEDDDS 10 Unmodified _NLKEEEDDDS_ 0 0 0 nc|ENSG00000109066|Q8NE00-2|TMEM104;ENSG00000109066|ENST00000335464|TMEM104 nc|ENSG00000109066|Q8NE00-2|TMEM104 nc|ENSG00000109066|Q8NE00-2|TMEM104 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 597.2433471679688 2 597.243854 1192.47316 NaN NaN NaN NaN NaN NaN NaN 61.99 1 62.72 62.22 63.22 0.73077 0 0 0 0.99774 1 28830 28830 3.5965 0 1 21052 1666 13232 13288 24533 24533 -0.11538172562609361 NLKEKALSF 9 Unmodified _NLKEKALSF_ 0 0 0 nc|ENSG00000156535|Q6YHK3-4|CD109;ENSG00000156535|ENST00000287097|CD109;nc|ENSG00000156535|Q6YHK3-2|CD109;ENST00000474094.1_1_6:74502386-74513776:+|nuORF nc|ENSG00000156535|Q6YHK3-4|CD109;ENST00000474094.1_1_6:74502386-74513776:+|nuORF nc|ENSG00000156535|Q6YHK3-4|CD109 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.306396484375 2 525.303124 1048.5917 3.3012 0.0017341 0.93469 0.00049099 4.2359 0.0022251 525.3040538828379 35.206 0.22928 35.462 35.391 35.62 0.25524 16 9 2 0 0 0 0.25718 1 16068 16068 20.415 0 1 381330 21053 3916;8203 13233 13289 24534 24534 0.06934315994362805 NLKFAAKEL 9 Unmodified _NLKFAAKEL_ 0 0 0 ENSG00000255112|ENST00000526991|CHMP1B ENSG00000255112|ENST00000526991|CHMP1B ENSG00000255112|ENST00000526991|CHMP1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.3075561523438 2 517.305667 1032.59678 3.4532 0.0017864 -0.19475 -0.00010074 3.2585 0.0016856 517.3055986980918 36.58 0.56921 36.838 36.422 36.991 0.25768 29 21 2 0 0 0 0.68285 1 16718 16718 9.3831 2.66 1 1024300 21054 6281 13234 13290 24535 24535 0.08178619856994374 NLKFAAKEL 9 Unmodified _NLKFAAKEL_ 0 0 0 ENSG00000255112|ENST00000526991|CHMP1B ENSG00000255112|ENST00000526991|CHMP1B ENSG00000255112|ENST00000526991|CHMP1B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 517.305667 1032.59678 3.5163 0.001819 0.06356 3.288E-05 3.5799 0.0018519 517.3056803426585 35.988 0.46589 36.614 36.296 36.762 0.62631 -0.1119 0.00012495 NaN 9.3831 26 16 3 NaN NaN NaN NaN 0 NaN NaN 0 1153500 21055 6281 13234 13290 0.08178619856994374 NLKGFYRR 8 Unmodified _NLKGFYRR_ 0 0 0 ENSG00000136237|ENST00000665637|RAPGEF5 ENSG00000136237|ENST00000665637|RAPGEF5 ENSG00000136237|ENST00000665637|RAPGEF5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.3016967773438 2 527.30125 1052.58795 NaN NaN NaN NaN NaN NaN NaN 53.289 1 54.092 53.592 54.592 0.80351 0 0 0 0.95658 1 24303 24303 8.5933 0 1 21056 2934 13235 13291 24536 24536 0.06375691011157869 NLKHSKEKKKS 11 Unmodified _NLKHSKEKKKS_ 0 0 0 nc|ENSG00000183137|Q8IYX8-2|CEP57L1;ENSG00000183137|ENST00000517392|CEP57L1 nc|ENSG00000183137|Q8IYX8-2|CEP57L1 nc|ENSG00000183137|Q8IYX8-2|CEP57L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.8972778320312 2 663.896243 1325.77793 4.1261 0.0027393 -1.7328 -0.0011504 2.3933 0.0015889 663.8951214576948 91.271 1.2233 91.933 91.419 92.642 0.66198 98 62 2 0 0 0 0.91104 1 42018 42018 1.1933 0.88631 1 1499700 21057 5366 13236 13292 24537 24537 0.12807513162874784 NLKHYIIWQF 10 Unmodified _NLKHYIIWQF_ 0 0 0 ENST00000549041.1_1_12:51634351-51634513:+|nuORF ENST00000549041.1_1_12:51634351-51634513:+|nuORF ENST00000549041.1_1_12:51634351-51634513:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.58453369140625 3 454.583674 1360.72919 NaN NaN NaN NaN NaN NaN NaN 61.486 1 62.225 61.725 62.725 0.7396 0 0 0 0.99774 1 28518 28518 1.7423 0.52744 1 21058 8858 13237 13293 24538 24538 0.06325644593789548 NLKKEKVVLIK 11 Unmodified _NLKKEKVVLIK_ 0 0 0 REV__ENST00000512687.5_1_5:68530748-68551520:+|nuORF REV__ENST00000512687.5_1_5:68530748-68551520:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 656.5794677734375 2 656.439755 1310.86496 NaN NaN NaN NaN NaN NaN NaN 68.544 1 68.544 68.044 69.044 0 0 0 0 1.0061 1 33012 33012 2.7352 0 1 + 21059 16982 13238 13294 24539 24539 0.22195919384603258 NLKKFIESL 9 Unmodified _NLKKFIESL_ 0 0 0 nc|ENSG00000136250|P28039-2|AOAH;ENSG00000136250|ENST00000617537|AOAH nc|ENSG00000136250|P28039-2|AOAH nc|ENSG00000136250|P28039-2|AOAH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.3294677734375 2 546.326599 1090.63865 3.3579 0.0018345 0.71949 0.00039308 4.0774 0.0022276 546.3269478696221 52.016 0.23296 52.678 52.593 52.826 0.66198 17 10 2 0 0 0 0.26277 1 23842 23842 19.257 0 1 243840 21060 2938 13239 13295 24540 24540 0.09695175545516577 NLKKFRYVKLI 11 Unmodified _NLKKFRYVKLI_ 0 0 0 ENST00000496441.5_1_2:174219691-174228743:+|nuORF;nc|ENSG00000144354|Q9BWT1-4|CDCA7;nc|ENSG00000144354|Q9BWT1-3|CDCA7;nc|ENSG00000144354|Q9BWT1|CDCA7;nc|ENSG00000144354|Q9BWT1-6|CDCA7;ENSG00000144354|ENST00000306721|CDCA7 ENST00000496441.5_1_2:174219691-174228743:+|nuORF ENST00000496441.5_1_2:174219691-174228743:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.3772277832031 3 474.63789 1420.89184 2.5903 0.0012295 2.514 0.0011933 5.1043 0.0024227 474.6388731181028 61.667 0.040249 61.667 61.636 61.677 0 6 5 2 0 0 0 0.13295 1 28773 28773 1.1098 0 1 3154900 21061 3418 13240 13296 24541 24541 0.19823027995789744 NLKKRKKRK 9 Unmodified _NLKKRKKRK_ 0 0 0 nc|ENSG00000230453|A2A2Z9|ANKRD18B;ENSG00000230453|ENST00000684830|ANKRD18B nc|ENSG00000230453|A2A2Z9|ANKRD18B nc|ENSG00000230453|A2A2Z9|ANKRD18B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 599.9164428710938 2 599.914573 1197.81459 NaN NaN NaN NaN NaN NaN NaN 17.237 1 17.438 16.938 17.938 0.20057 0 0 0 0.91206 1 7623 7623 0.6015 0 1 21062 6179 13241 13297 24542 24542 0.22359854570117932 NLKKRKKRK 9 Unmodified _NLKKRKKRK_ 0 0 0 nc|ENSG00000230453|A2A2Z9|ANKRD18B;ENSG00000230453|ENST00000684830|ANKRD18B nc|ENSG00000230453|A2A2Z9|ANKRD18B nc|ENSG00000230453|A2A2Z9|ANKRD18B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 599.9166870117188 2 599.914573 1197.81459 NaN NaN NaN NaN NaN NaN NaN 71.387 1 72.09 71.59 72.59 0.70386 0 0 0 0.90611 1 34281 34281 2.0598 0 1 21063 6179 13241 13297 24543 24543 0.22359854570117932 NLKKRSCRWCV 11 Unmodified _NLKKRSCRWCV_ 0 0 0 REV__ENST00000230354.10_1_6:170866007-170866112:+|nuORF REV__ENST00000230354.10_1_6:170866007-170866112:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.8606262207031 3 464.916553 1391.72783 NaN NaN NaN NaN NaN NaN NaN 69.85 1 69.85 69.35 70.35 0 0 0 0 1.0038 1 33810 33810 2.6312 0 1 + 21064 14855 13242 13298 24544 24544 0.04763363961728828 NLKLIWRFDRR 11 Unmodified _NLKLIWRFDRR_ 0 0 0 REV__ENST00000281146.9_1_4:130015073-130023805:+|nuORF REV__ENST00000281146.9_1_4:130015073-130023805:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 758.9467163085938 2 758.946602 1515.87865 NaN NaN NaN NaN NaN NaN NaN 74.772 1 74.772 74.272 75.272 0 0 0 0 1.0082 1 36581 36581 0.35063 0 1 + 21065 15089 13243 13299 24545 24545 0.14134589936384145 NLKLKEALI 9 Unmodified _NLKLKEALI_ 0 0 0 REV__MED12L|p.Y484Sfs*2|1|0.03|ENSG00000144893|chr3:151165935-151165936|CT/-|frameshift_variant REV__MED12L|p.Y484Sfs*2|1|0.03|ENSG00000144893|chr3:151165935-151165936|CT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.3405151367188 2 521.336967 1040.65938 NaN NaN NaN NaN NaN NaN NaN 46.919 1 47.182 46.682 47.682 0.26363 0 0 0 0.11889 1 21444 21444 38.176 0 1 + 21066 12420 13244 13300 24546 24546 0.14067765925165077 NLKLKEALI 9 Unmodified _NLKLKEALI_ 0 0 0 REV__MED12L|p.Y484Sfs*2|1|0.03|ENSG00000144893|chr3:151165935-151165936|CT/-|frameshift_variant REV__MED12L|p.Y484Sfs*2|1|0.03|ENSG00000144893|chr3:151165935-151165936|CT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.3411865234375 2 521.336967 1040.65938 NaN NaN NaN NaN NaN NaN NaN 46.369 1 47.021 46.521 47.521 0.65219 0 0 0 0.1585 1 21239 21239 32.786 3.7041 1 + 21067 12420 13244 13300 24547 24547 0.14067765925165077 NLKLKLHSF 9 Unmodified _NLKLKLHSF_ 0 0 0 ENST00000502424.1_1_5:14797477-14798464:-|nuORF;nc|ENSG00000162521|Q09028-4|RBBP4;nc|ENSG00000162521|Q09028-3|RBBP4;nc|ENSG00000162521|Q09028-2|RBBP4;ENSG00000162521|ENST00000373493|RBBP4 ENST00000502424.1_1_5:14797477-14798464:-|nuORF ENST00000502424.1_1_5:14797477-14798464:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 367.2264099121094 3 367.225598 1098.65496 2.6883 0.00098721 0.037804 1.3883E-05 2.7261 0.0010011 367.22560123289355 36.465 0.42589 36.465 36.265 36.691 0 55 19 4 0 0 0 0.015098 2 16518 16518;16569 67.838 44.048 1 4896800 21068 4141 13245 13301 24548;24549 24548 0.10958301502250833 NLKLKLHSF 9 Unmodified _NLKLKLHSF_ 0 0 0 ENST00000502424.1_1_5:14797477-14798464:-|nuORF;nc|ENSG00000162521|Q09028-4|RBBP4;nc|ENSG00000162521|Q09028-3|RBBP4;nc|ENSG00000162521|Q09028-2|RBBP4;ENSG00000162521|ENST00000373493|RBBP4 ENST00000502424.1_1_5:14797477-14798464:-|nuORF ENST00000502424.1_1_5:14797477-14798464:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.3364868164062 2 550.334759 1098.65496 3.5776 0.0019689 0.49282 0.00027122 4.0705 0.0022401 550.3348959051738 36.497 0.24615 36.497 36.325 36.571 0 26 11 3 0 0 0 0.018453 2 16523 16523;16582 70.332 32.156 1 602890 21069 4141 13245 13301 24550;24551 24550 0.10958301502250833 NLKLKLHSF 9 Unmodified _NLKLKLHSF_ 0 0 0 ENST00000502424.1_1_5:14797477-14798464:-|nuORF;nc|ENSG00000162521|Q09028-4|RBBP4;nc|ENSG00000162521|Q09028-3|RBBP4;nc|ENSG00000162521|Q09028-2|RBBP4;ENSG00000162521|ENST00000373493|RBBP4 ENST00000502424.1_1_5:14797477-14798464:-|nuORF ENST00000502424.1_1_5:14797477-14798464:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 367.2264404296875 3 367.225598 1098.65496 2.5189 0.000925 0.13795 5.0658E-05 2.6568 0.00097566 367.2256029973975 35.521 0.31467 36.312 36.14 36.455 0.79131 49 16 4 0 0 0 0.0079462 2 16072 16072;16119 74.2 45.705 1 4376700 21070 4141 13245 13301 24552;24553 24552 0.10958301502250833 NLKLKLHSF 9 Unmodified _NLKLKLHSF_ 0 0 0 ENST00000502424.1_1_5:14797477-14798464:-|nuORF;nc|ENSG00000162521|Q09028-4|RBBP4;nc|ENSG00000162521|Q09028-3|RBBP4;nc|ENSG00000162521|Q09028-2|RBBP4;ENSG00000162521|ENST00000373493|RBBP4 ENST00000502424.1_1_5:14797477-14798464:-|nuORF ENST00000502424.1_1_5:14797477-14798464:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.3351440429688 2 550.334759 1098.65496 3.3642 0.0018514 -0.1448 -7.9691E-05 3.2194 0.0017717 550.334125024043 35.517 0.18974 36.308 36.194 36.384 0.79131 20 10 2 0 0 0 0.0090098 1 16087 16087 83.429 37.729 1 649120 21071 4141 13245 13301 24554 24554 0.10958301502250833 NLKLKLHSF 9 Unmodified _NLKLKLHSF_ 0 0 0 ENST00000502424.1_1_5:14797477-14798464:-|nuORF;nc|ENSG00000162521|Q09028-4|RBBP4;nc|ENSG00000162521|Q09028-3|RBBP4;nc|ENSG00000162521|Q09028-2|RBBP4;ENSG00000162521|ENST00000373493|RBBP4 ENST00000502424.1_1_5:14797477-14798464:-|nuORF ENST00000502424.1_1_5:14797477-14798464:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 367.2265319824219 3 367.225598 1098.65496 2.6484 0.00097255 0.026763 9.8281E-06 2.6751 0.00098238 367.22563646474134 36.353 0.62122 36.611 36.37 36.991 0.25768 76 23 5 0 0 0 0.012326 3 16560 16506;16560;16619 67.838 44.048 1 23387000 21072 4141 13245 13301 24555;24556;24557 24556 0.10958301502250833 NLKLKLHSF 9 Unmodified _NLKLKLHSF_ 0 0 0 ENST00000502424.1_1_5:14797477-14798464:-|nuORF;nc|ENSG00000162521|Q09028-4|RBBP4;nc|ENSG00000162521|Q09028-3|RBBP4;nc|ENSG00000162521|Q09028-2|RBBP4;ENSG00000162521|ENST00000373493|RBBP4 ENST00000502424.1_1_5:14797477-14798464:-|nuORF ENST00000502424.1_1_5:14797477-14798464:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.3364868164062 2 550.334759 1098.65496 3.5429 0.0019498 0.12253 6.7431E-05 3.6654 0.0020172 550.3347920172822 36.352 0.37533 36.609 36.422 36.797 0.25768 38 14 4 0 0 0 4.2125E-14 2 16574 16520;16574 171.09 82.132 1 3752900 21073 4141 13245 13301 24558;24559 24559 0.10958301502250833 NLKLKLHSF 9 Unmodified _NLKLKLHSF_ 0 0 0 ENST00000502424.1_1_5:14797477-14798464:-|nuORF;nc|ENSG00000162521|Q09028-4|RBBP4;nc|ENSG00000162521|Q09028-3|RBBP4;nc|ENSG00000162521|Q09028-2|RBBP4;ENSG00000162521|ENST00000373493|RBBP4 ENST00000502424.1_1_5:14797477-14798464:-|nuORF ENST00000502424.1_1_5:14797477-14798464:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 367.2265930175781 3 367.225598 1098.65496 2.6885 0.0009873 0.1091 4.0066E-05 2.7976 0.0010274 367.2256586772017 35.796 0.49459 36.422 36.201 36.695 0.62631 59 18 5 0 0 0 0.012326 3 16355 16355;16408;16459 63.227 36.959 1 21259000 21074 4141 13245 13301 24560;24561;24562 24560 0.10958301502250833 NLKLKLHSF 9 Unmodified _NLKLKLHSF_ 0 0 0 ENST00000502424.1_1_5:14797477-14798464:-|nuORF;nc|ENSG00000162521|Q09028-4|RBBP4;nc|ENSG00000162521|Q09028-3|RBBP4;nc|ENSG00000162521|Q09028-2|RBBP4;ENSG00000162521|ENST00000373493|RBBP4 ENST00000502424.1_1_5:14797477-14798464:-|nuORF ENST00000502424.1_1_5:14797477-14798464:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.3369750976562 2 550.334759 1098.65496 3.6182 0.0019912 0.24449 0.00013455 3.8627 0.0021258 550.3348386067997 35.781 0.30972 36.407 36.231 36.541 0.62631 30 12 4 0 0 0 7.3583E-09 2 16412 16360;16412 157.8 60.294 1 2199600 21075 4141 13245 13301 24563;24564 24564 0.10958301502250833 NLKLKLHTF 9 Unmodified _NLKLKLHTF_ 0 0 0 ENSG00000102054|ENST00000380087|RBBP7;nc|ENSG00000102054|Q16576-2|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.3449096679688 2 557.342584 1112.67061 3.5239 0.001964 0.057209 3.1885E-05 3.5811 0.0019959 557.3425773494034 38.063 0.24422 38.063 37.96 38.204 0 21 8 3 0 0 0 0.0012766 1 17287 17287 122.18 80.34 1 698900 21076 1328 13246 13302 24565 24565 0.11878588019294511 NLKLKLHTF 9 Unmodified _NLKLKLHTF_ 0 0 0 ENSG00000102054|ENST00000380087|RBBP7;nc|ENSG00000102054|Q16576-2|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.344482421875 2 557.342584 1112.67061 3.5562 0.001982 0.077557 4.3226E-05 3.6338 0.0020253 557.3426583748379 37.875 0.41486 38.135 37.951 38.366 0.26083 35 13 4 0 0 0 4.0157E-30 1 17277 17277 193.29 128.06 1 3763600 21077 1328 13246 13302 24566 24566 0.11878588019294511 NLKLKLHTF 9 Unmodified _NLKLKLHTF_ 0 0 0 ENSG00000102054|ENST00000380087|RBBP7;nc|ENSG00000102054|Q16576-2|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.34521484375 2 557.342584 1112.67061 3.4993 0.0019503 0.26443 0.00014738 3.7637 0.0020977 557.3429256960451 37.256 0.2939 37.886 37.706 38 0.62999 38 12 4 0 0 0 1.4684E-06 1 17050 17050 149.91 99.981 1 1637800 21078 1328 13246 13302 24567 24567 0.11878588019294511 NLKLKLTAV 9 Unmodified _NLKLKLTAV_ 0 0 0 nc|ENSG00000110841|Q86W92-4|PPFIBP1;ENSG00000110841|ENST00000228425|PPFIBP1;nc|ENSG00000110841|Q86W92|PPFIBP1;nc|ENSG00000110841|Q86W92-3|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.25360107421875 2 500.331685 998.648816 3.039 0.0015205 0.85462 0.00042759 3.8936 0.0019481 500.33204699647933 44.657 0.26379 44.927 44.732 44.996 0.2694 20 9 3 0 0 0 0.0011391 1 20394 20394 70.332 28.492 1 1150500 21079 1731 13247 13303 24568 24568 0.14943783270734912 NLKLKLTAV 9 Unmodified _NLKLKLTAV_ 0 0 0 nc|ENSG00000110841|Q86W92-4|PPFIBP1;ENSG00000110841|ENST00000228425|PPFIBP1;nc|ENSG00000110841|Q86W92|PPFIBP1;nc|ENSG00000110841|Q86W92-3|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 500.331685 998.648816 3.3741 0.0016881 1.4083 0.00070463 4.7824 0.0023928 500.3322860730394 44.046 0.21767 44.695 44.575 44.792 0.64934 -0.074285 0.00028128 NaN 61.602 15 7 3 NaN NaN NaN NaN 0 NaN NaN 0 1256300 21080 1731 13247 13303 0.14943783270734912 NLKLRSRLK 9 Unmodified _NLKLRSRLK_ 0 0 0 ENST00000535493.5_1_2:240016681-240219867:-|nuORF;ENST00000493582.5_1_2:240016681-240274403:-|nuORF;ENST00000463007.5_1_2:240011659-240219867:-|nuORF;nc|ENSG00000068024|P56524-2|HDAC4;nc|ENSG00000068024|P56524|HDAC4;ENSG00000068024|ENST00000543185|HDAC4 ENST00000535493.5_1_2:240016681-240219867:-|nuORF ENST00000535493.5_1_2:240016681-240219867:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.43115234375 2 564.372207 1126.72986 NaN NaN NaN NaN NaN NaN NaN 62.699 1 63.421 62.921 63.921 0.72236 0 0 0 0.89683 1 29288 29288 4.3292 0 1 21081 731 13248 13304 24569 24569 0.17156484033512243 NLKNLQRKK 9 Unmodified _NLKNLQRKK_ 0 0 0 ENST00000474234.5_1_2:112995906-112996044:-|nuORF ENST00000474234.5_1_2:112995906-112996044:-|nuORF ENST00000474234.5_1_2:112995906-112996044:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.361083984375 2 571.361839 1140.70913 NaN NaN NaN NaN NaN NaN NaN 95.7 1 95.7 95.2 96.2 0 0 0 0 0.90611 1 51606 51606 2.0598 0 1 21082 8206 13249 13305 24570 24570 0.14439893653843683 NLKRHRKLKLK 11 Unmodified _NLKRHRKLKLK_ 0 0 0 REV__ENST00000344726.9_2_6:79911421-79912012:-|nuORF REV__ENST00000344726.9_2_6:79911421-79912012:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 717.4818115234375 2 717.480611 1432.94667 NaN NaN NaN NaN NaN NaN NaN 96.773 1 96.85 96.35 97.35 0.076538 0 0 0 1.0072 1 51524 51524 1.3295 1.3295 1 + 21083 15498 13250 13306 24571 24571 0.247514595870598 NLKRKNAKMKK 11 Unmodified _NLKRKNAKMKK_ 0 0 0 ENST00000506535.1_1_4:185619454-185631498:-|nuORF ENST00000506535.1_1_4:185619454-185631498:-|nuORF ENST00000506535.1_1_4:185619454-185631498:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 453.4234313964844 3 453.618612 1357.83401 NaN NaN NaN NaN NaN NaN NaN 63.051 1 63.051 62.551 63.551 0 0 0 0 1.0037 1 29616 29616 5.8681 4.7584 1 21084 8514 13251 13307 24572 24572 0.16940442798681943 NLKRKRNPQKM 11 Unmodified _NLKRKRNPQKM_ 0 0 0 REV__nc|ENSG00000154655|Q8NA19-2|L3MBTL4 REV__nc|ENSG00000154655|Q8NA19-2|L3MBTL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 471.61578369140625 3 471.61375 1411.81942 NaN NaN NaN NaN NaN NaN NaN 60.136 1 60.885 60.385 61.385 0.74927 0 0 0 1.0051 1 27680 27680 4.1166 2.3744 1 + 21085 12717 13252 13308 24573 24573 0.12998370650552715 NLKRLLRT 8 Unmodified _NLKRLLRT_ 0 0 0 ENST00000513882.5_1_5:16916319-16916484:-|nuORF ENST00000513882.5_1_5:16916319-16916484:-|nuORF ENST00000513882.5_1_5:16916319-16916484:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.333740234375 2 507.33255 1012.65055 NaN NaN NaN NaN NaN NaN NaN 105.25 1 105.25 104.75 105.75 0 0 0 0 0.99035 1 57845 57845 2.5775 0 1 21086 8581 13253 13309 24574 24574 0.14472837079381407 NLKRLLRTPNG 11 Unmodified _NLKRLLRTPNG_ 0 0 0 ENST00000513882.5_1_5:16916319-16916484:-|nuORF ENST00000513882.5_1_5:16916319-16916484:-|nuORF ENST00000513882.5_1_5:16916319-16916484:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.277587890625 2 641.391128 1280.7677 NaN NaN NaN NaN NaN NaN NaN 67.158 1 67.158 66.658 67.658 0 0 0 0 0.94958 1 32150 32150 11.495 1.4208 1 21087 8581 13254 13310 24575 24575 0.13854950228346752 NLKRRRRQYY 10 Unmodified _NLKRRRRQYY_ 0 0 0 REV__nc|ENSG00000107897|Q5T8D3-4|ACBD5 REV__nc|ENSG00000107897|Q5T8D3-4|ACBD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.66119384765625 3 484.948009 1451.8222 NaN NaN NaN NaN NaN NaN NaN 80.459 1 80.627 80.127 81.127 0.16862 0 0 0 1.0003 1 39435 39435 0.62683 0.12087 1 + 21088 11127 13255 13311 24576 24576 0.11435962099744756 NLKRTPRRIKA 11 Unmodified _NLKRTPRRIKA_ 0 0 0 ENSG00000150594|ENST00000280155|ADRA2A ENSG00000150594|ENST00000280155|ADRA2A ENSG00000150594|ENST00000280155|ADRA2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 676.9336547851562 2 676.933494 1351.85244 NaN NaN NaN NaN NaN NaN NaN 56.303 1 57.081 56.581 57.581 0.77786 0 0 0 1.0079 1 25737 25737 1.1933 0 1 21089 3671 13256 13312 24577 24577 0.19058320764929704 NLKRVRDDL 9 Unmodified _NLKRVRDDL_ 0 0 0 ENSG00000239900|ENST00000623063|ADSL;nc|ENSG00000239900|P30566-2|ADSL;ENST00000477111.2_1_22:40745965-40755045:+|nuORF ENSG00000239900|ENST00000623063|ADSL ENSG00000239900|ENST00000623063|ADSL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.8885192871094 3 376.887645 1127.64111 2.5583 0.00096419 0.28755 0.00010838 2.8458 0.0010726 376.8877737739488 16.797 1.407 17.101 16.153 17.56 0.30438 347 148 3 0 0 0 0.38625 1 7536 7536 14.405 0 1 437530 21090 6214 13257 13313 24578 24578 0.08239024003182749 NLKSKYFAV 9 Unmodified _NLKSKYFAV_ 0 0 0 ENSG00000116984|ENST00000366577|MTR;nc|ENSG00000116984|Q99707-2|MTR;ENST00000470570.1_1_1:237058450-237060941:+|nuORF ENSG00000116984|ENST00000366577|MTR ENSG00000116984|ENST00000366577|MTR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.3076171875 2 535.305667 1068.59678 3.0935 0.001656 1.3234 0.00070845 4.417 0.0023644 535.3063393723395 37.018 0.3111 37.277 37.103 37.414 0.25869 15 9 2 0 0 0 0.64206 1 16899 16899 10.074 3.3508 1 389530 21091 2055 13258 13314 24579 24579 0.06522619856991696 NLKSKYFAV 9 Unmodified _NLKSKYFAV_ 0 0 0 ENSG00000116984|ENST00000366577|MTR;nc|ENSG00000116984|Q99707-2|MTR;ENST00000470570.1_1_1:237058450-237060941:+|nuORF ENSG00000116984|ENST00000366577|MTR ENSG00000116984|ENST00000366577|MTR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.3074951171875 2 535.305667 1068.59678 3.349 0.0017928 -0.16657 -8.9164E-05 3.1825 0.0017036 535.3058142338392 36.27 0.24751 36.896 36.794 37.042 0.62631 16 7 3 0 0 0 0.10837 1 16628 16628 30.637 11.38 1 546850 21092 2055 13258 13314 24580 24580 0.06522619856991696 NLKSRNVEI 9 Unmodified _NLKSRNVEI_ 0 0 0 ENSG00000115946|ENST00000263657|PNO1 ENSG00000115946|ENST00000263657|PNO1 ENSG00000115946|ENST00000263657|PNO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 358.20843505859375 3 358.208495 1071.60366 2.4376 0.00087318 -0.80818 -0.0002895 1.6294 0.00058368 358.20813808859907 19.899 0.12201 20.191 20.12 20.242 0.29239 44 25 2 0 0 0 0.17594 2 9068 9029;9068 24.991 5.629 1 4007100 21093 2000 13259 13315 24581;24582 24582 0.07071932737562747 NLKSRNVEI 9 Unmodified _NLKSRNVEI_ 0 0 0 ENSG00000115946|ENST00000263657|PNO1 ENSG00000115946|ENST00000263657|PNO1 ENSG00000115946|ENST00000263657|PNO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.8095092773438 2 536.809105 1071.60366 3.4065 0.0018286 0.17835 9.5738E-05 3.5848 0.0019244 536.8090730317522 19.522 0.22019 20.18 20.081 20.301 0.6583 36 15 3 0 0 0 0.0022548 2 8846 8846;8889 100.09 34.856 1 1744200 21094 2000 13259 13315 24583;24584 24583 0.07071932737562747 NLKSRNVEI 9 Unmodified _NLKSRNVEI_ 0 0 0 ENSG00000115946|ENST00000263657|PNO1 ENSG00000115946|ENST00000263657|PNO1 ENSG00000115946|ENST00000263657|PNO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 358.20947265625 3 358.208495 1071.60366 2.6774 0.00095906 1.1272 0.00040377 3.8046 0.0013628 358.2088647682978 19.526 0.34879 20.185 20.066 20.415 0.6583 63 24 3 0 0 0 0.091193 1 8850 8850 34.932 5.0915 1 1760800 21095 2000 13259 13315 24585 24585 0.07071932737562747 NLKSRNVEI 9 Unmodified _NLKSRNVEI_ 0 0 0 ENSG00000115946|ENST00000263657|PNO1 ENSG00000115946|ENST00000263657|PNO1 ENSG00000115946|ENST00000263657|PNO1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 536.809105 1071.60366 3.1618 0.0016973 0.24727 0.00013274 3.409 0.00183 536.8090865219559 20.537 0.23453 20.537 20.415 20.649 0 0.17809 4.4811E-05 NaN 100.09 40 22 2 NaN NaN NaN NaN 0 NaN NaN 0 168310 21096 2000 13259 13315 0.07071932737562747 NLKSRNVEI 9 Unmodified _NLKSRNVEI_ 0 0 0 ENSG00000115946|ENST00000263657|PNO1 ENSG00000115946|ENST00000263657|PNO1 ENSG00000115946|ENST00000263657|PNO1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 358.208495 1071.60366 2.7043 0.0009687 0.018109 6.4868E-06 2.7224 0.00097518 358.20854383431947 20.512 0.29218 20.512 20.389 20.681 0 0.21618 6.4638E-05 NaN 34.932 57 30 3 NaN NaN NaN NaN 0 NaN NaN 0 294160 21097 2000 13259 13315 0.07071932737562747 NLKSRNVEI 9 Unmodified _NLKSRNVEI_ 0 0 0 ENSG00000115946|ENST00000263657|PNO1 ENSG00000115946|ENST00000263657|PNO1 ENSG00000115946|ENST00000263657|PNO1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 358.208495 1071.60366 2.4376 0.00087318 -0.80818 -0.0002895 1.6294 0.00058368 358.20813808859907 19.899 0.12201 20.191 20.12 20.242 0.29239 -0.10468 -0.00082331 NaN 34.932 44 25 2 NaN NaN NaN NaN 0 NaN NaN 0 4007100 21098 2000 13259 13315 0.07071932737562747 NLKSYRPRKIS 11 Unmodified _NLKSYRPRKIS_ 0 0 0 nc|ENSG00000113494|P16471-7|PRLR;nc|ENSG00000113494|P16471-4|PRLR nc|ENSG00000113494|P16471-7|PRLR nc|ENSG00000113494|P16471-7|PRLR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.6052551269531 3 454.605249 1360.79392 NaN NaN NaN NaN NaN NaN NaN 67.397 1 67.397 66.897 67.897 0 0 0 0 1.0041 1 32319 32319 2.4348 0 1 21099 9596 13260 13316 24586 24586 0.12795219399799862 NLKTKKQQR 9 Unmodified _NLKTKKQQR_ 0 0 0 ENST00000433398.1_1_7:66071742-66071856:-|nuORF;ENST00000373570.8_1_9:127620199-127620799:-|nuORF;ENSG00000136942|ENST00000348462|RPL35;ENST00000487431.1_1_9:127620199-127623861:-|nuORF ENST00000433398.1_1_7:66071742-66071856:-|nuORF ENST00000433398.1_1_7:66071742-66071856:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 572.3522338867188 2 572.351471 1142.68839 NaN NaN NaN NaN NaN NaN NaN 9.2529 1 9.5641 9.0641 10.064 0.31115 0 0 0 0.91238 1 4146 4146 0.52476 0 1 21100 2991 13261 13317 24587 24587 0.12275303274191174 NLKVKIKL 8 Unmodified _NLKVKIKL_ 0 0 0 ENST00000565846.2_1_15:56485023-56485380:-|nuORF ENST00000565846.2_1_15:56485023-56485380:-|nuORF ENST00000565846.2_1_15:56485023-56485380:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.9899597167969 2 478.33677 954.658987 NaN NaN NaN NaN NaN NaN NaN 62.5 1 63.23 62.73 63.73 0.73077 0 0 0 0.89651 1 29147 29147 12.532 0.89125 1 21101 9050 13262 13318 24588 24588 0.17984390995979993 NLKVKVLF 8 Unmodified _NLKVKVLF_ 0 0 0 ENSG00000115415|ENST00000361099|STAT1;nc|ENSG00000115415|P42224-2|STAT1 ENSG00000115415|ENST00000361099|STAT1 ENSG00000115415|ENST00000361099|STAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.8171691894531 2 480.81567 959.616788 3.0562 0.0014695 0.099209 4.7701E-05 3.1554 0.0015172 480.81531457568906 50.343 0.20205 51.166 51.071 51.273 0.82285 19 10 3 0 0 0 0.21011 1 22942 22942 42.095 18.946 1 379890 21102 1969 13263 13319 24589 24589 0.13536415587623196 NLKVKVLF 8 Unmodified _NLKVKVLF_ 0 0 0 ENSG00000115415|ENST00000361099|STAT1;nc|ENSG00000115415|P42224-2|STAT1 ENSG00000115415|ENST00000361099|STAT1 ENSG00000115415|ENST00000361099|STAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.817138671875 2 480.81567 959.616788 2.9428 0.0014149 0.40044 0.00019254 3.3432 0.0016075 480.81578163498705 51.033 0.32965 51.295 51.119 51.449 0.26146 37 14 4 0 0 0 0.0036564 2 23293 23293;23350 131.3 67.735 1 5727300 21103 1969 13263 13319 24590;24591 24590 0.13536415587623196 NLKVKVLF 8 Unmodified _NLKVKVLF_ 0 0 0 ENSG00000115415|ENST00000361099|STAT1;nc|ENSG00000115415|P42224-2|STAT1 ENSG00000115415|ENST00000361099|STAT1 ENSG00000115415|ENST00000361099|STAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.81689453125 2 480.81567 959.616788 3.0695 0.0014758 -0.04694 -2.2569E-05 3.0225 0.0014533 480.8155988040856 50.268 0.39523 50.926 50.729 51.124 0.65735 48 16 4 0 0 0 0.0085377 3 23006 22947;23006;23050 117.6 54.036 1 5233900 21104 1969 13263 13319 24592;24593;24594 24593 0.13536415587623196 NLKWLFFFHLR 11 Unmodified _NLKWLFFFHLR_ 0 0 0 REV__ENST00000360409.7_1_2:206659803-206659965:+|nuORF REV__ENST00000360409.7_1_2:206659803-206659965:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.6233825683594 3 507.622351 1519.84522 NaN NaN NaN NaN NaN NaN NaN 76.722 1 76.978 76.478 77.478 0.25533 0 0 0 1.008 1 35328 35328 0.094841 0.011491 1 + 21105 15609 13264 13320 24595 24595 0.10609588164493289 NLKYKKLLPML 11 Unmodified _NLKYKKLLPML_ 0 0 0 REV__nc|ENSG00000151233|Q4G148-2|GXYLT1 REV__nc|ENSG00000151233|Q4G148-2|GXYLT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 680.6673583984375 2 680.922884 1359.83121 NaN NaN NaN NaN NaN NaN NaN 78.502 1 78.502 78.002 79.002 0 0 0 0 1.0057 1 38597 38597 3.2813 0 1 + 21106 12609 13265 13321 24596 24596 0.1656917462119054 NLKYKKLLPML 11 Unmodified _NLKYKKLLPML_ 0 0 0 REV__nc|ENSG00000151233|Q4G148-2|GXYLT1 REV__nc|ENSG00000151233|Q4G148-2|GXYLT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 454.2851867675781 3 454.284348 1359.83121 3.2131 0.0014596 -1.135 -0.00051563 2.078 0.00094402 454.2836365842573 105.49 0.27024 106.09 105.99 106.26 0.59969 28 11 3 0 0 0 0.91378 1 48771 48771 0.094841 0 1 1949000 + 21107 12609 13265 13321 24597 24597 0.1656917462119054 NLKYYVLPKK 10 Unmodified _NLKYYVLPKK_ 0 0 0 ENSG00000197299|ENST00000355112|BLM ENSG00000197299|ENST00000355112|BLM ENSG00000197299|ENST00000355112|BLM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.3857421875 2 633.384448 1264.75434 NaN NaN NaN NaN NaN NaN NaN 62.2 1 62.93 62.43 63.43 0.73077 0 0 0 0.99774 1 28962 28962 3.5965 0.60125 1 21108 5805 13266 13322 24598 24598 0.13255699396358978 NLLDMRRSRYI 11 Unmodified _NLLDMRRSRYI_ 0 0 0 REV__ENST00000460633.1_1_6:32610630-32610903:+|nuORF REV__ENST00000460633.1_1_6:32610630-32610903:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.4363708496094 3 479.597877 1435.7718 NaN NaN NaN NaN NaN NaN NaN 61.055 1 61.795 61.295 62.295 0.7396 0 0 0 1.0038 1 28265 28265 2.6312 1.039 1 + 21109 16480 13267 13323 24599 24599 0.07134671659741798 NLLEIRNNQ 9 Unmodified _NLLEIRNNQ_ 0 0 0 REV__ENSG00000104321|ENST00000262209|TRPA1 REV__ENSG00000104321|ENST00000262209|TRPA1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.2498779296875 2 557.304187 1112.59382 3.5144 0.0019586 1.6139 0.00089945 5.1283 0.002858 557.3046513850771 57.882 0.23225 58.144 57.961 58.194 0.26228 20 12 2 0 0 0 0.085001 1 26463 26463 13.906 2.2658 1 418530 + 21110 10988 13268 13324 24600 24600 0.04202744732174324 NLLFLKKKKKK 11 Unmodified _NLLFLKKKKKK_ 0 0 0 ENST00000344423.9_1_8:28205640-28205820:-|nuORF ENST00000344423.9_1_8:28205640-28205820:-|nuORF ENST00000344423.9_1_8:28205640-28205820:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.2507629394531 3 463.321902 1386.94388 NaN NaN NaN NaN NaN NaN NaN 72.517 1 73.181 72.681 73.681 0.66398 0 0 0 1.0079 1 33267 33267 0.40827 0.32491 1 21111 7100 13269 13325 24601 24601 0.2658819140954165 NLLGTKHY 8 Unmodified _NLLGTKHY_ 0 0 0 ENST00000543086.7_1_12:1599405-1599519:+|nuORF ENST00000543086.7_1_12:1599405-1599519:+|nuORF ENST00000543086.7_1_12:1599405-1599519:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.2606506347656 2 473.261259 944.507966 NaN NaN NaN NaN NaN NaN NaN 68.253 1 68.955 68.455 69.455 0.70218 0 0 0 0.95658 1 32534 32534 8.5933 0 1 21112 8822 13270 13326 24602 24602 0.033492046173250856 NLLHKKIRPL 10 Unmodified _NLLHKKIRPL_ 0 0 0 REV__ENST00000464395.1_1_10:3185767-3189991:-|nuORF REV__ENST00000464395.1_1_10:3185767-3189991:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 616.3524780273438 2 616.403507 1230.79246 NaN NaN NaN NaN NaN NaN NaN 91.16 1 91.16 90.66 91.66 0 0 0 0 1.0015 1 48077 48077 0.45834 0.057624 1 + 21113 11131 13271 13327 24603 24603 0.18629630101668226 NLLHVRIRKK 10 Unmodified _NLLHVRIRKK_ 0 0 0 REV__ENSG00000009335|ENST00000348165|UBE3C REV__ENSG00000009335|ENST00000348165|UBE3C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 638.8920288085938 2 638.919855 1275.82516 NaN NaN NaN NaN NaN NaN NaN 77.55 1 78.111 77.611 78.611 0.56091 0 0 0 1.0003 1 37608 37608 1.4819 0 1 + 21114 10213 13272 13328 24604 24604 0.1982783722453405 NLLHVRIRKKL 11 Unmodified _NLLHVRIRKKL_ 0 0 0 REV__ENSG00000009335|ENST00000348165|UBE3C REV__ENSG00000009335|ENST00000348165|UBE3C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 695.4644165039062 2 695.461887 1388.90922 NaN NaN NaN NaN NaN NaN NaN 66.53 1 66.53 66.03 67.03 0 0 0 0 1.0072 1 31810 31810 1.3295 0.13619 1 + 21115 10213 13273 13329 24605 24605 0.23032368321446484 NLLIIRPINR 10 Unmodified _NLLIIRPINR_ 0 0 0 REV__ENST00000438116.2_1_22:40983245-40983449:-|nuORF REV__ENST00000438116.2_1_22:40983245-40983449:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 611.3951416015625 2 611.393139 1220.77173 NaN NaN NaN NaN NaN NaN NaN 63.972 1 64.687 64.187 65.187 0.71521 0 0 0 0.9754 1 30055 30055 9.3831 2.2814 1 + 21116 16322 13274 13330 24606 24606 0.1701703972200903 NLLKKKEMK 9 Unmodified _NLLKKKEMK_ 0 0 0 REV__ENST00000269141.7_1_18:25531022-25531103:-|nuORF REV__ENST00000269141.7_1_18:25531022-25531103:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.3506469726562 2 566.349551 1130.68455 NaN NaN NaN NaN NaN NaN NaN 60.965 1 61.704 61.204 62.204 0.7396 0 0 0 0.90611 1 28209 28209 2.0598 0 1 + 21117 15050 13275 13331 24607 24607 0.124434974560927 NLLKRWVFSIE 11 Unmodified _NLLKRWVFSIE_ 0 0 0 ENST00000570282.1_1_12:107348804-107349062:-|nuORF ENST00000570282.1_1_12:107348804-107349062:-|nuORF ENST00000570282.1_1_12:107348804-107349062:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 468.72021484375 3 468.938117 1403.79252 NaN NaN NaN NaN NaN NaN NaN 73.91 1 74.575 74.075 75.075 0.6644 0 0 0 1.0062 1 34007 34007 2.6312 0.19645 1 21118 9085 13276 13332 24608 24608 0.10677585311009352 NLLLFLKRFQR 11 Unmodified _NLLLFLKRFQR_ 0 0 0 REV__ENST00000507465.1_1_5:32388656-32388731:-|nuORF REV__ENST00000507465.1_1_5:32388656-32388731:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 724.447021484375 2 724.448446 1446.88234 NaN NaN NaN NaN NaN NaN NaN 76.766 1 76.766 76.266 77.266 0 0 0 0 1.0072 1 37627 37627 1.3295 0 1 + 21119 16941 13277 13333 24609 24609 0.1767725971026266 NLLLILLIYRI 11 Unmodified _NLLLILLIYRI_ 0 0 0 REV__ENST00000342992.10_3_2:179465685-179466102:-|nuORF REV__ENST00000342992.10_3_2:179465685-179466102:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 678.7105102539062 2 678.952498 1355.89044 NaN NaN NaN NaN NaN NaN NaN 102.16 1 102.76 102.26 103.26 0.59759 0 0 0 1.008 1 47291 47291 0.35063 0.043601 1 + 21120 15480 13278 13334 24610 24610 0.22673393907030004 NLLLLSILKK 10 Unmodified _NLLLLSILKK_ 0 0 0 ENST00000558598.1_1_15:77236162-77236210:+|nuORF ENST00000558598.1_1_15:77236162-77236210:+|nuORF ENST00000558598.1_1_15:77236162-77236210:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.8990478515625 2 577.897192 1153.77983 NaN NaN NaN NaN NaN NaN NaN 72.108 1 72.772 72.272 73.272 0.66324 0 0 0 0.9952 1 33058 33058 5.7319 0 1 21121 8952 13279 13335 24611 24611 0.20909173918789747 NLLNYSLRIF 10 Unmodified _NLLNYSLRIF_ 0 0 0 REV__MER72B_dup8|chr1:206066627-206067269:-|1.6590386670019752|0.1593671915957709|3.38|525.0|23|3|sense REV__MER72B_dup8|chr1:206066627-206067269:-|1.6590386670019752|0.1593671915957709|3.38|525.0|23|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 626.8585815429688 2 626.856055 1251.69756 3.9451 0.002473 -0.44 -0.00027581 3.5051 0.0021972 627.3572847060383 89.089 0.23061 89.767 89.605 89.836 0.67818 13 8 2 0 0 0 0.55057 1 40995 40995 19.257 0.88389 1 250240 + 21122 17835 13280 13336 24612 24612 0.08177651839832834 NLLNYSLRIF 10 Unmodified _NLLNYSLRIF_ 0 0 0 REV__MER72B_dup8|chr1:206066627-206067269:-|1.6590386670019752|0.1593671915957709|3.38|525.0|23|3|sense REV__MER72B_dup8|chr1:206066627-206067269:-|1.6590386670019752|0.1593671915957709|3.38|525.0|23|3|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 626.856055 1251.69756 4.0625 0.0025466 -0.14754 -9.2486E-05 3.915 0.0024541 626.85596321167 89.745 0.14842 89.996 89.902 90.051 0.25136 0.11443 0.00025634 NaN 19.257 12 5 3 NaN NaN NaN NaN 0 NaN NaN 0 444310 + 21123 17835 13280 13336 0.08177651839832834 NLLNYSLRIF 10 Unmodified _NLLNYSLRIF_ 0 0 0 REV__MER72B_dup8|chr1:206066627-206067269:-|1.6590386670019752|0.1593671915957709|3.38|525.0|23|3|sense REV__MER72B_dup8|chr1:206066627-206067269:-|1.6590386670019752|0.1593671915957709|3.38|525.0|23|3|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 626.856055 1251.69756 3.9451 0.002473 -0.44 -0.00027581 3.5051 0.0021972 627.3572847060383 89.089 0.23061 89.767 89.605 89.836 0.67818 -0.11443 -0.00011032 NaN 19.257 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 250240 + 21124 17835 13280 13336 0.08177651839832834 NLLPKVKNYLK 11 Unmodified _NLLPKVKNYLK_ 0 0 0 REV__nc|ENSG00000002079|Q9H6N6|MYH16 REV__nc|ENSG00000002079|Q9H6N6|MYH16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 665.4215087890625 2 665.41628 1328.81801 NaN NaN NaN NaN NaN NaN NaN 104.07 1 104.38 103.88 104.88 0.31863 0 0 0 1.008 1 48086 48086 0.30703 0 1 + 21125 17848 13281 13337 24613 24613 0.16675059833460182 NLLPKVKNYLK 11 Unmodified _NLLPKVKNYLK_ 0 0 0 REV__nc|ENSG00000002079|Q9H6N6|MYH16 REV__nc|ENSG00000002079|Q9H6N6|MYH16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 665.4218139648438 2 665.41628 1328.81801 NaN NaN NaN NaN NaN NaN NaN 104.18 1 104.5 104 105 0.31863 0 0 0 1.008 1 48140 48140 0.30703 0.03801 1 + 21126 17848 13281 13337 24614 24614 0.16675059833460182 NLLPVIVT 8 Unmodified _NLLPVIVT_ 0 0 0 REV__ENSG00000197532|ENST00000641622|OR6Y1 REV__ENSG00000197532|ENST00000641622|OR6Y1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.78009033203125 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 43.847 1 43.847 43.347 44.347 0 0 0 0 0.99035 1 20002 20002 2.3027 0 1 + 21127 14285 13282 13338 24615 24615 0.10388447425293634 NLLPVIVT 8 Unmodified _NLLPVIVT_ 0 0 0 REV__ENSG00000197532|ENST00000641622|OR6Y1 REV__ENSG00000197532|ENST00000641622|OR6Y1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.7808532714844 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 56.12 1 56.12 55.62 56.62 0 0 0 0 0.99035 1 25816 25816 2.3027 0 1 + 21128 14285 13282 13338 24616 24616 0.10388447425293634 NLLREIQFHNF 11 Unmodified _NLLREIQFHNF_ 0 0 0 REV__nc|ENSG00000227471|C9JRZ8|AKR1B15 REV__nc|ENSG00000227471|C9JRZ8|AKR1B15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 715.881591796875 2 715.880593 1429.74663 NaN NaN NaN NaN NaN NaN NaN 65.311 1 66.02 65.52 66.52 0.70891 0 0 0 1.0061 1 30876 30876 2.7352 1.0826 1 + 21129 14565 13283 13339 24617 24617 0.04894940128770031 NLLRQQLKWL 10 Unmodified _NLLRQQLKWL_ 0 0 0 nc|ENSG00000140367|Q8WVN8-2|UBE2Q2;nc|ENSG00000140367|Q8WVN8-3|UBE2Q2;ENSG00000140367|ENST00000267938|UBE2Q2 nc|ENSG00000140367|Q8WVN8-2|UBE2Q2 nc|ENSG00000140367|Q8WVN8-2|UBE2Q2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 656.64599609375 2 656.398422 1310.78229 NaN NaN NaN NaN NaN NaN NaN 64.9 1 64.9 64.4 65.4 0 0 0 0 0.99774 1 30835 30835 3.5965 0.31518 1 21130 3194 13284 13340 24618 24618 0.1393302237647731 NLLRVLKVLKP 11 Unmodified _NLLRVLKVLKP_ 0 0 0 ENST00000522600.1_1_8:23083357-23085674:+|nuORF;ENST00000500853.1_1_8:23083357-23087480:+|nuORF ENST00000522600.1_1_8:23083357-23085674:+|nuORF ENST00000522600.1_1_8:23083357-23085674:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 646.618896484375 2 646.942465 1291.87038 NaN NaN NaN NaN NaN NaN NaN 82.696 1 82.741 82.241 83.241 0.045006 0 0 0 1.008 1 40873 40873 0.35063 0 1 21131 8475 13285 13341 24619 24619 0.23611642967057378 NLLVLTGLR 9 Unmodified _NLLVLTGLR_ 0 0 0 ENST00000526950.1_1_12:104712789-104714972:+|nuORF ENST00000526950.1_1_12:104712789-104714972:+|nuORF ENST00000526950.1_1_12:104712789-104714972:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.8214111328125 2 499.821484 997.628415 NaN NaN NaN NaN NaN NaN NaN 60.187 1 60.937 60.437 61.437 0.74927 0 0 0 0.65681 1 27715 27715 13.906 1.3745 1 21132 8681 13286 13342 24620 24620 0.1295061261093906 NLLWLKFKK 9 Unmodified _NLLWLKFKK_ 0 0 0 REV__ENST00000481179.5_1_2:102029510-102035375:-|nuORF REV__ENST00000481179.5_1_2:102029510-102035375:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.255615234375 3 397.253376 1188.7383 NaN NaN NaN NaN NaN NaN NaN 68.893 1 69.147 68.647 69.647 0.25443 0 0 0 0.91238 1 31559 31559 0.23584 0 1 + 21133 14219 13287 13343 24621 24621 0.15148037950120852 NLLWYFQRLRL 11 Unmodified _NLLWYFQRLRL_ 0 0 0 ENSG00000198837|ENST00000361217|DENND4B;ENST00000492898.1_1_1:153903201-153905153:-|nuORF ENSG00000198837|ENST00000361217|DENND4B ENSG00000198837|ENST00000361217|DENND4B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.9609069824219 3 507.961144 1520.8616 NaN NaN NaN NaN NaN NaN NaN 95.142 1 95.41 94.91 95.91 0.2675 0 0 0 1.0082 1 43717 43717 0.094841 0 1 21134 5946 13288 13344 24622 24622 0.12200669330604796 NLLYNGRL 8 Unmodified _NLLYNGRL_ 0 0 0 REV__ENST00000374476.3_1_2:177669824-177670178:-|nuORF REV__ENST00000374476.3_1_2:177669824-177670178:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.77239990234375 2 481.774534 961.534515 NaN NaN NaN NaN NaN NaN NaN 18.787 1 19.448 18.948 19.948 0.66072 0 0 0 0.88162 1 8518 8518 13.508 1.8676 1 + 21135 15785 13289 13345 24623 24623 0.05220893508669633 NLLYNRRWDRL 11 Unmodified _NLLYNRRWDRL_ 0 0 0 REV__nc|ENSG00000185101|A1A5B4-2|ANO9;REV__ENST00000532094.5_1_11:420655-431830:-|nuORF REV__ENST00000532094.5_1_11:420655-431830:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.0421447753906 3 506.947786 1517.82153 NaN NaN NaN NaN NaN NaN NaN 74.265 1 74.265 73.765 74.765 0 0 0 0 1.0079 1 36266 36266 0.45452 0 1 + 21136 14005;17149 13290 13346 24624 24624 0.08333122660019399 NLMDRKVL 8 Unmodified _NLMDRKVL_ 0 0 0 ENSG00000105939|ENST00000242351|ZC3HAV1;nc|ENSG00000105939|Q7Z2W4-3|ZC3HAV1;nc|ENSG00000105939|Q7Z2W4-2|ZC3HAV1 ENSG00000105939|ENST00000242351|ZC3HAV1 ENSG00000105939|ENST00000242351|ZC3HAV1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.7860107421875 2 494.784044 987.553536 3.1788 0.0015728 0.45725 0.00022624 3.636 0.001799 494.78458114417026 35.502 0.51426 35.757 35.566 36.08 0.25524 28 17 3 0 0 0 0.28626 1 16194 16194 29.082 8.628 1 434140 21137 1542 13291 13347 24625 24625 0.059261068080672885 NLMDRKVL 8 Unmodified _NLMDRKVL_ 0 0 0 ENSG00000105939|ENST00000242351|ZC3HAV1;nc|ENSG00000105939|Q7Z2W4-3|ZC3HAV1;nc|ENSG00000105939|Q7Z2W4-2|ZC3HAV1 ENSG00000105939|ENST00000242351|ZC3HAV1 ENSG00000105939|ENST00000242351|ZC3HAV1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.78546142578125 2 494.784044 987.553536 3.236 0.0016011 0.62685 0.00031015 3.8628 0.0019113 494.78434457761057 35.071 0.2267 35.694 35.612 35.839 0.62294 17 11 2 0 0 0 0.062161 1 16067 16067 62.573 15.652 1 711800 21138 1542 13291 13347 24626 24626 0.059261068080672885 NLMMRRSWRTW 11 Unmodified _NLMMRRSWRTW_ 0 0 0 ENST00000550488.5_1_12:50044549-50044988:-|nuORF ENST00000550488.5_1_12:50044549-50044988:-|nuORF ENST00000550488.5_1_12:50044549-50044988:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.9130249023438 3 512.92734 1535.76019 NaN NaN NaN NaN NaN NaN NaN 60.483 1 61.223 60.723 61.723 0.7396 0 0 0 1.0079 1 27914 27914 0.45452 0 1 21139 8869 13292 13348 24627 24627 0.013741513647346437 NLNRLQVMLLH 11 Unmodified _NLNRLQVMLLH_ 0 0 0 ENST00000253814.5_1_5:141488387-141511833:+|nuORF ENST00000253814.5_1_5:141488387-141511833:+|nuORF ENST00000253814.5_1_5:141488387-141511833:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 676.2632446289062 2 675.887364 1349.76017 NaN NaN NaN NaN NaN NaN NaN 98.359 1 98.659 98.159 99.159 0.29987 0 0 0 1.0038 1 45293 45293 5.7319 1.203 1 21140 6511 13293 13349 24628 24628 0.09928474636399187 NLPALLLLLLL 11 Unmodified _NLPALLLLLLL_ 0 0 0 ENSG00000064687|ENST00000263094|ABCA7;nc|ENSG00000064687|Q8IZY2-2|ABCA7 ENSG00000064687|ENST00000263094|ABCA7 ENSG00000064687|ENST00000263094|ABCA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 603.2855834960938 2 603.415217 1204.81588 NaN NaN NaN NaN NaN NaN NaN 78.083 1 78.644 78.144 79.144 0.56091 0 0 0 1.008 1 37922 37922 0.35063 0 1 21141 676 13294 13350 24629 24629 0.22166631095660705 NLPCRPRKV 9 Unmodified _NLPCRPRKV_ 0 0 0 REV__ENSG00000123384|ENST00000243077|LRP1 REV__ENSG00000123384|ENST00000243077|LRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.818603515625 2 541.81621 1081.61787 NaN NaN NaN NaN NaN NaN NaN 106.02 1 106.33 105.83 106.83 0.31628 0 0 0 0.90335 1 48931 48931 2.0598 0.40713 1 + 21142 11615 13295 13351 24630 24630 0.08032306684845025 NLPIILIVN 9 Unmodified _NLPIILIVN_ 0 0 0 REV__ENST00000400000.6_1_18:9954209-9954779:+|nuORF REV__ENST00000400000.6_1_18:9954209-9954779:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 336.8868713378906 3 336.886582 1007.63792 1.7917 0.0006036 -1.35 -0.0004548 0.44171 0.0001488 336.88589220569514 1.5168 0.20955 1.9104 1.8267 2.0363 0.39356 30 21 2 0 0 0 1.178 1 690 690 1.0715 0 1 35898 + 21143 16040 13296 13352 24631 24631 0.13440380896463466 NLPKLPKLKKL 11 Unmodified _NLPKLPKLKKL_ 0 0 0 ENST00000473205.1_1_9:100746884-100764563:+|nuORF;ENST00000564205.1_1_15:75614457-75614928:-|nuORF;nc|ENSG00000136938|Q92688-2|ANP32B;ENSG00000136938|ENST00000339399|ANP32B ENST00000473205.1_1_9:100746884-100764563:+|nuORF ENST00000473205.1_1_9:100746884-100764563:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 646.4769287109375 2 646.44484 1290.87513 NaN NaN NaN NaN NaN NaN NaN 107.6 1 107.65 107.15 108.15 0.045425 0 0 0 1.008 1 58157 58157 0.35063 0.35063 1 21144 2990 13297 13353 24632 24632 0.2413252710980487 NLPRKLRIIR 10 Unmodified _NLPRKLRIIR_ 0 0 0 ENST00000569860.1_1_2:12856079-12856172:+|nuORF ENST00000569860.1_1_2:12856079-12856172:+|nuORF ENST00000569860.1_1_2:12856079-12856172:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.2271728515625 2 639.92768 1277.84081 NaN NaN NaN NaN NaN NaN NaN 13.856 1 14.1 13.6 14.6 0.24346 0 0 0 1.0015 1 6074 6074 0.45834 0 1 21145 9077 13298 13354 24633 24633 0.2130012374159378 NLPYHQEL 8 Unmodified _NLPYHQEL_ 0 0 0 ENSG00000145623|ENST00000274276|OSMR;nc|ENSG00000145623|Q99650-2|OSMR ENSG00000145623|ENST00000274276|OSMR ENSG00000145623|ENST00000274276|OSMR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.2583923339844 2 507.256174 1012.49779 NaN NaN NaN NaN NaN NaN NaN 37.29 1 37.55 37.05 38.05 0.26083 0 0 0 0.76538 1 16984 16984 20.454 3.3407 1 21146 3476 13299 13355 24634 24634 -0.007954031079066226 NLPYHQEL 8 Unmodified _NLPYHQEL_ 0 0 0 ENSG00000145623|ENST00000274276|OSMR;nc|ENSG00000145623|Q99650-2|OSMR ENSG00000145623|ENST00000274276|OSMR ENSG00000145623|ENST00000274276|OSMR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.25750732421875 2 507.256174 1012.49779 3.3703 0.0017096 0.54255 0.00027521 3.9129 0.0019848 507.2562094387833 36.632 0.28502 37.262 37.109 37.394 0.62999 15 12 2 0 0 0 0.62895 1 16776 16776 11.64 3.047 1 122000 21147 3476 13299 13355 24635 24635 -0.007954031079066226 NLQCFLMNM 9 Unmodified _NLQCFLMNM_ 0 0 0 REV__ENST00000338086.9_1_2:20449433-20449517:-|nuORF REV__ENST00000338086.9_1_2:20449433-20449517:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.25048828125 2 557.248123 1112.48169 3.5909 0.002001 1.6753 0.00093356 5.2663 0.0029346 557.2488456982071 57.054 0.30921 57.722 57.578 57.887 0.66829 31 13 3 0 0 0 0.7295 1 26144 26144 8.5933 0 1 1392700 + 21148 15434 13300 13356 24636 24636 -0.07004891932319879 NLQKKKKKKK 10 Unmodified _NLQKKKKKKK_ 0 0 0 ENSG00000111300|ENST00000261745|NAA25 ENSG00000111300|ENST00000261745|NAA25 ENSG00000111300|ENST00000261745|NAA25 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 635.938232421875 2 635.937714 1269.86087 NaN NaN NaN NaN NaN NaN NaN 66.624 1 67.329 66.829 67.829 0.7047 0 0 0 1.0015 1 31596 31596 0.45834 0 1 21149 1752 13301 13357 24637 24637 0.23673874681549023 NLQMAAQRQR 10 Unmodified _NLQMAAQRQR_ 0 0 0 nc|ENSG00000179950|Q9UHX1-4|PUF60;nc|ENSG00000179950|Q9UHX1-6|PUF60;nc|ENSG00000179950|Q9UHX1-2|PUF60 nc|ENSG00000179950|Q9UHX1-4|PUF60 nc|ENSG00000179950|Q9UHX1-4|PUF60 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.88519287109375 3 405.884017 1214.63022 2.1498 0.00087257 0.50914 0.00020665 2.659 0.0010792 405.88411740662843 71.877 0.44929 72.581 72.429 72.878 0.70386 67 45 2 0 0 0 0.90196 1 34507 34507 1.7423 0.52744 1 1725000 21150 9767 13302 13358 24638 24638 0.03149298357243424 NLQMAAQRQR 10 Unmodified _NLQMAAQRQR_ 0 0 0 nc|ENSG00000179950|Q9UHX1-4|PUF60;nc|ENSG00000179950|Q9UHX1-6|PUF60;nc|ENSG00000179950|Q9UHX1-2|PUF60 nc|ENSG00000179950|Q9UHX1-4|PUF60 nc|ENSG00000179950|Q9UHX1-4|PUF60 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.8848876953125 3 405.884017 1214.63022 2.712 0.0011008 0.62516 0.00025374 3.3372 0.0013545 405.88411238662303 72.469 0.37722 72.728 72.609 72.987 0.25875 93 31 4 0 0 0 0.90196 1 33290 33290 1.7423 0.28716 1 2175500 21151 9767 13302 13358 24639 24639 0.03149298357243424 NLQMAAQRQR 10 Unmodified _NLQMAAQRQR_ 0 0 0 nc|ENSG00000179950|Q9UHX1-4|PUF60;nc|ENSG00000179950|Q9UHX1-6|PUF60;nc|ENSG00000179950|Q9UHX1-2|PUF60 nc|ENSG00000179950|Q9UHX1-4|PUF60 nc|ENSG00000179950|Q9UHX1-4|PUF60 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.88507080078125 3 405.884017 1214.63022 2.304 0.00093514 0.89895 0.00036487 3.2029 0.0013 405.88417911873387 72.123 0.76781 72.786 72.195 72.962 0.66324 109 59 3 0 0 0 0.90196 1 33139 33139 1.7423 0.52744 1 2213400 21152 9767 13302 13358 24640 24640 0.03149298357243424 NLQMAAQRQR 10 Unmodified _NLQMAAQRQR_ 0 0 0 nc|ENSG00000179950|Q9UHX1-4|PUF60;nc|ENSG00000179950|Q9UHX1-6|PUF60;nc|ENSG00000179950|Q9UHX1-2|PUF60 nc|ENSG00000179950|Q9UHX1-4|PUF60 nc|ENSG00000179950|Q9UHX1-4|PUF60 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.88543701171875 3 405.884017 1214.63022 NaN NaN NaN NaN NaN NaN NaN 71.867 1 72.53 72.03 73.03 0.66324 0 0 0 0.99774 1 32940 32940 1.7423 0.28716 1 21153 9767 13302 13358 24641 24641 0.03149298357243424 NLRGHILF 8 Unmodified _NLRGHILF_ 0 0 0 nc|ENSG00000113971|Q7Z494-4|NPHP3 nc|ENSG00000113971|Q7Z494-4|NPHP3 nc|ENSG00000113971|Q7Z494-4|NPHP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2877502441406 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 77.077 1 77.332 76.832 77.832 0.25533 0 0 0 0.99035 1 35494 35494 2.8892 0 1 21154 9599 13303 13359 24642 24642 0.07004903608196855 NLRHFRRGRRR 11 Unmodified _NLRHFRRGRRR_ 0 0 0 nc|ENSG00000172869|Q9Y485|DMXL1;ENSG00000172869|ENST00000539542|DMXL1 nc|ENSG00000172869|Q9Y485|DMXL1 nc|ENSG00000172869|Q9Y485|DMXL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 762.453125 2 762.453782 1522.89301 NaN NaN NaN NaN NaN NaN NaN 62.093 1 62.824 62.324 63.324 0.73077 0 0 0 1.0072 1 28892 28892 1.3295 0 1 21155 4900 13304 13360 24643 24643 0.1524809992788505 NLRHKLLEL 9 Unmodified _NLRHKLLEL_ 0 0 0 nc|ENSG00000154305|Q5JRA6-2|MIA3;ENSG00000154305|ENST00000344922|MIA3;nc|ENSG00000154305|Q5JRA6-4|MIA3 nc|ENSG00000154305|Q5JRA6-2|MIA3 nc|ENSG00000154305|Q5JRA6-2|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.2376403808594 3 379.236385 1134.68733 2.6254 0.00099566 -0.071973 -2.7295E-05 2.5535 0.00096837 379.2361822204398 35.625 0.19631 35.625 35.524 35.72 0 14 9 2 0 0 0 0.24524 1 16196 16196 20.415 12.259 1 532750 21156 3818 13305 13361 24644 24644 0.1253708890528742 NLRHKLLEL 9 Unmodified _NLRHKLLEL_ 0 0 0 nc|ENSG00000154305|Q5JRA6-2|MIA3;ENSG00000154305|ENST00000344922|MIA3;nc|ENSG00000154305|Q5JRA6-4|MIA3 nc|ENSG00000154305|Q5JRA6-2|MIA3 nc|ENSG00000154305|Q5JRA6-2|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.23748779296875 3 379.236385 1134.68733 2.7537 0.0010443 0.51146 0.00019396 3.2651 0.0012382 379.236473945838 35.399 0.36674 35.654 35.444 35.811 0.25524 32 12 4 0 0 0 0.14214 1 16110 16110 27.223 1.2025 1 1735600 21157 3818 13305 13361 24645 24645 0.1253708890528742 NLRHKLLEL 9 Unmodified _NLRHKLLEL_ 0 0 0 nc|ENSG00000154305|Q5JRA6-2|MIA3;ENSG00000154305|ENST00000344922|MIA3;nc|ENSG00000154305|Q5JRA6-4|MIA3 nc|ENSG00000154305|Q5JRA6-2|MIA3 nc|ENSG00000154305|Q5JRA6-2|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.3522338867188 2 568.35094 1134.68733 3.484 0.0019801 -0.12303 -6.9923E-05 3.361 0.0019102 568.350419096285 35.376 0.20682 35.631 35.537 35.744 0.25524 11 6 2 0 0 0 0.1776 1 16121 16121 32.786 11.039 1 197250 21158 3818 13305 13361 24646 24646 0.1253708890528742 NLRHKLLEL 9 Unmodified _NLRHKLLEL_ 0 0 0 nc|ENSG00000154305|Q5JRA6-2|MIA3;ENSG00000154305|ENST00000344922|MIA3;nc|ENSG00000154305|Q5JRA6-4|MIA3 nc|ENSG00000154305|Q5JRA6-2|MIA3 nc|ENSG00000154305|Q5JRA6-2|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.2371826171875 3 379.236385 1134.68733 2.7377 0.0010382 -0.069542 -2.6373E-05 2.6682 0.0010119 379.2363452264018 35.006 0.25547 35.629 35.512 35.767 0.62294 38 18 3 0 0 0 0.053359 2 16017 16017;16070 45.74 27.367 1 1915000 21159 3818 13305 13361 24647;24648 24647 0.1253708890528742 NLRIIAAH 8 Unmodified _NLRIIAAH_ 0 0 0 ENST00000552872.5_1_12:56231631-56234980:-|nuORF;ENSG00000123342|ENST00000322569|MMP19;ENST00000548882.5_1_12:56232267-56233517:-|nuORF;ENST00000547685.5_1_12:56231631-56233583:-|nuORF ENST00000552872.5_1_12:56231631-56234980:-|nuORF ENST00000552872.5_1_12:56231631-56234980:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.2792053222656 2 454.277244 906.539935 NaN NaN NaN NaN NaN NaN NaN 64.75 1 64.75 64.25 65.25 0 0 0 0 0.94507 1 30740 30740 9.3474 0 1 21160 2305 13306 13362 24649 24649 0.08292617091126431 NLRKILQHKLV 11 Unmodified _NLRKILQHKLV_ 0 0 0 REV__nc|ENSG00000152061|Q5R372-2|RABGAP1L REV__nc|ENSG00000152061|Q5R372-2|RABGAP1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.298095703125 3 454.629506 1360.86669 NaN NaN NaN NaN NaN NaN NaN 61.13 1 61.13 60.63 61.63 0 0 0 0 0.98464 1 28489 28489 6.6235 3.0364 1 + 21161 17986 13307 13363 24650 24650 0.20068973193224338 NLRKILQHKLV 11 Unmodified _NLRKILQHKLV_ 0 0 0 REV__nc|ENSG00000152061|Q5R372-2|RABGAP1L REV__nc|ENSG00000152061|Q5R372-2|RABGAP1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 681.4135131835938 2 681.440621 1360.86669 NaN NaN NaN NaN NaN NaN NaN 63.029 1 63.029 62.529 63.529 0 0 0 0 1.0041 1 29604 29604 5.2969 1.7004 1 + 21162 17986 13307 13363 24651 24651 0.20068973193224338 NLRKKLNEL 9 Unmodified _NLRKKLNEL_ 0 0 0 REV__ENSG00000178966|ENST00000445877|RMI1 REV__ENSG00000178966|ENST00000445877|RMI1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.5687255859375 3 376.568024 1126.68224 2.1929 0.00082578 -0.047058 -1.772E-05 2.1459 0.00080806 376.56791271694135 13.454 0.14908 13.698 13.559 13.708 0.24346 19 11 2 0 0 0 0.22824 1 5847 5847 21.537 5.3879 1 339770 + 21163 13776 13308 13364 24652 24652 0.12396785042665215 NLRKLKQKIPR 11 Unmodified _NLRKLKQKIPR_ 0 0 0 ENST00000361337.2_1_20:39708810-39709869:+|nuORF ENST00000361337.2_1_20:39708810-39709869:+|nuORF ENST00000361337.2_1_20:39708810-39709869:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 697.4584350585938 2 697.459345 1392.90414 NaN NaN NaN NaN NaN NaN NaN 70.064 1 70.767 70.267 71.267 0.70302 0 0 0 1.0072 1 33557 33557 1.3295 0.13619 1 21164 7223 13309 13365 24653 24653 0.22340064458830966 NLRKLLLKRK 10 Unmodified _NLRKLLLKRK_ 0 0 0 ENST00000342992.10_3_2:179510673-179515519:-|nuORF ENST00000342992.10_3_2:179510673-179515519:-|nuORF ENST00000342992.10_3_2:179510673-179515519:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.510986328125 2 641.445706 1280.87686 NaN NaN NaN NaN NaN NaN NaN 62.639 1 63.369 62.869 63.869 0.73077 0 0 0 0.99812 1 29244 29244 3.2813 1.6287 1 21165 7088 13310 13366 24654 24654 0.24765580918460728 NLRKRHYWRLD 11 Unmodified _NLRKRHYWRLD_ 0 0 0 PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant;PRKD3|p.L812Sfs*13|1|0.05|ENSG00000115825|chr2:37254269-37254270|-/A|frameshift_variant;ENSG00000115825|ENST00000234179|PRKD3;nc|ENSG00000115825|O94806-2|PRKD3;ENST00000494667.5_1_2:37496701-37543667:-|nuORF PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.8652954101562 3 519.623414 1555.84841 NaN NaN NaN NaN NaN NaN NaN 74.772 1 75.458 74.958 75.958 0.68662 0 0 0 1.0072 1 36144 36144 0.45452 0 1 21166 1992 13311 13367 24655 24655 0.0927223127121124 NLRKWLLWWGS 11 Unmodified _NLRKWLLWWGS_ 0 0 0 REV__nc|ENSG00000032444|Q8IY17-5|PNPLA6 REV__nc|ENSG00000032444|Q8IY17-5|PNPLA6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 486.9216003417969 3 486.93834 1457.79319 NaN NaN NaN NaN NaN NaN NaN 74.163 1 74.163 73.663 74.663 0 0 0 0 1.0073 1 36201 36201 1.2148 0 1 + 21167 10293 13312 13368 24656 24656 0.08260424750756101 NLRLVLWRFL 10 Unmodified _NLRLVLWRFL_ 0 0 0 REV__nc|ENSG00000105357|Q7Z406-5|MYH14 REV__nc|ENSG00000105357|Q7Z406-5|MYH14 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 665.4232177734375 2 665.411332 1328.80811 3.2707 0.0021764 1.1058 0.00073582 4.3765 0.0029122 665.9120444870381 92.926 0.029785 92.926 92.902 92.932 0 5 3 2 0 0 0 0.12676 1 49478 49478 1.6526 0.17072 1 5396500 + 21168 11027 13313 13369 24657 24657 0.15685916618713236 NLRMHKKKVTH 11 Unmodified _NLRMHKKKVTH_ 0 0 0 nc|ENSG00000134574|Q92466-4|DDB2;ENSG00000134574|ENST00000256996|DDB2 nc|ENSG00000134574|Q92466-4|DDB2 nc|ENSG00000134574|Q92466-4|DDB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 696.1735229492188 2 696.406255 1390.79796 NaN NaN NaN NaN NaN NaN NaN 107.14 1 107.45 106.95 107.95 0.31421 0 0 0 1.0072 1 49430 49430 1.3295 0.13619 1 21169 2817 13314 13370 24658 24658 0.11818985621835054 NLRMWRYSKKK 11 Unmodified _NLRMWRYSKKK_ 0 0 0 REV__nc|ENSG00000134571|Q14896-2|MYBPC3 REV__nc|ENSG00000134571|Q14896-2|MYBPC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.18072509765625 3 503.953884 1508.83982 NaN NaN NaN NaN NaN NaN NaN 63.85 1 64.566 64.066 65.066 0.71521 0 0 0 1.0079 1 29964 29964 0.45452 0 1 + 21170 11969 13315 13371 24659 24659 0.10575541310345216 NLRPLIQILRR 11 Unmodified _NLRPLIQILRR_ 0 0 0 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 696.4534912109375 2 696.45152 1390.88849 NaN NaN NaN NaN NaN NaN NaN 61.486 1 62.226 61.726 62.726 0.7396 0 0 0 1.008 1 28519 28519 0.35063 0.043601 1 21171 9530 13316 13372 24660 24660 0.20867777941771237 NLRPRGLLFLV 11 Unmodified _NLRPRGLLFLV_ 0 0 0 REV__nc|ENSG00000115459|Q96FG2-6|ELMOD3 REV__nc|ENSG00000115459|Q96FG2-6|ELMOD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 649.4431762695312 2 649.408789 1296.80303 NaN NaN NaN NaN NaN NaN NaN 64.363 1 64.363 63.863 64.863 0 0 0 0 1.0061 1 30475 30475 2.7352 0 1 + 21172 17902 13317 13373 24661 24661 0.16649612756123133 NLRRKKAA 8 Unmodified _NLRRKKAA_ 0 0 0 ENSG00000148296|ENST00000372022|SURF6;ENST00000468290.1_1_9:136198707-136199617:-|nuORF ENSG00000148296|ENST00000372022|SURF6 ENSG00000148296|ENST00000372022|SURF6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 319.5410461425781 3 319.54192 955.603932 NaN NaN NaN NaN NaN NaN NaN 35.737 1 36.528 36.028 37.028 0.79131 0 0 0 0.99035 1 16197 16197 0.45834 0 1 21173 3596 13318 13374 24662 24662 0.12435397248077606 NLRRRQDRRER 11 Unmodified _NLRRRQDRRER_ 0 0 0 ENSG00000130309|ENST00000252599|COLGALT1 ENSG00000130309|ENST00000252599|COLGALT1 ENSG00000130309|ENST00000252599|COLGALT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.94873046875 3 518.964722 1553.87234 NaN NaN NaN NaN NaN NaN NaN 61.663 1 61.663 61.163 62.163 0 0 0 0 1.0079 1 28788 28788 0.45452 0.35968 1 21174 2586 13319 13375 24663 24663 0.11755464757584377 NLRRRQWRKTR 11 Unmodified _NLRRRQWRKTR_ 0 0 0 nc|ENSG00000175513|Q3SY00-2|TSGA10IP;ENSG00000175513|ENST00000532620|TSGA10IP nc|ENSG00000175513|Q3SY00-2|TSGA10IP nc|ENSG00000175513|Q3SY00-2|TSGA10IP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.0062255859375 3 523.981824 1568.92364 NaN NaN NaN NaN NaN NaN NaN 73.895 1 73.895 73.395 74.395 0 0 0 0 1.0079 1 36056 36056 0.45452 0 1 21175 5034 13320 13376 24664 24664 0.16193833522288514 NLRRVVQKVTS 11 Unmodified _NLRRVVQKVTS_ 0 0 0 REV__ENST00000540647.5_1_12:132402872-132405903:+|nuORF REV__ENST00000540647.5_1_12:132402872-132405903:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 433.9340515136719 3 433.933366 1298.77827 NaN NaN NaN NaN NaN NaN NaN 104.62 1 105.22 104.72 105.72 0.59885 0 0 0 1.0079 1 48329 48329 0.40827 0.24894 1 + 21176 13728 13321 13377 24665 24665 0.14082932882752175 NLRTRFYYESM 11 Unmodified _NLRTRFYYESM_ 0 0 0 REV__ENST00000485161.5_1_3:120424933-120449568:-|nuORF REV__ENST00000485161.5_1_3:120424933-120449568:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.00244140625 3 493.906488 1478.69763 NaN NaN NaN NaN NaN NaN NaN 61.786 1 61.786 61.286 62.286 0 0 0 0 1.0061 1 28855 28855 1.1098 0.65524 1 + 21177 16740 13322 13378 24666 24666 -0.0225671622245045 NLRWKAFQEVD 11 Unmodified _NLRWKAFQEVD_ 0 0 0 ENST00000592262.1_1_19:33604586-33621063:+|nuORF ENST00000592262.1_1_19:33604586-33621063:+|nuORF ENST00000592262.1_1_19:33604586-33621063:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 703.3678588867188 2 703.364776 1404.715 NaN NaN NaN NaN NaN NaN NaN 67.629 1 67.629 67.129 68.129 0 0 0 0 1.0059 1 32480 32480 2.9952 0.26005 1 21178 9244 13323 13379 24667 24667 0.02882947374860123 NLSLRRNQL 9 Unmodified _NLSLRRNQL_ 0 0 0 chr4:15628030-15630666|117|67.0|0.75|6.49|-|0|None,FBXL5|1 chr4:15628030-15630666|117|67.0|0.75|6.49|-|0|None,FBXL5|1 chr4:15628030-15630666|117|67.0|0.75|6.49|-|0|None,FBXL5|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.59912109375 2 557.327996 1112.64144 NaN NaN NaN NaN NaN NaN NaN 92.353 1 92.435 91.935 92.935 0.082848 0 0 0 0.86044 1 48100 48100 7.2892 0.56607 1 21179 173 13324 13380 24668 24668 0.08962443723044089 NLSSRRRYGKF 11 Unmodified _NLSSRRRYGKF_ 0 0 0 REV__ENSG00000184661|ENST00000330560|CDCA2 REV__ENSG00000184661|ENST00000330560|CDCA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 692.3865356445312 2 692.383834 1382.75312 NaN NaN NaN NaN NaN NaN NaN 61.475 1 61.475 60.975 61.975 0 0 0 0 1.0041 1 28676 28676 5.2969 2.0156 1 + 21180 13985 13325 13381 24669 24669 0.07704878080153321 NLSWKHRQWWL 11 Unmodified _NLSWKHRQWWL_ 0 0 0 chr14:33931215-33949615|148|104.66|0.22|8.9|-|1|EGLN3,None|1 chr14:33931215-33949615|148|104.66|0.22|8.9|-|1|EGLN3,None|1 chr14:33931215-33949615|148|104.66|0.22|8.9|-|1|EGLN3,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.62451171875 3 518.608993 1552.80515 NaN NaN NaN NaN NaN NaN NaN 63.843 1 63.843 63.343 64.343 0 0 0 0 1.008 1 30109 30109 0.094841 0.011491 1 21181 151 13326 13382 24670 24670 0.05086041493950688 NLTKKVVL 8 Unmodified _NLTKKVVL_ 0 0 0 REV__ENSG00000137501|ENST00000359152|SYTL2 REV__ENSG00000137501|ENST00000359152|SYTL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.806396484375 2 457.805303 913.596052 NaN NaN NaN NaN NaN NaN NaN 12.367 1 13.005 12.505 13.505 0.63746 0 0 0 0.99035 1 5531 5531 4.756 0 1 + 21182 12115 13327 13383 24671 24671 0.1357982520794394 NLTLKGYC 8 Unmodified _NLTLKGYC_ 0 0 0 REV__ENST00000375735.6_1_11:103151140-103153779:+|nuORF REV__ENST00000375735.6_1_11:103151140-103153779:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.3318786621094 2 456.236396 910.458238 NaN NaN NaN NaN NaN NaN NaN 75.782 1 76.445 75.945 76.945 0.6635 0 0 0 0.99035 1 36704 36704 4.3292 2.0265 1 + 21183 15810 13328 13384 24672 24672 -0.0005724638298261198 NLTLKRKRKKK 11 Unmodified _NLTLKRKRKKK_ 0 0 0 REV__ENST00000437916.2_1_2:45148822-45149500:-|nuORF REV__ENST00000437916.2_1_2:45148822-45149500:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 706.98291015625 2 706.980444 1411.94634 NaN NaN NaN NaN NaN NaN NaN 64.712 1 64.712 64.212 65.212 0 0 0 0 1.0063 1 30716 30716 2.4985 1.3051 1 + 21184 16319 13329 13385 24673 24673 0.256840398671784 NLTPDIYLIDW 11 Unmodified _NLTPDIYLIDW_ 0 0 0 nc|ENSG00000132405|Q9P2M4-2|TBC1D14;ENSG00000132405|ENST00000409757|TBC1D14 nc|ENSG00000132405|Q9P2M4-2|TBC1D14 nc|ENSG00000132405|Q9P2M4-2|TBC1D14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 681.85302734375 2 681.850635 1361.68672 NaN NaN NaN NaN NaN NaN NaN 63.993 1 64.708 64.208 65.208 0.71521 0 0 0 1.0041 1 30072 30072 5.2969 1.7004 1 21185 2698 13330 13386 24674 24674 0.020342046748965004 NLTYKNFIL 9 Unmodified _NLTYKNFIL_ 0 0 0 REV__ENSG00000170777|ENST00000314556|TPD52L3 REV__ENSG00000170777|ENST00000314556|TPD52L3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.8950805664062 2 563.318774 1124.623 NaN NaN NaN NaN NaN NaN NaN 77.839 1 78.502 78.002 79.002 0.66303 0 0 0 0.33854 1 35871 35871 25.399 2.2509 1 + 21186 13453 13331 13387 24675 24675 0.06566889028476908 NLVGKKCVL 9 Unmodified _NLVGKKCVL_ 0 0 0 REV__ENSG00000181333|ENST00000315765|HEPHL1 REV__ENSG00000181333|ENST00000315765|HEPHL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.4482116699219 2 487.296788 972.579022 NaN NaN NaN NaN NaN NaN NaN 63.567 1 64.29 63.79 64.79 0.72236 0 0 0 0.75166 1 29790 29790 10.824 2.2306 1 + 21187 13851 13332 13388 24676 24676 0.09163581330483339 NLVKEREKRK 10 Unmodified _NLVKEREKRK_ 0 0 0 ENSG00000112367|ENST00000230124|FIG4 ENSG00000112367|ENST00000230124|FIG4 ENSG00000112367|ENST00000230124|FIG4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 650.3984375 2 650.39641 1298.77827 4.1142 0.0026759 -0.51135 -0.00033258 3.6028 0.0023433 650.3961305130782 91.482 1.3216 92.144 91.534 92.856 0.66198 132 63 3 0 0 0 0.94134 1 42027 42027 1.4819 1.1749 1 2244600 21188 1806 13333 13389 24677 24677 0.14082932882729438 NLVKKKGNVCR 11 Unmodified _NLVKKKGNVCR_ 0 0 0 REV__nc|ENSG00000170854|Q8IUF8-2|RIOX2 REV__nc|ENSG00000170854|Q8IUF8-2|RIOX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 629.873779296875 2 629.874256 1257.73396 NaN NaN NaN NaN NaN NaN NaN 62.233 1 62.964 62.464 63.464 0.73077 0 0 0 0.83565 1 28983 28983 20.415 11.031 1 + 21189 13457 13334 13390 24678 24678 0.11540205464916653 NLVKMLWQ 8 Unmodified _NLVKMLWQ_ 0 0 0 REV__nc|ENSG00000091879|O15123-2|ANGPT2 REV__nc|ENSG00000091879|O15123-2|ANGPT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.28759765625 2 516.288963 1030.56337 NaN NaN NaN NaN NaN NaN NaN 71.922 1 72.18 71.68 72.68 0.25786 0 0 0 0.95658 1 33002 33002 8.5933 1.304 1 + 21190 17875 13335 13391 24679 24679 0.04931294813445675 NLVLFILVFWI 11 Unmodified _NLVLFILVFWI_ 0 0 0 nc|ENSG00000131355|Q9BY15-2|ADGRE3;ENSG00000131355|ENST00000253673|ADGRE3 nc|ENSG00000131355|Q9BY15-2|ADGRE3 nc|ENSG00000131355|Q9BY15-2|ADGRE3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 688.92041015625 2 688.920667 1375.82678 NaN NaN NaN NaN NaN NaN NaN 63.856 1 63.856 63.356 64.356 0 0 0 0 1.0059 1 30120 30120 2.9952 1.5133 1 21191 2654 13336 13392 24680 24680 0.1539003346993013 NLVLLRVMAWR 11 Unmodified _NLVLLRVMAWR_ 0 0 0 ENSG00000158428|ENST00000289388|CATIP ENSG00000158428|ENST00000289388|CATIP ENSG00000158428|ENST00000289388|CATIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.9109497070312 2 685.908099 1369.80165 4.3936 0.0030136 0.85825 0.00058868 5.2519 0.0036023 685.908545510543 93.592 1.1827 93.847 93.255 94.437 0.25497 94 57 2 0 0 0 0.91391 1 43139 43139 0.30703 0 1 715590 21192 3987 13337 13393 24681 24681 0.13153655395717578 NLVLRNQY 8 Unmodified _NLVLRNQY_ 0 0 0 ENSG00000183434|ENST00000310125|TFDP3 ENSG00000183434|ENST00000310125|TFDP3 ENSG00000183434|ENST00000310125|TFDP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.2888488769531 2 510.285266 1018.55598 NaN NaN NaN NaN NaN NaN NaN 105.91 1 106.51 106.01 107.01 0.59969 0 0 0 0.99035 1 48909 48909 5.2307 0.47466 1 21193 5381 13338 13394 24682 24682 0.04744278537373248 NLVMCCFS 8 Unmodified _NLVMCCFS_ 0 0 0 ENST00000480590.1_1_1:227921003-227922761:-|nuORF ENST00000480590.1_1_1:227921003-227922761:-|nuORF ENST00000480590.1_1_1:227921003-227922761:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 458.6902160644531 2 458.689909 915.365266 NaN NaN NaN NaN NaN NaN NaN 70.18 1 70.18 69.68 70.68 0 0 0 0 0.99035 1 34015 34015 2.5775 0.27475 1 21194 8280 13339 13395 24683 24683 -0.09580210432216063 NLVNRKTTS 9 Unmodified _NLVNRKTTS_ 0 0 0 REV__ENST00000502917.1_1_4:4269618-4270421:-|nuORF REV__ENST00000502917.1_1_4:4269618-4270421:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.3155517578125 2 516.793455 1031.57236 4.2111 0.0021763 -0.49321 -0.00025489 3.7179 0.0019214 516.7931631553143 96.131 0.37599 96.409 96.171 96.547 0.27778 43 18 3 0 0 0 0.11288 1 44076 44076 0.52476 0 1 2316200 + 21195 16898 13340 13396 24684 24684 0.057833597034687045 NLVNRKTTS 9 Unmodified _NLVNRKTTS_ 0 0 0 REV__ENST00000502917.1_1_4:4269618-4270421:-|nuORF REV__ENST00000502917.1_1_4:4269618-4270421:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 516.793455 1031.57236 3.6268 0.0018743 0.23371 0.00012078 3.8605 0.0019951 516.7934409657776 95.584 0.39906 96.192 95.997 96.396 0.60769 -0.10833 0.00042118 NaN 0.52476 66 21 4 NaN NaN NaN NaN 0 NaN NaN 0 3079500 + 21196 16898 13340 13396 0.057833597034687045 NLVQIRIILPC 11 Unmodified _NLVQIRIILPC_ 0 0 0 REV__nc|ENSG00000186191|P59827-2|BPIFB4 REV__nc|ENSG00000186191|P59827-2|BPIFB4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.0277709960938 2 641.389208 1280.76386 NaN NaN NaN NaN NaN NaN NaN 66.387 1 66.387 65.887 66.887 0 0 0 0 0.98464 1 31725 31725 8.1555 4.559 1 + 21197 14049 13341 13397 24685 24685 0.13471144410254965 NLVRIFRKK 9 Unmodified _NLVRIFRKK_ 0 0 0 TMEM71|p.S114Vfs*16|1|0.25|ENSG00000165071|chr8:132747032-132747032|T/-|frameshift_variant;nc|ENSG00000165071|Q6P5X7-3|TMEM71;ENSG00000165071|ENST00000677595|TMEM71 TMEM71|p.S114Vfs*16|1|0.25|ENSG00000165071|chr8:132747032-132747032|T/-|frameshift_variant TMEM71|p.S114Vfs*16|1|0.25|ENSG00000165071|chr8:132747032-132747032|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.5104370117188 2 587.382574 1172.7506 NaN NaN NaN NaN NaN NaN NaN 65.161 1 65.161 64.661 65.661 0 0 0 0 0.89683 1 30991 30991 4.3292 2.485 1 21198 4367 13342 13398 24686 24686 0.1711307441316876 NLVRLLLYFGV 11 Unmodified _NLVRLLLYFGV_ 0 0 0 REV__ENSG00000152254|ENST00000375363|G6PC2 REV__ENSG00000152254|ENST00000375363|G6PC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 653.8976440429688 2 653.897723 1305.78089 NaN NaN NaN NaN NaN NaN NaN 64.55 1 64.55 64.05 65.05 0 0 0 0 1.0059 1 30605 30605 2.9952 0 1 + 21199 12644 13343 13399 24687 24687 0.1402338828770553 NLVRLQVPQI 10 Unmodified _NLVRLQVPQI_ 0 0 0 REV__ENSG00000115904|ENST00000402219|SOS1 REV__ENSG00000115904|ENST00000402219|SOS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.4595947265625 2 590.364047 1178.71354 NaN NaN NaN NaN NaN NaN NaN 69.322 1 69.322 68.822 69.822 0 0 0 0 0.9754 1 33474 33474 9.3831 3.1773 1 + 21200 11386 13344 13400 24688 24688 0.13133358076765944 NLVYALIIII 10 Unmodified _NLVYALIIII_ 0 0 0 ENST00000559153.5_1_15:40824061-40824274:-|nuORF ENST00000559153.5_1_15:40824061-40824274:-|nuORF ENST00000559153.5_1_15:40824061-40824274:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 572.8720092773438 2 572.870643 1143.72673 NaN NaN NaN NaN NaN NaN NaN 43.922 1 43.922 43.422 44.422 0 0 0 0 1.0001 1 20037 20037 1.6526 0.17072 1 21201 8962 13345 13401 24689 24689 0.16061796136136763 NLWKQRDAFYD 11 Unmodified _NLWKQRDAFYD_ 0 0 0 REV__ENST00000445063.5_1_2:20113365-20153734:-|nuORF REV__ENST00000445063.5_1_2:20113365-20153734:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 728.3515014648438 2 728.354408 1454.69426 NaN NaN NaN NaN NaN NaN NaN 70.569 1 70.569 70.069 71.069 0 0 0 0 1.0059 1 34265 34265 2.9952 1.3426 1 + 21202 11486 13346 13402 24690 24690 -0.014896430048111142 NLWPLNKFLPG 11 Unmodified _NLWPLNKFLPG_ 0 0 0 ENST00000525247.1_1_11:86130859-86133754:+|nuORF;ENST00000531587.5_1_11:86126125-86133754:+|nuORF;nc|ENSG00000149201|Q6ZN84-3|CCDC81;nc|ENSG00000149201|Q6ZN84-2|CCDC81;ENSG00000149201|ENST00000445632|CCDC81 ENST00000525247.1_1_11:86130859-86133754:+|nuORF ENST00000525247.1_1_11:86130859-86133754:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 649.5496215820312 2 649.866423 1297.71829 NaN NaN NaN NaN NaN NaN NaN 76.588 1 76.588 76.088 77.088 0 0 0 0 0.97845 1 37537 37537 8.7454 2.0222 1 21203 3631 13347 13403 24691 24691 0.08134242219512089 NLWVRYLWFES 11 Unmodified _NLWVRYLWFES_ 0 0 0 REV__ERVL-E-int_dup1261|chr2:154469035-154470401:+|1.5917130338343672|0.0973889572275544|4.03|523.0|16|1|sense REV__ERVL-E-int_dup1261|chr2:154469035-154470401:+|1.5917130338343672|0.0973889572275544|4.03|523.0|16|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.5509033203125 3 504.925988 1511.75613 NaN NaN NaN NaN NaN NaN NaN 61.284 1 62.023 61.523 62.523 0.7396 0 0 0 1.0072 1 28394 28394 0.45452 0 1 + 21204 17685 13348 13404 24692 24692 0.02072708414311819 NLWVVRFER 9 Unmodified _NLWVVRFER_ 0 0 0 REV__nc|ENSG00000107736|Q9H251-6|CDH23 REV__nc|ENSG00000107736|Q9H251-6|CDH23 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 609.8416748046875 2 609.840739 1217.66693 NaN NaN NaN NaN NaN NaN NaN 76.741 1 77.405 76.905 77.905 0.66387 0 0 0 0.89683 1 35360 35360 4.3292 0.73274 1 + 21205 9997 13349 13405 24693 24693 0.06679918245481531 NLYCCAMNR 9 Unmodified _NLYCCAMNR_ 0 0 0 REV__nc|ENSG00000120498|Q8IYF3-2|TEX11 REV__nc|ENSG00000120498|Q8IYF3-2|TEX11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.0106201171875 2 544.227722 1086.44089 NaN NaN NaN NaN NaN NaN NaN 54.233 1 54.233 53.733 54.733 0 0 0 0 0.89683 1 24874 24874 4.3292 1.7518 1 + 21206 11541 13350 13406 24694 24694 -0.09887233251970429 NLYEIQIWKNI 11 Unmodified _NLYEIQIWKNI_ 0 0 0 REV__ENSG00000172578|ENST00000341319|KLHL6 REV__ENSG00000172578|ENST00000341319|KLHL6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 717.3926391601562 2 717.393002 1432.77145 NaN NaN NaN NaN NaN NaN NaN 96.441 1 96.441 95.941 96.941 0 0 0 0 1.0059 1 52195 52195 2.9952 0 1 + 21207 13556 13351 13407 24695 24695 0.07237575211524927 NLYLHPKLWPQ 11 Unmodified _NLYLHPKLWPQ_ 0 0 0 nc|ENSG00000236256|Q14236|DIAPH2-AS1 nc|ENSG00000236256|Q14236|DIAPH2-AS1 nc|ENSG00000236256|Q14236|DIAPH2-AS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 704.8897094726562 2 704.890429 1407.76631 NaN NaN NaN NaN NaN NaN NaN 77.13 1 77.13 76.63 77.63 0 0 0 0 1.0059 1 37812 37812 2.9952 0 1 21208 9840 13352 13408 24696 24696 0.07873316139534836 NLYLRRLS 8 Unmodified _NLYLRRLS_ 0 0 0 REV__nc|ENSG00000185985|Q9H156-2|SLITRK2 REV__nc|ENSG00000185985|Q9H156-2|SLITRK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.5426025390625 3 345.541697 1033.60326 2.3929 0.00082684 0.023611 8.1586E-06 2.4165 0.000835 345.5415698408314 27.735 0.24924 27.997 27.844 28.093 0.26245 28 15 3 0 0 0 0.47805 2 12635 12580;12635 22.736 8.8302 1 491560 + 21209 14037 13353 13409 24697;24698 24698 0.08780557808381673 NLYLRRLS 8 Unmodified _NLYLRRLS_ 0 0 0 REV__nc|ENSG00000185985|Q9H156-2|SLITRK2 REV__nc|ENSG00000185985|Q9H156-2|SLITRK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.87689208984375 3 345.541697 1033.60326 2.2969 0.00079366 -0.3908 -0.00013504 1.9061 0.00065863 345.54147302060295 27.252 0.3088 27.874 27.763 28.071 0.62179 28 19 2 0 0 0 0.47805 2 12519 12503;12519 22.736 3.4793 1 342250 + 21210 14037 13353 13409 24699;24700 24700 0.08780557808381673 NLYLRRLS 8 Unmodified _NLYLRRLS_ 0 0 0 REV__nc|ENSG00000185985|Q9H156-2|SLITRK2 REV__nc|ENSG00000185985|Q9H156-2|SLITRK2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 345.541697 1033.60326 2.3929 0.00082684 0.023611 8.1586E-06 2.4165 0.000835 345.5415698408314 27.735 0.24924 27.997 27.844 28.093 0.26245 0.061476 0.00015071 NaN 22.736 28 15 3 NaN NaN NaN NaN 0 NaN NaN 0 491560 + 21211 14037 13353 13409 0.08780557808381673 NLYLRRLS 8 Unmodified _NLYLRRLS_ 0 0 0 REV__nc|ENSG00000185985|Q9H156-2|SLITRK2 REV__nc|ENSG00000185985|Q9H156-2|SLITRK2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 345.541697 1033.60326 2.2969 0.00079366 -0.3908 -0.00013504 1.9061 0.00065863 345.54147302060295 27.252 0.3088 27.874 27.763 28.071 0.62179 -0.061476 -0.00027888 NaN 22.736 28 19 2 NaN NaN NaN NaN 0 NaN NaN 0 342250 + 21212 14037 13353 13409 0.08780557808381673 NLYRREDFQDW 11 Unmodified _NLYRREDFQDW_ 0 0 0 REV__ENST00000464038.5_1_2:31155024-31369832:-|nuORF REV__ENST00000464038.5_1_2:31155024-31369832:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 771.3621215820312 2 771.360222 1540.70589 NaN NaN NaN NaN NaN NaN NaN 70.082 1 70.082 69.582 70.582 0 0 0 0 1.0072 1 33944 33944 1.3295 0.9789 1 + 21213 10039 13354 13410 24701 24701 -0.04283445981491241 NMATRPYSI 9 Unmodified _NMATRPYSI_ 0 0 0 ENST00000490639.5_1_3:148895590-148939579:-|nuORF;ENSG00000047457|ENST00000264613|CP;CON__ENSEMBL:ENSBTAP00000031900 ENST00000490639.5_1_3:148895590-148939579:-|nuORF ENST00000490639.5_1_3:148895590-148939579:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.764892578125 2 526.763309 1051.51206 3.2962 0.0017363 -0.77259 -0.00040697 2.5237 0.0013294 526.7626647156998 36.421 0.21749 36.678 36.502 36.719 0.25768 11 8 2 0 0 0 0.086415 1 16590 16590 36.127 5.4905 1 190570 21214 558 13355 13411 24702 24702 -0.011630739512838772 NMCHLRPT 8 Unmodified _NMCHLRPT_ 0 0 0 GBA2|p.W617*|1|0.2|ENSG00000070610|chr9:35738848-35738848|C/-|frameshift_variant;nc|ENSG00000070610|Q9HCG7-3|GBA2;nc|ENSG00000070610|Q9HCG7-2|GBA2;ENSG00000070610|ENST00000378103|GBA2 GBA2|p.W617*|1|0.2|ENSG00000070610|chr9:35738848-35738848|C/-|frameshift_variant GBA2|p.W617*|1|0.2|ENSG00000070610|chr9:35738848-35738848|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.8997497558594 2 486.231122 970.44769 NaN NaN NaN NaN NaN NaN NaN 55.27 1 56.058 55.558 56.558 0.78711 0 0 0 0.99035 1 25230 25230 2.0598 0.57785 1 21215 768 13356 13412 24703 24703 -0.038715523090559145 NMESMCCC 8 Unmodified _NMESMCCC_ 0 0 0 REV__nc|ENSG00000163625|Q8IZQ1-2|WDFY3 REV__nc|ENSG00000163625|Q8IZQ1-2|WDFY3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 920.3137817382812 1 920.243913 919.236636 4.6749 0.004302 -4.1873 -0.0038533 0.48764 0.00044875 920.243367110846 97.52 0.076347 97.81 97.772 97.848 0.28923 10 5 3 0 0 0 0.14337 1 44817 44817 0 0 1 5951100 + 21216 13011 13357 13413 24704 24704 -0.2262125672913271 NMLIKVHK 8 Unmodified _NMLIKVHK_ 0 0 0 REV__ENST00000407925.5_1_2:33534602-33540264:+|nuORF REV__ENST00000407925.5_1_2:33534602-33540264:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7969055175781 2 491.796955 981.579357 3.1242 0.0015365 -1.4142 -0.0006955 1.71 0.00084099 491.79609762885855 56.71 0.49426 56.975 56.841 57.336 0.26456 47 22 3 0 0 0 0.70799 1 25944 25944 5.2307 0.47466 1 3447300 + 21217 16083 13358 13414 24705 24705 0.08783001050346684 NMQFWHVL 8 Unmodified _NMQFWHVL_ 0 0 0 ENSG00000171714|ENST00000324559|ANO5;ENST00000532043.1_1_11:22294373-22299379:+|nuORF ENSG00000171714|ENST00000324559|ANO5 ENSG00000171714|ENST00000324559|ANO5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.7647705078125 2 537.763112 1073.51167 3.5403 0.0019039 1.4469 0.00077807 4.9872 0.0026819 537.763588750092 45.567 0.34904 46.218 46.119 46.468 0.65104 22 13 2 0 0 0 0.59268 1 20888 20888 14.582 1.0738 1 437790 21218 4824 13359 13415 24706 24706 -0.022144488804769935 NMRKKRRRIKL 11 Unmodified _NMRKKRRRIKL_ 0 0 0 ENSG00000077514|ENST00000263681|POLD3;ENST00000530163.1_1_11:74340223-74351808:+|nuORF;nc|ENSG00000077514|Q15054-3|POLD3;nc|ENSG00000077514|Q15054-2|POLD3 ENSG00000077514|ENST00000263681|POLD3 ENSG00000077514|ENST00000263681|POLD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 749.9833374023438 2 749.982995 1497.95144 NaN NaN NaN NaN NaN NaN NaN 87.167 1 87.207 86.707 87.707 0.039955 0 0 0 1.0082 1 44057 44057 0 0 1 21219 866 13360 13416 24707 24707 0.2223802045816683 NMTIRLQSL 9 Unmodified _NMTIRLQSL_ 0 0 0 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-4|NAV2;ENSG00000166833|ENST00000349880|NAV2;nc|ENSG00000166833|Q8IVL1-5|NAV2;nc|ENSG00000166833|Q8IVL1-6|NAV2;nc|ENSG00000166833|Q8IVL1-8|NAV2;nc|ENSG00000166833|Q8IVL1-9|NAV2;nc|ENSG00000166833|Q8IVL1-10|NAV2;nc|ENSG00000166833|Q8IVL1-13|NAV2;nc|ENSG00000166833|Q8IVL1-12|NAV2;nc|ENSG00000166833|Q8IVL1-11|NAV2;nc|ENSG00000166833|Q8IVL1-2|NAV2;nc|ENSG00000166833|Q8IVL1|NAV2 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-8|NAV2 nc|ENSG00000166833|Q8IVL1-8|NAV2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.3014526367188 2 538.300059 1074.58556 3.3436 0.0017998 -1.0782 -0.00058039 2.2654 0.0012195 538.2993332128506 57.707 0.23858 58.375 58.189 58.428 0.66829 21 16 2 0 0 0 0.020921 1 26394 26394 82.529 59.793 1 377410 21220 9530;9735 13361 13417 24708 24708 0.05125474491228488 NMWCLFFCPC 10 Unmodified _NMWCLFFCPC_ 0 0 0 chr11:103391535-103399663|312|10.06|0.06|7.28|+|1|TE_info:L1PA4,L1PA4_dup9200,L1,LINE,donor,-,103386500,103391535|None,DYNC2H1|2 chr11:103391535-103399663|312|10.06|0.06|7.28|+|1|TE_info:L1PA4,L1PA4_dup9200,L1,LINE,donor,-,103386500,103391535|None,DYNC2H1|2 chr11:103391535-103399663|312|10.06|0.06|7.28|+|1|TE_info:L1PA4,L1PA4_dup9200,L1,LINE,donor,-,103386500,103391535|None,DYNC2H1|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.834716796875 3 421.832109 1262.4745 NaN NaN NaN NaN NaN NaN NaN 1.7781 1 1.7781 1.2781 2.2781 0 0 0 0 1.0015 1 812 812 0.15932 0.01943 1 21221 134 13362 13418 24709 24709 -0.14623947804375348 NNDEDREYLTV 11 Unmodified _NNDEDREYLTV_ 0 0 0 REV__ENSG00000113140|ENST00000231061|SPARC REV__ENSG00000113140|ENST00000231061|SPARC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 684.309326171875 2 684.30732 1366.60009 4.1641 0.0028495 -0.5962 -0.00040798 3.5679 0.0024415 684.3068566244722 104 0.16994 104.6 104.52 104.69 0.59822 96 38 3 0 0 0 0.91391 1 48106 48106 0.30703 0.30703 1 1625600 + 21222 11290 13363 13419 24710 24710 -0.0685482661763217 NNEGDVHF 8 Unmodified _NNEGDVHF_ 0 0 0 ENSG00000177311|ENST00000321464|ZBTB38 ENSG00000177311|ENST00000321464|ZBTB38 ENSG00000177311|ENST00000321464|ZBTB38 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 311.13580322265625 3 311.134996 930.383159 NaN NaN NaN NaN NaN NaN NaN 63.933 1 64.589 64.089 65.089 0.65672 0 0 0 0.99035 1 29300 29300 0.45834 0 1 21223 5113 13364 13420 24711 24711 -0.08481712589855306 NNETNEMASL 10 Unmodified _NNETNEMASL_ 0 0 0 nc|ENSG00000211807|A0A087WT03|TRAV26-1 nc|ENSG00000211807|A0A087WT03|TRAV26-1 nc|ENSG00000211807|A0A087WT03|TRAV26-1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.8301696777344 3 374.829244 1121.4659 2.565 0.00096143 -0.31283 -0.00011726 2.2521 0.00084417 374.82949268711235 26.922 0.37729 27.544 27.328 27.706 0.62179 76 28 4 0 0 0 0.78028 1 12301 12301 5.4027 0 1 1693200 21224 9824 13365 13421 24712 24712 -0.08997183644032702 NNKKKTKKIK 10 Unmodified _NNKKKTKKIK_ 0 0 0 nc|ENSG00000282100|Q58FF6|HSP90AB4P nc|ENSG00000282100|Q58FF6|HSP90AB4P nc|ENSG00000282100|Q58FF6|HSP90AB4P MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 615.4053955078125 2 615.406247 1228.79794 NaN NaN NaN NaN NaN NaN NaN 67.503 1 68.16 67.66 68.66 0.65777 0 0 0 1.0003 1 30942 30942 1.4819 0 1 21225 9870 13366 13422 24713 24713 0.19269308893490233 NNKRRLRRPYY 11 Unmodified _NNKRRLRRPYY_ 0 0 0 ENST00000474235.1_1_22:39496283-39496472:+|nuORF;nc|ENSG00000100298|Q6NTF7-4|APOBEC3H;nc|ENSG00000100298|Q6NTF7-2|APOBEC3H;ENSG00000100298|ENST00000442487|APOBEC3H;nc|ENSG00000100298|Q6NTF7|APOBEC3H ENST00000474235.1_1_22:39496283-39496472:+|nuORF ENST00000474235.1_1_22:39496283-39496472:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.6262817382812 3 512.627047 1534.85931 NaN NaN NaN NaN NaN NaN NaN 41.862 1 42.671 42.171 43.171 0.80855 0 0 0 1.0079 1 19002 19002 0.50596 0.41111 1 21226 1203 13367 13423 24714 24714 0.11327633645532842 NNKVKVIL 8 Unmodified _NNKVKVIL_ 0 0 0 nc|ENSG00000196235|O00267-2|SUPT5H;ENSG00000196235|ENST00000432763|SUPT5H;ENST00000600818.1_1_19:39966660-39967036:+|nuORF nc|ENSG00000196235|O00267-2|SUPT5H nc|ENSG00000196235|O00267-2|SUPT5H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.3044738769531 2 464.302927 926.591301 2.992 0.0013892 0.40354 0.00018737 3.3956 0.0015766 464.3031758132689 27.877 0.15545 27.877 27.774 27.929 0 17 12 2 0 0 0 0.025999 1 12553 12553 81.864 45.82 1 245960 21227 5728 13368 13424 24715 24715 0.125069410651804 NNKVKVIL 8 Unmodified _NNKVKVIL_ 0 0 0 nc|ENSG00000196235|O00267-2|SUPT5H;ENSG00000196235|ENST00000432763|SUPT5H;ENST00000600818.1_1_19:39966660-39967036:+|nuORF nc|ENSG00000196235|O00267-2|SUPT5H nc|ENSG00000196235|O00267-2|SUPT5H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.3048400878906 2 464.302927 926.591301 2.6327 0.0012224 0.40288 0.00018706 3.0356 0.0014094 464.303181314525 27.437 0.18747 27.699 27.603 27.79 0.26245 39 20 3 0 0 0 0.0090555 3 12500 12445;12449;12500 109.63 55.701 1 1083200 21228 5728 13368 13424 24716;24717;24718 24718 0.125069410651804 NNKVKVIL 8 Unmodified _NNKVKVIL_ 0 0 0 nc|ENSG00000196235|O00267-2|SUPT5H;ENSG00000196235|ENST00000432763|SUPT5H;ENST00000600818.1_1_19:39966660-39967036:+|nuORF nc|ENSG00000196235|O00267-2|SUPT5H nc|ENSG00000196235|O00267-2|SUPT5H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.3042297363281 2 464.302927 926.591301 2.7041 0.0012555 0.38407 0.00017833 3.0881 0.0014338 464.30303429382525 27.016 0.23788 27.638 27.525 27.763 0.62178 38 17 3 0 0 0 0.0081859 2 12409 12362;12409 123.1 63.608 1 1269700 21229 5728 13368 13424 24719;24720 24720 0.125069410651804 NNKYSEGYPGQ 11 Unmodified _NNKYSEGYPGQ_ 0 0 0 ENST00000579558.5_1_17:18243959-18259295:-|nuORF;nc|ENSG00000176974|P34896-3|SHMT1;nc|ENSG00000176974|P34896-2|SHMT1;ENSG00000176974|ENST00000316694|SHMT1;ENST00000419974.2_1_1:44317163-44317268:-|nuORF;ENST00000395682.3_1_17:18256945-18259295:-|nuORF ENST00000579558.5_1_17:18243959-18259295:-|nuORF ENST00000579558.5_1_17:18243959-18259295:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 628.7825927734375 2 628.780741 1255.54693 3.9754 0.0024996 -1.7588 -0.0011059 2.2166 0.0013937 628.7791843500819 19.544 0.14064 20.202 20.136 20.276 0.6583 12 9 2 0 0 0 0.85254 1 8882 8882 4.5289 0 1 154090 21230 5094 13369 13425 24721 24721 -0.07062159609631635 NNLVTPML 8 Unmodified _NNLVTPML_ 0 0 0 nc|ENSG00000186268|Q8NGN7|OR10D4P nc|ENSG00000186268|Q8NGN7|OR10D4P nc|ENSG00000186268|Q8NGN7|OR10D4P MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.2456359863281 2 451.244221 900.473888 NaN NaN NaN NaN NaN NaN NaN 34.681 1 34.681 34.181 35.181 0 0 0 0 0.89651 1 15723 15723 12.532 1.7076 1 21231 9787 13370 13426 24722 24722 0.019670401340590615 NNSFSAWKL 9 Unmodified _NNSFSAWKL_ 0 0 0 REV__nc|ENSG00000131951|Q6ZRR7-2|LRRC9 REV__nc|ENSG00000131951|Q6ZRR7-2|LRRC9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.7714233398438 2 533.769448 1065.52434 3.116 0.0016632 0.74428 0.00039727 3.8603 0.0020605 533.7696094318397 46.212 0.38303 46.478 46.345 46.728 0.26561 37 16 3 0 0 0 0.30351 1 21109 21109 22.736 2.2827 1 880080 + 21232 11870 13371 13427 24723 24723 -0.005797142165647529 NNSFTHEALT 10 Unmodified _NNSFTHEALT_ 0 0 0 ENSG00000182934|ENST00000332118|SRPRA;ENST00000528744.5_1_11:126137442-126138699:-|nuORF ENSG00000182934|ENST00000332118|SRPRA ENSG00000182934|ENST00000332118|SRPRA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.2672729492188 2 567.264727 1132.5149 3.4882 0.0019787 0.42919 0.00024347 3.9174 0.0022222 567.2647278482677 26.381 0.30702 27.006 26.888 27.195 0.62505 21 15 2 0 0 0 0.81759 1 12133 12133 7.609 0.31972 1 207790 21233 5356 13372 13428 24724 24724 -0.04605527292778788 NNSFTHEALT 10 Unmodified _NNSFTHEALT_ 0 0 0 ENSG00000182934|ENST00000332118|SRPRA;ENST00000528744.5_1_11:126137442-126138699:-|nuORF ENSG00000182934|ENST00000332118|SRPRA ENSG00000182934|ENST00000332118|SRPRA MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 567.264727 1132.5149 3.551 0.0020144 2.0592 0.0011681 5.6103 0.0031825 567.7683144033726 27.021 0.20944 27.021 26.916 27.126 0 -0.011387 0.0019038 NaN 7.609 13 10 2 NaN NaN NaN NaN 0 NaN NaN 0 358780 21234 5356 13372 13428 -0.04605527292778788 NNSFTHEALT 10 Unmodified _NNSFTHEALT_ 0 0 0 ENSG00000182934|ENST00000332118|SRPRA;ENST00000528744.5_1_11:126137442-126138699:-|nuORF ENSG00000182934|ENST00000332118|SRPRA ENSG00000182934|ENST00000332118|SRPRA MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 567.264727 1132.5149 3.5321 0.0020036 0.07614 4.3192E-05 3.6082 0.0020468 567.2644287440041 26.806 0.31791 27.071 26.898 27.216 0.26489 0.038022 -0.00034606 NaN 7.609 31 20 2 NaN NaN NaN NaN 0 NaN NaN 0 181320 21235 5356 13372 13428 -0.04605527292778788 NNSFTHEALT 10 Unmodified _NNSFTHEALT_ 0 0 0 ENSG00000182934|ENST00000332118|SRPRA;ENST00000528744.5_1_11:126137442-126138699:-|nuORF ENSG00000182934|ENST00000332118|SRPRA ENSG00000182934|ENST00000332118|SRPRA MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 567.264727 1132.5149 3.4882 0.0019787 0.42919 0.00024347 3.9174 0.0022222 567.2647278482677 26.381 0.30702 27.006 26.888 27.195 0.62505 -0.026635 5.4492E-05 NaN 7.609 21 15 2 NaN NaN NaN NaN 0 NaN NaN 0 207790 21236 5356 13372 13428 -0.04605527292778788 NNTEATSSTRG 11 Unmodified _NNTEATSSTRG_ 0 0 0 nc|ENSG00000205592|Q7Z5P9-2|MUC19;ENSG00000205592|ENST00000454784|MUC19 nc|ENSG00000205592|Q7Z5P9-2|MUC19 nc|ENSG00000205592|Q7Z5P9-2|MUC19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.8424987792969 3 379.842541 1136.50579 NaN NaN NaN NaN NaN NaN NaN 4.7169 1 5.0819 4.5819 5.5819 0.36497 0 0 0 1.0082 1 2140 2140 0 0 1 21237 6053 13373 13429 24725 24725 -0.05699920649112755 NNTETECQLF 10 Unmodified _NNTETECQLF_ 0 0 0 REV__ENST00000491834.5_1_3:3192120-3192273:-|nuORF REV__ENST00000491834.5_1_3:3192120-3192273:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 599.7570190429688 2 599.755878 1197.4972 NaN NaN NaN NaN NaN NaN NaN 68.76 1 69.015 68.515 69.515 0.25443 0 0 0 1.0001 1 31499 31499 1.6526 0 1 + 21238 16806 13374 13430 24726 24726 -0.093646106099186 NNVLYVIQ 8 Unmodified _NNVLYVIQ_ 0 0 0 ENST00000505383.1_1_5:53450329-53606402:-|nuORF ENST00000505383.1_1_5:53450329-53606402:-|nuORF ENST00000505383.1_1_5:53450329-53606402:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 481.7670593261719 2 481.768917 961.523281 NaN NaN NaN NaN NaN NaN NaN 48.813 1 48.813 48.313 49.313 0 0 0 0 0.99035 1 22355 22355 2.5775 0 1 21239 8503 13375 13431 24727 24727 0.04098071414523474 NPAQDFSTL 9 Unmodified _NPAQDFSTL_ 0 0 0 ENSG00000125686|ENST00000300651|MED1 ENSG00000125686|ENST00000300651|MED1 ENSG00000125686|ENST00000300651|MED1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.77545166015625 2 496.737814 991.461075 2.8326 0.0014071 0.12863 6.3895E-05 2.9613 0.001471 496.73803800058954 53.854 0.30622 54.65 54.462 54.768 0.79552 18 13 2 0 0 0 0.08872 1 24533 24533 18.146 11.423 1 232760 21240 2414 13376 13432 24728 24728 -0.034996997244547856 NPASKVIAL 9 Unmodified _NPASKVIAL_ 0 0 0 nc|ENSG00000070371|P53675-2|CLTCL1;ENSG00000070371|ENST00000427926|CLTCL1;nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC;CLTC|p.N1492Kfs*34|1|0.12|ENSG00000141367|chr17:59685097-59685097|T/-|frameshift_variant;CLTC|p.V305Cfs*6|1|0.38|ENSG00000141367|chr17:59655965-59655966|-/T|frameshift_variant nc|ENSG00000070371|P53675-2|CLTCL1;nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.78070068359375 2 456.779285 911.544017 2.721 0.0012429 -0.080685 -3.6855E-05 2.6403 0.001206 456.7792461765708 43.299 0.22313 43.569 43.536 43.759 0.27021 26 15 2 0 0 0 0.035495 1 19783 19783 53.404 22.767 1 1752300 21241 3246;763 13377 13433 24729 24729 0.08470661794183343 NPASKVIAL 9 Unmodified _NPASKVIAL_ 0 0 0 nc|ENSG00000070371|P53675-2|CLTCL1;ENSG00000070371|ENST00000427926|CLTCL1;nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC;CLTC|p.N1492Kfs*34|1|0.12|ENSG00000141367|chr17:59685097-59685097|T/-|frameshift_variant;CLTC|p.V305Cfs*6|1|0.38|ENSG00000141367|chr17:59655965-59655966|-/T|frameshift_variant nc|ENSG00000070371|P53675-2|CLTCL1;nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.7811279296875 2 456.779285 911.544017 NaN NaN NaN NaN NaN NaN NaN 42.769 1 43.416 42.916 43.916 0.64693 0 0 0 0.026708 1 19598 19598 61.602 27.499 1 21242 3246;763 13377 13433 24730 24730 0.08470661794183343 NPCSEQDVL 9 Carbamidomethyl (C) _NPC(Carbamidomethyl (C))SEQDVL_ NPC(1)SEQDVL NPC(79)SEQDVL 0 1 0 ENSG00000204217|ENST00000374580|BMPR2 ENSG00000204217|ENST00000374580|BMPR2 ENSG00000204217|ENST00000374580|BMPR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.2340698242188 2 531.232039 1060.44952 3.3502 0.0017797 -0.04505 -2.3932E-05 3.3051 0.0017558 531.2321236199501 36.603 0.36315 37.233 37.014 37.377 0.62999 34 14 3 0 0 0 0.012326 1 16757 16757 78.728 54.707 1 488150 21243 5992 13378 13434 24731 24731 97 -0.07828264810132168 NPDADAKAL 9 Unmodified _NPDADAKAL_ 0 0 0 nc|ENSG00000197043|P08133-2|ANXA6;ENSG00000197043|ENST00000354546|ANXA6 nc|ENSG00000197043|P08133-2|ANXA6 nc|ENSG00000197043|P08133-2|ANXA6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 457.73419189453125 2 457.732532 913.45051 2.8772 0.001317 0.9207 0.00042143 3.7979 0.0017384 457.7327089954627 19.744 0.17327 19.744 19.687 19.861 0 20 12 2 0 0 0 0.053359 1 8812 8812 45.74 9.6957 1 1174400 21244 5791 13379 13435 24732 24732 -0.009676823789163791 NPDEAEKAL 9 Unmodified _NPDEAEKAL_ 0 0 0 ENST00000570051.5_1_16:2312273-2318093:-|nuORF;nc|ENSG00000205937|Q15287-3|RNPS1;nc|ENSG00000205937|Q15287-2|RNPS1;ENSG00000205937|ENST00000320225|RNPS1 ENST00000570051.5_1_16:2312273-2318093:-|nuORF ENST00000570051.5_1_16:2312273-2318093:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.7447814941406 2 493.743096 985.47164 3.3271 0.0016428 0.66891 0.00033027 3.996 0.001973 493.74347693642784 20.781 0.33419 21.434 21.22 21.554 0.65346 69 28 3 0 0 0 0.0027913 2 9443 9396;9443 96.367 46.434 1 852430 21245 6063 13380 13436 24733;24734 24734 -0.021677170700399984 NPDEFYYKM 9 Unmodified _NPDEFYYKM_ 0 0 0 ENSG00000183520|ENST00000373014|UTP11;nc|ENSG00000183520|Q9Y3A2-2|UTP11;ENST00000488453.1_1_1:38483328-38489297:+|nuORF ENSG00000183520|ENST00000373014|UTP11 ENSG00000183520|ENST00000373014|UTP11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 603.7603149414062 2 603.760432 1205.50631 3.6458 0.0022012 -0.81933 -0.00049468 2.8264 0.0017065 603.7603221942738 50.795 0.25864 50.795 50.68 50.938 0 19 12 2 0 0 0 0.023321 1 23246 23246 63.961 37.94 1 654340 21246 5387 13381 13437 24735 24735 -0.08822217253600684 NPDEFYYKM 9 Unmodified _NPDEFYYKM_ 0 0 0 ENSG00000183520|ENST00000373014|UTP11;nc|ENSG00000183520|Q9Y3A2-2|UTP11;ENST00000488453.1_1_1:38483328-38489297:+|nuORF ENSG00000183520|ENST00000373014|UTP11 ENSG00000183520|ENST00000373014|UTP11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 603.7625732421875 2 603.760432 1205.50631 3.5178 0.0021239 -1.0894 -0.00065773 2.4284 0.0014662 603.7599207772478 49.789 0.26448 50.611 50.515 50.78 0.82285 20 12 2 0 0 0 0.0071692 1 22689 22689 87.258 61.237 1 551130 21247 5387 13381 13437 24736 24736 -0.08822217253600684 NPDEFYYKM 9 Unmodified _NPDEFYYKM_ 0 0 0 ENSG00000183520|ENST00000373014|UTP11;nc|ENSG00000183520|Q9Y3A2-2|UTP11;ENST00000488453.1_1_1:38483328-38489297:+|nuORF ENSG00000183520|ENST00000373014|UTP11 ENSG00000183520|ENST00000373014|UTP11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 604.2644653320312 2 603.760432 1205.50631 3.5449 0.0021402 -0.42006 -0.00025362 3.1248 0.0018866 604.2612970235971 50.882 0.36881 51.143 50.964 51.333 0.26146 29 17 2 0 0 0 0.136 3 23297 23236;23297;23306 27.629 18.085 1 410860 21248 5387 13381 13437 24737;24738;24739 24738 -0.08822217253600684 NPDEFYYKM 9 Unmodified _NPDEFYYKM_ 0 0 0 ENSG00000183520|ENST00000373014|UTP11;nc|ENSG00000183520|Q9Y3A2-2|UTP11;ENST00000488453.1_1_1:38483328-38489297:+|nuORF ENSG00000183520|ENST00000373014|UTP11 ENSG00000183520|ENST00000373014|UTP11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 603.7626342773438 2 603.760432 1205.50631 3.7533 0.0022661 -0.7638 -0.00046115 2.9895 0.0018049 604.2611338701361 50.24 0.39523 50.897 50.729 51.124 0.65735 33 16 4 0 0 0 0.020338 2 22959 22959;23018 67.838 41.817 1 506400 21249 5387 13381 13437 24740;24741 24740 -0.08822217253600684 NPDEVHAIL 9 Unmodified _NPDEVHAIL_ 0 0 0 nc|ENSG00000101447|Q9H4H8-2|FAM83D;ENSG00000101447|ENST00000619850|FAM83D nc|ENSG00000101447|Q9H4H8-2|FAM83D nc|ENSG00000101447|Q9H4H8-2|FAM83D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.26373291015625 2 504.261456 1006.50836 3.4275 0.0017284 -0.052326 -2.6386E-05 3.3752 0.001702 504.2612000269508 44.82 0.22166 45.47 45.319 45.541 0.64998 13 7 3 0 0 0 0.052704 1 20553 20553 46.021 17.534 1 532050 21250 1296 13382 13438 24742 24742 0.00536579546530902 NPDEVHAIL 9 Unmodified _NPDEVHAIL_ 0 0 0 nc|ENSG00000101447|Q9H4H8-2|FAM83D;ENSG00000101447|ENST00000619850|FAM83D nc|ENSG00000101447|Q9H4H8-2|FAM83D nc|ENSG00000101447|Q9H4H8-2|FAM83D MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 504.261456 1006.50836 2.9635 0.0014944 0.58539 0.00029519 3.5489 0.0017896 504.2619610107552 45.619 0.34 45.619 45.45 45.79 0 0.12631 0.00063462 NaN 46.021 24 15 3 NaN NaN NaN NaN 0 NaN NaN 0 732610 21251 1296 13382 13438 0.00536579546530902 NPDEVHAIL 9 Unmodified _NPDEVHAIL_ 0 0 0 nc|ENSG00000101447|Q9H4H8-2|FAM83D;ENSG00000101447|ENST00000619850|FAM83D nc|ENSG00000101447|Q9H4H8-2|FAM83D nc|ENSG00000101447|Q9H4H8-2|FAM83D MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 504.261456 1006.50836 2.9985 0.001512 -0.47185 -0.00023794 2.5266 0.0012741 504.2613213215271 44.567 0.2584 45.388 45.246 45.505 0.82075 -0.10419 -0.00043163 NaN 46.021 20 12 2 NaN NaN NaN NaN 0 NaN NaN 0 740710 21252 1296 13382 13438 0.00536579546530902 NPDMRVQIL 9 Unmodified _NPDMRVQIL_ 0 0 0 nc|ENSG00000131473|P53396-2|ACLY;ENSG00000131473|ENST00000352035|ACLY;nc|ENSG00000131473|P53396-3|ACLY;ENST00000588779.1_1_17:40024065-40026676:-|nuORF nc|ENSG00000131473|P53396-2|ACLY nc|ENSG00000131473|P53396-2|ACLY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.293701171875 2 543.292233 1084.56991 3.3388 0.0018139 -0.60946 -0.00033111 2.7293 0.0014828 543.2917804043739 55.798 0.42434 55.798 55.588 56.013 0 65 31 3 0 0 0 0.0076144 2 25696 25634;25696 86.332 51.93 1 4645100 21253 2662 13383 13439 24743;24744 24744 0.031011879741754456 NPDMRVQIL 9 Unmodified _NPDMRVQIL_ 0 0 0 nc|ENSG00000131473|P53396-2|ACLY;ENSG00000131473|ENST00000352035|ACLY;nc|ENSG00000131473|P53396-3|ACLY;ENST00000588779.1_1_17:40024065-40026676:-|nuORF nc|ENSG00000131473|P53396-2|ACLY nc|ENSG00000131473|P53396-2|ACLY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.2938232421875 2 543.292233 1084.56991 2.7527 0.0014955 -0.29976 -0.00016285 2.4529 0.0013327 543.2921873831629 54.826 0.43587 55.622 55.412 55.848 0.79552 66 28 4 0 0 0 0.0013314 4 25002 24960;25002;25053;25101 118.07 73.661 1 4703200 21254 2662 13383 13439 24745;24746;24747;24748 24746 0.031011879741754456 NPDMRVQIL 9 Unmodified _NPDMRVQIL_ 0 0 0 nc|ENSG00000131473|P53396-2|ACLY;ENSG00000131473|ENST00000352035|ACLY;nc|ENSG00000131473|P53396-3|ACLY;ENST00000588779.1_1_17:40024065-40026676:-|nuORF nc|ENSG00000131473|P53396-2|ACLY nc|ENSG00000131473|P53396-2|ACLY MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.303466796875 2 543.292233 1084.56991 NaN NaN NaN NaN NaN NaN NaN 55.567 1 55.832 55.332 56.332 0.26543 0 0 0 0.014646 1 25410 25410 79.596 37.757 1 21255 2662 13383 13439 24749 24749 0.031011879741754456 NPDMRVQIL 9 Unmodified _NPDMRVQIL_ 0 0 0 nc|ENSG00000131473|P53396-2|ACLY;ENSG00000131473|ENST00000352035|ACLY;nc|ENSG00000131473|P53396-3|ACLY;ENST00000588779.1_1_17:40024065-40026676:-|nuORF nc|ENSG00000131473|P53396-2|ACLY nc|ENSG00000131473|P53396-2|ACLY MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.2925415039062 2 543.292233 1084.56991 NaN NaN NaN NaN NaN NaN NaN 55.586 1 55.852 55.352 56.352 0.26543 0 0 0 0.0044088 1 25419 25419 93.166 52.717 1 21256 2662 13383 13439 24750 24750 0.031011879741754456 NPDMRVQIL 9 Unmodified _NPDMRVQIL_ 0 0 0 nc|ENSG00000131473|P53396-2|ACLY;ENSG00000131473|ENST00000352035|ACLY;nc|ENSG00000131473|P53396-3|ACLY;ENST00000588779.1_1_17:40024065-40026676:-|nuORF nc|ENSG00000131473|P53396-2|ACLY nc|ENSG00000131473|P53396-2|ACLY MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.2943115234375 2 543.292233 1084.56991 NaN NaN NaN NaN NaN NaN NaN 55.655 1 55.92 55.42 56.42 0.26543 0 0 0 0.0060814 1 25452 25452 90.135 52.161 1 21257 2662 13383 13439 24751 24751 0.031011879741754456 NPDMRVQIL 9 Unmodified _NPDMRVQIL_ 0 0 0 nc|ENSG00000131473|P53396-2|ACLY;ENSG00000131473|ENST00000352035|ACLY;nc|ENSG00000131473|P53396-3|ACLY;ENST00000588779.1_1_17:40024065-40026676:-|nuORF nc|ENSG00000131473|P53396-2|ACLY nc|ENSG00000131473|P53396-2|ACLY MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.295654296875 2 543.292233 1084.56991 NaN NaN NaN NaN NaN NaN NaN 55.683 1 55.948 55.448 56.448 0.26543 0 0 0 0.00016887 1 25466 25466 103.42 61.58 1 21258 2662 13383 13439 24752 24752 0.031011879741754456 NPDMRVQIL 9 Unmodified _NPDMRVQIL_ 0 0 0 nc|ENSG00000131473|P53396-2|ACLY;ENSG00000131473|ENST00000352035|ACLY;nc|ENSG00000131473|P53396-3|ACLY;ENST00000588779.1_1_17:40024065-40026676:-|nuORF nc|ENSG00000131473|P53396-2|ACLY nc|ENSG00000131473|P53396-2|ACLY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.2939453125 2 543.292233 1084.56991 3.4048 0.0018498 0.90132 0.00048968 4.3062 0.0023395 543.2927586076177 54.885 0.33263 55.552 55.391 55.723 0.6665 36 16 3 0 0 0 0.0013314 3 25125 25074;25125;25178 118.07 76.229 1 1490400 21259 2662 13383 13439 24753;24754;24755 24754 0.031011879741754456 NPDNSFEIL 9 Unmodified _NPDNSFEIL_ 0 0 0 nc|ENSG00000127022|P27824-3|CANX;ENSG00000127022|ENST00000247461|CANX;nc|ENSG00000127022|P27824-2|CANX nc|ENSG00000127022|P27824-3|CANX nc|ENSG00000127022|P27824-3|CANX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.7529907226562 2 524.750921 1047.48729 3.0966 0.0016249 -0.40433 -0.00021217 2.6922 0.0014127 524.750641929621 71.827 0.19546 72.085 72.041 72.237 0.25786 30 17 2 0 0 0 0.0029142 1 32984 32984 96.111 54.271 1 1268900 21260 2472 13384 13440 24756 24756 -0.034554305529809426 NPDNSFEIL 9 Unmodified _NPDNSFEIL_ 0 0 0 nc|ENSG00000127022|P27824-3|CANX;ENSG00000127022|ENST00000247461|CANX;nc|ENSG00000127022|P27824-2|CANX nc|ENSG00000127022|P27824-3|CANX nc|ENSG00000127022|P27824-3|CANX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.7525024414062 2 524.750921 1047.48729 2.7026 0.0014182 0.047112 2.4722E-05 2.7498 0.0014429 524.7508870120284 71.427 0.30671 72.09 71.91 72.217 0.66325 48 21 3 0 0 0 0.0029142 2 32700 32700;32756 96.111 54.271 1 1222400 21261 2472 13384 13440 24757;24758 24757 -0.034554305529809426 NPDPFVPVL 9 Unmodified _NPDPFVPVL_ 0 0 0 ENSG00000119285|ENST00000366582|HEATR1 ENSG00000119285|ENST00000366582|HEATR1 ENSG00000119285|ENST00000366582|HEATR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.27288818359375 2 499.271293 996.528032 3.2923 0.0016437 -0.13953 -6.9663E-05 3.1527 0.0015741 499.2711143676266 85.329 0.36144 85.578 85.313 85.675 0.24857 40 23 2 0 0 0 0.10837 2 39243 39194;39243 30.637 30.637 1 363230 21262 2136 13385 13441 24759;24760 24760 0.029629555573023936 NPDPFVPVL 9 Unmodified _NPDPFVPVL_ 0 0 0 ENSG00000119285|ENST00000366582|HEATR1 ENSG00000119285|ENST00000366582|HEATR1 ENSG00000119285|ENST00000366582|HEATR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.2730407714844 2 499.271293 996.528032 3.3652 0.0016801 -0.26951 -0.00013456 3.0957 0.0015456 499.2711606053515 84.706 0.30183 85.372 85.201 85.503 0.66566 31 18 2 0 0 0 0.043585 3 39001 38975;39001;39028 49.933 37.974 1 385740 21263 2136 13385 13441 24761;24762;24763 24762 0.029629555573023936 NPDREGWLL 9 Unmodified _NPDREGWLL_ 0 0 0 nc|ENSG00000108669|Q15438-2|CYTH1;ENSG00000108669|ENST00000446868|CYTH1;ENST00000462927.5_1_22:37699411-37707619:+|nuORF;nc|ENSG00000108669|Q15438-3|CYTH1;ENSG00000100055|ENST00000248901|CYTH4;ENSG00000105443|ENST00000452733|CYTH2;nc|ENSG00000105443|Q99418|CYTH2;ENSG00000008256|ENST00000350796|CYTH3;nc|ENSG00000008256|O43739|CYTH3 nc|ENSG00000108669|Q15438-2|CYTH1;ENSG00000008256|ENST00000350796|CYTH3 nc|ENSG00000108669|Q15438-2|CYTH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.2818603515625 2 550.28018 1098.54581 3.5755 0.0019675 -0.51968 -0.00028597 3.0558 0.0016816 550.2795230946385 60.914 0.30136 61.169 61.025 61.326 0.25578 20 12 2 0 0 0 0.057945 2 27876 27876;27946 43.772 14.691 1 427240 21264 1644;374 13386 13442 24764;24765 24764 0.0004767081215959479 NPDREGWLL 9 Unmodified _NPDREGWLL_ 0 0 0 nc|ENSG00000108669|Q15438-2|CYTH1;ENSG00000108669|ENST00000446868|CYTH1;ENST00000462927.5_1_22:37699411-37707619:+|nuORF;nc|ENSG00000108669|Q15438-3|CYTH1;ENSG00000100055|ENST00000248901|CYTH4;ENSG00000105443|ENST00000452733|CYTH2;nc|ENSG00000105443|Q99418|CYTH2;ENSG00000008256|ENST00000350796|CYTH3;nc|ENSG00000008256|O43739|CYTH3 nc|ENSG00000108669|Q15438-2|CYTH1;ENSG00000008256|ENST00000350796|CYTH3 nc|ENSG00000108669|Q15438-2|CYTH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.2822265625 2 550.28018 1098.54581 3.5481 0.0019525 -0.8636 -0.00047522 2.6845 0.0014772 550.2795882966375 60.242 0.2331 60.907 60.803 61.036 0.66503 23 12 2 0 0 0 0.057456 1 27577 27577 43.982 16.353 1 582040 21265 1644;374 13386 13442 24766 24766 0.0004767081215959479 NPDSGLEVL 9 Unmodified _NPDSGLEVL_ 0 0 0 ENST00000575153.5_1_17:5347527-5364435:-|nuORF;nc|ENSG00000005100|Q9H6R0-2|DHX33;DHX33|p.F698*|1|0.11|ENSG00000005100|chr17:5444235-5444236|AA/-|frameshift_variant;ENSG00000005100|ENST00000225296|DHX33 ENST00000575153.5_1_17:5347527-5364435:-|nuORF ENST00000575153.5_1_17:5347527-5364435:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.24139404296875 2 472.24019 942.465826 NaN NaN NaN NaN NaN NaN NaN 59.77 1 60.519 60.019 61.019 0.74927 0 0 0 0.01256 1 27464 27464 81.89 43.916 1 21266 266 13387 13443 24767 24767 -0.007708155817113038 NPDSGLEVL 9 Unmodified _NPDSGLEVL_ 0 0 0 ENST00000575153.5_1_17:5347527-5364435:-|nuORF;nc|ENSG00000005100|Q9H6R0-2|DHX33;DHX33|p.F698*|1|0.11|ENSG00000005100|chr17:5444235-5444236|AA/-|frameshift_variant;ENSG00000005100|ENST00000225296|DHX33 ENST00000575153.5_1_17:5347527-5364435:-|nuORF ENST00000575153.5_1_17:5347527-5364435:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.2413635253906 2 472.24019 942.465826 2.9982 0.0014159 -0.32375 -0.00015289 2.6744 0.001263 472.2401361514304 59.935 0.18987 60.6 60.418 60.608 0.66503 17 9 2 0 0 0 0.024388 1 27379 27379 62.573 30.267 1 516390 21267 266 13387 13443 24768 24768 -0.007708155817113038 NPDSSEPVV 9 Unmodified _NPDSSEPVV_ 0 0 0 nc|ENSG00000198363|Q12797-10|ASPH;ENSG00000198363|ENST00000379454|ASPH;nc|ENSG00000198363|Q12797-9|ASPH;nc|ENSG00000198363|Q12797-6|ASPH;nc|ENSG00000198363|Q12797-5|ASPH;nc|ENSG00000198363|Q12797-8|ASPH;nc|ENSG00000198363|Q12797-2|ASPH nc|ENSG00000198363|Q12797-10|ASPH nc|ENSG00000198363|Q12797-10|ASPH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.22418212890625 2 472.221997 942.429441 3.0933 0.0014607 0.53255 0.00025148 3.6258 0.0017122 472.22228625512673 30.329 0.24715 30.329 30.176 30.423 0 23 14 2 0 0 0 0.136 2 13677 13677;13728 27.629 14.121 1 532620 21268 5885 13388 13444 24769;24770 24769 -0.04407692478412173 NPDSSEPVV 9 Unmodified _NPDSSEPVV_ 0 0 0 nc|ENSG00000198363|Q12797-10|ASPH;ENSG00000198363|ENST00000379454|ASPH;nc|ENSG00000198363|Q12797-9|ASPH;nc|ENSG00000198363|Q12797-6|ASPH;nc|ENSG00000198363|Q12797-5|ASPH;nc|ENSG00000198363|Q12797-8|ASPH;nc|ENSG00000198363|Q12797-2|ASPH nc|ENSG00000198363|Q12797-10|ASPH nc|ENSG00000198363|Q12797-10|ASPH MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.2242431640625 2 472.221997 942.429441 NaN NaN NaN NaN NaN NaN NaN 29.986 1 30.244 29.744 30.744 0.25804 0 0 0 0.026167 1 13647 13647 62.573 38.552 1 21269 5885 13388 13444 24771 24771 -0.04407692478412173 NPDSSEPVV 9 Unmodified _NPDSSEPVV_ 0 0 0 nc|ENSG00000198363|Q12797-10|ASPH;ENSG00000198363|ENST00000379454|ASPH;nc|ENSG00000198363|Q12797-9|ASPH;nc|ENSG00000198363|Q12797-6|ASPH;nc|ENSG00000198363|Q12797-5|ASPH;nc|ENSG00000198363|Q12797-8|ASPH;nc|ENSG00000198363|Q12797-2|ASPH nc|ENSG00000198363|Q12797-10|ASPH nc|ENSG00000198363|Q12797-10|ASPH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.2233581542969 2 472.221997 942.429441 2.9951 0.0014144 0.22771 0.00010753 3.2228 0.0015219 472.2220603416985 29.741 0.28734 30.359 30.148 30.435 0.61789 27 16 2 0 0 0 0.136 1 13607 13607 27.629 18.281 1 341210 21270 5885 13388 13444 24772 24772 -0.04407692478412173 NPDTHSWEM 9 Unmodified _NPDTHSWEM_ 0 0 0 nc|ENSG00000143569|Q14157-3|UBAP2L;ENSG00000143569|ENST00000428931|UBAP2L;nc|ENSG00000143569|Q14157-5|UBAP2L;nc|ENSG00000143569|Q14157-4|UBAP2L;nc|ENSG00000143569|Q14157-1|UBAP2L nc|ENSG00000143569|Q14157-3|UBAP2L nc|ENSG00000143569|Q14157-3|UBAP2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.7261962890625 2 558.724381 1115.43421 3.5163 0.0019646 -0.21612 -0.00012075 3.3002 0.0018439 558.7242713597942 37.907 0.48545 37.907 37.637 38.122 0 43 18 3 0 0 0 1.3867E-08 3 17248 17139;17189;17248 152.41 139.14 1 2064400 21271 3380 13389 13445 24773;24774;24775 24775 -0.11889131607290437 NPDTHSWEM 9 Unmodified _NPDTHSWEM_ 0 0 0 nc|ENSG00000143569|Q14157-3|UBAP2L;ENSG00000143569|ENST00000428931|UBAP2L;nc|ENSG00000143569|Q14157-5|UBAP2L;nc|ENSG00000143569|Q14157-4|UBAP2L;nc|ENSG00000143569|Q14157-1|UBAP2L nc|ENSG00000143569|Q14157-3|UBAP2L nc|ENSG00000143569|Q14157-3|UBAP2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.7262573242188 2 558.724381 1115.43421 3.3363 0.0018641 -0.24187 -0.00013514 3.0944 0.0017289 558.7244061246423 36.798 0.44275 37.591 37.338 37.781 0.79342 67 20 4 0 0 0 7.3238E-14 3 16711 16599;16650;16711 166.45 166.45 1 1850800 21272 3380 13389 13445 24776;24777;24778 24778 -0.11889131607290437 NPDTHSWEM 9 Unmodified _NPDTHSWEM_ 0 0 0 nc|ENSG00000143569|Q14157-3|UBAP2L;ENSG00000143569|ENST00000428931|UBAP2L;nc|ENSG00000143569|Q14157-5|UBAP2L;nc|ENSG00000143569|Q14157-4|UBAP2L;nc|ENSG00000143569|Q14157-1|UBAP2L nc|ENSG00000143569|Q14157-3|UBAP2L nc|ENSG00000143569|Q14157-3|UBAP2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.7266235351562 2 558.724381 1115.43421 3.5266 0.0019704 -0.26525 -0.0001482 3.2614 0.0018222 558.7243319936996 37.994 0.48895 38.255 37.978 38.467 0.26083 42 15 4 0 0 0 1.3867E-08 3 17289 17229;17289;17348 152.41 123.33 1 2159200 21273 3380 13389 13445 24779;24780;24781 24780 -0.11889131607290437 NPDTHSWEM 9 Unmodified _NPDTHSWEM_ 0 0 0 nc|ENSG00000143569|Q14157-3|UBAP2L;ENSG00000143569|ENST00000428931|UBAP2L;nc|ENSG00000143569|Q14157-5|UBAP2L;nc|ENSG00000143569|Q14157-4|UBAP2L;nc|ENSG00000143569|Q14157-1|UBAP2L nc|ENSG00000143569|Q14157-3|UBAP2L nc|ENSG00000143569|Q14157-3|UBAP2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.7262573242188 2 558.724381 1115.43421 3.4834 0.0019463 -0.044054 -2.4614E-05 3.4394 0.0019217 558.7243649895389 37.397 0.48147 38.027 37.752 38.234 0.62999 45 18 3 0 0 0 7.3238E-14 3 17112 17059;17112;17183 166.45 137.37 1 1974700 21274 3380 13389 13445 24782;24783;24784 24783 -0.11889131607290437 NPDYSEEIL 9 Unmodified _NPDYSEEIL_ 0 0 0 ENST00000560291.2_1_15:52152484-52153489:-|nuORF;ENST00000490218.6_1_17:30212004-30222015:-|nuORF;ENST00000583408.5_1_17:30207568-30228646:-|nuORF;ENSG00000108651|ENST00000261708|UTP6 ENST00000560291.2_1_15:52152484-52153489:-|nuORF ENST00000560291.2_1_15:52152484-52153489:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.24951171875 2 540.248212 1078.48187 3.1681 0.0017116 -1.7437 -0.00094204 1.4244 0.00076953 540.2474509382506 57.932 0.26929 58.194 58.067 58.336 0.26228 20 14 2 0 0 0 0.27958 1 26517 26517 18.146 4.6385 1 315930 21275 8973 13390 13446 24785 24785 -0.05423154135451114 NPEHASVAM 9 Unmodified _NPEHASVAM_ 0 0 0 ENST00000466764.5_1_X:48433568-48434262:+|nuORF;ENST00000491240.5_1_X:48433911-48434199:+|nuORF;ENST00000488216.5_1_X:48433568-48434199:+|nuORF;ENSG00000102317|ENST00000376759|RBM3 ENST00000466764.5_1_X:48433568-48434262:+|nuORF ENST00000466764.5_1_X:48433568-48434262:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.2203674316406 2 478.218734 954.422915 3.1304 0.001497 -0.19638 -9.3911E-05 2.934 0.0014031 478.2187746656533 20.33 0.38599 20.33 20.156 20.542 0 100 34 4 0 0 0 0.0095519 1 9100 9100 82.529 46.485 1 3468000 21276 1341 13391 13447 24786 24786 -0.05611908910782404 NPEHASVAM 9 Unmodified _NPEHASVAM_ 0 0 0 ENST00000466764.5_1_X:48433568-48434262:+|nuORF;ENST00000491240.5_1_X:48433911-48434199:+|nuORF;ENST00000488216.5_1_X:48433568-48434199:+|nuORF;ENSG00000102317|ENST00000376759|RBM3 ENST00000466764.5_1_X:48433568-48434262:+|nuORF ENST00000466764.5_1_X:48433568-48434262:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.2205505371094 2 478.218734 954.422915 2.7324 0.0013067 -0.48481 -0.00023184 2.2475 0.0010748 478.2187572535706 19.386 0.11403 19.6 19.572 19.686 0.21445 33 25 2 0 0 0 0.00143 1 8635 8635 110.67 74.631 1 6500200 21277 1341 13391 13447 24787 24787 -0.05611908910782404 NPEHASVAM 9 Unmodified _NPEHASVAM_ 0 0 0 ENST00000466764.5_1_X:48433568-48434262:+|nuORF;ENST00000491240.5_1_X:48433911-48434199:+|nuORF;ENST00000488216.5_1_X:48433568-48434199:+|nuORF;ENSG00000102317|ENST00000376759|RBM3 ENST00000466764.5_1_X:48433568-48434262:+|nuORF ENST00000466764.5_1_X:48433568-48434262:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.2200927734375 2 478.218734 954.422915 2.8939 0.0013839 -0.61151 -0.00029244 2.2824 0.0010915 478.21862282788544 19.844 0.23135 20.136 19.998 20.229 0.29239 89 36 3 0 0 0 0.004576 2 9010 9010;9050 92.653 56.609 1 11333000 21278 1341 13391 13447 24788;24789 24788 -0.05611908910782404 NPEHASVAM 9 Unmodified _NPEHASVAM_ 0 0 0 ENST00000466764.5_1_X:48433568-48434262:+|nuORF;ENST00000491240.5_1_X:48433911-48434199:+|nuORF;ENST00000488216.5_1_X:48433568-48434199:+|nuORF;ENSG00000102317|ENST00000376759|RBM3 ENST00000466764.5_1_X:48433568-48434262:+|nuORF ENST00000466764.5_1_X:48433568-48434262:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.22052001953125 2 478.218734 954.422915 3.2602 0.0015591 -0.36455 -0.00017433 2.8956 0.0013848 478.218688746115 19.494 0.26693 20.152 20.009 20.276 0.6583 57 18 5 0 0 0 0.001377 2 8820 8820;8865 114.65 78.605 1 7685700 21279 1341 13391 13447 24790;24791 24790 -0.05611908910782404 NPESKVFYL 9 Unmodified _NPESKVFYL_ 0 0 0 ENSG00000134308|ENST00000238081|YWHAQ ENSG00000134308|ENST00000238081|YWHAQ ENSG00000134308|ENST00000238081|YWHAQ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.7896728515625 2 548.787307 1095.56006 NaN NaN NaN NaN NaN NaN NaN 54.86 1 55.655 55.155 56.155 0.79552 0 0 0 0.062126 1 25037 25037 49.933 29.062 1 21280 2798 13392 13448 24792 24792 0.016103232404248047 NPFLLTVPRI 10 Unmodified _NPFLLTVPRI_ 0 0 0 nc|ENSG00000165181|Q5VXU9-3|SHOC1;nc|ENSG00000165181|Q5VXU9-2|SHOC1;nc|ENSG00000165181|Q5VXU9|SHOC1;ENSG00000165181|ENST00000682961|SHOC1 nc|ENSG00000165181|Q5VXU9-3|SHOC1 nc|ENSG00000165181|Q5VXU9-3|SHOC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.5743713378906 3 390.572886 1168.69683 2.6374 0.0010301 0.16212 6.3318E-05 2.7995 0.0010934 390.57314850939264 72.774 0.28699 73.033 72.861 73.148 0.25876 46 24 3 0 0 0 0.93584 1 33413 33413 1.7423 1.7423 1 911500 21281 9731 13393 13449 24793 24793 0.1192285719080246 NPFLLTVPRI 10 Unmodified _NPFLLTVPRI_ 0 0 0 nc|ENSG00000165181|Q5VXU9-3|SHOC1;nc|ENSG00000165181|Q5VXU9-2|SHOC1;nc|ENSG00000165181|Q5VXU9|SHOC1;ENSG00000165181|ENST00000682961|SHOC1 nc|ENSG00000165181|Q5VXU9-3|SHOC1 nc|ENSG00000165181|Q5VXU9-3|SHOC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 390.572886 1168.69683 2.051 0.00080105 1.0018 0.00039127 3.0528 0.0011923 390.57337599955883 73.247 0.2213 73.247 73.106 73.327 0 0.22051 0.00022321 NaN 1.7423 36 23 3 NaN NaN NaN NaN 0 NaN NaN 0 1058500 21282 9731 13393 13449 0.1192285719080246 NPGEYVLI 8 Unmodified _NPGEYVLI_ 0 0 0 ENST00000513494.5_1_4:76997042-77020397:+|nuORF ENST00000513494.5_1_4:76997042-77020397:+|nuORF ENST00000513494.5_1_4:76997042-77020397:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 904.4806518554688 1 904.47746 903.470183 3.8702 0.0035005 -0.16856 -0.00015246 3.7017 0.0033481 904.4772446858607 60.961 0.30207 61.624 61.455 61.757 0.66261 14 12 2 0 0 0 0.15009 1 27907 27907 48.346 6.2513 1 538240 21283 8578 13394 13450 24794 24794 0.014586936318664812 NPGPGPTI 8 Unmodified _NPGPGPTI_ 0 0 0 REV__ENST00000526714.5_1_11:870485-904855:-|nuORF REV__ENST00000526714.5_1_11:870485-904855:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.882568359375 2 376.700503 751.386454 2.3342 0.00087929 0.20676 7.7887E-05 2.541 0.00095718 376.7004651771586 25.876 0.29826 26.64 26.481 26.779 0.76356 37 18 3 0 0 0 0.74071 1 11547 11547 2.5775 0 1 742210 + 21284 17095 13395 13451 24795 24795 0.0008158225481338377 NPHEGYEVL 9 Unmodified _NPHEGYEVL_ 0 0 0 ENSG00000131094|ENST00000253407|C1QL1 ENSG00000131094|ENST00000253407|C1QL1 ENSG00000131094|ENST00000253407|C1QL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.253173828125 2 529.251089 1056.48762 3.171 0.0016782 0.19506 0.00010323 3.366 0.0017815 529.2511516562846 37.186 0.37874 37.186 36.968 37.346 0 34 14 3 0 0 0 0.0012577 2 16875 16816;16875 123.45 75.105 1 2882500 21285 2639 13396 13452 24796;24797 24797 -0.03836010833151704 NPHEGYEVL 9 Unmodified _NPHEGYEVL_ 0 0 0 ENSG00000131094|ENST00000253407|C1QL1 ENSG00000131094|ENST00000253407|C1QL1 ENSG00000131094|ENST00000253407|C1QL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.25244140625 2 529.251089 1056.48762 3.2154 0.0017017 -0.13175 -6.9729E-05 3.0836 0.001632 529.2510163080655 36.035 0.31825 36.826 36.683 37.001 0.79131 33 11 4 0 0 0 0.0014219 2 16336 16336;16398 111.29 62.941 1 2352200 21286 2639 13396 13452 24798;24799 24798 -0.03836010833151704 NPHEGYEVL 9 Unmodified _NPHEGYEVL_ 0 0 0 ENSG00000131094|ENST00000253407|C1QL1 ENSG00000131094|ENST00000253407|C1QL1 ENSG00000131094|ENST00000253407|C1QL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.2529907226562 2 529.251089 1056.48762 3.3304 0.0017626 0.22047 0.00011669 3.5508 0.0018793 529.2512209167784 37.094 0.35213 37.355 37.189 37.541 0.26083 28 10 3 0 0 0 0.0024241 2 16923 16865;16923 99.799 51.453 1 1808200 21287 2639 13396 13452 24800;24801 24801 -0.03836010833151704 NPHEGYEVL 9 Unmodified _NPHEGYEVL_ 0 0 0 ENSG00000131094|ENST00000253407|C1QL1 ENSG00000131094|ENST00000253407|C1QL1 ENSG00000131094|ENST00000253407|C1QL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.2532958984375 2 529.251089 1056.48762 3.3882 0.0017932 0.325 0.00017201 3.7132 0.0019652 529.2512415265326 36.46 0.42011 37.09 36.883 37.303 0.62999 37 15 3 0 0 0 0.0046538 2 16712 16651;16712 92.491 44.146 1 1546500 21288 2639 13396 13452 24802;24803 24803 -0.03836010833151704 NPIEEISVL 9 Unmodified _NPIEEISVL_ 0 0 0 ENST00000462668.5_1_3:160131924-160151594:+|nuORF;nc|ENSG00000113810|Q9NTJ3-2|SMC4;SMC4|p.N1243Mfs*5|1|0.2|ENSG00000113810|chr3:160433665-160433665|A/-|frameshift_variant;ENSG00000113810|ENST00000357388|SMC4 ENST00000462668.5_1_3:160131924-160151594:+|nuORF ENST00000462668.5_1_3:160131924-160151594:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.2811279296875 2 507.279315 1012.54408 3.1376 0.0015916 -0.24765 -0.00012563 2.8899 0.001466 507.27925511842074 77.517 0.33559 77.771 77.534 77.87 0.25335 35 22 2 0 0 0 0.15661 1 35650 35650 26.268 3.1197 1 580730 21289 1875 13397 13453 24804 24804 0.03830617003529824 NPIEEISVL 9 Unmodified _NPIEEISVL_ 0 0 0 ENST00000462668.5_1_3:160131924-160151594:+|nuORF;nc|ENSG00000113810|Q9NTJ3-2|SMC4;SMC4|p.N1243Mfs*5|1|0.2|ENSG00000113810|chr3:160433665-160433665|A/-|frameshift_variant;ENSG00000113810|ENST00000357388|SMC4 ENST00000462668.5_1_3:160131924-160151594:+|nuORF ENST00000462668.5_1_3:160131924-160151594:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 507.279315 1012.54408 3.0346 0.0015394 -0.035231 -1.7872E-05 2.9994 0.0015215 507.2793882831742 76.989 0.26746 77.652 77.514 77.781 0.66303 -0.059426 7.4997E-05 NaN 26.268 36 23 2 NaN NaN NaN NaN 0 NaN NaN 0 615070 21290 1875 13397 13453 0.03830617003529824 NPIKVDPTM 9 Unmodified _NPIKVDPTM_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;PARP14|p.F753Sfs*5|1|0.07|ENSG00000173193|chr3:122700811-122700812|-/C|frameshift_variant nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.7691955566406 2 507.76806 1013.52157 3.0728 0.0015603 -0.59802 -0.00030366 2.4748 0.0012566 507.76776514281795 38.569 0.26162 38.833 38.69 38.952 0.26408 22 10 3 0 0 0 1.4684E-06 1 17557 17557 149.91 89.524 1 1728900 21291 4917 13398 13454 24805 24805 0.015346943342592567 NPIKVDPTM 9 Unmodified _NPIKVDPTM_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;PARP14|p.F753Sfs*5|1|0.07|ENSG00000173193|chr3:122700811-122700812|-/C|frameshift_variant nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.7692565917969 2 507.76806 1013.52157 3.1351 0.0015919 -0.21672 -0.00011004 2.9184 0.0014819 507.767943686566 38.086 0.34093 38.72 38.553 38.894 0.63389 34 14 3 0 0 0 0.0024283 1 17422 17422 99.755 63.711 1 926430 21292 4917 13398 13454 24806 24806 0.015346943342592567 NPKIKDIL 8 Unmodified _NPKIKDIL_ 0 0 0 nc|ENSG00000181222|P24928|POLR2A;ENSG00000181222|ENST00000674977|POLR2A;nc|ENSG00000181222|P24928-2|POLR2A;POLR2A|p.L681Sfs*33|1|0.27|ENSG00000181222|chr17:7501098-7501098|C/-|frameshift_variant nc|ENSG00000181222|P24928|POLR2A nc|ENSG00000181222|P24928|POLR2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.79583740234375 2 470.794935 939.575317 NaN NaN NaN NaN NaN NaN NaN 35.633 1 35.633 35.133 36.133 0 0 0 0 0.093988 1 16168 16168 56.177 3.9087 1 21293 5284 13399 13455 24807 24807 0.10311234828270699 NPKIKDIL 8 Unmodified _NPKIKDIL_ 0 0 0 nc|ENSG00000181222|P24928|POLR2A;ENSG00000181222|ENST00000674977|POLR2A;nc|ENSG00000181222|P24928-2|POLR2A;POLR2A|p.L681Sfs*33|1|0.27|ENSG00000181222|chr17:7501098-7501098|C/-|frameshift_variant nc|ENSG00000181222|P24928|POLR2A nc|ENSG00000181222|P24928|POLR2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.7967529296875 2 470.794935 939.575317 2.8461 0.0013399 0.049915 2.35E-05 2.896 0.0013634 470.79495874670437 35.443 0.48171 35.699 35.484 35.966 0.25524 25 16 2 0 0 0 0.021964 2 16118 16118;16181 85.642 13.809 1 438930 21294 5284 13399 13455 24808;24809 24808 0.10311234828270699 NPKIKDIL 8 Unmodified _NPKIKDIL_ 0 0 0 nc|ENSG00000181222|P24928|POLR2A;ENSG00000181222|ENST00000674977|POLR2A;nc|ENSG00000181222|P24928-2|POLR2A;POLR2A|p.L681Sfs*33|1|0.27|ENSG00000181222|chr17:7501098-7501098|C/-|frameshift_variant nc|ENSG00000181222|P24928|POLR2A nc|ENSG00000181222|P24928|POLR2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.7958984375 2 470.794935 939.575317 NaN NaN NaN NaN NaN NaN NaN 35.076 1 35.699 35.199 36.199 0.62294 0 0 0 0.1617 1 16074 16074 85.642 3.7513 1 21295 5284 13399 13455 24810 24810 0.10311234828270699 NPKPKFFVL 9 Unmodified _NPKPKFFVL_ 0 0 0 ENST00000539677.1_1_16:12874994-12897657:-|nuORF;nc|ENSG00000103381|Q9BRF8-3|CPPED1;nc|ENSG00000103381|Q9BRF8-2|CPPED1;ENSG00000103381|ENST00000381774|CPPED1 ENST00000539677.1_1_16:12874994-12897657:-|nuORF ENST00000539677.1_1_16:12874994-12897657:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.327392578125 2 545.326402 1088.63825 3.334 0.0018181 -0.10525 -5.7393E-05 3.2287 0.0017607 545.3264288852523 54.37 0.28293 54.635 54.456 54.739 0.26462 21 13 2 0 0 0 0.010221 2 24835 24835;24885 81.613 54.729 1 602800 21296 1395 13400 13456 24811;24812 24811 0.09747800616310087 NPKPKFFVL 9 Unmodified _NPKPKFFVL_ 0 0 0 ENST00000539677.1_1_16:12874994-12897657:-|nuORF;nc|ENSG00000103381|Q9BRF8-3|CPPED1;nc|ENSG00000103381|Q9BRF8-2|CPPED1;ENSG00000103381|ENST00000381774|CPPED1 ENST00000539677.1_1_16:12874994-12897657:-|nuORF ENST00000539677.1_1_16:12874994-12897657:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.328125 2 545.326402 1088.63825 3.3601 0.0018323 -0.11481 -6.2609E-05 3.2453 0.0017697 545.3263217972534 53.673 0.24946 54.337 54.219 54.468 0.6644 32 14 3 0 0 0 0.010221 2 24575 24519;24575 81.613 67.344 1 941890 21297 1395 13400 13456 24813;24814 24814 0.09747800616310087 NPKTAGPPK 9 Unmodified _NPKTAGPPK_ 0 0 0 nc|ENSG00000156983|P55201-3|BRPF1;nc|ENSG00000156983|P55201|BRPF1;ENSG00000156983|ENST00000383829|BRPF1 nc|ENSG00000156983|P55201-3|BRPF1 nc|ENSG00000156983|P55201-3|BRPF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 455.26251220703125 2 455.261259 908.507966 2.5596 0.0011653 0.66815 0.00030418 3.2277 0.0014695 455.26153781476256 14.984 0.47806 15.291 15.085 15.563 0.3069 82 48 2 0 0 0 1.1412 1 6820 6820 1.6526 0.96225 1 109730 21298 3934 13401 13457 24815 24815 0.05005204617327763 NPLASNSPPLK 11 Unmodified _NPLASNSPPLK_ 0 0 0 REV__ENSG00000090905|ENST00000395799|TNRC6A REV__ENSG00000090905|ENST00000395799|TNRC6A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.56646728515625 3 379.880267 1136.61897 2.9167 0.001108 0.66798 0.00025375 3.5847 0.0013618 379.8803680335597 31.452 0.18092 31.452 31.358 31.539 0 19 14 2 0 0 0 0.13295 1 14220 14220 8.7518 3.8548 1 273180 21299 10720 13402 13458 24816 24816 0.056127995347424076 NPLQYYLM 8 Unmodified _NPLQYYLM_ 0 0 0 ENSG00000187189|ENST00000420283|TSPYL4 ENSG00000187189|ENST00000420283|TSPYL4 ENSG00000187189|ENST00000420283|TSPYL4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.2764282226562 2 521.257328 1040.5001 3.3999 0.0017722 -2.0883 -0.0010886 1.3115 0.00068364 521.25754900356 49.566 0.081333 50.223 50.167 50.248 0.65735 4 2 2 0 0 0 0.12327 1 22662 22662 13.508 3.3573 1 226750 21300 5609 13403 13459 24817 24817 -0.018526906944543953 NPLRKIAIKIL 11 Unmodified _NPLRKIAIKIL_ 0 0 0 SCN1A|p.A1622Pfs*3|1|0.23|ENSG00000144285|chr2:165992415-165992415|A/-|frameshift_variant;nc|ENSG00000144285|P35498-3|SCN1A;nc|ENSG00000144285|P35498-2|SCN1A;ENSG00000144285|ENST00000674923|SCN1A SCN1A|p.A1622Pfs*3|1|0.23|ENSG00000144285|chr2:165992415-165992415|A/-|frameshift_variant SCN1A|p.A1622Pfs*3|1|0.23|ENSG00000144285|chr2:165992415-165992415|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 639.9371948242188 2 639.93464 1277.85473 NaN NaN NaN NaN NaN NaN NaN 91.313 1 91.388 90.888 91.888 0.075279 0 0 0 1.0073 1 47288 47288 1.1933 0 1 21301 3416 13404 13460 24818 24818 0.226913564500137 NPMTKEPKL 9 Unmodified _NPMTKEPKL_ 0 0 0 nc|ENSG00000136731|Q9NYU2-2|UGGT1;ENSG00000136731|ENST00000259253|UGGT1;ENST00000465836.1_1_2:128944884-128947313:+|nuORF nc|ENSG00000136731|Q9NYU2-2|UGGT1 nc|ENSG00000136731|Q9NYU2-2|UGGT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 353.1963806152344 3 353.195198 1056.56377 1.9338 0.00068301 -0.20278 -7.162E-05 1.731 0.00061139 353.19512838501464 21.723 0.21819 22.128 22.01 22.228 0.40533 54 39 2 0 0 0 0.19396 2 9633 9633;9673 23.801 8.0624 1 3892700 21302 2968 13405 13461 24819;24820 24819 0.037746697426428 NPMTKEPKL 9 Unmodified _NPMTKEPKL_ 0 0 0 nc|ENSG00000136731|Q9NYU2-2|UGGT1;ENSG00000136731|ENST00000259253|UGGT1;ENST00000465836.1_1_2:128944884-128947313:+|nuORF nc|ENSG00000136731|Q9NYU2-2|UGGT1 nc|ENSG00000136731|Q9NYU2-2|UGGT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.2904052734375 2 529.289159 1056.56377 NaN NaN NaN NaN NaN NaN NaN 21.706 1 22.111 21.611 22.611 0.40533 0 0 0 0.0049413 1 9641 9641 90.135 64.736 1 21303 2968 13405 13461 24821 24821 0.037746697426428 NPMTKEPKL 9 Unmodified _NPMTKEPKL_ 0 0 0 nc|ENSG00000136731|Q9NYU2-2|UGGT1;ENSG00000136731|ENST00000259253|UGGT1;ENST00000465836.1_1_2:128944884-128947313:+|nuORF nc|ENSG00000136731|Q9NYU2-2|UGGT1 nc|ENSG00000136731|Q9NYU2-2|UGGT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 353.1957702636719 3 353.195198 1056.56377 NaN NaN NaN NaN NaN NaN NaN 22.362 1 22.643 22.143 23.143 0.28085 0 0 0 0.35116 1 10104 10104 24.882 10.043 1 21304 2968 13405 13461 24822 24822 0.037746697426428 NPMTKEPKL 9 Unmodified _NPMTKEPKL_ 0 0 0 nc|ENSG00000136731|Q9NYU2-2|UGGT1;ENSG00000136731|ENST00000259253|UGGT1;ENST00000465836.1_1_2:128944884-128947313:+|nuORF nc|ENSG00000136731|Q9NYU2-2|UGGT1 nc|ENSG00000136731|Q9NYU2-2|UGGT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 353.1959228515625 3 353.195198 1056.56377 NaN NaN NaN NaN NaN NaN NaN 22.009 1 22.657 22.157 23.157 0.64714 0 0 0 0.50863 1 10007 10007 18.721 5.1064 1 21305 2968 13405 13461 24823 24823 0.037746697426428 NPNLRKNVL 9 Unmodified _NPNLRKNVL_ 0 0 0 ENST00000521086.6_1_8:54891227-54912595:-|nuORF;nc|ENSG00000187735|P23193-2|TCEA1;ENSG00000187735|ENST00000521604|TCEA1 ENST00000521086.6_1_8:54891227-54912595:-|nuORF ENST00000521086.6_1_8:54891227-54912595:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 356.54949951171875 3 356.548852 1066.62473 NaN NaN NaN NaN NaN NaN NaN 21.523 1 22.17 21.67 22.67 0.64714 0 0 0 0.11889 1 9771 9771 38.176 18.814 1 21306 5631 13406 13462 24824 24824 0.09407942837083283 NPPRRRRRS 9 Unmodified _NPPRRRRRS_ 0 0 0 ENSG00000127129|ENST00000372587|EDN2 ENSG00000127129|ENST00000372587|EDN2 ENSG00000127129|ENST00000372587|EDN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.8582763671875 2 597.855578 1193.6966 4.1738 0.0024953 1.0707 0.00064011 5.2445 0.0031355 597.8560921384948 85.36 1.1938 86.026 85.471 86.665 0.66566 95 61 2 0 0 0 1.2126 1 39525 39525 0.52476 0 1 958420 21307 2474 13407 13463 24825 24825 0.10750295034154078 NPQERTLTL 9 Unmodified _NPQERTLTL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;HSP90AB1|p.R449Pfs*5|1|0.33|ENSG00000096384|chr6:44251765-44251766|-/C|frameshift_variant;HSP90AB1|p.I483Hfs*7|1|0.32|ENSG00000096384|chr6:44251866-44251867|-/C|frameshift_variant ENSG00000096384|ENST00000371646|HSP90AB1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.2948608398438 2 536.293288 1070.57202 3.0976 0.0016612 -0.64478 -0.00034579 2.4528 0.0013154 536.2927599366967 37.118 0.28906 37.379 37.22 37.51 0.26083 14 8 2 0 0 0 0.0027913 1 16927 16927 96.367 35.009 1 360540 21308 1127 13408 13464 24826 24826 0.039559399836207376 NPQERTLTL 9 Unmodified _NPQERTLTL_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;HSP90AB1|p.R449Pfs*5|1|0.33|ENSG00000096384|chr6:44251765-44251766|-/C|frameshift_variant;HSP90AB1|p.I483Hfs*7|1|0.32|ENSG00000096384|chr6:44251866-44251867|-/C|frameshift_variant ENSG00000096384|ENST00000371646|HSP90AB1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.29541015625 2 536.293288 1070.57202 3.3423 0.0017925 -0.54627 -0.00029296 2.7961 0.0014995 536.2931865186666 36.477 0.28048 37.107 36.95 37.23 0.62999 19 9 3 0 0 0 0.030603 1 16719 16719 55.503 31.482 1 349230 21309 1127 13408 13464 24827 24827 0.039559399836207376 NPQFLDPVL 9 Unmodified _NPQFLDPVL_ 0 0 0 nc|ENSG00000064419|Q9Y5L0-3|TNPO3;ENSG00000064419|ENST00000265388|TNPO3;nc|ENSG00000064419|Q9Y5L0-1|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.7828979492188 2 521.782025 1041.5495 2.7231 0.0014208 0.88926 0.000464 3.6123 0.0018848 521.7824972233592 80.47 0.2301 80.638 80.531 80.761 0.16862 33 18 2 0 0 0 0.015098 2 39436 39436;39493 74.929 40.827 1 1913500 21310 671 13409 13465 24828;24829 24828 0.030383405859765844 NPQFLDPVL 9 Unmodified _NPQFLDPVL_ 0 0 0 nc|ENSG00000064419|Q9Y5L0-3|TNPO3;ENSG00000064419|ENST00000265388|TNPO3;nc|ENSG00000064419|Q9Y5L0-1|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.7830810546875 2 521.782025 1041.5495 3.1774 0.0016579 0.057671 3.0092E-05 3.2351 0.001688 521.7820009444201 81.033 0.37077 81.281 81.081 81.452 0.24802 52 22 3 0 0 0 0.010018 2 37288 37288;37340 81.89 41.933 1 2217900 21311 671 13409 13465 24830;24831 24830 0.030383405859765844 NPQFLDPVL 9 Unmodified _NPQFLDPVL_ 0 0 0 nc|ENSG00000064419|Q9Y5L0-3|TNPO3;ENSG00000064419|ENST00000265388|TNPO3;nc|ENSG00000064419|Q9Y5L0-1|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 nc|ENSG00000064419|Q9Y5L0-3|TNPO3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.783447265625 2 521.782025 1041.5495 3.4213 0.0017852 -0.11125 -5.805E-05 3.3101 0.0017271 521.7818328196604 80.437 0.29871 81.097 80.961 81.259 0.65997 40 17 3 0 0 0 0.0081238 2 37100 37048;37100 85.272 45.315 1 2208100 21312 671 13409 13465 24832;24833 24833 0.030383405859765844 NPRRWWRWCWQ 11 Unmodified _NPRRWWRWCWQ_ 0 0 0 ENST00000564348.5_1_19:7982609-7983760:+|nuORF;ENST00000566166.1_1_19:7982552-7983971:+|nuORF ENST00000564348.5_1_19:7982609-7983760:+|nuORF ENST00000564348.5_1_19:7982609-7983760:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 837.4061279296875 2 837.404578 1672.7946 NaN NaN NaN NaN NaN NaN NaN 63.824 1 64.072 63.572 64.572 0.24803 0 0 0 1.0082 1 29231 29231 0 0 1 21313 9028 13410 13466 24834 24834 -0.014882644321460248 NPRVKAAAL 9 Unmodified _NPRVKAAAL_ 0 0 0 ENST00000477888.1_1_9:94842274-94843223:-|nuORF;nc|ENSG00000090054|O15269-2|SPTLC1;ENSG00000090054|ENST00000262554|SPTLC1 ENST00000477888.1_1_9:94842274-94843223:-|nuORF ENST00000477888.1_1_9:94842274-94843223:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.2917785644531 2 470.290351 938.566149 2.841 0.0013361 -0.7135 -0.00033555 2.1275 0.0010005 470.29002683837865 14.623 0.17887 14.849 14.795 14.973 0.22622 20 11 2 0 0 0 0.071101 1 6439 6439 39.957 11.47 1 335500 21314 1054 13411 13467 24835 24835 0.09440886262598269 NPRVKAAAL 9 Unmodified _NPRVKAAAL_ 0 0 0 ENST00000477888.1_1_9:94842274-94843223:-|nuORF;nc|ENSG00000090054|O15269-2|SPTLC1;ENSG00000090054|ENST00000262554|SPTLC1 ENST00000477888.1_1_9:94842274-94843223:-|nuORF ENST00000477888.1_1_9:94842274-94843223:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.2915954589844 2 470.290351 938.566149 NaN NaN NaN NaN NaN NaN NaN 14.224 1 14.531 14.031 15.031 0.3069 0 0 0 0.10934 1 6436 6436 39.957 11.47 1 21315 1054 13411 13467 24836 24836 0.09440886262598269 NPRVKAAAL 9 Unmodified _NPRVKAAAL_ 0 0 0 ENST00000477888.1_1_9:94842274-94843223:-|nuORF;nc|ENSG00000090054|O15269-2|SPTLC1;ENSG00000090054|ENST00000262554|SPTLC1 ENST00000477888.1_1_9:94842274-94843223:-|nuORF ENST00000477888.1_1_9:94842274-94843223:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 313.8631896972656 3 313.86266 938.566149 NaN NaN NaN NaN NaN NaN NaN 14.239 1 14.546 14.046 15.046 0.3069 0 0 0 0.86044 1 6443 6443 4.5289 0.19963 1 21316 1054 13411 13467 24837 24837 0.09440886262598269 NPRVNTKKL 9 Unmodified _NPRVNTKKL_ 0 0 0 REV__ENST00000263918.8_1_2:37071777-37071930:-|nuORF REV__ENST00000263918.8_1_2:37071777-37071930:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.2215576171875 3 357.220735 1068.64038 NaN NaN NaN NaN NaN NaN NaN 12.676 1 12.984 12.484 13.484 0.30727 0 0 0 0.89451 1 5719 5719 4.897 1.31 1 + 21317 15006 13412 13468 24838 24838 0.10880229354143012 NPRWRRRRRPW 11 Unmodified _NPRWRRRRRPW_ 0 0 0 ENST00000535818.1_1_11:60906157-60928919:-|nuORF;ENST00000536000.1_1_11:60900588-60928919:-|nuORF ENST00000535818.1_1_11:60906157-60928919:-|nuORF ENST00000535818.1_1_11:60906157-60928919:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.9822998046875 3 545.982047 1634.92431 NaN NaN NaN NaN NaN NaN NaN 85.317 1 85.345 84.845 85.845 0.028603 0 0 0 1.008 1 42687 42687 0.08335 0.010087 1 21318 8766 13413 13469 24839 24839 0.13224672961996475 NPRWRRRRRPW 11 Unmodified _NPRWRRRRRPW_ 0 0 0 ENST00000535818.1_1_11:60906157-60928919:-|nuORF;ENST00000536000.1_1_11:60900588-60928919:-|nuORF ENST00000535818.1_1_11:60906157-60928919:-|nuORF ENST00000535818.1_1_11:60906157-60928919:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 818.5276489257812 2 818.469432 1634.92431 NaN NaN NaN NaN NaN NaN NaN 91.745 1 91.827 91.327 92.327 0.082848 0 0 0 1.008 1 47634 47634 0.30703 0.30703 1 21319 8766 13413 13469 24840 24840 0.13224672961996475 NPRWRRRRRPW 11 Unmodified _NPRWRRRRRPW_ 0 0 0 ENST00000535818.1_1_11:60906157-60928919:-|nuORF;ENST00000536000.1_1_11:60900588-60928919:-|nuORF ENST00000535818.1_1_11:60906157-60928919:-|nuORF ENST00000535818.1_1_11:60906157-60928919:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 818.44921875 2 818.469432 1634.92431 NaN NaN NaN NaN NaN NaN NaN 98.231 1 98.52 98.02 99.02 0.28923 0 0 0 1.008 1 45218 45218 0.30703 0.30703 1 21320 8766 13413 13469 24841 24841 0.13224672961996475 NPRWRRRRRPW 11 Unmodified _NPRWRRRRRPW_ 0 0 0 ENST00000535818.1_1_11:60906157-60928919:-|nuORF;ENST00000536000.1_1_11:60900588-60928919:-|nuORF ENST00000535818.1_1_11:60906157-60928919:-|nuORF ENST00000535818.1_1_11:60906157-60928919:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 818.46875 2 818.469432 1634.92431 NaN NaN NaN NaN NaN NaN NaN 99.861 1 100.17 99.67 100.67 0.30835 0 0 0 1.008 1 46165 46165 0.30703 0.30703 1 21321 8766 13413 13469 24842 24842 0.13224672961996475 NPSARLTAL 9 Unmodified _NPSARLTAL_ 0 0 0 ENSG00000139567|ENST00000388922|ACVRL1;ENSG00000115170|ENST00000434821|ACVR1 ENSG00000139567|ENST00000388922|ACVRL1 ENSG00000139567|ENST00000388922|ACVRL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.7735290527344 2 471.771991 941.529429 2.9915 0.0014113 1.4536 0.00068576 4.4451 0.0020971 471.7726509791507 36.966 0.23563 37.596 37.517 37.752 0.62999 10 8 2 0 0 0 0.87132 1 16949 16949 9.3831 2.66 1 177630 21322 1948 13414 13470 24843 24843 0.056325896460293734 NPSIFLMES 9 Unmodified _NPSIFLMES_ 0 0 0 REV__ENST00000466496.5_1_1:149900713-149900755:-|nuORF REV__ENST00000466496.5_1_1:149900713-149900755:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 519.2543334960938 2 519.252243 1036.48993 3.3439 0.0017363 0.43635 0.00022658 3.7802 0.0019629 519.2525863723293 70.307 0.59824 70.563 70.251 70.849 0.25641 58 42 2 0 0 0 0.29523 1 32156 32156 17.113 0 1 638260 + 21323 16545 13415 13471 24844 24844 -0.02685298419692117 NPSIHWDDIA 10 Unmodified _NPSIHWDDIA_ 0 0 0 ENSG00000102781|ENST00000380615|KATNAL1 ENSG00000102781|ENST00000380615|KATNAL1 ENSG00000102781|ENST00000380615|KATNAL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.8531494140625 3 389.852489 1166.53564 2.9293 0.001142 -2.0146 -0.0007854 0.91467 0.00035659 389.8516665723295 52.522 0.30017 52.786 52.674 52.974 0.26345 23 10 3 0 0 0 0.84738 1 24042 24042 6.1918 1.2948 1 779550 21324 1353 13416 13472 24845 24845 -0.04096936913083482 NPSLKHTL 8 Unmodified _NPSLKHTL_ 0 0 0 SKIL|p.C272Mfs*14|1|0.25|ENSG00000136603|chr3:170361141-170361142|-/A|frameshift_variant;nc|ENSG00000136603|P12757-4|SKIL;nc|ENSG00000136603|P12757-2|SKIL;nc|ENSG00000136603|P12757-3|SKIL;nc|ENSG00000136603|P12757-5|SKIL;ENSG00000136603|ENST00000259119|SKIL SKIL|p.C272Mfs*14|1|0.25|ENSG00000136603|chr3:170361141-170361142|-/A|frameshift_variant SKIL|p.C272Mfs*14|1|0.25|ENSG00000136603|chr3:170361141-170361142|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 455.26300048828125 2 455.261259 908.507966 2.5596 0.0011653 0.66815 0.00030418 3.2277 0.0014695 455.26153781476256 14.984 0.47806 15.291 15.085 15.563 0.3069 82 48 2 0 0 0 0.63902 2 6769 6723;6769 10.824 2.3939 1 109730 21325 2961 13417 13473 24846;24847 24847 0.050052046173163944 NPSLKHTL 8 Unmodified _NPSLKHTL_ 0 0 0 SKIL|p.C272Mfs*14|1|0.25|ENSG00000136603|chr3:170361141-170361142|-/A|frameshift_variant;nc|ENSG00000136603|P12757-4|SKIL;nc|ENSG00000136603|P12757-2|SKIL;nc|ENSG00000136603|P12757-3|SKIL;nc|ENSG00000136603|P12757-5|SKIL;ENSG00000136603|ENST00000259119|SKIL SKIL|p.C272Mfs*14|1|0.25|ENSG00000136603|chr3:170361141-170361142|-/A|frameshift_variant SKIL|p.C272Mfs*14|1|0.25|ENSG00000136603|chr3:170361141-170361142|-/A|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 455.261259 908.507966 3.0505 0.0013888 1.169 0.00053221 4.2195 0.001921 455.26183542005623 15.028 0.78455 15.681 15.491 16.275 0.65356 0.19528 0.00023945 NaN 10.824 131 91 2 NaN NaN NaN NaN 0 NaN NaN 0 170840 21326 2961 13417 13473 0.050052046173163944 NPSRWEVVL 9 Unmodified _NPSRWEVVL_ 0 0 0 nc|ENSG00000153815|Q8IY22-3|CMIP;nc|ENSG00000153815|Q8IY22-2|CMIP;ENSG00000153815|ENST00000537098|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.2999877929688 2 550.298373 1098.58219 3.5702 0.0019647 -0.47287 -0.00026022 3.0974 0.0017045 550.2983418319676 61.158 0.33764 61.411 61.244 61.582 0.25245 39 16 3 0 0 0 0.022157 2 27994 27994;28047 65.474 33.168 1 1020100 21327 9694 13418 13474 24848;24849 24848 0.03684547708849095 NPSRWEVVL 9 Unmodified _NPSRWEVVL_ 0 0 0 nc|ENSG00000153815|Q8IY22-3|CMIP;nc|ENSG00000153815|Q8IY22-2|CMIP;ENSG00000153815|ENST00000537098|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.3009033203125 2 550.298373 1098.58219 3.5329 0.0019441 -0.41227 -0.00022687 3.1206 0.0017173 550.2982047881148 60.56 0.30764 61.222 61.051 61.359 0.66261 31 15 3 0 0 0 0.044468 2 27755 27696;27755 49.554 17.249 1 1089500 21328 9694 13418 13474 24850;24851 24851 0.03684547708849095 NPSVREFVL 9 Unmodified _NPSVREFVL_ 0 0 0 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1060.583984375 1 1060.57857 1059.57129 3.2352 0.0034312 0.11216 0.00011896 3.3474 0.0035501 1060.579951921613 57.628 0.34126 57.893 57.751 58.093 0.26444 32 19 2 0 0 0 0.019184 2 26374 26374;26450 69.338 45.548 1 930990 21329 2646 13419 13475 24852;24853 24852 0.04389145334562272 NPSVREFVL 9 Unmodified _NPSVREFVL_ 0 0 0 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.7948608398438 2 530.792924 1059.57129 3.1107 0.0016512 -0.27556 -0.00014627 2.8352 0.0015049 530.7928698134024 57.648 0.64803 57.913 57.69 58.338 0.26443 136 39 5 0 0 0 0.0014285 3 26440 26392;26440;26492 110.79 59.163 1 46739000 21330 2646 13419 13475 24854;24855;24856 24855 0.04389145334562272 NPSVREFVL 9 Unmodified _NPSVREFVL_ 0 0 0 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.7951049804688 2 530.792924 1059.57129 3.3295 0.0017673 0.17084 9.0682E-05 3.5003 0.0018579 530.7930569947798 57.061 0.45775 57.729 57.491 57.949 0.66829 94 26 5 0 0 0 0.00045036 4 26077 26034;26077;26121;26180 132.38 73.988 1 62331000 21331 2646 13419 13475 24857;24858;24859;24860 24858 0.04389145334562272 NPSWSQPVI 9 Unmodified _NPSWSQPVI_ 0 0 0 REV__nc|ENSG00000161813|Q71RC2-2|LARP4 REV__nc|ENSG00000161813|Q71RC2-2|LARP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.2683715820312 2 514.263999 1026.51345 NaN NaN NaN NaN NaN NaN NaN 65.348 1 66.005 65.505 66.505 0.65672 0 0 0 0.30236 1 29960 29960 26.884 5.137 1 + 21332 12920 13420 13476 24861 24861 0.0012488340912568674 NPVEVSMLT 9 Unmodified _NPVEVSMLT_ 0 0 0 RECK|p.Y355Lfs*4|1|0.25|ENSG00000122707|chr9:36091319-36091320|-/T|frameshift_variant;RECK|p.C724Vfs*109|1|0.15|ENSG00000122707|chr9:36117092-36117092|T/-|frameshift_variant;ENSG00000122707|ENST00000377966|RECK RECK|p.Y355Lfs*4|1|0.25|ENSG00000122707|chr9:36091319-36091320|-/T|frameshift_variant RECK|p.Y355Lfs*4|1|0.25|ENSG00000122707|chr9:36091319-36091320|-/T|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.25494384765625 2 495.252243 988.489932 2.628 0.0013015 1.0173 0.00050381 3.6453 0.0018054 495.2532724216997 73.136 0.26888 73.835 73.721 73.99 0.69881 45 25 2 0 0 0 0.063575 2 35238 35205;35238 41.84 2.1491 1 1550000 21333 2279 13421 13477 24862;24863 24863 -0.004772984196847574 NPVPWEKEEYL 11 Unmodified _NPVPWEKEEYL_ 0 0 0 ENST00000525188.5_1_11:20409237-20415368:+|nuORF;nc|ENSG00000185238|O60678-2|PRMT3;ENSG00000185238|ENST00000331079|PRMT3 ENST00000525188.5_1_11:20409237-20415368:+|nuORF ENST00000525188.5_1_11:20409237-20415368:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 702.3446655273438 2 702.345717 1402.67688 NaN NaN NaN NaN NaN NaN NaN 67.296 1 67.998 67.498 68.498 0.70218 0 0 0 1.0061 1 31971 31971 2.7352 0 1 21334 5497 13422 13478 24864 24864 -0.008349833304464482 NPWFKKMQL 9 Unmodified _NPWFKKMQL_ 0 0 0 REV__ENST00000506102.5_1_3:125725861-125741959:-|nuORF REV__ENST00000506102.5_1_3:125725861-125741959:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 397.88372802734375 3 397.882955 1190.62703 2.7395 0.00109 -1.0685 -0.00042513 1.671 0.00066487 397.88247413450586 12.759 0.088818 12.759 12.699 12.788 0 8 4 2 0 0 0 0.29523 1 5574 5574 17.113 1.8644 1 851020 + 21335 11324 13423 13479 24865 24865 0.0393465525053216 NPWFKKMQL 9 Unmodified _NPWFKKMQL_ 0 0 0 REV__ENST00000506102.5_1_3:125725861-125741959:-|nuORF REV__ENST00000506102.5_1_3:125725861-125741959:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.8835754394531 3 397.882955 1190.62703 NaN NaN NaN NaN NaN NaN NaN 12.532 1 13.175 12.675 13.675 0.64272 0 0 0 0.90431 1 5624 5624 2.4985 1.0434 1 + 21336 11324 13423 13479 24866 24866 0.0393465525053216 NQAAAGRR 8 Unmodified _NQAAAGRR_ 0 0 0 REV__ENST00000464413.1_1_2:99426225-99438629:-|nuORF REV__ENST00000464413.1_1_2:99426225-99438629:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.2293701171875 2 422.230825 842.447097 NaN NaN NaN NaN NaN NaN NaN 61.6 1 62.26 61.76 62.76 0.66008 0 0 0 0.99035 1 28212 28212 2.5775 0.27475 1 + 21337 16529 13424 13480 24867 24867 0.019571123577520666 NQALLHKHINL 11 Unmodified _NQALLHKHINL_ 0 0 0 nc|ENSG00000150995|Q14643-4|ITPR1;nc|ENSG00000150995|Q14643-3|ITPR1;nc|ENSG00000150995|Q14643-8|ITPR1;nc|ENSG00000150995|Q14643-7|ITPR1;nc|ENSG00000150995|Q14643-5|ITPR1;nc|ENSG00000150995|Q14643-6|ITPR1;nc|ENSG00000150995|Q14643-2|ITPR1;ENSG00000150995|ENST00000649015|ITPR1;ITPR1|p.Y1487Sfs*6|1|0.36|ENSG00000150995|chr3:4699863-4699866|GTAT/-|frameshift_variant nc|ENSG00000150995|Q14643-4|ITPR1 nc|ENSG00000150995|Q14643-4|ITPR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.2549133300781 3 434.254328 1299.74115 NaN NaN NaN NaN NaN NaN NaN 87.466 1 88.142 87.642 88.642 0.67555 0 0 0 1.0059 1 40288 40288 1.2148 0.20126 1 21338 3685 13425 13481 24868 24868 0.10327261336988158 NQARPGRPR 9 Unmodified _NQARPGRPR_ 0 0 0 REV__ENSG00000214872|ENST00000527972|SMTNL1 REV__ENSG00000214872|ENST00000527972|SMTNL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.200927734375 3 351.200446 1050.57951 NaN NaN NaN NaN NaN NaN NaN 74.093 1 74.093 73.593 74.593 0 0 0 0 0.90611 1 36161 36161 1.0715 0 1 + 21339 14518 13426 13482 24869 24869 0.05624137094537218 NQASSNNN 8 Unmodified _NQASSNNN_ 0 0 0 REV__nc|ENSG00000145700|Q8N7Z5|ANKRD31 REV__nc|ENSG00000145700|Q8N7Z5|ANKRD31 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 424.6778259277344 2 424.678288 847.342023 NaN NaN NaN NaN NaN NaN NaN 68.845 1 69.547 69.047 70.047 0.70218 0 0 0 0.99035 1 32859 32859 0.79363 0 1 + 21340 12449 13427 13483 24870 24870 -0.08775473629327735 NQCCHDEC 8 Unmodified _NQCCHDEC_ 0 0 0 nc|ENSG00000065361|P21860-4|ERBB3;ENSG00000065361|ENST00000267101|ERBB3;nc|ENSG00000065361|P21860-3|ERBB3 nc|ENSG00000065361|P21860-4|ERBB3 nc|ENSG00000065361|P21860-4|ERBB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 476.139404296875 2 476.141312 950.268071 NaN NaN NaN NaN NaN NaN NaN 62.273 1 62.273 61.773 62.773 0 0 0 0 0.99035 1 29169 29169 0.79363 0.79363 1 21341 688 13428 13484 24871 24871 -0.20905224379180254 NQCCSSCE 8 Unmodified _NQCCSSCE_ 0 0 0 TRIM28|p.T154S|1|0.21|ENSG00000130726|chr19:58545771-58545771|C/G|missense_variant TRIM28|p.T154S|1|0.21|ENSG00000130726|chr19:58545771-58545771|C/G|missense_variant TRIM28|p.T154S|1|0.21|ENSG00000130726|chr19:58545771-58545771|C/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.1311340332031 2 437.130413 872.246273 NaN NaN NaN NaN NaN NaN NaN 69.622 1 69.622 69.122 70.122 0 0 0 0 0.99035 1 33650 33650 0.79363 0.79363 1 21342 18281 13429 13485 24872 24872 -0.1949602912774253 NQCSCVSC 8 Unmodified _NQCSCVSC_ 0 0 0 REV__ENST00000547636.1_1_12:44915767-44917277:-|nuORF REV__ENST00000547636.1_1_12:44915767-44917277:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.14617919921875 2 422.143323 842.272094 NaN NaN NaN NaN NaN NaN NaN 78.746 1 79.408 78.908 79.908 0.66198 0 0 0 0.99035 1 36287 36287 0.79363 0.10326 1 + 21343 13982 13430 13486 24873 24873 -0.15535134885453772 NQDALPAIV 9 Unmodified _NQDALPAIV_ 0 0 0 REV__ENST00000538588.2_1_7:99821243-99844125:-|nuORF REV__ENST00000538588.2_1_7:99821243-99844125:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 940.509033203125 1 940.509822 939.502546 3.8599 0.0036303 -0.15883 -0.00014938 3.7011 0.0034809 940.5094568238848 47.614 0.19312 48.267 48.147 48.34 0.65356 10 7 2 0 0 0 0.091193 1 21794 21794 34.932 12.196 1 379400 + 21344 14726 13431 13487 24874 24874 0.030374810348348547 NQDECLGEYSW 11 Unmodified _NQDECLGEYSW_ 0 0 0 ENST00000560720.1_1_15:48720468-48725072:-|nuORF ENST00000560720.1_1_15:48720468-48725072:-|nuORF ENST00000560720.1_1_15:48720468-48725072:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 448.4011535644531 3 448.511803 1342.51358 NaN NaN NaN NaN NaN NaN NaN 60.972 1 60.972 60.472 61.472 0 0 0 0 1.008 1 28404 28404 0.094841 0 1 21345 8975 13432 13488 24875 24875 -0.14397529443817803 NQDHDGSDDD 10 Unmodified _NQDHDGSDDD_ 0 0 0 REV__ENST00000498242.5_1_2:233415434-233422740:+|nuORF REV__ENST00000498242.5_1_2:233415434-233422740:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 373.12884521484375 3 373.127006 1116.35919 NaN NaN NaN NaN NaN NaN NaN 77.069 1 77.63 77.13 78.13 0.56091 0 0 0 1.0015 1 37367 37367 0.15932 0 1 + 21346 10147 13433 13489 24876 24876 -0.19433642604826673 NQDPSGSV 8 Unmodified _NQDPSGSV_ 0 0 0 nc|ENSG00000108389|Q9NYA4|MTMR4;ENSG00000108389|ENST00000682306|MTMR4 nc|ENSG00000108389|Q9NYA4|MTMR4 nc|ENSG00000108389|Q9NYA4|MTMR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 402.18084716796875 2 402.180132 802.345711 NaN NaN NaN NaN NaN NaN NaN 83.25 1 83.911 83.411 84.411 0.66019 0 0 0 0.99035 1 38346 38346 2.5775 1.7838 1 21347 1631 13434 13490 24877 24877 -0.06336803855458584 NQDRIQLW 8 Unmodified _NQDRIQLW_ 0 0 0 REV__ENST00000432560.6_1_22:29763228-29784426:-|nuORF REV__ENST00000432560.6_1_22:29763228-29784426:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 358.19061279296875 3 358.189324 1071.54614 NaN NaN NaN NaN NaN NaN NaN 86.269 1 86.939 86.439 87.439 0.67061 0 0 0 0.99035 1 39727 39727 2.9952 0.26005 1 + 21348 16273 13435 13491 24878 24878 0.01323090531991511 NQDSSVCIGNK 11 Unmodified _NQDSSVCIGNK_ 0 0 0 REV__ENSG00000107984|ENST00000373970|DKK1 REV__ENSG00000107984|ENST00000373970|DKK1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.3305053710938 2 582.769319 1163.52409 3.6927 0.002152 0.36642 0.00021354 4.0591 0.0023655 582.7694161065876 48.267 0.35542 48.92 48.704 49.06 0.65356 34 13 3 0 0 0 0.13295 1 22030 22030 12.241 4.6317 1 895370 + 21349 11133 13436 13492 24879 24879 -0.05113501998744141 NQDTDDDG 8 Unmodified _NQDTDDDG_ 0 0 0 REV__nc|ENSG00000173230|Q14789|GOLGB1 REV__nc|ENSG00000173230|Q14789|GOLGB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 440.1501159667969 2 440.151768 878.288984 NaN NaN NaN NaN NaN NaN NaN 70.84 1 71.543 71.043 72.043 0.70386 0 0 0 0.99035 1 33978 33978 0.79363 0.10326 1 + 21350 13591 13437 13493 24880 24880 -0.15502896202656302 NQELLVVIL 9 Unmodified _NQELLVVIL_ 0 0 0 REV__ENST00000558202.1_1_15:35240356-35256599:-|nuORF REV__ENST00000558202.1_1_15:35240356-35256599:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.55145263671875 3 347.549859 1039.62775 2.4893 0.00086515 0.88518 0.00030764 3.3745 0.0011728 347.5501702685211 14.877 0.32809 15.531 15.392 15.72 0.65356 43 28 2 0 0 0 0.94779 1 6705 6705 4.897 0 1 203910 + 21351 17341 13438 13494 24881 24881 0.10951773171245804 NQFHETDM 8 Unmodified _NQFHETDM_ 0 0 0 REV__nc|ENSG00000038945|P21757-2|MSR1 REV__nc|ENSG00000038945|P21757-2|MSR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 341.1392517089844 3 341.139641 1020.39709 NaN NaN NaN NaN NaN NaN NaN 64.662 1 65.377 64.877 65.877 0.71521 0 0 0 0.99035 1 30474 30474 1.6526 0 1 + 21352 10308 13439 13495 24882 24882 -0.11228803153073841 NQFHLKLL 8 Unmodified _NQFHLKLL_ 0 0 0 Harlequin-int_dup434|chr17:80408952-80412448:+|1.933741223792221|0.062102870221105|4.96|534.0|77|3|sense Harlequin-int_dup434|chr17:80408952-80412448:+|1.933741223792221|0.062102870221105|4.96|534.0|77|3|sense Harlequin-int_dup434|chr17:80408952-80412448:+|1.933741223792221|0.062102870221105|4.96|534.0|77|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.20404052734375 3 338.202793 1011.58655 NaN NaN NaN NaN NaN NaN NaN 44.749 1 45.399 44.899 45.899 0.64998 0 0 0 0.99035 1 20510 20510 1.6526 0.32309 1 21353 9387 13440 13496 24883 24883 0.08122056922411502 NQFLLQYLRRQ 11 Unmodified _NQFLLQYLRRQ_ 0 0 0 ENSG00000133101|ENST00000255465|CCNA1;nc|ENSG00000133101|P78396-2|CCNA1;nc|ENSG00000133101|P78396|CCNA1 ENSG00000133101|ENST00000255465|CCNA1 ENSG00000133101|ENST00000255465|CCNA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 493.6138000488281 3 493.612404 1477.81538 NaN NaN NaN NaN NaN NaN NaN 76.266 1 76.266 75.766 76.766 0 0 0 0 1.008 1 37373 37373 0.094841 0.011491 1 21354 2748 13441 13497 24884 24884 0.09558604428480066 NQFPLPSRI 9 Unmodified _NQFPLPSRI_ 0 0 0 REV__ENST00000463118.1_1_7:91729006-91736737:+|nuORF REV__ENST00000463118.1_1_7:91729006-91736737:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.8708190917969 3 357.869703 1070.58728 NaN NaN NaN NaN NaN NaN NaN 70.739 1 70.995 70.495 71.495 0.25642 0 0 0 0.89683 1 32396 32396 2.4985 0.84587 1 + 21355 11749 13442 13498 24885 24885 0.054808515714512396 NQFWYKYTYME 11 Unmodified _NQFWYKYTYME_ 0 0 0 ENSG00000101343|ENST00000536226|CRNKL1;nc|ENSG00000101343|Q9BZJ0-3|CRNKL1;nc|ENSG00000101343|Q9BZJ0|CRNKL1 ENSG00000101343|ENST00000536226|CRNKL1 ENSG00000101343|ENST00000536226|CRNKL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 786.8448486328125 2 786.845027 1571.6755 NaN NaN NaN NaN NaN NaN NaN 47.784 1 47.784 47.284 48.284 0 0 0 0 1.0082 1 21883 21883 0 0 1 21356 1285 13443 13499 24886 24886 -0.08746940690912197 NQGADCNCYYQ 11 Unmodified _NQGADCNCYYQ_ 0 0 0 REV__ENSG00000154529|ENST00000377561|CNTNAP3B REV__ENSG00000154529|ENST00000377561|CNTNAP3B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 426.8226013183594 3 426.821984 1277.44412 NaN NaN NaN NaN NaN NaN NaN 80.37 1 80.619 80.119 81.119 0.24947 0 0 0 1.008 1 37005 37005 0.094841 0.011491 1 + 21357 12711 13444 13500 24887 24887 -0.18350311664244146 NQGEMDMD 8 Unmodified _NQGEMDMD_ 0 0 0 REV__ENSG00000130758|ENST00000253055|MAP3K10 REV__ENSG00000130758|ENST00000253055|MAP3K10 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.0443420410156 2 470.162767 938.310982 2.7488 0.0012924 -1.096 -0.00051529 1.6529 0.00077711 470.1621782540651 52.6 0.40899 53.261 52.975 53.384 0.66198 50 21 3 0 0 0 0.14333 1 23947 23947 0.79363 0 1 3871600 + 21358 11830 13445 13501 24888 24888 -0.16064131050097785 NQGPDGDD 8 Unmodified _NQGPDGDD_ 0 0 0 REV__ENST00000487162.1_1_22:50966877-50967150:-|nuORF REV__ENST00000487162.1_1_22:50966877-50967150:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.1519775390625 2 409.151571 816.28859 NaN NaN NaN NaN NaN NaN NaN 82.416 1 83.077 82.577 83.577 0.66019 0 0 0 0.99035 1 37973 37973 0.79363 0.79363 1 + 21359 16764 13446 13502 24889 24889 -0.1269027113185075 NQGSEKLV 8 Unmodified _NQGSEKLV_ 0 0 0 ENST00000515226.5_1_5:71516738-71522904:-|nuORF;ENSG00000113048|ENST00000261413|MRPS27;nc|ENSG00000113048|Q92552-2|MRPS27 ENST00000515226.5_1_5:71516738-71522904:-|nuORF ENST00000515226.5_1_5:71516738-71522904:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.4350280761719 2 437.735074 873.455596 NaN NaN NaN NaN NaN NaN NaN 76.719 1 77.343 76.843 77.843 0.62397 0 0 0 0.99035 1 37194 37194 2.3027 0 1 21360 1831 13447 13503 24890 24890 0.013806214837131847 NQISRVPN 8 Unmodified _NQISRVPN_ 0 0 0 ENSG00000122176|ENST00000354955|FMOD ENSG00000122176|ENST00000354955|FMOD ENSG00000122176|ENST00000354955|FMOD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.2557067871094 2 464.253966 926.493378 3.1734 0.0014733 0.44 0.00020427 3.6134 0.0016775 464.2540993711806 91.273 0.4247 91.524 91.328 91.752 0.25163 44 17 4 0 0 0 0.71384 1 41994 41994 4.756 2.1785 1 3301800 21361 2258 13448 13504 24891 24891 0.027191324691784757 NQISRVPN 8 Unmodified _NQISRVPN_ 0 0 0 ENSG00000122176|ENST00000354955|FMOD ENSG00000122176|ENST00000354955|FMOD ENSG00000122176|ENST00000354955|FMOD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.2554016113281 2 464.253966 926.493378 2.9937 0.0013898 -0.0012932 -6.0039E-07 2.9924 0.0013892 464.2538367504069 90.861 0.45721 91.534 91.307 91.764 0.67271 74 25 4 0 0 0 0.71384 2 41807 41807;41848 4.756 2.4533 1 2775500 21362 2258 13448 13504 24892;24893 24892 0.027191324691784757 NQKINPVI 8 Unmodified _NQKINPVI_ 0 0 0 REV__ENST00000474517.1_1_X:107167574-107169532:+|nuORF REV__ENST00000474517.1_1_X:107167574-107169532:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.2783508300781 2 463.276909 924.539266 NaN NaN NaN NaN NaN NaN NaN 53.955 1 54.22 53.72 54.72 0.26462 0 0 0 0.86133 1 24673 24673 19.439 0 1 + 21363 10594 13449 13505 24894 24894 0.07397777651419801 NQKLKKLF 8 Unmodified _NQKLKKLF_ 0 0 0 REV__L1PA15_dup628|chr2:34747347-34748523:+|1.664451808161501|0.1605763786806046|3.37|528.0|10|1|sense REV__L1PA15_dup628|chr2:34747347-34748523:+|1.664451808161501|0.1605763786806046|3.37|528.0|10|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 340.2101135253906 3 340.218443 1017.6335 NaN NaN NaN NaN NaN NaN NaN 83.589 1 84.251 83.751 84.751 0.66219 0 0 0 0.99035 1 38500 38500 0.45834 0 1 + 21364 17782 13450 13506 24895 24895 0.12538916473556583 NQKQKSSCFLS 11 Unmodified _NQKQKSSCFLS_ 0 0 0 REV__ENST00000358689.8_2_8:23290247-23290583:-|nuORF REV__ENST00000358689.8_2_8:23290247-23290583:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 635.31689453125 2 635.316437 1268.61832 NaN NaN NaN NaN NaN NaN NaN 53.555 1 53.82 53.32 54.32 0.26462 0 0 0 1.0041 1 24493 24493 5.2969 1.7004 1 + 21365 15583 13451 13507 24896 24896 -0.005243631765779355 NQKRKREEQQR 11 Unmodified _NQKRKREEQQR_ 0 0 0 REV__ENSG00000135837|ENST00000367607|CEP350 REV__ENSG00000135837|ENST00000367607|CEP350 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.6127014160156 3 500.609833 1498.80767 NaN NaN NaN NaN NaN NaN NaN 69.9 1 70.561 70.061 71.061 0.66071 0 0 0 1.0079 1 32049 32049 0.50596 0.051438 1 + 21366 12040 13452 13508 24897 24897 0.07821845160924568 NQKVTKWSF 9 Unmodified _NQKVTKWSF_ 0 0 0 REV__nc|ENSG00000133687|Q8IUR5-3|TMTC1 REV__nc|ENSG00000133687|Q8IUR5-3|TMTC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.8624572753906 3 379.873224 1136.59784 2.8831 0.0010952 -0.21593 -8.2026E-05 2.6672 0.0010132 379.8732005118237 26.608 0.46991 26.608 26.446 26.916 0 93 37 3 0 0 0 0.59921 1 12080 12080 10.8 0 1 1269400 + 21367 11940 13453 13509 24898 24898 0.035008342259061465 NQKVTKWSF 9 Unmodified _NQKVTKWSF_ 0 0 0 REV__nc|ENSG00000133687|Q8IUR5-3|TMTC1 REV__nc|ENSG00000133687|Q8IUR5-3|TMTC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.8623962402344 3 379.873224 1136.59784 2.8048 0.0010655 0.27112 0.00010299 3.0759 0.0011685 379.873286543147 26.559 0.51155 26.824 26.608 27.119 0.26489 78 35 3 0 0 0 0.59921 1 12167 12167 10.8 1.8233 1 475070 + 21368 11940 13453 13509 24899 24899 0.035008342259061465 NQLALRKG 8 Unmodified _NQLALRKG_ 0 0 0 ENST00000439768.2_1_5:153433260-153433407:+|nuORF ENST00000439768.2_1_5:153433260-153433407:+|nuORF ENST00000439768.2_1_5:153433260-153433407:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.2760925292969 2 450.274701 898.534849 2.3708 0.0010675 0.26678 0.00012013 2.6376 0.0011876 450.2747576375502 89.089 0.40902 89.089 88.882 89.291 0 127 60 3 0 0 0 0.74071 1 46327 46327 2.5775 0 1 41634000 21369 7926 13454 13510 24900 24900 0.08152313228515595 NQLKKIIKRK 10 Unmodified _NQLKKIIKRK_ 0 0 0 ENST00000489491.1_1_10:119049852-119133991:-|nuORF;ENSG00000165650|ENST00000334464|PDZD8 ENST00000489491.1_1_10:119049852-119133991:-|nuORF ENST00000489491.1_1_10:119049852-119133991:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 423.6222839355469 3 423.622351 1267.84522 NaN NaN NaN NaN NaN NaN NaN 74.33 1 74.994 74.494 75.494 0.6644 0 0 0 1.0018 1 34212 34212 0.15932 0.036457 1 21370 4413 13455 13511 24901 24901 0.22201588164489294 NQLLVLSS 8 Unmodified _NQLLVLSS_ 0 0 0 REV__ENST00000262345.5_1_1:67787503-67793884:+|nuORF REV__ENST00000262345.5_1_1:67787503-67793884:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.258056640625 2 437.255643 872.496732 NaN NaN NaN NaN NaN NaN NaN 92.356 1 92.608 92.108 93.108 0.25253 0 0 0 0.99035 1 42457 42457 2.3027 0 1 + 21371 14980 13456 13512 24902 24902 0.05538382523195651 NQLMRQLQR 9 Unmodified _NQLMRQLQR_ 0 0 0 ENSG00000166164|ENST00000394688|BRD7;nc|ENSG00000166164|Q9NPI1-2|BRD7;BRD7|p.F178Vfs*5|1|0.33|ENSG00000166164|chr16:50350082-50350083|-/AC|frameshift_variant;ENST00000299197.6_1_13:95410637-95411129:-|nuORF ENSG00000166164|ENST00000394688|BRD7 ENSG00000166164|ENST00000394688|BRD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 396.22113037109375 3 396.22063 1185.64006 2.8651 0.0011352 0.37052 0.00014681 3.2356 0.001282 396.22071377454347 54.421 0.6805 54.421 54.138 54.819 0 96 65 2 0 0 0 1.0755 2 25054 25054;25106 2.7352 0.64919 1 1481600 21372 4455 13457 13513 24903;24904 24903 0.05466486362615797 NQLMRQLQR 9 Unmodified _NQLMRQLQR_ 0 0 0 ENSG00000166164|ENST00000394688|BRD7;nc|ENSG00000166164|Q9NPI1-2|BRD7;BRD7|p.F178Vfs*5|1|0.33|ENSG00000166164|chr16:50350082-50350083|-/AC|frameshift_variant;ENST00000299197.6_1_13:95410637-95411129:-|nuORF ENSG00000166164|ENST00000394688|BRD7 ENSG00000166164|ENST00000394688|BRD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 396.221435546875 3 396.22063 1185.64006 2.4206 0.00095908 0.18708 7.4125E-05 2.6077 0.0010332 396.2205496126613 53.348 0.4351 54.152 53.952 54.387 0.80351 92 41 3 0 0 0 1.0755 2 24294 24294;24342 2.7352 0.99292 1 1409700 21373 4455 13457 13513 24905;24906 24905 0.05466486362615797 NQLMRQLQR 9 Unmodified _NQLMRQLQR_ 0 0 0 ENSG00000166164|ENST00000394688|BRD7;nc|ENSG00000166164|Q9NPI1-2|BRD7;BRD7|p.F178Vfs*5|1|0.33|ENSG00000166164|chr16:50350082-50350083|-/AC|frameshift_variant;ENST00000299197.6_1_13:95410637-95411129:-|nuORF ENSG00000166164|ENST00000394688|BRD7 ENSG00000166164|ENST00000394688|BRD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 396.221923828125 3 396.22063 1185.64006 2.3247 0.0009211 0.8491 0.00033643 3.1738 0.0012575 396.2208872315016 53.738 0.78128 54.542 54.447 55.228 0.80351 112 42 3 0 0 0 1.0755 3 24555 24555;24654;24703 2.7352 0.99292 1 817910 21374 4455 13457 13513 24907;24908;24909 24907 0.05466486362615797 NQLMRQLQR 9 Unmodified _NQLMRQLQR_ 0 0 0 ENSG00000166164|ENST00000394688|BRD7;nc|ENSG00000166164|Q9NPI1-2|BRD7;BRD7|p.F178Vfs*5|1|0.33|ENSG00000166164|chr16:50350082-50350083|-/AC|frameshift_variant;ENST00000299197.6_1_13:95410637-95411129:-|nuORF ENSG00000166164|ENST00000394688|BRD7 ENSG00000166164|ENST00000394688|BRD7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 396.22174072265625 3 396.22063 1185.64006 NaN NaN NaN NaN NaN NaN NaN 53.575 1 54.379 53.879 54.879 0.80351 0 0 0 0.90335 1 24444 24444 2.7352 0.99292 1 21375 4455 13457 13513 24910 24910 0.05466486362615797 NQLMRQLQR 9 Unmodified _NQLMRQLQR_ 0 0 0 ENSG00000166164|ENST00000394688|BRD7;nc|ENSG00000166164|Q9NPI1-2|BRD7;BRD7|p.F178Vfs*5|1|0.33|ENSG00000166164|chr16:50350082-50350083|-/AC|frameshift_variant;ENST00000299197.6_1_13:95410637-95411129:-|nuORF ENSG00000166164|ENST00000394688|BRD7 ENSG00000166164|ENST00000394688|BRD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 396.2220458984375 3 396.22063 1185.64006 2.8655 0.0011354 0.6803 0.00026955 3.5458 0.0014049 396.2207772147545 54.237 1.1345 54.502 53.776 54.91 0.26462 127 50 3 0 0 0 1.0755 3 24759 24759;24801;24936 2.7352 1.2801 1 1083800 21376 4455 13457 13513 24911;24912;24913 24911 0.05466486362615797 NQLMRQLQR 9 Unmodified _NQLMRQLQR_ 0 0 0 ENSG00000166164|ENST00000394688|BRD7;nc|ENSG00000166164|Q9NPI1-2|BRD7;BRD7|p.F178Vfs*5|1|0.33|ENSG00000166164|chr16:50350082-50350083|-/AC|frameshift_variant;ENST00000299197.6_1_13:95410637-95411129:-|nuORF ENSG00000166164|ENST00000394688|BRD7 ENSG00000166164|ENST00000394688|BRD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 396.2218933105469 3 396.22063 1185.64006 2.7241 0.0010794 0.51034 0.00020221 3.2345 0.0012816 396.2206984340517 53.545 0.8049 54.209 53.711 54.516 0.6644 99 38 3 0 0 0 1.0755 3 24482 24482;24533;24585 2.7352 0.99292 1 1656500 21377 4455 13457 13513 24914;24915;24916 24914 0.05466486362615797 NQLMRQLQR 9 Unmodified _NQLMRQLQR_ 0 0 0 ENSG00000166164|ENST00000394688|BRD7;nc|ENSG00000166164|Q9NPI1-2|BRD7;BRD7|p.F178Vfs*5|1|0.33|ENSG00000166164|chr16:50350082-50350083|-/AC|frameshift_variant;ENST00000299197.6_1_13:95410637-95411129:-|nuORF ENSG00000166164|ENST00000394688|BRD7 ENSG00000166164|ENST00000394688|BRD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 396.2216491699219 3 396.22063 1185.64006 2.7483 0.0010889 0.18223 7.2203E-05 2.9305 0.0011611 396.22073207120764 54.107 0.48563 54.774 54.619 55.105 0.6665 51 29 2 0 0 0 1.0755 1 24841 24841 2.7352 0.10396 1 2037700 21378 4455 13457 13513 24917 24917 0.05466486362615797 NQMDLKLNLHL 11 Unmodified _NQMDLKLNLHL_ 0 0 0 REV__PCNT|p.S3190Lfs*20|1|0.06|ENSG00000160299|chr21:46441029-46441030|-/TAACA|frameshift_variant REV__PCNT|p.S3190Lfs*20|1|0.06|ENSG00000160299|chr21:46441029-46441030|-/TAACA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 446.77374267578125 3 446.911462 1337.71256 NaN NaN NaN NaN NaN NaN NaN 67.822 1 68.524 68.024 69.024 0.70218 0 0 0 1.0072 1 32283 32283 1.3296 0.63198 1 + 21379 12873 13458 13514 24918 24918 0.057207756455227354 NQMKLRSGPR 10 Unmodified _NQMKLRSGPR_ 0 0 0 REV__nc|ENSG00000144331|Q569K4-4|ZNF385B REV__nc|ENSG00000144331|Q569K4-4|ZNF385B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 396.2215881347656 3 396.22063 1185.64006 2.9969 0.0011874 0.1923 7.6194E-05 3.1892 0.0012636 396.2207161244767 54.083 0.11289 54.083 54.049 54.162 0 16 10 2 0 0 0 0.93726 1 24799 24799 1.4551 0.26178 1 557110 + 21380 12398 13459 13515 24919 24919 0.05466486362638534 NQMKLRSGPR 10 Unmodified _NQMKLRSGPR_ 0 0 0 REV__nc|ENSG00000144331|Q569K4-4|ZNF385B REV__nc|ENSG00000144331|Q569K4-4|ZNF385B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 396.221923828125 3 396.22063 1185.64006 2.8655 0.0011354 0.6803 0.00026955 3.5458 0.0014049 396.2207772147545 54.237 1.1345 54.502 53.776 54.91 0.26462 127 50 3 0 0 0 0.93726 1 24602 24602 1.4551 0.24029 1 1083800 + 21381 12398 13459 13515 24920 24920 0.05466486362638534 NQNGGNDD 8 Unmodified _NQNGGNDD_ 0 0 0 ENSG00000047621|ENST00000261250|C12orf4 ENSG00000047621|ENST00000261250|C12orf4 ENSG00000047621|ENST00000261250|C12orf4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 417.1548156738281 2 417.154645 832.294738 NaN NaN NaN NaN NaN NaN NaN 74.25 1 74.937 74.437 75.437 0.68662 0 0 0 0.99035 1 35883 35883 0.79363 0 1 21382 561 13460 13516 24921 24921 -0.1281175290033616 NQNGGNDD 8 Unmodified _NQNGGNDD_ 0 0 0 ENSG00000047621|ENST00000261250|C12orf4 ENSG00000047621|ENST00000261250|C12orf4 ENSG00000047621|ENST00000261250|C12orf4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 417.15594482421875 2 417.154645 832.294738 NaN NaN NaN NaN NaN NaN NaN 74.474 1 74.732 74.232 75.232 0.25831 0 0 0 0.99035 1 34255 34255 0.79363 0 1 21383 561 13460 13516 24922 24922 -0.1281175290033616 NQNGGNDD 8 Unmodified _NQNGGNDD_ 0 0 0 ENSG00000047621|ENST00000261250|C12orf4 ENSG00000047621|ENST00000261250|C12orf4 ENSG00000047621|ENST00000261250|C12orf4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 417.15533447265625 2 417.154645 832.294738 NaN NaN NaN NaN NaN NaN NaN 83.323 1 83.57 83.07 84.07 0.24722 0 0 0 0.99035 1 38354 38354 0.79363 0.10326 1 21384 561 13460 13516 24923 24923 -0.1281175290033616 NQNGGNDD 8 Unmodified _NQNGGNDD_ 0 0 0 ENSG00000047621|ENST00000261250|C12orf4 ENSG00000047621|ENST00000261250|C12orf4 ENSG00000047621|ENST00000261250|C12orf4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 417.155517578125 2 417.154645 832.294738 NaN NaN NaN NaN NaN NaN NaN 85.097 1 85.344 84.844 85.844 0.24757 0 0 0 0.99035 1 39161 39161 0.79363 0.10326 1 21385 561 13460 13516 24924 24924 -0.1281175290033616 NQNGGNDD 8 Unmodified _NQNGGNDD_ 0 0 0 ENSG00000047621|ENST00000261250|C12orf4 ENSG00000047621|ENST00000261250|C12orf4 ENSG00000047621|ENST00000261250|C12orf4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 417.1560363769531 2 417.154645 832.294738 NaN NaN NaN NaN NaN NaN NaN 85.236 1 85.484 84.984 85.984 0.24857 0 0 0 0.99035 1 39225 39225 0.79363 0.10326 1 21386 561 13460 13516 24925 24925 -0.1281175290033616 NQNGGNDD 8 Unmodified _NQNGGNDD_ 0 0 0 ENSG00000047621|ENST00000261250|C12orf4 ENSG00000047621|ENST00000261250|C12orf4 ENSG00000047621|ENST00000261250|C12orf4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 417.1556396484375 2 417.154645 832.294738 NaN NaN NaN NaN NaN NaN NaN 72.242 1 72.905 72.405 73.405 0.66324 0 0 0 0.99035 1 33126 33126 0.79363 0 1 21387 561 13460 13516 24926 24926 -0.1281175290033616 NQNGGNDD 8 Unmodified _NQNGGNDD_ 0 0 0 ENSG00000047621|ENST00000261250|C12orf4 ENSG00000047621|ENST00000261250|C12orf4 ENSG00000047621|ENST00000261250|C12orf4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 417.2408142089844 2 417.154645 832.294738 NaN NaN NaN NaN NaN NaN NaN 82.859 1 83.519 83.019 84.019 0.66019 0 0 0 0.99035 1 38178 38178 0.79363 0.10326 1 21388 561 13460 13516 24927 24927 -0.1281175290033616 NQPHRKTKITF 11 Unmodified _NQPHRKTKITF_ 0 0 0 ENSG00000273136|ENST00000620612|NBPF26;ENSG00000162825|ENST00000698833|NBPF20;ENST00000491285.1_1:146215077-146250826:-|nuORF;ENSG00000271383|ENST00000651566|NBPF19;ENSG00000263956|ENST00000682118|NBPF11;nc|ENSG00000270231|Q3BBV2|NBPF8;nc|ENSG00000273136|B4DH59|NBPF26;nc|ENSG00000270629|Q5TI25|NBPF14;nc|ENSG00000269713|P0DPF3-2|NBPF9;ENSG00000269713|ENST00000698832|NBPF9;ENSG00000271425|ENST00000583866|NBPF10;ENSG00000270629|ENST00000619423|NBPF14;ENSG00000268043|ENST00000698835|NBPF12;ENST00000472811.1_1:144816515-144818018:+|nuORF;nc|ENSG00000219481|Q3BBV0|NBPF1;nc|ENSG00000263956|Q86T75-2|NBPF11;ENSG00000219481|ENST00000430580|NBPF1 ENSG00000273136|ENST00000620612|NBPF26 ENSG00000273136|ENST00000620612|NBPF26 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.3929443359375 2 685.388585 1368.76262 NaN NaN NaN NaN NaN NaN NaN 66.878 1 67.128 66.628 67.628 0.2501 0 0 0 1.0038 1 30636 30636 5.7319 1.7875 1 21389 6336 13461 13517 24928 24928 0.09298646365664354 NQQITKLKIER 11 Unmodified _NQQITKLKIER_ 0 0 0 nc|ENSG00000122145|Q9Y458-2|TBX22;ENSG00000122145|ENST00000373296|TBX22 nc|ENSG00000122145|Q9Y458-2|TBX22 nc|ENSG00000122145|Q9Y458-2|TBX22 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.6095275878906 3 457.608659 1369.80415 3.3874 0.0015501 -0.75902 -0.00034733 2.6284 0.0012028 457.60827185939223 93.526 1.3966 93.781 93.308 94.704 0.25497 102 68 2 0 0 0 0.91378 1 43090 43090 0.094841 0 1 481500 21390 2257 13462 13518 24929 24929 0.13403782334330572 NQRRNKRLRMR 11 Unmodified _NQRRNKRLRMR_ 0 0 0 ENST00000544803.5_1_2:176794774-176794831:-|nuORF ENST00000544803.5_1_2:176794774-176794831:-|nuORF ENST00000544803.5_1_2:176794774-176794831:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 764.444091796875 2 764.447308 1526.88006 NaN NaN NaN NaN NaN NaN NaN 59.789 1 60.538 60.038 61.038 0.74927 0 0 0 1.008 1 27473 27473 0.30703 0.03801 1 21391 8838 13463 13519 24930 24930 0.13769900753482034 NQTCTART 8 Unmodified _NQTCTART_ 0 0 0 ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 447.6739196777344 2 447.708534 893.402514 NaN NaN NaN NaN NaN NaN NaN 73.6 1 73.859 73.359 74.359 0.25876 0 0 0 0.99035 1 33809 33809 4.3292 1.7518 1 21392 4647 13464 13520 24931 24931 -0.04845079570611688 NQVIAWILLD 10 Unmodified _NQVIAWILLD_ 0 0 0 REV__ENSG00000142185|ENST00000397928|TRPM2 REV__ENSG00000142185|ENST00000397928|TRPM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.56201171875 3 395.560646 1183.66011 2.8649 0.0011332 0.77475 0.00030646 3.6397 0.0014397 395.5609876725587 64.41 0.46595 64.658 64.253 64.719 0.24802 55 28 2 0 0 0 0.90859 1 29434 29434 1.5923 0.37745 1 668880 + 21393 12317 13465 13521 24932 24932 0.0756256057425162 NQVIAWILLD 10 Unmodified _NQVIAWILLD_ 0 0 0 REV__ENSG00000142185|ENST00000397928|TRPM2 REV__ENSG00000142185|ENST00000397928|TRPM2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 395.560646 1183.66011 2.8819 0.00114 0.97504 0.00038569 3.8569 0.0015257 395.56106789111533 63.746 0.63227 64.402 64.039 64.671 0.65672 -0.12784 0.00011935 NaN 1.5923 71 44 2 NaN NaN NaN NaN 0 NaN NaN 0 725390 + 21394 12317 13465 13521 0.0756256057425162 NQVIIPLVL 9 Unmodified _NQVIIPLVL_ 0 0 0 ENST00000473560.1_1_1:43852218-43853308:-|nuORF;ENSG00000159479|ENST00000372457|MED8;nc|ENSG00000159479|Q96G25-2|MED8 ENST00000473560.1_1_1:43852218-43853308:-|nuORF ENST00000473560.1_1_1:43852218-43853308:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 336.8863220214844 3 336.886582 1007.63792 NaN NaN NaN NaN NaN NaN NaN 2.6723 1 2.6723 2.1723 3.1723 0 0 0 0 0.91342 1 1217 1217 0.26902 0 1 21395 4027 13466 13522 24933 24933 0.13440380896463466 NQVKKTLI 8 Unmodified _NQVKKTLI_ 0 0 0 REV__ENST00000260731.4_1_10:94405169-94405247:+|nuORF REV__ENST00000260731.4_1_10:94405169-94405247:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 315.20477294921875 3 315.202682 942.586216 NaN NaN NaN NaN NaN NaN NaN 24.213 1 24.484 23.984 24.984 0.27129 0 0 0 0.99035 1 10964 10964 1.6526 0.17072 1 + 21396 14957 13467 13523 24934 24934 0.11262637202582937 NQVQYIISQ 9 Unmodified _NQVQYIISQ_ 0 0 0 nc|ENSG00000198026|Q9H4Z2-2|ZNF335;ENSG00000198026|ENST00000322927|ZNF335 nc|ENSG00000198026|Q9H4Z2-2|ZNF335 nc|ENSG00000198026|Q9H4Z2-2|ZNF335 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.212890625 3 364.860984 1091.56112 2.4172 0.00088196 -1.4712 -0.00053677 0.94607 0.00034519 365.1956938402119 53.712 0.46686 54.376 54.024 54.491 0.6644 27 23 2 0 0 0 0.11293 1 24529 24529 2.4985 2.0401 1 223420 21397 5858 13468 13524 24935 24935 0.019005376093446102 NQWSVNHD 8 Unmodified _NQWSVNHD_ 0 0 0 ENSG00000138061|ENST00000610745|CYP1B1 ENSG00000138061|ENST00000610745|CYP1B1 ENSG00000138061|ENST00000610745|CYP1B1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.9904479980469 2 500.21758 998.420607 NaN NaN NaN NaN NaN NaN NaN 69.781 1 70.441 69.941 70.941 0.66071 0 0 0 0.99035 1 31994 31994 2.5775 0.27475 1 21398 3066 13469 13525 24936 24936 -0.07866621324239986 NRALLPWL 8 Unmodified _NRALLPWL_ 0 0 0 ENST00000480460.1_1_22:20103056-20103595:-|nuORF;ENST00000494641.1_1_22:20103119-20103621:-|nuORF;ENST00000468917.1_1_22:20103119-20104069:-|nuORF;nc|ENSG00000099899|Q8IZ69-2|TRMT2A;ENSG00000099899|ENST00000252136|TRMT2A ENST00000480460.1_1_22:20103056-20103595:-|nuORF ENST00000480460.1_1_22:20103056-20103595:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.7987060546875 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 58.526 1 58.526 58.026 59.026 0 0 0 0 0.99035 1 27013 27013 5.2307 0.47466 1 21399 1158 13470 13526 24937 24937 0.08446074267976655 NRALLPWL 8 Unmodified _NRALLPWL_ 0 0 0 ENST00000480460.1_1_22:20103056-20103595:-|nuORF;ENST00000494641.1_1_22:20103119-20103621:-|nuORF;ENST00000468917.1_1_22:20103119-20104069:-|nuORF;nc|ENSG00000099899|Q8IZ69-2|TRMT2A;ENSG00000099899|ENST00000252136|TRMT2A ENST00000480460.1_1_22:20103056-20103595:-|nuORF ENST00000480460.1_1_22:20103056-20103595:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.7989807128906 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 58.673 1 58.673 58.173 59.173 0 0 0 0 0.99035 1 27085 27085 5.2307 0.90143 1 21400 1158 13470 13526 24938 24938 0.08446074267976655 NRALLPWL 8 Unmodified _NRALLPWL_ 0 0 0 ENST00000480460.1_1_22:20103056-20103595:-|nuORF;ENST00000494641.1_1_22:20103119-20103621:-|nuORF;ENST00000468917.1_1_22:20103119-20104069:-|nuORF;nc|ENSG00000099899|Q8IZ69-2|TRMT2A;ENSG00000099899|ENST00000252136|TRMT2A ENST00000480460.1_1_22:20103056-20103595:-|nuORF ENST00000480460.1_1_22:20103056-20103595:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7981262207031 2 491.795269 981.575986 3.353 0.001649 1.021 0.00050214 4.374 0.0021511 491.79567608462355 42.608 0.6832 43.255 42.888 43.571 0.64693 103 56 2 0 0 0 0.70146 1 19440 19440 5.7604 1.0044 1 4064700 21401 1158 13470 13526 24939 24939 0.08446074267976655 NRALLPWL 8 Unmodified _NRALLPWL_ 0 0 0 ENST00000480460.1_1_22:20103056-20103595:-|nuORF;ENST00000494641.1_1_22:20103119-20103621:-|nuORF;ENST00000468917.1_1_22:20103119-20104069:-|nuORF;nc|ENSG00000099899|Q8IZ69-2|TRMT2A;ENSG00000099899|ENST00000252136|TRMT2A ENST00000480460.1_1_22:20103056-20103595:-|nuORF ENST00000480460.1_1_22:20103056-20103595:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7978515625 2 491.795269 981.575986 3.2172 0.0015822 1.4403 0.00070832 4.6575 0.0022905 491.79603342402265 59.031 0.6944 59.698 59.245 59.939 0.66703 50 32 2 0 0 0 0.70146 1 27113 27113 5.7604 0.52976 1 755990 21402 1158 13470 13526 24940 24940 0.08446074267976655 NRALLPWL 8 Unmodified _NRALLPWL_ 0 0 0 ENST00000480460.1_1_22:20103056-20103595:-|nuORF;ENST00000494641.1_1_22:20103119-20103621:-|nuORF;ENST00000468917.1_1_22:20103119-20104069:-|nuORF;nc|ENSG00000099899|Q8IZ69-2|TRMT2A;ENSG00000099899|ENST00000252136|TRMT2A ENST00000480460.1_1_22:20103056-20103595:-|nuORF ENST00000480460.1_1_22:20103056-20103595:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7977294921875 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 57.764 1 58.433 57.933 58.933 0.66829 0 0 0 0.99035 1 26434 26434 5.2307 0.47466 1 21403 1158 13470 13526 24941 24941 0.08446074267976655 NRDLRNSQRN 10 Unmodified _NRDLRNSQRN_ 0 0 0 nc|ENSG00000108021|Q5VWN6-2|TASOR2;ENSG00000108021|ENST00000695737|TASOR2 nc|ENSG00000108021|Q5VWN6-2|TASOR2 nc|ENSG00000108021|Q5VWN6-2|TASOR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 636.8297119140625 2 636.829423 1271.64429 NaN NaN NaN NaN NaN NaN NaN 102.48 1 102.79 102.29 103.29 0.31737 0 0 0 0.99812 1 47400 47400 3.2813 0.28607 1 21404 1619 13471 13527 24942 24942 0.019336671098926672 NRELSLQL 8 Unmodified _NRELSLQL_ 0 0 0 REV__AMOTL2|p.P273Lfs*13|1|0.17|ENSG00000114019|chr3:134367720-134367720|G/-|frameshift_variant REV__AMOTL2|p.P273Lfs*13|1|0.17|ENSG00000114019|chr3:134367720-134367720|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.8545837402344 3 324.853941 971.539994 2.1616 0.00070222 0.9332 0.00030315 3.0948 0.0010054 324.85431607187024 17.973 0.22387 18.274 18.111 18.335 0.30158 29 19 2 0 0 0 0.70717 1 8140 8140 5.2969 0 1 161760 + 21405 9961 13472 13528 24943 24943 0.05308572300486958 NREVRPLRK 9 Unmodified _NREVRPLRK_ 0 0 0 ENSG00000102781|ENST00000380615|KATNAL1 ENSG00000102781|ENST00000380615|KATNAL1 ENSG00000102781|ENST00000380615|KATNAL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.3582763671875 2 584.357088 1166.69962 4.2931 0.0025087 -0.97619 -0.00057045 3.3169 0.0019382 584.3563138329143 103.02 0.16711 103.34 103.26 103.42 0.31863 13 5 3 0 0 0 1.2078 1 47644 47644 0.6015 0 1 1681800 21406 1353 13473 13529 24944 24944 0.12294125368293862 NRFQIIWLFVF 11 Unmodified _NRFQIIWLFVF_ 0 0 0 ENST00000560002.5_1_15:56945693-56945987:-|nuORF ENST00000560002.5_1_15:56945693-56945987:-|nuORF ENST00000560002.5_1_15:56945693-56945987:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 741.91796875 2 741.916447 1481.81834 NaN NaN NaN NaN NaN NaN NaN 108.26 1 108.87 108.37 109.37 0.6019 0 0 0 1.008 1 49954 49954 0.35063 0 1 21407 8969 13474 13530 24945 24945 0.09670479553301448 NRFVGRKR 8 Unmodified _NRFVGRKR_ 0 0 0 REV__ENSG00000243811|ENST00000216099|APOBEC3D REV__ENSG00000243811|ENST00000216099|APOBEC3D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.8141479492188 2 516.812316 1031.61008 3.6327 0.0018774 -0.48386 -0.00025006 3.1488 0.0016273 516.8123873425444 100.16 0.10597 100.76 100.68 100.79 0.59717 8 3 3 0 0 0 0.70146 1 46365 46365 5.7604 3.1829 1 1603400 + 21408 14632 13475 13531 24946 24946 0.09553915479591524 NRFVGRKR 8 Unmodified _NRFVGRKR_ 0 0 0 REV__ENSG00000243811|ENST00000216099|APOBEC3D REV__ENSG00000243811|ENST00000216099|APOBEC3D MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 516.812316 1031.61008 4.2744 0.0022091 -1.4326 -0.00074037 2.8419 0.0014687 516.8113960194861 100.29 0.13364 100.59 100.52 100.65 0.30835 -0.082624 -0.00030454 NaN 5.7604 9 4 3 NaN NaN NaN NaN 0 NaN NaN 0 1024000 + 21409 14632 13475 13531 0.09553915479591524 NRFVGRKR 8 Unmodified _NRFVGRKR_ 0 0 0 REV__ENSG00000243811|ENST00000216099|APOBEC3D REV__ENSG00000243811|ENST00000216099|APOBEC3D MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 516.812316 1031.61008 3.6327 0.0018774 -0.48386 -0.00025006 3.1488 0.0016273 516.8123873425444 100.16 0.10597 100.76 100.68 100.79 0.59717 0.082624 0.00067607 NaN 5.7604 8 3 3 NaN NaN NaN NaN 0 NaN NaN 0 1603400 + 21410 14632 13475 13531 0.09553915479591524 NRGINITIY 9 Unmodified _NRGINITIY_ 0 0 0 nc|ENSG00000096093|Q5JVL4-2|EFHC1;nc|ENSG00000096093|Q5JVL4-3|EFHC1;ENSG00000096093|ENST00000371068|EFHC1 nc|ENSG00000096093|Q5JVL4-2|EFHC1 nc|ENSG00000096093|Q5JVL4-2|EFHC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 532.3003540039062 2 532.298373 1062.58219 2.8447 0.0015142 0.65238 0.00034726 3.4971 0.0018615 532.2986912499613 52.71 0.19672 53.516 53.402 53.599 0.80632 19 12 2 0 0 0 0.057744 1 24008 24008 43.858 22.112 1 1056000 21411 1126 13476 13532 24947 24947 0.05340547708851773 NRGINITIY 9 Unmodified _NRGINITIY_ 0 0 0 nc|ENSG00000096093|Q5JVL4-2|EFHC1;nc|ENSG00000096093|Q5JVL4-3|EFHC1;ENSG00000096093|ENST00000371068|EFHC1 nc|ENSG00000096093|Q5JVL4-2|EFHC1 nc|ENSG00000096093|Q5JVL4-2|EFHC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 532.3002319335938 2 532.298373 1062.58219 3.1423 0.0016727 1.0514 0.00055967 4.1937 0.0022323 532.2986529489586 53.56 0.23441 53.825 53.698 53.932 0.26462 14 11 2 0 0 0 0.19064 1 24505 24505 24.021 2.2739 1 1255100 21412 1126 13476 13532 24948 24948 0.05340547708851773 NRGQFFTVY 9 Unmodified _NRGQFFTVY_ 0 0 0 ENST00000587673.5_1_19:1109158-1109530:-|nuORF;nc|ENSG00000064932|Q9Y2G9-3|SBNO2;ENSG00000064932|ENST00000361757|SBNO2 ENST00000587673.5_1_19:1109158-1109530:-|nuORF ENST00000587673.5_1_19:1109158-1109530:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.2847900390625 2 566.282723 1130.55089 NaN NaN NaN NaN NaN NaN NaN 55.141 1 55.809 55.309 56.309 0.66798 0 0 0 0.65681 1 25232 25232 13.906 3.0821 1 21413 680 13477 13533 24949 24949 -0.009160253252503026 NRHQAPSML 9 Unmodified _NRHQAPSML_ 0 0 0 nc|ENSG00000137802|O60336-2|MAPKBP1;nc|ENSG00000137802|O60336-3|MAPKBP1;ENSG00000137802|ENST00000457542|MAPKBP1;nc|ENSG00000137802|O60336|MAPKBP1;nc|ENSG00000137802|O60336-4|MAPKBP1 nc|ENSG00000137802|O60336-2|MAPKBP1 nc|ENSG00000137802|O60336-2|MAPKBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.2678833007812 2 527.26655 1052.51855 3.204 0.0016894 0.079004 4.1656E-05 3.283 0.001731 527.2665128542733 37.837 0.22271 37.837 37.765 37.987 0 14 8 2 0 0 0 0.24465 1 17184 17184 20.454 1.1966 1 298840 21414 3041 13478 13534 24950 24950 -0.005611359998965781 NRILKLLALKV 11 Unmodified _NRILKLLALKV_ 0 0 0 ENST00000523321.5_1_8:95835614-95871872:+|nuORF;nc|ENSG00000164941|Q75QN2-2|INTS8;ENSG00000164941|ENST00000523731|INTS8 ENST00000523321.5_1_8:95835614-95871872:+|nuORF ENST00000523321.5_1_8:95835614-95871872:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 640.9423828125 2 640.942465 1279.87038 NaN NaN NaN NaN NaN NaN NaN 21.403 1 21.403 20.903 21.903 0 0 0 0 1.0082 1 9582 9582 0 0 1 21415 4358 13479 13535 24951 24951 0.2416364296705069 NRIQRRYFRFF 11 Unmodified _NRIQRRYFRFF_ 0 0 0 ENST00000487362.1_1_20:36640605-36642218:-|nuORF;TTI1|p.L924Wfs*37|1|0.23|ENSG00000101407|chr20:37999211-37999211|G/-|frameshift_variant;ENSG00000101407|ENST00000373447|TTI1 ENST00000487362.1_1_20:36640605-36642218:-|nuORF ENST00000487362.1_1_20:36640605-36642218:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 801.9411010742188 2 801.94185 1601.86915 NaN NaN NaN NaN NaN NaN NaN 28.043 1 28.043 27.543 28.543 0 0 0 0 1.0082 1 12638 12638 0 0 1 21416 1291 13480 13536 24952 24952 0.0922882165084502 NRIRNYLSI 9 Unmodified _NRIRNYLSI_ 0 0 0 ENSG00000014216|ENST00000279247|CAPN1;ENST00000528165.5_1_11:64977175-64978433:+|nuORF ENSG00000014216|ENST00000279247|CAPN1 ENSG00000014216|ENST00000279247|CAPN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 383.5569763183594 3 383.556007 1147.64619 2.7799 0.0010663 0.19931 7.6448E-05 2.9792 0.0011427 383.55609294810984 30.36 0.39265 30.977 30.777 31.17 0.61737 80 26 4 0 0 0 0.26118 1 13988 13988 19.362 1.9193 1 7903200 21417 435 13481 13537 24953 24953 0.07827327865788902 NRKDLCVTCDS 11 Unmodified _NRKDLCVTCDS_ 0 0 0 REV__nc|ENSG00000132549|Q7Z7G8-3|VPS13B REV__nc|ENSG00000132549|Q7Z7G8-3|VPS13B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 627.2822265625 2 627.284279 1252.55401 NaN NaN NaN NaN NaN NaN NaN 95.097 1 95.714 95.214 96.214 0.61736 0 0 0 1.0061 1 43733 43733 2.7352 1.0826 1 + 21418 11897 13482 13538 24954 24954 -0.06216886325046289 NRKEIDLV 8 Unmodified _NRKEIDLV_ 0 0 0 REV__ENST00000492613.1_1_1:93091344-93142738:-|nuORF REV__ENST00000492613.1_1_1:93091344-93142738:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 329.52691650390625 3 329.525825 985.555644 NaN NaN NaN NaN NaN NaN NaN 23.189 1 23.83 23.33 24.33 0.64051 0 0 0 0.37748 1 10579 10579 32.786 0 1 + 21419 10451 13483 13539 24955 24955 0.06228858817519267 NRKFANSL 8 Unmodified _NRKFANSL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;SPTBN1|p.E1055Gfs*20|1|0.19|ENSG00000115306|chr2:54631208-54631224|GAGAGGCCTCCCTGGGA/-|frameshift_variant ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.26568603515625 2 475.264333 948.514114 2.7899 0.0013259 0.70075 0.00033304 3.4906 0.001659 475.2647369339764 14.761 0.24671 15.068 14.942 15.188 0.3069 30 19 2 0 0 0 0.47217 1 6667 6667 23.148 7.3012 1 179760 21420 1960 13484 13540 24956 24956 0.03779722848844358 NRKFANSL 8 Unmodified _NRKFANSL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;SPTBN1|p.E1055Gfs*20|1|0.19|ENSG00000115306|chr2:54631208-54631224|GAGAGGCCTCCCTGGGA/-|frameshift_variant ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 475.264333 948.514114 3.1364 0.0014906 0.30303 0.00014402 3.4394 0.0016346 475.2644729511535 14.707 0.20836 15.36 15.303 15.511 0.65356 0.14611 -0.00018531 NaN 23.148 29 16 2 NaN NaN NaN NaN 0 NaN NaN 0 323990 21421 1960 13484 13540 0.03779722848844358 NRKGSITIL 9 Unmodified _NRKGSITIL_ 0 0 0 REV__nc|ENSG00000141503|Q8N4C8-5|MINK1 REV__nc|ENSG00000141503|Q8N4C8-5|MINK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.5428161621094 3 334.541586 1000.60293 NaN NaN NaN NaN NaN NaN NaN 12.302 1 12.94 12.44 13.44 0.63746 0 0 0 0.59707 1 5487 5487 15.248 3.7538 1 + 21422 12294 13485 13541 24957 24957 0.10265138088516323 NRKLIYNFK 9 Unmodified _NRKLIYNFK_ 0 0 0 ENSG00000125900|ENST00000381623|SIRPD;ENST00000453770.1_1_20:1514156-1534896:-|nuORF ENSG00000125900|ENST00000381623|SIRPD ENSG00000125900|ENST00000381623|SIRPD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.2518005371094 3 399.236385 1194.68733 NaN NaN NaN NaN NaN NaN NaN 15.767 1 16.425 15.925 16.925 0.65798 0 0 0 0.91238 1 7104 7104 0.23584 0 1 21423 2433 13486 13542 24958 24958 0.0977708890525264 NRKQFWRWWKL 11 Unmodified _NRKQFWRWWKL_ 0 0 0 chr12:54282932-54283812|540|81.87|0.0|22.96|+|1|HNRNPA1,HNRNPA1|2 chr12:54282932-54283812|540|81.87|0.0|22.96|+|1|HNRNPA1,HNRNPA1|2 chr12:54282932-54283812|540|81.87|0.0|22.96|+|1|HNRNPA1,HNRNPA1|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.9703979492188 3 549.972155 1646.89463 NaN NaN NaN NaN NaN NaN NaN 57.282 1 57.546 57.046 58.046 0.26444 0 0 0 1.0082 1 26219 26219 0.094841 0.094841 1 21424 143 13487 13543 24959 24959 0.09706296173294504 NRKQLELKVTS 11 Unmodified _NRKQLELKVTS_ 0 0 0 nc|ENSG00000119321|Q5T1M5-2|FKBP15;ENSG00000119321|ENST00000238256|FKBP15 nc|ENSG00000119321|Q5T1M5-2|FKBP15 nc|ENSG00000119321|Q5T1M5-2|FKBP15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 658.2846069335938 2 658.388251 1314.76195 NaN NaN NaN NaN NaN NaN NaN 20.241 1 20.895 20.395 21.395 0.65346 0 0 0 1.0073 1 9190 9190 1.1933 0 1 21425 2138 13488 13544 24960 24960 0.11715806925963079 NRKQRFAL 8 Unmodified _NRKQRFAL_ 0 0 0 ENST00000539436.5_1_11:63991868-63992452:-|nuORF;nc|ENSG00000149743|Q86TN4-2|TRPT1;nc|ENSG00000149743|Q86TN4-3|TRPT1;ENSG00000149743|ENST00000317459|TRPT1;nc|ENSG00000149743|Q86TN4-4|TRPT1 ENST00000539436.5_1_11:63991868-63992452:-|nuORF ENST00000539436.5_1_11:63991868-63992452:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 344.87396240234375 3 344.873559 1031.59885 2.4644 0.00084991 -0.17832 -6.1497E-05 2.2861 0.00078841 344.8733863864311 16.191 0.71934 16.191 15.783 16.502 0 159 87 2 0 0 0 0.68261 1 7167 7167 7.2892 0 1 116800 21426 3657 13489 13545 24961 24961 0.08431093385456734 NRKQRFAL 8 Unmodified _NRKQRFAL_ 0 0 0 ENST00000539436.5_1_11:63991868-63992452:-|nuORF;nc|ENSG00000149743|Q86TN4-2|TRPT1;nc|ENSG00000149743|Q86TN4-3|TRPT1;ENSG00000149743|ENST00000317459|TRPT1;nc|ENSG00000149743|Q86TN4-4|TRPT1 ENST00000539436.5_1_11:63991868-63992452:-|nuORF ENST00000539436.5_1_11:63991868-63992452:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 344.8741760253906 3 344.873559 1031.59885 2.3286 0.00080308 0.24447 8.4311E-05 2.5731 0.00088739 344.8735288438615 15.01 0.37382 15.236 15.011 15.385 0.22622 70 39 2 0 0 0 0.3435 2 6606 6561;6606 32.305 16.458 1 214470 21427 3657 13489 13545 24962;24963 24963 0.08431093385456734 NRKQRFAL 8 Unmodified _NRKQRFAL_ 0 0 0 ENST00000539436.5_1_11:63991868-63992452:-|nuORF;nc|ENSG00000149743|Q86TN4-2|TRPT1;nc|ENSG00000149743|Q86TN4-3|TRPT1;ENSG00000149743|ENST00000317459|TRPT1;nc|ENSG00000149743|Q86TN4-4|TRPT1 ENST00000539436.5_1_11:63991868-63992452:-|nuORF ENST00000539436.5_1_11:63991868-63992452:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 344.8743896484375 3 344.873559 1031.59885 2.4762 0.00085397 -1.1404 -0.00039329 1.3358 0.00046068 344.87316260370704 14.432 0.14268 15.08 15.02 15.162 0.6482 20 12 2 0 0 0 0.23923 1 6501 6501 39.957 24.11 1 1038800 21428 3657 13489 13545 24964 24964 0.08431093385456734 NRKYHMIRRNK 11 Unmodified _NRKYHMIRRNK_ 0 0 0 ENST00000461454.1_1_2:175252452-175260304:-|nuORF ENST00000461454.1_1_2:175252452-175260304:-|nuORF ENST00000461454.1_1_2:175252452-175260304:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 758.4261474609375 2 758.42551 1514.83647 NaN NaN NaN NaN NaN NaN NaN 63.23 1 63.48 62.98 63.98 0.24965 0 0 0 1.008 1 28957 28957 0.30703 0.03801 1 21429 8086 13490 13546 24965 24965 0.09964291256369506 NRLGYTHLY 9 Unmodified _NRLGYTHLY_ 0 0 0 nc|ENSG00000244038|P39656-3|DDOST;ENSG00000244038|ENST00000602624|DDOST;nc|ENSG00000244038|P39656|DDOST;nc|ENSG00000244038|P39656-2|DDOST nc|ENSG00000244038|P39656-3|DDOST nc|ENSG00000244038|P39656-3|DDOST MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.5340270996094 3 379.533091 1135.57744 NaN NaN NaN NaN NaN NaN NaN 31.925 1 32.712 32.212 33.212 0.78795 0 0 0 0.6155 1 14428 14428 15.248 7.093 1 21430 6246 13491 13547 24966 24966 0.015076635660989268 NRLGYTHLY 9 Unmodified _NRLGYTHLY_ 0 0 0 nc|ENSG00000244038|P39656-3|DDOST;ENSG00000244038|ENST00000602624|DDOST;nc|ENSG00000244038|P39656|DDOST;nc|ENSG00000244038|P39656-2|DDOST nc|ENSG00000244038|P39656-3|DDOST nc|ENSG00000244038|P39656-3|DDOST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.5342712402344 3 379.533091 1135.57744 2.9475 0.0011187 0.26882 0.00010203 3.2163 0.0012207 379.5332226649126 32.954 0.24553 33.207 33.051 33.297 0.25389 13 9 2 0 0 0 0.33646 1 15020 15020 15.248 10.351 1 238470 21431 6246 13491 13547 24967 24967 0.015076635660989268 NRLGYTHLY 9 Unmodified _NRLGYTHLY_ 0 0 0 nc|ENSG00000244038|P39656-3|DDOST;ENSG00000244038|ENST00000602624|DDOST;nc|ENSG00000244038|P39656|DDOST;nc|ENSG00000244038|P39656-2|DDOST nc|ENSG00000244038|P39656-3|DDOST nc|ENSG00000244038|P39656-3|DDOST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.5345458984375 3 379.533091 1135.57744 2.6523 0.0010066 0.78289 0.00029713 3.4352 0.0013038 379.5333654351605 32.379 0.28261 32.998 32.901 33.184 0.61831 21 13 2 0 0 0 0.59921 1 14858 14858 10.8 5.9025 1 261510 21432 6246 13491 13547 24968 24968 0.015076635660989268 NRLKVHTR 8 Unmodified _NRLKVHTR_ 0 0 0 REV__nc|ENSG00000090975|Q9BZ72-3|PITPNM2 REV__nc|ENSG00000090975|Q9BZ72-3|PITPNM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.0641479492188 2 512.312149 1022.60975 4.2104 0.002157 -2.6435 -0.0013543 1.5669 0.00080273 512.3109061420652 102.14 0.19632 102.45 102.32 102.51 0.31737 8 6 2 0 0 0 0.7471 1 47263 47263 0.69038 0 1 434560 + 21433 10722 13492 13548 24969 24969 0.09934495759739548 NRLRARLSPL 10 Unmodified _NRLRARLSPL_ 0 0 0 REV__ENST00000335997.11_1_X:129199166-129199613:-|nuORF REV__ENST00000335997.11_1_X:129199166-129199613:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.25189208984375 3 399.250918 1194.73092 NaN NaN NaN NaN NaN NaN NaN 30.342 1 31.131 30.631 31.631 0.78921 0 0 0 1.0013 1 13700 13700 0.62683 0.22611 1 + 21434 15417 13493 13549 24970 24970 0.14134698402403956 NRLRRRYLDWR 11 Unmodified _NRLRRRYLDWR_ 0 0 0 ENSG00000175701|ENST00000611969|MTLN;nc|ENSG00000175701|Q8NCU8-1|MTLN ENSG00000175701|ENST00000611969|MTLN ENSG00000175701|ENST00000611969|MTLN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 802.4560546875 2 802.455656 1602.89676 NaN NaN NaN NaN NaN NaN NaN 12.424 1 12.686 12.186 13.186 0.26154 0 0 0 1.0082 1 5373 5373 0.30703 0 1 21435 5043 13494 13550 24971 24971 0.11942724911091318 NRLVVFAI 8 Unmodified _NRLVVFAI_ 0 0 0 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.29132080078125 2 466.28982 930.565087 NaN NaN NaN NaN NaN NaN NaN 66.323 1 66.98 66.48 67.48 0.65672 0 0 0 0.99035 1 30407 30407 5.7604 0 1 21436 2780 13495 13551 24972 24972 0.09702671893705883 NRMLKQML 8 Unmodified _NRMLKQML_ 0 0 0 ENSG00000136930|ENST00000259457|PSMB7;nc|ENSG00000136930|Q99436-2|PSMB7;ENST00000498485.5_1_9:127146904-127177393:-|nuORF ENSG00000136930|ENST00000259457|PSMB7 ENSG00000136930|ENST00000259457|PSMB7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.2874755859375 2 517.285897 1032.55724 NaN NaN NaN NaN NaN NaN NaN 31.112 1 31.368 30.868 31.868 0.25614 0 0 0 0.29949 1 14162 14162 44.407 17.523 1 21437 2987 13496 13552 24973 24973 0.042264533102752466 NRMLKQML 8 Unmodified _NRMLKQML_ 0 0 0 ENSG00000136930|ENST00000259457|PSMB7;nc|ENSG00000136930|Q99436-2|PSMB7;ENST00000498485.5_1_9:127146904-127177393:-|nuORF ENSG00000136930|ENST00000259457|PSMB7 ENSG00000136930|ENST00000259457|PSMB7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.2877807617188 2 517.285897 1032.55724 3.4242 0.0017713 -1.1172 -0.00057793 2.307 0.0011934 517.2857492429886 30.707 0.40629 31.324 31.152 31.558 0.61736 48 23 3 0 0 0 0.21358 1 14082 14082 50.855 18.55 1 558960 21438 2987 13496 13552 24974 24974 0.042264533102752466 NRPGTVSSL 9 Unmodified _NRPGTVSSL_ 0 0 0 nc|ENSG00000124795|P35659-2|DEK;ENSG00000124795|ENST00000652689|DEK nc|ENSG00000124795|P35659-2|DEK nc|ENSG00000124795|P35659-2|DEK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.7554016113281 2 465.753798 929.493044 2.8802 0.0013415 0.11836 5.5126E-05 2.9986 0.0013966 465.75384825469837 22.491 0.18905 22.491 22.321 22.51 0 29 13 3 0 0 0 0.0029142 2 10079 10029;10079 96.111 33.538 1 1250700 21439 2382 13497 13553 24975;24976 24976 0.025477127493331864 NRPGTVSSL 9 Unmodified _NRPGTVSSL_ 0 0 0 nc|ENSG00000124795|P35659-2|DEK;ENSG00000124795|ENST00000652689|DEK nc|ENSG00000124795|P35659-2|DEK nc|ENSG00000124795|P35659-2|DEK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.7550354003906 2 465.753798 929.493044 NaN NaN NaN NaN NaN NaN NaN 21.654 1 21.94 21.44 22.44 0.28662 0 0 0 0.00011071 1 9797 9797 107.19 41.952 1 21440 2382 13497 13553 24977 24977 0.025477127493331864 NRPGTVSSL 9 Unmodified _NRPGTVSSL_ 0 0 0 nc|ENSG00000124795|P35659-2|DEK;ENSG00000124795|ENST00000652689|DEK nc|ENSG00000124795|P35659-2|DEK nc|ENSG00000124795|P35659-2|DEK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.7543640136719 2 465.753798 929.493044 NaN NaN NaN NaN NaN NaN NaN 21.741 1 22.022 21.522 22.522 0.28085 0 0 0 0.0027835 1 9833 9833 96.111 30.876 1 21441 2382 13497 13553 24978 24978 0.025477127493331864 NRPVILTY 8 Unmodified _NRPVILTY_ 0 0 0 ENSG00000104419|ENST00000323851|NDRG1;ENST00000518010.5_1_8:134269105-134296554:-|nuORF;nc|ENSG00000101079|Q9UGV2-2|NDRG3;ENSG00000101079|ENST00000349004|NDRG3 ENSG00000104419|ENST00000323851|NDRG1 ENSG00000104419|ENST00000323851|NDRG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.2864074707031 2 488.284734 974.554916 NaN NaN NaN NaN NaN NaN NaN 45.316 1 45.967 45.467 46.467 0.65104 0 0 0 0.89651 1 20766 20766 12.532 7.3009 1 21442 1438 13498 13554 24979 24979 0.0666206416847217 NRQLFNIATKL 11 Unmodified _NRQLFNIATKL_ 0 0 0 REV__ENST00000431180.5_1_3:47098834-47103683:-|nuORF REV__ENST00000431180.5_1_3:47098834-47103683:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 659.3868408203125 2 659.385511 1316.75647 NaN NaN NaN NaN NaN NaN NaN 70.038 1 70.699 70.199 71.199 0.66071 0 0 0 1.0073 1 32113 32113 1.1933 0.735 1 + 21443 16263 13499 13555 24980 24980 0.1107612813416381 NRREKPLAL 9 Unmodified _NRREKPLAL_ 0 0 0 nc|ENSG00000006534|P43353-2|ALDH3B1;ENSG00000006534|ENST00000342456|ALDH3B1 nc|ENSG00000006534|P43353-2|ALDH3B1 nc|ENSG00000006534|P43353-2|ALDH3B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.2252502441406 3 366.224368 1095.65128 2.4133 0.00088379 -0.11451 -4.1935E-05 2.2988 0.00084186 366.2243396887025 14.502 0.18497 14.728 14.629 14.814 0.22622 38 15 3 0 0 0 0.22744 1 6364 6364 21.59 10.691 1 486900 21444 350 13500 13556 24981 24981 0.10727631728400411 NRREKPLAL 9 Unmodified _NRREKPLAL_ 0 0 0 nc|ENSG00000006534|P43353-2|ALDH3B1;ENSG00000006534|ENST00000342456|ALDH3B1 nc|ENSG00000006534|P43353-2|ALDH3B1 nc|ENSG00000006534|P43353-2|ALDH3B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.22503662109375 3 366.224368 1095.65128 2.4146 0.00088429 0.31385 0.00011494 2.7285 0.00099923 366.2243397276852 14.255 0.20978 14.562 14.501 14.711 0.3069 17 11 2 0 0 0 0.061685 1 6444 6444 42.312 16.315 1 2405900 21445 350 13500 13556 24982 24982 0.10727631728400411 NRREKPLAL 9 Unmodified _NRREKPLAL_ 0 0 0 nc|ENSG00000006534|P43353-2|ALDH3B1;ENSG00000006534|ENST00000342456|ALDH3B1 nc|ENSG00000006534|P43353-2|ALDH3B1 nc|ENSG00000006534|P43353-2|ALDH3B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.22479248046875 3 366.224368 1095.65128 2.68 0.00098147 -0.68486 -0.00025081 1.9951 0.00073065 366.2240827613502 14.07 0.090709 14.718 14.698 14.789 0.64819 16 14 2 0 0 0 0.094033 1 6323 6323 34.222 34.222 1 2307700 21446 350 13500 13556 24983 24983 0.10727631728400411 NRREKPLAL 9 Unmodified _NRREKPLAL_ 0 0 0 nc|ENSG00000006534|P43353-2|ALDH3B1;ENSG00000006534|ENST00000342456|ALDH3B1 nc|ENSG00000006534|P43353-2|ALDH3B1 nc|ENSG00000006534|P43353-2|ALDH3B1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 366.224368 1095.65128 2.7205 0.0009963 0.14703 5.3847E-05 2.8675 0.0010501 366.22440386769887 14.869 0.40159 14.869 14.719 15.121 0 0.14932 0.00018253 NaN 42.312 104 44 3 NaN NaN NaN NaN 0 NaN NaN 0 225850 21447 350 13500 13556 0.10727631728400411 NRRKRLIHIWI 11 Unmodified _NRRKRLIHIWI_ 0 0 0 REV__nc|ENSG00000148358|Q5VW38-3|GPR107 REV__nc|ENSG00000148358|Q5VW38-3|GPR107 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.7572326660156 4 376.988844 1503.92627 2.7905 0.001052 -0.36824 -0.00013882 2.4222 0.00091315 377.2395068984097 60.615 0.24407 60.871 60.839 61.083 0.25578 32 17 3 0 0 0 0.13295 1 27843 27843 0.094841 0.011491 1 3262700 + 21448 12534 13501 13557 24984 24984 0.1944628892726996 NRRKRLIHIWI 11 Unmodified _NRRKRLIHIWI_ 0 0 0 REV__nc|ENSG00000148358|Q5VW38-3|GPR107 REV__nc|ENSG00000148358|Q5VW38-3|GPR107 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 376.988844 1503.92627 2.5006 0.00094268 -0.3934 -0.00014831 2.1072 0.00079438 377.23958398859537 61.191 0.23283 61.191 61.005 61.237 0 0.2094 -0.00014934 NaN 0.094841 31 22 2 NaN NaN NaN NaN 0 NaN NaN 0 1476500 + 21449 12534 13501 13557 0.1944628892726996 NRRMKKKRLL 10 Unmodified _NRRMKKKRLL_ 0 0 0 ENSG00000123407|ENST00000243103|HOXC12 ENSG00000123407|ENST00000243103|HOXC12 ENSG00000123407|ENST00000243103|HOXC12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 671.934326171875 2 671.93244 1341.85033 NaN NaN NaN NaN NaN NaN NaN 59.042 1 59.801 59.301 60.301 0.75894 0 0 0 1.0015 1 27133 27133 0.40072 0 1 21450 2312 13502 13558 24985 24985 0.19307568755471038 NRRQKHLK 8 Unmodified _NRRQKHLK_ 0 0 0 REV__L1PA7_dup4105|chr5:32794707-32799584:+|1.4734764400816625|0.3370285026521366|2.13|528.0|113|3|sense REV__L1PA7_dup4105|chr5:32794707-32799584:+|1.4734764400816625|0.3370285026521366|2.13|528.0|113|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.331298828125 2 540.330873 1078.64719 2.944 0.0015907 -0.65105 -0.00035178 2.293 0.001239 540.3304921229109 102.85 0.17027 102.85 102.76 102.93 0 12 6 3 0 0 0 0.7471 1 56742 56742 0.79363 0 1 848190 + 21451 17800 13503 13559 24986 24986 0.11101587025336812 NRRQKHLK 8 Unmodified _NRRQKHLK_ 0 0 0 REV__L1PA7_dup4105|chr5:32794707-32799584:+|1.4734764400816625|0.3370285026521366|2.13|528.0|113|3|sense REV__L1PA7_dup4105|chr5:32794707-32799584:+|1.4734764400816625|0.3370285026521366|2.13|528.0|113|3|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 540.330873 1078.64719 2.944 0.0015907 -0.65105 -0.00035178 2.293 0.001239 540.3304921229109 102.85 0.17027 102.85 102.76 102.93 0 -0.092975 -0.00056536 NaN 0.79363 12 6 3 NaN NaN NaN NaN 0 NaN NaN 0 848190 + 21452 17800 13503 13559 0.11101587025336812 NRRQKHLK 8 Unmodified _NRRQKHLK_ 0 0 0 REV__L1PA7_dup4105|chr5:32794707-32799584:+|1.4734764400816625|0.3370285026521366|2.13|528.0|113|3|sense REV__L1PA7_dup4105|chr5:32794707-32799584:+|1.4734764400816625|0.3370285026521366|2.13|528.0|113|3|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 540.330873 1078.64719 1.8306 0.00098911 0.12875 6.9569E-05 1.9593 0.0010587 540.3307740314818 102.89 0.20647 102.95 102.85 103.05 0.055092 0.0087661 0.00027734 NaN 0.79363 15 7 3 NaN NaN NaN NaN 0 NaN NaN 0 1559500 + 21453 17800 13503 13559 0.11101587025336812 NRRQKHLK 8 Unmodified _NRRQKHLK_ 0 0 0 REV__L1PA7_dup4105|chr5:32794707-32799584:+|1.4734764400816625|0.3370285026521366|2.13|528.0|113|3|sense REV__L1PA7_dup4105|chr5:32794707-32799584:+|1.4734764400816625|0.3370285026521366|2.13|528.0|113|3|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 540.330873 1078.64719 3.5709 0.0019295 0.16331 8.8242E-05 3.7342 0.0020177 540.3308126168854 102.43 0.19482 103.03 102.91 103.1 0.59759 0.084209 0.00031469 NaN 0.79363 16 6 4 NaN NaN NaN NaN 0 NaN NaN 0 1417700 + 21454 17800 13503 13559 0.11101587025336812 NRRQPRRLPRA 11 Unmodified _NRRQPRRLPRA_ 0 0 0 ENST00000498631.5_1_X:48455913-48456412:+|nuORF ENST00000498631.5_1_X:48455913-48456412:+|nuORF ENST00000498631.5_1_X:48455913-48456412:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.8769226074219 3 473.955387 1418.84433 NaN NaN NaN NaN NaN NaN NaN 61.106 1 61.845 61.345 62.345 0.7396 0 0 0 1.0062 1 28295 28295 2.6312 0.19645 1 21455 8465 13504 13560 24987 24987 0.15166186568171725 NRRRKRPRLRE 11 Unmodified _NRRRKRPRLRE_ 0 0 0 REV__nc|ENSG00000133193|Q969W3|VCF1 REV__nc|ENSG00000133193|Q969W3|VCF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.9867553710938 3 512.985457 1535.93454 2.8395 0.0014566 0.026985 1.3843E-05 2.8665 0.0014705 512.9853485976564 106.08 0.16572 106.08 105.99 106.16 0 21 7 4 0 0 0 0.91378 1 58274 58274 0.094841 0.094841 1 3030700 + 21456 11928 13505 13561 24988 24988 0.1880123589660343 NRRRKRPRLRE 11 Unmodified _NRRRKRPRLRE_ 0 0 0 REV__nc|ENSG00000133193|Q969W3|VCF1 REV__nc|ENSG00000133193|Q969W3|VCF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.3214111328125 3 512.985457 1535.93454 1.9633 0.0010072 0.37458 0.00019216 2.3379 0.0011993 512.9856922231554 106.2 0.1488 106.25 106.16 106.31 0.04837 20 7 3 0 0 0 0.91111 1 57456 57456 0.40827 0.40827 1 3652100 + 21457 11928 13505 13561 24989 24989 0.1880123589660343 NRRRKRPRLRE 11 Unmodified _NRRRKRPRLRE_ 0 0 0 REV__nc|ENSG00000133193|Q969W3|VCF1 REV__nc|ENSG00000133193|Q969W3|VCF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.9869995117188 3 512.985457 1535.93454 4.2325 0.0021712 -0.62713 -0.00032171 3.6054 0.0018495 512.985000304431 106.13 0.19895 106.44 106.32 106.52 0.31628 23 7 5 0 0 0 0.91378 1 48975 48975 0.094841 0 1 3438900 + 21458 11928 13505 13561 24990 24990 0.1880123589660343 NRRRKRPRLRE 11 Unmodified _NRRRKRPRLRE_ 0 0 0 REV__nc|ENSG00000133193|Q969W3|VCF1 REV__nc|ENSG00000133193|Q969W3|VCF1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 512.985457 1535.93454 2.8395 0.0014566 0.026985 1.3843E-05 2.8665 0.0014705 512.9853485976564 106.08 0.16572 106.08 105.99 106.16 0 -0.17789 9.0855E-05 NaN 0.40827 21 7 4 NaN NaN NaN NaN 0 NaN NaN 0 3030700 + 21459 11928 13505 13561 0.1880123589660343 NRRRKRPRLRE 11 Unmodified _NRRRKRPRLRE_ 0 0 0 REV__nc|ENSG00000133193|Q969W3|VCF1 REV__nc|ENSG00000133193|Q969W3|VCF1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 512.985457 1535.93454 1.9633 0.0010072 0.37458 0.00019216 2.3379 0.0011993 512.9856922231554 106.2 0.1488 106.25 106.16 106.31 0.04837 -0.0057373 0.00062579 NaN 0.40827 20 7 3 NaN NaN NaN NaN 0 NaN NaN 0 3652100 + 21460 11928 13505 13561 0.1880123589660343 NRRRKRPRLRE 11 Unmodified _NRRRKRPRLRE_ 0 0 0 REV__nc|ENSG00000133193|Q969W3|VCF1 REV__nc|ENSG00000133193|Q969W3|VCF1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 512.985457 1535.93454 4.2325 0.0021712 -0.62713 -0.00032171 3.6054 0.0018495 512.985000304431 106.13 0.19895 106.44 106.32 106.52 0.31628 0.18363 -0.0009158 NaN 0.40827 23 7 5 NaN NaN NaN NaN 0 NaN NaN 0 3438900 + 21461 11928 13505 13561 0.1880123589660343 NRRRRQTWRRF 11 Unmodified _NRRRRQTWRRF_ 0 0 0 REV__ENST00000233468.4_1_2:24290678-24291201:-|nuORF REV__ENST00000233468.4_1_2:24290678-24291201:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 816.4649658203125 2 816.464347 1630.91414 NaN NaN NaN NaN NaN NaN NaN 86.151 1 86.151 85.651 86.651 0 0 0 0 1.0082 1 44085 44085 0 0 1 + 21462 14862 13506 13562 24991 24991 0.12392065236736016 NRRRWQKTRRK 11 Unmodified _NRRRWQKTRRK_ 0 0 0 REV__ENST00000272342.5_1_2:67624599-67624692:+|nuORF REV__ENST00000272342.5_1_2:67624599-67624692:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 792.97412109375 2 792.974548 1583.93454 NaN NaN NaN NaN NaN NaN NaN 34.664 1 34.664 34.164 35.164 0 0 0 0 1.0082 1 15715 15715 0 0 1 + 21463 15066 13507 13563 24992 24992 0.16593235896561964 NRSNTVVIM 9 Unmodified _NRSNTVVIM_ 0 0 0 ENSG00000122692|ENST00000397149|SMU1;ENST00000379752.5_1_1:157029186-157029948:-|nuORF;nc|ENSG00000122692|Q2TAY7-2|SMU1 ENSG00000122692|ENST00000397149|SMU1 ENSG00000122692|ENST00000397149|SMU1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.3075561523438 2 517.276583 1032.53861 3.4917 0.0018062 0.37942 0.00019627 3.8712 0.0020025 517.2768059534988 36.703 0.22725 36.96 36.896 37.123 0.25768 9 7 2 0 0 0 0.098156 1 16718 16718 13.906 5.9959 1 136600 21464 2278 13508 13564 24993 24993 0.02364614940051979 NRSRTKRWFRD 11 Unmodified _NRSRTKRWFRD_ 0 0 0 REV__nc|ENSG00000165078|Q8N4T0-2|CPA6 REV__nc|ENSG00000165078|Q8N4T0-2|CPA6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 761.4104614257812 2 761.410914 1520.80728 NaN NaN NaN NaN NaN NaN NaN 72.993 1 72.993 72.493 73.493 0 0 0 0 1.0059 1 35530 35530 2.9952 0.49676 1 + 21465 13133 13509 13565 24994 24994 0.06770470231708714 NRTLQQKSI 9 Unmodified _NRTLQQKSI_ 0 0 0 RAPH1|p.R1175Q|1|0.34|ENSG00000173166|chr2:203439666-203439666|C/T|missense_variant RAPH1|p.R1175Q|1|0.34|ENSG00000173166|chr2:203439666-203439666|C/T|missense_variant RAPH1|p.R1175Q|1|0.34|ENSG00000173166|chr2:203439666-203439666|C/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.3151245117188 2 544.314554 1086.61456 3.4496 0.0018777 -0.59942 -0.00032627 2.8502 0.0015514 544.3144546371558 34.437 0.2413 34.691 34.55 34.791 0.25389 21 9 3 0 0 0 0.38625 1 15731 15731 10.074 0 1 2322200 21466 9915 13510 13566 24995 24995 0.07471335111858934 NRTLQQKSI 9 Unmodified _NRTLQQKSI_ 0 0 0 RAPH1|p.R1175Q|1|0.34|ENSG00000173166|chr2:203439666-203439666|C/T|missense_variant RAPH1|p.R1175Q|1|0.34|ENSG00000173166|chr2:203439666-203439666|C/T|missense_variant RAPH1|p.R1175Q|1|0.34|ENSG00000173166|chr2:203439666-203439666|C/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.31689453125 2 544.314554 1086.61456 3.3872 0.0018437 -0.61701 -0.00033585 2.7701 0.0015078 544.3146384166903 33.971 0.27835 34.591 34.448 34.726 0.62031 28 14 3 0 0 0 0.24272 1 15592 15592 21.537 0 1 1206000 21467 9915 13510 13566 24996 24996 0.07471335111858934 NRVMQRRLLHF 11 Unmodified _NRVMQRRLLHF_ 0 0 0 REV__ENSG00000181192|ENST00000263035|DHTKD1 REV__ENSG00000181192|ENST00000263035|DHTKD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 368.4628601074219 4 368.212215 1468.81975 2.4619 0.00090649 -0.38137 -0.00014043 2.0805 0.00076607 368.46271472604724 54.029 0.27808 54.696 54.625 54.903 0.6665 37 17 3 0 0 0 0.91068 1 24763 24763 1.3296 0.92138 1 3819200 + 21468 13847 13511 13567 24997 24997 0.10409790370431438 NRVMQRRLLHF 11 Unmodified _NRVMQRRLLHF_ 0 0 0 REV__ENSG00000181192|ENST00000263035|DHTKD1 REV__ENSG00000181192|ENST00000263035|DHTKD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 368.212215 1468.81975 2.1213 0.00078108 0.026056 9.594E-06 2.1473 0.00079068 368.21217244467107 53.787 0.81745 54.591 54.427 55.245 0.80351 -0.12715 0.00022507 NaN 1.3296 91 45 3 NaN NaN NaN NaN 0 NaN NaN 0 1227500 + 21469 13847 13511 13567 0.10409790370431438 NRVMQRRLLHF 11 Unmodified _NRVMQRRLLHF_ 0 0 0 REV__ENSG00000181192|ENST00000263035|DHTKD1 REV__ENSG00000181192|ENST00000263035|DHTKD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 368.212215 1468.81975 2.4378 0.00089764 -0.28863 -0.00010628 2.1492 0.00079136 368.2120855485651 54.602 0.27349 54.867 54.637 54.911 0.26543 0.1492 -0.00023842 NaN 1.3296 16 11 2 NaN NaN NaN NaN 0 NaN NaN 0 561550 + 21470 13847 13511 13567 0.10409790370431438 NRVMQRRLLHF 11 Unmodified _NRVMQRRLLHF_ 0 0 0 REV__ENSG00000181192|ENST00000263035|DHTKD1 REV__ENSG00000181192|ENST00000263035|DHTKD1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 368.212215 1468.81975 2.4619 0.00090649 -0.38137 -0.00014043 2.0805 0.00076607 368.46271472604724 54.029 0.27808 54.696 54.625 54.903 0.6665 -0.022052 -0.00037501 NaN 1.3296 37 17 3 NaN NaN NaN NaN 0 NaN NaN 0 3819200 + 21471 13847 13511 13567 0.10409790370431438 NRVRRFKRIFI 11 Unmodified _NRVRRFKRIFI_ 0 0 0 ENST00000261254.7_1_12:4413568-4413715:+|nuORF ENST00000261254.7_1_12:4413568-4413715:+|nuORF ENST00000261254.7_1_12:4413568-4413715:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.7569885253906 4 376.988844 1503.92627 2.7113 0.0010221 -0.20261 -7.6381E-05 2.5086 0.00094573 377.2395474049081 60.218 0.59602 60.883 60.748 61.344 0.66503 79 34 3 0 0 0 0.13295 1 27518 27518 0.45452 0.35968 1 2589300 21472 6555 13512 13568 24998 24998 0.19446288927247224 NRVRRFKRIFI 11 Unmodified _NRVRRFKRIFI_ 0 0 0 ENST00000261254.7_1_12:4413568-4413715:+|nuORF ENST00000261254.7_1_12:4413568-4413715:+|nuORF ENST00000261254.7_1_12:4413568-4413715:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.7574462890625 4 376.988844 1503.92627 2.7066 0.0010204 -0.051536 -1.9428E-05 2.6551 0.0010009 377.23955677152225 59.408 0.81902 60.073 59.809 60.628 0.66503 89 37 3 0 0 0 0.13295 1 27446 27446 0.094841 0 1 1926900 21473 6555 13512 13568 24999 24999 0.19446288927247224 NRVRRFKRIFI 11 Unmodified _NRVRRFKRIFI_ 0 0 0 ENST00000261254.7_1_12:4413568-4413715:+|nuORF ENST00000261254.7_1_12:4413568-4413715:+|nuORF ENST00000261254.7_1_12:4413568-4413715:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 376.988844 1503.92627 2.1238 0.00080066 -0.35968 -0.0001356 1.7642 0.00066507 377.2395281784863 59.163 0.074844 59.922 59.852 59.927 0.75894 -0.075156 -0.00037306 NaN 0.094841 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 318800 21474 6555 13512 13568 0.19446288927247224 NRWWRWRRARW 11 Unmodified _NRWWRWRRARW_ 0 0 0 nc|ENSG00000171160|Q8NDC4-2|MORN4 nc|ENSG00000171160|Q8NDC4-2|MORN4 nc|ENSG00000171160|Q8NDC4-2|MORN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 864.9607543945312 2 864.963983 1727.91341 NaN NaN NaN NaN NaN NaN NaN 80.862 1 81.031 80.531 81.531 0.16862 0 0 0 1.0082 1 39662 39662 0 0 1 21475 9752 13513 13569 25000 25000 0.07857270587692256 NSGGLEPLVEL 11 Unmodified _NSGGLEPLVEL_ 0 0 0 nc|ENSG00000165309|Q5W041-4|ARMC3;ENSG00000165309|ENST00000298032|ARMC3;nc|ENSG00000165309|Q5W041-3|ARMC3 nc|ENSG00000165309|Q5W041-4|ARMC3 nc|ENSG00000165309|Q5W041-4|ARMC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.3018188476562 2 564.300778 1126.587 NaN NaN NaN NaN NaN NaN NaN 54.317 1 54.983 54.483 55.483 0.6665 0 0 0 0.97845 1 24845 24845 8.7454 0.58988 1 21476 4388 13514 13570 25001 25001 0.028773870609711594 NSHWDIED 8 Unmodified _NSHWDIED_ 0 0 0 ENSG00000177575|ENST00000432237|CD163;nc|ENSG00000177575|Q86VB7-4|CD163;nc|ENSG00000177575|Q86VB7|CD163;nc|ENSG00000177575|Q86VB7-2|CD163;ENST00000537044.1_1_12:7633616-7656286:-|nuORF ENSG00000177575|ENST00000432237|CD163 ENSG00000177575|ENST00000432237|CD163 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.14306640625 3 339.142039 1014.40429 NaN NaN NaN NaN NaN NaN NaN 67.977 1 68.23 67.73 68.73 0.25227 0 0 0 0.99035 1 31139 31139 1.4819 0.51963 1 21477 5123 13515 13571 25002 25002 -0.10233747280994976 NSKFHRVI 8 Unmodified _NSKFHRVI_ 0 0 0 ENSG00000166794|ENST00000300026|PPIB;ENST00000561048.1_1_15:64452264-64455191:-|nuORF ENSG00000166794|ENST00000300026|PPIB ENSG00000166794|ENST00000300026|PPIB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.1955261230469 3 334.194409 999.561398 2.3895 0.00079856 0.26066 8.7113E-05 2.6502 0.00088567 334.5288409742234 13.187 0.11952 13.187 13.13 13.25 0 15 8 2 0 0 0 0.66653 1 5767 5767 14.838 10.894 1 250120 21478 4507 13516 13572 25003 25003 0.06160002119861474 NSKFHRVI 8 Unmodified _NSKFHRVI_ 0 0 0 ENSG00000166794|ENST00000300026|PPIB;ENST00000561048.1_1_15:64452264-64455191:-|nuORF ENSG00000166794|ENST00000300026|PPIB ENSG00000166794|ENST00000300026|PPIB MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 334.194409 999.561398 1.7469 0.00058381 0.60078 0.00020078 2.3477 0.00078458 334.19471406868536 12.767 0.12928 13.075 12.996 13.125 0.30727 -0.056391 0.00020899 NaN 14.838 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 920690 21479 4507 13516 13572 0.06160002119861474 NSKLRPEVL 9 Unmodified _NSKLRPEVL_ 0 0 0 ENSG00000115756|ENST00000307845|HPCAL1 ENSG00000115756|ENST00000307845|HPCAL1 ENSG00000115756|ENST00000307845|HPCAL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.3165893554688 2 528.314023 1054.61349 3.2155 0.0016988 0.17949 9.4829E-05 3.395 0.0017936 528.3141957040298 26.961 0.20665 27.226 27.119 27.326 0.26489 29 13 3 0 0 0 0.022758 2 12228 12228;12282 53.317 30.58 1 736690 21480 1988 13517 13573 25004;25005 25004 0.08837120742941806 NSKLRPEVL 9 Unmodified _NSKLRPEVL_ 0 0 0 ENSG00000115756|ENST00000307845|HPCAL1 ENSG00000115756|ENST00000307845|HPCAL1 ENSG00000115756|ENST00000307845|HPCAL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.3182983398438 2 528.314023 1054.61349 3.1744 0.0016771 0.52528 0.00027751 3.6997 0.0019546 528.3143102056988 26.562 0.21611 27.188 27.068 27.285 0.62505 31 12 3 0 0 0 0.019841 2 12159 12159;12206 73.196 37.992 1 627590 21481 1988 13517 13573 25006;25007 25006 0.08837120742941806 NSKLRTLSL 9 Unmodified _NSKLRTLSL_ 0 0 0 ENSG00000136813|ENST00000684092|ECPAS;nc|ENSG00000136813|Q5VYK3|ECPAS ENSG00000136813|ENST00000684092|ECPAS ENSG00000136813|ENST00000684092|ECPAS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.3161010742188 2 516.314023 1030.61349 3.4862 0.0018 -0.16055 -8.2897E-05 3.3256 0.0017171 516.3138008865757 33.5 0.19962 33.754 33.618 33.818 0.25389 15 9 2 0 0 0 0.21127 1 15256 15256 22.658 10.417 1 234590 21482 2975 13518 13574 25008 25008 0.0994112074295117 NSKNRLRVF 9 Unmodified _NSKNRLRVF_ 0 0 0 REV__ENST00000496738.5_1_1:156104620-156106879:+|nuORF REV__ENST00000496738.5_1_1:156104620-156106879:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3333129882812 2 567.330539 1132.64652 3.501 0.0019862 -1.0063 -0.00057089 2.4947 0.0014153 567.3299289660972 83.43 1.0396 83.678 83.242 84.282 0.24722 143 62 3 0 0 0 1.101 1 38412 38412 2.3027 2.3027 1 950650 + 21483 16855 13519 13575 25009 25009 0.08550747585650242 NSLHGRQW 8 Unmodified _NSLHGRQW_ 0 0 0 REV__ENST00000519858.1_1_8:59513803-59535956:-|nuORF REV__ENST00000519858.1_1_8:59513803-59535956:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 333.1701354980469 3 333.170264 996.488962 NaN NaN NaN NaN NaN NaN NaN 65.491 1 66.148 65.648 66.648 0.65672 0 0 0 0.99035 1 30024 30024 3.5965 1.098 1 + 21484 10299 13520 13576 25010 25010 -0.009423319537177122 NSLHGRQW 8 Unmodified _NSLHGRQW_ 0 0 0 REV__ENST00000519858.1_1_8:59513803-59535956:-|nuORF REV__ENST00000519858.1_1_8:59513803-59535956:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 333.16998291015625 3 333.170264 996.488962 NaN NaN NaN NaN NaN NaN NaN 75.255 1 75.919 75.419 76.419 0.6644 0 0 0 0.99035 1 34664 34664 3.5965 1.098 1 + 21485 10299 13520 13576 25011 25011 -0.009423319537177122 NSLLDLVV 8 Unmodified _NSLLDLVV_ 0 0 0 ENST00000436493.2_1_5:1589388-1594626:-|nuORF;ENST00000429897.5_1_3:195393072-195404601:+|nuORF;ENST00000427841.5_1_3:195698311-195709045:-|nuORF;ENST00000515752.5_1_5:236500-256532:+|nuORF;nc|ENSG00000073578|P31040-3|SDHA;nc|ENSG00000073578|P31040-2|SDHA;ENSG00000073578|ENST00000264932|SDHA;ENST00000505555.5_1_5:218470-251793:+|nuORF ENST00000436493.2_1_5:1589388-1594626:-|nuORF ENST00000436493.2_1_5:1589388-1594626:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 436.7586975097656 2 436.758018 871.501483 2.9375 0.001283 2.0956 0.00091529 5.0332 0.0021983 436.75884648036674 68.217 0.23846 68.876 68.757 68.995 0.65924 25 15 2 0 0 0 0.74709 1 31314 31314 2.0598 0 1 511640 21486 809 13521 13577 25012 25012 0.06059266665965879 NSPNPCMH 8 Unmodified _NSPNPCMH_ 0 0 0 ENST00000468214.1_1_7:100202075-100203053:+|nuORF ENST00000468214.1_1_7:100202075-100203053:+|nuORF ENST00000468214.1_1_7:100202075-100203053:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.1806640625 2 450.178555 898.342557 NaN NaN NaN NaN NaN NaN NaN 103.89 1 103.89 103.39 104.39 0 0 0 0 0.99035 1 57218 57218 2.3027 0 1 21487 8153 13522 13578 25013 25013 -0.11068093505480192 NSSKDVAVM 9 Unmodified _NSSKDVAVM_ 0 0 0 COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant;ENSG00000122218|ENST00000241704|COPA;nc|ENSG00000122218|P53621-2|COPA COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 475.7359619140625 2 475.734217 949.453881 3.0561 0.0014539 0.18382 8.7449E-05 3.2399 0.0015413 475.73443263274817 21.655 0.29633 21.655 21.498 21.794 0 88 29 4 0 0 0 0.0076144 2 9679 9679;9725 86.332 37.986 1 1401200 21488 242 13523 13579 25014;25015 25014 -0.022867555965490283 NSSKDVAVM 9 Unmodified _NSSKDVAVM_ 0 0 0 COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant;ENSG00000122218|ENST00000241704|COPA;nc|ENSG00000122218|P53621-2|COPA COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.73583984375 2 475.734217 949.453881 3.1923 0.0015187 -0.074937 -3.565E-05 3.1174 0.001483 475.73438479872436 20.745 0.32117 21.399 21.233 21.554 0.65346 72 27 4 0 0 0 0.004576 2 9433 9390;9433 92.653 52.696 1 1086600 21489 242 13523 13579 25016;25017 25017 -0.022867555965490283 NSSQIIPIWL 10 Unmodified _NSSQIIPIWL_ 0 0 0 REV__ENSG00000117834|ENST00000438567|SLC5A9 REV__ENSG00000117834|ENST00000438567|SLC5A9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.8902282714844 3 390.888763 1169.64446 2.9292 0.001145 1.1597 0.00045331 4.0889 0.0015983 390.88917702398606 61.18 0.87746 61.433 60.913 61.79 0.25245 96 41 3 0 0 0 0.91298 1 28019 28019 3.0723 3.0723 1 1572500 + 21490 11455 13524 13580 25018 25018 0.06642274057207942 NSTSIEPRL 9 Unmodified _NSTSIEPRL_ 0 0 0 nc|ENSG00000071054|O95819-4|MAP4K4;nc|ENSG00000071054|O95819|MAP4K4;nc|ENSG00000071054|O95819-5|MAP4K4 nc|ENSG00000071054|O95819-4|MAP4K4 nc|ENSG00000071054|O95819-4|MAP4K4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.75048828125 2 508.772188 1015.52982 3.2011 0.0016286 -0.5248 -0.000267 2.6763 0.0013616 509.2730555381507 36.149 0.29998 36.943 36.726 37.026 0.79339 14 10 2 0 0 0 0.10873 1 16306 16306 6.2058 1.4498 1 166070 21491 9558 13525 13581 25019 25019 0.022679645752418764 NSTSIEPRL 9 Unmodified _NSTSIEPRL_ 0 0 0 nc|ENSG00000071054|O95819-4|MAP4K4;nc|ENSG00000071054|O95819|MAP4K4;nc|ENSG00000071054|O95819-5|MAP4K4 nc|ENSG00000071054|O95819-4|MAP4K4 nc|ENSG00000071054|O95819-4|MAP4K4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.77593994140625 2 508.772188 1015.52982 3.437 0.0017486 0.73872 0.00037584 4.1757 0.0021245 508.77244564722923 36.367 0.31796 36.993 36.82 37.138 0.62631 15 9 2 0 0 0 0.38625 1 16674 16674 14.405 6.2499 1 291880 21492 9558 13525 13581 25020 25020 0.022679645752418764 NSWTQVILLP 10 Unmodified _NSWTQVILLP_ 0 0 0 ENST00000506795.1_1_4:109461916-109478168:-|nuORF ENST00000506795.1_1_4:109461916-109478168:-|nuORF ENST00000506795.1_1_4:109461916-109478168:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.89031982421875 3 390.888763 1169.64446 2.8444 0.0011118 1.0638 0.00041584 3.9082 0.0015277 390.8891218874227 60.492 0.74876 61.154 60.778 61.527 0.66261 98 39 3 0 0 0 0.93726 1 27574 27574 1.4551 0 1 1871500 21493 8518 13526 13582 25021 25021 0.06642274057185205 NTAGFFYI 8 Unmodified _NTAGFFYI_ 0 0 0 nc|ENSG00000155052|Q8WYK1|CNTNAP5;chr2:124798320-124865306|181|11.67|0.3|5.29|+|ENST00000431078|CNTNAP5,CNTNAP5;chr2:124527456-124563217|175|10.46|0.17|5.96|+|ENST00000431078|CNTNAP5,CNTNAP5;chr2:124524452-124527285|168|12.36|0.22|5.82|+|ENST00000431078|CNTNAP5,CNTNAP5;chr2:124242393-124417443|149|10.09|0.16|5.97|+|ENST00000431078|CNTNAP5,CNTNAP5;ENSG00000155052|ENST00000682447|CNTNAP5 nc|ENSG00000155052|Q8WYK1|CNTNAP5 nc|ENSG00000155052|Q8WYK1|CNTNAP5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.254638671875 2 466.729261 931.443968 2.1866 0.0010205 1.2279 0.0005731 3.4145 0.0015936 466.7301834991853 13.084 0.29447 13.391 13.25 13.545 0.30727 24 15 2 0 0 0 0.13672 1 5914 5914 13.508 0.97634 1 180640 21494 160 13527 13583 25022 25022 -0.024495755396287677 NTDEMVEL 8 Unmodified _NTDEMVEL_ 0 0 0 nc|ENSG00000165119|P61978-3|HNRNPK;nc|ENSG00000165119|P61978|HNRNPK;ENSG00000165119|ENST00000376263|HNRNPK;ENST00000483135.1_1_9:86591819-86593167:-|nuORF nc|ENSG00000165119|P61978-3|HNRNPK nc|ENSG00000165119|P61978-3|HNRNPK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 950.416015625 1 950.413539 949.406262 3.8147 0.0036255 0.2066 0.00019636 4.0213 0.0038219 950.4142504261878 55.205 0.19519 55.873 55.78 55.976 0.66798 9 6 2 0 0 0 0.045071 1 25263 25263 67.344 22.937 1 358880 21495 4374 13528 13584 25023 25023 -0.07046454587396056 NTDEPPMVF 9 Unmodified _NTDEPPMVF_ 0 0 0 ENSG00000101557|ENST00000261601|USP14;nc|ENSG00000101557|P54578-2|USP14;nc|ENSG00000101557|P54578-3|USP14 ENSG00000101557|ENST00000261601|USP14 ENSG00000101557|ENST00000261601|USP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.2352905273438 2 525.23405 1048.45355 3.5557 0.0018676 -0.79261 -0.0004163 2.7631 0.0014513 525.2337425599025 67.281 0.35731 67.531 67.324 67.682 0.2501 35 22 2 0 0 0 0.26277 1 30853 30853 19.257 9.9096 1 415270 21496 1300 13529 13585 25024 25024 -0.06874175316420406 NTDEPPMVF 9 Unmodified _NTDEPPMVF_ 0 0 0 ENSG00000101557|ENST00000261601|USP14;nc|ENSG00000101557|P54578-2|USP14;nc|ENSG00000101557|P54578-3|USP14 ENSG00000101557|ENST00000261601|USP14 ENSG00000101557|ENST00000261601|USP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.2357177734375 2 525.23405 1048.45355 3.3415 0.0017551 0.08236 4.3258E-05 3.4238 0.0017983 525.234077993798 66.637 0.49655 67.294 67.103 67.599 0.65672 45 28 2 0 0 0 0.15661 1 30591 30591 26.268 6.8291 1 352530 21497 1300 13529 13585 25025 25025 -0.06874175316420406 NTDEPPMVF 9 Unmodified _NTDEPPMVF_ 0 0 0 ENSG00000101557|ENST00000261601|USP14;nc|ENSG00000101557|P54578-2|USP14;nc|ENSG00000101557|P54578-3|USP14 ENSG00000101557|ENST00000261601|USP14 ENSG00000101557|ENST00000261601|USP14 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 525.23405 1048.45355 2.6212 0.0013767 -4.2694 -0.0022424 -1.6483 -0.00086572 526.2330774206326 66.662 0.023949 67.367 67.35 67.374 0.7047 -0.030528 -0.0039509 NaN 26.268 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 779400 21498 1300 13529 13585 -0.06874175316420406 NTEISLEACL 10 Carbamidomethyl (C) _NTEISLEAC(Carbamidomethyl (C))L_ NTEISLEAC(1)L NTEISLEAC(42)L 0 1 0 nc|ENSG00000184321|Q9H342|OR51J1 nc|ENSG00000184321|Q9H342|OR51J1 nc|ENSG00000184321|Q9H342|OR51J1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1149.5489501953125 1 1149.54562 1148.53834 3.026 0.0034785 1.0439 0.0012 4.0699 0.0046785 1149.5463896516558 73.454 0.17386 74.153 74.115 74.289 0.69881 23 15 2 0 0 0 0.1787 1 35435 35435 41.84 19.103 1 2462300 21499 9782 13530 13586 25026 25026 105 -0.029988495704856177 NTEISLEACL 10 Carbamidomethyl (C) _NTEISLEAC(Carbamidomethyl (C))L_ NTEISLEAC(1)L NTEISLEAC(44)L 0 1 0 nc|ENSG00000184321|Q9H342|OR51J1 nc|ENSG00000184321|Q9H342|OR51J1 nc|ENSG00000184321|Q9H342|OR51J1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.2796020507812 2 575.276446 1148.53834 3.0369 0.0017471 0.69962 0.00040247 3.7365 0.0021495 575.2767574339999 74.162 0.39349 74.421 74.249 74.643 0.25876 129 48 4 0 0 0 0.16398 1 34101 34101 43.772 13.932 1 11032000 21500 9782 13530 13586 25027 25027 105 -0.029988495704856177 NTGYQRQLNYK 11 Unmodified _NTGYQRQLNYK_ 0 0 0 ENSG00000175899|ENST00000318602|A2M ENSG00000175899|ENST00000318602|A2M ENSG00000175899|ENST00000318602|A2M MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 692.8527221679688 2 692.852032 1383.68951 NaN NaN NaN NaN NaN NaN NaN 104.65 1 104.97 104.47 105.47 0.31863 0 0 0 1.0072 1 48312 48312 1.3295 0 1 21501 5054 13531 13587 25028 25028 0.0130147285244675 NTHSCLFVH 9 Unmodified _NTHSCLFVH_ 0 0 0 REV__ENST00000597544.5_1_19:53683054-53696636:-|nuORF REV__ENST00000597544.5_1_19:53683054-53696636:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.82611083984375 3 353.167643 1056.4811 2.2912 0.00080919 -0.11599 -4.0963E-05 2.1752 0.00076822 353.16815478217796 51.349 0.23677 52.008 51.939 52.176 0.65956 35 15 3 0 0 0 0.11293 1 23484 23484 2.4985 0.65425 1 467080 + 21502 17613 13532 13588 25029 25029 -0.04488227265505884 NTHSDDSGDDD 11 Unmodified _NTHSDDSGDDD_ 0 0 0 nc|ENSG00000184792|Q969R2-3|OSBP2;nc|ENSG00000184792|Q969R2-2|OSBP2;ENSG00000184792|ENST00000332585|OSBP2 nc|ENSG00000184792|Q969R2-3|OSBP2 nc|ENSG00000184792|Q969R2-3|OSBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.197509765625 2 589.197436 1176.38032 NaN NaN NaN NaN NaN NaN NaN 28.537 1 29.326 28.826 29.826 0.78921 0 0 0 1.0082 1 12853 12853 0 0 1 21503 5462 13533 13589 25030 25030 -0.20081677295979716 NTKKIKRYE 9 Unmodified _NTKKIKRYE_ 0 0 0 REV__ENSG00000105656|ENST00000262809|ELL REV__ENSG00000105656|ENST00000262809|ELL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.2341003417969 3 393.899662 1178.67716 2.687 0.0010584 -3.7173 -0.0014643 -1.0303 -0.00040584 394.2332048970517 51.293 0.23072 51.952 51.925 52.156 0.65956 19 15 2 0 0 0 0.98958 1 23460 23460 4.1895 0.31317 1 623070 + 21504 11047 13534 13590 25031 25031 0.09496481180030969 NTKLTPMEF 9 Unmodified _NTKLTPMEF_ 0 0 0 ENSG00000215182|ENST00000621226|MUC5AC ENSG00000215182|ENST00000621226|MUC5AC ENSG00000215182|ENST00000621226|MUC5AC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.7740478515625 2 540.773342 1079.53213 NaN NaN NaN NaN NaN NaN NaN 28.489 1 28.489 27.989 28.989 0 0 0 0 0.90611 1 12845 12845 2.0598 1.2661 1 21505 6128 13535 13591 25032 25032 -0.004453230113085738 NTPMRRALLT 10 Unmodified _NTPMRRALLT_ 0 0 0 nc|ENSG00000007202|Q14667-2|BLTP2;ENSG00000007202|ENST00000528896|BLTP2 nc|ENSG00000007202|Q14667-2|BLTP2 nc|ENSG00000007202|Q14667-2|BLTP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.8353881835938 2 586.832057 1171.64956 4.3348 0.0025438 2.7981 0.001642 7.1329 0.0041858 586.8337493477577 103.04 0.13631 103.36 103.29 103.42 0.31863 7 4 2 0 0 0 0.90196 1 47650 47650 3.5965 0.60125 1 364510 21506 362 13536 13592 25033 25033 0.07060254648149566 NTPMRRALLT 10 Unmodified _NTPMRRALLT_ 0 0 0 nc|ENSG00000007202|Q14667-2|BLTP2;ENSG00000007202|ENST00000528896|BLTP2 nc|ENSG00000007202|Q14667-2|BLTP2 nc|ENSG00000007202|Q14667-2|BLTP2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 586.832057 1171.64956 3.1664 0.0018581 4.7268 0.0027739 7.8932 0.004632 586.8343501010429 103.46 0.053345 103.46 103.43 103.48 0 -0.01562 0.0015324 NaN 3.5965 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 405420 21507 362 13536 13592 0.07060254648149566 NTPMRRALLT 10 Unmodified _NTPMRRALLT_ 0 0 0 nc|ENSG00000007202|Q14667-2|BLTP2;ENSG00000007202|ENST00000528896|BLTP2 nc|ENSG00000007202|Q14667-2|BLTP2 nc|ENSG00000007202|Q14667-2|BLTP2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 586.832057 1171.64956 3.7284 0.0021879 3.6124 0.0021198 7.3407 0.0043078 586.8337159067233 103 0.12104 103.6 103.53 103.65 0.59821 0.12991 0.00022435 NaN 3.5965 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 419560 21508 362 13536 13592 0.07060254648149566 NTRPPHVQLL 10 Unmodified _NTRPPHVQLL_ 0 0 0 ENST00000514698.5_1_4:980866-997838:+|nuORF;ENSG00000127415|ENST00000514224|IDUA;nc|ENSG00000127415|P35475-2|IDUA ENST00000514698.5_1_4:980866-997838:+|nuORF ENST00000514698.5_1_4:980866-997838:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 391.74432373046875 3 392.22789 1173.66184 NaN NaN NaN NaN NaN NaN NaN 103.39 1 103.39 102.89 103.89 0 0 0 0 0.99733 1 56988 56988 1.9064 0 1 21509 2479 13537 13593 25034 25034 0.08195614382839267 NTRRHGLR 8 Unmodified _NTRRHGLR_ 0 0 0 REV__nc|ENSG00000082805|Q8IUD2-5|ERC1 REV__nc|ENSG00000082805|Q8IUD2-5|ERC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.2942199707031 2 505.291748 1008.56894 3.8209 0.0019307 0.35213 0.00017793 4.1731 0.0021086 505.291629167539 93.368 0.73566 93.623 93.086 93.822 0.25497 72 38 3 0 0 0 0.7471 1 42851 42851 0.79363 0 1 4390700 + 21510 10620 13538 13594 25035 25035 0.06500154440141159 NVARGKKN 8 Unmodified _NVARGKKN_ 0 0 0 ENST00000511685.5_2_4:183721546-183721825:+|nuORF ENST00000511685.5_2_4:183721546-183721825:+|nuORF ENST00000511685.5_2_4:183721546-183721825:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 443.76544189453125 2 443.764501 885.514448 3.2482 0.0014414 0.1049 4.655E-05 3.3531 0.001488 443.7643454611637 86.839 0.39109 87.514 87.342 87.733 0.67555 40 16 4 0 0 0 0.7441 1 39974 39974 2.3027 0 1 2221700 21511 8565 13539 13595 25036 25036 0.06711142568701689 NVARWRKFVRY 11 Unmodified _NVARWRKFVRY_ 0 0 0 REV__nc|ENSG00000183654|A6NNE9-2|MARCHF11 REV__nc|ENSG00000183654|A6NNE9-2|MARCHF11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 747.926513671875 2 747.925669 1493.83679 NaN NaN NaN NaN NaN NaN NaN 68.939 1 69.641 69.141 70.141 0.70218 0 0 0 1.0072 1 32911 32911 1.3295 0 1 + 21512 13942 13540 13596 25037 25037 0.10962034247859265 NVDEGIYQL 9 Unmodified _NVDEGIYQL_ 0 0 0 nc|ENSG00000116584|Q92974-3|ARHGEF2;nc|ENSG00000116584|Q92974-2|ARHGEF2;ENSG00000116584|ENST00000361247|ARHGEF2;ENST00000474428.6_1_1:155922555-155932010:-|nuORF nc|ENSG00000116584|Q92974-3|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.760986328125 2 525.758746 1049.50294 3.3111 0.0017409 1.0568 0.00055562 4.3679 0.0022965 525.7588337115111 62.056 0.31805 62.309 62.139 62.457 0.25245 37 15 3 0 0 0 0.014491 2 28388 28388;28444 75.761 28.012 1 1485600 21513 2034 13541 13597 25038;25039 25038 -0.019831440359666885 NVDEGIYQL 9 Unmodified _NVDEGIYQL_ 0 0 0 nc|ENSG00000116584|Q92974-3|ARHGEF2;nc|ENSG00000116584|Q92974-2|ARHGEF2;ENSG00000116584|ENST00000361247|ARHGEF2;ENST00000474428.6_1_1:155922555-155932010:-|nuORF nc|ENSG00000116584|Q92974-3|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.7587890625 2 525.758746 1049.50294 3.205 0.0016851 0.29426 0.00015471 3.4993 0.0018398 525.7584195858809 61.456 0.26552 62.118 61.997 62.262 0.66261 29 13 3 0 0 0 0.014491 2 28139 28139;28200 75.761 28.012 1 1499300 21514 2034 13541 13597 25040;25041 25040 -0.019831440359666885 NVDPDNVVL 9 Unmodified _NVDPDNVVL_ 0 0 0 ENSG00000116717|ENST00000370986|GADD45A ENSG00000116717|ENST00000370986|GADD45A ENSG00000116717|ENST00000370986|GADD45A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 984.5064086914062 1 984.499652 983.492375 3.5846 0.003529 -0.60476 -0.00059539 2.9798 0.0029336 984.4998204384257 57.848 0.25495 57.848 57.724 57.979 0 35 23 2 0 0 0 0.00143 2 26648 26648;26695 110.67 14.564 1 1333600 21515 2044 13542 13598 25042;25043 25042 -3.126690376120678E-05 NVDPDNVVL 9 Unmodified _NVDPDNVVL_ 0 0 0 ENSG00000116717|ENST00000370986|GADD45A ENSG00000116717|ENST00000370986|GADD45A ENSG00000116717|ENST00000370986|GADD45A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.7549743652344 2 492.753464 983.492375 3.1459 0.0015502 2.0448 0.0010076 5.1907 0.0025577 492.7543733112826 57.513 0.4618 57.777 57.653 58.115 0.26444 76 29 4 0 0 0 0.0079462 2 26330 26330;26376 85.642 24.617 1 2837100 21516 2044 13542 13598 25044;25045 25044 -3.126690376120678E-05 NVDPDNVVL 9 Unmodified _NVDPDNVVL_ 0 0 0 ENSG00000116717|ENST00000370986|GADD45A ENSG00000116717|ENST00000370986|GADD45A ENSG00000116717|ENST00000370986|GADD45A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 984.5026245117188 1 984.499652 983.492375 3.538 0.0034832 0.7386 0.00072715 4.2766 0.0042104 984.5008577063941 57.505 0.23167 57.77 57.71 57.942 0.26443 21 13 2 0 0 0 0.0061394 1 26368 26368 89.401 3.7592 1 1076600 21517 2044 13542 13598 25046 25046 -3.126690376120678E-05 NVDPDNVVL 9 Unmodified _NVDPDNVVL_ 0 0 0 ENSG00000116717|ENST00000370986|GADD45A ENSG00000116717|ENST00000370986|GADD45A ENSG00000116717|ENST00000370986|GADD45A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 984.5076293945312 1 984.499652 983.492375 3.7921 0.0037333 0.81935 0.00080665 4.6114 0.0045399 984.5007167445917 57.057 0.31623 57.725 57.491 57.807 0.66829 22 15 2 0 0 0 1.0071E-05 2 26076 26052;26076 147.06 28.164 1 1407400 21518 2044 13542 13598 25047;25048 25048 -3.126690376120678E-05 NVDPDSVVL 9 Unmodified _NVDPDSVVL_ 0 0 0 ENSG00000099860|ENST00000215631|GADD45B ENSG00000099860|ENST00000215631|GADD45B ENSG00000099860|ENST00000215631|GADD45B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 957.4927978515625 1 957.488753 956.481476 3.4351 0.0032891 0.80436 0.00077016 4.2395 0.0040592 957.4895284554938 60.084 0.22426 60.084 60.01 60.234 0 49 27 2 0 0 0 0.0028306 2 27882 27818;27882 96.285 28.941 1 11676000 21519 1156 13543 13599 25049;25050 25050 0.0014947093535511158 NVDPDSVVL 9 Unmodified _NVDPDSVVL_ 0 0 0 ENSG00000099860|ENST00000215631|GADD45B ENSG00000099860|ENST00000215631|GADD45B ENSG00000099860|ENST00000215631|GADD45B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 479.24993896484375 2 479.248015 956.481476 2.8595 0.0013704 -0.029785 -1.4275E-05 2.8297 0.0013561 479.2480389853004 60.046 0.28325 60.046 59.964 60.248 0 71 34 3 0 0 0 0.024388 2 27829 27829;27910 62.573 14.227 1 8647600 21520 1156 13543 13599 25051;25052 25051 0.0014947093535511158 NVDPDSVVL 9 Unmodified _NVDPDSVVL_ 0 0 0 ENSG00000099860|ENST00000215631|GADD45B ENSG00000099860|ENST00000215631|GADD45B ENSG00000099860|ENST00000215631|GADD45B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 957.4915771484375 1 957.488753 956.481476 3.262 0.0031233 -0.068015 -6.5123E-05 3.1939 0.0030582 957.4885891330724 59.12 0.34413 59.879 59.73 60.074 0.75894 71 26 3 0 0 0 0.0046538 4 27161 27112;27161;27207;27252 92.491 27.256 1 9178200 21521 1156 13543 13599 25053;25054;25055;25056 25054 0.0014947093535511158 NVDPDSVVL 9 Unmodified _NVDPDSVVL_ 0 0 0 ENSG00000099860|ENST00000215631|GADD45B ENSG00000099860|ENST00000215631|GADD45B ENSG00000099860|ENST00000215631|GADD45B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.2491149902344 2 479.248015 956.481476 2.725 0.0013059 0.041787 2.0026E-05 2.7668 0.001326 479.24803692197554 59.115 0.44016 59.874 59.702 60.142 0.75894 100 34 4 0 0 0 0.010018 2 27156 27156;27200 81.89 25.713 1 10095000 21522 1156 13543 13599 25057;25058 25057 0.0014947093535511158 NVDPDSVVL 9 Unmodified _NVDPDSVVL_ 0 0 0 ENSG00000099860|ENST00000215631|GADD45B ENSG00000099860|ENST00000215631|GADD45B ENSG00000099860|ENST00000215631|GADD45B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 957.492919921875 1 957.488753 956.481476 3.7223 0.0035641 -0.23614 -0.0002261 3.4862 0.003338 957.4885198378125 59.718 0.43425 59.978 59.768 60.202 0.2593 64 25 3 0 0 0 0.0013631 4 27381 27282;27334;27381;27435 115.69 58.221 1 12932000 21523 1156 13543 13599 25059;25060;25061;25062 25061 0.0014947093535511158 NVDPDSVVL 9 Unmodified _NVDPDSVVL_ 0 0 0 ENSG00000099860|ENST00000215631|GADD45B ENSG00000099860|ENST00000215631|GADD45B ENSG00000099860|ENST00000215631|GADD45B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.2494201660156 2 479.248015 956.481476 3.0859 0.0014789 -0.18966 -9.0894E-05 2.8962 0.001388 479.2478927806493 59.716 0.48088 59.975 59.75 60.231 0.2593 73 27 3 0 0 0 0.0046538 3 27339 27292;27339;27382 92.491 36.314 1 14829000 21524 1156 13543 13599 25063;25064;25065 25064 0.0014947093535511158 NVDPDSVVL 9 Unmodified _NVDPDSVVL_ 0 0 0 ENSG00000099860|ENST00000215631|GADD45B ENSG00000099860|ENST00000215631|GADD45B ENSG00000099860|ENST00000215631|GADD45B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 957.4925537109375 1 957.488753 956.481476 3.8181 0.0036558 -0.066337 -6.3517E-05 3.7517 0.0035923 957.4885681614733 59.175 0.47374 59.842 59.587 60.061 0.66703 68 24 4 0 0 0 0.0028306 4 27155 27010;27055;27107;27155 96.285 31.05 1 10103000 21525 1156 13543 13599 25066;25067;25068;25069 25069 0.0014947093535511158 NVDPDSVVL 9 Unmodified _NVDPDSVVL_ 0 0 0 ENSG00000099860|ENST00000215631|GADD45B ENSG00000099860|ENST00000215631|GADD45B ENSG00000099860|ENST00000215631|GADD45B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.2494812011719 2 479.248015 956.481476 3.1248 0.0014976 -0.10305 -4.9387E-05 3.0218 0.0014482 479.24796719570264 59.178 0.44554 59.845 59.587 60.033 0.66703 67 23 4 0 0 0 0.010018 3 27070 27024;27070;27121 81.89 24.419 1 10862000 21526 1156 13543 13599 25070;25071;25072 25071 0.0014947093535511158 NVEEADAAM 9 Unmodified _NVEEADAAM_ 0 0 0 ENSG00000177733|ENST00000314940|HNRNPA0 ENSG00000177733|ENST00000314940|HNRNPA0 ENSG00000177733|ENST00000314940|HNRNPA0 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.2014465332031 2 475.200207 948.385861 3.0523 0.0014504 1.6143 0.00076713 4.6666 0.0022176 475.2003682910763 28.96 0.1823 29.22 29.187 29.37 0.2602 16 11 2 0 0 0 0.36069 1 13197 13197 14.838 7.549 1 182820 21527 5136 13544 13600 25073 25073 -0.09039625247214644 NVEEADAAM 9 Unmodified _NVEEADAAM_ 0 0 0 ENSG00000177733|ENST00000314940|HNRNPA0 ENSG00000177733|ENST00000314940|HNRNPA0 ENSG00000177733|ENST00000314940|HNRNPA0 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 475.200207 948.385861 3.0212 0.0014357 0.5986 0.00028445 3.6198 0.0017201 475.20073521536733 28.671 0.26988 29.291 29.142 29.412 0.61947 0.035329 -0.00049783 NaN 14.838 18 12 2 NaN NaN NaN NaN 0 NaN NaN 0 184120 21528 5136 13544 13600 -0.09039625247214644 NVEIWKIKKLI 11 Unmodified _NVEIWKIKKLI_ 0 0 0 ENST00000499810.6_1_5:137878520-137878607:-|nuORF;ENST00000507939.5_3_5:137865363-137878607:-|nuORF;ENSG00000120705|ENST00000360541|ETF1 ENST00000499810.6_1_5:137878520-137878607:-|nuORF ENST00000499810.6_1_5:137878520-137878607:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 692.1631469726562 2 692.439755 1382.86496 NaN NaN NaN NaN NaN NaN NaN 61.038 1 61.038 60.538 61.538 0 0 0 0 1.0073 1 28440 28440 1.1933 0.88631 1 21529 2209 13545 13601 25074 25074 0.18883919384597903 NVELDPEIQ 9 Unmodified _NVELDPEIQ_ 0 0 0 nc|ENSG00000186049|Q86Y46-2|KRT73;CON__Q6IME9;ENSG00000139648|ENST00000267119|KRT71;CON__Q3SY84;CON__Q9R0H5;ENSG00000170484|ENST00000305620|KRT74;CON__Q7RTS7;CON__Q6NXH9;ENSG00000186049|ENST00000305748|KRT73;CON__Q32MB2 nc|ENSG00000186049|Q86Y46-2|KRT73 nc|ENSG00000186049|Q86Y46-2|KRT73 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.7656860351562 2 528.764029 1055.5135 3.184 0.0016836 0.10307 5.4499E-05 3.2871 0.0017381 528.7640099306277 51.781 0.32405 51.781 51.575 51.899 0 53 23 3 0 0 0 0.012813 2 23716 23665;23716 78.06 0 1 1491100 + 21530 232 13546 13602 25075;25076 25076 -0.012031613815224773 NVELDPEIQ 9 Unmodified _NVELDPEIQ_ 0 0 0 nc|ENSG00000186049|Q86Y46-2|KRT73;CON__Q6IME9;ENSG00000139648|ENST00000267119|KRT71;CON__Q3SY84;CON__Q9R0H5;ENSG00000170484|ENST00000305620|KRT74;CON__Q7RTS7;CON__Q6NXH9;ENSG00000186049|ENST00000305748|KRT73;CON__Q32MB2 nc|ENSG00000186049|Q86Y46-2|KRT73 nc|ENSG00000186049|Q86Y46-2|KRT73 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.764892578125 2 528.764029 1055.5135 2.8046 0.001483 -0.16717 -8.8394E-05 2.6375 0.0013946 528.763891536605 51.027 0.25564 51.845 51.703 51.959 0.81738 36 15 3 0 0 0 0.012813 2 23252 23205;23252 78.06 0 1 2411300 + 21531 232 13546 13602 25077;25078 25078 -0.012031613815224773 NVELDPEIQ 9 Unmodified _NVELDPEIQ_ 0 0 0 nc|ENSG00000186049|Q86Y46-2|KRT73;CON__Q6IME9;ENSG00000139648|ENST00000267119|KRT71;CON__Q3SY84;CON__Q9R0H5;ENSG00000170484|ENST00000305620|KRT74;CON__Q7RTS7;CON__Q6NXH9;ENSG00000186049|ENST00000305748|KRT73;CON__Q32MB2 nc|ENSG00000186049|Q86Y46-2|KRT73 nc|ENSG00000186049|Q86Y46-2|KRT73 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.765625 2 528.764029 1055.5135 3.1023 0.0016404 1.8048 0.00095429 4.9071 0.0025947 528.763840402461 50.958 0.22735 51.618 51.51 51.738 0.65956 26 12 3 0 0 0 0.076469 1 23306 23306 38.615 0 1 537350 + 21532 232 13546 13602 25079 25079 -0.012031613815224773 NVFCLIKKNS 10 Unmodified _NVFCLIKKNS_ 0 0 0 nc|ENSG00000128512|Q8N1I0-2|DOCK4;nc|ENSG00000128512|Q8N1I0|DOCK4;ENSG00000128512|ENST00000428084|DOCK4 nc|ENSG00000128512|Q8N1I0-2|DOCK4 nc|ENSG00000128512|Q8N1I0-2|DOCK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.3270874023438 2 583.323534 1164.63251 NaN NaN NaN NaN NaN NaN NaN 26.309 1 26.309 25.809 26.809 0 0 0 0 0.99774 1 11837 11837 3.5965 1.7523 1 21533 2513 13547 13603 25080 25080 0.05678334042363531 NVFKILQPN 9 Unmodified _NVFKILQPN_ 0 0 0 ENSG00000112159|ENST00000369393|MDN1;MDN1|p.L3673Pfs*5|1|0.33|ENSG00000112159|chr6:89689875-89689876|-/G|frameshift_variant ENSG00000112159|ENST00000369393|MDN1 ENSG00000112159|ENST00000369393|MDN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 357.8898010253906 3 358.209836 1071.60768 2.3762 0.00085119 1.0376 0.00037167 3.4138 0.0012229 358.2100940873195 37.319 0.51443 38.115 37.904 38.419 0.79552 40 24 2 0 0 0 1.0041 1 16982 16982 2.2828 0.19677 1 461500 21534 1795 13548 13604 25081 25081 0.07474022231281197 NVGAPDVTL 9 Unmodified _NVGAPDVTL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 885.470458984375 1 885.467623 884.460347 3.6226 0.0032077 0.25967 0.00022993 3.8823 0.0034376 885.4680911019177 55.91 0.1577 55.91 55.841 55.999 0 14 10 2 0 0 0 0.017293 1 25721 25721 71.922 31.965 1 865480 21535 2385 13549 13605 25082 25082 0.013495056264787308 NVGAPDVTL 9 Unmodified _NVGAPDVTL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 885.4700927734375 1 885.467623 884.460347 3.2405 0.0028693 -0.3074 -0.00027219 2.9331 0.0025971 885.466693300965 55.044 0.22716 55.831 55.727 55.954 0.78711 20 14 2 0 0 0 0.027384 1 25141 25141 58.679 24.576 1 482070 21536 2385 13549 13605 25083 25083 0.013495056264787308 NVGAPDVTL 9 Unmodified _NVGAPDVTL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 885.4710693359375 1 885.467623 884.460347 3.917 0.0034684 0.30191 0.00026733 4.2189 0.0037357 885.4680802980505 55.093 0.27187 55.761 55.584 55.856 0.66798 20 11 2 0 0 0 0.012326 2 25224 25169;25224 78.728 30.382 1 779250 21537 2385 13549 13605 25084;25085 25085 0.013495056264787308 NVGVNKKRGLR 11 Unmodified _NVGVNKKRGLR_ 0 0 0 nc|ENSG00000084693|Q8NDL9-3|AGBL5;nc|ENSG00000084693|Q8NDL9-2|AGBL5;ENSG00000084693|ENST00000360131|AGBL5 nc|ENSG00000084693|Q8NDL9-3|AGBL5 nc|ENSG00000084693|Q8NDL9-3|AGBL5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 620.8841552734375 2 620.88347 1239.75239 NaN NaN NaN NaN NaN NaN NaN 57.623 1 57.623 57.123 58.123 0 0 0 0 1.0072 1 26565 26565 1.3295 0 1 21538 960 13550 13606 25086 25086 0.1421008343113499 NVIHSVKRKN 10 Unmodified _NVIHSVKRKN_ 0 0 0 ENST00000468403.1_1_1:153751697-153752222:+|nuORF ENST00000468403.1_1_1:153751697-153752222:+|nuORF ENST00000468403.1_1_1:153751697-153752222:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.8590698242188 2 597.856921 1193.69929 4.1819 0.0025002 -1.1487 -0.00068674 3.0332 0.0018134 597.856047462573 87.599 1.5253 88.275 87.488 89.013 0.67554 152 70 4 0 0 0 0.93788 1 40286 40286 1.3295 0.87119 1 3695000 21539 8155 13551 13607 25087 25087 0.11018705648461946 NVIPIGHV 8 Unmodified _NVIPIGHV_ 0 0 0 nc|ENSG00000165309|Q5W041-4|ARMC3;ENSG00000165309|ENST00000298032|ARMC3 nc|ENSG00000165309|Q5W041-4|ARMC3 nc|ENSG00000165309|Q5W041-4|ARMC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 424.7549133300781 2 424.75307 847.491587 NaN NaN NaN NaN NaN NaN NaN 13.718 1 13.961 13.461 14.461 0.24346 0 0 0 0.99035 1 6001 6001 2.5775 0.27475 1 21540 4388 13552 13608 25088 25088 0.06174123451239666 NVIQRRGRAGR 11 Unmodified _NVIQRRGRAGR_ 0 0 0 nc|ENSG00000132153|Q7L2E3-3|DHX30;ENSG00000132153|ENST00000445061|DHX30;nc|ENSG00000132153|Q7L2E3-2|DHX30 nc|ENSG00000132153|Q7L2E3-3|DHX30 nc|ENSG00000132153|Q7L2E3-3|DHX30 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.8870849609375 2 641.881793 1281.74903 4.3363 0.0027834 1.187 0.0007619 5.5232 0.0035453 641.8822261805838 92.901 0.75487 93.156 92.728 93.483 0.25497 82 41 3 0 0 0 0.91111 1 42816 42816 1.1933 0.23107 1 770680 21541 2682 13553 13609 25089 25089 0.11942833377111128 NVIQRRGRAGR 11 Unmodified _NVIQRRGRAGR_ 0 0 0 nc|ENSG00000132153|Q7L2E3-3|DHX30;ENSG00000132153|ENST00000445061|DHX30;nc|ENSG00000132153|Q7L2E3-2|DHX30 nc|ENSG00000132153|Q7L2E3-3|DHX30 nc|ENSG00000132153|Q7L2E3-3|DHX30 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.8844604492188 2 641.881793 1281.74903 4.1103 0.0026383 1.1928 0.00076566 5.3031 0.003404 641.8823640476354 92.382 1.1525 93.029 92.627 93.779 0.64714 85 58 2 0 0 0 0.89309 1 42597 42597 2.7352 1.4057 1 936840 21542 2682 13553 13609 25090 25090 0.11942833377111128 NVIRHCQLRFR 11 Unmodified _NVIRHCQLRFR_ 0 0 0 REV__nc|ENSG00000151067|Q13936-2|CACNA1C REV__nc|ENSG00000151067|Q13936-2|CACNA1C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 721.404541015625 2 721.401504 1440.78845 NaN NaN NaN NaN NaN NaN NaN 95.515 1 95.515 95.015 96.015 0 0 0 0 1.0072 1 51450 51450 1.3295 0 1 + 21543 12604 13554 13610 25091 25091 0.08569217336298607 NVKEKIYAV 9 Unmodified _NVKEKIYAV_ 0 0 0 nc|ENSG00000196141|Q9NUQ6-2|SPATS2L;ENSG00000196141|ENST00000409140|SPATS2L;nc|ENSG00000196141|Q9NUQ6-4|SPATS2L;nc|ENSG00000196141|Q9NUQ6-3|SPATS2L nc|ENSG00000196141|Q9NUQ6-2|SPATS2L nc|ENSG00000196141|Q9NUQ6-2|SPATS2L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.312255859375 2 532.310949 1062.60735 NaN NaN NaN NaN NaN NaN NaN 24.67 1 24.67 24.17 25.17 0 0 0 0 0.025394 1 11093 11093 63.961 31.175 1 21544 5722 13555 13611 25092 25092 0.07854602511406483 NVKEKIYAV 9 Unmodified _NVKEKIYAV_ 0 0 0 nc|ENSG00000196141|Q9NUQ6-2|SPATS2L;ENSG00000196141|ENST00000409140|SPATS2L;nc|ENSG00000196141|Q9NUQ6-4|SPATS2L;nc|ENSG00000196141|Q9NUQ6-3|SPATS2L nc|ENSG00000196141|Q9NUQ6-2|SPATS2L nc|ENSG00000196141|Q9NUQ6-2|SPATS2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 532.31298828125 2 532.310949 1062.60735 3.1734 0.0016893 -0.34497 -0.00018363 2.8285 0.0015056 532.3107795753473 24.429 0.15556 24.7 24.653 24.809 0.27129 56 30 2 0 0 0 7.8118E-14 2 11049 11049;11092 165.72 94.587 1 10383000 21545 5722 13555 13611 25093;25094 25093 0.07854602511406483 NVKEKIYAV 9 Unmodified _NVKEKIYAV_ 0 0 0 nc|ENSG00000196141|Q9NUQ6-2|SPATS2L;ENSG00000196141|ENST00000409140|SPATS2L;nc|ENSG00000196141|Q9NUQ6-4|SPATS2L;nc|ENSG00000196141|Q9NUQ6-3|SPATS2L nc|ENSG00000196141|Q9NUQ6-2|SPATS2L nc|ENSG00000196141|Q9NUQ6-2|SPATS2L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.3120727539062 2 532.310949 1062.60735 NaN NaN NaN NaN NaN NaN NaN 24.026 1 24.661 24.161 25.161 0.63441 0 0 0 9.7567E-12 1 10982 10982 140.63 74.176 1 21546 5722 13555 13611 25095 25095 0.07854602511406483 NVKEKIYAV 9 Unmodified _NVKEKIYAV_ 0 0 0 nc|ENSG00000196141|Q9NUQ6-2|SPATS2L;ENSG00000196141|ENST00000409140|SPATS2L;nc|ENSG00000196141|Q9NUQ6-4|SPATS2L;nc|ENSG00000196141|Q9NUQ6-3|SPATS2L nc|ENSG00000196141|Q9NUQ6-2|SPATS2L nc|ENSG00000196141|Q9NUQ6-2|SPATS2L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.3120727539062 2 532.310949 1062.60735 NaN NaN NaN NaN NaN NaN NaN 24.143 1 24.778 24.278 25.278 0.63441 0 0 0 3.9748E-24 1 11042 11042 165.72 80.079 1 21547 5722 13555 13611 25096 25096 0.07854602511406483 NVKLKPML 8 Unmodified _NVKLKPML_ 0 0 0 ENSG00000128655|ENST00000286063|PDE11A;nc|ENSG00000128655|Q9HCR9-4|PDE11A;nc|ENSG00000128655|Q9HCR9-3|PDE11A;nc|ENSG00000128655|Q9HCR9-2|PDE11A;ENST00000478646.5_1_2:178494137-178540272:-|nuORF ENSG00000128655|ENST00000286063|PDE11A ENSG00000128655|ENST00000286063|PDE11A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.7957458496094 2 471.793881 941.573209 3.0362 0.0014324 -1.792 -0.00084545 1.2442 0.00058699 471.7941836553976 35.411 0.32425 36.037 35.842 36.167 0.62631 15 9 2 0 0 0 0.5047 1 16239 16239 20.871 9.7567 1 129540 21548 2522 13556 13612 25097 25097 0.10008482818807352 NVKVDPEIQ 9 Unmodified _NVKVDPEIQ_ 0 0 0 ENSG00000172867|ENST00000309680|KRT2;CON__P35908v2;CON__P35908;KRT2|p.N217Qfs*33|1|0.04|ENSG00000172867|chr12:52650471-52650490|ATGGGGCGGGTGCCAACATT/-|frameshift_variant ENSG00000172867|ENST00000309680|KRT2 ENSG00000172867|ENST00000309680|KRT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.2841796875 2 521.282389 1040.55022 3.4558 0.0018014 0.25264 0.0001317 3.7084 0.0019331 521.2824824370828 29.909 0.28397 29.909 29.747 30.031 0 52 22 3 0 0 0 0.001383 2 13523 13477;13523 114.2 31.672 1 1255500 + 21549 221 13557 13613 25098;25099 25099 0.031571352350511006 NVKVDPEIQ 9 Unmodified _NVKVDPEIQ_ 0 0 0 ENSG00000172867|ENST00000309680|KRT2;CON__P35908v2;CON__P35908;KRT2|p.N217Qfs*33|1|0.04|ENSG00000172867|chr12:52650471-52650490|ATGGGGCGGGTGCCAACATT/-|frameshift_variant ENSG00000172867|ENST00000309680|KRT2 ENSG00000172867|ENST00000309680|KRT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.2841186523438 2 521.282389 1040.55022 3.5071 0.0018282 -0.21771 -0.00011349 3.2894 0.0017147 521.2822414354707 29.102 0.34086 29.891 29.683 30.024 0.78921 60 25 3 0 0 0 0.001383 2 13126 13075;13126 114.2 35.474 1 890230 + 21550 221 13557 13613 25100;25101 25101 0.031571352350511006 NVKVDPEIQ 9 Unmodified _NVKVDPEIQ_ 0 0 0 ENSG00000172867|ENST00000309680|KRT2;CON__P35908v2;CON__P35908;KRT2|p.N217Qfs*33|1|0.04|ENSG00000172867|chr12:52650471-52650490|ATGGGGCGGGTGCCAACATT/-|frameshift_variant ENSG00000172867|ENST00000309680|KRT2 ENSG00000172867|ENST00000309680|KRT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.7864990234375 2 521.282389 1040.55022 3.5236 0.0018368 0.16754 8.7338E-05 3.6912 0.0019241 521.2822230748341 29.468 0.22049 29.726 29.613 29.833 0.25804 20 12 2 0 0 0 0.15661 1 13399 13399 26.268 5.8145 1 264210 + 21551 221 13557 13613 25102 25102 0.031571352350511006 NVKVDPEIQ 9 Unmodified _NVKVDPEIQ_ 0 0 0 ENSG00000172867|ENST00000309680|KRT2;CON__P35908v2;CON__P35908;KRT2|p.N217Qfs*33|1|0.04|ENSG00000172867|chr12:52650471-52650490|ATGGGGCGGGTGCCAACATT/-|frameshift_variant ENSG00000172867|ENST00000309680|KRT2 ENSG00000172867|ENST00000309680|KRT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.284423828125 2 521.282389 1040.55022 3.3496 0.0017461 0.002044 1.0655E-06 3.3516 0.0017471 521.2824130195631 29.171 0.16379 29.789 29.738 29.902 0.61789 22 12 2 0 0 0 0.11155 1 13382 13382 29.841 4.4413 1 375090 + 21552 221 13557 13613 25103 25103 0.031571352350511006 NVKYKRWAL 9 Unmodified _NVKYKRWAL_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10;nc|ENSG00000128607|Q6PID8-2|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.5688781738281 3 393.232864 1176.67676 NaN NaN NaN NaN NaN NaN NaN 29.413 1 29.413 28.913 29.913 0 0 0 0 0.72654 1 13274 13274 11.495 5.3029 1 21553 2520 13558 13614 25104 25104 0.09549106250847217 NVKYKRWAL 9 Unmodified _NVKYKRWAL_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10;nc|ENSG00000128607|Q6PID8-2|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.23394775390625 3 393.232864 1176.67676 3.0133 0.0011849 0.49286 0.00019381 3.5062 0.0013788 393.2330859455547 29.183 0.3159 29.443 29.299 29.615 0.2602 33 19 2 0 0 0 0.24465 2 13247 13247;13294 19.362 19.362 1 482800 21554 2520 13558 13614 25105;25106 25105 0.09549106250847217 NVKYKRWAL 9 Unmodified _NVKYKRWAL_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10;nc|ENSG00000128607|Q6PID8-2|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.2340087890625 3 393.232864 1176.67676 2.832 0.0011136 -0.050557 -1.9881E-05 2.7814 0.0010937 393.2327159095079 28.882 0.20676 29.5 29.446 29.653 0.61789 24 19 2 0 0 0 0.10169 1 13257 13257 29.841 14.102 1 870470 21555 2520 13558 13614 25107 25107 0.09549106250847217 NVKYYRFYDRE 11 Unmodified _NVKYYRFYDRE_ 0 0 0 REV__nc|ENSG00000086619|Q86YB8-2|ERO1B REV__nc|ENSG00000086619|Q86YB8-2|ERO1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 776.429931640625 2 776.88079 1551.74703 NaN NaN NaN NaN NaN NaN NaN 12.408 1 12.408 11.908 12.908 0 0 0 0 1.008 1 5382 5382 0.35063 0 1 + 21556 10657 13559 13615 25108 25108 -0.006776849420248254 NVLARWPKAI 10 Unmodified _NVLARWPKAI_ 0 0 0 REV__AluSx_dup36597|chr6:31181261-31181538:+|1.0973757676720983|0.2428367131672077|2.18|536.0|3|1|sense REV__AluSx_dup36597|chr6:31181261-31181538:+|1.0973757676720983|0.2428367131672077|2.18|536.0|3|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.3558959960938 2 584.353483 1166.69241 NaN NaN NaN NaN NaN NaN NaN 86.099 1 86.77 86.27 87.27 0.67061 0 0 0 1.0001 1 39649 39649 1.6526 0.17072 1 + 21557 9951 13560 13616 25109 25109 0.11573392767900259 NVLEAIVFVH 10 Unmodified _NVLEAIVFVH_ 0 0 0 REV__ENSG00000272047|ENST00000607778|GTF2H5 REV__ENSG00000272047|ENST00000607778|GTF2H5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 380.885986328125 3 380.885241 1139.63389 NaN NaN NaN NaN NaN NaN NaN 61.967 1 62.698 62.198 63.198 0.73077 0 0 0 0.99774 1 28814 28814 1.7423 0.52744 1 + 21558 14717 13561 13617 25110 25110 0.06966291402750358 NVLRRDLKPQ 10 Unmodified _NVLRRDLKPQ_ 0 0 0 ENST00000442838.2_1_8:123781530-123781986:+|nuORF ENST00000442838.2_1_8:123781530-123781986:+|nuORF ENST00000442838.2_1_8:123781530-123781986:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.871826171875 2 619.870028 1237.7255 NaN NaN NaN NaN NaN NaN NaN 87.921 1 88.172 87.672 88.672 0.25064 0 0 0 1.0013 1 40460 40460 1.4819 0.15237 1 21559 7949 13562 13618 25111 25111 0.11614974819917734 NVLVNRPNIR 10 Unmodified _NVLVNRPNIR_ 0 0 0 ENSG00000156587|ENST00000287156|UBE2L6;nc|ENSG00000156587|O14933-2|UBE2L6 ENSG00000156587|ENST00000287156|UBE2L6 ENSG00000156587|ENST00000287156|UBE2L6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.8582763671875 2 597.856921 1193.69929 4.1885 0.0025041 -0.64247 -0.00038411 3.5461 0.00212 597.8562632215801 88.623 0.81973 89.301 89.016 89.836 0.67818 65 35 3 0 0 0 0.93713 1 40782 40782 1.4819 0 1 741520 21560 3918 13563 13619 25112 25112 0.11018705648439209 NVLWICFLRRR 11 Unmodified _NVLWICFLRRR_ 0 0 0 ENST00000506423.1_1_4:89198354-89199383:-|nuORF ENST00000506423.1_1_4:89198354-89199383:-|nuORF ENST00000506423.1_1_4:89198354-89199383:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.6214294433594 3 492.618724 1474.83434 NaN NaN NaN NaN NaN NaN NaN 6.6299 1 6.6299 6.1299 7.1299 0 0 0 0 1.008 1 3002 3002 0.08335 0 1 21561 8513 13564 13620 25113 25113 0.11591862518548623 NVLYNKFRW 9 Unmodified _NVLYNKFRW_ 0 0 0 REV__ENST00000276682.8_1_8:117777777-117777918:-|nuORF REV__ENST00000276682.8_1_8:117777777-117777918:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 620.337890625 2 620.33529 1238.65603 NaN NaN NaN NaN NaN NaN NaN 39.599 1 39.599 39.099 40.099 0 0 0 0 0.90611 1 17969 17969 2.0598 0.40713 1 + 21562 15079 13565 13621 25114 25114 0.04624515871182666 NVNNWRWR 8 Unmodified _NVNNWRWR_ 0 0 0 ENST00000463681.1_1_2:61404673-61406216:+|nuORF;ENST00000357022.6_2_2:61404673-61404988:+|nuORF ENST00000463681.1_1_2:61404673-61406216:+|nuORF ENST00000463681.1_1_2:61404673-61406216:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 572.7892456054688 2 572.791581 1143.56861 NaN NaN NaN NaN NaN NaN NaN 11.017 1 11.296 10.796 11.796 0.2792 0 0 0 0.99035 1 4782 4782 0.79363 0.19213 1 21563 7168 13566 13622 25115 25115 0.002567347202784731 NVQGPDWHL 9 Unmodified _NVQGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.2609252929688 2 533.259248 1064.50394 3.5108 0.0018722 -0.14403 -7.6804E-05 3.3668 0.0017954 533.2590855765418 53.927 0.53668 53.927 53.742 54.279 0 80 40 3 0 0 0 0.015468 2 24753 24702;24753 74.423 45.936 1 5362200 21564 2385 13567 13623 25116;25117 25117 -0.025728848763719725 NVQGPDWHL 9 Unmodified _NVQGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.260498046875 2 533.259248 1064.50394 2.884 0.0015379 -0.34943 -0.00018634 2.5346 0.0013516 533.2590723336683 52.811 0.43261 53.614 53.458 53.891 0.80351 69 29 3 0 0 0 0.023109 3 24076 24029;24076;24121 64.236 42.49 1 5119900 21565 2385 13567 13623 25118;25119;25120 25119 -0.025728848763719725 NVQGPDWHL 9 Unmodified _NVQGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.2608642578125 2 533.259248 1064.50394 3.0182 0.0016095 0.276 0.00014718 3.2942 0.0017566 533.2592966566579 53.848 0.62962 54.113 53.907 54.536 0.26462 61 27 4 0 0 0 0.020151 2 24632 24580;24632 68.081 42.681 1 5068100 21566 2385 13567 13623 25121;25122 25122 -0.025728848763719725 NVQGPDWHL 9 Unmodified _NVQGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.2605590820312 2 533.259248 1064.50394 3.0734 0.0016389 -0.035533 -1.8948E-05 3.0379 0.00162 533.2590614176241 53.3 0.3695 53.965 53.762 54.132 0.6644 45 14 4 0 0 0 0.023109 2 24342 24342;24400 64.236 42.49 1 5720800 21567 2385 13567 13623 25123;25124 25123 -0.025728848763719725 NVREKVISF 9 Unmodified _NVREKVISF_ 0 0 0 ENST00000486274.5_1_3:99980342-100042509:+|nuORF;nc|ENSG00000036054|Q9NUY8-2|TBC1D23;ENSG00000036054|ENST00000394144|TBC1D23 ENST00000486274.5_1_3:99980342-100042509:+|nuORF ENST00000486274.5_1_3:99980342-100042509:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.3159790039062 2 546.314023 1090.61349 3.528 0.0019274 0.48854 0.0002669 4.0166 0.0021943 546.8163011769582 35.611 0.30632 35.866 35.713 36.02 0.25524 15 10 2 0 0 0 0.27958 1 16236 16236 18.146 3.3081 1 240750 21568 513 13568 13624 25125 25125 0.07181120742939129 NVREKVISF 9 Unmodified _NVREKVISF_ 0 0 0 ENST00000486274.5_1_3:99980342-100042509:+|nuORF;nc|ENSG00000036054|Q9NUY8-2|TBC1D23;ENSG00000036054|ENST00000394144|TBC1D23 ENST00000486274.5_1_3:99980342-100042509:+|nuORF ENST00000486274.5_1_3:99980342-100042509:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 546.314023 1090.61349 3.5821 0.0019569 2.293 0.0012527 5.875 0.0032096 546.3146062343911 35.184 0.21536 35.807 35.719 35.934 0.62294 -0.029596 0.00092459 NaN 18.146 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 308090 21569 513 13568 13624 0.07181120742939129 NVRKIFLRWKY 11 Unmodified _NVRKIFLRWKY_ 0 0 0 ENST00000476499.1_1_10:24918849-25010828:-|nuORF ENST00000476499.1_1_10:24918849-25010828:-|nuORF ENST00000476499.1_1_10:24918849-25010828:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 761.95166015625 2 761.953895 1521.89324 NaN NaN NaN NaN NaN NaN NaN 55.224 1 55.224 54.724 55.724 0 0 0 0 1.0072 1 25362 25362 1.3295 1.0225 1 21570 8232 13569 13625 25126 25126 0.1531666208452407 NVRLEAIRAEY 11 Unmodified _NVRLEAIRAEY_ 0 0 0 ENSG00000233802|ENST00000623787|TRIM49D2;ENSG00000223417|ENST00000420869|TRIM49D1 ENSG00000233802|ENST00000623787|TRIM49D2 ENSG00000233802|ENST00000623787|TRIM49D2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 667.3651123046875 2 667.364776 1332.715 NaN NaN NaN NaN NaN NaN NaN 18.619 1 18.833 18.333 19.333 0.21445 0 0 0 1.0073 1 8284 8284 1.1933 0 1 21571 6158 13570 13626 25127 25127 0.06194947374842741 NVRPTRIQVE 10 Unmodified _NVRPTRIQVE_ 0 0 0 REV__ENST00000448635.2_1_19:17378325-17387315:+|nuORF REV__ENST00000448635.2_1_19:17378325-17387315:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.0436401367188 2 606.346386 1210.67822 NaN NaN NaN NaN NaN NaN NaN 57.119 1 57.897 57.397 58.397 0.77786 0 0 0 0.99774 1 26136 26136 3.5965 0.31518 1 + 21572 11030 13571 13627 25128 25128 0.08130695548902622 NVRRFRLRLGG 11 Unmodified _NVRRFRLRLGG_ 0 0 0 ENST00000310421.4_1_8:67579238-67579442:-|nuORF ENST00000310421.4_1_8:67579238-67579442:-|nuORF ENST00000310421.4_1_8:67579238-67579442:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 672.9120483398438 2 672.410186 1342.80582 4.1327 0.0027788 -1.3281 -0.00089306 2.8045 0.0018858 672.4092272823628 91.344 0.40433 92.006 91.851 92.256 0.66198 27 17 2 0 0 0 0.91345 1 42033 42033 0.30703 0 1 585490 21573 6864 13572 13628 25129 25129 0.14812880933618544 NVRRIERRR 9 Unmodified _NVRRIERRR_ 0 0 0 ENST00000578686.1_1_17:37816548-37817339:+|nuORF;ENST00000481171.5_1_17:37816530-37818669:+|nuORF;ENST00000584850.5_1_17:37816530-37819158:+|nuORF;ENST00000488876.5_1_17:37814522-37819158:+|nuORF;nc|ENSG00000131748|Q14849-2|STARD3;nc|ENSG00000131748|Q14849-3|STARD3;ENSG00000131748|ENST00000336308|STARD3 ENST00000578686.1_1_17:37816548-37817339:+|nuORF ENST00000578686.1_1_17:37816548-37817339:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 418.9253845214844 3 418.925316 1253.75412 NaN NaN NaN NaN NaN NaN NaN 54.746 1 55.413 54.913 55.913 0.6665 0 0 0 0.90673 1 25053 25053 1.9064 0.45126 1 21574 2672 13573 13629 25130 25130 0.13739137239713273 NVRRTKRTRLK 11 Unmodified _NVRRTKRTRLK_ 0 0 0 ENSG00000145241|ENST00000273853|CENPC;ENST00000533085.2_1_12:89894792-89896268:+|nuORF;ENST00000510189.5_1_4:68359569-68411187:-|nuORF ENSG00000145241|ENST00000273853|CENPC ENSG00000145241|ENST00000273853|CENPC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 714.4579467773438 2 714.455125 1426.8957 NaN NaN NaN NaN NaN NaN NaN 77.187 1 77.187 76.687 77.687 0 0 0 0 1.0072 1 37845 37845 1.3295 0.92882 1 21575 3458 13574 13630 25131 25131 0.19932510542207638 NVRWSHDYQW 10 Unmodified _NVRWSHDYQW_ 0 0 0 nc|ENSG00000165521|Q05BV3-4|EML5;nc|ENSG00000165521|Q05BV3-2|EML5;nc|ENSG00000165521|Q05BV3|EML5;ENSG00000165521|ENST00000554922|EML5 nc|ENSG00000165521|Q05BV3-4|EML5 nc|ENSG00000165521|Q05BV3-4|EML5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 695.8158569335938 2 695.817993 1389.62143 NaN NaN NaN NaN NaN NaN NaN 29.805 1 29.805 29.305 30.305 0 0 0 0 1.0015 1 13458 13458 0.45834 0.057624 1 21576 4405 13575 13631 25132 25132 -0.05779352007562011 NVSVYYIF 8 Unmodified _NVSVYYIF_ 0 0 0 REV__nc|ENSG00000154258|Q8IUA7-2|ABCA9 REV__nc|ENSG00000154258|Q8IUA7-2|ABCA9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1004.5172119140625 1 1004.50876 1003.50148 3.682 0.0036986 1.5219 0.0015288 5.2039 0.0052274 1004.510446073114 79.087 0.27477 79.748 79.561 79.836 0.66082 28 16 2 0 0 0 0.51067 1 36428 36428 20.454 1.1966 1 554760 + 21577 12702 13576 13632 25133 25133 -0.00012733334040149202 NVTFRRAK 8 Unmodified _NVTFRRAK_ 0 0 0 ENST00000498666.5_1_21:46314678-46340855:-|nuORF;ENSG00000160255|ENST00000652462|ITGB2 ENST00000498666.5_1_21:46314678-46340855:-|nuORF ENST00000498666.5_1_21:46314678-46340855:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.1998596191406 3 331.198042 990.572297 NaN NaN NaN NaN NaN NaN NaN 28.455 1 29.245 28.745 29.745 0.78921 0 0 0 0.99035 1 12816 12816 3.2813 0.78282 1 21578 4051 13577 13633 25134 25134 0.0766340449413292 NVVGWYKFRRH 11 Unmodified _NVVGWYKFRRH_ 0 0 0 ENSG00000163322|ENST00000321945|ABRAXAS1 ENSG00000163322|ENST00000321945|ABRAXAS1 ENSG00000163322|ENST00000321945|ABRAXAS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 731.398681640625 2 731.396744 1460.77894 NaN NaN NaN NaN NaN NaN NaN 84.055 1 84.302 83.802 84.802 0.24744 0 0 0 1.008 1 38689 38689 0.35063 0 1 21579 4202 13578 13634 25135 25135 0.06697772322445417 NVVMLGMA 8 Unmodified _NVVMLGMA_ 0 0 0 ENSG00000114270|ENST00000681320|COL7A1;nc|ENSG00000114270|Q02388-2|COL7A1 ENSG00000114270|ENST00000681320|COL7A1 ENSG00000114270|ENST00000681320|COL7A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 417.7162780761719 2 417.714242 833.413931 NaN NaN NaN NaN NaN NaN NaN 52.717 1 52.981 52.481 53.481 0.26345 0 0 0 0.99035 1 24100 24100 5.7604 2.8712 1 21580 1894 13579 13635 25136 25136 -0.009439738008154563 NVYAQKRLKKK 11 Unmodified _NVYAQKRLKKK_ 0 0 0 ENSG00000187527|ENST00000342358|ATP13A5 ENSG00000187527|ENST00000342358|ATP13A5 ENSG00000187527|ENST00000342358|ATP13A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 688.430908203125 2 688.430253 1374.84595 NaN NaN NaN NaN NaN NaN NaN 48.156 1 48.985 48.485 49.485 0.82915 0 0 0 1.008 1 21938 21938 0.35063 0 1 21581 5620 13580 13636 25137 25137 0.1735238281353304 NVYEWWFRWR 10 Unmodified _NVYEWWFRWR_ 0 0 0 ENSG00000127995|ENST00000297273|CASD1 ENSG00000127995|ENST00000297273|CASD1 ENSG00000127995|ENST00000297273|CASD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 771.3749389648438 2 771.375478 1540.7364 NaN NaN NaN NaN NaN NaN NaN 65.654 1 65.902 65.402 66.402 0.24848 0 0 0 1.0015 1 30077 30077 0.45834 0.10771 1 21582 2497 13581 13637 25138 25138 -0.012336228058074994 NVYKKHRILKI 11 Unmodified _NVYKKHRILKI_ 0 0 0 ATM|p.Q2066Rfs*16|1|0.31|ENSG00000149311|chr11:108316109-108316109|T/-|frameshift_variant;ATM|p.T2640Lfs*6|1|0.34|ENSG00000149311|chr11:108332890-108332890|G/-|frameshift_variant;ENSG00000149311|ENST00000675843|ATM;ENST00000533733.5_1_11:108158320-108160529:+|nuORF;ENST00000524792.5_1_11:108158320-108236232:+|nuORF ATM|p.Q2066Rfs*16|1|0.31|ENSG00000149311|chr11:108316109-108316109|T/-|frameshift_variant ATM|p.Q2066Rfs*16|1|0.31|ENSG00000149311|chr11:108316109-108316109|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 706.4483642578125 2 706.448446 1410.88234 NaN NaN NaN NaN NaN NaN NaN 50.412 1 51.235 50.735 51.735 0.82285 0 0 0 1.008 1 22963 22963 0.35063 0 1 21583 76 13582 13638 25139 25139 0.19333259710265338 NWECIYRITV 10 Unmodified _NWECIYRITV_ 0 0 0 CUBN|p.G3046Rfs*16|1|0.05|ENSG00000107611|chr10:16874474-16874475|-/T|frameshift_variant;CUBN|p.R3382Kfs*3|1|0.14|ENSG00000107611|chr10:16836269-16836270|TC/-|frameshift_variant;CUBN|p.K3401Rfs*11|1|0.02|ENSG00000107611|chr10:16835174-16835175|-/TTTTGAATGATTCC|frameshift_variant;ENSG00000107611|ENST00000377833|CUBN CUBN|p.G3046Rfs*16|1|0.05|ENSG00000107611|chr10:16874474-16874475|-/T|frameshift_variant CUBN|p.G3046Rfs*16|1|0.05|ENSG00000107611|chr10:16874474-16874475|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.88671875 3 432.885024 1295.63324 NaN NaN NaN NaN NaN NaN NaN 32.758 1 33.546 33.046 34.046 0.78795 0 0 0 1.0012 1 14820 14820 0.69767 0 1 21584 251 13583 13639 25140 25140 -0.0027487130862482445 NWFWFFWTVYM 11 Unmodified _NWFWFFWTVYM_ 0 0 0 REV__ENSG00000186908|ENST00000426126|ZDHHC17 REV__ENSG00000186908|ENST00000426126|ZDHHC17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 813.9834594726562 2 813.865566 1625.71658 NaN NaN NaN NaN NaN NaN NaN 90.668 1 90.668 90.168 91.168 0 0 0 0 1.0082 1 47714 47714 0 0 1 + 21585 14078 13584 13640 25141 25141 -0.07125134860780236 NWGCEVQFSR 10 Unmodified _NWGCEVQFSR_ 0 0 0 ENST00000479747.1_1_9:130678362-130679146:-|nuORF ENST00000479747.1_1_9:130678362-130679146:-|nuORF ENST00000479747.1_1_9:130678362-130679146:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 408.7522888183594 3 409.185474 1224.53459 NaN NaN NaN NaN NaN NaN NaN 103.01 1 103.33 102.83 103.83 0.31863 0 0 0 1.0003 1 47636 47636 0.62683 0 1 21586 8267 13585 13641 25142 25142 -0.06869474553673172 NWIYFSCIH 9 Unmodified _NWIYFSCIH_ 0 0 0 ENST00000540915.5_1_12:6797483-6797618:-|nuORF ENST00000540915.5_1_12:6797483-6797618:-|nuORF ENST00000540915.5_1_12:6797483-6797618:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.5666198730469 3 394.851543 1181.5328 NaN NaN NaN NaN NaN NaN NaN 14.494 1 14.494 13.994 14.994 0 0 0 0 0.91014 1 6385 6385 1.0715 0.29493 1 21587 8807 13586 13642 25143 25143 -0.0507048357160329 NWKHRKNKY 9 Unmodified _NWKHRKNKY_ 0 0 0 ENST00000261839.11_1_15:52527899-52529692:-|nuORF ENST00000261839.11_1_15:52527899-52529692:-|nuORF ENST00000261839.11_1_15:52527899-52529692:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 425.2345886230469 3 425.235267 1272.68397 NaN NaN NaN NaN NaN NaN NaN 26.899 1 26.899 26.399 27.399 0 0 0 0 0.91014 1 12115 12115 1.0715 0.44464 1 21588 6564 13587 13643 25144 25144 0.058538388512715755 NWKLKNVL 8 Unmodified _NWKLKNVL_ 0 0 0 REV__ENSG00000110092|ENST00000227507|CCND1 REV__ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 338.8749694824219 3 338.874677 1013.6022 2.265 0.00076754 -0.71758 -0.00024317 1.5474 0.00052437 338.87446261826693 40.846 0.17582 41.65 41.572 41.748 0.80351 32 18 2 0 0 0 0.3435 2 18501 18501;18551 32.305 6.9062 1 4115700 + 21589 11196 13588 13644 25145;25146 25145 0.09594343439448494 NWKLKNVL 8 Unmodified _NWKLKNVL_ 0 0 0 REV__ENSG00000110092|ENST00000227507|CCND1 REV__ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.8756408691406 3 338.874677 1013.6022 2.6747 0.00090638 -0.32845 -0.0001113 2.3462 0.00079508 338.8745225252927 41.838 0.38846 42.109 41.842 42.23 0.27021 41 27 2 0 0 0 0.17174 3 19052 19003;19052;19105 46.021 20.622 1 18783000 + 21590 11196 13588 13644 25147;25148;25149 25148 0.09594343439448494 NWKLKNVL 8 Unmodified _NWKLKNVL_ 0 0 0 REV__ENSG00000110092|ENST00000227507|CCND1 REV__ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.8748779296875 3 338.874677 1013.6022 2.515 0.00085227 0.080272 2.7202E-05 2.5953 0.00087947 338.87468717548035 41.129 0.29631 41.773 41.682 41.978 0.64451 52 20 4 0 0 0 0.26626 2 18792 18792;18855 37.974 12.575 1 16648000 + 21591 11196 13588 13644 25150;25151 25150 0.09594343439448494 NWKLKNVL 8 Unmodified _NWKLKNVL_ 0 0 0 REV__ENSG00000110092|ENST00000227507|CCND1 REV__ENSG00000110092|ENST00000227507|CCND1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 338.874677 1013.6022 2.265 0.00076754 -0.71758 -0.00024317 1.5474 0.00052437 338.87446261826693 40.846 0.17582 41.65 41.572 41.748 0.80351 -0.061839 -0.0003881 NaN 37.974 32 18 2 NaN NaN NaN NaN 0 NaN NaN 0 4115700 + 21592 11196 13588 13644 0.09594343439448494 NWPSRPYLF 9 Unmodified _NWPSRPYLF_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.3015747070312 2 590.300916 1178.58728 NaN NaN NaN NaN NaN NaN NaN 68.466 1 68.466 67.966 68.966 0 0 0 0 0.52632 1 32966 32966 18.146 1.2041 1 21593 2521 13589 13645 25152 25152 0.005128515714659443 NWPSRPYLF 9 Unmodified _NWPSRPYLF_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 590.3037109375 2 590.300916 1178.58728 3.8682 0.0022834 -0.20468 -0.00012082 3.6635 0.0021626 590.3010150313037 68.359 0.41154 68.611 68.464 68.875 0.25227 47 28 2 0 0 0 0.047285 3 31320 31320;31370;31431 48.346 26.599 1 651460 21594 2521 13589 13645 25153;25154;25155 25153 0.005128515714659443 NWPSRPYLF 9 Unmodified _NWPSRPYLF_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.3034057617188 2 590.300916 1178.58728 3.6204 0.0021371 -0.17277 -0.00010199 3.4477 0.0020352 590.3011181072183 67.868 0.41099 68.526 68.296 68.707 0.65777 39 25 2 0 0 0 0.19064 2 31059 31059;31154 24.021 12.38 1 554740 21595 2521 13589 13645 25156;25157 25156 0.005128515714659443 NWRPRFRYYHW 11 Unmodified _NWRPRFRYYHW_ 0 0 0 nc|ENSG00000124140|Q9H2X9|SLC12A5;ENSG00000124140|ENST00000243964|SLC12A5;ENST00000560023.1_1_15:34533432-34537514:-|nuORF;nc|ENSG00000140199|Q9UHW9-6|SLC12A6;nc|ENSG00000140199|Q9UHW9-5|SLC12A6;nc|ENSG00000140199|Q9UHW9-2|SLC12A6;nc|ENSG00000140199|Q9UHW9-3|SLC12A6;nc|ENSG00000140199|Q9UHW9-4|SLC12A6;ENSG00000140199|ENST00000354181|SLC12A6 nc|ENSG00000124140|Q9H2X9|SLC12A5;nc|ENSG00000140199|Q9UHW9-6|SLC12A6 nc|ENSG00000140199|Q9UHW9-6|SLC12A6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.980712890625 3 560.948009 1679.8222 NaN NaN NaN NaN NaN NaN NaN 67.628 1 67.628 67.128 68.128 0 0 0 0 1.0082 1 32478 32478 0 0 1 21596 2339;3184 13590 13646 25158 25158 0.00947962099758115 NWRPRFRYYHW 11 Unmodified _NWRPRFRYYHW_ 0 0 0 nc|ENSG00000124140|Q9H2X9|SLC12A5;ENSG00000124140|ENST00000243964|SLC12A5;ENST00000560023.1_1_15:34533432-34537514:-|nuORF;nc|ENSG00000140199|Q9UHW9-6|SLC12A6;nc|ENSG00000140199|Q9UHW9-5|SLC12A6;nc|ENSG00000140199|Q9UHW9-2|SLC12A6;nc|ENSG00000140199|Q9UHW9-3|SLC12A6;nc|ENSG00000140199|Q9UHW9-4|SLC12A6;ENSG00000140199|ENST00000354181|SLC12A6 nc|ENSG00000124140|Q9H2X9|SLC12A5;nc|ENSG00000140199|Q9UHW9-6|SLC12A6 nc|ENSG00000140199|Q9UHW9-6|SLC12A6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.898681640625 3 560.948009 1679.8222 NaN NaN NaN NaN NaN NaN NaN 65.49 1 66.199 65.699 66.699 0.70891 0 0 0 1.0082 1 30981 30981 0 0 1 21597 2339;3184 13590 13646 25159 25159 0.00947962099758115 NWRRKLRWPRR 11 Unmodified _NWRRKLRWPRR_ 0 0 0 REV__ENST00000505606.6_1_5:43121886-43122210:+|nuORF REV__ENST00000505606.6_1_5:43121886-43122210:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.3924560546875 3 541.990431 1622.94946 NaN NaN NaN NaN NaN NaN NaN 67.747 1 68.45 67.95 68.95 0.70218 0 0 0 1.0082 1 32245 32245 0.08335 0.08335 1 + 21598 16922 13591 13647 25160 25160 0.162907277645445 NWRRKLRWPRR 11 Unmodified _NWRRKLRWPRR_ 0 0 0 REV__ENST00000505606.6_1_5:43121886-43122210:+|nuORF REV__ENST00000505606.6_1_5:43121886-43122210:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 812.4808349609375 2 812.482008 1622.94946 NaN NaN NaN NaN NaN NaN NaN 72.885 1 73.584 73.084 74.084 0.69881 0 0 0 1.0082 1 35116 35116 0 0 1 + 21599 16922 13591 13647 25161 25161 0.162907277645445 NWRRKRRWKRD 11 Unmodified _NWRRKRRWKRD_ 0 0 0 REV__ENST00000553345.5_1_20:31020694-31021097:+|nuORF REV__ENST00000553345.5_1_20:31020694-31021097:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.6884155273438 3 552.985457 1655.93454 NaN NaN NaN NaN NaN NaN NaN 106.17 1 106.49 105.99 106.99 0.31628 0 0 0 1.0082 1 49001 49001 0 0 1 + 21600 17303 13592 13648 25162 25162 0.1328123589655661 NYAAALETF 9 Unmodified _NYAAALETF_ 0 0 0 nc|ENSG00000165416|Q9Y2Z0|SUGT1;ENSG00000165416|ENST00000310528|SUGT1;ENST00000379514.2_1_9:33503785-33510678:-|nuORF nc|ENSG00000165416|Q9Y2Z0|SUGT1 nc|ENSG00000165416|Q9Y2Z0|SUGT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.2445983886719 2 500.242732 998.470912 3.4856 0.0017437 0.19863 9.9366E-05 3.6842 0.001843 500.24284819524166 68.087 0.21858 68.339 68.232 68.451 0.25227 25 18 2 0 0 0 0.028312 1 31198 31198 57.471 40.529 1 324160 21601 4398 13593 13649 25163 25163 -0.028385117190964593 NYAAALETF 9 Unmodified _NYAAALETF_ 0 0 0 nc|ENSG00000165416|Q9Y2Z0|SUGT1;ENSG00000165416|ENST00000310528|SUGT1;ENST00000379514.2_1_9:33503785-33510678:-|nuORF nc|ENSG00000165416|Q9Y2Z0|SUGT1 nc|ENSG00000165416|Q9Y2Z0|SUGT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.243408203125 2 500.242732 998.470912 3.1892 0.0015954 -0.042473 -2.1247E-05 3.1467 0.0015741 500.24265927004797 67.546 0.16008 68.204 68.135 68.296 0.65777 16 11 2 0 0 0 0.028312 1 30974 30974 57.471 40.529 1 297540 21602 4398 13593 13649 25164 25164 -0.028385117190964593 NYADQISRL 9 Unmodified _NYADQISRL_ 0 0 0 nc|ENSG00000138834|Q9UPT6|MAPK8IP3;ENSG00000138834|ENST00000610761|MAPK8IP3;nc|ENSG00000138834|Q9UPT6-2|MAPK8IP3;SPAG9|p.K569Nfs*2|1|0.05|ENSG00000008294|chr17:50998574-50998575|GC/-|frameshift_variant;SPAG9|p.K569Nfs*4|1|0.05|ENSG00000008294|chr17:50998575-50998576|-/AATA|frameshift_variant;ENST00000514613.5_1_17:49067015-49156972:-|nuORF;nc|ENSG00000008294|O60271-5|SPAG9;nc|ENSG00000008294|O60271-3|SPAG9;nc|ENSG00000008294|O60271-4|SPAG9;nc|ENSG00000008294|O60271-2|SPAG9;ENSG00000008294|ENST00000262013|SPAG9 nc|ENSG00000138834|Q9UPT6|MAPK8IP3 nc|ENSG00000138834|Q9UPT6|MAPK8IP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.2781982421875 2 540.277638 1078.54072 3.0562 0.0016512 -0.10416 -5.6273E-05 2.952 0.0015949 540.2777730567859 47.409 0.30238 47.409 47.21 47.512 0 35 16 3 0 0 0 0.0010698 2 21685 21666;21685 125.53 46.801 1 1558800 21603 3123 13594 13650 25165;25166 25166 0.004593669495079666 NYADQISRL 9 Unmodified _NYADQISRL_ 0 0 0 nc|ENSG00000138834|Q9UPT6|MAPK8IP3;ENSG00000138834|ENST00000610761|MAPK8IP3;nc|ENSG00000138834|Q9UPT6-2|MAPK8IP3;SPAG9|p.K569Nfs*2|1|0.05|ENSG00000008294|chr17:50998574-50998575|GC/-|frameshift_variant;SPAG9|p.K569Nfs*4|1|0.05|ENSG00000008294|chr17:50998575-50998576|-/AATA|frameshift_variant;ENST00000514613.5_1_17:49067015-49156972:-|nuORF;nc|ENSG00000008294|O60271-5|SPAG9;nc|ENSG00000008294|O60271-3|SPAG9;nc|ENSG00000008294|O60271-4|SPAG9;nc|ENSG00000008294|O60271-2|SPAG9;ENSG00000008294|ENST00000262013|SPAG9 nc|ENSG00000138834|Q9UPT6|MAPK8IP3 nc|ENSG00000138834|Q9UPT6|MAPK8IP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.2791137695312 2 540.277638 1078.54072 3.03 0.0016371 -0.46767 -0.00025267 2.5623 0.0013844 540.2776444165341 46.308 0.25556 47.137 46.943 47.198 0.82915 24 12 3 0 0 0 0.0043297 2 21068 21068;21111 93.166 38.392 1 1443200 21604 3123 13594 13650 25167;25168 25167 0.004593669495079666 NYADQISRL 9 Unmodified _NYADQISRL_ 0 0 0 nc|ENSG00000138834|Q9UPT6|MAPK8IP3;ENSG00000138834|ENST00000610761|MAPK8IP3;nc|ENSG00000138834|Q9UPT6-2|MAPK8IP3;SPAG9|p.K569Nfs*2|1|0.05|ENSG00000008294|chr17:50998574-50998575|GC/-|frameshift_variant;SPAG9|p.K569Nfs*4|1|0.05|ENSG00000008294|chr17:50998575-50998576|-/AATA|frameshift_variant;ENST00000514613.5_1_17:49067015-49156972:-|nuORF;nc|ENSG00000008294|O60271-5|SPAG9;nc|ENSG00000008294|O60271-3|SPAG9;nc|ENSG00000008294|O60271-4|SPAG9;nc|ENSG00000008294|O60271-2|SPAG9;ENSG00000008294|ENST00000262013|SPAG9 nc|ENSG00000138834|Q9UPT6|MAPK8IP3 nc|ENSG00000138834|Q9UPT6|MAPK8IP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.2789306640625 2 540.277638 1078.54072 3.4236 0.0018497 -0.084173 -4.5477E-05 3.3394 0.0018042 540.2776185213011 47.386 0.30592 47.65 47.441 47.747 0.26363 23 12 3 0 0 0 0.018453 1 21621 21621 70.332 24.311 1 765120 21605 3123 13594 13650 25169 25169 0.004593669495079666 NYADQISRL 9 Unmodified _NYADQISRL_ 0 0 0 nc|ENSG00000138834|Q9UPT6|MAPK8IP3;ENSG00000138834|ENST00000610761|MAPK8IP3;nc|ENSG00000138834|Q9UPT6-2|MAPK8IP3;SPAG9|p.K569Nfs*2|1|0.05|ENSG00000008294|chr17:50998574-50998575|GC/-|frameshift_variant;SPAG9|p.K569Nfs*4|1|0.05|ENSG00000008294|chr17:50998575-50998576|-/AATA|frameshift_variant;ENST00000514613.5_1_17:49067015-49156972:-|nuORF;nc|ENSG00000008294|O60271-5|SPAG9;nc|ENSG00000008294|O60271-3|SPAG9;nc|ENSG00000008294|O60271-4|SPAG9;nc|ENSG00000008294|O60271-2|SPAG9;ENSG00000008294|ENST00000262013|SPAG9 nc|ENSG00000138834|Q9UPT6|MAPK8IP3 nc|ENSG00000138834|Q9UPT6|MAPK8IP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.2794799804688 2 540.277638 1078.54072 3.4046 0.0018395 0.49063 0.00026508 3.8953 0.0021045 540.2779740345917 46.829 0.21863 47.481 47.318 47.537 0.65219 17 6 3 0 0 0 0.011692 1 21428 21428 79.596 24.823 1 711470 21606 3123 13594 13650 25170 25170 0.004593669495079666 NYAFLHRTL 9 Unmodified _NYAFLHRTL_ 0 0 0 ENSG00000128394|ENST00000308521|APOBEC3F;nc|ENSG00000179750|Q9UH17-2|APOBEC3B;nc|ENSG00000179750|Q9UH17-3|APOBEC3B;ENSG00000179750|ENST00000333467|APOBEC3B ENSG00000128394|ENST00000308521|APOBEC3F;ENSG00000179750|ENST00000333467|APOBEC3B ENSG00000179750|ENST00000333467|APOBEC3B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.8741149902344 3 378.873336 1133.59818 NaN NaN NaN NaN NaN NaN NaN 42.49 1 43.137 42.637 43.637 0.64693 0 0 0 0.89245 1 19464 19464 5.4027 1.2132 1 21607 2510;5228 13595 13651 25171 25171 0.03672253945774173 NYAPAFTML 9 Unmodified _NYAPAFTML_ 0 0 0 ENSG00000198677|ENST00000358746|SKIC3;ENST00000508181.5_1_5:94842662-94852339:-|nuORF ENSG00000198677|ENST00000358746|SKIC3;ENST00000508181.5_1_5:94842662-94852339:-|nuORF ENSG00000198677|ENST00000358746|SKIC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.3563842773438 2 514.249503 1026.48445 3.2568 0.0016748 1.5773 0.00081113 4.8341 0.0024859 514.2498129469283 81.722 0.21743 81.97 81.759 81.976 0.24803 14 9 2 0 0 0 0.5141 1 37574 37574 18.135 9.5417 1 309280 21608 5912;8527 13596 13652 25172 25172 -0.027729772114980733 NYAQVLDKF 9 Unmodified _NYAQVLDKF_ 0 0 0 ENST00000519169.5_1_8:131191508-131249207:-|nuORF;ENSG00000153317|ENST00000518721|ASAP1;nc|ENSG00000153317|Q9ULH1-2|ASAP1 ENST00000519169.5_1_8:131191508-131249207:-|nuORF ENST00000519169.5_1_8:131191508-131249207:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.7871704101562 2 549.284931 1096.55531 3.5917 0.0019729 0.24263 0.00013327 3.8344 0.0021062 549.2850967673728 59.763 0.23255 60.022 59.919 60.151 0.2593 19 15 2 0 0 0 0.030603 1 27390 27390 55.503 30.103 1 808390 21609 3784 13597 13653 25173 25173 0.010894390976773138 NYAQVLDKF 9 Unmodified _NYAQVLDKF_ 0 0 0 ENST00000519169.5_1_8:131191508-131249207:-|nuORF;ENSG00000153317|ENST00000518721|ASAP1;nc|ENSG00000153317|Q9ULH1-2|ASAP1 ENST00000519169.5_1_8:131191508-131249207:-|nuORF ENST00000519169.5_1_8:131191508-131249207:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.2858276367188 2 549.284931 1096.55531 3.5372 0.0019429 0.52092 0.00028613 4.0582 0.0022291 549.2848829440339 59.258 0.16774 59.925 59.772 59.939 0.66703 11 6 2 0 0 0 0.0076144 1 27115 27115 86.332 48.156 1 839080 21610 3784 13597 13653 25174 25174 0.010894390976773138 NYAQVLDKF 9 Unmodified _NYAQVLDKF_ 0 0 0 ENST00000519169.5_1_8:131191508-131249207:-|nuORF;ENSG00000153317|ENST00000518721|ASAP1;nc|ENSG00000153317|Q9ULH1-2|ASAP1 ENST00000519169.5_1_8:131191508-131249207:-|nuORF ENST00000519169.5_1_8:131191508-131249207:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 549.284931 1096.55531 3.4447 0.0018921 1.8592 0.0010212 5.3039 0.0029133 549.2848231428586 59.821 0.063175 59.821 59.772 59.835 0 -0.10168 0.001592 NaN 86.332 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1110300 21611 3784 13597 13653 0.010894390976773138 NYARGHYTI 9 Unmodified _NYARGHYTI_ 0 0 0 ENSG00000167552|ENST00000301071|TUBA1A;ENSG00000075886|ENST00000321253|TUBA3D;ENSG00000152086|ENST00000312988|TUBA3E;ENSG00000198033|ENST00000400113|TUBA3C;ENSG00000167553|ENST00000301072|TUBA1C;nc|ENSG00000198033|P0DPH7-2|TUBA3C;ENSG00000123416|ENST00000336023|TUBA1B;nc|ENSG00000167552|Q71U36-2|TUBA1A;ENSG00000127824|ENST00000248437|TUBA4A;ENST00000548363.1_1_12:49580068-49582762:-|nuORF;nc|ENSG00000127824|P68366-2|TUBA4A;ENST00000550254.1_1_12:49580068-49580335:-|nuORF;ENST00000462806.5_1_2:220116196-220118580:-|nuORF;ENST00000530835.1_1_11:90015825-90016947:+|nuORF ENSG00000167552|ENST00000301071|TUBA1A ENSG00000167552|ENST00000301071|TUBA1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 365.5184020996094 3 365.51744 1093.53049 2.8064 0.0010258 -0.099401 -3.6333E-05 2.707 0.00098944 365.51743938108837 22.18 0.42745 22.18 21.954 22.382 0 108 32 4 0 0 0 0.20384 3 9899 9899;9944;9985 20.415 11.669 1 5914400 21612 839 13598 13654 25175;25176;25177 25175 -0.012531959850548446 NYARGHYTI 9 Unmodified _NYARGHYTI_ 0 0 0 ENSG00000167552|ENST00000301071|TUBA1A;ENSG00000075886|ENST00000321253|TUBA3D;ENSG00000152086|ENST00000312988|TUBA3E;ENSG00000198033|ENST00000400113|TUBA3C;ENSG00000167553|ENST00000301072|TUBA1C;nc|ENSG00000198033|P0DPH7-2|TUBA3C;ENSG00000123416|ENST00000336023|TUBA1B;nc|ENSG00000167552|Q71U36-2|TUBA1A;ENSG00000127824|ENST00000248437|TUBA4A;ENST00000548363.1_1_12:49580068-49582762:-|nuORF;nc|ENSG00000127824|P68366-2|TUBA4A;ENST00000550254.1_1_12:49580068-49580335:-|nuORF;ENST00000462806.5_1_2:220116196-220118580:-|nuORF;ENST00000530835.1_1_11:90015825-90016947:+|nuORF ENSG00000167552|ENST00000301071|TUBA1A ENSG00000167552|ENST00000301071|TUBA1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.7747192382812 2 547.772522 1093.53049 3.7691 0.0020646 0.082265 4.5062E-05 3.8513 0.0021096 547.7725652498657 22.177 0.3754 22.177 21.987 22.363 0 86 28 4 0 0 0 0.001731 2 9935 9935;9982 106.94 103.35 1 2374800 21613 839 13598 13654 25178;25179 25178 -0.012531959850548446 NYARGHYTI 9 Unmodified _NYARGHYTI_ 0 0 0 ENSG00000167552|ENST00000301071|TUBA1A;ENSG00000075886|ENST00000321253|TUBA3D;ENSG00000152086|ENST00000312988|TUBA3E;ENSG00000198033|ENST00000400113|TUBA3C;ENSG00000167553|ENST00000301072|TUBA1C;nc|ENSG00000198033|P0DPH7-2|TUBA3C;ENSG00000123416|ENST00000336023|TUBA1B;nc|ENSG00000167552|Q71U36-2|TUBA1A;ENSG00000127824|ENST00000248437|TUBA4A;ENST00000548363.1_1_12:49580068-49582762:-|nuORF;nc|ENSG00000127824|P68366-2|TUBA4A;ENST00000550254.1_1_12:49580068-49580335:-|nuORF;ENST00000462806.5_1_2:220116196-220118580:-|nuORF;ENST00000530835.1_1_11:90015825-90016947:+|nuORF ENSG00000167552|ENST00000301071|TUBA1A ENSG00000167552|ENST00000301071|TUBA1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 365.51800537109375 3 365.51744 1093.53049 NaN NaN NaN NaN NaN NaN NaN 20.858 1 21.263 20.763 21.763 0.40533 0 0 0 0.26328 1 9257 9257 20.415 6.1964 1 21614 839 13598 13654 25180 25180 -0.012531959850548446 NYARGHYTI 9 Unmodified _NYARGHYTI_ 0 0 0 ENSG00000167552|ENST00000301071|TUBA1A;ENSG00000075886|ENST00000321253|TUBA3D;ENSG00000152086|ENST00000312988|TUBA3E;ENSG00000198033|ENST00000400113|TUBA3C;ENSG00000167553|ENST00000301072|TUBA1C;nc|ENSG00000198033|P0DPH7-2|TUBA3C;ENSG00000123416|ENST00000336023|TUBA1B;nc|ENSG00000167552|Q71U36-2|TUBA1A;ENSG00000127824|ENST00000248437|TUBA4A;ENST00000548363.1_1_12:49580068-49582762:-|nuORF;nc|ENSG00000127824|P68366-2|TUBA4A;ENST00000550254.1_1_12:49580068-49580335:-|nuORF;ENST00000462806.5_1_2:220116196-220118580:-|nuORF;ENST00000530835.1_1_11:90015825-90016947:+|nuORF ENSG00000167552|ENST00000301071|TUBA1A ENSG00000167552|ENST00000301071|TUBA1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.7734985351562 2 547.772522 1093.53049 NaN NaN NaN NaN NaN NaN NaN 20.924 1 21.329 20.829 21.829 0.40533 0 0 0 1.8719E-10 1 9284 9284 129.77 73.595 1 21615 839 13598 13654 25181 25181 -0.012531959850548446 NYARGHYTI 9 Unmodified _NYARGHYTI_ 0 0 0 ENSG00000167552|ENST00000301071|TUBA1A;ENSG00000075886|ENST00000321253|TUBA3D;ENSG00000152086|ENST00000312988|TUBA3E;ENSG00000198033|ENST00000400113|TUBA3C;ENSG00000167553|ENST00000301072|TUBA1C;nc|ENSG00000198033|P0DPH7-2|TUBA3C;ENSG00000123416|ENST00000336023|TUBA1B;nc|ENSG00000167552|Q71U36-2|TUBA1A;ENSG00000127824|ENST00000248437|TUBA4A;ENST00000548363.1_1_12:49580068-49582762:-|nuORF;nc|ENSG00000127824|P68366-2|TUBA4A;ENST00000550254.1_1_12:49580068-49580335:-|nuORF;ENST00000462806.5_1_2:220116196-220118580:-|nuORF;ENST00000530835.1_1_11:90015825-90016947:+|nuORF ENSG00000167552|ENST00000301071|TUBA1A ENSG00000167552|ENST00000301071|TUBA1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.5180969238281 3 365.51744 1093.53049 NaN NaN NaN NaN NaN NaN NaN 21.212 1 21.499 20.999 21.999 0.28662 0 0 0 0.69911 1 9612 9612 12.241 0 1 21616 839 13598 13654 25182 25182 -0.012531959850548446 NYARGHYTI 9 Unmodified _NYARGHYTI_ 0 0 0 ENSG00000167552|ENST00000301071|TUBA1A;ENSG00000075886|ENST00000321253|TUBA3D;ENSG00000152086|ENST00000312988|TUBA3E;ENSG00000198033|ENST00000400113|TUBA3C;ENSG00000167553|ENST00000301072|TUBA1C;nc|ENSG00000198033|P0DPH7-2|TUBA3C;ENSG00000123416|ENST00000336023|TUBA1B;nc|ENSG00000167552|Q71U36-2|TUBA1A;ENSG00000127824|ENST00000248437|TUBA4A;ENST00000548363.1_1_12:49580068-49582762:-|nuORF;nc|ENSG00000127824|P68366-2|TUBA4A;ENST00000550254.1_1_12:49580068-49580335:-|nuORF;ENST00000462806.5_1_2:220116196-220118580:-|nuORF;ENST00000530835.1_1_11:90015825-90016947:+|nuORF ENSG00000167552|ENST00000301071|TUBA1A ENSG00000167552|ENST00000301071|TUBA1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.7744750976562 2 547.772522 1093.53049 NaN NaN NaN NaN NaN NaN NaN 21.318 1 21.605 21.105 22.105 0.28662 0 0 0 1.0965E-06 1 9653 9653 118.07 57.679 1 21617 839 13598 13654 25183 25183 -0.012531959850548446 NYARGHYTI 9 Unmodified _NYARGHYTI_ 0 0 0 ENSG00000167552|ENST00000301071|TUBA1A;ENSG00000075886|ENST00000321253|TUBA3D;ENSG00000152086|ENST00000312988|TUBA3E;ENSG00000198033|ENST00000400113|TUBA3C;ENSG00000167553|ENST00000301072|TUBA1C;nc|ENSG00000198033|P0DPH7-2|TUBA3C;ENSG00000123416|ENST00000336023|TUBA1B;nc|ENSG00000167552|Q71U36-2|TUBA1A;ENSG00000127824|ENST00000248437|TUBA4A;ENST00000548363.1_1_12:49580068-49582762:-|nuORF;nc|ENSG00000127824|P68366-2|TUBA4A;ENST00000550254.1_1_12:49580068-49580335:-|nuORF;ENST00000462806.5_1_2:220116196-220118580:-|nuORF;ENST00000530835.1_1_11:90015825-90016947:+|nuORF ENSG00000167552|ENST00000301071|TUBA1A ENSG00000167552|ENST00000301071|TUBA1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.5185241699219 3 365.51744 1093.53049 NaN NaN NaN NaN NaN NaN NaN 21.389 1 21.675 21.175 22.175 0.28662 0 0 0 0.3934 1 9685 9685 21.537 7.1316 1 21618 839 13598 13654 25184 25184 -0.012531959850548446 NYASTFTWW 9 Unmodified _NYASTFTWW_ 0 0 0 ENSG00000052802|ENST00000261507|MSMO1;nc|ENSG00000052802|Q15800-2|MSMO1 ENSG00000052802|ENST00000261507|MSMO1 ENSG00000052802|ENST00000261507|MSMO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.265625 2 588.261456 1174.50836 3.999 0.0023525 0.5286 0.00031095 4.5276 0.0026634 588.262050034407 91.286 0.28451 91.537 91.423 91.708 0.25163 23 10 3 0 0 0 0.10169 1 41985 41985 32.305 17.467 1 578300 21619 594 13599 13655 25185 25185 -0.07191420453455066 NYASTFTWW 9 Unmodified _NYASTFTWW_ 0 0 0 ENSG00000052802|ENST00000261507|MSMO1;nc|ENSG00000052802|Q15800-2|MSMO1 ENSG00000052802|ENST00000261507|MSMO1 ENSG00000052802|ENST00000261507|MSMO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.263916015625 2 588.261456 1174.50836 3.7758 0.0022211 0.20545 0.00012086 3.9812 0.002342 588.2614777073899 90.624 0.27863 91.297 91.19 91.469 0.67271 25 15 3 0 0 0 0.16976 1 41723 41723 25.399 16.016 1 655230 21620 594 13599 13655 25186 25186 -0.07191420453455066 NYATRIVTL 9 Unmodified _NYATRIVTL_ 0 0 0 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 525.8028564453125 2 525.800749 1049.58694 2.9279 0.0015395 0.15336 8.0635E-05 3.0812 0.0016201 525.8006134437613 50.989 0.25264 51.806 51.667 51.92 0.81738 29 14 3 0 0 0 0.0017155 2 23203 23203;23254 107.1 69.126 1 2276200 21621 1990 13600 13656 25187;25188 25187 0.06413431851638052 NYATRIVTL 9 Unmodified _NYATRIVTL_ 0 0 0 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.8020629882812 2 525.800749 1049.58694 3.1221 0.0016416 0.34207 0.00017986 3.4642 0.0018215 525.8007515635234 51.157 0.23455 51.816 51.69 51.925 0.65956 31 16 2 0 0 0 0.0071692 1 23391 23391 87.258 49.284 1 1183300 21622 1990 13600 13656 25189 25189 0.06413431851638052 NYATRIVTL 9 Unmodified _NYATRIVTL_ 0 0 0 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 525.800749 1049.58694 3.1623 0.0016627 -0.23914 -0.00012574 2.9232 0.001537 525.8004960053179 51.966 0.2675 51.966 51.817 52.085 0 0.052909 -0.00021112 NaN 107.1 43 20 3 NaN NaN NaN NaN 0 NaN NaN 0 1870900 21623 1990 13600 13656 0.06413431851638052 NYATRIVTL 9 Unmodified _NYATRIVTL_ 0 0 0 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 525.800749 1049.58694 3.2174 0.0016917 -0.21008 -0.00011046 3.0073 0.0015812 525.8005663124244 51.8 0.27251 52.062 51.877 52.15 0.26227 0.14964 -0.00018056 NaN 107.1 35 22 2 NaN NaN NaN NaN 0 NaN NaN 0 1456800 21624 1990 13600 13656 0.06413431851638052 NYAWVYYHL 9 Unmodified _NYAWVYYHL_ 0 0 0 ENSG00000119917|ENST00000371818|IFIT3;IFIT3|p.F457Sfs*33|1|0.36|ENSG00000119917|chr10:89340022-89340022|T/-|frameshift_variant ENSG00000119917|ENST00000371818|IFIT3 ENSG00000119917|ENST00000371818|IFIT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 614.7945556640625 2 614.792924 1227.57129 3.3327 0.0020489 -0.38594 -0.00023728 2.9468 0.0018117 614.7925121580867 71.77 0.22918 72.028 71.941 72.171 0.25785 78 25 4 0 0 0 0.018064 2 32949 32893;32949 70.865 30.907 1 22309000 21625 2172 13601 13657 25190;25191 25191 -0.03338854665435065 NYAWVYYHL 9 Unmodified _NYAWVYYHL_ 0 0 0 ENSG00000119917|ENST00000371818|IFIT3;IFIT3|p.F457Sfs*33|1|0.36|ENSG00000119917|chr10:89340022-89340022|T/-|frameshift_variant ENSG00000119917|ENST00000371818|IFIT3 ENSG00000119917|ENST00000371818|IFIT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 614.7947387695312 2 614.792924 1227.57129 2.963 0.0018216 0.31037 0.00019081 3.2734 0.0020124 614.7930760774696 71.368 0.44511 72.031 71.811 72.256 0.66324 106 31 4 0 0 0 0.0025204 4 32711 32627;32669;32711;32762 98.807 56.968 1 16695000 21626 2172 13601 13657 25192;25193;25194;25195 25194 -0.03338854665435065 NYAWVYYHL 9 Unmodified _NYAWVYYHL_ 0 0 0 ENSG00000119917|ENST00000371818|IFIT3;IFIT3|p.F457Sfs*33|1|0.36|ENSG00000119917|chr10:89340022-89340022|T/-|frameshift_variant ENSG00000119917|ENST00000371818|IFIT3 ENSG00000119917|ENST00000371818|IFIT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1228.585693359375 1 1228.57857 1227.57129 2.7352 0.0033604 0.8016 0.00098482 3.5368 0.0043453 1229.5808610168776 71.357 0.060341 72.021 71.963 72.024 0.66324 8 4 2 0 0 0 0.041436 1 32698 32698 50.855 31.598 1 436200 21627 2172 13601 13657 25196 25196 -0.03338854665435065 NYAWVYYHL 9 Unmodified _NYAWVYYHL_ 0 0 0 ENSG00000119917|ENST00000371818|IFIT3;IFIT3|p.F457Sfs*33|1|0.36|ENSG00000119917|chr10:89340022-89340022|T/-|frameshift_variant ENSG00000119917|ENST00000371818|IFIT3 ENSG00000119917|ENST00000371818|IFIT3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 614.792924 1227.57129 3.1112 0.0019128 0.47167 0.00028998 3.5829 0.0022027 614.7934539483185 71.908 0.3304 71.908 71.746 72.077 0 -0.080976 0.00049591 NaN 98.807 61 31 3 NaN NaN NaN NaN 0 NaN NaN 0 1918400 21628 2172 13601 13657 -0.03338854665435065 NYAWVYYHM 9 Unmodified _NYAWVYYHM_ 0 0 0 ENSG00000119922|ENST00000371826|IFIT2;nc|ENSG00000152778|Q13325-2|IFIT5;ENSG00000152778|ENST00000371795|IFIT5 ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119922|ENST00000371826|IFIT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 624.2725219726562 2 623.771134 1245.52771 3.8341 0.0023916 -0.58665 -0.00036593 3.2475 0.0020257 623.7706824687585 66.237 0.23918 66.486 66.362 66.602 0.24848 38 14 3 0 0 0 0.026525 2 30321 30321;30370 59.795 42.682 1 1184600 21629 2173 13602 13658 25197;25198 25197 -0.0852278743423085 NYAWVYYHM 9 Unmodified _NYAWVYYHM_ 0 0 0 ENSG00000119922|ENST00000371826|IFIT2;nc|ENSG00000152778|Q13325-2|IFIT5;ENSG00000152778|ENST00000371795|IFIT5 ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119922|ENST00000371826|IFIT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 624.2752685546875 2 623.771134 1245.52771 3.8277 0.0023876 -0.36254 -0.00022614 3.4651 0.0021614 623.7705052901204 65.626 0.26353 66.283 66.145 66.408 0.65672 29 14 3 0 0 0 0.026525 2 30053 30053;30105 59.795 42.682 1 1159000 21630 2173 13602 13658 25199;25200 25199 -0.0852278743423085 NYDFGPIHM 9 Unmodified _NYDFGPIHM_ 0 0 0 nc|ENSG00000011275|Q9NWF9|RNF216;ENSG00000011275|ENST00000389902|RNF216;nc|ENSG00000011275|Q9NWF9-3|RNF216 nc|ENSG00000011275|Q9NWF9|RNF216 nc|ENSG00000011275|Q9NWF9|RNF216 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.3006591796875 2 547.242209 1092.46987 3.7929 0.0020756 1.2483 0.00068311 5.0411 0.0027587 547.2430192790699 67.598 0.26441 67.848 67.728 67.992 0.2501 19 13 2 0 0 0 0.04981 1 30969 30969 23.148 17.388 1 391200 21631 410 13603 13659 25201 25201 -0.07267049359643352 NYDMEEEGI 9 Unmodified _NYDMEEEGI_ 0 0 0 REV__AKT3|p.D134_A135insYNSFSPLL|1|0.05|ENSG00000117020|chr1:243645920-243645921|-/AGAAGAGGAGAGAATGAATTGTAG|inframe_insertion REV__AKT3|p.D134_A135insYNSFSPLL|1|0.05|ENSG00000117020|chr1:243645920-243645921|-/AGAAGAGGAGAGAATGAATTGTAG|inframe_insertion MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.2184448242188 2 550.216054 1098.41756 NaN NaN NaN NaN NaN NaN NaN 49.817 1 49.817 49.317 50.317 0 0 0 0 0.90611 1 22809 22809 2.0598 0 1 + 21632 9937 13604 13660 25202 25202 -0.12771677283922145 NYENKQYLF 9 Unmodified _NYENKQYLF_ 0 0 0 ENST00000535257.1_1_12:122391860-122397069:+|nuORF;nc|ENSG00000158023|Q8TBY9-2|CFAP251;ENSG00000158023|ENST00000288912|CFAP251 ENST00000535257.1_1_12:122391860-122397069:+|nuORF ENST00000535257.1_1_12:122391860-122397069:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 609.7939453125 2 609.793121 1217.57169 NaN NaN NaN NaN NaN NaN NaN 48.082 1 48.735 48.235 49.235 0.65356 0 0 0 0.65681 1 22006 22006 13.906 5.3128 1 21633 3971 13605 13661 25203 25203 -0.02839479736235262 NYGQYFTLW 9 Unmodified _NYGQYFTLW_ 0 0 0 ENSG00000109929|ENST00000264027|SC5D ENSG00000109929|ENST00000264027|SC5D ENSG00000109929|ENST00000264027|SC5D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 596.2756958007812 2 596.277106 1190.53966 4.2713 0.0025469 -0.33906 -0.00020217 3.9323 0.0023447 596.2766503029309 92.393 0.2297 92.645 92.511 92.741 0.25254 19 11 2 0 0 0 0.49692 1 42482 42482 12.532 6.3258 1 302580 21634 1693 13606 13662 25204 25204 -0.04798847419397134 NYGQYFTLW 9 Unmodified _NYGQYFTLW_ 0 0 0 ENSG00000109929|ENST00000264027|SC5D ENSG00000109929|ENST00000264027|SC5D ENSG00000109929|ENST00000264027|SC5D MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 596.277106 1190.53966 4.1984 0.0025034 0.14761 8.8017E-05 4.346 0.0025914 596.7789277341295 91.776 0.25336 92.438 92.291 92.545 0.66197 -0.10349 0.00012048 NaN 12.532 20 13 2 NaN NaN NaN NaN 0 NaN NaN 0 201290 21635 1693 13606 13662 -0.04798847419397134 NYGRVFSEW 9 Unmodified _NYGRVFSEW_ 0 0 0 ENST00000473417.5_1_3:125188296-125239016:-|nuORF;nc|ENSG00000114520|O95219-2|SNX4;ENST00000471751.5_1_3:125166625-125239024:-|nuORF;ENSG00000114520|ENST00000251775|SNX4 ENST00000473417.5_1_3:125188296-125239016:-|nuORF ENST00000473417.5_1_3:125188296-125239016:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 579.273681640625 2 579.272355 1156.53016 3.0825 0.0017856 0.22717 0.00013159 3.3097 0.0019172 579.2721517469472 57.168 0.21476 57.936 57.853 58.068 0.76861 47 22 3 0 0 0 0.0024241 1 26176 26176 99.799 61.648 1 2623700 21636 1909 13607 13663 25205 25205 -0.04184615704912176 NYGVVESF 8 Unmodified _NYGVVESF_ 0 0 0 ENSG00000196126|ENST00000360004|HLA-DRB1 ENSG00000196126|ENST00000360004|HLA-DRB1 ENSG00000196126|ENST00000360004|HLA-DRB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 914.43017578125 1 914.425424 913.418148 3.856 0.003526 0.41971 0.0003838 4.2757 0.0039098 914.4254758967915 58.893 0.27328 59.155 59.002 59.276 0.26175 26 15 2 0 0 0 0.00035578 2 26933 26933;26979 139.54 65.148 1 721460 21637 5720 13608 13664 25206;25207 25206 -0.04202469781898799 NYGVVESF 8 Unmodified _NYGVVESF_ 0 0 0 ENSG00000196126|ENST00000360004|HLA-DRB1 ENSG00000196126|ENST00000360004|HLA-DRB1 ENSG00000196126|ENST00000360004|HLA-DRB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 914.429443359375 1 914.425424 913.418148 3.9216 0.003586 -0.2427 -0.00022193 3.6789 0.0033641 914.4256286042353 58.351 0.14053 59.018 58.967 59.108 0.66703 16 11 2 0 0 0 0.017856 1 26714 26714 89.427 55.239 1 1548800 21638 5720 13608 13664 25208 25208 -0.04202469781898799 NYHYLVKWR 9 Unmodified _NYHYLVKWR_ 0 0 0 nc|ENSG00000170004|Q12873-2|CHD3;ENSG00000170004|ENST00000330494|CHD3;nc|ENSG00000170004|Q12873-3|CHD3 nc|ENSG00000170004|Q12873-2|CHD3 nc|ENSG00000170004|Q12873-2|CHD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 639.8404541015625 2 639.840739 1277.66693 NaN NaN NaN NaN NaN NaN NaN 28.478 1 29.097 28.597 29.597 0.61947 0 0 0 0.86044 1 13058 13058 7.2892 1.9923 1 21639 4727 13609 13665 25209 25209 0.03919918245446752 NYIDIVKYVF 10 Unmodified _NYIDIVKYVF_ 0 0 0 ENSG00000162408|ENST00000377705|NOL9 ENSG00000162408|ENST00000377705|NOL9 ENSG00000162408|ENST00000377705|NOL9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 637.31982421875 2 637.344989 1272.67542 NaN NaN NaN NaN NaN NaN NaN 90.434 1 91.107 90.607 91.607 0.67271 0 0 0 0.95221 1 41623 41623 13.042 9.446 1 21640 4135 13610 13666 25210 25210 0.04999427371421916 NYIDKVRFL 9 Unmodified _NYIDKVRFL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.33154296875 2 584.329673 1166.64479 3.5549 0.0020772 -0.25819 -0.00015087 3.2967 0.0019264 584.3295527217019 56.462 0.46103 56.462 56.306 56.767 0 150 37 5 0 0 0 0.0011219 4 26044 25938;25992;26044;26092 114.2 39.273 1 133760000 21641 483 13611 13667 25211;25212;25213;25214 25213 0.06813693777053231 NYIDKVRFL 9 Unmodified _NYIDKVRFL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.89013671875 3 389.888874 1166.64479 2.665 0.0010391 -0.12123 -4.7267E-05 2.5438 0.0009918 389.8889747034514 56.487 0.73684 56.487 56.213 56.95 0 234 61 5 0 0 0 0.021401 4 25995 25947;25995;26043;26091 66.457 29.95 1 247950000 21642 483 13611 13667 25215;25216;25217;25218 25216 0.06813693777053231 NYIDKVRFL 9 Unmodified _NYIDKVRFL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 389.8897399902344 3 389.888874 1166.64479 2.2261 0.00086795 -0.067156 -2.6183E-05 2.159 0.00084176 389.8890122401896 55.477 0.60506 56.264 56.058 56.663 0.78711 198 51 5 0 0 0 0.021401 4 25265 25265;25312;25360;25401 66.457 29.95 1 206550000 21643 483 13611 13667 25219;25220;25221;25222 25219 0.06813693777053231 NYIDKVRFL 9 Unmodified _NYIDKVRFL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.3316040039062 2 584.329673 1166.64479 2.8972 0.0016929 -0.013231 -7.7312E-06 2.8839 0.0016852 584.3296633179494 55.475 0.4671 56.262 56.101 56.568 0.78711 152 39 5 0 0 0 1.8942E-09 5 25414 25269;25319;25367;25414;25463 152.89 53.087 1 118690000 21644 483 13611 13667 25223;25224;25225;25226;25227 25226 0.06813693777053231 NYIDKVRFL 9 Unmodified _NYIDKVRFL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.8898010253906 3 389.888874 1166.64479 2.848 0.0011104 -0.69158 -0.00026964 2.1564 0.00084075 389.88882402768076 56.401 0.76006 56.666 56.205 56.965 0.26543 186 41 6 0 0 0 0.021401 4 25888 25751;25795;25844;25888 66.457 36.616 1 100140000 21645 483 13611 13667 25228;25229;25230;25231 25231 0.06813693777053231 NYIDKVRFL 9 Unmodified _NYIDKVRFL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.3321533203125 2 584.329673 1166.64479 3.4021 0.001988 -0.33596 -0.00019631 3.0662 0.0017917 584.3295068692206 56.401 0.47125 56.667 56.456 56.928 0.26543 116 28 5 0 0 0 3.9589E-14 4 25753 25753;25803;25848;25899 163.04 77.764 1 58612000 21646 483 13611 13667 25232;25233;25234;25235 25232 0.06813693777053231 NYIDKVRFL 9 Unmodified _NYIDKVRFL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.33203125 2 584.329673 1166.64479 3.5765 0.0020898 -0.28811 -0.00016835 3.2884 0.0019215 584.3295486163804 55.663 0.48518 56.331 56.106 56.591 0.66798 71 18 5 0 0 0 1.523E-21 3 25421 25421;25476;25529 179.17 79.375 1 81008000 21647 483 13611 13667 25236;25237;25238 25236 0.06813693777053231 NYIDKVRFL 9 Unmodified _NYIDKVRFL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.8900451660156 3 389.888874 1166.64479 2.8551 0.0011132 -0.54291 -0.00021167 2.3122 0.0009015 389.8889137870972 55.663 0.85426 56.331 55.803 56.657 0.66798 130 33 6 0 0 0 0.025135 3 25440 25440;25501;25567 61.602 25.765 1 95412000 21648 483 13611 13667 25239;25240;25241 25239 0.06813693777053231 NYIEMKPHPF 10 Unmodified _NYIEMKPHPF_ 0 0 0 nc|ENSG00000177885|P62993-2|GRB2 nc|ENSG00000177885|P62993-2|GRB2 nc|ENSG00000177885|P62993-2|GRB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 638.3129272460938 2 638.313166 1274.61178 3.1782 0.0020287 -3.1811 -0.0020305 -0.0029093 -1.8571E-06 638.3112147159399 77.822 0.22942 77.822 77.676 77.906 0 32 18 2 0 0 0 0.059328 1 38172 38172 60.074 12.325 1 3223000 21649 9763 13612 13668 25242 25242 -0.014542563373197481 NYIEMKPHPF 10 Unmodified _NYIEMKPHPF_ 0 0 0 nc|ENSG00000177885|P62993-2|GRB2 nc|ENSG00000177885|P62993-2|GRB2 nc|ENSG00000177885|P62993-2|GRB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 638.3114013671875 2 638.313166 1274.61178 3.6443 0.0023262 -2.586 -0.0016507 1.0583 0.00067556 638.3109226046304 77.705 0.23071 77.958 77.824 78.055 0.25335 23 14 2 0 0 0 0.059328 1 35778 35778 60.074 12.325 1 910120 21650 9763 13612 13668 25243 25243 -0.014542563373197481 NYIEMKPHPF 10 Unmodified _NYIEMKPHPF_ 0 0 0 nc|ENSG00000177885|P62993-2|GRB2 nc|ENSG00000177885|P62993-2|GRB2 nc|ENSG00000177885|P62993-2|GRB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 638.31494140625 2 638.313166 1274.61178 3.7003 0.002362 -2.0975 -0.0013389 1.6028 0.0010231 638.3115902613991 77.239 0.20157 77.902 77.77 77.972 0.66303 22 16 2 0 0 0 0.13545 1 35571 35571 47.749 7.799 1 687530 21651 9763 13612 13668 25244 25244 -0.014542563373197481 NYIFRLPYTS 10 Unmodified _NYIFRLPYTS_ 0 0 0 REV__LTR85b_dup84|chr1:206068387-206068726:+|1.3706367544384346|0.1463995263453968|3.23|526.0|24|3|anti-sense REV__LTR85b_dup84|chr1:206068387-206068726:+|1.3706367544384346|0.1463995263453968|3.23|526.0|24|3|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 637.330322265625 2 637.332413 1272.65027 NaN NaN NaN NaN NaN NaN NaN 90.573 1 91.246 90.746 91.746 0.67271 0 0 0 1.0001 1 41686 41686 1.6526 0.32309 1 + 21652 17826 13613 13669 25245 25245 0.024853725688444683 NYIGLINRI 9 Unmodified _NYIGLINRI_ 0 0 0 ENST00000496059.1_1_2:37364124-37368826:-|nuORF;EIF2AK2|p.V125Cfs*48|1|0.22|ENSG00000055332|chr2:37141569-37141569|C/-|frameshift_variant;nc|ENSG00000055332|P19525-2|EIF2AK2;ENSG00000055332|ENST00000233057|EIF2AK2 ENST00000496059.1_1_2:37364124-37368826:-|nuORF ENST00000496059.1_1_2:37364124-37368826:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.3187255859375 2 538.316566 1074.61858 3.086 0.0016613 0.14563 7.8396E-05 3.2317 0.0017397 538.3166427695675 64.745 0.29099 64.993 64.857 65.148 0.24803 62 25 3 0 0 0 0.0012577 3 29664 29616;29664;29715 123.45 45.301 1 6857300 21653 289 13614 13670 25246;25247;25248 25247 0.08425424605570697 NYIGLINRI 9 Unmodified _NYIGLINRI_ 0 0 0 ENST00000496059.1_1_2:37364124-37368826:-|nuORF;EIF2AK2|p.V125Cfs*48|1|0.22|ENSG00000055332|chr2:37141569-37141569|C/-|frameshift_variant;nc|ENSG00000055332|P19525-2|EIF2AK2;ENSG00000055332|ENST00000233057|EIF2AK2 ENST00000496059.1_1_2:37364124-37368826:-|nuORF ENST00000496059.1_1_2:37364124-37368826:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.3177490234375 2 538.316566 1074.61858 3.3722 0.0018153 -0.13008 -7.0026E-05 3.2421 0.0017453 538.3163478457756 64.194 0.21745 64.851 64.76 64.978 0.65672 57 24 3 0 0 0 0.0013631 2 29446 29401;29446 115.69 54.335 1 11276000 21654 289 13614 13670 25249;25250 25250 0.08425424605570697 NYIKDLNIL 9 Unmodified _NYIKDLNIL_ 0 0 0 nc|ENSG00000137770|Q05D32-2|CTDSPL2;ENSG00000137770|ENST00000260327|CTDSPL2 nc|ENSG00000137770|Q05D32-2|CTDSPL2 nc|ENSG00000137770|Q05D32-2|CTDSPL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.3184814453125 2 553.316232 1104.61791 2.9814 0.0016497 -0.42599 -0.00023571 2.5554 0.0014139 553.316112876429 66.894 0.28316 66.894 66.763 67.047 0 62 36 2 0 0 0 0.00097604 2 31975 31975;32027 126.57 41.681 1 5493800 21655 3039 13615 13671 25251;25252 25251 0.06978585165848017 NYIKDLNIL 9 Unmodified _NYIKDLNIL_ 0 0 0 nc|ENSG00000137770|Q05D32-2|CTDSPL2;ENSG00000137770|ENST00000260327|CTDSPL2 nc|ENSG00000137770|Q05D32-2|CTDSPL2 nc|ENSG00000137770|Q05D32-2|CTDSPL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.3172607421875 2 553.316232 1104.61791 2.6346 0.0014577 -0.17818 -9.8588E-05 2.4564 0.0013592 553.3163056017928 65.839 0.22223 66.548 66.409 66.631 0.70891 69 26 3 0 0 0 1.0071E-05 2 31166 31115;31166 147.06 61.787 1 6368300 21656 3039 13615 13671 25253;25254 25254 0.06978585165848017 NYIKDLNIL 9 Unmodified _NYIKDLNIL_ 0 0 0 nc|ENSG00000137770|Q05D32-2|CTDSPL2;ENSG00000137770|ENST00000260327|CTDSPL2 nc|ENSG00000137770|Q05D32-2|CTDSPL2 nc|ENSG00000137770|Q05D32-2|CTDSPL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.3182983398438 2 553.316232 1104.61791 3.7406 0.0020697 -0.21968 -0.00012155 3.5209 0.0019482 553.3161821270867 66.702 0.35026 66.952 66.751 67.101 0.2501 42 17 3 0 0 0 2.5075E-05 2 30562 30518;30562 142.08 42.281 1 2871100 21657 3039 13615 13671 25255;25256 25256 0.06978585165848017 NYIKDLNIL 9 Unmodified _NYIKDLNIL_ 0 0 0 nc|ENSG00000137770|Q05D32-2|CTDSPL2;ENSG00000137770|ENST00000260327|CTDSPL2 nc|ENSG00000137770|Q05D32-2|CTDSPL2 nc|ENSG00000137770|Q05D32-2|CTDSPL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.318115234375 2 553.316232 1104.61791 3.6013 0.0019927 0.073152 4.0476E-05 3.6745 0.0020331 553.3162597120661 66.071 0.34311 66.727 66.55 66.894 0.65672 52 21 3 0 0 0 2.5075E-05 3 30294 30250;30294;30344 142.08 47.25 1 2482100 21658 3039 13615 13671 25257;25258;25259 25258 0.06978585165848017 NYIKRNWRI 9 Unmodified _NYIKRNWRI_ 0 0 0 nc|ENSG00000124207|P55060-4|CSE1L;nc|ENSG00000124207|P55060-3|CSE1L;ENSG00000124207|ENST00000262982|CSE1L;nc|ENSG00000124207|P55060-2|CSE1L nc|ENSG00000124207|P55060-4|CSE1L nc|ENSG00000124207|P55060-4|CSE1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.57666015625 3 421.575401 1261.70437 NaN NaN NaN NaN NaN NaN NaN 29.644 1 30.433 29.933 30.933 0.78921 0 0 0 0.46004 1 13369 13369 20.415 9.3493 1 21659 2348 13616 13672 25260 25260 0.08399009511072109 NYIKRNWRI 9 Unmodified _NYIKRNWRI_ 0 0 0 nc|ENSG00000124207|P55060-4|CSE1L;nc|ENSG00000124207|P55060-3|CSE1L;ENSG00000124207|ENST00000262982|CSE1L;nc|ENSG00000124207|P55060-2|CSE1L nc|ENSG00000124207|P55060-4|CSE1L nc|ENSG00000124207|P55060-4|CSE1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.5772705078125 3 421.575401 1261.70437 3.2883 0.0013863 -0.010623 -4.4783E-06 3.2777 0.0013818 421.5754372701958 30.451 0.27743 30.707 30.565 30.842 0.25671 31 13 3 0 0 0 0.11155 2 13853 13853;13909 29.841 8.5992 1 678160 21660 2348 13616 13672 25261;25262 25261 0.08399009511072109 NYIKRNWRI 9 Unmodified _NYIKRNWRI_ 0 0 0 nc|ENSG00000124207|P55060-4|CSE1L;nc|ENSG00000124207|P55060-3|CSE1L;ENSG00000124207|ENST00000262982|CSE1L;nc|ENSG00000124207|P55060-2|CSE1L nc|ENSG00000124207|P55060-4|CSE1L nc|ENSG00000124207|P55060-4|CSE1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.57647705078125 3 421.575401 1261.70437 3.0341 0.0012791 0.0034543 1.4562E-06 3.0376 0.0012806 421.57541855587357 30.145 0.23791 30.762 30.685 30.923 0.61736 26 12 3 0 0 0 0.26118 1 13837 13837 19.362 8.2967 1 533810 21661 2348 13616 13672 25263 25263 0.08399009511072109 NYIPRFWTF 9 Unmodified _NYIPRFWTF_ 0 0 0 nc|ENSG00000083444|Q02809-2|PLOD1;ENSG00000083444|ENST00000196061|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 622.3175659179688 2 622.316566 1242.61858 3.2995 0.0020534 0.24258 0.00015096 3.5421 0.0022043 622.3167084986743 83.019 0.22446 83.019 82.91 83.134 0 45 26 2 0 0 0 0.00068611 3 41774 41703;41774;41803 129.77 79.839 1 19132000 21662 9567 13617 13673 25264;25265;25266 25265 0.006974246055506228 NYIPRFWTF 9 Unmodified _NYIPRFWTF_ 0 0 0 nc|ENSG00000083444|Q02809-2|PLOD1;ENSG00000083444|ENST00000196061|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 622.3184204101562 2 622.316566 1242.61858 2.6985 0.0016793 -0.048006 -2.9875E-05 2.6505 0.0016494 622.316400207223 81.882 0.23396 81.966 81.779 82.013 0.084106 54 22 3 0 0 0 0.00068611 2 40231 40231;40289 129.77 84.073 1 33831000 21663 9567 13617 13673 25267;25268 25267 0.006974246055506228 NYIPRFWTF 9 Unmodified _NYIPRFWTF_ 0 0 0 nc|ENSG00000083444|Q02809-2|PLOD1;ENSG00000083444|ENST00000196061|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 622.3190307617188 2 622.316566 1242.61858 3.5813 0.0022287 0.33518 0.00020859 3.9165 0.0024373 622.3167878236693 82.992 0.27529 83.24 83.113 83.388 0.24722 43 13 4 0 0 0 1.0706E-08 2 38187 38187;38244 155.03 107.28 1 6024200 21664 9567 13617 13673 25269;25270 25269 0.006974246055506228 NYIPRFWTF 9 Unmodified _NYIPRFWTF_ 0 0 0 nc|ENSG00000083444|Q02809-2|PLOD1;ENSG00000083444|ENST00000196061|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 622.319091796875 2 622.316566 1242.61858 3.8257 0.0023808 -0.27592 -0.00017171 3.5498 0.0022091 622.3164226929962 82.359 0.37817 83.019 82.862 83.24 0.66019 74 22 4 0 0 0 1.4684E-06 3 37949 37902;37949;38001 149.91 109.96 1 3670800 21665 9567 13617 13673 25271;25272;25273 25272 0.006974246055506228 NYIPYLTKL 9 Unmodified _NYIPYLTKL_ 0 0 0 ENSG00000205413|ENST00000379958|SAMD9 ENSG00000205413|ENST00000379958|SAMD9 ENSG00000205413|ENST00000379958|SAMD9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.8219604492188 2 562.82115 1123.62775 3.8413 0.002162 -0.56169 -0.00031613 3.2797 0.0018459 562.8208118725336 68.949 0.27318 69.203 69.054 69.327 0.25443 32 18 2 0 0 0 0.02812 2 31586 31537;31586 57.722 19.748 1 869110 21666 6049 13618 13674 25274;25275 25275 0.07087773171224399 NYIPYLTKL 9 Unmodified _NYIPYLTKL_ 0 0 0 ENSG00000205413|ENST00000379958|SAMD9 ENSG00000205413|ENST00000379958|SAMD9 ENSG00000205413|ENST00000379958|SAMD9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.8232421875 2 562.82115 1123.62775 3.4052 0.0019165 -0.65734 -0.00036996 2.7479 0.0015466 562.8210364514924 68.413 0.24212 69.072 68.923 69.165 0.65924 33 14 3 0 0 0 0.063112 2 31320 31320;31376 41.956 17.935 1 930520 21667 6049 13618 13674 25276;25277 25276 0.07087773171224399 NYIRITSEI 9 Unmodified _NYIRITSEI_ 0 0 0 nc|ENSG00000089876|Q7L7V1-2|DHX32;ENSG00000089876|ENST00000284690|DHX32 nc|ENSG00000089876|Q7L7V1-2|DHX32 nc|ENSG00000089876|Q7L7V1-2|DHX32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.8053588867188 2 554.803488 1107.59242 3.6699 0.0020361 -0.30681 -0.00017022 3.3631 0.0018659 554.8033480923397 53.152 0.23223 53.152 53.013 53.245 0 21 12 2 0 0 0 0.011692 1 24357 24357 79.596 29.663 1 681040 21668 1051 13619 13675 25278 25278 0.0429311064342528 NYIRITSEI 9 Unmodified _NYIRITSEI_ 0 0 0 nc|ENSG00000089876|Q7L7V1-2|DHX32;ENSG00000089876|ENST00000284690|DHX32 nc|ENSG00000089876|Q7L7V1-2|DHX32 nc|ENSG00000089876|Q7L7V1-2|DHX32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.8046875 2 554.803488 1107.59242 2.8275 0.0015687 -0.049634 -2.7537E-05 2.7779 0.0015412 554.8030062202622 52.048 0.19291 52.858 52.777 52.97 0.81065 21 11 3 0 0 0 0.013715 1 23724 23724 76.825 29.076 1 689740 21669 1051 13619 13675 25279 25279 0.0429311064342528 NYIRITSEI 9 Unmodified _NYIRITSEI_ 0 0 0 nc|ENSG00000089876|Q7L7V1-2|DHX32;ENSG00000089876|ENST00000284690|DHX32 nc|ENSG00000089876|Q7L7V1-2|DHX32 nc|ENSG00000089876|Q7L7V1-2|DHX32 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 554.803488 1107.59242 3.333 0.0018492 0.18322 0.00010165 3.5162 0.0019508 554.8035225374094 52.42 0.18479 53.082 52.987 53.171 0.66198 0.05139 0.00037427 NaN 79.596 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 287920 21670 1051 13619 13675 0.0429311064342528 NYISFYDHL 9 Unmodified _NYISFYDHL_ 0 0 0 ENSG00000124201|ENST00000396105|ZNFX1;ZNFX1|p.S1823Wfs*15|1|0.26|ENSG00000124201|chr20:49247550-49247556|AGGCCAG/-|frameshift_variant ENSG00000124201|ENST00000396105|ZNFX1 ENSG00000124201|ENST00000396105|ZNFX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.2759399414062 2 586.274564 1170.53457 3.5792 0.0020984 0.089782 5.2637E-05 3.669 0.002151 586.2746420013514 66.229 0.21384 66.885 66.811 67.025 0.65672 18 12 2 0 0 0 0.052704 1 30384 30384 46.021 25.606 1 339530 21671 2346 13620 13676 25280 25280 -0.043871512820032876 NYISFYDHL 9 Unmodified _NYISFYDHL_ 0 0 0 ENSG00000124201|ENST00000396105|ZNFX1;ZNFX1|p.S1823Wfs*15|1|0.26|ENSG00000124201|chr20:49247550-49247556|AGGCCAG/-|frameshift_variant ENSG00000124201|ENST00000396105|ZNFX1 ENSG00000124201|ENST00000396105|ZNFX1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 586.274564 1170.53457 3.6814 0.0021583 -2.0864 -0.0012232 1.595 0.00093511 586.27389630301 66.855 0.13349 67.105 66.998 67.132 0.2501 0.10986 -0.0019803 NaN 46.021 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 385950 21672 2346 13620 13676 -0.043871512820032876 NYISGIQTI 9 Unmodified _NYISGIQTI_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3;nc|ENSG00000189091|Q15393-3|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.77294921875 2 504.771657 1007.52876 3.0338 0.0015314 0.064778 3.2698E-05 3.0986 0.0015641 504.7717174415894 63.532 0.30954 63.78 63.638 63.948 0.24803 39 16 3 0 0 0 0.0029142 2 29085 29085;29139 96.111 37.432 1 2954800 21673 5704 13621 13677 25281;25282 25281 0.025297502063381216 NYISGIQTI 9 Unmodified _NYISGIQTI_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3;nc|ENSG00000189091|Q15393-3|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.77337646484375 2 504.771657 1007.52876 3.1267 0.0015782 0.48523 0.00024493 3.6119 0.0018232 504.77175497569493 63.008 0.27042 63.666 63.542 63.813 0.65808 34 14 3 0 0 0 0.0029142 3 28865 28852;28865;28927 96.111 37.432 1 2836800 21674 5704 13621 13677 25283;25284;25285 25284 0.025297502063381216 NYITGKGDVF 10 Unmodified _NYITGKGDVF_ 0 0 0 nc|ENSG00000133640|Q96JM4-2|LRRIQ1;ENSG00000133640|ENST00000393217|LRRIQ1;ENST00000525971.6_1_12:85431954-85518298:+|nuORF nc|ENSG00000133640|Q96JM4-2|LRRIQ1 nc|ENSG00000133640|Q96JM4-2|LRRIQ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.28369140625 2 557.282389 1112.55022 3.2496 0.0018109 0.63102 0.00035165 3.8806 0.0021626 557.2825613474017 46.158 0.20659 46.987 46.887 47.094 0.82915 16 8 3 0 0 0 0.22696 2 21024 20989;21024 36.127 2.8575 1 1054100 21675 2766 13622 13678 25286;25287 25287 -0.001548647649542545 NYITGKGDVF 10 Unmodified _NYITGKGDVF_ 0 0 0 nc|ENSG00000133640|Q96JM4-2|LRRIQ1;ENSG00000133640|ENST00000393217|LRRIQ1;ENST00000525971.6_1_12:85431954-85518298:+|nuORF nc|ENSG00000133640|Q96JM4-2|LRRIQ1 nc|ENSG00000133640|Q96JM4-2|LRRIQ1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.3091430664062 2 557.282389 1112.55022 3.7583 0.0020944 -0.11531 -6.4258E-05 3.643 0.0020302 557.2821661532635 47.107 0.21847 47.37 47.247 47.466 0.26363 11 7 2 0 0 0 0.12676 1 21557 21557 12.241 2.8575 1 241690 21676 2766 13622 13678 25288 25288 -0.001548647649542545 NYITGKGDVF 10 Unmodified _NYITGKGDVF_ 0 0 0 nc|ENSG00000133640|Q96JM4-2|LRRIQ1;ENSG00000133640|ENST00000393217|LRRIQ1;ENST00000525971.6_1_12:85431954-85518298:+|nuORF nc|ENSG00000133640|Q96JM4-2|LRRIQ1 nc|ENSG00000133640|Q96JM4-2|LRRIQ1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 557.282389 1112.55022 3.6611 0.0020402 0.76454 0.00042606 4.4256 0.0024663 557.2826375574876 46.569 0.22582 47.221 47.092 47.318 0.65219 0.026262 0.00041903 NaN 12.241 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 226530 21677 2766 13622 13678 -0.001548647649542545 NYKDLNGNVF 10 Unmodified _NYKDLNGNVF_ 0 0 0 nc|ENSG00000124783|P43307-2|SSR1;ENSG00000124783|ENST00000244763|SSR1 nc|ENSG00000124783|P43307-2|SSR1 nc|ENSG00000124783|P43307-2|SSR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 592.292724609375 2 592.290745 1182.56694 3.3109 0.001961 0.10397 6.1579E-05 3.4149 0.0020226 592.290897785137 45.825 0.27641 45.825 45.659 45.935 0 27 12 3 0 0 0 2.7352E-05 1 20965 20965 114.2 74.252 1 2091900 21678 2379 13623 13679 25289 25289 -0.017043638790028126 NYKDLNGNVF 10 Unmodified _NYKDLNGNVF_ 0 0 0 nc|ENSG00000124783|P43307-2|SSR1;ENSG00000124783|ENST00000244763|SSR1 nc|ENSG00000124783|P43307-2|SSR1 nc|ENSG00000124783|P43307-2|SSR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.2929077148438 2 592.290745 1182.56694 3.4109 0.0020202 0.19781 0.00011716 3.6087 0.0021374 592.2907021418926 44.729 0.32874 45.549 45.401 45.729 0.82074 36 16 3 0 0 0 0.0012812 2 20357 20357;20418 103.42 59.647 1 1649900 21679 2379 13623 13679 25290;25291 25290 -0.017043638790028126 NYKDLNGNVF 10 Unmodified _NYKDLNGNVF_ 0 0 0 nc|ENSG00000124783|P43307-2|SSR1;ENSG00000124783|ENST00000244763|SSR1 nc|ENSG00000124783|P43307-2|SSR1 nc|ENSG00000124783|P43307-2|SSR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.2926025390625 2 592.290745 1182.56694 3.5686 0.0021136 0.012283 7.2753E-06 3.5809 0.0021209 592.2907295353749 45.731 0.30429 45.999 45.868 46.172 0.26768 28 12 3 0 0 0 0.0065492 2 20943 20886;20943 93.166 56.66 1 2328700 21680 2379 13623 13679 25292;25293 25293 -0.017043638790028126 NYKDLNGNVF 10 Unmodified _NYKDLNGNVF_ 0 0 0 nc|ENSG00000124783|P43307-2|SSR1;ENSG00000124783|ENST00000244763|SSR1 nc|ENSG00000124783|P43307-2|SSR1 nc|ENSG00000124783|P43307-2|SSR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.2930908203125 2 592.290745 1182.56694 4.0214 0.0023818 -0.07341 -4.348E-05 3.948 0.0023384 592.2906884733135 45.154 0.27678 45.805 45.661 45.938 0.65104 24 9 3 0 0 0 0.0012812 2 20667 20667;20728 103.42 63.47 1 2036200 21681 2379 13623 13679 25294;25295 25294 -0.017043638790028126 NYKKFYEAF 9 Unmodified _NYKKFYEAF_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;HSP90AB1|p.R449Pfs*5|1|0.33|ENSG00000096384|chr6:44251765-44251766|-/C|frameshift_variant;HSP90AB1|p.I483Hfs*7|1|0.32|ENSG00000096384|chr6:44251866-44251867|-/C|frameshift_variant ENSG00000096384|ENST00000371646|HSP90AB1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 605.3043823242188 2 605.300581 1208.58661 3.4586 0.0020935 -0.59906 -0.00036261 2.8595 0.0017309 605.3002414924922 44.46 0.1804 44.46 44.298 44.479 0 20 12 2 0 0 0 0.0013314 1 20256 20256 118.07 72.329 1 3668700 21682 1127 13624 13680 25296 25296 -0.00933987868256736 NYKKFYEAF 9 Unmodified _NYKKFYEAF_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;HSP90AB1|p.R449Pfs*5|1|0.33|ENSG00000096384|chr6:44251765-44251766|-/C|frameshift_variant;HSP90AB1|p.I483Hfs*7|1|0.32|ENSG00000096384|chr6:44251866-44251867|-/C|frameshift_variant ENSG00000096384|ENST00000371646|HSP90AB1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.20477294921875 3 403.86948 1208.58661 2.6128 0.0010552 -0.063514 -2.5651E-05 2.5493 0.0010296 403.86943910881837 44.38 0.18667 44.38 44.276 44.462 0 21 13 2 0 0 0 0.20384 1 20265 20265 16.149 5.3496 1 1615800 21683 1127 13624 13680 25297 25297 -0.00933987868256736 NYKKFYEAF 9 Unmodified _NYKKFYEAF_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;HSP90AB1|p.R449Pfs*5|1|0.33|ENSG00000096384|chr6:44251765-44251766|-/C|frameshift_variant;HSP90AB1|p.I483Hfs*7|1|0.32|ENSG00000096384|chr6:44251866-44251867|-/C|frameshift_variant ENSG00000096384|ENST00000371646|HSP90AB1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 605.3019409179688 2 605.300581 1208.58661 3.426 0.0020738 0.07627 4.6166E-05 3.5023 0.0021199 605.3004501880176 44.395 0.27185 44.664 44.56 44.832 0.26939 11 8 2 0 0 0 0.26277 1 20323 20323 19.257 13.525 1 521110 21684 1127 13624 13680 25298 25298 -0.00933987868256736 NYKKFYEAF 9 Unmodified _NYKKFYEAF_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1;HSP90AB1|p.R449Pfs*5|1|0.33|ENSG00000096384|chr6:44251765-44251766|-/C|frameshift_variant;HSP90AB1|p.I483Hfs*7|1|0.32|ENSG00000096384|chr6:44251866-44251867|-/C|frameshift_variant ENSG00000096384|ENST00000371646|HSP90AB1 ENSG00000096384|ENST00000371646|HSP90AB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 605.302734375 2 605.300581 1208.58661 3.9083 0.0023657 1.1855 0.00071758 5.0938 0.0030833 605.3016379054341 43.866 0.13181 44.514 44.498 44.63 0.64872 11 7 2 0 0 0 0.54955 1 20148 20148 11.64 5.4345 1 1361900 21685 1127 13624 13680 25299 25299 -0.00933987868256736 NYKKFYEQF 9 Unmodified _NYKKFYEQF_ 0 0 0 nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1;ENST00000554401.1_1_14:102549349-102551760:-|nuORF nc|ENSG00000080824|P07900-2|HSP90AA1 nc|ENSG00000080824|P07900-2|HSP90AA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.8134155273438 2 633.811313 1265.60807 3.728 0.0023628 -0.1873 -0.00011871 3.5407 0.0022441 633.8111078535266 41.477 0.37773 41.477 41.307 41.685 0 129 48 3 0 0 0 0.0010698 4 18802 18802;18852;18897;18943 125.53 79.83 1 18772000 21686 913 13625 13681 25300;25301;25302;25303 25300 -0.014106028395417525 NYKKFYEQF 9 Unmodified _NYKKFYEQF_ 0 0 0 nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1;ENST00000554401.1_1_14:102549349-102551760:-|nuORF nc|ENSG00000080824|P07900-2|HSP90AA1 nc|ENSG00000080824|P07900-2|HSP90AA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.87774658203125 3 422.876634 1265.60807 2.7869 0.0011785 -0.11217 -4.7433E-05 2.6748 0.0011311 422.8765382771617 41.472 0.386 41.472 41.307 41.693 0 129 49 3 0 0 0 0.12301 1 18882 18882 20.415 2.5514 1 25871000 21687 913 13625 13681 25304 25304 -0.014106028395417525 NYKKFYEQF 9 Unmodified _NYKKFYEQF_ 0 0 0 nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1;ENST00000554401.1_1_14:102549349-102551760:-|nuORF nc|ENSG00000080824|P07900-2|HSP90AA1 nc|ENSG00000080824|P07900-2|HSP90AA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.87786865234375 3 422.876634 1265.60807 2.6956 0.0011399 -0.032521 -1.3753E-05 2.6631 0.0011261 422.87661097166284 40.32 0.33709 41.12 40.988 41.325 0.80014 81 24 5 0 0 0 0.12301 2 18275 18223;18275 20.415 9.5156 1 24468000 21688 913 13625 13681 25305;25306 25306 -0.014106028395417525 NYKKFYEQF 9 Unmodified _NYKKFYEQF_ 0 0 0 nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1;ENST00000554401.1_1_14:102549349-102551760:-|nuORF nc|ENSG00000080824|P07900-2|HSP90AA1 nc|ENSG00000080824|P07900-2|HSP90AA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.8135986328125 2 633.811313 1265.60807 3.4796 0.0022054 0.038731 2.4548E-05 3.5183 0.0022299 633.8112655028532 40.334 0.27755 41.134 41.014 41.291 0.80014 62 19 4 0 0 0 3.9104E-05 3 18225 18225;18277;18321 137.42 99.248 1 13600000 21689 913 13625 13681 25307;25308;25309 25307 -0.014106028395417525 NYKKFYEQF 9 Unmodified _NYKKFYEQF_ 0 0 0 nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1;ENST00000554401.1_1_14:102549349-102551760:-|nuORF nc|ENSG00000080824|P07900-2|HSP90AA1 nc|ENSG00000080824|P07900-2|HSP90AA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.8780822753906 3 422.876634 1265.60807 3.1897 0.0013488 0.064469 2.7263E-05 3.2541 0.0013761 422.87658374087823 41.573 0.30582 41.843 41.684 41.989 0.27021 48 16 4 0 0 0 0.041436 2 18958 18896;18958 38.176 23.957 1 5709100 21690 913 13625 13681 25310;25311 25311 -0.014106028395417525 NYKKFYEQF 9 Unmodified _NYKKFYEQF_ 0 0 0 nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1;ENST00000554401.1_1_14:102549349-102551760:-|nuORF nc|ENSG00000080824|P07900-2|HSP90AA1 nc|ENSG00000080824|P07900-2|HSP90AA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.8139038085938 2 633.811313 1265.60807 4.0321 0.0025556 -0.23389 -0.00014824 3.7982 0.0024073 633.8112052420807 41.555 0.36057 41.825 41.684 42.044 0.27021 51 18 4 0 0 0 1.4684E-06 2 18959 18897;18959 149.91 100.36 1 6570900 21691 913 13625 13681 25312;25313 25313 -0.014106028395417525 NYKKFYEQF 9 Unmodified _NYKKFYEQF_ 0 0 0 nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1;ENST00000554401.1_1_14:102549349-102551760:-|nuORF nc|ENSG00000080824|P07900-2|HSP90AA1 nc|ENSG00000080824|P07900-2|HSP90AA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.87799072265625 3 422.876634 1265.60807 3.1935 0.0013504 -0.56117 -0.0002373 2.6323 0.0011131 423.2107251259987 41.086 0.14286 41.73 41.702 41.845 0.64451 14 9 2 0 0 0 0.98132 1 18821 18821 2.4985 0.90621 1 3286500 21692 913 13625 13681 25314 25314 -0.014106028395417525 NYKKFYEQF 9 Unmodified _NYKKFYEQF_ 0 0 0 nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1;ENST00000554401.1_1_14:102549349-102551760:-|nuORF nc|ENSG00000080824|P07900-2|HSP90AA1 nc|ENSG00000080824|P07900-2|HSP90AA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.87811279296875 3 422.876634 1265.60807 NaN NaN NaN NaN NaN NaN NaN 40.968 1 41.613 41.113 42.113 0.64451 0 0 0 0.42757 1 18733 18733 15.248 4.3495 1 21693 913 13625 13681 25315 25315 -0.014106028395417525 NYKKFYEQF 9 Unmodified _NYKKFYEQF_ 0 0 0 nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1;ENST00000554401.1_1_14:102549349-102551760:-|nuORF nc|ENSG00000080824|P07900-2|HSP90AA1 nc|ENSG00000080824|P07900-2|HSP90AA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.8140258789062 2 633.811313 1265.60807 NaN NaN NaN NaN NaN NaN NaN 40.992 1 41.636 41.136 42.136 0.64451 0 0 0 6.2188E-11 1 18743 18743 137.42 93.566 1 21694 913 13625 13681 25316 25316 -0.014106028395417525 NYKKFYEQF 9 Unmodified _NYKKFYEQF_ 0 0 0 nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1;ENST00000554401.1_1_14:102549349-102551760:-|nuORF nc|ENSG00000080824|P07900-2|HSP90AA1 nc|ENSG00000080824|P07900-2|HSP90AA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.8121337890625 2 633.811313 1265.60807 NaN NaN NaN NaN NaN NaN NaN 41.09 1 41.735 41.235 42.235 0.64451 0 0 0 1.4839E-06 1 18793 18793 114.65 72.809 1 21695 913 13625 13681 25317 25317 -0.014106028395417525 NYKKFYEQF 9 Unmodified _NYKKFYEQF_ 0 0 0 nc|ENSG00000080824|P07900-2|HSP90AA1;ENSG00000080824|ENST00000216281|HSP90AA1;ENST00000554401.1_1_14:102549349-102551760:-|nuORF nc|ENSG00000080824|P07900-2|HSP90AA1 nc|ENSG00000080824|P07900-2|HSP90AA1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 422.876634 1265.60807 3.1994 0.001353 0.52129 0.00022044 3.7207 0.0015734 423.2113927665559 41.006 0.035252 41.65 41.638 41.673 0.64451 0.2361 0.00071096 NaN 20.415 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 6301700 21696 913 13625 13681 -0.014106028395417525 NYKSHHLQL 9 Unmodified _NYKSHHLQL_ 0 0 0 nc|ENSG00000095485|Q69YN2-2|CWF19L1;nc|ENSG00000095485|Q69YN2-3|CWF19L1;ENSG00000095485|ENST00000354105|CWF19L1 nc|ENSG00000095485|Q69YN2-2|CWF19L1 nc|ENSG00000095485|Q69YN2-2|CWF19L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.53717041015625 3 380.536724 1138.58834 2.5705 0.00097815 -0.04966 -1.8897E-05 2.5208 0.00095925 380.53658373378687 14.457 0.16667 14.764 14.683 14.849 0.3069 13 7 3 0 0 0 0.38625 1 6541 6541 14.405 9.8765 1 488920 21697 1121 13626 13682 25318 25318 0.024590659403884274 NYKSHHLQL 9 Unmodified _NYKSHHLQL_ 0 0 0 nc|ENSG00000095485|Q69YN2-2|CWF19L1;nc|ENSG00000095485|Q69YN2-3|CWF19L1;ENSG00000095485|ENST00000354105|CWF19L1 nc|ENSG00000095485|Q69YN2-2|CWF19L1 nc|ENSG00000095485|Q69YN2-2|CWF19L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.5383605957031 3 380.536724 1138.58834 2.8124 0.0010702 0.66032 0.00025128 3.4727 0.0013215 380.53701379567985 14.439 0.12745 15.087 15.035 15.162 0.6482 16 11 2 0 0 0 0.24524 1 6507 6507 20.415 12.259 1 872690 21698 1121 13626 13682 25319 25319 0.024590659403884274 NYLDRFLSL 9 Unmodified _NYLDRFLSL_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.8064575195312 2 570.806031 1139.59751 2.9882 0.0017057 -0.20132 -0.00011491 2.7869 0.0015908 570.8058037185424 83.755 0.23632 83.755 83.643 83.879 0 64 26 3 0 0 0 0.00076206 2 42309 42236;42309 128.93 70.254 1 22495000 21699 1700 13627 13683 25320;25321 25321 0.03329414506060857 NYLDRFLSL 9 Unmodified _NYLDRFLSL_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.807373046875 2 570.806031 1139.59751 2.8318 0.0016164 -0.4111 -0.00023466 2.4207 0.0013817 570.8060979049051 82.722 0.29356 82.767 82.623 82.916 0.045006 76 30 3 0 0 0 2.9434E-05 2 40902 40837;40902 140.63 88.365 1 20140000 21700 1700 13627 13683 25322;25323 25323 0.03329414506060857 NYLDRFLSL 9 Unmodified _NYLDRFLSL_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 570.8079833984375 2 570.806031 1139.59751 3.4183 0.0019512 0.024511 1.3991E-05 3.4428 0.0019652 570.8060465807238 83.574 0.46435 83.821 83.598 84.062 0.24722 105 30 4 0 0 0 0.00038954 4 38437 38391;38437;38486;38534 133.05 81.184 1 7896800 21701 1700 13627 13683 25324;25325;25326;25327 25325 0.03329414506060857 NYLDRFLSL 9 Unmodified _NYLDRFLSL_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.8082885742188 2 570.806031 1139.59751 3.7629 0.0021479 -0.28675 -0.00016368 3.4762 0.0019842 570.8058940005724 83.074 0.43214 83.734 83.513 83.945 0.66019 74 22 4 0 0 0 2.9434E-05 3 38263 38218;38263;38316 140.63 98.539 1 7176800 21702 1700 13627 13683 25328;25329;25330 25329 0.03329414506060857 NYLDWLTSI 9 Unmodified _NYLDWLTSI_ 0 0 0 nc|ENSG00000196365|P36776-2|LONP1;ENSG00000196365|ENST00000360614|LONP1;ENST00000590558.5_1_19:5692045-5712033:-|nuORF;nc|ENSG00000196365|P36776-3|LONP1;ENST00000587552.5_1_19:5696605-5708411:-|nuORF nc|ENSG00000196365|P36776-2|LONP1 nc|ENSG00000196365|P36776-2|LONP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.7874145507812 2 562.784764 1123.55498 3.0766 0.0017315 2.8344 0.0015951 5.911 0.0033266 562.7866214888176 58.39 0.17845 59.149 59.06 59.238 0.75894 22 16 2 0 0 0 0.062556 1 26767 26767 42.095 6.0504 1 684620 21703 5738 13628 13684 25331 25331 -0.0018598062217733968 NYLHLDYNF 9 Unmodified _NYLHLDYNF_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8;ENST00000573716.1_1_17:1581802-1582496:-|nuORF ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 599.7835693359375 2 599.780013 1197.54547 3.9792 0.0023867 -0.13468 -8.0776E-05 3.8446 0.0023059 599.7801361891613 67.997 0.2039 68.249 68.154 68.358 0.25227 27 15 2 0 0 0 0.019364 1 31159 31159 69.105 51.992 1 484240 21704 4968 13629 13685 25332 25332 -0.04539748907723151 NYLHLDYNF 9 Unmodified _NYLHLDYNF_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8;ENST00000573716.1_1_17:1581802-1582496:-|nuORF ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 599.7826538085938 2 599.780013 1197.54547 3.9302 0.0023573 1.2558 0.00075318 5.186 0.0031104 600.2822583801462 67.515 0.23043 68.172 67.973 68.204 0.65777 25 14 2 0 0 0 0.053453 1 30943 30943 45.7 29.551 1 553290 21705 4968 13629 13685 25333 25333 -0.04539748907723151 NYLRELQIF 9 Unmodified _NYLRELQIF_ 0 0 0 REV__CNST|p.H220N|1|0.3|ENSG00000162852|chr1:246633965-246633965|C/A|missense_variant REV__CNST|p.H220N|1|0.3|ENSG00000162852|chr1:246633965-246633965|C/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 598.8311157226562 2 598.327131 1194.63971 3.5129 0.0021019 -0.82832 -0.00049561 2.6846 0.0016063 598.3266768870858 70.718 0.27986 71.38 71.229 71.508 0.66209 37 16 3 0 0 0 0.22507 1 32392 32392 21.747 6.9084 1 1148200 + 21706 10067 13630 13686 25334 25334 0.05017389914405612 NYLRERKERL 10 Unmodified _NYLRERKERL_ 0 0 0 ENSG00000124160|ENST00000290231|NCOA5 ENSG00000124160|ENST00000290231|NCOA5 ENSG00000124160|ENST00000290231|NCOA5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 688.8932495117188 2 688.891492 1375.76843 NaN NaN NaN NaN NaN NaN NaN 66.13 1 66.378 65.878 66.878 0.24848 0 0 0 1.0001 1 30296 30296 1.6526 0 1 21707 2342 13631 13687 25335 25335 0.09557744877361074 NYLSHHLTI 9 Unmodified _NYLSHHLTI_ 0 0 0 nc|ENSG00000172239|Q9H074-3|PAIP1;nc|ENSG00000172239|Q9H074-2|PAIP1;ENST00000447794.1_1_17:18553574-18554852:+|nuORF;ENSG00000172239|ENST00000306846|PAIP1 nc|ENSG00000172239|Q9H074-3|PAIP1 nc|ENSG00000172239|Q9H074-3|PAIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.5306091308594 3 366.529458 1096.56654 NaN NaN NaN NaN NaN NaN NaN 41.101 1 41.101 40.601 41.601 0 0 0 0 0.58778 1 18668 18668 16.149 1.7437 1 21708 4863 13632 13688 25336 25336 0.022122611917893664 NYLSHHLTI 9 Unmodified _NYLSHHLTI_ 0 0 0 nc|ENSG00000172239|Q9H074-3|PAIP1;nc|ENSG00000172239|Q9H074-2|PAIP1;ENST00000447794.1_1_17:18553574-18554852:+|nuORF;ENSG00000172239|ENST00000306846|PAIP1 nc|ENSG00000172239|Q9H074-3|PAIP1 nc|ENSG00000172239|Q9H074-3|PAIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.29296875 2 549.290548 1096.56654 NaN NaN NaN NaN NaN NaN NaN 41.114 1 41.114 40.614 41.614 0 0 0 0 1.1314E-06 1 18674 18674 118.89 74.488 1 21709 4863 13632 13688 25337 25337 0.022122611917893664 NYLSHHLTI 9 Unmodified _NYLSHHLTI_ 0 0 0 nc|ENSG00000172239|Q9H074-3|PAIP1;nc|ENSG00000172239|Q9H074-2|PAIP1;ENST00000447794.1_1_17:18553574-18554852:+|nuORF;ENSG00000172239|ENST00000306846|PAIP1 nc|ENSG00000172239|Q9H074-3|PAIP1 nc|ENSG00000172239|Q9H074-3|PAIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.5301208496094 3 366.529458 1096.56654 2.3664 0.00086734 -0.55265 -0.00020256 1.8137 0.00066478 366.5292484469863 40.231 0.22167 41.031 40.903 41.125 0.80014 34 18 2 0 0 0 0.10584 2 18188 18188;18229 31.268 16.02 1 2518900 21710 4863 13632 13688 25338;25339 25338 0.022122611917893664 NYLSHHLTI 9 Unmodified _NYLSHHLTI_ 0 0 0 nc|ENSG00000172239|Q9H074-3|PAIP1;nc|ENSG00000172239|Q9H074-2|PAIP1;ENST00000447794.1_1_17:18553574-18554852:+|nuORF;ENSG00000172239|ENST00000306846|PAIP1 nc|ENSG00000172239|Q9H074-3|PAIP1 nc|ENSG00000172239|Q9H074-3|PAIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.292236328125 2 549.290548 1096.56654 NaN NaN NaN NaN NaN NaN NaN 40.496 1 41.137 40.637 41.637 0.64136 0 0 0 7.0387E-07 1 18511 18511 99.799 59.35 1 21711 4863 13632 13688 25340 25340 0.022122611917893664 NYLSHHLTI 9 Unmodified _NYLSHHLTI_ 0 0 0 nc|ENSG00000172239|Q9H074-3|PAIP1;nc|ENSG00000172239|Q9H074-2|PAIP1;ENST00000447794.1_1_17:18553574-18554852:+|nuORF;ENSG00000172239|ENST00000306846|PAIP1 nc|ENSG00000172239|Q9H074-3|PAIP1 nc|ENSG00000172239|Q9H074-3|PAIP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 366.529458 1096.56654 2.8113 0.0010304 -0.62873 -0.00023045 2.1826 0.00079997 366.52922196924874 40.497 0.19876 41.138 41.057 41.256 0.64135 0.053821 -5.2303E-05 NaN 31.268 29 19 2 NaN NaN NaN NaN 0 NaN NaN 0 1470200 21712 4863 13632 13688 0.022122611917893664 NYLSIFRKF 9 Unmodified _NYLSIFRKF_ 0 0 0 ENSG00000014216|ENST00000279247|CAPN1;ENST00000528165.5_1_11:64977175-64978433:+|nuORF ENSG00000014216|ENST00000279247|CAPN1 ENSG00000014216|ENST00000279247|CAPN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 396.557861328125 3 396.557236 1186.64988 3.1039 0.0012309 -0.63901 -0.0002534 2.4649 0.00097745 396.5570180122754 65.434 0.28996 65.682 65.506 65.796 0.24802 25 13 3 0 0 0 0.21127 2 29949 29949;30008 22.658 14.214 1 1168200 21713 435 13633 13689 25341;25342 25341 0.06401997639636647 NYLSIFRKF 9 Unmodified _NYLSIFRKF_ 0 0 0 ENSG00000014216|ENST00000279247|CAPN1;ENST00000528165.5_1_11:64977175-64978433:+|nuORF ENSG00000014216|ENST00000279247|CAPN1 ENSG00000014216|ENST00000279247|CAPN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 594.3351440429688 2 594.332216 1186.64988 3.8143 0.002267 -0.38492 -0.00022877 3.4294 0.0020382 594.3316604608937 65.427 0.23847 65.675 65.535 65.773 0.24802 14 10 2 0 0 0 0.01463 1 29965 29965 63.961 41.302 1 505170 21714 435 13633 13689 25343 25343 0.06401997639636647 NYLSIFRKF 9 Unmodified _NYLSIFRKF_ 0 0 0 ENSG00000014216|ENST00000279247|CAPN1;ENST00000528165.5_1_11:64977175-64978433:+|nuORF ENSG00000014216|ENST00000279247|CAPN1 ENSG00000014216|ENST00000279247|CAPN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 594.334228515625 2 594.332216 1186.64988 4.0013 0.0023781 -0.44162 -0.00026247 3.5597 0.0021157 594.3317562860474 64.78 0.21407 65.436 65.294 65.509 0.65672 16 9 2 0 0 0 0.011816 1 29678 29678 86.332 48.358 1 739190 21715 435 13633 13689 25344 25344 0.06401997639636647 NYLSIFRKF 9 Unmodified _NYLSIFRKF_ 0 0 0 ENSG00000014216|ENST00000279247|CAPN1;ENST00000528165.5_1_11:64977175-64978433:+|nuORF ENSG00000014216|ENST00000279247|CAPN1 ENSG00000014216|ENST00000279247|CAPN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 396.55780029296875 3 396.557236 1186.64988 2.9791 0.0011814 -0.80451 -0.00031903 2.1746 0.00086235 396.5569151820365 64.748 0.23097 65.405 65.294 65.525 0.65672 24 10 3 0 0 0 0.21127 1 29684 29684 22.658 11.163 1 757360 21716 435 13633 13689 25345 25345 0.06401997639636647 NYLVLPNRI 9 Unmodified _NYLVLPNRI_ 0 0 0 ESYT2|p.V380Sfs*38|1|0.25|ENSG00000117868|chr7:158764784-158764784|C/-|frameshift_variant;nc|ENSG00000117868|A0FGR8-4|ESYT2;ENSG00000117868|ENST00000275418|ESYT2;nc|ENSG00000117868|A0FGR8-2|ESYT2;nc|ENSG00000117868|A0FGR8|ESYT2;nc|ENSG00000117868|A0FGR8-6|ESYT2 ESYT2|p.V380Sfs*38|1|0.25|ENSG00000117868|chr7:158764784-158764784|C/-|frameshift_variant ESYT2|p.V380Sfs*38|1|0.25|ENSG00000117868|chr7:158764784-158764784|C/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.3057250976562 2 551.324391 1100.63423 3.3227 0.0018319 0.083143 4.5839E-05 3.4058 0.0018777 551.324672886793 62.554 0.30473 63.214 63.039 63.344 0.66008 30 18 2 0 0 0 0.05306 1 28608 28608 30.637 19.813 1 786940 21717 2097 13634 13690 25346 25346 0.08793711122621062 NYLVLPNRI 9 Unmodified _NYLVLPNRI_ 0 0 0 ESYT2|p.V380Sfs*38|1|0.25|ENSG00000117868|chr7:158764784-158764784|C/-|frameshift_variant;nc|ENSG00000117868|A0FGR8-4|ESYT2;ENSG00000117868|ENST00000275418|ESYT2;nc|ENSG00000117868|A0FGR8-2|ESYT2;nc|ENSG00000117868|A0FGR8|ESYT2;nc|ENSG00000117868|A0FGR8-6|ESYT2 ESYT2|p.V380Sfs*38|1|0.25|ENSG00000117868|chr7:158764784-158764784|C/-|frameshift_variant ESYT2|p.V380Sfs*38|1|0.25|ENSG00000117868|chr7:158764784-158764784|C/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 551.324391 1100.63423 3.4103 0.0018802 -0.22828 -0.00012586 3.182 0.0017543 551.3242073908859 63.161 0.28282 63.411 63.239 63.521 0.24965 0.098294 -0.00025083 NaN 30.637 27 16 2 NaN NaN NaN NaN 0 NaN NaN 0 931500 21718 2097 13634 13690 0.08793711122621062 NYMDCISSL 9 Carbamidomethyl (C) _NYMDC(Carbamidomethyl (C))ISSL_ NYMDC(1)ISSL NYMDC(85)ISSL 0 1 0 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.7316284179688 2 551.730817 1101.44708 2.968 0.0016375 0.44608 0.00024611 3.4141 0.0018837 551.7307025472118 69.189 0.20202 69.189 69.052 69.254 0 41 27 2 0 0 0 0.0081238 1 33344 33344 85.272 51.17 1 4926700 21719 2285 13635 13691 25347 25347 51 -0.09958436539409377 NYMDCISSL 9 Carbamidomethyl (C) _NYMDC(Carbamidomethyl (C))ISSL_ NYMDC(1)ISSL NYMDC(65)ISSL 0 1 0 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.7319946289062 2 551.730817 1101.44708 2.6542 0.0014644 -0.57035 -0.00031468 2.0838 0.0011497 551.7306965161732 68.246 0.28173 68.948 68.799 69.08 0.70218 77 31 3 0 0 0 0.02234 2 32538 32482;32538 65.235 43.222 1 5106600 21720 2285 13635 13691 25348;25349 25349 51 -0.09958436539409377 NYMDCISSL 9 Carbamidomethyl (C) _NYMDC(Carbamidomethyl (C))ISSL_ NYMDC(1)ISSL NYMDC(100)ISSL 0 1 0 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 551.7324829101562 2 551.730817 1101.44708 3.8511 0.0021248 -0.54396 -0.00030012 3.3071 0.0018247 551.7306767666048 68.807 0.35941 69.062 68.877 69.237 0.25443 63 21 4 0 0 0 0.0024241 3 31527 31481;31527;31578 99.799 57.959 1 1980000 21721 2285 13635 13691 25350;25351;25352 25351 51 -0.09958436539409377 NYMDCISSL 9 Carbamidomethyl (C) _NYMDC(Carbamidomethyl (C))ISSL_ NYMDC(1)ISSL NYMDC(75)ISSL 0 1 0 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.7325439453125 2 551.730817 1101.44708 3.3789 0.0018642 -0.27119 -0.00014962 3.1077 0.0017146 551.7308152939224 68.328 0.36001 68.987 68.805 69.165 0.65924 65 22 4 0 0 0 0.015098 2 31323 31279;31323 74.929 50.908 1 2404200 21722 2285 13635 13691 25353;25354 25354 51 -0.09958436539409377 NYMPGQLTI 9 Unmodified _NYMPGQLTI_ 0 0 0 ENSG00000183742|ENST00000400331|MACC1 ENSG00000183742|ENST00000400331|MACC1 ENSG00000183742|ENST00000400331|MACC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.7601928710938 2 518.760235 1035.50592 2.6179 0.0013581 -0.32738 -0.00016983 2.2905 0.0011882 518.7597009717797 68.853 0.25276 68.853 68.755 69.008 0 44 29 2 0 0 0 0.079031 1 33231 33231 37.974 24.068 1 4439200 21723 5402 13636 13692 25355 25355 -0.010415921827643615 NYMPGQLTI 9 Unmodified _NYMPGQLTI_ 0 0 0 ENSG00000183742|ENST00000400331|MACC1 ENSG00000183742|ENST00000400331|MACC1 ENSG00000183742|ENST00000400331|MACC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.760498046875 2 518.760235 1035.50592 2.7945 0.0014497 -0.62208 -0.00032271 2.1724 0.001127 518.7597508279284 67.894 0.28751 68.596 68.486 68.773 0.70217 63 37 2 0 0 0 0.079031 2 32320 32320;32387 37.974 24.068 1 4463900 21724 5402 13636 13692 25356;25357 25356 -0.010415921827643615 NYMPGQLTI 9 Unmodified _NYMPGQLTI_ 0 0 0 ENSG00000183742|ENST00000400331|MACC1 ENSG00000183742|ENST00000400331|MACC1 ENSG00000183742|ENST00000400331|MACC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 518.7622680664062 2 518.760235 1035.50592 3.7058 0.0019224 0.47874 0.00024835 4.1846 0.0021708 518.7600739743747 68.544 0.33087 68.797 68.658 68.989 0.25227 44 24 2 0 0 0 0.0063783 1 31410 31410 88.904 65.755 1 845240 21725 5402 13636 13692 25358 25358 -0.010415921827643615 NYMPGQLTI 9 Unmodified _NYMPGQLTI_ 0 0 0 ENSG00000183742|ENST00000400331|MACC1 ENSG00000183742|ENST00000400331|MACC1 ENSG00000183742|ENST00000400331|MACC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 518.760235 1035.50592 3.2848 0.001704 0.34291 0.00017789 3.6277 0.0018819 518.7602945699773 68.093 0.34506 68.752 68.555 68.9 0.65924 0.0026092 0.00032411 NaN 88.904 52 23 3 NaN NaN NaN NaN 0 NaN NaN 0 1098700 21726 5402 13636 13692 -0.010415921827643615 NYNEKIYEL 9 Unmodified _NYNEKIYEL_ 0 0 0 ENST00000466373.1_1_22:19439515-19452862:-|nuORF;nc|ENSG00000070010|Q92890-3|UFD1;ENST00000459854.5_1_22:19442175-19463025:-|nuORF;ENSG00000070010|ENST00000263202|UFD1;nc|ENSG00000070010|Q92890-1|UFD1 ENST00000466373.1_1_22:19439515-19452862:-|nuORF ENST00000466373.1_1_22:19439515-19452862:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.2921752929688 2 593.292953 1184.57135 3.2853 0.0019492 0.012049 7.1488E-06 3.2974 0.0019563 593.2927232458371 47.869 0.25238 47.869 47.758 48.011 0 24 12 3 0 0 0 8.7541E-05 1 21912 21912 136.39 84.762 1 2116500 21727 756 13637 13693 25359 25359 -0.013548994561006111 NYNEKIYEL 9 Unmodified _NYNEKIYEL_ 0 0 0 ENST00000466373.1_1_22:19439515-19452862:-|nuORF;nc|ENSG00000070010|Q92890-3|UFD1;ENST00000459854.5_1_22:19442175-19463025:-|nuORF;ENSG00000070010|ENST00000263202|UFD1;nc|ENSG00000070010|Q92890-1|UFD1 ENST00000466373.1_1_22:19439515-19452862:-|nuORF ENST00000466373.1_1_22:19439515-19452862:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 593.294677734375 2 593.292953 1184.57135 3.4133 0.0020251 -0.014697 -8.7195E-06 3.3986 0.0020164 593.2928271375761 46.679 0.23931 47.508 47.436 47.675 0.82915 33 14 3 0 0 0 0.00038954 2 21269 21269;21327 133.05 76.875 1 1989800 21728 756 13637 13693 25360;25361 25360 -0.013548994561006111 NYNEKIYEL 9 Unmodified _NYNEKIYEL_ 0 0 0 ENST00000466373.1_1_22:19439515-19452862:-|nuORF;nc|ENSG00000070010|Q92890-3|UFD1;ENST00000459854.5_1_22:19442175-19463025:-|nuORF;ENSG00000070010|ENST00000263202|UFD1;nc|ENSG00000070010|Q92890-1|UFD1 ENST00000466373.1_1_22:19439515-19452862:-|nuORF ENST00000466373.1_1_22:19439515-19452862:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 593.2946166992188 2 593.292953 1184.57135 3.8704 0.0022963 -0.30809 -0.00018279 3.5623 0.0021135 593.2926024880398 47.903 0.35821 48.166 48.019 48.377 0.26363 31 14 3 0 0 0 0.0023958 2 21883 21883;21940 100.09 43.914 1 1099200 21729 756 13637 13693 25362;25363 25362 -0.013548994561006111 NYNEKIYEL 9 Unmodified _NYNEKIYEL_ 0 0 0 ENST00000466373.1_1_22:19439515-19452862:-|nuORF;nc|ENSG00000070010|Q92890-3|UFD1;ENST00000459854.5_1_22:19442175-19463025:-|nuORF;ENSG00000070010|ENST00000263202|UFD1;nc|ENSG00000070010|Q92890-1|UFD1 ENST00000466373.1_1_22:19439515-19452862:-|nuORF ENST00000466373.1_1_22:19439515-19452862:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 593.2955932617188 2 593.292953 1184.57135 3.8329 0.002274 0.54604 0.00032396 4.3789 0.002598 593.2931901448203 47.295 0.33487 47.947 47.753 48.088 0.65219 35 14 3 0 0 0 0.0013832 2 21662 21610;21662 114.19 58.009 1 977630 21730 756 13637 13693 25364;25365 25365 -0.013548994561006111 NYNNQSSNF 9 Unmodified _NYNNQSSNF_ 0 0 0 ENST00000444886.1_1_9:128358610-128358904:+|nuORF;ENST00000432375.1_1_6:32293532-32293889:+|nuORF;ENST00000411857.2_1_1:179425361-179425934:-|nuORF;nc|ENSG00000135486|P09651-3|HNRNPA1;chr12:54282662-54282800|541|494.37|0.0|25.56|+|ENST00000677249|HNRNPA1,HNRNPA1;nc|ENSG00000135486|P09651-2|HNRNPA1;ENSG00000224578|ENST00000565308|HNRNPA1L3;ENSG00000139675|ENST00000357495|HNRNPA1L2;ENSG00000135486|ENST00000340913|HNRNPA1 ENST00000444886.1_1_9:128358610-128358904:+|nuORF ENST00000444886.1_1_9:128358610-128358904:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.2278442382812 2 544.225602 1086.43665 NaN NaN NaN NaN NaN NaN NaN 25.871 1 26.139 25.639 26.639 0.26777 0 0 0 0.84134 1 11748 11748 7.9102 2.1497 1 21731 139 13638 13694 25366 25366 -0.10310959877983805 NYPDEFTKL 9 Unmodified _NYPDEFTKL_ 0 0 0 nc|ENSG00000196712|P21359-2|NF1;nc|ENSG00000196712|P21359-6|NF1;ENSG00000196712|ENST00000358273|NF1;nc|ENSG00000196712|P21359-3|NF1;nc|ENSG00000196712|P21359-5|NF1;ENST00000495910.6_1_17:29490228-29576996:+|nuORF;NF1|p.R1534Hfs*40|1|0.38|ENSG00000196712|chr17:31261734-31261734|G/-|frameshift_variant;nc|ENSG00000196712|P21359-4|NF1 nc|ENSG00000196712|P21359-2|NF1 nc|ENSG00000196712|P21359-2|NF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.7767944335938 2 563.774396 1125.53424 2.92 0.0016462 0.081609 4.6009E-05 3.0016 0.0016922 564.2759701495729 51.986 0.24932 52.797 52.666 52.916 0.81065 35 17 3 0 0 0 0.049036 1 23679 23679 47.594 15.289 1 1025900 21732 5773 13639 13695 25367 25367 -0.02350571001852586 NYPDEFTKL 9 Unmodified _NYPDEFTKL_ 0 0 0 nc|ENSG00000196712|P21359-2|NF1;nc|ENSG00000196712|P21359-6|NF1;ENSG00000196712|ENST00000358273|NF1;nc|ENSG00000196712|P21359-3|NF1;nc|ENSG00000196712|P21359-5|NF1;ENST00000495910.6_1_17:29490228-29576996:+|nuORF;NF1|p.R1534Hfs*40|1|0.38|ENSG00000196712|chr17:31261734-31261734|G/-|frameshift_variant;nc|ENSG00000196712|P21359-4|NF1 nc|ENSG00000196712|P21359-2|NF1 nc|ENSG00000196712|P21359-2|NF1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 563.774396 1125.53424 3.5359 0.0019934 -0.29314 -0.00016527 3.2427 0.0018282 563.7744469423212 53.02 0.25031 53.02 52.916 53.167 0 0.11159 -0.00030638 NaN 47.594 31 13 3 NaN NaN NaN NaN 0 NaN NaN 0 919670 21733 5773 13639 13695 -0.02350571001852586 NYPETLGRLLI 11 Unmodified _NYPETLGRLLI_ 0 0 0 SEC14L1|p.V598Kfs*16|1|0.31|ENSG00000129657|chr17:77212126-77212127|-/AA|frameshift_variant;SEC14L1|p.V620Efs*51|1|0.16|ENSG00000129657|chr17:77212192-77212193|-/TCTGAAAAAG|frameshift_variant;nc|ENSG00000129657|Q92503-3|SEC14L1;ENSG00000129657|ENST00000436233|SEC14L1;nc|ENSG00000129657|Q92503-2|SEC14L1;ENSG00000103184|ENST00000251170|SEC14L5 SEC14L1|p.V598Kfs*16|1|0.31|ENSG00000129657|chr17:77212126-77212127|-/AA|frameshift_variant SEC14L1|p.V598Kfs*16|1|0.31|ENSG00000129657|chr17:77212126-77212127|-/AA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.8685913085938 2 644.86662 1287.71869 NaN NaN NaN NaN NaN NaN NaN 75.927 1 75.927 75.427 76.427 0 0 0 0 0.024683 1 37210 37210 59.052 38.638 1 21734 2559 13640 13696 25368 25368 0.08633617148734629 NYPETLGRLLI 11 Unmodified _NYPETLGRLLI_ 0 0 0 SEC14L1|p.V598Kfs*16|1|0.31|ENSG00000129657|chr17:77212126-77212127|-/AA|frameshift_variant;SEC14L1|p.V620Efs*51|1|0.16|ENSG00000129657|chr17:77212192-77212193|-/TCTGAAAAAG|frameshift_variant;nc|ENSG00000129657|Q92503-3|SEC14L1;ENSG00000129657|ENST00000436233|SEC14L1;nc|ENSG00000129657|Q92503-2|SEC14L1;ENSG00000103184|ENST00000251170|SEC14L5 SEC14L1|p.V598Kfs*16|1|0.31|ENSG00000129657|chr17:77212126-77212127|-/AA|frameshift_variant SEC14L1|p.V598Kfs*16|1|0.31|ENSG00000129657|chr17:77212126-77212127|-/AA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 644.8703002929688 2 644.86662 1287.71869 3.5164 0.0022676 0.15043 9.701E-05 3.6668 0.0023646 644.866759780708 75.732 0.40817 75.989 75.751 76.159 0.25704 74 35 3 0 0 0 0.029438 2 34849 34796;34849 55.235 39.086 1 1929700 21735 2559 13640 13696 25369;25370 25370 0.08633617148734629 NYPETLGRLLI 11 Unmodified _NYPETLGRLLI_ 0 0 0 SEC14L1|p.V598Kfs*16|1|0.31|ENSG00000129657|chr17:77212126-77212127|-/AA|frameshift_variant;SEC14L1|p.V620Efs*51|1|0.16|ENSG00000129657|chr17:77212192-77212193|-/TCTGAAAAAG|frameshift_variant;nc|ENSG00000129657|Q92503-3|SEC14L1;ENSG00000129657|ENST00000436233|SEC14L1;nc|ENSG00000129657|Q92503-2|SEC14L1;ENSG00000103184|ENST00000251170|SEC14L5 SEC14L1|p.V598Kfs*16|1|0.31|ENSG00000129657|chr17:77212126-77212127|-/AA|frameshift_variant SEC14L1|p.V598Kfs*16|1|0.31|ENSG00000129657|chr17:77212126-77212127|-/AA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 644.8689575195312 2 644.86662 1287.71869 3.5031 0.002259 -0.16379 -0.00010562 3.3393 0.0021534 644.8664136542752 75.167 0.40506 75.831 75.642 76.048 0.6644 62 32 3 0 0 0 2.3353E-05 1 34637 34637 94.909 66.414 1 1901400 21736 2559 13640 13696 25371 25371 0.08633617148734629 NYPQSVPRL 9 Unmodified _NYPQSVPRL_ 0 0 0 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;ENST00000574308.1_1_17:1371595-1373510:-|nuORF nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.2919921875 2 537.290548 1072.56654 2.9449 0.0015823 0.51358 0.00027594 3.4585 0.0018582 537.2908487861765 43.662 0.40039 43.932 43.614 44.014 0.2694 25 14 2 0 0 0 0.063575 3 19839 19839;19905;19966 41.84 23.693 1 669570 21737 5847 13641 13697 25372;25373;25374 25372 0.03316261191821468 NYPQSVPRL 9 Unmodified _NYPQSVPRL_ 0 0 0 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;ENST00000574308.1_1_17:1371595-1373510:-|nuORF nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.292236328125 2 537.290548 1072.56654 NaN NaN NaN NaN NaN NaN NaN 42.869 1 43.516 43.016 44.016 0.64693 0 0 0 0.2842 1 19645 19645 27.629 18.883 1 21738 5847 13641 13697 25375 25375 0.03316261191821468 NYPQSVPRL 9 Unmodified _NYPQSVPRL_ 0 0 0 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;ENST00000574308.1_1_17:1371595-1373510:-|nuORF nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.2925415039062 2 537.290548 1072.56654 NaN NaN NaN NaN NaN NaN NaN 43.034 1 43.683 43.183 44.183 0.64872 0 0 0 0.10938 1 19719 19719 39.95 19.078 1 21739 5847 13641 13697 25376 25376 0.03316261191821468 NYQDTIGRL 9 Unmodified _NYQDTIGRL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;PDPR-VIM|1|fusion ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.2791748046875 2 540.277638 1078.54072 3.229 0.0017446 -1.2816 -0.0006924 1.9474 0.0010522 540.2769032362783 44.937 0.28962 44.937 44.798 45.087 0 33 14 3 0 0 0 0.016529 2 20580 20526;20580 72.968 19.135 1 3420400 21740 483 13642 13698 25377;25378 25378 0.00459366949530704 NYQDTIGRL 9 Unmodified _NYQDTIGRL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;PDPR-VIM|1|fusion ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.2776489257812 2 540.277638 1078.54072 2.9894 0.0016151 -0.3757 -0.00020298 2.6137 0.0014121 540.2773532613924 43.768 0.34763 44.583 44.381 44.729 0.81444 62 19 4 0 0 0 0.0017071 2 19883 19883;19930 107.19 24.189 1 2684700 21741 483 13642 13698 25379;25380 25379 0.00459366949530704 NYQDTIGRL 9 Unmodified _NYQDTIGRL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;PDPR-VIM|1|fusion ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.2789916992188 2 540.277638 1078.54072 3.0665 0.0016568 -0.69846 -0.00037736 2.3681 0.0012794 540.2776032547039 44.956 0.37542 45.223 45.037 45.412 0.26768 44 19 3 0 0 0 0.03963 1 20522 20522 51.63 19.324 1 2022000 21742 483 13642 13698 25381 25381 0.00459366949530704 NYQDTIGRL 9 Unmodified _NYQDTIGRL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;PDPR-VIM|1|fusion ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.250732421875 2 540.277638 1078.54072 3.5132 0.0018981 -0.10354 -5.5942E-05 3.4097 0.0018422 540.2775561816375 44.395 0.3552 45.045 44.867 45.223 0.64998 35 15 3 0 0 0 0.030967 1 20384 20384 39.95 11.463 1 1446300 21743 483 13642 13698 25382 25382 0.00459366949530704 NYQGHFHLF 9 Unmodified _NYQGHFHLF_ 0 0 0 ENST00000283632.4_1_2:86968058-86968091:+|nuORF ENST00000283632.4_1_2:86968058-86968091:+|nuORF ENST00000283632.4_1_2:86968058-86968091:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 388.1868896484375 3 388.185802 1161.53558 2.9478 0.0011443 -0.23982 -9.3095E-05 2.708 0.0010512 388.18563373948393 50.992 0.32052 50.992 50.829 51.149 0 39 15 3 0 0 0 0.12776 1 23341 23341 19.257 13.854 1 3588800 21744 6709 13643 13699 25383 25383 -0.03872892122444682 NYQGHFHLF 9 Unmodified _NYQGHFHLF_ 0 0 0 ENST00000283632.4_1_2:86968058-86968091:+|nuORF ENST00000283632.4_1_2:86968058-86968091:+|nuORF ENST00000283632.4_1_2:86968058-86968091:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.777587890625 2 581.775065 1161.53558 3.8632 0.0022475 -0.14619 -8.5047E-05 3.717 0.0021625 581.7749657936686 50.989 0.29533 50.989 50.854 51.149 0 35 14 3 0 0 0 0.0061269 2 23342 23342;23411 89.427 58.158 1 2347600 21745 6709 13643 13699 25384;25385 25384 -0.03872892122444682 NYQGHFHLF 9 Unmodified _NYQGHFHLF_ 0 0 0 ENST00000283632.4_1_2:86968058-86968091:+|nuORF ENST00000283632.4_1_2:86968058-86968091:+|nuORF ENST00000283632.4_1_2:86968058-86968091:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.7774047851562 2 581.775065 1161.53558 3.3522 0.0019502 0.23398 0.00013613 3.5862 0.0020864 581.7749663622412 49.928 0.33777 50.751 50.591 50.929 0.82285 29 13 3 0 0 0 0.0026885 2 22721 22721;22777 97.075 65.806 1 1084200 21746 6709 13643 13699 25386;25387 25386 -0.03872892122444682 NYQGHFHLF 9 Unmodified _NYQGHFHLF_ 0 0 0 ENST00000283632.4_1_2:86968058-86968091:+|nuORF ENST00000283632.4_1_2:86968058-86968091:+|nuORF ENST00000283632.4_1_2:86968058-86968091:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 388.1870422363281 3 388.185802 1161.53558 2.6329 0.001022 0.084404 3.2765E-05 2.7173 0.0010548 388.18571808136545 49.932 0.39318 50.755 50.577 50.97 0.82285 47 16 4 0 0 0 0.23832 2 22728 22728;22789 13.906 8.1742 1 1809800 21747 6709 13643 13699 25388;25389 25388 -0.03872892122444682 NYQGHFHLF 9 Unmodified _NYQGHFHLF_ 0 0 0 ENST00000283632.4_1_2:86968058-86968091:+|nuORF ENST00000283632.4_1_2:86968058-86968091:+|nuORF ENST00000283632.4_1_2:86968058-86968091:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.278564453125 2 581.775065 1161.53558 3.287 0.0019123 0.49558 0.00028831 3.7826 0.0022006 581.7753090814033 51.068 0.27442 51.33 51.195 51.469 0.26146 19 11 3 0 0 0 0.026068 1 23341 23341 60.39 41.133 1 707240 21748 6709 13643 13699 25390 25390 -0.03872892122444682 NYQGHFHLF 9 Unmodified _NYQGHFHLF_ 0 0 0 ENST00000283632.4_1_2:86968058-86968091:+|nuORF ENST00000283632.4_1_2:86968058-86968091:+|nuORF ENST00000283632.4_1_2:86968058-86968091:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 388.1869201660156 3 388.185802 1161.53558 2.7601 0.0010714 0.29026 0.00011268 3.0504 0.0011841 388.18570875780136 51.115 0.23306 51.377 51.216 51.449 0.26146 21 9 3 0 0 0 0.37584 1 23359 23359 9.3831 6.3109 1 812410 21749 6709 13643 13699 25391 25391 -0.03872892122444682 NYQGHFHLF 9 Unmodified _NYQGHFHLF_ 0 0 0 ENST00000283632.4_1_2:86968058-86968091:+|nuORF ENST00000283632.4_1_2:86968058-86968091:+|nuORF ENST00000283632.4_1_2:86968058-86968091:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.7772216796875 2 581.775065 1161.53558 3.5105 0.0020423 0.08452 4.9171E-05 3.595 0.0020915 581.7754290448399 50.377 0.30321 51.034 50.853 51.156 0.65735 30 13 3 0 0 0 0.0061269 1 23034 23034 89.427 58.79 1 470690 21750 6709 13643 13699 25392 25392 -0.03872892122444682 NYQGHFHLF 9 Unmodified _NYQGHFHLF_ 0 0 0 ENST00000283632.4_1_2:86968058-86968091:+|nuORF ENST00000283632.4_1_2:86968058-86968091:+|nuORF ENST00000283632.4_1_2:86968058-86968091:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 388.18634033203125 3 388.185802 1161.53558 2.7231 0.0010571 -0.34389 -0.00013349 2.3792 0.00092357 388.18555083027576 50.392 0.35802 51.05 50.833 51.191 0.65735 38 16 3 0 0 0 0.11236 1 23032 23032 2.9952 2.9952 1 868600 21751 6709 13643 13699 25393 25393 -0.03872892122444682 NYQHRLFR 8 Unmodified _NYQHRLFR_ 0 0 0 REV__ENSG00000139437|ENST00000405876|TCHP REV__ENSG00000139437|ENST00000405876|TCHP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.5379638671875 3 378.536946 1132.58901 2.7413 0.0010377 2.0384 0.0007716 4.7797 0.0018093 378.5376412996771 55.668 0.2698 56.336 56.209 56.478 0.66798 21 9 3 0 0 0 0.66653 1 25478 25478 6.2058 1.3088 1 2040100 + 21752 12212 13644 13700 25394 25394 0.02801905380079006 NYQKRFQNL 9 Unmodified _NYQKRFQNL_ 0 0 0 nc|ENSG00000060491|Q9NZT2-2|OGFR;ENSG00000060491|ENST00000290291|OGFR nc|ENSG00000060491|Q9NZT2-2|OGFR nc|ENSG00000060491|Q9NZT2-2|OGFR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.21673583984375 3 404.215761 1209.62546 2.155 0.00087107 0.55596 0.00022473 2.7109 0.0010958 404.2159160824399 23.052 0.26906 23.737 23.543 23.812 0.68536 60 36 2 0 0 0 0.078225 2 10259 10217;10259 38.176 20.733 1 1194000 21753 641 13645 13701 25395;25396 25396 0.02902737486147089 NYQNVVHKL 9 Unmodified _NYQNVVHKL_ 0 0 0 nc|ENSG00000146463|Q5VZL5-2|ZMYM4;nc|ENSG00000146463|Q5VZL5-4|ZMYM4;ENSG00000146463|ENST00000314607|ZMYM4;nc|ENSG00000146463|Q5VZL5-3|ZMYM4 nc|ENSG00000146463|Q5VZL5-2|ZMYM4 nc|ENSG00000146463|Q5VZL5-2|ZMYM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.8065795898438 2 557.803823 1113.59309 NaN NaN NaN NaN NaN NaN NaN 26.537 1 27.316 26.816 27.816 0.7787 0 0 0 0.041263 1 11920 11920 56.177 35.723 1 21754 3521 13646 13702 25397 25397 0.040839500831452824 NYQNVVHKL 9 Unmodified _NYQNVVHKL_ 0 0 0 nc|ENSG00000146463|Q5VZL5-2|ZMYM4;nc|ENSG00000146463|Q5VZL5-4|ZMYM4;ENSG00000146463|ENST00000314607|ZMYM4;nc|ENSG00000146463|Q5VZL5-3|ZMYM4 nc|ENSG00000146463|Q5VZL5-2|ZMYM4 nc|ENSG00000146463|Q5VZL5-2|ZMYM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.8056640625 2 557.803823 1113.59309 NaN NaN NaN NaN NaN NaN NaN 27.434 1 27.696 27.196 28.196 0.26245 0 0 0 0.032905 1 12472 12472 58.679 45.636 1 21755 3521 13646 13702 25398 25398 0.040839500831452824 NYQNVVHKL 9 Unmodified _NYQNVVHKL_ 0 0 0 nc|ENSG00000146463|Q5VZL5-2|ZMYM4;nc|ENSG00000146463|Q5VZL5-4|ZMYM4;ENSG00000146463|ENST00000314607|ZMYM4;nc|ENSG00000146463|Q5VZL5-3|ZMYM4 nc|ENSG00000146463|Q5VZL5-2|ZMYM4 nc|ENSG00000146463|Q5VZL5-2|ZMYM4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.8052368164062 2 557.803823 1113.59309 3.4111 0.0019027 -0.23304 -0.00012999 3.1781 0.0017727 557.8034665859806 27.03 0.18839 27.652 27.574 27.763 0.62178 21 13 2 0 0 0 0.086415 1 12398 12398 36.127 26.053 1 321170 21756 3521 13646 13702 25399 25399 0.040839500831452824 NYQQYWQYYQQ 11 Unmodified _NYQQYWQYYQQ_ 0 0 0 REV__nc|ENSG00000167615|Q96PV6-1|LENG8 REV__nc|ENSG00000167615|Q96PV6-1|LENG8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.77490234375 3 537.900279 1610.67901 NaN NaN NaN NaN NaN NaN NaN 63.833 1 64.548 64.048 65.048 0.71521 0 0 0 1.008 1 29952 29952 0.08335 0 1 + 21757 13294 13647 13703 25400 25400 -0.1019055459264564 NYRDTFFNL 9 Unmodified _NYRDTFFNL_ 0 0 0 nc|ENSG00000170340|Q9NY97-2|B3GNT2;ENSG00000170340|ENST00000301998|B3GNT2 nc|ENSG00000170340|Q9NY97-2|B3GNT2 nc|ENSG00000170340|Q9NY97-2|B3GNT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 595.28759765625 2 595.285463 1188.55637 3.8835 0.0023118 -0.57983 -0.00034517 3.3037 0.0019666 595.2853559453825 69.332 0.20085 69.587 69.494 69.694 0.25443 14 12 2 0 0 0 0.19064 1 31751 31751 24.021 12.526 1 325570 21758 4743 13648 13704 25401 25401 -0.030363465333948625 NYRRRRRMKR 10 Unmodified _NYRRRRRMKR_ 0 0 0 ENSG00000183770|ENST00000648323|FOXL2 ENSG00000183770|ENST00000648323|FOXL2 ENSG00000183770|ENST00000648323|FOXL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 746.439453125 2 746.436744 1490.85893 NaN NaN NaN NaN NaN NaN NaN 45.902 1 46.728 46.228 47.228 0.82621 0 0 0 1.0015 1 20905 20905 0.40072 0.093686 1 21759 5405 13649 13705 25402 25402 0.13313935444625713 NYRWFSYIWMY 11 Unmodified _NYRWFSYIWMY_ 0 0 0 REV__ENST00000523815.5_1_8:74876767-74884117:-|nuORF REV__ENST00000523815.5_1_8:74876767-74884117:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.5816650390625 3 543.583345 1627.72821 NaN NaN NaN NaN NaN NaN NaN 27.895 1 28.681 28.181 29.181 0.78627 0 0 0 1.0082 1 12552 12552 0.094841 0.094841 1 + 21760 17068 13650 13706 25403 25403 -0.060549378373934815 NYRYYEVQHW 10 Unmodified _NYRYYEVQHW_ 0 0 0 REV__ENST00000480463.6_1_6:52943619-52957704:+|nuORF REV__ENST00000480463.6_1_6:52943619-52957704:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.55828857421875 3 486.558076 1456.6524 NaN NaN NaN NaN NaN NaN NaN 47.31 1 48.139 47.639 48.639 0.82915 0 0 0 1.0013 1 21554 21554 0.62683 0.12087 1 + 21761 16689 13651 13707 25404 25404 -0.05766198693345359 NYSDAIVWL 9 Unmodified _NYSDAIVWL_ 0 0 0 ENSG00000134440|ENST00000256854|NARS1 ENSG00000134440|ENST00000256854|NARS1 ENSG00000134440|ENST00000256854|NARS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.7747802734375 2 540.771657 1079.52876 NaN NaN NaN NaN NaN NaN NaN 89.259 1 89.937 89.437 90.437 0.67818 0 0 0 0.13912 1 41098 41098 34.402 22.161 1 21762 2809 13652 13708 25405 25405 -0.007822497936786021 NYSLLLYEL 9 Unmodified _NYSLLLYEL_ 0 0 0 REV__nc|ENSG00000239732|Q9NR96-2|TLR9 REV__nc|ENSG00000239732|Q9NR96-2|TLR9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.5386657714844 3 376.537619 1126.59103 2.5981 0.00097829 1.584 0.00059644 4.1821 0.0015747 376.53790280657967 19.621 0.20584 19.913 19.803 20.008 0.29239 33 16 3 0 0 0 0.33646 2 8934 8929;8934 15.248 3.0737 1 201950 + 21763 14602 13653 13709 25406;25407 25407 0.032794765546668714 NYSRNFSSF 9 Unmodified _NYSRNFSSF_ 0 0 0 nc|ENSG00000133401|O15018-2|PDZD2;ENSG00000133401|ENST00000438447|PDZD2 nc|ENSG00000133401|O15018-2|PDZD2 nc|ENSG00000133401|O15018-2|PDZD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.255615234375 2 561.254163 1120.49377 3.4581 0.0019409 -0.35234 -0.00019775 3.1058 0.0017431 561.2539501744791 40.706 0.22854 40.706 40.598 40.826 0 20 11 2 0 0 0 0.002702 1 18472 18472 96.936 53.077 1 2627000 21764 2761 13654 13710 25408 25408 -0.061654926015989986 NYSRNFSSF 9 Unmodified _NYSRNFSSF_ 0 0 0 nc|ENSG00000133401|O15018-2|PDZD2;ENSG00000133401|ENST00000438447|PDZD2 nc|ENSG00000133401|O15018-2|PDZD2 nc|ENSG00000133401|O15018-2|PDZD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.2560424804688 2 561.254163 1120.49377 3.3439 0.0018768 0.81139 0.00045539 4.1553 0.0023322 561.2545130187324 39.569 0.47265 40.369 40.059 40.531 0.80014 49 23 4 0 0 0 0.00076206 3 17920 17873;17920;17973 128.93 60.852 1 1336200 21765 2761 13654 13710 25409;25410;25411 25410 -0.061654926015989986 NYSRNFSSF 9 Unmodified _NYSRNFSSF_ 0 0 0 nc|ENSG00000133401|O15018-2|PDZD2;ENSG00000133401|ENST00000438447|PDZD2 nc|ENSG00000133401|O15018-2|PDZD2 nc|ENSG00000133401|O15018-2|PDZD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.7583618164062 2 561.254163 1120.49377 3.7534 0.0021066 0.25508 0.00014316 4.0085 0.0022498 561.2539755796779 40.756 0.24659 41.025 40.913 41.16 0.26904 29 17 2 0 0 0 0.0013355 1 18551 18551 117.76 65.492 1 1415300 21766 2761 13654 13710 25412 25412 -0.061654926015989986 NYSYLHCEW 9 Carbamidomethyl (C) _NYSYLHC(Carbamidomethyl (C))EW_ NYSYLHC(1)EW NYSYLHC(48)EW 0 1 0 nc|ENSG00000100888|Q9HCK8-2|CHD8;ENSG00000100888|ENST00000646647|CHD8;CHD9|p.F1422Sfs*11|1|0.23|ENSG00000177200|chr16:53263040-53263040|C/-|frameshift_variant;nc|ENSG00000177200|Q3L8U1-2|CHD9;nc|ENSG00000177200|Q3L8U1-3|CHD9;ENSG00000177200|ENST00000447540|CHD9 nc|ENSG00000100888|Q9HCK8-2|CHD8 nc|ENSG00000100888|Q9HCK8-2|CHD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 636.2635498046875 2 636.26113 1270.50771 2.9523 0.0018784 1.4924 0.00094959 4.4448 0.002828 636.2625230966926 51.494 0.17531 52.311 52.249 52.425 0.81738 15 10 2 0 0 0 0.047285 1 23478 23478 48.346 33.508 1 580510 21767 1247 13655 13711 25413 25413 29 -0.11672583164840944 NYSYLHCEW 9 Carbamidomethyl (C) _NYSYLHC(Carbamidomethyl (C))EW_ NYSYLHC(1)EW NYSYLHC(56)EW 0 1 0 nc|ENSG00000100888|Q9HCK8-2|CHD8;ENSG00000100888|ENST00000646647|CHD8;CHD9|p.F1422Sfs*11|1|0.23|ENSG00000177200|chr16:53263040-53263040|C/-|frameshift_variant;nc|ENSG00000177200|Q3L8U1-2|CHD9;nc|ENSG00000177200|Q3L8U1-3|CHD9;ENSG00000177200|ENST00000447540|CHD9 nc|ENSG00000100888|Q9HCK8-2|CHD8 nc|ENSG00000100888|Q9HCK8-2|CHD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 636.263916015625 2 636.26113 1270.50771 3.808 0.0024229 1.5521 0.00098754 5.3601 0.0034104 636.2620752665713 52.596 0.23797 52.86 52.756 52.994 0.26345 13 8 2 0 0 0 0.029308 1 24072 24072 56.177 41.339 1 448410 21768 1247 13655 13711 25414 25414 29 -0.11672583164840944 NYTARFSRF 9 Unmodified _NYTARFSRF_ 0 0 0 ENSG00000144231|ENST00000272645|POLR2D ENSG00000144231|ENST00000272645|POLR2D ENSG00000144231|ENST00000272645|POLR2D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 387.86602783203125 3 387.86484 1160.57269 2.5252 0.00097945 -0.25689 -9.9637E-05 2.2684 0.00087982 387.8647948917999 35.47 0.24247 35.47 35.361 35.604 0 24 12 3 0 0 0 0.099775 2 16126 16077;16126 24.882 14.082 1 1261200 21769 3414 13656 13712 25415;25416 25416 -0.0011722057665792818 NYTARFSRF 9 Unmodified _NYTARFSRF_ 0 0 0 ENSG00000144231|ENST00000272645|POLR2D ENSG00000144231|ENST00000272645|POLR2D ENSG00000144231|ENST00000272645|POLR2D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 387.8657531738281 3 387.86484 1160.57269 2.3741 0.00092084 -0.094182 -3.653E-05 2.2799 0.00088431 387.8646975585771 34.434 0.21627 35.223 35.036 35.252 0.78921 20 12 2 0 0 0 0.057945 1 15556 15556 34.222 18.973 1 1367900 21770 3414 13656 13712 25417 25417 -0.0011722057665792818 NYTARFSRF 9 Unmodified _NYTARFSRF_ 0 0 0 ENSG00000144231|ENST00000272645|POLR2D ENSG00000144231|ENST00000272645|POLR2D ENSG00000144231|ENST00000272645|POLR2D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.8660583496094 3 387.86484 1160.57269 2.8401 0.0011016 0.31832 0.00012347 3.1584 0.001225 387.864976337703 35.121 0.21914 35.744 35.681 35.9 0.62294 15 8 2 0 0 0 0.24524 1 16106 16106 14.957 8.7514 1 366350 21771 3414 13656 13712 25418 25418 -0.0011722057665792818 NYTDIKDYL 9 Unmodified _NYTDIKDYL_ 0 0 0 nc|ENSG00000112874|Q9BQG2-2|NUDT12;ENSG00000112874|ENST00000230792|NUDT12 nc|ENSG00000112874|Q9BQG2-2|NUDT12 nc|ENSG00000112874|Q9BQG2-2|NUDT12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.7817993164062 2 572.779679 1143.5448 3.3698 0.0019301 0.44482 0.00025479 3.8146 0.0021849 572.7800219475837 62.204 0.16638 62.454 62.337 62.503 0.24965 17 6 3 0 0 0 0.018453 1 28488 28488 70.332 35.93 1 1110800 21772 1824 13657 13713 25419 25419 -0.021225883474244256 NYTDIKDYL 9 Unmodified _NYTDIKDYL_ 0 0 0 nc|ENSG00000112874|Q9BQG2-2|NUDT12;ENSG00000112874|ENST00000230792|NUDT12 nc|ENSG00000112874|Q9BQG2-2|NUDT12 nc|ENSG00000112874|Q9BQG2-2|NUDT12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 573.4688110351562 2 572.779679 1143.5448 3.5429 0.0020293 -0.62342 -0.00035708 2.9195 0.0016722 572.7793403690667 61.636 0.17431 62.296 62.134 62.308 0.66008 13 7 3 0 0 0 0.22824 1 28183 28183 21.537 4.4241 1 5514800 21773 1824 13657 13713 25420 25420 -0.021225883474244256 NYTLVSHLI 9 Unmodified _NYTLVSHLI_ 0 0 0 ENSG00000166986|ENST00000262027|MARS1;ENST00000548630.1_1_12:57906018-57906171:+|nuORF;ENST00000537638.6_1_12:57905855-57911076:+|nuORF ENSG00000166986|ENST00000262027|MARS1 ENSG00000166986|ENST00000262027|MARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.2966918945312 2 530.295299 1058.57605 3.3064 0.0017534 -0.28533 -0.00015131 3.0211 0.0016021 530.2949988426444 65.561 0.27213 65.809 65.699 65.971 0.24848 31 14 3 0 0 0 0.015468 2 30018 30018;30064 74.423 53.969 1 1598100 21774 4524 13658 13714 25421;25422 25421 0.049100294773325004 NYTLVSHLI 9 Unmodified _NYTLVSHLI_ 0 0 0 ENSG00000166986|ENST00000262027|MARS1;ENST00000548630.1_1_12:57906018-57906171:+|nuORF;ENST00000537638.6_1_12:57905855-57911076:+|nuORF ENSG00000166986|ENST00000262027|MARS1 ENSG00000166986|ENST00000262027|MARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.297607421875 2 530.295299 1058.57605 3.3551 0.0017792 -0.13443 -7.1288E-05 3.2206 0.0017079 530.2951844389049 64.927 0.30816 65.583 65.426 65.734 0.65672 37 21 3 0 0 0 0.0080831 2 29749 29749;29795 85.357 55.132 1 1320700 21775 4524 13658 13714 25423;25424 25423 0.049100294773325004 NYVEKGFQI 9 Unmodified _NYVEKGFQI_ 0 0 0 ENST00000527591.5_1_14:61453838-61514994:+|nuORF;ENSG00000139974|ENST00000267488|SLC38A6;ENST00000529345.6_1_14:61448346-61550389:+|nuORF;nc|ENSG00000139974|Q8IZM9-2|SLC38A6 ENST00000527591.5_1_14:61453838-61514994:+|nuORF ENST00000527591.5_1_14:61453838-61514994:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.2871704101562 2 549.284931 1096.55531 NaN NaN NaN NaN NaN NaN NaN 50.445 1 50.445 49.945 50.945 0 0 0 0 0.52632 1 23095 23095 18.146 5.6148 1 21776 3173 13659 13715 25425 25425 0.010894390976773138 NYVEVTRKW 9 Unmodified _NYVEVTRKW_ 0 0 0 ENST00000495589.5_1_1:155181271-155183486:+|nuORF;ENST00000440904.1_1_1:155200937-155204113:+|nuORF;nc|ENSG00000173171|Q13505-3|MTX1;ENST00000481771.5_1_1:155181647-155183486:+|nuORF;nc|ENSG00000173171|Q13505-2|MTX1;ENSG00000173171|ENST00000368376|MTX1 ENST00000495589.5_1_1:155181271-155183486:+|nuORF ENST00000495589.5_1_1:155181271-155183486:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.8813781738281 3 398.880379 1193.61931 2.3536 0.00093881 0.083785 3.342E-05 2.4374 0.00097223 398.88041447492617 33.92 0.18236 34.709 34.634 34.816 0.78921 16 11 2 0 0 0 0.70688 1 15362 15362 8.9762 8.9762 1 322430 21777 4916 13660 13716 25426 25426 0.0302421925462113 NYVEVTRKW 9 Unmodified _NYVEVTRKW_ 0 0 0 ENST00000495589.5_1_1:155181271-155183486:+|nuORF;ENST00000440904.1_1_1:155200937-155204113:+|nuORF;nc|ENSG00000173171|Q13505-3|MTX1;ENST00000481771.5_1_1:155181647-155183486:+|nuORF;nc|ENSG00000173171|Q13505-2|MTX1;ENSG00000173171|ENST00000368376|MTX1 ENST00000495589.5_1_1:155181271-155183486:+|nuORF ENST00000495589.5_1_1:155181271-155183486:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.81884765625 2 597.81693 1193.61931 3.9963 0.0023891 0.66777 0.0003992 4.6641 0.0027883 597.8174058440835 34.532 0.22059 35.155 35.051 35.271 0.62294 11 7 2 0 0 0 0.35367 1 15837 15837 20.415 8.1739 1 280290 21778 4916 13660 13716 25427 25427 0.0302421925462113 NYVEVTRKW 9 Unmodified _NYVEVTRKW_ 0 0 0 ENST00000495589.5_1_1:155181271-155183486:+|nuORF;ENST00000440904.1_1_1:155200937-155204113:+|nuORF;nc|ENSG00000173171|Q13505-3|MTX1;ENST00000481771.5_1_1:155181647-155183486:+|nuORF;nc|ENSG00000173171|Q13505-2|MTX1;ENSG00000173171|ENST00000368376|MTX1 ENST00000495589.5_1_1:155181271-155183486:+|nuORF ENST00000495589.5_1_1:155181271-155183486:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.8817138671875 3 398.880379 1193.61931 2.8796 0.0011486 -0.72578 -0.0002895 2.1539 0.00085913 398.8800387842023 34.52 0.17239 35.143 35.051 35.223 0.62294 9 5 2 0 0 0 0.70688 1 15838 15838 8.9762 8.9762 1 147340 21779 4916 13660 13716 25428 25428 0.0302421925462113 NYVKKFQSF 9 Unmodified _NYVKKFQSF_ 0 0 0 ENSG00000109536|ENST00000226798|FRG1;ENST00000278882.8_1_20:29623179-29633907:+|nuORF ENSG00000109536|ENST00000226798|FRG1 ENSG00000109536|ENST00000226798|FRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 387.8767395019531 3 387.541475 1159.60259 2.313 0.00089638 0.18822 7.2941E-05 2.5012 0.00096932 387.54148816167725 32.571 0.243 33.359 33.213 33.456 0.78795 28 16 3 0 0 0 0.81759 1 14726 14726 7.1017 3.7821 1 295570 21780 1679 13661 13717 25429 25429 0.029177183686670105 NYVKKFQSF 9 Unmodified _NYVKKFQSF_ 0 0 0 ENSG00000109536|ENST00000226798|FRG1;ENST00000278882.8_1_20:29623179-29633907:+|nuORF ENSG00000109536|ENST00000226798|FRG1 ENSG00000109536|ENST00000226798|FRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.3118286132812 2 580.808574 1159.60259 3.4235 0.0019884 0.42095 0.00024449 3.8445 0.0022329 581.3098226155797 33.754 0.23458 34.008 33.829 34.063 0.25389 23 15 2 0 0 0 0.87132 1 15371 15371 9.3831 6.1018 1 275430 21781 1679 13661 13717 25430 25430 0.029177183686670105 NYVKKFQSF 9 Unmodified _NYVKKFQSF_ 0 0 0 ENSG00000109536|ENST00000226798|FRG1;ENST00000278882.8_1_20:29623179-29633907:+|nuORF ENSG00000109536|ENST00000226798|FRG1 ENSG00000109536|ENST00000226798|FRG1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 580.808574 1159.60259 3.4045 0.0019774 0.54981 0.00031934 3.9543 0.0022967 580.8090350834045 33.704 0.14248 33.704 33.645 33.787 0 -0.15086 0.00047964 NaN 9.3831 14 9 2 NaN NaN NaN NaN 0 NaN NaN 0 455870 21782 1679 13661 13717 0.029177183686670105 NYVKKFQSF 9 Unmodified _NYVKKFQSF_ 0 0 0 ENSG00000109536|ENST00000226798|FRG1;ENST00000278882.8_1_20:29623179-29633907:+|nuORF ENSG00000109536|ENST00000226798|FRG1 ENSG00000109536|ENST00000226798|FRG1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 580.808574 1159.60259 3.4911 0.0020277 -0.68864 -0.00039997 2.8025 0.0016277 581.3091738983619 33.233 0.19907 33.853 33.715 33.914 0.62031 -0.0019501 -0.00095897 NaN 9.3831 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 185390 21783 1679 13661 13717 0.029177183686670105 NYVQAVEEF 9 Unmodified _NYVQAVEEF_ 0 0 0 ENST00000527932.1_1_1:46080644-46081380:+|nuORF;nc|ENSG00000132780|P49321-2|NASP;nc|ENSG00000132780|P49321-4|NASP;ENSG00000132780|ENST00000350030|NASP;nc|ENSG00000132780|P49321-3|NASP;ENST00000529239.1_1_8:61850915-61851251:-|nuORF ENST00000527932.1_1_1:46080644-46081380:+|nuORF ENST00000527932.1_1_1:46080644-46081380:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.7615356445312 2 549.758746 1097.50294 NaN NaN NaN NaN NaN NaN NaN 65.288 1 65.536 65.036 66.036 0.24803 0 0 0 0.56337 1 29911 29911 16.942 10.737 1 21784 2725 13662 13718 25431 25431 -0.04191144035939942 NYVSTNVL 8 Unmodified _NYVSTNVL_ 0 0 0 REV__nc|ENSG00000124151|Q9Y6Q9-2|NCOA3 REV__nc|ENSG00000124151|Q9Y6Q9-2|NCOA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 455.2383117675781 2 455.23745 908.460347 2.8786 0.0013105 0.38495 0.00017524 3.2636 0.0014857 455.23760229590164 32.937 0.30596 33.555 33.407 33.713 0.61831 22 13 2 0 0 0 0.65723 1 15156 15156 9.3474 0 1 446980 + 21785 11637 13663 13719 25432 25432 0.0024550562649210406 NYVTDVKSW 9 Unmodified _NYVTDVKSW_ 0 0 0 ENSG00000145934|ENST00000518659|TENM2;nc|ENSG00000145934|Q9NT68-2|TENM2;TENM2|p.V2484M|1|0.15|ENSG00000145934|chr5:168260300-168260300|G/A|missense_variant ENSG00000145934|ENST00000518659|TENM2 ENSG00000145934|ENST00000518659|TENM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 556.2769165039062 2 556.274564 1110.53457 NaN NaN NaN NaN NaN NaN NaN 48.535 1 49.362 48.862 49.862 0.82705 0 0 0 0.6155 1 22111 22111 15.248 5.8654 1 21786 3497 13664 13720 25433 25433 -0.01627151281991246 NYYEVHKELF 10 Unmodified _NYYEVHKELF_ 0 0 0 nc|ENSG00000198901|O43663-3|PRC1;nc|ENSG00000198901|O43663-4|PRC1;ENSG00000198901|ENST00000394249|PRC1;nc|ENSG00000198901|O43663-2|PRC1 nc|ENSG00000198901|O43663-3|PRC1 nc|ENSG00000198901|O43663-3|PRC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 447.8883056640625 3 447.88731 1340.6401 2.789 0.0012492 -0.24468 -0.00010959 2.5443 0.0011396 447.88712377603326 44.775 0.22691 44.775 44.671 44.898 0 24 12 3 0 0 0 0.63102 1 20482 20482 16.275 11.559 1 455460 21787 5958 13665 13721 25434 25434 -0.016592351563986085 NYYEVHKELF 10 Unmodified _NYYEVHKELF_ 0 0 0 nc|ENSG00000198901|O43663-3|PRC1;nc|ENSG00000198901|O43663-4|PRC1;ENSG00000198901|ENST00000394249|PRC1;nc|ENSG00000198901|O43663-2|PRC1 nc|ENSG00000198901|O43663-3|PRC1 nc|ENSG00000198901|O43663-3|PRC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 447.88731 1340.6401 2.6653 0.0011937 0.80126 0.00035887 3.4665 0.0015526 447.88778445127264 43.567 0.25468 44.381 44.281 44.536 0.81444 -0.19705 0.00067564 NaN 16.275 21 11 3 NaN NaN NaN NaN 0 NaN NaN 0 313390 21788 5958 13665 13721 -0.016592351563986085 NYYTVWKQ 8 Unmodified _NYYTVWKQ_ 0 0 0 nc|ENSG00000088298|Q9BV94-2|EDEM2;ENSG00000088298|ENST00000374492|EDEM2 nc|ENSG00000088298|Q9BV94-2|EDEM2 nc|ENSG00000088298|Q9BV94-2|EDEM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.2726440429688 2 551.271824 1100.5291 3.2192 0.0017746 -0.60092 -0.00033127 2.6182 0.0014434 551.2712979831797 40.321 0.19901 41.121 41.069 41.268 0.80014 18 11 2 0 0 0 0.3435 1 18279 18279 32.305 9.1571 1 1351400 21789 1011 13666 13722 25435 25435 -0.017148300737972022 PAAAAAAAHR 10 Unmodified _PAAAAAAAHR_ 0 0 0 ENST00000558180.2_1_16:54318400-54319510:-|nuORF;ENSG00000177508|ENST00000329734|IRX3 ENST00000558180.2_1_16:54318400-54319510:-|nuORF ENST00000558180.2_1_16:54318400-54319510:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.72705078125 2 453.74885 905.483148 NaN NaN NaN NaN NaN NaN NaN 75.992 1 76.249 75.749 76.749 0.25704 0 0 0 0.98473 1 34981 34981 7.9102 2.6795 1 21790 5120 13667 13723 25436 25436 0.026625695345956046 PAAAAAAYSD 10 Unmodified _PAAAAAAYSD_ 0 0 0 nc|ENSG00000167281|A6NFN3|RBFOX3;nc|ENSG00000167281|A6NFN3-2|RBFOX3;ENSG00000167281|ENST00000693108|RBFOX3 nc|ENSG00000167281|A6NFN3|RBFOX3 nc|ENSG00000167281|A6NFN3|RBFOX3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.21075439453125 2 454.211432 906.408311 NaN NaN NaN NaN NaN NaN NaN 61.988 1 61.988 61.488 62.488 0 0 0 0 0.98473 1 28994 28994 7.9102 0 1 21791 4540 13668 13724 25437 25437 -0.048636577873026 PAAAADPEPS 10 Unmodified _PAAAADPEPS_ 0 0 0 REV__ENSG00000160999|ENST00000444095|SH2B2 REV__ENSG00000160999|ENST00000444095|SH2B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.0674133300781 2 463.216714 924.418876 NaN NaN NaN NaN NaN NaN NaN 66.012 1 66.716 66.216 67.216 0.7047 0 0 0 0.98473 1 31262 31262 7.9102 0 1 + 21792 12902 13669 13725 25438 25438 -0.04635675132863071 PAAAAEQNGR 10 Unmodified _PAAAAEQNGR_ 0 0 0 REV__nc|ENSG00000078328|Q9NWB1-3|RBFOX1 REV__nc|ENSG00000078328|Q9NWB1-3|RBFOX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.82122802734375 2 492.746505 983.478456 NaN NaN NaN NaN NaN NaN NaN 67.603 1 68.305 67.805 68.805 0.70218 0 0 0 0.95544 1 32173 32173 12.532 1.7076 1 + 21793 10570 13670 13726 25439 25439 -0.013943593988074099 PAAAAFSHPQ 10 Unmodified _PAAAAFSHPQ_ 0 0 0 ENST00000594188.1_1_19:50922219-50926375:+|nuORF;nc|ENSG00000269404|Q01892-2|SPIB;ENSG00000269404|ENST00000595883|SPIB ENST00000594188.1_1_19:50922219-50926375:+|nuORF ENST00000594188.1_1_19:50922219-50926375:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.7483215332031 2 498.748516 995.482479 NaN NaN NaN NaN NaN NaN NaN 71.41 1 71.41 70.91 71.91 0 0 0 0 0.98473 1 34711 34711 7.9102 0 1 21794 6329 13671 13727 25440 25440 -0.015442699051050113 PAAAAKAAKYG 11 Unmodified _PAAAAKAAKYG_ 0 0 0 nc|ENSG00000049540|P15502-11|ELN;nc|ENSG00000049540|P15502-8|ELN;nc|ENSG00000049540|P15502-7|ELN;nc|ENSG00000049540|P15502-6|ELN;nc|ENSG00000049540|P15502-12|ELN;nc|ENSG00000049540|P15502-13|ELN;nc|ENSG00000049540|P15502-5|ELN;ENSG00000049540|ENST00000252034|ELN;nc|ENSG00000049540|P15502-1|ELN;nc|ENSG00000049540|P15502-4|ELN;nc|ENSG00000049540|P15502-10|ELN;nc|ENSG00000049540|P15502|ELN;nc|ENSG00000049540|P15502-9|ELN nc|ENSG00000049540|P15502-11|ELN nc|ENSG00000049540|P15502-11|ELN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 509.8709716796875 2 509.787641 1017.56073 NaN NaN NaN NaN NaN NaN NaN 70.67 1 71.374 70.874 71.874 0.70386 0 0 0 0.9645 1 33880 33880 10.074 2.1638 1 21795 577 13672 13728 25441 25441 0.05265162680132107 PAAAALHCLR 10 Unmodified _PAAAALHCLR_ 0 0 0 ENST00000375150.6_1_6:32116492-32119883:-|nuORF;ENST00000495191.5_1_6:32116492-32118763:-|nuORF;ENST00000211413.9_1_6:32116492-32119704:-|nuORF ENST00000375150.6_1_6:32116492-32119883:-|nuORF ENST00000375150.6_1_6:32116492-32119883:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.0814819335938 2 511.781836 1021.54912 NaN NaN NaN NaN NaN NaN NaN 68.971 1 69.673 69.173 70.173 0.70218 0 0 0 0.98473 1 32928 32928 7.9102 0 1 21796 6396 13673 13729 25442 25442 0.03920642385139672 PAAAALLRR 9 Unmodified _PAAAALLRR_ 0 0 0 ENST00000308064.6_1_11:45687014-45687152:-|nuORF ENST00000308064.6_1_11:45687014-45687152:-|nuORF ENST00000308064.6_1_11:45687014-45687152:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.8665466308594 2 469.798343 937.582134 NaN NaN NaN NaN NaN NaN NaN 69.591 1 69.591 69.091 70.091 0 0 0 0 0.7971 1 33623 33623 9.3474 0 1 21797 6850 13674 13730 25443 25443 0.11084592499514656 PAAAAPGMACA 11 Unmodified _PAAAAPGMACA_ 0 0 0 REV__nc|ENSG00000145536|Q8TE57-2|ADAMTS16 REV__nc|ENSG00000145536|Q8TE57-2|ADAMTS16 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.33135986328125 2 465.71223 929.409908 NaN NaN NaN NaN NaN NaN NaN 67.56 1 67.56 67.06 68.06 0 0 0 0 0.99968 1 32434 32434 6.7232 0 1 + 21798 12444 13675 13731 25444 25444 -0.05762063294537256 PAAAAVCHVPS 11 Unmodified _PAAAAVCHVPS_ 0 0 0 REV__RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant REV__RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.56494140625 2 511.758027 1021.5015 NaN NaN NaN NaN NaN NaN NaN 71.528 1 71.528 71.028 72.028 0 0 0 0 0.99968 1 34771 34771 6.7232 0 1 + 21799 14095 13676 13732 25445 25445 -0.00839056605695987 PAAAAVTEAWF 11 Unmodified _PAAAAVTEAWF_ 0 0 0 REV__ENST00000537063.1_1_12:109915501-109915567:+|nuORF REV__ENST00000537063.1_1_12:109915501-109915567:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.5447387695312 2 567.284931 1132.55531 NaN NaN NaN NaN NaN NaN NaN 74.407 1 74.665 74.165 75.165 0.25831 0 0 0 0.95662 1 34220 34220 10.824 2.9138 1 + 21800 17185 13677 13733 25446 25446 -0.005665609023481011 PAAAAWSEPC 10 Unmodified _PAAAAWSEPC_ 0 0 0 REV__ENST00000346623.6_1_15:101427832-101427886:+|nuORF REV__ENST00000346623.6_1_15:101427832-101427886:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.7221984863281 2 501.72111 1001.42767 NaN NaN NaN NaN NaN NaN NaN 74.674 1 75.361 74.861 75.861 0.68662 0 0 0 0.98473 1 36096 36096 7.9102 2.6795 1 + 21801 15511 13678 13734 25447 25447 -0.07299024768030904 PAAADELFRM 10 Unmodified _PAAADELFRM_ 0 0 0 REV__nc|ENSG00000204613|Q9UDY6-2|TRIM10 REV__nc|ENSG00000204613|Q9UDY6-2|TRIM10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.775634765625 2 560.776416 1119.53828 NaN NaN NaN NaN NaN NaN NaN 81.916 1 82.576 82.076 83.076 0.65998 0 0 0 0.99983 1 37745 37745 1.8442 0 1 + 21802 14429 13679 13735 25448 25448 -0.01670804779791979 PAAADFCHT 9 Unmodified _PAAADFCHT_ 0 0 0 nc|ENSG00000163644|Q8N3J5-3|PPM1K;ENST00000513546.3_1_4:89199285-89199735:-|nuORF;nc|ENSG00000163644|Q8N3J5-2|PPM1K;ENST00000506423.1_1_4:89192183-89199735:-|nuORF;ENSG00000163644|ENST00000608933|PPM1K nc|ENSG00000163644|Q8N3J5-3|PPM1K nc|ENSG00000163644|Q8N3J5-3|PPM1K MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.6998596191406 2 466.700177 931.385802 NaN NaN NaN NaN NaN NaN NaN 62.831 1 62.831 62.331 63.331 0 0 0 0 0.7971 1 29478 29478 9.3474 0 1 21803 4237 13680 13736 25449 25449 -0.08263580456548425 PAAADLYEE 9 Unmodified _PAAADLYEE_ 0 0 0 nc|ENSG00000171798|Q76NI1-4|KNDC1;ENSG00000171798|ENST00000304613|KNDC1 nc|ENSG00000171798|Q76NI1-4|KNDC1 nc|ENSG00000171798|Q76NI1-4|KNDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 489.6716613769531 2 489.724372 977.434192 NaN NaN NaN NaN NaN NaN NaN 64.618 1 65.333 64.833 65.833 0.71521 0 0 0 0.7971 1 30450 30450 9.3474 0 1 21804 4833 13681 13737 25450 25450 -0.05542808335678728 PAAADMFDN 9 Unmodified _PAAADMFDN_ 0 0 0 ENSG00000186790|ENST00000335071|FOXE3 ENSG00000186790|ENST00000335071|FOXE3 ENSG00000186790|ENST00000335071|FOXE3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 476.52117919921875 2 476.197467 950.380382 NaN NaN NaN NaN NaN NaN NaN 73.484 1 74.183 73.683 74.683 0.69881 0 0 0 0.7971 1 35445 35445 9.3474 1.4373 1 21805 5584 13682 13738 25451 25451 -0.09679304039025283 PAAADYESPCH 11 Unmodified _PAAADYESPCH_ 0 0 0 REV__ENST00000544974.6_2_15:71256204-71272504:+|nuORF REV__ENST00000544974.6_2_15:71256204-71272504:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 580.3807983398438 2 580.737488 1159.46042 NaN NaN NaN NaN NaN NaN NaN 75.123 1 75.123 74.623 75.623 0 0 0 0 0.99968 1 36807 36807 6.7232 3.1267 1 + 21806 17243 13683 13739 25452 25452 -0.1129286243583465 PAAAEAEDARG 11 Unmodified _PAAAEAEDARG_ 0 0 0 ENSG00000235098|ENST00000537107|ANKRD65 ENSG00000235098|ENST00000537107|ANKRD65 ENSG00000235098|ENST00000537107|ANKRD65 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.2474975585938 2 529.249077 1056.4836 NaN NaN NaN NaN NaN NaN NaN 66.541 1 66.541 66.041 67.041 0 0 0 0 0.99968 1 31818 31818 6.7232 0 1 21807 6200 13684 13740 25453 25453 -0.042381003268701534 PAAAEDGSEQ 10 Unmodified _PAAAEDGSEQ_ 0 0 0 ENST00000450021.1_1_2:183936291-183936849:-|nuORF ENST00000450021.1_1_2:183936291-183936849:-|nuORF ENST00000450021.1_1_2:183936291-183936849:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.7075500488281 2 487.706711 973.398869 NaN NaN NaN NaN NaN NaN NaN 66.957 1 66.957 66.457 67.457 0 0 0 0 0.98473 1 32038 32038 7.9102 1.187 1 21808 8005 13685 13741 25454 25454 -0.08889470863459792 PAAAEETPPY 10 Unmodified _PAAAEETPPY_ 0 0 0 nc|ENSG00000156299|Q13009-2|TIAM1;ENSG00000156299|ENST00000541036|TIAM1 nc|ENSG00000156299|Q13009-2|TIAM1 nc|ENSG00000156299|Q13009-2|TIAM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.8074340820312 2 523.245472 1044.47639 NaN NaN NaN NaN NaN NaN NaN 80.012 1 80.332 79.832 80.832 0.31998 0 0 0 0.98473 1 39107 39107 7.9102 2.6795 1 21809 3905 13686 13742 25455 25455 -0.04406832927270443 PAAAEFQNKL 10 Unmodified _PAAAEFQNKL_ 0 0 0 ENST00000495514.5_2_3:112930773-112935066:+|nuORF ENST00000495514.5_2_3:112930773-112935066:+|nuORF ENST00000495514.5_2_3:112930773-112935066:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.5751953125 2 544.790381 1087.56621 2.6063 0.0014199 -0.64151 -0.00034949 1.9648 0.0010704 544.7889268312223 63.989 0.01897 64.704 64.695 64.714 0.71521 4 2 2 0 0 0 0.12676 1 30070 30070 7.9102 0 1 14507000 21810 8433 13687 13743 25456 25456 0.025928414719373905 PAAAEKRLGT 10 Unmodified _PAAAEKRLGT_ 0 0 0 ENSG00000164588|ENST00000303230|HCN1 ENSG00000164588|ENST00000303230|HCN1 ENSG00000164588|ENST00000303230|HCN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.310791015625 2 507.290548 1012.56654 NaN NaN NaN NaN NaN NaN NaN 106.16 1 106.76 106.26 107.26 0.59969 0 0 0 0.98473 1 49021 49021 7.9102 0 1 21811 4324 13688 13744 25457 25457 0.06076261191822141 PAAAEPRCAAD 11 Unmodified _PAAAEPRCAAD_ 0 0 0 ENSG00000100997|ENST00000339157|ABHD12;nc|ENSG00000100997|Q8N2K0-2|ABHD12 ENSG00000100997|ENST00000339157|ABHD12 ENSG00000100997|ENST00000339157|ABHD12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.2947998046875 2 536.248023 1070.48149 NaN NaN NaN NaN NaN NaN NaN 73.072 1 73.072 72.572 73.572 0 0 0 0 0.99968 1 35580 35580 6.7232 1.4925 1 21812 1257 13689 13745 25458 25458 -0.050928523363154454 PAAAERHLQFD 11 Unmodified _PAAAERHLQFD_ 0 0 0 REV__ENST00000458516.5_1_6:30294268-30294532:+|nuORF REV__ENST00000458516.5_1_6:30294268-30294532:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 627.80517578125 2 627.814919 1253.61528 NaN NaN NaN NaN NaN NaN NaN 65.052 1 65.761 65.261 66.261 0.70891 0 0 0 0.99968 1 30704 30704 6.7232 2.3939 1 + 21813 16469 13690 13746 25459 25459 -0.0013787023910936114 PAAAEWACL 9 Unmodified _PAAAEWACL_ 0 0 0 nc|ENSG00000214655|A7E2V4-5|ZSWIM8;ENSG00000214655|ENST00000604729|ZSWIM8;nc|ENSG00000214655|A7E2V4|ZSWIM8;nc|ENSG00000214655|A7E2V4-3|ZSWIM8;nc|ENSG00000214655|A7E2V4-4|ZSWIM8;nc|ENSG00000214655|A7E2V4-2|ZSWIM8 nc|ENSG00000214655|A7E2V4-5|ZSWIM8 nc|ENSG00000214655|A7E2V4-5|ZSWIM8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.22021484375 2 466.220746 930.426938 NaN NaN NaN NaN NaN NaN NaN 78.182 1 78.646 78.146 79.146 0.4642 0 0 0 0.7971 1 37973 37973 9.3474 0 1 21814 6116 13691 13747 25460 25460 -0.04105819417077328 PAAAFLRTAAP 11 Unmodified _PAAAFLRTAAP_ 0 0 0 ENSG00000181652|ENST00000639579|ATG9B ENSG00000181652|ENST00000639579|ATG9B ENSG00000181652|ENST00000639579|ATG9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.3107299804688 2 543.308741 1084.60293 NaN NaN NaN NaN NaN NaN NaN 78.53 1 78.994 78.494 79.494 0.4642 0 0 0 0.99968 1 38189 38189 6.7232 0 1 21815 5295 13692 13748 25461 25461 0.06401138088517655 PAAAFRDQ 8 Unmodified _PAAAFRDQ_ 0 0 0 ENST00000270502.6_1_19:11039810-11040236:+|nuORF ENST00000270502.6_1_19:11039810-11040236:+|nuORF ENST00000270502.6_1_19:11039810-11040236:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 438.2232360839844 2 438.222134 874.429715 NaN NaN NaN NaN NaN NaN NaN 67.391 1 67.391 66.891 67.891 0 0 0 0 0.91812 1 32316 32316 11.114 1.767 1 21816 6650 13693 13749 25462 25462 -0.012522279679046733 PAAAFTAARS 10 Unmodified _PAAAFTAARS_ 0 0 0 ENSG00000163964|ENST00000392391|PIGX;nc|ENSG00000163964|Q8TBF5-2|PIGX ENSG00000163964|ENST00000392391|PIGX ENSG00000163964|ENST00000392391|PIGX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 481.7602844238281 2 481.756341 961.498129 NaN NaN NaN NaN NaN NaN NaN 66.152 1 66.857 66.357 67.357 0.7047 0 0 0 0.98473 1 31340 31340 7.9102 0 1 21817 4270 13694 13750 25463 25463 0.015840166119346577 PAAAFWKRFLR 11 Unmodified _PAAAFWKRFLR_ 0 0 0 REV__ENSG00000149256|ENST00000278550|TENM4 REV__ENSG00000149256|ENST00000278550|TENM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 682.1326904296875 2 681.893306 1361.77206 NaN NaN NaN NaN NaN NaN NaN 78.263 1 78.263 77.763 78.763 0 0 0 0 0.99968 1 38440 38440 6.7232 0.09279 1 + 21818 12562 13695 13751 25464 25464 0.10564459441866347 PAAAGKRKKIK 11 Unmodified _PAAAGKRKKIK_ 0 0 0 ENST00000361997.9_1_8:133790074-133829825:+|nuORF ENST00000361997.9_1_8:133790074-133829825:+|nuORF ENST00000361997.9_1_8:133790074-133829825:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.51025390625 2 584.387857 1166.76116 NaN NaN NaN NaN NaN NaN NaN 82.955 1 83 82.5 83.5 0.045006 0 0 0 1.0055 1 41047 41047 3.5965 1.5367 1 21819 7233 13696 13752 25465 25465 0.18445057067583548 PAAAGLPWAEW 11 Unmodified _PAAAGLPWAEW_ 0 0 0 nc|ENSG00000137309|P17096-3|HMGA1 nc|ENSG00000137309|P17096-3|HMGA1 nc|ENSG00000137309|P17096-3|HMGA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.7927856445312 2 584.792924 1167.57129 NaN NaN NaN NaN NaN NaN NaN 72.458 1 73.162 72.662 73.662 0.70386 0 0 0 0.99968 1 34882 34882 6.7232 0 1 21820 9659 13697 13753 25466 25466 -0.005788546654457605 PAAAGQKEKD 10 Unmodified _PAAAGQKEKD_ 0 0 0 ENSG00000157680|ENST00000614521|DGKI;nc|ENSG00000157680|O75912|DGKI ENSG00000157680|ENST00000614521|DGKI ENSG00000157680|ENST00000614521|DGKI MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.6712341308594 2 507.764363 1013.51417 NaN NaN NaN NaN NaN NaN NaN 73.352 1 73.611 73.111 74.111 0.25876 0 0 0 0.98473 1 33691 33691 7.9102 0 1 21821 3959 13698 13754 25467 25467 0.007956780581821477 PAAAGRRAR 9 Unmodified _PAAAGRRAR_ 0 0 0 ENST00000276282.6_1_8:8750374-8750710:-|nuORF ENST00000276282.6_1_8:8750374-8750710:-|nuORF ENST00000276282.6_1_8:8750374-8750710:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.2430114746094 2 463.275567 924.53658 NaN NaN NaN NaN NaN NaN NaN 74.154 1 74.413 73.913 74.913 0.25876 0 0 0 0.7971 1 34088 34088 9.3474 0 1 21822 6673 13699 13755 25468 25468 0.07129367037123302 PAAAGRRWRC 10 Unmodified _PAAAGRRWRC_ 0 0 0 ENST00000181839.8_1_7:39990221-39990641:+|nuORF ENST00000181839.8_1_7:39990221-39990641:+|nuORF ENST00000181839.8_1_7:39990221-39990641:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 572.3992309570312 2 572.301259 1142.58796 NaN NaN NaN NaN NaN NaN NaN 67.202 1 67.202 66.702 67.702 0 0 0 0 0.98473 1 32180 32180 7.9102 1.7044 1 21823 6386 13700 13756 25469 25469 0.022373677395307823 PAAAGSQNLWM 11 Unmodified _PAAAGSQNLWM_ 0 0 0 ENST00000298569.8_1_5:175786834-175788673:-|nuORF ENST00000298569.8_1_5:175786834-175788673:-|nuORF ENST00000298569.8_1_5:175786834-175788673:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 573.0501098632812 2 573.274041 1144.53353 NaN NaN NaN NaN NaN NaN NaN 75.709 1 76.373 75.873 76.873 0.66387 0 0 0 0.99968 1 34884 34884 6.7232 0 1 21824 6781 13701 13757 25470 25470 -0.03295688922571571 PAAAHPNDSC 10 Unmodified _PAAAHPNDSC_ 0 0 0 ZNF236|p.A950Hfs*33|1|0.2|ENSG00000130856|chr18:76912291-76912291|G/-|frameshift_variant;nc|ENSG00000130856|Q9UL36-2|ZNF236;nc|ENSG00000130856|Q9UL36|ZNF236;ENSG00000130856|ENST00000320610|ZNF236 ZNF236|p.A950Hfs*33|1|0.2|ENSG00000130856|chr18:76912291-76912291|G/-|frameshift_variant ZNF236|p.A950Hfs*33|1|0.2|ENSG00000130856|chr18:76912291-76912291|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.7566833496094 2 491.705991 981.397429 NaN NaN NaN NaN NaN NaN NaN 63.795 1 64.51 64.01 65.01 0.71521 0 0 0 0.98473 1 29929 29929 7.9102 2.6795 1 21825 2627 13702 13758 25471 25471 -0.09401383433225874 PAAAHRLRLQ 10 Unmodified _PAAAHRLRLQ_ 0 0 0 REV__ENST00000337318.7_2_10:126309523-126309826:-|nuORF REV__ENST00000337318.7_2_10:126309523-126309826:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.923583984375 2 566.838531 1131.66251 NaN NaN NaN NaN NaN NaN NaN 64.094 1 64.809 64.309 65.309 0.71521 0 0 0 0.99687 1 30147 30147 4.3292 0.38484 1 + 21826 15428 13703 13759 25472 25472 0.1019445382255526 PAAAHVRSP 9 Unmodified _PAAAHVRSP_ 0 0 0 ENST00000426077.2_1_2:120980139-120980361:-|nuORF ENST00000426077.2_1_2:120980139-120980361:-|nuORF ENST00000426077.2_1_2:120980139-120980361:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 453.1518249511719 2 453.251226 904.487899 NaN NaN NaN NaN NaN NaN NaN 62.836 1 63.558 63.058 64.058 0.72236 0 0 0 0.7971 1 29370 29370 9.3474 0 1 21827 7800 13704 13760 25473 25473 0.031834536773772015 PAAAILELFE 10 Unmodified _PAAAILELFE_ 0 0 0 ENSG00000124602|ENST00000244565|UNC5CL ENSG00000124602|ENST00000244565|UNC5CL ENSG00000124602|ENST00000244565|UNC5CL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.297607421875 2 537.297507 1072.58046 NaN NaN NaN NaN NaN NaN NaN 73.43 1 74.094 73.594 74.594 0.66398 0 0 0 0.96109 1 33745 33745 11.64 3.7301 1 21828 2370 13705 13761 25474 25474 0.04707493900218651 PAAAITCPNTV 11 Unmodified _PAAAITCPNTV_ 0 0 0 REV__ENSG00000196531|ENST00000454682|NACA REV__ENSG00000196531|ENST00000454682|NACA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.1209106445312 2 529.270967 1056.52738 NaN NaN NaN NaN NaN NaN NaN 74.518 1 75.182 74.682 75.682 0.6644 0 0 0 0.99968 1 34304 34304 6.7232 0 1 + 21829 14227 13706 13762 25475 25475 0.0013779284590782481 PAAALALSSD 10 Unmodified _PAAALALSSD_ 0 0 0 REV__ENST00000577698.1_1_17:66243842-66243974:-|nuORF REV__ENST00000577698.1_1_17:66243842-66243974:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 457.9724426269531 2 458.242732 914.470912 NaN NaN NaN NaN NaN NaN NaN 69.063 1 69.765 69.265 70.265 0.70218 0 0 0 0.95544 1 32996 32996 12.532 1.4171 1 + 21830 17483 13707 13763 25476 25476 0.010254882809135779 PAAALCRGHSA 11 Unmodified _PAAALCRGHSA_ 0 0 0 ENST00000547841.1_1_12:120528799-120530962:+|nuORF;nc|ENSG00000135127|Q6ZP65-2|BICDL1;ENST00000546420.5_1_12:120437705-120530962:+|nuORF;nc|ENSG00000135127|Q6ZP65|BICDL1;ENSG00000135127|ENST00000548673|BICDL1 ENST00000547841.1_1_12:120528799-120530962:+|nuORF ENST00000547841.1_1_12:120528799-120530962:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.2669067382812 2 527.26655 1052.51855 NaN NaN NaN NaN NaN NaN NaN 79.156 1 79.156 78.656 79.656 0 0 0 0 0.95662 1 39063 39063 10.824 2.2306 1 21831 2850 13708 13764 25477 25477 -0.005611359998738408 PAAALDLTP 9 Unmodified _PAAALDLTP_ 0 0 0 REV__ENST00000445551.1_1_1:47899535-47899697:-|nuORF REV__ENST00000445551.1_1_1:47899535-47899697:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.7423095703125 2 434.742368 867.470183 NaN NaN NaN NaN NaN NaN NaN 65.066 1 65.775 65.275 66.275 0.70891 0 0 0 0.7971 1 30712 30712 9.3474 0 1 + 21832 16379 13709 13765 25478 25478 0.031146936318464213 PAAALIVRDQT 11 Unmodified _PAAALIVRDQT_ 0 0 0 nc|ENSG00000184216|P51617-3|IRAK1 nc|ENSG00000184216|P51617-3|IRAK1 nc|ENSG00000184216|P51617-3|IRAK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 577.8251953125 2 577.830037 1153.64552 NaN NaN NaN NaN NaN NaN NaN 67.482 1 67.482 66.982 67.982 0 0 0 0 0.95662 1 32382 32382 10.824 4.1008 1 21833 9781 13710 13766 25479 25479 0.07484488426075586 PAAALLHIYLK 11 Unmodified _PAAALLHIYLK_ 0 0 0 nc|ENSG997|Q9N2J8|HERV-H-ENH3 nc|ENSG997|Q9N2J8|HERV-H-ENH3 nc|ENSG997|Q9N2J8|HERV-H-ENH3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 604.9988403320312 2 605.371341 1208.72813 NaN NaN NaN NaN NaN NaN NaN 74.615 1 74.873 74.373 75.373 0.25831 0 0 0 0.99968 1 34322 34322 6.7232 1.4263 1 21834 9889 13711 13767 25480 25480 0.13211430224873766 PAAALLWER 9 Unmodified _PAAALLWER_ 0 0 0 ENST00000564098.5_1_16:1794388-1794685:+|nuORF ENST00000564098.5_1_16:1794388-1794685:+|nuORF ENST00000564098.5_1_16:1794388-1794685:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.7542724609375 2 513.790184 1025.56581 NaN NaN NaN NaN NaN NaN NaN 69.588 1 69.588 69.088 70.088 0 0 0 0 0.7971 1 33620 33620 9.3474 1.4373 1 21835 9025 13712 13768 25481 25481 0.05405466542742943 PAAALPRWVRQ 11 Unmodified _PAAALPRWVRQ_ 0 0 0 REV__ENST00000319694.2_1_7:29603568-29603868:+|nuORF REV__ENST00000319694.2_1_7:29603568-29603868:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.2647705078125 2 632.867289 1263.72002 NaN NaN NaN NaN NaN NaN NaN 53.463 1 53.463 52.963 53.963 0 0 0 0 1.0057 1 24496 24496 3.2813 1.4371 1 + 21836 15310 13713 13769 25482 25482 0.098712960281091 PAAALRQQKRK 11 Unmodified _PAAALRQQKRK_ 0 0 0 ENST00000304623.12_2_5:11904029-11904119:-|nuORF ENST00000304623.12_2_5:11904029-11904119:-|nuORF ENST00000304623.12_2_5:11904029-11904119:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.7837524414062 2 633.891295 1265.76804 NaN NaN NaN NaN NaN NaN NaN 56.597 1 56.597 56.097 57.097 0 0 0 0 1.0057 1 26050 26050 3.2813 1.6287 1 21837 6828 13714 13770 25483 25483 0.1457836994813988 PAAALRQVR 9 Unmodified _PAAALRQVR_ 0 0 0 REV__ENSG00000188162|ENST00000399397|OTOG REV__ENSG00000188162|ENST00000399397|OTOG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.2700500488281 2 491.30125 980.587947 NaN NaN NaN NaN NaN NaN NaN 67.419 1 68.121 67.621 68.621 0.70218 0 0 0 0.7971 1 32055 32055 9.3474 0.75416 1 + 21838 14135 13715 13771 25484 25484 0.09687691011174593 PAAALVSVVTW 11 Unmodified _PAAALVSVVTW_ 0 0 0 REV__chr11:117822717-117824642|157|124.2|0.0|23.57|-|0|FXYD6-FXYD2,None|1 REV__chr11:117822717-117824642|157|124.2|0.0|23.57|-|0|FXYD6-FXYD2,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.318115234375 2 557.318774 1112.623 NaN NaN NaN NaN NaN NaN NaN 77.628 1 77.882 77.382 78.382 0.25335 0 0 0 0.95662 1 35751 35751 10.824 4.1008 1 + 21839 10018 13716 13772 25485 25485 0.07118889028470221 PAAAMDAYY 9 Unmodified _PAAAMDAYY_ 0 0 0 ENSG00000052850|ENST00000652299|ALX4 ENSG00000052850|ENST00000652299|ALX4 ENSG00000052850|ENST00000652299|ALX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.7108154296875 2 486.710211 971.405868 NaN NaN NaN NaN NaN NaN NaN 77.492 1 78.053 77.553 78.553 0.56091 0 0 0 0.7971 1 37589 37589 9.3474 1.4373 1 21840 596 13717 13773 25486 25486 -0.0809782951661191 PAAAMEEPPPP 11 Unmodified _PAAAMEEPPPP_ 0 0 0 nc|ENSG00000085511|Q9Y6R4-2|MAP3K4;ENSG00000085511|ENST00000392142|MAP3K4 nc|ENSG00000085511|Q9Y6R4-2|MAP3K4 nc|ENSG00000085511|Q9Y6R4-2|MAP3K4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.010498046875 2 553.762975 1105.5114 NaN NaN NaN NaN NaN NaN NaN 68.968 1 68.968 68.468 69.468 0 0 0 0 0.99968 1 33250 33250 6.7232 1.4925 1 21841 969 13718 13774 25487 25487 -0.03713913390970447 PAAAMEMPFQ 10 Unmodified _PAAAMEMPFQ_ 0 0 0 REV__ENSG00000084636|ENST00000373672|COL16A1 REV__ENSG00000084636|ENST00000373672|COL16A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.5144653320312 2 546.74627 1091.47799 NaN NaN NaN NaN NaN NaN NaN 68.561 1 69.263 68.763 69.763 0.70218 0 0 0 0.98473 1 32694 32694 7.9102 1.187 1 + 21842 10635 13719 13775 25488 25488 -0.06409238434525832 PAAAMEMPFQM 11 Unmodified _PAAAMEMPFQM_ 0 0 0 REV__ENSG00000084636|ENST00000373672|COL16A1 REV__ENSG00000084636|ENST00000373672|COL16A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 612.264404296875 2 612.266513 1222.51847 NaN NaN NaN NaN NaN NaN NaN 74.363 1 74.621 74.121 75.121 0.25831 0 0 0 0.99968 1 34198 34198 6.7232 1.4925 1 + 21843 10635 13720 13776 25489 25489 -0.08388640106431922 PAAAMQFMLLF 11 Unmodified _PAAAMQFMLLF_ 0 0 0 nc|ENSG00000182287|P56377-2|AP1S2 nc|ENSG00000182287|P56377-2|AP1S2 nc|ENSG00000182287|P56377-2|AP1S2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.3168334960938 2 620.316863 1238.61917 NaN NaN NaN NaN NaN NaN NaN 63.848 1 64.563 64.063 65.063 0.71521 0 0 0 0.99968 1 29963 29963 6.7232 1.4263 1 21844 9772 13721 13777 25490 25490 0.009407599387486698 PAAANEKATAP 11 Unmodified _PAAANEKATAP_ 0 0 0 REV__ENST00000592870.5_1_19:709146-734268:+|nuORF REV__ENST00000592870.5_1_19:709146-734268:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.883056640625 2 520.772188 1039.52982 NaN NaN NaN NaN NaN NaN NaN 66.19 1 66.19 65.69 66.69 0 0 0 0 0.95662 1 31610 31610 10.824 2.9138 1 + 21845 10789 13722 13778 25491 25491 0.011639645752211436 PAAANVWPGWV 11 Unmodified _PAAANVWPGWV_ 0 0 0 REV__ENST00000315970.11_1_12:58114834-58114900:+|nuORF REV__ENST00000315970.11_1_12:58114834-58114900:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.3010864257812 2 584.300916 1166.58728 NaN NaN NaN NaN NaN NaN NaN 73.769 1 74.434 73.934 74.934 0.6644 0 0 0 0.99968 1 33927 33927 6.7232 0 1 + 21846 15291 13723 13779 25492 25492 0.010648515714592577 PAAAPAAHQPA 11 Unmodified _PAAAPAAHQPA_ 0 0 0 REV__ENST00000609967.5_1_20:2674291-2732741:+|nuORF REV__ENST00000609967.5_1_20:2674291-2732741:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.4157409667969 2 501.261791 1000.50903 2.4961 0.0012512 -3.5532 -0.0017811 -1.0571 -0.00052988 501.76145814797354 66.139 0.042488 66.139 66.11 66.153 0 5 4 2 0 0 0 0.1319 1 31584 31584 15.847 3.3156 1 5597000 + 21847 17681 13724 13780 25493 25493 0.008794189862214807 PAAAPAHSPSP 11 Unmodified _PAAAPAHSPSP_ 0 0 0 nc|ENSG00000162849|Q2KJY2-2|KIF26B;ENSG00000162849|ENST00000407071|KIF26B nc|ENSG00000162849|Q2KJY2-2|KIF26B nc|ENSG00000162849|Q2KJY2-2|KIF26B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.5115661621094 2 501.753798 1001.49304 NaN NaN NaN NaN NaN NaN NaN 70.778 1 71.482 70.982 71.982 0.70386 0 0 0 0.95662 1 33945 33945 10.824 1.4765 1 21848 4171 13725 13781 25494 25494 -0.007642872506721687 PAAAPALSLSP 11 Unmodified _PAAAPALSLSP_ 0 0 0 REV__ENST00000489816.5_1_5:892252-892519:-|nuORF REV__ENST00000489816.5_1_5:892252-892519:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 497.71685791015625 2 497.782025 993.549496 NaN NaN NaN NaN NaN NaN NaN 64.756 1 65.471 64.971 65.971 0.71521 0 0 0 0.90387 1 30523 30523 15.847 3.3156 1 + 21849 16797 13726 13782 25495 25495 0.052463405860066814 PAAAPARSGR 10 Unmodified _PAAAPARSGR_ 0 0 0 ENST00000393726.7_1_4:169753229-169812093:+|nuORF ENST00000393726.7_1_4:169753229-169812093:+|nuORF ENST00000393726.7_1_4:169753229-169812093:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.2482604980469 2 477.267407 952.520262 NaN NaN NaN NaN NaN NaN NaN 65.957 1 66.666 66.166 67.166 0.70891 0 0 0 0.95544 1 31233 31233 12.532 0.89125 1 21850 7535 13727 13783 25496 25496 0.04210241080374999 PAAAPARSGR 10 Unmodified _PAAAPARSGR_ 0 0 0 ENST00000393726.7_1_4:169753229-169812093:+|nuORF ENST00000393726.7_1_4:169753229-169812093:+|nuORF ENST00000393726.7_1_4:169753229-169812093:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.2670593261719 2 477.267407 952.520262 NaN NaN NaN NaN NaN NaN NaN 69.172 1 69.874 69.374 70.374 0.70218 0 0 0 0.95544 1 33080 33080 12.532 0 1 21851 7535 13727 13783 25497 25497 0.04210241080374999 PAAAPDRGVY 10 Unmodified _PAAAPDRGVY_ 0 0 0 REV__nc|ENSG00000197444|Q9ULD0-3|OGDHL REV__nc|ENSG00000197444|Q9ULD0-3|OGDHL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.88128662109375 2 508.761623 1015.50869 NaN NaN NaN NaN NaN NaN NaN 72.465 1 72.465 71.965 72.965 0 0 0 0 0.95544 1 35251 35251 12.532 3.9383 1 + 21852 14278 13728 13784 25498 25498 0.0015599926638287798 PAAAPDRSY 9 Unmodified _PAAAPDRSY_ 0 0 0 REV__ENST00000461495.5_1_1:45798098-45799135:-|nuORF REV__ENST00000461495.5_1_1:45798098-45799135:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.2334289550781 2 474.232699 946.450845 NaN NaN NaN NaN NaN NaN NaN 70.199 1 70.199 69.699 70.699 0 0 0 0 0.63602 1 34027 34027 14.582 2.0501 1 + 21853 16495 13729 13785 25499 25499 -0.0245226265905103 PAAAPDRSY 9 Unmodified _PAAAPDRSY_ 0 0 0 REV__ENST00000461495.5_1_1:45798098-45799135:-|nuORF REV__ENST00000461495.5_1_1:45798098-45799135:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.7343444824219 2 474.232699 946.450845 2.2656 0.0010744 -0.022258 -1.0555E-05 2.2433 0.0010639 474.23231211494027 69.961 0.16695 69.961 69.851 70.018 0 20 17 2 0 0 0 0.10319 1 33826 33826 9.3474 0 1 1607300 + 21854 16495 13729 13785 25500 25500 -0.0245226265905103 PAAAPEDGPQ 10 Unmodified _PAAAPEDGPQ_ 0 0 0 TACC2|p.Q783Pfs*45|1|0.34|ENSG00000138162|chr10:122084840-122084841|-/C|frameshift_variant;TACC2|p.L823Yfs*105|1|0.29|ENSG00000138162|chr10:122084964-122084964|C/-|frameshift_variant;nc|ENSG00000138162|O95359-3|TACC2;ENSG00000138162|ENST00000369005|TACC2 TACC2|p.Q783Pfs*45|1|0.34|ENSG00000138162|chr10:122084840-122084841|-/C|frameshift_variant TACC2|p.Q783Pfs*45|1|0.34|ENSG00000138162|chr10:122084840-122084841|-/C|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 476.7505798339844 2 476.722164 951.429775 NaN NaN NaN NaN NaN NaN NaN 60.818 1 61.558 61.058 62.058 0.7396 0 0 0 0.95544 1 28126 28126 12.532 0 1 21855 3079 13730 13786 25501 25501 -0.047882727585715656 PAAAPFNNRG 10 Unmodified _PAAAPFNNRG_ 0 0 0 REV__ENST00000557107.1_1_14:37135665-37140295:+|nuORF REV__ENST00000557107.1_1_14:37135665-37140295:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.2797546386719 2 507.759415 1013.50428 NaN NaN NaN NaN NaN NaN NaN 86.896 1 86.896 86.396 87.396 0 0 0 0 0.98473 1 44660 44660 7.9102 0 1 + 21856 14361 13731 13787 25502 25502 -0.0019346515653069218 PAAAPFTKQGR 11 Unmodified _PAAAPFTKQGR_ 0 0 0 ENSG00000049323|ENST00000404816|LTBP1;nc|ENSG00000049323|Q14766-4|LTBP1 ENSG00000049323|ENST00000404816|LTBP1 ENSG00000049323|ENST00000404816|LTBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 572.3004150390625 2 572.317097 1142.61964 NaN NaN NaN NaN NaN NaN NaN 63.911 1 64.626 64.126 65.126 0.71521 0 0 0 0.95662 1 30009 30009 10.824 0 1 21857 576 13732 13788 25503 25503 0.0540363897446241 PAAAPGACDAS 11 Unmodified _PAAAPGACDAS_ 0 0 0 ENST00000486444.1_1_3:101568430-101571632:+|nuORF;nc|ENSG00000144802|Q9BYH8-3|NFKBIZ;ENSG00000144802|ENST00000326172|NFKBIZ ENST00000486444.1_1_3:101568430-101571632:+|nuORF ENST00000486444.1_1_3:101568430-101571632:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.1080322265625 2 465.702917 929.391281 NaN NaN NaN NaN NaN NaN NaN 77.923 1 78.484 77.984 78.984 0.56091 0 0 0 0.95662 1 37838 37838 10.824 1.4765 1 21858 3446 13733 13789 25504 25504 -0.07623901664749155 PAAAPGNEAQP 11 Unmodified _PAAAPGNEAQP_ 0 0 0 REV__nc|ENSG00000075856|Q15020-4|SART3 REV__nc|ENSG00000075856|Q15020-4|SART3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.8446044921875 2 511.748713 1021.48287 NaN NaN NaN NaN NaN NaN NaN 64.554 1 64.554 64.054 65.054 0 0 0 0 0.95662 1 30608 30608 10.824 0.64053 1 + 21859 10536 13734 13790 25505 25505 -0.02700894975907886 PAAAPGRRQT 10 Unmodified _PAAAPGRRQT_ 0 0 0 ENST00000313835.13_1_1:145827007-145827070:-|nuORF ENST00000313835.13_1_1:145827007-145827070:-|nuORF ENST00000313835.13_1_1:145827007-145827070:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.7529296875 2 512.785964 1023.55738 NaN NaN NaN NaN NaN NaN NaN 63.069 1 63.792 63.292 64.292 0.72236 0 0 0 0.95544 1 29509 29509 12.532 1.7076 1 21860 6889 13735 13791 25506 25506 0.046539126261336605 PAAAPGWSRQ 10 Unmodified _PAAAPGWSRQ_ 0 0 0 REV__ENST00000298532.2_1_9:139282988-139286542:-|nuORF REV__ENST00000298532.2_1_9:139282988-139286542:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.6777954101562 2 520.76724 1039.51993 NaN NaN NaN NaN NaN NaN NaN 69.707 1 69.707 69.207 70.207 0 0 0 0 0.95544 1 33706 33706 12.532 1.7076 1 + 21861 15171 13736 13792 25507 25507 0.0017482136051967245 PAAAPHHQLQ 10 Unmodified _PAAAPHHQLQ_ 0 0 0 REV__ENSG00000142178|ENST00000270162|SIK1 REV__ENSG00000142178|ENST00000270162|SIK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.1075439453125 2 535.280515 1068.54648 NaN NaN NaN NaN NaN NaN NaN 74.868 1 74.868 74.368 75.368 0 0 0 0 0.95544 1 36653 36653 12.532 4.6214 1 + 21862 12315 13737 13793 25508 25508 0.014945102518368003 PAAAPHPHAH 10 Unmodified _PAAAPHPHAH_ 0 0 0 REV__ENSG00000205922|ENST00000382349|ONECUT3 REV__ENSG00000205922|ENST00000382349|ONECUT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.3028564453125 2 503.2543 1004.49405 NaN NaN NaN NaN NaN NaN NaN 75.497 1 76.161 75.661 76.661 0.6644 0 0 0 0.95544 1 34784 34784 12.532 1.7076 1 + 21863 14472 13738 13794 25509 25509 -0.008020280911068767 PAAAPIKTRTR 11 Unmodified _PAAAPIKTRTR_ 0 0 0 nc|ENSG00000179168|Q86UU5-2|GGN;ENSG00000179168|ENST00000334928|GGN nc|ENSG00000179168|Q86UU5-2|GGN nc|ENSG00000179168|Q86UU5-2|GGN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.361572265625 2 591.359296 1180.70404 NaN NaN NaN NaN NaN NaN NaN 69.465 1 70.168 69.668 70.668 0.70302 0 0 0 0.99968 1 33244 33244 6.7232 0 1 21864 5203 13739 13795 25510 25510 0.12091589791225488 PAAAPIKTRTR 11 Unmodified _PAAAPIKTRTR_ 0 0 0 nc|ENSG00000179168|Q86UU5-2|GGN;ENSG00000179168|ENST00000334928|GGN nc|ENSG00000179168|Q86UU5-2|GGN nc|ENSG00000179168|Q86UU5-2|GGN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.3592529296875 2 591.359296 1180.70404 NaN NaN NaN NaN NaN NaN NaN 72.609 1 73.312 72.812 73.812 0.70386 0 0 0 0.95662 1 34971 34971 10.824 0.75 1 21865 5203 13739 13795 25511 25511 0.12091589791225488 PAAAPLGFRT 10 Unmodified _PAAAPLGFRT_ 0 0 0 REV__ENSG00000143126|ENST00000271332|CELSR2 REV__ENSG00000143126|ENST00000271332|CELSR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.85443115234375 2 500.782359 999.550165 NaN NaN NaN NaN NaN NaN NaN 66.595 1 66.595 66.095 67.095 0 0 0 0 0.95544 1 31847 31847 12.532 4.6214 1 + 21866 12355 13740 13796 25512 25512 0.050371800257153154 PAAAPLLER 9 Unmodified _PAAAPLLER_ 0 0 0 REV__nc|ENSG00000158813|Q92838-2|EDA REV__nc|ENSG00000158813|Q92838-2|EDA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.2192077636719 2 469.276909 936.539266 NaN NaN NaN NaN NaN NaN NaN 71.176 1 71.88 71.38 72.38 0.70386 0 0 0 0.69911 1 34170 34170 12.532 3.9383 1 + 21867 12831 13741 13797 25513 25513 0.06845777651415119 PAAAPLLLHW 10 Unmodified _PAAAPLLLHW_ 0 0 0 REV__nc|ENSG00000187288|Q96AQ7-3|CIDEC REV__nc|ENSG00000187288|Q96AQ7-3|CIDEC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.815673828125 2 544.816202 1087.61785 NaN NaN NaN NaN NaN NaN NaN 74.424 1 75.111 74.611 75.611 0.68662 0 0 0 0.95544 1 35972 35972 12.532 4.6214 1 + 21868 18083 13742 13798 25514 25514 0.07754629956502868 PAAAPLQSERG 11 Unmodified _PAAAPLQSERG_ 0 0 0 REV__ENST00000360561.7_1_10:123923067-123923412:+|nuORF REV__ENST00000360561.7_1_10:123923067-123923412:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.7778930664062 2 548.790912 1095.56727 NaN NaN NaN NaN NaN NaN NaN 73.703 1 74.402 73.902 74.902 0.69881 0 0 0 0.95662 1 35561 35561 10.824 0 1 + 21869 15611 13743 13799 25515 25515 0.023310558408411453 PAAAPMRPPP 10 Unmodified _PAAAPMRPPP_ 0 0 0 REV__ENST00000360561.7_1_10:123923281-123923482:+|nuORF REV__ENST00000360561.7_1_10:123923281-123923482:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.7738037109375 2 502.770937 1003.52732 NaN NaN NaN NaN NaN NaN NaN 65.035 1 65.035 64.535 65.535 0 0 0 0 0.95544 1 30913 30913 12.532 3.9383 1 + 21870 15612 13744 13800 25516 25516 0.025698376365880904 PAAAPPPEGR 10 Unmodified _PAAAPPPEGR_ 0 0 0 REV__ENST00000407595.2_1_2:56411641-56419673:+|nuORF REV__ENST00000407595.2_1_2:56411641-56419673:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 481.75726318359375 2 481.756341 961.498129 NaN NaN NaN NaN NaN NaN NaN 75.539 1 75.539 75.039 76.039 0 0 0 0 0.98473 1 37014 37014 7.9102 0 1 + 21871 16079 13745 13801 25517 25517 0.015840166119460264 PAAAPPQPHLD 11 Unmodified _PAAAPPQPHLD_ 0 0 0 REV__ENST00000608290.1_1_22:46410754-46410880:+|nuORF REV__ENST00000608290.1_1_22:46410754-46410880:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.3341674804688 2 557.288005 1112.56146 NaN NaN NaN NaN NaN NaN NaN 61.281 1 62.021 61.521 62.521 0.7396 0 0 0 0.99968 1 28393 28393 6.7232 1.9672 1 + 21872 17676 13746 13802 25518 25518 0.009679573291805355 PAAAPPWTR 9 Unmodified _PAAAPPWTR_ 0 0 0 ENST00000332499.3_1_17:43226005-43226326:+|nuORF ENST00000332499.3_1_17:43226005-43226326:+|nuORF ENST00000332499.3_1_17:43226005-43226326:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.7614440917969 2 483.761426 965.5083 NaN NaN NaN NaN NaN NaN NaN 78.527 1 78.527 78.027 79.027 0 0 0 0 0.7971 1 38617 38617 9.3474 0.75416 1 21873 7002 13747 13803 25519 25519 0.02416624337183748 PAAAPQPTCF 10 Unmodified _PAAAPQPTCF_ 0 0 0 ENST00000584871.5_1_17:80015993-80017016:-|nuORF ENST00000584871.5_1_17:80015993-80017016:-|nuORF ENST00000584871.5_1_17:80015993-80017016:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.7672424316406 2 501.739302 1001.46405 NaN NaN NaN NaN NaN NaN NaN 62.828 1 62.828 62.328 63.328 0 0 0 0 0.95544 1 29476 29476 12.532 1.7076 1 21874 9171 13748 13804 25520 25520 -0.036621478713072975 PAAAPRAEPD 10 Unmodified _PAAAPRAEPD_ 0 0 0 ENST00000358461.6_1_4:7873788-7941597:-|nuORF ENST00000358461.6_1_4:7873788-7941597:-|nuORF ENST00000358461.6_1_4:7873788-7941597:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 497.7808837890625 2 497.751256 993.487959 NaN NaN NaN NaN NaN NaN NaN 64.139 1 64.139 63.639 64.639 0 0 0 0 0.95544 1 30319 30319 12.532 0 1 21875 7192 13749 13805 25521 25521 -0.00904591113294373 PAAAPRGGGRP 11 Unmodified _PAAAPRGGGRP_ 0 0 0 REV__ENST00000368366.5_1_1:155217575-155221373:-|nuORF REV__ENST00000368366.5_1_1:155217575-155221373:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.73486328125 2 503.780682 1005.54681 NaN NaN NaN NaN NaN NaN NaN 63.826 1 64.541 64.041 65.041 0.71521 0 0 0 0.95662 1 29948 29948 10.824 2.2306 1 + 21876 12892 13750 13806 25522 25522 0.04425929971716869 PAAAPRLPEE 10 Unmodified _PAAAPRLPEE_ 0 0 0 REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|29|3|sense REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|29|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 525.3203125 2 525.782556 1049.55056 NaN NaN NaN NaN NaN NaN NaN 66.47 1 66.47 65.97 66.97 0 0 0 0 0.95544 1 31774 31774 12.532 0 1 + 21877 18225 13751 13807 25523 25523 0.027765549549030766 PAAAPRLPEE 10 Unmodified _PAAAPRLPEE_ 0 0 0 REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|29|3|sense REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|29|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 525.453857421875 2 525.782556 1049.55056 NaN NaN NaN NaN NaN NaN NaN 67.704 1 67.704 67.204 68.204 0 0 0 0 0.98473 1 32523 32523 7.9102 0 1 + 21878 18225 13751 13807 25524 25524 0.027765549549030766 PAAAPRLRAPV 11 Unmodified _PAAAPRLRAPV_ 0 0 0 REV__nc|ENSG00000077235|Q12789-3|GTF3C1 REV__nc|ENSG00000077235|Q12789-3|GTF3C1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.673828125 2 559.843282 1117.67201 NaN NaN NaN NaN NaN NaN NaN 75.413 1 76.076 75.576 76.576 0.6635 0 0 0 0.91446 1 36514 36514 14.838 0 1 + 21879 10554 13752 13808 25525 25525 0.11788222108066293 PAAAPRLRGTR 11 Unmodified _PAAAPRLRGTR_ 0 0 0 REV__nc|ENSG00000249992|Q8WZ71-2|TMEM158 REV__nc|ENSG00000249992|Q8WZ71-2|TMEM158 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.1566772460938 2 583.349263 1164.68397 NaN NaN NaN NaN NaN NaN NaN 67.39 1 67.39 66.89 67.89 0 0 0 0 0.99968 1 32315 32315 6.7232 0.99131 1 + 21880 14651 13753 13809 25526 25526 0.10821838851256871 PAAAPRPRGG 10 Unmodified _PAAAPRPRGG_ 0 0 0 REV__chr7:128456023-128463180|344|11.16|0.51|4.46|+|1|TE_info:SVA_B,SVA_B_dup342,SVA,Retroposon,acceptor,+,128463180,128464284|HILPDA,None|6 REV__chr7:128456023-128463180|344|11.16|0.51|4.46|+|1|TE_info:SVA_B,SVA_B_dup342,SVA,Retroposon,acceptor,+,128463180,128464284|HILPDA,None|6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 475.62396240234375 2 475.26995 948.525347 NaN NaN NaN NaN NaN NaN NaN 75.286 1 75.949 75.449 76.449 0.6635 0 0 0 0.95544 1 36449 36449 12.532 3.9383 1 + 21881 10056 13754 13810 25527 25527 0.04902544943001885 PAAAPRRNQE 10 Unmodified _PAAAPRRNQE_ 0 0 0 ENST00000519363.1_1_8:101733959-101734296:-|nuORF ENST00000519363.1_1_8:101733959-101734296:-|nuORF ENST00000519363.1_1_8:101733959-101734296:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.3189086914062 2 555.294153 1108.57375 NaN NaN NaN NaN NaN NaN NaN 63.625 1 63.625 63.125 64.125 0 0 0 0 0.98473 1 29960 29960 7.9102 0 1 21882 8623 13755 13811 25528 25528 0.023809937922123936 PAAAPRRNQET 11 Unmodified _PAAAPRRNQET_ 0 0 0 ENST00000519363.1_1_8:101733959-101734296:-|nuORF ENST00000519363.1_1_8:101733959-101734296:-|nuORF ENST00000519363.1_1_8:101733959-101734296:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 605.81640625 2 605.817993 1209.62143 NaN NaN NaN NaN NaN NaN NaN 70.016 1 70.719 70.219 71.219 0.70302 0 0 0 0.95662 1 33531 33531 10.824 4.1008 1 21883 8623 13756 13812 25529 25529 0.025006479924059022 PAAAPRRPF 9 Unmodified _PAAAPRRPF_ 0 0 0 nc|ENSG00000100425|O95696|BRD1;ENSG00000100425|ENST00000404760|BRD1 nc|ENSG00000100425|O95696|BRD1 nc|ENSG00000100425|O95696|BRD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.3600769042969 2 491.782693 981.550834 NaN NaN NaN NaN NaN NaN NaN 75.906 1 76.569 76.069 77.069 0.6635 0 0 0 0.7971 1 36771 36771 9.3474 1.4373 1 21884 1216 13757 13813 25530 25530 0.05932019465421945 PAAAPSLVLTR 11 Unmodified _PAAAPSLVLTR_ 0 0 0 REV__ENST00000531733.1_1_8:11666026-11667401:+|nuORF REV__ENST00000531733.1_1_8:11666026-11667401:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.3295288085938 2 548.329673 1094.64479 NaN NaN NaN NaN NaN NaN NaN 77.268 1 77.268 76.768 77.768 0 0 0 0 0.99968 1 37888 37888 6.7232 0 1 + 21885 17143 13758 13814 25531 25531 0.10125693777013112 PAAAPSLVLTR 11 Unmodified _PAAAPSLVLTR_ 0 0 0 REV__ENST00000531733.1_1_8:11666026-11667401:+|nuORF REV__ENST00000531733.1_1_8:11666026-11667401:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.33154296875 2 548.329673 1094.64479 NaN NaN NaN NaN NaN NaN NaN 77.577 1 78.138 77.638 78.638 0.56091 0 0 0 0.95662 1 37622 37622 10.824 2.9138 1 + 21886 17143 13758 13814 25532 25532 0.10125693777013112 PAAAPSTGSSA 11 Unmodified _PAAAPSTGSSA_ 0 0 0 nc|ENSG00000008083|Q92833-2|JARID2;nc|ENSG00000008083|Q92833-3|JARID2;ENSG00000008083|ENST00000341776|JARID2 nc|ENSG00000008083|Q92833-2|JARID2 nc|ENSG00000008083|Q92833-2|JARID2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 458.7210388183594 2 458.722164 915.429775 NaN NaN NaN NaN NaN NaN NaN 65.296 1 65.296 64.796 65.796 0 0 0 0 0.95662 1 31087 31087 10.824 1.4765 1 21887 371 13759 13815 25533 25533 -0.031322727585575194 PAAAPSYAEF 10 Unmodified _PAAAPSYAEF_ 0 0 0 REV__CMYA5|p.L2576Sfs*7|1|0.05|ENSG00000164309|chr5:79736491-79736492|-/C|frameshift_variant REV__CMYA5|p.L2576Sfs*7|1|0.05|ENSG00000164309|chr5:79736491-79736492|-/C|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.2447509765625 2 512.242732 1022.47091 NaN NaN NaN NaN NaN NaN NaN 73.365 1 74.064 73.564 74.564 0.69881 0 0 0 0.98473 1 35368 35368 7.9102 1.187 1 + 21888 10065 13760 13816 25534 25534 -0.03942511719094455 PAAAPTPWET 10 Unmodified _PAAAPTPWET_ 0 0 0 ENSG00000183751|ENST00000568546|TBL3 ENSG00000183751|ENST00000568546|TBL3 ENSG00000183751|ENST00000568546|TBL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.5645751953125 2 520.756007 1039.49746 NaN NaN NaN NaN NaN NaN NaN 70.749 1 70.749 70.249 71.249 0 0 0 0 0.95544 1 34364 34364 12.532 1.7076 1 21889 5403 13761 13817 25535 25535 -0.020708228277499074 PAAAPVPWH 9 Unmodified _PAAAPVPWH_ 0 0 0 REV__ENST00000465878.6_2_16:57792547-57792799:-|nuORF REV__ENST00000465878.6_2_16:57792547-57792799:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.005615234375 2 473.250695 944.486836 NaN NaN NaN NaN NaN NaN NaN 66.097 1 66.802 66.302 67.302 0.7047 0 0 0 0.63602 1 31308 31308 14.582 2.0501 1 + 21890 16542 13762 13818 25536 25536 0.012372393084660871 PAAAPVPWHP 10 Unmodified _PAAAPVPWHP_ 0 0 0 REV__ENST00000465878.6_2_16:57792547-57792799:-|nuORF REV__ENST00000465878.6_2_16:57792547-57792799:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.778564453125 2 521.777077 1041.5396 NaN NaN NaN NaN NaN NaN NaN 68.196 1 68.196 67.696 68.696 0 0 0 0 0.95544 1 32814 32814 12.532 3.1841 1 + 21891 16542 13763 13819 25537 25537 0.020491973712751133 PAAAPVSTSEL 11 Unmodified _PAAAPVSTSEL_ 0 0 0 nc|ENSG00000010671|Q06187-2|BTK;ENSG00000010671|ENST00000308731|BTK nc|ENSG00000010671|Q06187-2|BTK nc|ENSG00000010671|Q06187-2|BTK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.7763671875 2 521.774396 1041.53424 3.2416 0.0016914 0.85018 0.0004436 4.0918 0.002135 521.7744910267432 48.754 0.39285 48.754 48.504 48.896 0 37 23 2 0 0 0 0.6195 1 22296 22296 14.838 0.93222 1 499330 21892 403 13764 13820 25538 25538 0.015134289981460824 PAAAPYATPY 10 Unmodified _PAAAPYATPY_ 0 0 0 REV__ENST00000432223.2_1_11:73141522-73179519:-|nuORF REV__ENST00000432223.2_1_11:73141522-73179519:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.19482421875 2 511.2531 1020.49165 NaN NaN NaN NaN NaN NaN NaN 63.156 1 63.156 62.656 63.656 0 0 0 0 0.95544 1 29678 29678 12.532 0 1 + 21893 10367 13765 13821 25539 25539 -0.017779213394419457 PAAAQLLWTQ 10 Unmodified _PAAAQLLWTQ_ 0 0 0 ENST00000451963.1_2_7:99818046-99818860:+|nuORF ENST00000451963.1_2_7:99818046-99818860:+|nuORF ENST00000451963.1_2_7:99818046-99818860:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.088134765625 2 549.800749 1097.58694 NaN NaN NaN NaN NaN NaN NaN 63.749 1 63.749 63.249 64.249 0 0 0 0 0.98473 1 30045 30045 7.9102 1.187 1 21894 8023 13766 13822 25540 25540 0.04205431851596586 PAAAQNLVLIP 11 Unmodified _PAAAQNLVLIP_ 0 0 0 ENSG00000167968|ENST00000320700|DNASE1L2 ENSG00000167968|ENST00000320700|DNASE1L2 ENSG00000167968|ENST00000320700|DNASE1L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.21484375 2 553.832049 1105.64954 NaN NaN NaN NaN NaN NaN NaN 73.791 1 74.455 73.955 74.955 0.6644 0 0 0 0.91446 1 33941 33941 14.838 5.4551 1 21895 4588 13767 13823 25541 25541 0.10094577919812764 PAAAQSRGGP 10 Unmodified _PAAAQSRGGP_ 0 0 0 REV__ENST00000255078.7_1_11:68696717-68700811:+|nuORF REV__ENST00000255078.7_1_11:68696717-68700811:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.4891662597656 2 456.238316 910.462078 NaN NaN NaN NaN NaN NaN NaN 70.275 1 70.275 69.775 70.775 0 0 0 0 0.98473 1 34073 34073 7.9102 1.187 1 + 21896 14928 13768 13824 25542 25542 0.0032655943510917496 PAAAQVRKQ 9 Unmodified _PAAAQVRKQ_ 0 0 0 ENST00000537170.1_1_11:63803568-63870737:+|nuORF ENST00000537170.1_1_11:63803568-63870737:+|nuORF ENST00000537170.1_1_11:63803568-63870737:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.70458984375 2 484.785433 967.556313 NaN NaN NaN NaN NaN NaN NaN 74.184 1 74.871 74.371 75.371 0.68662 0 0 0 0.7971 1 35848 35848 9.3474 1.4373 1 21897 8774 13769 13825 25543 25543 0.07123698257237265 PAAARARDP 9 Unmodified _PAAARARDP_ 0 0 0 PDE6B|p.E631Pfs*50|1|0.1|ENSG00000133256|chr4:663156-663169|TGGAGTTTGGGAAG/-|frameshift_variant PDE6B|p.E631Pfs*50|1|0.1|ENSG00000133256|chr4:663156-663169|TGGAGTTTGGGAAG/-|frameshift_variant PDE6B|p.E631Pfs*50|1|0.1|ENSG00000133256|chr4:663156-663169|TGGAGTTTGGGAAG/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 462.9779968261719 2 462.754133 923.493713 NaN NaN NaN NaN NaN NaN NaN 67.58 1 68.283 67.783 68.783 0.70218 0 0 0 0.7971 1 32155 32155 9.3474 0 1 21898 9906 13770 13826 25544 25544 0.028905521890351338 PAAARCWDGQS 11 Unmodified _PAAARCWDGQS_ 0 0 0 REV__ENST00000220597.4_1_8:81905502-82024007:-|nuORF REV__ENST00000220597.4_1_8:81905502-82024007:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.1760864257812 2 581.258922 1160.50329 NaN NaN NaN NaN NaN NaN NaN 79.247 1 79.247 78.747 79.747 0 0 0 0 0.9645 1 39131 39131 10.074 2.7847 1 + 21899 14820 13771 13827 25545 25545 -0.07054047587735113 PAAARERSEG 10 Unmodified _PAAARERSEG_ 0 0 0 REV__ENST00000261534.8_1_14:77743417-77743654:-|nuORF REV__ENST00000261534.8_1_14:77743417-77743654:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.2642211914062 2 522.265062 1042.51557 NaN NaN NaN NaN NaN NaN NaN 74.249 1 74.508 74.008 75.008 0.25831 0 0 0 0.98473 1 34138 34138 7.9102 0 1 + 21900 14966 13772 13828 25546 25546 -0.003986878530440663 PAAARHRARAH 11 Unmodified _PAAARHRARAH_ 0 0 0 ENST00000590083.5_1_19:1229180-1230152:-|nuORF;ENSG00000099625|ENST00000650044|CBARP ENST00000590083.5_1_19:1229180-1230152:-|nuORF ENST00000590083.5_1_19:1229180-1230152:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 607.6735229492188 2 607.342304 1212.67005 NaN NaN NaN NaN NaN NaN NaN 68.228 1 68.93 68.43 69.43 0.70218 0 0 0 0.99968 1 32519 32519 6.7232 0 1 21901 1146 13773 13829 25547 25547 0.0722260614284096 PAAARLAED 9 Unmodified _PAAARLAED_ 0 0 0 nc|ENSG00000176842|P78411-3|IRX5;ENST00000558597.1_2_16:54966274-54967782:+|nuORF;nc|ENSG00000176842|P78411-2|IRX5;ENSG00000176842|ENST00000394636|IRX5 nc|ENSG00000176842|P78411-3|IRX5 nc|ENSG00000176842|P78411-3|IRX5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 457.2386474609375 2 457.240524 912.466495 NaN NaN NaN NaN NaN NaN NaN 66.088 1 66.088 65.588 66.588 0 0 0 0 0.7971 1 31544 31544 9.3474 0 1 21902 5090 13774 13830 25548 25548 0.0067602385800000775 PAAARPRRAP 10 Unmodified _PAAARPRRAP_ 0 0 0 REV__ENSG00000149635|ENST00000279028|OCSTAMP REV__ENSG00000149635|ENST00000279028|OCSTAMP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.7825317382812 2 531.817599 1061.62064 NaN NaN NaN NaN NaN NaN NaN 72.631 1 72.631 72.131 73.131 0 0 0 0 0.98473 1 35337 35337 7.9102 0.62092 1 + 21903 12577 13775 13831 25549 25549 0.09229898134026371 PAAARRIQLSG 11 Unmodified _PAAARRIQLSG_ 0 0 0 ENST00000309575.4_1_3:142838295-142838649:+|nuORF ENST00000309575.4_1_3:142838295-142838649:+|nuORF ENST00000309575.4_1_3:142838295-142838649:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.4541625976562 2 570.335821 1138.65709 NaN NaN NaN NaN NaN NaN NaN 69.241 1 69.241 68.741 69.741 0 0 0 0 0.99968 1 33411 33411 6.7232 0 1 21904 6860 13776 13832 25550 25550 0.09330730240071716 PAAARRKE 8 Unmodified _PAAARRKE_ 0 0 0 ENST00000528027.1_1_8:11563525-11565398:+|nuORF ENST00000528027.1_1_8:11563525-11565398:+|nuORF ENST00000528027.1_1_8:11563525-11565398:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 449.6129150390625 2 449.764501 897.514448 NaN NaN NaN NaN NaN NaN NaN 62.982 1 63.705 63.205 64.205 0.72236 0 0 0 0.91812 1 29456 29456 11.114 0.93107 1 21905 8687 13777 13833 25551 25551 0.061591425687083756 PAAARSSEV 9 Unmodified _PAAARSSEV_ 0 0 0 ENST00000591501.1_1_19:10763903-10764383:-|nuORF ENST00000591501.1_1_19:10763903-10764383:-|nuORF ENST00000591501.1_1_19:10763903-10764383:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 444.2315979003906 2 444.232699 886.450845 NaN NaN NaN NaN NaN NaN NaN 68.645 1 69.347 68.847 69.847 0.70218 0 0 0 0.7971 1 32750 32750 9.3474 0 1 21906 9238 13778 13834 25552 25552 0.003077373409610118 PAAARSSPIQ 10 Unmodified _PAAARSSPIQ_ 0 0 0 REV__WIPF2|p.R124G|1|0.15|ENSG00000171475|chr17:40264546-40264546|A/G|missense_variant REV__WIPF2|p.R124G|1|0.15|ENSG00000171475|chr17:40264546-40264546|A/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.2761535644531 2 499.274898 996.535243 NaN NaN NaN NaN NaN NaN NaN 50.497 1 51.319 50.819 51.819 0.82167 0 0 0 0.53959 1 23001 23001 29.082 6.3453 1 + 21907 13496 13779 13835 25553 25553 0.03683688157718734 PAAARTPAPLR 11 Unmodified _PAAARTPAPLR_ 0 0 0 ENST00000317025.12_1_8:38239359-38239452:-|nuORF ENST00000317025.12_1_8:38239359-38239452:-|nuORF ENST00000317025.12_1_8:38239359-38239452:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.8340454101562 2 560.832914 1119.65128 NaN NaN NaN NaN NaN NaN NaN 97.64 1 97.929 97.429 98.429 0.28923 0 0 0 0.99968 1 44869 44869 6.7232 2.7788 1 21908 6910 13780 13836 25554 25554 0.09623631728391047 PAAARTQTR 9 Unmodified _PAAARTQTR_ 0 0 0 ENST00000298630.7_1_10:134121333-134121378:-|nuORF ENST00000298630.7_1_10:134121333-134121378:-|nuORF ENST00000298630.7_1_10:134121333-134121378:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.1821594238281 2 486.27269 970.530826 NaN NaN NaN NaN NaN NaN NaN 65.678 1 66.387 65.887 66.887 0.70891 0 0 0 0.7971 1 31082 31082 9.3474 1.4373 1 21909 6784 13781 13837 25555 25555 0.04438223734791791 PAAARWVSPM 10 Unmodified _PAAARWVSPM_ 0 0 0 REV__ENST00000374580.8_1_2:203241932-203242004:+|nuORF REV__ENST00000374580.8_1_2:203241932-203242004:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.3338012695312 2 543.281669 1084.54878 NaN NaN NaN NaN NaN NaN NaN 71.568 1 71.568 71.068 72.068 0 0 0 0 0.98473 1 34791 34791 7.9102 0.62092 1 + 21910 15789 13782 13838 25556 25556 0.009892226652937097 PAAASACFVH 10 Unmodified _PAAASACFVH_ 0 0 0 REV__ENSG00000213995|ENST00000680254|NAXD REV__ENSG00000213995|ENST00000680254|NAXD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.16168212890625 2 487.231645 972.448736 NaN NaN NaN NaN NaN NaN NaN 68.241 1 68.943 68.443 69.443 0.70218 0 0 0 0.98473 1 32526 32526 7.9102 2.1497 1 + 21911 14504 13783 13839 25557 25557 -0.03859014668512373 PAAASETNW 9 Unmodified _PAAASETNW_ 0 0 0 nc|ENSG00000170962|Q9GZP0-2|PDGFD;ENSG00000170962|ENST00000393158|PDGFD nc|ENSG00000170962|Q9GZP0-2|PDGFD nc|ENSG00000170962|Q9GZP0-2|PDGFD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.80218505859375 2 473.716882 945.41921 NaN NaN NaN NaN NaN NaN NaN 75.195 1 75.453 74.953 75.953 0.25831 0 0 0 0.7971 1 34592 34592 9.3474 0.75416 1 21912 4782 13784 13840 25558 25558 -0.05568255413004408 PAAASGKEKRS 11 Unmodified _PAAASGKEKRS_ 0 0 0 ENSG00000103404|ENST00000219689|USP31 ENSG00000103404|ENST00000219689|USP31 ENSG00000103404|ENST00000219689|USP31 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 551.303466796875 2 551.304187 1100.59382 NaN NaN NaN NaN NaN NaN NaN 77.475 1 77.73 77.23 78.23 0.25472 0 0 0 0.99968 1 35680 35680 6.7232 2.3939 1 21913 1396 13785 13841 25559 25559 0.04754744732167637 PAAASLSRVP 10 Unmodified _PAAASLSRVP_ 0 0 0 ENST00000220597.4_1_8:82023979-82024147:-|nuORF ENST00000220597.4_1_8:82023979-82024147:-|nuORF ENST00000220597.4_1_8:82023979-82024147:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.799072265625 2 484.779816 967.545079 NaN NaN NaN NaN NaN NaN NaN 73.411 1 73.411 72.911 73.911 0 0 0 0 0.96109 1 35784 35784 11.64 2.2929 1 21914 6421 13786 13842 25560 25560 0.06000876163091107 PAAASSKQ 8 Unmodified _PAAASSKQ_ 0 0 0 nc|ENSG00000273540|Q96MI9|AGBL1;ENSG00000273540|ENST00000614907|AGBL1 nc|ENSG00000273540|Q96MI9|AGBL1 nc|ENSG00000273540|Q96MI9|AGBL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.2046203613281 2 380.20341 758.392267 NaN NaN NaN NaN NaN NaN NaN 89.947 1 90.62 90.12 91.12 0.67271 0 0 0 0.99035 1 41410 41410 4.3292 0 1 21915 6338 13787 13843 25561 25561 0.003406807664873668 PAAASSSDQSS 11 Unmodified _PAAASSSDQSS_ 0 0 0 REV__nc|ENSG00000130303|Q10589-2|BST2 REV__nc|ENSG00000130303|Q10589-2|BST2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.2178649902344 2 504.217443 1006.42033 NaN NaN NaN NaN NaN NaN NaN 74.907 1 75.571 75.071 76.071 0.6635 0 0 0 0.99968 1 36230 36230 6.7232 0 1 + 21916 11811 13788 13844 25562 25562 -0.08262085834746813 PAAASVGSARE 11 Unmodified _PAAASVGSARE_ 0 0 0 REV__ENSG00000188986|ENST00000343053|NELFB REV__ENSG00000188986|ENST00000343053|NELFB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.2635498046875 2 508.261988 1014.50942 NaN NaN NaN NaN NaN NaN NaN 74.372 1 74.372 73.872 74.872 0 0 0 0 0.9645 1 36322 36322 10.074 0.72649 1 + 21917 14169 13789 13845 25563 25563 0.002747939154346568 PAAAWPSVLIK 11 Unmodified _PAAAWPSVLIK_ 0 0 0 REV__ENST00000479366.1_1_X:153626732-153626894:+|nuORF REV__ENST00000479366.1_1_X:153626732-153626894:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 576.8419799804688 2 576.842416 1151.67028 NaN NaN NaN NaN NaN NaN NaN 70.176 1 70.879 70.379 71.379 0.70302 0 0 0 1.0034 1 33615 33615 6.2058 0.47393 1 + 21918 15499 13790 13846 25564 25564 0.10051168299469282 PAAAWPWRWP 10 Unmodified _PAAAWPWRWP_ 0 0 0 REV__ENST00000498682.2_3_7:150105208-150105568:+|nuORF REV__ENST00000498682.2_3_7:150105208-150105568:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.3184814453125 2 619.3169 1236.61925 NaN NaN NaN NaN NaN NaN NaN 69.812 1 69.812 69.312 70.312 0 0 0 0 0.99687 1 33785 33785 4.3292 0.38484 1 + 21919 16873 13791 13847 25565 25565 0.010402640452639389 PAACEERHGAF 11 Unmodified _PAACEERHGAF_ 0 0 0 nc|ENSG00000136367|Q9C0A1-2|ZFHX2;ENSG00000136367|ENST00000419474|ZFHX2 nc|ENSG00000136367|Q9C0A1-2|ZFHX2 nc|ENSG00000136367|Q9C0A1-2|ZFHX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 594.2664794921875 2 594.266747 1186.51894 NaN NaN NaN NaN NaN NaN NaN 73.986 1 74.673 74.173 75.173 0.68662 0 0 0 1.0055 1 35735 35735 3.5965 0 1 21920 2945 13792 13848 25566 25566 -0.06685761070707485 PAACGEEDSGD 11 Unmodified _PAACGEEDSGD_ 0 0 0 REV__nc|ENSG00000197558|A2VEC9|SSPOP REV__nc|ENSG00000197558|A2VEC9|SSPOP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.2007446289062 2 525.687661 1049.36077 NaN NaN NaN NaN NaN NaN NaN 71.531 1 71.789 71.289 72.289 0.25786 0 0 0 1.0055 1 32769 32769 3.5965 1.2938 1 + 21921 18096 13793 13849 25567 25567 -0.1619372484044561 PAACQCHCKHM 11 Unmodified _PAACQCHCKHM_ 0 0 0 ENSG00000124177|ENST00000373233|CHD6 ENSG00000124177|ENST00000373233|CHD6 ENSG00000124177|ENST00000373233|CHD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 614.9375 2 614.745756 1227.47696 NaN NaN NaN NaN NaN NaN NaN 67.108 1 67.81 67.31 68.31 0.70218 0 0 0 1.0055 1 31855 31855 3.5965 0 1 21922 2344 13794 13850 25568 25568 -0.12768099346749295 PAACVCSYDDD 11 Unmodified _PAACVCSYDDD_ 0 0 0 ENSG00000099769|ENST00000215539|IGFALS;nc|ENSG00000099769|P35858-2|IGFALS ENSG00000099769|ENST00000215539|IGFALS ENSG00000099769|ENST00000215539|IGFALS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.8281860351562 2 579.707539 1157.40053 NaN NaN NaN NaN NaN NaN NaN 73.347 1 73.347 72.847 73.847 0 0 0 0 1.0055 1 35735 35735 3.5965 0 1 21923 1147 13795 13851 25569 25569 -0.17187921161394115 PAACWQWRTR 10 Unmodified _PAACWQWRTR_ 0 0 0 ENST00000496117.5_1_20:57226371-57242550:+|nuORF ENST00000496117.5_1_20:57226371-57242550:+|nuORF ENST00000496117.5_1_20:57226371-57242550:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 637.8118286132812 2 637.814199 1273.61384 NaN NaN NaN NaN NaN NaN NaN 65.89 1 65.89 65.39 66.39 0 0 0 0 0.99687 1 31411 31411 4.3292 0.38484 1 21924 8440 13796 13852 25570 25570 -0.012017828088573879 PAACWQWRTRP 11 Unmodified _PAACWQWRTRP_ 0 0 0 ENST00000496117.5_1_20:57226371-57242550:+|nuORF ENST00000496117.5_1_20:57226371-57242550:+|nuORF ENST00000496117.5_1_20:57226371-57242550:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 686.3381958007812 2 686.340581 1370.66661 NaN NaN NaN NaN NaN NaN NaN 79.603 1 79.854 79.354 80.354 0.25127 0 0 0 1.0055 1 36654 36654 3.5965 2.1146 1 21925 8440 13797 13853 25571 25571 -0.003898247460483617 PAADLRKRY 9 Unmodified _PAADLRKRY_ 0 0 0 REV__ENSG00000236287|ENST00000413761|ZBED5 REV__ENSG00000236287|ENST00000413761|ZBED5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3101196289062 2 545.311815 1088.60908 NaN NaN NaN NaN NaN NaN NaN 94.838 1 95.098 94.598 95.598 0.25975 0 0 0 0.89315 1 43578 43578 5.2307 0.90143 1 + 21926 14592 13798 13854 25572 25572 0.06831656320036927 PAADTREE 8 Unmodified _PAADTREE_ 0 0 0 REV__nc|ENSG00000145734|A6H8Y1-7|BDP1 REV__nc|ENSG00000145734|A6H8Y1-7|BDP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 444.7073974609375 2 444.706514 887.398475 NaN NaN NaN NaN NaN NaN NaN 72.142 1 72.846 72.346 73.346 0.70386 0 0 0 0.99035 1 34694 34694 6.3541 0 1 + 21927 12454 13799 13855 25573 25573 -0.04972845792667613 PAADTYSEF 9 Unmodified _PAADTYSEF_ 0 0 0 nc|ENSG00000183337|Q6W2J9-4|BCOR;nc|ENSG00000183337|Q6W2J9-2|BCOR;ENSG00000183337|ENST00000378444|BCOR;nc|ENSG00000183337|Q6W2J9-3|BCOR;ENST00000490976.5_1_X:39931586-39937182:-|nuORF nc|ENSG00000183337|Q6W2J9-4|BCOR nc|ENSG00000183337|Q6W2J9-4|BCOR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.5377502441406 2 500.716547 999.418542 NaN NaN NaN NaN NaN NaN NaN 66.977 1 67.682 67.182 68.182 0.7047 0 0 0 0.89315 1 31785 31785 5.2307 0 1 21928 5376 13800 13856 25574 25574 -0.08119094852702347 PAAEDATITL 10 Unmodified _PAAEDATITL_ 0 0 0 REV__ENSG00000171587|ENST00000400454|DSCAM REV__ENSG00000171587|ENST00000400454|DSCAM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.2127990722656 2 501.261122 1000.50769 NaN NaN NaN NaN NaN NaN NaN 61.863 1 61.863 61.363 62.363 0 0 0 0 0.24733 1 28908 28908 42.095 18.946 1 + 21929 13504 13801 13857 25575 25575 0.007457401068108993 PAAEDATITL 10 Unmodified _PAAEDATITL_ 0 0 0 REV__ENSG00000171587|ENST00000400454|DSCAM REV__ENSG00000171587|ENST00000400454|DSCAM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.78924560546875 2 501.261122 1000.50769 2.6484 0.0013275 -0.99989 -0.00050121 1.6485 0.00082633 501.2606711775226 60.99 0.33394 61.73 61.571 61.905 0.7396 57 42 2 0 0 0 0.4834 1 28168 28168 21.747 1.293 1 4548700 + 21930 13504 13801 13857 25576 25576 0.007457401068108993 PAAEEAVPAP 10 Unmodified _PAAEEAVPAP_ 0 0 0 REV__ENST00000398125.5_1_4:2916713-2930247:+|nuORF REV__ENST00000398125.5_1_4:2916713-2930247:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 476.0952453613281 2 476.242732 950.470912 NaN NaN NaN NaN NaN NaN NaN 66.127 1 66.127 65.627 66.627 0 0 0 0 0.98473 1 31572 31572 7.9102 0 1 + 21931 10668 13802 13858 25577 25577 -0.006305117191004683 PAAEEVRRPG 10 Unmodified _PAAEEVRRPG_ 0 0 0 ENST00000591201.5_1_19:1483001-1487304:-|nuORF;ENST00000300954.9_1_19:1483001-1487678:-|nuORF;ENST00000586616.5_1_19:1482426-1487301:-|nuORF;ENST00000441747.6_1_19:1482426-1490130:-|nuORF;ENST00000588195.5_1_19:1483001-1490375:-|nuORF ENST00000591201.5_1_19:1483001-1487304:-|nuORF ENST00000591201.5_1_19:1483001-1487304:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.4196166992188 2 541.291079 1080.56761 NaN NaN NaN NaN NaN NaN NaN 73.418 1 73.418 72.918 73.918 0 0 0 0 0.98866 1 35787 35787 7.2892 1.0834 1 21932 6799 13803 13859 25578 25578 0.030544755607252227 PAAEEYFRMYC 11 Unmodified _PAAEEYFRMYC_ 0 0 0 ENSG00000111271|ENST00000313698|ACAD10;nc|ENSG00000111271|Q6JQN1-5|ACAD10;nc|ENSG00000111271|Q6JQN1-3|ACAD10;ENST00000508303.5_1_12:112159488-112186840:+|nuORF;nc|ENSG00000111271|Q6JQN1-2|ACAD10;ENST00000413681.7_1_12:112130513-112186840:+|nuORF ENSG00000111271|ENST00000313698|ACAD10 ENSG00000111271|ENST00000313698|ACAD10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 690.2899780273438 2 690.291573 1378.56859 NaN NaN NaN NaN NaN NaN NaN 80.902 1 80.902 80.402 81.402 0 0 0 0 1.0055 1 40256 40256 3.5965 0.60125 1 21933 1751 13804 13860 25579 25579 -0.10554814176884975 PAAEGEEDHE 10 Unmodified _PAAEGEEDHE_ 0 0 0 ENST00000435287.1_1_6:132272117-132398394:+|nuORF ENST00000435287.1_1_6:132272117-132398394:+|nuORF ENST00000435287.1_1_6:132272117-132398394:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.1712646484375 2 542.2149 1082.41525 NaN NaN NaN NaN NaN NaN NaN 60.825 1 60.825 60.325 61.325 0 0 0 0 0.99687 1 28317 28317 4.3292 0 1 21934 7889 13805 13861 25580 25580 -0.12266389697379054 PAAEHQWDE 9 Unmodified _PAAEHQWDE_ 0 0 0 ENSG00000175489|ENST00000339007|LRRC25 ENSG00000175489|ENST00000339007|LRRC25 ENSG00000175489|ENST00000339007|LRRC25 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.7307739257812 2 541.73052 1081.44649 NaN NaN NaN NaN NaN NaN NaN 74.082 1 74.768 74.268 75.268 0.68662 0 0 0 0.82031 1 35786 35786 8.5933 4.264 1 21935 5033 13806 13862 25581 25581 -0.09097771872620797 PAAEICRLPL 10 Unmodified _PAAEICRLPL_ 0 0 0 ENST00000305784.6_1_2:242615338-242615527:-|nuORF ENST00000305784.6_1_2:242615338-242615527:-|nuORF ENST00000305784.6_1_2:242615338-242615527:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.6332397460938 2 541.804977 1081.5954 NaN NaN NaN NaN NaN NaN NaN 67.354 1 67.354 66.854 67.854 0 0 0 0 0.98866 1 32289 32289 7.2892 0 1 21936 6833 13807 13863 25582 25582 0.05786662496598183 PAAEKRRRRSR 11 Unmodified _PAAEKRRRRSR_ 0 0 0 REV__ENST00000357529.7_1_12:8850703-8852541:+|nuORF REV__ENST00000357529.7_1_12:8850703-8852541:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 691.91064453125 2 691.913624 1381.8127 NaN NaN NaN NaN NaN NaN NaN 87.038 1 87.714 87.214 88.214 0.67555 0 0 0 1.0071 1 40091 40091 1.4819 0.28856 1 + 21937 15567 13808 13864 25583 25583 0.13706193814209655 PAAEKRTSHRQ 11 Unmodified _PAAEKRTSHRQ_ 0 0 0 REV__ENST00000465950.5_1_12:46320976-46321084:-|nuORF REV__ENST00000465950.5_1_12:46320976-46321084:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 640.8440551757812 2 640.844542 1279.67453 NaN NaN NaN NaN NaN NaN NaN 67.808 1 67.808 67.308 68.308 0 0 0 0 1.0055 1 32579 32579 3.5965 0 1 + 21938 16543 13809 13865 25584 25584 0.04588025775092319 PAAELLEKKSQ 11 Unmodified _PAAELLEKKSQ_ 0 0 0 ENST00000561819.1_1_16:50099919-50102714:+|nuORF ENST00000561819.1_1_16:50099919-50102714:+|nuORF ENST00000561819.1_1_16:50099919-50102714:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 607.2666625976562 2 607.342978 1212.6714 NaN NaN NaN NaN NaN NaN NaN 93.437 1 93.437 92.937 93.937 0 0 0 0 0.98464 1 49884 49884 8.1555 0.54658 1 21939 8988 13810 13866 25585 25585 0.07357337877715509 PAAELLLSL 9 Unmodified _PAAELLLSL_ 0 0 0 nc|ENSG00000164190|Q6KC79-2|NIPBL;ENSG00000164190|ENST00000282516|NIPBL nc|ENSG00000164190|Q6KC79-2|NIPBL nc|ENSG00000164190|Q6KC79-2|NIPBL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.7837829589844 2 463.781493 925.548434 NaN NaN NaN NaN NaN NaN NaN 97.642 1 97.931 97.431 98.431 0.28923 0 0 0 0.89315 1 44870 44870 5.2307 0 1 21940 4293 13811 13867 25586 25586 0.082681262171036 PAAEPPRIRL 10 Unmodified _PAAEPPRIRL_ 0 0 0 ENST00000538466.5_1_6:111982788-111982917:-|nuORF ENST00000538466.5_1_6:111982788-111982917:-|nuORF ENST00000538466.5_1_6:111982788-111982917:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.3384399414062 2 560.33529 1118.65603 NaN NaN NaN NaN NaN NaN NaN 72.441 1 72.7 72.2 73.2 0.25876 0 0 0 0.99687 1 33255 33255 4.3292 0 1 21941 8783 13812 13868 25587 25587 0.10144515871184012 PAAEQECKPRI 11 Unmodified _PAAEQECKPRI_ 0 0 0 ENST00000502692.5_1_11:66313918-66328094:+|nuORF ENST00000502692.5_1_11:66313918-66328094:+|nuORF ENST00000502692.5_1_11:66313918-66328094:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.3015747070312 2 621.31898 1240.62341 NaN NaN NaN NaN NaN NaN NaN 86.078 1 86.109 85.609 86.609 0.030289 0 0 0 0.9645 1 43222 43222 10.074 4.777 1 21942 8482 13813 13869 25588 25588 0.012719406860014715 PAAEQMCFE 9 Unmodified _PAAEQMCFE_ 0 0 0 ENSG00000139832|ENST00000267328|RAB20 ENSG00000139832|ENST00000267328|RAB20 ENSG00000139832|ENST00000267328|RAB20 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.197265625 2 513.206978 1024.3994 NaN NaN NaN NaN NaN NaN NaN 65.037 1 65.037 64.537 65.537 0 0 0 0 0.89315 1 30914 30914 5.2307 0 1 21943 3168 13814 13870 25589 25589 -0.11182090739623618 PAAERASLHGF 11 Unmodified _PAAERASLHGF_ 0 0 0 REV__ENST00000297107.10_1_5:153798138-153798366:+|nuORF REV__ENST00000297107.10_1_5:153798138-153798366:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.4978637695312 2 578.298904 1154.58326 NaN NaN NaN NaN NaN NaN NaN 77.384 1 77.64 77.14 78.14 0.25533 0 0 0 1.0034 1 35638 35638 6.2058 0 1 + 21944 15161 13815 13871 25590 25590 0.01214762077756859 PAAERHKNRAQ 11 Unmodified _PAAERHKNRAQ_ 0 0 0 REV__ENSG00000173852|ENST00000638088|DPY19L1 REV__ENSG00000173852|ENST00000638088|DPY19L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 639.4776000976562 2 639.344709 1276.67486 NaN NaN NaN NaN NaN NaN NaN 79.331 1 79.582 79.082 80.082 0.25127 0 0 0 1.0055 1 36531 36531 3.5965 0 1 + 21945 13616 13816 13872 25591 25591 0.047594454949376086 PAAERKQK 8 Unmodified _PAAERKQK_ 0 0 0 ENST00000437111.1_1_10:52390343-52390514:-|nuORF ENST00000437111.1_1_10:52390343-52390514:-|nuORF ENST00000437111.1_1_10:52390343-52390514:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.2737121582031 2 464.272158 926.529764 3.5486 0.0016475 -0.40951 -0.00019012 3.1391 0.0014574 464.27174636082464 98.635 0.12978 98.935 98.876 99.006 0.29987 12 9 2 0 0 0 0.73686 1 45485 45485 2.8892 0 1 1986200 21946 7902 13817 13873 25592 25592 0.06356009365902082 PAAERKQKHL 10 Unmodified _PAAERKQKHL_ 0 0 0 ENST00000437111.1_1_10:52390343-52390514:-|nuORF ENST00000437111.1_1_10:52390343-52390514:-|nuORF ENST00000437111.1_1_10:52390343-52390514:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.3457641601562 2 589.343646 1176.67274 4.3977 0.0025918 -0.85153 -0.00050184 3.5462 0.0020899 589.3434122041035 99.816 0.15912 100.12 100.02 100.18 0.30835 11 8 2 0 0 0 0.93534 1 46159 46159 1.8442 0.19162 1 1545600 21947 7902 13818 13874 25593 25593 0.09147016757151505 PAAERRPSRPP 11 Unmodified _PAAERRPSRPP_ 0 0 0 REV__ENST00000393229.3_1_9:135037571-135041761:+|nuORF REV__ENST00000393229.3_1_9:135037571-135041761:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 617.3460083007812 2 617.344178 1232.6738 NaN NaN NaN NaN NaN NaN NaN 106.48 1 106.53 106.03 107.03 0.04837 0 0 0 1.0059 1 57599 57599 2.9952 0.71247 1 + 21948 15945 13819 13875 25594 25594 0.06677231126036531 PAAERRQKRL 10 Unmodified _PAAERRQKRL_ 0 0 0 nc|ENSG00000144736|Q6PI26-2|SHQ1;ENSG00000144736|ENST00000325599|SHQ1 nc|ENSG00000144736|Q6PI26-2|SHQ1 nc|ENSG00000144736|Q6PI26-2|SHQ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.2036743164062 2 612.86782 1223.72109 NaN NaN NaN NaN NaN NaN NaN 60.513 1 61.253 60.753 61.753 0.7396 0 0 0 0.99687 1 27933 27933 4.3292 0.73274 1 21949 3444 13820 13876 25595 25595 0.11817510397031583 PAAERRRPRRA 11 Unmodified _PAAERRRPRRA_ 0 0 0 REV__ENSG00000100104|ENST00000215917|SRRD REV__ENSG00000100104|ENST00000215917|SRRD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 668.3978881835938 2 668.395067 1334.77558 NaN NaN NaN NaN NaN NaN NaN 70.852 1 70.852 70.352 71.352 0 0 0 0 1.0055 1 34422 34422 3.5965 0.8613 1 + 21950 10802 13821 13877 25596 25596 0.1215852226844163 PAAETHRSLW 10 Unmodified _PAAETHRSLW_ 0 0 0 REV__nc|ENSG00000182795|Q9BW04-2|SARG REV__nc|ENSG00000182795|Q9BW04-2|SARG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.3464965820312 2 584.298904 1166.58326 NaN NaN NaN NaN NaN NaN NaN 62.472 1 63.203 62.703 63.703 0.73077 0 0 0 0.99687 1 29127 29127 4.3292 0.38484 1 + 21951 13906 13822 13878 25597 25597 0.006627620777635457 PAAETKLQKKR 11 Unmodified _PAAETKLQKKR_ 0 0 0 REV__nc|ENSG00000110911|P49281-3|SLC11A2 REV__nc|ENSG00000110911|P49281-3|SLC11A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 635.387939453125 2 635.385511 1268.75647 NaN NaN NaN NaN NaN NaN NaN 97.603 1 98.202 97.702 98.702 0.59885 0 0 0 1.0038 1 44885 44885 5.7319 2.1354 1 + 21952 17891 13823 13879 25598 25598 0.13284128134182538 PAAEYEQPWEW 11 Unmodified _PAAEYEQPWEW_ 0 0 0 ENSG00000169291|ENST00000304760|SHE ENSG00000169291|ENST00000304760|SHE ENSG00000169291|ENST00000304760|SHE MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 703.3092651367188 2 703.306592 1404.59863 NaN NaN NaN NaN NaN NaN NaN 62.526 1 63.257 62.757 63.757 0.73077 0 0 0 1.0055 1 29166 29166 3.5965 0.31518 1 21953 4680 13824 13880 25599 25599 -0.08748415915715668 PAAEYEQPWEW 11 Unmodified _PAAEYEQPWEW_ 0 0 0 ENSG00000169291|ENST00000304760|SHE ENSG00000169291|ENST00000304760|SHE ENSG00000169291|ENST00000304760|SHE MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 703.3062744140625 2 703.306592 1404.59863 NaN NaN NaN NaN NaN NaN NaN 74.641 1 74.899 74.399 75.399 0.25831 0 0 0 1.0055 1 34334 34334 3.5965 0.31518 1 21954 4680 13824 13880 25600 25600 -0.08748415915715668 PAAEYFED 8 Unmodified _PAAEYFED_ 0 0 0 chr5:1426540-1432464|208|14.43|0.0|15.56|-|1|None,SLC6A3|1 chr5:1426540-1432464|208|14.43|0.0|15.56|-|1|None,SLC6A3|1 chr5:1426540-1432464|208|14.43|0.0|15.56|-|1|None,SLC6A3|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 471.3313293457031 2 471.19799 940.381428 NaN NaN NaN NaN NaN NaN NaN 61.788 1 61.788 61.288 62.288 0 0 0 0 0.99035 1 28856 28856 6.3541 1.1234 1 21955 177 13825 13881 25601 25601 -0.0911476639846569 PAAFALSLLML 11 Unmodified _PAAFALSLLML_ 0 0 0 REV__ENSG00000129951|ENST00000520876|PLPPR3 REV__ENSG00000129951|ENST00000520876|PLPPR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.862548828125 2 573.833203 1145.65185 NaN NaN NaN NaN NaN NaN NaN 83.449 1 83.494 82.994 83.994 0.045006 0 0 0 0.99968 1 41413 41413 6.7232 0.99131 1 + 21956 11798 13826 13882 25602 25602 0.08485290333260309 PAAFFQLEAR 10 Unmodified _PAAFFQLEAR_ 0 0 0 ENST00000473212.1_1_21:46927018-46932309:+|nuORF ENST00000473212.1_1_21:46927018-46932309:+|nuORF ENST00000473212.1_1_21:46927018-46932309:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.3045043945312 2 575.306198 1148.59784 NaN NaN NaN NaN NaN NaN NaN 76.69 1 76.945 76.445 77.445 0.25533 0 0 0 0.99687 1 35313 35313 4.3292 0.73274 1 21957 8195 13827 13883 25603 25603 0.029488342258900957 PAAFHTWNRLW 11 Unmodified _PAAFHTWNRLW_ 0 0 0 nc|ENSG00000198089|A8K8P3-2|SFI1;ENSG00000198089|ENST00000400288|SFI1;nc|ENSG00000198089|A8K8P3-4|SFI1;nc|ENSG00000198089|A8K8P3-10|SFI1;nc|ENSG00000198089|A8K8P3-3|SFI1;nc|ENSG00000198089|A8K8P3-9|SFI1;ENST00000382162.7_1_22:31904270-32000328:+|nuORF;nc|ENSG00000198089|A8K8P3-5|SFI1 nc|ENSG00000198089|A8K8P3-2|SFI1 nc|ENSG00000198089|A8K8P3-2|SFI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 700.061767578125 2 699.856921 1397.69929 NaN NaN NaN NaN NaN NaN NaN 97.041 1 97.643 97.143 98.143 0.6019 0 0 0 1.0055 1 44616 44616 3.5965 0 1 21958 5867 13828 13884 25604 25604 0.016347056484619316 PAAFKWQPMR 10 Unmodified _PAAFKWQPMR_ 0 0 0 REV__ENSG00000129946|ENST00000264554|SHC2 REV__ENSG00000129946|ENST00000264554|SHC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 616.325927734375 2 616.323868 1230.63318 NaN NaN NaN NaN NaN NaN NaN 72.536 1 72.795 72.295 73.295 0.25876 0 0 0 0.99687 1 33299 33299 4.3292 0.73274 1 + 21959 11797 13829 13885 25605 25605 0.027091734820487545 PAAFLLLTWLL 11 Unmodified _PAAFLLLTWLL_ 0 0 0 REV__ENST00000484214.1_1_1:156263748-156265436:-|nuORF REV__ENST00000484214.1_1_1:156263748-156265436:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 629.3822021484375 2 629.383917 1256.75328 NaN NaN NaN NaN NaN NaN NaN 74.432 1 75.118 74.618 75.618 0.68662 0 0 0 1.0055 1 35975 35975 3.5965 0.31518 1 + 21960 14351 13830 13886 25606 25606 0.1351748502747796 PAAFLQHRLVE 11 Unmodified _PAAFLQHRLVE_ 0 0 0 REV__ENST00000537488.1_1_12:7048306-7050940:+|nuORF REV__ENST00000537488.1_1_12:7048306-7050940:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.8568115234375 2 640.859129 1279.70371 NaN NaN NaN NaN NaN NaN NaN 64.494 1 65.209 64.709 65.709 0.71521 0 0 0 1.0055 1 30388 30388 3.5965 0.31518 1 + 21961 11245 13831 13887 25607 25607 0.07504170071342742 PAAFLRLLY 9 Unmodified _PAAFLRLLY_ 0 0 0 REV__nc|ENSG00000171385|Q9UK17-2|KCND3 REV__nc|ENSG00000171385|Q9UK17-2|KCND3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.8236083984375 2 532.318577 1062.6226 2.7853 0.0014827 0.39756 0.00021163 3.1829 0.0016943 532.3183646618236 74.701 0.25117 75.366 75.184 75.436 0.6644 41 24 2 0 0 0 0.7295 1 34353 34353 8.5933 0.68312 1 843470 + 21962 10918 13832 13888 25608 25608 0.0937951409928246 PAAFMARRS 9 Unmodified _PAAFMARRS_ 0 0 0 REV__ENST00000040877.1_1_1:234614313-234614457:-|nuORF REV__ENST00000040877.1_1_1:234614313-234614457:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 503.7645568847656 2 503.766186 1005.51782 NaN NaN NaN NaN NaN NaN NaN 78.012 1 78.012 77.512 78.512 0 0 0 0 0.89315 1 38291 38291 5.2307 0.47466 1 + 21963 14780 13833 13889 25609 25609 0.015280693510703713 PAAFRIPQQMD 11 Unmodified _PAAFRIPQQMD_ 0 0 0 ENST00000433650.5_2_9:92020597-92020752:-|nuORF ENST00000433650.5_2_9:92020597-92020752:-|nuORF ENST00000433650.5_2_9:92020597-92020752:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 637.322265625 2 637.321522 1272.62849 NaN NaN NaN NaN NaN NaN NaN 73.58 1 74.279 73.779 74.779 0.69881 0 0 0 1.0055 1 35496 35496 3.5965 0 1 21964 7874 13834 13890 25610 25610 0.0030824454863704887 PAAFSIPIFLP 11 Unmodified _PAAFSIPIFLP_ 0 0 0 REV__ENST00000326956.11_1_1:54692806-54822351:-|nuORF REV__ENST00000326956.11_1_1:54692806-54822351:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.8411865234375 2 586.839342 1171.66413 NaN NaN NaN NaN NaN NaN NaN 93.698 1 94.329 93.829 94.829 0.63115 0 0 0 0.9645 1 43099 43099 10.074 3.8681 1 + 21965 15357 13835 13891 25611 25611 0.08516650067940645 PAAFWFRGRR 10 Unmodified _PAAFWFRGRR_ 0 0 0 REV__ENST00000225873.8_2_17:33905316-33905562:-|nuORF REV__ENST00000225873.8_2_17:33905316-33905562:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.3489990234375 2 632.346523 1262.67849 NaN NaN NaN NaN NaN NaN NaN 61.653 1 62.383 61.883 62.883 0.73077 0 0 0 0.99687 1 28619 28619 4.3292 0.73274 1 + 21966 14836 13836 13892 25612 25612 0.05766160059442882 PAAFWLLLFLL 11 Unmodified _PAAFWLLLFLL_ 0 0 0 ENSG00000124212|ENST00000244043|PTGIS ENSG00000124212|ENST00000244043|PTGIS ENSG00000124212|ENST00000244043|PTGIS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 652.39404296875 2 652.394285 1302.77402 NaN NaN NaN NaN NaN NaN NaN 71.524 1 72.227 71.727 72.727 0.70386 0 0 0 1.0055 1 34356 34356 3.5965 0 1 21967 2350 13837 13893 25613 25613 0.13474075407134478 PAAGAIFYWQG 11 Unmodified _PAAGAIFYWQG_ 0 0 0 REV__ENSG00000204444|ENST00000375916|APOM REV__ENSG00000204444|ENST00000375916|APOM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.9403686523438 2 590.792924 1179.57129 NaN NaN NaN NaN NaN NaN NaN 74.104 1 74.104 73.604 74.604 0 0 0 0 0.99968 1 36167 36167 6.7232 2.3939 1 + 21968 14419 13838 13894 25614 25614 -0.011308546654618112 PAAGASPGEEC 11 Unmodified _PAAGASPGEEC_ 0 0 0 REV__ENST00000468680.1_1_3:195597236-195599448:-|nuORF REV__ENST00000468680.1_1_3:195597236-195599448:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.5570373535156 2 494.705657 987.39676 NaN NaN NaN NaN NaN NaN NaN 76.441 1 77.065 76.565 77.565 0.62397 0 0 0 0.99968 1 37048 37048 6.7232 1.4925 1 + 21969 16570 13839 13895 25615 25615 -0.09744222872916453 PAAGEECCF 9 Unmodified _PAAGEECCF_ 0 0 0 REV__ENST00000563475.1_1_16:88740642-88740978:+|nuORF REV__ENST00000563475.1_1_16:88740642-88740978:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.6740417480469 2 463.672771 925.330989 NaN NaN NaN NaN NaN NaN NaN 64.879 1 64.879 64.379 65.379 0 0 0 0 0.89315 1 30823 30823 5.2307 2.3415 1 + 21970 17393 13840 13896 25616 25616 -0.13466335319481004 PAAGGGAA 8 Unmodified _PAAGGGAA_ 0 0 0 ENSG00000206557|ENST00000383763|TRIM71 ENSG00000206557|ENST00000383763|TRIM71 ENSG00000206557|ENST00000383763|TRIM71 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.80859375 1 571.283451 570.276175 3.2852 0.0018768 -4.0267 -0.0023004 -0.7415 -0.00042361 571.2860662511688 55.753 0.077568 56.54 56.491 56.568 0.78711 8 5 2 0 0 0 0.14069 1 25458 25458 6.3541 0 1 610630 21971 6073 13841 13897 25617 25617 -0.0261521801356821 PAAGGHGG 8 Unmodified _PAAGGHGG_ 0 0 0 REV__nc|ENSG00000141568|Q01167-2|FOXK2 REV__nc|ENSG00000141568|Q01167-2|FOXK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 623.2973022460938 1 623.289599 622.282323 3.8547 0.0024026 4.364 0.00272 8.2187 0.0051226 623.2941411955819 83.046 0.29202 83.707 83.575 83.867 0.66019 35 15 3 0 0 0 0.69414 1 38234 38234 6.3541 0 1 801250 + 21972 12300 13842 13898 25618 25618 -0.0439269978203356 PAAGGRHSQ 9 Unmodified _PAAGGRHSQ_ 0 0 0 REV__THE1B-int_dup1888|chr6:111282961-111284170:-|1.7370166059662973|0.0871552847339515|4.32|531.0|21|2|sense REV__THE1B-int_dup1888|chr6:111282961-111284170:-|1.7370166059662973|0.0871552847339515|4.32|531.0|21|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 440.6067199707031 2 440.722833 879.431112 NaN NaN NaN NaN NaN NaN NaN 61.346 1 62.085 61.585 62.585 0.7396 0 0 0 0.7971 1 28432 28432 9.3474 0 1 + 21973 18228 13843 13899 25619 25619 -0.013425938791442604 PAAGGRWWLLR 11 Unmodified _PAAGGRWWLLR_ 0 0 0 REV__ENST00000258083.2_1_2:73456031-73456673:-|nuORF REV__ENST00000258083.2_1_2:73456031-73456673:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.5432739257812 2 641.862006 1281.70946 NaN NaN NaN NaN NaN NaN NaN 63.188 1 63.188 62.688 63.688 0 0 0 0 0.99968 1 29700 29700 6.7232 1.4263 1 + 21974 14944 13844 13900 25620 25620 0.07987313373701 PAAGHMRHRCW 11 Unmodified _PAAGHMRHRCW_ 0 0 0 ENST00000491581.5_1_5:141005615-141007502:-|nuORF ENST00000491581.5_1_5:141005615-141007502:-|nuORF ENST00000491581.5_1_5:141005615-141007502:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 661.3104248046875 2 661.3113 1320.60805 NaN NaN NaN NaN NaN NaN NaN 64.163 1 64.878 64.378 65.378 0.71521 0 0 0 1.0055 1 30197 30197 3.5965 1.7523 1 21975 8395 13845 13901 25621 25621 -0.039432045921785175 PAAGHTRQHL 10 Unmodified _PAAGHTRQHL_ 0 0 0 REV__ENSG00000197483|ENST00000598519|ZNF628 REV__ENSG00000197483|ENST00000598519|ZNF628 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.9586181640625 2 544.291414 1086.56827 NaN NaN NaN NaN NaN NaN NaN 78.868 1 79.333 78.833 79.833 0.4642 0 0 0 0.98473 1 38412 38412 7.9102 0 1 + 21976 14282 13846 13902 25622 25622 0.02845315000422488 PAAGIRFRRW 10 Unmodified _PAAGIRFRRW_ 0 0 0 nc|ENSG00000182253|O15061-2|SYNM;ENSG00000182253|ENST00000336292|SYNM nc|ENSG00000182253|O15061-2|SYNM nc|ENSG00000182253|O15061-2|SYNM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 615.6492309570312 2 615.354348 1228.69414 NaN NaN NaN NaN NaN NaN NaN 66.67 1 67.375 66.875 67.875 0.7047 0 0 0 0.99687 1 31621 31621 4.3292 0.38484 1 21977 5323 13847 13903 25623 25623 0.08894446576505288 PAAGIVQFESR 11 Unmodified _PAAGIVQFESR_ 0 0 0 REV__ENST00000585075.1_1_17:73267604-73267865:+|nuORF REV__ENST00000585075.1_1_17:73267604-73267865:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.980712890625 2 587.814387 1173.61422 NaN NaN NaN NaN NaN NaN NaN 77.524 1 77.777 77.277 78.277 0.25335 0 0 0 1.0038 1 35702 35702 5.7319 0 1 + 21978 17532 13848 13904 25624 25624 0.034359153920149765 PAAGPLALRRK 11 Unmodified _PAAGPLALRRK_ 0 0 0 REV__ENST00000524825.5_1_11:3063511-3063553:-|nuORF REV__ENST00000524825.5_1_11:3063511-3063553:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.5846557617188 2 575.364382 1148.71421 NaN NaN NaN NaN NaN NaN NaN 79.78 1 80.1 79.6 80.6 0.31998 0 0 0 1.0041 1 38981 38981 6.7232 3.1267 1 + 21979 17078 13849 13905 25625 25625 0.1458019751644315 PAAGRESEMV 10 Unmodified _PAAGRESEMV_ 0 0 0 ENST00000512001.5_1_5:76382866-76383055:+|nuORF ENST00000512001.5_1_5:76382866-76383055:+|nuORF ENST00000512001.5_1_5:76382866-76383055:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.865234375 2 523.750398 1045.48624 NaN NaN NaN NaN NaN NaN NaN 62.468 1 63.199 62.699 63.699 0.73077 0 0 0 0.98473 1 29124 29124 7.9102 0 1 21980 8568 13850 13906 25626 25626 -0.034679681935585904 PAAGRIYHL 9 Unmodified _PAAGRIYHL_ 0 0 0 REV__ENST00000562659.1_1_16:85698640-85699994:+|nuORF REV__ENST00000562659.1_1_16:85698640-85699994:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.2836608886719 2 499.282526 996.550499 NaN NaN NaN NaN NaN NaN NaN 65.568 1 65.568 65.068 66.068 0 0 0 0 0.89315 1 31256 31256 5.2307 0 1 + 21981 11848 13851 13907 25627 25627 0.052085997455378674 PAAGSRRVR 9 Unmodified _PAAGSRRVR_ 0 0 0 ENSG00000233493|ENST00000444469|TMEM238 ENSG00000233493|ENST00000444469|TMEM238 ENSG00000233493|ENST00000444469|TMEM238 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.3423767089844 2 485.288674 968.562795 NaN NaN NaN NaN NaN NaN NaN 77.665 1 77.665 77.165 78.165 0 0 0 0 0.7971 1 38097 38097 9.3474 0.75416 1 21982 6193 13852 13908 25628 25628 0.07725636208613196 PAAGWGARRR 10 Unmodified _PAAGWGARRR_ 0 0 0 ENST00000357503.2_1_9:140172209-140173569:+|nuORF ENST00000357503.2_1_9:140172209-140173569:+|nuORF ENST00000357503.2_1_9:140172209-140173569:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.4306030273438 2 549.307398 1096.60024 NaN NaN NaN NaN NaN NaN NaN 72.091 1 72.754 72.254 73.254 0.66324 0 0 0 0.98473 1 33048 33048 7.9102 2.1497 1 21983 7178 13853 13909 25629 25629 0.055807274742164736 PAAGWGGG 8 Unmodified _PAAGWGGG_ 0 0 0 REV__ENST00000374837.7_1_20:33147851-33148046:+|nuORF REV__ENST00000374837.7_1_20:33147851-33148046:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 672.3132934570312 1 672.31 671.302724 3.6462 0.0024514 0.6895 0.00046356 4.3357 0.002915 672.3106534293053 77.769 1.3733 78.023 77.196 78.569 0.25334 192 93 3 0 0 0 0.7471 1 35478 35478 0.79363 0 1 3799200 + 21984 15794 13854 13910 25630 25630 -0.046075291222337 PAAGWGGG 8 Unmodified _PAAGWGGG_ 0 0 0 REV__ENST00000374837.7_1_20:33147851-33148046:+|nuORF REV__ENST00000374837.7_1_20:33147851-33148046:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 672.313232421875 1 672.31 671.302724 3.7955 0.0025518 0.73364 0.00049323 4.5292 0.003045 672.3107072566333 77.571 1.2261 78.234 77.599 78.825 0.66303 153 83 3 0 0 0 0.14249 1 35473 35473 2.8892 2.0956 1 3734700 + 21985 15794 13854 13910 25631 25631 -0.046075291222337 PAAGWGGG 8 Unmodified _PAAGWGGG_ 0 0 0 REV__ENST00000374837.7_1_20:33147851-33148046:+|nuORF REV__ENST00000374837.7_1_20:33147851-33148046:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 672.31 671.302724 3.6462 0.0024514 0.6895 0.00046356 4.3357 0.002915 672.3106534293053 77.769 1.3733 78.023 77.196 78.569 0.25334 -0.10587 -1.351E-05 NaN 2.8892 192 93 3 NaN NaN NaN NaN 0 NaN NaN 0 3799200 + 21986 15794 13854 13910 -0.046075291222337 PAAGWRCRPHI 11 Unmodified _PAAGWRCRPHI_ 0 0 0 REV__ENSG00000161031|ENST00000340880|PGLYRP2 REV__ENSG00000161031|ENST00000340880|PGLYRP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.332763671875 2 632.330016 1262.64548 NaN NaN NaN NaN NaN NaN NaN 48.433 1 49.26 48.76 49.76 0.82705 0 0 0 0.99968 1 22064 22064 6.7232 0 1 + + 21987 10074 13855 13911 25632 25632 0.02466209945077935 PAAHFMEEQD 10 Unmodified _PAAHFMEEQD_ 0 0 0 ENST00000367469.5_2_6:148593465-148761544:+|nuORF ENST00000367469.5_2_6:148593465-148761544:+|nuORF ENST00000367469.5_2_6:148593465-148761544:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.7452392578125 2 587.745313 1173.47607 NaN NaN NaN NaN NaN NaN NaN 78.995 1 79.246 78.746 79.746 0.25127 0 0 0 0.99983 1 36378 36378 1.8442 0 1 21988 7262 13856 13912 25633 25633 -0.10372575918768234 PAAHHQESPV 10 Unmodified _PAAHHQESPV_ 0 0 0 ENST00000572844.1_1_17:7388118-7388172:+|nuORF ENST00000572844.1_1_17:7388118-7388172:+|nuORF ENST00000572844.1_1_17:7388118-7388172:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.3491821289062 2 536.762155 1071.50976 NaN NaN NaN NaN NaN NaN NaN 89.87 1 89.935 89.435 90.435 0.064346 0 0 0 0.98473 1 46157 46157 7.9102 1.187 1 21989 9103 13857 13913 25634 25634 -0.02313786364720727 PAAHPQHRHHR 11 Unmodified _PAAHPQHRHHR_ 0 0 0 ENST00000425217.5_2_12:118105298-118293285:-|nuORF;KSR2|p.E186Gfs*200|1|0.36|ENSG00000171435|chr12:117761442-117761443|-/G|frameshift_variant ENST00000425217.5_2_12:118105298-118293285:-|nuORF ENST00000425217.5_2_12:118105298-118293285:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 448.5026550292969 3 448.569532 1342.68677 NaN NaN NaN NaN NaN NaN NaN 63.376 1 63.376 62.876 63.876 0 0 0 0 1.0059 1 29813 29813 3.0723 0.81953 1 21990 7792 13858 13914 25635 25635 0.029131070287803595 PAAHQREV 8 Unmodified _PAAHQREV_ 0 0 0 REV__ENST00000505903.1_1_17:47072677-47072911:-|nuORF REV__ENST00000505903.1_1_17:47072677-47072911:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 454.243408203125 2 454.240858 906.467164 NaN NaN NaN NaN NaN NaN NaN 75.173 1 75.838 75.338 76.338 0.6644 0 0 0 0.99035 1 34625 34625 2.8892 0 1 + 21991 16926 13859 13915 25636 25636 0.010188632977133238 PAAHRPAGLR 10 Unmodified _PAAHRPAGLR_ 0 0 0 ENST00000366971.8_1_1:213032234-213037122:+|nuORF ENST00000366971.8_1_1:213032234-213037122:+|nuORF ENST00000366971.8_1_1:213032234-213037122:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.3053588867188 2 523.304324 1044.5941 3.2863 0.0017197 -0.21971 -0.00011497 3.0666 0.0016047 523.3041180473004 78.488 0.97118 79.15 78.761 79.732 0.66198 84 63 2 0 0 0 0.93534 1 36219 36219 1.8442 0.19162 1 593950 21992 7242 13860 13916 25637 25637 0.07358209242693192 PAAHRPTQRQ 10 Unmodified _PAAHRPTQRQ_ 0 0 0 REV__ENST00000515144.5_1_5:14293150-14488426:+|nuORF REV__ENST00000515144.5_1_5:14293150-14488426:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.31640625 2 581.31542 1160.61629 NaN NaN NaN NaN NaN NaN NaN 77.913 1 78.575 78.075 79.075 0.66198 0 0 0 0.99687 1 35905 35905 4.3292 0.38484 1 + 21993 10307 13861 13917 25638 25638 0.0424038892047065 PAAHSLLRWK 10 Unmodified _PAAHSLLRWK_ 0 0 0 chr6:26443659-26444113|216|19.81|0.79|4.65|+|1|BTN3A3,None|1 chr6:26443659-26444113|216|19.81|0.79|4.65|+|1|BTN3A3,None|1 chr6:26443659-26444113|216|19.81|0.79|4.65|+|1|BTN3A3,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.8475952148438 2 589.843282 1177.67201 NaN NaN NaN NaN NaN NaN NaN 89.568 1 89.819 89.319 90.319 0.25137 0 0 0 0.99983 1 41194 41194 1.8442 0.36234 1 21994 185 13862 13918 25639 25639 0.09028222108076989 PAAIEEKKL 9 Unmodified _PAAIEEKKL_ 0 0 0 ENSG00000040731|ENST00000264463|CDH10;ENST00000503958.1_1_5:24487774-24493064:-|nuORF ENSG00000040731|ENST00000264463|CDH10 ENSG00000040731|ENST00000264463|CDH10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.7985534667969 2 499.797675 997.580796 NaN NaN NaN NaN NaN NaN NaN 71.395 1 71.395 70.895 71.895 0 0 0 0 0.7971 1 34704 34704 9.3474 0 1 21995 535 13863 13919 25640 25640 0.08190913620103402 PAAILHLLAGL 11 Unmodified _PAAILHLLAGL_ 0 0 0 ENSG00000215912|ENST00000401095|TTC34 ENSG00000215912|ENST00000401095|TTC34 ENSG00000215912|ENST00000401095|TTC34 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.242431640625 2 544.844959 1087.67537 NaN NaN NaN NaN NaN NaN NaN 74.183 1 74.87 74.37 75.37 0.68662 0 0 0 0.99968 1 35847 35847 6.7232 0 1 21996 6139 13864 13920 25641 25641 0.1350347216209684 PAAIMEVSSL 10 Unmodified _PAAIMEVSSL_ 0 0 0 ENST00000552233.5_1_12:53823268-53823430:+|nuORF ENST00000552233.5_1_12:53823268-53823430:+|nuORF ENST00000552233.5_1_12:53823268-53823430:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.802978515625 2 509.267893 1016.52123 3.1011 0.0015793 0.19279 9.8182E-05 3.2938 0.0016774 509.2681007285601 76.364 0.20947 76.621 76.516 76.725 0.25705 25 15 2 0 0 0 0.81125 1 35187 35187 7.9102 1.5561 1 371870 21997 8888 13865 13921 25642 25642 0.013632746144139674 PAAIPHLRRRR 11 Unmodified _PAAIPHLRRRR_ 0 0 0 nc|ENSG00000143033|Q9Y483-2|MTF2;nc|ENSG00000143033|Q9Y483-3|MTF2;ENSG00000143033|ENST00000370298|MTF2;nc|ENSG00000143033|Q9Y483-4|MTF2 nc|ENSG00000143033|Q9Y483-2|MTF2 nc|ENSG00000143033|Q9Y483-2|MTF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 448.2689208984375 3 448.281211 1341.8218 NaN NaN NaN NaN NaN NaN NaN 60.491 1 61.231 60.731 61.731 0.7396 0 0 0 1.0034 1 27917 27917 2.8433 0 1 21998 3339 13866 13922 25643 25643 0.164565871705463 PAAKADLSL 9 Unmodified _PAAKADLSL_ 0 0 0 ENST00000460343.5_1_3:53267112-53267397:-|nuORF ENST00000460343.5_1_3:53267112-53267397:-|nuORF ENST00000460343.5_1_3:53267112-53267397:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 442.98260498046875 2 443.255643 884.496732 NaN NaN NaN NaN NaN NaN NaN 61.906 1 61.906 61.406 62.406 0 0 0 0 0.82031 1 28942 28942 8.5933 0 1 21999 8071 13867 13923 25644 25644 0.04986382523202337 PAAKFCDKKY 10 Unmodified _PAAKFCDKKY_ 0 0 0 REV__nc|ENSG00000232656|Q9NZ38|IDI2-AS1 REV__nc|ENSG00000232656|Q9NZ38|IDI2-AS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.8425903320312 2 585.802434 1169.59032 NaN NaN NaN NaN NaN NaN NaN 67.7 1 68.402 67.902 68.902 0.70218 0 0 0 0.99687 1 32218 32218 4.3292 0.73274 1 + 22000 18146 13868 13924 25645 25645 0.012303586339612593 PAAKGFTEYH 10 Unmodified _PAAKGFTEYH_ 0 0 0 REV__ENSG00000108622|ENST00000579788|ICAM2 REV__ENSG00000108622|ENST00000579788|ICAM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.8349609375 2 560.774731 1119.53491 NaN NaN NaN NaN NaN NaN NaN 70.829 1 71.533 71.033 72.033 0.70386 0 0 0 0.98866 1 33972 33972 7.2892 0.56607 1 + 22001 11152 13869 13925 25646 25646 -0.020077315621620073 PAAKILQTKKL 11 Unmodified _PAAKILQTKKL_ 0 0 0 REV__ENSG00000125445|ENST00000245539|MRPS7 REV__ENSG00000125445|ENST00000245539|MRPS7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 605.786376953125 2 605.897723 1209.78089 NaN NaN NaN NaN NaN NaN NaN 65.394 1 65.394 64.894 65.894 0 0 0 0 0.97845 1 31154 31154 8.7454 0 1 + 22002 11679 13870 13926 25647 25647 0.1843938828769751 PAAKILQTKKL 11 Unmodified _PAAKILQTKKL_ 0 0 0 REV__ENSG00000125445|ENST00000245539|MRPS7 REV__ENSG00000125445|ENST00000245539|MRPS7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 605.9576416015625 2 605.897723 1209.78089 NaN NaN NaN NaN NaN NaN NaN 96.728 1 97.006 96.506 97.506 0.27778 0 0 0 1.0055 1 44441 44441 3.5965 2.1146 1 + 22003 11679 13870 13926 25648 25648 0.1843938828769751 PAAKKAKTVK 10 Unmodified _PAAKKAKTVK_ 0 0 0 REV__ENSG00000124575|ENST00000244534|H1-3 REV__ENSG00000124575|ENST00000244534|H1-3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.3861083984375 2 521.342584 1040.67061 NaN NaN NaN NaN NaN NaN NaN 62.264 1 62.994 62.494 63.494 0.73077 0 0 0 0.92641 1 28999 28999 17.113 0.96379 1 + 22004 11661 13871 13927 25649 25649 0.15190588019322604 PAAKKALDQL 10 Unmodified _PAAKKALDQL_ 0 0 0 REV__ENSG00000121892|ENST00000303538|PDS5A REV__ENSG00000121892|ENST00000303538|PDS5A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.3971557617188 2 527.816399 1053.61824 NaN NaN NaN NaN NaN NaN NaN 67.138 1 67.138 66.638 67.638 0 0 0 0 0.91986 1 32139 32139 18.146 8.0724 1 + 22005 11566 13872 13928 25650 25650 0.09358004885712035 PAAKKALDQLK 11 Unmodified _PAAKKALDQLK_ 0 0 0 REV__ENSG00000121892|ENST00000303538|PDS5A REV__ENSG00000121892|ENST00000303538|PDS5A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.9371337890625 2 591.86388 1181.71321 NaN NaN NaN NaN NaN NaN NaN 79.178 1 79.429 78.929 79.929 0.25127 0 0 0 1.0034 1 36461 36461 6.2058 1.8765 1 + 22006 11566 13873 13929 25651 25651 0.1296193835687518 PAAKKHALF 9 Unmodified _PAAKKHALF_ 0 0 0 REV__CON__Q3SZ57 REV__CON__Q3SZ57 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7460632324219 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 72.846 1 73.51 73.01 74.01 0.66398 0 0 0 0.82031 1 33449 33449 8.5933 0 1 + + 22007 10095 13874 13930 25652 25652 0.08446074267988024 PAAKKIKRV 9 Unmodified _PAAKKIKRV_ 0 0 0 ENST00000592345.5_1_18:14057475-14077513:-|nuORF;ENST00000589203.5_2_18:14077183-14077513:-|nuORF ENST00000592345.5_1_18:14057475-14077513:-|nuORF ENST00000592345.5_1_18:14057475-14077513:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.8458557128906 2 505.845294 1009.67603 NaN NaN NaN NaN NaN NaN NaN 79.311 1 79.562 79.062 80.062 0.25127 0 0 0 0.89315 1 36522 36522 5.2307 2.9279 1 22008 9215 13875 13931 25653 25653 0.17158311601804144 PAAKKKYVSY 10 Unmodified _PAAKKKYVSY_ 0 0 0 ENSG00000196277|ENST00000357716|GRM7 ENSG00000196277|ENST00000357716|GRM7 ENSG00000196277|ENST00000357716|GRM7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.8284912109375 2 577.832049 1153.64954 NaN NaN NaN NaN NaN NaN NaN 66.943 1 67.648 67.148 68.148 0.7047 0 0 0 0.98866 1 31765 31765 7.2892 0.56607 1 22009 5730 13876 13932 25654 25654 0.07886577919794036 PAAKKPKVVKP 11 Unmodified _PAAKKPKVVKP_ 0 0 0 REV__ENSG00000187837|ENST00000343677|H1-2 REV__ENSG00000187837|ENST00000343677|H1-2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.8872680664062 2 581.887158 1161.75976 NaN NaN NaN NaN NaN NaN NaN 71.183 1 71.183 70.683 71.683 0 0 0 0 1.0071 1 34592 34592 1.4819 0.79152 1 + 22010 14119 13877 13933 25655 25655 0.1853542297885724 PAAKKQEKQKD 11 Unmodified _PAAKKQEKQKD_ 0 0 0 nc|ENSG00000110172|Q9UHD1-2|CHORDC1;ENSG00000110172|ENST00000320585|CHORDC1 nc|ENSG00000110172|Q9UHD1-2|CHORDC1 nc|ENSG00000110172|Q9UHD1-2|CHORDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 635.8598022460938 2 635.859326 1269.7041 NaN NaN NaN NaN NaN NaN NaN 68.577 1 68.577 68.077 69.077 0 0 0 0 1.0071 1 33030 33030 1.4819 0 1 22011 1703 13878 13934 25656 25656 0.08003545000565282 PAAKKQKLSS 10 Unmodified _PAAKKQKLSS_ 0 0 0 EED|p.W73Lfs*17|1|0.08|ENSG00000074266|chr11:86250398-86250399|-/TACATGAAACA|frameshift_variant;ENST00000525244.5_1_11:85956313-85988207:+|nuORF;nc|ENSG00000074266|O75530-3|EED;ENSG00000074266|ENST00000263360|EED;nc|ENSG00000074266|O75530-2|EED EED|p.W73Lfs*17|1|0.08|ENSG00000074266|chr11:86250398-86250399|-/TACATGAAACA|frameshift_variant EED|p.W73Lfs*17|1|0.08|ENSG00000074266|chr11:86250398-86250399|-/TACATGAAACA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.3250732421875 2 529.321848 1056.62914 NaN NaN NaN NaN NaN NaN NaN 63.279 1 63.279 62.779 63.779 0 0 0 0 0.93443 1 29756 29756 15.847 4.2069 1 22012 287 13879 13935 25657 25657 0.10309407260001535 PAAKKQKLSS 10 Unmodified _PAAKKQKLSS_ 0 0 0 EED|p.W73Lfs*17|1|0.08|ENSG00000074266|chr11:86250398-86250399|-/TACATGAAACA|frameshift_variant;ENST00000525244.5_1_11:85956313-85988207:+|nuORF;nc|ENSG00000074266|O75530-3|EED;ENSG00000074266|ENST00000263360|EED;nc|ENSG00000074266|O75530-2|EED EED|p.W73Lfs*17|1|0.08|ENSG00000074266|chr11:86250398-86250399|-/TACATGAAACA|frameshift_variant EED|p.W73Lfs*17|1|0.08|ENSG00000074266|chr11:86250398-86250399|-/TACATGAAACA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.6035766601562 2 529.321848 1056.62914 NaN NaN NaN NaN NaN NaN NaN 65.994 1 65.994 65.494 66.494 0 0 0 0 0.96627 1 31481 31481 10.824 1.28 1 22013 287 13879 13935 25658 25658 0.10309407260001535 PAAKKRKCP 9 Unmodified _PAAKKRKCP_ 0 0 0 ENST00000466974.5_1_20:5919183-5921791:-|nuORF;nc|ENSG00000089195|Q9UJA5-4|TRMT6;ENSG00000089195|ENST00000203001|TRMT6 ENST00000466974.5_1_20:5919183-5921791:-|nuORF ENST00000466974.5_1_20:5919183-5921791:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.65924072265625 2 499.800029 997.585505 NaN NaN NaN NaN NaN NaN NaN 67.128 1 67.831 67.331 68.331 0.70218 0 0 0 0.56337 1 31867 31867 16.942 3.0362 1 22014 1038 13880 13936 25659 25659 0.08661519281861274 PAAKLKRAP 9 Unmodified _PAAKLKRAP_ 0 0 0 REV__nc|ENSG00000154928|P54762-6|EPHB1 REV__nc|ENSG00000154928|P54762-6|EPHB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 476.4891357421875 2 476.308544 950.602535 NaN NaN NaN NaN NaN NaN NaN 72.56 1 73.264 72.764 73.764 0.70386 0 0 0 0.89315 1 34939 34939 5.2307 0 1 + 22015 17989 13881 13937 25660 25660 0.12525763159317194 PAAKLSDRPL 10 Unmodified _PAAKLSDRPL_ 0 0 0 REV__ENST00000571759.1_1_16:70721833-70722010:-|nuORF REV__ENST00000571759.1_1_16:70721833-70722010:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 534.58056640625 2 534.314023 1066.61349 NaN NaN NaN NaN NaN NaN NaN 72.098 1 72.357 71.857 72.857 0.25876 0 0 0 0.98866 1 33091 33091 7.2892 0 1 + 22016 17453 13882 13938 25661 25661 0.08285120742925756 PAAKNHMAM 9 Unmodified _PAAKNHMAM_ 0 0 0 REV__nc|ENSG00000163875|Q9HAF1-2|MEAF6 REV__nc|ENSG00000163875|Q9HAF1-2|MEAF6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.7641296386719 2 485.733497 969.452441 NaN NaN NaN NaN NaN NaN NaN 71.176 1 71.176 70.676 71.676 0 0 0 0 0.82031 1 34587 34587 8.5933 0.68312 1 + 22017 13039 13883 13939 25662 25662 -0.03350668166297055 PAAKPDPPAY 10 Unmodified _PAAKPDPPAY_ 0 0 0 REV__ENSG00000283526|ENST00000636672|PRRT1B REV__ENSG00000283526|ENST00000636672|PRRT1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.5609130859375 2 513.766374 1025.5182 NaN NaN NaN NaN NaN NaN NaN 70.502 1 70.502 70.002 71.002 0 0 0 0 0.96109 1 34219 34219 11.64 2.2929 1 + 22018 14767 13884 13940 25663 25663 0.0064576755189591495 PAAKRFGCP 9 Unmodified _PAAKRFGCP_ 0 0 0 REV__ENST00000536901.1_1_4:1720289-1722919:-|nuORF REV__ENST00000536901.1_1_4:1720289-1722919:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.7566833496094 2 473.750005 945.485456 NaN NaN NaN NaN NaN NaN NaN 66.993 1 67.698 67.198 68.198 0.7047 0 0 0 0.69911 1 31795 31795 12.532 0.89125 1 + 22019 15208 13885 13941 25664 25664 0.010532819480658873 PAAKRKKR 8 Unmodified _PAAKRKKR_ 0 0 0 REV__nc|ENSG00000187783|A0PK05-2|TMEM72 REV__nc|ENSG00000187783|A0PK05-2|TMEM72 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.8177185058594 2 477.81961 953.624667 NaN NaN NaN NaN NaN NaN NaN 62.426 1 62.426 61.926 62.926 0 0 0 0 0.99035 1 29258 29258 6.3541 0 1 + 22020 14115 13886 13942 25665 25665 0.14599987627752853 PAAKRRKTDTK 11 Unmodified _PAAKRRKTDTK_ 0 0 0 ENSG00000284373|ENST00000639081|TAF11L2 ENSG00000284373|ENST00000639081|TAF11L2 ENSG00000284373|ENST00000639081|TAF11L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 636.4799194335938 2 636.38076 1270.74697 NaN NaN NaN NaN NaN NaN NaN 78.434 1 78.898 78.398 79.398 0.4642 0 0 0 1.0055 1 38137 38137 3.5965 0 1 22021 6374 13887 13943 25666 25666 0.12242359848642081 PAAKRRRKI 9 Unmodified _PAAKRRRKI_ 0 0 0 REV__ENSG00000092978|ENST00000366935|GPATCH2 REV__ENSG00000092978|ENST00000366935|GPATCH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.5875854492188 2 548.364716 1094.71488 NaN NaN NaN NaN NaN NaN NaN 90.946 1 91.021 90.521 91.521 0.075279 0 0 0 0.89315 1 46993 46993 5.2307 0.47466 1 + 22022 10750 13888 13944 25667 25667 0.17131036956175194 PAAKRRRKI 9 Unmodified _PAAKRRRKI_ 0 0 0 REV__ENSG00000092978|ENST00000366935|GPATCH2 REV__ENSG00000092978|ENST00000366935|GPATCH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.023681640625 2 548.364716 1094.71488 NaN NaN NaN NaN NaN NaN NaN 81.198 1 81.446 80.946 81.946 0.24803 0 0 0 0.90511 1 37385 37385 2.3027 0.65011 1 + 22023 10750 13888 13944 25668 25668 0.17131036956175194 PAAKRRRKI 9 Unmodified _PAAKRRRKI_ 0 0 0 REV__ENSG00000092978|ENST00000366935|GPATCH2 REV__ENSG00000092978|ENST00000366935|GPATCH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.3662109375 2 548.364716 1094.71488 NaN NaN NaN NaN NaN NaN NaN 75.665 1 76.33 75.83 76.83 0.6644 0 0 0 0.7971 1 34864 34864 9.3474 3.1417 1 + 22024 10750 13888 13944 25669 25669 0.17131036956175194 PAAKSWEEHL 10 Unmodified _PAAKSWEEHL_ 0 0 0 REV__nc|ENSG00000171617|O14682-2|ENC1 REV__nc|ENSG00000171617|O14682-2|ENC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.2935791015625 2 584.293288 1166.57202 NaN NaN NaN NaN NaN NaN NaN 83.143 1 83.143 82.643 83.643 0 0 0 0 0.99225 1 41815 41815 6.7232 2.3939 1 + 22025 13507 13889 13945 25670 25670 -0.004600600163712443 PAAKSWEEHLT 11 Unmodified _PAAKSWEEHLT_ 0 0 0 REV__nc|ENSG00000171617|O14682-2|ENC1 REV__nc|ENSG00000171617|O14682-2|ENC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 634.8146362304688 2 634.817127 1267.6197 NaN NaN NaN NaN NaN NaN NaN 67.567 1 68.27 67.77 68.77 0.70218 0 0 0 1.0034 1 32146 32146 6.2058 2.2614 1 + 22026 13507 13890 13946 25671 25671 -0.003404058161777357 PAAKVVPNLIV 11 Unmodified _PAAKVVPNLIV_ 0 0 0 REV__nc|ENSG00000168026|Q8NDW8-6|TTC21A REV__nc|ENSG00000168026|Q8NDW8-6|TTC21A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.8600463867188 2 560.858067 1119.70158 NaN NaN NaN NaN NaN NaN NaN 95.995 1 96.603 96.103 97.103 0.60769 0 0 0 1.0055 1 44141 44141 3.5965 0 1 + 22027 13324 13891 13947 25672 25672 0.1465174133356868 PAALDERFD 9 Unmodified _PAALDERFD_ 0 0 0 REV__MMP21|p.S512Efs*21|1|0.04|ENSG00000154485|chr10:125766838-125766839|-/CTTC|frameshift_variant REV__MMP21|p.S512Efs*21|1|0.04|ENSG00000154485|chr10:125766838-125766839|-/CTTC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.9322509765625 2 517.251089 1032.48762 NaN NaN NaN NaN NaN NaN NaN 73.27 1 73.934 73.434 74.434 0.66398 0 0 0 0.89315 1 33665 33665 5.2307 0 1 + 22028 12709 13892 13948 25673 25673 -0.027320108331196025 PAALEKRRRRK 11 Unmodified _PAALEKRRRRK_ 0 0 0 ENSG00000148296|ENST00000372022|SURF6;ENST00000468290.1_1_9:136198707-136199617:-|nuORF ENSG00000148296|ENST00000372022|SURF6 ENSG00000148296|ENST00000372022|SURF6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 690.9367065429688 2 690.936568 1379.85858 NaN NaN NaN NaN NaN NaN NaN 67.548 1 67.548 67.048 68.048 0 0 0 0 1.0041 1 32425 32425 5.2969 2.0156 1 22029 3596 13893 13949 25674 25674 0.18384838996439612 PAALFPTWKEV 11 Unmodified _PAALFPTWKEV_ 0 0 0 ENSG00000176092|ENST00000308182|CRYBG2 ENSG00000176092|ENST00000308182|CRYBG2 ENSG00000176092|ENST00000308182|CRYBG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 629.4912109375 2 629.845156 1257.67576 NaN NaN NaN NaN NaN NaN NaN 63.598 1 63.598 63.098 64.098 0 0 0 0 1.0055 1 29941 29941 3.5965 0 1 22030 5063 13894 13950 25675 25675 0.057228470912377816 PAALFTRKPR 10 Unmodified _PAALFTRKPR_ 0 0 0 REV__ENST00000295951.7_1_3:57742468-57743248:+|nuORF REV__ENST00000295951.7_1_3:57742468-57743248:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.7650146484375 2 578.851107 1155.68766 NaN NaN NaN NaN NaN NaN NaN 78.569 1 79.231 78.731 79.731 0.66198 0 0 0 0.99687 1 36206 36206 4.3292 0.73274 1 + 22031 15143 13895 13951 25676 25676 0.11604508625100607 PAALGAAPALR 11 Unmodified _PAALGAAPALR_ 0 0 0 REV__ENST00000283635.7_2_2:87016528-87018429:-|nuORF REV__ENST00000283635.7_2_2:87016528-87018429:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.71661376953125 2 504.303458 1006.59236 NaN NaN NaN NaN NaN NaN NaN 76.517 1 77.141 76.641 77.641 0.62397 0 0 0 0.87973 1 37093 37093 18.146 4.2403 1 + 22032 15099 13896 13952 25677 25677 0.0893315543406743 PAALGSRRSP 10 Unmodified _PAALGSRRSP_ 0 0 0 ENST00000257359.6_1_11:130297588-130298293:-|nuORF ENST00000257359.6_1_11:130297588-130298293:-|nuORF ENST00000257359.6_1_11:130297588-130298293:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.28924560546875 2 506.28834 1010.56213 NaN NaN NaN NaN NaN NaN NaN 90.237 1 90.301 89.801 90.801 0.064346 0 0 0 0.9754 1 46452 46452 9.3831 0 1 22033 6528 13897 13953 25678 25678 0.05726796768908571 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.82232666015625 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 61.111 1 61.111 60.611 61.611 0 0 0 0 0.89315 1 28480 28480 5.2307 0 1 22034 3394 13898 13954 25679 25679 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.8258972167969 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 61.141 1 61.141 60.641 61.641 0 0 0 0 0.84134 1 28494 28494 7.9102 0 1 22035 3394 13898 13954 25680 25680 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.8232727050781 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 69.386 1 69.386 68.886 69.886 0 0 0 0 0.89315 1 33501 33501 5.2307 0 1 22036 3394 13898 13954 25681 25681 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.78924560546875 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 70.375 1 70.375 69.875 70.875 0 0 0 0 0.89315 1 34139 34139 5.2307 0 1 22037 3394 13898 13954 25682 25682 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.8229675292969 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 71.817 1 71.817 71.317 72.317 0 0 0 0 0.89315 1 34913 34913 5.2307 0 1 22038 3394 13898 13954 25683 25683 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.8242492675781 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 74.079 1 74.079 73.579 74.579 0 0 0 0 0.89315 1 36153 36153 5.2307 0 1 22039 3394 13898 13954 25684 25684 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.82611083984375 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 74.468 1 74.468 73.968 74.968 0 0 0 0 0.89315 1 36378 36378 5.2307 0 1 22040 3394 13898 13954 25685 25685 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.8243103027344 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 75.59 1 75.59 75.09 76.09 0 0 0 0 0.89315 1 37041 37041 5.2307 0 1 22041 3394 13898 13954 25686 25686 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.82330322265625 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 77.873 1 77.873 77.373 78.373 0 0 0 0 0.89315 1 38213 38213 5.2307 0 1 22042 3394 13898 13954 25687 25687 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.823486328125 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 78.007 1 78.007 77.507 78.507 0 0 0 0 0.89315 1 38288 38288 5.2307 0 1 22043 3394 13898 13954 25688 25688 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.8249816894531 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 81.673 1 81.673 81.173 82.173 0 0 0 0 0.90511 1 40713 40713 2.3027 0 1 22044 3394 13898 13954 25689 25689 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.8453674316406 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 65.168 1 65.877 65.377 66.377 0.70891 0 0 0 0.89315 1 30782 30782 5.2307 0 1 22045 3394 13898 13954 25690 25690 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.8239440917969 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 70.173 1 70.876 70.376 71.376 0.70302 0 0 0 0.89315 1 33614 33614 5.2307 0 1 22046 3394 13898 13954 25691 25691 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.8233337402344 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 74.699 1 75.386 74.886 75.886 0.68662 0 0 0 0.89315 1 36109 36109 5.2307 0 1 22047 3394 13898 13954 25692 25692 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.8240661621094 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 76.965 1 77.589 77.089 78.089 0.62397 0 0 0 0.89315 1 37318 37318 5.2307 0 1 22048 3394 13898 13954 25693 25693 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.82373046875 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 80.708 1 80.876 80.376 81.376 0.16862 0 0 0 0.89315 1 39568 39568 5.2307 0 1 22049 3394 13898 13954 25694 25694 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 477.8242492675781 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 76.414 1 76.669 76.169 77.169 0.25533 0 0 0 0.89315 1 35181 35181 5.2307 0 1 22050 3394 13898 13954 25695 25695 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 477.8245544433594 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 76.539 1 76.794 76.294 77.294 0.25533 0 0 0 0.89315 1 35240 35240 5.2307 0 1 22051 3394 13898 13954 25696 25696 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 477.8241271972656 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 78.942 1 79.193 78.693 79.693 0.25127 0 0 0 0.89315 1 36353 36353 5.2307 0 1 22052 3394 13898 13954 25697 25697 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.8214111328125 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 73.59 1 74.255 73.755 74.755 0.6644 0 0 0 0.84134 1 33827 33827 7.9102 0 1 22053 3394 13898 13954 25698 25698 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.824462890625 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 74.246 1 74.91 74.41 75.41 0.6644 0 0 0 0.89315 1 34171 34171 5.2307 0 1 22054 3394 13898 13954 25699 25699 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.8240966796875 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 74.78 1 75.444 74.944 75.944 0.6644 0 0 0 0.89315 1 34434 34434 5.2307 0 1 22055 3394 13898 13954 25700 25700 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.8243103027344 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 75.342 1 76.006 75.506 76.506 0.6644 0 0 0 0.89315 1 34707 34707 5.2307 0 1 22056 3394 13898 13954 25701 25701 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.8245849609375 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 75.965 1 76.628 76.128 77.128 0.66387 0 0 0 0.89315 1 34996 34996 5.2307 0 1 22057 3394 13898 13954 25702 25702 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.82464599609375 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 76.686 1 77.35 76.85 77.85 0.66387 0 0 0 0.89315 1 35333 35333 5.2307 0 1 22058 3394 13898 13954 25703 25703 0.14868398242049352 PAALKKTLL 9 Unmodified _PAALKKTLL_ 0 0 0 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 ENSG00000143811|ENST00000343818|PYCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.82427978515625 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 77.113 1 77.776 77.276 78.276 0.66303 0 0 0 0.89315 1 35536 35536 5.2307 0 1 22059 3394 13898 13954 25704 25704 0.14868398242049352 PAALKPIPIQ 10 Unmodified _PAALKPIPIQ_ 0 0 0 REV__ENST00000573134.1_1_18:2539001-2552773:-|nuORF REV__ENST00000573134.1_1_18:2539001-2552773:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.3296508789062 2 524.331685 1046.64882 NaN NaN NaN NaN NaN NaN NaN 67.006 1 67.006 66.506 67.506 0 0 0 0 0.99687 1 32066 32066 4.3292 0.38484 1 + 22060 10902 13899 13955 25705 25705 0.1273578327075029 PAALLLLLLP 10 Unmodified _PAALLLLLLP_ 0 0 0 REV__ENSG00000166033|ENST00000368984|HTRA1;REV__ENSG00000016402|ENST00000316649|IL20RA REV__ENSG00000166033|ENST00000368984|HTRA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.2382507324219 3 345.238844 1032.6947 NaN NaN NaN NaN NaN NaN NaN 35.782 1 35.782 35.282 36.282 0 0 0 0 1.0011 1 16237 16237 0.77653 0 1 + 22061 13206;10257 13900 13956 25706 25706 0.17966428452996297 PAALLLLLLP 10 Unmodified _PAALLLLLLP_ 0 0 0 REV__ENSG00000166033|ENST00000368984|HTRA1;REV__ENSG00000016402|ENST00000316649|IL20RA REV__ENSG00000166033|ENST00000368984|HTRA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 345.2393493652344 3 345.238844 1032.6947 NaN NaN NaN NaN NaN NaN NaN 33.014 1 33.802 33.302 34.302 0.78795 0 0 0 1.0011 1 14936 14936 0.77653 0 1 + 22062 13206;10257 13900 13956 25707 25707 0.17966428452996297 PAALLLLLLP 10 Unmodified _PAALLLLLLP_ 0 0 0 REV__ENSG00000166033|ENST00000368984|HTRA1;REV__ENSG00000016402|ENST00000316649|IL20RA REV__ENSG00000166033|ENST00000368984|HTRA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 345.55963134765625 3 345.238844 1032.6947 NaN NaN NaN NaN NaN NaN NaN 34.61 1 35.399 34.899 35.899 0.78921 0 0 0 1.0011 1 15678 15678 0.77653 0 1 + 22063 13206;10257 13900 13956 25708 25708 0.17966428452996297 PAALLRSVRRL 11 Unmodified _PAALLRSVRRL_ 0 0 0 ENSG00000131242|ENST00000621161|RAB11FIP4 ENSG00000131242|ENST00000621161|RAB11FIP4 ENSG00000131242|ENST00000621161|RAB11FIP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 626.4064331054688 2 626.404038 1250.79352 NaN NaN NaN NaN NaN NaN NaN 75.631 1 76.296 75.796 76.796 0.6644 0 0 0 1.0055 1 34848 34848 3.5965 0.31518 1 22064 2649 13901 13957 25709 25709 0.17815844470601405 PAALPRERLDK 11 Unmodified _PAALPRERLDK_ 0 0 0 ENST00000543087.5_1_11:18512432-18536353:-|nuORF ENST00000543087.5_1_11:18512432-18536353:-|nuORF ENST00000543087.5_1_11:18512432-18536353:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3724365234375 2 633.369861 1264.72517 4.0646 0.0025744 -0.70728 -0.00044797 3.3573 0.0021264 633.369310370016 89.385 1.5481 90.063 89.107 90.655 0.67818 130 71 3 0 0 0 0.9102 1 40921 40921 1.4819 0.15237 1 1256400 22065 8823 13902 13958 25710 25710 0.1033955510006308 PAALPSKLLPL 11 Unmodified _PAALPSKLLPL_ 0 0 0 REV__ENSG00000089154|ENST00000300648|GCN1 REV__ENSG00000089154|ENST00000300648|GCN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.3179931640625 2 560.360442 1118.70633 NaN NaN NaN NaN NaN NaN NaN 72.392 1 73.095 72.595 73.595 0.70386 0 0 0 1.0055 1 34845 34845 3.5965 1.9439 1 + 22066 10691 13903 13959 25711 25711 0.15172625476338908 PAALPVLVKGP 11 Unmodified _PAALPVLVKGP_ 0 0 0 REV__nc|ENSG00000079432|Q96RK0-2|CIC REV__nc|ENSG00000079432|Q96RK0-2|CIC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.33935546875 2 531.33951 1060.66447 NaN NaN NaN NaN NaN NaN NaN 75.336 1 75.336 74.836 75.836 0 0 0 0 1.0055 1 36914 36914 3.5965 0.31518 1 + 22067 10581 13904 13960 25712 25712 0.13656069787816705 PAALPVLVKGP 11 Unmodified _PAALPVLVKGP_ 0 0 0 REV__nc|ENSG00000079432|Q96RK0-2|CIC REV__nc|ENSG00000079432|Q96RK0-2|CIC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.3389282226562 2 531.33951 1060.66447 NaN NaN NaN NaN NaN NaN NaN 75.435 1 75.435 74.935 75.935 0 0 0 0 1.0055 1 36965 36965 3.5965 1.2938 1 + 22068 10581 13904 13960 25713 25713 0.13656069787816705 PAALPVPRPG 10 Unmodified _PAALPVPRPG_ 0 0 0 ENST00000451794.5_1_2:97166351-97166474:-|nuORF ENST00000451794.5_1_2:97166351-97166474:-|nuORF ENST00000451794.5_1_2:97166351-97166474:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.79412841796875 2 487.792727 973.5709 NaN NaN NaN NaN NaN NaN NaN 75.912 1 76.575 76.075 77.075 0.66387 0 0 0 0.98866 1 34971 34971 7.2892 0 1 22069 8020 13905 13961 25714 25714 0.08305770405377189 PAALQTHMVHC 11 Unmodified _PAALQTHMVHC_ 0 0 0 ENST00000541377.5_1_2:122363504-122363705:-|nuORF ENST00000541377.5_1_2:122363504-122363705:-|nuORF ENST00000541377.5_1_2:122363504-122363705:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 604.2882080078125 2 604.289168 1206.56378 NaN NaN NaN NaN NaN NaN NaN 73.184 1 73.443 72.943 73.943 0.25876 0 0 0 1.0055 1 33608 33608 3.5965 0 1 22070 8809 13906 13962 25715 25715 -0.031236535289963285 PAALREWGRCQ 11 Unmodified _PAALREWGRCQ_ 0 0 0 nc|ENSG00000165801|Q8TER5-4|ARHGEF40;nc|ENSG00000165801|Q8TER5-3|ARHGEF40;ENSG00000165801|ENST00000298694|ARHGEF40;ENST00000555232.5_1_14:21549679-21554039:+|nuORF;ENST00000554514.1_1_14:21549058-21555515:+|nuORF;nc|ENSG00000165801|Q8TER5-2|ARHGEF40 nc|ENSG00000165801|Q8TER5-4|ARHGEF40 nc|ENSG00000165801|Q8TER5-4|ARHGEF40 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 643.8232421875 2 643.824763 1285.63497 NaN NaN NaN NaN NaN NaN NaN 105.61 1 106.21 105.71 106.71 0.59969 0 0 0 1.0055 1 48773 48773 3.5965 0.31518 1 22071 4422 13907 13963 25716 25716 0.003581825000082972 PAALRHTLL 9 Unmodified _PAALRHTLL_ 0 0 0 ENST00000526941.1_1_11:118402516-118402606:+|nuORF;ENST00000533587.5_1_11:118402516-118403175:+|nuORF;ENST00000525298.5_1_11:118402516-118403187:+|nuORF;nc|ENSG00000149582|Q86YD3-3|TMEM25;ENST00000529001.5_1_11:118402516-118404307:+|nuORF;nc|ENSG00000149582|Q86YD3-5|TMEM25;nc|ENSG00000149582|Q86YD3-2|TMEM25;nc|ENSG00000149582|Q86YD3-4|TMEM25;ENSG00000149582|ENST00000313236|TMEM25 ENST00000526941.1_1_11:118402516-118402606:+|nuORF ENST00000526941.1_1_11:118402516-118402606:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.3091735839844 2 496.306001 990.597449 NaN NaN NaN NaN NaN NaN NaN 75.928 1 76.592 76.092 77.092 0.66387 0 0 0 0.89315 1 34979 34979 5.2307 0.47466 1 22072 3649 13908 13964 25717 25717 0.10177459296698999 PAALRISQEHR 11 Unmodified _PAALRISQEHR_ 0 0 0 ENST00000426263.7_1_1:43392549-43392687:-|nuORF ENST00000426263.7_1_1:43392549-43392687:-|nuORF ENST00000426263.7_1_1:43392549-43392687:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 639.3577270507812 2 639.357285 1276.70002 NaN NaN NaN NaN NaN NaN NaN 78.959 1 79.211 78.711 79.711 0.25127 0 0 0 1.0055 1 36361 36361 3.5965 0 1 22073 7802 13909 13965 25718 25718 0.07273500297515056 PAALRLARL 9 Unmodified _PAALRLARL_ 0 0 0 ENSG00000261594|ENST00000562197|TPBGL ENSG00000261594|ENST00000562197|TPBGL ENSG00000261594|ENST00000562197|TPBGL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.8232727050781 2 490.821818 979.629084 NaN NaN NaN NaN NaN NaN NaN 82.545 1 82.629 82.129 83.129 0.084106 0 0 0 0.89315 1 40776 40776 5.2307 0 1 22074 6311 13910 13966 25719 25719 0.1384545205065706 PAALRLARLEQ 11 Unmodified _PAALRLARLEQ_ 0 0 0 ENSG00000261594|ENST00000562197|TPBGL ENSG00000261594|ENST00000562197|TPBGL ENSG00000261594|ENST00000562197|TPBGL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.3765258789062 2 619.372404 1236.73025 NaN NaN NaN NaN NaN NaN NaN 68.979 1 68.979 68.479 69.479 0 0 0 0 1.0046 1 33255 33255 9.3831 5.7866 1 22075 6311 13911 13967 25720 25720 0.12135858962687962 PAALRLLLLL 10 Unmodified _PAALRLLLLL_ 0 0 0 ENSG00000131477|ENST00000253796|RAMP2;nc|ENSG00000131477|O60895-2|RAMP2 ENSG00000131477|ENST00000253796|RAMP2 ENSG00000131477|ENST00000253796|RAMP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.8792724609375 2 546.878802 1091.74305 NaN NaN NaN NaN NaN NaN NaN 84.028 1 84.028 83.528 84.528 0 0 0 0 0.99687 1 42445 42445 4.3292 2.6766 1 22076 2663 13912 13968 25721 25721 0.200849220929058 PAALRPQERR 10 Unmodified _PAALRPQERR_ 0 0 0 REV__ENST00000420294.1_2_2:99529371-99552551:-|nuORF REV__ENST00000420294.1_2_2:99529371-99552551:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 597.3458862304688 2 597.34672 1192.67889 NaN NaN NaN NaN NaN NaN NaN 69.232 1 69.934 69.434 70.434 0.70218 0 0 0 0.99687 1 33117 33117 4.3292 0.38484 1 + 22077 16167 13913 13969 25722 25722 0.09025534988631989 PAALRRPK 8 Unmodified _PAALRRPK_ 0 0 0 REV__nc|ENSG00000038532|Q2KHT3-2|CLEC16A REV__nc|ENSG00000038532|Q2KHT3-2|CLEC16A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.8681335449219 2 454.793061 907.571569 NaN NaN NaN NaN NaN NaN NaN 67.279 1 67.981 67.481 68.481 0.70218 0 0 0 0.94507 1 31959 31959 9.3474 2.9933 1 + 22078 17858 13914 13970 25723 25723 0.11408609845079809 PAALRRVHVL 10 Unmodified _PAALRRVHVL_ 0 0 0 ENST00000254325.8_1_19:14073549-14074364:-|nuORF ENST00000254325.8_1_19:14073549-14074364:-|nuORF ENST00000254325.8_1_19:14073549-14074364:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.35107421875 2 566.359099 1130.70365 NaN NaN NaN NaN NaN NaN NaN 65.908 1 65.908 65.408 66.408 0 0 0 0 0.98473 1 31422 31422 7.9102 1.187 1 22079 6513 13915 13971 25724 25724 0.1435221486201499 PAALRYRKPRH 11 Unmodified _PAALRYRKPRH_ 0 0 0 ENST00000467101.5_1_20:60776592-60776751:+|nuORF ENST00000467101.5_1_20:60776592-60776751:+|nuORF ENST00000467101.5_1_20:60776592-60776751:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 682.904296875 2 682.904737 1363.79492 NaN NaN NaN NaN NaN NaN NaN 73.126 1 73.126 72.626 73.626 0 0 0 0 1.0034 1 35613 35613 6.2058 0.9089 1 22080 8143 13916 13972 25725 25725 0.12757478559365154 PAALSIRIP 9 Unmodified _PAALSIRIP_ 0 0 0 REV__ENST00000404008.6_1_7:6150774-6150897:+|nuORF REV__ENST00000404008.6_1_7:6150774-6150897:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.3157043457031 2 469.295102 936.575651 NaN NaN NaN NaN NaN NaN NaN 72.303 1 72.303 71.803 72.803 0 0 0 0 0.69911 1 35170 35170 12.532 0 1 + 22081 16060 13917 13973 25726 25726 0.10482654548115988 PAALSYTR 8 Unmodified _PAALSYTR_ 0 0 0 REV__ENST00000593460.1_1_19:18120971-18123772:+|nuORF REV__ENST00000593460.1_1_19:18120971-18123772:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 439.904541015625 2 439.74016 877.465767 NaN NaN NaN NaN NaN NaN NaN 63.191 1 63.914 63.414 64.414 0.72236 0 0 0 0.93233 1 29576 29576 10.183 0.83596 1 + 22082 17601 13918 13974 25727 25727 0.022132292089395378 PAALTGRRRRQ 11 Unmodified _PAALTGRRRRQ_ 0 0 0 ENST00000261951.8_1_5:179921647-179956302:+|nuORF;ENST00000393356.5_1_5:179921647-179922490:+|nuORF ENST00000261951.8_1_5:179921647-179956302:+|nuORF ENST00000261951.8_1_5:179921647-179956302:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.5492553710938 2 641.384168 1280.75378 4.135 0.0026521 1.0669 0.00068432 5.202 0.0033365 641.3848695874653 98.438 0.15962 99.037 98.914 99.074 0.59885 22 12 2 0 0 0 0.13295 1 45365 45365 2.9952 1.5133 1 2153700 22083 6566 13919 13975 25728 25728 0.12463717519881357 PAALVRGPVQ 10 Unmodified _PAALVRGPVQ_ 0 0 0 REV__ENST00000571503.1_2_17:79632233-79633555:-|nuORF REV__ENST00000571503.1_2_17:79632233-79633555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.3042907714844 2 504.303458 1006.59236 NaN NaN NaN NaN NaN NaN NaN 74.333 1 74.333 73.833 74.833 0 0 0 0 0.98866 1 36302 36302 7.2892 0 1 + 22084 17450 13920 13976 25729 25729 0.08933155434090168 PAALVVSKL 9 Unmodified _PAALVVSKL_ 0 0 0 ENSG00000084444|ENST00000197268|FAM234B ENSG00000084444|ENST00000197268|FAM234B ENSG00000084444|ENST00000197268|FAM234B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 449.1695861816406 2 449.292028 896.569503 NaN NaN NaN NaN NaN NaN NaN 67.94 1 67.94 67.44 68.44 0 0 0 0 0.89315 1 32657 32657 5.2307 0 1 22085 955 13921 13977 25730 25730 0.11708136316622131 PAAMELVLR 9 Unmodified _PAAMELVLR_ 0 0 0 KIF13A|p.S1698Yfs*5|1|0.23|ENSG00000137177|chr6:17764435-17764435|G/-|frameshift_variant;nc|ENSG00000137177|Q9H1H9-3|KIF13A;nc|ENSG00000137177|Q9H1H9-4|KIF13A;nc|ENSG00000137177|Q9H1H9-2|KIF13A;ENSG00000137177|ENST00000259711|KIF13A KIF13A|p.S1698Yfs*5|1|0.23|ENSG00000137177|chr6:17764435-17764435|G/-|frameshift_variant KIF13A|p.S1698Yfs*5|1|0.23|ENSG00000137177|chr6:17764435-17764435|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.2944641113281 2 500.28642 998.558287 NaN NaN NaN NaN NaN NaN NaN 73.511 1 73.77 73.27 74.27 0.25876 0 0 0 0.82031 1 33767 33767 8.5933 2.2392 1 22086 3001 13922 13978 25731 25731 0.058949909508328346 PAAMNSYPFVN 11 Unmodified _PAAMNSYPFVN_ 0 0 0 REV__ENST00000319888.10_1_18:2571274-2571358:-|nuORF REV__ENST00000319888.10_1_18:2571274-2571358:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 605.7571411132812 2 605.781699 1209.54884 NaN NaN NaN NaN NaN NaN NaN 91.277 1 91.529 91.029 92.029 0.25163 0 0 0 1.0055 1 41974 41974 3.5965 0 1 + 22087 15312 13923 13979 25732 25732 -0.04754822125346436 PAAMSWYEEF 10 Unmodified _PAAMSWYEEF_ 0 0 0 nc|ENSG00000159069|Q969U6-2|FBXW5;ENSG00000159069|ENST00000325285|FBXW5 nc|ENSG00000159069|Q969U6-2|FBXW5 nc|ENSG00000159069|Q969U6-2|FBXW5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 615.7614135742188 2 615.760432 1229.50631 NaN NaN NaN NaN NaN NaN NaN 72.813 1 73.072 72.572 73.572 0.25876 0 0 0 0.99687 1 33430 33430 4.3292 2.485 1 22088 4007 13924 13980 25733 25733 -0.09926217253610048 PAANDEDCMC 10 Unmodified _PAANDEDCMC_ 0 0 0 REV__ENSG00000172538|ENST00000311787|FAM170B REV__ENSG00000172538|ENST00000311787|FAM170B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 534.5401000976562 2 534.675185 1067.33582 NaN NaN NaN NaN NaN NaN NaN 92.598 1 92.684 92.184 93.184 0.086212 0 0 0 0.99687 1 48308 48308 4.3292 1.7518 1 + 22089 13553 13925 13981 25734 25734 -0.19515819239018128 PAANDEDCMCS 11 Unmodified _PAANDEDCMCS_ 0 0 0 REV__ENSG00000172538|ENST00000311787|FAM170B REV__ENSG00000172538|ENST00000311787|FAM170B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.2848510742188 2 578.191199 1154.36784 NaN NaN NaN NaN NaN NaN NaN 63.083 1 63.083 62.583 63.583 0 0 0 0 1.0055 1 29634 29634 3.5965 1.9439 1 + 22090 13553 13926 13982 25735 25735 -0.20316451555868298 PAANHIFSQPV 11 Unmodified _PAANHIFSQPV_ 0 0 0 R3HDM1|p.K852Nfs*16|1|0.31|ENSG00000048991|chr2:135710154-135710154|A/-|frameshift_variant;ENSG00000048991|ENST00000683871|R3HDM1 R3HDM1|p.K852Nfs*16|1|0.31|ENSG00000048991|chr2:135710154-135710154|A/-|frameshift_variant R3HDM1|p.K852Nfs*16|1|0.31|ENSG00000048991|chr2:135710154-135710154|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.8076782226562 2 590.809105 1179.60366 NaN NaN NaN NaN NaN NaN NaN 60.865 1 60.865 60.365 61.365 0 0 0 0 0.99968 1 28341 28341 6.7232 0 1 22091 573 13927 13983 25736 25736 0.021039327375319772 PAANKEQYEQ 10 Unmodified _PAANKEQYEQ_ 0 0 0 nc|ENSG00000148498|Q8TEW0-5|PARD3;nc|ENSG00000148498|Q8TEW0-3|PARD3;nc|ENSG00000148498|Q8TEW0-7|PARD3;nc|ENSG00000148498|Q8TEW0-6|PARD3;nc|ENSG00000148498|Q8TEW0-4|PARD3;nc|ENSG00000148498|Q8TEW0-11|PARD3;ENSG00000148498|ENST00000374788|PARD3;nc|ENSG00000148498|Q8TEW0|PARD3;nc|ENSG00000148498|Q8TEW0-9|PARD3;nc|ENSG00000148498|Q8TEW0-10|PARD3;nc|ENSG00000148498|Q8TEW0-8|PARD3 nc|ENSG00000148498|Q8TEW0-5|PARD3 nc|ENSG00000148498|Q8TEW0-5|PARD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.228515625 2 589.277835 1176.54112 NaN NaN NaN NaN NaN NaN NaN 73.758 1 73.758 73.258 74.258 0 0 0 0 0.99687 1 35985 35985 4.3292 0 1 22092 3608 13928 13984 25737 25737 -0.04009258121277526 PAANMEYMV 9 Unmodified _PAANMEYMV_ 0 0 0 ENSG00000101074|ENST00000217043|R3HDML;ENSG00000137558|ENST00000260113|PI15;PI15|p.D94Y|1|0.16|ENSG00000137558|chr8:74843987-74843987|G/T|missense_variant ENSG00000101074|ENST00000217043|R3HDML;PI15|p.D94Y|1|0.16|ENSG00000137558|chr8:74843987-74843987|G/T|missense_variant PI15|p.D94Y|1|0.16|ENSG00000137558|chr8:74843987-74843987|G/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.0930786132812 2 513.225171 1024.43579 NaN NaN NaN NaN NaN NaN NaN 67.151 1 67.151 66.651 67.651 0 0 0 0 0.82031 1 32146 32146 8.5933 1.304 1 22093 1260;9908 13929 13985 25738 25738 -0.07545213842900012 PAANMEYMVWD 11 Unmodified _PAANMEYMVWD_ 0 0 0 ENSG00000101074|ENST00000217043|R3HDML;ENSG00000137558|ENST00000260113|PI15 ENSG00000101074|ENST00000217043|R3HDML ENSG00000101074|ENST00000217043|R3HDML MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 442.85467529296875 3 442.854625 1325.54204 NaN NaN NaN NaN NaN NaN NaN 61.654 1 61.654 61.154 62.154 0 0 0 0 1.0055 1 28783 28783 1.4551 0.94916 1 22094 1260 13930 13986 25739 25739 -0.10770503068238213 PAANMEYMVWY 11 Unmodified _PAANMEYMVWY_ 0 0 0 PI15|p.D94Y|1|0.16|ENSG00000137558|chr8:74843987-74843987|G/T|missense_variant PI15|p.D94Y|1|0.16|ENSG00000137558|chr8:74843987-74843987|G/T|missense_variant PI15|p.D94Y|1|0.16|ENSG00000137558|chr8:74843987-74843987|G/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 687.8002319335938 2 687.796491 1373.57843 NaN NaN NaN NaN NaN NaN NaN 67.194 1 67.896 67.396 68.396 0.70218 0 0 0 1.0055 1 31901 31901 3.5965 0.60125 1 22095 9908 13931 13987 25740 25740 -0.09341626171521966 PAANPGPRR 9 Unmodified _PAANPGPRR_ 0 0 0 nc|ENSG00000137802|O60336-2|MAPKBP1;nc|ENSG00000137802|O60336-3|MAPKBP1;ENSG00000137802|ENST00000457542|MAPKBP1;nc|ENSG00000137802|O60336|MAPKBP1;nc|ENSG00000137802|O60336-4|MAPKBP1;ENST00000505061.5_1_15:42111671-42117631:+|nuORF nc|ENSG00000137802|O60336-2|MAPKBP1 nc|ENSG00000137802|O60336-2|MAPKBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 467.9012145996094 2 468.262125 934.509697 NaN NaN NaN NaN NaN NaN NaN 68.66 1 69.363 68.863 69.863 0.70218 0 0 0 0.82031 1 32759 32759 8.5933 1.304 1 22096 3041 13932 13988 25741 25741 0.039822584259468385 PAANSLPPI 9 Unmodified _PAANSLPPI_ 0 0 0 ENSG00000100393|ENST00000263253|EP300 ENSG00000100393|ENST00000263253|EP300 ENSG00000100393|ENST00000263253|EP300 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 440.1892395019531 2 440.25036 878.486168 NaN NaN NaN NaN NaN NaN NaN 62.019 1 62.019 61.519 62.519 0 0 0 0 0.82031 1 29015 29015 8.5933 2.2392 1 22097 1214 13933 13989 25742 25742 0.04206399868758126 PAANTYWLHWD 11 Unmodified _PAANTYWLHWD_ 0 0 0 REV__nc|ENSG00000183914|Q9P225-2|DNAH2 REV__nc|ENSG00000183914|Q9P225-2|DNAH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 687.2559204101562 2 687.317294 1372.62004 NaN NaN NaN NaN NaN NaN NaN 69.539 1 70.242 69.742 70.742 0.70302 0 0 0 1.0055 1 33286 33286 3.5965 0.60125 1 + 22098 13952 13934 13990 25743 25743 -0.05136986096340479 PAAPAAAETRA 11 Unmodified _PAAPAAAETRA_ 0 0 0 ENST00000464624.6_1_20:57428320-57466719:+|nuORF;nc|ENSG00000087460|Q5JWF2-3|GNAS;nc|ENSG00000087460|Q5JWF2-2|GNAS;nc|ENSG00000087460|Q5JWF2|GNAS ENST00000464624.6_1_20:57428320-57466719:+|nuORF ENST00000464624.6_1_20:57428320-57466719:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.4954833984375 2 513.272355 1024.53016 NaN NaN NaN NaN NaN NaN NaN 71.882 1 72.586 72.086 73.086 0.70386 0 0 0 0.90387 1 34556 34556 15.847 0 1 22099 8116 13935 13991 25744 25744 0.018873842950824837 PAAPAAAPPPP 11 Unmodified _PAAPAAAPPPP_ 0 0 0 ENSG00000130699|ENST00000252996|TAF4 ENSG00000130699|ENST00000252996|TAF4 ENSG00000130699|ENST00000252996|TAF4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.70751953125 2 478.763635 955.512717 NaN NaN NaN NaN NaN NaN NaN 63.993 1 63.993 63.493 64.493 0 0 0 0 0.90387 1 30210 30210 15.847 0 1 22100 2606 13936 13992 25745 25745 0.03318088760079263 PAAPAAASPRS 11 Unmodified _PAAPAAASPRS_ 0 0 0 ENST00000391945.8_1_19:45853735-45854056:-|nuORF ENST00000391945.8_1_19:45853735-45854056:-|nuORF ENST00000391945.8_1_19:45853735-45854056:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.1894226074219 2 498.267073 994.519593 NaN NaN NaN NaN NaN NaN NaN 67.183 1 67.885 67.385 68.385 0.70218 0 0 0 0.90387 1 31895 31895 15.847 3.3156 1 22101 7507 13937 13993 25746 25746 0.022114016406590054 PAAPAAHATPP 11 Unmodified _PAAPAAHATPP_ 0 0 0 ENST00000398136.6_2_11:102323274-102323652:-|nuORF ENST00000398136.6_2_11:102323274-102323652:-|nuORF ENST00000398136.6_2_11:102323274-102323652:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.7341003417969 2 500.764166 999.513779 NaN NaN NaN NaN NaN NaN NaN 64.505 1 64.505 64.005 65.005 0 0 0 0 0.95662 1 30576 30576 10.824 1.4765 1 22102 7589 13938 13994 25747 25747 0.01400303128991709 PAAPAAPQPR 10 Unmodified _PAAPAAPQPR_ 0 0 0 ENST00000359827.7_1_7:132261617-132261992:-|nuORF ENST00000359827.7_1_7:132261617-132261992:-|nuORF ENST00000359827.7_1_7:132261617-132261992:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 488.239501953125 2 488.272158 974.529764 NaN NaN NaN NaN NaN NaN NaN 66.581 1 66.581 66.081 67.081 0 0 0 0 0.91994 1 31840 31840 18.135 0 1 22103 7206 13939 13995 25748 25748 0.041480093658947226 PAAPAASAFGV 11 Unmodified _PAAPAASAFGV_ 0 0 0 nc|ENSG00000127084|Q5JSP0-2|FGD3 nc|ENSG00000127084|Q5JSP0-2|FGD3 nc|ENSG00000127084|Q5JSP0-2|FGD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 479.7253112792969 2 479.753267 957.491981 NaN NaN NaN NaN NaN NaN NaN 65.902 1 65.902 65.402 66.402 0 0 0 0 0.90387 1 31418 31418 15.847 3.3156 1 22104 9626 13940 13996 25749 25749 0.01153498380426754 PAAPACDPGC 10 Unmodified _PAAPACDPGC_ 0 0 0 REV__ENSG00000069696|ENST00000176183|DRD4 REV__ENSG00000069696|ENST00000176183|DRD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.0026550292969 2 451.180763 900.346973 NaN NaN NaN NaN NaN NaN NaN 74.029 1 74.288 73.788 74.788 0.25876 0 0 0 0.98473 1 34022 34022 7.9102 0.62092 1 + 22105 10470 13941 13997 25750 25750 -0.1071862908257799 PAAPACSCTD 10 Unmodified _PAAPACSCTD_ 0 0 0 REV__nc|ENSG00000127084|Q5JSP0-2|FGD3 REV__nc|ENSG00000127084|Q5JSP0-2|FGD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 468.1839599609375 2 468.183503 934.352453 NaN NaN NaN NaN NaN NaN NaN 68.797 1 68.797 68.297 69.297 0 0 0 0 0.95544 1 33147 33147 12.532 6.1774 1 + 22106 17923 13942 13998 25751 25751 -0.11734950290758661 PAAPACSCTDP 11 Unmodified _PAAPACSCTDP_ 0 0 0 REV__nc|ENSG00000127084|Q5JSP0-2|FGD3 REV__nc|ENSG00000127084|Q5JSP0-2|FGD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.9586791992188 2 516.709885 1031.40522 NaN NaN NaN NaN NaN NaN NaN 71.533 1 71.791 71.291 72.291 0.25786 0 0 0 0.95662 1 32770 32770 10.824 6.0679 1 + 22107 17923 13943 13999 25752 25752 -0.10922992227961004 PAAPADPDSG 10 Unmodified _PAAPADPDSG_ 0 0 0 ENST00000464624.6_1_20:57428320-57466719:+|nuORF;nc|ENSG00000087460|Q5JWF2-3|GNAS;nc|ENSG00000087460|Q5JWF2-2|GNAS;nc|ENSG00000087460|Q5JWF2|GNAS ENST00000464624.6_1_20:57428320-57466719:+|nuORF ENST00000464624.6_1_20:57428320-57466719:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 449.20306396484375 2 449.201064 896.387576 NaN NaN NaN NaN NaN NaN NaN 64.371 1 64.371 63.871 64.871 0 0 0 0 0.98473 1 30482 30482 7.9102 1.5561 1 22108 8116 13944 14000 25753 25753 -0.06476248166950427 PAAPAERPQSC 11 Unmodified _PAAPAERPQSC_ 0 0 0 ENST00000572135.5_1_17:1489074-1489206:-|nuORF ENST00000572135.5_1_17:1489074-1489206:-|nuORF ENST00000572135.5_1_17:1489074-1489206:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.5599975585938 2 563.769123 1125.52369 NaN NaN NaN NaN NaN NaN NaN 71.981 1 71.981 71.481 72.481 0 0 0 0 0.99968 1 34997 34997 6.7232 0 1 22109 9095 13945 14001 25754 25754 -0.034048769279252156 PAAPAESPY 9 Unmodified _PAAPAESPY_ 0 0 0 REV__ENST00000377102.5_1_13:80912972-80913233:-|nuORF REV__ENST00000377102.5_1_13:80912972-80913233:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.736083984375 2 451.71635 901.418148 NaN NaN NaN NaN NaN NaN NaN 66.014 1 66.014 65.514 66.514 0 0 0 0 0.63602 1 31493 31493 14.582 4.3983 1 + 22110 15831 13946 14002 25755 25755 -0.036504697819054854 PAAPAETKKP 10 Unmodified _PAAPAETKKP_ 0 0 0 REV__nc|ENSG00000176788|P80723-2|BASP1 REV__nc|ENSG00000176788|P80723-2|BASP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.75848388671875 2 505.287474 1008.5604 2.4594 0.0012427 -4.3278 -0.0021868 -1.8684 -0.00094409 505.28291808188646 69.045 0.020164 69.045 69.026 69.047 0 4 2 2 0 0 0 0.12676 1 33290 33290 12.532 5.8084 1 1376600 + 22111 13712 13947 14003 25756 25756 0.056457429602687625 PAAPAGSRATS 11 Unmodified _PAAPAGSRATS_ 0 0 0 ENSG00000261594|ENST00000562197|TPBGL ENSG00000261594|ENST00000562197|TPBGL ENSG00000261594|ENST00000562197|TPBGL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.98065185546875 2 493.256705 984.498858 NaN NaN NaN NaN NaN NaN NaN 60.159 1 60.908 60.408 61.408 0.74927 0 0 0 0.95662 1 27697 27697 10.824 0 1 22112 6311 13948 14004 25757 25757 0.0059881126099980975 PAAPAGSSNH 10 Unmodified _PAAPAGSSNH_ 0 0 0 ENST00000358600.7_1_19:14492235-14499295:+|nuORF ENST00000358600.7_1_19:14492235-14499295:+|nuORF ENST00000358600.7_1_19:14492235-14499295:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.71710205078125 2 454.714673 907.414794 NaN NaN NaN NaN NaN NaN NaN 63.55 1 63.55 63.05 64.05 0 0 0 0 0.95544 1 29911 29911 12.532 0 1 22113 7194 13949 14005 25758 25758 -0.04261719835915301 PAAPAHNSHVG 11 Unmodified _PAAPAHNSHVG_ 0 0 0 REV__ENST00000301459.4_1_11:63684068-63684296:-|nuORF REV__ENST00000301459.4_1_11:63684068-63684296:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.728515625 2 529.262322 1056.51009 NaN NaN NaN NaN NaN NaN NaN 68.393 1 68.393 67.893 68.893 0 0 0 0 0.95662 1 32926 32926 10.824 2.9138 1 + 22114 15191 13950 14006 25759 25759 -0.015903666448593867 PAAPALCAPT 10 Unmodified _PAAPALCAPT_ 0 0 0 REV__ENST00000313116.11_1_X:47326904-47327099:-|nuORF REV__ENST00000313116.11_1_X:47326904-47327099:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.19830322265625 2 456.236396 910.458238 NaN NaN NaN NaN NaN NaN NaN 65.436 1 65.436 64.936 65.936 0 0 0 0 0.98473 1 31181 31181 7.9102 0 1 + 22115 15276 13951 14007 25760 25760 -0.0005724638300534934 PAAPALLRP 9 Unmodified _PAAPALLRP_ 0 0 0 ENST00000525455.5_1_11:62529053-62530037:+|nuORF;ENST00000301788.11_1_11:62529053-62530368:+|nuORF;ENST00000524819.5_1_11:62529062-62529592:+|nuORF ENST00000525455.5_1_11:62529053-62530037:+|nuORF ENST00000525455.5_1_11:62529053-62530037:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 453.3580017089844 2 453.281995 904.549437 NaN NaN NaN NaN NaN NaN NaN 67.838 1 67.838 67.338 68.338 0 0 0 0 0.48654 1 32597 32597 19.439 0 1 22116 6806 13952 14008 25761 25761 0.09334385376655518 PAAPALLRPQL 11 Unmodified _PAAPALLRPQL_ 0 0 0 ENST00000525455.5_1_11:62529053-62530037:+|nuORF;ENST00000301788.11_1_11:62529053-62530368:+|nuORF;ENST00000524819.5_1_11:62529062-62529592:+|nuORF ENST00000525455.5_1_11:62529053-62530037:+|nuORF ENST00000525455.5_1_11:62529053-62530037:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.5919799804688 2 573.853316 1145.69208 NaN NaN NaN NaN NaN NaN NaN 68.774 1 69.476 68.976 69.976 0.70218 0 0 0 0.95662 1 32818 32818 10.824 2.2306 1 22117 6806 13953 14009 25762 25762 0.1250597304801886 PAAPANTLAI 10 Unmodified _PAAPANTLAI_ 0 0 0 nc|ENSG00000083067|Q9HCF6-8|TRPM3;nc|ENSG00000083067|Q9HCF6-4|TRPM3;nc|ENSG00000083067|Q9HCF6-2|TRPM3;nc|ENSG00000083067|Q9HCF6-5|TRPM3;TRPM3|p.R1670Qfs*33|1|0.32|ENSG00000083067|chr9:70536067-70536068|TC/-|frameshift_variant;nc|ENSG00000083067|Q9HCF6-6|TRPM3;ENSG00000083067|ENST00000677713|TRPM3;nc|ENSG00000083067|Q9HCF6-7|TRPM3;nc|ENSG00000083067|Q9HCF6|TRPM3;nc|ENSG00000083067|Q9HCF6-11|TRPM3 nc|ENSG00000083067|Q9HCF6-8|TRPM3 nc|ENSG00000083067|Q9HCF6-8|TRPM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.7688903808594 2 469.768917 937.523281 NaN NaN NaN NaN NaN NaN NaN 60.984 1 60.984 60.484 61.484 0 0 0 0 0.95544 1 28410 28410 12.532 0 1 22118 935 13954 14010 25763 25763 0.05202071414510101 PAAPAPAASVQ 11 Unmodified _PAAPAPAASVQ_ 0 0 0 REV__ENST00000440088.5_1_7:77288286-77288505:-|nuORF REV__ENST00000440088.5_1_7:77288286-77288505:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.34747314453125 2 490.263999 978.513445 NaN NaN NaN NaN NaN NaN NaN 67.257 1 67.257 66.757 67.757 0 0 0 0 0.95662 1 32216 32216 10.824 0 1 + 22119 16338 13955 14011 25764 25764 0.023328834091330464 PAAPAPPGFW 10 Unmodified _PAAPAPPGFW_ 0 0 0 REV__ENSG00000181291|ENST00000631683|TMEM132E REV__ENSG00000181291|ENST00000631683|TMEM132E MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.75848388671875 2 505.758352 1009.50215 NaN NaN NaN NaN NaN NaN NaN 69.04 1 69.04 68.54 69.54 0 0 0 0 0.95544 1 33290 33290 12.532 1.7076 1 + 22120 13850 13956 14012 25765 25765 -0.0022189389434288387 PAAPAPRRRA 10 Unmodified _PAAPAPRRRA_ 0 0 0 REV__ENST00000367178.7_2_6:155054552-155054825:+|nuORF REV__ENST00000367178.7_2_6:155054552-155054825:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.8200073242188 2 531.817599 1061.62064 3.4627 0.0018415 -0.94748 -0.00050389 2.5152 0.0013376 531.8170069126364 96.389 0.33358 96.997 96.779 97.113 0.60769 34 14 3 0 0 0 0.88655 1 44284 44284 4.3292 2.0265 1 1484900 + 22121 15652 13957 14013 25766 25766 0.09229898134049108 PAAPAPSQPG 10 Unmodified _PAAPAPSQPG_ 0 0 0 REV__ENSG00000182272|ENST00000329962|B4GALNT4 REV__ENSG00000182272|ENST00000329962|B4GALNT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 446.83831787109375 2 446.729792 891.445031 NaN NaN NaN NaN NaN NaN NaN 62.888 1 63.61 63.11 64.11 0.72236 0 0 0 0.95544 1 29401 29401 12.532 0 1 + 22122 13885 13958 14014 25767 25767 -0.005033611707062846 PAAPAPTRTA 10 Unmodified _PAAPAPTRTA_ 0 0 0 REV__ENST00000522223.1_7:102233482-102234290:-|nuORF REV__ENST00000522223.1_7:102233482-102234290:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 476.9137268066406 2 476.764166 951.513779 NaN NaN NaN NaN NaN NaN NaN 62.68 1 63.402 62.902 63.902 0.72236 0 0 0 0.95544 1 29275 29275 12.532 0 1 + 22123 17056 13959 14015 25768 25768 0.036083031289990686 PAAPAQSYTA 10 Unmodified _PAAPAQSYTA_ 0 0 0 nc|ENSG00000154133|Q8WZ75-3|ROBO4;nc|ENSG00000154133|Q8WZ75-2|ROBO4;ENSG00000154133|ENST00000306534|ROBO4 nc|ENSG00000154133|Q8WZ75-3|ROBO4 nc|ENSG00000154133|Q8WZ75-3|ROBO4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.97186279296875 2 488.740357 975.46616 NaN NaN NaN NaN NaN NaN NaN 74.794 1 75.458 74.958 75.958 0.6644 0 0 0 0.98473 1 34441 34441 7.9102 0 1 22124 3804 13960 14016 25769 25769 -0.02255395861868692 PAAPAQTLVPA 11 Unmodified _PAAPAQTLVPA_ 0 0 0 ENSG00000070444|ENST00000174618|MNT ENSG00000070444|ENST00000174618|MNT ENSG00000070444|ENST00000174618|MNT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.8228759765625 2 518.295299 1034.57605 NaN NaN NaN NaN NaN NaN NaN 73.083 1 73.747 73.247 74.247 0.66398 0 0 0 0.99968 1 33570 33570 6.7232 0 1 22125 764 13961 14017 25770 25770 0.060140294773418645 PAAPARRRL 9 Unmodified _PAAPARRRL_ 0 0 0 nc|ENSG00000105227|Q9BXM0-3|PRX;ENST00000291825.11_2_19:40899875-40904000:-|nuORF;ENSG00000105227|ENST00000324001|PRX nc|ENSG00000105227|Q9BXM0-3|PRX nc|ENSG00000105227|Q9BXM0-3|PRX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.1382751464844 2 504.314692 1006.61483 NaN NaN NaN NaN NaN NaN NaN 67.51 1 67.51 67.01 68.01 0 0 0 0 0.48654 1 32403 32403 19.439 5.9311 1 22126 1479 13962 14018 25771 25771 0.11178799622371116 PAAPARRRLQ 10 Unmodified _PAAPARRRLQ_ 0 0 0 nc|ENSG00000105227|Q9BXM0-3|PRX;ENST00000291825.11_2_19:40899875-40904000:-|nuORF;ENSG00000105227|ENST00000324001|PRX nc|ENSG00000105227|Q9BXM0-3|PRX nc|ENSG00000105227|Q9BXM0-3|PRX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.645263671875 2 568.343981 1134.67341 NaN NaN NaN NaN NaN NaN NaN 61.921 1 62.652 62.152 63.152 0.73077 0 0 0 0.98473 1 28785 28785 7.9102 1.187 1 22127 1479 13963 14019 25772 25772 0.11145856196844761 PAAPASHRHD 10 Unmodified _PAAPASHRHD_ 0 0 0 REV__nc|ENSG00000125386|P78312-3|FAM193A REV__nc|ENSG00000125386|P78312-3|FAM193A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.1414794921875 2 529.759946 1057.50534 NaN NaN NaN NaN NaN NaN NaN 72.507 1 73.211 72.711 73.711 0.70386 0 0 0 0.95544 1 34909 34909 12.532 0 1 + 22128 11678 13964 14020 25773 25773 -0.02111250787629615 PAAPASWEA 9 Unmodified _PAAPASWEA_ 0 0 0 REV__nc|ENSG00000139880|Q86UP0|CDH24 REV__nc|ENSG00000139880|Q86UP0|CDH24 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.21527099609375 2 450.216517 898.418482 NaN NaN NaN NaN NaN NaN NaN 67.593 1 68.295 67.795 68.795 0.70218 0 0 0 0.7971 1 32166 32166 9.3474 0 1 + 22129 17966 13965 14021 25774 25774 -0.034790500620488274 PAAPATREQRS 11 Unmodified _PAAPATREQRS_ 0 0 0 REV__ENSG00000181649|ENST00000314222|PHLDA2 REV__ENSG00000181649|ENST00000314222|PHLDA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 591.8601684570312 2 592.312543 1182.61053 NaN NaN NaN NaN NaN NaN NaN 105.87 1 106.47 105.97 106.97 0.59969 0 0 0 0.99968 1 48889 48889 6.7232 0 1 + 22130 13861 13966 14022 25775 25775 0.026532456181257658 PAAPATSPLLS 11 Unmodified _PAAPATSPLLS_ 0 0 0 ENST00000543103.1_1_16:57115217-57116437:+|nuORF ENST00000543103.1_1_16:57115217-57116437:+|nuORF ENST00000543103.1_1_16:57115217-57116437:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.814453125 2 512.787307 1023.56006 3.1458 0.0016131 -3.8657 -0.0019823 -0.71987 -0.00036914 513.2866626356032 71.712 0.016769 71.97 71.959 71.976 0.25785 4 2 2 0 0 0 0.13295 1 32884 32884 10.824 0.75 1 1579100 22131 8824 13967 14023 25776 25776 0.049223232404415285 PAAPDNYR 8 Unmodified _PAAPDNYR_ 0 0 0 REV__ENST00000561483.5_1_15:84323016-84694242:+|nuORF REV__ENST00000561483.5_1_15:84323016-84694242:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 452.4700012207031 2 452.219591 902.42463 NaN NaN NaN NaN NaN NaN NaN 63.978 1 64.693 64.193 65.193 0.71521 0 0 0 0.86524 1 30061 30061 14.582 2.0501 1 + 22132 12768 13968 14024 25777 25777 -0.03048531830529555 PAAPEEEE 8 Unmodified _PAAPEEEE_ 0 0 0 REV__ENSG00000109705|ENST00000382438|NKX3-2 REV__ENSG00000109705|ENST00000382438|NKX3-2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.42767333984375 2 436.187623 870.360692 NaN NaN NaN NaN NaN NaN NaN 64.857 1 65.572 65.072 66.072 0.71521 0 0 0 0.99035 1 30575 30575 6.3541 1.1234 1 + 22133 11176 13969 14025 25778 25778 -0.07967356778135581 PAAPFPGD 8 Unmodified _PAAPFPGD_ 0 0 0 REV__ENST00000565272.5_1_16:81789539-81800332:+|nuORF REV__ENST00000565272.5_1_16:81789539-81800332:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 771.36865234375 1 771.367181 770.359904 3.3487 0.002583 -1.1873 -0.00091584 2.1614 0.0016672 771.3665752647375 71.368 0.39243 72.031 71.824 72.217 0.66324 65 28 3 0 0 0 0.73686 1 32764 32764 2.8892 0.31174 1 3251200 + 22134 17410 13970 14026 25779 25779 -0.034461066365224724 PAAPFPGD 8 Unmodified _PAAPFPGD_ 0 0 0 REV__ENST00000565272.5_1_16:81789539-81800332:+|nuORF REV__ENST00000565272.5_1_16:81789539-81800332:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 771.367181 770.359904 3.109 0.0023981 0.13339 0.00010289 3.2423 0.002501 771.3666035215302 70.985 0.12062 71.689 71.597 71.717 0.70386 -0.23561 0.00069442 NaN 2.8892 20 14 2 NaN NaN NaN NaN 0 NaN NaN 0 2717400 + 22135 17410 13970 14026 -0.034461066365224724 PAAPFPGD 8 Unmodified _PAAPFPGD_ 0 0 0 REV__ENST00000565272.5_1_16:81789539-81800332:+|nuORF REV__ENST00000565272.5_1_16:81789539-81800332:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 771.367181 770.359904 3.5954 0.0027734 -1.0331 -0.00079692 2.5622 0.0019764 771.3663207020505 71.795 0.22684 72.053 71.966 72.192 0.25786 0.12884 -0.0002054 NaN 2.8892 39 23 2 NaN NaN NaN NaN 0 NaN NaN 0 3683000 + 22136 17410 13970 14026 -0.034461066365224724 PAAPFPGD 8 Unmodified _PAAPFPGD_ 0 0 0 REV__ENST00000565272.5_1_16:81789539-81800332:+|nuORF REV__ENST00000565272.5_1_16:81789539-81800332:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 771.367181 770.359904 3.3487 0.002583 -1.1873 -0.00091584 2.1614 0.0016672 771.3665752647375 71.368 0.39243 72.031 71.824 72.217 0.66324 0.10682 -0.00032431 NaN 2.8892 65 28 3 NaN NaN NaN NaN 0 NaN NaN 0 3251200 + 22137 17410 13970 14026 -0.034461066365224724 PAAPFQNLAD 10 Unmodified _PAAPFQNLAD_ 0 0 0 REV__nc|ENSG00000275066|Q9UMZ2-9|SYNRG REV__nc|ENSG00000275066|Q9UMZ2-9|SYNRG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.2802124023438 2 522.261456 1042.50836 NaN NaN NaN NaN NaN NaN NaN 67.144 1 67.144 66.644 67.644 0 0 0 0 0.98473 1 32142 32142 7.9102 0 1 + 22138 14733 13971 14027 25780 25780 -0.011194204534604069 PAAPFRTF 8 Unmodified _PAAPFRTF_ 0 0 0 ENSG00000214279|ENST00000640237|SCART1;ENST00000488261.6_3_10:135271820-135304727:+|nuORF ENSG00000214279|ENST00000640237|SCART1 ENSG00000214279|ENST00000640237|SCART1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 453.74420166015625 2 453.745245 905.475937 NaN NaN NaN NaN NaN NaN NaN 70.963 1 71.667 71.167 72.167 0.70386 0 0 0 0.99035 1 34043 34043 6.3541 0.59368 1 22139 6112 13972 14028 25781 25781 0.01941836934179264 PAAPGGGRAAQ 11 Unmodified _PAAPGGGRAAQ_ 0 0 0 ENSG00000125965|ENST00000374369|GDF5 ENSG00000125965|ENST00000374369|GDF5 ENSG00000125965|ENST00000374369|GDF5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 476.7525329589844 2 476.75159 951.488627 NaN NaN NaN NaN NaN NaN NaN 64.715 1 65.43 64.93 65.93 0.71521 0 0 0 1.0057 1 30502 30502 3.2813 0.70383 1 22140 2435 13973 14029 25782 25782 0.010942483264216207 PAAPGPRRRRR 11 Unmodified _PAAPGPRRRRR_ 0 0 0 ENSG00000140470|ENST00000268070|ADAMTS17 ENSG00000140470|ENST00000268070|ADAMTS17 ENSG00000140470|ENST00000268070|ADAMTS17 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 645.39306640625 2 645.392328 1288.7701 NaN NaN NaN NaN NaN NaN NaN 79.973 1 80.634 80.134 81.134 0.66082 0 0 0 1.0071 1 36849 36849 1.4819 0 1 22141 3201 13974 14030 25783 25783 0.1372684347663835 PAAPGPVISP 10 Unmodified _PAAPGPVISP_ 0 0 0 REV__ENST00000380834.6_1_2:25016041-25016209:+|nuORF REV__ENST00000380834.6_1_2:25016041-25016209:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 453.280029296875 2 453.258185 904.501818 NaN NaN NaN NaN NaN NaN NaN 64.147 1 64.147 63.647 64.647 0 0 0 0 0.91994 1 30325 30325 18.135 4.6271 1 + 22142 15886 13975 14031 25784 25784 0.04574686385797122 PAAPGRDRV 9 Unmodified _PAAPGRDRV_ 0 0 0 nc|ENSG00000144485|Q96HZ4-4|HES6;nc|ENSG00000144485|Q96HZ4-2|HES6;nc|ENSG00000144485|Q96HZ4-3|HES6;ENSG00000144485|ENST00000272937|HES6 nc|ENSG00000144485|Q96HZ4-4|HES6 nc|ENSG00000144485|Q96HZ4-4|HES6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.0476989746094 2 469.761958 937.509363 NaN NaN NaN NaN NaN NaN NaN 61.403 1 62.143 61.643 62.643 0.7396 0 0 0 0.7971 1 28468 28468 9.3474 0 1 22143 3430 13976 14032 25785 25785 0.03810838706078812 PAAPHHCPSL 10 Unmodified _PAAPHHCPSL_ 0 0 0 REV__ENST00000374695.7_1_1:22175396-22175465:-|nuORF REV__ENST00000374695.7_1_1:22175396-22175465:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.2093505859375 2 515.250369 1028.48618 NaN NaN NaN NaN NaN NaN NaN 72.472 1 73.176 72.676 73.676 0.70386 0 0 0 0.95544 1 34890 34890 12.532 0 1 + 22144 15791 13977 14033 25786 25786 -0.026919234029037398 PAAPHKMMCSR 11 Unmodified _PAAPHKMMCSR_ 0 0 0 ENST00000531123.5_1_1:33290993-33299636:+|nuORF;ENST00000356689.7_1_1:33290993-33299636:+|nuORF ENST00000531123.5_1_1:33290993-33299636:+|nuORF ENST00000531123.5_1_1:33290993-33299636:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 614.790283203125 2 614.79102 1227.56749 NaN NaN NaN NaN NaN NaN NaN 63.65 1 64.372 63.872 64.872 0.72236 0 0 0 0.99968 1 29843 29843 6.7232 0 1 22145 7159 13978 14034 25787 25787 -0.03719307026813112 PAAPHLMPL 9 Unmodified _PAAPHLMPL_ 0 0 0 REV__ENST00000530267.5_2_11:77899860-77900121:+|nuORF REV__ENST00000530267.5_2_11:77899860-77900121:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.7361755371094 2 473.762581 945.510608 NaN NaN NaN NaN NaN NaN NaN 82.783 1 82.828 82.328 83.328 0.045006 0 0 0 0.63602 1 40933 40933 14.582 5.9884 1 + 22146 17132 13979 14035 25788 25788 0.035673367506319664 PAAPLDWSP 9 Unmodified _PAAPLDWSP_ 0 0 0 REV__ENSG00000170775|ENST00000303921|GPR37 REV__ENSG00000170775|ENST00000303921|GPR37 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.3616027832031 2 477.239993 952.465432 NaN NaN NaN NaN NaN NaN NaN 64.05 1 64.766 64.266 65.266 0.71521 0 0 0 0.7971 1 30116 30116 9.3474 0 1 + 22147 13451 13980 14036 25789 25789 -0.01270190510899738 PAAPLKKLLN 10 Unmodified _PAAPLKKLLN_ 0 0 0 REV__ENST00000448963.5_1_10:91597071-91597797:+|nuORF REV__ENST00000448963.5_1_10:91597071-91597797:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 532.8472290039062 2 532.844959 1063.67537 NaN NaN NaN NaN NaN NaN NaN 81.429 1 81.598 81.098 82.098 0.16862 0 0 0 0.98473 1 40028 40028 7.9102 3.5809 1 + 22148 16398 13981 14037 25790 25790 0.14607472162083468 PAAPLLLLL 9 Unmodified _PAAPLLLLL_ 0 0 0 REV__ENST00000498308.1_1_7:5111828-5112677:+|nuORF REV__ENST00000498308.1_1_7:5111828-5112677:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 461.09674072265625 2 460.812596 919.61064 NaN NaN NaN NaN NaN NaN NaN 71.832 1 71.832 71.332 72.332 0 0 0 0 0.91206 1 34920 34920 0.6015 0 1 + 22149 16009 13982 14038 25791 25791 0.14761897356083864 PAAPLRPTSF 10 Unmodified _PAAPLRPTSF_ 0 0 0 ENSG00000235608|ENST00000422806|NKX1-1 ENSG00000235608|ENST00000422806|NKX1-1 ENSG00000235608|ENST00000422806|NKX1-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.1292724609375 2 528.795466 1055.57638 NaN NaN NaN NaN NaN NaN NaN 60.832 1 60.832 60.332 61.332 0 0 0 0 0.98473 1 28321 28321 7.9102 0 1 22150 6202 13983 14039 25792 25792 0.050814491971550524 PAAPNDKSE 9 Unmodified _PAAPNDKSE_ 0 0 0 REV__nc|ENSG00000106410|O60393-2|NOBOX REV__nc|ENSG00000106410|O60393-2|NOBOX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.72222900390625 2 464.722164 927.429775 NaN NaN NaN NaN NaN NaN NaN 62.787 1 62.787 62.287 63.287 0 0 0 0 0.7971 1 29451 29451 9.3474 0 1 + 22151 11082 13984 14040 25793 25793 -0.036842727585622015 PAAPNRPIAQ 10 Unmodified _PAAPNRPIAQ_ 0 0 0 nc|ENSG00000160145|O60229|KALRN;ENSG00000160145|ENST00000682506|KALRN;nc|ENSG00000160145|O60229-6|KALRN;nc|ENSG00000160145|O60229-4|KALRN nc|ENSG00000160145|O60229|KALRN nc|ENSG00000160145|O60229|KALRN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.7513427734375 2 517.790715 1033.56688 NaN NaN NaN NaN NaN NaN NaN 68.569 1 68.569 68.069 69.069 0 0 0 0 0.98473 1 33026 33026 7.9102 0 1 22152 9710 13985 14041 25794 25794 0.051436809116466975 PAAPPCAQF 9 Unmodified _PAAPPCAQF_ 0 0 0 REV__ENSG00000186907|ENST00000335099|RTN4RL2 REV__ENSG00000186907|ENST00000335099|RTN4RL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.2165832519531 2 451.215463 900.416374 NaN NaN NaN NaN NaN NaN NaN 61.968 1 61.968 61.468 62.468 0 0 0 0 0.63602 1 28979 28979 14.582 2.0501 1 + 22153 14077 13986 14042 25795 25795 -0.03781802071512175 PAAPPCAQF 9 Unmodified _PAAPPCAQF_ 0 0 0 REV__ENSG00000186907|ENST00000335099|RTN4RL2 REV__ENSG00000186907|ENST00000335099|RTN4RL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.2154235839844 2 451.215463 900.416374 NaN NaN NaN NaN NaN NaN NaN 62.09 1 62.09 61.59 62.59 0 0 0 0 0.63602 1 29061 29061 14.582 2.0501 1 + 22154 14077 13986 14042 25796 25796 -0.03781802071512175 PAAPPCAQF 9 Unmodified _PAAPPCAQF_ 0 0 0 REV__ENSG00000186907|ENST00000335099|RTN4RL2 REV__ENSG00000186907|ENST00000335099|RTN4RL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.2157287597656 2 451.215463 900.416374 NaN NaN NaN NaN NaN NaN NaN 64.11 1 64.825 64.325 65.325 0.71521 0 0 0 0.63602 1 30159 30159 14.582 2.0501 1 + 22155 14077 13986 14042 25797 25797 -0.03781802071512175 PAAPPCAQF 9 Unmodified _PAAPPCAQF_ 0 0 0 REV__ENSG00000186907|ENST00000335099|RTN4RL2 REV__ENSG00000186907|ENST00000335099|RTN4RL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.2145080566406 2 451.215463 900.416374 NaN NaN NaN NaN NaN NaN NaN 71.74 1 72.444 71.944 72.944 0.70386 0 0 0 0.63602 1 34486 34486 14.582 3.4672 1 + 22156 14077 13986 14042 25798 25798 -0.03781802071512175 PAAPPKKPEV 10 Unmodified _PAAPPKKPEV_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;TTN|p.R30215Vfs*13|1|0.21|ENSG00000155657|chr2:178545544-178545544|G/-|frameshift_variant;TTN|p.P20319Hfs*66|1|0.07|ENSG00000155657|chr2:178582577-178582578|-/AAAATAAATAT|frameshift_variant;TTN|p.A15448Hfs*16|1|0.24|ENSG00000155657|chr2:178610249-178610261|TTCTCCTCCCAGC/-|frameshift_variant;TTN|p.G17760Ifs*40|1|0.07|ENSG00000155657|chr2:178594192-178594193|-/TCGACTTCAGAGAT|frameshift_variant;TTN|p.V17759Afs*3|1|0.05|ENSG00000155657|chr2:178594194-178594195|-/G|frameshift_variant ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 517.1893310546875 2 517.305667 1032.59678 NaN NaN NaN NaN NaN NaN NaN 76.176 1 76.8 76.3 77.3 0.62397 0 0 0 0.91986 1 36911 36911 18.146 5.1039 1 22157 3871 13987 14043 25799 25799 0.08178619856994374 PAAPPPACDE 10 Unmodified _PAAPPPACDE_ 0 0 0 REV__ENSG00000171794|ENST00000304477|UTF1 REV__ENSG00000171794|ENST00000304477|UTF1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.9481201171875 2 484.213117 966.411682 2.5802 0.0012493 -0.15245 -7.382E-05 2.4277 0.0011755 484.2130210752652 70.401 0.036232 71.104 71.073 71.109 0.70302 5 3 2 0 0 0 0.12676 1 33730 33730 7.9102 0 1 652210 + 22158 13516 13988 14044 25800 25800 -0.07286731004933245 PAAPPPPPY 9 Unmodified _PAAPPPPPY_ 0 0 0 ENST00000474291.1_1_7:97911152-97911766:+|nuORF;ENST00000473967.1_1_7:97911152-97912144:+|nuORF;nc|ENSG00000164713|O95415-2|BRI3;ENSG00000164713|ENST00000297290|BRI3 ENST00000474291.1_1_7:97911152-97911766:+|nuORF ENST00000474291.1_1_7:97911152-97911766:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 453.8836975097656 2 453.739628 905.464704 2.5045 0.0011364 -0.60676 -0.00027531 1.8978 0.00086109 453.74000123918546 74.049 0.32146 74.713 74.575 74.896 0.6644 86 38 3 0 0 0 0.68496 3 34036 34036;34051;34101 9.3474 0.47466 1 948950 22159 4337 13989 14045 25801;25802;25803 25801 0.008190148400444741 PAAPPRRSPV 10 Unmodified _PAAPPRRSPV_ 0 0 0 REV__ENST00000590806.5_1_19:10922561-10941720:+|nuORF REV__ENST00000590806.5_1_19:10922561-10941720:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.0018920898438 2 524.306532 1046.59851 NaN NaN NaN NaN NaN NaN NaN 68.791 1 68.791 68.291 69.291 0 0 0 0 0.98473 1 33144 33144 7.9102 0 1 + 22160 10586 13990 14046 25804 25804 0.07707673665595394 PAAPPVIPSSF 11 Unmodified _PAAPPVIPSSF_ 0 0 0 ENST00000412055.5_2_3:9987897-9987954:-|nuORF ENST00000412055.5_2_3:9987897-9987954:-|nuORF ENST00000412055.5_2_3:9987897-9987954:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.8739013671875 2 541.797675 1081.5808 NaN NaN NaN NaN NaN NaN NaN 62.447 1 63.178 62.678 63.678 0.73077 0 0 0 0.95662 1 29111 29111 10.824 2.9138 1 22161 7679 13991 14047 25805 25805 0.04326913620070627 PAAPPVPGRAL 11 Unmodified _PAAPPVPGRAL_ 0 0 0 ENST00000358600.7_1_19:14492051-14492228:+|nuORF ENST00000358600.7_1_19:14492051-14492228:+|nuORF ENST00000358600.7_1_19:14492051-14492228:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.3847045898438 2 523.311284 1044.60801 NaN NaN NaN NaN NaN NaN NaN 73.612 1 73.87 73.37 74.37 0.25876 0 0 0 0.9645 1 33815 33815 10.074 2.1638 1 22162 7193 13992 14048 25806 25806 0.0874944195113585 PAAPQIIDDAV 11 Unmodified _PAAPQIIDDAV_ 0 0 0 REV__nc|ENSG00000138162|O95359-5|TACC2 REV__nc|ENSG00000138162|O95359-5|TACC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.2589111328125 2 555.295496 1108.57644 NaN NaN NaN NaN NaN NaN NaN 65.098 1 65.098 64.598 65.598 0 0 0 0 1.0034 1 30949 30949 6.2058 1.8765 1 + 22163 12152 13993 14049 25807 25807 0.026494044065202615 PAAPQKPPR 9 Unmodified _PAAPQKPPR_ 0 0 0 REV__nc|ENSG00000171634|Q12830-4|BPTF REV__nc|ENSG00000171634|Q12830-4|BPTF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 481.2442626953125 2 481.282526 960.550499 NaN NaN NaN NaN NaN NaN NaN 76.532 1 77.156 76.656 77.656 0.62397 0 0 0 0.69911 1 37100 37100 12.532 0 1 + 22164 9981 13994 14050 25808 25808 0.06864599745563282 PAAPQLEPLGW 11 Unmodified _PAAPQLEPLGW_ 0 0 0 REV__nc|ENSG00000165066|A6NJ46-2|NKX6-3 REV__nc|ENSG00000165066|A6NJ46-2|NKX6-3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.7371215820312 2 589.813856 1177.61316 NaN NaN NaN NaN NaN NaN NaN 73.08 1 73.339 72.839 73.839 0.25876 0 0 0 0.99968 1 33559 33559 6.7232 2.3939 1 + 22165 18020 13995 14051 25809 25809 0.031457010230724336 PAAPRAARPR 10 Unmodified _PAAPRAARPR_ 0 0 0 REV__ENST00000392432.6_1_3:194349227-194353988:-|nuORF REV__ENST00000392432.6_1_3:194349227-194353988:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.8187255859375 2 531.817599 1061.62064 3.4627 0.0018415 -0.94748 -0.00050389 2.5152 0.0013376 531.8170069126364 96.389 0.33358 96.997 96.779 97.113 0.60769 34 14 3 0 0 0 0.81125 1 44349 44349 7.9102 0 1 1484900 + 22166 15929 13996 14052 25810 25810 0.09229898134026371 PAAPRAARPR 10 Unmodified _PAAPRAARPR_ 0 0 0 REV__ENST00000392432.6_1_3:194349227-194353988:-|nuORF REV__ENST00000392432.6_1_3:194349227-194353988:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 531.817599 1061.62064 3.9328 0.0020915 -0.62061 -0.00033005 3.3122 0.0017615 531.8173234288554 96.801 0.28922 97.079 96.925 97.214 0.27778 0.041034 0.00021848 NaN 7.9102 43 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1805500 + 22167 15929 13996 14052 0.09229898134026371 PAAPRARRRL 10 Unmodified _PAAPRARRRL_ 0 0 0 nc|ENSG00000171813|Q6NUJ5-2|PWWP2B;ENSG00000171813|ENST00000305233|PWWP2B nc|ENSG00000171813|Q6NUJ5-2|PWWP2B nc|ENSG00000171813|Q6NUJ5-2|PWWP2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 582.8206787109375 2 582.365247 1162.71594 NaN NaN NaN NaN NaN NaN NaN 73.728 1 73.728 73.228 74.228 0 0 0 0 0.98866 1 35969 35969 7.2892 2.96 1 22168 4836 13997 14053 25811 25811 0.14109251325066907 PAAPREARWE 10 Unmodified _PAAPREARWE_ 0 0 0 ENST00000426537.1_1_21:47705694-47705769:-|nuORF ENST00000426537.1_1_21:47705694-47705769:-|nuORF ENST00000426537.1_1_21:47705694-47705769:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.9224243164062 2 591.804354 1181.59415 NaN NaN NaN NaN NaN NaN NaN 68.125 1 68.125 67.625 68.625 0 0 0 0 0.98473 1 32765 32765 7.9102 0.62092 1 22169 7804 13998 14054 25812 25812 0.010621644520597329 PAAPREHRR 9 Unmodified _PAAPREHRR_ 0 0 0 REV__ENST00000494078.1_1_1:16386422-16400033:-|nuORF REV__ENST00000494078.1_1_1:16386422-16400033:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.3095092773438 2 545.304855 1088.59516 NaN NaN NaN NaN NaN NaN NaN 90.464 1 91.137 90.637 91.637 0.67271 0 0 0 0.84134 1 41636 41636 7.9102 2.1783 1 + 22170 16822 13999 14055 25813 25813 0.05440423611617007 PAAPRNCEW 9 Unmodified _PAAPRNCEW_ 0 0 0 REV__ENSG00000099617|ENST00000215368|EFNA2 REV__ENSG00000099617|ENST00000215368|EFNA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.23974609375 2 522.240001 1042.46545 NaN NaN NaN NaN NaN NaN NaN 82.074 1 82.074 81.574 82.574 0 0 0 0 0.89315 1 40978 40978 5.2307 0 1 + 22171 10784 14000 14056 25814 25814 -0.05408513782549562 PAAPRPPPQDA 11 Unmodified _PAAPRPPPQDA_ 0 0 0 REV__nc|ENSG00000186260|Q9ULH7-2|MRTFB REV__nc|ENSG00000186260|Q9ULH7-2|MRTFB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.9110107421875 2 558.793455 1115.57236 NaN NaN NaN NaN NaN NaN NaN 92.993 1 92.993 92.493 93.493 0 0 0 0 0.97175 1 49549 49549 9.3831 0 1 + 22172 14050 14001 14057 25815 25815 0.019193597034927734 PAAPRQQPLL 10 Unmodified _PAAPRQQPLL_ 0 0 0 ENST00000417220.6_1_3:51978121-51978467:+|nuORF ENST00000417220.6_1_3:51978121-51978467:+|nuORF ENST00000417220.6_1_3:51978121-51978467:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.4580688476562 2 545.822015 1089.62948 NaN NaN NaN NaN NaN NaN NaN 74.516 1 74.516 74.016 75.016 0 0 0 0 0.98473 1 36404 36404 7.9102 1.187 1 22173 7720 14002 14058 25816 25816 0.08824826979844147 PAAPRRRRVE 10 Unmodified _PAAPRRRRVE_ 0 0 0 REV__ENST00000448775.3_1_11:123065681-123065849:-|nuORF REV__ENST00000448775.3_1_11:123065681-123065849:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.2035522460938 2 604.360162 1206.70577 NaN NaN NaN NaN NaN NaN NaN 70.31 1 70.31 69.81 70.81 0 0 0 0 0.99225 1 34093 34093 6.7232 0.51738 1 + 22174 16396 14003 14059 25817 25817 0.11068643599855932 PAAPRSRDC 9 Unmodified _PAAPRSRDC_ 0 0 0 ENSG00000145743|ENST00000542267|FBXL17 ENSG00000145743|ENST00000542267|FBXL17 ENSG00000145743|ENST00000542267|FBXL17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 486.5777893066406 2 486.737625 971.460698 NaN NaN NaN NaN NaN NaN NaN 70.316 1 70.316 69.816 70.816 0 0 0 0 0.7971 1 34098 34098 9.3474 0 1 22175 3486 14004 14060 25818 25818 -0.026173979253144353 PAAPRVFRGVL 11 Unmodified _PAAPRVFRGVL_ 0 0 0 ENST00000592623.5_1_19:1438555-1438780:+|nuORF ENST00000592623.5_1_19:1438555-1438780:+|nuORF ENST00000592623.5_1_19:1438555-1438780:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.8616943359375 2 591.858932 1181.70331 NaN NaN NaN NaN NaN NaN NaN 65.325 1 66.034 65.534 66.534 0.70891 0 0 0 0.99968 1 30886 30886 6.7232 0 1 22176 9247 14005 14061 25819 25819 0.11972795142196446 PAAPSAPPCCA 11 Unmodified _PAAPSAPPCCA_ 0 0 0 REV__ENSG00000020181|ENST00000412232|ADGRA2 REV__ENSG00000020181|ENST00000412232|ADGRA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.7171325683594 2 492.717513 983.420473 NaN NaN NaN NaN NaN NaN NaN 96.709 1 97.311 96.811 97.811 0.6019 0 0 0 0.99968 1 44463 44463 6.7232 0.36906 1 + 22177 10263 14006 14062 25820 25820 -0.07190080640111773 PAAPTSCDF 9 Unmodified _PAAPTSCDF_ 0 0 0 nc|ENSG00000116062|P52701-2|MSH6;ENSG00000116062|ENST00000234420|MSH6 nc|ENSG00000116062|P52701-2|MSH6 nc|ENSG00000116062|P52701-2|MSH6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.7170715332031 2 454.694561 907.374568 NaN NaN NaN NaN NaN NaN NaN 63.508 1 63.508 63.008 64.008 0 0 0 0 0.7971 1 29886 29886 9.3474 2.9933 1 22178 2011 14007 14063 25821 25821 -0.08282402550696588 PAAPVQEPT 9 Unmodified _PAAPVQEPT_ 0 0 0 REV__CON__P06868 REV__CON__P06868 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 455.38262939453125 2 455.23745 908.460347 NaN NaN NaN NaN NaN NaN NaN 66.427 1 67.132 66.632 67.632 0.7047 0 0 0 0.63602 1 31489 31489 14.582 5.2343 1 + + 22179 10079 14008 14064 25822 25822 0.002455056264693667 PAAPVQERYP 10 Unmodified _PAAPVQERYP_ 0 0 0 REV__ENST00000261402.6_1_12:106533091-106533277:-|nuORF REV__ENST00000261402.6_1_12:106533091-106533277:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.2947387695312 2 564.29583 1126.57711 NaN NaN NaN NaN NaN NaN NaN 76.4 1 76.655 76.155 77.155 0.25563 0 0 0 0.98866 1 35174 35174 7.2892 1.0834 1 + 22180 14964 14009 14065 25823 25823 0.018882438462242135 PAAPVRTRRRR 11 Unmodified _PAAPVRTRRRR_ 0 0 0 ENSG00000179588|ENST00000319555|ZFPM1 ENSG00000179588|ENST00000319555|ZFPM1 ENSG00000179588|ENST00000319555|ZFPM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 668.4119873046875 2 668.41326 1334.81197 NaN NaN NaN NaN NaN NaN NaN 75.264 1 75.264 74.764 75.764 0 0 0 0 1.0055 1 36880 36880 3.5965 2.1146 1 22181 5223 14010 14066 25824 25824 0.15795399165153867 PAAPVVPEE 9 Unmodified _PAAPVVPEE_ 0 0 0 ENSG00000260220|ENST00000638797|CCDC187 ENSG00000260220|ENST00000638797|CCDC187 ENSG00000260220|ENST00000638797|CCDC187 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.77874755859375 2 454.739825 907.465098 NaN NaN NaN NaN NaN NaN NaN 62.935 1 62.935 62.435 63.435 0 0 0 0 0.7971 1 29549 29549 9.3474 0 1 22182 6304 14011 14067 25825 25825 0.007663897692395949 PAAPWCGAR 9 Unmodified _PAAPWCGAR_ 0 0 0 REV__ENST00000479094.5_1_9:96213311-96213473:-|nuORF REV__ENST00000479094.5_1_9:96213311-96213473:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.7263488769531 2 464.726529 927.438506 2.1299 0.00098983 -0.76445 -0.00035526 1.3655 0.00063457 464.7260820092661 71.256 0.62596 71.256 71.109 71.735 0 96 63 2 0 0 0 0.68496 1 34755 34755 9.3474 0 1 1301300 + 22183 16673 14012 14068 25826 25826 -0.028115776030858797 PAAPWCGAR 9 Unmodified _PAAPWCGAR_ 0 0 0 REV__ENST00000479094.5_1_9:96213311-96213473:-|nuORF REV__ENST00000479094.5_1_9:96213311-96213473:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.7259216308594 2 464.726529 927.438506 2.2404 0.0010412 -1.2712 -0.00059075 0.96923 0.00045043 464.725845968959 71.818 0.3035 72.522 72.445 72.749 0.70386 59 31 2 0 0 0 0.37584 1 34526 34526 14.582 1.0738 1 2093100 + 22184 16673 14012 14068 25827 25827 -0.028115776030858797 PAAPWCGAR 9 Unmodified _PAAPWCGAR_ 0 0 0 REV__ENST00000479094.5_1_9:96213311-96213473:-|nuORF REV__ENST00000479094.5_1_9:96213311-96213473:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.7282409667969 2 464.726529 927.438506 NaN NaN NaN NaN NaN NaN NaN 70.651 1 71.355 70.855 71.855 0.70386 0 0 0 0.7971 1 33870 33870 9.3474 1.4373 1 + 22185 16673 14012 14068 25828 25828 -0.028115776030858797 PAAPWRWRW 9 Unmodified _PAAPWRWRW_ 0 0 0 ENST00000253814.5_1_5:141488387-141511833:+|nuORF ENST00000253814.5_1_5:141488387-141511833:+|nuORF ENST00000253814.5_1_5:141488387-141511833:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.3240966796875 2 613.322517 1224.63048 NaN NaN NaN NaN NaN NaN NaN 67.767 1 68.469 67.969 68.969 0.70218 0 0 0 0.7971 1 32256 32256 9.3474 2.6243 1 22186 6511 14013 14069 25829 25829 0.027150861394147796 PAAQDDEMFQE 11 Unmodified _PAAQDDEMFQE_ 0 0 0 nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11 nc|ENSG00000133392|P35749-4|MYH11 nc|ENSG00000133392|P35749-4|MYH11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.0046997070312 2 640.758617 1279.50268 NaN NaN NaN NaN NaN NaN NaN 71.674 1 72.378 71.878 72.878 0.70386 0 0 0 1.0034 1 34440 34440 6.2058 2.2614 1 22187 2759 14014 14070 25830 25830 -0.12588931818118 PAAQHWQNLVY 11 Unmodified _PAAQHWQNLVY_ 0 0 0 ENSG00000186367|ENST00000564719|MINAR2 ENSG00000186367|ENST00000564719|MINAR2 ENSG00000186367|ENST00000564719|MINAR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 663.8358154296875 2 663.833111 1325.65167 NaN NaN NaN NaN NaN NaN NaN 60.356 1 60.356 59.856 60.856 0 0 0 0 1.0034 1 28004 28004 6.2058 0.47393 1 22188 5566 14015 14071 25831 25831 0.0018700665759752155 PAAQLQHLWR 10 Unmodified _PAAQLQHLWR_ 0 0 0 ENST00000563441.5_1_15:75651254-75660924:-|nuORF;nc|ENSG00000140400|Q9NTJ4-3|MAN2C1;nc|ENSG00000140400|Q9NTJ4-2|MAN2C1;ENSG00000140400|ENST00000267978|MAN2C1;nc|ENSG00000140400|Q9NTJ4-4|MAN2C1;ENST00000564785.5_1_15:75652318-75652519:-|nuORF ENST00000563441.5_1_15:75651254-75660924:-|nuORF ENST00000563441.5_1_15:75651254-75660924:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 610.337158203125 2 610.338364 1218.66217 NaN NaN NaN NaN NaN NaN NaN 63.472 1 63.472 62.972 63.972 0 0 0 0 0.98866 1 29865 29865 7.2892 0 1 22189 3197 14016 14072 25832 25832 0.06159034102688565 PAAQLQHLWRL 11 Unmodified _PAAQLQHLWRL_ 0 0 0 ENST00000563441.5_1_15:75651254-75660924:-|nuORF;nc|ENSG00000140400|Q9NTJ4-3|MAN2C1;nc|ENSG00000140400|Q9NTJ4-2|MAN2C1;ENSG00000140400|ENST00000267978|MAN2C1;nc|ENSG00000140400|Q9NTJ4-4|MAN2C1 ENST00000563441.5_1_15:75651254-75660924:-|nuORF ENST00000563441.5_1_15:75651254-75660924:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 666.88037109375 2 666.880396 1331.74624 NaN NaN NaN NaN NaN NaN NaN 76.487 1 77.111 76.611 77.611 0.62397 0 0 0 1.0055 1 37076 37076 3.5965 0.8613 1 22190 3197 14017 14073 25833 25833 0.09363565199578261 PAAQLRRRQ 9 Unmodified _PAAQLRRRQ_ 0 0 0 ENST00000319070.2_1_16:681311-683059:+|nuORF ENST00000319070.2_1_16:681311-683059:+|nuORF ENST00000319070.2_1_16:681311-683059:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.3287353515625 2 548.328331 1094.64211 NaN NaN NaN NaN NaN NaN NaN 73.318 1 73.576 73.076 74.076 0.25876 0 0 0 0.89315 1 33674 33674 5.2307 0 1 22191 6917 14018 14074 25834 25834 0.09857283162750718 PAAQLVVL 8 Unmodified _PAAQLVVL_ 0 0 0 ENST00000539049.5_1_12:31242373-31253526:+|nuORF;ENST00000435753.6_1_12:31242373-31254792:+|nuORF;ENST00000536265.5_1_12:31242773-31256767:+|nuORF;nc|ENSG00000013573|Q96FC9-4|DDX11;nc|ENSG00000013573|Q96FC9-3|DDX11;ENSG00000013573|ENST00000542838|DDX11;nc|ENSG00000214826|Q92771|DDX12P;nc|ENSG00000013573|Q96FC9|DDX11;ENST00000543026.5_1_12:31242773-31246356:+|nuORF ENST00000539049.5_1_12:31242373-31253526:+|nuORF ENST00000539049.5_1_12:31242373-31253526:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 810.3348388671875 1 810.508366 809.501089 3.2708 0.002651 -0.062956 -5.1027E-05 3.2079 0.0026 810.5097528875799 87.689 0.13409 87.689 87.58 87.714 0 32 21 2 0 0 0 0.14069 1 45272 45272 6.3541 0 1 40541000 22192 432 14019 14075 25835 25835 0.08871891736748694 PAAQNRRRLIA 11 Unmodified _PAAQNRRRLIA_ 0 0 0 ENST00000423330.1_1_9:133527471-133527552:+|nuORF ENST00000423330.1_1_9:133527471-133527552:+|nuORF ENST00000423330.1_1_9:133527471-133527552:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.3826904296875 2 633.381094 1264.74764 NaN NaN NaN NaN NaN NaN NaN 86.598 1 86.848 86.348 87.348 0.24974 0 0 0 1.0055 1 39856 39856 3.5965 0 1 22193 7779 14020 14076 25836 25836 0.12585199288378135 PAAQQLLAPTG 11 Unmodified _PAAQQLLAPTG_ 0 0 0 REV__ENST00000375980.8_1_1:15755568-15755859:+|nuORF REV__ENST00000375980.8_1_1:15755568-15755859:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.7962646484375 2 533.798206 1065.58186 NaN NaN NaN NaN NaN NaN NaN 90.885 1 90.96 90.46 91.46 0.075279 0 0 0 1.0034 1 46943 46943 6.2058 0 1 + 22194 15813 14021 14077 25837 25837 0.051691279890064834 PAAQRRPARA 10 Unmodified _PAAQRRPARA_ 0 0 0 ENST00000408965.3_1_8:48650723-48651419:-|nuORF ENST00000408965.3_1_8:48650723-48651419:-|nuORF ENST00000408965.3_1_8:48650723-48651419:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.3212280273438 2 547.320506 1092.62646 3.7468 0.0020507 -1.6225 -0.00088801 2.1243 0.0011627 547.3195445416596 97.363 0.20348 97.964 97.81 98.013 0.6019 20 9 3 0 0 0 0.88655 1 44726 44726 4.3292 0 1 1119000 22195 7651 14022 14078 25838 25838 0.08384996645713727 PAAQRRPARA 10 Unmodified _PAAQRRPARA_ 0 0 0 ENST00000408965.3_1_8:48650723-48651419:-|nuORF ENST00000408965.3_1_8:48650723-48651419:-|nuORF ENST00000408965.3_1_8:48650723-48651419:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 547.320506 1092.62646 4.395 0.0024055 -2.2649 -0.0012396 2.1302 0.0011659 547.3193152088722 97.68 0.17004 97.969 97.882 98.052 0.28923 0.0023776 -0.00034651 NaN 4.3292 25 11 3 NaN NaN NaN NaN 0 NaN NaN 0 1716400 22196 7651 14022 14078 0.08384996645713727 PAAQTMHQYEN 11 Unmodified _PAAQTMHQYEN_ 0 0 0 ENST00000488474.1_1_7:736619-751142:-|nuORF ENST00000488474.1_1_7:736619-751142:-|nuORF ENST00000488474.1_1_7:736619-751142:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 645.280029296875 2 645.282594 1288.55064 NaN NaN NaN NaN NaN NaN NaN 72.566 1 72.566 72.066 73.066 0 0 0 0 1.0034 1 35304 35304 6.2058 0.47393 1 22197 8365 14023 14079 25839 25839 -0.08209813107418995 PAARAHLAL 9 Unmodified _PAARAHLAL_ 0 0 0 ENST00000263269.3_1_19:48946008-48947172:+|nuORF ENST00000263269.3_1_19:48946008-48947172:+|nuORF ENST00000263269.3_1_19:48946008-48947172:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 460.2773742675781 2 460.277244 918.539935 NaN NaN NaN NaN NaN NaN NaN 66.75 1 67.455 66.955 67.955 0.7047 0 0 0 0.89315 1 31663 31663 5.2307 0.47466 1 22198 6585 14024 14080 25840 25840 0.07740617091121749 PAARARPPNL 10 Unmodified _PAARARPPNL_ 0 0 0 REV__ENSG00000282881|ENST00000697682|TMEM275 REV__ENSG00000282881|ENST00000697682|TMEM275 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.4591674804688 2 531.811982 1061.60941 2.4808 0.0013193 2.4075 0.0012803 4.8883 0.0025996 531.8135297678464 72.085 0.17159 72.085 72 72.172 0 20 14 2 0 0 0 0.51828 1 35017 35017 20.454 3.3407 1 1348500 + 22199 14762 14025 14081 25841 25841 0.08107076039891581 PAARARPPNL 10 Unmodified _PAARARPPNL_ 0 0 0 REV__ENSG00000282881|ENST00000697682|TMEM275 REV__ENSG00000282881|ENST00000697682|TMEM275 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 531.811982 1061.60941 2.4808 0.0013193 2.4075 0.0012803 4.8883 0.0025996 531.8135297678464 72.085 0.17159 72.085 72 72.172 0 0.0025534 -0.0010025 NaN 20.454 20 14 2 NaN NaN NaN NaN 0 NaN NaN 0 1348500 + 22200 14762 14025 14081 0.08107076039891581 PAARARPPNL 10 Unmodified _PAARARPPNL_ 0 0 0 REV__ENSG00000282881|ENST00000697682|TMEM275 REV__ENSG00000282881|ENST00000697682|TMEM275 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 531.811982 1061.60941 2.6391 0.0014035 4.8175 0.002562 7.4566 0.0039655 531.8152788984086 71.417 0.18082 72.08 71.998 72.179 0.66325 -0.0025534 0.0015608 NaN 20.454 20 12 2 NaN NaN NaN NaN 0 NaN NaN 0 490410 + 22201 14762 14025 14081 0.08107076039891581 PAARDHNRDKN 11 Unmodified _PAARDHNRDKN_ 0 0 0 REV__ENST00000424011.6_2_16:66646756-66647017:+|nuORF REV__ENST00000424011.6_2_16:66646756-66647017:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.323974609375 2 647.323973 1292.63339 NaN NaN NaN NaN NaN NaN NaN 75.106 1 75.106 74.606 75.606 0 0 0 0 1.0055 1 36799 36799 3.5965 0 1 + 22202 16198 14026 14082 25842 25842 -0.0012173526438346016 PAARDRPIAPL 11 Unmodified _PAARDRPIAPL_ 0 0 0 REV__ENST00000354050.8_2_20:44540720-44540765:-|nuORF REV__ENST00000354050.8_2_20:44540720-44540765:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.84765625 2 588.846022 1175.67749 NaN NaN NaN NaN NaN NaN NaN 80.055 1 80.304 79.804 80.804 0.24947 0 0 0 1.0055 1 36861 36861 3.5965 0 1 + 22203 15528 14027 14083 25843 25843 0.09667900899921733 PAAREQHLQ 9 Unmodified _PAAREQHLQ_ 0 0 0 ENST00000269346.8_1_17:72209689-72233491:+|nuORF ENST00000269346.8_1_17:72209689-72233491:+|nuORF ENST00000269346.8_1_17:72209689-72233491:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 525.1885375976562 2 525.277972 1048.54139 NaN NaN NaN NaN NaN NaN NaN 71.336 1 71.336 70.836 71.836 0 0 0 0 0.86044 1 34675 34675 7.2892 2.0586 1 22204 6643 14028 14084 25844 25844 0.019062063892533843 PAARGPRRG 9 Unmodified _PAARGPRRG_ 0 0 0 ENST00000522111.2_2_1:27320200-27320401:+|nuORF ENST00000522111.2_2_1:27320200-27320401:+|nuORF ENST00000522111.2_2_1:27320200-27320401:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 469.2783203125 2 469.275567 936.53658 NaN NaN NaN NaN NaN NaN NaN 72.331 1 72.59 72.09 73.09 0.25876 0 0 0 0.89509 1 33203 33203 4.756 0 1 22205 8646 14029 14085 25845 25845 0.06577367037141357 PAARGSRP 8 Unmodified _PAARGSRP_ 0 0 0 nc|ENSG00000138685|P09038-3|FGF2;nc|ENSG00000138685|P09038-1|FGF2;nc|ENSG00000138685|P09038|FGF2 nc|ENSG00000138685|P09038-3|FGF2 nc|ENSG00000138685|P09038-3|FGF2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.3345336914062 1 811.453311 810.446034 2.6999 0.0021908 -4.0635 -0.0032973 -1.3636 -0.0011065 811.4511663773777 89.08 0.068848 89.132 89.083 89.152 0.052155 17 12 2 0 0 0 0.14069 1 45533 45533 6.3541 0 1 36922000 22206 9665 14030 14086 25846 25846 0.03322897988846307 PAARHVRQHKL 11 Unmodified _PAARHVRQHKL_ 0 0 0 REV__ENSG00000196456|ENST00000329630|ZNF775 REV__ENSG00000196456|ENST00000329630|ZNF775 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 656.7472534179688 2 656.889087 1311.76362 NaN NaN NaN NaN NaN NaN NaN 94.729 1 94.729 94.229 95.229 0 0 0 0 1.0071 1 50887 50887 3.5965 0.31518 1 + 22207 14217 14031 14087 25847 25847 0.12020905525264425 PAARKHLNKL 10 Unmodified _PAARKHLNKL_ 0 0 0 ENSG00000197601|ENST00000354817|FAR1 ENSG00000197601|ENST00000354817|FAR1 ENSG00000197601|ENST00000354817|FAR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 574.3564453125 2 574.356557 1146.69856 NaN NaN NaN NaN NaN NaN NaN 12.27 1 12.908 12.408 13.408 0.63746 0 0 0 0.96627 1 5467 5467 10.824 2.9138 1 22208 5830 14032 14088 25848 25848 0.13107910999428896 PAARKLPRLP 10 Unmodified _PAARKLPRLP_ 0 0 0 ENST00000446816.1_1_2:96874348-96906424:+|nuORF ENST00000446816.1_1_2:96874348-96906424:+|nuORF ENST00000446816.1_1_2:96874348-96906424:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.8624877929688 2 559.861475 1117.7084 NaN NaN NaN NaN NaN NaN NaN 72.036 1 72.74 72.24 73.24 0.70386 0 0 0 0.99687 1 34638 34638 4.3292 0 1 22209 7980 14033 14089 25849 25849 0.15425099004801268 PAARKLPRLP 10 Unmodified _PAARKLPRLP_ 0 0 0 ENST00000446816.1_1_2:96874348-96906424:+|nuORF ENST00000446816.1_1_2:96874348-96906424:+|nuORF ENST00000446816.1_1_2:96874348-96906424:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.86181640625 2 559.861475 1117.7084 NaN NaN NaN NaN NaN NaN NaN 84.688 1 84.936 84.436 85.436 0.24757 0 0 0 0.99983 1 38977 38977 1.8442 0 1 22210 7980 14033 14089 25850 25850 0.15425099004801268 PAARKPPPGVR 11 Unmodified _PAARKPPPGVR_ 0 0 0 REV__ENSG00000170748|ENST00000306904|RBMXL2 REV__ENSG00000170748|ENST00000306904|RBMXL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 573.3248291015625 2 573.348732 1144.68291 NaN NaN NaN NaN NaN NaN NaN 96.634 1 96.912 96.412 97.412 0.27778 0 0 0 1.0055 1 44397 44397 3.5965 0 1 + 22211 13450 14034 14090 25851 25851 0.11635624482369167 PAARLFRRL 9 Unmodified _PAARLFRRL_ 0 0 0 REV__ENST00000449739.6_1_4:73923833-73935428:-|nuORF REV__ENST00000449739.6_1_4:73923833-73935428:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.3305053710938 2 550.345992 1098.67743 NaN NaN NaN NaN NaN NaN NaN 72.056 1 72.056 71.556 72.556 0 0 0 0 0.90228 1 35035 35035 5.2307 1.6342 1 + 22212 16404 14035 14091 25852 25852 0.1320394569054315 PAARLGQRLRV 11 Unmodified _PAARLGQRLRV_ 0 0 0 REV__ENST00000257359.6_1_11:130297588-130298293:-|nuORF REV__ENST00000257359.6_1_11:130297588-130298293:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 618.8851928710938 2 618.886013 1235.75747 NaN NaN NaN NaN NaN NaN NaN 72.431 1 72.69 72.19 73.19 0.25876 0 0 0 1.0055 1 33250 33250 3.5965 0 1 + 22213 14940 14036 14092 25853 25853 0.1490238729372777 PAARLPRP 8 Unmodified _PAARLPRP_ 0 0 0 REV__ENST00000357871.6_1_Y:14514177-14532211:-|nuORF REV__ENST00000357871.6_1_Y:14514177-14532211:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 438.7947998046875 2 439.271961 876.52937 NaN NaN NaN NaN NaN NaN NaN 63.68 1 64.402 63.902 64.902 0.72236 0 0 0 0.93233 1 29865 29865 10.183 0 1 + 22214 15574 14037 14093 25854 25854 0.08616634436702952 PAARLREVVYR 11 Unmodified _PAARLREVVYR_ 0 0 0 REV__ENSG00000188760|ENST00000373883|TMEM198 REV__ENSG00000188760|ENST00000373883|TMEM198 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 665.3903198242188 2 665.391128 1328.7677 NaN NaN NaN NaN NaN NaN NaN 79.545 1 79.865 79.365 80.365 0.31998 0 0 0 1.0038 1 38861 38861 5.7319 1.203 1 + 22215 14157 14038 14094 25855 25855 0.11646950228328024 PAARLRLCL 9 Unmodified _PAARLRLCL_ 0 0 0 ENST00000605822.5_1_12:51777307-51785490:-|nuORF;ENST00000605617.5_1_12:51777293-51785442:-|nuORF ENST00000605822.5_1_12:51777307-51785490:-|nuORF ENST00000605822.5_1_12:51777307-51785490:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.83245849609375 2 506.807854 1011.60115 NaN NaN NaN NaN NaN NaN NaN 70.811 1 71.515 71.015 72.015 0.70386 0 0 0 0.82031 1 33962 33962 8.5933 0 1 22216 9314 14039 14095 25856 25856 0.09581805798893583 PAARLRPGLR 10 Unmodified _PAARLRPGLR_ 0 0 0 REV__ENST00000440181.5_1_4:38637635-38666157:-|nuORF REV__ENST00000440181.5_1_4:38637635-38666157:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.91162109375 2 553.848899 1105.68324 NaN NaN NaN NaN NaN NaN NaN 77.881 1 78.442 77.942 78.942 0.56091 0 0 0 0.99687 1 37814 37814 4.3292 0 1 + 22217 16340 14040 14096 25857 25857 0.13463044202217134 PAARNHRRL 9 Unmodified _PAARNHRRL_ 0 0 0 REV__ENST00000541412.5_1_6:10723249-10723447:+|nuORF REV__ENST00000541412.5_1_6:10723249-10723447:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.8202514648438 2 545.820673 1089.62679 NaN NaN NaN NaN NaN NaN NaN 81.867 1 82.527 82.027 83.027 0.65998 0 0 0 0.89315 1 37723 37723 5.2307 0.90143 1 + 22218 17220 14041 14097 25858 25858 0.08556416365559016 PAARPETVKRY 11 Unmodified _PAARPETVKRY_ 0 0 0 nc|ENSG00000115266|O95996-2|APC2;nc|ENSG00000115266|O95996-3|APC2;ENSG00000115266|ENST00000590469|APC2 nc|ENSG00000115266|O95996-2|APC2 nc|ENSG00000115266|O95996-2|APC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 644.3629760742188 2 644.362036 1286.70952 NaN NaN NaN NaN NaN NaN NaN 73.752 1 74.416 73.916 74.916 0.6644 0 0 0 1.0055 1 33918 33918 3.5965 0 1 22219 1955 14042 14098 25859 25859 0.07763268583039462 PAARPHWLRQ 10 Unmodified _PAARPHWLRQ_ 0 0 0 ENST00000604516.1_1_6:79944248-79944593:+|nuORF ENST00000604516.1_1_6:79944248-79944593:+|nuORF ENST00000604516.1_1_6:79944248-79944593:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 616.3428955078125 2 616.343981 1230.67341 NaN NaN NaN NaN NaN NaN NaN 72.757 1 73.016 72.516 73.516 0.25876 0 0 0 0.99687 1 33403 33403 4.3292 0.38484 1 22220 9310 14043 14099 25860 25860 0.06729856196830042 PAARPPWGDG 10 Unmodified _PAARPPWGDG_ 0 0 0 REV__ENST00000472524.1_1_11:64122872-64124957:+|nuORF REV__ENST00000472524.1_1_11:64122872-64124957:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.2526245117188 2 512.253966 1022.49338 NaN NaN NaN NaN NaN NaN NaN 81.431 1 81.431 80.931 81.931 0 0 0 0 0.98866 1 40562 40562 7.2892 1.5288 1 + 22221 16520 14044 14100 25861 25861 -0.016968675308021375 PAARPRALLP 10 Unmodified _PAARPRALLP_ 0 0 0 nc|ENSG00000105339|A2RUS2-3|DENND3 nc|ENSG00000105339|A2RUS2-3|DENND3 nc|ENSG00000105339|A2RUS2-3|DENND3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.3345947265625 2 531.33255 1060.65055 NaN NaN NaN NaN NaN NaN NaN 94.297 1 94.297 93.797 94.797 0 0 0 0 0.98866 1 50543 50543 7.2892 2.96 1 22222 9586 14045 14101 25862 25862 0.12264837079374047 PAARRERRRPD 11 Unmodified _PAARRERRRPD_ 0 0 0 ENST00000264350.7_1_4:89378587-89380504:+|nuORF ENST00000264350.7_1_4:89378587-89380504:+|nuORF ENST00000264350.7_1_4:89378587-89380504:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 460.77020263671875 3 460.595747 1378.76541 NaN NaN NaN NaN NaN NaN NaN 63.358 1 64.08 63.58 64.58 0.72236 0 0 0 1.0055 1 29673 29673 1.4551 0.44154 1 22223 6603 14046 14102 25863 25863 0.09117914543230654 PAARRILKN 9 Unmodified _PAARRILKN_ 0 0 0 ENSG00000198691|ENST00000370225|ABCA4 ENSG00000198691|ENST00000370225|ABCA4 ENSG00000198691|ENST00000370225|ABCA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.8322143554688 2 519.830175 1037.6458 NaN NaN NaN NaN NaN NaN NaN 73.866 1 73.866 73.366 74.366 0 0 0 0 0.89315 1 36038 36038 5.2307 0 1 22224 5915 14047 14103 25864 25864 0.12847952936613183 PAARRLGA 8 Unmodified _PAARRLGA_ 0 0 0 REV__ENST00000481699.1_1_1:201858065-201858377:+|nuORF REV__ENST00000481699.1_1_1:201858065-201858377:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 811.494384765625 1 811.489696 810.48242 3.7951 0.0030797 0.74167 0.00060186 4.5368 0.0036816 811.4900619576654 83.013 0.3152 83.26 83.088 83.403 0.24722 35 16 3 0 0 0 0.69414 2 38276 38226;38276 6.3541 0 1 2843500 + 22225 14376 14048 14104 25865;25866 25866 0.06959774885569914 PAARRLGA 8 Unmodified _PAARRLGA_ 0 0 0 REV__ENST00000481699.1_1_1:201858065-201858377:+|nuORF REV__ENST00000481699.1_1_1:201858065-201858377:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 811.489696 810.48242 3.7951 0.0030797 0.74167 0.00060186 4.5368 0.0036816 811.4900619576654 83.013 0.3152 83.26 83.088 83.403 0.24722 -0.036262 0.00040827 NaN 6.3541 35 16 3 NaN NaN NaN NaN 0 NaN NaN 0 2843500 + 22226 14376 14048 14104 0.06959774885569914 PAARRLGA 8 Unmodified _PAARRLGA_ 0 0 0 REV__ENST00000481699.1_1_1:201858065-201858377:+|nuORF REV__ENST00000481699.1_1_1:201858065-201858377:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 811.489696 810.48242 4.0757 0.0033074 -0.08395 -6.8125E-05 3.9917 0.0032392 811.4895637558939 82.672 0.39653 83.333 83.094 83.491 0.66019 0.036262 -0.00026171 NaN 6.3541 51 22 3 NaN NaN NaN NaN 0 NaN NaN 0 2444900 + 22227 14376 14048 14104 0.06959774885569914 PAARRLPLRRR 11 Unmodified _PAARRLPLRRR_ 0 0 0 ENST00000321037.4_1_6:46097759-46107324:+|nuORF ENST00000321037.4_1_6:46097759-46107324:+|nuORF ENST00000321037.4_1_6:46097759-46107324:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 681.5895385742188 2 681.439278 1360.864 NaN NaN NaN NaN NaN NaN NaN 49.675 1 50.498 49.998 50.998 0.82285 0 0 0 1.0071 1 22629 22629 1.4819 0 1 22228 6927 14049 14105 25867 25867 0.1980056257891647 PAARRLPLRRR 11 Unmodified _PAARRLPLRRR_ 0 0 0 ENST00000321037.4_1_6:46097759-46107324:+|nuORF ENST00000321037.4_1_6:46097759-46107324:+|nuORF ENST00000321037.4_1_6:46097759-46107324:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 681.4419555664062 2 681.439278 1360.864 NaN NaN NaN NaN NaN NaN NaN 65.716 1 66.425 65.925 66.925 0.70891 0 0 0 1.0055 1 31102 31102 3.5965 2.1146 1 22229 6927 14049 14105 25868 25868 0.1980056257891647 PAARRLQPRWE 11 Unmodified _PAARRLQPRWE_ 0 0 0 ENST00000565281.5_1_15:66586029-66587341:+|nuORF ENST00000565281.5_1_15:66586029-66587341:+|nuORF ENST00000565281.5_1_15:66586029-66587341:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 690.38623046875 2 690.386377 1378.7582 NaN NaN NaN NaN NaN NaN NaN 93.109 1 93.109 92.609 93.609 0 0 0 0 1.0055 1 49645 49645 3.5965 0.60125 1 22230 9040 14050 14106 25869 25869 0.08397181942791576 PAARRLQPRWE 11 Unmodified _PAARRLQPRWE_ 0 0 0 ENST00000565281.5_1_15:66586029-66587341:+|nuORF ENST00000565281.5_1_15:66586029-66587341:+|nuORF ENST00000565281.5_1_15:66586029-66587341:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 690.3955078125 2 690.386377 1378.7582 NaN NaN NaN NaN NaN NaN NaN 73.914 1 74.579 74.079 75.079 0.6644 0 0 0 1.0055 1 34009 34009 3.5965 0.8613 1 22231 9040 14050 14106 25870 25870 0.08397181942791576 PAARRLYSR 9 Unmodified _PAARRLYSR_ 0 0 0 nc|ENSG00000160360|Q86YR5-3|GPSM1;nc|ENSG00000160360|Q86YR5|GPSM1;ENSG00000160360|ENST00000440944|GPSM1 nc|ENSG00000160360|Q86YR5-3|GPSM1 nc|ENSG00000160360|Q86YR5-3|GPSM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3184814453125 2 545.317432 1088.62031 3.3189 0.0018099 -1.1488 -0.00062645 2.1701 0.0011834 545.3166552432793 81.294 0.88069 81.542 80.979 81.86 0.24803 81 52 2 0 0 0 1.101 1 37441 37441 2.3027 0.24298 1 886180 22232 4057 14051 14107 25871 25871 0.07954478414194455 PAARRLYSR 9 Unmodified _PAARRLYSR_ 0 0 0 nc|ENSG00000160360|Q86YR5-3|GPSM1;nc|ENSG00000160360|Q86YR5|GPSM1;ENSG00000160360|ENST00000440944|GPSM1 nc|ENSG00000160360|Q86YR5-3|GPSM1 nc|ENSG00000160360|Q86YR5-3|GPSM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.276611328125 2 545.317432 1088.62031 4.348 0.002371 -2.395 -0.001306 1.953 0.001065 545.3157137096795 97.689 0.14515 97.979 97.907 98.052 0.28924 11 9 2 0 0 0 0.92809 1 44879 44879 5.2307 0.47466 1 415770 22233 4057 14051 14107 25872 25872 0.07954478414194455 PAARRLYSR 9 Unmodified _PAARRLYSR_ 0 0 0 nc|ENSG00000160360|Q86YR5-3|GPSM1;nc|ENSG00000160360|Q86YR5|GPSM1;ENSG00000160360|ENST00000440944|GPSM1 nc|ENSG00000160360|Q86YR5-3|GPSM1 nc|ENSG00000160360|Q86YR5-3|GPSM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.9697265625 2 545.317432 1088.62031 NaN NaN NaN NaN NaN NaN NaN 85.694 1 85.943 85.443 86.443 0.24857 0 0 0 0.90511 1 39432 39432 2.3027 0.4585 1 22234 4057 14051 14107 25873 25873 0.07954478414194455 PAARRLYSR 9 Unmodified _PAARRLYSR_ 0 0 0 nc|ENSG00000160360|Q86YR5-3|GPSM1;nc|ENSG00000160360|Q86YR5|GPSM1;ENSG00000160360|ENST00000440944|GPSM1 nc|ENSG00000160360|Q86YR5-3|GPSM1 nc|ENSG00000160360|Q86YR5-3|GPSM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.3196411132812 2 545.317432 1088.62031 3.592 0.0019588 -1.3987 -0.00076276 2.1933 0.001196 545.3166129372988 80.825 0.91656 81.485 80.971 81.887 0.65998 74 49 2 0 0 0 0.92809 3 37102 37102;37112;37406 5.2307 1.6342 1 719170 22235 4057 14051 14107 25874;25875;25876 25874 0.07954478414194455 PAARRQPLQA 10 Unmodified _PAARRQPLQA_ 0 0 0 REV__ENST00000374810.7_1_20:33292105-33293196:+|nuORF REV__ENST00000374810.7_1_20:33292105-33293196:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.3236694335938 2 554.322714 1106.63087 NaN NaN NaN NaN NaN NaN NaN 96.728 1 96.805 96.305 97.305 0.076538 0 0 0 0.98866 1 51490 51490 7.2892 0 1 + 22236 15793 14052 14108 25877 25877 0.08182461068622615 PAARRRKKK 9 Unmodified _PAARRRKKK_ 0 0 0 ENST00000434096.1_1_2:58688403-58689123:-|nuORF;ENSG00000113141|ENST00000417647|IK ENST00000434096.1_1_2:58688403-58689123:-|nuORF ENST00000434096.1_1_2:58688403-58689123:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.870849609375 2 555.870166 1109.72578 NaN NaN NaN NaN NaN NaN NaN 73.475 1 73.475 72.975 73.975 0 0 0 0 0.89315 1 35828 35828 5.2307 3.1709 1 22237 1836 14053 14109 25878 25878 0.1753043933047138 PAARRRRQSH 10 Unmodified _PAARRRRQSH_ 0 0 0 ENST00000409781.1_1_2:87016528-87017758:-|nuORF;ENST00000352580.7_2_2:87013010-87017728:-|nuORF;ENST00000283635.7_2_2:87016528-87018429:-|nuORF ENST00000409781.1_1_2:87016528-87017758:-|nuORF ENST00000409781.1_1_2:87016528-87017758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 617.851318359375 2 617.853035 1233.69152 NaN NaN NaN NaN NaN NaN NaN 76.614 1 76.869 76.369 77.369 0.25533 0 0 0 0.99687 1 35278 35278 4.3292 0.73274 1 22238 6710 14054 14110 25879 25879 0.0840199117155862 PAARRWQAD 9 Unmodified _PAARRWQAD_ 0 0 0 REV__ENST00000239830.8_1_12:510754-510841:+|nuORF REV__ENST00000239830.8_1_12:510754-510841:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.649658203125 2 535.778139 1069.54173 NaN NaN NaN NaN NaN NaN NaN 70.328 1 70.328 69.828 70.828 0 0 0 0 0.89315 1 34106 34106 5.2307 0 1 + 22239 14876 14055 14111 25880 25880 0.009736261090893095 PAARRWRNP 9 Unmodified _PAARRWRNP_ 0 0 0 ENST00000522309.1_1_X:134185341-134186138:-|nuORF;ENSG00000212747|ENST00000391440|RTL8B;ENSG00000203950|ENST00000370775|RTL8A;ENST00000520964.1_1_X:134185341-134186186:-|nuORF ENST00000522309.1_1_X:134185341-134186138:-|nuORF ENST00000522309.1_1_X:134185341-134186138:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.3158569335938 2 562.315223 1122.61589 NaN NaN NaN NaN NaN NaN NaN 65.009 1 65.009 64.509 65.509 0 0 0 0 0.89315 1 30898 30898 5.2307 0.90143 1 22240 5982 14056 14112 25881 25881 0.05949013991266838 PAARSRRR 8 Unmodified _PAARSRRR_ 0 0 0 REV__ENST00000507881.5_1_5:176873613-176881926:+|nuORF REV__ENST00000507881.5_1_5:176873613-176881926:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.29632568359375 2 485.294291 968.574029 NaN NaN NaN NaN NaN NaN NaN 88.683 1 89.361 88.861 89.861 0.67818 0 0 0 0.99035 1 40840 40840 6.3541 0 1 + 22241 16945 14057 14113 25882 25882 0.08848458302759354 PAARSRRRRSG 11 Unmodified _PAARSRRRRSG_ 0 0 0 REV__ENST00000507881.5_1_5:176873613-176881926:+|nuORF REV__ENST00000507881.5_1_5:176873613-176881926:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 635.3699340820312 2 635.371592 1268.72863 NaN NaN NaN NaN NaN NaN NaN 74.728 1 74.728 74.228 75.228 0 0 0 0 1.0055 1 36546 36546 3.5965 0 1 + 22242 16945 14058 14114 25883 25883 0.1050166271731996 PAARTRKRKE 10 Unmodified _PAARTRKRKE_ 0 0 0 nc|ENSG00000196470|Q8IUQ4-2|SIAH1 nc|ENSG00000196470|Q8IUQ4-2|SIAH1 nc|ENSG00000196470|Q8IUQ4-2|SIAH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 606.7698364257812 2 606.86782 1211.72109 NaN NaN NaN NaN NaN NaN NaN 74.459 1 75.123 74.623 75.623 0.6644 0 0 0 0.99983 1 34276 34276 1.8442 0 1 22243 9798 14059 14115 25884 25884 0.12369510397024897 PAARTSVRFLL 11 Unmodified _PAARTSVRFLL_ 0 0 0 ENST00000379177.5_1_X:24167867-24169901:+|nuORF ENST00000379177.5_1_X:24167867-24169901:+|nuORF ENST00000379177.5_1_X:24167867-24169901:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 615.8702392578125 2 615.869497 1229.72444 NaN NaN NaN NaN NaN NaN NaN 73.386 1 73.644 73.144 74.144 0.25876 0 0 0 1.0055 1 33706 33706 3.5965 0 1 22244 7448 14060 14116 25885 25885 0.11876760451059454 PAARWPPG 8 Unmodified _PAARWPPG_ 0 0 0 ENSG00000073067|ENST00000308919|CYP2W1 ENSG00000073067|ENST00000308919|CYP2W1 ENSG00000073067|ENST00000308919|CYP2W1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 426.22882080078125 2 426.229762 850.444972 NaN NaN NaN NaN NaN NaN NaN 63.89 1 63.89 63.39 64.39 0 0 0 0 0.91812 1 30139 30139 11.114 0 1 22245 801 14061 14117 25886 25886 0.013766836199465615 PAARWSDP 8 Unmodified _PAARWSDP_ 0 0 0 ENST00000553164.1_1_12:56708586-56709779:-|nuORF ENST00000553164.1_1_12:56708586-56709779:-|nuORF ENST00000553164.1_1_12:56708586-56709779:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.2218322753906 2 450.222134 898.429715 NaN NaN NaN NaN NaN NaN NaN 66.392 1 66.392 65.892 66.892 0 0 0 0 0.99035 1 31728 31728 6.3541 0 1 22246 8896 14062 14118 25887 25887 -0.023562279679026688 PAASARQLTM 10 Unmodified _PAASARQLTM_ 0 0 0 REV__ENST00000508531.1_1_4:95445006-95500681:+|nuORF REV__ENST00000508531.1_1_4:95445006-95500681:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.2128295898438 2 523.276583 1044.53861 NaN NaN NaN NaN NaN NaN NaN 71.146 1 71.146 70.646 71.646 0 0 0 0 0.98866 1 34570 34570 7.2892 0.56607 1 + 22247 12978 14063 14119 25888 25888 0.018126149400586655 PAASCPGRR 9 Unmodified _PAASCPGRR_ 0 0 0 ENST00000252595.11_1_19:17616483-17616651:+|nuORF ENST00000252595.11_1_19:17616483-17616651:+|nuORF ENST00000252595.11_1_19:17616483-17616651:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 457.4178466796875 2 457.734886 913.455219 NaN NaN NaN NaN NaN NaN NaN 64.029 1 64.029 63.529 64.529 0 0 0 0 0.82031 1 30237 30237 8.5933 2.2392 1 22248 6508 14064 14120 25889 25889 -0.004970767171244006 PAASDNFTDR 10 Unmodified _PAASDNFTDR_ 0 0 0 REV__ENSG00000181143|ENST00000397910|MUC16 REV__ENSG00000181143|ENST00000397910|MUC16 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.4053344726562 2 547.249077 1092.4836 NaN NaN NaN NaN NaN NaN NaN 75.193 1 75.193 74.693 75.693 0 0 0 0 0.99225 1 36841 36841 6.7232 0.96273 1 + 22249 13844 14065 14121 25890 25890 -0.05894100326872831 PAASEKEFLW 10 Unmodified _PAASEKEFLW_ 0 0 0 ENST00000348370.8_1_15:59279968-59280058:+|nuORF ENST00000348370.8_1_15:59279968-59280058:+|nuORF ENST00000348370.8_1_15:59279968-59280058:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.2966918945312 2 589.298039 1176.58152 NaN NaN NaN NaN NaN NaN NaN 76.191 1 76.855 76.355 77.355 0.66387 0 0 0 0.99687 1 35099 35099 4.3292 0 1 22250 7126 14066 14122 25891 25891 0.0002970826915316138 PAASERPLWD 10 Unmodified _PAASERPLWD_ 0 0 0 nc|ENSG00000242802|O43299-3|AP5Z1;ENST00000477680.5_1_7:4815294-4829561:+|nuORF;nc|ENSG00000242802|O43299-2|AP5Z1;ENST00000496303.5_1_7:4815289-4829878:+|nuORF;ENSG00000242802|ENST00000649063|AP5Z1;ENST00000477454.1_1_7:4827252-4828627:+|nuORF nc|ENSG00000242802|O43299-3|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.3091430664062 2 571.285463 1140.55637 NaN NaN NaN NaN NaN NaN NaN 79.068 1 79.728 79.228 80.228 0.66082 0 0 0 0.99687 1 36434 36434 4.3292 0 1 22251 6232 14067 14123 25892 25892 -0.008283465334216089 PAASICCRGPR 11 Unmodified _PAASICCRGPR_ 0 0 0 REV__CON__Q61726 REV__CON__Q61726 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.9569702148438 2 565.78151 1129.54847 NaN NaN NaN NaN NaN NaN NaN 68.838 1 68.838 68.338 69.338 0 0 0 0 1.0034 1 33171 33171 6.2058 0.47393 1 + + 22252 10097 14068 14124 25893 25893 -0.011125203262054129 PAASKLFLLLL 11 Unmodified _PAASKLFLLLL_ 0 0 0 REV__ENSG00000198670|ENST00000316300|LPA REV__ENSG00000198670|ENST00000316300|LPA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 593.71142578125 2 593.383917 1184.75328 NaN NaN NaN NaN NaN NaN NaN 81.198 1 81.858 81.358 82.358 0.65998 0 0 0 1.0055 1 37410 37410 3.5965 1.7523 1 + 22253 14346 14069 14125 25894 25894 0.16829485027483315 PAASLVVPH 9 Unmodified _PAASLVVPH_ 0 0 0 REV__ENST00000538523.5_1_19:1387763-1393403:+|nuORF REV__ENST00000538523.5_1_19:1387763-1393403:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 445.75726318359375 2 445.758352 889.502152 NaN NaN NaN NaN NaN NaN NaN 62.346 1 62.346 61.846 62.846 0 0 0 0 0.82031 1 29209 29209 8.5933 2.2392 1 + 22254 17193 14070 14126 25895 25895 0.05298106105658462 PAASPRRKQRM 11 Unmodified _PAASPRRKQRM_ 0 0 0 ENST00000339526.8_1_1:182359866-182360031:-|nuORF ENST00000339526.8_1_1:182359866-182360031:-|nuORF ENST00000339526.8_1_1:182359866-182360031:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 649.3695068359375 2 649.36713 1296.71971 NaN NaN NaN NaN NaN NaN NaN 96.519 1 96.519 96.019 97.019 0 0 0 0 1.0059 1 52260 52260 2.9952 0 1 22255 7058 14071 14127 25896 25896 0.08321553036626028 PAASQLRYSVP 11 Unmodified _PAASQLRYSVP_ 0 0 0 ENSG00000243232|ENST00000289269|PCDHAC2;nc|ENSG00000243232|Q9Y5I4-2|PCDHAC2 ENSG00000243232|ENST00000289269|PCDHAC2 ENSG00000243232|ENST00000289269|PCDHAC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 594.8191528320312 2 594.822212 1187.62987 NaN NaN NaN NaN NaN NaN NaN 90.106 1 90.17 89.67 90.67 0.064346 0 0 0 0.99968 1 46346 46346 6.7232 0.51738 1 22256 6235 14072 14128 25897 25897 0.04356201909035917 PAASRPPRKRE 11 Unmodified _PAASRPPRKRE_ 0 0 0 ENSG00000100056|ENST00000252137|ESS2;ENST00000469466.1_1_22:19131937-19132153:-|nuORF ENSG00000100056|ENST00000252137|ESS2 ENSG00000100056|ENST00000252137|ESS2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.3355712890625 2 632.865277 1263.716 3.7068 0.0023459 1.9798 0.0012529 5.6865 0.0035988 633.3673723671858 43.074 0.077156 43.074 43.037 43.114 0 6 4 2 0 0 0 0.13295 1 19629 19629 6.2058 2.6093 1 8292500 22257 1170 14073 14129 25898 25898 0.09469206534436125 PAASVCRARWM 11 Unmodified _PAASVCRARWM_ 0 0 0 REV__ENST00000474541.1_1_1:247241930-247242071:-|nuORF REV__ENST00000474541.1_1_1:247241930-247242071:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 624.3109741210938 2 624.310435 1246.60632 NaN NaN NaN NaN NaN NaN NaN 70.818 1 71.522 71.022 72.022 0.70386 0 0 0 1.0055 1 33966 33966 3.5965 0 1 + 22258 16637 14074 14130 25899 25899 -0.007122584007674959 PAASVYSR 8 Unmodified _PAASVYSR_ 0 0 0 REV__ENSG00000151150|ENST00000280772|ANK3 REV__ENSG00000151150|ENST00000280772|ANK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 425.7411804199219 2 425.72451 849.434466 NaN NaN NaN NaN NaN NaN NaN 74.712 1 75.377 74.877 75.877 0.6644 0 0 0 0.95658 1 34401 34401 8.5933 0 1 + 22259 12607 14075 14131 25900 25900 0.003726561748635504 PAATARLSRRG 11 Unmodified _PAATARLSRRG_ 0 0 0 ENSG00000170498|ENST00000367194|KISS1 ENSG00000170498|ENST00000367194|KISS1 ENSG00000170498|ENST00000367194|KISS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.3468017578125 2 578.338895 1154.66324 NaN NaN NaN NaN NaN NaN NaN 82.908 1 82.953 82.453 83.453 0.045006 0 0 0 0.9645 1 41011 41011 10.074 1.3285 1 22260 4753 14076 14132 25901 25901 0.09209248471597675 PAATCFPEPF 10 Unmodified _PAATCFPEPF_ 0 0 0 ENST00000436565.2_1_13:77561342-77561690:+|nuORF ENST00000436565.2_1_13:77561342-77561690:+|nuORF ENST00000436565.2_1_13:77561342-77561690:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.3658447265625 2 540.24696 1078.47937 NaN NaN NaN NaN NaN NaN NaN 67.805 1 67.805 67.305 68.305 0 0 0 0 0.98866 1 32578 32578 7.2892 0.56607 1 22261 7899 14077 14133 25902 25902 -0.05673281074132319 PAATELPNQ 9 Unmodified _PAATELPNQ_ 0 0 0 ENST00000473758.5_1_14:23537713-23537824:-|nuORF ENST00000473758.5_1_14:23537713-23537824:-|nuORF ENST00000473758.5_1_14:23537713-23537824:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.7398681640625 2 470.740357 939.46616 NaN NaN NaN NaN NaN NaN NaN 68.435 1 69.137 68.637 69.637 0.70218 0 0 0 0.82031 1 32626 32626 8.5933 0 1 22262 8201 14078 14134 25903 25903 -0.005993958618546458 PAATFHFN 8 Unmodified _PAATFHFN_ 0 0 0 REV__nc|ENSG00000188010|Q502X0|MORN2 REV__nc|ENSG00000188010|Q502X0|MORN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.05499267578125 2 452.719227 903.423902 NaN NaN NaN NaN NaN NaN NaN 73.697 1 73.956 73.456 74.456 0.25876 0 0 0 0.99035 1 33856 33856 2.8892 0 1 + 22263 14127 14079 14135 25904 25904 -0.03167326479581334 PAATHQDID 9 Unmodified _PAATHQDID_ 0 0 0 ENSG00000136750|ENST00000376261|GAD2 ENSG00000136750|ENST00000376261|GAD2 ENSG00000136750|ENST00000376261|GAD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.2270812988281 2 484.227613 966.440674 NaN NaN NaN NaN NaN NaN NaN 82.429 1 82.513 82.013 83.013 0.084106 0 0 0 0.89315 1 40721 40721 5.2307 0 1 22264 2970 14080 14136 25905 25905 -0.04388870384286747 PAATLALEEDL 11 Unmodified _PAATLALEEDL_ 0 0 0 nc|ENSG00000196712|P21359-2|NF1;nc|ENSG00000196712|P21359-6|NF1;ENSG00000196712|ENST00000358273|NF1;ENST00000579081.5_2_17:29626598-29701170:+|nuORF;ENST00000493220.5_2_17:29556858-29657521:+|nuORF nc|ENSG00000196712|P21359-2|NF1 nc|ENSG00000196712|P21359-2|NF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.80419921875 2 571.800611 1141.58667 NaN NaN NaN NaN NaN NaN NaN 77.45 1 77.705 77.205 78.205 0.25533 0 0 0 0.9645 1 35668 35668 10.074 0 1 22265 5773 14081 14137 25906 25906 0.02153967341087082 PAATLGRRRRH 11 Unmodified _PAATLGRRRRH_ 0 0 0 REV__ENST00000575334.5_3_16:4466638-4470487:-|nuORF REV__ENST00000575334.5_3_16:4466638-4470487:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 645.8815307617188 2 645.884336 1289.75412 NaN NaN NaN NaN NaN NaN NaN 105.47 1 105.79 105.29 106.29 0.31782 0 0 0 1.0055 1 48687 48687 3.5965 0.31518 1 + 22266 17459 14082 14138 25907 25907 0.12083137239733333 PAATLKLRRQ 10 Unmodified _PAATLKLRRQ_ 0 0 0 nc|ENSG00000164663|Q70CQ1-2|USP49;ENSG00000164663|ENST00000682992|USP49 nc|ENSG00000164663|Q70CQ1-2|USP49 nc|ENSG00000164663|Q70CQ1-2|USP49 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 577.3187866210938 2 577.361839 1152.70913 NaN NaN NaN NaN NaN NaN NaN 73.366 1 73.366 72.866 73.866 0 0 0 0 0.99687 1 35750 35750 4.3292 0 1 22267 4333 14083 14139 25908 25908 0.1388789365385037 PAATLLRRLLR 11 Unmodified _PAATLLRRLLR_ 0 0 0 REV__ENST00000369558.5_1_1:114472360-114472540:+|nuORF REV__ENST00000369558.5_1_1:114472360-114472540:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 640.4185791015625 2 640.419688 1278.82482 NaN NaN NaN NaN NaN NaN NaN 81.449 1 81.697 81.197 82.197 0.24803 0 0 0 1.0071 1 37500 37500 3.5965 2.4032 1 + 22268 15707 14084 14140 25909 25909 0.196564175047115 PAATLLVLE 9 Unmodified _PAATLLVLE_ 0 0 0 REV__ENSG00000204673|ENST00000344175|AKT1S1 REV__ENSG00000204673|ENST00000344175|AKT1S1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.78399658203125 2 463.781493 925.548434 NaN NaN NaN NaN NaN NaN NaN 97.477 1 97.766 97.266 98.266 0.28923 0 0 0 0.82031 1 44779 44779 8.5933 3.3626 1 + 22269 14437 14085 14141 25910 25910 0.08268126217092231 PAATPLQKNK 10 Unmodified _PAATPLQKNK_ 0 0 0 REV__ENST00000565288.1_1_15:52844133-52849247:-|nuORF REV__ENST00000565288.1_1_15:52844133-52849247:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 534.3131103515625 2 534.314023 1066.61349 NaN NaN NaN NaN NaN NaN NaN 78.706 1 79.17 78.67 79.67 0.4642 0 0 0 0.99225 1 38303 38303 6.7232 0.51738 1 + 22270 11775 14086 14142 25911 25911 0.08285120742925756 PAATPRKQ 8 Unmodified _PAATPRKQ_ 0 0 0 ENSG00000165588|ENST00000672264|OTX2 ENSG00000165588|ENST00000672264|OTX2 ENSG00000165588|ENST00000672264|OTX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.42559814453125 2 434.753601 867.49265 NaN NaN NaN NaN NaN NaN NaN 60.464 1 61.203 60.703 61.703 0.7396 0 0 0 0.93233 1 27901 27901 10.183 0.83596 1 22271 4410 14087 14143 25912 25912 0.053603378201387386 PAATPVWLR 9 Unmodified _PAATPVWLR_ 0 0 0 REV__ENST00000413171.6_1_7:872201-878607:+|nuORF REV__ENST00000413171.6_1_7:872201-878607:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.7909851074219 2 505.792727 1009.5709 NaN NaN NaN NaN NaN NaN NaN 80.476 1 80.644 80.144 81.144 0.16862 0 0 0 0.89509 1 39445 39445 4.756 1.7608 1 + 22272 16112 14088 14144 25913 25913 0.06649770405363142 PAATRLERFIS 11 Unmodified _PAATRLERFIS_ 0 0 0 ENST00000330175.8_2_17:48188692-48189373:-|nuORF ENST00000330175.8_2_17:48188692-48189373:-|nuORF ENST00000330175.8_2_17:48188692-48189373:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 630.8551025390625 2 630.856586 1259.69862 NaN NaN NaN NaN NaN NaN NaN 76.095 1 76.352 75.852 76.852 0.25704 0 0 0 1.0055 1 35031 35031 3.5965 0 1 22273 6982 14089 14145 25914 25914 0.07915866208736588 PAATRWRWWW 10 Unmodified _PAATRWRWWW_ 0 0 0 REV__ENST00000302937.8_1_19:54694186-54695312:+|nuORF REV__ENST00000302937.8_1_19:54694186-54695312:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 708.3588256835938 2 708.359631 1414.70471 NaN NaN NaN NaN NaN NaN NaN 56.537 1 57.205 56.705 57.705 0.66829 0 0 0 0.99983 1 25864 25864 1.8442 0 1 + 22274 15206 14090 14146 25915 25915 0.013944292309133743 PAATWRELL 9 Unmodified _PAATWRELL_ 0 0 0 ENST00000397278.7_1_22:36649201-36651020:+|nuORF ENST00000397278.7_1_22:36649201-36651020:+|nuORF ENST00000397278.7_1_22:36649201-36651020:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.7328491210938 2 528.795466 1055.57638 NaN NaN NaN NaN NaN NaN NaN 72.217 1 72.921 72.421 73.421 0.70386 0 0 0 0.89315 1 34746 34746 5.2307 0 1 22275 7578 14091 14147 25916 25916 0.0508144919717779 PAAVCPLLHR 10 Unmodified _PAAVCPLLHR_ 0 0 0 ENST00000339526.8_1_1:182359725-182359815:-|nuORF ENST00000339526.8_1_1:182359725-182359815:-|nuORF ENST00000339526.8_1_1:182359725-182359815:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.8046875 2 538.805311 1075.59607 NaN NaN NaN NaN NaN NaN NaN 65.513 1 65.513 65.013 66.013 0 0 0 0 0.96627 1 31223 31223 10.824 2.9138 1 22276 7057 14092 14148 25917 25917 0.061295019362887615 PAAVGHVH 8 Unmodified _PAAVGHVH_ 0 0 0 REV__ENST00000476095.5_1_3:47048649-47049645:+|nuORF REV__ENST00000476095.5_1_3:47048649-47049645:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.267822265625 2 394.214112 786.413671 2.6546 0.0010465 1.692 0.00066703 4.3467 0.0017135 394.214752367966 38.808 0.23846 38.808 38.653 38.891 0 14 9 2 0 0 0 0.14333 1 17604 17604 0.79363 0.79363 1 174730 + 22277 16648 14093 14149 25918 25918 0.01192110585861883 PAAVHQFH 8 Unmodified _PAAVHQFH_ 0 0 0 REV__ENSG00000101126|ENST00000621696|ADNP REV__ENSG00000101126|ENST00000621696|ADNP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 453.7572021484375 2 453.732669 905.450785 NaN NaN NaN NaN NaN NaN NaN 62.182 1 62.182 61.682 62.682 0 0 0 0 0.99035 1 29116 29116 6.3541 0 1 + 22278 10867 14094 14150 25919 25919 -0.005722178683868151 PAAVHQFHERY 11 Unmodified _PAAVHQFHERY_ 0 0 0 REV__ENSG00000101126|ENST00000621696|ADNP REV__ENSG00000101126|ENST00000621696|ADNP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 677.8357543945312 2 677.836185 1353.65782 NaN NaN NaN NaN NaN NaN NaN 84.317 1 84.317 83.817 84.817 0 0 0 0 1.0055 1 42665 42665 3.5965 0.60125 1 + 22279 10867 14095 14151 25920 25920 -0.004864751108470955 PAAVPLLLLL 10 Unmodified _PAAVPLLLLL_ 0 0 0 ENSG00000172382|ENST00000302641|PRSS27 ENSG00000172382|ENST00000302641|PRSS27 ENSG00000172382|ENST00000302641|PRSS27 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.3973388671875 2 510.346803 1018.67905 NaN NaN NaN NaN NaN NaN NaN 65.223 1 65.932 65.432 66.432 0.70891 0 0 0 0.98473 1 30818 30818 7.9102 3.5809 1 22280 4869 14096 14152 25921 25921 0.1704614193595262 PAAVPVPLRMQ 11 Unmodified _PAAVPVPLRMQ_ 0 0 0 ENST00000584908.5_1_17:37856482-37868536:+|nuORF ENST00000584908.5_1_17:37856482-37868536:+|nuORF ENST00000584908.5_1_17:37856482-37868536:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.875244140625 2 589.839351 1177.66415 NaN NaN NaN NaN NaN NaN NaN 85.554 1 85.582 85.082 86.082 0.028603 0 0 0 1.0057 1 42854 42854 3.2813 0.28607 1 22281 9172 14097 14153 25922 25922 0.08242326796312227 PAAVRKLHKKP 11 Unmodified _PAAVRKLHKKP_ 0 0 0 REV__ENST00000373626.4_1_X:71494279-71497060:-|nuORF REV__ENST00000373626.4_1_X:71494279-71497060:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 622.9060668945312 2 622.901131 1243.78771 NaN NaN NaN NaN NaN NaN NaN 69.743 1 69.743 69.243 70.243 0 0 0 0 0.97175 1 33734 33734 9.3831 1.7742 1 + 22282 11796 14098 14154 25923 25923 0.17556745958927422 PAAVSHSEFWH 11 Unmodified _PAAVSHSEFWH_ 0 0 0 nc|ENSG00000160058|Q9NW68-9|BSDC1;nc|ENSG00000160058|Q9NW68-4|BSDC1;nc|ENSG00000160058|Q9NW68-8|BSDC1;nc|ENSG00000160058|Q9NW68-2|BSDC1;ENSG00000160058|ENST00000455895|BSDC1;nc|ENSG00000160058|Q9NW68-7|BSDC1;nc|ENSG00000160058|Q9NW68-3|BSDC1 nc|ENSG00000160058|Q9NW68-9|BSDC1 nc|ENSG00000160058|Q9NW68-9|BSDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 634.2969970703125 2 634.296362 1266.57817 NaN NaN NaN NaN NaN NaN NaN 66.04 1 66.744 66.244 67.244 0.7047 0 0 0 1.0055 1 31278 31278 3.5965 0 1 22283 4040 14099 14155 25924 25924 -0.04445541784866691 PAAVVLLVESI 11 Unmodified _PAAVVLLVESI_ 0 0 0 ENST00000524965.5_1_8:145540848-145542370:-|nuORF;ENSG00000185000|ENST00000528718|DGAT1;ENST00000525371.1_1_8:145542007-145542573:-|nuORF;ENST00000531896.5_1_8:145541583-145550314:-|nuORF ENST00000524965.5_1_8:145540848-145542370:-|nuORF ENST00000524965.5_1_8:145540848-145542370:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.8428955078125 2 555.842082 1109.66961 NaN NaN NaN NaN NaN NaN NaN 98.264 1 98.863 98.363 99.363 0.59885 0 0 0 0.95662 1 45283 45283 10.824 2.9138 1 22284 5477 14100 14156 25925 25925 0.11916328859774694 PAAVVVRQGR 10 Unmodified _PAAVVVRQGR_ 0 0 0 ENST00000567819.1_1_2:241525590-241525881:-|nuORF ENST00000567819.1_1_2:241525590-241525881:-|nuORF ENST00000567819.1_1_2:241525590-241525881:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.3126831054688 2 526.819807 1051.62506 NaN NaN NaN NaN NaN NaN NaN 73.053 1 73.752 73.252 74.252 0.69881 0 0 0 0.98866 1 35206 35206 7.2892 0 1 22285 9062 14101 14157 25926 25926 0.1013136255696736 PAAVVWLHV 9 Unmodified _PAAVVWLHV_ 0 0 0 ENST00000451837.5_1_22:24056493-24059477:-|nuORF;ENST00000452737.5_1_22:24056401-24059477:-|nuORF;nc|ENSG00000272578|Q6P575|GUSBP11 ENST00000451837.5_1_22:24056493-24059477:-|nuORF ENST00000451837.5_1_22:24056493-24059477:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.3067321777344 2 496.28982 990.565087 NaN NaN NaN NaN NaN NaN NaN 73.034 1 73.698 73.198 74.198 0.66398 0 0 0 0.7971 1 33543 33543 9.3474 0 1 22286 8021 14102 14158 25927 25927 0.06942671893716579 PAAVYHHHH 9 Unmodified _PAAVYHHHH_ 0 0 0 ENSG00000078399|ENST00000343483|HOXA9 ENSG00000078399|ENST00000343483|HOXA9 ENSG00000078399|ENST00000343483|HOXA9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.759521484375 2 534.759749 1067.50495 NaN NaN NaN NaN NaN NaN NaN 95.098 1 95.098 94.598 95.598 0 0 0 0 0.89315 1 51128 51128 5.2307 0 1 22287 878 14103 14159 25928 25928 -0.026106257168294178 PAAWCSRR 8 Unmodified _PAAWCSRR_ 0 0 0 REV__ENST00000520220.6_2_8:56792441-56792612:+|nuORF REV__ENST00000520220.6_2_8:56792441-56792612:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.75750732421875 2 473.737428 945.460304 NaN NaN NaN NaN NaN NaN NaN 73.264 1 73.962 73.462 74.462 0.69881 0 0 0 0.99035 1 35309 35309 2.8892 0 1 + 22288 17043 14104 14160 25929 25929 -0.014607728545115606 PAAWDRHFEPH 11 Unmodified _PAAWDRHFEPH_ 0 0 0 REV__Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|98|3|sense REV__Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|98|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.63330078125 3 454.882782 1361.62652 NaN NaN NaN NaN NaN NaN NaN 67.911 1 68.613 68.113 69.113 0.70218 0 0 0 1.0071 1 32338 32338 1.4551 0.24029 1 + 22289 17716 14105 14161 25930 25930 -0.039830481449598665 PAAWLWHGDL 10 Unmodified _PAAWLWHGDL_ 0 0 0 REV__ENST00000504763.1_1_5:94892021-94892342:+|nuORF REV__ENST00000504763.1_1_5:94892021-94892342:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.2984008789062 2 583.293091 1164.57163 NaN NaN NaN NaN NaN NaN NaN 74.201 1 74.46 73.96 74.96 0.25874 0 0 0 0.98473 1 34114 34114 7.9102 0.62092 1 + 22290 16913 14106 14162 25931 25931 -0.004074349455549964 PAAWNKED 8 Unmodified _PAAWNKED_ 0 0 0 ENSG00000004700|ENST00000444129|RECQL ENSG00000004700|ENST00000444129|RECQL ENSG00000004700|ENST00000444129|RECQL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.7203063964844 2 465.719424 929.424296 NaN NaN NaN NaN NaN NaN NaN 76.623 1 77.247 76.747 77.747 0.62397 0 0 0 0.99035 1 37147 37147 6.3541 1.1234 1 22291 315 14107 14163 25932 25932 -0.043239515503842085 PAAWPFLLRIW 11 Unmodified _PAAWPFLLRIW_ 0 0 0 nc|ENSG00000113719|Q969X5-3|ERGIC1 nc|ENSG00000113719|Q969X5-3|ERGIC1 nc|ENSG00000113719|Q969X5-3|ERGIC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 685.3928833007812 2 685.392608 1368.77066 NaN NaN NaN NaN NaN NaN NaN 68.874 1 69.576 69.076 70.076 0.70218 0 0 0 1.0055 1 32874 32874 3.5965 0.60125 1 22292 9597 14108 14164 25933 25933 0.1010282535312399 PAAWPFLLRIW 11 Unmodified _PAAWPFLLRIW_ 0 0 0 nc|ENSG00000113719|Q969X5-3|ERGIC1 nc|ENSG00000113719|Q969X5-3|ERGIC1 nc|ENSG00000113719|Q969X5-3|ERGIC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 685.3935546875 2 685.392608 1368.77066 NaN NaN NaN NaN NaN NaN NaN 73.277 1 73.976 73.476 74.476 0.69881 0 0 0 1.0055 1 35315 35315 3.5965 0.60125 1 22293 9597 14108 14164 25934 25934 0.1010282535312399 PAAWRGMRPRR 11 Unmodified _PAAWRGMRPRR_ 0 0 0 ENST00000334274.8_2_11:33061177-33061234:+|nuORF ENST00000334274.8_2_11:33061177-33061234:+|nuORF ENST00000334274.8_2_11:33061177-33061234:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 677.3727416992188 2 677.375289 1352.73603 NaN NaN NaN NaN NaN NaN NaN 70.355 1 70.355 69.855 70.855 0 0 0 0 1.0055 1 34126 34126 3.5965 0.31518 1 22294 7017 14109 14165 25935 25935 0.07376678993364294 PAAWRRKRLKG 11 Unmodified _PAAWRRKRLKG_ 0 0 0 ENST00000367577.6_2_1:181059300-181059528:+|nuORF ENST00000367577.6_2_1:181059300-181059528:+|nuORF ENST00000367577.6_2_1:181059300-181059528:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 669.915771484375 2 669.915104 1337.81566 NaN NaN NaN NaN NaN NaN NaN 71.82 1 71.82 71.32 72.32 0 0 0 0 1.0055 1 34914 34914 3.5965 0.60125 1 22295 7266 14110 14166 25936 25936 0.16026068939027027 PAAWRVWNLN 10 Unmodified _PAAWRVWNLN_ 0 0 0 nc|ENSG00000168071|A6NC98-2|CCDC88B;ENST00000463837.5_1_11:64107738-64120281:+|nuORF;nc|ENSG00000168071|A6NC98-4|CCDC88B;ENSG00000168071|ENST00000356786|CCDC88B nc|ENSG00000168071|A6NC98-2|CCDC88B nc|ENSG00000168071|A6NC98-2|CCDC88B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 613.5076293945312 2 613.825089 1225.63563 NaN NaN NaN NaN NaN NaN NaN 77.244 1 77.907 77.407 78.407 0.66303 0 0 0 0.99687 1 35596 35596 4.3292 0 1 22296 4602 14111 14167 25937 25937 0.0318334521136876 PAAWVDLTIAF 11 Unmodified _PAAWVDLTIAF_ 0 0 0 ENSG00000132622|ENST00000254963|HSPA12B ENSG00000132622|ENST00000254963|HSPA12B ENSG00000132622|ENST00000254963|HSPA12B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 602.3260498046875 2 602.324057 1202.63356 NaN NaN NaN NaN NaN NaN NaN 73.344 1 73.603 73.103 74.103 0.25876 0 0 0 0.99968 1 33687 33687 6.7232 0.99131 1 22297 2715 14112 14168 25938 25938 0.040348716828930264 PAAWYYKPALR 11 Unmodified _PAAWYYKPALR_ 0 0 0 REV__ENST00000579014.5_1_18:6942080-7042306:-|nuORF REV__ENST00000579014.5_1_18:6942080-7042306:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.3648681640625 2 668.364047 1334.71354 NaN NaN NaN NaN NaN NaN NaN 68.419 1 69.121 68.621 69.621 0.70218 0 0 0 1.0055 1 32617 32617 3.5965 0 1 + 22298 10908 14113 14169 25939 25939 0.05957358076739183 PAAYDEGHSN 10 Unmodified _PAAYDEGHSN_ 0 0 0 REV__nc|ENSG00000166589|O75309-3|CDH16 REV__nc|ENSG00000166589|O75309-3|CDH16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1061.6693115234375 1 1060.43303 1059.42575 2.8465 0.0030185 0.64029 0.00067899 3.4868 0.0036975 1060.4350539937616 88.445 0.04216 88.445 88.419 88.461 0 6 5 2 0 0 0 0.88655 1 45899 45899 4.3292 0 1 10010000 + 22299 13249 14114 14170 25940 25940 -0.10158362252286679 PAAYIQKLKSY 11 Unmodified _PAAYIQKLKSY_ 0 0 0 ENSG00000184922|ENST00000331495|FMNL1;nc|ENSG00000184922|O95466-2|FMNL1;nc|ENSG00000184922|O95466-3|FMNL1 ENSG00000184922|ENST00000331495|FMNL1 ENSG00000184922|ENST00000331495|FMNL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.347900390625 2 641.363713 1280.71287 NaN NaN NaN NaN NaN NaN NaN 78.335 1 78.8 78.3 79.3 0.4642 0 0 0 1.0055 1 38080 38080 3.5965 0 1 22300 5468 14115 14171 25941 25941 0.08374518637037909 PAAYLYVEEQE 11 Unmodified _PAAYLYVEEQE_ 0 0 0 nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-14|DST;ENST00000521821.1_1_6:56535374-56707943:-|nuORF nc|ENSG00000151914|Q03001|DST nc|ENSG00000151914|Q03001|DST MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 656.3087768554688 2 656.3088 1310.60305 NaN NaN NaN NaN NaN NaN NaN 70.699 1 71.403 70.903 71.903 0.70386 0 0 0 1.0055 1 33896 33896 3.5965 0 1 22301 9690 14116 14172 25942 25942 -0.03982951492821485 PAAYNHQQQHI 11 Unmodified _PAAYNHQQQHI_ 0 0 0 REV__nc|ENSG00000204053|P12525|MYCLP1 REV__nc|ENSG00000204053|P12525|MYCLP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 653.8197021484375 2 653.817993 1305.62143 NaN NaN NaN NaN NaN NaN NaN 74.782 1 75.446 74.946 75.946 0.6644 0 0 0 1.0055 1 34435 34435 3.5965 0 1 + 22302 18106 14117 14173 25943 25943 -0.019153520075633423 PAAYWQREE 9 Unmodified _PAAYWQREE_ 0 0 0 ENSG00000124201|ENST00000396105|ZNFX1;ZNFX1|p.S1823Wfs*15|1|0.26|ENSG00000124201|chr20:49247550-49247556|AGGCCAG/-|frameshift_variant;nc|ENSG00000124201|Q9P2E3-2|ZNFX1 ENSG00000124201|ENST00000396105|ZNFX1 ENSG00000124201|ENST00000396105|ZNFX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.181396484375 2 575.269813 1148.52507 NaN NaN NaN NaN NaN NaN NaN 67.751 1 68.453 67.953 68.953 0.70218 0 0 0 0.89315 1 32247 32247 5.2307 0.90143 1 22303 2346 14118 14174 25944 25944 -0.0432491956753438 PAAYWQREERF 11 Unmodified _PAAYWQREERF_ 0 0 0 ENSG00000124201|ENST00000396105|ZNFX1;ZNFX1|p.S1823Wfs*15|1|0.26|ENSG00000124201|chr20:49247550-49247556|AGGCCAG/-|frameshift_variant;nc|ENSG00000124201|Q9P2E3-2|ZNFX1 ENSG00000124201|ENST00000396105|ZNFX1 ENSG00000124201|ENST00000396105|ZNFX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.66204833984375 3 484.905476 1451.6946 NaN NaN NaN NaN NaN NaN NaN 73.261 1 73.519 73.019 74.019 0.25876 0 0 0 1.0071 1 33646 33646 1.4551 1.0006 1 22304 2346 14119 14175 25945 25945 -0.013182232849885622 PACCCCCCRW 10 Unmodified _PACCCCCCRW_ 0 0 0 ENST00000519715.1_1_5:140012405-140013200:-|nuORF ENST00000519715.1_1_5:140012405-140013200:-|nuORF ENST00000519715.1_1_5:140012405-140013200:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.1056518554688 2 574.175263 1146.33597 NaN NaN NaN NaN NaN NaN NaN 96.174 1 96.174 95.674 96.674 0 0 0 0 1.0015 1 51979 51979 0.45834 0.45834 1 22305 8626 14120 14176 25946 25946 -0.23134137316037595 PACCCCCCRWC 11 Unmodified _PACCCCCCRWC_ 0 0 0 ENST00000519715.1_1_5:140012405-140013200:-|nuORF ENST00000519715.1_1_5:140012405-140013200:-|nuORF ENST00000519715.1_1_5:140012405-140013200:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 625.526611328125 2 625.679855 1249.34516 NaN NaN NaN NaN NaN NaN NaN 86.343 1 87.013 86.513 87.513 0.67061 0 0 0 1.008 1 39761 39761 0.35063 0.35063 1 22306 8626 14121 14177 25947 25947 -0.26954112022008303 PACCDHED 8 Unmodified _PACCDHED_ 0 0 0 ENSG00000198854|ENST00000368775|C1orf68 ENSG00000198854|ENST00000368775|C1orf68 ENSG00000198854|ENST00000368775|C1orf68 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 445.1715087890625 2 445.144378 888.274202 NaN NaN NaN NaN NaN NaN NaN 72.089 1 72.793 72.293 73.293 0.70386 0 0 0 0.99035 1 34665 34665 2.8892 2.1988 1 22307 5950 14122 14178 25948 25948 -0.17440382875997784 PACCSSEDTD 10 Unmodified _PACCSSEDTD_ 0 0 0 REV__ENST00000605744.1_1_11:76916597-76918172:+|nuORF REV__ENST00000605744.1_1_11:76916597-76918172:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.1727905273438 2 514.170789 1026.32703 NaN NaN NaN NaN NaN NaN NaN 75.054 1 75.719 75.219 76.219 0.6644 0 0 0 1.0011 1 34567 34567 1.8442 1.1539 1 + 22308 17659 14123 14179 25949 25949 -0.18508469603852973 PACCWHCC 8 Unmodified _PACCWHCC_ 0 0 0 ENST00000468416.1_1_5:66904622-66904778:+|nuORF ENST00000468416.1_1_5:66904622-66904778:+|nuORF ENST00000468416.1_1_5:66904622-66904778:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 461.53900146484375 2 461.644979 921.275405 NaN NaN NaN NaN NaN NaN NaN 64.036 1 64.036 63.536 64.536 0 0 0 0 0.99035 1 30244 30244 2.8892 2.8892 1 22309 8156 14124 14180 25950 25950 -0.1883816331245498 PACECQDPR 9 Unmodified _PACECQDPR_ 0 0 0 REV__ENST00000482938.1_1_6:32134299-32134856:+|nuORF REV__ENST00000482938.1_1_6:32134299-32134856:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.52545166015625 2 509.707676 1017.4008 NaN NaN NaN NaN NaN NaN NaN 84.069 1 84.069 83.569 84.569 0 0 0 0 0.89509 1 42477 42477 4.756 0.42677 1 + 22310 14610 14125 14181 25951 25951 -0.10720456650858523 PACECSGDE 9 Unmodified _PACECSGDE_ 0 0 0 REV__nc|ENSG00000157890|A6BM72-3|MEGF11 REV__nc|ENSG00000157890|A6BM72-3|MEGF11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 455.6492004394531 2 455.649493 909.284433 NaN NaN NaN NaN NaN NaN NaN 74.995 1 75.658 75.158 76.158 0.6635 0 0 0 0.90511 1 36293 36293 2.3027 1.5091 1 + 22311 12811 14126 14182 25952 25952 -0.17383819941414913 PACESSCDD 9 Unmodified _PACESSCDD_ 0 0 0 REV__ENST00000469390.5_1_1:156876126-156877844:+|nuORF REV__ENST00000469390.5_1_1:156876126-156877844:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.6251525878906 2 463.64695 925.279347 NaN NaN NaN NaN NaN NaN NaN 61.504 1 61.504 61.004 62.004 0 0 0 0 0.90511 1 28692 28692 2.3027 1.5091 1 + 22312 14116 14127 14183 25953 25953 -0.1862812380404648 PACRPGHSL 9 Unmodified _PACRPGHSL_ 0 0 0 ENSG00000158792|ENST00000289805|SPATA2L ENSG00000158792|ENST00000289805|SPATA2L ENSG00000158792|ENST00000289805|SPATA2L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 469.3080139160156 2 469.237261 936.45997 NaN NaN NaN NaN NaN NaN NaN 71.756 1 72.014 71.514 72.514 0.25786 0 0 0 0.82031 1 32908 32908 8.5933 0.68312 1 22313 4001 14128 14184 25954 25954 -0.010801925743749052 PACSCTSCGSC 11 Unmodified _PACSCTSCGSC_ 0 0 0 ENSG00000205864|ENST00000382160|KRTAP5-6;ENSG00000205867|ENST00000412090|KRTAP5-2 ENSG00000205864|ENST00000382160|KRTAP5-6 ENSG00000205864|ENST00000382160|KRTAP5-6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.6589050292969 2 509.65848 1017.30241 NaN NaN NaN NaN NaN NaN NaN 88.938 1 88.938 88.438 89.438 0 0 0 0 1.0071 1 46303 46303 1.4819 0.79152 1 22314 6060 14129 14185 25955 25955 -0.20555144282582205 PACSCTSCGSC 11 Unmodified _PACSCTSCGSC_ 0 0 0 ENSG00000205864|ENST00000382160|KRTAP5-6;ENSG00000205867|ENST00000412090|KRTAP5-2 ENSG00000205864|ENST00000382160|KRTAP5-6 ENSG00000205864|ENST00000382160|KRTAP5-6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 509.6571350097656 2 509.65848 1017.30241 NaN NaN NaN NaN NaN NaN NaN 68.648 1 69.351 68.851 69.851 0.70218 0 0 0 1.0071 1 32752 32752 1.4819 0.79152 1 22315 6060 14129 14185 25956 25956 -0.20555144282582205 PADAGRAA 8 Unmodified _PADAGRAA_ 0 0 0 ENST00000608648.1_1_19:18233497-18234133:+|nuORF ENST00000608648.1_1_19:18233497-18234133:+|nuORF ENST00000608648.1_1_19:18233497-18234133:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 364.6872253417969 2 364.687927 727.361301 NaN NaN NaN NaN NaN NaN NaN 55.093 1 55.358 54.858 55.858 0.26543 0 0 0 0.99035 1 25187 25187 0.69038 0 1 22316 9344 14130 14186 25957 25957 -0.013284725477774373 PADDEDRQLG 10 Unmodified _PADDEDRQLG_ 0 0 0 REV__ENSG00000221963|ENST00000409652|APOL6 REV__ENSG00000221963|ENST00000409652|APOL6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.2496948242188 2 558.251817 1114.48908 NaN NaN NaN NaN NaN NaN NaN 90.762 1 90.838 90.338 91.338 0.075279 0 0 0 0.99225 1 46851 46851 6.7232 0.51738 1 + 22317 14545 14131 14187 25958 25958 -0.06358421535060188 PADEDSHEGVS 11 Unmodified _PADEDSHEGVS_ 0 0 0 REV__ENSG00000185668|ENST00000373012|POU3F1 REV__ENSG00000185668|ENST00000373012|POU3F1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.3195190429688 2 571.733457 1141.45236 NaN NaN NaN NaN NaN NaN NaN 76.255 1 76.255 75.755 76.755 0 0 0 0 1.0034 1 37368 37368 6.2058 2.2614 1 + 22318 14028 14132 14188 25959 25959 -0.11270718151604342 PADEDWDDP 9 Unmodified _PADEDWDDP_ 0 0 0 REV__nc|ENSG00000127022|P27824-3|CANX REV__nc|ENSG00000127022|P27824-3|CANX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.18359375 2 530.198719 1058.38288 NaN NaN NaN NaN NaN NaN NaN 91.431 1 91.431 90.931 91.931 0 0 0 0 0.89509 1 48301 48301 4.756 0.81161 1 + 22319 11728 14133 14189 25960 25960 -0.14397177100386216 PADEFTFFQPV 11 Unmodified _PADEFTFFQPV_ 0 0 0 REV__ENSG00000137090|ENST00000382276|DMRT1 REV__ENSG00000137090|ENST00000382276|DMRT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 649.3108520507812 2 649.308603 1296.60265 NaN NaN NaN NaN NaN NaN NaN 73.582 1 74.246 73.746 74.746 0.6644 0 0 0 1.0034 1 33823 33823 6.2058 2.6093 1 + 22320 12098 14134 14190 25961 25961 -0.03378326421989186 PADEHEDDLFR 11 Unmodified _PADEHEDDLFR_ 0 0 0 REV__nc|ENSG00000091428|Q8WZA2-5|RAPGEF4 REV__nc|ENSG00000091428|Q8WZA2-5|RAPGEF4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 448.5329895019531 3 448.533596 1342.57896 NaN NaN NaN NaN NaN NaN NaN 65.349 1 65.349 64.849 65.849 0 0 0 0 1.0071 1 31125 31125 0.50596 0 1 + 22321 10731 14135 14191 25962 25962 -0.07862791926504542 PADEHEQQT 9 Unmodified _PADEHEQQT_ 0 0 0 REV__nc|ENSG00000019144|Q86UU1-3|PHLDB1 REV__nc|ENSG00000019144|Q86UU1-3|PHLDB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.727783203125 2 527.725435 1053.43632 NaN NaN NaN NaN NaN NaN NaN 64.817 1 64.817 64.317 65.317 0 0 0 0 0.82031 1 30782 30782 8.5933 0.68312 1 + 22322 10261 14136 14192 25963 25963 -0.08826379597849154 PADEMDVDE 9 Unmodified _PADEMDVDE_ 0 0 0 REV__ENSG00000137876|ENST00000260443|RSL24D1 REV__ENSG00000137876|ENST00000260443|RSL24D1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.9915771484375 2 510.694955 1019.37536 NaN NaN NaN NaN NaN NaN NaN 85.593 1 85.593 85.093 86.093 0 0 0 0 0.89509 1 43628 43628 4.756 0.81161 1 + 22323 12134 14137 14193 25964 25964 -0.13355652692291642 PADESFFSVQ 10 Unmodified _PADESFFSVQ_ 0 0 0 REV__ABCA7|p.P1501Qfs*17|1|0.44|ENSG00000064687|chr19:1056411-1056411|C/-|frameshift_variant REV__ABCA7|p.P1501Qfs*17|1|0.44|ENSG00000064687|chr19:1056411-1056411|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.5020751953125 2 563.756204 1125.49785 NaN NaN NaN NaN NaN NaN NaN 70.216 1 70.216 69.716 70.716 0 0 0 0 0.98866 1 34037 34037 7.2892 0 1 + 22324 9917 14138 14194 25965 25965 -0.05987447898564824 PADEYDQPW 9 Unmodified _PADEYDQPW_ 0 0 0 ENSG00000107338|ENST00000377707|SHB;ENSG00000105251|ENST00000543264|SHD ENSG00000107338|ENST00000377707|SHB ENSG00000107338|ENST00000377707|SHB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.7354736328125 2 560.732729 1119.4509 NaN NaN NaN NaN NaN NaN NaN 64.658 1 65.373 64.873 65.873 0.71521 0 0 0 0.89509 1 30472 30472 4.756 0.42677 1 22325 1597 14139 14195 25966 25966 -0.10404307449698535 PADEYDQPWEW 11 Unmodified _PADEYDQPWEW_ 0 0 0 ENSG00000107338|ENST00000377707|SHB;ENSG00000105251|ENST00000543264|SHD ENSG00000107338|ENST00000377707|SHB ENSG00000107338|ENST00000377707|SHB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 718.6270751953125 2 718.293682 1434.57281 NaN NaN NaN NaN NaN NaN NaN 90.31 1 90.31 89.81 90.81 0 0 0 0 1.0071 1 47424 47424 1.4819 1.1313 1 22326 1597 14140 14196 25967 25967 -0.12709310157970322 PADGDCEDDED 11 Unmodified _PADGDCEDDED_ 0 0 0 nc|ENSG00000173253|Q9Y5R5-2|DMRT2;ENSG00000173253|ENST00000358146|DMRT2 nc|ENSG00000173253|Q9Y5R5-2|DMRT2 nc|ENSG00000173253|Q9Y5R5-2|DMRT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.6436157226562 2 590.682772 1179.35099 NaN NaN NaN NaN NaN NaN NaN 49.143 1 49.97 49.47 50.47 0.82705 0 0 0 1.0071 1 22388 22388 1.4819 0.95714 1 22327 4923 14141 14197 25968 25968 -0.23150957636471503 PADGDDEEM 9 Unmodified _PADGDDEEM_ 0 0 0 ENSG00000124571|ENST00000265351|XPO5 ENSG00000124571|ENST00000265351|XPO5 ENSG00000124571|ENST00000265351|XPO5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.6719970703125 2 489.671479 977.328406 NaN NaN NaN NaN NaN NaN NaN 75.485 1 75.485 74.985 75.985 0 0 0 0 0.89509 1 36988 36988 4.756 1.8668 1 22328 2366 14142 14198 25969 25969 -0.16116512243434045 PADLDLEF 8 Unmodified _PADLDLEF_ 0 0 0 REV__nc|ENSG00000116786|Q8IWE5-2|PLEKHM2 REV__nc|ENSG00000116786|Q8IWE5-2|PLEKHM2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 919.2476196289062 1 919.44074 918.433463 4.6775 0.0043007 1.898 0.0017451 6.5755 0.0060458 919.4417211712012 97.86 0.059998 98.149 98.141 98.201 0.28923 10 7 2 0 0 0 0.13917 1 44994 44994 9.3474 0.75416 1 17475000 + 22329 11420 14143 14199 25970 25970 -0.029016029847070968 PADLGWHEV 9 Unmodified _PADLGWHEV_ 0 0 0 REV__ENST00000485901.1_1_6:32974995-32975826:-|nuORF REV__ENST00000485901.1_1_6:32974995-32975826:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.248046875 2 512.248349 1022.48214 NaN NaN NaN NaN NaN NaN NaN 83.717 1 83.746 83.246 84.246 0.028603 0 0 0 0.84134 1 41614 41614 7.9102 0 1 + 22330 14406 14144 14200 25971 25971 -0.02819689624948296 PADLHPVKQ 9 Unmodified _PADLHPVKQ_ 0 0 0 REV__ENSG00000160613|ENST00000320934|PCSK7 REV__ENSG00000160613|ENST00000320934|PCSK7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 502.8663024902344 2 502.779816 1003.54508 NaN NaN NaN NaN NaN NaN NaN 71.736 1 72.439 71.939 72.939 0.70386 0 0 0 0.84134 1 34482 34482 7.9102 0 1 + 22331 12886 14145 14201 25972 25972 0.04344876163088429 PADLHWGHLHF 11 Unmodified _PADLHWGHLHF_ 0 0 0 ENST00000474489.5_1_2:220402379-220402472:+|nuORF;ENST00000347842.7_2_2:220402379-220402749:+|nuORF ENST00000474489.5_1_2:220402379-220402472:+|nuORF ENST00000474489.5_1_2:220402379-220402472:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 665.086669921875 2 665.327996 1328.64144 NaN NaN NaN NaN NaN NaN NaN 88.627 1 88.679 88.179 89.179 0.052155 0 0 0 1.0038 1 45202 45202 5.7319 0.43497 1 22332 7121 14146 14202 25973 25973 -0.009735562769719763 PADPPCPD 8 Unmodified _PADPPCPD_ 0 0 0 REV__ENST00000600655.1_1_19:35832097-35832514:+|nuORF REV__ENST00000600655.1_1_19:35832097-35832514:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.1578369140625 1 811.329081 810.321804 2.6599 0.0021581 3.6532 0.0029639 6.3131 0.005122 811.3331316839214 90.393 0.16301 90.469 90.362 90.525 0.075272 30 22 2 0 0 0 0.13397 1 46527 46527 14.582 5.2343 1 28585000 + 22333 17635 14147 14203 25974 25974 -0.09094360613505614 PADPVVRSPKS 11 Unmodified _PADPVVRSPKS_ 0 0 0 nc|ENSG00000143537|Q13444-5|ADAM15;ENST00000527418.5_1_1:155025082-155034975:+|nuORF;nc|ENSG00000143537|Q13444-3|ADAM15;ENSG00000143537|ENST00000356955|ADAM15 nc|ENSG00000143537|Q13444-5|ADAM15 nc|ENSG00000143537|Q13444-5|ADAM15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 576.7760009765625 2 576.822212 1151.62987 NaN NaN NaN NaN NaN NaN NaN 90.089 1 90.153 89.653 90.653 0.064346 0 0 0 0.91901 1 46335 46335 14.405 5.0223 1 22334 3377 14148 14204 25975 25975 0.06012201909038595 PADPWQCWAW 10 Unmodified _PADPWQCWAW_ 0 0 0 ENST00000575531.5_1_16:4409488-4409596:-|nuORF ENST00000575531.5_1_16:4409488-4409596:-|nuORF ENST00000575531.5_1_16:4409488-4409596:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 630.2637329101562 2 630.268758 1258.52296 NaN NaN NaN NaN NaN NaN NaN 89.287 1 89.351 88.851 89.851 0.064346 0 0 0 0.99733 1 45722 45722 3.9444 0.3479 1 22335 9120 14149 14205 25976 25976 -0.09595671576971654 PADRDEKKWTV 11 Unmodified _PADRDEKKWTV_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 672.8477783203125 2 672.848958 1343.68336 NaN NaN NaN NaN NaN NaN NaN 72.469 1 72.728 72.228 73.228 0.25876 0 0 0 1.0057 1 33268 33268 3.2813 0 1 + 22336 12747 14150 14206 25977 25977 0.02526954620907418 PADRPRFRLRD 11 Unmodified _PADRPRFRLRD_ 0 0 0 ENST00000572240.5_1_16:3078109-3079857:-|nuORF ENST00000572240.5_1_16:3078109-3079857:-|nuORF ENST00000572240.5_1_16:3078109-3079857:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 699.8890991210938 2 699.889284 1397.76401 NaN NaN NaN NaN NaN NaN NaN 92.43 1 93.077 92.577 93.577 0.64714 0 0 0 1.0059 1 42526 42526 2.9952 1.5133 1 22337 9097 14151 14207 25978 25978 0.08104280454449508 PADSACFT 8 Unmodified _PADSACFT_ 0 0 0 REV__ENSG00000141371|ENST00000269127|CHCT1 REV__ENSG00000141371|ENST00000269127|CHCT1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.099609375 1 811.329081 810.321804 3.3 0.0026774 2.5418 0.0020623 5.8418 0.0047396 811.3323566016566 90.737 0.095253 90.737 90.698 90.794 0 19 15 2 0 0 0 0.13917 1 47809 47809 9.3474 2.9933 1 19650000 + 22338 12283 14152 14208 25979 25979 -0.09094360613505614 PADSACFT 8 Unmodified _PADSACFT_ 0 0 0 REV__ENSG00000141371|ENST00000269127|CHCT1 REV__ENSG00000141371|ENST00000269127|CHCT1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 811.3958740234375 1 811.329081 810.321804 4.1599 0.003375 1.5774 0.0012798 5.7373 0.0046548 811.3311233769244 98.007 0.24331 98.605 98.461 98.705 0.59885 25 21 2 0 0 0 0.13917 1 45153 45153 5.2307 3.1709 1 12750000 + 22339 12283 14152 14208 25980 25980 -0.09094360613505614 PADSDVQESL 10 Unmodified _PADSDVQESL_ 0 0 0 REV__ENST00000523104.5_1_8:30414263-30416463:+|nuORF REV__ENST00000523104.5_1_8:30414263-30416463:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.6834716796875 2 530.743293 1059.47203 NaN NaN NaN NaN NaN NaN NaN 89.576 1 89.576 89.076 90.076 0 0 0 0 0.99225 1 46828 46828 6.7232 0 1 + 22340 17061 14153 14209 25981 25981 -0.05532342140850233 PADSESRGED 10 Unmodified _PADSESRGED_ 0 0 0 nc|ENSG00000159409|Q5SZQ8-4|CELF3;nc|ENSG00000101489|Q9BZC1-5|CELF4;nc|ENSG00000159409|Q5SZQ8-2|CELF3;ENSG00000159409|ENST00000290583|CELF3 nc|ENSG00000159409|Q5SZQ8-4|CELF3 nc|ENSG00000159409|Q5SZQ8-4|CELF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.8916015625 2 531.72035 1061.42615 NaN NaN NaN NaN NaN NaN NaN 99.326 1 99.923 99.423 100.42 0.59748 0 0 0 0.99225 1 45922 45922 6.7232 0.51738 1 22341 4023 14154 14210 25982 25982 -0.10210987323057452 PADVDECSEED 11 Unmodified _PADVDECSEED_ 0 0 0 nc|ENSG00000090006|Q8N2S1-4|LTBP4;ENST00000595118.5_1_19:41119631-41135452:+|nuORF nc|ENSG00000090006|Q8N2S1-4|LTBP4 nc|ENSG00000090006|Q8N2S1-4|LTBP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 604.7176513671875 2 604.716615 1207.41868 NaN NaN NaN NaN NaN NaN NaN 88.898 1 88.95 88.45 89.45 0.052155 0 0 0 1.0057 1 45425 45425 3.2813 1.4371 1 22342 9268 14155 14211 25983 25983 -0.1767350770567191 PADWWRWRRS 10 Unmodified _PADWWRWRRS_ 0 0 0 ENST00000609181.5_1_1:220219711-220219759:-|nuORF ENST00000609181.5_1_1:220219711-220219759:-|nuORF ENST00000609181.5_1_1:220219711-220219759:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 708.3545532226562 2 708.357619 1414.70069 NaN NaN NaN NaN NaN NaN NaN 44.417 1 45.238 44.738 45.738 0.82075 0 0 0 0.99983 1 20227 20227 1.8442 0.36234 1 22343 9349 14156 14212 25984 25984 0.00992339737194925 PAEAQSFRTPK 11 Unmodified _PAEAQSFRTPK_ 0 0 0 nc|ENSG00000167612|Q7Z3H0-1|ANKRD33 nc|ENSG00000167612|Q7Z3H0-1|ANKRD33 nc|ENSG00000167612|Q7Z3H0-1|ANKRD33 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.32470703125 2 616.325119 1230.63569 NaN NaN NaN NaN NaN NaN NaN 68.131 1 68.833 68.333 69.333 0.70218 0 0 0 1.0044 1 32468 32468 4.897 0.56777 1 22344 9738 14157 14213 25985 25985 0.029593004207072227 PAEDEFPDLSA 11 Unmodified _PAEDEFPDLSA_ 0 0 0 ENST00000555770.1_1_14:103988551-103989144:-|nuORF;ENSG00000166165|ENST00000348956|CKB ENST00000555770.1_1_14:103988551-103989144:-|nuORF ENST00000555770.1_1_14:103988551-103989144:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 595.7632446289062 2 595.764226 1189.5139 NaN NaN NaN NaN NaN NaN NaN 72.786 1 73.45 72.95 73.95 0.66398 0 0 0 1.0038 1 33416 33416 5.7319 0.97584 1 22345 4456 14158 14214 25986 25986 -0.07327786452310647 PAEDFFSRYQV 11 Unmodified _PAEDFFSRYQV_ 0 0 0 REV__ENSG00000165182|ENST00000379211|CXorf58 REV__ENSG00000165182|ENST00000379211|CXorf58 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 453.54974365234375 3 453.550698 1357.63027 NaN NaN NaN NaN NaN NaN NaN 61.767 1 62.498 61.998 62.998 0.73077 0 0 0 1.0057 1 28688 28688 1.3296 0 1 + 22346 13144 14159 14215 25987 25987 -0.0342442316175493 PAEDHWEGQL 10 Unmodified _PAEDHWEGQL_ 0 0 0 ENST00000587566.5_1_19:45582622-45767951:+|nuORF ENST00000587566.5_1_19:45582622-45767951:+|nuORF ENST00000587566.5_1_19:45582622-45767951:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.2646484375 2 591.264727 1180.5149 NaN NaN NaN NaN NaN NaN NaN 61.612 1 62.343 61.843 62.843 0.73077 0 0 0 0.99225 1 28596 28596 6.7232 2.3939 1 22347 9197 14160 14216 25988 25988 -0.06813527292752042 PAEDKLLDF 9 Unmodified _PAEDKLLDF_ 0 0 0 REV__nc|ENSG00000292339|O95671-3|ASMTL REV__nc|ENSG00000292339|O95671-3|ASMTL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.8902587890625 2 524.27149 1046.52843 NaN NaN NaN NaN NaN NaN NaN 72.587 1 73.291 72.791 73.791 0.70386 0 0 0 0.84134 1 34958 34958 7.9102 0.62092 1 + 22348 13381 14161 14217 25989 25989 0.00702330486478786 PAEDLVRRSE 10 Unmodified _PAEDLVRRSE_ 0 0 0 nc|ENSG00000156675|Q6WKZ4-2|RAB11FIP1;nc|ENSG00000156675|Q6WKZ4-3|RAB11FIP1;ENSG00000156675|ENST00000330843|RAB11FIP1 nc|ENSG00000156675|Q6WKZ4-2|RAB11FIP1 nc|ENSG00000156675|Q6WKZ4-2|RAB11FIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 586.305419921875 2 586.306926 1170.5993 NaN NaN NaN NaN NaN NaN NaN 70.777 1 71.481 70.981 71.981 0.70386 0 0 0 0.99225 1 33944 33944 6.7232 0 1 22349 3921 14162 14218 25990 25990 0.020824235239842892 PAEDMEEEQA 10 Unmodified _PAEDMEEEQA_ 0 0 0 nc|ENSG00000165119|P61978-3|HNRNPK;nc|ENSG00000165119|P61978|HNRNPK;ENSG00000165119|ENST00000376263|HNRNPK;ENST00000483135.1_1_9:86591819-86593167:-|nuORF nc|ENSG00000165119|P61978-3|HNRNPK nc|ENSG00000165119|P61978-3|HNRNPK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.7239379882812 2 574.724243 1147.43393 NaN NaN NaN NaN NaN NaN NaN 62.576 1 62.576 62.076 63.076 0 0 0 0 0.99225 1 29334 29334 6.7232 2.3939 1 22350 4374 14163 14219 25991 25991 -0.13388596117806628 PAEDRRVPG 9 Unmodified _PAEDRRVPG_ 0 0 0 REV__ENST00000289816.9_2_16:89804878-89805280:+|nuORF REV__ENST00000289816.9_2_16:89804878-89805280:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.6584777832031 2 498.764697 995.514842 NaN NaN NaN NaN NaN NaN NaN 68.187 1 68.187 67.687 68.687 0 0 0 0 0.72654 1 32805 32805 11.64 2.2929 1 + 22351 15122 14164 14220 25992 25992 0.016905174979115145 PAEDSPEDKWF 11 Unmodified _PAEDSPEDKWF_ 0 0 0 REV__ENST00000533407.6_1_11:6422737-6440257:-|nuORF REV__ENST00000533407.6_1_11:6422737-6440257:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 660.7930908203125 2 660.790775 1319.567 NaN NaN NaN NaN NaN NaN NaN 63.253 1 63.253 62.753 63.753 0 0 0 0 1.0038 1 29740 29740 5.7319 2.4505 1 + 22352 13225 14165 14221 25993 25993 -0.0800040866965901 PAEDSQDHC 9 Unmodified _PAEDSQDHC_ 0 0 0 REV__ENSG00000123384|ENST00000243077|LRP1 REV__ENSG00000123384|ENST00000243077|LRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.041748046875 2 501.185088 1000.35562 NaN NaN NaN NaN NaN NaN NaN 71.577 1 71.835 71.335 72.335 0.25786 0 0 0 0.89509 1 32798 32798 4.756 1.8668 1 + 22353 11615 14166 14222 25994 25994 -0.14453983912392232 PAEDYIEPRD 10 Unmodified _PAEDYIEPRD_ 0 0 0 ENST00000226951.10_1_4:10490183-10490225:-|nuORF ENST00000226951.10_1_4:10490183-10490225:-|nuORF ENST00000226951.10_1_4:10490183-10490225:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 603.1542358398438 2 602.777667 1203.54078 NaN NaN NaN NaN NaN NaN NaN 68.017 1 68.719 68.219 69.219 0.70218 0 0 0 0.99225 1 32399 32399 6.7232 1.4925 1 22354 6429 14167 14223 25995 25995 -0.05284677841154917 PAEEAERVHL 10 Unmodified _PAEEAERVHL_ 0 0 0 ENST00000406775.6_2_7:69064374-69064902:+|nuORF ENST00000406775.6_2_7:69064374-69064902:+|nuORF ENST00000406775.6_2_7:69064374-69064902:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.798583984375 2 575.796195 1149.57784 NaN NaN NaN NaN NaN NaN NaN 61.645 1 62.376 61.876 62.876 0.73077 0 0 0 0.96109 1 28614 28614 11.64 4.9171 1 22355 7644 14168 14224 25996 25996 0.009030384952893655 PAEEEEDELYR 11 Unmodified _PAEEEEDELYR_ 0 0 0 ENSG00000143384|ENST00000369026|MCL1;nc|ENSG00000143384|Q07820-2|MCL1 ENSG00000143384|ENST00000369026|MCL1 ENSG00000143384|ENST00000369026|MCL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 460.13055419921875 3 460.536895 1378.58885 NaN NaN NaN NaN NaN NaN NaN 70.332 1 70.332 69.832 70.832 0 0 0 0 1.0072 1 34111 34111 1.3296 0.55311 1 22356 3363 14169 14225 25997 25997 -0.08529648711737536 PAEEEEEE 8 Unmodified _PAEEEEEE_ 0 0 0 REV__ENSG00000152104|ENST00000366956|PTPN14 REV__ENSG00000152104|ENST00000366956|PTPN14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 481.187255859375 2 481.185277 960.356001 NaN NaN NaN NaN NaN NaN NaN 74.261 1 74.947 74.447 75.447 0.68662 0 0 0 0.99035 1 35888 35888 2.8892 0 1 + 22357 12639 14170 14226 25998 25998 -0.12576285711543278 PAEEGSSDCE 10 Unmodified _PAEEGSSDCE_ 0 0 0 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.501953125 2 512.182211 1022.34987 NaN NaN NaN NaN NaN NaN NaN 77.457 1 78.018 77.518 78.518 0.56091 0 0 0 0.99983 1 37572 37572 1.8442 0 1 22358 4761 14171 14227 25999 25999 -0.16041127214725748 PAEGNTGNSNP 11 Unmodified _PAEGNTGNSNP_ 0 0 0 REV__nc|ENSG00000152990|Q8IWK6-3|ADGRA3 REV__nc|ENSG00000152990|Q8IWK6-3|ADGRA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.2325439453125 2 529.230884 1056.44722 3.0387 0.0016082 -0.4259 -0.0002254 2.6128 0.0013828 529.2301088932738 44.801 0.4436 45.069 44.83 45.274 0.26768 56 23 3 0 0 0 0.69508 1 20426 20426 11.495 1.4208 1 2080600 + 22359 12665 14172 14228 26000 26000 -0.07874977223536916 PAEGSTHL 8 Unmodified _PAEGSTHL_ 0 0 0 REV__ENST00000460871.1_1_9:71990729-72006671:+|nuORF REV__ENST00000460871.1_1_9:71990729-72006671:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.1011962890625 1 811.394458 810.387182 3.2663 0.0026503 -2.298 -0.0018646 0.96833 0.0007857 811.3930938404832 87.288 0.12299 87.288 87.208 87.331 0 24 16 2 0 0 0 0.14069 1 44917 44917 6.3541 0 1 45185000 + 22360 16486 14173 14229 26001 26001 -0.025596230961355104 PAEHRQHL 8 Unmodified _PAEHRQHL_ 0 0 0 ENST00000565302.5_1_16:733531-734319:-|nuORF ENST00000565302.5_1_16:733531-734319:-|nuORF ENST00000565302.5_1_16:733531-734319:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.2296447753906 2 494.259582 986.504612 NaN NaN NaN NaN NaN NaN NaN 72.615 1 73.279 72.779 73.779 0.66398 0 0 0 0.88162 1 33319 33319 13.508 4.9146 1 22361 9042 14174 14230 26002 26002 0.010819545633239613 PAEKEERDRS 10 Unmodified _PAEKEERDRS_ 0 0 0 REV__ENST00000523151.5_1_8:130364907-130382560:-|nuORF REV__ENST00000523151.5_1_8:130364907-130382560:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 608.8019409179688 2 608.799466 1215.58438 NaN NaN NaN NaN NaN NaN NaN 68.129 1 68.831 68.331 69.331 0.70218 0 0 0 0.99225 1 32467 32467 6.7232 0.51738 1 + 22362 17062 14175 14231 26003 26003 -0.014790683439969143 PAEKILKIIAR 11 Unmodified _PAEKILKIIAR_ 0 0 0 REV__L1PBa_dup1914|chr16:20454552-20458311:+|1.873729371871474|0.2397336971051269|2.97|524.0|47|2|sense REV__L1PBa_dup1914|chr16:20454552-20458311:+|1.873729371871474|0.2397336971051269|2.97|524.0|47|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 626.2300415039062 2 626.410998 1250.80744 NaN NaN NaN NaN NaN NaN NaN 64.282 1 64.282 63.782 64.782 0 0 0 0 1.0041 1 30420 30420 5.2969 2.0156 1 + 22363 17814 14176 14232 26004 26004 0.19207077179044063 PAEKMYYTHRR 11 Unmodified _PAEKMYYTHRR_ 0 0 0 nc|ENSG00000135636|O75923-3|DYSF;nc|ENSG00000135636|O75923-9|DYSF;nc|ENSG00000135636|O75923|DYSF;nc|ENSG00000135636|O75923-14|DYSF;nc|ENSG00000135636|O75923-6|DYSF;nc|ENSG00000135636|O75923-12|DYSF;nc|ENSG00000135636|O75923-5|DYSF;nc|ENSG00000135636|O75923-11|DYSF;nc|ENSG00000135636|O75923-4|DYSF;nc|ENSG00000135636|O75923-10|DYSF;nc|ENSG00000135636|O75923-2|DYSF;nc|ENSG00000135636|O75923-8|DYSF;nc|ENSG00000135636|O75923-7|DYSF;ENSG00000135636|ENST00000410020|DYSF;nc|ENSG00000135636|O75923-15|DYSF nc|ENSG00000135636|O75923-3|DYSF nc|ENSG00000135636|O75923-3|DYSF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.5704040527344 3 484.578594 1450.71395 NaN NaN NaN NaN NaN NaN NaN 70.126 1 70.126 69.626 70.626 0 0 0 0 1.0062 1 33975 33975 2.6312 1.4164 1 22364 2885 14177 14233 26005 26005 0.006624097342637469 PAEKRHLAKI 10 Unmodified _PAEKRHLAKI_ 0 0 0 ENSG00000100625|ENST00000216513|SIX4 ENSG00000100625|ENST00000216513|SIX4 ENSG00000100625|ENST00000216513|SIX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.8565063476562 2 581.85639 1161.69823 NaN NaN NaN NaN NaN NaN NaN 87.394 1 87.434 86.934 87.934 0.039955 0 0 0 0.99733 1 44235 44235 3.9444 0.94915 1 22365 1232 14178 14234 26006 26006 0.12384491279544818 PAEKYFEE 8 Unmodified _PAEKYFEE_ 0 0 0 REV__ENSG00000100296|ENST00000490103|THOC5 REV__ENSG00000100296|ENST00000490103|THOC5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.5257873535156 2 506.73474 1011.45493 2.5275 0.0012808 1.172 0.00059389 3.6995 0.0018747 506.7378743790649 66.153 0.02774 66.153 66.137 66.164 0 4 2 2 0 0 0 0.13917 1 31583 31583 9.3474 7.2877 1 962550 + 22366 10818 14179 14235 26007 26007 -0.050342179560061595 PAEPDPEDEE 10 Unmodified _PAEPDPEDEE_ 0 0 0 REV__ENSG00000185352|ENST00000376705|HS6ST3 REV__ENSG00000185352|ENST00000376705|HS6ST3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.3710327148438 2 564.222391 1126.43023 NaN NaN NaN NaN NaN NaN NaN 96.893 1 97.495 96.995 97.995 0.6019 0 0 0 0.99733 1 44546 44546 3.9444 0 1 + 22367 14016 14180 14236 26008 26008 -0.12792942620012582 PAEPVKRQPR 10 Unmodified _PAEPVKRQPR_ 0 0 0 ENST00000462953.1_1_2:242436889-242437667:-|nuORF;ENST00000478403.5_1_2:242436769-242438604:-|nuORF;ENST00000487962.5_1_2:242435079-242438851:-|nuORF;nc|ENSG00000115694|O00506-3|STK25;nc|ENSG00000115694|O00506-2|STK25;ENSG00000115694|ENST00000316586|STK25 ENST00000462953.1_1_2:242436889-242437667:-|nuORF ENST00000462953.1_1_2:242436889-242437667:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.34521484375 2 589.343646 1176.67274 3.7944 0.0022362 -0.82187 -0.00048436 2.9726 0.0017519 589.3431749824819 85.362 0.99276 86.028 85.601 86.594 0.66566 90 49 2 0 0 0 0.93628 1 39461 39461 1.6526 0.17072 1 1078600 22368 1986 14181 14237 26009 26009 0.09147016757128767 PAERKKPASME 11 Unmodified _PAERKKPASME_ 0 0 0 ENSG00000151461|ENST00000357604|UPF2 ENSG00000151461|ENST00000357604|UPF2 ENSG00000151461|ENST00000357604|UPF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 622.7822875976562 2 622.326805 1242.63906 NaN NaN NaN NaN NaN NaN NaN 73.859 1 73.859 73.359 74.359 0 0 0 0 0.98464 1 36034 36034 8.1555 2.4237 1 22369 3709 14182 14238 26010 26010 0.027442272030839376 PAERKRTHRL 10 Unmodified _PAERKRTHRL_ 0 0 0 REV__ENST00000465851.1_1_2:196545249-196581758:+|nuORF REV__ENST00000465851.1_1_2:196545249-196581758:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.376708984375 2 632.373269 1262.73199 NaN NaN NaN NaN NaN NaN NaN 72.356 1 73.06 72.56 73.56 0.70386 0 0 0 0.99733 1 34826 34826 3.9444 0.66309 1 + 22370 14248 14183 14239 26011 26011 0.11112912771295669 PAERLRQLHAE 11 Unmodified _PAERLRQLHAE_ 0 0 0 REV__ENSG00000183798|ENST00000332312|EMILIN3 REV__ENSG00000183798|ENST00000332312|EMILIN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 660.2648315429688 2 660.362567 1318.71058 NaN NaN NaN NaN NaN NaN NaN 83.065 1 83.11 82.61 83.61 0.045006 0 0 0 1.0044 1 41133 41133 4.897 0.70751 1 + 22371 13949 14184 14240 26012 26012 0.0639748295195659 PAESDGPDRN 10 Unmodified _PAESDGPDRN_ 0 0 0 REV__ENSG00000238083|ENST00000576629|LRRC37A2 REV__ENSG00000238083|ENST00000576629|LRRC37A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.2318725585938 2 529.230884 1056.44722 3.0587 0.0016188 0.1141 6.0387E-05 3.1728 0.0016791 529.2303007023678 45.026 0.41663 45.026 44.839 45.256 0 41 22 3 0 0 0 0.84709 1 20591 20591 6.2058 0.47393 1 2619300 + 22372 13711 14185 14241 26013 26013 -0.07874977223559654 PAESKQYFEQY 11 Unmodified _PAESKQYFEQY_ 0 0 0 nc|ENSG00000104067|Q07157-2|TJP1;nc|ENSG00000104067|Q07157|TJP1;ENSG00000104067|ENST00000614355|TJP1 nc|ENSG00000104067|Q07157-2|TJP1 nc|ENSG00000104067|Q07157-2|TJP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.1322021484375 3 463.882225 1388.62485 NaN NaN NaN NaN NaN NaN NaN 74.708 1 75.395 74.895 75.895 0.68662 0 0 0 1.0071 1 36114 36114 0.50596 0.051438 1 22373 1423 14186 14242 26014 26014 -0.05392146744247839 PAETNLRHTC 10 Unmodified _PAETNLRHTC_ 0 0 0 ENST00000489818.5_1_1:182354893-182357872:-|nuORF;ENST00000475808.5_1_1:182355349-182357923:-|nuORF;ENSG00000135821|ENST00000331872|GLUL ENST00000489818.5_1_1:182354893-182357872:-|nuORF ENST00000489818.5_1_1:182354893-182357872:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.2890625 2 571.274572 1140.53459 NaN NaN NaN NaN NaN NaN NaN 68.472 1 68.472 67.972 68.972 0 0 0 0 0.98866 1 32970 32970 7.2892 1.0834 1 22374 2899 14187 14243 26015 26015 -0.030054745536517657 PAEVTSHA 8 Unmodified _PAEVTSHA_ 0 0 0 LIMA1|p.P134Lfs*36|1|0.03|ENSG00000050405|chr12:50222250-50222251|-/ATGATGTTTGA|frameshift_variant;ENSG00000050405|ENST00000341247|LIMA1;nc|ENSG00000050405|Q9UHB6-4|LIMA1 LIMA1|p.P134Lfs*36|1|0.03|ENSG00000050405|chr12:50222250-50222251|-/ATGATGTTTGA|frameshift_variant LIMA1|p.P134Lfs*36|1|0.03|ENSG00000050405|chr12:50222250-50222251|-/ATGATGTTTGA|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.3943481445312 1 811.394458 810.387182 3.2879 0.0026678 -3.1775 -0.0025782 0.11038 8.9564E-05 811.392521215245 89.516 0.18491 89.516 89.451 89.636 0 32 26 2 0 0 0 0.13917 1 46843 46843 9.3474 0 1 23058000 22375 584 14188 14244 26016 26016 -0.02559623096146879 PAEVTSHA 8 Unmodified _PAEVTSHA_ 0 0 0 LIMA1|p.P134Lfs*36|1|0.03|ENSG00000050405|chr12:50222250-50222251|-/ATGATGTTTGA|frameshift_variant;ENSG00000050405|ENST00000341247|LIMA1;nc|ENSG00000050405|Q9UHB6-4|LIMA1 LIMA1|p.P134Lfs*36|1|0.03|ENSG00000050405|chr12:50222250-50222251|-/ATGATGTTTGA|frameshift_variant LIMA1|p.P134Lfs*36|1|0.03|ENSG00000050405|chr12:50222250-50222251|-/ATGATGTTTGA|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.279296875 1 811.394458 810.387182 2.6496 0.0021499 -1.726 -0.0014004 0.92364 0.00074944 811.3948413225955 90.712 0.042175 90.787 90.753 90.795 0.075272 6 4 2 0 0 0 0.13917 1 46795 46795 9.3474 2.9933 1 18947000 22376 584 14188 14244 26017 26017 -0.02559623096146879 PAEVTSHA 8 Unmodified _PAEVTSHA_ 0 0 0 LIMA1|p.P134Lfs*36|1|0.03|ENSG00000050405|chr12:50222250-50222251|-/ATGATGTTTGA|frameshift_variant;ENSG00000050405|ENST00000341247|LIMA1;nc|ENSG00000050405|Q9UHB6-4|LIMA1 LIMA1|p.P134Lfs*36|1|0.03|ENSG00000050405|chr12:50222250-50222251|-/ATGATGTTTGA|frameshift_variant LIMA1|p.P134Lfs*36|1|0.03|ENSG00000050405|chr12:50222250-50222251|-/ATGATGTTTGA|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 811.394458 810.387182 3.3024 0.0026796 -3.8092 -0.0030908 -0.5068 -0.00041121 811.3927690063152 90.952 0.034271 90.952 90.931 90.965 0 0.082649 -0.00044369 NaN 9.3474 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 19971000 22377 584 14188 14244 -0.02559623096146879 PAEYDKHPERY 11 Unmodified _PAEYDKHPERY_ 0 0 0 ENSG00000008311|ENST00000417368|AASS ENSG00000008311|ENST00000417368|AASS ENSG00000008311|ENST00000417368|AASS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.8916320800781 3 468.889603 1403.64698 NaN NaN NaN NaN NaN NaN NaN 75.094 1 75.353 74.853 75.853 0.25831 0 0 0 1.0071 1 34544 34544 0.50596 0.13928 1 22378 377 14189 14245 26018 26018 -0.03869922275794124 PAEYIPEAEE 10 Unmodified _PAEYIPEAEE_ 0 0 0 PACS2|p.H278Y|1|0.59|ENSG00000179364|chr14:105376798-105376798|C/T|missense_variant PACS2|p.H278Y|1|0.59|ENSG00000179364|chr14:105376798-105376798|C/T|missense_variant PACS2|p.H278Y|1|0.59|ENSG00000179364|chr14:105376798-105376798|C/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.2817993164062 2 574.261319 1146.50808 NaN NaN NaN NaN NaN NaN NaN 95.855 1 95.931 95.431 96.431 0.076538 0 0 0 0.98866 1 50780 50780 7.2892 0.56607 1 22379 9903 14190 14246 26019 26019 -0.0593088496400469 PAFEPLKRIL 10 Unmodified _PAFEPLKRIL_ 0 0 0 REV__ENSG00000162733|ENST00000367921|DDR2 REV__ENSG00000162733|ENST00000367921|DDR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.362060546875 2 592.363516 1182.71248 NaN NaN NaN NaN NaN NaN NaN 92.392 1 93.039 92.539 93.539 0.64714 0 0 0 0.99983 1 42508 42508 1.8442 0 1 + 22380 12955 14191 14247 26020 26020 0.12843143707846139 PAFFARFTYPE 11 Unmodified _PAFFARFTYPE_ 0 0 0 REV__ENST00000429989.7_1_10:82281286-82281514:+|nuORF REV__ENST00000429989.7_1_10:82281286-82281514:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 673.331298828125 2 673.332413 1344.65027 NaN NaN NaN NaN NaN NaN NaN 73.712 1 74.407 73.907 74.907 0.69559 0 0 0 1.0057 1 35565 35565 3.2813 0.54611 1 + 22381 16246 14192 14248 26021 26021 -0.008266274311381494 PAFFTLTLTHS 11 Unmodified _PAFFTLTLTHS_ 0 0 0 REV__ENST00000254801.8_1_4:71532217-71532331:-|nuORF REV__ENST00000254801.8_1_4:71532217-71532331:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 618.2490234375 2 617.826963 1233.63937 NaN NaN NaN NaN NaN NaN NaN 78.076 1 78.076 77.576 78.576 0 0 0 0 0.97845 1 38329 38329 8.7454 2.5396 1 + 22382 14926 14193 14249 26022 26022 0.03189970194557645 PAFHEHFFF 9 Unmodified _PAFHEHFFF_ 0 0 0 nc|ENSG00000138835|P49796-5|RGS3;ENSG00000138835|ENST00000695401|RGS3;nc|ENSG00000138835|P49796-6|RGS3;nc|ENSG00000138835|P49796|RGS3 nc|ENSG00000138835|P49796-5|RGS3 nc|ENSG00000138835|P49796-5|RGS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.2788696289062 2 589.774534 1177.53451 3.4245 0.0020197 1.2855 0.00075814 4.71 0.0027778 590.2768635636196 44.427 0.041756 44.427 44.403 44.444 0 5 3 2 0 0 0 0.95612 1 20297 20297 4.756 0.81161 1 2297200 22383 3124 14194 14250 26023 26023 -0.04715106491357801 PAFHPTFFLLP 11 Unmodified _PAFHPTFFLLP_ 0 0 0 ENST00000262613.9_1_17:72764813-72765158:+|nuORF ENST00000262613.9_1_17:72764813-72765158:+|nuORF ENST00000262613.9_1_17:72764813-72765158:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.8944702148438 2 643.850242 1285.68593 NaN NaN NaN NaN NaN NaN NaN 91.93 1 91.93 91.43 92.43 0 0 0 0 0.97175 1 48707 48707 9.3831 2.66 1 22384 6578 14195 14251 26024 26024 0.05451454816534351 PAFIQVLLLIR 11 Unmodified _PAFIQVLLLIR_ 0 0 0 REV__ENST00000536411.1_1_12:6484889-6485174:-|nuORF REV__ENST00000536411.1_1_12:6484889-6485174:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.9149780273438 2 641.915916 1281.81728 NaN NaN NaN NaN NaN NaN NaN 73.493 1 74.192 73.692 74.692 0.69881 0 0 0 1.0071 1 35450 35450 1.4819 0 1 + 22385 17180 14196 14252 26025 26025 0.18764265184404394 PAFKLFLVLLK 11 Unmodified _PAFKLFLVLLK_ 0 0 0 REV__ENST00000302418.4_1_10:32299749-32299908:-|nuORF REV__ENST00000302418.4_1_10:32299749-32299908:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.9047241210938 2 644.923209 1287.83187 NaN NaN NaN NaN NaN NaN NaN 87.833 1 87.833 87.333 88.333 0 0 0 0 1.0071 1 45413 45413 1.4819 0.28856 1 + 22386 15197 14197 14253 26026 26026 0.19946337332544317 PAFLEFLKRRQ 11 Unmodified _PAFLEFLKRRQ_ 0 0 0 ENST00000469726.5_1_1:17942561-18023872:+|nuORF;nc|ENSG00000074964|Q9HCE6-5|ARHGEF10L;nc|ENSG00000074964|Q9HCE6-3|ARHGEF10L;nc|ENSG00000074964|Q9HCE6-2|ARHGEF10L;ENSG00000074964|ENST00000361221|ARHGEF10L ENST00000469726.5_1_1:17942561-18023872:+|nuORF ENST00000469726.5_1_1:17942561-18023872:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 702.5399780273438 2 702.909153 1403.80375 NaN NaN NaN NaN NaN NaN NaN 86.469 1 86.499 85.999 86.999 0.030289 0 0 0 1.0071 1 43521 43521 1.4819 0 1 22387 824 14198 14254 26027 26027 0.1180040740516688 PAFLFYYLDRY 11 Unmodified _PAFLFYYLDRY_ 0 0 0 REV__ENST00000524965.5_1_8:145540848-145542370:-|nuORF REV__ENST00000524965.5_1_8:145540848-145542370:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.0322265625 3 489.915089 1466.72344 NaN NaN NaN NaN NaN NaN NaN 61.814 1 61.814 61.314 62.314 0 0 0 0 1.0071 1 28875 28875 0.50596 0.051438 1 + 22388 13996 14199 14255 26028 26028 0.008745012914459949 PAFLGLKCL 9 Unmodified _PAFLGLKCL_ 0 0 0 ABLIM1|p.L13Ffs*6|1|0.22|ENSG00000099204|chr10:114658162-114658163|-/AAAA|frameshift_variant;ENSG00000099204|ENST00000533213|ABLIM1 ABLIM1|p.L13Ffs*6|1|0.22|ENSG00000099204|chr10:114658162-114658163|-/AAAA|frameshift_variant ABLIM1|p.L13Ffs*6|1|0.22|ENSG00000099204|chr10:114658162-114658163|-/AAAA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.2821960449219 2 481.280606 960.546659 3.528 0.0016979 0.10548 5.0766E-05 3.6334 0.0017487 481.28055089209937 91.26 0.37978 91.511 91.328 91.708 0.25163 33 15 3 0 0 0 1.101 1 42019 42019 2.3027 0 1 1959800 22389 2 14200 14256 26029 26029 0.06480793927482864 PAFLGLKCL 9 Unmodified _PAFLGLKCL_ 0 0 0 ABLIM1|p.L13Ffs*6|1|0.22|ENSG00000099204|chr10:114658162-114658163|-/AAAA|frameshift_variant;ENSG00000099204|ENST00000533213|ABLIM1 ABLIM1|p.L13Ffs*6|1|0.22|ENSG00000099204|chr10:114658162-114658163|-/AAAA|frameshift_variant ABLIM1|p.L13Ffs*6|1|0.22|ENSG00000099204|chr10:114658162-114658163|-/AAAA|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 481.280606 960.546659 3.3196 0.0015976 -0.01328 -6.3915E-06 3.3063 0.0015912 481.2804500181617 90.851 0.38586 91.524 91.33 91.716 0.67271 0.0061642 -4.6451E-05 NaN 2.3027 60 22 3 NaN NaN NaN NaN 0 NaN NaN 0 2328800 22390 2 14200 14256 0.06480793927482864 PAFLISQDQYW 11 Unmodified _PAFLISQDQYW_ 0 0 0 REV__ENST00000373886.7_1_10:60588703-60588985:+|nuORF REV__ENST00000373886.7_1_10:60588703-60588985:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 684.3350219726562 2 684.335153 1366.65575 NaN NaN NaN NaN NaN NaN NaN 73.863 1 74.121 73.621 74.621 0.25876 0 0 0 1.0071 1 33937 33937 1.4819 0 1 + 22391 15777 14201 14257 26030 26030 -0.012909486393255065 PAFLKRAA 8 Unmodified _PAFLKRAA_ 0 0 0 REV__ENSG00000167900|ENST00000301634|TK1 REV__ENSG00000167900|ENST00000301634|TK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.27020263671875 2 437.268887 872.523222 NaN NaN NaN NaN NaN NaN NaN 10.521 1 10.521 10.021 11.021 0 0 0 0 0.99035 1 4667 4667 2.8892 0 1 + 22392 13314 14202 14258 26031 26031 0.08186116205160943 PAFMLKKI 8 Unmodified _PAFMLKKI_ 0 0 0 ENSG00000090487|ENST00000204566|SPG21;nc|ENSG00000090487|Q9NZD8-2|SPG21 ENSG00000090487|ENST00000204566|SPG21 ENSG00000090487|ENST00000204566|SPG21 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.8035583496094 2 474.290974 946.567395 3.2056 0.0015204 0.069924 3.3164E-05 3.2756 0.0015536 474.2909201347593 89.495 0.30524 90.173 89.981 90.287 0.67818 31 14 3 0 0 0 0.14249 1 41153 41153 0 0 1 883140 22393 1059 14203 14259 26032 26032 0.09197384307162793 PAFMRHWMEKE 11 Unmodified _PAFMRHWMEKE_ 0 0 0 REV__nc|ENSG00000077800|O75344-3|FKBP6 REV__nc|ENSG00000077800|O75344-3|FKBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 731.3695678710938 2 731.341932 1460.66931 NaN NaN NaN NaN NaN NaN NaN 86.389 1 86.389 85.889 86.889 0 0 0 0 1.0071 1 44266 44266 1.4819 0 1 + 22394 10564 14204 14260 26033 26033 -0.04259737403435793 PAFRVVLRLL 10 Unmodified _PAFRVVLRLL_ 0 0 0 REV__nc|ENSG00000161270|O60500-2|NPHS1 REV__nc|ENSG00000161270|O60500-2|NPHS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.26904296875 2 592.387326 1182.7601 NaN NaN NaN NaN NaN NaN NaN 88.608 1 88.66 88.16 89.16 0.052155 0 0 0 0.99983 1 45184 45184 1.8442 0 1 + 22395 12910 14205 14261 26034 26034 0.17602842698693166 PAFSIVKKH 9 Unmodified _PAFSIVKKH_ 0 0 0 REV__ENSG00000221858|ENST00000641592|OR2A12 REV__ENSG00000221858|ENST00000641592|OR2A12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8104858398438 2 513.808377 1025.6022 3.5804 0.0018396 1.1652 0.00059868 4.7456 0.0024383 513.8088317453813 44.779 0.24996 45.429 45.291 45.541 0.64999 18 8 3 0 0 0 1.0041 1 20499 20499 3.9444 0 1 896110 + 22396 14539 14206 14262 26035 26035 0.0904234343945518 PAFSRWKKKQW 11 Unmodified _PAFSRWKKKQW_ 0 0 0 ENST00000361060.5_1_2:69575455-69581668:-|nuORF ENST00000361060.5_1_2:69575455-69581668:-|nuORF ENST00000361060.5_1_2:69575455-69581668:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 731.6061401367188 2 731.409321 1460.80409 NaN NaN NaN NaN NaN NaN NaN 89.72 1 89.72 89.22 90.22 0 0 0 0 1.0071 1 46942 46942 1.4819 0.28856 1 22397 7218 14207 14263 26036 26036 0.09211827125022864 PAFSWPWWYVL 11 Unmodified _PAFSWPWWYVL_ 0 0 0 ENSG00000167601|ENST00000301178|AXL;nc|ENSG00000167601|P30530-2|AXL;ENST00000599659.5_1_19:41725288-41749617:+|nuORF ENSG00000167601|ENST00000301178|AXL ENSG00000167601|ENST00000301178|AXL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.3894348144531 3 484.576408 1450.70739 NaN NaN NaN NaN NaN NaN NaN 73.485 1 73.485 72.985 73.985 0 0 0 0 1.0079 1 35835 35835 0.50596 0.09769 1 22398 4562 14208 14264 26037 26037 6.8398452413021E-05 PAFTGDTIAL 10 Unmodified _PAFTGDTIAL_ 0 0 0 nc|ENSG00000163520|P98095|FBLN2;ENSG00000163520|ENST00000404922|FBLN2 nc|ENSG00000163520|P98095|FBLN2 nc|ENSG00000163520|P98095|FBLN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.2679138183594 2 503.266207 1004.51786 3.253 0.0016371 0.29446 0.00014819 3.5474 0.0017853 503.26636705128897 66.985 0.34273 67.643 67.475 67.818 0.65777 35 18 2 0 0 0 0.19461 1 30724 30724 39.957 0 1 1003600 22399 4217 14209 14265 26038 26038 0.015783478320258837 PAFWFLWLLLF 11 Unmodified _PAFWFLWLLLF_ 0 0 0 ENSG00000261272|ENST00000561890|MUC22 ENSG00000261272|ENST00000561890|MUC22 ENSG00000261272|ENST00000561890|MUC22 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.03143310546875 3 484.940798 1451.80057 NaN NaN NaN NaN NaN NaN NaN 63.633 1 63.633 63.133 64.133 0 0 0 0 1.0071 1 29967 29967 0.50596 0 1 22400 6309 14210 14266 26039 26039 0.09273764298472997 PAFWFLWLLLF 11 Unmodified _PAFWFLWLLLF_ 0 0 0 ENSG00000261272|ENST00000561890|MUC22 ENSG00000261272|ENST00000561890|MUC22 ENSG00000261272|ENST00000561890|MUC22 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 726.9091796875 2 726.907559 1451.80057 NaN NaN NaN NaN NaN NaN NaN 80.537 1 81.197 80.697 81.697 0.65998 0 0 0 1.0071 1 37111 37111 1.4819 0.41044 1 22401 6309 14210 14266 26040 26040 0.09273764298472997 PAGAENTMAPP 11 Unmodified _PAGAENTMAPP_ 0 0 0 REV__ENST00000468653.5_1_3:160117521-160130242:+|nuORF REV__ENST00000468653.5_1_3:160117521-160130242:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.2442016601562 2 528.244949 1054.47534 NaN NaN NaN NaN NaN NaN NaN 78.558 1 78.558 78.058 79.058 0 0 0 0 0.99968 1 38643 38643 6.7232 0 1 + 22402 11309 14211 14267 26041 26041 -0.049713705678414044 PAGAGRRERKH 11 Unmodified _PAGAGRRERKH_ 0 0 0 REV__ENST00000294244.8_1_11:63580886-63580931:+|nuORF REV__ENST00000294244.8_1_11:63580886-63580931:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 617.8448486328125 2 617.847419 1233.68028 NaN NaN NaN NaN NaN NaN NaN 57.809 1 58.578 58.078 59.078 0.76861 0 0 0 1.0038 1 26494 26494 5.7319 2.1354 1 + 22403 15137 14212 14268 26042 26042 0.07279169077401093 PAGAKYRDVP 10 Unmodified _PAGAKYRDVP_ 0 0 0 ENST00000268893.10_1_17:56387876-56387978:-|nuORF ENST00000268893.10_1_17:56387876-56387978:-|nuORF ENST00000268893.10_1_17:56387876-56387978:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.527099609375 2 537.290548 1072.56654 3.0461 0.0016367 -0.87891 -0.00047223 2.1672 0.0011644 537.7916382316739 43.807 0.12849 43.807 43.776 43.905 0 10 8 2 0 0 0 0.12676 1 20011 20011 7.9102 0 1 1016600 22404 6636 14213 14269 26043 26043 0.033162611917987306 PAGALLLRLV 10 Unmodified _PAGALLLRLV_ 0 0 0 ENSG00000101200|ENST00000380293|AVP ENSG00000101200|ENST00000380293|AVP ENSG00000101200|ENST00000380293|AVP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.8405456542969 2 511.839677 1021.6648 NaN NaN NaN NaN NaN NaN NaN 43.064 1 43.064 42.564 43.564 0 0 0 0 0.99687 1 19609 19609 4.3292 2.0265 1 22405 1272 14214 14270 26044 26044 0.15483489507641934 PAGAPGRR 8 Unmodified _PAGAPGRR_ 0 0 0 ENST00000291442.3_1_19:17351565-17356474:-|nuORF ENST00000291442.3_1_19:17351565-17356474:-|nuORF ENST00000291442.3_1_19:17351565-17356474:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.2262878417969 2 391.225011 780.435469 2.7454 0.0010741 -0.0062487 -2.4446E-06 2.7392 0.0010716 391.2248469070013 81.496 0.42538 81.744 81.551 81.976 0.24803 52 21 3 0 0 0 0.7471 1 37470 37470 0.69038 0 1 2562600 22406 6736 14215 14271 26045 26045 0.0364691533441146 PAGAPGRR 8 Unmodified _PAGAPGRR_ 0 0 0 ENST00000291442.3_1_19:17351565-17356474:-|nuORF ENST00000291442.3_1_19:17351565-17356474:-|nuORF ENST00000291442.3_1_19:17351565-17356474:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.2261657714844 2 391.225011 780.435469 3.5134 0.0013745 -0.33486 -0.00013101 3.1785 0.0012435 391.2247509830266 93.361 0.7642 93.616 93.217 93.981 0.25497 95 37 3 0 0 0 0.7471 2 42798 42798;43026 0.69038 0 1 1758500 22407 6736 14215 14271 26046;26047 26046 0.0364691533441146 PAGAPGRR 8 Unmodified _PAGAPGRR_ 0 0 0 ENST00000291442.3_1_19:17351565-17356474:-|nuORF ENST00000291442.3_1_19:17351565-17356474:-|nuORF ENST00000291442.3_1_19:17351565-17356474:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.2259826660156 2 391.225011 780.435469 2.9256 0.0011446 -0.16459 -6.4393E-05 2.7611 0.0010802 391.22476557429604 81.067 0.44768 81.727 81.503 81.951 0.65997 55 21 3 0 0 0 0.7471 1 37302 37302 0.69038 0 1 2502600 22408 6736 14215 14271 26048 26048 0.0364691533441146 PAGAPGRR 8 Unmodified _PAGAPGRR_ 0 0 0 ENST00000291442.3_1_19:17351565-17356474:-|nuORF ENST00000291442.3_1_19:17351565-17356474:-|nuORF ENST00000291442.3_1_19:17351565-17356474:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 391.225011 780.435469 3.0299 0.0011854 -0.3245 -0.00012695 2.7054 0.0010584 391.22475456724527 93.34 1.5064 93.971 93.524 95.03 0.63115 0.17779 4.1349E-06 NaN 0.69038 131 76 3 NaN NaN NaN NaN 0 NaN NaN 0 1842300 22409 6736 14215 14271 0.0364691533441146 PAGARRRRGGW 11 Unmodified _PAGARRRRGGW_ 0 0 0 REV__ENSG00000224940|ENST00000446477|PRRT4 REV__ENSG00000224940|ENST00000446477|PRRT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.3275146484375 2 620.350129 1238.6857 NaN NaN NaN NaN NaN NaN NaN 85.643 1 85.672 85.172 86.172 0.028603 0 0 0 0.97175 1 42919 42919 9.3831 2.2814 1 + 22410 14551 14216 14272 26049 26049 0.07590892659891324 PAGCGESD 8 Unmodified _PAGCGESD_ 0 0 0 REV__TOB2|p.G195Afs*9|1|0.26|ENSG00000183864|chr22:41436762-41436762|C/-|frameshift_variant REV__TOB2|p.G195Afs*9|1|0.26|ENSG00000183864|chr22:41436762-41436762|C/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 735.4002685546875 1 735.261395 734.254119 3.9947 0.0029372 0.86671 0.00063726 4.8614 0.0035744 735.2621579424158 56.162 0.48994 56.831 56.531 57.021 0.66829 36 26 2 0 0 0 0.14111 1 25598 25598 2.5775 1.7838 1 545350 + 22411 13951 14217 14273 26050 26050 -0.12363810544297849 PAGCYQWR 8 Unmodified _PAGCYQWR_ 0 0 0 REV__ENSG00000137054|ENST00000377798|POLR1E REV__ENSG00000137054|ENST00000377798|POLR1E MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.2496643066406 2 490.723987 979.433421 2.5449 0.0012489 -0.55844 -0.00027404 1.9865 0.00097481 490.7235057769722 75.48 0.15509 75.48 75.383 75.538 0 14 11 2 0 0 0 0.14069 1 36996 36996 6.3541 0 1 411460 + 22412 12094 14218 14274 26051 26051 -0.05711881465708757 PAGDKGDLLL 10 Unmodified _PAGDKGDLLL_ 0 0 0 nc|ENSG00000185507|Q92985-2|IRF7;ENSG00000185507|ENST00000525445|IRF7;nc|ENSG00000185507|Q92985-4|IRF7;ENST00000527160.1_1_11:614111-614513:-|nuORF;ENST00000532096.1_1_11:614111-615490:-|nuORF nc|ENSG00000185507|Q92985-2|IRF7 nc|ENSG00000185507|Q92985-2|IRF7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.7808532714844 2 499.779482 997.544411 2.6276 0.0013132 0.35625 0.00017805 2.9838 0.0014912 499.77965998586296 72.686 0.32668 73.35 73.231 73.558 0.66398 69 38 2 0 0 0 0.19461 2 33376 33376;33448 39.957 0 1 2864400 22413 5512 14219 14275 26052;26053 26052 0.04554036723379795 PAGDPPGPV 9 Unmodified _PAGDPPGPV_ 0 0 0 REV__ENST00000485069.1_1_2:220336878-220337913:+|nuORF REV__ENST00000485069.1_1_2:220336878-220337913:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 806.5851440429688 1 806.404295 805.397018 3.7866 0.0030535 -2.4045 -0.001939 1.3821 0.0011145 806.4027538022584 82.901 0.11769 83.148 83.1 83.218 0.24722 8 5 2 0 0 0 0.065757 1 38146 38146 18.135 3.5533 1 339510 + 22414 10489 14220 14276 26054 26054 -0.013464350907611333 PAGDVTLLQPA 11 Unmodified _PAGDVTLLQPA_ 0 0 0 ENST00000594012.1_19:22001940-22034716:-|nuORF ENST00000594012.1_19:22001940-22034716:-|nuORF ENST00000594012.1_19:22001940-22034716:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.2984619140625 2 541.298039 1080.58152 NaN NaN NaN NaN NaN NaN NaN 86.662 1 86.662 86.162 87.162 0 0 0 0 0.97845 1 44484 44484 8.7454 0.15213 1 22415 9259 14221 14277 26055 26055 0.04445708269145143 PAGDWEQYRI 10 Unmodified _PAGDWEQYRI_ 0 0 0 ENST00000538174.6_1_12:70979073-71031175:-|nuORF;PTPRB|p.S698Pfs*13|1|0.43|ENSG00000127329|chr12:70576478-70576478|A/-|frameshift_variant;nc|ENSG00000127329|P23467-4|PTPRB;nc|ENSG00000127329|P23467|PTPRB;ENSG00000127329|ENST00000334414|PTPRB ENST00000538174.6_1_12:70979073-71031175:-|nuORF ENST00000538174.6_1_12:70979073-71031175:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.7952880859375 2 617.796195 1233.57784 NaN NaN NaN NaN NaN NaN NaN 67.522 1 67.522 67.022 68.022 0 0 0 0 0.99687 1 32410 32410 4.3292 0.73274 1 22416 2477 14222 14278 26056 26056 -0.02960961504709303 PAGDWEQYRI 10 Unmodified _PAGDWEQYRI_ 0 0 0 ENST00000538174.6_1_12:70979073-71031175:-|nuORF;PTPRB|p.S698Pfs*13|1|0.43|ENSG00000127329|chr12:70576478-70576478|A/-|frameshift_variant;nc|ENSG00000127329|P23467-4|PTPRB;nc|ENSG00000127329|P23467|PTPRB;ENSG00000127329|ENST00000334414|PTPRB ENST00000538174.6_1_12:70979073-71031175:-|nuORF ENST00000538174.6_1_12:70979073-71031175:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.7946166992188 2 617.796195 1233.57784 NaN NaN NaN NaN NaN NaN NaN 72.451 1 72.451 71.951 72.951 0 0 0 0 0.99687 1 35243 35243 4.3292 0.73274 1 22417 2477 14222 14278 26057 26057 -0.02960961504709303 PAGEFTFK 8 Unmodified _PAGEFTFK_ 0 0 0 ENSG00000007908|ENST00000333360|SELE ENSG00000007908|ENST00000333360|SELE ENSG00000007908|ENST00000333360|SELE MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 448.73089599609375 2 448.729261 895.443968 NaN NaN NaN NaN NaN NaN NaN 67.769 1 68.471 67.971 68.971 0.70218 0 0 0 0.99035 1 32257 32257 6.3541 0 1 22418 367 14223 14279 26058 26058 -0.007935755396147215 PAGGGGGW 8 Unmodified _PAGGGGGW_ 0 0 0 ENST00000597244.1_1_19:16688263-16688311:-|nuORF ENST00000597244.1_1_19:16688263-16688311:-|nuORF ENST00000597244.1_1_19:16688263-16688311:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 660.227783203125 1 658.29435 657.287074 3.3484 0.0022042 0.38757 0.00025513 3.736 0.0024594 658.2947235899705 72.713 1.0293 73.377 73.044 74.073 0.66398 273 117 3 0 0 0 0.69414 3 33565 33207;33485;33565 6.3541 5.5605 1 18263000 22419 9280 14224 14280 26059;26060;26061 26061 -0.05527815639288747 PAGGGGGW 8 Unmodified _PAGGGGGW_ 0 0 0 ENST00000597244.1_1_19:16688263-16688311:-|nuORF ENST00000597244.1_1_19:16688263-16688311:-|nuORF ENST00000597244.1_1_19:16688263-16688311:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 658.296630859375 1 658.29435 657.287074 3.4152 0.0022482 0.63477 0.00041787 4.05 0.0026661 658.2946498560701 73.852 0.9 74.516 74.06 74.96 0.6644 200 106 2 0 0 0 0.73686 1 33831 33831 2.8892 2.8892 1 6396500 22420 9280 14224 14280 26062 26062 -0.05527815639288747 PAGGGGGW 8 Unmodified _PAGGGGGW_ 0 0 0 ENST00000597244.1_1_19:16688263-16688311:-|nuORF ENST00000597244.1_1_19:16688263-16688311:-|nuORF ENST00000597244.1_1_19:16688263-16688311:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 658.29435 657.287074 3.4888 0.0022967 0.64736 0.00042615 4.1362 0.0027228 658.2948665490068 72.782 1.9737 73.041 72.653 74.627 0.25876 -0.16813 5.3384E-05 NaN 6.3541 490 206 3 NaN NaN NaN NaN 0 NaN NaN 0 11477000 22421 9280 14224 14280 -0.05527815639288747 PAGGGPFG 8 Unmodified _PAGGGPFG_ 0 0 0 REV__ENST00000443628.2_1_X:114009389-114009617:-|nuORF REV__ENST00000443628.2_1_X:114009389-114009617:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 659.502197265625 1 659.314751 658.307475 2.8945 0.0019084 2.5148 0.001658 5.4093 0.0035664 659.3179079077931 85.28 0.03997 85.308 85.277 85.317 0.02861 6 5 2 0 0 0 0.14249 1 42659 42659 2.8892 0 1 1229600 + 22422 11190 14225 14281 26063 26063 -0.035346449794701584 PAGHLARSLHV 11 Unmodified _PAGHLARSLHV_ 0 0 0 nc|ENSG00000008710|P98161-2|PKD1;nc|ENSG00000008710|P98161-3|PKD1;ENSG00000008710|ENST00000262304|PKD1;ENST00000532739.1_1_16:16450692-16458759:+|nuORF;ENST00000532415.5_1_16:18480742-18495490:-|nuORF nc|ENSG00000008710|P98161-2|PKD1 nc|ENSG00000008710|P98161-2|PKD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 579.328857421875 2 579.330539 1156.64652 NaN NaN NaN NaN NaN NaN NaN 94.951 1 95.033 94.533 95.533 0.082001 0 0 0 1.0041 1 50078 50078 5.2969 0 1 22423 382 14226 14282 26064 26064 0.07446747585640878 PAGHRLHPQKP 11 Unmodified _PAGHRLHPQKP_ 0 0 0 DMGDH-NMNAT2|1|fusion DMGDH-NMNAT2|1|fusion DMGDH-NMNAT2|1|fusion MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.3223876953125 2 619.349263 1236.68397 NaN NaN NaN NaN NaN NaN NaN 67.306 1 67.306 66.806 67.806 0 0 0 0 1.0034 1 32251 32251 6.2058 0.47393 1 22424 269 14227 14283 26065 26065 0.07509838851274253 PAGKWFARA 9 Unmodified _PAGKWFARA_ 0 0 0 REV__nc|ENSG00000269335|Q9Y6K9-2|IKBKG REV__nc|ENSG00000269335|Q9Y6K9-2|IKBKG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.7327880859375 2 502.277244 1002.53993 2.9603 0.0014869 -1.053 -0.00052892 1.9073 0.00095798 502.27666395136276 72.391 0.68176 72.65 72.349 73.031 0.25876 132 58 3 0 0 0 0.92809 1 33142 33142 5.2307 0.47466 1 2138700 + 22425 18157 14228 14284 26066 26066 0.0387661709112308 PAGLAMPLPL 10 Unmodified _PAGLAMPLPL_ 0 0 0 REV__AMOTL1|p.Y691Sfs*12|1|0.22|ENSG00000166025|chr11:94859652-94859652|A/-|frameshift_variant REV__AMOTL1|p.Y691Sfs*12|1|0.22|ENSG00000166025|chr11:94859652-94859652|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.2873229980469 2 490.285889 978.557224 NaN NaN NaN NaN NaN NaN NaN 69.374 1 70.077 69.577 70.577 0.70302 0 0 0 0.98473 1 33199 33199 7.9102 0 1 + 22426 9960 14229 14285 26067 26067 0.06708776581922393 PAGLLPKRLRP 11 Unmodified _PAGLLPKRLRP_ 0 0 0 ENST00000534634.5_1_11:71164292-71164355:+|nuORF ENST00000534634.5_1_11:71164292-71164355:+|nuORF ENST00000534634.5_1_11:71164292-71164355:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 609.3983154296875 2 609.395682 1216.77681 NaN NaN NaN NaN NaN NaN NaN 78.537 1 79.001 78.501 79.501 0.4642 0 0 0 1.0055 1 38193 38193 3.5965 1.9439 1 22427 8755 14230 14286 26068 26068 0.17709343584647286 PAGLPGSHPL 10 Unmodified _PAGLPGSHPL_ 0 0 0 ENST00000589764.1_1_18:12067489-12068164:-|nuORF ENST00000589764.1_1_18:12067489-12068164:-|nuORF ENST00000589764.1_1_18:12067489-12068164:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.1414489746094 2 473.261259 944.507966 NaN NaN NaN NaN NaN NaN NaN 76.462 1 77.086 76.586 77.586 0.62397 0 0 0 0.98473 1 37063 37063 7.9102 0 1 22428 9216 14231 14287 26069 26069 0.033492046173250856 PAGLVKKPVLP 11 Unmodified _PAGLVKKPVLP_ 0 0 0 ENST00000489573.5_1_3:160117521-160118495:+|nuORF ENST00000489573.5_1_3:160117521-160118495:+|nuORF ENST00000489573.5_1_3:160117521-160118495:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.8673706054688 2 559.868434 1117.72232 NaN NaN NaN NaN NaN NaN NaN 95.874 1 96.482 95.982 96.982 0.60769 0 0 0 1.0071 1 44086 44086 1.4819 0 1 22429 8379 14232 14288 26070 26070 0.1681633171322119 PAGNWANRLY 10 Unmodified _PAGNWANRLY_ 0 0 0 nc|ENSG00000096006|P54108|CRISP3;ENSG00000096006|ENST00000263045|CRISP3;nc|ENSG00000096006|P54108-3|CRISP3 nc|ENSG00000096006|P54108|CRISP3 nc|ENSG00000096006|P54108|CRISP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.3951416015625 2 581.293622 1160.57269 NaN NaN NaN NaN NaN NaN NaN 84.502 1 84.531 84.031 85.031 0.028603 0 0 0 0.99687 1 42167 42167 4.3292 0 1 22430 1124 14233 14289 26071 26071 -0.0011722057668066554 PAGPGLVWGAL 11 Unmodified _PAGPGLVWGAL_ 0 0 0 REV__ENST00000409366.5_1_2:71693865-71693991:+|nuORF REV__ENST00000409366.5_1_2:71693865-71693991:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.5730590820312 2 519.292559 1036.57057 NaN NaN NaN NaN NaN NaN NaN 76.654 1 76.654 76.154 77.154 0 0 0 0 0.95662 1 37572 37572 10.824 3.7222 1 + 22431 16092 14234 14290 26072 26072 0.053743506855198575 PAGPLALPLT 10 Unmodified _PAGPLALPLT_ 0 0 0 REV__ENSG00000275023|ENST00000621332|MLLT6 REV__ENSG00000275023|ENST00000621332|MLLT6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 475.25164794921875 2 475.289485 948.564418 NaN NaN NaN NaN NaN NaN NaN 70.75 1 71.454 70.954 71.954 0.70386 0 0 0 0.99704 1 33928 33928 4.3292 0 1 + 22432 14732 14235 14291 26073 26073 0.08807832453999254 PAGPRAPARPQ 11 Unmodified _PAGPRAPARPQ_ 0 0 0 REV__ENST00000262158.6_1_18:46476520-46476862:-|nuORF REV__ENST00000262158.6_1_18:46476520-46476862:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.5432739257812 2 559.314889 1116.61522 NaN NaN NaN NaN NaN NaN NaN 81.454 1 81.61 81.11 82.11 0.15608 0 0 0 0.89058 1 40041 40041 17.113 3.2068 1 + 22433 14977 14236 14292 26074 26074 0.061581745515468356 PAGPRRKHHVR 11 Unmodified _PAGPRRKHHVR_ 0 0 0 ENST00000400274.5_1_21:47976946-47980690:+|nuORF;ENST00000472364.1_1_21:47976931-47978452:+|nuORF;ENST00000481883.1_1_21:47977314-47978452:+|nuORF ENST00000400274.5_1_21:47976946-47980690:+|nuORF ENST00000400274.5_1_21:47976946-47980690:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 655.886474609375 2 655.886878 1309.7592 NaN NaN NaN NaN NaN NaN NaN 68.343 1 69.045 68.545 69.545 0.70218 0 0 0 1.0055 1 32579 32579 3.5965 0 1 22434 7606 14237 14293 26075 26075 0.11671441102339486 PAGPTPIM 8 Unmodified _PAGPTPIM_ 0 0 0 ENST00000490414.1_1_1:161188769-161188988:+|nuORF ENST00000490414.1_1_1:161188769-161188988:+|nuORF ENST00000490414.1_1_1:161188769-161188988:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 784.4760131835938 1 783.406937 782.399661 3.3708 0.0026407 0.17987 0.00014091 3.5506 0.0027816 783.4045971890692 99.109 0.06263 99.109 99.063 99.125 0 7 5 2 0 0 0 0.73686 1 54425 54425 2.8892 0 1 10100000 22435 8387 14238 14294 26076 26076 -0.00024302957444888307 PAGQPWRRR 9 Unmodified _PAGQPWRRR_ 0 0 0 ENST00000562767.2_3_15:68486355-68521975:-|nuORF ENST00000562767.2_3_15:68486355-68521975:-|nuORF ENST00000562767.2_3_15:68486355-68521975:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.2802124023438 2 562.315223 1122.61589 NaN NaN NaN NaN NaN NaN NaN 74.341 1 74.6 74.1 75.1 0.25831 0 0 0 0.89315 1 34187 34187 5.2307 0 1 22436 8999 14239 14295 26077 26077 0.05949013991266838 PAGRARQAQLL 11 Unmodified _PAGRARQAQLL_ 0 0 0 ENST00000505443.1_1_5:3531983-3536103:-|nuORF ENST00000505443.1_1_5:3531983-3536103:-|nuORF ENST00000505443.1_1_5:3531983-3536103:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.8496704101562 2 590.849096 1179.68364 NaN NaN NaN NaN NaN NaN NaN 42.809 1 43.623 43.123 44.123 0.81444 0 0 0 1.0034 1 19462 19462 6.2058 1.3088 1 22437 8504 14240 14296 26078 26078 0.10098419131418268 PAGRFRWTRCS 11 Unmodified _PAGRFRWTRCS_ 0 0 0 ENST00000570016.5_1_16:29873914-29874308:-|nuORF;ENST00000219789.10_1_16:29873914-29874242:-|nuORF ENST00000570016.5_1_16:29873914-29874308:-|nuORF ENST00000570016.5_1_16:29873914-29874308:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 668.8386840820312 2 668.838205 1335.66186 NaN NaN NaN NaN NaN NaN NaN 74.269 1 74.528 74.028 75.028 0.25831 0 0 0 1.0055 1 34148 34148 3.5965 0.31518 1 22438 6414 14241 14297 26079 26079 0.007452911111840876 PAGRKSRKKK 10 Unmodified _PAGRKSRKKK_ 0 0 0 ENST00000561643.5_1_15:75646668-75647372:+|nuORF ENST00000561643.5_1_15:75646668-75647372:+|nuORF ENST00000561643.5_1_15:75646668-75647372:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.3753662109375 2 578.375281 1154.73601 NaN NaN NaN NaN NaN NaN NaN 84.974 1 85.64 85.14 86.14 0.66566 0 0 0 0.99983 1 39135 39135 1.8442 1.2427 1 22439 8986 14242 14298 26080 26080 0.1648300226502215 PAGRLDRRHET 11 Unmodified _PAGRLDRRHET_ 0 0 0 REV__ENST00000607943.1_1_22:50630604-50630772:-|nuORF REV__ENST00000607943.1_1_22:50630604-50630772:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 654.3504638671875 2 654.349991 1306.68543 NaN NaN NaN NaN NaN NaN NaN 71.298 1 71.298 70.798 71.798 0 0 0 0 1.0038 1 34656 34656 5.7319 2.1354 1 + 22440 17674 14243 14299 26081 26081 0.04435428149349718 PAGRPIRSGKR 11 Unmodified _PAGRPIRSGKR_ 0 0 0 REV__ENST00000455565.5_2_17:43697992-43698448:+|nuORF REV__ENST00000455565.5_2_17:43697992-43698448:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 597.8642578125 2 597.862538 1193.71052 NaN NaN NaN NaN NaN NaN NaN 74.085 1 74.085 73.585 74.585 0 0 0 0 1.0041 1 36156 36156 5.2969 1.7004 1 + 22441 16444 14244 14300 26082 26082 0.12141527742596736 PAGRRPLKRN 10 Unmodified _PAGRRPLKRN_ 0 0 0 REV__nc|ENSG00000117602|Q9UKA8-4|RCAN3 REV__nc|ENSG00000117602|Q9UKA8-4|RCAN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.8569946289062 2 582.857255 1163.69996 NaN NaN NaN NaN NaN NaN NaN 72.233 1 72.492 71.992 72.992 0.25876 0 0 0 0.98866 1 33156 33156 7.2892 2.3922 1 + 22442 17908 14245 14301 26083 26083 0.12465545088184626 PAGRVRFRRR 10 Unmodified _PAGRVRFRRR_ 0 0 0 REV__ENST00000589096.1_1_19:13869843-13870239:+|nuORF REV__ENST00000589096.1_1_19:13869843-13870239:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 635.888916015625 2 635.889421 1269.76429 NaN NaN NaN NaN NaN NaN NaN 81.983 1 81.983 81.483 82.483 0 0 0 0 0.98866 1 40910 40910 7.2892 1.0834 1 + 22443 17565 14246 14302 26084 26084 0.1401974496495768 PAGSLSRKKRL 11 Unmodified _PAGSLSRKKRL_ 0 0 0 ENSG00000101255|ENST00000217233|TRIB3 ENSG00000101255|ENST00000217233|TRIB3 ENSG00000101255|ENST00000217233|TRIB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 607.1148071289062 2 606.880396 1211.74624 NaN NaN NaN NaN NaN NaN NaN 78.735 1 79.199 78.699 79.699 0.4642 0 0 0 1.0038 1 38317 38317 5.7319 0.43497 1 22444 1277 14247 14303 26085 26085 0.14883565199602344 PAGSRGRRL 9 Unmodified _PAGSRGRRL_ 0 0 0 REV__ENST00000369617.8_1_1:113933414-114092146:+|nuORF REV__ENST00000369617.8_1_1:113933414-114092146:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.2895812988281 2 485.288674 968.562795 NaN NaN NaN NaN NaN NaN NaN 49.446 1 49.446 48.946 49.946 0 0 0 0 0.89315 1 22642 22642 5.2307 0.47466 1 + 22445 15709 14248 14304 26086 26086 0.07725636208613196 PAGSSWTV 8 Unmodified _PAGSSWTV_ 0 0 0 ENST00000461141.5_1_3:183952309-183959823:+|nuORF ENST00000461141.5_1_3:183952309-183959823:+|nuORF ENST00000461141.5_1_3:183952309-183959823:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 804.3930053710938 1 804.388645 803.381368 3.2284 0.0025969 0.99779 0.00080261 4.2262 0.0033995 804.3906003137747 83.44 0.060562 83.44 83.419 83.48 0 12 10 2 0 0 0 0.69414 1 42026 42026 6.3541 0 1 15622000 22446 8077 14249 14305 26087 26087 -0.028187216077981248 PAGSVTLVTW 10 Unmodified _PAGSVTLVTW_ 0 0 0 REV__ENST00000251546.8_1_1:11721807-11722026:+|nuORF REV__ENST00000251546.8_1_1:11721807-11722026:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.7806396484375 2 515.782025 1029.5495 NaN NaN NaN NaN NaN NaN NaN 98.162 1 98.761 98.261 99.261 0.59885 0 0 0 0.96109 1 45214 45214 11.64 0.81637 1 + 22447 14909 14250 14306 26088 26088 0.035903405860153725 PAGVADRNFT 10 Unmodified _PAGVADRNFT_ 0 0 0 nc|ENSG00000148357|Q8NDA2-4|HMCN2;nc|ENSG00000148357|Q8NDA2-1|HMCN2;ENSG00000148357|ENST00000683500|HMCN2 nc|ENSG00000148357|Q8NDA2-4|HMCN2 nc|ENSG00000148357|Q8NDA2-4|HMCN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.2628173828125 2 524.26453 1046.51451 NaN NaN NaN NaN NaN NaN NaN 93.877 1 93.963 93.463 94.463 0.086212 0 0 0 0.95544 1 49278 49278 12.532 2.4576 1 22448 3601 14251 14307 26089 26089 -0.0068890222196387185 PAGVHSCCCC 10 Unmodified _PAGVHSCCCC_ 0 0 0 REV__nc|ENSG00000231721|A0A455ZAR2|LINC-PINT REV__nc|ENSG00000231721|A0A455ZAR2|LINC-PINT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.1650695800781 2 490.166276 978.317998 NaN NaN NaN NaN NaN NaN NaN 74.243 1 74.907 74.407 75.407 0.6644 0 0 0 0.99983 1 34169 34169 1.8442 1.0506 1 + 22449 16417 14252 14308 26090 26090 -0.1720281297486963 PAGWDLFRRYE 11 Unmodified _PAGWDLFRRYE_ 0 0 0 REV__ENSG00000182187|ENST00000260988|CRYGB REV__ENSG00000182187|ENST00000260988|CRYGB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 705.3864135742188 2 705.351668 1408.68878 NaN NaN NaN NaN NaN NaN NaN 65.109 1 65.818 65.318 66.318 0.70891 0 0 0 1.0055 1 30740 30740 3.5965 0.60125 1 + 22450 13879 14253 14309 26091 26091 0.0007867820336286968 PAGWWRWGR 9 Unmodified _PAGWWRWGR_ 0 0 0 REV__ENST00000339526.8_1_1:182360552-182360696:-|nuORF REV__ENST00000339526.8_1_1:182360552-182360696:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.3013305664062 2 586.299042 1170.58353 NaN NaN NaN NaN NaN NaN NaN 99.568 1 99.876 99.376 100.38 0.30835 0 0 0 0.89315 1 46017 46017 5.2307 0.90143 1 + 22451 15449 14254 14310 26092 26092 0.005062265882770589 PAHCYLRFFRH 11 Unmodified _PAHCYLRFFRH_ 0 0 0 REV__nc|ENSG00000167615|Q96PV6-1|LENG8 REV__nc|ENSG00000167615|Q96PV6-1|LENG8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 723.8621215820312 2 723.864223 1445.71389 NaN NaN NaN NaN NaN NaN NaN 73.97 1 74.657 74.157 75.157 0.68662 0 0 0 1.0057 1 35727 35727 3.2813 0.28607 1 + 22452 13294 14255 14311 26093 26093 0.008864545249252842 PAHKWKPLL 9 Unmodified _PAHKWKPLL_ 0 0 0 nc|ENSG00000151360|Q8N6M5-2|ALLC;ENSG00000151360|ENST00000252505|ALLC nc|ENSG00000151360|Q8N6M5-2|ALLC nc|ENSG00000151360|Q8N6M5-2|ALLC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.3318481445312 2 545.332019 1088.64948 NaN NaN NaN NaN NaN NaN NaN 100.97 1 101.57 101.07 102.07 0.59717 0 0 0 0.90511 1 46750 46750 2.3027 0 1 22453 3704 14256 14312 26094 26094 0.10870622710467615 PAHQLLLRLLQ 11 Unmodified _PAHQLLLRLLQ_ 0 0 0 REV__ENSG00000136891|ENST00000374902|TEX10 REV__ENSG00000136891|ENST00000374902|TEX10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.6531066894531 3 434.60659 1300.79794 NaN NaN NaN NaN NaN NaN NaN 67.508 1 68.21 67.71 68.71 0.70218 0 0 0 1.0057 1 32110 32110 2.8433 0 1 + 22454 12086 14257 14313 26095 26095 0.15957308893507616 PAHSDCYP 8 Unmodified _PAHSDCYP_ 0 0 0 nc|ENSG00000186566|Q9UKJ3-2|GPATCH8;ENSG00000186566|ENST00000591680|GPATCH8 nc|ENSG00000186566|Q9UKJ3-2|GPATCH8 nc|ENSG00000186566|Q9UKJ3-2|GPATCH8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 444.9718017578125 2 445.179078 888.343602 NaN NaN NaN NaN NaN NaN NaN 64.254 1 64.254 63.754 64.754 0 0 0 0 0.99035 1 30397 30397 2.8892 0 1 22455 5579 14258 14314 26096 26096 -0.10503555864943337 PAHVAEHF 8 Unmodified _PAHVAEHF_ 0 0 0 ENSG00000078295|ENST00000338316|ADCY2;nc|ENSG00000078295|Q08462-2|ADCY2 ENSG00000078295|ENST00000338316|ADCY2 ENSG00000078295|ENST00000338316|ADCY2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.15289306640625 3 303.15221 906.434801 2.4224 0.00073437 0.281 8.5185E-05 2.7034 0.00081955 303.1522752953055 29.845 0.39026 30.103 29.859 30.249 0.25804 104 35 4 0 0 0 0.13749 1 13554 13554 7.9102 0.62092 1 2774700 22456 875 14259 14315 26097 26097 -0.022159241052918333 PAHVAEHF 8 Unmodified _PAHVAEHF_ 0 0 0 ENSG00000078295|ENST00000338316|ADCY2;nc|ENSG00000078295|Q08462-2|ADCY2 ENSG00000078295|ENST00000338316|ADCY2 ENSG00000078295|ENST00000338316|ADCY2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 303.15221 906.434801 2.1595 0.00065467 0.069407 2.1041E-05 2.229 0.00067571 303.1522032700941 30.109 0.27877 30.109 29.974 30.253 0 0.054007 -0.00010917 NaN 7.9102 51 18 4 NaN NaN NaN NaN 0 NaN NaN 0 1865500 22457 875 14259 14315 -0.022159241052918333 PAHVAEHF 8 Unmodified _PAHVAEHF_ 0 0 0 ENSG00000078295|ENST00000338316|ADCY2;nc|ENSG00000078295|Q08462-2|ADCY2 ENSG00000078295|ENST00000338316|ADCY2 ENSG00000078295|ENST00000338316|ADCY2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 303.15221 906.434801 2.3539 0.0007136 -0.15316 -4.6431E-05 2.2008 0.00066717 303.15214425703084 29.181 0.38717 29.97 29.739 30.126 0.78921 -0.085181 -0.00031158 NaN 7.9102 81 28 4 NaN NaN NaN NaN 0 NaN NaN 0 1090100 22458 875 14259 14315 -0.022159241052918333 PAHVAEHF 8 Unmodified _PAHVAEHF_ 0 0 0 ENSG00000078295|ENST00000338316|ADCY2;nc|ENSG00000078295|Q08462-2|ADCY2 ENSG00000078295|ENST00000338316|ADCY2 ENSG00000078295|ENST00000338316|ADCY2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 303.15221 906.434801 2.1309 0.00064598 0.54891 0.0001664 2.6798 0.00081238 303.1523482726974 29.42 0.51285 30.038 29.826 30.339 0.61789 -0.016707 0.00032692 NaN 7.9102 102 33 4 NaN NaN NaN NaN 0 NaN NaN 0 2124500 22459 875 14259 14315 -0.022159241052918333 PAHVGARVVK 10 Unmodified _PAHVGARVVK_ 0 0 0 REV__nc|ENSG00000136710|Q96NT0-2|CCDC115 REV__nc|ENSG00000136710|Q96NT0-2|CCDC115 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.7896118164062 2 517.3169 1032.61925 NaN NaN NaN NaN NaN NaN NaN 98.194 1 98.793 98.293 99.293 0.59885 0 0 0 0.99704 1 45240 45240 4.3292 0 1 + 22460 17952 14260 14316 26098 26098 0.10424264045263953 PAHVKLVFV 9 Unmodified _PAHVKLVFV_ 0 0 0 nc|ENSG00000157211|Q5VXM1-1|CDCP2;ENSG00000157211|ENST00000530059|CDCP2 nc|ENSG00000157211|Q5VXM1-1|CDCP2 nc|ENSG00000157211|Q5VXM1-1|CDCP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.07952880859375 2 505.313295 1008.61204 NaN NaN NaN NaN NaN NaN NaN 75.537 1 75.537 75.037 76.037 0 0 0 0 0.7971 1 37013 37013 9.3474 1.4373 1 22461 3942 14261 14317 26099 26099 0.10807531444856977 PAHVLRSFKYA 11 Unmodified _PAHVLRSFKYA_ 0 0 0 nc|ENSG00000138758|Q9NVA2-2|SEPTIN11 nc|ENSG00000138758|Q9NVA2-2|SEPTIN11 nc|ENSG00000138758|Q9NVA2-2|SEPTIN11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 644.85986328125 2 644.861672 1287.70879 NaN NaN NaN NaN NaN NaN NaN 76.596 1 77.26 76.76 77.76 0.66387 0 0 0 1.0038 1 35289 35289 5.7319 0 1 22462 9666 14262 14318 26100 26100 0.07644473933987683 PAHVMKLLE 9 Unmodified _PAHVMKLLE_ 0 0 0 nc|ENSG00000113790|Q08426-2|EHHADH;ENSG00000113790|ENST00000231887|EHHADH nc|ENSG00000113790|Q08426-2|EHHADH nc|ENSG00000113790|Q08426-2|EHHADH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.2953491210938 2 519.294245 1036.57394 NaN NaN NaN NaN NaN NaN NaN 86.794 1 86.794 86.294 87.294 0 0 0 0 0.69911 1 44582 44582 12.532 2.4576 1 22463 1874 14263 14319 26101 26101 0.057112774678671485 PAHWRCARF 9 Unmodified _PAHWRCARF_ 0 0 0 LTR12C_dup692|chr4:69114298-69115807:-|5.576688884045835|0.1619943684727404|5.11|537.0|27|3|sense LTR12C_dup692|chr4:69114298-69115807:-|5.576688884045835|0.1619943684727404|5.11|537.0|27|3|sense LTR12C_dup692|chr4:69114298-69115807:-|5.576688884045835|0.1619943684727404|5.11|537.0|27|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.8605041503906 3 381.859144 1142.5556 NaN NaN NaN NaN NaN NaN NaN 10.804 1 11.083 10.583 11.583 0.2792 0 0 0 0.91206 1 4693 4693 0.26902 0 1 22464 9489 14264 14320 26102 26102 -0.009974196634857435 PAIHPFPNR 9 Unmodified _PAIHPFPNR_ 0 0 0 ENST00000542587.5_3_19:19738564-19738923:-|nuORF ENST00000542587.5_3_19:19738564-19738923:-|nuORF ENST00000542587.5_3_19:19738564-19738923:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.19580078125 3 350.194409 1047.5614 2.5632 0.00089763 -0.11738 -4.1106E-05 2.4458 0.00085652 350.19437094671184 17.918 0.22949 17.918 17.773 18.002 0 19 16 2 0 0 0 1.0755 1 7943 7943 2.7352 1.0826 1 382470 22465 8819 14265 14321 26103 26103 0.03952002119831377 PAIHPFPNR 9 Unmodified _PAIHPFPNR_ 0 0 0 ENST00000542587.5_3_19:19738564-19738923:-|nuORF ENST00000542587.5_3_19:19738564-19738923:-|nuORF ENST00000542587.5_3_19:19738564-19738923:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.1954345703125 3 350.194409 1047.5614 2.3104 0.00080909 0.82767 0.00028984 3.1381 0.0010989 350.1945685382891 15.329 0.87448 15.635 15.313 16.188 0.306 176 91 2 0 0 0 1.0894 1 6861 6861 2.4985 0.65425 1 280720 22466 8819 14265 14321 26104 26104 0.03952002119831377 PAIIKIKMASP 11 Unmodified _PAIIKIKMASP_ 0 0 0 REV__ENST00000507366.1_1_5:79595499-79595778:-|nuORF REV__ENST00000507366.1_1_5:79595499-79595778:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.8575439453125 2 584.859752 1167.70495 NaN NaN NaN NaN NaN NaN NaN 11.479 1 12.117 11.617 12.617 0.63746 0 0 0 1.008 1 5162 5162 0.30703 0.30703 1 + 22467 16939 14266 14322 26105 26105 0.12780668115897242 PAIKLLLH 8 Unmodified _PAIKLLLH_ 0 0 0 REV__ENST00000605778.1_1_7:35738158-35738266:+|nuORF REV__ENST00000605778.1_1_7:35738158-35738266:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 452.7564392089844 2 452.802563 903.590573 NaN NaN NaN NaN NaN NaN NaN 69.272 1 69.974 69.474 70.474 0.70218 0 0 0 0.91812 1 33141 33141 11.114 0 1 + 22468 17661 14267 14323 26106 26106 0.13492146416137984 PAILRKKRKMR 11 Unmodified _PAILRKKRKMR_ 0 0 0 nc|ENSG00000185697|P10243-2|MYBL1;MYBL1|p.Q726Yfs*8|1|0.04|ENSG00000185697|chr8:66564780-66564781|-/TAAGATA|frameshift_variant;ENSG00000185697|ENST00000522677|MYBL1 nc|ENSG00000185697|P10243-2|MYBL1 nc|ENSG00000185697|P10243-2|MYBL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 698.9534912109375 2 698.955915 1395.89728 NaN NaN NaN NaN NaN NaN NaN 51.342 1 51.604 51.104 52.104 0.26227 0 0 0 1.008 1 23463 23463 0.35063 0 1 22469 5526 14268 14324 26107 26107 0.21516428306586022 PAIQEELIT 9 Unmodified _PAIQEELIT_ 0 0 0 ENST00000571796.5_1_17:80869637-80887508:+|nuORF;ENSG00000141556|ENST00000355528|TBCD;nc|ENSG00000141556|Q9BTW9-4|TBCD ENST00000571796.5_1_17:80869637-80887508:+|nuORF ENST00000571796.5_1_17:80869637-80887508:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.27960205078125 2 507.279315 1012.54408 NaN NaN NaN NaN NaN NaN NaN 71.042 1 71.042 70.542 71.542 0 0 0 0 0.62812 1 34518 34518 14.838 1.3304 1 22470 3269 14269 14325 26108 26108 0.03830617003529824 PAISAVAVALM 11 Unmodified _PAISAVAVALM_ 0 0 0 nc|ENSG00000166347|P00167-3|CYB5A;ENSG00000166347|ENST00000340533|CYB5A;ENST00000583418.1_1_18:71920821-71923019:-|nuORF;ENST00000579064.1_1_18:71920821-71928287:-|nuORF;ENST00000580678.5_1_18:71920821-71928203:-|nuORF nc|ENSG00000166347|P00167-3|CYB5A nc|ENSG00000166347|P00167-3|CYB5A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.8041381835938 2 521.801903 1041.58925 NaN NaN NaN NaN NaN NaN NaN 49.257 1 49.257 48.757 49.757 0 0 0 0 0.99968 1 22555 22555 6.7232 1.4925 1 22471 4476 14270 14326 26109 26109 0.07012144265036113 PAIVLQVHHIF 11 Unmodified _PAIVLQVHHIF_ 0 0 0 ENST00000359195.3_1_7:106505947-106508023:+|nuORF ENST00000359195.3_1_7:106505947-106508023:+|nuORF ENST00000359195.3_1_7:106505947-106508023:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 637.0872802734375 2 637.374415 1272.73428 NaN NaN NaN NaN NaN NaN NaN 77.997 1 77.997 77.497 78.497 0 0 0 0 1.0057 1 38283 38283 3.2813 0.28607 1 22472 7200 14271 14327 26110 26110 0.10881948456403734 PAIVTPQVKQ 10 Unmodified _PAIVTPQVKQ_ 0 0 0 nc|ENSG00000138795|Q9UJU2-7|LEF1;nc|ENSG00000138795|Q9UJU2-2|LEF1;nc|ENSG00000138795|Q9UJU2-5|LEF1;nc|ENSG00000138795|Q9UJU2-6|LEF1;ENSG00000138795|ENST00000265165|LEF1;nc|ENSG00000138795|Q9UJU2-4|LEF1;nc|ENSG00000138795|Q9UJU2-3|LEF1 nc|ENSG00000138795|Q9UJU2-7|LEF1 nc|ENSG00000138795|Q9UJU2-7|LEF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.8272094726562 2 540.824224 1079.63389 NaN NaN NaN NaN NaN NaN NaN 59.868 1 59.868 59.368 60.368 0 0 0 0 0.94673 1 27697 27697 13.906 0.86358 1 22473 3120 14272 14328 26111 26111 0.09726291402762399 PAIYSDDTL 9 Unmodified _PAIYSDDTL_ 0 0 0 ENST00000430515.1_1_3:194476389-194476791:+|nuORF ENST00000430515.1_1_3:194476389-194476791:+|nuORF ENST00000430515.1_1_3:194476389-194476791:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.139892578125 2 497.740022 993.465492 2.8134 0.0014004 1.7702 0.00088109 4.5836 0.0022814 497.7400365653826 53.8 0.30495 54.603 54.485 54.79 0.8035 29 13 3 0 0 0 0.10461 1 24606 24606 2.0598 0 1 261670 22474 7849 14273 14329 26112 26112 -0.03150235301563953 PAKADWPKEA 10 Unmodified _PAKADWPKEA_ 0 0 0 REV__ZNF831|p.S1009Afs*56|1|0.26|ENSG00000124203|chr20:59194040-59194040|C/-|frameshift_variant REV__ZNF831|p.S1009Afs*56|1|0.26|ENSG00000124203|chr20:59194040-59194040|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.8148803710938 2 556.790381 1111.56621 NaN NaN NaN NaN NaN NaN NaN 68.655 1 68.655 68.155 69.155 0 0 0 0 0.99225 1 33070 33070 6.7232 0 1 + 22475 11642 14274 14330 26113 26113 0.014888414719507637 PAKAEEYKT 9 Unmodified _PAKAEEYKT_ 0 0 0 REV__nc|ENSG00000099957|O15547-2|P2RX6 REV__nc|ENSG00000099957|O15547-2|P2RX6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.7588500976562 2 518.769114 1035.52368 NaN NaN NaN NaN NaN NaN NaN 70.187 1 70.89 70.39 71.39 0.70302 0 0 0 0.84134 1 33621 33621 7.9102 0 1 + 22476 10795 14275 14331 26114 26114 0.007334463437018712 PAKAESKDNKE 11 Unmodified _PAKAESKDNKE_ 0 0 0 nc|ENSG00000084676|Q15788-2|NCOA1;nc|ENSG00000084676|Q15788-3|NCOA1;ENSG00000084676|ENST00000348332|NCOA1 nc|ENSG00000084676|Q15788-2|NCOA1 nc|ENSG00000084676|Q15788-2|NCOA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 608.8135986328125 2 608.812042 1215.60953 NaN NaN NaN NaN NaN NaN NaN 64.835 1 64.835 64.335 65.335 0 0 0 0 1.0038 1 30794 30794 5.7319 0.43497 1 22477 959 14276 14332 26115 26115 0.010349864585805335 PAKAIFLHRR 10 Unmodified _PAKAIFLHRR_ 0 0 0 ENST00000473451.1_1_3:49950446-49967283:-|nuORF;ENST00000486107.5_1_3:49947550-49967319:-|nuORF;nc|ENSG00000164077|Q86VX9-4|MON1A;nc|ENSG00000164077|Q86VX9|MON1A ENST00000473451.1_1_3:49950446-49967283:-|nuORF ENST00000473451.1_1_3:49950446-49967283:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 604.9280395507812 2 604.872374 1207.73019 NaN NaN NaN NaN NaN NaN NaN 72.06 1 72.319 71.819 72.819 0.25876 0 0 0 0.99225 1 33071 33071 6.7232 2.7788 1 22478 8197 14277 14333 26116 26116 0.13463903753336126 PAKAKAPKPKA 11 Unmodified _PAKAKAPKPKA_ 0 0 0 ENSG00000124575|ENST00000244534|H1-3 ENSG00000124575|ENST00000244534|H1-3 ENSG00000124575|ENST00000244534|H1-3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.9193115234375 2 553.855858 1105.69716 NaN NaN NaN NaN NaN NaN NaN 62.944 1 63.666 63.166 64.166 0.72236 0 0 0 0.9007 1 29435 29435 16.149 7.4037 1 22479 2368 14278 14334 26117 26117 0.14854276910659792 PAKAKAVVKK 10 Unmodified _PAKAKAVVKK_ 0 0 0 REV__ENSG00000178804|ENST00000324382|H1-8 REV__ENSG00000178804|ENST00000324382|H1-8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.3543090820312 2 520.352951 1038.69135 4.2337 0.002203 -1.3698 -0.00071276 2.864 0.0014903 520.351908985537 105.54 0.12077 105.86 105.78 105.9 0.31781 11 4 3 0 0 0 0.90196 1 48720 48720 3.5965 0.70727 1 1181400 + 22480 13772 14279 14335 26118 26118 0.17355178398975113 PAKAKRKAG 9 Unmodified _PAKAKRKAG_ 0 0 0 ENST00000444704.5_1_12:6761840-6762457:-|nuORF ENST00000444704.5_1_12:6761840-6762457:-|nuORF ENST00000444704.5_1_12:6761840-6762457:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.7973937988281 2 463.798343 925.582134 NaN NaN NaN NaN NaN NaN NaN 98.646 1 99.244 98.744 99.744 0.59748 0 0 0 0.72654 1 45511 45511 11.64 2.2929 1 22481 7961 14280 14336 26119 26119 0.1163659249950797 PAKALMRQRG 10 Unmodified _PAKALMRQRG_ 0 0 0 ENSG00000105523|ENST00000263266|FAM83E ENSG00000105523|ENST00000263266|FAM83E ENSG00000105523|ENST00000263266|FAM83E MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.2973022460938 2 564.326942 1126.63933 NaN NaN NaN NaN NaN NaN NaN 77.878 1 77.878 77.378 78.378 0 0 0 0 0.94673 1 38216 38216 13.906 0 1 22482 1504 14281 14337 26120 26120 0.08107691713553322 PAKAMDDSWEP 11 Unmodified _PAKAMDDSWEP_ 0 0 0 REV__nc|ENSG00000134369|Q8NEY1-7|NAV1 REV__nc|ENSG00000134369|Q8NEY1-7|NAV1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 623.622314453125 2 623.774071 1245.53359 NaN NaN NaN NaN NaN NaN NaN 95.492 1 95.492 94.992 95.992 0 0 0 0 0.97175 1 51429 51429 9.3831 1.473 1 + 22483 11963 14282 14338 26121 26121 -0.0793573371322509 PAKAPKLF 8 Unmodified _PAKAPKLF_ 0 0 0 nc|ENSG00000242580|A0A0B4J1Z2|IGKV1D-43 nc|ENSG00000242580|A0A0B4J1Z2|IGKV1D-43 nc|ENSG00000242580|A0A0B4J1Z2|IGKV1D-43 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.274169921875 2 436.273638 870.532724 NaN NaN NaN NaN NaN NaN NaN 67.279 1 67.981 67.481 68.481 0.70218 0 0 0 0.88162 1 31960 31960 13.508 0.97634 1 22484 9847 14283 14339 26122 26122 0.0922788449069003 PAKAPLSK 8 Unmodified _PAKAPLSK_ 0 0 0 REV__ENSG00000124564|ENST00000397060|SLC17A3 REV__ENSG00000124564|ENST00000397060|SLC17A3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.275146484375 1 811.503615 810.496338 2.7428 0.0022258 3.0308 0.0024595 5.7736 0.0046853 811.5045995800396 87.667 0.034584 87.707 87.679 87.713 0.039963 6 4 2 0 0 0 0.13672 1 44448 44448 13.508 4.1604 1 12078000 + 22485 11659 14284 14340 26123 26123 0.08351007593989834 PAKAPLSK 8 Unmodified _PAKAPLSK_ 0 0 0 REV__ENSG00000124564|ENST00000397060|SLC17A3 REV__ENSG00000124564|ENST00000397060|SLC17A3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 811.503615 810.496338 3.2715 0.0026549 6.4269 0.0052155 9.6984 0.0078703 811.511705097045 87.752 0.034599 87.752 87.743 87.777 0 0.022615 0.0018252 NaN 13.508 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 34032000 + 22486 11659 14284 14340 0.08351007593989834 PAKAQIHGGIL 11 Unmodified _PAKAQIHGGIL_ 0 0 0 ENSG00000142798|ENST00000374695|HSPG2 ENSG00000142798|ENST00000374695|HSPG2 ENSG00000142798|ENST00000374695|HSPG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.8302001953125 2 552.82984 1103.64513 NaN NaN NaN NaN NaN NaN NaN 107.37 1 107.42 106.92 107.92 0.045425 0 0 0 1.0059 1 58043 58043 2.9952 0.93549 1 22487 3331 14285 14341 26124 26124 0.09745113496910562 PAKARTGHNP 10 Unmodified _PAKARTGHNP_ 0 0 0 REV__ENST00000525266.5_1_8:146062833-146071517:+|nuORF REV__ENST00000525266.5_1_8:146062833-146071517:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.4273681640625 2 524.785964 1047.55738 NaN NaN NaN NaN NaN NaN NaN 94.207 1 94.207 93.707 94.707 0 0 0 0 0.92641 1 50467 50467 17.113 1.2657 1 + 22488 17083 14286 14342 26125 26125 0.03549912626135665 PAKAVKMY 8 Unmodified _PAKAVKMY_ 0 0 0 REV__ENSG00000181790|ENST00000517894|ADGRB1 REV__ENSG00000181790|ENST00000517894|ADGRB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.25897216796875 2 454.257131 906.499709 NaN NaN NaN NaN NaN NaN NaN 62.995 1 63.717 63.217 64.217 0.72236 0 0 0 0.88162 1 29463 29463 13.508 4.1604 1 + 22489 13864 14287 14343 26126 26126 0.042719343763451434 PAKDIHLDL 9 Unmodified _PAKDIHLDL_ 0 0 0 nc|ENSG00000159140|P18583-2|SON;nc|ENSG00000159140|P18583-7|SON;ENSG00000159140|ENST00000356577|SON;nc|ENSG00000159140|P18583-5|SON;nc|ENSG00000159140|P18583-9|SON;nc|ENSG00000159140|P18583-6|SON;nc|ENSG00000159140|P18583-10|SON;nc|ENSG00000159140|P18583-3|SON;nc|ENSG00000159140|P18583-4|SON nc|ENSG00000159140|P18583-2|SON nc|ENSG00000159140|P18583-2|SON MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.2506408691406 2 511.287474 1020.5604 NaN NaN NaN NaN NaN NaN NaN 95.422 1 95.422 94.922 95.922 0 0 0 0 0.84134 1 51375 51375 7.9102 0.62092 1 22490 4010 14288 14344 26127 26127 0.05093742960275449 PAKDLSMLKG 10 Unmodified _PAKDLSMLKG_ 0 0 0 REV__ENSG00000130449|ENST00000252744|ZSWIM6 REV__ENSG00000130449|ENST00000252744|ZSWIM6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.1810913085938 2 530.296985 1058.57942 NaN NaN NaN NaN NaN NaN NaN 86.24 1 86.24 85.74 86.74 0 0 0 0 0.97102 1 44163 44163 10.074 2.7847 1 + 22491 11817 14289 14345 26128 26128 0.052469562596797914 PAKDYSDSCD 10 Unmodified _PAKDYSDSCD_ 0 0 0 REV__ENSG00000146530|ENST00000275358|VWDE REV__ENSG00000146530|ENST00000275358|VWDE MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.3265991210938 2 550.713679 1099.4128 NaN NaN NaN NaN NaN NaN NaN 62.167 1 62.898 62.398 63.398 0.73077 0 0 0 0.99733 1 28941 28941 3.9444 1.6417 1 + 22492 12476 14290 14346 26129 26129 -0.13292561426692373 PAKDYSDSCDY 11 Unmodified _PAKDYSDSCDY_ 0 0 0 REV__ENSG00000146530|ENST00000275358|VWDE REV__ENSG00000146530|ENST00000275358|VWDE MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.83489990234375 3 421.832654 1262.47613 NaN NaN NaN NaN NaN NaN NaN 1.5419 1 1.9355 1.4355 2.4355 0.39356 0 0 0 1.008 1 701 701 0.094841 0 1 + 22493 12476 14291 14347 26130 26130 -0.1446062070942844 PAKEEEDDD 9 Unmodified _PAKEEEDDD_ 0 0 0 REV__ENSG00000100034|ENST00000263212|PPM1F REV__ENSG00000100034|ENST00000263212|PPM1F MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.2017211914062 2 524.209283 1046.40401 NaN NaN NaN NaN NaN NaN NaN 69.194 1 69.896 69.396 70.396 0.70218 0 0 0 0.89509 1 33093 33093 4.756 0 1 + 22494 10799 14292 14348 26131 26131 -0.11733211791511167 PAKEEKLAILS 11 Unmodified _PAKEEKLAILS_ 0 0 0 ENSG00000036565|ENST00000276373|SLC18A1;nc|ENSG00000036565|P54219-3|SLC18A1 ENSG00000036565|ENST00000276373|SLC18A1 ENSG00000036565|ENST00000276373|SLC18A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 599.8590087890625 2 599.855721 1197.69689 NaN NaN NaN NaN NaN NaN NaN 93.633 1 93.633 93.133 94.133 0 0 0 0 1.0041 1 50029 50029 5.2969 1.3525 1 22495 514 14293 14349 26132 26132 0.10594812400131559 PAKEESESFW 10 Unmodified _PAKEESESFW_ 0 0 0 REV__nc|ENSG00000134369|Q8NEY1-7|NAV1 REV__nc|ENSG00000134369|Q8NEY1-7|NAV1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 605.2734375 2 605.274761 1208.53497 NaN NaN NaN NaN NaN NaN NaN 69.957 1 69.957 69.457 70.457 0 0 0 0 0.99464 1 33871 33871 6.2058 0.47393 1 + 22496 11963 14294 14350 26133 26133 -0.06095776352799476 PAKEEVLRML 10 Unmodified _PAKEEVLRML_ 0 0 0 REV__nc|ENSG00000284922|Q8WZ04|TOMT REV__nc|ENSG00000284922|Q8WZ04|TOMT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.364990234375 2 593.336641 1184.65873 NaN NaN NaN NaN NaN NaN NaN 63.628 1 63.628 63.128 64.128 0 0 0 0 0.97102 1 29964 29964 10.074 2.1638 1 + 22497 18166 14295 14351 26134 26134 0.07378603213828683 PAKEGKEKKEK 11 Unmodified _PAKEGKEKKEK_ 0 0 0 ENST00000493993.1_1_3:50150830-50151559:+|nuORF;ENSG00000003756|ENST00000347869|RBM5 ENST00000493993.1_1_3:50150830-50151559:+|nuORF ENST00000493993.1_1_3:50150830-50151559:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 636.3670654296875 2 636.369527 1270.7245 NaN NaN NaN NaN NaN NaN NaN 71.797 1 72.055 71.555 72.555 0.25786 0 0 0 0.97845 1 32930 32930 8.7454 3.0136 1 22498 311 14296 14352 26135 26135 0.09996715660372502 PAKETIGP 8 Unmodified _PAKETIGP_ 0 0 0 REV__nc|ENSG00000105355|O60664-2|PLIN3 REV__nc|ENSG00000105355|O60664-2|PLIN3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 812.2735595703125 1 812.451245 811.443968 2.756 0.0022391 -1.9827 -0.0016109 0.77324 0.00062822 812.4520855802848 87.21 0.032448 87.25 87.226 87.258 0.039963 7 4 2 0 0 0 0.13972 1 44095 44095 8.5933 2.8329 1 9511900 + 22499 11026 14297 14353 26136 26136 0.030704244603725783 PAKEVNLKLFK 11 Unmodified _PAKEVNLKLFK_ 0 0 0 REV__ENSG00000115514|ENST00000264255|TXNDC9 REV__ENSG00000115514|ENST00000264255|TXNDC9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 643.8975830078125 2 643.89518 1285.77581 NaN NaN NaN NaN NaN NaN NaN 87.508 1 87.548 87.048 88.048 0.039955 0 0 0 1.0041 1 44323 44323 5.2969 1.7004 1 + 22500 11368 14298 14354 26137 26137 0.144350844250539 PAKFDFWWKLS 11 Unmodified _PAKFDFWWKLS_ 0 0 0 REV__nc|ENSG00000158296|Q8WWT9-5|SLC13A3 REV__nc|ENSG00000158296|Q8WWT9-5|SLC13A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 712.8690795898438 2 712.871705 1423.72886 NaN NaN NaN NaN NaN NaN NaN 65.253 1 65.253 64.753 65.753 0 0 0 0 1.0057 1 31056 31056 3.2813 0.28607 1 + 22501 12819 14299 14355 26138 26138 0.03394224873932217 PAKFKPRCK 9 Unmodified _PAKFKPRCK_ 0 0 0 REV__ENST00000505608.1_1_3:129350939-129351086:-|nuORF REV__ENST00000505608.1_1_3:129350939-129351086:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.8142700195312 2 537.815679 1073.6168 NaN NaN NaN NaN NaN NaN NaN 68.708 1 69.41 68.91 69.91 0.70218 0 0 0 0.84134 1 32783 32783 7.9102 0 1 + 22502 16923 14300 14356 26139 26139 0.08294092315964008 PAKGFLKW 8 Unmodified _PAKGFLKW_ 0 0 0 REV__ENSG00000132405|ENST00000409757|TBC1D14 REV__ENSG00000132405|ENST00000409757|TBC1D14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.8705749511719 2 473.779088 945.543623 NaN NaN NaN NaN NaN NaN NaN 76.805 1 76.805 76.305 77.305 0 0 0 0 0.94507 1 37647 37647 9.3474 0.75416 1 + 22503 11889 14301 14357 26140 26140 0.06867286864985545 PAKGKKKKK 9 Unmodified _PAKGKKKKK_ 0 0 0 ENST00000560801.5_2_15:31320559-31354823:-|nuORF;nc|ENSG00000134160|Q7Z4N2-2|TRPM1;nc|ENSG00000134160|Q7Z4N2-3|TRPM1;nc|ENSG00000134160|Q7Z4N2|TRPM1;ENSG00000134160|ENST00000256552|TRPM1;nc|ENSG00000134160|Q7Z4N2-5|TRPM1 ENST00000560801.5_2_15:31320559-31354823:-|nuORF ENST00000560801.5_2_15:31320559-31354823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.9023132324219 2 506.853119 1011.69168 NaN NaN NaN NaN NaN NaN NaN 105.44 1 106.04 105.54 106.54 0.59969 0 0 0 0.84134 1 48696 48696 7.9102 3.1541 1 22504 2788 14302 14358 26141 26141 0.18630598118829766 PAKGPQPPDD 10 Unmodified _PAKGPQPPDD_ 0 0 0 ENST00000538872.5_1_12:248427-266301:+|nuORF ENST00000538872.5_1_12:248427-266301:+|nuORF ENST00000538872.5_1_12:248427-266301:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.25091552734375 2 511.251089 1020.48762 NaN NaN NaN NaN NaN NaN NaN 93.557 1 93.557 93.057 94.057 0 0 0 0 0.99225 1 49967 49967 6.7232 1.8262 1 22505 8787 14303 14359 26142 26142 -0.02180010833160395 PAKHKKDKKGK 11 Unmodified _PAKHKKDKKGK_ 0 0 0 REV__NKTR|p.S1045Dfs*8|1|0.23|ENSG00000114857|chr3:42638836-42638837|-/GA|frameshift_variant REV__NKTR|p.S1045Dfs*8|1|0.23|ENSG00000114857|chr3:42638836-42638837|-/GA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 632.8949584960938 2 632.896046 1263.77754 NaN NaN NaN NaN NaN NaN NaN 71.97 1 72.228 71.728 72.728 0.25786 0 0 0 1.0057 1 33026 33026 3.2813 0 1 + 22506 11335 14304 14360 26143 26143 0.156201382336576 PAKILFRR 8 Unmodified _PAKILFRR_ 0 0 0 REV__nc|ENSG00000156697|Q9BVJ6-2|UTP14A REV__nc|ENSG00000156697|Q9BVJ6-2|UTP14A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.8428649902344 2 500.824361 999.634169 NaN NaN NaN NaN NaN NaN NaN 70.772 1 70.772 70.272 71.272 0 0 0 0 0.99035 1 34379 34379 5.7604 2.8712 1 + 22507 12782 14305 14361 26144 26144 0.13433755913263212 PAKILLTKVRR 11 Unmodified _PAKILLTKVRR_ 0 0 0 REV__nc|ENSG00000181240|Q8N5S1-2|SLC25A41 REV__nc|ENSG00000181240|Q8N5S1-2|SLC25A41 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.9356079101562 2 647.937714 1293.86087 NaN NaN NaN NaN NaN NaN NaN 60.734 1 60.734 60.234 61.234 0 0 0 0 1.0057 1 28261 28261 3.2813 1.7994 1 + 22508 13849 14306 14362 26145 26145 0.22569874681516922 PAKIWPTTKRP 11 Unmodified _PAKIWPTTKRP_ 0 0 0 NLGN4X|p.R765Lfs*14|1|0.04|ENSG00000146938|chrX:5892979-5892980|-/AACATAGAAGA|frameshift_variant;nc|ENSG00000165246|Q8NFZ3|NLGN4Y;ENSG00000146938|ENST00000381095|NLGN4X;nc|ENSG00000146938|Q8N0W4-2|NLGN4X;ENSG00000165246|ENST00000684976|NLGN4Y;nc|ENSG00000165246|Q8NFZ3-2|NLGN4Y NLGN4X|p.R765Lfs*14|1|0.04|ENSG00000146938|chrX:5892979-5892980|-/AACATAGAAGA|frameshift_variant NLGN4X|p.R765Lfs*14|1|0.04|ENSG00000146938|chrX:5892979-5892980|-/AACATAGAAGA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.8093872070312 2 647.885147 1293.75574 NaN NaN NaN NaN NaN NaN NaN 70.381 1 70.381 69.881 70.881 0 0 0 0 1.0041 1 34143 34143 5.2969 1.7004 1 22509 3539 14307 14363 26146 26146 0.1206133348507592 PAKKAAESS 9 Unmodified _PAKKAAESS_ 0 0 0 ENSG00000166197|ENST00000605788|NOLC1;nc|ENSG00000166197|Q14978-3|NOLC1;nc|ENSG00000166197|Q14978-2|NOLC1 ENSG00000166197|ENST00000605788|NOLC1 ENSG00000166197|ENST00000605788|NOLC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 444.6806640625 2 444.742899 887.471246 NaN NaN NaN NaN NaN NaN NaN 64.139 1 64.139 63.639 64.639 0 0 0 0 0.72654 1 30318 30318 11.64 3.7301 1 22510 4460 14308 14364 26147 26147 0.023009080007568627 PAKKAAVDAV 10 Unmodified _PAKKAAVDAV_ 0 0 0 nc|ENSG00000214558|P0DQW0|ZC3H11C;ENSG00000215817|ENST00000651890|ZC3H11B nc|ENSG00000214558|P0DQW0|ZC3H11C nc|ENSG00000214558|P0DQW0|ZC3H11C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.8711242675781 2 485.290017 968.565481 NaN NaN NaN NaN NaN NaN NaN 75.142 1 75.806 75.306 76.306 0.6635 0 0 0 0.97102 1 36374 36374 10.074 2.1638 1 22511 6138 14309 14365 26148 26148 0.07994046822886958 PAKKAAVDAV 10 Unmodified _PAKKAAVDAV_ 0 0 0 nc|ENSG00000214558|P0DQW0|ZC3H11C;ENSG00000215817|ENST00000651890|ZC3H11B nc|ENSG00000214558|P0DQW0|ZC3H11C nc|ENSG00000214558|P0DQW0|ZC3H11C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.1625061035156 2 485.290017 968.565481 NaN NaN NaN NaN NaN NaN NaN 75.619 1 75.876 75.376 76.376 0.25704 0 0 0 0.94673 1 34804 34804 13.906 2.2658 1 22512 6138 14309 14365 26149 26149 0.07994046822886958 PAKKAAVPA 9 Unmodified _PAKKAAVPA_ 0 0 0 ENSG00000166197|ENST00000605788|NOLC1;nc|ENSG00000166197|Q14978-3|NOLC1;nc|ENSG00000166197|Q14978-2|NOLC1 ENSG00000166197|ENST00000605788|NOLC1 ENSG00000166197|ENST00000605788|NOLC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 426.7686462402344 2 426.76872 851.522887 NaN NaN NaN NaN NaN NaN NaN 66.033 1 66.033 65.533 66.533 0 0 0 0 0.59707 1 31504 31504 15.847 1.2655 1 22513 4460 14310 14366 26150 26150 0.09118696485313649 PAKKAEKVP 9 Unmodified _PAKKAEKVP_ 0 0 0 ENST00000425872.1_1_1:8953615-8953837:+|nuORF ENST00000425872.1_1_1:8953615-8953837:+|nuORF ENST00000425872.1_1_1:8953615-8953837:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.1619567871094 2 484.300384 966.586216 NaN NaN NaN NaN NaN NaN NaN 74.726 1 75.39 74.89 75.89 0.6644 0 0 0 0.8506 1 34408 34408 11.64 1.4569 1 22514 7799 14311 14367 26151 26151 0.10158637202562204 PAKKAISTT 9 Unmodified _PAKKAISTT_ 0 0 0 BRD3|p.N541I|1|0.29|ENSG00000169925|chr9:134040055-134040055|T/A|missense_variant BRD3|p.N541I|1|0.29|ENSG00000169925|chr9:134040055-134040055|T/A|missense_variant BRD3|p.N541I|1|0.29|ENSG00000169925|chr9:134040055-134040055|T/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 458.6516418457031 2 458.776742 915.538931 NaN NaN NaN NaN NaN NaN NaN 65.47 1 65.47 64.97 65.97 0 0 0 0 0.59707 1 31200 31200 15.847 5.6638 1 22515 88 14312 14368 26152 26152 0.07778357931545088 PAKKAPEPAPD 11 Unmodified _PAKKAPEPAPD_ 0 0 0 nc|ENSG00000070729|Q14028-4|CNGB1;ENSG00000070729|ENST00000251102|CNGB1 nc|ENSG00000070729|Q14028-4|CNGB1 nc|ENSG00000070729|Q14028-4|CNGB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.9234619140625 2 560.803488 1119.59242 NaN NaN NaN NaN NaN NaN NaN 65.142 1 65.851 65.351 66.351 0.70891 0 0 0 0.97845 1 30761 30761 8.7454 0.83525 1 22516 769 14313 14369 26153 26153 0.03741110643431966 PAKKARFSSFQ 11 Unmodified _PAKKARFSSFQ_ 0 0 0 nc|ENSG00000189348|A6NNH2|FAM90A27P nc|ENSG00000189348|A6NNH2|FAM90A27P nc|ENSG00000189348|A6NNH2|FAM90A27P MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.177978515625 2 633.851304 1265.68806 NaN NaN NaN NaN NaN NaN NaN 66.743 1 66.743 66.243 67.243 0 0 0 0 0.98464 1 31926 31926 8.1555 2.4237 1 22517 9792 14314 14370 26154 26154 0.06583883554321801 PAKKEGSYYR 10 Unmodified _PAKKEGSYYR_ 0 0 0 REV__ENST00000463982.2_1_3:137890290-137893637:-|nuORF REV__ENST00000463982.2_1_3:137890290-137893637:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 599.7354736328125 2 599.814387 1197.61422 NaN NaN NaN NaN NaN NaN NaN 98.595 1 98.895 98.395 99.395 0.29987 0 0 0 0.99464 1 45447 45447 6.2058 0.47393 1 + 22518 10120 14315 14371 26155 26155 0.02331915391982875 PAKKEMEL 8 Unmodified _PAKKEMEL_ 0 0 0 nc|ENSG00000065618|Q9UMD9-2|COL17A1;ENSG00000065618|ENST00000648076|COL17A1 nc|ENSG00000065618|Q9UMD9-2|COL17A1 nc|ENSG00000065618|Q9UMD9-2|COL17A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.26019287109375 2 473.257328 944.500103 NaN NaN NaN NaN NaN NaN NaN 73.619 1 73.619 73.119 74.119 0 0 0 0 0.94507 1 35913 35913 9.3474 3.587 1 22519 695 14316 14372 26156 26156 0.025633093055375866 PAKKEMEL 8 Unmodified _PAKKEMEL_ 0 0 0 nc|ENSG00000065618|Q9UMD9-2|COL17A1;ENSG00000065618|ENST00000648076|COL17A1 nc|ENSG00000065618|Q9UMD9-2|COL17A1 nc|ENSG00000065618|Q9UMD9-2|COL17A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.2634582519531 2 473.257328 944.500103 NaN NaN NaN NaN NaN NaN NaN 70.331 1 71.034 70.534 71.534 0.70302 0 0 0 0.94507 1 33695 33695 9.3474 1.4373 1 22520 695 14316 14372 26157 26157 0.025633093055375866 PAKKEMEL 8 Unmodified _PAKKEMEL_ 0 0 0 nc|ENSG00000065618|Q9UMD9-2|COL17A1;ENSG00000065618|ENST00000648076|COL17A1 nc|ENSG00000065618|Q9UMD9-2|COL17A1 nc|ENSG00000065618|Q9UMD9-2|COL17A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.260498046875 2 473.257328 944.500103 NaN NaN NaN NaN NaN NaN NaN 71.381 1 72.085 71.585 72.585 0.70386 0 0 0 0.94507 1 34278 34278 9.3474 0.75416 1 22521 695 14316 14372 26158 26158 0.025633093055375866 PAKKEMEL 8 Unmodified _PAKKEMEL_ 0 0 0 nc|ENSG00000065618|Q9UMD9-2|COL17A1;ENSG00000065618|ENST00000648076|COL17A1 nc|ENSG00000065618|Q9UMD9-2|COL17A1 nc|ENSG00000065618|Q9UMD9-2|COL17A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.2607421875 2 473.257328 944.500103 NaN NaN NaN NaN NaN NaN NaN 72.055 1 72.759 72.259 73.259 0.70386 0 0 0 0.94507 1 34647 34647 9.3474 0.75416 1 22522 695 14316 14372 26159 26159 0.025633093055375866 PAKKEQQCQI 10 Unmodified _PAKKEQQCQI_ 0 0 0 REV__nc|ENSG00000129534|Q6P0N0-2|MIS18BP1 REV__nc|ENSG00000129534|Q6P0N0-2|MIS18BP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.8834228515625 2 586.808248 1171.60194 NaN NaN NaN NaN NaN NaN NaN 70.016 1 70.016 69.516 70.516 0 0 0 0 0.99225 1 33901 33901 6.7232 0.51738 1 + 22523 11789 14317 14373 26160 26160 0.023005556573025387 PAKKFRWRT 9 Unmodified _PAKKFRWRT_ 0 0 0 REV__ENST00000440452.5_1_4:728709-759864:+|nuORF REV__ENST00000440452.5_1_4:728709-759864:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 595.0337524414062 2 595.351274 1188.688 NaN NaN NaN NaN NaN NaN NaN 66.006 1 66.006 65.506 66.506 0 0 0 0 0.84134 1 31487 31487 7.9102 0.62092 1 + 22524 14024 14318 14374 26161 26161 0.10119928344965956 PAKKFRWRTVV 11 Unmodified _PAKKFRWRTVV_ 0 0 0 REV__ENST00000440452.5_1_4:728709-759864:+|nuORF REV__ENST00000440452.5_1_4:728709-759864:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 694.419189453125 2 694.419688 1386.82482 NaN NaN NaN NaN NaN NaN NaN 74.23 1 74.488 73.988 74.988 0.25831 0 0 0 1.0057 1 34128 34128 3.2813 0.54611 1 + 22525 14024 14319 14375 26162 26162 0.1468841750465799 PAKKGKKGKKA 11 Unmodified _PAKKGKKGKKA_ 0 0 0 REV__ENSG00000091536|ENST00000647165|MYO15A REV__ENSG00000091536|ENST00000647165|MYO15A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.6758422851562 2 570.882407 1139.75026 NaN NaN NaN NaN NaN NaN NaN 68.695 1 69.397 68.897 69.897 0.70218 0 0 0 1.0038 1 32776 32776 5.7319 0 1 + 22526 10734 14320 14376 26163 26163 0.18597654693303411 PAKKIKRK 8 Unmodified _PAKKIKRK_ 0 0 0 ENST00000406170.1_1_6:111751648-111751957:+|nuORF ENST00000406170.1_1_6:111751648-111751957:+|nuORF ENST00000406170.1_1_6:111751648-111751957:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.8414611816406 2 484.840011 967.665469 3.9286 0.0019047 -0.29244 -0.00014179 3.6361 0.0017629 484.8396265166577 105.63 0.14156 105.94 105.88 106.02 0.31782 6 4 2 0 0 0 0.65723 1 48775 48775 9.3474 0 1 700110 22527 7642 14321 14377 26164 26164 0.1803432894736261 PAKKIKRKTKT 11 Unmodified _PAKKIKRKTKT_ 0 0 0 ENST00000406170.1_1_6:111751648-111751957:+|nuORF ENST00000406170.1_1_6:111751648-111751957:+|nuORF ENST00000406170.1_1_6:111751648-111751957:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 649.9366455078125 2 649.935171 1297.85579 NaN NaN NaN NaN NaN NaN NaN 89.713 1 89.777 89.277 90.277 0.064346 0 0 0 1.0072 1 46036 46036 1.3295 0.13619 1 22528 7642 14322 14378 26165 26165 0.2187757081892414 PAKKILVKL 9 Unmodified _PAKKILVKL_ 0 0 0 ENSG00000183273|ENST00000327554|CCDC60 ENSG00000183273|ENST00000327554|CCDC60 ENSG00000183273|ENST00000327554|CCDC60 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.3586120605469 2 505.360245 1008.70594 NaN NaN NaN NaN NaN NaN NaN 62.176 1 62.176 61.676 62.676 0 0 0 0 0.84134 1 29113 29113 7.9102 3.9658 1 22529 5374 14323 14379 26166 26166 0.2019325054714045 PAKKKAKLV 9 Unmodified _PAKKKAKLV_ 0 0 0 REV__ENST00000448062.1_1_2:222909560-222909710:-|nuORF REV__ENST00000448062.1_1_2:222909560-222909710:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.8865661621094 2 491.84222 981.669886 NaN NaN NaN NaN NaN NaN NaN 63.601 1 63.601 63.101 64.101 0 0 0 0 0.59707 1 29943 29943 15.847 11.903 1 + 22530 16392 14324 14380 26167 26167 0.1783179337026013 PAKKKAKPV 9 Unmodified _PAKKKAKPV_ 0 0 0 REV__ENSG00000125651|ENST00000394456|GTF2F1 REV__ENSG00000125651|ENST00000394456|GTF2F1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.9481201171875 2 483.826569 965.638586 NaN NaN NaN NaN NaN NaN NaN 70.399 1 71.102 70.602 71.602 0.70302 0 0 0 0.59707 1 33730 33730 15.847 1.9411 1 + 22531 11688 14325 14381 26168 26168 0.1543922033616809 PAKKKEEE 8 Unmodified _PAKKKEEE_ 0 0 0 ENSG00000101421|ENST00000217402|CHMP4B ENSG00000101421|ENST00000217402|CHMP4B ENSG00000101421|ENST00000217402|CHMP4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.6497497558594 2 479.763832 957.513111 NaN NaN NaN NaN NaN NaN NaN 66.489 1 67.193 66.693 67.693 0.7047 0 0 0 0.88162 1 31523 31523 13.508 1.8676 1 22532 1294 14326 14382 26169 26169 0.032654636892857525 PAKKKKKIRL 10 Unmodified _PAKKKKKIRL_ 0 0 0 ENST00000466133.1_1_3:159819159-159819552:+|nuORF ENST00000466133.1_1_3:159819159-159819552:+|nuORF ENST00000466133.1_1_3:159819159-159819552:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 605.5011596679688 2 605.429525 1208.8445 NaN NaN NaN NaN NaN NaN NaN 74.369 1 74.369 73.869 74.869 0 0 0 0 0.99225 1 36321 36321 6.7232 6.3725 1 22533 8134 14327 14383 26170 26170 0.24842793515449557 PAKKKKKIRL 10 Unmodified _PAKKKKKIRL_ 0 0 0 ENST00000466133.1_1_3:159819159-159819552:+|nuORF ENST00000466133.1_1_3:159819159-159819552:+|nuORF ENST00000466133.1_1_3:159819159-159819552:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 605.4661254882812 2 605.429525 1208.8445 NaN NaN NaN NaN NaN NaN NaN 89.458 1 89.458 88.958 89.958 0 0 0 0 0.99733 1 46723 46723 3.9444 3.5938 1 22534 8134 14327 14383 26171 26171 0.24842793515449557 PAKKKKKIRLK 11 Unmodified _PAKKKKKIRLK_ 0 0 0 ENST00000466133.1_1_3:159819159-159819552:+|nuORF ENST00000466133.1_1_3:159819159-159819552:+|nuORF ENST00000466133.1_1_3:159819159-159819552:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 669.476318359375 2 669.477006 1336.93946 NaN NaN NaN NaN NaN NaN NaN 72.149 1 72.149 71.649 72.649 0 0 0 0 1.008 1 35082 35082 0.35063 0.043601 1 22535 8134 14328 14384 26172 26172 0.284467269866127 PAKKKLQEYRV 11 Unmodified _PAKKKLQEYRV_ 0 0 0 nc|ENSG00000155363|Q9HCE1-2|MOV10;ENST00000468624.5_1_1:113217534-113241292:+|nuORF;ENST00000496577.5_1_1:113231344-113241292:+|nuORF;ENSG00000155363|ENST00000369645|MOV10 nc|ENSG00000155363|Q9HCE1-2|MOV10 nc|ENSG00000155363|Q9HCE1-2|MOV10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 680.4111938476562 2 680.408986 1358.80342 NaN NaN NaN NaN NaN NaN NaN 61.246 1 61.985 61.485 62.485 0.7396 0 0 0 0.97845 1 28374 28374 8.7454 4.2165 1 22536 3861 14329 14385 26173 26173 0.13836987685294844 PAKKKRKKG 9 Unmodified _PAKKKRKKG_ 0 0 0 ENSG00000257315|ENST00000550078|ZBED6 ENSG00000257315|ENST00000550078|ZBED6 ENSG00000257315|ENST00000550078|ZBED6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.8544311523438 2 520.856193 1039.69783 NaN NaN NaN NaN NaN NaN NaN 84.4 1 84.429 83.929 84.929 0.028603 0 0 0 0.90511 1 42092 42092 2.3027 0.24298 1 22537 6295 14330 14386 26174 26174 0.17957116350362412 PAKKKRKKGL 10 Unmodified _PAKKKRKKGL_ 0 0 0 ENSG00000257315|ENST00000550078|ZBED6 ENSG00000257315|ENST00000550078|ZBED6 ENSG00000257315|ENST00000550078|ZBED6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 577.3997192382812 2 577.398225 1152.7819 NaN NaN NaN NaN NaN NaN NaN 105.63 1 105.63 105.13 106.13 0 0 0 0 0.99983 1 58043 58043 1.8442 1.3195 1 22538 6295 14331 14387 26175 26175 0.21161647447252108 PAKKKVIPAPK 11 Unmodified _PAKKKVIPAPK_ 0 0 0 ENSG00000157741|ENST00000473989|UBN2;nc|ENSG00000157741|Q6ZU65-2|UBN2 ENSG00000157741|ENST00000473989|UBN2 ENSG00000157741|ENST00000473989|UBN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.8945922851562 2 588.894983 1175.77541 NaN NaN NaN NaN NaN NaN NaN 75.347 1 75.604 75.104 76.104 0.25704 0 0 0 0.97845 1 34668 34668 8.7454 3.8484 1 22539 3960 14332 14388 26176 26176 0.19455709495878182 PAKKKYLC 8 Unmodified _PAKKKYLC_ 0 0 0 nc|ENSG00000136848|Q5VWQ8-3|DAB2IP;nc|ENSG00000136848|Q5VWQ8-4|DAB2IP;nc|ENSG00000136848|Q5VWQ8-2|DAB2IP;nc|ENSG00000136848|Q5VWQ8-5|DAB2IP;ENSG00000136848|ENST00000408936|DAB2IP nc|ENSG00000136848|Q5VWQ8-3|DAB2IP nc|ENSG00000136848|Q5VWQ8-3|DAB2IP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 475.4480285644531 2 475.778231 949.541908 NaN NaN NaN NaN NaN NaN NaN 73.569 1 73.569 73.069 74.069 0 0 0 0 0.94507 1 35885 35885 9.3474 3.587 1 22540 2980 14333 14389 26177 26177 0.06511909784717318 PAKKLLLTA 9 Unmodified _PAKKLLLTA_ 0 0 0 ENST00000506393.5_1_5:140047926-140048692:+|nuORF;ENSG00000120314|ENST00000358337|WDR55 ENST00000506393.5_1_5:140047926-140048692:+|nuORF ENST00000506393.5_1_5:140047926-140048692:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.7908935546875 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 61.468 1 61.468 60.968 61.968 0 0 0 0 0.84134 1 28671 28671 7.9102 2.6795 1 22541 2188 14334 14390 26178 26178 0.14868398242037983 PAKKLLLTA 9 Unmodified _PAKKLLLTA_ 0 0 0 ENST00000506393.5_1_5:140047926-140048692:+|nuORF;ENSG00000120314|ENST00000358337|WDR55 ENST00000506393.5_1_5:140047926-140048692:+|nuORF ENST00000506393.5_1_5:140047926-140048692:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.82464599609375 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 68.403 1 69.105 68.605 69.605 0.70218 0 0 0 0.84134 1 32609 32609 7.9102 2.6795 1 22542 2188 14334 14390 26179 26179 0.14868398242037983 PAKKLLLTA 9 Unmodified _PAKKLLLTA_ 0 0 0 ENST00000506393.5_1_5:140047926-140048692:+|nuORF;ENSG00000120314|ENST00000358337|WDR55 ENST00000506393.5_1_5:140047926-140048692:+|nuORF ENST00000506393.5_1_5:140047926-140048692:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.82373046875 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 69.509 1 70.212 69.712 70.712 0.70302 0 0 0 0.84134 1 33270 33270 7.9102 2.6795 1 22543 2188 14334 14390 26180 26180 0.14868398242037983 PAKKLLLTA 9 Unmodified _PAKKLLLTA_ 0 0 0 ENST00000506393.5_1_5:140047926-140048692:+|nuORF;ENSG00000120314|ENST00000358337|WDR55 ENST00000506393.5_1_5:140047926-140048692:+|nuORF ENST00000506393.5_1_5:140047926-140048692:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.8235778808594 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 69.609 1 70.312 69.812 70.812 0.70302 0 0 0 0.84134 1 33323 33323 7.9102 2.6795 1 22544 2188 14334 14390 26181 26181 0.14868398242037983 PAKKLLLTA 9 Unmodified _PAKKLLLTA_ 0 0 0 ENST00000506393.5_1_5:140047926-140048692:+|nuORF;ENSG00000120314|ENST00000358337|WDR55 ENST00000506393.5_1_5:140047926-140048692:+|nuORF ENST00000506393.5_1_5:140047926-140048692:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.8236999511719 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 70.47 1 71.174 70.674 71.674 0.70386 0 0 0 0.84134 1 33768 33768 7.9102 0.62092 1 22545 2188 14334 14390 26182 26182 0.14868398242037983 PAKKLLLTA 9 Unmodified _PAKKLLLTA_ 0 0 0 ENST00000506393.5_1_5:140047926-140048692:+|nuORF;ENSG00000120314|ENST00000358337|WDR55 ENST00000506393.5_1_5:140047926-140048692:+|nuORF ENST00000506393.5_1_5:140047926-140048692:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.8241271972656 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 75.646 1 76.31 75.81 76.81 0.6635 0 0 0 0.84134 1 36632 36632 7.9102 2.6795 1 22546 2188 14334 14390 26183 26183 0.14868398242037983 PAKKLLLTA 9 Unmodified _PAKKLLLTA_ 0 0 0 ENST00000506393.5_1_5:140047926-140048692:+|nuORF;ENSG00000120314|ENST00000358337|WDR55 ENST00000506393.5_1_5:140047926-140048692:+|nuORF ENST00000506393.5_1_5:140047926-140048692:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.82427978515625 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 77.2 1 77.761 77.261 78.261 0.56091 0 0 0 0.84134 1 37431 37431 7.9102 2.6795 1 22547 2188 14334 14390 26184 26184 0.14868398242037983 PAKKLLLTA 9 Unmodified _PAKKLLLTA_ 0 0 0 ENST00000506393.5_1_5:140047926-140048692:+|nuORF;ENSG00000120314|ENST00000358337|WDR55 ENST00000506393.5_1_5:140047926-140048692:+|nuORF ENST00000506393.5_1_5:140047926-140048692:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.82391357421875 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 77.298 1 77.859 77.359 78.359 0.56091 0 0 0 0.84134 1 37486 37486 7.9102 2.6795 1 22548 2188 14334 14390 26185 26185 0.14868398242037983 PAKKLLLTA 9 Unmodified _PAKKLLLTA_ 0 0 0 ENST00000506393.5_1_5:140047926-140048692:+|nuORF;ENSG00000120314|ENST00000358337|WDR55 ENST00000506393.5_1_5:140047926-140048692:+|nuORF ENST00000506393.5_1_5:140047926-140048692:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 477.824951171875 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 75.332 1 75.589 75.089 76.089 0.25704 0 0 0 0.84134 1 34661 34661 7.9102 2.6795 1 22549 2188 14334 14390 26186 26186 0.14868398242037983 PAKKLLLTA 9 Unmodified _PAKKLLLTA_ 0 0 0 ENST00000506393.5_1_5:140047926-140048692:+|nuORF;ENSG00000120314|ENST00000358337|WDR55 ENST00000506393.5_1_5:140047926-140048692:+|nuORF ENST00000506393.5_1_5:140047926-140048692:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.82537841796875 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 72.99 1 73.654 73.154 74.154 0.66398 0 0 0 0.84134 1 33522 33522 7.9102 1.7044 1 22550 2188 14334 14390 26187 26187 0.14868398242037983 PAKKNNGQLWR 11 Unmodified _PAKKNNGQLWR_ 0 0 0 REV__ENSG00000111727|ENST00000229330|HCFC2 REV__ENSG00000111727|ENST00000229330|HCFC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.91357421875 3 437.914194 1310.72075 NaN NaN NaN NaN NaN NaN NaN 62.768 1 63.49 62.99 63.99 0.72236 0 0 0 1.0062 1 29333 29333 2.6312 0 1 + 22551 11250 14335 14391 26188 26188 0.07782090677164888 PAKKNRLF 8 Unmodified _PAKKNRLF_ 0 0 0 REV__ENST00000266744.3_1_12:103351662-103351842:+|nuORF REV__ENST00000266744.3_1_12:103351662-103351842:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.7649230957031 2 487.300719 972.586885 NaN NaN NaN NaN NaN NaN NaN 65.559 1 65.559 65.059 66.059 0 0 0 0 0.94507 1 31251 31251 9.3474 0 1 + 22552 15043 14336 14392 26189 26189 0.09949476642270838 PAKKPDRLA 9 Unmodified _PAKKPDRLA_ 0 0 0 REV__ENSG00000203859|ENST00000369416|HSD3B2 REV__ENSG00000203859|ENST00000369416|HSD3B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.3377685546875 2 498.303458 994.592364 NaN NaN NaN NaN NaN NaN NaN 67.38 1 68.082 67.582 68.582 0.70218 0 0 0 0.75166 1 32030 32030 10.824 0 1 + 22553 14391 14337 14393 26190 26190 0.09485155434072112 PAKKPLPRA 9 Unmodified _PAKKPLPRA_ 0 0 0 REV__nc|ENSG00000127483|Q5SSJ5-3|HP1BP3 REV__nc|ENSG00000127483|Q5SSJ5-3|HP1BP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.44964599609375 2 489.316369 976.618185 NaN NaN NaN NaN NaN NaN NaN 64.269 1 64.269 63.769 64.769 0 0 0 0 0.72654 1 30409 30409 11.64 3.047 1 + 22554 11740 14338 14394 26191 26191 0.12894049676367558 PAKKPLPRAK 10 Unmodified _PAKKPLPRAK_ 0 0 0 REV__nc|ENSG00000127483|Q5SSJ5-3|HP1BP3 REV__nc|ENSG00000127483|Q5SSJ5-3|HP1BP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.5298461914062 2 553.36385 1104.71315 NaN NaN NaN NaN NaN NaN NaN 64.161 1 64.161 63.661 64.661 0 0 0 0 0.97102 1 30336 30336 10.074 3.3508 1 + 22555 11740 14339 14395 26192 26192 0.16497983147542072 PAKKQQAQKA 10 Unmodified _PAKKQQAQKA_ 0 0 0 REV__nc|ENSG00000169925|Q15059-2|BRD3 REV__nc|ENSG00000169925|Q15059-2|BRD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.1065673828125 2 549.324922 1096.63529 NaN NaN NaN NaN NaN NaN NaN 89.186 1 89.186 88.686 89.686 0 0 0 0 0.94673 1 46511 46511 13.906 1.6654 1 + 22556 13409 14340 14396 26193 26193 0.0908392549151813 PAKKRMYFEAL 11 Unmodified _PAKKRMYFEAL_ 0 0 0 REV__ENSG00000160218|ENST00000291574|TRAPPC10 REV__ENSG00000160218|ENST00000291574|TRAPPC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 677.3692626953125 2 677.371015 1352.72748 NaN NaN NaN NaN NaN NaN NaN 67.952 1 67.952 67.452 68.452 0 0 0 0 1.0038 1 32664 32664 5.7319 0.43497 1 + 22557 12868 14341 14397 26194 26194 0.06522267513537372 PAKKRMYFEAL 11 Unmodified _PAKKRMYFEAL_ 0 0 0 REV__ENSG00000160218|ENST00000291574|TRAPPC10 REV__ENSG00000160218|ENST00000291574|TRAPPC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.9172058105469 3 451.916436 1352.72748 NaN NaN NaN NaN NaN NaN NaN 70.58 1 70.58 70.08 71.08 0 0 0 0 1.0055 1 34272 34272 1.4551 0 1 + 22558 12868 14341 14397 26195 26195 0.06522267513537372 PAKKRQKAVVK 11 Unmodified _PAKKRQKAVVK_ 0 0 0 ENSG00000185220|ENST00000329291|PGBD2 ENSG00000185220|ENST00000329291|PGBD2 ENSG00000185220|ENST00000329291|PGBD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 626.9129028320312 2 626.914239 1251.81392 NaN NaN NaN NaN NaN NaN NaN 74.944 1 75.608 75.108 76.108 0.6644 0 0 0 1.0041 1 34515 34515 5.2969 0.76802 1 22559 5496 14342 14398 26196 26196 0.19809015130385887 PAKKRQKAVVK 11 Unmodified _PAKKRQKAVVK_ 0 0 0 ENSG00000185220|ENST00000329291|PGBD2 ENSG00000185220|ENST00000329291|PGBD2 ENSG00000185220|ENST00000329291|PGBD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 626.490966796875 2 626.914239 1251.81392 NaN NaN NaN NaN NaN NaN NaN 105.51 1 106.11 105.61 106.61 0.59969 0 0 0 1.0059 1 48728 48728 2.9952 1.5133 1 22560 5496 14342 14398 26197 26197 0.19809015130385887 PAKKRRGL 8 Unmodified _PAKKRRGL_ 0 0 0 REV__ENST00000587811.1_1_19:14593203-14593794:-|nuORF REV__ENST00000587811.1_1_19:14593203-14593794:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.5765075683594 2 463.306336 924.598118 NaN NaN NaN NaN NaN NaN NaN 68.111 1 68.813 68.313 69.313 0.70218 0 0 0 0.94507 1 32456 32456 9.3474 0 1 + 22561 11606 14343 14399 26198 26198 0.13280298736412988 PAKKRSKAL 9 Unmodified _PAKKRSKAL_ 0 0 0 REV__ENSG00000107282|ENST00000265381|APBA1 REV__ENSG00000107282|ENST00000265381|APBA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.8583679199219 2 499.827101 997.639649 NaN NaN NaN NaN NaN NaN NaN 72.9 1 73.599 73.099 74.099 0.69881 0 0 0 0.75166 1 35123 35123 10.824 2.9138 1 + 22562 11111 14344 14400 26199 26199 0.1407343470507385 PAKKRSLTLR 10 Unmodified _PAKKRSLTLR_ 0 0 0 nc|ENSG00000145734|A6H8Y1-7|BDP1;nc|ENSG00000145734|A6H8Y1-6|BDP1;ENSG00000145734|ENST00000358731|BDP1 nc|ENSG00000145734|A6H8Y1-7|BDP1 nc|ENSG00000145734|A6H8Y1-7|BDP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.3661499023438 2 585.377489 1168.74043 NaN NaN NaN NaN NaN NaN NaN 65.205 1 65.205 64.705 65.705 0 0 0 0 0.99225 1 31022 31022 6.7232 0.51738 1 22563 3485 14345 14401 26200 26200 0.16280466687908302 PAKKRVFD 8 Unmodified _PAKKRVFD_ 0 0 0 nc|ENSG00000182463|Q9NRE2-2|TSHZ2;ENSG00000182463|ENST00000371497|TSHZ2 nc|ENSG00000182463|Q9NRE2-2|TSHZ2 nc|ENSG00000182463|Q9NRE2-2|TSHZ2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.7834167480469 2 480.784902 959.55525 NaN NaN NaN NaN NaN NaN NaN 74.077 1 74.764 74.264 75.264 0.68662 0 0 0 0.94507 1 35783 35783 9.3474 0.75416 1 22564 5335 14346 14402 26201 26201 0.07385483888322142 PAKKRVFD 8 Unmodified _PAKKRVFD_ 0 0 0 nc|ENSG00000182463|Q9NRE2-2|TSHZ2;ENSG00000182463|ENST00000371497|TSHZ2 nc|ENSG00000182463|Q9NRE2-2|TSHZ2 nc|ENSG00000182463|Q9NRE2-2|TSHZ2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.6141052246094 2 480.784902 959.55525 NaN NaN NaN NaN NaN NaN NaN 72.158 1 72.417 71.917 72.917 0.25876 0 0 0 0.94507 1 33120 33120 9.3474 0.75416 1 22565 5335 14346 14402 26202 26202 0.07385483888322142 PAKKRVRT 8 Unmodified _PAKKRVRT_ 0 0 0 nc|ENSG00000152455|Q9H5I1-3|SUV39H2;nc|ENSG00000152455|Q9H5I1-2|SUV39H2;ENSG00000152455|ENST00000354919|SUV39H2 nc|ENSG00000152455|Q9H5I1-3|SUV39H2 nc|ENSG00000152455|Q9H5I1-3|SUV39H2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.31524658203125 2 478.311618 954.608683 NaN NaN NaN NaN NaN NaN NaN 64.351 1 65.066 64.566 65.566 0.71521 0 0 0 0.94507 1 30315 30315 9.3474 0 1 22566 3746 14347 14403 26203 26203 0.12956281390847835 PAKKSDAGWY 10 Unmodified _PAKKSDAGWY_ 0 0 0 nc|ENSG00000138347|Q86TC9-2|MYPN;ENSG00000138347|ENST00000358913|MYPN nc|ENSG00000138347|Q86TC9-2|MYPN nc|ENSG00000138347|Q86TC9-2|MYPN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.7813110351562 2 561.782556 1121.55056 NaN NaN NaN NaN NaN NaN NaN 76.761 1 77.385 76.885 77.885 0.62397 0 0 0 0.99225 1 37215 37215 6.7232 1.4925 1 22567 3086 14348 14404 26204 26204 -0.005354450451022785 PAKKSFLRRL 10 Unmodified _PAKKSFLRRL_ 0 0 0 ENSG00000175097|ENST00000311485|RAG2 ENSG00000175097|ENST00000311485|RAG2 ENSG00000175097|ENST00000311485|RAG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 608.38916015625 2 608.387857 1214.76116 NaN NaN NaN NaN NaN NaN NaN 75.129 1 75.387 74.887 75.887 0.25831 0 0 0 0.99225 1 34561 34561 6.7232 0.53132 1 22568 5013 14349 14405 26205 26205 0.16237057067610294 PAKKSFLRRL 10 Unmodified _PAKKSFLRRL_ 0 0 0 ENSG00000175097|ENST00000311485|RAG2 ENSG00000175097|ENST00000311485|RAG2 ENSG00000175097|ENST00000311485|RAG2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 608.8237915039062 2 608.387857 1214.76116 3.2901 0.0020016 -3.8992 -0.0023722 -0.6091 -0.00037057 608.88532035595 73.569 0.11016 73.828 73.746 73.856 0.25876 11 9 2 0 0 0 0.12676 1 33806 33806 6.7232 3.4419 1 1181600 22569 5013 14349 14405 26206 26206 0.16237057067610294 PAKKSMEKV 9 Unmodified _PAKKSMEKV_ 0 0 0 REV__nc|ENSG00000198947|P11532-4|DMD REV__nc|ENSG00000198947|P11532-4|DMD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.31536865234375 2 509.291702 1016.56885 NaN NaN NaN NaN NaN NaN NaN 72.253 1 72.916 72.416 73.416 0.66324 0 0 0 0.84134 1 33131 33131 7.9102 0 1 + 22570 14386 14350 14406 26207 26207 0.06122973605260995 PAKKTEKVPK 10 Unmodified _PAKKTEKVPK_ 0 0 0 ENST00000446054.1_1_7:84506012-84506255:+|nuORF ENST00000446054.1_1_7:84506012-84506255:+|nuORF ENST00000446054.1_1_7:84506012-84506255:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.6229858398438 2 563.353148 1124.69174 NaN NaN NaN NaN NaN NaN NaN 63.051 1 63.774 63.274 64.274 0.72236 0 0 0 0.99225 1 29499 29499 6.7232 0 1 22571 7971 14351 14407 26208 26208 0.13438553328182934 PAKKTKSKK 9 Unmodified _PAKKTKSKK_ 0 0 0 REV__nc|ENSG00000067445|Q12816-2|TRO REV__nc|ENSG00000067445|Q12816-2|TRO MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.3364562988281 2 508.334759 1014.65496 NaN NaN NaN NaN NaN NaN NaN 80.389 1 80.558 80.058 81.058 0.16862 0 0 0 0.90431 1 39391 39391 4.3292 2.2695 1 + 22572 10454 14352 14408 26209 26209 0.1482230150227224 PAKKTSVKETQ 11 Unmodified _PAKKTSVKETQ_ 0 0 0 ENSG00000125485|ENST00000372159|DDX31;nc|ENSG00000125485|Q9H8H2-2|DDX31;nc|ENSG00000125485|Q9H8H2|DDX31;nc|ENSG00000125485|Q9H8H2-6|DDX31;ENST00000482620.1_1_9:135536593-135545636:-|nuORF;nc|ENSG00000125485|Q9H8H2-3|DDX31;nc|ENSG00000125485|Q9H8H2-4|DDX31 ENSG00000125485|ENST00000372159|DDX31 ENSG00000125485|ENST00000372159|DDX31 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 608.8638916015625 2 608.848427 1215.6823 NaN NaN NaN NaN NaN NaN NaN 63.155 1 63.155 62.655 63.655 0 0 0 0 0.98464 1 29677 29677 8.1555 1.4324 1 22573 2402 14353 14409 26210 26210 0.08308740252005009 PAKKTWVE 8 Unmodified _PAKKTWVE_ 0 0 0 REV__ENSG00000182223|ENST00000327939|ZAR1 REV__ENSG00000182223|ENST00000327939|ZAR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.9197082519531 2 479.77146 957.528367 NaN NaN NaN NaN NaN NaN NaN 62.74 1 63.463 62.963 63.963 0.72236 0 0 0 0.89651 1 29314 29314 12.532 0 1 + 22574 13880 14354 14410 26211 26211 0.04790375277127623 PAKKTWVEGEE 11 Unmodified _PAKKTWVEGEE_ 0 0 0 REV__ENSG00000182223|ENST00000327939|ZAR1 REV__ENSG00000182223|ENST00000327939|ZAR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 425.2192077636719 3 425.218949 1272.63502 NaN NaN NaN NaN NaN NaN NaN 65.367 1 66.076 65.576 66.576 0.70891 0 0 0 1.0061 1 30910 30910 1.1098 0 1 + 22575 13880 14355 14411 26212 26212 0.009604609810139664 PAKKVIFFRVI 11 Unmodified _PAKKVIFFRVI_ 0 0 0 nc|ENSG00000087269|P78316-2|NOP14;ENST00000507120.1_1_4:2939942-2943434:-|nuORF nc|ENSG00000087269|P78316-2|NOP14 nc|ENSG00000087269|P78316-2|NOP14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 659.4232177734375 2 659.423908 1316.83326 NaN NaN NaN NaN NaN NaN NaN 77.464 1 77.464 76.964 77.964 0 0 0 0 1.0071 1 37995 37995 1.4819 0 1 22576 9569 14356 14412 26213 26213 0.18751971421283997 PAKKVIFFRVI 11 Unmodified _PAKKVIFFRVI_ 0 0 0 nc|ENSG00000087269|P78316-2|NOP14;ENST00000507120.1_1_4:2939942-2943434:-|nuORF nc|ENSG00000087269|P78316-2|NOP14 nc|ENSG00000087269|P78316-2|NOP14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 659.4253540039062 2 659.423908 1316.83326 NaN NaN NaN NaN NaN NaN NaN 77.892 1 78.145 77.645 78.645 0.25335 0 0 0 1.0071 1 35872 35872 1.4819 0 1 22577 9569 14356 14412 26214 26214 0.18751971421283997 PAKKVKCQY 9 Unmodified _PAKKVKCQY_ 0 0 0 REV__nc|ENSG00000154639|P78310-4|CXADR REV__nc|ENSG00000154639|P78310-4|CXADR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 532.8007202148438 2 532.799694 1063.58484 NaN NaN NaN NaN NaN NaN NaN 70.728 1 71.432 70.932 71.932 0.70386 0 0 0 0.84134 1 33913 33913 7.9102 1.187 1 + 22578 12713 14357 14413 26215 26215 0.05558679842147285 PAKKYIPK 8 Unmodified _PAKKYIPK_ 0 0 0 REV__ENSG00000124145|ENST00000372733|SDC4 REV__ENSG00000124145|ENST00000372733|SDC4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.2599792480469 2 472.80002 943.585488 2.247 0.0010624 2.1332 0.0010086 4.3802 0.002071 472.8012812317353 71.01 0.15334 71.01 70.932 71.085 0 24 16 2 0 0 0 0.13972 1 34465 34465 2.0598 0.40713 1 760200 + 22579 11636 14358 14414 26216 26216 0.11143842553497052 PAKKYIPKKG 10 Unmodified _PAKKYIPKKG_ 0 0 0 REV__ENSG00000124145|ENST00000372733|SDC4 REV__ENSG00000124145|ENST00000372733|SDC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.1957397460938 2 565.358234 1128.70191 NaN NaN NaN NaN NaN NaN NaN 66.204 1 66.204 65.704 66.704 0 0 0 0 0.94673 1 31619 31619 13.906 4.5229 1 + 22580 11636 14359 14415 26217 26217 0.14271161053397918 PAKLAQKVVKK 11 Unmodified _PAKLAQKVVKK_ 0 0 0 REV__ENST00000425487.2_1_X:46299323-46299425:-|nuORF REV__ENST00000425487.2_1_X:46299323-46299425:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 605.3779296875 2 605.405715 1208.79688 NaN NaN NaN NaN NaN NaN NaN 69.648 1 70.351 69.851 70.851 0.70302 0 0 0 1.0057 1 33342 33342 3.2813 0 1 + 22581 16210 14360 14416 26218 26218 0.2008309452460253 PAKLIVIKP 9 Unmodified _PAKLIVIKP_ 0 0 0 REV__ENSG00000100888|ENST00000646647|CHD8 REV__ENSG00000100888|ENST00000646647|CHD8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.0522155761719 2 489.839146 977.663738 NaN NaN NaN NaN NaN NaN NaN 67.089 1 67.791 67.291 68.291 0.70218 0 0 0 0.90511 1 31846 31846 2.3027 0 1 + 22582 10853 14361 14417 26219 26219 0.17401275138740857 PAKLLDDLF 9 Unmodified _PAKLLDDLF_ 0 0 0 ENSG00000100813|ENST00000605057|ACIN1;nc|ENSG00000100813|Q9UKV3-5|ACIN1;nc|ENSG00000100813|Q9UKV3|ACIN1;nc|ENSG00000100813|Q9UKV3-3|ACIN1;nc|ENSG00000100813|Q9UKV3-2|ACIN1 ENSG00000100813|ENST00000605057|ACIN1 ENSG00000100813|ENST00000605057|ACIN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.2906494140625 2 516.292225 1030.5699 NaN NaN NaN NaN NaN NaN NaN 77.157 1 77.412 76.912 77.912 0.25533 0 0 0 0.82031 1 35531 35531 8.5933 0.68312 1 22583 1242 14362 14418 26220 26220 0.05583511245799855 PAKLLFKCR 9 Unmodified _PAKLLFKCR_ 0 0 0 REV__ENST00000389224.7_1_16:2588309-2588624:+|nuORF REV__ENST00000389224.7_1_16:2588309-2588624:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.3281860351562 2 538.325879 1074.63721 NaN NaN NaN NaN NaN NaN NaN 68.314 1 68.314 67.814 68.814 0 0 0 0 0.90335 1 32885 32885 4.756 0.42677 1 + 22584 15909 14363 14419 26221 26221 0.10287262975771228 PAKLLLID 8 Unmodified _PAKLLLID_ 0 0 0 nc|ENSG00000101596|A6NHR9-2|SMCHD1;ENSG00000101596|ENST00000320876|SMCHD1;nc|ENSG00000101596|A6NHR9-3|SMCHD1;ENST00000584897.5_1_18:2726458-2784452:+|nuORF nc|ENSG00000101596|A6NHR9-2|SMCHD1 nc|ENSG00000101596|A6NHR9-2|SMCHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 441.78778076171875 2 441.786579 881.558604 NaN NaN NaN NaN NaN NaN NaN 62.011 1 62.741 62.241 63.241 0.73077 0 0 0 0.99035 1 28843 28843 5.7604 0 1 22585 1302 14364 14420 26222 26222 0.11308733942325944 PAKLLVRPRPR 11 Unmodified _PAKLLVRPRPR_ 0 0 0 REV__nc|ENSG00000204991|Q8WWL2-4|SPIRE2 REV__nc|ENSG00000204991|Q8WWL2-4|SPIRE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 651.9285278320312 2 651.92768 1301.84081 NaN NaN NaN NaN NaN NaN NaN 75.053 1 75.053 74.553 75.553 0 0 0 0 1.0071 1 36767 36767 1.4819 0.15237 1 + 22586 14449 14365 14421 26223 26223 0.20196123741561678 PAKLLVRPRPR 11 Unmodified _PAKLLVRPRPR_ 0 0 0 REV__nc|ENSG00000204991|Q8WWL2-4|SPIRE2 REV__nc|ENSG00000204991|Q8WWL2-4|SPIRE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 651.9258422851562 2 651.92768 1301.84081 NaN NaN NaN NaN NaN NaN NaN 74.865 1 75.123 74.623 75.623 0.25831 0 0 0 1.0057 1 34437 34437 3.2813 1.7994 1 + 22587 14449 14365 14421 26224 26224 0.20196123741561678 PAKLNKILKAL 11 Unmodified _PAKLNKILKAL_ 0 0 0 nc|ENSG00000171804|Q6ZQQ6|WDR87;nc|ENSG00000171804|Q6ZQQ6-2|WDR87;ENSG00000171804|ENST00000447313|WDR87 nc|ENSG00000171804|Q6ZQQ6|WDR87 nc|ENSG00000171804|Q6ZQQ6|WDR87 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.7184448242188 2 604.908091 1207.80163 NaN NaN NaN NaN NaN NaN NaN 71.966 1 71.966 71.466 72.466 0 0 0 0 1.0057 1 34989 34989 3.2813 1.7994 1 22588 4834 14366 14422 26225 26225 0.20603978667372758 PAKLPRSIVHI 11 Unmodified _PAKLPRSIVHI_ 0 0 0 REV__ENSG00000136011|ENST00000388887|STAB2 REV__ENSG00000136011|ENST00000388887|STAB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 615.9966430664062 2 615.88769 1229.76083 NaN NaN NaN NaN NaN NaN NaN 74.656 1 74.656 74.156 75.156 0 0 0 0 1.0057 1 36488 36488 3.2813 0 1 + 22589 12055 14367 14423 26226 26226 0.15513637347726217 PAKLTRGRPR 10 Unmodified _PAKLTRGRPR_ 0 0 0 UNC5CL|p.H495Afs*125|1|0.14|ENSG00000124602|chr6:41028444-41028447|CGTG/-|frameshift_variant UNC5CL|p.H495Afs*125|1|0.14|ENSG00000124602|chr6:41028444-41028447|CGTG/-|frameshift_variant UNC5CL|p.H495Afs*125|1|0.14|ENSG00000124602|chr6:41028444-41028447|CGTG/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 576.5349731445312 2 576.359631 1150.70471 NaN NaN NaN NaN NaN NaN NaN 87.727 1 88.405 87.905 88.905 0.67818 0 0 0 1.0001 1 40407 40407 1.6526 0.32309 1 22590 18285 14368 14424 26227 26227 0.1353842923092543 PAKLVKKKLQ 10 Unmodified _PAKLVKKKLQ_ 0 0 0 REV__nc|ENSG00000160145|O60229-2|KALRN REV__nc|ENSG00000160145|O60229-2|KALRN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.0845336914062 2 576.894983 1151.77541 NaN NaN NaN NaN NaN NaN NaN 66.611 1 67.316 66.816 67.816 0.7047 0 0 0 0.99733 1 31589 31589 3.9444 0 1 + 22591 17997 14369 14425 26228 26228 0.20559709495887546 PAKMLLLLALA 11 Unmodified _PAKMLLLLALA_ 0 0 0 ENSG00000105464|ENST00000263269|GRIN2D ENSG00000105464|ENST00000263269|GRIN2D ENSG00000105464|ENST00000263269|GRIN2D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.3734130859375 2 577.372495 1152.73044 NaN NaN NaN NaN NaN NaN NaN 74.395 1 74.653 74.153 75.153 0.25831 0 0 0 0.97175 1 34214 34214 9.3831 0.63772 1 22592 1499 14370 14426 26229 26229 0.16018142638358768 PAKMRQVSNR 10 Unmodified _PAKMRQVSNR_ 0 0 0 nc|ENSG00000054938|Q6WN34-3|CHRDL2 nc|ENSG00000054938|Q6WN34-3|CHRDL2 nc|ENSG00000054938|Q6WN34-3|CHRDL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 396.2223205566406 3 396.22063 1185.64006 2.7223 0.0010786 1.1663 0.0004621 3.8886 0.0015407 396.22085722944905 54.956 0.1957 54.956 54.819 55.014 0 29 19 3 0 0 0 0.91298 1 25249 25249 3.0723 0.33707 1 693250 22593 9547 14371 14427 26230 26230 0.05466486362638534 PAKNEQYET 9 Unmodified _PAKNEQYET_ 0 0 0 REV__ENSG00000090889|ENST00000374403|KIF4A REV__ENSG00000090889|ENST00000374403|KIF4A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.3331909179688 2 540.253828 1078.4931 NaN NaN NaN NaN NaN NaN NaN 69.551 1 70.254 69.754 70.754 0.70302 0 0 0 0.89509 1 33293 33293 4.756 0.42677 1 + 22594 10719 14372 14428 26231 26231 -0.04300332041339061 PAKNESRTL 9 Unmodified _PAKNESRTL_ 0 0 0 REV__ENSG00000196700|ENST00000369888|ZNF512B REV__ENSG00000196700|ENST00000369888|ZNF512B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.28717041015625 2 508.28018 1014.54581 NaN NaN NaN NaN NaN NaN NaN 76.956 1 77.619 77.119 78.119 0.66303 0 0 0 0.69911 1 35462 35462 12.532 3.1841 1 + 22595 14238 14373 14429 26232 26232 0.03911670812135526 PAKPAFRRRE 10 Unmodified _PAKPAFRRRE_ 0 0 0 ENST00000392650.7_1_17:71334510-71334729:-|nuORF ENST00000392650.7_1_17:71334510-71334729:-|nuORF ENST00000392650.7_1_17:71334510-71334729:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 409.9060974121094 3 409.907151 1226.69962 NaN NaN NaN NaN NaN NaN NaN 62.095 1 62.095 61.595 62.595 0 0 0 0 0.99774 1 29065 29065 1.7423 0.14999 1 22596 7519 14374 14430 26233 26233 0.09534125368327295 PAKPDHHRPTW 11 Unmodified _PAKPDHHRPTW_ 0 0 0 ENST00000452080.5_1_11:124496598-124496825:+|nuORF ENST00000452080.5_1_11:124496598-124496825:+|nuORF ENST00000452080.5_1_11:124496598-124496825:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 671.3455200195312 2 671.344178 1340.6738 NaN NaN NaN NaN NaN NaN NaN 63.994 1 63.994 63.494 64.494 0 0 0 0 1.0057 1 30211 30211 3.2813 0 1 22597 8025 14375 14431 26234 26234 0.017092311260284987 PAKPEEPG 8 Unmodified _PAKPEEPG_ 0 0 0 ENSG00000063515|ENST00000086933|GSC2 ENSG00000063515|ENST00000086933|GSC2 ENSG00000063515|ENST00000086933|GSC2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 824.4744262695312 1 824.414859 823.407583 3.3512 0.0027628 -1.8684 -0.0015404 1.4828 0.0012225 824.4146727565026 95.604 0.18012 95.604 95.493 95.673 0 33 24 2 0 0 0 0.14249 1 51578 51578 2.8892 0 1 27161000 22598 662 14376 14432 26235 26235 -0.011184524363329729 PAKPEEPG 8 Unmodified _PAKPEEPG_ 0 0 0 ENSG00000063515|ENST00000086933|GSC2 ENSG00000063515|ENST00000086933|GSC2 ENSG00000063515|ENST00000086933|GSC2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 824.414859 823.407583 2.5039 0.0020643 -1.2535 -0.0010334 1.2504 0.0010309 824.4140255920574 95.33 0.084274 95.412 95.388 95.473 0.082008 -0.09638 0.0001918 NaN 2.8892 11 9 2 NaN NaN NaN NaN 0 NaN NaN 0 9282400 22599 662 14376 14432 -0.011184524363329729 PAKPGGPGRPR 11 Unmodified _PAKPGGPGRPR_ 0 0 0 ENST00000470150.5_1_3:184100608-184105741:+|nuORF;nc|ENSG00000090539|Q9H2X0-5|CHRD;ENSG00000090539|ENST00000204604|CHRD ENST00000470150.5_1_3:184100608-184105741:+|nuORF ENST00000470150.5_1_3:184100608-184105741:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3189697265625 2 545.317432 1088.62031 NaN NaN NaN NaN NaN NaN NaN 80.267 1 80.516 80.016 81.016 0.24947 0 0 0 1.0038 1 36958 36958 5.7319 0.50118 1 22600 1061 14377 14433 26236 26236 0.07954478414171717 PAKPGLLRKL 10 Unmodified _PAKPGLLRKL_ 0 0 0 REV__nc|ENSG00000154358|Q5VST9|OBSCN REV__nc|ENSG00000154358|Q5VST9|OBSCN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.7726440429688 2 546.866226 1091.7179 NaN NaN NaN NaN NaN NaN NaN 70.017 1 70.017 69.517 70.517 0 0 0 0 0.99225 1 33903 33903 6.7232 3.1267 1 + 22601 12706 14378 14434 26237 26237 0.17570867290305614 PAKPGLLRKLV 11 Unmodified _PAKPGLLRKLV_ 0 0 0 REV__nc|ENSG00000154358|Q5VST9|OBSCN REV__nc|ENSG00000154358|Q5VST9|OBSCN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 596.3978271484375 2 596.400433 1190.78631 NaN NaN NaN NaN NaN NaN NaN 99.37 1 99.676 99.176 100.18 0.30606 0 0 0 1.0057 1 45899 45899 3.2813 1.6287 1 + 22602 12706 14379 14435 26238 26238 0.19855111870151632 PAKPKCPA 8 Unmodified _PAKPKCPA_ 0 0 0 nc|ENSG00000108231|O95970-2|LGI1;nc|ENSG00000108231|O95970-3|LGI1;ENSG00000108231|ENST00000371418|LGI1 nc|ENSG00000108231|O95970-2|LGI1 nc|ENSG00000108231|O95970-2|LGI1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.2784423828125 1 811.449471 810.442194 3.2658 0.00265 3.5557 0.0028853 6.8215 0.0055353 811.4547488328948 87.167 0.099869 87.167 87.126 87.225 0 17 15 2 0 0 0 0.13853 1 44863 44863 2.5775 0 1 32679000 22603 1624 14380 14436 26239 26239 0.02939092170765889 PAKPKCPA 8 Unmodified _PAKPKCPA_ 0 0 0 nc|ENSG00000108231|O95970-2|LGI1;nc|ENSG00000108231|O95970-3|LGI1;ENSG00000108231|ENST00000371418|LGI1 nc|ENSG00000108231|O95970-2|LGI1 nc|ENSG00000108231|O95970-2|LGI1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.394775390625 1 811.449471 810.442194 2.5934 0.0021044 1.459 0.0011839 4.0523 0.0032883 811.4507353960571 92.566 0.035797 92.652 92.632 92.668 0.086212 6 4 2 0 0 0 0.14111 1 48292 48292 5.7604 2.8712 1 11111000 22604 1624 14380 14436 26240 26240 0.02939092170765889 PAKPLPKVLW 10 Unmodified _PAKPLPKVLW_ 0 0 0 nc|ENSG00000271271|P0DTE5-2|UGT2A2;ENSG00000173610|ENST00000286604|UGT2A1;nc|ENSG00000173610|P0DTE4-4|UGT2A1 nc|ENSG00000271271|P0DTE5-2|UGT2A2 nc|ENSG00000271271|P0DTE5-2|UGT2A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.8209228515625 2 574.863152 1147.71175 NaN NaN NaN NaN NaN NaN NaN 91.209 1 91.284 90.784 91.784 0.075279 0 0 0 0.99976 1 47201 47201 3.9444 0 1 22605 4944 14381 14437 26241 26241 0.14380349058797037 PAKPPAGD 8 Unmodified _PAKPPAGD_ 0 0 0 REV__ENSG00000100154|ENST00000397906|TTC28 REV__ENSG00000100154|ENST00000397906|TTC28 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.7015686035156 2 376.700503 751.386454 NaN NaN NaN NaN NaN NaN NaN 26.7 1 26.965 26.465 27.465 0.26489 0 0 0 0.95658 1 12133 12133 8.5933 3.3626 1 + 22606 10808 14382 14438 26242 26242 0.0008158225480201509 PAKPQLKLKI 10 Unmodified _PAKPQLKLKI_ 0 0 0 ENSG00000115274|ENST00000233331|INO80B;ENST00000494986.5_1_2:74682243-74683007:+|nuORF ENSG00000115274|ENST00000233331|INO80B ENSG00000115274|ENST00000233331|INO80B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.4782104492188 2 568.381709 1134.74886 NaN NaN NaN NaN NaN NaN NaN 62.966 1 63.688 63.188 64.188 0.72236 0 0 0 0.99733 1 29447 29447 3.9444 0.3479 1 22607 1957 14383 14439 26243 26243 0.1868802060453163 PAKPSFLEYF 10 Unmodified _PAKPSFLEYF_ 0 0 0 nc|ENSG00000101109|Q13043-2|STK4;ENSG00000101109|ENST00000372806|STK4 nc|ENSG00000101109|Q13043-2|STK4 nc|ENSG00000101109|Q13043-2|STK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 599.9295654296875 2 599.810782 1197.60701 NaN NaN NaN NaN NaN NaN NaN 96.103 1 96.711 96.211 97.211 0.60769 0 0 0 0.98866 1 44190 44190 7.2892 0 1 22608 1261 14384 14440 26244 26244 0.016111827915665344 PAKQIKKLLL 10 Unmodified _PAKQIKKLLL_ 0 0 0 nc|ENSG00000163092|A4UGR9-7|XIRP2;nc|ENSG00000163092|A4UGR9-5|XIRP2;nc|ENSG00000163092|A4UGR9-4|XIRP2;nc|ENSG00000163092|A4UGR9-6|XIRP2 nc|ENSG00000163092|A4UGR9-7|XIRP2 nc|ENSG00000163092|A4UGR9-7|XIRP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.56884765625 2 576.397359 1150.78016 NaN NaN NaN NaN NaN NaN NaN 93.684 1 93.939 93.439 94.439 0.25497 0 0 0 0.99733 1 43057 43057 3.9444 2.6149 1 22609 9714 14385 14441 26245 26245 0.21080593638657774 PAKQIKKLLL 10 Unmodified _PAKQIKKLLL_ 0 0 0 nc|ENSG00000163092|A4UGR9-7|XIRP2;nc|ENSG00000163092|A4UGR9-5|XIRP2;nc|ENSG00000163092|A4UGR9-4|XIRP2;nc|ENSG00000163092|A4UGR9-6|XIRP2 nc|ENSG00000163092|A4UGR9-7|XIRP2 nc|ENSG00000163092|A4UGR9-7|XIRP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.3967895507812 2 576.397359 1150.78016 NaN NaN NaN NaN NaN NaN NaN 95.6 1 95.868 95.368 96.368 0.2675 0 0 0 0.99983 1 43926 43926 1.8442 0.19162 1 22610 9714 14385 14441 26246 26246 0.21080593638657774 PAKQIKKLLL 10 Unmodified _PAKQIKKLLL_ 0 0 0 nc|ENSG00000163092|A4UGR9-7|XIRP2;nc|ENSG00000163092|A4UGR9-5|XIRP2;nc|ENSG00000163092|A4UGR9-4|XIRP2;nc|ENSG00000163092|A4UGR9-6|XIRP2 nc|ENSG00000163092|A4UGR9-7|XIRP2 nc|ENSG00000163092|A4UGR9-7|XIRP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 576.3972778320312 2 576.397359 1150.78016 NaN NaN NaN NaN NaN NaN NaN 93.489 1 94.12 93.62 94.62 0.63115 0 0 0 1.0001 1 43006 43006 1.6526 1.1279 1 22611 9714 14385 14441 26247 26247 0.21080593638657774 PAKQLHFK 8 Unmodified _PAKQLHFK_ 0 0 0 REV__ENSG00000236543|ENST00000430816|unknown REV__ENSG00000236543|ENST00000430816|unknown MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.7866516113281 2 484.787444 967.560336 2.6665 0.0012927 -1.8575 -0.00090048 0.80907 0.00039223 484.78775359194105 76.484 0.17387 76.484 76.41 76.584 0 12 9 2 0 0 0 0.70146 1 37497 37497 5.7604 0 1 750240 + 22612 14593 14386 14442 26248 26248 0.07525787750932977 PAKQLHFK 8 Unmodified _PAKQLHFK_ 0 0 0 REV__ENSG00000236543|ENST00000430816|unknown REV__ENSG00000236543|ENST00000430816|unknown MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 484.787444 967.560336 2.6665 0.0012927 -1.8575 -0.00090048 0.80907 0.00039223 484.78775359194105 76.484 0.17387 76.484 76.41 76.584 0 0.14262 0.00040006 NaN 5.7604 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 750240 + 22613 14593 14386 14442 0.07525787750932977 PAKQLHFK 8 Unmodified _PAKQLHFK_ 0 0 0 REV__ENSG00000236543|ENST00000430816|unknown REV__ENSG00000236543|ENST00000430816|unknown MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 484.787444 967.560336 2.6236 0.0012719 -2.6183 -0.0012693 0.0052874 2.5632E-06 484.7874657194742 75.535 0.093506 76.198 76.146 76.239 0.66349 -0.14262 -0.00033766 NaN 5.7604 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 326140 + 22614 14593 14386 14442 0.07525787750932977 PAKQLQQKE 9 Unmodified _PAKQLQQKE_ 0 0 0 REV__ENSG00000159459|ENST00000290650|UBR1 REV__ENSG00000159459|ENST00000290650|UBR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.3056640625 2 535.303655 1068.59276 NaN NaN NaN NaN NaN NaN NaN 89.082 1 89.082 88.582 89.582 0 0 0 0 0.72654 1 46421 46421 11.64 0.81637 1 + 22615 12853 14387 14443 26249 26249 0.061205303632732466 PAKQPLFH 8 Unmodified _PAKQPLFH_ 0 0 0 REV__ENSG00000153406|ENST00000283429|NMRAL1 REV__ENSG00000153406|ENST00000283429|NMRAL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.26580810546875 2 469.266345 936.518136 NaN NaN NaN NaN NaN NaN NaN 75.621 1 75.621 75.121 76.121 0 0 0 0 0.99035 1 37056 37056 5.7604 0.52976 1 + 22616 12679 14388 14444 26250 26250 0.04733812342556121 PAKQQKIK 8 Unmodified _PAKQQKIK_ 0 0 0 nc|ENSG00000183337|Q6W2J9-4|BCOR;nc|ENSG00000183337|Q6W2J9-2|BCOR;ENSG00000183337|ENST00000378444|BCOR nc|ENSG00000183337|Q6W2J9-4|BCOR nc|ENSG00000183337|Q6W2J9-4|BCOR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.56494140625 2 470.800552 939.58655 NaN NaN NaN NaN NaN NaN NaN 68.715 1 68.715 68.215 69.215 0 0 0 0 0.94507 1 33102 33102 9.3474 1.4373 1 22617 5376 14389 14445 26251 26251 0.11434056922416858 PAKQVLWQFIY 11 Unmodified _PAKQVLWQFIY_ 0 0 0 ENSG00000215045|ENST00000457091|GRID2IP ENSG00000215045|ENST00000457091|GRID2IP ENSG00000215045|ENST00000457091|GRID2IP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 696.8858642578125 2 696.887355 1391.76016 NaN NaN NaN NaN NaN NaN NaN 97.526 1 97.815 97.315 98.315 0.28923 0 0 0 1.0057 1 44803 44803 3.2813 0 1 22618 6127 14390 14446 26252 26252 0.07994797908031614 PAKREKKTIRI 11 Unmodified _PAKREKKTIRI_ 0 0 0 nc|ENSG00000075151|O43432-2|EIF4G3;nc|ENSG00000075151|O43432-4|EIF4G3;nc|ENSG00000075151|O43432|EIF4G3;nc|ENSG00000075151|O43432-3|EIF4G3;ENSG00000075151|ENST00000602326|EIF4G3 nc|ENSG00000075151|O43432-2|EIF4G3 nc|ENSG00000075151|O43432-2|EIF4G3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 670.4307250976562 2 670.430253 1338.84595 NaN NaN NaN NaN NaN NaN NaN 95.622 1 96.23 95.73 96.73 0.60769 0 0 0 1.0071 1 43972 43972 1.4819 1.1749 1 22619 825 14391 14447 26253 26253 0.19008382813558455 PAKRFAGLR 9 Unmodified _PAKRFAGLR_ 0 0 0 REV__ENST00000482555.5_1_7:128116969-128117101:+|nuORF REV__ENST00000482555.5_1_7:128116969-128117101:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.31097412109375 2 508.311618 1014.60868 NaN NaN NaN NaN NaN NaN NaN 75.406 1 75.406 74.906 75.906 0 0 0 0 0.84134 1 36950 36950 7.9102 0.62092 1 + 22620 16713 14392 14448 26254 26254 0.10196281390835793 PAKRFKKLIS 10 Unmodified _PAKRFKKLIS_ 0 0 0 REV__ENST00000409484.5_1_2:172411796-172411952:+|nuORF REV__ENST00000409484.5_1_2:172411796-172411952:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 594.38720703125 2 594.384783 1186.75501 NaN NaN NaN NaN NaN NaN NaN 87.855 1 87.895 87.395 88.395 0.039955 0 0 0 0.99733 1 44595 44595 3.9444 0.66309 1 + 22621 16097 14393 14449 26255 26255 0.1691053883607765 PAKRIYIKWTS 11 Unmodified _PAKRIYIKWTS_ 0 0 0 REV__KCNQ1|p.K422Sfs*10|1|0.3|ENSG00000053918|chr11:2588719-2588719|A/-|frameshift_variant REV__KCNQ1|p.K422Sfs*10|1|0.3|ENSG00000053918|chr11:2588719-2588719|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 681.8981323242188 2 681.898254 1361.78196 NaN NaN NaN NaN NaN NaN NaN 74.804 1 75.468 74.968 75.968 0.6644 0 0 0 1.0057 1 34446 34446 3.2813 1.7994 1 + 22622 10358 14394 14450 26256 26256 0.11553602656590556 PAKRKTRRLSS 11 Unmodified _PAKRKTRRLSS_ 0 0 0 REV__ENSG00000082438|ENST00000652658|COBLL1 REV__ENSG00000082438|ENST00000652658|COBLL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 650.4022827148438 2 650.402027 1298.7895 NaN NaN NaN NaN NaN NaN NaN 60.877 1 61.617 61.117 62.117 0.7396 0 0 0 1.0057 1 28161 28161 3.2813 0.54611 1 + 22623 10617 14395 14451 26257 26257 0.15205754976909702 PAKRLALHLV 10 Unmodified _PAKRLALHLV_ 0 0 0 ENSG00000142207|ENST00000382751|URB1 ENSG00000142207|ENST00000382751|URB1 ENSG00000142207|ENST00000382751|URB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.3645629882812 2 559.36385 1116.71315 NaN NaN NaN NaN NaN NaN NaN 67.206 1 67.206 66.706 67.706 0 0 0 0 0.98866 1 32182 32182 7.2892 2.96 1 22624 3302 14396 14452 26258 26258 0.1594598314754876 PAKRLKMGI 9 Unmodified _PAKRLKMGI_ 0 0 0 ENST00000452157.5_1_5:56218957-56234137:-|nuORF;nc|ENSG00000155545|Q7Z3K6-4|MIER3;nc|ENSG00000155545|Q7Z3K6-3|MIER3;ENSG00000155545|ENST00000381199|MIER3;nc|ENSG00000155545|Q7Z3K6-2|MIER3 ENST00000452157.5_1_5:56218957-56234137:-|nuORF ENST00000452157.5_1_5:56218957-56234137:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.3182678222656 2 507.318054 1012.62156 NaN NaN NaN NaN NaN NaN NaN 88.961 1 89.013 88.513 89.513 0.052155 0 0 0 0.69911 1 45473 45473 12.532 0 1 22625 3867 14397 14453 26259 26259 0.1157497645872354 PAKRPRREL 9 Unmodified _PAKRPRREL_ 0 0 0 nc|ENSG00000143373|Q8N1G0-2|ZNF687;ENSG00000143373|ENST00000336715|ZNF687 nc|ENSG00000143373|Q8N1G0-2|ZNF687 nc|ENSG00000143373|Q8N1G0-2|ZNF687 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.847412109375 2 561.846356 1121.67816 3.7313 0.0020964 -0.9833 -0.00055246 2.748 0.001544 561.8456646548796 91.569 0.70294 92.231 91.995 92.698 0.66198 101 35 4 0 0 0 1.101 1 42322 42322 2.3027 0 1 3339000 22626 3361 14398 14454 26260 26260 0.12218740339585565 PAKRPRREL 9 Unmodified _PAKRPRREL_ 0 0 0 nc|ENSG00000143373|Q8N1G0-2|ZNF687;ENSG00000143373|ENST00000336715|ZNF687 nc|ENSG00000143373|Q8N1G0-2|ZNF687 nc|ENSG00000143373|Q8N1G0-2|ZNF687 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 561.846356 1121.67816 4.077 0.0022907 -1.2777 -0.00071786 2.7994 0.0015728 561.8455124700043 91.978 0.75246 92.231 91.988 92.741 0.25253 -0.00013988 -0.00017413 NaN 2.3027 97 37 4 NaN NaN NaN NaN 0 NaN NaN 0 2089300 22627 3361 14398 14454 0.12218740339585565 PAKRPRRQDWD 11 Unmodified _PAKRPRRQDWD_ 0 0 0 nc|ENSG00000111726|Q8NFW8-2|CMAS;ENSG00000111726|ENST00000229329|CMAS nc|ENSG00000111726|Q8NFW8-2|CMAS nc|ENSG00000111726|Q8NFW8-2|CMAS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 712.878173828125 2 712.878916 1423.74328 NaN NaN NaN NaN NaN NaN NaN 66.201 1 66.201 65.701 66.701 0 0 0 0 1.0057 1 31617 31617 3.2813 0 1 22628 1775 14399 14455 26261 26261 0.04835690074787635 PAKRRKVRKT 10 Unmodified _PAKRRKVRKT_ 0 0 0 nc|ENSG00000085185|Q5H9F3-1|BCORL1;ENSG00000085185|ENST00000540052|BCORL1 nc|ENSG00000085185|Q5H9F3-1|BCORL1 nc|ENSG00000085185|Q5H9F3-1|BCORL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.4415283203125 2 620.409655 1238.80476 NaN NaN NaN NaN NaN NaN NaN 89.31 1 89.375 88.875 89.875 0.064346 0 0 0 0.99733 1 45739 45739 3.9444 0.66309 1 22629 964 14400 14456 26262 26262 0.19490666564729509 PAKRRWRPTNK 11 Unmodified _PAKRRWRPTNK_ 0 0 0 REV__nc|ENSG00000135899|Q9HB58-4|SP110 REV__nc|ENSG00000135899|Q9HB58-4|SP110 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 705.27685546875 2 705.415469 1408.81638 NaN NaN NaN NaN NaN NaN NaN 76.781 1 76.781 76.281 77.281 0 0 0 0 1.006 1 37635 37635 6.2058 3.7073 1 + 22630 17950 14401 14457 26263 26263 0.1283286358807345 PAKRTCKR 8 Unmodified _PAKRTCKR_ 0 0 0 REV__nc|ENSG00000163803|Q6P1J6-2|PLB1 REV__nc|ENSG00000163803|Q6P1J6-2|PLB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.2817077636719 2 480.282003 958.549453 NaN NaN NaN NaN NaN NaN NaN 30.097 1 30.887 30.387 31.387 0.78921 0 0 0 0.99035 1 13586 13586 5.7604 0 1 + 22631 18011 14402 14458 26264 26264 0.06852062104997003 PAKSKAAYVS 10 Unmodified _PAKSKAAYVS_ 0 0 0 REV__ENSG00000185800|ENST00000270223|DMWD REV__ENSG00000185800|ENST00000270223|DMWD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.2872314453125 2 511.287474 1020.5604 NaN NaN NaN NaN NaN NaN NaN 96.615 1 96.615 96.115 97.115 0 0 0 0 0.99464 1 52334 52334 6.2058 0.44535 1 + 22632 14030 14403 14459 26265 26265 0.05093742960275449 PAKSKLKTVPV 11 Unmodified _PAKSKLKTVPV_ 0 0 0 REV__nc|ENSG00000001631|O00522-2|KRIT1 REV__nc|ENSG00000001631|O00522-2|KRIT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.1386108398438 2 584.376623 1166.73869 NaN NaN NaN NaN NaN NaN NaN 87.919 1 87.919 87.419 88.419 0 0 0 0 0.97845 1 45484 45484 8.7454 3.8484 1 + 22633 10158 14404 14460 26266 26266 0.16199412879313968 PAKSVRVRPVV 11 Unmodified _PAKSVRVRPVV_ 0 0 0 REV__ENSG00000164236|ENST00000296657|ANKRD33B REV__ENSG00000164236|ENST00000296657|ANKRD33B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.46826171875 2 604.385314 1206.75608 NaN NaN NaN NaN NaN NaN NaN 89.353 1 89.353 88.853 89.853 0 0 0 0 1.0072 1 46638 46638 3.2813 0.28607 1 + 22634 13077 14405 14461 26267 26267 0.1609675320498809 PAKSWKLHYRW 11 Unmodified _PAKSWKLHYRW_ 0 0 0 nc|ENSG00000115252|P54750-3|PDE1A;nc|ENSG00000115252|P54750-8|PDE1A;nc|ENSG00000115252|P54750-9|PDE1A;nc|ENSG00000115252|P54750-2|PDE1A;ENSG00000115252|ENST00000409365|PDE1A;nc|ENSG00000115252|P54750|PDE1A;nc|ENSG00000115252|P54750-7|PDE1A;nc|ENSG00000115252|P54750-4|PDE1A;nc|ENSG00000115252|P54750-5|PDE1A nc|ENSG00000115252|P54750-3|PDE1A nc|ENSG00000115252|P54750-3|PDE1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 736.4011840820312 2 736.401496 1470.78844 NaN NaN NaN NaN NaN NaN NaN 82.937 1 82.982 82.482 83.482 0.045006 0 0 0 1.0057 1 41032 41032 3.2813 1.6287 1 22635 1954 14406 14462 26268 26268 0.07187540607969822 PAKTEKKVPIS 11 Unmodified _PAKTEKKVPIS_ 0 0 0 REV__nc|ENSG00000186472|Q9Y6V0-6|PCLO REV__nc|ENSG00000186472|Q9Y6V0-6|PCLO MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 599.3617553710938 2 599.363713 1196.71287 NaN NaN NaN NaN NaN NaN NaN 61.606 1 62.336 61.836 62.836 0.73077 0 0 0 0.97845 1 28592 28592 8.7454 0.3011 1 + 22636 14057 14407 14463 26269 26269 0.12238518637036577 PAKTKILPP 9 Unmodified _PAKTKILPP_ 0 0 0 nc|ENSG00000100207|Q9UGU0-2|TCF20;ENSG00000100207|ENST00000677622|TCF20 nc|ENSG00000100207|Q9UGU0-2|TCF20 nc|ENSG00000100207|Q9UGU0-2|TCF20 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 482.81134033203125 2 482.813128 963.611703 NaN NaN NaN NaN NaN NaN NaN 73.274 1 73.274 72.774 73.774 0 0 0 0 0.86044 1 35697 35697 7.2892 0 1 22637 1187 14408 14464 26270 26270 0.1284411172498494 PAKTKILPPRK 11 Unmodified _PAKTKILPPRK_ 0 0 0 nc|ENSG00000100207|Q9UGU0-2|TCF20;ENSG00000100207|ENST00000677622|TCF20 nc|ENSG00000100207|Q9UGU0-2|TCF20 nc|ENSG00000100207|Q9UGU0-2|TCF20 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 625.093505859375 2 624.911165 1247.80778 NaN NaN NaN NaN NaN NaN NaN 60.749 1 61.488 60.988 61.988 0.7396 0 0 0 1.0041 1 28082 28082 5.2969 3.6443 1 22638 1187 14409 14465 26271 26271 0.19378496898866615 PAKTKKKKKGP 11 Unmodified _PAKTKKKKKGP_ 0 0 0 REV__ENSG00000150990|ENST00000308736|DHX37 REV__ENSG00000150990|ENST00000308736|DHX37 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 605.9930419921875 2 605.90334 1209.79213 NaN NaN NaN NaN NaN NaN NaN 66.381 1 66.381 65.881 66.881 0 0 0 0 0.97845 1 31720 31720 8.7454 0 1 + 22639 12599 14410 14466 26272 26272 0.195622103818323 PAKVFEHNMWD 11 Unmodified _PAKVFEHNMWD_ 0 0 0 ENSG00000123600|ENST00000375258|METTL8;nc|ENSG00000123600|Q9H825|METTL8 ENSG00000123600|ENST00000375258|METTL8 ENSG00000123600|ENST00000375258|METTL8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 687.2896728515625 2 687.31898 1372.62341 NaN NaN NaN NaN NaN NaN NaN 73.841 1 74.505 74.005 75.005 0.6644 0 0 0 1.0038 1 33970 33970 5.7319 2.7366 1 22640 2321 14411 14467 26273 26273 -0.04800059313993188 PAKVKLKKIKN 11 Unmodified _PAKVKLKKIKN_ 0 0 0 REV__nc|ENSG00000095585|Q8WV28-3|BLNK REV__nc|ENSG00000095585|Q8WV28-3|BLNK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.9343872070312 2 633.93464 1265.85473 NaN NaN NaN NaN NaN NaN NaN 63.246 1 63.246 62.746 63.746 0 0 0 0 1.0057 1 29735 29735 3.2813 0 1 + 22641 10766 14412 14468 26274 26274 0.2324335645002975 PAKVLRRFK 9 Unmodified _PAKVLRRFK_ 0 0 0 REV__nc|ENSG00000102158|Q9H0U3-2|MAGT1 REV__nc|ENSG00000102158|Q9H0U3-2|MAGT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.8633422851562 2 557.864018 1113.71348 NaN NaN NaN NaN NaN NaN NaN 73.968 1 74.654 74.154 75.154 0.68662 0 0 0 0.86044 1 35726 35726 7.2892 2.96 1 + 22642 10920 14413 14469 26275 26275 0.16117402867416786 PAKVRARRVP 10 Unmodified _PAKVRARRVP_ 0 0 0 ENST00000455062.2_1_7:74197704-74203407:+|nuORF;ENST00000423083.1_1_7:72644023-72649727:+|nuORF ENST00000455062.2_1_7:74197704-74203407:+|nuORF ENST00000455062.2_1_7:74197704-74203407:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.1749877929688 2 575.369998 1148.72544 NaN NaN NaN NaN NaN NaN NaN 102.19 1 102.24 101.74 102.74 0.057198 0 0 0 0.99976 1 55484 55484 3.9444 1.2092 1 22643 7777 14414 14470 26276 26276 0.1570301961057794 PAKVSITY 8 Unmodified _PAKVSITY_ 0 0 0 REV__nc|ENSG00000155629|Q6ZUJ8-2|PIK3AP1 REV__nc|ENSG00000155629|Q6ZUJ8-2|PIK3AP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 439.75347900390625 2 439.752736 877.490919 2.569 0.0011297 0.63362 0.00027864 3.2026 0.0014083 439.75303990660035 34.186 0.29634 34.975 34.831 35.128 0.78921 22 16 2 0 0 0 0.21011 1 15486 15486 42.095 0 1 342900 + 22644 12746 14415 14471 26277 26277 0.047272840115169856 PAKVSITY 8 Unmodified _PAKVSITY_ 0 0 0 REV__nc|ENSG00000155629|Q6ZUJ8-2|PIK3AP1 REV__nc|ENSG00000155629|Q6ZUJ8-2|PIK3AP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 439.752736 877.490919 2.569 0.0011297 0.63362 0.00027864 3.2026 0.0014083 439.75303990660035 34.186 0.29634 34.975 34.831 35.128 0.78921 -0.058576 0.00034431 NaN 42.095 22 16 2 NaN NaN NaN NaN 0 NaN NaN 0 342900 + 22645 12746 14415 14471 0.047272840115169856 PAKVSVKII 9 Unmodified _PAKVSVKII_ 0 0 0 ENST00000437159.5_1_2:61726929-61726986:-|nuORF ENST00000437159.5_1_2:61726929-61726986:-|nuORF ENST00000437159.5_1_2:61726929-61726986:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 477.82440185546875 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 105.35 1 105.67 105.17 106.17 0.31782 0 0 0 0.90611 1 48632 48632 2.0598 0 1 22646 7905 14416 14472 26278 26278 0.14868398242049352 PAKWKCDGHED 11 Unmodified _PAKWKCDGHED_ 0 0 0 ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 643.2860107421875 2 643.285137 1284.55572 NaN NaN NaN NaN NaN NaN NaN 95.877 1 96.485 95.985 96.985 0.60769 0 0 0 1.0057 1 44087 44087 3.2813 1.4371 1 22647 4647 14417 14473 26279 26279 -0.0751750924478074 PAKWRSMLWST 11 Unmodified _PAKWRSMLWST_ 0 0 0 REV__ENST00000304886.6_2_20:10256164-10273556:+|nuORF REV__ENST00000304886.6_2_20:10256164-10273556:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 455.1944580078125 3 454.904419 1361.69143 NaN NaN NaN NaN NaN NaN NaN 63.975 1 63.975 63.475 64.475 0 0 0 0 1.0057 1 30196 30196 1.3296 0.63198 1 + 22648 15222 14418 14474 26280 26280 0.025048103366543728 PAKYLLPEVTV 11 Unmodified _PAKYLLPEVTV_ 0 0 0 nc|ENSG00000144677|O15194-2|CTDSPL;ENSG00000144677|ENST00000273179|CTDSPL nc|ENSG00000144677|O15194-2|CTDSPL nc|ENSG00000144677|O15194-2|CTDSPL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 615.825439453125 2 615.360639 1228.70673 NaN NaN NaN NaN NaN NaN NaN 73.799 1 74.485 73.985 74.985 0.68662 0 0 0 1.0038 1 35616 35616 5.7319 1.7875 1 22649 3440 14419 14475 26281 26281 0.10152000405514627 PAKYYSYSKEN 11 Unmodified _PAKYYSYSKEN_ 0 0 0 ENST00000369002.8_1_6:108246088-108279112:-|nuORF ENST00000369002.8_1_6:108246088-108279112:-|nuORF ENST00000369002.8_1_6:108246088-108279112:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.55230712890625 3 450.550587 1348.62993 NaN NaN NaN NaN NaN NaN NaN 64.034 1 64.034 63.534 64.534 0 0 0 0 1.0057 1 30242 30242 1.3296 0.21989 1 22650 7287 14420 14476 26282 26282 -0.030438428816069063 PALELVML 8 Unmodified _PALELVML_ 0 0 0 REV__nc|ENSG00000244588|Q9H4I0-2|RAD21L1 REV__nc|ENSG00000244588|Q9H4I0-2|RAD21L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 885.5181884765625 1 885.511402 884.504126 4.1813 0.0037026 0.25796 0.00022843 4.4393 0.003931 885.5114560001491 88.258 0.2216 88.509 88.375 88.596 0.25064 17 10 2 0 0 0 0.31786 1 40637 40637 34.187 6.0141 1 461190 + 22651 14638 14421 14477 26283 26283 0.05725398799256709 PALELVML 8 Unmodified _PALELVML_ 0 0 0 REV__nc|ENSG00000244588|Q9H4I0-2|RAD21L1 REV__nc|ENSG00000244588|Q9H4I0-2|RAD21L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 885.5150756835938 1 885.511402 884.504126 4.1026 0.0036329 1.1321 0.0010025 5.2347 0.0046354 885.5116833134011 87.693 0.17381 88.371 88.265 88.439 0.67818 10 7 2 0 0 0 0.31786 1 40399 40399 34.187 6.0141 1 524260 + 22652 14638 14421 14477 26284 26284 0.05725398799256709 PALEVPIPAL 10 Unmodified _PALEVPIPAL_ 0 0 0 REV__ENST00000503049.1_1_5:122726767-122729128:-|nuORF REV__ENST00000503049.1_1_5:122726767-122729128:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.3123779296875 2 510.310418 1018.60628 NaN NaN NaN NaN NaN NaN NaN 76.674 1 76.674 76.174 77.174 0 0 0 0 0.99687 1 37582 37582 4.3292 0 1 + 22653 13374 14422 14478 26285 26285 0.09772388142516775 PALGLVRTP 9 Unmodified _PALGLVRTP_ 0 0 0 REV__ENST00000584516.5_1_17:73585822-73586164:+|nuORF REV__ENST00000584516.5_1_17:73585822-73586164:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 462.3222961425781 2 462.287277 922.560001 NaN NaN NaN NaN NaN NaN NaN 77.404 1 77.965 77.465 78.465 0.56091 0 0 0 0.89683 1 37545 37545 4.3292 0 1 + 22654 17529 14423 14479 26286 26286 0.09562368031083679 PALGRKKP 8 Unmodified _PALGRKKP_ 0 0 0 REV__nc|ENSG00000101596|A6NHR9-2|SMCHD1 REV__nc|ENSG00000101596|A6NHR9-2|SMCHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 433.7834167480469 2 433.782162 865.549771 NaN NaN NaN NaN NaN NaN NaN 50.485 1 50.485 49.985 50.985 0 0 0 0 0.99035 1 23113 23113 2.5775 0 1 + 22655 10904 14424 14480 26287 26287 0.11161805096503485 PALGRKKP 8 Unmodified _PALGRKKP_ 0 0 0 REV__nc|ENSG00000101596|A6NHR9-2|SMCHD1 REV__nc|ENSG00000101596|A6NHR9-2|SMCHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 433.9035949707031 2 433.782162 865.549771 NaN NaN NaN NaN NaN NaN NaN 50.736 1 50.736 50.236 51.236 0 0 0 0 0.99035 1 23231 23231 2.5775 0 1 + 22656 10904 14424 14480 26288 26288 0.11161805096503485 PALGRKKP 8 Unmodified _PALGRKKP_ 0 0 0 REV__nc|ENSG00000101596|A6NHR9-2|SMCHD1 REV__nc|ENSG00000101596|A6NHR9-2|SMCHD1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.03253173828125 2 433.782162 865.549771 2.9179 0.0012657 -1.7411 -0.00075526 1.1768 0.00051049 433.78114138982556 49.132 0.32184 49.132 49.036 49.357 0 29 16 2 0 0 0 0.14267 1 22562 22562 2.5775 0 1 795140 + 22657 10904 14424 14480 26289 26289 0.11161805096503485 PALGRKKP 8 Unmodified _PALGRKKP_ 0 0 0 REV__nc|ENSG00000101596|A6NHR9-2|SMCHD1 REV__nc|ENSG00000101596|A6NHR9-2|SMCHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 433.7831115722656 2 433.782162 865.549771 NaN NaN NaN NaN NaN NaN NaN 49.408 1 49.67 49.17 50.17 0.26146 0 0 0 0.99035 1 22585 22585 2.5775 0 1 + 22658 10904 14424 14480 26290 26290 0.11161805096503485 PALGRKKP 8 Unmodified _PALGRKKP_ 0 0 0 REV__nc|ENSG00000101596|A6NHR9-2|SMCHD1 REV__nc|ENSG00000101596|A6NHR9-2|SMCHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 433.7828369140625 2 433.782162 865.549771 NaN NaN NaN NaN NaN NaN NaN 49.292 1 49.948 49.448 50.448 0.65524 0 0 0 0.99035 1 22549 22549 2.5775 0 1 + 22659 10904 14424 14480 26291 26291 0.11161805096503485 PALGRKKP 8 Unmodified _PALGRKKP_ 0 0 0 REV__nc|ENSG00000101596|A6NHR9-2|SMCHD1 REV__nc|ENSG00000101596|A6NHR9-2|SMCHD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 433.782162 865.549771 3.2094 0.0013922 -0.46588 -0.00020209 2.7435 0.0011901 433.78137118956244 48.551 0.21936 49.206 49.152 49.371 0.65524 0.1595 0.00096003 NaN 2.5775 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 358780 + 22660 10904 14424 14480 0.11161805096503485 PALGRRFLMLL 11 Unmodified _PALGRRFLMLL_ 0 0 0 REV__ENST00000475858.1_1_10:14563191-14564038:-|nuORF REV__ENST00000475858.1_1_10:14563191-14564038:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.0194091796875 2 643.891918 1285.76928 NaN NaN NaN NaN NaN NaN NaN 86.126 1 86.126 85.626 86.626 0 0 0 0 1.0057 1 44064 44064 3.2813 0.54611 1 + 22661 16645 14425 14481 26292 26292 0.1378286799269972 PALHKFRKEVW 11 Unmodified _PALHKFRKEVW_ 0 0 0 ENST00000373954.10_1_1:28060591-28060642:+|nuORF ENST00000373954.10_1_1:28060591-28060642:+|nuORF ENST00000373954.10_1_1:28060591-28060642:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 705.902587890625 2 705.903871 1409.79319 NaN NaN NaN NaN NaN NaN NaN 60.818 1 60.818 60.318 61.318 0 0 0 0 1.0057 1 28313 28313 3.2813 0 1 22662 7373 14426 14482 26293 26293 0.10468424750729355 PALHRCTVPR 10 Unmodified _PALHRCTVPR_ 0 0 0 REV__ENST00000427574.6_1_11:76156052-76156124:+|nuORF REV__ENST00000427574.6_1_11:76156052-76156124:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.3212890625 2 575.319117 1148.62368 NaN NaN NaN NaN NaN NaN NaN 100.92 1 100.92 100.42 101.42 0 0 0 0 0.99733 1 55770 55770 3.9444 0.3479 1 + 22663 16229 14427 14483 26294 26294 0.05531405196529704 PALIILILLRK 11 Unmodified _PALIILILLRK_ 0 0 0 ENSG00000084453|ENST00000683939|SLCO1A2 ENSG00000084453|ENST00000683939|SLCO1A2 ENSG00000084453|ENST00000683939|SLCO1A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 631.9519653320312 2 631.949759 1261.88496 NaN NaN NaN NaN NaN NaN NaN 77.048 1 77.711 77.211 78.211 0.66303 0 0 0 1.0057 1 35504 35504 3.2813 2.9743 1 22664 956 14428 14484 26295 26295 0.2644971511519998 PALILILKR 9 Unmodified _PALILILKR_ 0 0 0 nc|ENSG00000144406|Q8N2C7-7|UNC80;nc|ENSG00000144406|Q8N2C7|UNC80;ENSG00000144406|ENST00000673920|UNC80;nc|ENSG00000144406|Q8N2C7-5|UNC80;nc|ENSG00000144406|Q8N2C7-2|UNC80;nc|ENSG00000144406|Q8N2C7-4|UNC80;nc|ENSG00000144406|Q8N2C7-6|UNC80;ENST00000489023.5_1_2:210693994-210832362:+|nuORF nc|ENSG00000144406|Q8N2C7-7|UNC80 nc|ENSG00000144406|Q8N2C7-7|UNC80 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.27392578125 2 518.865695 1035.71684 NaN NaN NaN NaN NaN NaN NaN 71.459 1 71.459 70.959 71.959 0 0 0 0 0.90511 1 34736 34736 2.3027 0.4585 1 22665 3424 14429 14485 26296 26296 0.20040652921420588 PALILILKRL 10 Unmodified _PALILILKRL_ 0 0 0 nc|ENSG00000144406|Q8N2C7-7|UNC80;nc|ENSG00000144406|Q8N2C7|UNC80;ENSG00000144406|ENST00000673920|UNC80;nc|ENSG00000144406|Q8N2C7-5|UNC80;nc|ENSG00000144406|Q8N2C7-2|UNC80;nc|ENSG00000144406|Q8N2C7-4|UNC80;nc|ENSG00000144406|Q8N2C7-6|UNC80;ENST00000489023.5_1_2:210693994-210832362:+|nuORF nc|ENSG00000144406|Q8N2C7-7|UNC80 nc|ENSG00000144406|Q8N2C7-7|UNC80 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.4057006835938 2 575.407727 1148.8009 NaN NaN NaN NaN NaN NaN NaN 64.898 1 64.898 64.398 65.398 0 0 0 0 0.99983 1 30834 30834 1.8442 0.36234 1 22666 3424 14430 14486 26297 26297 0.23245184018310283 PALILILKRL 10 Unmodified _PALILILKRL_ 0 0 0 nc|ENSG00000144406|Q8N2C7-7|UNC80;nc|ENSG00000144406|Q8N2C7|UNC80;ENSG00000144406|ENST00000673920|UNC80;nc|ENSG00000144406|Q8N2C7-5|UNC80;nc|ENSG00000144406|Q8N2C7-2|UNC80;nc|ENSG00000144406|Q8N2C7-4|UNC80;nc|ENSG00000144406|Q8N2C7-6|UNC80;ENST00000489023.5_1_2:210693994-210832362:+|nuORF nc|ENSG00000144406|Q8N2C7-7|UNC80 nc|ENSG00000144406|Q8N2C7-7|UNC80 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.4166259765625 2 575.407727 1148.8009 NaN NaN NaN NaN NaN NaN NaN 67.478 1 67.478 66.978 67.978 0 0 0 0 0.99983 1 32379 32379 1.8442 1.4435 1 22667 3424 14430 14486 26298 26298 0.23245184018310283 PALILILKRL 10 Unmodified _PALILILKRL_ 0 0 0 nc|ENSG00000144406|Q8N2C7-7|UNC80;nc|ENSG00000144406|Q8N2C7|UNC80;ENSG00000144406|ENST00000673920|UNC80;nc|ENSG00000144406|Q8N2C7-5|UNC80;nc|ENSG00000144406|Q8N2C7-2|UNC80;nc|ENSG00000144406|Q8N2C7-4|UNC80;nc|ENSG00000144406|Q8N2C7-6|UNC80;ENST00000489023.5_1_2:210693994-210832362:+|nuORF nc|ENSG00000144406|Q8N2C7-7|UNC80 nc|ENSG00000144406|Q8N2C7-7|UNC80 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.4088134765625 2 575.407727 1148.8009 NaN NaN NaN NaN NaN NaN NaN 93.988 1 94.074 93.574 94.574 0.086212 0 0 0 0.99983 1 49352 49352 1.8442 1.4435 1 22668 3424 14430 14486 26299 26299 0.23245184018310283 PALIPREK 8 Unmodified _PALIPREK_ 0 0 0 nc|ENSG00000196141|Q9NUQ6-2|SPATS2L;ENSG00000196141|ENST00000409140|SPATS2L;nc|ENSG00000196141|Q9NUQ6-4|SPATS2L;nc|ENSG00000196141|Q9NUQ6-3|SPATS2L nc|ENSG00000196141|Q9NUQ6-2|SPATS2L nc|ENSG00000196141|Q9NUQ6-2|SPATS2L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.5279846191406 3 308.527277 922.560001 NaN NaN NaN NaN NaN NaN NaN 13.391 1 14.033 13.533 14.533 0.64272 0 0 0 0.967 1 6015 6015 5.7319 0 1 22669 5722 14431 14487 26300 26300 0.09562368031083679 PALIRQNGIRR 11 Unmodified _PALIRQNGIRR_ 0 0 0 ENSG00000175664|ENST00000380473|TEX26 ENSG00000175664|ENST00000380473|TEX26 ENSG00000175664|ENST00000380473|TEX26 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 647.8317260742188 2 647.396744 1292.77894 NaN NaN NaN NaN NaN NaN NaN 75.052 1 75.716 75.216 76.216 0.6635 0 0 0 1.0034 1 36328 36328 6.2058 0.9089 1 22670 5042 14432 14488 26301 26301 0.14425772322442754 PALIRVMPI 9 Unmodified _PALIRVMPI_ 0 0 0 REV__nc|ENSG00000161649|Q6UXG3-3|CD300LG REV__nc|ENSG00000161649|Q6UXG3-3|CD300LG MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.4241638183594 2 505.31498 1008.61541 NaN NaN NaN NaN NaN NaN NaN 73.252 1 73.511 73.011 74.011 0.25876 0 0 0 0.72654 1 33642 33642 11.64 5.9084 1 + 22671 12915 14433 14489 26302 26302 0.11144458227204268 PALIVYLVVSK 11 Unmodified _PALIVYLVVSK_ 0 0 0 REV__ENST00000584289.5_1_17:65341859-65362635:-|nuORF REV__ENST00000584289.5_1_17:65341859-65362635:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 601.5985717773438 2 601.381374 1200.7482 NaN NaN NaN NaN NaN NaN NaN 84.378 1 84.378 83.878 84.878 0 0 0 0 1.0038 1 42709 42709 5.7319 2.1354 1 + 22672 14264 14434 14490 26303 26303 0.1558518116482901 PALKELLK 8 Unmodified _PALKELLK_ 0 0 0 nc|ENSG1000|Q9UN81|L1_ORF1;L1HS_dup1616|chr22:28663284-28669315:+|1.1217790905042195|0.2468976263073953|2.18|496.0|7|1|sense nc|ENSG1000|Q9UN81|L1_ORF1 nc|ENSG1000|Q9UN81|L1_ORF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 304.5372009277344 3 304.535661 910.585153 NaN NaN NaN NaN NaN NaN NaN 19.404 1 19.404 18.904 19.904 0 0 0 0 0.99035 1 8647 8647 0.45834 0 1 22673 9425 14435 14491 26304 26304 0.1262842283366581 PALKELLK 8 Unmodified _PALKELLK_ 0 0 0 nc|ENSG1000|Q9UN81|L1_ORF1;L1HS_dup1616|chr22:28663284-28669315:+|1.1217790905042195|0.2468976263073953|2.18|496.0|7|1|sense nc|ENSG1000|Q9UN81|L1_ORF1 nc|ENSG1000|Q9UN81|L1_ORF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.3025817871094 2 456.299853 910.585153 2.7724 0.0012651 3.4464 0.0015726 6.2189 0.0028377 456.3015411375356 37.964 0.17969 38.759 38.691 38.871 0.79552 8 5 2 0 0 0 0.7471 1 17213 17213 0.79363 0 1 319830 22674 9425 14435 14491 26305 26305 0.1262842283366581 PALKELLK 8 Unmodified _PALKELLK_ 0 0 0 nc|ENSG1000|Q9UN81|L1_ORF1;L1HS_dup1616|chr22:28663284-28669315:+|1.1217790905042195|0.2468976263073953|2.18|496.0|7|1|sense nc|ENSG1000|Q9UN81|L1_ORF1 nc|ENSG1000|Q9UN81|L1_ORF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.3025817871094 2 456.299853 910.585153 NaN NaN NaN NaN NaN NaN NaN 14.438 1 14.664 14.164 15.164 0.22622 0 0 0 0.99035 1 6345 6345 0.79363 0 1 22675 9425 14435 14491 26306 26306 0.1262842283366581 PALKLRLRF 9 Unmodified _PALKLRLRF_ 0 0 0 nc|ENSG00000112282|Q9ULK4-4|MED23;nc|ENSG00000112282|Q9ULK4-5|MED23;nc|ENSG00000112282|Q9ULK4-3|MED23;ENSG00000112282|ENST00000368068|MED23 nc|ENSG00000112282|Q9ULK4-4|MED23 nc|ENSG00000112282|Q9ULK4-4|MED23 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.366455078125 2 557.366393 1112.71823 NaN NaN NaN NaN NaN NaN NaN 92.951 1 93.598 93.098 94.098 0.64714 0 0 0 0.90511 1 42763 42763 2.3027 0 1 22676 1800 14436 14492 26307 26307 0.16638287010164277 PALKLVRHSLR 11 Unmodified _PALKLVRHSLR_ 0 0 0 ENST00000379883.2_1_9:32526189-32526261:-|nuORF ENST00000379883.2_1_9:32526189-32526261:-|nuORF ENST00000379883.2_1_9:32526189-32526261:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.517333984375 2 645.411863 1288.80917 NaN NaN NaN NaN NaN NaN NaN 86.222 1 86.253 85.753 86.753 0.030289 0 0 0 1.0071 1 43326 43326 1.4819 0 1 22677 7458 14437 14493 26308 26308 0.1763213098763572 PALLGLLLLLL 11 Unmodified _PALLGLLLLLL_ 0 0 0 REV__ENSG00000184992|ENST00000341446|BRI3BP REV__ENSG00000184992|ENST00000341446|BRI3BP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.908203125 2 574.904485 1147.79442 NaN NaN NaN NaN NaN NaN NaN 90.588 1 90.588 90.088 91.088 0 0 0 0 1.008 1 47652 47652 0.35063 0 1 + 22678 13995 14438 14494 26309 26309 0.2264324606696846 PALLGLLLLLL 11 Unmodified _PALLGLLLLLL_ 0 0 0 REV__ENSG00000184992|ENST00000341446|BRI3BP REV__ENSG00000184992|ENST00000341446|BRI3BP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.9058227539062 2 574.904485 1147.79442 NaN NaN NaN NaN NaN NaN NaN 93.706 1 93.706 93.206 94.206 0 0 0 0 1.0071 1 50084 50084 1.4819 0 1 + 22679 13995 14438 14494 26310 26310 0.2264324606696846 PALLGLLLLLL 11 Unmodified _PALLGLLLLLL_ 0 0 0 REV__ENSG00000184992|ENST00000341446|BRI3BP REV__ENSG00000184992|ENST00000341446|BRI3BP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.9051513671875 2 574.904485 1147.79442 NaN NaN NaN NaN NaN NaN NaN 94.132 1 94.218 93.718 94.718 0.086212 0 0 0 1.0071 1 49452 49452 1.4819 0 1 + 22680 13995 14438 14494 26311 26311 0.2264324606696846 PALLKVLRL 9 Unmodified _PALLKVLRL_ 0 0 0 nc|ENSG00000158163|Q8IYY4-2|DZIP1L;ENSG00000158163|ENST00000327532|DZIP1L nc|ENSG00000158163|Q8IYY4-2|DZIP1L nc|ENSG00000158163|Q8IYY4-2|DZIP1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.87835693359375 2 511.85787 1021.70119 NaN NaN NaN NaN NaN NaN NaN 61.792 1 61.792 61.292 62.292 0 0 0 0 0.90511 1 28859 28859 2.3027 0.24298 1 22681 3978 14439 14495 26312 26312 0.19120366404342803 PALLLGPKVKI 11 Unmodified _PALLLGPKVKI_ 0 0 0 REV__ENST00000237536.8_2_20:35414692-35414812:-|nuORF REV__ENST00000237536.8_2_20:35414692-35414812:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.7869873046875 2 574.891909 1147.76927 NaN NaN NaN NaN NaN NaN NaN 65.808 1 66.517 66.017 67.017 0.70891 0 0 0 1.0071 1 31150 31150 1.4819 0.95714 1 + 22682 14872 14440 14496 26313 26313 0.20129191264368274 PALLLHRRRQH 11 Unmodified _PALLLHRRRQH_ 0 0 0 ENSG00000171161|ENST00000306562|ZNF672 ENSG00000171161|ENST00000306562|ZNF672 ENSG00000171161|ENST00000306562|ZNF672 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 698.9254150390625 2 698.923461 1395.83237 NaN NaN NaN NaN NaN NaN NaN 74.24 1 74.498 73.998 74.998 0.25831 0 0 0 1.0071 1 34133 34133 1.4819 0 1 22683 4790 14441 14497 26314 26314 0.15028569824971783 PALLLLLLL 9 Unmodified _PALLLLLLL_ 0 0 0 ENSG00000167680|ENST00000586582|SEMA6B;nc|ENSG00000167680|Q9H3T3-3|SEMA6B;nc|ENSG00000134470|Q13261-9|IL15RA;nc|ENSG00000134470|Q13261-8|IL15RA;nc|ENSG00000125861|Q9GZZ7-3|GFRA4;nc|ENSG00000134470|Q13261-7|IL15RA;nc|ENSG00000134470|Q13261-6|IL15RA;nc|ENSG00000134470|Q13261-5|IL15RA;nc|ENSG00000134470|Q13261-3|IL15RA;nc|ENSG00000134470|Q13261-4|IL15RA;ENSG00000134470|ENST00000379977|IL15RA;ENSG00000125861|ENST00000290417|GFRA4;nc|ENSG00000125861|Q9GZZ7|GFRA4;ENSG00000064687|ENST00000263094|ABCA7;nc|ENSG00000064687|Q8IZY2-2|ABCA7;nc|ENSG00000087116|O95450-2|ADAMTS2;ENSG00000087116|ENST00000251582|ADAMTS2;ENSG00000149654|ENST00000537909|CDH22 ENSG00000167680|ENST00000586582|SEMA6B;ENSG00000064687|ENST00000263094|ABCA7;nc|ENSG00000087116|O95450-2|ADAMTS2;ENSG00000149654|ENST00000537909|CDH22 ENSG00000064687|ENST00000263094|ABCA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 489.85186767578125 2 489.851722 977.68889 NaN NaN NaN NaN NaN NaN NaN 61.365 1 62.104 61.604 62.604 0.7396 0 0 0 0.90511 1 28442 28442 2.3027 0 1 22684 676;4572;997;3654 14442 14498 26315 26315 0.19915329941329674 PALLLLLLLLG 11 Unmodified _PALLLLLLLLG_ 0 0 0 ENSG00000167680|ENST00000586582|SEMA6B;nc|ENSG00000167680|Q9H3T3-3|SEMA6B ENSG00000167680|ENST00000586582|SEMA6B ENSG00000167680|ENST00000586582|SEMA6B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.9896240234375 2 574.904485 1147.79442 NaN NaN NaN NaN NaN NaN NaN 82.262 1 82.262 81.762 82.762 0 0 0 0 1.0071 1 41116 41116 1.4819 0 1 22685 4572 14443 14499 26316 26316 0.22643246066945721 PALLLLLLLLG 11 Unmodified _PALLLLLLLLG_ 0 0 0 ENSG00000167680|ENST00000586582|SEMA6B;nc|ENSG00000167680|Q9H3T3-3|SEMA6B ENSG00000167680|ENST00000586582|SEMA6B ENSG00000167680|ENST00000586582|SEMA6B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.0736083984375 2 574.904485 1147.79442 NaN NaN NaN NaN NaN NaN NaN 92.168 1 92.168 91.668 92.668 0 0 0 0 1.0071 1 48902 48902 1.4819 0 1 22686 4572 14443 14499 26317 26317 0.22643246066945721 PALLLLLLLLG 11 Unmodified _PALLLLLLLLG_ 0 0 0 ENSG00000167680|ENST00000586582|SEMA6B;nc|ENSG00000167680|Q9H3T3-3|SEMA6B ENSG00000167680|ENST00000586582|SEMA6B ENSG00000167680|ENST00000586582|SEMA6B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.0243530273438 2 574.904485 1147.79442 NaN NaN NaN NaN NaN NaN NaN 67.404 1 68.106 67.606 68.606 0.70218 0 0 0 1.0071 1 32045 32045 1.4819 0 1 22687 4572 14443 14499 26318 26318 0.22643246066945721 PALLLLLLR 9 Unmodified _PALLLLLLR_ 0 0 0 ENST00000419769.6_1_10:127408273-127409798:+|nuORF ENST00000419769.6_1_10:127408273-127409798:+|nuORF ENST00000419769.6_1_10:127408273-127409798:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.35858154296875 2 511.360245 1020.70594 NaN NaN NaN NaN NaN NaN NaN 91.971 1 91.971 91.471 92.471 0 0 0 0 0.90511 1 48734 48734 2.3027 0 1 22688 7745 14444 14500 26319 26319 0.196412505471244 PALLLPVLLL 10 Unmodified _PALLLPVLLL_ 0 0 0 ENST00000518820.1_1_8:143599542-143620974:+|nuORF REV__nc|ENSG00000100767|O95428-3|PAPLN REV__nc|ENSG00000100767|O95428-3|PAPLN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.373291015625 2 531.370278 1060.726 NaN NaN NaN NaN NaN NaN NaN 94.133 1 94.764 94.264 95.264 0.63115 0 0 0 0.99983 1 43295 43295 1.8442 0 1 22689 8610 14445 14501 26320 26320 0.19807001487083653 PALLLPVLLLL 11 Unmodified _PALLLPVLLLL_ 0 0 0 ENST00000518820.1_1_8:143599542-143620974:+|nuORF REV__nc|ENSG00000100767|O95428-3|PAPLN REV__nc|ENSG00000100767|O95428-3|PAPLN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 588.2454223632812 2 587.91231 1173.81007 NaN NaN NaN NaN NaN NaN NaN 71.475 1 71.475 70.975 71.975 0 0 0 0 1.0071 1 34744 34744 1.4819 0 1 22690 8610 14446 14502 26321 26321 0.23011532583996086 PALLLPVLLLL 11 Unmodified _PALLLPVLLLL_ 0 0 0 ENST00000518820.1_1_8:143599542-143620974:+|nuORF REV__nc|ENSG00000100767|O95428-3|PAPLN REV__nc|ENSG00000100767|O95428-3|PAPLN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.734619140625 2 587.91231 1173.81007 NaN NaN NaN NaN NaN NaN NaN 85.465 1 85.465 84.965 85.965 0 0 0 0 1.0071 1 43523 43523 1.4819 0 1 22691 8610 14446 14502 26322 26322 0.23011532583996086 PALLLPVLLLL 11 Unmodified _PALLLPVLLLL_ 0 0 0 ENST00000518820.1_1_8:143599542-143620974:+|nuORF REV__nc|ENSG00000100767|O95428-3|PAPLN REV__nc|ENSG00000100767|O95428-3|PAPLN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.083251953125 2 587.91231 1173.81007 NaN NaN NaN NaN NaN NaN NaN 80.583 1 81.243 80.743 81.743 0.65998 0 0 0 1.008 1 37132 37132 0.35063 0 1 22692 8610 14446 14502 26323 26323 0.23011532583996086 PALLLRLFL 9 Unmodified _PALLLRLFL_ 0 0 0 REV__ENST00000554778.1_3_14:52118819-52156529:+|nuORF REV__ENST00000554778.1_3_14:52118819-52156529:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.1453857421875 2 528.35242 1054.69029 NaN NaN NaN NaN NaN NaN NaN 65.357 1 66.066 65.566 66.566 0.70891 0 0 0 0.90511 1 30904 30904 2.3027 0 1 + 22693 17313 14447 14503 26324 26324 0.1651296403008473 PALLLRLFLRL 11 Unmodified _PALLLRLFLRL_ 0 0 0 REV__ENST00000554778.1_3_14:52118819-52156529:+|nuORF REV__ENST00000554778.1_3_14:52118819-52156529:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 662.9437866210938 2 662.945008 1323.87546 NaN NaN NaN NaN NaN NaN NaN 82.072 1 82.156 81.656 82.656 0.084106 0 0 0 1.0071 1 40462 40462 1.4819 1.0812 1 + 22694 17313 14448 14504 26325 26325 0.22647946829692955 PALLLRLFLRL 11 Unmodified _PALLLRLFLRL_ 0 0 0 REV__ENST00000554778.1_3_14:52118819-52156529:+|nuORF REV__ENST00000554778.1_3_14:52118819-52156529:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 662.9476928710938 2 662.945008 1323.87546 NaN NaN NaN NaN NaN NaN NaN 100.12 1 100.18 99.679 100.68 0.062241 0 0 0 1.0071 1 54254 54254 1.4819 0 1 + 22695 17313 14448 14504 26326 26326 0.22647946829692955 PALLLRLLLEL 11 Unmodified _PALLLRLLLEL_ 0 0 0 REV__ENST00000264033.5_1_11:119149415-119156175:+|nuORF REV__ENST00000264033.5_1_11:119149415-119156175:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.2561645507812 2 632.423574 1262.83259 NaN NaN NaN NaN NaN NaN NaN 87.404 1 87.444 86.944 87.944 0.039955 0 0 0 1.0071 1 44244 44244 1.4819 0 1 + 22696 15008 14449 14505 26327 26327 0.21169131981628198 PALLRPSRA 9 Unmodified _PALLRPSRA_ 0 0 0 ENSG00000214279|ENST00000640237|SCART1;ENST00000488261.6_3_10:135271820-135304727:+|nuORF;ENST00000482993.6_3_10:135273418-135278483:+|nuORF ENSG00000214279|ENST00000640237|SCART1 ENSG00000214279|ENST00000640237|SCART1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.7428894042969 2 490.803626 979.592698 NaN NaN NaN NaN NaN NaN NaN 63.679 1 63.679 63.179 64.179 0 0 0 0 0.65681 1 30000 30000 13.906 1.3745 1 22697 6112 14450 14506 26328 26328 0.10208575153933452 PALLRRPRMRV 11 Unmodified _PALLRRPRMRV_ 0 0 0 ENST00000526142.5_1_11:419653-429752:-|nuORF ENST00000526142.5_1_11:419653-429752:-|nuORF ENST00000526142.5_1_11:419653-429752:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 683.140625 2 682.924615 1363.83468 NaN NaN NaN NaN NaN NaN NaN 69.01 1 69.01 68.51 69.51 0 0 0 0 1.0055 1 33272 33272 3.5965 1.9439 1 22698 8672 14451 14507 26329 26329 0.16731282238401946 PALLRRPRMRV 11 Unmodified _PALLRRPRMRV_ 0 0 0 ENST00000526142.5_1_11:419653-429752:-|nuORF ENST00000526142.5_1_11:419653-429752:-|nuORF ENST00000526142.5_1_11:419653-429752:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 455.6648254394531 3 455.618835 1363.83468 NaN NaN NaN NaN NaN NaN NaN 70.734 1 71.438 70.938 71.938 0.70386 0 0 0 1.0055 1 33918 33918 1.4551 0.44154 1 22699 8672 14451 14507 26330 26330 0.16731282238401946 PALLRRRLTDE 11 Unmodified _PALLRRRLTDE_ 0 0 0 REV__ENSG00000169905|ENST00000609928|TOR1AIP2 REV__ENSG00000169905|ENST00000609928|TOR1AIP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 670.3931884765625 2 670.393867 1338.77318 NaN NaN NaN NaN NaN NaN NaN 65.114 1 65.362 64.862 65.862 0.24803 0 0 0 1.0057 1 29830 29830 3.2813 0 1 + 22700 13406 14452 14508 26331 26331 0.11734629020111242 PALLSPQIIKW 11 Unmodified _PALLSPQIIKW_ 0 0 0 REV__ENST00000331242.11_1_7:86817536-86820299:+|nuORF REV__ENST00000331242.11_1_7:86817536-86820299:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.3312377929688 2 633.384448 1264.75434 NaN NaN NaN NaN NaN NaN NaN 79.181 1 79.181 78.681 79.681 0 0 0 0 1.0059 1 39083 39083 2.9952 1.5133 1 + 22701 15380 14453 14509 26332 26332 0.13255699396358978 PALLVLPLVV 10 Unmodified _PALLVLPLVV_ 0 0 0 ENST00000448759.1_1_1:43352960-43353698:-|nuORF ENST00000448759.1_1_1:43352960-43353698:-|nuORF ENST00000448759.1_1_1:43352960-43353698:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 345.23907470703125 3 345.238844 1032.6947 NaN NaN NaN NaN NaN NaN NaN 33.658 1 34.446 33.946 34.946 0.78795 0 0 0 1.0018 1 15235 15235 0.15932 0 1 22702 7997 14454 14510 26333 26333 0.17966428452996297 PALLWFSWV 9 Unmodified _PALLWFSWV_ 0 0 0 REV__ENST00000562235.5_1_16:67262534-67263013:+|nuORF REV__ENST00000562235.5_1_16:67262534-67263013:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.7130126953125 2 559.805303 1117.59605 NaN NaN NaN NaN NaN NaN NaN 92.007 1 92.09 91.59 92.59 0.082848 0 0 0 0.82031 1 47833 47833 8.5933 0.43775 1 + 22703 17380 14455 14511 26334 26334 0.04195825207943926 PALNTEDLRD 10 Unmodified _PALNTEDLRD_ 0 0 0 REV__nc|ENSG00000170011|Q8NFW9-5|MYRIP REV__nc|ENSG00000170011|Q8NFW9-5|MYRIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.8600769042969 3 381.859532 1142.55677 NaN NaN NaN NaN NaN NaN NaN 11.004 1 11.283 10.783 11.783 0.2792 0 0 0 1.0003 1 4777 4777 0.62683 0.063655 1 + 22704 13418 14456 14512 26335 26335 -0.008809716042605942 PALPGGVHRKA 11 Unmodified _PALPGGVHRKA_ 0 0 0 ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.8291015625 2 551.827632 1101.64071 NaN NaN NaN NaN NaN NaN NaN 96.763 1 96.84 96.34 97.34 0.076538 0 0 0 0.9645 1 51516 51516 10.074 3.3508 1 22705 936 14457 14513 26336 26336 0.09395649073985624 PALPPSCSQW 10 Unmodified _PALPPSCSQW_ 0 0 0 ENST00000380834.6_1_2:25040693-25042589:+|nuORF ENST00000380834.6_1_2:25040693-25042589:+|nuORF ENST00000380834.6_1_2:25040693-25042589:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.583740234375 2 543.257859 1084.50117 NaN NaN NaN NaN NaN NaN NaN 74.051 1 74.309 73.809 74.809 0.25876 0 0 0 0.98473 1 34033 34033 7.9102 1.187 1 22706 7473 14458 14514 26337 26337 -0.03770476325553318 PALPVLLVLL 10 Unmodified _PALPVLLVLL_ 0 0 0 REV__ENST00000225964.9_1_17:48265286-48266811:-|nuORF REV__ENST00000225964.9_1_17:48265286-48266811:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.386962890625 2 524.362453 1046.71035 NaN NaN NaN NaN NaN NaN NaN 65.23 1 65.938 65.438 66.438 0.70891 0 0 0 0.99983 1 30822 30822 1.8442 0 1 + 22707 14837 14459 14515 26338 26338 0.18886714970039975 PALQELLKE 9 Unmodified _PALQELLKE_ 0 0 0 L1PA6_dup5640|chr19:20482443-20488575:+|1.1762487912993795|0.3545951168651645|1.73|529.0|21|1|sense;L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|76|2|sense;L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|82|2|sense L1PA6_dup5640|chr19:20482443-20488575:+|1.1762487912993795|0.3545951168651645|1.73|529.0|21|1|sense L1PA6_dup5640|chr19:20482443-20488575:+|1.1762487912993795|0.3545951168651645|1.73|529.0|21|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.3053588867188 2 520.802957 1039.59136 3.3901 0.0017656 -0.21731 -0.00011317 3.1728 0.0016524 521.3040899028296 45.654 0.16314 46.48 46.375 46.538 0.82621 10 8 2 0 0 0 0.80651 1 20814 20814 7.2892 0 1 1360100 22708 9469 14460 14516 26339 26339 0.07314896274510829 PALQILLTLKY 11 Unmodified _PALQILLTLKY_ 0 0 0 ENST00000298832.13_1_14:76368543-76420835:+|nuORF ENST00000298832.13_1_14:76368543-76420835:+|nuORF ENST00000298832.13_1_14:76368543-76420835:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 636.8976440429688 2 636.899931 1271.78531 NaN NaN NaN NaN NaN NaN NaN 104.27 1 104.32 103.82 104.82 0.052994 0 0 0 1.0074 1 56464 56464 1.0715 0.10919 1 22709 6785 14461 14517 26340 26340 0.16028852710610408 PALQQPRKLRN 11 Unmodified _PALQQPRKLRN_ 0 0 0 REV__ENST00000290573.6_1_2:75119127-75119310:+|nuORF REV__ENST00000290573.6_1_2:75119127-75119310:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 660.749755859375 2 660.896577 1319.7786 NaN NaN NaN NaN NaN NaN NaN 86.158 1 86.188 85.688 86.688 0.030289 0 0 0 1.0057 1 43275 43275 3.2813 0.28607 1 + 22710 15123 14462 14518 26341 26341 0.13150352602610837 PALRFLFYMVL 11 Unmodified _PALRFLFYMVL_ 0 0 0 REV__ENSG00000160606|ENST00000292090|TLCD1 REV__ENSG00000160606|ENST00000292090|TLCD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 685.3885498046875 2 685.388677 1368.7628 NaN NaN NaN NaN NaN NaN NaN 61.807 1 62.538 62.038 63.038 0.73077 0 0 0 1.0071 1 28713 28713 1.4819 0 1 + 22711 12885 14463 14519 26342 26342 0.09316930041336491 PALRGLRRRLR 11 Unmodified _PALRGLRRRLR_ 0 0 0 ENST00000483107.5_1_22:21329983-21333988:+|nuORF ENST00000483107.5_1_22:21329983-21333988:+|nuORF ENST00000483107.5_1_22:21329983-21333988:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.8663635253906 3 455.300494 1362.87965 NaN NaN NaN NaN NaN NaN NaN 65.025 1 65.025 64.525 65.525 0 0 0 0 1.006 1 30907 30907 2.8433 1.3202 1 22712 8307 14464 14520 26343 26343 0.21272849095976198 PALRHWFSHS 10 Unmodified _PALRHWFSHS_ 0 0 0 ENSG00000182327|ENST00000331264|GLTPD2 ENSG00000182327|ENST00000331264|GLTPD2 ENSG00000182327|ENST00000331264|GLTPD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.1281127929688 2 619.314889 1236.61522 NaN NaN NaN NaN NaN NaN NaN 73.976 1 74.64 74.14 75.14 0.6644 0 0 0 0.98866 1 34040 34040 7.2892 1.0834 1 22713 5329 14465 14521 26344 26344 0.006381745515682269 PALRLHRPQWL 11 Unmodified _PALRLHRPQWL_ 0 0 0 REV__ENST00000334370.8_1_19:42838337-42839206:+|nuORF REV__ENST00000334370.8_1_19:42838337-42839206:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 693.9092407226562 2 693.909488 1385.80442 NaN NaN NaN NaN NaN NaN NaN 61.714 1 62.445 61.945 62.945 0.73077 0 0 0 1.0071 1 28661 28661 1.4819 0 1 + 22714 15406 14466 14522 26345 26345 0.1269524684487351 PALRLLDLRWI 11 Unmodified _PALRLLDLRWI_ 0 0 0 nc|ENSG00000099364|Q6PCT2-2|FBXL19;nc|ENSG00000099364|Q6PCT2-3|FBXL19;ENSG00000099364|ENST00000338343|FBXL19;nc|ENSG00000099364|Q6PCT2|FBXL19 nc|ENSG00000099364|Q6PCT2-2|FBXL19 nc|ENSG00000099364|Q6PCT2-2|FBXL19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 683.4214477539062 2 683.421897 1364.82924 NaN NaN NaN NaN NaN NaN NaN 83.794 1 83.823 83.323 84.323 0.028603 0 0 0 1.0059 1 41662 41662 2.9952 1.5133 1 22715 1142 14467 14523 26346 26346 0.16141881927592294 PALRRPLRGRP 11 Unmodified _PALRRPLRGRP_ 0 0 0 ENST00000481661.1_1_14:59931594-59931975:-|nuORF ENST00000481661.1_1_14:59931594-59931975:-|nuORF ENST00000481661.1_1_14:59931594-59931975:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 644.9087524414062 2 644.907279 1287.80001 NaN NaN NaN NaN NaN NaN NaN 45.876 1 46.703 46.203 47.203 0.82621 0 0 0 1.0071 1 20892 20892 1.4819 0 1 22716 8296 14468 14524 26347 26347 0.16761782421986027 PALRRRLLLLL 11 Unmodified _PALRRRLLLLL_ 0 0 0 LMTK2|p.L262Cfs*5|1|0.17|ENSG00000164715|chr7:98171666-98171666|C/-|frameshift_variant;ENSG00000164715|ENST00000297293|LMTK2 LMTK2|p.L262Cfs*5|1|0.17|ENSG00000164715|chr7:98171666-98171666|C/-|frameshift_variant LMTK2|p.L262Cfs*5|1|0.17|ENSG00000164715|chr7:98171666-98171666|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 667.4619750976562 2 667.461356 1332.90816 NaN NaN NaN NaN NaN NaN NaN 62.875 1 63.598 63.098 64.098 0.72236 0 0 0 1.0071 1 29394 29394 1.4819 0.28856 1 22717 4338 14469 14525 26348 26348 0.25502153952561457 PALRWYRTSCH 11 Unmodified _PALRWYRTSCH_ 0 0 0 ENSG00000100078|ENST00000215885|PLA2G3 ENSG00000100078|ENST00000215885|PLA2G3 ENSG00000100078|ENST00000215885|PLA2G3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.9009704589844 3 463.899667 1388.67717 NaN NaN NaN NaN NaN NaN NaN 78.091 1 78.652 78.152 79.152 0.56091 0 0 0 1.0071 1 37926 37926 0.50596 0.09769 1 22718 1172 14470 14526 26349 26349 -0.0016184209159746388 PALTAIGS 8 Unmodified _PALTAIGS_ 0 0 0 REV__ENST00000510890.1_1_5:102595280-102611616:+|nuORF REV__ENST00000510890.1_1_5:102595280-102611616:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.2135925292969 2 365.210704 728.406855 NaN NaN NaN NaN NaN NaN NaN 48.035 1 48.297 47.797 48.797 0.26209 0 0 0 0.99035 1 21957 21957 4.756 0 1 + 22719 16972 14471 14527 26350 26350 0.031787529146299676 PALTAIGS 8 Unmodified _PALTAIGS_ 0 0 0 REV__ENST00000510890.1_1_5:102595280-102611616:+|nuORF REV__ENST00000510890.1_1_5:102595280-102611616:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.212890625 2 365.210704 728.406855 NaN NaN NaN NaN NaN NaN NaN 53.637 1 54.302 53.802 54.802 0.6644 0 0 0 0.99035 1 24529 24529 5.2307 0 1 + 22720 16972 14471 14527 26351 26351 0.031787529146299676 PALTKKHKK 9 Unmodified _PALTKKHKK_ 0 0 0 ENSG00000114933|ENST00000403263|INO80D ENSG00000114933|ENST00000403263|INO80D ENSG00000114933|ENST00000403263|INO80D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 525.841064453125 2 525.842751 1049.67095 NaN NaN NaN NaN NaN NaN NaN 69.761 1 69.761 69.261 70.261 0 0 0 0 0.89509 1 33749 33749 4.756 2.4533 1 22721 1931 14472 14528 26352 26352 0.1481000773917458 PALTLAQPL 9 Unmodified _PALTLAQPL_ 0 0 0 nc|ENSG00000179950|Q9UHX1-4|PUF60;nc|ENSG00000179950|Q9UHX1-6|PUF60;nc|ENSG00000179950|Q9UHX1-2|PUF60;nc|ENSG00000179950|Q9UHX1-3|PUF60;nc|ENSG00000179950|Q9UHX1-5|PUF60;ENSG00000179950|ENST00000526683|PUF60 nc|ENSG00000179950|Q9UHX1-4|PUF60 nc|ENSG00000179950|Q9UHX1-4|PUF60 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.3699645996094 2 462.28166 922.548768 NaN NaN NaN NaN NaN NaN NaN 72.913 1 73.172 72.672 73.672 0.25876 0 0 0 0.89451 1 33477 33477 7.9102 0 1 22722 9767 14473 14529 26353 26353 0.0843954593693752 PALTPWFLPWL 11 Unmodified _PALTPWFLPWL_ 0 0 0 ENST00000373109.6_1_10:73822018-73822120:-|nuORF ENST00000373109.6_1_10:73822018-73822120:-|nuORF ENST00000373109.6_1_10:73822018-73822120:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.87451171875 2 670.873717 1339.73288 NaN NaN NaN NaN NaN NaN NaN 90.688 1 90.764 90.264 91.264 0.075279 0 0 0 1.0055 1 46791 46791 3.5965 2.1146 1 22723 7352 14474 14530 26354 26354 0.07660314367649335 PALVFIKH 8 Unmodified _PALVFIKH_ 0 0 0 ENST00000567020.6_2_16:2552545-2553103:+|nuORF ENST00000567020.6_2_16:2552545-2553103:+|nuORF ENST00000567020.6_2_16:2552545-2553103:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 462.76544189453125 2 462.786913 923.559273 NaN NaN NaN NaN NaN NaN NaN 67.994 1 67.994 67.494 68.494 0 0 0 0 0.91812 1 32689 32689 11.114 1.767 1 22724 9058 14475 14531 26355 26355 0.09443573382043269 PALVKKRMPD 10 Unmodified _PALVKKRMPD_ 0 0 0 ENSG00000206262|ENST00000383165|FOXL2NB ENSG00000206262|ENST00000383165|FOXL2NB ENSG00000206262|ENST00000383165|FOXL2NB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 577.8412475585938 2 577.839351 1153.66415 NaN NaN NaN NaN NaN NaN NaN 31.566 1 31.566 31.066 32.066 0 0 0 0 0.98866 1 14282 14282 7.2892 1.0834 1 22725 6070 14476 14532 26356 26356 0.09346326796276117 PALVLMELTF 10 Unmodified _PALVLMELTF_ 0 0 0 nc|ENSG00000197322|A2RUQ5|TMEM132E-DT nc|ENSG00000197322|A2RUQ5|TMEM132E-DT nc|ENSG00000197322|A2RUQ5|TMEM132E-DT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.443603515625 2 567.317386 1132.62022 NaN NaN NaN NaN NaN NaN NaN 77.318 1 77.879 77.379 78.379 0.56091 0 0 0 0.98866 1 37497 37497 7.2892 0.56607 1 22726 9804 14477 14533 26357 26357 0.059212975792888756 PALVRLLF 8 Unmodified _PALVRLLF_ 0 0 0 ENSG00000006555|ENST00000371276|TTC22 ENSG00000006555|ENST00000371276|TTC22 ENSG00000006555|ENST00000371276|TTC22 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.88739013671875 2 464.802563 927.590573 NaN NaN NaN NaN NaN NaN NaN 69.305 1 70.008 69.508 70.508 0.70302 0 0 0 0.93233 1 33160 33160 10.183 3.8293 1 22727 351 14478 14534 26358 26358 0.12388146416139989 PALWDWDYLDR 11 Unmodified _PALWDWDYLDR_ 0 0 0 nc|ENSG00000145014|Q2T9K0-4|TMEM44;ENSG00000145014|ENST00000347147|TMEM44;nc|ENSG00000145014|Q2T9K0-7|TMEM44;nc|ENSG00000145014|Q2T9K0-6|TMEM44;nc|ENSG00000145014|Q2T9K0|TMEM44 nc|ENSG00000145014|Q2T9K0-4|TMEM44 nc|ENSG00000145014|Q2T9K0-4|TMEM44 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.8970031738281 3 483.898098 1448.67246 NaN NaN NaN NaN NaN NaN NaN 88.663 1 88.915 88.415 89.415 0.25118 0 0 0 1.0082 1 40796 40796 0.094841 0 1 22728 3454 14479 14535 26359 26359 -0.033924477533901154 PALWFLAKKPW 11 Unmodified _PALWFLAKKPW_ 0 0 0 nc|ENSG00000204872|Q9UHF3|NAT8B;ENSG00000144035|ENST00000272425|NAT8 nc|ENSG00000204872|Q9UHF3|NAT8B nc|ENSG00000204872|Q9UHF3|NAT8B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 678.8954467773438 2 678.894983 1355.77541 NaN NaN NaN NaN NaN NaN NaN 49.219 1 50.046 49.546 50.546 0.82705 0 0 0 1.008 1 22422 22422 0.35063 0 1 22729 3407 14480 14536 26360 26360 0.11175709495864794 PALWRPRRQIW 11 Unmodified _PALWRPRRQIW_ 0 0 0 REV__ENST00000257749.8_2_6:90661229-90661412:-|nuORF REV__ENST00000257749.8_2_6:90661229-90661412:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 739.9295654296875 2 739.928212 1477.84187 NaN NaN NaN NaN NaN NaN NaN 43.47 1 43.47 42.97 43.97 0 0 0 0 1.008 1 19815 19815 0.35063 0 1 + 22730 14942 14481 14537 26361 26361 0.12206338110490833 PALWRPRRQIW 11 Unmodified _PALWRPRRQIW_ 0 0 0 REV__ENST00000257749.8_2_6:90661229-90661412:-|nuORF REV__ENST00000257749.8_2_6:90661229-90661412:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 739.9287109375 2 739.928212 1477.84187 NaN NaN NaN NaN NaN NaN NaN 85.889 1 85.889 85.389 86.389 0 0 0 0 1.0057 1 43863 43863 3.2813 1.4371 1 + 22731 14942 14481 14537 26362 26362 0.12206338110490833 PALWRYHGVW 10 Unmodified _PALWRYHGVW_ 0 0 0 ENST00000575882.5_2_17:52978186-52981099:+|nuORF ENST00000575882.5_2_17:52978186-52981099:+|nuORF ENST00000575882.5_2_17:52978186-52981099:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 642.4692993164062 2 642.835457 1283.65636 NaN NaN NaN NaN NaN NaN NaN 73.982 1 73.982 73.482 74.482 0 0 0 0 0.99687 1 36104 36104 4.3292 0 1 22732 9123 14482 14538 26363 26363 0.025879355910319646 PALWVLLFFLL 11 Unmodified _PALWVLLFFLL_ 0 0 0 ENSG00000135925|ENST00000258411|WNT10A ENSG00000135925|ENST00000258411|WNT10A ENSG00000135925|ENST00000258411|WNT10A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 666.4083251953125 2 666.409935 1330.80532 NaN NaN NaN NaN NaN NaN NaN 80.999 1 81.659 81.159 82.159 0.65998 0 0 0 1.0071 1 37320 37320 1.4819 0 1 22733 2912 14483 14539 26364 26364 0.15314648441221834 PALYRSYMYLF 11 Unmodified _PALYRSYMYLF_ 0 0 0 REV__ENST00000483961.6_1_5:137537116-137548843:-|nuORF REV__ENST00000483961.6_1_5:137537116-137548843:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 712.3572387695312 2 712.357573 1422.70059 NaN NaN NaN NaN NaN NaN NaN 68.377 1 69.079 68.579 69.579 0.70218 0 0 0 1.0055 1 32595 32595 3.5965 0 1 + 22734 16728 14484 14540 26365 26365 0.006151589023602355 PAMDEMTM 8 Unmodified _PAMDEMTM_ 0 0 0 REV__ENST00000576872.1_1_17:4872867-4875829:-|nuORF REV__ENST00000576872.1_1_17:4872867-4875829:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.24072265625 2 463.176832 924.339111 NaN NaN NaN NaN NaN NaN NaN 74.63 1 74.889 74.389 75.389 0.25831 0 0 0 0.99035 1 34329 34329 2.8892 0 1 + 22735 9986 14485 14541 26366 26366 -0.12608524394352116 PAMGRSRLRQ 10 Unmodified _PAMGRSRLRQ_ 0 0 0 ENST00000418310.5_1_7:73536358-73536397:+|nuORF ENST00000418310.5_1_7:73536358-73536397:+|nuORF ENST00000418310.5_1_7:73536358-73536397:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.325439453125 2 586.327473 1170.64039 NaN NaN NaN NaN NaN NaN NaN 76.317 1 76.981 76.481 77.481 0.66387 0 0 0 0.99733 1 35157 35157 3.9444 0.66309 1 22736 7729 14486 14542 26367 26367 0.061899060824543994 PAMHHQVKWFY 11 Unmodified _PAMHHQVKWFY_ 0 0 0 REV__ENSG00000185010|ENST00000360256|F8 REV__ENSG00000185010|ENST00000360256|F8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 722.3562622070312 2 722.353157 1442.69176 NaN NaN NaN NaN NaN NaN NaN 79.333 1 79.994 79.494 80.494 0.66082 0 0 0 1.0071 1 36554 36554 1.4819 0.15237 1 + 22737 13998 14487 14543 26368 26368 -0.01187769943476269 PAMKRRWRRRR 11 Unmodified _PAMKRRWRRRR_ 0 0 0 REV__nc|ENSG00000138119|Q9NZM1-2|MYOF REV__nc|ENSG00000138119|Q9NZM1-2|MYOF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.520751953125 3 523.647899 1567.92187 NaN NaN NaN NaN NaN NaN NaN 63.436 1 64.158 63.658 64.658 0.72236 0 0 0 1.0072 1 29716 29716 1.3296 1.2348 1 + 22738 12150 14488 14544 26369 26369 0.16062501232659088 PAMPDHESCCL 11 Unmodified _PAMPDHESCCL_ 0 0 0 REV__ENST00000528828.1_1_8:38133161-38137268:-|nuORF REV__ENST00000528828.1_1_8:38133161-38137268:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 601.2643432617188 2 601.735577 1201.4566 NaN NaN NaN NaN NaN NaN NaN 74.267 1 74.525 74.025 75.025 0.25831 0 0 0 1.0055 1 34147 34147 3.5965 0 1 + 22739 12510 14489 14545 26370 26370 -0.13606991525557532 PANDECSSCC 10 Unmodified _PANDECSSCC_ 0 0 0 REV__TRIM28|p.T154S|1|0.21|ENSG00000130726|chr19:58545771-58545771|C/G|missense_variant REV__TRIM28|p.T154S|1|0.21|ENSG00000130726|chr19:58545771-58545771|C/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.5726928710938 2 514.659535 1027.30452 NaN NaN NaN NaN NaN NaN NaN 69.789 1 70.492 69.992 70.992 0.70302 0 0 0 0.99983 1 33414 33414 1.8442 0 1 + 22740 18239 14490 14546 26371 26371 -0.2080439227311217 PANEYAYRHGI 11 Unmodified _PANEYAYRHGI_ 0 0 0 ENST00000529567.5_1_11:89372457-89431764:+|nuORF ENST00000529567.5_1_11:89372457-89431764:+|nuORF ENST00000529567.5_1_11:89372457-89431764:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 645.81494140625 2 645.814919 1289.61528 NaN NaN NaN NaN NaN NaN NaN 88.34 1 89.018 88.518 89.518 0.67818 0 0 0 1.0072 1 40687 40687 1.3295 0 1 22741 8700 14491 14547 26372 26372 -0.017938702391120387 PANGFLVRY 9 Unmodified _PANGFLVRY_ 0 0 0 nc|ENSG00000134369|Q8NEY1-5|NAV1;nc|ENSG00000134369|Q8NEY1-7|NAV1;nc|ENSG00000134369|Q8NEY1-4|NAV1;nc|ENSG00000134369|Q8NEY1-2|NAV1;nc|ENSG00000134369|Q8NEY1-3|NAV1;nc|ENSG00000134369|Q8NEY1|NAV1;ENSG00000134369|ENST00000685211|NAV1 nc|ENSG00000134369|Q8NEY1-5|NAV1 nc|ENSG00000134369|Q8NEY1-5|NAV1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.760498046875 2 518.782359 1035.55016 2.7957 0.0014503 2.7189 0.0014105 5.5146 0.0028609 518.7817215572668 67.892 0.02977 68.594 68.579 68.608 0.70218 5 3 2 0 0 0 0.098886 1 32320 32320 12.532 0.89125 1 949850 22742 2806 14492 14548 26373 26373 0.03381180025712638 PANKKRKRK 9 Unmodified _PANKKRKRK_ 0 0 0 REV__ENSG00000128564|ENST00000249330|VGF REV__ENSG00000128564|ENST00000249330|VGF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.3709716796875 2 563.369998 1124.72544 NaN NaN NaN NaN NaN NaN NaN 76.352 1 77.016 76.516 77.516 0.66387 0 0 0 0.90511 1 35173 35173 2.3027 0 1 + 22743 11763 14493 14549 26374 26374 0.16807019610587304 PANLKVYY 8 Unmodified _PANLKVYY_ 0 0 0 REV__ENSG00000104369|ENST00000342232|JPH1 REV__ENSG00000104369|ENST00000342232|JPH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.5621337890625 2 484.26601 966.517468 NaN NaN NaN NaN NaN NaN NaN 93.294 1 93.549 93.049 94.049 0.25497 0 0 0 0.99035 1 42879 42879 5.7604 0 1 + 22744 10991 14494 14550 26375 26375 0.03286972902844809 PANLPALLLLL 11 Unmodified _PANLPALLLLL_ 0 0 0 ENSG00000064687|ENST00000263094|ABCA7;nc|ENSG00000064687|Q8IZY2-2|ABCA7 ENSG00000064687|ENST00000263094|ABCA7 ENSG00000064687|ENST00000263094|ABCA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 574.3784790039062 2 574.376092 1146.73763 NaN NaN NaN NaN NaN NaN NaN 84.64 1 85.306 84.806 85.806 0.66566 0 0 0 1.0071 1 38985 38985 1.4819 0 1 22745 676 14495 14551 26376 26376 0.17013198510426264 PANLPNIKREL 11 Unmodified _PANLPNIKREL_ 0 0 0 nc|ENSG00000187098|O75030-11|MITF;nc|ENSG00000187098|O75030-10|MITF;MITF|p.R391Nfs*29|1|0.06|ENSG00000187098|chr3:69959412-69959413|-/AT|frameshift_variant;MITF|p.I392Kfs*28|1|0.04|ENSG00000187098|chr3:69959413-69959414|-/AA|frameshift_variant;nc|ENSG00000187098|O75030-9|MITF;nc|ENSG00000187098|O75030-12|MITF;nc|ENSG00000187098|O75030-4|MITF;nc|ENSG00000187098|O75030-3|MITF;nc|ENSG00000187098|O75030-8|MITF;nc|ENSG00000187098|O75030-7|MITF;nc|ENSG00000187098|O75030-6|MITF;nc|ENSG00000187098|O75030-2|MITF;nc|ENSG00000187098|O75030-5|MITF;ENSG00000187098|ENST00000352241|MITF nc|ENSG00000187098|O75030-11|MITF nc|ENSG00000187098|O75030-11|MITF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.6890869140625 2 632.872237 1263.72992 NaN NaN NaN NaN NaN NaN NaN 49.13 1 49.957 49.457 50.457 0.82705 0 0 0 0.97845 1 22382 22382 8.7454 3.0136 1 22746 5600 14496 14552 26377 26377 0.10860439242856046 PANRLREEHI 10 Unmodified _PANRLREEHI_ 0 0 0 COL6A6|p.L2209Sfs*21|1|0.66|ENSG00000206384|chr3:130675228-130675228|C/-|frameshift_variant;ENSG00000206384|ENST00000358511|COL6A6;COL6A6|p.E555G|1|0.22|ENSG00000206384|chr3:130567083-130567083|A/G|missense_variant;COL6A6|p.K600Tfs*2|1|0.28|ENSG00000206384|chr3:130567216-130567219|GAAA/-|frameshift_variant;COL6A6|p.Y853Efs*25|1|0.05|ENSG00000206384|chr3:130570971-130570972|-/AGAGGAAGAGAGAG|frameshift_variant;COL6A6|p.D1116Afs*10|1|0.29|ENSG00000206384|chr3:130574325-130574325|A/-|frameshift_variant;COL6A6|p.V1243*|1|0.27|ENSG00000206384|chr3:130581740-130581740|G/-|frameshift_variant;nc|ENSG00000206384|A6NMZ7-2|COL6A6 COL6A6|p.L2209Sfs*21|1|0.66|ENSG00000206384|chr3:130675228-130675228|C/-|frameshift_variant COL6A6|p.L2209Sfs*21|1|0.66|ENSG00000206384|chr3:130675228-130675228|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 617.834228515625 2 617.836185 1233.65782 NaN NaN NaN NaN NaN NaN NaN 82.606 1 82.651 82.151 83.151 0.045006 0 0 0 0.99733 1 40810 40810 3.9444 0 1 22747 206 14497 14553 26378 26378 0.05033524889131513 PANSQKASPKK 11 Unmodified _PANSQKASPKK_ 0 0 0 ENSG00000170684|ENST00000303809|ZNF296 ENSG00000170684|ENST00000303809|ZNF296 ENSG00000170684|ENST00000303809|ZNF296 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.3257446289062 2 578.327662 1154.64077 NaN NaN NaN NaN NaN NaN NaN 72.671 1 72.671 72.171 73.171 0 0 0 0 1.0044 1 35357 35357 4.897 0.56777 1 22748 4765 14498 14554 26379 26379 0.06963604283305358 PANSSDAPFIR 11 Unmodified _PANSSDAPFIR_ 0 0 0 ENSG00000124302|ENST00000650847|CHST8 ENSG00000124302|ENST00000650847|CHST8 ENSG00000124302|ENST00000650847|CHST8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.7939453125 2 587.796195 1173.57784 NaN NaN NaN NaN NaN NaN NaN 73.429 1 74.128 73.628 74.628 0.69881 0 0 0 1.0034 1 35409 35409 6.2058 0.47393 1 22749 2355 14499 14555 26380 26380 -0.00200961504742736 PAPAAASPLLL 11 Unmodified _PAPAAASPLLL_ 0 0 0 ENSG00000162337|ENST00000294304|LRP5 ENSG00000162337|ENST00000294304|LRP5 ENSG00000162337|ENST00000294304|LRP5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 511.1914367675781 2 510.808042 1019.60153 2.5785 0.0013171 -0.64835 -0.00033118 1.9301 0.00098592 510.8078706781436 64.695 0.17609 65.411 65.303 65.479 0.71521 29 21 2 0 0 0 0.13235 1 30434 30434 13.906 0.86358 1 1219200 22750 4128 14500 14556 26381 26381 0.09251503999769284 PAPAADQAPR 10 Unmodified _PAPAADQAPR_ 0 0 0 ENSG00000266265|ENST00000583337|KLF14 ENSG00000266265|ENST00000583337|KLF14 ENSG00000266265|ENST00000583337|KLF14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.2595520019531 2 497.259248 992.503943 NaN NaN NaN NaN NaN NaN NaN 74.628 1 74.886 74.386 75.386 0.25831 0 0 0 0.98473 1 34328 34328 7.9102 0 1 22751 6323 14501 14557 26382 26382 0.007391151236106452 PAPAAEDDSS 10 Unmodified _PAPAAEDDSS_ 0 0 0 REV__ENSG00000182095|ENST00000430969|TNRC18 REV__ENSG00000182095|ENST00000430969|TNRC18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.29718017578125 2 480.201261 958.38797 NaN NaN NaN NaN NaN NaN NaN 63.968 1 63.968 63.468 64.468 0 0 0 0 0.95544 1 30192 30192 12.532 6.1774 1 + 22752 13870 14502 14558 26383 26383 -0.09288873237755979 PAPACCPPECC 11 Unmodified _PAPACCPPECC_ 0 0 0 REV__ENSG00000189169|ENST00000400365|KRTAP10-12 REV__ENSG00000189169|ENST00000400365|KRTAP10-12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.9703369140625 2 545.694866 1089.37518 NaN NaN NaN NaN NaN NaN NaN 72.816 1 73.48 72.98 73.98 0.66398 0 0 0 1.0055 1 33432 33432 3.5965 0.70727 1 + + 22753 10085 14503 14559 26384 26384 -0.16593390489151716 PAPCPFLALSL 11 Unmodified _PAPCPFLALSL_ 0 0 0 ENST00000227525.7_1_11:60689633-60689834:+|nuORF ENST00000227525.7_1_11:60689633-60689834:+|nuORF ENST00000227525.7_1_11:60689633-60689834:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.3131713867188 2 564.809728 1127.6049 2.7852 0.0015731 1.9162 0.0010823 4.7014 0.0026554 564.8106709094222 79.226 0.28526 79.69 79.644 79.93 0.4642 36 24 2 0 0 0 0.13295 1 38774 38774 3.2813 2.088 1 2160200 22754 6431 14504 14560 26385 26385 0.046204307820971735 PAPELLKRLR 10 Unmodified _PAPELLKRLR_ 0 0 0 REV__ENST00000379619.5_1_2:28638002-28638248:+|nuORF REV__ENST00000379619.5_1_2:28638002-28638248:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.8777465820312 2 596.879865 1191.74518 NaN NaN NaN NaN NaN NaN NaN 94.407 1 94.407 93.907 94.907 0 0 0 0 0.99983 1 50633 50633 1.8442 0 1 + 22755 15868 14505 14561 26386 26386 0.15697350830691903 PAPFLYHWKEE 11 Unmodified _PAPFLYHWKEE_ 0 0 0 REV__ENSG00000101074|ENST00000217043|R3HDML REV__ENSG00000101074|ENST00000217043|R3HDML MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 708.8517456054688 2 708.85097 1415.68739 NaN NaN NaN NaN NaN NaN NaN 51.368 1 51.368 50.868 51.868 0 0 0 0 1.0071 1 23518 23518 1.4819 0 1 + 22756 10864 14506 14562 26387 26387 -0.003829558854249626 PAPFRILK 8 Unmodified _PAPFRILK_ 0 0 0 ENST00000512327.1_1_3:141105285-141105423:+|nuORF ENST00000512327.1_1_3:141105285-141105423:+|nuORF ENST00000512327.1_1_3:141105285-141105423:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 471.0478820800781 2 471.300188 940.585822 2.2809 0.001075 1.5947 0.00075158 3.8756 0.0018266 471.30065183609946 66.91 0.037926 66.91 66.878 66.916 0 5 4 2 0 0 0 0.14225 1 32011 32011 2.5775 0 1 844360 22757 8570 14507 14563 26388 26388 0.11315262273376447 PAPGTRCWTWS 11 Unmodified _PAPGTRCWTWS_ 0 0 0 REV__ENSG00000042781|ENST00000307340|USH2A REV__ENSG00000042781|ENST00000307340|USH2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 631.29931640625 2 631.292765 1260.57098 NaN NaN NaN NaN NaN NaN NaN 76.879 1 76.879 76.379 77.379 0 0 0 0 1.0038 1 37686 37686 5.7319 1.4026 1 + 22758 10324 14508 14564 26389 26389 -0.04888597656940874 PAPHAGGP 8 Unmodified _PAPHAGGP_ 0 0 0 ENST00000313863.10_2_17:56283353-56285296:-|nuORF ENST00000313863.10_2_17:56283353-56285296:-|nuORF ENST00000313863.10_2_17:56283353-56285296:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 703.3573608398438 1 703.3522 702.344923 4.0916 0.0028778 0.84536 0.00059459 4.937 0.0034724 703.3528224117324 84.614 0.76183 85.279 84.918 85.68 0.66566 105 43 3 0 0 0 0.7471 1 38858 38858 0.79363 0 1 1952500 22759 6890 14509 14565 26390 26390 -0.018155537138454747 PAPHAGGP 8 Unmodified _PAPHAGGP_ 0 0 0 ENST00000313863.10_2_17:56283353-56285296:-|nuORF ENST00000313863.10_2_17:56283353-56285296:-|nuORF ENST00000313863.10_2_17:56283353-56285296:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 703.3522 702.344923 3.8344 0.0026969 1.1735 0.0008254 5.0079 0.0035223 703.3529166665552 84.635 0.79831 84.882 84.584 85.382 0.24757 -0.19847 0.00014047 NaN 0.79363 74 44 2 NaN NaN NaN NaN 0 NaN NaN 0 1738300 22760 6890 14509 14565 -0.018155537138454747 PAPHWVRRRVR 11 Unmodified _PAPHWVRRRVR_ 0 0 0 ENST00000225964.9_1_17:48262093-48262309:-|nuORF ENST00000225964.9_1_17:48262093-48262309:-|nuORF ENST00000225964.9_1_17:48262093-48262309:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 715.4536743164062 2 715.423628 1428.8327 NaN NaN NaN NaN NaN NaN NaN 100.23 1 100.82 100.32 101.32 0.59717 0 0 0 1.008 1 46386 46386 0.35063 0 1 22761 6427 14510 14566 26391 26391 0.13543989544814394 PAPIRRRQHRL 11 Unmodified _PAPIRRRQHRL_ 0 0 0 REV__ENST00000270502.6_1_19:11039810-11040236:+|nuORF REV__ENST00000270502.6_1_19:11039810-11040236:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 700.4267578125 2 700.42891 1398.84327 NaN NaN NaN NaN NaN NaN NaN 61.738 1 61.738 61.238 62.238 0 0 0 0 1.0071 1 28836 28836 1.4819 0.51963 1 + 22762 15060 14511 14567 26392 26392 0.15979972199261283 PAPIVVPYV 9 Unmodified _PAPIVVPYV_ 0 0 0 REV__ENST00000541264.2_2_14:59108324-59108435:+|nuORF REV__ENST00000541264.2_2_14:59108324-59108435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.7853088378906 2 477.786579 953.558604 NaN NaN NaN NaN NaN NaN NaN 90.177 1 90.241 89.741 90.741 0.064346 0 0 0 0.89315 1 46401 46401 5.2307 0.47466 1 + 22763 17219 14512 14568 26393 26393 0.07996733942331957 PAPKILPVLLL 11 Unmodified _PAPKILPVLLL_ 0 0 0 REV__ENSG00000106809|ENST00000375561|OGN REV__ENSG00000106809|ENST00000375561|OGN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.0723266601562 2 587.40211 1172.78967 NaN NaN NaN NaN NaN NaN NaN 96.303 1 96.581 96.081 97.081 0.27778 0 0 0 1.0071 1 44248 44248 1.4819 1.0236 1 + 22764 11100 14513 14569 26394 26394 0.2101836192416613 PAPKIPVLKRP 11 Unmodified _PAPKIPVLKRP_ 0 0 0 REV__nc|ENSG00000167182|Q02086-2|SP2 REV__nc|ENSG00000167182|Q02086-2|SP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 608.8003540039062 2 608.400433 1214.78631 NaN NaN NaN NaN NaN NaN NaN 82.268 1 82.268 81.768 82.768 0 0 0 0 1.0071 1 41121 41121 1.4819 0 1 + 22765 13278 14514 14570 26395 26395 0.18751111870165005 PAPKKKRHK 9 Unmodified _PAPKKKRHK_ 0 0 0 REV__L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|24|1|sense REV__L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|24|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.819580078125 2 545.353817 1088.69308 NaN NaN NaN NaN NaN NaN NaN 86.059 1 86.73 86.23 87.23 0.67061 0 0 0 0.90511 1 39630 39630 2.3027 0 1 + 22766 17796 14515 14571 26396 26396 0.15228232207596193 PAPKKRKRKL 10 Unmodified _PAPKKRKRKL_ 0 0 0 ENST00000409365.5_2_2:183291437-183291587:-|nuORF ENST00000409365.5_2_2:183291437-183291587:-|nuORF ENST00000409365.5_2_2:183291437-183291587:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.0906982421875 2 611.416949 1220.81934 NaN NaN NaN NaN NaN NaN NaN 106.43 1 107.03 106.53 107.53 0.60074 0 0 0 0.99983 1 49139 49139 1.8442 0.36234 1 22767 7658 14516 14572 26397 26397 0.21776738712878796 PAPLGKNSVKC 11 Unmodified _PAPLGKNSVKC_ 0 0 0 REV__nc|ENSG00000211893|P01859-1|IGHG2 REV__nc|ENSG00000211893|P01859-1|IGHG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.3079223632812 2 557.307884 1112.60121 NaN NaN NaN NaN NaN NaN NaN 47.353 1 47.353 46.853 47.853 0 0 0 0 1.0041 1 21677 21677 5.2969 1.3525 1 + 22768 18128 14517 14573 26398 26398 0.049417610082628016 PAPLLAPLLRI 11 Unmodified _PAPLLAPLLRI_ 0 0 0 REV__ENST00000598968.5_1_19:7992074-7996707:-|nuORF REV__ENST00000598968.5_1_19:7992074-7996707:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.3897094726562 2 587.389534 1172.76451 NaN NaN NaN NaN NaN NaN NaN 67.378 1 68.08 67.58 68.58 0.70218 0 0 0 1.0034 1 32028 32028 6.2058 2.2614 1 + 22769 17625 14518 14574 26399 26399 0.1850430712158868 PAPLLFPRVRI 11 Unmodified _PAPLLFPRVRI_ 0 0 0 REV__ENST00000463745.5_1_3:97483720-97486940:+|nuORF REV__ENST00000463745.5_1_3:97483720-97486940:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 639.9047241210938 2 639.905882 1277.79721 NaN NaN NaN NaN NaN NaN NaN 80.938 1 81.598 81.098 82.098 0.65998 0 0 0 1.0055 1 37292 37292 3.5965 0 1 + 22770 16517 14519 14575 26400 26400 0.16942514244442464 PAPLLLLLLLL 11 Unmodified _PAPLLLLLLLL_ 0 0 0 REV__ENSG00000137161|ENST00000372836|CNPY3 REV__ENSG00000137161|ENST00000372836|CNPY3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 594.9215087890625 2 594.920135 1187.82572 NaN NaN NaN NaN NaN NaN NaN 79.849 1 80.098 79.598 80.598 0.24947 0 0 0 1.008 1 36766 36766 0.35063 0 1 + 22771 12101 14520 14576 26401 26401 0.23931819101039764 PAPLRARRRRR 11 Unmodified _PAPLRARRRRR_ 0 0 0 REV__nc|ENSG00000288675|I0J062|PANO1 REV__nc|ENSG00000288675|I0J062|PANO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 468.98419189453125 3 468.967627 1403.88105 NaN NaN NaN NaN NaN NaN NaN 64.202 1 64.917 64.417 65.417 0.71521 0 0 0 1.0079 1 30225 30225 0.50596 0.09769 1 + 22772 18171 14521 14577 26402 26402 0.19526483184699828 PAPLRRRRP 9 Unmodified _PAPLRRRRP_ 0 0 0 REV__ENST00000331113.8_1_7:119913860-119913944:+|nuORF REV__ENST00000331113.8_1_7:119913860-119913944:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.8410034179688 2 559.854516 1117.69448 NaN NaN NaN NaN NaN NaN NaN 70.713 1 70.713 70.213 71.213 0 0 0 0 0.82031 1 34345 34345 8.5933 0 1 + 22773 15377 14522 14578 26403 26403 0.1403386629635861 PAPMRKKK 8 Unmodified _PAPMRKKK_ 0 0 0 nc|ENSG00000182013|Q86V59-2|PNMA8A;ENSG00000182013|ENST00000313683|PNMA8A nc|ENSG00000182013|Q86V59-2|PNMA8A nc|ENSG00000182013|Q86V59-2|PNMA8A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.5983581542969 2 478.297122 954.579691 NaN NaN NaN NaN NaN NaN NaN 62.521 1 63.252 62.752 63.752 0.73077 0 0 0 0.99035 1 29162 29162 6.3541 0 1 22774 5307 14523 14579 26404 26404 0.10058420770201337 PAPPRRKRRQT 11 Unmodified _PAPPRRKRRQT_ 0 0 0 ENSG00000196569|ENST00000421865|LAMA2 ENSG00000196569|ENST00000421865|LAMA2 ENSG00000196569|ENST00000421865|LAMA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.94287109375 3 454.944488 1361.81163 NaN NaN NaN NaN NaN NaN NaN 76.573 1 76.828 76.328 77.328 0.25533 0 0 0 1.0071 1 35258 35258 1.4551 0.12547 1 22775 5757 14524 14580 26405 26405 0.14519979445299214 PAPPSHTLWGR 11 Unmodified _PAPPSHTLWGR_ 0 0 0 ENST00000495645.5_1_7:150932340-150932418:+|nuORF ENST00000495645.5_1_7:150932340-150932418:+|nuORF ENST00000495645.5_1_7:150932340-150932418:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 610.0735473632812 2 609.822547 1217.63054 NaN NaN NaN NaN NaN NaN NaN 16.98 1 17.181 16.681 17.681 0.20057 0 0 0 1.0073 1 7514 7514 1.1933 0.59184 1 22776 8436 14525 14581 26406 26406 0.030430413487238184 PAPQGTEGVLV 11 Unmodified _PAPQGTEGVLV_ 0 0 0 REV__ENST00000474658.6_1_9:32989779-33001570:-|nuORF REV__ENST00000474658.6_1_9:32989779-33001570:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.2925415039062 2 534.290214 1066.56587 NaN NaN NaN NaN NaN NaN NaN 89.569 1 89.569 89.069 90.069 0 0 0 0 0.97175 1 46821 46821 9.3831 0.78985 1 + 22777 16487 14526 14582 26407 26407 0.03525421752101465 PAPQWTWRRR 10 Unmodified _PAPQWTWRRR_ 0 0 0 ENST00000400913.5_1_1:6535562-6545948:-|nuORF;ENST00000537245.5_1_1:6535562-6556614:-|nuORF ENST00000400913.5_1_1:6535562-6545948:-|nuORF ENST00000400913.5_1_1:6535562-6545948:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.3690795898438 2 677.367987 1352.72142 NaN NaN NaN NaN NaN NaN NaN 75.471 1 76.134 75.634 76.634 0.6635 0 0 0 0.99983 1 36542 36542 1.8442 0.36234 1 22778 7611 14527 14583 26408 26408 0.05916930116836738 PAPRRIFQERL 11 Unmodified _PAPRRIFQERL_ 0 0 0 ENSG00000035720|ENST00000265404|STAP1 ENSG00000035720|ENST00000265404|STAP1 ENSG00000035720|ENST00000265404|STAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 691.9058837890625 2 691.904402 1381.79425 NaN NaN NaN NaN NaN NaN NaN 84.058 1 84.72 84.22 85.22 0.66219 0 0 0 1.0059 1 38719 38719 2.9952 1.5133 1 22779 511 14528 14584 26409 26409 0.11862639119658525 PAPRRRLRP 9 Unmodified _PAPRRRLRP_ 0 0 0 ENST00000479589.5_1_1:212606267-212617713:+|nuORF;ENSG00000117691|ENST00000366988|NENF ENST00000479589.5_1_1:212606267-212617713:+|nuORF ENST00000479589.5_1_1:212606267-212617713:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.6749267578125 2 559.854516 1117.69448 NaN NaN NaN NaN NaN NaN NaN 75.941 1 76.579 76.079 77.079 0.63718 0 0 0 0.90511 1 36788 36788 2.3027 0 1 22780 2089 14529 14585 26410 26410 0.14033866296335873 PAPRRRRWRRR 11 Unmodified _PAPRRRRWRRR_ 0 0 0 REV__ENST00000556735.1_1_14:51134724-51134856:-|nuORF REV__ENST00000556735.1_1_14:51134724-51134856:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 781.974365234375 2 781.977425 1561.9403 NaN NaN NaN NaN NaN NaN NaN 65.972 1 65.972 65.472 66.472 0 0 0 0 1.0071 1 31466 31466 1.4819 1.1749 1 + 22781 17329 14530 14586 26411 26411 0.1818037919888411 PAPRRRRWRRR 11 Unmodified _PAPRRRRWRRR_ 0 0 0 REV__ENST00000556735.1_1_14:51134724-51134856:-|nuORF REV__ENST00000556735.1_1_14:51134724-51134856:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 781.9755249023438 2 781.977425 1561.9403 NaN NaN NaN NaN NaN NaN NaN 82.235 1 82.319 81.819 82.819 0.084106 0 0 0 1.0071 1 40585 40585 1.4819 1.4819 1 + 22782 17329 14530 14586 26412 26412 0.1818037919888411 PAPRSRRPPRR 11 Unmodified _PAPRSRRPPRR_ 0 0 0 ENST00000434578.6_2_1:15480274-15537010:+|nuORF;ENST00000400796.7_1_1:15480274-15541469:+|nuORF ENST00000434578.6_2_1:15480274-15537010:+|nuORF ENST00000434578.6_2_1:15480274-15537010:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 673.406494140625 2 673.405435 1344.79632 NaN NaN NaN NaN NaN NaN NaN 86.414 1 86.664 86.164 87.164 0.24974 0 0 0 1.0057 1 39770 39770 3.2813 0.28607 1 22783 7609 14531 14587 26413 26413 0.13771112648100825 PAPVALLPNAI 11 Unmodified _PAPVALLPNAI_ 0 0 0 REV__nc|ENSG00000148396|O15027-2|SEC16A REV__nc|ENSG00000148396|O15027-2|SEC16A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.774169921875 2 538.329142 1074.64373 3.3462 0.0018013 2.5821 0.00139 5.9282 0.0031913 538.3295441922276 36.855 0.5577 37.485 37.214 37.771 0.62999 49 23 3 0 0 0 0.13235 1 16840 16840 19.257 6.7254 1 1235900 + 22784 12535 14532 14588 26414 26414 0.10939479408125408 PAPVLGLLLLL 11 Unmodified _PAPVLGLLLLL_ 0 0 0 ENSG00000161609|ENST00000447857|KASH5 ENSG00000161609|ENST00000447857|KASH5 ENSG00000161609|ENST00000447857|KASH5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.88037109375 2 559.88101 1117.74747 NaN NaN NaN NaN NaN NaN NaN 82.32 1 82.404 81.904 82.904 0.084106 0 0 0 1.0071 1 40646 40646 1.4819 0 1 22785 4099 14533 14589 26415 26415 0.19330386515798637 PAPWWRRRRL 10 Unmodified _PAPWWRRRRL_ 0 0 0 ENST00000392776.3_1_19:47634164-47646785:+|nuORF ENST00000392776.3_1_19:47634164-47646785:+|nuORF ENST00000392776.3_1_19:47634164-47646785:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 697.4044799804688 2 697.407447 1392.80034 NaN NaN NaN NaN NaN NaN NaN 75.54 1 76.204 75.704 76.704 0.6644 0 0 0 0.99983 1 34804 34804 1.8442 0.36234 1 22786 7521 14534 14590 26416 26416 0.11965202141800546 PAQAWDWAWN 10 Unmodified _PAQAWDWAWN_ 0 0 0 ENST00000336798.11_2_1:31345605-31346058:-|nuORF ENST00000336798.11_2_1:31345605-31346058:-|nuORF ENST00000336798.11_2_1:31345605-31346058:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 623.212890625 2 622.777805 1243.54106 NaN NaN NaN NaN NaN NaN NaN 62.356 1 63.087 62.587 63.587 0.73077 0 0 0 0.99225 1 29057 29057 6.7232 0 1 22787 7033 14535 14591 26417 26417 -0.07097213330644081 PAQHDQAPEE 10 Unmodified _PAQHDQAPEE_ 0 0 0 REV__ENSG00000105321|ENST00000221922|CCDC9 REV__ENSG00000105321|ENST00000221922|CCDC9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.3638305664062 2 561.246535 1120.47852 NaN NaN NaN NaN NaN NaN NaN 54.228 1 54.228 53.728 54.728 0 0 0 0 0.99733 1 24871 24871 3.9444 0.3479 1 + 22788 10037 14536 14592 26418 26418 -0.07690404189474975 PAQILLRWQVQ 11 Unmodified _PAQILLRWQVQ_ 0 0 0 ENSG00000117448|ENST00000351829|AKR1A1;ENST00000487654.5_1_1:46033819-46034819:+|nuORF ENSG00000117448|ENST00000351829|AKR1A1 ENSG00000117448|ENST00000351829|AKR1A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 676.3933715820312 2 676.395879 1350.7772 NaN NaN NaN NaN NaN NaN NaN 75.237 1 75.902 75.402 76.402 0.6644 0 0 0 1.0071 1 34656 34656 1.4819 0 1 22789 2072 14537 14593 26419 26419 0.11584718513813641 PAQIPLAKRL 10 Unmodified _PAQIPLAKRL_ 0 0 0 REV__ENST00000369687.2_1_6:84563383-84566987:+|nuORF REV__ENST00000369687.2_1_6:84563383-84566987:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.8569946289062 2 553.855858 1105.69716 NaN NaN NaN NaN NaN NaN NaN 47.237 1 48.066 47.566 48.566 0.82915 0 0 0 0.99225 1 21520 21520 6.7232 0.51738 1 + 22790 15710 14538 14594 26420 26420 0.14854276910659792 PAQKKVVPKKR 11 Unmodified _PAQKKVVPKKR_ 0 0 0 REV__ENSG00000149929|ENST00000279392|HIRIP3 REV__ENSG00000149929|ENST00000279392|HIRIP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 639.9237060546875 2 639.922064 1277.82957 NaN NaN NaN NaN NaN NaN NaN 76.904 1 76.904 76.404 77.404 0 0 0 0 1.0071 1 37697 37697 1.4819 0 1 + 22791 12582 14539 14595 26421 26421 0.2017730164745899 PAQLLWVR 8 Unmodified _PAQLLWVR_ 0 0 0 REV__ENST00000171887.8_1_2:218667769-218668381:-|nuORF REV__ENST00000171887.8_1_2:218667769-218668381:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.7971496582031 2 491.795269 981.575986 3.0719 0.0015107 1.5793 0.0007767 4.6512 0.0022874 491.7958923117878 43.289 0.25931 44.104 44.057 44.317 0.81444 40 18 3 0 0 0 0.74071 1 19802 19802 2.5775 1.7838 1 2865400 + 22792 14787 14540 14596 26422 26422 0.08446074267988024 PAQLLWVR 8 Unmodified _PAQLLWVR_ 0 0 0 REV__ENST00000171887.8_1_2:218667769-218668381:-|nuORF REV__ENST00000171887.8_1_2:218667769-218668381:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.7979431152344 2 491.795269 981.575986 3.144 0.0015462 1.626 0.00079968 4.77 0.0023459 491.7959218580858 45.917 0.79629 46.744 46.218 47.015 0.82621 55 41 2 0 0 0 0.70146 1 20956 20956 5.7604 1.0044 1 1137000 + 22793 14787 14540 14596 26423 26423 0.08446074267988024 PAQLLWVR 8 Unmodified _PAQLLWVR_ 0 0 0 REV__ENST00000171887.8_1_2:218667769-218668381:-|nuORF REV__ENST00000171887.8_1_2:218667769-218668381:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 491.795269 981.575986 2.9426 0.0014471 1.6905 0.00083137 4.633 0.0022785 491.7960788312562 46.463 0.70294 46.463 46.24 46.943 0 -0.1587 0.00026921 NaN 5.7604 57 29 2 NaN NaN NaN NaN 0 NaN NaN 0 1475500 + 22794 14787 14540 14596 0.08446074267988024 PAQLLWVR 8 Unmodified _PAQLLWVR_ 0 0 0 REV__ENST00000171887.8_1_2:218667769-218668381:-|nuORF REV__ENST00000171887.8_1_2:218667769-218668381:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 491.795269 981.575986 3.144 0.0015462 1.626 0.00079968 4.77 0.0023459 491.7959218580858 45.917 0.79629 46.744 46.218 47.015 0.82621 0.12182 0.00020584 NaN 5.7604 55 41 2 NaN NaN NaN NaN 0 NaN NaN 0 1137000 + 22795 14787 14540 14596 0.08446074267988024 PAQLRKEKSRT 11 Unmodified _PAQLRKEKSRT_ 0 0 0 REV__ENSG00000011590|ENST00000392197|ZBTB32 REV__ENSG00000011590|ENST00000392197|ZBTB32 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 657.4126586914062 2 657.386042 1312.75753 NaN NaN NaN NaN NaN NaN NaN 100.6 1 100.66 100.16 101.16 0.059723 0 0 0 1.0038 1 54602 54602 5.7319 0.43497 1 + 22796 10241 14541 14597 26424 26424 0.11366342503060878 PAQLRRRA 8 Unmodified _PAQLRRRA_ 0 0 0 ENSG00000161904|ENST00000293760|LEMD2 ENSG00000161904|ENST00000293760|LEMD2 ENSG00000161904|ENST00000293760|LEMD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 323.2027587890625 3 323.201787 966.583531 NaN NaN NaN NaN NaN NaN NaN 18.563 1 18.777 18.277 19.277 0.21445 0 0 0 0.99035 1 8256 8256 1.6526 0 1 22797 4106 14542 14598 26425 26425 0.09890226588254336 PAQLYQERL 9 Unmodified _PAQLYQERL_ 0 0 0 ENSG00000134247|ENST00000393203|PTGFRN ENSG00000134247|ENST00000393203|PTGFRN ENSG00000134247|ENST00000393203|PTGFRN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.3049926757812 2 559.303655 1116.59276 NaN NaN NaN NaN NaN NaN NaN 80.113 1 80.362 79.862 80.862 0.24947 0 0 0 0.82031 1 36888 36888 8.5933 0.68312 1 22798 2789 14543 14599 26426 26426 0.03912530363277256 PAQNWCFQFD 10 Unmodified _PAQNWCFQFD_ 0 0 0 REV__nc|ENSG00000136895|Q5VVW2-2|GARNL3 REV__nc|ENSG00000136895|Q5VVW2-2|GARNL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 628.2638549804688 2 628.263673 1254.51279 NaN NaN NaN NaN NaN NaN NaN 105.1 1 105.42 104.92 105.92 0.31782 0 0 0 0.99983 1 48518 48518 1.8442 0 1 + 22799 12087 14544 14600 26427 26427 -0.10428279302232113 PAQPFKFTISE 11 Unmodified _PAQPFKFTISE_ 0 0 0 ENST00000476523.5_1_9:82187705-82194998:+|nuORF;ENST00000376525.5_1_9:82187705-82189917:+|nuORF;ENST00000376524.6_1_9:82187705-82194998:+|nuORF;ENST00000485159.5_1_9:82188246-82242462:+|nuORF;nc|ENSG00000106829|Q04727-2|TLE4;nc|ENSG00000106829|Q04727-4|TLE4;ENSG00000106829|ENST00000376552|TLE4;nc|ENSG00000106829|Q04727-3|TLE4 ENST00000476523.5_1_9:82187705-82194998:+|nuORF ENST00000476523.5_1_9:82187705-82194998:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 632.8370971679688 2 632.832246 1263.64994 NaN NaN NaN NaN NaN NaN NaN 45.885 1 45.885 45.385 46.385 0 0 0 0 0.97845 1 20991 20991 8.7454 2.5396 1 22800 1585 14545 14601 26428 26428 0.028659528490152297 PAQPFKFTISE 11 Unmodified _PAQPFKFTISE_ 0 0 0 ENST00000476523.5_1_9:82187705-82194998:+|nuORF;ENST00000376525.5_1_9:82187705-82189917:+|nuORF;ENST00000376524.6_1_9:82187705-82194998:+|nuORF;ENST00000485159.5_1_9:82188246-82242462:+|nuORF;nc|ENSG00000106829|Q04727-2|TLE4;nc|ENSG00000106829|Q04727-4|TLE4;ENSG00000106829|ENST00000376552|TLE4;nc|ENSG00000106829|Q04727-3|TLE4 ENST00000476523.5_1_9:82187705-82194998:+|nuORF ENST00000476523.5_1_9:82187705-82194998:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.7978515625 2 632.832246 1263.64994 NaN NaN NaN NaN NaN NaN NaN 50.572 1 51.389 50.889 51.889 0.81738 0 0 0 0.97845 1 23034 23034 8.7454 3.0136 1 22801 1585 14545 14601 26429 26429 0.028659528490152297 PAQPHRVRREE 11 Unmodified _PAQPHRVRREE_ 0 0 0 REV__nc|ENSG00000152782|Q8TE04|PANK1 REV__nc|ENSG00000152782|Q8TE04|PANK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 687.8701171875 2 687.871091 1373.72763 NaN NaN NaN NaN NaN NaN NaN 73.628 1 73.887 73.387 74.387 0.25876 0 0 0 1.0059 1 33823 33823 2.9952 0 1 + 22802 17987 14546 14602 26430 26430 0.05571403557769372 PAQQQQRQHPV 11 Unmodified _PAQQQQRQHPV_ 0 0 0 DPP6|p.R457Ifs*40|1|0.07|ENSG00000130226|chr7:154801422-154801423|-/AATT|frameshift_variant DPP6|p.R457Ifs*40|1|0.07|ENSG00000130226|chr7:154801422-154801423|-/AATT|frameshift_variant DPP6|p.R457Ifs*40|1|0.07|ENSG00000130226|chr7:154801422-154801423|-/AATT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 439.5635070800781 3 439.565453 1315.67453 NaN NaN NaN NaN NaN NaN NaN 63.917 1 63.917 63.417 64.417 0 0 0 0 1.006 1 30154 30154 2.8433 1.3882 1 22803 278 14547 14603 26431 26431 0.029320257750896417 PAQRLYLAHP 10 Unmodified _PAQRLYLAHP_ 0 0 0 REV__ENST00000209884.4_1_1:173685175-173703001:+|nuORF REV__ENST00000209884.4_1_1:173685175-173703001:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.285888671875 2 583.327465 1164.64038 NaN NaN NaN NaN NaN NaN NaN 97.799 1 98.398 97.898 98.898 0.59885 0 0 0 0.96627 1 45001 45001 10.824 0 1 + 22804 14793 14548 14604 26432 26432 0.06464229354128292 PAQRRGLKRRK 11 Unmodified _PAQRRGLKRRK_ 0 0 0 SMARCD2|p.L424Wfs*27|1|0.37|ENSG00000108604|chr17:63833635-63833635|A/-|frameshift_variant;nc|ENSG00000108604|Q92925-3|SMARCD2;nc|ENSG00000108604|Q92925-2|SMARCD2;ENSG00000108604|ENST00000448276|SMARCD2 SMARCD2|p.L424Wfs*27|1|0.37|ENSG00000108604|chr17:63833635-63833635|A/-|frameshift_variant SMARCD2|p.L424Wfs*27|1|0.37|ENSG00000108604|chr17:63833635-63833635|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 683.0211791992188 2 683.436735 1364.85892 NaN NaN NaN NaN NaN NaN NaN 78.691 1 78.691 78.191 79.191 0 0 0 0 1.0071 1 38738 38738 1.4819 0 1 22805 1640 14549 14605 26433 26433 0.19108258716278215 PAQRRISR 8 Unmodified _PAQRRISR_ 0 0 0 ENST00000582787.1_1_17:45968890-45971304:-|nuORF ENST00000582787.1_1_17:45968890-45971304:-|nuORF ENST00000582787.1_1_17:45968890-45971304:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.7979431152344 2 492.296499 982.578445 3.1279 0.0015398 0.96885 0.00047696 4.0967 0.0020168 492.2967565035372 45.977 0.22755 46.804 46.712 46.94 0.82621 13 10 2 0 0 0 0.14111 1 20956 20956 5.7604 0 1 899020 22806 9157 14550 14606 26434 26434 0.08645922725656874 PAQRRQLRFL 10 Unmodified _PAQRRQLRFL_ 0 0 0 ENST00000254325.8_1_19:14073549-14074364:-|nuORF ENST00000254325.8_1_19:14073549-14074364:-|nuORF ENST00000254325.8_1_19:14073549-14074364:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 642.886962890625 2 642.886013 1283.75747 NaN NaN NaN NaN NaN NaN NaN 66.693 1 66.693 66.193 67.193 0 0 0 0 0.99983 1 31900 31900 1.8442 0 1 22807 6513 14551 14607 26435 26435 0.12694387293754517 PAQRRRGFF 9 Unmodified _PAQRRRGFF_ 0 0 0 REV__ENST00000536219.5_1_12:64173626-64178865:+|nuORF REV__ENST00000536219.5_1_12:64173626-64178865:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.5765380859375 2 567.817599 1133.62064 NaN NaN NaN NaN NaN NaN NaN 80.304 1 80.964 80.464 81.464 0.65998 0 0 0 0.89288 1 37003 37003 4.756 0 1 + 22808 11476 14552 14608 26436 26436 0.05917898134043753 PAQTLLIKFV 10 Unmodified _PAQTLLIKFV_ 0 0 0 REV__ENST00000426431.2_1_12:53805763-53805964:+|nuORF REV__ENST00000426431.2_1_12:53805763-53805964:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.1385498046875 2 565.352617 1128.69068 NaN NaN NaN NaN NaN NaN NaN 47.445 1 47.445 46.945 47.945 0 0 0 0 1.0001 1 21721 21721 1.6526 0 1 + 22809 16217 14553 14609 26437 26437 0.13148338959263128 PAQVDVFEEF 10 Unmodified _PAQVDVFEEF_ 0 0 0 REV__ENSG00000135824|ENST00000515211|RGS8 REV__ENSG00000135824|ENST00000515211|RGS8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.7781372070312 2 590.779679 1179.5448 NaN NaN NaN NaN NaN NaN NaN 45.611 1 45.611 45.111 46.111 0 0 0 0 0.99464 1 20865 20865 6.2058 0.47393 1 + 22810 12039 14554 14610 26438 26438 -0.03778588347427103 PAQVPLLAR 9 Unmodified _PAQVPLLAR_ 0 0 0 REV__ENST00000580793.5_1_17:80006031-80006253:-|nuORF REV__ENST00000580793.5_1_17:80006031-80006253:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.2126770019531 3 322.202793 963.58655 NaN NaN NaN NaN NaN NaN NaN 31.533 1 31.789 31.289 32.289 0.25614 0 0 0 0.91014 1 14356 14356 1.0715 0 1 + 22811 17509 14555 14611 26439 26439 0.10330056922407493 PAQVQFESTD 10 Unmodified _PAQVQFESTD_ 0 0 0 REV__ENST00000505061.5_1_15:42111671-42117631:+|nuORF REV__ENST00000505061.5_1_15:42111671-42117631:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.26123046875 2 561.259111 1120.50367 3.3794 0.0018967 -0.055762 -3.1297E-05 3.3236 0.0018654 561.2586719618084 48.787 0.69071 49.614 49.373 50.064 0.82705 56 37 2 0 0 0 0.74998 2 22313 22313;22371 10.824 2.9138 1 418760 + 22812 12127 14556 14612 26440;26441 26440 -0.051763493868975274 PARARWRLR 9 Unmodified _PARARWRLR_ 0 0 0 ENST00000342922.8_1_11:47291124-47295429:+|nuORF ENST00000342922.8_1_11:47291124-47295429:+|nuORF ENST00000342922.8_1_11:47291124-47295429:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.36083984375 2 591.359965 1180.70538 NaN NaN NaN NaN NaN NaN NaN 90.975 1 91.227 90.727 91.727 0.25163 0 0 0 0.91206 1 41832 41832 0.6015 0 1 22813 7084 14557 14613 26442 26442 0.12225268670636069 PARCRRRRPRP 11 Unmodified _PARCRRRRPRP_ 0 0 0 ENST00000480661.1_1_1:6259306-6259615:-|nuORF ENST00000480661.1_1_1:6259306-6259615:-|nuORF ENST00000480661.1_1_1:6259306-6259615:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 710.9209594726562 2 710.918187 1419.82182 NaN NaN NaN NaN NaN NaN NaN 68.928 1 69.631 69.131 70.131 0.70218 0 0 0 1.0072 1 32905 32905 3.2813 2.2098 1 22814 8281 14558 14614 26443 26443 0.1287026389888979 PARDRRRRLR 10 Unmodified _PARDRRRRLR_ 0 0 0 REV__ENST00000511161.5_1_6:41904922-42016364:-|nuORF REV__ENST00000511161.5_1_6:41904922-42016364:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 676.696044921875 2 676.416334 1350.81812 NaN NaN NaN NaN NaN NaN NaN 107.29 1 107.89 107.39 108.39 0.60074 0 0 0 1.0015 1 49520 49520 0.45834 0.10771 1 + 22815 16924 14559 14615 26444 26444 0.15673917396679826 PARELRFRLRR 11 Unmodified _PARELRFRLRR_ 0 0 0 REV__ENSG00000092148|ENST00000399332|HECTD1 REV__ENSG00000092148|ENST00000399332|HECTD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 735.30029296875 2 735.449843 1468.88513 NaN NaN NaN NaN NaN NaN NaN 95.963 1 95.963 95.463 96.463 0 0 0 0 1.0071 1 51822 51822 1.4819 0.28856 1 + 22816 10739 14560 14616 26445 26445 0.16944527887767435 PAREPPLRVLC 11 Unmodified _PAREPPLRVLC_ 0 0 0 REV__nc|ENSG00000116514|Q6ZMZ0-2|RNF19B REV__nc|ENSG00000116514|Q6ZMZ0-2|RNF19B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 625.9745483398438 2 625.855532 1249.69651 NaN NaN NaN NaN NaN NaN NaN 83.383 1 83.383 82.883 83.883 0 0 0 0 1.0038 1 41988 41988 5.7319 2.1354 1 + 22817 11406 14561 14617 26446 26446 0.0816511419930066 PARERKRKKRR 11 Unmodified _PARERKRKKRR_ 0 0 0 ENSG00000204438|ENST00000375896|GPANK1 ENSG00000204438|ENST00000375896|GPANK1 ENSG00000204438|ENST00000375896|GPANK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 740.8848876953125 2 740.974016 1479.93348 NaN NaN NaN NaN NaN NaN NaN 70.709 1 70.709 70.209 71.209 0 0 0 0 1.0059 1 34343 34343 2.9952 2.6882 1 22818 6010 14562 14618 26447 26447 0.2127102152765019 PARFADQQHMD 11 Unmodified _PARFADQQHMD_ 0 0 0 ENSG00000116544|ENST00000373347|DLGAP3 ENSG00000116544|ENST00000373347|DLGAP3 ENSG00000116544|ENST00000373347|DLGAP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 658.2979125976562 2 658.296036 1314.57752 NaN NaN NaN NaN NaN NaN NaN 81.627 1 81.627 81.127 82.127 0 0 0 0 1.0057 1 40689 40689 3.2813 0 1 22819 2032 14563 14619 26448 26448 -0.0671870449623384 PARFLSSLWER 11 Unmodified _PARFLSSLWER_ 0 0 0 ENSG00000183161|ENST00000327470|FANCF ENSG00000183161|ENST00000327470|FANCF ENSG00000183161|ENST00000327470|FANCF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 681.3695678710938 2 681.369861 1360.72517 NaN NaN NaN NaN NaN NaN NaN 83.857 1 83.885 83.385 84.385 0.028603 0 0 0 1.0059 1 41706 41706 2.9952 0 1 22820 5367 14564 14620 26449 26449 0.059235551000710984 PARGKHPL 8 Unmodified _PARGKHPL_ 0 0 0 ENST00000250916.5_1_19:1854052-1854151:-|nuORF ENST00000250916.5_1_19:1854052-1854151:-|nuORF ENST00000250916.5_1_19:1854052-1854151:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 438.2622375488281 2 438.264136 874.51372 NaN NaN NaN NaN NaN NaN NaN 39.994 1 40.794 40.294 41.294 0.80014 0 0 0 0.99035 1 18107 18107 2.8892 0 1 22821 6500 14565 14621 26450 26450 0.07144347919643224 PARGPWLRLRL 11 Unmodified _PARGPWLRLRL_ 0 0 0 REV__ENST00000370071.6_1_1:108023260-108023536:+|nuORF REV__ENST00000370071.6_1_1:108023260-108023536:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 667.911865234375 2 667.91203 1333.80951 NaN NaN NaN NaN NaN NaN NaN 95.735 1 96.003 95.503 96.503 0.2675 0 0 0 1.008 1 43989 43989 0.35063 0 1 + 22822 15719 14566 14622 26451 26451 0.15595550707485017 PARGRLHRG 9 Unmodified _PARGRLHRG_ 0 0 0 ENST00000372242.7_1_1:45101133-45101517:-|nuORF ENST00000372242.7_1_1:45101133-45101517:-|nuORF ENST00000372242.7_1_1:45101133-45101517:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.302001953125 2 510.302116 1018.58968 NaN NaN NaN NaN NaN NaN NaN 92.923 1 93.009 92.509 93.509 0.086212 0 0 0 0.72654 1 48555 48555 11.64 3.7301 1 22823 7332 14567 14623 26452 26452 0.08112744819788986 PARHRPTWPRR 11 Unmodified _PARHRPTWPRR_ 0 0 0 ENST00000397861.6_1_17:54910427-54911098:-|nuORF ENST00000397861.6_1_17:54910427-54911098:-|nuORF ENST00000397861.6_1_17:54910427-54911098:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 715.4075317382812 2 715.405435 1428.79632 NaN NaN NaN NaN NaN NaN NaN 88.006 1 88.046 87.546 88.546 0.039955 0 0 0 1.0073 1 44721 44721 1.1933 0 1 22824 7584 14568 14624 26453 26453 0.09907112648079419 PARILEFRGF 10 Unmodified _PARILEFRGF_ 0 0 0 ENST00000609247.1_1_1:101360618-101360855:+|nuORF ENST00000609247.1_1_1:101360618-101360855:+|nuORF ENST00000609247.1_1_1:101360618-101360855:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 603.3410034179688 2 603.343115 1204.67168 NaN NaN NaN NaN NaN NaN NaN 79.262 1 79.514 79.014 80.014 0.25127 0 0 0 0.99687 1 36500 36500 4.3292 0.73274 1 22825 9350 14569 14625 26454 26454 0.07752802388222335 PARKIRRRKAR 11 Unmodified _PARKIRRRKAR_ 0 0 0 ENST00000484610.5_1_16:89627367-89627911:+|nuORF;ENST00000565571.5_1_16:89627367-89628201:+|nuORF;nc|ENSG00000167526|P26373-2|RPL13;ENSG00000167526|ENST00000311528|RPL13 ENST00000484610.5_1_16:89627367-89627911:+|nuORF ENST00000484610.5_1_16:89627367-89627911:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.9813537597656 3 469.979644 1406.9171 NaN NaN NaN NaN NaN NaN NaN 63.881 1 64.597 64.097 65.097 0.71521 0 0 0 1.0071 1 29988 29988 0.50596 0.051438 1 22826 4559 14570 14626 26455 26455 0.22991940361566776 PARKKRLR 8 Unmodified _PARKKRLR_ 0 0 0 nc|ENSG00000132313|Q9NZE8-2|MRPL35;ENSG00000132313|ENST00000337109|MRPL35 nc|ENSG00000132313|Q9NZE8-2|MRPL35 nc|ENSG00000132313|Q9NZE8-2|MRPL35 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.8448486328125 2 512.846159 1023.67777 NaN NaN NaN NaN NaN NaN NaN 87.63 1 87.63 87.13 88.13 0 0 0 0 0.99035 1 45242 45242 0.79363 0.10326 1 22827 2689 14571 14627 26456 26456 0.16687365410416533 PARKKRPKRLR 11 Unmodified _PARKKRPKRLR_ 0 0 0 ENST00000417391.1_1_2:216974075-216975204:+|nuORF;ENST00000429133.5_1_2:216974075-216982480:+|nuORF;ENST00000476360.1_1_2:216974075-216981630:+|nuORF ENST00000417391.1_1_2:216974075-216975204:+|nuORF ENST00000417391.1_1_2:216974075-216975204:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 703.4680786132812 2 703.470578 1404.9266 NaN NaN NaN NaN NaN NaN NaN 90.747 1 90.998 90.498 91.498 0.25163 0 0 0 1.008 1 41727 41727 0.35063 0.043601 1 22828 7722 14572 14628 26457 26457 0.24033708647107233 PARKKSLLKKK 11 Unmodified _PARKKSLLKKK_ 0 0 0 ENST00000508336.1_1_4:166469096-166469723:-|nuORF ENST00000508336.1_1_4:166469096-166469723:-|nuORF ENST00000508336.1_1_4:166469096-166469723:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.947265625 2 648.945539 1295.87652 NaN NaN NaN NaN NaN NaN NaN 82.378 1 82.462 81.962 82.962 0.084106 0 0 0 1.0071 1 40685 40685 1.4819 0.15237 1 22829 8529 14573 14629 26458 26458 0.24042161198553913 PARKLICL 8 Unmodified _PARKLICL_ 0 0 0 REV__ENSG00000106952|ENST00000223795|TNFSF8 REV__ENSG00000106952|ENST00000223795|TNFSF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 457.28570556640625 2 457.286223 912.557893 NaN NaN NaN NaN NaN NaN NaN 67.162 1 67.162 66.662 67.662 0 0 0 0 0.97647 1 32155 32155 5.7604 0 1 + 22830 11102 14574 14630 26459 26459 0.09811616021625014 PARKLLSLLFL 11 Unmodified _PARKLLSLLFL_ 0 0 0 nc|ENSG00000130558|Q99784-4|OLFM1;nc|ENSG00000130558|Q99784-3|OLFM1 nc|ENSG00000130558|Q99784-4|OLFM1 nc|ENSG00000130558|Q99784-4|OLFM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 635.9166870117188 2 635.915916 1269.81728 NaN NaN NaN NaN NaN NaN NaN 68.048 1 68.048 67.548 68.548 0 0 0 0 1.0071 1 32720 32720 1.4819 0 1 22831 9637 14575 14631 26460 26460 0.19316265184420445 PARKWQSRWPQ 11 Unmodified _PARKWQSRWPQ_ 0 0 0 ENST00000368474.8_1_1:154569645-154569696:-|nuORF ENST00000368474.8_1_1:154569645-154569696:-|nuORF ENST00000368474.8_1_1:154569645-154569696:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.2072448730469 3 480.593343 1438.7582 NaN NaN NaN NaN NaN NaN NaN 75.364 1 76.028 75.528 76.528 0.6644 0 0 0 1.0079 1 34718 34718 0.50596 0 1 22832 7279 14576 14632 26461 26461 0.056371819427795344 PARKYMHWLRI 11 Unmodified _PARKYMHWLRI_ 0 0 0 ENST00000306156.7_1_2:45878956-45879109:+|nuORF ENST00000306156.7_1_2:45878956-45879109:+|nuORF ENST00000306156.7_1_2:45878956-45879109:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 735.9102172851562 2 735.911173 1469.80779 NaN NaN NaN NaN NaN NaN NaN 73.868 1 73.868 73.368 74.368 0 0 0 0 1.0071 1 36040 36040 1.4819 0.15237 1 22833 6840 14577 14633 26462 26462 0.09168173627222131 PARKYMHWLRI 11 Unmodified _PARKYMHWLRI_ 0 0 0 ENST00000306156.7_1_2:45878956-45879109:+|nuORF ENST00000306156.7_1_2:45878956-45879109:+|nuORF ENST00000306156.7_1_2:45878956-45879109:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 735.909912109375 2 735.911173 1469.80779 NaN NaN NaN NaN NaN NaN NaN 77.64 1 78.303 77.803 78.803 0.66303 0 0 0 1.0071 1 35780 35780 1.4819 1.1313 1 22834 6840 14577 14633 26463 26463 0.09168173627222131 PARLFSPPRLY 11 Unmodified _PARLFSPPRLY_ 0 0 0 REV__ENSG00000109846|ENST00000650687|CRYAB REV__ENSG00000109846|ENST00000650687|CRYAB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 658.8234252929688 2 658.877322 1315.74009 NaN NaN NaN NaN NaN NaN NaN 64.897 1 65.606 65.106 66.106 0.70891 0 0 0 0.99571 1 30596 30596 7.1017 0.90987 1 + 22835 11184 14578 14634 26464 26464 0.09485046968097777 PARLHRIVPRL 11 Unmodified _PARLHRIVPRL_ 0 0 0 nc|ENSG00000166311|P17405-3|SMPD1;nc|ENSG00000166311|P17405-2|SMPD1;nc|ENSG00000166311|P17405-4|SMPD1;ENSG00000166311|ENST00000342245|SMPD1 nc|ENSG00000166311|P17405-3|SMPD1 nc|ENSG00000166311|P17405-3|SMPD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 664.4276733398438 2 664.425305 1326.83606 NaN NaN NaN NaN NaN NaN NaN 97.225 1 97.827 97.327 98.327 0.6019 0 0 0 1.0071 1 44704 44704 1.4819 0 1 22836 4470 14579 14635 26465 26465 0.1857123959882756 PARLLFLLN 9 Unmodified _PARLLFLLN_ 0 0 0 REV__ENST00000215957.10_1_22:38336969-38337113:+|nuORF REV__ENST00000215957.10_1_22:38336969-38337113:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.834228515625 2 528.831852 1055.64915 NaN NaN NaN NaN NaN NaN NaN 74.15 1 74.815 74.315 75.315 0.6644 0 0 0 0.90335 1 34126 34126 4.756 2.9118 1 + 22837 14802 14580 14636 26466 26466 0.12355202990602265 PARLLKPLWLR 11 Unmodified _PARLLKPLWLR_ 0 0 0 REV__ENST00000555228.5_1_14:74318578-74325566:+|nuORF REV__ENST00000555228.5_1_14:74318578-74325566:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.96405029296875 3 454.962597 1361.86596 NaN NaN NaN NaN NaN NaN NaN 75.351 1 75.609 75.109 76.109 0.25704 0 0 0 1.0071 1 34671 34671 0.50596 0 1 + 22838 17318 14581 14637 26467 26467 0.19950178544149821 PARLLKPLWLR 11 Unmodified _PARLLKPLWLR_ 0 0 0 REV__ENST00000555228.5_1_14:74318578-74325566:+|nuORF REV__ENST00000555228.5_1_14:74318578-74325566:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 681.9407348632812 2 681.940257 1361.86596 NaN NaN NaN NaN NaN NaN NaN 94.617 1 95.235 94.735 95.735 0.61736 0 0 0 1.008 1 43514 43514 0.35063 0.043601 1 + 22839 17318 14581 14637 26468 26468 0.19950178544149821 PARLRVFRE 9 Unmodified _PARLRVFRE_ 0 0 0 CON__P01030;CON__ENSEMBL:ENSBTAP00000007350 CON__P01030 CON__P01030 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 572.338623046875 2 572.340907 1142.66726 NaN NaN NaN NaN NaN NaN NaN 94.903 1 95.521 95.021 96.021 0.61736 0 0 0 0.89683 1 43644 43644 4.3292 0.38484 1 + 22840 212 14582 14638 26469 26469 0.10163337965332175 PARLVIQLQ 9 Unmodified _PARLVIQLQ_ 0 0 0 REV__ENSG00000196497|ENST00000354464|IPO4 REV__ENSG00000196497|ENST00000354464|IPO4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.3251342773438 2 519.326934 1036.63931 NaN NaN NaN NaN NaN NaN NaN 85.439 1 85.467 84.967 85.967 0.028603 0 0 0 0.84134 1 42773 42773 7.9102 0 1 + 22841 14221 14583 14639 26470 26470 0.12246014985225884 PARLVLLRL 9 Unmodified _PARLVLLRL_ 0 0 0 ENST00000262096.12_1_8:17014207-17053083:+|nuORF ENST00000262096.12_1_8:17014207-17053083:+|nuORF ENST00000262096.12_1_8:17014207-17053083:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 525.6240234375 2 525.860944 1049.70733 NaN NaN NaN NaN NaN NaN NaN 71.91 1 71.91 71.41 72.41 0 0 0 0 0.90511 1 34960 34960 2.3027 0 1 22842 6569 14584 14640 26471 26471 0.1844688463586408 PARPRLKLR 9 Unmodified _PARPRLKLR_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.86669921875 2 553.867092 1105.71963 NaN NaN NaN NaN NaN NaN NaN 63.8 1 64.516 64.016 65.016 0.71521 0 0 0 0.90511 1 29933 29933 2.3027 0 1 + 22843 9967 14585 14641 26472 26472 0.17099921098906634 PARPRLKLR 9 Unmodified _PARPRLKLR_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.86669921875 2 553.867092 1105.71963 NaN NaN NaN NaN NaN NaN NaN 79.666 1 79.986 79.486 80.486 0.31998 0 0 0 0.90511 1 38923 38923 2.3027 0 1 + 22844 9967 14585 14641 26473 26473 0.17099921098906634 PARPRLLLRRL 11 Unmodified _PARPRLLLRRL_ 0 0 0 REV__ENSG00000204839|ENST00000398882|MROH6 REV__ENSG00000204839|ENST00000398882|MROH6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 680.95458984375 2 680.95423 1359.89391 NaN NaN NaN NaN NaN NaN NaN 69.414 1 70.117 69.617 70.617 0.70302 0 0 0 1.0071 1 33219 33219 1.4819 0 1 + 22845 14440 14586 14642 26474 26474 0.22835501524264146 PARPRRERHLN 11 Unmodified _PARPRRERHLN_ 0 0 0 ENST00000505306.5_1_17:48167246-48167522:+|nuORF ENST00000505306.5_1_17:48167246-48167522:+|nuORF ENST00000505306.5_1_17:48167246-48167522:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 700.9306030273438 2 701.40035 1400.78615 NaN NaN NaN NaN NaN NaN NaN 86.32 1 86.32 85.82 86.82 0 0 0 0 1.0059 1 44215 44215 2.9952 1.5133 1 22846 8501 14587 14643 26475 26475 0.10178504922896536 PARPRRRRSS 10 Unmodified _PARPRRRRSS_ 0 0 0 ENST00000402690.6_3_18:45423134-45457349:-|nuORF ENST00000402690.6_3_18:45423134-45457349:-|nuORF ENST00000402690.6_3_18:45423134-45457349:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.8717041015625 2 619.868686 1237.72282 NaN NaN NaN NaN NaN NaN NaN 91.475 1 91.726 91.226 92.226 0.25163 0 0 0 1.0015 1 42062 42062 0.45834 0 1 22847 7617 14588 14644 26476 26476 0.11346564205632603 PARPTKFVEG 10 Unmodified _PARPTKFVEG_ 0 0 0 REV__ENSG00000105722|ENST00000222329|ERF REV__ENSG00000105722|ENST00000222329|ERF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.492919921875 2 551.306198 1100.59784 NaN NaN NaN NaN NaN NaN NaN 85.336 1 85.364 84.864 85.864 0.028603 0 0 0 0.9754 1 42698 42698 9.3831 0.78985 1 + 22848 11050 14589 14645 26477 26477 0.051568342258860866 PARPTTLLFCL 11 Unmodified _PARPTTLLFCL_ 0 0 0 REV__ENST00000329082.11_1_15:93587220-93587493:-|nuORF REV__ENST00000329082.11_1_15:93587220-93587493:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.5435180664062 2 616.347009 1230.67946 NaN NaN NaN NaN NaN NaN NaN 73.022 1 73.72 73.22 74.22 0.69881 0 0 0 1.0038 1 35188 35188 5.7319 0 1 + 22849 15366 14590 14646 26478 26478 0.07335193593485201 PARPVPLKKR 10 Unmodified _PARPVPLKKR_ 0 0 0 nc|ENSG00000151376|Q16798-2|ME3;ME3|p.V396Sfs*8|1|0.05|ENSG00000151376|chr11:86448202-86448202|T/-|frameshift_variant;ENSG00000151376|ENST00000524826|ME3 nc|ENSG00000151376|Q16798-2|ME3 nc|ENSG00000151376|Q16798-2|ME3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.3826293945312 2 581.382574 1160.7506 NaN NaN NaN NaN NaN NaN NaN 79.635 1 80.296 79.796 80.796 0.66082 0 0 0 0.99983 1 36692 36692 1.8442 0 1 22850 3706 14591 14647 26479 26479 0.17665074413162074 PARQFLQMCRP 11 Unmodified _PARQFLQMCRP_ 0 0 0 ENST00000376227.3_1_X:49092034-49093605:+|nuORF ENST00000376227.3_1_X:49092034-49093605:+|nuORF ENST00000376227.3_1_X:49092034-49093605:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 673.8430786132812 2 673.844642 1345.67473 NaN NaN NaN NaN NaN NaN NaN 62.184 1 62.915 62.415 63.415 0.73077 0 0 0 1.0057 1 28951 28951 3.2813 1.7994 1 22851 7396 14592 14648 26480 26480 0.015719861790785217 PARRKLQRLL 10 Unmodified _PARRKLQRLL_ 0 0 0 ENST00000579434.5_1_18:51796255-51800364:+|nuORF ENST00000579434.5_1_18:51796255-51800364:+|nuORF ENST00000579434.5_1_18:51796255-51800364:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 626.173828125 2 625.91203 1249.80951 NaN NaN NaN NaN NaN NaN NaN 77.03 1 77.625 77.125 78.125 0.59544 0 0 0 0.99983 1 37348 37348 1.8442 0 1 22852 9143 14593 14649 26481 26481 0.19459550707483686 PARRKRLP 8 Unmodified _PARRKRLP_ 0 0 0 ENST00000597137.5_1_19:8428195-8436046:+|nuORF;ENST00000598255.5_1_19:8429205-8436046:+|nuORF;ENST00000594348.1_1_19:8429070-8436049:+|nuORF;nc|ENSG00000167772|Q9BY76-2|ANGPTL4;ENSG00000167772|ENST00000301455|ANGPTL4 ENST00000597137.5_1_19:8428195-8436046:+|nuORF ENST00000597137.5_1_19:8428195-8436046:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 497.3243408203125 2 497.32506 992.635566 NaN NaN NaN NaN NaN NaN NaN 82.702 1 82.747 82.247 83.247 0.045006 0 0 0 0.93233 1 40877 40877 10.183 2.2732 1 22853 4580 14594 14650 26482 26482 0.13895390002028307 PARRLKLFF 9 Unmodified _PARRLKLFF_ 0 0 0 ENST00000595369.1_1_19:6760922-6763743:-|nuORF ENST00000595369.1_1_19:6760922-6763743:-|nuORF ENST00000595369.1_1_19:6760922-6763743:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.3606567382812 2 574.358568 1146.70258 NaN NaN NaN NaN NaN NaN NaN 95.62 1 95.888 95.388 96.388 0.2675 0 0 0 0.90511 1 43935 43935 2.3027 0 1 22854 9269 14595 14651 26483 26483 0.13510000493124608 PARRLMFLVRC 11 Unmodified _PARRLMFLVRC_ 0 0 0 ENST00000443199.6_1_17:73623504-73629591:-|nuORF ENST00000443199.6_1_17:73623504-73629591:-|nuORF ENST00000443199.6_1_17:73623504-73629591:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.5924377441406 3 454.59341 1360.7584 NaN NaN NaN NaN NaN NaN NaN 75.196 1 75.196 74.696 75.696 0 0 0 0 1.0071 1 36843 36843 0.50596 0 1 22855 7952 14596 14652 26484 26484 0.09245142346776447 PARRRLLL 8 Unmodified _PARRRLLL_ 0 0 0 nc|ENSG00000070476|Q2QGD7-2|ZXDC;ENSG00000070476|ENST00000389709|ZXDC nc|ENSG00000070476|Q2QGD7-2|ZXDC nc|ENSG00000070476|Q2QGD7-2|ZXDC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.9833068847656 2 497.83526 993.655967 NaN NaN NaN NaN NaN NaN NaN 96.822 1 97.424 96.924 97.924 0.6019 0 0 0 0.99035 1 44514 44514 2.8892 0 1 22856 765 14597 14653 26485 26485 0.15888560661835527 PARRRLQLPRL 11 Unmodified _PARRRLQLPRL_ 0 0 0 nc|ENSG00000105227|Q9BXM0-3|PRX;ENST00000291825.11_2_19:40899875-40904000:-|nuORF;ENSG00000105227|ENST00000324001|PRX nc|ENSG00000105227|Q9BXM0-3|PRX nc|ENSG00000105227|Q9BXM0-3|PRX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 688.5007934570312 2 688.441486 1374.86842 NaN NaN NaN NaN NaN NaN NaN 37.102 1 37.102 36.602 37.602 0 0 0 0 1.0071 1 16837 16837 1.4819 0.15237 1 22857 1479 14598 14654 26486 26486 0.19598027001825358 PARRRPSLLR 10 Unmodified _PARRRPSLLR_ 0 0 0 ENST00000361961.7_1_12:39764061-39837002:-|nuORF ENST00000361961.7_1_12:39764061-39837002:-|nuORF ENST00000361961.7_1_12:39764061-39837002:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 407.927734375 3 407.926545 1220.75781 NaN NaN NaN NaN NaN NaN NaN 64.232 1 64.232 63.732 64.732 0 0 0 0 0.99466 1 30386 30386 6.1918 2.0023 1 22858 7231 14599 14655 26487 26487 0.1562580701358911 PARRRRKRRR 10 Unmodified _PARRRRKRRR_ 0 0 0 ENST00000584379.5_1_17:62291378-62291564:-|nuORF ENST00000584379.5_1_17:62291378-62291564:-|nuORF ENST00000584379.5_1_17:62291378-62291564:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 704.4583129882812 2 704.458868 1406.90318 NaN NaN NaN NaN NaN NaN NaN 76.992 1 76.992 76.492 77.492 0 0 0 0 0.99983 1 37741 37741 1.8442 1.8442 1 22859 9166 14600 14656 26488 26488 0.21600707653146856 PARRRRKRRRS 11 Unmodified _PARRRRKRRRS_ 0 0 0 ENST00000584379.5_1_17:62291378-62291564:-|nuORF ENST00000584379.5_1_17:62291378-62291564:-|nuORF ENST00000584379.5_1_17:62291378-62291564:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 747.9746704101562 2 747.974882 1493.93521 NaN NaN NaN NaN NaN NaN NaN 63.329 1 63.329 62.829 63.829 0 0 0 0 1.0071 1 29785 29785 1.4819 1.1313 1 22860 9166 14601 14657 26489 26489 0.2080007533627395 PARRRRKRRRS 11 Unmodified _PARRRRKRRRS_ 0 0 0 ENST00000584379.5_1_17:62291378-62291564:-|nuORF ENST00000584379.5_1_17:62291378-62291564:-|nuORF ENST00000584379.5_1_17:62291378-62291564:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 747.9754638671875 2 747.974882 1493.93521 NaN NaN NaN NaN NaN NaN NaN 90.816 1 90.891 90.391 91.391 0.075279 0 0 0 1.008 1 46891 46891 0.35063 0.043601 1 22861 9166 14601 14657 26490 26490 0.2080007533627395 PARRRRRRGT 10 Unmodified _PARRRRRRGT_ 0 0 0 REV__ENST00000430430.5_1_8:81398575-81399061:+|nuORF REV__ENST00000430430.5_1_8:81398575-81399061:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.3970336914062 2 641.395402 1280.77625 NaN NaN NaN NaN NaN NaN NaN 65.744 1 66.453 65.953 66.953 0.70891 0 0 0 0.99733 1 31117 31117 3.9444 0.068064 1 + 22862 16255 14602 14658 26491 26491 0.14709361708150936 PARRRRRRVAT 11 Unmodified _PARRRRRRVAT_ 0 0 0 REV__ENST00000591365.1_1_17:43298722-43299568:-|nuORF REV__ENST00000591365.1_1_17:43298722-43299568:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 697.53857421875 2 697.937434 1393.86031 NaN NaN NaN NaN NaN NaN NaN 88.731 1 88.731 88.231 89.231 0 0 0 0 1.0071 1 46125 46125 1.4819 0 1 + 22863 17584 14603 14659 26492 26492 0.1791389280506337 PARRSHIRRKK 11 Unmodified _PARRSHIRRKK_ 0 0 0 nc|ENSG00000119778|Q9ULI0-2|ATAD2B;ENSG00000119778|ENST00000238789|ATAD2B;ATAD2B|p.H734Qfs*57|1|0.29|ENSG00000119778|chr2:23819809-23819812|TGAG/-|frameshift_variant nc|ENSG00000119778|Q9ULI0-2|ATAD2B nc|ENSG00000119778|Q9ULI0-2|ATAD2B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 702.9393310546875 2 702.942185 1403.86982 NaN NaN NaN NaN NaN NaN NaN 80.638 1 81.298 80.798 81.798 0.65998 0 0 0 1.0071 1 37157 37157 1.4819 0 1 22864 2168 14604 14660 26493 26493 0.18403661090587775 PARRSRARRRW 11 Unmodified _PARRSRARRRW_ 0 0 0 REV__ENSG00000135116|ENST00000257572|HRK REV__ENSG00000135116|ENST00000257572|HRK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 734.4359741210938 2 734.435058 1466.85556 NaN NaN NaN NaN NaN NaN NaN 91.452 1 92.114 91.614 92.614 0.66198 0 0 0 1.008 1 42086 42086 0.35063 0 1 + 22865 12000 14605 14661 26494 26494 0.14081008662287786 PARRWRKKRRA 11 Unmodified _PARRWRKKRRA_ 0 0 0 ENST00000524666.5_1_11:65108438-65113200:+|nuORF;ENST00000444314.6_1_11:65101357-65109054:+|nuORF;nc|ENSG00000133884|Q92785-2|DPF2;ENSG00000133884|ENST00000528416|DPF2 ENST00000524666.5_1_11:65108438-65113200:+|nuORF ENST00000524666.5_1_11:65108438-65113200:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 740.9613037109375 2 740.963452 1479.91235 NaN NaN NaN NaN NaN NaN NaN 84.803 1 84.832 84.332 85.332 0.028603 0 0 0 1.0071 1 42384 42384 1.4819 1.1313 1 22866 2774 14606 14662 26495 26495 0.19159056218791193 PARSKGRRWHR 11 Unmodified _PARSKGRRWHR_ 0 0 0 ENST00000429947.1_1_2:242824154-242824229:+|nuORF ENST00000429947.1_1_2:242824154-242824229:+|nuORF ENST00000429947.1_1_2:242824154-242824229:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 703.82666015625 2 703.90306 1405.79157 NaN NaN NaN NaN NaN NaN NaN 77.78 1 77.78 77.28 78.28 0 0 0 0 1.0057 1 38156 38156 3.2813 0.78282 1 22867 7840 14607 14663 26496 26496 0.10490228505341292 PARTRKRRVPR 11 Unmodified _PARTRKRRVPR_ 0 0 0 ENST00000564489.1_1_16:75579850-75642318:-|nuORF;ENST00000562410.5_1_16:75579850-75589867:-|nuORF ENST00000564489.1_1_16:75579850-75642318:-|nuORF ENST00000564489.1_1_16:75579850-75642318:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 696.9041137695312 2 696.942185 1391.86982 NaN NaN NaN NaN NaN NaN NaN 84.197 1 84.225 83.725 84.725 0.028603 0 0 0 1.0071 1 41947 41947 1.4819 1.0812 1 22868 9033 14608 14664 26497 26497 0.1895566109055835 PARVRPKRSL 10 Unmodified _PARVRPKRSL_ 0 0 0 REV__ENST00000328914.4_1_7:4806266-4806500:+|nuORF REV__ENST00000328914.4_1_7:4806266-4806500:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.0785522460938 2 590.375281 1178.73601 NaN NaN NaN NaN NaN NaN NaN 93.912 1 94.543 94.043 95.043 0.63115 0 0 0 0.99983 1 43195 43195 1.8442 0 1 + 22869 15365 14609 14665 26498 26498 0.15379002265035524 PARWLVTTRKR 11 Unmodified _PARWLVTTRKR_ 0 0 0 ENST00000392025.5_1_19:41078013-41081323:+|nuORF ENST00000392025.5_1_19:41078013-41081323:+|nuORF ENST00000392025.5_1_19:41078013-41081323:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 692.4228515625 2 692.42022 1382.82589 NaN NaN NaN NaN NaN NaN NaN 100.99 1 101.31 100.81 101.81 0.31412 0 0 0 1.0079 1 46736 46736 1.1933 0.79263 1 22870 7510 14610 14666 26499 26499 0.1497863187355506 PARWWLQRHA 10 Unmodified _PARWWLQRHA_ 0 0 0 REV__ENST00000420783.7_1_3:49050883-49050958:+|nuORF REV__ENST00000420783.7_1_3:49050883-49050958:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 660.6753540039062 2 660.857255 1319.69996 NaN NaN NaN NaN NaN NaN NaN 17.961 1 18.622 18.122 19.122 0.66072 0 0 0 0.99983 1 8117 8117 1.8442 0 1 + 22871 16171 14611 14667 26500 26500 0.052895450881578654 PARYRRPRLYM 11 Unmodified _PARYRRPRLYM_ 0 0 0 REV__ENSG00000185372|ENST00000641551|OR2V1 REV__ENSG00000185372|ENST00000641551|OR2V1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 739.9117431640625 2 739.911704 1477.80886 NaN NaN NaN NaN NaN NaN NaN 60.675 1 61.415 60.915 61.915 0.7396 0 0 0 1.0071 1 28039 28039 1.4819 0.15237 1 + 22872 14017 14612 14668 26501 26501 0.08906387996125886 PASEEEMDECE 11 Unmodified _PASEEEMDECE_ 0 0 0 ENST00000421044.1_1_3:40637993-40638476:-|nuORF ENST00000421044.1_1_3:40637993-40638476:-|nuORF ENST00000421044.1_1_3:40637993-40638476:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.7164916992188 2 634.718301 1267.42205 NaN NaN NaN NaN NaN NaN NaN 86.955 1 86.955 86.455 87.455 0 0 0 0 1.0071 1 44705 44705 1.4819 0.15237 1 22873 7756 14613 14669 26502 26502 -0.20096580923313923 PASENSSAAHS 11 Unmodified _PASENSSAAHS_ 0 0 0 nc|ENSG00000069702|Q03167-2|TGFBR3;ENSG00000069702|ENST00000212355|TGFBR3;ENST00000532540.5_1_1:92149298-92327033:-|nuORF nc|ENSG00000069702|Q03167-2|TGFBR3 nc|ENSG00000069702|Q03167-2|TGFBR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.7337646484375 2 529.230884 1056.44722 3.0387 0.0016082 -0.4259 -0.0002254 2.6128 0.0013828 529.2301088932738 44.801 0.4436 45.069 44.83 45.274 0.26768 56 23 3 0 0 0 0.78292 1 20526 20526 7.609 0.31972 1 2080600 22874 752 14614 14670 26503 26503 -0.07874977223559654 PASEPWRRRRR 11 Unmodified _PASEPWRRRRR_ 0 0 0 ENST00000358625.3_1_9:137004970-137005837:+|nuORF ENST00000358625.3_1_9:137004970-137005837:+|nuORF ENST00000358625.3_1_9:137004970-137005837:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 733.5662841796875 2 733.913624 1465.8127 NaN NaN NaN NaN NaN NaN NaN 82.948 1 82.993 82.493 83.493 0.045006 0 0 0 1.0071 1 41041 41041 1.4819 0.51963 1 22875 7195 14615 14671 26504 26504 0.09842193814188249 PASFQRRRLRR 11 Unmodified _PASFQRRRLRR_ 0 0 0 ENST00000591444.1_3_19:38145628-38145952:-|nuORF;ENST00000351218.6_1_19:38145628-38145709:-|nuORF ENST00000591444.1_3_19:38145628-38145952:-|nuORF ENST00000591444.1_3_19:38145628-38145952:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 481.5839538574219 3 481.623637 1441.84908 NaN NaN NaN NaN NaN NaN NaN 63.469 1 63.469 62.969 63.969 0 0 0 0 1.0071 1 29863 29863 1.4551 0.24029 1 22876 7133 14616 14672 26505 26505 0.1458307071090985 PASGLRGPPRF 11 Unmodified _PASGLRGPPRF_ 0 0 0 ENST00000529864.1_1_8:145694018-145694201:+|nuORF ENST00000529864.1_1_8:145694018-145694201:+|nuORF ENST00000529864.1_1_8:145694018-145694201:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 577.4473266601562 2 577.825089 1153.63563 NaN NaN NaN NaN NaN NaN NaN 89.668 1 89.668 89.168 90.168 0 0 0 0 1.0038 1 46899 46899 5.7319 0.97584 1 22877 8702 14617 14673 26506 26506 0.06495345211374115 PASGPGPG 8 Unmodified _PASGPGPG_ 0 0 0 ENSG00000251322|ENST00000262795|SHANK3;nc|ENSG00000251322|Q9BYB0-3|SHANK3;ENST00000414786.6_1_22:51113069-51169737:+|nuORF;nc|ENSG00000251322|Q9BYB0|SHANK3;ENST00000361740.8_1_22:43015308-43015401:-|nuORF;ARHGAP30|p.D528Wfs*46|1|0.15|ENSG00000186517|chr1:161049527-161049528|TC/-|frameshift_variant;ARHGAP30|p.G815Efs*42|1|0.2|ENSG00000186517|chr1:161048577-161048577|C/-|frameshift_variant;nc|ENSG00000186517|Q7Z6I6-2|ARHGAP30;nc|ENSG00000186517|Q7Z6I6-3|ARHGAP30;ENSG00000186517|ENST00000368013|ARHGAP30 ENSG00000251322|ENST00000262795|SHANK3 ENSG00000251322|ENST00000262795|SHANK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 639.543212890625 1 639.309666 638.30239 4.134 0.0026429 -3.2724 -0.0020921 0.86162 0.00055084 639.3083270896101 97.022 0.61543 97.624 97.195 97.81 0.6019 35 28 2 0 0 0 0.7471 1 44509 44509 0.79363 0 1 876130 22878 6267 14618 14674 26507 26507 -0.031229488420990492 PASHPGPG 8 Unmodified _PASHPGPG_ 0 0 0 REV__ENST00000334554.11_1_22:20132949-20133189:+|nuORF REV__ENST00000334554.11_1_22:20132949-20133189:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 719.351318359375 1 719.347114 718.339838 3.6617 0.002634 1.1545 0.00083048 4.8161 0.0034645 719.3479074792688 78.228 1.0341 78.481 77.957 78.991 0.25335 99 59 2 0 0 0 0.7471 1 36225 36225 0.79363 0 1 1266800 + 22879 15408 14619 14675 26508 26508 -0.03059857576477043 PASHPGPG 8 Unmodified _PASHPGPG_ 0 0 0 REV__ENST00000334554.11_1_22:20132949-20133189:+|nuORF REV__ENST00000334554.11_1_22:20132949-20133189:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 719.347114 718.339838 3.6617 0.002634 1.1545 0.00083048 4.8161 0.0034645 719.3479074792688 78.228 1.0341 78.481 77.957 78.991 0.25335 0 0 NaN 0.79363 99 59 2 NaN NaN NaN NaN 0 NaN NaN 0 1266800 + 22880 15408 14619 14675 -0.03059857576477043 PASKRRIPV 9 Unmodified _PASKRRIPV_ 0 0 0 ENST00000587361.1_1_19:38799650-38806369:-|nuORF ENST00000587361.1_1_19:38799650-38806369:-|nuORF ENST00000587361.1_1_19:38799650-38806369:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.4281616210938 2 512.324725 1022.6349 NaN NaN NaN NaN NaN NaN NaN 94.075 1 94.161 93.661 94.661 0.086212 0 0 0 0.75166 1 49412 49412 10.824 1.4408 1 22881 9196 14620 14676 26509 26509 0.12448550562316996 PASLIMPSFL 10 Unmodified _PASLIMPSFL_ 0 0 0 CADPS2|p.G629Vfs*31|1|0.27|ENSG00000081803|chr7:122474493-122474493|C/-|frameshift_variant CADPS2|p.G629Vfs*31|1|0.27|ENSG00000081803|chr7:122474493-122474493|C/-|frameshift_variant CADPS2|p.G629Vfs*31|1|0.27|ENSG00000081803|chr7:122474493-122474493|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 359.20269775390625 3 359.200061 1074.57835 NaN NaN NaN NaN NaN NaN NaN 12.939 1 13.183 12.683 13.683 0.24346 0 0 0 0.83354 1 5634 5634 13.615 0 1 22882 97 14621 14677 26510 26510 0.044047418907666724 PASPRVSEPPE 11 Unmodified _PASPRVSEPPE_ 0 0 0 REV__nc|ENSG00000148356|Q6UWE0-3|LRSAM1 REV__nc|ENSG00000148356|Q6UWE0-3|LRSAM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.4503784179688 2 583.296027 1164.5775 NaN NaN NaN NaN NaN NaN NaN 81.336 1 81.336 80.836 81.836 0 0 0 0 1.0059 1 40506 40506 2.9952 0 1 + 22883 12533 14622 14678 26511 26511 0.0017961877545076277 PASQRPPRRRW 11 Unmodified _PASQRPPRRRW_ 0 0 0 ENST00000584868.1_1_19:40827171-40828232:-|nuORF ENST00000584868.1_1_19:40827171-40828232:-|nuORF ENST00000584868.1_1_19:40827171-40828232:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 703.8969116210938 2 703.897443 1405.78033 NaN NaN NaN NaN NaN NaN NaN 73.291 1 73.55 73.05 74.05 0.25876 0 0 0 1.0071 1 33661 33661 1.4819 0 1 22884 9170 14623 14679 26512 26512 0.09367406411183765 PASRRRWAKRP 11 Unmodified _PASRRRWAKRP_ 0 0 0 ENST00000216181.9_1_22:36745085-36745166:-|nuORF ENST00000216181.9_1_22:36745085-36745166:-|nuORF ENST00000216181.9_1_22:36745085-36745166:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 460.6177978515625 3 460.940966 1379.80107 NaN NaN NaN NaN NaN NaN NaN 69.622 1 69.622 69.122 70.122 0 0 0 0 1.0071 1 33649 33649 1.4551 0.34536 1 22885 6403 14624 14680 26513 26513 0.12635996790845638 PASSCCCCR 9 Unmodified _PASSCCCCR_ 0 0 0 REV__ENST00000525091.5_1_10:127408310-127436620:+|nuORF REV__ENST00000525091.5_1_10:127408310-127436620:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.1578063964844 2 465.158451 928.302348 NaN NaN NaN NaN NaN NaN NaN 66.064 1 66.064 65.564 66.564 0 0 0 0 0.90511 1 31527 31527 2.3027 1.5091 1 + 22886 17082 14625 14681 26514 26514 -0.16467099491922 PASSCCCCR 9 Unmodified _PASSCCCCR_ 0 0 0 REV__ENST00000525091.5_1_10:127408310-127436620:+|nuORF REV__ENST00000525091.5_1_10:127408310-127436620:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.1561584472656 2 465.158451 928.302348 NaN NaN NaN NaN NaN NaN NaN 72.01 1 72.268 71.768 72.768 0.25803 0 0 0 0.90511 1 33046 33046 2.3027 1.5091 1 + 22887 17082 14625 14681 26515 26515 -0.16467099491922 PASSNCARGRT 11 Unmodified _PASSNCARGRT_ 0 0 0 REV__ENSG00000115596|ENST00000233948|WNT6 REV__ENSG00000115596|ENST00000233948|WNT6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.3168334960938 2 560.269821 1118.52509 NaN NaN NaN NaN NaN NaN NaN 82.694 1 82.694 82.194 83.194 0 0 0 0 1.0038 1 41485 41485 5.7319 0.50118 1 + 22888 11375 14626 14682 26516 26516 -0.02943242839182858 PASWSPKRQGL 11 Unmodified _PASWSPKRQGL_ 0 0 0 ENST00000392617.7_1_17:72667365-72740608:+|nuORF ENST00000392617.7_1_17:72667365-72740608:+|nuORF ENST00000392617.7_1_17:72667365-72740608:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.833251953125 2 613.835654 1225.65676 NaN NaN NaN NaN NaN NaN NaN 67.055 1 67.055 66.555 67.555 0 0 0 0 0.97175 1 32094 32094 9.3831 0.63772 1 22889 7518 14627 14683 26517 26517 0.052953105202277584 PATAFLQRPYF 11 Unmodified _PATAFLQRPYF_ 0 0 0 ENSG00000083857|ENST00000441802|FAT1;ENST00000500085.2_1_4:187509748-187518366:-|nuORF ENSG00000083857|ENST00000441802|FAT1 ENSG00000083857|ENST00000441802|FAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 655.8470458984375 2 655.84823 1309.68191 NaN NaN NaN NaN NaN NaN NaN 46.481 1 47.133 46.633 47.633 0.65219 0 0 0 1.0038 1 21290 21290 5.7319 0 1 22890 946 14628 14684 26518 26518 0.039453653227838004 PATASPDANNC 11 Unmodified _PATASPDANNC_ 0 0 0 REV__ENST00000383811.7_1_3:9975921-9976029:+|nuORF REV__ENST00000383811.7_1_3:9975921-9976029:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.7225341796875 2 530.721838 1059.42912 NaN NaN NaN NaN NaN NaN NaN 83.995 1 83.995 83.495 84.495 0 0 0 0 1.0034 1 42422 42422 6.2058 1.4498 1 + 22891 15899 14629 14685 26519 26519 -0.09821435469939388 PATAVIIYRMR 11 Unmodified _PATAVIIYRMR_ 0 0 0 ENSG00000256235|ENST00000526627|SMIM3 ENSG00000256235|ENST00000526627|SMIM3 ENSG00000256235|ENST00000526627|SMIM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 645.8705444335938 2 645.871182 1289.72781 NaN NaN NaN NaN NaN NaN NaN 85.136 1 85.136 84.636 85.636 0 0 0 0 1.0038 1 43261 43261 5.7319 0.43497 1 22892 6289 14630 14686 26520 26520 0.09453687233371966 PATILLKAK 9 Unmodified _PATILLKAK_ 0 0 0 nc|ENSG00000166743|Q08AH1-2|ACSM1;ENSG00000166743|ENST00000520010|ACSM1 nc|ENSG00000166743|Q08AH1-2|ACSM1 nc|ENSG00000166743|Q08AH1-2|ACSM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.82366943359375 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 77.34 1 77.34 76.84 77.84 0 0 0 0 0.86044 1 37926 37926 7.2892 0 1 22893 4503 14631 14687 26521 26521 0.14868398242037983 PATLIHRLFKV 11 Unmodified _PATLIHRLFKV_ 0 0 0 ENST00000332408.8_1_15:49127111-49135710:-|nuORF ENST00000332408.8_1_15:49127111-49135710:-|nuORF ENST00000332408.8_1_15:49127111-49135710:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 647.902099609375 2 647.90334 1293.79213 NaN NaN NaN NaN NaN NaN NaN 80.981 1 81.641 81.141 82.141 0.65998 0 0 0 1.0071 1 37312 37312 1.4819 0 1 22894 6999 14632 14688 26522 26522 0.15698210381810895 PATLRRHQK 9 Unmodified _PATLRRHQK_ 0 0 0 ENSG00000204532|ENST00000534327|ZSCAN5C ENSG00000204532|ENST00000534327|ZSCAN5C ENSG00000204532|ENST00000534327|ZSCAN5C MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.8323364257812 2 553.830706 1105.64686 3.6557 0.0020246 -0.83167 -0.0004606 2.824 0.001564 553.8301423476478 84.35 0.83361 85.012 84.715 85.548 0.66219 69 47 2 0 0 0 0.11256 1 38744 38744 0 0 1 582610 22895 6015 14633 14689 26523 26523 0.09826167305504896 PATPMFFIL 9 Unmodified _PATPMFFIL_ 0 0 0 ENST00000581682.1_1_17:11787806-11828539:+|nuORF;nc|ENSG00000007174|Q9NYC9-3|DNAH9;nc|ENSG00000007174|Q9NYC9-2|DNAH9;ENSG00000007174|ENST00000262442|DNAH9 ENST00000581682.1_1_17:11787806-11828539:+|nuORF ENST00000581682.1_1_17:11787806-11828539:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.7816772460938 2 518.780439 1035.54633 NaN NaN NaN NaN NaN NaN NaN 101.18 1 101.18 100.68 101.68 0 0 0 0 0.90511 1 55910 55910 2.3027 0.24298 1 22896 361 14634 14690 26524 26524 0.029973742076435883 PATPSIHRVR 10 Unmodified _PATPSIHRVR_ 0 0 0 REV__ENSG00000106628|ENST00000610533|POLD2 REV__ENSG00000106628|ENST00000610533|POLD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3314819335938 2 567.330539 1132.64652 3.501 0.0019862 -1.0063 -0.00057089 2.4947 0.0014153 567.3299289660972 83.43 1.0396 83.678 83.242 84.282 0.24722 143 62 3 0 0 0 0.93713 1 38364 38364 1.4819 0 1 950650 + 22897 11091 14635 14691 26525 26525 0.08550747585650242 PATPSIHRVR 10 Unmodified _PATPSIHRVR_ 0 0 0 REV__ENSG00000106628|ENST00000610533|POLD2 REV__ENSG00000106628|ENST00000610533|POLD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.331787109375 2 567.330539 1132.64652 3.6436 0.0020671 -0.87711 -0.00049761 2.7665 0.0015695 567.3299142838137 85.817 1.6519 86.066 85.213 86.865 0.24857 189 85 3 0 0 0 0.93713 1 39456 39456 1.4819 0.8804 1 2716600 + 22898 11091 14635 14691 26526 26526 0.08550747585650242 PATPSIHRVR 10 Unmodified _PATPSIHRVR_ 0 0 0 REV__ENSG00000106628|ENST00000610533|POLD2 REV__ENSG00000106628|ENST00000610533|POLD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.3319702148438 2 567.330539 1132.64652 3.738 0.0021207 -0.80606 -0.0004573 2.9319 0.0016634 567.329888988863 85.423 1.7358 86.089 85.344 87.08 0.66566 236 91 4 0 0 0 0.93713 2 39357 39357;39403 1.4819 0.8804 1 3198100 + 22899 11091 14635 14691 26527;26528 26527 0.08550747585650242 PATPVSVPL 9 Unmodified _PATPVSVPL_ 0 0 0 REV__ENST00000579702.1_1_18:51025702-51053171:+|nuORF REV__ENST00000579702.1_1_18:51025702-51053171:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 880.5160522460938 1 880.513845 879.506569 3.6672 0.003229 0.40654 0.00035797 4.0737 0.003587 880.514082516766 58.923 0.11603 58.923 58.824 58.94 0 10 7 2 0 0 0 0.0013377 1 27210 27210 117.6 50.255 1 1235100 + 22900 14097 14636 14692 26529 26529 0.06199570528565346 PATPVSVPL 9 Unmodified _PATPVSVPL_ 0 0 0 REV__ENST00000579702.1_1_18:51025702-51053171:+|nuORF REV__ENST00000579702.1_1_18:51025702-51053171:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 880.5175170898438 1 880.513845 879.506569 3.9914 0.0035144 0.26268 0.00023129 4.254 0.0037457 880.5137547167594 57.927 0.20236 58.595 58.428 58.63 0.66829 10 9 2 0 0 0 0.032303 1 26483 26483 54.774 16.622 1 568240 + 22901 14097 14636 14692 26530 26530 0.06199570528565346 PATPVSVPL 9 Unmodified _PATPVSVPL_ 0 0 0 REV__ENST00000579702.1_1_18:51025702-51053171:+|nuORF REV__ENST00000579702.1_1_18:51025702-51053171:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 880.513845 879.506569 3.6672 0.003229 0.40654 0.00035797 4.0737 0.003587 880.514082516766 58.923 0.11603 58.923 58.824 58.94 0 0.16386 7.1841E-05 NaN 117.6 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 1235100 + 22902 14097 14636 14692 0.06199570528565346 PATPVSVPL 9 Unmodified _PATPVSVPL_ 0 0 0 REV__ENST00000579702.1_1_18:51025702-51053171:+|nuORF REV__ENST00000579702.1_1_18:51025702-51053171:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 880.513845 879.506569 3.9914 0.0035144 0.26268 0.00023129 4.254 0.0037457 880.5137547167594 57.927 0.20236 58.595 58.428 58.63 0.66829 -0.16386 -5.4834E-05 NaN 117.6 10 9 2 NaN NaN NaN NaN 0 NaN NaN 0 568240 + 22903 14097 14636 14692 0.06199570528565346 PATQEKRRRRF 11 Unmodified _PATQEKRRRRF_ 0 0 0 REV__CCDC8|p.P483Lfs*39|1|0.35|ENSG00000169515|chr19:46411363-46411363|G/-|frameshift_variant REV__CCDC8|p.P483Lfs*39|1|0.35|ENSG00000169515|chr19:46411363-46411363|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 722.9132080078125 2 722.915833 1443.81711 NaN NaN NaN NaN NaN NaN NaN 64.316 1 64.316 63.816 64.816 0 0 0 0 1.0071 1 30444 30444 1.4819 0 1 + 22904 9994 14637 14693 26531 26531 0.11295658237099815 PATRRKQRLPV 11 Unmodified _PATRRKQRLPV_ 0 0 0 ENST00000308086.2_1_12:72057485-72057791:+|nuORF ENST00000308086.2_1_12:72057485-72057791:+|nuORF ENST00000308086.2_1_12:72057485-72057791:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 661.4147338867188 2 661.412395 1320.81024 NaN NaN NaN NaN NaN NaN NaN 86.108 1 86.357 85.857 86.857 0.24857 0 0 0 1.0079 1 39632 39632 1.4819 0 1 22905 6851 14638 14694 26532 26532 0.1626634535653011 PATVDGPSQPN 11 Unmodified _PATVDGPSQPN_ 0 0 0 REV__ENST00000541239.5_1_13:111293886-111295180:-|nuORF REV__ENST00000541239.5_1_13:111293886-111295180:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.7582397460938 2 541.759278 1081.504 NaN NaN NaN NaN NaN NaN NaN 44.5 1 45.321 44.821 45.821 0.82075 0 0 0 1.0047 1 20264 20264 4.5289 1.5336 1 + 22906 17217 14639 14695 26533 26533 -0.033489296670495605 PATVGATVP 9 Unmodified _PATVGATVP_ 0 0 0 REV__ENSG00000164900|ENST00000297537|GBX1 REV__ENSG00000164900|ENST00000297537|GBX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 812.4532470703125 1 812.451245 811.443968 3.7918 0.0030807 -2.0088 -0.0016321 1.783 0.0014486 812.4492319816493 82.96 0.2641 83.207 83.072 83.336 0.24722 25 14 2 0 0 0 0.7295 1 38167 38167 8.5933 2.8329 1 1306700 + 22907 13120 14640 14696 26534 26534 0.030704244603725783 PATVGATVP 9 Unmodified _PATVGATVP_ 0 0 0 REV__ENSG00000164900|ENST00000297537|GBX1 REV__ENSG00000164900|ENST00000297537|GBX1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 812.451245 811.443968 3.7918 0.0030807 -2.0088 -0.0016321 1.783 0.0014486 812.4492319816493 82.96 0.2641 83.207 83.072 83.336 0.24722 -0.049133 0.00034881 NaN 8.5933 25 14 2 NaN NaN NaN NaN 0 NaN NaN 0 1306700 + 22908 13120 14640 14696 0.030704244603725783 PATVRKRRLS 10 Unmodified _PATVRKRRLS_ 0 0 0 ENSG00000283247|ENST00000636578|CCDC201 ENSG00000283247|ENST00000636578|CCDC201 ENSG00000283247|ENST00000636578|CCDC201 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.0438842773438 2 592.372738 1182.73092 4.2857 0.0025387 -1.1336 -0.0006715 3.1521 0.0018672 592.3718323025862 94.109 0.54446 94.369 94.114 94.658 0.25975 45 27 2 0 0 0 0.90196 1 43311 43311 3.5965 1.7523 1 551290 22909 6369 14641 14697 26535 26535 0.14686698402420006 PATWNYIRWLL 11 Unmodified _PATWNYIRWLL_ 0 0 0 chr12:68333664-68442064|453|15.57|0.5|4.97|-|2|LINC02384,LINC02384|1 chr12:68333664-68442064|453|15.57|0.5|4.97|-|2|LINC02384,LINC02384|1 chr12:68333664-68442064|453|15.57|0.5|4.97|-|2|LINC02384,LINC02384|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 716.8902587890625 2 716.890429 1431.76631 NaN NaN NaN NaN NaN NaN NaN 44.746 1 44.746 44.246 45.246 0 0 0 0 1.008 1 20459 20459 0.35063 0 1 22910 147 14642 14698 26536 26536 0.0676931613954821 PAVALIRKLI 10 Unmodified _PAVALIRKLI_ 0 0 0 ENSG00000092148|ENST00000399332|HECTD1 ENSG00000092148|ENST00000399332|HECTD1 ENSG00000092148|ENST00000399332|HECTD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.3742065429688 2 547.376426 1092.7383 NaN NaN NaN NaN NaN NaN NaN 80.87 1 80.87 80.37 81.37 0 0 0 0 0.99983 1 40238 40238 1.8442 0 1 22911 1093 14643 14699 26537 26537 0.19564037950112834 PAVARQHRP 9 Unmodified _PAVARQHRP_ 0 0 0 ENSG00000050327|ENST00000056217|ARHGEF5 ENSG00000050327|ENST00000056217|ARHGEF5 ENSG00000050327|ENST00000056217|ARHGEF5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.294921875 2 516.296499 1030.57845 NaN NaN NaN NaN NaN NaN NaN 95.277 1 95.359 94.859 95.859 0.082001 0 0 0 0.69911 1 50329 50329 12.532 1.0368 1 22912 582 14644 14700 26538 26538 0.06437922725649514 PAVEEEEE 8 Unmodified _PAVEEEEE_ 0 0 0 ENSG00000183434|ENST00000310125|TFDP3 ENSG00000183434|ENST00000310125|TFDP3 ENSG00000183434|ENST00000310125|TFDP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 311.13458251953125 3 311.13455 930.381822 NaN NaN NaN NaN NaN NaN NaN 70.948 1 71.652 71.152 72.152 0.70386 0 0 0 0.99035 1 34035 34035 0.45834 0 1 22913 5381 14645 14701 26539 26539 -0.08615391469277256 PAVEEEEEE 9 Unmodified _PAVEEEEEE_ 0 0 0 ENSG00000183434|ENST00000310125|TFDP3 ENSG00000183434|ENST00000310125|TFDP3 ENSG00000183434|ENST00000310125|TFDP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.6824340820312 2 530.719484 1059.42441 NaN NaN NaN NaN NaN NaN NaN 85.527 1 85.527 85.027 86.027 0 0 0 0 0.89509 1 43570 43570 4.756 0.42677 1 22914 5381 14646 14702 26540 26540 -0.10292041131719998 PAVEEEEEE 9 Unmodified _PAVEEEEEE_ 0 0 0 ENSG00000183434|ENST00000310125|TFDP3 ENSG00000183434|ENST00000310125|TFDP3 ENSG00000183434|ENST00000310125|TFDP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.7213134765625 2 530.719484 1059.42441 NaN NaN NaN NaN NaN NaN NaN 92.408 1 92.491 91.991 92.991 0.082848 0 0 0 0.89509 1 48145 48145 4.756 0.42677 1 22915 5381 14646 14702 26541 26541 -0.10292041131719998 PAVEEEEEE 9 Unmodified _PAVEEEEEE_ 0 0 0 ENSG00000183434|ENST00000310125|TFDP3 ENSG00000183434|ENST00000310125|TFDP3 ENSG00000183434|ENST00000310125|TFDP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.2224731445312 2 530.719484 1059.42441 3.9951 0.0021203 1.324 0.00070269 5.3191 0.002823 530.7212703171425 97.849 0.14885 98.139 98.122 98.271 0.28924 26 17 2 0 0 0 0.95612 1 44995 44995 4.756 0.42677 1 16557000 22916 5381 14646 14702 26542 26542 -0.10292041131719998 PAVFIHAA 8 Unmodified _PAVFIHAA_ 0 0 0 REV__ENST00000535977.5_1_16:678253-678325:+|nuORF REV__ENST00000535977.5_1_16:678253-678325:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 413.23583984375 2 413.234513 824.454474 2.6753 0.0011055 -0.38926 -0.00016085 2.2861 0.00094469 413.2342803006411 50.056 0.212 50.056 49.935 50.147 0 16 10 2 0 0 0 0.7471 1 22932 22932 0.79363 0 1 356870 + 22917 17178 14647 14703 26543 26543 0.03522451905462276 PAVFIHAA 8 Unmodified _PAVFIHAA_ 0 0 0 REV__ENST00000535977.5_1_16:678253-678325:+|nuORF REV__ENST00000535977.5_1_16:678253-678325:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 413.234513 824.454474 2.7509 0.0011368 -1.2909 -0.00053344 1.46 0.00060333 413.2339559681985 48.987 0.24392 49.814 49.675 49.919 0.82705 -0.12125 -0.00045993 NaN 0.79363 16 12 2 NaN NaN NaN NaN 0 NaN NaN 0 298000 + 22918 17178 14647 14703 0.03522451905462276 PAVFWWWTMRS 11 Unmodified _PAVFWWWTMRS_ 0 0 0 REV__nc|ENSG00000148357|Q8NDA2-4|HMCN2 REV__nc|ENSG00000148357|Q8NDA2-4|HMCN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 489.6067810058594 3 489.57278 1465.69651 NaN NaN NaN NaN NaN NaN NaN 64.18 1 64.895 64.395 65.395 0.71521 0 0 0 1.0071 1 30210 30210 1.4551 0.94916 1 + 22919 17975 14648 14704 26544 26544 -0.017708858007381423 PAVIGAPW 8 Unmodified _PAVIGAPW_ 0 0 0 ENST00000382361.7_1_7:5645882-5646230:+|nuORF ENST00000382361.7_1_7:5645882-5646230:+|nuORF ENST00000382361.7_1_7:5645882-5646230:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.4515991210938 1 810.450851 809.443575 3.2917 0.0026678 -0.84747 -0.00068683 2.4443 0.0019809 810.4515700497883 89.87 0.15783 89.87 89.797 89.955 0 33 22 2 0 0 0 0.73686 1 47053 47053 2.8892 0 1 22471000 22920 7493 14649 14705 26545 26545 0.031230495311774575 PAVIGAPW 8 Unmodified _PAVIGAPW_ 0 0 0 ENST00000382361.7_1_7:5645882-5646230:+|nuORF ENST00000382361.7_1_7:5645882-5646230:+|nuORF ENST00000382361.7_1_7:5645882-5646230:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 810.2212524414062 1 810.450851 809.443575 3.3449 0.0027109 -0.66163 -0.00053622 2.6833 0.0021747 810.4500675582584 95.498 0.094406 95.498 95.421 95.516 0 19 13 2 0 0 0 0.14249 1 51374 51374 2.8892 0 1 22770000 22921 7493 14649 14705 26546 26546 0.031230495311774575 PAVKARRT 8 Unmodified _PAVKARRT_ 0 0 0 REV__nc|ENSG00000122986|Q96D96-2|HVCN1 REV__nc|ENSG00000122986|Q96D96-2|HVCN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.0299072265625 2 449.782693 897.550834 NaN NaN NaN NaN NaN NaN NaN 101.9 1 102.21 101.71 102.71 0.31737 0 0 0 0.99035 1 47144 47144 0.6015 0 1 + 22922 11600 14650 14706 26547 26547 0.09796019465420613 PAVKKFVLK 9 Unmodified _PAVKKFVLK_ 0 0 0 ENSG00000076201|ENST00000265562|PTPN23;ENST00000462998.1_1_3:47422574-47437716:+|nuORF ENSG00000076201|ENST00000265562|PTPN23 ENSG00000076201|ENST00000265562|PTPN23 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.2950439453125 2 515.344595 1028.67464 NaN NaN NaN NaN NaN NaN NaN 65.319 1 65.319 64.819 65.819 0 0 0 0 0.89509 1 31103 31103 4.756 0 1 22923 843 14651 14707 26548 26548 0.1614467751301163 PAVKKRTVRRL 11 Unmodified _PAVKKRTVRRL_ 0 0 0 REV__nc|ENSG00000136710|Q96NT0-2|CCDC115 REV__nc|ENSG00000136710|Q96NT0-2|CCDC115 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 662.4363403320312 2 662.438412 1322.86227 NaN NaN NaN NaN NaN NaN NaN 58.673 1 59.432 58.932 59.932 0.75894 0 0 0 1.0071 1 26929 26929 1.4819 1.1313 1 + 22924 17952 14652 14708 26549 26549 0.21375508770302076 PAVKLHIKL 9 Unmodified _PAVKLHIKL_ 0 0 0 REV__ENST00000514671.5_1_4:83275248-83276060:-|nuORF REV__ENST00000514671.5_1_4:83275248-83276060:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.8410339355469 2 509.84222 1017.66989 NaN NaN NaN NaN NaN NaN NaN 88.069 1 88.069 87.569 88.569 0 0 0 0 0.90511 1 45602 45602 2.3027 0.4585 1 + 22925 17010 14653 14709 26550 26550 0.1617579337026882 PAVKLWFQVL 10 Unmodified _PAVKLWFQVL_ 0 0 0 nc|ENSG00000007516|O94812-7|BAIAP3;nc|ENSG00000007516|O94812-5|BAIAP3;nc|ENSG00000007516|O94812-3|BAIAP3;ENSG00000007516|ENST00000426824|BAIAP3;nc|ENSG00000007516|O94812-2|BAIAP3;nc|ENSG00000007516|O94812|BAIAP3 nc|ENSG00000007516|O94812-7|BAIAP3 nc|ENSG00000007516|O94812-7|BAIAP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 600.4052124023438 2 600.860609 1199.70667 NaN NaN NaN NaN NaN NaN NaN 76.344 1 77.008 76.508 77.508 0.66387 0 0 0 0.99983 1 35169 35169 1.8442 0 1 22926 364 14654 14710 26551 26551 0.11480045196185529 PAVKPVPC 8 Unmodified _PAVKPVPC_ 0 0 0 REV__ENSG00000283787|ENST00000640310|PRR33 REV__ENSG00000283787|ENST00000640310|PRR33 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 810.3348388671875 1 810.454222 809.446945 2.6521 0.0021494 -1.3024 -0.0010556 1.3497 0.0010939 810.4506986274904 90.626 0.12601 90.701 90.645 90.771 0.075279 16 13 2 0 0 0 0.14249 1 46769 46769 2.8892 0 1 12804000 + 22927 14769 14655 14711 26552 26552 0.03459976313536117 PAVKREYIRKG 11 Unmodified _PAVKREYIRKG_ 0 0 0 REV__CERK|p.G250Ifs*57|1|0.12|ENSG00000100422|chr22:46701648-46701678|GCAGCGCCGAGGTTTCTGCGTCGCTGGTGCC/-|frameshift_variant REV__CERK|p.G250Ifs*57|1|0.12|ENSG00000100422|chr22:46701648-46701678|GCAGCGCCGAGGTTTCTGCGTCGCTGGTGCC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 658.8935546875 2 658.893503 1315.77245 NaN NaN NaN NaN NaN NaN NaN 106.68 1 106.73 106.23 107.23 0.04837 0 0 0 0.98464 1 57700 57700 8.1555 2.4237 1 + 22928 10002 14656 14712 26553 26553 0.1271983437104609 PAVLILASYLF 11 Unmodified _PAVLILASYLF_ 0 0 0 ENSG00000174914|ENST00000642097|OR9G1 ENSG00000174914|ENST00000642097|OR9G1 ENSG00000174914|ENST00000642097|OR9G1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 603.9481811523438 2 603.860275 1205.706 NaN NaN NaN NaN NaN NaN NaN 77.589 1 78.252 77.752 78.752 0.66303 0 0 0 1.0055 1 35756 35756 3.5965 0 1 22929 5002 14657 14713 26554 26554 0.11137205756449475 PAVLKILL 8 Unmodified _PAVLKILL_ 0 0 0 REV__ENST00000256442.9_1_5:68473515-68473575:+|nuORF REV__ENST00000256442.9_1_5:68473515-68473575:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 433.8057556152344 2 433.807314 865.600075 NaN NaN NaN NaN NaN NaN NaN 60.825 1 61.565 61.065 62.065 0.7396 0 0 0 0.99035 1 28130 28130 2.8892 0 1 + 22930 14936 14658 14714 26555 26555 0.16189914701647012 PAVLLILKHL 10 Unmodified _PAVLLILKHL_ 0 0 0 ENST00000274680.8_1_6:5261815-5368788:+|nuORF;ENST00000602691.1_1_6:5261815-5368856:+|nuORF ENST00000274680.8_1_6:5261815-5368788:+|nuORF ENST00000274680.8_1_6:5261815-5368788:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.879638671875 2 558.878802 1115.74305 NaN NaN NaN NaN NaN NaN NaN 87.851 1 87.851 87.351 88.351 0 0 0 0 0.99983 1 45430 45430 1.8442 0 1 22931 6669 14659 14715 26556 26556 0.18980922092896435 PAVLLILKHL 10 Unmodified _PAVLLILKHL_ 0 0 0 ENST00000274680.8_1_6:5261815-5368788:+|nuORF;ENST00000602691.1_1_6:5261815-5368856:+|nuORF ENST00000274680.8_1_6:5261815-5368788:+|nuORF ENST00000274680.8_1_6:5261815-5368788:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.7681274414062 2 558.878802 1115.74305 NaN NaN NaN NaN NaN NaN NaN 90.286 1 90.35 89.85 90.85 0.064346 0 0 0 0.99983 1 46488 46488 1.8442 0 1 22932 6669 14659 14715 26557 26557 0.18980922092896435 PAVLLILKHL 10 Unmodified _PAVLLILKHL_ 0 0 0 ENST00000274680.8_1_6:5261815-5368788:+|nuORF;ENST00000602691.1_1_6:5261815-5368856:+|nuORF ENST00000274680.8_1_6:5261815-5368788:+|nuORF ENST00000274680.8_1_6:5261815-5368788:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.8796997070312 2 558.878802 1115.74305 NaN NaN NaN NaN NaN NaN NaN 95.386 1 95.993 95.493 96.493 0.60769 0 0 0 0.99983 1 43866 43866 1.8442 0 1 22933 6669 14659 14715 26558 26558 0.18980922092896435 PAVLRRKRI 9 Unmodified _PAVLRRKRI_ 0 0 0 REV__ENST00000593099.5_1_17:33331270-33331522:+|nuORF REV__ENST00000593099.5_1_17:33331270-33331522:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.8765258789062 2 554.874917 1107.73528 NaN NaN NaN NaN NaN NaN NaN 84.659 1 84.659 84.159 85.159 0 0 0 0 0.90511 1 42907 42907 2.3027 0 1 + 22934 10175 14660 14716 26559 26559 0.185722076159891 PAVLRRKRIC 10 Unmodified _PAVLRRKRIC_ 0 0 0 REV__ENST00000593099.5_1_17:33331270-33331522:+|nuORF REV__ENST00000593099.5_1_17:33331270-33331522:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 404.59039306640625 3 404.588765 1210.74446 2.9401 0.0011895 0.97221 0.00039334 3.9123 0.0015829 404.58901111196343 31.191 0.65288 31.809 31.608 32.261 0.61737 125 45 3 0 0 0 0.94099 1 14267 14267 0.69767 0.69767 1 1201100 + 22935 10175 14661 14717 26560 26560 0.14752232910018392 PAVLSPAARAR 11 Unmodified _PAVLSPAARAR_ 0 0 0 ENST00000329421.7_1_1:32800654-32801959:-|nuORF ENST00000329421.7_1_1:32800654-32801959:-|nuORF ENST00000329421.7_1_1:32800654-32801959:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.8311767578125 2 554.832914 1107.65128 NaN NaN NaN NaN NaN NaN NaN 86.407 1 86.407 85.907 86.907 0 0 0 0 1.0034 1 44278 44278 6.2058 0 1 22936 6980 14662 14718 26561 26561 0.1017563172838436 PAVLSSKRRR 10 Unmodified _PAVLSSKRRR_ 0 0 0 ENSG00000184661|ENST00000330560|CDCA2;CDCA2|p.S605Cfs*25|1|0.07|ENSG00000184661|chr8:25503512-25503513|-/ATGTAAAA|frameshift_variant;CDCA2|p.S605Ffs*27|1|0.04|ENSG00000184661|chr8:25503514-25503515|-/TTGA|frameshift_variant ENSG00000184661|ENST00000330560|CDCA2 ENSG00000184661|ENST00000330560|CDCA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.9847412109375 2 585.364913 1168.71527 NaN NaN NaN NaN NaN NaN NaN 64.986 1 65.695 65.195 66.195 0.70891 0 0 0 0.99983 1 30655 30655 1.8442 0 1 22937 5456 14663 14719 26562 26562 0.1376641188535359 PAVLVVFIFVL 11 Unmodified _PAVLVVFIFVL_ 0 0 0 ENSG00000167355|ENST00000300773|OR51B5 ENSG00000167355|ENST00000300773|OR51B5 ENSG00000167355|ENST00000300773|OR51B5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 608.7634887695312 2 608.888835 1215.76312 NaN NaN NaN NaN NaN NaN NaN 75.557 1 75.814 75.314 76.314 0.25704 0 0 0 0.99968 1 34772 34772 6.7232 0 1 22938 4546 14664 14720 26563 26563 0.16386673032843646 PAVPPKKIEAA 11 Unmodified _PAVPPKKIEAA_ 0 0 0 REV__nc|ENSG00000180263|Q6ZV73-2|FGD6 REV__nc|ENSG00000180263|Q6ZV73-2|FGD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.842041015625 2 560.839874 1119.66519 NaN NaN NaN NaN NaN NaN NaN 49.359 1 49.62 49.12 50.12 0.26146 0 0 0 1.0038 1 22563 22563 5.7319 1.4026 1 + 22939 13820 14665 14721 26564 26564 0.11014864436833705 PAVPRRRRRRK 11 Unmodified _PAVPRRRRRRK_ 0 0 0 REV__ENSG00000253276|ENST00000523505|CCDC71L REV__ENSG00000253276|ENST00000523505|CCDC71L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 724.467529296875 2 724.468901 1446.92325 NaN NaN NaN NaN NaN NaN NaN 73.085 1 73.749 73.249 74.249 0.66398 0 0 0 1.0071 1 33571 33571 1.4819 1.1749 1 + 22940 14658 14666 14722 26565 26565 0.2176645859308337 PAVPRRRRRRK 11 Unmodified _PAVPRRRRRRK_ 0 0 0 REV__ENSG00000253276|ENST00000523505|CCDC71L REV__ENSG00000253276|ENST00000523505|CCDC71L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 724.4677734375 2 724.468901 1446.92325 NaN NaN NaN NaN NaN NaN NaN 89.025 1 89.704 89.204 90.204 0.67818 0 0 0 1.008 1 40993 40993 0.35063 0.043601 1 + 22941 14658 14666 14722 26566 26566 0.2176645859308337 PAVQREQQQ 9 Unmodified _PAVQREQQQ_ 0 0 0 REV__ENST00000171887.8_1_2:218667769-218668381:-|nuORF REV__ENST00000171887.8_1_2:218667769-218668381:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1084.5535888671875 1 1083.55415 1082.54687 3.53 0.003825 -1.8411 -0.0019949 1.6889 0.00183 1083.5551296973822 83.001 0.24243 83.661 83.513 83.755 0.66019 20 12 2 0 0 0 0.92809 1 38267 38267 5.2307 0 1 423570 + 22942 14787 14667 14723 26567 26567 0.00889885181027239 PAVRFEGR 8 Unmodified _PAVRFEGR_ 0 0 0 ENST00000538790.1_1_12:122505978-122506339:+|nuORF ENST00000538790.1_1_12:122505978-122506339:+|nuORF ENST00000538790.1_1_12:122505978-122506339:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.2594299316406 2 466.259051 930.503549 NaN NaN NaN NaN NaN NaN NaN 39.189 1 39.453 38.953 39.953 0.26408 0 0 0 0.99035 1 17833 17833 2.8892 0 1 22943 8786 14668 14724 26568 26568 0.03551740194427566 PAVRRIIVPTV 11 Unmodified _PAVRRIIVPTV_ 0 0 0 REV__ENST00000581850.1_1_6:166362881-166362932:-|nuORF REV__ENST00000581850.1_1_6:166362881-166362932:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 610.442138671875 2 610.895515 1219.77648 NaN NaN NaN NaN NaN NaN NaN 86.567 1 86.567 86.067 87.067 0 0 0 0 1.0057 1 44408 44408 3.2813 1.4371 1 + 22944 17512 14669 14725 26569 26569 0.1753792386477926 PAVRWDSYENF 11 Unmodified _PAVRWDSYENF_ 0 0 0 nc|ENSG00000111077|Q63HR2-5|TNS2;nc|ENSG00000111077|Q63HR2-2|TNS2;ENST00000549311.7_1_12:53443879-53456445:+|nuORF;nc|ENSG00000111077|Q63HR2-6|TNS2;ENSG00000111077|ENST00000314250|TNS2;nc|ENSG00000111077|Q63HR2-4|TNS2;TNS2|p.R491Gfs*29|1|0.24|ENSG00000111077|chr12:53059109-53059109|C/-|frameshift_variant;TNS2|p.T701Cfs*52|1|0.31|ENSG00000111077|chr12:53059738-53059747|GCCTACAGCA/-|frameshift_variant nc|ENSG00000111077|Q63HR2-5|TNS2 nc|ENSG00000111077|Q63HR2-5|TNS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 462.0451354980469 3 461.882448 1382.62551 NaN NaN NaN NaN NaN NaN NaN 71.919 1 72.622 72.122 73.122 0.70386 0 0 0 1.0071 1 34576 34576 0.50596 0 1 22945 1743 14670 14726 26570 26570 -0.05049307304534523 PAVSEKLRHTK 11 Unmodified _PAVSEKLRHTK_ 0 0 0 REV__ENST00000527039.1_1_11:209766-212514:+|nuORF REV__ENST00000527039.1_1_11:209766-212514:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.3348999023438 2 633.369861 1264.72517 NaN NaN NaN NaN NaN NaN NaN 41.848 1 42.656 42.156 43.156 0.80855 0 0 0 1.0034 1 18995 18995 6.2058 0.47393 1 + 22946 13746 14671 14727 26571 26571 0.1033955510006308 PAVSKEARRMR 11 Unmodified _PAVSKEARRMR_ 0 0 0 REV__ENSG00000160602|ENST00000268766|NEK8 REV__ENSG00000160602|ENST00000268766|NEK8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 650.8687133789062 2 650.866963 1299.71937 NaN NaN NaN NaN NaN NaN NaN 73.543 1 73.543 73.043 74.043 0 0 0 0 1.0041 1 35871 35871 5.2969 1.7004 1 + 22947 12884 14672 14728 26572 26572 0.08150133316758001 PAVSLVRRPER 11 Unmodified _PAVSLVRRPER_ 0 0 0 REV__ENST00000483778.5_1_2:242593961-242598937:+|nuORF REV__ENST00000483778.5_1_2:242593961-242598937:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 640.7522583007812 2 640.383303 1278.75205 NaN NaN NaN NaN NaN NaN NaN 88.908 1 88.908 88.408 89.408 0 0 0 0 1.0057 1 46277 46277 3.2813 0 1 + 22948 16725 14673 14729 26573 26573 0.12382663711264286 PAVSNCSVR 9 Unmodified _PAVSNCSVR_ 0 0 0 REV__ENSG00000101493|ENST00000443185|ZNF516 REV__ENSG00000101493|ENST00000443185|ZNF516 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.2604064941406 2 466.734551 931.45455 NaN NaN NaN NaN NaN NaN NaN 78.223 1 78.223 77.723 78.723 0 0 0 0 0.86044 1 38416 38416 7.2892 0.93513 1 + 22949 10899 14674 14730 26574 26574 -0.013919161568423988 PAVVIFII 8 Unmodified _PAVVIFII_ 0 0 0 ENSG00000170044|ENST00000466937|ZPLD1;nc|ENSG00000170044|Q8TCW7-2|ZPLD1 ENSG00000170044|ENST00000466937|ZPLD1 ENSG00000170044|ENST00000466937|ZPLD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 435.8592529296875 2 436.286214 870.557876 NaN NaN NaN NaN NaN NaN NaN 63.011 1 63.734 63.234 64.234 0.72236 0 0 0 0.99035 1 29473 29473 2.8892 0 1 22950 4730 14675 14731 26575 26575 0.11741939293278847 PAVVIFII 8 Unmodified _PAVVIFII_ 0 0 0 ENSG00000170044|ENST00000466937|ZPLD1;nc|ENSG00000170044|Q8TCW7-2|ZPLD1 ENSG00000170044|ENST00000466937|ZPLD1 ENSG00000170044|ENST00000466937|ZPLD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.16827392578125 2 436.286214 870.557876 NaN NaN NaN NaN NaN NaN NaN 63.016 1 63.738 63.238 64.238 0.72236 0 0 0 0.99035 1 29476 29476 2.8892 0 1 22951 4730 14675 14731 26576 26576 0.11741939293278847 PAVVLLLLLLV 11 Unmodified _PAVVLLLLLLV_ 0 0 0 ENST00000490414.1_1_1:161185072-161188062:+|nuORF;ENSG00000158869|ENST00000289902|FCER1G ENST00000490414.1_1_1:161185072-161188062:+|nuORF ENST00000490414.1_1_1:161185072-161188062:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.9110717773438 2 581.91231 1161.81007 NaN NaN NaN NaN NaN NaN NaN 70.695 1 70.695 70.195 71.195 0 0 0 0 1.0071 1 34336 34336 1.4819 0 1 22952 4003 14676 14732 26577 26577 0.235635325839894 PAVVNVRIK 9 Unmodified _PAVVNVRIK_ 0 0 0 REV__ENST00000510042.5_1_4:169815827-169928008:-|nuORF REV__ENST00000510042.5_1_4:169815827-169928008:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.3236083984375 2 498.321651 994.62875 NaN NaN NaN NaN NaN NaN NaN 45.542 1 45.81 45.31 46.31 0.26768 0 0 0 0.90335 1 20819 20819 4.756 2.9118 1 + 22953 12441 14677 14733 26578 26578 0.1312203233079572 PAVVWDRKHRR 11 Unmodified _PAVVWDRKHRR_ 0 0 0 REV__nc|ENSG00000062038|P22223-2|CDH3 REV__nc|ENSG00000062038|P22223-2|CDH3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 710.342529296875 2 710.407644 1418.80073 NaN NaN NaN NaN NaN NaN NaN 89.937 1 89.937 89.437 90.437 0 0 0 0 1.0071 1 47120 47120 1.4819 0 1 + 22954 10401 14678 14734 26579 26579 0.10808577070997671 PAVYDRWIRLR 11 Unmodified _PAVYDRWIRLR_ 0 0 0 REV__ENSG00000197157|ENST00000354725|SND1 REV__ENSG00000197157|ENST00000354725|SND1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 722.9121704101562 2 722.912227 1443.8099 NaN NaN NaN NaN NaN NaN NaN 47.28 1 47.28 46.78 47.78 0 0 0 0 1.0079 1 21643 21643 1.4819 1.1313 1 + 22955 14262 14679 14735 26580 26580 0.10574925636660737 PAWAKEKHYYI 11 Unmodified _PAWAKEKHYYI_ 0 0 0 ENST00000490639.5_1_3:148895590-148939579:-|nuORF;ENSG00000047457|ENST00000264613|CP;chr3:149212698-149217866|281|14.11|0.21|6.05|-|ENST00000455472|CP,CP ENST00000490639.5_1_3:148895590-148939579:-|nuORF ENST00000490639.5_1_3:148895590-148939579:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 703.36572265625 2 703.366787 1404.71902 NaN NaN NaN NaN NaN NaN NaN 77.281 1 77.281 76.781 77.781 0 0 0 0 1.0059 1 37894 37894 2.9952 0 1 22956 558 14680 14736 26581 26581 0.032850368685785725 PAWCCCCC 8 Unmodified _PAWCCCCC_ 0 0 0 REV__ENSG00000130054|ENST00000252338|NALF2 REV__ENSG00000130054|ENST00000252338|NALF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 444.5466003417969 2 444.620115 887.225678 NaN NaN NaN NaN NaN NaN NaN 72.732 1 73.396 72.896 73.896 0.66398 0 0 0 0.99035 1 33387 33387 0.79363 0.10326 1 + 22957 11799 14681 14737 26582 26582 -0.22244614312762678 PAWCGCGCPDS 11 Unmodified _PAWCGCGCPDS_ 0 0 0 REV__ENST00000578846.5_1_17:80017806-80018124:-|nuORF REV__ENST00000578846.5_1_17:80017806-80018124:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.0923461914062 2 548.188262 1094.36197 NaN NaN NaN NaN NaN NaN NaN 94.088 1 94.174 93.674 94.674 0.086212 0 0 0 1.0055 1 49419 49419 3.5965 1.2938 1 + 22958 17494 14682 14738 26583 26583 -0.1814350527690749 PAWCSSCR 8 Unmodified _PAWCSSCR_ 0 0 0 REV__ENST00000458098.5_1_2:7001504-7005415:-|nuORF REV__ENST00000458098.5_1_2:7001504-7005415:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 455.1518249511719 2 455.188923 908.363292 NaN NaN NaN NaN NaN NaN NaN 97.104 1 97.382 96.882 97.882 0.27778 0 0 0 0.99035 1 44603 44603 2.8892 0 1 + 22959 16465 14683 14739 26584 26584 -0.09455503125820997 PAWDLIPLRRR 11 Unmodified _PAWDLIPLRRR_ 0 0 0 REV__ENSG00000147606|ENST00000276609|SLC26A7 REV__ENSG00000147606|ENST00000276609|SLC26A7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 696.9172973632812 2 696.91477 1391.81499 NaN NaN NaN NaN NaN NaN NaN 64.05 1 64.05 63.55 64.55 0 0 0 0 1.0057 1 30254 30254 3.2813 0.28607 1 + 22960 12513 14684 14740 26585 26585 0.13475229499294983 PAWEPQDYEM 10 Unmodified _PAWEPQDYEM_ 0 0 0 nc|ENSG00000008710|P98161-2|PKD1;nc|ENSG00000008710|P98161-3|PKD1;ENSG00000008710|ENST00000262304|PKD1 nc|ENSG00000008710|P98161-2|PKD1 nc|ENSG00000008710|P98161-2|PKD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.261962890625 2 633.260796 1264.50704 NaN NaN NaN NaN NaN NaN NaN 75.817 1 76.481 75.981 76.981 0.66387 0 0 0 0.99983 1 34935 34935 1.8442 0 1 22961 382 14685 14741 26586 26586 -0.11463422604560947 PAWFEPFVIQW 11 Unmodified _PAWFEPFVIQW_ 0 0 0 ENSG00000130477|ENST00000519716|UNC13A ENSG00000130477|ENST00000519716|UNC13A ENSG00000130477|ENST00000519716|UNC13A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 710.3598022460938 2 710.358431 1418.70231 NaN NaN NaN NaN NaN NaN NaN 78.212 1 78.212 77.712 78.712 0 0 0 0 1.0057 1 38409 38409 3.2813 1.7994 1 22962 2594 14686 14742 26587 26587 0.009705359826057247 PAWGHCFYRLY 11 Unmodified _PAWGHCFYRLY_ 0 0 0 nc|ENSG00000162572|P51172-1|SCNN1D;nc|ENSG00000162572|P51172-2|SCNN1D;ENSG00000162572|ENST00000379116|SCNN1D nc|ENSG00000162572|P51172-1|SCNN1D nc|ENSG00000162572|P51172-1|SCNN1D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 706.7008666992188 2 706.832057 1411.64956 NaN NaN NaN NaN NaN NaN NaN 51.23 1 51.492 50.992 51.992 0.26146 0 0 0 1.0071 1 23411 23411 1.4819 0 1 22963 4143 14687 14743 26588 26588 -0.039797453518531256 PAWGWLLRRRR 11 Unmodified _PAWGWLLRRRR_ 0 0 0 nc|ENSG00000109689|Q9P246-2|STIM2 nc|ENSG00000109689|Q9P246-2|STIM2 nc|ENSG00000109689|Q9P246-2|STIM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.15142822265625 3 489.624978 1465.8531 NaN NaN NaN NaN NaN NaN NaN 65.682 1 65.682 65.182 66.182 0 0 0 0 1.0059 1 31306 31306 3.0723 1.1448 1 22964 9592 14688 14744 26589 26589 0.13881160204618936 PAWHVWMTFKQ 11 Unmodified _PAWHVWMTFKQ_ 0 0 0 ENSG00000140835|ENST00000539698|CHST4 ENSG00000140835|ENST00000539698|CHST4 ENSG00000140835|ENST00000539698|CHST4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.2723388671875 3 477.57278 1429.69651 NaN NaN NaN NaN NaN NaN NaN 69.287 1 69.287 68.787 69.787 0 0 0 0 1.0071 1 33446 33446 0.50596 0 1 22965 3219 14689 14745 26590 26590 -0.0011488580073546473 PAWHYTVEFRR 11 Unmodified _PAWHYTVEFRR_ 0 0 0 ENST00000474430.5_1_1:155151285-155154671:+|nuORF;ENST00000468878.1_1_1:155151285-155156663:+|nuORF;nc|ENSG00000163462|Q7Z4K8-2|TRIM46;nc|ENSG00000163462|Q7Z4K8-5|TRIM46;ENSG00000163462|ENST00000334634|TRIM46 ENST00000474430.5_1_1:155151285-155154671:+|nuORF ENST00000474430.5_1_1:155151285-155154671:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 731.3701782226562 2 731.372935 1460.73132 NaN NaN NaN NaN NaN NaN NaN 65.189 1 65.189 64.689 65.689 0 0 0 0 1.0071 1 31011 31011 1.4819 0 1 22966 4211 14690 14746 26591 26591 0.019380733315756515 PAWKIIQPSLL 11 Unmodified _PAWKIIQPSLL_ 0 0 0 ENST00000331242.11_1_7:86817536-86820299:+|nuORF ENST00000331242.11_1_7:86817536-86820299:+|nuORF ENST00000331242.11_1_7:86817536-86820299:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.3883056640625 2 633.384448 1264.75434 3.5579 0.0022535 0.41585 0.00026339 3.9737 0.0025169 633.3846435419767 47.009 0.48205 47.009 46.787 47.27 0 33 22 2 0 0 0 0.83518 1 21489 21489 5.2969 2.7984 1 878070 22967 6990 14691 14747 26592 26592 0.13255699396381715 PAWKIIQPSLL 11 Unmodified _PAWKIIQPSLL_ 0 0 0 ENST00000331242.11_1_7:86817536-86820299:+|nuORF ENST00000331242.11_1_7:86817536-86820299:+|nuORF ENST00000331242.11_1_7:86817536-86820299:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 633.384448 1264.75434 4.0752 0.0025812 1.0942 0.00069306 5.1695 0.0032743 633.3853041983829 46.48 0.11994 47.133 47.047 47.167 0.65219 0.061692 0.00061357 NaN 5.2969 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 309420 22968 6990 14691 14747 0.13255699396381715 PAWLLLLLV 9 Unmodified _PAWLLLLLV_ 0 0 0 REV__ENSG00000148204|ENST00000373631|CRB2 REV__ENSG00000148204|ENST00000373631|CRB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.3410034179688 2 519.341521 1036.66849 NaN NaN NaN NaN NaN NaN NaN 83.522 1 83.567 83.067 84.067 0.045006 0 0 0 0.90511 1 41468 41468 2.3027 0 1 + 22969 12525 14692 14748 26593 26593 0.1516215928152178 PAWLRRRYLR 10 Unmodified _PAWLRRRYLR_ 0 0 0 ENSG00000147119|ENST00000276055|CHST7 ENSG00000147119|ENST00000276055|CHST7 ENSG00000147119|ENST00000276055|CHST7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 693.9168701171875 2 693.915104 1385.81566 NaN NaN NaN NaN NaN NaN NaN 77.164 1 77.725 77.225 78.225 0.56091 0 0 0 0.99983 1 37412 37412 1.8442 0.36234 1 22970 3545 14693 14749 26594 26594 0.138180689390083 PAWLRRRYLRL 11 Unmodified _PAWLRRRYLRL_ 0 0 0 ENSG00000147119|ENST00000276055|CHST7 ENSG00000147119|ENST00000276055|CHST7 ENSG00000147119|ENST00000276055|CHST7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 750.456298828125 2 750.457136 1498.89972 NaN NaN NaN NaN NaN NaN NaN 96.145 1 96.423 95.923 96.923 0.27778 0 0 0 1.0071 1 44175 44175 1.4819 0.15237 1 22971 3545 14694 14750 26595 26595 0.17022600035920732 PAWMQFEREWN 11 Unmodified _PAWMQFEREWN_ 0 0 0 REV__nc|ENSG00000170004|Q12873-2|CHD3 REV__nc|ENSG00000170004|Q12873-2|CHD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.4399719238281 3 498.559199 1492.65577 NaN NaN NaN NaN NaN NaN NaN 71.207 1 71.911 71.411 72.411 0.70386 0 0 0 1.0071 1 34188 34188 0.50596 0 1 + 22972 13417 14695 14751 26596 26596 -0.07085271910955271 PAWRLWPTLHL 11 Unmodified _PAWRLWPTLHL_ 0 0 0 NPHP3|p.K1247Rfs*18|1|0.22|ENSG00000113971|chr3:132682775-132682775|T/-|frameshift_variant;ENSG00000113971|ENST00000337331|NPHP3;nc|ENSG00000113971|Q7Z494-6|NPHP3 NPHP3|p.K1247Rfs*18|1|0.22|ENSG00000113971|chr3:132682775-132682775|T/-|frameshift_variant NPHP3|p.K1247Rfs*18|1|0.22|ENSG00000113971|chr3:132682775-132682775|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 695.3912353515625 2 695.393139 1388.77173 NaN NaN NaN NaN NaN NaN NaN 88.423 1 88.475 87.975 88.975 0.052155 0 0 0 1.0055 1 45035 45035 3.5965 1.098 1 22973 1884 14696 14752 26597 26597 0.09289039722011694 PAWRRWSRRWG 11 Unmodified _PAWRRWSRRWG_ 0 0 0 REV__ENST00000589408.1_3_19:38893886-38894111:+|nuORF REV__ENST00000589408.1_3_19:38893886-38894111:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 757.4024658203125 2 757.405435 1512.79632 NaN NaN NaN NaN NaN NaN NaN 28.2 1 28.986 28.486 29.486 0.78627 0 0 0 1.008 1 12695 12695 0.35063 0.043601 1 + 22974 17569 14697 14753 26598 26598 0.06043112648080751 PAWSIFNII 9 Unmodified _PAWSIFNII_ 0 0 0 REV__ENSG00000011028|ENST00000303375|MRC2 REV__ENSG00000011028|ENST00000303375|MRC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.7927856445312 2 530.794935 1059.57532 NaN NaN NaN NaN NaN NaN NaN 87.896 1 87.936 87.436 88.436 0.039955 0 0 0 0.84134 1 44630 44630 7.9102 0 1 + 22975 10231 14698 14754 26599 26599 0.047912348282807216 PAWTDRILWRL 11 Unmodified _PAWTDRILWRL_ 0 0 0 nc|ENSG00000132376|Q9BT40-2|INPP5K;ENST00000350761.9_1_17:1399119-1419845:-|nuORF;ENSG00000132376|ENST00000421807|INPP5K nc|ENSG00000132376|Q9BT40-2|INPP5K nc|ENSG00000132376|Q9BT40-2|INPP5K MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 713.8992309570312 2 713.901328 1425.7881 NaN NaN NaN NaN NaN NaN NaN 94.923 1 95.541 95.041 96.041 0.61736 0 0 0 1.0071 1 43654 43654 1.4819 0 1 22976 2695 14699 14755 26600 26600 0.09224120888120524 PAWVGSHG 8 Unmodified _PAWVGSHG_ 0 0 0 ENST00000476870.5_1_7:100465042-100470283:+|nuORF;ENSG00000087077|ENST00000200457|TRIP6 ENST00000476870.5_1_7:100465042-100470283:+|nuORF ENST00000476870.5_1_7:100465042-100470283:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.3931884765625 1 810.389313 809.382037 3.2792 0.0026574 1.4538 0.0011781 4.733 0.0038356 810.3916875969036 88.555 0.14732 88.555 88.467 88.614 0 34 22 2 0 0 0 0.73686 1 46006 46006 2.8892 0 1 40527000 22977 994 14700 14756 26601 26601 -0.030278821680894907 PAWWCCLRRPT 11 Unmodified _PAWWCCLRRPT_ 0 0 0 REV__ENST00000220507.4_1_15:41165524-41165925:-|nuORF REV__ENST00000220507.4_1_15:41165524-41165925:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.47979736328125 3 463.561998 1387.66417 NaN NaN NaN NaN NaN NaN NaN 65.854 1 65.854 65.354 66.354 0 0 0 0 1.0059 1 31390 31390 1.2148 0.70888 1 + 22978 14819 14701 14757 26602 26602 -0.014159964753844179 PAWWDVTL 8 Unmodified _PAWWDVTL_ 0 0 0 REV__ENST00000288943.4_1_2:96809359-96809716:-|nuORF REV__ENST00000288943.4_1_2:96809359-96809716:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.25592041015625 2 494.25036 986.486168 2.9973 0.0014814 2.6052 0.0012876 5.6025 0.002769 494.2534823592213 36.255 0.89471 36.255 35.845 36.74 0 117 46 5 0 0 0 0.13778 2 16337 16337;16481 49.669 49.669 1 1255600 + 22979 15119 14702 14758 26603;26604 26603 -0.007616001312385379 PAWWWRPWWS 10 Unmodified _PAWWWRPWWS_ 0 0 0 REV__ENST00000355943.7_1_5:110074744-110074849:+|nuORF REV__ENST00000355943.7_1_5:110074744-110074849:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 729.6842041015625 2 729.348732 1456.68291 NaN NaN NaN NaN NaN NaN NaN 76.149 1 76.813 76.313 77.313 0.66387 0 0 0 1.0015 1 35080 35080 0.45834 0.10771 1 + 22980 15548 14703 14759 26605 26605 -0.027163755176388804 PAWYPSHQNC 10 Unmodified _PAWYPSHQNC_ 0 0 0 REV__nc|ENSG00000147168|P31785-2|IL2RG REV__nc|ENSG00000147168|P31785-2|IL2RG MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 601.8904418945312 2 601.756015 1201.49748 NaN NaN NaN NaN NaN NaN NaN 86.021 1 86.692 86.192 87.192 0.67061 0 0 0 0.99687 1 39613 39613 4.3292 2.485 1 + 22981 12496 14704 14760 26606 26606 -0.0952114609938235 PAWYWRRRPKR 11 Unmodified _PAWYWRRRPKR_ 0 0 0 ENSG00000172935|ENST00000309099|MRGPRF ENSG00000172935|ENST00000309099|MRGPRF ENSG00000172935|ENST00000309099|MRGPRF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 786.4414672851562 2 786.44456 1570.87457 NaN NaN NaN NaN NaN NaN NaN 86.834 1 86.834 86.334 87.334 0 0 0 0 1.008 1 44615 44615 0.35063 0 1 22982 4905 14705 14761 26607 26607 0.11196545233315192 PAYEDENDDEF 11 Unmodified _PAYEDENDDEF_ 0 0 0 REV__ENST00000553115.1_1_12:55516583-55517273:-|nuORF REV__ENST00000553115.1_1_12:55516583-55517273:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 672.2492065429688 2 672.249137 1342.48372 NaN NaN NaN NaN NaN NaN NaN 71.729 1 71.987 71.487 72.487 0.25786 0 0 0 1.0071 1 32891 32891 1.4819 0 1 + 22983 17299 14706 14762 26608 26608 -0.17382189908198598 PAYHFPYYWKW 11 Unmodified _PAYHFPYYWKW_ 0 0 0 REV__nc|ENSG00000088930|Q9H0D6-2|XRN2 REV__nc|ENSG00000088930|Q9H0D6-2|XRN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.1292114257812 3 519.915312 1556.72411 NaN NaN NaN NaN NaN NaN NaN 87.046 1 87.086 86.586 87.586 0.039955 0 0 0 1.0071 1 43959 43959 0.50596 0.41111 1 + 22984 10686 14707 14763 26609 26609 -0.03198659268832671 PAYHSSLMD 9 Unmodified _PAYHSSLMD_ 0 0 0 ENSG00000111229|ENST00000228825|ARPC3;ENST00000548878.6_1_12:110874955-110888065:-|nuORF;ENST00000471641.1_1_12:110880867-110888065:-|nuORF;ENST00000543613.1_1_11:73633096-73633237:-|nuORF;ENST00000475777.2_1_12:110883197-110888065:-|nuORF ENSG00000111229|ENST00000228825|ARPC3 ENSG00000111229|ENST00000228825|ARPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.7276306152344 2 510.726392 1019.43823 3.4578 0.001766 0.075146 3.8379E-05 3.5329 0.0018044 510.7263776330561 28.884 0.22229 28.884 28.797 29.02 0 28 18 2 0 0 0 0.071101 1 13039 13039 39.957 17.221 1 290740 22985 1747 14708 14764 26610 26610 -0.07071042113580006 PAYLLLVLLL 10 Unmodified _PAYLLLVLLL_ 0 0 0 REV__ENST00000472800.1_1_2:74756265-74756756:-|nuORF REV__ENST00000472800.1_1_2:74756265-74756756:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.2779541015625 2 564.375561 1126.73657 NaN NaN NaN NaN NaN NaN NaN 75.232 1 75.49 74.99 75.99 0.25831 0 0 0 0.99983 1 34610 34610 1.8442 0 1 + 22986 11357 14709 14765 26611 26611 0.17826984141515823 PAYLLVEEK 9 Unmodified _PAYLLVEEK_ 0 0 0 ENST00000552369.5_1_12:49233297-49239534:-|nuORF ENST00000552369.5_1_12:49233297-49239534:-|nuORF ENST00000552369.5_1_12:49233297-49239534:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.6063842773438 2 531.297507 1060.58046 NaN NaN NaN NaN NaN NaN NaN 96.138 1 96.746 96.246 97.246 0.60769 0 0 0 0.89315 1 44206 44206 5.2307 0 1 22987 8889 14710 14766 26612 26612 0.05259493900234702 PAYLQGEVRL 10 Unmodified _PAYLQGEVRL_ 0 0 0 REV__ENST00000316846.2_11:65545618-65547282:-|nuORF REV__ENST00000316846.2_11:65545618-65547282:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 573.2407836914062 2 573.319306 1144.62406 NaN NaN NaN NaN NaN NaN NaN 96.041 1 96.649 96.149 97.149 0.60769 0 0 0 1.0003 1 44162 44162 1.4819 0.15237 1 + 22988 15295 14711 14767 26613 26613 0.05753103397364612 PAYRQQYEKYY 11 Unmodified _PAYRQQYEKYY_ 0 0 0 nc|ENSG00000168916|Q9ULD9-2|ZNF608;ENSG00000168916|ENST00000513986|ZNF608 nc|ENSG00000168916|Q9ULD9-2|ZNF608 nc|ENSG00000168916|Q9ULD9-2|ZNF608 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 503.7369384765625 3 503.577136 1507.70958 NaN NaN NaN NaN NaN NaN NaN 66.883 1 66.883 66.383 67.383 0 0 0 0 1.0079 1 31998 31998 0.50596 0.051438 1 22989 4661 14712 14768 26614 26614 -0.023967762075926657 PAYRRRPVPI 10 Unmodified _PAYRRRPVPI_ 0 0 0 ENSG00000188760|ENST00000373883|TMEM198 ENSG00000188760|ENST00000373883|TMEM198 ENSG00000188760|ENST00000373883|TMEM198 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 612.8694458007812 2 612.869831 1223.72511 NaN NaN NaN NaN NaN NaN NaN 73.562 1 73.821 73.321 74.321 0.25876 0 0 0 0.99687 1 33792 33792 4.3292 0 1 22990 5680 14713 14769 26615 26615 0.12219599890750033 PCCCCHHA 8 Unmodified _PCCCCHHA_ 0 0 0 REV__ENSG00000197191|ENST00000650725|CYSRT1 REV__ENSG00000197191|ENST00000650725|CYSRT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.1361389160156 2 437.134778 872.255004 3.2231 0.0014089 1.8048 0.00078892 5.0279 0.0021979 437.13495615732245 20.259 0.22023 20.913 20.817 21.038 0.65346 32 16 3 0 0 0 0.7471 1 9212 9212 0 0 1 99882 + 22991 14267 14714 14770 26616 26616 -0.1862333397225484 PCCPCCCCCP 10 Unmodified _PCCPCCCCCP_ 0 0 0 REV__ENSG00000163959|ENST00000296327|SLC51A REV__ENSG00000163959|ENST00000296327|SLC51A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 344.5530090332031 3 344.418326 1030.23315 NaN NaN NaN NaN NaN NaN NaN 73.232 1 73.931 73.431 74.431 0.69881 0 0 0 1.002 1 35294 35294 0 0 1 + 22992 13048 14715 14771 26617 26617 -0.28075966098981553 PCENDHTID 9 Unmodified _PCENDHTID_ 0 0 0 REV__AGL|p.I817Nfs*3|1|0.24|ENSG00000162688|chr1:99884350-99884351|-/A|frameshift_variant REV__AGL|p.I817Nfs*3|1|0.24|ENSG00000162688|chr1:99884350-99884351|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.4771728515625 3 348.474801 1042.40257 NaN NaN NaN NaN NaN NaN NaN 40.306 1 40.573 40.073 41.073 0.26751 0 0 0 0.91238 1 18338 18338 0.23584 0 1 + 22993 9933 14716 14772 26618 26618 -0.11693124361249829 PCKVEPGL 8 Carbamidomethyl (C) _PC(Carbamidomethyl (C))KVEPGL_ PC(1)KVEPGL PC(59)KVEPGL 0 1 0 ENSG00000196924|ENST00000369850|FLNA;nc|ENSG00000196924|P21333-2|FLNA ENSG00000196924|ENST00000369850|FLNA ENSG00000196924|ENST00000369850|FLNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.237548828125 2 450.236396 898.458238 3.0241 0.0013616 -1.3415 -0.00060397 1.6826 0.00075758 450.23574822725374 32.71 0.35194 32.964 32.852 33.204 0.25389 27 15 2 0 0 0 0.070862 1 14900 14900 58.679 14.272 1 295180 22994 5785 14717 14773 26619 26619 95 0.004947536170334388 PCPCCGGG 8 Unmodified _PCPCCGGG_ 0 0 0 REV__nc|ENSG00000274211|O14512|SOCS7 REV__nc|ENSG00000274211|O14512|SOCS7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.1132507324219 2 347.111295 692.208037 NaN NaN NaN NaN NaN NaN NaN 74.352 1 74.611 74.111 75.111 0.25831 0 0 0 0.99035 1 34193 34193 0 0 1 + 22995 14728 14718 14774 26620 26620 -0.1503787025172869 PCRRRRVAWPL 11 Unmodified _PCRRRRVAWPL_ 0 0 0 REV__ENSG00000165966|ENST00000402685|PDZRN4 REV__ENSG00000165966|ENST00000402685|PDZRN4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.60821533203125 3 470.606818 1408.79863 2.8923 0.0013611 -0.15451 -7.2716E-05 2.7378 0.0012884 470.6065623333013 54.738 0.74872 55.405 55.337 56.085 0.6665 58 36 3 0 0 0 0.91068 1 25106 25106 0.45452 0 1 1481200 + 22996 13201 14719 14775 26621 26621 0.11057825061561743 PCSRKLHGI 9 Unmodified _PCSRKLHGI_ 0 0 0 REV__nc|ENSG829|Q9HDB9|ERVK-5_gag REV__nc|ENSG829|Q9HDB9|ERVK-5_gag MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.524658203125 3 337.523649 1009.54912 NaN NaN NaN NaN NaN NaN NaN 13.519 1 13.826 13.326 14.326 0.30727 0 0 0 0.90511 1 6099 6099 1.1933 0 1 + 22997 18179 14720 14776 26622 26622 0.04472642385155723 PCSSSCCCCL 10 Unmodified _PCSSSCCCCL_ 0 0 0 ENST00000485324.1_1_X:152959425-152959824:+|nuORF ENST00000485324.1_1_X:152959425-152959824:+|nuORF ENST00000485324.1_1_X:152959425-152959824:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 503.15252685546875 2 503.151977 1004.2894 NaN NaN NaN NaN NaN NaN NaN 67.847 1 67.847 67.347 68.347 0 0 0 0 1.0015 1 32602 32602 0.45834 0 1 22998 8330 14721 14777 26623 26623 -0.21257298666319002 PCSSSCCCCL 10 Unmodified _PCSSSCCCCL_ 0 0 0 ENST00000485324.1_1_X:152959425-152959824:+|nuORF ENST00000485324.1_1_X:152959425-152959824:+|nuORF ENST00000485324.1_1_X:152959425-152959824:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.6095886230469 2 503.151977 1004.2894 NaN NaN NaN NaN NaN NaN NaN 49.108 1 49.935 49.435 50.435 0.82705 0 0 0 1.0015 1 22372 22372 0.45834 0 1 22999 8330 14721 14777 26624 26624 -0.21257298666319002 PDCECSYSPCC 11 Unmodified _PDCECSYSPCC_ 0 0 0 REV__ENSG00000188162|ENST00000399397|OTOG REV__ENSG00000188162|ENST00000399397|OTOG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 603.9417114257812 2 603.682152 1205.34975 NaN NaN NaN NaN NaN NaN NaN 85.706 1 85.706 85.206 86.206 0 0 0 0 1.008 1 43717 43717 0.30703 0.30703 1 + 23000 14135 14722 14778 26625 26625 -0.24470909802221286 PDCRCDNLCKS 11 Unmodified _PDCRCDNLCKS_ 0 0 0 ENSG00000136960|ENST00000075322|ENPP2;nc|ENSG00000136960|Q13822-3|ENPP2;nc|ENSG00000136960|Q13822-2|ENPP2 ENSG00000136960|ENST00000075322|ENPP2 ENSG00000136960|ENST00000075322|ENPP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 626.9893188476562 2 627.257207 1252.49986 2.4763 0.0015533 1.7646 0.0011069 4.241 0.0026602 627.2590524235405 90.61 0.12051 90.685 90.632 90.753 0.075272 25 13 3 0 0 0 0.13295 1 46770 46770 2.7352 0.89096 1 12484000 23001 2993 14723 14779 26626 26626 -0.11628801748292972 PDCRCDNLCKS 11 Unmodified _PDCRCDNLCKS_ 0 0 0 ENSG00000136960|ENST00000075322|ENPP2;nc|ENSG00000136960|Q13822-3|ENPP2;nc|ENSG00000136960|Q13822-2|ENPP2 ENSG00000136960|ENST00000075322|ENPP2 ENSG00000136960|ENST00000075322|ENPP2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 627.257207 1252.49986 3.3476 0.0020998 1.3467 0.00084471 4.6943 0.0029445 627.2578486150913 90.388 0.059937 90.388 90.356 90.416 0 -0.14849 -0.00034835 NaN 2.7352 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 17440000 23002 2993 14723 14779 -0.11628801748292972 PDCSCGSHGC 10 Unmodified _PDCSCGSHGC_ 0 0 0 nc|ENSG00000159921|Q9Y223-5|GNE;nc|ENSG00000159921|Q9Y223-4|GNE;nc|ENSG00000159921|Q9Y223-3|GNE;ENSG00000159921|ENST00000642385|GNE;nc|ENSG00000159921|Q9Y223-2|GNE nc|ENSG00000159921|Q9Y223-5|GNE nc|ENSG00000159921|Q9Y223-5|GNE MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.1503601074219 2 483.149137 964.283721 NaN NaN NaN NaN NaN NaN NaN 90.263 1 90.328 89.828 90.828 0.064346 0 0 0 1.0015 1 46472 46472 0.40072 0.40072 1 23003 4037 14724 14780 26627 26627 -0.19984937862113838 PDCSSSSK 8 Unmodified _PDCSSSSK_ 0 0 0 ENST00000487114.1_1_1:36644989-36645856:+|nuORF ENST00000487114.1_1_1:36644989-36645856:+|nuORF ENST00000487114.1_1_1:36644989-36645856:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.3345336914062 1 810.329809 809.322533 2.7027 0.0021901 0.69587 0.00056389 3.3986 0.002754 810.3328115227926 89.022 0.15302 89.074 89.012 89.165 0.052147 49 28 3 0 0 0 0.71911 1 45533 45533 4.3292 0 1 67921000 23004 8343 14725 14781 26628 26628 -0.08975565964442467 PDDDEEEDEE 10 Unmodified _PDDDEEEDEE_ 0 0 0 ENSG00000215474|ENST00000425639|SKOR2 ENSG00000215474|ENST00000425639|SKOR2 ENSG00000215474|ENST00000425639|SKOR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.2002563476562 2 611.19931 1220.38407 NaN NaN NaN NaN NaN NaN NaN 60.448 1 60.448 59.948 60.948 0 0 0 0 0.99774 1 28071 28071 3.5965 0 1 23005 6134 14726 14782 26629 26629 -0.2173105231277077 PDDMINSHNT 10 Unmodified _PDDMINSHNT_ 0 0 0 REV__ENSG00000166200|ENST00000388901|COPS2 REV__ENSG00000166200|ENST00000388901|COPS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.2415771484375 2 572.240395 1142.46624 NaN NaN NaN NaN NaN NaN NaN 80.618 1 80.867 80.367 81.367 0.24947 0 0 0 0.95729 1 37118 37118 12.241 0.60036 1 + 23006 13219 14727 14783 26630 26630 -0.0992976392417404 PDDMINSHNT 10 Unmodified _PDDMINSHNT_ 0 0 0 REV__ENSG00000166200|ENST00000388901|COPS2 REV__ENSG00000166200|ENST00000388901|COPS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.2417602539062 2 572.240395 1142.46624 NaN NaN NaN NaN NaN NaN NaN 80.682 1 80.932 80.432 81.432 0.24947 0 0 0 0.95729 1 37148 37148 12.241 0.60036 1 + 23007 13219 14727 14783 26631 26631 -0.0992976392417404 PDDVPLMT 8 Unmodified _PDDVPLMT_ 0 0 0 nc|ENSG00000169760|Q8N2Q7-2|NLGN1;ENSG00000169760|ENST00000695368|NLGN1;nc|ENSG00000169760|Q8N2Q7|NLGN1 nc|ENSG00000169760|Q8N2Q7-2|NLGN1 nc|ENSG00000169760|Q8N2Q7-2|NLGN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 887.4229125976562 1 887.417896 886.410619 4.0733 0.0036147 0.0089168 7.9129E-06 4.0822 0.0036226 887.4179492657861 83.506 0.34837 84.169 83.98 84.328 0.66219 35 22 2 0 0 0 0.18676 1 38492 38492 44.407 6.2558 1 1179100 23008 4708 14728 14784 26632 26632 -0.037129453738202756 PDEAHTNSAI 10 Unmodified _PDEAHTNSAI_ 0 0 0 ENSG00000169306|ENST00000378993|IL1RAPL1 ENSG00000169306|ENST00000378993|IL1RAPL1 ENSG00000169306|ENST00000378993|IL1RAPL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.1488647460938 2 527.743628 1053.4727 NaN NaN NaN NaN NaN NaN NaN 70.716 1 71.42 70.92 71.92 0.70386 0 0 0 0.97102 1 33906 33906 10.074 4.3135 1 23009 4683 14729 14785 26633 26633 -0.051895027011369166 PDEDFLEI 8 Unmodified _PDEDFLEI_ 0 0 0 REV__ENSG00000117868|ENST00000275418|ESYT2 REV__ENSG00000117868|ENST00000275418|ESYT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.2275085449219 2 489.226748 976.438943 NaN NaN NaN NaN NaN NaN NaN 69.482 1 69.736 69.236 70.236 0.25443 0 0 0 0.967 1 31819 31819 7.9102 0 1 + 23010 11456 14730 14786 26634 26634 -0.050219241928971314 PDEDFLEI 8 Unmodified _PDEDFLEI_ 0 0 0 REV__ENSG00000117868|ENST00000275418|ESYT2 REV__ENSG00000117868|ENST00000275418|ESYT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.22808837890625 2 489.226748 976.438943 NaN NaN NaN NaN NaN NaN NaN 69.651 1 69.905 69.405 70.405 0.25443 0 0 0 0.81105 1 31895 31895 18.135 3.5533 1 + 23011 11456 14730 14786 26635 26635 -0.050219241928971314 PDEDSGCC 8 Unmodified _PDEDSGCC_ 0 0 0 REV__ENSG00000106404|ENST00000308344|CLDN15 REV__ENSG00000106404|ENST00000308344|CLDN15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.7637634277344 2 413.123111 824.231669 NaN NaN NaN NaN NaN NaN NaN 81.621 1 82.281 81.781 82.781 0.65998 0 0 0 0.99035 1 37609 37609 2.3027 1.6124 1 + 23012 11081 14731 14787 26636 26636 -0.1874777800422862 PDEEKRLI 8 Unmodified _PDEEKRLI_ 0 0 0 REV__nc|ENSG00000119042|Q9UPW6-2|SATB2 REV__nc|ENSG00000119042|Q9UPW6-2|SATB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.28076171875 2 500.277106 998.53966 NaN NaN NaN NaN NaN NaN NaN 30.366 1 30.366 29.866 30.866 0 0 0 0 0.94507 1 13717 13717 9.3474 0 1 + 23013 11489 14732 14788 26637 26637 0.04033152580609567 PDEESEEFEWK 11 Unmodified _PDEESEEFEWK_ 0 0 0 REV__USP47|p.D513Gfs*5|1|0.03|ENSG00000170242|chr11:11929524-11929525|-/GAGAAGGAAA|frameshift_variant REV__USP47|p.D513Gfs*5|1|0.03|ENSG00000170242|chr11:11929524-11929525|-/GAGAAGGAAA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 712.7969360351562 2 712.796254 1423.57796 NaN NaN NaN NaN NaN NaN NaN 69.519 1 70.222 69.722 70.722 0.70302 0 0 0 1.0059 1 33275 33275 2.9952 1.3426 1 + 23014 13428 14733 14789 26638 26638 -0.11689051086068503 PDEGTNAQIMY 11 Unmodified _PDEGTNAQIMY_ 0 0 0 ENSG00000143126|ENST00000271332|CELSR2 ENSG00000143126|ENST00000271332|CELSR2 ENSG00000143126|ENST00000271332|CELSR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 413.4595947265625 3 413.516777 1237.5285 NaN NaN NaN NaN NaN NaN NaN 62.192 1 62.923 62.423 63.423 0.73077 0 0 0 1.0038 1 28957 28957 2.6312 0.19645 1 23015 3343 14734 14790 26639 26639 -0.08076037575824557 PDEKFTKL 8 Unmodified _PDEKFTKL_ 0 0 0 REV__ECHS1|p.E77K|1|0.21|ENSG00000127884|chr10:133370617-133370617|C/T|missense_variant REV__ECHS1|p.E77K|1|0.21|ENSG00000127884|chr10:133370617-133370617|C/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.7693786621094 2 489.26875 976.522947 3.3429 0.0016356 -0.63347 -0.00030994 2.7094 0.0013256 489.2687454152598 32.739 0.53435 32.993 32.763 33.297 0.25389 51 24 3 0 0 0 0.66653 1 15043 15043 8.5933 0 1 803830 + 23016 10144 14735 14791 26640 26640 0.033746516946507654 PDENFKLKHY 10 Unmodified _PDENFKLKHY_ 0 0 0 ENSG00000166794|ENST00000300026|PPIB;ENSG00000168938|ENST00000306442|PPIC ENSG00000166794|ENST00000300026|PPIB ENSG00000166794|ENST00000300026|PPIB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 430.67413330078125 3 430.887422 1289.64044 NaN NaN NaN NaN NaN NaN NaN 71.17 1 71.17 70.67 71.67 0 0 0 0 0.99776 1 34584 34584 3.5871 0.95582 1 23017 4507 14736 14792 26641 26641 0.007201845634881465 PDENFKLKHY 10 Unmodified _PDENFKLKHY_ 0 0 0 ENSG00000166794|ENST00000300026|PPIB;ENSG00000168938|ENST00000306442|PPIC ENSG00000166794|ENST00000300026|PPIB ENSG00000166794|ENST00000300026|PPIB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 430.77490234375 3 430.887422 1289.64044 NaN NaN NaN NaN NaN NaN NaN 67.011 1 67.716 67.216 68.216 0.7047 0 0 0 0.99776 1 31804 31804 3.5871 0.95582 1 23018 4507 14736 14792 26642 26642 0.007201845634881465 PDENFKLKHY 10 Unmodified _PDENFKLKHY_ 0 0 0 ENSG00000166794|ENST00000300026|PPIB;ENSG00000168938|ENST00000306442|PPIC ENSG00000166794|ENST00000300026|PPIB ENSG00000166794|ENST00000300026|PPIB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.88970947265625 3 430.887422 1289.64044 NaN NaN NaN NaN NaN NaN NaN 73.417 1 74.081 73.581 74.581 0.66398 0 0 0 0.99776 1 33739 33739 3.5871 0.95582 1 23019 4507 14736 14792 26643 26643 0.007201845634881465 PDENFKLKHY 10 Unmodified _PDENFKLKHY_ 0 0 0 ENSG00000166794|ENST00000300026|PPIB;ENSG00000168938|ENST00000306442|PPIC ENSG00000166794|ENST00000300026|PPIB ENSG00000166794|ENST00000300026|PPIB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.8893737792969 3 430.887422 1289.64044 NaN NaN NaN NaN NaN NaN NaN 74.121 1 74.786 74.286 75.286 0.6644 0 0 0 0.99995 1 34112 34112 1.7423 0.52744 1 23020 4507 14736 14792 26644 26644 0.007201845634881465 PDESTESP 8 Unmodified _PDESTESP_ 0 0 0 REV__nc|ENSG00000263001|P78347-3|GTF2I REV__nc|ENSG00000263001|P78347-3|GTF2I MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 431.1314697265625 2 431.177255 860.339957 NaN NaN NaN NaN NaN NaN NaN 64.629 1 64.629 64.129 65.129 0 0 0 0 0.79116 1 30658 30658 19.439 0 1 + 23021 14700 14737 14793 26645 26645 -0.09579947157806146 PDESTESP 8 Unmodified _PDESTESP_ 0 0 0 REV__nc|ENSG00000263001|P78347-3|GTF2I REV__nc|ENSG00000263001|P78347-3|GTF2I MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 430.8392333984375 2 431.177255 860.339957 NaN NaN NaN NaN NaN NaN NaN 63.455 1 64.177 63.677 64.677 0.72236 0 0 0 0.79116 1 29726 29726 19.439 0 1 + 23022 14700 14737 14793 26646 26646 -0.09579947157806146 PDEVLQTLL 9 Unmodified _PDEVLQTLL_ 0 0 0 ZNF148|p.Q640Sfs*7|1|0.36|ENSG00000163848|chr3:125232809-125232809|A/-|frameshift_variant;ENST00000497929.1_1_3:124951187-125011317:-|nuORF;ENSG00000163848|ENST00000360647|ZNF148 ZNF148|p.Q640Sfs*7|1|0.36|ENSG00000163848|chr3:125232809-125232809|A/-|frameshift_variant ZNF148|p.Q640Sfs*7|1|0.36|ENSG00000163848|chr3:125232809-125232809|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.2883911132812 2 514.28714 1026.55973 3.1625 0.0016265 -0.064792 -3.3322E-05 3.0978 0.0015931 514.2870997803577 72.238 0.27516 72.497 72.349 72.625 0.25876 40 24 2 0 0 0 0.02234 1 33140 33140 65.235 6.5562 1 887940 23023 4257 14738 14794 26647 26647 0.04750903520562133 PDEYTHPDVY 10 Unmodified _PDEYTHPDVY_ 0 0 0 REV__EPHA3|p.K662Sfs*35|1|0.22|ENSG00000044524|chr3:89419298-89419298|A/-|frameshift_variant;REV__ENSG00000142627|ENST00000358432|EPHA2 REV__EPHA3|p.K662Sfs*35|1|0.22|ENSG00000044524|chr3:89419298-89419298|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 412.63671875 3 412.512021 1234.51423 NaN NaN NaN NaN NaN NaN NaN 61.042 1 61.782 61.282 62.282 0.7396 0 0 0 0.99225 1 28255 28255 3.5871 0 1 + 23024 10332;12338 14739 14795 26648 26648 -0.09364366732484086 PDEYYPYEYYY 11 Unmodified _PDEYYPYEYYY_ 0 0 0 REV__nc|ENSG00000130635|P20908-2|COL5A1 REV__nc|ENSG00000130635|P20908-2|COL5A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 782.8085327148438 2 782.811373 1563.60819 NaN NaN NaN NaN NaN NaN NaN 63.359 1 63.359 62.859 63.859 0 0 0 0 1.0073 1 29803 29803 1.1933 0.84271 1 + 23025 11824 14740 14796 26649 26649 -0.15106692420840773 PDFDAPIEEFM 11 Unmodified _PDFDAPIEEFM_ 0 0 0 ENSG00000173572|ENST00000342929|NLRP13 ENSG00000173572|ENST00000342929|NLRP13 ENSG00000173572|ENST00000342929|NLRP13 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.785888671875 2 655.784104 1309.55365 NaN NaN NaN NaN NaN NaN NaN 26.59 1 26.855 26.355 27.355 0.26489 0 0 0 0.92098 1 12082 12082 8.7454 0 1 23026 4939 14741 14797 26650 26650 -0.08873982773297939 PDFGGNVLL 9 Unmodified _PDFGGNVLL_ 0 0 0 nc|ENSG00000148396|O15027-2|SEC16A;nc|ENSG00000148396|O15027-4|SEC16A;nc|ENSG00000148396|O15027-3|SEC16A;ENSG00000148396|ENST00000684901|SEC16A;nc|ENSG00000148396|O15027-5|SEC16A nc|ENSG00000148396|O15027-2|SEC16A nc|ENSG00000148396|O15027-2|SEC16A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 931.4888916015625 1 931.488359 930.481082 3.4144 0.0031804 -0.34985 -0.00032588 3.0645 0.0028545 931.4878720683394 74.907 0.20216 75.572 75.476 75.678 0.6644 20 16 2 0 0 0 0.029308 1 34503 34503 56.177 6.244 1 556860 23027 3604 14742 14798 26651 26651 0.013060960061352489 PDFKKLTYVRD 11 Unmodified _PDFKKLTYVRD_ 0 0 0 REV__ENSG00000182117|ENST00000328848|NOP10 REV__ENSG00000182117|ENST00000328848|NOP10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 691.3788452148438 2 691.377352 1380.74015 NaN NaN NaN NaN NaN NaN NaN 61.728 1 62.459 61.959 62.959 0.73077 0 0 0 1.0044 1 28668 28668 4.897 0.95262 1 + 23028 13872 14743 14799 26652 26652 0.0650100217740146 PDFLVDPSSSL 11 Unmodified _PDFLVDPSSSL_ 0 0 0 REV__N4BP1|p.F391Sfs*49|1|0.28|ENSG00000102921|chr16:48561471-48561471|A/-|frameshift_variant REV__N4BP1|p.F391Sfs*49|1|0.28|ENSG00000102921|chr16:48561471-48561471|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.7949829101562 2 588.792786 1175.57102 NaN NaN NaN NaN NaN NaN NaN 72.007 1 72.265 71.765 72.765 0.25788 0 0 0 1.0038 1 33045 33045 5.7319 0.50118 1 + 23029 10952 14744 14800 26653 26653 -0.009743191759525871 PDFRLPEIAI 10 Unmodified _PDFRLPEIAI_ 0 0 0 APOB|p.G3575Afs*48|1|0.18|ENSG00000084674|chr2:21006144-21006144|C/-|frameshift_variant;ENSG00000084674|ENST00000233242|APOB APOB|p.G3575Afs*48|1|0.18|ENSG00000084674|chr2:21006144-21006144|C/-|frameshift_variant APOB|p.G3575Afs*48|1|0.18|ENSG00000084674|chr2:21006144-21006144|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 391.224365234375 3 390.888763 1169.64446 2.3773 0.00092928 0.69644 0.00027223 3.0738 0.0012015 391.22330987402756 60.996 0.54821 60.996 60.845 61.393 0 92 57 2 0 0 0 0.93584 1 28536 28536 1.7423 0.14999 1 2284700 23030 61 14745 14801 26654 26654 0.06642274057185205 PDGAADLVPL 10 Unmodified _PDGAADLVPL_ 0 0 0 ENSG00000130559|ENST00000389532|CAMSAP1;nc|ENSG00000130559|Q5T5Y3-3|CAMSAP1 ENSG00000130559|ENST00000389532|CAMSAP1 ENSG00000130559|ENST00000389532|CAMSAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 967.513427734375 1 967.509488 966.502212 3.424 0.0033128 -0.12591 -0.00012182 3.2981 0.003191 967.5090699282426 50.578 0.3119 51.396 51.268 51.58 0.81738 31 15 3 0 0 0 0.68517 1 23117 23117 13.906 3.0821 1 1673700 23031 2599 14746 14802 26655 26655 0.017620613149915698 PDGGIDALL 9 Unmodified _PDGGIDALL_ 0 0 0 REV__ENSG00000106351|ENST00000300176|AGFG2 REV__ENSG00000106351|ENST00000300176|AGFG2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 435.7333984375 2 435.732 869.449448 2.8225 0.0012299 0.38335 0.00016704 3.2059 0.0013969 435.7321841630377 53.92 0.40767 54.185 53.962 54.369 0.26462 35 16 3 0 0 0 0.12301 1 24701 24701 28.487 5.3384 1 694440 + 23032 11080 14747 14803 26656 26656 0.009501032521825437 PDGHIGTVL 9 Unmodified _PDGHIGTVL_ 0 0 0 REV__ENST00000484594.5_1_2:212426591-213403254:-|nuORF REV__ENST00000484594.5_1_2:212426591-213403254:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 454.74761962890625 2 454.745442 907.476331 3.0514 0.0013876 0.55773 0.00025362 3.6091 0.0016412 454.7456004338708 36.818 0.39415 37.448 37.23 37.625 0.62999 27 16 2 0 0 0 0.49692 1 16900 16900 12.532 0 1 185760 + 23033 13764 14748 14804 26657 26657 0.018892118633857535 PDGSFPEI 8 Unmodified _PDGSFPEI_ 0 0 0 REV__ENSG00000242732|ENST00000609883|RTL5 REV__ENSG00000242732|ENST00000609883|RTL5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 431.2049865722656 2 431.203076 860.391599 2.6991 0.0011638 1.311 0.00056529 4.01 0.0017291 431.20364849725127 47.636 0.32315 47.636 47.529 47.852 0 49 26 2 0 0 0 0.47217 1 21804 21804 23.148 23.148 1 7363200 + 23034 14623 14749 14805 26658 26658 -0.044181586732293 PDGSFPEI 8 Unmodified _PDGSFPEI_ 0 0 0 REV__ENSG00000242732|ENST00000609883|RTL5 REV__ENSG00000242732|ENST00000609883|RTL5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 431.203076 860.391599 2.6991 0.0011638 1.311 0.00056529 4.01 0.0017291 431.20364849725127 47.636 0.32315 47.636 47.529 47.852 0 0.01053 7.0597E-05 NaN 23.148 49 26 2 NaN NaN NaN NaN 0 NaN NaN 0 7363200 + 23035 14623 14749 14805 -0.044181586732293 PDGSFPEI 8 Unmodified _PDGSFPEI_ 0 0 0 REV__ENSG00000242732|ENST00000609883|RTL5 REV__ENSG00000242732|ENST00000609883|RTL5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 431.203076 860.391599 3.0218 0.001303 1.0185 0.00043919 4.0403 0.0017422 431.20348676913886 46.98 0.43037 47.632 47.469 47.899 0.65219 0.0070267 -0.00018162 NaN 23.148 49 28 2 NaN NaN NaN NaN 0 NaN NaN 0 4635700 + 23036 14623 14749 14805 -0.044181586732293 PDHCNDCL 8 Unmodified _PDHCNDCL_ 0 0 0 ENSG00000099139|ENST00000674117|PCSK5;nc|ENSG00000099139|Q92824|PCSK5;nc|ENSG00000099139|Q92824-2|PCSK5 ENSG00000099139|ENST00000674117|PCSK5 ENSG00000099139|ENST00000674117|PCSK5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 458.6678771972656 2 458.66802 915.321487 NaN NaN NaN NaN NaN NaN NaN 78.038 1 78.599 78.099 79.099 0.56091 0 0 0 0.99035 1 37900 37900 0.79363 0 1 23037 1134 14750 14806 26659 26659 -0.1395610360500541 PDHDQLYFVM 10 Unmodified _PDHDQLYFVM_ 0 0 0 REV__ENSG00000179913|ENST00000318683|B3GNT3 REV__ENSG00000179913|ENST00000318683|B3GNT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.1952819824219 3 422.193746 1263.55941 NaN NaN NaN NaN NaN NaN NaN 20.711 1 20.711 20.211 21.211 0 0 0 0 1.0004 1 9265 9265 0.56317 0 1 + 23038 13810 14751 14807 26660 26660 -0.06182839470943691 PDHSDHTLS 9 Unmodified _PDHSDHTLS_ 0 0 0 ENSG00000136205|ENST00000311160|TNS3 ENSG00000136205|ENST00000311160|TNS3 ENSG00000136205|ENST00000311160|TNS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.81805419921875 3 336.817556 1007.43084 NaN NaN NaN NaN NaN NaN NaN 12.358 1 12.995 12.495 13.495 0.63746 0 0 0 0.19548 1 5524 5524 31.268 10.854 1 23039 2931 14752 14808 26661 26661 -0.07258058389652433 PDIKLFGKW 9 Unmodified _PDIKLFGKW_ 0 0 0 ENST00000599909.1_1_19:58899504-58899627:+|nuORF;ENST00000598807.1_1_19:58899504-58905010:+|nuORF;ENSG00000083845|ENST00000196551|RPS5 ENST00000599909.1_1_19:58899504-58899627:+|nuORF ENST00000599909.1_1_19:58899504-58899627:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.3167114257812 2 552.316035 1102.61752 NaN NaN NaN NaN NaN NaN NaN 81.956 1 82.203 81.703 82.703 0.24722 0 0 0 0.89683 1 37723 37723 4.3292 0 1 23040 945 14753 14809 26662 26662 0.07031210236687002 PDIVLLPLP 9 Unmodified _PDIVLLPLP_ 0 0 0 nc|ENSG00000021645|Q9HDB5|NRXN3;ENSG00000021645|ENST00000335750|NRXN3;nc|ENSG00000021645|Q9Y4C0|NRXN3 nc|ENSG00000021645|Q9HDB5|NRXN3 nc|ENSG00000021645|Q9HDB5|NRXN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 326.2095031738281 3 326.207433 975.600469 NaN NaN NaN NaN NaN NaN NaN 64.182 1 64.839 64.339 65.339 0.65672 0 0 0 0.91014 1 29421 29421 1.0715 0 1 23041 459 14754 14810 26663 26663 0.11169289630868207 PDKEMENFY 9 Unmodified _PDKEMENFY_ 0 0 0 ENSG00000139211|ENST00000550413|AMIGO2 ENSG00000139211|ENST00000550413|AMIGO2 ENSG00000139211|ENST00000550413|AMIGO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.5048522949219 3 391.502468 1171.48558 3.0385 0.0011896 1.8127 0.00070969 4.8512 0.0018993 391.5034688586379 37.109 0.43608 37.37 37.105 37.541 0.26083 27 13 3 0 0 0 1.0041 1 16937 16937 2.2828 0.82766 1 426860 23042 3138 14755 14811 26664 26664 -0.09330807633273253 PDKPFSIRPKS 11 Unmodified _PDKPFSIRPKS_ 0 0 0 REV__ENST00000271526.8_1_1:156770262-156770418:+|nuORF REV__ENST00000271526.8_1_1:156770262-156770418:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 636.3587036132812 2 636.358962 1270.70337 NaN NaN NaN NaN NaN NaN NaN 87.227 1 87.267 86.767 87.767 0.039955 0 0 0 1.0007 1 44104 44104 6.6304 1.3335 1 + 23043 15063 14756 14812 26665 26665 0.07884750351513503 PDKQDDVSL 9 Unmodified _PDKQDDVSL_ 0 0 0 REV__nc|ENSG00000165359|Q5JSJ4|INTS6L REV__nc|ENSG00000165359|Q5JSJ4|INTS6L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.7488098144531 2 508.748379 1015.4822 NaN NaN NaN NaN NaN NaN NaN 37.346 1 38.141 37.641 38.641 0.79552 0 0 0 0.81563 1 16922 16922 8.7454 0.83525 1 + 23044 13155 14757 14813 26666 26666 -0.024917344156278887 PDLAPAIK 8 Unmodified _PDLAPAIK_ 0 0 0 ENSG00000253958|ENST00000519106|CLDN23 ENSG00000253958|ENST00000519106|CLDN23 ENSG00000253958|ENST00000519106|CLDN23 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.74749755859375 2 412.747453 823.480354 2.6394 0.0010894 -2.4236 -0.0010003 0.21584 8.9085E-05 412.74581188600536 74.798 0.24509 75.056 74.953 75.198 0.2583 32 20 2 0 0 0 0.74071 1 34415 34415 2.5775 0 1 377390 23045 6275 14758 14814 26667 26667 0.06155301357080134 PDLAPAIK 8 Unmodified _PDLAPAIK_ 0 0 0 ENSG00000253958|ENST00000519106|CLDN23 ENSG00000253958|ENST00000519106|CLDN23 ENSG00000253958|ENST00000519106|CLDN23 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 412.747453 823.480354 2.4984 0.0010312 -3.3986 -0.0014028 -0.90018 -0.00037155 412.7459239689218 74.434 0.24627 75.098 74.996 75.242 0.6644 0.020894 -0.00027046 NaN 2.5775 39 27 2 NaN NaN NaN NaN 0 NaN NaN 0 389070 23046 6275 14758 14814 0.06155301357080134 PDLDRHQL 8 Unmodified _PDLDRHQL_ 0 0 0 ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD ENSG00000166171|ENST00000370151|DPCD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 497.2611389160156 2 497.259248 992.503943 3.1667 0.0015746 -0.25782 -0.0001282 2.9088 0.0014464 497.2592296347873 35.982 0.26078 36.773 36.637 36.898 0.79131 17 9 2 0 0 0 0.19267 1 16314 16314 43.772 19.752 1 313240 23047 4457 14759 14815 26668 26668 0.007391151236220139 PDLFFVYKR 9 Unmodified _PDLFFVYKR_ 0 0 0 REV__SLC44A1|p.N422Ifs*11|1|0.27|ENSG00000070214|chr9:105365493-105365493|A/-|frameshift_variant REV__SLC44A1|p.N422Ifs*11|1|0.27|ENSG00000070214|chr9:105365493-105365493|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 395.5532531738281 3 395.553603 1183.63898 NaN NaN NaN NaN NaN NaN NaN 61.348 1 62.088 61.588 62.588 0.7396 0 0 0 0.90611 1 28433 28433 1.0715 0.10919 1 + 23048 10475 14760 14816 26669 26669 0.05450595265369884 PDLRLRKRRR 10 Unmodified _PDLRLRKRRR_ 0 0 0 ENST00000466075.1_1_2:239136435-239140270:-|nuORF ENST00000466075.1_1_2:239136435-239140270:-|nuORF ENST00000466075.1_1_2:239136435-239140270:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 683.5971069335938 2 683.436735 1364.85892 NaN NaN NaN NaN NaN NaN NaN 78.695 1 78.695 78.195 79.195 0 0 0 0 1.0003 1 38741 38741 1.4819 0 1 23049 8132 14761 14817 26670 26670 0.19108258716278215 PDLRQWLP 8 Unmodified _PDLRQWLP_ 0 0 0 ENST00000409262.7_1_2:74326608-74327766:+|nuORF ENST00000409262.7_1_2:74326608-74327766:+|nuORF ENST00000409262.7_1_2:74326608-74327766:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 342.1917419433594 3 342.190665 1023.55016 NaN NaN NaN NaN NaN NaN NaN 75.648 1 75.906 75.406 76.406 0.25704 0 0 0 0.99035 1 34818 34818 1.6526 0 1 23050 7656 14762 14818 26671 26671 0.03933180025705951 PDMDVILN 8 Unmodified _PDMDVILN_ 0 0 0 ENSG00000196476|ENST00000360321|C20orf96 ENSG00000196476|ENST00000360321|C20orf96 ENSG00000196476|ENST00000360321|C20orf96 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 916.44384765625 1 916.444445 915.437169 3.1067 0.0028471 -0.59972 -0.00054961 2.507 0.0022975 916.4441641735966 73.071 0.53893 73.77 73.531 74.07 0.69881 147 51 4 0 0 0 0.10141 1 35351 35351 53.576 6.6547 1 14378000 23051 5748 14763 14819 26672 26672 -0.023932564825031477 PDMESPLPPPP 11 Unmodified _PDMESPLPPPP_ 0 0 0 nc|ENSG00000004777|O14559-10|ARHGAP33;nc|ENSG00000004777|O14559-11|ARHGAP33;ENSG00000004777|ENST00000007510|ARHGAP33 nc|ENSG00000004777|O14559-10|ARHGAP33 nc|ENSG00000004777|O14559-10|ARHGAP33 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.7866821289062 2 588.783907 1175.55326 3.7671 0.002218 -0.52752 -0.0003106 3.2396 0.0019074 588.7837179986951 43.885 0.31546 44.533 44.434 44.75 0.64872 66 23 6 0 0 0 0.66009 1 20182 20182 13.042 2.9685 1 14789000 23052 317 14764 14820 26673 26673 -0.027493577024642946 PDMKRYLWE 9 Unmodified _PDMKRYLWE_ 0 0 0 ENSG00000111696|ENST00000392876|NT5DC3 ENSG00000111696|ENST00000392876|NT5DC3 ENSG00000111696|ENST00000392876|NT5DC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.3074340820312 2 619.305341 1236.59613 3.5295 0.0021858 -1.5292 -0.00094702 2.0003 0.0012388 619.3042493222418 63.075 0.28015 63.733 63.608 63.888 0.65809 37 15 3 0 0 0 0.98132 1 28947 28947 4.3292 0.38484 1 1426300 23053 1772 14765 14821 26674 26674 -0.012705428543995367 PDNKKKKPKKE 11 Unmodified _PDNKKKKPKKE_ 0 0 0 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 670.407958984375 2 670.406444 1338.79833 4.1643 0.0027918 -2.0328 -0.0013628 2.1314 0.0014289 670.4052310361959 100.71 0.13185 101.3 101.22 101.35 0.59717 6 3 2 0 0 0 0.91137 1 46647 46647 2.7352 1.4057 1 3252300 23054 5957 14766 14822 26675 26675 0.14248683822665953 PDNKKKKPKKE 11 Unmodified _PDNKKKKPKKE_ 0 0 0 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 670.406444 1338.79833 2.4173 0.0016206 -3.2341 -0.0021682 -0.81678 -0.00054758 670.4044349804326 100.82 0.067215 100.88 100.85 100.92 0.059723 -0.21189 -0.0019192 NaN 2.7352 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 5003700 23055 5957 14766 14822 0.14248683822665953 PDNKKKKPKKE 11 Unmodified _PDNKKKKPKKE_ 0 0 0 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 670.406444 1338.79833 4.6144 0.0030935 -1.1257 -0.00075469 3.4887 0.0023389 670.4055653026614 100.78 0.083809 101.1 101.03 101.11 0.31412 0.001597 0.00090773 NaN 2.7352 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 4480000 23056 5957 14766 14822 0.14248683822665953 PDNKKKKPKKE 11 Unmodified _PDNKKKKPKKE_ 0 0 0 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 670.406444 1338.79833 4.1643 0.0027918 -2.0328 -0.0013628 2.1314 0.0014289 670.4052310361959 100.71 0.13185 101.3 101.22 101.35 0.59717 0.2103 -0.00030855 NaN 2.7352 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 3252300 23057 5957 14766 14822 0.14248683822665953 PDNLLPLTF 9 Unmodified _PDNLLPLTF_ 0 0 0 REV__nc|ENSG00000170345|P01100-2|FOS REV__nc|ENSG00000170345|P01100-2|FOS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.2858276367188 2 515.2844 1028.55425 NaN NaN NaN NaN NaN NaN NaN 84.458 1 85.123 84.623 85.623 0.66566 0 0 0 0.49214 1 38902 38902 19.257 1.1106 1 + 23058 13433 14767 14823 26676 26676 0.04111224728740126 PDNQLTLML 9 Unmodified _PDNQLTLML_ 0 0 0 REV__ENST00000483695.1_1_3:38263121-38266196:+|nuORF REV__ENST00000483695.1_1_3:38263121-38266196:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.7745971679688 2 522.773342 1043.53213 2.8164 0.0014724 -0.1423 -7.439E-05 2.6741 0.001398 522.7734809460743 70.899 0.50134 71.603 71.421 71.923 0.70386 121 65 3 0 0 0 0.093314 1 34052 34052 34.402 0 1 8193600 + 23059 13573 14768 14824 26677 26677 0.012106769886713664 PDNQLTLML 9 Unmodified _PDNQLTLML_ 0 0 0 REV__ENST00000483695.1_1_3:38263121-38266196:+|nuORF REV__ENST00000483695.1_1_3:38263121-38266196:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.7753295898438 2 522.773342 1043.53213 3.1306 0.0016366 1.5515 0.00081109 4.6821 0.0024477 522.7734018053621 71.422 0.58672 71.68 71.23 71.817 0.25786 122 49 4 0 0 0 0.024388 3 32698 32655;32698;32739 62.573 8.7399 1 3817700 + 23060 13573 14768 14824 26678;26679;26680 26679 0.012106769886713664 PDNQLTLML 9 Unmodified _PDNQLTLML_ 0 0 0 REV__ENST00000483695.1_1_3:38263121-38266196:+|nuORF REV__ENST00000483695.1_1_3:38263121-38266196:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1044.5419921875 1 1044.53941 1043.53213 2.9996 0.0031333 0.1964 0.00020515 3.196 0.0033384 1044.5390081633964 70.889 0.33095 71.551 71.389 71.72 0.66209 29 20 2 0 0 0 0.19064 2 32533 32477;32533 24.021 14.637 1 460320 + 23061 13573 14768 14824 26681;26682 26682 0.012106769886713664 PDNYFNANC 9 Unmodified _PDNYFNANC_ 0 0 0 nc|ENSG00000117114|O95490-3|ADGRL2;nc|ENSG00000117114|O95490-4|ADGRL2;nc|ENSG00000117114|O95490-2|ADGRL2;nc|ENSG00000117114|O95490-5|ADGRL2;nc|ENSG00000117114|O95490|ADGRL2;nc|ENSG00000117114|O95490-7|ADGRL2;ENSG00000117114|ENST00000686636|ADGRL2;nc|ENSG00000117114|O95490-6|ADGRL2 nc|ENSG00000117114|O95490-3|ADGRL2 nc|ENSG00000117114|O95490-3|ADGRL2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.2828369140625 2 529.205824 1056.39709 3.0921 0.0016364 0.093858 4.967E-05 3.186 0.001686 529.2056053170912 51.835 0.34845 52.497 52.358 52.706 0.66198 33 20 2 0 0 0 0.11288 1 23790 23790 2.0598 2.0598 1 721460 23062 2060 14769 14825 26683 26683 -0.1288480315306515 PDPLTLYHKGI 11 Unmodified _PDPLTLYHKGI_ 0 0 0 MEN1|p.Y358Sfs*15|1|0.35|ENSG00000133895|chr11:64805762-64805762|T/-|frameshift_variant;nc|ENSG00000133895|O00255-3|MEN1;ENSG00000133895|ENST00000450708|MEN1;nc|ENSG00000133895|O00255-1|MEN1 MEN1|p.Y358Sfs*15|1|0.35|ENSG00000133895|chr11:64805762-64805762|T/-|frameshift_variant MEN1|p.Y358Sfs*15|1|0.35|ENSG00000133895|chr11:64805762-64805762|T/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 626.9893188476562 2 627.348063 1252.68157 2.4748 0.0015525 3.4465 0.0021622 5.9213 0.0037147 627.85199677476 90.68 0.03022 90.756 90.732 90.763 0.075279 4 2 2 0 0 0 0.13295 1 46770 46770 4.897 0 1 9086500 23063 2775 14770 14826 26684 26684 0.06533945602950553 PDPNPGVI 8 Unmodified _PDPNPGVI_ 0 0 0 ENSG00000198793|ENST00000361445|MTOR ENSG00000198793|ENST00000361445|MTOR ENSG00000198793|ENST00000361445|MTOR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 808.42333984375 1 808.419945 807.412668 3.8458 0.003109 0.35736 0.00028889 4.2032 0.0033979 808.4199544098319 63.193 0.35141 63.851 63.631 63.982 0.65808 29 20 2 0 0 0 0.44001 2 28899 28899;28953 25.399 0 1 766500 23064 5935 14771 14827 26685;26686 26685 0.0012585142628722679 PDPPGNDG 8 Unmodified _PDPPGNDG_ 0 0 0 ENSG00000111249|ENST00000261726|CUX2 ENSG00000111249|ENST00000261726|CUX2 ENSG00000111249|ENST00000261726|CUX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 384.6626281738281 2 384.661575 767.308597 3.0063 0.0011564 0.95481 0.00036728 3.9611 0.0015237 384.6615586305786 28.353 0.45077 28.353 28.163 28.614 0 41 31 2 0 0 0 0.37185 2 12816 12762;12816 30.225 14.378 1 1261500 23065 1749 14772 14828 26687;26688 26688 -0.08436475401231291 PDPPGNDG 8 Unmodified _PDPPGNDG_ 0 0 0 ENSG00000111249|ENST00000261726|CUX2 ENSG00000111249|ENST00000261726|CUX2 ENSG00000111249|ENST00000261726|CUX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 385.15338134765625 2 384.661575 767.308597 2.5839 0.00099392 0.84665 0.00032567 3.4305 0.0013196 384.6615093641856 27.459 0.5205 28.245 28.028 28.549 0.78627 67 47 2 0 0 0 0.47217 2 12316 12316;12374 23.148 7.3012 1 1261600 23066 1749 14772 14828 26689;26690 26689 -0.08436475401231291 PDPPGNDG 8 Unmodified _PDPPGNDG_ 0 0 0 ENSG00000111249|ENST00000261726|CUX2 ENSG00000111249|ENST00000261726|CUX2 ENSG00000111249|ENST00000261726|CUX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 384.66290283203125 2 384.661575 767.308597 NaN NaN NaN NaN NaN NaN NaN 28.128 1 28.39 27.89 28.89 0.26245 0 0 0 0.67718 1 12792 12792 23.148 7.3012 1 23067 1749 14772 14828 26691 26691 -0.08436475401231291 PDPSDDDDDDD 11 Unmodified _PDPSDDDDDDD_ 0 0 0 REV__ENSG00000110696|ENST00000228136|C11orf58 REV__ENSG00000110696|ENST00000228136|C11orf58 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 610.6881713867188 2 610.689109 1219.36367 NaN NaN NaN NaN NaN NaN NaN 97.724 1 98.323 97.823 98.823 0.59885 0 0 0 1.0072 1 44948 44948 1.3295 0.72803 1 + 23068 11209 14773 14829 26692 26692 -0.23724222972600728 PDPVVECGVL 10 Unmodified _PDPVVECGVL_ 0 0 0 REV__nc|ENSG00000169129|Q8N4X5-4|AFAP1L2 REV__nc|ENSG00000169129|Q8N4X5-4|AFAP1L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.2617797851562 2 514.260068 1026.50558 3.8096 0.0019591 0.13095 6.7343E-05 3.9405 0.0020265 514.2600559444911 30.6 0.35798 30.856 30.656 31.014 0.25614 37 23 2 0 0 0 0.83621 1 13943 13943 6.7232 0 1 211000 + 23069 18035 14774 14830 26693 26693 -0.006610119026390748 PDQAAPPL 8 Unmodified _PDQAAPPL_ 0 0 0 ENST00000590399.1_1_19:11482505-11485421:-|nuORF ENST00000590399.1_1_19:11482505-11485421:-|nuORF ENST00000590399.1_1_19:11482505-11485421:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 808.4208984375 1 808.419945 807.412668 3.664 0.0029621 -0.15876 -0.00012835 3.5053 0.0028337 808.41957597234 63.731 0.39442 63.979 63.773 64.167 0.24803 35 22 2 0 0 0 0.44001 2 29166 29166;29219 25.399 3.6527 1 856070 23070 9223 14775 14831 26694;26695 26694 0.0012585142626448942 PDQAAPPL 8 Unmodified _PDQAAPPL_ 0 0 0 ENST00000590399.1_1_19:11482505-11485421:-|nuORF ENST00000590399.1_1_19:11482505-11485421:-|nuORF ENST00000590399.1_1_19:11482505-11485421:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.71502685546875 2 404.713611 807.412668 2.7793 0.0011248 -0.21517 -8.7081E-05 2.5642 0.0010378 404.71363196620064 63.725 0.40034 63.973 63.794 64.194 0.24803 37 23 2 0 0 0 0.44001 1 29220 29220 25.399 2.2509 1 826000 23071 9223 14775 14831 26696 26696 0.0012585142626448942 PDQAEPSWAEV 11 Unmodified _PDQAEPSWAEV_ 0 0 0 REV__nc|ENSG00000197162|A8K8V0-2|ZNF785 REV__nc|ENSG00000197162|A8K8V0-2|ZNF785 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 614.7764892578125 2 614.777667 1227.54078 NaN NaN NaN NaN NaN NaN NaN 47.565 1 48.218 47.718 48.718 0.65356 0 0 0 1.0047 1 21775 21775 4.5289 1.5336 1 + 23072 14263 14776 14832 26697 26697 -0.06388677841141543 PDQDIRQL 8 Unmodified _PDQDIRQL_ 0 0 0 REV__ENST00000600519.5_1_19:17657497-17660277:+|nuORF REV__ENST00000600519.5_1_19:17657497-17660277:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.7587890625 2 492.759081 983.503609 NaN NaN NaN NaN NaN NaN NaN 57.257 1 57.522 57.022 58.022 0.26444 0 0 0 0.55493 1 26207 26207 26.884 3.7352 1 + 23073 17633 14777 14833 26698 26698 0.011196954037473006 PDQLLPSTATF 11 Unmodified _PDQLLPSTATF_ 0 0 0 ENSG00000174576|ENST00000311034|NPAS4 ENSG00000174576|ENST00000311034|NPAS4 ENSG00000174576|ENST00000311034|NPAS4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 397.20989990234375 3 397.208161 1188.60265 2.7057 0.0010747 1.5858 0.0006299 4.2915 0.0017046 397.2085575788422 21.683 0.2712 21.683 21.568 21.839 0 31 26 2 0 0 0 0.77056 1 9713 9713 4.1166 1.4854 1 152900 23074 4987 14778 14834 26699 26699 0.015896735779733717 PDQRLLLL 8 Unmodified _PDQRLLLL_ 0 0 0 REV__ENST00000476322.1_1_6:170064385-170064691:-|nuORF REV__ENST00000476322.1_1_6:170064385-170064691:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 323.202392578125 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 25.375 1 26.139 25.639 26.639 0.76356 0 0 0 0.99035 1 11388 11388 1.3295 0.13619 1 + 23075 16653 14779 14835 26700 26700 0.10158637202584941 PDQRYWYMYNH 11 Unmodified _PDQRYWYMYNH_ 0 0 0 REV__nc|ENSG00000211724|A0A0A6YYG2|TRBV6-6 REV__nc|ENSG00000211724|A0A0A6YYG2|TRBV6-6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 786.8382568359375 2 786.838068 1571.66158 NaN NaN NaN NaN NaN NaN NaN 89.687 1 89.687 89.187 90.187 0 0 0 0 1.0082 1 46917 46917 0 0 1 + 23076 18122 14780 14836 26701 26701 -0.1013817339930938 PDQVDKEDEDF 11 Unmodified _PDQVDKEDEDF_ 0 0 0 ENST00000490639.5_1_3:148895590-148939579:-|nuORF;ENSG00000047457|ENST00000264613|CP;ENST00000489736.5_1_3:148904295-148925363:-|nuORF;ENST00000497797.5_1_3:148905800-148917562:-|nuORF ENST00000490639.5_1_3:148895590-148939579:-|nuORF ENST00000490639.5_1_3:148895590-148939579:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 668.7791748046875 2 668.780604 1335.54666 NaN NaN NaN NaN NaN NaN NaN 70.483 1 70.483 69.983 70.983 0 0 0 0 0.96369 1 34207 34207 10.151 3.4274 1 23077 558 14781 14837 26702 26702 -0.10769624120166554 PDRHLREKP 9 Unmodified _PDRHLREKP_ 0 0 0 ENSG00000052795|ENST00000264433|FNIP2;nc|ENSG00000052795|Q9P278-2|FNIP2 ENSG00000052795|ENST00000264433|FNIP2 ENSG00000052795|ENST00000264433|FNIP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.3216552734375 2 574.320171 1146.62579 4.2079 0.0024167 -1.6865 -0.00096859 2.5214 0.0014481 574.3188472365226 99.678 0.14738 99.987 99.913 100.06 0.30835 11 6 2 0 0 0 0.8705 1 46086 46086 6.2058 2.2614 1 2600100 23078 593 14782 14838 26703 26703 0.058341572059816826 PDRKRRRKKRK 11 Unmodified _PDRKRRRKKRK_ 0 0 0 REV__HMGB4|p.R86dup|1|0.05|ENSG00000176256|chr1:33864442-33864443|-/GAG|inframe_insertion REV__HMGB4|p.R86dup|1|0.05|ENSG00000176256|chr1:33864442-33864443|-/GAG|inframe_insertion MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 762.496826171875 2 762.495116 1522.97568 NaN NaN NaN NaN NaN NaN NaN 53.397 1 53.397 52.897 53.897 0 0 0 0 1.008 1 24462 24462 0.35063 0.35063 1 + 23079 17741 14783 14839 26704 26704 0.23510996936033735 PDRLWWPAQRA 11 Unmodified _PDRLWWPAQRA_ 0 0 0 ENST00000217402.2_1_20:32441382-32441496:+|nuORF ENST00000217402.2_1_20:32441382-32441496:+|nuORF ENST00000217402.2_1_20:32441382-32441496:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.7905578613281 3 465.914194 1394.72075 NaN NaN NaN NaN NaN NaN NaN 66.597 1 67.253 66.753 67.753 0.65672 0 0 0 1.0072 1 30530 30530 0.45452 0 1 23080 6411 14784 14840 26705 26705 0.03918090677188957 PDRPRWDRCRY 11 Unmodified _PDRPRWDRCRY_ 0 0 0 ENST00000521713.1_1_7:6179681-6199085:+|nuORF;ENSG00000106346|ENST00000306177|USP42;nc|ENSG00000106346|Q9H9J4|USP42;ENST00000479544.6_1_7:6150764-6196715:+|nuORF ENST00000521713.1_1_7:6179681-6199085:+|nuORF ENST00000521713.1_1_7:6179681-6199085:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 760.5082397460938 2 760.370401 1518.72625 NaN NaN NaN NaN NaN NaN NaN 91.449 1 91.532 91.032 92.032 0.082848 0 0 0 1.0072 1 47397 47397 1.3295 0 1 23081 1564 14785 14841 26706 26706 -0.012365538026642753 PDRQLRTQF 9 Unmodified _PDRQLRTQF_ 0 0 0 REV__ENST00000490939.1_1_6:25087010-25108891:-|nuORF REV__ENST00000490939.1_1_6:25087010-25108891:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.8770751953125 3 387.543878 1159.60981 2.8786 0.0011156 -0.894 -0.00034646 1.9846 0.00076913 387.5433810294078 14.659 0.47757 15.313 15.199 15.676 0.65356 89 44 3 0 0 0 0.55815 1 6683 6683 11.495 7.9077 1 1010300 + 23082 16800 14786 14842 26707 26707 0.03638450969083351 PDRRRRRRQQ 10 Unmodified _PDRRRRRRQQ_ 0 0 0 REV__ENST00000508982.1_1_5:64859104-64863443:+|nuORF REV__ENST00000508982.1_1_5:64859104-64863443:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 356.96173095703125 4 356.7108 1422.81409 2.343 0.00083578 -0.29255 -0.00010436 2.0505 0.00073142 356.71068383871415 62.066 0.36591 62.726 62.621 62.986 0.66008 112 41 3 0 0 0 0.94134 1 28399 28399 0.62683 0.62683 1 9540400 + 23083 11303 14787 14843 26708 26708 0.11959827902978759 PDSAGLCLK 9 Unmodified _PDSAGLCLK_ 0 0 0 ENST00000411491.5_1_7:102920607-102920745:-|nuORF ENST00000411491.5_1_7:102920607-102920745:-|nuORF ENST00000411491.5_1_7:102920607-102920745:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 452.2350158691406 2 452.233853 902.453153 NaN NaN NaN NaN NaN NaN NaN 30.276 1 30.276 29.776 30.776 0 0 0 0 0.42757 1 13676 13676 21.747 6.9084 1 23084 7670 14788 14844 26709 26709 -0.0019755024561618484 PDSGHDFPCM 10 Unmodified _PDSGHDFPCM_ 0 0 0 REV__nc|ENSG00000139746|Q5T8P6-3|RBM26 REV__nc|ENSG00000139746|Q5T8P6-3|RBM26 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.3515014648438 2 553.207509 1104.40047 NaN NaN NaN NaN NaN NaN NaN 85.201 1 85.45 84.95 85.95 0.24857 0 0 0 1.0001 1 39209 39209 1.6526 0 1 + 23085 12219 14789 14845 26710 26710 -0.14755876370736587 PDSIPDML 8 Unmodified _PDSIPDML_ 0 0 0 REV__ENSG00000118997|ENST00000312428|DNAH7 REV__ENSG00000118997|ENST00000312428|DNAH7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 887.4207153320312 1 887.417896 886.410619 3.9069 0.0034671 -0.00027192 -2.4131E-07 3.9067 0.0034668 887.4180311557075 83.96 0.34552 84.207 84.047 84.392 0.24722 33 19 2 0 0 0 0.45037 1 38707 38707 24.674 0 1 1298300 + 23086 11487 14790 14846 26711 26711 -0.03712945373843013 PDSKIALSL 9 Unmodified _PDSKIALSL_ 0 0 0 REV__LYST|p.H1457Ifs*42|1|0.05|ENSG00000143669|chr1:235791873-235791874|-/AT|frameshift_variant REV__LYST|p.H1457Ifs*42|1|0.05|ENSG00000143669|chr1:235791873-235791874|-/AT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.2776184082031 2 472.276575 942.538597 2.7787 0.0013123 -0.00049493 -2.3374E-07 2.7782 0.0013121 472.27637816480575 44.141 0.54895 44.962 44.775 45.324 0.82075 71 30 3 0 0 0 0.19413 1 20230 20230 23.79 0 1 1223300 + 23087 12376 14791 14847 26712 26712 0.06502938211713172 PDSLIIYRQKC 11 Unmodified _PDSLIIYRQKC_ 0 0 0 ENSG00000184731|ENST00000327669|FAM110C ENSG00000184731|ENST00000327669|FAM110C ENSG00000184731|ENST00000327669|FAM110C MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1336.11328125 1 1335.70893 1334.70166 3.2597 0.0043541 1.6426 0.002194 4.9023 0.0065481 1335.713361367123 54.665 0.16756 55.332 55.292 55.46 0.6665 24 15 3 0 0 0 0.13295 1 25001 25001 2.9952 0 1 2498400 23088 5459 14792 14848 26713 26713 0.04769373271255972 PDSMDIITV 9 Unmodified _PDSMDIITV_ 0 0 0 REV__nc|ENSG00000070371|P53675-2|CLTCL1 REV__nc|ENSG00000070371|P53675-2|CLTCL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.7465515136719 2 495.74425 989.473948 3.2243 0.0015985 -0.31803 -0.00015766 2.9063 0.0014408 495.7441957687461 59.765 0.29682 60.43 60.274 60.571 0.66503 30 14 3 0 0 0 0.062556 1 27340 27340 42.095 9.7891 1 1308700 + 23089 17866 14793 14849 26714 26714 -0.021210046565897755 PDSSDAPF 8 Unmodified _PDSSDAPF_ 0 0 0 REV__ENST00000536066.1_1_12:2967806-2973707:-|nuORF REV__ENST00000536066.1_1_12:2967806-2973707:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 835.349365234375 1 835.346839 834.339563 4.1488 0.0034657 -0.23668 -0.00019771 3.9121 0.003268 835.3469481012324 41.548 0.2283 41.818 41.738 41.966 0.27021 15 10 2 0 0 0 0.34607 1 18950 18950 32.117 1.8922 1 615990 + 23090 11222 14794 14850 26715 26715 -0.08423322086991902 PDSSFCCC 8 Unmodified _PDSSFCCC_ 0 0 0 ENST00000488498.2_1_1:156377263-156377563:-|nuORF ENST00000488498.2_1_1:156377263-156377563:-|nuORF ENST00000488498.2_1_1:156377263-156377563:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 431.1333312988281 2 431.132424 860.250296 NaN NaN NaN NaN NaN NaN NaN 68.791 1 69.494 68.994 69.994 0.70218 0 0 0 0.99035 1 32827 32827 2.5775 0 1 23091 8368 14795 14851 26716 26716 -0.18541939634030769 PDSSYYNES 9 Unmodified _PDSSYYNES_ 0 0 0 REV__nc|ENSG00000113360|Q9NRR4-2|DROSHA REV__nc|ENSG00000113360|Q9NRR4-2|DROSHA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1061.411376953125 1 1061.40581 1060.39853 3.4081 0.0036174 1.3573 0.0014406 4.7654 0.005058 1062.4098195274662 56.947 0.080292 56.947 56.88 56.961 0 10 7 2 0 0 0 0.76984 1 26216 26216 7.9102 0 1 1519500 + 23092 11297 14796 14852 26717 26717 -0.12924890583326487 PDSSYYNES 9 Unmodified _PDSSYYNES_ 0 0 0 REV__nc|ENSG00000113360|Q9NRR4-2|DROSHA REV__nc|ENSG00000113360|Q9NRR4-2|DROSHA MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 1061.40581 1060.39853 3.4081 0.0036174 1.3573 0.0014406 4.7654 0.005058 1062.4098195274662 56.947 0.080292 56.947 56.88 56.961 0 0 0 NaN 7.9102 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 1519500 + 23093 11297 14796 14852 -0.12924890583326487 PDTDPAFF 8 Unmodified _PDTDPAFF_ 0 0 0 ENSG00000147813|ENST00000449291|NAPRT;nc|ENSG00000147813|Q6XQN6-2|NAPRT;ENST00000480946.6_1_8:144659238-144660323:-|nuORF;NAPRT|p.F424Sfs*17|1|0.22|ENSG00000147813|chr8:143575443-143575443|A/-|frameshift_variant;nc|ENSG00000147813|Q6XQN6-3|NAPRT ENSG00000147813|ENST00000449291|NAPRT ENSG00000147813|ENST00000449291|NAPRT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 455.20257568359375 2 455.203076 908.391599 NaN NaN NaN NaN NaN NaN NaN 53.833 1 54.629 54.129 55.129 0.79632 0 0 0 0.99035 1 24565 24565 2.5775 0.27475 1 23094 3581 14797 14853 26718 26718 -0.0662615867323666 PDTIDHDL 8 Unmodified _PDTIDHDL_ 0 0 0 ENSG00000197766|ENST00000327726|CFD ENSG00000197766|ENST00000327726|CFD ENSG00000197766|ENST00000327726|CFD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 925.427001953125 1 925.426152 924.418876 3.7975 0.0035143 -1.3359 -0.0012363 2.4616 0.0022781 925.4236937554838 37.197 0.75431 37.197 37.01 37.765 0 39 28 2 0 0 0 0.52517 1 17018 17018 19.439 0 1 738210 23095 5840 14798 14854 26719 26719 -0.04635675132851702 PDVFDMNL 8 Unmodified _PDVFDMNL_ 0 0 0 REV__ENSG00000167325|ENST00000300738|RRM1 REV__ENSG00000167325|ENST00000300738|RRM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.7195739746094 2 475.718036 949.421518 2.8923 0.0013759 -0.16766 -7.9761E-05 2.7247 0.0012962 475.71809074155743 77.94 0.88766 78.193 77.886 78.774 0.25335 158 50 4 0 0 0 0.61796 1 36096 36096 12.532 0 1 10258000 + 23096 13286 14799 14855 26720 26720 -0.055215429995541854 PDVFDMNL 8 Unmodified _PDVFDMNL_ 0 0 0 REV__ENSG00000167325|ENST00000300738|RRM1 REV__ENSG00000167325|ENST00000300738|RRM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.7194519042969 2 475.718036 949.421518 2.8946 0.001377 -0.040077 -1.9065E-05 2.8545 0.0013579 475.7181741427956 77.494 0.77853 78.157 77.873 78.652 0.66302 162 53 5 0 0 0 0.61796 1 35911 35911 12.532 0 1 7624600 + 23097 13286 14799 14855 26721 26721 -0.055215429995541854 PDVHRKKVKT 10 Unmodified _PDVHRKKVKT_ 0 0 0 REV__nc|ENSG00000184634|Q93074-3|MED12 REV__nc|ENSG00000184634|Q93074-3|MED12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 604.368408203125 2 604.367121 1206.71969 4.0122 0.0024248 -1.3825 -0.00083555 2.6297 0.0015893 604.3662512419384 99.789 0.20145 100.39 100.26 100.46 0.59716 31 10 5 0 0 0 0.94165 1 46153 46153 1.3295 0.13619 1 26494000 + 23098 13983 14800 14856 26722 26722 0.12459876308253115 PDVPGPLN 8 Unmodified _PDVPGPLN_ 0 0 0 nc|ENSG00000103534|Q6UXY8-2|TMC5;ENSG00000103534|ENST00000542583|TMC5 nc|ENSG00000103534|Q6UXY8-2|TMC5 nc|ENSG00000103534|Q6UXY8-2|TMC5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 404.7142333984375 2 404.713611 807.412668 NaN NaN NaN NaN NaN NaN NaN 63.108 1 63.766 63.266 64.266 0.65808 0 0 0 0.50246 1 28918 28918 28.487 3.0875 1 23099 1405 14801 14857 26723 26723 0.001258514262758581 PDVPVPAGG 9 Unmodified _PDVPVPAGG_ 0 0 0 REV__ENST00000394063.5_1_9:128420069-128469396:-|nuORF REV__ENST00000394063.5_1_9:128420069-128469396:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.71484375 2 404.713611 807.412668 2.7793 0.0011248 -0.21517 -8.7081E-05 2.5642 0.0010378 404.71363196620064 63.725 0.40034 63.973 63.794 64.194 0.24803 37 23 2 0 0 0 0.20384 1 29167 29167 23.148 1.4018 1 826000 + 23100 15768 14802 14858 26724 26724 0.0012585142628722679 PDVPVPAGG 9 Unmodified _PDVPVPAGG_ 0 0 0 REV__ENST00000394063.5_1_9:128420069-128469396:-|nuORF REV__ENST00000394063.5_1_9:128420069-128469396:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 404.71490478515625 2 404.713611 807.412668 NaN NaN NaN NaN NaN NaN NaN 63.243 1 63.901 63.401 64.401 0.65808 0 0 0 0.3934 1 28980 28980 23.148 1.4018 1 + 23101 15768 14802 14858 26725 26725 0.0012585142628722679 PDVRSEPAL 9 Unmodified _PDVRSEPAL_ 0 0 0 REV__ENST00000598255.5_1_19:8429205-8436046:+|nuORF REV__ENST00000598255.5_1_19:8429205-8436046:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.26275634765625 2 492.261456 982.50836 NaN NaN NaN NaN NaN NaN NaN 40.181 1 40.981 40.481 41.481 0.80014 0 0 0 0.11997 1 18194 18194 37.974 1.4678 1 + 23102 13309 14803 14859 26726 26726 0.016405795465175288 PDWAPLIIP 9 Unmodified _PDWAPLIIP_ 0 0 0 REV__ENST00000578795.1_1_17:28576037-28576226:-|nuORF REV__ENST00000578795.1_1_17:28576037-28576226:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 511.7878723144531 2 511.289485 1020.56442 3.4728 0.0017756 3.4196 0.0017484 6.8924 0.003524 511.2927279529862 37.125 0.48801 37.386 37.022 37.51 0.26083 29 15 3 0 0 0 0.95612 1 16820 16820 4.756 2.1785 1 631920 + 23103 11148 14804 14860 26727 26727 0.054958324539938985 PDWAPLIIP 9 Unmodified _PDWAPLIIP_ 0 0 0 REV__ENST00000578795.1_1_17:28576037-28576226:-|nuORF REV__ENST00000578795.1_1_17:28576037-28576226:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 511.289485 1020.56442 3.217 0.0016448 7.006 0.0035821 10.223 0.0052269 511.29320407396057 37.241 0.21082 37.241 37.168 37.378 0 0.096388 -4.6228E-05 NaN 4.756 17 7 3 NaN NaN NaN NaN 0 NaN NaN 0 668310 + 23104 11148 14804 14860 0.054958324539938985 PDWAPLIIP 9 Unmodified _PDWAPLIIP_ 0 0 0 REV__ENST00000578795.1_1_17:28576037-28576226:-|nuORF REV__ENST00000578795.1_1_17:28576037-28576226:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 511.289485 1020.56442 3.2522 0.0016628 7.1958 0.0036791 10.448 0.005342 511.2928669390526 36.118 0.28959 36.909 36.757 37.047 0.79131 -0.23504 0.00014782 NaN 4.756 17 10 2 NaN NaN NaN NaN 0 NaN NaN 0 779220 + 23105 11148 14804 14860 0.054958324539938985 PDWAPLIIP 9 Unmodified _PDWAPLIIP_ 0 0 0 REV__ENST00000578795.1_1_17:28576037-28576226:-|nuORF REV__ENST00000578795.1_1_17:28576037-28576226:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 511.289485 1020.56442 3.4728 0.0017756 3.4196 0.0017484 6.8924 0.003524 511.2927279529862 37.125 0.48801 37.386 37.022 37.51 0.26083 0.24199 -0.0037137 NaN 4.756 29 15 3 NaN NaN NaN NaN 0 NaN NaN 0 631920 + 23106 11148 14804 14860 0.054958324539938985 PDWAPLIIP 9 Unmodified _PDWAPLIIP_ 0 0 0 REV__ENST00000578795.1_1_17:28576037-28576226:-|nuORF REV__ENST00000578795.1_1_17:28576037-28576226:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 511.289485 1020.56442 3.4817 0.0017801 7.2012 0.0036819 10.683 0.005462 511.293017475206 36.413 0.30851 37.041 36.88 37.189 0.62783 -0.10334 0.00015333 NaN 4.756 15 9 2 NaN NaN NaN NaN 0 NaN NaN 0 490670 + 23107 11148 14804 14860 0.054958324539938985 PDYTKLTMDL 10 Unmodified _PDYTKLTMDL_ 0 0 0 nc|ENSG00000119508|Q92570-2|NR4A3;ENSG00000119508|ENST00000395097|NR4A3;nc|ENSG00000119508|Q92570-3|NR4A3 nc|ENSG00000119508|Q92570-2|NR4A3 nc|ENSG00000119508|Q92570-2|NR4A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 599.3412475585938 2 598.797014 1195.57948 4.2088 0.0025202 -1.5431 -0.00092399 2.6658 0.0015962 598.7963796887024 91.444 0.13014 91.696 91.637 91.767 0.25163 6 5 2 0 0 0 0.83621 1 42054 42054 6.7232 1.4925 1 220370 23108 2144 14805 14861 26728 26728 -0.01049088530953668 PEAEGNGAARA 11 Unmodified _PEAEGNGAARA_ 0 0 0 REV__ENSG00000139289|ENST00000266671|PHLDA1 REV__ENSG00000139289|ENST00000266671|PHLDA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.16748046875 3 348.168588 1041.48394 NaN NaN NaN NaN NaN NaN NaN 44.755 1 45.023 44.523 45.523 0.26768 0 0 0 0.98464 1 20456 20456 4.1166 0 1 + 23109 12209 14806 14862 26729 26729 -0.03514680606986076 PEAGAQPEV 9 Unmodified _PEAGAQPEV_ 0 0 0 REV__ENST00000560504.1_1_15:65115949-65116540:-|nuORF REV__ENST00000560504.1_1_15:65115949-65116540:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 449.22064208984375 2 449.219257 896.423961 3.1269 0.0014046 0.25041 0.00011249 3.3773 0.0015171 449.2192770610437 29.109 0.36525 29.109 28.971 29.336 0 43 28 2 0 0 0 0.079031 2 13137 13137;13187 37.974 13.953 1 294780 + 23110 12248 14807 14863 26730;26731 26730 -0.02839371270238189 PEAGAQPEV 9 Unmodified _PEAGAQPEV_ 0 0 0 REV__ENST00000560504.1_1_15:65115949-65116540:-|nuORF REV__ENST00000560504.1_1_15:65115949-65116540:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 449.220947265625 2 449.219257 896.423961 3.0542 0.001372 0.14855 6.673E-05 3.2027 0.0014387 449.2192927505868 28.547 0.34146 29.167 29.016 29.358 0.61947 30 17 2 0 0 0 0.22507 1 13112 13112 21.747 5.8995 1 192470 + 23111 12248 14807 14863 26732 26732 -0.02839371270238189 PEAGAQPEV 9 Unmodified _PEAGAQPEV_ 0 0 0 REV__ENST00000560504.1_1_15:65115949-65116540:-|nuORF REV__ENST00000560504.1_1_15:65115949-65116540:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 449.219257 896.423961 3.1269 0.0014046 0.25041 0.00011249 3.3773 0.0015171 449.2192770610437 29.109 0.36525 29.109 28.971 29.336 0 -0.022448 2.4496E-05 NaN 37.974 43 28 2 NaN NaN NaN NaN 0 NaN NaN 0 294780 + 23112 12248 14807 14863 -0.02839371270238189 PEAGAQPEV 9 Unmodified _PEAGAQPEV_ 0 0 0 REV__ENST00000560504.1_1_15:65115949-65116540:-|nuORF REV__ENST00000560504.1_1_15:65115949-65116540:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 449.219257 896.423961 2.8611 0.0012853 0.42293 0.00018999 3.284 0.0014752 449.2192280591008 28.332 0.038998 29.118 29.098 29.137 0.78627 -0.012913 0.00017949 NaN 37.974 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 228810 + 23113 12248 14807 14863 -0.02839371270238189 PEAIAHRIFTT 11 Unmodified _PEAIAHRIFTT_ 0 0 0 ENST00000488068.5_1_7:143088552-143095662:-|nuORF;ENSG00000146904|ENST00000275815|EPHA1 ENST00000488068.5_1_7:143088552-143095662:-|nuORF ENST00000488068.5_1_7:143088552-143095662:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 628.343994140625 2 628.343312 1254.67207 NaN NaN NaN NaN NaN NaN NaN 94.764 1 95.024 94.524 95.524 0.25975 0 0 0 1.0041 1 43544 43544 5.2969 1.3525 1 23114 3537 14808 14864 26733 26733 0.05492177317387359 PEALEMLRRR 10 Unmodified _PEALEMLRRR_ 0 0 0 REV__nc|ENSG00000105549|Q9P2T0-2|SPMAP2 REV__nc|ENSG00000105549|Q9P2T0-2|SPMAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 636.1558227539062 2 635.856064 1269.69757 NaN NaN NaN NaN NaN NaN NaN 101.88 1 101.93 101.43 102.43 0.057198 0 0 0 0.99812 1 55321 55321 3.2813 0 1 + 23115 11041 14809 14865 26734 26734 0.07351328568188364 PEATDQRLP 9 Unmodified _PEATDQRLP_ 0 0 0 nc|ENSG00000160051|Q4KMZ1-2|IQCC;ENSG00000160051|ENST00000291358|IQCC;nc|ENSG00000160051|Q4KMZ1-3|IQCC nc|ENSG00000160051|Q4KMZ1-2|IQCC nc|ENSG00000160051|Q4KMZ1-2|IQCC MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.8101196289062 2 513.764363 1025.51417 3.24 0.0016646 0.29861 0.00015341 3.5386 0.001818 513.7644451266024 44.768 0.4436 45.036 44.83 45.274 0.26768 36 23 2 0 0 0 0.099794 1 20515 20515 8.7454 2.0222 1 985880 23116 4039 14810 14866 26735 26735 0.0024367805817746557 PEAWGSGVEVL 11 Unmodified _PEAWGSGVEVL_ 0 0 0 ENSG00000198695|ENST00000361681|MT-ND6 ENSG00000198695|ENST00000361681|MT-ND6 ENSG00000198695|ENST00000361681|MT-ND6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 573.2916259765625 2 572.287671 1142.56079 3.4507 0.0019748 -0.18454 -0.00010561 3.2661 0.0018692 573.2902607277052 60.27 0.56689 60.526 60.082 60.649 0.25578 54 27 3 0 0 0 0.85532 1 27578 27578 8.7454 4.4162 1 400180 23117 5916 14811 14867 26736 26736 -0.004788821105194074 PEAWQSERLKR 11 Unmodified _PEAWQSERLKR_ 0 0 0 REV__ENST00000260061.9_1_11:76368725-76369013:-|nuORF REV__ENST00000260061.9_1_11:76368725-76369013:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 699.8899536132812 2 700.375675 1398.7368 NaN NaN NaN NaN NaN NaN NaN 87.929 1 87.969 87.469 88.469 0.039955 0 0 0 1.0061 1 44659 44659 2.7352 1.2533 1 + 23118 14954 14812 14868 26737 26737 0.05337752123386963 PECCCCGEDEE 11 Unmodified _PECCCCGEDEE_ 0 0 0 REV__nc|ENSG00000197136|Q9H6A9-3|PCNX3 REV__nc|ENSG00000197136|Q9H6A9-3|PCNX3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 608.665283203125 2 608.666699 1215.31885 NaN NaN NaN NaN NaN NaN NaN 24.573 1 24.573 24.073 25.073 0 0 0 0 1.0082 1 11047 11047 0 0 1 + 23119 14260 14813 14869 26738 26738 -0.28020107907150305 PECCTEQCHD 10 Unmodified _PECCTEQCHD_ 0 0 0 REV__ENSG00000182591|ENST00000332378|KRTAP11-1 REV__ENSG00000182591|ENST00000332378|KRTAP11-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 582.8591918945312 2 582.691366 1163.36818 NaN NaN NaN NaN NaN NaN NaN 86.241 1 86.241 85.741 86.741 0 0 0 0 0.99812 1 44165 44165 3.2813 1.4371 1 + 23120 13898 14814 14870 26739 26739 -0.20697031836016322 PECEEEEEEEE 11 Unmodified _PECEEEEEEEE_ 0 0 0 REV__ENSG00000274286|ENST00000620793|ADRA2B REV__ENSG00000274286|ENST00000620793|ADRA2B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 690.5887451171875 2 690.735202 1379.45585 3.1783 0.0021954 -1.5949 -0.0011016 1.5834 0.0010937 691.2354716689749 82.33 0.031738 82.33 82.315 82.347 0 6 4 2 0 0 0 0.13295 1 41181 41181 1.3295 0 1 23549000 + 23121 14729 14815 14871 26740 26740 -0.21869880950566767 PECNHDTC 8 Unmodified _PECNHDTC_ 0 0 0 REV__nc|ENSG00000042813|Q9BS86-2|ZPBP REV__nc|ENSG00000042813|Q9BS86-2|ZPBP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 918.1126098632812 1 918.308028 917.300751 3.3085 0.0030382 -0.17378 -0.00015959 3.1347 0.0028786 918.3105688803059 88.623 0.070427 88.623 88.587 88.657 0 13 9 2 0 0 0 0.14267 1 46064 46064 0.69038 0 1 20952000 + 23122 10325 14816 14872 26741 26741 -0.16120693984680656 PECTFTLVDKN 11 Unmodified _PECTFTLVDKN_ 0 0 0 REV__ENST00000593983.5_1_19:43519347-43523525:-|nuORF REV__ENST00000593983.5_1_19:43519347-43523525:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.531494140625 2 633.805371 1265.59619 NaN NaN NaN NaN NaN NaN NaN 86.423 1 86.423 85.923 86.923 0 0 0 0 1.0044 1 44293 44293 4.897 1.3005 1 + 23123 14626 14817 14873 26742 26742 -0.02598587645002226 PECYLDTETL 10 Unmodified _PECYLDTETL_ 0 0 0 REV__ENSG00000196576|ENST00000359337|PLXNB2 REV__ENSG00000196576|ENST00000359337|PLXNB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 592.2639770507812 2 592.263004 1182.51146 NaN NaN NaN NaN NaN NaN NaN 52.687 1 52.687 52.187 53.187 0 0 0 0 0.99225 1 24130 24130 6.7232 0 1 + 23124 14232 14818 14874 26743 26743 -0.07249958181637339 PEDCYSFYR 9 Unmodified _PEDCYSFYR_ 0 0 0 ENST00000394288.7_2_4:129029149-129029425:+|nuORF ENST00000394288.7_2_4:129029149-129029425:+|nuORF ENST00000394288.7_2_4:129029149-129029425:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.6845092773438 2 590.242406 1178.47026 3.4318 0.0020256 -1.74 -0.001027 1.6919 0.00099861 590.7428207629482 48.531 0.07682 49.358 49.296 49.373 0.82705 6 4 2 0 0 0 0.11315 1 22088 22088 1.8442 0.19162 1 757340 23125 7540 14819 14875 26744 26744 -0.11183674430458268 PEDDYSPRE 9 Unmodified _PEDDYSPRE_ 0 0 0 nc|ENSG00000180900|Q14160-2|SCRIB;nc|ENSG00000180900|Q14160|SCRIB;ENSG00000180900|ENST00000356994|SCRIB nc|ENSG00000180900|Q14160-2|SCRIB nc|ENSG00000180900|Q14160-2|SCRIB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.7599487304688 2 554.233093 1106.45163 NaN NaN NaN NaN NaN NaN NaN 98.155 1 98.445 97.945 98.945 0.28923 0 0 0 0.89683 1 45171 45171 4.3292 0.73274 1 23126 5269 14820 14876 26745 26745 -0.09733512800653443 PEDEDEDDYD 10 Unmodified _PEDEDEDDYD_ 0 0 0 ENST00000435954.2_1_6:54350144-54350642:-|nuORF ENST00000435954.2_1_6:54350144-54350642:-|nuORF ENST00000435954.2_1_6:54350144-54350642:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.0750122070312 2 621.201852 1240.38915 NaN NaN NaN NaN NaN NaN NaN 58.594 1 59.353 58.853 59.853 0.75894 0 0 0 1.0015 1 26879 26879 0.40072 0 1 23127 7892 14821 14877 26746 26746 -0.22142748450164618 PEDEGEDDD 9 Unmodified _PEDEGEDDD_ 0 0 0 ENST00000483551.6_1_15:69072422-69081590:-|nuORF;ENSG00000140350|ENST00000465139|ANP32A ENST00000483551.6_1_15:69072422-69081590:-|nuORF ENST00000483551.6_1_15:69072422-69081590:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.7314147949219 2 510.667448 1019.32034 NaN NaN NaN NaN NaN NaN NaN 90.065 1 90.129 89.629 90.629 0.064346 0 0 0 0.90611 1 46316 46316 2.0598 0 1 23128 3192 14822 14878 26747 26747 -0.18854367959227147 PEDFCYECS 9 Unmodified _PEDFCYECS_ 0 0 0 REV__nc|ENSG00000183765|O96017-10|CHEK2 REV__nc|ENSG00000183765|O96017-10|CHEK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.6510620117188 2 546.686075 1091.3576 NaN NaN NaN NaN NaN NaN NaN 71.143 1 71.143 70.643 71.643 0 0 0 0 0.90611 1 34568 34568 2.0598 0.21551 1 + 23129 13947 14823 14879 26748 26748 -0.18442691218820073 PEDFELINWKY 11 Unmodified _PEDFELINWKY_ 0 0 0 REV__ENSG00000198734|ENST00000367797|F5 REV__ENSG00000198734|ENST00000367797|F5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 726.8848876953125 2 727.353542 1452.69253 NaN NaN NaN NaN NaN NaN NaN 81.705 1 81.705 81.205 82.205 0 0 0 0 1.0059 1 40730 40730 2.9952 1.3426 1 + 23130 14354 14824 14880 26749 26749 -0.01570696813428185 PEDFELINWKY 11 Unmodified _PEDFELINWKY_ 0 0 0 REV__ENSG00000198734|ENST00000367797|F5 REV__ENSG00000198734|ENST00000367797|F5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 727.47412109375 2 727.353542 1452.69253 NaN NaN NaN NaN NaN NaN NaN 103.58 1 103.58 103.08 104.08 0 0 0 0 1.0059 1 57076 57076 2.9952 0.26005 1 + 23131 14354 14824 14880 26750 26750 -0.01570696813428185 PEDSDDDDDED 11 Unmodified _PEDSDDDDDED_ 0 0 0 REV__ENSG00000188613|ENST00000425699|NANOS1 REV__ENSG00000188613|ENST00000425699|NANOS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.8613891601562 2 633.691849 1265.36914 NaN NaN NaN NaN NaN NaN NaN 82.456 1 82.456 81.956 82.956 0 0 0 0 1.0079 1 41290 41290 1.3295 1.3295 1 + 23132 14154 14825 14881 26751 26751 -0.2529254418079745 PEDWDEDMD 9 Unmodified _PEDWDEDMD_ 0 0 0 nc|ENSG00000127022|P27824-3|CANX;ENSG00000127022|ENST00000247461|CANX;nc|ENSG00000127022|P27824-2|CANX nc|ENSG00000127022|P27824-3|CANX nc|ENSG00000127022|P27824-3|CANX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 576.1568603515625 2 576.195319 1150.37608 NaN NaN NaN NaN NaN NaN NaN 84.441 1 84.469 83.969 84.969 0.028603 0 0 0 0.90611 1 42123 42123 2.0598 0.73022 1 23133 2472 14826 14882 26752 26752 -0.19308858043268629 PEEDENEEAPV 11 Unmodified _PEEDENEEAPV_ 0 0 0 nc|ENSG00000167716|Q562E7-4|WDR81;ENSG00000167716|ENST00000409644|WDR81 nc|ENSG00000167716|Q562E7-4|WDR81 nc|ENSG00000167716|Q562E7-4|WDR81 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 629.715576171875 2 629.259504 1256.50446 3.3886 0.0021323 0.69477 0.00043719 4.0834 0.0025695 629.7589146807697 95.625 0.026695 95.625 95.611 95.638 0 5 3 2 0 0 0 0.9102 1 51534 51534 1.4819 0.8804 1 9533500 23134 4575 14827 14883 26753 26753 -0.11353599528524683 PEEEEDGYSK 10 Unmodified _PEEEEDGYSK_ 0 0 0 REV__ENSG00000198862|ENST00000361371|LTN1 REV__ENSG00000198862|ENST00000361371|LTN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 592.0337524414062 2 591.74349 1181.47243 NaN NaN NaN NaN NaN NaN NaN 96.639 1 96.639 96.139 97.139 0 0 0 0 0.99812 1 52352 52352 3.2813 1.2216 1 + 23135 14371 14828 14884 26754 26754 -0.11104967211667827 PEEEEEEEK 9 Unmodified _PEEEEEEEK_ 0 0 0 REV__ENSG00000176092|ENST00000308182|CRYBG2 REV__ENSG00000176092|ENST00000308182|CRYBG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.322509765625 2 574.235498 1146.45644 NaN NaN NaN NaN NaN NaN NaN 91.513 1 91.513 91.013 92.013 0 0 0 0 0.89683 1 48362 48362 4.3292 0.73274 1 + 23136 13688 14829 14885 26755 26755 -0.11092673448570167 PEEEESSWEY 10 Unmodified _PEEEESSWEY_ 0 0 0 REV__nc|ENSG00000198513|Q8WXF7-2|ATL1 REV__nc|ENSG00000198513|Q8WXF7-2|ATL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.1818237304688 2 642.748773 1283.48299 NaN NaN NaN NaN NaN NaN NaN 90.422 1 90.422 89.922 90.922 0 0 0 0 0.99774 1 47521 47521 3.5965 1.7523 1 + 23137 14338 14830 14886 26756 26756 -0.14740984557215597 PEEEKDENY 9 Unmodified _PEEEKDENY_ 0 0 0 nc|ENSG00000136155|O95171-3|SCEL;nc|ENSG00000136155|O95171-2|SCEL;ENSG00000136155|ENST00000349847|SCEL nc|ENSG00000136155|O95171-3|SCEL nc|ENSG00000136155|O95171-3|SCEL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 576.7830810546875 2 576.738208 1151.46186 NaN NaN NaN NaN NaN NaN NaN 92.319 1 92.319 91.819 92.819 0 0 0 0 0.89683 1 49025 49025 4.3292 0.38484 1 23138 2928 14831 14887 26757 26757 -0.10780949866079936 PEEENMDDQWM 11 Unmodified _PEEENMDDQWM_ 0 0 0 ENST00000468945.1_1_1:17672544-17674609:+|nuORF;ENSG00000159339|ENST00000375448|PADI4 ENST00000468945.1_1_1:17672544-17674609:+|nuORF ENST00000468945.1_1_1:17672544-17674609:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 712.482421875 2 712.260667 1422.50678 NaN NaN NaN NaN NaN NaN NaN 91.117 1 91.192 90.692 91.692 0.075279 0 0 0 1.0072 1 47132 47132 1.3295 0 1 23139 4019 14832 14888 26758 26758 -0.1875721038672964 PEEEQEEPRRK 11 Unmodified _PEEEQEEPRRK_ 0 0 0 REV__ENSG00000060069|ENST00000613122|CTDP1 REV__ENSG00000060069|ENST00000613122|CTDP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 713.8477172851562 2 713.849687 1425.68482 NaN NaN NaN NaN NaN NaN NaN 87.04 1 87.04 86.54 87.54 0 0 0 0 1.0061 1 44767 44767 2.7352 0.64919 1 + 23140 10393 14833 14889 26759 26759 -0.010994560810331677 PEEERPRQA 9 Unmodified _PEEERPRQA_ 0 0 0 REV__ENST00000582319.5_1_17:72477795-72480262:+|nuORF REV__ENST00000582319.5_1_17:72477795-72480262:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.3065185546875 2 556.278169 1110.54179 NaN NaN NaN NaN NaN NaN NaN 98.168 1 98.766 98.266 99.266 0.59885 0 0 0 0.89683 1 45219 45219 4.3292 0 1 + 23141 13312 14834 14890 26760 26760 -0.009064186815749053 PEEHPVLL 8 Unmodified _PEEHPVLL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.2569274902344 2 467.255643 932.496732 NaN NaN NaN NaN NaN NaN NaN 45.01 1 45.01 44.51 45.51 0 0 0 0 0.19359 1 20582 20582 81.864 37.457 1 23142 832;5762 14835 14891 26761 26761 0.027783825231949777 PEEHPVLL 8 Unmodified _PEEHPVLL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.2575988769531 2 467.255643 932.496732 NaN NaN NaN NaN NaN NaN NaN 45.13 1 45.13 44.63 45.63 0 0 0 0 0.078735 1 20639 20639 60.39 30.165 1 23143 832;5762 14835 14891 26762 26762 0.027783825231949777 PEEHPVLL 8 Unmodified _PEEHPVLL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 467.2572937011719 2 467.255643 932.496732 2.6507 0.0012385 -0.15859 -7.4101E-05 2.4921 0.0011644 467.25563980717556 43.953 0.40456 44.773 44.61 45.015 0.82075 40 27 2 0 0 0 0.025999 2 19997 19997;20062 81.864 37.457 1 1231500 23144 832;5762 14835 14891 26763;26764 26763 0.027783825231949777 PEEHPVLL 8 Unmodified _PEEHPVLL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 467.25732421875 2 467.255643 932.496732 2.6042 0.0012168 -0.3994 -0.00018662 2.2048 0.0010302 467.2556507410342 44.773 0.49463 45.041 44.799 45.293 0.26768 42 25 2 0 0 0 0.013019 2 20451 20451;20500 93.883 46.963 1 1286200 23145 832;5762 14835 14891 26765;26766 26765 0.027783825231949777 PEEHPVLL 8 Unmodified _PEEHPVLL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.2575378417969 2 467.255643 932.496732 3.0051 0.0014041 0.34718 0.00016222 3.3523 0.0015664 467.2558056232964 44.216 0.37832 44.866 44.662 45.04 0.64998 31 18 2 0 0 0 0.025999 2 20245 20245;20301 81.864 43.713 1 1010900 23146 832;5762 14835 14891 26767;26768 26767 0.027783825231949777 PEEITSLWSEL 11 Unmodified _PEEITSLWSEL_ 0 0 0 ENSG00000112159|ENST00000369393|MDN1;MDN1|p.L3673Pfs*5|1|0.33|ENSG00000112159|chr6:89689875-89689876|-/G|frameshift_variant ENSG00000112159|ENST00000369393|MDN1 ENSG00000112159|ENST00000369393|MDN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 652.3217163085938 2 652.32445 1302.63435 NaN NaN NaN NaN NaN NaN NaN 71.243 1 71.947 71.447 72.447 0.70386 0 0 0 1.0059 1 34207 34207 2.9952 0.26005 1 23147 1795 14836 14892 26769 26769 -0.004863784587087139 PEEKQKIRHRK 11 Unmodified _PEEKQKIRHRK_ 0 0 0 Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|90|3|sense Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|90|3|sense Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|90|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 724.713623046875 2 724.925866 1447.83718 NaN NaN NaN NaN NaN NaN NaN 97.221 1 97.51 97.01 98.01 0.28923 0 0 0 1.0059 1 44655 44655 2.9952 0 1 23148 9395 14837 14893 26770 26770 0.13117409177039008 PEEKVRVLP 9 Unmodified _PEEKVRVLP_ 0 0 0 REV__ENST00000527328.5_1_8:145534845-145537878:+|nuORF REV__ENST00000527328.5_1_8:145534845-145537878:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 356.2126770019531 3 356.213358 1065.61824 NaN NaN NaN NaN NaN NaN NaN 102.92 1 102.92 102.42 103.42 0 0 0 0 0.91014 1 56773 56773 1.0715 0 1 + 23149 14007 14838 14894 26771 26771 0.08806004885695984 PEEMPPIK 8 Unmodified _PEEMPPIK_ 0 0 0 REV__ENSG00000131711|ENST00000296755|MAP1B REV__ENSG00000131711|ENST00000296755|MAP1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.746826171875 2 470.744053 939.473554 2.7347 0.0012874 0.22431 0.00010559 2.959 0.001393 470.7442941251779 43.515 0.41346 44.329 44.156 44.57 0.81444 30 19 2 0 0 0 0.5438 1 19778 19778 18.135 1.1927 1 456100 + 23150 11862 14839 14895 26772 26772 0.0013962041421109461 PEEMQWRDHWM 11 Unmodified _PEEMQWRDHWM_ 0 0 0 ENST00000565356.5_1_16:68349816-68386396:+|nuORF;PRMT7|p.N490Tfs*21|1|0.35|ENSG00000132600|chr16:68352302-68352302|A/-|frameshift_variant;nc|ENSG00000132600|Q9NVM4-2|PRMT7;nc|ENSG00000132600|Q9NVM4-4|PRMT7;nc|ENSG00000132600|Q9NVM4-3|PRMT7;ENSG00000132600|ENST00000441236|PRMT7 ENST00000565356.5_1_16:68349816-68386396:+|nuORF ENST00000565356.5_1_16:68349816-68386396:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 772.7017822265625 2 772.824103 1543.63365 NaN NaN NaN NaN NaN NaN NaN 90.034 1 90.034 89.534 90.534 0 0 0 0 1.0072 1 47200 47200 1.3295 0.9789 1 23151 2713 14840 14896 26773 26773 -0.11641819651049445 PEERRRKFKYR 11 Unmodified _PEERRRKFKYR_ 0 0 0 ENSG00000185467|ENST00000327442|KPNA7 ENSG00000185467|ENST00000327442|KPNA7 ENSG00000185467|ENST00000327442|KPNA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 782.9417114257812 2 782.94459 1563.87463 NaN NaN NaN NaN NaN NaN NaN 84.935 1 84.964 84.464 85.464 0.028603 0 0 0 1.008 1 42466 42466 0.35063 0 1 23152 5507 14841 14897 26774 26774 0.11524500442692442 PEESVVAYL 9 Unmodified _PEESVVAYL_ 0 0 0 REV__ENSG00000000938|ENST00000374005|FGR REV__ENSG00000000938|ENST00000374005|FGR MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.22137451171875 2 503.758215 1005.50188 3.0415 0.0015322 0.47446 0.00023901 3.5159 0.0017712 503.75803642425143 40.35 0.19901 41.15 41.069 41.268 0.80014 21 11 3 0 0 0 0.071341 1 18323 18323 16.942 0 1 910310 + 23153 10150 14842 14898 26775 26775 -0.0006535840486776578 PEEVVKEVSL 10 Unmodified _PEEVVKEVSL_ 0 0 0 ENSG00000204186|ENST00000374423|ZDBF2 ENSG00000204186|ENST00000374423|ZDBF2 ENSG00000204186|ENST00000374423|ZDBF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.8159790039062 2 564.810979 1127.6074 2.8628 0.001617 1.5686 0.00088597 4.4315 0.0025029 564.8120310088311 79.91 0.16943 79.91 79.815 79.984 0 17 12 2 0 0 0 0.19222 1 39584 39584 40.239 2.0636 1 1949500 23154 5990 14843 14899 26776 26776 0.04870557720778379 PEEWCAASM 9 Unmodified _PEEWCAASM_ 0 0 0 REV__ENST00000498294.5_1_13:95248303-95248405:-|nuORF REV__ENST00000498294.5_1_13:95248303-95248405:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.2006225585938 2 512.199153 1022.38375 NaN NaN NaN NaN NaN NaN NaN 58.55 1 58.55 58.05 59.05 0 0 0 0 0.89683 1 27024 27024 4.3292 0 1 + 23155 10678 14844 14900 26777 26777 -0.12654377256671978 PEEYYSHYYH 10 Unmodified _PEEYYSHYYH_ 0 0 0 nc|ENSG00000059769|Q9H1X3-2|DNAJC25;ENST00000463589.5_1_9:114405367-114415499:+|nuORF;ENSG00000059769|ENST00000313525|DNAJC25 nc|ENSG00000059769|Q9H1X3-2|DNAJC25 nc|ENSG00000059769|Q9H1X3-2|DNAJC25 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 694.4384765625 2 694.283117 1386.55168 NaN NaN NaN NaN NaN NaN NaN 85.954 1 85.954 85.454 86.454 0 0 0 0 1.0001 1 43918 43918 1.6526 0.17072 1 23156 637 14845 14901 26778 26778 -0.12613275466856066 PEEYYSHYYH 10 Unmodified _PEEYYSHYYH_ 0 0 0 nc|ENSG00000059769|Q9H1X3-2|DNAJC25;ENST00000463589.5_1_9:114405367-114415499:+|nuORF;ENSG00000059769|ENST00000313525|DNAJC25 nc|ENSG00000059769|Q9H1X3-2|DNAJC25 nc|ENSG00000059769|Q9H1X3-2|DNAJC25 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 694.1544799804688 2 694.283117 1386.55168 NaN NaN NaN NaN NaN NaN NaN 86.512 1 86.512 86.012 87.012 0 0 0 0 1.0001 1 44367 44367 1.6526 0.17072 1 23157 637 14845 14901 26779 26779 -0.12613275466856066 PEFIHAAM 8 Unmodified _PEFIHAAM_ 0 0 0 ENST00000514606.1_1_4:139988805-140005344:-|nuORF;ELF2|p.E143Cfs*12|1|0.06|ENSG00000109381|chr4:139071966-139071967|-/GAGAAGGCAG|frameshift_variant;nc|ENSG00000109381|Q15723-4|ELF2;nc|ENSG00000109381|Q15723-2|ELF2;nc|ENSG00000109381|Q15723-3|ELF2;nc|ENSG00000109381|Q15723-1|ELF2;ENSG00000109381|ENST00000686138|ELF2 ENST00000514606.1_1_4:139988805-140005344:-|nuORF ENST00000514606.1_1_4:139988805-140005344:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 458.222900390625 2 458.223288 914.432024 3.0565 0.0014005 -1.1151 -0.00051096 1.9414 0.00088959 458.22283390234605 19.046 0.50667 19.705 19.538 20.045 0.6583 104 40 3 0 0 0 0.59268 1 8634 8634 14.582 0 1 2499200 23158 292 14846 14902 26780 26780 -0.028615155544684967 PEGEDWDEE 9 Unmodified _PEGEDWDEE_ 0 0 0 ENSG00000158615|ENST00000367188|PPP1R15B ENSG00000158615|ENST00000367188|PPP1R15B ENSG00000158615|ENST00000367188|PPP1R15B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.2314453125 2 553.201458 1104.38836 NaN NaN NaN NaN NaN NaN NaN 93.572 1 93.572 93.072 94.072 0 0 0 0 0.89683 1 49978 49978 4.3292 1.0479 1 23159 3991 14847 14903 26781 26781 -0.159654983085602 PEGKATIQHQL 11 Unmodified _PEGKATIQHQL_ 0 0 0 ENST00000585803.1_1_18:57863810-57864818:+|nuORF ENST00000585803.1_1_18:57863810-57864818:+|nuORF ENST00000585803.1_1_18:57863810-57864818:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 611.3351440429688 2 611.332944 1220.65134 NaN NaN NaN NaN NaN NaN NaN 17.267 1 17.468 16.968 17.968 0.20057 0 0 0 1.0072 1 7636 7636 1.3295 0 1 23160 9179 14848 14904 26782 26782 0.04983586937783002 PEGKEDPHN 9 Unmodified _PEGKEDPHN_ 0 0 0 ENSG00000152591|ENST00000651931|DSPP ENSG00000152591|ENST00000651931|DSPP ENSG00000152591|ENST00000651931|DSPP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.2890319824219 2 511.73052 1021.44649 NaN NaN NaN NaN NaN NaN NaN 91.286 1 91.286 90.786 91.786 0 0 0 0 0.87786 1 48174 48174 6.7232 0.96273 1 23161 3757 14849 14905 26783 26783 -0.06337771872620124 PEGKRPRSP 9 Unmodified _PEGKRPRSP_ 0 0 0 ENST00000372703.1_1_1:40974852-40974987:+|nuORF ENST00000372703.1_1_1:40974852-40974987:+|nuORF ENST00000372703.1_1_1:40974852-40974987:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.3278198242188 2 512.28834 1022.56213 NaN NaN NaN NaN NaN NaN NaN 89.941 1 90.005 89.505 90.505 0.064346 0 0 0 0.87786 1 46221 46221 6.7232 0.96273 1 23162 7340 14850 14906 26784 26784 0.05174796768903889 PEGLCYGL 8 Unmodified _PEGLCYGL_ 0 0 0 ENSG00000127580|ENST00000293883|WDR24 ENSG00000127580|ENST00000293883|WDR24 ENSG00000127580|ENST00000293883|WDR24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 851.400390625 1 851.396767 850.38949 4.7325 0.0040293 0.078545 6.6873E-05 4.8111 0.0040961 851.3966953647998 104.15 0.063263 104.47 104.44 104.5 0.31863 20 6 4 0 0 0 0.7471 1 48120 48120 0.79363 0 1 20372000 23163 2486 14851 14907 26785 26785 -0.041689106826765965 PEGLCYGL 8 Unmodified _PEGLCYGL_ 0 0 0 ENSG00000127580|ENST00000293883|WDR24 ENSG00000127580|ENST00000293883|WDR24 ENSG00000127580|ENST00000293883|WDR24 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 851.396767 850.38949 4.1589 0.0035409 0.33502 0.00028524 4.4939 0.0038261 851.3968171254252 104.11 0.051537 104.71 104.68 104.73 0.59885 0.11892 0.00012528 NaN 0.79363 24 7 4 NaN NaN NaN NaN 0 NaN NaN 0 15492000 23164 2486 14851 14907 -0.041689106826765965 PEGLDFPER 9 Unmodified _PEGLDFPER_ 0 0 0 REV__nc|ENSG00000141985|Q99961-3|SH3GL1 REV__nc|ENSG00000141985|Q99961-3|SH3GL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.2216186523438 2 530.258914 1058.50327 NaN NaN NaN NaN NaN NaN NaN 89.256 1 89.32 88.82 89.82 0.064346 0 0 0 0.86044 1 45698 45698 7.2892 0 1 + 23165 12310 14852 14908 26786 26786 -0.023637243160919752 PEGLFWLLVTG 11 Unmodified _PEGLFWLLVTG_ 0 0 0 ENST00000547912.1_1_12:56676553-56677641:-|nuORF;ENST00000547449.1_1_12:56676173-56676733:-|nuORF;ENST00000546621.5_1_12:56668606-56679804:-|nuORF;CS|p.D371Afs*5|1|0.09|ENSG00000062485|chr12:56273705-56273706|-/G|frameshift_variant;ENSG00000062485|ENST00000351328|CS ENST00000547912.1_1_12:56676553-56677641:-|nuORF ENST00000547912.1_1_12:56676553-56677641:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 616.4292602539062 2 616.339707 1230.66486 NaN NaN NaN NaN NaN NaN NaN 98.425 1 98.724 98.224 99.224 0.29987 0 0 0 1.0046 1 45332 45332 2.9952 0 1 23166 246 14853 14909 26787 26787 0.05875444716957645 PEGLLSPHLP 10 Unmodified _PEGLLSPHLP_ 0 0 0 REV__ENST00000602101.6_1_19:15568751-15575169:-|nuORF REV__ENST00000602101.6_1_19:15568751-15575169:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1059.2052001953125 1 1059.58332 1058.57605 2.8228 0.002991 1.7358 0.0018392 4.5586 0.0048302 1060.5902284394751 85.682 0.040672 85.682 85.673 85.714 0 5 4 2 0 0 0 0.78028 1 43703 43703 9.3831 1.473 1 7107100 + 23167 17642 14854 14910 26788 26788 0.049100294773325004 PEGLLSPHLP 10 Unmodified _PEGLLSPHLP_ 0 0 0 REV__ENST00000602101.6_1_19:15568751-15575169:-|nuORF REV__ENST00000602101.6_1_19:15568751-15575169:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 1059.58332 1058.57605 2.8228 0.002991 1.7358 0.0018392 4.5586 0.0048302 1060.5902284394751 85.682 0.040672 85.682 85.673 85.714 0 0 0 NaN 9.3831 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 7107100 + 23168 17642 14854 14910 0.049100294773325004 PEGLRHMIDW 10 Unmodified _PEGLRHMIDW_ 0 0 0 REV__ENSG00000133134|ENST00000372677|BEX2 REV__ENSG00000133134|ENST00000372677|BEX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 627.3082275390625 2 627.308415 1252.60228 NaN NaN NaN NaN NaN NaN NaN 93.943 1 94.029 93.529 94.529 0.086212 0 0 0 0.99464 1 49323 49323 6.2058 0.47393 1 + 23169 11926 14855 14911 26789 26789 -0.013920246228508404 PEGLSRLKKK 10 Unmodified _PEGLSRLKKK_ 0 0 0 ENST00000520316.5_1_8:28627126-28633440:-|nuORF ENST00000520316.5_1_8:28627126-28633440:-|nuORF ENST00000520316.5_1_8:28627126-28633440:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.5853881835938 2 578.364047 1154.71354 NaN NaN NaN NaN NaN NaN NaN 89.983 1 89.983 89.483 90.483 0 0 0 0 0.9952 1 47158 47158 5.7319 1.7875 1 23170 8631 14856 14912 26790 26790 0.14237358076729834 PEGLWLQSM 9 Unmodified _PEGLWLQSM_ 0 0 0 REV__LTR2752_dup121|chr7:135263151-135264133:-|1.6065116481286288|0.0665708146513393|4.59|523.0|32|2|anti-sense REV__LTR2752_dup121|chr7:135263151-135264133:-|1.6065116481286288|0.0665708146513393|4.59|523.0|32|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.7596435546875 2 530.760235 1059.50592 NaN NaN NaN NaN NaN NaN NaN 89.897 1 89.962 89.462 90.462 0.064346 0 0 0 0.72654 1 46181 46181 11.64 0 1 + 23171 17824 14857 14913 26791 26791 -0.02145592182796463 PEGMFMETV 9 Unmodified _PEGMFMETV_ 0 0 0 REV__nc|ENSG00000138769|Q92772|CDKL2 REV__nc|ENSG00000138769|Q92772|CDKL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.7258911132812 2 520.725003 1039.43545 NaN NaN NaN NaN NaN NaN NaN 91.558 1 91.641 91.141 92.141 0.082848 0 0 0 0.89683 1 47484 47484 4.3292 0 1 + 23172 12190 14858 14914 26792 26792 -0.08268633562761352 PEGRALPVFCD 11 Unmodified _PEGRALPVFCD_ 0 0 0 FCN3|p.Y259Ifs*11|1|0.26|ENSG00000142748|chr1:27369357-27369361|CGGTA/-|frameshift_variant;nc|ENSG00000142748|O75636-2|FCN3;ENSG00000142748|ENST00000270879|FCN3 FCN3|p.Y259Ifs*11|1|0.26|ENSG00000142748|chr1:27369357-27369361|CGGTA/-|frameshift_variant FCN3|p.Y259Ifs*11|1|0.26|ENSG00000142748|chr1:27369357-27369361|CGGTA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.2518920898438 2 602.294973 1202.57539 NaN NaN NaN NaN NaN NaN NaN 93.767 1 93.853 93.353 94.353 0.086212 0 0 0 0.98464 1 49200 49200 8.1555 3.8263 1 23173 3330 14859 14915 26793 26793 -0.017791332340266308 PEGRRRRRRWW 11 Unmodified _PEGRRRRRRWW_ 0 0 0 ENST00000463413.1_3_7:129710461-129710557:+|nuORF ENST00000463413.1_3_7:129710461-129710557:+|nuORF ENST00000463413.1_3_7:129710461-129710557:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 805.9529418945312 2 805.953615 1609.89268 NaN NaN NaN NaN NaN NaN NaN 98.653 1 99.251 98.751 99.751 0.59748 0 0 0 1.008 1 45514 45514 0.35063 0 1 23174 8102 14860 14916 26794 26794 0.1121268020806383 PEGSATIH 8 Unmodified _PEGSATIH_ 0 0 0 REV__nc|ENSG00000153922|O14646-2|CHD1 REV__nc|ENSG00000153922|O14646-2|CHD1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.2821044921875 1 811.394458 810.387182 2.737 0.0022208 -3.3318 -0.0027034 -0.59485 -0.00048266 811.3931946300057 87.847 0.1388 87.887 87.839 87.978 0.039955 28 21 2 0 0 0 0.13972 1 44561 44561 8.5933 2.2392 1 53746000 + 23175 12688 14861 14917 26795 26795 -0.025596230961355104 PEGSATIH 8 Unmodified _PEGSATIH_ 0 0 0 REV__nc|ENSG00000153922|O14646-2|CHD1 REV__nc|ENSG00000153922|O14646-2|CHD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 811.394458 810.387182 3.2729 0.0026556 -4.129 -0.0033502 -0.85604 -0.00069459 811.3923946936029 87.889 0.18985 87.889 87.833 88.023 0 0.0010814 -0.00020679 NaN 8.5933 40 25 2 NaN NaN NaN NaN 0 NaN NaN 0 31123000 + 23176 12688 14861 14917 -0.025596230961355104 PEGSICSEDDC 11 Unmodified _PEGSICSEDDC_ 0 0 0 ENSG00000055609|ENST00000262189|KMT2C;nc|ENSG00000055609|Q8NEZ4-2|KMT2C;nc|ENSG00000055609|Q8NEZ4-3|KMT2C ENSG00000055609|ENST00000262189|KMT2C ENSG00000055609|ENST00000262189|KMT2C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.4498291015625 2 577.702454 1153.39035 NaN NaN NaN NaN NaN NaN NaN 95.038 1 95.12 94.62 95.62 0.082001 0 0 0 1.0041 1 50149 50149 5.2969 1.7004 1 23177 616 14862 14918 26796 26796 -0.18020528886586362 PEGSITVSM 9 Unmodified _PEGSITVSM_ 0 0 0 nc|ENSG00000132842|O00203-3|AP3B1;ENSG00000132842|ENST00000255194|AP3B1 nc|ENSG00000132842|O00203-3|AP3B1 nc|ENSG00000132842|O00203-3|AP3B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 921.4417724609375 1 920.43936 919.432083 4.5017 0.0041435 1.2413 0.0011425 5.743 0.0052861 920.4433520763638 94.441 0.12024 94.7 94.623 94.743 0.25975 7 5 2 0 0 0 0.59776 1 43388 43388 10.824 1.4408 1 705130 23178 2729 14863 14919 26797 26797 -0.030855603451072966 PEGSLPVHGE 10 Unmodified _PEGSLPVHGE_ 0 0 0 ENST00000493544.1_1_2:242054361-242072488:-|nuORF;nc|ENSG00000115687|Q96RG2-4|PASK;ENSG00000115687|ENST00000234040|PASK;nc|ENSG00000115687|Q96RG2-2|PASK ENST00000493544.1_1_2:242054361-242072488:-|nuORF ENST00000493544.1_1_2:242054361-242072488:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.2155456542969 2 511.251089 1020.48762 NaN NaN NaN NaN NaN NaN NaN 88.408 1 88.408 87.908 88.908 0 0 0 0 0.9754 1 45864 45864 9.3831 0.035688 1 23179 1985 14864 14920 26798 26798 -0.021800108331376578 PEGSLPVHGE 10 Unmodified _PEGSLPVHGE_ 0 0 0 ENST00000493544.1_1_2:242054361-242072488:-|nuORF;nc|ENSG00000115687|Q96RG2-4|PASK;ENSG00000115687|ENST00000234040|PASK;nc|ENSG00000115687|Q96RG2-2|PASK ENST00000493544.1_1_2:242054361-242072488:-|nuORF ENST00000493544.1_1_2:242054361-242072488:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 511.2496643066406 2 511.251089 1020.48762 NaN NaN NaN NaN NaN NaN NaN 88.065 1 88.105 87.605 88.605 0.039955 0 0 0 0.9754 1 44765 44765 9.3831 1.2276 1 23180 1985 14864 14920 26799 26799 -0.021800108331376578 PEGSSNQDNR 10 Unmodified _PEGSSNQDNR_ 0 0 0 REV__ENSG00000136381|ENST00000258886|IREB2 REV__ENSG00000136381|ENST00000258886|IREB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.9080810546875 2 552.239241 1102.46393 NaN NaN NaN NaN NaN NaN NaN 83.402 1 83.402 82.902 83.902 0 0 0 0 0.9952 1 42003 42003 5.7319 0 1 + 23181 12068 14865 14921 26800 26800 -0.08320476337598848 PEGTCDDVDEC 11 Unmodified _PEGTCDDVDEC_ 0 0 0 LTBP4|p.V1269Cfs*3|1|0.26|ENSG00000090006|chr19:40623651-40623651|G/-|frameshift_variant;ENSG00000090006|ENST00000396819|LTBP4;nc|ENSG00000090006|Q8N2S1-3|LTBP4;nc|ENSG00000090006|Q8N2S1|LTBP4;ENST00000594448.5_1_19:41120174-41125264:+|nuORF LTBP4|p.V1269Cfs*3|1|0.26|ENSG00000090006|chr19:40623651-40623651|G/-|frameshift_variant LTBP4|p.V1269Cfs*3|1|0.26|ENSG00000090006|chr19:40623651-40623651|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.7572631835938 2 591.699911 1181.38527 NaN NaN NaN NaN NaN NaN NaN 86.943 1 86.973 86.473 87.473 0.030289 0 0 0 1.0059 1 43875 43875 2.9952 0.93549 1 23182 1053 14866 14922 26801 26801 -0.1981683274923398 PEGYYADEDSN 11 Unmodified _PEGYYADEDSN_ 0 0 0 ENSG00000099139|ENST00000674117|PCSK5;nc|ENSG00000099139|Q92824|PCSK5 ENSG00000099139|ENST00000674117|PCSK5 ENSG00000099139|ENST00000674117|PCSK5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 630.2605590820312 2 630.238572 1258.46259 NaN NaN NaN NaN NaN NaN NaN 92.456 1 92.539 92.039 93.039 0.082848 0 0 0 1.0059 1 48188 48188 2.9952 1.151 1 23183 1134 14867 14923 26802 26802 -0.15630155217013453 PEHARQHRLVS 11 Unmodified _PEHARQHRLVS_ 0 0 0 REV__ENSG00000261221|ENST00000568956|ZNF865 REV__ENSG00000261221|ENST00000568956|ZNF865 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 665.7098388671875 2 665.360359 1328.70617 NaN NaN NaN NaN NaN NaN NaN 47.148 1 47.412 46.912 47.912 0.26363 0 0 0 1.0073 1 21546 21546 1.1933 0 1 + 23184 14690 14868 14924 26803 26803 0.054960185290156005 PEHDTRIMD 9 Unmodified _PEHDTRIMD_ 0 0 0 REV__nc|ENSG00000107864|Q8NE35-2|CPEB3 REV__nc|ENSG00000107864|Q8NE35-2|CPEB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.2554931640625 2 557.253305 1112.49206 3.7222 0.0020742 -0.33027 -0.00018405 3.392 0.0018902 557.2530268279507 29.969 0.27434 29.969 29.818 30.092 0 40 20 3 0 0 0 0.59776 1 13562 13562 10.824 0.75 1 822540 + 23185 11126 14869 14925 26804 26804 -0.05968869681896649 PEHDTRIMD 9 Unmodified _PEHDTRIMD_ 0 0 0 REV__nc|ENSG00000107864|Q8NE35-2|CPEB3 REV__nc|ENSG00000107864|Q8NE35-2|CPEB3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 557.253305 1112.49206 3.7222 0.0020742 -0.33027 -0.00018405 3.392 0.0018902 557.2530268279507 29.969 0.27434 29.969 29.818 30.092 0 0.036442 -0.0002867 NaN 10.824 40 20 3 NaN NaN NaN NaN 0 NaN NaN 0 822540 + 23186 11126 14869 14925 -0.05968869681896649 PEHDTRIMD 9 Unmodified _PEHDTRIMD_ 0 0 0 REV__nc|ENSG00000107864|Q8NE35-2|CPEB3 REV__nc|ENSG00000107864|Q8NE35-2|CPEB3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 557.253305 1112.49206 3.4025 0.0018961 -0.17665 -9.8437E-05 3.2259 0.0017976 557.2534295915783 28.95 0.3611 29.739 29.593 29.954 0.78921 -0.19379 -0.00011548 NaN 10.824 65 27 3 NaN NaN NaN NaN 0 NaN NaN 0 503070 + 23187 11126 14869 14925 -0.05968869681896649 PEHDTRIMD 9 Unmodified _PEHDTRIMD_ 0 0 0 REV__nc|ENSG00000107864|Q8NE35-2|CPEB3 REV__nc|ENSG00000107864|Q8NE35-2|CPEB3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 557.253305 1112.49206 3.5219 0.0019626 0.36757 0.00020483 3.8895 0.0021674 557.2534345800849 29.438 0.343 30.056 29.884 30.227 0.61789 0.12342 0.00049105 NaN 10.824 44 22 3 NaN NaN NaN NaN 0 NaN NaN 0 331080 + 23188 11126 14869 14925 -0.05968869681896649 PEHEGGRE 8 Unmodified _PEHEGGRE_ 0 0 0 REV__ENST00000443199.6_1_17:73623504-73629591:-|nuORF REV__ENST00000443199.6_1_17:73623504-73629591:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.1399230957031 3 304.138629 909.394058 NaN NaN NaN NaN NaN NaN NaN 62.906 1 63.156 62.656 63.656 0.24965 0 0 0 0.99035 1 28808 28808 1.4819 0 1 + 23189 11144 14870 14926 26805 26805 -0.06426310215556441 PEHGNSVKFI 10 Unmodified _PEHGNSVKFI_ 0 0 0 ENSG00000188738|ENST00000424728|FSIP2 ENSG00000188738|ENST00000424728|FSIP2 ENSG00000188738|ENST00000424728|FSIP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.5341491699219 3 376.532979 1126.57711 3.0991 0.0011669 -0.16051 -6.0437E-05 2.9385 0.0011065 376.5329756704168 28.501 0.34632 28.501 28.358 28.705 0 35 26 2 0 0 0 0.8662 1 12892 12892 2.8433 0.75728 1 233470 23190 5679 14871 14927 26806 26806 0.018882438462242135 PEHGNSVKFI 10 Unmodified _PEHGNSVKFI_ 0 0 0 ENSG00000188738|ENST00000424728|FSIP2 ENSG00000188738|ENST00000424728|FSIP2 ENSG00000188738|ENST00000424728|FSIP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.5343322753906 3 376.532979 1126.57711 NaN NaN NaN NaN NaN NaN NaN 28.265 1 28.265 27.765 28.765 0 0 0 0 0.99572 1 12741 12741 2.8433 0.3448 1 23191 5679 14871 14927 26807 26807 0.018882438462242135 PEHGNSVKFI 10 Unmodified _PEHGNSVKFI_ 0 0 0 ENSG00000188738|ENST00000424728|FSIP2 ENSG00000188738|ENST00000424728|FSIP2 ENSG00000188738|ENST00000424728|FSIP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.533935546875 3 376.532979 1126.57711 2.5181 0.00094814 0.36459 0.00013728 2.8827 0.0010854 376.5331033292882 27.681 0.2706 28.467 28.398 28.669 0.78627 36 23 2 0 0 0 0.8662 1 12508 12508 2.8433 0.56051 1 171450 23192 5679 14871 14927 26808 26808 0.018882438462242135 PEHGNSVKFI 10 Unmodified _PEHGNSVKFI_ 0 0 0 ENSG00000188738|ENST00000424728|FSIP2 ENSG00000188738|ENST00000424728|FSIP2 ENSG00000188738|ENST00000424728|FSIP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.53436279296875 3 376.532979 1126.57711 2.6251 0.00098845 -0.09366 -3.5266E-05 2.5315 0.00095319 376.8672790117707 28.121 0.37093 28.74 28.474 28.845 0.61947 32 24 2 0 0 0 0.9146 1 12871 12871 1.4551 0.49284 1 221010 23193 5679 14871 14927 26809 26809 0.018882438462242135 PEHSSLKWRY 10 Unmodified _PEHSSLKWRY_ 0 0 0 REV__ENSG00000197859|ENST00000651351|ADAMTSL2 REV__ENSG00000197859|ENST00000651351|ADAMTSL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 651.83056640625 2 651.833111 1301.65167 NaN NaN NaN NaN NaN NaN NaN 98.655 1 98.954 98.454 99.454 0.29987 0 0 0 0.99774 1 45479 45479 3.5965 0.31518 1 + 23194 14302 14872 14928 26810 26810 0.01291006657629623 PEHWDNSCE 9 Unmodified _PEHWDNSCE_ 0 0 0 ENST00000561154.1_1_14:102606260-102633856:+|nuORF ENST00000561154.1_1_14:102606260-102633856:+|nuORF ENST00000561154.1_1_14:102606260-102633856:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.539794921875 2 558.706188 1115.39782 NaN NaN NaN NaN NaN NaN NaN 95.754 1 95.754 95.254 96.254 0 0 0 0 0.90611 1 51648 51648 2.0598 0 1 23195 8982 14873 14929 26811 26811 -0.15526008504025413 PEHWFSKWERQ 11 Unmodified _PEHWFSKWERQ_ 0 0 0 nc|ENSG00000182831|Q14CZ0-2|HAPSTR1;ENSG00000182831|ENST00000327827|HAPSTR1 nc|ENSG00000182831|Q14CZ0-2|HAPSTR1 nc|ENSG00000182831|Q14CZ0-2|HAPSTR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.5820617675781 3 510.580992 1528.72115 NaN NaN NaN NaN NaN NaN NaN 85.991 1 86.021 85.521 86.521 0.030289 0 0 0 1.0079 1 43155 43155 0.45452 0 1 23196 5352 14874 14930 26812 26812 -0.02206534393644688 PEIKEEQVLQQ 11 Unmodified _PEIKEEQVLQQ_ 0 0 0 REV__nc|ENSG00000186185|Q86Y91-6|KIF18B REV__nc|ENSG00000186185|Q86Y91-6|KIF18B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 670.857177734375 2 670.856449 1339.69835 NaN NaN NaN NaN NaN NaN NaN 96.691 1 97.293 96.793 97.793 0.6019 0 0 0 1.0059 1 44455 44455 2.9952 1.3426 1 + 23197 18081 14875 14931 26813 26813 0.04208401698247144 PEILIIHLKRF 11 Unmodified _PEILIIHLKRF_ 0 0 0 ENST00000469080.5_1_X:47092634-47106681:+|nuORF;ENSG00000102226|ENST00000377107|USP11;nc|ENSG00000102226|P51784|USP11;ENST00000467378.1_1_X:47106498-47106892:+|nuORF ENST00000469080.5_1_X:47092634-47106681:+|nuORF ENST00000469080.5_1_X:47092634-47106681:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 689.736328125 2 689.932097 1377.84964 NaN NaN NaN NaN NaN NaN NaN 106.27 1 106.32 105.82 106.82 0.04837 0 0 0 1.008 1 57494 57494 0.35063 0 1 23198 1337 14876 14932 26814 26814 0.17583052587383463 PEILKNPQLQ 10 Unmodified _PEILKNPQLQ_ 0 0 0 ENSG00000108963|ENST00000263083|DPH1;nc|ENSG00000108963|Q9BZG8-1|DPH1;ENST00000576129.5_1_17:1936818-1940251:+|nuORF;nc|ENSG00000108963|Q9BZG8-5|DPH1 ENSG00000108963|ENST00000263083|DPH1 ENSG00000108963|ENST00000263083|DPH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.3355102539062 2 590.340238 1178.66592 NaN NaN NaN NaN NaN NaN NaN 94.382 1 94.468 93.968 94.968 0.086212 0 0 0 0.97944 1 49640 49640 8.7454 2.115 1 23199 1661 14877 14933 26815 26815 0.08373659085896179 PEILRVKENQK 11 Unmodified _PEILRVKENQK_ 0 0 0 nc|ENSG00000183091|P20929-4|NEB;nc|ENSG00000183091|P20929-1|NEB;NEB|p.E6206Gfs*23|1|0.69|ENSG00000183091|chr2:151505500-151505500|T/-|frameshift_variant;nc|ENSG00000183091|P20929-3|NEB;ENSG00000183091|ENST00000397345|NEB nc|ENSG00000183091|P20929-4|NEB nc|ENSG00000183091|P20929-4|NEB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.399169921875 2 677.396076 1352.7776 4.387 0.0029717 -0.76167 -0.00051596 3.6253 0.0024558 677.3954164200313 93.571 1.2453 93.826 93.02 94.265 0.25497 130 64 3 0 0 0 0.91137 1 42763 42763 2.7352 0 1 1020800 23200 5363 14878 14934 26816 26816 0.1153209344302013 PEILVPLVAWL 11 Unmodified _PEILVPLVAWL_ 0 0 0 ENST00000275732.5_1_7:100286590-100286938:-|nuORF ENST00000275732.5_1_7:100286590-100286938:-|nuORF ENST00000275732.5_1_7:100286590-100286938:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 625.3800048828125 2 625.381374 1248.7482 NaN NaN NaN NaN NaN NaN NaN 105.75 1 106.35 105.85 106.85 0.59969 0 0 0 1.0059 1 48837 48837 2.9952 0.49676 1 23201 6671 14879 14935 26817 26817 0.13377181164855756 PEIQYFDAEKR 11 Unmodified _PEIQYFDAEKR_ 0 0 0 REV__ENSG00000168301|ENST00000404589|KCTD6 REV__ENSG00000168301|ENST00000404589|KCTD6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 698.406982421875 2 698.348791 1394.68303 3.3004 0.0023049 2.1689 0.0015147 5.4693 0.0038195 698.3493696608757 94.948 0.065086 94.948 94.91 94.976 0 8 6 2 0 0 0 0.13295 1 51012 51012 2.7352 1.2533 1 4069000 + 23202 13341 14880 14936 26818 26818 0.001475349010206628 PEIVDKIEQPV 11 Unmodified _PEIVDKIEQPV_ 0 0 0 REV__ENSG00000177000|ENST00000376590|MTHFR REV__ENSG00000177000|ENST00000376590|MTHFR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.8973999023438 2 633.850635 1265.68672 NaN NaN NaN NaN NaN NaN NaN 96.341 1 96.417 95.917 96.917 0.076538 0 0 0 1.0041 1 51166 51166 5.2969 2.0156 1 + 23203 13722 14881 14937 26819 26819 0.06450204674888482 PEIVTVEPFEE 11 Unmodified _PEIVTVEPFEE_ 0 0 0 REV__nc|ENSG00000100503|Q8N4C6-4|NIN REV__nc|ENSG00000100503|Q8N4C6-4|NIN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 644.9348754882812 2 644.819001 1287.62345 NaN NaN NaN NaN NaN NaN NaN 31.056 1 31.845 31.345 32.345 0.78879 0 0 0 1.0059 1 14030 14030 2.9952 0 1 + 23204 10834 14882 14938 26820 26820 -0.008857808329821637 PEKENSSDEN 10 Unmodified _PEKENSSDEN_ 0 0 0 nc|ENSG00000073146|Q9BXT6-5|MOV10L1;nc|ENSG00000073146|Q9BXT6-4|MOV10L1;ENSG00000073146|ENST00000262794|MOV10L1 nc|ENSG00000073146|Q9BXT6-5|MOV10L1 nc|ENSG00000073146|Q9BXT6-5|MOV10L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.7388916015625 2 574.738739 1147.46293 NaN NaN NaN NaN NaN NaN NaN 107.64 1 107.64 107.14 108.14 0 0 0 0 0.99812 1 59025 59025 3.2813 0 1 23205 803 14883 14939 26821 26821 -0.10490735497160131 PEKFQHIL 8 Unmodified _PEKFQHIL_ 0 0 0 ENST00000496813.5_1_6:33239896-33244045:+|nuORF;ENSG00000231500|ENST00000439602|RPS18;ENST00000474626.5_1_6:33239896-33243984:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.5827331542969 2 506.284734 1010.55492 2.9626 0.0014999 -0.66595 -0.00033716 2.2966 0.0011627 506.2845547234111 45.786 0.30006 45.786 45.635 45.935 0 22 13 2 0 0 0 0.071866 1 20919 20919 41.84 14.956 1 706910 23206 6183 14884 14940 26822 26822 0.050060641684808616 PEKFQHIL 8 Unmodified _PEKFQHIL_ 0 0 0 ENST00000496813.5_1_6:33239896-33244045:+|nuORF;ENSG00000231500|ENST00000439602|RPS18;ENST00000474626.5_1_6:33239896-33243984:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.6957702636719 2 506.284734 1010.55492 3.0228 0.0015304 -0.38911 -0.000197 2.6337 0.0013334 506.2848557902344 44.682 0.27398 45.503 45.385 45.659 0.82075 21 13 2 0 0 0 0.29142 2 20299 20299;20330 36.127 17.992 1 823940 23207 6183 14884 14940 26823;26824 26823 0.050060641684808616 PEKFQHIL 8 Unmodified _PEKFQHIL_ 0 0 0 ENST00000496813.5_1_6:33239896-33244045:+|nuORF;ENSG00000231500|ENST00000439602|RPS18;ENST00000474626.5_1_6:33239896-33243984:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.28668212890625 2 506.284734 1010.55492 3.1449 0.0015922 -1.0107 -0.00051171 2.1342 0.0010805 506.28473188818754 45.532 0.15686 45.8 45.711 45.868 0.26768 7 4 2 0 0 0 0.17473 1 20831 20831 45.7 21.679 1 459640 23208 6183 14884 14940 26825 26825 0.050060641684808616 PEKFQHIL 8 Unmodified _PEKFQHIL_ 0 0 0 ENST00000496813.5_1_6:33239896-33244045:+|nuORF;ENSG00000231500|ENST00000439602|RPS18;ENST00000474626.5_1_6:33239896-33243984:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF ENST00000496813.5_1_6:33239896-33244045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.285888671875 2 506.284734 1010.55492 3.449 0.0017462 -0.84635 -0.00042849 2.6026 0.0013177 506.28451524474787 44.91 0.2193 45.56 45.401 45.62 0.64998 11 7 2 0 0 0 0.066709 1 20586 20586 60.074 33.19 1 391160 23209 6183 14884 14940 26826 26826 0.050060641684808616 PEKGATSFPDR 11 Unmodified _PEKGATSFPDR_ 0 0 0 ENST00000301332.2_1_8:145699020-145699230:+|nuORF ENST00000301332.2_1_8:145699020-145699230:+|nuORF ENST00000301332.2_1_8:145699020-145699230:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 602.8026123046875 2 602.801477 1203.5884 3.599 0.0021695 -0.25447 -0.0001534 3.3445 0.0020161 602.8011046970802 50.404 0.2952 50.665 50.464 50.76 0.26146 22 13 2 0 0 0 0.80504 1 23048 23048 6.6304 0.42459 1 1130600 23210 6801 14885 14941 26827 26827 -0.005249788502851516 PEKGKLAKAR 10 Unmodified _PEKGKLAKAR_ 0 0 0 REV__nc|ENSG00000152795|O14979-3|HNRNPDL REV__nc|ENSG00000152795|O14979-3|HNRNPDL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.3447875976562 2 549.343115 1096.67168 NaN NaN NaN NaN NaN NaN NaN 92.939 1 92.939 92.439 93.439 0 0 0 0 0.9952 1 49506 49506 5.7319 0.83484 1 + 23211 12658 14886 14942 26828 26828 0.1272080238820763 PEKKKMKSK 9 Unmodified _PEKKKMKSK_ 0 0 0 ENST00000445020.1_1_6:73696704-73697142:+|nuORF ENST00000445020.1_1_6:73696704-73697142:+|nuORF ENST00000445020.1_1_6:73696704-73697142:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.8683471679688 2 552.333901 1102.65325 NaN NaN NaN NaN NaN NaN NaN 82.509 1 82.509 82.009 83.009 0 0 0 0 0.89983 1 41333 41333 3.5965 0 1 23212 7966 14887 14943 26829 26829 0.10602924422028082 PEKKLRRYYL 10 Unmodified _PEKKLRRYYL_ 0 0 0 ENST00000530915.1_3_11:78075116-78128823:-|nuORF ENST00000530915.1_3_11:78075116-78128823:-|nuORF ENST00000530915.1_3_11:78075116-78128823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 455.9382629394531 3 455.938228 1364.79285 NaN NaN NaN NaN NaN NaN NaN 10.266 1 10.266 9.7664 10.766 0 0 0 0 1.0012 1 4583 4583 0.69767 0 1 23213 8718 14888 14944 26830 26830 0.1250500503092553 PEKKRKKKQKK 11 Unmodified _PEKKRKKKQKK_ 0 0 0 REV__nc|ENSG00000148704|Q5SQQ9-2|VAX1 REV__nc|ENSG00000148704|Q5SQQ9-2|VAX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 713.9069213867188 2 713.472452 1424.93035 NaN NaN NaN NaN NaN NaN NaN 92.397 1 92.48 91.98 92.98 0.082848 0 0 0 1.008 1 48136 48136 0.35063 0 1 + 23214 17976 14889 14945 26831 26831 0.23488333630302805 PEKLAKIILAS 11 Unmodified _PEKLAKIILAS_ 0 0 0 REV__ENST00000495231.1_1_14:35209757-35209856:-|nuORF REV__ENST00000495231.1_1_14:35209757-35209856:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.8779296875 2 591.876456 1181.73836 NaN NaN NaN NaN NaN NaN NaN 94.069 1 94.069 93.569 94.569 0 0 0 0 1.0061 1 50360 50360 2.7352 0.67545 1 + 23215 14308 14890 14946 26832 26832 0.15475993159475365 PEKLPVSSK 9 Unmodified _PEKLPVSSK_ 0 0 0 ENST00000504849.5_1_4:39324953-39367861:-|nuORF;ENSG00000035928|ENST00000349703|RFC1;nc|ENSG00000035928|P35251|RFC1 ENST00000504849.5_1_4:39324953-39367861:-|nuORF ENST00000504849.5_1_4:39324953-39367861:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.9920349121094 2 492.78985 983.565146 NaN NaN NaN NaN NaN NaN NaN 88.26 1 88.312 87.812 88.812 0.052155 0 0 0 0.65681 1 44902 44902 13.906 0 1 23216 512 14891 14947 26833 26833 0.07270627103048355 PEKTEEEDE 9 Unmodified _PEKTEEEDE_ 0 0 0 ENSG00000278195|ENST00000610913|SSTR3 ENSG00000278195|ENST00000610913|SSTR3 ENSG00000278195|ENST00000610913|SSTR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.3081665039062 2 553.230216 1104.44588 NaN NaN NaN NaN NaN NaN NaN 93.154 1 93.409 92.909 93.909 0.25497 0 0 0 0.8984 1 42817 42817 3.9444 0.3479 1 23217 6357 14892 14948 26834 26834 -0.10216656103011701 PEKTIGDMF 9 Unmodified _PEKTIGDMF_ 0 0 0 ENSG00000141756|ENST00000321562|FKBP10;ENST00000464180.1_1_17:39977184-39978657:+|nuORF;nc|ENSG00000141756|Q96AY3-2|FKBP10 ENSG00000141756|ENST00000321562|FKBP10 ENSG00000141756|ENST00000321562|FKBP10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 346.506591796875 3 346.503921 1036.48993 NaN NaN NaN NaN NaN NaN NaN 17.274 1 17.579 17.079 18.079 0.30438 0 0 0 0.8984 1 7823 7823 2.2828 0 1 23218 3285 14893 14949 26835 26835 -0.02685298419692117 PEKVVKKKKKK 11 Unmodified _PEKVVKKKKKK_ 0 0 0 REV__ENST00000565844.1_1_16:19721758-19726357:-|nuORF REV__ENST00000565844.1_1_16:19721758-19726357:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 670.461669921875 2 670.461022 1338.90749 NaN NaN NaN NaN NaN NaN NaN 100.28 1 100.28 99.781 100.78 0 0 0 0 1.0072 1 55318 55318 1.3295 0 1 + 23219 10973 14894 14950 26836 26836 0.25159314512802666 PEKYKRTMKA 10 Unmodified _PEKYKRTMKA_ 0 0 0 REV__ENSG00000155085|ENST00000424296|AK9 REV__ENSG00000155085|ENST00000424296|AK9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 626.4437866210938 2 626.34754 1250.68053 NaN NaN NaN NaN NaN NaN NaN 94.145 1 94.231 93.731 94.731 0.086212 0 0 0 0.99464 1 49461 49461 6.2058 0 1 + 23220 12733 14895 14951 26837 26837 0.06521407962372905 PELAKKIKIF 10 Unmodified _PELAKKIKIF_ 0 0 0 ENSG00000204021|ENST00000404190|LIPK ENSG00000204021|ENST00000404190|LIPK ENSG00000204021|ENST00000404190|LIPK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 593.8812866210938 2 593.881542 1185.74853 NaN NaN NaN NaN NaN NaN NaN 80.344 1 80.635 80.135 81.135 0.29146 0 0 0 0.99774 1 39358 39358 3.5965 0 1 23221 5984 14896 14952 26838 26838 0.1630860088469035 PELDYSEEL 9 Unmodified _PELDYSEEL_ 0 0 0 REV__nc|ENSG00000166401|P50452-3|SERPINB8 REV__nc|ENSG00000166401|P50452-3|SERPINB8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.7489013671875 2 547.748044 1093.48154 3.3551 0.0018378 -0.38178 -0.00020912 2.9733 0.0016286 547.7478562345493 51.749 0.62785 52.411 51.952 52.58 0.66198 60 37 2 0 0 0 0.086747 1 23640 23640 36.044 0 1 756120 + 23222 13234 14897 14953 26839 26839 -0.06146573855335191 PELDYSEEL 9 Unmodified _PELDYSEEL_ 0 0 0 REV__nc|ENSG00000166401|P50452-3|SERPINB8 REV__nc|ENSG00000166401|P50452-3|SERPINB8 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 547.748044 1093.48154 3.4837 0.0019082 -0.43141 -0.00023631 3.0522 0.0016719 547.7477823550354 51.988 0.19461 52.251 52.191 52.386 0.26227 -0.14499 -0.00032522 NaN 36.044 15 11 2 NaN NaN NaN NaN 0 NaN NaN 0 454390 + 23223 13234 14897 14953 -0.06146573855335191 PELFESPNI 9 Unmodified _PELFESPNI_ 0 0 0 nc|ENSG00000174373|Q6GYQ0-4|RALGAPA1;nc|ENSG00000174373|Q6GYQ0|RALGAPA1;nc|ENSG00000174373|Q6GYQ0-7|RALGAPA1;nc|ENSG00000174373|Q6GYQ0-5|RALGAPA1;nc|ENSG00000174373|Q6GYQ0-6|RALGAPA1;nc|ENSG00000174373|Q6GYQ0-2|RALGAPA1;RALGAPA1|p.E1734Rfs*4|1|0.27|ENSG00000174373|chr14:35627229-35627230|-/T|frameshift_variant;ENSG00000174373|ENST00000680220|RALGAPA1;ENST00000443361.1_1_9:108285096-108287232:+|nuORF nc|ENSG00000174373|Q6GYQ0-4|RALGAPA1 nc|ENSG00000174373|Q6GYQ0-4|RALGAPA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.2645263671875 2 523.263665 1044.51278 2.5723 0.001346 0.33491 0.00017524 2.9072 0.0015212 523.2637508171327 72.401 0.47304 72.401 72.251 72.724 0 65 47 2 0 0 0 0.54955 1 35293 35293 11.64 0 1 1546400 23224 4973 14898 14954 26840 26840 -0.0076995603058094275 PELGKLLPVLA 11 Unmodified _PELGKLLPVLA_ 0 0 0 REV__ENST00000376592.5_2_1:11849260-11849482:-|nuORF REV__ENST00000376592.5_2_1:11849260-11849482:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.3666381835938 2 575.365724 1148.7169 NaN NaN NaN NaN NaN NaN NaN 95.064 1 95.146 94.646 95.646 0.082001 0 0 0 1.0059 1 50169 50169 2.9952 0 1 + 23225 15823 14899 14955 26841 26841 0.14848608130751018 PELKVKKL 8 Unmodified _PELKVKKL_ 0 0 0 REV__nc|ENSG00000103852|Q5W5X9-2|TTC23 REV__nc|ENSG00000103852|Q5W5X9-2|TTC23 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.82598876953125 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 45.213 1 45.213 44.713 45.713 0 0 0 0 0.99035 1 20680 20680 2.3027 0 1 + 23226 17885 14900 14956 26842 26842 0.14868398242049352 PELLARYCDSL 11 Unmodified _PELLARYCDSL_ 0 0 0 CUL1|p.T552Nfs*28|1|0.3|ENSG00000055130|chr7:148789807-148789807|C/-|frameshift_variant;ENSG00000055130|ENST00000325222|CUL1 CUL1|p.T552Nfs*28|1|0.3|ENSG00000055130|chr7:148789807-148789807|C/-|frameshift_variant CUL1|p.T552Nfs*28|1|0.3|ENSG00000055130|chr7:148789807-148789807|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.3256225585938 2 640.321188 1278.62782 NaN NaN NaN NaN NaN NaN NaN 84.295 1 84.323 83.823 84.823 0.028603 0 0 0 0.98464 1 42019 42019 8.1555 3.8263 1 23227 252 14901 14957 26843 26843 -0.0003459489107626723 PELLHFLF 8 Unmodified _PELLHFLF_ 0 0 0 nc|ENSG00000131037|Q8TE68-4|EPS8L1;ENST00000589362.5_1_19:55593317-55598979:+|nuORF;nc|ENSG00000131037|Q8TE68-3|EPS8L1;nc|ENSG00000131037|Q8TE68-2|EPS8L1;ENSG00000131037|ENST00000201647|EPS8L1 nc|ENSG00000131037|Q8TE68-4|EPS8L1 nc|ENSG00000131037|Q8TE68-4|EPS8L1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.75433349609375 2 508.284203 1014.55385 3.1094 0.0015805 0.25586 0.00013005 3.3653 0.0017105 508.2844008801983 77.376 0.29886 78.039 77.938 78.237 0.66303 31 19 2 0 0 0 0.092309 1 35673 35673 32.117 5.7757 1 877960 23228 2637 14902 14958 26844 26844 0.04715849799572425 PELLNRSL 8 Unmodified _PELLNRSL_ 0 0 0 ENST00000590689.1_2_16:4779979-4784172:-|nuORF;ENST00000593120.5_1_16:4764228-4784172:-|nuORF;ENST00000592698.5_2_16:4776816-4784259:-|nuORF;ENSG00000168096|ENST00000304283|ANKS3 ENST00000590689.1_2_16:4779979-4784172:-|nuORF ENST00000590689.1_2_16:4779979-4784172:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 471.2885437011719 2 471.274367 940.53418 NaN NaN NaN NaN NaN NaN NaN 39.356 1 39.356 38.856 39.856 0 0 0 0 0.79116 1 17860 17860 19.439 0 1 23229 4606 14903 14959 26845 26845 0.06153473788822339 PELLRLFSSSL 11 Unmodified _PELLRLFSSSL_ 0 0 0 REV__ENST00000496584.1_1_3:112189035-112189236:-|nuORF REV__ENST00000496584.1_1_3:112189035-112189236:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 631.3539428710938 2 631.36117 1260.70779 NaN NaN NaN NaN NaN NaN NaN 89.602 1 89.602 89.102 90.102 0 0 0 0 1.0061 1 46846 46846 2.7352 0.45242 1 + 23230 16851 14904 14960 26846 26846 0.08786214774431755 PELLRPKEQR 10 Unmodified _PELLRPKEQR_ 0 0 0 REV__ENSG00000135905|ENST00000258390|DOCK10 REV__ENSG00000135905|ENST00000258390|DOCK10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 634.12353515625 2 633.369861 1264.72517 4.6013 0.0029143 -1.892 -0.0011983 2.7093 0.001716 633.3682327825114 100.56 0.15176 100.88 100.79 100.94 0.31412 8 5 2 0 0 0 0.84709 1 46481 46481 6.2058 0.47393 1 801350 + 23231 12043 14905 14961 26847 26847 0.1033955510006308 PELLRPKEQR 10 Unmodified _PELLRPKEQR_ 0 0 0 REV__ENSG00000135905|ENST00000258390|DOCK10 REV__ENSG00000135905|ENST00000258390|DOCK10 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 633.369861 1264.72517 4.6013 0.0029143 -1.892 -0.0011983 2.7093 0.001716 633.3682327825114 100.56 0.15176 100.88 100.79 100.94 0.31412 -0.101 -0.00020524 NaN 6.2058 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 801350 + 23232 12043 14905 14961 0.1033955510006308 PELLRPKEQR 10 Unmodified _PELLRPKEQR_ 0 0 0 REV__ENSG00000135905|ENST00000258390|DOCK10 REV__ENSG00000135905|ENST00000258390|DOCK10 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 633.369861 1264.72517 4.1072 0.0026014 -1.5026 -0.0009517 2.6046 0.0016497 633.8696469797443 100.48 0.1299 101.08 100.98 101.11 0.59717 0.101 0.00028803 NaN 6.2058 8 4 2 NaN NaN NaN NaN 0 NaN NaN 0 744810 + 23233 12043 14905 14961 0.1033955510006308 PELLRRRRR 9 Unmodified _PELLRRRRR_ 0 0 0 REV__ENST00000545495.5_1_1:161094264-161102471:-|nuORF REV__ENST00000545495.5_1_1:161094264-161102471:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 626.6221313476562 2 626.397079 1250.7796 NaN NaN NaN NaN NaN NaN NaN 101.81 1 102.41 101.91 102.91 0.59717 0 0 0 0.90611 1 47135 47135 2.0598 0 1 + 23234 17247 14906 14962 26848 26848 0.1642461176213601 PELRRLRRR 9 Unmodified _PELRRLRRR_ 0 0 0 ENST00000589111.5_1_19:39359746-39361880:-|nuORF;nc|ENSG00000187994|Q6ZS11-2|RINL;ENSG00000187994|ENST00000591812|RINL ENST00000589111.5_1_19:39359746-39361880:-|nuORF ENST00000589111.5_1_19:39359746-39361880:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 626.2500610351562 2 626.397079 1250.7796 NaN NaN NaN NaN NaN NaN NaN 108.14 1 108.18 107.68 108.68 0.04248 0 0 0 0.90611 1 58404 58404 2.0598 0 1 23235 5645 14907 14963 26849 26849 0.16424611762158747 PELRRRRYEYD 11 Unmodified _PELRRRRYEYD_ 0 0 0 ENSG00000125652|ENST00000245812|ALKBH7 ENSG00000125652|ENST00000245812|ALKBH7 ENSG00000125652|ENST00000245812|ALKBH7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 776.9041137695312 2 776.902588 1551.79062 NaN NaN NaN NaN NaN NaN NaN 96.315 1 96.923 96.423 97.423 0.60769 0 0 0 1.0072 1 44287 44287 1.3295 1.0225 1 23236 2412 14908 14964 26850 26850 0.03679924555149228 PELRTFPFLSL 11 Unmodified _PELRTFPFLSL_ 0 0 0 ENST00000566581.5_1_15:34656183-34657316:-|nuORF;ENST00000314891.10_1_15:34654487-34657250:-|nuORF ENST00000566581.5_1_15:34656183-34657316:-|nuORF ENST00000566581.5_1_15:34656183-34657316:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 660.3734130859375 2 660.371538 1318.72852 NaN NaN NaN NaN NaN NaN NaN 98.046 1 98.645 98.145 99.145 0.59885 0 0 0 0.94958 1 45137 45137 11.495 2.7493 1 23237 6893 14909 14965 26851 26851 0.08190805154117697 PELSLIKP 8 Unmodified _PELSLIKP_ 0 0 0 REV__ENST00000242057.8_1_7:17373662-17373710:+|nuORF REV__ENST00000242057.8_1_7:17373662-17373710:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.7783508300781 2 448.776211 895.537869 NaN NaN NaN NaN NaN NaN NaN 45.067 1 45.717 45.217 46.217 0.64998 0 0 0 0.99035 1 20654 20654 0.79363 0 1 + 23238 14881 14910 14966 26852 26852 0.08592143562680121 PELSLVLKNQK 11 Unmodified _PELSLVLKNQK_ 0 0 0 REV__ENSG00000080345|ENST00000444746|RIF1 REV__ENSG00000080345|ENST00000444746|RIF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 634.9528198242188 2 634.88227 1267.74999 NaN NaN NaN NaN NaN NaN NaN 16.733 1 16.933 16.433 17.433 0.20057 0 0 0 1.0041 1 7396 7396 5.2969 0.39987 1 + 23239 10592 14911 14967 26853 26853 0.1268219018279524 PELVKRWRIDP 11 Unmodified _PELVKRWRIDP_ 0 0 0 REV__nc|ENSG00000018236|Q12860-3|CNTN1 REV__nc|ENSG00000018236|Q12860-3|CNTN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 704.9053955078125 2 704.906611 1407.79867 NaN NaN NaN NaN NaN NaN NaN 80.771 1 80.771 80.271 81.271 0 0 0 0 1.0048 1 40177 40177 5.2969 2.3016 1 + 23240 10260 14912 14968 26854 26854 0.11108103542574099 PELWHENCE 9 Unmodified _PELWHENCE_ 0 0 0 REV__nc|ENSG00000143641|Q10471-2|GALNT2 REV__nc|ENSG00000143641|Q10471-2|GALNT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.739501953125 2 578.740031 1155.46551 NaN NaN NaN NaN NaN NaN NaN 91.269 1 91.344 90.844 91.844 0.075279 0 0 0 0.90611 1 47254 47254 2.0598 0 1 + 23241 12375 14913 14969 26855 26855 -0.10600558573219132 PELWPHLLQHL 11 Unmodified _PELWPHLLQHL_ 0 0 0 ENST00000508797.1_1_5:179035408-179036813:+|nuORF ENST00000508797.1_1_5:179035408-179036813:+|nuORF ENST00000508797.1_1_5:179035408-179036813:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 692.0958251953125 2 691.882604 1381.75066 NaN NaN NaN NaN NaN NaN NaN 95.561 1 95.643 95.143 96.143 0.082001 0 0 0 1.0038 1 50539 50539 5.7319 0 1 23242 8534 14914 14970 26856 26856 0.07505029622529946 PELYYSVF 8 Unmodified _PELYYSVF_ 0 0 0 REV__ENST00000582557.5_1_17:29061889-29061943:+|nuORF REV__ENST00000582557.5_1_17:29061889-29061943:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.8368835449219 3 339.835776 1016.4855 2.4729 0.00084037 0.81009 0.0002753 3.283 0.0011157 339.83615541084214 21.479 0.23992 21.479 21.37 21.61 0 58 26 3 0 0 0 0.72385 1 9633 9633 3.9444 0.3479 1 347350 + 23243 17518 14915 14971 26857 26857 -0.022084395709498494 PEMAYGWM 8 Unmodified _PEMAYGWM_ 0 0 0 nc|ENSG00000116539|Q9NR48|ASH1L;ENSG00000116539|ENST00000392403|ASH1L nc|ENSG00000116539|Q9NR48|ASH1L nc|ENSG00000116539|Q9NR48|ASH1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.7016296386719 2 492.701331 983.38811 NaN NaN NaN NaN NaN NaN NaN 95.568 1 95.65 95.15 96.15 0.082001 0 0 0 0.99035 1 50546 50546 2.5775 0 1 23244 2031 14916 14972 26858 26858 -0.10424868043105562 PEMEPLVPRVK 11 Unmodified _PEMEPLVPRVK_ 0 0 0 nc|ENSG00000078674|Q15154-2|PCM1;nc|ENSG00000078674|Q15154-5|PCM1;ENSG00000078674|ENST00000325083|PCM1 nc|ENSG00000078674|Q15154-2|PCM1 nc|ENSG00000078674|Q15154-2|PCM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 647.8604736328125 2 647.863023 1293.71149 NaN NaN NaN NaN NaN NaN NaN 40.575 1 41.378 40.878 41.878 0.80351 0 0 0 1.0041 1 18380 18380 5.2969 0.96765 1 23245 881 14917 14973 26859 26859 0.07638561276621658 PEMEYDCE 8 Unmodified _PEMEYDCE_ 0 0 0 nc|ENSG00000166436|O15016-2|TRIM66;nc|ENSG00000166436|O15016|TRIM66;ENSG00000166436|ENST00000646038|TRIM66;ENST00000525788.1_1_11:8639545-8642109:-|nuORF nc|ENSG00000166436|O15016-2|TRIM66 nc|ENSG00000166436|O15016-2|TRIM66 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.7609558105469 2 508.172801 1014.33105 3.1807 0.0016163 -0.93072 -0.00047297 2.25 0.0011434 508.1721402808985 18.574 0.22473 18.574 18.435 18.66 0 22 12 2 0 0 0 0.14267 1 8286 8286 2.5775 0.51773 1 349300 23246 4484 14918 14974 26860 26860 -0.1755438011014121 PEMIKDWTKEH 11 Unmodified _PEMIKDWTKEH_ 0 0 0 ENSG00000177409|ENST00000318238|SAMD9L;nc|ENSG00000177409|Q8IVG5-2|SAMD9L ENSG00000177409|ENST00000318238|SAMD9L ENSG00000177409|ENST00000318238|SAMD9L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 707.8073120117188 2 707.345194 1412.67584 NaN NaN NaN NaN NaN NaN NaN 91.994 1 92.656 92.156 93.156 0.66198 0 0 0 1.0059 1 42330 42330 2.9952 0 1 23247 5117 14919 14975 26861 26861 -0.013995209710628842 PEMLPAYIAMD 11 Unmodified _PEMLPAYIAMD_ 0 0 0 ENSG00000153107|ENST00000341068|ANAPC1;ENST00000462785.1_1_2:112526870-112536431:-|nuORF ENSG00000153107|ENST00000341068|ANAPC1 ENSG00000153107|ENST00000341068|ANAPC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 625.6670532226562 2 625.793417 1249.57228 NaN NaN NaN NaN NaN NaN NaN 83.717 1 83.717 83.217 84.217 0 0 0 0 1.0038 1 42219 42219 5.7319 0 1 23248 3772 14920 14976 26862 26862 -0.0425214440306263 PEMPQQPEPAA 11 Unmodified _PEMPQQPEPAA_ 0 0 0 REV__RNF25|p.L224P|1|0.31|ENSG00000163481|chr2:218664869-218664869|A/G|missense_variant REV__RNF25|p.L224P|1|0.31|ENSG00000163481|chr2:218664869-218664869|A/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 597.9498901367188 2 597.776613 1193.53867 NaN NaN NaN NaN NaN NaN NaN 48.637 1 49.464 48.964 49.964 0.82705 0 0 0 1.0041 1 22157 22157 5.2969 0.96765 1 + 23249 18205 14921 14977 26863 26863 -0.05035429850568107 PEMSCDYPV 9 Unmodified _PEMSCDYPV_ 0 0 0 REV__nc|ENSG00000124782|Q92766-5|RREB1 REV__nc|ENSG00000124782|Q92766-5|RREB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.998779296875 2 520.706811 1039.39907 NaN NaN NaN NaN NaN NaN NaN 98.197 1 98.796 98.296 99.296 0.59885 0 0 0 0.89509 1 45242 45242 4.756 0.42677 1 + 23250 11668 14922 14978 26864 26864 -0.1190551045947359 PEMVNQPSDYE 11 Unmodified _PEMVNQPSDYE_ 0 0 0 REV__ENSG00000136932|ENST00000375119|TRMO REV__ENSG00000136932|ENST00000375119|TRMO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.8522644042969 3 436.851937 1307.53398 2.7657 0.0012082 -1.5227 -0.00066519 1.243 0.00054302 436.85157211745434 31.624 0.1658 32.413 32.271 32.437 0.78879 17 13 2 0 0 0 0.7342 1 14257 14257 9.7643 1.3199 1 560840 + 23251 12088 14923 14979 26865 26865 -0.10748358784030643 PEMVNQPSDYE 11 Unmodified _PEMVNQPSDYE_ 0 0 0 REV__ENSG00000136932|ENST00000375119|TRMO REV__ENSG00000136932|ENST00000375119|TRMO MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 436.851937 1307.53398 2.7657 0.0012082 -1.5227 -0.00066519 1.243 0.00054302 436.85157211745434 31.624 0.1658 32.413 32.271 32.437 0.78879 -0.11842 0.00089557 NaN 9.7643 17 13 2 NaN NaN NaN NaN 0 NaN NaN 0 560840 + 23252 12088 14923 14979 -0.10748358784030643 PEMVNQPSDYE 11 Unmodified _PEMVNQPSDYE_ 0 0 0 REV__ENSG00000136932|ENST00000375119|TRMO REV__ENSG00000136932|ENST00000375119|TRMO MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 436.851937 1307.53398 3.1671 0.0013835 0.69158 0.00030212 3.8586 0.0016857 436.8515137544225 32.361 0.074337 32.615 32.593 32.668 0.25452 0.083682 0.0037975 NaN 9.7643 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 322760 + 23253 12088 14923 14979 -0.10748358784030643 PENEMTCNSK 10 Unmodified _PENEMTCNSK_ 0 0 0 ENST00000461830.6_1_1:176012335-176050379:-|nuORF;nc|ENSG00000143207|Q8NHY2-3|COP1;nc|ENSG00000143207|Q8NHY2-2|COP1;nc|ENSG00000143207|Q8NHY2-4|COP1;ENSG00000143207|ENST00000367669|COP1 ENST00000461830.6_1_1:176012335-176050379:-|nuORF ENST00000461830.6_1_1:176012335-176050379:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.2828369140625 2 576.736631 1151.45871 2.5135 0.0014496 0.93638 0.00054004 3.4499 0.0019897 577.2359687024215 88.61 0.038666 88.663 88.635 88.674 0.052155 6 4 2 0 0 0 0.84709 1 45181 45181 6.2058 1.6769 1 15688000 23254 3353 14924 14980 26866 26866 -0.11096239516109563 PENEMTCNSK 10 Unmodified _PENEMTCNSK_ 0 0 0 ENST00000461830.6_1_1:176012335-176050379:-|nuORF;nc|ENSG00000143207|Q8NHY2-3|COP1;nc|ENSG00000143207|Q8NHY2-2|COP1;nc|ENSG00000143207|Q8NHY2-4|COP1;ENSG00000143207|ENST00000367669|COP1 ENST00000461830.6_1_1:176012335-176050379:-|nuORF ENST00000461830.6_1_1:176012335-176050379:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 576.4482421875 2 576.736631 1151.45871 NaN NaN NaN NaN NaN NaN NaN 83.93 1 83.959 83.459 84.459 0.028603 0 0 0 0.9952 1 41760 41760 5.7319 1.203 1 23255 3353 14924 14980 26867 26867 -0.11096239516109563 PENWDVWYESK 11 Unmodified _PENWDVWYESK_ 0 0 0 nc|ENSG00000181744|Q8NDZ4-2|DIPK2A;ENSG00000181744|ENST00000315691|DIPK2A nc|ENSG00000181744|Q8NDZ4-2|DIPK2A nc|ENSG00000181744|Q8NDZ4-2|DIPK2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 726.8284301757812 2 726.825149 1451.63574 NaN NaN NaN NaN NaN NaN NaN 96.256 1 96.256 95.756 96.756 0 0 0 0 1.0044 1 52045 52045 4.897 2.3985 1 23256 5298 14925 14981 26868 26868 -0.07200744369947643 PEPDSMTCCVS 11 Unmodified _PEPDSMTCCVS_ 0 0 0 nc|ENSG00000133640|Q96JM4-2|LRRIQ1;ENSG00000133640|ENST00000393217|LRRIQ1;ENST00000525971.6_1_12:85431954-85518298:+|nuORF nc|ENSG00000133640|Q96JM4-2|LRRIQ1 nc|ENSG00000133640|Q96JM4-2|LRRIQ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.7308349609375 2 584.719592 1167.42463 NaN NaN NaN NaN NaN NaN NaN 88.043 1 88.043 87.543 88.543 0 0 0 0 1.0038 1 45581 45581 5.7319 0.83484 1 23257 2766 14926 14982 26869 26869 -0.1523840399936489 PEPFAKLMK 9 Unmodified _PEPFAKLMK_ 0 0 0 nc|ENSG00000143674|Q5TCX8-2|MAP3K21;ENSG00000143674|ENST00000366624|MAP3K21 nc|ENSG00000143674|Q5TCX8-2|MAP3K21 nc|ENSG00000143674|Q5TCX8-2|MAP3K21 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.7989501953125 2 530.79662 1059.57869 NaN NaN NaN NaN NaN NaN NaN 89.729 1 89.729 89.229 90.229 0 0 0 0 0.75166 1 46949 46949 10.824 2.9138 1 23258 3387 14927 14983 26870 26870 0.051281616106280126 PEPFAKLMK 9 Unmodified _PEPFAKLMK_ 0 0 0 nc|ENSG00000143674|Q5TCX8-2|MAP3K21;ENSG00000143674|ENST00000366624|MAP3K21 nc|ENSG00000143674|Q5TCX8-2|MAP3K21 nc|ENSG00000143674|Q5TCX8-2|MAP3K21 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.29833984375 2 530.79662 1059.57869 2.1836 0.0011591 0.1992 0.00010574 2.3828 0.0012648 531.2970744629899 88.278 0.081047 88.33 88.273 88.354 0.052155 14 8 2 0 0 0 0.076365 1 44924 44924 10.824 7.5426 1 13066000 23259 3387 14927 14983 26871 26871 0.051281616106280126 PEPFAKLMK 9 Unmodified _PEPFAKLMK_ 0 0 0 nc|ENSG00000143674|Q5TCX8-2|MAP3K21;ENSG00000143674|ENST00000366624|MAP3K21 nc|ENSG00000143674|Q5TCX8-2|MAP3K21 nc|ENSG00000143674|Q5TCX8-2|MAP3K21 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 530.79662 1059.57869 2.6463 0.0014047 -0.1638 -8.6943E-05 2.4825 0.0013177 530.7971871220361 88.258 0.038055 88.258 88.228 88.266 0 -0.035717 -9.1111E-05 NaN 10.824 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 17287000 23260 3387 14927 14983 0.051281616106280126 PEPGEPEERKS 11 Unmodified _PEPGEPEERKS_ 0 0 0 ENST00000498262.1_1_1:244998983-245005526:+|nuORF;ENSG00000203667|ENST00000411948|COX20 ENST00000498262.1_1_1:244998983-245005526:+|nuORF ENST00000498262.1_1_1:244998983-245005526:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 627.5508422851562 2 627.801674 1253.58879 NaN NaN NaN NaN NaN NaN NaN 108.4 1 108.44 107.94 108.94 0.04248 0 0 0 1.0041 1 58532 58532 5.2969 1.3525 1 23261 5973 14928 14984 26872 26872 -0.027856039210973904 PEPIRPPRGLT 11 Unmodified _PEPIRPPRGLT_ 0 0 0 REV__nc|ENSG00000108798|Q9P2A4-2|ABI3 REV__nc|ENSG00000108798|Q9P2A4-2|ABI3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 616.952880859375 2 616.859129 1231.70371 NaN NaN NaN NaN NaN NaN NaN 85.589 1 85.589 85.089 86.089 0 0 0 0 1.0047 1 43625 43625 4.5289 0 1 + 23262 11156 14929 14985 26873 26873 0.0971217007136147 PEPLRARPDRW 11 Unmodified _PEPLRARPDRW_ 0 0 0 ENST00000335574.9_2_20:30157021-30157309:+|nuORF ENST00000335574.9_2_20:30157021-30157309:+|nuORF ENST00000335574.9_2_20:30157021-30157309:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 696.8803100585938 2 696.878385 1391.74222 4.5736 0.0031873 0.17753 0.00012372 4.7511 0.003311 696.878494846275 96.21 0.084167 96.488 96.439 96.523 0.27778 6 4 2 0 0 0 0.84422 1 44221 44221 4.897 1.9018 1 629190 23263 7022 14930 14986 26874 26874 0.06201475705870507 PEPRRRRRKKS 11 Unmodified _PEPRRRRRKKS_ 0 0 0 REV__ENSG00000129682|ENST00000315930|FGF13 REV__ENSG00000129682|ENST00000315930|FGF13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 733.443359375 2 733.450374 1464.8862 NaN NaN NaN NaN NaN NaN NaN 95.435 1 95.517 95.017 96.017 0.082001 0 0 0 1.0073 1 50440 50440 1.1933 0.735 1 + 23264 11793 14931 14987 26875 26875 0.17234742256664504 PEPTIKWRRL 10 Unmodified _PEPTIKWRRL_ 0 0 0 HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant;ENSG00000143341|ENST00000271588|HMCN1;nc|ENSG00000143341|Q96RW7-2|HMCN1;HMCN1|p.S4770Kfs*9|1|0.12|ENSG00000143341|chr1:186145444-186145445|-/AGTCTATAAATAG|frameshift_variant;ENST00000493413.1_1_1:185934944-185947193:+|nuORF;ENST00000485744.5_1_1:185931700-185962449:+|nuORF;nc|ENSG00000143341|Q96RW7-3|HMCN1;HMCN1|p.S2153Lfs*7|1|0.14|ENSG00000143341|chr1:186045841-186045841|C/-|frameshift_variant;HMCN1|p.L2284Cfs*9|1|0.25|ENSG00000143341|chr1:186053973-186053973|T/-|frameshift_variant HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 648.8858642578125 2 648.382771 1294.75099 3.8586 0.0025019 -0.74269 -0.00048155 3.1159 0.0020203 648.3826770930034 7.7949 0.25652 7.7949 7.693 7.9496 0 34 26 2 0 0 0 0.93628 1 3509 3509 1.6526 0.32309 1 35904 23265 3360 14932 14988 26876 26876 0.11540449342351167 PEPTIKWRRL 10 Unmodified _PEPTIKWRRL_ 0 0 0 HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant;ENSG00000143341|ENST00000271588|HMCN1;nc|ENSG00000143341|Q96RW7-2|HMCN1;HMCN1|p.S4770Kfs*9|1|0.12|ENSG00000143341|chr1:186145444-186145445|-/AGTCTATAAATAG|frameshift_variant;ENST00000493413.1_1_1:185934944-185947193:+|nuORF;ENST00000485744.5_1_1:185931700-185962449:+|nuORF;nc|ENSG00000143341|Q96RW7-3|HMCN1;HMCN1|p.S2153Lfs*7|1|0.14|ENSG00000143341|chr1:186045841-186045841|C/-|frameshift_variant;HMCN1|p.L2284Cfs*9|1|0.25|ENSG00000143341|chr1:186053973-186053973|T/-|frameshift_variant HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 648.3839721679688 2 648.382771 1294.75099 NaN NaN NaN NaN NaN NaN NaN 7.9061 1 7.9061 7.4061 8.4061 0 0 0 0 1.0015 1 3567 3567 0.40072 0 1 23266 3360 14932 14988 26877 26877 0.11540449342351167 PEPTIKWRRL 10 Unmodified _PEPTIKWRRL_ 0 0 0 HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant;ENSG00000143341|ENST00000271588|HMCN1;nc|ENSG00000143341|Q96RW7-2|HMCN1;HMCN1|p.S4770Kfs*9|1|0.12|ENSG00000143341|chr1:186145444-186145445|-/AGTCTATAAATAG|frameshift_variant;ENST00000493413.1_1_1:185934944-185947193:+|nuORF;ENST00000485744.5_1_1:185931700-185962449:+|nuORF;nc|ENSG00000143341|Q96RW7-3|HMCN1;HMCN1|p.S2153Lfs*7|1|0.14|ENSG00000143341|chr1:186045841-186045841|C/-|frameshift_variant;HMCN1|p.L2284Cfs*9|1|0.25|ENSG00000143341|chr1:186053973-186053973|T/-|frameshift_variant HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 648.385009765625 2 648.382771 1294.75099 NaN NaN NaN NaN NaN NaN NaN 8.2572 1 8.2572 7.7572 8.7572 0 0 0 0 1.0015 1 3725 3725 0.45834 0 1 23267 3360 14932 14988 26878 26878 0.11540449342351167 PEPTIKWRRL 10 Unmodified _PEPTIKWRRL_ 0 0 0 HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant;ENSG00000143341|ENST00000271588|HMCN1;nc|ENSG00000143341|Q96RW7-2|HMCN1;HMCN1|p.S4770Kfs*9|1|0.12|ENSG00000143341|chr1:186145444-186145445|-/AGTCTATAAATAG|frameshift_variant;ENST00000493413.1_1_1:185934944-185947193:+|nuORF;ENST00000485744.5_1_1:185931700-185962449:+|nuORF;nc|ENSG00000143341|Q96RW7-3|HMCN1;HMCN1|p.S2153Lfs*7|1|0.14|ENSG00000143341|chr1:186045841-186045841|C/-|frameshift_variant;HMCN1|p.L2284Cfs*9|1|0.25|ENSG00000143341|chr1:186053973-186053973|T/-|frameshift_variant HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 648.6356201171875 2 648.382771 1294.75099 3.8586 0.0025018 -0.9256 -0.00060014 2.933 0.0019017 648.3822329293062 7.6512 0.11577 7.6512 7.5685 7.6843 0 13 9 2 0 0 0 0.12676 1 3445 3445 1.6526 0 1 25841 23268 3360 14932 14988 26879 26879 0.11540449342351167 PEPTIKWRRL 10 Unmodified _PEPTIKWRRL_ 0 0 0 HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant;ENSG00000143341|ENST00000271588|HMCN1;nc|ENSG00000143341|Q96RW7-2|HMCN1;HMCN1|p.S4770Kfs*9|1|0.12|ENSG00000143341|chr1:186145444-186145445|-/AGTCTATAAATAG|frameshift_variant;ENST00000493413.1_1_1:185934944-185947193:+|nuORF;ENST00000485744.5_1_1:185931700-185962449:+|nuORF;nc|ENSG00000143341|Q96RW7-3|HMCN1;HMCN1|p.S2153Lfs*7|1|0.14|ENSG00000143341|chr1:186045841-186045841|C/-|frameshift_variant;HMCN1|p.L2284Cfs*9|1|0.25|ENSG00000143341|chr1:186053973-186053973|T/-|frameshift_variant HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.384033203125 2 648.382771 1294.75099 NaN NaN NaN NaN NaN NaN NaN 4.5156 1 4.8806 4.3806 5.3806 0.36497 0 0 0 1.0015 1 2049 2049 0.45834 0 1 23269 3360 14932 14988 26880 26880 0.11540449342351167 PEPWYQHC 8 Unmodified _PEPWYQHC_ 0 0 0 REV__ENSG00000088179|ENST00000263708|PTPN4 REV__ENSG00000088179|ENST00000263708|PTPN4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.298583984375 2 530.221277 1058.428 2.645 0.0014025 -3.9183 -0.0020776 -1.2733 -0.00067513 530.7199261849445 87.516 0.086678 87.516 87.472 87.559 0 17 12 2 0 0 0 0.70799 1 45151 45151 5.2307 0.47466 1 22182000 + 23270 10675 14933 14989 26881 26881 -0.09887605048174919 PEPWYQHC 8 Unmodified _PEPWYQHC_ 0 0 0 REV__ENSG00000088179|ENST00000263708|PTPN4 REV__ENSG00000088179|ENST00000263708|PTPN4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 530.221277 1058.428 2.645 0.0014025 -3.9183 -0.0020776 -1.2733 -0.00067513 530.7199261849445 87.516 0.086678 87.516 87.472 87.559 0 0 0 NaN 5.2307 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 22182000 + 23271 10675 14933 14989 -0.09887605048174919 PEQMWFFLR 9 Unmodified _PEQMWFFLR_ 0 0 0 REV__ENSG00000130706|ENST00000253003|ADRM1 REV__ENSG00000130706|ENST00000253003|ADRM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 627.0381469726562 2 627.310426 1252.6063 NaN NaN NaN NaN NaN NaN NaN 97.032 1 97.032 96.532 97.532 0 0 0 0 0.89683 1 52695 52695 4.3292 0.73274 1 + 23272 11828 14934 14990 26882 26882 -0.00989935129132391 PEQNKKLYL 9 Unmodified _PEQNKKLYL_ 0 0 0 REV__ENST00000409558.8_1_2:64141407-64147088:-|nuORF REV__ENST00000409558.8_1_2:64141407-64147088:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 378.21771240234375 3 378.21688 1131.62881 2.7553 0.0010421 -0.072211 -2.7311E-05 2.6831 0.0010148 378.2168251842509 36.036 0.36585 36.294 36.136 36.502 0.25768 37 17 3 0 0 0 0.19413 2 16445 16396;16445 23.79 2.1996 1 962320 + 23273 16098 14935 14991 26883;26884 26884 0.06825987540128153 PEQNKKLYL 9 Unmodified _PEQNKKLYL_ 0 0 0 REV__ENST00000409558.8_1_2:64141407-64147088:-|nuORF REV__ENST00000409558.8_1_2:64141407-64147088:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 378.21688 1131.62881 2.7553 0.0010421 -0.072211 -2.7311E-05 2.6831 0.0010148 378.2168251842509 36.036 0.36585 36.294 36.136 36.502 0.25768 0.053649 -6.0751E-05 NaN 23.79 37 17 3 NaN NaN NaN NaN 0 NaN NaN 0 962320 + 23274 16098 14935 14991 0.06825987540128153 PEQRDWVL 8 Unmodified _PEQRDWVL_ 0 0 0 REV__ENST00000216468.7_1_14:77807904-77808090:-|nuORF REV__ENST00000216468.7_1_14:77807904-77808090:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.7708740234375 2 521.769448 1041.52434 3.2828 0.0017129 -0.41779 -0.00021799 2.865 0.0014949 521.7692337439984 51.856 0.59461 52.118 51.86 52.454 0.26227 149 43 4 0 0 0 0.022274 1 23821 23821 85.357 13.434 1 17619000 + 23275 14812 14936 14992 26885 26885 0.005242857834218739 PEQRRRLLRNF 11 Unmodified _PEQRRRLLRNF_ 0 0 0 ENST00000534138.1_1_19:50311551-50312077:-|nuORF;ENST00000525370.5_1_19:50310410-50314932:-|nuORF;nc|ENSG00000010361|Q9BT04-3|FUZ;nc|ENSG00000010361|Q9BT04-2|FUZ;ENSG00000010361|ENST00000313777|FUZ ENST00000534138.1_1_19:50311551-50312077:-|nuORF ENST00000534138.1_1_19:50311551-50312077:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 742.9345703125 2 742.931483 1483.84841 NaN NaN NaN NaN NaN NaN NaN 89.402 1 89.466 88.966 89.966 0.064346 0 0 0 1.0072 1 45814 45814 1.3295 0.13619 1 23276 401 14937 14993 26886 26886 0.12584231271216595 PEQRRVYR 8 Unmodified _PEQRRVYR_ 0 0 0 REV__ENST00000414286.1_1_9:35753089-35756568:-|nuORF REV__ENST00000414286.1_1_9:35753089-35756568:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.3087158203125 2 552.307064 1102.59957 3.7334 0.002062 -1.786 -0.00098643 1.9474 0.0010756 552.3060497964829 98.881 0.11395 99.479 99.409 99.523 0.59748 14 7 2 0 0 0 0.71384 1 45653 45653 4.756 0.42677 1 3179000 + 23277 16120 14938 14994 26887 26887 0.052378880345031575 PEQRRVYR 8 Unmodified _PEQRRVYR_ 0 0 0 REV__ENST00000414286.1_1_9:35753089-35756568:-|nuORF REV__ENST00000414286.1_1_9:35753089-35756568:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 552.307064 1102.59957 4.3922 0.0024259 -1.4008 -0.00077365 2.9915 0.0016522 552.3057959951618 99.042 0.14027 99.342 99.273 99.413 0.29987 -0.068648 0.00022961 NaN 4.756 17 9 3 NaN NaN NaN NaN 0 NaN NaN 0 3180300 + 23278 16120 14938 14994 0.052378880345031575 PEQTCEEESLC 11 Unmodified _PEQTCEEESLC_ 0 0 0 REV__ENSG00000181544|ENST00000650831|FANCB REV__ENSG00000181544|ENST00000650831|FANCB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 634.3273315429688 2 634.244486 1266.47442 NaN NaN NaN NaN NaN NaN NaN 93.862 1 93.948 93.448 94.448 0.086212 0 0 0 1.0072 1 49268 49268 1.3295 0.13619 1 + 23279 13857 14939 14995 26888 26888 -0.14815997789696667 PEREQHEREWR 11 Unmodified _PEREQHEREWR_ 0 0 0 REV__nc|ENSG00000113360|Q9NRR4-2|DROSHA REV__nc|ENSG00000113360|Q9NRR4-2|DROSHA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 776.3161010742188 2 776.374195 1550.73384 NaN NaN NaN NaN NaN NaN NaN 91.547 1 91.63 91.13 92.13 0.082848 0 0 0 1.0072 1 47475 47475 1.3295 0 1 + 23280 11297 14940 14996 26889 26889 -0.01950123001392967 PERKPPPPR 9 Unmodified _PERKPPPPR_ 0 0 0 REV__ENSG00000146950|ENST00000380913|SHROOM2 REV__ENSG00000146950|ENST00000380913|SHROOM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.3133544921875 2 537.314358 1072.61416 NaN NaN NaN NaN NaN NaN NaN 95.441 1 95.523 95.023 96.023 0.082001 0 0 0 0.86044 1 50445 50445 7.2892 0 1 + 23281 12489 14941 14997 26890 26890 0.08075960182645758 PERLLRERAIF 11 Unmodified _PERLLRERAIF_ 0 0 0 ENSG00000132361|ENST00000651024|CLUH;nc|ENSG00000132361|O75153|CLUH ENSG00000132361|ENST00000651024|CLUH ENSG00000132361|ENST00000651024|CLUH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 700.2987670898438 2 700.41206 1398.80957 NaN NaN NaN NaN NaN NaN NaN 87.383 1 87.383 86.883 87.883 0 0 0 0 1.0061 1 45049 45049 2.7352 1.0826 1 23282 2694 14942 14998 26891 26891 0.12611505916834176 PERLTVNWKVR 11 Unmodified _PERLTVNWKVR_ 0 0 0 ENSG00000181291|ENST00000631683|TMEM132E ENSG00000181291|ENST00000631683|TMEM132E ENSG00000181291|ENST00000631683|TMEM132E MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 699.7079467773438 2 699.404235 1396.79392 NaN NaN NaN NaN NaN NaN NaN 96.851 1 97.453 96.953 97.953 0.6019 0 0 0 1.0059 1 44527 44527 2.9952 0.26005 1 23283 5285 14943 14999 26892 26892 0.1113921939975171 PERPLRPPSEK 11 Unmodified _PERPLRPPSEK_ 0 0 0 ENST00000497660.5_1_1:8390216-8404070:+|nuORF;ENSG00000162426|ENST00000471889|SLC45A1 ENST00000497660.5_1_1:8390216-8404070:+|nuORF ENST00000497660.5_1_1:8390216-8404070:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 653.3692016601562 2 653.367318 1304.72008 NaN NaN NaN NaN NaN NaN NaN 85.243 1 85.243 84.743 85.743 0 0 0 0 0.97845 1 43349 43349 8.7454 3.4485 1 23284 4136 14944 15000 26893 26893 0.07991251237422148 PERQRYCRPFW 11 Unmodified _PERQRYCRPFW_ 0 0 0 REV__ENST00000565019.6_1_16:67405078-67410659:+|nuORF REV__ENST00000565019.6_1_16:67405078-67410659:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 769.4231567382812 2 769.377694 1536.74084 NaN NaN NaN NaN NaN NaN NaN 92.147 1 92.23 91.73 92.73 0.082848 0 0 0 1.0079 1 47944 47944 1.3295 0.9789 1 + 23285 17408 14945 15001 26894 26894 -0.006064816545404028 PERRCFYQER 10 Unmodified _PERRCFYQER_ 0 0 0 ENST00000336314.8_2_5:154193974-154194505:+|nuORF ENST00000336314.8_2_5:154193974-154194505:+|nuORF ENST00000336314.8_2_5:154193974-154194505:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 692.534423828125 2 692.332953 1382.65135 NaN NaN NaN NaN NaN NaN NaN 96.333 1 96.333 95.833 96.833 0 0 0 0 1.0001 1 52107 52107 1.6526 0.17072 1 23286 7030 14946 15002 26895 26895 -0.024667363338949144 PERREIIRQ 9 Unmodified _PERREIIRQ_ 0 0 0 ENSG00000198793|ENST00000361445|MTOR;ENST00000495435.1_1_1:11193031-11204809:-|nuORF ENSG00000198793|ENST00000361445|MTOR ENSG00000198793|ENST00000361445|MTOR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 598.843994140625 2 598.846553 1195.67855 NaN NaN NaN NaN NaN NaN NaN 38.586 1 39.223 38.723 39.723 0.63651 0 0 0 0.90777 1 17644 17644 1.6526 0.32309 1 23287 5935 14947 15003 26896 26896 0.088541152687867 PERRHRRMADA 11 Unmodified _PERRHRRMADA_ 0 0 0 REV__ENSG00000143869|ENST00000272224|GDF7 REV__ENSG00000143869|ENST00000272224|GDF7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 697.6840209960938 2 697.862743 1393.71093 NaN NaN NaN NaN NaN NaN NaN 82.869 1 82.914 82.414 83.414 0.045006 0 0 0 0.97845 1 40985 40985 8.7454 0.58988 1 + 23288 12382 14948 15004 26897 26897 0.029825794001453687 PERRKRRRHS 10 Unmodified _PERRKRRRHS_ 0 0 0 ENST00000481661.1_1_14:59931594-59931975:-|nuORF ENST00000481661.1_1_14:59931594-59931975:-|nuORF ENST00000481661.1_1_14:59931594-59931975:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 689.4088745117188 2 689.405966 1376.79738 NaN NaN NaN NaN NaN NaN NaN 80.365 1 80.615 80.115 81.115 0.24947 0 0 0 1.0003 1 37003 37003 1.4819 0.28856 1 23289 8296 14949 15005 26898 26898 0.1240532701704069 PERRPGAQL 9 Unmodified _PERRPGAQL_ 0 0 0 REV__ENST00000493892.5_1_1:26310515-26324519:-|nuORF REV__ENST00000493892.5_1_1:26310515-26324519:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.067138671875 2 512.28834 1022.56213 NaN NaN NaN NaN NaN NaN NaN 94.453 1 94.712 94.212 95.212 0.25975 0 0 0 0.62812 1 43403 43403 14.838 0.93222 1 + 23290 16820 14950 15006 26899 26899 0.05174796768903889 PERRPLLLVKE 11 Unmodified _PERRPLLLVKE_ 0 0 0 nc|ENSG00000152767|Q9Y4F1-2|FARP1 nc|ENSG00000152767|Q9Y4F1-2|FARP1 nc|ENSG00000152767|Q9Y4F1-2|FARP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 675.59521484375 2 675.416811 1348.81907 NaN NaN NaN NaN NaN NaN NaN 89.88 1 89.944 89.444 90.444 0.064346 0 0 0 1.0061 1 46165 46165 2.7352 0 1 23291 9693 14951 15007 26900 26900 0.15861274202370623 PERVIILLKIS 11 Unmodified _PERVIILLKIS_ 0 0 0 REV__ENSG00000249853|ENST00000312719|HS3ST5 REV__ENSG00000249853|ENST00000312719|HS3ST5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.8123779296875 2 640.918655 1279.82276 NaN NaN NaN NaN NaN NaN NaN 101.05 1 101.11 100.61 101.61 0.059723 0 0 0 1.0072 1 54866 54866 1.3295 0 1 + 23292 14649 14952 15008 26901 26901 0.19403943976249138 PERVLQRRRTQ 11 Unmodified _PERVLQRRRTQ_ 0 0 0 REV__ENST00000292254.8_1_1:155294392-155294898:+|nuORF REV__ENST00000292254.8_1_1:155294392-155294898:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 720.241455078125 2 719.921115 1437.82768 NaN NaN NaN NaN NaN NaN NaN 91.285 1 91.36 90.86 91.86 0.075279 0 0 0 1.0061 1 47267 47267 2.7352 1.2533 1 + 23293 15129 14953 15009 26902 26902 0.1262764089153734 PERWHYKYNSR 11 Unmodified _PERWHYKYNSR_ 0 0 0 ENST00000492313.1_1_6:46133055-46135279:-|nuORF;ENSG00000112796|ENST00000371383|ENPP5 ENST00000492313.1_1_6:46133055-46135279:-|nuORF ENST00000492313.1_1_6:46133055-46135279:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 768.4227294921875 2 768.378749 1534.74294 NaN NaN NaN NaN NaN NaN NaN 94.549 1 94.636 94.136 95.136 0.086212 0 0 0 1.0072 1 49772 49772 1.3295 0.9789 1 23294 1822 14954 15010 26903 26903 -0.003037296450656868 PERWMLKWLLY 11 Unmodified _PERWMLKWLLY_ 0 0 0 REV__ENST00000592793.5_1_16:5121850-5123284:+|nuORF REV__ENST00000592793.5_1_16:5121850-5123284:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 767.9160766601562 2 767.91559 1533.81663 NaN NaN NaN NaN NaN NaN NaN 107.89 1 108.2 107.7 108.7 0.31421 0 0 0 1.008 1 49764 49764 0.35063 0 1 + 23295 10295 14955 15011 26904 26904 0.07107102473082705 PESCCEPHCC 10 Unmodified _PESCCEPHCC_ 0 0 0 ENSG00000215455|ENST00000400375|KRTAP10-1 ENSG00000215455|ENST00000400375|KRTAP10-1 ENSG00000215455|ENST00000400375|KRTAP10-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.5217895507812 2 554.171755 1106.32896 NaN NaN NaN NaN NaN NaN NaN 89.876 1 89.941 89.441 90.441 0.064346 0 0 0 1.0001 1 46162 46162 1.6526 1.0511 1 23296 6133 14956 15012 26905 26905 -0.21995455391243013 PESCSSDS 8 Unmodified _PESCSSDS_ 0 0 0 nc|ENSG00000180592|Q1XH10-2|SKIDA1;ENSG00000180592|ENST00000449193|SKIDA1 nc|ENSG00000180592|Q1XH10-2|SKIDA1 nc|ENSG00000180592|Q1XH10-2|SKIDA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.2763061523438 1 811.277439 810.270163 2.7084 0.0021972 -3.7301 -0.0030262 -1.0218 -0.00082893 811.275113471266 88.793 0.075882 88.845 88.797 88.873 0.052155 15 11 2 0 0 0 0.74071 1 45334 45334 2.5775 0 1 34351000 23297 5256 14957 15013 26906 26906 -0.14256149098059723 PESCSSDS 8 Unmodified _PESCSSDS_ 0 0 0 nc|ENSG00000180592|Q1XH10-2|SKIDA1;ENSG00000180592|ENST00000449193|SKIDA1 nc|ENSG00000180592|Q1XH10-2|SKIDA1 nc|ENSG00000180592|Q1XH10-2|SKIDA1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.3346557617188 1 811.277439 810.270163 2.4684 0.0020026 -3.0659 -0.0024873 -0.59743 -0.00048468 811.2760142339083 96.694 0.17618 96.771 96.612 96.789 0.076538 28 21 2 0 0 0 0.14146 1 51474 51474 5.2307 0 1 44982000 23298 5256 14957 15013 26907 26907 -0.14256149098059723 PESCSSDS 8 Unmodified _PESCSSDS_ 0 0 0 nc|ENSG00000180592|Q1XH10-2|SKIDA1;ENSG00000180592|ENST00000449193|SKIDA1 nc|ENSG00000180592|Q1XH10-2|SKIDA1 nc|ENSG00000180592|Q1XH10-2|SKIDA1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.332275390625 1 811.277439 810.270163 2.6199 0.0021255 -4.2998 -0.0034884 -1.6799 -0.0013629 811.2768527443208 91.736 0.087036 91.819 91.767 91.854 0.082848 24 12 3 0 0 0 0.14267 1 47611 47611 2.5775 0 1 17061000 23299 5256 14957 15013 26908 26908 -0.14256149098059723 PESEEEDEME 10 Unmodified _PESEEEDEME_ 0 0 0 nc|ENSG00000113851|Q96SW2-2|CRBN nc|ENSG00000113851|Q96SW2-2|CRBN nc|ENSG00000113851|Q96SW2-2|CRBN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 612.2145385742188 2 612.216448 1222.41834 NaN NaN NaN NaN NaN NaN NaN 89.961 1 89.961 89.461 90.461 0 0 0 0 0.99774 1 47139 47139 3.5965 1.5367 1 23300 9598 14958 15014 26909 26909 -0.18396927425555987 PESFKDHRRVA 11 Unmodified _PESFKDHRRVA_ 0 0 0 nc|ENSG00000122482|Q9H582-2|ZNF644;ENSG00000122482|ENST00000337393|ZNF644 nc|ENSG00000122482|Q9H582-2|ZNF644 nc|ENSG00000122482|Q9H582-2|ZNF644 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 671.4122924804688 2 671.354742 1340.69493 NaN NaN NaN NaN NaN NaN NaN 80.601 1 80.601 80.101 81.101 0 0 0 0 0.97845 1 40046 40046 8.7454 0.58988 1 23301 2270 14959 15015 26910 26910 0.03821196434887497 PESGGFTHIFT 11 Unmodified _PESGGFTHIFT_ 0 0 0 ENSG00000136040|ENST00000258526|PLXNC1 ENSG00000136040|ENST00000258526|PLXNC1 ENSG00000136040|ENST00000258526|PLXNC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.19378662109375 3 398.192623 1191.55604 2.995 0.0011926 0.30608 0.00012188 3.3011 0.0013145 398.19280934043064 26.627 0.31832 26.892 26.751 27.07 0.26489 37 21 3 0 0 0 0.88721 1 12172 12172 1.2148 0 1 267480 23302 2919 14960 15016 26911 26911 -0.03207766253308364 PESTGTLVI 9 Unmodified _PESTGTLVI_ 0 0 0 REV__ENSG00000162745|ENST00000294794|OLFML2B REV__ENSG00000162745|ENST00000294794|OLFML2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 458.75408935546875 2 458.752933 915.491313 2.9192 0.0013392 0.30113 0.00013815 3.2204 0.0014773 458.7530105563015 54.897 0.28512 54.897 54.74 55.025 0 40 27 2 0 0 0 0.053453 1 25177 25177 60.39 9.5345 1 641180 + 23303 12958 14961 15017 26912 26912 0.030186589407207975 PESTGTLVI 9 Unmodified _PESTGTLVI_ 0 0 0 REV__ENSG00000162745|ENST00000294794|OLFML2B REV__ENSG00000162745|ENST00000294794|OLFML2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 458.75433349609375 2 458.752933 915.491313 2.5008 0.0011473 0.02826 1.2964E-05 2.5291 0.0011602 458.7529972517362 53.897 0.44249 54.692 54.477 54.919 0.79552 43 20 3 0 0 0 0.071132 1 24582 24582 53.576 9.1686 1 665820 + 23304 12958 14961 15017 26913 26913 0.030186589407207975 PESTGTLVI 9 Unmodified _PESTGTLVI_ 0 0 0 REV__ENSG00000162745|ENST00000294794|OLFML2B REV__ENSG00000162745|ENST00000294794|OLFML2B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 458.7542419433594 2 458.752933 915.491313 NaN NaN NaN NaN NaN NaN NaN 54.642 1 54.907 54.407 55.407 0.26543 0 0 0 0.46004 1 24976 24976 28.487 0 1 + 23305 12958 14961 15017 26914 26914 0.030186589407207975 PESTGTLVI 9 Unmodified _PESTGTLVI_ 0 0 0 REV__ENSG00000162745|ENST00000294794|OLFML2B REV__ENSG00000162745|ENST00000294794|OLFML2B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 458.752933 915.491313 2.9192 0.0013392 0.30113 0.00013815 3.2204 0.0014773 458.7530105563015 54.897 0.28512 54.897 54.74 55.025 0 0.14839 0.00013321 NaN 60.39 40 27 2 NaN NaN NaN NaN 0 NaN NaN 0 641180 + 23306 12958 14961 15017 0.030186589407207975 PESTGTLVI 9 Unmodified _PESTGTLVI_ 0 0 0 REV__ENSG00000162745|ENST00000294794|OLFML2B REV__ENSG00000162745|ENST00000294794|OLFML2B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 458.752933 915.491313 2.5008 0.0011473 0.02826 1.2964E-05 2.5291 0.0011602 458.7529972517362 53.897 0.44249 54.692 54.477 54.919 0.79552 -0.05644 -0.00011715 NaN 60.39 43 20 3 NaN NaN NaN NaN 0 NaN NaN 0 665820 + 23307 12958 14961 15017 0.030186589407207975 PESTGTLVI 9 Unmodified _PESTGTLVI_ 0 0 0 REV__ENSG00000162745|ENST00000294794|OLFML2B REV__ENSG00000162745|ENST00000294794|OLFML2B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 458.752933 915.491313 2.7719 0.0012716 0.13331 6.1158E-05 2.9052 0.0013328 458.75307426083555 53.99 0.097893 54.657 54.64 54.738 0.6665 -0.091946 -2.0767E-05 NaN 60.39 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 636870 + 23308 12958 14961 15017 0.030186589407207975 PESWKEHKPSS 11 Unmodified _PESWKEHKPSS_ 0 0 0 nc|ENSG00000106772|Q8WUY3-4|PRUNE2;ENSG00000106772|ENST00000376718|PRUNE2;nc|ENSG00000106772|Q8WUY3-2|PRUNE2;nc|ENSG00000106772|Q8WUY3-3|PRUNE2 nc|ENSG00000106772|Q8WUY3-4|PRUNE2 nc|ENSG00000106772|Q8WUY3-4|PRUNE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 656.6249389648438 2 656.320034 1310.62551 NaN NaN NaN NaN NaN NaN NaN 101.51 1 101.56 101.06 102.06 0.057198 0 0 0 1.0044 1 55120 55120 4.897 0.95262 1 23309 1582 14962 15018 26915 26915 -0.017373073045291676 PESWVQLIHRR 11 Unmodified _PESWVQLIHRR_ 0 0 0 REV__ENST00000477720.1_1_19:54818977-54822924:-|nuORF REV__ENST00000477720.1_1_19:54818977-54822924:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 710.8939819335938 2 710.894035 1419.77352 NaN NaN NaN NaN NaN NaN NaN 97.858 1 98.457 97.957 98.957 0.59885 0 0 0 1.0072 1 45039 45039 1.3295 0 1 + 23310 14088 14963 15019 26916 26916 0.08042048739957863 PETKKRKKRK 10 Unmodified _PETKKRKKRK_ 0 0 0 ENSG00000132382|ENST00000254718|MYBBP1A;nc|ENSG00000132382|Q9BQG0-2|MYBBP1A;ENST00000574934.5_1_17:4442712-4445225:-|nuORF;ENST00000574547.5_1_17:4442712-4447986:-|nuORF ENSG00000132382|ENST00000254718|MYBBP1A ENSG00000132382|ENST00000254718|MYBBP1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 649.9060668945312 2 649.922595 1297.83064 NaN NaN NaN NaN NaN NaN NaN 90.404 1 90.404 89.904 90.904 0 0 0 0 1.0001 1 47504 47504 1.6526 0.17072 1 23311 2696 14964 15020 26917 26917 0.19363516016346694 PETKKRKKRK 10 Unmodified _PETKKRKKRK_ 0 0 0 ENSG00000132382|ENST00000254718|MYBBP1A;nc|ENSG00000132382|Q9BQG0-2|MYBBP1A;ENST00000574934.5_1_17:4442712-4445225:-|nuORF;ENST00000574547.5_1_17:4442712-4447986:-|nuORF ENSG00000132382|ENST00000254718|MYBBP1A ENSG00000132382|ENST00000254718|MYBBP1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 649.9230346679688 2 649.922595 1297.83064 NaN NaN NaN NaN NaN NaN NaN 90.126 1 90.799 90.299 91.299 0.67271 0 0 0 1.0015 1 41484 41484 0.40072 0 1 23312 2696 14964 15020 26918 26918 0.19363516016346694 PETKYNGLV 9 Unmodified _PETKYNGLV_ 0 0 0 REV__UNK|p.N600Kfs*15|1|0.18|ENSG00000132478|chr17:75820071-75820071|C/-|frameshift_variant REV__UNK|p.N600Kfs*15|1|0.18|ENSG00000132478|chr17:75820071-75820071|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 340.8510437011719 3 340.850197 1019.52876 2.4397 0.00083157 0.26743 9.1153E-05 2.7071 0.00092272 340.85027152100133 17.626 0.41163 17.626 17.475 17.886 0 55 25 3 0 0 0 0.55815 1 7863 7863 11.495 1.3441 1 276260 + 23313 11894 14965 15021 26919 26919 0.019777502063334396 PETVPVWKYIR 11 Unmodified _PETVPVWKYIR_ 0 0 0 REV__ENST00000432926.2_1_12:122459901-122481985:+|nuORF REV__ENST00000432926.2_1_12:122459901-122481985:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 694.4495239257812 2 694.390262 1386.76597 NaN NaN NaN NaN NaN NaN NaN 89.903 1 89.903 89.403 90.403 0 0 0 0 1.0059 1 47090 47090 2.9952 1.5133 1 + 23314 11220 14966 15022 26920 26920 0.08805896419721648 PEVERRWWRRR 11 Unmodified _PEVERRWWRRR_ 0 0 0 ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 813.7498168945312 2 813.447831 1624.88111 NaN NaN NaN NaN NaN NaN NaN 89.345 1 89.345 88.845 89.845 0 0 0 0 1.0072 1 46632 46632 1.3295 1.3295 1 23315 6713 14967 15023 26921 26921 0.09366438394044962 PEVERRWWRRR 11 Unmodified _PEVERRWWRRR_ 0 0 0 ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 813.9236450195312 2 813.447831 1624.88111 NaN NaN NaN NaN NaN NaN NaN 91.849 1 91.932 91.432 92.432 0.082848 0 0 0 1.0072 1 47716 47716 1.3295 1.3295 1 23316 6713 14967 15023 26922 26922 0.09366438394044962 PEVERRWWRRR 11 Unmodified _PEVERRWWRRR_ 0 0 0 ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 813.8089599609375 2 813.447831 1624.88111 NaN NaN NaN NaN NaN NaN NaN 91.857 1 91.94 91.44 92.44 0.082848 0 0 0 1.0072 1 47725 47725 1.3295 0.9789 1 23317 6713 14967 15023 26923 26923 0.09366438394044962 PEVERRWWRRR 11 Unmodified _PEVERRWWRRR_ 0 0 0 ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 813.5616455078125 2 813.447831 1624.88111 NaN NaN NaN NaN NaN NaN NaN 98.711 1 98.777 98.277 99.277 0.066025 0 0 0 1.0082 1 53154 53154 0 0 1 23318 6713 14967 15023 26924 26924 0.09366438394044962 PEVETMSK 8 Unmodified _PEVETMSK_ 0 0 0 REV__ENSG00000238083|ENST00000576629|LRRC37A2 REV__ENSG00000238083|ENST00000576629|LRRC37A2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 920.3118896484375 1 920.43936 919.432083 3.3057 0.0030427 2.9403 0.0027063 6.2459 0.005749 920.4431427808082 89.083 0.079597 89.083 89.017 89.096 0 13 12 2 0 0 0 0.13348 1 46419 46419 10.824 2.9138 1 20977000 + 23319 13711 14968 15024 26925 26925 -0.030855603451186653 PEVHLLFH 8 Unmodified _PEVHLLFH_ 0 0 0 ENSG00000168575|ENST00000520262|SLC20A2 ENSG00000168575|ENST00000520262|SLC20A2 ENSG00000168575|ENST00000520262|SLC20A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.2733459472656 2 496.271627 990.528701 3.0243 0.0015009 0.21287 0.00010564 3.2372 0.0016065 496.27157722775763 44.845 0.33054 45.666 45.505 45.835 0.82074 37 14 3 0 0 0 0.5047 1 20461 20461 20.871 3.9289 1 1139600 23320 4636 14969 15025 26926 26926 0.03305794996992972 PEVHLLFH 8 Unmodified _PEVHLLFH_ 0 0 0 ENSG00000168575|ENST00000520262|SLC20A2 ENSG00000168575|ENST00000520262|SLC20A2 ENSG00000168575|ENST00000520262|SLC20A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.2735900878906 2 496.271627 990.528701 3.421 0.0016977 0.19867 9.8594E-05 3.6196 0.0017963 496.2715931004431 45.144 0.29896 45.795 45.639 45.938 0.65096 18 10 2 0 0 0 0.64692 1 20732 20732 10.183 0.83596 1 502100 23321 4636 14969 15025 26927 26927 0.03305794996992972 PEVITVSKTS 10 Unmodified _PEVITVSKTS_ 0 0 0 nc|ENSG00000038427|P13611-5|VCAN;ENSG00000038427|ENST00000265077|VCAN;nc|ENSG00000038427|P13611-3|VCAN nc|ENSG00000038427|P13611-5|VCAN nc|ENSG00000038427|P13611-5|VCAN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.7598876953125 2 530.797872 1059.58119 2.6336 0.0013979 -2.2849 -0.0012128 0.3487 0.00018509 530.7971869432624 86.944 0.06781 86.944 86.897 86.964 0 9 7 2 0 0 0 0.79369 1 44690 44690 8.7454 0.83525 1 12352000 23322 521 14970 15026 26928 26928 0.05378288549309218 PEVKRFTET 9 Unmodified _PEVKRFTET_ 0 0 0 REV__ENSG00000173546|ENST00000308508|CSPG4 REV__ENSG00000173546|ENST00000308508|CSPG4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.7955932617188 2 553.795663 1105.57677 NaN NaN NaN NaN NaN NaN NaN 95.391 1 95.659 95.159 96.159 0.2675 0 0 0 0.89683 1 43830 43830 4.3292 0 1 + 23323 13602 14971 15027 26929 26929 0.028208241263882883 PEVPHRAWHHY 11 Unmodified _PEVPHRAWHHY_ 0 0 0 ENST00000446382.2_1_9:6834522-6834825:+|nuORF ENST00000446382.2_1_9:6834522-6834825:+|nuORF ENST00000446382.2_1_9:6834522-6834825:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 714.8512573242188 2 714.849627 1427.6847 NaN NaN NaN NaN NaN NaN NaN 88.128 1 88.181 87.681 88.681 0.052155 0 0 0 1.0059 1 44818 44818 2.9952 0 1 23324 7973 14972 15028 26930 26930 -0.012033664996579319 PEVPIVRIFEL 11 Unmodified _PEVPIVRIFEL_ 0 0 0 REV__ENST00000487582.1_2_12:56226635-56226935:+|nuORF REV__ENST00000487582.1_2_12:56226635-56226935:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.928466796875 3 437.927218 1310.75982 2.7971 0.0012249 1.0268 0.00044966 3.8239 0.0016746 437.9275896916548 39.072 0.99592 39.87 39.338 40.334 0.79762 100 47 3 0 0 0 0.91149 1 17744 17744 0.36667 0 1 637470 + 23325 16603 14973 15029 26931 26931 0.11687378188184994 PEVPPLVQEV 10 Unmodified _PEVPPLVQEV_ 0 0 0 REV__ENSG00000133477|ENST00000333407|FAM83F REV__ENSG00000133477|ENST00000333407|FAM83F MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.4199829101562 2 553.808239 1105.60193 2.1872 0.0012113 3.8793 0.0021484 6.0665 0.0033597 554.3116569629691 94.231 0.025772 94.317 94.294 94.32 0.086212 4 2 2 0 0 0 0.83621 1 49506 49506 6.7232 0.99131 1 4370100 + 23326 11936 14974 15030 26932 26932 0.05334878928942999 PEVRKPFI 8 Unmodified _PEVRKPFI_ 0 0 0 nc|ENSG00000138658|Q86YA3-3|ZGRF1;nc|ENSG00000138658|Q86YA3-6|ZGRF1;ENST00000514770.5_1_4:113532004-113549797:-|nuORF;nc|ENSG00000138658|Q86YA3-5|ZGRF1;ENST00000264370.9_1_4:113529030-113554332:-|nuORF;nc|ENSG00000138658|Q86YA3-4|ZGRF1;ENSG00000138658|ENST00000505019|ZGRF1 nc|ENSG00000138658|Q86YA3-3|ZGRF1 nc|ENSG00000138658|Q86YA3-3|ZGRF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.29443359375 2 493.295102 984.575651 NaN NaN NaN NaN NaN NaN NaN 90.608 1 90.86 90.36 91.36 0.25158 0 0 0 0.99035 1 41665 41665 2.3027 0.24298 1 23327 3108 14975 15031 26933 26933 0.08274654548142735 PEVRKPFITVV 11 Unmodified _PEVRKPFITVV_ 0 0 0 nc|ENSG00000138658|Q86YA3-3|ZGRF1;nc|ENSG00000138658|Q86YA3-6|ZGRF1;ENST00000514770.5_1_4:113532004-113549797:-|nuORF;nc|ENSG00000138658|Q86YA3-5|ZGRF1;ENST00000264370.9_1_4:113529030-113554332:-|nuORF;nc|ENSG00000138658|Q86YA3-4|ZGRF1;ENSG00000138658|ENST00000505019|ZGRF1 nc|ENSG00000138658|Q86YA3-3|ZGRF1 nc|ENSG00000138658|Q86YA3-3|ZGRF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 642.9017944335938 2 642.887355 1283.76016 NaN NaN NaN NaN NaN NaN NaN 89.371 1 89.435 88.935 89.935 0.064346 0 0 0 1.0044 1 45792 45792 4.897 1.9018 1 23328 3108 14976 15032 26934 26934 0.1296279790801691 PEVVVRKKI 9 Unmodified _PEVVVRKKI_ 0 0 0 REV__ENSG00000116221|ENST00000360840|MRPL37 REV__ENSG00000116221|ENST00000360840|MRPL37 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.348876953125 2 534.350409 1066.68626 NaN NaN NaN NaN NaN NaN NaN 94.21 1 94.21 93.71 94.71 0 0 0 0 0.8984 1 50469 50469 3.9444 0.3479 1 + 23329 11400 14977 15033 26935 26935 0.15558874536372969 PEWAMWCYATD 11 Unmodified _PEWAMWCYATD_ 0 0 0 REV__nc|ENSG00000197177|Q86SQ6-2|ADGRA1 REV__nc|ENSG00000197177|Q86SQ6-2|ADGRA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 686.7728881835938 2 686.770474 1371.52639 NaN NaN NaN NaN NaN NaN NaN 6.8013 1 6.8013 6.3013 7.3013 0 0 0 0 1.008 1 3079 3079 0.30703 0 1 + 23330 14265 14978 15034 26936 26936 -0.14450789585293933 PEWEDGHFY 9 Unmodified _PEWEDGHFY_ 0 0 0 nc|ENSG00000175054|Q13535-2|ATR;nc|ENSG00000175054|Q13535-3|ATR;ENSG00000175054|ENST00000350721|ATR nc|ENSG00000175054|Q13535-2|ATR nc|ENSG00000175054|Q13535-2|ATR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.242919921875 2 590.240721 1178.46689 NaN NaN NaN NaN NaN NaN NaN 87.161 1 87.201 86.701 87.701 0.039955 0 0 0 0.89509 1 44050 44050 4.756 0.81161 1 23331 5010 14979 15035 26937 26937 -0.11520601212805559 PEWWMDYQKRY 11 Unmodified _PEWWMDYQKRY_ 0 0 0 ENSG00000181195|ENST00000451791|PENK ENSG00000181195|ENST00000451791|PENK ENSG00000181195|ENST00000451791|PENK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.2940673828125 3 534.578371 1600.71328 NaN NaN NaN NaN NaN NaN NaN 89.262 1 89.262 88.762 89.762 0 0 0 0 1.0072 1 46571 46571 0.45452 0.37117 1 23332 5283 14980 15036 26938 26938 -0.06304429705437542 PEWWMDYQKRY 11 Unmodified _PEWWMDYQKRY_ 0 0 0 ENSG00000181195|ENST00000451791|PENK ENSG00000181195|ENST00000451791|PENK ENSG00000181195|ENST00000451791|PENK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 534.4244384765625 3 534.578371 1600.71328 NaN NaN NaN NaN NaN NaN NaN 92.047 1 92.13 91.63 92.63 0.082848 0 0 0 1.0072 1 47866 47866 0.45452 0.35968 1 23333 5283 14980 15036 26939 26939 -0.06304429705437542 PEYHTRWYFKY 11 Unmodified _PEYHTRWYFKY_ 0 0 0 nc|ENSG00000136895|Q5VVW2-5|GARNL3;ENSG00000136895|ENST00000373387|GARNL3;nc|ENSG00000136895|Q5VVW2-3|GARNL3;nc|ENSG00000136895|Q5VVW2-2|GARNL3 nc|ENSG00000136895|Q5VVW2-5|GARNL3 nc|ENSG00000136895|Q5VVW2-5|GARNL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 795.5612182617188 2 795.380426 1588.7463 NaN NaN NaN NaN NaN NaN NaN 87.451 1 87.451 86.951 87.951 0 0 0 0 1.008 1 45104 45104 0.35063 0.081612 1 23334 2986 14981 15037 26940 26940 -0.024524795910792818 PEYPYLIPPCP 11 Unmodified _PEYPYLIPPCP_ 0 0 0 REV__LTR1F1_dup64|chr4:69041687-69042422:+|2.255451106523636|0.1032861701613835|4.45|537.0|2|1|sense REV__LTR1F1_dup64|chr4:69041687-69042422:+|2.255451106523636|0.1032861701613835|4.45|537.0|2|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.159912109375 2 644.81775 1287.62095 NaN NaN NaN NaN NaN NaN NaN 30.824 1 31.612 31.112 32.112 0.78879 0 0 0 1.0059 1 13923 13923 2.9952 0 1 + 23335 17823 14982 15038 26941 26941 -0.011359077716406318 PEYREWRLLIR 11 Unmodified _PEYREWRLLIR_ 0 0 0 REV__ENSG00000027644|ENST00000368195|INSRR REV__ENSG00000027644|ENST00000368195|INSRR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.5857849121094 3 510.95617 1529.84668 NaN NaN NaN NaN NaN NaN NaN 88.877 1 88.877 88.377 89.377 0 0 0 0 1.0072 1 46251 46251 1.3296 0.82369 1 + 23336 10281 14983 15039 26942 26942 0.10295177462603533 PEYRKRCKRCR 11 Unmodified _PEYRKRCKRCR_ 0 0 0 REV__nc|ENSG00000130813|Q9NUL5-3|SHFL REV__nc|ENSG00000130813|Q9NUL5-3|SHFL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 747.8994750976562 2 747.898271 1493.78199 NaN NaN NaN NaN NaN NaN NaN 92.148 1 92.148 91.648 92.648 0 0 0 0 1.0072 1 48884 48884 1.3295 0 1 + 23337 11833 14984 15040 26943 26943 0.054849561132868985 PFAKPLPTF 9 Unmodified _PFAKPLPTF_ 0 0 0 nc|ENSG00000183495|Q96L91-4|EP400;nc|ENSG00000183495|Q96L91-3|EP400;nc|ENSG00000183495|Q96L91-5|EP400;ENSG00000183495|ENST00000389561|EP400;nc|ENSG00000183495|Q96L91|EP400 nc|ENSG00000183495|Q96L91-4|EP400 nc|ENSG00000183495|Q96L91-4|EP400 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.2958068847656 2 509.292028 1016.5695 NaN NaN NaN NaN NaN NaN NaN 59.28 1 59.539 59.039 60.039 0.2593 0 0 0 0.11997 1 27146 27146 37.974 24.466 1 23338 5385 14985 15041 26944 26944 0.06188136316609416 PFALVAGSGPR 11 Unmodified _PFALVAGSGPR_ 0 0 0 REV__nc|ENSG00000125337|Q9UIL4-2|KIF25 REV__nc|ENSG00000125337|Q9UIL4-2|KIF25 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 358.2261657714844 3 357.869703 1070.58728 2.4321 0.00087038 1.7002 0.00060844 4.1323 0.0014788 357.8702371131768 67.816 0.25934 68.474 68.375 68.634 0.65777 22 14 2 0 0 0 0.89844 1 31052 31052 1.0136 0 1 575630 + 23339 11675 14986 15042 26945 26945 0.054808515714512396 PFCQRLFM 8 Unmodified _PFCQRLFM_ 0 0 0 ENST00000465553.5_1_X:154508114-154563754:-|nuORF;ENSG00000155962|ENST00000369449|CLIC2 ENST00000465553.5_1_X:154508114-154563754:-|nuORF ENST00000465553.5_1_X:154508114-154563754:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.255615234375 2 521.254065 1040.49358 NaN NaN NaN NaN NaN NaN NaN 49.35 1 50.177 49.677 50.677 0.82705 0 0 0 0.79116 1 22482 22482 19.439 0.18201 1 23340 3886 14987 15043 26946 26946 -0.025049071268085754 PFDFNMARS 9 Unmodified _PFDFNMARS_ 0 0 0 REV__nc|ENSG00000080823|Q9UQ07-6|MOK REV__nc|ENSG00000080823|Q9UQ07-6|MOK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.7490234375 2 542.747659 1083.48076 3.1269 0.0016971 -0.20195 -0.00010961 2.925 0.0015875 542.7477348297901 37.08 0.39126 37.874 37.691 38.082 0.79342 64 18 5 0 0 0 0.67336 1 16866 16866 9.3831 3.1773 1 13923000 + 23341 10600 14988 15044 26947 26947 -0.05763646985383275 PFERPEELVF 10 Unmodified _PFERPEELVF_ 0 0 0 REV__ENSG00000173572|ENST00000342929|NLRP13 REV__ENSG00000173572|ENST00000342929|NLRP13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.8880615234375 3 421.552039 1261.63429 3.1633 0.0013335 0.73809 0.00031114 3.9014 0.0016446 421.88673601626886 29.913 0.40808 30.171 29.933 30.341 0.25804 65 38 2 0 0 0 0.84738 1 13583 13583 6.1918 0.78914 1 457880 + 23342 13604 14989 15045 26948 26948 0.013936663319327636 PFFDDALLI 9 Unmodified _PFFDDALLI_ 0 0 0 REV__ENST00000227638.7_1_11:93913988-93914051:+|nuORF REV__ENST00000227638.7_1_11:93913988-93914051:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.7809448242188 2 525.778951 1049.54335 NaN NaN NaN NaN NaN NaN NaN 69.349 1 69.604 69.104 70.104 0.25443 0 0 0 0.52667 1 31760 31760 18.135 1.1927 1 + 23343 14839 14990 15046 26949 26949 0.02055822354486736 PFFIDYFFF 9 Unmodified _PFFIDYFFF_ 0 0 0 ENST00000246949.9_1_16:3704910-3705863:+|nuORF;ENST00000571460.5_1_16:3704910-3712757:+|nuORF ENST00000246949.9_1_16:3704910-3705863:+|nuORF ENST00000246949.9_1_16:3704910-3705863:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.867919921875 3 414.867188 1241.57973 3.0849 0.0012798 -0.88153 -0.00036572 2.2033 0.00091409 414.86690488507844 65.537 0.33678 66.194 66.033 66.37 0.65672 43 17 3 0 0 0 0.7295 1 30055 30055 5.2969 0 1 1413400 23344 6493 14991 15047 26950 26950 -0.03139300748830465 PFHIFFLLPYI 11 Unmodified _PFHIFFLLPYI_ 0 0 0 nc|ENSG00000115353|P25103-3|TACR1;ENSG00000115353|ENST00000305249|TACR1 nc|ENSG00000115353|P25103-3|TACR1 nc|ENSG00000115353|P25103-3|TACR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 703.8941040039062 2 703.897192 1405.77983 NaN NaN NaN NaN NaN NaN NaN 55.689 1 56.476 55.976 56.976 0.78711 0 0 0 1.0071 1 25431 25431 1.4819 0.41044 1 23345 1963 14992 15048 26951 26951 0.09317173918816479 PFHKLKLLSP 10 Unmodified _PFHKLKLLSP_ 0 0 0 REV__nc|ENSG00000108021|Q5VWN6-2|TASOR2 REV__nc|ENSG00000108021|Q5VWN6-2|TASOR2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.2340087890625 3 393.913131 1178.71756 2.919 0.0011498 0.34161 0.00013456 3.2606 0.0012844 393.91358922385655 47.881 0.27903 48.534 48.34 48.619 0.65356 19 12 2 0 0 0 0.12676 1 21855 21855 0.15932 0 1 353070 + 23346 11135 14993 15049 26952 26952 0.13535447570461656 PFHLFRLLIQ 10 Unmodified _PFHLFRLLIQ_ 0 0 0 ENST00000486274.5_1_3:99980342-100042509:+|nuORF;nc|ENSG00000036054|Q9NUY8-2|TBC1D23;ENSG00000036054|ENST00000394144|TBC1D23 ENST00000486274.5_1_3:99980342-100042509:+|nuORF ENST00000486274.5_1_3:99980342-100042509:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 642.3848876953125 2 642.384783 1282.75501 NaN NaN NaN NaN NaN NaN NaN 61.518 1 61.771 61.271 62.271 0.25245 0 0 0 1.0001 1 28172 28172 1.6526 0.17072 1 23347 513 14994 15050 26953 26953 0.12494538836108404 PFIGDRDY 8 Unmodified _PFIGDRDY_ 0 0 0 REV__ENST00000430246.6_1_14:21730764-21730995:-|nuORF REV__ENST00000430246.6_1_14:21730764-21730995:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.4566345214844 2 491.735074 981.455596 NaN NaN NaN NaN NaN NaN NaN 78.954 1 79.616 79.116 80.116 0.66198 0 0 0 0.97647 1 36382 36382 7.2892 0.56607 1 + 23348 16250 14995 15051 26954 26954 -0.03587378516294848 PFILGSRPTIR 11 Unmodified _PFILGSRPTIR_ 0 0 0 ENST00000381657.7_3_X:198142-200852:+|nuORF;ENST00000429181.6_2_X:197869-200852:+|nuORF ENST00000381657.7_3_X:198142-200852:+|nuORF ENST00000381657.7_3_X:198142-200852:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 419.3435974121094 3 419.587307 1255.74009 NaN NaN NaN NaN NaN NaN NaN 60.975 1 61.714 61.214 62.214 0.7396 0 0 0 1.0046 1 28217 28217 4.7159 0.59929 1 23349 7488 14996 15052 26955 26955 0.12245046968087081 PFIPALPKWGI 11 Unmodified _PFIPALPKWGI_ 0 0 0 REV__ENSG00000179270|ENST00000331664|PCARE REV__ENSG00000179270|ENST00000331664|PCARE MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.8722534179688 2 619.868434 1237.72232 NaN NaN NaN NaN NaN NaN NaN 90.825 1 91.076 90.576 91.576 0.25163 0 0 0 1.0071 1 41762 41762 1.4819 1.0236 1 + 23350 13792 14997 15053 26956 26956 0.11296331713197105 PFIPINRGV 9 Unmodified _PFIPINRGV_ 0 0 0 REV__ENSG00000182901|ENST00000440928|RGS7 REV__ENSG00000182901|ENST00000440928|RGS7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.20465087890625 3 338.202793 1011.58655 NaN NaN NaN NaN NaN NaN NaN 47.688 1 47.952 47.452 48.452 0.26363 0 0 0 0.91014 1 21797 21797 1.0715 0 1 + 23351 13911 14998 15054 26957 26957 0.08122056922422871 PFIPINRGV 9 Unmodified _PFIPINRGV_ 0 0 0 REV__ENSG00000182901|ENST00000440928|RGS7 REV__ENSG00000182901|ENST00000440928|RGS7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.2041931152344 3 338.202793 1011.58655 NaN NaN NaN NaN NaN NaN NaN 44.9 1 45.55 45.05 46.05 0.64998 0 0 0 0.90335 1 20577 20577 2.7352 0 1 + 23352 13911 14998 15054 26958 26958 0.08122056922422871 PFIPKLFKFE 10 Unmodified _PFIPKLFKFE_ 0 0 0 REV__ENSG00000081818|ENST00000194152|PCDHB4 REV__ENSG00000081818|ENST00000194152|PCDHB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5834655761719 3 422.58127 1264.72198 3.7637 0.0015905 0.5744 0.00024273 4.3381 0.0018332 422.5814382082145 104.66 0.46444 104.98 104.81 105.28 0.31863 193 90 3 0 0 0 0.94217 1 48373 48373 0.77653 0.61721 1 1187400 + 23353 10611 14999 15055 26959 26959 0.10020911993365189 PFIRRRLD 8 Unmodified _PFIRRRLD_ 0 0 0 REV__nc|ENSG00000178385|Q6ZWE6-2|PLEKHM3 REV__nc|ENSG00000178385|Q6ZWE6-2|PLEKHM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 358.2159729003906 3 358.217325 1071.63015 NaN NaN NaN NaN NaN NaN NaN 12.49 1 13.133 12.633 13.633 0.64272 0 0 0 0.99035 1 5602 5602 4.3292 1.0479 1 + 23354 13760 15000 15056 26960 26960 0.09719666419550776 PFIVKVGP 8 Unmodified _PFIVKVGP_ 0 0 0 REV__nc|ENSG00000177595|Q9HB75-7|PIDD1 REV__nc|ENSG00000177595|Q9HB75-7|PIDD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 428.5290222167969 2 428.768189 855.521825 NaN NaN NaN NaN NaN NaN NaN 73.572 1 73.572 73.072 74.072 0 0 0 0 0.99035 1 35887 35887 5.2307 0 1 + 23355 13740 15001 15057 26961 26961 0.08828482116427949 PFKLVTTIVKA 11 Unmodified _PFKLVTTIVKA_ 0 0 0 REV__nc|ENSG00000144674|Q13439-3|GOLGA4 REV__nc|ENSG00000144674|Q13439-3|GOLGA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.2496643066406 3 406.260308 1215.7591 NaN NaN NaN NaN NaN NaN NaN 94.094 1 94.725 94.225 95.225 0.63115 0 0 0 1.0072 1 43277 43277 0.45452 0 1 + 23356 12411 15002 15058 26962 26962 0.15984583539147934 PFLEVKKKK 9 Unmodified _PFLEVKKKK_ 0 0 0 ENST00000247001.9_1_19:19431403-19431535:-|nuORF ENST00000247001.9_1_19:19431403-19431535:-|nuORF ENST00000247001.9_1_19:19431403-19431535:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.78125 2 558.860609 1115.70667 NaN NaN NaN NaN NaN NaN NaN 58.292 1 59.051 58.551 59.551 0.75894 0 0 0 0.8984 1 26732 26732 3.9444 0.66309 1 23357 6494 15003 15059 26963 26963 0.1534404519616146 PFLFMLTP 8 Unmodified _PFLFMLTP_ 0 0 0 REV__ENST00000378204.6_1_8:119122534-119122684:-|nuORF REV__ENST00000378204.6_1_8:119122534-119122684:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.2610778808594 2 483.261882 964.509211 NaN NaN NaN NaN NaN NaN NaN 83.137 1 83.797 83.297 84.297 0.66019 0 0 0 0.99035 1 38295 38295 6.3541 0 1 + 23358 15847 15004 15060 26964 26964 0.025537026618621894 PFLIIVPL 8 Unmodified _PFLIIVPL_ 0 0 0 ENST00000592604.5_1_19:11123597-11172489:+|nuORF;nc|ENSG00000127616|P51532-5|SMARCA4;nc|ENSG00000127616|P51532-2|SMARCA4;nc|ENSG00000127616|P51532-3|SMARCA4;nc|ENSG00000127616|P51532-4|SMARCA4;ENSG00000127616|ENST00000344626|SMARCA4 ENST00000592604.5_1_19:11123597-11172489:+|nuORF ENST00000592604.5_1_19:11123597-11172489:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 304.5375671386719 3 304.537002 910.589176 2.0317 0.00061874 -0.75329 -0.00022941 1.2784 0.00038933 304.53668413445587 26.214 0.24148 26.839 26.717 26.959 0.62505 24 13 2 0 0 0 0.14333 1 12011 12011 0 0 1 347820 23359 2488 15005 15061 26965 26965 0.1303051232736152 PFLIIVPL 8 Unmodified _PFLIIVPL_ 0 0 0 ENST00000592604.5_1_19:11123597-11172489:+|nuORF;nc|ENSG00000127616|P51532-5|SMARCA4;nc|ENSG00000127616|P51532-2|SMARCA4;nc|ENSG00000127616|P51532-3|SMARCA4;nc|ENSG00000127616|P51532-4|SMARCA4;ENSG00000127616|ENST00000344626|SMARCA4 ENST00000592604.5_1_19:11123597-11172489:+|nuORF ENST00000592604.5_1_19:11123597-11172489:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 304.537002 910.589176 2.2177 0.00067537 -1.1326 -0.00034493 1.0851 0.00033045 304.5365481651869 26.369 0.57635 27.148 26.83 27.406 0.7787 0.14718 -0.00014336 NaN 0 88 44 3 NaN NaN NaN NaN 0 NaN NaN 0 559690 23360 2488 15005 15061 0.1303051232736152 PFLLVIRPQ 9 Unmodified _PFLLVIRPQ_ 0 0 0 REV__nc|ENSG00000205726|Q15811-5|ITSN1 REV__nc|ENSG00000205726|Q15811-5|ITSN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.84033203125 2 541.839677 1081.6648 NaN NaN NaN NaN NaN NaN NaN 84.128 1 84.376 83.876 84.876 0.24757 0 0 0 0.72654 1 38722 38722 11.64 0 1 + 23361 18114 15006 15062 26966 26966 0.1272348950765263 PFLPLHVKTTL 11 Unmodified _PFLPLHVKTTL_ 0 0 0 REV__ENST00000472189.1_1_17:15960700-15961247:-|nuORF REV__ENST00000472189.1_1_17:15960700-15961247:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.0265197753906 3 422.592058 1264.75434 3.0499 0.0012888 0.90901 0.00038414 3.9589 0.001673 422.92679881528 48.859 0.7064 49.121 48.762 49.469 0.26209 52 28 2 0 0 0 0.13295 1 22298 22298 1.2148 0 1 919200 + 23362 16614 15007 15063 26967 26967 0.13255699396381715 PFLVKVGLH 9 Unmodified _PFLVKVGLH_ 0 0 0 REV__nc|ENSG00000073146|Q9BXT6-5|MOV10L1 REV__nc|ENSG00000073146|Q9BXT6-5|MOV10L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.94171142578125 2 505.313295 1008.61204 NaN NaN NaN NaN NaN NaN NaN 63.562 1 64.22 63.72 64.72 0.65809 0 0 0 0.90611 1 29129 29129 2.0598 0 1 + 23363 10501 15008 15064 26968 26968 0.10807531444845608 PFNKVLFVL 9 Unmodified _PFNKVLFVL_ 0 0 0 REV__ENSG00000071894|ENST00000616140|CPSF1 REV__ENSG00000071894|ENST00000616140|CPSF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.8286743164062 2 538.828778 1075.643 NaN NaN NaN NaN NaN NaN NaN 40.828 1 41.473 40.973 41.973 0.64451 0 0 0 0.35622 1 18665 18665 24.674 3.1369 1 + 23364 10484 15009 15065 26969 26969 0.10820684759096366 PFPFREASI 9 Unmodified _PFPFREASI_ 0 0 0 ENST00000216133.9_1_22:39529304-39529448:-|nuORF ENST00000216133.9_1_22:39529304-39529448:-|nuORF ENST00000216133.9_1_22:39529304-39529448:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.7849731445312 2 532.282192 1062.54983 3.2598 0.0017352 -0.011983 -6.3782E-06 3.2479 0.0017288 532.282140335694 60.457 0.81077 61.12 60.788 61.599 0.66261 96 41 3 0 0 0 0.59921 1 27554 27554 10.824 0 1 2271800 23365 6402 15010 15066 26970 26970 0.021057603058579843 PFPPLPLQP 9 Unmodified _PFPPLPLQP_ 0 0 0 ENSG00000157741|ENST00000473989|UBN2;nc|ENSG00000157741|Q6ZU65-2|UBN2;UBN2|p.D255Vfs*18|1|0.02|ENSG00000157741|chr7:139258586-139258587|-/GT|frameshift_variant ENSG00000157741|ENST00000473989|UBN2 ENSG00000157741|ENST00000473989|UBN2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 503.2729187011719 2 503.292028 1004.5695 3.0752 0.0015477 0.3147 0.00015839 3.3899 0.0017061 503.2921638025889 49.068 0.23657 49.068 48.918 49.154 0 28 12 3 0 0 0 0.056326 1 22488 22488 21.747 3.6117 1 1109800 23366 3960 15011 15067 26971 26971 0.06740136316614098 PFPPLPLQP 9 Unmodified _PFPPLPLQP_ 0 0 0 ENSG00000157741|ENST00000473989|UBN2;nc|ENSG00000157741|Q6ZU65-2|UBN2;UBN2|p.D255Vfs*18|1|0.02|ENSG00000157741|chr7:139258586-139258587|-/GT|frameshift_variant ENSG00000157741|ENST00000473989|UBN2 ENSG00000157741|ENST00000473989|UBN2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.2733459472656 2 503.292028 1004.5695 3.0263 0.0015231 0.30404 0.00015302 3.3303 0.0016761 503.29205750831716 47.949 0.29353 48.778 48.642 48.935 0.82915 29 12 3 0 0 0 0.084995 1 21873 21873 18.135 5.6034 1 653040 23367 3960 15011 15067 26972 26972 0.06740136316614098 PFPQSFSE 8 Unmodified _PFPQSFSE_ 0 0 0 ENST00000368073.7_1_1:160231091-160231921:-|nuORF ENST00000368073.7_1_1:160231091-160231921:-|nuORF ENST00000368073.7_1_1:160231091-160231921:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.71868896484375 2 469.71635 937.418148 2.2285 0.0010468 1.0928 0.0005133 3.3213 0.0015601 469.716807674157 74.008 0.27135 74.008 73.834 74.105 0 45 29 2 0 0 0 0.61796 1 36091 36091 12.532 0 1 1469400 23368 7273 15012 15068 26973 26973 -0.05306469781896794 PFPQSFSE 8 Unmodified _PFPQSFSE_ 0 0 0 ENST00000368073.7_1_1:160231091-160231921:-|nuORF ENST00000368073.7_1_1:160231091-160231921:-|nuORF ENST00000368073.7_1_1:160231091-160231921:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.7186584472656 2 469.71635 937.418148 2.3315 0.0010951 0.93823 0.0004407 3.2697 0.0015358 469.71686678901955 73.07 0.35926 73.769 73.657 74.016 0.69881 51 35 2 0 0 0 0.61796 1 35293 35293 12.532 0 1 941440 23369 7273 15012 15068 26974 26974 -0.05306469781896794 PFPQSFSE 8 Unmodified _PFPQSFSE_ 0 0 0 ENST00000368073.7_1_1:160231091-160231921:-|nuORF ENST00000368073.7_1_1:160231091-160231921:-|nuORF ENST00000368073.7_1_1:160231091-160231921:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 469.71635 937.418148 2.3535 0.0011055 0.9956 0.00046765 3.3491 0.0015731 469.7171308405074 73.221 0.044571 73.885 73.874 73.918 0.66398 0.0025569 -1.7913E-05 NaN 12.532 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 475590 23370 7273 15012 15068 -0.05306469781896794 PFQNRQFC 8 Unmodified _PFQNRQFC_ 0 0 0 REV__ENSG00000101310|ENST00000650089|SEC23B REV__ENSG00000101310|ENST00000650089|SEC23B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1041.49169921875 1 1039.47781 1038.47053 3.0732 0.0031945 -0.3021 -0.00031403 2.7711 0.0028805 1039.476874164703 70.568 0.37126 71.23 71.004 71.375 0.66209 54 21 3 0 0 0 0.65723 1 32406 32406 9.3474 0 1 1423800 + 23371 10885 15013 15069 26975 26975 -0.047162099199340446 PFQTPCHFE 9 Unmodified _PFQTPCHFE_ 0 0 0 nc|ENSG00000119684|Q9UHC1-2|MLH3;ENSG00000119684|ENST00000355774|MLH3 nc|ENSG00000119684|Q9UHC1-2|MLH3 nc|ENSG00000119684|Q9UHC1-2|MLH3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.2448120117188 2 553.242209 1104.46987 3.3542 0.0018557 0.20844 0.00011532 3.5627 0.001971 553.2423794517628 63.628 0.27123 63.876 63.719 63.99 0.24803 23 14 2 0 0 0 0.16976 1 29140 29140 25.399 25.399 1 833560 23372 2156 15014 15070 26976 26976 -0.07819049359659402 PFRKRPPIRR 10 Unmodified _PFRKRPPIRR_ 0 0 0 ENST00000533277.5_1_11:66610677-66610866:+|nuORF ENST00000533277.5_1_11:66610677-66610866:+|nuORF ENST00000533277.5_1_11:66610677-66610866:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.4631652832031 4 331.462462 1321.82074 1.7653 0.00058514 1.0209 0.00033838 2.7862 0.00092352 331.4627099736616 70.959 0.18651 71.663 71.512 71.699 0.70387 28 22 2 0 0 0 0.93713 1 34005 34005 1.7423 1.7423 1 1269800 23373 8744 15015 15071 26977 26977 0.1727037280161312 PFRKRPPIRR 10 Unmodified _PFRKRPPIRR_ 0 0 0 ENST00000533277.5_1_11:66610677-66610866:+|nuORF ENST00000533277.5_1_11:66610677-66610866:+|nuORF ENST00000533277.5_1_11:66610677-66610866:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 331.462462 1321.82074 2.1574 0.00071511 0.80985 0.00026843 2.9673 0.00098354 331.462721001302 71.508 0.12379 71.766 71.693 71.817 0.25786 -0.0087382 -0.00014406 NaN 1.7423 15 8 2 NaN NaN NaN NaN 0 NaN NaN 0 1889700 23374 8744 15015 15071 0.1727037280161312 PFRKRPPIRR 10 Unmodified _PFRKRPPIRR_ 0 0 0 ENST00000533277.5_1_11:66610677-66610866:+|nuORF ENST00000533277.5_1_11:66610677-66610866:+|nuORF ENST00000533277.5_1_11:66610677-66610866:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 331.462462 1321.82074 1.6897 0.00056006 0.39356 0.00013045 2.0832 0.00069051 331.7133632133083 71.232 0.067947 71.894 71.841 71.909 0.66208 0.12013 -0.00069599 NaN 1.7423 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 182220 23375 8744 15015 15071 0.1727037280161312 PFRPMLRKPGK 11 Unmodified _PFRPMLRKPGK_ 0 0 0 nc|ENSG00000158321|Q8WXX7-5|AUTS2;nc|ENSG00000158321|Q8WXX7-2|AUTS2;ENSG00000158321|ENST00000342771|AUTS2 nc|ENSG00000158321|Q8WXX7-5|AUTS2 nc|ENSG00000158321|Q8WXX7-5|AUTS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.8980712890625 2 663.894992 1325.77543 4.4501 0.0029544 0.40888 0.00027145 4.859 0.0032259 663.8949656414477 94.585 0.66898 94.845 94.569 95.238 0.25975 63 37 2 0 0 0 0.91345 1 43462 43462 0.30703 0 1 861090 23376 3981 15016 15072 26978 26978 0.12557386224239053 PFRPQHDNI 9 Unmodified _PFRPQHDNI_ 0 0 0 REV__ENSG00000113555|ENST00000231484|PCDH12 REV__ENSG00000113555|ENST00000231484|PCDH12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.2852172851562 2 562.285797 1122.55704 NaN NaN NaN NaN NaN NaN NaN 52.883 1 53.548 53.048 54.048 0.6644 0 0 0 0.84134 1 24184 24184 7.9102 0.62092 1 + 23377 11301 15017 15073 26979 26979 0.0006649290628502058 PFSDHLDK 8 Unmodified _PFSDHLDK_ 0 0 0 REV__ENSG00000183439|ENST00000710271|TRIM61 REV__ENSG00000183439|ENST00000710271|TRIM61 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.4569396972656 2 479.735074 957.455596 2.6814 0.0012863 0.026355 1.2643E-05 2.7077 0.001299 479.7350554128967 54.997 0.50657 55.785 55.58 56.086 0.78711 73 33 3 0 0 0 0.64692 1 25215 25215 10.183 3.8293 1 1304500 + 23378 13932 15018 15074 26980 26980 -0.024833785162854838 PFSGKSFYL 9 Unmodified _PFSGKSFYL_ 0 0 0 ENST00000526915.5_1_17:42786185-42811460:+|nuORF;nc|ENSG00000161692|Q8NFT6-4|DBF4B;ENST00000528766.5_1_17:42786185-42808425:+|nuORF;nc|ENSG00000161692|Q8NFT6-2|DBF4B;ENSG00000161692|ENST00000315005|DBF4B ENST00000526915.5_1_17:42786185-42811460:+|nuORF ENST00000526915.5_1_17:42786185-42811460:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.2738647460938 2 523.271293 1044.52803 3.3544 0.0017552 0.70985 0.00037144 4.0642 0.0021267 523.2717848915617 55.44 0.34075 56.108 55.975 56.316 0.66797 25 14 2 0 0 0 0.27958 1 25431 25431 18.146 0 1 1266500 23379 4102 15019 15075 26981 26981 0.007549555572722966 PFSPLAPEPVL 11 Unmodified _PFSPLAPEPVL_ 0 0 0 nc|nan|Q6UWU4-2|C6orf89;ENSG00000198663|ENST00000480824|C6orf89 nc|nan|Q6UWU4-2|C6orf89 nc|nan|Q6UWU4-2|C6orf89 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.8283081054688 2 583.826432 1165.63831 NaN NaN NaN NaN NaN NaN NaN 83.88 1 84.542 84.042 85.042 0.66219 0 0 0 0.015452 1 38635 38635 62.573 43.316 1 23380 5911 15020 15076 26982 26982 0.06211755825665932 PFTHPSFEM 9 Unmodified _PFTHPSFEM_ 0 0 0 ENSG00000145982|ENST00000274680|FARS2 ENSG00000145982|ENST00000274680|FARS2 ENSG00000145982|ENST00000274680|FARS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.748291015625 2 546.744585 1091.47462 NaN NaN NaN NaN NaN NaN NaN 67.853 1 68.106 67.606 68.606 0.25227 0 0 0 0.66907 1 31082 31082 13.508 2.684 1 23381 3499 15021 15077 26983 26983 -0.06746165216895861 PFVCDDCSGI 10 Unmodified _PFVCDDCSGI_ 0 0 0 ENST00000521895.5_1_8:82627348-82633490:-|nuORF;ENST00000520076.5_1_8:82627348-82633313:-|nuORF;ENST00000522520.5_1_8:82627348-82633516:-|nuORF;ENST00000517353.5_1_8:82627029-82645114:-|nuORF;ENST00000519820.5_1_8:82626874-82633516:-|nuORF;nc|ENSG00000104231|Q8TCF1-4|ZFAND1;nc|ENSG00000104231|Q8TCF1-3|ZFAND1;ENSG00000104231|ENST00000220669|ZFAND1 ENST00000521895.5_1_8:82627348-82633490:-|nuORF ENST00000521895.5_1_8:82627348-82633490:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.2100830078125 2 528.21226 1054.40997 NaN NaN NaN NaN NaN NaN NaN 57.214 1 57.214 56.714 57.714 0 0 0 0 0.99687 1 26364 26364 4.3292 0 1 23382 1431 15022 15078 26984 26984 -0.11506108085177402 PFVDHVFTF 9 Unmodified _PFVDHVFTF_ 0 0 0 ENSG00000113460|ENST00000336767|BRIX1 ENSG00000113460|ENST00000336767|BRIX1 ENSG00000113460|ENST00000336767|BRIX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.7779541015625 2 554.776742 1107.53893 2.9354 0.0016285 1.2561 0.00069687 4.1915 0.0023254 554.7771827076144 75.261 0.22163 75.261 75.154 75.376 0 34 20 2 0 0 0 0.0044949 2 36861 36861;36910 92.822 52.865 1 2208700 23383 1856 15023 15079 26985;26986 26985 -0.010536420684275072 PFVDHVFTF 9 Unmodified _PFVDHVFTF_ 0 0 0 ENSG00000113460|ENST00000336767|BRIX1 ENSG00000113460|ENST00000336767|BRIX1 ENSG00000113460|ENST00000336767|BRIX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 555.2822265625 2 554.776742 1107.53893 2.7983 0.0015524 -0.51012 -0.000283 2.2882 0.0012694 554.7762159833462 74.381 0.26316 75.067 74.889 75.152 0.68662 30 19 2 0 0 0 0.032303 1 35974 35974 54.774 37.831 1 1607800 23384 1856 15023 15079 26987 26987 -0.010536420684275072 PFVDHVFTF 9 Unmodified _PFVDHVFTF_ 0 0 0 ENSG00000113460|ENST00000336767|BRIX1 ENSG00000113460|ENST00000336767|BRIX1 ENSG00000113460|ENST00000336767|BRIX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.7788696289062 2 554.776742 1107.53893 3.2561 0.0018064 -0.10685 -5.9277E-05 3.1492 0.0017471 554.7767794061938 75.093 0.23028 75.352 75.222 75.453 0.2583 37 21 2 0 0 0 0.010221 2 34568 34518;34568 81.613 52.531 1 942610 23385 1856 15023 15079 26988;26989 26989 -0.010536420684275072 PFVDHVFTF 9 Unmodified _PFVDHVFTF_ 0 0 0 ENSG00000113460|ENST00000336767|BRIX1 ENSG00000113460|ENST00000336767|BRIX1 ENSG00000113460|ENST00000336767|BRIX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.7767944335938 2 554.776742 1107.53893 3.0455 0.0016896 -0.59016 -0.0003274 2.4554 0.0013622 554.7767413513801 74.545 0.27293 75.209 75.103 75.376 0.6644 33 28 2 0 0 0 0.023109 1 34316 34316 64.236 35.749 1 813840 23386 1856 15023 15079 26990 26990 -0.010536420684275072 PFVEKEGNK 9 Unmodified _PFVEKEGNK_ 0 0 0 REV__ENSG00000156853|ENST00000287461|ZNF689 REV__ENSG00000156853|ENST00000287461|ZNF689 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.2794799804688 2 524.277106 1046.53966 3.0537 0.001601 -0.45282 -0.0002374 2.6009 0.0013636 524.2769215186238 45.928 0.53167 45.928 45.659 46.19 0 42 26 3 0 0 0 0.136 2 21002 21002;21109 27.629 2.6378 1 1387700 + 23387 12785 15024 15080 26991;26992 26991 0.01825152580613576 PFVEKEGNK 9 Unmodified _PFVEKEGNK_ 0 0 0 REV__ENSG00000156853|ENST00000287461|ZNF689 REV__ENSG00000156853|ENST00000287461|ZNF689 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.2785034179688 2 524.277106 1046.53966 3.239 0.0016982 -0.2588 -0.00013568 2.9802 0.0015625 524.2769930676942 44.816 0.51882 45.637 45.444 45.963 0.82075 44 25 2 0 0 0 0.136 3 20379 20379;20435;20505 27.629 2.6378 1 1025900 + 23388 12785 15024 15080 26993;26994;26995 26993 0.01825152580613576 PFVEKEGNK 9 Unmodified _PFVEKEGNK_ 0 0 0 REV__ENSG00000156853|ENST00000287461|ZNF689 REV__ENSG00000156853|ENST00000287461|ZNF689 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.278564453125 2 524.277106 1046.53966 3.5257 0.0018484 -0.088837 -4.6575E-05 3.4368 0.0018019 524.2771299883627 45.071 0.69729 45.721 45.515 46.212 0.64998 69 29 3 0 0 0 0.093314 2 20602 20602;20727 34.402 2.6378 1 1716300 + 23389 12785 15024 15080 26996;26997 26996 0.01825152580613576 PFVKLKLLHL 10 Unmodified _PFVKLKLLHL_ 0 0 0 REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 302.70465087890625 4 302.703589 1206.78525 2.0168 0.00061051 1.3561 0.00041049 3.3729 0.001021 302.7039371159944 57.25 0.23542 57.25 57.182 57.417 0 39 21 2 0 0 0 0.94099 1 26417 26417 0.69767 0.53834 1 1741100 + 23390 11619 15025 15081 26998 26998 0.19012897501283987 PFVKLKLLHL 10 Unmodified _PFVKLKLLHL_ 0 0 0 REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 403.26812744140625 3 403.269027 1206.78525 2.9849 0.0012037 0.35032 0.00014127 3.3353 0.001345 403.6036556046893 56.201 0.29153 56.869 56.73 57.021 0.66829 33 18 2 0 0 0 0.94099 1 25716 25716 0.69767 0.53834 1 784030 + 23391 11619 15025 15081 26999 26999 0.19012897501283987 PFVKLKLLHL 10 Unmodified _PFVKLKLLHL_ 0 0 0 REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 302.703589 1206.78525 2.0168 0.00061051 1.3561 0.00041049 3.3729 0.001021 302.7039371159944 57.25 0.23542 57.25 57.182 57.417 0 0.11279 -0.00047004 NaN 0.69767 39 21 2 NaN NaN NaN NaN 0 NaN NaN 0 1741100 + 23392 11619 15025 15081 0.19012897501283987 PFVKLKLLHL 10 Unmodified _PFVKLKLLHL_ 0 0 0 REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 403.269027 1206.78525 2.9355 0.0011838 0.51787 0.00020884 3.4533 0.0013926 403.2690116244775 56.936 0.17731 57.2 57.077 57.254 0.26444 0.16551 0.00013166 NaN 0.69767 12 6 2 NaN NaN NaN NaN 0 NaN NaN 0 1127700 + 23393 11619 15025 15081 0.19012897501283987 PFVKLKLLHL 10 Unmodified _PFVKLKLLHL_ 0 0 0 REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 302.703589 1206.78525 2.1538 0.00065198 1.998 0.0006048 4.1518 0.0012568 302.70426545548315 56.924 0.24075 57.189 57.051 57.292 0.26444 0.05193 0.00030718 NaN 0.69767 22 9 3 NaN NaN NaN NaN 0 NaN NaN 0 2042800 + 23394 11619 15025 15081 0.19012897501283987 PFVLRSQT 8 Unmodified _PFVLRSQT_ 0 0 0 REV__ENST00000417038.1_1_2:175352160-175352238:+|nuORF REV__ENST00000417038.1_1_2:175352160-175352238:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.27130126953125 2 474.269084 946.523616 NaN NaN NaN NaN NaN NaN NaN 59.619 1 59.619 59.119 60.119 0 0 0 0 0.94507 1 27568 27568 9.3474 0.75416 1 + 23395 16139 15026 15082 27000 27000 0.048214911343848144 PFVQLRPLS 9 Unmodified _PFVQLRPLS_ 0 0 0 ENSG00000116685|ENST00000376572|KIAA2013;nc|ENSG00000116685|Q8IYS2-2|KIAA2013 ENSG00000116685|ENST00000376572|KIAA2013 ENSG00000116685|ENST00000376572|KIAA2013 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.87933349609375 3 352.878198 1055.61277 2.781 0.00098134 1.0141 0.00035785 3.7951 0.0013392 352.8784250546624 41.178 0.21614 41.447 41.38 41.596 0.26904 27 20 2 0 0 0 1.0246 1 18797 18797 2.086 0 1 1772600 23396 2040 15027 15083 27001 27001 0.08718326093890028 PFWGREAL 8 Unmodified _PFWGREAL_ 0 0 0 ENST00000336798.11_2_1:31345628-31345688:-|nuORF ENST00000336798.11_2_1:31345628-31345688:-|nuORF ENST00000336798.11_2_1:31345628-31345688:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 488.25640869140625 2 488.255977 974.497401 NaN NaN NaN NaN NaN NaN NaN 54.058 1 54.854 54.354 55.354 0.79552 0 0 0 0.99035 1 24666 24666 2.8892 0 1 23397 7034 15028 15084 27002 27002 0.009132219628781968 PFWLVRWL 8 Unmodified _PFWLVRWL_ 0 0 0 nc|ENSG00000100258|Q9BU23-3|LMF2;nc|ENSG00000100258|Q9BU23-2|LMF2;ENSG00000100258|ENST00000474879|LMF2 nc|ENSG00000100258|Q9BU23-3|LMF2 nc|ENSG00000100258|Q9BU23-3|LMF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.8234252929688 2 558.821287 1115.62802 NaN NaN NaN NaN NaN NaN NaN 58.063 1 58.831 58.331 59.331 0.76861 0 0 0 0.91812 1 26617 26617 11.114 2.5212 1 23398 1197 15029 15085 27003 27003 0.07483237681753963 PFYDKPMRI 9 Unmodified _PFYDKPMRI_ 0 0 0 ENST00000598923.1_1_19:41257313-41268988:+|nuORF;ENSG00000077312|ENST00000243563|SNRPA ENST00000598923.1_1_19:41257313-41268988:+|nuORF ENST00000598923.1_1_19:41257313-41268988:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.5889892578125 3 389.539077 1165.5954 2.8225 0.0010995 0.77673 0.00030257 3.5992 0.001402 389.53928158041634 43.443 0.13381 43.713 43.654 43.787 0.27021 6 4 2 0 0 0 0.11157 1 19832 19832 4.1895 3.6263 1 180060 23399 861 15030 15086 27004 27004 0.01922662496576777 PFYRGERITF 10 Unmodified _PFYRGERITF_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 429.228515625 3 429.227779 1284.66151 2.7231 0.0011688 -0.60095 -0.00025794 2.1222 0.00091089 429.22760286666573 45.861 0.28014 46.687 46.558 46.838 0.82621 38 14 3 0 0 0 0.020838 1 20870 20870 53.798 31.023 1 5138200 23400 1384 15031 15087 27005 27005 0.030561946629632075 PFYRGERITF 10 Unmodified _PFYRGERITF_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 429.2294921875 3 429.227779 1284.66151 3.1085 0.0013343 0.11394 4.8907E-05 3.2224 0.0013832 429.2277338863218 46.822 0.23578 47.088 46.98 47.216 0.26561 22 7 4 0 0 0 0.05298 1 21403 21403 53.47 35.606 1 2028000 23401 1384 15031 15087 27006 27006 0.030561946629632075 PFYRYSEYYYQ 11 Unmodified _PFYRYSEYYYQ_ 0 0 0 REV__nc|ENSG00000032742|Q13099-3|IFT88 REV__nc|ENSG00000032742|Q13099-3|IFT88 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 790.1251831054688 2 789.848624 1577.6827 NaN NaN NaN NaN NaN NaN NaN 54.659 1 54.659 54.159 55.159 0 0 0 0 1.0071 1 25088 25088 1.4819 0 1 + 23402 10294 15032 15088 27007 27007 -0.0830388481879254 PGAAAWRWPRP 11 Unmodified _PGAAAWRWPRP_ 0 0 0 REV__ENST00000409106.5_2_2:114513945-114514152:-|nuORF REV__ENST00000409106.5_2_2:114513945-114514152:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 632.8358154296875 2 632.838531 1263.66251 NaN NaN NaN NaN NaN NaN NaN 49.858 1 49.858 49.358 50.358 0 0 0 0 1.0034 1 22827 22827 6.2058 0.9089 1 + 23403 16089 15033 15089 27008 27008 0.04122453822537864 PGAAKRRS 8 Unmodified _PGAAKRRS_ 0 0 0 ENST00000421536.5_1_2:187351098-187359978:+|nuORF ENST00000421536.5_1_2:187351098-187359978:+|nuORF ENST00000421536.5_1_2:187351098-187359978:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.7529602050781 2 421.751393 841.488233 3.1465 0.001327 0.12518 5.2796E-05 3.2717 0.0013798 421.75137799306503 84.077 0.384 84.739 84.549 84.933 0.66219 42 19 3 0 0 0 0.7471 1 38735 38735 0.79363 0 1 3115500 23404 7760 15034 15090 27009 27009 0.061148733972345326 PGAARRPG 8 Unmodified _PGAARRPG_ 0 0 0 ENST00000434837.7_1_6:37664674-37664983:-|nuORF;nc|ENSG00000215148|Q7RTY9|PRSS41 ENST00000434837.7_1_6:37664674-37664983:-|nuORF ENST00000434837.7_1_6:37664674-37664983:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.2260437011719 2 391.225011 780.435469 2.8996 0.0011344 0.82616 0.00032321 3.7258 0.0014576 391.22515957134243 80.153 0.27615 80.813 80.67 80.947 0.65998 35 19 3 0 0 0 0.14337 1 36958 36958 0.69038 0 1 310040 23405 7884 15035 15091 27010 27010 0.03646915334422829 PGADGCDT 8 Unmodified _PGADGCDT_ 0 0 0 ENSG00000188064|ENST00000339464|WNT7B ENSG00000188064|ENST00000339464|WNT7B ENSG00000188064|ENST00000339464|WNT7B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 734.904052734375 1 735.261395 734.254119 3.7802 0.0027794 1.739 0.0012786 5.5192 0.0040581 735.262604520432 58.012 0.61754 58.274 57.797 58.414 0.26227 53 35 2 0 0 0 0.73686 1 26400 26400 2.8892 0.31174 1 355330 23406 5652 15036 15092 27011 27011 -0.12363810544297849 PGAEPRRFWYL 11 Unmodified _PGAEPRRFWYL_ 0 0 0 REV__ENST00000408953.3_1_5:159826916-159827063:-|nuORF REV__ENST00000408953.3_1_5:159826916-159827063:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 696.364013671875 2 696.364579 1390.7146 NaN NaN NaN NaN NaN NaN NaN 54.5 1 55.167 54.667 55.667 0.6665 0 0 0 1.0055 1 24933 24933 3.5965 0.60125 1 + 23407 16086 15037 15093 27012 27012 0.034875724456696844 PGAGKRKH 8 Unmodified _PGAGKRKH_ 0 0 0 ENST00000411702.7_1_17:78355638-78356025:+|nuORF ENST00000411702.7_1_17:78355638-78356025:+|nuORF ENST00000411702.7_1_17:78355638-78356025:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 425.75421142578125 2 425.753936 849.493319 NaN NaN NaN NaN NaN NaN NaN 94.143 1 94.403 93.903 94.903 0.25975 0 0 0 0.99035 1 43263 43263 0.69038 0.69038 1 23408 7674 15038 15094 27013 27013 0.06255177259845368 PGAHPVLLL 9 Unmodified _PGAHPVLLL_ 0 0 0 ENST00000374279.3_1_9:114659094-114659565:+|nuORF ENST00000374279.3_1_9:114659094-114659565:+|nuORF ENST00000374279.3_1_9:114659094-114659565:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 916.5636596679688 1 916.561464 915.554188 3.7022 0.0033933 0.39856 0.00036531 4.1008 0.0037586 916.5616757589275 51.589 0.083405 51.852 51.813 51.897 0.26227 5 3 2 0 0 0 1.101 1 23585 23585 2.3027 1.5091 1 249090 23409 7375 15039 15095 27014 27014 0.09303269519432433 PGAQCAHK 8 Unmodified _PGAQCAHK_ 0 0 0 ENSG00000163527|ENST00000295770|STT3B;STT3B|p.Y235Vfs*14|1|0.05|ENSG00000163527|chr3:31580087-31580088|-/GTCTCTTATGTGAACAGTTATGTTCAATG|frameshift_variant;ENST00000453168.5_1_3:31574490-31661308:+|nuORF;ENST00000423527.5_1_3:31574490-31661461:+|nuORF ENSG00000163527|ENST00000295770|STT3B ENSG00000163527|ENST00000295770|STT3B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.2176513671875 1 811.387933 810.380657 3.2811 0.0026622 3.091 0.002508 6.3721 0.0051703 811.3913137913788 88.827 0.10715 88.827 88.775 88.882 0 22 16 2 0 0 0 0.13853 1 46182 46182 2.5775 0 1 36260000 23410 4219 15040 15096 27015 27015 -0.03211839528512428 PGARSGGFRPA 11 Unmodified _PGARSGGFRPA_ 0 0 0 REV__ENST00000585223.1_1_17:62500698-62502378:-|nuORF REV__ENST00000585223.1_1_17:62500698-62502378:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1073.251220703125 1 1072.56465 1071.55738 3.1292 0.0033563 4.4171 0.0047376 7.5463 0.0080939 1072.5697970740916 45.44 0.12498 45.707 45.649 45.774 0.26768 5 3 2 0 0 0 0.80294 1 20767 20767 6.7232 1.4925 1 473530 + 23411 17533 15041 15097 27016 27016 0.024459126261490383 PGASVIIS 8 Unmodified _PGASVIIS_ 0 0 0 REV__ENSG00000100122|ENST00000647684|CRYBB1 REV__ENSG00000100122|ENST00000647684|CRYBB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 743.7702026367188 1 743.429781 742.422505 3.9301 0.0029218 3.6025 0.0026782 7.5326 0.0056 743.4313972260535 49.081 0.2188 49.343 49.227 49.446 0.26146 13 8 2 0 0 0 0.69414 1 22405 22405 6.3541 0 1 515690 + 23412 10805 15042 15098 27017 27017 0.04099039431685014 PGASVIIS 8 Unmodified _PGASVIIS_ 0 0 0 REV__ENSG00000100122|ENST00000647684|CRYBB1 REV__ENSG00000100122|ENST00000647684|CRYBB1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 743.429781 742.422505 3.7172 0.0027635 2.1023 0.0015629 5.8195 0.0043264 743.4310968860998 49.223 0.16361 49.223 49.134 49.297 0 -0.059788 -0.00055939 NaN 6.3541 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 446320 + 23413 10805 15042 15098 0.04099039431685014 PGASVIIS 8 Unmodified _PGASVIIS_ 0 0 0 REV__ENSG00000100122|ENST00000647684|CRYBB1 REV__ENSG00000100122|ENST00000647684|CRYBB1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 743.429781 742.422505 3.9301 0.0029218 3.6025 0.0026782 7.5326 0.0056 743.4313972260535 49.081 0.2188 49.343 49.227 49.446 0.26146 0.059788 0.00055591 NaN 6.3541 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 515690 + 23414 10805 15042 15098 0.04099039431685014 PGATEAMTKL 10 Unmodified _PGATEAMTKL_ 0 0 0 REV__ENST00000536780.6_1_15:89931796-89932703:+|nuORF REV__ENST00000536780.6_1_15:89931796-89932703:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 340.52655029296875 3 340.179437 1017.51648 NaN NaN NaN NaN NaN NaN NaN 12.607 1 12.914 12.414 13.414 0.30727 0 0 0 0.99687 1 5687 5687 2.086 0.24177 1 + 23415 17181 15043 15099 27018 27018 0.008423904716437391 PGAVQIVL 8 Unmodified _PGAVQIVL_ 0 0 0 nc|ENSG00000204961|Q9Y5H5-2|PCDHA9 nc|ENSG00000204961|Q9Y5H5-2|PCDHA9 nc|ENSG00000204961|Q9Y5H5-2|PCDHA9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.2521057128906 2 398.749996 795.485439 2.8097 0.0011204 1.6852 0.00067198 4.4949 0.0017924 398.75165080455884 27.229 0.34524 27.851 27.665 28.011 0.62179 28 20 2 0 0 0 0.7471 1 12471 12471 0.79363 0 1 181970 23416 9815 15044 15100 27019 27019 0.07951605219716384 PGCCHGARAQ 10 Unmodified _PGCCHGARAQ_ 0 0 0 LTR1F1_dup64|chr4:69041687-69042422:+|2.255451106523636|0.1032861701613835|4.45|537.0|6|1|sense LTR1F1_dup64|chr4:69041687-69042422:+|2.255451106523636|0.1032861701613835|4.45|537.0|6|1|sense LTR1F1_dup64|chr4:69041687-69042422:+|2.255451106523636|0.1032861701613835|4.45|537.0|6|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.0152282714844 3 333.813094 998.417453 NaN NaN NaN NaN NaN NaN NaN 71.199 1 71.457 70.957 71.957 0.25786 0 0 0 1.0001 1 32613 32613 0.69767 0 1 23417 9498 15045 15101 27020 27020 -0.08181910974246875 PGCSDGPG 8 Unmodified _PGCSDGPG_ 0 0 0 ENST00000438796.6_1_3:197607582-197610590:+|nuORF ENST00000438796.6_1_3:197607582-197610590:+|nuORF ENST00000438796.6_1_3:197607582-197610590:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.13482666015625 2 345.131596 688.248639 NaN NaN NaN NaN NaN NaN NaN 64.395 1 64.643 64.143 65.143 0.24803 0 0 0 0.99035 1 29495 29495 0.69038 0 1 23418 7921 15046 15102 27021 27021 -0.10795489336101127 PGDETPPW 8 Unmodified _PGDETPPW_ 0 0 0 ENST00000400299.6_1_22:31501230-31503402:-|nuORF ENST00000400299.6_1_22:31501230-31503402:-|nuORF ENST00000400299.6_1_22:31501230-31503402:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 899.39892578125 1 898.394124 897.386848 3.4148 0.0030679 -1.1903 -0.0010694 2.2245 0.0019985 898.394517512388 99.617 0.26387 99.617 99.5 99.764 0 29 21 2 0 0 0 0.73686 1 54806 54806 2.8892 0 1 60806000 23419 7607 15047 15103 27022 27022 -0.06595042815990837 PGDKDRRNKRK 11 Unmodified _PGDKDRRNKRK_ 0 0 0 nc|ENSG00000177380|O75145-2|PPFIA3;ENSG00000177380|ENST00000334186|PPFIA3 nc|ENSG00000177380|O75145-2|PPFIA3 nc|ENSG00000177380|O75145-2|PPFIA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.3232421875 2 685.39219 1368.76983 NaN NaN NaN NaN NaN NaN NaN 48.723 1 48.985 48.485 49.485 0.26209 0 0 0 1.0071 1 22273 22273 1.4819 0 1 23420 5115 15048 15104 27023 27023 0.10019378966103432 PGDKDRRNKRK 11 Unmodified _PGDKDRRNKRK_ 0 0 0 nc|ENSG00000177380|O75145-2|PPFIA3;ENSG00000177380|ENST00000334186|PPFIA3 nc|ENSG00000177380|O75145-2|PPFIA3 nc|ENSG00000177380|O75145-2|PPFIA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.3931274414062 2 685.39219 1368.76983 NaN NaN NaN NaN NaN NaN NaN 53.387 1 54.051 53.551 54.551 0.6644 0 0 0 1.0071 1 24414 24414 1.4819 0 1 23421 5115 15048 15104 27024 27024 0.10019378966103432 PGDSGEMG 8 Unmodified _PGDSGEMG_ 0 0 0 ENSG00000196739|ENST00000356083|COL27A1;nc|ENSG00000196739|Q8IZC6-2|COL27A1 ENSG00000196739|ENST00000356083|COL27A1 ENSG00000196739|ENST00000356083|COL27A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 375.1438903808594 2 375.142161 748.269769 NaN NaN NaN NaN NaN NaN NaN 77.618 1 78.281 77.781 78.781 0.66303 0 0 0 0.99035 1 35770 35770 2.5775 0 1 23422 5775 15049 15105 27025 27025 -0.11443524027242802 PGDTEPKYG 9 Unmodified _PGDTEPKYG_ 0 0 0 REV__CON__Q28065 REV__CON__Q28065 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 963.445068359375 1 963.441802 962.434526 3.6794 0.0035449 0.88041 0.00084822 4.5599 0.0043932 963.4416017768299 61.168 0.18834 61.421 61.347 61.535 0.25245 10 9 2 0 0 0 0.49692 1 28027 28027 12.532 0 1 318360 + + 23423 10087 15050 15106 27026 27026 -0.04819388615794651 PGECMCPA 8 Unmodified _PGECMCPA_ 0 0 0 REV__ENSG00000031081|ENST00000264245|ARHGAP31 REV__ENSG00000031081|ENST00000264245|ARHGAP31 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 807.2864379882812 1 807.283393 806.276117 3.6919 0.0029804 0.31915 0.00025765 4.0111 0.0032381 807.2831822370435 44.761 0.35594 45.028 44.764 45.12 0.26768 29 17 2 0 0 0 0.73686 3 20388 20388;20400;20445 2.8892 0 1 1543200 + 23424 10290 15051 15107 27027;27028;27029 27027 -0.13477045391744014 PGECMCPA 8 Unmodified _PGECMCPA_ 0 0 0 REV__ENSG00000031081|ENST00000264245|ARHGAP31 REV__ENSG00000031081|ENST00000264245|ARHGAP31 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 807.2861328125 1 807.283393 806.276117 4.1034 0.0033126 0.37306 0.00030116 4.4764 0.0036138 807.2835182219081 44.279 0.32117 44.929 44.828 45.149 0.64998 31 14 3 0 0 0 0.73686 2 20285 20285;20329 2.8892 0 1 1864000 + 23425 10290 15051 15107 27030;27031 27030 -0.13477045391744014 PGECMCPA 8 Unmodified _PGECMCPA_ 0 0 0 REV__ENSG00000031081|ENST00000264245|ARHGAP31 REV__ENSG00000031081|ENST00000264245|ARHGAP31 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 807.283393 806.276117 3.5403 0.002858 0.65493 0.00052871 4.1952 0.0033867 807.283420082068 44.333 0.31506 45.154 44.953 45.268 0.82075 0.11665 0.00016453 NaN 2.8892 40 16 3 NaN NaN NaN NaN 0 NaN NaN 0 1244600 + 23426 10290 15051 15107 -0.13477045391744014 PGECMCPA 8 Unmodified _PGECMCPA_ 0 0 0 REV__ENSG00000031081|ENST00000264245|ARHGAP31 REV__ENSG00000031081|ENST00000264245|ARHGAP31 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 807.283393 806.276117 3.6919 0.0029804 0.31915 0.00025765 4.0111 0.0032381 807.2831822370435 44.761 0.35594 45.028 44.764 45.12 0.26768 -0.0088202 -0.00010654 NaN 2.8892 29 17 2 NaN NaN NaN NaN 0 NaN NaN 0 1543200 + 23427 10290 15051 15107 -0.13477045391744014 PGECMCPA 8 Unmodified _PGECMCPA_ 0 0 0 REV__ENSG00000031081|ENST00000264245|ARHGAP31 REV__ENSG00000031081|ENST00000264245|ARHGAP31 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 807.283393 806.276117 4.1034 0.0033126 0.37306 0.00030116 4.4764 0.0036138 807.2835182219081 44.279 0.32117 44.929 44.828 45.149 0.64998 -0.10783 -6.3023E-05 NaN 2.8892 31 14 3 NaN NaN NaN NaN 0 NaN NaN 0 1864000 + 23428 10290 15051 15107 -0.13477045391744014 PGEDSEDD 8 Unmodified _PGEDSEDD_ 0 0 0 nc|ENSG00000111247|Q96B01-3|RAD51AP1;ENSG00000111247|ENST00000352618|RAD51AP1;nc|ENSG00000111247|Q96B01|RAD51AP1 nc|ENSG00000111247|Q96B01-3|RAD51AP1 nc|ENSG00000111247|Q96B01-3|RAD51AP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 863.0420532226562 1 863.290112 862.282836 2.7493 0.0023735 1.3612 0.0011751 4.1105 0.0035485 863.2951273311062 86.8 0.020004 86.831 86.818 86.838 0.030281 4 2 2 0 0 0 0.14111 1 43770 43770 0.69038 0 1 4976100 23429 1748 15052 15108 27032 27032 -0.15381414434170892 PGEDSEDD 8 Unmodified _PGEDSEDD_ 0 0 0 nc|ENSG00000111247|Q96B01-3|RAD51AP1;ENSG00000111247|ENST00000352618|RAD51AP1;nc|ENSG00000111247|Q96B01|RAD51AP1 nc|ENSG00000111247|Q96B01-3|RAD51AP1 nc|ENSG00000111247|Q96B01-3|RAD51AP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 863.290112 862.282836 3.2811 0.0028325 1.1355 0.00098023 4.4166 0.0038128 863.2919043662431 86.85 0.017609 86.85 86.834 86.852 0 0.0095465 -3.5719E-05 NaN 0.69038 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 11183000 23430 1748 15052 15108 -0.15381414434170892 PGELFHLRNRW 11 Unmodified _PGELFHLRNRW_ 0 0 0 REV__nc|ENSG00000110422|Q9H422-2|HIPK3 REV__nc|ENSG00000110422|Q9H422-2|HIPK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 712.879638671875 2 712.880927 1423.7473 NaN NaN NaN NaN NaN NaN NaN 43.757 1 44.405 43.905 44.905 0.64872 0 0 0 1.0057 1 20055 20055 3.2813 0 1 + 23431 11203 15053 15109 27033 27033 0.05237779568483347 PGEQTVDVEPR 11 Unmodified _PGEQTVDVEPR_ 0 0 0 nc|ENSG00000124496|Q96PN7-4|TRERF1;nc|ENSG00000124496|Q96PN7-5|TRERF1;nc|ENSG00000124496|Q96PN7|TRERF1;ENSG00000124496|ENST00000695948|TRERF1;nc|ENSG00000124496|Q96PN7-2|TRERF1;nc|ENSG00000124496|Q96PN7-3|TRERF1 nc|ENSG00000124496|Q96PN7-4|TRERF1 nc|ENSG00000124496|Q96PN7-4|TRERF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.8050537109375 2 613.804217 1225.59388 NaN NaN NaN NaN NaN NaN NaN 47.986 1 48.248 47.748 48.748 0.26209 0 0 0 0.97845 1 21935 21935 8.7454 0 1 23432 2363 15054 15110 27034 27034 -0.009893000584725087 PGERKRRIMV 10 Unmodified _PGERKRRIMV_ 0 0 0 ENST00000517389.5_1_8:103954275-103989979:+|nuORF;ENST00000519181.5_1_8:103916517-103989979:+|nuORF ENST00000517389.5_1_8:103954275-103989979:+|nuORF ENST00000517389.5_1_8:103954275-103989979:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 621.1521606445312 2 621.366598 1240.71864 NaN NaN NaN NaN NaN NaN NaN 97.24 1 97.24 96.74 97.74 0 0 0 0 0.99983 1 52874 52874 1.8442 0 1 23433 8603 15055 15111 27035 27035 0.10791338667695527 PGERWDLEWPS 11 Unmodified _PGERWDLEWPS_ 0 0 0 REV__nc|ENSG00000128815|Q6ZS81-5|WDFY4 REV__nc|ENSG00000128815|Q6ZS81-5|WDFY4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 686.0518188476562 2 686.320034 1370.62551 NaN NaN NaN NaN NaN NaN NaN 63.441 1 63.689 63.189 64.189 0.24803 0 0 0 1.0071 1 29054 29054 1.4819 0 1 + 23434 11771 15056 15112 27036 27036 -0.04497307304541209 PGESGAYM 8 Unmodified _PGESGAYM_ 0 0 0 ENST00000592867.1_1_19:56171615-56171840:+|nuORF ENST00000592867.1_1_19:56171615-56171840:+|nuORF ENST00000592867.1_1_19:56171615-56171840:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.2230834960938 1 811.329081 810.321804 3.3543 0.0027214 4.2878 0.0034788 7.642 0.0062002 811.3316592308428 96.475 0.074585 96.475 96.414 96.488 0 11 8 2 0 0 0 0.13917 1 52177 52177 0.6015 0 1 16185000 23435 9249 15057 15113 27037 27037 -0.09094360613494246 PGESSSSRI 9 Unmodified _PGESSSSRI_ 0 0 0 ENST00000592292.5_1_19:9529933-9546175:-|nuORF ENST00000592292.5_1_19:9529933-9546175:-|nuORF ENST00000592292.5_1_19:9529933-9546175:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 919.2466430664062 1 919.44795 918.440674 3.295 0.0030296 -1.9996 -0.0018385 1.2954 0.0011911 919.4462981524231 87.604 0.048782 87.604 87.593 87.641 0 10 7 2 0 0 0 0.10586 1 45244 45244 1.8442 0 1 38533000 23436 9245 15058 15114 27038 27038 -0.021808703842680188 PGEWGDRC 8 Unmodified _PGEWGDRC_ 0 0 0 REV__ENSG00000165816|ENST00000392982|VWA2 REV__ENSG00000165816|ENST00000392982|VWA2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 919.3138427734375 1 919.372677 918.365401 3.3178 0.0030503 1.4007 0.0012878 4.7186 0.0043381 919.3756181409506 89.985 0.039543 89.985 89.955 89.994 0 8 6 2 0 0 0 0.14111 1 47157 47157 0.69038 0 1 19141000 + 23437 13191 15059 15115 27039 27039 -0.09704751116362331 PGEWLRVWY 9 Unmodified _PGEWLRVWY_ 0 0 0 ENSG00000019485|ENST00000683152|PRDM11;nc|ENSG00000019485|Q9NQV5-2|PRDM11;nc|ENSG00000019485|Q9NQV5|PRDM11 ENSG00000019485|ENST00000683152|PRDM11 ENSG00000019485|ENST00000683152|PRDM11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 603.3103637695312 2 603.308741 1204.60293 NaN NaN NaN NaN NaN NaN NaN 79.078 1 79.739 79.239 80.239 0.66082 0 0 0 0.90611 1 36439 36439 2.0598 0 1 23438 449 15060 15116 27040 27040 0.00881138088516309 PGFRRLYQKE 10 Unmodified _PGFRRLYQKE_ 0 0 0 ENST00000532168.2_1_11:112151431-112162265:+|nuORF;ENST00000529938.1_1_11:112161989-112162265:+|nuORF ENST00000532168.2_1_11:112151431-112162265:+|nuORF ENST00000532168.2_1_11:112151431-112162265:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 647.3568725585938 2 647.356754 1292.69895 NaN NaN NaN NaN NaN NaN NaN 45.413 1 46.064 45.564 46.564 0.65104 0 0 0 1.0015 1 20810 20810 0.45834 0 1 23439 8704 15061 15117 27041 27041 0.064312859285792 PGGAFGFG 8 Unmodified _PGGAFGFG_ 0 0 0 ENST00000264951.8_1_3:142151730-142166889:-|nuORF ENST00000264951.8_1_3:142151730-142166889:-|nuORF ENST00000264951.8_1_3:142151730-142166889:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 709.3325805664062 1 709.330402 708.323125 3.3538 0.0023789 -1.3352 -0.00094709 2.0186 0.0014319 709.3300307591194 100.02 0.28626 100.02 99.791 100.08 0 39 24 3 0 0 0 0.14249 1 55016 55016 2.8892 2.8892 1 20473000 23440 6615 15062 15118 27042 27042 -0.04270358462429158 PGGAFGFG 8 Unmodified _PGGAFGFG_ 0 0 0 ENST00000264951.8_1_3:142151730-142166889:-|nuORF ENST00000264951.8_1_3:142151730-142166889:-|nuORF ENST00000264951.8_1_3:142151730-142166889:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 709.330402 708.323125 4.6411 0.0032921 -1.9493 -0.0013827 2.6918 0.0019094 709.3296223759495 99.808 0.20082 100.12 100.02 100.22 0.30835 -0.0061255 -7.4727E-05 NaN 2.8892 34 10 4 NaN NaN NaN NaN 0 NaN NaN 0 16579000 23441 6615 15062 15118 -0.04270358462429158 PGGAFGFG 8 Unmodified _PGGAFGFG_ 0 0 0 ENST00000264951.8_1_3:142151730-142166889:-|nuORF ENST00000264951.8_1_3:142151730-142166889:-|nuORF ENST00000264951.8_1_3:142151730-142166889:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 709.330402 708.323125 4.1643 0.0029539 -2.3317 -0.0016539 1.8327 0.0013 709.3295407999809 99.63 0.22291 100.23 100.12 100.34 0.59748 0.1049 -0.00034593 NaN 2.8892 40 12 4 NaN NaN NaN NaN 0 NaN NaN 0 17152000 23442 6615 15062 15118 -0.04270358462429158 PGGAFTGP 8 Unmodified _PGGAFTGP_ 0 0 0 ENST00000264079.10_1_19:7587593-7591344:+|nuORF;ENST00000596390.1_1_19:7587593-7590231:+|nuORF ENST00000264079.10_1_19:7587593-7591344:+|nuORF ENST00000264079.10_1_19:7587593-7591344:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 703.6537475585938 1 703.340966 702.33369 2.407 0.0016929 -1.5778 -0.0011098 0.82917 0.00058319 703.3426596796184 107.51 0.098335 107.56 107.48 107.58 0.045425 6 5 2 0 0 0 0.14069 1 58107 58107 2.8892 0 1 456950 23443 6599 15063 15119 27043 27043 -0.02938375808003002 PGGAKQHI 8 Unmodified _PGGAKQHI_ 0 0 0 REV__ENST00000372257.6_1_1:44804753-44804978:-|nuORF REV__ENST00000372257.6_1_1:44804753-44804978:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.2283020019531 2 404.22722 806.439886 2.7744 0.0011215 0.027127 1.0966E-05 2.8015 0.0011325 404.2272162338163 30.518 0.33439 31.307 31.122 31.456 0.78921 57 26 3 0 0 0 0.60592 1 13737 13737 13.508 0 1 1136400 + 23444 15749 15064 15120 27044 27044 0.02892379757327035 PGGCCFCA 8 Unmodified _PGGCCFCA_ 0 0 0 REV__ENST00000435880.6_1_2:70190354-70215932:-|nuORF REV__ENST00000435880.6_1_2:70190354-70215932:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 757.2503662109375 1 757.246614 756.239337 3.1257 0.0023669 -0.27537 -0.00020852 2.8503 0.0021584 757.2466219189399 11.648 0.18181 11.927 11.754 11.936 0.2792 58 38 2 0 0 0 0.7471 2 5007 5007;5017 0 0 1 56989 + 23445 16302 15065 15121 27045;27046 27045 -0.1485329721766675 PGGCCFCA 8 Unmodified _PGGCCFCA_ 0 0 0 REV__ENST00000435880.6_1_2:70190354-70215932:-|nuORF REV__ENST00000435880.6_1_2:70190354-70215932:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 757.246614 756.239337 3.1257 0.0023669 -0.27537 -0.00020852 2.8503 0.0021584 757.2466219189399 11.648 0.18181 11.927 11.754 11.936 0.2792 0 0 NaN 0 58 38 2 NaN NaN NaN NaN 0 NaN NaN 0 56989 + 23446 16302 15065 15121 -0.1485329721766675 PGGPWCHT 8 Unmodified _PGGPWCHT_ 0 0 0 ENST00000442552.7_1_1:17085068-17087541:-|nuORF;nc|ENSG00000186715|Q2TV78-2|MST1L;nc|ENSG00000186715|Q2TV78|MST1L ENST00000442552.7_1_1:17085068-17087541:-|nuORF ENST00000442552.7_1_1:17085068-17087541:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 854.362548828125 1 854.361384 853.354108 3.4044 0.0029086 -1.9164 -0.0016373 1.488 0.0012713 854.3591608716619 102.61 0.096016 102.61 102.57 102.66 0 6 2 3 0 0 0 0.7471 1 56651 56651 0.79363 0 1 8410100 23447 7945 15066 15122 27047 27047 -0.0784352841984628 PGGSDVWVLP 10 Unmodified _PGGSDVWVLP_ 0 0 0 ENST00000509613.1_1_X:52928554-52936179:+|nuORF ENST00000509613.1_1_X:52928554-52936179:+|nuORF ENST00000509613.1_1_X:52928554-52936179:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1027.520263671875 1 1026.52547 1025.5182 3.6847 0.0037824 -2.0033 -0.0020565 1.6814 0.001726 1026.525138357731 65.416 0.36655 66.073 65.824 66.191 0.65672 30 19 2 0 0 0 0.64255 1 29953 29953 15.847 3.3156 1 1182400 23448 8543 15067 15123 27048 27048 0.0064576755189591495 PGGSEYYCYSK 11 Unmodified _PGGSEYYCYSK_ 0 0 0 ENSG00000168646|ENST00000307078|AXIN2 ENSG00000168646|ENST00000307078|AXIN2 ENSG00000168646|ENST00000307078|AXIN2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 627.3082275390625 2 627.260796 1252.50704 2.3727 0.0014883 -3.2186 -0.0020189 -0.84592 -0.00053061 627.2593134957887 93.953 0.12542 94.039 93.95 94.076 0.086212 22 15 2 0 0 0 0.13214 1 49323 49323 0.86438 0 1 10363000 23449 4639 15068 15124 27049 27049 -0.10911422604544896 PGGSEYYCYSK 11 Unmodified _PGGSEYYCYSK_ 0 0 0 ENSG00000168646|ENST00000307078|AXIN2 ENSG00000168646|ENST00000307078|AXIN2 ENSG00000168646|ENST00000307078|AXIN2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 627.1234741210938 2 627.260796 1252.50704 2.3293 0.0014611 -2.8923 -0.0018142 -0.56304 -0.00035317 627.7604776632164 95.399 0.089546 95.481 95.409 95.499 0.082001 15 10 2 0 0 0 0.13295 1 50422 50422 1.0715 0 1 13735000 23450 4639 15068 15124 27050 27050 -0.10911422604544896 PGHHPDVM 8 Unmodified _PGHHPDVM_ 0 0 0 ENST00000366997.8_1_1:211922280-211922472:-|nuORF ENST00000366997.8_1_1:211922280-211922472:-|nuORF ENST00000366997.8_1_1:211922280-211922472:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 889.4012451171875 1 889.398498 888.391221 3.7589 0.0033431 -0.96593 -0.0008591 2.7929 0.002484 889.3976573058919 51.564 0.34455 52.223 52.011 52.355 0.65956 26 18 2 0 0 0 0.5047 1 23541 23541 20.871 1.4322 1 308500 23451 7244 15069 15125 27051 27051 -0.05743856874073572 PGHLIKEL 8 Unmodified _PGHLIKEL_ 0 0 0 KDM7A|p.E632Kfs*7|1|0.17|ENSG00000006459|chr7:140098903-140098903|C/-|frameshift_variant;nc|ENSG00000006459|Q6ZMT4-2|KDM7A;ENSG00000006459|ENST00000397560|KDM7A KDM7A|p.E632Kfs*7|1|0.17|ENSG00000006459|chr7:140098903-140098903|C/-|frameshift_variant KDM7A|p.E632Kfs*7|1|0.17|ENSG00000006459|chr7:140098903-140098903|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 302.8526916503906 3 302.851761 905.533452 2.0872 0.0006321 0.070319 2.1296E-05 2.1575 0.0006534 302.85165332569375 32.326 0.20157 33.114 33.024 33.226 0.78795 24 16 2 0 0 0 0.63544 1 14615 14615 7.9102 0.62092 1 331340 23452 349 15070 15126 27052 27052 0.076906791397505 PGHLIKEL 8 Unmodified _PGHLIKEL_ 0 0 0 KDM7A|p.E632Kfs*7|1|0.17|ENSG00000006459|chr7:140098903-140098903|C/-|frameshift_variant;nc|ENSG00000006459|Q6ZMT4-2|KDM7A;ENSG00000006459|ENST00000397560|KDM7A KDM7A|p.E632Kfs*7|1|0.17|ENSG00000006459|chr7:140098903-140098903|C/-|frameshift_variant KDM7A|p.E632Kfs*7|1|0.17|ENSG00000006459|chr7:140098903-140098903|C/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 302.851761 905.533452 2.3306 0.00070584 0.13918 4.2152E-05 2.4698 0.00074799 302.8517669543328 33.029 0.28745 33.283 33.204 33.492 0.25389 0.099827 -0.00017696 NaN 7.9102 20 12 2 NaN NaN NaN NaN 0 NaN NaN 0 441660 23453 349 15070 15126 0.076906791397505 PGHLIKEL 8 Unmodified _PGHLIKEL_ 0 0 0 KDM7A|p.E632Kfs*7|1|0.17|ENSG00000006459|chr7:140098903-140098903|C/-|frameshift_variant;nc|ENSG00000006459|Q6ZMT4-2|KDM7A;ENSG00000006459|ENST00000397560|KDM7A KDM7A|p.E632Kfs*7|1|0.17|ENSG00000006459|chr7:140098903-140098903|C/-|frameshift_variant KDM7A|p.E632Kfs*7|1|0.17|ENSG00000006459|chr7:140098903-140098903|C/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 302.851761 905.533452 2.0541 0.00062209 0.61775 0.00018709 2.6718 0.00080917 302.85193575159263 32.534 0.25131 33.153 33.022 33.273 0.61831 -0.030437 0.00025784 NaN 7.9102 23 11 3 NaN NaN NaN NaN 0 NaN NaN 0 334030 23454 349 15070 15126 0.076906791397505 PGHPGLFPGL 10 Unmodified _PGHPGLFPGL_ 0 0 0 FBN3|p.V2412Afs*75|1|0.21|ENSG00000142449|chr19:8081458-8081459|GA/-|frameshift_variant;ENSG00000142449|ENST00000600128|FBN3 FBN3|p.V2412Afs*75|1|0.21|ENSG00000142449|chr19:8081458-8081459|GA/-|frameshift_variant FBN3|p.V2412Afs*75|1|0.21|ENSG00000142449|chr19:8081458-8081459|GA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.27325439453125 2 496.271627 990.528701 3.421 0.0016977 0.19867 9.8594E-05 3.6196 0.0017963 496.2715931004431 45.144 0.29896 45.795 45.639 45.938 0.65096 18 10 2 0 0 0 0.71407 1 20673 20673 12.532 0 1 502100 23455 3308 15071 15127 27053 27053 0.03305794997004341 PGHSPVPH 8 Unmodified _PGHSPVPH_ 0 0 0 ENST00000469140.2_1_14:105933129-105933369:+|nuORF ENST00000469140.2_1_14:105933129-105933369:+|nuORF ENST00000469140.2_1_14:105933129-105933369:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.21380615234375 2 414.211569 826.408586 NaN NaN NaN NaN NaN NaN NaN 88.57 1 88.821 88.321 89.321 0.25118 0 0 0 0.99035 1 40753 40753 2.5775 0 1 23456 8161 15072 15128 27054 27054 -0.011561932767563121 PGHSPVPH 8 Unmodified _PGHSPVPH_ 0 0 0 ENST00000469140.2_1_14:105933129-105933369:+|nuORF ENST00000469140.2_1_14:105933129-105933369:+|nuORF ENST00000469140.2_1_14:105933129-105933369:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.26922607421875 2 414.211569 826.408586 NaN NaN NaN NaN NaN NaN NaN 85.509 1 86.178 85.678 86.678 0.66941 0 0 0 0.99035 1 39376 39376 2.5775 0 1 23457 8161 15072 15128 27055 27055 -0.011561932767563121 PGIKIKKKKK 10 Unmodified _PGIKIKKKKK_ 0 0 0 ENSG00000204569|ENST00000376511|PPP1R10 ENSG00000204569|ENST00000376511|PPP1R10 ENSG00000204569|ENST00000376511|PPP1R10 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.3403930664062 2 584.418626 1166.8227 3.1556 0.0018442 1.1884 0.00069455 4.3441 0.0025388 584.9190258738761 95.084 0.079132 95.084 95.01 95.089 0 9 6 2 0 0 0 0.12676 1 51110 51110 0 0 1 6060600 23458 6018 15073 15129 27056 27056 0.24595988766873234 PGIYHPDIQL 10 Unmodified _PGIYHPDIQL_ 0 0 0 nc|ENSG00000129003|Q709C8-4|VPS13C;nc|ENSG00000129003|Q709C8-2|VPS13C;nc|ENSG00000129003|Q709C8-3|VPS13C;ENSG00000129003|ENST00000644861|VPS13C;ENST00000558088.1_1_15:62244166-62253867:-|nuORF nc|ENSG00000129003|Q709C8-4|VPS13C nc|ENSG00000129003|Q709C8-4|VPS13C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.80615234375 2 576.806031 1151.59751 NaN NaN NaN NaN NaN NaN NaN 36.64 1 36.897 36.397 37.397 0.25768 0 0 0 0.99983 1 16689 16689 1.8442 0.19162 1 23459 2535 15074 15130 27057 27057 0.027774145060448063 PGKGGGKG 8 Unmodified _PGKGGGKG_ 0 0 0 nc|ENSG00000163214|Q6P158-2|DHX57;DHX57|p.A701Qfs*3|1|0.32|ENSG00000163214|chr2:38848332-38848332|C/-|frameshift_variant;ENSG00000163214|ENST00000457308|DHX57 nc|ENSG00000163214|Q6P158-2|DHX57 nc|ENSG00000163214|Q6P158-2|DHX57 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 329.1878662109375 2 329.187563 656.360573 2.3914 0.00078723 -1.4122 -0.00046489 0.97919 0.00032234 329.1868729227399 69.987 0.507 70.243 69.901 70.408 0.25642 69 32 3 0 0 0 0.7441 1 32045 32045 2.3027 0 1 2465000 23460 267 15075 15131 27058 27058 0.018647328031875077 PGKGGGKG 8 Unmodified _PGKGGGKG_ 0 0 0 nc|ENSG00000163214|Q6P158-2|DHX57;DHX57|p.A701Qfs*3|1|0.32|ENSG00000163214|chr2:38848332-38848332|C/-|frameshift_variant;ENSG00000163214|ENST00000457308|DHX57 nc|ENSG00000163214|Q6P158-2|DHX57 nc|ENSG00000163214|Q6P158-2|DHX57 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 329.187563 656.360573 1.5957 0.0005253 -1.3456 -0.00044296 0.25012 8.2337E-05 329.18705147148796 70.421 0.21438 70.421 70.33 70.544 0 0.077714 2.482E-05 NaN 2.3027 45 28 2 NaN NaN NaN NaN 0 NaN NaN 0 2436700 23461 267 15075 15131 0.018647328031875077 PGKGGGKG 8 Unmodified _PGKGGGKG_ 0 0 0 nc|ENSG00000163214|Q6P158-2|DHX57;DHX57|p.A701Qfs*3|1|0.32|ENSG00000163214|chr2:38848332-38848332|C/-|frameshift_variant;ENSG00000163214|ENST00000457308|DHX57 nc|ENSG00000163214|Q6P158-2|DHX57 nc|ENSG00000163214|Q6P158-2|DHX57 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 329.187563 656.360573 1.7326 0.00057036 -1.9574 -0.00064435 -0.22476 -7.3989E-05 329.18681959243463 69.772 0.29626 70.475 70.362 70.658 0.70302 0.13212 -0.00037797 NaN 2.3027 47 31 2 NaN NaN NaN NaN 0 NaN NaN 0 1249700 23462 267 15075 15131 0.018647328031875077 PGKGGGKG 8 Unmodified _PGKGGGKG_ 0 0 0 nc|ENSG00000163214|Q6P158-2|DHX57;DHX57|p.A701Qfs*3|1|0.32|ENSG00000163214|chr2:38848332-38848332|C/-|frameshift_variant;ENSG00000163214|ENST00000457308|DHX57 nc|ENSG00000163214|Q6P158-2|DHX57 nc|ENSG00000163214|Q6P158-2|DHX57 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 329.187563 656.360573 1.939 0.00063829 -1.0007 -0.00032943 0.93824 0.00030886 329.1870164945071 69.573 0.42732 70.233 70.025 70.452 0.66071 -0.1097 0.00025188 NaN 2.3027 79 31 3 NaN NaN NaN NaN 0 NaN NaN 0 2808500 23463 267 15075 15131 0.018647328031875077 PGKKEIYM 8 Unmodified _PGKKEIYM_ 0 0 0 ENSG00000187527|ENST00000342358|ATP13A5 ENSG00000187527|ENST00000342358|ATP13A5 ENSG00000187527|ENST00000342358|ATP13A5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.5101623535156 3 322.509006 964.505189 2.1297 0.00068685 0.42663 0.00013759 2.5563 0.00082444 322.5091444280471 16.883 1.1655 17.188 16.336 17.501 0.30438 207 119 2 0 0 0 0.7471 1 7293 7293 0.40072 0 1 167140 23464 5620 15076 15132 27059 27059 0.021516131681551087 PGKKLKKVKLR 11 Unmodified _PGKKLKKVKLR_ 0 0 0 ENSG00000111642|ENST00000544040|CHD4;nc|ENSG00000111642|Q14839-2|CHD4 ENSG00000111642|ENST00000544040|CHD4 ENSG00000111642|ENST00000544040|CHD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.8385009765625 2 647.955907 1293.89726 NaN NaN NaN NaN NaN NaN NaN 80.987 1 80.987 80.487 81.487 0 0 0 0 1.008 1 40299 40299 0.35063 0 1 23465 1767 15077 15133 27060 27060 0.26206751578251897 PGKKRLPTTRT 11 Unmodified _PGKKRLPTTRT_ 0 0 0 ENST00000524300.5_1_8:74652013-74659041:-|nuORF ENST00000524300.5_1_8:74652013-74659041:-|nuORF ENST00000524300.5_1_8:74652013-74659041:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 418.9267578125 3 418.926211 1253.7568 3.2103 0.0013449 -1.1899 -0.00049846 2.0205 0.00084644 418.9255784445039 96.824 0.35414 97.426 97.267 97.621 0.6019 32 15 3 0 0 0 0.91359 1 44502 44502 0.40827 0 1 990570 23466 8662 15078 15134 27061 27061 0.14007547853998403 PGKLLQFNFVW 11 Unmodified _PGKLLQFNFVW_ 0 0 0 REV__ENST00000394562.5_2_17:33759942-33760068:-|nuORF REV__ENST00000394562.5_2_17:33759942-33760068:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 674.8771362304688 2 674.874248 1347.73394 NaN NaN NaN NaN NaN NaN NaN 41.34 1 41.984 41.484 42.484 0.64451 0 0 0 1.0057 1 18910 18910 3.2813 1.7994 1 + 23467 15971 15079 15135 27062 27062 0.0739852873655309 PGKRKRSG 8 Unmodified _PGKRKRSG_ 0 0 0 L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|60|2|sense L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|60|2|sense L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|60|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 443.2738342285156 2 443.272493 884.530432 2.6865 0.0011909 0.67545 0.00029941 3.362 0.0014903 443.27260124216133 81.458 0.33949 81.706 81.54 81.88 0.24803 36 17 3 0 0 0 0.7441 1 37483 37483 2.3027 2.3027 1 1402700 23468 9474 15080 15136 27063 27063 0.08354848805606707 PGKRKRSG 8 Unmodified _PGKRKRSG_ 0 0 0 L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|60|2|sense L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|60|2|sense L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|60|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 443.27392578125 2 443.272493 884.530432 3.1775 0.0014085 -0.095668 -4.2407E-05 3.0818 0.0013661 443.2723125527559 80.989 0.34071 81.649 81.465 81.805 0.65998 34 15 3 0 0 0 0.7441 1 37308 37308 2.3027 0 1 1635300 23469 9474 15080 15136 27064 27064 0.08354848805606707 PGKRKRSG 8 Unmodified _PGKRKRSG_ 0 0 0 L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|60|2|sense L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|60|2|sense L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|60|2|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 443.272493 884.530432 3.1775 0.0014085 -0.095668 -4.2407E-05 3.0818 0.0013661 443.2723125527559 80.989 0.34071 81.649 81.465 81.805 0.65998 -0.028526 -0.00034155 NaN 2.3027 34 15 3 NaN NaN NaN NaN 0 NaN NaN 0 1635300 23470 9474 15080 15136 0.08354848805606707 PGKRQRWLRR 10 Unmodified _PGKRQRWLRR_ 0 0 0 REV__ENST00000390666.3_1_5:112769335-112769695:-|nuORF REV__ENST00000390666.3_1_5:112769335-112769695:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 676.9102783203125 2 676.910353 1351.80615 NaN NaN NaN NaN NaN NaN NaN 45.446 1 45.713 45.213 46.213 0.26768 0 0 0 0.99983 1 20775 20775 1.8442 0.36234 1 + 23471 15922 15081 15137 27065 27065 0.1443230065347052 PGKRSPRS 8 Unmodified _PGKRSPRS_ 0 0 0 nc|ENSG00000162852|Q6PJW8-2|CNST;ENSG00000162852|ENST00000366513|CNST;nc|ENSG00000162852|Q6PJW8-3|CNST;ENST00000483271.1_1_1:246729833-246797398:+|nuORF nc|ENSG00000162852|Q6PJW8-2|CNST nc|ENSG00000162852|Q6PJW8-2|CNST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 442.75775146484375 2 442.756675 883.498798 2.248 0.00099533 0.64976 0.00028769 2.8978 0.001283 442.756730388247 75.816 0.28122 76.479 76.321 76.602 0.6635 52 23 3 0 0 0 0.71911 1 36750 36750 4.3292 0 1 1795300 23472 4172 15082 15138 27066 27066 0.05238856051653329 PGKRSPRS 8 Unmodified _PGKRSPRS_ 0 0 0 nc|ENSG00000162852|Q6PJW8-2|CNST;ENSG00000162852|ENST00000366513|CNST;nc|ENSG00000162852|Q6PJW8-3|CNST;ENST00000483271.1_1_1:246729833-246797398:+|nuORF nc|ENSG00000162852|Q6PJW8-2|CNST nc|ENSG00000162852|Q6PJW8-2|CNST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 442.75799560546875 2 442.756675 883.498798 2.6309 0.0011648 0.84366 0.00037353 3.4745 0.0015384 442.75672791695774 76.006 0.35281 76.263 76.039 76.392 0.25704 61 26 3 0 0 0 0.71911 1 34970 34970 4.3292 0 1 1686400 23473 4172 15082 15138 27067 27067 0.05238856051653329 PGKTFLKLPWI 11 Unmodified _PGKTFLKLPWI_ 0 0 0 ENST00000547486.1_1_12:69645004-69651771:+|nuORF ENST00000547486.1_1_12:69645004-69651771:+|nuORF ENST00000547486.1_1_12:69645004-69651771:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 650.8995971679688 2 650.394816 1298.77508 4.6081 0.0029971 0.57865 0.00037635 5.1868 0.0033734 650.3950503837718 104.68 0.28461 105 104.85 105.14 0.31863 96 59 2 0 0 0 0.91345 1 48352 48352 1.3295 1.0225 1 883020 23474 8852 15083 15139 27068 27068 0.13764289776031546 PGLEEWLRLLW 11 Unmodified _PGLEEWLRLLW_ 0 0 0 REV__ENSG00000119227|ENST00000412723|PIGZ REV__ENSG00000119227|ENST00000412723|PIGZ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 706.3902587890625 2 706.390262 1410.76597 NaN NaN NaN NaN NaN NaN NaN 54.681 1 54.947 54.447 55.447 0.26543 0 0 0 1.0071 1 24994 24994 1.4819 0 1 + 23475 11493 15084 15140 27069 27069 0.07701896419689547 PGLHRLRRRRL 11 Unmodified _PGLHRLRRRRL_ 0 0 0 REV__ENST00000549384.5_1_12:109042624-109125250:-|nuORF REV__ENST00000549384.5_1_12:109042624-109125250:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 715.2601318359375 2 715.458002 1428.90145 NaN NaN NaN NaN NaN NaN NaN 91.709 1 91.709 91.209 92.209 0 0 0 0 1.008 1 48530 48530 0.35063 0 1 + 23476 17272 15085 15141 27070 27070 0.2041565384452042 PGLKKKKKKG 10 Unmodified _PGLKKKKKKG_ 0 0 0 REV__nc|ENSG00000111642|Q14839-2|CHD4 REV__nc|ENSG00000111642|Q14839-2|CHD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.3856201171875 2 556.387326 1110.7601 NaN NaN NaN NaN NaN NaN NaN 44.15 1 44.15 43.65 44.65 0 0 0 0 0.99983 1 20155 20155 1.8442 0 1 + 23477 11242 15086 15142 27071 27071 0.20914842698675784 PGLLLLLVPV 10 Unmodified _PGLLLLLVPV_ 0 0 0 ENSG00000169495|ENST00000302495|HTRA4 ENSG00000169495|ENST00000302495|HTRA4 ENSG00000169495|ENST00000302495|HTRA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.2396545410156 3 345.238844 1032.6947 NaN NaN NaN NaN NaN NaN NaN 42.163 1 42.163 41.663 42.663 0 0 0 0 1.0018 1 19185 19185 0.15932 0 1 23478 4693 15087 15143 27072 27072 0.17966428452996297 PGLLVLALW 9 Unmodified _PGLLVLALW_ 0 0 0 ENST00000539240.5_1_12:9102814-9144843:+|nuORF;ENST00000266551.8_1_12:9142289-9144843:+|nuORF;ENST00000543895.1_1_12:9144765-9144843:+|nuORF ENST00000539240.5_1_12:9102814-9144843:+|nuORF ENST00000539240.5_1_12:9102814-9144843:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.31195068359375 2 491.310221 980.605889 4.0053 0.0019678 -1.5117 -0.0007427 2.4936 0.0012251 491.3096685593693 104.19 0.036667 104.51 104.49 104.53 0.31863 4 2 2 0 0 0 1.2459 1 48148 48148 0 0 1 680730 23479 6627 15088 15144 27073 27073 0.11481013213290225 PGLLVLALW 9 Unmodified _PGLLVLALW_ 0 0 0 ENST00000539240.5_1_12:9102814-9144843:+|nuORF;ENST00000266551.8_1_12:9142289-9144843:+|nuORF;ENST00000543895.1_1_12:9144765-9144843:+|nuORF ENST00000539240.5_1_12:9102814-9144843:+|nuORF ENST00000539240.5_1_12:9102814-9144843:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 491.310221 980.605889 2.7683 0.0013601 -1.5866 -0.00077951 1.1817 0.00058059 491.30955419848897 104.22 0.060242 104.22 104.18 104.24 0 -0.14677 -4.346E-05 NaN 0 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 268730 23480 6627 15088 15144 0.11481013213290225 PGLLVLALW 9 Unmodified _PGLLVLALW_ 0 0 0 ENST00000539240.5_1_12:9102814-9144843:+|nuORF;ENST00000266551.8_1_12:9142289-9144843:+|nuORF;ENST00000543895.1_1_12:9144765-9144843:+|nuORF ENST00000539240.5_1_12:9102814-9144843:+|nuORF ENST00000539240.5_1_12:9102814-9144843:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 491.310221 980.605889 4.0053 0.0019678 -1.5117 -0.0007427 2.4936 0.0012251 491.3096685593693 104.19 0.036667 104.51 104.49 104.53 0.31863 0.14677 3.0164E-05 NaN 0 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 680730 23481 6627 15088 15144 0.11481013213290225 PGLRHVTGWY 10 Unmodified _PGLRHVTGWY_ 0 0 0 REV__ENST00000483667.1_1_3:49147547-49148163:-|nuORF REV__ENST00000483667.1_1_3:49147547-49148163:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.8784484863281 3 395.876969 1184.60908 3.2673 0.0012935 0.29409 0.00011643 3.5614 0.0014099 395.877119786909 10.184 0.54047 10.813 10.615 11.156 0.62936 83 49 2 0 0 0 0.94099 1 4569 4569 0.69767 0 1 94227 + 23482 16723 15089 15145 27074 27074 0.024156563200449455 PGLRRPVRRLL 11 Unmodified _PGLRRPVRRLL_ 0 0 0 ENST00000302351.8_1_5:73936169-73936514:-|nuORF ENST00000302351.8_1_5:73936169-73936514:-|nuORF ENST00000302351.8_1_5:73936169-73936514:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 666.9361572265625 2 666.93858 1331.86261 NaN NaN NaN NaN NaN NaN NaN 52.174 1 52.836 52.336 53.336 0.66198 0 0 0 1.0071 1 23857 23857 1.4819 1.4819 1 23483 6812 15090 15146 27075 27075 0.2099492849017679 PGLRRRQRLL 10 Unmodified _PGLRRRQRLL_ 0 0 0 ENST00000269445.10_1_18:46956775-46987052:-|nuORF ENST00000269445.10_1_18:46956775-46987052:-|nuORF ENST00000269445.10_1_18:46956775-46987052:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 632.9066162109375 2 632.907279 1263.80001 NaN NaN NaN NaN NaN NaN NaN 44.674 1 45.324 44.824 45.824 0.64998 0 0 0 0.99983 1 20476 20476 1.8442 0.36234 1 23484 6645 15091 15147 27076 27076 0.17865782421972654 PGLRWEKRWCD 11 Unmodified _PGLRWEKRWCD_ 0 0 0 nc|ENSG00000147481|Q9NSN8-2|SNTG1;ENSG00000147481|ENST00000642720|SNTG1 nc|ENSG00000147481|Q9NSN8-2|SNTG1 nc|ENSG00000147481|Q9NSN8-2|SNTG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 723.3585815429688 2 723.35897 1444.70339 NaN NaN NaN NaN NaN NaN NaN 57.505 1 57.77 57.27 58.27 0.26444 0 0 0 1.0071 1 26325 26325 1.4819 1.1313 1 23485 3567 15092 15148 27077 27077 -0.0011757292013498954 PGLSWLSHLL 10 Unmodified _PGLSWLSHLL_ 0 0 0 REV__ENST00000487567.2_2_1:236687040-236687307:-|nuORF REV__ENST00000487567.2_2_1:236687040-236687307:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.8284301757812 2 561.818941 1121.62333 3.5057 0.0019695 -0.19522 -0.00010968 3.3104 0.0018599 561.8186772175142 45.781 0.36646 46.047 45.866 46.232 0.26561 35 14 3 0 0 0 0.83816 1 20869 20869 11.64 11.64 1 3942200 + 23486 16770 15093 15149 27078 27078 0.06738308748322197 PGMRRRLRRP 10 Unmodified _PGMRRRLRRP_ 0 0 0 REV__ENST00000561819.1_1_16:50099995-50103179:+|nuORF REV__ENST00000561819.1_1_16:50099995-50103179:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 647.8936767578125 2 647.891106 1293.76766 NaN NaN NaN NaN NaN NaN NaN 45.58 1 45.847 45.347 46.347 0.26768 0 0 0 0.99983 1 20836 20836 1.8442 0.36234 1 + 23487 17375 15094 15150 27079 27079 0.13252671747295608 PGMRRRRC 8 Unmodified _PGMRRRRC_ 0 0 0 ENST00000530254.6_1_17:27448921-27449252:-|nuORF ENST00000530254.6_1_17:27448921-27449252:-|nuORF ENST00000530254.6_1_17:27448921-27449252:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 344.5207214355469 3 344.520245 1030.53891 NaN NaN NaN NaN NaN NaN NaN 16.64 1 16.84 16.34 17.34 0.20057 0 0 0 0.99035 1 7352 7352 0.45834 0 1 23488 8712 15095 15151 27080 27080 0.024857561789303873 PGMRRRRRRLT 11 Unmodified _PGMRRRRRRLT_ 0 0 0 ENST00000605946.1_1_10:31608461-31608611:-|nuORF ENST00000605946.1_1_10:31608461-31608611:-|nuORF ENST00000605946.1_1_10:31608461-31608611:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 727.937255859375 2 727.939119 1453.86369 NaN NaN NaN NaN NaN NaN NaN 54.688 1 54.953 54.453 55.453 0.26543 0 0 0 1.0071 1 24997 24997 1.4819 1.1313 1 23489 9317 15096 15152 27081 27081 0.1549081958739862 PGNCRWWHRRY 11 Unmodified _PGNCRWWHRRY_ 0 0 0 REV__nc|ENSG00000010072|Q9H040-3|SPRTN REV__nc|ENSG00000010072|Q9H040-3|SPRTN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 765.8706665039062 2 765.867828 1529.7211 NaN NaN NaN NaN NaN NaN NaN 45.751 1 46.403 45.903 46.903 0.65104 0 0 0 1.0071 1 20962 20962 1.4819 1.1313 1 + 23490 10221 15097 15153 27082 27082 -0.02256812874611569 PGNEEEEEEEE 11 Unmodified _PGNEEEEEEEE_ 0 0 0 ENSG00000243156|ENST00000441493|MICAL3 ENSG00000243156|ENST00000441493|MICAL3 ENSG00000243156|ENST00000441493|MICAL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 660.2401733398438 2 660.241509 1318.46846 NaN NaN NaN NaN NaN NaN NaN 19.557 1 19.557 19.057 20.057 0 0 0 0 1.0057 1 8724 8724 3.2813 1.6287 1 23491 6234 15098 15154 27083 27083 -0.17803101495996998 PGNVPPDL 8 Unmodified _PGNVPPDL_ 0 0 0 nc|ENSG00000165699|Q92574-2|TSC1;ENSG00000165699|ENST00000298552|TSC1;ENST00000493467.5_1_9:135785858-135804259:-|nuORF;TSC1|p.G443Dfs*14|1|0.19|ENSG00000165699|chr9:132907306-132907306|C/-|frameshift_variant nc|ENSG00000165699|Q92574-2|TSC1 nc|ENSG00000165699|Q92574-2|TSC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 808.4232177734375 1 808.419945 807.412668 3.8458 0.003109 0.35736 0.00028889 4.2032 0.0033979 808.4199544098319 63.193 0.35141 63.851 63.631 63.982 0.65808 29 20 2 0 0 0 0.56084 1 29012 29012 16.942 0 1 766500 23492 4418 15099 15155 27084 27084 0.0012585142628722679 PGNWHQWQQYV 11 Unmodified _PGNWHQWQQYV_ 0 0 0 REV__ENST00000511065.5_1_4:57775198-57776884:+|nuORF REV__ENST00000511065.5_1_4:57775198-57776884:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 721.8340454101562 2 721.833643 1441.65273 NaN NaN NaN NaN NaN NaN NaN 60.075 1 60.74 60.24 61.24 0.66503 0 0 0 1.0071 1 27503 27503 1.4819 1.1313 1 + 23493 16973 15100 15156 27085 27085 -0.05042778973506756 PGNYRVWKTHS 11 Unmodified _PGNYRVWKTHS_ 0 0 0 REV__nc|ENSG00000187764|Q92854-2|SEMA4D REV__nc|ENSG00000187764|Q92854-2|SEMA4D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 672.8439331054688 2 672.84401 1343.67347 NaN NaN NaN NaN NaN NaN NaN 52.815 1 53.48 52.98 53.98 0.6644 0 0 0 1.0071 1 24152 24152 1.4819 0 1 + 23494 14112 15101 15157 27086 27086 0.015378114061832093 PGPCSGGG 8 Unmodified _PGPCSGGG_ 0 0 0 REV__KMT2B|p.D1819Mfs*70|1|0.11|ENSG00000272333|chr19:35731923-35731941|AGGACCCCCCACTGGACAC/-|frameshift_variant REV__KMT2B|p.D1819Mfs*70|1|0.11|ENSG00000272333|chr19:35731923-35731941|AGGACCCCCCACTGGACAC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 631.3087768554688 1 631.250437 630.24316 2.5637 0.0016183 0.55673 0.00035144 3.1204 0.0019698 631.2499663938501 88.904 0.035126 88.956 88.936 88.971 0.052147 6 4 2 0 0 0 0.73686 1 45426 45426 2.8892 0 1 7891900 + 23495 14719 15102 15158 27087 27087 -0.08675168127911093 PGPFGRQV 8 Unmodified _PGPFGRQV_ 0 0 0 REV__nc|ENSG00000229809|P0C7X2-5|ZNF688 REV__nc|ENSG00000229809|P0C7X2-5|ZNF688 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 429.2359313964844 2 429.235045 856.455536 2.3257 0.00099827 0.98235 0.00042166 3.308 0.0014199 429.23526397972466 65.774 0.30734 65.774 65.645 65.952 0 120 39 4 0 0 0 0.74071 1 31406 31406 2.5775 0 1 15385000 + 23496 18142 15103 15159 27088 27088 0.02156666274379404 PGPFLRQS 8 Unmodified _PGPFLRQS_ 0 0 0 REV__ENSG00000110330|ENST00000227758|BIRC2 REV__ENSG00000110330|ENST00000227758|BIRC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.2500915527344 2 451.248152 900.481751 3.0753 0.0013877 0.8868 0.00040016 3.9621 0.0017879 451.24865252619486 66.911 0.37038 67.567 67.29 67.661 0.65672 31 21 2 0 0 0 0.70799 1 30686 30686 5.2307 0 1 687090 + 23497 11201 15104 15160 27089 27089 0.02752935445857929 PGPGPCCC 8 Unmodified _PGPGPCCC_ 0 0 0 REV__ENST00000476372.1_1_11:291984-293434:+|nuORF REV__ENST00000476372.1_1_11:291984-293434:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 732.8411254882812 1 733.246614 732.239337 4.1005 0.0030067 0.62541 0.00045858 4.7259 0.0034653 733.2471036980728 68.413 0.5592 68.666 68.316 68.875 0.25227 49 40 2 0 0 0 0.7471 1 31241 31241 0 0 1 551250 + 23498 16631 15105 15161 27090 27090 -0.13749297217646017 PGPHLTWA 8 Unmodified _PGPHLTWA_ 0 0 0 REV__ENST00000345165.8_1_16:772772-773890:-|nuORF REV__ENST00000345165.8_1_16:772772-773890:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 439.7308044433594 2 439.729595 877.444637 NaN NaN NaN NaN NaN NaN NaN 46.111 1 46.111 45.611 46.611 0 0 0 0 0.75172 1 21099 21099 20.871 0 1 + 23499 15503 15106 15162 27091 27091 0.0010126390008053932 PGPRAQRRRQ 10 Unmodified _PGPRAQRRRQ_ 0 0 0 REV__ENST00000423083.1_1_7:72645910-72649821:+|nuORF REV__ENST00000423083.1_1_7:72645910-72649821:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 407.9075622558594 3 407.906033 1220.69627 2.3421 0.00095534 1.1403 0.00046514 3.4824 0.0014205 407.90625608465615 104.48 0.52195 104.48 104.23 104.75 0 83 38 3 0 0 0 0.94246 2 57483 57483;57538 0.13989 0.056541 1 705900 + 23500 12824 15107 15163 27092;27093 27092 0.09474875314299425 PGPRAQRRRQ 10 Unmodified _PGPRAQRRRQ_ 0 0 0 REV__ENST00000423083.1_1_7:72645910-72649821:+|nuORF REV__ENST00000423083.1_1_7:72645910-72649821:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 407.906033 1220.69627 2.3421 0.00095534 1.1403 0.00046514 3.4824 0.0014205 407.90625608465615 104.48 0.52195 104.48 104.23 104.75 0 -0.021098 0.00036043 NaN 0.13989 83 38 3 NaN NaN NaN NaN 0 NaN NaN 0 705900 + 23501 12824 15107 15163 0.09474875314299425 PGPRAQRRRQ 10 Unmodified _PGPRAQRRRQ_ 0 0 0 REV__ENST00000423083.1_1_7:72645910-72649821:+|nuORF REV__ENST00000423083.1_1_7:72645910-72649821:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 407.906033 1220.69627 3.1684 0.0012924 0.52231 0.00021305 3.6907 0.0015054 408.2406763719199 103.92 0.32954 104.52 104.31 104.64 0.59821 0.021098 -0.00039582 NaN 0.13989 96 61 2 NaN NaN NaN NaN 0 NaN NaN 0 1954600 + 23502 12824 15107 15163 0.09474875314299425 PGPRRRKQRQD 11 Unmodified _PGPRRRKQRQD_ 0 0 0 REV__ENST00000311413.4_1_11:119206817-119206874:+|nuORF REV__ENST00000311413.4_1_11:119206817-119206874:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 697.3984375 2 697.397807 1392.78106 NaN NaN NaN NaN NaN NaN NaN 45.663 1 45.931 45.431 46.431 0.26768 0 0 0 1.0071 1 20876 20876 1.4819 0 1 + 23503 15269 15108 15164 27094 27094 0.10038201060274332 PGPRRRLARRR 11 Unmodified _PGPRRRLARRR_ 0 0 0 REV__ENSG00000198835|ENST00000366714|GJC2 REV__ENSG00000198835|ENST00000366714|GJC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 695.9369506835938 2 695.939976 1389.8654 NaN NaN NaN NaN NaN NaN NaN 45.72 1 45.987 45.487 46.487 0.26768 0 0 0 1.008 1 20902 20902 0.35063 0.081612 1 + 23504 14364 15109 15165 27095 27095 0.1860619666765615 PGPRVRRLRRE 11 Unmodified _PGPRVRRLRRE_ 0 0 0 ENST00000266673.9_1_12:72079947-72080253:+|nuORF ENST00000266673.9_1_12:72079947-72080253:+|nuORF ENST00000266673.9_1_12:72079947-72080253:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 696.898193359375 2 696.426368 1390.83818 NaN NaN NaN NaN NaN NaN NaN 78.825 1 78.825 78.325 79.325 0 0 0 0 1.0071 1 38839 38839 1.4819 1.1313 1 23505 6628 15110 15166 27096 27096 0.1583966833663908 PGPTRWQRREE 11 Unmodified _PGPTRWQRREE_ 0 0 0 ENST00000474430.5_1_1:155151285-155154671:+|nuORF;ENST00000468878.1_1_1:155151285-155156663:+|nuORF;nc|ENSG00000163462|Q7Z4K8-2|TRIM46;nc|ENSG00000163462|Q7Z4K8-5|TRIM46;ENSG00000163462|ENST00000334634|TRIM46 ENST00000474430.5_1_1:155151285-155154671:+|nuORF ENST00000474430.5_1_1:155151285-155154671:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 706.3626098632812 2 706.363099 1410.71164 NaN NaN NaN NaN NaN NaN NaN 48.928 1 49.583 49.083 50.083 0.65524 0 0 0 1.0071 1 22386 22386 1.4819 0 1 23506 4211 15111 15167 27097 27097 0.02271697320838939 PGQFHPNKEID 11 Unmodified _PGQFHPNKEID_ 0 0 0 REV__nc|ENSG00000166845|Q8IYD9|LAS2 REV__nc|ENSG00000166845|Q8IYD9|LAS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.31640625 2 641.314751 1280.61495 NaN NaN NaN NaN NaN NaN NaN 58.287 1 58.954 58.454 59.454 0.66703 0 0 0 1.0057 1 26680 26680 3.2813 0 1 + 23507 13264 15112 15168 27098 27098 -0.014132899589412773 PGQHFWRTKWD 11 Unmodified _PGQHFWRTKWD_ 0 0 0 REV__nc|ENSG00000141447|Q9BXW6-2|OSBPL1A REV__nc|ENSG00000141447|Q9BXW6-2|OSBPL1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 729.357421875 2 729.357285 1456.70002 NaN NaN NaN NaN NaN NaN NaN 56.987 1 57.656 57.156 58.156 0.66829 0 0 0 1.0071 1 26073 26073 1.4819 0 1 + 23508 12287 15113 15169 27099 27099 -0.010064997024983313 PGQKRRKRKIT 11 Unmodified _PGQKRRKRKIT_ 0 0 0 ENST00000475708.1_1_6:166782276-166782378:-|nuORF ENST00000475708.1_1_6:166782276-166782378:-|nuORF ENST00000475708.1_1_6:166782276-166782378:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 684.439453125 2 684.438944 1366.86333 NaN NaN NaN NaN NaN NaN NaN 53.675 1 54.34 53.84 54.84 0.6644 0 0 0 1.0071 1 24547 24547 1.4819 1.4819 1 23509 8223 15114 15170 27100 27100 0.19457723139203154 PGQLLPLL 8 Unmodified _PGQLLPLL_ 0 0 0 REV__ENST00000545801.1_1_12:121785603-121790107:-|nuORF REV__ENST00000545801.1_1_12:121785603-121790107:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 850.5447387695312 1 850.539666 849.53239 4.0532 0.0034474 2.7493 0.0023384 6.8025 0.0057858 850.542242571149 39.376 0.16761 40.013 39.861 40.029 0.63778 9 5 2 0 0 0 0.73686 1 17973 17973 2.8892 0 1 1024700 + 23510 10689 15115 15171 27101 27101 0.10160464770854105 PGQLLPLL 8 Unmodified _PGQLLPLL_ 0 0 0 REV__ENST00000545801.1_1_12:121785603-121790107:-|nuORF REV__ENST00000545801.1_1_12:121785603-121790107:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 850.539666 849.53239 3.7895 0.0032231 3.2642 0.0027763 7.0536 0.0059994 850.5424468201901 40.451 0.14225 40.451 40.37 40.512 0 0.25657 0.00013056 NaN 2.8892 10 4 3 NaN NaN NaN NaN 0 NaN NaN 0 2322700 + 23511 10689 15115 15171 0.10160464770854105 PGQLLPLL 8 Unmodified _PGQLLPLL_ 0 0 0 REV__ENST00000545801.1_1_12:121785603-121790107:-|nuORF REV__ENST00000545801.1_1_12:121785603-121790107:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 850.539666 849.53239 3.9631 0.0033708 3.0903 0.0026284 7.0534 0.0059992 850.5421829936686 39.851 0.29247 40.118 39.962 40.255 0.26696 -0.075992 -1.7325E-05 NaN 2.8892 21 9 3 NaN NaN NaN NaN 0 NaN NaN 0 1963500 + 23512 10689 15115 15171 0.10160464770854105 PGQLLPLL 8 Unmodified _PGQLLPLL_ 0 0 0 REV__ENST00000545801.1_1_12:121785603-121790107:-|nuORF REV__ENST00000545801.1_1_12:121785603-121790107:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 850.539666 849.53239 4.0532 0.0034474 2.7493 0.0023384 6.8025 0.0057858 850.542242571149 39.376 0.16761 40.013 39.861 40.029 0.63778 -0.18058 -0.00030733 NaN 2.8892 9 5 2 NaN NaN NaN NaN 0 NaN NaN 0 1024700 + 23513 10689 15115 15171 0.10160464770854105 PGRARGAK 8 Unmodified _PGRARGAK_ 0 0 0 ENSG00000198535|ENST00000355522|C2CD4A ENSG00000198535|ENST00000355522|C2CD4A ENSG00000198535|ENST00000355522|C2CD4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 812.4910888671875 1 812.484945 811.477669 4.1279 0.0033538 0.39539 0.00032125 4.5233 0.0036751 812.4851690381513 91.47 0.34071 92.132 91.915 92.256 0.66197 19 14 2 0 0 0 0.7471 1 42128 42128 0.79363 0 1 646440 23514 5896 15116 15172 27102 27102 0.06438890742799686 PGRDRIWFRRL 11 Unmodified _PGRDRIWFRRL_ 0 0 0 REV__ENST00000549078.5_1_12:53344429-53346127:+|nuORF REV__ENST00000549078.5_1_12:53344429-53346127:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 736.42041015625 2 736.423294 1470.83203 NaN NaN NaN NaN NaN NaN NaN 59.892 1 60.557 60.057 61.057 0.66503 0 0 0 1.0072 1 27415 27415 1.3295 0.9789 1 + 23515 17267 15117 15173 27103 27103 0.115451501050984 PGREEYHYWMN 11 Unmodified _PGREEYHYWMN_ 0 0 0 ENSG00000081148|ENST00000193391|IMPG2 ENSG00000081148|ENST00000193391|IMPG2 ENSG00000081148|ENST00000193391|IMPG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 741.31494140625 2 741.316968 1480.61938 NaN NaN NaN NaN NaN NaN NaN 46.33 1 46.982 46.482 47.482 0.65219 0 0 0 1.0071 1 21221 21221 1.4819 1.1313 1 23516 918 15118 15174 27104 27104 -0.1017014880771967 PGRKLAPK 8 Unmodified _PGRKLAPK_ 0 0 0 REV__nc|ENSG00000114859|P51788-4|CLCN2 REV__nc|ENSG00000114859|P51788-4|CLCN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 866.5596923828125 1 866.557047 865.549771 4.1108 0.0035623 -1.5159 -0.0013136 2.595 0.0022487 866.554875095274 47.716 0.42038 47.98 47.928 48.349 0.26363 33 19 2 0 0 0 0.73686 2 21927 21882;21927 2.8892 0 1 818950 + 23517 11336 15119 15175 27105;27106 27106 0.11161805096492117 PGRKLAPK 8 Unmodified _PGRKLAPK_ 0 0 0 REV__nc|ENSG00000114859|P51788-4|CLCN2 REV__nc|ENSG00000114859|P51788-4|CLCN2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 866.557047 865.549771 4.1108 0.0035623 -1.5159 -0.0013136 2.595 0.0022487 866.554875095274 47.716 0.42038 47.98 47.928 48.349 0.26363 -0.051133 -3.059E-05 NaN 2.8892 33 19 2 NaN NaN NaN NaN 0 NaN NaN 0 818950 + 23518 11336 15119 15175 0.11161805096492117 PGRLGEAEC 9 Unmodified _PGRLGEAEC_ 0 0 0 ENST00000432329.6_1_2:208394707-208394743:+|nuORF ENST00000432329.6_1_2:208394707-208394743:+|nuORF ENST00000432329.6_1_2:208394707-208394743:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 311.1477966308594 3 311.148248 930.422915 NaN NaN NaN NaN NaN NaN NaN 58.898 1 59.565 59.065 60.065 0.66703 0 0 0 0.91059 1 26960 26960 0.96228 0.50394 1 23519 7858 15120 15176 27107 27107 -0.04507908910795777 PGRLWKERFIR 11 Unmodified _PGRLWKERFIR_ 0 0 0 REV__ENST00000265748.6_2_7:36429459-36435956:+|nuORF REV__ENST00000265748.6_2_7:36429459-36435956:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 729.3814086914062 2 729.428045 1456.84154 NaN NaN NaN NaN NaN NaN NaN 56.634 1 57.302 56.802 57.802 0.66829 0 0 0 1.0071 1 25909 25909 1.4819 0.28856 1 + 23520 15036 15121 15177 27108 27108 0.13138918390609433 PGRLWRSRHLG 11 Unmodified _PGRLWRSRHLG_ 0 0 0 REV__ENST00000418107.2_1_6:32906702-32908822:-|nuORF REV__ENST00000418107.2_1_6:32906702-32908822:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 667.8814086914062 2 667.881262 1333.74797 NaN NaN NaN NaN NaN NaN NaN 49.725 1 49.987 49.487 50.487 0.26146 0 0 0 1.0071 1 22727 22727 1.4819 0 1 + 23521 16146 15122 15178 27109 27109 0.09444619008218069 PGRMDEAVWRP 11 Unmodified _PGRMDEAVWRP_ 0 0 0 ENSG00000020633|ENST00000308873|RUNX3;nc|ENSG00000020633|Q13761-2|RUNX3 ENSG00000020633|ENST00000308873|RUNX3 ENSG00000020633|ENST00000308873|RUNX3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 657.3228759765625 2 657.324596 1312.63464 NaN NaN NaN NaN NaN NaN NaN 48.801 1 49.456 48.956 49.956 0.65524 0 0 0 1.0055 1 22328 22328 3.5965 0.60125 1 23522 455 15123 15179 27110 27110 -0.009172372198690937 PGRNYTFWQWF 11 Unmodified _PGRNYTFWQWF_ 0 0 0 ENST00000468496.5_1_17:40362419-40369297:-|nuORF;ENSG00000173757|ENST00000293328|STAT5B ENST00000468496.5_1_17:40362419-40369297:-|nuORF ENST00000468496.5_1_17:40362419-40369297:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 751.3546752929688 2 751.354211 1500.69387 NaN NaN NaN NaN NaN NaN NaN 54.842 1 55.108 54.608 55.608 0.26543 0 0 0 1.0071 1 25069 25069 1.4819 1.1313 1 23523 4950 15124 15180 27111 27111 -0.03645017934036332 PGRRNRRELW 10 Unmodified _PGRRNRRELW_ 0 0 0 REV__ENSG00000095015|ENST00000399503|MAP3K1 REV__ENSG00000095015|ENST00000399503|MAP3K1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 670.3765869140625 2 670.376343 1338.73813 NaN NaN NaN NaN NaN NaN NaN 54.77 1 55.035 54.535 55.535 0.26543 0 0 0 1.0015 1 25034 25034 0.45834 0 1 + 23524 10756 15125 15181 27112 27112 0.08231431002855061 PGRRRPRRPKE 11 Unmodified _PGRRRPRRPKE_ 0 0 0 REV__ENSG00000166317|ENST00000394810|SYNPO2L REV__ENSG00000166317|ENST00000394810|SYNPO2L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 702.9251098632812 2 702.923992 1403.83343 NaN NaN NaN NaN NaN NaN NaN 40.384 1 40.653 40.153 41.153 0.26904 0 0 0 1.0071 1 18373 18373 1.4819 0.41044 1 + 23525 13226 15126 15182 27113 27113 0.14766784193875537 PGRRRRRPLQR 11 Unmodified _PGRRRRRPLQR_ 0 0 0 ENSG00000186790|ENST00000335071|FOXE3 ENSG00000186790|ENST00000335071|FOXE3 ENSG00000186790|ENST00000335071|FOXE3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 724.4507446289062 2 724.450708 1446.88686 NaN NaN NaN NaN NaN NaN NaN 56.806 1 57.475 56.975 57.975 0.66829 0 0 0 1.0071 1 25990 25990 1.4819 0 1 23526 5584 15127 15183 27114 27114 0.1812958169639387 PGRRRRRRR 9 Unmodified _PGRRRRRRR_ 0 0 0 ENST00000261402.6_1_12:106532525-106533446:-|nuORF ENST00000261402.6_1_12:106532525-106533446:-|nuORF;REV__ENSG00000248767|ENST00000506382|FOXL3 ENST00000261402.6_1_12:106532525-106533446:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.4024658203125 2 633.403561 1264.79257 NaN NaN NaN NaN NaN NaN NaN 51.077 1 51.338 50.838 51.838 0.26146 0 0 0 0.90511 1 23342 23342 2.3027 0 1 23527 6557;14642 15128 15184 27115 27115 0.17076487664894557 PGRSRRVWRR 10 Unmodified _PGRSRRVWRR_ 0 0 0 REV__ENST00000432590.5_2_10:104181253-104181715:+|nuORF REV__ENST00000432590.5_2_10:104181253-104181715:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 663.3928833007812 2 663.392328 1324.7701 NaN NaN NaN NaN NaN NaN NaN 52.432 1 53.243 52.743 53.743 0.81065 0 0 0 1.0015 1 23889 23889 0.45834 0 1 + 23528 16274 15129 15185 27116 27116 0.12070843476635673 PGRTSRWRRLY 11 Unmodified _PGRTSRWRRLY_ 0 0 0 ENST00000259873.4_1_6:30585595-30585661:+|nuORF ENST00000259873.4_1_6:30585595-30585661:+|nuORF ENST00000259873.4_1_6:30585595-30585661:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 724.4021606445312 2 724.405101 1446.79565 NaN NaN NaN NaN NaN NaN NaN 47.85 1 48.114 47.614 48.614 0.26363 0 0 0 1.0071 1 21873 21873 1.4819 1.0812 1 23529 6542 15130 15186 27117 27117 0.09012273208418264 PGRWRWQRDMH 11 Unmodified _PGRWRWQRDMH_ 0 0 0 nc|ENSG00000130558|Q99784-4|OLFM1;nc|ENSG00000130558|Q99784-3|OLFM1 nc|ENSG00000130558|Q99784-4|OLFM1 nc|ENSG00000130558|Q99784-4|OLFM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 762.8740844726562 2 762.873111 1523.73167 NaN NaN NaN NaN NaN NaN NaN 54.171 1 54.436 53.936 54.936 0.26462 0 0 0 1.0071 1 24771 24771 1.4819 1.1313 1 23530 9637 15131 15187 27118 27118 -0.009248302201967817 PGRWWLSRWR 10 Unmodified _PGRWWLSRWR_ 0 0 0 REV__CTIF|p.D388Nfs*143|1|0.04|ENSG00000134030|chr18:48761469-48761470|-/CAACAGCAGCAACGTGGACACCAAGCTCACCACCTTCATGT|frameshift_variant REV__CTIF|p.D388Nfs*143|1|0.04|ENSG00000134030|chr18:48761469-48761470|-/CAACAGCAGCAACGTGGACACCAAGCTCACCACCTTCATGT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 700.4550170898438 2 700.378355 1398.74216 NaN NaN NaN NaN NaN NaN NaN 99.673 1 99.735 99.235 100.23 0.062241 0 0 0 1.0001 1 53928 53928 1.6526 0.32309 1 + 23531 10117 15132 15188 27119 27119 0.05873520496515994 PGSEKVLIA 9 Unmodified _PGSEKVLIA_ 0 0 0 REV__ENST00000509197.1_1_2:233310049-233312046:+|nuORF REV__ENST00000509197.1_1_2:233310049-233312046:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 913.5408935546875 1 913.535309 912.528032 4.0662 0.0037146 2.3808 0.0021749 6.447 0.0058895 913.5371575592801 46.813 0.14233 47.079 47.011 47.153 0.26561 6 4 2 0 0 0 0.80651 1 21412 21412 7.2892 0.56607 1 392290 + 23532 16961 15133 15189 27120 27120 0.06826955557289693 PGSEQAEP 8 Unmodified _PGSEQAEP_ 0 0 0 REV__ENSG00000272031|ENST00000606888|ANKRD34A REV__ENSG00000272031|ENST00000606888|ANKRD34A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.68408203125 2 407.682507 813.350462 2.7696 0.0011291 0.61145 0.00024928 3.3811 0.0013784 407.6826408982621 16.898 0.47065 17.203 17.014 17.484 0.30438 47 38 2 0 0 0 0.64692 1 7620 7620 10.183 1.5901 1 77973 + 23533 14716 15134 15190 27121 27121 -0.06367919712715775 PGSEQAEP 8 Unmodified _PGSEQAEP_ 0 0 0 REV__ENSG00000272031|ENST00000606888|ANKRD34A REV__ENSG00000272031|ENST00000606888|ANKRD34A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 407.6841125488281 2 407.682507 813.350462 2.9899 0.0012189 0.42334 0.00017259 3.4133 0.0013915 407.68266200693296 16.53 0.17697 17.188 17.041 17.218 0.65798 23 15 2 0 0 0 0.74071 1 7383 7383 2.5775 0 1 60339 + 23534 14716 15134 15190 27122 27122 -0.06367919712715775 PGSEQAEP 8 Unmodified _PGSEQAEP_ 0 0 0 REV__ENSG00000272031|ENST00000606888|ANKRD34A REV__ENSG00000272031|ENST00000606888|ANKRD34A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 407.6843566894531 2 407.682507 813.350462 NaN NaN NaN NaN NaN NaN NaN 16.624 1 17.282 16.782 17.782 0.65798 0 0 0 0.99035 1 7493 7493 5.7604 0 1 + 23535 14716 15134 15190 27123 27123 -0.06367919712715775 PGSEVLVA 8 Unmodified _PGSEVLVA_ 0 0 0 REV__ENST00000547374.5_1_14:105676890-105677657:-|nuORF REV__ENST00000547374.5_1_14:105676890-105677657:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 386.21844482421875 2 386.215986 770.417419 NaN NaN NaN NaN NaN NaN NaN 54.278 1 54.278 53.778 54.778 0 0 0 0 0.99035 1 24895 24895 4.756 2.1785 1 + 23536 13999 15135 15191 27124 27124 0.023027355690373952 PGSPVKVTH 9 Unmodified _PGSPVKVTH_ 0 0 0 ENSG00000120645|ENST00000538872|IQSEC3 ENSG00000120645|ENST00000538872|IQSEC3 ENSG00000120645|ENST00000538872|IQSEC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 307.8440856933594 3 307.843265 920.507966 NaN NaN NaN NaN NaN NaN NaN 18.517 1 18.517 18.017 19.017 0 0 0 0 0.90519 1 8227 8227 2.2828 0.63015 1 23537 2199 15136 15192 27125 27125 0.04453204617323081 PGSPVRRRRR 10 Unmodified _PGSPVRRRRR_ 0 0 0 nc|ENSG00000177602|Q8TF76-2|HASPIN;ENSG00000177602|ENST00000325418|HASPIN nc|ENSG00000177602|Q8TF76-2|HASPIN nc|ENSG00000177602|Q8TF76-2|HASPIN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 618.8779296875 2 618.879053 1235.74355 NaN NaN NaN NaN NaN NaN NaN 56.775 1 57.039 56.539 57.539 0.26444 0 0 0 0.99983 1 25976 25976 1.8442 0 1 23538 5125 15137 15193 27126 27126 0.1351115458530785 PGTAGTCY 8 Unmodified _PGTAGTCY_ 0 0 0 ENST00000395789.5_1_6:31802780-31805136:+|nuORF ENST00000395789.5_1_6:31802780-31805136:+|nuORF ENST00000395789.5_1_6:31802780-31805136:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 385.15350341796875 2 385.162896 768.31124 NaN NaN NaN NaN NaN NaN NaN 27.752 1 28.371 27.871 28.871 0.61947 0 0 0 0.94507 1 12723 12723 9.3474 3.587 1 23539 7561 15138 15194 27127 27127 -0.08218343267935779 PGTIRFGPF 9 Unmodified _PGTIRFGPF_ 0 0 0 REV__ENST00000472942.5_1_9:133986989-133989557:+|nuORF REV__ENST00000472942.5_1_9:133986989-133989557:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.27325439453125 2 496.271627 990.528701 2.8925 0.0014355 0.20558 0.00010203 3.0981 0.0015375 496.27167198083504 46.03 0.2389 46.03 45.912 46.151 0 29 12 3 0 0 0 0.21008 1 21053 21053 22.736 2.2827 1 1521000 + 23540 16620 15139 15195 27128 27128 0.03305794996992972 PGTIRFGPF 9 Unmodified _PGTIRFGPF_ 0 0 0 REV__ENST00000472942.5_1_9:133986989-133989557:+|nuORF REV__ENST00000472942.5_1_9:133986989-133989557:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.2734069824219 2 496.271627 990.528701 3.1592 0.0015678 0.026926 1.3362E-05 3.1861 0.0015812 496.271563657373 45.789 0.24265 46.054 45.927 46.17 0.26561 15 9 2 0 0 0 0.36069 1 20922 20922 14.838 0 1 700610 + 23541 16620 15139 15195 27129 27129 0.03305794996992972 PGTPPDFILK 10 Unmodified _PGTPPDFILK_ 0 0 0 ENSG00000175826|ENST00000574322|CTDNEP1 ENSG00000175826|ENST00000574322|CTDNEP1 ENSG00000175826|ENST00000574322|CTDNEP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.16864013671875 3 362.206092 1083.59645 2.5162 0.00091139 0.47438 0.00017182 2.9906 0.0010832 362.20620638700336 37.353 0.22219 37.983 37.805 38.027 0.62999 13 8 2 0 0 0 0.12676 1 17111 17111 1.7423 0.67081 1 316170 23542 5048 15140 15196 27130 27130 0.05799200137130356 PGTRRRRRRRR 11 Unmodified _PGTRRRRRRRR_ 0 0 0 REV__ENST00000379757.8_1_6:7899909-7910954:-|nuORF REV__ENST00000379757.8_1_6:7899909-7910954:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 761.9812622070312 2 761.977956 1521.94136 NaN NaN NaN NaN NaN NaN NaN 50.805 1 51.066 50.566 51.566 0.26146 0 0 0 1.0079 1 23219 23219 1.4819 0 1 + 23543 15874 15141 15197 27131 27131 0.20126593567783857 PGTWAPHI 8 Unmodified _PGTWAPHI_ 0 0 0 ENSG00000131503|ENST00000360839|ANKHD1 ENSG00000131503|ENST00000360839|ANKHD1 ENSG00000131503|ENST00000360839|ANKHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 439.7306823730469 2 439.729595 877.444637 2.7102 0.0011918 -0.14622 -6.4299E-05 2.564 0.0011275 439.72944071504594 44.878 0.30452 45.698 45.505 45.809 0.82075 22 13 2 0 0 0 0.42655 1 20422 20422 26.341 3.8886 1 258870 23544 2664 15142 15198 27132 27132 0.0010126390006917063 PGTWAPHI 8 Unmodified _PGTWAPHI_ 0 0 0 ENSG00000131503|ENST00000360839|ANKHD1 ENSG00000131503|ENST00000360839|ANKHD1 ENSG00000131503|ENST00000360839|ANKHD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 439.729595 877.444637 2.7571 0.0012124 0.015689 6.8988E-06 2.7728 0.0012193 439.72957399217427 45.996 0.13158 45.996 45.953 46.085 0 0.14874 7.8725E-05 NaN 26.341 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 457460 23545 2664 15142 15198 0.0010126390006917063 PGTWAPHI 8 Unmodified _PGTWAPHI_ 0 0 0 ENSG00000131503|ENST00000360839|ANKHD1 ENSG00000131503|ENST00000360839|ANKHD1 ENSG00000131503|ENST00000360839|ANKHD1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 439.729595 877.444637 2.7102 0.0011918 -0.14622 -6.4299E-05 2.564 0.0011275 439.72944071504594 44.878 0.30452 45.698 45.505 45.809 0.82075 -0.14874 -6.3671E-05 NaN 26.341 22 13 2 NaN NaN NaN NaN 0 NaN NaN 0 258870 23546 2664 15142 15198 0.0010126390006917063 PGVDTPLL 8 Unmodified _PGVDTPLL_ 0 0 0 ENST00000594866.1_1_19:48173733-48173796:+|nuORF ENST00000594866.1_1_19:48173733-48173796:+|nuORF ENST00000594866.1_1_19:48173733-48173796:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.9227294921875 1 811.455996 810.448719 2.6433 0.0021449 2.0142 0.0016345 4.6575 0.0037794 811.4612438033326 90.924 0.030487 90.999 90.985 91.016 0.075279 5 3 2 0 0 0 0.14069 1 46987 46987 0.79363 0 1 14230000 23547 9266 15143 15199 27133 27133 0.03591308603154175 PGVDTPLL 8 Unmodified _PGVDTPLL_ 0 0 0 ENST00000594866.1_1_19:48173733-48173796:+|nuORF ENST00000594866.1_1_19:48173733-48173796:+|nuORF ENST00000594866.1_1_19:48173733-48173796:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 811.455996 810.448719 3.2987 0.0026767 -0.95495 -0.0007749 2.3437 0.0019018 811.4538896158639 90.649 0.048317 90.649 90.627 90.676 0 -0.17506 -0.00068643 NaN 0.79363 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 14303000 23548 9266 15143 15199 0.03591308603154175 PGVKGPKR 8 Unmodified _PGVKGPKR_ 0 0 0 REV__ENSG00000164318|ENST00000322350|EGFLAM REV__ENSG00000164318|ENST00000322350|EGFLAM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 419.7671813964844 2 419.766512 837.518471 NaN NaN NaN NaN NaN NaN NaN 67.584 1 67.584 67.084 68.084 0 0 0 0 0.99035 1 32452 32452 2.5775 0.27475 1 + 23549 13084 15144 15200 27134 27134 0.0932123206241613 PGVKGPKR 8 Unmodified _PGVKGPKR_ 0 0 0 REV__ENSG00000164318|ENST00000322350|EGFLAM REV__ENSG00000164318|ENST00000322350|EGFLAM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 419.4509582519531 2 419.766512 837.518471 NaN NaN NaN NaN NaN NaN NaN 66.577 1 67.282 66.782 67.782 0.7047 0 0 0 0.99035 1 31569 31569 2.5775 0.27475 1 + 23550 13084 15144 15200 27135 27135 0.0932123206241613 PGVLDRNIL 9 Unmodified _PGVLDRNIL_ 0 0 0 REV__nc|ENSG00000142082|Q9NTG7-2|SIRT3 REV__nc|ENSG00000142082|Q9NTG7-2|SIRT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 333.18804931640625 3 332.86607 995.57638 1.6506 0.00054942 1.5382 0.00051202 3.1888 0.0010614 332.86665394182484 12.5 0.085861 12.807 12.733 12.819 0.30727 5 3 2 0 0 0 0.68285 1 5598 5598 9.3831 2.66 1 1656700 + 23551 12312 15145 15201 27136 27136 0.07841449197189831 PGVRRRLRR 9 Unmodified _PGVRRRLRR_ 0 0 0 ENST00000430857.5_1_7:100136843-100136927:+|nuORF ENST00000430857.5_1_7:100136843-100136927:+|nuORF ENST00000430857.5_1_7:100136843-100136927:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1165.750732421875 1 1165.7501 1164.74283 3.2827 0.0038268 -2.6238 -0.0030587 0.65887 0.00076808 1165.7468644363685 38.653 0.27209 39.291 39.102 39.374 0.63778 14 9 2 0 0 0 1.2289 1 17635 17635 0.6015 0.076735 1 525020 23552 7850 15146 15202 27137 27137 0.16704359936261426 PGVTGPRR 8 Unmodified _PGVTGPRR_ 0 0 0 ENST00000507297.5_1_5:138861213-138862139:-|nuORF;ENST00000514348.1_1_5:138861213-138862244:-|nuORF ENST00000507297.5_1_5:138861213-138862139:-|nuORF ENST00000507297.5_1_5:138861213-138862139:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 420.24725341796875 2 420.245944 838.477334 3.201 0.0013452 -0.12292 -5.1655E-05 3.0781 0.0012936 420.2457521545168 94.2 0.35776 94.831 94.66 95.018 0.63115 35 20 2 0 0 0 0.74709 1 43391 43391 2.0598 0 1 691650 23553 8520 15147 15203 27138 27138 0.05163471022945032 PGVVDLMAL 9 Unmodified _PGVVDLMAL_ 0 0 0 ENST00000232978.12_1_3:42685452-42687498:+|nuORF ENST00000232978.12_1_3:42685452-42687498:+|nuORF ENST00000232978.12_1_3:42685452-42687498:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 457.7540283203125 2 457.754421 913.494289 NaN NaN NaN NaN NaN NaN NaN 81.22 1 81.22 80.72 81.72 0 0 0 0 0.3934 1 40441 40441 23.148 0 1 23554 6448 15148 15204 27139 27139 0.03408210793861599 PGVVDLMAL 9 Unmodified _PGVVDLMAL_ 0 0 0 ENST00000232978.12_1_3:42685452-42687498:+|nuORF ENST00000232978.12_1_3:42685452-42687498:+|nuORF ENST00000232978.12_1_3:42685452-42687498:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 914.5057373046875 1 914.501566 913.494289 3.6554 0.0033428 -3.4288 -0.0031356 0.22661 0.00020723 914.4985006662512 81.007 0.32668 81.255 81.063 81.389 0.24803 30 19 2 0 0 0 0.035095 2 37312 37265;37312 53.576 5.2297 1 1062100 23555 6448 15148 15204 27140;27141 27141 0.03408210793861599 PGYYSWRNSK 10 Unmodified _PGYYSWRNSK_ 0 0 0 ENSG00000164305|ENST00000308394|CASP3 ENSG00000164305|ENST00000308394|CASP3 ENSG00000164305|ENST00000308394|CASP3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 629.0319213867188 2 629.304187 1256.59382 3.3204 0.0020895 1.5951 0.0010038 4.9155 0.0030933 629.3065491715419 88.494 0.092583 88.494 88.433 88.526 0 15 13 2 0 0 0 0.12676 1 45947 45947 1.3295 0.13619 1 14534000 23556 4303 15149 15205 27142 27142 -0.024212552678363863 PGYYSWRNSK 10 Unmodified _PGYYSWRNSK_ 0 0 0 ENSG00000164305|ENST00000308394|CASP3 ENSG00000164305|ENST00000308394|CASP3 ENSG00000164305|ENST00000308394|CASP3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 629.304187 1256.59382 2.5487 0.0016039 0.1906 0.00011995 2.7393 0.0017239 629.8053398432156 88.771 0.043121 88.823 88.809 88.853 0.052155 0.1648 -0.001053 NaN 1.3295 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 22570000 23557 4303 15149 15205 -0.024212552678363863 PHAAKRRR 8 Unmodified _PHAAKRRR_ 0 0 0 REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.3059387207031 2 496.304659 990.594764 2.6719 0.0013261 -0.93041 -0.00046177 1.7415 0.00086433 496.3043399701408 102.25 0.1403 102.25 102.16 102.3 0 10 5 2 0 0 0 0.7471 1 56460 56460 0.79363 0.79363 1 1194000 + 23558 14974 15150 15206 27143 27143 0.09909048682413868 PHAAKRRR 8 Unmodified _PHAAKRRR_ 0 0 0 REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.3049011230469 2 496.304659 990.594764 1.8248 0.00090567 -0.16207 -8.0436E-05 1.6628 0.00082523 496.30418504436744 102.26 0.16869 102.32 102.23 102.4 0.057198 16 8 3 0 0 0 0.7471 1 55531 55531 0.79363 0.79363 1 1438500 + 23559 14974 15150 15206 27144 27144 0.09909048682413868 PHAAKRRR 8 Unmodified _PHAAKRRR_ 0 0 0 REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.3064270019531 2 496.304659 990.594764 4.0566 0.0020133 -1.4712 -0.00073017 2.5854 0.0012831 496.3038479338371 101.45 0.22241 101.76 101.68 101.9 0.31412 15 8 2 0 0 0 0.7471 1 46957 46957 0.79363 0.79363 1 835530 + 23560 14974 15150 15206 27145 27145 0.09909048682413868 PHAAKRRR 8 Unmodified _PHAAKRRR_ 0 0 0 REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.96063232421875 2 496.304659 990.594764 4.0566 0.0020133 -1.4712 -0.00073017 2.5854 0.0012831 496.3038479338371 101.45 0.22241 101.76 101.68 101.9 0.31412 15 8 2 0 0 0 0.14249 1 46937 46937 2.8892 2.8892 1 835530 + 23561 14974 15150 15206 27146 27146 0.09909048682413868 PHAAKRRR 8 Unmodified _PHAAKRRR_ 0 0 0 REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 496.304659 990.594764 1.8248 0.00090567 -0.16207 -8.0436E-05 1.6628 0.00082523 496.30418504436744 102.26 0.16869 102.32 102.23 102.4 0.057198 0.10938 0.00030217 NaN 0.79363 16 8 3 NaN NaN NaN NaN 0 NaN NaN 0 1438500 + 23562 14974 15150 15206 0.09909048682413868 PHAAKRRR 8 Unmodified _PHAAKRRR_ 0 0 0 REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 496.304659 990.594764 3.4235 0.0016991 -0.30093 -0.00014935 3.1226 0.0015498 496.30426608216294 101.47 0.22137 102.06 101.92 102.14 0.59717 -0.14725 0.00016434 NaN 0.79363 14 8 3 NaN NaN NaN NaN 0 NaN NaN 0 1806300 + 23563 14974 15150 15206 0.09909048682413868 PHAAKRRRQRR 11 Unmodified _PHAAKRRRQRR_ 0 0 0 REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.29498291015625 3 477.959131 1430.85556 3.8798 0.0018544 -1.1356 -0.00054276 2.7442 0.0013116 477.95850438622756 105.93 0.14559 106.24 106.15 106.3 0.31705 13 5 3 0 0 0 0.91459 1 48907 48907 0.094841 0 1 997050 + 23564 14974 15151 15207 27147 27147 0.15737008662290464 PHAAKRRRQRR 11 Unmodified _PHAAKRRRQRR_ 0 0 0 REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF REV__ENST00000261951.8_1_5:179921647-179956302:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.96051025390625 3 477.959131 1430.85556 NaN NaN NaN NaN NaN NaN NaN 105.94 1 106.54 106.04 107.04 0.59969 0 0 0 1.0082 1 48921 48921 0.094841 0 1 + 23565 14974 15151 15207 27148 27148 0.15737008662290464 PHAMLIPNR 9 Unmodified _PHAMLIPNR_ 0 0 0 REV__ENST00000261167.6_1_12:14942052-14943608:-|nuORF REV__ENST00000261167.6_1_12:14942052-14943608:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.20794677734375 3 350.195533 1047.56477 NaN NaN NaN NaN NaN NaN NaN 39.38 1 39.38 38.88 39.88 0 0 0 0 0.89288 1 17871 17871 5.2969 3.4526 1 + 23566 14959 15152 15208 27149 27149 0.042889289022014054 PHCTGFGIL 9 Unmodified _PHCTGFGIL_ 0 0 0 REV__ENST00000486955.2_1_10:126686512-126691658:-|nuORF REV__ENST00000486955.2_1_10:126686512-126691658:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.7386779785156 2 472.736563 943.458573 3.1137 0.001472 0.26298 0.00012432 3.3767 0.0015963 472.7368483230484 48.322 0.19088 48.976 48.844 49.035 0.65356 10 7 2 0 0 0 0.7295 1 22100 22100 8.5933 2.8329 1 166040 + 23567 16760 15153 15209 27150 27150 -0.015418266631058941 PHDLGKEK 8 Unmodified _PHDLGKEK_ 0 0 0 REV__ENST00000594099.5_2_19:14640147-14640462:-|nuORF REV__ENST00000594099.5_2_19:14640147-14640462:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.8384094238281 3 308.50302 922.48723 2.1411 0.00066053 0.56503 0.00017431 2.7061 0.00083484 308.50320238412456 17.451 0.38995 18.112 17.846 18.236 0.66072 64 31 3 0 0 0 0.64692 1 7895 7895 7.2892 0 1 524260 + 23568 17603 15154 15210 27151 27151 0.02288614237670572 PHDRMGLPPLA 11 Unmodified _PHDRMGLPPLA_ 0 0 0 REV__ENST00000477970.1_1_1:44078891-44086093:+|nuORF REV__ENST00000477970.1_1_1:44078891-44086093:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 602.3242797851562 2 602.318783 1202.62301 4.5166 0.0027205 3.9534 0.0023812 8.4701 0.0051017 602.3209389231296 102.78 0.16348 103.1 103 103.16 0.31863 17 7 3 0 0 0 0.87362 1 47527 47527 3.5965 1.2938 1 1920900 + 23569 16668 15155 15211 27152 27152 0.029805657568431343 PHDRMGLPPLA 11 Unmodified _PHDRMGLPPLA_ 0 0 0 REV__ENST00000477970.1_1_1:44078891-44086093:+|nuORF REV__ENST00000477970.1_1_1:44078891-44086093:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 602.318783 1202.62301 4.5166 0.0027205 3.9534 0.0023812 8.4701 0.0051017 602.3209389231296 102.78 0.16348 103.1 103 103.16 0.31863 -0.10855 -0.00085577 NaN 3.5965 17 7 3 NaN NaN NaN NaN 0 NaN NaN 0 1920900 + 23570 16668 15155 15211 0.029805657568431343 PHDRMGLPPLA 11 Unmodified _PHDRMGLPPLA_ 0 0 0 REV__ENST00000477970.1_1_1:44078891-44086093:+|nuORF REV__ENST00000477970.1_1_1:44078891-44086093:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 602.318783 1202.62301 4.0831 0.0024593 4.3883 0.0026432 8.4714 0.0051025 602.3214293521278 102.71 0.15085 103.31 103.25 103.4 0.59759 0.096048 -0.00033189 NaN 3.5965 15 7 3 NaN NaN NaN NaN 0 NaN NaN 0 750270 + 23571 16668 15155 15211 0.029805657568431343 PHDSPGVV 8 Unmodified _PHDSPGVV_ 0 0 0 ENST00000500268.6_1_4:10455772-10455850:-|nuORF ENST00000500268.6_1_4:10455772-10455850:-|nuORF ENST00000500268.6_1_4:10455772-10455850:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.20452880859375 2 404.20341 806.392267 3.1172 0.00126 0.73335 0.00029642 3.8506 0.0015564 404.20358365114294 86.293 0.3375 86.543 86.285 86.623 0.24974 20 15 2 0 0 0 0.73686 2 39674 39674;39723 2.8892 0 1 460630 23572 8473 15156 15212 27153;27154 27153 -0.01867319233519993 PHEKESSL 8 Unmodified _PHEKESSL_ 0 0 0 REV__ENST00000591092.5_1_19:5941655-5957972:-|nuORF REV__ENST00000591092.5_1_19:5941655-5957972:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.7341613769531 2 463.732532 925.45051 2.616 0.0012131 0.14155 6.5641E-05 2.7576 0.0012788 463.7326108358264 32.182 0.52786 32.97 32.815 33.343 0.78795 125 55 3 0 0 0 0.045071 1 14686 14686 67.344 0 1 2067400 + 23573 17579 15157 15213 27155 27155 -0.015196823788983238 PHEKESSL 8 Unmodified _PHEKESSL_ 0 0 0 REV__ENST00000591092.5_1_19:5941655-5957972:-|nuORF REV__ENST00000591092.5_1_19:5941655-5957972:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.73394775390625 2 463.732532 925.45051 2.8439 0.0013188 0.46606 0.00021613 3.31 0.001535 463.73268965631945 33.017 0.58596 33.271 33.032 33.618 0.25389 57 25 3 0 0 0 0.52517 1 15183 15183 19.439 2.4967 1 999150 + 23574 17579 15157 15213 27156 27156 -0.015196823788983238 PHFRKWVNTI 10 Unmodified _PHFRKWVNTI_ 0 0 0 REV__ENST00000592704.5_1_17:74056435-74057277:-|nuORF REV__ENST00000592704.5_1_17:74056435-74057277:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 649.3660278320312 2 649.361839 1296.70913 NaN NaN NaN NaN NaN NaN NaN 69.905 1 70.565 70.065 71.065 0.66071 0 0 0 1.0003 1 32051 32051 1.4819 0.28856 1 + 23575 17595 15158 15214 27157 27157 0.07263893653839659 PHFVNTVEM 9 Unmodified _PHFVNTVEM_ 0 0 0 ENST00000471811.1_1_3:49211676-49212464:+|nuORF;ENSG00000185909|ENST00000332780|KLHDC8B ENST00000471811.1_1_3:49211676-49212464:+|nuORF ENST00000471811.1_1_3:49211676-49212464:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.259033203125 2 537.257859 1072.50117 3.0525 0.00164 -0.92976 -0.00049952 2.1227 0.0011405 537.2574100984581 44.457 0.23155 44.457 44.266 44.498 0 44 17 4 0 0 0 0.19064 2 20261 20261;20320 24.021 0 1 12925000 23576 5541 15159 15215 27158;27159 27158 -0.032184763255600046 PHGESSMLLQ 10 Unmodified _PHGESSMLLQ_ 0 0 0 REV__nc|ENSG00000132326|O15055-2|PER2 REV__nc|ENSG00000132326|O15055-2|PER2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.767822265625 2 549.766049 1097.51754 3.4731 0.0019094 -0.068168 -3.7477E-05 3.4049 0.0018719 549.7660022033904 43.647 0.4598 43.916 43.571 44.031 0.2694 40 19 3 0 0 0 0.21136 2 19901 19838;19901 37.974 11.09 1 1399700 + 23577 11885 15160 15216 27160;27161 27161 -0.027313951594351238 PHGESSMLLQ 10 Unmodified _PHGESSMLLQ_ 0 0 0 REV__nc|ENSG00000132326|O15055-2|PER2 REV__nc|ENSG00000132326|O15055-2|PER2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.2864990234375 2 549.766049 1097.51754 3.4731 0.0019094 -0.068168 -3.7477E-05 3.4049 0.0018719 549.7660022033904 43.647 0.4598 43.916 43.571 44.031 0.2694 40 19 3 0 0 0 0.11995 1 19824 19824 19.257 1.1106 1 1399700 + 23578 11885 15160 15216 27162 27162 -0.027313951594351238 PHGESSMLLQ 10 Unmodified _PHGESSMLLQ_ 0 0 0 REV__nc|ENSG00000132326|O15055-2|PER2 REV__nc|ENSG00000132326|O15055-2|PER2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.767822265625 2 549.766049 1097.51754 3.6727 0.0020191 -0.42595 -0.00023417 3.2468 0.001785 549.7658112102574 43.006 0.5317 43.655 43.421 43.953 0.64872 40 31 2 0 0 0 0.21136 2 19640 19640;19688 37.974 11.09 1 1149800 + 23579 11885 15160 15216 27163;27164 27163 -0.027313951594351238 PHGESSMLLQ 10 Unmodified _PHGESSMLLQ_ 0 0 0 REV__nc|ENSG00000132326|O15055-2|PER2 REV__nc|ENSG00000132326|O15055-2|PER2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 549.766049 1097.51754 3.5724 0.001964 -0.84536 -0.00046475 2.727 0.0014992 549.7659301537128 43.873 0.15294 43.873 43.776 43.929 0 0.058437 -0.0006676 NaN 37.974 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 832320 + 23580 11885 15160 15216 -0.027313951594351238 PHGGCFSV 8 Unmodified _PHGGCFSV_ 0 0 0 ENST00000563328.4_1_16:72821841-72822171:+|nuORF ENST00000563328.4_1_16:72821841-72822171:+|nuORF ENST00000563328.4_1_16:72821841-72822171:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 402.1809997558594 2 402.178881 802.343209 NaN NaN NaN NaN NaN NaN NaN 82.448 1 83.109 82.609 83.609 0.66019 0 0 0 0.99035 1 37988 37988 2.5775 0.73324 1 23581 9009 15161 15217 27165 27165 -0.0658693079412842 PHGHGKGGA 9 Unmodified _PHGHGKGGA_ 0 0 0 REV__ENST00000507307.5_1_5:179125985-179126592:+|nuORF REV__ENST00000507307.5_1_5:179125985-179126592:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.20660400390625 2 409.206818 816.399084 NaN NaN NaN NaN NaN NaN NaN 82.651 1 83.311 82.811 83.811 0.66019 0 0 0 0.89683 1 38082 38082 4.3292 1.44 1 + 23582 14900 15162 15218 27166 27166 -0.016459615622920865 PHGIGTIVL 9 Unmodified _PHGIGTIVL_ 0 0 0 REV__nc|ENSG00000151914|Q03001-3|DST REV__nc|ENSG00000151914|Q03001-3|DST MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 453.7768859863281 2 453.774003 905.533452 NaN NaN NaN NaN NaN NaN NaN 68.496 1 69.156 68.656 69.656 0.65924 0 0 0 0.56337 1 31397 31397 16.942 0 1 + 23583 17985 15163 15219 27167 27167 0.076906791397505 PHGLGEPYRR 10 Unmodified _PHGLGEPYRR_ 0 0 0 ENST00000493217.1_1_7:100071895-100075661:-|nuORF;ENSG00000166925|ENST00000300181|TSC22D4 ENST00000493217.1_1_7:100071895-100075661:-|nuORF ENST00000493217.1_1_7:100071895-100075661:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.3124389648438 2 591.312346 1180.61014 NaN NaN NaN NaN NaN NaN NaN 49.75 1 50.012 49.512 50.512 0.26146 0 0 0 1.0001 1 22738 22738 1.6526 0.96225 1 23584 4517 15164 15220 27168 27168 0.027058706889192763 PHGPRGPG 8 Unmodified _PHGPRGPG_ 0 0 0 ENSG00000186897|ENST00000334221|C1QL4 ENSG00000186897|ENST00000334221|C1QL4 ENSG00000186897|ENST00000334221|C1QL4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.9915466308594 2 387.703912 773.39327 2.8817 0.0011172 1.5188 0.00058885 4.4005 0.0017061 387.704336836001 53.692 0.24393 53.957 53.85 54.094 0.26462 14 9 2 0 0 0 0.14333 1 24614 24614 0.79363 0 1 608000 23585 5594 15165 15221 27169 27169 -0.0024906007395202323 PHGRALHL 8 Unmodified _PHGRALHL_ 0 0 0 REV__ENST00000481405.1_1_3:45077046-45077160:+|nuORF REV__ENST00000481405.1_1_3:45077046-45077160:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 300.84368896484375 3 300.843599 899.508969 NaN NaN NaN NaN NaN NaN NaN 12.404 1 12.712 12.212 13.212 0.30727 0 0 0 0.99035 1 5584 5584 4.3292 0 1 + 23586 16703 15166 15222 27170 27170 0.05519463776897737 PHGRRERLRQ 10 Unmodified _PHGRRERLRQ_ 0 0 0 REV__ENST00000263635.7_1_2:160086133-160086289:+|nuORF REV__ENST00000263635.7_1_2:160086133-160086289:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 652.8757934570312 2 652.873968 1303.73338 NaN NaN NaN NaN NaN NaN NaN 104.61 1 104.93 104.43 105.43 0.31863 0 0 0 0.99774 1 48294 48294 3.5965 0.8613 1 + 23587 15000 15167 15223 27171 27171 0.0936654686008751 PHGRRERLRQ 10 Unmodified _PHGRRERLRQ_ 0 0 0 REV__ENST00000263635.7_1_2:160086133-160086289:+|nuORF REV__ENST00000263635.7_1_2:160086133-160086289:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 652.8754272460938 2 652.873968 1303.73338 NaN NaN NaN NaN NaN NaN NaN 104.73 1 105.32 104.82 105.82 0.59885 0 0 0 0.99774 1 48376 48376 3.5965 0.8613 1 + 23588 15000 15167 15223 27172 27172 0.0936654686008751 PHGSRKGG 8 Unmodified _PHGSRKGG_ 0 0 0 REV__ENST00000528393.1_1_11:79699022-79699172:+|nuORF REV__ENST00000528393.1_1_11:79699022-79699172:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.2160949707031 2 398.214643 794.414734 2.9212 0.0011633 0.84062 0.00033475 3.7618 0.001498 398.2149824214577 82.988 0.88587 83.235 82.965 83.851 0.24722 77 49 3 0 0 0 0.7471 1 38150 38150 0.79363 0 1 2939500 + 23589 17115 15168 15224 27173 27173 0.009303249547770065 PHGSRKGG 8 Unmodified _PHGSRKGG_ 0 0 0 REV__ENST00000528393.1_1_11:79699022-79699172:+|nuORF REV__ENST00000528393.1_1_11:79699022-79699172:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 398.214643 794.414734 3.0358 0.0012089 0.73102 0.0002911 3.7668 0.0015 398.2149759184732 82.604 1.1592 83.264 82.833 83.992 0.66019 0.01482 -3.6263E-05 NaN 0.79363 107 65 3 NaN NaN NaN NaN 0 NaN NaN 0 2574100 + 23590 17115 15168 15224 0.009303249547770065 PHHIYIQLQF 10 Unmodified _PHHIYIQLQF_ 0 0 0 REV__ATM|p.S496Ifs*16|1|0.17|ENSG00000149311|chr11:108250952-108250952|G/-|frameshift_variant REV__ATM|p.S496Ifs*16|1|0.17|ENSG00000149311|chr11:108250952-108250952|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 648.5560913085938 2 648.348397 1294.68224 NaN NaN NaN NaN NaN NaN NaN 94.62 1 95.237 94.737 95.737 0.61736 0 0 0 1.0015 1 43515 43515 0.45834 0 1 + 23591 9974 15169 15225 27174 27174 0.04668785042667878 PHHKTNWLKS 10 Unmodified _PHHKTNWLKS_ 0 0 0 REV__ENST00000496999.5_1_1:46016755-46032693:+|nuORF REV__ENST00000496999.5_1_1:46016755-46032693:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 624.3378295898438 2 624.335821 1246.65709 4.5117 0.0028168 -1.3912 -0.0008686 3.1205 0.0019482 624.3349968016953 103.02 0.16711 103.34 103.26 103.42 0.31863 12 5 3 0 0 0 0.93534 1 47647 47647 1.8442 0 1 950390 + 23592 11442 15170 15226 27175 27175 0.043627302400636836 PHHKTNWLKS 10 Unmodified _PHHKTNWLKS_ 0 0 0 REV__ENST00000496999.5_1_1:46016755-46032693:+|nuORF REV__ENST00000496999.5_1_1:46016755-46032693:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 624.335821 1246.65709 4.5117 0.0028168 -1.3912 -0.0008686 3.1205 0.0019482 624.3349968016953 103.02 0.16711 103.34 103.26 103.42 0.31863 -0.12883 -0.00013693 NaN 1.8442 12 5 3 NaN NaN NaN NaN 0 NaN NaN 0 950390 + 23593 11442 15170 15226 0.043627302400636836 PHHKTNWLKS 10 Unmodified _PHHKTNWLKS_ 0 0 0 REV__ENST00000496999.5_1_1:46016755-46032693:+|nuORF REV__ENST00000496999.5_1_1:46016755-46032693:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 624.335821 1246.65709 3.9473 0.0024644 -1.148 -0.00071672 2.7993 0.0017477 624.3350084464564 103 0.15319 103.6 103.5 103.65 0.59821 0.12883 0.00016682 NaN 1.8442 13 4 4 NaN NaN NaN NaN 0 NaN NaN 0 1621700 + 23594 11442 15170 15226 0.043627302400636836 PHHPCVDKL 9 Unmodified _PHHPCVDKL_ 0 0 0 REV__ENST00000254029.7_2_X:117543584-117544893:+|nuORF REV__ENST00000254029.7_2_X:117543584-117544893:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.7804565429688 2 523.266019 1044.51748 3.3953 0.0017767 -1.0546 -0.00055182 2.3408 0.0012248 523.2652496237982 28.93 0.46414 29.19 29.026 29.49 0.2602 51 32 2 0 0 0 0.68496 1 13107 13107 9.3474 2.6243 1 551230 + 23595 14922 15171 15227 27176 27176 -0.0029935036880033294 PHHQTSFL 8 Unmodified _PHHQTSFL_ 0 0 0 nc|ENSG00000115107|Q658P3-4|STEAP3 nc|ENSG00000115107|Q658P3-4|STEAP3 nc|ENSG00000115107|Q658P3-4|STEAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.83197021484375 3 322.831248 965.471915 1.8105 0.00058448 0.70792 0.00022854 2.5184 0.00081301 322.8312827667351 13.202 0.23925 13.509 13.388 13.627 0.30727 25 16 2 0 0 0 0.69414 1 5955 5955 4.3292 0.38484 1 165320 23596 9604 15172 15228 27177 27177 -0.012202525595284897 PHHQTSFL 8 Unmodified _PHHQTSFL_ 0 0 0 nc|ENSG00000115107|Q658P3-4|STEAP3 nc|ENSG00000115107|Q658P3-4|STEAP3 nc|ENSG00000115107|Q658P3-4|STEAP3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 322.831248 965.471915 2.4119 0.00077862 1.6181 0.00052238 4.03 0.001301 322.8314307642668 12.873 0.20078 13.516 13.379 13.58 0.64272 0.0035664 0.00065207 NaN 4.3292 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 111430 23597 9604 15172 15228 -0.012202525595284897 PHHRVIEV 8 Unmodified _PHHRVIEV_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2;ENST00000572932.1_1_16:16374097-16382502:+|nuORF ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.6839904785156 2 493.780151 985.545748 3.3301 0.0016444 -0.075964 -3.7509E-05 3.2542 0.0016068 493.7802099747943 19.071 0.24234 19.73 19.587 19.829 0.6583 28 20 2 0 0 0 0.10978 1 8660 8660 27.629 7.1752 1 610520 23598 1384 15173 15229 27178 27178 0.05239715602795059 PHHRVIEV 8 Unmodified _PHHRVIEV_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2;ENST00000572932.1_1_16:16374097-16382502:+|nuORF ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 493.780151 985.545748 3.1661 0.0015633 0.044622 2.2033E-05 3.2107 0.0015854 493.7800846275761 19.989 0.11597 19.989 19.909 20.025 0 0.12948 7.1715E-05 NaN 27.629 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 201630 23599 1384 15173 15229 0.05239715602795059 PHHWIRGNV 9 Unmodified _PHHWIRGNV_ 0 0 0 nc|ENSG00000153933|P52429-2|DGKE;ENST00000576869.5_1_17:54912147-54924989:+|nuORF;ENSG00000153933|ENST00000284061|DGKE nc|ENSG00000153933|P52429-2|DGKE nc|ENSG00000153933|P52429-2|DGKE MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.2974243164062 2 558.296499 1114.57845 NaN NaN NaN NaN NaN NaN NaN 102.67 1 102.72 102.22 103.22 0.055092 0 0 0 0.90611 1 55725 55725 2.0598 0 1 23600 3796 15174 15230 27179 27179 0.025739227256508457 PHIKSNLL 8 Unmodified _PHIKSNLL_ 0 0 0 ENSG00000158122|ENST00000375234|PRXL2C ENSG00000158122|ENST00000375234|PRXL2C ENSG00000158122|ENST00000375234|PRXL2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 307.8560791015625 3 307.855394 920.544351 1.7563 0.00054069 0.38359 0.00011809 2.1399 0.00065878 307.8555219950927 12.468 0.055584 12.729 12.695 12.751 0.26154 6 3 2 0 0 0 0.48211 1 5406 5406 16.942 0 1 6592500 23601 3976 15175 15231 27180 27180 0.08090081514046688 PHIKSNLL 8 Unmodified _PHIKSNLL_ 0 0 0 ENSG00000158122|ENST00000375234|PRXL2C ENSG00000158122|ENST00000375234|PRXL2C ENSG00000158122|ENST00000375234|PRXL2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 307.8561096191406 3 307.855394 920.544351 1.4521 0.00044704 0.64252 0.0001978 2.0946 0.00064485 307.8556067452433 12.454 0.060402 12.761 12.733 12.794 0.30727 6 2 3 0 0 0 0.48211 1 5622 5622 16.942 0 1 8003000 23602 3976 15175 15231 27181 27181 0.08090081514046688 PHILRLGLV 9 Unmodified _PHILRLGLV_ 0 0 0 REV__ENST00000564068.1_1_15:75628478-75628964:+|nuORF REV__ENST00000564068.1_1_15:75628478-75628964:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.3328857421875 2 509.332019 1016.64948 NaN NaN NaN NaN NaN NaN NaN 102.73 1 103.05 102.55 103.55 0.31863 0 0 0 0.90511 1 47513 47513 2.3027 0 1 + 23603 17396 15176 15232 27182 27182 0.14182622710450232 PHIPGKTV 8 Unmodified _PHIPGKTV_ 0 0 0 REV__TTN|p.D19631G|1|0.31|ENSG00000155657|chr2:178587396-178587396|T/C|missense_variant REV__TTN|p.D19631G|1|0.31|ENSG00000155657|chr2:178587396-178587396|T/C|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 424.7567443847656 2 424.75307 847.491587 NaN NaN NaN NaN NaN NaN NaN 25.029 1 25.297 24.797 25.797 0.26777 0 0 0 0.99035 1 11354 11354 0.79363 0 1 + 23604 18241 15177 15233 27183 27183 0.061741234512510346 PHIPISKL 8 Unmodified _PHIPISKL_ 0 0 0 ENSG00000154127|ENST00000284273|UBASH3B ENSG00000154127|ENST00000284273|UBASH3B ENSG00000154127|ENST00000284273|UBASH3B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.7851867675781 2 452.78437 903.554188 NaN NaN NaN NaN NaN NaN NaN 54.845 1 55.11 54.61 55.61 0.26543 0 0 0 0.99035 1 25070 25070 5.7604 0.52976 1 23605 3803 15178 15234 27184 27184 0.09855269519414378 PHIRRYPLRRR 11 Unmodified _PHIRRYPLRRR_ 0 0 0 REV__ENST00000292894.1_1_19:36530505-36530886:-|nuORF REV__ENST00000292894.1_1_19:36530505-36530886:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.646240234375 3 507.311282 1518.91202 2.7421 0.0013911 -2.7884 -0.0014146 -0.046333 -2.3505E-05 507.30958469061306 106.08 0.11707 106.08 106.02 106.14 0 12 5 3 0 0 0 0.91459 1 58282 58282 0.094841 0.094841 1 968590 + 23606 15133 15179 15235 27185 27185 0.17331636498943226 PHIRRYPLRRR 11 Unmodified _PHIRRYPLRRR_ 0 0 0 REV__ENST00000292894.1_1_19:36530505-36530886:-|nuORF REV__ENST00000292894.1_1_19:36530505-36530886:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 507.311282 1518.91202 2.7421 0.0013911 -2.7884 -0.0014146 -0.046333 -2.3505E-05 507.30958469061306 106.08 0.11707 106.08 106.02 106.14 0 -0.17371 -0.00074618 NaN 0.094841 12 5 3 NaN NaN NaN NaN 0 NaN NaN 0 968590 + 23607 15133 15179 15235 0.17331636498943226 PHIRRYPLRRR 11 Unmodified _PHIRRYPLRRR_ 0 0 0 REV__ENST00000292894.1_1_19:36530505-36530886:-|nuORF REV__ENST00000292894.1_1_19:36530505-36530886:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 507.311282 1518.91202 1.8433 0.00093511 -1.4171 -0.0007189 0.42618 0.00021621 507.31048421826955 106.2 0.17284 106.25 106.16 106.34 0.04837 -0.011797 0.0013409 NaN 0.094841 16 8 3 NaN NaN NaN NaN 0 NaN NaN 0 1303200 + 23608 15133 15179 15235 0.17331636498943226 PHKGARSS 8 Unmodified _PHKGARSS_ 0 0 0 REV__ENST00000455833.6_2_1:19232893-19233121:-|nuORF REV__ENST00000455833.6_2_1:19232893-19233121:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 420.2285461425781 2 420.227751 838.440949 3.0474 0.0012806 0.0085501 3.593E-06 3.056 0.0012842 420.2276117419273 85.899 0.3588 86.147 85.979 86.338 0.24857 32 17 3 0 0 0 0.74071 2 39500 39500;39568 2.5775 0 1 3156300 + 23609 16447 15180 15236 27186;27187 27186 0.015265941262327942 PHKGARSS 8 Unmodified _PHKGARSS_ 0 0 0 REV__ENST00000455833.6_2_1:19232893-19233121:-|nuORF REV__ENST00000455833.6_2_1:19232893-19233121:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 420.2291259765625 2 420.227751 838.440949 3.1495 0.0013235 0.16236 6.8229E-05 3.3118 0.0013917 420.2276950531705 85.508 0.48515 86.177 85.981 86.466 0.66924 54 22 3 0 0 0 0.70799 2 39389 39389;39442 5.2307 0 1 2860300 + 23610 16447 15180 15236 27188;27189 27188 0.015265941262327942 PHKGARSS 8 Unmodified _PHKGARSS_ 0 0 0 REV__ENST00000455833.6_2_1:19232893-19233121:-|nuORF REV__ENST00000455833.6_2_1:19232893-19233121:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 420.227751 838.440949 3.0474 0.0012806 0.0085501 3.593E-06 3.056 0.0012842 420.2276117419273 85.899 0.3588 86.147 85.979 86.338 0.24857 -0.014874 -6.0736E-05 NaN 5.2307 32 17 3 NaN NaN NaN NaN 0 NaN NaN 0 3156300 + 23611 16447 15180 15236 0.015265941262327942 PHKGARSS 8 Unmodified _PHKGARSS_ 0 0 0 REV__ENST00000455833.6_2_1:19232893-19233121:-|nuORF REV__ENST00000455833.6_2_1:19232893-19233121:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 420.227751 838.440949 3.1495 0.0013235 0.16236 6.8229E-05 3.3118 0.0013917 420.2276950531705 85.508 0.48515 86.177 85.981 86.466 0.66924 0.014874 6.8537E-05 NaN 5.2307 54 22 3 NaN NaN NaN NaN 0 NaN NaN 0 2860300 + 23612 16447 15180 15236 0.015265941262327942 PHKKRSKSR 9 Unmodified _PHKKRSKSR_ 0 0 0 nc|ENSG00000153914|Q8WXA9|SREK1;ENSG00000153914|ENST00000334121|SREK1 nc|ENSG00000153914|Q8WXA9|SREK1 nc|ENSG00000153914|Q8WXA9|SREK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.3441162109375 2 562.343981 1122.67341 3.0773 0.0017305 -1.6077 -0.00090407 1.4696 0.00082643 562.3429683295866 103.07 0.15953 103.07 103 103.16 0 16 6 3 0 0 0 1.2078 1 56852 56852 0.6015 0.076735 1 749980 23613 3794 15181 15237 27190 27190 0.11697856196838075 PHKKRSKSR 9 Unmodified _PHKKRSKSR_ 0 0 0 nc|ENSG00000153914|Q8WXA9|SREK1;ENSG00000153914|ENST00000334121|SREK1 nc|ENSG00000153914|Q8WXA9|SREK1 nc|ENSG00000153914|Q8WXA9|SREK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.3457641601562 2 562.343981 1122.67341 4.4045 0.0024769 -1.6424 -0.00092357 2.7622 0.0015533 562.3430205428509 102.78 0.21803 103.1 102.96 103.18 0.31863 23 9 3 0 0 0 1.2078 1 47517 47517 0.6015 0 1 3348500 23614 3794 15181 15237 27191 27191 0.11697856196838075 PHKKRSKSR 9 Unmodified _PHKKRSKSR_ 0 0 0 nc|ENSG00000153914|Q8WXA9|SREK1;ENSG00000153914|ENST00000334121|SREK1 nc|ENSG00000153914|Q8WXA9|SREK1 nc|ENSG00000153914|Q8WXA9|SREK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.3449096679688 2 562.343981 1122.67341 3.7645 0.0021169 -0.99057 -0.00055704 2.7739 0.0015599 562.3434366720605 102.74 0.15085 103.34 103.25 103.4 0.59758 22 7 4 0 0 0 1.101 1 47536 47536 2.3027 0.4585 1 1120000 23615 3794 15181 15237 27192 27192 0.11697856196838075 PHKKVFNL 8 Unmodified _PHKKVFNL_ 0 0 0 REV__ENSG00000168758|ENST00000305476|SEMA4C REV__ENSG00000168758|ENST00000305476|SEMA4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.79827880859375 2 491.795269 981.575986 2.8829 0.0014178 1.574 0.00077407 4.4569 0.0021919 491.7960620613443 58.439 0.30559 59.198 59.044 59.349 0.75894 36 24 2 0 0 0 0.66653 1 26785 26785 8.5933 3.3626 1 811000 + 23616 13364 15182 15238 27193 27193 0.08446074267999393 PHKKVFNL 8 Unmodified _PHKKVFNL_ 0 0 0 REV__ENSG00000168758|ENST00000305476|SEMA4C REV__ENSG00000168758|ENST00000305476|SEMA4C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 491.795269 981.575986 2.8829 0.0014178 1.574 0.00077407 4.4569 0.0021919 491.7960620613443 58.439 0.30559 59.198 59.044 59.349 0.75894 0.041547 -0.00010138 NaN 8.5933 36 24 2 NaN NaN NaN NaN 0 NaN NaN 0 811000 + 23617 13364 15182 15238 0.08446074267999393 PHKKVFNL 8 Unmodified _PHKKVFNL_ 0 0 0 REV__ENSG00000168758|ENST00000305476|SEMA4C REV__ENSG00000168758|ENST00000305476|SEMA4C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 491.795269 981.575986 3.1704 0.0015592 1.7724 0.00087167 4.9428 0.0024309 491.7959643137545 58.852 0.37877 59.115 59.017 59.396 0.26227 -0.041547 9.3812E-05 NaN 8.5933 36 20 2 NaN NaN NaN NaN 0 NaN NaN 0 656260 + 23618 13364 15182 15238 0.08446074267999393 PHKQKAWKI 9 Unmodified _PHKQKAWKI_ 0 0 0 nc|ENSG00000253771|Q5T6R2-2|TPTE2P1;nc|ENSG00000253771|Q5T6R2|TPTE2P1;nc|ENSG00000132958|Q6XPS3-6|TPTE2;nc|ENSG00000132958|Q6XPS3-5|TPTE2;nc|ENSG00000132958|Q6XPS3-3|TPTE2;nc|ENSG00000132958|Q6XPS3-2|TPTE2;ENSG00000132958|ENST00000697147|TPTE2 nc|ENSG00000253771|Q5T6R2-2|TPTE2P1 nc|ENSG00000253771|Q5T6R2-2|TPTE2P1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.0611572265625 3 379.229342 1134.6662 2.7093 0.0010274 0.36867 0.00013981 3.078 0.0011673 379.22927228056324 31.39 0.24983 32.007 31.926 32.175 0.61737 28 16 2 0 0 0 0.11267 1 14371 14371 2.7352 0 1 442720 23619 2737 15183 15239 27194 27194 0.10425123596405683 PHKSKFHY 8 Unmodified _PHKSKFHY_ 0 0 0 REV__nc|ENSG00000084093|Q13127-4|REST REV__nc|ENSG00000084093|Q13127-4|REST MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.2777709960938 2 522.274701 1042.53485 NaN NaN NaN NaN NaN NaN NaN 29.309 1 29.309 28.809 29.809 0 0 0 0 0.99035 1 13226 13226 2.8892 0.31174 1 + 23620 10634 15184 15240 27195 27195 0.015283132285276224 PHLDGIKPLS 10 Unmodified _PHLDGIKPLS_ 0 0 0 REV__nc|ENSG00000163359|P12111-3|COL6A3 REV__nc|ENSG00000163359|P12111-3|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.8084106445312 2 538.808574 1075.60259 3.9727 0.0021405 -1.4746 -0.00079453 2.498 0.001346 539.3100980917477 97.761 0.22334 98.05 97.871 98.095 0.28923 33 14 3 0 0 0 0.90196 1 44916 44916 3.5965 0 1 9752300 + 23621 10069 15185 15241 27196 27196 0.06781718368665679 PHLKAYKARK 10 Unmodified _PHLKAYKARK_ 0 0 0 REV__UBTF|p.D239Tfs*5|1|0.25|ENSG00000108312|chr17:44212400-44212400|C/-|frameshift_variant REV__UBTF|p.D239Tfs*5|1|0.25|ENSG00000108312|chr17:44212400-44212400|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.3709106445312 2 606.372207 1210.72986 NaN NaN NaN NaN NaN NaN NaN 104.08 1 104.14 103.64 104.64 0.052994 0 0 0 1.0015 1 56378 56378 0.45834 0 1 + 23622 11138 15186 15242 27197 27197 0.132924840334681 PHLKLSDR 8 Unmodified _PHLKLSDR_ 0 0 0 REV__nc|ENSG00000102908|O94916-3|NFAT5 REV__nc|ENSG00000102908|O94916-3|NFAT5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.52313232421875 3 322.522414 964.545414 2.136 0.00068892 -0.13725 -4.4265E-05 1.9988 0.00064465 322.5223694851372 17.256 0.47268 17.56 17.206 17.679 0.30438 56 35 2 0 0 0 0.74071 1 7815 7815 1.6526 0.58116 1 83168 + 23623 10951 15187 15243 27198 27198 0.06172295882947765 PHLKLVKR 8 Unmodified _PHLKLVKR_ 0 0 0 REV__ENSG00000256525|ENST00000539111|POLG2 REV__ENSG00000256525|ENST00000539111|POLG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.96063232421875 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 101.44 1 101.75 101.25 102.25 0.31412 0 0 0 0.99035 1 46937 46937 2.8892 0 1 + 23624 14678 15188 15244 27199 27199 0.15458042430327623 PHLKRLVP 8 Unmodified _PHLKRLVP_ 0 0 0 REV__nc|ENSG00000188916|Q6ZSG2-2|INSYN2A REV__nc|ENSG00000188916|Q6ZSG2-2|INSYN2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 959.478759765625 1 959.614897 958.60762 3.1428 0.0030159 -2.0957 -0.0020111 1.047 0.0010048 959.6166526823814 85.288 0.029373 85.288 85.27 85.3 0 5 3 2 0 0 0 0.69414 1 43373 43373 6.3541 0 1 8912100 + 23625 14167 15189 15245 27200 27200 0.12666067021939398 PHLLKAVSKS 10 Unmodified _PHLLKAVSKS_ 0 0 0 REV__nc|ENSG00000145757|Q9BWV2-3|SPATA9 REV__nc|ENSG00000145757|Q9BWV2-3|SPATA9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.3314819335938 2 540.332216 1078.64988 3.5709 0.0019295 -2.3216 -0.0012544 1.2493 0.00067504 540.3308126168854 102.43 0.19482 103.03 102.91 103.1 0.59759 16 6 4 0 0 0 0.93534 1 47416 47416 1.8442 0 1 1417700 + 23626 12456 15190 15246 27201 27201 0.11369997639667417 PHLLRPSVN 9 Unmodified _PHLLRPSVN_ 0 0 0 REV__nc|ENSG00000137075|Q9H0F5-3|RNF38 REV__nc|ENSG00000137075|Q9H0F5-3|RNF38 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 517.0675048828125 2 516.801083 1031.58761 NaN NaN NaN NaN NaN NaN NaN 86.327 1 86.357 85.857 86.857 0.030289 0 0 0 0.86044 1 43410 43410 7.2892 0.56607 1 + 23627 12096 15191 15247 27202 27202 0.07308271291344681 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 302.1967468261719 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 47.985 1 47.985 47.485 48.485 0 0 0 0 0.99035 1 21975 21975 0.45834 0.057624 1 23628 2520 15192 15248 27203 27203 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 302.19659423828125 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 56.704 1 56.704 56.204 57.204 0 0 0 0 0.99035 1 26102 26102 0.45834 0.057624 1 23629 2520 15192 15248 27204 27204 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 302.19671630859375 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 57.472 1 57.472 56.972 57.972 0 0 0 0 0.99035 1 26491 26491 0.45834 0.057624 1 23630 2520 15192 15248 27205 27205 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 302.2044677734375 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 59.781 1 60.53 60.03 61.03 0.74927 0 0 0 0.99035 1 27469 27469 0.45834 0.057624 1 23631 2520 15192 15248 27206 27206 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 302.1969299316406 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 59.081 1 59.34 58.84 59.84 0.2593 0 0 0 0.99035 1 27056 27056 0.45834 0.057624 1 23632 2520 15192 15248 27207 27207 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 302.19757080078125 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 61.192 1 61.444 60.944 61.944 0.25245 0 0 0 0.99035 1 28023 28023 0.45834 0.057624 1 23633 2520 15192 15248 27208 27208 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 302.1966247558594 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 62.273 1 62.522 62.022 63.022 0.24965 0 0 0 0.99035 1 28510 28510 0.45834 0.057624 1 23634 2520 15192 15248 27209 27209 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 302.19696044921875 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 63.73 1 63.978 63.478 64.478 0.24803 0 0 0 0.99035 1 29188 29188 0.45834 0.057624 1 23635 2520 15192 15248 27210 27210 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 302.197265625 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 63.84 1 64.088 63.588 64.588 0.24803 0 0 0 0.99035 1 29238 29238 0.45834 0.057624 1 23636 2520 15192 15248 27211 27211 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 302.19720458984375 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 64.159 1 64.407 63.907 64.907 0.24803 0 0 0 0.99035 1 29385 29385 0.45834 0.057624 1 23637 2520 15192 15248 27212 27212 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 302.1966247558594 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 64.759 1 65.007 64.507 65.507 0.24803 0 0 0 0.99035 1 29669 29669 0.45834 0.057624 1 23638 2520 15192 15248 27213 27213 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 302.1969299316406 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 65.803 1 66.051 65.551 66.551 0.24848 0 0 0 0.99035 1 30145 30145 0.45834 0.057624 1 23639 2520 15192 15248 27214 27214 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 302.19635009765625 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 69.951 1 70.207 69.707 70.707 0.25642 0 0 0 0.99035 1 32033 32033 0.45834 0.057624 1 23640 2520 15192 15248 27215 27215 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.1968994140625 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 46.913 1 47.566 47.066 48.066 0.65219 0 0 0 0.99035 1 21485 21485 0.45834 0.057624 1 23641 2520 15192 15248 27216 27216 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.1966857910156 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 54.388 1 55.055 54.555 55.555 0.6665 0 0 0 0.99035 1 24878 24878 0.45834 0.057624 1 23642 2520 15192 15248 27217 27217 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.1971435546875 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 55.259 1 55.927 55.427 56.427 0.66798 0 0 0 0.99035 1 25284 25284 0.45834 0.057624 1 23643 2520 15192 15248 27218 27218 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.1965637207031 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 56.376 1 57.044 56.544 57.544 0.66829 0 0 0 0.99035 1 25789 25789 0.45834 0.057624 1 23644 2520 15192 15248 27219 27219 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.1969909667969 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 62.252 1 62.912 62.412 63.412 0.66008 0 0 0 0.99035 1 28526 28526 0.45834 0.057624 1 23645 2520 15192 15248 27220 27220 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.1969909667969 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 62.354 1 63.014 62.514 63.514 0.66008 0 0 0 0.99035 1 28573 28573 0.45834 0.057624 1 23646 2520 15192 15248 27221 27221 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.1958923339844 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 63.024 1 63.682 63.182 64.182 0.65808 0 0 0 0.99035 1 28880 28880 0.45834 0.057624 1 23647 2520 15192 15248 27222 27222 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.1965637207031 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 63.215 1 63.873 63.373 64.373 0.65808 0 0 0 0.99035 1 28967 28967 0.45834 0.057624 1 23648 2520 15192 15248 27223 27223 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.1966247558594 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 63.778 1 64.435 63.935 64.935 0.65672 0 0 0 0.99035 1 29229 29229 0.45834 0.057624 1 23649 2520 15192 15248 27224 27224 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.19683837890625 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 63.928 1 64.585 64.085 65.085 0.65672 0 0 0 0.99035 1 29298 29298 0.45834 0.057624 1 23650 2520 15192 15248 27225 27225 0.10978091613571905 PHLPGKKK 8 Unmodified _PHLPGKKK_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.19659423828125 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 64.72 1 65.377 64.877 65.877 0.65672 0 0 0 0.99035 1 29669 29669 0.45834 0.057624 1 23651 2520 15192 15248 27226 27226 0.10978091613571905 PHLPTGDA 8 Unmodified _PHLPTGDA_ 0 0 0 REV__ENST00000590513.2_1_17:40705339-40705789:-|nuORF REV__ENST00000590513.2_1_17:40705339-40705789:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 404.2047424316406 2 404.20341 806.392267 3.091 0.0012494 0.013243 5.3529E-06 3.1043 0.0012548 404.20337033928246 86.203 0.38752 86.874 86.67 87.058 0.67061 26 21 2 0 0 0 0.73686 1 39703 39703 2.8892 0 1 529270 + 23652 17574 15193 15249 27227 27227 -0.01867319233519993 PHLPTGDA 8 Unmodified _PHLPTGDA_ 0 0 0 REV__ENST00000590513.2_1_17:40705339-40705789:-|nuORF REV__ENST00000590513.2_1_17:40705339-40705789:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 404.20341 806.392267 3.1341 0.0012668 -0.46177 -0.00018665 2.6724 0.0010802 404.2030382593061 86.515 0.055267 86.765 86.719 86.774 0.24974 -0.054499 -0.00024569 NaN 2.8892 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 377380 + 23653 17574 15193 15249 -0.01867319233519993 PHLPTGDA 8 Unmodified _PHLPTGDA_ 0 0 0 REV__ENST00000590513.2_1_17:40705339-40705789:-|nuORF REV__ENST00000590513.2_1_17:40705339-40705789:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 404.20341 806.392267 3.091 0.0012494 0.013243 5.3529E-06 3.1043 0.0012548 404.20337033928246 86.203 0.38752 86.874 86.67 87.058 0.67061 0.054499 0.00013831 NaN 2.8892 26 21 2 NaN NaN NaN NaN 0 NaN NaN 0 529270 + 23654 17574 15193 15249 -0.01867319233519993 PHLQKILF 8 Unmodified _PHLQKILF_ 0 0 0 REV__KLHL4|p.S586Qfs*37|1|0.73|ENSG00000102271|chrX:87635606-87635606|T/-|frameshift_variant REV__KLHL4|p.S586Qfs*37|1|0.73|ENSG00000102271|chrX:87635606-87635606|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.3072509765625 2 498.30547 994.596387 3.2084 0.0015988 2.6416 0.0013163 5.85 0.0029151 498.30597410148545 36.369 0.26955 36.627 36.45 36.719 0.25768 17 10 2 0 0 0 0.70146 1 16587 16587 5.7604 0 1 272260 + 23655 10927 15194 15250 27228 27228 0.09887244927813299 PHLQRQRRKRQ 11 Unmodified _PHLQRQRRKRQ_ 0 0 0 REV__ENSG00000185290|ENST00000329309|NUPR2 REV__ENSG00000185290|ENST00000329309|NUPR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.6358337402344 3 501.634424 1501.88144 1.7872 0.00089654 1.1246 0.00056415 2.9119 0.0014607 501.63501083338247 106.2 0.14378 106.25 106.19 106.34 0.04837 10 7 2 0 0 0 0.91459 1 57475 57475 0.094841 0.011491 1 1438000 + 23656 14011 15195 15251 27229 27229 0.15057858113914335 PHLQRQRRKRQ 11 Unmodified _PHLQRQRRKRQ_ 0 0 0 REV__ENSG00000185290|ENST00000329309|NUPR2 REV__ENSG00000185290|ENST00000329309|NUPR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.6365661621094 3 501.634424 1501.88144 4.0598 0.0020366 0.083707 4.199E-05 4.1435 0.0020785 501.63440044218083 106.13 0.12125 106.44 106.37 106.49 0.31628 12 4 3 0 0 0 0.91459 1 48987 48987 0.094841 0 1 859530 + 23657 14011 15195 15251 27230 27230 0.15057858113914335 PHLSRRRRNKR 11 Unmodified _PHLSRRRRNKR_ 0 0 0 ENSG00000125966|ENST00000246186|MMP24 ENSG00000125966|ENST00000246186|MMP24 ENSG00000125966|ENST00000246186|MMP24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.6360778808594 3 492.634536 1474.88178 1.894 0.00093303 1.471 0.00072466 3.3649 0.0016577 492.63520504918426 106.14 0.15555 106.19 106.08 106.24 0.04837 11 6 3 0 0 0 0.91378 1 57432 57432 0.094841 0 1 1031700 23658 2436 15196 15252 27231 27231 0.1633327783376899 PHLSRRRRNKR 11 Unmodified _PHLSRRRRNKR_ 0 0 0 ENSG00000125966|ENST00000246186|MMP24 ENSG00000125966|ENST00000246186|MMP24 ENSG00000125966|ENST00000246186|MMP24 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.6358337402344 3 492.634536 1474.88178 NaN NaN NaN NaN NaN NaN NaN 106.05 1 106.37 105.87 106.87 0.31628 0 0 0 1.008 1 48949 48949 0.094841 0 1 23659 2436 15196 15252 27232 27232 0.1633327783376899 PHLSRRRRNKR 11 Unmodified _PHLSRRRRNKR_ 0 0 0 ENSG00000125966|ENST00000246186|MMP24 ENSG00000125966|ENST00000246186|MMP24 ENSG00000125966|ENST00000246186|MMP24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.63568115234375 3 492.634536 1474.88178 3.4164 0.001683 -0.22049 -0.00010862 3.1959 0.0015744 492.6345069860288 106.01 0.19281 106.61 106.52 106.71 0.59969 12 7 2 0 0 0 0.91378 1 48951 48951 0.094841 0.011491 1 1106000 23660 2436 15196 15252 27233 27233 0.1633327783376899 PHLVDLQL 8 Unmodified _PHLVDLQL_ 0 0 0 REV__ENST00000544007.5_1_14:31061550-31062714:+|nuORF REV__ENST00000544007.5_1_14:31061550-31062714:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.7728271484375 2 467.77146 933.528367 2.9566 0.001383 0.29387 0.00013747 3.2505 0.0015205 467.77144560681404 64.502 0.25929 65.159 65.035 65.294 0.65672 21 10 3 0 0 0 0.23254 1 29560 29560 40.449 4.4044 1 863500 + 23661 17235 15197 15253 27234 27234 0.05894375277148356 PHMLFDRIRL 10 Unmodified _PHMLFDRIRL_ 0 0 0 ENST00000586287.1_1_6:41250094-41254393:-|nuORF;nc|ENSG00000124731|Q9NP99-2|TREM1;nc|ENSG00000124731|Q9NP99-3|TREM1;ENSG00000124731|ENST00000244709|TREM1 ENST00000586287.1_1_6:41250094-41254393:-|nuORF ENST00000586287.1_1_6:41250094-41254393:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 649.365478515625 2 649.363524 1296.7125 NaN NaN NaN NaN NaN NaN NaN 82.224 1 82.884 82.384 83.384 0.66011 0 0 0 0.99983 1 37886 37886 1.8442 0 1 23662 2373 15198 15254 27235 27235 0.0760082043618695 PHNRRKLSV 9 Unmodified _PHNRRKLSV_ 0 0 0 REV__ENST00000502001.2_1_5:8460214-8460322:+|nuORF REV__ENST00000502001.2_1_5:8460214-8460322:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.831787109375 2 553.830706 1105.64686 3.7295 0.0020655 -0.77365 -0.00042847 2.9558 0.001637 553.8301045560115 102.73 0.15085 103.33 103.25 103.4 0.59759 18 7 3 0 0 0 1.101 1 47540 47540 2.3027 0 1 1156800 + 23663 16883 15199 15255 27236 27236 0.09826167305504896 PHNWPKRRVTC 11 Unmodified _PHNWPKRRVTC_ 0 0 0 REV__ENST00000483934.5_1_17:27253816-27277921:-|nuORF REV__ENST00000483934.5_1_17:27253816-27277921:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 697.3665161132812 2 697.36713 1392.71971 NaN NaN NaN NaN NaN NaN NaN 49.656 1 50.479 49.979 50.979 0.82285 0 0 0 1.0072 1 22620 22620 1.3295 0.36726 1 + 23664 16727 15200 15256 27237 27237 0.03905553036611309 PHPAAARQ 8 Unmodified _PHPAAARQ_ 0 0 0 ENST00000380770.3_1_19:10397831-10398857:+|nuORF ENST00000380770.3_1_19:10397831-10398857:+|nuORF ENST00000380770.3_1_19:10397831-10398857:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 424.230224609375 2 424.230294 846.446034 NaN NaN NaN NaN NaN NaN NaN 96.345 1 96.952 96.452 97.452 0.60769 0 0 0 0.99035 1 44300 44300 5.2307 0 1 23665 7472 15201 15257 27238 27238 0.01666897988832261 PHPARVRER 9 Unmodified _PHPARVRER_ 0 0 0 ENST00000515742.1_3_6:18258274-18264279:-|nuORF;ENST00000244776.11_1_6:18258274-18264769:-|nuORF;ENST00000505224.5_1_6:18258244-18264760:-|nuORF;ENST00000397239.7_1_6:18258274-18264769:-|nuORF ENST00000515742.1_3_6:18258274-18264279:-|nuORF ENST00000515742.1_3_6:18258274-18264279:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.9229736328125 2 559.320506 1116.62646 NaN NaN NaN NaN NaN NaN NaN 84.868 1 84.897 84.397 85.397 0.028603 0 0 0 0.77475 1 42426 42426 10.074 1.3285 1 23666 6483 15202 15258 27239 27239 0.07280996645681626 PHPEHSQPLQ 10 Unmodified _PHPEHSQPLQ_ 0 0 0 ENST00000487702.1_1_3:184059912-184060866:+|nuORF ENST00000487702.1_1_3:184059912-184060866:+|nuORF ENST00000487702.1_1_3:184059912-184060866:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 390.5292663574219 3 390.528117 1168.56252 2.7608 0.0010782 0.33989 0.00013274 3.1007 0.0012109 390.52825970077464 20.897 0.50877 20.897 20.59 21.098 0 128 39 4 0 0 0 0.58053 2 9409 9269;9409 11.518 1.9739 1 3322000 23667 8354 15203 15259 27240;27241 27241 -0.015018283019117007 PHPGGPGG 8 Unmodified _PHPGGPGG_ 0 0 0 REV__ENST00000448120.6_1_12:3050000-3050282:+|nuORF REV__ENST00000448120.6_1_12:3050000-3050282:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 675.3232421875 1 675.320899 674.313623 3.4997 0.0023634 1.0983 0.00074169 4.598 0.0031051 675.3214672129454 73.047 0.21329 73.306 73.247 73.46 0.25876 46 25 2 0 0 0 0.73686 1 33590 33590 2.8892 0 1 1799500 + 23668 16393 15204 15260 27242 27242 -0.036561267479441995 PHPGGPGG 8 Unmodified _PHPGGPGG_ 0 0 0 REV__ENST00000448120.6_1_12:3050000-3050282:+|nuORF REV__ENST00000448120.6_1_12:3050000-3050282:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 675.323486328125 1 675.320899 674.313623 3.3578 0.0022676 0.48477 0.00032737 3.8426 0.002595 675.3211083694747 72.744 0.83014 73.408 73.174 74.004 0.66397 152 93 2 0 0 0 0.7471 1 33632 33632 0.79363 0 1 4185300 + 23669 16393 15204 15260 27243 27243 -0.036561267479441995 PHPGGPGG 8 Unmodified _PHPGGPGG_ 0 0 0 REV__ENST00000448120.6_1_12:3050000-3050282:+|nuORF REV__ENST00000448120.6_1_12:3050000-3050282:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 675.320899 674.313623 3.4997 0.0023634 1.0983 0.00074169 4.598 0.0031051 675.3214672129454 73.047 0.21329 73.306 73.247 73.46 0.25876 -0.050959 0.00023256 NaN 2.8892 46 25 2 NaN NaN NaN NaN 0 NaN NaN 0 1799500 + 23670 16393 15204 15260 -0.036561267479441995 PHPGGPGG 8 Unmodified _PHPGGPGG_ 0 0 0 REV__ENST00000448120.6_1_12:3050000-3050282:+|nuORF REV__ENST00000448120.6_1_12:3050000-3050282:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 675.320899 674.313623 3.3578 0.0022676 0.48477 0.00032737 3.8426 0.002595 675.3211083694747 72.744 0.83014 73.408 73.174 74.004 0.66397 0.050959 -0.00018176 NaN 2.8892 152 93 2 NaN NaN NaN NaN 0 NaN NaN 0 4185300 + 23671 16393 15204 15260 -0.036561267479441995 PHPILCCL 8 Unmodified _PHPILCCL_ 0 0 0 Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|189|2|anti-sense Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|189|2|anti-sense Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|189|2|anti-sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 448.2318420410156 2 448.230059 894.445565 2.6038 0.0011671 1.2309 0.00055171 3.8346 0.0017188 448.23074537780093 80.335 0.54923 80.584 80.335 80.884 0.24947 45 32 2 0 0 0 0.73686 1 37018 37018 2.8892 0 1 261470 23672 9393 15205 15261 27244 27244 -0.005879810468741198 PHPLQRLRVPP 11 Unmodified _PHPLQRLRVPP_ 0 0 0 ENST00000540037.5_2_12:6464995-6472854:-|nuORF;nc|ENSG00000111319|P37088-3|SCNN1A;nc|ENSG00000111319|P37088-4|SCNN1A;ENSG00000111319|ENST00000228916|SCNN1A;nc|ENSG00000111319|P37088-5|SCNN1A;nc|ENSG00000111319|P37088-6|SCNN1A;nc|ENSG00000111319|P37088-2|SCNN1A ENST00000540037.5_2_12:6464995-6472854:-|nuORF ENST00000540037.5_2_12:6464995-6472854:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.2021789550781 4 328.201745 1308.77787 1.9445 0.00063818 1.4328 0.00047023 3.3772 0.0011084 328.2016229938826 50.965 1.3749 51.782 51.322 52.697 0.81738 210 89 5 0 0 0 0.89544 1 23128 23128 2.6312 0.72486 1 15092000 23673 1754 15206 15262 27245 27245 0.13583557953529635 PHPLQRLRVPP 11 Unmodified _PHPLQRLRVPP_ 0 0 0 ENST00000540037.5_2_12:6464995-6472854:-|nuORF;nc|ENSG00000111319|P37088-3|SCNN1A;nc|ENSG00000111319|P37088-4|SCNN1A;ENSG00000111319|ENST00000228916|SCNN1A;nc|ENSG00000111319|P37088-5|SCNN1A;nc|ENSG00000111319|P37088-6|SCNN1A;nc|ENSG00000111319|P37088-2|SCNN1A ENST00000540037.5_2_12:6464995-6472854:-|nuORF ENST00000540037.5_2_12:6464995-6472854:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.2033996582031 4 328.201745 1308.77787 2.2393 0.00073494 0.92397 0.00030325 3.1633 0.0010382 328.20136149675 51.436 1.2087 51.698 51.217 52.426 0.26228 263 71 5 0 0 0 0.91068 1 23473 23473 1.3296 0.21989 1 28301000 23674 1754 15206 15262 27246 27246 0.13583557953529635 PHPPTGTG 8 Unmodified _PHPPTGTG_ 0 0 0 ENST00000559541.1_1_15:52416976-52428016:-|nuORF ENST00000559541.1_1_15:52416976-52428016:-|nuORF ENST00000559541.1_1_15:52416976-52428016:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.1923828125 2 382.190303 762.366053 NaN NaN NaN NaN NaN NaN NaN 82.481 1 83.142 82.642 83.642 0.66019 0 0 0 0.99035 1 38003 38003 2.8892 0 1 23675 8966 15207 15263 27247 27247 -0.024635884049871493 PHPRPLVG 8 Unmodified _PHPRPLVG_ 0 0 0 ENST00000322610.12_2_16:28877422-28877698:+|nuORF ENST00000322610.12_2_16:28877422-28877698:+|nuORF ENST00000322610.12_2_16:28877422-28877698:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 436.7606506347656 2 436.758687 871.502821 3.1447 0.0013735 0.74276 0.00032441 3.8874 0.0016979 436.75881267845824 68.072 0.29662 68.324 68.154 68.451 0.25227 41 22 2 0 0 0 0.7441 1 31178 31178 2.3027 0 1 827020 23676 6941 15208 15264 27248 27248 0.061929455453764604 PHPRPLVG 8 Unmodified _PHPRPLVG_ 0 0 0 ENST00000322610.12_2_16:28877422-28877698:+|nuORF ENST00000322610.12_2_16:28877422-28877698:+|nuORF ENST00000322610.12_2_16:28877422-28877698:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 436.758687 871.502821 2.3063 0.0010073 -0.0074204 -3.2409E-06 2.2988 0.001004 436.7589789350048 68.338 0.16272 68.338 68.296 68.459 0 0.067908 -0.00064697 NaN 2.3027 27 21 2 NaN NaN NaN NaN 0 NaN NaN 0 949740 23677 6941 15208 15264 0.061929455453764604 PHPRPLVG 8 Unmodified _PHPRPLVG_ 0 0 0 ENST00000322610.12_2_16:28877422-28877698:+|nuORF ENST00000322610.12_2_16:28877422-28877698:+|nuORF ENST00000322610.12_2_16:28877422-28877698:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 436.758687 871.502821 3.0354 0.0013257 1.0321 0.00045079 4.0675 0.0017765 436.758946898829 67.491 0.32454 68.149 67.955 68.279 0.65777 -0.12153 0.00026108 NaN 2.3027 38 21 2 NaN NaN NaN NaN 0 NaN NaN 0 651130 23678 6941 15208 15264 0.061929455453764604 PHPRPRARLR 10 Unmodified _PHPRPRARLR_ 0 0 0 REV__ENST00000534680.5_1_8:145751978-145752622:-|nuORF REV__ENST00000534680.5_1_8:145751978-145752622:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 628.3837890625 2 628.383971 1254.75339 NaN NaN NaN NaN NaN NaN NaN 103.82 1 104.14 103.64 104.64 0.31863 0 0 0 1.0015 1 47992 47992 0.45834 0 1 + 23679 17169 15209 15265 27249 27249 0.13620342590661494 PHPSPDVVL 9 Unmodified _PHPSPDVVL_ 0 0 0 REV__nc|ENSG00000168062|Q8N1L9-2|BATF2 REV__nc|ENSG00000168062|Q8N1L9-2|BATF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.76239013671875 2 480.761092 959.507631 NaN NaN NaN NaN NaN NaN NaN 51.668 1 52.479 51.979 52.979 0.81065 0 0 0 0.56337 1 23535 23535 16.942 1.0951 1 + 23680 13328 15210 15266 27250 27250 0.026257848974637454 PHPVLGRP 8 Unmodified _PHPVLGRP_ 0 0 0 ENSG00000123364|ENST00000243056|HOXC13 ENSG00000123364|ENST00000243056|HOXC13 ENSG00000123364|ENST00000243056|HOXC13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 436.7605895996094 2 436.758687 871.502821 3.1827 0.0013901 1.0071 0.00043986 4.1898 0.0018299 436.7588099383 68.802 0.28542 69.056 68.89 69.176 0.25443 25 16 2 0 0 0 0.74071 2 31494 31494;31543 2.5775 0 1 473720 23681 2309 15211 15267 27251;27252 27251 0.061929455453764604 PHPVLGRP 8 Unmodified _PHPVLGRP_ 0 0 0 ENSG00000123364|ENST00000243056|HOXC13 ENSG00000123364|ENST00000243056|HOXC13 ENSG00000123364|ENST00000243056|HOXC13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 436.7614440917969 2 436.758687 871.502821 2.9375 0.001283 0.56458 0.00024659 3.5021 0.0015296 436.75884648036674 68.217 0.23846 68.876 68.757 68.995 0.65924 25 15 2 0 0 0 0.74071 1 31242 31242 2.5775 0 1 511640 23682 2309 15211 15267 27253 27253 0.061929455453764604 PHQAPGRPR 9 Unmodified _PHQAPGRPR_ 0 0 0 REV__ENST00000303991.4_1_5:176023307-176023586:-|nuORF REV__ENST00000303991.4_1_5:176023307-176023586:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.2828674316406 2 508.280849 1014.54715 3.513 0.0017856 -1.0787 -0.00054826 2.4344 0.0012373 508.28017554743656 95.586 0.45586 96.194 95.997 96.453 0.60769 70 24 4 0 0 0 0.95612 2 43958 43958;44006 4.756 1.2661 1 2781800 + 23683 15217 15212 15268 27254;27255 27254 0.04045349691557476 PHQAPGRPR 9 Unmodified _PHQAPGRPR_ 0 0 0 REV__ENST00000303991.4_1_5:176023307-176023586:-|nuORF REV__ENST00000303991.4_1_5:176023307-176023586:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 508.280849 1014.54715 4.0616 0.0020644 -1.7213 -0.00087491 2.3402 0.0011895 508.2797575313298 96.125 0.37599 96.403 96.171 96.547 0.27779 0.10427 -0.0003271 NaN 4.756 53 18 4 NaN NaN NaN NaN 0 NaN NaN 0 2585000 + 23684 15217 15212 15268 0.04045349691557476 PHQQIQAQ 8 Unmodified _PHQQIQAQ_ 0 0 0 ENSG00000198218|ENST00000395443|QRICH1 ENSG00000198218|ENST00000395443|QRICH1 ENSG00000198218|ENST00000395443|QRICH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.2475280761719 2 475.246141 948.477728 3.236 0.0015379 -1.3477 -0.00064051 1.8882 0.00089737 475.2455956882153 90.944 0.31531 91.617 91.379 91.694 0.67271 30 19 2 0 0 0 0.70799 1 41802 41802 5.2307 0 1 307700 23685 5877 15213 15269 27256 27256 0.0014284595213212015 PHQQIQAQ 8 Unmodified _PHQQIQAQ_ 0 0 0 ENSG00000198218|ENST00000395443|QRICH1 ENSG00000198218|ENST00000395443|QRICH1 ENSG00000198218|ENST00000395443|QRICH1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 475.246141 948.477728 3.4787 0.0016532 -2.2915 -0.001089 1.1872 0.00056421 475.24513935203146 91.26 0.23482 91.511 91.423 91.658 0.25163 -0.052743 -0.00033187 NaN 5.2307 14 8 2 NaN NaN NaN NaN 0 NaN NaN 0 304340 23686 5877 15213 15269 0.0014284595213212015 PHRENLWLWGW 11 Unmodified _PHRENLWLWGW_ 0 0 0 ENST00000553142.5_1_12:58019947-58020121:-|nuORF ENST00000553142.5_1_12:58019947-58020121:-|nuORF ENST00000553142.5_1_12:58019947-58020121:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 747.3787231445312 2 747.375478 1492.7364 NaN NaN NaN NaN NaN NaN NaN 65.106 1 65.763 65.263 66.263 0.65672 0 0 0 1.008 1 29848 29848 0.35063 0.043601 1 23687 8894 15214 15270 27257 27257 0.00974377194211229 PHRGGPGAF 9 Unmodified _PHRGGPGAF_ 0 0 0 ENST00000253462.7_1_16:85721160-85722526:-|nuORF ENST00000253462.7_1_16:85721160-85722526:-|nuORF ENST00000253462.7_1_16:85721160-85722526:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 448.2319030761719 2 448.230294 894.446034 3.4384 0.0015412 -0.56653 -0.00025393 2.8719 0.0012873 448.22998911105424 93.365 0.62154 93.62 93.308 93.929 0.25497 52 29 2 0 0 0 1.101 3 42818 42818;42930;42985 2.3027 1.5091 1 890530 23688 6510 15215 15271 27258;27259;27260 27258 -0.005411020111523612 PHRGGPGAF 9 Unmodified _PHRGGPGAF_ 0 0 0 ENST00000253462.7_1_16:85721160-85722526:-|nuORF ENST00000253462.7_1_16:85721160-85722526:-|nuORF ENST00000253462.7_1_16:85721160-85722526:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.231689453125 2 448.230294 894.446034 3.3029 0.0014804 -0.94972 -0.00042569 2.3531 0.0010547 448.22984449494635 93.278 0.64317 93.909 93.63 94.273 0.63115 64 30 3 0 0 0 0.92809 2 42927 42836;42927 5.2307 1.5091 1 939650 23689 6510 15215 15271 27261;27262 27262 -0.005411020111523612 PHRHFHVK 8 Unmodified _PHRHFHVK_ 0 0 0 REV__ENSG00000101115|ENST00000217086|SALL4 REV__ENSG00000101115|ENST00000217086|SALL4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1057.4190673828125 1 1057.58024 1056.57297 3.5172 0.0037197 -0.62465 -0.00066062 2.8925 0.0030591 1058.58537497048 35.086 0.1081 35.709 35.681 35.789 0.62294 5 4 2 0 0 0 0.73686 1 16069 16069 2.8892 0 1 407050 + 23690 10866 15216 15272 27263 27263 0.0469424393384088 PHRHRGKG 8 Unmodified _PHRHRGKG_ 0 0 0 ENST00000450554.6_1_19:56185583-56185769:+|nuORF ENST00000450554.6_1_19:56185583-56185769:+|nuORF ENST00000450554.6_1_19:56185583-56185769:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.7694091796875 2 472.767909 943.521265 3.4042 0.0016094 -1.0898 -0.00051523 2.3144 0.0010942 472.76738087747776 91.293 0.4167 91.545 91.35 91.767 0.25163 43 17 4 0 0 0 0.73686 2 41955 41955;42005 2.8892 2.8892 1 3582000 23691 8009 15217 15273 27264;27265 27264 0.04724500239944973 PHRHRGKG 8 Unmodified _PHRHRGKG_ 0 0 0 ENST00000450554.6_1_19:56185583-56185769:+|nuORF ENST00000450554.6_1_19:56185583-56185769:+|nuORF ENST00000450554.6_1_19:56185583-56185769:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 472.767909 943.521265 3.4042 0.0016094 -1.0898 -0.00051523 2.3144 0.0010942 472.76738087747776 91.293 0.4167 91.545 91.35 91.767 0.25163 0.011898 0.00011705 NaN 2.8892 43 17 4 NaN NaN NaN NaN 0 NaN NaN 0 3582000 23692 8009 15217 15273 0.04724500239944973 PHRMFGSLL 9 Unmodified _PHRMFGSLL_ 0 0 0 REV__ENSG00000137338|ENST00000682144|PGBD1 REV__ENSG00000137338|ENST00000682144|PGBD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.3085327148438 2 529.284211 1056.55387 NaN NaN NaN NaN NaN NaN NaN 64.901 1 65.149 64.649 65.649 0.24803 0 0 0 0.89315 1 29734 29734 5.2307 0 1 + 23693 12108 15218 15274 27266 27266 0.027855265279185915 PHRNRHPLQH 10 Unmodified _PHRNRHPLQH_ 0 0 0 REV__ENST00000388948.7_2_15:101567474-101569278:+|nuORF REV__ENST00000388948.7_2_15:101567474-101569278:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 646.353759765625 2 646.347586 1290.68062 4.6081 0.0029785 -0.10327 -6.6745E-05 4.5049 0.0029117 646.3478183447518 103.41 0.22926 103.72 103.59 103.82 0.31863 31 20 3 0 0 0 0.94217 1 47798 47798 0.45834 0 1 1269100 + 23694 15903 15219 15275 27267 27267 0.046905887972798155 PHRNRHPLQH 10 Unmodified _PHRNRHPLQH_ 0 0 0 REV__ENST00000388948.7_2_15:101567474-101569278:+|nuORF REV__ENST00000388948.7_2_15:101567474-101569278:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 646.347586 1290.68062 3.3549 0.0021684 0.74618 0.00048229 4.101 0.0026507 646.3483925072393 103.86 0.21321 103.86 103.73 103.94 0 0.025647 0.00056381 NaN 0.45834 33 17 4 NaN NaN NaN NaN 0 NaN NaN 0 386100 + 23695 15903 15219 15275 0.046905887972798155 PHRNRHPLQH 10 Unmodified _PHRNRHPLQH_ 0 0 0 REV__ENST00000388948.7_2_15:101567474-101569278:+|nuORF REV__ENST00000388948.7_2_15:101567474-101569278:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 646.347586 1290.68062 4.6081 0.0029785 -0.10327 -6.6745E-05 4.5049 0.0029117 646.3478183447518 103.41 0.22926 103.72 103.59 103.82 0.31863 -0.10702 -0.00053426 NaN 0.45834 31 20 3 NaN NaN NaN NaN 0 NaN NaN 0 1269100 + 23696 15903 15219 15275 0.046905887972798155 PHRNRHPLQH 10 Unmodified _PHRNRHPLQH_ 0 0 0 REV__ENST00000388948.7_2_15:101567474-101569278:+|nuORF REV__ENST00000388948.7_2_15:101567474-101569278:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 646.347586 1290.68062 4.1405 0.0026762 3.9546 0.002556 8.0951 0.0052322 646.3511477004554 103.32 0.22427 103.91 103.82 104.05 0.59821 0.081373 0.0047113 NaN 0.45834 23 16 3 NaN NaN NaN NaN 0 NaN NaN 0 416880 + 23697 15903 15219 15275 0.046905887972798155 PHRQRCVHH 9 Unmodified _PHRQRCVHH_ 0 0 0 REV__ENST00000604273.1_2_1:145515521-145515950:-|nuORF REV__ENST00000604273.1_2_1:145515521-145515950:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.2968139648438 2 585.296508 1168.57846 3.74 0.002189 -2.1155 -0.0012382 1.6245 0.00095081 585.2952650200701 102.76 0.15836 103.35 103.23 103.38 0.59759 18 7 3 0 0 0 1.101 1 47543 47543 2.3027 1.6124 1 1428400 + 23698 15274 15220 15276 27268 27268 0.0009159945402643643 PHRRIDIR 8 Unmodified _PHRRIDIR_ 0 0 0 ENSG00000070501|ENST00000265421|POLB ENSG00000070501|ENST00000265421|POLB ENSG00000070501|ENST00000265421|POLB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.8191528320312 2 531.817599 1061.62064 2.748 0.0014614 -0.6207 -0.0003301 2.1273 0.0011313 531.8172778588139 102.83 0.1256 102.83 102.78 102.9 0 8 4 2 0 0 0 0.7471 1 56753 56753 0.79363 0 1 492890 23699 766 15221 15277 27269 27269 0.09229898134026371 PHRRIDIR 8 Unmodified _PHRRIDIR_ 0 0 0 ENSG00000070501|ENST00000265421|POLB ENSG00000070501|ENST00000265421|POLB ENSG00000070501|ENST00000265421|POLB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.8185424804688 2 531.817599 1061.62064 3.9528 0.0021022 -1.9211 -0.0010217 2.0317 0.0010805 531.8164866760671 102.45 0.15144 102.76 102.68 102.84 0.31737 11 4 3 0 0 0 0.73686 1 47392 47392 2.8892 0 1 827360 23700 766 15221 15277 27270 27270 0.09229898134026371 PHRRIDIR 8 Unmodified _PHRRIDIR_ 0 0 0 ENSG00000070501|ENST00000265421|POLB ENSG00000070501|ENST00000265421|POLB ENSG00000070501|ENST00000265421|POLB MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 531.817599 1061.62064 1.8246 0.00097035 0.44638 0.00023739 2.271 0.0012077 531.8177696706105 102.89 0.15622 102.94 102.85 103 0.055092 0.05029 0.0011635 NaN 2.8892 9 5 2 NaN NaN NaN NaN 0 NaN NaN 0 733270 23701 766 15221 15277 0.09229898134026371 PHRRIDIR 8 Unmodified _PHRRIDIR_ 0 0 0 ENSG00000070501|ENST00000265421|POLB ENSG00000070501|ENST00000265421|POLB ENSG00000070501|ENST00000265421|POLB MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 531.817599 1061.62064 3.9528 0.0021022 -1.9211 -0.0010217 2.0317 0.0010805 531.8164866760671 102.45 0.15144 102.76 102.68 102.84 0.31737 -0.12636 -0.0013546 NaN 2.8892 11 4 3 NaN NaN NaN NaN 0 NaN NaN 0 827360 23702 766 15221 15277 0.09229898134026371 PHRRIDIR 8 Unmodified _PHRRIDIR_ 0 0 0 ENSG00000070501|ENST00000265421|POLB ENSG00000070501|ENST00000265421|POLB ENSG00000070501|ENST00000265421|POLB MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 531.817599 1061.62064 3.4638 0.0018421 -0.39277 -0.00020888 3.071 0.0016332 531.8175263760716 102.43 0.19482 103.03 102.91 103.1 0.59759 0.13366 0.00027094 NaN 2.8892 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 1230800 23703 766 15221 15277 0.09229898134026371 PHRRLSPR 8 Unmodified _PHRRLSPR_ 0 0 0 REV__ENST00000554387.5_1_15:93595580-93595697:-|nuORF REV__ENST00000554387.5_1_15:93595580-93595697:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.8050537109375 2 509.804491 1017.59443 2.7827 0.0014186 -1.1963 -0.00060986 1.5864 0.00080876 509.80375049269486 102.57 0.13907 102.57 102.49 102.63 0 7 5 2 0 0 0 0.7471 1 56632 56632 0.79363 0 1 746360 + 23704 17309 15222 15278 27271 27271 0.08633628962547846 PHRRLSPR 8 Unmodified _PHRRLSPR_ 0 0 0 REV__ENST00000554387.5_1_15:93595580-93595697:-|nuORF REV__ENST00000554387.5_1_15:93595580-93595697:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.8053283691406 2 509.804491 1017.59443 4.1584 0.00212 -1.1518 -0.00058717 3.0067 0.0015328 509.8036158533256 102.04 0.19805 102.36 102.24 102.44 0.31737 14 6 3 0 0 0 0.7471 1 47204 47204 0.79363 0 1 1304000 + 23705 17309 15222 15278 27272 27272 0.08633628962547846 PHRRLSPR 8 Unmodified _PHRRLSPR_ 0 0 0 REV__ENST00000554387.5_1_15:93595580-93595697:-|nuORF REV__ENST00000554387.5_1_15:93595580-93595697:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.8055114746094 2 509.804491 1017.59443 3.5331 0.0018012 -0.87189 -0.00044449 2.6613 0.0013567 509.8038555006596 94.286 0.4293 94.904 94.677 95.106 0.61736 69 25 4 0 0 0 0.73686 1 43334 43334 2.8892 0 1 1919800 + 23706 17309 15222 15278 27273 27273 0.08633628962547846 PHRRLSPR 8 Unmodified _PHRRLSPR_ 0 0 0 REV__ENST00000554387.5_1_15:93595580-93595697:-|nuORF REV__ENST00000554387.5_1_15:93595580-93595697:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.80572509765625 2 509.804491 1017.59443 3.545 0.0018073 -1.9645 -0.0010015 1.5805 0.00080574 509.80345537926814 102.01 0.19219 102.61 102.51 102.7 0.59759 17 7 3 0 0 0 0.73686 1 47219 47219 2.8892 0 1 1693100 + 23707 17309 15222 15278 27274 27274 0.08633628962547846 PHRRLSPR 8 Unmodified _PHRRLSPR_ 0 0 0 REV__ENST00000554387.5_1_15:93595580-93595697:-|nuORF REV__ENST00000554387.5_1_15:93595580-93595697:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 509.804491 1017.59443 2.7827 0.0014186 -1.1963 -0.00060986 1.5864 0.00080876 509.80375049269486 102.57 0.13907 102.57 102.49 102.63 0 0.05612 0.00030145 NaN 2.8892 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 746360 + 23708 17309 15222 15278 0.08633628962547846 PHRRLSPR 8 Unmodified _PHRRLSPR_ 0 0 0 REV__ENST00000554387.5_1_15:93595580-93595697:-|nuORF REV__ENST00000554387.5_1_15:93595580-93595697:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 509.804491 1017.59443 4.1584 0.00212 -1.1518 -0.00058717 3.0067 0.0015328 509.8036158533256 102.04 0.19805 102.36 102.24 102.44 0.31737 -0.15565 0.00034681 NaN 2.8892 14 6 3 NaN NaN NaN NaN 0 NaN NaN 0 1304000 + 23709 17309 15222 15278 0.08633628962547846 PHRRLSPR 8 Unmodified _PHRRLSPR_ 0 0 0 REV__ENST00000554387.5_1_15:93595580-93595697:-|nuORF REV__ENST00000554387.5_1_15:93595580-93595697:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 509.804491 1017.59443 3.545 0.0018073 -1.9645 -0.0010015 1.5805 0.00080574 509.80345537926814 102.01 0.19219 102.61 102.51 102.7 0.59759 0.099531 -0.00048189 NaN 2.8892 17 7 3 NaN NaN NaN NaN 0 NaN NaN 0 1693100 + 23710 17309 15222 15278 0.08633628962547846 PHRRRSRLRW 10 Unmodified _PHRRRSRLRW_ 0 0 0 REV__ENST00000575312.1_1_17:79670028-79670313:-|nuORF REV__ENST00000575312.1_1_17:79670028-79670313:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 710.4173583984375 2 710.418877 1418.8232 NaN NaN NaN NaN NaN NaN NaN 86.231 1 86.48 85.98 86.98 0.24902 0 0 0 0.99983 1 39688 39688 1.8442 0.36234 1 + 23711 17473 15223 15279 27275 27275 0.1305422125928999 PHRTHRVV 8 Unmodified _PHRTHRVV_ 0 0 0 REV__ENST00000311413.4_1_11:119205294-119205741:+|nuORF REV__ENST00000311413.4_1_11:119205294-119205741:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.29278564453125 2 501.291217 1000.56788 3.4478 0.0017283 -1.4986 -0.00075123 1.9492 0.0009771 501.2902414551534 102.01 0.19219 102.61 102.51 102.7 0.59759 16 7 3 0 0 0 0.14333 1 47223 47223 0.79363 0 1 1747200 + 23712 15268 15224 15280 27276 27276 0.06761940071226036 PHRTHRVV 8 Unmodified _PHRTHRVV_ 0 0 0 REV__ENST00000311413.4_1_11:119205294-119205741:+|nuORF REV__ENST00000311413.4_1_11:119205294-119205741:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 501.291217 1000.56788 1.784 0.00089432 -0.67799 -0.00033987 1.106 0.00055445 501.2907085985469 102.6 0.17757 102.66 102.58 102.76 0.055092 0.11333 0.00038591 NaN 0.79363 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 690630 + 23713 15268 15224 15280 0.06761940071226036 PHRTHRVV 8 Unmodified _PHRTHRVV_ 0 0 0 REV__ENST00000311413.4_1_11:119205294-119205741:+|nuORF REV__ENST00000311413.4_1_11:119205294-119205741:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 501.291217 1000.56788 4.0603 0.0020354 -0.62305 -0.00031233 3.4372 0.0017231 501.2904583114255 102.04 0.17672 102.36 102.26 102.44 0.31737 -0.18269 0.00044099 NaN 0.79363 11 5 3 NaN NaN NaN NaN 0 NaN NaN 0 1537000 + 23714 15268 15224 15280 0.06761940071226036 PHRVKTERK 9 Unmodified _PHRVKTERK_ 0 0 0 ENST00000548758.1_1_14:36295674-36335014:+|nuORF ENST00000548758.1_1_14:36295674-36335014:+|nuORF ENST00000548758.1_1_14:36295674-36335014:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.8460083007812 2 575.843813 1149.67307 4.1681 0.0024002 -0.82704 -0.00047625 3.3411 0.0019239 575.8432975853956 103.03 0.16711 103.35 103.26 103.42 0.31863 12 5 3 0 0 0 1.2078 1 47662 47662 0.6015 0 1 649290 23715 8855 15225 15281 27277 27277 0.10422436476960684 PHRVRGPR 8 Unmodified _PHRVRGPR_ 0 0 0 nc|ENSG00000005436|P16383-2|GCFC2;ENSG00000005436|ENST00000321027|GCFC2;nc|ENSG00000005436|P16383-3|GCFC2;nc|ENSG00000005436|P16383-4|GCFC2 nc|ENSG00000005436|P16383-2|GCFC2 nc|ENSG00000005436|P16383-2|GCFC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.79217529296875 2 487.791384 973.568215 3.9632 0.0019332 -1.906 -0.00092972 2.0572 0.0010035 487.79034793239117 101.47 0.24492 101.78 101.66 101.9 0.31412 21 9 3 0 0 0 0.7471 1 46944 46944 2.8892 0 1 1308200 23716 329 15226 15282 27278 27278 0.0803735979108069 PHRYCSCW 8 Unmodified _PHRYCSCW_ 0 0 0 nc|ENSG00000164088|Q96MI6-1|PPM1M nc|ENSG00000164088|Q96MI6-1|PPM1M nc|ENSG00000164088|Q96MI6-1|PPM1M MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.462158203125 2 526.215472 1050.41639 NaN NaN NaN NaN NaN NaN NaN 109.02 1 109.63 109.13 110.13 0.60264 0 0 0 0.99035 1 50290 50290 0.79363 0 1 23717 9721 15227 15283 27279 27279 -0.10680125343151303 PHSCGCYSDG 10 Unmodified _PHSCGCYSDG_ 0 0 0 ENSG00000109927|ENST00000392793|TECTA ENSG00000109927|ENST00000392793|TECTA ENSG00000109927|ENST00000392793|TECTA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.4664916992188 2 513.176209 1024.33787 NaN NaN NaN NaN NaN NaN NaN 83.787 1 84.034 83.534 84.534 0.24722 0 0 0 0.99774 1 38566 38566 3.5965 1.019 1 23718 1692 15228 15284 27280 27280 -0.17333022438901935 PHSPSRFR 8 Unmodified _PHSPSRFR_ 0 0 0 ENST00000531334.1_1_1:21546450-21548377:-|nuORF;nc|ENSG00000117298|P42892-3|ECE1;nc|ENSG00000117298|P42892-2|ECE1;nc|ENSG00000117298|P42892-4|ECE1;ENSG00000117298|ENST00000374893|ECE1 ENST00000531334.1_1_1:21546450-21548377:-|nuORF ENST00000531334.1_1_1:21546450-21548377:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.263427734375 2 492.262125 982.509697 3.4902 0.0017181 -0.68935 -0.00033934 2.8009 0.0013788 492.2617349670063 12.685 0.16887 13.328 13.244 13.413 0.64272 7 4 2 0 0 0 0.74071 1 5719 5719 2.5775 0.27475 1 786600 23719 2067 15229 15285 27281 27281 0.017742584259508476 PHSRRPLNL 9 Unmodified _PHSRRPLNL_ 0 0 0 REV__nc|ENSG00000136002|Q9NR80-4|ARHGEF4 REV__nc|ENSG00000136002|Q9NR80-4|ARHGEF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.3182983398438 2 545.317432 1088.62031 3.7231 0.0020303 -1.4958 -0.00081567 2.2273 0.0012146 545.3163873468981 102.76 0.16736 103.35 103.25 103.42 0.59759 13 8 2 0 0 0 1.101 1 47542 47542 2.3027 0 1 1184300 + 23720 12054 15230 15286 27282 27282 0.07954478414171717 PHSVSRPLR 9 Unmodified _PHSVSRPLR_ 0 0 0 nc|ENSG00000141255|Q8NHS9-3|SPATA22;nc|ENSG00000141255|Q8NHS9-2|SPATA22;ENSG00000141255|ENST00000572969|SPATA22 nc|ENSG00000141255|Q8NHS9-3|SPATA22 nc|ENSG00000141255|Q8NHS9-3|SPATA22 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.2074890136719 3 350.205197 1047.59376 NaN NaN NaN NaN NaN NaN NaN 41.293 1 42.097 41.597 42.597 0.80351 0 0 0 0.89288 1 18734 18734 5.2969 2.5617 1 23721 3242 15231 15287 27283 27283 0.07186789522825165 PHTEEKYKK 9 Unmodified _PHTEEKYKK_ 0 0 0 nc|ENSG00000068305|Q02078-3|MEF2A;nc|ENSG00000068305|Q02078-5|MEF2A;nc|ENSG00000068305|Q02078|MEF2A nc|ENSG00000068305|Q02078-3|MEF2A nc|ENSG00000068305|Q02078-3|MEF2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 580.3114013671875 2 580.308938 1158.60332 3.2676 0.0018962 -0.060057 -3.4852E-05 3.2076 0.0018614 580.3089685164999 102.86 0.1256 102.86 102.78 102.9 0 11 4 3 0 0 0 1.129 1 56756 56756 1.8442 0.19162 1 678700 23722 9555 15232 15288 27284 27284 0.03036513017696052 PHTISKIL 8 Unmodified _PHTISKIL_ 0 0 0 ENSG00000170255|ENST00000526914|MRGPRX1 ENSG00000170255|ENST00000526914|MRGPRX1 ENSG00000170255|ENST00000526914|MRGPRX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.78289794921875 2 454.781828 907.549102 2.8338 0.0012888 0.1671 7.5992E-05 3.0009 0.0013648 454.78186319576724 37.756 0.23731 38.017 37.856 38.093 0.26083 9 7 2 0 0 0 0.63902 1 17207 17207 10.824 2.0785 1 185330 23723 4735 15233 15289 27285 27285 0.09162965656810229 PHTPKWPMKF 10 Unmodified _PHTPKWPMKF_ 0 0 0 REV__nc|ENSG00000101224|P30305-3|CDC25B REV__nc|ENSG00000101224|P30305-3|CDC25B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.55804443359375 3 423.558471 1267.65358 NaN NaN NaN NaN NaN NaN NaN 36.593 1 36.85 36.35 37.35 0.25768 0 0 0 0.99983 1 16668 16668 0.77653 0 1 + 23724 10874 15234 15290 27286 27286 0.030463441418532966 PHTYYHFL 8 Unmodified _PHTYYHFL_ 0 0 0 REV__nc|ENSG00000184716|A6NH21|SERINC4 REV__nc|ENSG00000184716|A6NH21|SERINC4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.9357299804688 2 539.261259 1076.50797 3.3917 0.001829 2.1751 0.001173 5.5669 0.003002 539.2624626858914 80.473 0.22742 81.133 80.982 81.21 0.65998 20 12 2 0 0 0 0.12327 1 37050 37050 19.439 4.6007 1 556110 + 23725 18072 15235 15291 27287 27287 -0.02722795382669574 PHTYYHFL 8 Unmodified _PHTYYHFL_ 0 0 0 REV__nc|ENSG00000184716|A6NH21|SERINC4 REV__nc|ENSG00000184716|A6NH21|SERINC4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 539.261259 1076.50797 2.954 0.001593 2.5211 0.0013596 5.4751 0.0029525 539.262119583615 81.082 0.3224 81.33 81.191 81.513 0.24802 0.098663 0.00019329 NaN 19.439 26 20 2 NaN NaN NaN NaN 0 NaN NaN 0 577740 + 23726 18072 15235 15291 -0.02722795382669574 PHVPLPGM 8 Unmodified _PHVPLPGM_ 0 0 0 REV__ENST00000064780.6_1_11:73107380-73107611:+|nuORF REV__ENST00000064780.6_1_11:73107380-73107611:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 424.2299499511719 2 424.228374 846.442194 3.7142 0.0015757 1.3191 0.0005596 5.0333 0.0021353 424.2289643613859 96.454 0.38226 96.732 96.499 96.881 0.27779 24 18 2 0 0 0 0.73686 1 44290 44290 2.8892 0 1 240260 + 23727 14782 15236 15292 27288 27288 0.012830921707859488 PHVQRHHHR 9 Unmodified _PHVQRHHHR_ 0 0 0 REV__ENST00000338483.6_1_22:38610719-38611061:+|nuORF REV__ENST00000338483.6_1_22:38610719-38611061:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 602.3233642578125 2 602.321371 1202.62819 4.0831 0.0024593 0.090545 5.4537E-05 4.1736 0.0025139 602.3214293521278 102.71 0.15085 103.31 103.25 103.4 0.59759 15 7 3 0 0 0 1.101 1 47538 47538 2.3027 0 1 750270 + 23728 15436 15237 15293 27289 27289 0.03498050454322765 PHVRLMIN 8 Unmodified _PHVRLMIN_ 0 0 0 REV__ENSG00000183185|ENST00000472788|GABRR3 REV__ENSG00000183185|ENST00000472788|GABRR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.2496643066406 2 490.278929 978.543305 NaN NaN NaN NaN NaN NaN NaN 75.503 1 75.503 75.003 76.003 0 0 0 0 0.99035 1 36996 36996 5.7604 2.8712 1 + 23729 13922 15238 15294 27290 27290 0.05317543873479735 PHVRLRCV 8 Unmodified _PHVRLRCV_ 0 0 0 REV__ENST00000532094.5_1_11:420655-431830:-|nuORF REV__ENST00000532094.5_1_11:420655-431830:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.2868957519531 2 490.284546 978.554539 NaN NaN NaN NaN NaN NaN NaN 69.514 1 70.217 69.717 70.717 0.70302 0 0 0 0.94507 1 33272 33272 9.3474 1.4373 1 + 23730 17149 15239 15295 27291 27291 0.06440365967625894 PHVRLRCV 8 Unmodified _PHVRLRCV_ 0 0 0 REV__ENST00000532094.5_1_11:420655-431830:-|nuORF REV__ENST00000532094.5_1_11:420655-431830:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.28717041015625 2 490.284546 978.554539 NaN NaN NaN NaN NaN NaN NaN 69.695 1 70.398 69.898 70.898 0.70302 0 0 0 0.94507 1 33367 33367 9.3474 0 1 + 23731 17149 15239 15295 27292 27292 0.06440365967625894 PHVRLRCV 8 Unmodified _PHVRLRCV_ 0 0 0 REV__ENST00000532094.5_1_11:420655-431830:-|nuORF REV__ENST00000532094.5_1_11:420655-431830:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.28668212890625 2 490.284546 978.554539 NaN NaN NaN NaN NaN NaN NaN 70.297 1 71 70.5 71.5 0.70302 0 0 0 0.93233 1 33677 33677 10.183 2.8942 1 + 23732 17149 15239 15295 27293 27293 0.06440365967625894 PHVVVLSSPK 10 Unmodified _PHVVVLSSPK_ 0 0 0 REV__nc|ENSG00000138798|P01133-2|EGF REV__nc|ENSG00000138798|P01133-2|EGF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.818603515625 2 531.818941 1061.62333 3.4638 0.0018421 -2.9174 -0.0015516 0.54634 0.00029056 531.8175263760716 102.43 0.19482 103.03 102.91 103.1 0.59759 10 6 2 0 0 0 0.90196 1 47411 47411 3.5965 0 1 1230800 + 23733 12194 15240 15296 27294 27294 0.09498308748334239 PHWHPLCLL 9 Unmodified _PHWHPLCLL_ 0 0 0 REV__ENST00000378623.5_1_11:46896536-46896644:-|nuORF REV__ENST00000378623.5_1_11:46896536-46896644:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.2974853515625 2 558.294579 1114.57461 4.3953 0.0024539 1.1288 0.00063019 5.5241 0.0030841 558.2953281833088 102.04 0.17672 102.36 102.26 102.44 0.31737 12 5 3 0 0 0 0.92809 1 47200 47200 5.2307 0.47466 1 960030 + 23734 15854 15241 15297 27295 27295 0.021901169075590587 PHWHPLCLL 9 Unmodified _PHWHPLCLL_ 0 0 0 REV__ENST00000378623.5_1_11:46896536-46896644:-|nuORF REV__ENST00000378623.5_1_11:46896536-46896644:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.2967529296875 2 558.294579 1114.57461 3.738 0.0020869 0.42182 0.0002355 4.1598 0.0023224 558.2950235510209 101.99 0.16924 102.59 102.51 102.68 0.59759 12 6 3 0 0 0 1.101 1 47233 47233 2.3027 1.5091 1 650150 + 23735 15854 15241 15297 27296 27296 0.021901169075590587 PHWHPLCLL 9 Unmodified _PHWHPLCLL_ 0 0 0 REV__ENST00000378623.5_1_11:46896536-46896644:-|nuORF REV__ENST00000378623.5_1_11:46896536-46896644:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 558.294579 1114.57461 3.1152 0.0017392 1.306 0.00072913 4.4212 0.0024683 558.2955435488851 102.56 0.13907 102.56 102.49 102.63 0 0.054064 0.00035927 NaN 5.2307 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 351500 + 23736 15854 15241 15297 0.021901169075590587 PHWHPLCLL 9 Unmodified _PHWHPLCLL_ 0 0 0 REV__ENST00000378623.5_1_11:46896536-46896644:-|nuORF REV__ENST00000378623.5_1_11:46896536-46896644:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 558.294579 1114.57461 4.3953 0.0024539 1.1288 0.00063019 5.5241 0.0030841 558.2953281833088 102.04 0.17672 102.36 102.26 102.44 0.31737 -0.14182 0.00016139 NaN 5.2307 12 5 3 NaN NaN NaN NaN 0 NaN NaN 0 960030 + 23737 15854 15241 15297 0.021901169075590587 PHWHPLCLL 9 Unmodified _PHWHPLCLL_ 0 0 0 REV__ENST00000378623.5_1_11:46896536-46896644:-|nuORF REV__ENST00000378623.5_1_11:46896536-46896644:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 558.294579 1114.57461 3.738 0.0020869 0.42182 0.0002355 4.1598 0.0023224 558.2950235510209 101.99 0.16924 102.59 102.51 102.68 0.59759 0.087753 -0.00062799 NaN 5.2307 12 6 3 NaN NaN NaN NaN 0 NaN NaN 0 650150 + 23738 15854 15241 15297 0.021901169075590587 PHYFPCEM 8 Unmodified _PHYFPCEM_ 0 0 0 REV__nc|ENSG00000100722|Q6PJT7-8|ZC3H14 REV__nc|ENSG00000100722|Q6PJT7-8|ZC3H14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1024.4130859375 1 1023.40629 1022.39901 3.5658 0.0036493 0.86131 0.00088147 4.4271 0.0045307 1024.4109642911428 22.963 0.18089 23.603 23.54 23.72 0.64051 36 28 2 0 0 0 0.73686 1 10494 10494 2.8892 0 1 1736500 + 23739 10844 15242 15298 27297 27297 -0.11129465668818739 PHYKLLEL 8 Unmodified _PHYKLLEL_ 0 0 0 REV__ENST00000469550.6_1_5:141001037-141014565:-|nuORF REV__ENST00000469550.6_1_5:141001037-141014565:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.2195129394531 3 338.199049 1011.57532 2.6077 0.00088193 -3.132 -0.0010593 -0.5243 -0.00017732 338.1980644844757 12.719 0.13535 13.362 13.278 13.413 0.64272 5 3 2 0 0 0 0.52517 1 5689 5689 14.838 0 1 551050 + 23740 13511 15243 15299 27298 27298 0.06999234828265344 PHYRFKRRVIR 11 Unmodified _PHYRFKRRVIR_ 0 0 0 ENST00000512982.2_1_5:39126184-39127873:-|nuORF ENST00000512982.2_1_5:39126184-39127873:-|nuORF ENST00000512982.2_1_5:39126184-39127873:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.2888488769531 3 509.975899 1526.90587 3.5445 0.0018076 1.9799 0.0010097 5.5244 0.0028173 509.97718363693866 105.86 0.13123 106.46 106.38 106.52 0.59969 6 4 2 0 0 0 0.13295 1 48909 48909 0.094841 0 1 377580 23741 8573 15244 15300 27299 27299 0.1634911826743064 PIAALDKYGLV 11 Unmodified _PIAALDKYGLV_ 0 0 0 REV__ENST00000518816.5_1_8:21924386-21926775:+|nuORF REV__ENST00000518816.5_1_8:21924386-21926775:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.8661499023438 2 580.339707 1158.66486 NaN NaN NaN NaN NaN NaN NaN 83.063 1 83.063 82.563 83.563 0 0 0 0 1.0057 1 41757 41757 3.2813 0.28607 1 + 23742 12832 15245 15301 27300 27300 0.09187444716985738 PIAARRPRLS 10 Unmodified _PIAARRPRLS_ 0 0 0 REV__ENST00000368194.7_1_1:156921476-156926255:-|nuORF REV__ENST00000368194.7_1_1:156921476-156926255:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.855224609375 2 568.854181 1135.69381 NaN NaN NaN NaN NaN NaN NaN 98.615 1 98.615 98.115 99.115 0 0 0 0 0.99687 1 54018 54018 4.3292 0 1 + 23743 15679 15246 15302 27301 27301 0.1313902685665198 PIAGAFFLWS 10 Unmodified _PIAGAFFLWS_ 0 0 0 REV__ENST00000469702.5_1_2:114462911-114480749:-|nuORF REV__ENST00000469702.5_1_2:114462911-114480749:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.7966918945312 2 554.794935 1107.57532 3.6073 0.0020013 2.1472 0.0011912 5.7545 0.0031926 555.2982973140174 64.885 0.29778 65.542 65.394 65.692 0.65672 53 19 4 0 0 0 0.30157 1 29779 29779 28.487 3.813 1 1374700 + 23744 11341 15247 15303 27302 27302 0.025832348282847306 PIAVAAHL 8 Unmodified _PIAVAAHL_ 0 0 0 ENST00000588848.5_3_19:13260460-13260511:-|nuORF ENST00000588848.5_3_19:13260460-13260511:-|nuORF ENST00000588848.5_3_19:13260460-13260511:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 395.90899658203125 2 396.242338 790.470124 NaN NaN NaN NaN NaN NaN NaN 12.805 1 13.066 12.566 13.566 0.26154 0 0 0 0.99035 1 5571 5571 6.3541 0 1 23745 9212 15248 15304 27303 27303 0.06650738422501945 PIAYDGEVL 9 Unmodified _PIAYDGEVL_ 0 0 0 MYCBP2|p.K2432Nfs*23|1|0.23|ENSG00000005810|chr13:77140155-77140155|T/-|frameshift_variant;MYCBP2|p.E3042Vfs*11|1|0.09|ENSG00000005810|chr13:77097915-77097916|-/GGGAAGA|frameshift_variant;nc|ENSG00000005810|O75592-2|MYCBP2;ENSG00000005810|ENST00000544440|MYCBP2 MYCBP2|p.K2432Nfs*23|1|0.23|ENSG00000005810|chr13:77140155-77140155|T/-|frameshift_variant MYCBP2|p.K2432Nfs*23|1|0.23|ENSG00000005810|chr13:77140155-77140155|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.75396728515625 2 488.752933 975.491313 2.9032 0.001419 0.075058 3.6685E-05 2.9783 0.0014557 488.7529808380588 71.174 0.27702 71.432 71.319 71.596 0.25786 30 24 2 0 0 0 0.3144 1 32627 32627 15.847 1.0089 1 462540 23746 334 15249 15305 27304 27304 0.002586589407201245 PIAYDGEVL 9 Unmodified _PIAYDGEVL_ 0 0 0 MYCBP2|p.K2432Nfs*23|1|0.23|ENSG00000005810|chr13:77140155-77140155|T/-|frameshift_variant;MYCBP2|p.E3042Vfs*11|1|0.09|ENSG00000005810|chr13:77097915-77097916|-/GGGAAGA|frameshift_variant;nc|ENSG00000005810|O75592-2|MYCBP2;ENSG00000005810|ENST00000544440|MYCBP2 MYCBP2|p.K2432Nfs*23|1|0.23|ENSG00000005810|chr13:77140155-77140155|T/-|frameshift_variant MYCBP2|p.K2432Nfs*23|1|0.23|ENSG00000005810|chr13:77140155-77140155|T/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 488.752933 975.491313 2.7147 0.0013268 0.86202 0.00042131 3.5767 0.0017481 488.75340915176326 70.668 0.30893 71.33 71.154 71.463 0.66208 -0.051032 0.00031545 NaN 15.847 29 18 2 NaN NaN NaN NaN 0 NaN NaN 0 382000 23747 334 15249 15305 0.002586589407201245 PICLRKLQHVL 11 Unmodified _PICLRKLQHVL_ 0 0 0 ENST00000489665.1_1_7:2749300-2804387:+|nuORF;ENSG00000174945|ENST00000683327|AMZ1 ENST00000489665.1_1_7:2749300-2804387:+|nuORF ENST00000489665.1_1_7:2749300-2804387:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 660.4005126953125 2 660.40265 1318.79075 NaN NaN NaN NaN NaN NaN NaN 99.358 1 99.421 98.921 99.921 0.062241 0 0 0 1.0057 1 53696 53696 3.2813 0 1 23748 5004 15250 15306 27305 27305 0.1441025302142407 PICQDQDFL 9 Unmodified _PICQDQDFL_ 0 0 0 ENSG00000149548|ENST00000344762|CCDC15 ENSG00000149548|ENST00000344762|CCDC15 ENSG00000149548|ENST00000344762|CCDC15 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.788330078125 2 539.747324 1077.4801 3.0082 0.0016237 0.28958 0.0001563 3.2978 0.00178 539.7471259424498 76.393 0.25437 77.057 76.931 77.186 0.66387 22 16 2 0 0 0 0.10586 1 35149 35149 7.9102 0.62092 1 380450 23749 3647 15251 15307 27306 27306 -0.055544864250805404 PICQDQDFL 9 Unmodified _PICQDQDFL_ 0 0 0 ENSG00000149548|ENST00000344762|CCDC15 ENSG00000149548|ENST00000344762|CCDC15 ENSG00000149548|ENST00000344762|CCDC15 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 539.747324 1077.4801 2.6828 0.0014481 0.43072 0.00023248 3.1136 0.0016805 540.2488965341602 77.043 0.13876 77.043 76.975 77.113 0 -0.036018 0.00041734 NaN 7.9102 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 804410 23750 3647 15251 15307 -0.055544864250805404 PIDDCCWHME 10 Unmodified _PIDDCCWHME_ 0 0 0 nc|ENSG00000188827|Q8IY92-2|SLX4;ENSG00000188827|ENST00000294008|SLX4 nc|ENSG00000188827|Q8IY92-2|SLX4 nc|ENSG00000188827|Q8IY92-2|SLX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 624.3629150390625 2 624.727751 1247.44095 NaN NaN NaN NaN NaN NaN NaN 69.031 1 69.031 68.531 69.531 0 0 0 0 0.99983 1 33285 33285 1.8442 0 1 23751 5686 15252 15308 27307 27307 -0.17287278042613252 PIDSIETQP 9 Unmodified _PIDSIETQP_ 0 0 0 REV__ENSG00000175809|ENST00000323684|CBLL2 REV__ENSG00000175809|ENST00000323684|CBLL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.0992431640625 2 500.253297 998.492041 NaN NaN NaN NaN NaN NaN NaN 58.65 1 59.409 58.909 59.909 0.75894 0 0 0 0.42757 1 26916 26916 21.747 3.6003 1 + 23752 13680 15253 15309 27308 27308 -0.007265464102374608 PIFHRTMQTWW 11 Unmodified _PIFHRTMQTWW_ 0 0 0 ENST00000469172.5_1_10:70091245-70091596:+|nuORF ENST00000469172.5_1_10:70091245-70091596:+|nuORF ENST00000469172.5_1_10:70091245-70091596:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 752.3766479492188 2 751.871714 1501.72887 3.6903 0.0027746 0.91059 0.00068465 4.6008 0.0034592 751.8722850229523 64.099 0.15627 64.347 64.253 64.41 0.24803 16 9 2 0 0 0 0.88721 1 29378 29378 2.9952 0.26005 1 397960 23753 8163 15254 15310 27309 27309 -0.0019209839772429405 PIFQLPRSL 9 Unmodified _PIFQLPRSL_ 0 0 0 ENSG00000171109|ENST00000471841|MFN1 ENSG00000171109|ENST00000471841|MFN1 ENSG00000171109|ENST00000471841|MFN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.8858947753906 3 357.550082 1069.62842 2.5404 0.00090834 0.87027 0.00031117 3.4107 0.0012195 357.55039372446197 49.856 0.9424 49.856 49.394 50.336 0 74 43 2 0 0 0 1.0894 1 22755 22755 2.4985 0 1 1095000 23754 4787 15255 15311 27310 27310 0.09638612610933706 PIFRKVLLLVF 11 Unmodified _PIFRKVLLLVF_ 0 0 0 REV__ENST00000343105.9_1_2:191381046-191390059:-|nuORF REV__ENST00000343105.9_1_2:191381046-191390059:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 672.8770751953125 2 672.941934 1343.86931 NaN NaN NaN NaN NaN NaN NaN 107.17 1 107.77 107.27 108.27 0.60074 0 0 0 1.008 1 49467 49467 0.35063 0 1 + 23755 14184 15256 15312 27311 27311 0.2111342859816432 PIFTIWAIFYI 11 Unmodified _PIFTIWAIFYI_ 0 0 0 REV__nc|ENSG00000173612|Q5T6X5-3|GPRC6A REV__nc|ENSG00000173612|Q5T6X5-3|GPRC6A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 692.3911743164062 2 692.389199 1382.76385 NaN NaN NaN NaN NaN NaN NaN 62.469 1 63.129 62.629 63.629 0.66008 0 0 0 1.0055 1 28628 28628 3.5965 0 1 + 23756 13606 15257 15313 27312 27312 0.08777467681898088 PIFWEHEE 8 Unmodified _PIFWEHEE_ 0 0 0 REV__ENST00000511381.1_1_5:138677603-138704484:+|nuORF REV__ENST00000511381.1_1_5:138677603-138704484:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.7774047851562 2 543.748182 1085.48181 NaN NaN NaN NaN NaN NaN NaN 68.025 1 68.727 68.227 69.227 0.70218 0 0 0 0.99035 1 32404 32404 6.3541 1.1234 1 + 23757 11544 15258 15314 27313 27313 -0.05751109344805627 PIGGDTATVTI 11 Unmodified _PIGGDTATVTI_ 0 0 0 REV__ENSG00000243232|ENST00000289269|PCDHAC2 REV__ENSG00000243232|ENST00000289269|PCDHAC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.7841796875 2 522.782222 1043.54989 3.1788 0.0016618 1.1002 0.00057518 4.279 0.002237 522.7828431823112 53.541 0.48759 54.206 54.003 54.491 0.6644 51 23 3 0 0 0 0.05848 1 24496 24496 49.933 0.37871 1 1621300 + 23758 14628 15259 15315 27314 27314 0.029857155152058112 PIGLFHSLL 9 Unmodified _PIGLFHSLL_ 0 0 0 REV__ENST00000436747.5_1_2:242688429-242688768:+|nuORF REV__ENST00000436747.5_1_2:242688429-242688768:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 332.8670349121094 3 332.867411 995.580402 NaN NaN NaN NaN NaN NaN NaN 12.535 1 12.843 12.343 13.343 0.30727 0 0 0 0.90228 1 5653 5653 2.9952 0 1 + 23759 16311 15260 15316 27315 27315 0.08243538690908281 PIGNRFVKNF 10 Unmodified _PIGNRFVKNF_ 0 0 0 REV__PARN|p.H275Lfs*5|1|0.19|ENSG00000140694|chr16:14599920-14599921|-/A|frameshift_variant REV__PARN|p.H275Lfs*5|1|0.19|ENSG00000140694|chr16:14599920-14599921|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.33642578125 2 596.33529 1190.65603 NaN NaN NaN NaN NaN NaN NaN 68.919 1 68.919 68.419 69.419 0 0 0 0 0.99225 1 33220 33220 6.7232 0 1 + 23760 12262 15261 15317 27316 27316 0.06832515871178657 PIHADPRL 8 Unmodified _PIHADPRL_ 0 0 0 nc|ENSG00000171453|O15160-2|POLR1C;ENSG00000171453|ENST00000642195|POLR1C;ENST00000481352.6_1_6:43484832-43487644:+|nuORF nc|ENSG00000171453|O15160-2|POLR1C nc|ENSG00000171453|O15160-2|POLR1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 459.7628173828125 2 459.761426 917.5083 2.7355 0.0012577 0.69725 0.00032057 3.4327 0.0015782 459.7615990068094 36.329 0.32324 36.587 36.396 36.719 0.25768 22 12 2 0 0 0 0.38743 1 16553 16553 29.082 3.6823 1 709530 23761 4803 15262 15318 27317 27317 0.046246243371683704 PIHADPRL 8 Unmodified _PIHADPRL_ 0 0 0 nc|ENSG00000171453|O15160-2|POLR1C;ENSG00000171453|ENST00000642195|POLR1C;ENST00000481352.6_1_6:43484832-43487644:+|nuORF nc|ENSG00000171453|O15160-2|POLR1C nc|ENSG00000171453|O15160-2|POLR1C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 459.761426 917.5083 2.7493 0.001264 0.73331 0.00033715 3.4826 0.0016012 459.7615708925766 36.581 0.31804 36.581 36.394 36.712 0 0.057941 -4.9655E-05 NaN 29.082 25 14 3 NaN NaN NaN NaN 0 NaN NaN 0 544010 23762 4803 15262 15318 0.046246243371683704 PIHADPRL 8 Unmodified _PIHADPRL_ 0 0 0 nc|ENSG00000171453|O15160-2|POLR1C;ENSG00000171453|ENST00000642195|POLR1C;ENST00000481352.6_1_6:43484832-43487644:+|nuORF nc|ENSG00000171453|O15160-2|POLR1C nc|ENSG00000171453|O15160-2|POLR1C MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 459.761426 917.5083 2.8758 0.0013222 1.1369 0.00052272 4.0127 0.0018449 459.7620436166204 35.706 0.17628 36.498 36.371 36.547 0.79131 -0.025453 0.00032149 NaN 29.082 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 478220 23763 4803 15262 15318 0.046246243371683704 PIHADPRL 8 Unmodified _PIHADPRL_ 0 0 0 nc|ENSG00000171453|O15160-2|POLR1C;ENSG00000171453|ENST00000642195|POLR1C;ENST00000481352.6_1_6:43484832-43487644:+|nuORF nc|ENSG00000171453|O15160-2|POLR1C nc|ENSG00000171453|O15160-2|POLR1C MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 459.761426 917.5083 2.9917 0.0013755 0.71291 0.00032777 3.7046 0.0017032 459.7616660639749 35.801 0.22409 36.427 36.296 36.52 0.62631 -0.096267 -6.8411E-05 NaN 29.082 14 8 2 NaN NaN NaN NaN 0 NaN NaN 0 723410 23764 4803 15262 15318 0.046246243371683704 PIHALDLLEVP 11 Unmodified _PIHALDLLEVP_ 0 0 0 REV__ENST00000557199.1_1_12:56740507-56742527:-|nuORF REV__ENST00000557199.1_1_12:56740507-56742527:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 608.9413452148438 2 608.850438 1215.68632 NaN NaN NaN NaN NaN NaN NaN 84.917 1 84.917 84.417 85.417 0 0 0 0 0.97845 1 43107 43107 8.7454 0.15213 1 + 23765 17331 15263 15319 27318 27318 0.08710829745723458 PIHIKERKKTQ 11 Unmodified _PIHIKERKKTQ_ 0 0 0 REV__nc|ENSG00000114013|P42081-2|CD86 REV__nc|ENSG00000114013|P42081-2|CD86 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 689.4183349609375 2 689.419885 1376.82522 NaN NaN NaN NaN NaN NaN NaN 87.87 1 88.549 88.049 89.049 0.67818 0 0 0 1.0059 1 40472 40472 2.9952 1.151 1 + 23766 11313 15264 15320 27319 27319 0.15187792433880531 PIHNMQTIWVF 11 Unmodified _PIHNMQTIWVF_ 0 0 0 REV__ENSG00000221968|ENST00000278829|FADS3 REV__ENSG00000221968|ENST00000278829|FADS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 693.3578491210938 2 693.355365 1384.69618 NaN NaN NaN NaN NaN NaN NaN 58.17 1 58.939 58.439 59.439 0.76861 0 0 0 1.0072 1 26670 26670 1.3295 0 1 + 23767 14546 15265 15321 27320 27320 0.019216944794379742 PIIKRYTRRES 11 Unmodified _PIIKRYTRRES_ 0 0 0 REV__ENST00000464559.1_1_2:113956206-113958989:+|nuORF REV__ENST00000464559.1_1_2:113956206-113958989:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 709.9457397460938 2 709.914967 1417.81538 NaN NaN NaN NaN NaN NaN NaN 60.216 1 60.216 59.716 60.716 0 0 0 0 1.0071 1 27925 27925 1.4819 0 1 + 23768 11687 15266 15322 27321 27321 0.12318604428492108 PIKFAKPGT 9 Unmodified _PIKFAKPGT_ 0 0 0 REV__nc|ENSG00000156687|Q6UXZ4-2|UNC5D REV__nc|ENSG00000156687|Q6UXZ4-2|UNC5D MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 320.53131103515625 3 320.195527 957.564752 2.2484 0.00071992 0.41241 0.00013205 2.6608 0.00085197 320.19597329649895 13.821 0.19754 14.469 14.28 14.477 0.64819 21 15 2 0 0 0 0.11267 1 6144 6144 1.0715 0 1 686350 + 23769 12781 15267 15323 27322 27322 0.0842725217385123 PIKKDLDL 8 Unmodified _PIKKDLDL_ 0 0 0 REV__ENSG00000042429|ENST00000251871|MED17 REV__ENSG00000042429|ENST00000251871|MED17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.2887268066406 2 471.286943 940.559333 2.8855 0.0013599 0.8806 0.00041502 3.7661 0.0017749 471.28746041646696 38.505 0.42738 39.139 38.943 39.37 0.63389 33 15 3 0 0 0 0.42655 1 17657 17657 26.341 0 1 518950 + 23770 10322 15268 15324 27323 27323 0.0866752859137705 PIKKKDLKKL 10 Unmodified _PIKKKDLKKL_ 0 0 0 ENSG00000104332|ENST00000220772|SFRP1 ENSG00000104332|ENST00000220772|SFRP1 ENSG00000104332|ENST00000220772|SFRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 605.8967895507812 2 605.915916 1209.81728 NaN NaN NaN NaN NaN NaN NaN 55.842 1 55.842 55.342 56.342 0 0 0 0 1.0015 1 25692 25692 0.45834 0.10771 1 23771 1433 15269 15325 27324 27324 0.2207626518440975 PIKKREDRRR 10 Unmodified _PIKKREDRRR_ 0 0 0 nc|ENSG00000137757|P51878-3|CASP5;nc|ENSG00000137757|P51878-6|CASP5;nc|ENSG00000137757|P51878-2|CASP5;ENSG00000137757|ENST00000260315|CASP5;nc|ENSG00000137757|P51878-5|CASP5 nc|ENSG00000137757|P51878-3|CASP5 nc|ENSG00000137757|P51878-3|CASP5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.2108459472656 4 339.210101 1352.8113 2.3086 0.0007831 -1.5995 -0.00054256 0.70913 0.00024054 339.20982807205047 51.369 0.87213 51.631 51.097 51.969 0.26228 63 41 2 0 0 0 0.94099 1 23492 23492 0.69767 0.19171 1 1751000 23772 3035 15270 15326 27325 27325 0.149005597254245 PIKKREDRRR 10 Unmodified _PIKKREDRRR_ 0 0 0 nc|ENSG00000137757|P51878-3|CASP5;nc|ENSG00000137757|P51878-6|CASP5;nc|ENSG00000137757|P51878-2|CASP5;ENSG00000137757|ENST00000260315|CASP5;nc|ENSG00000137757|P51878-5|CASP5 nc|ENSG00000137757|P51878-3|CASP5 nc|ENSG00000137757|P51878-3|CASP5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 339.210101 1352.8113 2.4363 0.00082641 -1.9032 -0.00064557 0.53311 0.00018084 339.2095670496353 51.817 0.3962 51.817 51.44 51.837 0 0.092742 -6.5376E-05 NaN 0.69767 61 24 3 NaN NaN NaN NaN 0 NaN NaN 0 1052900 23773 3035 15270 15326 0.149005597254245 PIKKREDRRR 10 Unmodified _PIKKREDRRR_ 0 0 0 nc|ENSG00000137757|P51878-3|CASP5;nc|ENSG00000137757|P51878-6|CASP5;nc|ENSG00000137757|P51878-2|CASP5;ENSG00000137757|ENST00000260315|CASP5;nc|ENSG00000137757|P51878-5|CASP5 nc|ENSG00000137757|P51878-3|CASP5 nc|ENSG00000137757|P51878-3|CASP5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 339.210101 1352.8113 2.04 0.00069199 -2.1765 -0.00073828 -0.13648 -4.6295E-05 339.20933624478215 50.907 0.47016 51.724 51.48 51.95 0.81738 9.1187E-05 -0.0004362 NaN 0.69767 52 26 3 NaN NaN NaN NaN 0 NaN NaN 0 1221800 23774 3035 15270 15326 0.149005597254245 PIKKREDRRR 10 Unmodified _PIKKREDRRR_ 0 0 0 nc|ENSG00000137757|P51878-3|CASP5;nc|ENSG00000137757|P51878-6|CASP5;nc|ENSG00000137757|P51878-2|CASP5;ENSG00000137757|ENST00000260315|CASP5;nc|ENSG00000137757|P51878-5|CASP5 nc|ENSG00000137757|P51878-3|CASP5 nc|ENSG00000137757|P51878-3|CASP5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 339.210101 1352.8113 2.3086 0.0007831 -1.5995 -0.00054256 0.70913 0.00024054 339.20982807205047 51.369 0.87213 51.631 51.097 51.969 0.26228 -0.092833 0.00034668 NaN 0.69767 63 41 2 NaN NaN NaN NaN 0 NaN NaN 0 1751000 23775 3035 15270 15326 0.149005597254245 PIKVLVRLRKR 11 Unmodified _PIKVLVRLRKR_ 0 0 0 ENSG00000187860|ENST00000338306|CCDC157 ENSG00000187860|ENST00000338306|CCDC157 ENSG00000187860|ENST00000338306|CCDC157 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 689.3858032226562 2 689.48008 1376.94561 NaN NaN NaN NaN NaN NaN NaN 99.72 1 99.72 99.22 100.22 0 0 0 0 1.008 1 54900 54900 0.35063 0.043601 1 23776 5641 15271 15327 27326 27326 0.272212452181293 PIKYIRRLK 9 Unmodified _PIKYIRRLK_ 0 0 0 REV__ENST00000389622.6_1_3:97583283-97583379:+|nuORF REV__ENST00000389622.6_1_3:97583283-97583379:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.9301147460938 2 593.892775 1185.771 NaN NaN NaN NaN NaN NaN NaN 56.789 1 56.789 56.289 57.289 0 0 0 0 0.90511 1 26146 26146 2.3027 0 1 + 23777 15915 15272 15328 27327 27327 0.1855424507295993 PILFRLGPRWR 11 Unmodified _PILFRLGPRWR_ 0 0 0 ENST00000551150.5_1_12:120638697-120638868:-|nuORF ENST00000551150.5_1_12:120638697-120638868:-|nuORF ENST00000551150.5_1_12:120638697-120638868:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.95367431640625 3 470.954212 1409.84081 NaN NaN NaN NaN NaN NaN NaN 56.167 1 56.944 56.444 57.444 0.77786 0 0 0 1.0071 1 25670 25670 1.4551 0 1 23778 8876 15273 15329 27328 27328 0.1522812374159912 PILILANKQ 9 Unmodified _PILILANKQ_ 0 0 0 ENSG00000174225|ENST00000450049|ARL13A;nc|ENSG00000174225|Q5H913|ARL13A ENSG00000174225|ENST00000450049|ARL13A ENSG00000174225|ENST00000450049|ARL13A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 337.21875 3 337.218332 1008.63317 NaN NaN NaN NaN NaN NaN NaN 7.5611 1 7.5611 7.0611 8.0611 0 0 0 0 0.91342 1 3411 3411 0.26902 0 1 23779 4966 15274 15330 27329 27329 0.12919496753693238 PILIRIADV 9 Unmodified _PILIRIADV_ 0 0 0 ENSG00000162753|ENST00000367714|SLC9C2 ENSG00000162753|ENST00000367714|SLC9C2 ENSG00000162753|ENST00000367714|SLC9C2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 337.2182312011719 3 337.218332 1008.63317 NaN NaN NaN NaN NaN NaN NaN 28.648 1 28.648 28.148 29.148 0 0 0 0 0.91059 1 12920 12920 0.96228 0.56156 1 23780 4164 15275 15331 27330 27330 0.12919496753693238 PILKALILKL 10 Unmodified _PILKALILKL_ 0 0 0 ENSG00000198793|ENST00000361445|MTOR ENSG00000198793|ENST00000361445|MTOR ENSG00000198793|ENST00000361445|MTOR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.4041137695312 2 561.404653 1120.79475 NaN NaN NaN NaN NaN NaN NaN 56.687 1 57.465 56.965 57.965 0.77786 0 0 0 1.0015 1 25923 25923 0.45834 0.057624 1 23781 5935 15276 15332 27331 27331 0.23918665786800375 PILKLARASRR 11 Unmodified _PILKLARASRR_ 0 0 0 REV__ENST00000553343.5_1_14:24910101-24911445:-|nuORF REV__ENST00000553343.5_1_14:24910101-24911445:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.0587158203125 2 640.917313 1279.82007 NaN NaN NaN NaN NaN NaN NaN 58.786 1 59.545 59.045 60.045 0.75894 0 0 0 1.0059 1 26999 26999 2.9952 0 1 + 23782 17302 15277 15333 27332 27332 0.19135533361918533 PILLDWKAQLL 11 Unmodified _PILLDWKAQLL_ 0 0 0 REV__ENSG00000187688|ENST00000338560|TRPV2 REV__ENSG00000187688|ENST00000338560|TRPV2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2685546875 3 437.267463 1308.78056 3.2062 0.001402 0.98732 0.00043172 4.1935 0.0018337 437.26772062992023 48.493 1.1974 49.148 48.621 49.818 0.65525 149 45 4 0 0 0 0.91028 1 22067 22067 1.4551 0 1 4130600 + 23783 14106 15278 15334 27333 27333 0.1385196856786024 PILLLLVVLC 10 Unmodified _PILLLLVVLC_ 0 0 0 nc|ENSG00000163357|Q5T197-2|DCST1;nc|ENSG00000163357|Q5T197-3|DCST1;ENSG00000163357|ENST00000295542|DCST1 nc|ENSG00000163357|Q5T197-2|DCST1 nc|ENSG00000163357|Q5T197-2|DCST1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.1093139648438 2 548.364139 1094.71372 NaN NaN NaN NaN NaN NaN NaN 76.052 1 76.309 75.809 76.809 0.25704 0 0 0 0.99983 1 35010 35010 1.8442 1.1539 1 23784 4203 15279 15335 27334 27334 0.17015641752391275 PILLLRLIHLF 11 Unmodified _PILLLRLIHLF_ 0 0 0 nc|ENSG00000160796|Q6ZNJ1-2|NBEAL2;nc|ENSG00000160796|Q6ZNJ1-3|NBEAL2;ENSG00000160796|ENST00000450053|NBEAL2 nc|ENSG00000160796|Q6ZNJ1-2|NBEAL2 nc|ENSG00000160796|Q6ZNJ1-2|NBEAL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.7287292480469 4 337.72733 1346.88021 2.6826 0.00090598 1.1881 0.00040126 3.8707 0.0013072 337.72771210899964 32.572 0.40666 32.827 32.626 33.033 0.25452 34 20 2 0 0 0 0.91459 1 14883 14883 0.094841 0 1 1149700 23785 4081 15280 15336 27335 27335 0.2206483097245382 PILRRKKKKKK 11 Unmodified _PILRRKKKKKK_ 0 0 0 nc|ENSG00000114923|P48751-3|SLC4A3;ENSG00000114923|ENST00000358055|SLC4A3;nc|ENSG00000114923|P48751-2|SLC4A3 nc|ENSG00000114923|P48751-3|SLC4A3 nc|ENSG00000114923|P48751-3|SLC4A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 712.0079956054688 2 712.009005 1422.00346 NaN NaN NaN NaN NaN NaN NaN 69.314 1 69.314 68.814 69.814 0 0 0 0 1.0071 1 33468 33468 1.4819 1.1749 1 23786 1930 15281 15337 27336 27336 0.3093350714354983 PILRRLLRVWT 11 Unmodified _PILRRLLRVWT_ 0 0 0 REV__nc|ENSG00000123143|Q16512-3|PKN1 REV__nc|ENSG00000123143|Q16512-3|PKN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 711.957275390625 2 711.956438 1421.89832 NaN NaN NaN NaN NaN NaN NaN 73.659 1 74.358 73.858 74.858 0.69881 0 0 0 1.0071 1 35538 35538 1.4819 0 1 + 23787 11604 15282 15338 27337 27337 0.20424965947154305 PILRRQRLRY 10 Unmodified _PILRRQRLRY_ 0 0 0 nc|ENSG00000117411|O60909-2|B4GALT2;ENSG00000117411|ENST00000372324|B4GALT2;nc|ENSG00000117411|O60909-3|B4GALT2 nc|ENSG00000117411|O60909-2|B4GALT2 nc|ENSG00000117411|O60909-2|B4GALT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 685.9292602539062 2 685.928212 1369.84187 NaN NaN NaN NaN NaN NaN NaN 31.433 1 32.222 31.722 32.722 0.78879 0 0 0 1.0015 1 14196 14196 0.40072 0.093686 1 23788 2071 15283 15339 27338 27338 0.17174338110498866 PILVLLLFRLL 11 Unmodified _PILVLLLFRLL_ 0 0 0 REV__ENST00000502726.5_1_4:47685742-47840047:-|nuORF REV__ENST00000502726.5_1_4:47685742-47840047:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 655.4520263671875 2 655.452134 1308.88972 NaN NaN NaN NaN NaN NaN NaN 61.35 1 61.35 60.85 61.85 0 0 0 0 1.0071 1 28606 28606 1.4819 0 1 + 23789 12435 15284 15340 27339 27339 0.24762599257996953 PILYTFKMGLI 11 Unmodified _PILYTFKMGLI_ 0 0 0 REV__ENSG00000204300|ENST00000375026|TMEM225 REV__ENSG00000204300|ENST00000375026|TMEM225 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 648.3738403320312 2 648.375235 1294.73592 NaN NaN NaN NaN NaN NaN NaN 53.882 1 54.549 54.049 55.049 0.6665 0 0 0 1.0055 1 24641 24641 3.5965 0 1 + 23790 14410 15285 15341 27340 27340 0.10033821430170065 PIMWCPLRSI 10 Unmodified _PIMWCPLRSI_ 0 0 0 REV__ENST00000321169.9_1_3:15642900-15643110:-|nuORF REV__ENST00000321169.9_1_3:15642900-15643110:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.9361267089844 3 405.884078 1214.63041 NaN NaN NaN NaN NaN NaN NaN 55.056 1 55.724 55.224 56.224 0.66798 0 0 0 1.0003 1 25194 25194 0.62683 0 1 + 23791 15316 15286 15342 27341 27341 0.031675820328700866 PINILQELL 9 Unmodified _PINILQELL_ 0 0 0 ENSG00000011451|ENST00000673675|WIZ;nc|ENSG00000011451|O95785|WIZ;ENST00000595214.2_1_19:15547509-15549737:-|nuORF;nc|ENSG00000011451|O95785-2|WIZ ENSG00000011451|ENST00000673675|WIZ ENSG00000011451|ENST00000673675|WIZ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1052.64306640625 1 1052.63502 1051.62775 4.1464 0.0043647 1.592 0.0016758 5.7385 0.0060405 1052.637714217346 104.17 0.028259 104.49 104.47 104.5 0.31863 4 2 2 0 0 0 1.2126 1 48136 48136 0.52476 0 1 482260 23792 416 15287 15343 27342 27342 0.10399773171252491 PINVTGVG 8 Unmodified _PINVTGVG_ 0 0 0 nc|ENSG00000188158|Q6T4R5-4|NHS;nc|ENSG00000188158|Q6T4R5-3|NHS;nc|ENSG00000188158|Q6T4R5-2|NHS;ENSG00000188158|ENST00000676302|NHS nc|ENSG00000188158|Q6T4R5-4|NHS nc|ENSG00000188158|Q6T4R5-4|NHS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 378.7181091308594 2 378.716153 755.417754 NaN NaN NaN NaN NaN NaN NaN 46.912 1 47.741 47.241 48.241 0.82915 0 0 0 0.99035 1 21371 21371 0 0 1 23793 5655 15288 15344 27343 27343 0.030261552889214727 PINWSDPTLLQ 11 Unmodified _PINWSDPTLLQ_ 0 0 0 REV__ENSG00000112320|ENST00000317357|SOBP REV__ENSG00000112320|ENST00000317357|SOBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 642.3387451171875 2 642.335153 1282.65575 3.1054 0.0019947 1.4309 0.00091913 4.5363 0.0029138 642.3358218312409 74.306 0.35027 74.993 74.877 75.228 0.68662 53 26 3 0 0 0 0.21806 1 35940 35940 27.629 0 1 2299700 + 23794 11270 15289 15345 27344 27344 0.02573051360673162 PINYERGSVE 10 Unmodified _PINYERGSVE_ 0 0 0 REV__SLA2|p.A88Pfs*12|1|0.32|ENSG00000101082|chr20:36633559-36633559|C/-|frameshift_variant REV__SLA2|p.A88Pfs*12|1|0.32|ENSG00000101082|chr20:36633559-36633559|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.29052734375 2 582.288202 1162.56185 3.317 0.0019314 -1.0673 -0.00062149 2.2497 0.00131 582.2876437487824 27.435 0.31665 28.221 28.072 28.388 0.78627 70 30 3 0 0 0 0.89464 2 12292 12292;12384 3.9444 0.66309 1 2128200 + 23795 10865 15290 15346 27345;27346 27345 -0.01292667741608966 PIPREHLISLH 11 Unmodified _PIPREHLISLH_ 0 0 0 ENST00000554523.5_1_14:68228796-68282710:-|nuORF;nc|ENSG00000072121|Q68DK2-5|ZFYVE26;nc|ENSG00000072121|Q68DK2-2|ZFYVE26;ENSG00000072121|ENST00000347230|ZFYVE26 ENST00000554523.5_1_14:68228796-68282710:-|nuORF ENST00000554523.5_1_14:68228796-68282710:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 656.381103515625 2 656.380229 1310.7459 NaN NaN NaN NaN NaN NaN NaN 63.774 1 64.022 63.522 64.522 0.24803 0 0 0 1.0071 1 29208 29208 1.4819 0 1 23796 786 15291 15347 27347 27347 0.10296145479765073 PIPRNQNFIIH 11 Unmodified _PIPRNQNFIIH_ 0 0 0 nc|ENSG00000155657|Q8WZ42-6|TTN nc|ENSG00000155657|Q8WZ42-6|TTN nc|ENSG00000155657|Q8WZ42-6|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 674.87841796875 2 674.877853 1347.74115 NaN NaN NaN NaN NaN NaN NaN 81.411 1 81.411 80.911 81.911 0 0 0 0 1.0034 1 40551 40551 6.2058 0 1 23797 9700 15292 15348 27348 27348 0.08119261336992167 PIPVPVPMFLP 11 Unmodified _PIPVPVPMFLP_ 0 0 0 nc|ENSG00000147130|Q14202-2|ZMYM3;ENSG00000147130|ENST00000314425|ZMYM3 nc|ENSG00000147130|Q14202-2|ZMYM3 nc|ENSG00000147130|Q14202-2|ZMYM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 603.850341796875 2 603.851396 1205.68824 NaN NaN NaN NaN NaN NaN NaN 58.156 1 58.156 57.656 58.656 0 0 0 0 1.0055 1 26825 26825 3.5965 1.7523 1 23798 3547 15293 15349 27349 27349 0.09362167229960505 PIPYDTPK 8 Unmodified _PIPYDTPK_ 0 0 0 nc|ENSG00000066382|Q15777-2|MPPED2;ENSG00000066382|ENST00000358117|MPPED2 nc|ENSG00000066382|Q15777-2|MPPED2 nc|ENSG00000066382|Q15777-2|MPPED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.75115966796875 2 465.750193 929.485833 2.8143 0.0013108 -0.0068285 -3.1804E-06 2.8075 0.0013076 465.7500469985933 32.432 0.34536 32.432 32.279 32.624 0 60 23 4 0 0 0 0.21011 1 14691 14691 42.095 11.87 1 2235200 23799 706 15294 15350 27350 27350 0.018269801488941084 PIPYDTPK 8 Unmodified _PIPYDTPK_ 0 0 0 nc|ENSG00000066382|Q15777-2|MPPED2;ENSG00000066382|ENST00000358117|MPPED2 nc|ENSG00000066382|Q15777-2|MPPED2 nc|ENSG00000066382|Q15777-2|MPPED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.75128173828125 2 465.750193 929.485833 3.0378 0.0014148 -0.71883 -0.00033479 2.3189 0.00108 465.7496105832752 32.284 0.38782 32.539 32.335 32.723 0.25452 61 28 3 0 0 0 0.12673 1 14711 14711 50.855 3.9342 1 4064700 23800 706 15294 15350 27351 27351 0.018269801488941084 PIPYDTPK 8 Unmodified _PIPYDTPK_ 0 0 0 nc|ENSG00000066382|Q15777-2|MPPED2;ENSG00000066382|ENST00000358117|MPPED2 nc|ENSG00000066382|Q15777-2|MPPED2 nc|ENSG00000066382|Q15777-2|MPPED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.75140380859375 2 465.750193 929.485833 2.8052 0.0013065 -0.21285 -9.9136E-05 2.5923 0.0012074 465.7498739493848 31.705 0.34759 32.322 32.11 32.457 0.61737 69 30 3 0 0 0 0.29255 1 14558 14558 36.044 5.8194 1 3670100 23801 706 15294 15350 27352 27352 0.018269801488941084 PIQLSTHPQI 10 Unmodified _PIQLSTHPQI_ 0 0 0 REV__nc|ENSG00000171634|Q12830-4|BPTF REV__nc|ENSG00000171634|Q12830-4|BPTF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.8416748046875 2 567.319306 1132.62406 3.1733 0.0018003 0.59583 0.00033803 3.7691 0.0021383 567.3200242236112 59.015 0.13481 59.774 59.717 59.852 0.75894 18 11 3 0 0 0 0.10762 1 27107 27107 21.537 0 1 964800 + 23802 9981 15295 15351 27353 27353 0.06305103397380662 PIREKKEKR 9 Unmodified _PIREKKEKR_ 0 0 0 REV__SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant REV__SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.2486572265625 3 395.247173 1182.71969 2.9047 0.0011481 -0.0055205 -2.182E-06 2.8992 0.0011459 395.24713997193334 16.645 0.16333 17.303 17.267 17.43 0.65798 17 12 2 0 0 0 1.2126 1 7492 7492 0.23584 0 1 66559 + 23803 12008 15296 15352 27354 27354 0.1356387630826248 PIRELMKLKKK 11 Unmodified _PIRELMKLKKK_ 0 0 0 REV__nc|ENSG00000100503|Q8N4C6-4|NIN REV__nc|ENSG00000100503|Q8N4C6-4|NIN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 692.2079467773438 2 692.447057 1382.87956 NaN NaN NaN NaN NaN NaN NaN 73.92 1 74.607 74.107 75.107 0.68662 0 0 0 1.0059 1 35698 35698 2.9952 0 1 + 23804 10834 15297 15353 27355 27355 0.20343668261079983 PIRHGTPLRH 10 Unmodified _PIRHGTPLRH_ 0 0 0 ENST00000369304.7_1_1:145524962-145527628:+|nuORF ENST00000369304.7_1_1:145524962-145527628:+|nuORF ENST00000369304.7_1_1:145524962-145527628:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 592.344970703125 2 592.343981 1182.67341 NaN NaN NaN NaN NaN NaN NaN 56.867 1 56.867 56.367 57.367 0 0 0 0 0.99464 1 26189 26189 6.2058 0.013936 1 23805 7291 15298 15354 27356 27356 0.0893785619684877 PIRKKRRERII 11 Unmodified _PIRKKRRERII_ 0 0 0 REV__ENST00000562687.6_3_16:32769598-32772029:+|nuORF REV__ENST00000562687.6_3_16:32769598-32772029:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 733.1766357421875 2 732.983518 1463.95248 NaN NaN NaN NaN NaN NaN NaN 88.081 1 88.081 87.581 88.581 0 0 0 0 1.0082 1 45611 45611 0 0 1 + 23806 17384 15299 15355 27357 27357 0.23906558098724418 PIRKVKKLLKL 11 Unmodified _PIRKVKKLLKL_ 0 0 0 ENST00000414406.2_1_12:20095069-20095366:+|nuORF ENST00000414406.2_1_12:20095069-20095366:+|nuORF ENST00000414406.2_1_12:20095069-20095366:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.9364624023438 2 668.481757 1334.94896 NaN NaN NaN NaN NaN NaN NaN 76.11 1 76.734 76.234 77.234 0.62397 0 0 0 1.008 1 36873 36873 0.35063 0 1 23807 7697 15300 15356 27358 27358 0.2948849527215316 PIRLDWNRQSV 11 Unmodified _PIRLDWNRQSV_ 0 0 0 REV__ENST00000465717.1_1_1:170508572-170508710:+|nuORF REV__ENST00000465717.1_1_1:170508572-170508710:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 692.3755493164062 2 692.378217 1382.74188 NaN NaN NaN NaN NaN NaN NaN 68.787 1 69.489 68.989 69.989 0.70218 0 0 0 1.0044 1 32824 32824 4.897 1.3005 1 + 23808 15670 15301 15357 27359 27359 0.06582055986018531 PIRPTDPEKN 10 Unmodified _PIRPTDPEKN_ 0 0 0 ENST00000332359.5_1_X:149282682-149283381:+|nuORF ENST00000332359.5_1_X:149282682-149283381:+|nuORF ENST00000332359.5_1_X:149282682-149283381:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 389.85235595703125 3 389.543655 1165.60914 1.9723 0.00076828 0.47988 0.00018693 2.4521 0.00095522 389.877888762315 51.533 0.40611 52.35 52.173 52.579 0.81738 54 27 3 0 0 0 0.12676 1 23432 23432 3.5871 0 1 748640 23809 6998 15302 15358 27360 27360 0.032956115293927724 PIRQKMPL 8 Unmodified _PIRQKMPL_ 0 0 0 nc|ENSG00000111581|P57740-3|NUP107;nc|ENSG00000111581|P57740-2|NUP107;ENSG00000111581|ENST00000229179|NUP107 nc|ENSG00000111581|P57740-3|NUP107 nc|ENSG00000111581|P57740-3|NUP107 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7973327636719 2 491.796955 981.579357 3.0403 0.0014952 -0.87647 -0.00043105 2.1638 0.0010642 491.796239312251 53.961 0.86452 54.226 54.045 54.91 0.26462 57 38 2 0 0 0 0.73686 1 24793 24793 2.8892 0 1 401540 23810 1765 15303 15359 27361 27361 0.08783001050335315 PIRQSRKMRK 10 Unmodified _PIRQSRKMRK_ 0 0 0 ENST00000434972.1_1_X:5224570-5225104:-|nuORF ENST00000434972.1_1_X:5224570-5225104:-|nuORF ENST00000434972.1_1_X:5224570-5225104:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 433.93408203125 3 433.931191 1298.77174 NaN NaN NaN NaN NaN NaN NaN 104.8 1 105.4 104.9 105.9 0.59885 0 0 0 1.0019 1 48410 48410 0.13989 0.04505 1 23811 7886 15304 15360 27362 27362 0.1343071645035252 PIRRYELYRQR 11 Unmodified _PIRRYELYRQR_ 0 0 0 REV__ENSG00000185115|ENST00000332303|NSMCE3 REV__ENSG00000185115|ENST00000332303|NSMCE3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 775.4384765625 2 775.439141 1548.86373 NaN NaN NaN NaN NaN NaN NaN 93.164 1 93.419 92.919 93.919 0.25497 0 0 0 1.008 1 42821 42821 0.26902 0.26902 1 + 23812 14006 15305 15361 27363 27363 0.11125098068396255 PIRRYLRT 8 Unmodified _PIRRYLRT_ 0 0 0 nc|ENSG00000176248|Q9UJX6-2|ANAPC2;ENSG00000176248|ENST00000323927|ANAPC2 nc|ENSG00000176248|Q9UJX6-2|ANAPC2 nc|ENSG00000176248|Q9UJX6-2|ANAPC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.8299560546875 2 537.830175 1073.6458 NaN NaN NaN NaN NaN NaN NaN 85.091 1 85.757 85.257 86.257 0.66566 0 0 0 0.99035 1 39187 39187 2.3027 0.4585 1 23813 5070 15306 15362 27364 27364 0.11191952936587768 PIRTLPLILI 10 Unmodified _PIRTLPLILI_ 0 0 0 ENSG00000110375|ENST00000264031|UPK2 ENSG00000110375|ENST00000264031|UPK2 ENSG00000110375|ENST00000264031|UPK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.8932495117188 2 574.891909 1147.76927 NaN NaN NaN NaN NaN NaN NaN 59.136 1 59.136 58.636 59.636 0 0 0 0 1.0015 1 27326 27326 0.45834 0 1 23814 1712 15307 15363 27365 27365 0.2012919126439101 PISLRLWQ 8 Unmodified _PISLRLWQ_ 0 0 0 REV__ENST00000358825.9_1_11:129825441-129830819:-|nuORF REV__ENST00000358825.9_1_11:129825441-129830819:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.2040710449219 3 338.202793 1011.58655 2.5737 0.00087045 1.4881 0.00050327 4.0618 0.0013737 338.20330882525565 39.955 0.43807 40.596 40.428 40.866 0.64136 28 18 2 0 0 0 0.73203 1 18237 18237 3.2813 0 1 1070000 + 23815 15587 15308 15364 27366 27366 0.08122056922411502 PISQESLLL 9 Unmodified _PISQESLLL_ 0 0 0 nc|ENSG00000148700|Q9UEY8-2|ADD3;ENSG00000148700|ENST00000356080|ADD3 nc|ENSG00000148700|Q9UEY8-2|ADD3 nc|ENSG00000148700|Q9UEY8-2|ADD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.29144287109375 2 500.289682 998.564812 2.7937 0.0013977 0.13095 6.5515E-05 2.9247 0.0014632 500.2896228429871 70.327 0.28402 70.99 70.853 71.137 0.66208 27 15 2 0 0 0 0.017293 1 32249 32249 71.922 3.8416 1 559850 23816 3613 15309 15365 27367 27367 0.06547207383187015 PISQESLLL 9 Unmodified _PISQESLLL_ 0 0 0 nc|ENSG00000148700|Q9UEY8-2|ADD3;ENSG00000148700|ENST00000356080|ADD3 nc|ENSG00000148700|Q9UEY8-2|ADD3 nc|ENSG00000148700|Q9UEY8-2|ADD3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 500.289682 998.564812 3.0012 0.0015015 0.12909 6.4584E-05 3.1303 0.001566 500.28971306062294 70.87 0.25926 71.126 70.957 71.217 0.25641 0.068324 -5.7027E-07 NaN 71.922 30 18 2 NaN NaN NaN NaN 0 NaN NaN 0 499180 23817 3613 15309 15365 0.06547207383187015 PISQQSLPL 9 Unmodified _PISQQSLPL_ 0 0 0 ENSG00000147050|ENST00000611820|KDM6A ENSG00000147050|ENST00000611820|KDM6A ENSG00000147050|ENST00000611820|KDM6A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.783935546875 2 491.782025 981.549496 3.1354 0.0015419 0.14246 7.0057E-05 3.2778 0.001612 491.78201946514395 35.245 0.35331 35.5 35.391 35.744 0.25524 24 13 2 0 0 0 0.49692 1 16124 16124 12.532 1.7076 1 414260 23818 3542 15310 15366 27368 27368 0.05798340585999995 PISTHSPIL 9 Unmodified _PISTHSPIL_ 0 0 0 LTR2752_dup121|chr7:135263151-135264133:-|1.6065116481286288|0.0665708146513393|4.59|523.0|16|3|sense LTR2752_dup121|chr7:135263151-135264133:-|1.6065116481286288|0.0665708146513393|4.59|523.0|16|3|sense LTR2752_dup121|chr7:135263151-135264133:-|1.6065116481286288|0.0665708146513393|4.59|523.0|16|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.77813720703125 2 482.776742 963.538931 3.1944 0.0015422 -0.32421 -0.00015652 2.8701 0.0013856 482.77653605579525 49.732 0.26953 50.555 50.428 50.698 0.82285 23 14 2 0 0 0 0.063575 1 22647 22647 46.921 0 1 733170 23819 9499 15311 15367 27369 27369 0.05570357931560466 PITGSEIVAI 10 Unmodified _PITGSEIVAI_ 0 0 0 nc|ENSG999|O00370|L1_ORF2;L1HS_dup1616|chr22:28663284-28669315:+|1.1217790905042195|0.2468976263073953|2.18|496.0|9|1|sense;L1PA3_dup1464|chr2:208773458-208776294:+|1.730898577886428|0.207304446788351|3.06|523.0|1|1|sense nc|ENSG999|O00370|L1_ORF2 nc|ENSG999|O00370|L1_ORF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.2920837402344 2 500.289682 998.564812 2.9803 0.001491 0.60606 0.0003032 3.5863 0.0017942 500.2900542151213 42.491 0.35256 42.491 42.32 42.673 0 85 28 4 0 0 0 3.1138E-05 3 19284 19284;19334;19379 112.59 16.227 1 14867000 23820 9426 15312 15368 27370;27371;27372 27370 0.06547207383187015 PITGSEIVAI 10 Unmodified _PITGSEIVAI_ 0 0 0 nc|ENSG999|O00370|L1_ORF2;L1HS_dup1616|chr22:28663284-28669315:+|1.1217790905042195|0.2468976263073953|2.18|496.0|9|1|sense;L1PA3_dup1464|chr2:208773458-208776294:+|1.730898577886428|0.207304446788351|3.06|523.0|1|1|sense nc|ENSG999|O00370|L1_ORF2 nc|ENSG999|O00370|L1_ORF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.2904052734375 2 500.289682 998.564812 2.9608 0.0014812 -0.043218 -2.1621E-05 2.9176 0.0014596 500.2896560769217 41.533 0.30142 42.336 42.211 42.512 0.80351 112 47 3 0 0 0 1.2643E-05 2 18800 18800;18887 120.45 20.36 1 26942000 23821 9426 15312 15368 27373;27374 27373 0.06547207383187015 PITGSEIVAI 10 Unmodified _PITGSEIVAI_ 0 0 0 nc|ENSG999|O00370|L1_ORF2;L1HS_dup1616|chr22:28663284-28669315:+|1.1217790905042195|0.2468976263073953|2.18|496.0|9|1|sense;L1PA3_dup1464|chr2:208773458-208776294:+|1.730898577886428|0.207304446788351|3.06|523.0|1|1|sense nc|ENSG999|O00370|L1_ORF2 nc|ENSG999|O00370|L1_ORF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.2912292480469 2 500.289682 998.564812 3.354 0.001678 0.34502 0.00017261 3.699 0.0018506 500.2899120664802 42.345 0.3952 42.615 42.415 42.81 0.27021 78 23 4 0 0 0 0.00040807 3 19331 19238;19331;19384 108 14.704 1 11206000 23822 9426 15312 15368 27375;27376;27377 27376 0.06547207383187015 PITGSEIVAI 10 Unmodified _PITGSEIVAI_ 0 0 0 nc|ENSG999|O00370|L1_ORF2;L1HS_dup1616|chr22:28663284-28669315:+|1.1217790905042195|0.2468976263073953|2.18|496.0|9|1|sense;L1PA3_dup1464|chr2:208773458-208776294:+|1.730898577886428|0.207304446788351|3.06|523.0|1|1|sense nc|ENSG999|O00370|L1_ORF2 nc|ENSG999|O00370|L1_ORF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.2926940917969 2 500.289682 998.564812 3.3928 0.0016974 0.44235 0.0002213 3.8352 0.0019187 500.2900349106711 41.552 0.31664 42.197 41.978 42.295 0.64451 47 16 4 0 0 0 0.00040807 2 19053 18950;19053 108 11.63 1 12171000 23823 9426 15312 15368 27378;27379 27379 0.06547207383187015 PITLPNLLRF 10 Unmodified _PITLPNLLRF_ 0 0 0 ENSG00000153066|ENST00000283033|TXNDC11;nc|ENSG00000153066|Q6PKC3|TXNDC11 ENSG00000153066|ENST00000283033|TXNDC11 ENSG00000153066|ENST00000283033|TXNDC11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.7767333984375 2 592.363516 1182.71248 NaN NaN NaN NaN NaN NaN NaN 67.84 1 68.542 68.042 69.042 0.70218 0 0 0 0.99733 1 32295 32295 3.9444 0 1 23824 3770 15313 15369 27380 27380 0.12843143707800664 PIVKKYRR 8 Unmodified _PIVKKYRR_ 0 0 0 REV__nc|ENSG00000182557|Q6ZMD2-2|SPNS3 REV__nc|ENSG00000182557|Q6ZMD2-2|SPNS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.7134399414062 2 530.342918 1058.67128 NaN NaN NaN NaN NaN NaN NaN 81.353 1 81.522 81.022 82.022 0.16862 0 0 0 0.99035 1 39983 39983 2.8892 0.31174 1 + 23825 13895 15314 15370 27381 27381 0.14429427459026556 PIVLEFQQERE 11 Unmodified _PIVLEFQQERE_ 0 0 0 ENSG00000163798|ENST00000326019|SLC4A1AP;nc|ENSG00000163798|Q9BWU0-1|SLC4A1AP ENSG00000163798|ENST00000326019|SLC4A1AP ENSG00000163798|ENST00000326019|SLC4A1AP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 694.366455078125 2 694.364441 1386.71433 NaN NaN NaN NaN NaN NaN NaN 67.983 1 68.686 68.186 69.186 0.70218 0 0 0 1.0059 1 32378 32378 2.9952 1.5133 1 23826 4250 15315 15371 27382 27382 0.03644107935133434 PIVLTKWRHST 11 Unmodified _PIVLTKWRHST_ 0 0 0 nc|ENSG00000165322|Q8IWW6-3|ARHGAP12;nc|ENSG00000165322|Q8IWW6-2|ARHGAP12;nc|ENSG00000165322|Q8IWW6-4|ARHGAP12;ENSG00000165322|ENST00000344936|ARHGAP12;ENST00000497103.1_1_10:32101629-32132466:-|nuORF nc|ENSG00000165322|Q8IWW6-3|ARHGAP12 nc|ENSG00000165322|Q8IWW6-3|ARHGAP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 669.14453125 2 669.388054 1336.76155 NaN NaN NaN NaN NaN NaN NaN 108.18 1 108.22 107.72 108.72 0.04248 0 0 0 1.0055 1 58426 58426 3.5965 0 1 23827 4390 15316 15372 27383 27383 0.106644319967927 PIVNFDYSMEE 11 Unmodified _PIVNFDYSMEE_ 0 0 0 nc|ENSG00000106823|O94769-2|ECM2;ENSG00000106823|ENST00000344604|ECM2 nc|ENSG00000106823|O94769-2|ECM2 nc|ENSG00000106823|O94769-2|ECM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 672.2935791015625 2 672.294836 1342.57512 NaN NaN NaN NaN NaN NaN NaN 103.11 1 103.16 102.66 103.66 0.055092 0 0 0 1.0034 1 55929 55929 6.2058 0 1 23828 1584 15317 15373 27384 27384 -0.08246597744528117 PIWAVSVGIL 10 Unmodified _PIWAVSVGIL_ 0 0 0 REV__nc|ENSG00000154025|A0PJK1-5|SLC5A10 REV__nc|ENSG00000154025|A0PJK1-5|SLC5A10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.2146301269531 3 352.214699 1053.62227 2.618 0.0009221 -1.4436 -0.00050846 1.1744 0.00041364 352.2143058576024 39.551 0.29812 40.189 40.054 40.352 0.63778 36 14 3 0 0 0 0.64255 1 18114 18114 13.615 0.74226 1 3110600 + 23829 10034 15318 15374 27385 27385 0.09760094379430484 PIWAVSVGIL 10 Unmodified _PIWAVSVGIL_ 0 0 0 REV__nc|ENSG00000154025|A0PJK1-5|SLC5A10 REV__nc|ENSG00000154025|A0PJK1-5|SLC5A10 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 352.214699 1053.62227 2.6481 0.00093271 -1.6314 -0.00057459 1.0168 0.00035811 352.2140981266326 40.028 0.41229 40.295 40.103 40.515 0.26696 0.053131 -7.0016E-05 NaN 13.615 30 16 2 NaN NaN NaN NaN 0 NaN NaN 0 2970100 + 23830 10034 15318 15374 0.09760094379430484 PIWAVSVGIL 10 Unmodified _PIWAVSVGIL_ 0 0 0 REV__nc|ENSG00000154025|A0PJK1-5|SLC5A10 REV__nc|ENSG00000154025|A0PJK1-5|SLC5A10 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 352.214699 1053.62227 2.618 0.0009221 -1.4436 -0.00050846 1.1744 0.00041364 352.2143058576024 39.551 0.29812 40.189 40.054 40.352 0.63778 -0.053131 0.00012838 NaN 13.615 36 14 3 NaN NaN NaN NaN 0 NaN NaN 0 3110600 + 23831 10034 15318 15374 0.09760094379430484 PIYYMPVLL 9 Unmodified _PIYYMPVLL_ 0 0 0 REV__ENSG00000213699|ENST00000344420|SLC35F6 REV__ENSG00000213699|ENST00000344420|SLC35F6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.8101196289062 2 554.809196 1107.60384 3.583 0.0019879 -0.027322 -1.5159E-05 3.5557 0.0019727 554.8088110225661 37.684 0.22129 37.684 37.563 37.784 0 13 8 2 0 0 0 0.92809 1 17120 17120 5.2307 0 1 454500 + 23832 14499 15319 15375 27386 27386 0.054342164132094695 PKAAGGGGG 9 Unmodified _PKAAGGGGG_ 0 0 0 REV__ENST00000264088.8_1_19:6459571-6459757:-|nuORF REV__ENST00000264088.8_1_19:6459571-6459757:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 671.3475952148438 1 671.347114 670.339838 3.4067 0.0022871 -0.89775 -0.0006027 2.509 0.0016844 671.3461464101226 71.02 0.25565 71.682 71.52 71.775 0.66209 20 15 2 0 0 0 1.2126 1 32536 32536 0.52476 0 1 499900 + 23833 15013 15320 15376 27387 27387 -0.008518575764696834 PKAAKKKKRHL 11 Unmodified _PKAAKKKKRHL_ 0 0 0 ENST00000399449.3_1_10:75487125-75488312:-|nuORF ENST00000399449.3_1_10:75487125-75488312:-|nuORF ENST00000399449.3_1_10:75487125-75488312:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 653.0101928710938 2 652.935506 1303.85646 NaN NaN NaN NaN NaN NaN NaN 81.948 1 82.032 81.532 82.532 0.084106 0 0 0 1.0073 1 40375 40375 1.1933 0.79263 1 23834 7598 15321 15377 27388 27388 0.21668410258621407 PKAAKRLFLL 10 Unmodified _PKAAKRLFLL_ 0 0 0 REV__nc|ENSG00000176383|Q9C0J1-2|B3GNT4 REV__nc|ENSG00000176383|Q9C0J1-2|B3GNT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.8794555664062 2 578.881876 1155.7492 NaN NaN NaN NaN NaN NaN NaN 68.077 1 68.779 68.279 69.279 0.70218 0 0 0 0.9952 1 32436 32436 5.7319 2.4505 1 + 23835 13702 15322 15378 27389 27389 0.1775544032441303 PKADRLPRQP 10 Unmodified _PKADRLPRQP_ 0 0 0 REV__ENST00000370032.9_1_1:109203877-109203946:-|nuORF REV__ENST00000370032.9_1_1:109203877-109203946:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.3448486328125 2 589.343646 1176.67274 3.8184 0.0022503 -0.90612 -0.00053402 2.9123 0.0017163 589.3430058868945 87.609 1.6161 88.285 87.488 89.104 0.67555 193 74 4 0 0 0 0.93713 1 40213 40213 1.4819 0 1 4219400 + 23836 15717 15323 15379 27390 27390 0.09147016757128767 PKAHHQFH 8 Unmodified _PKAHHQFH_ 0 0 0 REV__ENSG00000221968|ENST00000278829|FADS3 REV__ENSG00000221968|ENST00000278829|FADS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.8413391113281 2 501.256843 1000.49913 2.4919 0.0012491 0.71983 0.00036082 3.2117 0.0016099 501.25694633715847 76.833 0.45013 77.457 77.299 77.749 0.62397 67 32 3 0 0 0 0.7441 1 37358 37358 2.3027 0.24298 1 1305500 + 23837 14546 15324 15380 27391 27391 -0.001097242284913591 PKAKAKKS 8 Unmodified _PKAKAKKS_ 0 0 0 ENSG00000196440|ENST00000423738|ARMCX4 ENSG00000196440|ENST00000423738|ARMCX4 ENSG00000196440|ENST00000423738|ARMCX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 428.940185546875 2 429.281995 856.549437 NaN NaN NaN NaN NaN NaN NaN 63.059 1 63.781 63.281 64.281 0.72236 0 0 0 0.9101 1 29504 29504 11.64 3.7301 1 23838 5745 15325 15381 27392 27392 0.1154238537665151 PKAKATRSRY 10 Unmodified _PKAKATRSRY_ 0 0 0 REV__ENSG00000135148|ENST00000412615|TRAFD1 REV__ENSG00000135148|ENST00000412615|TRAFD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.3455200195312 2 589.343646 1176.67274 3.8619 0.002276 -2.5711 -0.0015152 1.2909 0.00076077 589.3423590197666 99.687 0.11295 100.28 100.23 100.34 0.59748 9 6 2 0 0 0 0.90859 1 46130 46130 3.2813 1.4371 1 1591000 + 23839 12002 15326 15382 27393 27393 0.09147016757151505 PKAKATRSRY 10 Unmodified _PKAKATRSRY_ 0 0 0 REV__ENSG00000135148|ENST00000412615|TRAFD1 REV__ENSG00000135148|ENST00000412615|TRAFD1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 589.343646 1176.67274 3.8619 0.002276 -2.5711 -0.0015152 1.2909 0.00076077 589.3423590197666 99.687 0.11295 100.28 100.23 100.34 0.59748 0.08048 -0.00087943 NaN 3.2813 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 1591000 + 23840 12002 15326 15382 0.09147016757151505 PKALRSSKT 9 Unmodified _PKALRSSKT_ 0 0 0 REV__ENSG00000148123|ENST00000374874|PLPPR1 REV__ENSG00000148123|ENST00000374874|PLPPR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.3020324707031 2 494.300916 986.587279 2.6471 0.0013085 0.25638 0.00012673 2.9035 0.0014352 494.30092211000726 93.971 0.38692 93.971 93.758 94.145 0 130 51 3 0 0 0 1.1412 1 50381 50381 1.6526 0.96225 1 35575000 + 23841 12522 15327 15383 27394 27394 0.09344851571461277 PKALVSEWKE 10 Unmodified _PKALVSEWKE_ 0 0 0 DDB1|p.W1047Cfs*15|1|0.04|ENSG00000167986|chr11:61302331-61302332|-/AGAA|frameshift_variant;ENSG00000167986|ENST00000301764|DDB1;ENST00000414411.3_1_11:61081295-61081943:-|nuORF DDB1|p.W1047Cfs*15|1|0.04|ENSG00000167986|chr11:61302331-61302332|-/AGAA|frameshift_variant DDB1|p.W1047Cfs*15|1|0.04|ENSG00000167986|chr11:61302331-61302332|-/AGAA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 396.22161865234375 3 396.220401 1185.63937 2.607 0.0010329 0.49359 0.00019557 3.1006 0.0012285 396.22063098255387 55.319 0.2752 55.319 55.196 55.471 0 31 23 2 0 0 0 0.84738 1 25394 25394 6.1918 2.6048 1 1452000 23842 259 15328 15384 27395 27395 0.05397970194553636 PKAMKRLMA 9 Unmodified _PKAMKRLMA_ 0 0 0 ENST00000479537.5_1_7:140434399-140447180:-|nuORF;ENST00000445336.2_1_X:74804463-74804925:+|nuORF;ENST00000497784.1_2_7:140434399-140508041:-|nuORF;ENSG00000157764|ENST00000646891|BRAF ENST00000479537.5_1_7:140434399-140447180:-|nuORF ENST00000479537.5_1_7:140434399-140447180:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.3057861328125 2 523.30409 1044.59363 3.2863 0.0017197 0.22841 0.00011953 3.5147 0.0018392 523.3041180473004 78.488 0.97118 79.15 78.761 79.732 0.66198 84 63 2 0 0 0 1.129 1 36284 36284 1.8442 0.19162 1 593950 23843 3961 15329 15385 27396 27396 0.07311330206994171 PKAQSLGPAQ 10 Unmodified _PKAQSLGPAQ_ 0 0 0 REV__ENST00000598240.1_1_19:19105804-19136912:-|nuORF REV__ENST00000598240.1_1_19:19105804-19136912:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.7762451171875 2 498.777274 995.539994 NaN NaN NaN NaN NaN NaN NaN 78.475 1 78.728 78.228 79.228 0.25335 0 0 0 0.99812 1 36138 36138 3.2813 0 1 + 23844 10413 15330 15386 27397 27397 0.04204572300466225 PKARLLKVSPQ 11 Unmodified _PKARLLKVSPQ_ 0 0 0 ENST00000490312.1_1_1:38022595-38023350:+|nuORF;ENSG00000163879|ENST00000652629|DNALI1 ENST00000490312.1_1_1:38022595-38023350:+|nuORF ENST00000490312.1_1_1:38022595-38023350:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 618.9520263671875 2 618.892972 1235.77139 NaN NaN NaN NaN NaN NaN NaN 88.7 1 88.752 88.252 89.252 0.052155 0 0 0 1.0063 1 45268 45268 2.4985 1.0166 1 23845 4260 15331 15387 27398 27398 0.16293620002193165 PKARRRRRLWL 11 Unmodified _PKARRRRRLWL_ 0 0 0 ENST00000606621.1_1_6:85472779-85472989:-|nuORF ENST00000606621.1_1_6:85472779-85472989:-|nuORF ENST00000606621.1_1_6:85472779-85472989:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 754.1353759765625 2 754.481477 1506.9484 NaN NaN NaN NaN NaN NaN NaN 81.866 1 81.95 81.45 82.45 0.084106 0 0 0 1.008 1 40315 40315 0.30703 0.30703 1 23846 9325 15332 15388 27399 27399 0.21520513395694252 PKAVKPRVI 9 Unmodified _PKAVKPRVI_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;TTN|p.R30215Vfs*13|1|0.21|ENSG00000155657|chr2:178545544-178545544|G/-|frameshift_variant;nc|ENSG00000155657|Q8WZ42-5|TTN;nc|ENSG00000155657|Q8WZ42-9|TTN;nc|ENSG00000155657|Q8WZ42-10|TTN;nc|ENSG00000155657|Q8WZ42-3|TTN;TTN|p.P20319Hfs*66|1|0.07|ENSG00000155657|chr2:178582577-178582578|-/AAAATAAATAT|frameshift_variant;TTN|p.A15448Hfs*16|1|0.24|ENSG00000155657|chr2:178610249-178610261|TTCTCCTCCCAGC/-|frameshift_variant;TTN|p.G17760Ifs*40|1|0.07|ENSG00000155657|chr2:178594192-178594193|-/TCGACTTCAGAGAT|frameshift_variant;TTN|p.V17759Afs*3|1|0.05|ENSG00000155657|chr2:178594194-178594195|-/G|frameshift_variant;TTN|p.T1473Lfs*6|1|0.22|ENSG00000155657|chr2:178777767-178777767|T/-|frameshift_variant;nc|ENSG00000155657|Q8WZ42-6|TTN ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-6|TTN ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.3371887207031 2 504.339844 1006.66514 NaN NaN NaN NaN NaN NaN NaN 71.629 1 71.629 71.129 72.129 0 0 0 0 0.90699 1 34822 34822 1.8442 0 1 23847 3871;9700 15333 15389 27400 27400 0.16206909227503274 PKAVSVFF 8 Unmodified _PKAVSVFF_ 0 0 0 ENST00000581642.1_1_17:80193878-80194172:+|nuORF;ENST00000584781.5_1_17:80193878-80195055:+|nuORF;ENST00000579572.1_1_17:80193878-80195110:+|nuORF;ENSG00000141526|ENST00000582743|SLC16A3;ENSG00000100156|ENST00000681075|SLC16A8 ENST00000581642.1_1_17:80193878-80194172:+|nuORF ENST00000581642.1_1_17:80193878-80194172:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 447.7587890625 2 447.757821 893.501089 NaN NaN NaN NaN NaN NaN NaN 57.275 1 57.54 57.04 58.04 0.26444 0 0 0 0.14338 1 26216 26216 46.021 9.8939 1 23848 3265 15334 15390 27401 27401 0.05007891736761394 PKAWQWRRPH 10 Unmodified _PKAWQWRRPH_ 0 0 0 ENST00000506770.5_1_4:3949467-3952929:-|nuORF;ENST00000510506.5_1_4:3948559-3952929:-|nuORF ENST00000506770.5_1_4:3949467-3952929:-|nuORF ENST00000506770.5_1_4:3949467-3952929:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.78839111328125 3 454.582779 1360.72651 NaN NaN NaN NaN NaN NaN NaN 67.87 1 68.572 68.072 69.072 0.70218 0 0 0 1.0003 1 32314 32314 0.62683 0.12087 1 23849 8517 15335 15391 27402 27402 0.0605723397948168 PKAYRRFIKM 10 Unmodified _PKAYRRFIKM_ 0 0 0 REV__ENST00000445059.3_1_10:69770293-69770395:-|nuORF REV__ENST00000445059.3_1_10:69770293-69770395:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.3841552734375 2 655.381717 1308.74888 4.2599 0.0027919 1.1234 0.00073629 5.3834 0.0035282 655.3822629521279 91.668 1.0125 91.92 91.423 92.436 0.25164 115 47 3 0 0 0 0.94099 2 42104 42104;42197 0.40072 0.40072 1 1574000 + 23850 16375 15336 15392 27403;27404 27403 0.10685697332883137 PKAYRRFIKM 10 Unmodified _PKAYRRFIKM_ 0 0 0 REV__ENST00000445059.3_1_10:69770293-69770395:-|nuORF REV__ENST00000445059.3_1_10:69770293-69770395:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.385498046875 2 655.381717 1308.74888 4.4039 0.0028862 1.1364 0.00074477 5.5403 0.003631 655.3824689708856 93.777 0.80315 94.032 93.803 94.606 0.25497 133 38 4 0 0 0 0.94099 2 43217 43217;43278 0.40072 0.40072 1 4380800 + 23851 16375 15336 15392 27405;27406 27405 0.10685697332883137 PKAYRRFIKM 10 Unmodified _PKAYRRFIKM_ 0 0 0 REV__ENST00000445059.3_1_10:69770293-69770395:-|nuORF REV__ENST00000445059.3_1_10:69770293-69770395:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 655.3844604492188 2 655.381717 1308.74888 4.1317 0.0027078 0.94735 0.00062087 5.079 0.0033287 655.3821735584208 93.374 1.2711 94.005 93.31 94.581 0.63115 139 63 4 0 0 0 0.94099 1 43128 43128 0.40072 0 1 4289700 + 23852 16375 15336 15392 27407 27407 0.10685697332883137 PKAYRRFIKM 10 Unmodified _PKAYRRFIKM_ 0 0 0 REV__ENST00000445059.3_1_10:69770293-69770395:-|nuORF REV__ENST00000445059.3_1_10:69770293-69770395:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 655.385986328125 2 655.381717 1308.74888 4.1369 0.0027112 1.0999 0.00072085 5.2368 0.0034321 655.3822080800838 94.125 0.94016 94.757 94.462 95.402 0.63115 123 54 4 0 0 0 0.94099 1 43317 43317 0.40072 0.40072 1 1593500 + 23853 16375 15336 15392 27408 27408 0.10685697332883137 PKAYRRKIQA 10 Unmodified _PKAYRRKIQA_ 0 0 0 REV__nc|ENSG00000156650|Q8WYB5-3|KAT6B REV__nc|ENSG00000156650|Q8WYB5-3|KAT6B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 616.2523193359375 2 615.875114 1229.73567 NaN NaN NaN NaN NaN NaN NaN 79.803 1 80.052 79.552 80.552 0.24947 0 0 0 1.0003 1 36745 36745 1.4819 0.95714 1 + 23854 12779 15337 15393 27409 27409 0.12999582545171506 PKDILVKFQG 10 Unmodified _PKDILVKFQG_ 0 0 0 ENSG00000218819|ENST00000405799|TDRD15 ENSG00000218819|ENST00000405799|TDRD15 ENSG00000218819|ENST00000405799|TDRD15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 572.5794067382812 2 572.839874 1143.66519 NaN NaN NaN NaN NaN NaN NaN 26.894 1 26.894 26.394 27.394 0 0 0 0 1.0012 1 12112 12112 0.40072 0 1 23855 6142 15338 15394 27410 27410 0.09910864436847078 PKDLKIDI 8 Unmodified _PKDLKIDI_ 0 0 0 REV__nc|ENSG00000154917|Q9NRW1-2|RAB6B REV__nc|ENSG00000154917|Q9NRW1-2|RAB6B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 471.2891540527344 2 471.286943 940.559333 2.8675 0.0013514 1.5882 0.00074852 4.4557 0.0020999 471.28781659983287 38.243 0.21118 39.039 38.904 39.115 0.79552 17 7 3 0 0 0 0.39589 1 17330 17330 28.487 0.85804 1 367270 + 23856 12729 15339 15395 27411 27411 0.0866752859137705 PKDMLIKLK 9 Unmodified _PKDMLIKLK_ 0 0 0 REV__ENST00000534807.1_1_17:45673771-45679230:+|nuORF REV__ENST00000534807.1_1_17:45673771-45679230:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.3427734375 2 543.341195 1084.66784 NaN NaN NaN NaN NaN NaN NaN 91.397 1 91.473 90.973 91.973 0.075279 0 0 0 0.90096 1 47356 47356 5.2969 1.7004 1 + 23857 12281 15340 15396 27412 27412 0.12888996570131894 PKDQWMKKWWE 11 Unmodified _PKDQWMKKWWE_ 0 0 0 nc|ENSG00000130234|Q9BYF1-3|ACE2;ENSG00000130234|ENST00000252519|ACE2 nc|ENSG00000130234|Q9BYF1-3|ACE2 nc|ENSG00000130234|Q9BYF1-3|ACE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 781.3873291015625 2 781.384654 1560.75475 NaN NaN NaN NaN NaN NaN NaN 17.079 1 17.74 17.24 18.24 0.66072 0 0 0 1.008 1 7702 7702 0.30703 0.30703 1 23858 2579 15341 15397 27413 27413 -0.0031924894610710908 PKEKKNLEFFH 11 Unmodified _PKEKKNLEFFH_ 0 0 0 nc|ENSG00000120549|Q5T5P2-3|KIAA1217;ENSG00000120549|ENST00000376454|KIAA1217;nc|ENSG00000120549|Q5T5P2-6|KIAA1217;nc|ENSG00000120549|Q5T5P2-10|KIAA1217 nc|ENSG00000120549|Q5T5P2-3|KIAA1217 nc|ENSG00000120549|Q5T5P2-3|KIAA1217 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 708.8870849609375 2 708.885344 1415.75613 NaN NaN NaN NaN NaN NaN NaN 67.757 1 67.757 67.257 68.257 0 0 0 0 1.0061 1 32553 32553 2.7352 1.0826 1 23859 2196 15342 15398 27414 27414 0.06488708414326538 PKEKNIDL 8 Unmodified _PKEKNIDL_ 0 0 0 REV__nc|ENSG00000051341|O75417-2|POLQ REV__nc|ENSG00000051341|O75417-2|POLQ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.7750244140625 2 478.7742 955.533846 3.0238 0.0014477 0.19631 9.3987E-05 3.2201 0.0015417 478.7743539084839 14.291 0.17218 14.517 14.438 14.611 0.22622 23 14 2 0 0 0 0.49219 1 6289 6289 21.747 1.293 1 169450 + 23860 10352 15343 15399 27415 27415 0.054300540689382615 PKEKNIDL 8 Unmodified _PKEKNIDL_ 0 0 0 REV__nc|ENSG00000051341|O75417-2|POLQ REV__nc|ENSG00000051341|O75417-2|POLQ MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 478.7742 955.533846 3.0514 0.0014609 -0.11113 -5.3206E-05 2.9402 0.0014077 478.7741459763797 14.561 0.24509 14.561 14.474 14.719 0 0.021853 -0.00014782 NaN 21.747 36 27 2 NaN NaN NaN NaN 0 NaN NaN 0 164230 + 23861 10352 15343 15399 0.054300540689382615 PKEKNIDL 8 Unmodified _PKEKNIDL_ 0 0 0 REV__nc|ENSG00000051341|O75417-2|POLQ REV__nc|ENSG00000051341|O75417-2|POLQ MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 478.7742 955.533846 3.0238 0.0014477 0.19631 9.3987E-05 3.2201 0.0015417 478.7743539084839 14.291 0.17218 14.517 14.438 14.611 0.22622 -0.021853 0.00014657 NaN 21.747 23 14 2 NaN NaN NaN NaN 0 NaN NaN 0 169450 + 23862 10352 15343 15399 0.054300540689382615 PKEKRIRRKL 10 Unmodified _PKEKRIRRKL_ 0 0 0 REV__ENST00000322349.12_1_12:93196184-93196229:-|nuORF REV__ENST00000322349.12_1_12:93196184-93196229:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 662.4405517578125 2 662.438412 1322.86227 NaN NaN NaN NaN NaN NaN NaN 20.676 1 20.676 20.176 21.176 0 0 0 0 1.0015 1 9249 9249 0.40072 0 1 + 23863 15328 15344 15400 27416 27416 0.21375508770302076 PKELTAAAWAE 11 Unmodified _PKELTAAAWAE_ 0 0 0 REV__ENST00000254351.8_1_2:20401609-20401801:-|nuORF REV__ENST00000254351.8_1_2:20401609-20401801:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.8104858398438 2 593.808771 1185.60299 3.0547 0.0018139 -0.21923 -0.00013018 2.8355 0.0016837 593.8084672171907 103.08 0.15953 103.08 103 103.16 0 10 6 2 0 0 0 0.91168 1 56862 56862 0.96228 0 1 317160 + 23864 14923 15345 15401 27417 27417 0.017610932978413985 PKELTAAAWAE 11 Unmodified _PKELTAAAWAE_ 0 0 0 REV__ENST00000254351.8_1_2:20401609-20401801:-|nuORF REV__ENST00000254351.8_1_2:20401609-20401801:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 593.808771 1185.60299 3.0547 0.0018139 -0.21923 -0.00013018 2.8355 0.0016837 593.8084672171907 103.08 0.15953 103.08 103 103.16 0 -0.090296 -0.00011821 NaN 0.96228 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 317160 + 23865 14923 15345 15401 0.017610932978413985 PKELTAAAWAE 11 Unmodified _PKELTAAAWAE_ 0 0 0 REV__ENST00000254351.8_1_2:20401609-20401801:-|nuORF REV__ENST00000254351.8_1_2:20401609-20401801:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 593.808771 1185.60299 4.5174 0.0026825 -0.71877 -0.00042681 3.7987 0.0022557 593.8085380919503 102.78 0.12533 103.1 103 103.12 0.31862 -0.068662 -0.00071148 NaN 0.96228 10 4 3 NaN NaN NaN NaN 0 NaN NaN 0 566320 + 23866 14923 15345 15401 0.017610932978413985 PKELYKRFEAL 11 Unmodified _PKELYKRFEAL_ 0 0 0 REV__ENST00000533297.1_1_11:111896132-111933256:+|nuORF REV__ENST00000533297.1_1_11:111896132-111933256:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 697.393798828125 2 697.395544 1392.77654 NaN NaN NaN NaN NaN NaN NaN 87.07 1 87.745 87.245 88.245 0.67555 0 0 0 1.0065 1 40106 40106 2.2828 0 1 + 23867 17159 15346 15402 27418 27418 0.09585879074120385 PKEPKQER 8 Unmodified _PKEPKQER_ 0 0 0 ENSG00000164142|ENST00000435205|FHIP1A ENSG00000164142|ENST00000435205|FHIP1A ENSG00000164142|ENST00000435205|FHIP1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.3465270996094 2 506.282723 1010.55089 NaN NaN NaN NaN NaN NaN NaN 54.535 1 54.535 54.035 55.035 0 0 0 0 0.9851 1 25026 25026 6.7232 0.51738 1 23868 4289 15347 15403 27419 27419 0.04603974674762412 PKEPRNRPRWR 11 Unmodified _PKEPRNRPRWR_ 0 0 0 REV__ENST00000297954.8_1_9:96070838-96080353:+|nuORF REV__ENST00000297954.8_1_9:96070838-96080353:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 746.4251098632812 2 746.423825 1490.8331 NaN NaN NaN NaN NaN NaN NaN 55.598 1 56.385 55.885 56.885 0.78711 0 0 0 1.008 1 25388 25388 0.30703 0 1 + 23869 15169 15348 15404 27420 27420 0.10731364474008842 PKERTHILKHR 11 Unmodified _PKERTHILKHR_ 0 0 0 REV__nc|ENSG00000196268|Q6ZR52|ZNF493 REV__nc|ENSG00000196268|Q6ZR52|ZNF493 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.2854919433594 3 472.28451 1413.8317 3.7602 0.0017759 -2.1587 -0.0010195 1.6015 0.00075636 472.28351926720563 105.91 0.12788 106.23 106.17 106.3 0.31782 8 4 2 0 0 0 0.91391 1 48904 48904 0.08335 0 1 810670 + 23870 14201 15349 15405 27421 27421 0.14133730385242416 PKERTHILKHR 11 Unmodified _PKERTHILKHR_ 0 0 0 REV__nc|ENSG00000196268|Q6ZR52|ZNF493 REV__nc|ENSG00000196268|Q6ZR52|ZNF493 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 707.9244384765625 2 707.923126 1413.8317 4.1505 0.0029382 -1.7585 -0.0012449 2.392 0.0016934 707.921570430918 94.758 0.83574 95.375 94.755 95.591 0.61737 80 47 2 0 0 0 0.91149 3 43487 43356;43453;43487 1.0715 0.10919 1 831440 + 23871 14201 15349 15405 27422;27423;27424 27424 0.14133730385242416 PKERTHILKHR 11 Unmodified _PKERTHILKHR_ 0 0 0 REV__nc|ENSG00000196268|Q6ZR52|ZNF493 REV__nc|ENSG00000196268|Q6ZR52|ZNF493 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 472.28451 1413.8317 2.5145 0.0011876 -1.6303 -0.00076997 0.88421 0.0004176 472.2835219233875 105.93 0.11353 105.93 105.85 105.97 0 -0.15346 -0.00034946 NaN 0.08335 8 4 2 NaN NaN NaN NaN 0 NaN NaN 0 930090 + 23872 14201 15349 15405 0.14133730385242416 PKERTHILKHR 11 Unmodified _PKERTHILKHR_ 0 0 0 REV__nc|ENSG00000196268|Q6ZR52|ZNF493 REV__nc|ENSG00000196268|Q6ZR52|ZNF493 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 472.28451 1413.8317 1.6114 0.00076103 -0.60105 -0.00028387 1.0103 0.00047716 472.2844010580088 106.04 0.11821 106.09 106.04 106.16 0.04837 0.0078959 0.0011089 NaN 0.08335 9 4 3 NaN NaN NaN NaN 0 NaN NaN 0 1068200 + 23873 14201 15349 15405 0.14133730385242416 PKERTHILKHR 11 Unmodified _PKERTHILKHR_ 0 0 0 REV__nc|ENSG00000196268|Q6ZR52|ZNF493 REV__nc|ENSG00000196268|Q6ZR52|ZNF493 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 472.28451 1413.8317 3.7602 0.0017759 -2.1587 -0.0010195 1.6015 0.00075636 472.28351926720563 105.91 0.12788 106.23 106.17 106.3 0.31782 0.14556 -0.0010981 NaN 0.08335 8 4 2 NaN NaN NaN NaN 0 NaN NaN 0 810670 + 23874 14201 15349 15405 0.14133730385242416 PKFAVVKASD 10 Unmodified _PKFAVVKASD_ 0 0 0 REV__nc|ENSG00000148357|Q8NDA2-4|HMCN2 REV__nc|ENSG00000148357|Q8NDA2-4|HMCN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.9668579101562 2 531.303124 1060.5917 NaN NaN NaN NaN NaN NaN NaN 58.445 1 59.204 58.704 59.704 0.75894 0 0 0 0.99774 1 26806 26806 3.5965 0.31518 1 + 23875 17975 15350 15406 27425 27425 0.06382315994369492 PKFIVNAQQQQ 11 Unmodified _PKFIVNAQQQQ_ 0 0 0 REV__nc|ENSG00000013619|Q13495-4|MAMLD1 REV__nc|ENSG00000013619|Q13495-4|MAMLD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.2387390136719 3 434.238455 1299.69353 NaN NaN NaN NaN NaN NaN NaN 70.998 1 71.702 71.202 72.202 0.70386 0 0 0 1.0059 1 34062 34062 1.2148 0.51716 1 + 23876 10250 15351 15407 27426 27426 0.05567562346118393 PKFKVLPYWGN 11 Unmodified _PKFKVLPYWGN_ 0 0 0 INO80|p.L861Sfs*29|1|0.04|ENSG00000128908|chr15:41048271-41048272|-/TTTATAAAATCTTGATAAG|frameshift_variant;ENSG00000128908|ENST00000648947|INO80 INO80|p.L861Sfs*29|1|0.04|ENSG00000128908|chr15:41048271-41048272|-/TTTATAAAATCTTGATAAG|frameshift_variant INO80|p.L861Sfs*29|1|0.04|ENSG00000128908|chr15:41048271-41048272|-/TTTATAAAATCTTGATAAG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 674.8731689453125 2 674.874248 1347.73394 NaN NaN NaN NaN NaN NaN NaN 56.475 1 56.475 55.975 56.975 0 0 0 0 1.0073 1 25987 25987 1.1933 0.735 1 23877 2531 15352 15408 27427 27427 0.0739852873655309 PKFQLFFALNF 11 Unmodified _PKFQLFFALNF_ 0 0 0 REV__ENST00000266604.6_1_12:66517251-66517542:-|nuORF REV__ENST00000266604.6_1_12:66517251-66517542:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 686.3759765625 2 686.376623 1370.73869 NaN NaN NaN NaN NaN NaN NaN 88.511 1 89.189 88.689 89.689 0.67818 0 0 0 1.0073 1 40763 40763 1.1933 0.12188 1 + 23878 15039 15353 15409 27428 27428 0.06815412879313953 PKFRILKI 8 Unmodified _PKFRILKI_ 0 0 0 nc|ENSG00000211724|A0A0A6YYG2|TRBV6-6 nc|ENSG00000211724|A0A0A6YYG2|TRBV6-6 nc|ENSG00000211724|A0A0A6YYG2|TRBV6-6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.8204345703125 2 507.844762 1013.67497 NaN NaN NaN NaN NaN NaN NaN 65.577 1 65.577 65.077 66.077 0 0 0 0 0.99035 1 31262 31262 4.756 2.4533 1 23879 9822 15354 15410 27429 27429 0.16868097232895707 PKFTIQNANKE 11 Unmodified _PKFTIQNANKE_ 0 0 0 nc|ENSG00000231213|A0PG75-2|PLSCR5;ENSG00000231213|ENST00000443512|PLSCR5 nc|ENSG00000231213|A0PG75-2|PLSCR5 nc|ENSG00000231213|A0PG75-2|PLSCR5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.5465698242188 2 645.346052 1288.67755 NaN NaN NaN NaN NaN NaN NaN 81.429 1 81.597 81.097 82.097 0.16862 0 0 0 1.0065 1 40027 40027 2.2828 0 1 23880 6181 15355 15411 27430 27430 0.044758561092066884 PKFVKLCI 8 Unmodified _PKFVKLCI_ 0 0 0 nc|ENSG00000165322|Q8IWW6-3|ARHGAP12;nc|ENSG00000165322|Q8IWW6-2|ARHGAP12;nc|ENSG00000165322|Q8IWW6-4|ARHGAP12;ENSG00000165322|ENST00000344936|ARHGAP12 nc|ENSG00000165322|Q8IWW6-3|ARHGAP12 nc|ENSG00000165322|Q8IWW6-3|ARHGAP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.292236328125 2 474.290974 946.567395 3.8279 0.0018156 -1.0798 -0.00051216 2.7481 0.0013034 474.290384123469 100.58 0.30754 100.9 100.7 101 0.31412 16 12 3 0 0 0 0.7471 1 46553 46553 0.69038 0 1 1260000 23881 4390 15356 15412 27431 27431 0.09197384307140055 PKFVKLCI 8 Unmodified _PKFVKLCI_ 0 0 0 nc|ENSG00000165322|Q8IWW6-3|ARHGAP12;nc|ENSG00000165322|Q8IWW6-2|ARHGAP12;nc|ENSG00000165322|Q8IWW6-4|ARHGAP12;ENSG00000165322|ENST00000344936|ARHGAP12 nc|ENSG00000165322|Q8IWW6-3|ARHGAP12 nc|ENSG00000165322|Q8IWW6-3|ARHGAP12 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 474.290974 946.567395 3.246 0.0015396 -0.42988 -0.00020389 2.8161 0.0013357 474.2907855878515 100.5 0.21336 101.09 100.98 101.19 0.59717 0.097841 0.00013888 NaN 0.69038 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 1777800 23882 4390 15356 15412 0.09197384307140055 PKFWKLFGK 9 Unmodified _PKFWKLFGK_ 0 0 0 ENST00000327475.10_1_6:38750816-38754639:+|nuORF ENST00000327475.10_1_6:38750816-38754639:+|nuORF ENST00000327475.10_1_6:38750816-38754639:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.8456420898438 2 575.84222 1149.66989 3.8342 0.0022079 0.29427 0.00016945 4.1285 0.0023774 575.8429567145848 85.461 1.5858 86.127 85.344 86.93 0.66566 128 85 2 0 0 0 1.0894 3 39320 39320;39382;39584 4.3292 4.3292 1 2449700 23883 6964 15357 15413 27432;27433;27434 27432 0.10103793370262792 PKFYQLLYRKL 11 Unmodified _PKFYQLLYRKL_ 0 0 0 REV__nc|ENSG00000164308|Q6P179-3|ERAP2 REV__nc|ENSG00000164308|Q6P179-3|ERAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 734.8980102539062 2 734.937379 1467.86021 NaN NaN NaN NaN NaN NaN NaN 91.861 1 91.861 91.361 92.361 0 0 0 0 1.0079 1 48652 48652 1.1933 0.84271 1 + 23884 13083 15358 15414 27435 27435 0.14499035241851743 PKGAAKARRTK 11 Unmodified _PKGAAKARRTK_ 0 0 0 REV__nc|ENSG00000131061|Q9BYN7-2|ZNF341 REV__nc|ENSG00000131061|Q9BYN7-2|ZNF341 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.374267578125 2 592.372738 1182.73092 4.0103 0.0023756 -0.41139 -0.0002437 3.5989 0.0021319 592.3719853754915 93.579 0.51921 94.211 94.101 94.62 0.63115 49 23 3 0 0 0 0.91111 1 43186 43186 1.1933 0.66858 1 1153000 + 23885 17937 15359 15415 27436 27436 0.1468669840239727 PKGAGIIV 8 Unmodified _PKGAGIIV_ 0 0 0 REV__ENSG00000089597|ENST00000356638|GANAB REV__ENSG00000089597|ENST00000356638|GANAB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 377.74713134765625 2 377.744714 753.474875 NaN NaN NaN NaN NaN NaN NaN 82.777 1 82.777 82.277 83.277 0 0 0 0 0.99035 1 41543 41543 2.5775 0 1 + 23886 10701 15360 15416 27437 27437 0.0882762256528622 PKGEAKPKRR 10 Unmodified _PKGEAKPKRR_ 0 0 0 ENST00000552719.1_1_12:56209714-56216458:-|nuORF;ENSG00000135392|ENST00000678005|DNAJC14 ENST00000552719.1_1_12:56209714-56216458:-|nuORF ENST00000552719.1_1_12:56209714-56216458:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.8607788085938 2 583.859464 1165.70437 3.7498 0.0021894 -1.0028 -0.0005855 2.747 0.0016039 583.8586852341052 93.651 0.64449 94.282 94.082 94.726 0.63115 76 30 4 0 0 0 0.93713 1 43143 43143 1.4819 0 1 2733900 23887 2869 15361 15417 27438 27438 0.1281500951106409 PKGEKREQ 8 Unmodified _PKGEKREQ_ 0 0 0 REV__L1MEi_dup1146|chr3:122933054-122933904:-|1.0117870900194064|0.0445556262271624|4.51|529.0|10|1|sense REV__L1MEi_dup1146|chr3:122933054-122933904:-|1.0117870900194064|0.0445556262271624|4.51|529.0|10|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.2682800292969 2 486.267073 970.519593 3.7278 0.0018127 -0.02397 -1.1656E-05 3.7038 0.0018011 486.2669511264909 93.76 0.46156 94.015 93.791 94.252 0.25497 55 22 3 0 0 0 0.7441 1 43051 43051 2.3027 0.4585 1 3083300 + 23888 10044 15362 15418 27439 27439 0.03315401640657001 PKGEKRNPIR 10 Unmodified _PKGEKRNPIR_ 0 0 0 ENSG00000166012|ENST00000448108|TAF1D ENSG00000166012|ENST00000448108|TAF1D ENSG00000166012|ENST00000448108|TAF1D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.8587646484375 2 597.856921 1193.69929 3.8429 0.0022975 -1.4756 -0.00088222 2.3672 0.0014153 598.357504049557 85.788 0.65379 86.037 85.444 86.098 0.24857 48 32 2 0 0 0 0.93713 1 39304 39304 1.4819 0 1 1395300 23889 4445 15363 15419 27440 27440 0.11018705648439209 PKGEKRNPIR 10 Unmodified _PKGEKRNPIR_ 0 0 0 ENSG00000166012|ENST00000448108|TAF1D ENSG00000166012|ENST00000448108|TAF1D ENSG00000166012|ENST00000448108|TAF1D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.859130859375 2 597.856921 1193.69929 3.9924 0.0023869 -0.84278 -0.00050386 3.1496 0.001883 597.8562840729154 88.049 1.5851 88.3 87.389 88.974 0.25064 150 71 3 0 0 0 0.93713 1 40289 40289 1.4819 0 1 2539600 23890 4445 15363 15419 27441 27441 0.11018705648439209 PKGEKRNPIR 10 Unmodified _PKGEKRNPIR_ 0 0 0 ENSG00000166012|ENST00000448108|TAF1D ENSG00000166012|ENST00000448108|TAF1D ENSG00000166012|ENST00000448108|TAF1D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.8602905273438 2 597.856921 1193.69929 4.1738 0.0024953 -1.1751 -0.00070256 2.9987 0.0017928 597.8560921384948 85.36 1.1938 86.026 85.471 86.665 0.66566 95 61 2 0 0 0 0.93713 1 39271 39271 1.4819 0 1 958420 23891 4445 15363 15419 27442 27442 0.11018705648439209 PKGEKRNPIR 10 Unmodified _PKGEKRNPIR_ 0 0 0 ENSG00000166012|ENST00000448108|TAF1D ENSG00000166012|ENST00000448108|TAF1D ENSG00000166012|ENST00000448108|TAF1D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.858154296875 2 597.856921 1193.69929 4.1819 0.0025002 -1.1487 -0.00068674 3.0332 0.0018134 597.856047462573 87.599 1.5253 88.275 87.488 89.013 0.67554 152 70 4 0 0 0 0.90859 1 40130 40130 3.2813 1.4371 1 3695000 23892 4445 15363 15419 27443 27443 0.11018705648439209 PKGEKRNPIR 10 Unmodified _PKGEKRNPIR_ 0 0 0 ENSG00000166012|ENST00000448108|TAF1D ENSG00000166012|ENST00000448108|TAF1D ENSG00000166012|ENST00000448108|TAF1D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 598.3610229492188 2 597.856921 1193.69929 4.1885 0.0025041 -0.64247 -0.00038411 3.5461 0.00212 597.8562632215801 88.623 0.81973 89.301 89.016 89.836 0.67818 65 35 3 0 0 0 0.93713 1 40916 40916 1.4819 0 1 741520 23893 4445 15363 15419 27444 27444 0.11018705648439209 PKGGLATPPPK 11 Unmodified _PKGGLATPPPK_ 0 0 0 ENSG00000196531|ENST00000454682|NACA ENSG00000196531|ENST00000454682|NACA ENSG00000196531|ENST00000454682|NACA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.8193969726562 2 531.818941 1061.62333 NaN NaN NaN NaN NaN NaN NaN 82.657 1 82.904 82.404 83.404 0.24722 0 0 0 1.0061 1 38047 38047 2.7352 0.43246 1 23894 5752 15364 15420 27445 27445 0.09498308748311501 PKGGRGAR 8 Unmodified _PKGGRGAR_ 0 0 0 ENST00000575714.5_1_16:4408319-4455566:-|nuORF;ENST00000575531.5_1_16:4407102-4412712:-|nuORF;nc|ENSG00000262246|P57737-2|CORO7;nc|ENSG00000262246|P57737-4|CORO7;ENSG00000262246|ENST00000251166|CORO7;nc|ENSG00000262246|P57737-3|CORO7 ENST00000575714.5_1_16:4408319-4455566:-|nuORF;ENST00000575531.5_1_16:4407102-4412712:-|nuORF ENST00000575531.5_1_16:4407102-4412712:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.739501953125 2 399.738286 797.462019 3.5925 0.0014361 -0.023206 -9.2762E-06 3.5693 0.0014268 399.7380416140691 93.372 0.75128 93.627 93.217 93.968 0.25497 94 36 3 0 0 0 0.7471 1 42839 42839 0.69038 0 1 2881500 23895 6313;9121 15365 15421 27446 27446 0.055186042257560075 PKGHLKHG 8 Unmodified _PKGHLKHG_ 0 0 0 REV__ENST00000586944.5_1_19:807712-810823:+|nuORF REV__ENST00000586944.5_1_19:807712-810823:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2582702636719 2 437.256311 872.49807 NaN NaN NaN NaN NaN NaN NaN 105.51 1 105.83 105.33 106.33 0.31782 0 0 0 0.99035 1 48703 48703 0.69038 0 1 + 23896 10234 15366 15422 27447 27447 0.05672061402606232 PKGKGKKSTD 10 Unmodified _PKGKGKKSTD_ 0 0 0 REV__ENSG00000101115|ENST00000217086|SALL4 REV__ENSG00000101115|ENST00000217086|SALL4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.3045654296875 2 523.303655 1044.59276 3.1749 0.0016614 0.49552 0.00025931 3.6704 0.0019207 523.3038771301912 81.305 1.8213 81.553 80.719 82.541 0.24803 235 115 3 0 0 0 0.93713 1 37728 37728 1.4819 0.79152 1 2183000 + 23897 10866 15367 15423 27448 27448 0.07224530363282611 PKGKGKKSTD 10 Unmodified _PKGKGKKSTD_ 0 0 0 REV__ENSG00000101115|ENST00000217086|SALL4 REV__ENSG00000101115|ENST00000217086|SALL4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.3056640625 2 523.303655 1044.59276 3.2617 0.0017068 0.63364 0.00033159 3.8953 0.0020384 523.3038949148232 82.542 0.70215 82.79 82.54 83.242 0.24722 57 36 2 0 0 0 0.93713 1 37956 37956 1.4819 0.68827 1 652000 + 23898 10866 15367 15423 27449 27449 0.07224530363282611 PKGKGKKSTD 10 Unmodified _PKGKGKKSTD_ 0 0 0 REV__ENSG00000101115|ENST00000217086|SALL4 REV__ENSG00000101115|ENST00000217086|SALL4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.305419921875 2 523.303655 1044.59276 4.1806 0.0021877 0.20786 0.00010877 4.3885 0.0022965 523.3035438864764 96.805 0.31404 97.083 96.925 97.239 0.27779 35 18 2 0 0 0 0.93713 1 44500 44500 1.4819 0.79152 1 1592200 + 23899 10866 15367 15423 27450 27450 0.07224530363282611 PKGKGKKSTD 10 Unmodified _PKGKGKKSTD_ 0 0 0 REV__ENSG00000101115|ENST00000217086|SALL4 REV__ENSG00000101115|ENST00000217086|SALL4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.30517578125 2 523.303655 1044.59276 4.1999 0.0021978 -0.78773 -0.00041222 3.4122 0.0017856 523.303183176167 102.45 0.15144 102.77 102.68 102.84 0.31736 11 4 3 0 0 0 0.94246 1 47391 47391 0.40072 0 1 972980 + 23900 10866 15367 15423 27451 27451 0.07224530363282611 PKGKGKKSTD 10 Unmodified _PKGKGKKSTD_ 0 0 0 REV__ENSG00000101115|ENST00000217086|SALL4 REV__ENSG00000101115|ENST00000217086|SALL4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.3056030273438 2 523.303655 1044.59276 3.543 0.001854 -0.20387 -0.00010669 3.3391 0.0017474 523.3034167280424 96.371 0.33051 96.979 96.799 97.129 0.60769 34 14 3 0 0 0 0.93713 1 44282 44282 1.4819 1.4819 1 1657200 + 23901 10866 15367 15423 27452 27452 0.07224530363282611 PKGKNSPKQ 9 Unmodified _PKGKNSPKQ_ 0 0 0 REV__ENST00000460808.5_1_2:70683590-70780899:-|nuORF REV__ENST00000460808.5_1_2:70683590-70780899:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.286865234375 2 492.285266 982.555979 3.5115 0.0017286 -0.41934 -0.00020643 3.0921 0.0015222 492.2849230853694 89.302 0.32195 89.553 89.373 89.695 0.25118 20 15 2 0 0 0 1.129 1 41107 41107 1.8442 0 1 1138600 + 23902 16483 15368 15424 27453 27453 0.06400278537364557 PKGKRGEK 8 Unmodified _PKGKRGEK_ 0 0 0 ENST00000482722.5_1_1:40766856-40777859:-|nuORF;ENSG00000049089|ENST00000372748|COL9A2 ENST00000482722.5_1_1:40766856-40777859:-|nuORF ENST00000482722.5_1_1:40766856-40777859:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.27593994140625 2 450.274701 898.534849 3.1029 0.0013971 0.61592 0.00027733 3.7188 0.0016745 450.27494697879985 88.454 0.59751 88.705 88.409 89.006 0.25118 107 27 5 0 0 0 0.7471 2 40647 40647;40699 0.69038 0 1 57646000 23903 574 15369 15425 27454;27455 27454 0.08152313228515595 PKGKRKHKPI 10 Unmodified _PKGKRKHKPI_ 0 0 0 nc|ENSG00000155966|P51816-7|AFF2;nc|ENSG00000155966|P51816-2|AFF2;nc|ENSG00000155966|P51816-6|AFF2;nc|ENSG00000155966|P51816-3|AFF2;nc|ENSG00000155966|P51816-5|AFF2;ENSG00000155966|ENST00000370460|AFF2 nc|ENSG00000155966|P51816-7|AFF2 nc|ENSG00000155966|P51816-7|AFF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 594.890625 2 594.888024 1187.7615 NaN NaN NaN NaN NaN NaN NaN 65.822 1 66.478 65.978 66.978 0.65672 0 0 0 1.0001 1 30177 30177 1.6526 1.0511 1 23904 3887 15370 15426 27456 27456 0.17512476787464948 PKGLGERQV 9 Unmodified _PKGLGERQV_ 0 0 0 REV__ENSG00000180035|ENST00000613509|ZNF48 REV__ENSG00000180035|ENST00000613509|ZNF48 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.28680419921875 2 492.285266 982.555979 3.3699 0.001659 0.28598 0.00014079 3.6559 0.0017997 492.28526158922864 88.889 0.38392 89.567 89.382 89.766 0.67818 27 16 2 0 0 0 1.129 1 40908 40908 1.8442 0 1 1278000 + 23905 13817 15371 15427 27457 27457 0.06400278537375925 PKGPGGKRPGR 11 Unmodified _PKGPGGKRPGR_ 0 0 0 REV__nc|ENSG00000129993|O75081-5|CBFA2T3 REV__nc|ENSG00000129993|O75081-5|CBFA2T3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.8313598632812 2 553.830706 1105.64686 3.599 0.0019932 -1.0111 -0.00055996 2.5879 0.0014333 553.8300848557977 84.721 0.55695 84.968 84.806 85.363 0.24757 45 28 2 0 0 0 0.89309 2 39034 39034;39146 2.7352 0.43246 1 674960 + 23906 17931 15372 15428 27458;27459 27458 0.09826167305504896 PKGPGGKRPGR 11 Unmodified _PKGPGGKRPGR_ 0 0 0 REV__nc|ENSG00000129993|O75081-5|CBFA2T3 REV__nc|ENSG00000129993|O75081-5|CBFA2T3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.8318481445312 2 553.830706 1105.64686 NaN NaN NaN NaN NaN NaN NaN 81.129 1 81.377 80.877 81.877 0.24803 0 0 0 1.0061 1 37354 37354 2.7352 0.67545 1 + 23907 17931 15372 15428 27460 27460 0.09826167305504896 PKGPGGKRPGR 11 Unmodified _PKGPGGKRPGR_ 0 0 0 REV__nc|ENSG00000129993|O75081-5|CBFA2T3 REV__nc|ENSG00000129993|O75081-5|CBFA2T3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.832275390625 2 553.830706 1105.64686 3.6003 0.001994 -1.1371 -0.00062974 2.4633 0.0013642 553.8299142132245 80.723 0.62788 81.383 81.259 81.887 0.65998 44 32 2 0 0 0 0.89309 1 37340 37340 2.7352 0.43246 1 433040 + 23908 17931 15372 15428 27461 27461 0.09826167305504896 PKGPGGKRPGR 11 Unmodified _PKGPGGKRPGR_ 0 0 0 REV__nc|ENSG00000129993|O75081-5|CBFA2T3 REV__nc|ENSG00000129993|O75081-5|CBFA2T3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.831298828125 2 553.830706 1105.64686 3.6557 0.0020246 -0.83167 -0.0004606 2.824 0.001564 553.8301423476478 84.35 0.83361 85.012 84.715 85.548 0.66219 69 47 2 0 0 0 0.89309 2 38801 38801;38854 2.7352 0.89096 1 582610 + 23909 17931 15372 15428 27462;27463 27462 0.09826167305504896 PKGPGGKRPGR 11 Unmodified _PKGPGGKRPGR_ 0 0 0 REV__nc|ENSG00000129993|O75081-5|CBFA2T3 REV__nc|ENSG00000129993|O75081-5|CBFA2T3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 553.830706 1105.64686 3.599 0.0019932 -1.0111 -0.00055996 2.5879 0.0014333 553.8300848557977 84.721 0.55695 84.968 84.806 85.363 0.24757 -0.021945 -0.00011601 NaN 2.7352 45 28 2 NaN NaN NaN NaN 0 NaN NaN 0 674960 + 23910 17931 15372 15428 0.09826167305504896 PKGPPRRAR 9 Unmodified _PKGPPRRAR_ 0 0 0 REV__ENSG00000100038|ENST00000357179|TOP3B REV__ENSG00000100038|ENST00000357179|TOP3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.82177734375 2 517.820141 1033.62573 3.6466 0.0018883 -1.1203 -0.00058013 2.5263 0.0013082 517.8193781538571 87.625 0.45916 87.876 87.581 88.041 0.25065 33 19 2 0 0 0 1.129 1 40264 40264 1.8442 1.8442 1 1491200 + 23911 10800 15373 15429 27464 27464 0.11026201996651253 PKGPPRRAR 9 Unmodified _PKGPPRRAR_ 0 0 0 REV__ENSG00000100038|ENST00000357179|TOP3B REV__ENSG00000100038|ENST00000357179|TOP3B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 517.820141 1033.62573 3.5622 0.0018446 -1.4495 -0.00075057 2.1127 0.001094 517.8195663892794 87.176 0.44148 87.852 87.768 88.209 0.67555 -0.012066 -0.00020158 NaN 1.8442 37 19 3 NaN NaN NaN NaN 0 NaN NaN 0 1808100 + 23912 10800 15373 15429 0.11026201996651253 PKGQRVVERRG 11 Unmodified _PKGQRVVERRG_ 0 0 0 ENST00000262305.8_2_16:570861-571326:+|nuORF ENST00000262305.8_2_16:570861-571326:+|nuORF ENST00000262305.8_2_16:570861-571326:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.3792114257812 2 641.378552 1280.74255 NaN NaN NaN NaN NaN NaN NaN 90.724 1 90.976 90.476 91.476 0.25163 0 0 0 1.0073 1 41717 41717 1.1933 0 1 23913 6574 15374 15430 27465 27465 0.11340895425723829 PKGRARGKLEP 11 Unmodified _PKGRARGKLEP_ 0 0 0 REV__ENSG00000113716|ENST00000502717|HMGXB3 REV__ENSG00000113716|ENST00000502717|HMGXB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 604.867919921875 2 604.864746 1207.71494 3.9992 0.002419 0.088406 5.3474E-05 4.0876 0.0024724 604.8647599939868 101.32 0.088348 101.91 101.87 101.96 0.59717 8 4 2 0 0 0 0.89844 1 46919 46919 2.4985 0 1 1277400 + 23914 11306 15375 15431 27466 27466 0.11938992165482887 PKGRGRGRPRG 11 Unmodified _PKGRGRGRPRG_ 0 0 0 ENSG00000165156|ENST00000395571|ZHX1 ENSG00000165156|ENST00000395571|ZHX1 ENSG00000165156|ENST00000395571|ZHX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.36083984375 2 597.357954 1192.70135 4.5193 0.0026997 0.77027 0.00046013 5.2896 0.0031598 597.3583362491993 95.894 0.48135 96.161 95.973 96.454 0.2675 70 24 4 0 0 0 0.91359 1 44128 44128 1.1933 1.1933 1 3083400 23915 4375 15376 15432 27467 27467 0.11271179176924306 PKGRIFQK 8 Unmodified _PKGRIFQK_ 0 0 0 REV__nc|ENSG00000225830|P0DP91|ERCC6 REV__nc|ENSG00000225830|P0DP91|ERCC6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.3006286621094 2 487.300719 972.586885 NaN NaN NaN NaN NaN NaN NaN 86.748 1 86.997 86.497 87.497 0.24974 0 0 0 0.99035 1 39933 39933 2.3027 0.24298 1 + 23916 18138 15377 15433 27468 27468 0.0994947664225947 PKGRKTAIF 9 Unmodified _PKGRKTAIF_ 0 0 0 HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|390|3|anti-sense;HERVK-int_dup102|chr7:4583489-4590929:-|1.365261944516419|0.4463608682754711|1.61|525.0|389|3|anti-sense HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|390|3|anti-sense HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|390|3|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.31292724609375 2 509.313826 1016.6131 NaN NaN NaN NaN NaN NaN NaN 89.389 1 89.64 89.14 90.14 0.25118 0 0 0 0.90699 1 41113 41113 1.8442 0 1 23917 9410 15378 15434 27469 27469 0.10545745813726626 PKGRQKQKH 9 Unmodified _PKGRQKQKH_ 0 0 0 REV__L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|28|1|sense REV__L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|28|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.831787109375 2 553.830706 1105.64686 3.599 0.0019932 -1.0111 -0.00055996 2.5879 0.0014333 553.8300848557977 84.721 0.55695 84.968 84.806 85.363 0.24757 45 28 2 0 0 0 1.129 1 39092 39092 1.8442 0.19162 1 674960 + 23918 17793 15379 15435 27470 27470 0.09826167305504896 PKGRQKQKH 9 Unmodified _PKGRQKQKH_ 0 0 0 REV__L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|28|1|sense REV__L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|28|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.8314208984375 2 553.830706 1105.64686 3.6557 0.0020246 -0.83167 -0.0004606 2.824 0.001564 553.8301423476478 84.35 0.83361 85.012 84.715 85.548 0.66219 69 47 2 0 0 0 1.129 2 38968 38968;39031 1.8442 0.19162 1 582610 + 23919 17793 15379 15435 27471;27472 27471 0.09826167305504896 PKGRRPLPQRR 11 Unmodified _PKGRRPLPQRR_ 0 0 0 REV__ENST00000393313.5_1_7:127032378-127032531:-|nuORF REV__ENST00000393313.5_1_7:127032378-127032531:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.2854919433594 3 454.284733 1359.83237 1.4992 0.00068106 -0.56405 -0.00025624 0.93515 0.00042483 454.2843822076178 105.81 0.13378 105.86 105.79 105.93 0.048363 15 6 3 0 0 0 0.91111 1 57272 57272 0.40827 0.31342 1 1443300 + 23920 15948 15380 15436 27473 27473 0.16684569824951723 PKGRTRLRSP 10 Unmodified _PKGRTRLRSP_ 0 0 0 ENST00000587834.5_1_18:56806751-56807159:+|nuORF ENST00000587834.5_1_18:56806751-56807159:+|nuORF ENST00000587834.5_1_18:56806751-56807159:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.3600463867188 2 584.357088 1166.69962 3.5428 0.0020703 -0.65702 -0.00038394 2.8858 0.0016864 584.3565834047538 85.728 0.64976 85.976 85.416 86.066 0.24857 47 33 2 0 0 0 0.93713 1 39362 39362 1.4819 0 1 868700 23921 9199 15381 15437 27474 27474 0.12294125368293862 PKGRTRLRSP 10 Unmodified _PKGRTRLRSP_ 0 0 0 ENST00000587834.5_1_18:56806751-56807159:+|nuORF ENST00000587834.5_1_18:56806751-56807159:+|nuORF ENST00000587834.5_1_18:56806751-56807159:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.3588256835938 2 584.357088 1166.69962 NaN NaN NaN NaN NaN NaN NaN 83.434 1 83.681 83.181 84.181 0.24722 0 0 0 1.0003 1 38404 38404 1.4819 0 1 23922 9199 15381 15437 27475 27475 0.12294125368293862 PKGRTRLRSP 10 Unmodified _PKGRTRLRSP_ 0 0 0 ENST00000587834.5_1_18:56806751-56807159:+|nuORF ENST00000587834.5_1_18:56806751-56807159:+|nuORF ENST00000587834.5_1_18:56806751-56807159:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.35986328125 2 584.357088 1166.69962 3.6914 0.0021571 -0.88943 -0.00051975 2.8019 0.0016373 584.356510902898 85.392 1.0548 86.057 85.471 86.526 0.66566 91 50 2 0 0 0 0.93713 2 39409 39409;39508 1.4819 0 1 1243800 23923 9199 15381 15437 27476;27477 27476 0.12294125368293862 PKGSKTTA 8 Unmodified _PKGSKTTA_ 0 0 0 nc|ENSG00000067798|Q8IVL0-3|NAV3;nc|ENSG00000067798|Q8IVL0-2|NAV3;ENSG00000067798|ENST00000397909|NAV3 nc|ENSG00000067798|Q8IVL0-3|NAV3 nc|ENSG00000067798|Q8IVL0-3|NAV3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 395.2266845703125 2 395.226885 788.439217 1.9395 0.00076656 -1.4935 -0.00059026 0.44606 0.00017629 395.2262667923269 79.942 0.31138 80.262 80.086 80.398 0.31998 30 18 2 0 0 0 0.74709 1 39053 39053 2.0598 0 1 1769700 23924 726 15382 15438 27478 27478 0.03653540317611714 PKGSRHPNKI 10 Unmodified _PKGSRHPNKI_ 0 0 0 REV__ENSG00000188959|ENST00000400613|C9orf152 REV__ENSG00000188959|ENST00000400613|C9orf152 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.331787109375 2 567.330539 1132.64652 3.738 0.0021207 -0.80606 -0.0004573 2.9319 0.0016634 567.329888988863 85.423 1.7358 86.089 85.344 87.08 0.66566 236 91 4 0 0 0 0.93713 2 39052 39052;39723 1.4819 0.68827 1 3198100 + 23925 14168 15383 15439 27479;27480 27479 0.08550747585650242 PKGSRHPNKI 10 Unmodified _PKGSRHPNKI_ 0 0 0 REV__ENSG00000188959|ENST00000400613|C9orf152 REV__ENSG00000188959|ENST00000400613|C9orf152 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.3350219726562 2 567.330539 1132.64652 3.7408 0.0021223 -0.81538 -0.00046259 2.9254 0.0016597 567.3301166415114 86.622 0.6205 87.298 87.113 87.733 0.67555 51 30 2 0 0 0 0.93713 1 39884 39884 1.4819 1.4819 1 1578000 + 23926 14168 15383 15439 27481 27481 0.08550747585650242 PKGSRQSLKVR 11 Unmodified _PKGSRQSLKVR_ 0 0 0 KIF13A|p.S1698Yfs*5|1|0.23|ENSG00000137177|chr6:17764435-17764435|G/-|frameshift_variant;nc|ENSG00000137177|Q9H1H9-3|KIF13A;nc|ENSG00000137177|Q9H1H9-4|KIF13A;nc|ENSG00000137177|Q9H1H9-2|KIF13A;ENSG00000137177|ENST00000259711|KIF13A KIF13A|p.S1698Yfs*5|1|0.23|ENSG00000137177|chr6:17764435-17764435|G/-|frameshift_variant KIF13A|p.S1698Yfs*5|1|0.23|ENSG00000137177|chr6:17764435-17764435|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 628.38525390625 2 628.383303 1254.75205 3.9768 0.002499 -0.54715 -0.00034382 3.4297 0.0021552 628.3826694194654 89.612 0.90478 90.29 89.962 90.867 0.67818 86 42 3 0 0 0 0.91111 1 41422 41422 1.1933 0 1 1544400 23927 3001 15384 15440 27482 27482 0.13486663711250912 PKGTESIKR 9 Unmodified _PKGTESIKR_ 0 0 0 REV__ENST00000261249.6_1_14:61446550-61447716:-|nuORF REV__ENST00000261249.6_1_14:61446550-61447716:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.29974365234375 2 508.298373 1014.58219 3.5159 0.0017871 0.445 0.00022619 3.9609 0.0020133 508.2983563638337 100.14 0.13911 100.74 100.68 100.82 0.59717 8 4 2 0 0 0 1.129 1 46349 46349 1.8442 0 1 2326700 + 23928 14962 15385 15441 27483 27483 0.07548547708859132 PKGTRRKKKE 10 Unmodified _PKGTRRKKKE_ 0 0 0 ENSG00000156502|ENST00000359655|SUPV3L1 ENSG00000156502|ENST00000359655|SUPV3L1 ENSG00000156502|ENST00000359655|SUPV3L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 614.388427734375 2 614.385845 1226.75714 4.3339 0.0026627 -1.0428 -0.00064067 3.2911 0.002022 614.3848252609423 95.99 0.2846 96.257 96.052 96.337 0.2675 22 14 2 0 0 0 0.93713 1 44118 44118 1.4819 0.8804 1 980150 23929 3914 15386 15442 27484 27484 0.15282967573875794 PKGTRRKKKE 10 Unmodified _PKGTRRKKKE_ 0 0 0 ENSG00000156502|ENST00000359655|SUPV3L1 ENSG00000156502|ENST00000359655|SUPV3L1 ENSG00000156502|ENST00000359655|SUPV3L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 614.3881225585938 2 614.385845 1226.75714 3.7606 0.0023104 -0.52543 -0.00032282 3.2351 0.0019876 614.3856394263446 95.408 0.45428 96.016 95.825 96.28 0.60769 50 23 3 0 0 0 0.93713 1 43905 43905 1.4819 0.41044 1 1154600 23930 3914 15386 15442 27485 27485 0.15282967573875794 PKGVHNKQVKS 11 Unmodified _PKGVHNKQVKS_ 0 0 0 REV__nc|ENSG00000171262|Q52LJ0-1|FAM98B REV__nc|ENSG00000171262|Q52LJ0-1|FAM98B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.3590698242188 2 611.356754 1220.69895 3.8321 0.0023428 -0.33351 -0.00020389 3.4986 0.0021389 611.3567573465588 88.719 0.87858 88.97 88.494 89.373 0.25118 55 36 3 0 0 0 0.91111 1 40746 40746 1.1933 0 1 514300 + 23931 13485 15387 15443 27486 27486 0.09743285928584555 PKGVHNKQVKS 11 Unmodified _PKGVHNKQVKS_ 0 0 0 REV__nc|ENSG00000171262|Q52LJ0-1|FAM98B REV__nc|ENSG00000171262|Q52LJ0-1|FAM98B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.3589477539062 2 611.356754 1220.69895 3.7387 0.0022857 -0.87132 -0.00053269 2.8674 0.001753 611.3561401813841 90.557 0.7998 91.229 91.062 91.862 0.67271 80 41 2 0 0 0 0.91111 1 41823 41823 1.1933 0 1 2189400 + 23932 13485 15387 15443 27487 27487 0.09743285928584555 PKGVIRPT 8 Unmodified _PKGVIRPT_ 0 0 0 ENSG00000111058|ENST00000548058|ACSS3 ENSG00000111058|ENST00000548058|ACSS3 ENSG00000111058|ENST00000548058|ACSS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.15625 2 434.27417 866.533787 NaN NaN NaN NaN NaN NaN NaN 69.09 1 69.09 68.59 69.59 0 0 0 0 0.967 1 33318 33318 7.9102 3.1541 1 23933 1742 15388 15444 27488 27488 0.09518098859598467 PKHRGRTPL 9 Unmodified _PKHRGRTPL_ 0 0 0 ENST00000519927.5_1_8:72443445-72460383:-|nuORF ENST00000519927.5_1_8:72443445-72460383:-|nuORF ENST00000519927.5_1_8:72443445-72460383:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.3212890625 2 531.319974 1060.6254 3.5016 0.0018605 -0.93177 -0.00049507 2.5699 0.0013654 531.3194126780111 89.787 0.63899 90.039 89.799 90.438 0.25137 71 28 4 0 0 0 1.1154 1 41258 41258 2.0598 2.0598 1 2543800 23934 8629 15389 15445 27489 27489 0.09750782276819336 PKHRGRTPL 9 Unmodified _PKHRGRTPL_ 0 0 0 ENST00000519927.5_1_8:72443445-72460383:-|nuORF ENST00000519927.5_1_8:72443445-72460383:-|nuORF ENST00000519927.5_1_8:72443445-72460383:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.3219604492188 2 531.319974 1060.6254 3.4249 0.0018197 -0.7121 -0.00037835 2.7128 0.0014413 531.319549854347 89.436 0.89019 90.115 89.865 90.755 0.67818 88 43 3 0 0 0 1.1154 1 41138 41138 2.0598 2.0598 1 2426300 23935 8629 15389 15445 27490 27490 0.09750782276819336 PKHRLIKV 8 Unmodified _PKHRLIKV_ 0 0 0 ENSG00000107338|ENST00000377707|SHB;ENSG00000105251|ENST00000543264|SHD;nc|ENSG00000107338|Q15464-2|SHB ENSG00000107338|ENST00000377707|SHB ENSG00000107338|ENST00000377707|SHB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.8357849121094 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 76.001 1 76.001 75.501 76.501 0 0 0 0 0.99035 1 37247 37247 5.2307 0.47466 1 23936 1597 15390 15446 27491 27491 0.15458042430316254 PKHSSHRKP 9 Unmodified _PKHSSHRKP_ 0 0 0 ENSG00000077684|ENST00000226319|JADE1;nc|ENSG00000077684|Q6IE81-2|JADE1;nc|ENSG00000077684|Q6IE81-3|JADE1 ENSG00000077684|ENST00000226319|JADE1 ENSG00000077684|ENST00000226319|JADE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.3976440429688 2 537.301781 1072.58901 NaN NaN NaN NaN NaN NaN NaN 90.706 1 91.378 90.878 91.878 0.67271 0 0 0 0.90699 1 41748 41748 1.8442 0.36234 1 23937 868 15391 15447 27492 27492 0.05561905380091048 PKIDCIQLRHI 11 Unmodified _PKIDCIQLRHI_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 668.3814697265625 2 668.381914 1334.74928 NaN NaN NaN NaN NaN NaN NaN 91.77 1 92.432 91.932 92.932 0.66198 0 0 0 1.0073 1 42230 42230 1.1933 0.735 1 + 23938 12747 15392 15448 27493 27493 0.09529072262103 PKIDFKMEIIK 11 Unmodified _PKIDFKMEIIK_ 0 0 0 nc|ENSG00000121446|A5PLK6-3|RGSL1;nc|ENSG00000121446|A5PLK6-2|RGSL1;ENSG00000121446|ENST00000294854|RGSL1;nc|ENSG00000121446|A5PLK6-4|RGSL1;nc|ENSG00000121446|A5PLK6-5|RGSL1 nc|ENSG00000121446|A5PLK6-3|RGSL1 nc|ENSG00000121446|A5PLK6-3|RGSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 681.399658203125 2 681.396699 1360.77884 NaN NaN NaN NaN NaN NaN NaN 44.223 1 44.223 43.723 44.723 0 0 0 0 1.005 1 20195 20195 4.1895 0 1 23939 2230 15393 15449 27494 27494 0.11288591487596022 PKIEEPHLLPV 11 Unmodified _PKIEEPHLLPV_ 0 0 0 REV__ENSG00000186908|ENST00000426126|ZDHHC17 REV__ENSG00000186908|ENST00000426126|ZDHHC17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 636.3717651367188 2 636.371538 1270.72852 NaN NaN NaN NaN NaN NaN NaN 71.245 1 71.949 71.449 72.449 0.70386 0 0 0 1.0059 1 34208 34208 2.9952 0 1 + 23940 14078 15394 15450 27495 27495 0.10398805154090951 PKIERRYLKNW 11 Unmodified _PKIERRYLKNW_ 0 0 0 REV__nc|ENSG00000117676|Q15418-3|RPS6KA1 REV__nc|ENSG00000117676|Q15418-3|RPS6KA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.62322998046875 3 501.624532 1501.85177 NaN NaN NaN NaN NaN NaN NaN 96.809 1 97.411 96.911 97.911 0.6019 0 0 0 1.008 1 44508 44508 0.08335 0 1 + 23941 11452 15395 15451 27496 27496 0.12091481325205677 PKIFFGRE 8 Unmodified _PKIFFGRE_ 0 0 0 REV__ENSG00000137124|ENST00000377698|ALDH1B1 REV__ENSG00000137124|ENST00000377698|ALDH1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 497.2812194824219 2 497.279452 992.544351 2.9395 0.0014618 0.38682 0.00019236 3.3264 0.0016541 497.2791923542568 47.059 0.27563 47.888 47.758 48.034 0.82915 33 16 3 0 0 0 0.68261 1 21432 21432 7.2892 1.5288 1 585550 + 23942 12100 15396 15452 27497 27497 0.047780815140413324 PKIFFGRE 8 Unmodified _PKIFFGRE_ 0 0 0 REV__ENSG00000137124|ENST00000377698|ALDH1B1 REV__ENSG00000137124|ENST00000377698|ALDH1B1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 497.279452 992.544351 3.0288 0.0015062 -0.74466 -0.0003703 2.2841 0.0011359 497.2785457721424 48.254 0.32751 48.254 48.061 48.389 0 0.12673 -0.00066049 NaN 7.2892 24 17 2 NaN NaN NaN NaN 0 NaN NaN 0 646680 + 23943 12100 15396 15452 0.047780815140413324 PKIFFGRE 8 Unmodified _PKIFFGRE_ 0 0 0 REV__ENSG00000137124|ENST00000377698|ALDH1B1 REV__ENSG00000137124|ENST00000377698|ALDH1B1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 497.279452 992.544351 3.2268 0.0016046 0.001639 8.1503E-07 3.2284 0.0016054 497.2793307953645 47.586 0.23465 48.24 48.063 48.297 0.65356 0.1126 8.1744E-05 NaN 7.2892 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 532200 + 23944 12100 15396 15452 0.047780815140413324 PKIFVVVK 8 Unmodified _PKIFVVVK_ 0 0 0 REV__ENSG00000173221|ENST00000237858|GLRX REV__ENSG00000173221|ENST00000237858|GLRX MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 310.37774658203125 3 310.544268 928.610974 NaN NaN NaN NaN NaN NaN NaN 42.591 1 43.237 42.737 43.737 0.64693 0 0 0 0.99035 1 19512 19512 1.6526 0 1 + 23945 13590 15397 15453 27498 27498 0.1438131707593584 PKIFVVVKGPQ 11 Unmodified _PKIFVVVKGPQ_ 0 0 0 REV__ENSG00000173221|ENST00000237858|GLRX REV__ENSG00000173221|ENST00000237858|GLRX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.5901184082031 3 404.588536 1210.74378 3.2934 0.0013325 0.20145 8.1503E-05 3.4948 0.001414 404.923077126061 32.245 0.33243 32.499 32.335 32.668 0.25452 48 25 2 0 0 0 0.89544 1 14714 14714 2.6312 0.88896 1 2494600 + 23946 13590 15398 15454 27499 27499 0.14683716741956232 PKIFVVVKGPQ 11 Unmodified _PKIFVVVKGPQ_ 0 0 0 REV__ENSG00000173221|ENST00000237858|GLRX REV__ENSG00000173221|ENST00000237858|GLRX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.59063720703125 3 404.588536 1210.74378 3.2115 0.0012993 0.83346 0.00033721 4.045 0.0016365 404.5887679947137 32.592 0.55131 32.847 32.593 33.145 0.25452 62 27 3 0 0 0 0.89065 1 14781 14781 2.8433 1.101 1 2022100 + 23947 13590 15398 15454 27500 27500 0.14683716741956232 PKIFVVVKGPQ 11 Unmodified _PKIFVVVKGPQ_ 0 0 0 REV__ENSG00000173221|ENST00000237858|GLRX REV__ENSG00000173221|ENST00000237858|GLRX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.5903015136719 3 404.588536 1210.74378 2.975 0.0012036 0.93527 0.0003784 3.9102 0.001582 404.58876047475337 34.239 0.61135 34.493 34.391 35.002 0.25389 62 27 3 0 0 0 0.89544 3 15595 15595;15647;15812 2.6312 2.6312 1 1375100 + 23948 13590 15398 15454 27501;27502;27503 27501 0.14683716741956232 PKIFVVVKGPQ 11 Unmodified _PKIFVVVKGPQ_ 0 0 0 REV__ENSG00000173221|ENST00000237858|GLRX REV__ENSG00000173221|ENST00000237858|GLRX MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 404.588536 1210.74378 2.846 0.0011515 1.1407 0.00046153 3.9868 0.001613 404.5888247317326 34 0.86343 34.62 34.249 35.112 0.62032 -0.0094611 -1.1921E-05 NaN 2.6312 71 40 3 NaN NaN NaN NaN 0 NaN NaN 0 816460 + 23949 13590 15398 15454 0.14683716741956232 PKIIPLTLEPV 11 Unmodified _PKIIPLTLEPV_ 0 0 0 REV__nc|ENSG00000170325|Q9NQV6-2|PRDM10 REV__nc|ENSG00000170325|Q9NQV6-2|PRDM10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 407.2612609863281 3 407.260197 1218.75876 NaN NaN NaN NaN NaN NaN NaN 77.529 1 78.09 77.59 78.59 0.56091 0 0 0 1.0073 1 37597 37597 0.40827 0 1 + 23950 13432 15399 15455 27504 27504 0.1581316381925717 PKIKFHLGIL 10 Unmodified _PKIKFHLGIL_ 0 0 0 REV__ENST00000544850.5_1_12:10758876-10761762:-|nuORF REV__ENST00000544850.5_1_12:10758876-10761762:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1165.748779296875 1 1165.74558 1164.7383 3.2014 0.003732 1.2414 0.0014471 4.4427 0.0051791 1165.7461481445318 39.643 0.3928 39.643 39.379 39.772 0 41 16 3 0 0 0 0.94099 1 17991 17991 1.6526 0 1 3455000 + 23951 11221 15400 15456 27505 27505 0.16252037950107479 PKIKFHLGIL 10 Unmodified _PKIKFHLGIL_ 0 0 0 REV__ENST00000544850.5_1_12:10758876-10761762:-|nuORF REV__ENST00000544850.5_1_12:10758876-10761762:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.3794555664062 2 583.376426 1164.7383 3.5035 0.0020438 1.3174 0.00076854 4.8209 0.0028124 583.3772329590759 42.308 0.17048 42.308 42.272 42.442 0 34 20 2 0 0 0 0.93584 2 19301 19253;19301 3.5965 3.1382 1 4504100 + 23952 11221 15400 15456 27506;27507 27507 0.16252037950107479 PKIKFHLGIL 10 Unmodified _PKIKFHLGIL_ 0 0 0 REV__ENST00000544850.5_1_12:10758876-10761762:-|nuORF REV__ENST00000544850.5_1_12:10758876-10761762:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1165.75 1 1165.74558 1164.7383 3.0567 0.0035633 0.81484 0.00094989 3.8715 0.0045132 1165.746537746012 39.025 0.47817 39.289 38.999 39.477 0.26408 48 19 3 0 0 0 0.94099 2 17762 17762;17806 1.6526 1.6526 1 2657300 + 23953 11221 15400 15456 27508;27509 27508 0.16252037950107479 PKIKFHLGIL 10 Unmodified _PKIKFHLGIL_ 0 0 0 REV__ENST00000544850.5_1_12:10758876-10761762:-|nuORF REV__ENST00000544850.5_1_12:10758876-10761762:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1165.7545166015625 1 1165.74558 1164.7383 3.2827 0.0038268 1.2581 0.0014666 4.5408 0.0052934 1165.7468644363685 38.653 0.27209 39.291 39.102 39.374 0.63778 14 9 2 0 0 0 0.94099 1 17689 17689 1.6526 0.96225 1 525020 + 23954 11221 15400 15456 27510 27510 0.16252037950107479 PKIKIRHLKL 10 Unmodified _PKIKIRHLKL_ 0 0 0 REV__ENST00000372927.5_2_X:100356228-100357313:+|nuORF REV__ENST00000372927.5_2_X:100356228-100357313:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 623.2792358398438 2 623.429525 1244.8445 NaN NaN NaN NaN NaN NaN NaN 86.016 1 86.687 86.187 87.187 0.67061 0 0 0 1.0019 1 39611 39611 0.40072 0 1 + 23955 15761 15401 15457 27511 27511 0.2318679351544688 PKIKKLFAL 9 Unmodified _PKIKKLFAL_ 0 0 0 ENST00000313478.11_1_15:50884110-50884182:-|nuORF ENST00000313478.11_1_15:50884110-50884182:-|nuORF ENST00000313478.11_1_15:50884110-50884182:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.3616943359375 2 529.360245 1056.70594 NaN NaN NaN NaN NaN NaN NaN 52.276 1 53.087 52.587 53.587 0.81065 0 0 0 0.90611 1 23816 23816 2.0598 0 1 23956 6884 15402 15458 27512 27512 0.17985250547121723 PKILEKDWAA 10 Unmodified _PKILEKDWAA_ 0 0 0 REV__ENSG00000135837|ENST00000367607|CEP350 REV__ENSG00000135837|ENST00000367607|CEP350 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.890380859375 3 390.888763 1169.64446 2.9292 0.001145 1.1597 0.00045331 4.0889 0.0015983 390.88917702398606 61.18 0.87746 61.433 60.913 61.79 0.25245 96 41 3 0 0 0 0.93584 1 27912 27912 1.7423 0 1 1572500 + 23957 12040 15403 15459 27513 27513 0.06642274057207942 PKILILNLIL 10 Unmodified _PKILILNLIL_ 0 0 0 REV__Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|46|1|anti-sense REV__Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|46|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.4016723632812 2 575.40211 1148.78967 NaN NaN NaN NaN NaN NaN NaN 82.278 1 82.278 81.778 82.778 0 0 0 0 1.0015 1 41131 41131 0.40072 0 1 + 23958 17694 15404 15460 27514 27514 0.22122361924175493 PKILILNLILL 11 Unmodified _PKILILNLILL_ 0 0 0 REV__Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|46|1|anti-sense REV__Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|46|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 631.9453125 2 631.944142 1261.87373 NaN NaN NaN NaN NaN NaN NaN 109.83 1 110.14 109.64 110.64 0.31015 0 0 0 1.008 1 50622 50622 0.30703 0.30703 1 + 23959 17694 15405 15461 27515 27515 0.25326893021087926 PKILPVLLLL 10 Unmodified _PKILPVLLLL_ 0 0 0 REV__ENSG00000106809|ENST00000375561|OGN REV__ENSG00000106809|ENST00000375561|OGN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.901611328125 2 559.899203 1117.78385 NaN NaN NaN NaN NaN NaN NaN 27.66 1 27.66 27.16 28.16 0 0 0 0 1.002 1 12459 12459 0 0 1 + 23960 11100 15406 15462 27516 27516 0.22967263412533612 PKILPVLLLL 10 Unmodified _PKILPVLLLL_ 0 0 0 REV__ENSG00000106809|ENST00000375561|OGN REV__ENSG00000106809|ENST00000375561|OGN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.6033020019531 3 373.601894 1117.78385 NaN NaN NaN NaN NaN NaN NaN 66.007 1 66.255 65.755 66.755 0.24848 0 0 0 1.002 1 30238 30238 0 0 1 + 23961 11100 15406 15462 27517 27517 0.22967263412533612 PKITENPPSR 10 Unmodified _PKITENPPSR_ 0 0 0 ENSG00000250423|ENST00000691062|KIAA1210;nc|ENSG00000250423|Q9ULL0|KIAA1210 ENSG00000250423|ENST00000691062|KIAA1210 ENSG00000250423|ENST00000691062|KIAA1210 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.8145751953125 2 569.814387 1137.61422 NaN NaN NaN NaN NaN NaN NaN 93.215 1 93.47 92.97 93.97 0.25497 0 0 0 1.0004 1 42844 42844 1.3295 0.72803 1 23962 6264 15407 15463 27518 27518 0.050919153919721793 PKKAAAKIL 9 Unmodified _PKKAAAKIL_ 0 0 0 ENST00000489072.5_1_21:40717866-40720548:-|nuORF ENST00000489072.5_1_21:40717866-40720548:-|nuORF ENST00000489072.5_1_21:40717866-40720548:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.3238525390625 2 470.32112 938.627687 NaN NaN NaN NaN NaN NaN NaN 76.478 1 76.733 76.233 77.233 0.25533 0 0 0 0.8984 1 35211 35211 3.9444 1.6417 1 23963 8374 15408 15464 27519 27519 0.15591817961876586 PKKAAGLQLG 10 Unmodified _PKKAAGLQLG_ 0 0 0 REV__nc|ENSG00000137699|Q14134-2|TRIM29 REV__nc|ENSG00000137699|Q14134-2|TRIM29 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.8041687011719 2 491.805834 981.597115 NaN NaN NaN NaN NaN NaN NaN 75.307 1 75.307 74.807 75.807 0 0 0 0 0.9952 1 36899 36899 5.7319 0.50118 1 + 23964 12121 15409 15465 27520 27520 0.10558039576858391 PKKAAKSPAK 10 Unmodified _PKKAAKSPAK_ 0 0 0 ENSG00000124575|ENST00000244534|H1-3 ENSG00000124575|ENST00000244534|H1-3 ENSG00000124575|ENST00000244534|H1-3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.3240966796875 2 513.326934 1024.63931 NaN NaN NaN NaN NaN NaN NaN 66.959 1 66.959 66.459 67.459 0 0 0 0 0.98317 1 32039 32039 8.1555 0.24537 1 23965 2368 15410 15466 27521 27521 0.12798014985219197 PKKAALVM 8 Unmodified _PKKAALVM_ 0 0 0 SAMD3|p.N438Tfs*14|1|0.23|ENSG00000164483|chr6:130144770-130144770|T/-|frameshift_variant;ENSG00000164483|ENST00000439090|SAMD3;nc|ENSG00000164483|Q8N6K7-3|SAMD3;nc|ENSG00000164483|Q8N6K7-2|SAMD3;ENST00000533296.5_1_6:130497274-130536439:-|nuORF;ENST00000524930.1_1_6:130504375-130535627:-|nuORF SAMD3|p.N438Tfs*14|1|0.23|ENSG00000164483|chr6:130144770-130144770|T/-|frameshift_variant SAMD3|p.N438Tfs*14|1|0.23|ENSG00000164483|chr6:130144770-130144770|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 429.4150390625 2 429.267499 856.520445 NaN NaN NaN NaN NaN NaN NaN 60.537 1 61.276 60.776 61.776 0.7396 0 0 0 0.99035 1 27946 27946 4.756 0 1 23966 4318 15411 15467 27522 27522 0.08644524756005012 PKKAAPVCR 9 Unmodified _PKKAAPVCR_ 0 0 0 REV__nc|ENSG00000258436|Q7Z5J4-2|RAI1 REV__nc|ENSG00000258436|Q7Z5J4-2|RAI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.28851318359375 2 485.286754 968.558955 NaN NaN NaN NaN NaN NaN NaN 76.969 1 77.224 76.724 77.724 0.25533 0 0 0 0.87786 1 35443 35443 6.7232 0.36906 1 + 23967 18154 15412 15468 27523 27523 0.07341830390521409 PKKAKLRKL 9 Unmodified _PKKAKLRKL_ 0 0 0 REV__ENST00000373465.2_1_X:46278605-46278842:-|nuORF REV__ENST00000373465.2_1_X:46278605-46278842:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.38330078125 2 541.382043 1080.74953 NaN NaN NaN NaN NaN NaN NaN 74.073 1 74.332 73.832 74.832 0.25876 0 0 0 0.8984 1 34045 34045 3.9444 0 1 + 23968 15767 15413 15469 27524 27524 0.21238860044263674 PKKAKLRKLL 10 Unmodified _PKKAKLRKLL_ 0 0 0 REV__ENST00000373465.2_1_X:46278605-46278842:-|nuORF REV__ENST00000373465.2_1_X:46278605-46278842:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 598.3681640625 2 597.924075 1193.8336 NaN NaN NaN NaN NaN NaN NaN 61.122 1 61.861 61.361 62.361 0.7396 0 0 0 0.99812 1 28303 28303 3.2813 2.9743 1 + 23969 15767 15414 15470 27525 27525 0.24443391141176107 PKKAKLRKLLW 11 Unmodified _PKKAKLRKLLW_ 0 0 0 REV__ENST00000373465.2_1_X:46278605-46278842:-|nuORF REV__ENST00000373465.2_1_X:46278605-46278842:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 460.97784423828125 3 460.978247 1379.91291 NaN NaN NaN NaN NaN NaN NaN 64.426 1 64.426 63.926 64.926 0 0 0 0 1.0044 1 30518 30518 4.1166 3.1031 1 + 23970 15767 15415 15471 27526 27526 0.23815038095312957 PKKAKPVKP 9 Unmodified _PKKAKPVKP_ 0 0 0 nc|ENSG00000189060|P07305-2|H1-0;ENSG00000189060|ENST00000340857|H1-0 nc|ENSG00000189060|P07305-2|H1-0 nc|ENSG00000189060|P07305-2|H1-0 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.8846435546875 2 496.834394 991.654236 NaN NaN NaN NaN NaN NaN NaN 79.75 1 80.07 79.57 80.57 0.31998 0 0 0 0.77475 1 38966 38966 10.074 7.4964 1 23971 5702 15416 15472 27527 27527 0.15807506853218456 PKKAKPVKP 9 Unmodified _PKKAKPVKP_ 0 0 0 nc|ENSG00000189060|P07305-2|H1-0;ENSG00000189060|ENST00000340857|H1-0 nc|ENSG00000189060|P07305-2|H1-0 nc|ENSG00000189060|P07305-2|H1-0 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.8363952636719 2 496.834394 991.654236 NaN NaN NaN NaN NaN NaN NaN 75.033 1 75.291 74.791 75.791 0.25831 0 0 0 0.8984 1 34515 34515 3.9444 0 1 23972 5702 15416 15472 27528 27528 0.15807506853218456 PKKAKPVKP 9 Unmodified _PKKAKPVKP_ 0 0 0 nc|ENSG00000189060|P07305-2|H1-0;ENSG00000189060|ENST00000340857|H1-0 nc|ENSG00000189060|P07305-2|H1-0 nc|ENSG00000189060|P07305-2|H1-0 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.9612731933594 2 496.834394 991.654236 NaN NaN NaN NaN NaN NaN NaN 73.057 1 73.721 73.221 74.221 0.66398 0 0 0 0.77475 1 33556 33556 10.074 2.7847 1 23973 5702 15416 15472 27529 27529 0.15807506853218456 PKKAKTWIP 9 Unmodified _PKKAKTWIP_ 0 0 0 ENSG00000089737|ENST00000621632|DDX24;ENST00000555762.1_1_14:94524146-94547480:-|nuORF;ENST00000555324.1_1_14:94545323-94547480:-|nuORF ENSG00000089737|ENST00000621632|DDX24 ENSG00000089737|ENST00000621632|DDX24 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.831298828125 2 534.831852 1067.64915 NaN NaN NaN NaN NaN NaN NaN 64.839 1 64.839 64.339 65.339 0 0 0 0 0.796 1 30796 30796 9.3831 1.473 1 23974 1049 15417 15473 27530 27530 0.11803202990608952 PKKAPPGKKP 10 Unmodified _PKKAPPGKKP_ 0 0 0 REV__nc|ENSG00000009954|Q9UIG0-2|BAZ1B REV__nc|ENSG00000009954|Q9UIG0-2|BAZ1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.3382568359375 2 524.337301 1046.66005 NaN NaN NaN NaN NaN NaN NaN 61.567 1 61.567 61.067 62.067 0 0 0 0 0.99837 1 28730 28730 5.7319 0.97584 1 + 23975 10219 15418 15474 27531 27531 0.1385860536488508 PKKASKKAER 10 Unmodified _PKKASKKAER_ 0 0 0 REV__nc|ENSG00000167674|Q7Z4V5-2|HDGFL2 REV__nc|ENSG00000167674|Q7Z4V5-2|HDGFL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.7838134765625 2 571.853847 1141.69314 NaN NaN NaN NaN NaN NaN NaN 66.594 1 66.594 66.094 67.094 0 0 0 0 0.99572 1 31846 31846 5.2969 0 1 + 23976 13299 15419 15475 27532 27532 0.12796187416915927 PKKCIWYNDV 10 Unmodified _PKKCIWYNDV_ 0 0 0 REV__nc|ENSG00000104938|Q9H2X3-7|CLEC4M REV__nc|ENSG00000104938|Q9H2X3-7|CLEC4M MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.15057373046875 3 422.549753 1264.62743 NaN NaN NaN NaN NaN NaN NaN 65.411 1 66.12 65.62 66.62 0.70891 0 0 0 1.0003 1 30937 30937 0.62683 0 1 + 23977 11008 15420 15476 27533 27533 0.005700301797105567 PKKDKTKGP 9 Unmodified _PKKDKTKGP_ 0 0 0 ENSG00000182329|ENST00000498697|KIAA2012;nc|ENSG00000182329|Q0VF49|KIAA2012;nc|ENSG00000182329|Q0VF49-2|KIAA2012 ENSG00000182329|ENST00000498697|KIAA2012 ENSG00000182329|ENST00000498697|KIAA2012 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.8048095703125 2 499.803291 997.59203 2.5386 0.0012688 0.21867 0.00010929 2.7572 0.0013781 499.80361918854254 12.733 0.15566 13.04 12.936 13.091 0.30727 8 4 2 0 0 0 1.0041 1 5765 5765 3.9444 0.3479 1 737470 23978 5330 15421 15477 27534 27534 0.09313735714226823 PKKEIVLL 8 Unmodified _PKKEIVLL_ 0 0 0 REV__ENST00000496524.5_1_2:110922048-110962545:-|nuORF REV__ENST00000496524.5_1_2:110922048-110962545:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.3164978027344 2 470.315503 938.616454 NaN NaN NaN NaN NaN NaN NaN 74.267 1 74.931 74.431 75.431 0.6644 0 0 0 0.99035 1 34181 34181 2.3027 0 1 + 23979 12392 15422 15478 27535 27535 0.14468995867753165 PKKEKSVFSAI 11 Unmodified _PKKEKSVFSAI_ 0 0 0 REV__nc|ENSG00000163599|P16410-4|CTLA4 REV__nc|ENSG00000163599|P16410-4|CTLA4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 309.52484130859375 4 309.185495 1232.71287 2.0222 0.00062522 0.88919 0.00027493 2.9113 0.00090015 309.4366323737607 33.056 0.5629 33.675 33.232 33.795 0.61831 48 28 3 0 0 0 0.13295 1 15117 15117 0.45452 0 1 484040 + 23980 18008 15423 15479 27536 27536 0.10582518637056637 PKKERKES 8 Unmodified _PKKERKES_ 0 0 0 REV__ENST00000262662.5_1_1:51434456-51434999:+|nuORF REV__ENST00000262662.5_1_1:51434456-51434999:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.2912292480469 2 501.290548 1000.56654 3.0512 0.0015295 0.63904 0.00032035 3.6902 0.0018499 501.2907932816766 78.748 1.673 78.999 78.211 79.884 0.25127 201 105 2 0 0 0 0.7441 1 36508 36508 2.3027 0 1 1159000 + 23981 14987 15424 15480 27537 27537 0.06628261191804086 PKKEVVEV 8 Unmodified _PKKEVVEV_ 0 0 0 REV__ENSG00000065526|ENST00000375759|SPEN REV__ENSG00000065526|ENST00000375759|SPEN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.2803955078125 2 464.279118 926.543683 NaN NaN NaN NaN NaN NaN NaN 21.002 1 21.656 21.156 22.156 0.65346 0 0 0 0.99035 1 9532 9532 4.756 0 1 + 23982 10431 15425 15481 27538 27538 0.07747242074333371 PKKEYKRKPRI 11 Unmodified _PKKEYKRKPRI_ 0 0 0 REV__ENST00000495790.1_1_10:32575832-32580264:-|nuORF REV__ENST00000495790.1_1_10:32575832-32580264:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 481.6369934082031 3 481.636661 1441.88815 NaN NaN NaN NaN NaN NaN NaN 71.875 1 71.875 71.375 72.375 0 0 0 0 1.0073 1 34942 34942 0.40827 0 1 + 23983 11542 15426 15482 27539 27539 0.18488358221929957 PKKFITRLRKE 11 Unmodified _PKKFITRLRKE_ 0 0 0 ENSG00000152484|ENST00000282344|USP12 ENSG00000152484|ENST00000282344|USP12 ENSG00000152484|ENST00000282344|USP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.37396240234375 3 472.633027 1414.87725 NaN NaN NaN NaN NaN NaN NaN 72.541 1 73.205 72.705 73.705 0.66398 0 0 0 1.0073 1 33281 33281 0.40827 0 1 23984 3749 15427 15483 27540 27540 0.18640955847627083 PKKGLIKKKM 10 Unmodified _PKKGLIKKKM_ 0 0 0 ENSG00000132681|ENST00000368081|ATP1A4 ENSG00000132681|ENST00000368081|ATP1A4 ENSG00000132681|ENST00000368081|ATP1A4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.7872314453125 2 585.891386 1169.76822 NaN NaN NaN NaN NaN NaN NaN 70.899 1 70.899 70.399 71.399 0 0 0 0 0.99774 1 34446 34446 3.5965 1.7523 1 23985 2720 15428 15484 27541 27541 0.19012653623781262 PKKGVHPVI 9 Unmodified _PKKGVHPVI_ 0 0 0 REV__ENSG00000188738|ENST00000424728|FSIP2 REV__ENSG00000188738|ENST00000424728|FSIP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.80908203125 2 487.810919 973.607286 NaN NaN NaN NaN NaN NaN NaN 84.883 1 84.911 84.411 85.411 0.028603 0 0 0 0.82031 1 42434 42434 8.5933 1.8701 1 + 23986 14156 15429 15485 27542 27542 0.11942647302066689 PKKHRRRR 8 Unmodified _PKKHRRRR_ 0 0 0 REV__ENSG00000166343|ENST00000299432|MSS51 REV__ENSG00000166343|ENST00000299432|MSS51 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.7144775390625 2 567.365582 1132.71661 NaN NaN NaN NaN NaN NaN NaN 60.218 1 60.968 60.468 61.468 0.74927 0 0 0 0.99035 1 27736 27736 0.69038 0.16561 1 + 23987 13228 15430 15486 27543 27543 0.1555609076476685 PKKHTVKKKRI 11 Unmodified _PKKHTVKKKRI_ 0 0 0 ENST00000437982.1_1_2:130970445-130970847:-|nuORF ENST00000437982.1_1_2:130970445-130970847:-|nuORF ENST00000437982.1_1_2:130970445-130970847:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 681.9591674804688 2 681.956438 1361.89832 NaN NaN NaN NaN NaN NaN NaN 67.26 1 67.26 66.76 67.76 0 0 0 0 1.0073 1 32219 32219 1.1933 0 1 23988 7912 15431 15487 27544 27544 0.23184965947166347 PKKHTVKKRI 10 Unmodified _PKKHTVKKRI_ 0 0 0 ENST00000489471.5_3_2:46787807-46808219:+|nuORF;ENSG00000119729|ENST00000238738|RHOQ ENST00000489471.5_3_2:46787807-46808219:+|nuORF ENST00000489471.5_3_2:46787807-46808219:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 617.9115600585938 2 617.908956 1233.80336 NaN NaN NaN NaN NaN NaN NaN 17.546 1 18.207 17.707 18.707 0.66072 0 0 0 1.0019 1 7917 7917 0.40072 0 1 23989 2164 15432 15488 27545 27545 0.19581032476003202 PKKIHPRK 8 Unmodified _PKKIHPRK_ 0 0 0 REV__nc|ENSG00000138795|Q9UJU2-3|LEF1 REV__nc|ENSG00000138795|Q9UJU2-3|LEF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 502.3280029296875 2 502.329811 1002.64507 NaN NaN NaN NaN NaN NaN NaN 61.499 1 62.239 61.739 62.739 0.7396 0 0 0 0.99035 1 28526 28526 2.3027 0 1 + 23990 12193 15433 15489 27546 27546 0.14385158287552713 PKKIIFEIKTG 11 Unmodified _PKKIIFEIKTG_ 0 0 0 ENST00000269033.7_1_17:27957016-27957265:-|nuORF ENST00000269033.7_1_17:27957016-27957265:-|nuORF ENST00000269033.7_1_17:27957016-27957265:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 637.4569702148438 2 637.397556 1272.78056 NaN NaN NaN NaN NaN NaN NaN 97.931 1 98.22 97.72 98.72 0.28923 0 0 0 1.0065 1 45040 45040 2.2828 0.63015 1 23991 6638 15434 15490 27547 27547 0.15507968567817443 PKKIKTKKS 9 Unmodified _PKKIKTKKS_ 0 0 0 ENST00000549928.5_1_12:60154925-60173457:+|nuORF;ENSG00000118596|ENST00000547379|SLC16A7 ENST00000549928.5_1_12:60154925-60173457:+|nuORF ENST00000549928.5_1_12:60154925-60173457:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.3259887695312 2 529.358234 1056.70191 NaN NaN NaN NaN NaN NaN NaN 69.351 1 69.351 68.851 69.851 0 0 0 0 0.90699 1 33477 33477 1.8442 0.19162 1 23992 2120 15435 15491 27548 27548 0.1758316105342601 PKKIRKYKQSL 11 Unmodified _PKKIRKYKQSL_ 0 0 0 REV__ENSG00000015479|ENST00000394805|MATR3;REV__ENST00000502422.5_1_5:138651717-138665081:+|nuORF REV__ENSG00000015479|ENST00000394805|MATR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.5111389160156 3 463.629394 1387.86635 NaN NaN NaN NaN NaN NaN NaN 71.573 1 72.277 71.777 72.777 0.70386 0 0 0 1.0073 1 34386 34386 0.40827 0 1 + 23993 10254;16888 15436 15492 27549 27549 0.18793553473369684 PKKIRQYK 8 Unmodified _PKKIRQYK_ 0 0 0 REV__ENSG00000080854|ENST00000533871|IGSF9B REV__ENSG00000080854|ENST00000533871|IGSF9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.8377075195312 2 530.834926 1059.6553 NaN NaN NaN NaN NaN NaN NaN 89.988 1 90.053 89.553 90.553 0.064346 0 0 0 0.99035 1 46259 46259 4.3292 1.0479 1 + 23994 10603 15437 15493 27550 27550 0.12785721222121538 PKKKAHTRAHK 11 Unmodified _PKKKAHTRAHK_ 0 0 0 REV__ENSG00000172000|ENST00000307635|ZNF556 REV__ENSG00000172000|ENST00000307635|ZNF556 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 651.3978271484375 2 651.399287 1300.78402 NaN NaN NaN NaN NaN NaN NaN 74.421 1 74.679 74.179 75.179 0.25831 0 0 0 1.0061 1 34227 34227 2.7352 1.0826 1 + 23995 13531 15438 15494 27551 27551 0.14566076185064958 PKKKAKTKAKK 11 Unmodified _PKKKAKTKAKK_ 0 0 0 REV__ENST00000505222.5_1_6:82901346-82950269:-|nuORF REV__ENST00000505222.5_1_6:82901346-82950269:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 419.2896423339844 3 419.290602 1254.84998 NaN NaN NaN NaN NaN NaN NaN 65.765 1 65.765 65.265 66.265 0 0 0 0 1.0079 1 31347 31347 0.45452 0 1 + 23996 10182 15439 15495 27552 27552 0.23274472307230099 PKKKAPLRTRG 11 Unmodified _PKKKAPLRTRG_ 0 0 0 REV__nc|ENSG00000043143|Q9NQC1-2|JADE2 REV__nc|ENSG00000043143|Q9NQC1-2|JADE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 626.6813354492188 2 626.404038 1250.79352 NaN NaN NaN NaN NaN NaN NaN 64.054 1 64.054 63.554 64.554 0 0 0 0 1.0044 1 30257 30257 4.897 0.70751 1 + 23997 10326 15440 15496 27553 27553 0.17815844470578668 PKKKEFSL 8 Unmodified _PKKKEFSL_ 0 0 0 REV__ENSG00000236699|ENST00000420470|ARHGEF38 REV__ENSG00000236699|ENST00000420470|ARHGEF38 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 488.7945251464844 2 488.794935 975.575317 NaN NaN NaN NaN NaN NaN NaN 26.631 1 27.41 26.91 27.91 0.7787 0 0 0 0.99035 1 11963 11963 5.2307 0 1 + 23998 14595 15441 15497 27554 27554 0.08655234828290759 PKKKFKFK 8 Unmodified _PKKKFKFK_ 0 0 0 nc|ENSG00000120549|Q5T5P2-3|KIAA1217;ENSG00000120549|ENST00000376454|KIAA1217 nc|ENSG00000120549|Q5T5P2-3|KIAA1217 nc|ENSG00000120549|Q5T5P2-3|KIAA1217 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 525.6233520507812 2 525.844762 1049.67497 NaN NaN NaN NaN NaN NaN NaN 17.019 1 17.019 16.519 17.519 0 0 0 0 0.99035 1 7552 7552 0.69038 0.69038 1 23999 2196 15442 15498 27555 27555 0.1521209723289303 PKKKIKLKKSK 11 Unmodified _PKKKIKLKKSK_ 0 0 0 ENSG00000089737|ENST00000621632|DDX24;ENST00000555762.1_1_14:94524146-94547480:-|nuORF;nc|ENSG00000089737|Q9GZR7-2|DDX24;ENST00000555324.1_1_14:94545323-94547480:-|nuORF ENSG00000089737|ENST00000621632|DDX24 ENSG00000089737|ENST00000621632|DDX24 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 663.4756469726562 2 663.471389 1324.92823 NaN NaN NaN NaN NaN NaN NaN 29.305 1 30.094 29.594 30.594 0.78921 0 0 0 1.008 1 13208 13208 0.30703 0.30703 1 24000 1049 15443 15499 27556 27556 0.27875904892493963 PKKKIVKK 8 Unmodified _PKKKIVKK_ 0 0 0 KLHL31|p.N186Mfs*24|1|0.38|ENSG00000124743|chr6:53654716-53654716|T/-|frameshift_variant;ENSG00000124743|ENST00000370905|KLHL31 KLHL31|p.N186Mfs*24|1|0.38|ENSG00000124743|chr6:53654716-53654716|T/-|frameshift_variant KLHL31|p.N186Mfs*24|1|0.38|ENSG00000124743|chr6:53654716-53654716|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.85272216796875 2 484.852587 967.690622 NaN NaN NaN NaN NaN NaN NaN 61.53 1 62.269 61.769 62.769 0.7396 0 0 0 0.99035 1 28546 28546 2.3027 0 1 24001 2375 15444 15500 27557 27557 0.20548383749940058 PKKKIVKK 8 Unmodified _PKKKIVKK_ 0 0 0 KLHL31|p.N186Mfs*24|1|0.38|ENSG00000124743|chr6:53654716-53654716|T/-|frameshift_variant;ENSG00000124743|ENST00000370905|KLHL31 KLHL31|p.N186Mfs*24|1|0.38|ENSG00000124743|chr6:53654716-53654716|T/-|frameshift_variant KLHL31|p.N186Mfs*24|1|0.38|ENSG00000124743|chr6:53654716-53654716|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.8541564941406 2 484.852587 967.690622 NaN NaN NaN NaN NaN NaN NaN 105.21 1 105.81 105.31 106.31 0.59969 0 0 0 0.99035 1 48592 48592 2.3027 0 1 24002 2375 15444 15500 27558 27558 0.20548383749940058 PKKKIVKKNK 10 Unmodified _PKKKIVKKNK_ 0 0 0 KLHL31|p.N186Mfs*24|1|0.38|ENSG00000124743|chr6:53654716-53654716|T/-|frameshift_variant;ENSG00000124743|ENST00000370905|KLHL31 KLHL31|p.N186Mfs*24|1|0.38|ENSG00000124743|chr6:53654716-53654716|T/-|frameshift_variant KLHL31|p.N186Mfs*24|1|0.38|ENSG00000124743|chr6:53654716-53654716|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 605.9268188476562 2 605.921532 1209.82851 NaN NaN NaN NaN NaN NaN NaN 62.09 1 62.821 62.321 63.321 0.73077 0 0 0 0.99846 1 28890 28890 2.9952 0.26005 1 24003 2375 15445 15501 27559 27559 0.2319908727854454 PKKKIVKKNK 10 Unmodified _PKKKIVKKNK_ 0 0 0 KLHL31|p.N186Mfs*24|1|0.38|ENSG00000124743|chr6:53654716-53654716|T/-|frameshift_variant;ENSG00000124743|ENST00000370905|KLHL31 KLHL31|p.N186Mfs*24|1|0.38|ENSG00000124743|chr6:53654716-53654716|T/-|frameshift_variant KLHL31|p.N186Mfs*24|1|0.38|ENSG00000124743|chr6:53654716-53654716|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 605.8701171875 2 605.921532 1209.82851 NaN NaN NaN NaN NaN NaN NaN 71.686 1 71.944 71.444 72.444 0.25786 0 0 0 0.99846 1 32865 32865 2.9952 0.26005 1 24004 2375 15445 15501 27560 27560 0.2319908727854454 PKKKKIWEGVP 11 Unmodified _PKKKKIWEGVP_ 0 0 0 REV__ENSG00000179715|ENST00000546455|PCED1B REV__ENSG00000179715|ENST00000546455|PCED1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 655.4020385742188 2 655.403173 1308.79179 NaN NaN NaN NaN NaN NaN NaN 51.662 1 51.662 51.162 52.162 0 0 0 0 1.0074 1 23651 23651 1.0715 0 1 + 24005 13803 15446 15502 27561 27561 0.14974790661949555 PKKKKKKKD 9 Unmodified _PKKKKKKKD_ 0 0 0 ENSG00000105849|ENST00000222567|POLR1F ENSG00000105849|ENST00000222567|POLR1F ENSG00000105849|ENST00000222567|POLR1F MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.4113159179688 2 564.384783 1126.75501 NaN NaN NaN NaN NaN NaN NaN 90.946 1 91.618 91.118 92.118 0.67271 0 0 0 0.91238 1 41857 41857 0.52476 0.066424 1 24006 1535 15447 15503 27562 27562 0.1967053883608969 PKKKKKKKK 9 Unmodified _PKKKKKKKK_ 0 0 0 ENSG00000025293|ENST00000374012|PHF20;ENST00000357731.9_1_1:72748195-72748351:-|nuORF;ENSG00000105849|ENST00000222567|POLR1F;ENST00000340726.7_1_8:72273997-72274438:-|nuORF ENSG00000025293|ENST00000374012|PHF20;ENST00000357731.9_1_1:72748195-72748351:-|nuORF;ENSG00000105849|ENST00000222567|POLR1F;REV__ENST00000368679.8_1_10:127702855-127703017:-|nuORF;ENST00000340726.7_1_8:72273997-72274438:-|nuORF;REV__L1PB1_dup3131|chr4:69117282-69117596:+|1.59905624223008|0.0293046000434249|5.77|526.0|3|2|sense ENSG00000025293|ENST00000374012|PHF20 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.8505859375 2 570.918793 1139.82303 NaN NaN NaN NaN NaN NaN NaN 95.747 1 95.747 95.247 96.247 0 0 0 0 0.91238 1 51643 51643 0.52476 0 1 24007 477;15690;1535;17805;7183;7066 15448 15504 27563 27563 0.25871408486727887 PKKKKKKKKHQ 11 Unmodified _PKKKKKKKKHQ_ 0 0 0 ENSG00000105849|ENST00000222567|POLR1F ENSG00000105849|ENST00000222567|POLR1F ENSG00000105849|ENST00000222567|POLR1F MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.32171630859375 3 469.320784 1404.94052 NaN NaN NaN NaN NaN NaN NaN 43.12 1 43.12 42.62 43.62 0 0 0 0 1.0082 1 19637 19637 0.094841 0.094841 1 24008 1535 15449 15505 27564 27564 0.2542494135554989 PKKKKKKKKKK 11 Unmodified _PKKKKKKKKKK_ 0 0 0 ENST00000357731.9_1_1:72748195-72748351:-|nuORF ENST00000357731.9_1_1:72748195-72748351:-|nuORF ENST00000357731.9_1_1:72748195-72748351:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 699.01123046875 2 699.013756 1396.01296 NaN NaN NaN NaN NaN NaN NaN 60.544 1 61.283 60.783 61.783 0.7396 0 0 0 1.008 1 27951 27951 0.30703 0 1 24009 7183 15450 15506 27565 27565 0.33079275429076915 PKKKKKKKKLI 11 Unmodified _PKKKKKKKKLI_ 0 0 0 REV__ENST00000368679.8_1_10:127702855-127703017:-|nuORF REV__ENST00000368679.8_1_10:127702855-127703017:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 684.0038452148438 2 684.002857 1365.99116 NaN NaN NaN NaN NaN NaN NaN 72.941 1 72.941 72.441 73.441 0 0 0 0 1.0073 1 35496 35496 1.1933 0.88631 1 + 24010 15690 15451 15507 27566 27566 0.32280470680552753 PKKKKKKRR 9 Unmodified _PKKKKKKRR_ 0 0 0 ENSG00000160818|ENST00000368232|GPATCH4;nc|ENSG00000160818|Q5T3I0-3|GPATCH4 ENSG00000160818|ENST00000368232|GPATCH4 ENSG00000160818|ENST00000368232|GPATCH4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 598.9273071289062 2 598.924941 1195.83533 NaN NaN NaN NaN NaN NaN NaN 65.284 1 65.284 64.784 65.784 0 0 0 0 0.8984 1 31078 31078 3.9444 0.3479 1 24011 4082 15452 15508 27567 27567 0.2452444494977044 PKKKKKPKAKP 11 Unmodified _PKKKKKPKAKP_ 0 0 0 REV__ENSG00000082516|ENST00000285873|GEMIN5 REV__ENSG00000082516|ENST00000285873|GEMIN5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 639.4403686523438 2 639.442632 1276.87071 NaN NaN NaN NaN NaN NaN NaN 68.891 1 69.145 68.645 69.645 0.25443 0 0 0 1.008 1 31558 31558 0.30703 0 1 + 24012 10618 15453 15509 27568 27568 0.24335062686918718 PKKKKKRNRRK 11 Unmodified _PKKKKKRNRRK_ 0 0 0 REV__ENSG00000087365|ENST00000322535|SF3B2 REV__ENSG00000087365|ENST00000322535|SF3B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 733.9944458007812 2 733.99696 1465.97937 NaN NaN NaN NaN NaN NaN NaN 62.832 1 62.832 62.332 63.332 0 0 0 0 1.0073 1 29479 29479 1.1933 0 1 + 24013 10670 15454 15510 27569 27569 0.265016667098962 PKKKKKRNRRK 11 Unmodified _PKKKKKRNRRK_ 0 0 0 REV__ENSG00000087365|ENST00000322535|SF3B2 REV__ENSG00000087365|ENST00000322535|SF3B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 733.7615966796875 2 733.99696 1465.97937 NaN NaN NaN NaN NaN NaN NaN 70.332 1 70.332 69.832 70.832 0 0 0 0 1.008 1 34110 34110 0.30703 0.30703 1 + 24014 10670 15454 15510 27570 27570 0.265016667098962 PKKKKPKKLKE 11 Unmodified _PKKKKPKKLKE_ 0 0 0 ENSG00000116254|ENST00000262450|CHD5 ENSG00000116254|ENST00000262450|CHD5 ENSG00000116254|ENST00000262450|CHD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 675.9891967773438 2 676.461022 1350.90749 NaN NaN NaN NaN NaN NaN NaN 12.879 1 12.879 12.379 13.379 0 0 0 0 1.008 1 5620 5620 0.30703 0 1 24015 2022 15455 15511 27571 27571 0.2460731451283209 PKKKKPPRKK 10 Unmodified _PKKKKPPRKK_ 0 0 0 NCOA6|p.V1638Kfs*30|1|0.04|ENSG00000198646|chr20:34741344-34741345|-/TT|frameshift_variant;ENSG00000198646|ENST00000359003|NCOA6 NCOA6|p.V1638Kfs*30|1|0.04|ENSG00000198646|chr20:34741344-34741345|-/TT|frameshift_variant NCOA6|p.V1638Kfs*30|1|0.04|ENSG00000198646|chr20:34741344-34741345|-/TT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 617.9262084960938 2 617.927149 1233.83975 NaN NaN NaN NaN NaN NaN NaN 78.416 1 78.88 78.38 79.38 0.4642 0 0 0 1.0015 1 38127 38127 0.40072 0 1 24016 5909 15456 15512 27572 27572 0.23217909372669965 PKKKKPPRKK 10 Unmodified _PKKKKPPRKK_ 0 0 0 NCOA6|p.V1638Kfs*30|1|0.04|ENSG00000198646|chr20:34741344-34741345|-/TT|frameshift_variant;ENSG00000198646|ENST00000359003|NCOA6 NCOA6|p.V1638Kfs*30|1|0.04|ENSG00000198646|chr20:34741344-34741345|-/TT|frameshift_variant NCOA6|p.V1638Kfs*30|1|0.04|ENSG00000198646|chr20:34741344-34741345|-/TT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 617.989013671875 2 617.927149 1233.83975 NaN NaN NaN NaN NaN NaN NaN 92.754 1 92.841 92.341 93.341 0.086212 0 0 0 1.0015 1 48432 48432 0.40072 0 1 24017 5909 15456 15512 27573 27573 0.23217909372669965 PKKKKPPRKKK 11 Unmodified _PKKKKPPRKKK_ 0 0 0 NCOA6|p.V1638Kfs*30|1|0.04|ENSG00000198646|chr20:34741344-34741345|-/TT|frameshift_variant;ENSG00000198646|ENST00000359003|NCOA6 NCOA6|p.V1638Kfs*30|1|0.04|ENSG00000198646|chr20:34741344-34741345|-/TT|frameshift_variant NCOA6|p.V1638Kfs*30|1|0.04|ENSG00000198646|chr20:34741344-34741345|-/TT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 681.9769287109375 2 681.974631 1361.93471 NaN NaN NaN NaN NaN NaN NaN 89.781 1 89.845 89.345 90.345 0.064346 0 0 0 1.0074 1 46086 46086 1.0715 0 1 24018 5909 15457 15513 27574 27574 0.2682184284385585 PKKKKRLGRKK 11 Unmodified _PKKKKRLGRKK_ 0 0 0 REV__ENST00000379221.3_1_13:43681380-43681455:+|nuORF REV__ENST00000379221.3_1_13:43681380-43681455:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 683.9779052734375 2 683.977705 1365.94086 NaN NaN NaN NaN NaN NaN NaN 72.566 1 72.825 72.325 73.325 0.25876 0 0 0 1.008 1 33313 33313 0.30703 0 1 + 24019 15862 15458 15514 27575 27575 0.2725236107539786 PKKKLLLD 8 Unmodified _PKKKLLLD_ 0 0 0 REV__nc|ENSG00000132466|O75179-2|ANKRD17;REV__nc|ENSG00000132466|O75179-4|ANKRD17 REV__nc|ENSG00000132466|O75179-4|ANKRD17 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 477.8242492675781 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 97.343 1 97.632 97.132 98.132 0.28923 0 0 0 0.99035 1 44711 44711 2.3027 0 1 + 24020 11892;17942 15459 15515 27576 27576 0.14868398242049352 PKKKMKKKKYV 11 Unmodified _PKKKMKKKKYV_ 0 0 0 ENSG00000124772|ENST00000244751|CPNE5 ENSG00000124772|ENST00000244751|CPNE5 ENSG00000124772|ENST00000244751|CPNE5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 703.458740234375 2 703.457425 1404.9003 NaN NaN NaN NaN NaN NaN NaN 72.45 1 72.709 72.209 73.209 0.25876 0 0 0 1.0073 1 33259 33259 1.1933 0.79263 1 24021 2378 15460 15516 27577 27577 0.21404258640745866 PKKKPKLKEKV 11 Unmodified _PKKKPKLKEKV_ 0 0 0 ENSG00000108557|ENST00000353383|RAI1;nc|ENSG00000258436|Q7Z5J4-2|RAI1 ENSG00000108557|ENST00000353383|RAI1 ENSG00000108557|ENST00000353383|RAI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 661.9490356445312 2 661.947747 1321.88094 NaN NaN NaN NaN NaN NaN NaN 107.81 1 107.85 107.35 108.35 0.045425 0 0 0 1.0073 1 58244 58244 1.1933 0.84271 1 24022 1637 15461 15517 27578 27578 0.23287625621469488 PKKKRKKTQKK 11 Unmodified _PKKKRKKTQKK_ 0 0 0 ENSG00000148296|ENST00000372022|SURF6 ENSG00000148296|ENST00000372022|SURF6 ENSG00000148296|ENST00000372022|SURF6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 699.4725952148438 2 699.474995 1396.93544 NaN NaN NaN NaN NaN NaN NaN 57.96 1 58.222 57.722 58.722 0.26227 0 0 0 1.008 1 26537 26537 0.30703 0.03801 1 24023 3596 15462 15518 27579 27579 0.25284637492927686 PKKKRKMM 8 Unmodified _PKKKRKMM_ 0 0 0 ENST00000409672.5_2_2:167163577-167168274:-|nuORF ENST00000409672.5_2_2:167163577-167168274:-|nuORF ENST00000409672.5_2_2:167163577-167168274:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.821044921875 2 523.819907 1045.62526 3.5139 0.0018407 -0.31552 -0.00016527 3.1984 0.0016754 523.8196570576868 92.857 0.58342 93.504 93.018 93.601 0.64715 45 32 2 0 0 0 0.7471 2 42578 42578;42638 0.69038 0 1 314520 24024 7663 15463 15519 27580;27581 27580 0.1042732296093618 PKKKRKVL 8 Unmodified _PKKKRKVL_ 0 0 0 REV__ENST00000513986.1_1_5:124082147-124082243:-|nuORF REV__ENST00000513986.1_1_5:124082147-124082243:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.716796875 2 498.855661 995.69677 NaN NaN NaN NaN NaN NaN NaN 68.275 1 68.977 68.477 69.477 0.70218 0 0 0 0.99035 1 32545 32545 2.3027 0 1 + 24025 16998 15464 15520 27582 27582 0.19874901981449966 PKKKTKKR 8 Unmodified _PKKKTKKR_ 0 0 0 nc|ENSG00000110844|Q6NWY9-2|PRPF40B;nc|ENSG00000110844|Q6NWY9-3|PRPF40B;nc|ENSG00000110844|Q6NWY9|PRPF40B;ENSG00000110844|ENST00000548825|PRPF40B;ENST00000551269.1_1_12:50037394-50037556:+|nuORF nc|ENSG00000110844|Q6NWY9-2|PRPF40B nc|ENSG00000110844|Q6NWY9-2|PRPF40B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.8797607421875 2 507.350743 1012.68693 NaN NaN NaN NaN NaN NaN NaN 91.403 1 91.478 90.978 91.978 0.075279 0 0 0 0.99035 1 47360 47360 2.3027 0 1 24026 1732 15465 15521 27583 27583 0.18109713976070907 PKKKTKKRRHK 11 Unmodified _PKKKTKKRRHK_ 0 0 0 nc|ENSG00000110844|Q6NWY9-2|PRPF40B;nc|ENSG00000110844|Q6NWY9-3|PRPF40B;nc|ENSG00000110844|Q6NWY9|PRPF40B;ENSG00000110844|ENST00000548825|PRPF40B;ENST00000551269.1_1_12:50037394-50037556:+|nuORF nc|ENSG00000110844|Q6NWY9-2|PRPF40B nc|ENSG00000110844|Q6NWY9-2|PRPF40B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 717.9768676757812 2 717.978236 1433.94192 NaN NaN NaN NaN NaN NaN NaN 85.11 1 85.11 84.61 85.61 0 0 0 0 1.008 1 43242 43242 0.30703 0 1 24027 1732 15466 15522 27584 27584 0.2423057544428957 PKKKTKKRRHK 11 Unmodified _PKKKTKKRRHK_ 0 0 0 nc|ENSG00000110844|Q6NWY9-2|PRPF40B;nc|ENSG00000110844|Q6NWY9-3|PRPF40B;nc|ENSG00000110844|Q6NWY9|PRPF40B;ENSG00000110844|ENST00000548825|PRPF40B;ENST00000551269.1_1_12:50037394-50037556:+|nuORF nc|ENSG00000110844|Q6NWY9-2|PRPF40B nc|ENSG00000110844|Q6NWY9-2|PRPF40B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 717.8724365234375 2 717.978236 1433.94192 NaN NaN NaN NaN NaN NaN NaN 85.615 1 85.644 85.144 86.144 0.028603 0 0 0 1.008 1 42895 42895 0.30703 0 1 24028 1732 15466 15522 27585 27585 0.2423057544428957 PKKKTKVLK 9 Unmodified _PKKKTKVLK_ 0 0 0 nc|ENSG00000181090|Q9H9B1-3|EHMT1;ENSG00000181090|ENST00000460843|EHMT1;nc|ENSG00000181090|Q9H9B1-4|EHMT1;ENST00000371394.6_1_9:140611085-140686569:+|nuORF nc|ENSG00000181090|Q9H9B1-3|EHMT1 nc|ENSG00000181090|Q9H9B1-3|EHMT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 535.063232421875 2 535.376426 1068.7383 NaN NaN NaN NaN NaN NaN NaN 67.943 1 68.645 68.145 69.145 0.70218 0 0 0 0.90699 1 32355 32355 1.8442 0 1 24029 5281 15467 15523 27586 27586 0.20668037950122198 PKKLALLKAP 10 Unmodified _PKKLALLKAP_ 0 0 0 ENST00000588858.5_1_19:13886394-13889009:+|nuORF;ENSG00000104979|ENST00000588234|C19orf53 ENST00000588858.5_1_19:13886394-13889009:+|nuORF ENST00000588858.5_1_19:13886394-13889009:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1080.07763671875 1 1078.73468 1077.7274 3.6097 0.0038939 2.4948 0.0026913 6.1046 0.0065852 1079.7411070970848 45.007 0.12964 45.657 45.62 45.75 0.64998 5 4 2 0 0 0 0.93534 1 20612 20612 1.8442 0 1 966030 24030 1465 15468 15524 27587 27587 0.19164635575839384 PKKLELLA 8 Unmodified _PKKLELLA_ 0 0 0 REV__nc|ENSG00000150687|O95084-2|PRSS23 REV__nc|ENSG00000150687|O95084-2|PRSS23 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 304.537109375 3 304.535661 910.585153 NaN NaN NaN NaN NaN NaN NaN 35.154 1 35.154 34.654 35.654 0 0 0 0 0.99035 1 15945 15945 0.40072 0 1 + 24031 12591 15469 15525 27588 27588 0.1262842283366581 PKKLELLA 8 Unmodified _PKKLELLA_ 0 0 0 REV__nc|ENSG00000150687|O95084-2|PRSS23 REV__nc|ENSG00000150687|O95084-2|PRSS23 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.537109375 3 304.535661 910.585153 NaN NaN NaN NaN NaN NaN NaN 38.215 1 39.011 38.511 39.511 0.79552 0 0 0 0.99035 1 17310 17310 0.40072 0 1 + 24032 12591 15469 15525 27589 27589 0.1262842283366581 PKKLELLA 8 Unmodified _PKKLELLA_ 0 0 0 REV__nc|ENSG00000150687|O95084-2|PRSS23 REV__nc|ENSG00000150687|O95084-2|PRSS23 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.5372314453125 3 304.535661 910.585153 NaN NaN NaN NaN NaN NaN NaN 38.696 1 39.494 38.994 39.994 0.79762 0 0 0 0.99035 1 17529 17529 0.40072 0 1 + 24033 12591 15469 15525 27590 27590 0.1262842283366581 PKKLELLA 8 Unmodified _PKKLELLA_ 0 0 0 REV__nc|ENSG00000150687|O95084-2|PRSS23 REV__nc|ENSG00000150687|O95084-2|PRSS23 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.5369567871094 3 304.535661 910.585153 NaN NaN NaN NaN NaN NaN NaN 18.596 1 18.894 18.394 19.394 0.29753 0 0 0 0.99035 1 8435 8435 0.40072 0 1 + 24034 12591 15469 15525 27591 27591 0.1262842283366581 PKKLELLA 8 Unmodified _PKKLELLA_ 0 0 0 REV__nc|ENSG00000150687|O95084-2|PRSS23 REV__nc|ENSG00000150687|O95084-2|PRSS23 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.5376281738281 3 304.535661 910.585153 NaN NaN NaN NaN NaN NaN NaN 18.61 1 18.907 18.407 19.407 0.29753 0 0 0 0.99035 1 8441 8441 0.40072 0 1 + 24035 12591 15469 15525 27592 27592 0.1262842283366581 PKKLHSMK 8 Unmodified _PKKLHSMK_ 0 0 0 REV__ENSG00000147082|ENST00000376042|CCNB3 REV__ENSG00000147082|ENST00000376042|CCNB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.790771484375 2 484.78913 967.563706 NaN NaN NaN NaN NaN NaN NaN 63.681 1 63.681 63.181 64.181 0 0 0 0 0.92256 1 30003 30003 10.824 2.2306 1 + 24036 12493 15470 15526 27593 27593 0.07862714533291637 PKKLHWIGPHL 11 Unmodified _PKKLHWIGPHL_ 0 0 0 ENST00000312413.10_1_1:11893988-11894412:+|nuORF ENST00000312413.10_1_1:11893988-11894412:+|nuORF ENST00000312413.10_1_1:11893988-11894412:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 442.6005554199219 3 442.599547 1324.77681 2.7409 0.0012131 -0.14057 -6.2214E-05 2.6003 0.0011509 442.59944689783043 45.867 0.42305 46.693 46.517 46.94 0.82621 28 21 2 0 0 0 0.88721 1 20861 20861 1.2148 0.65166 1 1008500 24037 6881 15471 15527 27594 27594 0.12741343584639253 PKKLKKPIK 9 Unmodified _PKKLKKPIK_ 0 0 0 REV__ENST00000289081.7_1_9:98011544-98079973:-|nuORF REV__ENST00000289081.7_1_9:98011544-98079973:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.3865966796875 2 540.386794 1078.75904 NaN NaN NaN NaN NaN NaN NaN 97.878 1 98.167 97.667 98.667 0.28923 0 0 0 0.90699 1 45004 45004 1.8442 0 1 + 24038 15120 15472 15528 27595 27595 0.22280628329781393 PKKLKKPIRGK 11 Unmodified _PKKLKKPIRGK_ 0 0 0 ENST00000289081.7_1_9:98011544-98079973:-|nuORF ENST00000289081.7_1_9:98011544-98079973:-|nuORF ENST00000289081.7_1_9:98011544-98079973:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 647.1177978515625 2 646.948082 1291.88161 NaN NaN NaN NaN NaN NaN NaN 64.966 1 65.674 65.174 66.174 0.70891 0 0 0 1.0073 1 30642 30642 1.1933 0 1 24039 6729 15473 15529 27596 27596 0.24734465061192168 PKKLRHLLL 9 Unmodified _PKKLRHLLL_ 0 0 0 ENST00000201979.2_1_20:30064033-30064156:+|nuORF ENST00000201979.2_1_20:30064033-30064156:+|nuORF ENST00000201979.2_1_20:30064033-30064156:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.2162475585938 2 559.382043 1116.74953 NaN NaN NaN NaN NaN NaN NaN 76.758 1 77.382 76.882 77.882 0.62397 0 0 0 0.90699 1 37213 37213 1.8442 0.19162 1 24040 6388 15474 15530 27597 27597 0.19582860044260997 PKKLRHLLL 9 Unmodified _PKKLRHLLL_ 0 0 0 ENST00000201979.2_1_20:30064033-30064156:+|nuORF ENST00000201979.2_1_20:30064033-30064156:+|nuORF ENST00000201979.2_1_20:30064033-30064156:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.0321044921875 2 559.382043 1116.74953 NaN NaN NaN NaN NaN NaN NaN 90.689 1 91.362 90.862 91.862 0.67271 0 0 0 0.90611 1 41740 41740 2.0598 1.2661 1 24041 6388 15474 15530 27598 27598 0.19582860044260997 PKKLRRRRRR 10 Unmodified _PKKLRRRRRR_ 0 0 0 REV__ENST00000367265.7_1_1:202777435-202777672:-|nuORF REV__ENST00000367265.7_1_1:202777435-202777672:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 711.1580810546875 2 711.479269 1420.94398 NaN NaN NaN NaN NaN NaN NaN 97.671 1 98.27 97.77 98.77 0.59885 0 0 0 1.0015 1 44919 44919 0.40072 0.050084 1 + 24042 15653 15475 15531 27599 27599 0.25035048972745244 PKKLRRRRRRA 11 Unmodified _PKKLRRRRRRA_ 0 0 0 REV__ENST00000367265.7_1_1:202777435-202777672:-|nuORF REV__ENST00000367265.7_1_1:202777435-202777672:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 746.9967041015625 2 746.997826 1491.9811 NaN NaN NaN NaN NaN NaN NaN 57.308 1 57.977 57.477 58.477 0.66829 0 0 0 1.0082 1 26224 26224 0 0 1 + 24043 15653 15476 15532 27600 27600 0.25478720518526643 PKKLRRRRRRA 11 Unmodified _PKKLRRRRRRA_ 0 0 0 REV__ENST00000367265.7_1_1:202777435-202777672:-|nuORF REV__ENST00000367265.7_1_1:202777435-202777672:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 746.9962768554688 2 746.997826 1491.9811 NaN NaN NaN NaN NaN NaN NaN 104.7 1 105.3 104.8 105.8 0.59885 0 0 0 1.0082 1 48365 48365 0 0 1 + 24044 15653 15476 15532 27601 27601 0.25478720518526643 PKKLSMGS 8 Unmodified _PKKLSMGS_ 0 0 0 REV__ENST00000367926.8_1_1:162535868-162535952:+|nuORF REV__ENST00000367926.8_1_1:162535868-162535952:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 424.23779296875 2 424.238938 846.463324 NaN NaN NaN NaN NaN NaN NaN 66.284 1 66.989 66.489 67.489 0.7047 0 0 0 0.99035 1 31412 31412 3.9444 1.3669 1 + 24045 15675 15477 15533 27602 27602 0.03395057479644947 PKKMGERFNFF 11 Unmodified _PKKMGERFNFF_ 0 0 0 nc|ENSG00000003509|Q7L592-2|NDUFAF7;ENSG00000003509|ENST00000002125|NDUFAF7 nc|ENSG00000003509|Q7L592-2|NDUFAF7 nc|ENSG00000003509|Q7L592-2|NDUFAF7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.6699523925781 3 467.576302 1399.70708 NaN NaN NaN NaN NaN NaN NaN 70.196 1 70.196 69.696 70.696 0 0 0 0 1.0061 1 34025 34025 1.1098 0.41209 1 24046 310 15478 15534 27603 27603 0.023210968537341614 PKKMGPIR 8 Unmodified _PKKMGPIR_ 0 0 0 nc|ENSG00000137261|Q5VV43-4|KIAA0319;nc|ENSG00000137261|Q5VV43-3|KIAA0319;nc|ENSG00000137261|Q5VV43-2|KIAA0319;ENSG00000137261|ENST00000378214|KIAA0319 nc|ENSG00000137261|Q5VV43-4|KIAA0319 nc|ENSG00000137261|Q5VV43-4|KIAA0319 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 309.5249938964844 3 309.52499 925.553142 1.89 0.00058499 -0.92876 -0.00028747 0.96121 0.00029752 309.52448434560125 33.281 0.33115 34.069 33.899 34.23 0.78795 55 21 3 0 0 0 0.7441 2 15051 15051;15106 1.4819 0 1 1656800 24047 3007 15479 15535 27604;27605 27604 0.08738731878861472 PKKMGPIR 8 Unmodified _PKKMGPIR_ 0 0 0 nc|ENSG00000137261|Q5VV43-4|KIAA0319;nc|ENSG00000137261|Q5VV43-3|KIAA0319;nc|ENSG00000137261|Q5VV43-2|KIAA0319;ENSG00000137261|ENST00000378214|KIAA0319 nc|ENSG00000137261|Q5VV43-4|KIAA0319 nc|ENSG00000137261|Q5VV43-4|KIAA0319 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 309.525146484375 3 309.52499 925.553142 1.9852 0.00061447 -0.54207 -0.00016778 1.4431 0.00044669 309.5245190492145 33.546 0.39046 34.166 33.914 34.304 0.62031 38 14 4 0 0 0 0.7441 1 15372 15372 1.4819 0.15237 1 2199200 24048 3007 15479 15535 27606 27606 0.08738731878861472 PKKMIYLV 8 Unmodified _PKKMIYLV_ 0 0 0 REV__ENST00000366554.2_1_1:241757348-241757720:-|nuORF REV__ENST00000366554.2_1_1:241757348-241757720:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.3055114746094 2 496.304081 990.59361 3.3955 0.0016852 0.056879 2.8229E-05 3.4524 0.0017134 496.3039386040537 91.908 0.37059 92.57 92.404 92.774 0.66198 41 17 3 0 0 0 0.7441 1 42306 42306 2.3027 1.5091 1 874120 + 24049 15639 15480 15536 27607 27607 0.09793653478629949 PKKMPLYFCYR 11 Unmodified _PKKMPLYFCYR_ 0 0 0 ENST00000428865.2_1_6:74405150-74405246:-|nuORF ENST00000428865.2_1_6:74405150-74405246:-|nuORF ENST00000428865.2_1_6:74405150-74405246:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 482.6934509277344 3 482.585921 1444.73593 NaN NaN NaN NaN NaN NaN NaN 68.855 1 68.855 68.355 69.355 0 0 0 0 1.0074 1 33183 33183 1.1098 0 1 24050 7830 15481 15537 27608 27608 0.03135498158508199 PKKMREGR 8 Unmodified _PKKMREGR_ 0 0 0 REV__ENST00000361539.4_1_1:177140832-177199038:+|nuORF REV__ENST00000361539.4_1_1:177140832-177199038:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.2587890625 2 501.287285 1000.56002 NaN NaN NaN NaN NaN NaN NaN 76.631 1 76.886 76.386 77.386 0.25533 0 0 0 0.99035 1 35286 35286 4.756 2.1785 1 + 24051 15625 15482 15538 27609 27609 0.059760447594499055 PKKMSHMAEMM 11 Unmodified _PKKMSHMAEMM_ 0 0 0 ENSG00000132823|ENST00000255174|OSER1 ENSG00000132823|ENST00000255174|OSER1 ENSG00000132823|ENST00000255174|OSER1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 440.8687438964844 3 440.869223 1319.58584 NaN NaN NaN NaN NaN NaN NaN 73.729 1 74.393 73.893 74.893 0.6644 0 0 0 1.0061 1 33905 33905 1.1098 0 1 24052 2727 15483 15539 27610 27610 -0.061169331671408145 PKKNFLNLGIR 11 Unmodified _PKKNFLNLGIR_ 0 0 0 REV__ENSG00000124313|ENST00000642864|IQSEC2 REV__ENSG00000124313|ENST00000642864|IQSEC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 650.3982543945312 2 650.398422 1298.78229 NaN NaN NaN NaN NaN NaN NaN 89.245 1 89.923 89.423 90.423 0.67818 0 0 0 1.0073 1 41092 41092 1.1933 0 1 + 24053 11651 15484 15540 27611 27611 0.1448502237642515 PKKNKHKKR 9 Unmodified _PKKNKHKKR_ 0 0 0 ENST00000447672.1_1_9:75356163-75356322:-|nuORF ENST00000447672.1_1_9:75356163-75356322:-|nuORF ENST00000447672.1_1_9:75356163-75356322:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 582.3800659179688 2 582.377823 1162.74109 NaN NaN NaN NaN NaN NaN NaN 14.542 1 14.542 14.042 15.042 0 0 0 0 0.90699 1 6407 6407 1.8442 0 1 24054 7987 15485 15541 27612 27612 0.16623306127644355 PKKPFKLC 8 Unmodified _PKKPFKLC_ 0 0 0 REV__nc|ENSG00000285657|P0DV76|FAM90A19 REV__nc|ENSG00000285657|P0DV76|FAM90A19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.79742431640625 2 480.788598 959.562644 NaN NaN NaN NaN NaN NaN NaN 65.012 1 65.721 65.221 66.221 0.70891 0 0 0 0.9101 1 30676 30676 11.64 4.3511 1 + 24055 18167 15486 15542 27613 27613 0.08124500164387882 PKKPIPKKK 9 Unmodified _PKKPIPKKK_ 0 0 0 REV__ENSG00000169550|ENST00000529533|MUC15 REV__ENSG00000169550|ENST00000529533|MUC15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 532.3699951171875 2 532.371144 1062.72774 NaN NaN NaN NaN NaN NaN NaN 97.702 1 97.773 97.273 98.273 0.070648 0 0 0 0.91238 1 52322 52322 0.52476 0 1 + 24056 13393 15487 15543 27614 27614 0.19888055295677987 PKKPIRKKRRE 11 Unmodified _PKKPIRKKRRE_ 0 0 0 REV__ENST00000562687.6_3_16:32769598-32772029:+|nuORF REV__ENST00000562687.6_3_16:32769598-32772029:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 718.467041015625 2 718.470244 1434.92593 NaN NaN NaN NaN NaN NaN NaN 61.324 1 62.063 61.563 62.563 0.7396 0 0 0 1.0073 1 28418 28418 1.1933 0.88631 1 + 24057 17384 15488 15544 27615 27615 0.2258686920740729 PKKPKRKKRR 10 Unmodified _PKKPKRKKRR_ 0 0 0 ENST00000590548.5_1_19:11597897-11616622:-|nuORF;ENSG00000161914|ENST00000293771|ZNF653 ENST00000590548.5_1_19:11597897-11616622:-|nuORF ENST00000590548.5_1_19:11597897-11616622:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 661.2713623046875 2 661.454397 1320.89424 NaN NaN NaN NaN NaN NaN NaN 87.397 1 87.397 86.897 87.897 0 0 0 0 1.0019 1 45060 45060 0.40072 0.093686 1 24058 4108 15489 15545 27616 27616 0.24662921244112113 PKKPPLLI 8 Unmodified _PKKPPLLI_ 0 0 0 REV__nc|ENSG00000112041|O00294-2|TULP1 REV__nc|ENSG00000112041|O00294-2|TULP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 453.1136474609375 2 453.312764 904.610974 NaN NaN NaN NaN NaN NaN NaN 62.393 1 63.123 62.623 63.623 0.73077 0 0 0 0.99035 1 29078 29078 2.3027 0 1 + 24059 11258 15490 15546 27617 27617 0.15485317075945204 PKKPPLLIKEK 11 Unmodified _PKKPPLLIKEK_ 0 0 0 REV__nc|ENSG00000112041|O00294-2|TULP1 REV__nc|ENSG00000112041|O00294-2|TULP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 645.7638549804688 2 645.929023 1289.84349 NaN NaN NaN NaN NaN NaN NaN 106.15 1 106.75 106.25 107.25 0.59969 0 0 0 1.0073 1 49014 49014 1.1933 0.66858 1 + 24060 11258 15491 15547 27618 27618 0.2101653435586286 PKKPPLTL 8 Unmodified _PKKPPLTL_ 0 0 0 REV__nc|nan|Q6P1W5-2|C1orf94 REV__nc|nan|Q6P1W5-2|C1orf94 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 447.2940368652344 2 447.294571 892.574589 NaN NaN NaN NaN NaN NaN NaN 72.301 1 73.005 72.505 73.505 0.70386 0 0 0 0.967 1 34796 34796 7.9102 1.7044 1 + 24061 12343 15492 15548 27619 27619 0.12400440179214911 PKKPVIRL 8 Unmodified _PKKPVIRL_ 0 0 0 REV__nc|ENSG00000180263|Q6ZV73-2|FGD6 REV__nc|ENSG00000180263|Q6ZV73-2|FGD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.8302307128906 2 475.829112 949.643671 NaN NaN NaN NaN NaN NaN NaN 78.638 1 78.889 78.389 79.389 0.25127 0 0 0 0.99035 1 36211 36211 2.3027 0 1 + 24062 13820 15493 15549 27620 27620 0.1668352419879966 PKKPVVRKKK 10 Unmodified _PKKPVVRKKK_ 0 0 0 REV__nc|ENSG00000135506|Q13438-8|OS9 REV__nc|ENSG00000135506|Q13438-8|OS9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.3326416015625 2 604.4217 1206.82885 NaN NaN NaN NaN NaN NaN NaN 84.44 1 84.44 83.94 84.94 0 0 0 0 1.0015 1 42751 42751 0.40072 0.050084 1 + 24063 12022 15494 15550 27621 27621 0.23370506998389828 PKKPYKKK 8 Unmodified _PKKPYKKK_ 0 0 0 REV__ENSG00000135999|ENST00000258484|EPC2 REV__ENSG00000135999|ENST00000258484|EPC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.9926452636719 2 508.834394 1015.65424 NaN NaN NaN NaN NaN NaN NaN 71.159 1 71.863 71.363 72.363 0.70386 0 0 0 0.99035 1 34162 34162 4.756 0 1 + 24064 12053 15495 15551 27622 27622 0.1470350685322046 PKKQPQRSHV 10 Unmodified _PKKQPQRSHV_ 0 0 0 REV__nc|ENSG00000117155|Q9Y2D8-2|SSX2IP REV__nc|ENSG00000117155|Q9Y2D8-2|SSX2IP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 602.8487548828125 2 602.849096 1203.68364 NaN NaN NaN NaN NaN NaN NaN 50.044 1 50.044 49.544 50.544 0 0 0 0 1.0001 1 22911 22911 1.6526 0 1 + 24065 11435 15496 15552 27623 27623 0.08994419131408904 PKKQYRRRLR 10 Unmodified _PKKQYRRRLR_ 0 0 0 CDK12|p.S1017Ffs*5|1|0.07|ENSG00000167258|chr17:39520040-39520041|-/TTCTCAAATTTGTA|frameshift_variant;CDK12|p.I1188Tfs*27|1|0.35|ENSG00000167258|chr17:39526119-39526119|T/-|frameshift_variant;nc|ENSG00000167258|Q9NYV4-3|CDK12;nc|ENSG00000167258|Q9NYV4-2|CDK12;ENSG00000167258|ENST00000447079|CDK12 CDK12|p.S1017Ffs*5|1|0.07|ENSG00000167258|chr17:39520040-39520041|-/TTCTCAAATTTGTA|frameshift_variant CDK12|p.S1017Ffs*5|1|0.07|ENSG00000167258|chr17:39520040-39520041|-/TTCTCAAATTTGTA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.4642333984375 3 467.628499 1399.86367 NaN NaN NaN NaN NaN NaN NaN 64.041 1 64.041 63.541 64.541 0 0 0 0 1.0003 1 30247 30247 0.62683 0.17231 1 24066 111 15497 15553 27624 27624 0.17973142859045765 PKKRKEKRS 9 Unmodified _PKKRKEKRS_ 0 0 0 REV__ENST00000587110.1_1_17:41796950-41797316:-|nuORF REV__ENST00000587110.1_1_17:41796950-41797316:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 579.0287475585938 2 578.867289 1155.72002 NaN NaN NaN NaN NaN NaN NaN 80.991 1 81.239 80.739 81.739 0.24803 0 0 0 0.90699 1 37290 37290 1.8442 0 1 + 24067 17549 15498 15554 27625 27625 0.1483929602813987 PKKRKKHVP 9 Unmodified _PKKRKKHVP_ 0 0 0 nc|ENSG00000116396|Q03721-2|KCNC4;ENST00000489935.1_1_1:110754121-110766653:+|nuORF;ENSG00000116396|ENST00000438661|KCNC4;nc|ENSG00000116396|Q03721|KCNC4 nc|ENSG00000116396|Q03721-2|KCNC4 nc|ENSG00000116396|Q03721-2|KCNC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.3697509765625 2 559.369467 1116.72438 NaN NaN NaN NaN NaN NaN NaN 92.79 1 93.042 92.542 93.542 0.25253 0 0 0 0.91238 1 42651 42651 0.52476 0 1 24068 2027 15499 15555 27626 27626 0.17068805241706286 PKKRKKHVP 9 Unmodified _PKKRKKHVP_ 0 0 0 nc|ENSG00000116396|Q03721-2|KCNC4;ENST00000489935.1_1_1:110754121-110766653:+|nuORF;ENSG00000116396|ENST00000438661|KCNC4;nc|ENSG00000116396|Q03721|KCNC4 nc|ENSG00000116396|Q03721-2|KCNC4 nc|ENSG00000116396|Q03721-2|KCNC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.3707275390625 2 559.369467 1116.72438 NaN NaN NaN NaN NaN NaN NaN 93.679 1 93.934 93.434 94.434 0.25497 0 0 0 0.91238 1 43055 43055 0.52476 0 1 24069 2027 15499 15555 27627 27627 0.17068805241706286 PKKRKKHVP 9 Unmodified _PKKRKKHVP_ 0 0 0 nc|ENSG00000116396|Q03721-2|KCNC4;ENST00000489935.1_1_1:110754121-110766653:+|nuORF;ENSG00000116396|ENST00000438661|KCNC4;nc|ENSG00000116396|Q03721|KCNC4 nc|ENSG00000116396|Q03721-2|KCNC4 nc|ENSG00000116396|Q03721-2|KCNC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.3706665039062 2 559.369467 1116.72438 NaN NaN NaN NaN NaN NaN NaN 95.144 1 95.412 94.912 95.912 0.2675 0 0 0 0.91238 1 43718 43718 0.52476 0 1 24070 2027 15499 15555 27628 27628 0.17068805241706286 PKKRKKHVP 9 Unmodified _PKKRKKHVP_ 0 0 0 nc|ENSG00000116396|Q03721-2|KCNC4;ENST00000489935.1_1_1:110754121-110766653:+|nuORF;ENSG00000116396|ENST00000438661|KCNC4;nc|ENSG00000116396|Q03721|KCNC4 nc|ENSG00000116396|Q03721-2|KCNC4 nc|ENSG00000116396|Q03721-2|KCNC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.084228515625 2 559.369467 1116.72438 NaN NaN NaN NaN NaN NaN NaN 96.56 1 97.161 96.661 97.661 0.6019 0 0 0 0.8984 1 44396 44396 3.9444 0.66309 1 24071 2027 15499 15555 27629 27629 0.17068805241706286 PKKRKKHVPR 10 Unmodified _PKKRKKHVPR_ 0 0 0 nc|ENSG00000116396|Q03721-2|KCNC4;ENST00000489935.1_1_1:110754121-110766653:+|nuORF;ENSG00000116396|ENST00000438661|KCNC4;nc|ENSG00000116396|Q03721|KCNC4 nc|ENSG00000116396|Q03721-2|KCNC4 nc|ENSG00000116396|Q03721-2|KCNC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 637.4173583984375 2 637.420023 1272.82549 NaN NaN NaN NaN NaN NaN NaN 28.189 1 28.975 28.475 29.475 0.78627 0 0 0 1.0015 1 12690 12690 0.40072 0.050084 1 24072 2027 15500 15556 27630 27630 0.19999256944402077 PKKRKKRPFA 10 Unmodified _PKKRKKRPFA_ 0 0 0 REV__nc|ENSG00000186376|P51815-2|ZNF75D REV__nc|ENSG00000186376|P51815-2|ZNF75D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 628.4072265625 2 628.409124 1254.80369 NaN NaN NaN NaN NaN NaN NaN 16.138 1 16.349 15.849 16.849 0.21108 0 0 0 1.0015 1 7125 7125 0.40072 0 1 + 24073 14053 15501 15557 27631 27631 0.18648452195839127 PKKRLLKPTR 10 Unmodified _PKKRLLKPTR_ 0 0 0 REV__chr2:44313951-44316622|118|41.32|0.65|6.0|+|2|TE_info:HAL1ME,HAL1ME_dup716,L1,LINE,acceptor,+,44316622,44316901|SLC3A1,None|2 REV__chr2:44313951-44316622|118|41.32|0.65|6.0|+|2|TE_info:HAL1ME,HAL1ME_dup716,L1,LINE,acceptor,+,44316622,44316901|SLC3A1,None|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 618.9195556640625 2 618.916781 1235.81901 NaN NaN NaN NaN NaN NaN NaN 48.915 1 49.742 49.242 50.242 0.82705 0 0 0 1.0015 1 22285 22285 0.40072 0 1 + 24074 10040 15502 15558 27632 27632 0.21053318993040193 PKKRRIKPK 9 Unmodified _PKKRRIKPK_ 0 0 0 REV__nc|ENSG00000137413|Q7Z7C8-2|TAF8 REV__nc|ENSG00000137413|Q7Z7C8-2|TAF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.8994750976562 2 575.898392 1149.78223 NaN NaN NaN NaN NaN NaN NaN 109.54 1 110.14 109.64 110.64 0.60264 0 0 0 0.91238 1 50517 50517 0.52476 0 1 + 24075 17955 15503 15559 27633 27633 0.21333067167120134 PKKRRIKPKK 10 Unmodified _PKKRRIKPKK_ 0 0 0 REV__nc|ENSG00000137413|Q7Z7C8-2|TAF8 REV__nc|ENSG00000137413|Q7Z7C8-2|TAF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 639.9869995117188 2 639.945873 1277.87719 NaN NaN NaN NaN NaN NaN NaN 87.998 1 88.038 87.538 88.538 0.039955 0 0 0 1.0003 1 44714 44714 1.4819 0.15237 1 + 24076 17955 15504 15560 27634 27634 0.2493700063828328 PKKRRIKPKKV 11 Unmodified _PKKRRIKPKKV_ 0 0 0 REV__nc|ENSG00000137413|Q7Z7C8-2|TAF8 REV__nc|ENSG00000137413|Q7Z7C8-2|TAF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 689.4791870117188 2 689.48008 1376.94561 NaN NaN NaN NaN NaN NaN NaN 72.763 1 73.427 72.927 73.927 0.66398 0 0 0 1.0073 1 33405 33405 1.1933 0 1 + 24077 17955 15505 15561 27635 27635 0.272212452181293 PKKRRKKKVR 10 Unmodified _PKKRRKKKVR_ 0 0 0 ENSG00000146278|ENST00000336032|PNRC1 ENSG00000146278|ENST00000336032|PNRC1 ENSG00000146278|ENST00000336032|PNRC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 662.4628295898438 2 662.462222 1322.90989 NaN NaN NaN NaN NaN NaN NaN 64.947 1 65.656 65.156 66.156 0.70891 0 0 0 0.99812 1 30629 30629 3.2813 0.28607 1 24078 3509 15506 15562 27636 27636 0.26135207761149104 PKKRRSICFDR 11 Unmodified _PKKRRSICFDR_ 0 0 0 ENST00000471323.1_1_19:36503918-36503972:-|nuORF;ENST00000490483.5_3_19:36501916-36503966:-|nuORF;ENST00000378875.7_1_19:36501824-36503972:-|nuORF ENST00000471323.1_1_19:36503918-36503972:-|nuORF ENST00000471323.1_1_19:36503918-36503972:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 703.3952026367188 2 703.395887 1404.77722 NaN NaN NaN NaN NaN NaN NaN 62.49 1 62.49 61.99 62.99 0 0 0 0 1.0063 1 29290 29290 2.4985 0.41248 1 24079 7439 15507 15563 27637 27637 0.09102395242189232 PKKSADDFI 9 Unmodified _PKKSADDFI_ 0 0 0 ENSG00000061676|ENST00000361354|NCKAP1;nc|ENSG00000061676|Q9Y2A7-2|NCKAP1 ENSG00000061676|ENST00000361354|NCKAP1 ENSG00000061676|ENST00000361354|NCKAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 340.8504333496094 3 340.850197 1019.52876 2.1928 0.00074742 -0.1816 -6.1897E-05 2.0112 0.00068552 340.8500689490166 17.039 0.18081 17.239 17.138 17.319 0.20057 34 20 2 0 0 0 0.94779 1 7517 7517 4.897 0.56777 1 201880 24080 648 15508 15564 27638 27638 0.01977750206322071 PKKSELPIFTG 11 Unmodified _PKKSELPIFTG_ 0 0 0 REV__nc|ENSG00000064651|P55011-3|SLC12A2 REV__nc|ENSG00000064651|P55011-3|SLC12A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 608.851806640625 2 608.850438 1215.68632 NaN NaN NaN NaN NaN NaN NaN 87.906 1 88.157 87.657 88.657 0.25064 0 0 0 1.0061 1 40453 40453 2.7352 0.64919 1 + 24081 10414 15509 15565 27639 27639 0.08710829745700721 PKKSIKKLVLK 11 Unmodified _PKKSIKKLVLK_ 0 0 0 nc|ENSG00000110713|P52948-6|NUP98;ENSG00000110713|ENST00000324932|NUP98;nc|ENSG00000110713|P52948|NUP98;nc|ENSG00000110713|P52948-2|NUP98;nc|ENSG00000110713|P52948-4|NUP98;nc|ENSG00000110713|P52948-3|NUP98 nc|ENSG00000110713|P52948-6|NUP98 nc|ENSG00000110713|P52948-6|NUP98 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 427.96917724609375 3 427.970869 1280.89078 NaN NaN NaN NaN NaN NaN NaN 63.633 1 64.355 63.855 64.855 0.72236 0 0 0 1.0074 1 29833 29833 0.36667 0.22678 1 24082 1726 15510 15566 27640 27640 0.2615681362688065 PKKSILKKRI 10 Unmodified _PKKSILKKRI_ 0 0 0 ENSG00000171467|ENST00000361428|ZNF318;ZNF318|p.P1493Sfs*2|1|0.15|ENSG00000171467|chr6:43339522-43339523|-/C|frameshift_variant;nc|ENSG00000171467|Q5VUA4-2|ZNF318 ENSG00000171467|ENST00000361428|ZNF318 ENSG00000171467|ENST00000361428|ZNF318 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 605.9555053710938 2 605.921532 1209.82851 NaN NaN NaN NaN NaN NaN NaN 65.123 1 65.832 65.332 66.332 0.70891 0 0 0 0.9962 1 30748 30748 4.897 1.9018 1 24083 4805 15511 15567 27641 27641 0.2319908727854454 PKKSLLKQL 9 Unmodified _PKKSLLKQL_ 0 0 0 REV__nc|ENSG00000055332|P19525-2|EIF2AK2 REV__nc|ENSG00000055332|P19525-2|EIF2AK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.2388610839844 3 352.237615 1053.69102 2.592 0.000913 -0.044923 -1.5823E-05 2.5471 0.00089718 352.237650271492 19.168 0.21987 19.826 19.728 19.948 0.6583 26 17 2 0 0 0 0.59921 1 8718 8718 10.8 0 1 200400 + 24084 10370 15512 15568 27642 27642 0.1663175867913651 PKKSLLKQL 9 Unmodified _PKKSLLKQL_ 0 0 0 REV__nc|ENSG00000055332|P19525-2|EIF2AK2 REV__nc|ENSG00000055332|P19525-2|EIF2AK2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 352.237615 1053.69102 2.592 0.000913 -0.044923 -1.5823E-05 2.5471 0.00089718 352.237650271492 19.168 0.21987 19.826 19.728 19.948 0.6583 -0.00017357 -0.00012995 NaN 10.8 26 17 2 NaN NaN NaN NaN 0 NaN NaN 0 200400 + 24085 10370 15512 15568 0.1663175867913651 PKKSVRRP 8 Unmodified _PKKSVRRP_ 0 0 0 AKAP12|p.R622S|1|0.2|ENSG00000131016|chr6:151350255-151350255|C/A|missense_variant AKAP12|p.R622S|1|0.2|ENSG00000131016|chr6:151350255-151350255|C/A|missense_variant AKAP12|p.R622S|1|0.2|ENSG00000131016|chr6:151350255-151350255|C/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.4239501953125 2 484.311618 966.608683 NaN NaN NaN NaN NaN NaN NaN 74.276 1 74.963 74.463 75.463 0.68662 0 0 0 0.97647 1 35895 35895 7.2892 1.5288 1 24086 20 15513 15569 27643 27643 0.12404281390843153 PKKTAKPPKE 10 Unmodified _PKKTAKPPKE_ 0 0 0 REV__ENSG00000106624|ENST00000223357|AEBP1 REV__ENSG00000106624|ENST00000223357|AEBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.583740234375 2 562.345323 1122.67609 NaN NaN NaN NaN NaN NaN NaN 58.061 1 58.061 57.561 58.561 0 0 0 0 0.99877 1 26779 26779 2.7352 0.67545 1 + 24087 11090 15514 15570 27644 27644 0.11966266811123205 PKKTIQNLYHY 11 Unmodified _PKKTIQNLYHY_ 0 0 0 REV__nc|ENSG00000066933|B2RTY4-5|MYO9A REV__nc|ENSG00000066933|B2RTY4-5|MYO9A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 468.9285583496094 3 468.925988 1403.75613 NaN NaN NaN NaN NaN NaN NaN 70.633 1 71.337 70.837 71.837 0.70386 0 0 0 1.0063 1 33859 33859 1.0136 0.50762 1 + 24088 10446 15515 15571 27645 27645 0.07040708414342589 PKKTKKKT 8 Unmodified _PKKTKKKT_ 0 0 0 nc|ENSG00000135541|Q8N157-3|AHI1;nc|ENSG00000135541|Q8N157-2|AHI1;ENSG00000135541|ENST00000265602|AHI1 nc|ENSG00000135541|Q8N157-3|AHI1 nc|ENSG00000135541|Q8N157-3|AHI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.0874938964844 2 479.824027 957.633501 NaN NaN NaN NaN NaN NaN NaN 75.801 1 76.058 75.558 76.558 0.25704 0 0 0 0.99035 1 34891 34891 2.3027 0 1 24089 2880 15516 15572 27646 27646 0.15298916473545887 PKKTKKKT 8 Unmodified _PKKTKKKT_ 0 0 0 nc|ENSG00000135541|Q8N157-3|AHI1;nc|ENSG00000135541|Q8N157-2|AHI1;ENSG00000135541|ENST00000265602|AHI1 nc|ENSG00000135541|Q8N157-3|AHI1 nc|ENSG00000135541|Q8N157-3|AHI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.2897644042969 2 479.824027 957.633501 NaN NaN NaN NaN NaN NaN NaN 88.442 1 88.693 88.193 89.193 0.25118 0 0 0 0.99035 1 40694 40694 0.69038 0 1 24090 2880 15516 15572 27647 27647 0.15298916473545887 PKKTKKKT 8 Unmodified _PKKTKKKT_ 0 0 0 nc|ENSG00000135541|Q8N157-3|AHI1;nc|ENSG00000135541|Q8N157-2|AHI1;ENSG00000135541|ENST00000265602|AHI1 nc|ENSG00000135541|Q8N157-3|AHI1 nc|ENSG00000135541|Q8N157-3|AHI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.15948486328125 2 479.824027 957.633501 NaN NaN NaN NaN NaN NaN NaN 79.971 1 80.632 80.132 81.132 0.66082 0 0 0 0.99035 1 36848 36848 0.69038 0 1 24091 2880 15516 15572 27648 27648 0.15298916473545887 PKKTKKKT 8 Unmodified _PKKTKKKT_ 0 0 0 nc|ENSG00000135541|Q8N157-3|AHI1;nc|ENSG00000135541|Q8N157-2|AHI1;ENSG00000135541|ENST00000265602|AHI1 nc|ENSG00000135541|Q8N157-3|AHI1 nc|ENSG00000135541|Q8N157-3|AHI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.0475769042969 2 479.824027 957.633501 NaN NaN NaN NaN NaN NaN NaN 81.771 1 82.431 81.931 82.931 0.65998 0 0 0 0.99035 1 37680 37680 0.69038 0 1 24092 2880 15516 15572 27649 27649 0.15298916473545887 PKKTKKKT 8 Unmodified _PKKTKKKT_ 0 0 0 nc|ENSG00000135541|Q8N157-3|AHI1;nc|ENSG00000135541|Q8N157-2|AHI1;ENSG00000135541|ENST00000265602|AHI1 nc|ENSG00000135541|Q8N157-3|AHI1 nc|ENSG00000135541|Q8N157-3|AHI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.3049011230469 2 479.824027 957.633501 NaN NaN NaN NaN NaN NaN NaN 97.276 1 97.878 97.378 98.378 0.6019 0 0 0 0.99035 1 44728 44728 0.69038 0 1 24093 2880 15516 15572 27650 27650 0.15298916473545887 PKKTKKKTKA 10 Unmodified _PKKTKKKTKA_ 0 0 0 nc|ENSG00000135541|Q8N157-3|AHI1;nc|ENSG00000135541|Q8N157-2|AHI1;ENSG00000135541|ENST00000265602|AHI1 nc|ENSG00000135541|Q8N157-3|AHI1 nc|ENSG00000135541|Q8N157-3|AHI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 579.3910522460938 2 579.390065 1156.76558 NaN NaN NaN NaN NaN NaN NaN 22.502 1 23.089 22.589 23.589 0.58739 0 0 0 1.0003 1 10010 10010 1.4819 1.0236 1 24094 2880 15517 15573 27651 27651 0.193465214905018 PKKTKKKTKAV 11 Unmodified _PKKTKKKTKAV_ 0 0 0 nc|ENSG00000135541|Q8N157-3|AHI1;nc|ENSG00000135541|Q8N157-2|AHI1;ENSG00000135541|ENST00000265602|AHI1 nc|ENSG00000135541|Q8N157-3|AHI1 nc|ENSG00000135541|Q8N157-3|AHI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 628.9265747070312 2 628.924272 1255.83399 NaN NaN NaN NaN NaN NaN NaN 90.966 1 91.629 91.129 92.129 0.66355 0 0 0 1.008 1 41866 41866 0.30703 0 1 24095 2880 15518 15574 27652 27652 0.21630766070347818 PKKTKQKQKK 10 Unmodified _PKKTKQKQKK_ 0 0 0 REV__L1PB1_dup998|chr2:34715538-34720489:-|4.098121381973527|0.252296353110605|4.02|532.0|125|3|sense REV__L1PB1_dup998|chr2:34715538-34720489:-|4.098121381973527|0.252296353110605|4.02|532.0|125|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 621.4063110351562 2 621.406247 1240.79794 NaN NaN NaN NaN NaN NaN NaN 15.484 1 15.484 14.984 15.984 0 0 0 0 1.0015 1 6844 6844 0.40072 0 1 + 24096 17809 15519 15575 27653 27653 0.1871730889349692 PKKTKWWYHED 11 Unmodified _PKKTKWWYHED_ 0 0 0 ENST00000362030.3_1_1:96884238-96884478:+|nuORF ENST00000362030.3_1_1:96884238-96884478:+|nuORF ENST00000362030.3_1_1:96884238-96884478:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.4172058105469 3 506.589376 1516.7463 NaN NaN NaN NaN NaN NaN NaN 77.183 1 77.183 76.683 77.683 0 0 0 0 1.0074 1 37842 37842 1.1098 0.65524 1 24097 7235 15520 15576 27654 27654 0.008595204089260733 PKKVEVLI 8 Unmodified _PKKVEVLI_ 0 0 0 REV__ENSG00000173705|ENST00000309558|SUSD5 REV__ENSG00000173705|ENST00000309558|SUSD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.2222900390625 2 463.307678 924.600803 NaN NaN NaN NaN NaN NaN NaN 76.601 1 76.856 76.356 77.356 0.25533 0 0 0 0.99035 1 35272 35272 2.3027 0 1 + 24098 13609 15521 15577 27655 27655 0.13548709350720856 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.83502197265625 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 13.052 1 13.052 12.552 13.552 0 0 0 0 0.99035 1 5699 5699 0.69038 0 1 + 24099 11832 15522 15578 27656 27656 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.8348693847656 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 44.777 1 44.777 44.277 45.277 0 0 0 0 0.99035 1 20473 20473 0.69038 0 1 + 24100 11832 15522 15578 27657 27657 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.8349914550781 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 45.68 1 45.68 45.18 46.18 0 0 0 0 0.99035 1 20897 20897 0.69038 0 1 + 24101 11832 15522 15578 27658 27658 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.4855651855469 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 46.237 1 46.237 45.737 46.737 0 0 0 0 0.99035 1 21159 21159 0.69038 0 1 + 24102 11832 15522 15578 27659 27659 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.8340759277344 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 76.882 1 76.882 76.382 77.382 0 0 0 0 0.99035 1 37687 37687 2.3027 0 1 + 24103 11832 15522 15578 27660 27660 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.37164306640625 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 77.133 1 77.133 76.633 77.633 0 0 0 0 0.99035 1 37813 37813 4.756 0 1 + 24104 11832 15522 15578 27661 27661 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.9378356933594 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 78.375 1 78.375 77.875 78.875 0 0 0 0 0.99035 1 38510 38510 2.3027 0 1 + 24105 11832 15522 15578 27662 27662 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.8347473144531 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 80.051 1 80.051 79.551 80.551 0 0 0 0 0.99035 1 39642 39642 2.3027 0 1 + 24106 11832 15522 15578 27663 27663 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.8350830078125 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 16.966 1 17.166 16.666 17.666 0.20057 0 0 0 0.99035 1 7507 7507 0.69038 0 1 + 24107 11832 15522 15578 27664 27664 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.8358154296875 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 50.133 1 50.956 50.456 51.456 0.82285 0 0 0 0.99035 1 22836 22836 0.69038 0 1 + 24108 11832 15522 15578 27665 27665 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.9557189941406 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 76.452 1 77.076 76.576 77.576 0.62397 0 0 0 0.99035 1 37056 37056 4.756 2.4533 1 + 24109 11832 15522 15578 27666 27666 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.722412109375 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 77.369 1 77.93 77.43 78.43 0.56091 0 0 0 0.99035 1 37526 37526 2.3027 0 1 + 24110 11832 15522 15578 27667 27667 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.83453369140625 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 78.128 1 78.689 78.189 79.189 0.56091 0 0 0 0.99035 1 37944 37944 2.3027 0 1 + 24111 11832 15522 15578 27668 27668 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.32037353515625 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 80.364 1 80.533 80.033 81.033 0.16862 0 0 0 0.99035 1 39373 39373 2.3027 0 1 + 24112 11832 15522 15578 27669 27669 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.8343811035156 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 107.67 1 107.71 107.21 108.21 0.045425 0 0 0 0.99035 1 58188 58188 0.69038 0 1 + 24113 11832 15522 15578 27670 27670 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.8318786621094 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 71.889 1 72.147 71.647 72.647 0.25786 0 0 0 0.99035 1 32983 32983 4.756 0 1 + 24114 11832 15522 15578 27671 27671 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.8349914550781 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 79.696 1 79.945 79.445 80.445 0.24947 0 0 0 0.99035 1 36697 36697 2.3027 0 1 + 24115 11832 15522 15578 27672 27672 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.8350524902344 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 82.108 1 82.356 81.856 82.856 0.24722 0 0 0 0.99035 1 37794 37794 2.3027 0 1 + 24116 11832 15522 15578 27673 27673 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.83551025390625 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 85.953 1 86.201 85.701 86.701 0.24857 0 0 0 0.99035 1 39559 39559 2.3027 0 1 + 24117 11832 15522 15578 27674 27674 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.83563232421875 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 86.479 1 86.728 86.228 87.228 0.24974 0 0 0 0.99035 1 39801 39801 2.3027 0 1 + 24118 11832 15522 15578 27675 27675 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.8350524902344 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 88.502 1 88.753 88.253 89.253 0.25118 0 0 0 0.99035 1 40722 40722 0.69038 0 1 + 24119 11832 15522 15578 27676 27676 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.83648681640625 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 74.997 1 75.661 75.161 76.161 0.6644 0 0 0 0.99035 1 34540 34540 4.756 2.4533 1 + 24120 11832 15522 15578 27677 27677 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.8348083496094 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 75.569 1 76.233 75.733 76.733 0.6644 0 0 0 0.99035 1 34818 34818 2.3027 0 1 + 24121 11832 15522 15578 27678 27678 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.8350524902344 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 76.506 1 77.17 76.67 77.67 0.66387 0 0 0 0.99035 1 35245 35245 2.3027 0 1 + 24122 11832 15522 15578 27679 27679 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.83447265625 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 76.606 1 77.27 76.77 77.77 0.66387 0 0 0 0.99035 1 35294 35294 2.3027 0 1 + 24123 11832 15522 15578 27680 27680 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.83489990234375 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 78.29 1 78.952 78.452 79.452 0.66198 0 0 0 0.99035 1 36078 36078 2.3027 0 1 + 24124 11832 15522 15578 27681 27681 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.86956787109375 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 79.672 1 80.333 79.833 80.833 0.66082 0 0 0 0.99035 1 36710 36710 2.3027 0 1 + 24125 11832 15522 15578 27682 27682 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.836181640625 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 80.233 1 80.893 80.393 81.393 0.65998 0 0 0 0.99035 1 36970 36970 2.3027 0 1 + 24126 11832 15522 15578 27683 27683 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.8361511230469 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 80.779 1 81.439 80.939 81.939 0.65998 0 0 0 0.99035 1 37221 37221 2.3027 0 1 + 24127 11832 15522 15578 27684 27684 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.8348693847656 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 85.795 1 86.466 85.966 86.966 0.67061 0 0 0 0.99035 1 39507 39507 0.69038 0 1 + 24128 11832 15522 15578 27685 27685 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.83551025390625 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 87.696 1 88.374 87.874 88.874 0.67818 0 0 0 0.99035 1 40393 40393 2.3027 0 1 + 24129 11832 15522 15578 27686 27686 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.83477783203125 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 91.208 1 91.87 91.37 92.37 0.66198 0 0 0 0.99035 1 41974 41974 2.3027 0 1 + 24130 11832 15522 15578 27687 27687 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.83551025390625 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 91.75 1 92.412 91.912 92.912 0.66198 0 0 0 0.99035 1 42221 42221 2.3027 0 1 + 24131 11832 15522 15578 27688 27688 0.15458042430327623 PKKVIHIR 8 Unmodified _PKKVIHIR_ 0 0 0 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 REV__nc|ENSG00000130803|Q96PQ6-3|ZNF317 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.8362121582031 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 96.959 1 97.561 97.061 98.061 0.6019 0 0 0 0.99035 1 44577 44577 2.3027 0 1 + 24132 11832 15522 15578 27689 27689 0.15458042430327623 PKKVIKLP 8 Unmodified _PKKVIKLP_ 0 0 0 REV__nc|ENSG00000082397|Q9Y2J2-3|EPB41L3 REV__nc|ENSG00000082397|Q9Y2J2-3|EPB41L3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 461.82440185546875 2 461.826038 921.637523 NaN NaN NaN NaN NaN NaN NaN 62.535 1 62.535 62.035 63.035 0 0 0 0 0.99035 1 29314 29314 2.3027 0 1 + 24133 10616 15523 15579 27690 27690 0.17357005967267014 PKKVKGWLLP 10 Unmodified _PKKVKGWLLP_ 0 0 0 ENST00000474352.5_1_1:151337855-151338307:-|nuORF;ENST00000427977.6_1_1:151337413-151341586:-|nuORF;ENST00000455397.5_1_1:151337021-151341586:-|nuORF;ENST00000443708.5_1_1:151337021-151341586:-|nuORF;nc|ENSG00000143416|Q13228-2|SELENBP1;nc|ENSG00000143416|Q13228-3|SELENBP1;ENSG00000143416|ENST00000368868|SELENBP1;nc|ENSG00000143416|Q13228-4|SELENBP1 ENST00000474352.5_1_1:151337855-151338307:-|nuORF ENST00000474352.5_1_1:151337855-151338307:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.25494384765625 3 389.253376 1164.7383 2.5393 0.00098844 1.1663 0.00045397 3.7056 0.0014424 389.25375991511527 46.072 1.0642 46.072 45.494 46.558 0 104 53 2 0 0 0 0.12676 1 21233 21233 0.15932 0 1 1080500 24134 3366 15524 15580 27691 27691 0.16252037950130216 PKKVKKPTKKI 11 Unmodified _PKKVKKPTKKI_ 0 0 0 REV__ENSG00000124575|ENST00000244534|H1-3 REV__ENSG00000124575|ENST00000244534|H1-3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.9483032226562 2 647.95029 1293.88603 NaN NaN NaN NaN NaN NaN NaN 13.14 1 13.14 12.64 13.64 0 0 0 0 1.008 1 5738 5738 0.30703 0.30703 1 + 24135 11661 15525 15581 27692 27692 0.2508392948409437 PKKVKMKLI 9 Unmodified _PKKVKMKLI_ 0 0 0 REV__ENSG00000181104|ENST00000319211|F2R REV__ENSG00000181104|ENST00000319211|F2R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.7705688476562 2 542.86738 1083.72021 NaN NaN NaN NaN NaN NaN NaN 74.216 1 74.216 73.716 74.716 0 0 0 0 0.90699 1 36237 36237 1.8442 0 1 + 24136 13843 15526 15582 27693 27693 0.18169579703771888 PKKVKMKLIFV 11 Unmodified _PKKVKMKLIFV_ 0 0 0 REV__ENSG00000181104|ENST00000319211|F2R REV__ENSG00000181104|ENST00000319211|F2R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 665.9441528320312 2 665.935794 1329.85703 NaN NaN NaN NaN NaN NaN NaN 66.464 1 66.464 65.964 66.964 0 0 0 0 1.0044 1 31770 31770 4.897 2.1618 1 + 24137 13843 15527 15583 27694 27694 0.20530068863467932 PKKVLIKE 8 Unmodified _PKKVLIKE_ 0 0 0 REV__ENST00000495270.1_1_9:130699195-130699321:-|nuORF REV__ENST00000495270.1_1_9:130699195-130699321:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.4857482910156 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 85.233 1 85.262 84.762 85.762 0.028603 0 0 0 0.99035 1 42635 42635 0.69038 0 1 + 24138 16837 15528 15584 27695 27695 0.14868398242049352 PKKVLIKE 8 Unmodified _PKKVLIKE_ 0 0 0 REV__ENST00000495270.1_1_9:130699195-130699321:-|nuORF REV__ENST00000495270.1_1_9:130699195-130699321:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.8246154785156 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 81.993 1 82.653 82.153 83.153 0.65998 0 0 0 0.99035 1 37781 37781 0.69038 0 1 + 24139 16837 15528 15584 27696 27696 0.14868398242049352 PKKVLRRLLL 10 Unmodified _PKKVLRRLLL_ 0 0 0 REV__ENST00000475582.5_1_2:27591484-27592470:-|nuORF REV__ENST00000475582.5_1_2:27591484-27592470:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 618.4103393554688 2 618.43735 1234.86015 NaN NaN NaN NaN NaN NaN NaN 18.46 1 18.757 18.257 19.257 0.29753 0 0 0 1.0015 1 8370 8370 0.40072 0 1 + 24140 11346 15529 15585 27697 27697 0.2521108003252266 PKKVRSLV 8 Unmodified _PKKVRSLV_ 0 0 0 REV__ENST00000300584.7_1_15:78305374-78305527:-|nuORF REV__ENST00000300584.7_1_15:78305374-78305527:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 309.52484130859375 3 309.543038 925.607286 1.9945 0.0006174 0.16706 5.1713E-05 2.1616 0.00066911 309.54310985439577 32.799 0.20986 33.587 33.456 33.666 0.78795 21 15 2 0 0 0 0.141 1 14844 14844 3.5965 0.31518 1 188370 + 24141 15185 15530 15586 27698 27698 0.14150647302085417 PKKVVFKIK 9 Unmodified _PKKVVFKIK_ 0 0 0 REV__nc|ENSG00000263001|P78347-3|GTF2I REV__nc|ENSG00000263001|P78347-3|GTF2I MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.760009765625 3 362.918105 1085.73249 2.7655 0.0010036 -0.15811 -5.7381E-05 2.6074 0.00094626 363.2529196253642 19.798 2.0878 19.798 19.494 21.582 0 321 193 2 0 0 0 0.11436 1 9613 9613 0.23584 0.23584 1 2315300 + 24142 14700 15531 15587 27699 27699 0.1930493943843885 PKKVVPQLR 9 Unmodified _PKKVVPQLR_ 0 0 0 ENSG00000238083|ENST00000576629|LRRC37A2;ENSG00000176681|ENST00000320254|LRRC37A;ENSG00000176809|ENST00000584306|LRRC37A3 ENSG00000238083|ENST00000576629|LRRC37A2 ENSG00000238083|ENST00000576629|LRRC37A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.8676147460938 2 532.850576 1063.6866 NaN NaN NaN NaN NaN NaN NaN 68.066 1 68.066 67.566 68.566 0 0 0 0 0.87786 1 32731 32731 6.7232 0 1 24143 5084 15532 15588 27700 27700 0.15730294256218258 PKKVVPVKKVP 11 Unmodified _PKKVVPVKKVP_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;TTN|p.R30215Vfs*13|1|0.21|ENSG00000155657|chr2:178545544-178545544|G/-|frameshift_variant;TTN|p.P20319Hfs*66|1|0.07|ENSG00000155657|chr2:178582577-178582578|-/AAAATAAATAT|frameshift_variant;TTN|p.A15448Hfs*16|1|0.24|ENSG00000155657|chr2:178610249-178610261|TTCTCCTCCCAGC/-|frameshift_variant;TTN|p.G17760Ifs*40|1|0.07|ENSG00000155657|chr2:178594192-178594193|-/TCGACTTCAGAGAT|frameshift_variant;TTN|p.V17759Afs*3|1|0.05|ENSG00000155657|chr2:178594194-178594195|-/G|frameshift_variant ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 609.9608154296875 2 609.918458 1217.82236 NaN NaN NaN NaN NaN NaN NaN 98.185 1 98.784 98.284 99.284 0.59885 0 0 0 1.0072 1 45233 45233 1.3295 0.87119 1 24144 3871 15533 15589 27701 27701 0.22216569047031953 PKKWLFLPFED 11 Unmodified _PKKWLFLPFED_ 0 0 0 ENSG00000171773|ENST00000301944|NXNL1 ENSG00000171773|ENST00000301944|NXNL1 ENSG00000171773|ENST00000301944|NXNL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 710.3851318359375 2 710.387188 1418.75982 NaN NaN NaN NaN NaN NaN NaN 75.4 1 76.064 75.564 76.564 0.6644 0 0 0 1.0044 1 34736 34736 4.897 1.3005 1 24145 4831 15534 15590 27702 27702 0.06719378188154224 PKLALLPLL 9 Unmodified _PKLALLPLL_ 0 0 0 ENSG00000104998|ENST00000263379|IL27RA ENSG00000104998|ENST00000263379|IL27RA ENSG00000104998|ENST00000263379|IL27RA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.2183532714844 2 489.341521 976.668489 NaN NaN NaN NaN NaN NaN NaN 72.179 1 72.843 72.343 73.343 0.66324 0 0 0 0.89509 1 33094 33094 4.756 0 1 24146 1466 15535 15591 27703 27703 0.17922159281522454 PKLERPLRL 9 Unmodified _PKLERPLRL_ 0 0 0 REV__ENSG00000182095|ENST00000430969|TNRC18 REV__ENSG00000182095|ENST00000430969|TNRC18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.3631591796875 2 561.361308 1120.70806 NaN NaN NaN NaN NaN NaN NaN 15.416 1 15.416 14.916 15.916 0 0 0 0 0.91238 1 6813 6813 0.52476 0 1 + 24147 13870 15536 15592 27704 27704 0.15253679284910504 PKLFMKKAK 9 Unmodified _PKLFMKKAK_ 0 0 0 REV__ENSG00000135698|ENST00000258169|MPHOSPH6 REV__ENSG00000135698|ENST00000258169|MPHOSPH6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.821044921875 2 545.843905 1089.67326 NaN NaN NaN NaN NaN NaN NaN 17.14 1 17.341 16.841 17.841 0.20057 0 0 0 0.8984 1 7580 7580 3.9444 0 1 + 24148 12032 15537 15593 27705 27705 0.13200720152599388 PKLFWKKLI 9 Unmodified _PKLFWKKLI_ 0 0 0 REV__nc|ENSG00000170085|Q8NDZ2-4|SIMC1 REV__nc|ENSG00000170085|Q8NDZ2-4|SIMC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.4878540039062 2 586.881345 1171.74814 NaN NaN NaN NaN NaN NaN NaN 74.419 1 74.677 74.177 75.177 0.25831 0 0 0 0.87786 1 34226 34226 6.7232 0.51738 1 + 24149 18039 15538 15594 27706 27706 0.1691322595549991 PKLGLLVE 8 Unmodified _PKLGLLVE_ 0 0 0 REV__ENST00000529970.5_1_11:120278459-120348246:+|nuORF REV__ENST00000529970.5_1_11:120278459-120348246:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.7812194824219 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 51.271 1 51.533 51.033 52.033 0.26227 0 0 0 0.99035 1 23430 23430 2.3027 0 1 + 24150 14246 15539 15595 27707 27707 0.10388447425293634 PKLIIVRVL 9 Unmodified _PKLIIVRVL_ 0 0 0 ENST00000345985.7_1_2:10712068-10712188:-|nuORF ENST00000345985.7_1_2:10712068-10712188:-|nuORF ENST00000345985.7_1_2:10712068-10712188:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.8726806640625 2 525.87352 1049.73249 NaN NaN NaN NaN NaN NaN NaN 54.356 1 54.621 54.121 55.121 0.26462 0 0 0 0.90611 1 24850 24850 2.0598 0 1 24151 7114 15540 15596 27708 27708 0.20960939438441528 PKLIQVYLPCN 11 Unmodified _PKLIQVYLPCN_ 0 0 0 REV__ENST00000498426.5_1_1:196286396-196434478:-|nuORF REV__ENST00000498426.5_1_1:196286396-196434478:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 644.3611450195312 2 644.360116 1286.70568 4.2723 0.0027529 0.26726 0.00017221 4.5396 0.0029251 644.3600106819728 91.927 0.51086 92.18 91.926 92.436 0.25253 37 24 2 0 0 0 0.89309 1 42228 42228 2.7352 1.0826 1 278420 + 24152 11106 15541 15597 27709 27709 0.07379462764970413 PKLKEVRWVH 10 Unmodified _PKLKEVRWVH_ 0 0 0 REV__ENST00000415012.1_1_2:85628700-85640330:-|nuORF REV__ENST00000415012.1_1_2:85628700-85640330:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 646.45458984375 2 646.385314 1290.75608 NaN NaN NaN NaN NaN NaN NaN 56.961 1 56.961 56.461 57.461 0 0 0 0 1.0003 1 26238 26238 1.4819 1.0236 1 + 24153 10323 15542 15598 27710 27710 0.12232753204989422 PKLKILIICV 10 Unmodified _PKLKILIICV_ 0 0 0 ENST00000560980.5_1_15:71185191-71211425:+|nuORF ENST00000560980.5_1_15:71185191-71211425:+|nuORF ENST00000560980.5_1_15:71185191-71211425:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1140.0999755859375 1 1139.75845 1138.75117 3.6015 0.0041048 4.2319 0.0048234 7.8334 0.0089282 1140.7639859457108 28.929 0.20132 29.718 29.662 29.864 0.78921 15 13 2 0 0 0 0.12676 1 13059 13059 0.45834 0.45834 1 283990 24154 8978 15543 15599 27711 27711 0.18734733018027327 PKLKKIYFLKL 11 Unmodified _PKLKKIYFLKL_ 0 0 0 REV__ENSG00000117501|ENST00000367759|MROH9 REV__ENSG00000117501|ENST00000367759|MROH9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 695.963623046875 2 695.962866 1389.91118 NaN NaN NaN NaN NaN NaN NaN 56.896 1 56.896 56.396 57.396 0 0 0 0 1.008 1 26204 26204 0.30703 0 1 + 24155 11445 15544 15600 27712 27712 0.23181984286679835 PKLKKRKKKRK 11 Unmodified _PKLKKRKKKRK_ 0 0 0 REV__ENST00000216190.12_1_22:36906978-36907630:-|nuORF REV__ENST00000216190.12_1_22:36906978-36907630:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 719.5123901367188 2 719.514454 1437.01436 NaN NaN NaN NaN NaN NaN NaN 91.913 1 91.996 91.496 92.496 0.082848 0 0 0 1.008 1 47760 47760 0.30703 0.30703 1 + 24156 14806 15545 15601 27713 27713 0.3133290951784602 PKLKNVFH 8 Unmodified _PKLKNVFH_ 0 0 0 REV__PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant REV__PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.7978515625 2 491.795269 981.575986 3.1038 0.0015264 1.4886 0.00073209 4.5924 0.0022585 491.7957567298064 55.326 0.16249 55.326 55.261 55.424 0 25 12 3 0 0 0 0.70799 1 25467 25467 5.2307 0.47466 1 4184600 + 24157 11523 15546 15602 27714 27714 0.08446074267988024 PKLKNVFH 8 Unmodified _PKLKNVFH_ 0 0 0 REV__PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant REV__PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.7975769042969 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 44.665 1 44.665 44.165 45.165 0 0 0 0 0.82924 1 20419 20419 16.942 5.302 1 + 24158 11523 15546 15602 27715 27715 0.08446074267988024 PKLKNVFH 8 Unmodified _PKLKNVFH_ 0 0 0 REV__PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant REV__PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.7970886230469 2 491.795269 981.575986 3.0719 0.0015107 1.5793 0.0007767 4.6512 0.0022874 491.7958923117878 43.289 0.25931 44.104 44.057 44.317 0.81444 40 18 3 0 0 0 0.70799 1 19691 19691 5.2307 1.2863 1 2865400 + 24159 11523 15546 15602 27716 27716 0.08446074267988024 PKLKNVFH 8 Unmodified _PKLKNVFH_ 0 0 0 REV__PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant REV__PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 491.795269 981.575986 3.1038 0.0015264 1.4886 0.00073209 4.5924 0.0022585 491.7957567298064 55.326 0.16249 55.326 55.261 55.424 0 0.040947 -3.6382E-05 NaN 5.2307 25 12 3 NaN NaN NaN NaN 0 NaN NaN 0 4184600 + 24160 11523 15546 15602 0.08446074267988024 PKLKNVFH 8 Unmodified _PKLKNVFH_ 0 0 0 REV__PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant REV__PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 491.795269 981.575986 2.8163 0.001385 2.4451 0.0012025 5.2613 0.0025875 491.7965233387846 54.586 0.31254 55.381 55.146 55.458 0.79552 0.095987 0.00090439 NaN 5.2307 30 20 2 NaN NaN NaN NaN 0 NaN NaN 0 920210 + 24161 11523 15546 15602 0.08446074267988024 PKLKNVFH 8 Unmodified _PKLKNVFH_ 0 0 0 REV__PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant REV__PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 491.795269 981.575986 3.1021 0.0015256 1.3784 0.00067788 4.4805 0.0022035 491.7958915701324 54.482 0.41775 55.148 54.859 55.277 0.6665 -0.13693 -0.00014481 NaN 5.2307 54 27 2 NaN NaN NaN NaN 0 NaN NaN 0 6299000 + 24162 11523 15546 15602 0.08446074267988024 PKLLIIKSGF 10 Unmodified _PKLLIIKSGF_ 0 0 0 REV__nc|ENSG00000175216|Q14008-2|CKAP5 REV__nc|ENSG00000175216|Q14008-2|CKAP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.3653564453125 2 558.362985 1114.71142 NaN NaN NaN NaN NaN NaN NaN 77.23 1 77.486 76.986 77.986 0.25533 0 0 0 1.0001 1 35567 35567 1.6526 0.96225 1 + 24163 13666 15547 15603 27717 27717 0.15864929338931688 PKLLILPLTRI 11 Unmodified _PKLLILPLTRI_ 0 0 0 REV__ENST00000393779.2_1_3:17913403-17913661:-|nuORF REV__ENST00000393779.2_1_3:17913403-17913661:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 639.3218383789062 2 638.939391 1275.86423 NaN NaN NaN NaN NaN NaN NaN 47.829 1 48.658 48.158 49.158 0.82915 0 0 0 1.008 1 21790 21790 0.30703 0.30703 1 + 24164 15958 15548 15604 27718 27718 0.2373312473553142 PKLLLLLKRR 10 Unmodified _PKLLLLLKRR_ 0 0 0 REV__ENST00000416673.6_1_2:114369763-114384446:-|nuORF REV__ENST00000416673.6_1_2:114369763-114384446:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 625.7041015625 2 625.445175 1248.8758 NaN NaN NaN NaN NaN NaN NaN 63.831 1 63.831 63.331 64.331 0 0 0 0 1.0015 1 30099 30099 0.40072 0 1 + 24165 16135 15549 15605 27719 27719 0.261313665495436 PKLLLLLKRRK 11 Unmodified _PKLLLLLKRRK_ 0 0 0 REV__ENST00000416673.6_1_2:114369763-114384446:-|nuORF REV__ENST00000416673.6_1_2:114369763-114384446:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 689.493896484375 2 689.492656 1376.97076 NaN NaN NaN NaN NaN NaN NaN 59.218 1 59.218 58.718 59.718 0 0 0 0 1.008 1 27367 27367 0.30703 0 1 + 24166 16135 15550 15606 27720 27720 0.29735300020706745 PKLLLLLPLIL 11 Unmodified _PKLLLLLPLIL_ 0 0 0 REV__ENSG00000280021|ENST00000624103|OR51F1 REV__ENSG00000280021|ENST00000624103|OR51F1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 623.449951171875 2 623.44906 1244.88357 NaN NaN NaN NaN NaN NaN NaN 69.978 1 70.681 70.181 71.181 0.70302 0 0 0 1.008 1 33512 33512 0.30703 0.30703 1 + 24167 14757 15551 15607 27721 27721 0.27092081026466985 PKLLLVRKRLL 11 Unmodified _PKLLLVRKRLL_ 0 0 0 nc|ENSG00000151553|Q5W0V3-2|FHIP2A;ENSG00000151553|ENST00000369248|FHIP2A nc|ENSG00000151553|Q5W0V3-2|FHIP2A nc|ENSG00000151553|Q5W0V3-2|FHIP2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 674.9768676757812 2 674.979382 1347.94421 NaN NaN NaN NaN NaN NaN NaN 88.966 1 88.966 88.466 89.466 0 0 0 0 1.008 1 46325 46325 0.30703 0.30703 1 24168 3716 15552 15608 27722 27722 0.28415611129412355 PKLLPLLKR 9 Unmodified _PKLLPLLKR_ 0 0 0 REV__ENSG00000198844|ENST00000361926|ARHGEF15;REV__ENST00000399247.6_1_6:29694759-29696203:-|nuORF REV__ENST00000399247.6_1_6:29694759-29696203:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.300048828125 2 539.378969 1076.74339 NaN NaN NaN NaN NaN NaN NaN 61.803 1 61.803 61.303 62.303 0 0 0 0 0.91238 1 28866 28866 0.52476 0 1 + 24169 16030;14368 15553 15609 27723 27723 0.20808341812744402 PKLLRLALPRV 11 Unmodified _PKLLRLALPRV_ 0 0 0 REV__ENST00000379160.3_1_20:5100338-5107184:-|nuORF REV__ENST00000379160.3_1_20:5100338-5107184:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 638.546142578125 2 638.434807 1274.85506 NaN NaN NaN NaN NaN NaN NaN 46.078 1 46.078 45.578 46.578 0 0 0 0 1.0073 1 21084 21084 1.1933 0.84271 1 + 24170 15860 15554 15610 27724 27724 0.2286277616985899 PKLLRPRLL 9 Unmodified _PKLLRPRLL_ 0 0 0 nc|ENSG00000100241|O95248|SBF1;ENSG00000100241|ENST00000380817|SBF1;nc|ENSG00000100241|O95248-4|SBF1 nc|ENSG00000100241|O95248|SBF1 nc|ENSG00000100241|O95248|SBF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.3842163085938 2 553.382043 1104.74953 NaN NaN NaN NaN NaN NaN NaN 55.434 1 55.434 54.934 55.934 0 0 0 0 0.91238 1 25476 25476 0.52476 0 1 24171 1193 15555 15611 27725 27725 0.2013486004425431 PKLNKWTLA 9 Unmodified _PKLNKWTLA_ 0 0 0 REV__ENSG00000205339|ENST00000379719|IPO7 REV__ENSG00000205339|ENST00000379719|IPO7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.55133056640625 3 357.550082 1069.62842 2.5823 0.00092331 0.80144 0.00028655 3.3838 0.0012099 357.5504666235687 52.432 0.70988 52.696 52.301 53.011 0.26345 70 32 3 0 0 0 1.178 1 24017 24017 1.0715 0 1 1327200 + 24172 14458 15556 15612 27726 27726 0.09638612610956443 PKLPHVIALYR 11 Unmodified _PKLPHVIALYR_ 0 0 0 REV__ENSG00000101292|ENST00000678254|PROKR2 REV__ENSG00000101292|ENST00000678254|PROKR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 653.9056396484375 2 653.90334 1305.79213 NaN NaN NaN NaN NaN NaN NaN 43.924 1 43.924 43.424 44.424 0 0 0 0 1.0079 1 20038 20038 1.1933 0.79263 1 + 24173 10882 15557 15613 27727 27727 0.15146210381817582 PKLPLCDSLMI 11 Unmodified _PKLPLCDSLMI_ 0 0 0 ENSG00000134709|ENST00000371208|HOOK1 ENSG00000134709|ENST00000371208|HOOK1 ENSG00000134709|ENST00000371208|HOOK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 615.3721923828125 2 615.335252 1228.65595 NaN NaN NaN NaN NaN NaN NaN 80.504 1 80.504 80.004 81.004 0 0 0 0 1.0073 1 39977 39977 1.1933 0.66858 1 24174 2823 15558 15614 27728 27728 0.050770117646607105 PKLRHAVL 8 Unmodified _PKLRHAVL_ 0 0 0 REV__nc|ENSG00000142731|O00444-3|PLK4 REV__nc|ENSG00000142731|O00444-3|PLK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.3020324707031 2 467.303262 932.59197 NaN NaN NaN NaN NaN NaN NaN 89.154 1 89.154 88.654 89.654 0 0 0 0 0.99035 1 46483 46483 5.2307 0 1 + 24175 12345 15559 15615 27729 27729 0.12297780504889033 PKLRKNKILIK 11 Unmodified _PKLRKNKILIK_ 0 0 0 REV__nc|ENSG00000101333|Q15147-2|PLCB4 REV__nc|ENSG00000101333|Q15147-2|PLCB4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 675.9710083007812 2 675.969014 1349.92348 NaN NaN NaN NaN NaN NaN NaN 60.726 1 61.465 60.965 61.965 0.7396 0 0 0 1.008 1 28069 28069 0.30703 0.30703 1 + 24176 10887 15560 15616 27730 27730 0.2625102074971437 PKLRLIQLYV 10 Unmodified _PKLRLIQLYV_ 0 0 0 REV__ENSG00000135414|ENST00000257868|GDF11 REV__ENSG00000135414|ENST00000257868|GDF11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 621.9005126953125 2 621.900266 1241.78598 NaN NaN NaN NaN NaN NaN NaN 49.019 1 49.019 48.519 49.519 0 0 0 0 1.0015 1 22449 22449 0.40072 0 1 + 24177 12015 15561 15617 27731 27731 0.1747569215033309 PKLRLVVRELE 11 Unmodified _PKLRLVVRELE_ 0 0 0 REV__ENSG00000171303|ENST00000302909|KCNK3 REV__ENSG00000171303|ENST00000302909|KCNK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 676.541015625 2 676.424636 1350.83472 NaN NaN NaN NaN NaN NaN NaN 90.234 1 90.298 89.798 90.798 0.064346 0 0 0 1.0074 1 46448 46448 2.7352 1.6637 1 + 24178 13486 15562 15618 27732 27732 0.17333560719430352 PKLRPGKA 8 Unmodified _PKLRPGKA_ 0 0 0 ENST00000530189.1_1_11:7618841-7631707:+|nuORF ENST00000530189.1_1_11:7618841-7631707:+|nuORF ENST00000530189.1_1_11:7618841-7631707:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 433.7811584472656 2 433.782162 865.549771 NaN NaN NaN NaN NaN NaN NaN 58.451 1 58.451 57.951 58.951 0 0 0 0 0.99035 1 26977 26977 2.5775 0 1 24179 8710 15563 15619 27733 27733 0.11161805096503485 PKLRPGLVQV 10 Unmodified _PKLRPGLVQV_ 0 0 0 REV__ENST00000574928.5_1_16:3185143-3187740:+|nuORF REV__ENST00000574928.5_1_16:3185143-3187740:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.8237915039062 2 553.855858 1105.69716 NaN NaN NaN NaN NaN NaN NaN 46.788 1 46.788 46.288 47.288 0 0 0 0 0.99812 1 21417 21417 3.2813 0.97858 1 + 24180 17469 15564 15620 27734 27734 0.14854276910659792 PKLSFYFV 8 Unmodified _PKLSFYFV_ 0 0 0 REV__ENST00000343307.4_1_13:31904450-31904543:+|nuORF REV__ENST00000343307.4_1_13:31904450-31904543:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.77801513671875 2 500.778754 999.542954 NaN NaN NaN NaN NaN NaN NaN 82.014 1 82.261 81.761 82.761 0.24722 0 0 0 0.99035 1 37750 37750 2.0598 0.21551 1 + 24181 15486 15565 15621 27735 27735 0.043164474252762375 PKLSKKKLRR 10 Unmodified _PKLSKKKLRR_ 0 0 0 ENSG00000087365|ENST00000322535|SF3B2 ENSG00000087365|ENST00000322535|SF3B2 ENSG00000087365|ENST00000322535|SF3B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 627.2214965820312 2 627.430056 1252.84556 NaN NaN NaN NaN NaN NaN NaN 105.18 1 105.18 104.68 105.68 0 0 0 0 1.0015 1 57812 57812 0.40072 0 1 24182 1001 15566 15622 27736 27736 0.22925007884350634 PKLSLRLL 8 Unmodified _PKLSLRLL_ 0 0 0 ENST00000583087.5_1_3:123337563-123337614:-|nuORF ENST00000583087.5_1_3:123337563-123337614:-|nuORF ENST00000583087.5_1_3:123337563-123337614:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.3236389160156 2 470.32112 938.627687 NaN NaN NaN NaN NaN NaN NaN 76.452 1 76.707 76.207 77.207 0.25533 0 0 0 0.99035 1 35199 35199 4.3292 0.38484 1 24183 9158 15567 15623 27737 27737 0.15591817961876586 PKLSWRVP 8 Unmodified _PKLSWRVP_ 0 0 0 ENST00000341446.8_1_12:125511739-125511865:+|nuORF ENST00000341446.8_1_12:125511739-125511865:+|nuORF ENST00000341446.8_1_12:125511739-125511865:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.798095703125 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 50.714 1 51.531 51.031 52.031 0.81738 0 0 0 0.99035 1 23099 23099 4.3292 2.0265 1 24184 7075 15568 15624 27738 27738 0.08446074267988024 PKLVKPKKKR 10 Unmodified _PKLVKPKKKR_ 0 0 0 ENSG00000247746|ENST00000500968|USP51 ENSG00000247746|ENST00000500968|USP51 ENSG00000247746|ENST00000500968|USP51 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.4317626953125 2 611.429525 1220.8445 NaN NaN NaN NaN NaN NaN NaN 43.688 1 43.688 43.188 44.188 0 0 0 0 1.0003 1 19923 19923 1.4819 0.28856 1 24185 6256 15569 15625 27739 27739 0.24290793515433506 PKMAIRIP 8 Unmodified _PKMAIRIP_ 0 0 0 nc|ENSG00000230453|A2A2Z9|ANKRD18B;ENSG00000230453|ENST00000684830|ANKRD18B nc|ENSG00000230453|A2A2Z9|ANKRD18B nc|ENSG00000230453|A2A2Z9|ANKRD18B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.2857360839844 2 463.286223 924.557893 NaN NaN NaN NaN NaN NaN NaN 77.915 1 78.577 78.077 79.077 0.66198 0 0 0 0.99035 1 35906 35906 0.69038 0 1 24186 6179 15570 15626 27740 27740 0.09259616021620332 PKMAIRIP 8 Unmodified _PKMAIRIP_ 0 0 0 nc|ENSG00000230453|A2A2Z9|ANKRD18B;ENSG00000230453|ENST00000684830|ANKRD18B nc|ENSG00000230453|A2A2Z9|ANKRD18B nc|ENSG00000230453|A2A2Z9|ANKRD18B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.2880859375 2 463.286223 924.557893 NaN NaN NaN NaN NaN NaN NaN 95.595 1 96.203 95.703 96.703 0.60769 0 0 0 0.99035 1 43960 43960 0.69038 0 1 24187 6179 15570 15626 27741 27741 0.09259616021620332 PKMKDTLLL 9 Unmodified _PKMKDTLLL_ 0 0 0 REV__nc|ENSG00000126467|Q9UJT2-2|TSKS REV__nc|ENSG00000126467|Q9UJT2-2|TSKS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 353.54840087890625 3 353.547461 1057.62055 2.276 0.00080467 0.33894 0.00011983 2.6149 0.0009245 353.5475632505406 41.813 0.28592 42.622 42.465 42.751 0.80855 35 19 2 0 0 0 0.3144 1 18961 18961 10.8 1.8233 1 1079000 + 24188 11712 15571 15627 27742 27742 0.09404717299162257 PKMKDTLLL 9 Unmodified _PKMKDTLLL_ 0 0 0 REV__nc|ENSG00000126467|Q9UJT2-2|TSKS REV__nc|ENSG00000126467|Q9UJT2-2|TSKS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 353.54864501953125 3 353.547461 1057.62055 2.6421 0.00093411 0.085648 3.0281E-05 2.7277 0.00096439 353.54753579955565 42.637 0.52682 42.908 42.499 43.025 0.27021 63 26 3 0 0 0 0.59776 1 19473 19473 7.1017 0 1 5032500 + 24189 11712 15571 15627 27743 27743 0.09404717299162257 PKMKDTLLL 9 Unmodified _PKMKDTLLL_ 0 0 0 REV__nc|ENSG00000126467|Q9UJT2-2|TSKS REV__nc|ENSG00000126467|Q9UJT2-2|TSKS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 353.547461 1057.62055 2.4803 0.00087689 0.022393 7.917E-06 2.5027 0.00088481 353.54750113722656 42.843 0.40408 42.843 42.557 42.961 0 0.052481 -0.00010742 NaN 10.8 29 21 2 NaN NaN NaN NaN 0 NaN NaN 0 879130 + 24190 11712 15571 15627 0.09404717299162257 PKMKDTLLL 9 Unmodified _PKMKDTLLL_ 0 0 0 REV__nc|ENSG00000126467|Q9UJT2-2|TSKS REV__nc|ENSG00000126467|Q9UJT2-2|TSKS MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 353.547461 1057.62055 2.276 0.00080467 0.33894 0.00011983 2.6149 0.0009245 353.5475632505406 41.813 0.28592 42.622 42.465 42.751 0.80855 -0.16902 0.00022832 NaN 10.8 35 19 2 NaN NaN NaN NaN 0 NaN NaN 0 1079000 + 24191 11712 15571 15627 0.09404717299162257 PKMKDTLLL 9 Unmodified _PKMKDTLLL_ 0 0 0 REV__nc|ENSG00000126467|Q9UJT2-2|TSKS REV__nc|ENSG00000126467|Q9UJT2-2|TSKS MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 353.547461 1057.62055 2.6421 0.00093411 0.085648 3.0281E-05 2.7277 0.00096439 353.54753579955565 42.637 0.52682 42.908 42.499 43.025 0.27021 0.11653 -4.0329E-05 NaN 10.8 63 26 3 NaN NaN NaN NaN 0 NaN NaN 0 5032500 + 24192 11712 15571 15627 0.09404717299162257 PKMKKLIRYLK 11 Unmodified _PKMKKLIRYLK_ 0 0 0 nc|ENSG00000131620|Q5XXA6-2|ANO1;nc|ENSG00000131620|Q5XXA6-4|ANO1;ENSG00000131620|ENST00000355303|ANO1;nc|ENSG00000131620|Q5XXA6-5|ANO1 nc|ENSG00000131620|Q5XXA6-2|ANO1 nc|ENSG00000131620|Q5XXA6-2|ANO1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 708.9556274414062 2 709.457425 1416.9003 3.7621 0.002669 -3.1719 -0.0022504 0.59011 0.00041866 709.4548039820789 50.502 0.089214 50.502 50.461 50.55 0 5 3 2 0 0 0 0.13295 1 23135 23135 2.7352 2.4282 1 323330 24193 2666 15572 15628 27744 27744 0.20852258640752552 PKMKLFLRREH 11 Unmodified _PKMKLFLRREH_ 0 0 0 REV__MLT1K_dup15840|chr19:35157523-35158030:-|1.2991877397698728|0.3327659589692898|1.97|539.0|6|2|sense REV__MLT1K_dup15840|chr19:35157523-35158030:-|1.2991877397698728|0.3327659589692898|1.97|539.0|6|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 728.3695678710938 2 727.924281 1453.83401 NaN NaN NaN NaN NaN NaN NaN 52.435 1 52.698 52.198 53.198 0.26345 0 0 0 1.0073 1 23972 23972 1.1933 0.84271 1 + 24194 17840 15573 15629 27745 27745 0.12524442798712698 PKMKLKCTTK 10 Unmodified _PKMKLKCTTK_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.3456420898438 2 589.343412 1176.67227 3.8184 0.0022503 -0.50822 -0.00029951 3.3102 0.0019508 589.3430058868945 87.609 1.6161 88.285 87.488 89.104 0.67555 193 74 4 0 0 0 0.93713 1 40462 40462 1.4819 0 1 4219400 + 24195 12747 15574 15630 27746 27746 0.09100137721384272 PKMKLKCTTK 10 Unmodified _PKMKLKCTTK_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.3452758789062 2 589.343412 1176.67227 NaN NaN NaN NaN NaN NaN NaN 86.22 1 86.891 86.391 87.391 0.67061 0 0 0 1.0003 1 39705 39705 1.4819 0 1 + 24196 12747 15574 15630 27747 27747 0.09100137721384272 PKMKNLYTVQ 10 Unmodified _PKMKNLYTVQ_ 0 0 0 ASPN|p.K341Nfs*7|1|0.08|ENSG00000106819|chr9:92457408-92457408|T/-|frameshift_variant ASPN|p.K341Nfs*7|1|0.08|ENSG00000106819|chr9:92457408-92457408|T/-|frameshift_variant ASPN|p.K341Nfs*7|1|0.08|ENSG00000106819|chr9:92457408-92457408|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.3370361328125 2 611.336641 1220.65873 NaN NaN NaN NaN NaN NaN NaN 59.782 1 60.447 59.947 60.947 0.66503 0 0 0 1.0003 1 27365 27365 1.4819 0 1 24197 70 15575 15631 27748 27748 0.05722603213803268 PKMKPLLY 8 Unmodified _PKMKPLLY_ 0 0 0 ENST00000307377.12_1_3:33095017-33107044:-|nuORF;nc|ENSG00000170266|P16278-3|GLB1;nc|ENSG00000170266|P16278|GLB1;ENSG00000170266|ENST00000307363|GLB1 ENST00000307377.12_1_3:33095017-33107044:-|nuORF ENST00000307377.12_1_3:33095017-33107044:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.2978515625 2 495.296256 988.57796 3.3009 0.0016349 0.74995 0.00037145 4.0509 0.0020064 495.29626564303305 81.244 0.32588 81.904 81.716 82.042 0.65998 40 19 3 0 0 0 0.7441 1 37458 37458 2.3027 0.24298 1 1128900 24198 4737 15576 15632 27749 27749 0.08321366961592958 PKMKRGTSL 9 Unmodified _PKMKRGTSL_ 0 0 0 ENSG00000172765|ENST00000393238|TMCC1;ENST00000505924.5_1_3:129546636-129546918:-|nuORF ENSG00000172765|ENST00000393238|TMCC1 ENSG00000172765|ENST00000393238|TMCC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.29736328125 2 509.297319 1016.58008 NaN NaN NaN NaN NaN NaN NaN 66.011 1 66.26 65.76 66.76 0.24848 0 0 0 0.86044 1 30240 30240 7.2892 0.93513 1 24199 4889 15577 15633 27750 27750 0.07245795699407154 PKMKRVKRFLE 11 Unmodified _PKMKRVKRFLE_ 0 0 0 ENST00000424137.2_1_20:34340744-34341539:+|nuORF ENST00000424137.2_1_20:34340744-34341539:+|nuORF ENST00000424137.2_1_20:34340744-34341539:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.2375183105469 3 477.958746 1430.85441 3.8541 0.0018421 -0.8318 -0.00039757 3.0223 0.0014445 477.9585768588377 96.716 0.57007 96.994 96.669 97.239 0.27779 43 30 2 0 0 0 0.13295 1 44463 44463 0.073264 0 1 507770 24200 7782 15578 15634 27751 27751 0.15621613458506545 PKMKRVKRFLE 11 Unmodified _PKMKRVKRFLE_ 0 0 0 ENST00000424137.2_1_20:34340744-34341539:+|nuORF ENST00000424137.2_1_20:34340744-34341539:+|nuORF ENST00000424137.2_1_20:34340744-34341539:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.2283630371094 3 477.958746 1430.85441 3.3091 0.0015816 0.23902 0.00011424 3.5481 0.0016959 478.29323400233847 96.212 0.68975 96.82 96.378 97.068 0.60769 56 36 3 0 0 0 0.13295 1 44186 44186 0.08335 0 1 689830 24201 7782 15578 15634 27752 27752 0.15621613458506545 PKMRPWWPRCR 11 Unmodified _PKMRPWWPRCR_ 0 0 0 REV__ENST00000495653.1_1_3:47450801-47451197:+|nuORF REV__ENST00000495653.1_1_3:47450801-47451197:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 756.8927001953125 2 756.895 1511.77545 NaN NaN NaN NaN NaN NaN NaN 79.738 1 80.399 79.899 80.899 0.66082 0 0 0 1.008 1 36741 36741 0.30703 0.30703 1 + 24202 16844 15579 15635 27753 27753 0.0400306295257451 PKNKIKVYIY 10 Unmodified _PKNKIKVYIY_ 0 0 0 ENSG00000151348|ENST00000533608|EXT2;nc|ENSG00000151348|Q93063-2|EXT2;nc|ENSG00000151348|Q93063-3|EXT2 ENSG00000151348|ENST00000533608|EXT2 ENSG00000151348|ENST00000533608|EXT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.3863525390625 2 633.384448 1264.75434 3.594 0.0022764 1.3935 0.00088262 4.9875 0.003159 633.3851266407678 46.588 0.46846 46.588 46.407 46.876 0 31 18 2 0 0 0 0.90859 1 21339 21339 3.2813 0.28607 1 1095900 24203 3702 15580 15636 27754 27754 0.13255699396381715 PKNKIKVYIY 10 Unmodified _PKNKIKVYIY_ 0 0 0 ENSG00000151348|ENST00000533608|EXT2;nc|ENSG00000151348|Q93063-2|EXT2;nc|ENSG00000151348|Q93063-3|EXT2 ENSG00000151348|ENST00000533608|EXT2 ENSG00000151348|ENST00000533608|EXT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.3869018554688 2 633.384448 1264.75434 3.9114 0.0024774 0.82224 0.00052079 4.7336 0.0029982 633.8868316022827 53.112 0.49307 53.112 52.876 53.369 0 42 29 2 0 0 0 0.93713 1 24254 24254 1.4819 0 1 553000 24204 3702 15580 15636 27755 27755 0.13255699396381715 PKNKIKVYIY 10 Unmodified _PKNKIKVYIY_ 0 0 0 ENSG00000151348|ENST00000533608|EXT2;nc|ENSG00000151348|Q93063-2|EXT2;nc|ENSG00000151348|Q93063-3|EXT2 ENSG00000151348|ENST00000533608|EXT2 ENSG00000151348|ENST00000533608|EXT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.59320068359375 3 422.592058 1264.75434 NaN NaN NaN NaN NaN NaN NaN 55.452 1 55.452 54.952 55.952 0 0 0 0 1.0003 1 25484 25484 0.62683 0 1 24205 3702 15580 15636 27756 27756 0.13255699396381715 PKNKIKVYIY 10 Unmodified _PKNKIKVYIY_ 0 0 0 ENSG00000151348|ENST00000533608|EXT2;nc|ENSG00000151348|Q93063-2|EXT2;nc|ENSG00000151348|Q93063-3|EXT2 ENSG00000151348|ENST00000533608|EXT2 ENSG00000151348|ENST00000533608|EXT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 317.1968078613281 4 317.195862 1264.75434 2.2317 0.00070788 1.0011 0.00031755 3.2328 0.0010254 317.1960998730227 45.984 0.84563 46.81 46.218 47.064 0.82621 141 43 4 0 0 0 0.93713 1 20982 20982 0.62683 0.17231 1 9758700 24206 3702 15580 15636 27757 27757 0.13255699396381715 PKNKIKVYIY 10 Unmodified _PKNKIKVYIY_ 0 0 0 ENSG00000151348|ENST00000533608|EXT2;nc|ENSG00000151348|Q93063-2|EXT2;nc|ENSG00000151348|Q93063-3|EXT2 ENSG00000151348|ENST00000533608|EXT2 ENSG00000151348|ENST00000533608|EXT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.3875732421875 2 633.384448 1264.75434 3.9469 0.0024999 0.70193 0.00044459 4.6489 0.0029445 633.3847720008924 46.644 0.77605 46.91 46.568 47.344 0.26561 49 26 2 0 0 0 0.90859 1 21287 21287 3.2813 0.28607 1 1350700 24207 3702 15580 15636 27758 27758 0.13255699396381715 PKNKIKVYIY 10 Unmodified _PKNKIKVYIY_ 0 0 0 ENSG00000151348|ENST00000533608|EXT2;nc|ENSG00000151348|Q93063-2|EXT2;nc|ENSG00000151348|Q93063-3|EXT2 ENSG00000151348|ENST00000533608|EXT2 ENSG00000151348|ENST00000533608|EXT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.1969299316406 4 317.195862 1264.75434 2.4694 0.00078327 1.0834 0.00034365 3.5528 0.0011269 317.1961480717587 46.698 0.47327 46.963 46.568 47.041 0.26561 45 16 3 0 0 0 0.93713 1 21309 21309 0.62683 0.17231 1 14192000 24208 3702 15580 15636 27759 27759 0.13255699396381715 PKNKIKVYIY 10 Unmodified _PKNKIKVYIY_ 0 0 0 ENSG00000151348|ENST00000533608|EXT2;nc|ENSG00000151348|Q93063-2|EXT2;nc|ENSG00000151348|Q93063-3|EXT2 ENSG00000151348|ENST00000533608|EXT2 ENSG00000151348|ENST00000533608|EXT2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 633.384448 1264.75434 4.2077 0.0026651 1.8967 0.0012013 6.1043 0.0038664 633.3857543898625 45.95 0.1683 46.601 46.534 46.703 0.65104 -0.098702 0.0010267 NaN 3.2813 7 4 3 NaN NaN NaN NaN 0 NaN NaN 0 362910 24209 3702 15580 15636 0.13255699396381715 PKNRHKRL 8 Unmodified _PKNRHKRL_ 0 0 0 ENST00000481894.1_1_1:115138166-115167938:-|nuORF;nc|ENSG00000175984|Q68D51-2|DENND2C;nc|ENSG00000175984|Q68D51-3|DENND2C;ENSG00000175984|ENST00000393274|DENND2C ENST00000481894.1_1_1:115138166-115167938:-|nuORF ENST00000481894.1_1_1:115138166-115167938:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.8295288085938 2 524.827966 1047.64138 2.7857 0.001462 -1.0069 -0.00052844 1.7788 0.00093358 524.8273470854015 96.302 0.30194 96.302 96.165 96.467 0 86 36 3 0 0 0 0.70799 1 51999 51999 5.2307 2.9279 1 35765000 24210 5057 15581 15637 27760 27760 0.1194648851369493 PKNRHKRL 8 Unmodified _PKNRHKRL_ 0 0 0 ENST00000481894.1_1_1:115138166-115167938:-|nuORF;nc|ENSG00000175984|Q68D51-2|DENND2C;nc|ENSG00000175984|Q68D51-3|DENND2C;ENSG00000175984|ENST00000393274|DENND2C ENST00000481894.1_1_1:115138166-115167938:-|nuORF ENST00000481894.1_1_1:115138166-115167938:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 524.827966 1047.64138 2.7857 0.001462 -1.0069 -0.00052844 1.7788 0.00093358 524.8273470854015 96.302 0.30194 96.302 96.165 96.467 0 0.17128 0.00045632 NaN 5.2307 86 36 3 NaN NaN NaN NaN 0 NaN NaN 0 35765000 24211 5057 15581 15637 0.1194648851369493 PKNRHKRL 8 Unmodified _PKNRHKRL_ 0 0 0 ENST00000481894.1_1_1:115138166-115167938:-|nuORF;nc|ENSG00000175984|Q68D51-2|DENND2C;nc|ENSG00000175984|Q68D51-3|DENND2C;ENSG00000175984|ENST00000393274|DENND2C ENST00000481894.1_1_1:115138166-115167938:-|nuORF ENST00000481894.1_1_1:115138166-115167938:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 524.827966 1047.64138 4.0904 0.0021467 -1.8176 -0.00095391 2.2728 0.0011928 524.8269476099633 95.692 0.54449 95.96 95.668 96.213 0.2675 -0.17128 -0.00039462 NaN 5.2307 123 30 5 NaN NaN NaN NaN 0 NaN NaN 0 38574000 24212 5057 15581 15637 0.1194648851369493 PKNRINRARNA 11 Unmodified _PKNRINRARNA_ 0 0 0 REV__nc|ENSG00000165115|Q86VH2-3|KIF27 REV__nc|ENSG00000165115|Q86VH2-3|KIF27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.3843383789062 2 655.381626 1308.7487 4.3702 0.0028642 1.2889 0.00084474 5.6592 0.0037089 655.3823986680205 93.393 0.52994 93.648 93.292 93.822 0.25497 69 26 3 0 0 0 0.91359 1 42856 42856 1.1933 0.79263 1 2437200 + 24213 13137 15582 15638 27761 27761 0.10667413657279212 PKPAPHPQRRR 11 Unmodified _PKPAPHPQRRR_ 0 0 0 REV__ENST00000408011.7_1_18:24128932-24129277:-|nuORF REV__ENST00000408011.7_1_18:24128932-24129277:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 670.393310546875 2 670.394536 1338.77452 NaN NaN NaN NaN NaN NaN NaN 53.039 1 53.039 52.539 53.539 0 0 0 0 1.0073 1 24291 24291 1.1933 0 1 + 24214 16084 15583 15639 27762 27762 0.11868307899521824 PKPHKKLG 8 Unmodified _PKPHKKLG_ 0 0 0 ENST00000526878.5_1_11:460175-490579:+|nuORF;ENSG00000174915|ENST00000308020|PTDSS2 ENST00000526878.5_1_11:460175-490579:+|nuORF ENST00000526878.5_1_11:460175-490579:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 302.19708251953125 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 26.773 1 27.552 27.052 28.052 0.7787 0 0 0 0.99035 1 12028 12028 0.40072 0 1 24215 5003 15584 15640 27763 27763 0.10978091613571905 PKPILLVPLLW 11 Unmodified _PKPILLVPLLW_ 0 0 0 REV__ENSG00000166619|ENST00000373537|BLCAP REV__ENSG00000166619|ENST00000373537|BLCAP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 644.92529296875 2 644.923209 1287.83187 NaN NaN NaN NaN NaN NaN NaN 64.006 1 64.663 64.163 65.163 0.65672 0 0 0 1.0072 1 29334 29334 1.3295 0.92882 1 + 24216 13252 15585 15641 27764 27764 0.19946337332544317 PKPKIRKIIL 10 Unmodified _PKPKIRKIIL_ 0 0 0 REV__nc|ENSG00000170085|Q8NDZ2-4|SIMC1 REV__nc|ENSG00000170085|Q8NDZ2-4|SIMC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 603.4290161132812 2 603.426451 1204.83835 NaN NaN NaN NaN NaN NaN NaN 92.565 1 93.212 92.712 93.712 0.64714 0 0 0 1.0015 1 42587 42587 0.40072 0 1 + 24217 18039 15586 15642 27765 27765 0.24412275283930285 PKPKKKKH 8 Unmodified _PKPKKKKH_ 0 0 0 nc|ENSG00000065000|O14617-3|AP3D1;nc|ENSG00000065000|O14617-2|AP3D1;nc|ENSG00000065000|O14617|AP3D1;ENSG00000065000|ENST00000643116|AP3D1;ENST00000589223.5_1_19:2111584-2111854:-|nuORF nc|ENSG00000065000|O14617-3|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.8353271484375 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 59.534 1 59.534 59.034 60.034 0 0 0 0 0.99035 1 27525 27525 2.3027 1.6124 1 24218 681 15587 15643 27766 27766 0.15458042430316254 PKPKKKKH 8 Unmodified _PKPKKKKH_ 0 0 0 nc|ENSG00000065000|O14617-3|AP3D1;nc|ENSG00000065000|O14617-2|AP3D1;nc|ENSG00000065000|O14617|AP3D1;ENSG00000065000|ENST00000643116|AP3D1;ENST00000589223.5_1_19:2111584-2111854:-|nuORF nc|ENSG00000065000|O14617-3|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.8353576660156 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 38.623 1 38.887 38.387 39.387 0.26408 0 0 0 0.99035 1 17580 17580 0.69038 0.69038 1 24219 681 15587 15643 27767 27767 0.15458042430316254 PKPKKKKH 8 Unmodified _PKPKKKKH_ 0 0 0 nc|ENSG00000065000|O14617-3|AP3D1;nc|ENSG00000065000|O14617-2|AP3D1;nc|ENSG00000065000|O14617|AP3D1;ENSG00000065000|ENST00000643116|AP3D1;ENST00000589223.5_1_19:2111584-2111854:-|nuORF nc|ENSG00000065000|O14617-3|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.8348693847656 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 14.436 1 15.084 14.584 15.584 0.6482 0 0 0 0.99035 1 6498 6498 2.3027 0 1 24220 681 15587 15643 27768 27768 0.15458042430316254 PKPKLLLLLKR 11 Unmodified _PKPKLLLLLKR_ 0 0 0 REV__ENST00000416673.6_1_2:114369763-114384446:-|nuORF REV__ENST00000416673.6_1_2:114369763-114384446:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 440.31365966796875 3 440.314747 1317.92241 NaN NaN NaN NaN NaN NaN NaN 78.708 1 78.708 78.208 79.208 0 0 0 0 1.0082 1 38747 38747 0.08335 0 1 + 24221 16135 15588 15644 27769 27769 0.2761680638081998 PKPKLLPLLKR 11 Unmodified _PKPKLLPLLKR_ 0 0 0 REV__ENST00000399247.6_1_6:29694759-29696203:-|nuORF REV__ENST00000399247.6_1_6:29694759-29696203:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 651.5153198242188 2 651.952833 1301.89111 NaN NaN NaN NaN NaN NaN NaN 98.59 1 98.89 98.39 99.39 0.29987 0 0 0 1.008 1 45443 45443 0.30703 0 1 + 24222 16030 15589 15645 27770 27770 0.25224233346716574 PKPKPQRIYK 10 Unmodified _PKPKPQRIYK_ 0 0 0 REV__ENSG00000155085|ENST00000424296|AK9 REV__ENSG00000155085|ENST00000424296|AK9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 627.9559936523438 2 627.88769 1253.76083 NaN NaN NaN NaN NaN NaN NaN 14.558 1 15.206 14.706 15.706 0.6482 0 0 0 0.9754 1 6556 6556 9.3831 3.6513 1 + 24223 12733 15590 15646 27771 27771 0.1440963734773959 PKPSKKQMQ 9 Unmodified _PKPSKKQMQ_ 0 0 0 REV__ADAM32|p.Q629Tfs*9|1|0.19|ENSG00000197140|chr8:39246146-39246147|-/A|frameshift_variant REV__ADAM32|p.Q629Tfs*9|1|0.19|ENSG00000197140|chr8:39246146-39246147|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.3031005859375 2 536.302601 1070.59065 2.9476 0.0015808 -0.60682 -0.00032544 2.3408 0.0012554 536.3022820372395 62.126 0.29071 62.378 62.216 62.506 0.25245 28 12 3 0 0 0 1.0755 1 28477 28477 0.52476 0 1 1999600 + 24224 9923 15591 15647 27772 27772 0.05817778353821268 PKPSRKKKKDD 11 Unmodified _PKPSRKKKKDD_ 0 0 0 REV__ENST00000483009.1_1_1:32667515-32670212:+|nuORF REV__ENST00000483009.1_1_1:32667515-32670212:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.8988037109375 2 663.896243 1325.77793 4.2628 0.00283 -1.0902 -0.00072376 3.1726 0.0021063 663.8953177378834 91.696 1.0493 91.948 91.424 92.473 0.25214 109 49 3 0 0 0 0.91345 2 42226 42226;42279 0.30703 0.03801 1 867540 + 24225 12862 15592 15648 27773;27774 27773 0.12807513162874784 PKPTILPKKKL 11 Unmodified _PKPTILPKKKL_ 0 0 0 PCLO|p.L2497Hfs*9|1|0.05|ENSG00000186472|chr7:82953465-82953466|-/ATGA|frameshift_variant;PCLO|p.G2496Afs*27|1|0.04|ENSG00000186472|chr7:82953466-82953467|-/CTTAAATTTAGTGACTTCAG|frameshift_variant;nc|ENSG00000186472|Q9Y6V0-6|PCLO;ENSG00000186472|ENST00000333891|PCLO PCLO|p.L2497Hfs*9|1|0.05|ENSG00000186472|chr7:82953465-82953466|-/ATGA|frameshift_variant PCLO|p.L2497Hfs*9|1|0.05|ENSG00000186472|chr7:82953465-82953466|-/ATGA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 631.93212890625 2 631.931566 1261.84858 NaN NaN NaN NaN NaN NaN NaN 76.862 1 77.525 77.025 78.025 0.66303 0 0 0 1.008 1 35418 35418 0.30703 0 1 24226 5572 15593 15649 27775 27775 0.22812838218510478 PKPTLLWL 8 Unmodified _PKPTLLWL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.2156677246094 3 323.204023 966.590239 NaN NaN NaN NaN NaN NaN NaN 44.55 1 45.2 44.7 45.7 0.64998 0 0 0 0.99035 1 20421 20421 1.6526 0 1 24227 4953 15594 15650 27776 27776 0.10560726696280653 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 323.2021789550781 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 26.754 1 26.754 26.254 27.254 0 0 0 0 0.91059 1 12048 12048 0.96228 0.50394 1 + 24228 10422 15595 15651 27777 27777 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 323.20245361328125 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 26.867 1 26.867 26.367 27.367 0 0 0 0 0.90965 1 12100 12100 1.1933 0.735 1 + 24229 10422 15595 15651 27778 27778 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 323.20263671875 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 27.184 1 27.184 26.684 27.684 0 0 0 0 0.90965 1 12239 12239 1.1933 0.735 1 + 24230 10422 15595 15651 27779 27779 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 323.2021789550781 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 27.648 1 27.648 27.148 28.148 0 0 0 0 0.91059 1 12453 12453 0.96228 0.50394 1 + 24231 10422 15595 15651 27780 27780 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 323.20233154296875 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 28.146 1 28.146 27.646 28.646 0 0 0 0 0.91014 1 12686 12686 1.0715 0.61312 1 + 24232 10422 15595 15651 27781 27781 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 323.2026062011719 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 28.838 1 28.838 28.338 29.338 0 0 0 0 0.91014 1 13009 13009 1.0715 0.61312 1 + 24233 10422 15595 15651 27782 27782 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 323.2024230957031 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 27.868 1 28.654 28.154 29.154 0.78627 0 0 0 0.91014 1 12539 12539 1.0715 0.67075 1 + 24234 10422 15595 15651 27783 27783 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 323.2026672363281 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 28.742 1 29.531 29.031 30.031 0.78921 0 0 0 0.90965 1 12949 12949 1.1933 0.735 1 + 24235 10422 15595 15651 27784 27784 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 323.2022399902344 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 30.974 1 31.763 31.263 32.263 0.78879 0 0 0 0.91014 1 13992 13992 1.0715 0.61312 1 + 24236 10422 15595 15651 27785 27785 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.2022399902344 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 21.356 1 21.642 21.142 22.142 0.28662 0 0 0 0.91014 1 9669 9669 1.0715 0.20709 1 + 24237 10422 15595 15651 27786 27786 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.2025146484375 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 25.031 1 25.299 24.799 25.799 0.26777 0 0 0 0.91014 1 11355 11355 1.0715 0.61312 1 + 24238 10422 15595 15651 27787 27787 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.202392578125 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 25.767 1 26.035 25.535 26.535 0.26777 0 0 0 0.91014 1 11698 11698 1.0715 0.61312 1 + 24239 10422 15595 15651 27788 27788 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.20281982421875 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 25.951 1 26.219 25.719 26.719 0.26777 0 0 0 0.91014 1 11785 11785 1.0715 0.61312 1 + 24240 10422 15595 15651 27789 27789 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.20233154296875 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 26.069 1 26.337 25.837 26.837 0.26777 0 0 0 0.90965 1 11841 11841 1.1933 0.735 1 + 24241 10422 15595 15651 27790 27790 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.2024230957031 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 27.334 1 27.597 27.097 28.097 0.26245 0 0 0 0.91014 1 12424 12424 1.0715 0.61312 1 + 24242 10422 15595 15651 27791 27791 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.2021789550781 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 29.006 1 29.266 28.766 29.766 0.2602 0 0 0 0.91059 1 13200 13200 0.96228 0.50394 1 + 24243 10422 15595 15651 27792 27792 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.2027893066406 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 25.474 1 26.104 25.604 26.604 0.62915 0 0 0 0.90965 1 11674 11674 1.1933 0.735 1 + 24244 10422 15595 15651 27793 27793 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.2026062011719 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 25.575 1 26.2 25.7 26.7 0.62505 0 0 0 0.91014 1 11722 11722 1.0715 0.67075 1 + 24245 10422 15595 15651 27794 27794 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.2027282714844 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 25.675 1 26.3 25.8 26.8 0.62505 0 0 0 0.91014 1 11770 11770 1.0715 0.61312 1 + 24246 10422 15595 15651 27795 27795 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.2027587890625 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 26.16 1 26.785 26.285 27.285 0.62505 0 0 0 0.91059 1 11995 11995 0.96228 0.50394 1 + 24247 10422 15595 15651 27796 27796 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.2021484375 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 26.928 1 27.549 27.049 28.049 0.62179 0 0 0 0.91014 1 12345 12345 1.0715 0.61312 1 + 24248 10422 15595 15651 27797 27797 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.2024230957031 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 28.143 1 28.762 28.262 29.262 0.61947 0 0 0 0.90965 1 12905 12905 1.1933 0.23107 1 + 24249 10422 15595 15651 27798 27798 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.20263671875 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 28.42 1 29.039 28.539 29.539 0.61947 0 0 0 0.90965 1 13032 13032 1.1933 0.735 1 + 24250 10422 15595 15651 27799 27799 0.10158637202573573 PKPVPKSSK 9 Unmodified _PKPVPKSSK_ 0 0 0 REV__ENSG00000064999|ENST00000360359|ANKS1A REV__ENSG00000064999|ENST00000360359|ANKS1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.20208740234375 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 28.619 1 29.238 28.738 29.738 0.61947 0 0 0 0.90965 1 13121 13121 1.1933 0.735 1 + 24251 10422 15595 15651 27800 27800 0.10158637202573573 PKPYKKRKRKK 11 Unmodified _PKPYKKRKRKK_ 0 0 0 REV__ENST00000349223.9_1_16:68260779-68260980:+|nuORF REV__ENST00000349223.9_1_16:68260779-68260980:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 728.9854736328125 2 728.982987 1455.95142 NaN NaN NaN NaN NaN NaN NaN 73.013 1 73.712 73.212 74.212 0.69881 0 0 0 1.008 1 35183 35183 0.30703 0.30703 1 + 24252 15520 15596 15652 27801 27801 0.24168343729775188 PKQFDQENLL 10 Unmodified _PKQFDQENLL_ 0 0 0 DENND6B|p.A244*|1|0.13|ENSG00000205593|chr22:50315741-50315742|GC/-|frameshift_variant;ENST00000495607.5_1_22:50752441-50754573:-|nuORF;ENSG00000205593|ENST00000413817|DENND6B DENND6B|p.A244*|1|0.13|ENSG00000205593|chr22:50315741-50315742|GC/-|frameshift_variant DENND6B|p.A244*|1|0.13|ENSG00000205593|chr22:50315741-50315742|GC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 616.31884765625 2 616.319502 1230.62445 NaN NaN NaN NaN NaN NaN NaN 80.674 1 80.924 80.424 81.424 0.24947 0 0 0 1.0004 1 37144 37144 1.3295 0.25807 1 24253 264 15597 15653 27802 27802 0.018364783265724327 PKQLWETK 8 Unmodified _PKQLWETK_ 0 0 0 ENST00000561119.5_1_15:91145597-91161317:+|nuORF;nc|ENSG00000140577|Q6UUV7-3|CRTC3;ENSG00000140577|ENST00000268184|CRTC3 ENST00000561119.5_1_15:91145597-91161317:+|nuORF ENST00000561119.5_1_15:91145597-91161317:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.5675048828125 2 515.290017 1028.56548 NaN NaN NaN NaN NaN NaN NaN 16.837 1 16.837 16.337 17.337 0 0 0 0 0.99035 1 7468 7468 2.3027 0 1 24254 3210 15598 15654 27803 27803 0.05234046822897653 PKQPLFVPT 9 Unmodified _PKQPLFVPT_ 0 0 0 ENSG00000065526|ENST00000375759|SPEN ENSG00000065526|ENST00000375759|SPEN ENSG00000065526|ENST00000375759|SPEN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.8070068359375 2 513.80276 1025.59097 NaN NaN NaN NaN NaN NaN NaN 93.917 1 93.917 93.417 94.417 0 0 0 0 0.8984 1 50238 50238 3.9444 0 1 24255 692 15599 15655 27804 27804 0.0791952134532039 PKRARHSPRRR 11 Unmodified _PKRARHSPRRR_ 0 0 0 REV__ENSG00000188322|ENST00000341901|SBK1 REV__ENSG00000188322|ENST00000341901|SBK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 708.9299926757812 2 708.929609 1415.84466 NaN NaN NaN NaN NaN NaN NaN 58.143 1 58.143 57.643 58.643 0 0 0 0 1.008 1 26819 26819 0.30703 0 1 + 24256 14143 15600 15656 27805 27805 0.15337606287994276 PKRFPRPVYC 10 Unmodified _PKRFPRPVYC_ 0 0 0 ENST00000552687.6_1_12:56332455-56333318:+|nuORF;ENST00000552478.5_1_12:56332981-56334773:+|nuORF;nc|ENSG00000065357|P23743-3|DGKA;ENST00000551296.5_1_12:56330769-56334129:+|nuORF;ENST00000549097.5_1_12:56325880-56333318:+|nuORF;ENST00000551739.5_1_12:56332068-56333318:+|nuORF;ENST00000547358.5_1_12:56325089-56334578:+|nuORF;DGKA|p.F687Dfs*13|1|0.04|ENSG00000065357|chr12:55953154-55953155|-/TGAT|frameshift_variant;ENSG00000065357|ENST00000331886|DGKA ENST00000552687.6_1_12:56332455-56333318:+|nuORF ENST00000552687.6_1_12:56332455-56333318:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.5670471191406 3 421.565737 1261.67538 NaN NaN NaN NaN NaN NaN NaN 73.308 1 73.972 73.472 74.472 0.66398 0 0 0 1.0003 1 33684 33684 0.62683 0 1 24257 265 15601 15657 27806 27806 0.055011488904483485 PKRFVHSDDEY 11 Unmodified _PKRFVHSDDEY_ 0 0 0 REV__nc|ENSG00000130956|Q5JVS0-2|HABP4 REV__nc|ENSG00000130956|Q5JVS0-2|HABP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.8900451660156 3 464.889603 1391.64698 NaN NaN NaN NaN NaN NaN NaN 69.422 1 69.422 68.922 69.922 0 0 0 0 1.0061 1 33520 33520 1.1098 0 1 + 24258 11840 15602 15658 27807 27807 -0.033179222757780735 PKRIHLWK 8 Unmodified _PKRIHLWK_ 0 0 0 ENST00000249837.7_1_15:62315662-62325699:-|nuORF ENST00000249837.7_1_15:62315662-62325699:-|nuORF ENST00000249837.7_1_15:62315662-62325699:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.3358764648438 2 539.337636 1076.66072 NaN NaN NaN NaN NaN NaN NaN 81.537 1 81.621 81.121 82.121 0.084106 0 0 0 0.99035 1 40097 40097 2.3027 0.4585 1 24259 6499 15603 15659 27808 27808 0.12545444804595718 PKRILRWRN 9 Unmodified _PKRILRWRN_ 0 0 0 ENST00000327827.11_1_16:9212636-9212786:+|nuORF ENST00000327827.11_1_16:9212636-9212786:+|nuORF ENST00000327827.11_1_16:9212636-9212786:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.8842163085938 2 619.883273 1237.75199 NaN NaN NaN NaN NaN NaN NaN 41.75 1 41.75 41.25 42.25 0 0 0 0 0.91238 1 18994 18994 0.52476 0 1 24260 6966 15604 15660 27809 27809 0.142627085019285 PKRKKKKKKK 10 Unmodified _PKRKKKKKKK_ 0 0 0 REV__ENST00000340726.7_1_8:72274331-72274436:-|nuORF REV__ENST00000340726.7_1_8:72274331-72274436:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 648.6190185546875 2 648.969348 1295.92414 NaN NaN NaN NaN NaN NaN NaN 97.942 1 97.942 97.442 98.442 0 0 0 0 1.0015 1 53482 53482 0.40072 0 1 + 24261 15457 15605 15661 27810 27810 0.2880186018942368 PKRKKMRRRRK 11 Unmodified _PKRKKMRRRRK_ 0 0 0 ENST00000300811.7_1_19:44112133-44118443:-|nuORF ENST00000300811.7_1_19:44112133-44118443:-|nuORF ENST00000300811.7_1_19:44112133-44118443:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.0045166015625 3 514.003683 1538.98922 NaN NaN NaN NaN NaN NaN NaN 83.723 1 84.386 83.886 84.886 0.66219 0 0 0 1.0082 1 38562 38562 0.08335 0.08335 1 24262 6797 15606 15662 27811 27811 0.24128531443625434 PKRKKRKDI 9 Unmodified _PKRKKRKDI_ 0 0 0 nc|ENSG00000096717|Q96EB6-2|SIRT1;SIRT1|p.D663Rfs*2|1|0.42|ENSG00000096717|chr10:67916333-67916334|-/A|frameshift_variant;ENSG00000096717|ENST00000212015|SIRT1 nc|ENSG00000096717|Q96EB6-2|SIRT1 nc|ENSG00000096717|Q96EB6-2|SIRT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.8866577148438 2 584.885481 1167.75641 NaN NaN NaN NaN NaN NaN NaN 42.159 1 42.968 42.468 43.468 0.80855 0 0 0 0.91238 1 19142 19142 0.52476 0 1 24263 1130 15607 15663 27812 27812 0.17924172924858794 PKRKKRRRR 9 Unmodified _PKRKKRRRR_ 0 0 0 ENST00000590548.5_1_19:11597897-11616622:-|nuORF;ENSG00000161914|ENST00000293771|ZNF653 ENST00000590548.5_1_19:11597897-11616622:-|nuORF ENST00000590548.5_1_19:11597897-11616622:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 640.93603515625 2 640.934163 1279.85377 NaN NaN NaN NaN NaN NaN NaN 47.397 1 47.397 46.897 47.897 0 0 0 0 0.91238 1 21699 21699 0.52476 0 1 24264 4108 15608 15664 27813 27813 0.2250399964434564 PKRKRGRPP 9 Unmodified _PKRKRGRPP_ 0 0 0 ENSG00000025293|ENST00000374012|PHF20;nc|ENSG00000080603|Q6ZRS2-3|SRCAP;nc|ENSG00000080603|Q6ZRS2-2|SRCAP;ENSG00000080603|ENST00000262518|SRCAP ENSG00000025293|ENST00000374012|PHF20;nc|ENSG00000080603|Q6ZRS2-3|SRCAP ENSG00000025293|ENST00000374012|PHF20 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.3495483398438 2 546.349066 1090.68358 NaN NaN NaN NaN NaN NaN NaN 91.447 1 92.109 91.609 92.609 0.66198 0 0 0 0.90611 1 42084 42084 2.0598 0.40713 1 24265 477;909 15609 15665 27814 27814 0.1418646392210121 PKRKRKKKASL 11 Unmodified _PKRKRKKKASL_ 0 0 0 nc|ENSG00000164270|Q13639-9|HTR4 nc|ENSG00000164270|Q13639-9|HTR4 nc|ENSG00000164270|Q13639-9|HTR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 670.455810546875 2 670.454062 1338.89357 NaN NaN NaN NaN NaN NaN NaN 95.35 1 95.958 95.458 96.458 0.60769 0 0 0 1.008 1 43850 43850 0.30703 0 1 24266 9722 15610 15666 27815 27815 0.2376808180442822 PKRKRVKFTSY 11 Unmodified _PKRKRVKFTSY_ 0 0 0 nc|ENSG00000139364|Q14DG7|TMEM132B;ENSG00000139364|ENST00000682704|TMEM132B;nc|ENSG00000139364|Q14DG7-3|TMEM132B nc|ENSG00000139364|Q14DG7|TMEM132B nc|ENSG00000139364|Q14DG7|TMEM132B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 705.422607421875 2 705.422428 1408.8303 NaN NaN NaN NaN NaN NaN NaN 58.162 1 58.931 58.431 59.431 0.76861 0 0 0 1.0061 1 26666 26666 2.7352 1.4057 1 24267 3144 15611 15667 27816 27816 0.1422409629651611 PKRKSLDSI 9 Unmodified _PKRKSLDSI_ 0 0 0 REV__nc|ENSG00000008083|Q92833-2|JARID2 REV__nc|ENSG00000008083|Q92833-2|JARID2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 348.5459289550781 3 348.545108 1042.61349 NaN NaN NaN NaN NaN NaN NaN 17.648 1 17.848 17.348 18.348 0.20057 0 0 0 0.75166 1 7814 7814 7.1017 0 1 + 24268 10203 15612 15668 27817 27817 0.09389120742957857 PKRLHFRQ 8 Unmodified _PKRLHFRQ_ 0 0 0 ENSG00000129347|ENST00000312962|KRI1;ENST00000536689.5_1_19:10664629-10668377:-|nuORF;ENST00000537363.5_1_19:10664629-10670250:-|nuORF ENSG00000129347|ENST00000312962|KRI1 ENSG00000129347|ENST00000312962|KRI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.3228759765625 2 541.322517 1080.63048 NaN NaN NaN NaN NaN NaN NaN 13.378 1 13.622 13.122 14.122 0.24346 0 0 0 0.99035 1 5837 5837 0.69038 0.088878 1 24269 2547 15613 15669 27818 27818 0.09339086139402752 PKRLIALRK 9 Unmodified _PKRLIALRK_ 0 0 0 REV__ENST00000488454.5_1_18:47901543-47902279:+|nuORF REV__ENST00000488454.5_1_18:47901543-47902279:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.456787109375 2 547.879668 1093.74478 NaN NaN NaN NaN NaN NaN NaN 92.743 1 92.83 92.33 93.33 0.086212 0 0 0 0.91238 1 48423 48423 0.52476 0 1 + 24270 16779 15614 15670 27819 27819 0.20165975901500133 PKRLILNRRR 10 Unmodified _PKRLILNRRR_ 0 0 0 REV__ENST00000264447.8_1_2:71650545-71650620:+|nuORF REV__ENST00000264447.8_1_2:71650545-71650620:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 661.4359130859375 2 661.436204 1320.85786 NaN NaN NaN NaN NaN NaN NaN 95.42 1 96.028 95.528 96.528 0.60769 0 0 0 1.0015 1 43881 43881 0.40072 0 1 + 24271 15017 15615 15671 27820 27820 0.21026044347377137 PKRLKKKKFY 10 Unmodified _PKRLKKKKFY_ 0 0 0 REV__ENST00000553205.1_1_12:112843569-112844143:-|nuORF REV__ENST00000553205.1_1_12:112843569-112844143:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 668.4326782226562 2 668.434807 1334.85506 NaN NaN NaN NaN NaN NaN NaN 49.276 1 49.276 48.776 49.776 0 0 0 0 1.0003 1 22564 22564 1.4819 1.1749 1 + 24272 10688 15616 15672 27821 27821 0.20102776169869685 PKRLLPIRSR 10 Unmodified _PKRLLPIRSR_ 0 0 0 REV__nc|ENSG00000205238|Q495Y8-2|SPDYE2 REV__nc|ENSG00000205238|Q495Y8-2|SPDYE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 618.5440673828125 2 618.406581 1234.79861 NaN NaN NaN NaN NaN NaN NaN 15.945 1 16.156 15.656 16.656 0.21108 0 0 0 1.0015 1 7040 7040 0.40072 0.050084 1 + 24273 13607 15617 15673 27822 27822 0.19060148333210236 PKRLPLPL 8 Unmodified _PKRLPLPL_ 0 0 0 REV__ENST00000496704.1_1_2:130897130-130898075:-|nuORF REV__ENST00000496704.1_1_2:130897130-130898075:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 467.3143615722656 2 467.315838 932.617122 NaN NaN NaN NaN NaN NaN NaN 59.942 1 60.691 60.191 61.191 0.74927 0 0 0 0.99035 1 27552 27552 2.3027 0 1 + 24274 12638 15618 15674 27823 27823 0.1481183530746648 PKRLRRYILL 10 Unmodified _PKRLRRYILL_ 0 0 0 REV__nc|ENSG00000122224|Q9HBG7-2|LY9 REV__nc|ENSG00000122224|Q9HBG7-2|LY9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 664.4386596679688 2 664.437881 1326.86121 NaN NaN NaN NaN NaN NaN NaN 15.266 1 15.477 14.977 15.977 0.21108 0 0 0 1.0015 1 6728 6728 0.40072 0.093686 1 + 24275 11578 15619 15675 27824 27824 0.21085294401405008 PKRMIAWLRSL 11 Unmodified _PKRMIAWLRSL_ 0 0 0 REV__nc|ENSG00000132781|Q9UIF7-3|MUTYH REV__nc|ENSG00000132781|Q9UIF7-3|MUTYH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.9114379882812 2 685.908099 1369.80165 4.3936 0.0030136 0.85825 0.00058868 5.2519 0.0036023 685.908545510543 93.592 1.1827 93.847 93.255 94.437 0.25497 94 57 2 0 0 0 0.91111 1 42808 42808 1.1933 0.84271 1 715590 + 24276 17944 15620 15676 27825 27825 0.13153655395717578 PKRPRKRR 8 Unmodified _PKRPRKRR_ 0 0 0 ENSG00000099901|ENST00000430524|RANBP1 ENSG00000099901|ENST00000430524|RANBP1 ENSG00000099901|ENST00000430524|RANBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.953369140625 2 547.362508 1092.71046 NaN NaN NaN NaN NaN NaN NaN 56.442 1 57.22 56.72 57.72 0.77786 0 0 0 0.99035 1 25805 25805 2.3027 0 1 24277 1159 15621 15677 27826 27826 0.16781572533250255 PKRQRHER 8 Unmodified _PKRQRHER_ 0 0 0 REV__ENST00000561457.2_1_9:139007414-139007696:-|nuORF REV__ENST00000561457.2_1_9:139007414-139007696:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.8172607421875 2 553.81813 1105.62171 NaN NaN NaN NaN NaN NaN NaN 15.899 1 15.899 15.399 16.399 0 0 0 0 0.99035 1 7036 7036 0.69038 0 1 + 24278 17372 15622 15678 27827 27827 0.07312112502950185 PKRRDRRSPKR 11 Unmodified _PKRRDRRSPKR_ 0 0 0 PCF11|p.M1348Rfs*8|1|0.06|ENSG00000165494|chr11:83181066-83181067|-/GATGGAGCCTGTCTTCTTAT|frameshift_variant;nc|ENSG00000165494|O94913|PCF11;ENSG00000165494|ENST00000690938|PCF11 PCF11|p.M1348Rfs*8|1|0.06|ENSG00000165494|chr11:83181066-83181067|-/GATGGAGCCTGTCTTCTTAT|frameshift_variant PCF11|p.M1348Rfs*8|1|0.06|ENSG00000165494|chr11:83181066-83181067|-/GATGGAGCCTGTCTTCTTAT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.57196044921875 3 484.630791 1450.87055 NaN NaN NaN NaN NaN NaN NaN 71.085 1 71.789 71.289 72.289 0.70386 0 0 0 1.0074 1 34118 34118 1.1098 0.096179 1 24279 4402 15623 15679 27828 27828 0.16314455739620826 PKRRFYRQFKF 11 Unmodified _PKRRFYRQFKF_ 0 0 0 REV__ENSG00000075035|ENST00000547525|WSCD2 REV__ENSG00000075035|ENST00000547525|WSCD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 786.9530639648438 2 786.949144 1571.88374 NaN NaN NaN NaN NaN NaN NaN 96.007 1 96.007 95.507 96.507 0 0 0 0 1.008 1 51856 51856 0.30703 0 1 + 24280 10522 15624 15680 27829 27829 0.12066893798987621 PKRRFYRQFKF 11 Unmodified _PKRRFYRQFKF_ 0 0 0 REV__ENSG00000075035|ENST00000547525|WSCD2 REV__ENSG00000075035|ENST00000547525|WSCD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 786.6895141601562 2 786.949144 1571.88374 NaN NaN NaN NaN NaN NaN NaN 77.207 1 77.768 77.268 78.268 0.56091 0 0 0 1.008 1 37434 37434 0.30703 0 1 + 24281 10522 15624 15680 27830 27830 0.12066893798987621 PKRRFYWE 8 Unmodified _PKRRFYWE_ 0 0 0 ENST00000505213.5_2_13:33112769-33112853:-|nuORF ENST00000505213.5_2_13:33112769-33112853:-|nuORF ENST00000505213.5_2_13:33112769-33112853:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.3137817382812 2 591.314358 1180.61416 NaN NaN NaN NaN NaN NaN NaN 92.063 1 92.316 91.816 92.816 0.25253 0 0 0 0.99035 1 42325 42325 0.69038 0.088878 1 24282 8500 15625 15681 27831 27831 0.03107960182660463 PKRRIILY 8 Unmodified _PKRRIILY_ 0 0 0 REV__ENST00000573209.1_1_17:7350776-7358776:+|nuORF REV__ENST00000573209.1_1_17:7350776-7358776:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.8472290039062 2 529.845294 1057.67603 NaN NaN NaN NaN NaN NaN NaN 79.531 1 79.851 79.351 80.351 0.31998 0 0 0 0.99035 1 38854 38854 0.69038 0 1 + 24283 12042 15626 15682 27832 27832 0.14950311601819521 PKRRKPNR 8 Unmodified _PKRRKPNR_ 0 0 0 ENST00000606448.1_1_13:103047077-103047416:+|nuORF ENST00000606448.1_1_13:103047077-103047416:+|nuORF ENST00000606448.1_1_13:103047077-103047416:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.3353881835938 2 526.333416 1050.65228 3.4487 0.0018152 -0.86995 -0.00045788 2.5788 0.0013573 526.3329663478377 87.178 0.35768 87.854 87.808 88.166 0.67555 21 15 2 0 0 0 0.7471 1 40261 40261 0.69038 0 1 768420 24284 9322 15627 15683 27833 27833 0.12897890887961694 PKRRKPNR 8 Unmodified _PKRRKPNR_ 0 0 0 ENST00000606448.1_1_13:103047077-103047416:+|nuORF ENST00000606448.1_1_13:103047077-103047416:+|nuORF ENST00000606448.1_1_13:103047077-103047416:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 526.333416 1050.65228 3.5412 0.0018638 -0.73244 -0.00038551 2.8087 0.0014783 526.3331317369183 87.583 0.20331 87.834 87.693 87.897 0.25064 -0.010058 7.5667E-05 NaN 0.69038 15 8 2 NaN NaN NaN NaN 0 NaN NaN 0 619690 24285 9322 15627 15683 0.12897890887961694 PKRRKPNR 8 Unmodified _PKRRKPNR_ 0 0 0 ENST00000606448.1_1_13:103047077-103047416:+|nuORF ENST00000606448.1_1_13:103047077-103047416:+|nuORF ENST00000606448.1_1_13:103047077-103047416:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 526.333416 1050.65228 3.4487 0.0018152 -0.86995 -0.00045788 2.5788 0.0013573 526.3329663478377 87.178 0.35768 87.854 87.808 88.166 0.67555 0.010058 -6.9086E-05 NaN 0.69038 21 15 2 NaN NaN NaN NaN 0 NaN NaN 0 768420 24286 9322 15627 15683 0.12897890887961694 PKRRKPRVKRP 11 Unmodified _PKRRKPRVKRP_ 0 0 0 ENST00000562886.1_1_16:84088056-84093058:-|nuORF;ENSG00000140943|ENST00000343411|MBTPS1 ENST00000562886.1_1_16:84088056-84093058:-|nuORF ENST00000562886.1_1_16:84088056-84093058:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 709.4686889648438 2 709.470578 1416.9266 NaN NaN NaN NaN NaN NaN NaN 92.968 1 93.054 92.554 93.554 0.086212 0 0 0 1.008 1 48589 48589 0.30703 0 1 24287 3223 15628 15684 27834 27834 0.23481708647091182 PKRRLLPRVRL 11 Unmodified _PKRRLLPRVRL_ 0 0 0 nc|ENSG00000011478|Q9NXS2-3|QPCTL;ENSG00000011478|ENST00000012049|QPCTL nc|ENSG00000011478|Q9NXS2-3|QPCTL nc|ENSG00000011478|Q9NXS2-3|QPCTL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 702.474609375 2 702.475329 1402.93611 NaN NaN NaN NaN NaN NaN NaN 79.119 1 79.583 79.083 80.083 0.4642 0 0 0 1.008 1 38609 38609 0.30703 0 1 24288 418 15629 15685 27835 27835 0.2507547693262495 PKRRMQPLLY 10 Unmodified _PKRRMQPLLY_ 0 0 0 Harlequin-int_dup17|chr1:46326040-46329561:-|10.003084288088008|0.3399966488246573|4.88|534.0|101|3|sense Harlequin-int_dup17|chr1:46326040-46329561:-|10.003084288088008|0.3399966488246573|4.88|534.0|101|3|sense Harlequin-int_dup17|chr1:46326040-46329561:-|10.003084288088008|0.3399966488246573|4.88|534.0|101|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 651.08740234375 2 651.379175 1300.7438 NaN NaN NaN NaN NaN NaN NaN 13.787 1 13.787 13.287 14.287 0 0 0 0 1.0003 1 6055 6055 1.4819 0.15237 1 24289 9375 15630 15686 27836 27836 0.10545393470306408 PKRRPKARRRR 11 Unmodified _PKRRPKARRRR_ 0 0 0 ENST00000606621.1_1_6:85472779-85472989:-|nuORF ENST00000606621.1_1_6:85472779-85472989:-|nuORF ENST00000606621.1_1_6:85472779-85472989:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.5605163574219 3 492.990543 1475.9498 NaN NaN NaN NaN NaN NaN NaN 87.94 1 87.94 87.44 88.44 0 0 0 0 1.0079 1 45497 45497 0.45452 0.046251 1 24290 9325 15631 15687 27837 27837 0.23086147484423236 PKRRRKPQ 8 Unmodified _PKRRRKPQ_ 0 0 0 ENSG00000170468|ENST00000304061|RIOX1 ENSG00000170468|ENST00000304061|RIOX1 ENSG00000170468|ENST00000304061|RIOX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.3421020507812 2 533.341241 1064.66793 1.9555 0.001043 -0.4968 -0.00026497 1.4587 0.00077801 533.3408762493497 95.79 0.17165 95.872 95.765 95.936 0.082001 31 23 2 0 0 0 0.7471 1 50708 50708 0.69038 0 1 8587100 24291 4750 15632 15688 27838 27838 0.1381817740502811 PKRRRKPQ 8 Unmodified _PKRRRKPQ_ 0 0 0 ENSG00000170468|ENST00000304061|RIOX1 ENSG00000170468|ENST00000304061|RIOX1 ENSG00000170468|ENST00000304061|RIOX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.3421630859375 2 533.341241 1064.66793 3.4523 0.0018413 -1.8566 -0.00099018 1.5958 0.00085109 533.340152625722 101.95 0.15816 102.55 102.44 102.6 0.59759 12 6 3 0 0 0 0.7471 1 47204 47204 0.69038 0 1 478420 24292 4750 15632 15688 27839 27839 0.1381817740502811 PKRRRKPQ 8 Unmodified _PKRRRKPQ_ 0 0 0 ENSG00000170468|ENST00000304061|RIOX1 ENSG00000170468|ENST00000304061|RIOX1 ENSG00000170468|ENST00000304061|RIOX1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 533.341241 1064.66793 3.804 0.0020288 -1.4776 -0.00078805 2.3264 0.0012408 533.3402805118529 95.695 0.52181 95.962 95.711 96.233 0.2675 0.081948 -7.1286E-05 NaN 0.69038 87 28 4 NaN NaN NaN NaN 0 NaN NaN 0 11149000 24293 4750 15632 15688 0.1381817740502811 PKRRRLWRQR 10 Unmodified _PKRRRLWRQR_ 0 0 0 ENST00000356840.7_1_6:16129383-16129569:+|nuORF ENST00000356840.7_1_6:16129383-16129569:+|nuORF ENST00000356840.7_1_6:16129383-16129569:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 726.4473266601562 2 726.450177 1450.8858 NaN NaN NaN NaN NaN NaN NaN 69.989 1 70.65 70.15 71.15 0.66071 0 0 0 1.0015 1 32090 32090 0.40072 0.093686 1 24294 7163 15633 15689 27840 27840 0.17839367327474065 PKRRRPAGKA 10 Unmodified _PKRRRPAGKA_ 0 0 0 REV__SHC1|p.T206P|1|0.12|ENSG00000160691|chr1:154968785-154968785|T/G|missense_variant REV__SHC1|p.T206P|1|0.12|ENSG00000160691|chr1:154968785-154968785|T/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.8250732421875 2 568.859798 1135.70504 NaN NaN NaN NaN NaN NaN NaN 16.735 1 16.735 16.235 17.235 0 0 0 0 1.0003 1 7421 7421 1.4819 0.79152 1 + 24295 18210 15634 15690 27841 27841 0.14261848950809508 PKRRRRHMENE 11 Unmodified _PKRRRRHMENE_ 0 0 0 nc|ENSG00000166436|O15016-2|TRIM66;nc|ENSG00000166436|O15016|TRIM66;ENSG00000166436|ENST00000646038|TRIM66 nc|ENSG00000166436|O15016-2|TRIM66 nc|ENSG00000166436|O15016-2|TRIM66 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 754.8646240234375 2 754.902399 1507.79025 NaN NaN NaN NaN NaN NaN NaN 66.275 1 66.931 66.431 67.431 0.65672 0 0 0 1.008 1 30385 30385 0.30703 0 1 24296 4484 15635 15691 27842 27842 0.05666226354264836 PKRRRRNRRH 10 Unmodified _PKRRRRNRRH_ 0 0 0 REV__ENST00000464624.6_1_20:57428320-57466719:+|nuORF REV__ENST00000464624.6_1_20:57428320-57466719:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 716.4380493164062 2 716.440675 1430.8668 NaN NaN NaN NaN NaN NaN NaN 94.941 1 95.2 94.7 95.7 0.25975 0 0 0 1.0015 1 43625 43625 0.40072 0.093686 1 + 24297 16532 15636 15692 27843 27843 0.1685983075644799 PKRRRWRQPRI 11 Unmodified _PKRRRWRQPRI_ 0 0 0 ENST00000293604.10_1_6:30620706-30620838:+|nuORF ENST00000293604.10_1_6:30620706-30620838:+|nuORF ENST00000293604.10_1_6:30620706-30620838:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.9871826171875 3 516.986798 1547.93856 NaN NaN NaN NaN NaN NaN NaN 48.315 1 49.142 48.642 49.642 0.82705 0 0 0 1.0079 1 22010 22010 0.45452 0.35968 1 24298 6743 15637 15693 27844 27844 0.18651325390305828 PKRRRWRQPRI 11 Unmodified _PKRRRWRQPRI_ 0 0 0 ENST00000293604.10_1_6:30620706-30620838:+|nuORF ENST00000293604.10_1_6:30620706-30620838:+|nuORF ENST00000293604.10_1_6:30620706-30620838:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 775.4267578125 2 774.976559 1547.93856 3.9345 0.0030491 -2.9162 -0.00226 1.0183 0.00078917 774.9746111402467 49.256 0.20067 49.517 49.387 49.587 0.26146 10 7 2 0 0 0 0.91462 1 22527 22527 0.30703 0.30703 1 372620 24299 6743 15637 15693 27845 27845 0.18651325390305828 PKRRSPSPRRE 11 Unmodified _PKRRSPSPRRE_ 0 0 0 nc|ENSG00000134748|Q8NAV1-2|PRPF38A;ENSG00000134748|ENST00000257181|PRPF38A nc|ENSG00000134748|Q8NAV1-2|PRPF38A nc|ENSG00000134748|Q8NAV1-2|PRPF38A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 683.0377197265625 2 683.394733 1364.77491 NaN NaN NaN NaN NaN NaN NaN 90.272 1 90.272 89.772 90.772 0 0 0 0 1.0061 1 47394 47394 2.7352 1.0826 1 24300 2825 15638 15694 27846 27846 0.10711682828741687 PKRVIKHI 8 Unmodified _PKRVIKHI_ 0 0 0 REV__nc|ENSG00000162711|Q96P20-3|NLRP3 REV__nc|ENSG00000162711|Q96P20-3|NLRP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.8346252441406 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 65.891 1 66.139 65.639 66.639 0.24848 0 0 0 0.99035 1 30186 30186 2.5775 0 1 + 24301 12953 15639 15695 27847 27847 0.15458042430316254 PKRVIKHI 8 Unmodified _PKRVIKHI_ 0 0 0 REV__nc|ENSG00000162711|Q96P20-3|NLRP3 REV__nc|ENSG00000162711|Q96P20-3|NLRP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.8346862792969 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 70.355 1 70.611 70.111 71.111 0.25642 0 0 0 0.99035 1 32221 32221 2.5775 0 1 + 24302 12953 15639 15695 27848 27848 0.15458042430316254 PKRVIKHI 8 Unmodified _PKRVIKHI_ 0 0 0 REV__nc|ENSG00000162711|Q96P20-3|NLRP3 REV__nc|ENSG00000162711|Q96P20-3|NLRP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.83392333984375 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 85.588 1 85.837 85.337 86.337 0.24857 0 0 0 0.99035 1 39384 39384 2.5775 0 1 + 24303 12953 15639 15695 27849 27849 0.15458042430316254 PKRVIKHI 8 Unmodified _PKRVIKHI_ 0 0 0 REV__nc|ENSG00000162711|Q96P20-3|NLRP3 REV__nc|ENSG00000162711|Q96P20-3|NLRP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.8348388671875 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 91.115 1 91.367 90.867 91.867 0.25163 0 0 0 0.99035 1 41898 41898 2.5775 0 1 + 24304 12953 15639 15695 27850 27850 0.15458042430316254 PKRVIKHI 8 Unmodified _PKRVIKHI_ 0 0 0 REV__nc|ENSG00000162711|Q96P20-3|NLRP3 REV__nc|ENSG00000162711|Q96P20-3|NLRP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.83489990234375 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 87.392 1 88.068 87.568 88.568 0.67555 0 0 0 0.99035 1 40255 40255 2.5775 0 1 + 24305 12953 15639 15695 27851 27851 0.15458042430316254 PKRVLLYVRK 10 Unmodified _PKRVLLYVRK_ 0 0 0 ENSG00000134317|ENST00000324907|GRHL1;nc|ENSG00000134317|Q9NZI5-2|GRHL1 ENSG00000134317|ENST00000324907|GRHL1 ENSG00000134317|ENST00000324907|GRHL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 636.4190063476562 2 636.419157 1270.82376 NaN NaN NaN NaN NaN NaN NaN 83.52 1 84.182 83.682 84.682 0.66219 0 0 0 1.0003 1 38469 38469 1.4819 1.0236 1 24306 2800 15640 15696 27852 27852 0.19918203135785006 PKRVLMGRPR 10 Unmodified _PKRVLMGRPR_ 0 0 0 REV__ENST00000265896.9_1_8:126010760-126010880:+|nuORF REV__ENST00000265896.9_1_8:126010760-126010880:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.91815185546875 3 403.916881 1208.72881 3.2963 0.0013314 0.62723 0.00025335 3.9236 0.0015848 403.9170987756308 88.947 0.48209 89.199 88.975 89.457 0.25118 34 18 3 0 0 0 0.93713 1 40934 40934 0.62683 0 1 851130 + 24307 15037 15641 15697 27853 27853 0.13279946392958664 PKRVLMGRPR 10 Unmodified _PKRVLMGRPR_ 0 0 0 REV__ENST00000265896.9_1_8:126010760-126010880:+|nuORF REV__ENST00000265896.9_1_8:126010760-126010880:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 403.9193420410156 3 403.916881 1208.72881 3.1044 0.0012539 0.49509 0.00019997 3.5994 0.0014539 403.91706545807614 88.351 0.57555 89.03 88.723 89.299 0.67818 52 23 3 0 0 0 0.93713 1 40736 40736 1.7423 1.2363 1 570190 + 24308 15037 15641 15697 27854 27854 0.13279946392958664 PKRWRIHIHRR 11 Unmodified _PKRWRIHIHRR_ 0 0 0 REV__nc|ENSG00000197558|A2VEC9|SSPOP REV__nc|ENSG00000197558|A2VEC9|SSPOP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 518.6439208984375 3 518.983277 1553.928 NaN NaN NaN NaN NaN NaN NaN 72.346 1 72.604 72.104 73.104 0.25876 0 0 0 1.0079 1 33210 33210 0.45452 0.046251 1 + 24309 18096 15642 15698 27855 27855 0.17319342735868304 PKRYFWKNTNM 11 Unmodified _PKRYFWKNTNM_ 0 0 0 ENST00000263672.10_2_11:74676145-74676850:+|nuORF ENST00000263672.10_2_11:74676145-74676850:+|nuORF ENST00000263672.10_2_11:74676145-74676850:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.5848693847656 3 495.587089 1483.73944 NaN NaN NaN NaN NaN NaN NaN 58.899 1 59.657 59.157 60.157 0.75894 0 0 0 1.0064 1 27058 27058 2.4348 1.22 1 24310 6594 15643 15699 27856 27856 0.016918842567292813 PKRYIYFRERE 11 Unmodified _PKRYIYFRERE_ 0 0 0 REV__nc|ENSG00000138688|Q2LD37-4|BLTP1 REV__nc|ENSG00000138688|Q2LD37-4|BLTP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 778.8120727539062 2 778.920249 1555.82595 NaN NaN NaN NaN NaN NaN NaN 82.036 1 82.036 81.536 82.536 0 0 0 0 1.008 1 40947 40947 0.30703 0.30703 1 + 24311 12183 15644 15700 27857 27857 0.07026587082896185 PKSGVKIH 8 Unmodified _PKSGVKIH_ 0 0 0 ENSG00000130985|ENST00000335972|UBA1;nc|ENSG00000130985|P22314-2|UBA1 ENSG00000130985|ENST00000335972|UBA1 ENSG00000130985|ENST00000335972|UBA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 433.2663879394531 2 433.266345 864.518136 NaN NaN NaN NaN NaN NaN NaN 74.361 1 74.619 74.119 75.119 0.25831 0 0 0 0.99035 1 34197 34197 4.3292 0.38484 1 24312 2632 15645 15701 27858 27858 0.08045812342561476 PKSILKRLR 9 Unmodified _PKSILKRLR_ 0 0 0 REV__nc|ENSG00000138182|Q96Q89-2|KIF20B REV__nc|ENSG00000138182|Q96Q89-2|KIF20B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.874755859375 2 555.877125 1109.7397 NaN NaN NaN NaN NaN NaN NaN 76.208 1 76.208 75.708 76.708 0 0 0 0 0.90777 1 37346 37346 1.6526 0 1 + 24313 17957 15646 15702 27859 27859 0.18921672038868564 PKSLMKEKRER 11 Unmodified _PKSLMKEKRER_ 0 0 0 REV__ENSG00000197077|ENST00000358431|KIAA1671 REV__ENSG00000197077|ENST00000358431|KIAA1671 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 701.1025390625 2 701.403378 1400.7922 NaN NaN NaN NaN NaN NaN NaN 80.302 1 80.621 80.121 81.121 0.31998 0 0 0 1.0065 1 39321 39321 2.2828 0.95324 1 + 24314 14256 15647 15703 27860 27860 0.1078384231950622 PKSRERIREQ 10 Unmodified _PKSRERIREQ_ 0 0 0 REV__nc|ENSG00000111341|P08493-2|MGP REV__nc|ENSG00000111341|P08493-2|MGP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 649.8692626953125 2 649.868017 1297.72148 NaN NaN NaN NaN NaN NaN NaN 69.666 1 69.921 69.421 70.421 0.25443 0 0 0 1.0004 1 31902 31902 1.3295 0.13619 1 + 24315 17894 15648 15704 27861 27861 0.0845288532620998 PKSRKVLLEAI 11 Unmodified _PKSRKVLLEAI_ 0 0 0 ENST00000424478.5_1_14:45565874-45584113:+|nuORF;ENSG00000185246|ENST00000355765|PRPF39;nc|ENSG00000185246|Q86UA1-2|PRPF39;ENST00000554785.1_1_14:45579308-45583868:+|nuORF ENST00000424478.5_1_14:45565874-45584113:+|nuORF ENST00000424478.5_1_14:45565874-45584113:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 627.3987426757812 2 627.40063 1252.78671 NaN NaN NaN NaN NaN NaN NaN 79.689 1 80.35 79.85 80.85 0.66082 0 0 0 1.0061 1 36718 36718 2.7352 0.89096 1 24316 5499 15649 15705 27862 27862 0.17042486799368817 PKSRLRRRWPR 11 Unmodified _PKSRLRRRWPR_ 0 0 0 REV__ENST00000487247.5_1_7:75612754-75613000:+|nuORF REV__ENST00000487247.5_1_7:75612754-75613000:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 754.46044921875 2 754.463284 1506.91202 NaN NaN NaN NaN NaN NaN NaN 66.723 1 66.723 66.223 67.223 0 0 0 0 1.008 1 31916 31916 0.30703 0 1 + 24317 16765 15650 15706 27863 27863 0.1788363649893654 PKSRYRIR 8 Unmodified _PKSRYRIR_ 0 0 0 nc|ENSG00000196091|Q00872-5|MYBPC1;nc|ENSG00000196091|Q00872-3|MYBPC1;nc|ENSG00000196091|Q00872-9|MYBPC1;nc|ENSG00000196091|Q00872-8|MYBPC1;nc|ENSG00000196091|Q00872-7|MYBPC1;nc|ENSG00000196091|Q00872|MYBPC1;nc|ENSG00000196091|Q00872-10|MYBPC1;nc|ENSG00000196091|Q00872-2|MYBPC1;ENSG00000196091|ENST00000361466|MYBPC1;nc|ENSG00000196091|Q00872-6|MYBPC1 nc|ENSG00000196091|Q00872-5|MYBPC1 nc|ENSG00000196091|Q00872-5|MYBPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.3294677734375 2 538.327799 1074.64105 3.9406 0.0021214 -1.1272 -0.00060682 2.8134 0.0015145 538.3270684943617 97.423 0.35515 97.712 97.493 97.848 0.28923 59 17 5 0 0 0 0.7471 1 44694 44694 0.69038 0.088878 1 48021000 24318 5717 15651 15707 27864 27864 0.1067106879381754 PKSSFKSMF 9 Unmodified _PKSSFKSMF_ 0 0 0 REV__ENST00000572251.1_1_17:6698155-6699456:+|nuORF REV__ENST00000572251.1_1_17:6698155-6699456:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.7724609375 2 529.770603 1057.52665 3.1598 0.001674 0.55739 0.00029529 3.7172 0.0019693 529.7708942880704 32.973 0.59235 33.591 33.246 33.838 0.61831 52 29 2 0 0 0 1.1412 1 15032 15032 1.6526 0 1 345130 + 24319 17454 15652 15708 27865 27865 0.00018998196878783347 PKSVENKTKK 10 Unmodified _PKSVENKTKK_ 0 0 0 REV__ENSG00000151748|ENST00000324679|SAV1 REV__ENSG00000151748|ENST00000324679|SAV1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 579.8452758789062 2 579.845687 1157.67682 NaN NaN NaN NaN NaN NaN NaN 88.447 1 88.698 88.198 89.198 0.25118 0 0 0 1.0004 1 40696 40696 1.3295 0 1 + 24320 12629 15653 15709 27866 27866 0.10429061460149569 PKTCKRKT 8 Unmodified _PKTCKRKT_ 0 0 0 ENST00000503148.1_1_4:164438551-164440663:+|nuORF;ENSG00000198498|ENST00000358572|TMA16 ENST00000503148.1_1_4:164438551-164440663:+|nuORF ENST00000503148.1_1_4:164438551-164440663:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.2853698730469 2 481.284211 960.55387 NaN NaN NaN NaN NaN NaN NaN 98.668 1 98.968 98.468 99.468 0.29987 0 0 0 0.99035 1 45486 45486 4.756 0 1 24321 5893 15654 15710 27867 27867 0.07201526527899205 PKTDKRKEE 9 Unmodified _PKTDKRKEE_ 0 0 0 REV__ENSG00000166963|ENST00000300231|MAP1A REV__ENSG00000166963|ENST00000300231|MAP1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 565.8104858398438 2 565.811845 1129.60914 NaN NaN NaN NaN NaN NaN NaN 93.894 1 94.153 93.653 94.653 0.25832 0 0 0 0.90777 1 43152 43152 1.6526 0.32309 1 + 24322 13273 15655 15711 27868 27868 0.049516115293727125 PKTIKKLRWF 10 Unmodified _PKTIKKLRWF_ 0 0 0 ENSG00000110318|ENST00000263468|CEP126 ENSG00000110318|ENST00000263468|CEP126 ENSG00000110318|ENST00000263468|CEP126 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 658.9190673828125 2 658.913707 1315.81286 NaN NaN NaN NaN NaN NaN NaN 13.525 1 13.768 13.268 14.268 0.24346 0 0 0 1.0015 1 5907 5907 0.40072 0.050084 1 24323 1707 15656 15712 27869 27869 0.16758800761499515 PKTINPRRKPR 11 Unmodified _PKTINPRRKPR_ 0 0 0 L1P2_dup354|chr3:177908608-177914071:+|1.579459827711941|0.1324791782257567|3.58|528.0|93|2|sense L1P2_dup354|chr3:177908608-177914071:+|1.579459827711941|0.1324791782257567|3.58|528.0|93|2|sense L1P2_dup354|chr3:177908608-177914071:+|1.579459827711941|0.1324791782257567|3.58|528.0|93|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 681.9255981445312 2 681.925669 1361.83679 NaN NaN NaN NaN NaN NaN NaN 71.782 1 72.486 71.986 72.986 0.70386 0 0 0 1.0047 1 34510 34510 4.5289 1.2476 1 24324 9456 15657 15713 27870 27870 0.17034034247876662 PKTIPITPV 9 Unmodified _PKTIPITPV_ 0 0 0 REV__nc|ENSG00000173120|Q9Y2K7-5|KDM2A REV__nc|ENSG00000173120|Q9Y2K7-5|KDM2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.3072814941406 2 483.305136 964.595718 NaN NaN NaN NaN NaN NaN NaN 59.222 1 59.981 59.481 60.481 0.75894 0 0 0 0.89683 1 27219 27219 4.3292 2.0265 1 + 24325 13583 15658 15714 27871 27871 0.11200405488079923 PKTIQKKLK 9 Unmodified _PKTIQKKLK_ 0 0 0 L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|6|1|sense L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|6|1|sense L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|6|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.3678588867188 2 542.366059 1082.71756 4.1726 0.0022631 -1.2847 -0.00069676 2.888 0.0015663 542.3654020136572 105.49 0.12065 105.81 105.73 105.85 0.31781 7 4 2 0 0 0 1.2126 1 48702 48702 0.52476 0.066424 1 944760 24326 9460 15659 15715 27872 27872 0.17951447570453638 PKTKKGRKRI 10 Unmodified _PKTKKGRKRI_ 0 0 0 REV__ENST00000529500.1_1_11:47447261-47447800:-|nuORF REV__ENST00000529500.1_1_11:47447261-47447800:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 606.3724975585938 2 606.406581 1210.79861 NaN NaN NaN NaN NaN NaN NaN 87.437 1 87.687 87.187 88.187 0.25064 0 0 0 1.0004 1 40242 40242 1.3295 0.72803 1 + 24327 17127 15660 15716 27873 27873 0.201641483332196 PKTKLLCKHL 10 Unmodified _PKTKLLCKHL_ 0 0 0 ENST00000519187.5_2_8:133771681-133772790:-|nuORF;ENST00000519016.5_2_8:133771146-133772850:-|nuORF;ENST00000519304.1_2_8:133771146-133772790:-|nuORF ENST00000519187.5_2_8:133771681-133772790:-|nuORF ENST00000519187.5_2_8:133771681-133772790:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.247802734375 3 394.246005 1179.71618 3.7881 0.0014934 1.185 0.00046718 4.9731 0.0019606 394.2463013280206 99.409 0.14636 99.718 99.652 99.798 0.30835 22 7 4 0 0 0 0.93713 1 45914 45914 0.62683 0.39098 1 7753100 24328 8614 15661 15717 27874 27874 0.1335149021003872 PKTKLLCKHL 10 Unmodified _PKTKLLCKHL_ 0 0 0 ENST00000519187.5_2_8:133771681-133772790:-|nuORF;ENST00000519016.5_2_8:133771146-133772850:-|nuORF;ENST00000519304.1_2_8:133771146-133772790:-|nuORF ENST00000519187.5_2_8:133771681-133772790:-|nuORF ENST00000519187.5_2_8:133771681-133772790:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.2477111816406 3 394.246005 1179.71618 3.0784 0.0012137 1.3838 0.00054555 4.4622 0.0017592 394.2464253205067 99.282 0.16479 99.879 99.791 99.956 0.59748 20 8 3 0 0 0 0.90859 1 45893 45893 1.5923 1.1378 1 7909400 24329 8614 15661 15717 27875 27875 0.1335149021003872 PKTKLLCKHL 10 Unmodified _PKTKLLCKHL_ 0 0 0 ENST00000519187.5_2_8:133771681-133772790:-|nuORF;ENST00000519016.5_2_8:133771146-133772850:-|nuORF;ENST00000519304.1_2_8:133771146-133772790:-|nuORF ENST00000519187.5_2_8:133771681-133772790:-|nuORF ENST00000519187.5_2_8:133771681-133772790:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 394.246005 1179.71618 3.7881 0.0014934 1.185 0.00046718 4.9731 0.0019606 394.2463013280206 99.409 0.14636 99.718 99.652 99.798 0.30835 -0.08088 -8.8283E-05 NaN 1.5923 22 7 4 NaN NaN NaN NaN 0 NaN NaN 0 7753100 24330 8614 15661 15717 0.1335149021003872 PKTKPQISRR 10 Unmodified _PKTKPQISRR_ 0 0 0 REV__nc|ENSG00000144406|Q8N2C7-7|UNC80 REV__nc|ENSG00000144406|Q8N2C7-7|UNC80 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 605.8740844726562 2 605.872571 1209.73059 4.3836 0.0026559 -1.2973 -0.00078601 3.0863 0.0018699 605.8716530204588 95.918 0.43704 96.186 96.017 96.454 0.2675 60 22 4 0 0 0 0.93658 1 44083 44083 3.2813 0.54611 1 2162500 + 24331 12401 15662 15718 27876 27876 0.13411278682519878 PKTKPQISRR 10 Unmodified _PKTKPQISRR_ 0 0 0 REV__nc|ENSG00000144406|Q8N2C7-7|UNC80 REV__nc|ENSG00000144406|Q8N2C7-7|UNC80 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 605.8753662109375 2 605.872571 1209.73059 3.9542 0.0023957 -0.88365 -0.00053538 3.0705 0.0018603 605.8717670858961 95.408 0.53008 96.015 95.804 96.334 0.60769 75 28 4 0 0 0 0.93658 2 43830 43830;43887 3.2813 0.54611 1 2670900 + 24332 12401 15662 15718 27877;27878 27877 0.13411278682519878 PKTKQTQI 8 Unmodified _PKTKQTQI_ 0 0 0 REV__nc|ENSG00000078487|Q9H0M4-4|ZCWPW1 REV__nc|ENSG00000078487|Q9H0M4-4|ZCWPW1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.2853088378906 2 472.282192 942.549831 NaN NaN NaN NaN NaN NaN NaN 96.228 1 96.835 96.335 97.335 0.60769 0 0 0 0.97647 1 44247 44247 7.2892 1.0834 1 + 24333 10571 15663 15719 27879 27879 0.0762576030585933 PKTKRKKKNN 10 Unmodified _PKTKRKKKNN_ 0 0 0 ENSG00000188994|ENST00000369577|ZNF292;nc|ENSG00000188994|O60281-2|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 621.3955078125 2 621.39367 1240.77279 4.4821 0.0027851 -2.0004 -0.0012431 2.4816 0.0015421 621.3924654025453 99.925 0.106 100.23 100.16 100.26 0.30835 9 4 3 0 0 0 0.93658 1 46208 46208 3.2813 1.7994 1 3773400 24334 5695 15664 15720 27880 27880 0.1620325409094221 PKTKRKKKNN 10 Unmodified _PKTKRKKKNN_ 0 0 0 ENSG00000188994|ENST00000369577|ZNF292;nc|ENSG00000188994|O60281-2|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.5986022949219 3 414.598206 1240.77279 3.195 0.0013247 -1.2294 -0.00050973 1.9656 0.00081493 414.59762281223266 99.79 0.093018 100.39 100.33 100.42 0.59717 11 4 4 0 0 0 0.94134 1 46176 46176 0.62683 0.26015 1 4374500 24335 5695 15664 15720 27881 27881 0.1620325409094221 PKTKRKKKNN 10 Unmodified _PKTKRKKKNN_ 0 0 0 ENSG00000188994|ENST00000369577|ZNF292;nc|ENSG00000188994|O60281-2|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 621.39367 1240.77279 2.1371 0.001328 -0.84161 -0.00052297 1.2955 0.00080499 621.3923256198257 99.945 0.088013 100.01 99.961 100.05 0.062241 -0.20164 0.00058235 NaN 3.2813 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 9159900 24336 5695 15664 15720 0.1620325409094221 PKTKRKKKNN 10 Unmodified _PKTKRKKKNN_ 0 0 0 ENSG00000188994|ENST00000369577|ZNF292;nc|ENSG00000188994|O60281-2|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 621.39367 1240.77279 3.8939 0.0024196 -0.98831 -0.00061413 2.9056 0.0018055 621.392956393455 99.79 0.13531 100.39 100.33 100.46 0.59717 0.17736 0.00040004 NaN 3.2813 11 6 4 NaN NaN NaN NaN 0 NaN NaN 0 12206000 24337 5695 15664 15720 0.1620325409094221 PKTKRPRGR 9 Unmodified _PKTKRPRGR_ 0 0 0 REV__nc|ENSG00000076108|Q9UIF9-2|BAZ2A REV__nc|ENSG00000076108|Q9UIF9-2|BAZ2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.34814453125 2 548.346523 1094.67849 3.7015 0.0020297 -0.66288 -0.00036349 3.0386 0.0016662 548.3460194030157 89.377 0.50767 90.055 89.946 90.453 0.67818 44 24 3 0 0 0 1.0041 1 41158 41158 3.9444 2.1002 1 1009000 + 24338 10539 15665 15721 27882 27882 0.1349416005944022 PKTKRPRGR 9 Unmodified _PKTKRPRGR_ 0 0 0 REV__nc|ENSG00000076108|Q9UIF9-2|BAZ2A REV__nc|ENSG00000076108|Q9UIF9-2|BAZ2A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 548.346523 1094.67849 3.7015 0.0020297 -0.66288 -0.00036349 3.0386 0.0016662 548.3460194030157 89.377 0.50767 90.055 89.946 90.453 0.67818 0.016428 2.1782E-06 NaN 3.9444 44 24 3 NaN NaN NaN NaN 0 NaN NaN 0 1009000 + 24339 10539 15665 15721 0.1349416005944022 PKTLEILD 8 Unmodified _PKTLEILD_ 0 0 0 ENSG00000137462|ENST00000642700|TLR2 ENSG00000137462|ENST00000642700|TLR2 ENSG00000137462|ENST00000642700|TLR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.7713623046875 2 464.771126 927.527698 NaN NaN NaN NaN NaN NaN NaN 79.402 1 79.402 78.902 79.902 0 0 0 0 0.99035 1 39221 39221 5.2307 0 1 24340 3018 15666 15722 27883 27883 0.061035358374169846 PKTLGLLRML 10 Unmodified _PKTLGLLRML_ 0 0 0 ENSG00000151779|ENST00000281513|NBAS;nc|ENSG00000151779|A2RRP1-2|NBAS;NBAS|p.Y605*|1|0.16|ENSG00000151779|chr2:15468438-15468444|TAATCCA/-|frameshift_variant ENSG00000151779|ENST00000281513|NBAS ENSG00000151779|ENST00000281513|NBAS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.3596801757812 2 571.359919 1140.70529 NaN NaN NaN NaN NaN NaN NaN 82.733 1 82.98 82.48 83.48 0.24722 0 0 0 1.0001 1 38081 38081 1.6526 0 1 24341 3728 15667 15723 27884 27884 0.14056087835774633 PKTLLKTLK 9 Unmodified _PKTLLKTLK_ 0 0 0 ENSG00000183354|ENST00000399933|KIAA2026;KIAA2026|p.N1948Kfs*5|1|0.04|ENSG00000183354|chr9:5920152-5920153|-/AGTCTCCAGC|frameshift_variant;ENST00000540714.1_1_9:5919686-5933837:-|nuORF ENSG00000183354|ENST00000399933|KIAA2026 ENSG00000183354|ENST00000399933|KIAA2026 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.654296875 2 521.35516 1040.69577 NaN NaN NaN NaN NaN NaN NaN 63.349 1 64.072 63.572 64.572 0.72236 0 0 0 0.90111 1 29667 29667 3.2813 0.97858 1 24342 5377 15668 15724 27885 27885 0.17704642821900052 PKTPAKAQL 9 Unmodified _PKTPAKAQL_ 0 0 0 REV__ENST00000595681.5_1_19:6754625-6763810:-|nuORF REV__ENST00000595681.5_1_19:6754625-6763810:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.2943420410156 2 477.292559 952.570566 3.111 0.0014848 -0.35008 -0.00016709 2.7609 0.0013178 477.29248807929343 30.244 0.17748 30.862 30.799 30.976 0.61737 12 7 2 0 0 0 0.19064 1 13890 13890 24.021 2.2739 1 391360 + 24343 11692 15669 15725 27886 27886 0.09238350685518526 PKTPAKAQL 9 Unmodified _PKTPAKAQL_ 0 0 0 REV__ENST00000595681.5_1_19:6754625-6763810:-|nuORF REV__ENST00000595681.5_1_19:6754625-6763810:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 477.292559 952.570566 3.4267 0.0016355 0.035305 1.6851E-05 3.462 0.0016524 477.2924866117558 30.54 0.26687 30.796 30.7 30.967 0.25614 -0.032742 0.00010613 NaN 24.021 28 17 2 NaN NaN NaN NaN 0 NaN NaN 0 244740 + 24344 11692 15669 15725 0.09238350685518526 PKTPIPKLVV 10 Unmodified _PKTPIPKLVV_ 0 0 0 REV__ENSG00000140067|ENST00000556222|FAM181A REV__ENSG00000140067|ENST00000556222|FAM181A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.3654174804688 2 546.362985 1090.71142 NaN NaN NaN NaN NaN NaN NaN 104.91 1 104.91 104.41 105.41 0 0 0 0 1.0001 1 57688 57688 1.6526 0 1 + 24345 12230 15670 15726 27887 27887 0.16968929338941052 PKTPKRHKHK 10 Unmodified _PKTPKRHKHK_ 0 0 0 REV__ENSG00000085185|ENST00000540052|BCORL1 REV__ENSG00000085185|ENST00000540052|BCORL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 628.8875122070312 2 628.888555 1255.76256 NaN NaN NaN NaN NaN NaN NaN 87.892 1 88.143 87.643 88.643 0.25064 0 0 0 1.0004 1 40447 40447 1.3295 0.13619 1 + 24346 10640 15671 15727 27888 27888 0.14490691156333924 PKTPRQSLSIR 11 Unmodified _PKTPRQSLSIR_ 0 0 0 ENST00000401578.2_1_6:80776237-80776996:-|nuORF;nc|ENSG00000107863|Q5T5U3-3|ARHGAP21;ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant;ENSG00000107863|ENST00000396432|ARHGAP21 ENST00000401578.2_1_6:80776237-80776996:-|nuORF ENST00000401578.2_1_6:80776237-80776996:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.885498046875 2 641.883136 1281.75172 4.131 0.0026516 -0.40254 -0.00025838 3.7284 0.0023932 641.8826889380277 89.752 0.99398 90.004 89.517 90.511 0.25137 91 45 3 0 0 0 0.89309 1 41324 41324 2.7352 0 1 954720 24347 64 15672 15728 27889 27889 0.12211243991396259 PKTPRQSLSIR 11 Unmodified _PKTPRQSLSIR_ 0 0 0 ENST00000401578.2_1_6:80776237-80776996:-|nuORF;nc|ENSG00000107863|Q5T5U3-3|ARHGAP21;ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant;ENSG00000107863|ENST00000396432|ARHGAP21 ENST00000401578.2_1_6:80776237-80776996:-|nuORF ENST00000401578.2_1_6:80776237-80776996:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.8849487304688 2 641.883136 1281.75172 4.2699 0.0027408 -1.0168 -0.00065269 3.2531 0.0020881 641.8823463323495 91.922 1.25 92.174 91.475 92.725 0.25253 214 60 4 0 0 0 0.90332 1 42440 42440 2.2828 0.19677 1 2749900 24348 64 15672 15728 27890 27890 0.12211243991396259 PKTPRQSLSIR 11 Unmodified _PKTPRQSLSIR_ 0 0 0 ENST00000401578.2_1_6:80776237-80776996:-|nuORF;nc|ENSG00000107863|Q5T5U3-3|ARHGAP21;ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant;ENSG00000107863|ENST00000396432|ARHGAP21 ENST00000401578.2_1_6:80776237-80776996:-|nuORF ENST00000401578.2_1_6:80776237-80776996:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.8844604492188 2 641.883136 1281.75172 4.0928 0.0026271 -0.61759 -0.00039642 3.4752 0.0022307 641.8823416332649 89.355 1.5909 90.034 89.276 90.867 0.67818 114 73 3 0 0 0 0.89309 1 40982 40982 2.7352 0 1 1115200 24349 64 15672 15728 27891 27891 0.12211243991396259 PKTQKEKRKSP 11 Unmodified _PKTQKEKRKSP_ 0 0 0 ENSG00000132549|ENST00000357162|VPS13B;nc|ENSG00000132549|Q7Z7G8-6|VPS13B;nc|ENSG00000132549|Q7Z7G8|VPS13B;ENST00000496144.5_1_8:100515159-100589873:+|nuORF ENSG00000132549|ENST00000357162|VPS13B ENSG00000132549|ENST00000357162|VPS13B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.8990478515625 2 663.896243 1325.77793 4.2628 0.00283 -1.0902 -0.00072376 3.1726 0.0021063 663.8953177378834 91.696 1.0493 91.948 91.424 92.473 0.25214 109 49 3 0 0 0 0.91373 1 42174 42174 1.0715 0 1 867540 24350 2710 15673 15729 27892 27892 0.12807513162874784 PKTQKEKRKSP 11 Unmodified _PKTQKEKRKSP_ 0 0 0 ENSG00000132549|ENST00000357162|VPS13B;nc|ENSG00000132549|Q7Z7G8-6|VPS13B;nc|ENSG00000132549|Q7Z7G8|VPS13B;ENST00000496144.5_1_8:100515159-100589873:+|nuORF ENSG00000132549|ENST00000357162|VPS13B ENSG00000132549|ENST00000357162|VPS13B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.8969116210938 2 663.896243 1325.77793 4.4046 0.0029242 -1.0403 -0.00069062 3.3643 0.0022336 663.8956239197483 93.78 0.81502 94.035 93.791 94.606 0.25497 112 39 4 0 0 0 0.91373 1 43337 43337 1.0715 0 1 2859300 24351 2710 15673 15729 27893 27893 0.12807513162874784 PKTRARKRP 9 Unmodified _PKTRARKRP_ 0 0 0 ENST00000534742.1_1_11:288335-288569:+|nuORF ENST00000534742.1_1_11:288335-288569:+|nuORF ENST00000534742.1_1_11:288335-288569:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.35546875 2 555.354348 1108.69414 4.3902 0.0024381 -1.5524 -0.00086214 2.8378 0.001576 555.3533859016167 97.427 0.28075 97.716 97.526 97.807 0.28923 34 11 4 0 0 0 1.0041 1 44767 44767 3.9444 2.4625 1 8450700 24352 8757 15674 15730 27894 27894 0.14414446576506634 PKTRARKRP 9 Unmodified _PKTRARKRP_ 0 0 0 ENST00000534742.1_1_11:288335-288569:+|nuORF ENST00000534742.1_1_11:288335-288569:+|nuORF ENST00000534742.1_1_11:288335-288569:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 555.354348 1108.69414 3.7258 0.0020691 -1.3937 -0.00077402 2.3321 0.0012951 555.3533933526362 96.997 0.38055 97.599 97.384 97.765 0.6019 -0.058556 6.0219E-05 NaN 3.9444 51 17 4 NaN NaN NaN NaN 0 NaN NaN 0 12623000 24353 8757 15674 15730 0.14414446576506634 PKTRAWHR 8 Unmodified _PKTRAWHR_ 0 0 0 ENST00000447767.1_1_20:57099850-57100060:+|nuORF ENST00000447767.1_1_20:57099850-57100060:+|nuORF ENST00000447767.1_1_20:57099850-57100060:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.2977905273438 2 526.299042 1050.58353 NaN NaN NaN NaN NaN NaN NaN 84.389 1 84.389 83.889 84.889 0 0 0 0 0.92256 1 42717 42717 10.824 2.2306 1 24354 7988 15675 15731 27895 27895 0.060262265882556676 PKTRDIRKH 9 Unmodified _PKTRDIRKH_ 0 0 0 nc|ENSG00000182224|Q6P9G0-2|CYB5D1;ENSG00000182224|ENST00000332439|CYB5D1 nc|ENSG00000182224|Q6P9G0-2|CYB5D1 nc|ENSG00000182224|Q6P9G0-2|CYB5D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.8452758789062 2 575.843813 1149.67307 3.29 0.0018945 -0.41921 -0.0002414 2.8708 0.0016531 575.8435222989214 83.366 1.0367 83.613 83.296 84.333 0.24722 91 61 2 0 0 0 1.1412 1 38335 38335 1.6526 0.17072 1 441470 24355 5322 15676 15732 27896 27896 0.10422436476960684 PKTRDIRKH 9 Unmodified _PKTRDIRKH_ 0 0 0 nc|ENSG00000182224|Q6P9G0-2|CYB5D1;ENSG00000182224|ENST00000332439|CYB5D1 nc|ENSG00000182224|Q6P9G0-2|CYB5D1 nc|ENSG00000182224|Q6P9G0-2|CYB5D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.8436279296875 2 575.843813 1149.67307 3.4294 0.0019748 -1.3655 -0.0007863 2.0639 0.0011885 575.8433308338505 85.771 1.3247 86.019 85.297 86.622 0.24857 140 68 3 0 0 0 1.1412 2 39355 39355;39588 1.6526 0.17072 1 2393700 24356 5322 15676 15732 27897;27898 27897 0.10422436476960684 PKTRDIRKH 9 Unmodified _PKTRDIRKH_ 0 0 0 nc|ENSG00000182224|Q6P9G0-2|CYB5D1;ENSG00000182224|ENST00000332439|CYB5D1 nc|ENSG00000182224|Q6P9G0-2|CYB5D1 nc|ENSG00000182224|Q6P9G0-2|CYB5D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.84521484375 2 575.843813 1149.67307 3.8222 0.002201 -1.1352 -0.00065369 2.687 0.0015473 575.8430594058395 82.924 0.89204 83.584 83.418 84.31 0.66019 71 51 2 0 0 0 1.1412 2 38335 38335;38388 1.6526 0 1 573980 24357 5322 15676 15732 27899;27900 27899 0.10422436476960684 PKTRELPPRQ 10 Unmodified _PKTRELPPRQ_ 0 0 0 REV__ENST00000573057.1_1_17:7495442-7495673:-|nuORF REV__ENST00000573057.1_1_17:7495442-7495673:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.35791015625 2 611.356754 1220.69895 3.9302 0.0024028 -0.74464 -0.00045524 3.1856 0.0019475 611.3560789814101 90.033 2.3692 90.285 89.498 91.868 0.25136 339 114 4 0 0 0 0.93788 2 41629 41629;42020 1.3295 0.13619 1 4331900 + 24358 11781 15677 15733 27901;27902 27901 0.09743285928584555 PKTRELPPRQ 10 Unmodified _PKTRELPPRQ_ 0 0 0 REV__ENST00000573057.1_1_17:7495442-7495673:-|nuORF REV__ENST00000573057.1_1_17:7495442-7495673:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.3582763671875 2 611.356754 1220.69895 3.7249 0.0022773 -0.35511 -0.0002171 3.3698 0.0020602 611.3563796151667 89.549 1.5947 90.227 89.501 91.096 0.67818 190 72 4 0 0 0 0.93788 1 41430 41430 1.3295 0.13619 1 4220300 + 24359 11781 15677 15733 27903 27903 0.09743285928584555 PKTRELPPRQ 10 Unmodified _PKTRELPPRQ_ 0 0 0 REV__ENST00000573057.1_1_17:7495442-7495673:-|nuORF REV__ENST00000573057.1_1_17:7495442-7495673:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.3590087890625 2 611.356754 1220.69895 3.7387 0.0022857 -0.87132 -0.00053269 2.8674 0.001753 611.3561401813841 90.557 0.7998 91.229 91.062 91.862 0.67271 80 41 2 0 0 0 0.93788 2 41645 41645;41775 1.3295 0.13619 1 2189400 + 24360 11781 15677 15733 27904;27905 27904 0.09743285928584555 PKTSLPWLL 9 Unmodified _PKTSLPWLL_ 0 0 0 ENST00000506605.6_1_5:112440034-112458515:-|nuORF ENST00000506605.6_1_5:112440034-112458515:-|nuORF ENST00000506605.6_1_5:112440034-112458515:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.55108642578125 3 352.214699 1053.62227 2.3291 0.00082035 0.66717 0.00023499 2.9963 0.0010553 352.2136908063212 37.842 0.4071 38.476 38.27 38.677 0.63388 29 13 3 0 0 0 0.64206 1 17371 17371 3.8763 0 1 301150 24361 8516 15678 15734 27906 27906 0.09760094379430484 PKTSLRKTD 9 Unmodified _PKTSLRKTD_ 0 0 0 ENSG00000178965|ENST00000326665|ERICH3;nc|ENSG00000178965|Q5RHP9-2|ERICH3;ENST00000433746.2_1_1:75036803-75045091:-|nuORF ENSG00000178965|ENST00000326665|ERICH3 ENSG00000178965|ENST00000326665|ERICH3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.30517578125 2 523.303655 1044.59276 3.2617 0.0017068 0.63364 0.00033159 3.8953 0.0020384 523.3038949148232 82.542 0.70215 82.79 82.54 83.242 0.24722 57 36 2 0 0 0 1.1412 1 38028 38028 1.6526 0 1 652000 24362 5188 15679 15735 27907 27907 0.07224530363282611 PKTSLRKTD 9 Unmodified _PKTSLRKTD_ 0 0 0 ENSG00000178965|ENST00000326665|ERICH3;nc|ENSG00000178965|Q5RHP9-2|ERICH3;ENST00000433746.2_1_1:75036803-75045091:-|nuORF ENSG00000178965|ENST00000326665|ERICH3 ENSG00000178965|ENST00000326665|ERICH3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.3057250976562 2 523.303655 1044.59276 3.4513 0.0018061 0.20911 0.00010943 3.6604 0.0019155 523.3036196323739 82.09 0.94951 82.75 82.307 83.256 0.65998 101 57 2 0 0 0 1.1412 2 37753 37753;37812 1.6526 0 1 723780 24363 5188 15679 15735 27908;27909 27908 0.07224530363282611 PKTSPKAVARR 11 Unmodified _PKTSPKAVARR_ 0 0 0 ENSG00000116544|ENST00000373347|DLGAP3 ENSG00000116544|ENST00000373347|DLGAP3 ENSG00000116544|ENST00000373347|DLGAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 605.8734130859375 2 605.872571 1209.73059 4.3836 0.0026559 -1.2973 -0.00078601 3.0863 0.0018699 605.8716530204588 95.918 0.43704 96.186 96.017 96.454 0.2675 60 22 4 0 0 0 0.91168 1 44032 44032 2.4985 2.0978 1 2162500 24364 2032 15680 15736 27910 27910 0.13411278682519878 PKTSPTRLHKT 11 Unmodified _PKTSPTRLHKT_ 0 0 0 REV__nc|ENSG00000128487|Q5M775-5|SPECC1 REV__nc|ENSG00000128487|Q5M775-5|SPECC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3720703125 2 633.369861 1264.72517 4.079 0.0025835 -0.99884 -0.00063264 3.0801 0.0019509 633.3691578354671 91.522 1.3285 92.184 91.419 92.747 0.66198 211 67 4 0 0 0 0.91184 1 42286 42286 0.96228 0.56156 1 5118200 + 24365 11762 15681 15737 27911 27911 0.10339555100040343 PKTVRSGRKAK 11 Unmodified _PKTVRSGRKAK_ 0 0 0 ENSG00000187475|ENST00000338379|H1-6 ENSG00000187475|ENST00000338379|H1-6 ENSG00000187475|ENST00000338379|H1-6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.9339599609375 2 614.385845 1226.75714 NaN NaN NaN NaN NaN NaN NaN 44.628 1 44.628 44.128 45.128 0 0 0 0 1.0061 1 20400 20400 2.7352 0.43246 1 24366 5614 15682 15738 27912 27912 0.15282967573875794 PKTVRSGRKAK 11 Unmodified _PKTVRSGRKAK_ 0 0 0 ENSG00000187475|ENST00000338379|H1-6 ENSG00000187475|ENST00000338379|H1-6 ENSG00000187475|ENST00000338379|H1-6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 614.3861694335938 2 614.385845 1226.75714 4.3339 0.0026627 -1.0428 -0.00064067 3.2911 0.002022 614.3848252609423 95.99 0.2846 96.257 96.052 96.337 0.2675 22 14 2 0 0 0 0.89309 1 44067 44067 2.7352 1.2533 1 980150 24367 5614 15682 15738 27913 27913 0.15282967573875794 PKTWEHLKELT 11 Unmodified _PKTWEHLKELT_ 0 0 0 REV__nc|ENSG00000021355|P30740-2|SERPINB1 REV__nc|ENSG00000021355|P30740-2|SERPINB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 691.3777465820312 2 691.377352 1380.74015 NaN NaN NaN NaN NaN NaN NaN 78.715 1 79.377 78.877 79.877 0.66198 0 0 0 1.0074 1 36273 36273 1.0715 0.67075 1 + 24368 10265 15683 15739 27914 27914 0.0650100217740146 PKVCSRIPI 9 Unmodified _PKVCSRIPI_ 0 0 0 REV__nc|ENSG00000260565|Q9NX77|ERVK13-1 REV__nc|ENSG00000260565|Q9NX77|ERVK13-1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 338.5390930175781 3 338.203917 1011.58992 2.2147 0.00074903 -0.75828 -0.00025645 1.4564 0.00049257 338.20366575017795 46.698 0.11763 47.527 47.495 47.613 0.82915 10 6 2 0 0 0 1.1849 1 21278 21278 0.96228 0 1 555600 + 24369 18155 15684 15740 27915 27915 0.08458983704770162 PKVEAPLVLQ 10 Unmodified _PKVEAPLVLQ_ 0 0 0 REV__nc|ENSG00000129295|Q86X45-2|DNAAF11 REV__nc|ENSG00000129295|Q86X45-2|DNAAF11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.3331298828125 2 547.334424 1092.6543 NaN NaN NaN NaN NaN NaN NaN 74.027 1 74.027 73.527 74.527 0 0 0 0 0.99464 1 36127 36127 6.2058 1.3088 1 + 24370 11783 15685 15741 27916 27916 0.11167462062553568 PKVEYIARA 9 Unmodified _PKVEYIARA_ 0 0 0 ENST00000601764.5_1_19:4697564-4723732:-|nuORF;ENST00000597145.5_1_19:4685559-4714096:-|nuORF;nc|ENSG00000142002|Q86TI2-4|DPP9;nc|ENSG00000142002|Q86TI2|DPP9;ENSG00000142002|ENST00000262960|DPP9 ENST00000601764.5_1_19:4697564-4723732:-|nuORF ENST00000601764.5_1_19:4697564-4723732:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.803466796875 2 523.803291 1045.59203 NaN NaN NaN NaN NaN NaN NaN 95.835 1 96.443 95.943 96.943 0.60769 0 0 0 0.90777 1 44068 44068 1.6526 0 1 24371 3291 15686 15742 27917 27917 0.07105735714230832 PKVIKRRILH 10 Unmodified _PKVIKRRILH_ 0 0 0 REV__ENST00000529926.1_1_11:74562081-74617298:-|nuORF REV__ENST00000529926.1_1_11:74562081-74617298:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 630.4227905273438 2 630.424774 1258.83499 NaN NaN NaN NaN NaN NaN NaN 105.34 1 105.94 105.44 106.44 0.59969 0 0 0 1.0015 1 48648 48648 0.40072 0 1 + 24372 13238 15687 15743 27918 27918 0.2159302522991311 PKVKQFQAP 9 Unmodified _PKVKQFQAP_ 0 0 0 REV__nc|ENSG00000243943|Q96ME7-2|ZNF512 REV__nc|ENSG00000243943|Q96ME7-2|ZNF512 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.8092041015625 2 521.805834 1041.59712 NaN NaN NaN NaN NaN NaN NaN 42.984 1 42.984 42.484 43.484 0 0 0 0 0.8984 1 19569 19569 3.9444 1.3669 1 + 24373 14633 15688 15744 27919 27919 0.0779803957684635 PKVLPKLPK 9 Unmodified _PKVLPKLPK_ 0 0 0 ENSG00000136021|ENST00000360820|SCYL2 ENSG00000136021|ENST00000360820|SCYL2 ENSG00000136021|ENST00000360820|SCYL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.35186767578125 2 510.35242 1018.69029 NaN NaN NaN NaN NaN NaN NaN 96.715 1 96.993 96.493 97.493 0.27778 0 0 0 0.91238 1 44435 44435 0.52476 0 1 24374 2918 15689 15745 27920 27920 0.18168964030064672 PKVLVSQV 8 Unmodified _PKVLVSQV_ 0 0 0 REV__nc|ENSG00000174844|Q6ZR08|DNAH12 REV__nc|ENSG00000174844|Q6ZR08|DNAH12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 435.27764892578125 2 435.276378 868.538203 NaN NaN NaN NaN NaN NaN NaN 60.955 1 60.955 60.455 61.455 0 0 0 0 0.97647 1 28395 28395 7.2892 0 1 + 24375 13648 15690 15746 27921 27921 0.09867563282523406 PKVMRRQMMFQ 11 Unmodified _PKVMRRQMMFQ_ 0 0 0 ENST00000264449.14_2_4:42629066-42658940:-|nuORF ENST00000264449.14_2_4:42629066-42658940:-|nuORF ENST00000264449.14_2_4:42629066-42658940:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.61505126953125 3 484.585927 1450.73595 NaN NaN NaN NaN NaN NaN NaN 74.852 1 75.517 75.017 76.017 0.6644 0 0 0 1.0073 1 34471 34471 1.2148 0.70888 1 24376 6606 15691 15747 27922 27922 0.028611748868343057 PKVPKILLLK 10 Unmodified _PKVPKILLLK_ 0 0 0 REV__Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|34|1|sense REV__Harlequin-int_dup67|chr1:171602819-171606351:+|2.7934060899183817|0.0115100540206365|7.92|524.0|34|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.9104614257812 2 574.910102 1147.80565 NaN NaN NaN NaN NaN NaN NaN 85.423 1 85.452 84.952 85.952 0.028603 0 0 0 1.0003 1 42760 42760 1.4819 1.0812 1 + 24377 17706 15692 15748 27923 27923 0.2376606816108051 PKVQLLLLIPV 11 Unmodified _PKVQLLLLIPV_ 0 0 0 REV__nc|ENSG00000165131|Q96L11-3|LLCFC1 REV__nc|ENSG00000165131|Q96L11-3|LLCFC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 616.9210205078125 2 616.920667 1231.82678 NaN NaN NaN NaN NaN NaN NaN 105.41 1 105.73 105.23 106.23 0.31782 0 0 0 1.008 1 48659 48659 0.30703 0 1 + 24378 13141 15693 15749 27924 27924 0.2201403346994084 PKVRCVIF 8 Unmodified _PKVRCVIF_ 0 0 0 REV__ENSG00000173809|ENST00000639142|TDRD12 REV__ENSG00000173809|ENST00000639142|TDRD12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.2851257324219 2 481.286223 960.557893 NaN NaN NaN NaN NaN NaN NaN 98.8 1 99.099 98.599 99.599 0.29987 0 0 0 0.99035 1 45554 45554 2.5775 0.27475 1 + 24379 13613 15694 15750 27925 27925 0.07603616021640391 PKVRLLPKVRL 11 Unmodified _PKVRLLPKVRL_ 0 0 0 ENST00000573951.1_1_16:3313772-3314576:+|nuORF ENST00000573951.1_1_16:3313772-3314576:+|nuORF ENST00000573951.1_1_16:3313772-3314576:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 659.9585571289062 2 659.955907 1317.89726 NaN NaN NaN NaN NaN NaN NaN 77.572 1 77.572 77.072 78.072 0 0 0 0 1.0082 1 38051 38051 0.30703 0.30703 1 24380 9110 15695 15751 27926 27926 0.2510275157826527 PKVRRPRDK 9 Unmodified _PKVRRPRDK_ 0 0 0 REV__nc|ENSG00000143322|P42684-4|ABL2 REV__nc|ENSG00000143322|P42684-4|ABL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 576.3611450195312 2 576.359631 1150.70471 NaN NaN NaN NaN NaN NaN NaN 84.324 1 84.986 84.486 85.486 0.66219 0 0 0 0.90699 1 38841 38841 1.8442 0 1 + 24381 12361 15696 15752 27927 27927 0.1353842923092543 PKVSILPA 8 Unmodified _PKVSILPA_ 0 0 0 REV__PIWIL1|p.S562Ifs*30|1|0.09|ENSG00000125207|chr12:130361199-130361199|G/-|frameshift_variant REV__PIWIL1|p.S562Ifs*30|1|0.09|ENSG00000125207|chr12:130361199-130361199|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.76806640625 2 412.765646 823.516739 NaN NaN NaN NaN NaN NaN NaN 34.082 1 34.336 33.836 34.836 0.25389 0 0 0 0.99035 1 15520 15520 5.2307 0 1 + 24382 11671 15697 15753 27928 27928 0.0979217825380374 PKVTRFGRS 9 Unmodified _PKVTRFGRS_ 0 0 0 nc|ENSG00000181781|Q3SX64-2|CIMAP1D;ENSG00000181781|ENST00000315489|ODF3L2 nc|ENSG00000181781|Q3SX64-2|CIMAP1D nc|ENSG00000181781|Q3SX64-2|CIMAP1D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.4459838867188 2 524.306532 1046.59851 NaN NaN NaN NaN NaN NaN NaN 79.953 1 80.614 80.114 81.114 0.66082 0 0 0 0.8984 1 36840 36840 3.9444 0 1 24383 5300 15698 15754 27929 27929 0.07707673665595394 PKWDWRSWRE 10 Unmodified _PKWDWRSWRE_ 0 0 0 ENST00000340124.8_1_16:46964176-46964458:+|nuORF ENST00000340124.8_1_16:46964176-46964458:+|nuORF ENST00000340124.8_1_16:46964176-46964458:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 723.3587646484375 2 723.357285 1444.70002 NaN NaN NaN NaN NaN NaN NaN 30.199 1 30.457 29.957 30.957 0.25804 0 0 0 1.0016 1 13745 13745 0.35063 0.043601 1 24384 7061 15699 15755 27930 27930 -0.004544997025050179 PKWEEEEME 9 Unmodified _PKWEEEEME_ 0 0 0 ENSG00000116017|ENST00000263620|ARID3A ENSG00000116017|ENST00000263620|ARID3A ENSG00000116017|ENST00000263620|ARID3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1206.691650390625 1 1206.49833 1205.49105 3.4974 0.0042196 -0.64649 -0.00077998 2.8509 0.0034396 1206.501745736877 88.543 0.12335 89.221 89.153 89.276 0.67818 5 4 2 0 0 0 1.2126 1 40798 40798 0.52476 0 1 389100 24385 2008 15700 15756 27931 27931 -0.10347128841453923 PKWEKLYKWVV 11 Unmodified _PKWEKLYKWVV_ 0 0 0 REV__ENST00000418983.1_1_6:29760019-29760421:-|nuORF REV__ENST00000418983.1_1_6:29760019-29760421:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.62054443359375 3 492.618495 1474.83366 NaN NaN NaN NaN NaN NaN NaN 5.8688 1 6.174 5.674 6.674 0.30519 0 0 0 1.0074 1 2666 2666 1.1098 0.74308 1 + 24386 16155 15701 15757 27932 27932 0.11523346350486463 PKWFQHRRLLT 11 Unmodified _PKWFQHRRLLT_ 0 0 0 nc|ENSG00000186377|Q8N118-3|CYP4X1;nc|ENSG00000186377|Q8N118-2|CYP4X1;ENSG00000186377|ENST00000371901|CYP4X1 nc|ENSG00000186377|Q8N118-3|CYP4X1 nc|ENSG00000186377|Q8N118-3|CYP4X1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.6226806640625 3 494.621122 1480.84154 NaN NaN NaN NaN NaN NaN NaN 73.061 1 73.725 73.225 74.225 0.66398 0 0 0 1.0074 1 33559 33559 0.36667 0 1 24387 5567 15702 15758 27933 27933 0.12034918390645544 PKWKEKIF 8 Unmodified _PKWKEKIF_ 0 0 0 REV__nc|ENSG00000001461|Q6P499-3|NIPAL3 REV__nc|ENSG00000001461|Q6P499-3|NIPAL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.4244384765625 2 538.318577 1074.6226 NaN NaN NaN NaN NaN NaN NaN 75.9 1 76.564 76.064 77.064 0.6635 0 0 0 0.95658 1 36767 36767 8.5933 0.68312 1 + 24388 10154 15703 15759 27934 27934 0.08827514099266409 PKWNLAKGL 9 Unmodified _PKWNLAKGL_ 0 0 0 REV__nc|ENSG00000127081|Q5JVG2-2|ZNF484 REV__nc|ENSG00000127081|Q5JVG2-2|ZNF484 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.8094482421875 2 513.808377 1025.6022 3.12 0.0016031 1.1 0.00056519 4.22 0.0021683 513.8085864265968 45.265 0.36547 45.265 45.129 45.494 0 47 19 3 0 0 0 0.80651 1 20679 20679 7.2892 1.0834 1 1700100 + 24389 11730 15704 15760 27935 27935 0.0904234343945518 PKWRPLELP 9 Unmodified _PKWRPLELP_ 0 0 0 REV__ENST00000345664.10_1_1:173769424-173769466:-|nuORF REV__ENST00000345664.10_1_1:173769424-173769466:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.3353271484375 2 568.334759 1134.65496 NaN NaN NaN NaN NaN NaN NaN 84.415 1 84.663 84.163 85.163 0.24757 0 0 0 0.90699 1 38852 38852 1.8442 0.36234 1 + 24390 15507 15705 15761 27936 27936 0.09302301502248156 PKWRPLELP 9 Unmodified _PKWRPLELP_ 0 0 0 REV__ENST00000345664.10_1_1:173769424-173769466:-|nuORF REV__ENST00000345664.10_1_1:173769424-173769466:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.7769775390625 2 568.334759 1134.65496 NaN NaN NaN NaN NaN NaN NaN 83.847 1 84.509 84.009 85.009 0.66219 0 0 0 0.89683 1 38620 38620 4.3292 2.8473 1 + 24391 15507 15705 15761 27937 27937 0.09302301502248156 PKWRTPRRLT 10 Unmodified _PKWRTPRRLT_ 0 0 0 REV__ENST00000461377.5_1_7:45109515-45113126:+|nuORF REV__ENST00000461377.5_1_7:45109515-45113126:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 656.1306762695312 2 655.893838 1309.77312 NaN NaN NaN NaN NaN NaN NaN 100.55 1 100.61 100.11 101.11 0.059723 0 0 0 0.99877 1 54567 54567 2.7352 0 1 + 24392 16492 15706 15762 27938 27938 0.1306267381080488 PKWVRPKVTK 10 Unmodified _PKWVRPKVTK_ 0 0 0 REV__ENSG00000106034|ENST00000310396|CPED1 REV__ENSG00000106034|ENST00000310396|CPED1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.8895874023438 2 619.890232 1237.76591 NaN NaN NaN NaN NaN NaN NaN 83.046 1 83.707 83.207 84.207 0.66019 0 0 0 1.0015 1 38255 38255 0.40072 0 1 + 24393 11068 15707 15763 27939 27939 0.1565394121034842 PKYDKHII 8 Unmodified _PKYDKHII_ 0 0 0 REV__ENSG00000253649|ENST00000647727|PRSS51 REV__ENSG00000253649|ENST00000647727|PRSS51 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 338.53179931640625 3 338.530798 1012.57057 NaN NaN NaN NaN NaN NaN NaN 16.572 1 16.773 16.273 17.273 0.20057 0 0 0 0.99035 1 7320 7320 1.6526 0 1 + 24394 14661 15708 15764 27940 27940 0.06478350685517853 PKYDKHII 8 Unmodified _PKYDKHII_ 0 0 0 REV__ENSG00000253649|ENST00000647727|PRSS51 REV__ENSG00000253649|ENST00000647727|PRSS51 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.29425048828125 2 507.292559 1012.57057 3.0348 0.0015395 0.26607 0.00013498 3.3009 0.0016745 507.29274388234154 14.771 0.23392 15.078 14.965 15.199 0.3069 29 17 2 0 0 0 0.74709 1 6704 6704 2.0598 0 1 144280 + 24395 14661 15708 15764 27941 27941 0.06478350685517853 PKYKNSKL 8 Unmodified _PKYKNSKL_ 0 0 0 REV__nc|ENSG00000198797|Q9C0B6-2|BRINP2 REV__nc|ENSG00000198797|Q9C0B6-2|BRINP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 326.5315856933594 3 326.530798 976.570566 2.3218 0.00075814 0.78598 0.00025665 3.1078 0.0010148 326.5310397208484 27.054 0.3691 27.319 27.163 27.532 0.26489 38 25 2 0 0 0 0.47217 1 12287 12287 18.146 2.8979 1 408970 + 24396 14360 15709 15765 27942 27942 0.0813435068552053 PKYKNSKL 8 Unmodified _PKYKNSKL_ 0 0 0 REV__nc|ENSG00000198797|Q9C0B6-2|BRINP2 REV__nc|ENSG00000198797|Q9C0B6-2|BRINP2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 326.530798 976.570566 2.261 0.00073829 0.13397 4.3746E-05 2.395 0.00078204 326.530788570534 26.395 0.208 27.174 27.048 27.256 0.7787 -0.084769 -0.00042224 NaN 18.146 22 16 2 NaN NaN NaN NaN 0 NaN NaN 0 123790 + 24397 14360 15709 15765 0.0813435068552053 PKYKNSKL 8 Unmodified _PKYKNSKL_ 0 0 0 REV__nc|ENSG00000198797|Q9C0B6-2|BRINP2 REV__nc|ENSG00000198797|Q9C0B6-2|BRINP2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 326.530798 976.570566 2.1151 0.00069066 0.48945 0.00015982 2.6046 0.00085048 326.53091881004167 26.66 0.3602 27.282 27.108 27.468 0.62179 0.023788 -7.4015E-05 NaN 18.146 33 24 2 NaN NaN NaN NaN 0 NaN NaN 0 262550 + 24398 14360 15709 15765 0.0813435068552053 PKYTLRSHF 9 Unmodified _PKYTLRSHF_ 0 0 0 nc|ENSG00000196792|Q13033-2|STRN3;ENSG00000196792|ENST00000357479|STRN3 nc|ENSG00000196792|Q13033-2|STRN3 nc|ENSG00000196792|Q13033-2|STRN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.8179931640625 2 574.81419 1147.61383 3.1296 0.001799 0.75989 0.0004368 3.8895 0.0022358 574.8147992819016 14.693 0.21259 15 14.95 15.163 0.3069 23 16 2 0 0 0 1.178 1 6670 6670 0.52476 0 1 74645 24399 5777 15710 15766 27943 27943 0.04592540462795114 PLAAICVK 8 Unmodified _PLAAICVK_ 0 0 0 nc|ENSG00000144369|Q6P995-2|FAM171B;ENSG00000144369|ENST00000304698|FAM171B nc|ENSG00000144369|Q6P995-2|FAM171B nc|ENSG00000144369|Q6P995-2|FAM171B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 407.7458801269531 2 407.746399 813.478245 NaN NaN NaN NaN NaN NaN NaN 26.445 1 26.445 25.945 26.945 0 0 0 0 0.93233 1 11905 11905 10.183 0 1 24400 3421 15711 15767 27944 27944 0.06404549347632837 PLAEVSYIK 9 Unmodified _PLAEVSYIK_ 0 0 0 REV__ENSG00000118246|ENST00000402774|FASTKD2 REV__ENSG00000118246|ENST00000402774|FASTKD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.2918395996094 2 510.292225 1018.5699 NaN NaN NaN NaN NaN NaN NaN 76.279 1 76.943 76.443 77.443 0.66387 0 0 0 0.30236 1 35140 35140 26.884 5.3467 1 + 24401 11466 15712 15768 27945 27945 0.06135511245804537 PLAHRRTMV 9 Unmodified _PLAHRRTMV_ 0 0 0 ENST00000467843.6_1_17:25634801-25634894:+|nuORF ENST00000467843.6_1_17:25634801-25634894:+|nuORF ENST00000467843.6_1_17:25634801-25634894:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1081.6099853515625 1 1080.60949 1079.60222 3.5677 0.0038553 0.23009 0.00024864 3.7978 0.004104 1080.6106129354328 89.986 0.24731 90.237 90.073 90.32 0.25137 12 10 2 0 0 0 0.54955 1 41367 41367 11.64 3.7301 1 1662000 24402 8149 15713 15769 27946 27946 0.06560020167808034 PLAPCHSW 8 Unmodified _PLAPCHSW_ 0 0 0 REV__ENST00000479650.5_1_9:140469231-140473170:-|nuORF REV__ENST00000479650.5_1_9:140469231-140473170:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 910.4246826171875 1 910.423984 909.416708 3.4235 0.0031168 -1.4359 -0.0013073 1.9876 0.0018096 910.422090671125 103.42 0.053101 103.42 103.39 103.44 0 8 2 4 0 0 0 0.74071 1 57008 57008 2.5775 0 1 2892200 + 24403 16677 15714 15770 27947 27947 -0.04162382351660199 PLAPCHSW 8 Unmodified _PLAPCHSW_ 0 0 0 REV__ENST00000479650.5_1_9:140469231-140473170:-|nuORF REV__ENST00000479650.5_1_9:140469231-140473170:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 910.427001953125 1 910.423984 909.416708 4.11 0.0037418 -1.5508 -0.0014119 2.5592 0.0023299 910.4224449112833 103.56 0.029404 104.16 104.14 104.17 0.59821 9 4 3 0 0 0 0.7471 1 47906 47906 0.69038 0 1 1286200 + 24404 16677 15714 15770 27948 27948 -0.04162382351660199 PLAPCHSW 8 Unmodified _PLAPCHSW_ 0 0 0 REV__ENST00000479650.5_1_9:140469231-140473170:-|nuORF REV__ENST00000479650.5_1_9:140469231-140473170:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 910.423984 909.416708 3.4235 0.0031168 -1.4359 -0.0013073 1.9876 0.0018096 910.422090671125 103.42 0.053101 103.42 103.39 103.44 0 -0.053009 -0.00011301 NaN 2.5775 8 2 4 NaN NaN NaN NaN 0 NaN NaN 0 2892200 + 24405 16677 15714 15770 -0.04162382351660199 PLAPCHSW 8 Unmodified _PLAPCHSW_ 0 0 0 REV__ENST00000479650.5_1_9:140469231-140473170:-|nuORF REV__ENST00000479650.5_1_9:140469231-140473170:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 910.423984 909.416708 2.3276 0.0021191 -1.2128 -0.0011041 1.1148 0.0010149 910.4225098765361 103.37 0.039505 103.43 103.41 103.45 0.055099 -0.045037 9.0093E-05 NaN 2.5775 9 4 3 NaN NaN NaN NaN 0 NaN NaN 0 4141500 + 24406 16677 15714 15770 -0.04162382351660199 PLAPCHSW 8 Unmodified _PLAPCHSW_ 0 0 0 REV__ENST00000479650.5_1_9:140469231-140473170:-|nuORF REV__ENST00000479650.5_1_9:140469231-140473170:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 910.423984 909.416708 4.7138 0.0042916 -1.3378 -0.0012179 3.3761 0.0030736 910.4224218266177 103.25 0.043884 103.57 103.54 103.58 0.31863 0.098046 -2.3695E-05 NaN 2.5775 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 507950 + 24407 16677 15714 15770 -0.04162382351660199 PLAPKKLALLR 11 Unmodified _PLAPKKLALLR_ 0 0 0 REV__nc|ENSG00000117640|Q9H019-2|MTFR1L REV__nc|ENSG00000117640|Q9H019-2|MTFR1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 610.41357421875 2 610.416083 1218.81761 NaN NaN NaN NaN NaN NaN NaN 92.779 1 93.427 92.927 93.927 0.64714 0 0 0 1.0071 1 42684 42684 1.4819 1.1313 1 + 24408 11451 15715 15771 27949 27949 0.21695684904261725 PLARPRRGKD 10 Unmodified _PLARPRRGKD_ 0 0 0 REV__ENST00000502420.1_1_5:177027181-177031484:+|nuORF REV__ENST00000502420.1_1_5:177027181-177031484:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.3510131835938 2 583.349263 1164.68397 3.7446 0.0021844 -0.58594 -0.00034181 3.1586 0.0018426 583.3486685963442 90.817 0.2944 91.49 91.357 91.652 0.67271 32 18 2 0 0 0 0.93713 1 41838 41838 1.4819 0 1 463300 + 24409 14777 15716 15772 27950 27950 0.10821838851256871 PLATPIHKTQR 11 Unmodified _PLATPIHKTQR_ 0 0 0 REV__ENSG00000109756|ENST00000691494|RAPGEF2 REV__ENSG00000109756|ENST00000691494|RAPGEF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 631.37109375 2 631.372404 1260.73025 NaN NaN NaN NaN NaN NaN NaN 32.672 1 33.46 32.96 33.96 0.78795 0 0 0 1.0072 1 14780 14780 1.3295 0.13619 1 + 24410 11177 15717 15773 27951 27951 0.11031858962701335 PLCPLTPDPIL 11 Unmodified _PLCPLTPDPIL_ 0 0 0 REV__ENST00000395389.2_1_16:29674365-29675159:+|nuORF REV__ENST00000395389.2_1_16:29674365-29675159:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.8281860351562 2 589.828117 1177.64168 NaN NaN NaN NaN NaN NaN NaN 64.122 1 64.37 63.87 64.87 0.24803 0 0 0 0.99968 1 29368 29368 6.7232 0 1 + 24411 15984 15718 15774 27952 27952 0.0599668260801991 PLCRKPVK 8 Unmodified _PLCRKPVK_ 0 0 0 ENST00000461652.2_1_13:31835091-31857210:+|nuORF;ENSG00000187676|ENST00000343307|B3GLCT ENST00000461652.2_1_13:31835091-31857210:+|nuORF ENST00000461652.2_1_13:31835091-31857210:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 314.19708251953125 3 314.196874 939.568792 NaN NaN NaN NaN NaN NaN NaN 38.036 1 38.67 38.17 39.17 0.63388 0 0 0 0.99035 1 17397 17397 0.45834 0 1 24412 5628 15719 15775 27953 27953 0.09659018395916519 PLDLRLRR 8 Unmodified _PLDLRLRR_ 0 0 0 REV__ENST00000409411.5_3_2:44588589-44588649:-|nuORF REV__ENST00000409411.5_3_2:44588589-44588649:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.831787109375 2 519.830175 1037.6458 NaN NaN NaN NaN NaN NaN NaN 79.662 1 79.982 79.482 80.482 0.31998 0 0 0 0.94507 1 38921 38921 9.3474 1.4373 1 + 24413 16094 15720 15776 27954 27954 0.12847952936590445 PLDPIMPLL 9 Oxidation (M) _PLDPIM(Oxidation (M))PLL_ PLDPIM(1)PLL PLDPIM(44)PLL 0 0 1 REV__ENST00000574767.5_1_17:78681670-78831736:+|nuORF REV__ENST00000574767.5_1_17:78681670-78831736:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.7942504882812 2 512.791004 1023.56745 3.1971 0.0016394 1.2835 0.00065817 4.4806 0.0022976 512.7924623807103 40.873 0.40077 40.873 40.713 41.114 0 54 26 4 0 0 0 0.056465 1 18594 18594 44.407 44.407 1 1769700 + 24414 12299 15721 15777 27955 27955 95 0.056613395164959 PLDRKEQDY 9 Unmodified _PLDRKEQDY_ 0 0 0 REV__ENST00000461495.5_1_1:45798098-45799135:-|nuORF;REV__nc|ENSG00000132781|Q9UIF7-3|MUTYH REV__nc|ENSG00000132781|Q9UIF7-3|MUTYH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.2893676757812 2 582.288202 1162.56185 3.317 0.0019314 -1.0673 -0.00062149 2.2497 0.00131 582.2876437487824 27.435 0.31665 28.221 28.072 28.388 0.78627 70 30 3 0 0 0 0.95612 1 12335 12335 4.756 4.756 1 2128200 + 24415 17944;16495 15722 15778 27956 27956 -0.01292667741608966 PLDRLLERLRG 11 Unmodified _PLDRLLERLRG_ 0 0 0 REV__ENST00000592297.2_1_19:1082886-1083066:+|nuORF REV__ENST00000592297.2_1_19:1082886-1083066:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 669.4046020507812 2 669.404235 1336.79392 NaN NaN NaN NaN NaN NaN NaN 69.895 1 70.598 70.098 71.098 0.70302 0 0 0 1.0038 1 33467 33467 5.7319 0 1 + 24416 13824 15723 15779 27957 27957 0.1389921939978649 PLDSEEKKV 9 Unmodified _PLDSEEKKV_ 0 0 0 ENSG00000144619|ENST00000418658|CNTN4;ENST00000438282.6_1_3:2613181-3030164:+|nuORF;ENST00000430505.6_1_3:2613181-3079017:+|nuORF ENSG00000144619|ENST00000418658|CNTN4 ENSG00000144619|ENST00000418658|CNTN4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.2875366210938 2 522.782222 1043.54989 3.2631 0.0017059 1.2949 0.00067695 4.558 0.0023829 522.7830158693532 54.113 0.66849 54.378 54.07 54.739 0.26462 59 28 3 0 0 0 0.80651 1 24888 24888 7.2892 0.56607 1 1224200 24417 3437 15724 15780 27958 27958 0.029857155152058112 PLDWVKRL 8 Unmodified _PLDWVKRL_ 0 0 0 REV__ENSG00000145217|ENST00000398516|SLC26A1 REV__ENSG00000145217|ENST00000398516|SLC26A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.8108520507812 2 513.808377 1025.6022 3.1556 0.0016214 0.79052 0.00040618 3.9462 0.0020276 513.8090176716853 44.186 0.38087 45.006 44.887 45.268 0.82075 35 20 2 0 0 0 0.73686 1 20084 20084 2.8892 0 1 508710 + 24418 12431 15725 15781 27959 27959 0.09042343439477918 PLEAIQLEL 9 Unmodified _PLEAIQLEL_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8;TSPYL1|p.K397Rfs*15|1|0.28|ENSG00000189241|chr6:116278640-116278641|TT/-|frameshift_variant;ENSG00000189241|ENST00000368608|TSPYL1 ENSG00000174231|ENST00000304992|PRPF8;TSPYL1|p.K397Rfs*15|1|0.28|ENSG00000189241|chr6:116278640-116278641|TT/-|frameshift_variant ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.299072265625 2 513.297507 1024.58046 3.3139 0.001701 -0.24133 -0.00012388 3.0725 0.0015771 513.2972768394968 82.861 0.34949 83.108 82.909 83.259 0.24722 30 17 2 0 0 0 0.057744 1 38168 38168 43.858 0 1 1348200 24419 4968;5709 15726 15782 27960 27960 0.0691549390023738 PLEAIQLEL 9 Unmodified _PLEAIQLEL_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8;TSPYL1|p.K397Rfs*15|1|0.28|ENSG00000189241|chr6:116278640-116278641|TT/-|frameshift_variant;ENSG00000189241|ENST00000368608|TSPYL1 ENSG00000174231|ENST00000304992|PRPF8;TSPYL1|p.K397Rfs*15|1|0.28|ENSG00000189241|chr6:116278640-116278641|TT/-|frameshift_variant ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.299072265625 2 513.297507 1024.58046 3.5186 0.0018061 0.049916 2.5622E-05 3.5685 0.0018317 513.2976531826608 82.283 0.35456 82.943 82.73 83.085 0.66019 39 20 2 0 0 0 0.027384 1 37900 37900 58.679 0 1 901200 24420 4968;5709 15726 15782 27961 27961 0.0691549390023738 PLEFLQEK 8 Unmodified _PLEFLQEK_ 0 0 0 REV__IVL|p.L153F|1|0.06|ENSG00000163207|chr1:152910256-152910256|G/T|missense_variant REV__IVL|p.L153F|1|0.06|ENSG00000163207|chr1:152910256-152910256|G/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1004.552490234375 1 1003.54587 1002.5386 3.2414 0.0032529 0.60901 0.00061117 3.8504 0.0038641 1003.5465749210455 72.343 0.41029 72.601 72.491 72.901 0.25875 54 34 2 0 0 0 0.68959 1 33318 33318 5.2307 0 1 535160 + 24421 17749 15727 15783 27962 27962 0.03742938211712499 PLEKAQLKNWK 11 Unmodified _PLEKAQLKNWK_ 0 0 0 ENST00000424478.5_1_14:45565874-45584113:+|nuORF;ENSG00000185246|ENST00000355765|PRPF39;ENST00000554429.5_1_14:45565874-45579180:+|nuORF ENST00000424478.5_1_14:45565874-45584113:+|nuORF ENST00000424478.5_1_14:45565874-45584113:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 677.8944091796875 2 677.895712 1353.77687 NaN NaN NaN NaN NaN NaN NaN 87.893 1 88.571 88.071 89.071 0.67818 0 0 0 1.0059 1 40482 40482 2.9952 1.3426 1 24422 5499 15728 15784 27963 27963 0.11413298793991089 PLEKTGERWR 10 Unmodified _PLEKTGERWR_ 0 0 0 REV__nc|ENSG00000163346|Q96AQ6-3|PBXIP1 REV__nc|ENSG00000163346|Q96AQ6-3|PBXIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 636.7780151367188 2 636.346386 1270.67822 NaN NaN NaN NaN NaN NaN NaN 75.359 1 76.023 75.523 76.523 0.6635 0 0 0 0.99225 1 36486 36486 6.7232 0.99131 1 + 24423 18005 15729 15785 27964 27964 0.05370695548936055 PLEPDLPFI 9 Unmodified _PLEPDLPFI_ 0 0 0 REV__ENST00000262061.6_1_12:54745377-54745464:+|nuORF REV__ENST00000262061.6_1_12:54745377-54745464:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.7892456054688 2 520.786776 1039.559 3.6246 0.0018877 -0.3718 -0.00019363 3.2529 0.001694 520.7867469683672 87.739 0.45456 87.99 87.797 88.252 0.25065 36 17 3 0 0 0 0.026068 1 40385 40385 60.39 2.9182 1 1867000 + 24424 14975 15730 15786 27965 27965 0.04080108871517041 PLEPDLPFI 9 Unmodified _PLEPDLPFI_ 0 0 0 REV__ENST00000262061.6_1_12:54745377-54745464:+|nuORF REV__ENST00000262061.6_1_12:54745377-54745464:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.7883911132812 2 520.786776 1039.559 3.5218 0.0018341 -0.3343 -0.0001741 3.1875 0.00166 520.7863042296835 87.197 0.40995 87.872 87.733 88.143 0.67555 33 18 3 0 0 0 0.026068 1 40163 40163 60.39 2.9182 1 1866700 + 24425 14975 15730 15786 27966 27966 0.04080108871517041 PLEPLPPGIFG 11 Unmodified _PLEPLPPGIFG_ 0 0 0 nc|ENSG00000128805|Q7Z5H3-2|ARHGAP22 nc|ENSG00000128805|Q7Z5H3-2|ARHGAP22 nc|ENSG00000128805|Q7Z5H3-2|ARHGAP22 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.7658081054688 2 568.82115 1135.62775 NaN NaN NaN NaN NaN NaN NaN 59.616 1 59.616 59.116 60.116 0 0 0 0 0.97175 1 27567 27567 9.3831 2.66 1 24426 9631 15731 15787 27967 27967 0.06535773171231085 PLEPNRPV 8 Unmodified _PLEPNRPV_ 0 0 0 REV__ENSG00000153147|ENST00000283131|SMARCA5 REV__ENSG00000153147|ENST00000283131|SMARCA5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 307.84429931640625 3 307.843265 920.507966 2.0142 0.00062007 0.38889 0.00011972 2.4031 0.00073979 307.84342855894226 16.818 0.92547 17.123 16.49 17.415 0.30438 135 90 2 0 0 0 0.7471 1 7488 7488 1.4819 0 1 125210 + 24427 12670 15732 15788 27968 27968 0.0445320461733445 PLETGDDAIL 10 Unmodified _PLETGDDAIL_ 0 0 0 ENSG00000063438|ENST00000684583|AHRR;nc|ENSG00000063438|A9YTQ3|AHRR;nc|ENSG00000063438|A9YTQ3-3|AHRR;nc|ENSG00000063438|A9YTQ3-2|AHRR ENSG00000063438|ENST00000684583|AHRR ENSG00000063438|ENST00000684583|AHRR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.2681884765625 2 522.266404 1042.51826 3.3127 0.0017301 0.18977 9.9111E-05 3.5025 0.0018292 522.2665461827856 26.101 0.4189 26.865 26.722 27.141 0.76357 53 31 2 0 0 0 0.55057 3 11716 11716;11765;11788 19.257 0 1 273220 24428 661 15733 15789 27969;27970;27971 27969 -0.001302772387589357 PLFFLKVPV 9 Unmodified _PLFFLKVPV_ 0 0 0 nc|ENSG00000083223|Q5VYS8-2|TUT7 nc|ENSG00000083223|Q5VYS8-2|TUT7 nc|ENSG00000083223|Q5VYS8-2|TUT7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.8438720703125 2 530.333696 1058.65284 3.3239 0.0017628 -2.5301 -0.0013418 0.7938 0.00042098 530.3321891202886 80.191 0.21914 80.851 80.727 80.947 0.65998 16 14 2 0 0 0 0.76984 1 36940 36940 7.9102 7.9102 1 219190 24429 9566 15734 15790 27972 27972 0.12585872764452688 PLFKRILIKLR 11 Unmodified _PLFKRILIKLR_ 0 0 0 HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|295|1|anti-sense HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|295|1|anti-sense HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|295|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 698.9797973632812 2 698.979382 1395.94421 NaN NaN NaN NaN NaN NaN NaN 54.958 1 54.958 54.458 55.458 0 0 0 0 1.008 1 25233 25233 0.35063 0.35063 1 24430 9414 15735 15791 27973 27973 0.26207611129393626 PLFLLRRRQVL 11 Unmodified _PLFLLRRRQVL_ 0 0 0 REV__ENST00000551430.6_1_12:56685573-56694068:-|nuORF REV__ENST00000551430.6_1_12:56685573-56694068:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 705.9539184570312 2 705.956438 1409.89832 NaN NaN NaN NaN NaN NaN NaN 75.369 1 76.033 75.533 76.533 0.6635 0 0 0 1.008 1 36491 36491 0.35063 0 1 + 24431 17286 15736 15792 27974 27974 0.2097696594714762 PLFRELLLLV 10 Unmodified _PLFRELLLLV_ 0 0 0 REV__ENSG00000111962|ENST00000367463|UST REV__ENSG00000111962|ENST00000367463|UST MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 606.7034301757812 2 606.889367 1211.76418 NaN NaN NaN NaN NaN NaN NaN 56.81 1 56.81 56.31 57.31 0 0 0 0 1.0003 1 26160 26160 1.4819 0 1 + 24432 11255 15737 15793 27975 27975 0.16676887401740714 PLFRFVERKAF 11 Unmodified _PLFRFVERKAF_ 0 0 0 REV__ENST00000399438.7_2_5:64920774-64920858:+|nuORF REV__ENST00000399438.7_2_5:64920774-64920858:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 705.404541015625 2 705.406247 1408.79794 NaN NaN NaN NaN NaN NaN NaN 68.742 1 69.444 68.944 69.944 0.70218 0 0 0 1.0057 1 32802 32802 3.2813 1.7994 1 + 24433 16031 15738 15794 27976 27976 0.10989308893499583 PLFRSCFILL 10 Unmodified _PLFRSCFILL_ 0 0 0 ENSG00000163659|ENST00000295924|TIPARP ENSG00000163659|ENST00000295924|TIPARP ENSG00000163659|ENST00000295924|TIPARP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 604.8470458984375 2 604.846645 1207.67874 NaN NaN NaN NaN NaN NaN NaN 76.971 1 77.226 76.726 77.726 0.25533 0 0 0 0.99687 1 35444 35444 4.3292 0 1 24434 4239 15739 15795 27977 27977 0.08320398944442786 PLFRTLLRPRL 11 Unmodified _PLFRTLLRPRL_ 0 0 0 ENST00000349431.10_1_1:1209083-1209236:-|nuORF ENST00000349431.10_1_1:1209083-1209236:-|nuORF ENST00000349431.10_1_1:1209083-1209236:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 691.4404296875 2 691.443163 1380.87177 NaN NaN NaN NaN NaN NaN NaN 31.14 1 31.14 30.64 31.64 0 0 0 0 1.008 1 14083 14083 0.30703 0 1 24435 7131 15740 15796 27978 27978 0.1965727705583049 PLFRWALGPRL 11 Unmodified _PLFRWALGPRL_ 0 0 0 REV__ENST00000389851.8_2_4:1341218-1341545:+|nuORF REV__ENST00000389851.8_2_4:1341218-1341545:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 332.2020263671875 4 332.201479 1324.77681 2.2587 0.00075036 0.13483 4.4791E-05 2.3936 0.00079515 332.2014026852753 45.405 1.0472 46.231 45.51 46.558 0.82621 179 56 4 0 0 0 0.91068 1 20569 20569 0.45452 0 1 2565600 + 24436 15918 15741 15797 27979 27979 0.12741343584639253 PLFRWALGPRL 11 Unmodified _PLFRWALGPRL_ 0 0 0 REV__ENST00000389851.8_2_4:1341218-1341545:+|nuORF REV__ENST00000389851.8_2_4:1341218-1341545:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.2024230957031 4 332.201479 1324.77681 2.4927 0.00082808 0.51947 0.00017257 3.0122 0.0010007 332.201510829835 44.974 1.5724 45.624 45.197 46.769 0.64998 185 59 5 0 0 0 0.91068 1 20605 20605 0.45452 0 1 4843100 + 24437 15918 15741 15797 27980 27980 0.12741343584639253 PLFTLGARLR 10 Unmodified _PLFTLGARLR_ 0 0 0 ENST00000349394.5_1_12:57619789-57619912:+|nuORF ENST00000349394.5_1_12:57619789-57619912:+|nuORF ENST00000349394.5_1_12:57619789-57619912:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 572.35302734375 2 572.353483 1142.69241 NaN NaN NaN NaN NaN NaN NaN 53.647 1 54.451 53.951 54.951 0.80351 0 0 0 0.99774 1 24481 24481 3.5965 1.2938 1 24438 7130 15742 15798 27981 27981 0.12677392767886886 PLGELSAPFP 10 Unmodified _PLGELSAPFP_ 0 0 0 ENST00000573058.1_1_17:79224986-79225223:-|nuORF ENST00000573058.1_1_17:79224986-79225223:-|nuORF ENST00000573058.1_1_17:79224986-79225223:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.2766723632812 2 514.276575 1026.5386 3.2262 0.0016592 -0.11276 -5.7991E-05 3.1135 0.0016012 514.2767631159525 40.562 0.3237 41.365 41.107 41.431 0.8035 26 21 2 0 0 0 0.55057 1 18392 18392 19.257 2.1441 1 1147500 24439 9104 15743 15799 27982 27982 0.026389382117031346 PLGIFDHLGKL 11 Unmodified _PLGIFDHLGKL_ 0 0 0 LRRC15|p.N470Pfs*15|1|0.05|ENSG00000172061|chr3:194359636-194359637|-/TGGG|frameshift_variant;ENSG00000172061|ENST00000347624|LRRC15;nc|ENSG00000172061|Q8TF66-2|LRRC15 LRRC15|p.N470Pfs*15|1|0.05|ENSG00000172061|chr3:194359636-194359637|-/TGGG|frameshift_variant LRRC15|p.N470Pfs*15|1|0.05|ENSG00000172061|chr3:194359636-194359637|-/TGGG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.1812744140625 4 303.180212 1208.69174 2.0447 0.00061992 1.2596 0.0003819 3.3044 0.0010018 303.1804676426756 61.318 0.36422 61.981 61.923 62.287 0.66261 48 21 3 0 0 0 0.91104 1 28116 28116 1.2148 0.4383 1 1497100 24440 4854 15744 15800 27983 27983 0.09574553328184265 PLGILPVRTL 10 Unmodified _PLGILPVRTL_ 0 0 0 ENST00000325042.2_1_7:22765745-22766153:-|nuORF ENST00000325042.2_1_7:22765745-22766153:-|nuORF ENST00000325042.2_1_7:22765745-22766153:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.56365966796875 3 360.237615 1077.69102 NaN NaN NaN NaN NaN NaN NaN 36.617 1 36.875 36.375 37.375 0.25768 0 0 0 1.0003 1 16679 16679 1.4551 0 1 24441 6953 15745 15801 27984 27984 0.15527758679127146 PLGKPRFKG 9 Unmodified _PLGKPRFKG_ 0 0 0 nc|ENSG00000154175|Q7Z7G0-2|ABI3BP;ENST00000470336.5_1_3:100469341-100565327:-|nuORF;nc|ENSG00000154175|Q7Z7G0-3|ABI3BP;nc|ENSG00000154175|Q7Z7G0-4|ABI3BP;nc|ENSG00000154175|Q7Z7G0|ABI3BP;ENSG00000154175|ENST00000471714|ABI3BP nc|ENSG00000154175|Q7Z7G0-2|ABI3BP nc|ENSG00000154175|Q7Z7G0-2|ABI3BP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.31109619140625 2 500.308544 998.602535 NaN NaN NaN NaN NaN NaN NaN 104.96 1 105.56 105.06 106.06 0.59885 0 0 0 0.91238 1 48474 48474 0.52476 0 1 24442 3808 15746 15802 27985 27985 0.10317763159321203 PLGTRGLL 8 Unmodified _PLGTRGLL_ 0 0 0 ENST00000263388.6_1_19:15270656-15271010:-|nuORF ENST00000263388.6_1_19:15270656-15271010:-|nuORF ENST00000263388.6_1_19:15270656-15271010:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.7616271972656 2 413.760895 825.507237 NaN NaN NaN NaN NaN NaN NaN 12.789 1 13.096 12.596 13.596 0.30727 0 0 0 0.99035 1 5770 5770 2.8892 0 1 24443 6591 15747 15803 27986 27986 0.0875040996829739 PLGYLGAKWRR 11 Unmodified _PLGYLGAKWRR_ 0 0 0 REV__ENSG00000169710|ENST00000306749|FASN REV__ENSG00000169710|ENST00000306749|FASN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 658.880615234375 2 658.882939 1315.75132 NaN NaN NaN NaN NaN NaN NaN 66.055 1 66.711 66.211 67.211 0.65672 0 0 0 1.0071 1 30284 30284 1.4819 0.15237 1 + 24444 13399 15748 15804 27987 27987 0.10607869062209829 PLHAFKRL 8 Unmodified _PLHAFKRL_ 0 0 0 REV__ENST00000524302.1_1_6:56716117-56716639:-|nuORF REV__ENST00000524302.1_1_6:56716117-56716639:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.10711669921875 2 491.303262 980.59197 NaN NaN NaN NaN NaN NaN NaN 58.636 1 59.395 58.895 59.895 0.75894 0 0 0 0.88162 1 26906 26906 13.508 2.684 1 + 24445 17074 15749 15805 27988 27988 0.10089780504881674 PLHEGPLR 8 Unmodified _PLHEGPLR_ 0 0 0 REV__nc|ENSG00000185189|Q9NSY0-4|NRBP2 REV__nc|ENSG00000185189|Q9NSY0-4|NRBP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 459.7627868652344 2 459.761426 917.5083 2.7493 0.001264 0.73331 0.00033715 3.4826 0.0016012 459.7615708925766 36.581 0.31804 36.581 36.394 36.712 0 25 14 3 0 0 0 0.39589 1 16608 16608 28.487 3.0875 1 544010 + 24446 18077 15750 15806 27989 27989 0.04624624337179739 PLHEGPLR 8 Unmodified _PLHEGPLR_ 0 0 0 REV__nc|ENSG00000185189|Q9NSY0-4|NRBP2 REV__nc|ENSG00000185189|Q9NSY0-4|NRBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 459.7630615234375 2 459.761426 917.5083 NaN NaN NaN NaN NaN NaN NaN 35.757 1 36.548 36.048 37.048 0.79131 0 0 0 0.89651 1 16206 16206 12.532 0 1 + 24447 18077 15750 15806 27990 27990 0.04624624337179739 PLHFHWEKMFN 11 Unmodified _PLHFHWEKMFN_ 0 0 0 REV__ENSG00000095319|ENST00000372577|NUP188 REV__ENSG00000095319|ENST00000372577|NUP188 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 743.357666015625 2 743.358439 1484.70233 NaN NaN NaN NaN NaN NaN NaN 68.887 1 69.589 69.089 70.089 0.70218 0 0 0 1.0055 1 32883 32883 3.5965 2.1146 1 + 24448 10759 15751 15807 27991 27991 -0.020637872890347353 PLHFMPSF 8 Unmodified _PLHFMPSF_ 0 0 0 REV__nc|ENSG00000122145|Q9Y458-2|TBX22 REV__nc|ENSG00000122145|Q9Y458-2|TBX22 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.2449951171875 2 488.241481 974.468409 NaN NaN NaN NaN NaN NaN NaN 48.886 1 49.148 48.648 49.648 0.26209 0 0 0 0.75172 1 22347 22347 20.871 1.4322 1 + 24449 11574 15752 15808 27992 27992 -0.019846386577341946 PLHGLLFFFF 10 Unmodified _PLHGLLFFFF_ 0 0 0 ENST00000332995.11_1_6:13288134-13288596:+|nuORF ENST00000332995.11_1_6:13288134-13288596:+|nuORF ENST00000332995.11_1_6:13288134-13288596:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.347900390625 2 619.342052 1236.66955 NaN NaN NaN NaN NaN NaN NaN 75.11 1 75.11 74.61 75.61 0 0 0 0 0.99687 1 36801 36801 4.3292 1.0479 1 24450 7007 15753 15809 27993 27993 0.06068373650396097 PLHLACLVVRR 11 Unmodified _PLHLACLVVRR_ 0 0 0 REV__ENST00000562370.5_1_16:583983-597374:+|nuORF REV__ENST00000562370.5_1_16:583983-597374:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 638.3895874023438 2 638.887167 1275.75978 3.7296 0.0023828 -1.7736 -0.0011331 1.9561 0.0012497 639.3868216448442 57.92 0.060436 58.182 58.133 58.194 0.26227 5 3 2 0 0 0 0.13295 1 26522 26522 1.4819 0 1 120380 + 24451 14818 15754 15810 27994 27994 0.13293099707175315 PLHLLLPIL 9 Unmodified _PLHLLLPIL_ 0 0 0 ENST00000320849.8_1_20:34843710-34843899:+|nuORF ENST00000320849.8_1_20:34843710-34843899:+|nuORF ENST00000320849.8_1_20:34843710-34843899:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.8486328125 2 514.846971 1027.67939 NaN NaN NaN NaN NaN NaN NaN 92.009 1 92.261 91.761 92.761 0.25253 0 0 0 0.036939 1 42301 42301 67.413 0 1 24452 6924 15755 15811 27995 27995 0.16665561655804595 PLHLQLTSL 9 Unmodified _PLHLQLTSL_ 0 0 0 REV__ENST00000513146.1_1_5:180681739-180687184:-|nuORF REV__ENST00000513146.1_1_5:180681739-180687184:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 511.3076171875 2 511.305667 1020.59678 3.3757 0.001726 -1.2215 -0.00062456 2.1542 0.0011014 511.30566408849825 59.831 0.17691 60.496 60.394 60.571 0.66503 12 8 2 0 0 0 0.16976 1 27398 27398 25.399 0 1 278160 + 24453 16989 15756 15812 27996 27996 0.08730619856999056 PLHPAKSG 8 Unmodified _PLHPAKSG_ 0 0 0 chr7:102584338-102686033|145|14.07|0.0|20.42|-|1|TE_info:AluSg,AluSg_dup14918,Alu,SINE,donor,+,102686033,102686175|RASA4,None|3;chr7:102584338-102586955|344|12.1|0.0|20.21|-|1|TE_info:AluSg,AluSg_dup14912,Alu,SINE,donor,+,102586955,102587097|RASA4,None|3 chr7:102584338-102686033|145|14.07|0.0|20.42|-|1|TE_info:AluSg,AluSg_dup14918,Alu,SINE,donor,+,102686033,102686175|RASA4,None|3 chr7:102584338-102686033|145|14.07|0.0|20.42|-|1|TE_info:AluSg,AluSg_dup14918,Alu,SINE,donor,+,102686033,102686175|RASA4,None|3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 403.732177734375 2 403.729595 805.444637 2.7635 0.0011157 2.453 0.00099036 5.2165 0.0021061 403.7315115700132 68.605 0.30492 69.264 69.103 69.408 0.65924 54 22 4 0 0 0 0.7471 1 31428 31428 0.79363 0 1 716360 24454 189 15757 15813 27997 27997 0.03413263900097263 PLHPDQPPLL 10 Unmodified _PLHPDQPPLL_ 0 0 0 REV__ENSG00000272674|ENST00000609684|PCDHB16;REV__ENSG00000081818|ENST00000194152|PCDHB4;REV__ENSG00000113211|ENST00000231136|PCDHB6;REV__nc|ENSG00000290894|Q96TA0|PCDHB18P REV__ENSG00000272674|ENST00000609684|PCDHB16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.21417236328125 3 376.213358 1125.61824 2.099 0.00078968 1.0518 0.00039568 3.1508 0.0011854 376.2136815504201 55.406 0.27513 56.194 56.022 56.297 0.78711 56 24 4 0 0 0 0.91298 1 25309 25309 3.0723 0.98626 1 1443600 + 24455 14720;10611;11291;18175 15758 15814 27998 27998 0.060460048857066795 PLHPGAWHH 9 Unmodified _PLHPGAWHH_ 0 0 0 ENST00000367157.4_2_1:205274400-205275379:-|nuORF ENST00000367157.4_2_1:205274400-205275379:-|nuORF ENST00000367157.4_2_1:205274400-205275379:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.18017578125 3 351.178871 1050.51478 NaN NaN NaN NaN NaN NaN NaN 71.028 1 71.69 71.19 72.19 0.66209 0 0 0 0.90228 1 32552 32552 2.9952 0.49676 1 24456 7251 15759 15815 27999 27999 -0.008454377114276213 PLHVIRVL 8 Unmodified _PLHVIRVL_ 0 0 0 ENST00000367184.2_1_1:204435983-204436325:-|nuORF ENST00000367184.2_1_1:204435983-204436325:-|nuORF ENST00000367184.2_1_1:204435983-204436325:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.81365966796875 2 473.813462 945.612371 NaN NaN NaN NaN NaN NaN NaN 43.745 1 44.014 43.514 44.514 0.2694 0 0 0 0.99035 1 19980 19980 5.7604 0 1 24457 7253 15760 15816 28000 28000 0.13738951164714308 PLHWVCKKVR 10 Unmodified _PLHWVCKKVR_ 0 0 0 ENST00000538029.1_1_12:9102760-9162130:+|nuORF;ENSG00000139187|ENST00000356986|KLRG1 ENST00000538029.1_1_12:9102760-9162130:+|nuORF ENST00000538029.1_1_12:9102760-9162130:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.3712768554688 2 633.36861 1264.72267 4.3306 0.0027429 0.76858 0.00048679 5.0992 0.0032297 633.3691355742404 92.926 1.1022 93.181 92.701 93.803 0.25497 140 57 3 0 0 0 0.94217 1 42760 42760 0.45834 0 1 1333400 24458 3135 15761 15817 28001 28001 0.1008942816142735 PLHWVCKKVR 10 Unmodified _PLHWVCKKVR_ 0 0 0 ENST00000538029.1_1_12:9102760-9162130:+|nuORF;ENSG00000139187|ENST00000356986|KLRG1 ENST00000538029.1_1_12:9102760-9162130:+|nuORF ENST00000538029.1_1_12:9102760-9162130:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3719482421875 2 633.36861 1264.72267 4.079 0.0025835 0.97664 0.00061858 5.0556 0.0032021 633.3691578354671 91.522 1.3285 92.184 91.419 92.747 0.66198 211 67 4 0 0 0 0.94217 2 41827 41827;42186 0.45834 0.057624 1 5118200 24459 3135 15761 15817 28002;28003 28002 0.1008942816142735 PLILKDLTFLH 11 Unmodified _PLILKDLTFLH_ 0 0 0 ENST00000545893.5_1_17:38345052-38350037:+|nuORF;nc|ENSG00000108352|Q9UHV5-2|RAPGEFL1;nc|ENSG00000108352|Q9UHV5-3|RAPGEFL1;nc|ENSG00000108352|Q9UHV5|RAPGEFL1;ENSG00000108352|ENST00000620260|RAPGEFL1 ENST00000545893.5_1_17:38345052-38350037:+|nuORF ENST00000545893.5_1_17:38345052-38350037:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.267822265625 3 437.267463 1308.78056 3.2062 0.001402 0.98732 0.00043172 4.1935 0.0018337 437.26772062992023 48.493 1.1974 49.148 48.621 49.818 0.65525 149 45 4 0 0 0 0.89544 1 22003 22003 2.6312 0.37851 1 4130600 24460 1629 15762 15818 28004 28004 0.13851968567837503 PLILKRRRLPL 11 Unmodified _PLILKRRRLPL_ 0 0 0 nc|ENSG00000111206|Q08050-2|FOXM1;ENSG00000111206|ENST00000359843|FOXM1;nc|ENSG00000111206|Q08050-3|FOXM1 nc|ENSG00000111206|Q08050-2|FOXM1 nc|ENSG00000111206|Q08050-2|FOXM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 687.9740600585938 2 687.974631 1373.93471 NaN NaN NaN NaN NaN NaN NaN 62.181 1 62.912 62.412 63.412 0.73077 0 0 0 1.008 1 28950 28950 0.30703 0 1 24461 1746 15763 15819 28005 28005 0.26269842843862534 PLILRRWSRR 10 Unmodified _PLILRRWSRR_ 0 0 0 REV__ENST00000496738.5_1_1:156104620-156106879:+|nuORF REV__ENST00000496738.5_1_1:156104620-156106879:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 676.8333740234375 2 676.922929 1351.83131 NaN NaN NaN NaN NaN NaN NaN 56.783 1 57.561 57.061 58.061 0.77786 0 0 0 1.0003 1 25972 25972 1.4819 0.15237 1 + 24462 16855 15764 15820 28006 28006 0.1694635545602523 PLINHLEHLKP 11 Unmodified _PLINHLEHLKP_ 0 0 0 nc|ENSG00000123473|Q15468|STIL;ENSG00000123473|ENST00000371877|STIL nc|ENSG00000123473|Q15468|STIL nc|ENSG00000123473|Q15468|STIL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.5932312011719 3 437.590828 1309.75066 NaN NaN NaN NaN NaN NaN NaN 90.398 1 91.071 90.571 91.571 0.67271 0 0 0 1.0079 1 41607 41607 0.50596 0 1 24463 2316 15765 15821 28007 28007 0.10817029622489827 PLIRIGTSVPI 11 Unmodified _PLIRIGTSVPI_ 0 0 0 REV__ENST00000439880.6_1_20:3777111-3778370:+|nuORF REV__ENST00000439880.6_1_20:3777111-3778370:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.3728637695312 2 583.368798 1164.72304 NaN NaN NaN NaN NaN NaN NaN 75.048 1 75.048 74.548 75.548 0 0 0 0 1.0059 1 36765 36765 2.9952 0.26005 1 + 24464 16336 15766 15822 28008 28008 0.14727126362299714 PLKCSGPR 8 Unmodified _PLKCSGPR_ 0 0 0 ENSG00000164294|ENST00000503787|GPX8;ENST00000511617.5_1_5:54456020-54456169:+|nuORF ENSG00000164294|ENST00000503787|GPX8 ENSG00000164294|ENST00000503787|GPX8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 857.4673461914062 1 857.466183 856.458907 4.0373 0.0034618 -2.6465 -0.0022693 1.3907 0.0011925 857.4635671493096 64.862 0.25859 65.519 65.345 65.604 0.65672 28 15 3 0 0 0 0.71384 1 29726 29726 4.756 1.8668 1 1013000 24465 4301 15767 15823 28009 28009 0.02493593056726695 PLKGIHHI 8 Unmodified _PLKGIHHI_ 0 0 0 ENST00000418231.2_1_X:73350641-73351442:+|nuORF ENST00000418231.2_1_X:73350641-73351442:+|nuORF ENST00000418231.2_1_X:73350641-73351442:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.5252380371094 3 305.523867 913.549771 1.979 0.00060464 0.81597 0.0002493 2.795 0.00085394 305.52410305111795 14.82 0.44036 15.127 14.896 15.337 0.3069 60 42 2 0 0 0 0.73686 2 6743 6743;6787 1.8442 0 1 79290 24466 7727 15768 15824 28010;28011 28010 0.08953805096518863 PLKGKKKKKL 10 Unmodified _PLKGKKKKKL_ 0 0 0 REV__ENST00000344851.4_1_6:158658370-158659030:-|nuORF REV__ENST00000344851.4_1_6:158658370-158659030:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.4188842773438 2 584.418626 1166.8227 NaN NaN NaN NaN NaN NaN NaN 44.819 1 44.819 44.319 45.319 0 0 0 0 1.0015 1 20492 20492 0.40072 0 1 + 24467 15501 15769 15825 28012 28012 0.24595988766873234 PLKIKLGFSM 10 Unmodified _PLKIKLGFSM_ 0 0 0 ENST00000497474.1_1_1:161475257-161476024:+|nuORF ENST00000497474.1_1_1:161475257-161476024:+|nuORF ENST00000497474.1_1_1:161475257-161476024:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.3421020507812 2 567.341195 1132.66784 NaN NaN NaN NaN NaN NaN NaN 43.829 1 44.478 43.978 44.978 0.64872 0 0 0 0.98866 1 20088 20088 7.2892 0 1 24468 8452 15770 15826 28013 28013 0.1068099657015864 PLKILPLIAI 10 Unmodified _PLKILPLIAI_ 0 0 0 nc|ENSG00000113448|Q08499-11|PDE4D;ENST00000514231.1_1_5:59092909-59284421:-|nuORF;ENST00000512069.6_1_5:58854610-59284490:-|nuORF;ENST00000509355.5_1_5:59284313-59481425:-|nuORF;ENST00000509368.6_1_5:59284313-59481385:-|nuORF nc|ENSG00000113448|Q08499-11|PDE4D nc|ENSG00000113448|Q08499-11|PDE4D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.2575988769531 3 364.258127 1089.75255 NaN NaN NaN NaN NaN NaN NaN 14.93 1 15.583 15.083 16.083 0.65356 0 0 0 1.0011 1 6723 6723 0.77653 0 1 24469 9595 15771 15827 28014 28014 0.2112669037840078 PLKKKPHIKI 10 Unmodified _PLKKKPHIKI_ 0 0 0 REV__ENSG00000170801|ENST00000307358|HTRA3 REV__ENSG00000170801|ENST00000307358|HTRA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 601.4098510742188 2 601.410801 1200.80705 NaN NaN NaN NaN NaN NaN NaN 78.814 1 79.476 78.976 79.976 0.66198 0 0 0 1.0015 1 36318 36318 0.45834 0 1 + 24470 13455 15772 15828 28015 28015 0.21467702249810827 PLKKLSAICL 10 Unmodified _PLKKLSAICL_ 0 0 0 REV__ENST00000274140.9_1_5:10436866-10436944:+|nuORF REV__ENST00000274140.9_1_5:10436866-10436944:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.56463623046875 3 362.563222 1084.66784 2.9716 0.0010774 0.015728 5.7023E-06 2.9873 0.0010831 362.5637559889665 89.584 0.43599 89.835 89.637 90.073 0.25136 58 21 4 0 0 0 0.93503 1 41200 41200 1.9064 1.9064 1 903360 + 24471 15070 15773 15829 28016 28016 0.12888996570131894 PLKKLSAICL 10 Unmodified _PLKKLSAICL_ 0 0 0 REV__ENST00000274140.9_1_5:10436866-10436944:+|nuORF REV__ENST00000274140.9_1_5:10436866-10436944:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 362.563222 1084.66784 2.9716 0.0010774 0.015728 5.7023E-06 2.9873 0.0010831 362.5637559889665 89.584 0.43599 89.835 89.637 90.073 0.25136 0.12917 -0.0001755 NaN 1.9064 58 21 4 NaN NaN NaN NaN 0 NaN NaN 0 903360 + 24472 15070 15773 15829 0.12888996570131894 PLKKLSAICL 10 Unmodified _PLKKLSAICL_ 0 0 0 REV__ENST00000274140.9_1_5:10436866-10436944:+|nuORF REV__ENST00000274140.9_1_5:10436866-10436944:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 362.563222 1084.66784 2.7205 0.00098634 0.40813 0.00014797 3.1286 0.0011343 362.5637201633559 88.899 0.32234 89.577 89.423 89.745 0.67818 -0.12917 0.00025131 NaN 1.9064 30 13 3 NaN NaN NaN NaN 0 NaN NaN 0 1432700 + 24473 15070 15773 15829 0.12888996570131894 PLKKRRRRLVY 11 Unmodified _PLKKRRRRLVY_ 0 0 0 REV__ENSG00000121871|ENST00000475390|SLITRK3 REV__ENSG00000121871|ENST00000475390|SLITRK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 743.0216064453125 2 742.986061 1483.95757 NaN NaN NaN NaN NaN NaN NaN 69.155 1 69.858 69.358 70.358 0.70218 0 0 0 1.0079 1 33069 33069 1.4819 1.0812 1 + 24474 11565 15774 15830 28017 28017 0.23494861961353308 PLKKVIARKKV 11 Unmodified _PLKKVIARKKV_ 0 0 0 REV__nc|ENSG00000017260|P98194-2|ATP2C1 REV__nc|ENSG00000017260|P98194-2|ATP2C1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 427.3033142089844 3 427.30273 1278.88636 NaN NaN NaN NaN NaN NaN NaN 40.887 1 40.887 40.387 41.387 0 0 0 0 1.0082 1 18567 18567 0 0 1 + 24475 10258 15775 15831 28018 28018 0.2580734920393297 PLKKWKSRYLM 11 Unmodified _PLKKWKSRYLM_ 0 0 0 nc|ENSG00000168137|Q9C0A6-3|SETD5;ENST00000488236.5_1_3:9495468-9506425:+|nuORF;ENST00000443339.5_1_3:9475802-9506425:+|nuORF;ENST00000413704.5_1_3:9487316-9517772:+|nuORF;ENST00000466242.5_1_3:9484907-9517772:+|nuORF;nc|ENSG00000168137|Q9C0A6-2|SETD5;ENSG00000168137|ENST00000402198|SETD5 nc|ENSG00000168137|Q9C0A6-3|SETD5 nc|ENSG00000168137|Q9C0A6-3|SETD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 725.421142578125 2 725.423582 1448.83261 NaN NaN NaN NaN NaN NaN NaN 55.472 1 56.259 55.759 56.759 0.78711 0 0 0 1.008 1 25327 25327 0.35063 0 1 24476 9743 15776 15832 28019 28019 0.12614808709963654 PLKLPKHKKLI 11 Unmodified _PLKLPKHKKLI_ 0 0 0 nc|ENSG00000197057|Q6ZMT9-2|DTHD1;nc|ENSG00000197057|Q6ZMT9|DTHD1;ENSG00000197057|ENST00000639862|DTHD1 nc|ENSG00000197057|Q6ZMT9-2|DTHD1 nc|ENSG00000197057|Q6ZMT9-2|DTHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 657.955322265625 2 657.952833 1313.89111 NaN NaN NaN NaN NaN NaN NaN 17.602 1 17.803 17.303 18.303 0.20057 0 0 0 1.0082 1 7793 7793 0 0 1 24477 5794 15777 15833 28020 28020 0.24672233346745998 PLKMKPGR 8 Unmodified _PLKMKPGR_ 0 0 0 ENSG00000153147|ENST00000283131|SMARCA5 ENSG00000153147|ENST00000283131|SMARCA5 ENSG00000153147|ENST00000283131|SMARCA5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.7836608886719 2 463.783847 925.553142 NaN NaN NaN NaN NaN NaN NaN 31.295 1 31.912 31.412 32.412 0.61737 0 0 0 0.99035 1 14351 14351 0.79363 0 1 24478 3774 15778 15834 28021 28021 0.08738731878861472 PLKNRDFV 8 Unmodified _PLKNRDFV_ 0 0 0 BMPR1B|p.S175Afs*21|1|0.04|ENSG00000138696|chr4:95125058-95125077|ATCCCTGAGAGACTTAATTG/-|frameshift_variant;ENSG00000138696|ENST00000515059|BMPR1B;nc|ENSG00000138696|O00238-2|BMPR1B BMPR1B|p.S175Afs*21|1|0.04|ENSG00000138696|chr4:95125058-95125077|ATCCCTGAGAGACTTAATTG/-|frameshift_variant BMPR1B|p.S175Afs*21|1|0.04|ENSG00000138696|chr4:95125058-95125077|ATCCCTGAGAGACTTAATTG/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 330.1918640136719 3 330.190665 987.550165 NaN NaN NaN NaN NaN NaN NaN 37.429 1 37.429 36.929 37.929 0 0 0 0 0.99035 1 16985 16985 1.6526 0.17072 1 24479 85 15779 15835 28022 28022 0.0558918002569726 PLKPPKVIR 9 Unmodified _PLKPPKVIR_ 0 0 0 REV__nc|ENSG00000176302|Q6PIV2-2|FOXR1 REV__nc|ENSG00000176302|Q6PIV2-2|FOXR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.3890380859375 2 524.355494 1046.69644 NaN NaN NaN NaN NaN NaN NaN 61.964 1 62.217 61.717 62.717 0.25245 0 0 0 0.90511 1 28369 28369 2.3027 0 1 + 24480 13701 15780 15836 28023 28023 0.17495482261597317 PLKRILRSP 9 Unmodified _PLKRILRSP_ 0 0 0 REV__ENSG00000162733|ENST00000367921|DDR2 REV__ENSG00000162733|ENST00000367921|DDR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.5636291503906 3 360.573109 1078.6975 NaN NaN NaN NaN NaN NaN NaN 33.862 1 34.116 33.616 34.616 0.25389 0 0 0 0.90699 1 15420 15420 0.96228 0 1 + 24481 12955 15781 15837 28024 28024 0.16129696630514445 PLKRLVLRWCW 11 Unmodified _PLKRLVLRWCW_ 0 0 0 ENST00000532508.5_1_1:160249625-160254863:-|nuORF ENST00000532508.5_1_1:160249625-160254863:-|nuORF ENST00000532508.5_1_1:160249625-160254863:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.812744140625 3 490.623586 1468.84893 NaN NaN NaN NaN NaN NaN NaN 60.003 1 60.752 60.252 61.252 0.74927 0 0 0 1.0071 1 27598 27598 1.4551 0 1 24482 8737 15782 15838 28025 28025 0.13325934666727335 PLKVFLHLLI 10 Unmodified _PLKVFLHLLI_ 0 0 0 REV__ENST00000425443.6_1_6:75825611-75827151:-|nuORF REV__ENST00000425443.6_1_6:75825611-75827151:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.265869140625 3 398.265394 1191.77435 NaN NaN NaN NaN NaN NaN NaN 32.496 1 32.75 32.25 33.25 0.25452 0 0 0 1.0019 1 14799 14799 0.13989 0.13989 1 + 24483 16209 15783 15839 28026 28026 0.186134951269878 PLLAAYLHI 9 Unmodified _PLLAAYLHI_ 0 0 0 nc|ENSG00000106484|Q5EB52-3|MEST;nc|ENSG00000106484|Q5EB52-2|MEST;ENSG00000106484|ENST00000223215|MEST nc|ENSG00000106484|Q5EB52-3|MEST nc|ENSG00000106484|Q5EB52-3|MEST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.3086242675781 2 505.805303 1009.59605 3.4115 0.0017256 -0.16202 -8.1951E-05 3.2495 0.0016436 505.8050016037075 42.324 0.21717 42.97 42.914 43.131 0.64693 24 15 2 0 0 0 0.68496 1 19443 19443 9.3474 0.75416 1 573660 24484 1574 15784 15840 28027 28027 0.09163825207929222 PLLCFWSL 8 Unmodified _PLLCFWSL_ 0 0 0 nc|ENSG00000101670|Q9Y5X9-2|LIPG;ENSG00000101670|ENST00000261292|LIPG nc|ENSG00000101670|Q9Y5X9-2|LIPG nc|ENSG00000101670|Q9Y5X9-2|LIPG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.7609558105469 2 489.759507 977.50446 2.9688 0.001454 0.058744 2.877E-05 3.0275 0.0014828 489.75931312445306 76.717 0.33655 76.972 76.797 77.133 0.25533 54 23 3 0 0 0 0.13778 1 35297 35297 49.669 9.2203 1 1977500 24485 1309 15785 15841 28028 28028 0.014808185191100165 PLLCFWSL 8 Unmodified _PLLCFWSL_ 0 0 0 nc|ENSG00000101670|Q9Y5X9-2|LIPG;ENSG00000101670|ENST00000261292|LIPG nc|ENSG00000101670|Q9Y5X9-2|LIPG nc|ENSG00000101670|Q9Y5X9-2|LIPG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.7607116699219 2 489.759507 977.50446 2.8549 0.0013982 0.91523 0.00044824 3.7701 0.0018464 489.7597361950495 76.234 0.37872 76.897 76.715 77.093 0.66387 55 24 3 0 0 0 0.23254 1 35095 35095 40.449 0 1 1882100 24486 1309 15785 15841 28029 28029 0.014808185191100165 PLLCFWSL 8 Unmodified _PLLCFWSL_ 0 0 0 nc|ENSG00000101670|Q9Y5X9-2|LIPG;ENSG00000101670|ENST00000261292|LIPG nc|ENSG00000101670|Q9Y5X9-2|LIPG nc|ENSG00000101670|Q9Y5X9-2|LIPG MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 489.759507 977.50446 2.6748 0.00131 -0.26112 -0.00012789 2.4137 0.0011821 489.7592349886507 76.047 0.22701 76.671 76.602 76.829 0.62397 -0.22216 -0.00062489 NaN 49.669 27 16 2 NaN NaN NaN NaN 0 NaN NaN 0 1349100 24487 1309 15785 15841 0.014808185191100165 PLLCMKLR 8 Unmodified _PLLCMKLR_ 0 0 0 REV__ENST00000258412.7_1_2:219139912-219139993:-|nuORF REV__ENST00000258412.7_1_2:219139912-219139993:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 973.321533203125 1 973.56854 972.561264 3.9213 0.0038176 -0.32963 -0.00032092 3.5916 0.0034967 973.5657743324272 88.514 0.099968 89.192 89.132 89.232 0.67818 5 3 2 0 0 0 0.14333 1 40757 40757 0.79363 0 1 393330 + 24488 14947 15786 15842 28030 28030 0.07388542803971632 PLLFPHKKK 9 Unmodified _PLLFPHKKK_ 0 0 0 ENST00000608756.5_1_3:122145454-122145598:+|nuORF ENST00000608756.5_1_3:122145454-122145598:+|nuORF ENST00000608756.5_1_3:122145454-122145598:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 370.2141418457031 3 369.906088 1106.69644 2.7093 0.0010022 1.1845 0.00043817 3.8939 0.0014404 369.9065825303199 36.361 0.76614 36.361 36.052 36.818 0 75 36 3 0 0 0 0.11267 1 16502 16502 1.0715 0 1 1949700 24489 9345 15787 15843 28031 28031 0.14735482261608013 PLLFPHKKK 9 Unmodified _PLLFPHKKK_ 0 0 0 ENST00000608756.5_1_3:122145454-122145598:+|nuORF ENST00000608756.5_1_3:122145454-122145598:+|nuORF ENST00000608756.5_1_3:122145454-122145598:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 369.906088 1106.69644 2.6683 0.00098701 1.1653 0.00043104 3.8335 0.001418 369.9064501776795 35.933 0.88388 36.189 35.94 36.824 0.25641 -0.019507 -0.00018189 NaN 1.0715 106 37 4 NaN NaN NaN NaN 0 NaN NaN 0 2584400 24490 9345 15787 15843 0.14735482261608013 PLLFPHKKK 9 Unmodified _PLLFPHKKK_ 0 0 0 ENST00000608756.5_1_3:122145454-122145598:+|nuORF ENST00000608756.5_1_3:122145454-122145598:+|nuORF ENST00000608756.5_1_3:122145454-122145598:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 369.906088 1106.69644 2.7045 0.0010004 1.6281 0.00060225 4.3326 0.0016027 369.90653622979164 35.45 0.60338 36.076 35.938 36.541 0.62631 -0.13244 0.00033174 NaN 1.0715 56 21 4 NaN NaN NaN NaN 0 NaN NaN 0 2021900 24491 9345 15787 15843 0.14735482261608013 PLLFYHLWRYF 11 Unmodified _PLLFYHLWRYF_ 0 0 0 ENST00000528063.5_1_11:66049809-66051065:+|nuORF;ENST00000531936.1_1_11:66050146-66051065:+|nuORF;ENSG00000174871|ENST00000311445|CNIH2 ENST00000528063.5_1_11:66049809-66051065:+|nuORF ENST00000528063.5_1_11:66049809-66051065:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 778.0051879882812 2 777.916447 1553.81834 NaN NaN NaN NaN NaN NaN NaN 107.96 1 108.01 107.51 108.51 0.045425 0 0 0 1.0055 1 58319 58319 3.5965 0.8613 1 24492 5001 15788 15844 28032 28032 0.06358479553296092 PLLHEWEL 8 Unmodified _PLLHEWEL_ 0 0 0 chr1:206053265-206056227|484|20.65|0.57|5.17|+|1|TE_info:Harlequin-int,Harlequin-int_dup70,ERV1,LTR,acceptor,+,206056227,206058429|RHEX,None|12;chr1:206053265-206056224|491|26.43|0.74|5.17|+|1|TE_info:Harlequin-int,Harlequin-int_dup70,ERV1,LTR,acceptor,+,206056224,206058429|RHEX,None|11;chr1:206053265-206056179|473|27.28|0.64|5.42|+|1|TE_info:Harlequin-int,Harlequin-int_dup70,ERV1,LTR,acceptor,+,206056179,206058429|RHEX,None|13 chr1:206053265-206056227|484|20.65|0.57|5.17|+|1|TE_info:Harlequin-int,Harlequin-int_dup70,ERV1,LTR,acceptor,+,206056227,206058429|RHEX,None|12 chr1:206053265-206056227|484|20.65|0.57|5.17|+|1|TE_info:Harlequin-int,Harlequin-int_dup70,ERV1,LTR,acceptor,+,206056227,206058429|RHEX,None|12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.8016357421875 2 518.776742 1035.53893 NaN NaN NaN NaN NaN NaN NaN 43.989 1 44.809 44.309 45.309 0.82075 0 0 0 0.99035 1 20027 20027 6.3541 0 1 24493 125 15789 15845 28033 28033 0.022583579315551106 PLLHTPMYYFL 11 Unmodified _PLLHTPMYYFL_ 0 0 0 ENSG00000196341|ENST00000641015|OR8D1 ENSG00000196341|ENST00000641015|OR8D1 ENSG00000196341|ENST00000641015|OR8D1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 697.8609008789062 2 697.862492 1393.71043 NaN NaN NaN NaN NaN NaN NaN 77.506 1 77.759 77.259 78.259 0.25335 0 0 0 1.0057 1 35694 35694 3.2813 1.4371 1 24494 5735 15790 15846 28034 28034 0.029323469077098707 PLLKHIKKK 9 Unmodified _PLLKHIKKK_ 0 0 0 ENSG00000122728|ENST00000242310|TAF1L;nc|ENSG00000147133|P21675-23|TAF1;nc|ENSG00000147133|P21675-24|TAF1;nc|ENSG00000147133|P21675-21|TAF1;nc|ENSG00000147133|P21675-15|TAF1;nc|ENSG00000147133|P21675-19|TAF1;nc|ENSG00000147133|P21675-20|TAF1;nc|ENSG00000147133|P21675-13|TAF1;nc|ENSG00000147133|P21675-16|TAF1;nc|ENSG00000147133|P21675-18|TAF1;nc|ENSG00000147133|P21675-22|TAF1;nc|ENSG00000147133|P21675-1|TAF1;ENSG00000147133|ENST00000423759|TAF1;nc|ENSG00000147133|P21675|TAF1;nc|ENSG00000147133|P21675-17|TAF1;nc|ENSG00000147133|P21675-25|TAF1 ENSG00000122728|ENST00000242310|TAF1L;nc|ENSG00000147133|P21675-23|TAF1 ENSG00000122728|ENST00000242310|TAF1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1104.766357421875 1 1104.76156 1103.75428 3.1279 0.0034556 -0.22526 -0.00024886 2.9027 0.0032067 1104.7615166957514 27.145 0.071501 27.41 27.371 27.442 0.26489 5 4 2 0 0 0 1.2459 1 12336 12336 0 0 1 324800 24495 2280;3548 15791 15847 28035 28035 0.206557441870018 PLLKSKYLKK 10 Unmodified _PLLKSKYLKK_ 0 0 0 REV__nc|ENSG00000013016|Q9NZN3-2|EHD3 REV__nc|ENSG00000013016|Q9NZN3-2|EHD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 609.40087890625 2 609.402641 1216.79073 NaN NaN NaN NaN NaN NaN NaN 53.625 1 54.428 53.928 54.928 0.80351 0 0 0 1.0015 1 24470 24470 0.45834 0 1 + 24496 10245 15792 15848 28036 28036 0.1910057629304447 PLLLFKRLL 9 Unmodified _PLLLFKRLL_ 0 0 0 ENSG00000157423|ENST00000393567|HYDIN ENSG00000157423|ENST00000393567|HYDIN ENSG00000157423|ENST00000393567|HYDIN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.883056640625 2 556.881345 1111.74814 NaN NaN NaN NaN NaN NaN NaN 74.92 1 74.92 74.42 75.42 0 0 0 0 0.90511 1 36688 36688 2.3027 0 1 24497 3950 15793 15849 28037 28037 0.19673225955511953 PLLLHLIIF 9 Unmodified _PLLLHLIIF_ 0 0 0 ENST00000374530.7_2_9:112931168-112931354:+|nuORF ENST00000374530.7_2_9:112931168-112931354:+|nuORF ENST00000374530.7_2_9:112931168-112931354:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 360.56365966796875 3 360.238956 1077.69504 2.3913 0.00086143 1.3668 0.00049237 3.7581 0.0013538 360.5746983694026 35.085 0.11383 35.877 35.784 35.898 0.79132 7 5 2 0 0 0 1.1703 1 15884 15884 1.1933 0 1 94200 24498 7382 15794 15850 28038 28038 0.15929848172845595 PLLLIPVF 8 Unmodified _PLLLIPVF_ 0 0 0 REV__ENSG00000007216|ENST00000314669|SLC13A2 REV__ENSG00000007216|ENST00000314669|SLC13A2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 304.86468505859375 3 304.537002 910.589176 2.0996 0.00063942 -0.049284 -1.5009E-05 2.0504 0.00062441 304.53665695834553 38.543 0.97062 39.177 38.943 39.913 0.63388 48 35 2 0 0 0 0.14333 1 17566 17566 0.45834 0 1 338290 + 24499 10200 15795 15851 28039 28039 0.1303051232737289 PLLLKLVH 8 Unmodified _PLLLKLVH_ 0 0 0 REV__ENST00000551617.1_1_12:100594834-100598785:+|nuORF REV__ENST00000551617.1_1_12:100594834-100598785:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 467.05926513671875 2 466.818213 931.621873 NaN NaN NaN NaN NaN NaN NaN 64.993 1 65.702 65.202 66.202 0.70891 0 0 0 0.99035 1 30659 30659 2.5775 0 1 + 24500 17288 15796 15852 28040 28040 0.1533271945022534 PLLLLKLHLW 10 Unmodified _PLLLLKLHLW_ 0 0 0 nc|ENSG00000143554|Q5K4L6-3|SLC27A3;ENST00000468403.1_1_1:153747811-153748660:+|nuORF;nc|ENSG00000143554|Q5K4L6-2|SLC27A3;ENSG00000143554|ENST00000624995|SLC27A3 nc|ENSG00000143554|Q5K4L6-3|SLC27A3 nc|ENSG00000143554|Q5K4L6-3|SLC27A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 623.4086303710938 2 623.407727 1244.8009 NaN NaN NaN NaN NaN NaN NaN 59.346 1 60.011 59.511 60.511 0.66503 0 0 0 0.99983 1 27168 27168 1.8442 0 1 24501 3379 15797 15853 28041 28041 0.188291840183183 PLLLLLALAL 10 Unmodified _PLLLLLALAL_ 0 0 0 ENSG00000180044|ENST00000326474|C3orf80 ENSG00000180044|ENST00000326474|C3orf80 ENSG00000180044|ENST00000326474|C3orf80 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1049.736572265625 1 1049.73328 1048.726 3.518 0.0036929 -0.20153 -0.00021155 3.3164 0.0034814 1049.7344264414517 59.175 0.12195 59.842 59.772 59.894 0.66703 7 4 2 0 0 0 0.94443 1 27101 27101 0 0 1 431470 24502 5238 15798 15854 28042 28042 0.2035900148705423 PLLLLLLALLL 11 Unmodified _PLLLLLLALLL_ 0 0 0 ENSG00000228300|ENST00000409293|FAM174C ENSG00000228300|ENST00000409293|FAM174C ENSG00000228300|ENST00000409293|FAM174C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 602.4910278320312 2 602.935786 1203.85702 NaN NaN NaN NaN NaN NaN NaN 54.058 1 54.058 53.558 54.558 0 0 0 0 1.008 1 24788 24788 0.35063 0 1 24503 6174 15799 15855 28043 28043 0.26324392135120434 PLLLLLLVLLL 11 Unmodified _PLLLLLLVLLL_ 0 0 0 ENSG00000132334|ENST00000254667|PTPRE ENSG00000132334|ENST00000254667|PTPRE ENSG00000132334|ENST00000254667|PTPRE MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 616.9594116210938 2 616.951436 1231.88832 NaN NaN NaN NaN NaN NaN NaN 105.71 1 105.71 105.21 106.21 0 0 0 0 1.0082 1 58088 58088 0 0 1 24504 2691 15800 15856 28044 28044 0.2816496516920779 PLLLLPKPPV 10 Unmodified _PLLLLPKPPV_ 0 0 0 REV__ENST00000263655.3_1_2:68546937-68546988:-|nuORF REV__ENST00000263655.3_1_2:68546937-68546988:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.0192260742188 2 543.867903 1085.72125 NaN NaN NaN NaN NaN NaN NaN 69.966 1 70.669 70.169 71.169 0.70302 0 0 0 0.99733 1 33504 33504 3.9444 1.8846 1 + 24505 15001 15801 15857 28045 28045 0.1818211734430406 PLLLLPLLLL 10 Unmodified _PLLLLPLLLL_ 0 0 0 ENST00000534789.5_1_19:50838228-50848012:-|nuORF;ENST00000534096.5_1_19:50838046-50848012:-|nuORF;ENSG00000182580|ENST00000330394|EPHB3 ENST00000534789.5_1_19:50838228-50848012:-|nuORF ENST00000534789.5_1_19:50838228-50848012:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.40087890625 2 559.401579 1116.7886 NaN NaN NaN NaN NaN NaN NaN 98.188 1 98.188 97.688 98.688 0 0 0 0 0.99983 1 53690 53690 1.8442 0 1 24506 8751 15802 15858 28046 28046 0.23488147555281103 PLLLLPLLLLL 11 Unmodified _PLLLLPLLLLL_ 0 0 0 ENST00000534789.5_1_19:50838228-50848012:-|nuORF;ENST00000534096.5_1_19:50838046-50848012:-|nuORF ENST00000534789.5_1_19:50838228-50848012:-|nuORF ENST00000534789.5_1_19:50838228-50848012:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 615.9429931640625 2 615.943611 1229.87267 NaN NaN NaN NaN NaN NaN NaN 0.17289 1 0.477 -0.023001 0.977 0.30411 0 0 0 1.0082 1 80 80 0 0 1 24507 8751 15803 15859 28047 28047 0.266926786521708 PLLLLPLLLLL 11 Unmodified _PLLLLPLLLLL_ 0 0 0 ENST00000534789.5_1_19:50838228-50848012:-|nuORF;ENST00000534096.5_1_19:50838046-50848012:-|nuORF ENST00000534789.5_1_19:50838228-50848012:-|nuORF ENST00000534789.5_1_19:50838228-50848012:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 615.7824096679688 2 615.943611 1229.87267 NaN NaN NaN NaN NaN NaN NaN 2.0413 1 2.3455 1.8455 2.8455 0.3042 0 0 0 1.0082 1 930 930 0 0 1 24508 8751 15803 15859 28048 28048 0.266926786521708 PLLLLPLLLLL 11 Unmodified _PLLLLPLLLLL_ 0 0 0 ENST00000534789.5_1_19:50838228-50848012:-|nuORF;ENST00000534096.5_1_19:50838046-50848012:-|nuORF ENST00000534789.5_1_19:50838228-50848012:-|nuORF ENST00000534789.5_1_19:50838228-50848012:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 615.7767944335938 2 615.943611 1229.87267 NaN NaN NaN NaN NaN NaN NaN 8.8386 1 9.1452 8.6452 9.6452 0.30663 0 0 0 1.0082 1 3998 3998 0 0 1 24509 8751 15803 15859 28049 28049 0.266926786521708 PLLLLPLLLLL 11 Unmodified _PLLLLPLLLLL_ 0 0 0 ENST00000534789.5_1_19:50838228-50848012:-|nuORF;ENST00000534096.5_1_19:50838046-50848012:-|nuORF ENST00000534789.5_1_19:50838228-50848012:-|nuORF ENST00000534789.5_1_19:50838228-50848012:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 615.9443359375 2 615.943611 1229.87267 NaN NaN NaN NaN NaN NaN NaN 8.9459 1 9.2525 8.7525 9.7525 0.30663 0 0 0 1.0082 1 4047 4047 0 0 1 24510 8751 15803 15859 28050 28050 0.266926786521708 PLLLQLAQLRR 11 Unmodified _PLLLQLAQLRR_ 0 0 0 ENST00000396355.5_1_16:15818353-15818767:+|nuORF ENST00000396355.5_1_16:15818353-15818767:+|nuORF ENST00000396355.5_1_16:15818353-15818767:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 660.9271240234375 2 660.927346 1319.84014 NaN NaN NaN NaN NaN NaN NaN 65.636 1 65.885 65.385 66.385 0.24848 0 0 0 1.0082 1 30069 30069 0 0 1 24511 7567 15804 15860 28051 28051 0.1930128430183231 PLLLRLLVTRP 11 Unmodified _PLLLRLLVTRP_ 0 0 0 HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|11|1|sense HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|11|1|sense HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|11|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.9618225097656 3 430.958852 1289.85473 NaN NaN NaN NaN NaN NaN NaN 35.395 1 36.021 35.521 36.521 0.62631 0 0 0 1.0074 1 16216 16216 1.1098 0 1 24512 9397 15805 15861 28052 28052 0.22139356450020387 PLLLSRFLK 9 Unmodified _PLLLSRFLK_ 0 0 0 ENST00000425242.5_1_13:49913817-49924914:-|nuORF ENST00000425242.5_1_13:49913817-49924914:-|nuORF ENST00000425242.5_1_13:49913817-49924914:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.8017578125 2 543.855327 1085.6961 NaN NaN NaN NaN NaN NaN NaN 72.34 1 72.34 71.84 72.84 0 0 0 0 0.84134 1 35189 35189 7.9102 0.62092 1 24513 7794 15806 15862 28053 28053 0.15668062541726613 PLLLTLLLLLR 11 Unmodified _PLLLTLLLLLR_ 0 0 0 REV__ENSG00000178607|ENST00000433197|ERN1;REV__ENST00000583028.1_1_17:62175367-62207458:-|nuORF;REV__nc|ENSG00000178607|O75460-2|ERN1 REV__ENST00000583028.1_1_17:62175367-62207458:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 639.4520874023438 2 639.449591 1276.88463 NaN NaN NaN NaN NaN NaN NaN 73.105 1 73.803 73.303 74.303 0.69881 0 0 0 1.0082 1 35233 35233 0.35063 0.043601 1 + 24514 13768;17520;18059 15807 15863 28054 28054 0.25726295395361376 PLLLWWFRRCK 11 Unmodified _PLLLWWFRRCK_ 0 0 0 REV__ENST00000304863.5_1_19:29698548-29698617:-|nuORF REV__ENST00000304863.5_1_19:29698548-29698617:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 759.4295043945312 2 759.431741 1516.84893 NaN NaN NaN NaN NaN NaN NaN 73.086 1 73.784 73.284 74.284 0.69881 0 0 0 1.008 1 35224 35224 0.35063 0.043601 1 + 24515 15220 15808 15864 28055 28055 0.11117934666708607 PLLMLLLH 8 Unmodified _PLLMLLLH_ 0 0 0 REV__ENST00000479322.1_1_1:218607587-218614701:+|nuORF REV__ENST00000479322.1_1_1:218607587-218614701:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.3365173339844 2 475.298799 948.583045 NaN NaN NaN NaN NaN NaN NaN 85.714 1 85.963 85.463 86.463 0.24857 0 0 0 0.99035 1 39441 39441 0.79363 0 1 + 24516 10749 15809 15865 28056 28056 0.10669670824199784 PLLPAETFPEW 11 Unmodified _PLLPAETFPEW_ 0 0 0 REV__nc|ENSG00000143382|Q6UY14-3|ADAMTSL4 REV__nc|ENSG00000143382|Q6UY14-3|ADAMTSL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 649.878662109375 2 650.334621 1298.65469 NaN NaN NaN NaN NaN NaN NaN 84.105 1 84.134 83.634 84.634 0.028603 0 0 0 1.0057 1 41879 41879 3.2813 0 1 + 24517 17970 15810 15866 28057 28057 0.017308369917373057 PLLQRWGL 8 Unmodified _PLLQRWGL_ 0 0 0 REV__nc|ENSG00000161270|O60500-2|NPHS1 REV__nc|ENSG00000161270|O60500-2|NPHS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7975158691406 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 59.393 1 59.652 59.152 60.152 0.2593 0 0 0 0.93233 1 27196 27196 10.183 1.5901 1 + 24518 12910 15811 15867 28058 28058 0.08446074267999393 PLLQSESIL 9 Unmodified _PLLQSESIL_ 0 0 0 REV__ENST00000578240.1_1_17:8133236-8133407:-|nuORF REV__ENST00000578240.1_1_17:8133236-8133407:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.29132080078125 2 500.289682 998.564812 3.0012 0.0015015 0.12909 6.4584E-05 3.1303 0.001566 500.28971306062294 70.87 0.25926 71.126 70.957 71.217 0.25641 30 18 2 0 0 0 0.10169 1 32426 32426 32.305 0 1 499180 + 24519 17488 15812 15868 28059 28059 0.06547207383187015 PLLQWPRWLHR 11 Unmodified _PLLQWPRWLHR_ 0 0 0 ENST00000339282.11_1_19:12662181-12662316:-|nuORF ENST00000339282.11_1_19:12662181-12662316:-|nuORF ENST00000339282.11_1_19:12662181-12662316:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 751.4359130859375 2 751.430587 1500.84662 NaN NaN NaN NaN NaN NaN NaN 88.908 1 89.159 88.659 89.659 0.25118 0 0 0 1.0071 1 40897 40897 1.4819 1.1313 1 24520 7055 15813 15869 28060 28060 0.11623222253251697 PLLRGDRAI 9 Unmodified _PLLRGDRAI_ 0 0 0 REV__nc|ENSG00000072201|Q8TBB1-2|LNX1 REV__nc|ENSG00000072201|Q8TBB1-2|LNX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.8099060058594 2 505.808908 1009.60326 3.2214 0.0016294 0.4956 0.00025068 3.717 0.0018801 505.8092341932066 53.725 0.25276 53.99 53.884 54.137 0.26462 19 9 3 0 0 0 0.49692 1 24579 24579 12.532 0 1 405980 + 24521 10490 15814 15870 28061 28061 0.098845578083683 PLLRGDRAI 9 Unmodified _PLLRGDRAI_ 0 0 0 REV__nc|ENSG00000072201|Q8TBB1-2|LNX1 REV__nc|ENSG00000072201|Q8TBB1-2|LNX1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 505.808908 1009.60326 3.2214 0.0016294 0.4956 0.00025068 3.717 0.0018801 505.8092341932066 53.725 0.25276 53.99 53.884 54.137 0.26462 0.064094 0.0006345 NaN 12.532 19 9 3 NaN NaN NaN NaN 0 NaN NaN 0 405980 + 24522 10490 15814 15870 0.098845578083683 PLLRGDRAI 9 Unmodified _PLLRGDRAI_ 0 0 0 REV__nc|ENSG00000072201|Q8TBB1-2|LNX1 REV__nc|ENSG00000072201|Q8TBB1-2|LNX1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 505.808908 1009.60326 3.0895 0.0015627 -0.78251 -0.0003958 2.307 0.0011669 505.8088203196029 53.197 0.24094 53.862 53.762 54.003 0.6644 -0.064094 -0.00065845 NaN 12.532 15 9 2 NaN NaN NaN NaN 0 NaN NaN 0 503370 + 24523 10490 15814 15870 0.098845578083683 PLLRRLLAQRL 11 Unmodified _PLLRRLLAQRL_ 0 0 0 ENST00000321662.10_2_14:53020128-53064997:+|nuORF;ENST00000555622.1_1_14:53020137-53064997:+|nuORF ENST00000321662.10_2_14:53020128-53064997:+|nuORF ENST00000321662.10_2_14:53020128-53064997:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 337.7276916503906 4 337.977945 1347.88267 2.2555 0.0007623 1.973 0.00066684 4.2285 0.0014291 337.97854490278786 34.165 0.13965 34.785 34.752 34.892 0.62031 8 5 2 0 0 0 0.13295 1 15671 15671 0.094841 0.011491 1 428880 24524 6933 15815 15871 28062 28062 0.22264679430099932 PLLRRRRVKRS 11 Unmodified _PLLRRRRVKRS_ 0 0 0 ENST00000474649.1_1_7:100184248-100189648:+|nuORF;nc|ENSG00000106336|O75426-2|FBXO24;ENSG00000106336|ENST00000241071|FBXO24 ENST00000474649.1_1_7:100184248-100189648:+|nuORF ENST00000474649.1_1_7:100184248-100189648:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 718.8499755859375 2 718.973485 1435.93242 NaN NaN NaN NaN NaN NaN NaN 83.478 1 83.478 82.978 83.978 0 0 0 0 1.008 1 42061 42061 0.35063 0 1 24525 1563 15816 15872 28063 28063 0.23188807158749114 PLLRSKLL 8 Unmodified _PLLRSKLL_ 0 0 0 REV__ENST00000357717.6_1_10:14981831-14996009:-|nuORF REV__ENST00000357717.6_1_10:14981831-14996009:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.32427978515625 2 470.32112 938.627687 NaN NaN NaN NaN NaN NaN NaN 76.599 1 76.854 76.354 77.354 0.25533 0 0 0 0.99035 1 35271 35271 5.2307 0 1 + 24526 15570 15817 15873 28064 28064 0.15591817961899324 PLLTKKFLLH 10 Unmodified _PLLTKKFLLH_ 0 0 0 REV__ENSG00000112983|ENST00000254900|BRD8 REV__ENSG00000112983|ENST00000254900|BRD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.1993103027344 4 303.198405 1208.76451 2.3274 0.00070566 1.1963 0.00036272 3.5237 0.0010684 303.449363201617 40.867 0.25467 41.512 41.3 41.555 0.64451 32 14 3 0 0 0 0.9406 1 18681 18681 0.77653 0.078866 1 3330900 + 24527 11284 15818 15874 28065 28065 0.16848307121586004 PLLTKKFLLH 10 Unmodified _PLLTKKFLLH_ 0 0 0 REV__ENSG00000112983|ENST00000254900|BRD8 REV__ENSG00000112983|ENST00000254900|BRD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.1994934082031 4 303.198405 1208.76451 2.3075 0.00069963 1.3481 0.00040875 3.6556 0.0011084 303.19869278575413 41.075 0.22871 41.72 41.673 41.902 0.64451 23 16 3 0 0 0 0.9406 1 18842 18842 0.77653 0 1 5372600 + 24528 11284 15818 15874 28066 28066 0.16848307121586004 PLLTKKFLLH 10 Unmodified _PLLTKKFLLH_ 0 0 0 REV__ENSG00000112983|ENST00000254900|BRD8 REV__ENSG00000112983|ENST00000254900|BRD8 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 303.198405 1208.76451 1.9015 0.00057654 1.4847 0.00045016 3.3862 0.0010267 303.44962158282743 41.235 0.071571 41.235 41.202 41.274 0 -0.10806 0.00063456 NaN 0.77653 11 9 2 NaN NaN NaN NaN 0 NaN NaN 0 2635700 + 24529 11284 15818 15874 0.16848307121586004 PLLTKKFLLH 10 Unmodified _PLLTKKFLLH_ 0 0 0 REV__ENSG00000112983|ENST00000254900|BRD8 REV__ENSG00000112983|ENST00000254900|BRD8 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 303.198405 1208.76451 2.2076 0.00066933 0.95065 0.00028824 3.1582 0.00095756 303.19862342648855 40.632 0.21857 41.436 41.259 41.477 0.8035 0.093329 -1.3145E-05 NaN 0.77653 36 18 3 NaN NaN NaN NaN 0 NaN NaN 0 4063400 + 24530 11284 15818 15874 0.16848307121586004 PLLTKKFLLH 10 Unmodified _PLLTKKFLLH_ 0 0 0 REV__ENSG00000112983|ENST00000254900|BRD8 REV__ENSG00000112983|ENST00000254900|BRD8 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 303.198405 1208.76451 2.4077 0.00073 0.70603 0.00021407 3.1137 0.00094407 303.19856023697525 40.919 0.18581 41.188 41.082 41.268 0.26904 -0.15418 -0.00030982 NaN 0.77653 35 19 3 NaN NaN NaN NaN 0 NaN NaN 0 3474100 + 24531 11284 15818 15874 0.16848307121586004 PLLVLRRERPW 11 Unmodified _PLLVLRRERPW_ 0 0 0 ENST00000232978.12_1_3:42642521-42660554:+|nuORF ENST00000232978.12_1_3:42642521-42660554:+|nuORF ENST00000232978.12_1_3:42642521-42660554:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.17108154296875 4 359.472761 1433.86194 2.6631 0.00095732 1.5728 0.00056539 4.236 0.0015227 359.72371269855483 84.289 0.048447 84.951 84.933 84.981 0.66219 4 2 2 0 0 0 0.13295 1 38835 38835 0.094841 0 1 181490 24532 6447 15819 15875 28067 28067 0.16236089050448754 PLMVPALVGWT 11 Unmodified _PLMVPALVGWT_ 0 0 0 REV__ENST00000318562.12_2_11:727281-727653:+|nuORF REV__ENST00000318562.12_2_11:727281-727653:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 395.2224426269531 3 395.222977 1182.6471 NaN NaN NaN NaN NaN NaN NaN 33.177 1 33.177 32.677 33.677 0 0 0 0 1.0072 1 15027 15027 1.3296 0.11481 1 + 24533 15302 15820 15876 28068 28068 0.06308406190464666 PLMVYKLHDTF 11 Unmodified _PLMVYKLHDTF_ 0 0 0 REV__nc|ENSG00000257017|P00738-2|HP REV__nc|ENSG00000257017|P00738-2|HP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 681.9772338867188 2 682.357573 1362.70059 NaN NaN NaN NaN NaN NaN NaN 82.072 1 82.072 81.572 82.572 0 0 0 0 1.0059 1 40974 40974 2.9952 0.26005 1 + 24534 14679 15821 15877 28069 28069 0.033751589023268025 PLMWILGKRKQ 11 Unmodified _PLMWILGKRKQ_ 0 0 0 REV__chr18:74501617-74505849|203|26.24|0.72|5.18|+|0|None,CNDP2|1 REV__chr18:74501617-74505849|203|26.24|0.72|5.18|+|0|None,CNDP2|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.4099731445312 2 685.410475 1368.8064 NaN NaN NaN NaN NaN NaN NaN 59.967 1 59.967 59.467 60.467 0 0 0 0 1.0072 1 27767 27767 1.3295 0.13619 1 + 24535 10035 15822 15878 28070 28070 0.13674539538487807 PLNRLRHYYEF 11 Unmodified _PLNRLRHYYEF_ 0 0 0 REV__nc|ENSG00000168961|O00182-3|LGALS9 REV__nc|ENSG00000168961|O00182-3|LGALS9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 754.3916015625 2 754.393867 1506.77318 NaN NaN NaN NaN NaN NaN NaN 101.09 1 101.41 100.91 101.91 0.31412 0 0 0 1.0041 1 46783 46783 5.2969 2.3016 1 + 24536 13375 15823 15879 28071 28071 0.040066290201139054 PLNVDLVL 8 Unmodified _PLNVDLVL_ 0 0 0 REV__ENST00000412485.1_1_X:13284560-13284650:-|nuORF REV__ENST00000412485.1_1_X:13284560-13284650:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.7698059082031 2 441.768386 881.522219 2.9204 0.0012901 0.94237 0.00041631 3.8628 0.0017064 441.76864812459667 84.976 0.28274 85.224 85.053 85.336 0.24757 31 15 3 0 0 0 0.18676 1 39086 39086 44.407 0 1 762780 + 24537 16109 15824 15880 28072 28072 0.07671857045602337 PLNVDLVL 8 Unmodified _PLNVDLVL_ 0 0 0 REV__ENST00000412485.1_1_X:13284560-13284650:-|nuORF REV__ENST00000412485.1_1_X:13284560-13284650:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.7698669433594 2 441.768386 881.522219 3.225 0.0014247 0.25393 0.00011218 3.4789 0.0015369 441.7683473812971 84.366 0.38593 85.028 84.856 85.242 0.66219 48 22 3 0 0 0 0.39589 2 38848 38848;38901 28.487 0 1 732730 + 24538 16109 15824 15880 28073;28074 28073 0.07671857045602337 PLNVDLVL 8 Unmodified _PLNVDLVL_ 0 0 0 REV__ENST00000412485.1_1_X:13284560-13284650:-|nuORF REV__ENST00000412485.1_1_X:13284560-13284650:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 882.5333862304688 1 882.529495 881.522219 4.084 0.0036043 0.39029 0.00034444 4.4743 0.0039487 882.5296418167325 84.367 0.33625 85.029 84.89 85.226 0.66219 41 19 3 0 0 0 0.23923 1 38920 38920 39.957 0 1 1059000 + 24539 16109 15824 15880 28075 28075 0.07671857045602337 PLNVDLVL 8 Unmodified _PLNVDLVL_ 0 0 0 REV__ENST00000412485.1_1_X:13284560-13284650:-|nuORF REV__ENST00000412485.1_1_X:13284560-13284650:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 441.768386 881.522219 2.9204 0.0012901 0.94237 0.00041631 3.8628 0.0017064 441.76864812459667 84.976 0.28274 85.224 85.053 85.336 0.24757 0.097712 0.00023274 NaN 44.407 31 15 3 NaN NaN NaN NaN 0 NaN NaN 0 762780 + 24540 16109 15824 15880 0.07671857045602337 PLPEFIPITF 10 Unmodified _PLPEFIPITF_ 0 0 0 REV__ENSG00000112249|ENST00000369162|ASCC3 REV__ENSG00000112249|ENST00000369162|ASCC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.3295288085938 2 587.33135 1172.64815 NaN NaN NaN NaN NaN NaN NaN 61.627 1 62.287 61.787 62.787 0.66008 0 0 0 0.88535 1 28224 28224 20.454 4.3045 1 + 24541 11266 15825 15881 28076 28076 0.06872943831035627 PLPELDPLF 9 Unmodified _PLPELDPLF_ 0 0 0 ENSG00000090565|ENST00000262305|RAB11FIP3;nc|ENSG00000090565|O75154-3|RAB11FIP3 ENSG00000090565|ENST00000262305|RAB11FIP3 ENSG00000090565|ENST00000262305|RAB11FIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.7886962890625 2 520.786776 1039.559 3.6246 0.0018877 -0.3718 -0.00019363 3.2529 0.001694 520.7867469683672 87.739 0.45456 87.99 87.797 88.252 0.25065 36 17 3 0 0 0 0.22507 1 40483 40483 21.747 0 1 1867000 24542 1062 15826 15882 28077 28077 0.04080108871517041 PLPFIGLSIPR 11 Unmodified _PLPFIGLSIPR_ 0 0 0 REV__ENST00000502329.1_1_17:49109002-49124830:-|nuORF REV__ENST00000502329.1_1_17:49109002-49124830:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 403.9183349609375 3 403.916653 1208.72813 2.7004 0.0010907 0.70781 0.0002859 3.4082 0.0013766 403.9169642144747 38.309 0.63223 38.309 37.987 38.62 0 54 26 3 0 0 0 0.88721 2 17419 17419;17476 1.2148 0.51716 1 1068800 + 24543 10207 15827 15883 28078;28079 28078 0.13211430224896503 PLPFIGLSIPR 11 Unmodified _PLPFIGLSIPR_ 0 0 0 REV__ENST00000502329.1_1_17:49109002-49124830:-|nuORF REV__ENST00000502329.1_1_17:49109002-49124830:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.2530212402344 3 403.916653 1208.72813 2.8801 0.0011633 1.2373 0.00049977 4.1174 0.0016631 403.91677749793155 38.291 0.74242 38.555 37.982 38.724 0.26408 44 23 3 0 0 0 0.91111 1 17465 17465 0.40827 0 1 822300 + 24544 10207 15827 15883 28080 28080 0.13211430224896503 PLPFIGLSIPR 11 Unmodified _PLPFIGLSIPR_ 0 0 0 REV__ENST00000502329.1_1_17:49109002-49124830:-|nuORF REV__ENST00000502329.1_1_17:49109002-49124830:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 403.9179382324219 3 403.916653 1208.72813 2.8741 0.0011609 0.9292 0.00037532 3.8033 0.0015362 403.9167831712651 37.394 0.74297 38.024 37.752 38.495 0.62999 65 27 3 0 0 0 0.91111 1 17284 17284 0.40827 0 1 641050 + 24545 10207 15827 15883 28081 28081 0.13211430224896503 PLPFIGLSIPR 11 Unmodified _PLPFIGLSIPR_ 0 0 0 REV__ENST00000502329.1_1_17:49109002-49124830:-|nuORF REV__ENST00000502329.1_1_17:49109002-49124830:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 403.916653 1208.72813 2.7004 0.0010907 0.70781 0.0002859 3.4082 0.0013766 403.9169642144747 38.309 0.63223 38.309 37.987 38.62 0 -0.12294 -0.00024514 NaN 1.2148 54 26 3 NaN NaN NaN NaN 0 NaN NaN 0 1068800 + 24546 10207 15827 15883 0.13211430224896503 PLPGEYII 8 Unmodified _PLPGEYII_ 0 0 0 ENSG00000076356|ENST00000367033|PLXNA2 ENSG00000076356|ENST00000367033|PLXNA2 ENSG00000076356|ENST00000367033|PLXNA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.2563781738281 2 451.255111 900.49567 NaN NaN NaN NaN NaN NaN NaN 70.575 1 70.831 70.331 71.331 0.25642 0 0 0 0.81105 1 32322 32322 18.135 0 1 24547 846 15828 15884 28082 28082 0.04144168154300587 PLPGEYII 8 Unmodified _PLPGEYII_ 0 0 0 ENSG00000076356|ENST00000367033|PLXNA2 ENSG00000076356|ENST00000367033|PLXNA2 ENSG00000076356|ENST00000367033|PLXNA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.2564392089844 2 451.255111 900.49567 NaN NaN NaN NaN NaN NaN NaN 70.062 1 70.722 70.222 71.222 0.66071 0 0 0 0.86524 1 32124 32124 14.582 0 1 24548 846 15828 15884 28083 28083 0.04144168154300587 PLPGHLAK 8 Unmodified _PLPGHLAK_ 0 0 0 REV__ENSG00000181751|ENST00000319933|MACIR REV__ENSG00000181751|ENST00000319933|MACIR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 832.5074462890625 1 832.503949 831.496673 4.721 0.0039302 0.43674 0.00036359 5.1577 0.0042938 832.504210231359 104.24 0.067146 104.55 104.51 104.58 0.31863 18 8 3 0 0 0 0.7471 1 48161 48161 0.79363 0 1 2204500 + 24549 13863 15829 15885 28084 28084 0.07418427313859866 PLPGHLAK 8 Unmodified _PLPGHLAK_ 0 0 0 REV__ENSG00000181751|ENST00000319933|MACIR REV__ENSG00000181751|ENST00000319933|MACIR MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 832.503949 831.496673 4.721 0.0039302 0.43674 0.00036359 5.1577 0.0042938 832.504210231359 104.24 0.067146 104.55 104.51 104.58 0.31863 -0.11622 -6.4561E-05 NaN 0.79363 18 8 3 NaN NaN NaN NaN 0 NaN NaN 0 2204500 + 24550 13863 15829 15885 0.07418427313859866 PLPHHLLSL 9 Unmodified _PLPHHLLSL_ 0 0 0 REV__ENSG00000188394|ENST00000616002|GPR21 REV__ENSG00000188394|ENST00000616002|GPR21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.809814453125 2 513.808377 1025.6022 3.3655 0.0017292 0.67655 0.00034762 4.042 0.0020768 513.8083381463216 45.83 0.39897 46.096 45.866 46.265 0.26561 37 15 3 0 0 0 0.43926 1 20919 20919 13.508 4.9146 1 2238300 + 24551 14148 15830 15886 28085 28085 0.09042343439477918 PLPHHLLSL 9 Unmodified _PLPHHLLSL_ 0 0 0 REV__ENSG00000188394|ENST00000616002|GPR21 REV__ENSG00000188394|ENST00000616002|GPR21 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 513.808377 1025.6022 3.057 0.0015707 1.7225 0.00088501 4.7794 0.0024557 513.809243243936 46.261 0.25767 46.261 46.085 46.342 0 0.082526 0.00052419 NaN 13.508 23 12 2 NaN NaN NaN NaN 0 NaN NaN 0 2123000 + 24552 14148 15830 15886 0.09042343439477918 PLPHHLLSL 9 Unmodified _PLPHHLLSL_ 0 0 0 REV__ENSG00000188394|ENST00000616002|GPR21 REV__ENSG00000188394|ENST00000616002|GPR21 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 513.808377 1025.6022 3.3655 0.0017292 0.67655 0.00034762 4.042 0.0020768 513.8083381463216 45.83 0.39897 46.096 45.866 46.265 0.26561 -0.082526 -0.00055061 NaN 13.508 37 15 3 NaN NaN NaN NaN 0 NaN NaN 0 2238300 + 24553 14148 15830 15886 0.09042343439477918 PLPHIAVL 8 Unmodified _PLPHIAVL_ 0 0 0 nc|ENSG00000162591|O75095-2|MEGF6;ENSG00000162591|ENST00000356575|MEGF6 nc|ENSG00000162591|O75095-2|MEGF6 nc|ENSG00000162591|O75095-2|MEGF6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.2760009765625 2 430.273638 858.532724 3.0508 0.0013127 0.87923 0.00037831 3.93 0.001691 430.2741402320128 65.97 0.30096 66.219 65.971 66.272 0.24848 22 16 2 0 0 0 0.457 1 30218 30218 24.21 6.075 1 515110 24554 4144 15831 15887 28086 28086 0.09779884490706081 PLPIQWKI 8 Unmodified _PLPIQWKI_ 0 0 0 ENSG00000110448|ENST00000347785|CD5 ENSG00000110448|ENST00000347785|CD5 ENSG00000110448|ENST00000347785|CD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.197265625 3 332.207656 993.601138 NaN NaN NaN NaN NaN NaN NaN 31.587 1 32.204 31.704 32.704 0.61736 0 0 0 0.97647 1 14482 14482 7.2892 0.56607 1 24555 1719 15832 15888 28087 28087 0.10408129070549421 PLPLRYVIRLW 11 Unmodified _PLPLRYVIRLW_ 0 0 0 ENST00000494683.1_1_1:153913675-153913855:-|nuORF ENST00000494683.1_1_1:153913675-153913855:-|nuORF ENST00000494683.1_1_1:153913675-153913855:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 713.4402465820312 2 713.440089 1424.86563 NaN NaN NaN NaN NaN NaN NaN 67.813 1 68.515 68.015 69.015 0.70218 0 0 0 1.0071 1 32278 32278 1.4819 0 1 24556 8425 15833 15889 28088 28088 0.1701875882429249 PLPPITID 8 Unmodified _PLPPITID_ 0 0 0 REV__ENSG00000184083|ENST00000375180|FAM120C REV__ENSG00000184083|ENST00000375180|FAM120C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 433.2564697265625 2 433.255111 864.49567 3.1641 0.0013709 -0.24181 -0.00010477 2.9223 0.0012661 433.2549017633532 51.107 0.30906 51.107 50.938 51.247 0 35 16 3 0 0 0 0.45037 1 23372 23372 24.674 5.2349 1 1656000 + 24557 13956 15834 15890 28089 28089 0.058001681542691585 PLPPITID 8 Unmodified _PLPPITID_ 0 0 0 REV__ENSG00000184083|ENST00000375180|FAM120C REV__ENSG00000184083|ENST00000375180|FAM120C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 433.2558288574219 2 433.255111 864.49567 2.8102 0.0012175 -0.78492 -0.00034007 2.0253 0.00087746 433.2544821649781 50.255 0.32226 51.078 50.885 51.207 0.82285 38 16 3 0 0 0 0.45037 2 22858 22858;22920 24.674 2.3668 1 975910 + 24558 13956 15834 15890 28090;28091 28090 0.058001681542691585 PLPPITID 8 Unmodified _PLPPITID_ 0 0 0 REV__ENSG00000184083|ENST00000375180|FAM120C REV__ENSG00000184083|ENST00000375180|FAM120C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 433.25604248046875 2 433.255111 864.49567 2.7716 0.0012008 0.38563 0.00016708 3.1572 0.0013679 433.2548636354772 51.072 0.28024 51.333 51.169 51.449 0.26146 25 11 3 0 0 0 0.5438 1 23357 23357 18.135 0 1 1184000 + 24559 13956 15834 15890 28092 28092 0.058001681542691585 PLPPITID 8 Unmodified _PLPPITID_ 0 0 0 REV__ENSG00000184083|ENST00000375180|FAM120C REV__ENSG00000184083|ENST00000375180|FAM120C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 433.2557678222656 2 433.255111 864.49567 2.9717 0.0012875 -0.40845 -0.00017696 2.5633 0.0011106 433.25485865193525 50.351 0.35802 51.008 50.833 51.191 0.65735 36 16 3 0 0 0 0.37185 1 23008 23008 30.225 2.0516 1 1274900 + 24560 13956 15834 15890 28093 28093 0.058001681542691585 PLPPITID 8 Unmodified _PLPPITID_ 0 0 0 REV__ENSG00000184083|ENST00000375180|FAM120C REV__ENSG00000184083|ENST00000375180|FAM120C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 433.255111 864.49567 3.1641 0.0013709 -0.24181 -0.00010477 2.9223 0.0012661 433.2549017633532 51.107 0.30906 51.107 50.938 51.247 0 -0.024535 8.3173E-05 NaN 30.225 35 16 3 NaN NaN NaN NaN 0 NaN NaN 0 1656000 + 24561 13956 15834 15890 0.058001681542691585 PLPPITID 8 Unmodified _PLPPITID_ 0 0 0 REV__ENSG00000184083|ENST00000375180|FAM120C REV__ENSG00000184083|ENST00000375180|FAM120C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 433.255111 864.49567 2.8102 0.0012175 -0.78492 -0.00034007 2.0253 0.00087746 433.2544821649781 50.255 0.32226 51.078 50.885 51.207 0.82285 -0.053444 -0.00038743 NaN 30.225 38 16 3 NaN NaN NaN NaN 0 NaN NaN 0 975910 + 24562 13956 15834 15890 0.058001681542691585 PLPPITID 8 Unmodified _PLPPITID_ 0 0 0 REV__ENSG00000184083|ENST00000375180|FAM120C REV__ENSG00000184083|ENST00000375180|FAM120C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 433.255111 864.49567 2.7716 0.0012008 0.38563 0.00016708 3.1572 0.0013679 433.2548636354772 51.072 0.28024 51.333 51.169 51.449 0.26146 0.20175 0.00062685 NaN 30.225 25 11 3 NaN NaN NaN NaN 0 NaN NaN 0 1184000 + 24563 13956 15834 15890 0.058001681542691585 PLPPITID 8 Unmodified _PLPPITID_ 0 0 0 REV__ENSG00000184083|ENST00000375180|FAM120C REV__ENSG00000184083|ENST00000375180|FAM120C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 433.255111 864.49567 2.9717 0.0012875 -0.40845 -0.00017696 2.5633 0.0011106 433.25485865193525 50.351 0.35802 51.008 50.833 51.191 0.65735 -0.12378 -6.1225E-05 NaN 30.225 36 16 3 NaN NaN NaN NaN 0 NaN NaN 0 1274900 + 24564 13956 15834 15890 0.058001681542691585 PLPPPVKL 8 Unmodified _PLPPPVKL_ 0 0 0 REV__nc|ENSG00000130479|Q66K74-2|MAP1S REV__nc|ENSG00000130479|Q66K74-2|MAP1S MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 430.784912109375 2 430.783839 859.553125 2.8994 0.001249 -0.1899 -8.1806E-05 2.7095 0.0011672 430.78365296731056 57.985 0.28023 57.985 57.856 58.136 0 44 27 2 0 0 0 0.045989 2 26726 26726;26782 67.035 0 1 1191200 + 24565 11819 15835 15891 28094;28095 28094 0.11773055150513301 PLPPPVKL 8 Unmodified _PLPPPVKL_ 0 0 0 REV__nc|ENSG00000130479|Q66K74-2|MAP1S REV__nc|ENSG00000130479|Q66K74-2|MAP1S MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 430.7850341796875 2 430.783839 859.553125 2.5021 0.0010779 -0.36526 -0.00015735 2.1368 0.0009205 430.78369695380735 57.065 0.22069 57.843 57.695 57.916 0.77786 31 19 2 0 0 0 0.16336 1 26087 26087 46.921 0 1 1320300 + 24566 11819 15835 15891 28096 28096 0.11773055150513301 PLPPPVKL 8 Unmodified _PLPPPVKL_ 0 0 0 REV__nc|ENSG00000130479|Q66K74-2|MAP1S REV__nc|ENSG00000130479|Q66K74-2|MAP1S MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 430.783839 859.553125 2.8994 0.001249 -0.1899 -8.1806E-05 2.7095 0.0011672 430.78365296731056 57.985 0.28023 57.985 57.856 58.136 0 0.13543 0.00014427 NaN 67.035 44 27 2 NaN NaN NaN NaN 0 NaN NaN 0 1191200 + 24567 11819 15835 15891 0.11773055150513301 PLPPPVKL 8 Unmodified _PLPPPVKL_ 0 0 0 REV__nc|ENSG00000130479|Q66K74-2|MAP1S REV__nc|ENSG00000130479|Q66K74-2|MAP1S MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 430.783839 859.553125 2.5021 0.0010779 -0.36526 -0.00015735 2.1368 0.0009205 430.78369695380735 57.065 0.22069 57.843 57.695 57.916 0.77786 -0.0062334 -6.8058E-06 NaN 67.035 31 19 2 NaN NaN NaN NaN 0 NaN NaN 0 1320300 + 24568 11819 15835 15891 0.11773055150513301 PLPPPVKL 8 Unmodified _PLPPPVKL_ 0 0 0 REV__nc|ENSG00000130479|Q66K74-2|MAP1S REV__nc|ENSG00000130479|Q66K74-2|MAP1S MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 430.783839 859.553125 2.8586 0.0012315 -0.30429 -0.00013108 2.5544 0.0011004 430.7838221597753 57.583 0.21684 57.848 57.737 57.954 0.26443 -0.0014301 4.5719E-05 NaN 67.035 21 12 2 NaN NaN NaN NaN 0 NaN NaN 0 618930 + 24569 11819 15835 15891 0.11773055150513301 PLPPPVKL 8 Unmodified _PLPPPVKL_ 0 0 0 REV__nc|ENSG00000130479|Q66K74-2|MAP1S REV__nc|ENSG00000130479|Q66K74-2|MAP1S MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 430.783839 859.553125 3.1147 0.0013418 -0.76701 -0.00033042 2.3477 0.0010113 430.7835647755035 57.053 0.31497 57.721 57.551 57.866 0.66829 -0.12777 -0.00035295 NaN 67.035 20 13 2 NaN NaN NaN NaN 0 NaN NaN 0 837130 + 24570 11819 15835 15891 0.11773055150513301 PLPPTGKITRE 11 Unmodified _PLPPTGKITRE_ 0 0 0 ENSG00000178965|ENST00000326665|ERICH3;nc|ENSG00000178965|Q5RHP9-3|ERICH3 ENSG00000178965|ENST00000326665|ERICH3 ENSG00000178965|ENST00000326665|ERICH3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.84814453125 2 604.853512 1207.69247 NaN NaN NaN NaN NaN NaN NaN 53.62 1 53.62 53.12 54.12 0 0 0 0 1.0038 1 24575 24575 5.7319 0 1 24571 5188 15836 15892 28097 28097 0.09693347977213307 PLPPVSIS 8 Unmodified _PLPPVSIS_ 0 0 0 ENSG00000179532|ENST00000254579|DNHD1;ENST00000529821.5_1_11:6587803-6593213:+|nuORF;ENST00000530197.5_1_11:6587352-6593213:+|nuORF ENSG00000179532|ENST00000254579|DNHD1 ENSG00000179532|ENST00000254579|DNHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.24395751953125 2 405.242004 808.469455 2.9863 0.0012102 0.54043 0.000219 3.5268 0.0014292 405.24287702394247 79.617 0.36995 80.278 79.964 80.334 0.66082 40 26 2 0 0 0 0.7471 1 36637 36637 0.79363 0 1 348940 24572 5220 15837 15893 28098 28098 0.05755898982818053 PLPPWKLIR 9 Unmodified _PLPPWKLIR_ 0 0 0 ENSG00000118492|ENST00000397944|ADGB ENSG00000118492|ENST00000397944|ADGB ENSG00000118492|ENST00000397944|ADGB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.3554077148438 2 560.355494 1118.69644 NaN NaN NaN NaN NaN NaN NaN 37.517 1 38.312 37.812 38.812 0.79552 0 0 0 0.91206 1 16998 16998 0.6015 0 1 24573 2117 15838 15894 28099 28099 0.14183482261591962 PLPQRKFRKRR 11 Unmodified _PLPQRKFRKRR_ 0 0 0 REV__ENSG00000186564|ENST00000334793|FOXD2 REV__ENSG00000186564|ENST00000334793|FOXD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 741.4661254882812 2 741.468035 1480.92152 NaN NaN NaN NaN NaN NaN NaN 74.342 1 74.601 74.101 75.101 0.25831 0 0 0 1.0071 1 34188 34188 1.4819 1.1749 1 + 24574 14061 15839 15895 28100 28100 0.20029404784463622 PLPRCLKKLRR 11 Unmodified _PLPRCLKKLRR_ 0 0 0 REV__nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 REV__nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.72613525390625 4 345.724958 1378.87073 2.702 0.00093413 0.16533 5.7157E-05 2.8673 0.00099129 345.7249795361088 47.04 0.57423 47.304 47.039 47.613 0.26363 40 21 2 0 0 0 0.91459 1 21536 21536 0.094841 0 1 1057600 + 24575 12278 15840 15896 28101 28101 0.19644739415252843 PLPRCLKKLRR 11 Unmodified _PLPRCLKKLRR_ 0 0 0 REV__nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 REV__nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.7259826660156 4 345.724958 1378.87073 2.6105 0.00090252 0.19277 6.6647E-05 2.8033 0.00096917 345.7250424350708 49.028 0.26508 49.29 49.143 49.408 0.26194 21 9 3 0 0 0 0.91459 1 22409 22409 0.094841 0 1 2159700 + 24576 12278 15840 15896 28102 28102 0.19644739415252843 PLPRCLKKLRR 11 Unmodified _PLPRCLKKLRR_ 0 0 0 REV__nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 REV__nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.7261047363281 4 345.724958 1378.87073 2.5425 0.000879 0.60217 0.00020818 3.1446 0.0010872 345.725116223255 48.582 0.8881 49.237 48.846 49.734 0.65524 65 34 3 0 0 0 0.91459 1 22245 22245 0.094841 0 1 2735300 + 24577 12278 15840 15896 28103 28103 0.19644739415252843 PLPRCLKKLRR 11 Unmodified _PLPRCLKKLRR_ 0 0 0 REV__nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 REV__nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 345.724958 1378.87073 2.4337 0.0008414 0.24817 8.5799E-05 2.6819 0.0009272 345.975826401302 49.362 0.58214 49.362 49.036 49.618 0 0.027321 -8.261E-05 NaN 0.094841 52 26 4 NaN NaN NaN NaN 0 NaN NaN 0 2317900 + 24578 12278 15840 15896 0.19644739415252843 PLPRCLKKLRR 11 Unmodified _PLPRCLKKLRR_ 0 0 0 REV__nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 REV__nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 345.724958 1378.87073 2.3638 0.00081722 0.15783 5.4566E-05 2.5216 0.00087178 345.725016686792 48.622 0.26245 49.449 49.296 49.559 0.82705 0.11468 -0.00020754 NaN 0.094841 25 14 2 NaN NaN NaN NaN 0 NaN NaN 0 2700200 + 24579 12278 15840 15896 0.19644739415252843 PLPRCLKKLRR 11 Unmodified _PLPRCLKKLRR_ 0 0 0 REV__nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 REV__nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 345.724958 1378.87073 2.6105 0.00090252 0.19277 6.6647E-05 2.8033 0.00096917 345.7250424350708 49.028 0.26508 49.29 49.143 49.408 0.26194 -0.044623 -0.00015922 NaN 0.094841 21 9 3 NaN NaN NaN NaN 0 NaN NaN 0 2159700 + 24580 12278 15840 15896 0.19644739415252843 PLPRCLKKLRR 11 Unmodified _PLPRCLKKLRR_ 0 0 0 REV__nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 REV__nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 345.724958 1378.87073 2.5425 0.000879 0.60217 0.00020818 3.1446 0.0010872 345.725116223255 48.582 0.8881 49.237 48.846 49.734 0.65524 -0.097379 0.00040694 NaN 0.094841 65 34 3 NaN NaN NaN NaN 0 NaN NaN 0 2735300 + 24581 12278 15840 15896 0.19644739415252843 PLPRKLHV 8 Unmodified _PLPRKLHV_ 0 0 0 ENST00000562391.5_1_18:77807330-77829802:+|nuORF ENST00000562391.5_1_18:77807330-77829802:+|nuORF ENST00000562391.5_1_18:77807330-77829802:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.3121643066406 2 480.311087 958.60762 NaN NaN NaN NaN NaN NaN NaN 71.368 1 72.072 71.572 72.572 0.70386 0 0 0 0.99035 1 34271 34271 5.7604 0.52976 1 24582 8992 15841 15897 28104 28104 0.12666067021939398 PLPRLRGPL 9 Unmodified _PLPRLRGPL_ 0 0 0 REV__ENST00000578426.5_1_17:21030268-21086931:+|nuORF REV__ENST00000578426.5_1_17:21030268-21086931:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 340.2108154296875 3 340.222188 1017.64473 2.2319 0.00075935 0.038442 1.3079E-05 2.2704 0.00077243 340.22227967201866 14.746 0.18761 15.053 14.965 15.153 0.3069 24 13 2 0 0 0 0.11236 1 6630 6630 1.1933 0 1 104770 + 24583 15510 15842 15898 28105 28105 0.1366173856771411 PLPRRPRRRR 10 Unmodified _PLPRRPRRRR_ 0 0 0 ENST00000373045.10_1_1:38259693-38260377:+|nuORF ENST00000373045.10_1_1:38259693-38260377:+|nuORF ENST00000373045.10_1_1:38259693-38260377:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 680.43896484375 2 680.43707 1358.85959 NaN NaN NaN NaN NaN NaN NaN 75.129 1 75.129 74.629 75.629 0 0 0 0 0.99983 1 36810 36810 1.8442 0.36234 1 24584 7351 15843 15899 28106 28106 0.1945109815599153 PLPRVEPQPF 10 Unmodified _PLPRVEPQPF_ 0 0 0 ENSG00000179698|ENST00000323662|WDR97 ENSG00000179698|ENST00000323662|WDR97 ENSG00000179698|ENST00000323662|WDR97 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.3106079101562 2 590.329673 1178.64479 NaN NaN NaN NaN NaN NaN NaN 51.866 1 52.528 52.028 53.028 0.66198 0 0 0 0.99225 1 23718 23718 6.7232 0.51738 1 24585 5226 15844 15900 28107 28107 0.0626169377703718 PLPRVRLLRS 10 Unmodified _PLPRVRLLRS_ 0 0 0 ENST00000536411.1_1_12:6483977-6484974:-|nuORF ENST00000536411.1_1_12:6483977-6484974:-|nuORF ENST00000536411.1_1_12:6483977-6484974:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 603.8942260742188 2 603.893306 1205.77206 NaN NaN NaN NaN NaN NaN NaN 107.43 1 107.74 107.24 108.24 0.31421 0 0 0 1.0015 1 49558 49558 0.45834 0 1 24586 8770 15845 15901 28108 28108 0.17740459441893108 PLPSATKRRAS 11 Unmodified _PLPSATKRRAS_ 0 0 0 ENST00000478302.1_1_7:6974811-6975840:-|nuORF ENST00000478302.1_1_7:6974811-6975840:-|nuORF ENST00000478302.1_1_7:6974811-6975840:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.2236328125 3 395.235045 1182.6833 2.8519 0.0011272 0.0090786 3.5882E-06 2.861 0.0011308 395.235197821416 31.753 0.37981 32.371 32.287 32.667 0.61736 42 24 3 0 0 0 0.89309 1 14685 14685 1.1098 0.70149 1 1002300 24587 8250 15846 15902 28109 28109 0.09926999411550241 PLPSATQRRAS 11 Unmodified _PLPSATQRRAS_ 0 0 0 ENST00000528684.5_1_11:67560680-67565163:-|nuORF;ENST00000529253.5_1_11:67560680-67572784:-|nuORF;nc|ENSG00000290994|A6NEL3|FAM86C2P ENST00000528684.5_1_11:67560680-67565163:-|nuORF ENST00000528684.5_1_11:67560680-67565163:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 395.22393798828125 3 395.222916 1182.64692 NaN NaN NaN NaN NaN NaN NaN 31.961 1 32.749 32.249 33.249 0.78795 0 0 0 1.0075 1 14445 14445 1.0136 0.23704 1 24588 8692 15847 15903 28110 28110 0.06290122514860741 PLPSTLIK 8 Unmodified _PLPSTLIK_ 0 0 0 ENSG00000113621|ENST00000358387|TXNDC15;nc|ENSG00000113621|Q96J42-2|TXNDC15 ENSG00000113621|ENST00000358387|TXNDC15 ENSG00000113621|ENST00000358387|TXNDC15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.7809143066406 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 40.629 1 40.898 40.398 41.398 0.26904 0 0 0 0.99035 1 18485 18485 0.79363 0 1 24589 1864 15848 15904 28111 28111 0.10388447425305003 PLPTVFLSIKH 11 Unmodified _PLPTVFLSIKH_ 0 0 0 ENST00000475678.5_1_2:219130391-219130901:-|nuORF;ENST00000465442.1_1_2:219130391-219131358:-|nuORF;ENST00000489767.5_1_2:219130391-219134818:-|nuORF ENST00000475678.5_1_2:219130391-219130901:-|nuORF ENST00000475678.5_1_2:219130391-219130901:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 626.3795166015625 2 626.376623 1250.73869 3.8354 0.0024024 1.3072 0.00081878 5.1426 0.0032212 626.3771035677452 40.396 0.48745 40.665 40.324 40.812 0.26904 28 17 2 0 0 0 0.89544 1 18329 18329 1.1933 0 1 759420 24590 8124 15849 15905 28112 28112 0.123354128793153 PLPTVFLSIKH 11 Unmodified _PLPTVFLSIKH_ 0 0 0 ENST00000475678.5_1_2:219130391-219130901:-|nuORF;ENST00000465442.1_1_2:219130391-219131358:-|nuORF;ENST00000489767.5_1_2:219130391-219134818:-|nuORF ENST00000475678.5_1_2:219130391-219130901:-|nuORF ENST00000475678.5_1_2:219130391-219130901:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 626.376623 1250.73869 3.8108 0.002387 1.1086 0.00069439 4.9194 0.0030814 626.3772211830418 40.727 0.092896 40.727 40.692 40.785 0 0.031028 -0.00010491 NaN 1.1933 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 977930 24591 8124 15849 15905 0.123354128793153 PLPVLLVAT 9 Unmodified _PLPVLLVAT_ 0 0 0 ENST00000557232.1_1_14:23025225-23025366:-|nuORF ENST00000557232.1_1_14:23025225-23025366:-|nuORF ENST00000557232.1_1_14:23025225-23025366:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.19732666015625 3 308.203911 921.589904 NaN NaN NaN NaN NaN NaN NaN 20.422 1 21.076 20.576 21.576 0.65346 0 0 0 0.91014 1 9273 9273 1.0715 0 1 24592 8934 15850 15906 28113 28113 0.12597306976431355 PLQAGSSPLL 10 Unmodified _PLQAGSSPLL_ 0 0 0 REV__ENST00000476279.5_2_7:140404755-140421541:+|nuORF REV__ENST00000476279.5_2_7:140404755-140421541:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.784423828125 2 491.782025 981.549496 NaN NaN NaN NaN NaN NaN NaN 35.434 1 35.434 34.934 35.934 0 0 0 0 0.95544 1 16078 16078 12.532 0 1 + 24593 16652 15851 15907 28114 28114 0.05798340585999995 PLQGFVVKSL 10 Unmodified _PLQGFVVKSL_ 0 0 0 REV__ENST00000355299.8_1_14:24701999-24702451:+|nuORF REV__ENST00000355299.8_1_14:24701999-24702451:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.8016967773438 2 544.329142 1086.64373 3.5251 0.0019188 0.18096 9.8502E-05 3.7061 0.0020173 544.3293520077807 36.918 0.32718 37.548 37.354 37.681 0.62999 24 12 3 0 0 0 0.12676 1 16817 16817 10.074 10.074 1 410820 + 24594 15540 15852 15908 28115 28115 0.10387479408132094 PLQKMKAKLL 10 Unmodified _PLQKMKAKLL_ 0 0 0 REV__ENST00000421722.5_1_2:190656520-190720594:+|nuORF REV__ENST00000421722.5_1_2:190656520-190720594:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.7579956054688 2 585.375569 1168.73659 NaN NaN NaN NaN NaN NaN NaN 51.761 1 51.761 51.261 52.261 0 0 0 0 0.99983 1 23696 23696 1.8442 0 1 + 24595 16179 15853 15909 28116 28116 0.1589666086986199 PLQKSIRRF 9 Unmodified _PLQKSIRRF_ 0 0 0 REV__ENSG00000198793|ENST00000361445|MTOR REV__ENSG00000198793|ENST00000361445|MTOR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 382.2369079589844 3 382.236497 1143.68766 1.9568 0.00074796 -0.036132 -1.3811E-05 1.9207 0.00073415 382.23646677203453 6.3273 0.50829 6.667 6.4651 6.9734 0.33974 141 66 3 0 0 0 1.231 1 2797 2797 0.23584 0 1 68956 + 24596 14359 15854 15910 28117 28117 0.12156508625116658 PLQLQGNMRSE 11 Unmodified _PLQLQGNMRSE_ 0 0 0 REV__ENSG00000273820|ENST00000621775|USP27X REV__ENSG00000273820|ENST00000621775|USP27X MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 637.10498046875 2 636.821886 1271.62922 NaN NaN NaN NaN NaN NaN NaN 74.375 1 74.375 73.875 74.875 0 0 0 0 1.0034 1 36324 36324 6.2058 0.47393 1 + 24597 14725 15855 15911 28118 28118 0.004270391977115651 PLQMKKFWPNP 11 Unmodified _PLQMKKFWPNP_ 0 0 0 ENST00000506102.5_1_3:125725861-125741959:-|nuORF;ENST00000512557.5_1_3:125725252-125741959:-|nuORF;nc|ENSG00000114544|Q96GZ6-8|SLC41A3;nc|ENSG00000114544|Q96GZ6-6|SLC41A3;nc|ENSG00000114544|Q96GZ6-7|SLC41A3;nc|ENSG00000114544|Q96GZ6-4|SLC41A3;nc|ENSG00000114544|Q96GZ6-3|SLC41A3;nc|ENSG00000114544|Q96GZ6-5|SLC41A3;ENSG00000114544|ENST00000360370|SLC41A3;nc|ENSG00000114544|Q96GZ6-2|SLC41A3;nc|ENSG00000114544|Q96GZ6|SLC41A3 ENST00000506102.5_1_3:125725861-125741959:-|nuORF ENST00000506102.5_1_3:125725861-125741959:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 693.3724975585938 2 693.373558 1384.73256 NaN NaN NaN NaN NaN NaN NaN 63.029 1 63.687 63.187 64.187 0.65808 0 0 0 1.0038 1 28882 28882 5.7319 1.7875 1 24598 1911 15856 15912 28119 28119 0.05558571376150212 PLQPTRIWFI 10 Unmodified _PLQPTRIWFI_ 0 0 0 REV__ENST00000398117.1_1_18:60795005-60795071:-|nuORF REV__ENST00000398117.1_1_18:60795005-60795071:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 635.868896484375 2 635.868966 1269.72338 NaN NaN NaN NaN NaN NaN NaN 89.67 1 89.921 89.421 90.421 0.25137 0 0 0 1.0003 1 41240 41240 1.4819 0.15237 1 + 24599 16022 15857 15913 28120 28120 0.0993054608213697 PLQRRERRYLQ 11 Unmodified _PLQRRERRYLQ_ 0 0 0 nc|ENSG00000179362|Q86SG4-3|HMGN2P46;nc|ENSG00000179362|Q86SG4-2|HMGN2P46;nc|ENSG00000179362|Q86SG4|HMGN2P46 nc|ENSG00000179362|Q86SG4-3|HMGN2P46 nc|ENSG00000179362|Q86SG4-3|HMGN2P46 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 758.4397583007812 2 757.936765 1513.85898 3.371 0.002555 -0.89926 -0.00068159 2.4718 0.0018734 757.9363432884439 100.77 0.36061 100.77 100.72 101.08 0 46 20 3 0 0 0 0.91378 1 55839 55839 0.35063 0.043601 1 6174600 24600 9765 15858 15914 28121 28121 0.12260213925651442 PLQRRERRYLQ 11 Unmodified _PLQRRERRYLQ_ 0 0 0 nc|ENSG00000179362|Q86SG4-3|HMGN2P46;nc|ENSG00000179362|Q86SG4-2|HMGN2P46;nc|ENSG00000179362|Q86SG4|HMGN2P46 nc|ENSG00000179362|Q86SG4-3|HMGN2P46 nc|ENSG00000179362|Q86SG4-3|HMGN2P46 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 757.939453125 2 757.936765 1513.85898 4.1622 0.0031547 -0.80875 -0.00061298 3.3534 0.0025417 758.4378413893726 100.53 0.58158 101.13 101 101.59 0.59717 51 19 3 0 0 0 0.9102 1 46644 46644 1.4819 0.28856 1 9981800 24601 9765 15858 15914 28122 28122 0.12260213925651442 PLQTPDIFTY 10 Unmodified _PLQTPDIFTY_ 0 0 0 REV__ENSG00000182578|ENST00000675795|CSF1R REV__ENSG00000182578|ENST00000675795|CSF1R MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 597.9672241210938 2 597.805697 1193.59684 3.271 0.0019554 0.41903 0.0002505 3.69 0.0022059 597.805988826855 42.61 0.23694 42.61 42.514 42.751 0 20 13 2 0 0 0 0.82431 1 19358 19358 7.2892 0.56607 1 832810 + 24602 13897 15859 15915 28123 28123 0.007785750663288127 PLQTPDIFTY 10 Unmodified _PLQTPDIFTY_ 0 0 0 REV__ENSG00000182578|ENST00000675795|CSF1R REV__ENSG00000182578|ENST00000675795|CSF1R MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 597.9672241210938 2 597.805697 1193.59684 3.271 0.0019554 0.41903 0.0002505 3.69 0.0022059 597.805988826855 42.61 0.23694 42.61 42.514 42.751 0 20 13 2 0 0 0 0.12676 1 19358 19358 7.2892 0.56607 1 832810 + 24603 13897 15859 15915 28124 28124 0.007785750663288127 PLQTPDIFTY 10 Unmodified _PLQTPDIFTY_ 0 0 0 REV__ENSG00000182578|ENST00000675795|CSF1R REV__ENSG00000182578|ENST00000675795|CSF1R MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 598.3092651367188 2 597.805697 1193.59684 3.4118 0.0020396 -0.1937 -0.00011579 3.2181 0.0019238 598.3065934053157 41.663 0.14964 42.472 42.409 42.558 0.80854 21 13 2 0 0 0 0.64255 1 18900 18900 15.847 0 1 742370 + 24604 13897 15859 15915 28125 28125 0.007785750663288127 PLRERLKR 8 Unmodified _PLRERLKR_ 0 0 0 REV__GRM1|p.A1134Nfs*7|1|0.14|ENSG00000152822|chr6:146434610-146434611|-/AATCATCC|frameshift_variant REV__GRM1|p.A1134Nfs*7|1|0.14|ENSG00000152822|chr6:146434610-146434611|-/AATCATCC|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 356.1824951171875 3 356.564725 1066.67235 2.3185 0.0008267 -3.56 -0.0012694 -1.2415 -0.00044267 356.5633035964662 45.238 0.063419 46.064 46.03 46.093 0.82621 6 4 2 0 0 0 0.14059 1 20599 20599 8.1555 2.4237 1 129830 + 24605 12660 15860 15916 28126 28126 0.1416764182793031 PLRERLKRLLR 11 Unmodified _PLRERLKRLLR_ 0 0 0 REV__GRM1|p.A1134Nfs*7|1|0.14|ENSG00000152822|chr6:146434610-146434611|-/AATCATCC|frameshift_variant REV__GRM1|p.A1134Nfs*7|1|0.14|ENSG00000152822|chr6:146434610-146434611|-/AATCATCC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 725.4798583984375 2 725.478069 1448.94158 NaN NaN NaN NaN NaN NaN NaN 61 1 61.663 61.163 62.163 0.66261 0 0 0 1.0071 1 27930 27930 1.4819 1.1749 1 + 24606 12660 15861 15917 28127 28127 0.2350715572442823 PLRFYNSRRLR 11 Unmodified _PLRFYNSRRLR_ 0 0 0 REV__nc|ENSG00000197614|Q13361-2|MFAP5 REV__nc|ENSG00000197614|Q13361-2|MFAP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 739.4275512695312 2 739.428576 1476.8426 NaN NaN NaN NaN NaN NaN NaN 17.21 1 17.411 16.911 17.911 0.20057 0 0 0 1.008 1 7610 7610 0.35063 0 1 + 24607 14291 15862 15918 28128 28128 0.12325132759519875 PLRGRRKRMPC 11 Unmodified _PLRGRRKRMPC_ 0 0 0 ENST00000560365.5_1_14:24631516-24632718:+|nuORF;ENST00000559284.5_1_14:24631519-24633284:+|nuORF ENST00000560365.5_1_14:24631516-24632718:+|nuORF ENST00000560365.5_1_14:24631516-24632718:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.3960571289062 2 685.392625 1368.7707 NaN NaN NaN NaN NaN NaN NaN 61.015 1 61.678 61.178 62.178 0.66261 0 0 0 1.0055 1 27937 27937 3.5965 0.31518 1 24608 8963 15863 15919 28129 28129 0.10106178809837729 PLRHFLRERED 11 Unmodified _PLRHFLRERED_ 0 0 0 REV__ENST00000545022.5_1_12:121970787-121972525:-|nuORF REV__ENST00000545022.5_1_12:121970787-121972525:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 734.3965454101562 2 734.394399 1466.77424 NaN NaN NaN NaN NaN NaN NaN 71.972 1 72.676 72.176 73.176 0.70386 0 0 0 1.0057 1 34605 34605 3.2813 0.28607 1 + 24609 17244 15864 15920 28130 28130 0.059528433890363885 PLRHQALAL 9 Unmodified _PLRHQALAL_ 0 0 0 ENST00000455833.6_2_1:19230994-19231414:-|nuORF ENST00000455833.6_2_1:19230994-19231414:-|nuORF ENST00000455833.6_2_1:19230994-19231414:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 340.2013244628906 3 340.210059 1017.60835 2.4315 0.00082721 -0.72141 -0.00024543 1.7101 0.00058178 340.20980846834146 14.57 0.20189 15.218 15.115 15.317 0.64819 48 23 3 0 0 0 0.11236 1 6603 6603 1.1933 0 1 920890 24610 8045 15865 15921 28131 28131 0.10024861670967766 PLRIRRLLRPF 11 Unmodified _PLRIRRLLRPF_ 0 0 0 ENST00000535009.5_1_11:68816453-68846494:+|nuORF;ENSG00000162341|ENST00000294309|TPCN2;ENST00000442692.2_1_11:68822646-68853210:+|nuORF ENST00000535009.5_1_11:68816453-68846494:+|nuORF;ENST00000442692.2_1_11:68822646-68853210:+|nuORF ENST00000535009.5_1_11:68816453-68846494:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 718.9690551757812 2 718.96988 1435.92521 NaN NaN NaN NaN NaN NaN NaN 76.339 1 76.596 76.096 77.096 0.25704 0 0 0 1.008 1 35146 35146 0.35063 0 1 24611 4129;7948 15866 15922 28132 28132 0.22468074558332773 PLRKIAIKILV 11 Unmodified _PLRKIAIKILV_ 0 0 0 SCN1A|p.A1622Pfs*3|1|0.23|ENSG00000144285|chr2:165992415-165992415|A/-|frameshift_variant;nc|ENSG00000144285|P35498-3|SCN1A;nc|ENSG00000144285|P35498-2|SCN1A;ENSG00000144285|ENST00000674923|SCN1A SCN1A|p.A1622Pfs*3|1|0.23|ENSG00000144285|chr2:165992415-165992415|A/-|frameshift_variant SCN1A|p.A1622Pfs*3|1|0.23|ENSG00000144285|chr2:165992415-165992415|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 632.4496459960938 2 632.447383 1262.88021 NaN NaN NaN NaN NaN NaN NaN 14.221 1 14.221 13.721 14.721 0 0 0 0 1.008 1 6260 6260 0.35063 0 1 24612 3416 15867 15923 28133 28133 0.2592883097242975 PLRKRRRKMRR 11 Unmodified _PLRKRRRKMRR_ 0 0 0 ENST00000463639.1_1_6:32945663-32945765:+|nuORF ENST00000463639.1_1_6:32945663-32945765:+|nuORF ENST00000463639.1_1_6:32945663-32945765:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 777.0023193359375 2 776.999511 1551.98447 NaN NaN NaN NaN NaN NaN NaN 76.854 1 76.854 76.354 77.354 0 0 0 0 1.008 1 37673 37673 0.35063 0 1 24613 8106 15868 15924 28134 28134 0.23055647300861892 PLRKVHRITRK 11 Unmodified _PLRKVHRITRK_ 0 0 0 nc|ENSG00000164556|Q6ZVS7|CFAP144P1 nc|ENSG00000164556|Q6ZVS7|CFAP144P1 nc|ENSG00000164556|Q6ZVS7|CFAP144P1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 702.460205078125 2 702.457136 1402.89972 NaN NaN NaN NaN NaN NaN NaN 67.934 1 68.636 68.136 69.136 0.70218 0 0 0 1.0073 1 32349 32349 1.1933 0.84271 1 24614 9727 15869 15925 28135 28135 0.21438600035889976 PLRLQRRLKRP 11 Unmodified _PLRLQRRLKRP_ 0 0 0 nc|ENSG00000087074|O75807-2|PPP1R15A;ENSG00000087074|ENST00000200453|PPP1R15A nc|ENSG00000087074|O75807-2|PPP1R15A nc|ENSG00000087074|O75807-2|PPP1R15A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 716.9700317382812 2 716.970411 1431.92627 NaN NaN NaN NaN NaN NaN NaN 68.055 1 68.055 67.555 68.555 0 0 0 0 1.008 1 32724 32724 0.35063 0 1 24615 992 15870 15926 28136 28136 0.22758288927229842 PLRLRHLRR 9 Unmodified _PLRLRHLRR_ 0 0 0 ENSG00000184574|ENST00000329858|LPAR5 ENSG00000184574|ENST00000329858|LPAR5 ENSG00000184574|ENST00000329858|LPAR5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 608.8972778320312 2 608.896715 1215.77888 NaN NaN NaN NaN NaN NaN NaN 65.38 1 66.037 65.537 66.537 0.65672 0 0 0 0.91206 1 29974 29974 0.6015 0 1 24616 5450 15871 15927 28137 28137 0.17961817113109646 PLRLRRRRQRR 11 Unmodified _PLRLRRRRQRR_ 0 0 0 REV__ENST00000397992.5_1_16:72984846-73092758:-|nuORF REV__ENST00000397992.5_1_16:72984846-73092758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 782.0053100585938 2 782.006182 1561.99781 NaN NaN NaN NaN NaN NaN NaN 100.14 1 100.45 99.953 100.95 0.30835 0 0 0 1.0082 1 46317 46317 0.35063 0.043601 1 + 24617 16021 15872 15928 28138 28138 0.23929221404455348 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.4793701171875 4 334.478518 1333.88496 2.0255 0.00067749 0.0095862 3.2064E-06 2.0351 0.0006807 334.7287820588809 34.094 0.35823 34.094 33.787 34.145 0 27 21 2 0 0 0 0.91489 2 15409 15409;15425 0 0 1 655000 + 24618 12705 15873 15929 28139;28140 28139 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.4795837402344 4 334.478518 1333.88496 2.3325 0.00078017 0.60256 0.00020154 2.9351 0.00098171 334.72917598335255 39.604 0.74467 39.604 39.1 39.845 0 50 31 3 0 0 0 0.91489 1 17908 17908 0 0 1 1566700 + 24619 12705 15873 15929 28141 28141 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.4795837402344 4 334.478518 1333.88496 2.3377 0.00078189 1.1798 0.0003946 3.5174 0.0011765 334.4789279062174 40.253 0.84021 40.253 39.672 40.512 0 78 33 3 0 0 0 0.91489 1 18168 18168 0 0 1 1619300 + 24620 12705 15873 15929 28142 28142 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.47979736328125 4 334.478518 1333.88496 2.2504 0.0007527 0.91273 0.00030529 3.1631 0.001058 334.4788997058802 41.711 0.16859 41.711 41.589 41.758 0 23 16 2 0 0 0 0.91489 1 18967 18967 0 0 1 1483100 + 24621 12705 15873 15929 28143 28143 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.47991943359375 4 334.478518 1333.88496 2.1869 0.00073146 0.36013 0.00012046 2.547 0.00085192 334.47892350219803 45.732 0.45847 45.732 45.43 45.889 0 38 21 2 0 0 0 0.91489 1 20860 20860 0 0 1 449940 + 24622 12705 15873 15929 28144 28144 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.4797668457031 4 334.478518 1333.88496 2.0255 0.00067749 0.0095862 3.2064E-06 2.0351 0.0006807 334.7287820588809 34.094 0.35823 34.094 33.787 34.145 0 27 21 2 0 0 0 0.13295 1 15324 15324 0 0 1 655000 + 24623 12705 15873 15929 28145 28145 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.7304992675781 4 334.478518 1333.88496 2.3325 0.00078017 0.60256 0.00020154 2.9351 0.00098171 334.72917598335255 39.604 0.74467 39.604 39.1 39.845 0 50 31 3 0 0 0 0.13295 1 17824 17824 0 0 1 1566700 + 24624 12705 15873 15929 28146 28146 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 445.6373291015625 3 445.635598 1333.88496 2.6989 0.0012027 1.0066 0.00044857 3.7055 0.0016513 445.6359008909077 31.837 0.16892 32.625 32.587 32.756 0.78795 33 15 3 0 0 0 0.91489 1 14394 14394 0 0 1 1677700 + 24625 12705 15873 15929 28147 28147 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.7293701171875 4 334.478518 1333.88496 1.9747 0.00066051 0.82211 0.00027498 2.7969 0.00093549 334.4791640122391 33.082 0.35805 33.87 33.716 34.074 0.78795 33 22 2 0 0 0 0.91489 2 14980 14980;15002 0 0 1 485240 + 24626 12705 15873 15929 28148;28149 28148 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.72998046875 4 334.478518 1333.88496 1.9539 0.00065353 0.73567 0.00024607 2.6895 0.0008996 334.72944080327864 33.706 0.45972 34.494 34.054 34.514 0.78795 56 30 2 0 0 0 0.91489 2 15161 15161;15216 0 0 1 2308000 + 24627 12705 15873 15929 28150;28151 28150 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.7305603027344 4 334.478518 1333.88496 2.196 0.00073452 1.0645 0.00035604 3.2605 0.0010906 334.4787778582666 34.543 0.16311 35.333 35.252 35.415 0.78922 47 20 3 0 0 0 0.91489 1 15636 15636 0 0 1 12043000 + 24628 12705 15873 15929 28152 28152 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.4796142578125 4 334.478518 1333.88496 2.3217 0.00077655 0.831 0.00027795 3.1527 0.0010545 334.47879922137577 37.047 0.89282 37.841 37.149 38.042 0.79342 93 42 3 0 0 0 0.91489 4 16659 16659;16721;16790;16848 0 0 1 1689900 + 24629 12705 15873 15929 28153;28154;28155;28156 28153 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.4792175292969 4 334.478518 1333.88496 2.3137 0.00077387 0.95677 0.00032002 3.2704 0.0010939 334.47886068188103 39.708 0.934 40.508 39.82 40.754 0.80014 69 45 3 0 0 0 0.91489 2 17724 17724;18021 0 0 1 649700 + 24630 12705 15873 15929 28157;28158 28157 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.7293701171875 4 334.478518 1333.88496 1.9747 0.00066051 0.82211 0.00027498 2.7969 0.00093549 334.4791640122391 33.082 0.35805 33.87 33.716 34.074 0.78795 33 22 2 0 0 0 0.13295 1 14980 14980 0 0 1 485240 + 24631 12705 15873 15929 28159 28159 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.72998046875 4 334.478518 1333.88496 1.9539 0.00065353 0.73567 0.00024607 2.6895 0.0008996 334.72944080327864 33.706 0.45972 34.494 34.054 34.514 0.78795 56 30 2 0 0 0 0.13295 1 15161 15161 0 0 1 2308000 + 24632 12705 15873 15929 28160 28160 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.730712890625 4 334.478518 1333.88496 2.3217 0.00077655 0.831 0.00027795 3.1527 0.0010545 334.47879922137577 37.047 0.89282 37.841 37.149 38.042 0.79342 93 42 3 0 0 0 0.13295 1 16790 16790 0 0 1 1689900 + 24633 12705 15873 15929 28161 28161 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 445.6376953125 3 445.635598 1333.88496 2.845 0.0012678 0.94336 0.0004204 3.7884 0.0016882 445.636046787743 34.554 0.41143 34.808 34.474 34.886 0.25389 31 18 3 0 0 0 0.91489 1 15746 15746 0 0 1 2457200 + 24634 12705 15873 15929 28162 28162 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 668.4541625976562 2 667.949759 1333.88496 3.7361 0.0024955 1.0455 0.00069837 4.7816 0.0031939 667.950288011838 35.165 0.21216 35.42 35.297 35.509 0.25524 22 10 3 0 0 0 0.91489 1 16020 16020 0 0 1 790470 + 24635 12705 15873 15929 28163 28163 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.47979736328125 4 334.478518 1333.88496 2.5515 0.00085343 1.0449 0.00034949 3.5964 0.0012029 334.47889450809635 42.272 0.55534 42.542 42.392 42.948 0.27021 53 32 2 0 0 0 0.91489 2 19262 19262;19334 0 0 1 952480 + 24636 12705 15873 15929 28164;28165 28164 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.4796447753906 4 334.478518 1333.88496 2.6573 0.00088882 1.2464 0.00041691 3.9038 0.0013057 334.478932966095 32.585 0.3335 32.839 32.685 33.019 0.25452 61 16 6 0 0 0 0.13295 1 14907 14907 0.094841 0 1 38497000 + 24637 12705 15873 15929 28166 28166 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 445.636962890625 3 445.635598 1333.88496 3.1207 0.0013907 1.0596 0.00047222 4.1803 0.0018629 445.63594899653026 29.821 0.24482 30.439 30.27 30.515 0.61789 37 15 3 0 0 0 0.91489 1 13664 13664 0 0 1 4092100 + 24638 12705 15873 15929 28167 28167 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 667.95263671875 2 667.949759 1333.88496 3.9703 0.002652 0.61965 0.00041389 4.59 0.0030659 667.950184184693 29.821 0.074968 30.439 30.421 30.496 0.61789 6 5 2 0 0 0 0.91489 1 13692 13692 0 0 1 3112200 + 24639 12705 15873 15929 28168 28168 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 445.6372375488281 3 445.635598 1333.88496 3.1282 0.001394 0.82808 0.00036902 3.9563 0.0017631 445.63590458610366 30.018 0.19405 30.636 30.605 30.799 0.61737 35 15 3 0 0 0 0.91489 1 13773 13773 0 0 1 4740700 + 24640 12705 15873 15929 28169 28169 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 668.4542236328125 2 667.949759 1333.88496 3.9283 0.0026239 0.96494 0.00064453 4.8933 0.0032685 667.9504488036316 31.801 0.12241 32.419 32.381 32.504 0.61737 12 7 3 0 0 0 0.91489 1 14586 14586 0 0 1 2167500 + 24641 12705 15873 15929 28170 28170 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.4798889160156 4 334.478518 1333.88496 2.2861 0.00076464 1.1867 0.00039694 3.4728 0.0011616 334.72966374098 34.689 0.25177 35.312 35.165 35.417 0.62294 71 20 4 0 0 0 0.91489 3 15833 15833;15874;15915 0 0 1 10248000 + 24642 12705 15873 15929 28171;28172;28173 28171 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.4798583984375 4 334.478518 1333.88496 2.3496 0.0007859 1.1994 0.00040118 3.549 0.0011871 334.4790288130495 36.862 0.56482 37.492 37.141 37.706 0.62999 65 23 4 0 0 0 0.91489 2 16883 16883;16933 0 0 1 1152000 + 24643 12705 15873 15929 28174;28175 28174 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.4796447753906 4 334.478518 1333.88496 2.4958 0.00083479 0.76704 0.00025656 3.2628 0.0010914 334.4787539394065 39.684 0.58064 40.323 40.16 40.741 0.63905 37 26 3 0 0 0 0.91489 1 18185 18185 0 0 1 860040 + 24644 12705 15873 15929 28176 28176 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.4798583984375 4 334.478518 1333.88496 2.4482 0.00081887 1.2495 0.00041793 3.6977 0.0012368 334.4789700595767 42.35 0.2201 42.997 42.948 43.168 0.64693 32 14 3 0 0 0 0.91489 1 19419 19419 0 0 1 999380 + 24645 12705 15873 15929 28177 28177 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 667.949759 1333.88496 3.5291 0.0023573 1.3841 0.00092451 4.9132 0.0032818 668.4523588349728 35.422 0.16219 35.422 35.361 35.524 0 0.00094636 0.00031544 NaN 0 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 799050 + 24646 12705 15873 15929 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 445.635598 1333.88496 2.6422 0.0011774 1.3588 0.00060553 4.001 0.001783 445.9707570729236 35.088 0.23772 35.088 34.97 35.208 0 0.14704 0.0004451 NaN 0 25 18 2 NaN NaN NaN NaN 0 NaN NaN 0 1494200 + 24647 12705 15873 15929 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 445.635598 1333.88496 3.0619 0.0013645 1.0531 0.00046929 4.115 0.0018338 445.63597549010694 30.66 0.15121 30.66 30.579 30.73 0 0.05602 -3.1334E-05 NaN 0 21 12 2 NaN NaN NaN NaN 0 NaN NaN 0 1852000 + 24648 12705 15873 15929 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 445.635598 1333.88496 2.6989 0.0012027 1.0066 0.00044857 3.7055 0.0016513 445.6359008909077 31.837 0.16892 32.625 32.587 32.756 0.78795 -0.052001 0.00052904 NaN 0 33 15 3 NaN NaN NaN NaN 0 NaN NaN 0 1677700 + 24649 12705 15873 15929 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 445.635598 1333.88496 2.8806 0.0012837 0.89237 0.00039767 3.773 0.0016814 445.6358524685725 29.784 0.14876 30.573 30.515 30.664 0.78921 -0.030534 -0.00024618 NaN 0 21 11 2 NaN NaN NaN NaN 0 NaN NaN 0 1726500 + 24650 12705 15873 15929 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 445.635598 1333.88496 2.8784 0.0012827 1.3756 0.00061304 4.254 0.0018957 445.63616154417633 29.59 0.1142 30.379 30.341 30.456 0.78921 0.013673 0.00013787 NaN 0 12 10 2 NaN NaN NaN NaN 0 NaN NaN 0 3672100 + 24651 12705 15873 15929 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 334.478518 1333.88496 2.2358 0.00074781 -0.021164 -7.0787E-06 2.2146 0.00074073 334.47861685399823 41.191 0.17161 41.995 41.936 42.108 0.80351 0.092832 -0.00071252 NaN 0 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 459630 + 24652 12705 15873 15929 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 334.478518 1333.88496 2.3301 0.00077936 0.81179 0.00027153 3.1419 0.0010509 334.7293784021662 38.829 0.42205 39.626 39.418 39.84 0.79762 -0.029584 -0.000139 NaN 0 37 19 3 NaN NaN NaN NaN 0 NaN NaN 0 584230 + 24653 12705 15873 15929 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 667.949759 1333.88496 4.0348 0.002695 1.3651 0.00091179 5.3999 0.0036068 667.9503785406438 30.02 0.056234 30.278 30.229 30.285 0.25804 -0.080534 0.00077063 NaN 0 15 5 4 NaN NaN NaN NaN 0 NaN NaN 0 2456600 + 24654 12705 15873 15929 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 445.635598 1333.88496 2.845 0.0012678 0.94336 0.0004204 3.7884 0.0016882 445.636046787743 34.554 0.41143 34.808 34.474 34.886 0.25389 -0.13288 -0.00011031 NaN 0 31 18 3 NaN NaN NaN NaN 0 NaN NaN 0 2457200 + 24655 12705 15873 15929 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 445.635598 1333.88496 3.1816 0.0014178 1.3857 0.0006175 4.5673 0.0020353 445.63614241883533 30.289 0.38491 30.547 30.41 30.795 0.25804 -0.057303 0.0004133 NaN 0 54 20 4 NaN NaN NaN NaN 0 NaN NaN 0 4620800 + 24656 12705 15873 15929 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 445.635598 1333.88496 3.1189 0.0013899 1.3105 0.00058402 4.4294 0.0019739 445.63607150996705 30.02 0.29412 30.278 30.106 30.401 0.25804 -0.087574 5.0813E-05 NaN 0 58 30 4 NaN NaN NaN NaN 0 NaN NaN 0 3269200 + 24657 12705 15873 15929 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 334.478518 1333.88496 2.4367 0.00081503 -0.65722 -0.00021983 1.7795 0.0005952 334.7288112469053 34.106 0.4855 34.359 33.932 34.418 0.25389 0.25146 -0.00095642 NaN 0 39 23 2 NaN NaN NaN NaN 0 NaN NaN 0 2581100 + 24658 12705 15873 15929 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 334.478518 1333.88496 2.667 0.00089205 0.54145 0.0001811 3.2084 0.0010732 334.7293910780176 41.73 0.36276 42 41.738 42.101 0.27021 0.097798 4.0213E-05 NaN 0 28 15 3 NaN NaN NaN NaN 0 NaN NaN 0 1833500 + 24659 12705 15873 15929 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 445.635598 1333.88496 3.0582 0.0013628 0.020866 9.2986E-06 3.079 0.0013721 445.63556884842393 32.111 0.26651 32.729 32.553 32.82 0.61831 0.052001 -0.00078876 NaN 0 34 13 3 NaN NaN NaN NaN 0 NaN NaN 0 1141900 + 24660 12705 15873 15929 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 445.635598 1333.88496 3.0468 0.0013578 0.93749 0.00041778 3.9843 0.0017756 445.6358692871608 34.303 0.40349 34.926 34.82 35.223 0.62294 -0.014164 -0.00011815 NaN 0 30 14 3 NaN NaN NaN NaN 0 NaN NaN 0 760500 + 24661 12705 15873 15929 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 445.635598 1333.88496 3.1282 0.001394 0.82808 0.00036902 3.9563 0.0017631 445.63590458610366 30.018 0.19405 30.636 30.605 30.799 0.61737 0.031817 -0.00033213 NaN 0 35 15 3 NaN NaN NaN NaN 0 NaN NaN 0 4740700 + 24662 12705 15873 15929 0.2313771511521736 PLRLVLLWVLL 11 Unmodified _PLRLVLLWVLL_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 334.478518 1333.88496 2.3071 0.00077167 1.2468 0.00041703 3.5539 0.0011887 334.4790075784265 39.099 1.2172 39.737 38.92 40.137 0.63778 0.081285 0.00044301 NaN 0 92 44 3 NaN NaN NaN NaN 0 NaN NaN 0 2081000 + 24663 12705 15873 15929 0.2313771511521736 PLRQLLKM 8 Unmodified _PLRQLLKM_ 0 0 0 REV__ENSG00000068878|ENST00000404125|PSME4 REV__ENSG00000068878|ENST00000404125|PSME4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.95147705078125 2 499.812605 997.610657 NaN NaN NaN NaN NaN NaN NaN 68.127 1 68.127 67.627 68.627 0 0 0 0 0.99035 1 32767 32767 4.756 0 1 + 24664 10464 15874 15930 28178 28178 0.11175574084427353 PLRQPGQAAR 10 Unmodified _PLRQPGQAAR_ 0 0 0 REV__ENST00000536336.5_1_11:18633859-18655855:-|nuORF REV__ENST00000536336.5_1_11:18633859-18655855:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.2129211425781 3 365.212351 1092.61522 NaN NaN NaN NaN NaN NaN NaN 34.788 1 35.041 34.541 35.541 0.25389 0 0 0 0.99774 1 15845 15845 1.7423 0 1 + 24665 13784 15875 15931 28179 28179 0.07262174551533462 PLRRLIRWRQ 10 Unmodified _PLRRLIRWRQ_ 0 0 0 REV__ENST00000575475.2_1_17:5235261-5235390:+|nuORF REV__ENST00000575475.2_1_17:5235261-5235390:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 697.4332885742188 2 697.436204 1392.85786 NaN NaN NaN NaN NaN NaN NaN 99.929 1 99.991 99.491 100.49 0.062241 0 0 0 1.0015 1 54111 54111 0.45834 0 1 + 24666 17474 15876 15932 28180 28180 0.17714044347417257 PLRRQRRIELG 11 Unmodified _PLRRQRRIELG_ 0 0 0 REV__ENST00000539783.5_2_2:172290933-172291600:+|nuORF REV__ENST00000539783.5_2_2:172290933-172291600:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 697.427978515625 2 697.428576 1392.8426 NaN NaN NaN NaN NaN NaN NaN 72.89 1 73.589 73.089 74.089 0.69881 0 0 0 1.0059 1 35118 35118 2.9952 1.5133 1 + 24667 17205 15877 15933 28181 28181 0.1618913275954128 PLRRRVKVP 9 Unmodified _PLRRRVKVP_ 0 0 0 REV__ENST00000482088.5_1_9:140007335-140007673:-|nuORF REV__ENST00000482088.5_1_9:140007335-140007673:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.9498291015625 2 560.874917 1119.73528 NaN NaN NaN NaN NaN NaN NaN 86.336 1 86.336 85.836 86.836 0 0 0 0 0.91206 1 44228 44228 0.6015 0 1 + 24668 16711 15878 15934 28182 28182 0.1802020761597305 PLRRRWRRPWD 11 Unmodified _PLRRRWRRPWD_ 0 0 0 ENST00000418337.6_2_7:151292537-151329253:-|nuORF;ENST00000493872.5_1_7:151328836-151329256:-|nuORF ENST00000418337.6_2_7:151292537-151329253:-|nuORF ENST00000418337.6_2_7:151292537-151329253:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 797.4545288085938 2 797.452917 1592.89128 NaN NaN NaN NaN NaN NaN NaN 80.062 1 80.382 79.882 80.882 0.31998 0 0 0 1.0071 1 39135 39135 1.4819 1.1313 1 24669 7732 15879 15935 28183 28183 0.11855046119285362 PLRVPLSLWL 10 Unmodified _PLRVPLSLWL_ 0 0 0 REV__ENST00000400968.6_1_1:193028645-193038169:+|nuORF REV__ENST00000400968.6_1_1:193028645-193038169:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.58636474609375 3 398.585015 1192.73321 2.5767 0.001027 0.98005 0.00039063 3.5567 0.0014177 398.58551930483077 45.301 0.40623 46.127 45.995 46.401 0.82621 53 24 3 0 0 0 0.94099 1 20601 20601 0.69767 0 1 1139100 + 24670 16042 15880 15936 28184 28184 0.14455734087528072 PLRVYFRNRWV 11 Unmodified _PLRVYFRNRWV_ 0 0 0 nc|ENSG00000198265|P42694-2|HELZ;ENSG00000198265|ENST00000358691|HELZ nc|ENSG00000198265|P42694-2|HELZ nc|ENSG00000198265|P42694-2|HELZ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 753.4253540039062 2 753.428045 1504.84154 NaN NaN NaN NaN NaN NaN NaN 22.525 1 22.525 22.025 23.025 0 0 0 0 1.0038 1 10100 10100 5.7319 0 1 24671 5879 15881 15937 28185 28185 0.10930918390613442 PLRYVVWLMHL 11 Unmodified _PLRYVVWLMHL_ 0 0 0 ENST00000565633.1_1_16:88729753-88737893:+|nuORF;ENST00000563261.5_1_16:88729708-88738384:+|nuORF ENST00000565633.1_1_16:88729753-88737893:+|nuORF ENST00000565633.1_1_16:88729753-88737893:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 713.9044799804688 2 713.905025 1425.7955 NaN NaN NaN NaN NaN NaN NaN 63.247 1 63.906 63.406 64.406 0.65808 0 0 0 1.0055 1 28982 28982 3.5965 0 1 24672 9006 15882 15938 28186 28186 0.09963137164186264 PLSALPAVE 9 Unmodified _PLSALPAVE_ 0 0 0 ENST00000519262.5_1_8:58988145-59058545:+|nuORF ENST00000519262.5_1_8:58988145-59058545:+|nuORF ENST00000519262.5_1_8:58988145-59058545:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 897.5154418945312 1 896.50876 895.501483 3.7512 0.003363 0.5687 0.00050984 4.3199 0.0038729 896.509591899579 68.555 0.28969 69.214 69.043 69.333 0.65924 27 19 2 0 0 0 0.49692 1 31439 31439 12.532 0 1 484770 24673 8620 15883 15939 28187 28187 0.04955266665956515 PLSDRLSLL 9 Unmodified _PLSDRLSLL_ 0 0 0 ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.3048095703125 2 507.303124 1012.5917 3.2766 0.0016622 -0.050039 -2.5385E-05 3.2266 0.0016368 507.303133291437 55.195 0.41251 55.863 55.647 56.059 0.66798 41 15 4 0 0 0 0.1776 1 25301 25301 26.268 0 1 2715800 24674 936 15884 15940 28188 28188 0.08590315994399589 PLSEMYQN 8 Unmodified _PLSEMYQN_ 0 0 0 nc|ENSG00000185988|Q496M5-2|PLK5;ENSG00000185988|ENST00000454744|PLK5 nc|ENSG00000185988|Q496M5-2|PLK5 nc|ENSG00000185988|Q496M5-2|PLK5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.9580993652344 2 491.220943 980.427332 NaN NaN NaN NaN NaN NaN NaN 53.246 1 54.05 53.55 54.55 0.80351 0 0 0 0.99035 1 24281 24281 5.7604 0.52976 1 24675 5551 15885 15941 28189 28189 -0.06366444487889567 PLSERRKFK 9 Unmodified _PLSERRKFK_ 0 0 0 REV__ENSG00000171451|ENST00000310045|DSEL REV__ENSG00000171451|ENST00000310045|DSEL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 580.8478393554688 2 580.848564 1159.68258 NaN NaN NaN NaN NaN NaN NaN 58.565 1 58.828 58.328 59.328 0.26227 0 0 0 0.89509 1 26820 26820 4.756 0.42677 1 + 24676 13493 15886 15942 28190 28190 0.10912204762485089 PLSGFWARRP 10 Unmodified _PLSGFWARRP_ 0 0 0 ENST00000376943.7_1_X:47862910-47862970:-|nuORF ENST00000376943.7_1_X:47862910-47862970:-|nuORF ENST00000376943.7_1_X:47862910-47862970:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 396.5565490722656 3 396.220847 1185.64071 2.8651 0.0011352 -0.17794 -7.0503E-05 2.6871 0.0010647 396.22071377454347 54.421 0.6805 54.421 54.138 54.819 0 96 65 2 0 0 0 0.93584 1 25002 25002 1.7423 0 1 1481600 24677 7404 15887 15943 28191 28191 0.05531649073964218 PLSGFWARRP 10 Unmodified _PLSGFWARRP_ 0 0 0 ENST00000376943.7_1_X:47862910-47862970:-|nuORF ENST00000376943.7_1_X:47862910-47862970:-|nuORF ENST00000376943.7_1_X:47862910-47862970:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 396.2211608886719 3 396.220847 1185.64071 2.3247 0.0009211 0.30064 0.00011912 2.6254 0.0010402 396.2208872315016 53.738 0.78128 54.542 54.447 55.228 0.80351 112 42 3 0 0 0 0.93584 1 24758 24758 1.7423 0 1 817910 24678 7404 15887 15943 28192 28192 0.05531649073964218 PLSHDHPAD 9 Unmodified _PLSHDHPAD_ 0 0 0 REV__ENST00000529111.5_1_11:83344252-84634162:-|nuORF REV__ENST00000529111.5_1_11:83344252-84634162:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.2316589355469 2 494.727781 987.441008 3.0319 0.0015 -0.14705 -7.2751E-05 2.8848 0.0014272 494.7276397511921 18.98 0.359 19.278 19.169 19.528 0.29753 94 50 2 0 0 0 0.20384 1 8716 8716 23.148 1.4018 1 8338700 + 24679 12590 15888 15944 28193 28193 -0.053214506644280846 PLSHRGVRRLI 11 Unmodified _PLSHRGVRRLI_ 0 0 0 ENSG00000136286|ENST00000258787|MYO1G;ENST00000483585.5_1_7:45002340-45005995:-|nuORF;ENST00000463516.5_1_7:45002340-45002744:-|nuORF ENSG00000136286|ENST00000258787|MYO1G ENSG00000136286|ENST00000258787|MYO1G MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 435.27630615234375 3 435.273834 1302.79967 NaN NaN NaN NaN NaN NaN NaN 103.12 1 103.17 102.67 103.67 0.055092 0 0 0 1.0062 1 55933 55933 2.6312 1.9336 1 24680 2942 15889 15945 28194 28194 0.16038362702124687 PLSKVQKAL 9 Unmodified _PLSKVQKAL_ 0 0 0 REV__nc|ENSG00000138639|Q8N264-3|ARHGAP24 REV__nc|ENSG00000138639|Q8N264-3|ARHGAP24 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.3172607421875 2 492.316035 982.617516 NaN NaN NaN NaN NaN NaN NaN 83.886 1 84.548 84.048 85.048 0.66219 0 0 0 0.89683 1 38638 38638 4.3292 0 1 + 24681 12175 15890 15946 28195 28195 0.12551210236654242 PLSLLSSYC 9 Unmodified _PLSLLSSYC_ 0 0 0 Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|31|1|sense Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|31|1|sense Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|31|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.75115966796875 2 491.749336 981.484119 3.1593 0.0015536 -0.58582 -0.00028808 2.5735 0.0012655 491.7490819818183 83.957 0.33012 84.204 84.062 84.392 0.24722 26 18 2 0 0 0 0.83994 1 38686 38686 6.7232 0 1 546010 24682 9373 15891 15947 28196 28196 -0.007363969313587404 PLSNDISLV 9 Unmodified _PLSNDISLV_ 0 0 0 REV__ENST00000430398.2_1_1:73570714-73571443:+|nuORF REV__ENST00000430398.2_1_1:73570714-73571443:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 957.52734375 1 957.525138 956.517862 3.4222 0.0032768 0.0057448 5.5008E-06 3.4279 0.0032823 957.5247295597343 72.537 0.25132 72.796 72.666 72.917 0.25876 27 20 2 0 0 0 0.10169 1 33281 33281 32.305 6.9062 1 404890 + 24683 16254 15892 15948 28197 28197 0.037863478320673494 PLSPVHTPTL 10 Unmodified _PLSPVHTPTL_ 0 0 0 REV__ENST00000425946.1_1_6:33266465-33266558:-|nuORF REV__ENST00000425946.1_1_6:33266465-33266558:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.023681640625 2 531.303124 1060.5917 NaN NaN NaN NaN NaN NaN NaN 65.582 1 66.291 65.791 66.791 0.70891 0 0 0 0.68715 1 31031 31031 25.399 0.40835 1 + 24684 16211 15893 15949 28198 28198 0.06382315994369492 PLSQWEFREGE 11 Unmodified _PLSQWEFREGE_ 0 0 0 ENST00000561379.1_1_14:24651787-24652670:-|nuORF ENST00000561379.1_1_14:24651787-24652670:-|nuORF ENST00000561379.1_1_14:24651787-24652670:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 688.8733520507812 2 689.325316 1376.63608 3.406 0.0023478 3.2314 0.0022275 6.6374 0.0045753 689.3278238242574 57.687 0.16859 58.456 58.365 58.534 0.76861 34 13 3 0 0 0 0.13295 1 26396 26396 2.9952 0 1 2126400 24685 8984 15894 15950 28199 28199 -0.037173246501197355 PLSRLKIYYL 10 Unmodified _PLSRLKIYYL_ 0 0 0 ENST00000374199.8_1_9:116054008-116054197:+|nuORF ENST00000374199.8_1_9:116054008-116054197:+|nuORF ENST00000374199.8_1_9:116054008-116054197:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.5932922363281 3 422.592058 1264.75434 2.6631 0.0011254 1.3221 0.0005587 3.9852 0.0016841 422.927098644346 59.309 0.31399 59.309 59.262 59.576 0 41 26 2 0 0 0 0.9146 1 27435 27435 3.0723 0.22898 1 1455100 24686 7374 15895 15951 28200 28200 0.13255699396358978 PLSRLKIYYL 10 Unmodified _PLSRLKIYYL_ 0 0 0 ENST00000374199.8_1_9:116054008-116054197:+|nuORF ENST00000374199.8_1_9:116054008-116054197:+|nuORF ENST00000374199.8_1_9:116054008-116054197:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 317.1966247558594 4 317.195862 1264.75434 2.2317 0.00070788 1.0011 0.00031755 3.2328 0.0010254 317.1960998730227 45.984 0.84563 46.81 46.218 47.064 0.82621 141 43 4 0 0 0 0.93788 1 20873 20873 0.56317 0.15491 1 9758700 24687 7374 15895 15951 28201 28201 0.13255699396358978 PLSRLKIYYL 10 Unmodified _PLSRLKIYYL_ 0 0 0 ENST00000374199.8_1_9:116054008-116054197:+|nuORF ENST00000374199.8_1_9:116054008-116054197:+|nuORF ENST00000374199.8_1_9:116054008-116054197:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.3870849609375 2 633.384448 1264.75434 3.9469 0.0024999 0.70193 0.00044459 4.6489 0.0029445 633.3847720008924 46.644 0.77605 46.91 46.568 47.344 0.26561 49 26 2 0 0 0 0.9146 2 21356 21356;21364 2.9952 1.3426 1 1350700 24688 7374 15895 15951 28202;28203 28202 0.13255699396358978 PLSRLKIYYL 10 Unmodified _PLSRLKIYYL_ 0 0 0 ENST00000374199.8_1_9:116054008-116054197:+|nuORF ENST00000374199.8_1_9:116054008-116054197:+|nuORF ENST00000374199.8_1_9:116054008-116054197:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5933837890625 3 422.592058 1264.75434 2.9352 0.0012404 1.3328 0.00056322 4.268 0.0018036 422.59257131293424 61.415 0.44471 61.667 61.442 61.887 0.25245 36 20 2 0 0 0 0.9146 1 28124 28124 3.0723 2.11 1 782660 24689 7374 15895 15951 28204 28204 0.13255699396358978 PLSRLKIYYL 10 Unmodified _PLSRLKIYYL_ 0 0 0 ENST00000374199.8_1_9:116054008-116054197:+|nuORF ENST00000374199.8_1_9:116054008-116054197:+|nuORF ENST00000374199.8_1_9:116054008-116054197:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5934753417969 3 422.592058 1264.75434 NaN NaN NaN NaN NaN NaN NaN 63.272 1 63.521 63.021 64.021 0.24884 0 0 0 0.99846 1 28976 28976 1.4551 0.49284 1 24690 7374 15895 15951 28205 28205 0.13255699396358978 PLSRLKIYYL 10 Unmodified _PLSRLKIYYL_ 0 0 0 ENST00000374199.8_1_9:116054008-116054197:+|nuORF ENST00000374199.8_1_9:116054008-116054197:+|nuORF ENST00000374199.8_1_9:116054008-116054197:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.59375 3 422.592058 1264.75434 3.2172 0.0013596 1.1773 0.00049754 4.3946 0.0018571 422.5923636223528 46.341 0.43813 46.994 46.88 47.318 0.65219 51 17 4 0 0 0 0.93788 1 21200 21200 1.5923 1.184 1 3679200 24691 7374 15895 15951 28206 28206 0.13255699396358978 PLSRLKIYYL 10 Unmodified _PLSRLKIYYL_ 0 0 0 ENST00000374199.8_1_9:116054008-116054197:+|nuORF ENST00000374199.8_1_9:116054008-116054197:+|nuORF ENST00000374199.8_1_9:116054008-116054197:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.5932312011719 3 422.592058 1264.75434 2.978 0.0012585 1.8828 0.00079568 4.8609 0.0020542 422.59261824579823 60.962 0.40413 61.625 61.398 61.803 0.66261 41 17 3 0 0 0 0.9146 1 27953 27953 5.4027 4.293 1 950360 24692 7374 15895 15951 28207 28207 0.13255699396358978 PLSRLKIYYL 10 Unmodified _PLSRLKIYYL_ 0 0 0 ENST00000374199.8_1_9:116054008-116054197:+|nuORF ENST00000374199.8_1_9:116054008-116054197:+|nuORF ENST00000374199.8_1_9:116054008-116054197:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 422.592058 1264.75434 2.3129 0.00097743 -0.37973 -0.00016047 1.9332 0.00081695 422.5912432118008 61.201 0.055576 61.941 61.905 61.96 0.7396 0.19639 -0.0024013 NaN 3.0723 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 877420 24693 7374 15895 15951 0.13255699396358978 PLSRLVHF 8 Unmodified _PLSRLVHF_ 0 0 0 REV__ENSG00000082781|ENST00000296181|ITGB5 REV__ENSG00000082781|ENST00000296181|ITGB5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.5491638183594 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 56.012 1 56.277 55.777 56.777 0.26543 0 0 0 0.94507 1 25618 25618 9.3474 0.75416 1 + 24694 10619 15896 15952 28208 28208 0.07525787750932977 PLSRLVHF 8 Unmodified _PLSRLVHF_ 0 0 0 REV__ENSG00000082781|ENST00000296181|ITGB5 REV__ENSG00000082781|ENST00000296181|ITGB5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.79052734375 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 62.109 1 62.362 61.862 62.862 0.25245 0 0 0 0.89651 1 28434 28434 12.532 2.3482 1 + 24695 10619 15896 15952 28209 28209 0.07525787750932977 PLSSISLVFQF 11 Unmodified _PLSSISLVFQF_ 0 0 0 chr6:25849464-25855144|152|20.62|0.0|12.17|-|0|SLC17A3,SLC17A3|1 chr6:25849464-25855144|152|20.62|0.0|12.17|-|0|SLC17A3,SLC17A3|1 chr6:25849464-25855144|152|20.62|0.0|12.17|-|0|SLC17A3,SLC17A3|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 618.8733520507812 2 619.344989 1236.67542 NaN NaN NaN NaN NaN NaN NaN 73.467 1 73.726 73.226 74.226 0.25876 0 0 0 0.9645 1 33745 33745 10.074 2.1638 1 24696 184 15897 15953 28210 28210 0.06655427371424594 PLSSRRRGPLQ 11 Unmodified _PLSSRRRGPLQ_ 0 0 0 REV__SVA_D_dup1229|chr17:30522805-30524227:+|1.3285429955376928|0.476847412502663|1.48|542.0|64|3|anti-sense REV__SVA_D_dup1229|chr17:30522805-30524227:+|1.3285429955376928|0.476847412502663|1.48|542.0|64|3|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.9179382324219 3 422.917827 1265.73165 NaN NaN NaN NaN NaN NaN NaN 92.978 1 93.233 92.733 93.733 0.25497 0 0 0 1.0079 1 42737 42737 0.50596 0 1 + 24697 18224 15898 15954 28211 28211 0.10941493051473117 PLSTFHYL 8 Unmodified _PLSTFHYL_ 0 0 0 REV__ENST00000589917.1_1_18:44483500-44500057:-|nuORF REV__ENST00000589917.1_1_18:44483500-44500057:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 326.87835693359375 3 326.507882 976.501818 2.4246 0.00079164 -0.96833 -0.00031617 1.4562 0.00047547 326.50753611267413 12.976 0.1255 13.619 13.548 13.673 0.64272 6 3 2 0 0 0 0.14202 1 5801 5801 0.45834 0 1 95520 + 24698 17571 15899 15955 28212 28212 0.01262686385791767 PLSVGAVEKA 10 Unmodified _PLSVGAVEKA_ 0 0 0 REV__ENST00000468428.1_1_20:17600178-17600424:-|nuORF REV__ENST00000468428.1_1_20:17600178-17600424:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.19158935546875 3 324.190442 969.549496 2.46 0.00079752 1.1855 0.00038432 3.6455 0.0011818 324.19098658002576 12.658 0.45536 13.301 13.244 13.699 0.64272 22 13 2 0 0 0 0.51828 1 5760 5760 17.443 5.9248 1 1166100 + 24699 16565 15900 15956 28213 28213 0.06350340585993308 PLSVGRRP 8 Unmodified _PLSVGRRP_ 0 0 0 nc|ENSG00000103248|Q2M296-4|MTHFSD;nc|ENSG00000103248|Q2M296-2|MTHFSD;nc|ENSG00000103248|Q2M296-3|MTHFSD;ENSG00000103248|ENST00000360900|MTHFSD nc|ENSG00000103248|Q2M296-4|MTHFSD nc|ENSG00000103248|Q2M296-4|MTHFSD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.271240234375 2 441.269419 880.524284 NaN NaN NaN NaN NaN NaN NaN 84.284 1 84.947 84.447 85.447 0.66219 0 0 0 0.95658 1 38823 38823 8.5933 2.8329 1 24700 1386 15901 15957 28214 28214 0.07924330574076066 PLTHKRKIIK 10 Unmodified _PLTHKRKIIK_ 0 0 0 REV__ENST00000489491.1_1_10:119049852-119133991:-|nuORF REV__ENST00000489491.1_1_10:119049852-119133991:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.81298828125 2 617.411332 1232.80811 NaN NaN NaN NaN NaN NaN NaN 58.436 1 58.436 57.936 58.936 0 0 0 0 0.99983 1 26969 26969 1.8442 0 1 + 24701 13175 15902 15958 28215 28215 0.20101916618750693 PLTKECCS 8 Unmodified _PLTKECCS_ 0 0 0 REV__ENST00000296257.9_1_3:185344110-185347744:+|nuORF REV__ENST00000296257.9_1_3:185344110-185347744:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 440.6988830566406 2 440.698789 879.383024 NaN NaN NaN NaN NaN NaN NaN 75.805 1 76.062 75.562 76.562 0.25704 0 0 0 0.99035 1 34893 34893 2.5775 1.7838 1 + 24702 15149 15903 15959 28216 28216 -0.061491719057244154 PLTLLLKRIHL 11 Unmodified _PLTLLLKRIHL_ 0 0 0 REV__SRGAP1|p.Q812Kfs*22|1|0.18|ENSG00000196935|chr12:64127617-64127617|C/-|frameshift_variant REV__SRGAP1|p.Q812Kfs*22|1|0.18|ENSG00000196935|chr12:64127617-64127617|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 658.9439697265625 2 658.942465 1315.87038 NaN NaN NaN NaN NaN NaN NaN 56.498 1 57.276 56.776 57.776 0.77786 0 0 0 1.008 1 25832 25832 0.35063 0 1 + 24703 14247 15904 15960 28217 28217 0.22507642967093489 PLTRRLKLRPH 11 Unmodified _PLTRRLKLRPH_ 0 0 0 ENST00000531005.5_1_11:65638277-65638940:-|nuORF ENST00000531005.5_1_11:65638277-65638940:-|nuORF ENST00000531005.5_1_11:65638277-65638940:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 694.0226440429688 2 693.943862 1385.87317 NaN NaN NaN NaN NaN NaN NaN 75.452 1 76.116 75.616 76.616 0.6635 0 0 0 1.0071 1 36533 36533 1.4819 0 1 24704 8721 15905 15961 28218 28218 0.19566911144579535 PLTRVHLF 8 Unmodified _PLTRVHLF_ 0 0 0 nc|ENSG00000113073|Q96Q91-4|SLC4A9;nc|ENSG00000113073|Q96Q91-2|SLC4A9;ENSG00000113073|ENST00000506757|SLC4A9;nc|ENSG00000113073|Q96Q91|SLC4A9 nc|ENSG00000113073|Q96Q91-4|SLC4A9 nc|ENSG00000113073|Q96Q91-4|SLC4A9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.7983093261719 2 491.795269 981.575986 2.8211 0.0013874 1.9521 0.00096003 4.7731 0.0023474 491.79587018004804 55.047 0.40727 55.834 55.727 56.135 0.78711 41 29 2 0 0 0 0.70799 1 25200 25200 5.2307 0 1 484610 24705 1833 15906 15962 28219 28219 0.08446074267988024 PLTRVHLF 8 Unmodified _PLTRVHLF_ 0 0 0 nc|ENSG00000113073|Q96Q91-4|SLC4A9;nc|ENSG00000113073|Q96Q91-2|SLC4A9;ENSG00000113073|ENST00000506757|SLC4A9;nc|ENSG00000113073|Q96Q91|SLC4A9 nc|ENSG00000113073|Q96Q91-4|SLC4A9 nc|ENSG00000113073|Q96Q91-4|SLC4A9 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.2572021484375 2 491.795269 981.575986 2.931 0.0014415 1.8505 0.00091008 4.7815 0.0023515 491.79605146455685 56.652 0.33081 57.43 57.24 57.571 0.77786 49 34 2 0 0 0 0.141 1 25935 25935 2.3027 0 1 995240 24706 1833 15906 15962 28220 28220 0.08446074267988024 PLTRVHLF 8 Unmodified _PLTRVHLF_ 0 0 0 nc|ENSG00000113073|Q96Q91-4|SLC4A9;nc|ENSG00000113073|Q96Q91-2|SLC4A9;ENSG00000113073|ENST00000506757|SLC4A9;nc|ENSG00000113073|Q96Q91|SLC4A9 nc|ENSG00000113073|Q96Q91-4|SLC4A9 nc|ENSG00000113073|Q96Q91-4|SLC4A9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7969970703125 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 50.998 1 51.657 51.157 52.157 0.65956 0 0 0 0.81105 1 23320 23320 18.135 1.0221 1 24707 1833 15906 15962 28221 28221 0.08446074267988024 PLTRVHLF 8 Unmodified _PLTRVHLF_ 0 0 0 nc|ENSG00000113073|Q96Q91-4|SLC4A9;nc|ENSG00000113073|Q96Q91-2|SLC4A9;ENSG00000113073|ENST00000506757|SLC4A9;nc|ENSG00000113073|Q96Q91|SLC4A9 nc|ENSG00000113073|Q96Q91-4|SLC4A9 nc|ENSG00000113073|Q96Q91-4|SLC4A9 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 491.795269 981.575986 3.0593 0.0015046 1.6668 0.00081975 4.7262 0.0023243 491.7962139229212 55.853 0.37112 56.118 56.015 56.386 0.26543 0.14212 -0.00013903 NaN 5.2307 20 14 2 NaN NaN NaN NaN 0 NaN NaN 0 478640 24708 1833 15906 15962 0.08446074267988024 PLTTPRREI 9 Unmodified _PLTTPRREI_ 0 0 0 ENST00000528167.1_1_4:8442537-8448315:+|nuORF;ENSG00000155275|ENST00000389737|TRMT44 ENST00000528167.1_1_4:8442537-8448315:+|nuORF ENST00000528167.1_1_4:8442537-8448315:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.8579711914062 2 541.819473 1081.62439 NaN NaN NaN NaN NaN NaN NaN 79.129 1 79.129 78.629 79.629 0 0 0 0 0.52667 1 39046 39046 18.135 2.2878 1 24709 3857 15907 15963 28222 28222 0.08684523117221943 PLTVLLSAL 9 Unmodified _PLTVLLSAL_ 0 0 0 REV__ENSG00000132671|ENST00000255008|SSTR4 REV__ENSG00000132671|ENST00000255008|SSTR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.8019714355469 2 463.799686 925.584819 NaN NaN NaN NaN NaN NaN NaN 39.5 1 39.767 39.267 40.267 0.26696 0 0 0 0.90228 1 17973 17973 5.2307 0 1 + 24710 11905 15908 15964 28223 28223 0.11905003113804469 PLVDHPIVRW 10 Unmodified _PLVDHPIVRW_ 0 0 0 REV__ENSG00000006831|ENST00000357103|ADIPOR2 REV__ENSG00000006831|ENST00000357103|ADIPOR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.5194091796875 2 616.35094 1230.68733 NaN NaN NaN NaN NaN NaN NaN 80.748 1 80.916 80.416 81.416 0.16862 0 0 0 0.96627 1 39591 39591 10.824 1.4408 1 + 24711 10196 15909 15965 28224 28224 0.081210889052727 PLVEFEEEESD 11 Unmodified _PLVEFEEEESD_ 0 0 0 ENST00000464601.5_1_3:182733228-182740387:-|nuORF;ENSG00000078070|ENST00000265594|MCCC1 ENST00000464601.5_1_3:182733228-182740387:-|nuORF ENST00000464601.5_1_3:182733228-182740387:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 661.7825927734375 2 661.785355 1321.55616 NaN NaN NaN NaN NaN NaN NaN 71.235 1 71.235 70.735 71.735 0 0 0 0 1.0057 1 34621 34621 3.2813 1.4371 1 24712 871 15910 15966 28225 28225 -0.0917585583458731 PLVFELPL 8 Unmodified _PLVFELPL_ 0 0 0 ENST00000254958.9_1_20:10619810-10620026:-|nuORF ENST00000254958.9_1_20:10619810-10620026:-|nuORF ENST00000254958.9_1_20:10619810-10620026:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 309.85699462890625 3 309.856512 926.547705 1.9277 0.00059731 -1.0033 -0.00031089 0.92434 0.00028641 309.8561675834203 58.383 0.6607 58.383 58.01 58.671 0 121 67 3 0 0 0 0.7471 1 26823 26823 1.4819 0 1 6235600 24713 6515 15911 15967 28226 28226 0.08149331568040452 PLVFELPL 8 Unmodified _PLVFELPL_ 0 0 0 ENST00000254958.9_1_20:10619810-10620026:-|nuORF ENST00000254958.9_1_20:10619810-10620026:-|nuORF ENST00000254958.9_1_20:10619810-10620026:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 309.856512 926.547705 1.9277 0.00059731 -1.0033 -0.00031089 0.92434 0.00028641 309.8561675834203 58.383 0.6607 58.383 58.01 58.671 0 0.27521 -1.3103E-05 NaN 1.4819 121 67 3 NaN NaN NaN NaN 0 NaN NaN 0 6235600 24714 6515 15911 15967 0.08149331568040452 PLVFELPL 8 Unmodified _PLVFELPL_ 0 0 0 ENST00000254958.9_1_20:10619810-10620026:-|nuORF ENST00000254958.9_1_20:10619810-10620026:-|nuORF ENST00000254958.9_1_20:10619810-10620026:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 309.856512 926.547705 1.9917 0.00061713 -1.6361 -0.00050696 0.35553 0.00011016 309.85595663343275 57.324 0.17616 58.092 57.93 58.106 0.76861 -0.015224 -0.00060131 NaN 1.4819 41 18 3 NaN NaN NaN NaN 0 NaN NaN 0 1924500 24715 6515 15911 15967 0.08149331568040452 PLVFELPL 8 Unmodified _PLVFELPL_ 0 0 0 ENST00000254958.9_1_20:10619810-10620026:-|nuORF ENST00000254958.9_1_20:10619810-10620026:-|nuORF ENST00000254958.9_1_20:10619810-10620026:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 309.856512 926.547705 2.1938 0.00067977 -0.94856 -0.00029392 1.2453 0.00038585 309.85618993373987 57.768 0.58338 58.032 57.71 58.294 0.26444 -0.075125 3.7819E-05 NaN 1.4819 107 34 4 NaN NaN NaN NaN 0 NaN NaN 0 3808400 24716 6515 15911 15967 0.08149331568040452 PLVFELPL 8 Unmodified _PLVFELPL_ 0 0 0 ENST00000254958.9_1_20:10619810-10620026:-|nuORF ENST00000254958.9_1_20:10619810-10620026:-|nuORF ENST00000254958.9_1_20:10619810-10620026:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 309.856512 926.547705 2.198 0.00068108 -0.78648 -0.0002437 1.4116 0.00043738 309.8561672581941 57.254 0.52025 57.923 57.436 57.957 0.66829 -0.18486 0.00018848 NaN 1.4819 81 30 4 NaN NaN NaN NaN 0 NaN NaN 0 5217700 24717 6515 15911 15967 0.08149331568040452 PLVHFFIL 8 Unmodified _PLVHFFIL_ 0 0 0 REV__ENST00000316754.7_1_14:63758494-63758566:+|nuORF REV__ENST00000316754.7_1_14:63758494-63758566:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.2985534667969 2 493.297114 984.579674 3.291 0.0016235 -0.96985 -0.00047842 2.3212 0.001145 493.296508549944 33.175 0.19512 33.429 33.357 33.552 0.25389 14 8 2 0 0 0 0.63544 1 15120 15120 11.114 0 1 314210 + 24718 15294 15912 15968 28227 28227 0.08676744041838447 PLVKGQRWRKL 11 Unmodified _PLVKGQRWRKL_ 0 0 0 REV__nc|ENSG00000149639|O94964-4|MTCL2 REV__nc|ENSG00000149639|O94964-4|MTCL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 690.9330444335938 2 690.932963 1379.85137 NaN NaN NaN NaN NaN NaN NaN 49.856 1 49.856 49.356 50.356 0 0 0 0 1.0071 1 22826 22826 1.4819 0 1 + 24719 12578 15913 15969 28228 28228 0.17664106396000534 PLVKIIPKLL 10 Unmodified _PLVKIIPKLL_ 0 0 0 REV__nc|ENSG00000175216|Q14008-2|CKAP5 REV__nc|ENSG00000175216|Q14008-2|CKAP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.4002685546875 2 567.404653 1132.79475 NaN NaN NaN NaN NaN NaN NaN 87.863 1 87.863 87.363 88.363 0 0 0 0 1.002 1 45439 45439 0 0 1 + 24720 13666 15914 15970 28229 28229 0.23366665786784324 PLVKIIPKLLI 11 Unmodified _PLVKIIPKLLI_ 0 0 0 REV__nc|ENSG00000175216|Q14008-2|CKAP5 REV__nc|ENSG00000175216|Q14008-2|CKAP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 623.8684692382812 2 623.946685 1245.87882 NaN NaN NaN NaN NaN NaN NaN 97.734 1 97.734 97.234 98.234 0 0 0 0 1.0082 1 53300 53300 0 0 1 + 24721 13666 15915 15971 28230 28230 0.26571196883696757 PLVKIIPKLLI 11 Unmodified _PLVKIIPKLLI_ 0 0 0 REV__nc|ENSG00000175216|Q14008-2|CKAP5 REV__nc|ENSG00000175216|Q14008-2|CKAP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 623.9453735351562 2 623.946685 1245.87882 NaN NaN NaN NaN NaN NaN NaN 29.384 1 30.173 29.673 30.673 0.78921 0 0 0 1.0082 1 13244 13244 0 0 1 + 24722 13666 15915 15971 28231 28231 0.26571196883696757 PLVKKKKKKKK 11 Unmodified _PLVKKKKKKKK_ 0 0 0 ENST00000565844.1_1_16:19721758-19726357:-|nuORF;ENSG00000103550|ENST00000219837|KNOP1 ENST00000565844.1_1_16:19721758-19726357:-|nuORF ENST00000565844.1_1_16:19721758-19726357:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 676.7401123046875 2 676.995032 1351.97551 NaN NaN NaN NaN NaN NaN NaN 80.847 1 80.847 80.347 81.347 0 0 0 0 1.0082 1 40226 40226 0 0 1 24723 1409 15916 15972 28232 28232 0.313601841634636 PLVKKKKKKKK 11 Unmodified _PLVKKKKKKKK_ 0 0 0 ENST00000565844.1_1_16:19721758-19726357:-|nuORF;ENSG00000103550|ENST00000219837|KNOP1 ENST00000565844.1_1_16:19721758-19726357:-|nuORF ENST00000565844.1_1_16:19721758-19726357:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 676.9948120117188 2 676.995032 1351.97551 NaN NaN NaN NaN NaN NaN NaN 87.294 1 87.334 86.834 87.834 0.039955 0 0 0 1.0082 1 44155 44155 0 0 1 24724 1409 15916 15972 28233 28233 0.313601841634636 PLVKPKIVKKR 11 Unmodified _PLVKPKIVKKR_ 0 0 0 ENST00000452606.2_1_3:12880846-12881736:-|nuORF;ENSG00000144713|ENST00000429711|RPL32 ENST00000452606.2_1_3:12880846-12881736:-|nuORF ENST00000452606.2_1_3:12880846-12881736:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 653.4556274414062 2 653.458282 1304.90201 NaN NaN NaN NaN NaN NaN NaN 64.056 1 64.713 64.213 65.213 0.65672 0 0 0 1.0071 1 29358 29358 1.4819 0 1 24725 3442 15917 15973 28234 28234 0.26175635720983337 PLVKRHKL 8 Unmodified _PLVKRHKL_ 0 0 0 ANK3|p.R1023P|1|0.18|ENSG00000151150|chr10:60108935-60108935|C/G|missense_variant ANK3|p.R1023P|1|0.18|ENSG00000151150|chr10:60108935-60108935|C/G|missense_variant ANK3|p.R1023P|1|0.18|ENSG00000151150|chr10:60108935-60108935|C/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.83447265625 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 66.14 1 66.389 65.889 66.889 0.24848 0 0 0 0.99035 1 30301 30301 2.8892 0 1 24726 54 15918 15974 28235 28235 0.15458042430316254 PLVKRHKL 8 Unmodified _PLVKRHKL_ 0 0 0 ANK3|p.R1023P|1|0.18|ENSG00000151150|chr10:60108935-60108935|C/G|missense_variant ANK3|p.R1023P|1|0.18|ENSG00000151150|chr10:60108935-60108935|C/G|missense_variant ANK3|p.R1023P|1|0.18|ENSG00000151150|chr10:60108935-60108935|C/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.8358459472656 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 97.226 1 97.515 97.015 98.015 0.28923 0 0 0 0.99035 1 44657 44657 6.3541 0 1 24727 54 15918 15974 28236 28236 0.15458042430316254 PLVLRRILRRA 11 Unmodified _PLVLRRILRRA_ 0 0 0 ENSG00000124608|ENST00000244571|AARS2 ENSG00000124608|ENST00000244571|AARS2 ENSG00000124608|ENST00000244571|AARS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 681.9623413085938 2 681.962055 1361.90956 NaN NaN NaN NaN NaN NaN NaN 18.129 1 18.129 17.629 18.629 0 0 0 0 1.0071 1 8052 8052 1.4819 0 1 24728 2371 15919 15975 28237 28237 0.24307788041301137 PLVPLLLLLP 10 Unmodified _PLVPLLLLLP_ 0 0 0 REV__ENST00000487459.5_1_7:116660277-116660439:+|nuORF REV__ENST00000487459.5_1_7:116660277-116660439:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 363.253662109375 3 363.254494 1086.74165 NaN NaN NaN NaN NaN NaN NaN 68.733 1 69.435 68.935 69.935 0.70218 0 0 0 1.0018 1 32797 32797 0.15932 0 1 + 24729 16769 15920 15976 28238 28238 0.20175288004134018 PLVRLVLLLLP 11 Unmodified _PLVRLVLLLLP_ 0 0 0 REV__nc|ENSG00000053747|Q16787-3|LAMA3 REV__nc|ENSG00000053747|Q16787-3|LAMA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 623.4357299804688 2 623.436484 1244.85842 NaN NaN NaN NaN NaN NaN NaN 99.086 1 99.386 98.886 99.886 0.29987 0 0 0 1.0071 1 45735 45735 1.4819 0 1 + 24730 10357 15921 15977 28239 28239 0.24578026223889538 PLVRRRKRRFF 11 Unmodified _PLVRRRKRRFF_ 0 0 0 ENSG00000186479|ENST00000334025|RGS7BP ENSG00000186479|ENST00000334025|RGS7BP ENSG00000186479|ENST00000334025|RGS7BP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.0657958984375 3 510.991661 1529.95315 NaN NaN NaN NaN NaN NaN NaN 86.773 1 86.773 86.273 87.273 0 0 0 0 1.0082 1 44567 44567 0.08335 0 1 24731 5573 15922 15978 28240 28240 0.2093739753840964 PLWALLLPWV 10 Unmodified _PLWALLLPWV_ 0 0 0 ENST00000478416.1_1_17:18157237-18162004:-|nuORF ENST00000478416.1_1_17:18157237-18162004:-|nuORF ENST00000478416.1_1_17:18157237-18162004:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 403.24774169921875 3 403.24611 1206.7165 NaN NaN NaN NaN NaN NaN NaN 48.234 1 49.064 48.564 49.564 0.82915 0 0 0 0.99954 1 21973 21973 2.086 0.1585 1 24732 8253 15923 15979 28241 28241 0.12141233201555224 PLWALLLPWV 10 Unmodified _PLWALLLPWV_ 0 0 0 ENST00000478416.1_1_17:18157237-18162004:-|nuORF ENST00000478416.1_1_17:18157237-18162004:-|nuORF ENST00000478416.1_1_17:18157237-18162004:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 403.2470703125 3 403.24611 1206.7165 NaN NaN NaN NaN NaN NaN NaN 48.333 1 49.16 48.66 49.66 0.82705 0 0 0 0.99954 1 22018 22018 2.086 0.87118 1 24733 8253 15923 15979 28242 28242 0.12141233201555224 PLWGCCWVS 9 Unmodified _PLWGCCWVS_ 0 0 0 REV__ENSG00000065802|ENST00000264607|ASB1 REV__ENSG00000065802|ENST00000264607|ASB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 525.7305297851562 2 525.730423 1049.44629 NaN NaN NaN NaN NaN NaN NaN 96.951 1 97.021 96.521 97.521 0.070648 0 0 0 0.90511 1 51678 51678 2.3027 0 1 + 24734 10435 15924 15980 28243 28243 -0.07645186397826365 PLWGPLLW 8 Unmodified _PLWGPLLW_ 0 0 0 REV__nc|ENSG00000001630|Q16850-2|CYP51A1 REV__nc|ENSG00000001630|Q16850-2|CYP51A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.5360107421875 2 491.281463 980.548374 NaN NaN NaN NaN NaN NaN NaN 55.035 1 55.822 55.322 56.322 0.78711 0 0 0 0.99035 1 25122 25122 6.3541 1.1234 1 + 24735 10157 15925 15981 28244 28244 0.05732171007764464 PLWKRRNVECL 11 Unmodified _PLWKRRNVECL_ 0 0 0 nc|ENSG00000158079|A2A3K4|PTPDC1;PTPDC1|p.R743Kfs*9|1|0.72|ENSG00000158079|chr9:94107900-94107901|-/A|frameshift_variant;nc|ENSG00000158079|A2A3K4-2|PTPDC1;ENSG00000158079|ENST00000620992|PTPDC1 nc|ENSG00000158079|A2A3K4|PTPDC1 nc|ENSG00000158079|A2A3K4|PTPDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 707.393310546875 2 707.392813 1412.77107 NaN NaN NaN NaN NaN NaN NaN 99.949 1 100.26 99.758 100.76 0.30835 0 0 0 1.0055 1 46210 46210 3.5965 0.60125 1 24736 3974 15926 15982 28245 28245 0.08119877010676646 PLWLREWWFYD 11 Unmodified _PLWLREWWFYD_ 0 0 0 REV__ENSG00000143418|ENST00000368954|CERS2 REV__ENSG00000143418|ENST00000368954|CERS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.5977783203125 3 537.597871 1609.77178 NaN NaN NaN NaN NaN NaN NaN 72.958 1 73.217 72.717 73.717 0.25876 0 0 0 1.008 1 33499 33499 0.08335 0.010087 1 + 24737 12369 15927 15983 28246 28246 -0.008710050686431714 PLWLREWWFYD 11 Unmodified _PLWLREWWFYD_ 0 0 0 REV__ENSG00000143418|ENST00000368954|CERS2 REV__ENSG00000143418|ENST00000368954|CERS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 805.890869140625 2 805.893169 1609.77178 NaN NaN NaN NaN NaN NaN NaN 66.715 1 67.372 66.872 67.872 0.65672 0 0 0 1.0071 1 30584 30584 1.4819 0.28856 1 + 24738 12369 15927 15983 28247 28247 -0.008710050686431714 PLWPPMGP 8 Unmodified _PLWPPMGP_ 0 0 0 ENST00000449943.5_1_11:64897669-64899838:-|nuORF;nc|ENSG00000162298|Q86TM6-2|SYVN1;nc|ENSG00000162298|Q86TM6-3|SYVN1;ENSG00000162298|ENST00000377190|SYVN1 ENST00000449943.5_1_11:64897669-64899838:-|nuORF ENST00000449943.5_1_11:64897669-64899838:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 447.73052978515625 2 447.730749 893.446945 NaN NaN NaN NaN NaN NaN NaN 18.331 1 18.633 18.133 19.133 0.30158 0 0 0 0.82704 1 8310 8310 17.087 2.5049 1 24739 4126 15928 15984 28248 28248 -0.004040236864511826 PLWQTKIERWL 11 Unmodified _PLWQTKIERWL_ 0 0 0 REV__ENST00000499900.2_1_5:177045699-177046068:+|nuORF REV__ENST00000499900.2_1_5:177045699-177046068:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.28680419921875 3 490.613633 1468.81907 2.9599 0.0014522 1.0384 0.00050947 3.9984 0.0019617 490.9482006856992 53.685 0.16832 54.488 54.456 54.625 0.80351 10 7 2 0 0 0 0.13295 1 24503 24503 0.40827 0 1 319640 + 24740 16878 15929 15985 28249 28249 0.10341274202369277 PLWRHWRRETY 11 Unmodified _PLWRHWRRETY_ 0 0 0 PLA2G4F|p.A565Cfs*6|1|0.31|ENSG00000168907|chr15:42145662-42145663|-/A|frameshift_variant;ENSG00000168907|ENST00000397272|PLA2G4F;nc|ENSG00000168907|Q68DD2-3|PLA2G4F;nc|ENSG00000168907|Q68DD2-2|PLA2G4F PLA2G4F|p.A565Cfs*6|1|0.31|ENSG00000168907|chr15:42145662-42145663|-/A|frameshift_variant PLA2G4F|p.A565Cfs*6|1|0.31|ENSG00000168907|chr15:42145662-42145663|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 800.3304443359375 2 800.418208 1598.82186 NaN NaN NaN NaN NaN NaN NaN 108.25 1 108.25 107.75 108.75 0 0 0 0 1.008 1 59301 59301 0.35063 0 1 24741 4660 15930 15986 28250 28250 0.04640542379888757 PLWRLARRTRP 11 Unmodified _PLWRLARRTRP_ 0 0 0 REV__ENST00000527376.1_2_11:12696337-12785834:+|nuORF REV__ENST00000527376.1_2_11:12696337-12785834:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 711.4334716796875 2 711.433661 1420.85277 NaN NaN NaN NaN NaN NaN NaN 60.672 1 61.411 60.911 61.911 0.7396 0 0 0 0.97845 1 28037 28037 8.7454 3.0136 1 + 24742 17105 15931 15987 28251 28251 0.15917740484769638 PLWRLEPV 8 Unmodified _PLWRLEPV_ 0 0 0 REV__nc|ENSG00000138744|Q02083-2|NAAA REV__nc|ENSG00000138744|Q02083-2|NAAA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 337.20050048828125 3 337.19916 1008.57565 NaN NaN NaN NaN NaN NaN NaN 16.604 1 16.604 16.104 17.104 0 0 0 0 0.99035 1 7359 7359 0.45834 0 1 + 24743 12186 15932 15988 28252 28252 0.07170654548144739 PLWRLEPV 8 Unmodified _PLWRLEPV_ 0 0 0 REV__nc|ENSG00000138744|Q02083-2|NAAA REV__nc|ENSG00000138744|Q02083-2|NAAA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 337.1999206542969 3 337.19916 1008.57565 NaN NaN NaN NaN NaN NaN NaN 16.755 1 16.755 16.255 17.255 0 0 0 0 0.99035 1 7430 7430 0.45834 0 1 + 24744 12186 15932 15988 28253 28253 0.07170654548144739 PLWRRWMRPR 10 Unmodified _PLWRRWMRPR_ 0 0 0 ENST00000391992.3_1_12:9181361-9181625:-|nuORF ENST00000391992.3_1_12:9181361-9181625:-|nuORF ENST00000391992.3_1_12:9181361-9181625:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 727.2660522460938 2 727.409132 1452.80371 NaN NaN NaN NaN NaN NaN NaN 108.06 1 108.37 107.87 108.87 0.31421 0 0 0 1.0015 1 49839 49839 0.40072 0.050084 1 24745 7509 15933 15989 28254 28254 0.09542128924158533 PLWTPGCTI 9 Unmodified _PLWTPGCTI_ 0 0 0 REV__ENSG00000132026|ENST00000674343|RTBDN REV__ENSG00000132026|ENST00000674343|RTBDN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.25537109375 2 494.252046 986.489538 2.9973 0.0014814 -0.80484 -0.00039779 2.1924 0.0010836 494.2534823592213 36.255 0.89471 36.255 35.845 36.74 0 117 46 5 0 0 0 0.056465 1 16430 16430 44.407 44.407 1 1255600 + 24746 11877 15934 15990 28255 28255 -0.004246733488798782 PLYARYWQHYH 11 Unmodified _PLYARYWQHYH_ 0 0 0 GEMIN8|p.V20L|1|0.22|ENSG00000046647|chrX:14020492-14020492|C/A|missense_variant GEMIN8|p.V20L|1|0.22|ENSG00000046647|chrX:14020492-14020492|C/A|missense_variant GEMIN8|p.V20L|1|0.22|ENSG00000046647|chrX:14020492-14020492|C/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 767.373779296875 2 767.372935 1532.73132 NaN NaN NaN NaN NaN NaN NaN 83.766 1 84.428 83.928 84.928 0.66219 0 0 0 1.008 1 38582 38582 0.35063 0 1 24747 9364 15935 15991 28256 28256 -0.013739266684069662 PLYHGQKL 8 Unmodified _PLYHGQKL_ 0 0 0 REV__ENST00000594962.5_1_19:17611587-17615418:+|nuORF REV__ENST00000594962.5_1_19:17611587-17615418:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.2737731933594 2 478.271627 954.528701 3.2203 0.0015402 0.21011 0.00010049 3.4304 0.0016407 478.27183984675094 40.66 0.63094 40.929 40.517 41.148 0.26904 44 30 2 0 0 0 0.42655 1 18483 18483 26.341 0 1 982040 + 24748 11812 15936 15992 28257 28257 0.049617949970070185 PLYYWQQTEDD 11 Unmodified _PLYYWQQTEDD_ 0 0 0 nc|ENSG00000120526|Q96RS6-3|NUDCD1;ENST00000519607.5_1_8:110255240-110326067:-|nuORF;nc|ENSG00000120526|Q96RS6-2|NUDCD1;ENSG00000120526|ENST00000239690|NUDCD1 nc|ENSG00000120526|Q96RS6-3|NUDCD1 nc|ENSG00000120526|Q96RS6-3|NUDCD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 729.3143920898438 2 729.314614 1456.61468 NaN NaN NaN NaN NaN NaN NaN 70.294 1 70.294 69.794 70.794 0 0 0 0 1.0071 1 34083 34083 1.4819 0 1 24749 2195 15937 15993 28258 28258 -0.09536754469490916 PMDLWRSTVG 10 Unmodified _PMDLWRSTVG_ 0 0 0 REV__ENST00000479650.5_1_9:140469231-140473170:-|nuORF REV__ENST00000479650.5_1_9:140469231-140473170:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.8620910644531 3 387.862219 1160.56483 NaN NaN NaN NaN NaN NaN NaN 17.356 1 18.017 17.517 18.517 0.66072 0 0 0 0.98317 1 7829 7829 4.7159 0 1 + 24750 16677 15938 15994 28259 28259 -0.009031158884681645 PMDSAWSWH 9 Unmodified _PMDSAWSWH_ 0 0 0 REV__ENST00000503088.1_1_5:38490841-38530749:-|nuORF REV__ENST00000503088.1_1_5:38490841-38530749:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.7297973632812 2 558.732009 1115.44946 NaN NaN NaN NaN NaN NaN NaN 34.269 1 35.058 34.558 35.558 0.78921 0 0 0 0.86044 1 15518 15518 7.2892 2.96 1 + 24751 11304 15939 15995 28260 28260 -0.10364220019459935 PMEAIEKM 8 Unmodified _PMEAIEKM_ 0 0 0 nc|ENSG00000132024|Q6P1N0-2|CC2D1A;ENSG00000132024|ENST00000318003|CC2D1A nc|ENSG00000132024|Q6P1N0-2|CC2D1A nc|ENSG00000132024|Q6P1N0-2|CC2D1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.73126220703125 2 474.730089 947.445625 3.064 0.0014546 -0.64503 -0.00030621 2.419 0.0011484 474.7300281306695 54.864 0.3578 54.864 54.694 55.052 0 84 37 3 0 0 0 0.49219 1 25185 25185 21.747 0 1 1442800 24752 2681 15940 15996 28261 28261 -0.030200258375202793 PMEAIEKM 8 Unmodified _PMEAIEKM_ 0 0 0 nc|ENSG00000132024|Q6P1N0-2|CC2D1A;ENSG00000132024|ENST00000318003|CC2D1A nc|ENSG00000132024|Q6P1N0-2|CC2D1A nc|ENSG00000132024|Q6P1N0-2|CC2D1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.73095703125 2 474.730089 947.445625 2.7034 0.0012834 -0.54834 -0.00026032 2.1551 0.0010231 474.7299151489371 53.644 0.41096 54.448 54.396 54.807 0.8035 49 22 3 0 0 0 0.18676 1 24501 24501 44.407 8.3628 1 2728400 24753 2681 15940 15996 28262 28262 -0.030200258375202793 PMELAFSRP 9 Unmodified _PMELAFSRP_ 0 0 0 ENST00000592061.1_1_19:19738235-19738493:-|nuORF;ENST00000542587.5_3_19:19738235-19738667:-|nuORF ENST00000592061.1_1_19:19738235-19738493:-|nuORF;ENST00000542587.5_3_19:19738235-19738667:-|nuORF ENST00000592061.1_1_19:19738235-19738493:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.2703247070312 2 524.268227 1046.5219 3.3616 0.0017624 0.14061 7.3715E-05 3.5022 0.0018361 524.2683573507343 36.275 0.61709 37.069 36.845 37.462 0.79342 78 28 3 0 0 0 0.29024 1 16390 16390 24.021 4.7636 1 1801700 24754 9242;8818 15941 15997 28263 28263 0.000501140541246059 PMEPFRSAI 9 Unmodified _PMEPFRSAI_ 0 0 0 ENST00000245451.8_1_14:54420070-54423396:-|nuORF ENST00000245451.8_1_14:54420070-54423396:-|nuORF ENST00000245451.8_1_14:54420070-54423396:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.2700805664062 2 524.268227 1046.5219 3.2419 0.0016996 0.28728 0.00015061 3.5292 0.0018503 524.2684225229368 37.518 0.5943 37.518 37.244 37.838 0 56 22 3 0 0 0 0.044468 3 17076 16962;17017;17076 46.021 12.575 1 2145000 24755 6484 15942 15998 28264;28265;28266 28266 0.000501140541246059 PMEPFRSAI 9 Unmodified _PMEPFRSAI_ 0 0 0 ENST00000245451.8_1_14:54420070-54423396:-|nuORF ENST00000245451.8_1_14:54420070-54423396:-|nuORF ENST00000245451.8_1_14:54420070-54423396:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.2702026367188 2 524.268227 1046.5219 3.3616 0.0017624 0.14061 7.3715E-05 3.5022 0.0018361 524.2683573507343 36.275 0.61709 37.069 36.845 37.462 0.79342 78 28 3 0 0 0 0.044468 2 16436 16436;16494 54.774 12.934 1 1801700 24756 6484 15942 15998 28267;28268 28267 0.000501140541246059 PMEPFRSAI 9 Unmodified _PMEPFRSAI_ 0 0 0 ENST00000245451.8_1_14:54420070-54423396:-|nuORF ENST00000245451.8_1_14:54420070-54423396:-|nuORF ENST00000245451.8_1_14:54420070-54423396:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.2698364257812 2 524.268227 1046.5219 3.4955 0.0018326 -1.0014 -0.00052499 2.4941 0.0013076 524.2678150092974 37.399 0.5914 37.66 37.447 38.038 0.26083 46 18 3 0 0 0 0.063112 3 17031 16978;17031;17091 46.021 11.619 1 1418500 24757 6484 15942 15998 28269;28270;28271 28270 0.000501140541246059 PMEPFRSAI 9 Unmodified _PMEPFRSAI_ 0 0 0 ENST00000245451.8_1_14:54420070-54423396:-|nuORF ENST00000245451.8_1_14:54420070-54423396:-|nuORF ENST00000245451.8_1_14:54420070-54423396:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.2695922851562 2 524.268227 1046.5219 3.3856 0.0017749 -0.75741 -0.00039709 2.6282 0.0013779 524.2678867609962 36.742 0.66069 37.372 37.046 37.706 0.62999 77 26 4 0 0 0 0.091193 3 16812 16758;16812;16871 46.021 11.38 1 946770 24758 6484 15942 15998 28272;28273;28274 28273 0.000501140541246059 PMERPIAAY 9 Unmodified _PMERPIAAY_ 0 0 0 REV__ENSG00000176903|ENST00000316836|PNMA1 REV__ENSG00000176903|ENST00000316836|PNMA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.27099609375 2 524.268227 1046.5219 3.4955 0.0018326 -1.0014 -0.00052499 2.4941 0.0013076 524.2678150092974 37.399 0.5914 37.66 37.447 38.038 0.26083 46 18 3 0 0 0 0.43294 1 17151 17151 19.257 1.1106 1 1418500 + 24759 13715 15943 15999 28275 28275 0.000501140541246059 PMERPIAAY 9 Unmodified _PMERPIAAY_ 0 0 0 REV__ENSG00000176903|ENST00000316836|PNMA1 REV__ENSG00000176903|ENST00000316836|PNMA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.269775390625 2 524.268227 1046.5219 3.3856 0.0017749 -0.75741 -0.00039709 2.6282 0.0013779 524.2678867609962 36.742 0.66069 37.372 37.046 37.706 0.62999 77 26 4 0 0 0 0.43294 1 16935 16935 19.257 1.1106 1 946770 + 24760 13715 15943 15999 28276 28276 0.000501140541246059 PMHALPEEI 9 Unmodified _PMHALPEEI_ 0 0 0 ENST00000489350.5_1_3:156547118-156638402:+|nuORF;nc|ENSG00000197980|Q6ZMV7|LEKR1;ENST00000470811.5_1_3:156544101-156697065:+|nuORF;ENSG00000197980|ENST00000356539|LEKR1 ENST00000489350.5_1_3:156547118-156638402:+|nuORF ENST00000489350.5_1_3:156547118-156638402:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.2525634765625 2 518.760235 1035.50592 3.359 0.0017425 -0.23633 -0.0001226 3.1227 0.0016199 518.7604241960656 51.5 0.56488 51.5 51.167 51.732 0 55 26 4 0 0 0 0.37584 1 23503 23503 14.582 2.0501 1 2468900 24761 5856 15944 16000 28277 28277 -0.010415921827870989 PMHRSSQA 8 Unmodified _PMHRSSQA_ 0 0 0 REV__ENST00000371806.3_1_9:137801458-137801623:-|nuORF REV__ENST00000371806.3_1_9:137801458-137801623:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 305.13916015625 3 305.148471 912.423584 NaN NaN NaN NaN NaN NaN NaN 49.771 1 49.771 49.271 50.271 0 0 0 0 0.99035 1 22788 22788 1.4819 0 1 + 24762 15740 15945 16001 28278 28278 -0.03613069471077779 PMISLNPRV 9 Unmodified _PMISLNPRV_ 0 0 0 REV__ENSG00000180878|ENST00000316375|C11orf42 REV__ENSG00000180878|ENST00000316375|C11orf42 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.2442626953125 2 513.791869 1025.56919 3.2414 0.0016654 -1.823 -0.00093665 1.4183 0.00072873 513.7911341713069 40.43 0.1566 40.43 40.311 40.468 0 8 4 2 0 0 0 0.1111 1 18337 18337 3.9444 0.3479 1 412130 + 24763 13834 15946 16002 28279 28279 0.05742393325090234 PMKKILLRRR 10 Unmodified _PMKKILLRRR_ 0 0 0 REV__ENSG00000124302|ENST00000650847|CHST8 REV__ENSG00000124302|ENST00000650847|CHST8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.6236877441406 3 437.623698 1309.84926 NaN NaN NaN NaN NaN NaN NaN 54.353 1 55.148 54.648 55.648 0.79552 0 0 0 1.0015 1 24799 24799 0.13989 0 1 + 24764 11650 15947 16003 28280 28280 0.20673354386576648 PMKKLWTL 8 Unmodified _PMKKLWTL_ 0 0 0 REV__ENST00000407071.6_2_1:245318369-245318450:+|nuORF REV__ENST00000407071.6_2_1:245318369-245318450:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.80291748046875 2 508.801706 1015.58886 NaN NaN NaN NaN NaN NaN NaN 71.048 1 71.71 71.21 72.21 0.66209 0 0 0 0.99035 1 32561 32561 5.2307 0.47466 1 + 24765 16074 15948 16004 28281 28281 0.08168769335873094 PMKKTVPR 8 Unmodified _PMKKTVPR_ 0 0 0 REV__L1ME3G_dup11655|chr12:49354546-49354944:-|1.279855103986304|0.1807300642567456|2.82|529.0|11|2|sense REV__L1ME3G_dup11655|chr12:49354546-49354944:-|1.279855103986304|0.1807300642567456|2.82|529.0|11|2|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 319.5409240722656 3 319.528512 955.563706 2.515 0.00080361 -1.0678 -0.00034118 1.4472 0.00046243 319.5280943402053 32.734 0.35194 32.988 32.852 33.204 0.25389 24 15 2 0 0 0 0.1426 1 14945 14945 1.3295 0 1 197320 + 24766 17769 15949 16005 28282 28282 0.08414714533296319 PMKRSLSFK 9 Unmodified _PMKRSLSFK_ 0 0 0 REV__ENST00000311212.8_1_8:102213857-102217695:-|nuORF REV__ENST00000311212.8_1_8:102213857-102217695:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 365.21160888671875 3 365.211071 1092.61138 2.2039 0.00080491 -2.1064 -0.00076929 0.09752 3.5615E-05 365.21095772353186 17.891 0.13451 18.092 17.976 18.111 0.20057 21 9 3 0 0 0 0.33646 1 7902 7902 15.248 1.6336 1 1522700 + 24767 15266 15950 16006 28283 28283 0.06878368733509888 PMKRSLSFK 9 Unmodified _PMKRSLSFK_ 0 0 0 REV__ENST00000311212.8_1_8:102213857-102217695:-|nuORF REV__ENST00000311212.8_1_8:102213857-102217695:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 365.211071 1092.61138 2.7676 0.0010108 -2.0018 -0.00073107 0.76585 0.0002797 365.21102491557326 18.418 0.38905 18.418 18.257 18.647 0 0.16302 4.1291E-05 NaN 15.248 47 21 3 NaN NaN NaN NaN 0 NaN NaN 0 270930 + 24768 15266 15950 16006 0.06878368733509888 PMKRSLSFK 9 Unmodified _PMKRSLSFK_ 0 0 0 REV__ENST00000311212.8_1_8:102213857-102217695:-|nuORF REV__ENST00000311212.8_1_8:102213857-102217695:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 365.211071 1092.61138 2.2039 0.00080491 -2.1064 -0.00076929 0.09752 3.5615E-05 365.21095772353186 17.891 0.13451 18.092 17.976 18.111 0.20057 -0.16302 -7.3361E-05 NaN 15.248 21 9 3 NaN NaN NaN NaN 0 NaN NaN 0 1522700 + 24769 15266 15950 16006 0.06878368733509888 PMLIILSSLKH 11 Unmodified _PMLIILSSLKH_ 0 0 0 REV__ENST00000419794.1_1_9:34318953-34319253:+|nuORF REV__ENST00000419794.1_1_9:34318953-34319253:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 626.3789672851562 2 626.378309 1250.74206 NaN NaN NaN NaN NaN NaN NaN 52.137 1 52.399 51.899 52.899 0.26227 0 0 0 1.0062 1 23832 23832 2.9952 0.90923 1 + 24770 12563 15951 16007 28284 28284 0.1267233966166259 PMLQLLLH 8 Unmodified _PMLQLLLH_ 0 0 0 nc|ENSG00000136271|Q9NY93-2|DDX56;ENSG00000136271|ENST00000258772|DDX56 nc|ENSG00000136271|Q9NY93-2|DDX56 nc|ENSG00000136271|Q9NY93-2|DDX56 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 322.1944274902344 3 322.193129 963.557558 NaN NaN NaN NaN NaN NaN NaN 24.378 1 25.012 24.512 25.512 0.63441 0 0 0 0.99035 1 11150 11150 0.45834 0 1 24771 2941 15952 16008 28285 28285 0.07432196301772365 PMLRKPGK 8 Unmodified _PMLRKPGK_ 0 0 0 nc|ENSG00000158321|Q8WXX7-5|AUTS2;nc|ENSG00000158321|Q8WXX7-2|AUTS2;ENSG00000158321|ENST00000342771|AUTS2 nc|ENSG00000158321|Q8WXX7-5|AUTS2 nc|ENSG00000158321|Q8WXX7-5|AUTS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.78448486328125 2 463.783847 925.553142 NaN NaN NaN NaN NaN NaN NaN 35.052 1 35.052 34.552 35.552 0 0 0 0 0.99035 1 15896 15896 2.5775 0 1 24772 3981 15953 16009 28286 28286 0.08738731878861472 PMLRKPGK 8 Unmodified _PMLRKPGK_ 0 0 0 nc|ENSG00000158321|Q8WXX7-5|AUTS2;nc|ENSG00000158321|Q8WXX7-2|AUTS2;ENSG00000158321|ENST00000342771|AUTS2 nc|ENSG00000158321|Q8WXX7-5|AUTS2 nc|ENSG00000158321|Q8WXX7-5|AUTS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.784423828125 2 463.783847 925.553142 NaN NaN NaN NaN NaN NaN NaN 34.928 1 35.183 34.683 35.683 0.25524 0 0 0 0.99035 1 15915 15915 2.5775 0 1 24773 3981 15953 16009 28287 28287 0.08738731878861472 PMLRKPGK 8 Unmodified _PMLRKPGK_ 0 0 0 nc|ENSG00000158321|Q8WXX7-5|AUTS2;nc|ENSG00000158321|Q8WXX7-2|AUTS2;ENSG00000158321|ENST00000342771|AUTS2 nc|ENSG00000158321|Q8WXX7-5|AUTS2 nc|ENSG00000158321|Q8WXX7-5|AUTS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 309.5369567871094 3 309.52499 925.553142 NaN NaN NaN NaN NaN NaN NaN 39.686 1 40.326 39.826 40.826 0.63946 0 0 0 0.99035 1 18140 18140 1.6526 0 1 24774 3981 15953 16009 28288 28288 0.08738731878861472 PMLVVIVLTGE 11 Unmodified _PMLVVIVLTGE_ 0 0 0 REV__ENST00000493703.1_1_1:120465142-120466525:-|nuORF REV__ENST00000493703.1_1_1:120465142-120466525:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.5108642578125 2 585.843768 1169.67298 NaN NaN NaN NaN NaN NaN NaN 11.2 1 11.2 10.7 11.7 0 0 0 0 1.0082 1 4900 4900 0 0 1 + 24775 11959 15954 16010 28289 28289 0.09493255642064469 PMPPACGS 8 Unmodified _PMPPACGS_ 0 0 0 ENST00000233143.5_1_2:85133620-85133770:+|nuORF ENST00000233143.5_1_2:85133620-85133770:+|nuORF ENST00000233143.5_1_2:85133620-85133770:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.16229248046875 2 380.161842 758.309131 NaN NaN NaN NaN NaN NaN NaN 15.211 1 15.865 15.365 16.365 0.65356 0 0 0 0.99035 1 6848 6848 0.79363 0 1 24776 6449 15955 16011 28290 28290 -0.07969095277383076 PMSSWPWWQ 9 Unmodified _PMSSWPWWQ_ 0 0 0 REV__ENST00000491400.5_1_6:35254110-35255623:+|nuORF REV__ENST00000491400.5_1_6:35254110-35255623:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 402.18109130859375 3 402.17966 1203.51715 NaN NaN NaN NaN NaN NaN NaN 10.261 1 10.557 10.057 11.057 0.2956 0 0 0 0.91342 1 4514 4514 0.26902 0 1 + 24777 14850 15956 16012 28291 28291 -0.07646770088649646 PMSVPEPHAA 10 Unmodified _PMSVPEPHAA_ 0 0 0 ENSG00000166963|ENST00000300231|MAP1A;nc|ENSG00000166963|P78559-2|MAP1A ENSG00000166963|ENST00000300231|MAP1A ENSG00000166963|ENST00000300231|MAP1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.25244140625 2 518.250034 1034.48552 3.2007 0.0016588 1.2488 0.00064718 4.4495 0.0023059 518.2505981442929 53.424 0.30106 54.227 54.086 54.387 0.80351 69 28 3 0 0 0 0.38486 1 24350 24350 25.399 0 1 2008300 24778 4522 15957 16013 28292 28292 -0.030347628425943185 PMVPKKRG 8 Unmodified _PMVPKKRG_ 0 0 0 REV__ENSG00000182013|ENST00000313683|PNMA8A REV__ENSG00000182013|ENST00000313683|PNMA8A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 304.8651123046875 3 304.853107 911.537492 1.9698 0.00060049 0.051828 1.58E-05 2.0216 0.00061629 304.85341197179264 38.106 0.36594 38.106 37.838 38.204 0 17 13 2 0 0 0 0.14313 1 17172 17172 1.6526 1.6526 1 242470 + 24779 13869 15958 16014 28293 28293 0.07818445361829163 PMVPKKRG 8 Unmodified _PMVPKKRG_ 0 0 0 REV__ENSG00000182013|ENST00000313683|PNMA8A REV__ENSG00000182013|ENST00000313683|PNMA8A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.8650207519531 3 304.853107 911.537492 2.247 0.00068499 -1.0832 -0.00033023 1.1637 0.00035476 304.8526959693031 37.702 0.38993 37.962 37.822 38.212 0.26083 19 12 2 0 0 0 0.14313 1 17149 17149 1.6526 1.6526 1 161370 + 24780 13869 15958 16014 28294 28294 0.07818445361829163 PMVPKKRG 8 Unmodified _PMVPKKRG_ 0 0 0 REV__ENSG00000182013|ENST00000313683|PNMA8A REV__ENSG00000182013|ENST00000313683|PNMA8A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.7759704589844 2 456.776022 911.537492 3.1117 0.0014213 -1.5515 -0.00070867 1.5602 0.00071267 456.7752188003068 87.343 0.25354 88.019 87.912 88.166 0.67554 18 10 2 0 0 0 0.74071 1 40228 40228 2.5775 1.7838 1 484470 + 24781 13869 15958 16014 28295 28295 0.07818445361829163 PMVPKKRG 8 Unmodified _PMVPKKRG_ 0 0 0 REV__ENSG00000182013|ENST00000313683|PNMA8A REV__ENSG00000182013|ENST00000313683|PNMA8A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 456.776022 911.537492 3.019 0.001379 -1.8901 -0.00086335 1.1289 0.00051565 456.7752708864491 87.999 0.23805 88.249 88.062 88.3 0.25064 0.11532 -0.0001256 NaN 2.5775 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 415340 + 24782 13869 15958 16014 0.07818445361829163 PMVPKKRG 8 Unmodified _PMVPKKRG_ 0 0 0 REV__ENSG00000182013|ENST00000313683|PNMA8A REV__ENSG00000182013|ENST00000313683|PNMA8A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 456.776022 911.537492 3.1117 0.0014213 -1.5515 -0.00070867 1.5602 0.00071267 456.7752188003068 87.343 0.25354 88.019 87.912 88.166 0.67554 -0.11532 0.00018375 NaN 2.5775 18 10 2 NaN NaN NaN NaN 0 NaN NaN 0 484470 + 24783 13869 15958 16014 0.07818445361829163 PMVPKKRG 8 Unmodified _PMVPKKRG_ 0 0 0 REV__ENSG00000182013|ENST00000313683|PNMA8A REV__ENSG00000182013|ENST00000313683|PNMA8A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 304.853107 911.537492 2.1308 0.00064959 -0.66366 -0.00020232 1.4672 0.00044727 304.85276296739875 37.106 0.42062 37.736 37.545 37.966 0.62999 -0.19908 -6.9077E-06 NaN 1.6526 26 17 2 NaN NaN NaN NaN 0 NaN NaN 0 122220 + 24784 13869 15958 16014 0.07818445361829163 PNCYAKVM 8 Unmodified _PNCYAKVM_ 0 0 0 nc|ENSG00000106462|Q15910-5|EZH2;nc|ENSG00000106462|Q15910-3|EZH2;nc|ENSG00000106462|Q15910-4|EZH2;nc|ENSG00000106462|Q15910|EZH2;ENSG00000106462|ENST00000320356|EZH2;ENST00000431167.1_1_21:36972032-36972302:-|nuORF;ENST00000492143.5_1_7:148504740-148513906:-|nuORF nc|ENSG00000106462|Q15910-5|EZH2 nc|ENSG00000106462|Q15910-5|EZH2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.2186584472656 2 463.217149 924.419744 2.7535 0.0012755 0.46266 0.00021431 3.2162 0.0014898 463.2174831057988 14.356 0.28706 14.356 14.265 14.552 0 26 18 2 0 0 0 0.59268 1 6319 6319 14.582 1.0738 1 179520 24785 1572 15959 16015 28296 28296 -0.045488752891515105 PNELVDLTL 9 Unmodified _PNELVDLTL_ 0 0 0 REV__nc|ENSG00000176915|Q86XL3-2|ANKLE2 REV__nc|ENSG00000176915|Q86XL3-2|ANKLE2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.2803955078125 2 507.279315 1012.54408 2.462 0.0012489 0.41368 0.00020985 2.8757 0.0014588 507.2795700393317 70.554 0.7605 70.554 70.338 71.098 0 204 89 3 0 0 0 0.069974 1 34370 34370 40.239 0.28951 1 9309600 + 24786 13718 15960 16016 28297 28297 0.03830617003529824 PNELVDLTL 9 Unmodified _PNELVDLTL_ 0 0 0 REV__nc|ENSG00000176915|Q86XL3-2|ANKLE2 REV__nc|ENSG00000176915|Q86XL3-2|ANKLE2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1013.8984985351562 1 1013.55135 1012.54408 3.3742 0.00342 0.35263 0.00035741 3.7269 0.0037774 1013.5514248570104 70.265 0.72209 70.521 70.235 70.957 0.25641 93 49 2 0 0 0 0.084899 1 32070 32070 36.506 0 1 1233000 + 24787 13718 15960 16016 28298 28298 0.03830617003529824 PNELVDLTL 9 Unmodified _PNELVDLTL_ 0 0 0 REV__nc|ENSG00000176915|Q86XL3-2|ANKLE2 REV__nc|ENSG00000176915|Q86XL3-2|ANKLE2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.28076171875 2 507.279315 1012.54408 3.1711 0.0016086 0.26526 0.00013456 3.4363 0.0017432 507.27936596241045 70.366 0.92612 70.622 70.194 71.12 0.25642 157 62 3 0 0 0 0.063112 1 32378 32378 41.956 2.0059 1 2864000 + 24788 13718 15960 16016 28299 28299 0.03830617003529824 PNERRRRRRGG 11 Unmodified _PNERRRRRRGG_ 0 0 0 REV__ENST00000305123.5_1_2:227663922-227664009:-|nuORF REV__ENST00000305123.5_1_2:227663922-227664009:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 353.20709228515625 4 353.206887 1408.79844 1.9847 0.00070099 -0.29935 -0.00010573 1.6853 0.00059526 353.45754536217333 54.916 0.42853 55.707 55.408 55.836 0.79117 60 27 4 0 0 0 0.91068 1 25083 25083 0.45452 0 1 1527600 + 24789 15226 15961 16017 28300 28300 0.11039541385912344 PNEVAVIAH 9 Unmodified _PNEVAVIAH_ 0 0 0 REV__ENST00000494591.1_1_4:144346351-144346597:+|nuORF REV__ENST00000494591.1_1_4:144346351-144346597:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.2583923339844 2 475.258717 948.50288 NaN NaN NaN NaN NaN NaN NaN 55.513 1 56.181 55.681 56.681 0.66798 0 0 0 0.8984 1 25394 25394 3.9444 1.3669 1 + 24790 16828 15962 16018 28301 28301 0.02656900754709568 PNHCGIER 8 Unmodified _PNHCGIER_ 0 0 0 ENST00000601887.1_1_19:58640869-58666428:-|nuORF;ENST00000500161.2_1_19:58653993-58666470:-|nuORF ENST00000601887.1_1_19:58640869-58666428:-|nuORF ENST00000601887.1_1_19:58640869-58666428:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.2187805175781 2 463.219069 924.423584 NaN NaN NaN NaN NaN NaN NaN 14.199 1 14.425 13.925 14.925 0.22622 0 0 0 0.67718 1 6234 6234 23.148 0 1 24791 8472 15963 16019 28302 28302 -0.04165069471071092 PNHVEHTL 8 Unmodified _PNHVEHTL_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.74334716796875 2 473.740691 945.466829 2.9864 0.0014148 0.26719 0.00012658 3.2536 0.0015414 473.74083587069504 13.143 0.18723 13.143 13.036 13.224 0 18 10 2 0 0 0 1.6275E-11 1 5730 5730 166.45 73.626 1 592570 24792 892 15964 16020 28303 28303 -0.008085564221460118 PNHVEHTL 8 Unmodified _PNHVEHTL_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.741455078125 2 473.740691 945.466829 2.278 0.0010792 0.4914 0.0002328 2.7694 0.001312 473.7408750522781 12.698 0.12178 13.005 12.936 13.058 0.30727 5 3 2 0 0 0 0.062889 1 5744 5744 61.357 32.276 1 938370 24793 892 15964 16020 28304 28304 -0.008085564221460118 PNINITKL 8 Unmodified _PNINITKL_ 0 0 0 REV__ENSG00000128731|ENST00000261609|HERC2 REV__ENSG00000128731|ENST00000261609|HERC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 457.0306091308594 2 456.779285 911.544017 NaN NaN NaN NaN NaN NaN NaN 101.96 1 101.96 101.46 102.46 0 0 0 0 0.99035 1 56320 56320 0.69038 0 1 + 24794 11770 15965 16021 28305 28305 0.08470661794160605 PNIRKRKH 8 Unmodified _PNIRKRKH_ 0 0 0 REV__ENSG00000166446|ENST00000570137|CDYL2 REV__ENSG00000166446|ENST00000570137|CDYL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.8286743164062 2 524.827966 1047.64138 2.7857 0.001462 -1.0069 -0.00052844 1.7788 0.00093358 524.8273470854015 96.302 0.30194 96.302 96.165 96.467 0 86 36 3 0 0 0 0.7441 1 52150 52150 2.3027 0.4585 1 35765000 + 24795 13240 15966 16022 28306 28306 0.1194648851369493 PNIRKRKH 8 Unmodified _PNIRKRKH_ 0 0 0 REV__ENSG00000166446|ENST00000570137|CDYL2 REV__ENSG00000166446|ENST00000570137|CDYL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.8284301757812 2 524.827966 1047.64138 2.1489 0.0011278 -0.67267 -0.00035304 1.4763 0.00077479 524.827479578887 95.804 0.29288 95.886 95.726 96.019 0.082001 76 41 3 0 0 0 0.7441 1 50649 50649 2.3027 0 1 22658000 + 24796 13240 15966 16022 28307 28307 0.1194648851369493 PNKLFGLNF 9 Unmodified _PNKLFGLNF_ 0 0 0 REV__ENSG00000155363|ENST00000369645|MOV10 REV__ENSG00000155363|ENST00000369645|MOV10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.5315246582031 3 350.530798 1048.57057 2.5448 0.00089203 0.16112 5.6476E-05 2.7059 0.00094851 350.5307910821906 49.767 0.44092 50.028 49.782 50.223 0.26146 50 17 4 0 0 0 0.29781 2 22715 22715;22778 11.495 5.3029 1 3492600 + 24797 12738 15967 16023 28308;28309 28308 0.04822350685526544 PNKLFGLNF 9 Unmodified _PNKLFGLNF_ 0 0 0 REV__ENSG00000155363|ENST00000369645|MOV10 REV__ENSG00000155363|ENST00000369645|MOV10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.5315856933594 3 350.530798 1048.57057 2.5308 0.00088712 0.45235 0.00015856 2.9831 0.0010457 350.5308968241149 49.157 0.31733 49.812 49.664 49.982 0.65524 32 10 4 0 0 0 0.29781 2 22475 22475;22533 11.495 3.0504 1 3536300 + 24798 12738 15967 16023 28310;28311 28310 0.04822350685526544 PNKLFGLNF 9 Unmodified _PNKLFGLNF_ 0 0 0 REV__ENSG00000155363|ENST00000369645|MOV10 REV__ENSG00000155363|ENST00000369645|MOV10 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 350.530798 1048.57057 2.4622 0.00086306 0.41008 0.00014375 2.8722 0.0010068 350.5308985052375 49.819 0.36708 49.819 49.586 49.953 0 0.04375 0.00010873 NaN 11.495 37 16 3 NaN NaN NaN NaN 0 NaN NaN 0 692080 + 24799 12738 15967 16023 0.04822350685526544 PNKLFGLNF 9 Unmodified _PNKLFGLNF_ 0 0 0 REV__ENSG00000155363|ENST00000369645|MOV10 REV__ENSG00000155363|ENST00000369645|MOV10 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 350.530798 1048.57057 2.3758 0.00083281 0.14123 4.9504E-05 2.5171 0.00088231 350.5306521147289 48.616 0.30582 49.443 49.28 49.586 0.82705 -0.33291 -0.00017399 NaN 11.495 37 17 3 NaN NaN NaN NaN 0 NaN NaN 0 954770 + 24800 12738 15967 16023 0.04822350685526544 PNKLFGLNF 9 Unmodified _PNKLFGLNF_ 0 0 0 REV__ENSG00000155363|ENST00000369645|MOV10 REV__ENSG00000155363|ENST00000369645|MOV10 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 350.530798 1048.57057 2.5308 0.00088712 0.45235 0.00015856 2.9831 0.0010457 350.5308968241149 49.157 0.31733 49.812 49.664 49.982 0.65524 0.036438 0.00015319 NaN 11.495 32 10 4 NaN NaN NaN NaN 0 NaN NaN 0 3536300 + 24801 12738 15967 16023 0.04822350685526544 PNLARQANIHI 11 Unmodified _PNLARQANIHI_ 0 0 0 L1PA4_dup1628|chr2:208784257-208790424:+|1.0623077957396911|0.1813551409053674|2.55|524.0|135|3|sense L1PA4_dup1628|chr2:208784257-208790424:+|1.0623077957396911|0.1813551409053674|2.55|524.0|135|3|sense L1PA4_dup1628|chr2:208784257-208790424:+|1.0623077957396911|0.1813551409053674|2.55|524.0|135|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 623.3922119140625 2 623.854378 1245.6942 NaN NaN NaN NaN NaN NaN NaN 95.009 1 95.009 94.509 95.509 0 0 0 0 1.0041 1 51071 51071 5.2969 0.39987 1 24802 9466 15968 16024 28312 28312 0.08118401785850438 PNLIEYLQ 8 Unmodified _PNLIEYLQ_ 0 0 0 ENSG00000176597|ENST00000326505|B3GNT5 ENSG00000176597|ENST00000326505|B3GNT5 ENSG00000176597|ENST00000326505|B3GNT5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.7893371582031 2 495.26875 988.522947 3.4437 0.0017055 -0.073552 -3.6428E-05 3.3701 0.0016691 495.26847818066403 12.861 0.16698 13.504 13.413 13.58 0.64272 9 4 3 0 0 0 0.12327 1 5742 5742 13.508 6.2187 1 264790 24803 5083 15969 16025 28313 28313 0.028226516946460833 PNNYHEFCR 9 Unmodified _PNNYHEFCR_ 0 0 0 ENSG00000130227|ENST00000252512|XPO7 ENSG00000130227|ENST00000252512|XPO7 ENSG00000130227|ENST00000252512|XPO7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8391418457031 3 393.838185 1178.49273 NaN NaN NaN NaN NaN NaN NaN 7.927 1 8.5517 8.0517 9.0517 0.62473 0 0 0 0.91342 1 3577 3577 0.26902 0.062163 1 24804 2578 15970 16026 28314 28314 -0.08938030242188688 PNTESLRVL 9 Unmodified _PNTESLRVL_ 0 0 0 REV__ENSG00000105251|ENST00000543264|SHD REV__ENSG00000105251|ENST00000543264|SHD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.7913208007812 2 514.790381 1027.56621 NaN NaN NaN NaN NaN NaN NaN 47.032 1 47.032 46.532 47.532 0 0 0 0 0.050529 1 21529 21529 53.404 19.302 1 + 24805 11023 15971 16027 28315 28315 0.053528414719721695 PNWRRRWWRFL 11 Unmodified _PNWRRRWWRFL_ 0 0 0 REV__ENST00000463462.5_1_7:148982563-148988696:+|nuORF REV__ENST00000463462.5_1_7:148982563-148988696:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 836.9583740234375 2 836.957835 1671.90112 NaN NaN NaN NaN NaN NaN NaN 95.584 1 95.584 95.084 96.084 0 0 0 0 1.008 1 51508 51508 0.30703 0.30703 1 + 24806 16216 15972 16028 28316 28316 0.09204234124649702 PPAAGPKD 8 Unmodified _PPAAGPKD_ 0 0 0 REV__nc|ENSG00000184634|Q93074-3|MED12 REV__nc|ENSG00000184634|Q93074-3|MED12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.7019958496094 2 376.700503 751.386454 2.9197 0.0010999 0.30193 0.00011374 3.2216 0.0012136 376.7005154387856 26.784 0.25323 26.784 26.663 26.916 0 30 16 3 0 0 0 0.70799 1 12097 12097 5.2307 0 1 969500 + 24807 13983 15973 16029 28317 28317 0.0008158225480201509 PPAAGPKD 8 Unmodified _PPAAGPKD_ 0 0 0 REV__nc|ENSG00000184634|Q93074-3|MED12 REV__nc|ENSG00000184634|Q93074-3|MED12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.7013244628906 2 376.700503 751.386454 2.3342 0.00087929 0.20676 7.7887E-05 2.541 0.00095718 376.7004651771586 25.876 0.29826 26.64 26.481 26.779 0.76356 37 18 3 0 0 0 0.70799 1 11639 11639 5.2307 0 1 742210 + 24808 13983 15973 16029 28318 28318 0.0008158225480201509 PPAGCGDY 8 Unmodified _PPAGCGDY_ 0 0 0 ENST00000419435.5_1_3:193311101-193321290:+|nuORF;ENST00000361828.6_1_3:193310987-193332528:+|nuORF ENST00000419435.5_1_3:193311101-193321290:+|nuORF ENST00000419435.5_1_3:193311101-193321290:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 390.1744079589844 2 390.155071 778.29559 NaN NaN NaN NaN NaN NaN NaN 65.12 1 65.12 64.62 65.62 0 0 0 0 0.99035 1 30965 30965 2.5775 0 1 24809 7228 15974 16030 28319 28319 -0.10242629784977453 PPAGCGDY 8 Unmodified _PPAGCGDY_ 0 0 0 ENST00000419435.5_1_3:193311101-193321290:+|nuORF;ENST00000361828.6_1_3:193310987-193332528:+|nuORF ENST00000419435.5_1_3:193311101-193321290:+|nuORF ENST00000419435.5_1_3:193311101-193321290:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 390.1553955078125 2 390.155071 778.29559 NaN NaN NaN NaN NaN NaN NaN 68.742 1 68.742 68.242 69.242 0 0 0 0 0.99035 1 33116 33116 2.5775 0 1 24810 7228 15974 16030 28320 28320 -0.10242629784977453 PPCLYFPFIW 10 Unmodified _PPCLYFPFIW_ 0 0 0 REV__ENST00000221566.6_1_19:2755712-2755814:-|nuORF REV__ENST00000221566.6_1_19:2755712-2755814:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.9525756835938 2 641.820095 1281.62564 2.5532 0.0016387 -4.019 -0.0025795 -1.4658 -0.00094077 641.8181402797102 92.222 0.053024 92.305 92.27 92.323 0.082848 6 5 2 0 0 0 0.71407 1 48003 48003 12.532 3.1484 1 4144900 + 24811 14825 15975 16031 28321 28321 -0.003909788382316037 PPDPEEEEEA 10 Unmodified _PPDPEEEEEA_ 0 0 0 ENSG00000170276|ENST00000304298|HSPB2 ENSG00000170276|ENST00000304298|HSPB2 ENSG00000170276|ENST00000304298|HSPB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.15692138671875 3 381.155903 1140.44588 2.621 0.00099901 0.62917 0.00023981 3.2502 0.0012388 381.1560959076474 18.081 0.59875 18.383 18.065 18.663 0.30159 182 61 4 0 0 0 0.93534 1 8271 8271 0.77653 0 1 5140600 24812 4739 15976 16032 28322 28322 -0.11872656102991641 PPDVQEALGEF 11 Unmodified _PPDVQEALGEF_ 0 0 0 REV__nc|ENSG00000112282|Q9ULK4-4|MED23 REV__nc|ENSG00000112282|Q9ULK4-4|MED23 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 401.1979675292969 3 401.196033 1200.56627 2.9164 0.0011701 0.4528 0.00018166 3.3692 0.0013517 401.19651353175436 31.672 0.25825 32.289 32.123 32.381 0.61737 33 24 2 0 0 0 0.67851 1 14519 14519 12.228 1.4281 1 1236000 + 24813 11267 15977 16033 28323 28323 -0.02599203318709442 PPDVQEALGEF 11 Unmodified _PPDVQEALGEF_ 0 0 0 REV__nc|ENSG00000112282|Q9ULK4-4|MED23 REV__nc|ENSG00000112282|Q9ULK4-4|MED23 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 401.196033 1200.56627 2.9164 0.0011701 0.4528 0.00018166 3.3692 0.0013517 401.19651353175436 31.672 0.25825 32.289 32.123 32.381 0.61737 0.12169 -0.00050255 NaN 12.228 33 24 2 NaN NaN NaN NaN 0 NaN NaN 0 1236000 + 24814 11267 15977 16033 -0.02599203318709442 PPFILIVL 8 Unmodified _PPFILIVL_ 0 0 0 REV__nc|ENSG00000095981|Q96T55-5|KCNK16 REV__nc|ENSG00000095981|Q96T55-5|KCNK16 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.8654479980469 3 304.537002 910.589176 2.4278 0.00073936 -1.1738 -0.00035747 1.254 0.00038189 304.5365013664553 32.58 0.67228 32.834 32.607 33.28 0.25452 47 31 2 0 0 0 0.14333 1 14760 14760 0.45834 0 1 1431000 + 24815 10771 15978 16034 28324 28324 0.1303051232736152 PPFILIVL 8 Unmodified _PPFILIVL_ 0 0 0 REV__nc|ENSG00000095981|Q96T55-5|KCNK16 REV__nc|ENSG00000095981|Q96T55-5|KCNK16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 304.5374755859375 3 304.537002 910.589176 2.0996 0.00063942 -0.049284 -1.5009E-05 2.0504 0.00062441 304.53665695834553 38.543 0.97062 39.177 38.943 39.913 0.63388 48 35 2 0 0 0 0.7471 1 17642 17642 0.45834 0 1 338290 + 24816 10771 15978 16034 28325 28325 0.1303051232736152 PPFILIVL 8 Unmodified _PPFILIVL_ 0 0 0 REV__nc|ENSG00000095981|Q96T55-5|KCNK16 REV__nc|ENSG00000095981|Q96T55-5|KCNK16 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 304.8653259277344 3 304.537002 910.589176 2.1011 0.00063986 -0.1494 -4.5499E-05 1.9517 0.00059436 304.53670801328286 31.811 0.5348 32.428 32.295 32.83 0.61737 42 32 2 0 0 0 0.14333 1 14534 14534 0.45834 0 1 1432200 + 24817 10771 15978 16034 28326 28326 0.1303051232736152 PPFILIVL 8 Unmodified _PPFILIVL_ 0 0 0 REV__nc|ENSG00000095981|Q96T55-5|KCNK16 REV__nc|ENSG00000095981|Q96T55-5|KCNK16 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 304.537002 910.589176 1.8269 0.00055637 -0.67445 -0.0002054 1.1525 0.00035097 304.5367154017763 33.139 0.22504 33.139 32.978 33.203 0 0.15253 0.00016283 NaN 0.45834 21 13 2 NaN NaN NaN NaN 0 NaN NaN 0 922340 + 24818 10771 15978 16034 0.1303051232736152 PPFVVFYL 8 Unmodified _PPFVVFYL_ 0 0 0 ENST00000510773.1_1_4:135865483-135865675:+|nuORF ENST00000510773.1_1_4:135865483-135865675:+|nuORF ENST00000510773.1_1_4:135865483-135865675:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 327.5193786621094 3 327.85299 980.537141 NaN NaN NaN NaN NaN NaN NaN 14.357 1 14.664 14.164 15.164 0.3069 0 0 0 0.99035 1 6497 6497 1.8442 0 1 24819 8558 15979 16035 28327 28327 0.04609348913618305 PPGAGPRR 8 Unmodified _PPGAGPRR_ 0 0 0 ENST00000406787.7_1_11:28131755-28131893:+|nuORF ENST00000406787.7_1_11:28131755-28131893:+|nuORF ENST00000406787.7_1_11:28131755-28131893:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.2339782714844 2 404.232836 806.45112 2.8286 0.0011434 -0.13063 -5.2807E-05 2.6979 0.0010906 404.2327946679394 78.407 0.653 78.66 78.228 78.881 0.25335 83 35 4 0 0 0 0.7471 1 36026 36026 0.69038 0 1 4794200 24820 7645 15980 16036 28328 28328 0.04015201851461825 PPGDVLASPEP 11 Unmodified _PPGDVLASPEP_ 0 0 0 ENSG00000106479|ENST00000223210|ZNF862 ENSG00000106479|ENST00000223210|ZNF862 ENSG00000106479|ENST00000223210|ZNF862 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.9246215820312 2 539.774396 1077.53424 NaN NaN NaN NaN NaN NaN NaN 55.808 1 56.595 56.095 57.095 0.78711 0 0 0 1.0034 1 25490 25490 6.2058 0 1 24821 1573 15981 16037 28329 28329 -0.001425710018565951 PPGTGSCG 8 Unmodified _PPGTGSCG_ 0 0 0 ENST00000395212.8_1_19:2809976-2810228:+|nuORF ENST00000395212.8_1_19:2809976-2810228:+|nuORF ENST00000395212.8_1_19:2809976-2810228:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.14288330078125 2 338.141964 674.269375 2.2974 0.00077685 -0.49061 -0.0001659 1.8068 0.00061095 338.14183960325835 78.328 0.94077 78.581 78.008 78.949 0.25335 78 52 2 0 0 0 0.7471 1 36097 36097 0.69038 0 1 386580 24822 7551 15982 16038 28330 28330 -0.08078898956443936 PPHIALLL 8 Unmodified _PPHIALLL_ 0 0 0 REV__ENSG00000120008|ENST00000263461|WDR11 REV__ENSG00000120008|ENST00000263461|WDR11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2686462402344 2 437.281463 872.548374 NaN NaN NaN NaN NaN NaN NaN 48.266 1 48.528 48.028 49.028 0.26209 0 0 0 0.99035 1 22062 22062 2.8892 0 1 + 24823 11525 15983 16039 28331 28331 0.10700171007761128 PPHLLLHLLL 10 Unmodified _PPHLLLHLLL_ 0 0 0 REV__ENST00000310677.8_1_14:24791428-24793534:-|nuORF REV__ENST00000310677.8_1_14:24791428-24793534:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.2550354003906 3 389.253376 1164.7383 2.6921 0.0010479 1.0891 0.00042394 3.7812 0.0014718 389.25390095188953 38.512 0.36945 38.776 38.63 38.999 0.26408 60 14 5 0 0 0 0.9406 1 17516 17516 0.77653 0.078866 1 128780000 + 24824 15263 15984 16040 28332 28332 0.16252037950130216 PPHLLLHLLL 10 Unmodified _PPHLLLHLLL_ 0 0 0 REV__ENST00000310677.8_1_14:24791428-24793534:-|nuORF REV__ENST00000310677.8_1_14:24791428-24793534:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.2547302246094 3 389.253376 1164.7383 2.9591 0.0011519 0.83381 0.00032456 3.7929 0.0014764 389.2536534489979 43.062 0.11541 43.71 43.66 43.776 0.64872 9 7 2 0 0 0 0.9406 1 19757 19757 0.77653 0 1 829720 + 24825 15263 15984 16040 28333 28333 0.16252037950130216 PPHPPSTGLL 10 Unmodified _PPHPPSTGLL_ 0 0 0 nc|ENSG00000132970|Q9UPY6-2|WASF3;ENSG00000132970|ENST00000335327|WASF3 nc|ENSG00000132970|Q9UPY6-2|WASF3 nc|ENSG00000132970|Q9UPY6-2|WASF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.1911926269531 3 339.190553 1014.54983 1.6691 0.00056613 -0.17774 -6.0289E-05 1.4913 0.00050584 339.1905103009813 12.407 0.18665 12.715 12.661 12.848 0.30727 23 10 3 0 0 0 0.24407 1 5577 5577 22.658 0 1 180310000 24826 2740 15985 16041 28334 28334 0.04313760305853975 PPIHGIIHV 9 Unmodified _PPIHGIIHV_ 0 0 0 REV__ENST00000531336.1_1_11:6414536-6415276:+|nuORF REV__ENST00000531336.1_1_11:6414536-6415276:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7972717285156 2 491.795269 981.575986 3.23 0.0015885 1.6677 0.00082019 4.8978 0.0024087 491.79627166959585 42.766 0.12886 43.036 42.915 43.044 0.27021 11 6 2 0 0 0 0.92809 1 19504 19504 5.2307 0 1 4882600 + 24827 13224 15986 16042 28335 28335 0.08446074268010761 PPIHGIIHV 9 Unmodified _PPIHGIIHV_ 0 0 0 REV__ENST00000531336.1_1_11:6414536-6415276:+|nuORF REV__ENST00000531336.1_1_11:6414536-6415276:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 491.795269 981.575986 3.0865 0.0015179 2.2735 0.0011181 5.36 0.002636 491.7965165072163 42.131 0.053062 42.939 42.896 42.949 0.80855 -0.048502 0.00020076 NaN 5.2307 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1294800 + 24828 13224 15986 16042 0.08446074268010761 PPIHGIIHV 9 Unmodified _PPIHGIIHV_ 0 0 0 REV__ENST00000531336.1_1_11:6414536-6415276:+|nuORF REV__ENST00000531336.1_1_11:6414536-6415276:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 491.795269 981.575986 3.23 0.0015885 1.6677 0.00082019 4.8978 0.0024087 491.79627166959585 42.766 0.12886 43.036 42.915 43.044 0.27021 0.048502 -0.00039504 NaN 5.2307 11 6 2 NaN NaN NaN NaN 0 NaN NaN 0 4882600 + 24829 13224 15986 16042 0.08446074268010761 PPIHLKFLLKL 11 Unmodified _PPIHLKFLLKL_ 0 0 0 REV__TBC1D8B|p.L930Yfs*38|1|0.07|ENSG00000133138|chrX:106868452-106868452|T/-|frameshift_variant REV__TBC1D8B|p.L930Yfs*38|1|0.07|ENSG00000133138|chrX:106868452-106868452|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 330.4715270996094 4 330.470692 1317.85366 2.3198 0.00076662 0.78547 0.00025957 3.1053 0.0010262 330.47088469817913 39.012 0.34427 39.81 39.619 39.963 0.79762 28 16 2 0 0 0 0.91378 1 17657 17657 0.094841 0.094841 1 633420 + 24830 11927 15987 16043 28336 28336 0.20745142081113954 PPIHLKFLLKL 11 Unmodified _PPIHLKFLLKL_ 0 0 0 REV__TBC1D8B|p.L930Yfs*38|1|0.07|ENSG00000133138|chrX:106868452-106868452|T/-|frameshift_variant REV__TBC1D8B|p.L930Yfs*38|1|0.07|ENSG00000133138|chrX:106868452-106868452|T/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.531494140625 4 330.470692 1317.85366 2.1232 0.00070164 1.4694 0.00048559 3.5925 0.0011872 330.4711935583192 37.973 0.33971 38.606 38.337 38.677 0.63388 16 11 2 0 0 0 0.13295 1 17304 17304 1.4551 0.94916 1 143640 + 24831 11927 15987 16043 28337 28337 0.20745142081113954 PPIHLKFLLKL 11 Unmodified _PPIHLKFLLKL_ 0 0 0 REV__TBC1D8B|p.L930Yfs*38|1|0.07|ENSG00000133138|chrX:106868452-106868452|T/-|frameshift_variant REV__TBC1D8B|p.L930Yfs*38|1|0.07|ENSG00000133138|chrX:106868452-106868452|T/-|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 330.470692 1317.85366 2.3141 0.00076476 1.2284 0.00040594 3.5425 0.0011707 330.47102277161184 38.344 0.64501 39.141 38.693 39.338 0.797 0.28342 -0.00014518 NaN 1.4551 64 25 4 NaN NaN NaN NaN 0 NaN NaN 0 792490 + 24832 11927 15987 16043 0.20745142081113954 PPIQKPKLL 9 Unmodified _PPIQKPKLL_ 0 0 0 nc|ENSG00000100241|O95248|SBF1;ENSG00000100241|ENST00000380817|SBF1;nc|ENSG00000100241|O95248-4|SBF1 nc|ENSG00000100241|O95248|SBF1 nc|ENSG00000100241|O95248|SBF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.2311096191406 3 345.23046 1032.66955 2.4741 0.00085414 -0.52995 -0.00018295 1.9442 0.00067119 345.2300357546651 16.529 0.35133 16.529 16.215 16.566 0 61 41 2 0 0 0 1.1703 1 7237 7237 1.1933 0 1 67073 24833 1193 15988 16044 28338 28338 0.1545237365041885 PPIWPVRPL 9 Unmodified _PPIWPVRPL_ 0 0 0 REV__ENST00000253727.9_2_19:50880073-50881037:+|nuORF REV__ENST00000253727.9_2_19:50880073-50881037:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 358.8871765136719 3 358.886805 1073.63859 2.3489 0.00084299 -0.86339 -0.00030986 1.4855 0.00053313 358.8865158571219 14.179 0.49348 14.406 14.286 14.78 0.22622 52 41 2 0 0 0 1.0601 1 6270 6270 2.9952 1.151 1 272790 + 24834 14919 15989 16045 28339 28339 0.10471220336171427 PPKALALV 8 Unmodified _PPKALALV_ 0 0 0 REV__nc|ENSG00000068308|Q96G74-2|OTUD5 REV__nc|ENSG00000068308|Q96G74-2|OTUD5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 808.5310668945312 1 808.529101 807.521825 4.7055 0.0038045 -1.9746 -0.0015965 2.7309 0.002208 808.5267489828944 103.3 0.1944 103.62 103.55 103.74 0.31863 22 10 3 0 0 0 0.7471 1 47749 47749 0 0 1 439530 + 24835 10460 15990 16046 28340 28340 0.11036482116401203 PPKKGGGA 8 Unmodified _PPKKGGGA_ 0 0 0 REV__ENSG00000167074|ENST00000266304|TEF REV__ENSG00000167074|ENST00000266304|TEF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 356.2126770019531 2 356.211038 710.407523 3.4094 0.0012145 2.1272 0.00075774 5.5366 0.0019722 356.21173359223087 102.82 0.090607 103.14 103.09 103.18 0.31863 8 4 2 0 0 0 0.7471 1 47555 47555 0 0 1 663290 + 24836 13274 15991 16047 28341 28341 0.04073592354336597 PPKKGGGA 8 Unmodified _PPKKGGGA_ 0 0 0 REV__ENSG00000167074|ENST00000266304|TEF REV__ENSG00000167074|ENST00000266304|TEF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 356.211038 710.407523 3.4094 0.0012145 2.1272 0.00075774 5.5366 0.0019722 356.21173359223087 102.82 0.090607 103.14 103.09 103.18 0.31863 -0.11314 -4.4579E-05 NaN 0 8 4 2 NaN NaN NaN NaN 0 NaN NaN 0 663290 + 24837 13274 15991 16047 0.04073592354336597 PPKKGGGA 8 Unmodified _PPKKGGGA_ 0 0 0 REV__ENSG00000167074|ENST00000266304|TEF REV__ENSG00000167074|ENST00000266304|TEF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 356.211038 710.407523 2.71 0.00096533 2.5625 0.00091279 5.2725 0.0018781 356.21134826304035 102.77 0.083267 103.37 103.3 103.38 0.59758 0.11314 0.00026553 NaN 0 10 4 3 NaN NaN NaN NaN 0 NaN NaN 0 611180 + 24838 13274 15991 16047 0.04073592354336597 PPKKKAVAWV 10 Unmodified _PPKKKAVAWV_ 0 0 0 nc|ENSG00000182013|Q86V59-2|PNMA8A;ENSG00000182013|ENST00000313683|PNMA8A nc|ENSG00000182013|Q86V59-2|PNMA8A nc|ENSG00000182013|Q86V59-2|PNMA8A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.5732421875 3 375.237726 1122.69135 2.7043 0.0010148 0.9412 0.00035317 3.6455 0.0013679 375.2380373671178 35.097 0.21706 35.353 35.32 35.537 0.25524 15 10 2 0 0 0 0.9406 1 16048 16048 0.77653 0.50751 1 467320 24839 5307 15992 16048 28342 28342 0.13491178398976444 PPKKKAVAWV 10 Unmodified _PPKKKAVAWV_ 0 0 0 nc|ENSG00000182013|Q86V59-2|PNMA8A;ENSG00000182013|ENST00000313683|PNMA8A nc|ENSG00000182013|Q86V59-2|PNMA8A nc|ENSG00000182013|Q86V59-2|PNMA8A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 375.237726 1122.69135 2.6404 0.00099078 2.1784 0.00081742 4.8188 0.0018082 375.2385813564236 35.513 0.1129 35.513 35.411 35.524 0 0.17038 0.00090089 NaN 0.77653 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 415040 24840 5307 15992 16048 0.13491178398976444 PPKKKAVAWV 10 Unmodified _PPKKKAVAWV_ 0 0 0 nc|ENSG00000182013|Q86V59-2|PNMA8A;ENSG00000182013|ENST00000313683|PNMA8A nc|ENSG00000182013|Q86V59-2|PNMA8A nc|ENSG00000182013|Q86V59-2|PNMA8A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 375.237726 1122.69135 2.6415 0.0009912 1.2133 0.00045529 3.8548 0.0014465 375.23827731004707 34.539 0.17239 35.162 35.051 35.223 0.62294 -0.18049 -0.0001855 NaN 0.77653 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 173580 24841 5307 15992 16048 0.13491178398976444 PPKLRLKRRWN 11 Unmodified _PPKLRLKRRWN_ 0 0 0 ENSG00000117036|ENST00000368192|ETV3 ENSG00000117036|ENST00000368192|ETV3 ENSG00000117036|ENST00000368192|ETV3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 732.4578247070312 2 732.457136 1462.89972 NaN NaN NaN NaN NaN NaN NaN 33.635 1 34.423 33.923 34.923 0.78795 0 0 0 1.0073 1 15225 15225 1.1933 0.84271 1 24842 2059 15993 16049 28343 28343 0.1867860003592341 PPKPDPPH 8 Unmodified _PPKPDPPH_ 0 0 0 REV__ENSG00000266074|ENST00000675386|BAHCC1 REV__ENSG00000266074|ENST00000675386|BAHCC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.73663330078125 2 442.734877 883.455202 3.4577 0.0015308 0.52136 0.00023083 3.979 0.0017617 442.734998444977 12.383 0.058697 13.021 13.003 13.062 0.63746 5 3 2 0 0 0 0.61796 1 5553 5553 12.532 0.89125 1 3267000 + 24843 14706 15994 16050 28344 28344 0.008812465545133819 PPLASRGKP 9 Unmodified _PPLASRGKP_ 0 0 0 REV__ENSG00000182156|ENST00000328313|ENPP7 REV__ENSG00000182156|ENST00000328313|ENPP7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.19696044921875 3 308.187143 921.5396 NaN NaN NaN NaN NaN NaN NaN 38.835 1 39.473 38.973 39.973 0.63778 0 0 0 0.90335 1 17755 17755 2.7352 0.89096 1 + 24844 13875 15995 16051 28345 28345 0.07569197371287828 PPLHLRRFFL 10 Unmodified _PPLHLRRFFL_ 0 0 0 REV__ENST00000294753.8_1_1:247493325-247494987:-|nuORF REV__ENST00000294753.8_1_1:247493325-247494987:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.69976806640625 4 324.698838 1294.76625 2.3685 0.00076903 -0.055377 -1.7981E-05 2.3131 0.00075105 324.6987763561564 44.805 0.62757 45.455 44.913 45.541 0.64998 38 24 2 0 0 0 0.94099 1 20535 20535 0.69767 0 1 849580 + 24845 15140 15996 16052 28346 28346 0.13065360930204406 PPLHRVPG 8 Unmodified _PPLHRVPG_ 0 0 0 nc|ENSG00000179832|Q8NDA8-3|MROH1 nc|ENSG00000179832|Q8NDA8-3|MROH1 nc|ENSG00000179832|Q8NDA8-3|MROH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 436.75994873046875 2 436.758687 871.502821 3.1447 0.0013735 0.74276 0.00032441 3.8874 0.0016979 436.75881267845824 68.072 0.29662 68.324 68.154 68.451 0.25227 41 22 2 0 0 0 0.7471 1 31138 31138 0.79363 0 1 827020 24846 9766 15997 16053 28347 28347 0.061929455453764604 PPLHRVPG 8 Unmodified _PPLHRVPG_ 0 0 0 nc|ENSG00000179832|Q8NDA8-3|MROH1 nc|ENSG00000179832|Q8NDA8-3|MROH1 nc|ENSG00000179832|Q8NDA8-3|MROH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 436.7599182128906 2 436.758687 871.502821 3.0354 0.0013257 1.0321 0.00045079 4.0675 0.0017765 436.758946898829 67.491 0.32454 68.149 67.955 68.279 0.65777 38 21 2 0 0 0 0.7471 1 30921 30921 0.79363 0 1 651130 24847 9766 15997 16053 28348 28348 0.061929455453764604 PPLHSHVA 8 Unmodified _PPLHSHVA_ 0 0 0 REV__ENSG00000196990|ENST00000673969|FAM163B REV__ENSG00000196990|ENST00000673969|FAM163B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 429.23431396484375 2 429.235045 856.455536 2.3305 0.0010003 0.0073047 3.1354E-06 2.3378 0.0010035 429.2348187291513 65.562 0.30917 65.562 65.347 65.656 0 88 35 3 0 0 0 0.74071 1 31178 31178 2.5775 0 1 9797500 + 24848 14251 15998 16054 28349 28349 0.02156666274379404 PPLHVAKL 8 Unmodified _PPLHVAKL_ 0 0 0 DCTN1|p.G1216Efs*33|1|0.17|ENSG00000204843|chr2:74362104-74362104|C/-|frameshift_variant;ENSG00000204843|ENST00000628224|DCTN1;nc|ENSG00000204843|Q14203-5|DCTN1;nc|ENSG00000204843|Q14203-2|DCTN1;nc|ENSG00000204843|Q14203-3|DCTN1;nc|ENSG00000204843|Q14203-4|DCTN1;nc|ENSG00000204843|Q14203-6|DCTN1 DCTN1|p.G1216Efs*33|1|0.17|ENSG00000204843|chr2:74362104-74362104|C/-|frameshift_variant DCTN1|p.G1216Efs*33|1|0.17|ENSG00000204843|chr2:74362104-74362104|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.77911376953125 2 437.779088 873.543623 NaN NaN NaN NaN NaN NaN NaN 61.101 1 61.354 60.854 61.854 0.25245 0 0 0 0.99035 1 27981 27981 2.5775 0 1 24849 258 15999 16055 28350 28350 0.101792868649909 PPLLFPCP 8 Unmodified _PPLLFPCP_ 0 0 0 REV__ENST00000468950.5_1_2:238678415-238682646:+|nuORF REV__ENST00000468950.5_1_2:238678415-238682646:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.2424621582031 2 442.24095 882.467346 3.2504 0.0014375 0.051202 2.2644E-05 3.3016 0.0014601 442.24086386424335 88.277 0.44981 88.956 88.703 89.153 0.67818 46 18 3 0 0 0 0.7471 1 40668 40668 0.79363 0 1 2861100 + 24850 16573 16000 16056 28351 28351 0.021411469733379818 PPLLLLLLLL 10 Unmodified _PPLLLLLLLL_ 0 0 0 nc|ENSG00000185033|Q9NPR2-2|SEMA4B;ENSG00000185033|ENST00000411539|SEMA4B;SEMA4B|p.N175Mfs*161|1|0.16|ENSG00000185033|chr15:90221007-90221008|-/GGACGAGAAGGGGATGTCCA|frameshift_variant;ENSG00000134917|ENST00000257359|ADAMTS8;ENSG00000121316|ENST00000240617|PLBD1;ENST00000396904.2_2_7:5097383-5112677:+|nuORF;ENST00000498308.1_1_7:5111828-5112677:+|nuORF;ENSG00000143126|ENST00000271332|CELSR2 nc|ENSG00000185033|Q9NPR2-2|SEMA4B;REV__nc|ENSG00000001036|Q9BTY2-2|FUCA2;REV__ENSG00000143126|ENST00000271332|CELSR2;ENSG00000143126|ENST00000271332|CELSR2;REV__nc|ENSG00000155093|Q92932-2|PTPRN2 nc|ENSG00000185033|Q9NPR2-2|SEMA4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.40185546875 2 559.401579 1116.7886 NaN NaN NaN NaN NaN NaN NaN 100.51 1 100.57 100.07 101.07 0.059723 0 0 0 1.002 1 54543 54543 0 0 1 24851 5480;10152;12734;12355;3343 16001 16057 28352 28352 0.2348814755530384 PPLLLLLLLLL 11 Unmodified _PPLLLLLLLLL_ 0 0 0 nc|ENSG00000185033|Q9NPR2-2|SEMA4B;ENSG00000185033|ENST00000411539|SEMA4B;SEMA4B|p.N175Mfs*161|1|0.16|ENSG00000185033|chr15:90221007-90221008|-/GGACGAGAAGGGGATGTCCA|frameshift_variant;ENSG00000134917|ENST00000257359|ADAMTS8;ENSG00000143126|ENST00000271332|CELSR2 nc|ENSG00000185033|Q9NPR2-2|SEMA4B;REV__nc|ENSG00000001036|Q9BTY2-2|FUCA2;REV__ENSG00000143126|ENST00000271332|CELSR2;ENSG00000143126|ENST00000271332|CELSR2;REV__nc|ENSG00000155093|Q92932-2|PTPRN2 nc|ENSG00000185033|Q9NPR2-2|SEMA4B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 615.9437866210938 2 615.943611 1229.87267 NaN NaN NaN NaN NaN NaN NaN 1.1342 1 1.4384 0.93835 1.9384 0.30411 0 0 0 1.0082 1 519 519 0 0 1 24852 5480;10152;12734;12355;3343 16002 16058 28353 28353 0.26692678652193536 PPLLLLLLLLL 11 Unmodified _PPLLLLLLLLL_ 0 0 0 nc|ENSG00000185033|Q9NPR2-2|SEMA4B;ENSG00000185033|ENST00000411539|SEMA4B;SEMA4B|p.N175Mfs*161|1|0.16|ENSG00000185033|chr15:90221007-90221008|-/GGACGAGAAGGGGATGTCCA|frameshift_variant;ENSG00000134917|ENST00000257359|ADAMTS8;ENSG00000143126|ENST00000271332|CELSR2 nc|ENSG00000185033|Q9NPR2-2|SEMA4B;REV__nc|ENSG00000001036|Q9BTY2-2|FUCA2;REV__ENSG00000143126|ENST00000271332|CELSR2;ENSG00000143126|ENST00000271332|CELSR2;REV__nc|ENSG00000155093|Q92932-2|PTPRN2 nc|ENSG00000185033|Q9NPR2-2|SEMA4B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 615.9441528320312 2 615.943611 1229.87267 NaN NaN NaN NaN NaN NaN NaN 0.63543 1 1.2568 0.75685 1.7568 0.62142 0 0 0 1.0082 1 290 290 0 0 1 24853 5480;10152;12734;12355;3343 16002 16058 28354 28354 0.26692678652193536 PPLLSKTL 8 Unmodified _PPLLSKTL_ 0 0 0 ENSG00000269743|ENST00000594199|SLC25A53 ENSG00000269743|ENST00000594199|SLC25A53 ENSG00000269743|ENST00000594199|SLC25A53 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.78131103515625 2 434.778754 867.542954 3.0125 0.0013098 0.19438 8.4511E-05 3.2069 0.0013943 434.78008068772994 37.286 1.129 37.547 36.994 38.123 0.26083 84 36 4 0 0 0 0.7471 1 16928 16928 0.79363 0 1 692050 24854 6330 16003 16059 28355 28355 0.10388447425293634 PPLLVVPRA 9 Unmodified _PPLLVVPRA_ 0 0 0 REV__ENSG00000139865|ENST00000553443|TTC6 REV__ENSG00000139865|ENST00000553443|TTC6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 321.22271728515625 3 321.211289 960.612037 NaN NaN NaN NaN NaN NaN NaN 56.573 1 57.241 56.741 57.741 0.66829 0 0 0 0.90699 1 25882 25882 0.96228 0.56156 1 + 24855 12222 16004 16060 28356 28356 0.130155314448416 PPLQVPHRGER 11 Unmodified _PPLQVPHRGER_ 0 0 0 ENST00000292614.9_1_7:102113942-102114050:-|nuORF ENST00000292614.9_1_7:102113942-102114050:-|nuORF ENST00000292614.9_1_7:102113942-102114050:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.3275146484375 2 643.359828 1284.7051 NaN NaN NaN NaN NaN NaN NaN 54.64 1 54.64 54.14 55.14 0 0 0 0 1.0038 1 25079 25079 5.7319 0 1 24856 6740 16005 16061 28357 28357 0.07413804160114523 PPLRLKMRKF 10 Unmodified _PPLRLKMRKF_ 0 0 0 ENST00000267294.4_1_13:100617617-100617761:-|nuORF ENST00000267294.4_1_13:100617617-100617761:-|nuORF ENST00000267294.4_1_13:100617617-100617761:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 643.4015502929688 2 643.39991 1284.78527 NaN NaN NaN NaN NaN NaN NaN 56.021 1 56.286 55.786 56.786 0.26543 0 0 0 1.0015 1 25622 25622 0.45834 0.057624 1 24857 6632 16006 16062 28358 28358 0.15426574229627477 PPLSLTARL 9 Unmodified _PPLSLTARL_ 0 0 0 REV__ENST00000589097.5_1_19:2236362-2236647:-|nuORF REV__ENST00000589097.5_1_19:2236362-2236647:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.202880859375 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 25.348 1 25.616 25.116 26.116 0.26777 0 0 0 0.91014 1 11502 11502 1.0715 0.10919 1 + 24858 17566 16007 16063 28359 28359 0.10158637202562204 PPLYWYTG 8 Unmodified _PPLYWYTG_ 0 0 0 REV__ENST00000530992.1_1_17:32364642-32365872:-|nuORF REV__ENST00000530992.1_1_17:32364642-32365872:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.7459716796875 2 498.744911 995.475269 3.6615 0.0018262 -0.79056 -0.00039429 2.871 0.0014319 498.74390891393796 90.962 0.40112 91.214 91.022 91.423 0.25163 55 22 3 0 0 0 0.74071 1 41841 41841 2.5775 0.73324 1 1355900 + 24859 12485 16008 16064 28360 28360 -0.02265002505521352 PPLYWYTG 8 Unmodified _PPLYWYTG_ 0 0 0 REV__ENST00000530992.1_1_17:32364642-32365872:-|nuORF REV__ENST00000530992.1_1_17:32364642-32365872:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.7453918457031 2 498.744911 995.475269 3.4002 0.0016958 -0.68024 -0.00033926 2.72 0.0013566 498.74382441374553 90.557 0.37944 91.229 91.036 91.415 0.67271 44 17 3 0 0 0 0.74071 2 41648 41648;41703 2.5775 0.27475 1 1801700 + 24860 12485 16008 16064 28361;28362 28361 -0.02265002505521352 PPLYWYTG 8 Unmodified _PPLYWYTG_ 0 0 0 REV__ENST00000530992.1_1_17:32364642-32365872:-|nuORF REV__ENST00000530992.1_1_17:32364642-32365872:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 498.744911 995.475269 3.6615 0.0018262 -0.79056 -0.00039429 2.871 0.0014319 498.74390891393796 90.962 0.40112 91.214 91.022 91.423 0.25163 -0.0076351 -4.9178E-05 NaN 2.5775 55 22 3 NaN NaN NaN NaN 0 NaN NaN 0 1355900 + 24861 12485 16008 16064 -0.02265002505521352 PPLYWYTG 8 Unmodified _PPLYWYTG_ 0 0 0 REV__ENST00000530992.1_1_17:32364642-32365872:-|nuORF REV__ENST00000530992.1_1_17:32364642-32365872:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 498.744911 995.475269 3.4002 0.0016958 -0.68024 -0.00033926 2.72 0.0013566 498.74382441374553 90.557 0.37944 91.229 91.036 91.415 0.67271 0.0076351 6.0869E-05 NaN 2.5775 44 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1801700 + 24862 12485 16008 16064 -0.02265002505521352 PPMLIELL 8 Unmodified _PPMLIELL_ 0 0 0 REV__ENST00000518561.5_1_12:50821599-50821632:+|nuORF REV__ENST00000518561.5_1_12:50821599-50821632:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 309.1859436035156 3 309.185752 924.535426 NaN NaN NaN NaN NaN NaN NaN 34.459 1 34.459 33.959 34.959 0 0 0 0 0.99035 1 15621 15621 3.9444 0 1 + 24863 17029 16009 16065 28363 28363 0.0701397183336212 PPNPQPTQTQP 11 Unmodified _PPNPQPTQTQP_ 0 0 0 REV__nc|ENSG00000141867|O60885-2|BRD4 REV__nc|ENSG00000141867|O60885-2|BRD4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.8031616210938 2 602.801477 1203.5884 3.5261 0.0021255 -0.49053 -0.00029569 3.0355 0.0018298 602.801609719208 49.694 0.25339 50.517 50.382 50.636 0.82285 21 14 2 0 0 0 0.77056 1 22665 22665 8.1555 0 1 700990 + 24864 9982 16010 16066 28364 28364 -0.005249788503078889 PPPAEEEEDE 10 Unmodified _PPPAEEEEDE_ 0 0 0 ENSG00000143384|ENST00000369026|MCL1;nc|ENSG00000143384|Q07820-2|MCL1 ENSG00000143384|ENST00000369026|MCL1 ENSG00000143384|ENST00000369026|MCL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.15704345703125 3 381.155903 1140.44588 2.621 0.00099901 0.62917 0.00023981 3.2502 0.0012388 381.1560959076474 18.081 0.59875 18.383 18.065 18.663 0.30159 182 61 4 0 0 0 0.76575 2 8225 8144;8225 5.7834 0.26742 1 5140600 24865 3363 16011 16067 28365;28366 28366 -0.11872656103014378 PPPAVSQLAQL 11 Unmodified _PPPAVSQLAQL_ 0 0 0 REV__ENST00000295958.9_2_4:39640537-39640639:-|nuORF REV__ENST00000295958.9_2_4:39640537-39640639:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.21685791015625 3 374.21688 1119.62881 NaN NaN NaN NaN NaN NaN NaN 12.445 1 13.088 12.588 13.588 0.64272 0 0 0 1.0041 1 5577 5577 5.4027 0.10583 1 + 24866 15145 16012 16068 28367 28367 0.07377987540121467 PPPGGARR 8 Unmodified _PPPGGARR_ 0 0 0 ENST00000497920.1_1_2:97215573-97218047:+|nuORF ENST00000497920.1_1_2:97215573-97218047:+|nuORF ENST00000497920.1_1_2:97215573-97218047:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.23406982421875 2 404.232836 806.45112 2.1084 0.0008523 -0.35077 -0.00014179 1.7577 0.00071051 404.2326736460331 78.984 0.1861 78.984 78.875 79.061 0 23 14 2 0 0 0 0.7471 1 38908 38908 0.79363 0 1 3488400 24867 8458 16013 16069 28368 28368 0.04015201851461825 PPPGGARR 8 Unmodified _PPPGGARR_ 0 0 0 ENST00000497920.1_1_2:97215573-97218047:+|nuORF ENST00000497920.1_1_2:97215573-97218047:+|nuORF ENST00000497920.1_1_2:97215573-97218047:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 404.232836 806.45112 2.8341 0.0011456 0.0020006 8.0869E-07 2.8361 0.0011464 404.2328898320829 78.031 0.55634 78.693 78.385 78.941 0.66198 -0.10749 5.2348E-05 NaN 0.79363 77 33 4 NaN NaN NaN NaN 0 NaN NaN 0 5101600 24868 8458 16013 16069 0.04015201851461825 PPPGHPEVTL 10 Unmodified _PPPGHPEVTL_ 0 0 0 ENSG00000238083|ENST00000576629|LRRC37A2;ENSG00000176681|ENST00000320254|LRRC37A;ENSG00000176809|ENST00000584306|LRRC37A3 ENSG00000238083|ENST00000576629|LRRC37A2 ENSG00000238083|ENST00000576629|LRRC37A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.5233459472656 3 348.522192 1042.54475 2.3283 0.00081146 0.69275 0.00024144 3.021 0.0010529 348.52240143226584 17.792 0.51458 18.093 17.771 18.285 0.30158 91 39 3 0 0 0 0.88949 1 8032 8032 4.1895 0.24511 1 397900 24869 5084 16014 16070 28369 28369 0.025174564432290936 PPPGRGPR 8 Unmodified _PPPGRGPR_ 0 0 0 ENST00000550078.2_2_1:203764919-203765303:+|nuORF ENST00000550078.2_2_1:203764919-203765303:+|nuORF ENST00000550078.2_2_1:203764919-203765303:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 417.2413635253906 2 417.240661 832.46677 NaN NaN NaN NaN NaN NaN NaN 93.894 1 94.525 94.025 95.025 0.63115 0 0 0 0.99035 1 43187 43187 0.69038 0 1 24870 8865 16015 16071 28370 28370 0.043834883685121895 PPPLFLAPPG 10 Unmodified _PPPLFLAPPG_ 0 0 0 REV__ENST00000555748.5_2_15:93162688-93198569:-|nuORF REV__ENST00000555748.5_2_15:93162688-93198569:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.2740478515625 2 503.292028 1004.5695 3.3547 0.0016884 -0.16084 -8.0948E-05 3.1938 0.0016074 503.2920136269185 48.76 0.18801 49.022 48.955 49.143 0.26209 13 7 2 0 0 0 0.12676 1 22326 22326 7.9102 7.9102 1 569940 + 24871 17321 16016 16072 28371 28371 0.06740136316591361 PPPLFLAPPG 10 Unmodified _PPPLFLAPPG_ 0 0 0 REV__ENST00000555748.5_2_15:93162688-93198569:-|nuORF REV__ENST00000555748.5_2_15:93162688-93198569:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.2737731933594 2 503.292028 1004.5695 3.3537 0.0016879 0.61969 0.00031188 3.9733 0.0019998 503.2923606820391 48.25 0.28242 48.904 48.704 48.987 0.65356 17 10 2 0 0 0 0.12676 1 22074 22074 12.532 8.2023 1 244790 + 24872 17321 16016 16072 28372 28372 0.06740136316591361 PPPLRQPIQWP 11 Unmodified _PPPLRQPIQWP_ 0 0 0 REV__ENSG00000132464|ENST00000396073|ENAM REV__ENSG00000132464|ENST00000396073|ENAM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 664.8753662109375 2 664.877322 1327.74009 NaN NaN NaN NaN NaN NaN NaN 55.911 1 55.911 55.411 56.411 0 0 0 0 1.0057 1 25727 25727 3.2813 0.78282 1 + 24873 11891 16017 16073 28373 28373 0.08933046968058989 PPPLSPQQP 9 Unmodified _PPPLSPQQP_ 0 0 0 REV__ENSG00000124313|ENST00000642864|IQSEC2 REV__ENSG00000124313|ENST00000642864|IQSEC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.7626037597656 2 480.761092 959.507631 3.2201 0.0015481 0.93129 0.00044773 4.1514 0.0019958 480.761150788893 22.157 0.34061 22.157 21.969 22.309 0 63 25 3 0 0 0 0.025323 2 9936 9887;9936 61.357 21.4 1 711230 + 24874 11651 16018 16074 28374;28375 28375 0.026257848974637454 PPPPAKAPDPG 11 Unmodified _PPPPAKAPDPG_ 0 0 0 ENST00000520747.1_1_5:141021067-141021355:-|nuORF;nc|ENSG00000197948|Q86WN1-2|FCHSD1;ENSG00000197948|ENST00000435817|FCHSD1 ENST00000520747.1_1_5:141021067-141021355:-|nuORF ENST00000520747.1_1_5:141021067-141021355:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.5230712890625 3 348.522192 1042.54475 2.3283 0.00081146 0.69275 0.00024144 3.021 0.0010529 348.52240143226584 17.792 0.51458 18.093 17.771 18.285 0.30158 91 39 3 0 0 0 0.88547 1 7986 7986 3.0723 0.077021 1 397900 24875 5853 16019 16075 28376 28376 0.025174564432063562 PPPPPGRR 8 Unmodified _PPPPPGRR_ 0 0 0 nc|ENSG00000171475|Q8TF74-2|WIPF2;ENSG00000171475|ENST00000323571|WIPF2;ENST00000494757.5_1_17:38375603-38434474:+|nuORF REV__nc|ENSG00000165119|P61978-3|HNRNPK REV__nc|ENSG00000165119|P61978-3|HNRNPK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2567138671875 2 437.256311 872.49807 NaN NaN NaN NaN NaN NaN NaN 43.133 1 43.781 43.281 44.281 0.64872 0 0 0 0.99035 1 19765 19765 2.5775 0 1 24876 13138 16020 16076 28377 28377 0.05672061402606232 PPPPPIGASGP 11 Unmodified _PPPPPIGASGP_ 0 0 0 REV__DIAPH1|p.A1052Lfs*8|1|0.21|ENSG00000131504|chr5:141527693-141527693|A/-|frameshift_variant REV__DIAPH1|p.A1052Lfs*8|1|0.21|ENSG00000131504|chr5:141527693-141527693|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.7695617675781 2 493.768917 985.523281 NaN NaN NaN NaN NaN NaN NaN 92.376 1 92.459 91.959 92.959 0.082848 0 0 0 0.97175 1 48119 48119 9.3831 3.1773 1 + 24877 10131 16021 16077 28378 28378 0.0299407141451411 PPPPPPSQQV 10 Unmodified _PPPPPPSQQV_ 0 0 0 ENSG00000139218|ENST00000369367|SCAF11;nc|ENSG00000139218|Q99590-2|SCAF11 ENSG00000139218|ENST00000369367|SCAF11 ENSG00000139218|ENST00000369367|SCAF11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.5233154296875 3 348.522192 1042.54475 2.3283 0.00081146 0.69275 0.00024144 3.021 0.0010529 348.52240143226584 17.792 0.51458 18.093 17.771 18.285 0.30158 91 39 3 0 0 0 0.83816 1 8073 8073 6.6304 0.89852 1 397900 24878 3139 16022 16078 28379 28379 0.025174564432290936 PPPPSHVP 8 Unmodified _PPPPSHVP_ 0 0 0 ENSG00000185085|ENST00000330574|INTS5 ENSG00000185085|ENST00000330574|INTS5;REV__nc|ENSG00000149294|P13591-5|NCAM1 REV__nc|ENSG00000149294|P13591-5|NCAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 827.4414672851562 1 827.441015 826.433738 4.1582 0.0034406 -1.2255 -0.001014 2.9326 0.0024266 827.4398725012513 105.44 0.14823 106.04 105.95 106.1 0.59969 11 7 2 0 0 0 0.73686 1 48687 48687 2.8892 0 1 3444100 24879 5488;17980 16023 16079 28380 28380 0.013578615257983984 PPPPVSGVLI 10 Unmodified _PPPPVSGVLI_ 0 0 0 REV__ENST00000591224.1_1_19:46181025-46181577:+|nuORF REV__ENST00000591224.1_1_19:46181025-46181577:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.2986755371094 2 488.29731 974.580068 2.9427 0.0014369 -0.24471 -0.00011949 2.698 0.0013174 488.29699583883166 63.528 0.29417 63.776 63.638 63.932 0.24803 25 15 3 0 0 0 0.19461 1 29091 29091 39.957 1.9833 1 743710 + 24880 17581 16024 16080 28381 28381 0.09176118971060987 PPPPVSGVLI 10 Unmodified _PPPPVSGVLI_ 0 0 0 REV__ENST00000591224.1_1_19:46181025-46181577:+|nuORF REV__ENST00000591224.1_1_19:46181025-46181577:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 488.29731 974.580068 3.0605 0.0014944 0.9542 0.00046593 4.0147 0.0019604 488.29807911927884 62.955 0.24498 63.613 63.464 63.709 0.65808 -0.081139 0.00080762 NaN 39.957 18 13 2 NaN NaN NaN NaN 0 NaN NaN 0 818480 + 24881 17581 16024 16080 0.09176118971060987 PPPRLCFRL 9 Unmodified _PPPRLCFRL_ 0 0 0 ENST00000449537.1_1_7:26438397-26438930:+|nuORF ENST00000449537.1_1_7:26438397-26438930:+|nuORF ENST00000449537.1_1_7:26438397-26438930:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.8809814453125 3 366.879545 1097.6168 NaN NaN NaN NaN NaN NaN NaN 16.547 1 16.851 16.351 17.351 0.30438 0 0 0 0.90511 1 7490 7490 1.1933 0.41681 1 24882 8001 16025 16081 28382 28382 0.07190092315954644 PPPTLVITRAA 11 Unmodified _PPPTLVITRAA_ 0 0 0 nc|ENSG00000136826|O43474-5|KLF4 nc|ENSG00000136826|O43474-5|KLF4 nc|ENSG00000136826|O43474-5|KLF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.23358154296875 3 379.232641 1134.67609 2.3265 0.00088227 0.63478 0.00024073 2.9612 0.001123 379.23282288313385 25.667 0.25601 26.43 26.295 26.551 0.76357 37 16 3 0 0 0 0.74281 1 11544 11544 4.7159 0.59929 1 694770 24883 9658 16026 16082 28383 28383 0.11414266811129892 PPPTLVITRAA 11 Unmodified _PPPTLVITRAA_ 0 0 0 nc|ENSG00000136826|O43474-5|KLF4 nc|ENSG00000136826|O43474-5|KLF4 nc|ENSG00000136826|O43474-5|KLF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.23358154296875 3 379.232641 1134.67609 2.8128 0.0010667 -0.16617 -6.3017E-05 2.6466 0.0010037 379.2325636809597 26.415 0.27434 26.68 26.529 26.804 0.26489 47 21 3 0 0 0 0.66009 1 12019 12019 7.0371 2.9205 1 888320 24884 9658 16026 16082 28384 28384 0.11414266811129892 PPPTLVITRAA 11 Unmodified _PPPTLVITRAA_ 0 0 0 nc|ENSG00000136826|O43474-5|KLF4 nc|ENSG00000136826|O43474-5|KLF4 nc|ENSG00000136826|O43474-5|KLF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.233642578125 3 379.232641 1134.67609 2.6224 0.00099448 0.42454 0.000161 3.0469 0.0011555 379.2328367427103 26.053 0.25668 26.678 26.56 26.817 0.62505 39 18 3 0 0 0 0.66009 2 11976 11927;11976 7.0371 0 1 760100 24885 9658 16026 16082 28385;28386 28386 0.11414266811129892 PPPYNWRRV 9 Unmodified _PPPYNWRRV_ 0 0 0 REV__nc|ENSG00000121904|Q7Z408-2|CSMD2 REV__nc|ENSG00000121904|Q7Z408-2|CSMD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.54974365234375 3 395.548964 1183.62506 2.7878 0.0011027 -1.0917 -0.00043183 1.6961 0.00067089 395.54853038188963 25.923 0.28098 26.549 26.419 26.7 0.62505 62 22 4 0 0 0 0.95612 1 11943 11943 2.7352 0.82882 1 1482200 + 24886 11569 16027 16083 28387 28387 0.04059362556904489 PPQLKLKES 9 Unmodified _PPQLKLKES_ 0 0 0 ENST00000389266.7_1_7:30673494-30673641:+|nuORF ENST00000389266.7_1_7:30673494-30673641:+|nuORF ENST00000389266.7_1_7:30673494-30673641:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 347.21051025390625 3 347.209725 1038.60735 2.3031 0.00079965 -0.81485 -0.00028292 1.4882 0.00051672 347.5438674123955 15.523 0.2435 15.734 15.621 15.864 0.21108 44 33 2 0 0 0 0.11434 1 6886 6886 0.26902 0 1 45524 24887 7500 16028 16084 28388 28388 0.08958602511415847 PPQLVVWFF 9 Unmodified _PPQLVVWFF_ 0 0 0 REV__ENST00000219235.4_1_16:57399064-57399196:+|nuORF REV__ENST00000219235.4_1_16:57399064-57399196:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 377.8783874511719 3 378.211177 1131.6117 NaN NaN NaN NaN NaN NaN NaN 22.758 1 23.345 22.845 23.845 0.58739 0 0 0 0.89509 1 10129 10129 2.7352 0.82882 1 + 24888 14817 16029 16085 28389 28389 0.05116111724987604 PPQPKHKVRRQ 11 Unmodified _PPQPKHKVRRQ_ 0 0 0 REV__ENSG00000163873|ENST00000373091|GRIK3 REV__ENSG00000163873|ENST00000373091|GRIK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.9116821289062 2 685.910019 1369.80549 4.1545 0.0028496 -1.678 -0.001151 2.4765 0.0016987 685.9086674867965 94.938 0.94016 95.555 94.962 95.902 0.61736 106 52 5 0 0 0 0.89309 1 43652 43652 2.7352 1.5419 1 3449400 + 24889 13038 16030 16086 28390 28390 0.1353746121376389 PPQPKHKVRRQ 11 Unmodified _PPQPKHKVRRQ_ 0 0 0 REV__ENSG00000163873|ENST00000373091|GRIK3 REV__ENSG00000163873|ENST00000373091|GRIK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.9102172851562 2 685.910019 1369.80549 4.1579 0.0028519 -1.4602 -0.0010016 2.6977 0.0018504 685.9086240986137 95.443 0.52081 96.051 95.857 96.378 0.60769 50 27 3 0 0 0 0.91111 1 43876 43876 1.1933 0.66858 1 650940 + 24890 13038 16030 16086 28391 28391 0.1353746121376389 PPRKTERR 8 Unmodified _PPRKTERR_ 0 0 0 REV__ENST00000563783.5_1_16:89557355-89557661:+|nuORF REV__ENST00000563783.5_1_16:89557355-89557661:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 347.21051025390625 3 347.20883 1038.60466 NaN NaN NaN NaN NaN NaN NaN 15.607 1 15.818 15.318 16.318 0.21108 0 0 0 0.99035 1 6886 6886 0.45834 0 1 + 24891 17395 16031 16087 28392 28392 0.08690191897130717 PPRQERFLF 9 Unmodified _PPRQERFLF_ 0 0 0 REV__ENST00000520446.5_1_8:133637625-133687739:-|nuORF REV__ENST00000520446.5_1_8:133637625-133687739:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 595.3265991210938 2 595.327465 1188.64038 NaN NaN NaN NaN NaN NaN NaN 17.167 1 17.167 16.667 17.667 0 0 0 0 0.91206 1 7622 7622 0.6015 0 1 + 24892 17046 16032 16088 28393 28393 0.05360229354118928 PPRRSPSVR 9 Unmodified _PPRRSPSVR_ 0 0 0 ENST00000442166.2_1_7:100198349-100199248:-|nuORF ENST00000442166.2_1_7:100198349-100199248:-|nuORF ENST00000442166.2_1_7:100198349-100199248:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.874267578125 3 351.20883 1050.60466 NaN NaN NaN NaN NaN NaN NaN 21.474 1 22.121 21.621 22.621 0.64714 0 0 0 0.75242 1 9745 9745 10.8 4.0763 1 24893 7943 16033 16089 28394 28394 0.08138191897114666 PPSPSMAL 8 Unmodified _PPSPSMAL_ 0 0 0 REV__nc|ENSG00000124191|Q96NM4-3|TOX2 REV__nc|ENSG00000124191|Q96NM4-3|TOX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 400.20599365234375 2 400.204564 798.394575 2.3442 0.00093815 0.055301 2.2132E-05 2.3995 0.00096029 400.20454690222556 58.405 0.37062 59.164 58.979 59.349 0.75894 52 30 2 0 0 0 0.52517 1 26842 26842 19.439 0 1 1458800 + 24894 11640 16034 16090 28395 28395 -0.012686068200764566 PPTIKNFLGTR 11 Unmodified _PPTIKNFLGTR_ 0 0 0 REV__ENST00000562994.5_2_16:86580251-86585743:-|nuORF REV__ENST00000562994.5_2_16:86580251-86585743:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 415.24462890625 3 415.243429 1242.70846 2.9261 0.001215 -0.49714 -0.00020643 2.4289 0.0010086 415.2431724897774 36.011 0.56021 36.268 35.942 36.502 0.25768 59 24 3 0 0 0 0.84832 1 16366 16366 4.7159 1.1289 1 889780 + 24895 10963 16035 16091 28396 28396 0.09681054214138385 PPTPRKVG 8 Unmodified _PPTPRKVG_ 0 0 0 nc|ENSG00000130024|Q8WUB8-3|PHF10;nc|ENSG00000130024|Q8WUB8-2|PHF10;ENSG00000130024|ENST00000339209|PHF10 nc|ENSG00000130024|Q8WUB8-3|PHF10 nc|ENSG00000130024|Q8WUB8-3|PHF10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 426.2598876953125 2 426.25852 850.502486 2.6965 0.0011494 0.12548 5.3486E-05 2.822 0.0012029 426.258643025563 15.736 0.76536 16.042 15.485 16.25 0.306 124 83 2 0 0 0 0.7471 1 7060 7060 0.79363 0 1 58997 24896 2570 16036 16092 28397 28397 0.07125525825529166 PPTPRKVG 8 Unmodified _PPTPRKVG_ 0 0 0 nc|ENSG00000130024|Q8WUB8-3|PHF10;nc|ENSG00000130024|Q8WUB8-2|PHF10;ENSG00000130024|ENST00000339209|PHF10 nc|ENSG00000130024|Q8WUB8-3|PHF10 nc|ENSG00000130024|Q8WUB8-3|PHF10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 426.2608337402344 2 426.25852 850.502486 3.0825 0.0013139 0.74658 0.00031824 3.8291 0.0016322 426.2588751431989 15.638 0.63356 16.292 15.955 16.589 0.65356 137 85 2 0 0 0 0.7471 1 7035 7035 0.79363 0 1 52195 24897 2570 16036 16092 28398 28398 0.07125525825529166 PPTRRRRRRH 10 Unmodified _PPTRRRRRRH_ 0 0 0 nc|ENSG00000171862|P60484-2|PTEN nc|ENSG00000171862|P60484-2|PTEN nc|ENSG00000171862|P60484-2|PTEN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 694.1358032226562 2 694.421951 1386.82935 4.1567 0.0028865 0.79401 0.00055138 4.9507 0.0034379 694.4231097071753 95.444 0.49836 96.052 95.857 96.356 0.60769 37 26 2 0 0 0 0.94217 1 44000 44000 0.45834 0.057624 1 382650 24898 9754 16037 16093 28399 28399 0.15140739490811939 PPVGLKTL 8 Unmodified _PPVGLKTL_ 0 0 0 ENSG00000205835|ENST00000442080|GMNC ENSG00000205835|ENST00000442080|GMNC ENSG00000205835|ENST00000442080|GMNC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 412.7680358886719 2 412.765646 823.516739 2.8807 0.001189 1.0496 0.00043322 3.9302 0.0016223 412.7669317532171 31.712 0.46913 31.712 31.567 32.036 0 65 43 2 0 0 0 0.7471 1 14365 14365 0.79363 0 1 1217600 24899 6058 16038 16094 28400 28400 0.09792178253815109 PPVPTRPRSIF 11 Unmodified _PPVPTRPRSIF_ 0 0 0 ENST00000406539.6_1_12:123459581-123460450:+|nuORF;ENST00000535970.5_1_12:123459581-123462874:+|nuORF;ENST00000545056.5_1_12:123459581-123461448:+|nuORF;ENST00000538755.5_1_12:123459581-123462595:+|nuORF;ENST00000397389.6_1_12:123459581-123461448:+|nuORF;ENST00000545612.5_1_12:123459581-123463082:+|nuORF;ENST00000538628.5_1_12:123459581-123461705:+|nuORF ENST00000406539.6_1_12:123459581-123460450:+|nuORF ENST00000406539.6_1_12:123459581-123460450:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.9055480957031 3 422.915423 1265.72444 2.3586 0.00099749 -2.5594 -0.0010824 -0.20082 -8.493E-05 422.9144617549785 33.335 0.14137 34.123 34.018 34.16 0.78795 14 8 2 0 0 0 0.13295 1 15038 15038 3.0723 0.98626 1 285840 24900 7579 16039 16095 28401 28401 0.10220760451034039 PPWHSCAQP 9 Unmodified _PPWHSCAQP_ 0 0 0 REV__ENST00000526177.5_1_11:75155472-75160957:-|nuORF REV__ENST00000526177.5_1_11:75155472-75160957:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 511.7306823730469 2 511.729269 1021.44399 NaN NaN NaN NaN NaN NaN NaN 12.3 1 12.937 12.437 13.437 0.63746 0 0 0 0.84134 1 5486 5486 7.9102 0 1 + 24901 17088 16040 16096 28402 28402 -0.06587898811278592 PPWPLFPLL 9 Unmodified _PPWPLFPLL_ 0 0 0 ELF3|p.C5Wfs*38|1|0.12|ENSG00000163435|chr1:202011151-202011151|T/-|frameshift_variant ELF3|p.C5Wfs*38|1|0.12|ENSG00000163435|chr1:202011151-202011151|T/-|frameshift_variant ELF3|p.C5Wfs*38|1|0.12|ENSG00000163435|chr1:202011151-202011151|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.3167114257812 2 540.318046 1078.62154 3.1578 0.0017062 -1.0078 -0.00054454 2.15 0.0011617 540.3168124889457 83.245 0.3043 83.492 83.336 83.64 0.24722 16 14 2 0 0 0 0.37584 1 38327 38327 14.582 2.0501 1 337380 24902 293 16041 16097 28403 28403 0.08537299730346604 PPYFIWEREMF 11 Unmodified _PPYFIWEREMF_ 0 0 0 ENST00000360338.3_1_19:57804034-57804283:+|nuORF ENST00000360338.3_1_19:57804034-57804283:+|nuORF ENST00000360338.3_1_19:57804034-57804283:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.575439453125 3 505.576079 1513.70641 NaN NaN NaN NaN NaN NaN NaN 31.664 1 32.453 31.953 32.953 0.78879 0 0 0 1.008 1 14303 14303 0.094841 0 1 24903 7211 16042 16098 28404 28404 -0.02989742586032662 PQALKFHRLR 10 Unmodified _PQALKFHRLR_ 0 0 0 REV__ENSG00000165757|ENST00000375377|JCAD REV__ENSG00000165757|ENST00000375377|JCAD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.59320068359375 3 422.591163 1264.75166 NaN NaN NaN NaN NaN NaN NaN 65.565 1 65.814 65.314 66.314 0.24848 0 0 0 0.99812 1 30037 30037 1.5923 0 1 + 24904 13186 16043 16099 28405 28405 0.12987288782073847 PQALKFHRLR 10 Unmodified _PQALKFHRLR_ 0 0 0 REV__ENSG00000165757|ENST00000375377|JCAD REV__ENSG00000165757|ENST00000375377|JCAD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.5941162109375 3 422.591163 1264.75166 NaN NaN NaN NaN NaN NaN NaN 50.733 1 51.393 50.893 51.893 0.65956 0 0 0 1.0003 1 23197 23197 0.62683 0.21856 1 + 24905 13186 16043 16099 28406 28406 0.12987288782073847 PQATHITYI 9 Unmodified _PQATHITYI_ 0 0 0 REV__nc|ENSG00000176160|Q4G112-2|HSF5 REV__nc|ENSG00000176160|Q4G112-2|HSF5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.522705078125 3 348.522192 1042.54475 2.4344 0.00084845 0.14054 4.898E-05 2.575 0.00089743 348.5221893446262 17.566 0.20322 18.227 18.161 18.364 0.66072 46 26 2 0 0 0 0.92418 1 7959 7959 5.2969 0.39987 1 899540 + 24906 13692 16044 16100 28407 28407 0.025174564432063562 PQCRVGVAR 9 Unmodified _PQCRVGVAR_ 0 0 0 REV__ENST00000368932.5_1_6:110501639-110501768:+|nuORF REV__ENST00000368932.5_1_6:110501639-110501768:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 329.1847229003906 3 329.183516 984.528718 NaN NaN NaN NaN NaN NaN NaN 25.738 1 26.363 25.863 26.863 0.62505 0 0 0 0.91014 1 11799 11799 1.0715 0 1 + 24907 15698 16045 16101 28408 28408 0.03583471725346499 PQDPTVLV 8 Unmodified _PQDPTVLV_ 0 0 0 REV__ENSG00000173705|ENST00000309558|SUSD5 REV__ENSG00000173705|ENST00000309558|SUSD5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7437744140625 2 434.742368 867.470183 2.9283 0.0012731 0.25924 0.0001127 3.1876 0.0013858 434.7423869411344 54.292 0.29493 54.959 54.76 55.055 0.6665 24 16 2 0 0 0 0.49219 1 24854 24854 21.747 3.6117 1 1377100 + 24908 13609 16046 16102 28409 28409 0.0311469363185779 PQDQDDDEDD 10 Unmodified _PQDQDDDEDD_ 0 0 0 ENSG00000105642|ENST00000684775|KCNN1;nc|ENSG00000105642|Q92952-2|KCNN1 ENSG00000105642|ENST00000684775|KCNN1 ENSG00000105642|ENST00000684775|KCNN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 596.1992797851562 2 596.199644 1190.38473 NaN NaN NaN NaN NaN NaN NaN 74.887 1 75.145 74.645 75.645 0.25831 0 0 0 1.0015 1 34448 34448 0.40072 0 1 24909 1516 16047 16103 28410 28410 -0.20284212873093566 PQDQGPVG 8 Unmodified _PQDQGPVG_ 0 0 0 REV__ENST00000315251.10_1_3:53857337-53857781:-|nuORF REV__ENST00000315251.10_1_3:53857337-53857781:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.1945495605469 2 399.193042 796.371532 2.3621 0.00094294 0.62922 0.00025118 2.9913 0.0011941 399.1932588544676 32.828 0.28469 33.616 33.456 33.741 0.78795 28 19 2 0 0 0 0.47217 1 14832 14832 23.148 1.4018 1 344240 + 24910 15287 16048 16104 28411 28411 -0.034799096131791885 PQDQGPVG 8 Unmodified _PQDQGPVG_ 0 0 0 REV__ENST00000315251.10_1_3:53857337-53857781:-|nuORF REV__ENST00000315251.10_1_3:53857337-53857781:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 399.193042 796.371532 2.3621 0.00094294 0.62922 0.00025118 2.9913 0.0011941 399.1932588544676 32.828 0.28469 33.616 33.456 33.741 0.78795 0.014781 6.4939E-05 NaN 23.148 28 19 2 NaN NaN NaN NaN 0 NaN NaN 0 344240 + 24911 15287 16048 16104 -0.034799096131791885 PQDQGPVG 8 Unmodified _PQDQGPVG_ 0 0 0 REV__ENST00000315251.10_1_3:53857337-53857781:-|nuORF REV__ENST00000315251.10_1_3:53857337-53857781:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 399.193042 796.371532 2.8122 0.0011226 0.38994 0.00015566 3.2022 0.0012783 399.19328014019595 32.968 0.28869 33.586 33.407 33.696 0.61831 -0.014781 -0.00012609 NaN 23.148 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 219390 + 24912 15287 16048 16104 -0.034799096131791885 PQDRGCCWG 9 Unmodified _PQDRGCCWG_ 0 0 0 REV__ENST00000241041.7_1_11:45935474-45935997:-|nuORF REV__ENST00000241041.7_1_11:45935474-45935997:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.13897705078125 3 341.137466 1020.39057 NaN NaN NaN NaN NaN NaN NaN 63.881 1 64.129 63.629 64.629 0.24803 0 0 0 0.90699 1 29257 29257 0.96228 0 1 + 24913 14880 16049 16105 28412 28412 -0.1188101958543939 PQDYRWWWRNF 11 Unmodified _PQDYRWWWRNF_ 0 0 0 ENST00000479591.1_1_20:30749036-30753244:+|nuORF ENST00000479591.1_1_20:30749036-30753244:+|nuORF ENST00000479591.1_1_20:30749036-30753244:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 827.389404296875 2 827.389116 1652.76368 NaN NaN NaN NaN NaN NaN NaN 78.463 1 78.463 77.963 78.963 0 0 0 0 1.008 1 38565 38565 0.30703 0.30703 1 24914 8265 16050 16106 28413 28413 -0.03659139265437261 PQEKRKDRLL 10 Unmodified _PQEKRKDRLL_ 0 0 0 ENST00000244766.6_1_6:5998584-5998683:-|nuORF ENST00000244766.6_1_6:5998584-5998683:-|nuORF ENST00000244766.6_1_6:5998584-5998683:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.8845825195312 2 641.883136 1281.75172 4.2699 0.0027408 -1.0168 -0.00065269 3.2531 0.0020881 641.8823463323495 91.922 1.25 92.174 91.475 92.725 0.25253 214 60 4 0 0 0 0.94246 1 41999 41999 0.40072 0.40072 1 2749900 24915 6482 16051 16107 28414 28414 0.12211243991418996 PQFRRKFRVIR 11 Unmodified _PQFRRKFRVIR_ 0 0 0 nc|ENSG00000156795|Q96HA8-2|NTAQ1;ENST00000523551.1_1_8:124429070-124460295:+|nuORF;ENSG00000156795|ENST00000287387|NTAQ1 nc|ENSG00000156795|Q96HA8-2|NTAQ1 nc|ENSG00000156795|Q96HA8-2|NTAQ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 751.9639282226562 2 751.962586 1501.91062 NaN NaN NaN NaN NaN NaN NaN 64.328 1 64.985 64.485 65.485 0.65672 0 0 0 1.008 1 29490 29490 0.30703 0.30703 1 24916 3924 16052 16108 28415 28415 0.17974002410187495 PQGWVPTM 8 Unmodified _PQGWVPTM_ 0 0 0 ENST00000590168.5_1_17:74467240-74467462:-|nuORF ENST00000590168.5_1_17:74467240-74467462:-|nuORF ENST00000590168.5_1_17:74467240-74467462:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 458.22283935546875 2 458.223288 914.432024 2.5916 0.0011875 -0.10851 -4.9722E-05 2.4831 0.0011378 458.2233663401319 19.422 0.47728 19.72 19.574 20.052 0.29753 93 41 3 0 0 0 0.5438 1 8813 8813 18.135 3.5533 1 2816900 24917 9221 16053 16109 28416 28416 -0.028615155544684967 PQHIHLWEN 9 Unmodified _PQHIHLWEN_ 0 0 0 ENST00000262376.10_1_16:4931488-4931788:+|nuORF ENST00000262376.10_1_16:4931488-4931788:+|nuORF ENST00000262376.10_1_16:4931488-4931788:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.2952270507812 2 587.293622 1172.57269 3.7921 0.0022271 -0.18665 -0.00010962 3.6054 0.0021174 587.2928378872804 68.355 0.31705 68.608 68.424 68.741 0.25227 59 20 4 0 0 0 0.26277 1 31318 31318 19.257 0 1 4422400 24918 6575 16054 16110 28417 28417 -0.006692205766739789 PQHIPPFGH 9 Unmodified _PQHIPPFGH_ 0 0 0 REV__ENSG00000064835|ENST00000350375|POU1F1 REV__ENSG00000064835|ENST00000350375|POU1F1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.2915649414062 2 515.266876 1028.5192 3.3932 0.0017484 -0.055976 -2.8843E-05 3.3373 0.0017196 515.7681296813737 54.951 0.09922 55.617 55.558 55.657 0.6665 6 4 2 0 0 0 0.1111 1 25139 25139 3.9444 3.254 1 201990 + 24919 10419 16055 16111 28418 28418 0.00608026711461207 PQILKHFL 8 Unmodified _PQILKHFL_ 0 0 0 REV__ENST00000427635.6_1_10:69747892-69752485:-|nuORF REV__ENST00000427635.6_1_10:69747892-69752485:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.30810546875 2 498.30547 994.596387 NaN NaN NaN NaN NaN NaN NaN 76.811 1 77.067 76.567 77.567 0.25533 0 0 0 0.99035 1 35369 35369 5.7604 0 1 + 24920 12545 16056 16112 28419 28419 0.0988724492780193 PQIWRGHR 8 Unmodified _PQIWRGHR_ 0 0 0 REV__ENST00000264235.12_2_3:119812880-119813177:-|nuORF REV__ENST00000264235.12_2_3:119812880-119813177:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.2923583984375 2 525.291217 1048.56788 NaN NaN NaN NaN NaN NaN NaN 15.64 1 16.294 15.794 16.794 0.65356 0 0 0 0.99035 1 7045 7045 0.69038 0 1 + 24921 15014 16057 16113 28420 28420 0.04553940071218676 PQKFIYLLKKR 11 Unmodified _PQKFIYLLKKR_ 0 0 0 REV__chr1:7920923-7933162|462|16.29|0.77|4.41|-|2|TNFRSF9,TNFRSF9|1 REV__chr1:7920923-7933162|462|16.29|0.77|4.41|-|2|TNFRSF9,TNFRSF9|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 717.452880859375 2 717.453197 1432.89184 NaN NaN NaN NaN NaN NaN NaN 56.395 1 57.173 56.673 57.673 0.77786 0 0 0 1.008 1 25783 25783 0.30703 0 1 + 24922 10013 16058 16114 28421 28421 0.19271027995750956 PQKGGGAG 8 Unmodified _PQKGGGAG_ 0 0 0 ENSG00000006047|ENST00000007699|YBX2 ENSG00000006047|ENST00000007699|YBX2 ENSG00000006047|ENST00000007699|YBX2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.1776428222656 2 336.177195 670.339838 2.4386 0.0008198 -0.77626 -0.00026096 1.6623 0.00055884 336.17693655836956 82.432 0.63737 83.092 82.688 83.325 0.66019 65 37 2 0 0 0 0.14267 1 38033 38033 2.5775 0.27475 1 375750 24923 340 16059 16115 28422 28422 -0.008518575764696834 PQKHSHEIFR 10 Unmodified _PQKHSHEIFR_ 0 0 0 TTF1|p.D483Rfs*5|1|0.06|ENSG00000125482|chr9:132400183-132400184|-/ACCA|frameshift_variant;ENSG00000125482|ENST00000334270|TTF1 TTF1|p.D483Rfs*5|1|0.06|ENSG00000125482|chr9:132400183-132400184|-/ACCA|frameshift_variant TTF1|p.D483Rfs*5|1|0.06|ENSG00000125482|chr9:132400183-132400184|-/ACCA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 639.8407592773438 2 639.838728 1277.6629 NaN NaN NaN NaN NaN NaN NaN 29.058 1 29.058 28.558 29.558 0 0 0 0 0.99774 1 13111 13111 3.5965 0.60125 1 24924 2401 16060 16116 28423 28423 0.035178287517283024 PQKKVFAPFG 10 Unmodified _PQKKVFAPFG_ 0 0 0 REV__nc|ENSG00000165240|Q04656-5|ATP7A REV__nc|ENSG00000165240|Q04656-5|ATP7A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 373.528564453125 3 373.550082 1117.62842 2.9335 0.0010958 -0.99247 -0.00037074 1.941 0.00072506 373.54956151445583 12.859 0.10829 12.859 12.788 12.896 0 5 3 2 0 0 0 0.12676 1 5604 5604 6.1918 0 1 622050 + 24925 13148 16061 16117 28424 28424 0.07430612610937715 PQKKVFAPFG 10 Unmodified _PQKKVFAPFG_ 0 0 0 REV__nc|ENSG00000165240|Q04656-5|ATP7A REV__nc|ENSG00000165240|Q04656-5|ATP7A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 373.550082 1117.62842 2.0069 0.00074967 -1.012 -0.00037804 0.99486 0.00037163 373.5497882936829 12.592 0.087893 12.899 12.848 12.936 0.30727 -0.084646 4.0194E-05 NaN 6.1918 8 2 4 NaN NaN NaN NaN 0 NaN NaN 0 3261500 + 24926 13148 16061 16117 0.07430612610937715 PQKRRLLRRLL 11 Unmodified _PQKRRLLRRLL_ 0 0 0 ENSG00000278685|ENST00000615129|IQCA1L ENSG00000278685|ENST00000615129|IQCA1L ENSG00000278685|ENST00000615129|IQCA1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 724.9859619140625 2 724.986061 1447.95757 NaN NaN NaN NaN NaN NaN NaN 95.686 1 96.294 95.794 96.794 0.60769 0 0 0 1.008 1 44001 44001 0.30703 0.30703 1 24927 6362 16062 16118 28425 28425 0.25150861961355986 PQKYYWWFFQT 11 Unmodified _PQKYYWWFFQT_ 0 0 0 ENST00000561220.6_1_15:45434150-45457096:+|nuORF;nc|ENSG00000137857|Q9NRD9-2|DUOX1;ENSG00000137857|ENST00000389037|DUOX1 ENST00000561220.6_1_15:45434150-45457096:+|nuORF ENST00000561220.6_1_15:45434150-45457096:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.8140258789062 3 531.922355 1592.74524 NaN NaN NaN NaN NaN NaN NaN 72.317 1 72.576 72.076 73.076 0.25876 0 0 0 1.008 1 33196 33196 0.08335 0.010087 1 24928 3049 16063 16119 28426 28426 -0.027426939599990874 PQLLLLLLLLL 11 Unmodified _PQLLLLLLLLL_ 0 0 0 REV__SEMA4B|p.N175Mfs*161|1|0.16|ENSG00000185033|chr15:90221007-90221008|-/GGACGAGAAGGGGATGTCCA|frameshift_variant REV__SEMA4B|p.N175Mfs*161|1|0.16|ENSG00000185033|chr15:90221007-90221008|-/GGACGAGAAGGGGATGTCCA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 631.418701171875 2 631.446517 1260.87848 NaN NaN NaN NaN NaN NaN NaN 99.221 1 99.818 99.318 100.32 0.59748 0 0 0 1.0082 1 45864 45864 0 0 1 + 24929 14000 16064 16120 28427 28427 0.2584777716388089 PQLRRRRRRL 10 Unmodified _PQLRRRRRRL_ 0 0 0 ENST00000374694.2_1_10:35930658-35931186:-|nuORF ENST00000374694.2_1_10:35930658-35931186:-|nuORF ENST00000374694.2_1_10:35930658-35931186:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 703.9551391601562 2 703.955627 1405.8967 NaN NaN NaN NaN NaN NaN NaN 72.34 1 73.044 72.544 73.544 0.70386 0 0 0 1.0015 1 34817 34817 0.40072 0.050084 1 24930 7384 16065 16121 28428 28428 0.20998769701759556 PQLVLWLLK 9 Unmodified _PQLVLWLLK_ 0 0 0 REV__ENSG00000168350|ENST00000305631|DEGS2 REV__ENSG00000168350|ENST00000305631|DEGS2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 370.2140808105469 3 370.574227 1108.70085 2.7195 0.0010078 2.1585 0.00079989 4.878 0.0018077 370.57492247603074 35.748 0.21654 36.374 36.275 36.491 0.62631 12 8 2 0 0 0 0.11115 1 16334 16334 0.86438 0 1 337670 + 24931 13344 16066 16122 28429 28429 0.15084946684487477 PQPDVFPLF 9 Unmodified _PQPDVFPLF_ 0 0 0 ENSG00000275700|ENST00000619387|AATF ENSG00000275700|ENST00000619387|AATF ENSG00000275700|ENST00000619387|AATF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.281494140625 2 530.279118 1058.54368 3.9126 0.0020747 -0.18811 -9.9748E-05 3.7244 0.001975 530.2788465233112 95.544 0.37023 95.812 95.628 95.998 0.26751 39 21 2 0 0 0 0.063575 2 43881 43881;43933 41.84 27.001 1 671000 24932 6347 16067 16123 28430;28431 28430 0.016752420743159746 PQPDVFPLF 9 Unmodified _PQPDVFPLF_ 0 0 0 ENSG00000275700|ENST00000619387|AATF ENSG00000275700|ENST00000619387|AATF ENSG00000275700|ENST00000619387|AATF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.2814331054688 2 530.279118 1058.54368 3.4656 0.0018378 1.1869 0.00062937 4.6525 0.0024671 530.2793057815965 94.929 0.26847 95.546 95.46 95.729 0.61736 30 12 3 0 0 0 0.017293 2 43661 43661;43708 71.922 46.523 1 946280 24933 6347 16067 16123 28432;28433 28432 0.016752420743159746 PQPDVFPLFKD 11 Unmodified _PQPDVFPLFKD_ 0 0 0 ENSG00000275700|ENST00000619387|AATF ENSG00000275700|ENST00000619387|AATF ENSG00000275700|ENST00000619387|AATF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 651.8383178710938 2 651.840071 1301.66559 NaN NaN NaN NaN NaN NaN NaN 26.669 1 27.291 26.791 27.791 0.62179 0 0 0 1.0075 1 12226 12226 0.96228 0.43751 1 24934 6347 16068 16124 28434 28434 0.02682239366004069 PQPLALRSMLL 11 Unmodified _PQPLALRSMLL_ 0 0 0 REV__nc|ENSG00000095752|P20809-2|IL11 REV__nc|ENSG00000095752|P20809-2|IL11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.8716430664062 2 619.868108 1237.72166 NaN NaN NaN NaN NaN NaN NaN 89.402 1 89.653 89.153 90.153 0.25118 0 0 0 1.0044 1 41119 41119 4.897 1.6157 1 + 24935 10768 16069 16125 28435 28435 0.11231169001894159 PQPLALRSMLL 11 Unmodified _PQPLALRSMLL_ 0 0 0 REV__nc|ENSG00000095752|P20809-2|IL11 REV__nc|ENSG00000095752|P20809-2|IL11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.8720703125 2 619.868108 1237.72166 NaN NaN NaN NaN NaN NaN NaN 89.507 1 89.758 89.258 90.258 0.25119 0 0 0 1.0063 1 41167 41167 2.4985 1.0166 1 + 24936 10768 16069 16125 28436 28436 0.11231169001894159 PQPSNWVQF 9 Unmodified _PQPSNWVQF_ 0 0 0 ENST00000320802.6_1_7:37625105-37625180:-|nuORF;ENSG00000089818|ENST00000339754|NECAP1 ENST00000320802.6_1_7:37625105-37625180:-|nuORF ENST00000320802.6_1_7:37625105-37625180:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 551.7754516601562 2 551.769448 1101.52434 NaN NaN NaN NaN NaN NaN NaN 69.981 1 70.238 69.738 70.738 0.25642 0 0 0 0.24879 1 32047 32047 29.082 8.628 1 24937 1050 16070 16126 28437 28437 -0.022357142165674304 PQQHYRQYSH 10 Unmodified _PQQHYRQYSH_ 0 0 0 HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant;ENSG00000143341|ENST00000271588|HMCN1 HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant HMCN1|p.A5600Gfs*20|1|0.2|ENSG00000143341|chr1:186189767-186189768|-/G|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 672.8201904296875 2 672.315617 1342.61668 3.7916 0.0025491 -0.91025 -0.00061198 2.8813 0.0019372 672.3151363572201 20.211 0.19305 20.211 20.12 20.313 0 48 18 3 0 0 0 0.8662 1 9057 9057 5.2969 1.7004 1 407940 24938 3360 16071 16127 28438 28438 -0.04092236150336248 PQQLARQL 8 Unmodified _PQQLARQL_ 0 0 0 REV__ENST00000374512.7_2_6:33381598-33383628:+|nuORF REV__ENST00000374512.7_2_6:33381598-33383628:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 318.85760498046875 3 318.522414 952.545414 2.0659 0.00065803 0.0005396 1.7187E-07 2.0664 0.0006582 318.52240449782875 27.947 0.15779 28.566 28.474 28.632 0.61947 17 10 2 0 0 0 0.69597 1 12824 12824 6.2058 1.3088 1 156360 + 24939 15788 16072 16128 28439 28439 0.06724295882941078 PQQVIISH 8 Unmodified _PQQVIISH_ 0 0 0 ENSG00000163581|ENST00000314251|SLC2A2 ENSG00000163581|ENST00000314251|SLC2A2 ENSG00000163581|ENST00000314251|SLC2A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 307.8440246582031 3 307.843265 920.507966 2.0142 0.00062007 0.38889 0.00011972 2.4031 0.00073979 307.84342855894226 16.818 0.92547 17.123 16.49 17.415 0.30438 135 90 2 0 0 0 0.68959 1 7584 7584 6.7232 0 1 125210 24940 4227 16073 16129 28440 28440 0.044532046173458184 PQQYQVRRYPF 11 Unmodified _PQQYQVRRYPF_ 0 0 0 REV__ENST00000296464.8_1_4:128703607-128716926:+|nuORF REV__ENST00000296464.8_1_4:128703607-128716926:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.21502685546875 3 494.59312 1480.75753 NaN NaN NaN NaN NaN NaN NaN 12.832 1 12.832 12.332 13.332 0 0 0 0 1.0072 1 5599 5599 0.45452 0.12525 1 + 24941 15153 16074 16130 28441 28441 0.03638342503063541 PQRAESFL 8 Unmodified _PQRAESFL_ 0 0 0 REV__nc|ENSG00000187741|O15360-3|FANCA REV__nc|ENSG00000187741|O15360-3|FANCA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.2523193359375 2 474.250892 946.48723 2.9482 0.0013982 0.58089 0.00027549 3.5291 0.0016737 474.2511117031156 32.707 0.45449 33.325 33.097 33.551 0.61831 60 19 4 0 0 0 0.18676 1 14977 14977 44.407 0 1 2582900 + 24942 14108 16075 16131 28442 28442 0.011846142376612079 PQRLLWLQLLQ 11 Unmodified _PQRLLWLQLLQ_ 0 0 0 REV__ENST00000413916.5_1_7:44796723-44797143:+|nuORF REV__ENST00000413916.5_1_7:44796723-44797143:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 704.4273071289062 2 704.427179 1406.8398 NaN NaN NaN NaN NaN NaN NaN 94.487 1 95.104 94.604 95.604 0.61736 0 0 0 1.008 1 43455 43455 0.30703 0 1 + 24943 16117 16076 16132 28443 28443 0.15265864582056565 PQRRARWRRW 10 Unmodified _PQRRARWRRW_ 0 0 0 ENST00000475204.5_1_1:70687068-70687435:+|nuORF;ENST00000370951.5_1_1:70671397-70687435:+|nuORF;ENST00000463877.1_1_1:70671397-70687435:+|nuORF;ENST00000395136.6_2_1:70687096-70687432:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 734.4039916992188 2 734.418877 1466.8232 NaN NaN NaN NaN NaN NaN NaN 52.63 1 52.893 52.393 53.393 0.26345 0 0 0 1.0015 1 24060 24060 0.40072 0.050084 1 24944 7310 16077 16133 28444 28444 0.10846221259293998 PQRRARWRRWW 11 Unmodified _PQRRARWRRWW_ 0 0 0 ENST00000475204.5_1_1:70687068-70687435:+|nuORF;ENST00000370951.5_1_1:70671397-70687435:+|nuORF;ENST00000463877.1_1_1:70671397-70687435:+|nuORF;ENST00000395136.6_2_1:70687096-70687432:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.9736938476562 3 551.974781 1652.90251 NaN NaN NaN NaN NaN NaN NaN 72.749 1 72.749 72.249 73.249 0 0 0 0 1.008 1 35395 35395 0.08335 0 1 24945 7310 16078 16134 28445 28445 0.10217868213430847 PQRRIRRWLR 10 Unmodified _PQRRIRRWLR_ 0 0 0 nc|ENSG00000143442|Q7Z3K3-5|POGZ;nc|ENSG00000143442|Q7Z3K3-7|POGZ;nc|ENSG00000143442|Q7Z3K3-2|POGZ;nc|ENSG00000143442|Q7Z3K3-3|POGZ;nc|ENSG00000143442|Q7Z3K3-6|POGZ;ENSG00000143442|ENST00000271715|POGZ nc|ENSG00000143442|Q7Z3K3-5|POGZ nc|ENSG00000143442|Q7Z3K3-5|POGZ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 718.9426879882812 2 718.944728 1435.8749 NaN NaN NaN NaN NaN NaN NaN 49.312 1 49.573 49.073 50.073 0.26146 0 0 0 1.0015 1 22541 22541 0.40072 0.050084 1 24946 3369 16079 16135 28446 28446 0.17439964953200615 PQRRQFWGHWW 11 Unmodified _PQRRQFWGHWW_ 0 0 0 ENST00000481024.5_1_X:30671646-30683673:+|nuORF ENST00000481024.5_1_X:30671646-30683673:+|nuORF ENST00000481024.5_1_X:30671646-30683673:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 792.6528930664062 2 792.391993 1582.76943 NaN NaN NaN NaN NaN NaN NaN 51.524 1 52.184 51.684 52.684 0.65956 0 0 0 1.008 1 23562 23562 0.30703 0.30703 1 24947 8286 16080 16136 28447 28447 0.0013600403692635155 PQRRRLLLLRR 11 Unmodified _PQRRRLLLLRR_ 0 0 0 REV__ENST00000324856.11_1_1:27022599-27022719:+|nuORF REV__ENST00000324856.11_1_1:27022599-27022719:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 738.98828125 2 738.989135 1475.96372 NaN NaN NaN NaN NaN NaN NaN 64.602 1 65.258 64.758 65.758 0.65672 0 0 0 1.008 1 29614 29614 0.30703 0.30703 1 + 24948 15346 16081 16137 28448 28448 0.24477380192865894 PQRRYRRNFNY 11 Unmodified _PQRRYRRNFNY_ 0 0 0 ENSG00000065978|ENST00000321358|YBX1 ENSG00000065978|ENST00000321358|YBX1 ENSG00000065978|ENST00000321358|YBX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 785.4119262695312 2 785.410914 1568.80728 NaN NaN NaN NaN NaN NaN NaN 47.4 1 47.663 47.163 48.163 0.26363 0 0 0 1.008 1 21660 21660 0.30703 0.30703 1 24949 698 16082 16138 28449 28449 0.04562470231758198 PQRWQRKKTT 10 Unmodified _PQRWQRKKTT_ 0 0 0 ENST00000367264.6_2_1:202698186-202698243:-|nuORF ENST00000367264.6_2_1:202698186-202698243:-|nuORF ENST00000367264.6_2_1:202698186-202698243:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 664.8838500976562 2 664.880927 1327.7473 NaN NaN NaN NaN NaN NaN NaN 64.883 1 65.131 64.631 65.631 0.24803 0 0 0 1.0003 1 29726 29726 1.4819 0.41044 1 24950 7254 16083 16139 28450 28450 0.09653779568498067 PQSQDYHMR 9 Unmodified _PQSQDYHMR_ 0 0 0 REV__nc|ENSG00000182333|P07098-2|LIPF REV__nc|ENSG00000182333|P07098-2|LIPF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.37060546875 2 581.258922 1160.50329 NaN NaN NaN NaN NaN NaN NaN 60.169 1 60.919 60.419 61.419 0.74927 0 0 0 0.89683 1 27702 27702 4.3292 0.73274 1 + 24951 13888 16084 16140 28451 28451 -0.07054047587735113 PQSTHSGVKN 10 Unmodified _PQSTHSGVKN_ 0 0 0 REV__ENSG00000154736|ENST00000284987|ADAMTS5 REV__ENSG00000154736|ENST00000284987|ADAMTS5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.7674560546875 2 527.767437 1053.52032 NaN NaN NaN NaN NaN NaN NaN 78.855 1 78.855 78.355 79.355 0 0 0 0 0.99225 1 38859 38859 6.7232 0 1 + 24952 12720 16085 16141 28452 28452 -0.004298037102671515 PQTRLPFFI 9 Unmodified _PQTRLPFFI_ 0 0 0 REV__ENST00000601258.1_1_19:8376391-8381552:-|nuORF REV__ENST00000601258.1_1_19:8376391-8381552:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.5504150390625 3 373.550082 1117.62842 2.0069 0.00074967 -1.012 -0.00037804 0.99486 0.00037163 373.5497882936829 12.592 0.087893 12.899 12.848 12.936 0.30727 8 2 4 0 0 0 0.30982 1 5694 5694 16.149 5.3496 1 3261500 + 24953 17639 16086 16142 28453 28453 0.07430612610960452 PQVLVKLKK 9 Unmodified _PQVLVKLKK_ 0 0 0 nc|ENSG00000008838|O75448-2|MED24;ENSG00000008838|ENST00000394128|MED24 nc|ENSG00000008838|O75448-2|MED24 nc|ENSG00000008838|O75448-2|MED24 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.2442321777344 3 351.57786 1051.71175 NaN NaN NaN NaN NaN NaN NaN 32.442 1 33.23 32.73 33.73 0.78795 0 0 0 0.91342 1 14675 14675 0.26902 0 1 24954 383 16087 16143 28454 28454 0.1879634905878902 PQVYRRVAGEI 11 Unmodified _PQVYRRVAGEI_ 0 0 0 REV__ENST00000484580.6_1_17:26883511-26887327:-|nuORF REV__ENST00000484580.6_1_17:26883511-26887327:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 644.2625122070312 2 644.362036 1286.70952 4.2723 0.0027529 -2.7123 -0.0017477 1.56 0.0010052 644.3600106819728 91.927 0.51086 92.18 91.926 92.436 0.25253 37 24 2 0 0 0 0.89309 1 42201 42201 2.7352 1.0826 1 278420 + 24955 10663 16088 16144 28455 28455 0.07763268583039462 PQWYLWRKRKR 11 Unmodified _PQWYLWRKRKR_ 0 0 0 REV__ENSG00000175354|ENST00000309660|PTPN2 REV__ENSG00000175354|ENST00000309660|PTPN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 809.3644409179688 2 808.967868 1615.92118 NaN NaN NaN NaN NaN NaN NaN 100.12 1 100.18 99.681 100.68 0.062241 0 0 0 1.008 1 54255 54255 0.30703 0.30703 1 + 24956 13670 16089 16145 28456 28456 0.137859850645782 PRAFLKEI 8 Unmodified _PRAFLKEI_ 0 0 0 ENSG00000131386|ENST00000339732|GALNT15 ENSG00000131386|ENST00000339732|GALNT15 ENSG00000131386|ENST00000339732|GALNT15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 325.2019348144531 3 325.19916 972.575651 NaN NaN NaN NaN NaN NaN NaN 88.558 1 88.809 88.309 89.309 0.25118 0 0 0 0.99035 1 40748 40748 1.4819 0.51963 1 24957 2657 16090 16146 28457 28457 0.08826654548136048 PRAGRFPRRPG 11 Unmodified _PRAGRFPRRPG_ 0 0 0 REV__ENST00000518883.6_1_8:38244042-38244090:+|nuORF REV__ENST00000518883.6_1_8:38244042-38244090:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.917724609375 3 422.914528 1265.72176 NaN NaN NaN NaN NaN NaN NaN 91.528 1 91.78 91.28 92.28 0.25163 0 0 0 1.0073 1 42086 42086 0.40827 0 1 + 24958 15877 16091 16147 28458 28458 0.09952349836726171 PRAGRFPRRPG 11 Unmodified _PRAGRFPRRPG_ 0 0 0 REV__ENST00000518883.6_1_8:38244042-38244090:+|nuORF REV__ENST00000518883.6_1_8:38244042-38244090:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.91815185546875 3 422.914528 1265.72176 NaN NaN NaN NaN NaN NaN NaN 91.803 1 92.056 91.556 92.556 0.25253 0 0 0 1.0073 1 42209 42209 0.40827 0 1 + 24959 15877 16091 16147 28459 28459 0.09952349836726171 PRAGRFPRRPG 11 Unmodified _PRAGRFPRRPG_ 0 0 0 REV__ENST00000518883.6_1_8:38244042-38244090:+|nuORF REV__ENST00000518883.6_1_8:38244042-38244090:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.9179382324219 3 422.914528 1265.72176 NaN NaN NaN NaN NaN NaN NaN 92.145 1 92.793 92.293 93.293 0.64714 0 0 0 1.0073 1 42397 42397 0.40827 0 1 + 24960 15877 16091 16147 28460 28460 0.09952349836726171 PRAKMGRRA 9 Unmodified _PRAKMGRRA_ 0 0 0 ENST00000553338.1_1_14:76452564-76488738:+|nuORF ENST00000553338.1_1_14:76452564-76488738:+|nuORF ENST00000553338.1_1_14:76452564-76488738:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 348.2077331542969 3 348.206543 1041.5978 2.2624 0.0007878 0.86673 0.0003018 3.1292 0.0010896 348.20674773321616 41.793 0.60909 42.602 42.371 42.98 0.80855 116 48 3 0 0 0 1.129 1 18929 18929 0.96228 0 1 4500900 24961 8897 16092 16148 28461 28461 0.07866555744931247 PRAKMGRRA 9 Unmodified _PRAKMGRRA_ 0 0 0 ENST00000553338.1_1_14:76452564-76488738:+|nuORF ENST00000553338.1_1_14:76452564-76488738:+|nuORF ENST00000553338.1_1_14:76452564-76488738:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.2077331542969 3 348.206543 1041.5978 2.584 0.00089976 1.0408 0.00036242 3.6248 0.0012622 348.2068695846625 41.649 0.41554 42.293 41.902 42.317 0.64451 51 24 3 0 0 0 1.129 1 19025 19025 0.96228 0 1 7633700 24962 8897 16092 16148 28462 28462 0.07866555744931247 PRARNPAAPAL 11 Unmodified _PRARNPAAPAL_ 0 0 0 ENST00000525455.5_1_11:62529053-62530037:+|nuORF;ENST00000301788.11_1_11:62529053-62530368:+|nuORF;ENST00000524819.5_1_11:62529062-62529592:+|nuORF ENST00000525455.5_1_11:62529053-62530037:+|nuORF ENST00000525455.5_1_11:62529053-62530037:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.3317260742188 2 567.330539 1132.64652 3.738 0.0021207 -0.80606 -0.0004573 2.9319 0.0016634 567.329888988863 85.423 1.7358 86.089 85.344 87.08 0.66566 236 91 4 0 0 0 0.91068 1 39763 39763 1.3295 0.72803 1 3198100 24963 6806 16093 16149 28463 28463 0.08550747585650242 PRCIALYS 8 Unmodified _PRCIALYS_ 0 0 0 REV__OR6T1|p.R122S|1|0.2|ENSG00000181499|chr11:123943475-123943475|G/T|missense_variant REV__OR6T1|p.R122S|1|0.2|ENSG00000181499|chr11:123943475-123943475|G/T|missense_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 461.266845703125 2 461.744388 921.474223 3.0254 0.0013969 2.3323 0.0010769 5.3576 0.0024738 461.7453387395796 88.285 0.30217 88.963 88.804 89.107 0.67818 15 12 2 0 0 0 0.14177 1 40653 40653 4.756 0 1 661010 + 24964 18193 16094 16150 28464 28464 0.010344598539177241 PRCVVRVPVAR 11 Unmodified _PRCVVRVPVAR_ 0 0 0 ENSG00000167680|ENST00000586582|SEMA6B;nc|ENSG00000167680|Q9H3T3-3|SEMA6B ENSG00000167680|ENST00000586582|SEMA6B ENSG00000167680|ENST00000586582|SEMA6B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 418.2566833496094 3 417.920403 1250.73938 2.8062 0.0011728 0.61301 0.00025619 3.4192 0.0014289 417.92050288906654 40.558 0.29942 40.558 40.37 40.669 0 30 16 2 0 0 0 0.13295 1 18434 18434 0.40827 0.2854 1 5406800 24965 4572 16095 16151 28465 28465 0.1240392904737746 PRDVRRRRQ 9 Unmodified _PRDVRRRRQ_ 0 0 0 ENST00000263253.8_1_22:41488148-41488439:+|nuORF ENST00000263253.8_1_22:41488148-41488439:+|nuORF ENST00000263253.8_1_22:41488148-41488439:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.5533447265625 2 619.868686 1237.72282 NaN NaN NaN NaN NaN NaN NaN 87.941 1 88.192 87.692 88.692 0.25064 0 0 0 0.91238 1 40469 40469 0.52476 0 1 24966 6584 16096 16152 28466 28466 0.11346564205632603 PRDVRRRRQ 9 Unmodified _PRDVRRRRQ_ 0 0 0 ENST00000263253.8_1_22:41488148-41488439:+|nuORF ENST00000263253.8_1_22:41488148-41488439:+|nuORF ENST00000263253.8_1_22:41488148-41488439:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.87255859375 2 619.868686 1237.72282 NaN NaN NaN NaN NaN NaN NaN 91.099 1 91.35 90.85 91.85 0.25163 0 0 0 0.91238 1 41890 41890 0.52476 0 1 24967 6584 16096 16152 28467 28467 0.11346564205632603 PRDVRRRRQ 9 Unmodified _PRDVRRRRQ_ 0 0 0 ENST00000263253.8_1_22:41488148-41488439:+|nuORF ENST00000263253.8_1_22:41488148-41488439:+|nuORF ENST00000263253.8_1_22:41488148-41488439:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.8716430664062 2 619.868686 1237.72282 3.8241 0.0023704 0.84263 0.00052232 4.6667 0.0028928 619.8696079744037 89.535 1.3247 90.213 89.542 90.867 0.67818 146 60 3 0 0 0 1.2126 1 41350 41350 0.52476 0.066424 1 2591400 24968 6584 16096 16152 28468 28468 0.11346564205632603 PRDVRRRRQ 9 Unmodified _PRDVRRRRQ_ 0 0 0 ENST00000263253.8_1_22:41488148-41488439:+|nuORF ENST00000263253.8_1_22:41488148-41488439:+|nuORF ENST00000263253.8_1_22:41488148-41488439:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.8721923828125 2 619.868686 1237.72282 3.8293 0.0023737 1.1791 0.00073088 5.0084 0.0031046 619.8694594625646 90.557 0.98578 91.229 90.708 91.694 0.67271 117 49 3 0 0 0 1.2126 1 41693 41693 0.52476 0.21773 1 1600100 24969 6584 16096 16152 28469 28469 0.11346564205632603 PREKKISIL 9 Unmodified _PREKKISIL_ 0 0 0 nc|ENSG00000196141|Q9NUQ6-2|SPATS2L;ENSG00000196141|ENST00000409140|SPATS2L;nc|ENSG00000196141|Q9NUQ6-4|SPATS2L;nc|ENSG00000196141|Q9NUQ6-3|SPATS2L nc|ENSG00000196141|Q9NUQ6-2|SPATS2L nc|ENSG00000196141|Q9NUQ6-2|SPATS2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 361.9019775390625 3 361.901003 1082.68118 2.4314 0.00087994 0.05908 2.1381E-05 2.4905 0.00090132 361.9010011951909 18.623 0.29774 18.921 18.668 18.965 0.29753 76 35 3 0 0 0 0.074077 2 8393 8393;8439 39.213 8.5096 1 2530600 24970 5722 16097 16153 28470;28471 28470 0.14314570673764138 PREKKKAKWRT 11 Unmodified _PREKKKAKWRT_ 0 0 0 REV__ENST00000585047.5_1_17:38218205-38233770:+|nuORF REV__ENST00000585047.5_1_17:38218205-38233770:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 476.626220703125 3 476.624643 1426.8521 3.8711 0.0018451 -1.0963 -0.00052253 2.7748 0.0013225 476.6240293052445 101.13 0.12032 101.44 101.38 101.5 0.31412 16 4 5 0 0 0 0.91459 1 46799 46799 0.094841 0 1 14475000 + 24971 17482 16098 16154 28472 28472 0.15574901045056322 PREVWNMMM 9 Unmodified _PREVWNMMM_ 0 0 0 REV__ENST00000590105.1_1_17:42971780-42971870:-|nuORF REV__ENST00000590105.1_1_17:42971780-42971870:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.2643432617188 2 597.266847 1192.51914 NaN NaN NaN NaN NaN NaN NaN 86.333 1 87.004 86.504 87.504 0.67061 0 0 0 0.90611 1 39757 39757 2.0598 0.40713 1 + 24972 16215 16099 16155 28473 28473 -0.06941800666731979 PRFRRLKQERE 11 Unmodified _PRFRRLKQERE_ 0 0 0 nc|ENSG00000204469|P48634-2|PRRC2A;nc|ENSG00000204469|P48634-3|PRRC2A;ENSG00000204469|ENST00000376033|PRRC2A nc|ENSG00000204469|P48634-2|PRRC2A nc|ENSG00000204469|P48634-2|PRRC2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.1788024902344 3 505.626936 1513.85898 4.063 0.0020544 -0.52137 -0.00026362 3.5417 0.0017908 505.62673170777003 109.62 1.2052 109.93 109.1 110.3 0.31015 77 47 2 0 0 0 0.91489 5 50187 50187;50327;50447;50533;50656 0 0 1 222510 24973 6011 16100 16156 28474;28475;28476;28477;28478 28474 0.12260213925605967 PRGPGNPL 8 Unmodified _PRGPGNPL_ 0 0 0 ENSG00000271321|ENST00000470691|CTAGE6;ENSG00000271079|ENST00000420911|CTAGE15 ENSG00000271321|ENST00000470691|CTAGE6 ENSG00000271321|ENST00000470691|CTAGE6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.2282409667969 2 404.22722 806.439886 2.8236 0.0011414 0.14343 5.7977E-05 2.967 0.0011994 404.2273063630214 31.415 0.25115 31.415 31.315 31.567 0 36 21 2 0 0 0 0.34607 2 14191 14191;14236 32.117 5.7757 1 956060 24974 6332 16101 16157 28479;28480 28479 0.02892379757327035 PRGPGNPL 8 Unmodified _PRGPGNPL_ 0 0 0 ENSG00000271321|ENST00000470691|CTAGE6;ENSG00000271079|ENST00000420911|CTAGE15 ENSG00000271321|ENST00000470691|CTAGE6 ENSG00000271321|ENST00000470691|CTAGE6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.2281494140625 2 404.22722 806.439886 2.7744 0.0011215 0.027127 1.0966E-05 2.8015 0.0011325 404.2272162338163 30.518 0.33439 31.307 31.122 31.456 0.78921 57 26 3 0 0 0 0.34607 1 13783 13783 32.117 5.7757 1 1136400 24975 6332 16101 16157 28481 28481 0.02892379757327035 PRGPGNPL 8 Unmodified _PRGPGNPL_ 0 0 0 ENSG00000271321|ENST00000470691|CTAGE6;ENSG00000271079|ENST00000420911|CTAGE15 ENSG00000271321|ENST00000470691|CTAGE6 ENSG00000271321|ENST00000470691|CTAGE6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.228759765625 2 404.22722 806.439886 3.5111 0.0014193 0.12642 5.1102E-05 3.6375 0.0014704 404.2272134605123 31.278 0.26337 31.535 31.407 31.67 0.25614 39 17 3 0 0 0 0.34607 1 14228 14228 32.117 5.7757 1 834040 24976 6332 16101 16157 28482 28482 0.02892379757327035 PRGPGNPL 8 Unmodified _PRGPGNPL_ 0 0 0 ENSG00000271321|ENST00000470691|CTAGE6;ENSG00000271079|ENST00000420911|CTAGE15 ENSG00000271321|ENST00000470691|CTAGE6 ENSG00000271321|ENST00000470691|CTAGE6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 404.2287902832031 2 404.22722 806.439886 2.952 0.0011933 0.55099 0.00022273 3.503 0.001416 404.2274232153848 30.778 0.26886 31.396 31.289 31.558 0.61737 32 15 3 0 0 0 0.45037 1 14131 14131 24.674 5.2349 1 540750 24977 6332 16101 16157 28483 28483 0.02892379757327035 PRHSTLTL 8 Unmodified _PRHSTLTL_ 0 0 0 nc|ENSG00000150275|Q96QU1-3|PCDH15;nc|ENSG00000150275|Q96QU1-6|PCDH15;ENSG00000150275|ENST00000644397|PCDH15;nc|ENSG00000150275|Q96QU1-4|PCDH15;nc|ENSG00000150275|Q96QU1|PCDH15 nc|ENSG00000150275|Q96QU1-3|PCDH15 nc|ENSG00000150275|Q96QU1-3|PCDH15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 308.84783935546875 3 308.846898 923.518865 1.8089 0.00055868 0.30432 9.3988E-05 2.1132 0.00065267 308.84710910496443 13.56 0.21089 13.867 13.752 13.963 0.30727 30 17 2 0 0 0 0.57217 1 6112 6112 16.149 4.6544 1 502030 24978 3664 16102 16158 28484 28484 0.054046069916125816 PRHSTLTL 8 Unmodified _PRHSTLTL_ 0 0 0 nc|ENSG00000150275|Q96QU1-3|PCDH15;nc|ENSG00000150275|Q96QU1-6|PCDH15;ENSG00000150275|ENST00000644397|PCDH15;nc|ENSG00000150275|Q96QU1-4|PCDH15;nc|ENSG00000150275|Q96QU1|PCDH15 nc|ENSG00000150275|Q96QU1-3|PCDH15 nc|ENSG00000150275|Q96QU1-3|PCDH15 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 308.846898 923.518865 2.3357 0.00072137 0.76575 0.0002365 3.1015 0.00095788 308.84698245585395 12.964 0.15934 13.607 13.514 13.673 0.64272 -0.13004 0.00033817 NaN 16.149 11 4 3 NaN NaN NaN NaN 0 NaN NaN 0 389150 24979 3664 16102 16158 0.054046069916125816 PRIEEEEEEWD 11 Unmodified _PRIEEEEEEWD_ 0 0 0 REV__nc|ENSG00000151572|Q32M45-2|ANO4 REV__nc|ENSG00000151572|Q32M45-2|ANO4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 730.8111572265625 2 730.812436 1459.61032 NaN NaN NaN NaN NaN NaN NaN 93.931 1 93.931 93.431 94.431 0 0 0 0 1.0074 1 50249 50249 1.0715 0 1 + 24980 10021 16103 16159 28485 28485 -0.10110263683031917 PRIQHTLH 8 Unmodified _PRIQHTLH_ 0 0 0 REV__ENST00000503391.5_1_4:84182841-84188909:-|nuORF REV__ENST00000503391.5_1_4:84182841-84188909:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.193359375 3 334.526159 1000.55665 2.335 0.00078111 0.088001 2.9439E-05 2.423 0.00081055 334.5262864655093 16.266 0.31702 16.924 16.891 17.208 0.65798 42 33 2 0 0 0 0.1426 1 7361 7361 3.2813 0.99853 1 53743 + 24981 16903 16104 16160 28486 28486 0.05639117977091246 PRITRICLRDL 11 Unmodified _PRITRICLRDL_ 0 0 0 ENSG00000141384|ENST00000269142|TAF4B ENSG00000141384|ENST00000269142|TAF4B ENSG00000141384|ENST00000269142|TAF4B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.86376953125 4 339.703957 1354.78672 2.6194 0.00088981 0.28296 9.6124E-05 2.9023 0.00098593 339.9549291421268 40.516 0.078545 40.785 40.733 40.812 0.26904 4 2 2 0 0 0 0.13295 1 18421 18421 9.7643 2.7272 1 421590 24982 3247 16105 16161 28487 28487 0.12352163527702942 PRKALRRIRQR 11 Unmodified _PRKALRRIRQR_ 0 0 0 SIPA1L1|p.E627Rfs*75|1|0.16|ENSG00000197555|chr14:71650395-71650395|G/-|frameshift_variant;nc|ENSG00000197555|O43166-3|SIPA1L1;ENSG00000197555|ENST00000381232|SIPA1L1;nc|ENSG00000197555|O43166|SIPA1L1 SIPA1L1|p.E627Rfs*75|1|0.16|ENSG00000197555|chr14:71650395-71650395|G/-|frameshift_variant SIPA1L1|p.E627Rfs*75|1|0.16|ENSG00000197555|chr14:71650395-71650395|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 725.4694213867188 2 725.471109 1448.92767 NaN NaN NaN NaN NaN NaN NaN 44.672 1 45.493 44.993 45.993 0.82075 0 0 0 1.008 1 20344 20344 0.30703 0 1 24983 5825 16106 16162 28488 28488 0.2211592301600831 PRKGKRGRRP 10 Unmodified _PRKGKRGRRP_ 0 0 0 ENSG00000156853|ENST00000287461|ZNF689 ENSG00000156853|ENST00000287461|ZNF689 ENSG00000156853|ENST00000287461|ZNF689 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 302.69561767578125 4 302.695624 1206.75339 1.8668 0.00056508 -0.44239 -0.00013391 1.4244 0.00043117 302.6949183661526 48.032 0.60571 48.032 47.758 48.364 0 74 31 4 0 0 0 0.94134 1 22028 22028 0.62683 0.12087 1 1022800 24984 3927 16107 16163 28489 28489 0.1582834259070296 PRKKKKKRFM 10 Unmodified _PRKKKKKRFM_ 0 0 0 REV__nc|ENSG00000137843|Q9NQU5-2|PAK6 REV__nc|ENSG00000137843|Q9NQU5-2|PAK6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 449.6247863769531 3 449.623698 1345.84926 3.6677 0.0016491 0.037248 1.6748E-05 3.7049 0.0016658 449.6235999957375 109.47 1.8544 109.78 108.45 110.3 0.31015 164 77 3 0 0 0 0.94443 9 50158 50158;50218;50271;50379;50442;50500;50553;50614;50671 0 0 1 256680 + 24985 12132 16108 16164 28490;28491;28492;28493;28494;28495;28496;28497;28498 28490 0.19017354386551233 PRKKRPSYL 9 Unmodified _PRKKRPSYL_ 0 0 0 nc|ENSG00000177707|Q9NQS3-3|NECTIN3 nc|ENSG00000177707|Q9NQS3-3|NECTIN3 nc|ENSG00000177707|Q9NQS3-3|NECTIN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 382.23681640625 3 382.236497 1143.68766 2.8956 0.0011068 -0.42792 -0.00016357 2.4677 0.00094325 382.23630784452087 8.4469 0.45046 8.4469 8.1219 8.5723 0 81 46 2 0 0 0 1.1022 1 3712 3712 2.2828 0.3764 1 65646 24986 9762 16109 16165 28499 28499 0.12156508625139395 PRKKRPSYL 9 Unmodified _PRKKRPSYL_ 0 0 0 nc|ENSG00000177707|Q9NQS3-3|NECTIN3 nc|ENSG00000177707|Q9NQS3-3|NECTIN3 nc|ENSG00000177707|Q9NQS3-3|NECTIN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 382.23675537109375 3 382.236497 1143.68766 1.9568 0.00074796 -0.036132 -1.3811E-05 1.9207 0.00073415 382.23646677203453 6.3273 0.50829 6.667 6.4651 6.9734 0.33974 141 66 3 0 0 0 1.178 4 2807 2807;2839;2886;2926 1.0715 0.29493 1 68956 24987 9762 16109 16165 28500;28501;28502;28503 28500 0.12156508625139395 PRKKRPSYL 9 Unmodified _PRKKRPSYL_ 0 0 0 nc|ENSG00000177707|Q9NQS3-3|NECTIN3 nc|ENSG00000177707|Q9NQS3-3|NECTIN3 nc|ENSG00000177707|Q9NQS3-3|NECTIN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 382.2367248535156 3 382.236497 1143.68766 2.0132 0.00076951 0.22609 8.6418E-05 2.2393 0.00085593 382.23655280136745 8.0828 0.58139 8.389 8.1165 8.6979 0.30618 90 50 2 0 0 0 1.0755 6 3577 3577;3592;3620;3667;3707;3754 2.7352 0.64919 1 91212 24988 9762 16109 16165 28504;28505;28506;28507;28508;28509 28504 0.12156508625139395 PRKKRPSYL 9 Unmodified _PRKKRPSYL_ 0 0 0 nc|ENSG00000177707|Q9NQS3-3|NECTIN3 nc|ENSG00000177707|Q9NQS3-3|NECTIN3 nc|ENSG00000177707|Q9NQS3-3|NECTIN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.2378845214844 3 382.236497 1143.68766 3.1333 0.0011977 -0.39347 -0.0001504 2.7398 0.0010473 382.2364251050236 6.6496 0.45556 7.2732 7.0427 7.4982 0.62357 107 41 3 0 0 0 1.0755 3 2995 2995;3086;3089 2.7352 0.29493 1 95435 24989 9762 16109 16165 28510;28511;28512 28510 0.12156508625139395 PRKKSRPFIH 10 Unmodified _PRKKSRPFIH_ 0 0 0 ENST00000573672.1_1_16:3817649-3820675:-|nuORF ENST00000573672.1_1_16:3817649-3820675:-|nuORF ENST00000573672.1_1_16:3817649-3820675:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.2288818359375 3 422.591163 1264.75166 2.9896 0.0012634 3.279 0.0013857 6.2686 0.0026491 422.59233603785225 54.773 0.053905 54.773 54.765 54.819 0 5 3 2 0 0 0 0.12676 1 25148 25148 0.77653 0.078866 1 233170 24990 9108 16110 16166 28513 28513 0.12987288782096584 PRKLFEVE 8 Unmodified _PRKLFEVE_ 0 0 0 REV__ENST00000586276.5_1_17:42937766-42940268:-|nuORF REV__ENST00000586276.5_1_17:42937766-42940268:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.8634033203125 3 339.862437 1016.56548 2.5899 0.00088022 0.066415 2.2572E-05 2.6563 0.00090279 339.86239111801814 40.158 0.65317 40.799 40.221 40.874 0.64135 47 28 3 0 0 0 0.47217 1 18295 18295 18.146 2.8979 1 2364400 + 24991 17539 16111 16167 28514 28514 0.05786046822890967 PRKNLFLVE 9 Unmodified _PRKNLFLVE_ 0 0 0 ENST00000533312.1_1_1:207087089-207095229:-|nuORF;nc|ENSG00000162894|O60667-3|FCMR;ENSG00000162894|ENST00000367091|FCMR ENST00000533312.1_1_1:207087089-207095229:-|nuORF ENST00000533312.1_1_1:207087089-207095229:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 372.55804443359375 3 372.557236 1114.64988 2.6502 0.00098737 -0.25275 -9.4162E-05 2.3975 0.00089321 372.55714153648927 56.154 0.28931 56.42 56.279 56.568 0.26543 23 10 3 0 0 0 0.3144 1 25696 25696 10.8 0.64894 1 3812800 24992 4177 16112 16168 28515 28515 0.0971399763966474 PRKNLFLVE 9 Unmodified _PRKNLFLVE_ 0 0 0 ENST00000533312.1_1_1:207087089-207095229:-|nuORF;nc|ENSG00000162894|O60667-3|FCMR;ENSG00000162894|ENST00000367091|FCMR ENST00000533312.1_1_1:207087089-207095229:-|nuORF ENST00000533312.1_1_1:207087089-207095229:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 372.557236 1114.64988 2.7523 0.0010254 -0.3605 -0.00013431 2.3918 0.00089109 372.55709689485093 56.309 0.22275 56.309 56.194 56.417 0 0.07882 -0.00021976 NaN 10.8 32 19 2 NaN NaN NaN NaN 0 NaN NaN 0 1061000 24993 4177 16112 16168 0.0971399763966474 PRKNLFLVE 9 Unmodified _PRKNLFLVE_ 0 0 0 ENST00000533312.1_1_1:207087089-207095229:-|nuORF;nc|ENSG00000162894|O60667-3|FCMR;ENSG00000162894|ENST00000367091|FCMR ENST00000533312.1_1_1:207087089-207095229:-|nuORF ENST00000533312.1_1_1:207087089-207095229:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 372.557236 1114.64988 2.0713 0.00077169 0.082894 3.0883E-05 2.1542 0.00080257 372.55731375602414 55.336 0.2392 56.123 55.981 56.22 0.78711 -0.10644 0.00027581 NaN 10.8 35 20 2 NaN NaN NaN NaN 0 NaN NaN 0 729870 24994 4177 16112 16168 0.0971399763966474 PRKNLFLVE 9 Unmodified _PRKNLFLVE_ 0 0 0 ENST00000533312.1_1_1:207087089-207095229:-|nuORF;nc|ENSG00000162894|O60667-3|FCMR;ENSG00000162894|ENST00000367091|FCMR ENST00000533312.1_1_1:207087089-207095229:-|nuORF ENST00000533312.1_1_1:207087089-207095229:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 372.557236 1114.64988 2.6668 0.00099352 -0.072174 -2.6889E-05 2.5946 0.00096663 372.55717025004986 55.4 0.34735 56.068 55.89 56.238 0.66798 -0.16217 0.00010249 NaN 10.8 33 14 3 NaN NaN NaN NaN 0 NaN NaN 0 2868300 24995 4177 16112 16168 0.0971399763966474 PRKRIIKF 8 Unmodified _PRKRIIKF_ 0 0 0 ENST00000519948.3_1_12:74932648-74932756:+|nuORF ENST00000519948.3_1_12:74932648-74932756:+|nuORF ENST00000519948.3_1_12:74932648-74932756:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.3543090820312 2 529.353286 1056.69202 NaN NaN NaN NaN NaN NaN NaN 15.092 1 15.399 14.899 15.899 0.3069 0 0 0 0.99035 1 6822 6822 0.69038 0 1 24996 8630 16113 16169 28516 28516 0.16594017838701802 PRKRLRKKLRL 11 Unmodified _PRKRLRKKLRL_ 0 0 0 ENST00000552369.5_1_12:49233297-49239534:-|nuORF;ENST00000547135.5_1_12:49231823-49239549:-|nuORF ENST00000552369.5_1_12:49233297-49239534:-|nuORF;ENST00000547135.5_1_12:49231823-49239549:-|nuORF ENST00000552369.5_1_12:49233297-49239534:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 732.5228271484375 2 732.509703 1463.00485 NaN NaN NaN NaN NaN NaN NaN 92.803 1 92.889 92.389 93.389 0.086212 0 0 0 1.0082 1 48469 48469 0 0 1 24997 8889;8850 16114 16170 28517 28517 0.29187141232341673 PRKRLRKKLRL 11 Unmodified _PRKRLRKKLRL_ 0 0 0 ENST00000552369.5_1_12:49233297-49239534:-|nuORF;ENST00000547135.5_1_12:49231823-49239549:-|nuORF ENST00000552369.5_1_12:49233297-49239534:-|nuORF;ENST00000547135.5_1_12:49231823-49239549:-|nuORF ENST00000552369.5_1_12:49233297-49239534:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 732.5122680664062 2 732.509703 1463.00485 NaN NaN NaN NaN NaN NaN NaN 71.017 1 71.274 70.774 71.774 0.25786 0 0 0 1.0082 1 32527 32527 0 0 1 24998 8889;8850 16114 16170 28518 28518 0.29187141232341673 PRLFPLILQP 10 Unmodified _PRLFPLILQP_ 0 0 0 ENST00000315183.11_2_16:24834851-24834962:+|nuORF ENST00000315183.11_2_16:24834851-24834962:+|nuORF ENST00000315183.11_2_16:24834851-24834962:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.58624267578125 3 398.585015 1192.73321 2.5541 0.001018 0.79469 0.00031675 3.3488 0.0013348 398.5853288186339 44.895 0.61343 45.716 45.349 45.963 0.82075 58 30 2 0 0 0 0.94099 1 20301 20301 0.69767 0.69767 1 1692900 24999 6895 16115 16171 28519 28519 0.14455734087528072 PRLIPLWKDLK 11 Unmodified _PRLIPLWKDLK_ 0 0 0 nc|ENSG00000171804|Q6ZQQ6|WDR87;nc|ENSG00000171804|Q6ZQQ6-2|WDR87;ENSG00000171804|ENST00000447313|WDR87 nc|ENSG00000171804|Q6ZQQ6|WDR87 nc|ENSG00000171804|Q6ZQQ6|WDR87 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 689.9302978515625 2 689.932097 1377.84964 NaN NaN NaN NaN NaN NaN NaN 88.195 1 88.446 87.946 88.946 0.25064 0 0 0 1.008 1 40583 40583 0.26902 0.26902 1 25000 4834 16116 16172 28520 28520 0.175830525874062 PRLKELFK 8 Unmodified _PRLKELFK_ 0 0 0 REV__APOA5|p.K335Qfs*12|1|0.28|ENSG00000110243|chr11:116790227-116790228|-/C|frameshift_variant REV__APOA5|p.K335Qfs*12|1|0.28|ENSG00000110243|chr11:116790227-116790228|-/C|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.20733642578125 3 344.218443 1029.6335 NaN NaN NaN NaN NaN NaN NaN 28.824 1 29.084 28.584 29.584 0.2602 0 0 0 0.29949 1 13115 13115 36.127 15.712 1 + 25001 9965 16117 16173 28521 28521 0.11986916473551901 PRLKELFK 8 Unmodified _PRLKELFK_ 0 0 0 REV__APOA5|p.K335Qfs*12|1|0.28|ENSG00000110243|chr11:116790227-116790228|-/C|frameshift_variant REV__APOA5|p.K335Qfs*12|1|0.28|ENSG00000110243|chr11:116790227-116790228|-/C|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.21966552734375 3 344.218443 1029.6335 NaN NaN NaN NaN NaN NaN NaN 28.85 1 29.11 28.61 29.61 0.2602 0 0 0 0.69067 1 13127 13127 22.736 4.5899 1 + 25002 9965 16117 16173 28522 28522 0.11986916473551901 PRLKFSEI 8 Unmodified _PRLKFSEI_ 0 0 0 ENST00000470588.1_1_7:150937509-150937662:-|nuORF;ENST00000469154.5_1_7:150936191-150937662:-|nuORF;nc|ENSG00000082014|Q6STE5-2|SMARCD3;ENSG00000082014|ENST00000262188|SMARCD3 ENST00000470588.1_1_7:150937509-150937662:-|nuORF ENST00000470588.1_1_7:150937509-150937662:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.5314636230469 3 330.530798 988.570566 2.2364 0.0007392 0.79687 0.00026339 3.0333 0.0010026 330.53109411790433 38.409 0.72668 38.673 38.066 38.793 0.26408 39 22 2 0 0 0 0.36624 2 17432 17403;17432 30.637 7.9003 1 1444900 25003 924 16118 16174 28523;28524 28524 0.07582350685515848 PRLKRGPKK 9 Unmodified _PRLKRGPKK_ 0 0 0 REV__nc|ENSG00000151725|Q71F23-3|CENPU REV__nc|ENSG00000151725|Q71F23-3|CENPU MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.3650512695312 2 540.361642 1078.70873 NaN NaN NaN NaN NaN NaN NaN 35.274 1 35.529 35.029 36.029 0.25524 0 0 0 0.90611 1 16073 16073 2.0598 0 1 + 25004 12628 16119 16175 28525 28525 0.17252518724649235 PRLLKKKKKK 10 Unmodified _PRLLKKKKKK_ 0 0 0 AluJr_dup30890|chr7:56010465-56010753:-|1.1163034777063767|0.4309280836060434|1.37|541.0|4|1|sense AluJr_dup30890|chr7:56010465-56010753:-|1.1163034777063767|0.4309280836060434|1.37|541.0|4|1|sense AluJr_dup30890|chr7:56010465-56010753:-|1.1163034777063767|0.4309280836060434|1.37|541.0|4|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.40869140625 2 633.958449 1265.90235 NaN NaN NaN NaN NaN NaN NaN 86.414 1 86.414 85.914 86.914 0 0 0 0 1.0015 1 44285 44285 0.40072 0 1 25005 30 16120 16176 28526 28526 0.2800305544087678 PRLPARELS 9 Unmodified _PRLPARELS_ 0 0 0 ENST00000545932.5_1_12:108956374-108956593:+|nuORF;ENSG00000136003|ENST00000311893|ISCU ENST00000545932.5_1_12:108956374-108956593:+|nuORF ENST00000545932.5_1_12:108956374-108956593:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 346.8742370605469 3 346.873336 1037.59818 2.4427 0.00084731 -0.57092 -0.00019804 1.8718 0.00064928 346.8732000217218 29.055 0.30289 29.845 29.672 29.975 0.78921 36 22 2 0 0 0 0.30351 1 13068 13068 16.566 1.3174 1 229690 25006 2917 16121 16177 28527 28527 0.08088253945743418 PRLPLLLSRPL 11 Unmodified _PRLPLLLSRPL_ 0 0 0 REV__ENST00000531896.5_1_8:145541583-145550314:-|nuORF REV__ENST00000531896.5_1_8:145541583-145550314:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 319.8604736328125 4 319.463133 1273.82343 2.2052 0.00070448 4.1301 0.0013194 6.3353 0.0020239 319.46414674237315 47.931 0.13715 48.584 48.482 48.619 0.65356 6 5 2 0 0 0 0.13295 1 21922 21922 1.2148 0.76031 1 123890 + 25007 17144 16122 16178 28528 28528 0.1974678341591698 PRLTLTMRRL 10 Unmodified _PRLTLTMRRL_ 0 0 0 REV__ENST00000563261.5_1_16:88753199-88753343:+|nuORF REV__ENST00000563261.5_1_16:88753199-88753343:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 419.9283142089844 3 419.592175 1255.7547 3.2105 0.0013471 0.60776 0.00025501 3.8182 0.0016021 419.59238879670653 88.408 0.64121 88.659 88.39 89.031 0.25093 78 29 3 0 0 0 0.93584 1 40721 40721 1.7423 0.14999 1 1842000 + 25008 17391 16123 16179 28529 28529 0.13704795844569162 PRMPRLIS 8 Unmodified _PRMPRLIS_ 0 0 0 REV__ENST00000217074.8_1_20:43545412-43545481:+|nuORF REV__ENST00000217074.8_1_20:43545412-43545481:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.2876281738281 2 485.286754 968.558955 NaN NaN NaN NaN NaN NaN NaN 49.977 1 49.977 49.477 50.477 0 0 0 0 0.99035 1 22881 22881 2.3027 0 1 + 25009 14816 16124 16180 28530 28530 0.07341830390544146 PRMPRLIS 8 Unmodified _PRMPRLIS_ 0 0 0 REV__ENST00000217074.8_1_20:43545412-43545481:+|nuORF REV__ENST00000217074.8_1_20:43545412-43545481:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.28790283203125 2 485.286754 968.558955 NaN NaN NaN NaN NaN NaN NaN 49.149 1 49.411 48.911 49.911 0.26146 0 0 0 0.99035 1 22467 22467 2.3027 0 1 + 25010 14816 16124 16180 28531 28531 0.07341830390544146 PRMPRLIS 8 Unmodified _PRMPRLIS_ 0 0 0 REV__ENST00000217074.8_1_20:43545412-43545481:+|nuORF REV__ENST00000217074.8_1_20:43545412-43545481:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.288330078125 2 485.286754 968.558955 NaN NaN NaN NaN NaN NaN NaN 68.242 1 68.902 68.402 69.402 0.65924 0 0 0 0.99035 1 31282 31282 2.3027 0 1 + 25011 14816 16124 16180 28532 28532 0.07341830390544146 PRMPRLIS 8 Unmodified _PRMPRLIS_ 0 0 0 REV__ENST00000217074.8_1_20:43545412-43545481:+|nuORF REV__ENST00000217074.8_1_20:43545412-43545481:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.28857421875 2 485.286754 968.558955 NaN NaN NaN NaN NaN NaN NaN 68.538 1 69.197 68.697 69.697 0.65924 0 0 0 0.99035 1 31416 31416 2.3027 0 1 + 25012 14816 16124 16180 28533 28533 0.07341830390544146 PRMPRLIS 8 Unmodified _PRMPRLIS_ 0 0 0 REV__ENST00000217074.8_1_20:43545412-43545481:+|nuORF REV__ENST00000217074.8_1_20:43545412-43545481:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2900085449219 2 485.286754 968.558955 NaN NaN NaN NaN NaN NaN NaN 68.685 1 69.345 68.845 69.845 0.65924 0 0 0 0.99035 1 31485 31485 2.3027 0 1 + 25013 14816 16124 16180 28534 28534 0.07341830390544146 PRMSLLPR 8 Unmodified _PRMSLLPR_ 0 0 0 REV__ENST00000465025.1_1_1:228335125-228336550:+|nuORF REV__ENST00000465025.1_1_1:228335125-228336550:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.28875732421875 2 485.286754 968.558955 NaN NaN NaN NaN NaN NaN NaN 50.167 1 50.167 49.667 50.667 0 0 0 0 0.99035 1 22967 22967 2.3027 0 1 + 25014 16537 16125 16181 28535 28535 0.07341830390532778 PRMSLLPR 8 Unmodified _PRMSLLPR_ 0 0 0 REV__ENST00000465025.1_1_1:228335125-228336550:+|nuORF REV__ENST00000465025.1_1_1:228335125-228336550:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2870788574219 2 485.286754 968.558955 NaN NaN NaN NaN NaN NaN NaN 56.763 1 57.027 56.527 57.527 0.26444 0 0 0 0.99035 1 25971 25971 4.3292 1.7518 1 + 25015 16537 16125 16181 28536 28536 0.07341830390532778 PRMSLLPR 8 Unmodified _PRMSLLPR_ 0 0 0 REV__ENST00000465025.1_1_1:228335125-228336550:+|nuORF REV__ENST00000465025.1_1_1:228335125-228336550:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2879638671875 2 485.286754 968.558955 NaN NaN NaN NaN NaN NaN NaN 63.244 1 63.493 62.993 63.993 0.24965 0 0 0 0.99035 1 28963 28963 2.3027 0 1 + 25016 16537 16125 16181 28537 28537 0.07341830390532778 PRMSLLPR 8 Unmodified _PRMSLLPR_ 0 0 0 REV__ENST00000465025.1_1_1:228335125-228336550:+|nuORF REV__ENST00000465025.1_1_1:228335125-228336550:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.287353515625 2 485.286754 968.558955 NaN NaN NaN NaN NaN NaN NaN 63.932 1 64.18 63.68 64.68 0.24803 0 0 0 0.99035 1 29280 29280 2.3027 0 1 + 25017 16537 16125 16181 28538 28538 0.07341830390532778 PRMSLLPR 8 Unmodified _PRMSLLPR_ 0 0 0 REV__ENST00000465025.1_1_1:228335125-228336550:+|nuORF REV__ENST00000465025.1_1_1:228335125-228336550:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2893371582031 2 485.286754 968.558955 NaN NaN NaN NaN NaN NaN NaN 63.306 1 63.964 63.464 64.464 0.65808 0 0 0 0.99035 1 29009 29009 2.3027 0 1 + 25018 16537 16125 16181 28539 28539 0.07341830390532778 PRMSLLPR 8 Unmodified _PRMSLLPR_ 0 0 0 REV__ENST00000465025.1_1_1:228335125-228336550:+|nuORF REV__ENST00000465025.1_1_1:228335125-228336550:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2902526855469 2 485.286754 968.558955 NaN NaN NaN NaN NaN NaN NaN 65.934 1 66.591 66.091 67.091 0.65672 0 0 0 0.99035 1 30230 30230 2.3027 0 1 + 25019 16537 16125 16181 28540 28540 0.07341830390532778 PRPKPRQR 8 Unmodified _PRPKPRQR_ 0 0 0 nc|ENSG00000103494|Q68CZ1-2|RPGRIP1L;ENSG00000103494|ENST00000647211|RPGRIP1L nc|ENSG00000103494|Q68CZ1-2|RPGRIP1L nc|ENSG00000103494|Q68CZ1-2|RPGRIP1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.8214721679688 2 517.820141 1033.62573 3.6466 0.0018883 -1.1203 -0.00058013 2.5263 0.0013082 517.8193781538571 87.625 0.45916 87.876 87.581 88.041 0.25065 33 19 2 0 0 0 0.7471 1 40331 40331 0.69038 0 1 1491200 25020 1401 16126 16182 28541 28541 0.11026201996651253 PRPPLIVH 8 Unmodified _PRPPLIVH_ 0 0 0 REV__ENST00000539985.5_1_19:19145022-19148494:+|nuORF REV__ENST00000539985.5_1_19:19145022-19148494:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.79205322265625 2 464.789987 927.565421 NaN NaN NaN NaN NaN NaN NaN 25.515 1 26.278 25.778 26.778 0.76356 0 0 0 0.99035 1 11454 11454 0.79363 0 1 + 25021 17206 16127 16183 28542 28542 0.09874091613562541 PRPRRRRRRV 10 Unmodified _PRPRRRRRRV_ 0 0 0 REV__ENST00000549122.5_1_12:93965649-93966593:+|nuORF REV__ENST00000549122.5_1_12:93965649-93966593:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 468.9726867675781 3 468.971371 1403.89228 3.1096 0.0014583 0.047245 2.2157E-05 3.1569 0.0014805 468.9712845936062 45.068 0.84348 45.718 45.515 46.359 0.64998 78 34 3 0 0 0 0.94364 1 20800 20800 0.15932 0.01943 1 3160900 + 25022 17268 16128 16184 28543 28543 0.20649305278834618 PRPWHWHWRRR 11 Unmodified _PRPWHWHWRRR_ 0 0 0 REV__ENST00000321582.9_1_9:124855435-124855555:-|nuORF REV__ENST00000321582.9_1_9:124855435-124855555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 835.4431762695312 2 835.445426 1668.8763 NaN NaN NaN NaN NaN NaN NaN 43.63 1 44.278 43.778 44.778 0.64872 0 0 0 1.0082 1 19995 19995 0 0 1 + 25023 15322 16129 16185 28544 28544 0.0686159904194028 PRQIFFGL 8 Unmodified _PRQIFFGL_ 0 0 0 ENSG00000137547|ENST00000260102|MRPL15 ENSG00000137547|ENST00000260102|MRPL15 ENSG00000137547|ENST00000260102|MRPL15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.267333984375 2 489.281995 976.549437 NaN NaN NaN NaN NaN NaN NaN 49.927 1 50.584 50.084 51.084 0.65735 0 0 0 0.79116 1 22836 22836 19.439 4.8573 1 25024 3024 16130 16186 28545 28545 0.06022385376661532 PRQPPGRD 8 Unmodified _PRQPPGRD_ 0 0 0 REV__nc|ENSG00000063046|P23588-2|EIF4B REV__nc|ENSG00000063046|P23588-2|EIF4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 461.74652099609375 2 461.746308 921.478063 3.0254 0.0013969 -1.8257 -0.00084301 1.1997 0.00055394 461.7453387395796 88.285 0.30217 88.963 88.804 89.107 0.67818 15 12 2 0 0 0 0.72385 1 40672 40672 3.9444 0 1 661010 + 25025 10404 16131 16187 28546 28546 0.014182656719981424 PRQPPGRD 8 Unmodified _PRQPPGRD_ 0 0 0 REV__nc|ENSG00000063046|P23588-2|EIF4B REV__nc|ENSG00000063046|P23588-2|EIF4B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 461.746308 921.478063 3.0228 0.0013958 -1.8057 -0.00083377 1.2171 0.00056199 461.7452961713475 88.657 0.1832 88.908 88.792 88.975 0.25118 -0.02725 5.4673E-06 NaN 3.9444 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 520290 + 25026 10404 16131 16187 0.014182656719981424 PRQQLSRIM 9 Unmodified _PRQQLSRIM_ 0 0 0 REV__ENSG00000126351|ENST00000450525|THRA REV__ENSG00000126351|ENST00000450525|THRA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.8822937011719 3 376.881725 1127.62335 2.9102 0.0010968 -1.5292 -0.00057631 1.3811 0.0005205 376.88081581528184 26.668 0.14605 26.668 26.619 26.765 0 12 9 2 0 0 0 0.36069 1 12025 12025 10.151 4.8537 1 338540 + 25027 11708 16132 16188 28547 28547 0.06463985476671041 PRQQLSRIM 9 Unmodified _PRQQLSRIM_ 0 0 0 REV__ENSG00000126351|ENST00000450525|THRA REV__ENSG00000126351|ENST00000450525|THRA MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 376.881725 1127.62335 2.9102 0.0010968 -1.5292 -0.00057631 1.3811 0.0005205 376.88081581528184 26.668 0.14605 26.668 26.619 26.765 0 0.051294 -0.0015032 NaN 10.151 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 338540 + 25028 11708 16132 16188 0.06463985476671041 PRQQLSRIM 9 Unmodified _PRQQLSRIM_ 0 0 0 REV__ENSG00000126351|ENST00000450525|THRA REV__ENSG00000126351|ENST00000450525|THRA MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 376.881725 1127.62335 2.7738 0.0010454 -0.23878 -8.9992E-05 2.535 0.00095538 376.88138581361164 26.527 0.20819 26.792 26.69 26.898 0.26489 0.17495 -4.4236E-05 NaN 10.151 21 14 2 NaN NaN NaN NaN 0 NaN NaN 0 148210 + 25029 11708 16132 16188 0.06463985476671041 PRQRKMRV 8 Unmodified _PRQRKMRV_ 0 0 0 nc|ENSG00000261236|Q14137-2|BOP1;ENSG00000261236|ENST00000569669|BOP1 nc|ENSG00000261236|Q14137-2|BOP1 nc|ENSG00000261236|Q14137-2|BOP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.551513671875 3 357.55031 1069.6291 2.7042 0.0009669 0.64768 0.00023158 3.3519 0.0011985 357.5503510582059 48.878 0.77207 49.14 48.816 49.588 0.26209 61 29 3 0 0 0 0.14348 1 22506 22506 0.40072 0 1 1026800 25030 6308 16133 16189 28548 28548 0.09707128778995866 PRQRPRLRWRK 11 Unmodified _PRQRPRLRWRK_ 0 0 0 REV__ENST00000331593.5_1_1:39957407-39957644:+|nuORF REV__ENST00000331593.5_1_1:39957407-39957644:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.9871826171875 3 516.986798 1547.93856 3.5219 0.0018208 -1.8711 -0.00096736 1.6507 0.00085341 516.9853492957319 48.102 0.44907 48.755 48.586 49.035 0.65356 37 16 3 0 0 0 0.91459 1 22038 22038 0.094841 0 1 560920 + 25031 15382 16134 16190 28549 28549 0.1865132539028309 PRRPRRPRRYP 11 Unmodified _PRRPRRPRRYP_ 0 0 0 ENST00000526510.5_1_11:67168691-67168991:-|nuORF ENST00000526510.5_1_11:67168691-67168991:-|nuORF ENST00000526510.5_1_11:67168691-67168991:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 753.874267578125 2 753.953084 1505.89161 NaN NaN NaN NaN NaN NaN NaN 95.321 1 95.403 94.903 95.903 0.082001 0 0 0 1.0072 1 50359 50359 1.3295 0 1 25032 8677 16135 16191 28550 28550 0.15890465839152057 PRRQIWRRRRK 11 Unmodified _PRRQIWRRRRK_ 0 0 0 REV__ENST00000257749.8_2_6:90661229-90661412:-|nuORF REV__ENST00000257749.8_2_6:90661229-90661412:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 804.501953125 2 804.500733 1606.98691 NaN NaN NaN NaN NaN NaN NaN 48.627 1 49.454 48.954 49.954 0.82705 0 0 0 1.0082 1 22153 22153 0 0 1 + 25033 14942 16136 16192 28551 28551 0.20769819030169856 PRRQLLLIQRR 11 Unmodified _PRRQLLLIQRR_ 0 0 0 REV__ENST00000504920.5_1_4:7065798-7065906:-|nuORF REV__ENST00000504920.5_1_4:7065798-7065906:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.98797607421875 4 362.987572 1447.92118 2.6095 0.00094723 -1.9365 -0.00070292 0.67305 0.00024431 363.2377621386375 43.487 0.07143 43.487 43.444 43.516 0 20 11 2 0 0 0 0.91104 1 19829 19829 1.2148 0.76031 1 19292000 + 25034 16914 16137 16193 28552 28552 0.2151398506462101 PRRQLLLIQRR 11 Unmodified _PRRQLLLIQRR_ 0 0 0 REV__ENST00000504920.5_1_4:7065798-7065906:-|nuORF REV__ENST00000504920.5_1_4:7065798-7065906:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.9875793457031 4 362.987572 1447.92118 2.6101 0.00094744 -1.2502 -0.00045381 1.3599 0.00049363 362.9867153649912 45.957 0.38598 46.223 46.001 46.387 0.26561 26 16 2 0 0 0 0.91104 1 21028 21028 1.2148 0.76031 1 1752600 + 25035 16914 16137 16193 28553 28553 0.2151398506462101 PRRQLLLIQRR 11 Unmodified _PRRQLLLIQRR_ 0 0 0 REV__ENST00000504920.5_1_4:7065798-7065906:-|nuORF REV__ENST00000504920.5_1_4:7065798-7065906:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 362.987572 1447.92118 2.6095 0.00094723 -1.9365 -0.00070292 0.67305 0.00024431 363.2377621386375 43.487 0.07143 43.487 43.444 43.516 0 -0.11934 -0.00082375 NaN 1.2148 20 11 2 NaN NaN NaN NaN 0 NaN NaN 0 19292000 + 25036 16914 16137 16193 0.2151398506462101 PRRQLLLIQRR 11 Unmodified _PRRQLLLIQRR_ 0 0 0 REV__ENST00000504920.5_1_4:7065798-7065906:-|nuORF REV__ENST00000504920.5_1_4:7065798-7065906:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 362.987572 1447.92118 2.287 0.00083014 -0.53179 -0.00019303 1.7552 0.0006371 363.23803347135015 42.912 0.063065 43.726 43.672 43.735 0.81444 0.11934 0.0012158 NaN 1.2148 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 543880 + 25037 16914 16137 16193 0.2151398506462101 PRRQRPVLSL 10 Unmodified _PRRQRPVLSL_ 0 0 0 ENST00000567701.1_1_16:52689792-52689843:+|nuORF ENST00000567701.1_1_16:52689792-52689843:+|nuORF ENST00000567701.1_1_16:52689792-52689843:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 408.2588195800781 3 407.922801 1220.74657 NaN NaN NaN NaN NaN NaN NaN 69.427 1 69.681 69.181 70.181 0.25443 0 0 0 1.0012 1 31794 31794 0.69767 0 1 25038 9061 16138 16194 28554 28554 0.1450298491945432 PRRRGKWKR 9 Unmodified _PRRRGKWKR_ 0 0 0 nc|ENSG00000130159|Q9BQ95-4|ECSIT nc|ENSG00000130159|Q9BQ95-4|ECSIT nc|ENSG00000130159|Q9BQ95-4|ECSIT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.2783813476562 2 620.386514 1238.75848 NaN NaN NaN NaN NaN NaN NaN 38.74 1 39.538 39.038 40.038 0.79762 0 0 0 0.91238 1 17549 17549 0.52476 0 1 25039 9635 16139 16195 28555 28555 0.14864646453293062 PRRRHKKR 8 Unmodified _PRRRHKKR_ 0 0 0 REV__ENSG00000168517|ENST00000589230|HEXIM2 REV__ENSG00000168517|ENST00000589230|HEXIM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.3639526367188 2 567.365582 1132.71661 3.3338 0.0018915 -2.1861 -0.0012403 1.1477 0.00065116 567.3641840664424 45.015 0.26936 45.015 44.839 45.109 0 32 13 3 0 0 0 0.7471 1 20610 20610 0.69038 0.16561 1 3482500 + 25040 13353 16140 16196 28556 28556 0.1555609076476685 PRRRHKKR 8 Unmodified _PRRRHKKR_ 0 0 0 REV__ENSG00000168517|ENST00000589230|HEXIM2 REV__ENSG00000168517|ENST00000589230|HEXIM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.3655395507812 2 567.365582 1132.71661 3.7271 0.0021147 -2.1439 -0.0012164 1.5833 0.00089829 567.3642493249432 43.656 0.15015 44.305 44.204 44.354 0.64872 14 9 2 0 0 0 0.7471 1 19981 19981 0.69038 0.088878 1 2713900 + 25041 13353 16140 16196 28557 28557 0.1555609076476685 PRRRHKKR 8 Unmodified _PRRRHKKR_ 0 0 0 REV__ENSG00000168517|ENST00000589230|HEXIM2 REV__ENSG00000168517|ENST00000589230|HEXIM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.365234375 2 567.365582 1132.71661 NaN NaN NaN NaN NaN NaN NaN 55.254 1 55.922 55.422 56.422 0.66798 0 0 0 0.99035 1 25282 25282 0.69038 0.69038 1 + 25042 13353 16140 16196 28558 28558 0.1555609076476685 PRRRHKKR 8 Unmodified _PRRRHKKR_ 0 0 0 REV__ENSG00000168517|ENST00000589230|HEXIM2 REV__ENSG00000168517|ENST00000589230|HEXIM2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 567.365582 1132.71661 3.7271 0.0021147 -2.1439 -0.0012164 1.5833 0.00089829 567.3642493249432 43.656 0.15015 44.305 44.204 44.354 0.64872 -0.1027 0.001061 NaN 0.69038 14 9 2 NaN NaN NaN NaN 0 NaN NaN 0 2713900 + 25043 13353 16140 16196 0.1555609076476685 PRRRIPGAGVF 11 Unmodified _PRRRIPGAGVF_ 0 0 0 ENST00000303045.10_2_8:139925879-139925975:-|nuORF ENST00000303045.10_2_8:139925879-139925975:-|nuORF ENST00000303045.10_2_8:139925879-139925975:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.248779296875 3 409.247396 1224.72036 NaN NaN NaN NaN NaN NaN NaN 14.977 1 15.631 15.131 16.131 0.65356 0 0 0 1.0072 1 6744 6744 1.3296 0.1363 1 25044 6818 16141 16197 28559 28559 0.11698715747979804 PRRRKVGVKK 10 Unmodified _PRRRKVGVKK_ 0 0 0 REV__nc|ENSG00000189319|Q14153-2|FAM53B REV__nc|ENSG00000189319|Q14153-2|FAM53B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 612.4133911132812 2 612.412198 1222.80984 NaN NaN NaN NaN NaN NaN NaN 36.651 1 36.651 36.151 37.151 0 0 0 0 1.0015 1 16635 16635 0.40072 0.050084 1 + 25045 14181 16142 16198 28560 28560 0.2073497042733834 PRRRRIKPPLQ 11 Unmodified _PRRRRIKPPLQ_ 0 0 0 ENSG00000196074|ENST00000357552|SYCP2 ENSG00000196074|ENST00000357552|SYCP2 ENSG00000196074|ENST00000357552|SYCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 708.9561157226562 2 708.954761 1415.89497 3.7734 0.0026752 -1.6417 -0.0011639 2.1318 0.0015113 708.9536403685347 49.986 0.49932 50.248 50.029 50.529 0.26146 31 18 2 0 0 0 0.91459 2 22815 22815;22898 0.30703 0.03801 1 714120 25046 5715 16143 16199 28561;28562 28561 0.2036571589317191 PRRRRKKSPRR 11 Unmodified _PRRRRKKSPRR_ 0 0 0 ENST00000337014.10_2_17:80376485-80377700:+|nuORF ENST00000337014.10_2_17:80376485-80377700:+|nuORF ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.4975891113281 4 373.993455 1491.94471 2.3076 0.00086304 -0.31569 -0.00011807 1.992 0.00074498 373.9933458858455 43.942 1.1451 44.763 44.123 45.268 0.82074 98 66 2 0 0 0 0.91462 1 19984 19984 0.08335 0 1 1932600 25047 7037 16144 16200 28563 28563 0.21841843621791668 PRRRRRCRLRL 11 Unmodified _PRRRRRCRLRL_ 0 0 0 REV__ENST00000315367.3_1_8:96146046-96166295:+|nuORF REV__ENST00000315367.3_1_8:96146046-96166295:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 769.002685546875 2 769.481486 1536.94842 NaN NaN NaN NaN NaN NaN NaN 12.877 1 12.877 12.377 13.377 0 0 0 0 1.0082 1 5619 5619 0 0 1 + 25048 15289 16145 16201 28564 28564 0.20142190124033732 PRRRRRRERRL 11 Unmodified _PRRRRRRERRL_ 0 0 0 ENST00000254998.2_1_20:23331374-23334728:+|nuORF ENST00000254998.2_1_20:23331374-23334728:+|nuORF ENST00000254998.2_1_20:23331374-23334728:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 804.0076293945312 2 804.006713 1605.99887 NaN NaN NaN NaN NaN NaN NaN 65.955 1 65.955 65.455 66.455 0 0 0 0 1.0082 1 31455 31455 0 0 1 25049 6516 16146 16202 28565 28565 0.22011435773379162 PRRRRRRMRRR 11 Unmodified _PRRRRRRMRRR_ 0 0 0 REV__nc|ENSG00000182872|P0DW28|RBM10 REV__nc|ENSG00000182872|P0DW28|RBM10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 826.5115966796875 2 826.514183 1651.01381 NaN NaN NaN NaN NaN NaN NaN 104.33 1 104.33 103.83 104.83 0 0 0 0 1.0082 1 57421 57421 0 0 1 + 25050 18071 16147 16203 28566 28566 0.21434604369687804 PRRRRRRRHCP 11 Unmodified _PRRRRRRRHCP_ 0 0 0 ENST00000487413.1_1_3:50453473-50541058:-|nuORF ENST00000487413.1_1_3:50453473-50541058:-|nuORF ENST00000487413.1_1_3:50453473-50541058:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 773.6136474609375 2 773.453259 1544.89197 NaN NaN NaN NaN NaN NaN NaN 52.319 1 52.581 52.081 53.081 0.26227 0 0 0 1.008 1 23917 23917 0.30703 0.30703 1 25051 8351 16148 16204 28567 28567 0.1413156228736625 PRRRRRRRRRE 11 Unmodified _PRRRRRRRRRE_ 0 0 0 ENST00000372324.5_1_1:44444922-44446927:+|nuORF;ENST00000497866.5_1_1:44444922-44446927:+|nuORF ENST00000372324.5_1_1:44444922-44446927:+|nuORF ENST00000372324.5_1_1:44444922-44446927:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 825.5133666992188 2 825.515237 1649.01592 NaN NaN NaN NaN NaN NaN NaN 71.803 1 71.803 71.303 72.303 0 0 0 0 1.0082 1 34906 34906 0 0 1 25052 7334 16149 16205 28568 28568 0.2173735637916252 PRRRVRVRH 9 Unmodified _PRRRVRVRH_ 0 0 0 REV__ENST00000381031.7_1_22:46688787-46688886:+|nuORF REV__ENST00000381031.7_1_22:46688787-46688886:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 411.2629699707031 3 411.262151 1230.76462 NaN NaN NaN NaN NaN NaN NaN 36.83 1 37.624 37.124 38.124 0.79342 0 0 0 0.91356 1 16690 16690 0.23584 0 1 + 25053 15890 16150 16206 28569 28569 0.15847164684828385 PRRRVRVRH 9 Unmodified _PRRRVRVRH_ 0 0 0 REV__ENST00000381031.7_1_22:46688787-46688886:+|nuORF REV__ENST00000381031.7_1_22:46688787-46688886:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 411.2626953125 3 411.262151 1230.76462 NaN NaN NaN NaN NaN NaN NaN 36.963 1 37.756 37.256 38.256 0.79342 0 0 0 0.91356 1 16749 16749 0.23584 0.076522 1 + 25054 15890 16150 16206 28570 28570 0.15847164684828385 PRRRVRVRH 9 Unmodified _PRRRVRVRH_ 0 0 0 REV__ENST00000381031.7_1_22:46688787-46688886:+|nuORF REV__ENST00000381031.7_1_22:46688787-46688886:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 411.2630310058594 3 411.262151 1230.76462 NaN NaN NaN NaN NaN NaN NaN 38.423 1 39.221 38.721 39.721 0.79762 0 0 0 0.90965 1 17404 17404 1.1933 0.9575 1 + 25055 15890 16150 16206 28571 28571 0.15847164684828385 PRRRWWWLQRR 11 Unmodified _PRRRWWWLQRR_ 0 0 0 ENST00000591247.5_1_17:42113394-42113565:-|nuORF ENST00000591247.5_1_17:42113394-42113565:-|nuORF ENST00000591247.5_1_17:42113394-42113565:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 848.4847412109375 2 848.482008 1694.94946 NaN NaN NaN NaN NaN NaN NaN 90.924 1 91 90.5 91.5 0.075279 0 0 0 1.0082 1 46976 46976 0 0 1 25056 9234 16151 16207 28572 28572 0.12978727764561881 PRRRWWWLQRR 11 Unmodified _PRRRWWWLQRR_ 0 0 0 ENST00000591247.5_1_17:42113394-42113565:-|nuORF ENST00000591247.5_1_17:42113394-42113565:-|nuORF ENST00000591247.5_1_17:42113394-42113565:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 848.4892578125 2 848.482008 1694.94946 NaN NaN NaN NaN NaN NaN NaN 44.654 1 44.924 44.424 45.424 0.2694 0 0 0 1.0082 1 20408 20408 0 0 1 25057 9234 16151 16207 28573 28573 0.12978727764561881 PRRRWWWLQRR 11 Unmodified _PRRRWWWLQRR_ 0 0 0 ENST00000591247.5_1_17:42113394-42113565:-|nuORF ENST00000591247.5_1_17:42113394-42113565:-|nuORF ENST00000591247.5_1_17:42113394-42113565:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 848.4820556640625 2 848.482008 1694.94946 NaN NaN NaN NaN NaN NaN NaN 94.321 1 94.581 94.081 95.081 0.25975 0 0 0 1.0082 1 43343 43343 0 0 1 25058 9234 16151 16207 28574 28574 0.12978727764561881 PRRRWWWLQRR 11 Unmodified _PRRRWWWLQRR_ 0 0 0 ENST00000591247.5_1_17:42113394-42113565:-|nuORF ENST00000591247.5_1_17:42113394-42113565:-|nuORF ENST00000591247.5_1_17:42113394-42113565:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 848.4110107421875 2 848.482008 1694.94946 NaN NaN NaN NaN NaN NaN NaN 57.801 1 58.47 57.97 58.97 0.66829 0 0 0 1.0082 1 26451 26451 0 0 1 25059 9234 16151 16207 28575 28575 0.12978727764561881 PRRSAPRRNK 10 Unmodified _PRRSAPRRNK_ 0 0 0 ENST00000434984.2_1_X:56269451-56269685:-|nuORF ENST00000434984.2_1_X:56269451-56269685:-|nuORF ENST00000434984.2_1_X:56269451-56269685:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.3749389648438 2 619.371061 1236.72757 4.4591 0.0027618 0.81305 0.00050358 5.2721 0.0032654 619.3715448612454 97.342 0.41478 97.631 97.378 97.793 0.28923 31 19 2 0 0 0 0.94099 1 44683 44683 0.40072 0.050084 1 4492100 25060 7887 16152 16208 28576 28576 0.11867448348402831 PRRWRRWRRRM 11 Unmodified _PRRWRRWRRRM_ 0 0 0 REV__UNC80|p.G757Vfs*14|1|0.06|ENSG00000144406|chr2:209820617-209820618|-/TCAT|frameshift_variant REV__UNC80|p.G757Vfs*14|1|0.06|ENSG00000144406|chr2:209820617-209820618|-/TCAT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 856.4940795898438 2 856.492385 1710.97022 NaN NaN NaN NaN NaN NaN NaN 74.38 1 75.066 74.566 75.566 0.68662 0 0 0 1.0082 1 35949 35949 0 0 1 + 25061 18243 16153 16209 28577 28577 0.14316994872569921 PRRWWALWEWR 11 Unmodified _PRRWWALWEWR_ 0 0 0 REV__ENST00000465124.1_1_9:127634977-127635226:+|nuORF REV__ENST00000465124.1_1_9:127634977-127635226:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 821.408203125 2 821.431119 1640.84768 NaN NaN NaN NaN NaN NaN NaN 107.77 1 107.77 107.27 108.27 0 0 0 0 1.0082 1 59086 59086 0 0 1 + 25062 16538 16154 16210 28578 28578 0.052894366221607925 PRRYRYRKFHF 11 Unmodified _PRRYRYRKFHF_ 0 0 0 REV__nc|ENSG00000105298|Q8WUQ7-2|CACTIN REV__nc|ENSG00000105298|Q8WUQ7-2|CACTIN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 813.4519653320312 2 813.449843 1624.88513 NaN NaN NaN NaN NaN NaN NaN 94.931 1 94.931 94.431 95.431 0 0 0 0 1.008 1 51020 51020 0.30703 0.03801 1 + 25063 17886 16155 16211 28579 28579 0.09768527887740674 PRRYRYRKFHF 11 Unmodified _PRRYRYRKFHF_ 0 0 0 REV__nc|ENSG00000105298|Q8WUQ7-2|CACTIN REV__nc|ENSG00000105298|Q8WUQ7-2|CACTIN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 813.44970703125 2 813.449843 1624.88513 NaN NaN NaN NaN NaN NaN NaN 103.08 1 103.68 103.18 104.18 0.59821 0 0 0 1.0082 1 47699 47699 0 0 1 + 25064 17886 16155 16211 28580 28580 0.09768527887740674 PRSVPLNI 8 Unmodified _PRSVPLNI_ 0 0 0 nc|ENSG00000147548|Q9BZ95-4|NSD3;nc|ENSG00000147548|Q9BZ95-2|NSD3;nc|ENSG00000147548|Q9BZ95-5|NSD3;ENSG00000147548|ENST00000317025|NSD3 nc|ENSG00000147548|Q9BZ95-4|NSD3 nc|ENSG00000147548|Q9BZ95-4|NSD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.2729187011719 2 448.271627 894.528701 3.0219 0.0013546 -0.37947 -0.0001701 2.6425 0.0011845 448.271451077134 34.068 0.46032 34.689 34.431 34.892 0.62031 39 23 2 0 0 0 0.21011 2 15600 15547;15600 42.095 5.9675 1 1671900 25065 3572 16156 16212 28581;28582 28582 0.07721794996984954 PRVQLPKELRI 11 Unmodified _PRVQLPKELRI_ 0 0 0 REV__ENSG00000086570|ENST00000261800|FAT2 REV__ENSG00000086570|ENST00000261800|FAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.7366943359375 3 450.285628 1347.83505 3.0877 0.0013904 4.4121 0.0019867 7.4998 0.003377 450.28684703028625 59.492 0.21529 60.157 60.059 60.274 0.66503 10 8 2 0 0 0 0.81399 1 27216 27216 6.2344 3.9816 1 409750 + 25066 10656 16157 16213 28583 28583 0.17504980439252904 PRVQLPKELRI 11 Unmodified _PRVQLPKELRI_ 0 0 0 REV__ENSG00000086570|ENST00000261800|FAT2 REV__ENSG00000086570|ENST00000261800|FAT2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 450.285628 1347.83505 2.8608 0.0012882 6.791 0.0030579 9.6519 0.0043461 450.2885609529295 60.213 0.10369 60.469 60.399 60.503 0.25578 0.15578 0.0010123 NaN 6.2344 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 573390 + 25067 10656 16157 16213 0.17504980439252904 PRVQLPKELRI 11 Unmodified _PRVQLPKELRI_ 0 0 0 REV__ENSG00000086570|ENST00000261800|FAT2 REV__ENSG00000086570|ENST00000261800|FAT2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 450.285628 1347.83505 3.0877 0.0013904 4.4121 0.0019867 7.4998 0.003377 450.28684703028625 59.492 0.21529 60.157 60.059 60.274 0.66503 -0.15578 -0.0022013 NaN 6.2344 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 409750 + 25068 10656 16157 16213 0.17504980439252904 PRVRRRRRLR 10 Unmodified _PRVRRRRRLR_ 0 0 0 ENST00000436427.1_3_1:43148660-43161876:+|nuORF ENST00000436427.1_3_1:43148660-43161876:+|nuORF ENST00000436427.1_3_1:43148660-43161876:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1420.7940673828125 1 1420.93086 1419.92358 2.6545 0.0037719 0.67574 0.00096018 3.3302 0.004732 1420.9287515708875 83.151 0.032944 83.151 83.134 83.167 0 5 3 2 0 0 0 0.12676 1 41811 41811 0 0 1 9655400 25069 7898 16158 16214 28584 28584 0.23041878312960762 PRVYKLSNL 9 Unmodified _PRVYKLSNL_ 0 0 0 REV__ENST00000388829.3_1_X:13396982-13397291:-|nuORF REV__ENST00000388829.3_1_X:13396982-13397291:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.8281860351562 2 545.324391 1088.63423 3.7377 0.0020383 -0.0063472 -3.4613E-06 3.7314 0.0020348 545.3245191369344 45.22 0.19475 45.871 45.807 46.001 0.65104 11 7 2 0 0 0 0.98132 1 20758 20758 4.3292 0.73274 1 184130 + 25070 13691 16159 16215 28585 28585 0.09345711122591638 PRWKRYRRWMK 11 Unmodified _PRWKRYRRWMK_ 0 0 0 nc|ENSG00000059769|Q9H1X3-2|DNAJC25;ENST00000463589.5_1_9:114405367-114415499:+|nuORF;ENSG00000059769|ENST00000313525|DNAJC25 nc|ENSG00000059769|Q9H1X3-2|DNAJC25 nc|ENSG00000059769|Q9H1X3-2|DNAJC25 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 831.9684448242188 2 831.967345 1661.92014 NaN NaN NaN NaN NaN NaN NaN 83.522 1 83.522 83.022 84.022 0 0 0 0 1.0082 1 42093 42093 0 0 1 25071 637 16160 16216 28586 28586 0.11565447424050035 PRWRRRWFVL 10 Unmodified _PRWRRRWFVL_ 0 0 0 ENSG00000142675|ENST00000361530|CNKSR1;nc|ENSG00000142675|Q969H4|CNKSR1 ENSG00000142675|ENST00000361530|CNKSR1 ENSG00000142675|ENST00000361530|CNKSR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 736.4309692382812 2 736.430922 1470.84729 NaN NaN NaN NaN NaN NaN NaN 104.76 1 105.36 104.86 105.86 0.59885 0 0 0 1.002 1 48391 48391 0 0 1 25072 3325 16161 16217 28587 28587 0.13070061692974377 PRWYFRLRKQY 11 Unmodified _PRWYFRLRKQY_ 0 0 0 REV__ENSG00000117215|ENST00000375105|PLA2G2D REV__ENSG00000117215|ENST00000375105|PLA2G2D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 806.9453735351562 2 806.946602 1611.87865 NaN NaN NaN NaN NaN NaN NaN 98.511 1 98.811 98.311 99.311 0.29987 0 0 0 1.008 1 45385 45385 0.30703 0.30703 1 + 25073 11436 16162 16218 28588 28588 0.09718589936392164 PRYPFPREV 9 Unmodified _PRYPFPREV_ 0 0 0 ENST00000563680.1_1_16:30004823-30006585:-|nuORF ENST00000563680.1_1_16:30004823-30006585:-|nuORF ENST00000563680.1_1_16:30004823-30006585:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 387.8810729980469 3 387.545219 1159.61383 2.6726 0.0010358 -0.12688 -4.9171E-05 2.5458 0.0009866 387.5452230719179 32.687 0.47318 32.687 32.504 32.978 0 49 31 2 0 0 0 0.9389 1 14841 14841 5.0475 0.15051 1 275050 25074 9017 16163 16219 28589 28589 0.04040540462779063 PRYPFPREV 9 Unmodified _PRYPFPREV_ 0 0 0 ENST00000563680.1_1_16:30004823-30006585:-|nuORF ENST00000563680.1_1_16:30004823-30006585:-|nuORF ENST00000563680.1_1_16:30004823-30006585:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 387.545219 1159.61383 2.4836 0.00096251 0.042101 1.6316E-05 2.5257 0.00097883 387.5451741787087 31.729 0.058146 32.517 32.469 32.527 0.78795 -0.085099 0.0001679 NaN 5.0475 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 879440 25075 9017 16163 16219 0.04040540462779063 PRYPRLGV 8 Unmodified _PRYPRLGV_ 0 0 0 REV__nc|ENSG00000203797|Q99489-2|DDO REV__nc|ENSG00000203797|Q99489-2|DDO MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 319.8601379394531 3 319.859138 956.555585 NaN NaN NaN NaN NaN NaN NaN 48.741 1 48.741 48.241 49.241 0 0 0 0 0.99035 1 22322 22322 3.9444 2.2918 1 + 25076 14390 16164 16220 28590 28590 0.07556903608190169 PSAPPTPVQL 10 Unmodified _PSAPPTPVQL_ 0 0 0 REV__ENST00000481757.5_1_2:241513848-241514670:+|nuORF REV__ENST00000481757.5_1_2:241513848-241514670:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.78375244140625 2 503.782025 1005.5495 3.1694 0.0015967 -0.34719 -0.00017491 2.8222 0.0014218 503.7821584802599 35.966 0.31939 36.757 36.606 36.925 0.79131 24 12 3 0 0 0 0.24154 1 16287 16287 34.402 2.0962 1 546390 + 25077 16708 16165 16221 28591 28591 0.04694340585979262 PSCRRATPI 9 Unmodified _PSCRRATPI_ 0 0 0 ENSG00000128016|ENST00000597629|ZFP36 ENSG00000128016|ENST00000597629|ZFP36 ENSG00000128016|ENST00000597629|ZFP36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.774169921875 2 500.771468 999.528384 3.198 0.0016015 0.74123 0.00037119 3.9393 0.0019727 500.7718813069057 31.684 0.30353 31.684 31.521 31.825 0 49 28 2 0 0 0 0.64206 1 14341 14341 10.074 1.4806 1 522290 25078 2499 16166 16222 28592 28592 0.028600520054965273 PSCRRATPI 9 Unmodified _PSCRRATPI_ 0 0 0 ENSG00000128016|ENST00000597629|ZFP36 ENSG00000128016|ENST00000597629|ZFP36 ENSG00000128016|ENST00000597629|ZFP36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.7729187011719 2 500.771468 999.528384 3.6864 0.0018461 -0.51379 -0.00025729 3.1726 0.0015888 500.77141025971815 31.608 0.46321 31.863 31.541 32.004 0.25452 75 35 3 0 0 0 0.26277 2 14401 14357;14401 19.257 3.1079 1 548270 25079 2499 16166 16222 28593;28594 28594 0.028600520054965273 PSCRRATPI 9 Unmodified _PSCRRATPI_ 0 0 0 ENSG00000128016|ENST00000597629|ZFP36 ENSG00000128016|ENST00000597629|ZFP36 ENSG00000128016|ENST00000597629|ZFP36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.7735900878906 2 500.771468 999.528384 3.2351 0.0016201 0.074447 3.7281E-05 3.3096 0.0016573 500.77165246549174 31.109 0.39629 31.726 31.485 31.881 0.61737 60 25 3 0 0 0 0.59776 1 14254 14254 10.824 2.9138 1 731810 25080 2499 16166 16222 28595 28595 0.028600520054965273 PSDEKEPLI 9 Unmodified _PSDEKEPLI_ 0 0 0 REV__nc|ENSG00000126838|P20742-2|PZP REV__nc|ENSG00000126838|P20742-2|PZP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.2705688476562 2 514.268947 1026.52334 3.2099 0.0016508 -0.35477 -0.00018245 2.8552 0.0014683 514.268718040613 44.274 0.41275 44.543 44.419 44.832 0.2694 51 21 3 0 0 0 0.027384 1 20276 20276 58.679 10.333 1 3686500 + 25081 11722 16167 16223 28596 28596 0.011140266238726326 PSDEYVIL 8 Unmodified _PSDEYVIL_ 0 0 0 REV__nc|ENSG00000102763|A3KMH1-2|VWA8 REV__nc|ENSG00000102763|A3KMH1-2|VWA8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.24078369140625 2 468.239658 934.464763 3.0166 0.0014125 0.26171 0.00012255 3.2783 0.001535 468.2396742240719 67.189 0.59103 67.439 67.185 67.776 0.25011 49 36 2 0 0 0 0.42655 2 30753 30753;30870 26.341 6.9023 1 546630 + 25082 10938 16168 16224 28597;28598 28597 -0.005090299506036899 PSDEYVIL 8 Unmodified _PSDEYVIL_ 0 0 0 REV__nc|ENSG00000102763|A3KMH1-2|VWA8 REV__nc|ENSG00000102763|A3KMH1-2|VWA8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 468.2406921386719 2 468.239658 934.464763 2.9158 0.0013653 0.15857 7.4248E-05 3.0744 0.0014395 468.2397163667149 66.587 0.55891 67.244 67.04 67.599 0.65672 44 31 2 0 0 0 0.31786 3 30546 30501;30546;30615 34.187 11.76 1 474280 + 25083 10938 16168 16224 28599;28600;28601 28600 -0.005090299506036899 PSDGDIAMR 9 Unmodified _PSDGDIAMR_ 0 0 0 nc|ENSG00000142530|Q6IPT2-2|GARIN5A;ENSG00000142530|ENST00000600100|GARIN5A nc|ENSG00000142530|Q6IPT2-2|GARIN5A nc|ENSG00000142530|Q6IPT2-2|GARIN5A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 481.225830078125 2 481.224017 960.43348 NaN NaN NaN NaN NaN NaN NaN 36.774 1 36.774 36.274 37.274 0 0 0 0 0.90111 1 16690 16690 3.2813 1.2216 1 25084 3313 16169 16225 28602 28602 -0.04831926256349561 PSDMAAAL 8 Unmodified _PSDMAAAL_ 0 0 0 REV__ENST00000597227.5_1_19:50432514-50434160:+|nuORF REV__ENST00000597227.5_1_19:50432514-50434160:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 775.3701171875 1 775.365466 774.35819 3.958 0.0030689 0.32334 0.00025071 4.2814 0.0033196 775.3654779256132 42.449 0.35577 42.719 42.535 42.891 0.27021 29 16 2 0 0 0 0.37185 1 19276 19276 30.225 5.5509 1 1996400 + 25085 17618 16170 16226 28603 28603 -0.038014837168020676 PSDMAAALL 9 Unmodified _PSDMAAALL_ 0 0 0 REV__ENST00000597227.5_1_19:50432514-50434160:+|nuORF REV__ENST00000597227.5_1_19:50432514-50434160:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 444.7294921875 2 444.728403 887.442254 3.0508 0.0013568 -0.55148 -0.00024526 2.4993 0.0011115 444.72828300760733 66.799 0.43332 67.049 66.831 67.264 0.2501 63 24 4 0 0 0 0.032303 2 30601 30550;30601 54.774 6.4277 1 4757200 + 25086 17618 16171 16227 28604;28605 28605 -0.005969526198896347 PSDMAAALL 9 Unmodified _PSDMAAALL_ 0 0 0 REV__ENST00000597227.5_1_19:50432514-50434160:+|nuORF REV__ENST00000597227.5_1_19:50432514-50434160:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 444.72998046875 2 444.728403 887.442254 3.1688 0.0014092 -0.15706 -6.9849E-05 3.0117 0.0013394 444.7283812233058 66.23 0.44899 66.886 66.626 67.075 0.65672 72 26 4 0 0 0 0.032303 2 30365 30319;30365 54.774 6.4277 1 4405600 + 25087 17618 16171 16227 28606;28607 28607 -0.005969526198896347 PSDMAAALL 9 Unmodified _PSDMAAALL_ 0 0 0 REV__ENST00000597227.5_1_19:50432514-50434160:+|nuORF REV__ENST00000597227.5_1_19:50432514-50434160:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 888.455810546875 1 888.44953 887.442254 4.0096 0.0035623 -0.054385 -4.8318E-05 3.9552 0.003514 888.449786859676 66.231 0.41119 66.887 66.664 67.075 0.65672 72 24 4 0 0 0 0.09451 1 30444 30444 34.102 0 1 5222000 + 25088 17618 16171 16227 28608 28608 -0.005969526198896347 PSDMAAALL 9 Unmodified _PSDMAAALL_ 0 0 0 REV__ENST00000597227.5_1_19:50432514-50434160:+|nuORF REV__ENST00000597227.5_1_19:50432514-50434160:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 444.728403 887.442254 2.2838 0.0010156 -0.38608 -0.0001717 1.8977 0.00084395 444.7284910296881 67.107 0.22691 67.107 66.96 67.187 0 0.12198 -9.9758E-05 NaN 54.774 56 29 3 NaN NaN NaN NaN 0 NaN NaN 0 3234700 + 25089 17618 16171 16227 -0.005969526198896347 PSDMAAALL 9 Unmodified _PSDMAAALL_ 0 0 0 REV__ENST00000597227.5_1_19:50432514-50434160:+|nuORF REV__ENST00000597227.5_1_19:50432514-50434160:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 444.728403 887.442254 3.0508 0.0013568 -0.55148 -0.00024526 2.4993 0.0011115 444.72828300760733 66.799 0.43332 67.049 66.831 67.264 0.2501 0.063894 -0.00024688 NaN 54.774 63 24 4 NaN NaN NaN NaN 0 NaN NaN 0 4757200 + 25090 17618 16171 16227 -0.005969526198896347 PSDMAAALL 9 Unmodified _PSDMAAALL_ 0 0 0 REV__ENST00000597227.5_1_19:50432514-50434160:+|nuORF REV__ENST00000597227.5_1_19:50432514-50434160:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 444.728403 887.442254 3.1688 0.0014092 -0.15706 -6.9849E-05 3.0117 0.0013394 444.7283812233058 66.23 0.44899 66.886 66.626 67.075 0.65672 -0.098931 0.00010394 NaN 54.774 72 26 4 NaN NaN NaN NaN 0 NaN NaN 0 4405600 + 25091 17618 16171 16227 -0.005969526198896347 PSDMAVALL 9 Unmodified _PSDMAVALL_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 916.4825439453125 1 916.480831 915.473554 3.5859 0.0032864 -0.50894 -0.00046644 3.077 0.00282 916.480107048889 69.484 0.21232 70.145 70.034 70.246 0.66072 18 14 2 0 0 0 0.079031 1 31852 31852 37.974 3.8716 1 472770 25092 5155 16172 16228 28609 28609 0.0124362041420909 PSDNPHVL 8 Unmodified _PSDNPHVL_ 0 0 0 ENSG00000145623|ENST00000274276|OSMR ENSG00000145623|ENST00000274276|OSMR ENSG00000145623|ENST00000274276|OSMR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 439.7210998535156 2 439.721967 877.429381 NaN NaN NaN NaN NaN NaN NaN 13.194 1 13.836 13.336 14.336 0.64272 0 0 0 0.93233 1 5923 5923 10.183 4.423 1 25093 3476 16173 16229 28610 28610 -0.014236476877727 PSDSERRL 8 Unmodified _PSDSERRL_ 0 0 0 ENSG00000065526|ENST00000375759|SPEN ENSG00000065526|ENST00000375759|SPEN ENSG00000065526|ENST00000375759|SPEN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.2512512207031 2 480.24888 958.483208 3.0147 0.0014478 1.4595 0.00070093 4.4742 0.0021487 480.2496117852729 40.516 0.14455 41.316 41.181 41.325 0.80014 11 9 2 0 0 0 0.52517 1 18340 18340 19.439 0 1 547440 25094 692 16174 16230 28611 28611 0.002305247439608138 PSEENTSFL 9 Unmodified _PSEENTSFL_ 0 0 0 REV__ENSG00000076864|ENST00000374765|RAP1GAP REV__ENSG00000076864|ENST00000374765|RAP1GAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.2356567382812 2 512.235104 1022.45566 3.2658 0.0016729 -2.3999 -0.0012293 0.86592 0.00044355 512.2337547283705 49.007 0.28299 49.834 49.722 50.005 0.82705 24 14 2 0 0 0 0.099775 1 22323 22323 32.786 6.5175 1 420570 + 25095 10547 16175 16231 28612 28612 -0.05467423306959063 PSETASLEP 9 Unmodified _PSETASLEP_ 0 0 0 REV__nc|ENSG00000122870|Q9H694-2|BICC1 REV__nc|ENSG00000122870|Q9H694-2|BICC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 931.4473876953125 1 930.441468 929.434192 3.7724 0.00351 -0.12697 -0.00011813 3.6454 0.0033919 930.4412082980398 35.987 0.3215 36.244 35.996 36.318 0.25768 21 14 2 0 0 0 0.3144 1 16335 16335 15.847 2.3393 1 376180 + 25096 11595 16176 16232 28613 28613 -0.03334808335648631 PSGAEDIDL 9 Unmodified _PSGAEDIDL_ 0 0 0 ENSG00000283268|ENST00000636508|TEX54 ENSG00000283268|ENST00000636508|TEX54 ENSG00000283268|ENST00000636508|TEX54 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 916.4317016601562 1 916.425818 915.418542 3.8145 0.0034957 0.39968 0.00036628 4.2142 0.003862 916.4261354170665 40.375 0.31328 40.375 40.199 40.512 0 17 10 3 0 0 0 0.071101 1 18375 18375 39.957 13.074 1 1402800 25097 6370 16177 16233 28614 28614 -0.04255094852703678 PSGAEDIDL 9 Unmodified _PSGAEDIDL_ 0 0 0 ENSG00000283268|ENST00000636508|TEX54 ENSG00000283268|ENST00000636508|TEX54 ENSG00000283268|ENST00000636508|TEX54 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 458.71875 2 458.716547 915.418542 2.8747 0.0013187 1.0346 0.00047457 3.9092 0.0017932 458.7168256538411 40.104 0.23841 40.371 40.277 40.515 0.26696 19 10 2 0 0 0 0.047285 1 18246 18246 48.346 19.859 1 972700 25098 6370 16177 16233 28615 28615 -0.04255094852703678 PSIFHVLILNL 11 Unmodified _PSIFHVLILNL_ 0 0 0 nc|ENSG00000177058|Q8NBW4-4|SLC38A9;nc|ENSG00000177058|Q8NBW4-3|SLC38A9;ENSG00000177058|ENST00000396865|SLC38A9 nc|ENSG00000177058|Q8NBW4-4|SLC38A9 nc|ENSG00000177058|Q8NBW4-4|SLC38A9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.594482421875 3 422.592058 1264.75434 2.8737 0.0012144 1.2875 0.00054411 4.1612 0.0017585 422.5926952162176 57.65 0.27084 57.65 57.493 57.764 0 41 31 2 0 0 0 0.88721 1 26533 26533 2.6312 0 1 1566800 25099 5099 16178 16234 28616 28616 0.13255699396404452 PSIWHENDED 10 Unmodified _PSIWHENDED_ 0 0 0 REV__nc|ENSG00000137474|Q13402-5|MYO7A REV__nc|ENSG00000137474|Q13402-5|MYO7A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 621.2548217773438 2 621.257099 1240.49965 NaN NaN NaN NaN NaN NaN NaN 92.488 1 92.741 92.241 93.241 0.25253 0 0 0 0.99464 1 42516 42516 6.2058 1.3088 1 + 25100 12113 16179 16235 28617 28617 -0.1109843888064006 PSKAKHFV 8 Unmodified _PSKAKHFV_ 0 0 0 REV__ENST00000509150.1_1_3:130569673-130573074:+|nuORF REV__ENST00000509150.1_1_3:130569673-130573074:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 457.22076416015625 2 457.266345 912.518136 NaN NaN NaN NaN NaN NaN NaN 67.031 1 67.031 66.531 67.531 0 0 0 0 0.99035 1 32082 32082 5.7604 0.52976 1 + 25101 16960 16180 16236 28618 28618 0.05837812342565485 PSKKGYLAQ 9 Unmodified _PSKKGYLAQ_ 0 0 0 REV__ENST00000548882.5_1_12:56232267-56233517:-|nuORF REV__ENST00000548882.5_1_12:56232267-56233517:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.1907958984375 3 331.190553 990.549831 NaN NaN NaN NaN NaN NaN NaN 76.74 1 77.364 76.864 77.864 0.62397 0 0 0 0.90519 1 37204 37204 2.2828 0 1 + 25102 11614 16181 16237 28619 28619 0.05417760305851971 PSKKRKKKKKK 11 Unmodified _PSKKRKKKKKK_ 0 0 0 REV__ENST00000392686.6_1_3:178977460-178977592:-|nuORF REV__ENST00000392686.6_1_3:178977460-178977592:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 692.4849243164062 2 692.485363 1382.95617 NaN NaN NaN NaN NaN NaN NaN 66.423 1 67.08 66.58 67.58 0.65672 0 0 0 1.0082 1 30452 30452 0 0 1 + 25103 15934 16182 16238 28620 28620 0.2800122787257351 PSKLRKHQK 9 Unmodified _PSKLRKHQK_ 0 0 0 ENST00000599145.1_1_19:58928113-58929148:+|nuORF;ENSG00000171574|ENST00000306910|ZNF584 ENST00000599145.1_1_19:58928113-58929148:+|nuORF ENST00000599145.1_1_19:58928113-58929148:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.349853515625 2 561.348732 1120.68291 NaN NaN NaN NaN NaN NaN NaN 70.878 1 71.135 70.635 71.635 0.25642 0 0 0 0.90777 1 32460 32460 1.6526 0 1 25104 4816 16183 16239 28621 28621 0.12739624482355794 PSKRHRDR 8 Unmodified _PSKRHRDR_ 0 0 0 ENSG00000063438|ENST00000684583|AHRR;nc|ENSG00000063438|A9YTQ3|AHRR;nc|ENSG00000063438|A9YTQ3-3|AHRR;nc|ENSG00000063438|A9YTQ3-2|AHRR;ENSG00000106546|ENST00000242057|AHR;AHR|p.Q667Pfs*7|1|0.3|ENSG00000106546|chr7:17339823-17339824|-/C|frameshift_variant;AHR|p.S68Qfs*10|1|0.09|ENSG00000106546|chr7:17310070-17310070|T/-|frameshift_variant;AHR|p.L118Efs*11|1|0.05|ENSG00000106546|chr7:17322597-17322598|-/TGAAATACTGGCATCCA|frameshift_variant ENSG00000063438|ENST00000684583|AHRR;ENSG00000106546|ENST00000242057|AHR ENSG00000106546|ENST00000242057|AHR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.2003479003906 3 351.200446 1050.57951 NaN NaN NaN NaN NaN NaN NaN 74.221 1 74.221 73.721 74.721 0 0 0 0 0.99035 1 36241 36241 1.4819 0 1 25105 1576;661 16184 16240 28622 28622 0.05624137094537218 PSLEQKEGRR 10 Unmodified _PSLEQKEGRR_ 0 0 0 ENSG00000100813|ENST00000605057|ACIN1;nc|ENSG00000100813|Q9UKV3-5|ACIN1;nc|ENSG00000100813|Q9UKV3|ACIN1;ACIN1|p.P817Hfs*53|1|0.19|ENSG00000100813|chr14:23065992-23065998|GATTTGG/-|frameshift_variant ENSG00000100813|ENST00000605057|ACIN1 ENSG00000100813|ENST00000605057|ACIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 400.5567932128906 3 400.554554 1198.64183 2.8195 0.0011294 1.8214 0.00072959 4.6409 0.0018589 400.5552218184305 27.334 0.16707 27.334 27.249 27.416 0 18 11 2 0 0 0 0.84709 1 12321 12321 3.3196 1.4133 1 208260 25106 1242 16185 16241 28623 28623 0.05045818652206435 PSLHLFGV 8 Unmodified _PSLHLFGV_ 0 0 0 REV__ENST00000444348.1_1_1:36035435-36040229:-|nuORF REV__ENST00000444348.1_1_1:36035435-36040229:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7808532714844 2 435.247621 868.480688 2.9047 0.0012643 -0.407 -0.00017714 2.4977 0.0010871 435.2473387993716 53.727 0.22545 54.392 54.265 54.491 0.6644 16 12 2 0 0 0 0.14267 1 24544 24544 2.5775 2.5775 1 362630 + 25107 16370 16186 16242 28624 28624 0.0411872107695217 PSLMPDWTA 9 Unmodified _PSLMPDWTA_ 0 0 0 REV__nc|ENSG00000279331|Q9P1G2|RBM12B-AS1 REV__nc|ENSG00000279331|Q9P1G2|RBM12B-AS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.2424011230469 2 509.239135 1016.46372 4.153 0.0021148 3.4507 0.0017572 7.6037 0.0038721 509.24183490152967 103.21 0.049408 103.53 103.52 103.56 0.31863 17 5 4 0 0 0 0.98132 1 47716 47716 4.3292 0.38484 1 1847600 + 25108 18159 16187 16243 28625 28625 -0.04385567591180006 PSLMPDWTA 9 Unmodified _PSLMPDWTA_ 0 0 0 REV__nc|ENSG00000279331|Q9P1G2|RBM12B-AS1 REV__nc|ENSG00000279331|Q9P1G2|RBM12B-AS1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 509.239135 1016.46372 4.153 0.0021148 3.4507 0.0017572 7.6037 0.0038721 509.24183490152967 103.21 0.049408 103.53 103.52 103.56 0.31863 -0.15917 0.00012513 NaN 4.3292 17 5 4 NaN NaN NaN NaN 0 NaN NaN 0 1847600 + 25109 18159 16187 16243 -0.04385567591180006 PSLMPDWTA 9 Unmodified _PSLMPDWTA_ 0 0 0 REV__nc|ENSG00000279331|Q9P1G2|RBM12B-AS1 REV__nc|ENSG00000279331|Q9P1G2|RBM12B-AS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 509.239135 1016.46372 3.5397 0.0018026 3.0163 0.001536 6.556 0.0033386 509.24179489075345 103.25 0.047394 103.85 103.82 103.87 0.59821 0.15917 -0.00031735 NaN 4.3292 8 2 4 NaN NaN NaN NaN 0 NaN NaN 0 965930 + 25110 18159 16187 16243 -0.04385567591180006 PSMPPGQWQ 9 Unmodified _PSMPPGQWQ_ 0 0 0 nc|ENSG00000005339|Q92793-2|CREBBP;ENSG00000005339|ENST00000262367|CREBBP nc|ENSG00000005339|Q92793-2|CREBBP nc|ENSG00000005339|Q92793-2|CREBBP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.2388916015625 2 514.236927 1026.4593 NaN NaN NaN NaN NaN NaN NaN 30.435 1 31.224 30.724 31.724 0.78921 0 0 0 0.8984 1 13743 13743 3.9444 0.3479 1 25111 327 16188 16244 28626 28626 -0.05287032014075521 PSNPPEIVI 9 Unmodified _PSNPPEIVI_ 0 0 0 KCNN3|p.H235Qfs*52|1|0.02|ENSG00000143603|chr1:154869260-154869261|-/CTATGCTC|frameshift_variant;ENSG00000143603|ENST00000271915|KCNN3 KCNN3|p.H235Qfs*52|1|0.02|ENSG00000143603|chr1:154869260-154869261|-/CTATGCTC|frameshift_variant KCNN3|p.H235Qfs*52|1|0.02|ENSG00000143603|chr1:154869260-154869261|-/CTATGCTC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.5150451660156 3 322.514925 964.522947 1.5296 0.00049333 -1.1028 -0.00035566 0.42685 0.00013767 322.5145593629148 1.4623 0.65912 1.7664 1.3084 1.9675 0.30411 120 53 4 0 0 0 0.96953 1 647 647 4.5289 0 1 499940 25112 3382 16189 16245 28627 28627 0.039266516946554475 PSPGETEMDL 10 Unmodified _PSPGETEMDL_ 0 0 0 nc|ENSG00000110427|Q6ZVL6|KIAA1549L;ENSG00000110427|ENST00000658780|KIAA1549L nc|ENSG00000110427|Q6ZVL6|KIAA1549L nc|ENSG00000110427|Q6ZVL6|KIAA1549L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.2366333007812 2 538.234247 1074.45394 NaN NaN NaN NaN NaN NaN NaN 56.245 1 56.913 56.413 57.413 0.66829 0 0 0 0.9754 1 25729 25729 9.3831 0.63772 1 25113 1714 16190 16246 28628 28628 -0.0803080038722328 PSPGGCCG 8 Unmodified _PSPGGCCG_ 0 0 0 ENST00000592432.5_1_17:74538692-74539195:+|nuORF;ENST00000465808.7_1_17:74536626-74539195:+|nuORF;ENST00000586148.1_1_17:74538666-74539195:+|nuORF ENST00000592432.5_1_17:74538692-74539195:+|nuORF ENST00000592432.5_1_17:74538692-74539195:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.12335205078125 2 339.122717 676.230881 NaN NaN NaN NaN NaN NaN NaN 76.859 1 77.114 76.614 77.614 0.25533 0 0 0 0.99035 1 35392 35392 0.79363 0 1 25114 8128 16191 16247 28629 28629 -0.12018527862619521 PSPLLPPMK 9 Unmodified _PSPLLPPMK_ 0 0 0 REV__ENST00000492354.1_1_1:16721603-16721729:+|nuORF REV__ENST00000492354.1_1_1:16721603-16721729:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.2873840332031 2 490.285889 978.557224 NaN NaN NaN NaN NaN NaN NaN 51.517 1 52.177 51.677 52.677 0.65956 0 0 0 0.89683 1 23559 23559 4.3292 0 1 + 25115 16809 16192 16248 28630 28630 0.06708776581922393 PSPSRREREMT 11 Unmodified _PSPSRREREMT_ 0 0 0 REV__ENST00000361972.8_1_10:7212945-7217999:-|nuORF REV__ENST00000361972.8_1_10:7212945-7217999:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 673.3350219726562 2 673.335692 1344.65683 NaN NaN NaN NaN NaN NaN NaN 73.647 1 73.647 73.147 74.147 0 0 0 0 1.0044 1 35927 35927 4.897 1.9018 1 + 25116 15635 16193 16249 28631 28631 -0.001710575420929672 PSQMGPGPTL 10 Unmodified _PSQMGPGPTL_ 0 0 0 REV__nc|ENSG00000124151|Q9Y6Q9-2|NCOA3 REV__nc|ENSG00000124151|Q9Y6Q9-2|NCOA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.727294921875 2 492.744585 983.474617 NaN NaN NaN NaN NaN NaN NaN 29.849 1 29.849 29.349 30.349 0 0 0 0 0.96627 1 13478 13478 10.824 5.0635 1 + 25117 11637 16194 16250 28632 28632 -0.017781652168764595 PSRIPLRM 8 Unmodified _PSRIPLRM_ 0 0 0 REV__nc|ENSG00000129003|Q709C8-2|VPS13C REV__nc|ENSG00000129003|Q709C8-2|VPS13C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.2900695800781 2 485.286754 968.558955 NaN NaN NaN NaN NaN NaN NaN 48.177 1 48.177 47.677 48.677 0 0 0 0 0.99035 1 22061 22061 0.79363 0 1 + 25118 11776 16195 16251 28633 28633 0.07341830390544146 PSRRSKLRKPK 11 Unmodified _PSRRSKLRKPK_ 0 0 0 ENST00000425494.1_1_10:37812205-37812634:+|nuORF;ENST00000522955.5_1_8:38663104-38684943:+|nuORF;nc|ENSG00000147526|O75410-3|TACC1;nc|ENSG00000147526|O75410-7|TACC1;nc|ENSG00000147526|O75410-9|TACC1;ENSG00000147526|ENST00000317827|TACC1;nc|ENSG00000147526|O75410-2|TACC1 ENST00000425494.1_1_10:37812205-37812634:+|nuORF ENST00000425494.1_1_10:37812205-37812634:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.9710998535156 4 338.970385 1351.85244 2.4929 0.000845 -1.3534 -0.00045875 1.1395 0.00038625 338.9705176217725 46.555 0.52999 47.207 46.939 47.469 0.65219 65 19 5 0 0 0 0.91328 1 21368 21368 0.50596 0.09769 1 1266900 25119 3569 16196 16252 28634 28634 0.19058320764929704 PSSIWWRGRA 10 Unmodified _PSSIWWRGRA_ 0 0 0 REV__ENST00000529902.2_1_14:50466771-50470439:-|nuORF REV__ENST00000529902.2_1_14:50466771-50470439:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 406.2197570800781 3 405.884235 1214.63087 2.068 0.00083935 0.31572 0.00012815 2.3837 0.0009675 405.8842261265511 73.136 0.32341 73.136 73.023 73.347 0 75 35 3 0 0 0 0.12676 1 35597 35597 1.7423 0.089654 1 2267700 + 25120 17130 16197 16253 28635 28635 0.03214461068591845 PSSPSSTEE 9 Unmodified _PSSPSSTEE_ 0 0 0 REV__ENSG00000181143|ENST00000397910|MUC16 REV__ENSG00000181143|ENST00000397910|MUC16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 922.6486206054688 1 920.384347 919.377071 3.9586 0.0036435 0.66092 0.0006083 4.6196 0.0042518 920.3857731465566 46.71 0.3112 47.362 47.226 47.537 0.65219 21 9 3 0 0 0 0.59776 1 21363 21363 10.824 3.5347 1 1035900 + 25121 13844 16198 16254 28636 28636 -0.08584275612020065 PSTMLLLLKIH 11 Unmodified _PSTMLLLLKIH_ 0 0 0 REV__ENST00000357430.7_1_2:223806358-223806715:+|nuORF REV__ENST00000357430.7_1_2:223806358-223806715:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.7756652832031 3 422.593181 1264.75771 2.7866 0.0011776 -1.4575 -0.00061593 1.3291 0.00056167 422.5925981294117 48.983 0.29692 49.81 49.688 49.985 0.82705 28 15 3 0 0 0 0.13295 1 22294 22294 0.50596 0 1 338750 + 25122 15565 16199 16255 28637 28637 0.13592626178729006 PSTMLLLLKIH 11 Unmodified _PSTMLLLLKIH_ 0 0 0 REV__ENST00000357430.7_1_2:223806358-223806715:+|nuORF REV__ENST00000357430.7_1_2:223806358-223806715:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 317.1970520019531 4 317.196705 1264.75771 1.9504 0.00061866 -0.74171 -0.00023527 1.2087 0.00038339 317.19639790187335 52.288 1.2257 52.95 52.158 53.384 0.66198 230 63 5 0 0 0 0.91068 4 23827 23827;23928;23983;24043 1.3296 1.3296 1 9836900 + 25123 15565 16199 16255 28638;28639;28640;28641 28638 0.13592626178729006 PSTMLLLLKIH 11 Unmodified _PSTMLLLLKIH_ 0 0 0 REV__ENST00000357430.7_1_2:223806358-223806715:+|nuORF REV__ENST00000357430.7_1_2:223806358-223806715:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 317.196705 1264.75771 2.2428 0.0007114 -1.1213 -0.00035566 1.1215 0.00035574 317.1962798058429 53.137 1.0027 53.137 52.602 53.605 0 0.20731 -0.00013848 NaN 1.3296 229 67 4 NaN NaN NaN NaN 0 NaN NaN 0 13152000 + 25124 15565 16199 16255 0.13592626178729006 PSTMLLLLKIH 11 Unmodified _PSTMLLLLKIH_ 0 0 0 REV__ENST00000357430.7_1_2:223806358-223806715:+|nuORF REV__ENST00000357430.7_1_2:223806358-223806715:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 317.196705 1264.75771 1.8263 0.0005793 -1.2649 -0.00040122 0.56143 0.00017809 317.1962523568513 52.041 1.0892 52.851 52.357 53.447 0.81066 -0.078183 -0.00032071 NaN 1.3296 228 73 5 NaN NaN NaN NaN 0 NaN NaN 0 10381000 + 25125 15565 16199 16255 0.13592626178729006 PSTMLLLLKIH 11 Unmodified _PSTMLLLLKIH_ 0 0 0 REV__ENST00000357430.7_1_2:223806358-223806715:+|nuORF REV__ENST00000357430.7_1_2:223806358-223806715:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 317.196705 1264.75771 2.3379 0.00074157 -0.91768 -0.00029109 1.4202 0.00045049 317.19636127214864 52.517 0.98974 52.78 52.36 53.35 0.26345 -0.14928 0.00011982 NaN 1.3296 177 53 5 NaN NaN NaN NaN 0 NaN NaN 0 21663000 + 25126 15565 16199 16255 0.13592626178729006 PSTWWWRWPRC 11 Unmodified _PSTWWWRWPRC_ 0 0 0 ENST00000341948.6_1_5:140595634-140595910:+|nuORF ENST00000341948.6_1_5:140595634-140595910:+|nuORF ENST00000341948.6_1_5:140595634-140595910:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 781.1497802734375 2 780.869505 1559.72446 NaN NaN NaN NaN NaN NaN NaN 62.266 1 62.926 62.426 63.426 0.66008 0 0 0 1.0059 1 28532 28532 2.9952 0 1 25127 7079 16200 16256 28642 28642 -0.03301562820638537 PSVAVLTRW 9 Unmodified _PSVAVLTRW_ 0 0 0 ZNF408|p.V555Gfs*146|1|0.24|ENSG00000175213|chr11:46705364-46705364|T/-|frameshift_variant ZNF408|p.V555Gfs*146|1|0.24|ENSG00000175213|chr11:46705364-46705364|T/-|frameshift_variant ZNF408|p.V555Gfs*146|1|0.24|ENSG00000175213|chr11:46705364-46705364|T/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.2698974609375 2 514.798009 1027.58147 3.4176 0.0017594 0.8787 0.00045235 4.2963 0.0022117 514.7986647368954 36.228 0.555 36.486 36.271 36.826 0.25768 40 23 2 0 0 0 0.089124 1 16526 16526 11.64 0 1 419080 25128 18295 16201 16257 28643 28643 0.06877753059779934 PSVDLNQIL 9 Unmodified _PSVDLNQIL_ 0 0 0 CON__A2VCT4 CON__A2VCT4 CON__A2VCT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.7815856933594 2 499.779482 997.544411 2.4387 0.0012188 0.047817 2.3898E-05 2.4865 0.0012427 499.7797994039405 73.582 0.31257 73.582 73.415 73.727 0 55 34 2 0 0 0 0.071101 1 35901 35901 39.957 1.9833 1 3825800 + 25129 207 16202 16258 28644 28644 0.04554036723379795 PSVDLNQIL 9 Unmodified _PSVDLNQIL_ 0 0 0 CON__A2VCT4 CON__A2VCT4 CON__A2VCT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.7794494628906 2 499.779482 997.544411 2.5417 0.0012703 -0.30069 -0.00015028 2.241 0.00112 499.7794772601715 72.624 0.27953 73.323 73.206 73.485 0.69881 56 28 3 0 0 0 0.10169 1 35006 35006 32.305 1.6689 1 2943900 + 25130 207 16202 16258 28645 28645 0.04554036723379795 PSVDLNQIL 9 Unmodified _PSVDLNQIL_ 0 0 0 CON__A2VCT4 CON__A2VCT4 CON__A2VCT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.7790222167969 2 499.779482 997.544411 2.9402 0.0014695 0.0020421 1.0206E-06 2.9423 0.0014705 499.779463721191 73.202 0.4465 73.461 73.174 73.62 0.25876 130 52 3 0 0 0 0.071101 1 33511 33511 39.957 7.6518 1 2456700 + 25131 207 16202 16258 28646 28646 0.04554036723379795 PSYKKGMLYL 10 Unmodified _PSYKKGMLYL_ 0 0 0 REV__ENSG00000147885|ENST00000380216|IFNA16 REV__ENSG00000147885|ENST00000380216|IFNA16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.5560607910156 3 400.554615 1198.64202 2.9305 0.0011738 2.1904 0.00087739 5.1209 0.0020512 400.5555972444987 27.288 0.16187 27.55 27.453 27.615 0.26245 16 13 2 0 0 0 0.76575 1 12399 12399 5.7834 0 1 410690 + 25132 12518 16203 16259 28647 28647 0.0506410232790131 PTAATPRSQQP 11 Unmodified _PTAATPRSQQP_ 0 0 0 ENST00000497401.1_1_22:18049955-18062711:+|nuORF;ENST00000327451.10_1_22:18043359-18062711:+|nuORF ENST00000497401.1_1_22:18049955-18062711:+|nuORF ENST00000497401.1_1_22:18049955-18062711:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.2993774414062 2 577.301644 1152.58874 NaN NaN NaN NaN NaN NaN NaN 47.241 1 48.07 47.57 48.57 0.82915 0 0 0 0.72583 1 21522 21522 22.736 13.353 1 25133 6963 16204 16260 28648 28648 0.018544408695561287 PTAATPRSQQP 11 Unmodified _PTAATPRSQQP_ 0 0 0 ENST00000497401.1_1_22:18049955-18062711:+|nuORF;ENST00000327451.10_1_22:18043359-18062711:+|nuORF ENST00000497401.1_1_22:18049955-18062711:+|nuORF ENST00000497401.1_1_22:18049955-18062711:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.2697143554688 2 577.301644 1152.58874 NaN NaN NaN NaN NaN NaN NaN 48.113 1 48.375 47.875 48.875 0.26209 0 0 0 0.97845 1 21992 21992 8.7454 1.4562 1 25134 6963 16204 16260 28649 28649 0.018544408695561287 PTADDDDDDE 10 Unmodified _PTADDDDDDE_ 0 0 0 REV__ENST00000533568.5_1_11:77069900-77103583:-|nuORF REV__ENST00000533568.5_1_11:77069900-77103583:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.7123413085938 2 554.183463 1106.35237 NaN NaN NaN NaN NaN NaN NaN 82.975 1 83.02 82.52 83.52 0.045006 0 0 0 1.0001 1 41063 41063 1.6526 0 1 + 25135 12564 16205 16261 28650 28650 -0.19655000276088685 PTARSMFRLW 10 Unmodified _PTARSMFRLW_ 0 0 0 REV__SPG7|p.E567Nfs*25|1|0.31|ENSG00000197912|chr16:89550527-89550527|A/-|frameshift_variant REV__SPG7|p.E567Nfs*25|1|0.31|ENSG00000197912|chr16:89550527-89550527|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 632.6090087890625 2 632.8346 1263.65465 NaN NaN NaN NaN NaN NaN NaN 96.492 1 96.77 96.27 97.27 0.27778 0 0 0 0.99812 1 44333 44333 3.2813 0 1 + 25136 18217 16206 16262 28651 28651 0.03336558510773102 PTAWTGPGI 9 Unmodified _PTAWTGPGI_ 0 0 0 ENST00000356864.3_1_8:22960127-22960358:+|nuORF ENST00000356864.3_1_8:22960127-22960358:+|nuORF ENST00000356864.3_1_8:22960127-22960358:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.2373962402344 2 450.23471 898.454868 3.026 0.0013624 1.4336 0.00064544 4.4595 0.0020078 450.23524753603823 32.186 0.55341 32.804 32.573 33.126 0.61831 42 29 2 0 0 0 0.12301 1 14776 14776 28.487 0 1 229910 25137 7164 16207 16263 28652 28652 0.0015782683468614778 PTDATEPSI 9 Unmodified _PTDATEPSI_ 0 0 0 HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|44|1|sense HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|44|1|sense HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|44|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 930.4439697265625 1 930.441468 929.434192 3.7724 0.00351 -0.12697 -0.00011813 3.6454 0.0033919 930.4412082980398 35.987 0.3215 36.244 35.996 36.318 0.25768 21 14 2 0 0 0 0.062556 1 16387 16387 42.095 0 1 376180 25138 9418 16208 16264 28653 28653 -0.0333480833566 PTDGKRCLLR 10 Unmodified _PTDGKRCLLR_ 0 0 0 REV__ENST00000428135.7_1_7:17833628-17833766:-|nuORF REV__ENST00000428135.7_1_7:17833628-17833766:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.8792114257812 2 579.824232 1157.63391 NaN NaN NaN NaN NaN NaN NaN 87.489 1 87.489 86.989 87.989 0 0 0 0 0.97102 1 45132 45132 10.074 0.6908 1 + 25139 16234 16209 16265 28654 28654 0.06139968131083151 PTDNFAQK 8 Unmodified _PTDNFAQK_ 0 0 0 ENST00000277795.8_1_10:70048686-70066625:-|nuORF ENST00000277795.8_1_10:70048686-70066625:-|nuORF ENST00000277795.8_1_10:70048686-70066625:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 920.3137817382812 1 920.447222 919.439946 4.6735 0.0043017 -4.0804 -0.0037558 0.59311 0.00054593 920.4456147083496 97.513 0.076347 97.802 97.772 97.848 0.28923 9 5 2 0 0 0 0.13749 1 44817 44817 7.9102 3.9658 1 6723200 25140 6680 16210 16266 28655 28655 -0.022996650333311663 PTEDDEPD 8 Unmodified _PTEDDEPD_ 0 0 0 REV__FEZ2|p.P177T|1|0.01|ENSG00000171055|chr2:36581395-36581395|G/T|missense_variant REV__FEZ2|p.P177T|1|0.01|ENSG00000171055|chr2:36581395-36581395|G/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 459.1734313964844 2 459.17217 916.329786 NaN NaN NaN NaN NaN NaN NaN 63.175 1 63.833 63.333 64.333 0.65808 0 0 0 0.99035 1 28948 28948 0.69038 0 1 + 25141 13468 16211 16267 28656 28656 -0.13172554883033172 PTELSPRWD 9 Unmodified _PTELSPRWD_ 0 0 0 REV__ENST00000542587.5_3_19:19738564-19738923:-|nuORF REV__ENST00000542587.5_3_19:19738564-19738923:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.7742919921875 2 550.772188 1099.52982 3.5046 0.0019302 0.30734 0.00016927 3.8119 0.0020995 550.7722217587828 37.258 0.34555 37.888 37.681 38.027 0.62999 42 14 4 0 0 0 0.017293 1 17073 17073 71.922 2.8174 1 1708800 + 25142 17227 16212 16268 28657 28657 -0.015960354247454234 PTELSPRWD 9 Unmodified _PTELSPRWD_ 0 0 0 REV__ENST00000542587.5_3_19:19738564-19738923:-|nuORF REV__ENST00000542587.5_3_19:19738564-19738923:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 550.772188 1099.52982 3.5046 0.0019302 0.30734 0.00016927 3.8119 0.0020995 550.7722217587828 37.258 0.34555 37.888 37.681 38.027 0.62999 -0.096294 0.00010169 NaN 71.922 42 14 4 NaN NaN NaN NaN 0 NaN NaN 0 1708800 + 25143 17227 16212 16268 -0.015960354247454234 PTELVPYGL 9 Unmodified _PTELVPYGL_ 0 0 0 nc|ENSG00000132470|P16144-4|ITGB4;nc|ENSG00000132470|P16144-2|ITGB4;nc|ENSG00000132470|P16144-3|ITGB4;ENSG00000132470|ENST00000200181|ITGB4;ENST00000580542.5_1_17:73720783-73737087:+|nuORF;nc|ENSG00000132470|P16144-5|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.18402099609375 3 330.183176 987.527698 1.6498 0.00054473 0.29706 9.8083E-05 1.9468 0.00064281 330.1833369058237 12.549 0.16537 12.856 12.77 12.936 0.30727 11 5 4 0 0 0 0.27976 1 5664 5664 12.241 0 1 14480000 25144 2705 16213 16269 28658 28658 0.033435358374163116 PTEPSGEAGPQ 11 Unmodified _PTEPSGEAGPQ_ 0 0 0 REV__nc|ENSG00000168539|P11229-2|CHRM1 REV__nc|ENSG00000168539|P11229-2|CHRM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.744384765625 2 535.24346 1068.47237 2.8146 0.0015065 2.504 0.0013403 5.3187 0.0028468 535.2465874935707 38.542 1.5627 38.806 38.603 40.165 0.26408 88 60 3 0 0 0 0.66009 2 17786 17786;17841 13.042 2.2185 1 1920900 + 25145 13355 16214 16270 28659;28660 28659 -0.05912922420998257 PTHFRYYEGSK 11 Unmodified _PTHFRYYEGSK_ 0 0 0 REV__ENSG00000165805|ENST00000298699|C12orf50 REV__ENSG00000165805|ENST00000298699|C12orf50 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 692.6884155273438 2 692.835851 1383.65715 NaN NaN NaN NaN NaN NaN NaN 85.967 1 85.997 85.497 86.497 0.030289 0 0 0 1.0044 1 43133 43133 4.897 0.95262 1 + 25146 13189 16215 16271 28661 28661 -0.019333145505697757 PTHWRRYIRHY 11 Unmodified _PTHWRRYIRHY_ 0 0 0 REV__ENSG00000134640|ENST00000257068|MTNR1B REV__ENSG00000134640|ENST00000257068|MTNR1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 792.4498901367188 2 792.918375 1583.8222 NaN NaN NaN NaN NaN NaN NaN 98.088 1 98.687 98.187 99.187 0.59885 0 0 0 1.0072 1 45168 45168 1.3295 1.0225 1 + 25147 11974 16216 16272 28662 28662 0.053639620997273596 PTKEKEKARKK 11 Unmodified _PTKEKEKARKK_ 0 0 0 ENSG00000105738|ENST00000222345|SIPA1L3 ENSG00000105738|ENST00000222345|SIPA1L3 ENSG00000105738|ENST00000222345|SIPA1L3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.2781066894531 3 448.277021 1341.80923 3.3236 0.0014899 -1.7499 -0.00078444 1.5737 0.00070545 448.27637060063864 99.172 0.10319 99.77 99.73 99.833 0.59747 10 6 2 0 0 0 0.91359 1 45853 45853 0.40827 0 1 2524200 25148 1526 16217 16273 28663 28663 0.15200086196955453 PTKKGRRNRFK 11 Unmodified _PTKKGRRNRFK_ 0 0 0 nc|ENSG00000135100|P20823-5|HNF1A;nc|ENSG00000135100|P20823-6|HNF1A;nc|ENSG00000135100|P20823-3|HNF1A;nc|ENSG00000135100|P20823-2|HNF1A;nc|ENSG00000135100|P20823|HNF1A;ENSG00000135100|ENST00000257555|HNF1A;nc|ENSG00000135100|P20823-7|HNF1A nc|ENSG00000135100|P20823-5|HNF1A nc|ENSG00000135100|P20823-5|HNF1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 694.4254150390625 2 694.423294 1386.83203 4.152 0.0028833 -1.115 -0.00077426 3.0371 0.002109 694.4219392423056 94.568 0.33983 95.186 94.942 95.282 0.61737 41 21 3 0 0 0 0.91403 1 43522 43522 0.26902 0 1 590370 25149 2849 16218 16274 28664 28664 0.1540915010509707 PTKKMKPRRLP 11 Unmodified _PTKKMKPRRLP_ 0 0 0 REV__nc|ENSG00000138162|O95359-5|TACC2 REV__nc|ENSG00000138162|O95359-5|TACC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.9664306640625 4 338.714325 1350.82819 2.614 0.0008854 -0.70955 -0.00024033 1.9045 0.00064507 338.7145022826221 66.175 0.89085 66.423 66.014 66.905 0.24848 102 50 3 0 0 0 0.91068 1 30282 30282 0.45452 0 1 813700 + 25150 12152 16219 16275 28665 28665 0.16681344287030697 PTKKMKPRRLP 11 Unmodified _PTKKMKPRRLP_ 0 0 0 REV__nc|ENSG00000138162|O95359-5|TACC2 REV__nc|ENSG00000138162|O95359-5|TACC2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 338.714325 1350.82819 2.614 0.0008854 -0.70955 -0.00024033 1.9045 0.00064507 338.7145022826221 66.175 0.89085 66.423 66.014 66.905 0.24848 -0.11541 -0.0006026 NaN 0.45452 102 50 3 NaN NaN NaN NaN 0 NaN NaN 0 813700 + 25151 12152 16219 16275 0.16681344287030697 PTKKMKPRRLP 11 Unmodified _PTKKMKPRRLP_ 0 0 0 REV__nc|ENSG00000138162|O95359-5|TACC2 REV__nc|ENSG00000138162|O95359-5|TACC2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 338.714325 1350.82819 2.4254 0.00082153 0.23976 8.1209E-05 2.6652 0.00090274 338.71432266178533 65.997 0.2106 66.654 66.527 66.737 0.65672 0.11541 0.00068357 NaN 0.45452 24 13 2 NaN NaN NaN NaN 0 NaN NaN 0 531660 + 25152 12152 16219 16275 0.16681344287030697 PTKKWLKKKY 10 Unmodified _PTKKWLKKKY_ 0 0 0 REV__nc|ENSG00000132313|Q9NZE8-2|MRPL35 REV__nc|ENSG00000132313|Q9NZE8-2|MRPL35 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 660.2216796875 2 660.41354 1318.81253 NaN NaN NaN NaN NaN NaN NaN 92.427 1 93.074 92.574 93.574 0.64714 0 0 0 1.0001 1 42524 42524 1.6526 0.17072 1 + 25153 11882 16220 16276 28666 28666 0.16587381041631488 PTKPNRRVR 9 Unmodified _PTKPNRRVR_ 0 0 0 ENSG00000103351|ENST00000576634|CLUAP1;nc|ENSG00000103351|Q96AJ1-2|CLUAP1 ENSG00000103351|ENST00000576634|CLUAP1 ENSG00000103351|ENST00000576634|CLUAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.3432006835938 2 562.343981 1122.67341 2.0956 0.0011785 -1.7399 -0.0009784 0.35576 0.00020006 562.3432422529775 103.17 0.20535 103.22 103.1 103.31 0.055092 19 8 3 0 0 0 1.129 1 55953 55953 1.8442 0 1 764880 25154 1392 16221 16277 28667 28667 0.11697856196838075 PTKRKDVV 8 Unmodified _PTKRKDVV_ 0 0 0 ENSG00000137460|ENST00000511601|FHDC1 ENSG00000137460|ENST00000511601|FHDC1 ENSG00000137460|ENST00000511601|FHDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.739990234375 2 471.790184 941.565815 NaN NaN NaN NaN NaN NaN NaN 13.006 1 13.649 13.149 14.149 0.64272 0 0 0 0.99035 1 5837 5837 2.8892 0 1 25155 3017 16222 16278 28668 28668 0.0926946654275298 PTKRNIQRVL 10 Unmodified _PTKRNIQRVL_ 0 0 0 REV__nc|ENSG00000127314|P61224-2|RAP1B REV__nc|ENSG00000127314|P61224-2|RAP1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.2572326660156 3 408.922689 1223.74624 1.4125 0.00057761 -0.60986 -0.00024939 0.80265 0.00032822 408.92239787841754 99.953 0.088013 100.02 99.961 100.05 0.062241 9 5 2 0 0 0 0.93584 1 54136 54136 1.7423 0.52744 1 7779000 + 25156 11405 16223 16279 28669 28669 0.1433156519960903 PTKRNIQRVL 10 Unmodified _PTKRNIQRVL_ 0 0 0 REV__nc|ENSG00000127314|P61224-2|RAP1B REV__nc|ENSG00000127314|P61224-2|RAP1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 612.8809204101562 2 612.880396 1223.74624 3.7411 0.0022929 -1.2451 -0.00076308 2.4961 0.0015298 612.8794365205403 99.79 0.15192 100.39 100.31 100.46 0.59717 20 7 4 0 0 0 0.94134 1 46170 46170 1.4819 1.1313 1 23149000 + 25157 11405 16223 16279 28670 28670 0.1433156519960903 PTKSSRKAK 9 Unmodified _PTKSSRKAK_ 0 0 0 APC|p.R1687Tfs*13|1|0.33|ENSG00000134982|chr5:112840647-112840648|-/A|frameshift_variant;nc|ENSG00000134982|P25054-2|APC;nc|ENSG00000134982|P25054-3|APC;ENSG00000134982|ENST00000257430|APC APC|p.R1687Tfs*13|1|0.33|ENSG00000134982|chr5:112840647-112840648|-/A|frameshift_variant APC|p.R1687Tfs*13|1|0.33|ENSG00000134982|chr5:112840647-112840648|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.8081970214844 2 501.806365 1001.59818 3.4118 0.0017121 -1.3917 -0.00069835 2.0202 0.0010137 501.8064110395298 90.335 0.54491 91.008 90.884 91.429 0.67271 30 25 2 0 0 0 1.152 1 41578 41578 1.4819 0.79152 1 409880 25158 60 16224 16280 28671 28671 0.09744253945746095 PTKTWRRWHR 10 Unmodified _PTKTWRRWHR_ 0 0 0 ENST00000566624.5_1_15:66794944-66797161:-|nuORF;ENST00000564439.5_1_15:66793756-66797161:-|nuORF;ENST00000566622.5_1_15:66794044-66797161:-|nuORF;ENST00000566039.5_1_15:66793707-66797161:-|nuORF;ENST00000422486.1_1_3:185135660-185136437:-|nuORF;ENSG00000174444|ENST00000307961|RPL4 ENST00000566624.5_1_15:66794944-66797161:-|nuORF ENST00000566624.5_1_15:66794944-66797161:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 712.847900390625 2 712.394536 1422.77452 NaN NaN NaN NaN NaN NaN NaN 86.903 1 86.933 86.433 87.433 0.030289 0 0 0 0.99812 1 43847 43847 3.2813 0.78282 1 25159 4978 16225 16281 28672 28672 0.08004307899523155 PTKTWRRWHRR 11 Unmodified _PTKTWRRWHRR_ 0 0 0 ENST00000566624.5_1_15:66794944-66797161:-|nuORF;ENST00000564439.5_1_15:66793756-66797161:-|nuORF;ENST00000566622.5_1_15:66794044-66797161:-|nuORF;ENST00000566039.5_1_15:66793707-66797161:-|nuORF;ENST00000422486.1_1_3:185135660-185136437:-|nuORF;ENSG00000174444|ENST00000307961|RPL4 ENST00000566624.5_1_15:66794944-66797161:-|nuORF ENST00000566624.5_1_15:66794944-66797161:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 790.6788940429688 2 790.445092 1578.87563 NaN NaN NaN NaN NaN NaN NaN 55.751 1 55.751 55.251 56.251 0 0 0 0 1.008 1 25642 25642 0.96228 0.65524 1 25160 4978 16226 16282 28673 28673 0.10934759602218946 PTLEKKKRK 9 Unmodified _PTLEKKKRK_ 0 0 0 nc|ENSG00000138336|Q8NFU7-3|TET1;ENSG00000138336|ENST00000373644|TET1;nc|ENSG00000138336|Q8NFU7-4|TET1 nc|ENSG00000138336|Q8NFU7-3|TET1 nc|ENSG00000138336|Q8NFU7-3|TET1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.0797119140625 2 564.36659 1126.71863 NaN NaN NaN NaN NaN NaN NaN 93.677 1 93.677 93.177 94.177 0 0 0 0 0.90611 1 50065 50065 2.0598 0 1 25161 3085 16227 16283 28674 28674 0.16033661939354715 PTLEQGDL 8 Unmodified _PTLEQGDL_ 0 0 0 REV__nc|ENSG00000167930|Q9H0X4-2|FAM234A REV__nc|ENSG00000167930|Q9H0X4-2|FAM234A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 436.72344970703125 2 436.721633 871.428712 NaN NaN NaN NaN NaN NaN NaN 41.804 1 42.074 41.574 42.574 0.27021 0 0 0 0.89651 1 19046 19046 12.532 0 1 + 25162 13316 16228 16284 28675 28675 -0.01214487127481334 PTLLLRQRRRL 11 Unmodified _PTLLLRQRRRL_ 0 0 0 REV__ENST00000269445.10_1_18:46956775-46987052:-|nuORF REV__ENST00000269445.10_1_18:46956775-46987052:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 711.019775390625 2 711.462419 1420.91028 NaN NaN NaN NaN NaN NaN NaN 96.488 1 96.488 95.988 96.988 0 0 0 0 1.0072 1 52235 52235 1.3295 0.9789 1 + 25163 15056 16229 16285 28676 28676 0.21666582690340874 PTLPLKFTQ 9 Unmodified _PTLPLKFTQ_ 0 0 0 REV__ENSG00000030066|ENST00000378460|NUP160 REV__ENSG00000030066|ENST00000378460|NUP160 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.80859375 2 522.808042 1043.60153 NaN NaN NaN NaN NaN NaN NaN 88.97 1 88.97 88.47 89.47 0 0 0 0 0.73102 1 46329 46329 11.495 1.4208 1 + 25164 10287 16230 16286 28677 28677 0.08147503999748551 PTLTITRT 8 Unmodified _PTLTITRT_ 0 0 0 REV__ENST00000529378.1_1_8:146171322-146173480:-|nuORF REV__ENST00000529378.1_1_8:146171322-146173480:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.7698669433594 2 451.768917 901.523281 3.0998 0.0014004 -1.1687 -0.000528 1.9311 0.00087241 451.7681622797391 32.327 0.23697 32.582 32.526 32.763 0.25452 20 14 2 0 0 0 0.15565 1 14735 14735 47.749 3.8904 1 696680 + 25165 17126 16231 16287 28678 28678 0.06858071414524147 PTNIWALHSF 10 Unmodified _PTNIWALHSF_ 0 0 0 REV__nc|ENSG00000165672|P30048-2|PRDX3 REV__nc|ENSG00000165672|P30048-2|PRDX3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.87603759765625 3 395.873224 1184.59784 NaN NaN NaN NaN NaN NaN NaN 22.691 1 23.332 22.832 23.832 0.64051 0 0 0 0.94858 1 10337 10337 13.615 4.0709 1 + 25166 13178 16232 16288 28679 28679 0.012928342258646808 PTPAVVRRKQS 11 Unmodified _PTPAVVRRKQS_ 0 0 0 REV__ENSG00000278803|ENST00000458091|PWWP4 REV__ENSG00000278803|ENST00000458091|PWWP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.8722534179688 2 619.870028 1237.7255 3.8293 0.0023737 -0.98696 -0.00061179 2.8424 0.0017619 619.8694594625646 90.557 0.98578 91.229 90.708 91.694 0.67271 117 49 3 0 0 0 0.91068 1 41574 41574 0.30703 0 1 1600100 + 25167 14754 16233 16289 28680 28680 0.11614974819940471 PTPEDEDD 8 Unmodified _PTPEDEDD_ 0 0 0 nc|ENSG00000242265|Q86TG7|PEG10;ENSG00000242265|ENST00000612748|PEG10;nc|ENSG00000242265|Q86TG7-4|PEG10;nc|ENSG00000242265|Q86TG7-2|PEG10;nc|ENSG00000242265|Q86TG7-3|PEG10;nc|ENSG00000242265|Q86TG7-5|PEG10 nc|ENSG00000242265|Q86TG7|PEG10 nc|ENSG00000242265|Q86TG7|PEG10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 459.2659606933594 2 459.17217 916.329786 NaN NaN NaN NaN NaN NaN NaN 34.933 1 35.188 34.688 35.688 0.25524 0 0 0 0.99035 1 15917 15917 2.5775 0 1 25168 6230 16234 16290 28681 28681 -0.13172554883033172 PTPIIKVKIPL 11 Unmodified _PTPIIKVKIPL_ 0 0 0 REV__ENSG00000140943|ENST00000343411|MBTPS1 REV__ENSG00000140943|ENST00000343411|MBTPS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 609.6326293945312 2 609.912842 1217.81113 NaN NaN NaN NaN NaN NaN NaN 88.376 1 88.376 87.876 88.876 0 0 0 0 1.0072 1 45840 45840 1.3295 0.9789 1 + 25169 12270 16235 16291 28682 28682 0.21093746952897163 PTPKERPLSKV 11 Unmodified _PTPKERPLSKV_ 0 0 0 REV__ENST00000373625.7_1_1:32627592-32628053:+|nuORF REV__ENST00000373625.7_1_1:32627592-32628053:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 626.4437255859375 2 626.374612 1250.73467 NaN NaN NaN NaN NaN NaN NaN 100.43 1 101.03 100.53 101.53 0.59717 0 0 0 0.99038 1 46487 46487 7.609 0.97858 1 + 25170 15772 16236 16292 28683 28683 0.1193332338559685 PTPLIPILVII 11 Unmodified _PTPLIPILVII_ 0 0 0 ENST00000514057.1_1_1:569411-569753:+|nuORF ENST00000514057.1_1_1:569411-569753:+|nuORF ENST00000514057.1_1_1:569411-569753:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 594.9022827148438 2 594.901943 1187.78933 NaN NaN NaN NaN NaN NaN NaN 56.69 1 57.468 56.968 57.968 0.77786 0 0 0 1.0072 1 25925 25925 1.3295 0.80477 1 25171 8582 16237 16293 28684 28684 0.20294942204327526 PTPPLLRRRPV 11 Unmodified _PTPPLLRRRPV_ 0 0 0 REV__nc|ENSG00000102001|O60840-5|CACNA1F REV__nc|ENSG00000102001|O60840-5|CACNA1F MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 651.4129638671875 2 651.411863 1300.80917 NaN NaN NaN NaN NaN NaN NaN 93.375 1 93.461 92.961 93.961 0.086212 0 0 0 1.0057 1 48901 48901 3.2813 0.28607 1 + 25172 10914 16238 16294 28685 28685 0.17080130987642406 PTPSGSLIRF 10 Unmodified _PTPSGSLIRF_ 0 0 0 ENST00000557435.1_1_14:70235056-70235245:+|nuORF ENST00000557435.1_1_14:70235056-70235245:+|nuORF ENST00000557435.1_1_14:70235056-70235245:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.837890625 2 537.800749 1073.58694 NaN NaN NaN NaN NaN NaN NaN 95.776 1 95.776 95.276 96.276 0 0 0 0 0.96201 1 51667 51667 11.495 0.67078 1 25173 8938 16239 16295 28686 28686 0.053094318516286876 PTPVFSDLL 9 Unmodified _PTPVFSDLL_ 0 0 0 ENST00000300952.6_1_19:1257977-1258148:+|nuORF ENST00000300952.6_1_19:1257977-1258148:+|nuORF ENST00000300952.6_1_19:1257977-1258148:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 330.18402099609375 3 330.183176 987.527698 2.3773 0.00078494 0.45602 0.00015057 2.8333 0.00093551 330.18333724712727 12.759 0.13359 12.759 12.699 12.833 0 14 6 3 0 0 0 0.20384 1 5557 5557 16.149 0.90062 1 6165300 25174 6798 16240 16296 28687 28687 0.03343535837439049 PTPVFSDLL 9 Unmodified _PTPVFSDLL_ 0 0 0 ENST00000300952.6_1_19:1257977-1258148:+|nuORF ENST00000300952.6_1_19:1257977-1258148:+|nuORF ENST00000300952.6_1_19:1257977-1258148:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 330.183176 987.527698 2.3773 0.00078494 0.45602 0.00015057 2.8333 0.00093551 330.18333724712727 12.759 0.13359 12.759 12.699 12.833 0 -0.052226 -9.3149E-05 NaN 16.149 14 6 3 NaN NaN NaN NaN 0 NaN NaN 0 6165300 25175 6798 16240 16296 0.03343535837439049 PTRRRRPDRRR 11 Unmodified _PTRRRRPDRRR_ 0 0 0 REV__nc|ENSG00000251359|Q96NR7|WWC2-AS2 REV__nc|ENSG00000251359|Q96NR7|WWC2-AS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 761.6238403320312 2 761.456522 1520.89849 NaN NaN NaN NaN NaN NaN NaN 102.26 1 102.26 101.76 102.76 0 0 0 0 1.008 1 56467 56467 0.35063 0 1 + 25176 17491 16241 16297 28688 28688 0.15887778719707057 PTRVFPTRVWH 11 Unmodified _PTRVFPTRVWH_ 0 0 0 nc|ENSG00000126216|Q96CW5-3|TUBGCP3 nc|ENSG00000126216|Q96CW5-3|TUBGCP3 nc|ENSG00000126216|Q96CW5-3|TUBGCP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 698.5963745117188 2 698.385845 1394.75714 NaN NaN NaN NaN NaN NaN NaN 88.182 1 88.182 87.682 88.682 0 0 0 0 1.0061 1 45698 45698 2.7352 0.23671 1 25177 9624 16242 16298 28689 28689 0.07554967573878457 PTSLYIFLY 9 Unmodified _PTSLYIFLY_ 0 0 0 REV__ENST00000368921.4_1_1:151040077-151040245:+|nuORF REV__ENST00000368921.4_1_1:151040077-151040245:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.31689453125 2 558.802426 1115.5903 NaN NaN NaN NaN NaN NaN NaN 52.781 1 53.584 53.084 54.084 0.80351 0 0 0 0.89315 1 24051 24051 5.2307 0 1 + 25178 15697 16243 16299 28690 28690 0.03712681905631143 PTTAVATVSI 10 Unmodified _PTTAVATVSI_ 0 0 0 ENSG00000105392|ENST00000221996|CRX ENSG00000105392|ENST00000221996|CRX ENSG00000105392|ENST00000221996|CRX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.27642822265625 2 480.274032 958.533512 3.0793 0.0014789 -0.1685 -8.0925E-05 2.9108 0.001398 480.27390614202324 36.645 0.20792 36.645 36.532 36.74 0 14 9 2 0 0 0 0.22696 1 16632 16632 36.127 3.3413 1 267150 25179 1492 16244 16300 28691 28691 0.05258634349092972 PTVNQRPK 8 Unmodified _PTVNQRPK_ 0 0 0 ENST00000419457.1_1_13:29296686-29297403:-|nuORF ENST00000419457.1_1_13:29296686-29297403:-|nuORF ENST00000419457.1_1_13:29296686-29297403:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.2733154296875 2 470.272158 938.529764 3.0381 0.0014287 0.25327 0.00011911 3.2914 0.0015478 470.2721327054437 86.742 0.29778 86.992 86.907 87.204 0.24974 29 13 3 0 0 0 0.7471 1 39974 39974 0.69038 0 1 1812300 25180 7741 16245 16301 28692 28692 0.058040093658974 PTVPLYFRPPV 11 Unmodified _PTVPLYFRPPV_ 0 0 0 REV__ENST00000269321.11_1_17:79826243-79826699:-|nuORF REV__ENST00000269321.11_1_17:79826243-79826699:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 643.6189575195312 2 643.368798 1284.72304 NaN NaN NaN NaN NaN NaN NaN 90.131 1 90.196 89.696 90.696 0.064346 0 0 0 1.0038 1 46366 46366 5.7319 2.1354 1 + 25181 15054 16246 16302 28693 28693 0.0920712636227563 PTWPRRRQPKR 11 Unmodified _PTWPRRRQPKR_ 0 0 0 ENST00000287844.6_1_7:150922068-150924280:-|nuORF;ENST00000441774.1_1_7:150922068-150924001:-|nuORF ENST00000287844.6_1_7:150922068-150924280:-|nuORF ENST00000287844.6_1_7:150922068-150924280:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 739.4341430664062 2 739.434193 1476.85383 NaN NaN NaN NaN NaN NaN NaN 17.223 1 17.424 16.924 17.924 0.20057 0 0 0 1.008 1 7616 7616 0.30703 0 1 25182 6727 16247 16303 28694 28694 0.13447954853654664 PTYFRPNGRFL 11 Unmodified _PTYFRPNGRFL_ 0 0 0 nc|ENSG00000184381|O60733-2|PLA2G6;ENSG00000184381|ENST00000332509|PLA2G6 nc|ENSG00000184381|O60733-2|PLA2G6 nc|ENSG00000184381|O60733-2|PLA2G6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 684.3666381835938 2 684.364579 1366.7146 NaN NaN NaN NaN NaN NaN NaN 99.941 1 100.54 100.04 101.04 0.59717 0 0 0 1.0059 1 46244 46244 2.9952 0 1 25183 5438 16248 16304 28695 28695 0.04591572445656311 PTYYNSWRRQQ 11 Unmodified _PTYYNSWRRQQ_ 0 0 0 nc|ENSG00000069188|Q58EX2-3|SDK2;ENSG00000069188|ENST00000392650|SDK2;nc|ENSG00000069188|Q58EX2-4|SDK2 nc|ENSG00000069188|Q58EX2-3|SDK2 nc|ENSG00000069188|Q58EX2-3|SDK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 749.8633422851562 2 749.862931 1497.71131 NaN NaN NaN NaN NaN NaN NaN 85.949 1 85.949 85.449 86.449 0 0 0 0 1.0072 1 43914 43914 1.3295 0.9789 1 25184 746 16249 16305 28696 28696 -0.017637223990277562 PVALPSSLA 9 Unmodified _PVALPSSLA_ 0 0 0 REV__nc|ENSG00000171163|Q9BU19-2|ZNF692 REV__nc|ENSG00000171163|Q9BU19-2|ZNF692 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 854.4984130859375 1 854.498195 853.490919 4.1988 0.0035878 -1.2463 -0.001065 2.9525 0.0025229 854.4968221661054 68.797 0.15286 69.051 68.927 69.08 0.25443 11 8 2 0 0 0 0.37584 1 31491 31491 14.582 1.0738 1 228030 + 25185 13480 16250 16306 28697 28697 0.05831284011514981 PVALPVRPF 9 Unmodified _PVALPVRPF_ 0 0 0 REV__ENST00000588572.6_3_19:55865056-55865797:-|nuORF REV__ENST00000588572.6_3_19:55865056-55865797:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.73681640625 2 498.30547 994.596387 3.3118 0.0016503 4.3599 0.0021726 7.6717 0.0038229 498.30591125891806 35.778 0.20249 36.404 36.317 36.52 0.62631 9 7 2 0 0 0 0.10461 1 16394 16394 8.5933 2.8329 1 214710 + 25186 17561 16251 16307 28698 28698 0.09887244927790562 PVAPEELRAP 10 Unmodified _PVAPEELRAP_ 0 0 0 nc|ENSG00000142632|Q8IW93-2|ARHGEF19;ENSG00000142632|ENST00000270747|ARHGEF19 nc|ENSG00000142632|Q8IW93-2|ARHGEF19 nc|ENSG00000142632|Q8IW93-2|ARHGEF19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1078.589111328125 1 1078.58914 1077.58186 3.62 0.0039045 -2.5322 -0.0027312 1.0878 0.0011733 1078.5844960455624 28.343 0.038998 29.129 29.098 29.137 0.78627 4 2 2 0 0 0 0.93534 1 12764 12764 1.8442 0 1 513640 25187 3322 16252 16308 28699 28699 0.046171279889904326 PVATVKYT 8 Unmodified _PVATVKYT_ 0 0 0 nc|ENSG00000182333|P07098-2|LIPF;nc|ENSG00000182333|P07098-4|LIPF;ENSG00000182333|ENST00000238983|LIPF;nc|ENSG00000182333|P07098-3|LIPF nc|ENSG00000182333|P07098-2|LIPF nc|ENSG00000182333|P07098-2|LIPF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 439.7551574707031 2 439.752736 877.490919 3.0422 0.0013378 -0.082071 -3.6091E-05 2.9601 0.0013017 439.7527162041293 34.469 0.28421 35.092 34.987 35.271 0.62294 20 9 3 0 0 0 0.52517 1 15791 15791 19.439 0 1 439770 25188 5331 16253 16309 28700 28700 0.04727284011505617 PVAWIKKWLRW 11 Unmodified _PVAWIKKWLRW_ 0 0 0 REV__ENSG00000103522|ENST00000337929|IL21R REV__ENSG00000103522|ENST00000337929|IL21R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 741.6541137695312 2 741.940257 1481.86596 NaN NaN NaN NaN NaN NaN NaN 100.53 1 100.59 100.09 101.09 0.059723 0 0 0 1.0071 1 54558 54558 1.4819 1.1749 1 + 25189 10968 16254 16310 28701 28701 0.14430178544148475 PVDFLDPFTC 10 Unmodified _PVDFLDPFTC_ 0 0 0 nc|ENSG00000181690|Q6DJT9-2|PLAG1;ENSG00000181690|ENST00000316981|PLAG1 nc|ENSG00000181690|Q6DJT9-2|PLAG1 nc|ENSG00000181690|Q6DJT9-2|PLAG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.2689819335938 2 577.26535 1152.51615 3.8156 0.0022026 1.3185 0.00076115 5.1341 0.0029637 577.2664774442497 83.624 0.24123 84.286 84.139 84.38 0.66219 31 14 3 0 0 0 0.68517 1 38516 38516 13.906 3.8321 1 666090 25190 5296 16255 16311 28702 28702 -0.05401029248218947 PVEEFGMEF 9 Unmodified _PVEEFGMEF_ 0 0 0 REV__ENST00000461491.5_1_3:25819310-25825562:-|nuORF REV__ENST00000461491.5_1_3:25819310-25825562:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.1885375976562 2 542.736425 1083.4583 3.4384 0.0018661 0.74034 0.00040181 4.1787 0.0022679 542.7367431764216 67.045 0.24139 67.703 67.558 67.799 0.65777 21 13 2 0 0 0 0.098886 1 30672 30672 7.9102 0 1 424480 + 25191 16494 16256 16312 28703 28703 -0.08009291173630118 PVEEFNELL 9 Unmodified _PVEEFNELL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1089.5477294921875 1 1089.54627 1088.53899 2.9085 0.0031689 0.29211 0.00031827 3.2006 0.0034872 1089.5466704107132 72.592 0.22394 72.85 72.717 72.941 0.25876 29 19 2 0 0 0 0.136 1 33353 33353 27.629 7.1752 1 568030 25192 931 16257 16313 28704 28704 -0.0017368685910241766 PVEEFNELL 9 Unmodified _PVEEFNELL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.2786254882812 2 545.276772 1088.53899 2.8763 0.0015684 0.43304 0.00023613 3.3093 0.0018045 545.2773620937531 72.2 0.28198 72.863 72.689 72.971 0.66324 56 28 3 0 0 0 0.22507 1 33084 33084 21.747 1.293 1 4236900 25193 931 16257 16313 28705 28705 -0.0017368685910241766 PVEKKIRS 8 Unmodified _PVEKKIRS_ 0 0 0 nc|ENSG00000273611|Q15649-2|ZNHIT3;ENSG00000273611|ENST00000617429|ZNHIT3 nc|ENSG00000273611|Q15649-2|ZNHIT3 nc|ENSG00000273611|Q15649-2|ZNHIT3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 319.0401916503906 3 319.534431 955.581465 1.5084 0.00048199 0.92438 0.00029537 2.4328 0.00077736 319.5347611219028 12.164 0.22582 12.471 12.351 12.577 0.30727 70 51 2 0 0 0 0.14331 1 5469 5469 1.1933 0.41681 1 68304 25194 6339 16258 16314 28706 28706 0.10189753059796658 PVEKKKIL 8 Unmodified _PVEKKKIL_ 0 0 0 nc|ENSG00000020219|A6NM43|CCT8L1P nc|ENSG00000020219|A6NM43|CCT8L1P nc|ENSG00000020219|A6NM43|CCT8L1P MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.26556396484375 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 30.099 1 30.357 29.857 30.857 0.25804 0 0 0 0.99035 1 13700 13700 2.8892 0 1 25195 9540 16259 16315 28707 28707 0.14868398242049352 PVEKKKKRK 9 Unmodified _PVEKKKKRK_ 0 0 0 REV__nc|ENSG00000135541|Q8N157-3|AHI1 REV__nc|ENSG00000135541|Q8N157-3|AHI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.0759887695312 2 570.882407 1139.75026 NaN NaN NaN NaN NaN NaN NaN 96.779 1 96.779 96.279 97.279 0 0 0 0 0.90699 1 52473 52473 1.8442 0.19162 1 + 25196 12026 16260 16316 28708 28708 0.18597654693303411 PVEVLLIII 9 Unmodified _PVEVLLIII_ 0 0 0 REV__nc|ENSG00000165125|Q9H1D0-2|TRPV6 REV__nc|ENSG00000165125|Q9H1D0-2|TRPV6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 336.89556884765625 3 336.894966 1007.66307 NaN NaN NaN NaN NaN NaN NaN 4.201 1 4.201 3.701 4.701 0 0 0 0 0.91452 1 1910 1910 0 0 1 + 25197 13140 16261 16317 28709 28709 0.15954435699063652 PVEVLLIII 9 Unmodified _PVEVLLIII_ 0 0 0 REV__nc|ENSG00000165125|Q9H1D0-2|TRPV6 REV__nc|ENSG00000165125|Q9H1D0-2|TRPV6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 336.8869323730469 3 336.894966 1007.66307 NaN NaN NaN NaN NaN NaN NaN 1.7973 1 2.1909 1.6909 2.6909 0.39356 0 0 0 0.91342 1 817 817 0.26902 0 1 + 25198 13140 16261 16317 28710 28710 0.15954435699063652 PVEVLLIII 9 Unmodified _PVEVLLIII_ 0 0 0 REV__nc|ENSG00000165125|Q9H1D0-2|TRPV6 REV__nc|ENSG00000165125|Q9H1D0-2|TRPV6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 336.8962097167969 3 336.894966 1007.66307 NaN NaN NaN NaN NaN NaN NaN 7.801 1 8.1268 7.6268 8.6268 0.32587 0 0 0 0.91452 1 3508 3508 0 0 1 + 25199 13140 16261 16317 28711 28711 0.15954435699063652 PVEVLLIII 9 Unmodified _PVEVLLIII_ 0 0 0 REV__nc|ENSG00000165125|Q9H1D0-2|TRPV6 REV__nc|ENSG00000165125|Q9H1D0-2|TRPV6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.8868103027344 3 336.894966 1007.66307 NaN NaN NaN NaN NaN NaN NaN 2.7292 1 3.0334 2.5334 3.5334 0.3042 0 0 0 0.91452 1 1241 1241 0 0 1 + 25200 13140 16261 16317 28712 28712 0.15954435699063652 PVEVLLIII 9 Unmodified _PVEVLLIII_ 0 0 0 REV__nc|ENSG00000165125|Q9H1D0-2|TRPV6 REV__nc|ENSG00000165125|Q9H1D0-2|TRPV6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.3728332519531 3 336.894966 1007.66307 NaN NaN NaN NaN NaN NaN NaN 4.3472 1 4.6518 4.1518 5.1518 0.30465 0 0 0 0.91452 1 1972 1972 0 0 1 + 25201 13140 16261 16317 28713 28713 0.15954435699063652 PVEVLLIII 9 Unmodified _PVEVLLIII_ 0 0 0 REV__nc|ENSG00000165125|Q9H1D0-2|TRPV6 REV__nc|ENSG00000165125|Q9H1D0-2|TRPV6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.8959045410156 3 336.894966 1007.66307 NaN NaN NaN NaN NaN NaN NaN 5.7777 1 6.0828 5.5828 6.5828 0.30519 0 0 0 0.91452 1 2626 2626 0 0 1 + 25202 13140 16261 16317 28714 28714 0.15954435699063652 PVEVLLIII 9 Unmodified _PVEVLLIII_ 0 0 0 REV__nc|ENSG00000165125|Q9H1D0-2|TRPV6 REV__nc|ENSG00000165125|Q9H1D0-2|TRPV6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.8962707519531 3 336.894966 1007.66307 NaN NaN NaN NaN NaN NaN NaN 8.1576 1 8.4638 7.9638 8.9638 0.30618 0 0 0 0.91452 1 3691 3691 0 0 1 + 25203 13140 16261 16317 28715 28715 0.15954435699063652 PVFCAMGC 8 Unmodified _PVFCAMGC_ 0 0 0 REV__ENSG00000124102|ENST00000243924|PI3 REV__ENSG00000124102|ENST00000243924|PI3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 827.3275146484375 1 827.324864 826.317587 3.3945 0.0028084 -0.38381 -0.00031754 3.0107 0.0024908 827.3254748713471 103.66 0.046188 103.66 103.64 103.69 0 4 2 2 0 0 0 0.7471 1 57122 57122 0.79363 0 1 1646000 + 25204 11633 16262 16318 28716 28716 -0.10251864632414254 PVFCAMGC 8 Unmodified _PVFCAMGC_ 0 0 0 REV__ENSG00000124102|ENST00000243924|PI3 REV__ENSG00000124102|ENST00000243924|PI3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 827.324864 826.317587 3.3945 0.0028084 -0.38381 -0.00031754 3.0107 0.0024908 827.3254748713471 103.66 0.046188 103.66 103.64 103.69 0 -0.069786 -0.0014931 NaN 0.79363 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 1646000 + 25205 11633 16262 16318 -0.10251864632414254 PVFCAMGC 8 Unmodified _PVFCAMGC_ 0 0 0 REV__ENSG00000124102|ENST00000243924|PI3 REV__ENSG00000124102|ENST00000243924|PI3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 827.324864 826.317587 4.7175 0.0039029 0.58003 0.00047988 5.2975 0.0043828 827.325257539421 103.46 0.051041 103.78 103.77 103.82 0.31863 0.047416 -0.00069572 NaN 0.79363 14 6 3 NaN NaN NaN NaN 0 NaN NaN 0 1844200 + 25206 11633 16262 16318 -0.10251864632414254 PVFCAMGC 8 Unmodified _PVFCAMGC_ 0 0 0 REV__ENSG00000124102|ENST00000243924|PI3 REV__ENSG00000124102|ENST00000243924|PI3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 827.324864 826.317587 4.1597 0.0034415 1.5559 0.0012873 5.7157 0.0047287 827.3259709457394 103.32 0.056335 103.92 103.89 103.94 0.59821 0.18908 0.00011166 NaN 0.79363 9 3 4 NaN NaN NaN NaN 0 NaN NaN 0 4696900 + 25207 11633 16262 16318 -0.10251864632414254 PVFIKFVPRPL 11 Unmodified _PVFIKFVPRPL_ 0 0 0 ENST00000565367.5_1_15:55633983-55643008:+|nuORF ENST00000565367.5_1_15:55633983-55643008:+|nuORF ENST00000565367.5_1_15:55633983-55643008:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 438.27679443359375 3 438.276181 1311.80671 NaN NaN NaN NaN NaN NaN NaN 72.466 1 72.466 71.966 72.966 0 0 0 0 1.0038 1 35252 35252 2.6312 0.19645 1 25208 9043 16263 16319 28717 28717 0.16328282529980243 PVFLIDPL 8 Unmodified _PVFLIDPL_ 0 0 0 FKTN|p.K278Rfs*6|1|0.22|ENSG00000106692|chr9:105615328-105615328|A/-|frameshift_variant;nc|ENSG00000106692|O75072-2|FKTN;ENSG00000106692|ENST00000357998|FKTN FKTN|p.K278Rfs*6|1|0.22|ENSG00000106692|chr9:105615328-105615328|A/-|frameshift_variant FKTN|p.K278Rfs*6|1|0.22|ENSG00000106692|chr9:105615328-105615328|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 457.27374267578125 2 457.273304 912.532055 2.7233 0.0012453 -1.1057 -0.00050562 1.6175 0.00073965 457.27268190913463 50.157 0.4442 50.157 49.973 50.417 0 38 21 2 0 0 0 0.7441 1 22964 22964 2.3027 0 1 935350 25209 1581 16264 16320 28718 28718 0.07229045050996774 PVFLIDPL 8 Unmodified _PVFLIDPL_ 0 0 0 FKTN|p.K278Rfs*6|1|0.22|ENSG00000106692|chr9:105615328-105615328|A/-|frameshift_variant;nc|ENSG00000106692|O75072-2|FKTN;ENSG00000106692|ENST00000357998|FKTN FKTN|p.K278Rfs*6|1|0.22|ENSG00000106692|chr9:105615328-105615328|A/-|frameshift_variant FKTN|p.K278Rfs*6|1|0.22|ENSG00000106692|chr9:105615328-105615328|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.2740173339844 2 457.273304 912.532055 2.7597 0.0012619 -1.0586 -0.00048407 1.7011 0.00077788 457.2727070668256 49.852 0.41101 50.113 49.98 50.391 0.26146 33 15 3 0 0 0 0.70146 1 22782 22782 5.7604 0 1 957860 25210 1581 16264 16320 28719 28719 0.07229045050996774 PVFLIDPL 8 Unmodified _PVFLIDPL_ 0 0 0 FKTN|p.K278Rfs*6|1|0.22|ENSG00000106692|chr9:105615328-105615328|A/-|frameshift_variant;nc|ENSG00000106692|O75072-2|FKTN;ENSG00000106692|ENST00000357998|FKTN FKTN|p.K278Rfs*6|1|0.22|ENSG00000106692|chr9:105615328-105615328|A/-|frameshift_variant FKTN|p.K278Rfs*6|1|0.22|ENSG00000106692|chr9:105615328-105615328|A/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 457.273304 912.532055 2.8294 0.0012938 -1.2619 -0.00057704 1.5675 0.00071676 457.2726938115231 49.144 0.37407 49.971 49.797 50.172 0.82705 -0.063539 -0.00019946 NaN 5.7604 25 19 2 NaN NaN NaN NaN 0 NaN NaN 0 271040 25211 1581 16264 16320 0.07229045050996774 PVFLVPFHL 9 Unmodified _PVFLVPFHL_ 0 0 0 REV__ENST00000451653.5_2_3:42594755-42597434:-|nuORF REV__ENST00000451653.5_2_3:42594755-42597434:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 534.6845092773438 2 534.81567 1067.61679 NaN NaN NaN NaN NaN NaN NaN 55.255 1 56.042 55.542 56.542 0.78711 0 0 0 0.90511 1 25223 25223 2.3027 0.24298 1 + 25212 16413 16265 16321 28720 28720 0.08568415587615164 PVFRRYLNKIL 11 Unmodified _PVFRRYLNKIL_ 0 0 0 nc|ENSG00000121940|Q96S66-4|CLCC1;nc|ENSG00000121940|Q96S66-3|CLCC1;nc|ENSG00000121940|Q96S66-2|CLCC1;ENSG00000121940|ENST00000369969|CLCC1 nc|ENSG00000121940|Q96S66-4|CLCC1 nc|ENSG00000121940|Q96S66-4|CLCC1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 709.7552490234375 2 709.935171 1417.85579 3.3539 0.002381 3.5506 0.0025207 6.9045 0.0049017 710.4397837413067 107.58 0.10753 107.58 107.5 107.6 0 6 4 2 0 0 0 0.13295 1 58971 58971 3.2813 1.7994 1 530730 25213 2250 16266 16322 28721 28721 0.16357570818945533 PVFRYKYRRWR 11 Unmodified _PVFRYKYRRWR_ 0 0 0 REV__nc|ENSG00000155542|Q8NE22-2|SETD9 REV__nc|ENSG00000155542|Q8NE22-2|SETD9 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 813.5616455078125 2 813.960043 1625.90553 2.4038 0.0019566 3.06 0.0024907 5.4637 0.0044473 813.9637140431682 98.74 0.035278 98.806 98.774 98.81 0.066025 4 2 2 0 0 0 0.13295 1 53154 53154 0.35063 0.35063 1 15714000 + 25214 12743 16267 16323 28722 28722 0.11761698547570631 PVFSVQNYQLY 11 Unmodified _PVFSVQNYQLY_ 0 0 0 REV__ENSG00000186105|ENST00000334994|LRRC70 REV__ENSG00000186105|ENST00000334994|LRRC70 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 679.3446044921875 2 679.342978 1356.6714 3.8174 0.0025933 -1.6173 -0.0010987 2.2001 0.0014946 679.3421450044733 60.238 0.32833 60.494 60.367 60.696 0.25578 36 16 3 0 0 0 0.82535 1 27646 27646 5.7319 0 1 617630 + 25215 14044 16268 16324 28723 28723 0.007333378777275357 PVFSVQNYQLY 11 Unmodified _PVFSVQNYQLY_ 0 0 0 REV__ENSG00000186105|ENST00000334994|LRRC70 REV__ENSG00000186105|ENST00000334994|LRRC70 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 679.344482421875 2 679.342978 1356.6714 3.9669 0.0026949 -0.74807 -0.0005082 3.2188 0.0021867 679.3430436780704 59.696 0.33341 60.361 60.274 60.608 0.66503 28 16 2 0 0 0 0.82535 1 27330 27330 5.7319 0 1 613900 + 25216 14044 16268 16324 28724 28724 0.007333378777275357 PVGDGESLSL 10 Unmodified _PVGDGESLSL_ 0 0 0 REV__ENSG00000015133|ENST00000389857|CCDC88C REV__ENSG00000015133|ENST00000389857|CCDC88C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2471923828125 2 487.245472 972.476391 3.0373 0.0014799 1.2119 0.00059048 4.2492 0.0020704 487.24597829006564 43.477 0.28812 43.748 43.628 43.916 0.27021 18 10 2 0 0 0 0.51828 1 19908 19908 20.454 0 1 210840 + 25217 10253 16269 16325 28725 28725 -0.01094832927265088 PVGGPARGRLL 11 Unmodified _PVGGPARGRLL_ 0 0 0 ENSG00000158158|ENST00000377075|CNNM4 ENSG00000158158|ENST00000377075|CNNM4 ENSG00000158158|ENST00000377075|CNNM4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.4932250976562 2 546.835457 1091.65636 2.5446 0.0013915 0.39251 0.00021464 2.9371 0.0016061 547.3360031813938 66.601 0.030327 67.306 67.287 67.317 0.7047 5 3 2 0 0 0 0.13292 1 31584 31584 14.838 1.7958 1 1352100 25218 3977 16270 16326 28726 28726 0.11419935591038666 PVGRPRRK 8 Unmodified _PVGRPRRK_ 0 0 0 REV__nc|ENSG00000141568|Q01167-2|FOXK2 REV__nc|ENSG00000141568|Q01167-2|FOXK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.307861328125 2 483.30941 964.604266 NaN NaN NaN NaN NaN NaN NaN 64.492 1 64.74 64.24 65.24 0.24803 0 0 0 0.99035 1 29539 29539 2.5775 0 1 + 25219 12300 16271 16327 28727 28727 0.12054816967929582 PVGSAPVRKG 10 Unmodified _PVGSAPVRKG_ 0 0 0 REV__ENST00000376040.2_1_9:88556447-88556534:+|nuORF REV__ENST00000376040.2_1_9:88556447-88556534:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.2873229980469 2 484.287808 966.561064 NaN NaN NaN NaN NaN NaN NaN 30.908 1 31.164 30.664 31.664 0.25614 0 0 0 0.99774 1 14066 14066 3.5965 0.70727 1 + 25220 15815 16272 16328 28728 28728 0.07644582399996125 PVGYEFQLS 9 Unmodified _PVGYEFQLS_ 0 0 0 REV__nc|ENSG00000165555|Q6NXP6-2|NOXRED1 REV__nc|ENSG00000165555|Q6NXP6-2|NOXRED1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1040.5150146484375 1 1039.50949 1038.50221 3.5754 0.0037166 0.16187 0.00016826 3.7373 0.0038849 1039.509335217646 66.715 0.35645 67.372 67.2 67.557 0.65672 46 21 3 0 0 0 0.7295 1 30524 30524 8.5933 0 1 1586300 + 25221 13166 16273 16329 28729 28729 -0.015499386849796792 PVHCDRCNI 9 Unmodified _PVHCDRCNI_ 0 0 0 REV__ENST00000366210.2_1_2:242263647-242276275:+|nuORF REV__ENST00000366210.2_1_2:242263647-242276275:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.7401123046875 2 528.739311 1055.46407 2.9269 0.0015476 2.5168 0.0013307 5.4437 0.0028783 528.7403926073542 52.747 0.22225 53.55 53.475 53.697 0.80351 19 15 2 0 0 0 0.079031 1 24045 24045 37.974 5.857 1 956660 + 25222 15638 16274 16330 28730 28730 -0.06144471142965813 PVHGRERRL 9 Unmodified _PVHGRERRL_ 0 0 0 REV__ENSG00000105397|ENST00000525621|TYK2 REV__ENSG00000105397|ENST00000525621|TYK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.327880859375 2 560.328331 1118.64211 NaN NaN NaN NaN NaN NaN NaN 49.802 1 50.064 49.564 50.564 0.26146 0 0 0 0.90511 1 22761 22761 2.3027 0 1 + 25223 11031 16275 16331 28731 28731 0.08753283162741354 PVHSKIFP 8 Unmodified _PVHSKIFP_ 0 0 0 REV__ENSG00000171811|ENST00000368586|CFAP46 REV__ENSG00000171811|ENST00000368586|CFAP46 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 462.7703857421875 2 462.76872 923.522887 2.3972 0.0011093 1.1497 0.00053204 3.5468 0.0016414 462.76913399282614 33.592 0.2298 34.38 34.23 34.46 0.78795 24 14 2 0 0 0 0.11358 1 15195 15195 63.563 17.813 1 1404200 + 25224 13519 16276 16332 28732 28732 0.05806696485319662 PVHSKIFP 8 Unmodified _PVHSKIFP_ 0 0 0 REV__ENSG00000171811|ENST00000368586|CFAP46 REV__ENSG00000171811|ENST00000368586|CFAP46 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 462.77069091796875 2 462.76872 923.522887 2.7234 0.0012603 0.95737 0.00044304 3.6808 0.0017034 462.76911416420705 33.792 0.38216 34.412 34.195 34.577 0.62031 33 18 2 0 0 0 0.26626 1 15471 15471 46.921 10.455 1 714770 + 25225 13519 16276 16332 28733 28733 0.05806696485319662 PVIKRRTFQ 9 Unmodified _PVIKRRTFQ_ 0 0 0 nc|ENSG00000197467|Q5TAT6-10|COL13A1;nc|ENSG00000197467|Q5TAT6-8|COL13A1;nc|ENSG00000197467|Q5TAT6-7|COL13A1;nc|ENSG00000197467|Q5TAT6-5|COL13A1;nc|ENSG00000197467|Q5TAT6-6|COL13A1;nc|ENSG00000197467|Q5TAT6|COL13A1;ENSG00000197467|ENST00000645393|COL13A1 nc|ENSG00000197467|Q5TAT6-10|COL13A1 nc|ENSG00000197467|Q5TAT6-10|COL13A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 382.57159423828125 3 382.236497 1143.68766 1.9568 0.00074796 -0.036132 -1.3811E-05 1.9207 0.00073415 382.23646677203453 6.3273 0.50829 6.667 6.4651 6.9734 0.33974 141 66 3 0 0 0 1.2289 1 2848 2848 0.26902 0 1 68956 25226 5821 16277 16333 28734 28734 0.12156508625116658 PVIKSILLLFF 11 Unmodified _PVIKSILLLFF_ 0 0 0 REV__ENSG00000117971|ENST00000261751|CHRNB4 REV__ENSG00000117971|ENST00000261751|CHRNB4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 645.2672729492188 2 645.415217 1288.81588 NaN NaN NaN NaN NaN NaN NaN 60.483 1 60.483 59.983 60.983 0 0 0 0 1.0071 1 28094 28094 1.4819 0 1 + 25227 11457 16278 16334 28735 28735 0.183026310956393 PVISGAFC 8 Unmodified _PVISGAFC_ 0 0 0 ENSG00000154719|ENST00000352957|MRPL39;nc|ENSG00000154719|Q9NYK5-2|MRPL39 ENSG00000154719|ENST00000352957|MRPL39 ENSG00000154719|ENST00000352957|MRPL39 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.1988525390625 2 397.199282 792.384011 NaN NaN NaN NaN NaN NaN NaN 29.134 1 29.395 28.895 29.895 0.2602 0 0 0 0.99035 1 13258 13258 2.5775 0 1 25228 3835 16279 16335 28736 28736 -0.020485894745092992 PVKKKKHRFGL 11 Unmodified _PVKKKKHRFGL_ 0 0 0 ENST00000477591.1_1_3:52874512-52875735:-|nuORF;ENST00000464769.1_1_3:52874512-52877125:-|nuORF;ENSG00000213533|ENST00000355083|STIMATE ENST00000477591.1_1_3:52874512-52875735:-|nuORF ENST00000477591.1_1_3:52874512-52875735:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 669.4305419921875 2 669.430056 1336.84556 NaN NaN NaN NaN NaN NaN NaN 70.13 1 70.13 69.63 70.63 0 0 0 0 1.0059 1 33977 33977 2.9952 0 1 25229 6091 16280 16336 28737 28737 0.19061007884351966 PVKKKTKR 8 Unmodified _PVKKKTKR_ 0 0 0 REV__ENST00000543938.5_1_15:83328314-83349061:-|nuORF REV__ENST00000543938.5_1_15:83328314-83349061:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.4036865234375 2 492.837468 983.660384 NaN NaN NaN NaN NaN NaN NaN 69.145 1 69.847 69.347 70.347 0.70218 0 0 0 0.99035 1 33060 33060 5.2307 0.90143 1 + 25230 10976 16281 16337 28738 28738 0.1679002508475378 PVKKKVKKV 9 Unmodified _PVKKKVKKV_ 0 0 0 MSH3|p.R938Yfs*14|1|0.07|ENSG00000113318|chr5:80813738-80813739|-/TTATTGTACCAGA|frameshift_variant;ENSG00000113318|ENST00000265081|MSH3 MSH3|p.R938Yfs*14|1|0.07|ENSG00000113318|chr5:80813738-80813739|-/TTATTGTACCAGA|frameshift_variant MSH3|p.R938Yfs*14|1|0.07|ENSG00000113318|chr5:80813738-80813739|-/TTATTGTACCAGA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.4134521484375 2 527.378969 1052.74339 NaN NaN NaN NaN NaN NaN NaN 96.944 1 97.546 97.046 98.046 0.6019 0 0 0 0.90511 1 44569 44569 2.3027 1.778 1 25231 1847 16282 16338 28739 28739 0.2191234181273103 PVKKNKEKT 9 Unmodified _PVKKNKEKT_ 0 0 0 REV__ENSG00000175115|ENST00000320580|PACS1 REV__ENSG00000175115|ENST00000320580|PACS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 358.21142578125 3 357.888874 1070.64479 2.3761 0.00085037 -0.90826 -0.00032505 1.4678 0.00052531 357.8889909703084 37.387 0.25621 38.182 38.084 38.341 0.79552 18 11 2 0 0 0 1.1154 1 16916 16916 1.0715 0.44464 1 294620 + 25232 13660 16283 16339 28740 28740 0.11229693777045213 PVKKNKEKT 9 Unmodified _PVKKNKEKT_ 0 0 0 REV__ENSG00000175115|ENST00000320580|PACS1 REV__ENSG00000175115|ENST00000320580|PACS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 357.888874 1070.64479 2.6397 0.00094471 -0.94507 -0.00033823 1.6946 0.00060648 357.88898202031265 38.41 0.40622 38.41 38.173 38.58 0 0.087658 -0.00045514 NaN 1.0715 24 17 2 NaN NaN NaN NaN 0 NaN NaN 0 439180 + 25233 13660 16283 16339 0.11229693777045213 PVKKNKEKT 9 Unmodified _PVKKNKEKT_ 0 0 0 REV__ENSG00000175115|ENST00000320580|PACS1 REV__ENSG00000175115|ENST00000320580|PACS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 357.888874 1070.64479 2.4686 0.00088348 -0.25669 -9.1867E-05 2.2119 0.00079162 357.8889828602314 38.223 0.35632 38.487 38.246 38.603 0.26408 0.16463 0.00028395 NaN 1.0715 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 843980 + 25234 13660 16283 16339 0.11229693777045213 PVKKNKEKT 9 Unmodified _PVKKNKEKT_ 0 0 0 REV__ENSG00000175115|ENST00000320580|PACS1 REV__ENSG00000175115|ENST00000320580|PACS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 357.888874 1070.64479 2.427 0.0008686 0.052034 1.8622E-05 2.479 0.00088722 357.8892139425599 37.576 0.74616 38.21 37.866 38.612 0.63388 -0.11232 0.00061542 NaN 1.0715 29 25 2 NaN NaN NaN NaN 0 NaN NaN 0 551660 + 25235 13660 16283 16339 0.11229693777045213 PVKKPKIRRK 10 Unmodified _PVKKPKIRRK_ 0 0 0 ENSG00000137413|ENST00000372977|TAF8;nc|ENSG00000137413|Q7Z7C8-2|TAF8 ENSG00000137413|ENST00000372977|TAF8 ENSG00000137413|ENST00000372977|TAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 626.2565307617188 2 625.432599 1248.85064 3.9617 0.0024778 -2.1124 -0.0013212 1.8494 0.0011566 625.4310544614448 105.31 0.085632 105.91 105.86 105.95 0.59969 5 3 2 0 0 0 0.93628 1 48624 48624 1.6526 1.1943 1 1022900 25236 3015 16284 16340 28741 28741 0.23617311746966152 PVKKRVKI 8 Unmodified _PVKKRVKI_ 0 0 0 SLC35G2|p.T290Yfs*59|1|0.04|ENSG00000168917|chr3:136855324-136855325|-/T|frameshift_variant;ENSG00000168917|ENST00000446465|SLC35G2 SLC35G2|p.T290Yfs*59|1|0.04|ENSG00000168917|chr3:136855324-136855325|-/T|frameshift_variant SLC35G2|p.T290Yfs*59|1|0.04|ENSG00000168917|chr3:136855324-136855325|-/T|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.8897399902344 2 484.342387 966.67022 2.5249 0.0012229 -1.4641 -0.0007091 1.0609 0.00051384 484.34178865061153 68.028 0.031479 68.73 68.704 68.735 0.70218 5 4 2 0 0 0 0.70799 1 32407 32407 5.2307 0 1 1201600 25237 4662 16285 16341 28742 28742 0.1855521309012147 PVKLHLTGIL 10 Unmodified _PVKLHLTGIL_ 0 0 0 ENST00000579692.1_1_17:29335655-29349061:+|nuORF;ENST00000580190.5_1_17:29335655-29372465:+|nuORF ENST00000579692.1_1_17:29335655-29349061:+|nuORF ENST00000579692.1_1_17:29335655-29349061:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.823974609375 2 545.852784 1089.69102 NaN NaN NaN NaN NaN NaN NaN 75.228 1 75.892 75.392 76.392 0.6644 0 0 0 0.99774 1 34651 34651 3.5965 0 1 25238 9145 16286 16342 28743 28743 0.14975758679133833 PVKLLAKLWQ 10 Unmodified _PVKLLAKLWQ_ 0 0 0 REV__ENST00000564774.5_1_16:84212549-84214094:-|nuORF REV__ENST00000564774.5_1_16:84212549-84214094:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.258544921875 3 399.256898 1194.74886 2.7416 0.0010946 0.9961 0.0003977 3.7377 0.0014923 399.25728790613937 35.725 0.16321 36.516 36.384 36.547 0.79131 11 6 2 0 0 0 0.93584 1 16204 16204 1.7423 0.67081 1 1224700 + 25239 10960 16287 16343 28744 28744 0.15928020604565063 PVKLLAKLWQ 10 Unmodified _PVKLLAKLWQ_ 0 0 0 REV__ENST00000564774.5_1_16:84212549-84214094:-|nuORF REV__ENST00000564774.5_1_16:84212549-84214094:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 399.256898 1194.74886 2.6121 0.0010429 2.4234 0.00096757 5.0355 0.0020105 399.2579683042511 36.676 0.30769 36.676 36.532 36.84 0 0.091182 0.00087752 NaN 1.7423 37 14 3 NaN NaN NaN NaN 0 NaN NaN 0 953140 + 25240 10960 16287 16343 0.15928020604565063 PVKLLAKLWQ 10 Unmodified _PVKLLAKLWQ_ 0 0 0 REV__ENST00000564774.5_1_16:84212549-84214094:-|nuORF REV__ENST00000564774.5_1_16:84212549-84214094:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 399.256898 1194.74886 2.7416 0.0010946 0.9961 0.0003977 3.7377 0.0014923 399.25728790613937 35.725 0.16321 36.516 36.384 36.547 0.79131 -0.06924 -0.00083208 NaN 1.7423 11 6 2 NaN NaN NaN NaN 0 NaN NaN 0 1224700 + 25241 10960 16287 16343 0.15928020604565063 PVKLLAKLWQ 10 Unmodified _PVKLLAKLWQ_ 0 0 0 REV__ENST00000564774.5_1_16:84212549-84214094:-|nuORF REV__ENST00000564774.5_1_16:84212549-84214094:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 399.256898 1194.74886 3.0011 0.0011982 1.5305 0.00061106 4.5316 0.0018093 399.25745485606905 36.391 0.59367 36.649 36.37 36.963 0.25768 0.06399 -0.000192 NaN 1.7423 54 22 3 NaN NaN NaN NaN 0 NaN NaN 0 1452100 + 25242 10960 16287 16343 0.15928020604565063 PVKLLAKLWQ 10 Unmodified _PVKLLAKLWQ_ 0 0 0 REV__ENST00000564774.5_1_16:84212549-84214094:-|nuORF REV__ENST00000564774.5_1_16:84212549-84214094:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 399.256898 1194.74886 3.0163 0.0012043 1.4324 0.0005719 4.4487 0.0017762 399.2574455144325 35.873 0.54483 36.499 36.275 36.82 0.62631 -0.085931 -0.00030949 NaN 1.7423 41 19 3 NaN NaN NaN NaN 0 NaN NaN 0 1096000 + 25243 10960 16287 16343 0.15928020604565063 PVKNTFLRMWI 11 Unmodified _PVKNTFLRMWI_ 0 0 0 ENSG00000013392|ENST00000369724|RWDD2A;nc|ENSG00000013392|Q9UIY3-2|RWDD2A ENSG00000013392|ENST00000369724|RWDD2A ENSG00000013392|ENST00000369724|RWDD2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 702.8810424804688 2 702.894657 1403.77476 NaN NaN NaN NaN NaN NaN NaN 53.343 1 54.146 53.646 54.646 0.80351 0 0 0 1.0072 1 24331 24331 1.3295 0 1 25244 431 16288 16344 28745 28745 0.08902546784520382 PVKRVRKAI 9 Unmodified _PVKRVRKAI_ 0 0 0 nc|ENSG00000122482|Q9H582-2|ZNF644;ENSG00000122482|ENST00000337393|ZNF644 nc|ENSG00000122482|Q9H582-2|ZNF644 nc|ENSG00000122482|Q9H582-2|ZNF644 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 534.3153686523438 2 533.864018 1065.71348 NaN NaN NaN NaN NaN NaN NaN 69.139 1 69.842 69.342 70.342 0.70218 0 0 0 0.90611 1 33056 33056 2.0598 0.21551 1 25245 2270 16289 16345 28746 28746 0.18325402867412777 PVLCLTCFFF 10 Unmodified _PVLCLTCFFF_ 0 0 0 ENST00000398148.7_3_19:6413682-6414126:-|nuORF ENST00000398148.7_3_19:6413682-6414126:-|nuORF ENST00000398148.7_3_19:6413682-6414126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.2206726074219 3 397.197663 1188.57116 3.0412 0.001208 0.55409 0.00022008 3.5953 0.0014281 397.5323108445467 29.08 0.11874 29.34 29.271 29.39 0.2602 8 6 2 0 0 0 0.93534 1 13202 13202 0.77653 0 1 146790 25246 7591 16290 16346 28747 28747 -0.015583139813315938 PVLCLTCFFF 10 Unmodified _PVLCLTCFFF_ 0 0 0 ENST00000398148.7_3_19:6413682-6414126:-|nuORF ENST00000398148.7_3_19:6413682-6414126:-|nuORF ENST00000398148.7_3_19:6413682-6414126:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 397.197663 1188.57116 3.0412 0.001208 0.55409 0.00022008 3.5953 0.0014281 397.5323108445467 29.08 0.11874 29.34 29.271 29.39 0.2602 0 0 NaN 0.77653 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 146790 25247 7591 16290 16346 -0.015583139813315938 PVLIARVFH 9 Unmodified _PVLIARVFH_ 0 0 0 ENST00000552415.1_1_12:107109174-107109339:-|nuORF ENST00000552415.1_1_12:107109174-107109339:-|nuORF ENST00000552415.1_1_12:107109174-107109339:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.325927734375 2 526.324194 1050.63383 NaN NaN NaN NaN NaN NaN NaN 63.697 1 64.354 63.854 64.854 0.65672 0 0 0 0.91014 1 29192 29192 2.0598 0.40713 1 25248 8890 16291 16347 28748 28748 0.11054336193410563 PVLKAKKKKLK 11 Unmodified _PVLKAKKKKLK_ 0 0 0 ENSG00000111358|ENST00000543341|GTF2H3;nc|ENSG00000111358|Q13889-2|GTF2H3;ENST00000539429.1_1_12:124144026-124144779:+|nuORF ENSG00000111358|ENST00000543341|GTF2H3 ENSG00000111358|ENST00000543341|GTF2H3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.1914672851562 2 640.960658 1279.90676 NaN NaN NaN NaN NaN NaN NaN 78.32 1 78.32 77.82 78.82 0 0 0 0 1.008 1 38478 38478 0.35063 0.043601 1 25249 1760 16292 16348 28749 28749 0.2780051986376293 PVLKFVRNVP 10 Unmodified _PVLKFVRNVP_ 0 0 0 ENST00000588300.1_1_19:45920077-45926632:-|nuORF;nc|ENSG00000012061|P07992-4|ERCC1;ENST00000592905.5_1_19:45918043-45926632:-|nuORF;nc|ENSG00000012061|P07992-2|ERCC1;ENSG00000012061|ENST00000300853|ERCC1;nc|ENSG00000012061|P07992-3|ERCC1 ENST00000588300.1_1_19:45920077-45926632:-|nuORF ENST00000588300.1_1_19:45920077-45926632:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.8654174804688 2 584.863683 1167.71281 NaN NaN NaN NaN NaN NaN NaN 30.795 1 31.584 31.084 32.084 0.78879 0 0 0 1.0003 1 13910 13910 1.4819 0.15237 1 25250 422 16293 16349 28750 28750 0.1356656342768474 PVMYVIIAL 9 Unmodified _PVMYVIIAL_ 0 0 0 REV__ENST00000495425.6_1_17:19458825-19480863:+|nuORF REV__ENST00000495425.6_1_17:19458825-19480863:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.8049011230469 2 509.803914 1017.59328 3.1514 0.0016066 0.099422 5.0686E-05 3.2508 0.0016573 509.80383207747474 78.845 1.1176 79.096 78.239 79.357 0.25127 117 71 2 0 0 0 0.11256 1 36107 36107 0.6015 0.6015 1 784470 + 25251 12326 16294 16350 28751 28751 0.08518233758763927 PVNKKFVH 8 Unmodified _PVNKKFVH_ 0 0 0 REV__ENST00000454857.5_1_10:119966135-119966366:+|nuORF REV__ENST00000454857.5_1_10:119966135-119966366:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.7896423339844 2 484.787444 967.560336 3.2875 0.0015938 0.91552 0.00044383 4.2031 0.0020376 484.7879286444985 37.182 0.38943 37.182 36.989 37.378 0 33 14 3 0 0 0 0.74071 1 16850 16850 2.5775 0 1 3428400 + 25252 16439 16295 16351 28752 28752 0.07525787750944346 PVNKKFVH 8 Unmodified _PVNKKFVH_ 0 0 0 REV__ENST00000454857.5_1_10:119966135-119966366:+|nuORF REV__ENST00000454857.5_1_10:119966135-119966366:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 323.5283203125 3 323.527388 967.560336 2.0899 0.00067615 1.4474 0.00046826 3.5373 0.0011444 323.5277417396986 45.025 0.61828 45.025 44.711 45.33 0 36 33 2 0 0 0 0.74071 1 20621 20621 1.6526 0.17072 1 698280 + 25253 16439 16295 16351 28753 28753 0.07525787750944346 PVNKKFVH 8 Unmodified _PVNKKFVH_ 0 0 0 REV__ENST00000454857.5_1_10:119966135-119966366:+|nuORF REV__ENST00000454857.5_1_10:119966135-119966366:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 968.5709228515625 1 968.567612 967.560336 3.665 0.0035498 1.6739 0.0016212 5.3388 0.005171 968.569114665833 36.58 0.25586 36.838 36.673 36.929 0.25768 20 9 3 0 0 0 0.74071 1 16618 16618 2.5775 0.27475 1 837520 + 25254 16439 16295 16351 28754 28754 0.07525787750944346 PVNKKFVH 8 Unmodified _PVNKKFVH_ 0 0 0 REV__ENST00000454857.5_1_10:119966135-119966366:+|nuORF REV__ENST00000454857.5_1_10:119966135-119966366:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 968.5715942382812 1 968.567612 967.560336 3.7414 0.0036238 1.4503 0.0014048 5.1917 0.0050285 968.5688217223047 36.986 0.26854 37.244 37.078 37.347 0.25768 13 8 2 0 0 0 0.74071 1 16886 16886 2.5775 0.27475 1 645010 + 25255 16439 16295 16351 28755 28755 0.07525787750944346 PVNKKFVH 8 Unmodified _PVNKKFVH_ 0 0 0 REV__ENST00000454857.5_1_10:119966135-119966366:+|nuORF REV__ENST00000454857.5_1_10:119966135-119966366:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.5287170410156 3 323.527388 967.560336 NaN NaN NaN NaN NaN NaN NaN 43.925 1 44.194 43.694 44.694 0.2694 0 0 0 0.99035 1 20069 20069 1.6526 0 1 + 25256 16439 16295 16351 28756 28756 0.07525787750944346 PVNKKFVH 8 Unmodified _PVNKKFVH_ 0 0 0 REV__ENST00000454857.5_1_10:119966135-119966366:+|nuORF REV__ENST00000454857.5_1_10:119966135-119966366:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.5289306640625 3 323.527388 967.560336 NaN NaN NaN NaN NaN NaN NaN 44.442 1 45.092 44.592 45.592 0.64998 0 0 0 0.99035 1 20372 20372 1.6526 0.17072 1 + 25257 16439 16295 16351 28757 28757 0.07525787750944346 PVNKKFVH 8 Unmodified _PVNKKFVH_ 0 0 0 REV__ENST00000454857.5_1_10:119966135-119966366:+|nuORF REV__ENST00000454857.5_1_10:119966135-119966366:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.78997802734375 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 70.723 1 71.385 70.885 71.885 0.66209 0 0 0 0.99035 1 32414 32414 2.5775 0.27475 1 + 25258 16439 16295 16351 28758 28758 0.07525787750944346 PVNKKFVH 8 Unmodified _PVNKKFVH_ 0 0 0 REV__ENST00000454857.5_1_10:119966135-119966366:+|nuORF REV__ENST00000454857.5_1_10:119966135-119966366:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 323.527388 967.560336 2.0899 0.00067615 1.4474 0.00046826 3.5373 0.0011444 323.5277417396986 45.025 0.61828 45.025 44.711 45.33 0 0.18826 -0.00044461 NaN 1.6526 36 33 2 NaN NaN NaN NaN 0 NaN NaN 0 698280 + 25259 16439 16295 16351 0.07525787750944346 PVNKKFVH 8 Unmodified _PVNKKFVH_ 0 0 0 REV__ENST00000454857.5_1_10:119966135-119966366:+|nuORF REV__ENST00000454857.5_1_10:119966135-119966366:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 323.527388 967.560336 2.3314 0.00075426 2.0572 0.00066557 4.3886 0.0014198 323.52800929103506 44.177 0.41617 44.827 44.56 44.976 0.64998 -0.0096205 0.00014732 NaN 1.6526 30 19 2 NaN NaN NaN NaN 0 NaN NaN 0 925020 + 25260 16439 16295 16351 0.07525787750944346 PVPILLLCP 9 Unmodified _PVPILLLCP_ 0 0 0 ENST00000489319.5_1_21:44178904-44195400:+|nuORF ENST00000489319.5_1_21:44178904-44195400:+|nuORF ENST00000489319.5_1_21:44178904-44195400:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 322.38134765625 3 322.201513 963.582711 NaN NaN NaN NaN NaN NaN NaN 47.026 1 47.026 46.526 47.526 0 0 0 0 0.90965 1 21526 21526 1.1933 0 1 25261 8377 16296 16352 28759 28759 0.09946251104338444 PVPLQELVP 9 Unmodified _PVPLQELVP_ 0 0 0 ENSG00000154237|ENST00000388948|LRRK1;ENST00000525284.5_1_15:101565016-101602660:+|nuORF ENSG00000154237|ENST00000388948|LRRK1 ENSG00000154237|ENST00000388948|LRRK1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.86956787109375 2 496.294768 990.574983 3.2541 0.001615 0.5769 0.00028631 3.831 0.0019013 496.29496796680763 79.616 0.24498 80.277 80.135 80.38 0.66082 21 15 2 0 0 0 0.084995 1 36710 36710 4.3292 0 1 277340 25262 3811 16297 16353 28760 28760 0.07931815108429419 PVPVFRRR 8 Unmodified _PVPVFRRR_ 0 0 0 REV__ENSG00000080573|ENST00000264828|COL5A3 REV__ENSG00000080573|ENST00000264828|COL5A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.81982421875 2 513.81961 1025.62467 NaN NaN NaN NaN NaN NaN NaN 9.1573 1 9.7867 9.2867 10.287 0.62936 0 0 0 0.99035 1 4125 4125 0.79363 0.10326 1 + 25263 10596 16298 16354 28761 28761 0.11287987627747498 PVPVLSKYLL 10 Unmodified _PVPVLSKYLL_ 0 0 0 REV__ENSG00000165572|ENST00000379485|KBTBD6 REV__ENSG00000165572|ENST00000379485|KBTBD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.85400390625 2 564.854993 1127.69543 NaN NaN NaN NaN NaN NaN NaN 83.281 1 83.529 83.029 84.029 0.24722 0 0 0 0.99687 1 38336 38336 4.3292 0.38484 1 + 25264 13168 16299 16355 28762 28762 0.13669223102033357 PVQLLIFVL 9 Unmodified _PVQLLIFVL_ 0 0 0 ENST00000361283.2_1_13:115080025-115086620:+|nuORF ENST00000361283.2_1_13:115080025-115086620:+|nuORF ENST00000361283.2_1_13:115080025-115086620:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.5655517578125 2 521.338978 1040.6634 NaN NaN NaN NaN NaN NaN NaN 97.197 1 97.268 96.768 97.768 0.070648 0 0 0 0.89683 1 51890 51890 4.3292 0 1 25265 7222 16300 16356 28763 28763 0.14469855418906263 PVQRKKRKNW 10 Unmodified _PVQRKKRKNW_ 0 0 0 REV__nc|ENSG00000122188|Q8IWV1-3|LAX1 REV__nc|ENSG00000122188|Q8IWV1-3|LAX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 447.2743835449219 3 447.273834 1338.79967 NaN NaN NaN NaN NaN NaN NaN 104.84 1 105.44 104.94 105.94 0.59885 0 0 0 1.0015 1 48433 48433 0.13989 0.04505 1 + 25266 11575 16301 16357 28764 28764 0.1438236270212201 PVQRQPKH 8 Unmodified _PVQRQPKH_ 0 0 0 ENSG00000185483|ENST00000371079|ROR1 ENSG00000185483|ENST00000371079|ROR1 ENSG00000185483|ENST00000371079|ROR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 989.5711669921875 1 989.563924 988.556647 3.0101 0.0029787 0.19417 0.00019214 3.2042 0.0031708 989.56423240176 76.646 0.082314 77.27 77.216 77.299 0.62397 5 3 2 0 0 0 0.70146 1 37135 37135 5.7604 1.816 1 669800 25267 5510 16302 16358 28765 28765 0.06191117977084559 PVRIKLHK 8 Unmodified _PVRIKLHK_ 0 0 0 ENST00000485497.2_1_6:76357395-76357443:+|nuORF ENST00000485497.2_1_6:76357395-76357443:+|nuORF ENST00000485497.2_1_6:76357395-76357443:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.83477783203125 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 95.317 1 95.934 95.434 96.434 0.61716 0 0 0 0.99035 1 43835 43835 0.79363 0 1 25268 8332 16303 16359 28766 28766 0.15458042430304886 PVRKEPGVK 9 Unmodified _PVRKEPGVK_ 0 0 0 REV__nc|ENSG00000078699|O43439|CBFA2T2 REV__nc|ENSG00000078699|O43439|CBFA2T2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 337.2130432128906 3 337.209948 1008.60801 NaN NaN NaN NaN NaN NaN NaN 34.451 1 34.451 33.951 34.951 0 0 0 0 0.90699 1 15617 15617 0.96228 0 1 + 25269 17871 16304 16360 28767 28767 0.10405441951138528 PVRKQPKILPR 11 Unmodified _PVRKQPKILPR_ 0 0 0 REV__nc|ENSG00000141448|Q92908-2|GATA6 REV__nc|ENSG00000141448|Q92908-2|GATA6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 666.4329223632812 2 666.435338 1330.85612 NaN NaN NaN NaN NaN NaN NaN 63.899 1 64.614 64.114 65.114 0.71521 0 0 0 1.0059 1 30001 30001 2.9952 0.49676 1 + 25270 12288 16305 16361 28768 28768 0.2039299053878949 PVRLFTFIFFG 11 Unmodified _PVRLFTFIFFG_ 0 0 0 REV__ENST00000572485.5_1_17:7188262-7189945:+|nuORF REV__ENST00000572485.5_1_17:7188262-7189945:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 672.3796997070312 2 672.379166 1342.74378 NaN NaN NaN NaN NaN NaN NaN 96.838 1 96.914 96.414 97.414 0.076538 0 0 0 1.0038 1 51576 51576 5.7319 2.4505 1 + 25271 13865 16306 16362 28769 28769 0.08611716741916098 PVRLLAAPFPL 11 Unmodified _PVRLLAAPFPL_ 0 0 0 REV__nc|ENSG00000118156|Q9H0D2-2|ZNF541 REV__nc|ENSG00000118156|Q9H0D2-2|ZNF541 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 398.5859069824219 3 398.585015 1192.73321 2.3889 0.00095219 1.7227 0.00068666 4.1117 0.0016389 398.9200261625581 47.546 0.58558 47.546 47.037 47.623 0 45 32 2 0 0 0 0.13295 1 21791 21791 1.3296 0.36737 1 1508900 + 25272 11464 16307 16363 28770 28770 0.14455734087505334 PVRLLAAPFPL 11 Unmodified _PVRLLAAPFPL_ 0 0 0 REV__nc|ENSG00000118156|Q9H0D2-2|ZNF541 REV__nc|ENSG00000118156|Q9H0D2-2|ZNF541 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.9202880859375 3 398.585015 1192.73321 2.9025 0.0011569 0.45239 0.00018032 3.3549 0.0013372 398.58526608964803 45.453 0.89455 45.721 45.231 46.125 0.26768 76 36 3 0 0 0 0.91028 1 20610 20610 1.4551 0.38366 1 3602800 + 25273 11464 16307 16363 28771 28771 0.14455734087505334 PVRLLAAPFPL 11 Unmodified _PVRLLAAPFPL_ 0 0 0 REV__nc|ENSG00000118156|Q9H0D2-2|ZNF541 REV__nc|ENSG00000118156|Q9H0D2-2|ZNF541 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.92034912109375 3 398.585015 1192.73321 3.1058 0.0012379 0.23152 9.2279E-05 3.3373 0.0013302 398.5853059755123 45.014 0.29033 45.664 45.515 45.806 0.64999 18 10 2 0 0 0 0.91068 1 20680 20680 1.3296 0.63198 1 1997500 + 25274 11464 16307 16363 28772 28772 0.14455734087505334 PVRLLLLLLLL 11 Unmodified _PVRLLLLLLLL_ 0 0 0 REV__ENST00000529734.5_1_11:46105847-46142581:-|nuORF REV__ENST00000529734.5_1_11:46105847-46142581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 638.46044921875 2 638.459959 1274.90537 NaN NaN NaN NaN NaN NaN NaN 72.817 1 73.076 72.576 73.576 0.25876 0 0 0 1.0082 1 33432 33432 0 0 1 + 25275 15332 16308 16364 28773 28773 0.2789088577505936 PVRLLLLLLLL 11 Unmodified _PVRLLLLLLLL_ 0 0 0 REV__ENST00000529734.5_1_11:46105847-46142581:-|nuORF REV__ENST00000529734.5_1_11:46105847-46142581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 638.4600830078125 2 638.459959 1274.90537 NaN NaN NaN NaN NaN NaN NaN 32.999 1 33.618 33.118 34.118 0.61831 0 0 0 1.0082 1 15125 15125 0 0 1 + 25276 15332 16308 16364 28774 28774 0.2789088577505936 PVRLLLLLLLP 11 Unmodified _PVRLLLLLLLP_ 0 0 0 REV__nc|ENSG00000101955|P78539-4|SRPX REV__nc|ENSG00000101955|P78539-4|SRPX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 630.4469604492188 2 630.444309 1258.87407 NaN NaN NaN NaN NaN NaN NaN 67.006 1 67.711 67.211 68.211 0.7047 0 0 0 1.0082 1 31802 31802 0.35063 0.35063 1 + 25277 10912 16309 16365 28775 28775 0.25498312740955953 PVRPAIPPPL 10 Unmodified _PVRPAIPPPL_ 0 0 0 ENST00000543014.1_1_17:27064636-27069002:+|nuORF;ENSG00000160602|ENST00000268766|NEK8 ENST00000543014.1_1_17:27064636-27069002:+|nuORF ENST00000543014.1_1_17:27064636-27069002:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.8897705078125 3 352.890327 1055.64915 NaN NaN NaN NaN NaN NaN NaN 12.479 1 12.786 12.286 13.286 0.30727 0 0 0 0.99954 1 5625 5625 2.086 0.24177 1 25278 4067 16310 16366 28776 28776 0.12355202990602265 PVRPVLRHPP 10 Unmodified _PVRPVLRHPP_ 0 0 0 REV__ENST00000571335.5_1_17:19445708-19459199:+|nuORF REV__ENST00000571335.5_1_17:19445708-19459199:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.3585815429688 2 584.359099 1166.70365 NaN NaN NaN NaN NaN NaN NaN 11.948 1 12.21 11.71 12.71 0.26154 0 0 0 1.0015 1 5150 5150 0.45834 0.45834 1 + 25279 17448 16311 16367 28777 28777 0.1269621486203505 PVRQSSHRRW 10 Unmodified _PVRQSSHRRW_ 0 0 0 REV__nc|ENSG00000125755|Q92797-2|SYMPK REV__nc|ENSG00000125755|Q92797-2|SYMPK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 436.90802001953125 3 436.905921 1307.69593 NaN NaN NaN NaN NaN NaN NaN 17.822 1 17.822 17.322 18.322 0 0 0 0 0.99983 1 7913 7913 0.77653 0.27058 1 + 25280 17917 16312 16368 28778 28778 0.05439455594455467 PVRRRFIQ 8 Unmodified _PVRRRFIQ_ 0 0 0 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 ENSG00000128607|ENST00000335420|KLHDC10 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 357.8898010253906 3 357.88932 1070.64613 2.3761 0.00085037 -2.1539 -0.00077086 0.22217 7.9514E-05 357.8889909703084 37.387 0.25621 38.182 38.084 38.341 0.79552 18 11 2 0 0 0 0.14304 1 16982 16982 1.8442 0 1 294620 25281 2520 16313 16369 28779 28779 0.11363372656478532 PVRRRRWRWEI 11 Unmodified _PVRRRRWRWEI_ 0 0 0 REV__ENST00000574710.1_1_17:4843168-4843264:-|nuORF REV__ENST00000574710.1_1_17:4843168-4843264:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 805.4715576171875 2 805.468567 1608.92258 NaN NaN NaN NaN NaN NaN NaN 90.744 1 90.996 90.496 91.496 0.25163 0 0 0 1.0079 1 41726 41726 1.4819 1.4819 1 + 25282 17468 16314 16370 28780 28780 0.14247619153388769 PVRRRRWRWEI 11 Unmodified _PVRRRRWRWEI_ 0 0 0 REV__ENST00000574710.1_1_17:4843168-4843264:-|nuORF REV__ENST00000574710.1_1_17:4843168-4843264:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 805.46923828125 2 805.468567 1608.92258 NaN NaN NaN NaN NaN NaN NaN 108.53 1 108.84 108.34 109.34 0.31168 0 0 0 1.0082 1 50047 50047 0 0 1 + 25283 17468 16314 16370 28781 28781 0.14247619153388769 PVRRTRPRYTF 11 Unmodified _PVRRTRPRYTF_ 0 0 0 REV__nc|ENSG00000135436|Q8IYM0-2|FAM186B REV__nc|ENSG00000135436|Q8IYM0-2|FAM186B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.94927978515625 3 483.612626 1447.81605 2.8313 0.0013692 -2.6603 -0.0012866 0.17093 8.2662E-05 483.9464443871599 75.705 0.055191 75.962 75.941 75.996 0.25704 5 4 2 0 0 0 0.89844 1 34854 34854 1.0136 0.50762 1 721390 + 25284 12018 16315 16371 28782 28782 0.11005443868202747 PVRSLAPKGR 10 Unmodified _PVRSLAPKGR_ 0 0 0 REV__ENSG00000096070|ENST00000357641|BRPF3 REV__ENSG00000096070|ENST00000357641|BRPF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 360.7275085449219 3 360.89273 1079.65636 NaN NaN NaN NaN NaN NaN NaN 55.475 1 55.475 54.975 55.975 0 0 0 0 0.9952 1 25496 25496 3.0723 1.33 1 + 25285 10773 16316 16372 28783 28783 0.11971935591031979 PVTLRALL 8 Unmodified _PVTLRALL_ 0 0 0 ENST00000485387.1_1_7:100865814-100867236:+|nuORF ENST00000485387.1_1_7:100865814-100867236:+|nuORF ENST00000485387.1_1_7:100865814-100867236:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.7902526855469 2 441.792195 881.569838 NaN NaN NaN NaN NaN NaN NaN 44.972 1 44.972 44.472 45.472 0 0 0 0 0.94507 1 20563 20563 9.3474 0 1 25286 8331 16317 16373 28784 28784 0.12431556036472102 PVTRLPTAQ 9 Unmodified _PVTRLPTAQ_ 0 0 0 ENST00000219334.9_1_16:68405177-68405606:-|nuORF ENST00000219334.9_1_16:68405177-68405606:-|nuORF ENST00000219334.9_1_16:68405177-68405606:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.193359375 3 328.194186 981.56073 NaN NaN NaN NaN NaN NaN NaN 43.465 1 44.114 43.614 44.614 0.64872 0 0 0 0.906 1 19915 19915 2.086 0.60411 1 25287 6413 16318 16374 28785 28785 0.06921162680112047 PVTRTTLQAF 10 Unmodified _PVTRTTLQAF_ 0 0 0 ENST00000416928.6_1_2:177040400-177040706:-|nuORF ENST00000416928.6_1_2:177040400-177040706:-|nuORF ENST00000416928.6_1_2:177040400-177040706:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 378.5499572753906 3 378.548629 1132.62406 2.7954 0.0010582 -0.35178 -0.00013317 2.4436 0.00092503 378.54861807519876 36.51 0.22263 36.767 36.673 36.896 0.25768 14 8 2 0 0 0 0.90196 1 16680 16680 1.7423 0.28716 1 335440 25288 7719 16319 16375 28786 28786 0.06305103397380662 PVVIAGGLL 9 Unmodified _PVVIAGGLL_ 0 0 0 ENST00000549928.5_1_12:60154925-60173457:+|nuORF;ENSG00000118596|ENST00000547379|SLC16A7 ENST00000549928.5_1_12:60154925-60173457:+|nuORF ENST00000549928.5_1_12:60154925-60173457:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 419.7760009765625 2 419.773471 837.53239 NaN NaN NaN NaN NaN NaN NaN 52.392 1 52.392 51.892 52.892 0 0 0 0 0.91452 1 23991 23991 0 0 1 25289 2120 16320 16376 28787 28787 0.10712464770870156 PVVIAGGLL 9 Unmodified _PVVIAGGLL_ 0 0 0 ENST00000549928.5_1_12:60154925-60173457:+|nuORF;ENSG00000118596|ENST00000547379|SLC16A7 ENST00000549928.5_1_12:60154925-60173457:+|nuORF ENST00000549928.5_1_12:60154925-60173457:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 419.7759704589844 2 419.773471 837.53239 NaN NaN NaN NaN NaN NaN NaN 51.552 1 51.815 51.315 52.315 0.26227 0 0 0 0.91452 1 23560 23560 0 0 1 25290 2120 16320 16376 28788 28788 0.10712464770870156 PVVIAGGLL 9 Unmodified _PVVIAGGLL_ 0 0 0 ENST00000549928.5_1_12:60154925-60173457:+|nuORF;ENSG00000118596|ENST00000547379|SLC16A7 ENST00000549928.5_1_12:60154925-60173457:+|nuORF ENST00000549928.5_1_12:60154925-60173457:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 419.7757263183594 2 419.773471 837.53239 NaN NaN NaN NaN NaN NaN NaN 51.277 1 51.936 51.436 52.436 0.65956 0 0 0 0.91452 1 23449 23449 0 0 1 25291 2120 16320 16376 28789 28789 0.10712464770870156 PVVLKLEKGLF 11 Unmodified _PVVLKLEKGLF_ 0 0 0 REV__nc|ENSG00000204634|O95759|TBC1D8 REV__nc|ENSG00000204634|O95759|TBC1D8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.89306640625 2 621.894649 1241.77475 NaN NaN NaN NaN NaN NaN NaN 54.728 1 55.524 55.024 56.024 0.79552 0 0 0 1.0072 1 24975 24975 1.3295 0.13619 1 + 25292 14433 16321 16377 28790 28790 0.16352870056152824 PVVRALAAQL 10 Unmodified _PVVRALAAQL_ 0 0 0 REV__ENSG00000196497|ENST00000354464|IPO4 REV__ENSG00000196497|ENST00000354464|IPO4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 346.8776550292969 3 346.553715 1036.63931 2.5774 0.00089319 -0.31109 -0.00010781 2.2663 0.00078538 346.55363040277985 12.882 0.12309 12.882 12.806 12.929 0 9 4 3 0 0 0 0.12676 1 5598 5598 13.615 10.62 1 589670 + 25293 14221 16322 16378 28791 28791 0.12246014985225884 PVVVLVLLVE 10 Unmodified _PVVVLVLLVE_ 0 0 0 REV__ENST00000341189.8_1_X:100878129-100878174:+|nuORF REV__ENST00000341189.8_1_X:100878129-100878174:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.5758972167969 3 360.574004 1078.70018 NaN NaN NaN NaN NaN NaN NaN 31.569 1 32.186 31.686 32.686 0.61737 0 0 0 1.0015 1 14474 14474 0.13989 0 1 + 25294 15460 16323 16379 28792 28792 0.16398107244822313 PVVVTSST 8 Unmodified _PVVVTSST_ 0 0 0 nc|ENSG00000100987|Q9NZR4-3|VSX1 nc|ENSG00000100987|Q9NZR4-3|VSX1 nc|ENSG00000100987|Q9NZR4-3|VSX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 395.2236022949219 2 395.221268 788.427984 NaN NaN NaN NaN NaN NaN NaN 33.519 1 34.307 33.807 34.807 0.78795 0 0 0 0.99035 1 15168 15168 5.7604 0 1 25295 9575 16324 16380 28793 28793 0.025307182234769243 PVVVTSST 8 Unmodified _PVVVTSST_ 0 0 0 nc|ENSG00000100987|Q9NZR4-3|VSX1 nc|ENSG00000100987|Q9NZR4-3|VSX1 nc|ENSG00000100987|Q9NZR4-3|VSX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 395.22283935546875 2 395.221268 788.427984 NaN NaN NaN NaN NaN NaN NaN 33.623 1 34.411 33.911 34.911 0.78795 0 0 0 0.99035 1 15218 15218 2.5775 0 1 25296 9575 16324 16380 28794 28794 0.025307182234769243 PVVVTSST 8 Unmodified _PVVVTSST_ 0 0 0 nc|ENSG00000100987|Q9NZR4-3|VSX1 nc|ENSG00000100987|Q9NZR4-3|VSX1 nc|ENSG00000100987|Q9NZR4-3|VSX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.22900390625 2 395.221268 788.427984 NaN NaN NaN NaN NaN NaN NaN 38.533 1 38.797 38.297 39.297 0.26408 0 0 0 0.99035 1 17538 17538 5.7604 0 1 25297 9575 16324 16380 28795 28795 0.025307182234769243 PVWLWKRL 8 Unmodified _PVWLWKRL_ 0 0 0 ENST00000481453.5_1_16:419744-420512:-|nuORF;ENST00000461550.5_1_16:418974-420218:-|nuORF;ENST00000483764.5_1_16:418974-420218:-|nuORF;ENSG00000086504|ENST00000199706|MRPL28 ENST00000481453.5_1_16:419744-420512:-|nuORF ENST00000481453.5_1_16:419744-420512:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.5607604980469 3 366.5588 1096.65457 NaN NaN NaN NaN NaN NaN NaN 15.734 1 15.734 15.234 16.234 0 0 0 0 0.99035 1 6959 6959 1.8442 1.0677 1 25298 982 16325 16381 28796 28796 0.11010926573089819 PVWWRRRRLRA 11 Unmodified _PVWWRRRRLRA_ 0 0 0 ENST00000521399.5_1_8:67834613-67837726:-|nuORF;ENST00000520944.5_1_8:67834940-67837798:-|nuORF ENST00000521399.5_1_8:67834613-67837726:-|nuORF ENST00000521399.5_1_8:67834613-67837726:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 776.4675903320312 2 776.465827 1550.9171 NaN NaN NaN NaN NaN NaN NaN 81.328 1 81.576 81.076 82.076 0.24803 0 0 0 1.008 1 37445 37445 0.35063 0.35063 1 25299 8637 16326 16382 28797 28797 0.16367940361578803 PVYVPFLI 8 Unmodified _PVYVPFLI_ 0 0 0 ENSG00000178343|ENST00000319234|SHISA3 ENSG00000178343|ENST00000319234|SHISA3 ENSG00000178343|ENST00000319234|SHISA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.2829284667969 2 474.283672 946.552791 NaN NaN NaN NaN NaN NaN NaN 42.909 1 43.556 43.056 44.056 0.64693 0 0 0 0.91812 1 19663 19663 11.114 1.0405 1 25300 5162 16327 16383 28798 28798 0.07737635430657974 PWGEKLPL 8 Unmodified _PWGEKLPL_ 0 0 0 REV__ENST00000256151.7_1_12:82746644-82746788:-|nuORF REV__ENST00000256151.7_1_12:82746644-82746788:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.2091064453125 2 470.268553 938.522553 NaN NaN NaN NaN NaN NaN NaN 16.128 1 16.786 16.286 17.286 0.65798 0 0 0 0.99035 1 7269 7269 0.69038 0 1 + 25301 14933 16328 16384 28799 28799 0.05083276765458322 PWHLGEEWVI 10 Unmodified _PWHLGEEWVI_ 0 0 0 ENST00000509911.2_1_9:37007519-37007720:+|nuORF ENST00000509911.2_1_9:37007519-37007720:+|nuORF ENST00000509911.2_1_9:37007519-37007720:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.59423828125 3 422.548629 1264.62406 2.9482 0.0012458 -0.48209 -0.00020371 2.4661 0.0010421 422.8827045962985 46.097 0.20662 46.363 46.198 46.405 0.26561 16 9 2 0 0 0 0.12676 1 21002 21002 0.69767 0 1 299380 25302 8549 16329 16385 28800 28800 0.002331033973632657 PWKEHAKW 8 Unmodified _PWKEHAKW_ 0 0 0 ENSG00000249437|ENST00000517649|NAIP ENSG00000249437|ENST00000517649|NAIP ENSG00000249437|ENST00000517649|NAIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.4012451171875 2 541.282526 1080.5505 NaN NaN NaN NaN NaN NaN NaN 53.855 1 53.855 53.355 54.355 0 0 0 0 0.99035 1 24690 24690 2.0598 0 1 25303 6260 16330 16386 28801 28801 0.01344599745539199 PWNQPRKRY 9 Unmodified _PWNQPRKRY_ 0 0 0 REV__ENSG00000186675|ENST00000373359|MAGEE2 REV__ENSG00000186675|ENST00000373359|MAGEE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 622.8363037109375 2 622.835988 1243.65742 NaN NaN NaN NaN NaN NaN NaN 102.95 1 103.54 103.04 104.04 0.59759 0 0 0 0.91238 1 47639 47639 0.52476 0 1 + 25304 14067 16331 16387 28802 28802 0.0453414995993171 PWRERWWSRHR 11 Unmodified _PWRERWWSRHR_ 0 0 0 REV__ENST00000466885.5_1_20:61872851-61879872:-|nuORF REV__ENST00000466885.5_1_20:61872851-61879872:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 826.4302978515625 2 826.426899 1650.83924 NaN NaN NaN NaN NaN NaN NaN 39.596 1 39.596 39.096 40.096 0 0 0 0 1.008 1 17968 17968 0.26902 0.26902 1 + 25305 10872 16332 16388 28803 28803 0.03985882705524091 PWRLRRRVLLR 11 Unmodified _PWRLRRRVLLR_ 0 0 0 ENST00000534961.5_1_8:42742976-42751856:-|nuORF;ENST00000528318.5_1_8:42716773-42751856:-|nuORF ENST00000534961.5_1_8:42742976-42751856:-|nuORF ENST00000534961.5_1_8:42742976-42751856:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 760.9940185546875 2 760.991678 1519.9688 NaN NaN NaN NaN NaN NaN NaN 95.498 1 95.58 95.08 96.08 0.082001 0 0 0 1.0082 1 50489 50489 0.30703 0.30703 1 25306 8688 16333 16389 28804 28804 0.2296168405548542 PWRLVRWAL 9 Unmodified _PWRLVRWAL_ 0 0 0 ENST00000460501.2_1_X:48957923-48958031:-|nuORF ENST00000460501.2_1_X:48957923-48958031:-|nuORF ENST00000460501.2_1_X:48957923-48958031:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 598.5244750976562 2 598.856193 1195.69783 NaN NaN NaN NaN NaN NaN NaN 5.9284 1 6.2812 5.7812 6.7812 0.35278 0 0 0 0.91452 1 2684 2684 0 0 1 25307 8072 16334 16390 28805 28805 0.10781116350381126 PWRNWRWWQER 11 Unmodified _PWRNWRWWQER_ 0 0 0 REV__ENST00000510393.5_1_1:16083148-16084686:+|nuORF REV__ENST00000510393.5_1_1:16083148-16084686:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 850.4193115234375 2 850.421282 1698.82801 NaN NaN NaN NaN NaN NaN NaN 91.106 1 91.106 90.606 91.606 0 0 0 0 1.0082 1 48036 48036 0 0 1 + 25308 16969 16335 16391 28806 28806 0.006550606113705726 PWRWQRRRGWR 11 Unmodified _PWRWQRRRGWR_ 0 0 0 ENST00000513117.1_1_5:6633573-6668378:+|nuORF ENST00000513117.1_1_5:6633573-6668378:+|nuORF ENST00000513117.1_1_5:6633573-6668378:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 820.4495849609375 2 820.450708 1638.88686 NaN NaN NaN NaN NaN NaN NaN 60.148 1 60.898 60.398 61.398 0.74927 0 0 0 1.0082 1 27690 27690 0.30703 0 1 25309 8575 16336 16392 28807 28807 0.09297581696364432 PWRWRWRRWRR 11 Unmodified _PWRWRWRRWRR_ 0 0 0 ENST00000253814.5_1_5:141488387-141511833:+|nuORF ENST00000253814.5_1_5:141488387-141511833:+|nuORF ENST00000253814.5_1_5:141488387-141511833:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 898.9998168945312 2 899.0009 1795.98725 NaN NaN NaN NaN NaN NaN NaN 93.001 1 93.256 92.756 93.756 0.25497 0 0 0 1.0082 1 42747 42747 0 0 1 25310 6511 16337 16393 28808 28808 0.12109238750031182 PWSRRWGWEWR 11 Unmodified _PWSRRWGWEWR_ 0 0 0 REV__ENST00000456291.1_3_9:123638279-123638699:-|nuORF REV__ENST00000456291.1_3_9:123638279-123638699:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 801.3972778320312 2 801.397276 1600.78 NaN NaN NaN NaN NaN NaN NaN 83.513 1 83.513 83.013 84.013 0 0 0 0 1.0082 1 42085 42085 0 0 1 + 25311 16452 16338 16394 28809 28809 0.00363986691354512 PYAKPIPAQF 10 Unmodified _PYAKPIPAQF_ 0 0 0 ENSG00000136709|ENST00000322313|WDR33 ENSG00000136709|ENST00000322313|WDR33 ENSG00000136709|ENST00000322313|WDR33 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.3140258789062 2 566.313492 1130.61243 3.6266 0.0020538 -1.4944 -0.0008463 2.1322 0.0012075 566.3133622616917 46.83 0.19288 47.482 47.344 47.537 0.65219 10 5 3 0 0 0 0.25925 1 21471 21471 32.305 18.798 1 265810 25312 2966 16339 16395 28810 28810 0.05234906374039383 PYARILRSRR 10 Unmodified _PYARILRSRR_ 0 0 0 nc|ENSG00000112984|O95235-2|KIF20A;ENSG00000112984|ENST00000394894|KIF20A nc|ENSG00000112984|O95235-2|KIF20A nc|ENSG00000112984|O95235-2|KIF20A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 644.7964477539062 2 644.391462 1286.76837 NaN NaN NaN NaN NaN NaN NaN 59.107 1 59.774 59.274 60.274 0.66703 0 0 0 0.99983 1 27059 27059 1.8442 0 1 25313 1828 16340 16396 28811 28811 0.1364578966802128 PYCPSGIG 8 Unmodified _PYCPSGIG_ 0 0 0 REV__ENSG00000160957|ENST00000617875|RECQL4 REV__ENSG00000160957|ENST00000617875|RECQL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.1831359863281 2 397.181089 792.347625 NaN NaN NaN NaN NaN NaN NaN 76.745 1 77.409 76.909 77.909 0.66387 0 0 0 0.99035 1 35362 35362 5.2307 0 1 + 25314 12900 16341 16397 28812 28812 -0.05685466371210168 PYCSPPMTF 9 Carbamidomethyl (C) _PYC(Carbamidomethyl (C))SPPMTF_ PYC(1)SPPMTF PYC(82)SPPMTF 0 1 0 ENST00000576921.1_1_16:3072866-3073436:-|nuORF;nc|ENSG00000103145|Q9NWW0-2|HCFC1R1;ENSG00000103145|ENST00000248089|HCFC1R1 ENST00000576921.1_1_16:3072866-3073436:-|nuORF ENST00000576921.1_1_16:3072866-3073436:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.2385864257812 2 550.232996 1098.45144 3.3693 0.0018539 1.4909 0.00082034 4.8602 0.0026742 550.2343022215782 63.859 0.32199 64.107 63.948 64.27 0.24803 36 20 2 0 0 0 0.010037 1 29244 29244 81.864 66.017 1 843880 25315 1378 16342 16398 28813 28813 33 -0.09384927325891113 PYCSPPMTF 9 Carbamidomethyl (C) _PYC(Carbamidomethyl (C))SPPMTF_ PYC(1)SPPMTF PYC(110)SPPMTF 0 1 0 ENST00000576921.1_1_16:3072866-3073436:-|nuORF;nc|ENSG00000103145|Q9NWW0-2|HCFC1R1;ENSG00000103145|ENST00000248089|HCFC1R1 ENST00000576921.1_1_16:3072866-3073436:-|nuORF ENST00000576921.1_1_16:3072866-3073436:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.238037109375 2 550.232996 1098.45144 3.4542 0.0019006 1.4464 0.00079588 4.9007 0.0026965 550.2342372010047 63.337 0.34981 63.995 63.813 64.163 0.65808 37 21 2 0 0 0 0.00147 1 29028 29028 109.63 83.288 1 701700 25316 1378 16342 16398 28814 28814 33 -0.09384927325891113 PYDYDDEWDD 10 Unmodified _PYDYDDEWDD_ 0 0 0 REV__nc|ENSG00000255302|Q9Y6B2-2|EID1 REV__nc|ENSG00000255302|Q9Y6B2-2|EID1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 666.9011840820312 2 666.73058 1331.44661 NaN NaN NaN NaN NaN NaN NaN 57.477 1 58.246 57.746 58.746 0.76861 0 0 0 0.99983 1 26322 26322 1.8442 0.36234 1 + 25317 14670 16343 16399 28815 28815 -0.205858614539693 PYEAQVFS 8 Unmodified _PYEAQVFS_ 0 0 0 nc|ENSG00000076944|Q15833-2|STXBP2;ENSG00000076944|ENST00000221283|STXBP2;nc|ENSG00000076944|Q15833-3|STXBP2 nc|ENSG00000076944|Q15833-2|STXBP2 nc|ENSG00000076944|Q15833-2|STXBP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.7254943847656 2 470.724175 939.433798 2.9553 0.0013911 0.078733 3.7062E-05 3.034 0.0014282 470.7242943899757 59.434 0.53996 60.099 59.977 60.517 0.66503 44 24 2 0 0 0 0.47217 2 27266 27266;27338 23.148 19.439 1 642580 25318 853 16344 16400 28816;28817 28816 -0.03834183264848434 PYEKRIWLRR 10 Unmodified _PYEKRIWLRR_ 0 0 0 REV__ENST00000525963.5_1_11:22851094-22856569:+|nuORF REV__ENST00000525963.5_1_11:22851094-22856569:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 708.9130249023438 2 708.91477 1415.81499 NaN NaN NaN NaN NaN NaN NaN 79.026 1 79.277 78.777 79.777 0.25127 0 0 0 1.0015 1 36392 36392 0.45834 0.10771 1 + 25319 17087 16345 16401 28818 28818 0.12371229499285619 PYFGYSDD 8 Unmodified _PYFGYSDD_ 0 0 0 REV__ENSG00000175931|ENST00000319380|UBE2O REV__ENSG00000175931|ENST00000319380|UBE2O MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 481.8494873046875 2 482.190165 962.365778 NaN NaN NaN NaN NaN NaN NaN 59.64 1 60.389 59.889 60.889 0.74927 0 0 0 0.99035 1 27402 27402 0.79363 0 1 + 25320 13685 16346 16402 28819 28819 -0.11691052915523414 PYFNAPVYL 9 Unmodified _PYFNAPVYL_ 0 0 0 nc|ENSG00000109534|Q9NY12-2|GAR1;ENST00000503671.2_1_4:110737056-110740318:+|nuORF;ENST00000506840.5_1_4:110736915-110743667:+|nuORF;ENSG00000109534|ENST00000226796|GAR1 nc|ENSG00000109534|Q9NY12-2|GAR1 nc|ENSG00000109534|Q9NY12-2|GAR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.2822875976562 2 542.279118 1082.54368 3.2322 0.0017527 0.73724 0.00039979 3.9694 0.0021525 542.2795644150523 82.486 0.27674 82.733 82.589 82.866 0.24722 28 13 3 0 0 0 0.0077156 2 37947 37947;37995 86.121 65.25 1 935280 25321 1678 16347 16403 28820;28821 28820 0.0057124207430661045 PYFNAPVYL 9 Unmodified _PYFNAPVYL_ 0 0 0 nc|ENSG00000109534|Q9NY12-2|GAR1;ENST00000503671.2_1_4:110737056-110740318:+|nuORF;ENST00000506840.5_1_4:110736915-110743667:+|nuORF;ENSG00000109534|ENST00000226796|GAR1 nc|ENSG00000109534|Q9NY12-2|GAR1 nc|ENSG00000109534|Q9NY12-2|GAR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.2814331054688 2 542.279118 1082.54368 3.5331 0.0019159 0.69921 0.00037917 4.2323 0.0022951 542.2796297684438 81.866 0.29557 82.526 82.392 82.688 0.65998 27 16 3 0 0 0 0.015487 1 37729 37729 74.396 53.525 1 1039000 25322 1678 16347 16403 28822 28822 0.0057124207430661045 PYFSSPHCLS 10 Unmodified _PYFSSPHCLS_ 0 0 0 REV__ENST00000355257.7_1_22:42070500-42070800:-|nuORF REV__ENST00000355257.7_1_22:42070500-42070800:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.74951171875 2 569.255317 1136.49608 3.2929 0.0018745 -1.4753 -0.0008398 1.8176 0.0010347 569.2553134004168 54.495 1.6844 54.759 53.634 55.319 0.26462 207 97 5 0 0 0 0.51828 2 24569 24506;24569 20.454 6.5476 1 6131400 + 25323 15537 16348 16404 28823;28824 28824 -0.06670780188164827 PYFTRRFLLIR 11 Unmodified _PYFTRRFLLIR_ 0 0 0 REV__ENST00000439871.1_1_2:218925303-218925771:-|nuORF REV__ENST00000439871.1_1_2:218925303-218925771:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 741.439453125 2 741.440621 1480.86669 NaN NaN NaN NaN NaN NaN NaN 59.375 1 60.04 59.54 60.54 0.66503 0 0 0 1.008 1 27181 27181 0.35063 0 1 + 25324 16335 16349 16405 28825 28825 0.14548973193222992 PYFTRRFLLIR 11 Unmodified _PYFTRRFLLIR_ 0 0 0 REV__ENST00000439871.1_1_2:218925303-218925771:-|nuORF REV__ENST00000439871.1_1_2:218925303-218925771:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 741.4402465820312 2 741.440621 1480.86669 NaN NaN NaN NaN NaN NaN NaN 60.477 1 61.139 60.639 61.639 0.66261 0 0 0 1.0071 1 27689 27689 1.4819 1.1313 1 + 25325 16335 16349 16405 28826 28826 0.14548973193222992 PYGGLSVKVAI 11 Unmodified _PYGGLSVKVAI_ 0 0 0 REV__ENST00000494348.1_1_19:7974966-7975513:+|nuORF REV__ENST00000494348.1_1_19:7974966-7975513:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.3290405273438 2 552.326599 1102.63865 3.6198 0.0019993 -0.9847 -0.00054387 2.6351 0.0014555 552.3257244900536 36.808 0.31802 37.065 36.868 37.186 0.25768 25 10 3 0 0 0 0.12301 2 16734 16734;16788 38.176 2.0485 1 759010 + 25326 16826 16350 16406 28827;28828 28827 0.09143175545523263 PYGGLSVKVAI 11 Unmodified _PYGGLSVKVAI_ 0 0 0 REV__ENST00000494348.1_1_19:7974966-7975513:+|nuORF REV__ENST00000494348.1_1_19:7974966-7975513:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.3269653320312 2 552.326599 1102.63865 3.6347 0.0020075 -0.59971 -0.00033123 3.035 0.0016763 552.3259882168579 36.133 0.20986 36.759 36.635 36.845 0.62631 17 6 3 0 0 0 0.027969 1 16546 16546 55.503 1.6699 1 1054200 + 25327 16826 16350 16406 28829 28829 0.09143175545523263 PYGGQFERM 9 Unmodified _PYGGQFERM_ 0 0 0 ENSG00000165732|ENST00000354185|DDX21;nc|ENSG00000165732|Q9NR30-2|DDX21 ENSG00000165732|ENST00000354185|DDX21 ENSG00000165732|ENST00000354185|DDX21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.7496337890625 2 542.747659 1083.48076 3.3776 0.0018332 0.073494 3.9889E-05 3.4511 0.0018731 542.7478359941892 37.444 0.44454 38.074 37.889 38.333 0.62999 51 14 5 0 0 0 0.084899 1 17094 17094 32.305 11.852 1 13045000 25328 4420 16351 16407 28830 28830 -0.05763646985383275 PYGGQFERM 9 Unmodified _PYGGQFERM_ 0 0 0 ENSG00000165732|ENST00000354185|DDX21;nc|ENSG00000165732|Q9NR30-2|DDX21 ENSG00000165732|ENST00000354185|DDX21 ENSG00000165732|ENST00000354185|DDX21 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 542.747659 1083.48076 3.1269 0.0016971 -0.20195 -0.00010961 2.925 0.0015875 542.7477348297901 37.08 0.39126 37.874 37.691 38.082 0.79342 -0.23338 -0.00015815 NaN 32.305 64 18 5 NaN NaN NaN NaN 0 NaN NaN 0 13923000 25329 4420 16351 16407 -0.05763646985383275 PYGGQFERM 9 Unmodified _PYGGQFERM_ 0 0 0 ENSG00000165732|ENST00000354185|DDX21;nc|ENSG00000165732|Q9NR30-2|DDX21 ENSG00000165732|ENST00000354185|DDX21 ENSG00000165732|ENST00000354185|DDX21 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 542.747659 1083.48076 3.3776 0.0018332 0.073494 3.9889E-05 3.4511 0.0018731 542.7478359941892 37.444 0.44454 38.074 37.889 38.333 0.62999 -0.032583 0.00014085 NaN 32.305 51 14 5 NaN NaN NaN NaN 0 NaN NaN 0 13045000 25330 4420 16351 16407 -0.05763646985383275 PYHYRWEPRE 10 Unmodified _PYHYRWEPRE_ 0 0 0 nc|ENSG00000149179|Q9H6J7-4|CSTPP1 nc|ENSG00000149179|Q9H6J7-4|CSTPP1 nc|ENSG00000149179|Q9H6J7-4|CSTPP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 716.840087890625 2 716.841468 1431.66838 NaN NaN NaN NaN NaN NaN NaN 25.147 1 25.147 24.647 25.647 0 0 0 0 1.0015 1 11292 11292 0.40072 0.050084 1 25331 9686 16352 16408 28831 28831 -0.03018492456453714 PYIGRQYLI 9 Unmodified _PYIGRQYLI_ 0 0 0 REV__nc|ENSG00000164109|Q13257-2|MAD2L1 REV__nc|ENSG00000164109|Q13257-2|MAD2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.8284301757812 2 561.818941 1121.62333 3.7588 0.0021118 -0.045437 -2.5528E-05 3.7134 0.0020862 561.8188213437367 45.13 0.43466 45.78 45.566 46.001 0.65051 46 16 4 0 0 0 0.89849 1 20629 20629 5.2307 0 1 3622400 + 25332 13062 16353 16409 28832 28832 0.06738308748322197 PYIKLITGF 9 Unmodified _PYIKLITGF_ 0 0 0 ENST00000491515.5_1_1:40432335-40433413:+|nuORF;ENST00000483824.5_1_1:40420832-40434017:+|nuORF;nc|ENSG00000168389|Q8NA29-3|MFSD2A;ENSG00000168389|ENST00000372811|MFSD2A;nc|ENSG00000168389|Q8NA29|MFSD2A ENST00000491515.5_1_1:40432335-40433413:+|nuORF ENST00000491515.5_1_1:40432335-40433413:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.2009582519531 3 351.211066 1050.61137 NaN NaN NaN NaN NaN NaN NaN 73.665 1 73.924 73.424 74.424 0.25876 0 0 0 0.90611 1 33841 33841 1.0715 0 1 25333 4623 16354 16410 28833 28833 0.08808692005140983 PYILSQLKLK 10 Unmodified _PYILSQLKLK_ 0 0 0 REV__ENST00000463420.1_1_3:151488357-151501931:+|nuORF REV__ENST00000463420.1_1_3:151488357-151501931:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.786865234375 2 601.878999 1201.74344 NaN NaN NaN NaN NaN NaN NaN 56.795 1 57.573 57.073 58.073 0.77786 0 0 0 0.99733 1 25978 25978 3.9444 0 1 + 25334 16510 16355 16411 28834 28834 0.1506429702205878 PYILSTGDSF 10 Unmodified _PYILSTGDSF_ 0 0 0 ENSG00000145241|ENST00000273853|CENPC;ENST00000515140.1_3_4:68340585-68358532:-|nuORF;ENST00000513216.5_3_4:68338325-68358532:-|nuORF ENSG00000145241|ENST00000273853|CENPC ENSG00000145241|ENST00000273853|CENPC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.269775390625 2 550.268947 1098.52334 3.6466 0.0020066 -0.26258 -0.00014449 3.384 0.0018621 550.268829470535 36.253 0.34641 36.88 36.695 37.042 0.62631 24 10 3 0 0 0 0.42206 1 16647 16647 24.021 2.4836 1 721520 25335 3458 16356 16412 28835 28835 -0.021979733761327225 PYISNIYLI 9 Unmodified _PYISNIYLI_ 0 0 0 nc|ENSG00000083444|Q02809-2|PLOD1;ENSG00000083444|ENST00000196061|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.3101196289062 2 548.307875 1094.6012 3.8521 0.0021121 0.69258 0.00037975 4.5446 0.0024919 548.3081215261456 88.762 0.30878 89.013 88.813 89.122 0.25118 30 12 3 0 0 0 0.0063783 2 40792 40792;40853 88.904 45.399 1 1495200 25336 9567 16357 16413 28836;28837 28836 0.05768084279884533 PYISNIYLI 9 Unmodified _PYISNIYLI_ 0 0 0 nc|ENSG00000083444|Q02809-2|PLOD1;ENSG00000083444|ENST00000196061|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 nc|ENSG00000083444|Q02809-2|PLOD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.3093872070312 2 548.307875 1094.6012 3.6935 0.0020252 0.86693 0.00047535 4.5605 0.0025005 548.3082084056925 88.1 0.32146 88.778 88.637 88.958 0.67818 33 13 3 0 0 0 0.0063783 2 40574 40574;40622 88.904 43.262 1 1392500 25337 9567 16357 16413 28838;28839 28838 0.05768084279884533 PYKCQCGKAF 10 Unmodified _PYKCQCGKAF_ 0 0 0 nc|ENSG00000197933|P16415-2|ZNF823;ENSG00000197933|ENST00000341191|ZNF823 nc|ENSG00000197933|P16415-2|ZNF823 nc|ENSG00000197933|P16415-2|ZNF823 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 572.7821655273438 2 572.767537 1143.52052 NaN NaN NaN NaN NaN NaN NaN 57.102 1 57.88 57.38 58.38 0.77786 0 0 0 0.99733 1 26127 26127 3.9444 0 1 25338 5851 16358 16414 28840 28840 -0.045498433063130506 PYKKYWLFYDF 11 Unmodified _PYKKYWLFYDF_ 0 0 0 REV__nc|ENSG00000211810|P04437|TRAV29DV5 REV__nc|ENSG00000211810|P04437|TRAV29DV5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.9302978515625 3 523.930739 1568.77039 NaN NaN NaN NaN NaN NaN NaN 40.144 1 40.785 40.285 41.285 0.64136 0 0 0 1.0071 1 18342 18342 0.50596 0 1 + 25339 18127 16359 16415 28841 28841 0.008753608425877246 PYKLFITQTKG 11 Unmodified _PYKLFITQTKG_ 0 0 0 REV__nc|ENSG00000138119|Q9NZM1-2|MYOF REV__nc|ENSG00000138119|Q9NZM1-2|MYOF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.37353515625 2 648.371538 1294.72852 NaN NaN NaN NaN NaN NaN NaN 53.478 1 54.281 53.781 54.781 0.80351 0 0 0 1.0044 1 24395 24395 4.897 1.3005 1 + 25340 12150 16360 16416 28842 28842 0.09294805154036112 PYKLWKQERER 11 Unmodified _PYKLWKQERER_ 0 0 0 ENSG00000064115|ENST00000343028|TM7SF3 ENSG00000064115|ENST00000343028|TM7SF3 ENSG00000064115|ENST00000343028|TM7SF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 766.9200439453125 2 766.920249 1531.82595 NaN NaN NaN NaN NaN NaN NaN 84.945 1 85.193 84.693 85.693 0.24757 0 0 0 1.0071 1 39093 39093 1.4819 0 1 25341 665 16361 16417 28843 28843 0.08130587082928287 PYKNVNVQNF 10 Unmodified _PYKNVNVQNF_ 0 0 0 ENST00000588618.5_1_19:39138385-39212431:+|nuORF;ACTN4|p.D874Rfs*17|1|0.4|ENSG00000130402|chr19:38729309-38729310|-/C|frameshift_variant;ENSG00000130402|ENST00000252699|ACTN4 ENST00000588618.5_1_19:39138385-39212431:+|nuORF ENST00000588618.5_1_19:39138385-39212431:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.815673828125 2 611.814387 1221.61422 3.5491 0.0021714 -0.35572 -0.00021763 3.1934 0.0019538 611.8142844772458 37.852 0.20142 38.113 38.011 38.212 0.26083 11 6 2 0 0 0 0.085053 1 17259 17259 54.774 34.32 1 233580 25342 9 16362 16418 28844 28844 0.012279153919735109 PYKNVNVQNF 10 Unmodified _PYKNVNVQNF_ 0 0 0 ENST00000588618.5_1_19:39138385-39212431:+|nuORF;ACTN4|p.D874Rfs*17|1|0.4|ENSG00000130402|chr19:38729309-38729310|-/C|frameshift_variant;ENSG00000130402|ENST00000252699|ACTN4 ENST00000588618.5_1_19:39138385-39212431:+|nuORF ENST00000588618.5_1_19:39138385-39212431:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.8168334960938 2 611.814387 1221.61422 3.5121 0.0021488 0.80812 0.00049442 4.3203 0.0026432 611.8151377416389 37.282 0.21204 37.912 37.788 38 0.62999 13 8 2 0 0 0 0.27335 1 17092 17092 30.637 21.289 1 191130 25343 9 16362 16418 28845 28845 0.012279153919735109 PYKVFHYQV 9 Unmodified _PYKVFHYQV_ 0 0 0 ENSG00000175445|ENST00000650287|LPL ENSG00000175445|ENST00000650287|LPL ENSG00000175445|ENST00000650287|LPL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.810546875 2 590.811116 1179.60768 NaN NaN NaN NaN NaN NaN NaN 55.366 1 56.034 55.534 56.534 0.66798 0 0 0 0.90611 1 25327 25327 2.0598 0 1 25344 5031 16363 16419 28846 28846 0.02506022231273164 PYKVLATS 8 Unmodified _PYKVLATS_ 0 0 0 ENSG00000078142|ENST00000262039|PIK3C3 ENSG00000078142|ENST00000262039|PIK3C3 ENSG00000078142|ENST00000262039|PIK3C3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 439.75396728515625 2 439.752736 877.490919 2.3349 0.0010268 0.63816 0.00028063 2.9731 0.0013074 439.7529804228774 13.18 0.23442 13.488 13.359 13.594 0.30727 26 15 2 0 0 0 0.66653 1 5966 5966 8.5933 0 1 162980 25345 872 16364 16420 28847 28847 0.04727284011528354 PYKVTQDEL 9 Unmodified _PYKVTQDEL_ 0 0 0 NCL|p.K477Lfs*19|1|0.03|ENSG00000115053|chr2:231457661-231457662|-/ATTTGGAATAGTAA|frameshift_variant;ENSG00000115053|ENST00000322723|NCL;NCL|p.N399S|1|0.38|ENSG00000115053|chr2:231458359-231458359|T/C|missense_variant;ENST00000494618.1_1_2:232322276-232325237:-|nuORF;ENST00000461347.5_1_2:232319904-232323320:-|nuORF NCL|p.K477Lfs*19|1|0.03|ENSG00000115053|chr2:231457661-231457662|-/ATTTGGAATAGTAA|frameshift_variant NCL|p.K477Lfs*19|1|0.03|ENSG00000115053|chr2:231457661-231457662|-/ATTTGGAATAGTAA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.7845458984375 2 546.782222 1091.54989 3.3883 0.0018526 0.48438 0.00026485 3.8726 0.0021175 547.2840658066777 34.177 0.29389 34.177 33.996 34.29 0 26 17 2 0 0 0 1.0217E-09 2 15509 15464;15509 163.04 91.902 1 3115900 25346 1940 16365 16421 28848;28849 28849 0.007777155151643456 PYKVTQDEL 9 Unmodified _PYKVTQDEL_ 0 0 0 NCL|p.K477Lfs*19|1|0.03|ENSG00000115053|chr2:231457661-231457662|-/ATTTGGAATAGTAA|frameshift_variant;ENSG00000115053|ENST00000322723|NCL;NCL|p.N399S|1|0.38|ENSG00000115053|chr2:231458359-231458359|T/C|missense_variant;ENST00000494618.1_1_2:232322276-232325237:-|nuORF;ENST00000461347.5_1_2:232319904-232323320:-|nuORF NCL|p.K477Lfs*19|1|0.03|ENSG00000115053|chr2:231457661-231457662|-/ATTTGGAATAGTAA|frameshift_variant NCL|p.K477Lfs*19|1|0.03|ENSG00000115053|chr2:231457661-231457662|-/ATTTGGAATAGTAA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.7841796875 2 546.782222 1091.54989 2.85 0.0015583 0.91222 0.00049879 3.7622 0.0020571 546.7824841213308 33.166 0.3252 33.954 33.796 34.122 0.78795 58 21 4 0 0 0 1.5885E-05 3 15013 14968;15013;15062 145.13 79.895 1 2014600 25347 1940 16365 16421 28850;28851;28852 28851 0.007777155151643456 PYKVTQDEL 9 Unmodified _PYKVTQDEL_ 0 0 0 NCL|p.K477Lfs*19|1|0.03|ENSG00000115053|chr2:231457661-231457662|-/ATTTGGAATAGTAA|frameshift_variant;ENSG00000115053|ENST00000322723|NCL;NCL|p.N399S|1|0.38|ENSG00000115053|chr2:231458359-231458359|T/C|missense_variant;ENST00000494618.1_1_2:232322276-232325237:-|nuORF;ENST00000461347.5_1_2:232319904-232323320:-|nuORF NCL|p.K477Lfs*19|1|0.03|ENSG00000115053|chr2:231457661-231457662|-/ATTTGGAATAGTAA|frameshift_variant NCL|p.K477Lfs*19|1|0.03|ENSG00000115053|chr2:231457661-231457662|-/ATTTGGAATAGTAA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.2855224609375 2 546.782222 1091.54989 3.5655 0.0019496 0.013875 7.5869E-06 3.5794 0.0019571 546.782113140877 34.14 0.26997 34.393 34.226 34.496 0.25389 16 11 2 0 0 0 0.00068611 2 15526 15526;15593 129.77 68.415 1 2125900 25348 1940 16365 16421 28853;28854 28853 0.007777155151643456 PYKVTQDEL 9 Unmodified _PYKVTQDEL_ 0 0 0 NCL|p.K477Lfs*19|1|0.03|ENSG00000115053|chr2:231457661-231457662|-/ATTTGGAATAGTAA|frameshift_variant;ENSG00000115053|ENST00000322723|NCL;NCL|p.N399S|1|0.38|ENSG00000115053|chr2:231458359-231458359|T/C|missense_variant;ENST00000494618.1_1_2:232322276-232325237:-|nuORF;ENST00000461347.5_1_2:232319904-232323320:-|nuORF NCL|p.K477Lfs*19|1|0.03|ENSG00000115053|chr2:231457661-231457662|-/ATTTGGAATAGTAA|frameshift_variant NCL|p.K477Lfs*19|1|0.03|ENSG00000115053|chr2:231457661-231457662|-/ATTTGGAATAGTAA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.7841796875 2 546.782222 1091.54989 3.3996 0.0018588 0.087189 4.7674E-05 3.4868 0.0019065 546.7822456211468 33.667 0.35249 34.287 34.079 34.431 0.62031 32 14 3 0 0 0 0.0012852 2 15441 15384;15441 121.53 61.241 1 1880200 25349 1940 16365 16421 28855;28856 28856 0.007777155151643456 PYKWKTIRG 9 Unmodified _PYKWKTIRG_ 0 0 0 REV__ENSG00000178607|ENST00000433197|ERN1 REV__ENSG00000178607|ENST00000433197|ERN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 574.8319091796875 2 574.832383 1147.65021 NaN NaN NaN NaN NaN NaN NaN 68.864 1 69.523 69.023 70.023 0.65924 0 0 0 0.91014 1 31567 31567 2.0598 0.57785 1 + 25350 13768 16366 16422 28857 28857 0.08229417359484614 PYLDKFFAL 9 Unmodified _PYLDKFFAL_ 0 0 0 nc|ENSG00000116641|Q96N67-4|DOCK7;nc|ENSG00000116641|Q96N67-3|DOCK7;nc|ENSG00000116641|Q96N67-5|DOCK7;nc|ENSG00000116641|Q96N67-2|DOCK7;nc|ENSG00000116641|Q96N67-6|DOCK7;ENSG00000116641|ENST00000635253|DOCK7;DOCK7|p.E1876Lfs*12|1|0.03|ENSG00000116641|chr1:62476133-62476134|-/GTGCAATTTTGTTTGAGAAAGA|frameshift_variant nc|ENSG00000116641|Q96N67-4|DOCK7 nc|ENSG00000116641|Q96N67-4|DOCK7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.3045043945312 2 557.302593 1112.59063 3.4996 0.0019503 0.072327 4.0308E-05 3.5719 0.0019906 557.3021896611309 83.283 0.25085 83.53 83.417 83.668 0.24722 27 12 3 0 0 0 0.016529 2 38326 38326;38373 72.968 38.866 1 614840 25351 2035 16367 16423 28858;28859 28858 0.03884101625476433 PYLDKFFAL 9 Unmodified _PYLDKFFAL_ 0 0 0 nc|ENSG00000116641|Q96N67-4|DOCK7;nc|ENSG00000116641|Q96N67-3|DOCK7;nc|ENSG00000116641|Q96N67-5|DOCK7;nc|ENSG00000116641|Q96N67-2|DOCK7;nc|ENSG00000116641|Q96N67-6|DOCK7;ENSG00000116641|ENST00000635253|DOCK7;DOCK7|p.E1876Lfs*12|1|0.03|ENSG00000116641|chr1:62476133-62476134|-/GTGCAATTTTGTTTGAGAAAGA|frameshift_variant nc|ENSG00000116641|Q96N67-4|DOCK7 nc|ENSG00000116641|Q96N67-4|DOCK7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.3043212890625 2 557.302593 1112.59063 3.6486 0.0020334 0.23354 0.00013015 3.8822 0.0021635 557.8040942268669 82.813 0.23809 83.473 83.361 83.599 0.66019 20 11 2 0 0 0 0.020338 1 38163 38163 67.838 38.757 1 591650 25352 2035 16367 16423 28860 28860 0.03884101625476433 PYLDKFFTL 9 Unmodified _PYLDKFFTL_ 0 0 0 ENSG00000130158|ENST00000294618|DOCK6 ENSG00000130158|ENST00000294618|DOCK6 ENSG00000130158|ENST00000294618|DOCK6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.811767578125 2 572.307875 1142.6012 3.3616 0.0019239 -0.74551 -0.00042666 2.6161 0.0014972 572.3077934657787 83.275 0.20921 83.522 83.445 83.655 0.24722 16 9 3 0 0 0 0.54955 1 38355 38355 11.64 0.81637 1 292730 25353 2575 16368 16424 28861 28861 0.0356008427991128 PYLDKFFTL 9 Unmodified _PYLDKFFTL_ 0 0 0 ENSG00000130158|ENST00000294618|DOCK6 ENSG00000130158|ENST00000294618|DOCK6 ENSG00000130158|ENST00000294618|DOCK6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 572.307875 1142.6012 3.7766 0.0021614 -0.30749 -0.00017598 3.4691 0.0019854 572.3077743406105 82.811 0.17606 83.472 83.399 83.575 0.66019 -0.025445 0.00021091 NaN 11.64 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 327140 25354 2575 16368 16424 0.0356008427991128 PYLDSFYEY 9 Unmodified _PYLDSFYEY_ 0 0 0 ENSG00000239305|ENST00000237455|RNF103 ENSG00000239305|ENST00000237455|RNF103 ENSG00000239305|ENST00000237455|RNF103 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 598.762939453125 2 598.760955 1195.50736 2.7687 0.0016578 1.2346 0.00073921 4.0033 0.002397 598.761759387687 75.938 0.30217 75.938 75.8 76.103 0 36 20 2 0 0 0 0.020718 2 37220 37220;37268 67.344 37.119 1 1899800 25355 6209 16369 16425 28862;28863 28862 -0.08257679613029723 PYLDSFYEY 9 Unmodified _PYLDSFYEY_ 0 0 0 ENSG00000239305|ENST00000237455|RNF103 ENSG00000239305|ENST00000237455|RNF103 ENSG00000239305|ENST00000237455|RNF103 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 598.7628784179688 2 598.760955 1195.50736 2.9782 0.0017832 -1.0993 -0.0006582 1.8789 0.001125 598.7599436955894 75.124 0.17868 75.787 75.671 75.85 0.66349 19 11 2 0 0 0 0.035095 1 36364 36364 53.576 40.068 1 1742000 25356 6209 16369 16425 28864 28864 -0.08257679613029723 PYLDSFYEY 9 Unmodified _PYLDSFYEY_ 0 0 0 ENSG00000239305|ENST00000237455|RNF103 ENSG00000239305|ENST00000237455|RNF103 ENSG00000239305|ENST00000237455|RNF103 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 599.263916015625 2 598.760955 1195.50736 3.4867 0.0020877 -0.11535 -6.9067E-05 3.3713 0.0020186 598.76115148162 75.726 0.22498 75.983 75.916 76.141 0.25704 25 17 2 0 0 0 0.078322 2 34856 34856;34903 38.151 28.804 1 835420 25357 6209 16369 16425 28865;28866 28865 -0.08257679613029723 PYLFHVVTF 9 Unmodified _PYLFHVVTF_ 0 0 0 nc|ENSG00000196712|P21359-2|NF1;nc|ENSG00000196712|P21359-6|NF1;ENSG00000196712|ENST00000358273|NF1;ENST00000579081.5_2_17:29626598-29701170:+|nuORF nc|ENSG00000196712|P21359-2|NF1 nc|ENSG00000196712|P21359-2|NF1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.3242797851562 2 561.80276 1121.59097 3.3547 0.0018847 -0.29684 -0.00016676 3.0578 0.0017179 561.8023327284445 79.697 0.26867 79.946 79.78 80.049 0.24947 29 16 2 0 0 0 0.00053947 1 36660 36660 59.795 35.121 1 578350 25358 5773 16370 16426 28867 28867 0.035035213453284086 PYLFHVVTF 9 Unmodified _PYLFHVVTF_ 0 0 0 nc|ENSG00000196712|P21359-2|NF1;nc|ENSG00000196712|P21359-6|NF1;ENSG00000196712|ENST00000358273|NF1;ENST00000579081.5_2_17:29626598-29701170:+|nuORF nc|ENSG00000196712|P21359-2|NF1 nc|ENSG00000196712|P21359-2|NF1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.8246459960938 2 561.80276 1121.59097 3.5752 0.0020086 0.13392 7.5238E-05 3.7091 0.0020838 561.8026583811547 79.108 0.23325 79.769 79.625 79.859 0.66082 24 14 2 0 0 0 0.072475 1 36394 36394 26.341 12.833 1 702760 25359 5773 16370 16426 28868 28868 0.035035213453284086 PYLLHVGRR 9 Unmodified _PYLLHVGRR_ 0 0 0 ENST00000265801.6_2_8:20106235-20106451:-|nuORF ENST00000265801.6_2_8:20106235-20106451:-|nuORF ENST00000265801.6_2_8:20106235-20106451:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 555.8294067382812 2 555.830175 1109.6458 NaN NaN NaN NaN NaN NaN NaN 52.914 1 53.718 53.218 54.218 0.80351 0 0 0 0.90511 1 24115 24115 2.3027 0.4585 1 25360 6622 16371 16427 28869 28869 0.09535952936607828 PYLLLLLKR 9 Unmodified _PYLLLLLKR_ 0 0 0 REV__ENST00000524168.1_1_8:23225784-23261561:-|nuORF REV__ENST00000524168.1_1_8:23225784-23261561:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.8831176757812 2 564.878802 1127.74305 NaN NaN NaN NaN NaN NaN NaN 17.501 1 17.501 17.001 18.001 0 0 0 0 0.91238 1 7775 7775 0.52476 0 1 + 25361 17073 16372 16428 28870 28870 0.18428922092880384 PYLLSLKWLEL 11 Unmodified _PYLLSLKWLEL_ 0 0 0 REV__ENST00000485790.1_1_21:33073145-33104086:-|nuORF REV__ENST00000485790.1_1_21:33073145-33104086:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 687.9038696289062 2 687.905214 1373.79587 NaN NaN NaN NaN NaN NaN NaN 29.255 1 29.873 29.373 30.373 0.61789 0 0 0 1.0072 1 13416 13416 1.3295 0.36726 1 + 25362 16746 16373 16429 28871 28871 0.123928353650399 PYLPAVPSS 9 Unmodified _PYLPAVPSS_ 0 0 0 nc|ENSG00000168060|Q9UQQ1-5|NAALADL1;nc|ENSG00000168060|Q9UQQ1-6|NAALADL1;nc|ENSG00000168060|Q9UQQ1-7|NAALADL1;nc|ENSG00000168060|Q9UQQ1-8|NAALADL1;nc|ENSG00000168060|Q9UQQ1-2|NAALADL1;nc|ENSG00000168060|Q9UQQ1-3|NAALADL1;ENSG00000168060|ENST00000358658|NAALADL1;nc|ENSG00000168060|Q9UQQ1-4|NAALADL1 nc|ENSG00000168060|Q9UQQ1-5|NAALADL1 nc|ENSG00000168060|Q9UQQ1-5|NAALADL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.7514343261719 2 465.750193 929.485833 3.0378 0.0014148 -0.71883 -0.00033479 2.3189 0.00108 465.7496105832752 32.284 0.38782 32.539 32.335 32.723 0.25452 61 28 3 0 0 0 0.11001 1 14663 14663 30.225 0 1 4064700 25363 4600 16374 16430 28872 28872 0.01826980148905477 PYLPAVPSS 9 Unmodified _PYLPAVPSS_ 0 0 0 nc|ENSG00000168060|Q9UQQ1-5|NAALADL1;nc|ENSG00000168060|Q9UQQ1-6|NAALADL1;nc|ENSG00000168060|Q9UQQ1-7|NAALADL1;nc|ENSG00000168060|Q9UQQ1-8|NAALADL1;nc|ENSG00000168060|Q9UQQ1-2|NAALADL1;nc|ENSG00000168060|Q9UQQ1-3|NAALADL1;ENSG00000168060|ENST00000358658|NAALADL1;nc|ENSG00000168060|Q9UQQ1-4|NAALADL1 nc|ENSG00000168060|Q9UQQ1-5|NAALADL1 nc|ENSG00000168060|Q9UQQ1-5|NAALADL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.75146484375 2 465.750193 929.485833 2.8052 0.0013065 -0.21285 -9.9136E-05 2.5923 0.0012074 465.7498739493848 31.705 0.34759 32.322 32.11 32.457 0.61737 69 30 3 0 0 0 0.078322 2 14510 14469;14510 38.151 0 1 3670100 25364 4600 16374 16430 28873;28874 28874 0.01826980148905477 PYLQNNRL 8 Unmodified _PYLQNNRL_ 0 0 0 REV__nc|ENSG00000100890|O15091-4|PRORP REV__nc|ENSG00000100890|O15091-4|PRORP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.85504150390625 3 339.854053 1016.54033 2.3939 0.00081358 -0.23053 -7.8347E-05 2.1634 0.00073524 339.854052273058 15.763 0.59713 15.763 15.448 16.045 0 139 72 3 0 0 0 0.74071 1 7004 7004 1.6526 0 1 124230 + 25365 10854 16375 16431 28875 28875 0.032719920203248876 PYLQWMLPL 9 Unmodified _PYLQWMLPL_ 0 0 0 REV__ENSG00000214827|ENST00000369476|MTCP1 REV__ENSG00000214827|ENST00000369476|MTCP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 387.5456848144531 3 387.543939 1159.60999 2.7437 0.0010633 0.86074 0.00033357 3.6044 0.0013969 387.5443294538906 17.62 0.30311 17.62 17.447 17.75 0 51 19 4 0 0 0 0.099775 2 7846 7801;7846 32.786 0 1 893910 + 25366 14516 16376 16432 28876;28877 28877 0.03656734644732751 PYLQWMLPL 9 Unmodified _PYLQWMLPL_ 0 0 0 REV__ENSG00000214827|ENST00000369476|MTCP1 REV__ENSG00000214827|ENST00000369476|MTCP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.5447692871094 3 387.543939 1159.60999 2.6482 0.0010263 -0.87637 -0.00033963 1.7719 0.00068668 387.5433203584333 14.602 0.46851 14.909 14.798 15.266 0.3069 75 39 4 0 0 0 0.96953 1 6636 6636 4.5289 0 1 936250 + 25367 14516 16376 16432 28878 28878 0.03656734644732751 PYLQWMLPL 9 Unmodified _PYLQWMLPL_ 0 0 0 REV__ENSG00000214827|ENST00000369476|MTCP1 REV__ENSG00000214827|ENST00000369476|MTCP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.5455017089844 3 387.543939 1159.60999 2.8786 0.0011156 -1.0513 -0.00040744 1.8273 0.00070815 387.5433810294078 14.659 0.47757 15.313 15.199 15.676 0.65356 89 44 3 0 0 0 0.30982 1 6565 6565 16.149 0 1 1010300 + 25368 14516 16376 16432 28879 28879 0.03656734644732751 PYMAKFVVF 9 Unmodified _PYMAKFVVF_ 0 0 0 ENSG00000145362|ENST00000357077|ANK2;nc|ENSG00000145362|Q01484-5|ANK2;nc|ENSG00000145362|Q01484-2|ANK2;ANK2|p.H3647Ifs*128|1|0.14|ENSG00000145362|chr4:113365089-113365089|C/-|frameshift_variant;ANK2|p.L2536Ffs*22|1|0.26|ENSG00000145362|chr4:113356220-113356220|C/-|frameshift_variant;ENSG00000151150|ENST00000280772|ANK3;nc|ENSG00000151150|Q12955-6|ANK3;nc|ENSG00000151150|Q12955-7|ANK3;nc|ENSG00000151150|Q12955-5|ANK3;nc|ENSG00000151150|Q12955-4|ANK3 ENSG00000145362|ENST00000357077|ANK2;ENSG00000151150|ENST00000280772|ANK3;nc|ENSG00000151150|Q12955-4|ANK3 ENSG00000145362|ENST00000357077|ANK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.2946166992188 2 551.293714 1100.57287 2.7816 0.0015335 0.55331 0.00030503 3.3349 0.0018385 551.2938253770154 73.599 0.22411 74.298 74.191 74.415 0.69881 32 19 2 0 0 0 0.017868 1 35500 35500 71.134 50.262 1 1912300 25369 3462;3693;9688 16377 16433 28880 28880 0.026610630989580386 PYMAKFVVF 9 Unmodified _PYMAKFVVF_ 0 0 0 ENSG00000145362|ENST00000357077|ANK2;nc|ENSG00000145362|Q01484-5|ANK2;nc|ENSG00000145362|Q01484-2|ANK2;ANK2|p.H3647Ifs*128|1|0.14|ENSG00000145362|chr4:113365089-113365089|C/-|frameshift_variant;ANK2|p.L2536Ffs*22|1|0.26|ENSG00000145362|chr4:113356220-113356220|C/-|frameshift_variant;ENSG00000151150|ENST00000280772|ANK3;nc|ENSG00000151150|Q12955-6|ANK3;nc|ENSG00000151150|Q12955-7|ANK3;nc|ENSG00000151150|Q12955-5|ANK3;nc|ENSG00000151150|Q12955-4|ANK3 ENSG00000145362|ENST00000357077|ANK2;ENSG00000151150|ENST00000280772|ANK3;nc|ENSG00000151150|Q12955-4|ANK3 ENSG00000145362|ENST00000357077|ANK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 551.2938232421875 2 551.293714 1100.57287 3.2426 0.0017876 0.098418 5.4257E-05 3.341 0.0018419 551.7954041952343 74.379 0.24491 74.638 74.53 74.775 0.25831 45 27 2 0 0 0 0.023109 1 34206 34206 64.236 48.389 1 1866900 25370 3462;3693;9688 16377 16433 28881 28881 0.026610630989580386 PYMAKFVVF 9 Unmodified _PYMAKFVVF_ 0 0 0 ENSG00000145362|ENST00000357077|ANK2;nc|ENSG00000145362|Q01484-5|ANK2;nc|ENSG00000145362|Q01484-2|ANK2;ANK2|p.H3647Ifs*128|1|0.14|ENSG00000145362|chr4:113365089-113365089|C/-|frameshift_variant;ANK2|p.L2536Ffs*22|1|0.26|ENSG00000145362|chr4:113356220-113356220|C/-|frameshift_variant;ENSG00000151150|ENST00000280772|ANK3;nc|ENSG00000151150|Q12955-6|ANK3;nc|ENSG00000151150|Q12955-7|ANK3;nc|ENSG00000151150|Q12955-5|ANK3;nc|ENSG00000151150|Q12955-4|ANK3 ENSG00000145362|ENST00000357077|ANK2;ENSG00000151150|ENST00000280772|ANK3;nc|ENSG00000151150|Q12955-4|ANK3 ENSG00000145362|ENST00000357077|ANK2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 551.293714 1100.57287 3.0037 0.0016559 -1.5576 -0.00085871 1.4461 0.00079723 551.2928425014214 73.827 0.19821 74.491 74.418 74.617 0.6644 0.015499 -0.0018378 NaN 71.134 28 24 2 NaN NaN NaN NaN 0 NaN NaN 0 1543800 25371 3462;3693;9688 16377 16433 0.026610630989580386 PYMAKFVVF 9 Oxidation (M) _PYM(Oxidation (M))AKFVVF_ PYM(1)AKFVVF PYM(51)AKFVVF 0 0 1 ENSG00000145362|ENST00000357077|ANK2;nc|ENSG00000145362|Q01484-5|ANK2;nc|ENSG00000145362|Q01484-2|ANK2;ANK2|p.H3647Ifs*128|1|0.14|ENSG00000145362|chr4:113365089-113365089|C/-|frameshift_variant;ANK2|p.L2536Ffs*22|1|0.26|ENSG00000145362|chr4:113356220-113356220|C/-|frameshift_variant;ENSG00000151150|ENST00000280772|ANK3;nc|ENSG00000151150|Q12955-6|ANK3;nc|ENSG00000151150|Q12955-7|ANK3;nc|ENSG00000151150|Q12955-5|ANK3;nc|ENSG00000151150|Q12955-4|ANK3 ENSG00000145362|ENST00000357077|ANK2;ENSG00000151150|ENST00000280772|ANK3;nc|ENSG00000151150|Q12955-4|ANK3 ENSG00000145362|ENST00000357077|ANK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.2903442382812 2 559.291171 1116.56779 3.7056 0.0020725 -0.2798 -0.00015649 3.4258 0.001916 559.2910705474701 65.878 0.20363 66.127 65.987 66.191 0.24848 17 11 2 0 0 0 0.041436 1 30166 30166 50.855 27.707 1 327240 25372 3462;3693;9688 16377 16434 28882 28882 50 0.014167592363264703 PYMAKFVVF 9 Oxidation (M) _PYM(Oxidation (M))AKFVVF_ 0 0 1 ENSG00000145362|ENST00000357077|ANK2;nc|ENSG00000145362|Q01484-5|ANK2;nc|ENSG00000145362|Q01484-2|ANK2;ANK2|p.H3647Ifs*128|1|0.14|ENSG00000145362|chr4:113365089-113365089|C/-|frameshift_variant;ANK2|p.L2536Ffs*22|1|0.26|ENSG00000145362|chr4:113356220-113356220|C/-|frameshift_variant;ENSG00000151150|ENST00000280772|ANK3;nc|ENSG00000151150|Q12955-6|ANK3;nc|ENSG00000151150|Q12955-7|ANK3;nc|ENSG00000151150|Q12955-5|ANK3;nc|ENSG00000151150|Q12955-4|ANK3 ENSG00000145362|ENST00000357077|ANK2;ENSG00000151150|ENST00000280772|ANK3;nc|ENSG00000151150|Q12955-4|ANK3 ENSG00000145362|ENST00000357077|ANK2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 559.291171 1116.56779 3.6286 0.0020294 -0.96097 -0.00053746 2.6676 0.001492 559.2906027408646 65.203 0.1734 65.859 65.808 65.981 0.65672 -0.13375 -0.00024939 NaN 50.855 11 9 2 NaN NaN NaN NaN 0 NaN NaN 0 358930 25373 3462;3693;9688 16377 16434 50 0.014167592363264703 PYMANVYLI 9 Unmodified _PYMANVYLI_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2;ENST00000478436.1_1_3:145795570-145803239:-|nuORF nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.281982421875 2 542.280803 1082.54705 NaN NaN NaN NaN NaN NaN NaN 82.847 1 82.892 82.392 83.392 0.045006 0 0 0 0.023681 1 40972 40972 67.035 40.694 1 25374 3765 16378 16435 28883 28883 0.009081688566766388 PYMANVYLI 9 Unmodified _PYMANVYLI_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2;ENST00000478436.1_1_3:145795570-145803239:-|nuORF nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.2827758789062 2 542.280803 1082.54705 3.2984 0.0017887 0.12533 6.7966E-05 3.4237 0.0018566 542.28096203316 83.514 0.43059 83.761 83.536 83.966 0.24722 82 26 4 0 0 0 0.0077156 3 38420 38377;38420;38469 86.121 46.164 1 2936400 25375 3765 16378 16435 28884;28885;28886 28885 0.009081688566766388 PYMANVYLI 9 Unmodified _PYMANVYLI_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2;ENST00000478436.1_1_3:145795570-145803239:-|nuORF nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1083.559326171875 1 1083.55433 1082.54705 3.1372 0.0033993 -2.4494 -0.0026541 0.68771 0.00074517 1083.5551647339644 83.494 0.19273 83.742 83.64 83.833 0.24722 24 13 3 0 0 0 0.10245 1 38450 38450 32.117 23.524 1 455580 25376 3765 16378 16435 28887 28887 0.009081688566766388 PYMANVYLI 9 Unmodified _PYMANVYLI_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2;ENST00000478436.1_1_3:145795570-145803239:-|nuORF nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.2826538085938 2 542.280803 1082.54705 3.5534 0.0019269 -0.078024 -4.2311E-05 3.4754 0.0018846 542.2809106540105 82.982 0.39194 83.642 83.439 83.831 0.66019 61 20 4 0 0 0 0.015487 3 38237 38201;38237;38282 74.396 47.596 1 2945900 25377 3765 16378 16435 28888;28889;28890 28889 0.009081688566766388 PYMANVYLI 9 Unmodified _PYMANVYLI_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2;ENST00000478436.1_1_3:145795570-145803239:-|nuORF nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 542.280803 1082.54705 2.9046 0.0015751 0.17897 9.7052E-05 3.0835 0.0016721 542.2808059234495 83.812 0.060699 83.812 83.778 83.839 0 0.073909 0.00016224 NaN 86.121 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 2411300 25378 3765 16378 16435 0.009081688566766388 PYMANVYLI 9 Unmodified _PYMANVYLI_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2;ENST00000478436.1_1_3:145795570-145803239:-|nuORF nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 1083.55433 1082.54705 3.53 0.003825 -2.0099 -0.0021779 1.5201 0.0016471 1083.5551296973822 83.001 0.24243 83.661 83.513 83.755 0.66019 -0.040088 0.00024285 NaN 32.117 20 12 2 NaN NaN NaN NaN 0 NaN NaN 0 423570 25379 3765 16378 16435 0.009081688566766388 PYMANVYLI 9 Oxidation (M) _PYM(Oxidation (M))ANVYLI_ PYM(1)ANVYLI PYM(47)ANVYLI 0 0 1 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2;ENST00000478436.1_1_3:145795570-145803239:-|nuORF nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.281005859375 2 550.27826 1098.54197 3.2846 0.0018074 0.23216 0.00012775 3.5167 0.0019352 550.2785870719122 72.675 0.34421 72.934 72.803 73.148 0.25876 52 29 2 0 0 0 0.050606 2 33372 33372;33438 46.921 31.074 1 981230 25380 3765 16378 16436 28891;28892 28891 54 -0.003361350059549295 PYMDSPQSIGF 11 Unmodified _PYMDSPQSIGF_ 0 0 0 ENSG00000120265|ENST00000464889|PCMT1;nc|ENSG00000120265|P22061-2|PCMT1 ENSG00000120265|ENST00000464889|PCMT1 ENSG00000120265|ENST00000464889|PCMT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 621.1475219726562 2 621.278989 1240.54342 NaN NaN NaN NaN NaN NaN NaN 70.183 1 70.183 69.683 70.683 0 0 0 0 0.91016 1 34016 34016 15.248 5.8654 1 25381 2186 16379 16437 28893 28893 -0.06722545707862082 PYMDSPQSIGF 11 Unmodified _PYMDSPQSIGF_ 0 0 0 ENSG00000120265|ENST00000464889|PCMT1;nc|ENSG00000120265|P22061-2|PCMT1 ENSG00000120265|ENST00000464889|PCMT1 ENSG00000120265|ENST00000464889|PCMT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 621.2814331054688 2 621.278989 1240.54342 NaN NaN NaN NaN NaN NaN NaN 69.601 1 70.261 69.761 70.761 0.66071 0 0 0 0.080959 1 31910 31910 47.749 36.108 1 25382 2186 16379 16437 28894 28894 -0.06722545707862082 PYNDYFEYF 9 Unmodified _PYNDYFEYF_ 0 0 0 ENSG00000116478|ENST00000373548|HDAC1;ENSG00000196591|ENST00000519065|HDAC2;nc|ENSG00000196591|Q92769-3|HDAC2 ENSG00000116478|ENST00000373548|HDAC1;ENSG00000196591|ENST00000519065|HDAC2 ENSG00000196591|ENST00000519065|HDAC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 629.2592163085938 2 629.258579 1256.50261 NaN NaN NaN NaN NaN NaN NaN 85.351 1 86.016 85.516 86.516 0.66566 0 0 0 0.062126 1 39304 39304 49.933 37.692 1 25383 2029;5761 16380 16438 28895 28895 -0.11538563755811992 PYNPILGETF 10 Unmodified _PYNPILGETF_ 0 0 0 ENST00000548535.1_1_12:76779917-76783618:-|nuORF;ENST00000534491.5_1_11:3114755-3187956:-|nuORF;nc|ENSG00000021762|Q9H0X9-3|OSBPL5;nc|ENSG00000021762|Q9H0X9-2|OSBPL5;nc|ENSG00000091039|Q9BZF1-3|OSBPL8;nc|ENSG00000091039|Q9BZF1-2|OSBPL8;ENSG00000021762|ENST00000263650|OSBPL5;ENSG00000091039|ENST00000261183|OSBPL8 ENST00000548535.1_1_12:76779917-76783618:-|nuORF ENST00000548535.1_1_12:76779917-76783618:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.7936401367188 2 575.792589 1149.57063 3.7194 0.0021416 0.52465 0.00030209 4.244 0.0024437 575.7927307692441 79.147 0.30193 79.808 79.642 79.944 0.66082 27 18 2 0 0 0 0.037885 1 36484 36484 65.235 0 1 392270 25384 460 16381 16439 28896 28896 0.0018230589482755022 PYNPILGETF 10 Unmodified _PYNPILGETF_ 0 0 0 ENST00000548535.1_1_12:76779917-76783618:-|nuORF;ENST00000534491.5_1_11:3114755-3187956:-|nuORF;nc|ENSG00000021762|Q9H0X9-3|OSBPL5;nc|ENSG00000021762|Q9H0X9-2|OSBPL5;nc|ENSG00000091039|Q9BZF1-3|OSBPL8;nc|ENSG00000091039|Q9BZF1-2|OSBPL8;ENSG00000021762|ENST00000263650|OSBPL5;ENSG00000091039|ENST00000261183|OSBPL8 ENST00000548535.1_1_12:76779917-76783618:-|nuORF ENST00000548535.1_1_12:76779917-76783618:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 575.792589 1149.57063 3.1262 0.0018001 0.65046 0.00037453 3.7767 0.0021746 575.7924791204975 79.628 0.33837 79.879 79.698 80.036 0.25127 0.035464 9.8818E-05 NaN 65.235 28 19 2 NaN NaN NaN NaN 0 NaN NaN 0 486730 25385 460 16381 16439 0.0018230589482755022 PYNPLWAQL 9 Unmodified _PYNPLWAQL_ 0 0 0 ENSG00000217128|ENST00000510461|FNIP1;nc|ENSG00000217128|Q8TF40-3|FNIP1;nc|ENSG00000217128|Q8TF40-2|FNIP1;ENSG00000052795|ENST00000264433|FNIP2;nc|ENSG00000052795|Q9P278-2|FNIP2 ENSG00000217128|ENST00000510461|FNIP1;ENSG00000052795|ENST00000264433|FNIP2 ENSG00000052795|ENST00000264433|FNIP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.292724609375 2 551.290017 1100.56548 3.6608 0.0020181 0.40029 0.00022068 4.0611 0.0022388 551.2900312353826 84.157 0.18088 84.819 84.691 84.872 0.66219 12 8 2 0 0 0 0.010221 1 38782 38782 81.613 41.164 1 590030 25386 6140;593 16382 16440 28897 28897 0.019220468228922982 PYNPLWAQL 9 Unmodified _PYNPLWAQL_ 0 0 0 ENSG00000217128|ENST00000510461|FNIP1;nc|ENSG00000217128|Q8TF40-3|FNIP1;nc|ENSG00000217128|Q8TF40-2|FNIP1;ENSG00000052795|ENST00000264433|FNIP2;nc|ENSG00000052795|Q9P278-2|FNIP2 ENSG00000217128|ENST00000510461|FNIP1;ENSG00000052795|ENST00000264433|FNIP2 ENSG00000052795|ENST00000264433|FNIP2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 551.290017 1100.56548 3.5896 0.0019789 -0.32575 -0.00017958 3.2639 0.0017993 551.289800182115 84.669 0.25853 84.917 84.795 85.053 0.24757 0.048981 -0.00039957 NaN 81.613 18 12 2 NaN NaN NaN NaN 0 NaN NaN 0 488650 25387 6140;593 16382 16440 0.019220468228922982 PYNQQHLYF 9 Unmodified _PYNQQHLYF_ 0 0 0 ENSG00000221968|ENST00000278829|FADS3;ENST00000414624.6_1_11:61645294-61658904:-|nuORF ENSG00000221968|ENST00000278829|FADS3 ENSG00000221968|ENST00000278829|FADS3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 605.290283203125 2 605.288005 1208.56146 3.8344 0.0023209 -1.2289 -0.00074382 2.6056 0.0015771 605.2865046657497 47.901 0.23893 48.554 48.413 48.652 0.65356 15 9 2 0 0 0 0.032303 1 21937 21937 54.774 40.868 1 416350 25388 6155 16383 16441 28898 28898 -0.03448042670834184 PYNQQHLYF 9 Unmodified _PYNQQHLYF_ 0 0 0 ENSG00000221968|ENST00000278829|FADS3;ENST00000414624.6_1_11:61645294-61658904:-|nuORF ENSG00000221968|ENST00000278829|FADS3 ENSG00000221968|ENST00000278829|FADS3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 605.288005 1208.56146 3.787 0.0022922 0.13456 8.1446E-05 3.9215 0.0023736 605.7896382476529 48.5 0.20834 48.762 48.665 48.873 0.26209 0.10365 0.00025255 NaN 54.774 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 421570 25389 6155 16383 16441 -0.03448042670834184 PYNWISDHSRW 11 Unmodified _PYNWISDHSRW_ 0 0 0 nc|ENSG00000145868|Q6PIJ6-3|FBXO38;nc|ENSG00000145868|Q6PIJ6-2|FBXO38;ENSG00000145868|ENST00000340253|FBXO38 nc|ENSG00000145868|Q6PIJ6-3|FBXO38 nc|ENSG00000145868|Q6PIJ6-3|FBXO38 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.5620422363281 3 487.561709 1459.6633 NaN NaN NaN NaN NaN NaN NaN 56.878 1 57.656 57.156 58.156 0.77786 0 0 0 1.008 1 26017 26017 0.094841 0.011491 1 25390 3492 16384 16442 28899 28899 -0.048147963190558585 PYPAYTPPVL 10 Unmodified _PYPAYTPPVL_ 0 0 0 REV__SPIB|p.A119T|1|0.28|ENSG00000269404|chr19:50423620-50423620|G/A|missense_variant REV__SPIB|p.A119T|1|0.28|ENSG00000269404|chr19:50423620-50423620|G/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.37646484375 2 559.30005 1116.58555 NaN NaN NaN NaN NaN NaN NaN 79.494 1 80.155 79.655 80.655 0.66082 0 0 0 0.99464 1 36627 36627 6.2058 0.97511 1 + 25391 18218 16385 16443 28900 28900 0.03191797762860915 PYPEPYNPSL 10 Unmodified _PYPEPYNPSL_ 0 0 0 REV__nc|ENSG00000121904|Q7Z408-2|CSMD2 REV__nc|ENSG00000121904|Q7Z408-2|CSMD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 588.7803344726562 2 588.782222 1175.54989 NaN NaN NaN NaN NaN NaN NaN 53.745 1 53.745 53.245 54.245 0 0 0 0 0.88535 1 24639 24639 20.454 2.3186 1 + 25392 11569 16386 16444 28901 28901 -0.030862844848115856 PYPHLTRDKHL 11 Unmodified _PYPHLTRDKHL_ 0 0 0 REV__ENST00000366595.7_1_1:236140908-236141082:-|nuORF REV__ENST00000366595.7_1_1:236140908-236141082:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 688.8780517578125 2 688.875311 1375.73607 NaN NaN NaN NaN NaN NaN NaN 59.633 1 60.298 59.798 60.798 0.66503 0 0 0 1.0038 1 27298 27298 5.7319 2.1354 1 + 25393 15641 16387 16445 28902 28902 0.06322957474367286 PYPPSALVS 9 Unmodified _PYPPSALVS_ 0 0 0 REV__ENST00000314134.3_1_11:45826648-45827152:+|nuORF REV__ENST00000314134.3_1_11:45826648-45827152:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.7523193359375 2 465.750193 929.485833 2.8143 0.0013108 -0.0068285 -3.1804E-06 2.8075 0.0013076 465.7500469985933 32.432 0.34536 32.432 32.279 32.624 0 60 23 4 0 0 0 0.20384 2 14645 14645;14747 23.148 0 1 2235200 + 25394 15280 16388 16446 28903;28904 28903 0.018269801488941084 PYPQDYTYWVE 11 Unmodified _PYPQDYTYWVE_ 0 0 0 nc|ENSG00000080031|Q9HD43-3|PTPRH;nc|ENSG00000080031|Q9HD43-2|PTPRH;ENSG00000080031|ENST00000376350|PTPRH;ENST00000588559.5_1_19:55705613-55720813:-|nuORF nc|ENSG00000080031|Q9HD43-3|PTPRH nc|ENSG00000080031|Q9HD43-3|PTPRH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 730.8238525390625 2 730.822075 1459.6296 NaN NaN NaN NaN NaN NaN NaN 60.626 1 61.365 60.865 61.865 0.7396 0 0 0 1.0055 1 28008 28008 3.5965 2.1146 1 25395 902 16389 16447 28905 28905 -0.08183262601460228 PYPQLHFLAL 10 Unmodified _PYPQLHFLAL_ 0 0 0 nc|ENSG00000141622|Q6ZSG1-2|ARK2C;ENSG00000141622|ENST00000269439|RNF165 nc|ENSG00000141622|Q6ZSG1-2|ARK2C nc|ENSG00000141622|Q6ZSG1-2|ARK2C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 599.8335571289062 2 599.834591 1197.65463 NaN NaN NaN NaN NaN NaN NaN 55.288 1 55.956 55.456 56.456 0.66798 0 0 0 0.99687 1 25297 25297 4.3292 0.38484 1 25396 3276 16390 16448 28906 28906 0.063708817824363 PYPQPPTVRL 10 Unmodified _PYPQPPTVRL_ 0 0 0 nc|ENSG829|Q9HDB9|ERVK-5_gag nc|ENSG829|Q9HDB9|ERVK-5_gag nc|ENSG829|Q9HDB9|ERVK-5_gag MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.89080810546875 3 389.888874 1166.64479 2.8551 0.0011132 -0.54291 -0.00021167 2.3122 0.0009015 389.8889137870972 55.663 0.85426 56.331 55.803 56.657 0.66798 130 33 6 0 0 0 0.93584 1 25304 25304 1.7423 0 1 95412000 25397 9888 16391 16449 28907 28907 0.06813693777030494 PYPVPSTLG 9 Unmodified _PYPVPSTLG_ 0 0 0 FAM222A|p.A216Cfs*65|1|0.02|ENSG00000139438|chr12:109768540-109768541|-/CCAGCTCAACCAGCAGTGCCAGGCCCCGGGCGCCTGTT|frameshift_variant;ENSG00000139438|ENST00000538780|FAM222A FAM222A|p.A216Cfs*65|1|0.02|ENSG00000139438|chr12:109768540-109768541|-/CCAGCTCAACCAGCAGTGCCAGGCCCCGGGCGCCTGTT|frameshift_variant FAM222A|p.A216Cfs*65|1|0.02|ENSG00000139438|chr12:109768540-109768541|-/CCAGCTCAACCAGCAGTGCCAGGCCCCGGGCGCCTGTT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.7516784667969 2 465.750193 929.485833 2.7381 0.0012753 0.00031569 1.4703E-07 2.7384 0.0012754 465.7500473104825 31.605 0.25833 32.393 32.251 32.51 0.78879 48 21 3 0 0 0 0.11001 1 14277 14277 30.225 0 1 3105500 25398 3149 16392 16450 28908 28908 0.018269801489168458 PYPVRVTKPYQ 11 Unmodified _PYPVRVTKPYQ_ 0 0 0 REV__ENST00000434918.6_1_2:162888774-162891808:-|nuORF REV__ENST00000434918.6_1_2:162888774-162891808:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 674.4201049804688 2 674.374612 1346.73467 NaN NaN NaN NaN NaN NaN NaN 54.748 1 54.748 54.248 55.248 0 0 0 0 1.0057 1 25131 25131 3.2813 0.28607 1 + 25399 14294 16393 16451 28909 28909 0.07517323385627606 PYQLARQISS 10 Unmodified _PYQLARQISS_ 0 0 0 ENST00000369053.3_1_1:150459926-150461710:+|nuORF;TARS2|p.Q390*|1|0.21|ENSG00000143374|chr1:150497677-150497681|CAGAG/-|frameshift_variant;nc|ENSG00000143374|Q9BW92-2|TARS2;ENSG00000143374|ENST00000369064|TARS2 ENST00000369053.3_1_1:150459926-150461710:+|nuORF ENST00000369053.3_1_1:150459926-150461710:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.8153686523438 2 581.814387 1161.61422 NaN NaN NaN NaN NaN NaN NaN 56.534 1 57.203 56.703 57.703 0.66829 0 0 0 0.99225 1 25863 25863 6.7232 0.99131 1 25400 3362 16394 16452 28910 28910 0.0398791539200829 PYREQIHKC 9 Unmodified _PYREQIHKC_ 0 0 0 nc|ENSG00000204613|Q9UDY6-2|TRIM10;ENSG00000204613|ENST00000449742|TRIM10 nc|ENSG00000204613|Q9UDY6-2|TRIM10 nc|ENSG00000204613|Q9UDY6-2|TRIM10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.2949829101562 2 587.295307 1172.57606 NaN NaN NaN NaN NaN NaN NaN 69.567 1 69.821 69.321 70.321 0.25443 0 0 0 0.90611 1 31857 31857 2.0598 0.40713 1 25401 6024 16395 16453 28911 28911 -0.0033229379432668793 PYRLRMKRYL 10 Unmodified _PYRLRMKRYL_ 0 0 0 REV__ENST00000567980.5_1_16:81819579-81955027:+|nuORF REV__ENST00000567980.5_1_16:81819579-81955027:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.94073486328125 3 465.939575 1394.79689 NaN NaN NaN NaN NaN NaN NaN 36.825 1 37.619 37.119 38.119 0.79342 0 0 0 1.0015 1 16688 16688 0.15932 0.01943 1 + 25402 14306 16396 16454 28912 28912 0.11528771252960723 PYRSRRPRRGP 11 Unmodified _PYRSRRPRRGP_ 0 0 0 REV__ENST00000262519.13_2_16:30969107-30970039:+|nuORF REV__ENST00000262519.13_2_16:30969107-30970039:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 699.4058837890625 2 699.402892 1396.79123 NaN NaN NaN NaN NaN NaN NaN 64.747 1 65.463 64.963 65.963 0.71521 0 0 0 1.0057 1 30519 30519 3.2813 1.7994 1 + 25403 14985 16397 16455 28913 28913 0.10870808785489317 PYRWYRYFNP 10 Unmodified _PYRWYRYFNP_ 0 0 0 ENST00000395514.5_1_14:55309440-55309725:-|nuORF ENST00000395514.5_1_14:55309440-55309725:-|nuORF ENST00000395514.5_1_14:55309440-55309725:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 731.35791015625 2 731.356754 1460.69895 NaN NaN NaN NaN NaN NaN NaN 71.561 1 72.265 71.765 72.765 0.70386 0 0 0 1.0015 1 34380 34380 0.45834 0 1 25404 7554 16398 16456 28914 28914 -0.012967140713953995 PYSAFDFHGP 10 Unmodified _PYSAFDFHGP_ 0 0 0 ENST00000302351.8_1_5:73925440-73925572:-|nuORF ENST00000302351.8_1_5:73925440-73925572:-|nuORF ENST00000302351.8_1_5:73925440-73925572:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.7494506835938 2 569.253631 1136.49271 3.2929 0.0018745 1.4855 0.00084561 4.7784 0.0027201 569.2553134004168 54.495 1.6844 54.759 53.634 55.319 0.26462 207 97 5 0 0 0 0.64255 1 24624 24624 15.847 1.0089 1 6131400 25405 6811 16399 16457 28915 28915 -0.07007706970534855 PYSKKRQPMR 10 Unmodified _PYSKKRQPMR_ 0 0 0 ENST00000260187.6_1_11:119244168-119252344:-|nuORF ENST00000260187.6_1_11:119244168-119252344:-|nuORF ENST00000260187.6_1_11:119244168-119252344:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.859130859375 2 645.858606 1289.70266 NaN NaN NaN NaN NaN NaN NaN 53.418 1 54.222 53.722 54.722 0.80351 0 0 0 0.99983 1 24367 24367 1.8442 0 1 25406 6543 16400 16458 28916 28916 0.06939632430817255 PYTKVEESF 9 Unmodified _PYTKVEESF_ 0 0 0 ENSG00000182858|ENST00000330817|ALG12 ENSG00000182858|ENST00000330817|ALG12 ENSG00000182858|ENST00000330817|ALG12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.2698364257812 2 550.268947 1098.52334 3.619 0.0019914 -0.57728 -0.00031766 3.0417 0.0016738 550.2684545368443 36.838 0.34272 36.838 36.668 37.01 0 31 14 3 0 0 0 0.0057865 2 16727 16676;16727 90.135 37.867 1 878960 25407 5353 16401 16459 28917;28918 28918 -0.021979733761327225 PYTKVEESF 9 Unmodified _PYTKVEESF_ 0 0 0 ENSG00000182858|ENST00000330817|ALG12 ENSG00000182858|ENST00000330817|ALG12 ENSG00000182858|ENST00000330817|ALG12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.271240234375 2 550.268947 1098.52334 3.6356 0.0020005 0.033706 1.8548E-05 3.6693 0.0020191 550.2687355483232 36.869 0.28587 37.127 36.963 37.249 0.25768 20 9 3 0 0 0 0.0013355 1 16802 16802 117.76 53.524 1 640730 25408 5353 16401 16459 28919 28919 -0.021979733761327225 PYTKVEESF 9 Unmodified _PYTKVEESF_ 0 0 0 ENSG00000182858|ENST00000330817|ALG12 ENSG00000182858|ENST00000330817|ALG12 ENSG00000182858|ENST00000330817|ALG12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.2709350585938 2 550.268947 1098.52334 3.6466 0.0020066 -0.26258 -0.00014449 3.384 0.0018621 550.268829470535 36.253 0.34641 36.88 36.695 37.042 0.62631 24 10 3 0 0 0 0.0057865 1 16586 16586 90.135 35.361 1 721520 25409 5353 16401 16459 28920 28920 -0.021979733761327225 PYTKVEESF 9 Unmodified _PYTKVEESF_ 0 0 0 ENSG00000182858|ENST00000330817|ALG12 ENSG00000182858|ENST00000330817|ALG12 ENSG00000182858|ENST00000330817|ALG12 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 550.268947 1098.52334 3.348 0.0018423 0.046126 2.5382E-05 3.3941 0.0018677 550.2686483659725 35.789 0.36776 36.58 36.315 36.683 0.79131 -0.18597 0.00049437 NaN 90.135 25 18 2 NaN NaN NaN NaN 0 NaN NaN 0 1211100 25410 5353 16401 16459 -0.021979733761327225 PYTLGKSI 8 Unmodified _PYTLGKSI_ 0 0 0 REV__ENSG00000174718|ENST00000312561|RESF1 REV__ENSG00000174718|ENST00000312561|RESF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 439.75433349609375 2 439.752736 877.490919 3.3149 0.0014577 0.31591 0.00013892 3.6308 0.0015967 439.7529246675376 12.859 0.16698 13.501 13.413 13.58 0.64272 9 4 3 0 0 0 0.63902 1 5793 5793 10.824 2.9138 1 276050 + 25411 13642 16402 16460 28921 28921 0.04727284011528354 PYTLGKSI 8 Unmodified _PYTLGKSI_ 0 0 0 REV__ENSG00000174718|ENST00000312561|RESF1 REV__ENSG00000174718|ENST00000312561|RESF1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 439.752736 877.490919 3.3149 0.0014577 0.31591 0.00013892 3.6308 0.0015967 439.7529246675376 12.859 0.16698 13.501 13.413 13.58 0.64272 0.0069743 -0.0001821 NaN 10.824 9 4 3 NaN NaN NaN NaN 0 NaN NaN 0 276050 + 25412 13642 16402 16460 0.04727284011528354 PYTLKRCI 8 Unmodified _PYTLKRCI_ 0 0 0 REV__ENSG00000165490|ENST00000533655|DDIAS REV__ENSG00000165490|ENST00000533655|DDIAS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.8570251464844 3 331.856517 992.547722 2.4353 0.00080818 0.049208 1.633E-05 2.4845 0.00082451 331.85655868137746 26.272 0.53597 26.536 26.388 26.924 0.26489 77 42 3 0 0 0 0.60592 1 11887 11887 10.074 0.6908 1 788170 + 25413 13162 16403 16461 28922 28922 0.05115008296377255 PYTLKRCI 8 Unmodified _PYTLKRCI_ 0 0 0 REV__ENSG00000165490|ENST00000533655|DDIAS REV__ENSG00000165490|ENST00000533655|DDIAS MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.8872985839844 3 331.856517 992.547722 2.4353 0.00080818 0.049208 1.633E-05 2.4845 0.00082451 331.85655868137746 26.272 0.53597 26.536 26.388 26.924 0.26489 77 42 3 0 0 0 0.13619 1 11914 11914 14.838 8.6325 1 788170 + 25414 13162 16403 16461 28923 28923 0.05115008296377255 PYVDRQNRI 9 Unmodified _PYVDRQNRI_ 0 0 0 nc|ENSG00000107679|Q9HB21-2|PLEKHA1;ENSG00000107679|ENST00000368990|PLEKHA1;ENSG00000169499|ENST00000617275|PLEKHA2 nc|ENSG00000107679|Q9HB21-2|PLEKHA1 nc|ENSG00000107679|Q9HB21-2|PLEKHA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 387.54376220703125 3 387.543878 1159.60981 2.3919 0.00092695 -0.32716 -0.00012679 2.0647 0.00080017 387.87803826518996 17.048 0.32455 17.249 17.079 17.404 0.20057 58 40 2 0 0 0 0.27615 2 7571 7528;7571 18.373 6.7417 1 417020 25415 1605 16404 16462 28924;28925 28925 0.03638450969083351 PYVDRQNRI 9 Unmodified _PYVDRQNRI_ 0 0 0 nc|ENSG00000107679|Q9HB21-2|PLEKHA1;ENSG00000107679|ENST00000368990|PLEKHA1;ENSG00000169499|ENST00000617275|PLEKHA2 nc|ENSG00000107679|Q9HB21-2|PLEKHA1 nc|ENSG00000107679|Q9HB21-2|PLEKHA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.5449523925781 3 387.543878 1159.60981 2.6482 0.0010263 -0.71903 -0.00027866 1.9292 0.00074765 387.5433203584333 14.602 0.46851 14.909 14.798 15.266 0.3069 75 39 4 0 0 0 0.053359 1 6594 6594 45.74 18.111 1 936250 25416 1605 16404 16462 28926 28926 0.03638450969083351 PYVDRQNRI 9 Unmodified _PYVDRQNRI_ 0 0 0 nc|ENSG00000107679|Q9HB21-2|PLEKHA1;ENSG00000107679|ENST00000368990|PLEKHA1;ENSG00000169499|ENST00000617275|PLEKHA2 nc|ENSG00000107679|Q9HB21-2|PLEKHA1 nc|ENSG00000107679|Q9HB21-2|PLEKHA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.5450744628906 3 387.543878 1159.60981 2.8786 0.0011156 -0.894 -0.00034646 1.9846 0.00076913 387.5433810294078 14.659 0.47757 15.313 15.199 15.676 0.65356 89 44 3 0 0 0 0.27615 1 6611 6611 18.373 2.224 1 1010300 25417 1605 16404 16462 28927 28927 0.03638450969083351 PYVMYKKNH 9 Unmodified _PYVMYKKNH_ 0 0 0 ENSG00000152578|ENST00000282499|GRIA4;nc|ENSG00000125675|P42263|GRIA3;ENSG00000125675|ENST00000620443|GRIA3 ENSG00000152578|ENST00000282499|GRIA4 ENSG00000152578|ENST00000282499|GRIA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8726501464844 3 393.870826 1178.59065 NaN NaN NaN NaN NaN NaN NaN 12.919 1 13.562 13.062 14.062 0.64272 0 0 0 0.89315 1 5799 5799 2.9952 0 1 25418 3753 16405 16463 28928 28928 0.008497783538132353 PYVNNVPHL 9 Unmodified _PYVNNVPHL_ 0 0 0 ENSG00000166986|ENST00000262027|MARS1;ENST00000447721.6_1_12:57881873-57905922:+|nuORF;nc|ENSG00000166986|P56192-2|MARS1 ENSG00000166986|ENST00000262027|MARS1 ENSG00000166986|ENST00000262027|MARS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.7814331054688 2 526.779816 1051.54508 NaN NaN NaN NaN NaN NaN NaN 48.047 1 48.047 47.547 48.547 0 0 0 0 0.22092 1 22003 22003 30.225 13.283 1 25419 4524 16406 16464 28929 28929 0.021368761630810695 PYVNNVPHL 9 Unmodified _PYVNNVPHL_ 0 0 0 ENSG00000166986|ENST00000262027|MARS1;ENST00000447721.6_1_12:57881873-57905922:+|nuORF;nc|ENSG00000166986|P56192-2|MARS1 ENSG00000166986|ENST00000262027|MARS1 ENSG00000166986|ENST00000262027|MARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.7819213867188 2 526.779816 1051.54508 3.094 0.0016299 0.36447 0.00019199 3.4585 0.0018219 526.7798666102323 46.954 0.22878 47.783 47.613 47.842 0.82915 13 8 2 0 0 0 0.20384 1 21396 21396 23.148 11.508 1 173410 25420 4524 16406 16464 28930 28930 0.021368761630810695 PYVNNVPHL 9 Unmodified _PYVNNVPHL_ 0 0 0 ENSG00000166986|ENST00000262027|MARS1;ENST00000447721.6_1_12:57881873-57905922:+|nuORF;nc|ENSG00000166986|P56192-2|MARS1 ENSG00000166986|ENST00000262027|MARS1 ENSG00000166986|ENST00000262027|MARS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 526.779816 1051.54508 3.5095 0.0018487 0.77871 0.00041021 4.2882 0.002259 526.7801606237313 47.889 0.252 48.152 48.038 48.29 0.26363 0.19991 3.6014E-05 NaN 23.148 17 10 2 NaN NaN NaN NaN 0 NaN NaN 0 520420 25421 4524 16406 16464 0.021368761630810695 PYVNNVPHL 9 Unmodified _PYVNNVPHL_ 0 0 0 ENSG00000166986|ENST00000262027|MARS1;ENST00000447721.6_1_12:57881873-57905922:+|nuORF;nc|ENSG00000166986|P56192-2|MARS1 ENSG00000166986|ENST00000262027|MARS1 ENSG00000166986|ENST00000262027|MARS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 526.779816 1051.54508 3.2609 0.0017178 0.80655 0.00042488 4.0675 0.0021427 526.7801533116868 47.27 0.28685 47.922 47.774 48.061 0.65219 -0.030564 6.5344E-05 NaN 23.148 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 284030 25422 4524 16406 16464 0.021368761630810695 PYVVRRSRS 9 Unmodified _PYVVRRSRS_ 0 0 0 ENST00000506004.5_1_5:141350429-141353188:+|nuORF ENST00000506004.5_1_5:141350429-141353188:+|nuORF ENST00000506004.5_1_5:141350429-141353188:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.3251953125 2 560.322714 1118.63087 NaN NaN NaN NaN NaN NaN NaN 54.177 1 54.972 54.472 55.472 0.79552 0 0 0 0.89683 1 24719 24719 4.3292 1.44 1 25423 8508 16407 16465 28931 28931 0.07630461068606564 PYVYHNRP 8 Unmodified _PYVYHNRP_ 0 0 0 ENST00000474610.1_1_2:33952107-33952842:-|nuORF ENST00000474610.1_1_2:33952107-33952842:-|nuORF ENST00000474610.1_1_2:33952107-33952842:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.2636108398438 2 523.264333 1044.51411 NaN NaN NaN NaN NaN NaN NaN 40.795 1 40.795 40.295 41.295 0 0 0 0 0.99035 1 18524 18524 5.7604 0 1 25424 8213 16408 16466 28932 28932 -0.0063627715114762395 PYWKTHLWPRR 11 Unmodified _PYWKTHLWPRR_ 0 0 0 RALGAPB|p.A220Hfs*53|1|0.05|ENSG00000170471|chr20:38499550-38499551|-/CATCTTTG|frameshift_variant RALGAPB|p.A220Hfs*53|1|0.05|ENSG00000170471|chr20:38499550-38499551|-/CATCTTTG|frameshift_variant RALGAPB|p.A220Hfs*53|1|0.05|ENSG00000170471|chr20:38499550-38499551|-/CATCTTTG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 770.426025390625 2 770.42022 1538.82589 NaN NaN NaN NaN NaN NaN NaN 58.692 1 59.45 58.95 59.95 0.75894 0 0 0 1.0071 1 26941 26941 1.4819 1.1313 1 25425 9914 16409 16467 28933 28933 0.07802631873573773 PYWKTHLWPRR 11 Unmodified _PYWKTHLWPRR_ 0 0 0 RALGAPB|p.A220Hfs*53|1|0.05|ENSG00000170471|chr20:38499550-38499551|-/CATCTTTG|frameshift_variant RALGAPB|p.A220Hfs*53|1|0.05|ENSG00000170471|chr20:38499550-38499551|-/CATCTTTG|frameshift_variant RALGAPB|p.A220Hfs*53|1|0.05|ENSG00000170471|chr20:38499550-38499551|-/CATCTTTG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 770.4190063476562 2 770.42022 1538.82589 NaN NaN NaN NaN NaN NaN NaN 59.315 1 60.074 59.574 60.574 0.75894 0 0 0 1.0071 1 27254 27254 1.4819 0 1 25426 9914 16409 16467 28934 28934 0.07802631873573773 PYYEENSF 8 Unmodified _PYYEENSF_ 0 0 0 REV__nc|ENSG00000135374|Q9UKW6-3|ELF5 REV__nc|ENSG00000135374|Q9UKW6-3|ELF5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.7172241210938 2 524.716547 1047.41854 NaN NaN NaN NaN NaN NaN NaN 20.414 1 20.414 19.914 20.914 0 0 0 0 0.99035 1 9127 9127 5.7604 0 1 + 25427 12013 16410 16468 28935 28935 -0.10327094852709706 PYYGKKLH 8 Unmodified _PYYGKKLH_ 0 0 0 ENSG00000069849|ENST00000286371|ATP1B3 ENSG00000069849|ENST00000286371|ATP1B3 ENSG00000069849|ENST00000286371|ATP1B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.8563232421875 3 335.855394 1004.54435 1.6237 0.00054533 1.026 0.00034458 2.6497 0.00088991 335.85581650772883 5.9978 0.50925 6.303 6.0843 6.5935 0.30519 69 48 2 0 0 0 0.7471 1 2690 2690 0.45834 0 1 58685 25428 753 16411 16469 28936 28936 0.0422608151403665 PYYIDFYKEYF 11 Unmodified _PYYIDFYKEYF_ 0 0 0 REV__nc|ENSG00000164308|Q6P179-3|ERAP2 REV__nc|ENSG00000164308|Q6P179-3|ERAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.5791625976562 3 516.574621 1546.70203 NaN NaN NaN NaN NaN NaN NaN 61.054 1 61.793 61.293 62.293 0.7396 0 0 0 1.0071 1 28263 28263 0.50596 0 1 + 25429 13083 16412 16470 28937 28937 -0.04944928527902448 PYYLPIRRHWH 11 Unmodified _PYYLPIRRHWH_ 0 0 0 REV__ENSG00000198670|ENST00000316300|LPA REV__ENSG00000198670|ENST00000316300|LPA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 769.41552734375 2 769.412395 1536.81024 NaN NaN NaN NaN NaN NaN NaN 56.012 1 56.8 56.3 57.3 0.78711 0 0 0 1.0079 1 25595 25595 1.4819 0 1 + 25430 14346 16413 16471 28938 28938 0.06330345356559519 PYYSKFILI 9 Unmodified _PYYSKFILI_ 0 0 0 ENSG00000164815|ENST00000297431|ORC5 ENSG00000164815|ENST00000297431|ORC5 ENSG00000164815|ENST00000297431|ORC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 572.3287353515625 2 572.326068 1142.63758 2.9628 0.0016957 0.33289 0.00019052 3.2956 0.0018862 572.3264731804446 76.667 0.23724 76.667 76.522 76.759 0 35 17 3 0 0 0 0.023321 1 37559 37559 63.961 27.833 1 2065000 25431 4345 16414 16472 28939 28939 0.07196961176623518 PYYSKFILI 9 Unmodified _PYYSKFILI_ 0 0 0 ENSG00000164815|ENST00000297431|ORC5 ENSG00000164815|ENST00000297431|ORC5 ENSG00000164815|ENST00000297431|ORC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 572.3285522460938 2 572.326068 1142.63758 3.0635 0.0017533 -0.80895 -0.00046298 2.2545 0.0012903 572.3252912478218 75.536 0.27652 76.199 76.044 76.321 0.6635 42 21 3 0 0 0 0.023321 1 36574 36574 63.961 22.121 1 1835500 25432 4345 16414 16472 28940 28940 0.07196961176623518 PYYSKFILI 9 Unmodified _PYYSKFILI_ 0 0 0 ENSG00000164815|ENST00000297431|ORC5 ENSG00000164815|ENST00000297431|ORC5 ENSG00000164815|ENST00000297431|ORC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.3280029296875 2 572.326068 1142.63758 3.2188 0.0018422 0.33391 0.0001911 3.5527 0.0020333 572.3261691520502 76.406 0.20178 76.661 76.543 76.745 0.25533 28 15 2 0 0 0 0.044468 1 35169 35169 49.554 20.473 1 782730 25433 4345 16414 16472 28941 28941 0.07196961176623518 PYYSKFILI 9 Unmodified _PYYSKFILI_ 0 0 0 ENSG00000164815|ENST00000297431|ORC5 ENSG00000164815|ENST00000297431|ORC5 ENSG00000164815|ENST00000297431|ORC5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 572.326068 1142.63758 3.2749 0.0018743 -0.31187 -0.00017849 2.963 0.0016958 572.3257402675529 75.915 0.21737 76.579 76.451 76.668 0.66387 -0.056863 -0.00039829 NaN 63.961 31 18 2 NaN NaN NaN NaN 0 NaN NaN 0 980090 25434 4345 16414 16472 0.07196961176623518 QAALERQAL 9 Unmodified _QAALERQAL_ 0 0 0 ENSG00000123689|ENST00000367029|G0S2 ENSG00000123689|ENST00000367029|G0S2 ENSG00000123689|ENST00000367029|G0S2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.7865905761719 2 500.282723 998.550893 3.3022 0.001652 0.079765 3.9905E-05 3.3819 0.0016919 500.2826870788089 27.975 0.22358 27.975 27.886 28.109 0 33 19 2 0 0 0 0.014491 3 12600 12592;12600;12639 75.761 30.061 1 573480 25435 2325 16415 16473 28942;28943;28944 28943 0.051559746747557256 QAALERQAL 9 Unmodified _QAALERQAL_ 0 0 0 ENSG00000123689|ENST00000367029|G0S2 ENSG00000123689|ENST00000367029|G0S2 ENSG00000123689|ENST00000367029|G0S2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.2843322753906 2 500.282723 998.550893 3.1 0.0015509 0.1877 9.3903E-05 3.2877 0.0016448 500.28283531941105 27.019 0.19498 27.798 27.702 27.897 0.7787 29 14 3 0 0 0 0.0061394 2 12130 12130;12172 89.401 35.568 1 805410 25436 2325 16415 16473 28945;28946 28945 0.051559746747557256 QAALERQAL 9 Unmodified _QAALERQAL_ 0 0 0 ENSG00000123689|ENST00000367029|G0S2 ENSG00000123689|ENST00000367029|G0S2 ENSG00000123689|ENST00000367029|G0S2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.2839660644531 2 500.282723 998.550893 3.1157 0.0015587 0.19788 9.8994E-05 3.3136 0.0016577 500.28290802307043 27.746 0.26862 28.009 27.861 28.129 0.26245 39 16 3 0 0 0 0.0012766 2 12589 12589;12641 122.18 59.607 1 1300800 25437 2325 16415 16473 28947;28948 28947 0.051559746747557256 QAALERQAL 9 Unmodified _QAALERQAL_ 0 0 0 ENSG00000123689|ENST00000367029|G0S2 ENSG00000123689|ENST00000367029|G0S2 ENSG00000123689|ENST00000367029|G0S2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.2842102050781 2 500.282723 998.550893 3.1315 0.0015666 0.074171 3.7107E-05 3.2056 0.0016037 500.2828033728897 27.309 0.30043 27.931 27.802 28.102 0.62178 48 20 3 0 0 0 0.0012766 2 12539 12490;12539 122.18 59.607 1 1078500 25438 2325 16415 16473 28949;28950 28950 0.051559746747557256 QAAPDLHVL 9 Unmodified _QAAPDLHVL_ 0 0 0 ENST00000524000.5_1_8:124515615-124518835:-|nuORF;nc|ENSG00000156804|Q969P5-2|FBXO32;ENST00000287396.2_1_8:124515615-124544254:-|nuORF;ENSG00000156804|ENST00000517956|FBXO32 ENST00000524000.5_1_8:124515615-124518835:-|nuORF ENST00000524000.5_1_8:124515615-124518835:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 482.26824951171875 2 482.266542 962.51853 3.0946 0.0014924 0.23819 0.00011487 3.3328 0.0016073 482.26675665585543 50.27 0.27578 50.27 50.091 50.367 0 19 13 2 0 0 0 0.020718 1 23015 23015 67.344 35.038 1 264160 25439 3926 16416 16474 28951 28951 0.03577187271753246 QAAPDLHVL 9 Unmodified _QAAPDLHVL_ 0 0 0 ENST00000524000.5_1_8:124515615-124518835:-|nuORF;nc|ENSG00000156804|Q969P5-2|FBXO32;ENST00000287396.2_1_8:124515615-124544254:-|nuORF;ENSG00000156804|ENST00000517956|FBXO32 ENST00000524000.5_1_8:124515615-124518835:-|nuORF ENST00000524000.5_1_8:124515615-124518835:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.26849365234375 2 482.266542 962.51853 3.1687 0.0015282 0.11107 5.3564E-05 3.2798 0.0015817 482.2665730513894 49.362 0.30042 50.189 50.005 50.306 0.82705 18 13 2 0 0 0 0.12301 1 22494 22494 28.487 12.64 1 156720 25440 3926 16416 16474 28952 28952 0.03577187271753246 QAAPDLHVL 9 Unmodified _QAAPDLHVL_ 0 0 0 ENST00000524000.5_1_8:124515615-124518835:-|nuORF;nc|ENSG00000156804|Q969P5-2|FBXO32;ENST00000287396.2_1_8:124515615-124544254:-|nuORF;ENSG00000156804|ENST00000517956|FBXO32 ENST00000524000.5_1_8:124515615-124518835:-|nuORF ENST00000524000.5_1_8:124515615-124518835:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.2685546875 2 482.266542 962.51853 3.0462 0.0014691 0.238 0.00011478 3.2842 0.0015838 482.2669785551248 50.003 0.28212 50.264 50.133 50.415 0.26146 16 10 2 0 0 0 0.026068 1 22855 22855 60.39 31.903 1 389280 25441 3926 16416 16474 28953 28953 0.03577187271753246 QAAPDLHVL 9 Unmodified _QAAPDLHVL_ 0 0 0 ENST00000524000.5_1_8:124515615-124518835:-|nuORF;nc|ENSG00000156804|Q969P5-2|FBXO32;ENST00000287396.2_1_8:124515615-124544254:-|nuORF;ENSG00000156804|ENST00000517956|FBXO32 ENST00000524000.5_1_8:124515615-124518835:-|nuORF ENST00000524000.5_1_8:124515615-124518835:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.26776123046875 2 482.266542 962.51853 3.2104 0.0015483 -0.52968 -0.00025545 2.6808 0.0012928 482.2662308927014 49.419 0.29579 50.074 49.95 50.246 0.65524 16 10 2 0 0 0 0.026068 2 22604 22604;22623 60.39 31.903 1 382550 25442 3926 16416 16474 28954;28955 28954 0.03577187271753246 QAAQIKLLR 9 Unmodified _QAAQIKLLR_ 0 0 0 nc|ENSG00000226266|Q9UIF8-4|BAZ2B;nc|ENSG00000226266|Q9UIF8-2|BAZ2B;nc|ENSG00000226266|Q9UIF8-5|BAZ2B;nc|ENSG00000226266|Q9UIF8-3|BAZ2B;ENSG00000123636|ENST00000392783|BAZ2B;ENST00000472953.1_1_2:160261332-160289886:-|nuORF nc|ENSG00000226266|Q9UIF8-4|BAZ2B nc|ENSG00000226266|Q9UIF8-4|BAZ2B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.0109252929688 2 520.832383 1039.65021 3.1651 0.0016485 -1.0052 -0.00052356 2.1599 0.001125 521.3328157917969 44.438 0.083317 44.438 44.379 44.462 0 8 5 2 0 0 0 0.10694 1 20310 20310 7.2892 2.5332 1 6426200 25443 2324 16417 16475 28956 28956 0.13197417359492647 QAARHARPAA 10 Unmodified _QAARHARPAA_ 0 0 0 REV__ENST00000455574.6_1_5:148651446-148679906:+|nuORF REV__ENST00000455574.6_1_5:148651446-148679906:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.2075500488281 3 350.196813 1047.56861 NaN NaN NaN NaN NaN NaN NaN 51.09 1 51.09 50.59 51.59 0 0 0 0 0.99774 1 23393 23393 1.7423 0 1 + 25444 16445 16418 16476 28957 28957 0.046727347202477176 QADEEFQIL 9 Unmodified _QADEEFQIL_ 0 0 0 ENSG00000102158|ENST00000618282|MAGT1;nc|ENSG00000102158|Q9H0U3-2|MAGT1;ENST00000476168.1_1_X:77112151-77150907:-|nuORF ENSG00000102158|ENST00000618282|MAGT1 ENSG00000102158|ENST00000618282|MAGT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.7670288085938 2 546.764029 1091.5135 NaN NaN NaN NaN NaN NaN NaN 71.854 1 72.517 72.017 73.017 0.66324 0 0 0 0.17021 1 32934 32934 32.305 0.18852 1 25445 1333 16419 16477 28958 28958 -0.02859161381525155 QADEVIAIL 9 Unmodified _QADEVIAIL_ 0 0 0 nc|ENSG00000090530|Q8IVL5-2|P3H2;ENSG00000090530|ENST00000319332|P3H2 nc|ENSG00000090530|Q8IVL5-2|P3H2 nc|ENSG00000090530|Q8IVL5-2|P3H2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.2754211425781 2 486.274032 970.533512 2.9013 0.0014108 0.14014 6.8145E-05 3.0414 0.001479 486.27407459456947 79.565 0.40215 79.816 79.601 80.003 0.25127 57 23 3 0 0 0 0.010018 3 36595 36595;36645;36690 81.89 29.622 1 1445500 25446 1060 16420 16478 28959;28960;28961 28959 0.0470663434908829 QADEVIAIL 9 Unmodified _QADEVIAIL_ 0 0 0 nc|ENSG00000090530|Q8IVL5-2|P3H2;ENSG00000090530|ENST00000319332|P3H2 nc|ENSG00000090530|Q8IVL5-2|P3H2 nc|ENSG00000090530|Q8IVL5-2|P3H2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.27587890625 2 486.274032 970.533512 3.2224 0.001567 0.25425 0.00012364 3.4767 0.0016906 486.2740987453379 79.065 0.40757 79.725 79.502 79.91 0.66082 60 25 3 0 0 0 0.0046538 3 36414 36366;36414;36465 92.491 35.02 1 1503500 25447 1060 16420 16478 28962;28963;28964 28963 0.0470663434908829 QADEVIAIL 9 Unmodified _QADEVIAIL_ 0 0 0 nc|ENSG00000090530|Q8IVL5-2|P3H2;ENSG00000090530|ENST00000319332|P3H2 nc|ENSG00000090530|Q8IVL5-2|P3H2 nc|ENSG00000090530|Q8IVL5-2|P3H2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 486.274032 970.533512 2.6798 0.0013031 0.65797 0.00031996 3.3378 0.0016231 486.27390705387876 79.922 0.17445 79.922 79.838 80.012 0 0.10084 0.00040049 NaN 92.491 16 12 2 NaN NaN NaN NaN 0 NaN NaN 0 986870 25448 1060 16420 16478 0.0470663434908829 QADFLDKQM 9 Unmodified _QADFLDKQM_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.2625732421875 2 548.260599 1094.50665 3.4834 0.0019098 0.28243 0.00015485 3.7659 0.0020647 548.2607436053539 43.436 0.31067 43.706 43.572 43.883 0.27021 21 14 2 0 0 0 5.9221E-14 1 19867 19867 168.54 114.7 1 730130 25449 931 16421 16479 28965 28965 -0.03682797533747362 QADFLDKQM 9 Unmodified _QADFLDKQM_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.2622680664062 2 548.260599 1094.50665 NaN NaN NaN NaN NaN NaN NaN 42.986 1 43.635 43.135 44.135 0.64872 0 0 0 1.1314E-06 1 19698 19698 117.76 73.902 1 25450 931 16421 16479 28966 28966 -0.03682797533747362 QADLFKRIVY 10 Unmodified _QADLFKRIVY_ 0 0 0 REV__nc|ENSG00000160695|Q9H270|VPS11 REV__nc|ENSG00000160695|Q9H270|VPS11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 626.8558959960938 2 626.856055 1251.69756 NaN NaN NaN NaN NaN NaN NaN 97.928 1 97.999 97.499 98.499 0.070648 0 0 0 0.99774 1 52502 52502 3.5965 0 1 + 25451 12887 16422 16480 28967 28967 0.08177651839832834 QADNPHVAL 9 Unmodified _QADNPHVAL_ 0 0 0 ENSG00000149428|ENST00000617285|HYOU1;ENST00000533381.5_1_11:118925895-118927580:-|nuORF;ENST00000531694.5_1_11:118924831-118926006:-|nuORF;nc|ENSG00000149428|Q9Y4L1-2|HYOU1;ENST00000543287.5_1_11:118919950-118926831:-|nuORF ENSG00000149428|ENST00000617285|HYOU1 ENSG00000149428|ENST00000617285|HYOU1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 482.7476501464844 2 482.745973 963.477394 3.4059 0.0016442 -0.45585 -0.00022006 2.95 0.0014241 482.7457829738214 30.213 0.25364 30.213 30.075 30.328 0 26 16 2 0 0 0 0.22507 1 13629 13629 21.747 9.2151 1 526540 25452 3643 16423 16481 28968 28968 -0.005805737677064826 QADNPHVAL 9 Unmodified _QADNPHVAL_ 0 0 0 ENSG00000149428|ENST00000617285|HYOU1;ENST00000533381.5_1_11:118925895-118927580:-|nuORF;ENST00000531694.5_1_11:118924831-118926006:-|nuORF;nc|ENSG00000149428|Q9Y4L1-2|HYOU1;ENST00000543287.5_1_11:118919950-118926831:-|nuORF ENSG00000149428|ENST00000617285|HYOU1 ENSG00000149428|ENST00000617285|HYOU1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.5979309082031 2 482.745973 963.477394 NaN NaN NaN NaN NaN NaN NaN 29.294 1 30.083 29.583 30.583 0.78921 0 0 0 0.69911 1 13203 13203 12.532 3.1841 1 25453 3643 16423 16481 28969 28969 -0.005805737677064826 QADNPHVAL 9 Unmodified _QADNPHVAL_ 0 0 0 ENSG00000149428|ENST00000617285|HYOU1;ENST00000533381.5_1_11:118925895-118927580:-|nuORF;ENST00000531694.5_1_11:118924831-118926006:-|nuORF;nc|ENSG00000149428|Q9Y4L1-2|HYOU1;ENST00000543287.5_1_11:118919950-118926831:-|nuORF ENSG00000149428|ENST00000617285|HYOU1 ENSG00000149428|ENST00000617285|HYOU1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.747802734375 2 482.745973 963.477394 3.3183 0.0016019 -1.0848 -0.00052369 2.2335 0.0010782 482.7455164458695 29.942 0.27711 30.2 30.036 30.314 0.25804 44 25 2 0 0 0 0.11001 2 13639 13595;13639 30.225 14.457 1 674700 25454 3643 16423 16481 28970;28971 28971 -0.005805737677064826 QADNPHVAL 9 Unmodified _QADNPHVAL_ 0 0 0 ENSG00000149428|ENST00000617285|HYOU1;ENST00000533381.5_1_11:118925895-118927580:-|nuORF;ENST00000531694.5_1_11:118924831-118926006:-|nuORF;nc|ENSG00000149428|Q9Y4L1-2|HYOU1;ENST00000543287.5_1_11:118919950-118926831:-|nuORF ENSG00000149428|ENST00000617285|HYOU1 ENSG00000149428|ENST00000617285|HYOU1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.74639892578125 2 482.745973 963.477394 3.1732 0.0015318 -1.0919 -0.00052709 2.0813 0.0010047 482.74545419975334 29.641 0.38103 30.259 30.054 30.435 0.61789 48 22 3 0 0 0 0.11001 1 13586 13586 30.225 13.283 1 379500 25455 3643 16423 16481 28972 28972 -0.005805737677064826 QADPREPQF 9 Unmodified _QADPREPQF_ 0 0 0 nc|ENSG00000184014|Q6IQ26-2|DENND5A;ENSG00000184014|ENST00000328194|DENND5A;ENST00000532696.1_1_11:9225120-9228222:-|nuORF nc|ENSG00000184014|Q6IQ26-2|DENND5A nc|ENSG00000184014|Q6IQ26-2|DENND5A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.2640380859375 2 544.261988 1086.50942 3.7999 0.0020682 0.2721 0.00014809 4.072 0.0022162 544.2619533008035 30.42 0.22884 30.678 30.566 30.795 0.25804 16 10 2 0 0 0 0.24465 1 13877 13877 20.454 6.5476 1 216900 25456 5418 16424 16482 28973 28973 -0.03037206084582067 QADSLERSL 9 Unmodified _QADSLERSL_ 0 0 0 nc|ENSG00000137497|Q14980-4|NUMA1;nc|ENSG00000137497|Q14980-3|NUMA1;nc|ENSG00000137497|Q14980-2|NUMA1;ENSG00000137497|ENST00000393695|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.76348876953125 2 509.76182 1017.50909 3.2788 0.0016714 -0.032788 -1.6714E-05 3.246 0.0016547 509.7620848498312 32.213 0.30748 32.831 32.684 32.991 0.61831 38 17 3 0 0 0 0.053359 1 14785 14785 45.74 7.5643 1 404390 25457 3022 16425 16483 28974 28974 0.0010337419557799876 QADSLERSL 9 Unmodified _QADSLERSL_ 0 0 0 nc|ENSG00000137497|Q14980-4|NUMA1;nc|ENSG00000137497|Q14980-3|NUMA1;nc|ENSG00000137497|Q14980-2|NUMA1;ENSG00000137497|ENST00000393695|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 509.76182 1017.50909 3.5136 0.0017911 -0.46229 -0.00023566 3.0513 0.0015554 509.76180804839265 32.789 0.27144 33.043 32.902 33.174 0.25389 0.10588 -0.00016831 NaN 45.74 24 11 3 NaN NaN NaN NaN 0 NaN NaN 0 419660 25458 3022 16425 16483 0.0010337419557799876 QAEPILVL 8 Unmodified _QAEPILVL_ 0 0 0 REV__ENSG00000188833|ENST00000371506|ENTPD8 REV__ENSG00000188833|ENST00000371506|ENTPD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.7697448730469 2 441.768386 881.522219 2.9204 0.0012901 0.94237 0.00041631 3.8628 0.0017064 441.76864812459667 84.976 0.28274 85.224 85.053 85.336 0.24757 31 15 3 0 0 0 0.3435 1 39127 39127 32.305 3.8186 1 762780 + 25459 14161 16426 16484 28975 28975 0.07671857045602337 QAEPILVL 8 Unmodified _QAEPILVL_ 0 0 0 REV__ENSG00000188833|ENST00000371506|ENTPD8 REV__ENSG00000188833|ENST00000371506|ENTPD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 882.5339965820312 1 882.529495 881.522219 4.084 0.0036043 0.39029 0.00034444 4.4743 0.0039487 882.5296418167325 84.367 0.33625 85.029 84.89 85.226 0.66219 41 19 3 0 0 0 0.19187 1 38830 38830 43.858 0 1 1059000 + 25460 14161 16426 16484 28976 28976 0.07671857045602337 QAEQEDRAL 9 Unmodified _QAEQEDRAL_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242169444-242174670:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.258544921875 2 530.256902 1058.49925 3.1254 0.0016572 0.42394 0.0002248 3.5493 0.001882 530.2570219799013 14.757 0.19772 14.757 14.63 14.828 0 31 20 2 0 0 0 0.030603 1 6495 6495 55.503 21.101 1 207450 25461 1983 16427 16485 28977 28977 -0.027658138098104246 QAEQEDRAL 9 Unmodified _QAEQEDRAL_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242169444-242174670:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.2575073242188 2 530.256902 1058.49925 NaN NaN NaN NaN NaN NaN NaN 14.477 1 14.704 14.204 15.204 0.22622 0 0 0 0.83378 1 6363 6363 8.1555 1.4324 1 25462 1983 16427 16485 28978 28978 -0.027658138098104246 QAEQEDRAL 9 Unmodified _QAEQEDRAL_ 0 0 0 nc|ENSG00000115677|Q00341-2|HDLBP;ENSG00000115677|ENST00000310931|HDLBP;ENST00000487169.5_1_2:242169444-242174670:-|nuORF nc|ENSG00000115677|Q00341-2|HDLBP nc|ENSG00000115677|Q00341-2|HDLBP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 530.256902 1058.49925 3.1192 0.001654 -0.19611 -0.00010399 2.9231 0.00155 530.2567432467303 14.398 0.14165 14.625 14.544 14.686 0.22622 -0.066067 -0.00034259 NaN 55.503 20 11 2 NaN NaN NaN NaN 0 NaN NaN 0 192650 25463 1983 16427 16485 -0.027658138098104246 QAKASVVEP 9 Unmodified _QAKASVVEP_ 0 0 0 REV__ENST00000477731.5_1_1:45805847-45806780:+|nuORF REV__ENST00000477731.5_1_1:45805847-45806780:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.7570495605469 2 464.758549 927.502546 NaN NaN NaN NaN NaN NaN NaN 22.522 1 22.803 22.303 23.303 0.28085 0 0 0 0.11997 1 10169 10169 37.974 12.575 1 + 25464 16666 16428 16486 28979 28979 0.035894810348509054 QAKKRVVF 8 Unmodified _QAKKRVVF_ 0 0 0 PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant;ENSG00000119938|ENST00000238994|PPP1R3C PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 325.87554931640625 3 325.874788 974.602535 1.5932 0.00051919 0.46982 0.0001531 2.063 0.00067229 325.87494974356343 12.454 0.060402 12.761 12.733 12.794 0.30727 6 2 3 0 0 0 0.54363 1 5623 5623 18.146 8.0724 1 5307000 25465 2174 16429 16487 28980 28980 0.11421763159330567 QAKKRVVF 8 Unmodified _QAKKRVVF_ 0 0 0 PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant;ENSG00000119938|ENST00000238994|PPP1R3C PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 325.874788 974.602535 2.3326 0.00076014 0.069778 2.2739E-05 2.4024 0.00078288 325.87467543452374 12.627 0.065831 12.627 12.594 12.66 0 -0.066897 -0.00023366 NaN 18.146 8 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1149100 25466 2174 16429 16487 0.11421763159330567 QAKLGMKHLKR 11 Unmodified _QAKLGMKHLKR_ 0 0 0 REV__ENSG00000115361|ENST00000233710|ACADL REV__ENSG00000115361|ENST00000233710|ACADL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 655.9026489257812 2 655.397899 1308.78124 4.0827 0.0026758 -0.0070129 -4.5962E-06 4.0757 0.0026712 655.8992669089951 48.511 0.28716 49.166 48.939 49.227 0.65524 18 11 2 0 0 0 0.91104 1 22191 22191 1.1933 0.84271 1 633080 + 25467 11359 16430 16488 28981 28981 0.13920484735876926 QAKLKAQAL 9 Unmodified _QAKLKAQAL_ 0 0 0 ENSG00000013364|ENST00000357402|MVP ENSG00000013364|ENST00000357402|MVP ENSG00000013364|ENST00000357402|MVP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.20733642578125 3 324.206315 969.597115 2.1137 0.00068529 -0.17727 -5.7473E-05 1.9365 0.00062782 324.2064087223565 14.387 0.13869 14.694 14.593 14.732 0.3069 7 5 2 0 0 0 0.20384 1 6515 6515 21.537 10.713 1 981050 25468 430 16431 16489 28982 28982 0.11110039576828967 QAKLKAQAL 9 Unmodified _QAKLKAQAL_ 0 0 0 ENSG00000013364|ENST00000357402|MVP ENSG00000013364|ENST00000357402|MVP ENSG00000013364|ENST00000357402|MVP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.20709228515625 3 324.206315 969.597115 2.2789 0.00073883 0.60958 0.00019763 2.8885 0.00093647 324.20649189944237 14.348 0.1261 14.996 14.944 15.07 0.6482 18 11 2 0 0 0 0.11001 1 6451 6451 27.629 6.0918 1 1576000 25469 430 16431 16489 28983 28983 0.11110039576828967 QAKLKAQAL 9 Unmodified _QAKLKAQAL_ 0 0 0 ENSG00000013364|ENST00000357402|MVP ENSG00000013364|ENST00000357402|MVP ENSG00000013364|ENST00000357402|MVP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.8074951171875 2 485.805834 969.597115 3.2851 0.0015959 -0.26347 -0.000128 3.0216 0.0014679 485.80568563319736 14.348 0.095364 14.996 14.96 15.055 0.6482 11 7 2 0 0 0 0.0023685 1 6460 6460 100.37 25.949 1 1425000 25470 430 16431 16489 28984 28984 0.11110039576828967 QAKSKQAIL 9 Unmodified _QAKSKQAIL_ 0 0 0 nc|ENSG00000107223|O60869-2|EDF1;nc|ENSG00000107223|O60869-3|EDF1;ENSG00000107223|ENST00000224073|EDF1 nc|ENSG00000107223|O60869-2|EDF1 nc|ENSG00000107223|O60869-2|EDF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 329.53875732421875 3 329.537953 985.59203 1.9325 0.00063684 0.29602 9.7551E-05 2.2285 0.00073439 329.53804100981756 13.457 0.29498 13.764 13.582 13.877 0.30727 68 22 4 0 0 0 0.10584 2 6069 6026;6069 31.268 6.2774 1 3025100 25471 1592 16432 16490 28985;28986 28986 0.09865735714231505 QAKSKQAIL 9 Unmodified _QAKSKQAIL_ 0 0 0 nc|ENSG00000107223|O60869-2|EDF1;nc|ENSG00000107223|O60869-3|EDF1;ENSG00000107223|ENST00000224073|EDF1 nc|ENSG00000107223|O60869-2|EDF1 nc|ENSG00000107223|O60869-2|EDF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.8050231933594 2 493.803291 985.59203 2.7466 0.0013563 0.50636 0.00025004 3.2529 0.0016063 493.8035206384452 13.459 0.24108 13.767 13.627 13.868 0.30727 44 17 3 0 0 0 0.0053299 2 6051 6051;6096 99.755 38.398 1 934930 25472 1592 16432 16490 28987;28988 28987 0.09865735714231505 QAKSKQAIL 9 Unmodified _QAKSKQAIL_ 0 0 0 nc|ENSG00000107223|O60869-2|EDF1;nc|ENSG00000107223|O60869-3|EDF1;ENSG00000107223|ENST00000224073|EDF1 nc|ENSG00000107223|O60869-2|EDF1 nc|ENSG00000107223|O60869-2|EDF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 329.5389099121094 3 329.537953 985.59203 2.4502 0.00080743 0.37521 0.00012365 2.8254 0.00093108 329.538032501813 13.017 0.34631 13.66 13.413 13.759 0.64272 29 12 4 0 0 0 0.063112 1 5832 5832 41.956 21.541 1 3873100 25473 1592 16432 16490 28989 28989 0.09865735714231505 QAKSKQAIL 9 Unmodified _QAKSKQAIL_ 0 0 0 nc|ENSG00000107223|O60869-2|EDF1;nc|ENSG00000107223|O60869-3|EDF1;ENSG00000107223|ENST00000224073|EDF1 nc|ENSG00000107223|O60869-2|EDF1 nc|ENSG00000107223|O60869-2|EDF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.8049011230469 2 493.803291 985.59203 3.4032 0.0016805 0.02067 1.0207E-05 3.4238 0.0016907 493.8031779774365 12.998 0.26137 13.64 13.48 13.742 0.64272 22 8 4 0 0 0 0.0026238 1 5833 5833 118.07 46.935 1 3144700 25474 1592 16432 16490 28990 28990 0.09865735714231505 QAKSKQAIL 9 Unmodified _QAKSKQAIL_ 0 0 0 nc|ENSG00000107223|O60869-2|EDF1;nc|ENSG00000107223|O60869-3|EDF1;ENSG00000107223|ENST00000224073|EDF1 nc|ENSG00000107223|O60869-2|EDF1 nc|ENSG00000107223|O60869-2|EDF1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 329.537953 985.59203 2.2608 0.00074501 0.031522 1.0388E-05 2.2923 0.0007554 329.5378967309562 13.928 0.13319 13.928 13.888 14.021 0 0.16504 -0.00017007 NaN 41.956 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 1040600 25475 1592 16432 16490 0.09865735714231505 QAKSKQAIL 9 Unmodified _QAKSKQAIL_ 0 0 0 nc|ENSG00000107223|O60869-2|EDF1;nc|ENSG00000107223|O60869-3|EDF1;ENSG00000107223|ENST00000224073|EDF1 nc|ENSG00000107223|O60869-2|EDF1 nc|ENSG00000107223|O60869-2|EDF1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 329.537953 985.59203 2.0723 0.00068289 -0.12009 -3.9575E-05 1.9522 0.00064331 329.53795595949083 13.456 0.20215 13.699 13.589 13.791 0.24346 -0.06356 -0.00031996 NaN 41.956 42 20 3 NaN NaN NaN NaN 0 NaN NaN 0 936540 25476 1592 16432 16490 0.09865735714231505 QAKVRKLEL 9 Unmodified _QAKVRKLEL_ 0 0 0 ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.2337646484375 3 362.232752 1083.67643 2.4247 0.00087832 -0.4332 -0.00015692 1.9915 0.0007214 362.2328346169186 17.766 0.47189 18.067 17.839 18.311 0.30158 119 37 4 0 0 0 0.38625 1 8017 8017 14.405 5.4291 1 935780 25477 557 16433 16491 28991 28991 0.1379368653099391 QAKVRKLEL 9 Unmodified _QAKVRKLEL_ 0 0 0 ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.2333068847656 3 362.232752 1083.67643 2.5622 0.00092811 -0.44473 -0.0001611 2.1175 0.00076702 362.23255246344746 17.635 0.26089 18.296 18.161 18.422 0.66072 75 35 3 0 0 0 0.10584 1 7943 7943 31.268 16.02 1 1959300 25478 557 16433 16491 28992 28992 0.1379368653099391 QALAASGVH 9 Unmodified _QALAASGVH_ 0 0 0 ENST00000596700.5_1_19:50084718-50093643:+|nuORF;ENST00000597121.5_1_19:50086773-50093643:+|nuORF;ENSG00000126460|ENST00000246794|PRRG2 ENST00000596700.5_1_19:50084718-50093643:+|nuORF ENST00000596700.5_1_19:50084718-50093643:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 427.2313537597656 2 427.229959 852.445365 3.1145 0.0013306 -0.075239 -3.2145E-05 3.0393 0.0012985 427.2299097138186 14.436 0.27369 15.084 14.973 15.246 0.64819 40 26 2 0 0 0 0.76984 1 6505 6505 7.9102 0.62092 1 1094100 25479 2454 16434 16492 28993 28993 0.013240585491416823 QALAASGVH 9 Unmodified _QALAASGVH_ 0 0 0 ENST00000596700.5_1_19:50084718-50093643:+|nuORF;ENST00000597121.5_1_19:50086773-50093643:+|nuORF;ENSG00000126460|ENST00000246794|PRRG2 ENST00000596700.5_1_19:50084718-50093643:+|nuORF ENST00000596700.5_1_19:50084718-50093643:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 427.229959 852.445365 2.6808 0.0011453 0.10582 4.521E-05 2.7866 0.0011905 427.23000332534383 14.448 0.38209 14.755 14.576 14.958 0.3069 -0.16447 7.2427E-05 NaN 7.9102 37 22 3 NaN NaN NaN NaN 0 NaN NaN 0 625960 25480 2454 16434 16492 0.013240585491416823 QALHHFVSLF 10 Unmodified _QALHHFVSLF_ 0 0 0 ENST00000229405.8_1_6:35262493-35262685:+|nuORF ENST00000229405.8_1_6:35262493-35262685:+|nuORF ENST00000229405.8_1_6:35262493-35262685:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 599.8233032226562 2 599.822015 1197.62948 NaN NaN NaN NaN NaN NaN NaN 53.687 1 53.687 53.187 54.187 0 0 0 0 1.0003 1 24610 24610 1.4819 0 1 25481 6439 16435 16493 28994 28994 0.03856826979858852 QALQKQAL 8 Unmodified _QALQKQAL_ 0 0 0 ENSG00000123689|ENST00000367029|G0S2 ENSG00000123689|ENST00000367029|G0S2 ENSG00000123689|ENST00000367029|G0S2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.2706298828125 2 450.269084 898.523616 2.9273 0.0013181 0.62624 0.00028198 3.5536 0.0016001 450.2692718837204 20.528 0.29218 20.528 20.389 20.681 0 59 30 3 0 0 0 0.23254 2 9190 9147;9190 40.449 15.775 1 290640 25482 2325 16436 16494 28995;28996 28996 0.07029491134380805 QALQKQAL 8 Unmodified _QALQKQAL_ 0 0 0 ENSG00000123689|ENST00000367029|G0S2 ENSG00000123689|ENST00000367029|G0S2 ENSG00000123689|ENST00000367029|G0S2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.27001953125 2 450.269084 898.523616 NaN NaN NaN NaN NaN NaN NaN 19.937 1 20.229 19.729 20.729 0.29239 0 0 0 1.6025E-05 1 9074 9074 117.6 35.986 1 25483 2325 16436 16494 28997 28997 0.07029491134380805 QALQKQAL 8 Unmodified _QALQKQAL_ 0 0 0 ENSG00000123689|ENST00000367029|G0S2 ENSG00000123689|ENST00000367029|G0S2 ENSG00000123689|ENST00000367029|G0S2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.2707214355469 2 450.269084 898.523616 3.2397 0.0014588 0.28262 0.00012725 3.5224 0.001586 450.26910620358893 19.565 0.24291 20.223 20.117 20.36 0.65829 45 17 4 0 0 0 0.0081859 1 8873 8873 123.1 26.811 1 1432200 25484 2325 16436 16494 28998 28998 0.07029491134380805 QAPGHSLPAFL 11 Unmodified _QAPGHSLPAFL_ 0 0 0 ENST00000594582.1_1_19:49218521-49220230:-|nuORF ENST00000594582.1_1_19:49218521-49220230:-|nuORF ENST00000594582.1_1_19:49218521-49220230:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.8619384765625 3 379.873224 1136.59784 2.8048 0.0010655 0.27112 0.00010299 3.0759 0.0011685 379.873286543147 26.559 0.51155 26.824 26.608 27.119 0.26489 78 35 3 0 0 0 0.74596 1 12120 12120 9.2438 9.2438 1 475070 25485 9265 16437 16495 28999 28999 0.035008342259061465 QAPHALRISE 10 Unmodified _QAPHALRISE_ 0 0 0 ENST00000525768.5_1_11:65628193-65628496:+|nuORF;ENST00000308110.8_1_11:65628088-65628496:+|nuORF ENST00000525768.5_1_11:65628193-65628496:+|nuORF ENST00000525768.5_1_11:65628193-65628496:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.3096923828125 2 561.306729 1120.59891 NaN NaN NaN NaN NaN NaN NaN 48.241 1 49.071 48.571 49.571 0.82915 0 0 0 0.95221 1 21976 21976 13.042 0.51092 1 25486 6852 16438 16496 29000 29000 0.04343048594773791 QAPPRISI 8 Unmodified _QAPPRISI_ 0 0 0 ENSG00000116544|ENST00000373347|DLGAP3 ENSG00000116544|ENST00000373347|DLGAP3 ENSG00000116544|ENST00000373347|DLGAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.2648620605469 2 441.263802 880.513051 2.7841 0.0012285 4.3641 0.0019257 7.1482 0.0031542 441.26382090055205 38.122 0.25492 38.386 38.281 38.536 0.26408 13 7 3 0 0 0 0.17174 1 17371 17371 46.021 0 1 391900 25487 2032 16439 16497 29001 29001 0.06801508479941276 QAPPRISI 8 Unmodified _QAPPRISI_ 0 0 0 ENSG00000116544|ENST00000373347|DLGAP3 ENSG00000116544|ENST00000373347|DLGAP3 ENSG00000116544|ENST00000373347|DLGAP3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 441.263802 880.513051 3.0125 0.0013293 4.0375 0.0017816 7.05 0.0031109 441.2635970142271 37.488 0.35841 38.12 38.029 38.388 0.63232 -0.133 -8.6508E-05 NaN 46.021 25 11 3 NaN NaN NaN NaN 0 NaN NaN 0 352080 25488 2032 16439 16497 0.06801508479941276 QAQADRVSL 9 Unmodified _QAQADRVSL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000484378.1_1_6:31239370-31239848:-|nuORF;ENST00000487245.5_1_6:31239370-31239763:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.2660217285156 2 494.26453 986.514508 3.2154 0.0015893 -0.13516 -6.6807E-05 3.0803 0.0015225 494.26456274913085 26.527 0.26098 26.791 26.652 26.913 0.26489 32 18 2 0 0 0 0.084899 1 12056 12056 36.506 9.6225 1 345970 25489 6014 16440 16498 29002 29002 0.020710977780368012 QAQADRVSL 9 Unmodified _QAQADRVSL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000484378.1_1_6:31239370-31239848:-|nuORF;ENST00000487245.5_1_6:31239370-31239763:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.26611328125 2 494.26453 986.514508 3.1104 0.0015373 1.0839 0.00053573 4.1942 0.0020731 494.26521948874137 26.154 0.30117 26.779 26.609 26.91 0.62505 30 19 2 0 0 0 0.049036 2 11972 11972;12024 47.594 9.6204 1 349490 25490 6014 16440 16498 29003;29004 29003 0.020710977780368012 QAQADRVSL 9 Unmodified _QAQADRVSL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000484378.1_1_6:31239370-31239848:-|nuORF;ENST00000487245.5_1_6:31239370-31239763:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 494.26453 986.514508 3.0133 0.0014894 0.69916 0.00034557 3.7124 0.0018349 494.26504897469516 25.757 0.18609 26.52 26.447 26.633 0.76356 -0.17666 0.00021589 NaN 47.594 13 10 2 NaN NaN NaN NaN 0 NaN NaN 0 221080 25491 6014 16440 16498 0.020710977780368012 QAQKDELIL 9 Unmodified _QAQKDELIL_ 0 0 0 ENSG00000163682|ENST00000295955|RPL9;ENST00000439124.1_1_6:64325734-64326112:-|nuORF;ENST00000475906.1_1_14:35732014-35732239:+|nuORF;ENST00000464118.2_1_19:30447279-30447516:-|nuORF;ENST00000511643.5_1_4:39456165-39456631:-|nuORF ENSG00000163682|ENST00000295955|RPL9 ENSG00000163682|ENST00000295955|RPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.2996826171875 2 529.298039 1056.58152 2.9651 0.0015694 -0.010728 -5.6781E-06 2.9544 0.0015637 529.2978518687017 46.461 0.25003 46.461 46.37 46.62 0 18 11 2 0 0 0 0.0016284 1 21274 21274 108 33.068 1 1504200 25492 4241 16441 16499 29005 29005 0.055497082691545074 QAQKDELIL 9 Unmodified _QAQKDELIL_ 0 0 0 ENSG00000163682|ENST00000295955|RPL9;ENST00000439124.1_1_6:64325734-64326112:-|nuORF;ENST00000475906.1_1_14:35732014-35732239:+|nuORF;ENST00000464118.2_1_19:30447279-30447516:-|nuORF;ENST00000511643.5_1_4:39456165-39456631:-|nuORF ENSG00000163682|ENST00000295955|RPL9 ENSG00000163682|ENST00000295955|RPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.2996215820312 2 529.298039 1056.58152 3.0902 0.0016357 0.11141 5.8971E-05 3.2016 0.0016946 529.2978123342597 45.426 0.34761 46.253 46.093 46.441 0.82621 37 19 3 0 0 0 0.0012997 2 20675 20675;20719 120.45 49.317 1 1174800 25493 4241 16441 16499 29006;29007 29006 0.055497082691545074 QAQKDELIL 9 Unmodified _QAQKDELIL_ 0 0 0 ENSG00000163682|ENST00000295955|RPL9;ENST00000439124.1_1_6:64325734-64326112:-|nuORF;ENST00000475906.1_1_14:35732014-35732239:+|nuORF;ENST00000464118.2_1_19:30447279-30447516:-|nuORF;ENST00000511643.5_1_4:39456165-39456631:-|nuORF ENSG00000163682|ENST00000295955|RPL9 ENSG00000163682|ENST00000295955|RPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.299560546875 2 529.298039 1056.58152 3.3108 0.0017524 -0.30584 -0.00016188 3.0049 0.0015905 529.2978481322548 46.347 0.36835 46.613 46.387 46.756 0.26561 33 14 3 0 0 0 0.00097604 2 21184 21129;21184 126.57 50.805 1 1772400 25494 4241 16441 16499 29008;29009 29009 0.055497082691545074 QAQKDELIL 9 Unmodified _QAQKDELIL_ 0 0 0 ENSG00000163682|ENST00000295955|RPL9;ENST00000439124.1_1_6:64325734-64326112:-|nuORF;ENST00000475906.1_1_14:35732014-35732239:+|nuORF;ENST00000464118.2_1_19:30447279-30447516:-|nuORF;ENST00000511643.5_1_4:39456165-39456631:-|nuORF ENSG00000163682|ENST00000295955|RPL9 ENSG00000163682|ENST00000295955|RPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.299560546875 2 529.298039 1056.58152 3.5502 0.0018791 -0.14376 -7.6094E-05 3.4064 0.001803 529.2979637318678 45.704 0.43222 46.355 46.135 46.567 0.65104 33 15 3 0 0 0 0.0014219 2 20965 20905;20965 111.29 39.365 1 1774200 25495 4241 16441 16499 29010;29011 29011 0.055497082691545074 QARLKMRL 8 Unmodified _QARLKMRL_ 0 0 0 ENSG00000068079|ENST00000415816|IFI35;nc|ENSG00000068079|P80217-2|IFI35;ENST00000396722.2_1_17:41158964-41164381:+|nuORF;ENST00000246911.6_1_17:41158964-41165399:+|nuORF ENSG00000068079|ENST00000415816|IFI35 ENSG00000068079|ENST00000415816|IFI35 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.21209716796875 3 339.211294 1014.61205 2.5223 0.0008556 -0.068648 -2.3286E-05 2.4537 0.00083231 339.21140432884675 19.817 0.33788 20.475 20.301 20.639 0.65829 77 26 4 0 0 0 0.0095787 1 9003 9003 103.75 35.668 1 1244600 25496 732 16442 16500 29012 29012 0.10533208173183084 QARRVTGGL 9 Unmodified _QARRVTGGL_ 0 0 0 ENSG00000151150|ENST00000280772|ANK3;nc|ENSG00000151150|Q12955-6|ANK3;nc|ENSG00000151150|Q12955-7|ANK3;nc|ENSG00000151150|Q12955-5|ANK3;nc|ENSG00000151150|Q12955-4|ANK3 ENSG00000151150|ENST00000280772|ANK3;nc|ENSG00000151150|Q12955-4|ANK3 ENSG00000151150|ENST00000280772|ANK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 319.8585510253906 3 319.857797 956.551562 2.1294 0.0006811 -0.178 -5.6934E-05 1.9514 0.00062417 319.8578760861016 18.238 0.2235 18.54 18.417 18.641 0.30159 27 22 2 0 0 0 0.89849 1 8248 8248 5.7319 1.4026 1 175720 25497 3693;9688 16443 16501 29013 29013 0.07154814114483088 QARWLTPAI 9 Unmodified _QARWLTPAI_ 0 0 0 AluSx1_dup33409|chr5:157026440-157026725:+|11.817070898255984|0.3057540556640755|5.27|534.0|1|1|sense AluSx1_dup33409|chr5:157026440-157026725:+|11.817070898255984|0.3057540556640755|5.27|534.0|1|1|sense AluSx1_dup33409|chr5:157026440-157026725:+|11.817070898255984|0.3057540556640755|5.27|534.0|1|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.3048706054688 2 528.303458 1054.59236 NaN NaN NaN NaN NaN NaN NaN 44.042 1 44.042 43.542 44.542 0 0 0 0 0.82031 1 20099 20099 8.5933 0.68312 1 25498 45 16444 16502 29014 29014 0.0672515543406007 QASLAWPR 8 Unmodified _QASLAWPR_ 0 0 0 REV__ENST00000469070.1_1_3:119814129-119817604:+|nuORF REV__ENST00000469070.1_1_3:119814129-119817604:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.7570495605469 2 464.753601 927.49265 2.6858 0.0012482 3.6737 0.0017074 6.3595 0.0029556 464.75526050934513 22.511 0.028126 22.792 22.775 22.803 0.28085 6 4 2 0 0 0 0.083961 1 10169 10169 28.487 4.4663 1 1659000 + 25499 16574 16445 16503 29015 29015 0.026003378201380656 QASMGKINR 9 Unmodified _QASMGKINR_ 0 0 0 REV__ENST00000526728.5_1_11:36383717-36415486:+|nuORF REV__ENST00000526728.5_1_11:36383717-36415486:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.1826171875 3 335.515043 1003.5233 NaN NaN NaN NaN NaN NaN NaN 25.078 1 25.707 25.207 26.207 0.62915 0 0 0 0.42757 1 11484 11484 15.248 0 1 + 25500 17096 16446 16504 29016 29016 0.02167748142869641 QAVGLVEHRK 10 Unmodified _QAVGLVEHRK_ 0 0 0 nc|ENSG00000105176|O94763-2|URI1;nc|ENSG00000105176|O94763-4|URI1;nc|ENSG00000105176|O94763-3|URI1;ENSG00000105176|ENST00000392271|URI1 nc|ENSG00000105176|O94763-2|URI1 nc|ENSG00000105176|O94763-2|URI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.869140625 2 568.830372 1135.64619 NaN NaN NaN NaN NaN NaN NaN 95.284 1 95.901 95.401 96.401 0.61736 0 0 0 1.0006 1 43820 43820 1.1933 0.59184 1 25501 1474 16447 16505 29017 29017 0.08379327865782216 QAVRQDPLL 9 Unmodified _QAVRQDPLL_ 0 0 0 nc|ENSG00000115234|Q15036-2|SNX17;ENSG00000115234|ENST00000233575|SNX17 nc|ENSG00000115234|Q15036-2|SNX17 nc|ENSG00000115234|Q15036-2|SNX17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.300048828125 2 520.298373 1038.58219 3.5541 0.0018492 0.1443 7.5081E-05 3.6984 0.0019243 520.2984731811795 37.371 0.34203 37.632 37.447 37.789 0.26083 25 10 3 0 0 0 0.004576 1 17046 17046 92.653 40.385 1 656130 25502 1953 16448 16506 29018 29018 0.06444547708861137 QAVRQDPLL 9 Unmodified _QAVRQDPLL_ 0 0 0 nc|ENSG00000115234|Q15036-2|SNX17;ENSG00000115234|ENST00000233575|SNX17 nc|ENSG00000115234|Q15036-2|SNX17 nc|ENSG00000115234|Q15036-2|SNX17 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 520.298373 1038.58219 3.279 0.0017061 2.1203 0.0011032 5.3993 0.0028093 520.3003013499956 37.495 0.32058 37.495 37.346 37.667 0 0.027272 0.0020907 NaN 92.653 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 388790 25503 1953 16448 16506 0.06444547708861137 QAVRQDPLL 9 Unmodified _QAVRQDPLL_ 0 0 0 nc|ENSG00000115234|Q15036-2|SNX17;ENSG00000115234|ENST00000233575|SNX17 nc|ENSG00000115234|Q15036-2|SNX17 nc|ENSG00000115234|Q15036-2|SNX17 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 520.298373 1038.58219 3.4811 0.0018112 0.35082 0.00018253 3.8319 0.0019937 520.29872124496 36.583 0.28312 37.376 37.197 37.481 0.79342 -0.091551 0.00024939 NaN 92.653 24 14 2 NaN NaN NaN NaN 0 NaN NaN 0 232520 25504 1953 16448 16506 0.06444547708861137 QAVRQDPLL 9 Unmodified _QAVRQDPLL_ 0 0 0 nc|ENSG00000115234|Q15036-2|SNX17;ENSG00000115234|ENST00000233575|SNX17 nc|ENSG00000115234|Q15036-2|SNX17 nc|ENSG00000115234|Q15036-2|SNX17 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 520.298373 1038.58219 3.442 0.0017909 -0.089032 -4.6323E-05 3.353 0.0017445 520.2982521076975 36.738 0.37775 37.368 37.167 37.545 0.62999 -0.099894 -0.00020831 NaN 92.653 39 16 3 NaN NaN NaN NaN 0 NaN NaN 0 467130 25505 1953 16448 16506 0.06444547708861137 QCCLIQRF 8 Unmodified _QCCLIQRF_ 0 0 0 REV__ENSG00000198121|ENST00000683809|LPAR1 REV__ENSG00000198121|ENST00000683809|LPAR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.75006103515625 2 505.749147 1009.48374 3.1169 0.0015764 -0.95237 -0.00048166 2.1645 0.0010947 505.7485938636113 14.41 0.35231 14.637 14.529 14.881 0.22622 75 27 4 0 0 0 0.72814 1 6399 6399 2.3027 0 1 2458900 + 25506 14321 16449 16507 29019 29019 -0.020620951322030123 QCCLIQRF 8 Unmodified _QCCLIQRF_ 0 0 0 REV__ENSG00000198121|ENST00000683809|LPAR1 REV__ENSG00000198121|ENST00000683809|LPAR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.75079345703125 2 505.749147 1009.48374 2.9962 0.0015153 -0.90311 -0.00045675 2.0931 0.0010586 505.74859604607906 14.255 0.2402 14.562 14.492 14.732 0.3069 25 13 3 0 0 0 0.72814 1 6496 6496 2.3027 0.4585 1 6290100 + 25507 14321 16449 16507 29020 29020 -0.020620951322030123 QCDDDEDDESE 11 Unmodified _QCDDDEDDESE_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL;REV__nc|ENSG00000062650|Q7Z5K2-3|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 650.1932983398438 2 650.193701 1298.37285 NaN NaN NaN NaN NaN NaN NaN 81.491 1 81.739 81.239 82.239 0.24803 0 0 0 1.0082 1 37519 37519 0 0 1 + 25508 17861;17862 16450 16508 29021 29021 -0.2644019767858481 QCECNNNC 8 Unmodified _QCECNNNC_ 0 0 0 REV__ENST00000555210.1_1_15:92669436-92694191:+|nuORF REV__ENST00000555210.1_1_15:92669436-92694191:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.23773193359375 2 464.141312 926.268071 NaN NaN NaN NaN NaN NaN NaN 49.541 1 50.363 49.863 50.863 0.82285 0 0 0 0.99035 1 22567 22567 0.6015 0.076735 1 + 25509 13706 16451 16509 29022 29022 -0.19801224379182258 QCECSAEGAHI 11 Unmodified _QCECSAEGAHI_ 0 0 0 REV__ENSG00000160961|ENST00000292530|ZNF333 REV__ENSG00000160961|ENST00000292530|ZNF333 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.7718505859375 2 574.228973 1146.44339 NaN NaN NaN NaN NaN NaN NaN 43.766 1 44.58 44.08 45.08 0.81444 0 0 0 1.0059 1 19922 19922 2.9952 0.69251 1 + 25510 12901 16452 16510 29023 29023 -0.12397106313278528 QCEECQCWQH 10 Unmodified _QCEECQCWQH_ 0 0 0 ENSG00000025293|ENST00000374012|PHF20 ENSG00000025293|ENST00000374012|PHF20 ENSG00000025293|ENST00000374012|PHF20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.2269897460938 2 647.225907 1292.43726 3.3509 0.0021688 -1.0302 -0.00066678 2.3207 0.001502 647.2245531547712 102.61 0.096016 102.61 102.57 102.66 0 6 2 3 0 0 0 0.93713 1 56652 56652 1.4819 1.0236 1 1401000 25511 477 16453 16511 29024 29024 -0.19725947816459666 QCEECQCWQH 10 Unmodified _QCEECQCWQH_ 0 0 0 ENSG00000025293|ENST00000374012|PHF20 ENSG00000025293|ENST00000374012|PHF20 ENSG00000025293|ENST00000374012|PHF20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 647.230224609375 2 647.225907 1292.43726 4.1414 0.0026804 -0.6598 -0.00042704 3.4816 0.0022534 647.2250381977381 102.52 0.098755 103.12 103.04 103.14 0.59759 6 2 3 0 0 0 0.93713 1 47453 47453 1.4819 0.8804 1 1286800 25512 477 16453 16511 29025 29025 -0.19725947816459666 QCEECQCWQH 10 Unmodified _QCEECQCWQH_ 0 0 0 ENSG00000025293|ENST00000374012|PHF20 ENSG00000025293|ENST00000374012|PHF20 ENSG00000025293|ENST00000374012|PHF20 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 647.225907 1292.43726 2.3629 0.0015293 0.79891 0.00051708 3.1618 0.0020464 647.2256117438936 102.55 0.081543 102.61 102.55 102.63 0.055099 0.05564 0.0031195 NaN 1.4819 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 1339900 25513 477 16453 16511 -0.19725947816459666 QCEECQCWQH 10 Unmodified _QCEECQCWQH_ 0 0 0 ENSG00000025293|ENST00000374012|PHF20 ENSG00000025293|ENST00000374012|PHF20 ENSG00000025293|ENST00000374012|PHF20 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 647.225907 1292.43726 4.6084 0.0029827 -2.267 -0.0014672 2.3414 0.0015154 647.2239470783373 102.07 0.090912 102.39 102.32 102.41 0.31737 -0.16397 -0.00084911 NaN 1.4819 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 2327100 25514 477 16453 16511 -0.19725947816459666 QCEECQCWQH 10 Unmodified _QCEECQCWQH_ 0 0 0 ENSG00000025293|ENST00000374012|PHF20 ENSG00000025293|ENST00000374012|PHF20 ENSG00000025293|ENST00000374012|PHF20 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 647.225907 1292.43726 4.1409 0.0026801 -1.8389 -0.0011902 2.302 0.0014899 647.2243113656583 102 0.072815 102.6 102.56 102.63 0.59759 0.04823 -0.00029493 NaN 1.4819 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 484520 25515 477 16453 16511 -0.19725947816459666 QCGQFIRIAV 10 Unmodified _QCGQFIRIAV_ 0 0 0 REV__ENSG00000132170|ENST00000651735|PPARG REV__ENSG00000132170|ENST00000651735|PPARG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 378.876953125 3 378.874459 1133.60155 2.8454 0.001078 1.8625 0.00070565 4.7079 0.0017837 378.87562921051546 29.126 0.40957 29.386 29.164 29.573 0.2602 52 27 3 0 0 0 0.84738 1 13296 13296 6.1918 0.89496 1 578530 + 25516 11880 16454 16512 29026 29026 0.04009180728098727 QCWWDTCKRYR 11 Unmodified _QCWWDTCKRYR_ 0 0 0 REV__ENSG00000140718|ENST00000471389|FTO REV__ENSG00000140718|ENST00000471389|FTO MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 772.844970703125 2 772.847913 1543.68127 NaN NaN NaN NaN NaN NaN NaN 34.291 1 35.08 34.58 35.58 0.78921 0 0 0 1.008 1 15528 15528 0.30703 0.03801 1 + 25517 12263 16455 16513 29027 29027 -0.06882120660225155 QCYQEDHS 8 Unmodified _QCYQEDHS_ 0 0 0 REV__nc|ENSG00000134249|Q9UKF2-2|ADAM30 REV__nc|ENSG00000134249|Q9UKF2-2|ADAM30 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.9168701171875 2 505.187631 1008.36071 NaN NaN NaN NaN NaN NaN NaN 76.884 1 77.508 77.008 78.008 0.62397 0 0 0 0.99035 1 37279 37279 2.5775 0 1 + 25518 11958 16456 16514 29028 29028 -0.14313680049781397 QDDCGDEEDE 10 Unmodified _QDDCGDEEDE_ 0 0 0 ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.67529296875 2 577.674947 1153.33534 NaN NaN NaN NaN NaN NaN NaN 42.444 1 42.714 42.214 43.214 0.27021 0 0 0 1.0015 1 19356 19356 0.40072 0 1 25519 4647 16457 16515 29029 29029 -0.23519244153544605 QDDDDEDDD 9 Unmodified _QDDDDEDDD_ 0 0 0 REV__nc|ENSG00000214558|P0DQW0|ZC3H11C REV__nc|ENSG00000214558|P0DQW0|ZC3H11C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.17431640625 2 541.157445 1080.30034 NaN NaN NaN NaN NaN NaN NaN 67.14 1 67.14 66.64 67.64 0 0 0 0 0.91452 1 32140 32140 0 0 1 + 25520 10384 16458 16516 29030 29030 -0.23660163689851288 QDDDEEEEEED 11 Unmodified _QDDDEEEEEED_ 0 0 0 REV__ENSG00000196497|ENST00000354464|IPO4 REV__ENSG00000196497|ENST00000354464|IPO4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 691.2235717773438 2 691.223513 1380.43247 NaN NaN NaN NaN NaN NaN NaN 72.915 1 73.614 73.114 74.114 0.69881 0 0 0 1.008 1 35130 35130 0.35063 0 1 + 25521 14221 16459 16517 29031 29031 -0.24252603463537525 QDHCDNEGDC 10 Unmodified _QDHCDNEGDC_ 0 0 0 REV__ENSG00000123384|ENST00000243077|LRP1 REV__ENSG00000123384|ENST00000243077|LRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.1752319335938 2 568.174395 1134.33424 NaN NaN NaN NaN NaN NaN NaN 99.749 1 100.35 99.846 100.85 0.59717 0 0 0 1.0015 1 46150 46150 0.45834 0 1 + 25522 11615 16460 16518 29032 29032 -0.2275573700339919 QDKKRVHFRFD 11 Unmodified _QDKKRVHFRFD_ 0 0 0 REV__ENSG00000151461|ENST00000357604|UPF2 REV__ENSG00000151461|ENST00000357604|UPF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.60003662109375 3 492.600386 1474.77933 NaN NaN NaN NaN NaN NaN NaN 94.635 1 94.635 94.135 95.135 0 0 0 0 0.92815 1 50813 50813 13.535 4.5587 1 + 25523 12614 16461 16519 29033 29033 0.060931472516358554 QDKYDFRKHFI 11 Unmodified _QDKYDFRKHFI_ 0 0 0 REV__ENSG00000138109|ENST00000260682|CYP2C9 REV__ENSG00000138109|ENST00000260682|CYP2C9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 749.1765747070312 2 748.885875 1495.7572 NaN NaN NaN NaN NaN NaN NaN 99.602 1 99.602 99.102 100.1 0 0 0 0 1.0044 1 54818 54818 4.897 0.36815 1 + 25524 12148 16462 16520 29034 29034 0.02914922783224938 QDLVSPPLL 9 Unmodified _QDLVSPPLL_ 0 0 0 REV__nc|ENSG00000126822|A1L390-2|PLEKHG3 REV__nc|ENSG00000126822|A1L390-2|PLEKHG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 490.9462585449219 2 491.2844 980.554247 NaN NaN NaN NaN NaN NaN NaN 75.053 1 75.311 74.811 75.811 0.25831 0 0 0 0.86044 1 34524 34524 7.2892 0 1 + 25525 11721 16463 16521 29035 29035 0.06319224728747486 QDMNHEYMYRY 11 Unmodified _QDMNHEYMYRY_ 0 0 0 nc|ENSG00000253188|A0A0A0MS04|TRBV6-7 nc|ENSG00000253188|A0A0A0MS04|TRBV6-7 nc|ENSG00000253188|A0A0A0MS04|TRBV6-7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 775.31298828125 2 775.313568 1548.61258 NaN NaN NaN NaN NaN NaN NaN 58.619 1 59.378 58.878 59.878 0.75894 0 0 0 1.008 1 26894 26894 0.35063 0 1 25526 9852 16464 16522 29036 29036 -0.1397782975056998 QDSVNVDAVI 10 Unmodified _QDSVNVDAVI_ 0 0 0 ENSG00000167393|ENST00000390665|PPP2R3B;ENST00000445792.7_1_X:305849-322301:-|nuORF ENSG00000167393|ENST00000390665|PPP2R3B ENSG00000167393|ENST00000390665|PPP2R3B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.2696533203125 2 530.269478 1058.5244 NaN NaN NaN NaN NaN NaN NaN 55.216 1 55.482 54.982 55.982 0.26543 0 0 0 0.99464 1 25247 25247 6.2058 0 1 25527 4548 16465 16523 29037 29037 -0.0025175900723297673 QDTPIKTEMS 10 Unmodified _QDTPIKTEMS_ 0 0 0 REV__ENSG00000103404|ENST00000219689|USP31 REV__ENSG00000103404|ENST00000219689|USP31 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1150.5523681640625 1 1149.54562 1148.53834 2.8018 0.0032208 0.51109 0.00058752 3.3129 0.0038083 1149.5456946984596 73.66 0.23547 74.325 74.218 74.453 0.6644 60 28 3 0 0 0 0.72019 1 33825 33825 12.241 2.8575 1 3254200 + 25528 10967 16466 16524 29038 29038 -0.029988495704628804 QDVPTQVSI 9 Unmodified _QDVPTQVSI_ 0 0 0 REV__nc|ENSG00000100241|O95248|SBF1 REV__nc|ENSG00000100241|O95248|SBF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.7627868652344 2 493.761289 985.508025 3.1147 0.0015379 0.36372 0.00017959 3.4784 0.0017175 493.7614216163306 50.417 0.41789 51.074 50.875 51.293 0.65735 46 20 3 0 0 0 0.027384 1 23010 23010 58.679 0 1 3449400 + 25529 10813 16467 16525 29039 29039 0.014691598266608707 QDWRQEKRRRK 11 Unmodified _QDWRQEKRRRK_ 0 0 0 REV__ENST00000574201.1_1_17:7217587-7218431:-|nuORF REV__ENST00000574201.1_1_17:7217587-7218431:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 793.4437866210938 2 793.442746 1584.87094 NaN NaN NaN NaN NaN NaN NaN 71.136 1 71.136 70.636 71.636 0 0 0 0 1.0079 1 34564 34564 1.1933 0.12188 1 + 25530 17464 16468 16526 29040 29040 0.10189830668787181 QDYRWWWRNFL 11 Unmodified _QDYRWWWRNFL_ 0 0 0 ENST00000479591.1_1_20:30749036-30753244:+|nuORF ENST00000479591.1_1_20:30749036-30753244:+|nuORF ENST00000479591.1_1_20:30749036-30753244:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 835.406005859375 2 835.404766 1668.79498 NaN NaN NaN NaN NaN NaN NaN 85.018 1 85.018 84.518 85.518 0 0 0 0 1.0082 1 43180 43180 0 0 1 25531 8265 16469 16527 29041 29041 -0.01266566231311117 QDYRWWWRNFL 11 Unmodified _QDYRWWWRNFL_ 0 0 0 ENST00000479591.1_1_20:30749036-30753244:+|nuORF ENST00000479591.1_1_20:30749036-30753244:+|nuORF ENST00000479591.1_1_20:30749036-30753244:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 835.4065551757812 2 835.404766 1668.79498 NaN NaN NaN NaN NaN NaN NaN 98.391 1 98.989 98.489 99.489 0.59885 0 0 0 1.0082 1 45357 45357 0 0 1 25532 8265 16469 16527 29042 29042 -0.01266566231311117 QDYTWEDNSDE 11 Unmodified _QDYTWEDNSDE_ 0 0 0 nc|ENSG00000103544|Q7Z3J2-2|VPS35L;ENSG00000103544|ENST00000417362|VPS35L nc|ENSG00000103544|Q7Z3J2-2|VPS35L nc|ENSG00000103544|Q7Z3J2-2|VPS35L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.84063720703125 3 467.840754 1400.50043 NaN NaN NaN NaN NaN NaN NaN 12.283 1 12.283 11.783 12.783 0 0 0 0 1.0082 1 5311 5311 0 0 1 25533 1407 16470 16528 29043 29043 -0.18379689022253842 QEEEEPEAGQ 10 Unmodified _QEEEEPEAGQ_ 0 0 0 ENST00000330938.7_1_21:46276158-46276212:-|nuORF ENST00000330938.7_1_21:46276158-46276212:-|nuORF ENST00000330938.7_1_21:46276158-46276212:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.2379150390625 2 573.23329 1144.45203 NaN NaN NaN NaN NaN NaN NaN 17.796 1 17.997 17.497 18.497 0.20057 0 0 0 0.95221 1 7887 7887 13.042 0.51092 1 25534 6985 16471 16529 29044 29044 -0.11442137871449631 QEEEKKKKKKK 11 Unmodified _QEEEKKKKKKK_ 0 0 0 TRHDE|p.F993Sfs*26|1|0.04|ENSG00000072657|chr12:72663096-72663096|T/-|frameshift_variant;ENSG00000072657|ENST00000261180|TRHDE TRHDE|p.F993Sfs*26|1|0.04|ENSG00000072657|chr12:72663096-72663096|T/-|frameshift_variant TRHDE|p.F993Sfs*26|1|0.04|ENSG00000072657|chr12:72663096-72663096|T/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 715.5076293945312 2 715.938108 1429.86166 4.1626 0.0029801 -0.34659 -0.00024814 3.816 0.002732 716.4405185294222 99.889 0.089867 100.49 100.46 100.55 0.59717 6 4 2 0 0 0 0.13295 1 46226 46226 0 0 1 1330800 25535 794 16472 16530 29045 29045 0.16392624539912504 QEEEREEEEEE 11 Unmodified _QEEEREEEEEE_ 0 0 0 ENSG00000143061|ENST00000369486|IGSF3;nc|ENSG00000143061|O75054-2|IGSF3 ENSG00000143061|ENST00000369486|IGSF3 ENSG00000143061|ENST00000369486|IGSF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 488.8596496582031 3 488.858473 1463.55359 NaN NaN NaN NaN NaN NaN NaN 12.247 1 12.247 11.747 12.747 0 0 0 0 1.0082 1 5298 5298 0 0 1 25536 3340 16473 16531 29046 29046 -0.15964356030212912 QEEKKKKRKEK 11 Unmodified _QEEKKKKRKEK_ 0 0 0 REV__ENSG00000131503|ENST00000360839|ANKHD1 REV__ENSG00000131503|ENST00000360839|ANKHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 729.940185546875 2 729.941182 1457.86781 2.3959 0.0017489 -2.0825 -0.0015201 0.31343 0.00022879 729.9373890890274 101.81 0.095886 101.87 101.81 101.91 0.057198 6 4 2 0 0 0 0.88721 1 55303 55303 2.9952 1.6657 1 1411500 + 25537 11860 16474 16532 29047 29047 0.15719142771467887 QEEKVRKKEKE 11 Unmodified _QEEKVRKKEKE_ 0 0 0 nc|ENSG00000089177|Q96L93-5|KIF16B;nc|ENSG00000089177|Q96L93-6|KIF16B;nc|ENSG00000089177|Q96L93-4|KIF16B;ENSG00000089177|ENST00000354981|KIF16B;nc|ENSG00000089177|Q96L93-2|KIF16B nc|ENSG00000089177|Q96L93-5|KIF16B nc|ENSG00000089177|Q96L93-5|KIF16B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 715.5493774414062 2 715.901722 1429.78889 NaN NaN NaN NaN NaN NaN NaN 99.428 1 99.428 98.928 99.928 0 0 0 0 1.0044 1 54680 54680 4.897 1.3005 1 25538 1037 16475 16533 29048 29048 0.09118870746510765 QEEMWKQYYD 10 Unmodified _QEEMWKQYYD_ 0 0 0 REV__ENSG00000124562|ENST00000244520|SNRPC REV__ENSG00000124562|ENST00000244520|SNRPC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 710.1699829101562 2 710.29791 1418.58127 NaN NaN NaN NaN NaN NaN NaN 56.91 1 56.91 56.41 57.41 0 0 0 0 1.0003 1 26211 26211 1.4819 0 1 + 25539 11658 16476 16534 29049 29049 -0.111280795130142 QEERCEPAWSG 11 Unmodified _QEERCEPAWSG_ 0 0 0 REV__nc|ENSG00000197558|A2VEC9|SSPOP REV__nc|ENSG00000197558|A2VEC9|SSPOP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 646.1436767578125 2 646.272226 1290.5299 NaN NaN NaN NaN NaN NaN NaN 101.29 1 101.29 100.79 101.79 0 0 0 0 1.0061 1 55965 55965 2.7352 1.0826 1 + 25540 18096 16477 16535 29050 29050 -0.10374403487071504 QEILKDKKLIK 11 Unmodified _QEILKDKKLIK_ 0 0 0 nc|ENSG00000175356|Q9NQ36-3|SCUBE2;nc|ENSG00000175356|Q9NQ36-2|SCUBE2;nc|ENSG00000175356|Q9NQ36|SCUBE2;ENSG00000175356|ENST00000649792|SCUBE2;ENST00000518447.1_1_11:9042594-9043530:-|nuORF;ENST00000524317.1_1_11:9042594-9047435:-|nuORF;ENSG00000159307|ENST00000360835|SCUBE1;ENSG00000146197|ENST00000274938|SCUBE3;nc|ENSG00000146197|Q8IX30-2|SCUBE3 nc|ENSG00000175356|Q9NQ36-3|SCUBE2 nc|ENSG00000175356|Q9NQ36-3|SCUBE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 678.437255859375 2 678.43467 1354.85479 NaN NaN NaN NaN NaN NaN NaN 98.786 1 98.786 98.286 99.286 0 0 0 0 0.94174 1 54156 54156 12.241 7.7118 1 25541 5029 16478 16536 29051 29051 0.19155311659369545 QEIQQYISEYM 11 Unmodified _QEIQQYISEYM_ 0 0 0 nc|ENSG00000065618|Q9UMD9-2|COL17A1;ENSG00000065618|ENST00000648076|COL17A1 nc|ENSG00000065618|Q9UMD9-2|COL17A1 nc|ENSG00000065618|Q9UMD9-2|COL17A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 715.99462890625 2 716.326667 1430.63878 NaN NaN NaN NaN NaN NaN NaN 101.39 1 101.45 100.95 101.95 0.057198 0 0 0 0.98464 1 55057 55057 8.1555 0 1 25542 695 16479 16537 29052 29052 -0.05931237307436277 QELALLLL 8 Unmodified _QELALLLL_ 0 0 0 nc|ENSG00000133731|P29218-2|IMPA1 nc|ENSG00000133731|P29218-2|IMPA1 nc|ENSG00000133731|P29218-2|IMPA1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.5369873046875 3 304.863666 911.569169 2.2634 0.00069003 1.7819 0.00054322 4.0453 0.0012333 304.8640865043062 38.059 0.38355 38.854 38.752 39.136 0.79552 15 13 2 0 0 0 0.1432 1 17280 17280 0.35063 0 1 229400 25543 9648 16480 16538 29053 29053 0.10984716596760791 QELENIRRRKQ 11 Unmodified _QELENIRRRKQ_ 0 0 0 nc|ENSG00000108669|Q15438-2|CYTH1;ENSG00000108669|ENST00000446868|CYTH1;ENST00000592497.1_1_17:76705671-76778305:-|nuORF;ENST00000591095.1_1_17:76705671-76732801:-|nuORF nc|ENSG00000108669|Q15438-2|CYTH1 nc|ENSG00000108669|Q15438-2|CYTH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 735.5389404296875 2 735.418405 1468.82226 NaN NaN NaN NaN NaN NaN NaN 105.49 1 105.49 104.99 105.99 0 0 0 0 1.0063 1 57966 57966 2.4985 0.21571 1 25544 1644 16481 16539 29054 29054 0.10659917309044431 QELHELRLQVP 11 Unmodified _QELHELRLQVP_ 0 0 0 REV__ENSG00000047578|ENST00000261588|KATNIP REV__ENSG00000047578|ENST00000261588|KATNIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 681.3777465820312 2 681.380426 1360.7463 NaN NaN NaN NaN NaN NaN NaN 98.853 1 98.919 98.419 99.419 0.066025 0 0 0 0.89058 1 53268 53268 17.113 1.8644 1 + 25545 10337 16482 16540 29055 29055 0.08035520408930097 QELRHLKIKVE 11 Unmodified _QELRHLKIKVE_ 0 0 0 PPFIBP2|p.N293Kfs*7|1|0.36|ENSG00000166387|chr11:7628335-7628338|AATG/-|frameshift_variant;nc|ENSG00000166387|Q8ND30-3|PPFIBP2;nc|ENSG00000166387|Q8ND30-2|PPFIBP2;ENSG00000166387|ENST00000299492|PPFIBP2 PPFIBP2|p.N293Kfs*7|1|0.36|ENSG00000166387|chr11:7628335-7628338|AATG/-|frameshift_variant PPFIBP2|p.N293Kfs*7|1|0.36|ENSG00000166387|chr11:7628335-7628338|AATG/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 696.9193115234375 2 696.919718 1391.82488 NaN NaN NaN NaN NaN NaN NaN 107.31 1 107.36 106.86 107.86 0.045425 0 0 0 1.0041 1 58014 58014 5.2969 2.3016 1 25546 4479 16483 16541 29056 29056 0.1446437271401919 QELRRKSKLVE 11 Unmodified _QELRRKSKLVE_ 0 0 0 ENSG00000064835|ENST00000350375|POU1F1;nc|ENSG00000064835|P28069-2|POU1F1 ENSG00000064835|ENST00000350375|POU1F1 ENSG00000064835|ENST00000350375|POU1F1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 693.1364135742188 2 693.4148 1384.81505 NaN NaN NaN NaN NaN NaN NaN 98.866 1 98.932 98.432 99.432 0.066025 0 0 0 0.86696 1 53277 53277 19.362 3.2128 1 25547 679 16484 16542 29057 29057 0.13803184708649496 QEMRQKEYQM 10 Unmodified _QEMRQKEYQM_ 0 0 0 REV__nc|ENSG00000110841|Q86W92-3|PPFIBP1 REV__nc|ENSG00000110841|Q86W92-3|PPFIBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 685.8202514648438 2 685.813204 1369.61186 NaN NaN NaN NaN NaN NaN NaN 105.04 1 105.09 104.59 105.59 0.050888 0 0 0 0.99812 1 56826 56826 3.2813 0 1 + 25548 17890 16485 16543 29058 29058 -0.05816624399608372 QEMWAVPKRWM 11 Unmodified _QEMWAVPKRWM_ 0 0 0 ENST00000305850.9_1_16:81040857-81045584:+|nuORF ENST00000305850.9_1_16:81040857-81045584:+|nuORF ENST00000305850.9_1_16:81040857-81045584:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 731.0867309570312 2 731.360124 1460.7057 NaN NaN NaN NaN NaN NaN NaN 101.21 1 101.27 100.77 101.77 0.059723 0 0 0 1.0061 1 54955 54955 2.7352 0.23671 1 25549 6835 16486 16544 29059 29059 -0.006228605067008175 QENEPDGTLDQ 11 Unmodified _QENEPDGTLDQ_ 0 0 0 nc|ENSG00000174953|Q9H2U1-3|DHX36;nc|ENSG00000174953|Q9H2U1-2|DHX36;ENSG00000174953|ENST00000496811|DHX36;ENST00000491011.1_1_3:154032747-154042037:-|nuORF nc|ENSG00000174953|Q9H2U1-3|DHX36 nc|ENSG00000174953|Q9H2U1-3|DHX36 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 623.2672119140625 2 623.265121 1244.51569 NaN NaN NaN NaN NaN NaN NaN 101.08 1 101.14 100.64 101.64 0.059723 0 0 0 1.0063 1 54884 54884 2.4985 0 1 25550 5005 16487 16545 29060 29060 -0.09678777434351105 QENRKLWLM 9 Unmodified _QENRKLWLM_ 0 0 0 REV__ENST00000326291.10_1_13:73409472-73428247:+|nuORF REV__ENST00000326291.10_1_13:73409472-73428247:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.5548095703125 3 406.553497 1216.63866 3.2093 0.0013048 -0.30525 -0.0001241 2.9041 0.0011807 406.55337573557915 12.787 0.13537 13.43 13.345 13.48 0.64272 6 3 2 0 0 0 0.92418 1 5759 5759 5.2969 1.1074 1 521730 + 25551 15352 16488 16546 29061 29061 0.03900852273864075 QENWFQRFYPV 11 Unmodified _QENWFQRFYPV_ 0 0 0 REV__ENSG00000181378|ENST00000341552|CFAP65 REV__ENSG00000181378|ENST00000341552|CFAP65 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 757.4553833007812 2 757.364776 1512.715 NaN NaN NaN NaN NaN NaN NaN 98.037 1 98.037 97.537 98.537 0 0 0 0 0.97175 1 53565 53565 9.3831 5.7866 1 + 25552 13852 16489 16547 29062 29062 -0.020850526251479096 QEPLPIAG 8 Unmodified _QEPLPIAG_ 0 0 0 ENST00000476881.2_1_7:100174483-100174642:-|nuORF;ENST00000467201.5_1_7:100174483-100175156:-|nuORF;ENSG00000077454|ENST00000310300|LRCH4 ENST00000476881.2_1_7:100174483-100174642:-|nuORF ENST00000476881.2_1_7:100174483-100174642:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.731201171875 2 412.729261 823.443968 NaN NaN NaN NaN NaN NaN NaN 51.584 1 51.846 51.346 52.346 0.26227 0 0 0 0.99035 1 23574 23574 0.79363 0 1 25553 864 16490 16548 29063 29063 0.025184244603906336 QEPQRLVRQM 10 Unmodified _QEPQRLVRQM_ 0 0 0 REV__ENST00000303592.3_1_22:38823883-38851043:-|nuORF REV__ENST00000303592.3_1_22:38823883-38851043:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 429.25787353515625 3 428.899556 1283.67684 2.6324 0.001129 0.45083 0.00019336 3.0832 0.0013224 429.2336549945774 72.881 0.24373 73.139 73.003 73.247 0.25876 47 23 3 0 0 0 0.12676 1 33491 33491 1.9064 0 1 1014900 + 25554 15212 16491 16549 29064 29064 0.04634738188519805 QEQWIMRWFDY 11 Unmodified _QEQWIMRWFDY_ 0 0 0 REV__nc|ENSG00000152894|Q15262|PTPRK REV__nc|ENSG00000152894|Q15262|PTPRK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 801.2590942382812 2 801.363918 1600.71328 NaN NaN NaN NaN NaN NaN NaN 107.1 1 107.1 106.6 107.6 0 0 0 0 1.0059 1 58768 58768 2.9952 1.8019 1 + 25555 12661 16492 16550 29065 29065 -0.06304429705414805 QERERRRRHRN 11 Unmodified _QERERRRRHRN_ 0 0 0 LAD1|p.M354Nfs*77|1|0.32|ENSG00000159166|chr1:201385771-201385772|-/T|frameshift_variant;ENSG00000159166|ENST00000391967|LAD1 LAD1|p.M354Nfs*77|1|0.32|ENSG00000159166|chr1:201385771-201385772|-/T|frameshift_variant LAD1|p.M354Nfs*77|1|0.32|ENSG00000159166|chr1:201385771-201385772|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 796.9415283203125 2 796.938693 1591.86283 NaN NaN NaN NaN NaN NaN NaN 104.45 1 104.5 104 105 0.052994 0 0 0 1.008 1 56548 56548 0.30703 0.30703 1 25556 4012 16493 16551 29066 29066 0.09057696472063981 QERGQVRL 8 Unmodified _QERGQVRL_ 0 0 0 REV__ENST00000375482.7_1_9:95792259-95795142:+|nuORF REV__ENST00000375482.7_1_9:95792259-95795142:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.34149169921875 2 493.280515 984.546476 NaN NaN NaN NaN NaN NaN NaN 103.5 1 103.82 103.32 104.32 0.31863 0 0 0 0.99035 1 47847 47847 0.79363 0 1 + 25557 15804 16494 16552 29067 29067 0.053585102518468375 QESIFRFGRDP 11 Unmodified _QESIFRFGRDP_ 0 0 0 REV__ENSG00000006025|ENST00000007414|OSBPL7 REV__ENSG00000006025|ENST00000007414|OSBPL7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 675.9443969726562 2 676.341301 1350.66805 NaN NaN NaN NaN NaN NaN NaN 98.61 1 98.61 98.11 99.11 0 0 0 0 0.93511 1 54016 54016 12.873 2.0731 1 + 25558 10185 16495 16553 29068 29068 0.006740878237224024 QETFIRYIF 9 Unmodified _QETFIRYIF_ 0 0 0 nc|ENSG00000104093|Q8TDJ6|DMXL2;nc|ENSG00000104093|Q8TDJ6-3|DMXL2;ENSG00000104093|ENST00000560891|DMXL2;ENST00000561079.1_1_15:51755569-51758496:-|nuORF;nc|ENSG00000104093|Q8TDJ6-2|DMXL2 nc|ENSG00000104093|Q8TDJ6|DMXL2 nc|ENSG00000104093|Q8TDJ6|DMXL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.2185363769531 3 406.21688 1215.62881 2.9406 0.0011945 0.23661 9.6117E-05 3.1772 0.0012906 406.21717893512283 67.203 0.21714 67.861 67.737 67.955 0.65777 20 11 2 0 0 0 0.64206 1 30813 30813 6.6304 0 1 362380 25559 1425 16496 16554 29069 29069 0.02961987540129485 QETIRNGEL 9 Unmodified _QETIRNGEL_ 0 0 0 ENST00000421014.2_1_1:93687225-93704878:+|nuORF;CCDC18|p.L854Ffs*13|1|0.09|ENSG00000122483|chr1:93236351-93236352|-/CAGTAAACATTTTAAATTCA|frameshift_variant;nc|ENSG00000122483|Q5T9S5-2|CCDC18;nc|ENSG00000122483|Q5T9S5|CCDC18;ENSG00000122483|ENST00000690025|CCDC18 ENST00000421014.2_1_1:93687225-93704878:+|nuORF ENST00000421014.2_1_1:93687225-93704878:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.27587890625 2 530.275095 1058.53564 3.224 0.0017096 -1.506 -0.0007986 1.718 0.00091102 530.2744224074736 50.096 0.59472 50.753 50.436 51.031 0.65735 56 23 3 0 0 0 0.41574 1 22850 22850 13.906 0.39817 1 1144900 25560 103 16497 16555 29070 29070 0.008710630869245506 QEVVLLLP 8 Unmodified _QEVVLLLP_ 0 0 0 chr4:110543070-110545296|286|50.24|0.37|7.1|+|2|ENPEP,None|1 chr4:110543070-110545296|286|50.24|0.37|7.1|+|2|ENPEP,None|1 chr4:110543070-110545296|286|50.24|0.37|7.1|+|2|ENPEP,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 455.7866516113281 2 455.784036 909.553519 NaN NaN NaN NaN NaN NaN NaN 41.649 1 41.649 41.149 42.149 0 0 0 0 0.99035 1 18946 18946 0 0 1 25561 172 16498 16556 29071 29071 0.09512430079723799 QEVVLLLP 8 Unmodified _QEVVLLLP_ 0 0 0 chr4:110543070-110545296|286|50.24|0.37|7.1|+|2|ENPEP,None|1 chr4:110543070-110545296|286|50.24|0.37|7.1|+|2|ENPEP,None|1 chr4:110543070-110545296|286|50.24|0.37|7.1|+|2|ENPEP,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.1929931640625 3 304.191783 909.553519 NaN NaN NaN NaN NaN NaN NaN 40.676 1 41.48 40.98 41.98 0.80351 0 0 0 0.99035 1 18430 18430 0.45834 0 1 25562 172 16498 16556 29072 29072 0.09512430079723799 QEVVLLLP 8 Unmodified _QEVVLLLP_ 0 0 0 chr4:110543070-110545296|286|50.24|0.37|7.1|+|2|ENPEP,None|1 chr4:110543070-110545296|286|50.24|0.37|7.1|+|2|ENPEP,None|1 chr4:110543070-110545296|286|50.24|0.37|7.1|+|2|ENPEP,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.193115234375 3 304.191783 909.553519 NaN NaN NaN NaN NaN NaN NaN 45.311 1 46.137 45.637 46.637 0.82621 0 0 0 0.99035 1 20637 20637 0.45834 0 1 25563 172 16498 16556 29073 29073 0.09512430079723799 QEWARRRRKR 10 Unmodified _QEWARRRRKR_ 0 0 0 ENST00000379660.4_1_6:8435667-8435706:-|nuORF ENST00000379660.4_1_6:8435667-8435706:-|nuORF ENST00000379660.4_1_6:8435667-8435706:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.6189880371094 3 481.283503 1440.82868 3.811 0.0018342 -0.6824 -0.00032843 3.1286 0.0015057 481.28313871394994 95.555 0.51495 95.822 95.679 96.194 0.26751 53 28 2 0 0 0 0.94364 1 43882 43882 0.15932 0.064481 1 469500 25564 7454 16499 16557 29074 29074 0.12589900051079894 QEWARRRRKR 10 Unmodified _QEWARRRRKR_ 0 0 0 ENST00000379660.4_1_6:8435667-8435706:-|nuORF ENST00000379660.4_1_6:8435667-8435706:-|nuORF ENST00000379660.4_1_6:8435667-8435706:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.03369140625 3 481.283503 1440.82868 3.8615 0.0018585 -0.54172 -0.00026072 3.3198 0.0015978 481.2831115114792 96.379 1.1285 96.657 96.204 97.333 0.27778 147 58 4 0 0 0 0.94364 1 44506 44506 0.15932 0.064481 1 1145700 25565 7454 16499 16557 29075 29075 0.12589900051079894 QEWLEELWLEQ 11 Unmodified _QEWLEELWLEQ_ 0 0 0 nc|ENSG00000291072|Q86T23|CROCCP2 nc|ENSG00000291072|Q86T23|CROCCP2 nc|ENSG00000291072|Q86T23|CROCCP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 751.8619995117188 2 751.861731 1501.70891 NaN NaN NaN NaN NaN NaN NaN 42.669 1 43.316 42.816 43.816 0.64693 0 0 0 1.008 1 19551 19551 0.35063 0 1 25566 9882 16500 16558 29076 29076 -0.021876156473354058 QEWLTLQL 8 Unmodified _QEWLTLQL_ 0 0 0 REV__nc|ENSG00000185988|Q496M5-2|PLK5 REV__nc|ENSG00000185988|Q496M5-2|PLK5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.7816772460938 2 515.782025 1029.5495 3.2284 0.0016651 0.60396 0.00031151 3.8323 0.0019766 515.7824643267056 77.316 0.539 77.979 77.76 78.299 0.66303 62 39 2 0 0 0 0.37185 1 35652 35652 30.225 2.596 1 923060 + 25567 14038 16501 16559 29077 29077 0.035903405860153725 QEWNTILEER 10 Unmodified _QEWNTILEER_ 0 0 0 REV__nc|ENSG00000197694|Q13813-3|SPTAN1 REV__nc|ENSG00000197694|Q13813-3|SPTAN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 659.3238525390625 2 659.325316 1316.63608 NaN NaN NaN NaN NaN NaN NaN 66.069 1 66.318 65.818 66.818 0.24848 0 0 0 0.99846 1 30267 30267 2.9952 0 1 + 25568 14298 16502 16560 29078 29078 -0.009573246500849564 QEWRLLFLRHW 11 Unmodified _QEWRLLFLRHW_ 0 0 0 REV__ENSG00000077498|ENST00000263321|TYR REV__ENSG00000077498|ENST00000263321|TYR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 792.4310913085938 2 792.433327 1582.8521 NaN NaN NaN NaN NaN NaN NaN 60.205 1 60.205 59.705 60.705 0 0 0 0 1.008 1 27919 27919 0.35063 0.043601 1 + 25569 10557 16503 16561 29079 29079 0.08398901045052298 QEYLRKNFE 9 Unmodified _QEYLRKNFE_ 0 0 0 REV__ENST00000504745.1_1_4:113347516-113362363:+|nuORF REV__ENST00000504745.1_1_4:113347516-113362363:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.54461669921875 3 409.543655 1225.60914 NaN NaN NaN NaN NaN NaN NaN 12.619 1 12.881 12.381 13.381 0.26154 0 0 0 0.906 1 5480 5480 2.086 1.1237 1 + 25570 10503 16504 16562 29080 29080 0.005356115293579933 QFCCCCCCC 9 Unmodified _QFCCCCCCC_ 0 0 0 REV__ENST00000606389.5_1_2:69691306-69691378:-|nuORF REV__ENST00000606389.5_1_2:69691306-69691378:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.1065979003906 2 508.1082 1014.20185 NaN NaN NaN NaN NaN NaN NaN 66.326 1 66.982 66.482 67.482 0.65672 0 0 0 0.91452 1 30408 30408 0 0 1 + 25571 17667 16505 16563 29081 29081 -0.30468539133107697 QFCCCCCCCCC 11 Unmodified _QFCCCCCCCCC_ 0 0 0 REV__ENST00000606389.5_1_2:69691306-69691378:-|nuORF REV__ENST00000606389.5_1_2:69691306-69691378:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.12158203125 2 611.117385 1220.22022 NaN NaN NaN NaN NaN NaN NaN 88.058 1 88.058 87.558 88.558 0 0 0 0 1.0082 1 45591 45591 0 0 1 + 25572 17667 16506 16564 29082 29082 -0.38108488545049113 QFDVATHL 8 Unmodified _QFDVATHL_ 0 0 0 ENSG00000183520|ENST00000373014|UTP11;ENST00000488453.1_1_1:38483328-38489297:+|nuORF ENSG00000183520|ENST00000373014|UTP11 ENSG00000183520|ENST00000373014|UTP11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.7388916015625 2 465.737617 929.460681 2.8472 0.0013261 0.62609 0.00029159 3.4733 0.0016177 465.7378309712668 48.95 0.1856 49.212 49.113 49.299 0.26209 11 6 3 0 0 0 0.45037 1 22403 22403 24.674 13.034 1 398270 25573 5387 16507 16565 29083 29083 -0.006870746536719707 QFDWYNRILW 10 Unmodified _QFDWYNRILW_ 0 0 0 REV__nc|ENSG00000156096|P06133-2|UGT2B4 REV__nc|ENSG00000156096|P06133-2|UGT2B4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 720.4786987304688 2 720.856586 1439.69862 NaN NaN NaN NaN NaN NaN NaN 82.752 1 82.797 82.297 83.297 0.045006 0 0 0 1.0015 1 40911 40911 0.40072 0 1 + 25574 12763 16508 16566 29084 29084 -0.003641337912540621 QFESDYRRN 9 Unmodified _QFESDYRRN_ 0 0 0 REV__nc|ENSG00000030110|Q16611-2|BAK1 REV__nc|ENSG00000030110|Q16611-2|BAK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 405.5252685546875 3 405.523143 1213.5476 NaN NaN NaN NaN NaN NaN NaN 35.555 1 35.555 35.055 36.055 0 0 0 0 0.91099 1 16133 16133 0.86438 0.087843 1 + 25575 10288 16509 16567 29085 29085 -0.05063320169892904 QFESDYRRN 9 Unmodified _QFESDYRRN_ 0 0 0 REV__nc|ENSG00000030110|Q16611-2|BAK1 REV__nc|ENSG00000030110|Q16611-2|BAK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 405.5253601074219 3 405.523143 1213.5476 NaN NaN NaN NaN NaN NaN NaN 35.649 1 35.649 35.149 36.149 0 0 0 0 0.91099 1 16176 16176 0.86438 0.23755 1 + 25576 10288 16509 16567 29086 29086 -0.05063320169892904 QFETVIHLF 9 Unmodified _QFETVIHLF_ 0 0 0 ENSG00000095464|ENST00000371447|PDE6C ENSG00000095464|ENST00000371447|PDE6C ENSG00000095464|ENST00000371447|PDE6C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 378.5385437011719 3 378.537842 1132.5917 2.767 0.0010474 -0.23407 -8.8606E-05 2.5329 0.00095879 378.53770431880196 56.483 0.33127 56.483 56.341 56.672 0 48 25 2 0 0 0 0.54955 1 26006 26006 7.609 0.97858 1 4292300 25577 1120 16510 16568 29087 29087 0.030703159943641367 QFETVIHLF 9 Unmodified _QFETVIHLF_ 0 0 0 ENSG00000095464|ENST00000371447|PDE6C ENSG00000095464|ENST00000371447|PDE6C ENSG00000095464|ENST00000371447|PDE6C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 378.537842 1132.5917 2.1289 0.00080589 0.078367 2.9665E-05 2.2073 0.00083555 378.5377501674601 55.472 0.37081 56.259 56.135 56.505 0.78711 -0.18026 0.00029235 NaN 7.609 64 31 3 NaN NaN NaN NaN 0 NaN NaN 0 3809600 25578 1120 16510 16568 0.030703159943641367 QFETVIHLF 9 Unmodified _QFETVIHLF_ 0 0 0 ENSG00000095464|ENST00000371447|PDE6C ENSG00000095464|ENST00000371447|PDE6C ENSG00000095464|ENST00000371447|PDE6C MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 378.537842 1132.5917 2.7252 0.0010316 -0.63897 -0.00024188 2.0863 0.00078973 378.53780702668377 56.413 0.2616 56.678 56.542 56.803 0.26543 0.23906 -0.00052227 NaN 7.609 32 17 2 NaN NaN NaN NaN 0 NaN NaN 0 1426100 25579 1120 16510 16568 0.030703159943641367 QFETVIHLF 9 Unmodified _QFETVIHLF_ 0 0 0 ENSG00000095464|ENST00000371447|PDE6C ENSG00000095464|ENST00000371447|PDE6C ENSG00000095464|ENST00000371447|PDE6C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 378.537842 1132.5917 2.7413 0.0010377 -0.32629 -0.00012351 2.415 0.00091418 378.5376412996771 55.668 0.2698 56.336 56.209 56.478 0.66798 -0.10316 -0.00016718 NaN 7.609 21 9 3 NaN NaN NaN NaN 0 NaN NaN 0 2040100 25580 1120 16510 16568 0.030703159943641367 QFGLLGIMQS 10 Unmodified _QFGLLGIMQS_ 0 0 0 REV__ENST00000254868.8_2_17:6983437-6983539:-|nuORF REV__ENST00000254868.8_2_17:6983437-6983539:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.1958312988281 3 365.195198 1092.56377 NaN NaN NaN NaN NaN NaN NaN 77.133 1 77.389 76.889 77.889 0.25533 0 0 0 0.99812 1 35520 35520 1.5923 0.37745 1 + 25581 14927 16511 16569 29088 29088 0.021186697426401224 QFIDKPVCF 9 Carbamidomethyl (C) _QFIDKPVC(Carbamidomethyl (C))F_ QFIDKPVC(1)F QFIDKPVC(63)F 0 1 0 ENSG00000106399|ENST00000223129|RPA3;ENST00000462723.1_1_7:7678661-7680049:-|nuORF ENSG00000106399|ENST00000223129|RPA3 ENSG00000106399|ENST00000223129|RPA3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.3136596679688 2 577.289159 1152.56377 3.1298 0.0018068 -0.89586 -0.00051717 2.2339 0.0012896 577.2886834831551 55.995 0.30337 56.782 56.606 56.91 0.78711 56 24 3 0 0 0 0.0018892 1 25549 25549 62.573 50.041 1 2230100 25582 1569 16512 16570 29089 29089 38 -0.006413302573719193 QFIDKPVCF 9 Carbamidomethyl (C) _QFIDKPVC(Carbamidomethyl (C))F_ QFIDKPVC(1)F QFIDKPVC(56)F 0 1 0 ENSG00000106399|ENST00000223129|RPA3;ENST00000462723.1_1_7:7678661-7680049:-|nuORF ENSG00000106399|ENST00000223129|RPA3 ENSG00000106399|ENST00000223129|RPA3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.0631713867188 2 577.289159 1152.56377 3.2732 0.0018896 -0.43969 -0.00025383 2.8336 0.0016358 577.7900297411169 56.714 0.26887 56.978 56.841 57.11 0.26444 18 12 2 0 0 0 0.0048746 1 25960 25960 56.177 40.33 1 1206700 25583 1569 16512 16570 29090 29090 38 -0.006413302573719193 QFIDKPVCF 9 Carbamidomethyl (C) _QFIDKPVC(Carbamidomethyl (C))F_ QFIDKPVC(1)F QFIDKPVC(72)F 0 1 0 ENSG00000106399|ENST00000223129|RPA3;ENST00000462723.1_1_7:7678661-7680049:-|nuORF ENSG00000106399|ENST00000223129|RPA3 ENSG00000106399|ENST00000223129|RPA3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.3148803710938 2 577.289159 1152.56377 3.7212 0.0021482 -0.85311 -0.00049249 2.8681 0.0016557 577.2884176782004 55.944 0.33457 56.612 56.478 56.813 0.66798 32 16 3 0 0 0 0.00065807 1 25622 25622 71.922 59.391 1 754380 25584 1569 16512 16570 29091 29091 38 -0.006413302573719193 QFIFRKRLILQ 11 Unmodified _QFIFRKRLILQ_ 0 0 0 REV__HUERS-P3-int_dup372|chrY:9141681-9141905:-|1.894859287778155|0.0102572563970316|7.53|541.0|8|2|sense REV__HUERS-P3-int_dup372|chrY:9141681-9141905:-|1.894859287778155|0.0102572563970316|7.53|541.0|8|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.9773254394531 3 487.973273 1460.89799 NaN NaN NaN NaN NaN NaN NaN 19.604 1 19.896 19.396 20.396 0.29239 0 0 0 1.0079 1 8920 8920 0.40827 0.32491 1 + 25585 17744 16513 16571 29092 29092 0.18597546227306339 QFRKKKRE 8 Unmodified _QFRKKKRE_ 0 0 0 ENST00000082468.11_1_6:26405791-26410201:+|nuORF;nc|ENSG00000026950|O00481-2|BTN3A1;nc|ENSG00000026950|O00481-3|BTN3A1;BTN3A1|p.E427Pfs*12|1|0.03|ENSG00000026950|chr6:26413428-26413429|-/CCCA|frameshift_variant;nc|ENSG00000026950|O00481-4|BTN3A1;ENSG00000026950|ENST00000289361|BTN3A1 ENST00000082468.11_1_6:26405791-26410201:+|nuORF ENST00000082468.11_1_6:26405791-26410201:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.3424072265625 2 560.340907 1118.66726 3.7512 0.002102 -1.574 -0.00088196 2.1773 0.00122 560.3401457996843 98.31 0.25782 98.909 98.769 99.027 0.59885 49 23 3 0 0 0 0.74071 1 45363 45363 2.5775 0 1 7527300 25586 92 16514 16572 29093 29093 0.11267337965318802 QFRNYDIWTWW 11 Unmodified _QFRNYDIWTWW_ 0 0 0 REV__nc|ENSG00000277149|Q6NUM6-2|TYW1B REV__nc|ENSG00000277149|Q6NUM6-2|TYW1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.4013061523438 2 807.87805 1613.74155 NaN NaN NaN NaN NaN NaN NaN 93.716 1 93.716 93.216 94.216 0 0 0 0 1.0082 1 50092 50092 0 0 1 + 25587 14373 16515 16573 29094 29094 -0.04077363733836137 QFRREWCRYRW 11 Unmodified _QFRREWCRYRW_ 0 0 0 REV__ENST00000328599.4_1_8:125463328-125463391:+|nuORF REV__ENST00000328599.4_1_8:125463328-125463391:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.8828735351562 3 562.612521 1684.81573 NaN NaN NaN NaN NaN NaN NaN 53.194 1 53.997 53.497 54.497 0.80351 0 0 0 1.0082 1 24257 24257 0 0 1 + 25588 15363 16516 16574 29095 29095 0.0007170087669692293 QFRRKRLLPIR 11 Unmodified _QFRRKRLLPIR_ 0 0 0 REV__ENSG00000230358|ENST00000424157|SPDYE21;REV__nc|ENSG00000205238|Q495Y8-2|SPDYE2;REV__ENSG00000170092|ENST00000625065|SPDYE5 REV__ENSG00000230358|ENST00000424157|SPDYE21 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 741.9786376953125 2 741.978236 1481.94192 NaN NaN NaN NaN NaN NaN NaN 88.216 1 88.268 87.768 88.768 0.052155 0 0 0 1.0082 1 44872 44872 0 0 1 + 25589 14573;13607;13421 16517 16575 29096 29096 0.22022575444316317 QFRVLTTT 8 Unmodified _QFRVLTTT_ 0 0 0 nc|ENSG00000120594|Q6UX71-3|PLXDC2;ENST00000377238.2_1_10:20332341-20568745:+|nuORF;nc|ENSG00000120594|Q6UX71-2|PLXDC2;ENSG00000120594|ENST00000377252|PLXDC2 nc|ENSG00000120594|Q6UX71-3|PLXDC2 nc|ENSG00000120594|Q6UX71-3|PLXDC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.5094909667969 3 322.51867 964.53418 NaN NaN NaN NaN NaN NaN NaN 15.968 1 16.274 15.774 16.774 0.306 0 0 0 0.99035 1 7224 7224 1.6526 0 1 25590 2197 16518 16576 29097 29097 0.05049473788801606 QFSRRVPR 8 Unmodified _QFSRRVPR_ 0 0 0 REV__nc|ENSG00000163946|Q9UK61-3|TASOR REV__nc|ENSG00000163946|Q9UK61-3|TASOR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.3057250976562 2 523.304324 1044.5941 3.4122 0.0017856 -0.8424 -0.00044083 2.5698 0.0013448 523.3038839446587 80.776 1.6208 81.436 80.742 82.363 0.65998 229 108 3 0 0 0 0.74709 1 37209 37209 2.0598 0.21551 1 1677500 + 25591 13043 16519 16577 29098 29098 0.0735820924271593 QFVRLRKHHW 10 Unmodified _QFVRLRKHHW_ 0 0 0 ENSG00000108839|ENST00000251535|ALOX12 ENSG00000108839|ENST00000251535|ALOX12 ENSG00000108839|ENST00000251535|ALOX12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 703.9014892578125 2 703.899454 1405.78436 NaN NaN NaN NaN NaN NaN NaN 84.835 1 84.864 84.364 85.364 0.028603 0 0 0 1.0015 1 42404 42404 0.40072 0 1 25592 1654 16520 16578 29099 29099 0.09769495904947689 QFWRRRSKWS 10 Unmodified _QFWRRRSKWS_ 0 0 0 REV__ENST00000564578.5_1_16:75665478-75665638:-|nuORF REV__ENST00000564578.5_1_16:75665478-75665638:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 718.8888549804688 2 718.886544 1435.75853 NaN NaN NaN NaN NaN NaN NaN 69.069 1 69.324 68.824 69.824 0.25443 0 0 0 1.0015 1 31640 31640 0.40072 0.050084 1 + 25593 17402 16521 16579 29100 29100 0.05808601662624824 QFYHRWLPRIK 11 Unmodified _QFYHRWLPRIK_ 0 0 0 REV__ENST00000463733.5_1_7:127228552-127229672:+|nuORF REV__ENST00000463733.5_1_7:127228552-127229672:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 772.4353637695312 2 772.43587 1542.85719 NaN NaN NaN NaN NaN NaN NaN 38.392 1 38.392 37.892 38.892 0 0 0 0 1.0073 1 17424 17424 1.1933 0.84271 1 + 25594 10162 16522 16580 29101 29101 0.10747204907670493 QGAAKRKP 8 Unmodified _QGAAKRKP_ 0 0 0 REV__ENSG00000198157|ENST00000358130|HMGN5 REV__ENSG00000198157|ENST00000358130|HMGN5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 428.26251220703125 2 428.261594 854.508634 1.9165 0.00082075 0.1592 6.8177E-05 2.0757 0.00088893 428.2615861215599 85.789 0.4025 85.818 85.626 86.029 0.028603 105 47 3 0 0 0 0.7471 1 42991 42991 0.69038 0 1 27055000 + 25595 14322 16523 16581 29102 29102 0.0755604405703707 QGAAPFHV 8 Unmodified _QGAAPFHV_ 0 0 0 REV__ENST00000585942.5_1_19:3610667-3611356:-|nuORF REV__ENST00000585942.5_1_19:3610667-3611356:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.71368408203125 2 413.713945 825.413337 NaN NaN NaN NaN NaN NaN NaN 75.149 1 75.407 74.907 75.907 0.25831 0 0 0 0.99035 1 34570 34570 0.79363 0 1 + 25596 17536 16524 16582 29103 29103 -0.006353091340088213 QGAKPDQTCGL 11 Unmodified _QGAKPDQTCGL_ 0 0 0 REV__ENST00000563005.5_1_16:55854223-55866983:-|nuORF REV__ENST00000563005.5_1_16:55854223-55866983:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.27001953125 2 559.268955 1116.52336 3.4026 0.0019029 -1.691 -0.00094575 1.7115 0.0009572 559.2678021380932 68.226 0.31958 68.885 68.723 69.043 0.65924 44 20 3 0 0 0 0.44818 1 31287 31287 20.415 1.1575 1 1279500 + 25597 17387 16525 16583 29104 29104 -0.030242966477771915 QGAKPRVLI 9 Unmodified _QGAKPRVLI_ 0 0 0 REV__ENSG00000064763|ENST00000536681|FAR2;REV__ENST00000547411.1_1_12:29302213-29449968:+|nuORF REV__ENSG00000064763|ENST00000536681|FAR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.31561279296875 2 491.313826 980.613099 3.3037 0.0016232 0.16464 8.0891E-05 3.4684 0.0017041 491.3139857246104 18.783 0.12291 19.443 19.369 19.492 0.66072 16 8 2 0 0 0 0.38625 1 8530 8530 20.454 2.3073 1 672650 + 25598 10417;17256 16526 16584 29105 29105 0.1220174581376341 QGDATQWY 8 Unmodified _QGDATQWY_ 0 0 0 REV__ENST00000580461.5_1_17:7476163-7478717:+|nuORF REV__ENST00000580461.5_1_17:7476163-7478717:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.7109069824219 2 484.709057 967.40356 3.0804 0.0014931 1.0981 0.00053228 4.1785 0.0020254 484.70959239091496 32.977 0.37497 33.596 33.376 33.751 0.61831 42 17 3 0 0 0 0.26626 1 15109 15109 37.974 3.8716 1 1338300 + 25599 17506 16527 16585 29106 29106 -0.08144541930050764 QGDSKDGVS 9 Unmodified _QGDSKDGVS_ 0 0 0 ENSG00000214929|ENST00000344803|SPATA31D1 ENSG00000214929|ENST00000344803|SPATA31D1 ENSG00000214929|ENST00000344803|SPATA31D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 892.4039916992188 1 892.400666 891.393389 4.1126 0.0036701 0.030852 2.7532E-05 4.1434 0.0036976 892.401068903531 19.83 0.24926 20.489 20.383 20.632 0.65829 35 19 3 0 0 0 0.8705 1 8981 8981 6.2058 0 1 263860 25600 6123 16528 16586 29107 29107 -0.05665149655271762 QGGHQTSSV 9 Unmodified _QGGHQTSSV_ 0 0 0 REV__ENSG00000215251|ENST00000380266|FASTKD5 REV__ENSG00000215251|ENST00000380266|FASTKD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.7113952636719 2 450.712131 899.409708 NaN NaN NaN NaN NaN NaN NaN 12.856 1 13.164 12.664 13.664 0.30727 0 0 0 0.21088 1 5800 5800 30.637 0.41173 1 + 25601 14524 16529 16587 29108 29108 -0.04402023698526136 QGIKKSVQI 9 Unmodified _QGIKKSVQI_ 0 0 0 REV__ENSG00000133302|ENST00000265140|SLF1 REV__ENSG00000133302|ENST00000265140|SLF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.21087646484375 3 334.209836 999.60768 2.3165 0.00077419 0.97073 0.00032443 3.2872 0.0010986 334.2101796856465 17.07 0.55912 17.731 17.399 17.958 0.66072 92 45 3 0 0 0 1.0755 1 7667 7667 2.7352 0 1 237750 + 25602 11931 16530 16588 29109 29109 0.10786022231286552 QGKDRPLTV 9 Unmodified _QGKDRPLTV_ 0 0 0 nc|ENSG00000165113|Q5VSY0-2|GKAP1;ENSG00000165113|ENST00000376371|GKAP1 nc|ENSG00000165113|Q5VSY0-2|GKAP1 nc|ENSG00000165113|Q5VSY0-2|GKAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.2926025390625 2 507.290548 1012.56654 3.1624 0.0016043 -0.57635 -0.00029238 2.5861 0.0013119 507.2902359728468 33.224 0.41331 33.844 33.666 34.079 0.62031 34 21 2 0 0 0 0.64206 1 15181 15181 10.074 0 1 282150 25603 4372 16531 16589 29110 29110 0.06076261191788035 QGKLRRRPR 9 Unmodified _QGKLRRRPR_ 0 0 0 ENSG00000130775|ENST00000373921|THEMIS2 ENSG00000130775|ENST00000373921|THEMIS2 ENSG00000130775|ENST00000373921|THEMIS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 583.8698120117188 2 583.870697 1165.72684 NaN NaN NaN NaN NaN NaN NaN 42.028 1 42.836 42.336 43.336 0.80855 0 0 0 0.90699 1 19079 19079 1.8442 0 1 25604 2620 16532 16590 29111 29111 0.1506065369933367 QGLFAAKHF 9 Unmodified _QGLFAAKHF_ 0 0 0 REV__nc|ENSG00000100241|O95248|SBF1 REV__nc|ENSG00000100241|O95248|SBF1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.8371276855469 3 340.187143 1017.5396 2.4759 0.00084229 -0.20428 -6.9493E-05 2.2717 0.00077279 340.18686901978003 21.374 0.11601 21.374 21.322 21.438 0 15 12 2 0 0 0 0.11065 1 9591 9591 4.897 0.95262 1 73536 + 25605 10813 16533 16591 29112 29112 0.03153197371273109 QGMCYGWGL 9 Unmodified _QGMCYGWGL_ 0 0 0 REV__ENST00000433252.7_1_X:48932732-48932966:-|nuORF REV__ENST00000433252.7_1_X:48932732-48932966:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.76043701171875 2 507.71223 1013.40991 3.1275 0.0015879 0.57661 0.00029275 3.7041 0.0018806 507.7121791575805 38.504 0.17893 39.302 39.2 39.379 0.79762 12 8 2 0 0 0 0.096915 1 17434 17434 13.508 3.3245 1 105590 + 25606 16280 16534 16592 29113 29113 -0.09626063294524556 QGMCYGWGL 9 Unmodified _QGMCYGWGL_ 0 0 0 REV__ENST00000433252.7_1_X:48932732-48932966:-|nuORF REV__ENST00000433252.7_1_X:48932732-48932966:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.7603759765625 2 507.71223 1013.40991 3.2315 0.0016407 -0.015416 -7.827E-06 3.2161 0.0016328 507.71218625393624 39.386 0.31659 39.652 39.451 39.767 0.26696 15 11 2 0 0 0 0.096915 1 17889 17889 13.508 1.8676 1 210120 + 25607 16280 16534 16592 29114 29114 -0.09626063294524556 QGPQDPVG 8 Unmodified _QGPQDPVG_ 0 0 0 REV__AluSx_dup91179|chr16:18786126-18786367:+|5.10704340519157|0.0045621159872568|10.13|542.0|1|1|sense REV__AluSx_dup91179|chr16:18786126-18786367:+|5.10704340519157|0.0045621159872568|10.13|542.0|1|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.1941833496094 2 399.193042 796.371532 NaN NaN NaN NaN NaN NaN NaN 33.434 1 33.688 33.188 34.188 0.25389 0 0 0 0.79116 1 15222 15222 19.439 1.304 1 + 25608 9952 16535 16593 29115 29115 -0.03479909613190557 QGPQDPVG 8 Unmodified _QGPQDPVG_ 0 0 0 REV__AluSx_dup91179|chr16:18786126-18786367:+|5.10704340519157|0.0045621159872568|10.13|542.0|1|1|sense REV__AluSx_dup91179|chr16:18786126-18786367:+|5.10704340519157|0.0045621159872568|10.13|542.0|1|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.1942443847656 2 399.193042 796.371532 2.8122 0.0011226 0.38994 0.00015566 3.2022 0.0012783 399.19328014019595 32.968 0.28869 33.586 33.407 33.696 0.61831 19 12 2 0 0 0 0.60592 1 15147 15147 13.508 0.97634 1 219390 + 25609 9952 16535 16593 29116 29116 -0.03479909613190557 QGRILVTTL 9 Unmodified _QGRILVTTL_ 0 0 0 REV__ENSG00000170927|ENST00000371117|PKHD1 REV__ENSG00000170927|ENST00000371117|PKHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.2149963378906 3 334.209836 999.60768 NaN NaN NaN NaN NaN NaN NaN 69.131 1 69.79 69.29 70.29 0.65924 0 0 0 0.90431 1 31689 31689 2.4985 0 1 + 25610 13464 16536 16594 29117 29117 0.10786022231263814 QGSCTRAR 8 Unmodified _QGSCTRAR_ 0 0 0 ENST00000416464.6_1_17:15587136-15587415:-|nuORF ENST00000416464.6_1_17:15587136-15587415:-|nuORF ENST00000416464.6_1_17:15587136-15587415:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 439.7174987792969 2 439.716693 877.418833 3.4709 0.0015262 -0.12492 -5.4931E-05 3.346 0.0014713 439.7166172648425 93.371 0.59092 93.626 93.308 93.899 0.25497 38 28 2 0 0 0 0.7441 1 42940 42940 2.3027 0 1 675320 25611 7713 16537 16595 29118 29118 -0.024779536138566982 QGSCTRAR 8 Unmodified _QGSCTRAR_ 0 0 0 ENST00000416464.6_1_17:15587136-15587415:-|nuORF ENST00000416464.6_1_17:15587136-15587415:-|nuORF ENST00000416464.6_1_17:15587136-15587415:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 439.71795654296875 2 439.716693 877.418833 3.2699 0.0014378 -0.48553 -0.00021349 2.7843 0.0012243 439.7164619512273 93.321 0.51572 93.953 93.609 94.124 0.63115 45 25 2 0 0 0 0.7441 1 42909 42909 2.3027 0 1 727030 25612 7713 16537 16595 29119 29119 -0.024779536138566982 QGSRLPWWGV 10 Unmodified _QGSRLPWWGV_ 0 0 0 REV__ENST00000310421.4_1_8:67579238-67579442:-|nuORF REV__ENST00000310421.4_1_8:67579238-67579442:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.87860107421875 3 395.876969 1184.60908 3.2673 0.0012935 0.29409 0.00011643 3.5614 0.0014099 395.877119786909 10.184 0.54047 10.813 10.615 11.156 0.62936 83 49 2 0 0 0 0.9406 1 4703 4703 0.77653 0.37582 1 94227 + 25613 15259 16538 16596 29120 29120 0.02415656320022208 QGVPILVV 8 Unmodified _QGVPILVV_ 0 0 0 REV__nc|ENSG00000164675|Q8NA54-2|IQUB REV__nc|ENSG00000164675|Q8NA54-2|IQUB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.7684326171875 2 412.765646 823.516739 3.0739 0.0012688 2.2274 0.00091941 5.3013 0.0021882 412.7668988089424 36.567 0.54919 37.197 36.917 37.466 0.62999 27 21 2 0 0 0 0.7471 1 16794 16794 0.69038 0 1 188200 + 25614 13107 16539 16597 29121 29121 0.09792178253815109 QGVPILVV 8 Unmodified _QGVPILVV_ 0 0 0 REV__nc|ENSG00000164675|Q8NA54-2|IQUB REV__nc|ENSG00000164675|Q8NA54-2|IQUB MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 412.765646 823.516739 2.7297 0.0011267 2.7273 0.0011257 5.457 0.0022525 412.7670577587733 36.664 0.56548 37.457 37.049 37.614 0.79342 0.13963 0.00012256 NaN 0.69038 36 27 2 NaN NaN NaN NaN 0 NaN NaN 0 149900 + 25615 13107 16539 16597 0.09792178253815109 QGVPILVV 8 Unmodified _QGVPILVV_ 0 0 0 REV__nc|ENSG00000164675|Q8NA54-2|IQUB REV__nc|ENSG00000164675|Q8NA54-2|IQUB MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 412.765646 823.516739 3.0538 0.0012605 2.6936 0.0011118 5.7474 0.0023723 412.76693580605354 37.038 0.41681 37.299 36.966 37.383 0.26083 -0.018671 9.4728E-05 NaN 0.69038 21 13 2 NaN NaN NaN NaN 0 NaN NaN 0 475140 + 25616 13107 16539 16597 0.09792178253815109 QGVPILVV 8 Unmodified _QGVPILVV_ 0 0 0 REV__nc|ENSG00000164675|Q8NA54-2|IQUB REV__nc|ENSG00000164675|Q8NA54-2|IQUB MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 412.765646 823.516739 3.0739 0.0012688 2.2274 0.00091941 5.3013 0.0021882 412.7668988089424 36.567 0.54919 37.197 36.917 37.466 0.62999 -0.12096 -0.00029007 NaN 0.69038 27 21 2 NaN NaN NaN NaN 0 NaN NaN 0 188200 + 25617 13107 16539 16597 0.09792178253815109 QHGPPPYGD 9 Unmodified _QHGPPPYGD_ 0 0 0 ENSG00000101191|ENST00000395343|DIDO1 ENSG00000101191|ENST00000395343|DIDO1 ENSG00000101191|ENST00000395343|DIDO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.1474609375 3 323.147125 966.419545 NaN NaN NaN NaN NaN NaN NaN 49.76 1 50.417 49.917 50.917 0.65735 0 0 0 0.91059 1 22761 22761 0.96228 0.18574 1 25618 1270 16540 16598 29122 29122 -0.06500835693145746 QHHNYKAM 8 Unmodified _QHHNYKAM_ 0 0 0 ENSG00000088882|ENST00000380605|CPXM1 ENSG00000088882|ENST00000380605|CPXM1 ENSG00000088882|ENST00000380605|CPXM1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.2442626953125 2 514.740168 1027.46578 3.2588 0.0016774 2.9623 0.0015248 6.2211 0.0032022 514.7425193709266 40.382 0.092705 40.382 40.341 40.434 0 4 2 2 0 0 0 0.13972 1 18337 18337 8.5933 0 1 532590 25619 1020 16541 16599 29123 29123 -0.046850940627109594 QHKRKKKKEKK 11 Unmodified _QHKRKKKKEKK_ 0 0 0 REV__ENSG00000119720|ENST00000354366|NRDE2 REV__ENSG00000119720|ENST00000354366|NRDE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 733.6686401367188 2 733.475526 1464.9365 NaN NaN NaN NaN NaN NaN NaN 94.132 1 94.132 93.632 94.632 0 0 0 0 1.008 1 50409 50409 0.30703 0 1 + 25620 11514 16542 16600 29124 29124 0.222628518618194 QHLAGAPLVIA 11 Unmodified _QHLAGAPLVIA_ 0 0 0 REV__nc|ENSG00000171988|Q15652-3|JMJD1C REV__nc|ENSG00000171988|Q15652-3|JMJD1C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.2969970703125 2 545.324391 1088.63423 NaN NaN NaN NaN NaN NaN NaN 65.276 1 65.985 65.485 66.485 0.70891 0 0 0 0.95662 1 30854 30854 10.824 0 1 + 25621 13530 16543 16601 29125 29125 0.09345711122614375 QHLEVKCDVE 10 Unmodified _QHLEVKCDVE_ 0 0 0 nc|ENSG00000170324|Q68DX3-3|FRMPD2;ENST00000486151.5_1_10:49420141-49482610:-|nuORF;nc|ENSG00000170324|Q68DX3-2|FRMPD2;ENSG00000170324|ENST00000374201|FRMPD2 nc|ENSG00000170324|Q68DX3-3|FRMPD2 nc|ENSG00000170324|Q68DX3-3|FRMPD2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 400.556884765625 3 400.529017 1198.56522 2.9253 0.0011717 0.71523 0.00028647 3.6405 0.0014581 400.52932949896154 38.796 0.31062 39.434 39.307 39.617 0.63778 21 10 3 0 0 0 0.12676 1 17815 17815 8.4443 1.4072 1 358750 25622 4741 16544 16602 29126 29126 -0.026117409592416152 QHLWWEWYHPR 11 Unmodified _QHLWWEWYHPR_ 0 0 0 ENSG00000184908|ENST00000375679|CLCNKB;nc|ENSG00000184908|P51801-2|CLCNKB;nc|ENSG00000186510|P51800-2|CLCNKA;nc|ENSG00000186510|P51800-3|CLCNKA;ENSG00000186510|ENST00000331433|CLCNKA ENSG00000184908|ENST00000375679|CLCNKB ENSG00000184908|ENST00000375679|CLCNKB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 819.3914184570312 2 819.391659 1636.76877 NaN NaN NaN NaN NaN NaN NaN 68.188 1 68.188 67.688 68.688 0 0 0 0 1.0082 1 32806 32806 0 0 1 25623 5466 16545 16603 29127 29127 -0.02414835402805693 QHLWWEWYHPR 11 Unmodified _QHLWWEWYHPR_ 0 0 0 ENSG00000184908|ENST00000375679|CLCNKB;nc|ENSG00000184908|P51801-2|CLCNKB;nc|ENSG00000186510|P51800-2|CLCNKA;nc|ENSG00000186510|P51800-3|CLCNKA;ENSG00000186510|ENST00000331433|CLCNKA ENSG00000184908|ENST00000375679|CLCNKB ENSG00000184908|ENST00000375679|CLCNKB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 819.3914794921875 2 819.391659 1636.76877 NaN NaN NaN NaN NaN NaN NaN 75.155 1 75.155 74.655 75.655 0 0 0 0 1.0082 1 36824 36824 0 0 1 25624 5466 16545 16603 29128 29128 -0.02414835402805693 QHRKSVFF 8 Unmodified _QHRKSVFF_ 0 0 0 nc|ENSG00000167716|Q562E7-4|WDR81;ENSG00000167716|ENST00000409644|WDR81;nc|ENSG00000167716|Q562E7-2|WDR81;nc|ENSG00000167716|Q562E7-6|WDR81;nc|ENSG00000167716|Q562E7-5|WDR81;nc|ENSG00000167716|Q562E7-3|WDR81;ENST00000464528.5_1_17:1630890-1639119:+|nuORF nc|ENSG00000167716|Q562E7-4|WDR81 nc|ENSG00000167716|Q562E7-4|WDR81 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.1956787109375 3 350.194409 1047.5614 2.3104 0.00080909 0.82767 0.00028984 3.1381 0.0010989 350.1945685382891 15.329 0.87448 15.635 15.313 16.188 0.306 176 91 2 0 0 0 0.7471 2 6816 6816;7118 1.8442 1.8442 1 280720 25625 4575 16546 16604 29129;29130 29129 0.039520021198541144 QHVRYETT 8 Unmodified _QHVRYETT_ 0 0 0 ENSG00000177283|ENST00000374694|FZD8 ENSG00000177283|ENST00000374694|FZD8 ENSG00000177283|ENST00000374694|FZD8 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.7567749023438 2 517.256705 1032.49886 3.4136 0.0017657 -0.89254 -0.00046167 2.521 0.001304 517.2560838967954 49.8 0.2321 50.458 50.436 50.668 0.65735 12 9 2 0 0 0 0.14146 1 22788 22788 5.2307 0 1 466880 25626 5111 16547 16605 29131 29131 -0.0160918873900755 QIDKVFSHI 9 Unmodified _QIDKVFSHI_ 0 0 0 ENST00000392253.2_1_2:202275976-202276645:-|nuORF ENST00000392253.2_1_2:202275976-202276645:-|nuORF ENST00000392253.2_1_2:202275976-202276645:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.88275146484375 3 362.869591 1085.58694 NaN NaN NaN NaN NaN NaN NaN 40.796 1 41.065 40.565 41.565 0.26904 0 0 0 0.72654 1 18564 18564 11.495 3.8858 1 25627 7513 16548 16606 29132 29132 0.04757431851635374 QIGRNYYN 8 Unmodified _QIGRNYYN_ 0 0 0 PIWIL1|p.S562Ifs*30|1|0.09|ENSG00000125207|chr12:130361199-130361199|G/-|frameshift_variant;nc|ENSG00000125207|Q96J94-3|PIWIL1;nc|ENSG00000125207|Q96J94-2|PIWIL1;ENSG00000125207|ENST00000245255|PIWIL1 PIWIL1|p.S562Ifs*30|1|0.09|ENSG00000125207|chr12:130361199-130361199|G/-|frameshift_variant PIWIL1|p.S562Ifs*30|1|0.09|ENSG00000125207|chr12:130361199-130361199|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.292724609375 2 514.251423 1026.48829 NaN NaN NaN NaN NaN NaN NaN 83.875 1 83.875 83.375 84.375 0 0 0 0 0.99035 1 42337 42337 2.3027 0.24298 1 25628 2391 16549 16607 29133 29133 -0.02389171393451761 QIHELSCVPSS 11 Unmodified _QIHELSCVPSS_ 0 0 0 ENST00000521682.5_1_8:144356964-144357361:+|nuORF ENST00000521682.5_1_8:144356964-144357361:+|nuORF ENST00000521682.5_1_8:144356964-144357361:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.5570373535156 3 400.529017 1198.56522 2.9371 0.0011764 1.3923 0.00055764 4.3293 0.001734 400.5295676762316 39.296 0.2764 39.563 39.389 39.666 0.26696 21 9 3 0 0 0 0.13271 1 17912 17912 4.1166 0 1 478260 25629 8643 16550 16608 29134 29134 -0.026117409592416152 QIHIRGFV 8 Unmodified _QIHIRGFV_ 0 0 0 ENST00000476796.2_1_10:43127323-43132406:-|nuORF;ENST00000476504.5_1_10:38299638-38306367:+|nuORF ENST00000476796.2_1_10:43127323-43132406:-|nuORF ENST00000476796.2_1_10:43127323-43132406:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.286865234375 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 59.755 1 60.42 59.92 60.92 0.66503 0 0 0 0.99035 1 27353 27353 2.5775 0 1 25630 8233 16551 16609 29135 29135 0.07004903608185487 QIHRKRYLEKW 11 Unmodified _QIHRKRYLEKW_ 0 0 0 REV__ENST00000492535.1_1_22:32889009-32894514:+|nuORF REV__ENST00000492535.1_1_22:32889009-32894514:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.7125244140625 3 519.631798 1555.87356 NaN NaN NaN NaN NaN NaN NaN 90.613 1 90.688 90.188 91.188 0.075279 0 0 0 1.008 1 46746 46746 0.36667 0.27183 1 + 25631 10811 16552 16610 29136 29136 0.1178628607376595 QIKEKIIEI 9 Unmodified _QIKEKIIEI_ 0 0 0 REV__ZNFX1|p.S1823Wfs*15|1|0.26|ENSG00000124201|chr20:49247550-49247556|AGGCCAG/-|frameshift_variant REV__ZNFX1|p.S1823Wfs*15|1|0.26|ENSG00000124201|chr20:49247550-49247556|AGGCCAG/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 371.90167236328125 3 371.90078 1112.68051 2.7285 0.0010147 -0.24836 -9.2364E-05 2.4801 0.00092235 371.90061960184335 49.71 0.56566 49.971 49.755 50.32 0.26146 62 22 4 0 0 0 0.063575 1 22764 22764 32.037 6.0168 1 6818500 + 25632 11641 16553 16611 29137 29137 0.1286773123401872 QIKGGKEKI 9 Unmodified _QIKGGKEKI_ 0 0 0 REV__CCDC168|p.S4488Ifs*3|1|0.07|ENSG00000175820|chr13:102737235-102737236|-/T|frameshift_variant REV__CCDC168|p.S4488Ifs*3|1|0.07|ENSG00000175820|chr13:102737235-102737236|-/T|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.2110595703125 3 334.209836 999.60768 2.3165 0.00077419 0.97073 0.00032443 3.2872 0.0010986 334.2101796856465 17.07 0.55912 17.731 17.399 17.958 0.66072 92 45 3 0 0 0 0.92418 1 7721 7721 5.2969 0.39987 1 237750 + 25633 9990 16554 16612 29138 29138 0.10786022231263814 QIKGKINSI 9 Unmodified _QIKGKINSI_ 0 0 0 ENST00000417455.1_1_10:44100293-44100833:-|nuORF;ENST00000461993.1_1_1:40535258-40537202:+|nuORF;nc|ENSG00000131236|Q01518-2|CAP1;ENSG00000131236|ENST00000372805|CAP1 ENST00000417455.1_1_10:44100293-44100833:-|nuORF ENST00000417455.1_1_10:44100293-44100833:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.2110290527344 3 334.209836 999.60768 2.2185 0.00074143 0.95591 0.00031947 3.1744 0.0010609 334.2101780202047 17.067 0.63186 17.371 16.981 17.613 0.30438 121 53 3 0 0 0 0.75535 1 7738 7738 8.1555 2.8586 1 222980 25634 2648 16555 16613 29139 29139 0.10786022231263814 QIKKSPAVKV 10 Unmodified _QIKKSPAVKV_ 0 0 0 ENST00000579014.5_1_18:6942080-7042306:-|nuORF;ENSG00000101680|ENST00000389658|LAMA1 ENST00000579014.5_1_18:6942080-7042306:-|nuORF ENST00000579014.5_1_18:6942080-7042306:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.5736389160156 3 366.572886 1096.69683 NaN NaN NaN NaN NaN NaN NaN 42.826 1 43.473 42.973 43.973 0.64693 0 0 0 0.99995 1 19626 19626 1.7423 0 1 25635 1310 16556 16614 29140 29140 0.15234857190785078 QIKPICPIL 9 Unmodified _QIKPICPIL_ 0 0 0 REV__ENSG00000153975|ENST00000368576|ZUP1 REV__ENSG00000153975|ENST00000368576|ZUP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 342.21295166015625 3 342.212301 1023.61507 NaN NaN NaN NaN NaN NaN NaN 51.47 1 51.732 51.232 52.232 0.26227 0 0 0 0.90511 1 23521 23521 1.1933 0 1 + 25636 12691 16557 16615 29141 29141 0.10421038507331559 QIKQKVDSL 9 Unmodified _QIKQKVDSL_ 0 0 0 nc|ENSG00000092199|P07910-3|HNRNPC;HNRNPC|p.D258Rfs*2|1|0.38|ENSG00000092199|chr14:21211471-21211472|-/T|frameshift_variant;nc|ENSG00000092199|P07910-4|HNRNPC;ENSG00000092199|ENST00000553300|HNRNPC;nc|ENSG00000092199|P07910|HNRNPC;ENST00000556181.1_1_14:58988389-58988443:+|nuORF;ENST00000553444.1_1_14:21679384-21680083:-|nuORF;ENST00000571636.1_1_16:11336795-11337332:+|nuORF;ENSG00000277058|ENST00000617807|HNRNPCL3;ENSG00000275774|ENST00000621994|HNRNPCL2;ENSG00000179412|ENST00000323770|HNRNPCL4;ENSG00000179172|ENST00000317869|HNRNPCL1 nc|ENSG00000092199|P07910-3|HNRNPC nc|ENSG00000092199|P07910-3|HNRNPC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.816162109375 2 529.813856 1057.61316 3.1789 0.0016842 0.82547 0.00043734 4.0044 0.0021216 529.814321300373 17.602 0.24013 17.602 17.462 17.702 0 26 15 2 0 0 0 0.27615 1 7809 7809 13.906 6.6168 1 324970 25637 1094 16558 16616 29142 29142 0.0866570102307378 QIKQKVDSL 9 Unmodified _QIKQKVDSL_ 0 0 0 nc|ENSG00000092199|P07910-3|HNRNPC;HNRNPC|p.D258Rfs*2|1|0.38|ENSG00000092199|chr14:21211471-21211472|-/T|frameshift_variant;nc|ENSG00000092199|P07910-4|HNRNPC;ENSG00000092199|ENST00000553300|HNRNPC;nc|ENSG00000092199|P07910|HNRNPC;ENST00000556181.1_1_14:58988389-58988443:+|nuORF;ENST00000553444.1_1_14:21679384-21680083:-|nuORF;ENST00000571636.1_1_16:11336795-11337332:+|nuORF;ENSG00000277058|ENST00000617807|HNRNPCL3;ENSG00000275774|ENST00000621994|HNRNPCL2;ENSG00000179412|ENST00000323770|HNRNPCL4;ENSG00000179172|ENST00000317869|HNRNPCL1 nc|ENSG00000092199|P07910-3|HNRNPC nc|ENSG00000092199|P07910-3|HNRNPC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.8158569335938 2 529.813856 1057.61316 2.9605 0.0015685 0.51445 0.00027256 3.475 0.0018411 529.8140934331675 14.637 0.22746 14.944 14.833 15.06 0.3069 50 18 3 0 0 0 0.015631 2 6596 6596;6641 71.922 19.654 1 1007500 25638 1094 16558 16616 29143;29144 29143 0.0866570102307378 QIKQKVDSL 9 Unmodified _QIKQKVDSL_ 0 0 0 nc|ENSG00000092199|P07910-3|HNRNPC;HNRNPC|p.D258Rfs*2|1|0.38|ENSG00000092199|chr14:21211471-21211472|-/T|frameshift_variant;nc|ENSG00000092199|P07910-4|HNRNPC;ENSG00000092199|ENST00000553300|HNRNPC;nc|ENSG00000092199|P07910|HNRNPC;ENST00000556181.1_1_14:58988389-58988443:+|nuORF;ENST00000553444.1_1_14:21679384-21680083:-|nuORF;ENST00000571636.1_1_16:11336795-11337332:+|nuORF;ENSG00000277058|ENST00000617807|HNRNPCL3;ENSG00000275774|ENST00000621994|HNRNPCL2;ENSG00000179412|ENST00000323770|HNRNPCL4;ENSG00000179172|ENST00000317869|HNRNPCL1 nc|ENSG00000092199|P07910-3|HNRNPC nc|ENSG00000092199|P07910-3|HNRNPC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 353.546142578125 3 353.544996 1057.61316 2.3258 0.00082229 0.54281 0.00019191 2.8686 0.0010142 353.54520869620023 14.632 0.28493 14.939 14.815 15.1 0.3069 72 22 4 0 0 0 0.1229 1 6610 6610 28.495 7.9136 1 1987600 25639 1094 16558 16616 29145 29145 0.0866570102307378 QIKQKVDSL 9 Unmodified _QIKQKVDSL_ 0 0 0 nc|ENSG00000092199|P07910-3|HNRNPC;HNRNPC|p.D258Rfs*2|1|0.38|ENSG00000092199|chr14:21211471-21211472|-/T|frameshift_variant;nc|ENSG00000092199|P07910-4|HNRNPC;ENSG00000092199|ENST00000553300|HNRNPC;nc|ENSG00000092199|P07910|HNRNPC;ENST00000556181.1_1_14:58988389-58988443:+|nuORF;ENST00000553444.1_1_14:21679384-21680083:-|nuORF;ENST00000571636.1_1_16:11336795-11337332:+|nuORF;ENSG00000277058|ENST00000617807|HNRNPCL3;ENSG00000275774|ENST00000621994|HNRNPCL2;ENSG00000179412|ENST00000323770|HNRNPCL4;ENSG00000179172|ENST00000317869|HNRNPCL1 nc|ENSG00000092199|P07910-3|HNRNPC nc|ENSG00000092199|P07910-3|HNRNPC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.8157958984375 2 529.813856 1057.61316 3.3458 0.0017727 0.46882 0.00024839 3.8146 0.002021 529.8140351029213 14.632 0.29233 15.286 15.199 15.491 0.65356 72 27 3 0 0 0 0.00013535 2 6619 6571;6619 149.91 53.629 1 1575600 25640 1094 16558 16616 29146;29147 29147 0.0866570102307378 QIKQKVDSL 9 Unmodified _QIKQKVDSL_ 0 0 0 nc|ENSG00000092199|P07910-3|HNRNPC;HNRNPC|p.D258Rfs*2|1|0.38|ENSG00000092199|chr14:21211471-21211472|-/T|frameshift_variant;nc|ENSG00000092199|P07910-4|HNRNPC;ENSG00000092199|ENST00000553300|HNRNPC;nc|ENSG00000092199|P07910|HNRNPC;ENST00000556181.1_1_14:58988389-58988443:+|nuORF;ENST00000553444.1_1_14:21679384-21680083:-|nuORF;ENST00000571636.1_1_16:11336795-11337332:+|nuORF;ENSG00000277058|ENST00000617807|HNRNPCL3;ENSG00000275774|ENST00000621994|HNRNPCL2;ENSG00000179412|ENST00000323770|HNRNPCL4;ENSG00000179172|ENST00000317869|HNRNPCL1 nc|ENSG00000092199|P07910-3|HNRNPC nc|ENSG00000092199|P07910-3|HNRNPC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 353.5458679199219 3 353.544996 1057.61316 2.5508 0.00090182 0.56639 0.00020024 3.1172 0.0011021 353.5451762791502 14.647 0.30173 15.301 15.189 15.491 0.65356 71 28 3 0 0 0 0.26118 1 6598 6598 19.362 0.98885 1 1647700 25641 1094 16558 16616 29148 29148 0.0866570102307378 QIKRLLET 8 Unmodified _QIKRLLET_ 0 0 0 ENSG00000120800|ENST00000261637|UTP20;UTP20|p.F1622Lfs*17|1|0.09|ENSG00000120800|chr12:101346566-101346567|-/TTTAGTATCGTATTCTC|frameshift_variant ENSG00000120800|ENST00000261637|UTP20 ENSG00000120800|ENST00000261637|UTP20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.81317138671875 2 500.811116 999.60768 3.0218 0.0015133 0.73775 0.00036947 3.7595 0.0018828 500.81141004726936 17.107 0.47676 17.412 17.114 17.591 0.30438 57 36 2 0 0 0 0.73556 1 7787 7787 4.3292 0 1 102060 25642 2213 16559 16617 29149 29149 0.10786022231286552 QILIDLVV 8 Unmodified _QILIDLVV_ 0 0 0 REV__ENST00000444100.2_1_2:61245668-61245773:+|nuORF REV__ENST00000444100.2_1_2:61245668-61245773:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.86529541015625 3 304.863666 911.569169 NaN NaN NaN NaN NaN NaN NaN 28.898 1 29.687 29.187 30.187 0.78921 0 0 0 0.99035 1 13022 13022 0.40072 0 1 + 25643 16366 16560 16618 29150 29150 0.10984716596760791 QILIDLVV 8 Unmodified _QILIDLVV_ 0 0 0 REV__ENST00000444100.2_1_2:61245668-61245773:+|nuORF REV__ENST00000444100.2_1_2:61245668-61245773:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.7943115234375 2 456.791861 911.569169 NaN NaN NaN NaN NaN NaN NaN 28.685 1 28.945 28.445 29.445 0.2602 0 0 0 0.99035 1 13049 13049 0.69038 0 1 + 25644 16366 16560 16618 29151 29151 0.10984716596760791 QILIDLVV 8 Unmodified _QILIDLVV_ 0 0 0 REV__ENST00000444100.2_1_2:61245668-61245773:+|nuORF REV__ENST00000444100.2_1_2:61245668-61245773:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 304.865234375 3 304.863666 911.569169 2.0197 0.00061573 1.3761 0.00041953 3.3958 0.0010353 304.86393956795746 33.028 0.24479 33.646 33.48 33.725 0.61831 20 11 2 0 0 0 0.7471 1 15086 15086 0.40072 0 1 286860 + 25645 16366 16560 16618 29152 29152 0.10984716596760791 QILKGLLFLH 10 Unmodified _QILKGLLFLH_ 0 0 0 nc|ENSG00000165238|Q9Y3S1-3|WNK2;ENSG00000165238|ENST00000427277|WNK2;nc|ENSG00000165238|Q9Y3S1-2|WNK2;nc|ENSG00000165238|Q9Y3S1-4|WNK2;nc|ENSG00000165238|Q9Y3S1|WNK2 nc|ENSG00000165238|Q9Y3S1-3|WNK2 nc|ENSG00000165238|Q9Y3S1-3|WNK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.5868225097656 3 394.585015 1180.73321 2.4199 0.00095487 1.4098 0.0005563 3.8298 0.0015112 394.5852130599172 47.023 0.56915 47.023 46.603 47.172 0 39 24 2 0 0 0 0.93372 1 21488 21488 2.086 0.17963 1 873710 25646 4383 16561 16619 29153 29153 0.15007734087521385 QILKGLLFLH 10 Unmodified _QILKGLLFLH_ 0 0 0 nc|ENSG00000165238|Q9Y3S1-3|WNK2;ENSG00000165238|ENST00000427277|WNK2;nc|ENSG00000165238|Q9Y3S1-2|WNK2;nc|ENSG00000165238|Q9Y3S1-4|WNK2;nc|ENSG00000165238|Q9Y3S1|WNK2 nc|ENSG00000165238|Q9Y3S1-3|WNK2 nc|ENSG00000165238|Q9Y3S1-3|WNK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.58599853515625 3 394.585015 1180.73321 3.1193 0.0012308 0.60045 0.00023693 3.7197 0.0014677 394.5849963049003 46.644 0.56246 46.91 46.449 47.011 0.26561 36 20 2 0 0 0 0.93372 1 21263 21263 2.086 2.086 1 1576900 25647 4383 16561 16619 29154 29154 0.15007734087521385 QILKIRWRWF 10 Unmodified _QILKIRWRWF_ 0 0 0 KLHL5|p.M210Sfs*9|1|0.03|ENSG00000109790|chr4:39076071-39076072|-/GTCT|frameshift_variant;KLHL5|p.M210Ifs*12|1|0.07|ENSG00000109790|chr4:39076069-39076070|-/GATCTTTCCTATT|frameshift_variant;nc|ENSG00000109790|Q96PQ7-4|KLHL5;ENSG00000109790|ENST00000504108|KLHL5;nc|ENSG00000109790|Q96PQ7|KLHL5;nc|ENSG00000109790|Q96PQ7-2|KLHL5;nc|ENSG00000109790|Q96PQ7-3|KLHL5 KLHL5|p.M210Sfs*9|1|0.03|ENSG00000109790|chr4:39076071-39076072|-/GTCT|frameshift_variant KLHL5|p.M210Sfs*9|1|0.03|ENSG00000109790|chr4:39076071-39076072|-/GTCT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.6229553222656 3 482.622463 1444.84556 NaN NaN NaN NaN NaN NaN NaN 84.51 1 85.175 84.675 85.675 0.66566 0 0 0 1.0011 1 38925 38925 0.77653 0.27058 1 25648 1686 16562 16620 29155 29155 0.14093007884343933 QILPVAGIAK 10 Unmodified _QILPVAGIAK_ 0 0 0 REV__ENST00000497544.2_2_11:1775127-1776230:-|nuORF REV__ENST00000497544.2_2_11:1775127-1776230:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.2190246582031 3 337.218332 1008.63317 NaN NaN NaN NaN NaN NaN NaN 7.293 1 7.5987 7.0987 8.0987 0.30573 0 0 0 1.0018 1 3307 3307 0.15932 0 1 + 25649 11458 16563 16621 29156 29156 0.12919496753693238 QIPQLQVM 8 Unmodified _QIPQLQVM_ 0 0 0 ENST00000562439.5_1_16:57238447-57238567:+|nuORF ENST00000562439.5_1_16:57238447-57238567:+|nuORF ENST00000562439.5_1_16:57238447-57238567:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.7668762207031 2 478.76532 955.516088 2.9297 0.0014027 0.35731 0.00017107 3.287 0.0015737 478.76536361228057 51.527 0.24883 52.187 52.039 52.288 0.65956 22 13 2 0 0 0 0.5438 1 23587 23587 18.135 1.1927 1 334010 25650 8994 16564 16622 29157 29157 0.036550155424492914 QIRKKMMEI 9 Unmodified _QIRKKMMEI_ 0 0 0 ENSG00000145425|ENST00000274065|RPS3A;ENST00000472161.1_1_18:57817108-57817555:+|nuORF ENSG00000145425|ENST00000274065|RPS3A ENSG00000145425|ENST00000274065|RPS3A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 392.8928527832031 3 392.891233 1175.65187 NaN NaN NaN NaN NaN NaN NaN 19.6 1 19.6 19.1 20.1 0 0 0 0 0.10934 1 8746 8746 29.841 18.323 1 25651 3467 16565 16623 29158 29158 0.07106967061599789 QIRKKMMEI 9 Unmodified _QIRKKMMEI_ 0 0 0 ENSG00000145425|ENST00000274065|RPS3A;ENST00000472161.1_1_18:57817108-57817555:+|nuORF ENSG00000145425|ENST00000274065|RPS3A ENSG00000145425|ENST00000274065|RPS3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 392.89239501953125 3 392.891233 1175.65187 2.7516 0.0010811 -0.63998 -0.00025144 2.1116 0.00082964 392.89103584803297 18.622 0.28103 18.92 18.69 18.971 0.29753 78 33 3 0 0 0 0.028312 3 8472 8385;8428;8472 43.772 26.907 1 3182100 25652 3467 16565 16623 29159;29160;29161 29161 0.07106967061599789 QIRKKMMEI 9 Unmodified _QIRKKMMEI_ 0 0 0 ENSG00000145425|ENST00000274065|RPS3A;ENST00000472161.1_1_18:57817108-57817555:+|nuORF ENSG00000145425|ENST00000274065|RPS3A ENSG00000145425|ENST00000274065|RPS3A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 392.89227294921875 3 392.891233 1175.65187 NaN NaN NaN NaN NaN NaN NaN 18.288 1 18.949 18.449 19.449 0.66072 0 0 0 0.26328 1 8274 8274 32.786 14.413 1 25653 3467 16565 16623 29162 29162 0.07106967061599789 QIRLKKLKRQE 11 Unmodified _QIRLKKLKRQE_ 0 0 0 ENST00000487913.5_1_11:47282796-47283054:+|nuORF;nc|ENSG00000025434|Q13133-2|NR1H3;nc|ENSG00000025434|Q13133-3|NR1H3;ENSG00000025434|ENST00000441012|NR1H3 ENST00000487913.5_1_11:47282796-47283054:+|nuORF ENST00000487913.5_1_11:47282796-47283054:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 720.4644165039062 2 720.462084 1438.90962 NaN NaN NaN NaN NaN NaN NaN 79.723 1 80.384 79.884 80.884 0.66082 0 0 0 1.0073 1 36733 36733 1.1933 0.84271 1 25654 479 16566 16624 29163 29163 0.20771743250634245 QIRLLRILLII 11 Unmodified _QIRLLRILLII_ 0 0 0 ENST00000595463.5_1_19:50414393-50430957:-|nuORF;ENST00000599788.1_2_19:50414393-50432585:-|nuORF;ENST00000596437.5_1_19:50414393-50430957:-|nuORF ENST00000595463.5_1_19:50414393-50430957:-|nuORF ENST00000595463.5_1_19:50414393-50430957:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 682.5574951171875 2 682.479215 1362.94388 NaN NaN NaN NaN NaN NaN NaN 96.455 1 96.532 96.032 97.032 0.076538 0 0 0 1.008 1 51261 51261 0.30703 0.30703 1 25655 9270 16567 16625 29164 29164 0.27692191409551015 QIRLRRPRRRR 11 Unmodified _QIRLRRPRRRR_ 0 0 0 nc|ENSG00000114654|Q9HA90|EFCC1;ENSG00000114654|ENST00000683648|EFCC1 nc|ENSG00000114654|Q9HA90|EFCC1 nc|ENSG00000114654|Q9HA90|EFCC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 782.214111328125 2 782.006182 1561.99781 NaN NaN NaN NaN NaN NaN NaN 102.52 1 102.58 102.08 103.08 0.055092 0 0 0 1.0079 1 55652 55652 1.3295 0.9789 1 25656 1917 16568 16626 29165 29165 0.2392922140443261 QIRRSHYRRKW 11 Unmodified _QIRRSHYRRKW_ 0 0 0 REV__nc|ENSG00000074356|Q53F19-2|NCBP3 REV__nc|ENSG00000074356|Q53F19-2|NCBP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 793.4425659179688 2 793.450374 1584.8862 NaN NaN NaN NaN NaN NaN NaN 83.004 1 83.004 82.504 83.504 0 0 0 0 1.008 1 41715 41715 0.30703 0 1 + 25657 10514 16569 16627 29166 29166 0.11714742256663158 QIRWFYWRILP 11 Unmodified _QIRWFYWRILP_ 0 0 0 L1MD2_dup3931|chr7:382708-385046:+|1.236162871048498|0.3102442397353085|1.99|537.0|39|2|sense L1MD2_dup3931|chr7:382708-385046:+|1.236162871048498|0.3102442397353085|1.99|537.0|39|2|sense L1MD2_dup3931|chr7:382708-385046:+|1.236162871048498|0.3102442397353085|1.99|537.0|39|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 789.442138671875 2 789.440621 1576.86669 NaN NaN NaN NaN NaN NaN NaN 100.01 1 100.32 99.816 100.82 0.30835 0 0 0 1.0072 1 46243 46243 1.3295 1.3295 1 25658 9445 16570 16628 29167 29167 0.10132973193208272 QIRYKLNKYQ 10 Unmodified _QIRYKLNKYQ_ 0 0 0 nc|ENSG00000152910|Q9C0A0-2|CNTNAP4;ENSG00000152910|ENST00000611870|CNTNAP4 nc|ENSG00000152910|Q9C0A0-2|CNTNAP4 nc|ENSG00000152910|Q9C0A0-2|CNTNAP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.4189453125 2 677.385511 1352.75647 NaN NaN NaN NaN NaN NaN NaN 45.785 1 46.611 46.111 47.111 0.82621 0 0 0 1.0003 1 20849 20849 1.4819 0.15237 1 25659 3764 16571 16629 29168 29168 0.0942012813418387 QIWRKRRLWPW 11 Unmodified _QIWRKRRLWPW_ 0 0 0 ENST00000302188.7_1_2:28113810-28113921:-|nuORF ENST00000302188.7_1_2:28113810-28113921:-|nuORF ENST00000302188.7_1_2:28113810-28113921:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 812.9271850585938 2 812.970411 1623.92627 NaN NaN NaN NaN NaN NaN NaN 106.47 1 106.79 106.29 107.29 0.31628 0 0 0 1.0082 1 49133 49133 0 0 1 25660 6809 16572 16630 29169 29169 0.13926288927245878 QKAKKHVL 8 Unmodified _QKAKKHVL_ 0 0 0 ENST00000544007.5_1_14:31028384-31077115:+|nuORF;ENSG00000092140|ENST00000206595|G2E3 ENST00000544007.5_1_14:31028384-31077115:+|nuORF ENST00000544007.5_1_14:31028384-31077115:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 317.8742980957031 3 317.874788 950.602535 1.9775 0.00062859 -2.6915 -0.00085557 -0.71404 -0.00022697 317.8740878114455 53.834 0.33676 54.499 54.203 54.54 0.6644 25 18 2 0 0 0 0.74071 1 24595 24595 1.6526 0 1 1082000 25661 1092 16573 16631 29170 29170 0.12525763159328562 QKALRLRQ 8 Unmodified _QKALRLRQ_ 0 0 0 ENST00000557612.5_1_14:70793009-70793102:-|nuORF ENST00000557612.5_1_14:70793009-70793102:-|nuORF ENST00000557612.5_1_14:70793009-70793102:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.8224792480469 2 506.82235 1011.63015 NaN NaN NaN NaN NaN NaN NaN 75.878 1 76.541 76.041 77.041 0.6635 0 0 0 0.94507 1 36756 36756 9.3474 0 1 25662 8942 16574 16632 29171 29171 0.12479666419540081 QKAQIVKLIKF 11 Unmodified _QKAQIVKLIKF_ 0 0 0 ENSG00000068650|ENST00000375645|ATP11A;ENST00000459908.5_1_13:113439469-113512287:+|nuORF ENSG00000068650|ENST00000375645|ATP11A ENSG00000068650|ENST00000375645|ATP11A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 658.4039306640625 2 658.426648 1314.83874 NaN NaN NaN NaN NaN NaN NaN 78.297 1 78.297 77.797 78.797 0 0 0 0 0.97845 1 38461 38461 8.7454 2.0222 1 25663 737 16575 16633 29172 29172 0.19391650213106004 QKDLDYYFAL 10 Unmodified _QKDLDYYFAL_ 0 0 0 REV__nc|ENSG00000042062|Q96MK2-2|RIPOR3 REV__nc|ENSG00000042062|Q96MK2-2|RIPOR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 638.3182983398438 2 638.316428 1274.6183 3.9101 0.0024959 -0.27452 -0.00017523 3.6356 0.0023206 638.316266568782 65.732 0.34123 65.981 65.824 66.165 0.24848 55 19 4 0 0 0 0.22376 1 30120 30120 36.506 1.5741 1 3771500 + 25664 10320 16576 16634 29173 29173 -0.00802039904965568 QKDTFSQQI 9 Unmodified _QKDTFSQQI_ 0 0 0 ENSG00000117408|ENST00000372343|IPO13 ENSG00000117408|ENST00000372343|IPO13 ENSG00000117408|ENST00000372343|IPO13 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.7994995117188 2 547.77747 1093.54039 NaN NaN NaN NaN NaN NaN NaN 91.165 1 91.417 90.917 91.917 0.25163 0 0 0 0.52632 1 41922 41922 18.146 5.6148 1 25665 2070 16577 16635 29174 29174 -0.0026405277033063612 QKFREAWMQFW 11 Unmodified _QKFREAWMQFW_ 0 0 0 nc|ENSG00000172828|Q6UWW8-2|CES3;ENSG00000172828|ENST00000303334|CES3 nc|ENSG00000172828|Q6UWW8-2|CES3 nc|ENSG00000172828|Q6UWW8-2|CES3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 778.879150390625 2 778.876996 1555.73944 NaN NaN NaN NaN NaN NaN NaN 89.778 1 90.457 89.957 90.957 0.67818 0 0 0 1.008 1 41333 41333 0.26902 0 1 25666 4895 16578 16636 29175 29175 -0.01620115743298811 QKHLWLLG 8 Unmodified _QKHLWLLG_ 0 0 0 ENST00000476524.1_1_21:34907041-34907560:-|nuORF ENST00000476524.1_1_21:34907041-34907560:-|nuORF ENST00000476524.1_1_21:34907041-34907560:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.2006530761719 3 332.199272 993.575986 2.3726 0.00078817 1.399 0.00046476 3.7716 0.0012529 332.1996067039513 49.139 0.47606 49.794 49.474 49.95 0.65524 35 16 3 0 0 0 0.7471 1 22502 22502 0.45834 0 1 1190900 25667 8234 16579 16637 29176 29176 0.0789407426800608 QKIMKRLIKRY 11 Unmodified _QKIMKRLIKRY_ 0 0 0 nc|ENSG00000137672|Q9Y210-2|TRPC6;nc|ENSG00000137672|Q9Y210-3|TRPC6;ENSG00000137672|ENST00000344327|TRPC6;nc|ENSG00000069018|Q9HCX4-2|TRPC7;nc|ENSG00000069018|Q9HCX4-3|TRPC7;ENSG00000069018|ENST00000513104|TRPC7 nc|ENSG00000137672|Q9Y210-2|TRPC6 nc|ENSG00000137672|Q9Y210-2|TRPC6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 370.2369689941406 4 369.985341 1475.91226 2.8393 0.0010505 0.057482 2.1267E-05 2.8968 0.0010718 369.9853675094067 48.599 0.98026 48.862 48.428 49.408 0.26209 131 47 4 0 0 0 0.91345 1 22194 22194 0.45452 0.35968 1 8270600 25668 3031 16580 16638 29177 29177 0.19333875383949817 QKKGGPRVL 9 Unmodified _QKKGGPRVL_ 0 0 0 ENST00000587309.5_1_17:43003545-43003737:-|nuORF ENST00000587309.5_1_17:43003545-43003737:-|nuORF ENST00000587309.5_1_17:43003545-43003737:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.20037841796875 3 328.210059 981.608348 NaN NaN NaN NaN NaN NaN NaN 46.877 1 46.877 46.377 47.377 0 0 0 0 0.90431 1 21458 21458 2.4985 0 1 25669 9195 16581 16639 29178 29178 0.11680861670993181 QKKGHKRK 8 Unmodified _QKKGHKRK_ 0 0 0 nc|ENSG00000130997|Q7Z5Q5-3|POLN;ENST00000515357.5_1_4:2158125-2230958:-|nuORF;ENSG00000130997|ENST00000511885|POLN nc|ENSG00000130997|Q7Z5Q5-3|POLN nc|ENSG00000130997|Q7Z5Q5-3|POLN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 337.2183532714844 3 337.217437 1008.63048 NaN NaN NaN NaN NaN NaN NaN 26.051 1 26.676 26.176 27.176 0.62505 0 0 0 0.99035 1 11945 11945 0.45834 0.18932 1 25670 2633 16582 16640 29179 29179 0.12651086139419476 QKKKKKKK 8 Unmodified _QKKKKKKK_ 0 0 0 nc|ENSG00000167978|Q9UQ35-2|SRRM2;ENSG00000167978|ENST00000301740|SRRM2;SRRM2|p.R1377Pfs*50|1|0.03|ENSG00000167978|chr16:2764657-2764660|AGAT/-|frameshift_variant;AluSz_dup100734|chr21:42594283-42594606:-|1.2254318376354785|0.0495699698250003|4.63|532.0|5|1|sense;L1PB1_dup3131|chr4:69117282-69117596:+|1.59905624223008|0.0293046000434249|5.77|526.0|8|3|sense;ENST00000323571.8_1_17:38438263-38438389:+|nuORF;AluSc_dup13832|chr7:33006087-33006413:-|2.432637109564385|0.4159080058002372|2.55|540.0|7|2|sense;ENST00000265340.11_1_5:134364111-134364312:-|nuORF;ENST00000528205.1_1_11:57472131-57479651:-|nuORF;nc|ENSG00000167978|Q9UQ35-3|SRRM2;nc|ENSG00000070814|Q13428-2|TCOF1;nc|ENSG00000070814|Q13428-8|TCOF1;nc|ENSG00000070814|Q13428-6|TCOF1;nc|ENSG00000070814|Q13428-7|TCOF1;nc|ENSG00000070814|Q13428|TCOF1;ENSG00000070814|ENST00000643257|TCOF1;nc|ENSG00000070814|Q13428-4|TCOF1;AluSc5_dup2926|chr7:128469347-128469653:-|2.0398645452387387|0.2522616082610692|3.02|541.0|3|1|sense;AluJr4_dup19980|chr22:30629343-30629529:+|1.0592181830142802|0.2646484787598915|2.0|540.0|3|1|sense;AluJb_dup44094|chr6:106769172-106769502:-|2.713822644894236|0.2191168083263084|3.63|539.0|9|2|sense;ENSG00000129292|ENST00000395386|PHF20L1;ENST00000607315.1_1_8:30013391-30013664:-|nuORF;ENSG00000111300|ENST00000261745|NAA25;Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|19|2|sense nc|ENSG00000167978|Q9UQ35-2|SRRM2;nc|ENSG00000070814|Q13428-2|TCOF1;ENSG00000129292|ENST00000395386|PHF20L1;ENST00000607315.1_1_8:30013391-30013664:-|nuORF;REV__ENSG00000147649|ENST00000336273|MTDH;REV__nc|ENSG00000067066|P23497-5|SP100;REV__L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|126|3|sense;ENSG00000111300|ENST00000261745|NAA25;Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|19|2|sense nc|ENSG00000167978|Q9UQ35-2|SRRM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.375732421875 2 522.374218 1042.73388 3.5564 0.0018578 0.19271 0.00010067 3.7491 0.0019584 522.3741141200164 103.62 0.19949 104.22 104.12 104.31 0.59821 74 32 3 0 0 0 0.7471 2 47896 47896;47939 0 0 1 2137200 25671 4589;772;2545;9336;12514;17863;1752;17792;9368 16583 16641 29180;29181 29180 0.2142257352722936 QKKKKKKKK 9 Unmodified _QKKKKKKKK_ 0 0 0 nc|ENSG00000070814|Q13428-2|TCOF1;nc|ENSG00000070814|Q13428-8|TCOF1;nc|ENSG00000070814|Q13428-6|TCOF1;nc|ENSG00000070814|Q13428-7|TCOF1;nc|ENSG00000070814|Q13428|TCOF1;ENSG00000070814|ENST00000643257|TCOF1;nc|ENSG00000070814|Q13428-4|TCOF1;AluSc5_dup2926|chr7:128469347-128469653:-|2.0398645452387387|0.2522616082610692|3.02|541.0|3|1|sense;AluJr4_dup19980|chr22:30629343-30629529:+|1.0592181830142802|0.2646484787598915|2.0|540.0|3|1|sense;AluJb_dup44094|chr6:106769172-106769502:-|2.713822644894236|0.2191168083263084|3.63|539.0|9|2|sense;ENSG00000129292|ENST00000395386|PHF20L1;ENST00000607315.1_1_8:30013391-30013664:-|nuORF nc|ENSG00000070814|Q13428-2|TCOF1;ENSG00000129292|ENST00000395386|PHF20L1;ENST00000607315.1_1_8:30013391-30013664:-|nuORF;REV__ENSG00000147649|ENST00000336273|MTDH ENSG00000129292|ENST00000395386|PHF20L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 391.27093505859375 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 19.651 1 19.651 19.151 20.151 0 0 0 0 0.91356 1 8770 8770 0.23584 0 1 25672 772;2545;9336;12514 16584 16642 29182 29182 0.25026506998392506 QKKKKKKKK 9 Unmodified _QKKKKKKKK_ 0 0 0 nc|ENSG00000070814|Q13428-2|TCOF1;nc|ENSG00000070814|Q13428-8|TCOF1;nc|ENSG00000070814|Q13428-6|TCOF1;nc|ENSG00000070814|Q13428-7|TCOF1;nc|ENSG00000070814|Q13428|TCOF1;ENSG00000070814|ENST00000643257|TCOF1;nc|ENSG00000070814|Q13428-4|TCOF1;AluSc5_dup2926|chr7:128469347-128469653:-|2.0398645452387387|0.2522616082610692|3.02|541.0|3|1|sense;AluJr4_dup19980|chr22:30629343-30629529:+|1.0592181830142802|0.2646484787598915|2.0|540.0|3|1|sense;AluJb_dup44094|chr6:106769172-106769502:-|2.713822644894236|0.2191168083263084|3.63|539.0|9|2|sense;ENSG00000129292|ENST00000395386|PHF20L1;ENST00000607315.1_1_8:30013391-30013664:-|nuORF nc|ENSG00000070814|Q13428-2|TCOF1;ENSG00000129292|ENST00000395386|PHF20L1;ENST00000607315.1_1_8:30013391-30013664:-|nuORF;REV__ENSG00000147649|ENST00000336273|MTDH ENSG00000129292|ENST00000395386|PHF20L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 391.2856140136719 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 28.48 1 28.48 27.98 28.98 0 0 0 0 0.91342 1 12841 12841 0.26902 0 1 25673 772;2545;9336;12514 16584 16642 29183 29183 0.25026506998392506 QKKKKKKKK 9 Unmodified _QKKKKKKKK_ 0 0 0 nc|ENSG00000070814|Q13428-2|TCOF1;nc|ENSG00000070814|Q13428-8|TCOF1;nc|ENSG00000070814|Q13428-6|TCOF1;nc|ENSG00000070814|Q13428-7|TCOF1;nc|ENSG00000070814|Q13428|TCOF1;ENSG00000070814|ENST00000643257|TCOF1;nc|ENSG00000070814|Q13428-4|TCOF1;AluSc5_dup2926|chr7:128469347-128469653:-|2.0398645452387387|0.2522616082610692|3.02|541.0|3|1|sense;AluJr4_dup19980|chr22:30629343-30629529:+|1.0592181830142802|0.2646484787598915|2.0|540.0|3|1|sense;AluJb_dup44094|chr6:106769172-106769502:-|2.713822644894236|0.2191168083263084|3.63|539.0|9|2|sense;ENSG00000129292|ENST00000395386|PHF20L1;ENST00000607315.1_1_8:30013391-30013664:-|nuORF nc|ENSG00000070814|Q13428-2|TCOF1;ENSG00000129292|ENST00000395386|PHF20L1;ENST00000607315.1_1_8:30013391-30013664:-|nuORF;REV__ENSG00000147649|ENST00000336273|MTDH ENSG00000129292|ENST00000395386|PHF20L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.2853698730469 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 80.906 1 81.154 80.654 81.654 0.24803 0 0 0 0.91342 1 37251 37251 0.26902 0 1 25674 772;2545;9336;12514 16584 16642 29184 29184 0.25026506998392506 QKKKKKKKK 9 Unmodified _QKKKKKKKK_ 0 0 0 nc|ENSG00000070814|Q13428-2|TCOF1;nc|ENSG00000070814|Q13428-8|TCOF1;nc|ENSG00000070814|Q13428-6|TCOF1;nc|ENSG00000070814|Q13428-7|TCOF1;nc|ENSG00000070814|Q13428|TCOF1;ENSG00000070814|ENST00000643257|TCOF1;nc|ENSG00000070814|Q13428-4|TCOF1;AluSc5_dup2926|chr7:128469347-128469653:-|2.0398645452387387|0.2522616082610692|3.02|541.0|3|1|sense;AluJr4_dup19980|chr22:30629343-30629529:+|1.0592181830142802|0.2646484787598915|2.0|540.0|3|1|sense;AluJb_dup44094|chr6:106769172-106769502:-|2.713822644894236|0.2191168083263084|3.63|539.0|9|2|sense;ENSG00000129292|ENST00000395386|PHF20L1;ENST00000607315.1_1_8:30013391-30013664:-|nuORF nc|ENSG00000070814|Q13428-2|TCOF1;ENSG00000129292|ENST00000395386|PHF20L1;ENST00000607315.1_1_8:30013391-30013664:-|nuORF;REV__ENSG00000147649|ENST00000336273|MTDH ENSG00000129292|ENST00000395386|PHF20L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.28546142578125 3 391.283559 1170.82885 NaN NaN NaN NaN NaN NaN NaN 26.819 1 27.441 26.941 27.941 0.62179 0 0 0 0.91342 1 12295 12295 0.26902 0 1 25675 772;2545;9336;12514 16584 16642 29185 29185 0.25026506998392506 QKKKKKKKKKA 11 Unmodified _QKKKKKKKKKA_ 0 0 0 ENST00000607315.1_1_8:30013391-30013664:-|nuORF ENST00000607315.1_1_8:30013391-30013664:-|nuORF ENST00000607315.1_1_8:30013391-30013664:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 685.98876953125 2 685.987738 1369.96092 NaN NaN NaN NaN NaN NaN NaN 76.791 1 77.415 76.915 77.915 0.62397 0 0 0 1.0082 1 37231 37231 0 0 1 25676 9336 16585 16643 29186 29186 0.2907411201533705 QKKKKKKKLRK 11 Unmodified _QKKKKKKKLRK_ 0 0 0 REV__nc|ENSG00000067066|P23497-5|SP100 REV__nc|ENSG00000067066|P23497-5|SP100 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 721.0147705078125 2 721.014287 1440.01402 NaN NaN NaN NaN NaN NaN NaN 95.158 1 95.158 94.658 95.658 0 0 0 0 1.0082 1 51176 51176 0 0 1 + 25677 17863 16586 16644 29187 29187 0.3116148979800073 QKKKKKNKK 9 Unmodified _QKKKKKNKK_ 0 0 0 AluY_dup49344|chr8:133361464-133361769:+|1.030317764595114|0.0147538292618742|6.13|519.0|11|3|sense AluY_dup49344|chr8:133361464-133361769:+|1.030317764595114|0.0147538292618742|6.13|519.0|11|3|sense AluY_dup49344|chr8:133361464-133361769:+|1.030317764595114|0.0147538292618742|6.13|519.0|11|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.3961791992188 2 579.395682 1156.77681 NaN NaN NaN NaN NaN NaN NaN 13.571 1 13.571 13.071 14.071 0 0 0 0 0.84134 1 5944 5944 7.9102 0 1 25678 53 16587 16645 29188 29188 0.2046934358463659 QKKKRKKVLLE 11 Unmodified _QKKKRKKVLLE_ 0 0 0 ENST00000470309.5_1_7:91870289-91871464:-|nuORF;nc|ENSG00000001631|O00522-3|KRIT1;ENSG00000001631|ENST00000394505|KRIT1 ENST00000470309.5_1_7:91870289-91871464:-|nuORF ENST00000470309.5_1_7:91870289-91871464:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 699.4713745117188 2 699.469378 1396.9242 NaN NaN NaN NaN NaN NaN NaN 62.126 1 62.126 61.626 62.626 0 0 0 0 1.0079 1 29084 29084 0 0 1 25679 298 16588 16646 29189 29189 0.24161815398815634 QKKLAKAAL 9 Unmodified _QKKLAKAAL_ 0 0 0 REV__ENSG00000088038|ENST00000221232|CNOT3 REV__ENSG00000088038|ENST00000221232|CNOT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 324.2278137207031 3 324.218443 969.633501 NaN NaN NaN NaN NaN NaN NaN 25.109 1 25.872 25.372 26.372 0.76356 0 0 0 0.83378 1 11263 11263 8.1555 1.4324 1 + 25680 10673 16589 16647 29190 29190 0.14746916473552574 QKKQPVQK 8 Unmodified _QKKQPVQK_ 0 0 0 ENSG00000166197|ENST00000605788|NOLC1;nc|ENSG00000166197|Q14978-3|NOLC1;nc|ENSG00000166197|Q14978-2|NOLC1 ENSG00000166197|ENST00000605788|NOLC1 ENSG00000166197|ENST00000605788|NOLC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.3044738769531 2 492.303458 982.592364 NaN NaN NaN NaN NaN NaN NaN 100.33 1 100.64 100.14 101.14 0.30835 0 0 0 0.99035 1 46405 46405 2.3027 0 1 25681 4460 16590 16648 29191 29191 0.10037155434088163 QKKRLMMN 8 Unmodified _QKKRLMMN_ 0 0 0 REV__ENST00000402768.1_1_6:139935577-139935790:-|nuORF REV__ENST00000402768.1_1_6:139935577-139935790:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.2076416015625 3 350.196656 1047.56814 NaN NaN NaN NaN NaN NaN NaN 39.476 1 40.276 39.776 40.776 0.80014 0 0 0 0.99035 1 17872 17872 1.6526 0.58116 1 + 25682 16051 16591 16649 29192 29192 0.04625855684571434 QKKRRIKLYQK 11 Unmodified _QKKRRIKLYQK_ 0 0 0 nc|ENSG00000146414|Q149N8-2|SHPRH;nc|ENSG00000146414|Q149N8-4|SHPRH;ENSG00000146414|ENST00000275233|SHPRH;nc|ENSG00000146414|Q149N8-5|SHPRH nc|ENSG00000146414|Q149N8-2|SHPRH nc|ENSG00000146414|Q149N8-2|SHPRH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 744.978515625 2 744.977902 1487.94125 NaN NaN NaN NaN NaN NaN NaN 57.791 1 58.559 58.059 59.059 0.76861 0 0 0 1.0038 1 26484 26484 5.7319 2.7366 1 25683 3516 16592 16650 29193 29193 0.21679736004580263 QKKRRKNLLRN 11 Unmodified _QKKRRKNLLRN_ 0 0 0 REV__ENSG00000114738|ENST00000621469|MAPKAPK3 REV__ENSG00000114738|ENST00000621469|MAPKAPK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.87506103515625 3 485.311059 1452.91135 NaN NaN NaN NaN NaN NaN NaN 104.28 1 104.28 103.78 104.78 0 0 0 0 1.0082 1 57398 57398 0.094841 0.011491 1 + 25684 11330 16593 16651 29194 29194 0.20300797059258002 QKKRRYQKKEK 11 Unmodified _QKKRRYQKKEK_ 0 0 0 ENST00000282964.5_1_21:21112145-21112373:+|nuORF ENST00000282964.5_1_21:21112145-21112373:+|nuORF ENST00000282964.5_1_21:21112145-21112373:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.3116760253906 3 507.310836 1518.91068 4.103 0.0020815 -2.0506 -0.0010403 2.0524 0.0010412 507.3096565029452 106.13 0.1741 106.44 106.35 106.52 0.31628 18 6 5 0 0 0 0.91459 1 48985 48985 0.094841 0.094841 1 1180500 25685 6703 16594 16652 29195 29195 0.17197957619532644 QKKSSKKKKIS 11 Unmodified _QKKSSKKKKIS_ 0 0 0 nc|ENSG00000165194|Q8TAB3-3|PCDH19;nc|ENSG00000165194|Q8TAB3-2|PCDH19;PCDH19|p.E1054Rfs*76|1|0.38|ENSG00000165194|chrX:100296564-100296564|C/-|frameshift_variant;ENSG00000165194|ENST00000373034|PCDH19 nc|ENSG00000165194|Q8TAB3-3|PCDH19 nc|ENSG00000165194|Q8TAB3-3|PCDH19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 645.415283203125 2 645.416811 1288.81907 NaN NaN NaN NaN NaN NaN NaN 59.263 1 59.263 58.763 59.763 0 0 0 0 1.0072 1 27390 27390 1.3295 0 1 25686 4380 16595 16653 29196 29196 0.18621274202382665 QKLKGMNFY 9 Unmodified _QKLKGMNFY_ 0 0 0 REV__ENSG00000085117|ENST00000227155|CD82 REV__ENSG00000085117|ENST00000227155|CD82 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.796875 2 564.797152 1127.57975 NaN NaN NaN NaN NaN NaN NaN 40.428 1 41.228 40.728 41.728 0.80014 0 0 0 0.90699 1 18310 18310 1.8442 0.36234 1 + 25687 10639 16596 16654 29197 29197 0.02106375979542463 QKLKISLS 8 Unmodified _QKLKISLS_ 0 0 0 AluJb_dup39979|chr5:178237011-178237289:-|1.3504635536989409|0.1262173564426097|3.42|519.0|7|2|sense AluJb_dup39979|chr5:178237011-178237289:-|1.3504635536989409|0.1262173564426097|3.42|519.0|7|2|sense AluJb_dup39979|chr5:178237011-178237289:-|1.3504635536989409|0.1262173564426097|3.42|519.0|7|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 306.2000427246094 3 306.199049 915.575317 NaN NaN NaN NaN NaN NaN NaN 41.981 1 41.981 41.481 42.481 0 0 0 0 0.99035 1 19105 19105 1.6526 0 1 25688 27 16597 16655 29198 29198 0.11415234828291432 QKLNYMLLAK 10 Unmodified _QKLNYMLLAK_ 0 0 0 ENSG00000163568|ENST00000368130|AIM2 ENSG00000163568|ENST00000368130|AIM2 ENSG00000163568|ENST00000368130|AIM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.35791015625 2 611.354834 1220.69511 NaN NaN NaN NaN NaN NaN NaN 92.006 1 92.259 91.759 92.759 0.25253 0 0 0 1.0003 1 42300 42300 1.4819 0 1 25689 4226 16598 16656 29199 29199 0.09359480110538243 QKLQKIEKRAE 11 Unmodified _QKLQKIEKRAE_ 0 0 0 REV__nc|ENSG00000101298|O15079|SNPH REV__nc|ENSG00000101298|O15079|SNPH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.9110107421875 2 685.90935 1369.80415 4.1545 0.0028496 -0.70309 -0.00048226 3.4514 0.0023674 685.9086674867965 94.938 0.94016 95.555 94.962 95.902 0.61736 106 52 5 0 0 0 0.91111 1 43706 43706 1.1933 0 1 3449400 + 25690 10883 16599 16657 29200 29200 0.1340378233435331 QKLQKKLI 8 Unmodified _QKLQKKLI_ 0 0 0 REV__nc|ENSG00000198947|P11532-4|DMD REV__nc|ENSG00000198947|P11532-4|DMD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.6851806640625 2 499.839677 997.664801 NaN NaN NaN NaN NaN NaN NaN 76.806 1 76.806 76.306 77.306 0 0 0 0 0.95658 1 37648 37648 8.5933 0 1 + 25691 14386 16600 16658 29201 29201 0.16587489507651298 QKLVKKILGPA 11 Unmodified _QKLVKKILGPA_ 0 0 0 ENSG00000135837|ENST00000367607|CEP350 ENSG00000135837|ENST00000367607|CEP350 ENSG00000135837|ENST00000367607|CEP350 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.90087890625 2 597.900266 1193.78598 NaN NaN NaN NaN NaN NaN NaN 104.82 1 105.42 104.92 105.92 0.59885 0 0 0 1.0073 1 48422 48422 1.1933 0.66858 1 25692 2901 16601 16659 29202 29202 0.1968369215032908 QKLWEVVHA 9 Unmodified _QKLWEVVHA_ 0 0 0 nc|ENSG00000178385|Q6ZWE6-3|PLEKHM3;nc|ENSG00000178385|Q6ZWE6-2|PLEKHM3;ENSG00000178385|ENST00000427836|PLEKHM3 nc|ENSG00000178385|Q6ZWE6-3|PLEKHM3 nc|ENSG00000178385|Q6ZWE6-3|PLEKHM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.335205078125 2 555.308741 1108.60293 NaN NaN NaN NaN NaN NaN NaN 77.156 1 77.156 76.656 77.656 0 0 0 0 0.75166 1 37827 37827 10.824 0.75 1 25693 5163 16602 16660 29203 29203 0.05297138088531028 QKNTVKFYI 9 Unmodified _QKNTVKFYI_ 0 0 0 ENST00000459993.5_1_3:56657067-56667992:-|nuORF;nc|ENSG00000163946|Q9UK61-2|TASOR;nc|ENSG00000163946|Q9UK61-3|TASOR;nc|ENSG00000163946|Q9UK61-4|TASOR;ENSG00000163946|ENST00000683822|TASOR ENST00000459993.5_1_3:56657067-56667992:-|nuORF ENST00000459993.5_1_3:56657067-56667992:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.8265380859375 2 570.824224 1139.63389 3.4477 0.001968 1.2119 0.00069178 4.6595 0.0026598 570.8246905536582 62.696 0.29921 63.355 63.165 63.464 0.65808 34 19 2 0 0 0 0.1111 1 28646 28646 1.6526 0 1 1571800 25694 4266 16603 16661 29204 29204 0.06966291402773095 QKNTVKFYI 9 Unmodified _QKNTVKFYI_ 0 0 0 ENST00000459993.5_1_3:56657067-56667992:-|nuORF;nc|ENSG00000163946|Q9UK61-2|TASOR;nc|ENSG00000163946|Q9UK61-3|TASOR;nc|ENSG00000163946|Q9UK61-4|TASOR;ENSG00000163946|ENST00000683822|TASOR ENST00000459993.5_1_3:56657067-56667992:-|nuORF ENST00000459993.5_1_3:56657067-56667992:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 570.824224 1139.63389 3.3365 0.0019046 1.8507 0.0010564 5.1872 0.002961 570.8249744923646 62.974 0.38572 63.224 62.984 63.37 0.24965 -0.065325 0.00040622 NaN 1.6526 39 24 2 NaN NaN NaN NaN 0 NaN NaN 0 1533300 25695 4266 16603 16661 0.06966291402773095 QKPHKKPG 8 Unmodified _QKPHKKPG_ 0 0 0 ENST00000595376.1_1_19:49302930-49310451:-|nuORF;ENSG00000105552|ENST00000316273|BCAT2 ENST00000595376.1_1_19:49302930-49310451:-|nuORF ENST00000595376.1_1_19:49302930-49310451:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 307.18939208984375 3 307.187255 918.539935 NaN NaN NaN NaN NaN NaN NaN 27.542 1 28.328 27.828 28.828 0.78627 0 0 0 0.99035 1 12386 12386 0.40072 0 1 25696 1506 16604 16662 29205 29205 0.07740617091133117 QKRALEYL 8 Unmodified _QKRALEYL_ 0 0 0 REV__nc|ENSG00000185842|Q0VDD8-4|DNAH14;REV__nc|ENSG00000185842|Q0VDD8|DNAH14 REV__nc|ENSG00000185842|Q0VDD8|DNAH14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 340.86700439453125 3 340.86607 1019.57638 1.956 0.00066675 0.29908 0.00010195 2.2551 0.0007687 340.8662117337072 13.262 0.34163 13.569 13.388 13.729 0.30727 74 23 4 0 0 0 0.70146 1 6039 6039 7.2892 0 1 2872700 + 25697 14032;18079 16605 16663 29206 29206 0.06737449197191836 QKRALFFRFV 10 Unmodified _QKRALFFRFV_ 0 0 0 nc|ENSG00000196367|Q9Y4A5-2|TRRAP;nc|ENSG00000196367|Q9Y4A5|TRRAP;ENSG00000196367|ENST00000456197|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.69830322265625 4 328.697567 1310.76116 2.2617 0.00074342 0.41198 0.00013542 2.6737 0.00087884 328.6976695892243 40.317 0.78276 40.317 39.729 40.512 0 59 30 2 0 0 0 0.93503 1 18304 18304 1.9064 1.9064 1 1643200 25698 5739 16606 16664 29207 29207 0.11821057067572838 QKRALFFRFV 10 Unmodified _QKRALFFRFV_ 0 0 0 nc|ENSG00000196367|Q9Y4A5-2|TRRAP;nc|ENSG00000196367|Q9Y4A5|TRRAP;ENSG00000196367|ENST00000456197|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.69866943359375 4 328.697567 1310.76116 2.4099 0.00079213 0.31066 0.00010211 2.7206 0.00089424 328.6975751219054 39.961 1.0846 40.228 39.32 40.404 0.26696 110 42 4 0 0 0 0.94099 1 17948 17948 0.69767 0 1 1469300 25699 5739 16606 16664 29208 29208 0.11821057067572838 QKRALKSVHQ 10 Unmodified _QKRALKSVHQ_ 0 0 0 REV__ENST00000569916.1_1_16:58633100-58633220:-|nuORF REV__ENST00000569916.1_1_16:58633100-58633220:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.8599853515625 2 597.856921 1193.69929 4.1885 0.0025041 -0.64247 -0.00038411 3.5461 0.00212 597.8562632215801 88.623 0.81973 89.301 89.016 89.836 0.67818 65 35 3 0 0 0 0.93788 1 40978 40978 1.3295 0.25807 1 741520 + 25700 17442 16607 16665 29209 29209 0.11018705648461946 QKRASILQ 8 Unmodified _QKRASILQ_ 0 0 0 ENSG00000154240|ENST00000535342|CEP112;nc|ENSG00000154240|Q8N8E3-2|CEP112 ENSG00000154240|ENST00000535342|CEP112 ENSG00000154240|ENST00000535342|CEP112 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 314.71295166015625 3 315.194298 942.561064 2.2568 0.00071134 -0.68157 -0.00021483 1.5753 0.00049652 315.1940686218713 19.081 0.20336 19.739 19.685 19.888 0.65829 30 17 2 0 0 0 0.13721 1 8684 8684 13.906 5.4617 1 379020 25701 3812 16608 16666 29210 29210 0.08748582400005489 QKRGRAAA 8 Unmodified _QKRGRAAA_ 0 0 0 ENST00000315480.8_1_9:132642720-132642852:+|nuORF ENST00000315480.8_1_9:132642720-132642852:+|nuORF ENST00000315480.8_1_9:132642720-132642852:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 429.2583923339844 2 429.256843 856.499132 2.2583 0.00096939 -0.056017 -2.4046E-05 2.2023 0.00094535 429.2567188065523 72.757 0.23219 73.456 73.352 73.584 0.69881 37 20 2 0 0 0 0.7441 1 35048 35048 2.3027 0 1 1680600 25702 6897 16609 16667 29211 29211 0.06514275771496614 QKRKAWIQ 8 Unmodified _QKRKAWIQ_ 0 0 0 REV__ENST00000489266.5_1_10:123730488-123733548:-|nuORF REV__ENST00000489266.5_1_10:123730488-123733548:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 353.2139587402344 3 353.213692 1056.61925 NaN NaN NaN NaN NaN NaN NaN 40.511 1 41.153 40.653 41.653 0.64136 0 0 0 0.99035 1 18518 18518 1.4819 0 1 + 25703 16790 16610 16668 29212 29212 0.09320264045254589 QKRKKRRNRR 10 Unmodified _QKRKKRRNRR_ 0 0 0 REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.13385009765625 4 357.232905 1424.90251 2.0043 0.000716 0.21356 7.6292E-05 2.2179 0.00079229 357.2329454578324 75.275 0.45119 75.275 75.067 75.519 0 111 40 4 0 0 0 0.12676 1 36789 36789 0.69767 0.53834 1 4692200 + 25704 14244 16611 16669 29213 29213 0.20705868213440226 QKRKKRRNRR 10 Unmodified _QKRKKRRNRR_ 0 0 0 REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 357.2337341308594 4 357.232905 1424.90251 1.8965 0.00067749 -0.014035 -5.0137E-06 1.8825 0.00067248 357.48365661950675 74.05 0.29744 74.736 74.58 74.877 0.68662 59 27 3 0 0 0 0.89607 2 35803 35743;35803 3.8763 3.4218 1 4653800 + 25705 14244 16611 16669 29214;29215 29215 0.20705868213440226 QKRKKRRNRR 10 Unmodified _QKRKKRRNRR_ 0 0 0 REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 357.2334899902344 4 357.232905 1424.90251 1.8848 0.00067331 -0.15967 -5.7039E-05 1.7251 0.00061627 357.2327762290314 74.471 0.42904 75.158 74.877 75.306 0.68662 79 31 3 0 0 0 0.12676 1 35990 35990 3.8763 3.4218 1 2903000 + 25706 14244 16611 16669 29216 29216 0.20705868213440226 QKRKKRRNRR 10 Unmodified _QKRKKRRNRR_ 0 0 0 REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.48419189453125 4 357.232905 1424.90251 2.0011 0.00071485 -0.21004 -7.5033E-05 1.791 0.00063981 357.2328053760345 74.022 0.33434 74.687 74.562 74.896 0.6644 106 39 3 0 0 0 0.93503 1 34047 34047 1.9064 1.4981 1 1539100 + 25707 14244 16611 16669 29217 29217 0.20705868213440226 QKRKKRRNRR 10 Unmodified _QKRKKRRNRR_ 0 0 0 REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 357.232905 1424.90251 1.8965 0.00067749 -0.014035 -5.0137E-06 1.8825 0.00067248 357.48365661950675 74.05 0.29744 74.736 74.58 74.877 0.68662 -0.081626 0.00019205 NaN 3.8763 59 27 3 NaN NaN NaN NaN 0 NaN NaN 0 4653800 + 25708 14244 16611 16669 0.20705868213440226 QKRKKRRNRR 10 Unmodified _QKRKKRRNRR_ 0 0 0 REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 357.232905 1424.90251 2.2632 0.0008085 -0.15392 -5.4986E-05 2.1093 0.00075351 357.4836287423065 74.646 0.45571 74.905 74.703 75.159 0.2583 0.086738 -7.8371E-06 NaN 3.8763 102 45 3 NaN NaN NaN NaN 0 NaN NaN 0 1398700 + 25709 14244 16611 16669 0.20705868213440226 QKRKKRRNRR 10 Unmodified _QKRKKRRNRR_ 0 0 0 REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 357.232905 1424.90251 2.28 0.00081447 -0.17503 -6.2526E-05 2.1049 0.00075195 357.23279414018305 75.085 0.41991 75.344 75.073 75.493 0.25831 0.096693 -0.00012421 NaN 0.69767 91 40 3 NaN NaN NaN NaN 0 NaN NaN 0 1240900 + 25710 14244 16611 16669 0.20705868213440226 QKRKKRRNRR 10 Unmodified _QKRKKRRNRR_ 0 0 0 REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 357.232905 1424.90251 2.0011 0.00071485 -0.21004 -7.5033E-05 1.791 0.00063981 357.2328053760345 74.022 0.33434 74.687 74.562 74.896 0.6644 -0.13107 -8.8025E-05 NaN 3.8763 106 39 3 NaN NaN NaN NaN 0 NaN NaN 0 1539100 + 25711 14244 16611 16669 0.20705868213440226 QKRKKRRNRR 10 Unmodified _QKRKKRRNRR_ 0 0 0 REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 357.232905 1424.90251 2.0336 0.00072646 -0.24495 -8.7504E-05 1.7886 0.00063895 357.4836390923741 74.547 0.33714 75.211 75.005 75.342 0.6644 -0.035651 -0.00022413 NaN 0.69767 90 36 3 NaN NaN NaN NaN 0 NaN NaN 0 2011200 + 25712 14244 16611 16669 0.20705868213440226 QKRKNKKKKKK 11 Unmodified _QKRKNKKKKKK_ 0 0 0 ENST00000392686.6_1_3:178977460-178977592:-|nuORF ENST00000392686.6_1_3:178977460-178977592:-|nuORF ENST00000392686.6_1_3:178977460-178977592:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 721.4923095703125 2 721.493719 1440.97288 NaN NaN NaN NaN NaN NaN NaN 51.449 1 52.267 51.767 52.767 0.81738 0 0 0 1.0082 1 23437 23437 0 0 1 25713 7520 16612 16670 29218 29218 0.27003728758518264 QKRKRDRLRD 10 Unmodified _QKRKRDRLRD_ 0 0 0 ENSG00000157014|ENST00000448281|TATDN2 ENSG00000157014|ENST00000448281|TATDN2 ENSG00000157014|ENST00000448281|TATDN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.60980224609375 3 457.607764 1369.80146 3.3874 0.0015501 1.1971 0.00054778 4.5845 0.0020979 457.60827185939223 93.526 1.3966 93.781 93.308 94.704 0.25497 102 68 2 0 0 0 0.9427 1 42983 42983 0.12286 0.039514 1 481500 25714 3935 16613 16671 29219 29219 0.13135371720068179 QKRKRDRLRD 10 Unmodified _QKRKRDRLRD_ 0 0 0 ENSG00000157014|ENST00000448281|TATDN2 ENSG00000157014|ENST00000448281|TATDN2 ENSG00000157014|ENST00000448281|TATDN2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 457.607764 1369.80146 3.1304 0.0014325 0.74264 0.00033984 3.873 0.0017723 457.6081182478636 93.197 1.0086 93.828 93.116 94.124 0.63116 0.023743 -0.00031718 NaN 0.12286 87 53 3 NaN NaN NaN NaN 0 NaN NaN 0 416560 25715 3935 16613 16671 0.13135371720068179 QKRLHWYYYYR 11 Unmodified _QKRLHWYYYYR_ 0 0 0 REV__nc|ENSG00000139926|Q96NE9-2|FRMD6 REV__nc|ENSG00000139926|Q96NE9-2|FRMD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 838.4254150390625 2 838.428242 1674.84193 NaN NaN NaN NaN NaN NaN NaN 61.605 1 61.605 61.105 62.105 0 0 0 0 1.008 1 28752 28752 0.30703 0.03801 1 + 25716 12225 16614 16672 29220 29220 0.03150293319845332 QKRLHWYYYYR 11 Unmodified _QKRLHWYYYYR_ 0 0 0 REV__nc|ENSG00000139926|Q96NE9-2|FRMD6 REV__nc|ENSG00000139926|Q96NE9-2|FRMD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 838.431396484375 2 838.428242 1674.84193 NaN NaN NaN NaN NaN NaN NaN 63.537 1 63.537 63.037 64.037 0 0 0 0 1.0082 1 29905 29905 0 0 1 + 25717 12225 16614 16672 29221 29221 0.03150293319845332 QKRLHWYYYYR 11 Unmodified _QKRLHWYYYYR_ 0 0 0 REV__nc|ENSG00000139926|Q96NE9-2|FRMD6 REV__nc|ENSG00000139926|Q96NE9-2|FRMD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 838.125 2 838.428242 1674.84193 NaN NaN NaN NaN NaN NaN NaN 63.943 1 63.943 63.443 64.443 0 0 0 0 1.0082 1 30173 30173 0 0 1 + 25718 12225 16614 16672 29222 29222 0.03150293319845332 QKRLHWYYYYR 11 Unmodified _QKRLHWYYYYR_ 0 0 0 REV__nc|ENSG00000139926|Q96NE9-2|FRMD6 REV__nc|ENSG00000139926|Q96NE9-2|FRMD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 838.4317626953125 2 838.428242 1674.84193 NaN NaN NaN NaN NaN NaN NaN 69.433 1 69.433 68.933 69.933 0 0 0 0 1.0082 1 33526 33526 0 0 1 + 25719 12225 16614 16672 29223 29223 0.03150293319845332 QKRLKKKKI 9 Unmodified _QKRLKKKKI_ 0 0 0 ENSG00000187527|ENST00000342358|ATP13A5 ENSG00000187527|ENST00000342358|ATP13A5 ENSG00000187527|ENST00000342358|ATP13A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.4152221679688 2 585.413875 1168.8132 NaN NaN NaN NaN NaN NaN NaN 107.62 1 108.23 107.73 108.73 0.6019 0 0 0 0.91452 1 49670 49670 0 0 1 25720 5620 16615 16673 29224 29224 0.23554220481355514 QKRLKTVL 8 Unmodified _QKRLKTVL_ 0 0 0 nc|ENSG00000135387|Q14444-2|CAPRIN1;ENSG00000135387|ENST00000341394|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 493.33123779296875 2 493.329476 984.6444 3.1916 0.0015745 3.0277 0.0014936 6.2193 0.0030681 493.32930534928096 13.005 0.20371 13.005 12.833 13.036 0 14 10 2 0 0 0 0.54363 1 5681 5681 23.148 6.2061 1 353190 25721 2868 16616 16674 29225 29225 0.15146318847837392 QKRLRRWYERS 11 Unmodified _QKRLRRWYERS_ 0 0 0 REV__ENSG00000183617|ENST00000330133|MRPL54 REV__ENSG00000183617|ENST00000330133|MRPL54 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.6318969726562 3 526.630569 1576.86988 NaN NaN NaN NaN NaN NaN NaN 30.038 1 30.038 29.538 30.538 0 0 0 0 1.008 1 13567 13567 0.08335 0 1 + 25722 13939 16617 16675 29226 29226 0.10451616299928901 QKRRFHFF 8 Unmodified _QKRRFHFF_ 0 0 0 nc|ENSG00000136206|Q8NFV5|SPDYE1;ENSG00000136206|ENST00000693451|SPDYE1;nc|ENSG00000205238|Q495Y8-2|SPDYE2;ENSG00000260097|ENST00000563237|SPDYE6;ENSG00000205238|ENST00000691607|SPDYE2;ENSG00000173678|ENST00000507450|SPDYE2B nc|ENSG00000136206|Q8NFV5|SPDYE1 nc|ENSG00000136206|Q8NFV5|SPDYE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 583.4092407226562 2 583.322517 1164.63048 NaN NaN NaN NaN NaN NaN NaN 75.69 1 76.353 75.853 76.853 0.6635 0 0 0 0.94507 1 36657 36657 9.3474 2.6243 1 25723 2932 16618 16676 29227 29227 0.05475086139404084 QKRRFHFFCSM 11 Unmodified _QKRRFHFFCSM_ 0 0 0 nc|ENSG00000136206|Q8NFV5|SPDYE1;ENSG00000136206|ENST00000693451|SPDYE1;nc|ENSG00000205238|Q495Y8-2|SPDYE2;ENSG00000260097|ENST00000563237|SPDYE6;ENSG00000205238|ENST00000691607|SPDYE2;ENSG00000173678|ENST00000507450|SPDYE2B nc|ENSG00000136206|Q8NFV5|SPDYE1 nc|ENSG00000136206|Q8NFV5|SPDYE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 743.8638305664062 2 743.863366 1485.71218 NaN NaN NaN NaN NaN NaN NaN 75.722 1 76.385 75.885 76.885 0.6635 0 0 0 1.0059 1 36676 36676 2.9952 0.26005 1 25724 2932 16619 16677 29228 29228 -0.011249225553001452 QKRRKLLLILK 11 Unmodified _QKRRKLLLILK_ 0 0 0 ENST00000467796.5_1_22:51221718-51237143:+|nuORF;ENST00000480246.1_1_22:51222460-51237143:+|nuORF ENST00000467796.5_1_22:51221718-51237143:+|nuORF ENST00000467796.5_1_22:51221718-51237143:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 704.9978637695312 2 704.995563 1407.97657 NaN NaN NaN NaN NaN NaN NaN 69.058 1 69.76 69.26 70.26 0.70218 0 0 0 1.0082 1 32992 32992 0 0 1 25725 8148 16620 16678 29229 29229 0.2889039853241684 QKRRQKRYYNE 11 Unmodified _QKRRQKRYYNE_ 0 0 0 REV__EXOC6B|p.F423Lfs*5|1|0.34|ENSG00000144036|chr2:72498522-72498522|A/-|frameshift_variant REV__EXOC6B|p.F423Lfs*5|1|0.34|ENSG00000144036|chr2:72498522-72498522|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 784.9239501953125 2 784.923855 1567.83316 NaN NaN NaN NaN NaN NaN NaN 28.208 1 28.994 28.494 29.494 0.78627 0 0 0 1.0082 1 12699 12699 0 0 1 + 25726 12390 16621 16679 29230 29230 0.07195319683387424 QKRRRFVWTFW 11 Unmodified _QKRRRFVWTFW_ 0 0 0 ENST00000479578.5_1_1:110198981-110200495:+|nuORF ENST00000479578.5_1_1:110198981-110200495:+|nuORF ENST00000479578.5_1_1:110198981-110200495:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 805.4468383789062 2 805.446769 1608.87898 NaN NaN NaN NaN NaN NaN NaN 54.026 1 54.822 54.322 55.322 0.79552 0 0 0 1.0082 1 24652 24652 0 0 1 25727 8264 16622 16680 29231 29231 0.0989000965626019 QKRRRGPRA 9 Unmodified _QKRRRGPRA_ 0 0 0 ENSG00000065883|ENST00000181839|CDK13;nc|ENSG00000065883|Q14004-2|CDK13;CDK13|p.T588Nfs*31|1|0.11|ENSG00000065883|chr7:39988148-39988149|-/A|frameshift_variant ENSG00000065883|ENST00000181839|CDK13 ENSG00000065883|ENST00000181839|CDK13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.8465576171875 2 562.847222 1123.67989 NaN NaN NaN NaN NaN NaN NaN 103.62 1 103.67 103.17 104.17 0.052994 0 0 0 0.90699 1 56163 56163 1.8442 0 1 25728 697 16623 16681 29232 29232 0.12299794148225374 QKRRRHRATRK 11 Unmodified _QKRRRHRATRK_ 0 0 0 ENSG00000155269|ENST00000382487|GPR78 ENSG00000155269|ENST00000382487|GPR78 ENSG00000155269|ENST00000382487|GPR78 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.4877624511719 4 373.984358 1491.90833 2.4026 0.00089852 0.38079 0.00014241 2.7834 0.0010409 373.9840342109141 39.905 0.23993 40.705 40.549 40.789 0.80014 21 10 3 0 0 0 0.91459 1 18060 18060 0.094841 0.011491 1 523930 25729 3856 16624 16682 29233 29233 0.18204966725102167 QKRRRHRATRK 11 Unmodified _QKRRRHRATRK_ 0 0 0 ENSG00000155269|ENST00000382487|GPR78 ENSG00000155269|ENST00000382487|GPR78 ENSG00000155269|ENST00000382487|GPR78 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 373.984358 1491.90833 2.845 0.001064 0.3877 0.00014499 3.2327 0.001209 373.98441927206846 40.451 0.20079 40.451 40.311 40.512 0 -0.09733 0.00014317 NaN 0.094841 11 6 2 NaN NaN NaN NaN 0 NaN NaN 0 1071000 25730 3856 16624 16682 0.18204966725102167 QKRRRHRATRK 11 Unmodified _QKRRRHRATRK_ 0 0 0 ENSG00000155269|ENST00000382487|GPR78 ENSG00000155269|ENST00000382487|GPR78 ENSG00000155269|ENST00000382487|GPR78 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 373.984358 1491.90833 2.8757 0.0010755 1.6814 0.00062881 4.557 0.0017043 373.984541789823 40.299 0.29866 40.566 40.432 40.731 0.26696 0.01774 0.0020784 NaN 0.094841 24 9 4 NaN NaN NaN NaN 0 NaN NaN 0 1129800 25731 3856 16624 16682 0.18204966725102167 QKRRRHRIIHL 11 Unmodified _QKRRRHRIIHL_ 0 0 0 REV__ENST00000593209.5_2_17:40340836-40341070:-|nuORF REV__ENST00000593209.5_2_17:40340836-40341070:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 756.9771118164062 2 756.976559 1511.93856 NaN NaN NaN NaN NaN NaN NaN 80.134 1 80.134 79.634 80.634 0 0 0 0 1.0082 1 39701 39701 0 0 1 + 25732 17599 16625 16683 29234 29234 0.20307325390331243 QKRRRHRTT 9 Unmodified _QKRRRHRTT_ 0 0 0 GPR78|p.A239T|1|0.13|ENSG00000155269|chr4:8582577-8582577|G/A|missense_variant GPR78|p.A239T|1|0.13|ENSG00000155269|chr4:8582577-8582577|G/A|missense_variant GPR78|p.A239T|1|0.13|ENSG00000155269|chr4:8582577-8582577|G/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.5830383300781 3 413.581549 1237.72282 3.7911 0.0015679 0.39577 0.00016368 4.1869 0.0017316 413.58178178096756 103.95 0.30592 104.26 104.09 104.39 0.31863 74 49 3 0 0 0 1.2126 1 47997 47997 0.23584 0.095952 1 925200 25733 9366 16626 16684 29235 29235 0.11346564205632603 QKRRRHRTT 9 Unmodified _QKRRRHRTT_ 0 0 0 GPR78|p.A239T|1|0.13|ENSG00000155269|chr4:8582577-8582577|G/A|missense_variant GPR78|p.A239T|1|0.13|ENSG00000155269|chr4:8582577-8582577|G/A|missense_variant GPR78|p.A239T|1|0.13|ENSG00000155269|chr4:8582577-8582577|G/A|missense_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 413.581549 1237.72282 2.3894 0.00098823 1.1885 0.00049154 3.5779 0.0014798 413.5820010924064 104.54 0.39712 104.54 104.29 104.69 0 0.079419 0.00053191 NaN 0.23584 40 29 2 NaN NaN NaN NaN 0 NaN NaN 0 415060 25734 9366 16626 16684 0.11346564205632603 QKRRRHRTT 9 Unmodified _QKRRRHRTT_ 0 0 0 GPR78|p.A239T|1|0.13|ENSG00000155269|chr4:8582577-8582577|G/A|missense_variant GPR78|p.A239T|1|0.13|ENSG00000155269|chr4:8582577-8582577|G/A|missense_variant GPR78|p.A239T|1|0.13|ENSG00000155269|chr4:8582577-8582577|G/A|missense_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 413.581549 1237.72282 3.1911 0.0013198 0.60411 0.00024985 3.7952 0.0015696 413.58174715709896 103.98 0.11098 104.58 104.53 104.64 0.59822 0.11795 -0.00019317 NaN 0.23584 48 23 3 NaN NaN NaN NaN 0 NaN NaN 0 511620 25735 9366 16626 16684 0.11346564205632603 QKRRRKKKKKH 11 Unmodified _QKRRRKKKKKH_ 0 0 0 nc|ENSG00000160208|Q14684-2|RRP1B;ENSG00000160208|ENST00000340648|RRP1B nc|ENSG00000160208|Q14684-2|RRP1B nc|ENSG00000160208|Q14684-2|RRP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 761.0101318359375 2 761.007859 1520.00117 NaN NaN NaN NaN NaN NaN NaN 78.42 1 78.42 77.92 78.92 0 0 0 0 1.0079 1 38538 38538 1.3295 1.3295 1 25736 4047 16627 16685 29236 29236 0.2619647145847921 QKRRRKKKKKH 11 Unmodified _QKRRRKKKKKH_ 0 0 0 nc|ENSG00000160208|Q14684-2|RRP1B;ENSG00000160208|ENST00000340648|RRP1B nc|ENSG00000160208|Q14684-2|RRP1B nc|ENSG00000160208|Q14684-2|RRP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 761.0098266601562 2 761.007859 1520.00117 NaN NaN NaN NaN NaN NaN NaN 96.98 1 96.98 96.48 97.48 0 0 0 0 1.0082 1 52647 52647 0 0 1 25737 4047 16627 16685 29237 29237 0.2619647145847921 QKRRRKKKKKH 11 Unmodified _QKRRRKKKKKH_ 0 0 0 nc|ENSG00000160208|Q14684-2|RRP1B;ENSG00000160208|ENST00000340648|RRP1B nc|ENSG00000160208|Q14684-2|RRP1B nc|ENSG00000160208|Q14684-2|RRP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 761.0081787109375 2 761.007859 1520.00117 NaN NaN NaN NaN NaN NaN NaN 75.322 1 75.986 75.486 76.486 0.6635 0 0 0 1.0082 1 36468 36468 0 0 1 25738 4047 16627 16685 29238 29238 0.2619647145847921 QKRRRRKHKR 10 Unmodified _QKRRRRKHKR_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.98773193359375 4 362.986901 1447.9185 2.7199 0.00098729 0.24335 8.8332E-05 2.9632 0.0010756 362.98702488212695 41.607 0.38916 42.252 41.962 42.351 0.64451 94 28 5 0 0 0 0.94134 1 18943 18943 0.62683 0 1 115410000 + 25739 11114 16628 16686 29239 29239 0.21245574450313143 QKRRRRRMLWH 11 Unmodified _QKRRRRRMLWH_ 0 0 0 REV__ENST00000579674.1_1_17:27898877-27899117:+|nuORF REV__ENST00000579674.1_1_17:27898877-27899117:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 812.2515869140625 2 811.973493 1621.93243 NaN NaN NaN NaN NaN NaN NaN 104.89 1 104.89 104.39 105.39 0 0 0 0 1.0082 1 57679 57679 0 0 1 + 25740 13291 16629 16687 29240 29240 0.14634483887130045 QKSQYKKL 8 Unmodified _QKSQYKKL_ 0 0 0 REV__DST|p.L2377Sfs*24|1|0.05|ENSG00000151914|chr6:56568573-56568574|-/TATCTCAAGAAATTACAAG|frameshift_variant REV__DST|p.L2377Sfs*24|1|0.05|ENSG00000151914|chr6:56568573-56568574|-/TATCTCAAGAAATTACAAG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 341.53924560546875 3 341.537953 1021.59203 2.7488 0.00093881 1.1156 0.00038103 3.8644 0.0013198 341.5383373996088 10.723 0.36234 11.356 11.168 11.531 0.63304 84 32 3 0 0 0 0.68959 1 4855 4855 6.7232 1.8262 1 420430 + 25741 10140 16630 16688 29241 29241 0.08209735714228827 QKTKILTM 8 Unmodified _QKTKILTM_ 0 0 0 ENST00000508181.5_1_5:94842662-94852339:-|nuORF ENST00000508181.5_1_5:94842662-94852339:-|nuORF ENST00000508181.5_1_5:94842662-94852339:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 481.7907409667969 2 481.788795 961.563038 NaN NaN NaN NaN NaN NaN NaN 54.545 1 54.545 54.045 55.045 0 0 0 0 0.99035 1 25032 25032 5.7604 0.52976 1 25742 8527 16631 16689 29242 29242 0.08071875093571634 QKTPNRKLPRR 11 Unmodified _QKTPNRKLPRR_ 0 0 0 nc|ENSG00000117602|Q9UKA8-4|RCAN3;nc|ENSG00000117602|Q9UKA8-3|RCAN3 nc|ENSG00000117602|Q9UKA8-4|RCAN3 nc|ENSG00000117602|Q9UKA8-4|RCAN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 697.582763671875 2 697.428576 1392.8426 NaN NaN NaN NaN NaN NaN NaN 92.265 1 92.348 91.848 92.848 0.082848 0 0 0 1.0052 1 48034 48034 3.8763 0.88109 1 25743 9614 16632 16690 29243 29243 0.1618913275954128 QKVDREEEWKQ 11 Unmodified _QKVDREEEWKQ_ 0 0 0 nc|ENSG00000214900|Q8WXQ3|LINC01599 nc|ENSG00000214900|Q8WXQ3|LINC01599 nc|ENSG00000214900|Q8WXQ3|LINC01599 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 737.8692016601562 2 737.867879 1473.72121 NaN NaN NaN NaN NaN NaN NaN 59.406 1 59.406 58.906 59.906 0 0 0 0 1.0059 1 27461 27461 2.9952 0 1 25744 9829 16633 16691 29244 29244 0.0032942081568307913 QKVKHYYRFWI 11 Unmodified _QKVKHYYRFWI_ 0 0 0 nc|ENSG00000100731|Q96RV3-4|PCNX1;nc|ENSG00000100731|Q96RV3-3|PCNX1;ENSG00000100731|ENST00000304743|PCNX1 nc|ENSG00000100731|Q96RV3-4|PCNX1 nc|ENSG00000100731|Q96RV3-4|PCNX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 784.433349609375 2 784.430253 1566.84595 NaN NaN NaN NaN NaN NaN NaN 63.634 1 64.292 63.792 64.792 0.65808 0 0 0 1.008 1 29162 29162 0.30703 0 1 25745 1239 16634 16692 29245 29245 0.08520382813526339 QKVQLLRNWHQ 11 Unmodified _QKVQLLRNWHQ_ 0 0 0 nc|ENSG00000026103|P25445-6|FAS;ENSG00000026103|ENST00000652046|FAS;ENST00000352159.8_1_10:90773121-90774204:+|nuORF nc|ENSG00000026103|P25445-6|FAS nc|ENSG00000026103|P25445-6|FAS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.2388000488281 3 483.940632 1448.80007 NaN NaN NaN NaN NaN NaN NaN 77.221 1 77.221 76.721 77.721 0 0 0 0 1.0062 1 37864 37864 2.6312 0.19645 1 25746 484 16635 16693 29246 29246 0.09361737631320466 QKYKEGKFIIE 11 Unmodified _QKYKEGKFIIE_ 0 0 0 ENST00000477675.1_1_22:22055420-22058252:-|nuORF;ENSG00000100027|ENST00000339468|YPEL1 ENST00000477675.1_1_22:22055420-22058252:-|nuORF ENST00000477675.1_1_22:22055420-22058252:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 691.885986328125 2 691.887552 1381.76055 NaN NaN NaN NaN NaN NaN NaN 16.916 1 17.116 16.616 17.616 0.20057 0 0 0 1.0075 1 7483 7483 0.96228 0.50394 1 25747 1166 16636 16694 29247 29247 0.08494172837231417 QKYSLKKQ 8 Unmodified _QKYSLKKQ_ 0 0 0 REV__ENSG00000162396|ENST00000371279|PARS2 REV__ENSG00000162396|ENST00000371279|PARS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 341.5389709472656 3 341.537953 1021.59203 2.7488 0.00093881 1.1156 0.00038103 3.8644 0.0013198 341.5383373996088 10.723 0.36234 11.356 11.168 11.531 0.63304 84 32 3 0 0 0 0.72814 1 4774 4774 3.5965 1.9439 1 420430 + 25748 12931 16637 16695 29248 29248 0.08209735714228827 QLAIKLKKKL 10 Unmodified _QLAIKLKKKL_ 0 0 0 REV__ENST00000374791.7_1_11:132205045-132205564:+|nuORF REV__ENST00000374791.7_1_11:132205045-132205564:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.9197387695312 2 591.918458 1181.82236 NaN NaN NaN NaN NaN NaN NaN 82.379 1 82.626 82.126 83.126 0.24722 0 0 0 1.0003 1 37920 37920 1.4819 1.0812 1 + 25749 15792 16638 16696 29249 29249 0.2387256904703463 QLAKSISKR 9 Unmodified _QLAKSISKR_ 0 0 0 REV__ENST00000409725.1_1_2:128284280-128284364:-|nuORF REV__ENST00000409725.1_1_2:128284280-128284364:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 344.2066955566406 3 344.217102 1029.62948 NaN NaN NaN NaN NaN NaN NaN 20.151 1 20.151 19.651 20.651 0 0 0 0 0.89451 1 9005 9005 4.897 0 1 + 25750 16101 16639 16697 29250 29250 0.11584826979856189 QLAKSISKR 9 Unmodified _QLAKSISKR_ 0 0 0 REV__ENST00000409725.1_1_2:128284280-128284364:-|nuORF REV__ENST00000409725.1_1_2:128284280-128284364:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 344.206787109375 3 344.217102 1029.62948 NaN NaN NaN NaN NaN NaN NaN 20.24 1 20.24 19.74 20.74 0 0 0 0 0.90431 1 9047 9047 2.4985 0 1 + 25751 16101 16639 16697 29251 29251 0.11584826979856189 QLAQRPVSL 9 Unmodified _QLAQRPVSL_ 0 0 0 ENST00000460156.1_1_1:155207923-155208412:-|nuORF;ENST00000459805.5_1_1:155186646-155187358:-|nuORF;nc|ENSG00000177628|P04062-3|GBA1;ENST00000486197.5_1_1:155184905-155187358:-|nuORF;ENST00000566701.5_1_1:155184905-155187601:-|nuORF;ENST00000473223.5_1_1:155184463-155187072:-|nuORF;nc|ENSG00000177628|P04062-4|GBA1;nc|ENSG00000177628|P04062-5|GBA1;nc|ENSG00000177628|P04062-2|GBA1;ENSG00000177628|ENST00000368373|GBA1 ENST00000460156.1_1_1:155207923-155208412:-|nuORF ENST00000460156.1_1_1:155207923-155208412:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.3031311035156 2 506.300916 1010.58728 NaN NaN NaN NaN NaN NaN NaN 36.258 1 36.516 36.016 37.016 0.25768 0 0 0 0.77475 1 16516 16516 10.074 4.3135 1 25752 5128 16640 16698 29252 29252 0.08240851571486019 QLAVRCGG 8 Unmodified _QLAVRCGG_ 0 0 0 LTR12C_dup692|chr4:69114298-69115807:-|5.576688884045835|0.1619943684727404|5.11|537.0|13|2|sense LTR12C_dup692|chr4:69114298-69115807:-|5.576688884045835|0.1619943684727404|5.11|537.0|13|2|sense LTR12C_dup692|chr4:69114298-69115807:-|5.576688884045835|0.1619943684727404|5.11|537.0|13|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 402.216064453125 2 402.213255 802.411957 NaN NaN NaN NaN NaN NaN NaN 81.615 1 81.863 81.363 82.363 0.24803 0 0 0 0.99035 1 37575 37575 2.3027 0 1 25753 9488 16641 16699 29253 29253 0.0028473350560034305 QLDFRKWYQFM 11 Unmodified _QLDFRKWYQFM_ 0 0 0 REV__nc|ENSG00000257923|P39880-9|CUX1 REV__nc|ENSG00000257923|P39880-9|CUX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 781.3045654296875 2 781.384654 1560.75475 NaN NaN NaN NaN NaN NaN NaN 99.044 1 99.642 99.142 100.14 0.59748 0 0 0 1.0061 1 45757 45757 2.7352 0.23671 1 + 25754 18152 16642 16700 29254 29254 -0.003192489460843717 QLELLKPLW 9 Unmodified _QLELLKPLW_ 0 0 0 REV__ENST00000566243.5_2_15:74969356-74988325:-|nuORF REV__ENST00000566243.5_2_15:74969356-74988325:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.3446044921875 2 570.344792 1138.67503 NaN NaN NaN NaN NaN NaN NaN 86.938 1 87.613 87.113 88.113 0.67555 0 0 0 0.90777 1 40046 40046 1.6526 0.17072 1 + 25755 17421 16643 16701 29255 29255 0.11124052442210086 QLEPSSTPL 9 Unmodified _QLEPSSTPL_ 0 0 0 REV__ENST00000383814.7_2_3:9957693-9957840:+|nuORF REV__ENST00000383814.7_2_3:9957693-9957840:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.2566833496094 2 486.25584 970.497126 NaN NaN NaN NaN NaN NaN NaN 33.642 1 34.263 33.763 34.763 0.62031 0 0 0 0.86044 1 15415 15415 7.2892 0 1 + 25756 15900 16644 16702 29256 29256 0.01069757452387421 QLERRWSRQKK 11 Unmodified _QLERRWSRQKK_ 0 0 0 REV__ENST00000367854.7_2_1:167666852-167666897:+|nuORF REV__ENST00000367854.7_2_1:167666852-167666897:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 757.9400634765625 2 757.936765 1513.85898 3.3711 0.0025551 -0.77348 -0.00058625 2.5976 0.0019688 757.9363716749243 101.17 0.22548 101.17 101.06 101.29 0 17 8 3 0 0 0 0.91391 1 55903 55903 0.30703 0 1 1869700 + 25757 15672 16645 16703 29257 29257 0.12260213925628705 QLESEGLWEWA 11 Unmodified _QLESEGLWEWA_ 0 0 0 nc|ENSG00000110713|P52948-6|NUP98;ENSG00000110713|ENST00000324932|NUP98;nc|ENSG00000110713|P52948|NUP98 nc|ENSG00000110713|P52948-6|NUP98 nc|ENSG00000110713|P52948-6|NUP98 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 674.3153686523438 2 674.314417 1346.61428 NaN NaN NaN NaN NaN NaN NaN 85.37 1 85.618 85.118 86.118 0.24857 0 0 0 1.0061 1 39286 39286 2.7352 0.23671 1 25758 1726 16646 16704 29258 29258 -0.04516129398643898 QLFENKKNTK 10 Unmodified _QLFENKKNTK_ 0 0 0 ENSG00000154237|ENST00000388948|LRRK1;ENST00000525284.5_1_15:101565016-101602660:+|nuORF ENSG00000154237|ENST00000388948|LRRK1 ENSG00000154237|ENST00000388948|LRRK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 625.3519287109375 2 625.348594 1248.68264 NaN NaN NaN NaN NaN NaN NaN 16.927 1 17.128 16.628 17.628 0.20057 0 0 0 0.97944 1 7489 7489 8.7454 0 1 25759 3811 16647 16705 29259 29259 0.06824159971824884 QLFLRKVWPA 10 Unmodified _QLFLRKVWPA_ 0 0 0 REV__ENSG00000147432|ENST00000289957|CHRNB3 REV__ENSG00000147432|ENST00000289957|CHRNB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 419.9208984375 3 419.920397 1256.73936 3.0395 0.0012763 -1.2674 -0.00053221 1.7721 0.00074412 420.2543423207201 40.015 0.38041 40.282 40.135 40.515 0.26696 27 15 2 0 0 0 0.72158 1 18202 18202 12.175 3.1985 1 2123200 + 25760 12507 16648 16706 29260 29260 0.12126252319035302 QLFQRPNAL 9 Unmodified _QLFQRPNAL_ 0 0 0 nc|ENSG00000134644|Q14671-4|PUM1;nc|ENSG00000134644|Q14671-2|PUM1;nc|ENSG00000134644|Q14671|PUM1;ENSG00000134644|ENST00000426105|PUM1 nc|ENSG00000134644|Q14671-4|PUM1 nc|ENSG00000134644|Q14671-4|PUM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.8080444335938 2 543.806365 1085.59818 3.6237 0.0019706 0.48253 0.0002624 4.1062 0.002233 543.8062511659591 47.479 0.19174 47.742 47.58 47.772 0.26363 11 6 2 0 0 0 0.023109 1 21698 21698 64.236 22.142 1 1098000 25761 2820 16649 16707 29261 29261 0.05880253945747427 QLFQRPNAL 9 Unmodified _QLFQRPNAL_ 0 0 0 nc|ENSG00000134644|Q14671-4|PUM1;nc|ENSG00000134644|Q14671-2|PUM1;nc|ENSG00000134644|Q14671|PUM1;ENSG00000134644|ENST00000426105|PUM1 nc|ENSG00000134644|Q14671-4|PUM1 nc|ENSG00000134644|Q14671-4|PUM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.8084106445312 2 543.806365 1085.59818 3.5093 0.0019084 1.4713 0.00080011 4.9806 0.0027085 543.8066387095307 46.821 0.19288 47.473 47.344 47.537 0.65219 10 5 2 0 0 0 0.0019388 1 21436 21436 104.8 50.026 1 572440 25762 2820 16649 16707 29262 29262 0.05880253945747427 QLGFHRVI 8 Unmodified _QLGFHRVI_ 0 0 0 REV__ENSG00000124571|ENST00000265351|XPO5 REV__ENSG00000124571|ENST00000265351|XPO5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.28515625 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 58.416 1 58.416 57.916 58.916 0 0 0 0 0.99035 1 26959 26959 2.3027 0 1 + 25763 11660 16650 16708 29263 29263 0.07004903608185487 QLGRLSRPHFL 11 Unmodified _QLGRLSRPHFL_ 0 0 0 REV__ENST00000431657.5_1_3:44409097-44442080:+|nuORF REV__ENST00000431657.5_1_3:44409097-44442080:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.9289245605469 3 441.926322 1322.75714 NaN NaN NaN NaN NaN NaN NaN 48.92 1 49.576 49.076 50.076 0.65524 0 0 0 1.0034 1 22383 22383 6.2344 2.0449 1 + 25764 13787 16651 16709 29264 29264 0.10866967573883812 QLGRLSRPHFL 11 Unmodified _QLGRLSRPHFL_ 0 0 0 REV__ENST00000431657.5_1_3:44409097-44442080:+|nuORF REV__ENST00000431657.5_1_3:44409097-44442080:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.9289245605469 3 441.926322 1322.75714 3.227 0.0014261 1.8008 0.00079584 5.0279 0.002222 442.2609884575533 48.626 0.49107 49.281 49.173 49.664 0.65524 23 17 2 0 0 0 0.13295 1 22383 22383 6.2344 2.0449 1 848920 + 25765 13787 16651 16709 29265 29265 0.10866967573883812 QLHRPRITRIC 11 Unmodified _QLHRPRITRIC_ 0 0 0 ENSG00000141384|ENST00000269142|TAF4B ENSG00000141384|ENST00000269142|TAF4B ENSG00000141384|ENST00000269142|TAF4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 697.02880859375 2 696.903879 1391.79321 NaN NaN NaN NaN NaN NaN NaN 108.94 1 108.99 108.49 109.49 0.04248 0 0 0 1.0057 1 58792 58792 3.2813 0.28607 1 25766 3247 16652 16710 29266 29266 0.11298101479087563 QLHWEIFR 8 Unmodified _QLHWEIFR_ 0 0 0 REV__ENST00000492143.5_1_7:148514900-148516105:-|nuORF REV__ENST00000492143.5_1_7:148514900-148516105:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.8004150390625 2 564.801083 1127.58761 NaN NaN NaN NaN NaN NaN NaN 29.422 1 29.422 28.922 29.922 0 0 0 0 0.99035 1 13278 13278 0.69038 0 1 + 25767 16807 16653 16711 29267 29267 0.028922712913072246 QLHWRRWKRRL 11 Unmodified _QLHWRRWKRRL_ 0 0 0 REV__ENST00000498102.1_1_3:42576287-42577770:+|nuORF REV__ENST00000498102.1_1_3:42576287-42577770:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 818.1564331054688 2 817.984384 1633.95422 NaN NaN NaN NaN NaN NaN NaN 87.241 1 87.241 86.741 87.741 0 0 0 0 1.0082 1 44930 44930 0 0 1 + 25768 11332 16654 16712 29268 29268 0.16259611907321414 QLHWRRWKRRL 11 Unmodified _QLHWRRWKRRL_ 0 0 0 REV__ENST00000498102.1_1_3:42576287-42577770:+|nuORF REV__ENST00000498102.1_1_3:42576287-42577770:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 817.932373046875 2 817.984384 1633.95422 NaN NaN NaN NaN NaN NaN NaN 82.83 1 82.875 82.375 83.375 0.045006 0 0 0 1.0082 1 40960 40960 0 0 1 + 25769 11332 16654 16712 29269 29269 0.16259611907321414 QLIAKKIKL 9 Unmodified _QLIAKKIKL_ 0 0 0 ENSG00000057252|ENST00000367619|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.8707885742188 2 527.870977 1053.7274 NaN NaN NaN NaN NaN NaN NaN 59.222 1 59.222 58.722 59.722 0 0 0 0 0.91014 1 27370 27370 2.0598 0.21551 1 25770 622 16655 16713 29270 29270 0.2026863557582601 QLIIFLGVFK 10 Unmodified _QLIIFLGVFK_ 0 0 0 REV__POMT2|p.S269Qfs*39|1|0.24|ENSG00000009830|chr14:77301101-77301102|-/G|frameshift_variant REV__POMT2|p.S269Qfs*39|1|0.24|ENSG00000009830|chr14:77301101-77301102|-/G|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.25128173828125 3 393.249632 1176.72707 3.082 0.001212 0.39481 0.00015526 3.4769 0.0013673 393.24945756631735 40.424 0.35028 41.066 40.906 41.256 0.64135 58 40 3 0 0 0 0.94099 1 18538 18538 0.69767 0.24315 1 5293600 + 25771 10217 16656 16714 29271 29271 0.14577215855979375 QLIKWVRQYF 10 Unmodified _QLIKWVRQYF_ 0 0 0 REV__ENST00000469485.5_1_X:18911605-18915466:-|nuORF REV__ENST00000469485.5_1_X:18911605-18915466:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 460.60162353515625 3 460.931073 1379.77139 NaN NaN NaN NaN NaN NaN NaN 60.353 1 61.102 60.602 61.602 0.74927 0 0 0 0.99976 1 27829 27829 1.9064 0.45126 1 + 25772 10331 16657 16715 29272 29272 0.09669620002159718 QLILWRESSR 10 Unmodified _QLILWRESSR_ 0 0 0 ENST00000569912.1_1_22:40439522-40440098:-|nuORF ENST00000569912.1_1_22:40439522-40440098:-|nuORF ENST00000569912.1_1_22:40439522-40440098:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 644.3640747070312 2 644.362036 1286.70952 4.2723 0.0027529 -2.7123 -0.0017477 1.56 0.0010052 644.3600106819728 91.927 0.51086 92.18 91.926 92.436 0.25253 37 24 2 0 0 0 0.9146 1 42281 42281 2.9952 0.49676 1 278420 25773 9078 16658 16716 29273 29273 0.07763268583039462 QLKKKGRRKK 10 Unmodified _QLKKKGRRKK_ 0 0 0 REV__ENSG00000254093|ENST00000314787|PINX1 REV__ENSG00000254093|ENST00000314787|PINX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 635.4345703125 2 635.43313 1268.85171 NaN NaN NaN NaN NaN NaN NaN 86.778 1 87.454 86.954 87.954 0.67555 0 0 0 1.0015 1 39975 39975 0.40072 0 1 + 25774 14665 16659 16717 29274 29274 0.22803526115853856 QLKLKTGKL 9 Unmodified _QLKLKTGKL_ 0 0 0 ENSG00000163131|ENST00000368985|CTSS;nc|ENSG00000163131|P25774-2|CTSS;ENST00000480760.1_1_1:150720322-150737170:-|nuORF ENSG00000163131|ENST00000368985|CTSS ENSG00000163131|ENST00000368985|CTSS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.558349609375 3 343.565732 1027.67537 NaN NaN NaN NaN NaN NaN NaN 18.524 1 19.184 18.684 19.684 0.66072 0 0 0 0.088893 1 8391 8391 34.222 10.421 1 25775 4196 16660 16718 29275 29275 0.16263472162086146 QLKQQIQSI 9 Unmodified _QLKQQIQSI_ 0 0 0 ENSG00000100138|ENST00000401959|SNU13 ENSG00000100138|ENST00000401959|SNU13 ENSG00000100138|ENST00000401959|SNU13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.3193359375 2 543.319306 1084.62406 3.6126 0.0019628 -0.68912 -0.00037441 2.9235 0.0015884 543.3194654423899 32.638 0.10305 32.893 32.853 32.956 0.25452 8 4 2 0 0 0 0.071101 1 14870 14870 39.957 14.558 1 318620 25776 1180 16661 16719 29276 29276 0.08513103397376653 QLKQQIQSI 9 Unmodified _QLKQQIQSI_ 0 0 0 ENSG00000100138|ENST00000401959|SNU13 ENSG00000100138|ENST00000401959|SNU13 ENSG00000100138|ENST00000401959|SNU13 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.3214721679688 2 543.319306 1084.62406 NaN NaN NaN NaN NaN NaN NaN 32.09 1 32.708 32.208 33.208 0.61831 0 0 0 0.62812 1 14715 14715 14.838 3.3436 1 25777 1180 16661 16719 29277 29277 0.08513103397376653 QLKREQERHRR 11 Unmodified _QLKREQERHRR_ 0 0 0 REV__ENSG00000110274|ENST00000278935|CEP164 REV__ENSG00000110274|ENST00000278935|CEP164 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.6243286132812 3 512.625706 1534.85529 NaN NaN NaN NaN NaN NaN NaN 53.604 1 54.407 53.907 54.907 0.80351 0 0 0 1.0075 1 24459 24459 0.92553 0 1 + 25778 11199 16662 16720 29278 29278 0.1092554415174618 QLKREYLLQ 9 Unmodified _QLKREYLLQ_ 0 0 0 nc|ENSG00000065518|O95168-2|NDUFB4;ENSG00000065518|ENST00000184266|NDUFB4 nc|ENSG00000065518|O95168-2|NDUFB4 nc|ENSG00000065518|O95168-2|NDUFB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 397.5688781738281 3 397.567912 1189.68191 2.7109 0.0010778 0.27463 0.00010919 2.9856 0.001187 397.5679662636362 22.137 0.31566 22.137 21.969 22.284 0 65 23 3 0 0 0 0.10277 1 9911 9911 32.037 9.3794 1 1034400 25779 691 16663 16721 29279 29279 0.09465365322807884 QLKRIVKYLRK 11 Unmodified _QLKRIVKYLRK_ 0 0 0 REV__ENST00000471909.1_1_21:45217249-45223652:+|nuORF REV__ENST00000471909.1_1_21:45217249-45223652:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 722.98095703125 2 722.97737 1443.94019 NaN NaN NaN NaN NaN NaN NaN 93.894 1 93.894 93.394 94.394 0 0 0 0 1.008 1 50225 50225 0.30703 0 1 + 25780 12867 16664 16722 29280 29280 0.23597521635679186 QLKVKVNRL 9 Unmodified _QLKVKVNRL_ 0 0 0 ENSG00000088356|ENST00000202017|PDRG1 ENSG00000088356|ENST00000202017|PDRG1 ENSG00000088356|ENST00000202017|PDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.5780944824219 3 366.576631 1096.70806 2.7442 0.0010059 0.67967 0.00024915 3.4238 0.0012551 366.5769676300205 20.292 0.27767 20.945 20.775 21.053 0.65346 48 21 3 0 0 0 0.36069 2 9224 9177;9224 14.405 7.3037 1 244920 25781 1013 16665 16723 29281;29282 29282 0.16357679284942606 QLKVNQEAL 9 Unmodified _QLKVNQEAL_ 0 0 0 ENSG00000154451|ENST00000370459|GBP5;nc|ENSG00000154451|Q96PP8-2|GBP5 ENSG00000154451|ENST00000370459|GBP5 ENSG00000154451|ENST00000370459|GBP5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.80029296875 2 521.798206 1041.58186 3.4005 0.0017744 0.43076 0.00022477 3.8313 0.0019991 521.7984128727794 33.893 0.25003 34.147 34.027 34.277 0.25389 18 11 2 0 0 0 0.29781 1 15431 15431 16.942 6.8684 1 350630 25782 3824 16666 16724 29283 29283 0.0627312798899311 QLLCRPRPRI 10 Unmodified _QLLCRPRPRI_ 0 0 0 REV__ENST00000396503.7_1_16:11931646-11945380:-|nuORF REV__ENST00000396503.7_1_16:11931646-11945380:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 313.9438781738281 4 313.692121 1250.73938 2.3862 0.00074854 0.55033 0.00017263 2.9365 0.00092117 313.69221770601433 46.378 0.42321 46.644 46.449 46.872 0.26561 27 15 2 0 0 0 0.12676 1 21176 21176 0.69767 0.55777 1 623670 + 25783 16005 16667 16725 29284 29284 0.1240392904737746 QLLCRPRPRI 10 Unmodified _QLLCRPRPRI_ 0 0 0 REV__ENST00000396503.7_1_16:11931646-11945380:-|nuORF REV__ENST00000396503.7_1_16:11931646-11945380:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 313.692121 1250.73938 2.227 0.00069858 -0.21388 -6.7091E-05 2.0131 0.00063149 313.6919946341074 45.814 0.30857 46.641 46.349 46.658 0.82621 0.10622 -0.00081258 NaN 0.69767 25 16 2 NaN NaN NaN NaN 0 NaN NaN 0 508830 + 25784 16005 16667 16725 0.1240392904737746 QLLKIGKERMK 11 Unmodified _QLLKIGKERMK_ 0 0 0 REV__nc|ENSG00000197694|Q13813-3|SPTAN1 REV__nc|ENSG00000197694|Q13813-3|SPTAN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 672.8238525390625 2 672.413214 1342.81188 NaN NaN NaN NaN NaN NaN NaN 29.988 1 29.988 29.488 30.488 0 0 0 0 1.0074 1 13544 13544 1.0715 0.61312 1 + 25785 14298 16668 16726 29285 29285 0.15418218330273703 QLLKQTVAI 9 Unmodified _QLLKQTVAI_ 0 0 0 PRKG2|p.S59L|1|0.2|ENSG00000138669|chr4:81204872-81204872|G/A|missense_variant PRKG2|p.S59L|1|0.2|ENSG00000138669|chr4:81204872-81204872|G/A|missense_variant PRKG2|p.S59L|1|0.2|ENSG00000138669|chr4:81204872-81204872|G/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.3229675292969 2 507.321317 1012.62808 3.3217 0.0016852 0.26263 0.00013324 3.5843 0.0018184 507.32134653879564 36.932 0.31108 37.562 37.416 37.728 0.62999 27 11 3 0 0 0 0.76984 1 16958 16958 7.9102 0 1 737160 25786 9911 16669 16727 29286 29286 0.12227192891100458 QLLKRVLVRKL 11 Unmodified _QLLKRVLVRKL_ 0 0 0 ENSG00000105656|ENST00000262809|ELL ENSG00000105656|ENST00000262809|ELL ENSG00000105656|ENST00000262809|ELL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 683.4506225585938 2 683.474463 1364.93437 NaN NaN NaN NaN NaN NaN NaN 88.553 1 88.553 88.053 89.053 0 0 0 0 1.008 1 45980 45980 0.30703 0.30703 1 25787 1518 16670 16728 29287 29287 0.2665042312401056 QLLLGQPQL 9 Unmodified _QLLLGQPQL_ 0 0 0 ENSG00000204315|ENST00000375156|FKBPL ENSG00000204315|ENST00000375156|FKBPL ENSG00000204315|ENST00000375156|FKBPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.3086853027344 2 505.305667 1008.59678 2.7734 0.0014014 2.4284 0.0012271 5.2018 0.0026285 505.30726261444096 54.294 0.28115 55.09 54.894 55.175 0.79552 24 16 2 0 0 0 0.22507 1 24736 24736 21.747 1.293 1 199510 25788 5999 16671 16729 29288 29288 0.09282619856992369 QLLLLKKKKKL 11 Unmodified _QLLLLKKKKKL_ 0 0 0 REV__NOS1AP|p.R207Gfs*32|1|0.46|ENSG00000198929|chr1:162355208-162355209|-/GG|frameshift_variant REV__NOS1AP|p.R207Gfs*32|1|0.46|ENSG00000198929|chr1:162355208-162355209|-/GG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.09228515625 2 676.989415 1351.96428 NaN NaN NaN NaN NaN NaN NaN 17.805 1 18.006 17.506 18.506 0.20057 0 0 0 1.0082 1 7891 7891 0 0 1 + 25789 14383 16672 16730 29289 29289 0.3023736206932881 QLLLLKKKKKL 11 Unmodified _QLLLLKKKKKL_ 0 0 0 REV__NOS1AP|p.R207Gfs*32|1|0.46|ENSG00000198929|chr1:162355208-162355209|-/GG|frameshift_variant REV__NOS1AP|p.R207Gfs*32|1|0.46|ENSG00000198929|chr1:162355208-162355209|-/GG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 676.8682250976562 2 676.989415 1351.96428 NaN NaN NaN NaN NaN NaN NaN 98.271 1 98.571 98.071 99.071 0.29987 0 0 0 1.008 1 45243 45243 0.30703 0.30703 1 + 25790 14383 16672 16730 29290 29290 0.3023736206932881 QLLLLLLLLLL 11 Unmodified _QLLLLLLLLLL_ 0 0 0 REV__SEMA4B|p.N175Mfs*161|1|0.16|ENSG00000185033|chr15:90221007-90221008|-/GGACGAGAAGGGGATGTCCA|frameshift_variant REV__SEMA4B|p.N175Mfs*161|1|0.16|ENSG00000185033|chr15:90221007-90221008|-/GGACGAGAAGGGGATGTCCA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 639.45947265625 2 639.462167 1276.90978 NaN NaN NaN NaN NaN NaN NaN 28.251 1 29.037 28.537 29.537 0.78627 0 0 0 1.0082 1 12718 12718 0 0 1 + 25791 14000 16673 16731 29291 29291 0.28240350197938824 QLLPLKLL 8 Unmodified _QLLPLKLL_ 0 0 0 ENST00000432879.5_1_22:20103490-20103634:+|nuORF ENST00000432879.5_1_22:20103490-20103634:+|nuORF ENST00000432879.5_1_22:20103490-20103634:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 469.296875 2 469.325871 936.637189 NaN NaN NaN NaN NaN NaN NaN 19.781 1 20.44 19.94 20.94 0.6583 0 0 0 0.99035 1 8978 8978 2.5775 0 1 25792 7866 16674 16732 29292 29292 0.16633586247417043 QLLPWIRPQPG 11 Unmodified _QLLPWIRPQPG_ 0 0 0 ENSG00000162390|ENST00000343744|ACOT11;nc|ENSG00000162390|Q8WXI4|ACOT11 ENSG00000162390|ENST00000343744|ACOT11 ENSG00000162390|ENST00000343744|ACOT11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 652.8787231445312 2 652.877322 1303.74009 NaN NaN NaN NaN NaN NaN NaN 98.943 1 99.009 98.509 99.509 0.066025 0 0 0 1.0059 1 53346 53346 2.9952 0 1 25793 4132 16675 16733 29293 29293 0.10037046968068353 QLLRLLRLLR 10 Unmodified _QLLRLLRLLR_ 0 0 0 REV__ENSG00000089558|ENST00000264661|KCNH4 REV__ENSG00000089558|ENST00000264661|KCNH4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 647.5184326171875 2 647.445706 1292.87686 4.141 0.0026811 -1.9258 -0.0012468 2.2152 0.0014342 647.4448462828186 105.3 0.080307 105.9 105.85 105.93 0.59969 5 3 2 0 0 0 0.94246 1 48608 48608 0.40072 0 1 507910 + 25794 10700 16676 16734 29294 29294 0.24213580918444677 QLLRLLRLLRV 11 Unmodified _QLLRLLRLLRV_ 0 0 0 REV__ENSG00000089558|ENST00000264661|KCNH4 REV__ENSG00000089558|ENST00000264661|KCNH4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.98809814453125 3 464.989034 1391.94527 NaN NaN NaN NaN NaN NaN NaN 76.729 1 77.353 76.853 77.853 0.62397 0 0 0 1.0082 1 37199 37199 0.08335 0 1 + 25795 10700 16677 16735 29295 29295 0.26497825498290695 QLLRRLRQEAR 11 Unmodified _QLLRRLRQEAR_ 0 0 0 AluJo_dup25346|chr6:106767175-106767497:+|3.418251474062376|0.3778021136602827|3.18|537.0|7|2|sense AluJo_dup25346|chr6:106767175-106767497:+|3.418251474062376|0.3778021136602827|3.18|537.0|7|2|sense AluJo_dup25346|chr6:106767175-106767497:+|3.418251474062376|0.3778021136602827|3.18|537.0|7|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 360.47418212890625 4 360.473292 1437.86406 2.0452 0.00073724 0.036627 1.3203E-05 2.0818 0.00075044 360.4733653770712 13.068 0.33551 13.311 13.183 13.518 0.24346 105 26 5 0 0 0 0.16104 2 5706 5666;5706 19.987 7.7593 1 8319500 25796 28 16678 16736 29296;29297 29297 0.16264517788272315 QLLRRLRQEAR 11 Unmodified _QLLRRLRQEAR_ 0 0 0 AluJo_dup25346|chr6:106767175-106767497:+|3.418251474062376|0.3778021136602827|3.18|537.0|7|2|sense AluJo_dup25346|chr6:106767175-106767497:+|3.418251474062376|0.3778021136602827|3.18|537.0|7|2|sense AluJo_dup25346|chr6:106767175-106767497:+|3.418251474062376|0.3778021136602827|3.18|537.0|7|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.29656982421875 3 480.295297 1437.86406 2.7261 0.0013093 -0.32061 -0.00015399 2.4055 0.0011553 480.29519706327056 13.079 0.31299 13.322 13.183 13.496 0.24346 85 24 5 0 0 0 0.5133 2 5712 5668;5712 17.049 12.932 1 3851400 25797 28 16678 16736 29298;29299 29299 0.16264517788272315 QLLRRLRQEAR 11 Unmodified _QLLRRLRQEAR_ 0 0 0 AluJo_dup25346|chr6:106767175-106767497:+|3.418251474062376|0.3778021136602827|3.18|537.0|7|2|sense AluJo_dup25346|chr6:106767175-106767497:+|3.418251474062376|0.3778021136602827|3.18|537.0|7|2|sense AluJo_dup25346|chr6:106767175-106767497:+|3.418251474062376|0.3778021136602827|3.18|537.0|7|2|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 480.295297 1437.86406 2.4526 0.001178 1.7288 0.00083032 4.1813 0.0020083 480.2965070888051 12.914 0.26256 13.221 13.125 13.388 0.30727 -0.080761 0.0027437 NaN 11.065 17 10 2 NaN NaN NaN NaN 0 NaN NaN 0 392250 25798 28 16678 16736 0.16264517788272315 QLLRRLRQEAR 11 Unmodified _QLLRRLRQEAR_ 0 0 0 AluJo_dup25346|chr6:106767175-106767497:+|3.418251474062376|0.3778021136602827|3.18|537.0|7|2|sense AluJo_dup25346|chr6:106767175-106767497:+|3.418251474062376|0.3778021136602827|3.18|537.0|7|2|sense AluJo_dup25346|chr6:106767175-106767497:+|3.418251474062376|0.3778021136602827|3.18|537.0|7|2|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 360.473292 1437.86406 2.0105 0.00072472 0.074488 2.6851E-05 2.0849 0.00075157 360.4732909578026 12.991 0.23842 13.298 13.187 13.426 0.30727 -0.025731 -1.0325E-06 NaN 19.987 30 10 4 NaN NaN NaN NaN 0 NaN NaN 0 552950 25799 28 16678 16736 0.16264517788272315 QLLRRLRQEAR 11 Unmodified _QLLRRLRQEAR_ 0 0 0 AluJo_dup25346|chr6:106767175-106767497:+|3.418251474062376|0.3778021136602827|3.18|537.0|7|2|sense AluJo_dup25346|chr6:106767175-106767497:+|3.418251474062376|0.3778021136602827|3.18|537.0|7|2|sense AluJo_dup25346|chr6:106767175-106767497:+|3.418251474062376|0.3778021136602827|3.18|537.0|7|2|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 480.295297 1437.86406 3.4039 0.0016349 1.7415 0.00083643 5.1454 0.0024713 480.29633281444876 12.719 0.13535 13.362 13.278 13.413 0.64272 0.060372 0.0027621 NaN 11.065 8 3 3 NaN NaN NaN NaN 0 NaN NaN 0 945620 25800 28 16678 16736 0.16264517788272315 QLLRRLRQEAR 11 Unmodified _QLLRRLRQEAR_ 0 0 0 AluJo_dup25346|chr6:106767175-106767497:+|3.418251474062376|0.3778021136602827|3.18|537.0|7|2|sense AluJo_dup25346|chr6:106767175-106767497:+|3.418251474062376|0.3778021136602827|3.18|537.0|7|2|sense AluJo_dup25346|chr6:106767175-106767497:+|3.418251474062376|0.3778021136602827|3.18|537.0|7|2|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 360.473292 1437.86406 2.8122 0.0010137 0.15798 5.6947E-05 2.9702 0.0010707 360.7240324014788 12.719 0.13535 13.362 13.278 13.413 0.64272 0.038399 0.00011935 NaN 19.987 8 3 3 NaN NaN NaN NaN 0 NaN NaN 0 1345900 25801 28 16678 16736 0.16264517788272315 QLLTLWPL 8 Unmodified _QLLTLWPL_ 0 0 0 nc|ENSG00000170909|Q8IYS5-2|OSCAR;ENSG00000170909|ENST00000358375|OSCAR;nc|ENSG00000170909|Q8IYS5-3|OSCAR;nc|ENSG00000170909|Q8IYS5-5|OSCAR;nc|ENSG00000170909|Q8IYS5|OSCAR;nc|ENSG00000170909|Q8IYS5-7|OSCAR nc|ENSG00000170909|Q8IYS5-2|OSCAR nc|ENSG00000170909|Q8IYS5-2|OSCAR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.29949951171875 2 492.299853 982.585153 NaN NaN NaN NaN NaN NaN NaN 42.693 1 43.502 43.002 44.002 0.80855 0 0 0 0.99035 1 19405 19405 5.7604 0 1 25802 4774 16679 16737 29300 29300 0.09316422833660454 QLLVPLLCPLL 11 Unmodified _QLLVPLLCPLL_ 0 0 0 REV__Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|76|2|sense REV__Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|76|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 407.9246826171875 3 407.926161 1220.75665 NaN NaN NaN NaN NaN NaN NaN 54.874 1 55.67 55.17 56.17 0.79552 0 0 0 1.0071 1 25044 25044 1.4551 0.67859 1 + 25803 17702 16680 16738 29301 29301 0.1551041180980519 QLLVSLPL 8 Unmodified _QLLVSLPL_ 0 0 0 nc|ENSG00000074855|Q9HCE9-2|ANO8;ENSG00000074855|ENST00000159087|ANO8 nc|ENSG00000074855|Q9HCE9-2|ANO8 nc|ENSG00000074855|Q9HCE9-2|ANO8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.789794921875 2 441.786579 881.558604 2.7871 0.0012313 2.7219 0.0012025 5.509 0.0024338 441.7875590536304 43.421 0.32188 43.691 43.628 43.95 0.27021 16 11 2 0 0 0 0.74071 1 19858 19858 2.5775 0 1 272360 25804 823 16681 16739 29302 29302 0.11308733942325944 QLNECKQL 8 Unmodified _QLNECKQL_ 0 0 0 nc|ENSG00000113575|P67775-2|PPP2CA;ENSG00000113575|ENST00000481195|PPP2CA;ENSG00000104695|ENST00000221138|PPP2CB nc|ENSG00000113575|P67775-2|PPP2CA nc|ENSG00000113575|P67775-2|PPP2CA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 488.2521667480469 2 488.250034 974.485516 3.3118 0.001617 0.36021 0.00017587 3.672 0.0017929 488.25004168511884 53.052 0.60831 53.052 52.838 53.446 0 83 37 3 0 0 0 0.074456 2 24274 24274;24323 57.471 6.6163 1 6907100 25805 1445 16682 16740 29303;29304 29303 -0.0027476284260501416 QLNECKQL 8 Unmodified _QLNECKQL_ 0 0 0 nc|ENSG00000113575|P67775-2|PPP2CA;ENSG00000113575|ENST00000481195|PPP2CA;ENSG00000104695|ENST00000221138|PPP2CB nc|ENSG00000113575|P67775-2|PPP2CA nc|ENSG00000113575|P67775-2|PPP2CA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.2519226074219 2 488.250034 974.485516 3.0197 0.0014744 0.60753 0.00029663 3.6272 0.001771 488.25028894495614 52.494 0.3877 53.156 52.929 53.316 0.66198 46 17 4 0 0 0 0.074456 1 24017 24017 57.471 6.6163 1 3773200 25806 1445 16682 16740 29305 29305 -0.0027476284260501416 QLNKKRAI 8 Unmodified _QLNKKRAI_ 0 0 0 nc|ENSG00000079805|P50570-3|DNM2;nc|ENSG00000079805|P50570-2|DNM2;nc|ENSG00000079805|P50570-5|DNM2;nc|ENSG00000079805|P50570|DNM2;ENSG00000079805|ENST00000389253|DNM2 nc|ENSG00000079805|P50570-3|DNM2 nc|ENSG00000079805|P50570-3|DNM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.6607971191406 2 485.811451 969.608348 2.9249 0.0014209 -0.11747 -5.7069E-05 2.8074 0.0013639 485.8113860344844 34.078 0.43224 34.867 34.675 35.108 0.78921 77 25 4 0 0 0 0.70146 1 15347 15347 5.7604 0 1 8742000 25807 899 16683 16741 29306 29306 0.12232861670975126 QLNKLIHEAR 10 Unmodified _QLNKLIHEAR_ 0 0 0 REV__nc|ENSG00000144406|Q8N2C7-7|UNC80 REV__nc|ENSG00000144406|Q8N2C7-7|UNC80 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.3580322265625 2 611.356754 1220.69895 3.9302 0.0024028 -0.74464 -0.00045524 3.1856 0.0019475 611.3560789814101 90.033 2.3692 90.285 89.498 91.868 0.25136 339 114 4 0 0 0 0.93713 2 41294 41294;41343 1.4819 0 1 4331900 + 25808 12401 16684 16742 29307;29308 29307 0.09743285928584555 QLPALPWL 8 Unmodified _QLPALPWL_ 0 0 0 nc|ENSG00000288550|Q8NAC3-4|IL17RC;ENST00000483582.5_1_3:9958999-9974679:+|nuORF;nc|ENSG00000288550|Q8NAC3-6|IL17RC;nc|ENSG00000288550|Q8NAC3-8|IL17RC;nc|ENSG00000288550|Q8NAC3-3|IL17RC;ENST00000478206.1_1_3:9962138-9965788:+|nuORF nc|ENSG00000288550|Q8NAC3-4|IL17RC nc|ENSG00000288550|Q8NAC3-4|IL17RC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.2780456542969 2 469.278921 936.543289 NaN NaN NaN NaN NaN NaN NaN 12.865 1 13.126 12.626 13.626 0.26154 0 0 0 0.99035 1 5599 5599 2.5775 0 1 25809 8314 16685 16743 29309 29309 0.07247867145144937 QLPIKHIRR 9 Unmodified _QLPIKHIRR_ 0 0 0 ENST00000420969.1_1_2:162357792-162360000:-|nuORF ENST00000420969.1_1_2:162357792-162360000:-|nuORF ENST00000420969.1_1_2:162357792-162360000:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 580.874755859375 2 580.872374 1159.73019 NaN NaN NaN NaN NaN NaN NaN 109.67 1 110.28 109.78 110.78 0.60264 0 0 0 0.91238 1 50577 50577 0.52476 0 1 25810 7755 16686 16744 29310 29310 0.15671903753354854 QLQAHLDHL 9 Unmodified _QLQAHLDHL_ 0 0 0 ENSG00000144395|ENST00000389175|CCDC150 ENSG00000144395|ENST00000389175|CCDC150 ENSG00000144395|ENST00000389175|CCDC150 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.7896118164062 2 537.788173 1073.56179 3.1421 0.0016898 -0.1293 -6.9536E-05 3.0128 0.0016203 537.787833236155 26.918 0.18674 27.697 27.615 27.802 0.7787 34 13 3 0 0 0 0.29024 1 12134 12134 24.021 3.5669 1 2025600 25811 3423 16687 16745 29311 29311 0.027953770490285024 QLQLPHPLLRM 11 Unmodified _QLQLPHPLLRM_ 0 0 0 REV__ENST00000473415.1_1_20:17541149-17543623:-|nuORF REV__ENST00000473415.1_1_20:17541149-17543623:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 673.3912963867188 2 673.392282 1344.77001 NaN NaN NaN NaN NaN NaN NaN 88 1 88.251 87.751 88.751 0.25064 0 0 0 1.0073 1 40495 40495 1.1933 0 1 + 25812 16626 16688 16746 29312 29312 0.11141662641762196 QLQPLKLQ 8 Unmodified _QLQPLKLQ_ 0 0 0 MER52A_dup623|chr7:125467694-125468854:-|4.819275525858485|0.0188931890662395|7.99|518.0|17|3|sense MER52A_dup623|chr7:125467694-125468854:-|4.819275525858485|0.0188931890662395|7.99|518.0|17|3|sense MER52A_dup623|chr7:125467694-125468854:-|4.819275525858485|0.0188931890662395|7.99|518.0|17|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.2019958496094 3 323.202682 966.586216 NaN NaN NaN NaN NaN NaN NaN 25.816 1 26.441 25.941 26.941 0.62505 0 0 0 0.99035 1 11836 11836 1.4819 0 1 25813 9518 16689 16747 29313 29313 0.10158637202562204 QLQWKWRVYLW 11 Unmodified _QLQWKWRVYLW_ 0 0 0 ENST00000371130.7_2_X:123780572-123780647:-|nuORF ENST00000371130.7_2_X:123780572-123780647:-|nuORF ENST00000371130.7_2_X:123780572-123780647:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 803.5856323242188 2 803.438078 1604.8616 NaN NaN NaN NaN NaN NaN NaN 81.099 1 81.099 80.599 81.599 0 0 0 0 1.0073 1 40373 40373 1.1933 0.84271 1 25814 7313 16690 16748 29314 29314 0.0833666933058339 QLRAMKRL 8 Unmodified _QLRAMKRL_ 0 0 0 ENSG00000198870|ENST00000371957|STKLD1 ENSG00000198870|ENST00000371957|STKLD1 ENSG00000198870|ENST00000371957|STKLD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.2124938964844 3 339.211294 1014.61205 2.5223 0.0008556 -0.068648 -2.3286E-05 2.4537 0.00083231 339.21140432884675 19.817 0.33788 20.475 20.301 20.639 0.65829 77 26 4 0 0 0 0.31493 2 8960 8960;9047 34.402 1.1106 1 1244600 25815 5953 16691 16749 29315;29316 29315 0.10533208173183084 QLREKIIIKHK 11 Unmodified _QLREKIIIKHK_ 0 0 0 ENST00000567980.5_1_16:81819579-81955027:+|nuORF;ENSG00000197943|ENST00000564138|PLCG2 ENST00000567980.5_1_16:81819579-81955027:+|nuORF ENST00000567980.5_1_16:81819579-81955027:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 703.4525146484375 2 703.453728 1404.8929 NaN NaN NaN NaN NaN NaN NaN 81.918 1 82.165 81.665 82.665 0.24722 0 0 0 1.008 1 37706 37706 0.26902 0 1 25816 5852 16692 16750 29317 29317 0.20665242364680125 QLRERVEKL 9 Unmodified _QLRERVEKL_ 0 0 0 ENSG00000131203|ENST00000518237|IDO1;ENST00000521636.1_1_8:39775423-39780236:+|nuORF ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.90423583984375 3 390.903295 1169.68806 2.6791 0.0010473 1.1022 0.00043085 3.7813 0.0014781 390.9039361692169 14.203 0.11473 14.51 14.461 14.576 0.3069 32 10 4 0 0 0 0.086415 1 6414 6414 33.445 0 1 18457000 25817 2646 16693 16751 29318 29318 0.1099988355433652 QLRERVEKL 9 Unmodified _QLRERVEKL_ 0 0 0 ENSG00000131203|ENST00000518237|IDO1;ENST00000521636.1_1_8:39775423-39780236:+|nuORF ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 585.85302734375 2 585.851304 1169.68806 3.2451 0.0019012 0.35215 0.00020631 3.5973 0.0021075 585.8515895307582 14.21 0.061038 14.517 14.485 14.546 0.3069 8 5 2 0 0 0 0.30982 1 6434 6434 16.149 0 1 2127000 25818 2646 16693 16751 29319 29319 0.1099988355433652 QLRERVEKL 9 Unmodified _QLRERVEKL_ 0 0 0 ENSG00000131203|ENST00000518237|IDO1;ENST00000521636.1_1_8:39775423-39780236:+|nuORF ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.9040222167969 3 390.903295 1169.68806 2.9242 0.0011431 0.14737 5.7607E-05 3.0716 0.0012007 390.90334782145965 14.178 0.15238 14.826 14.738 14.89 0.64819 56 24 3 0 0 0 0.02234 1 6360 6360 59.368 13.346 1 15186000 25819 2646 16693 16751 29320 29320 0.1099988355433652 QLRERVEKL 9 Unmodified _QLRERVEKL_ 0 0 0 ENSG00000131203|ENST00000518237|IDO1;ENST00000521636.1_1_8:39775423-39780236:+|nuORF ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.8532104492188 2 585.851304 1169.68806 3.6087 0.0021141 0.12819 7.51E-05 3.7369 0.0021892 585.8516239464524 14.197 0.082215 14.845 14.794 14.876 0.6482 20 13 2 0 0 0 0.14214 1 6379 6379 27.223 5.6331 1 2166700 25820 2646 16693 16751 29321 29321 0.1099988355433652 QLREYQIL 8 Unmodified _QLREYQIL_ 0 0 0 REV__nc|ENSG00000108846|O15438-3|ABCC3 REV__nc|ENSG00000108846|O15438-3|ABCC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.803955078125 2 531.800749 1061.58694 3.4702 0.0018454 0.39613 0.00021066 3.8663 0.0020561 531.801316655686 54.154 0.4175 54.154 54 54.418 0 72 31 3 0 0 0 0.074456 2 24815 24815;24867 57.471 13.699 1 2448200 + 25821 11160 16694 16752 29322;29323 29322 0.058614318515992636 QLREYQIL 8 Unmodified _QLREYQIL_ 0 0 0 REV__nc|ENSG00000108846|O15438-3|ABCC3 REV__nc|ENSG00000108846|O15438-3|ABCC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.8018798828125 2 531.800749 1061.58694 2.9475 0.0015675 -0.41588 -0.00022116 2.5316 0.0013463 531.8005176897788 53.077 0.23538 53.881 53.736 53.972 0.80351 35 18 3 0 0 0 0.045071 1 24179 24179 67.344 13.511 1 4646000 + 25822 11160 16694 16752 29324 29324 0.058614318515992636 QLREYQIL 8 Unmodified _QLREYQIL_ 0 0 0 REV__nc|ENSG00000108846|O15438-3|ABCC3 REV__nc|ENSG00000108846|O15438-3|ABCC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.8023681640625 2 531.800749 1061.58694 3.0343 0.0016136 1.0426 0.00055446 4.0769 0.0021681 531.8016418971062 53.968 0.59103 54.232 54.045 54.637 0.26462 47 26 3 0 0 0 0.15009 1 24695 24695 48.346 4.5735 1 1684100 + 25823 11160 16694 16752 29325 29325 0.058614318515992636 QLREYQIL 8 Unmodified _QLREYQIL_ 0 0 0 REV__nc|ENSG00000108846|O15438-3|ABCC3 REV__nc|ENSG00000108846|O15438-3|ABCC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.8023071289062 2 531.800749 1061.58694 3.088 0.0016422 1.8142 0.00096477 4.9021 0.002607 531.8018752495818 53.401 0.48669 54.066 53.892 54.379 0.6644 38 24 3 0 0 0 0.029979 1 24432 24432 77.984 17.91 1 1989000 + 25824 11160 16694 16752 29326 29326 0.058614318515992636 QLREYQIL 8 Unmodified _QLREYQIL_ 0 0 0 REV__nc|ENSG00000108846|O15438-3|ABCC3 REV__nc|ENSG00000108846|O15438-3|ABCC3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 531.800749 1061.58694 2.9475 0.0015675 -0.41588 -0.00022116 2.5316 0.0013463 531.8005176897788 53.077 0.23538 53.881 53.736 53.972 0.80351 -0.20224 -0.0012197 NaN 77.984 35 18 3 NaN NaN NaN NaN 0 NaN NaN 0 4646000 + 25825 11160 16694 16752 0.058614318515992636 QLRFWWRPWRA 11 Unmodified _QLRFWWRPWRA_ 0 0 0 REV__ENST00000389301.7_1_16:89804327-89804663:-|nuORF REV__ENST00000389301.7_1_16:89804327-89804663:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 801.4097290039062 2 801.433661 1600.85277 NaN NaN NaN NaN NaN NaN NaN 99.772 1 99.772 99.272 100.27 0 0 0 0 1.008 1 54939 54939 0.30703 0 1 + 25826 15911 16695 16753 29327 29327 0.0763774048475625 QLRKLLKRLKK 11 Unmodified _QLRKLLKRLKK_ 0 0 0 REV__nc|ENSG00000196562|Q8IWU5-2|SULF2 REV__nc|ENSG00000196562|Q8IWU5-2|SULF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 475.3377380371094 3 475.336434 1422.98747 NaN NaN NaN NaN NaN NaN NaN 86.242 1 86.242 85.742 86.742 0 0 0 0 1.0072 1 44166 44166 0.45452 0.45452 1 + 25827 14231 16696 16754 29328 29328 0.2928980090666755 QLRKLLKRLKK 11 Unmodified _QLRKLLKRLKK_ 0 0 0 REV__nc|ENSG00000196562|Q8IWU5-2|SULF2 REV__nc|ENSG00000196562|Q8IWU5-2|SULF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 712.7926635742188 2 712.501013 1422.98747 NaN NaN NaN NaN NaN NaN NaN 100.03 1 100.03 99.533 100.53 0 0 0 0 1.0082 1 55134 55134 0 0 1 + 25828 14231 16696 16754 29329 29329 0.2928980090666755 QLRLCAAG 8 Unmodified _QLRLCAAG_ 0 0 0 REV__ENST00000356244.7_2_22:41670730-41682075:-|nuORF REV__ENST00000356244.7_2_22:41670730-41682075:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 416.2170104980469 2 416.228905 830.443257 NaN NaN NaN NaN NaN NaN NaN 62.967 1 63.217 62.717 63.717 0.24965 0 0 0 0.99035 1 28836 28836 2.5775 0 1 + 25829 15553 16697 16755 29330 29330 0.021253065396649617 QLRLKNWRRLR 11 Unmodified _QLRLKNWRRLR_ 0 0 0 REV__ENSG00000225830|ENST00000355832|ERCC6 REV__ENSG00000225830|ENST00000355832|ERCC6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 770.1867065429688 2 769.978767 1537.94298 NaN NaN NaN NaN NaN NaN NaN 94.378 1 94.378 93.878 94.878 0 0 0 0 1.0061 1 50608 50608 2.7352 1.5419 1 + 25830 14556 16698 16756 29331 29331 0.19552789813178606 QLRLLRAFI 9 Unmodified _QLRLLRAFI_ 0 0 0 REV__nc|ENSG00000105499|Q9UP65-2|PLA2G4C REV__nc|ENSG00000105499|Q9UP65-2|PLA2G4C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 377.2458801269531 3 377.244992 1128.71315 NaN NaN NaN NaN NaN NaN NaN 61.941 1 62.194 61.694 62.694 0.25245 0 0 0 0.89451 1 28359 28359 4.897 0 1 + 25831 11037 16699 16757 29332 29332 0.15393983147532708 QLRLQRGRP 9 Unmodified _QLRLQRGRP_ 0 0 0 REV__nc|ENSG00000198026|Q9H4Z2-2|ZNF335 REV__nc|ENSG00000198026|Q9H4Z2-2|ZNF335 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.8992309570312 2 562.343981 1122.67341 NaN NaN NaN NaN NaN NaN NaN 83.125 1 83.372 82.872 83.872 0.24722 0 0 0 0.90699 1 38264 38264 1.8442 0 1 + 25832 14315 16700 16758 29333 29333 0.11697856196815337 QLRLVNQIL 9 Unmodified _QLRLVNQIL_ 0 0 0 REV__ENST00000472894.1_1_9:95018893-95021273:-|nuORF REV__ENST00000472894.1_1_9:95018893-95021273:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.23443603515625 3 366.232752 1095.67643 NaN NaN NaN NaN NaN NaN NaN 14.257 1 14.905 14.405 15.405 0.6482 0 0 0 0.55812 1 6414 6414 17.113 2.7075 1 + 25833 14203 16701 16759 29334 29334 0.1324168653097786 QLRRKRRRMF 10 Unmodified _QLRRKRRRMF_ 0 0 0 REV__ENST00000391975.5_1_2:242194961-242195633:-|nuORF REV__ENST00000391975.5_1_2:242194961-242195633:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 723.9366455078125 2 723.938588 1445.86262 NaN NaN NaN NaN NaN NaN NaN 93.548 1 93.803 93.303 94.303 0.25497 0 0 0 1.0015 1 42997 42997 0.40072 0.050084 1 + 25834 15924 16702 16760 29335 29335 0.15752605218494864 QLRRKRRRMFR 11 Unmodified _QLRRKRRRMFR_ 0 0 0 REV__ENST00000391975.5_1_2:242194961-242195633:-|nuORF REV__ENST00000391975.5_1_2:242194961-242195633:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 801.98828125 2 801.989143 1601.96373 NaN NaN NaN NaN NaN NaN NaN 60.428 1 60.684 60.184 61.184 0.25578 0 0 0 1.0082 1 27668 27668 0 0 1 + 25835 15924 16703 16761 29336 29336 0.18683056921190655 QLRRLVARRFL 11 Unmodified _QLRRLVARRFL_ 0 0 0 REV__ENSG00000006638|ENST00000375190|TBXA2R REV__ENSG00000006638|ENST00000375190|TBXA2R MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 476.7525329589844 3 476.640516 1426.89972 2.3929 0.0011405 0.50701 0.00024166 2.8999 0.0013822 476.6404705658799 64.7 0.14714 65.415 65.347 65.494 0.71522 24 17 2 0 0 0 0.13295 1 30502 30502 1.3296 0.11481 1 1614400 + 25836 10194 16704 16762 29337 29337 0.20334600035926087 QLRRRRRARPV 11 Unmodified _QLRRRRRARPV_ 0 0 0 REV__ENST00000504087.5_1_4:125633653-125633758:-|nuORF REV__ENST00000504087.5_1_4:125633653-125633758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 732.4978637695312 2 732.466358 1462.91816 NaN NaN NaN NaN NaN NaN NaN 107.61 1 107.61 107.11 108.11 0 0 0 0 1.0057 1 59010 59010 3.2813 1.9518 1 + 25837 16910 16705 16763 29338 29338 0.2052215473047454 QLRRSRRRRRR 11 Unmodified _QLRRSRRRRRR_ 0 0 0 REV__ENST00000418710.2_1_7:20824815-20825286:-|nuORF REV__ENST00000418710.2_1_7:20824815-20825286:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 798.50341796875 2 798.504338 1594.99412 NaN NaN NaN NaN NaN NaN NaN 70.298 1 70.554 70.054 71.054 0.25642 0 0 0 1.0082 1 32194 32194 0 0 1 + 25838 16152 16706 16764 29339 29339 0.22042551630602247 QLRTLWLP 8 Unmodified _QLRTLWLP_ 0 0 0 REV__ENSG00000081248|ENST00000362061|CACNA1S REV__ENSG00000081248|ENST00000362061|CACNA1S MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.8092651367188 2 513.808377 1025.6022 3.617 0.0018584 0.74012 0.00038028 4.3571 0.0022387 513.8086311769249 46.955 0.33242 47.219 47.009 47.342 0.26363 29 10 4 0 0 0 0.70799 1 21416 21416 5.2307 0 1 2060300 + 25839 10608 16707 16765 29340 29340 0.09042343439477918 QLRTLWLP 8 Unmodified _QLRTLWLP_ 0 0 0 REV__ENSG00000081248|ENST00000362061|CACNA1S REV__ENSG00000081248|ENST00000362061|CACNA1S MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8082275390625 2 513.808377 1025.6022 3.5289 0.0018132 0.88466 0.00045454 4.4135 0.0022677 513.8085480004565 46.62 0.68027 47.272 46.857 47.537 0.65219 45 25 3 0 0 0 0.7441 1 21210 21210 2.3027 0 1 2522300 + 25840 10608 16707 16765 29341 29341 0.09042343439477918 QLRVIRWMVGL 11 Unmodified _QLRVIRWMVGL_ 0 0 0 REV__ENST00000392396.7_2_3:195796375-195798346:-|nuORF REV__ENST00000392396.7_2_3:195796375-195798346:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.9111328125 2 685.908099 1369.80165 4.3936 0.0030136 0.85825 0.00058868 5.2519 0.0036023 685.908545510543 93.592 1.1827 93.847 93.255 94.437 0.25497 94 57 2 0 0 0 0.91378 1 42967 42967 0.35063 0 1 715590 + 25841 15927 16708 16766 29342 29342 0.13153655395717578 QLRVIRWMVGL 11 Unmodified _QLRVIRWMVGL_ 0 0 0 REV__ENST00000392396.7_2_3:195796375-195798346:-|nuORF REV__ENST00000392396.7_2_3:195796375-195798346:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.6102600097656 3 457.607825 1369.80165 3.1411 0.0014374 1.0564 0.00048342 4.1975 0.0019208 457.60827451486574 94.97 0.94132 95.588 94.942 95.884 0.61737 128 52 4 0 0 0 0.91378 1 43493 43493 0.094841 0.094841 1 1783600 + 25842 15927 16708 16766 29343 29343 0.13153655395717578 QLRWKEVWKVR 11 Unmodified _QLRWKEVWKVR_ 0 0 0 ENST00000395442.5_1_10:55568369-55568990:-|nuORF ENST00000395442.5_1_10:55568369-55568990:-|nuORF ENST00000395442.5_1_10:55568369-55568990:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 764.4518432617188 2 764.448977 1526.8834 NaN NaN NaN NaN NaN NaN NaN 49.616 1 50.273 49.773 50.773 0.65735 0 0 0 1.008 1 22695 22695 0.30703 0.30703 1 25843 7553 16709 16767 29344 29344 0.14103474079138323 QLSHWDYYF 9 Unmodified _QLSHWDYYF_ 0 0 0 REV__ENSG00000089356|ENST00000604404|FXYD3 REV__ENSG00000089356|ENST00000604404|FXYD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 629.7831420898438 2 629.780013 1257.54547 3.8733 0.0024393 0.11312 7.1244E-05 3.9865 0.0025106 629.7798856322186 65.756 0.33108 66.004 65.86 66.191 0.24847 45 18 3 0 0 0 0.83994 1 30089 30089 6.7232 0 1 1365300 + 25844 10698 16710 16768 29345 29345 -0.07299748907735193 QLSKKAQTI 9 Unmodified _QLSKKAQTI_ 0 0 0 ENST00000381588.8_1_13:26795399-26796425:-|nuORF ENST00000381588.8_1_13:26795399-26796425:-|nuORF ENST00000381588.8_1_13:26795399-26796425:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.81048583984375 2 508.808574 1015.60259 3.0733 0.0015637 -0.16465 -8.3773E-05 2.9086 0.0014799 508.8083749355164 58.433 0.17326 58.433 58.409 58.583 0 21 15 2 0 0 0 0.088474 1 27001 27001 38.176 1.6694 1 1195900 25845 7486 16711 16769 29346 29346 0.09541718368666352 QLSLRTVSL 9 Unmodified _QLSLRTVSL_ 0 0 0 ENST00000518587.1_1_5:170814889-170819841:+|nuORF;nc|ENSG00000181163|P06748-3|NPM1;nc|ENSG00000181163|P06748-2|NPM1;ENSG00000181163|ENST00000296930|NPM1 ENST00000518587.1_1_5:170814889-170819841:+|nuORF ENST00000518587.1_1_5:170814889-170819841:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.81024169921875 2 508.808574 1015.60259 3.2591 0.0016583 -0.39042 -0.00019865 2.8687 0.0014596 508.8082126881341 58.164 0.19732 58.426 58.248 58.446 0.26228 23 10 3 0 0 0 0.0022548 1 26603 26603 121.53 18.181 1 2995900 25846 5282 16712 16770 29347 29347 0.09541718368643615 QLSLRTVSL 9 Unmodified _QLSLRTVSL_ 0 0 0 ENST00000518587.1_1_5:170814889-170819841:+|nuORF;nc|ENSG00000181163|P06748-3|NPM1;nc|ENSG00000181163|P06748-2|NPM1;ENSG00000181163|ENST00000296930|NPM1 ENST00000518587.1_1_5:170814889-170819841:+|nuORF ENST00000518587.1_1_5:170814889-170819841:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 508.808574 1015.60259 3.3721 0.0017157 0.084876 4.3186E-05 3.4569 0.0017589 508.8084399833699 57.542 0.3582 58.21 58.091 58.449 0.66829 -0.14624 0.00010773 NaN 121.53 47 23 3 NaN NaN NaN NaN 0 NaN NaN 0 1491800 25847 5282 16712 16770 0.09541718368643615 QLSRPPEFL 9 Unmodified _QLSRPPEFL_ 0 0 0 ENSG00000182791|ENST00000333861|CCDC87 ENSG00000182791|ENST00000333861|CCDC87 ENSG00000182791|ENST00000333861|CCDC87 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.88262939453125 3 362.869591 1085.58694 NaN NaN NaN NaN NaN NaN NaN 40.86 1 40.86 40.36 41.36 0 0 0 0 0.62812 1 18555 18555 10.151 2.5416 1 25848 5350 16713 16771 29348 29348 0.04757431851612637 QLSRPPEFL 9 Unmodified _QLSRPPEFL_ 0 0 0 ENSG00000182791|ENST00000333861|CCDC87 ENSG00000182791|ENST00000333861|CCDC87 ENSG00000182791|ENST00000333861|CCDC87 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.88238525390625 3 362.869591 1085.58694 2.3696 0.00085986 0.94889 0.00034432 3.3185 0.0012042 362.8698617086119 40.052 0.3437 40.852 40.531 40.875 0.80014 26 18 2 0 0 0 0.3144 3 18005 18005;18055;18145 15.248 7.6395 1 707890 25849 5350 16713 16771 29349;29350;29351 29349 0.04757431851612637 QLSRPPEFL 9 Unmodified _QLSRPPEFL_ 0 0 0 ENSG00000182791|ENST00000333861|CCDC87 ENSG00000182791|ENST00000333861|CCDC87 ENSG00000182791|ENST00000333861|CCDC87 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.8829650878906 3 362.869591 1085.58694 2.7912 0.0010128 0.88744 0.00032203 3.6786 0.0013349 362.8698820109774 40.524 0.36157 40.793 40.644 41.006 0.26904 25 15 2 0 0 0 0.3144 1 18422 18422 10.8 3.1906 1 611030 25850 5350 16713 16771 29352 29352 0.04757431851612637 QLSRPPEFL 9 Unmodified _QLSRPPEFL_ 0 0 0 ENSG00000182791|ENST00000333861|CCDC87 ENSG00000182791|ENST00000333861|CCDC87 ENSG00000182791|ENST00000333861|CCDC87 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.8831481933594 3 362.869591 1085.58694 2.807 0.0010186 0.83123 0.00030163 3.6382 0.0013202 362.8698563970457 40.071 0.22469 40.712 40.548 40.772 0.64135 11 7 2 0 0 0 0.3144 2 18291 18291;18322 10.8 3.1906 1 730610 25851 5350 16713 16771 29353;29354 29353 0.04757431851612637 QLSRRLAAL 9 Unmodified _QLSRRLAAL_ 0 0 0 nc|ENSG00000131165|Q9HD42-2|CHMP1A;ENST00000547687.1_1_16:89712476-89713182:-|nuORF;ENSG00000131165|ENST00000397901|CHMP1A nc|ENSG00000131165|Q9HD42-2|CHMP1A nc|ENSG00000131165|Q9HD42-2|CHMP1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.21795654296875 3 343.217214 1026.62981 2.7448 0.00094206 -0.013014 -4.4665E-06 2.7318 0.00093759 343.21693150727424 30.079 0.30893 30.337 30.152 30.461 0.25804 53 30 3 0 0 0 0.1081 1 13666 13666 30.703 3.4802 1 1526300 25852 2642 16714 16772 29355 29355 0.11756246699701478 QLSRRLAAL 9 Unmodified _QLSRRLAAL_ 0 0 0 nc|ENSG00000131165|Q9HD42-2|CHMP1A;ENST00000547687.1_1_16:89712476-89713182:-|nuORF;ENSG00000131165|ENST00000397901|CHMP1A nc|ENSG00000131165|Q9HD42-2|CHMP1A nc|ENSG00000131165|Q9HD42-2|CHMP1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.2177429199219 3 343.217214 1026.62981 2.3911 0.00082068 -0.65768 -0.00022573 1.7335 0.00059496 343.2168049547573 29.773 0.46737 30.391 29.98 30.447 0.61789 46 19 3 0 0 0 0.1081 1 13640 13640 30.703 3.4802 1 1007400 25853 2642 16714 16772 29356 29356 0.11756246699701478 QLSRRLAAL 9 Unmodified _QLSRRLAAL_ 0 0 0 nc|ENSG00000131165|Q9HD42-2|CHMP1A;ENST00000547687.1_1_16:89712476-89713182:-|nuORF;ENSG00000131165|ENST00000397901|CHMP1A nc|ENSG00000131165|Q9HD42-2|CHMP1A nc|ENSG00000131165|Q9HD42-2|CHMP1A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 343.217214 1026.62981 2.6418 0.00090672 -0.90682 -0.00031124 1.735 0.00059548 343.21666419155014 30.272 0.2171 30.272 30.111 30.328 0 -0.012639 -0.00036351 NaN 30.703 23 14 2 NaN NaN NaN NaN 0 NaN NaN 0 383570 25854 2642 16714 16772 0.11756246699701478 QLSRRLAAL 9 Unmodified _QLSRRLAAL_ 0 0 0 nc|ENSG00000131165|Q9HD42-2|CHMP1A;ENST00000547687.1_1_16:89712476-89713182:-|nuORF;ENSG00000131165|ENST00000397901|CHMP1A nc|ENSG00000131165|Q9HD42-2|CHMP1A nc|ENSG00000131165|Q9HD42-2|CHMP1A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 343.217214 1026.62981 2.4359 0.00083604 -0.78798 -0.00027045 1.6479 0.00056559 343.21684101331755 29.351 0.21119 30.14 29.949 30.16 0.78921 -0.14506 -0.00024115 NaN 30.703 23 16 2 NaN NaN NaN NaN 0 NaN NaN 0 483260 25855 2642 16714 16772 0.11756246699701478 QLVQLLLVFH 10 Unmodified _QLVQLLLVFH_ 0 0 0 REV__ENSG00000109805|ENST00000251496|NCAPG REV__ENSG00000109805|ENST00000251496|NCAPG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.1899108886719 4 303.189309 1208.72813 2.1863 0.00066286 1.2526 0.00037978 3.4389 0.0010426 303.1896423882622 34.664 0.39726 35.453 35.406 35.803 0.78921 56 30 2 0 0 0 0.93534 1 15720 15720 0.77653 0.14971 1 1156300 + 25856 11181 16715 16773 29357 29357 0.13211430224896503 QLVQLLLVFH 10 Unmodified _QLVQLLLVFH_ 0 0 0 REV__ENSG00000109805|ENST00000251496|NCAPG REV__ENSG00000109805|ENST00000251496|NCAPG MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 303.189309 1208.72813 1.7799 0.00053964 2.1249 0.00064425 3.9048 0.0011839 303.1899499133911 35.625 0.33244 35.625 35.411 35.743 0 0.064185 0.00048988 NaN 0.77653 28 15 2 NaN NaN NaN NaN 0 NaN NaN 0 1002600 + 25857 11181 16715 16773 0.13211430224896503 QLVQLLLVFH 10 Unmodified _QLVQLLLVFH_ 0 0 0 REV__ENSG00000109805|ENST00000251496|NCAPG REV__ENSG00000109805|ENST00000251496|NCAPG MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 303.189309 1208.72813 2.1863 0.00066286 1.2526 0.00037978 3.4389 0.0010426 303.1896423882622 34.664 0.39726 35.453 35.406 35.803 0.78921 -0.1078 -0.00056802 NaN 0.77653 56 30 2 NaN NaN NaN NaN 0 NaN NaN 0 1156300 + 25858 11181 16715 16773 0.13211430224896503 QLVQLLLVFH 10 Unmodified _QLVQLLLVFH_ 0 0 0 REV__ENSG00000109805|ENST00000251496|NCAPG REV__ENSG00000109805|ENST00000251496|NCAPG MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 303.189309 1208.72813 2.1515 0.00065232 1.3162 0.00039906 3.4677 0.0010514 303.18971611809064 34.983 0.35303 35.606 35.547 35.9 0.62294 0.044807 -0.00049087 NaN 0.77653 28 19 2 NaN NaN NaN NaN 0 NaN NaN 0 1526400 + 25859 11181 16715 16773 0.13211430224896503 QLWPASRLLP 10 Unmodified _QLWPASRLLP_ 0 0 0 REV__ENST00000338820.7_1_10:74095033-74095504:-|nuORF REV__ENST00000338820.7_1_10:74095033-74095504:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.23406982421875 3 394.232752 1179.67643 NaN NaN NaN NaN NaN NaN NaN 48.842 1 48.842 48.342 49.342 0 0 0 0 0.99776 1 22369 22369 3.5871 0.5148 1 + 25860 15440 16716 16774 29358 29358 0.0937768653097919 QLYSWRLVFKR 11 Unmodified _QLYSWRLVFKR_ 0 0 0 REV__ENSG00000196600|ENST00000306494|SLC22A25 REV__ENSG00000196600|ENST00000306494|SLC22A25 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 748.4304809570312 2 748.430253 1494.84595 NaN NaN NaN NaN NaN NaN NaN 14.252 1 14.252 13.752 14.752 0 0 0 0 1.008 1 6274 6274 0.35063 0 1 + 25861 14235 16717 16775 29359 29359 0.11832382813508957 QMKKLIKQKQW 11 Unmodified _QMKKLIKQKQW_ 0 0 0 ENST00000507394.1_1_4:100479199-100480495:-|nuORF;ENSG00000145331|ENST00000394876|TRMT10A ENST00000507394.1_1_4:100479199-100480495:-|nuORF ENST00000507394.1_1_4:100479199-100480495:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 729.935546875 2 729.934314 1457.85407 4.1579 0.003035 1.2692 0.00092642 5.4271 0.0039614 729.9346871682491 95.913 0.35934 96.521 96.294 96.653 0.60769 29 21 2 0 0 0 0.91462 1 44132 44132 0.30703 0 1 634830 25862 3460 16718 16776 29360 29360 0.14346193738674629 QMKQKVQSL 9 Unmodified _QMKQKVQSL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 363.8749084472656 3 363.874348 1088.60121 2.0106 0.0007316 0.71344 0.0002596 2.724 0.00099121 363.87455360519925 12.895 0.13693 13.157 13.105 13.242 0.26154 16 10 2 0 0 0 0.29781 1 5629 5629 11.495 6.5977 1 551660 25863 931 16719 16777 29361 29361 0.060457610082494284 QMKQKVQSL 9 Unmodified _QMKQKVQSL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.87518310546875 3 363.874348 1088.60121 1.991 0.00072447 0.5239 0.00019063 2.5149 0.0009151 363.8746482562577 12.869 0.19253 13.176 13.058 13.25 0.30727 15 5 4 0 0 0 0.14729 1 5807 5807 19.362 3.6233 1 2639800 25864 931 16719 16777 29362 29362 0.060457610082494284 QMKQKVQSL 9 Unmodified _QMKQKVQSL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3102416992188 2 545.307884 1088.60121 2.883 0.0015721 0.11839 6.4557E-05 3.0013 0.0016367 545.3082686678285 12.869 0.15865 13.176 13.091 13.25 0.30727 9 4 3 0 0 0 0.012326 1 5813 5813 78.728 46.423 1 1062100 25865 931 16719 16777 29363 29363 0.060457610082494284 QMKQKVQSL 9 Unmodified _QMKQKVQSL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 545.307884 1088.60121 2.7871 0.0015198 1.8045 0.000984 4.5916 0.0025038 545.3082432487658 12.913 0.043784 13.156 13.139 13.183 0.24346 -0.075153 0.0016446 NaN 78.728 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 281170 25866 931 16719 16777 0.060457610082494284 QMKQKVQSL 9 Unmodified _QMKQKVQSL_ 0 0 0 nc|ENSG00000082641|Q14494-2|NFE2L1;ENSG00000082641|ENST00000362042|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 nc|ENSG00000082641|Q14494-2|NFE2L1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 545.307884 1088.60121 3.7954 0.0020697 0.41135 0.00022431 4.2068 0.002294 545.3086733611966 12.719 0.13535 13.362 13.278 13.413 0.64272 0.13057 0.00012526 NaN 78.728 8 3 3 NaN NaN NaN NaN 0 NaN NaN 0 1397100 25867 931 16719 16777 0.060457610082494284 QMKTVTVSL 9 Unmodified _QMKTVTVSL_ 0 0 0 ENSG00000144647|ENST00000344697|POMGNT2 ENSG00000144647|ENST00000344697|POMGNT2 ENSG00000144647|ENST00000344697|POMGNT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 336.1915588378906 3 336.191565 1005.55287 NaN NaN NaN NaN NaN NaN NaN 27.543 1 27.543 27.043 28.043 0 0 0 0 0.90699 1 12405 12405 0.96228 0 1 25868 3438 16720 16778 29364 29364 0.050312673683379217 QMMGSKDKQI 10 Unmodified _QMMGSKDKQI_ 0 0 0 REV__PI4KA|p.S1815*|1|0.23|ENSG00000241973|chr22:20714476-20714477|-/A|frameshift_variant REV__PI4KA|p.S1815*|1|0.23|ENSG00000241973|chr22:20714476-20714477|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.7890014648438 2 583.288834 1164.56311 3.4212 0.0019955 4.0469 0.0023605 7.4681 0.004356 583.2936785938957 62.916 0.38351 63.574 63.382 63.765 0.65808 53 23 3 0 0 0 0.78883 1 28784 28784 10.074 2.1638 1 3607900 + 25869 14615 16721 16779 29365 29365 -0.01258492968736391 QMRKQAINPRI 11 Unmodified _QMRKQAINPRI_ 0 0 0 REV__ENSG00000092201|ENST00000216297|SUPT16H REV__ENSG00000092201|ENST00000216297|SUPT16H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.44970703125 4 339.448857 1353.76632 2.6442 0.00089758 0.30316 0.00010291 2.9474 0.0010005 339.44890316869265 66.707 0.44637 66.957 66.831 67.277 0.2501 60 25 3 0 0 0 0.91137 1 30660 30660 1.1098 0 1 1287200 + 25870 10741 16722 16780 29366 29366 0.1035899286791846 QMRKQAINPRI 11 Unmodified _QMRKQAINPRI_ 0 0 0 REV__ENSG00000092201|ENST00000216297|SUPT16H REV__ENSG00000092201|ENST00000216297|SUPT16H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.4497985839844 4 339.448857 1353.76632 2.4448 0.00082988 0.84812 0.00028789 3.2929 0.0011178 339.6998674196163 65.683 0.51831 66.339 66.191 66.709 0.65672 86 30 4 0 0 0 0.91137 1 30202 30202 1.1098 0 1 2319800 + 25871 10741 16722 16780 29367 29367 0.1035899286791846 QMWHREKRRQR 11 Unmodified _QMWHREKRRQR_ 0 0 0 ENSG00000153993|ENST00000284136|SEMA3D ENSG00000153993|ENST00000284136|SEMA3D ENSG00000153993|ENST00000284136|SEMA3D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.9358520507812 3 537.62342 1609.84843 NaN NaN NaN NaN NaN NaN NaN 70.394 1 71.097 70.597 71.597 0.70302 0 0 0 1.008 1 33727 33727 0.08335 0.08335 1 25872 3798 16723 16781 29368 29368 0.06789907999564093 QMWIRFHLWRK 11 Unmodified _QMWIRFHLWRK_ 0 0 0 ENST00000372956.2_1_X:100183094-100183280:-|nuORF ENST00000372956.2_1_X:100183094-100183280:-|nuORF ENST00000372956.2_1_X:100183094-100183280:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 800.9378051757812 2 800.937722 1599.86089 NaN NaN NaN NaN NaN NaN NaN 88.244 1 88.296 87.796 88.796 0.052155 0 0 0 1.0082 1 44892 44892 0 0 1 25873 7349 16724 16782 29369 29369 0.08495551409896507 QNALRPPG 8 Unmodified _QNALRPPG_ 0 0 0 nc|ENSG00000125787|O43555-2|GNRH2;nc|ENSG00000125787|O43555|GNRH2 nc|ENSG00000125787|O43555-2|GNRH2 nc|ENSG00000125787|O43555-2|GNRH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 426.73638916015625 2 426.737951 851.46135 NaN NaN NaN NaN NaN NaN NaN 77.575 1 77.575 77.075 78.075 0 0 0 0 0.99035 1 38053 38053 2.5775 0 1 25874 9623 16725 16783 29370 29370 0.029677647860353318 QNAVQRAA 8 Unmodified _QNAVQRAA_ 0 0 0 ENST00000544490.5_1_11:72532712-72533589:+|nuORF;nc|ENSG00000168010|Q8NAA4-3|ATG16L2;ENST00000439504.6_1_11:72525490-72534007:+|nuORF;nc|ENSG00000168010|Q8NAA4-2|ATG16L2;ENSG00000168010|ENST00000321297|ATG16L2 ENST00000544490.5_1_11:72532712-72533589:+|nuORF ENST00000544490.5_1_11:72532712-72533589:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 429.2342834472656 2 429.233033 856.451513 NaN NaN NaN NaN NaN NaN NaN 69.883 1 70.586 70.086 71.086 0.70302 0 0 0 0.99035 1 33461 33461 5.7604 1.0044 1 25875 4592 16726 16784 29371 29371 0.01754576780649586 QNCLVGVH 8 Unmodified _QNCLVGVH_ 0 0 0 ENST00000254322.2_1_19:14625909-14626227:-|nuORF ENST00000254322.2_1_19:14625909-14626227:-|nuORF ENST00000254322.2_1_19:14625909-14626227:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.2208557128906 2 435.218537 868.422522 NaN NaN NaN NaN NaN NaN NaN 60.931 1 61.594 61.094 62.094 0.66261 0 0 0 0.99035 1 27898 27898 2.8892 0 1 25876 6512 16727 16785 29372 29372 -0.016952838399902248 QNDLRKMQL 9 Unmodified _QNDLRKMQL_ 0 0 0 nc|ENSG00000168066|Q15637-4|SF1;nc|ENSG00000168066|Q15637-6|SF1;nc|ENSG00000168066|Q15637-7|SF1;nc|ENSG00000168066|Q15637-3|SF1;nc|ENSG00000168066|Q15637-2|SF1;ENSG00000168066|ENST00000377390|SF1;nc|ENSG00000168066|Q15637-5|SF1 nc|ENSG00000168066|Q15637-4|SF1 nc|ENSG00000168066|Q15637-4|SF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 382.5419616699219 3 382.541369 1144.60228 3.0864 0.0011807 -0.22519 -8.6143E-05 2.8612 0.0010945 382.54136128688407 32.435 0.23387 32.689 32.593 32.827 0.25452 18 12 2 0 0 0 0.96953 1 14825 14825 4.5289 0.94181 1 458000 25877 4601 16728 16786 29373 29373 0.03575975377157192 QNDLRKMQL 9 Unmodified _QNDLRKMQL_ 0 0 0 nc|ENSG00000168066|Q15637-4|SF1;nc|ENSG00000168066|Q15637-6|SF1;nc|ENSG00000168066|Q15637-7|SF1;nc|ENSG00000168066|Q15637-3|SF1;nc|ENSG00000168066|Q15637-2|SF1;ENSG00000168066|ENST00000377390|SF1;nc|ENSG00000168066|Q15637-5|SF1 nc|ENSG00000168066|Q15637-4|SF1 nc|ENSG00000168066|Q15637-4|SF1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 382.541369 1144.60228 2.7245 0.0010422 -0.14787 -5.6567E-05 2.5766 0.00098567 382.5414634092623 31.842 0.20449 32.46 32.367 32.572 0.61737 -0.11484 2.6673E-05 NaN 4.5289 23 11 3 NaN NaN NaN NaN 0 NaN NaN 0 452020 25878 4601 16728 16786 0.03575975377157192 QNDSSSHC 8 Unmodified _QNDSSSHC_ 0 0 0 nc|ENSG00000263155|P0CAP1-11|MYZAP;ENST00000484300.1_1_15:57976864-58006874:+|nuORF;nc|ENSG00000255529|P0CAP2-2|POLR2M;ENST00000494490.1_3_15:57999305-58006874:+|nuORF;nc|ENSG00000255529|P0CAP2-3|POLR2M;ENSG00000255529|ENST00000299638|POLR2M nc|ENSG00000263155|P0CAP1-11|MYZAP nc|ENSG00000263155|P0CAP1-11|MYZAP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 439.1589660644531 2 439.158874 876.303194 NaN NaN NaN NaN NaN NaN NaN 56.589 1 56.855 56.355 57.355 0.26543 0 0 0 0.99035 1 25891 25891 0.79363 0.10326 1 25879 9860 16729 16787 29374 29374 -0.13990522255346605 QNDVFVKWPN 10 Unmodified _QNDVFVKWPN_ 0 0 0 ENSG00000090402|ENST00000264382|SI ENSG00000090402|ENST00000264382|SI ENSG00000090402|ENST00000264382|SI MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 416.213623046875 3 416.212017 1245.61422 NaN NaN NaN NaN NaN NaN NaN 74.839 1 75.503 75.003 76.003 0.6644 0 0 0 0.99954 1 34464 34464 2.086 0.89267 1 25880 1058 16730 16788 29375 29375 0.0012391539200962143 QNEKLKKQLQL 11 Unmodified _QNEKLKKQLQL_ 0 0 0 REV__ENSG00000197616|ENST00000405093|MYH6 REV__ENSG00000197616|ENST00000405093|MYH6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 342.8752746582031 4 343.209501 1368.8089 2.341 0.00080346 -1.9204 -0.0006591 0.42063 0.00014436 343.20895863261933 47.073 0.51054 47.726 47.66 48.171 0.65219 36 26 2 0 0 0 0.13295 1 21707 21707 0.40827 0 1 746120 + 25881 14292 16731 16789 29376 29376 0.13924666477146275 QNELFDPFYFF 11 Unmodified _QNELFDPFYFF_ 0 0 0 REV__nc|ENSG00000160796|Q6ZNJ1-2|NBEAL2 REV__nc|ENSG00000160796|Q6ZNJ1-2|NBEAL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.2308654785156 3 489.559082 1465.65542 NaN NaN NaN NaN NaN NaN NaN 79.281 1 79.532 79.032 80.032 0.25127 0 0 0 1.0071 1 36509 36509 0.50596 0 1 + 25882 12893 16732 16790 29377 29377 -0.058783683592082525 QNELYIPL 8 Unmodified _QNELYIPL_ 0 0 0 REV__nc|ENSG00000205359|Q86UG4-2|SLCO6A1 REV__nc|ENSG00000205359|Q86UG4-2|SLCO6A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.5156555175781 3 330.514925 988.522947 1.8543 0.00061286 1.0734 0.00035478 2.9277 0.00096764 330.5151861090835 13.164 0.54242 13.472 13.125 13.668 0.30727 80 30 5 0 0 0 0.71911 1 5997 5997 4.3292 0 1 2394400 + 25883 14460 16733 16791 29378 29378 0.028226516946688207 QNFEEMETE 9 Unmodified _QNFEEMETE_ 0 0 0 ENSG00000139174|ENST00000345127|PRICKLE1 ENSG00000139174|ENST00000345127|PRICKLE1 ENSG00000139174|ENST00000345127|PRICKLE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 386.154052734375 3 386.153616 1155.43902 NaN NaN NaN NaN NaN NaN NaN 71.223 1 71.885 71.385 72.385 0.66209 0 0 0 0.91206 1 32641 32641 0.26902 0 1 25884 3133 16734 16792 29379 29379 -0.13248292255184424 QNFSSSWSSGM 11 Unmodified _QNFSSSWSSGM_ 0 0 0 ENSG00000214872|ENST00000527972|SMTNL1 ENSG00000214872|ENST00000527972|SMTNL1 ENSG00000214872|ENST00000527972|SMTNL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 406.5013732910156 3 406.501239 1216.48189 NaN NaN NaN NaN NaN NaN NaN 46.114 1 46.943 46.443 47.443 0.82915 0 0 0 1.0079 1 21003 21003 0.45452 0.31463 1 25885 6121 16735 16793 29380 29380 -0.11769477407142404 QNFTEAAY 8 Unmodified _QNFTEAAY_ 0 0 0 nc|ENSG00000128512|Q8N1I0-2|DOCK4;nc|ENSG00000128512|Q8N1I0|DOCK4;ENSG00000128512|ENST00000428084|DOCK4 nc|ENSG00000128512|Q8N1I0-2|DOCK4 nc|ENSG00000128512|Q8N1I0-2|DOCK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 315.1443786621094 3 315.14338 942.408311 NaN NaN NaN NaN NaN NaN NaN 68.895 1 69.597 69.097 70.097 0.70218 0 0 0 0.99035 1 32887 32887 1.6526 0.17072 1 25886 2513 16736 16794 29381 29381 -0.06519657787293909 QNFTEAAY 8 Unmodified _QNFTEAAY_ 0 0 0 nc|ENSG00000128512|Q8N1I0-2|DOCK4;nc|ENSG00000128512|Q8N1I0|DOCK4;ENSG00000128512|ENST00000428084|DOCK4 nc|ENSG00000128512|Q8N1I0-2|DOCK4 nc|ENSG00000128512|Q8N1I0-2|DOCK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 315.14434814453125 3 315.14338 942.408311 NaN NaN NaN NaN NaN NaN NaN 63.28 1 63.938 63.438 64.438 0.65808 0 0 0 0.99035 1 28997 28997 1.8442 0.19162 1 25887 2513 16736 16794 29382 29382 -0.06519657787293909 QNFVNFRYLI 10 Unmodified _QNFVNFRYLI_ 0 0 0 nc|ENSG00000140750|Q68EM7-3|ARHGAP17;nc|ENSG00000140750|Q68EM7-2|ARHGAP17;nc|ENSG00000140750|Q68EM7-6|ARHGAP17;nc|ENSG00000140750|Q68EM7-5|ARHGAP17;ENSG00000140750|ENST00000289968|ARHGAP17 nc|ENSG00000140750|Q68EM7-3|ARHGAP17 nc|ENSG00000140750|Q68EM7-3|ARHGAP17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 438.5718078613281 3 438.571545 1312.69281 NaN NaN NaN NaN NaN NaN NaN 66.272 1 66.272 65.772 66.772 0 0 0 0 1.0001 1 31658 31658 0.69767 0.07084 1 25888 3217 16737 16795 29383 29383 0.04896767697096038 QNGRKKRKIPK 11 Unmodified _QNGRKKRKIPK_ 0 0 0 nc|ENSG00000146966|Q9ULE3-2|DENND2A;ENSG00000146966|ENST00000496613|DENND2A nc|ENSG00000146966|Q9ULE3-2|DENND2A nc|ENSG00000146966|Q9ULE3-2|DENND2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 338.97088623046875 4 338.970385 1351.85244 2.2195 0.00075234 -2.2885 -0.00077573 -0.068978 -2.3382E-05 338.9701082974258 47.818 0.26959 47.818 47.741 48.011 0 32 13 4 0 0 0 0.91328 1 21914 21914 0.50596 0 1 1670100 25889 9682 16738 16796 29384 29384 0.19058320764906966 QNIIKTLRVP 10 Unmodified _QNIIKTLRVP_ 0 0 0 nc|ENSG00000061987|Q7Z3U7-3|MON2;ENST00000551307.5_1_12:62954224-62986526:+|nuORF;nc|ENSG00000061987|Q7Z3U7-2|MON2;nc|ENSG00000061987|Q7Z3U7-6|MON2;ENST00000547095.5_1_12:62864501-62986526:+|nuORF;nc|ENSG00000061987|Q7Z3U7-5|MON2;ENSG00000061987|ENST00000393630|MON2 nc|ENSG00000061987|Q7Z3U7-3|MON2 nc|ENSG00000061987|Q7Z3U7-3|MON2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.58636474609375 3 394.583674 1180.72919 NaN NaN NaN NaN NaN NaN NaN 72.304 1 72.563 72.063 73.063 0.25876 0 0 0 0.99774 1 33190 33190 1.7423 0 1 25890 651 16739 16797 29385 29385 0.14605644593802936 QNIKGLKL 8 Unmodified _QNIKGLKL_ 0 0 0 REV__nc|ENSG00000133863|Q9BXT5|TEX15 REV__nc|ENSG00000133863|Q9BXT5|TEX15 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.865234375 3 305.19916 912.575651 2.219 0.00067723 -1.1117 -0.0003393 1.1072 0.00033793 305.198807964536 34.06 0.42687 34.314 33.964 34.391 0.25389 28 20 2 0 0 0 0.14346 1 15480 15480 0.45834 0 1 1824800 + 25891 11946 16740 16798 29386 29386 0.11586654548113984 QNINKLVL 8 Unmodified _QNINKLVL_ 0 0 0 ENSG00000171865|ENST00000315212|RNASEH1 ENSG00000171865|ENST00000315212|RNASEH1 ENSG00000171865|ENST00000315212|RNASEH1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.2181396484375 3 314.530798 940.570566 2.4238 0.00076237 -0.46703 -0.0001469 1.9568 0.00061548 314.5307154701568 37.474 0.34801 37.735 37.541 37.889 0.26083 14 10 2 0 0 0 0.14346 1 17101 17101 0.45834 0 1 208120 25892 4839 16741 16799 29387 29387 0.09790350685500471 QNKKKIVHF 9 Unmodified _QNKKKIVHF_ 0 0 0 nc|ENSG00000166004|Q9C0D2-4|CEP295;nc|ENSG00000166004|Q9C0D2-2|CEP295;ENSG00000166004|ENST00000325212|CEP295;nc|ENSG00000166004|Q9C0D2-3|CEP295 nc|ENSG00000166004|Q9C0D2-4|CEP295 nc|ENSG00000166004|Q9C0D2-4|CEP295 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.568359375 3 381.232864 1140.67676 2.8377 0.0010818 1.1446 0.00043634 3.9822 0.0015182 381.2332133459527 65.592 0.20321 66.248 66.145 66.348 0.65672 16 11 2 0 0 0 1.0755 1 30069 30069 2.7352 0.23671 1 387360 25893 4443 16742 16800 29388 29388 0.11205106250849894 QNKKPVIP 8 Unmodified _QNKKPVIP_ 0 0 0 ENSG00000196455|ENST00000356763|PIK3R4 ENSG00000196455|ENST00000356763|PIK3R4 ENSG00000196455|ENST00000356763|PIK3R4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 462.2890319824219 2 462.287277 922.560001 NaN NaN NaN NaN NaN NaN NaN 56.813 1 57.482 56.982 57.982 0.66829 0 0 0 0.99035 1 25993 25993 2.5775 0.27475 1 25894 5746 16743 16801 29389 29389 0.09562368031083679 QNKKRVLL 8 Unmodified _QNKKRVLL_ 0 0 0 ENSG00000142534|ENST00000270625|RPS11;ENST00000600027.5_1_19:49999677-50000944:+|nuORF;ENST00000599167.5_1_19:49999677-50000690:+|nuORF ENSG00000142534|ENST00000270625|RPS11 ENSG00000142534|ENST00000270625|RPS11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 333.5545349121094 3 333.553826 997.639649 2.433 0.00081152 -0.30503 -0.00010174 2.1279 0.00070978 333.5537064234222 12.63 0.091732 12.63 12.583 12.675 0 18 6 4 0 0 0 0.16336 1 5501 5501 46.021 16.939 1 4567700 25895 3314 16744 16802 29390 29390 0.14073434705096588 QNKKRVLL 8 Unmodified _QNKKRVLL_ 0 0 0 ENSG00000142534|ENST00000270625|RPS11;ENST00000600027.5_1_19:49999677-50000944:+|nuORF;ENST00000599167.5_1_19:49999677-50000690:+|nuORF ENSG00000142534|ENST00000270625|RPS11 ENSG00000142534|ENST00000270625|RPS11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 333.55450439453125 3 333.553826 997.639649 1.8148 0.00060534 -0.21621 -7.2119E-05 1.5986 0.00053322 333.5537703955184 12.468 0.05341 12.729 12.707 12.76 0.26154 5 3 2 0 0 0 0.61796 1 5407 5407 19.257 9.1831 1 3750100 25896 3314 16744 16802 29391 29391 0.14073434705096588 QNKKRVLL 8 Unmodified _QNKKRVLL_ 0 0 0 ENSG00000142534|ENST00000270625|RPS11;ENST00000600027.5_1_19:49999677-50000944:+|nuORF;ENST00000599167.5_1_19:49999677-50000690:+|nuORF ENSG00000142534|ENST00000270625|RPS11 ENSG00000142534|ENST00000270625|RPS11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 333.5542907714844 3 333.553826 997.639649 1.649 0.00055004 -0.29655 -9.8916E-05 1.3525 0.00045113 333.55373393511593 12.472 0.098671 12.78 12.72 12.819 0.30727 11 4 4 0 0 0 0.45037 1 5621 5621 32.305 17.467 1 20071000 25897 3314 16744 16802 29392 29392 0.14073434705096588 QNKKRVLL 8 Unmodified _QNKKRVLL_ 0 0 0 ENSG00000142534|ENST00000270625|RPS11;ENST00000600027.5_1_19:49999677-50000944:+|nuORF;ENST00000599167.5_1_19:49999677-50000690:+|nuORF ENSG00000142534|ENST00000270625|RPS11 ENSG00000142534|ENST00000270625|RPS11 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 333.553826 997.639649 2.6434 0.00088172 -0.07253 -2.4192E-05 2.5709 0.00085753 333.5537033545065 12.438 0.088041 13.081 13.033 13.121 0.64272 0.27572 0.00016552 NaN 46.021 7 3 3 NaN NaN NaN NaN 0 NaN NaN 0 24752000 25898 3314 16744 16802 0.14073434705096588 QNKKVMKRLK 10 Unmodified _QNKKVMKRLK_ 0 0 0 ENSG00000100426|ENST00000216268|ZBED4 ENSG00000100426|ENST00000216268|ZBED4 ENSG00000100426|ENST00000216268|ZBED4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 424.9356689453125 3 424.935942 1271.786 NaN NaN NaN NaN NaN NaN NaN 65.798 1 65.798 65.298 66.298 0 0 0 0 1.0001 1 31361 31361 0.69767 0.07084 1 25899 1217 16745 16803 29393 29393 0.1609736887867257 QNKRGPLG 8 Unmodified _QNKRGPLG_ 0 0 0 REV__ENST00000569626.1_1_16:67168183-67168375:+|nuORF REV__ENST00000569626.1_1_16:67168183-67168375:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.25250244140625 2 435.251226 868.487899 3.2151 0.0013994 0.11163 4.8589E-05 3.3268 0.001448 435.25118362096214 86.832 0.37042 87.508 87.342 87.713 0.67555 36 15 3 0 0 0 0.7471 1 39972 39972 0.79363 0 1 2173800 + 25900 17439 16746 16804 29394 29394 0.04839453677379879 QNLGIIPC 8 Unmodified _QNLGIIPC_ 0 0 0 nc|ENSG00000162849|Q2KJY2-2|KIF26B;ENSG00000162849|ENST00000407071|KIF26B nc|ENSG00000162849|Q2KJY2-2|KIF26B nc|ENSG00000162849|Q2KJY2-2|KIF26B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 429.2337951660156 2 429.231113 856.447674 NaN NaN NaN NaN NaN NaN NaN 63.01 1 63.01 62.51 63.51 0 0 0 0 0.99035 1 29594 29594 2.8892 0.31174 1 25901 4171 16747 16805 29395 29395 0.013707709625919051 QNLILHKP 8 Unmodified _QNLILHKP_ 0 0 0 ENST00000554501.5_1_14:74538217-74551097:-|nuORF ENST00000554501.5_1_14:74538217-74551097:-|nuORF ENST00000554501.5_1_14:74538217-74551097:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 321.62322998046875 3 321.53091 961.5709 NaN NaN NaN NaN NaN NaN NaN 61.946 1 62.199 61.699 62.699 0.25245 0 0 0 0.99035 1 28361 28361 0.45834 0 1 25902 8907 16748 16806 29396 29396 0.08857770405359133 QNLKRRPG 8 Unmodified _QNLKRRPG_ 0 0 0 nc|ENSG00000236438|C9JC47|FAM157A;nc|ENSG00000233013|P0CG42|FAM157B;nc|ENSG00000260528|P0CG43|FAM157C nc|ENSG00000236438|C9JC47|FAM157A nc|ENSG00000236438|C9JC47|FAM157A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.7900085449219 2 484.79105 967.567546 NaN NaN NaN NaN NaN NaN NaN 37.167 1 37.427 36.927 37.927 0.26083 0 0 0 0.99035 1 16929 16929 2.3027 0 1 25903 9841 16749 16807 29397 29397 0.08246520351372055 QNLLKLII 8 Unmodified _QNLLKLII_ 0 0 0 L1PA6_dup5640|chr19:20482443-20488575:+|1.1762487912993795|0.3545951168651645|1.73|529.0|100|2|sense L1PA6_dup5640|chr19:20482443-20488575:+|1.1762487912993795|0.3545951168651645|1.73|529.0|100|2|sense L1PA6_dup5640|chr19:20482443-20488575:+|1.1762487912993795|0.3545951168651645|1.73|529.0|100|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.8241271972656 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 58.737 1 58.737 58.237 59.237 0 0 0 0 0.99035 1 27120 27120 0.79363 0 1 25904 9475 16750 16808 29398 29398 0.14868398242049352 QNLLKLII 8 Unmodified _QNLLKLII_ 0 0 0 L1PA6_dup5640|chr19:20482443-20488575:+|1.1762487912993795|0.3545951168651645|1.73|529.0|100|2|sense L1PA6_dup5640|chr19:20482443-20488575:+|1.1762487912993795|0.3545951168651645|1.73|529.0|100|2|sense L1PA6_dup5640|chr19:20482443-20488575:+|1.1762487912993795|0.3545951168651645|1.73|529.0|100|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.8226623535156 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 62.178 1 62.838 62.338 63.338 0.66008 0 0 0 0.99035 1 28491 28491 0.79363 0 1 25905 9475 16750 16808 29399 29399 0.14868398242049352 QNLLNFLPEQ 10 Unmodified _QNLLNFLPEQ_ 0 0 0 ENST00000486017.5_1_2:101541677-101580523:+|nuORF;ENSG00000170485|ENST00000335681|NPAS2 ENST00000486017.5_1_2:101541677-101580523:+|nuORF ENST00000486017.5_1_2:101541677-101580523:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.88409423828125 3 405.883789 1214.62954 2.1498 0.00087257 1.0721 0.00043515 3.2219 0.0013077 405.88411740662843 71.877 0.44929 72.581 72.429 72.878 0.70386 67 45 2 0 0 0 0.90196 1 34606 34606 1.7423 0 1 1725000 25906 4752 16751 16809 29400 29400 0.030807821891812637 QNLYKYALKLW 11 Unmodified _QNLYKYALKLW_ 0 0 0 REV__nc|ENSG00000133858|O60293-2|ZFC3H1 REV__nc|ENSG00000133858|O60293-2|ZFC3H1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 720.4039306640625 2 720.405912 1438.79727 NaN NaN NaN NaN NaN NaN NaN 83.66 1 83.907 83.407 84.407 0.24722 0 0 0 1.0073 1 38508 38508 1.1933 0.735 1 + 25907 11945 16752 16810 29401 29401 0.09542469453776903 QNMCAAAHIH 10 Unmodified _QNMCAAAHIH_ 0 0 0 REV__ENST00000534047.5_1_11:10503676-10517278:+|nuORF REV__ENST00000534047.5_1_11:10503676-10517278:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.3017578125 2 548.24476 1094.47497 NaN NaN NaN NaN NaN NaN NaN 28.642 1 29.431 28.931 29.931 0.78921 0 0 0 1.0001 1 12903 12903 1.6526 0.17072 1 + 25908 11418 16753 16811 29402 29402 -0.06849068768701727 QNMIKGVTL 9 Unmodified _QNMIKGVTL_ 0 0 0 ENSG00000163682|ENST00000295955|RPL9;ENST00000439124.1_1_6:64325734-64326112:-|nuORF;ENST00000514842.5_1_4:39459094-39460113:-|nuORF;ENST00000511075.5_1_4:39457912-39460059:-|nuORF;ENST00000561773.1_1_15:66671752-66672088:-|nuORF ENSG00000163682|ENST00000295955|RPL9 ENSG00000163682|ENST00000295955|RPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.2852783203125 2 502.283877 1002.5532 3.0402 0.0015271 0.35693 0.00017928 3.3972 0.0017063 502.28397958628807 49.449 0.22855 49.449 49.357 49.586 0 19 8 3 0 0 0 0.02812 2 22631 22631;22689 57.722 28.64 1 1023600 25909 4241 16754 16812 29403;29404 29403 0.05202687088217317 QNMIKGVTL 9 Unmodified _QNMIKGVTL_ 0 0 0 ENSG00000163682|ENST00000295955|RPL9;ENST00000439124.1_1_6:64325734-64326112:-|nuORF;ENST00000514842.5_1_4:39459094-39460113:-|nuORF;ENST00000511075.5_1_4:39457912-39460059:-|nuORF;ENST00000561773.1_1_15:66671752-66672088:-|nuORF ENSG00000163682|ENST00000295955|RPL9 ENSG00000163682|ENST00000295955|RPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 502.28558349609375 2 502.283877 1002.5532 3.0662 0.0015401 0.52667 0.00026454 3.5928 0.0018046 502.2838170722395 48.413 0.28382 49.24 49.089 49.373 0.82705 23 14 2 0 0 0 0.02631 1 22080 22080 60.074 24.03 1 503210 25910 4241 16754 16812 29405 29405 0.05202687088217317 QNMIKGVTL 9 Unmodified _QNMIKGVTL_ 0 0 0 ENSG00000163682|ENST00000295955|RPL9;ENST00000439124.1_1_6:64325734-64326112:-|nuORF;ENST00000514842.5_1_4:39459094-39460113:-|nuORF;ENST00000511075.5_1_4:39457912-39460059:-|nuORF;ENST00000561773.1_1_15:66671752-66672088:-|nuORF ENSG00000163682|ENST00000295955|RPL9 ENSG00000163682|ENST00000295955|RPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.2857666015625 2 502.283877 1002.5532 3.3002 0.0016577 0.22583 0.00011343 3.5261 0.0017711 502.28402312323914 49.335 0.30003 49.597 49.427 49.727 0.26146 30 10 4 0 0 0 0.0012766 2 22522 22522;22583 122.18 57.943 1 2554700 25911 4241 16754 16812 29406;29407 29406 0.05202687088217317 QNMIKGVTL 9 Unmodified _QNMIKGVTL_ 0 0 0 ENSG00000163682|ENST00000295955|RPL9;ENST00000439124.1_1_6:64325734-64326112:-|nuORF;ENST00000514842.5_1_4:39459094-39460113:-|nuORF;ENST00000511075.5_1_4:39457912-39460059:-|nuORF;ENST00000561773.1_1_15:66671752-66672088:-|nuORF ENSG00000163682|ENST00000295955|RPL9 ENSG00000163682|ENST00000295955|RPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.284912109375 2 502.283877 1002.5532 3.3679 0.0016916 -0.012956 -6.5075E-06 3.3549 0.0016851 502.28386169042733 48.806 0.29379 49.461 49.31 49.604 0.65524 27 10 3 0 0 0 0.0012766 2 22319 22319;22378 122.18 67.406 1 2069300 25912 4241 16754 16812 29408;29409 29408 0.05202687088217317 QNPAQCGD 8 Unmodified _QNPAQCGD_ 0 0 0 ENST00000594581.5_1_19:47228900-47229158:-|nuORF ENST00000594581.5_1_19:47228900-47229158:-|nuORF ENST00000594581.5_1_19:47228900-47229158:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 416.5657958984375 2 416.666334 831.318116 NaN NaN NaN NaN NaN NaN NaN 68.623 1 69.282 68.782 69.782 0.65924 0 0 0 0.99035 1 31456 31456 0.79363 0 1 25913 9264 16755 16813 29410 29410 -0.10429030387365401 QNPARQTL 8 Unmodified _QNPARQTL_ 0 0 0 ENSG00000105767|ENST00000222374|CADM4 ENSG00000105767|ENST00000222374|CADM4 ENSG00000105767|ENST00000222374|CADM4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.25506591796875 2 464.253966 926.493378 2.9937 0.0013898 -0.0012932 -6.0039E-07 2.9924 0.0013892 464.2538367504069 90.861 0.45721 91.534 91.307 91.764 0.67271 74 25 4 0 0 0 0.74709 1 41763 41763 2.0598 0 1 2775500 25914 1528 16756 16814 29411 29411 0.027191324691784757 QNPFRVVF 8 Unmodified _QNPFRVVF_ 0 0 0 REV__ENSG00000124486|ENST00000378308|USP9X REV__ENSG00000124486|ENST00000378308|USP9X MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.1779479980469 3 336.187143 1005.5396 NaN NaN NaN NaN NaN NaN NaN 82.455 1 82.702 82.202 83.202 0.24722 0 0 0 0.99035 1 37955 37955 1.8442 0.19162 1 + 25915 11656 16757 16815 29412 29412 0.037051973712891595 QNPGSPRPGS 10 Unmodified _QNPGSPRPGS_ 0 0 0 ENSG00000171560|ENST00000403106|FGA;nc|ENSG00000171560|P02671|FGA ENSG00000171560|ENST00000403106|FGA ENSG00000171560|ENST00000403106|FGA MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.53643798828125 3 332.833429 995.478456 2.0912 0.00069603 -0.73724 -0.00024538 1.354 0.00045065 332.83210731365034 62.686 0.46732 63.344 62.984 63.452 0.65808 42 30 2 0 0 0 0.12676 1 28604 28604 0.62683 0 1 605670 25916 4814 16758 16816 29413 29413 -0.01946359398812092 QNRVVFFL 8 Unmodified _QNRVVFFL_ 0 0 0 ENST00000263921.7_2_4:54876122-54876230:-|nuORF ENST00000263921.7_2_4:54876122-54876230:-|nuORF ENST00000263921.7_2_4:54876122-54876230:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 511.79461669921875 2 511.792727 1021.5709 NaN NaN NaN NaN NaN NaN NaN 68.492 1 68.744 68.244 69.244 0.25227 0 0 0 0.38365 1 31377 31377 32.117 10.37 1 25917 6596 16759 16817 29414 29414 0.06097770405369829 QNSGVLPA 8 Unmodified _QNSGVLPA_ 0 0 0 ENST00000352210.9_1_1:161136243-161136720:+|nuORF;ENST00000367999.8_1_1:161136243-161136698:+|nuORF ENST00000352210.9_1_1:161136243-161136720:+|nuORF ENST00000352210.9_1_1:161136243-161136720:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.2114562988281 2 393.211235 784.407917 2.4124 0.00094858 -1.1012 -0.00043299 1.3112 0.00051559 393.21081283542 74.914 0.25412 75.578 75.467 75.721 0.6644 35 20 2 0 0 0 0.7471 1 34494 34494 0.79363 0 1 570980 25918 7135 16760 16818 29415 29415 0.007089672835036254 QNSHMVRQAA 10 Unmodified _QNSHMVRQAA_ 0 0 0 REV__nc|ENSG00000162437|Q9HCJ3-2|RAVER2 REV__nc|ENSG00000162437|Q9HCJ3-2|RAVER2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.19146728515625 3 381.189218 1140.54582 NaN NaN NaN NaN NaN NaN NaN 70.966 1 71.629 71.129 72.129 0.66209 0 0 0 0.99733 1 32524 32524 1.9064 0.31409 1 + 25919 12937 16761 16819 29416 29416 -0.018826524594942384 QNTKGGST 8 Unmodified _QNTKGGST_ 0 0 0 REV__nc|ENSG00000187955|Q05707-3|COL14A1 REV__nc|ENSG00000187955|Q05707-3|COL14A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 396.6966247558594 2 396.695949 791.377345 NaN NaN NaN NaN NaN NaN NaN 59.969 1 60.228 59.728 60.728 0.2593 0 0 0 0.99035 1 27462 27462 0.79363 0 1 + 25920 18084 16762 16820 29417 29417 -0.02668811101511892 QNTKRGPK 8 Unmodified _QNTKRGPK_ 0 0 0 REV__nc|ENSG00000169925|Q15059-2|BRD3 REV__nc|ENSG00000169925|Q15059-2|BRD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.7715759277344 2 464.769783 927.525013 2.5331 0.0011773 0.59588 0.00027695 3.129 0.0014542 464.77005327199805 78.874 0.33563 79.126 78.969 79.305 0.25127 61 26 3 0 0 0 0.70146 1 36296 36296 5.7604 2.7652 1 1227900 + 25921 13409 16763 16821 29418 29418 0.05835125223131854 QNTLISLTR 9 Unmodified _QNTLISLTR_ 0 0 0 REV__ENSG00000226887|ENST00000443173|ERVMER34-1 REV__ENSG00000226887|ENST00000443173|ERVMER34-1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.3060913085938 2 523.303655 1044.59276 2.0715 0.001084 1.1491 0.00060135 3.2206 0.0016854 523.3039634655503 102.9 0.13181 102.95 102.87 103 0.055092 10 4 3 0 0 0 1.2078 1 55831 55831 0.6015 0 1 856940 + 25922 14561 16764 16822 29419 29419 0.07224530363282611 QNVGKSLT 8 Unmodified _QNVGKSLT_ 0 0 0 nc|ENSG00000182901|P49802-5|RGS7 nc|ENSG00000182901|P49802-5|RGS7 nc|ENSG00000182901|P49802-5|RGS7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 423.7387390136719 2 423.737617 845.460681 2.9084 0.0012324 -0.78806 -0.00033393 2.1203 0.00089846 423.7373246946916 78.04 0.25044 78.702 78.573 78.824 0.66198 20 13 2 0 0 0 0.7471 1 35975 35975 0.79363 0 1 435690 25923 9776 16765 16823 29420 29420 0.03176925346326698 QNVISVIT 8 Unmodified _QNVISVIT_ 0 0 0 ENSG00000159459|ENST00000290650|UBR1;UBR1|p.S597Vfs*6|1|0.11|ENSG00000159459|chr15:43043276-43043277|-/T|frameshift_variant;nc|ENSG00000159459|Q8IWV7-2|UBR1 ENSG00000159459|ENST00000290650|UBR1 ENSG00000159459|ENST00000290650|UBR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.25775146484375 2 437.255643 872.496732 NaN NaN NaN NaN NaN NaN NaN 103.43 1 103.49 102.99 103.99 0.055092 0 0 0 0.99035 1 56077 56077 2.3027 0 1 25924 4026 16766 16824 29421 29421 0.055383825231729134 QNVLIQSLL 9 Unmodified _QNVLIQSLL_ 0 0 0 REV__ENSG00000158457|ENST00000486685|TSPAN33 REV__ENSG00000158457|ENST00000486685|TSPAN33 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.21051025390625 3 343.209725 1026.60735 2.2519 0.00077287 0.70572 0.00024221 2.9576 0.0010151 343.21000856181155 14.673 0.36588 14.98 14.849 15.215 0.3069 47 30 2 0 0 0 0.10945 1 6638 6638 2.9952 0 1 172320 + 25925 12823 16767 16825 29422 29422 0.09510602511431898 QNYHPNCEA 9 Unmodified _QNYHPNCEA_ 0 0 0 ENST00000463135.1_1_X:37300766-37301252:+|nuORF ENST00000463135.1_1_X:37300766-37301252:+|nuORF ENST00000463135.1_1_X:37300766-37301252:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 359.1487731933594 3 359.146907 1074.41889 NaN NaN NaN NaN NaN NaN NaN 75.741 1 76.405 75.905 76.905 0.6635 0 0 0 0.91014 1 36685 36685 1.0715 0.10919 1 25926 8100 16768 16826 29423 29423 -0.11533998404502199 QPADAERAL 9 Unmodified _QPADAERAL_ 0 0 0 nc|ENSG00000070756|P11940-2|PABPC1;ENSG00000070756|ENST00000318607|PABPC1;nc|ENSG00000101104|Q4VXU2-2|PABPC1L;nc|ENSG00000101104|Q4VXU2|PABPC1L;ENSG00000101104|ENST00000217073|PABPC1L;nc|ENSG00000090621|Q13310-2|PABPC4;nc|ENSG00000090621|Q13310|PABPC4;ENSG00000090621|ENST00000372858|PABPC4 nc|ENSG00000070756|P11940-2|PABPC1;nc|ENSG00000090621|Q13310-2|PABPC4 nc|ENSG00000070756|P11940-2|PABPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.75274658203125 2 485.751256 969.487959 3.34 0.0016224 -0.12601 -6.1208E-05 3.214 0.0015612 485.7512190670383 22.062 0.29436 22.062 21.898 22.193 0 52 21 3 0 0 0 0.030603 3 9893 9842;9893;9941 55.503 21.101 1 758630 25927 770;1065 16769 16827 29424;29425;29426 29425 0.0019940888670362256 QPADAERAL 9 Unmodified _QPADAERAL_ 0 0 0 nc|ENSG00000070756|P11940-2|PABPC1;ENSG00000070756|ENST00000318607|PABPC1;nc|ENSG00000101104|Q4VXU2-2|PABPC1L;nc|ENSG00000101104|Q4VXU2|PABPC1L;ENSG00000101104|ENST00000217073|PABPC1L;nc|ENSG00000090621|Q13310-2|PABPC4;nc|ENSG00000090621|Q13310|PABPC4;ENSG00000090621|ENST00000372858|PABPC4 nc|ENSG00000070756|P11940-2|PABPC1;nc|ENSG00000090621|Q13310-2|PABPC4 nc|ENSG00000070756|P11940-2|PABPC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.752685546875 2 485.751256 969.487959 NaN NaN NaN NaN NaN NaN NaN 21.216 1 21.502 21.002 22.002 0.28662 0 0 0 0.036101 1 9614 9614 57.722 15.882 1 25928 770;1065 16769 16827 29427 29427 0.0019940888670362256 QPALERMVING 11 Unmodified _QPALERMVING_ 0 0 0 REV__nc|ENSG00000145725|O43314-2|PPIP5K2 REV__nc|ENSG00000145725|O43314-2|PPIP5K2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 409.8894348144531 3 409.888657 1226.64414 2.7102 0.0011109 -1.069 -0.00043819 1.6412 0.00067271 409.8880599212057 14.319 0.096665 14.319 14.296 14.392 0 6 4 2 0 0 0 0.89309 1 6322 6322 1.1098 0 1 126090 + 25929 12452 16770 16828 29428 29428 0.03988531065670031 QPAPEDETI 9 Unmodified _QPAPEDETI_ 0 0 0 nc|ENSG00000120907|P35348-5|ADRA1A;nc|ENSG00000120907|P35348-7|ADRA1A;nc|ENSG00000120907|P35348-6|ADRA1A;nc|ENSG00000120907|P35348-8|ADRA1A;nc|ENSG00000120907|P35348-9|ADRA1A;nc|ENSG00000120907|P35348-3|ADRA1A;nc|ENSG00000120907|P35348-4|ADRA1A;ENSG00000120907|ENST00000380573|ADRA1A;nc|ENSG00000120907|P35348-2|ADRA1A nc|ENSG00000120907|P35348-5|ADRA1A nc|ENSG00000120907|P35348-5|ADRA1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.2372131347656 2 500.235104 998.455655 3.1154 0.0015584 0.7896 0.00039499 3.905 0.0019534 500.23561674981676 37.698 0.55625 38.332 38.089 38.645 0.63388 32 18 2 0 0 0 0.80651 1 17295 17295 7.2892 0.56607 1 275800 25930 2217 16771 16829 29429 29429 -0.043634233069496986 QPAPGVDN 8 Unmodified _QPAPGVDN_ 0 0 0 ENST00000493544.1_1_2:242054361-242072488:-|nuORF;nc|ENSG00000115687|Q96RG2-4|PASK;ENSG00000115687|ENST00000234040|PASK;nc|ENSG00000115687|Q96RG2-2|PASK ENST00000493544.1_1_2:242054361-242072488:-|nuORF ENST00000493544.1_1_2:242054361-242072488:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 797.383544921875 1 797.378808 796.371532 3.3717 0.0026885 0.77825 0.00062056 4.1499 0.0033091 797.3793180164246 32.814 0.25996 33.601 33.456 33.716 0.78795 32 18 2 0 0 0 0.52777 1 14897 14897 19.257 1.122 1 982800 25931 1985 16772 16830 29430 29430 -0.03479909613201926 QPDCCDGDDFD 11 Unmodified _QPDCCDGDDFD_ 0 0 0 REV__ENSG00000116183|ENST00000367662|PAPPA2 REV__ENSG00000116183|ENST00000367662|PAPPA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 615.192138671875 2 615.18971 1228.36487 NaN NaN NaN NaN NaN NaN NaN 6.3112 1 6.6509 6.1509 7.1509 0.33974 0 0 0 1.0082 1 2854 2854 0 0 1 + 25932 11398 16773 16831 29431 29431 -0.2401800340905993 QPDCCDGDDFD 11 Unmodified _QPDCCDGDDFD_ 0 0 0 REV__ENSG00000116183|ENST00000367662|PAPPA2 REV__ENSG00000116183|ENST00000367662|PAPPA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 615.1898803710938 2 615.18971 1228.36487 NaN NaN NaN NaN NaN NaN NaN 10.49 1 10.786 10.286 11.286 0.2956 0 0 0 1.008 1 4587 4587 0.26902 0.26902 1 + 25933 11398 16773 16831 29432 29432 -0.2401800340905993 QPDCREPFL 9 Carbamidomethyl (C) _QPDC(Carbamidomethyl (C))REPFL_ QPDC(1)REPFL QPDC(44)REPFL 0 1 0 nc|ENSG00000244731|P0C0L4-2|C4A;ENSG00000244731|ENST00000428956|C4A;ENSG00000224389|ENST00000435363|C4B;ENST00000460841.1_1_6:31959958-31961603:+|nuORF nc|ENSG00000244731|P0C0L4-2|C4A nc|ENSG00000244731|P0C0L4-2|C4A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.2728271484375 2 581.271498 1160.52844 NaN NaN NaN NaN NaN NaN NaN 45.32 1 45.588 45.088 46.088 0.26768 0 0 0 0.088893 1 20717 20717 43.772 20.624 1 25934 6164 16774 16832 29433 29433 100 -0.04539992785180402 QPDCREPFL 9 Carbamidomethyl (C) _QPDC(Carbamidomethyl (C))REPFL_ QPDC(1)REPFL QPDC(48)REPFL 0 1 0 nc|ENSG00000244731|P0C0L4-2|C4A;ENSG00000244731|ENST00000428956|C4A;ENSG00000224389|ENST00000435363|C4B;ENST00000460841.1_1_6:31959958-31961603:+|nuORF nc|ENSG00000244731|P0C0L4-2|C4A nc|ENSG00000244731|P0C0L4-2|C4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.2754516601562 2 581.271498 1160.52844 3.7818 0.0021982 0.1419 8.2483E-05 3.9237 0.0022807 581.2714719195051 44.736 0.48905 45.386 45.149 45.638 0.64998 27 18 2 0 0 0 0.048676 1 20513 20513 47.749 27.295 1 595610 25935 6164 16774 16832 29434 29434 100 -0.04539992785180402 QPDDLINQL 9 Unmodified _QPDDLINQL_ 0 0 0 ENST00000513627.1_1_5:175921035-175923719:+|nuORF;ENSG00000113194|ENST00000261942|FAF2 ENST00000513627.1_1_5:175921035-175923719:+|nuORF ENST00000513627.1_1_5:175921035-175923719:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.2732543945312 2 528.272021 1054.52949 3.4362 0.0018153 -0.1288 -6.804E-05 3.3074 0.0017472 528.2719128564236 66.75 0.31731 67 66.831 67.148 0.2501 37 16 3 0 0 0 0.015098 2 30602 30547;30602 74.929 31.071 1 1149900 25936 1838 16775 16833 29435;29436 29436 0.004405448553598035 QPDDLINQL 9 Unmodified _QPDDLINQL_ 0 0 0 ENST00000513627.1_1_5:175921035-175923719:+|nuORF;ENSG00000113194|ENST00000261942|FAF2 ENST00000513627.1_1_5:175921035-175923719:+|nuORF ENST00000513627.1_1_5:175921035-175923719:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.2738647460938 2 528.272021 1054.52949 3.3511 0.0017703 0.45013 0.00023779 3.8012 0.0020081 528.2720934478637 66.225 0.36063 66.881 66.664 67.025 0.65672 44 21 3 0 0 0 0.015098 2 30321 30321;30372 74.929 31.071 1 1240500 25937 1838 16775 16833 29437;29438 29437 0.004405448553598035 QPDNIVYVM 9 Unmodified _QPDNIVYVM_ 0 0 0 nc|ENSG00000100883|P61011-2|SRP54;ENSG00000100883|ENST00000216774|SRP54 nc|ENSG00000100883|P61011-2|SRP54 nc|ENSG00000100883|P61011-2|SRP54 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.7674560546875 2 539.765517 1077.51648 3.4398 0.0018567 0.54378 0.00029352 3.9836 0.0021502 539.7656684869362 65.79 0.2551 66.447 66.309 66.564 0.65672 26 15 2 0 0 0 0.030603 1 30175 30175 61.357 43.211 1 794350 25938 1246 16776 16834 29439 29439 -0.019176095283455652 QPDNIVYVM 9 Unmodified _QPDNIVYVM_ 0 0 0 nc|ENSG00000100883|P61011-2|SRP54;ENSG00000100883|ENST00000216774|SRP54 nc|ENSG00000100883|P61011-2|SRP54 nc|ENSG00000100883|P61011-2|SRP54 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 539.765517 1077.51648 3.3504 0.0018084 0.31763 0.00017145 3.668 0.0019799 539.7659076134864 66.323 0.28207 66.571 66.453 66.735 0.24848 0.062416 -0.0001365 NaN 61.357 26 16 2 NaN NaN NaN NaN 0 NaN NaN 0 801190 25939 1246 16776 16834 -0.019176095283455652 QPDPAIGVHL 10 Unmodified _QPDPAIGVHL_ 0 0 0 ENSG00000142892|ENST00000370812|PIGK;nc|ENSG00000142892|Q92643-2|PIGK ENSG00000142892|ENST00000370812|PIGK ENSG00000142892|ENST00000370812|PIGK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.7855834960938 2 523.785099 1045.55564 2.9034 0.0015207 0.086137 4.5118E-05 2.9895 0.0015659 523.7850655000334 51.146 0.3839 51.963 51.814 52.198 0.81738 52 28 3 0 0 0 0.070141 2 23320 23278;23320 57.471 34.735 1 1249200 25940 3333 16777 16835 29440;29441 29441 0.03468858817518594 QPDPAIGVHL 10 Unmodified _QPDPAIGVHL_ 0 0 0 ENSG00000142892|ENST00000370812|PIGK;nc|ENSG00000142892|Q92643-2|PIGK ENSG00000142892|ENST00000370812|PIGK ENSG00000142892|ENST00000370812|PIGK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.5151977539062 2 523.785099 1045.55564 3.1494 0.0016496 0.54463 0.00028527 3.6941 0.0019349 523.7854649559007 51.185 0.48219 51.845 51.64 52.122 0.65956 61 32 2 0 0 0 0.61301 1 23358 23358 16.942 10.737 1 1464500 25941 3333 16777 16835 29442 29442 0.03468858817518594 QPDPAIGVHL 10 Unmodified _QPDPAIGVHL_ 0 0 0 ENSG00000142892|ENST00000370812|PIGK;nc|ENSG00000142892|Q92643-2|PIGK ENSG00000142892|ENST00000370812|PIGK ENSG00000142892|ENST00000370812|PIGK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 523.785099 1045.55564 3.1309 0.0016399 0.35659 0.00018677 3.4874 0.0018267 523.7854309742373 52.116 0.3854 52.116 51.934 52.32 0 0.13815 9.3262E-05 NaN 57.471 50 27 3 NaN NaN NaN NaN 0 NaN NaN 0 1310100 25942 3333 16777 16835 0.03468858817518594 QPDPAIGVHL 10 Unmodified _QPDPAIGVHL_ 0 0 0 ENSG00000142892|ENST00000370812|PIGK;nc|ENSG00000142892|Q92643-2|PIGK ENSG00000142892|ENST00000370812|PIGK ENSG00000142892|ENST00000370812|PIGK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 523.785099 1045.55564 3.2449 0.0016996 0.17299 9.0608E-05 3.4179 0.0017902 523.7851692870025 51.726 0.52433 51.989 51.813 52.338 0.26228 0.01045 -9.9071E-05 NaN 57.471 63 39 2 NaN NaN NaN NaN 0 NaN NaN 0 1593200 25943 3333 16777 16835 0.03468858817518594 QPDPESVVL 9 Unmodified _QPDPESVVL_ 0 0 0 nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP;ENSG00000107651|ENST00000369075|SEC23IP nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.2582702636719 2 492.25584 982.497126 NaN NaN NaN NaN NaN NaN NaN 57.504 1 57.504 57.004 58.004 0 0 0 0 0.062126 1 26507 26507 49.933 13.889 1 25944 1603 16778 16836 29443 29443 0.005177574523941075 QPDPESVVL 9 Unmodified _QPDPESVVL_ 0 0 0 nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP;ENSG00000107651|ENST00000369075|SEC23IP nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.2567138671875 2 492.25584 982.497126 NaN NaN NaN NaN NaN NaN NaN 57.596 1 57.596 57.096 58.096 0 0 0 0 0.01256 1 26552 26552 81.89 41.933 1 25945 1603 16778 16836 29444 29444 0.005177574523941075 QPDPESVVL 9 Unmodified _QPDPESVVL_ 0 0 0 nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP;ENSG00000107651|ENST00000369075|SEC23IP nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.25738525390625 2 492.25584 982.497126 NaN NaN NaN NaN NaN NaN NaN 57.692 1 57.692 57.192 58.192 0 0 0 0 0.01256 1 26600 26600 81.89 41.933 1 25946 1603 16778 16836 29445 29445 0.005177574523941075 QPDPESVVL 9 Unmodified _QPDPESVVL_ 0 0 0 nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP;ENSG00000107651|ENST00000369075|SEC23IP nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.2572021484375 2 492.25584 982.497126 NaN NaN NaN NaN NaN NaN NaN 56.71 1 57.488 56.988 57.988 0.77786 0 0 0 0.099253 1 25935 25935 41.84 1.8823 1 25947 1603 16778 16836 29446 29446 0.005177574523941075 QPDPESVVL 9 Unmodified _QPDPESVVL_ 0 0 0 nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP;ENSG00000107651|ENST00000369075|SEC23IP nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.2574157714844 2 492.25584 982.497126 NaN NaN NaN NaN NaN NaN NaN 56.818 1 57.596 57.096 58.096 0.77786 0 0 0 0.01256 1 25989 25989 81.89 33.544 1 25948 1603 16778 16836 29447 29447 0.005177574523941075 QPDPESVVL 9 Unmodified _QPDPESVVL_ 0 0 0 nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP;ENSG00000107651|ENST00000369075|SEC23IP nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.2578125 2 492.25584 982.497126 NaN NaN NaN NaN NaN NaN NaN 56.91 1 57.688 57.188 58.188 0.77786 0 0 0 0.01256 1 26033 26033 81.89 33.544 1 25949 1603 16778 16836 29448 29448 0.005177574523941075 QPDPESVVL 9 Unmodified _QPDPESVVL_ 0 0 0 nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP;ENSG00000107651|ENST00000369075|SEC23IP nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.257568359375 2 492.25584 982.497126 NaN NaN NaN NaN NaN NaN NaN 57.401 1 57.665 57.165 58.165 0.26444 0 0 0 0.01256 1 26276 26276 81.89 43.916 1 25950 1603 16778 16836 29449 29449 0.005177574523941075 QPDPESVVL 9 Unmodified _QPDPESVVL_ 0 0 0 nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP;ENSG00000107651|ENST00000369075|SEC23IP nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.2575988769531 2 492.25584 982.497126 NaN NaN NaN NaN NaN NaN NaN 56.728 1 57.396 56.896 57.896 0.66829 0 0 0 0.020959 1 25953 25953 71.922 35.878 1 25951 1603 16778 16836 29450 29450 0.005177574523941075 QPDPESVVL 9 Unmodified _QPDPESVVL_ 0 0 0 nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP;ENSG00000107651|ENST00000369075|SEC23IP nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP nc|ENSG00000107651|Q9Y6Y8-2|SEC23IP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.2576599121094 2 492.25584 982.497126 NaN NaN NaN NaN NaN NaN NaN 56.837 1 57.505 57.005 58.005 0.66829 0 0 0 0.004781 1 26004 26004 92.491 44.146 1 25952 1603 16778 16836 29451 29451 0.005177574523941075 QPDQTLEIL 9 Unmodified _QPDQTLEIL_ 0 0 0 ENSG00000123505|ENST00000368885|AMD1;nc|ENSG00000123505|P17707-2|AMD1 ENSG00000123505|ENST00000368885|AMD1 ENSG00000123505|ENST00000368885|AMD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.78564453125 2 528.782222 1055.54989 3.468 0.0018338 0.31975 0.00016908 3.7877 0.0020029 528.782279418833 69.037 0.22368 69.291 69.237 69.46 0.25443 18 13 2 0 0 0 0.10169 1 31616 31616 32.305 10.559 1 350030 25953 2317 16779 16837 29452 29452 0.024337155151897605 QPDQTLEIL 9 Unmodified _QPDQTLEIL_ 0 0 0 ENSG00000123505|ENST00000368885|AMD1;nc|ENSG00000123505|P17707-2|AMD1 ENSG00000123505|ENST00000368885|AMD1 ENSG00000123505|ENST00000368885|AMD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.7838745117188 2 528.782222 1055.54989 3.1015 0.00164 0.12245 6.4749E-05 3.224 0.0017048 528.7824106964113 68.532 0.24712 69.191 69.086 69.333 0.65924 21 17 2 0 0 0 0.086415 1 31430 31430 36.127 14.38 1 304530 25954 2317 16779 16837 29453 29453 0.024337155151897605 QPDVLSSGP 9 Unmodified _QPDVLSSGP_ 0 0 0 REV__ENSG00000172568|ENST00000312349|FNDC9 REV__ENSG00000172568|ENST00000312349|FNDC9 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 449.867431640625 2 450.227082 898.439611 2.7928 0.0012574 0.45617 0.00020538 3.249 0.0014628 450.22733037600403 39.373 0.45508 39.64 39.451 39.906 0.26696 19 16 2 0 0 0 0.080899 1 17896 17896 14.838 0 1 259560 + 25955 13555 16780 16838 29454 29454 -0.013670847531784602 QPEAELGRLL 10 Unmodified _QPEAELGRLL_ 0 0 0 nc|ENSG00000011275|Q9NWF9|RNF216;ENSG00000011275|ENST00000389902|RNF216;RNF216-EIF2AK1|2|fusion;RNF216-EIF2AK1|1|fusion nc|ENSG00000011275|Q9NWF9|RNF216 nc|ENSG00000011275|Q9NWF9|RNF216 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.3185424804688 2 563.316763 1124.61897 NaN NaN NaN NaN NaN NaN NaN 58.884 1 59.643 59.143 60.143 0.75894 0 0 0 0.34662 1 27049 27049 34.932 15.675 1 25956 410 16781 16839 29455 29455 0.06164799534781196 QPEANPSHL 9 Unmodified _QPEANPSHL_ 0 0 0 nc|ENSG00000129116|Q8WX93-5|PALLD;nc|ENSG00000129116|Q8WX93|PALLD;ENST00000261509.10_1_4:169846154-169847533:+|nuORF;nc|ENSG00000129116|Q8WX93-7|PALLD;ENST00000507699.1_1_4:169819634-169847533:+|nuORF;nc|ENSG00000129116|Q8WX93-4|PALLD;nc|ENSG00000129116|Q8WX93-8|PALLD;nc|ENSG00000129116|Q8WX93-3|PALLD nc|ENSG00000129116|Q8WX93-5|PALLD nc|ENSG00000129116|Q8WX93-5|PALLD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.7447509765625 2 496.743431 991.472308 3.121 0.0015503 0.54719 0.00027182 3.6682 0.0018221 496.74349528390076 19.764 0.38563 19.764 19.652 20.038 0 69 30 3 0 0 0 0.021401 1 8850 8850 66.457 35.82 1 1783100 25957 9632 16782 16840 29456 29456 -0.023768776303313643 QPEANPSHL 9 Unmodified _QPEANPSHL_ 0 0 0 nc|ENSG00000129116|Q8WX93-5|PALLD;nc|ENSG00000129116|Q8WX93|PALLD;ENST00000261509.10_1_4:169846154-169847533:+|nuORF;nc|ENSG00000129116|Q8WX93-7|PALLD;ENST00000507699.1_1_4:169819634-169847533:+|nuORF;nc|ENSG00000129116|Q8WX93-4|PALLD;nc|ENSG00000129116|Q8WX93-8|PALLD;nc|ENSG00000129116|Q8WX93-3|PALLD nc|ENSG00000129116|Q8WX93-5|PALLD nc|ENSG00000129116|Q8WX93-5|PALLD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.7449645996094 2 496.743431 991.472308 3.0483 0.0015142 1.0315 0.00051237 4.0798 0.0020266 496.7437632728552 19.327 0.35953 19.624 19.541 19.9 0.29753 81 35 3 0 0 0 0.048676 2 8788 8788;8835 47.749 28.492 1 1159800 25958 9632 16782 16840 29457;29458 29457 -0.023768776303313643 QPEANPSHL 9 Unmodified _QPEANPSHL_ 0 0 0 nc|ENSG00000129116|Q8WX93-5|PALLD;nc|ENSG00000129116|Q8WX93|PALLD;ENST00000261509.10_1_4:169846154-169847533:+|nuORF;nc|ENSG00000129116|Q8WX93-7|PALLD;ENST00000507699.1_1_4:169819634-169847533:+|nuORF;nc|ENSG00000129116|Q8WX93-4|PALLD;nc|ENSG00000129116|Q8WX93-8|PALLD;nc|ENSG00000129116|Q8WX93-3|PALLD nc|ENSG00000129116|Q8WX93-5|PALLD nc|ENSG00000129116|Q8WX93-5|PALLD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.74505615234375 2 496.743431 991.472308 3.3328 0.0016556 0.96664 0.00048017 4.2995 0.0021357 496.74363594544366 18.955 0.44561 19.614 19.459 19.905 0.6583 82 36 4 0 0 0 0.029308 3 8573 8573;8620;8673 56.177 40.33 1 1197800 25959 9632 16782 16840 29459;29460;29461 29459 -0.023768776303313643 QPEEAILTL 9 Unmodified _QPEEAILTL_ 0 0 0 ENST00000338963.6_1_15:56208884-56209049:-|nuORF ENST00000338963.6_1_15:56208884-56209049:-|nuORF ENST00000338963.6_1_15:56208884-56209049:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.2807922363281 2 507.279315 1012.54408 2.462 0.0012489 0.41368 0.00020985 2.8757 0.0014588 507.2795700393317 70.554 0.7605 70.554 70.338 71.098 0 204 89 3 0 0 0 0.21008 1 34177 34177 22.736 1.1993 1 9309600 25960 7052 16783 16841 29462 29462 0.03830617003529824 QPEEAILTL 9 Unmodified _QPEEAILTL_ 0 0 0 ENST00000338963.6_1_15:56208884-56209049:-|nuORF ENST00000338963.6_1_15:56208884-56209049:-|nuORF ENST00000338963.6_1_15:56208884-56209049:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.2813415527344 2 507.279315 1012.54408 2.5459 0.0012915 -0.16306 -8.2715E-05 2.3828 0.0012088 507.27914024675306 69.765 0.94341 70.468 70.152 71.096 0.70302 228 106 4 0 0 0 0.02234 2 33347 33347;33560 65.235 11.402 1 7965200 25961 7052 16783 16841 29463;29464 29463 0.03830617003529824 QPEEAILTL 9 Unmodified _QPEEAILTL_ 0 0 0 ENST00000338963.6_1_15:56208884-56209049:-|nuORF ENST00000338963.6_1_15:56208884-56209049:-|nuORF ENST00000338963.6_1_15:56208884-56209049:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.28118896484375 2 507.279315 1012.54408 2.9311 0.0014869 0.21255 0.00010782 3.1437 0.0015947 507.279391304143 69.749 0.95627 70.409 70.129 71.085 0.66071 157 65 3 0 0 0 0.027384 2 32168 31888;32168 58.679 4.846 1 3146800 25962 7052 16783 16841 29465;29466 29466 0.03830617003529824 QPEGEEPEM 9 Unmodified _QPEGEEPEM_ 0 0 0 ENST00000487673.5_1_6:43111066-43128616:+|nuORF;nc|ENSG00000112655|Q13308-3|PTK7;nc|ENSG00000112655|Q13308-4|PTK7;nc|ENSG00000112655|Q13308-2|PTK7;ENSG00000112655|ENST00000230419|PTK7;nc|ENSG00000112655|Q13308-6|PTK7;ENST00000493339.1_1_6:43111066-43112355:+|nuORF;nc|ENSG00000112655|Q13308-5|PTK7 ENST00000487673.5_1_6:43111066-43128616:+|nuORF ENST00000487673.5_1_6:43111066-43128616:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.2124633789062 2 523.210772 1044.40699 NaN NaN NaN NaN NaN NaN NaN 27.258 1 27.88 27.38 28.38 0.62179 0 0 0 0.30236 1 12496 12496 26.884 6.43 1 25963 1815 16784 16842 29467 29467 -0.11343659938347628 QPEKSKKELKR 11 Unmodified _QPEKSKKELKR_ 0 0 0 ENSG00000162408|ENST00000377705|NOL9 ENSG00000162408|ENST00000377705|NOL9 ENSG00000162408|ENST00000377705|NOL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.9107666015625 2 685.90935 1369.80415 4.1423 0.0028412 -0.85408 -0.00058582 3.2882 0.0022554 685.9086503027535 93.124 0.98734 93.769 93.171 94.158 0.64504 87 51 2 0 0 0 0.91149 1 42813 42813 1.0715 0 1 850080 25964 4135 16785 16843 29468 29468 0.1340378233435331 QPELITVHI 9 Unmodified _QPELITVHI_ 0 0 0 nc|ENSG00000151276|Q96QZ7-4|MAGI1;nc|ENSG00000151276|Q96QZ7-3|MAGI1;nc|ENSG00000151276|Q96QZ7-5|MAGI1;nc|ENSG00000151276|Q96QZ7-7|MAGI1;nc|ENSG00000151276|Q96QZ7-6|MAGI1;ENSG00000151276|ENST00000402939|MAGI1;nc|ENSG00000151276|Q96QZ7|MAGI1 nc|ENSG00000151276|Q96QZ7-4|MAGI1 nc|ENSG00000151276|Q96QZ7-4|MAGI1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.86199951171875 3 350.537842 1048.5917 2.0147 0.00070624 0.45483 0.00015944 2.4696 0.00086568 350.5380263031728 13.238 0.14416 13.545 13.463 13.607 0.30727 16 10 2 0 0 0 0.75535 1 5970 5970 8.1555 0.54658 1 86041 25965 3697 16786 16844 29469 29469 0.06934315994362805 QPEMPMPDQI 10 Unmodified _QPEMPMPDQI_ 0 0 0 REV__nc|ENSG00000107862|Q92538-3|GBF1 REV__nc|ENSG00000107862|Q92538-3|GBF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.2677001953125 2 593.267567 1184.52058 NaN NaN NaN NaN NaN NaN NaN 57.38 1 57.38 56.88 57.88 0 0 0 0 0.98866 1 26446 26446 7.2892 0.56607 1 + 25966 11125 16787 16845 29470 29470 -0.06429888096954528 QPEPDATEL 9 Unmodified _QPEPDATEL_ 0 0 0 ENSG00000104976|ENST00000221573|SNAPC2 ENSG00000104976|ENST00000221573|SNAPC2 ENSG00000104976|ENST00000221573|SNAPC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.2368469238281 2 500.235104 998.455655 NaN NaN NaN NaN NaN NaN NaN 38.433 1 38.433 37.933 38.933 0 0 0 0 0.018888 1 17443 17443 74.929 42.624 1 25967 1464 16788 16846 29471 29471 -0.043634233069496986 QPEPDATEL 9 Unmodified _QPEPDATEL_ 0 0 0 ENSG00000104976|ENST00000221573|SNAPC2 ENSG00000104976|ENST00000221573|SNAPC2 ENSG00000104976|ENST00000221573|SNAPC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.2357177734375 2 500.235104 998.455655 3.0459 0.0015237 -0.3243 -0.00016223 2.7216 0.0013614 500.2349244032729 37.618 0.45198 38.413 38.162 38.614 0.79552 32 20 2 0 0 0 0.086415 1 17004 17004 36.127 14.38 1 347470 25968 1464 16788 16846 29472 29472 -0.043634233069496986 QPERDWVL 8 Unmodified _QPERDWVL_ 0 0 0 ENST00000432525.5_1_22:38886367-38903636:-|nuORF;ENST00000216019.11_1_22:38888049-38902242:-|nuORF;nc|ENSG00000100201|Q92841-1|DDX17;nc|ENSG00000100201|Q92841-3|DDX17;nc|ENSG00000100201|Q92841-2|DDX17;ENSG00000100201|ENST00000403230|DDX17;ENST00000497196.5_1_22:38889517-38891019:-|nuORF ENST00000432525.5_1_22:38886367-38903636:-|nuORF ENST00000432525.5_1_22:38886367-38903636:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.7710571289062 2 521.769448 1041.52434 3.205 0.0016723 -0.33484 -0.00017471 2.8701 0.0014975 521.7692877145178 51.902 0.66167 51.902 51.649 52.31 0 158 48 4 0 0 0 0.0084548 3 23734 23734;23782;23836 118.89 14.096 1 26240000 25969 1186 16789 16847 29473;29474;29475 29473 0.005242857834218739 QPERDWVL 8 Unmodified _QPERDWVL_ 0 0 0 ENST00000432525.5_1_22:38886367-38903636:-|nuORF;ENST00000216019.11_1_22:38888049-38902242:-|nuORF;nc|ENSG00000100201|Q92841-1|DDX17;nc|ENSG00000100201|Q92841-3|DDX17;nc|ENSG00000100201|Q92841-2|DDX17;ENSG00000100201|ENST00000403230|DDX17;ENST00000497196.5_1_22:38889517-38891019:-|nuORF ENST00000432525.5_1_22:38886367-38903636:-|nuORF ENST00000432525.5_1_22:38886367-38903636:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.7711791992188 2 521.769448 1041.52434 3.1235 0.0016298 -0.46439 -0.00024231 2.6591 0.0013874 521.7692040523241 50.897 0.5247 51.714 51.434 51.959 0.81738 99 30 4 0 0 0 0.0092728 4 23126 23074;23126;23173;23264 107.19 7.7637 1 22317000 25970 1186 16789 16847 29476;29477;29478;29479 29477 0.005242857834218739 QPERDWVL 8 Unmodified _QPERDWVL_ 0 0 0 ENST00000432525.5_1_22:38886367-38903636:-|nuORF;ENST00000216019.11_1_22:38888049-38902242:-|nuORF;nc|ENSG00000100201|Q92841-1|DDX17;nc|ENSG00000100201|Q92841-3|DDX17;nc|ENSG00000100201|Q92841-2|DDX17;ENSG00000100201|ENST00000403230|DDX17;ENST00000497196.5_1_22:38889517-38891019:-|nuORF ENST00000432525.5_1_22:38886367-38903636:-|nuORF ENST00000432525.5_1_22:38886367-38903636:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.7706909179688 2 521.769448 1041.52434 3.2828 0.0017129 -0.41779 -0.00021799 2.865 0.0014949 521.7692337439984 51.856 0.59461 52.118 51.86 52.454 0.26227 149 43 4 0 0 0 0.0089417 3 23725 23681;23725;23769 111.29 14.365 1 17619000 25971 1186 16789 16847 29480;29481;29482 29481 0.005242857834218739 QPERDWVL 8 Unmodified _QPERDWVL_ 0 0 0 ENST00000432525.5_1_22:38886367-38903636:-|nuORF;ENST00000216019.11_1_22:38888049-38902242:-|nuORF;nc|ENSG00000100201|Q92841-1|DDX17;nc|ENSG00000100201|Q92841-3|DDX17;nc|ENSG00000100201|Q92841-2|DDX17;ENSG00000100201|ENST00000403230|DDX17;ENST00000497196.5_1_22:38889517-38891019:-|nuORF ENST00000432525.5_1_22:38886367-38903636:-|nuORF ENST00000432525.5_1_22:38886367-38903636:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.7710571289062 2 521.769448 1041.52434 3.1759 0.0016571 -0.091727 -4.786E-05 3.0841 0.0016092 521.7694182990707 51.247 0.669 51.906 51.64 52.309 0.65956 141 42 4 0 0 0 0.0084548 4 23441 23352;23397;23441;23481 118.89 26.073 1 18383000 25972 1186 16789 16847 29483;29484;29485;29486 29485 0.005242857834218739 QPFHREDQL 9 Unmodified _QPFHREDQL_ 0 0 0 ENST00000588652.5_1_19:45854889-45860860:-|nuORF;ENST00000391942.6_1_19:45854889-45865127:-|nuORF;ENSG00000104884|ENST00000391945|ERCC2 ENST00000588652.5_1_19:45854889-45860860:-|nuORF ENST00000588652.5_1_19:45854889-45860860:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.2909545898438 2 585.288537 1168.56252 3.6428 0.0021321 0.25359 0.00014842 3.8964 0.0022805 585.2886494457912 20.903 0.40243 20.903 20.657 21.059 0 73 31 3 0 0 0 0.078225 4 9340 9278;9291;9340;9388 38.176 22.328 1 851480 25973 1458 16790 16848 29487;29488;29489;29490 29489 -0.015018283019117007 QPFHREDQL 9 Unmodified _QPFHREDQL_ 0 0 0 ENST00000588652.5_1_19:45854889-45860860:-|nuORF;ENST00000391942.6_1_19:45854889-45865127:-|nuORF;ENSG00000104884|ENST00000391945|ERCC2 ENST00000588652.5_1_19:45854889-45860860:-|nuORF ENST00000588652.5_1_19:45854889-45860860:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 390.52935791015625 3 390.528117 1168.56252 2.7608 0.0010782 0.33989 0.00013274 3.1007 0.0012109 390.52825970077464 20.897 0.50877 20.897 20.59 21.098 0 128 39 4 0 0 0 0.086415 2 9318 9318;9361 27.223 12.266 1 3322000 25974 1458 16790 16848 29491;29492 29491 -0.015018283019117007 QPFHREDQL 9 Unmodified _QPFHREDQL_ 0 0 0 ENST00000588652.5_1_19:45854889-45860860:-|nuORF;ENST00000391942.6_1_19:45854889-45865127:-|nuORF;ENSG00000104884|ENST00000391945|ERCC2 ENST00000588652.5_1_19:45854889-45860860:-|nuORF ENST00000588652.5_1_19:45854889-45860860:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 390.5282897949219 3 390.528117 1168.56252 2.2548 0.00088057 -0.44917 -0.00017541 1.8057 0.00070516 390.5279922085641 19.668 0.22937 19.934 19.812 20.041 0.26616 86 53 2 0 0 0 0.16976 2 8721 8721;8757 21.59 7.1848 1 5617600 25975 1458 16790 16848 29493;29494 29493 -0.015018283019117007 QPFHREDQL 9 Unmodified _QPFHREDQL_ 0 0 0 ENST00000588652.5_1_19:45854889-45860860:-|nuORF;ENST00000391942.6_1_19:45854889-45865127:-|nuORF;ENSG00000104884|ENST00000391945|ERCC2 ENST00000588652.5_1_19:45854889-45860860:-|nuORF ENST00000588652.5_1_19:45854889-45860860:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 390.5291748046875 3 390.528117 1168.56252 NaN NaN NaN NaN NaN NaN NaN 19.778 1 20.044 19.544 20.544 0.26616 0 0 0 0.31736 1 8799 8799 24.882 4.3006 1 25976 1458 16790 16848 29495 29495 -0.015018283019117007 QPFHREDQL 9 Unmodified _QPFHREDQL_ 0 0 0 ENST00000588652.5_1_19:45854889-45860860:-|nuORF;ENST00000391942.6_1_19:45854889-45865127:-|nuORF;ENSG00000104884|ENST00000391945|ERCC2 ENST00000588652.5_1_19:45854889-45860860:-|nuORF ENST00000588652.5_1_19:45854889-45860860:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.5289001464844 3 390.528117 1168.56252 NaN NaN NaN NaN NaN NaN NaN 20.208 1 20.5 20 21 0.29239 0 0 0 0.12987 1 9198 9198 33.445 13.819 1 25977 1458 16790 16848 29496 29496 -0.015018283019117007 QPFHREDQL 9 Unmodified _QPFHREDQL_ 0 0 0 ENST00000588652.5_1_19:45854889-45860860:-|nuORF;ENST00000391942.6_1_19:45854889-45865127:-|nuORF;ENSG00000104884|ENST00000391945|ERCC2 ENST00000588652.5_1_19:45854889-45860860:-|nuORF ENST00000588652.5_1_19:45854889-45860860:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.2911376953125 2 585.288537 1168.56252 3.7066 0.0021694 0.67122 0.00039286 4.3778 0.0025623 585.2889631448583 19.87 0.38198 20.528 20.344 20.726 0.65829 81 32 3 0 0 0 0.063112 4 8986 8956;8986;9032;9079 41.956 16.556 1 858930 25978 1458 16790 16848 29497;29498;29499;29500 29498 -0.015018283019117007 QPFHREDQL 9 Unmodified _QPFHREDQL_ 0 0 0 ENST00000588652.5_1_19:45854889-45860860:-|nuORF;ENST00000391942.6_1_19:45854889-45865127:-|nuORF;ENSG00000104884|ENST00000391945|ERCC2 ENST00000588652.5_1_19:45854889-45860860:-|nuORF ENST00000588652.5_1_19:45854889-45860860:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.52960205078125 3 390.528117 1168.56252 3.009 0.0011751 0.20455 7.9884E-05 3.2135 0.001255 390.5282087374419 19.864 0.41904 20.523 20.329 20.748 0.6583 120 35 4 0 0 0 0.16976 2 9046 9002;9046 23.79 8.0512 1 2714000 25979 1458 16790 16848 29501;29502 29502 -0.015018283019117007 QPFREAIAL 9 Unmodified _QPFREAIAL_ 0 0 0 nc|ENSG00000182831|Q14CZ0-2|HAPSTR1;ENSG00000182831|ENST00000327827|HAPSTR1 nc|ENSG00000182831|Q14CZ0-2|HAPSTR1 nc|ENSG00000182831|Q14CZ0-2|HAPSTR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.7969360351562 2 522.795466 1043.57638 3.0582 0.0015988 0.52128 0.00027252 3.5794 0.0018713 522.7954941217813 54.121 0.42262 54.917 54.675 55.097 0.79552 58 23 3 0 0 0 0.04013 1 24709 24709 56.177 56.177 1 1274700 25980 5352 16791 16849 29503 29503 0.05633449197171103 QPFREAIAL 9 Unmodified _QPFREAIAL_ 0 0 0 nc|ENSG00000182831|Q14CZ0-2|HAPSTR1;ENSG00000182831|ENST00000327827|HAPSTR1 nc|ENSG00000182831|Q14CZ0-2|HAPSTR1 nc|ENSG00000182831|Q14CZ0-2|HAPSTR1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 522.795466 1043.57638 3.2348 0.0016911 -0.11714 -6.124E-05 3.1176 0.0016299 522.7954291235578 54.468 0.27999 55.135 54.929 55.209 0.6665 0.10892 -0.00026823 NaN 56.177 34 20 2 NaN NaN NaN NaN 0 NaN NaN 0 3582000 25981 5352 16791 16849 0.05633449197171103 QPHGGPPA 8 Unmodified _QPHGGPPA_ 0 0 0 nc|ENSG00000277758|X6R8R1|SYT15B;nc|ENSG00000204176|Q9BQS2-3|SYT15 nc|ENSG00000277758|X6R8R1|SYT15B nc|ENSG00000277758|X6R8R1|SYT15B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.6922912597656 2 380.69047 759.366387 2.7524 0.0010478 -1.2364 -0.00047067 1.5161 0.00057716 380.6912399528424 58.661 0.69535 59.328 59.052 59.748 0.66703 43 31 2 0 0 0 0.74071 1 26802 26802 2.5775 0 1 356410 25982 9812 16792 16850 29504 29504 -0.022921686851532286 QPHGGPPA 8 Unmodified _QPHGGPPA_ 0 0 0 nc|ENSG00000277758|X6R8R1|SYT15B;nc|ENSG00000204176|Q9BQS2-3|SYT15 nc|ENSG00000277758|X6R8R1|SYT15B nc|ENSG00000277758|X6R8R1|SYT15B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 380.69047 759.366387 2.8005 0.0010661 -1.0208 -0.0003886 1.7797 0.00067751 380.69089747489056 58.777 0.48177 59.04 59.017 59.499 0.26227 -0.14417 8.3767E-05 NaN 2.5775 37 25 2 NaN NaN NaN NaN 0 NaN NaN 0 412600 25983 9812 16792 16850 -0.022921686851532286 QPHPFDPIL 9 Unmodified _QPHPFDPIL_ 0 0 0 nc|ENSG00000143164|Q58WW2|DCAF6;nc|ENSG00000143164|Q58WW2-2|DCAF6;nc|ENSG00000143164|Q58WW2-4|DCAF6;ENSG00000143164|ENST00000367840|DCAF6 nc|ENSG00000143164|Q58WW2|DCAF6 nc|ENSG00000143164|Q58WW2|DCAF6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 532.2837524414062 2 532.282192 1062.54983 3.1153 0.0016582 0.2664 0.0001418 3.3817 0.0018 532.282305337891 61.043 0.93937 61.298 60.903 61.843 0.25578 106 44 3 0 0 0 0.044468 1 28129 28129 54.774 0 1 1931000 25984 3348 16793 16851 29505 29505 0.021057603058579843 QPHPFDPIL 9 Unmodified _QPHPFDPIL_ 0 0 0 nc|ENSG00000143164|Q58WW2|DCAF6;nc|ENSG00000143164|Q58WW2-2|DCAF6;nc|ENSG00000143164|Q58WW2-4|DCAF6;ENSG00000143164|ENST00000367840|DCAF6 nc|ENSG00000143164|Q58WW2|DCAF6 nc|ENSG00000143164|Q58WW2|DCAF6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.282958984375 2 532.282192 1062.54983 3.2598 0.0017352 -0.011983 -6.3782E-06 3.2479 0.0017288 532.282140335694 60.457 0.81077 61.12 60.788 61.599 0.66261 96 41 3 0 0 0 0.016529 1 27817 27817 81.613 0 1 2271800 25985 3348 16793 16851 29506 29506 0.021057603058579843 QPHRRWFYRDK 11 Unmodified _QPHRRWFYRDK_ 0 0 0 REV__ENST00000528662.6_1_11:102584081-102593757:-|nuORF REV__ENST00000528662.6_1_11:102584081-102593757:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 794.9188842773438 2 794.915833 1587.81711 NaN NaN NaN NaN NaN NaN NaN 45.99 1 46.816 46.316 47.316 0.82621 0 0 0 1.008 1 20946 20946 1.0715 0.72083 1 + 25986 11463 16794 16852 29507 29507 0.04671658237111842 QPIKESNSL 9 Unmodified _QPIKESNSL_ 0 0 0 USP24|p.Y2252Ifs*5|1|0.16|ENSG00000162402|chr1:55085953-55085953|A/-|frameshift_variant;ENSG00000162402|ENST00000294383|USP24 USP24|p.Y2252Ifs*5|1|0.16|ENSG00000162402|chr1:55085953-55085953|A/-|frameshift_variant USP24|p.Y2252Ifs*5|1|0.16|ENSG00000162402|chr1:55085953-55085953|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.27667236328125 2 508.274564 1014.53457 3.4844 0.001771 0.34516 0.00017544 3.8295 0.0019465 508.27479519435457 19.787 0.2774 20.445 20.329 20.606 0.6583 32 20 2 0 0 0 0.029308 1 8973 8973 56.177 6.244 1 519370 25987 4134 16795 16853 29508 29508 0.027888487179893673 QPIPILYEHQL 11 Unmodified _QPIPILYEHQL_ 0 0 0 nc|ENSG00000117523|Q9Y520-2|PRRC2C;nc|ENSG00000117523|Q9Y520-3|PRRC2C;nc|ENSG00000117523|Q9Y520-6|PRRC2C;nc|ENSG00000117523|Q9Y520-4|PRRC2C;nc|ENSG00000117523|Q9Y520-5|PRRC2C;nc|ENSG00000117523|Q9Y520|PRRC2C;ENSG00000117523|ENST00000647382|PRRC2C nc|ENSG00000117523|Q9Y520-2|PRRC2C nc|ENSG00000117523|Q9Y520-2|PRRC2C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 675.87841796875 2 675.874445 1349.73434 NaN NaN NaN NaN NaN NaN NaN 67.037 1 67.287 66.787 67.787 0.2501 0 0 0 0.015069 1 30709 30709 62.869 35.24 1 25988 2078 16796 16854 29509 29509 0.07345903665759579 QPIPILYEHQL 11 Unmodified _QPIPILYEHQL_ 0 0 0 nc|ENSG00000117523|Q9Y520-2|PRRC2C;nc|ENSG00000117523|Q9Y520-3|PRRC2C;nc|ENSG00000117523|Q9Y520-6|PRRC2C;nc|ENSG00000117523|Q9Y520-4|PRRC2C;nc|ENSG00000117523|Q9Y520-5|PRRC2C;nc|ENSG00000117523|Q9Y520|PRRC2C;ENSG00000117523|ENST00000647382|PRRC2C nc|ENSG00000117523|Q9Y520-2|PRRC2C nc|ENSG00000117523|Q9Y520-2|PRRC2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 675.876953125 2 675.874445 1349.73434 4.0075 0.0027086 -0.22128 -0.00014956 3.7862 0.002559 675.8741972363376 66.408 0.27216 67.065 66.928 67.2 0.65672 16 13 2 0 0 0 0.079902 1 30435 30435 46.022 28.909 1 359300 25989 2078 16796 16854 29510 29510 0.07345903665759579 QPIRENDDQVL 11 Unmodified _QPIRENDDQVL_ 0 0 0 nc|ENSG00000172869|Q9Y485|DMXL1;ENSG00000172869|ENST00000539542|DMXL1 nc|ENSG00000172869|Q9Y485|DMXL1 nc|ENSG00000172869|Q9Y485|DMXL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 663.837646484375 2 663.836048 1325.65754 NaN NaN NaN NaN NaN NaN NaN 32.129 1 32.917 32.417 33.417 0.78795 0 0 0 0.55876 1 14526 14526 26.268 0.86883 1 25990 4900 16797 16855 29511 29511 0.007740603785805433 QPIRENDDQVL 11 Unmodified _QPIRENDDQVL_ 0 0 0 nc|ENSG00000172869|Q9Y485|DMXL1;ENSG00000172869|ENST00000539542|DMXL1 nc|ENSG00000172869|Q9Y485|DMXL1 nc|ENSG00000172869|Q9Y485|DMXL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.8378295898438 2 663.836048 1325.65754 3.9286 0.002608 -0.038831 -2.5777E-05 3.8898 0.0025822 663.8358753270577 32.986 0.30007 33.24 33.018 33.318 0.25389 19 12 2 0 0 0 0.37412 1 15005 15005 22.736 0 1 424980 25991 4900 16797 16855 29512 29512 0.007740603785805433 QPIRENDDQVL 11 Unmodified _QPIRENDDQVL_ 0 0 0 nc|ENSG00000172869|Q9Y485|DMXL1;ENSG00000172869|ENST00000539542|DMXL1 nc|ENSG00000172869|Q9Y485|DMXL1 nc|ENSG00000172869|Q9Y485|DMXL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.839599609375 2 663.836048 1325.65754 3.8801 0.0025757 0.33498 0.00022237 4.2151 0.0027981 663.836258352584 32.414 0.38365 33.033 32.862 33.246 0.61831 36 18 3 0 0 0 0.26146 2 14906 14838;14906 26.268 15.444 1 428230 25992 4900 16797 16855 29513;29514 29514 0.007740603785805433 QPIRENDDQVL 11 Unmodified _QPIRENDDQVL_ 0 0 0 nc|ENSG00000172869|Q9Y485|DMXL1;ENSG00000172869|ENST00000539542|DMXL1 nc|ENSG00000172869|Q9Y485|DMXL1 nc|ENSG00000172869|Q9Y485|DMXL1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 663.836048 1325.65754 3.9286 0.002608 -0.038831 -2.5777E-05 3.8898 0.0025822 663.8358753270577 32.986 0.30007 33.24 33.018 33.318 0.25389 0.10364 -0.00033447 NaN 26.268 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 424980 25993 4900 16797 16855 0.007740603785805433 QPKFRYPFYYE 11 Unmodified _QPKFRYPFYYE_ 0 0 0 nc|ENSG00000089094|Q8NHM5-4|KDM2B;nc|ENSG00000089094|Q8NHM5-2|KDM2B;nc|ENSG00000089094|Q8NHM5-3|KDM2B;ENSG00000089094|ENST00000377071|KDM2B;nc|ENSG00000089094|Q8NHM5-5|KDM2B;ENST00000538503.5_1_12:121882954-121987523:-|nuORF nc|ENSG00000089094|Q8NHM5-4|KDM2B nc|ENSG00000089094|Q8NHM5-4|KDM2B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 769.3768920898438 2 769.377352 1536.74015 NaN NaN NaN NaN NaN NaN NaN 42.682 1 42.952 42.452 43.452 0.27021 0 0 0 1.008 1 19466 19466 0.30703 0 1 25994 1030 16798 16856 29515 29515 -0.006749978225570885 QPKKQPKKDKE 11 Unmodified _QPKKQPKKDKE_ 0 0 0 ENST00000422292.2_1_9:15055292-15055805:+|nuORF ENST00000422292.2_1_9:15055292-15055805:+|nuORF ENST00000422292.2_1_9:15055292-15055805:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 677.3978271484375 2 677.396076 1352.7776 4.1435 0.0028068 -1.2276 -0.00083155 2.916 0.0019753 677.3953482414703 93.102 1.3537 93.749 92.874 94.228 0.64715 130 69 3 0 0 0 0.91168 1 42846 42846 2.4985 2.0401 1 1325000 25995 7766 16799 16857 29516 29516 0.11532093443042868 QPKKVKII 8 Unmodified _QPKKVKII_ 0 0 0 REV__ENSG00000157680|ENST00000614521|DGKI REV__ENSG00000157680|ENST00000614521|DGKI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 318.55621337890625 3 318.555055 952.643337 2.1181 0.00067473 0.63735 0.00020303 2.7554 0.00087776 318.55516399166544 17.993 0.48195 18.295 18.019 18.501 0.30158 64 49 2 0 0 0 0.70799 1 8161 8161 3.5965 0 1 229100 + 25996 12808 16800 16858 29517 29517 0.16512104478943002 QPKKVKII 8 Unmodified _QPKKVKII_ 0 0 0 REV__ENSG00000157680|ENST00000614521|DGKI REV__ENSG00000157680|ENST00000614521|DGKI MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 318.555908203125 3 318.555055 952.643337 NaN NaN NaN NaN NaN NaN NaN 17.982 1 18.643 18.143 19.143 0.66072 0 0 0 0.99035 1 8127 8127 3.5965 0 1 + 25997 12808 16800 16858 29518 29518 0.16512104478943002 QPKPATAL 8 Unmodified _QPKPATAL_ 0 0 0 ENSG00000121892|ENST00000303538|PDS5A;ENST00000506262.1_1_4:39978008-39978209:-|nuORF;nc|ENSG00000121892|Q29RF7-3|PDS5A ENSG00000121892|ENST00000303538|PDS5A ENSG00000121892|ENST00000303538|PDS5A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 413.24591064453125 2 413.245078 824.475603 3.1203 0.0012895 0.27272 0.0001127 3.3931 0.0014022 413.24513480772487 19.309 0.17298 19.967 19.872 20.045 0.6583 21 12 2 0 0 0 0.26384 1 8765 8765 38.151 6.0342 1 489600 25998 2247 16801 16859 29519 29519 0.056344172143212745 QPKRQLVL 8 Unmodified _QPKRQLVL_ 0 0 0 REV__ENSG00000165370|ENST00000651716|GPR101 REV__ENSG00000165370|ENST00000651716|GPR101 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 327.8786926269531 3 327.87831 980.613099 2.1981 0.00072072 -0.21425 -7.0248E-05 1.9839 0.00065047 327.87824295565764 19.173 0.16563 19.47 19.375 19.541 0.29753 30 17 2 0 0 0 0.68959 1 8748 8748 6.7232 2.7788 1 1235400 + 25999 13156 16802 16860 29520 29520 0.12201745813740672 QPKRQLVL 8 Unmodified _QPKRQLVL_ 0 0 0 REV__ENSG00000165370|ENST00000651716|GPR101 REV__ENSG00000165370|ENST00000651716|GPR101 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 327.87969970703125 3 327.87831 980.613099 2.3354 0.00076571 0.6834 0.00022407 3.0188 0.00098979 327.8784887855977 18.758 0.22549 19.419 19.315 19.541 0.66072 28 17 2 0 0 0 0.58952 1 8488 8488 14.838 0.93222 1 1173200 + 26000 13156 16802 16860 29521 29521 0.12201745813740672 QPKRRRRNRRH 11 Unmodified _QPKRRRRNRRH_ 0 0 0 REV__ENST00000464624.6_1_20:57428320-57466719:+|nuORF REV__ENST00000464624.6_1_20:57428320-57466719:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.65234375 3 520.649068 1558.92537 4.2303 0.0022025 0.39315 0.00020469 4.6234 0.0024072 520.6492729382354 101.5 0.12602 101.81 101.72 101.85 0.31412 17 4 6 0 0 0 0.91489 1 46955 46955 0 0 1 6919000 + 26001 16532 16803 16861 29522 29522 0.16826887330921636 QPKRRRRNRRH 11 Unmodified _QPKRRRRNRRH_ 0 0 0 REV__ENST00000464624.6_1_20:57428320-57466719:+|nuORF REV__ENST00000464624.6_1_20:57428320-57466719:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.9859008789062 3 520.649068 1558.92537 3.5799 0.0018639 0.61219 0.00031874 4.1921 0.0021826 520.6494962191558 101.4 0.11434 102 101.94 102.05 0.59717 15 4 5 0 0 0 0.91489 1 46953 46953 0 0 1 7169200 + 26002 16532 16803 16861 29523 29523 0.16826887330921636 QPKRRRRNRRH 11 Unmodified _QPKRRRRNRRH_ 0 0 0 REV__ENST00000464624.6_1_20:57428320-57466719:+|nuORF REV__ENST00000464624.6_1_20:57428320-57466719:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 520.649068 1558.92537 4.2303 0.0022025 0.39315 0.00020469 4.6234 0.0024072 520.6492729382354 101.5 0.12602 101.81 101.72 101.85 0.31412 -0.09305 -6.6678E-05 NaN 0 17 4 6 NaN NaN NaN NaN 0 NaN NaN 0 6919000 + 26003 16532 16803 16861 0.16826887330921636 QPKRRRRNRRH 11 Unmodified _QPKRRRRNRRH_ 0 0 0 REV__ENST00000464624.6_1_20:57428320-57466719:+|nuORF REV__ENST00000464624.6_1_20:57428320-57466719:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 520.649068 1558.92537 3.5799 0.0018639 0.61219 0.00031874 4.1921 0.0021826 520.6494962191558 101.4 0.11434 102 101.94 102.05 0.59717 0.09305 0.00027546 NaN 0 15 4 5 NaN NaN NaN NaN 0 NaN NaN 0 7169200 + 26004 16532 16803 16861 0.16826887330921636 QPLEKIAQRR 10 Unmodified _QPLEKIAQRR_ 0 0 0 REV__nc|ENSG00000166181|Q9BZZ5-3|API5 REV__nc|ENSG00000166181|Q9BZZ5-3|API5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.871826171875 2 619.870028 1237.7255 3.8293 0.0023737 -0.98696 -0.00061179 2.8424 0.0017619 619.8694594625646 90.557 0.98578 91.229 90.708 91.694 0.67271 117 49 3 0 0 0 0.94165 1 41757 41757 1.3295 0.80477 1 1600100 + 26005 13216 16804 16862 29524 29524 0.11614974819917734 QPLIRLLMRW 10 Unmodified _QPLIRLLMRW_ 0 0 0 REV__ENSG00000180871|ENST00000318507|CXCR2 REV__ENSG00000180871|ENST00000318507|CXCR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.60247802734375 3 442.60067 1324.78018 3.3015 0.0014613 0.28744 0.00012722 3.589 0.0015885 442.6005787844721 99.176 0.12265 99.773 99.73 99.853 0.59748 15 7 3 0 0 0 0.93713 1 45852 45852 0.62683 0.26015 1 4455000 + 26006 13833 16805 16863 29525 29525 0.13078270367009281 QPLIRLLMRWN 11 Unmodified _QPLIRLLMRWN_ 0 0 0 REV__ENSG00000180871|ENST00000318507|CXCR2 REV__ENSG00000180871|ENST00000318507|CXCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 720.4205932617188 2 720.418831 1438.82311 NaN NaN NaN NaN NaN NaN NaN 42.578 1 43.225 42.725 43.725 0.64693 0 0 0 1.008 1 19506 19506 0.30703 0.30703 1 + 26007 13833 16806 16864 29526 29526 0.12125040424439248 QPLKKLVSF 9 Unmodified _QPLKKLVSF_ 0 0 0 ENSG00000166750|ENST00000299977|SLFN5 ENSG00000166750|ENST00000299977|SLFN5 ENSG00000166750|ENST00000299977|SLFN5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 353.89105224609375 3 353.890215 1058.64882 2.5731 0.0009106 0.25669 9.0839E-05 2.8298 0.0010014 353.89030052996407 42.934 0.14656 43.204 43.186 43.332 0.27021 18 12 2 0 0 0 0.81759 1 19621 19621 7.1017 2.5729 1 4681700 26008 4505 16807 16865 29527 29527 0.12183783270756976 QPLKKLVSF 9 Unmodified _QPLKKLVSF_ 0 0 0 ENSG00000166750|ENST00000299977|SLFN5 ENSG00000166750|ENST00000299977|SLFN5 ENSG00000166750|ENST00000299977|SLFN5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.8348999023438 2 530.331685 1058.64882 3.1867 0.00169 0.57265 0.00030369 3.7593 0.0019937 530.3318945983697 42.958 0.13037 43.229 43.202 43.332 0.27021 13 9 2 0 0 0 0.29024 1 19630 19630 13.042 4.4492 1 2962300 26009 4505 16807 16865 29528 29528 0.12183783270756976 QPLKKLVSF 9 Unmodified _QPLKKLVSF_ 0 0 0 ENSG00000166750|ENST00000299977|SLFN5 ENSG00000166750|ENST00000299977|SLFN5 ENSG00000166750|ENST00000299977|SLFN5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.3339233398438 2 530.331685 1058.64882 3.4162 0.0018117 0.28646 0.00015192 3.7027 0.0019636 530.3317895376376 42.192 0.25259 42.839 42.821 43.073 0.64693 36 23 2 0 0 0 0.1081 1 19355 19355 20.415 6.9067 1 1777100 26010 4505 16807 16865 29529 29529 0.12183783270756976 QPLKKLVSF 9 Unmodified _QPLKKLVSF_ 0 0 0 ENSG00000166750|ENST00000299977|SLFN5 ENSG00000166750|ENST00000299977|SLFN5 ENSG00000166750|ENST00000299977|SLFN5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.3345336914062 2 530.331685 1058.64882 NaN NaN NaN NaN NaN NaN NaN 42.158 1 42.805 42.305 43.305 0.64693 0 0 0 0.60042 1 19307 19307 16.149 7.5558 1 26011 4505 16807 16865 29530 29530 0.12183783270756976 QPLLEWVREP 10 Unmodified _QPLLEWVREP_ 0 0 0 REV__ENST00000354891.7_1_5:38438546-38448418:+|nuORF REV__ENST00000354891.7_1_5:38438546-38448418:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.8431396484375 2 633.845687 1265.67682 NaN NaN NaN NaN NaN NaN NaN 104 1 104.32 103.82 104.82 0.31863 0 0 0 1.0006 1 48061 48061 1.1933 0.59184 1 + 26012 15536 16808 16866 29531 29531 0.05461061460187011 QPLLQSESI 9 Unmodified _QPLLQSESI_ 0 0 0 REV__ENST00000578240.1_1_17:8133236-8133407:-|nuORF REV__ENST00000578240.1_1_17:8133236-8133407:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.2515563964844 2 507.776939 1013.53933 NaN NaN NaN NaN NaN NaN NaN 46.64 1 47.292 46.792 47.792 0.65219 0 0 0 0.72654 1 21362 21362 11.64 0 1 + 26013 17488 16809 16867 29532 29532 0.033097328607595955 QPLLREVL 8 Unmodified _QPLLREVL_ 0 0 0 ENSG00000103061|ENST00000263997|SLC7A6OS;ENST00000474100.1_1_1:151372658-151373852:+|nuORF;ENSG00000159377|ENST00000290541|PSMB4 ENSG00000103061|ENST00000263997|SLC7A6OS ENSG00000103061|ENST00000263997|SLC7A6OS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.3019104003906 2 484.300384 966.586216 3.2927 0.0015947 0.011138 5.3942E-06 3.3038 0.0016001 484.3002968125938 57.569 0.32865 57.569 57.395 57.724 0 92 39 3 0 0 0 0.025316 2 26500 26500;26542 85.272 33.004 1 3150000 26014 1372 16810 16868 29533;29534 29533 0.10158637202562204 QPLLREVL 8 Unmodified _QPLLREVL_ 0 0 0 ENSG00000103061|ENST00000263997|SLC7A6OS;ENST00000474100.1_1_1:151372658-151373852:+|nuORF;ENSG00000159377|ENST00000290541|PSMB4 ENSG00000103061|ENST00000263997|SLC7A6OS ENSG00000103061|ENST00000263997|SLC7A6OS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.30078125 2 484.300384 966.586216 2.8921 0.0014007 -0.090979 -4.4061E-05 2.8012 0.0013566 484.30010385507956 56.603 0.25314 57.381 57.258 57.511 0.77786 59 26 3 0 0 0 0.025316 2 25895 25847;25895 85.272 10.343 1 2694600 26015 1372 16810 16868 29535;29536 29536 0.10158637202562204 QPLLREVL 8 Unmodified _QPLLREVL_ 0 0 0 ENSG00000103061|ENST00000263997|SLC7A6OS;ENST00000474100.1_1_1:151372658-151373852:+|nuORF;ENSG00000159377|ENST00000290541|PSMB4 ENSG00000103061|ENST00000263997|SLC7A6OS ENSG00000103061|ENST00000263997|SLC7A6OS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.3019714355469 2 484.300384 966.586216 3.0438 0.0014741 -0.52643 -0.00025495 2.5173 0.0012191 484.30009888974075 57.336 0.31795 57.601 57.383 57.701 0.26443 86 31 3 0 0 0 0.017884 3 26230 26180;26230;26288 103.75 27.801 1 15693000 26016 1372 16810 16868 29537;29538;29539 29538 0.10158637202562204 QPLLREVL 8 Unmodified _QPLLREVL_ 0 0 0 ENSG00000103061|ENST00000263997|SLC7A6OS;ENST00000474100.1_1_1:151372658-151373852:+|nuORF;ENSG00000159377|ENST00000290541|PSMB4 ENSG00000103061|ENST00000263997|SLC7A6OS ENSG00000103061|ENST00000263997|SLC7A6OS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.3022155761719 2 484.300384 966.586216 3.244 0.0015711 0.4427 0.0002144 3.6867 0.0017855 484.30042542386695 56.729 0.33713 57.398 57.214 57.551 0.66829 55 18 4 0 0 0 0.017884 3 25952 25902;25952;26002 103.75 32.615 1 9688100 26017 1372 16810 16868 29540;29541;29542 29541 0.10158637202562204 QPLNKSESI 9 Unmodified _QPLNKSESI_ 0 0 0 REV__nc|ENSG00000090060|P51003-2|PAPOLA REV__nc|ENSG00000090060|P51003-2|PAPOLA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.2764587402344 2 508.274564 1014.53457 3.211 0.0016321 0.52959 0.00026918 3.7406 0.0019013 508.274859701063 20.846 0.28245 20.846 20.7 20.982 0 35 20 2 0 0 0 0.24465 1 9342 9342 20.454 0 1 348980 + 26018 10706 16811 16869 29543 29543 0.027888487179893673 QPLNKSESI 9 Unmodified _QPLNKSESI_ 0 0 0 REV__nc|ENSG00000090060|P51003-2|PAPOLA REV__nc|ENSG00000090060|P51003-2|PAPOLA MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 508.274564 1014.53457 3.211 0.0016321 0.52959 0.00026918 3.7406 0.0019013 508.274859701063 20.846 0.28245 20.846 20.7 20.982 0 0 0 NaN 20.454 35 20 2 NaN NaN NaN NaN 0 NaN NaN 0 348980 + 26019 10706 16811 16869 0.027888487179893673 QPLQLPQL 8 Unmodified _QPLQLPQL_ 0 0 0 REV__ENST00000426911.2_1_X:136058956-136065632:-|nuORF REV__ENST00000426911.2_1_X:136058956-136065632:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 468.7806091308594 2 468.779285 935.544017 NaN NaN NaN NaN NaN NaN NaN 13.216 1 13.459 12.959 13.959 0.24346 0 0 0 0.95658 1 5762 5762 8.5933 0 1 + 26020 16222 16812 16870 29544 29544 0.07366661794185347 QPLRLLRLAR 10 Unmodified _QPLRLLRLAR_ 0 0 0 REV__ENST00000470140.5_1_10:103343389-103345908:-|nuORF REV__ENST00000470140.5_1_10:103343389-103345908:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 309.5372619628906 4 309.706929 1234.79861 1.988 0.00061569 3.055 0.00094615 5.043 0.0015618 309.70768437254543 39.452 0.19528 39.452 39.297 39.492 0 9 6 2 0 0 0 0.12676 1 17854 17854 0.69767 0 1 427430 + 26021 13214 16813 16871 29545 29545 0.19060148333210236 QPLRRRCS 8 Unmodified _QPLRRRCS_ 0 0 0 nc|ENSG00000197283|Q96PV0-3|SYNGAP1 nc|ENSG00000197283|Q96PV0-3|SYNGAP1 nc|ENSG00000197283|Q96PV0-3|SYNGAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.1908264160156 3 339.190782 1014.55052 NaN NaN NaN NaN NaN NaN NaN 15.041 1 15.694 15.194 16.194 0.65356 0 0 0 0.99035 1 6773 6773 1.6526 0 1 26022 9803 16814 16872 29546 29546 0.04382276473904767 QPLSVVIL 8 Unmodified _QPLSVVIL_ 0 0 0 REV__ENST00000444986.1_1_6:28864339-28864980:+|nuORF REV__ENST00000444986.1_1_6:28864339-28864980:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.7817077636719 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 49.872 1 50.695 50.195 51.195 0.82285 0 0 0 0.99035 1 22719 22719 2.5775 0 1 + 26023 16374 16815 16873 29547 29547 0.10388447425293634 QPMNKIIQV 9 Unmodified _QPMNKIIQV_ 0 0 0 REV__ENSG00000021776|ENST00000156471|AQR REV__ENSG00000021776|ENST00000156471|AQR MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.29541015625 2 535.804977 1069.5954 3.311 0.0017741 -2.124 -0.001138 1.1871 0.00063604 535.8036708634223 36.64 0.24529 37.27 37.109 37.354 0.62999 14 10 2 0 0 0 0.11053 1 16719 16719 1.8442 0 1 159990 + 26024 10266 16816 16874 29548 29548 0.06338662496591496 QPNGGEPFL 9 Unmodified _QPNGGEPFL_ 0 0 0 ENSG00000143179|ENST00000367879|UCK2 ENSG00000143179|ENST00000367879|UCK2 ENSG00000143179|ENST00000367879|UCK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 479.736328125 2 479.735074 957.455596 2.9684 0.001424 0.27772 0.00013323 3.2461 0.0015573 479.7352276218027 56.035 0.39143 56.035 55.833 56.224 0 64 28 3 0 0 0 0.010221 2 25799 25750;25799 81.613 47.511 1 1584600 26025 3350 16817 16875 29549;29550 29550 -0.024833785162968525 QPNGGEPFL 9 Unmodified _QPNGGEPFL_ 0 0 0 ENSG00000143179|ENST00000367879|UCK2 ENSG00000143179|ENST00000367879|UCK2 ENSG00000143179|ENST00000367879|UCK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.7366027832031 2 479.735074 957.455596 2.6814 0.0012863 0.026355 1.2643E-05 2.7077 0.001299 479.7350554128967 54.997 0.50657 55.785 55.58 56.086 0.78711 73 33 3 0 0 0 0.010221 3 25129 25077;25129;25193 81.613 41.656 1 1304500 26026 3350 16817 16875 29551;29552;29553 29552 -0.024833785162968525 QPNGGEPFL 9 Unmodified _QPNGGEPFL_ 0 0 0 ENSG00000143179|ENST00000367879|UCK2 ENSG00000143179|ENST00000367879|UCK2 ENSG00000143179|ENST00000367879|UCK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 958.4690551757812 1 958.462872 957.455596 3.5878 0.0034388 0.17134 0.00016422 3.7592 0.003603 958.4636320212867 56.012 0.33856 56.277 56.071 56.41 0.26543 20 13 2 0 0 0 0.079031 2 25649 25590;25649 37.974 18.535 1 746770 26027 3350 16817 16875 29554;29555 29555 -0.024833785162968525 QPNGGEPFL 9 Unmodified _QPNGGEPFL_ 0 0 0 ENSG00000143179|ENST00000367879|UCK2 ENSG00000143179|ENST00000367879|UCK2 ENSG00000143179|ENST00000367879|UCK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.7362976074219 2 479.735074 957.455596 2.9595 0.0014198 -0.090334 -4.3336E-05 2.8692 0.0013764 479.7349657320095 56.032 0.47371 56.298 56.041 56.515 0.26543 38 18 3 0 0 0 0.032303 1 25617 25617 54.774 22.468 1 1579000 26028 3350 16817 16875 29556 29556 -0.024833785162968525 QPNGGEPFL 9 Unmodified _QPNGGEPFL_ 0 0 0 ENSG00000143179|ENST00000367879|UCK2 ENSG00000143179|ENST00000367879|UCK2 ENSG00000143179|ENST00000367879|UCK2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 479.735074 957.455596 3.129 0.0015011 0.0057405 2.7539E-06 3.1347 0.0015038 479.7350670490919 55.341 0.53991 56.009 55.698 56.238 0.66798 -0.022964 -2.7208E-05 NaN 81.613 48 21 3 NaN NaN NaN NaN 0 NaN NaN 0 2209400 26029 3350 16817 16875 -0.024833785162968525 QPNMSELTL 9 Unmodified _QPNMSELTL_ 0 0 0 REV__ENSG00000166123|ENST00000340124|GPT2 REV__ENSG00000166123|ENST00000340124|GPT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.7560424804688 2 516.755149 1031.49575 3.4268 0.0017708 -0.71579 -0.00036989 2.711 0.0014009 516.7548028935712 49.403 0.82471 50.227 49.933 50.757 0.82396 99 42 3 0 0 0 0.98132 1 22735 22735 4.3292 0.38484 1 1232200 + 26030 13210 16818 16876 29557 29557 -0.018741999080248206 QPPAKKLLVLL 11 Unmodified _QPPAKKLLVLL_ 0 0 0 REV__nc|ENSG00000073969|P46459-2|NSF REV__nc|ENSG00000073969|P46459-2|NSF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 610.4797973632812 2 610.410466 1218.80638 NaN NaN NaN NaN NaN NaN NaN 54.951 1 55.738 55.238 56.238 0.78711 0 0 0 1.008 1 25082 25082 0.35063 0 1 + 26031 10510 16819 16877 29558 29558 0.20572862810126935 QPPGAMES 8 Unmodified _QPPGAMES_ 0 0 0 REV__ENSG00000174231|ENST00000304992|PRPF8 REV__ENSG00000174231|ENST00000304992|PRPF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 408.6830139160156 2 408.681453 815.348354 NaN NaN NaN NaN NaN NaN NaN 68.048 1 68.3 67.8 68.8 0.25227 0 0 0 0.99035 1 31172 31172 2.5775 0 1 + 26032 13627 16820 16878 29559 29559 -0.06670671722156385 QPPGGFFVL 9 Unmodified _QPPGGFFVL_ 0 0 0 ENST00000564480.1_2_16:19728764-19728881:-|nuORF ENST00000564480.1_2_16:19728764-19728881:-|nuORF ENST00000564480.1_2_16:19728764-19728881:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 481.408447265625 2 481.260728 960.506903 NaN NaN NaN NaN NaN NaN NaN 28.493 1 29.282 28.782 29.782 0.78921 0 0 0 0.82031 1 12833 12833 8.5933 2.8329 1 26033 9032 16821 16879 29560 29560 0.025069902484233353 QPPKRRKKRYL 11 Unmodified _QPPKRRKKRYL_ 0 0 0 ENSG00000160973|ENST00000377317|FOXH1 ENSG00000160973|ENST00000377317|FOXH1 ENSG00000160973|ENST00000377317|FOXH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.6446838378906 3 490.644038 1468.91028 NaN NaN NaN NaN NaN NaN NaN 77.794 1 78.354 77.854 78.854 0.56091 0 0 0 1.008 1 37767 37767 0.08335 0 1 26034 4087 16822 16880 29561 29561 0.1945858269036762 QPPYRTSL 8 Unmodified _QPPYRTSL_ 0 0 0 nc|ENSG00000131652|Q86W42-3|THOC6;ENSG00000131652|ENST00000326266|THOC6;nc|ENSG00000131652|Q86W42-2|THOC6 nc|ENSG00000131652|Q86W42-3|THOC6 nc|ENSG00000131652|Q86W42-3|THOC6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.26007080078125 2 481.258717 960.50288 3.1699 0.0015255 0.18022 8.6731E-05 3.3501 0.0016123 481.25881140604486 29.295 0.41929 29.555 29.39 29.809 0.2602 43 25 2 0 0 0 0.54363 3 13349 13290;13349;13411 18.146 6.5061 1 267370 26035 2668 16823 16881 29562;29563;29564 29563 0.021049007547162546 QPPYRTSL 8 Unmodified _QPPYRTSL_ 0 0 0 nc|ENSG00000131652|Q86W42-3|THOC6;ENSG00000131652|ENST00000326266|THOC6;nc|ENSG00000131652|Q86W42-2|THOC6 nc|ENSG00000131652|Q86W42-3|THOC6 nc|ENSG00000131652|Q86W42-3|THOC6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.2605285644531 2 481.258717 960.50288 3.1226 0.0015028 -0.2218 -0.00010674 2.9008 0.001396 481.2586352289787 29.03 0.21652 29.648 29.501 29.717 0.61789 20 15 2 0 0 0 0.52777 1 13291 13291 19.257 6.7254 1 322820 26036 2668 16823 16881 29565 29565 0.021049007547162546 QPQEATALL 9 Unmodified _QPQEATALL_ 0 0 0 ENST00000484979.5_1_13:58206389-58206503:+|nuORF ENST00000484979.5_1_13:58206389-58206503:+|nuORF ENST00000484979.5_1_13:58206389-58206503:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.765380859375 2 485.763832 969.513111 3.0008 0.0014577 -0.21504 -0.00010446 2.7858 0.0013532 485.7636889040029 47.356 0.32319 47.356 47.172 47.495 0 42 17 3 0 0 0 0.015098 2 21708 21659;21708 74.929 3.0067 1 1994500 26037 8328 16824 16882 29566;29567 29567 0.027134636892810704 QPQEATALL 9 Unmodified _QPQEATALL_ 0 0 0 ENST00000484979.5_1_13:58206389-58206503:+|nuORF ENST00000484979.5_1_13:58206389-58206503:+|nuORF ENST00000484979.5_1_13:58206389-58206503:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.76544189453125 2 485.763832 969.513111 3.3047 0.0016053 0.079064 3.8406E-05 3.3837 0.0016437 485.7638352640776 47.141 0.45998 47.404 47.182 47.642 0.26363 53 17 4 0 0 0 0.010018 2 21603 21555;21603 81.89 9.9679 1 4781300 26038 8328 16824 16882 29568;29569 29569 0.027134636892810704 QPQGKRRI 8 Unmodified _QPQGKRRI_ 0 0 0 LYST|p.R3095Efs*37|1|0.09|ENSG00000143669|chr1:235724060-235724060|T/-|frameshift_variant;ENSG00000143669|ENST00000389793|LYST;ENST00000492844.1_1_1:235950498-235952065:-|nuORF;LYST|p.F1726Lfs*2|1|0.35|ENSG00000143669|chr1:235780901-235780901|A/-|frameshift_variant;nc|ENSG00000143669|Q99698-2|LYST;ENST00000489585.5_1_1:235926109-235996891:-|nuORF LYST|p.R3095Efs*37|1|0.09|ENSG00000143669|chr1:235724060-235724060|T/-|frameshift_variant LYST|p.R3095Efs*37|1|0.09|ENSG00000143669|chr1:235724060-235724060|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.79736328125 2 491.798875 981.583196 NaN NaN NaN NaN NaN NaN NaN 70.982 1 71.644 71.144 72.144 0.66209 0 0 0 0.97647 1 32531 32531 5.7604 0 1 26039 3386 16825 16883 29570 29570 0.09166806868415733 QPQILQLP 8 Unmodified _QPQILQLP_ 0 0 0 REV__ENSG00000101052|ENST00000373030|IFT52 REV__ENSG00000101052|ENST00000373030|IFT52 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.7806091308594 2 468.779285 935.544017 NaN NaN NaN NaN NaN NaN NaN 13.153 1 13.46 12.96 13.96 0.30727 0 0 0 0.94507 1 5932 5932 9.3474 0 1 + 26040 10863 16826 16884 29571 29571 0.07366661794185347 QPQKMDLTM 9 Unmodified _QPQKMDLTM_ 0 0 0 nc|ENSG00000122482|Q9H582-2|ZNF644;ENSG00000122482|ENST00000337393|ZNF644 nc|ENSG00000122482|Q9H582-2|ZNF644 nc|ENSG00000122482|Q9H582-2|ZNF644 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 364.89837646484375 3 364.51231 1090.5151 2.4086 0.00087796 0.99302 0.00036197 3.4016 0.0012399 364.84756441508273 14.984 0.39186 15.291 15.072 15.464 0.3069 104 37 3 0 0 0 0.098886 1 6698 6698 4.897 0.95262 1 201460 26041 2270 16827 16885 29572 29572 -0.02653566888784553 QPQSHETAL 9 Unmodified _QPQSHETAL_ 0 0 0 nc|ENSG00000173273|O95271-2|TNKS;ENSG00000173273|ENST00000310430|TNKS nc|ENSG00000173273|O95271-2|TNKS nc|ENSG00000173273|O95271-2|TNKS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.75042724609375 2 505.748713 1009.48287 3.0864 0.001561 0.43494 0.00021997 3.5214 0.0017809 505.74893729965135 14.749 0.58242 14.749 14.587 15.169 0 168 68 4 0 0 0 0.063112 1 6493 6493 37.974 0 1 1529900 26042 4925 16828 16886 29573 29573 -0.021488949759145726 QPQSHETAL 9 Unmodified _QPQSHETAL_ 0 0 0 nc|ENSG00000173273|O95271-2|TNKS;ENSG00000173273|ENST00000310430|TNKS nc|ENSG00000173273|O95271-2|TNKS nc|ENSG00000173273|O95271-2|TNKS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.7502136230469 2 505.748713 1009.48287 3.1169 0.0015764 -0.093839 -4.7459E-05 3.0231 0.0015289 505.7485938636113 14.41 0.35231 14.637 14.529 14.881 0.22622 75 27 4 0 0 0 0.015631 1 6353 6353 81.89 27.117 1 2458900 26043 4925 16828 16886 29574 29574 -0.021488949759145726 QPQSHETAL 9 Unmodified _QPQSHETAL_ 0 0 0 nc|ENSG00000173273|O95271-2|TNKS;ENSG00000173273|ENST00000310430|TNKS nc|ENSG00000173273|O95271-2|TNKS nc|ENSG00000173273|O95271-2|TNKS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.7502136230469 2 505.748713 1009.48287 2.9962 0.0015153 -0.044583 -2.2548E-05 2.9516 0.0014928 505.74859604607906 14.255 0.2402 14.562 14.492 14.732 0.3069 25 13 3 0 0 0 0.063112 1 6440 6440 37.974 0 1 6290100 26044 4925 16828 16886 29575 29575 -0.021488949759145726 QPQSHETAL 9 Unmodified _QPQSHETAL_ 0 0 0 nc|ENSG00000173273|O95271-2|TNKS;ENSG00000173273|ENST00000310430|TNKS nc|ENSG00000173273|O95271-2|TNKS nc|ENSG00000173273|O95271-2|TNKS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.75042724609375 2 505.748713 1009.48287 3.3509 0.0016947 -0.37217 -0.00018823 2.9788 0.0015065 505.74850317525545 14.121 0.19813 14.769 14.692 14.89 0.6482 48 32 2 0 0 0 0.030603 1 6329 6329 52.268 6.2474 1 4509100 26045 4925 16828 16886 29576 29576 -0.021488949759145726 QPRDEAAFL 9 Unmodified _QPRDEAAFL_ 0 0 0 ENST00000411987.5_1_3:12613625-12613697:+|nuORF ENST00000411987.5_1_3:12613625-12613697:+|nuORF ENST00000411987.5_1_3:12613625-12613697:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.7686157226562 2 523.766906 1045.51926 3.5615 0.0018654 0.18369 9.621E-05 3.7452 0.0019616 523.7668312935376 47.191 0.3658 47.454 47.247 47.613 0.26363 23 14 2 0 0 0 0.59776 2 21529 21529;21582 10.824 4.1008 1 377370 26046 7677 16829 16887 29577;29578 29577 -0.0016801807919364364 QPRDEAAFL 9 Unmodified _QPRDEAAFL_ 0 0 0 ENST00000411987.5_1_3:12613625-12613697:+|nuORF ENST00000411987.5_1_3:12613625-12613697:+|nuORF ENST00000411987.5_1_3:12613625-12613697:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 523.766906 1045.51926 3.4604 0.0018125 0.14165 7.4189E-05 3.6021 0.0018867 523.7671747700347 46.567 0.35545 47.219 47.047 47.403 0.65219 -0.11763 -3.1562E-05 NaN 10.824 15 12 2 NaN NaN NaN NaN 0 NaN NaN 0 270530 26047 7677 16829 16887 -0.0016801807919364364 QPRKGRKPPAV 11 Unmodified _QPRKGRKPPAV_ 0 0 0 ENSG00000160224|ENST00000291582|AIRE ENSG00000160224|ENST00000291582|AIRE ENSG00000160224|ENST00000291582|AIRE MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 617.0802612304688 2 617.380563 1232.74657 NaN NaN NaN NaN NaN NaN NaN 84.277 1 84.306 83.806 84.806 0.028603 0 0 0 1.0059 1 42006 42006 2.9952 1.151 1 26048 4050 16830 16888 29579 29579 0.13950984919461007 QPRKRYRRKL 10 Unmodified _QPRKRYRRKL_ 0 0 0 ENSG00000162817|ENST00000294889|C1orf115 ENSG00000162817|ENST00000294889|C1orf115 ENSG00000162817|ENST00000294889|C1orf115 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 700.7306518554688 2 700.939111 1399.86367 NaN NaN NaN NaN NaN NaN NaN 86.315 1 86.346 85.846 86.846 0.030289 0 0 0 1.0003 1 43400 43400 1.4819 1.0812 1 26049 4170 16831 16889 29580 29580 0.17973142859045765 QPRLLERRRVR 11 Unmodified _QPRLLERRRVR_ 0 0 0 ENST00000298532.2_1_9:139276772-139277807:-|nuORF ENST00000298532.2_1_9:139276772-139277807:-|nuORF ENST00000298532.2_1_9:139276772-139277807:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.3108825683594 3 493.642809 1477.9066 3.127 0.0015436 0.41826 0.00020647 3.5453 0.0017501 493.6428473560921 32.562 0.23785 33.18 33.049 33.287 0.61831 16 10 2 0 0 0 0.13295 1 14922 14922 0.50596 0.50596 1 344390 26050 6779 16832 16890 29581 29581 0.1867591291647841 QPRPLQIKN 9 Unmodified _QPRPLQIKN_ 0 0 0 REV__ENSG00000135905|ENST00000258390|DOCK10;REV__nc|ENSG00000135905|Q96BY6-3|DOCK10 REV__ENSG00000135905|ENST00000258390|DOCK10 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 364.8981628417969 3 365.220735 1092.64038 2.4102 0.00088024 0.44463 0.00016239 2.8548 0.0010426 365.22107968269114 14.792 0.44732 15.098 14.923 15.37 0.3069 56 42 2 0 0 0 0.1026 1 6739 6739 11.495 6.5977 1 98656 + 26051 12043;17951 16833 16891 29582 29582 0.09776229354133648 QPRRQRLWLKR 11 Unmodified _QPRRQRLWLKR_ 0 0 0 nc|ENSG00000142405|P59046-5|NLRP12 nc|ENSG00000142405|P59046-5|NLRP12 nc|ENSG00000142405|P59046-5|NLRP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 768.97265625 2 768.970942 1535.92733 NaN NaN NaN NaN NaN NaN NaN 78.023 1 78.023 77.523 78.523 0 0 0 0 1.008 1 38299 38299 0.30703 0.30703 1 26052 9674 16834 16892 29583 29583 0.18080503296164352 QPRRRITAS 9 Unmodified _QPRRRITAS_ 0 0 0 ENST00000373880.8_1_10:60936426-60936663:+|nuORF ENST00000373880.8_1_10:60936426-60936663:+|nuORF ENST00000373880.8_1_10:60936426-60936663:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.2179870605469 3 362.215984 1083.62612 NaN NaN NaN NaN NaN NaN NaN 14.234 1 14.541 14.041 15.041 0.3069 0 0 0 0.72654 1 6441 6441 16.149 7.4037 1 26053 7370 16835 16893 29584 29584 0.08765576925839014 QPRRRWWWLQR 11 Unmodified _QPRRRWWWLQR_ 0 0 0 ENST00000591247.5_1_17:42113394-42113565:-|nuORF ENST00000591247.5_1_17:42113394-42113565:-|nuORF ENST00000591247.5_1_17:42113394-42113565:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 834.4577026367188 2 834.460742 1666.90693 NaN NaN NaN NaN NaN NaN NaN 81.27 1 81.27 80.77 81.77 0 0 0 0 1.008 1 40471 40471 0.30703 0.30703 1 26054 9234 16836 16894 29585 29585 0.10015332636339735 QPRWWYWPMSW 11 Unmodified _QPRWWYWPMSW_ 0 0 0 ENST00000584716.1_1_17:30815096-30816294:+|nuORF ENST00000584716.1_1_17:30815096-30816294:+|nuORF ENST00000584716.1_1_17:30815096-30816294:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.7938842773438 3 541.583568 1621.72887 NaN NaN NaN NaN NaN NaN NaN 60.636 1 60.636 60.136 61.136 0 0 0 0 1.008 1 28204 28204 0.08335 0 1 26055 9169 16837 16895 29586 29586 -0.0571209839772564 QPSISQPIL 9 Unmodified _QPSISQPIL_ 0 0 0 ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR ENSG00000047410|ENST00000367478|TPR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.78289794921875 2 491.782025 981.549496 3.1354 0.0015419 0.14246 7.0057E-05 3.2778 0.001612 491.78201946514395 35.245 0.35331 35.5 35.391 35.744 0.25524 24 13 2 0 0 0 0.41574 1 16055 16055 13.906 1.3745 1 414260 26056 557 16838 16896 29587 29587 0.05798340585999995 QPSITRRL 8 Unmodified _QPSITRRL_ 0 0 0 REV__ASXL2|p.E430Vfs*91|1|0.28|ENSG00000143970|chr2:25750264-25750267|CACT/-|frameshift_variant REV__ASXL2|p.E430Vfs*91|1|0.28|ENSG00000143970|chr2:25750264-25750267|CACT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.1987609863281 3 324.197931 969.571963 2.1429 0.00069473 0.53893 0.00017472 2.6818 0.00086945 324.19812877708466 16.85 0.6057 17.154 16.795 17.401 0.30438 89 55 2 0 0 0 0.71911 1 7530 7530 2.9952 0.49676 1 120570 + 26057 9973 16839 16897 29588 29588 0.08595984774274257 QPSITRRL 8 Unmodified _QPSITRRL_ 0 0 0 REV__ASXL2|p.E430Vfs*91|1|0.28|ENSG00000143970|chr2:25750264-25750267|CACT/-|frameshift_variant REV__ASXL2|p.E430Vfs*91|1|0.28|ENSG00000143970|chr2:25750264-25750267|CACT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.1993408203125 3 324.197931 969.571963 2.2233 0.0007208 1.1294 0.00036615 3.3527 0.001087 324.19838135073843 16.643 0.85959 17.301 16.755 17.614 0.65798 148 90 2 0 0 0 0.71911 2 7438 7438;7483 2.9952 0.49676 1 122590 + 26058 9973 16839 16897 29589;29590 29589 0.08595984774274257 QPSPLEPVI 9 Unmodified _QPSPLEPVI_ 0 0 0 nc|ENSG00000117859|Q96SU4-3|OSBPL9;nc|ENSG00000117859|Q96SU4-7|OSBPL9;nc|ENSG00000117859|Q96SU4-2|OSBPL9;ENSG00000117859|ENST00000428468|OSBPL9;nc|ENSG00000117859|Q96SU4-6|OSBPL9;nc|ENSG00000117859|Q96SU4-5|OSBPL9;nc|ENSG00000117859|Q96SU4-4|OSBPL9 nc|ENSG00000117859|Q96SU4-3|OSBPL9 nc|ENSG00000117859|Q96SU4-3|OSBPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 490.2776794433594 2 490.276575 978.538597 3.3467 0.0016408 -0.28834 -0.00014137 3.0584 0.0014995 490.2761448698847 66.804 0.33124 67.054 66.907 67.238 0.2501 29 17 2 0 0 0 0.12301 1 30652 30652 28.487 8.0332 1 641040 26059 2096 16840 16898 29591 29591 0.04846938211710494 QPSPLEPVI 9 Unmodified _QPSPLEPVI_ 0 0 0 nc|ENSG00000117859|Q96SU4-3|OSBPL9;nc|ENSG00000117859|Q96SU4-7|OSBPL9;nc|ENSG00000117859|Q96SU4-2|OSBPL9;ENSG00000117859|ENST00000428468|OSBPL9;nc|ENSG00000117859|Q96SU4-6|OSBPL9;nc|ENSG00000117859|Q96SU4-5|OSBPL9;nc|ENSG00000117859|Q96SU4-4|OSBPL9 nc|ENSG00000117859|Q96SU4-3|OSBPL9 nc|ENSG00000117859|Q96SU4-3|OSBPL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.2770080566406 2 490.276575 978.538597 3.2735 0.0016049 -0.63358 -0.00031063 2.64 0.0012943 490.2758692709579 66.218 0.31578 66.875 66.709 67.025 0.65672 35 19 2 0 0 0 0.017293 2 30358 30358;30406 71.922 39.617 1 674220 26060 2096 16840 16898 29592;29593 29592 0.04846938211710494 QPTFTEHLL 9 Unmodified _QPTFTEHLL_ 0 0 0 nc|ENSG00000197568|Q9XRX5-3|ANKRD13C-DT;nc|ENSG00000197568|Q9XRX5|ANKRD13C-DT;nc|ENSG00000197568|Q9XRX5-2|ANKRD13C-DT nc|ENSG00000197568|Q9XRX5-3|ANKRD13C-DT nc|ENSG00000197568|Q9XRX5-3|ANKRD13C-DT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.2870483398438 2 543.284931 1084.55531 3.5408 0.0019237 -3.1746 -0.0017247 0.36624 0.00019898 543.2828738416462 56.756 0.39384 56.756 56.567 56.961 0 57 33 2 0 0 0 0.020718 2 26079 26079;26143 67.344 31.3 1 1268100 26061 9807 16841 16899 29594;29595 29594 0.0164143909764789 QPTFTEHLL 9 Unmodified _QPTFTEHLL_ 0 0 0 nc|ENSG00000197568|Q9XRX5-3|ANKRD13C-DT;nc|ENSG00000197568|Q9XRX5|ANKRD13C-DT;nc|ENSG00000197568|Q9XRX5-2|ANKRD13C-DT nc|ENSG00000197568|Q9XRX5-3|ANKRD13C-DT nc|ENSG00000197568|Q9XRX5-3|ANKRD13C-DT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.2819213867188 2 543.284931 1084.55531 NaN NaN NaN NaN NaN NaN NaN 55.826 1 56.613 56.113 57.113 0.78711 0 0 0 0.059045 1 25500 25500 50.855 20.63 1 26062 9807 16841 16899 29596 29596 0.0164143909764789 QPTFTEHLL 9 Unmodified _QPTFTEHLL_ 0 0 0 nc|ENSG00000197568|Q9XRX5-3|ANKRD13C-DT;nc|ENSG00000197568|Q9XRX5|ANKRD13C-DT;nc|ENSG00000197568|Q9XRX5-2|ANKRD13C-DT nc|ENSG00000197568|Q9XRX5-3|ANKRD13C-DT nc|ENSG00000197568|Q9XRX5-3|ANKRD13C-DT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.2867431640625 2 543.284931 1084.55531 3.3375 0.0018132 -0.54965 -0.00029862 2.7878 0.0015146 543.2846061418927 56.621 0.25324 56.886 56.735 56.988 0.26543 21 15 2 0 0 0 0.028312 1 25893 25893 57.471 27.247 1 1059900 26063 9807 16841 16899 29597 29597 0.0164143909764789 QPTMQYTSLI 10 Unmodified _QPTMQYTSLI_ 0 0 0 REV__ENST00000513439.5_1_5:7889238-7895910:+|nuORF REV__ENST00000513439.5_1_5:7889238-7895910:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.5202331542969 3 394.53388 1180.57981 NaN NaN NaN NaN NaN NaN NaN 55.911 1 56.698 56.198 57.198 0.78711 0 0 0 0.99641 1 25542 25542 4.7159 0 1 + 26064 16992 16842 16900 29598 29598 -0.003256688111150652 QPTSVLDKA 9 Unmodified _QPTSVLDKA_ 0 0 0 ENSG00000165507|ENST00000298295|DEPP1 ENSG00000165507|ENST00000298295|DEPP1 ENSG00000165507|ENST00000298295|DEPP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.76513671875 2 479.763832 957.513111 NaN NaN NaN NaN NaN NaN NaN 24.872 1 25.609 25.109 26.109 0.73623 0 0 0 0.37777 1 11150 11150 23.79 9.3844 1 26065 4404 16843 16901 29599 29599 0.032654636892857525 QPVHGDLDL 9 Unmodified _QPVHGDLDL_ 0 0 0 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;nc|ENSG00000127603|Q9UPN3-5|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 497.2550354003906 2 497.253631 992.49271 3.0603 0.0015218 0.32481 0.00016151 3.3851 0.0016833 497.2537079474581 39.378 0.26241 39.378 39.23 39.492 0 20 9 3 0 0 0 0.038142 1 17892 17892 52.268 0 1 870070 26066 2487;9629 16844 16902 29600 29600 -0.003837069705241447 QPVHGDLDL 9 Unmodified _QPVHGDLDL_ 0 0 0 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;nc|ENSG00000127603|Q9UPN3-5|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 497.2554016113281 2 497.253631 992.49271 3.0877 0.0015354 0.17977 8.939E-05 3.2675 0.0016248 497.25370849022755 38.295 0.26196 39.091 38.936 39.198 0.79552 24 10 3 0 0 0 0.032303 1 17343 17343 54.774 0 1 898590 26067 2487;9629 16844 16902 29601 29601 -0.003837069705241447 QPVHGDLDL 9 Unmodified _QPVHGDLDL_ 0 0 0 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;nc|ENSG00000127603|Q9UPN3-5|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.2557067871094 2 497.253631 992.49271 3.136 0.0015594 0.16833 8.37E-05 3.3043 0.0016431 497.25392672238974 39.147 0.32031 39.411 39.255 39.575 0.26408 27 12 3 0 0 0 0.22507 1 17828 17828 21.747 0 1 741860 26068 2487;9629 16844 16902 29602 29602 -0.003837069705241447 QPVHGDLDL 9 Unmodified _QPVHGDLDL_ 0 0 0 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;nc|ENSG00000127603|Q9UPN3-5|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|O94854|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 497.253631 992.49271 3.1882 0.0015854 0.36143 0.00017972 3.5496 0.0017651 497.2539071068226 38.719 0.36842 39.357 39.163 39.532 0.63778 0.047466 9.6797E-05 NaN 54.774 23 13 2 NaN NaN NaN NaN 0 NaN NaN 0 934030 26069 2487;9629 16844 16902 -0.003837069705241447 QPVHPDVTM 9 Unmodified _QPVHPDVTM_ 0 0 0 ENST00000369299.7_1_1:145575401-145580415:+|nuORF;ENSG00000131788|ENST00000393045|PIAS3;ENST00000484423.5_1_1:145576054-145578613:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.2510375976562 2 512.250034 1022.48552 3.219 0.001649 -0.79956 -0.00040957 2.4195 0.0012394 512.2497534637355 32.44 0.29574 32.44 32.304 32.6 0 46 19 3 0 0 0 0.062556 1 14667 14667 42.095 17.421 1 860090 26070 2673 16845 16903 29603 29603 -0.024827628425896364 QPVHPDVTM 9 Unmodified _QPVHPDVTM_ 0 0 0 ENST00000369299.7_1_1:145575401-145580415:+|nuORF;ENSG00000131788|ENST00000393045|PIAS3;ENST00000484423.5_1_1:145576054-145578613:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.251953125 2 512.250034 1022.48552 3.195 0.0016366 -0.8553 -0.00043813 2.3397 0.0011985 512.2497645365204 31.59 0.21981 32.379 32.239 32.459 0.78879 30 18 3 0 0 0 0.12301 1 14247 14247 28.487 3.813 1 1093900 26071 2673 16845 16903 29604 29604 -0.024827628425896364 QPVHPDVTM 9 Unmodified _QPVHPDVTM_ 0 0 0 ENST00000369299.7_1_1:145575401-145580415:+|nuORF;ENSG00000131788|ENST00000393045|PIAS3;ENST00000484423.5_1_1:145576054-145578613:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.2513427734375 2 512.250034 1022.48552 3.3616 0.001722 -0.76516 -0.00039195 2.5965 0.00133 512.2494640209128 31.684 0.27804 32.301 32.151 32.429 0.61736 44 25 2 0 0 0 0.062556 1 14554 14554 42.095 13.608 1 1384100 26072 2673 16845 16903 29605 29605 -0.024827628425896364 QPVHPDVTM 9 Unmodified _QPVHPDVTM_ 0 0 0 ENST00000369299.7_1_1:145575401-145580415:+|nuORF;ENSG00000131788|ENST00000393045|PIAS3;ENST00000484423.5_1_1:145576054-145578613:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 512.250034 1022.48552 3.6783 0.0018842 -1.4101 -0.00072234 2.2682 0.0011619 512.2492648191364 32.299 0.21007 32.553 32.475 32.685 0.25452 0.13506 -0.00040616 NaN 42.095 36 16 3 NaN NaN NaN NaN 0 NaN NaN 0 1344000 26073 2673 16845 16903 -0.024827628425896364 QPVPRSVL 8 Unmodified _QPVPRSVL_ 0 0 0 ENSG00000068079|ENST00000415816|IFI35;nc|ENSG00000068079|P80217-2|IFI35 ENSG00000068079|ENST00000415816|IFI35 ENSG00000068079|ENST00000415816|IFI35 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 448.2729187011719 2 448.271627 894.528701 2.8308 0.0012689 -0.11785 -5.2828E-05 2.7129 0.0012161 448.2715262617545 34.512 0.41335 34.766 34.55 34.963 0.25389 40 17 3 0 0 0 0.051348 4 15727 15659;15727;15783;15796 65.235 7.8312 1 2118400 26074 732 16846 16904 29606;29607;29608;29609 29607 0.07721794997007692 QPVPRSVL 8 Unmodified _QPVPRSVL_ 0 0 0 ENSG00000068079|ENST00000415816|IFI35;nc|ENSG00000068079|P80217-2|IFI35 ENSG00000068079|ENST00000415816|IFI35 ENSG00000068079|ENST00000415816|IFI35 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.2717590332031 2 448.271627 894.528701 3.0219 0.0013546 -0.37947 -0.0001701 2.6425 0.0011845 448.271451077134 34.068 0.46032 34.689 34.431 34.892 0.62031 39 23 2 0 0 0 0.38743 2 15655 15655;15678 29.082 7.3349 1 1671900 26075 732 16846 16904 29610;29611 29610 0.07721794997007692 QPWPRRRRHTK 11 Unmodified _QPWPRRRRHTK_ 0 0 0 REV__ENST00000375608.7_2_13:113548693-113669133:+|nuORF REV__ENST00000375608.7_2_13:113548693-113669133:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 759.4368286132812 2 759.437267 1516.85998 NaN NaN NaN NaN NaN NaN NaN 52.696 1 52.96 52.46 53.46 0.26345 0 0 0 1.008 1 24090 24090 0.30703 0.30703 1 + 26076 15806 16847 16905 29612 29612 0.12222473085193997 QPYGISVLRE 10 Unmodified _QPYGISVLRE_ 0 0 0 REV__nc|ENSG00000076685|P49902-2|NT5C2 REV__nc|ENSG00000076685|P49902-2|NT5C2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 388.2375183105469 3 387.880267 1160.61897 2.9408 0.0011407 -0.57066 -0.00022135 2.3701 0.00091932 387.8800015611504 20.47 0.28384 21.123 20.975 21.259 0.65346 36 24 2 0 0 0 0.12533 1 9281 9281 12.873 2.0731 1 141000 + 26077 10545 16848 16906 29613 29613 0.045087995347330434 QPYLLYSVHMK 11 Unmodified _QPYLLYSVHMK_ 0 0 0 ENST00000512983.5_1_4:156617950-156632415:+|nuORF;nc|ENSG00000164116|Q02108-2|GUCY1A1;ENSG00000164116|ENST00000506455|GUCY1A1 ENST00000512983.5_1_4:156617950-156632415:+|nuORF ENST00000512983.5_1_4:156617950-156632415:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 689.8653564453125 2 689.863023 1377.71149 NaN NaN NaN NaN NaN NaN NaN 50.266 1 50.266 49.766 50.766 0 0 0 0 1.0038 1 23013 23013 5.7319 0 1 26078 4285 16849 16907 29614 29614 0.0377456127662299 QPYMFQGAVHC 11 Unmodified _QPYMFQGAVHC_ 0 0 0 ENST00000515408.5_1_5:112351630-112351813:+|nuORF ENST00000515408.5_1_5:112351630-112351813:+|nuORF ENST00000515408.5_1_5:112351630-112351813:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 427.8594665527344 3 427.523209 1279.5478 3.068 0.0013116 -0.081914 -3.502E-05 2.9861 0.0012766 427.523129866835 30.639 0.20853 30.639 30.533 30.742 0 30 17 2 0 0 0 0.88721 1 13815 13815 1.2148 0 1 1765000 26079 8597 16850 16908 29615 29615 -0.08079359765906702 QPYSQEWEL 9 Unmodified _QPYSQEWEL_ 0 0 0 ENSG00000103061|ENST00000263997|SLC7A6OS ENSG00000103061|ENST00000263997|SLC7A6OS ENSG00000103061|ENST00000263997|SLC7A6OS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 590.2711181640625 2 590.269478 1178.5244 3.7715 0.0022262 2.6123 0.0015419 6.3837 0.0037681 590.2719373784362 66.677 0.43485 66.927 66.751 67.185 0.25011 37 22 2 0 0 0 0.052704 1 30500 30500 46.021 9.8939 1 813090 26080 1372 16851 16909 29616 29616 -0.05771759007234323 QPYSQEWEL 9 Unmodified _QPYSQEWEL_ 0 0 0 ENSG00000103061|ENST00000263997|SLC7A6OS ENSG00000103061|ENST00000263997|SLC7A6OS ENSG00000103061|ENST00000263997|SLC7A6OS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 590.269478 1178.5244 3.7779 0.00223 2.5197 0.0014873 6.2975 0.0037172 590.2714682883355 66.112 0.44782 66.768 66.577 67.025 0.65672 -0.079123 -4.4295E-05 NaN 46.021 42 26 2 NaN NaN NaN NaN 0 NaN NaN 0 617610 26081 1372 16851 16909 -0.05771759007234323 QPYTKEVL 8 Unmodified _QPYTKEVL_ 0 0 0 nc|ENSG00000170581|P52630-4|STAT2;ENSG00000170581|ENST00000314128|STAT2;ENST00000556539.5_1_12:56737175-56743495:-|nuORF nc|ENSG00000170581|P52630-4|STAT2 nc|ENSG00000170581|P52630-4|STAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.2705078125 2 489.26875 976.522947 3.5855 0.0017543 -0.019248 -9.4176E-06 3.5662 0.0017448 489.26867678959553 31.674 0.52255 31.929 31.648 32.171 0.25452 131 40 4 0 0 0 0.018369 1 14371 14371 88.954 14.531 1 6148400 26082 4759 16852 16910 29617 29617 0.033746516946507654 QPYTKEVL 8 Unmodified _QPYTKEVL_ 0 0 0 nc|ENSG00000170581|P52630-4|STAT2;ENSG00000170581|ENST00000314128|STAT2;ENST00000556539.5_1_12:56737175-56743495:-|nuORF nc|ENSG00000170581|P52630-4|STAT2 nc|ENSG00000170581|P52630-4|STAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.2701721191406 2 489.26875 976.522947 3.2019 0.0015666 0.10425 5.1006E-05 3.3061 0.0016176 489.26878881320016 31.193 0.44665 31.81 31.558 32.005 0.61737 94 29 4 0 0 0 0.018369 1 14315 14315 88.954 14.531 1 7795800 26083 4759 16852 16910 29618 29618 0.033746516946507654 QPYTKEVL 8 Unmodified _QPYTKEVL_ 0 0 0 nc|ENSG00000170581|P52630-4|STAT2;ENSG00000170581|ENST00000314128|STAT2;ENST00000556539.5_1_12:56737175-56743495:-|nuORF nc|ENSG00000170581|P52630-4|STAT2 nc|ENSG00000170581|P52630-4|STAT2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 489.26875 976.522947 3.3067 0.0016179 -0.77231 -0.00037787 2.5344 0.00124 489.26841978737707 31.746 0.23576 31.746 31.615 31.851 0 -0.038986 -0.00057998 NaN 88.954 38 21 3 NaN NaN NaN NaN 0 NaN NaN 0 554030 26084 4759 16852 16910 0.033746516946507654 QQAKRLAQL 9 Unmodified _QQAKRLAQL_ 0 0 0 REV__ENSG00000115514|ENST00000264255|TXNDC9 REV__ENSG00000115514|ENST00000264255|TXNDC9 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 352.2149353027344 3 352.548852 1054.62473 2.3777 0.00083826 -4.0514 -0.0014283 -1.6737 -0.00059006 352.54886014952024 39.224 0.25838 40.021 39.917 40.175 0.79762 23 11 3 0 0 0 0.11236 1 17815 17815 2.9952 1.8019 1 371730 + 26085 11368 16853 16911 29619 29619 0.09959942837076596 QQFRKFCY 8 Unmodified _QQFRKFCY_ 0 0 0 ENST00000589630.1_1_18:32821039-32822911:+|nuORF;nc|ENSG00000186812|Q8NF99-3|ZNF397;nc|ENSG00000186812|Q8NF99-2|ZNF397;ENSG00000186812|ENST00000330501|ZNF397 ENST00000589630.1_1_18:32821039-32822911:+|nuORF ENST00000589630.1_1_18:32821039-32822911:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.2778930664062 2 560.273844 1118.53313 NaN NaN NaN NaN NaN NaN NaN 20.109 1 20.762 20.262 21.262 0.65346 0 0 0 0.99035 1 9129 9129 0.69038 0 1 26086 5585 16854 16912 29620 29620 -0.021390638517459593 QQHQKIIAL 9 Unmodified _QQHQKIIAL_ 0 0 0 ENSG00000123095|ENST00000242728|BHLHE41 ENSG00000123095|ENST00000242728|BHLHE41 ENSG00000123095|ENST00000242728|BHLHE41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 360.2175598144531 3 360.217102 1077.62948 2.475 0.00089155 -0.44015 -0.00015855 2.0349 0.000733 360.2166912860749 28.857 0.2744 29.647 29.499 29.773 0.78921 44 22 3 0 0 0 0.75535 1 12972 12972 8.1555 2.8586 1 573220 26087 2292 16855 16913 29621 29621 0.09376826979860198 QQHQKIIAL 9 Unmodified _QQHQKIIAL_ 0 0 0 ENSG00000123095|ENST00000242728|BHLHE41 ENSG00000123095|ENST00000242728|BHLHE41 ENSG00000123095|ENST00000242728|BHLHE41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.82470703125 2 539.822015 1077.62948 3.3315 0.0017984 0.80571 0.00043494 4.1372 0.0022334 539.8224801906921 29.472 0.28206 29.73 29.595 29.877 0.25804 36 17 3 0 0 0 0.034495 1 13430 13430 42.095 9.7891 1 507780 26088 2292 16855 16913 29622 29622 0.09376826979860198 QQHQKIIAL 9 Unmodified _QQHQKIIAL_ 0 0 0 ENSG00000123095|ENST00000242728|BHLHE41 ENSG00000123095|ENST00000242728|BHLHE41 ENSG00000123095|ENST00000242728|BHLHE41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.8243408203125 2 539.822015 1077.62948 3.3263 0.0017956 0.13955 7.5331E-05 3.4659 0.001871 539.8219915546362 29.131 0.30945 29.749 29.593 29.902 0.61789 37 21 2 0 0 0 0.0095519 2 13337 13337;13389 92.822 48.964 1 901370 26089 2292 16855 16913 29623;29624 29623 0.09376826979860198 QQHQSWLRP 9 Unmodified _QQHQSWLRP_ 0 0 0 nc|ENSG00000104368|P00750-2|PLAT;nc|ENSG00000104368|P00750-4|PLAT;ENSG00000104368|ENST00000220809|PLAT nc|ENSG00000104368|P00750-2|PLAT nc|ENSG00000104368|P00750-2|PLAT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.8724670410156 3 393.872106 1178.59449 2.7249 0.0010733 -1.0237 -0.00040321 1.7012 0.00067004 393.87165776166694 15.433 1.0353 15.739 15.355 16.39 0.306 192 113 2 0 0 0 1.129 1 7141 7141 0.96228 0 1 164420 26090 1434 16856 16914 29625 29625 0.012335841718822849 QQIINRIRP 9 Unmodified _QQIINRIRP_ 0 0 0 REV__ENST00000456064.1_1_20:10594086-10594842:-|nuORF REV__ENST00000456064.1_1_20:10594086-10594842:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.2342529296875 3 379.899885 1136.67783 NaN NaN NaN NaN NaN NaN NaN 64.661 1 64.909 64.409 65.409 0.24803 0 0 0 0.89683 1 29622 29622 2.4985 0 1 + 26091 14495 16857 16915 29626 29626 0.11495320619746963 QQIQKVVM 8 Unmodified _QQIQKVVM_ 0 0 0 ENSG00000161960|ENST00000293831|EIF4A1;ENST00000578324.5_1_17:7477602-7481249:+|nuORF;nc|ENSG00000161960|P60842-2|EIF4A1;ENST00000581621.1_1_17:7476159-7481249:+|nuORF;ENST00000577731.1_1_17:7478540-7480862:+|nuORF;ENST00000584901.5_1_17:7476159-7480015:+|nuORF;ENST00000550578.1_1_12:53547103-53547616:+|nuORF ENSG00000161960|ENST00000293831|EIF4A1 ENSG00000161960|ENST00000293831|EIF4A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2799377441406 2 487.278595 972.542637 3.4656 0.0016887 0.052652 2.5656E-05 3.5183 0.0017144 487.278636197339 30.4 0.35332 30.658 30.49 30.844 0.25804 49 18 4 0 0 0 0.0081859 3 13841 13794;13841;13888 123.1 58.86 1 1967900 26092 4112 16858 16916 29627;29628;29629 29628 0.0552670443378247 QQIQKVVM 8 Unmodified _QQIQKVVM_ 0 0 0 ENSG00000161960|ENST00000293831|EIF4A1;ENST00000578324.5_1_17:7477602-7481249:+|nuORF;nc|ENSG00000161960|P60842-2|EIF4A1;ENST00000581621.1_1_17:7476159-7481249:+|nuORF;ENST00000577731.1_1_17:7478540-7480862:+|nuORF;ENST00000584901.5_1_17:7476159-7480015:+|nuORF;ENST00000550578.1_1_12:53547103-53547616:+|nuORF ENSG00000161960|ENST00000293831|EIF4A1 ENSG00000161960|ENST00000293831|EIF4A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.2787780761719 2 487.278595 972.542637 3.2272 0.0015726 -0.18932 -9.225E-05 3.0379 0.0014803 487.2784078754416 30.071 0.26488 30.688 30.605 30.869 0.61737 42 19 3 0 0 0 0.0090555 2 13782 13782;13833 109.63 59.627 1 2388200 26093 4112 16858 16916 29630;29631 29630 0.0552670443378247 QQKKWKIM 8 Unmodified _QQKKWKIM_ 0 0 0 ENSG00000066279|ENST00000367409|ASPM ENSG00000066279|ENST00000367409|ASPM ENSG00000066279|ENST00000367409|ASPM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.3182373046875 2 545.315512 1088.61647 3.2558 0.0017754 0.79463 0.00043332 4.0504 0.0022088 545.3154324934616 103.08 0.15953 103.08 103 103.16 0 11 6 2 0 0 0 0.7471 1 56849 56849 0.79363 0 1 554540 26094 703 16859 16917 29632 29632 0.07570672596102668 QQKKWKIM 8 Unmodified _QQKKWKIM_ 0 0 0 ENSG00000066279|ENST00000367409|ASPM ENSG00000066279|ENST00000367409|ASPM ENSG00000066279|ENST00000367409|ASPM MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 545.315512 1088.61647 4.3476 0.0023708 1.7051 0.00092979 6.0527 0.0033006 545.3163338820933 102.78 0.16348 103.1 103 103.16 0.31863 -0.086072 -0.0005389 NaN 0.79363 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 1409600 26095 703 16859 16917 0.07570672596102668 QQKKWKIM 8 Unmodified _QQKKWKIM_ 0 0 0 ENSG00000066279|ENST00000367409|ASPM ENSG00000066279|ENST00000367409|ASPM ENSG00000066279|ENST00000367409|ASPM MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 545.315512 1088.61647 3.7231 0.0020303 2.025 0.0011042 5.7481 0.0031345 545.3163873468981 102.76 0.16736 103.35 103.25 103.42 0.59759 0.16377 -0.00019001 NaN 0.79363 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 1184300 26096 703 16859 16917 0.07570672596102668 QQKLVKQLPL 10 Unmodified _QQKLVKQLPL_ 0 0 0 nc|ENSG00000203705|Q17R31-2|TATDN3 nc|ENSG00000203705|Q17R31-2|TATDN3 nc|ENSG00000203705|Q17R31-2|TATDN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 597.8814086914062 2 597.882073 1193.74959 NaN NaN NaN NaN NaN NaN NaN 51.221 1 52.038 51.538 52.538 0.81738 0 0 0 1.0003 1 23333 23333 1.4819 0 1 26097 9811 16860 16918 29633 29633 0.16046815253616842 QQKPLRVG 8 Unmodified _QQKPLRVG_ 0 0 0 ENSG00000142178|ENST00000270162|SIK1 ENSG00000142178|ENST00000270162|SIK1 ENSG00000142178|ENST00000270162|SIK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 309.5371398925781 3 309.190776 924.550499 2.4034 0.00074311 0.7915 0.00024472 3.1949 0.00098783 309.19066541962286 40.661 0.2095 40.93 40.759 40.969 0.26904 11 9 2 0 0 0 0.72814 1 18499 18499 3.5965 0.31518 1 313210 26098 3296 16861 16919 29634 29634 0.08520599745577329 QQLLVRRVGEI 11 Unmodified _QQLLVRRVGEI_ 0 0 0 ENSG00000198198|ENST00000634258|SZT2;nc|ENSG00000198198|Q5T011-5|SZT2 ENSG00000198198|ENST00000634258|SZT2 ENSG00000198198|ENST00000634258|SZT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.9026489257812 2 655.898786 1309.78302 3.8468 0.0025231 1.0867 0.00071278 4.9335 0.0032359 655.8996392064838 49.36 0.37428 49.621 49.408 49.782 0.26146 20 13 2 0 0 0 0.89309 1 22519 22519 2.7352 0.23671 1 698710 26099 5875 16862 16920 29635 29635 0.1405181702552909 QQLTEFETI 9 Unmodified _QQLTEFETI_ 0 0 0 REV__nc|ENSG00000186185|Q86Y91-6|KIF18B REV__nc|ENSG00000186185|Q86Y91-6|KIF18B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.78515625 2 554.779679 1107.5448 3.2921 0.0018264 -3.7852 -0.0020999 -0.49304 -0.00027353 554.778294792015 37.894 0.34631 38.689 38.558 38.904 0.79552 22 11 3 0 0 0 0.59776 1 17250 17250 10.824 0 1 957180 + 26100 18081 16863 16921 29636 29636 -0.00466588347421748 QQMQRHCQR 9 Unmodified _QQMQRHCQR_ 0 0 0 REV__ENST00000590499.1_1_18:48593389-48603623:+|nuORF REV__ENST00000590499.1_1_18:48593389-48603623:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 405.5252990722656 3 405.525836 1213.55568 NaN NaN NaN NaN NaN NaN NaN 37.924 1 37.924 37.424 38.424 0 0 0 0 0.91014 1 17210 17210 1.0715 0.10919 1 + 26101 12303 16864 16922 29637 29637 -0.04255787725787741 QQPEDKLL 8 Unmodified _QQPEDKLL_ 0 0 0 REV__nc|ENSG00000132466|O75179-2|ANKRD17;REV__nc|ENSG00000132466|O75179-4|ANKRD17 REV__nc|ENSG00000132466|O75179-4|ANKRD17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.7654724121094 2 485.763832 969.513111 3.3186 0.0016121 -0.1607 -7.8062E-05 3.1579 0.001534 485.76370712864883 46.635 0.39708 47.287 47.072 47.469 0.65219 36 13 3 0 0 0 0.045071 1 21304 21304 67.344 4.7712 1 4986100 + 26102 11892;17942 16865 16923 29638 29638 0.027134636892810704 QQQLRRRARRR 11 Unmodified _QQQLRRRARRR_ 0 0 0 REV__ENST00000469480.1_1_11:62342568-62343792:-|nuORF REV__ENST00000469480.1_1_11:62342568-62343792:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.9874267578125 4 381.735812 1522.91414 2.5749 0.00098293 -0.59113 -0.00022565 1.9838 0.00075728 381.73537532588387 49.846 0.5009 50.669 50.428 50.929 0.82285 48 23 3 0 0 0 0.91489 2 22691 22691;22744 0 0 1 882320 + 26103 12554 16866 16924 29639;29640 29639 0.1736006523674405 QQQLRRRARRR 11 Unmodified _QQQLRRRARRR_ 0 0 0 REV__ENST00000469480.1_1_11:62342568-62343792:-|nuORF REV__ENST00000469480.1_1_11:62342568-62343792:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.7366638183594 4 381.735812 1522.91414 2.519 0.0009616 -0.4305 -0.00016434 2.0885 0.00079726 381.73541365835547 50.262 0.25532 51.085 50.91 51.165 0.82285 29 13 3 0 0 0 0.91489 1 22917 22917 0 0 1 507450 + 26104 12554 16866 16924 29641 29641 0.1736006523674405 QQQLRRRARRR 11 Unmodified _QQQLRRRARRR_ 0 0 0 REV__ENST00000469480.1_1_11:62342568-62343792:-|nuORF REV__ENST00000469480.1_1_11:62342568-62343792:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.9876708984375 4 381.735812 1522.91414 2.7805 0.0010614 -0.57424 -0.00021921 2.2062 0.0008422 381.98640265441855 50.108 0.89023 50.369 49.903 50.793 0.26146 91 38 4 0 0 0 0.91489 1 22957 22957 0 0 1 1114800 + 26105 12554 16866 16924 29642 29642 0.1736006523674405 QQQRRRRRRRR 11 Unmodified _QQQRRRRRRRR_ 0 0 0 ENST00000405737.2_2_13:41635036-41635183:-|nuORF REV__ENST00000405737.2_2_13:41635036-41635183:-|nuORF REV__ENST00000405737.2_2_13:41635036-41635183:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 826.5017700195312 2 826.504869 1650.99519 NaN NaN NaN NaN NaN NaN NaN 65.911 1 66.62 66.12 67.12 0.70891 0 0 0 1.0082 1 31208 31208 0 0 1 26106 7638 16867 16925 29643 29643 0.19572765999487274 QQRQRRRLP 9 Unmodified _QQRQRRRLP_ 0 0 0 ENST00000298585.2_1_9:140476760-140476931:-|nuORF ENST00000298585.2_1_9:140476760-140476931:-|nuORF ENST00000298585.2_1_9:140476760-140476931:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.25152587890625 3 413.2498 1236.72757 3.7917 0.0015669 0.40139 0.00016587 4.1931 0.0017328 413.24987905801834 97.333 0.36655 97.623 97.406 97.772 0.28923 31 16 2 0 0 0 1.1703 1 44738 44738 1.1933 0 1 1482100 26107 6783 16868 16926 29644 29644 0.11867448348402831 QQRRIRQQRLI 11 Unmodified _QQRRIRQQRLI_ 0 0 0 nc|ENSG00000116698|Q92540-2|SMG7;nc|ENSG00000116698|Q92540|SMG7;nc|ENSG00000116698|Q92540-5|SMG7;nc|ENSG00000116698|Q92540-4|SMG7;ENSG00000116698|ENST00000688051|SMG7 nc|ENSG00000116698|Q92540-2|SMG7 nc|ENSG00000116698|Q92540-2|SMG7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 747.9584350585938 2 747.958032 1493.90151 NaN NaN NaN NaN NaN NaN NaN 78.416 1 78.416 77.916 78.916 0 0 0 0 1.008 1 38536 38536 0.30703 0.03801 1 26108 2043 16869 16927 29645 29645 0.1743160905386958 QQRRRRRRDP 10 Unmodified _QQRRRRRRDP_ 0 0 0 ENST00000508982.1_1_5:64859104-64863443:+|nuORF;ENSG00000113593|ENST00000261308|PPWD1 ENST00000508982.1_1_5:64859104-64863443:+|nuORF ENST00000508982.1_1_5:64859104-64863443:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 356.7115478515625 4 356.7108 1422.81409 2.1815 0.00077817 -0.14713 -5.2482E-05 2.0344 0.00072569 356.96146764087337 62.831 0.56246 62.831 62.683 63.245 0 121 64 3 0 0 0 0.90778 2 29527 29465;29527 3.3196 0.88486 1 11984000 26109 1862 16870 16928 29646;29647 29647 0.11959827902978759 QQRRRRRRDP 10 Unmodified _QQRRRRRRDP_ 0 0 0 ENST00000508982.1_1_5:64859104-64863443:+|nuORF;ENSG00000113593|ENST00000261308|PPWD1 ENST00000508982.1_1_5:64859104-64863443:+|nuORF ENST00000508982.1_1_5:64859104-64863443:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 356.9624328613281 4 356.7108 1422.81409 2.3738 0.00084676 -0.47278 -0.00016864 1.901 0.00067812 356.7105945879948 61.759 0.21397 62.419 62.372 62.586 0.66008 61 39 3 0 0 0 0.93658 1 28281 28281 1.5923 0 1 21093000 26110 1862 16870 16928 29648 29648 0.11959827902978759 QQRRRRRRDP 10 Unmodified _QQRRRRRRDP_ 0 0 0 ENST00000508982.1_1_5:64859104-64863443:+|nuORF;ENSG00000113593|ENST00000261308|PPWD1 ENST00000508982.1_1_5:64859104-64863443:+|nuORF ENST00000508982.1_1_5:64859104-64863443:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 356.7108 1422.81409 1.9101 0.00068136 -0.89324 -0.00031863 1.0169 0.00036273 356.71045612899684 62.085 0.25531 62.816 62.737 62.992 0.73077 -0.094739 -0.000783 NaN 3.3196 51 37 2 NaN NaN NaN NaN 0 NaN NaN 0 8061500 26111 1862 16870 16928 0.11959827902978759 QQRRRRRRDP 10 Unmodified _QQRRRRRRDP_ 0 0 0 ENST00000508982.1_1_5:64859104-64863443:+|nuORF;ENSG00000113593|ENST00000261308|PPWD1 ENST00000508982.1_1_5:64859104-64863443:+|nuORF ENST00000508982.1_1_5:64859104-64863443:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 356.7108 1422.81409 2.4871 0.00088719 -0.2865 -0.0001022 2.2006 0.00078499 356.9614538070859 62.627 0.382 62.877 62.75 63.132 0.24965 -0.03429 8.272E-05 NaN 3.3196 109 50 3 NaN NaN NaN NaN 0 NaN NaN 0 11710000 26112 1862 16870 16928 0.11959827902978759 QQRRRRRRDP 10 Unmodified _QQRRRRRRDP_ 0 0 0 ENST00000508982.1_1_5:64859104-64863443:+|nuORF;ENSG00000113593|ENST00000261308|PPWD1 ENST00000508982.1_1_5:64859104-64863443:+|nuORF ENST00000508982.1_1_5:64859104-64863443:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 356.7108 1422.81409 2.2995 0.00082026 -0.10618 -3.7876E-05 2.1933 0.00078238 356.96153098470165 62.46 0.16155 63.12 63.058 63.22 0.66008 0.20878 0.00034001 NaN 3.3196 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 577620 26113 1862 16870 16928 0.11959827902978759 QQRWALFL 8 Unmodified _QQRWALFL_ 0 0 0 REV__ENST00000397786.6_1_17:60112900-60112957:-|nuORF REV__ENST00000397786.6_1_17:60112900-60112957:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.2996826171875 2 531.298176 1060.5818 3.1773 0.0016881 -0.54584 -0.00029 2.6314 0.0013981 531.2976227906049 59.834 0.28118 60.093 60.021 60.302 0.2593 20 12 2 0 0 0 0.52517 1 27485 27485 19.439 1.304 1 484760 + 26114 16019 16871 16929 29649 29649 0.05393172779645283 QQVKKLSL 8 Unmodified _QQVKKLSL_ 0 0 0 ENST00000460211.5_1_2:242607386-242610957:+|nuORF;ENST00000475693.1_1_2:242607884-242611676:+|nuORF;nc|ENSG00000168397|Q9Y4P1-4|ATG4B;ENST00000482507.5_1_2:242592964-242610957:+|nuORF;nc|ENSG00000168397|Q9Y4P1-6|ATG4B;ENSG00000168397|ENST00000404914|ATG4B;nc|ENSG00000168397|Q9Y4P1-2|ATG4B ENST00000460211.5_1_2:242607386-242610957:+|nuORF;nc|ENSG00000168397|Q9Y4P1-2|ATG4B ENST00000460211.5_1_2:242607386-242610957:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 315.2051696777344 3 315.202682 942.586216 NaN NaN NaN NaN NaN NaN NaN 25.019 1 25.019 24.519 25.519 0 0 0 0 0.99035 1 11237 11237 0.45834 0 1 26115 8070;9745 16872 16930 29650 29650 0.11262637202582937 QQWYNSSM 8 Unmodified _QQWYNSSM_ 0 0 0 ENST00000486172.1_1_3:62385083-62388968:-|nuORF ENST00000486172.1_1_3:62385083-62388968:-|nuORF ENST00000486172.1_1_3:62385083-62388968:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.2176513671875 2 522.216192 1042.41783 3.4019 0.0017765 -0.99917 -0.00052178 2.4027 0.0012547 522.2157309273772 48.67 0.31482 49.497 49.326 49.641 0.82705 41 17 3 0 0 0 0.39589 1 22168 22168 28.487 28.487 1 1042300 26116 8335 16873 16931 29651 29651 -0.1016821277339659 QQWYNSSM 8 Unmodified _QQWYNSSM_ 0 0 0 ENST00000486172.1_1_3:62385083-62388968:-|nuORF ENST00000486172.1_1_3:62385083-62388968:-|nuORF ENST00000486172.1_1_3:62385083-62388968:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 522.216192 1042.41783 3.1598 0.0016501 -0.29979 -0.00015655 2.86 0.0014936 522.2161280548769 49.687 0.37336 49.687 49.5 49.874 0 -0.021508 6.0081E-05 NaN 28.487 44 15 4 NaN NaN NaN NaN 0 NaN NaN 0 1421200 26117 8335 16873 16931 -0.1016821277339659 QQWYNSSM 8 Unmodified _QQWYNSSM_ 0 0 0 ENST00000486172.1_1_3:62385083-62388968:-|nuORF ENST00000486172.1_1_3:62385083-62388968:-|nuORF ENST00000486172.1_1_3:62385083-62388968:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 522.216192 1042.41783 3.4019 0.0017765 -0.99917 -0.00052178 2.4027 0.0012547 522.2157309273772 48.67 0.31482 49.497 49.326 49.641 0.82705 -0.21161 -0.00067037 NaN 28.487 41 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1042300 26118 8335 16873 16931 -0.1016821277339659 QQWYNSSM 8 Unmodified _QQWYNSSM_ 0 0 0 ENST00000486172.1_1_3:62385083-62388968:-|nuORF ENST00000486172.1_1_3:62385083-62388968:-|nuORF ENST00000486172.1_1_3:62385083-62388968:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 522.216192 1042.41783 3.4071 0.0017793 -0.2065 -0.00010784 3.2006 0.0016714 522.2161838955274 49.627 0.35276 49.889 49.698 50.051 0.26146 0.17983 0.00015751 NaN 28.487 33 14 3 NaN NaN NaN NaN 0 NaN NaN 0 829230 26119 8335 16873 16931 -0.1016821277339659 QQWYNSSM 8 Unmodified _QQWYNSSM_ 0 0 0 ENST00000486172.1_1_3:62385083-62388968:-|nuORF ENST00000486172.1_1_3:62385083-62388968:-|nuORF ENST00000486172.1_1_3:62385083-62388968:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 522.216192 1042.41783 3.4383 0.0017955 -0.15787 -8.2442E-05 3.2804 0.0017131 522.2160779262357 49.107 0.28076 49.762 49.635 49.915 0.65524 0.053281 0.00020831 NaN 28.487 19 9 3 NaN NaN NaN NaN 0 NaN NaN 0 726850 26120 8335 16873 16931 -0.1016821277339659 QRAKNRVP 8 Unmodified _QRAKNRVP_ 0 0 0 ENST00000572418.1_1_17:3806502-3807261:-|nuORF ENST00000572418.1_1_17:3806502-3807261:-|nuORF ENST00000572418.1_1_17:3806502-3807261:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.7899169921875 2 484.79105 967.567546 NaN NaN NaN NaN NaN NaN NaN 36.736 1 36.994 36.494 37.494 0.25768 0 0 0 0.99035 1 16733 16733 2.3027 0.24298 1 26121 9098 16874 16932 29652 29652 0.08246520351372055 QRAKNRVP 8 Unmodified _QRAKNRVP_ 0 0 0 ENST00000572418.1_1_17:3806502-3807261:-|nuORF ENST00000572418.1_1_17:3806502-3807261:-|nuORF ENST00000572418.1_1_17:3806502-3807261:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.7902526855469 2 484.79105 967.567546 NaN NaN NaN NaN NaN NaN NaN 47.83 1 48.094 47.594 48.594 0.26363 0 0 0 0.99035 1 21864 21864 2.3027 0 1 26122 9098 16874 16932 29653 29653 0.08246520351372055 QRCVTRPKQ 9 Unmodified _QRCVTRPKQ_ 0 0 0 REV__ENST00000328089.10_1_1:9427712-9428249:+|nuORF REV__ENST00000328089.10_1_1:9427712-9428249:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 372.3420104980469 3 372.541592 1114.60295 NaN NaN NaN NaN NaN NaN NaN 62.423 1 62.423 61.923 62.923 0 0 0 0 0.86621 1 29256 29256 7.1017 1.8048 1 + 26123 15362 16875 16933 29654 29654 0.05022814816857135 QREKEKRGM 9 Unmodified _QREKEKRGM_ 0 0 0 REV__ENST00000393820.2_1_5:170833415-170833475:+|nuORF REV__ENST00000393820.2_1_5:170833415-170833475:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.8772888183594 3 387.876751 1160.60842 NaN NaN NaN NaN NaN NaN NaN 14.924 1 15.231 14.731 15.731 0.3069 0 0 0 0.90965 1 6747 6747 1.1933 0 1 + 26124 15960 16876 16934 29655 29655 0.03454493608683151 QREREQRLEAF 11 Unmodified _QREREQRLEAF_ 0 0 0 ENSG00000130254|ENST00000252542|SAFB2 ENSG00000130254|ENST00000252542|SAFB2 ENSG00000130254|ENST00000252542|SAFB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.59552001953125 3 487.923418 1460.74842 2.5969 0.0012671 0.48556 0.00023691 3.0824 0.001504 488.25819573624244 78.469 0.15591 78.934 78.82 78.976 0.4642 38 14 3 0 0 0 0.89544 1 38122 38122 2.6312 0 1 1870100 26125 2580 16877 16935 29656 29656 0.03647949146784413 QRERRRKELFR 11 Unmodified _QRERRRKELFR_ 0 0 0 nc|ENSG00000119509|Q9Y283-2|INVS;INVS|p.K916Rfs*27|1|0.41|ENSG00000119509|chr9:100293000-100293000|A/-|frameshift_variant;ENSG00000119509|ENST00000262457|INVS nc|ENSG00000119509|Q9Y283-2|INVS nc|ENSG00000119509|Q9Y283-2|INVS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.646728515625 3 525.309718 1572.90732 4.177 0.0021942 -0.49326 -0.00025911 3.6837 0.0019351 525.3092105163715 99.754 0.4091 100.06 99.812 100.22 0.30835 50 22 3 0 0 0 0.91328 1 46047 46047 0.50596 0 1 3197300 26126 2145 16878 16936 29657 29657 0.1437870756551547 QRFREERWRQY 11 Unmodified _QRFREERWRQY_ 0 0 0 REV__ENST00000513799.5_1_5:177019550-177022414:+|nuORF REV__ENST00000513799.5_1_5:177019550-177022414:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.9509887695312 3 551.950078 1652.82841 NaN NaN NaN NaN NaN NaN NaN 84.958 1 84.958 84.458 85.458 0 0 0 0 1.0082 1 43138 43138 0 0 1 + 26127 13988 16879 16937 29658 29658 0.028104355405957904 QRFREERWRQY 11 Unmodified _QRFREERWRQY_ 0 0 0 REV__ENST00000513799.5_1_5:177019550-177022414:+|nuORF REV__ENST00000513799.5_1_5:177019550-177022414:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.951904296875 3 551.950078 1652.82841 NaN NaN NaN NaN NaN NaN NaN 92.477 1 92.56 92.06 93.06 0.082848 0 0 0 1.0082 1 48208 48208 0 0 1 + 26128 13988 16879 16937 29659 29659 0.028104355405957904 QRGHALGG 8 Unmodified _QRGHALGG_ 0 0 0 ENST00000456989.6_1_17:38347644-38348502:+|nuORF ENST00000456989.6_1_17:38347644-38348502:+|nuORF ENST00000456989.6_1_17:38347644-38348502:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.216064453125 2 398.214643 794.414734 2.9212 0.0011633 0.84062 0.00033475 3.7618 0.001498 398.2149824214577 82.988 0.88587 83.235 82.965 83.851 0.24722 77 49 3 0 0 0 0.7471 1 38202 38202 0.79363 0 1 2939500 26129 8056 16880 16938 29660 29660 0.009303249547770065 QRGRLRQLGSR 11 Unmodified _QRGRLRQLGSR_ 0 0 0 REV__ENST00000427220.5_1_3:9852075-9852243:+|nuORF REV__ENST00000427220.5_1_3:9852075-9852243:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.89794921875 2 663.8949 1325.77525 4.1442 0.0027513 0.40444 0.00026851 4.5486 0.0030198 663.8953975828853 94.126 0.82365 94.757 94.395 95.219 0.63115 97 47 3 0 0 0 0.91345 1 43276 43276 0.30703 0 1 1005800 + 26130 16227 16881 16939 29661 29661 0.12539102548566916 QRHRDILQV 9 Unmodified _QRHRDILQV_ 0 0 0 ENST00000491489.6_1_17:28804451-28811878:+|nuORF ENST00000491489.6_1_17:28804451-28811878:+|nuORF ENST00000491489.6_1_17:28804451-28811878:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.8352661132812 2 582.833446 1163.65234 NaN NaN NaN NaN NaN NaN NaN 99.756 1 100.06 99.564 100.56 0.30835 0 0 0 0.89683 1 46110 46110 4.3292 0.38484 1 26131 8394 16882 16940 29662 29662 0.07705846097314861 QRHRHRLWKWS 11 Unmodified _QRHRHRLWKWS_ 0 0 0 REV__ENST00000555122.1_1_14:105406018-105406159:-|nuORF REV__ENST00000555122.1_1_14:105406018-105406159:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 795.439697265625 2 795.437267 1588.85998 NaN NaN NaN NaN NaN NaN NaN 77.213 1 77.774 77.274 78.274 0.56091 0 0 0 1.008 1 37437 37437 0.26902 0.26902 1 + 26132 17316 16883 16941 29663 29663 0.08910473085211379 QRHRRRRH 8 Unmodified _QRHRRRRH_ 0 0 0 REV__ENST00000403681.6_2_12:66218024-66218900:+|nuORF REV__ENST00000403681.6_2_12:66218024-66218900:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 601.6509399414062 2 601.353537 1200.69252 NaN NaN NaN NaN NaN NaN NaN 20.204 1 20.858 20.358 21.358 0.65346 0 0 0 0.99035 1 9173 9173 0.69038 0.088878 1 + 26133 16054 16884 16942 29664 29664 0.1002025033112659 QRHVRLLLP 9 Unmodified _QRHVRLLLP_ 0 0 0 REV__ENST00000461568.5_1_12:1025523-1036092:-|nuORF REV__ENST00000461568.5_1_12:1025523-1036092:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 377.9103088378906 3 377.908492 1130.70365 2.5468 0.00096247 1.5733 0.00059456 4.1201 0.001557 377.909130271577 14.866 0.38907 15.173 15.02 15.409 0.3069 52 36 2 0 0 0 1.1154 1 6744 6744 1.0715 0 1 68611 + 26134 14841 16885 16943 29665 29665 0.14352214862037727 QRIFEWWYFHK 11 Unmodified _QRIFEWWYFHK_ 0 0 0 ENST00000470683.1_1_1:113153424-113161548:-|nuORF;ENST00000477332.5_1_1:113149890-113161548:-|nuORF;ENST00000480988.5_1_1:113119662-113161548:-|nuORF;ENST00000497457.5_1_1:113121036-113161548:-|nuORF ENST00000470683.1_1_1:113153424-113161548:-|nuORF ENST00000470683.1_1_1:113153424-113161548:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 820.3507080078125 2 820.41206 1638.80957 NaN NaN NaN NaN NaN NaN NaN 97.402 1 97.472 96.972 97.972 0.070648 0 0 0 1.0082 1 52064 52064 0 0 1 26135 8177 16886 16944 29666 29666 0.015715059168314838 QRIIKKFQFIK 11 Unmodified _QRIIKKFQFIK_ 0 0 0 ENSG00000278870|ENST00000623849|OR51G1 ENSG00000278870|ENST00000623849|OR51G1 ENSG00000278870|ENST00000623849|OR51G1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 724.9606323242188 2 724.958646 1447.90274 NaN NaN NaN NaN NaN NaN NaN 62.844 1 62.844 62.344 63.344 0 0 0 0 1.008 1 29485 29485 0.30703 0.30703 1 26136 6363 16887 16945 29667 29667 0.1967043037006988 QRILQAIQLL 10 Unmodified _QRILQAIQLL_ 0 0 0 ENST00000552245.5_1_12:99225710-99548222:-|nuORF;nc|ENSG00000185046|Q7Z6G8-8|ANKS1B;nc|ENSG00000185046|Q7Z6G8-10|ANKS1B;nc|ENSG00000185046|Q7Z6G8-7|ANKS1B;nc|ENSG00000185046|Q7Z6G8-2|ANKS1B;nc|ENSG00000185046|Q7Z6G8-5|ANKS1B;nc|ENSG00000185046|Q7Z6G8-4|ANKS1B;nc|ENSG00000185046|Q7Z6G8-3|ANKS1B;nc|ENSG00000185046|Q7Z6G8-6|ANKS1B;nc|ENSG00000185046|Q7Z6G8|ANKS1B;ENSG00000185046|ENST00000683438|ANKS1B ENST00000552245.5_1_12:99225710-99548222:-|nuORF ENST00000552245.5_1_12:99225710-99548222:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.3851928710938 2 598.379697 1194.74484 NaN NaN NaN NaN NaN NaN NaN 34.246 1 34.499 33.999 34.999 0.25389 0 0 0 0.99976 1 15597 15597 1.6526 0 1 26137 5484 16888 16946 29668 29668 0.15525931110846614 QRIRTEEKPYK 11 Unmodified _QRIRTEEKPYK_ 0 0 0 nc|ENSG00000168122|Q9NSJ1|ZNF355P nc|ENSG00000168122|Q9NSJ1|ZNF355P nc|ENSG00000168122|Q9NSJ1|ZNF355P MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 724.4043579101562 2 724.404432 1446.79431 NaN NaN NaN NaN NaN NaN NaN 86.711 1 87.386 86.886 87.886 0.67555 0 0 0 1.0038 1 39945 39945 5.7319 0 1 26138 9742 16889 16947 29669 29669 0.08878594328962208 QRISPRSRRRN 11 Unmodified _QRISPRSRRRN_ 0 0 0 REV__ENST00000476493.5_1_1:33099602-33116090:-|nuORF REV__ENST00000476493.5_1_1:33099602-33116090:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 356.96209716796875 4 357.211904 1424.81851 2.4189 0.00086406 0.89127 0.00031837 3.3102 0.0011824 357.2122827697734 61.506 0.56168 62.167 61.756 62.318 0.66106 71 30 3 0 0 0 0.13295 1 28237 28237 2.4348 0.69251 1 7048900 + 26139 16655 16890 16948 29670 29670 0.1230929232588096 QRKHFVLL 8 Unmodified _QRKHFVLL_ 0 0 0 ENSG00000119906|ENST00000238961|SLF2;nc|ENSG00000119906|Q8IX21-2|SLF2 ENSG00000119906|ENST00000238961|SLF2 ENSG00000119906|ENST00000238961|SLF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.55145263671875 3 347.550304 1039.62908 2.2844 0.00079396 0.70599 0.00024537 2.9904 0.0010393 347.55036940519227 14.763 0.33068 15.07 14.976 15.307 0.3069 41 29 2 0 0 0 0.68959 1 6680 6680 6.7232 6.7232 1 122840 26140 2170 16891 16949 29671 29671 0.11085452050656386 QRKKLPRPV 9 Unmodified _QRKKLPRPV_ 0 0 0 REV__ENST00000582478.5_1_17:80008786-80009642:-|nuORF REV__ENST00000582478.5_1_17:80008786-80009642:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.3657836914062 2 561.366924 1120.7193 NaN NaN NaN NaN NaN NaN NaN 42.771 1 43.042 42.542 43.542 0.27021 0 0 0 0.86044 1 19511 19511 7.2892 1.0834 1 + 26141 17517 16892 16950 29672 29672 0.1637650137909077 QRKKLPRPV 9 Unmodified _QRKKLPRPV_ 0 0 0 REV__ENST00000582478.5_1_17:80008786-80009642:-|nuORF REV__ENST00000582478.5_1_17:80008786-80009642:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.3673706054688 2 561.366924 1120.7193 NaN NaN NaN NaN NaN NaN NaN 41.578 1 42.222 41.722 42.722 0.64451 0 0 0 0.8984 1 19020 19020 3.9444 2.1002 1 + 26142 17517 16892 16950 29673 29673 0.1637650137909077 QRKLKVTI 8 Unmodified _QRKLKVTI_ 0 0 0 ENST00000482015.5_1_7:48134363-48146493:+|nuORF ENST00000482015.5_1_7:48134363-48146493:+|nuORF ENST00000482015.5_1_7:48134363-48146493:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 329.2225646972656 3 329.222076 984.6444 1.8585 0.00061186 -0.030864 -1.0161E-05 1.8277 0.0006017 329.2220378160013 12.677 0.07485 12.938 12.901 12.976 0.26154 18 7 3 0 0 0 0.60101 1 5506 5506 13.906 0 1 3743400 26143 8300 16893 16951 29674 29674 0.15146318847837392 QRKMGKNRL 9 Unmodified _QRKMGKNRL_ 0 0 0 REV__ENST00000423538.6_1_1:156182331-156182481:+|nuORF REV__ENST00000423538.6_1_1:156182331-156182481:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 377.57373046875 3 377.557353 1129.65023 2.537 0.00095786 0.16379 6.1838E-05 2.7008 0.0010197 377.5571929199486 14.365 0.099976 14.671 14.632 14.732 0.3069 5 3 2 0 0 0 0.1038 1 6511 6511 7.1017 0.47135 1 372480 + 26144 16193 16894 16952 29675 29675 0.09059094087888298 QRKNKFMKK 9 Unmodified _QRKNKFMKK_ 0 0 0 nc|ENSG00000188687|Q9BY07-6|SLC4A5;nc|ENSG00000188687|Q9BY07-4|SLC4A5;nc|ENSG00000188687|Q9BY07-8|SLC4A5;ENST00000451608.2_1_2:74452054-74542150:-|nuORF;ENSG00000188687|ENST00000394019|SLC4A5;nc|ENSG00000188687|Q9BY07|SLC4A5;nc|ENSG00000188687|Q9BY07-2|SLC4A5;ENST00000483195.5_1_2:74452054-74512997:-|nuORF;nc|ENSG00000188687|Q9BY07-5|SLC4A5;nc|ENSG00000188687|Q9BY07-7|SLC4A5 nc|ENSG00000188687|Q9BY07-6|SLC4A5 nc|ENSG00000188687|Q9BY07-6|SLC4A5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.3599853515625 2 604.358242 1206.70193 3.1329 0.0018934 -0.45171 -0.000273 2.6812 0.0016204 604.3579807006727 100.78 0.53903 100.78 100.72 101.26 0 61 27 3 0 0 0 0.98132 1 55887 55887 4.3292 2.6766 1 5237300 26145 5677 16895 16953 29676 29676 0.10684837781764145 QRKRKLKRKKD 11 Unmodified _QRKRKLKRKKD_ 0 0 0 nc|ENSG00000080854|Q9UPX0|IGSF9B;ENSG00000080854|ENST00000533871|IGSF9B nc|ENSG00000080854|Q9UPX0|IGSF9B nc|ENSG00000080854|Q9UPX0|IGSF9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 742.4863891601562 2 742.486425 1482.9583 NaN NaN NaN NaN NaN NaN NaN 67.184 1 67.184 66.684 67.684 0 0 0 0 1.0082 1 32167 32167 0 0 1 26146 914 16896 16954 29677 29677 0.2361365661038235 QRKSDLSL 8 Unmodified _QRKSDLSL_ 0 0 0 REV__nc|ENSG00000015520|Q9UHC9-4|NPC1L1 REV__nc|ENSG00000015520|Q9UHC9-4|NPC1L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 316.18255615234375 3 316.182058 945.524344 2.1569 0.00068197 0.97246 0.00030748 3.1294 0.00098945 316.18250155926836 19.738 0.12863 19.738 19.679 19.808 0 16 10 2 0 0 0 0.57648 1 8805 8805 17.113 4.8722 1 1073000 + 26147 10255 16897 16955 29678 29678 0.049402857834252245 QRKYFKEAL 9 Unmodified _QRKYFKEAL_ 0 0 0 nc|ENSG00000078618|O43847-2|NRDC;ENSG00000078618|ENST00000352171|NRDC nc|ENSG00000078618|O43847-2|NRDC nc|ENSG00000078618|O43847-2|NRDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.8941345214844 3 394.892507 1181.65569 2.7937 0.0011032 0.59224 0.00023387 3.386 0.0013371 394.89273961511395 19.62 0.19533 19.912 19.78 19.975 0.29239 25 15 2 0 0 0 0.27958 1 8933 8933 18.146 7.9958 1 305810 26148 880 16898 16956 29679 29679 0.07213096151326681 QRKYFKEAL 9 Unmodified _QRKYFKEAL_ 0 0 0 nc|ENSG00000078618|O43847-2|NRDC;ENSG00000078618|ENST00000352171|NRDC nc|ENSG00000078618|O43847-2|NRDC nc|ENSG00000078618|O43847-2|NRDC MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 394.892507 1181.65569 3.0038 0.0011862 0.3482 0.0001375 3.352 0.0013237 394.8925663050919 19.167 0.18034 19.825 19.737 19.918 0.65829 -0.043361 -0.00015354 NaN 18.146 20 13 2 NaN NaN NaN NaN 0 NaN NaN 0 235720 26149 880 16898 16956 0.07213096151326681 QRLAVQQV 8 Unmodified _QRLAVQQV_ 0 0 0 ENSG00000173905|ENST00000470487|GOLIM4 ENSG00000173905|ENST00000470487|GOLIM4 ENSG00000173905|ENST00000470487|GOLIM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.2821044921875 2 471.279983 940.545414 NaN NaN NaN NaN NaN NaN NaN 88.241 1 88.491 87.991 88.991 0.25064 0 0 0 0.99035 1 40603 40603 2.3027 0 1 26150 4958 16899 16957 29680 29680 0.07276295882957129 QRLHYIKL 8 Unmodified _QRLHYIKL_ 0 0 0 REV__ENSG00000143061|ENST00000369486|IGSF3 REV__ENSG00000143061|ENST00000369486|IGSF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.82763671875 2 535.827101 1069.63965 NaN NaN NaN NaN NaN NaN NaN 84.231 1 84.894 84.394 85.394 0.66219 0 0 0 0.99035 1 38799 38799 0.69038 0 1 + 26151 12353 16900 16958 29681 29681 0.10761434705068496 QRLKEHIIGQ 10 Unmodified _QRLKEHIIGQ_ 0 0 0 nc|ENSG00000162129|Q9H078-5|CLPB;nc|ENSG00000162129|Q9H078-3|CLPB;nc|ENSG00000162129|Q9H078-4|CLPB;ENSG00000162129|ENST00000538039|CLPB;nc|ENSG00000162129|Q9H078|CLPB nc|ENSG00000162129|Q9H078-5|CLPB nc|ENSG00000162129|Q9H078-5|CLPB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.3582763671875 2 611.356754 1220.69895 3.7249 0.0022773 -0.35511 -0.0002171 3.3698 0.0020602 611.3563796151667 89.549 1.5947 90.227 89.501 91.096 0.67818 190 72 4 0 0 0 0.93713 1 41480 41480 1.4819 0 1 4220300 26152 4122 16901 16959 29682 29682 0.09743285928584555 QRLLLEKRQ 9 Unmodified _QRLLLEKRQ_ 0 0 0 TULP3|p.A119Lfs*19|1|0.31|ENSG00000078246|chr12:2922362-2922362|T/-|frameshift_variant;nc|ENSG00000078246|O75386-3|TULP3;ENSG00000078246|ENST00000448120|TULP3;nc|ENSG00000078246|O75386-2|TULP3 TULP3|p.A119Lfs*19|1|0.31|ENSG00000078246|chr12:2922362-2922362|T/-|frameshift_variant TULP3|p.A119Lfs*19|1|0.31|ENSG00000078246|chr12:2922362-2922362|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.2481994628906 3 395.247173 1182.71969 2.7472 0.0010858 -0.16079 -6.3552E-05 2.5864 0.0010223 395.2471477272661 15.527 0.89386 15.833 15.455 16.349 0.306 211 100 3 0 0 0 1.2126 1 7238 7238 0.23584 0 1 119180 26153 873 16902 16960 29683 29683 0.1356387630826248 QRLQKQLT 8 Unmodified _QRLQKQLT_ 0 0 0 ENSG00000101997|ENST00000376227|CCDC22 ENSG00000101997|ENST00000376227|CCDC22 ENSG00000101997|ENST00000376227|CCDC22 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.8055725097656 2 507.806365 1013.59818 NaN NaN NaN NaN NaN NaN NaN 87.541 1 87.541 87.041 88.041 0 0 0 0 0.97647 1 45175 45175 7.2892 0.56607 1 26154 1325 16903 16961 29684 29684 0.09192253945752782 QRLQRRQLWWR 11 Unmodified _QRLQRRQLWWR_ 0 0 0 REV__ENST00000262919.9_1_20:3451704-3451788:+|nuORF REV__ENST00000262919.9_1_20:3451704-3451788:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 813.1709594726562 2 813.466024 1624.9175 NaN NaN NaN NaN NaN NaN NaN 106.81 1 107.12 106.62 107.62 0.31628 0 0 0 1.0082 1 49282 49282 0 0 1 + 26155 14993 16904 16962 29685 29685 0.130033152907572 QRLRDAAI 8 Unmodified _QRLRDAAI_ 0 0 0 ENSG00000167306|ENST00000285039|MYO5B;nc|ENSG00000167306|Q9ULV0-2|MYO5B ENSG00000167306|ENST00000285039|MYO5B ENSG00000167306|ENST00000285039|MYO5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.8549499511719 3 314.854164 941.540663 2.0552 0.0006471 0.50731 0.00015973 2.5626 0.00080683 314.85430965080485 14.973 0.56198 15.28 15.045 15.607 0.3069 151 55 4 0 0 0 0.45037 1 6830 6830 25.399 0 1 852960 26156 4543 16905 16963 29686 29686 0.06755411740175532 QRLRLRRRQRE 11 Unmodified _QRLRLRRRQRE_ 0 0 0 ENSG00000160716|ENST00000368476|CHRNB2 ENSG00000160716|ENST00000368476|CHRNB2 ENSG00000160716|ENST00000368476|CHRNB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 783.97998046875 2 783.97983 1565.94511 NaN NaN NaN NaN NaN NaN NaN 70.976 1 70.976 70.476 71.476 0 0 0 0 1.008 1 34484 34484 0.26902 0 1 26157 4075 16906 16964 29687 29687 0.1847721855101554 QRLSNLVTPRL 11 Unmodified _QRLSNLVTPRL_ 0 0 0 REV__nc|ENSG00000009950|Q9NP71-4|MLXIPL REV__nc|ENSG00000009950|Q9NP71-4|MLXIPL MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 324.69970703125 4 324.949119 1295.76737 2.2091 0.00071784 0.92105 0.00029929 3.1301 0.0010171 324.9493802406725 41.308 0.077854 42.111 42.052 42.13 0.8035 7 4 2 0 0 0 0.13295 1 18737 18737 1.0136 0 1 452230 + 26158 10218 16907 16965 29688 29688 0.13131530508462674 QRLWVFERYRR 11 Unmodified _QRLWVFERYRR_ 0 0 0 REV__SNX10|p.S135Lfs*17|1|0.33|ENSG00000086300|chr7:26371910-26371910|T/-|frameshift_variant REV__SNX10|p.S135Lfs*17|1|0.33|ENSG00000086300|chr7:26371910-26371910|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 804.94921875 2 804.947133 1607.87971 NaN NaN NaN NaN NaN NaN NaN 90.166 1 90.417 89.917 90.917 0.25137 0 0 0 1.008 1 41463 41463 0.30703 0.30703 1 + 26159 10057 16908 16966 29689 29689 0.10008804305311969 QRMKGHNPAL 10 Unmodified _QRMKGHNPAL_ 0 0 0 REV__ENST00000556977.5_1_14:76127598-76129466:+|nuORF REV__ENST00000556977.5_1_14:76127598-76129466:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.3096313476562 2 576.308749 1150.60295 NaN NaN NaN NaN NaN NaN NaN 70.102 1 70.359 69.859 70.859 0.25642 0 0 0 0.96627 1 32103 32103 10.824 0 1 + 26160 17330 16909 16967 29690 29690 0.03366814816877195 QRMLIIRCL 9 Unmodified _QRMLIIRCL_ 0 0 0 ENSG00000118997|ENST00000312428|DNAH7 ENSG00000118997|ENST00000312428|DNAH7 ENSG00000118997|ENST00000312428|DNAH7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 382.56219482421875 3 382.559706 1144.65729 NaN NaN NaN NaN NaN NaN NaN 34.303 1 34.303 33.803 34.803 0 0 0 0 0.8984 1 15548 15548 2.2828 0 1 26161 2130 16910 16968 29691 29691 0.09074690644092698 QRNEVVVEL 9 Unmodified _QRNEVVVEL_ 0 0 0 ENSG00000186432|ENST00000334256|KPNA4 ENSG00000186432|ENST00000334256|KPNA4 ENSG00000186432|ENST00000334256|KPNA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.3029174804688 2 543.301113 1084.58767 3.5908 0.0019509 -0.32101 -0.0001744 3.2698 0.0017765 543.3011833101365 46.933 0.18524 47.197 47.094 47.28 0.26363 7 5 2 0 0 0 0.17594 1 21475 21475 24.991 0.97039 1 289870 26162 5569 16911 16969 29692 29692 0.048762265006644157 QRNQKFLR 8 Unmodified _QRNQKFLR_ 0 0 0 ENST00000398497.2_1_21:43422514-43422670:-|nuORF ENST00000398497.2_1_21:43422514-43422670:-|nuORF ENST00000398497.2_1_21:43422514-43422670:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.3185424804688 2 545.317432 1088.62031 1.8959 0.0010339 -0.69992 -0.00038168 1.196 0.0006522 545.3168812823398 103.17 0.26254 103.22 103.08 103.34 0.055092 18 11 2 0 0 0 0.7471 1 55959 55959 0.69038 0.088878 1 579260 26163 7592 16912 16970 29693 29693 0.07954478414171717 QRPGFAIWAPL 11 Unmodified _QRPGFAIWAPL_ 0 0 0 nc|ENSG00000290618|P0DPF6|CDRT15P3 nc|ENSG00000290618|P0DPF6|CDRT15P3 nc|ENSG00000290618|P0DPF6|CDRT15P3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 628.3523559570312 2 628.35094 1254.68733 NaN NaN NaN NaN NaN NaN NaN 82.002 1 82.002 81.502 82.502 0 0 0 0 1.0038 1 40922 40922 5.7319 1.7875 1 26164 9880 16913 16971 29694 29694 0.07017088905286073 QRPLFTCL 8 Unmodified _QRPLFTCL_ 0 0 0 SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|24|2|sense SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|24|2|sense SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|24|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.26373291015625 2 489.265487 976.516422 3.2784 0.001604 -0.13866 -6.7842E-05 3.1397 0.0015362 489.265312805178 50.631 0.30654 50.631 50.461 50.767 0 32 18 2 0 0 0 0.45037 1 23150 23150 24.674 1.5255 1 1423300 26165 18262 16914 16972 29695 29695 0.02722435262307954 QRPLFTCL 8 Unmodified _QRPLFTCL_ 0 0 0 SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|24|2|sense SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|24|2|sense SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|24|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.2668151855469 2 489.265487 976.516422 3.0667 0.0015004 -0.30765 -0.00015052 2.7591 0.0013499 489.2653937217985 50.45 0.54836 50.712 50.415 50.964 0.26146 76 24 4 0 0 0 0.45037 1 23119 23119 24.674 1.5255 1 7295000 26166 18262 16914 16972 29696 29696 0.02722435262307954 QRPPGRRF 8 Unmodified _QRPPGRRF_ 0 0 0 REV__ENST00000442962.2_1_9:112295731-112296019:-|nuORF REV__ENST00000442962.2_1_9:112295731-112296019:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.5309143066406 3 338.529903 1012.56788 2.7199 0.00092075 0.83057 0.00028117 3.5504 0.0012019 338.53014143687955 5.08 0.38498 5.703 5.5586 5.9436 0.62294 54 34 2 0 0 0 0.7471 1 2306 2306 0.45834 0 1 54481 + 26167 16357 16915 16973 29697 29697 0.062099400712327224 QRPPTIVL 8 Unmodified _QRPPTIVL_ 0 0 0 nc|ENSG00000131263|Q9NVW2-2|RLIM;ENSG00000131263|ENST00000332687|RLIM nc|ENSG00000131263|Q9NVW2-2|RLIM nc|ENSG00000131263|Q9NVW2-2|RLIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 462.2889404296875 2 462.287277 922.560001 2.7787 0.0012845 0.51368 0.00023747 3.2923 0.001522 462.28749694155755 48.924 0.46861 48.924 48.665 49.134 0 67 26 4 0 0 0 0.022274 2 22419 22419;22472 85.357 27.885 1 2905800 26168 2650 16916 16974 29698;29699 29698 0.09562368031083679 QRPPTIVL 8 Unmodified _QRPPTIVL_ 0 0 0 nc|ENSG00000131263|Q9NVW2-2|RLIM;ENSG00000131263|ENST00000332687|RLIM nc|ENSG00000131263|Q9NVW2-2|RLIM nc|ENSG00000131263|Q9NVW2-2|RLIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 462.28857421875 2 462.287277 922.560001 2.7012 0.0012487 0.12365 5.7162E-05 2.8249 0.0013059 462.28736682775695 47.852 0.4516 48.681 48.424 48.875 0.82915 49 19 3 0 0 0 0.033633 3 21802 21749;21802;21856 74.423 23.568 1 2305300 26169 2650 16916 16974 29700;29701;29702 29701 0.09562368031083679 QRPPTIVL 8 Unmodified _QRPPTIVL_ 0 0 0 nc|ENSG00000131263|Q9NVW2-2|RLIM;ENSG00000131263|ENST00000332687|RLIM nc|ENSG00000131263|Q9NVW2-2|RLIM nc|ENSG00000131263|Q9NVW2-2|RLIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.288818359375 2 462.287277 922.560001 2.8668 0.0013253 0.41496 0.00019183 3.2818 0.0015171 462.2873719553382 48.704 0.39851 48.966 48.745 49.143 0.26209 44 16 3 0 0 0 0.029979 2 22230 22230;22285 77.984 28.315 1 3957300 26170 2650 16916 16974 29703;29704 29703 0.09562368031083679 QRPPTIVL 8 Unmodified _QRPPTIVL_ 0 0 0 nc|ENSG00000131263|Q9NVW2-2|RLIM;ENSG00000131263|ENST00000332687|RLIM nc|ENSG00000131263|Q9NVW2-2|RLIM nc|ENSG00000131263|Q9NVW2-2|RLIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 462.28851318359375 2 462.287277 922.560001 2.9397 0.001359 0.45964 0.00021249 3.3994 0.0015715 462.2874528669504 48.059 0.53087 48.712 48.432 48.963 0.65356 53 20 4 0 0 0 0.029979 2 21998 21998;22050 77.984 27.129 1 2497300 26171 2650 16916 16974 29705;29706 29705 0.09562368031083679 QRQDIAFAY 9 Unmodified _QRQDIAFAY_ 0 0 0 ENSG00000182718|ENST00000451270|ANXA2;nc|ENSG00000182718|P07355-2|ANXA2;ENST00000557937.5_1_15:60655071-60678274:-|nuORF ENSG00000182718|ENST00000451270|ANXA2 ENSG00000182718|ENST00000451270|ANXA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.2821655273438 2 556.28018 1110.54581 3.3404 0.0018582 -0.3491 -0.0001942 2.9913 0.001664 556.2799570651811 46.353 0.24129 46.353 46.223 46.464 0 21 12 2 0 0 0 0.0081238 1 21203 21203 85.272 17.191 1 1938400 26172 5346 16917 16975 29707 29707 -0.00504329187856456 QRQDIAFAY 9 Unmodified _QRQDIAFAY_ 0 0 0 ENSG00000182718|ENST00000451270|ANXA2;nc|ENSG00000182718|P07355-2|ANXA2;ENST00000557937.5_1_15:60655071-60678274:-|nuORF ENSG00000182718|ENST00000451270|ANXA2 ENSG00000182718|ENST00000451270|ANXA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.28125 2 556.28018 1110.54581 NaN NaN NaN NaN NaN NaN NaN 46.458 1 46.458 45.958 46.958 0 0 0 0 0.46004 1 21265 21265 20.415 2.2682 1 26173 5346 16917 16975 29708 29708 -0.00504329187856456 QRQDIAFAY 9 Unmodified _QRQDIAFAY_ 0 0 0 ENSG00000182718|ENST00000451270|ANXA2;nc|ENSG00000182718|P07355-2|ANXA2;ENST00000557937.5_1_15:60655071-60678274:-|nuORF ENSG00000182718|ENST00000451270|ANXA2 ENSG00000182718|ENST00000451270|ANXA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 556.281494140625 2 556.28018 1110.54581 3.2462 0.0018058 -0.45937 -0.00025554 2.7869 0.0015503 556.2797996095449 45.255 0.2989 46.081 45.896 46.195 0.82621 35 18 3 0 0 0 0.017293 1 20620 20620 71.922 17.149 1 972260 26174 5346 16917 16975 29709 29709 -0.00504329187856456 QRQDIAFAY 9 Unmodified _QRQDIAFAY_ 0 0 0 ENSG00000182718|ENST00000451270|ANXA2;nc|ENSG00000182718|P07355-2|ANXA2;ENST00000557937.5_1_15:60655071-60678274:-|nuORF ENSG00000182718|ENST00000451270|ANXA2 ENSG00000182718|ENST00000451270|ANXA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.2815551757812 2 556.28018 1110.54581 3.6588 0.0020353 -0.76821 -0.00042734 2.8906 0.001608 556.2796738517967 46.351 0.38506 46.617 46.424 46.809 0.26561 37 14 3 0 0 0 0.0013631 2 21195 21138;21195 115.69 60.918 1 1971800 26175 5346 16917 16975 29710;29711 29711 -0.00504329187856456 QRQDIAFAY 9 Unmodified _QRQDIAFAY_ 0 0 0 ENSG00000182718|ENST00000451270|ANXA2;nc|ENSG00000182718|P07355-2|ANXA2;ENST00000557937.5_1_15:60655071-60678274:-|nuORF ENSG00000182718|ENST00000451270|ANXA2 ENSG00000182718|ENST00000451270|ANXA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.281982421875 2 556.28018 1110.54581 3.7979 0.0021127 -0.42865 -0.00023845 3.3692 0.0018742 556.2798486524453 45.743 0.40607 46.394 46.194 46.6 0.65104 33 13 3 0 0 0 0.0012577 2 20986 20929;20986 123.45 45.301 1 1448700 26176 5346 16917 16975 29712;29713 29713 -0.00504329187856456 QRQSVLQKKPK 11 Unmodified _QRQSVLQKKPK_ 0 0 0 ENST00000490957.5_1_7:11013950-11101713:+|nuORF;nc|ENSG00000106443|O94880-1|PHF14;ENSG00000106443|ENST00000634607|PHF14;nc|ENSG00000106443|O94880-2|PHF14 ENST00000490957.5_1_7:11013950-11101713:+|nuORF ENST00000490957.5_1_7:11013950-11101713:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 670.4094848632812 2 670.41206 1338.80957 NaN NaN NaN NaN NaN NaN NaN 100.8 1 101.11 100.61 101.61 0.31412 0 0 0 1.0063 1 46644 46644 2.4985 0 1 26177 1571 16918 16976 29714 29714 0.1537150591682348 QRREQRRQRKE 11 Unmodified _QRREQRRQRKE_ 0 0 0 REV__ENST00000562235.5_1_16:67262534-67263013:+|nuORF REV__ENST00000562235.5_1_16:67262534-67263013:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.965087890625 3 523.96461 1568.872 3.0144 0.0015795 -2.5591 -0.0013409 0.45529 0.00023856 523.9636593188261 55.683 0.15799 56.47 56.375 56.533 0.78711 15 11 2 0 0 0 0.90332 1 25435 25435 0.92553 0.41958 1 2788000 + 26178 17380 16919 16977 29715 29715 0.11032045037745775 QRRHILQHSSF 11 Unmodified _QRRHILQHSSF_ 0 0 0 REV__ENST00000479663.2_1_1:160784551-160784725:+|nuORF REV__ENST00000479663.2_1_1:160784551-160784725:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.2578125 3 470.256731 1407.74836 2.9646 0.0013941 -0.52193 -0.00024544 2.4427 0.0011487 470.2564763216467 26.552 0.20689 26.552 26.435 26.642 0 40 19 3 0 0 0 0.86186 1 11975 11975 4.1166 1.6818 1 1353300 + 26179 16678 16920 16978 29716 29716 0.060799939374192036 QRRIPQLPK 9 Unmodified _QRRIPQLPK_ 0 0 0 REV__ENST00000040738.9_1_4:13571293-13571365:-|nuORF REV__ENST00000040738.9_1_4:13571293-13571365:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.2285461425781 3 379.24013 1134.69856 NaN NaN NaN NaN NaN NaN NaN 55.213 1 56 55.5 56.5 0.78711 0 0 0 0.91014 1 25204 25204 1.0715 0 1 + 26180 14779 16921 16979 29717 29717 0.13659910999399472 QRRKKRRLKKR 11 Unmodified _QRRKKRRLKKR_ 0 0 0 ENST00000573539.5_1_17:3442880-3458098:-|nuORF;nc|ENSG00000167723|Q8NET8-3|TRPV3;ENSG00000167723|ENST00000576742|TRPV3;nc|ENSG00000167723|Q8NET8-2|TRPV3 ENST00000573539.5_1_17:3442880-3458098:-|nuORF ENST00000573539.5_1_17:3442880-3458098:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 776.6382446289062 2 777.026583 1552.03861 NaN NaN NaN NaN NaN NaN NaN 99.393 1 99.393 98.893 99.893 0 0 0 0 1.0082 1 54651 54651 0 0 1 26181 4577 16922 16980 29718 29718 0.2846756272408584 QRRKKRRLKKR 11 Unmodified _QRRKKRRLKKR_ 0 0 0 ENST00000573539.5_1_17:3442880-3458098:-|nuORF;nc|ENSG00000167723|Q8NET8-3|TRPV3;ENSG00000167723|ENST00000576742|TRPV3;nc|ENSG00000167723|Q8NET8-2|TRPV3 ENST00000573539.5_1_17:3442880-3458098:-|nuORF ENST00000573539.5_1_17:3442880-3458098:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 776.6946411132812 2 777.026583 1552.03861 NaN NaN NaN NaN NaN NaN NaN 52.949 1 53.753 53.253 54.253 0.80351 0 0 0 1.0082 1 24131 24131 0 0 1 26182 4577 16922 16980 29719 29719 0.2846756272408584 QRRKKRRLKKR 11 Unmodified _QRRKKRRLKKR_ 0 0 0 ENST00000573539.5_1_17:3442880-3458098:-|nuORF;nc|ENSG00000167723|Q8NET8-3|TRPV3;ENSG00000167723|ENST00000576742|TRPV3;nc|ENSG00000167723|Q8NET8-2|TRPV3 ENST00000573539.5_1_17:3442880-3458098:-|nuORF ENST00000573539.5_1_17:3442880-3458098:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 777.0257568359375 2 777.026583 1552.03861 NaN NaN NaN NaN NaN NaN NaN 78.708 1 78.959 78.459 79.459 0.25127 0 0 0 1.0082 1 36244 36244 0 0 1 26183 4577 16922 16980 29720 29720 0.2846756272408584 QRRLIRFKLRL 11 Unmodified _QRRLIRFKLRL_ 0 0 0 REV__ENST00000379235.5_1_9:33927886-33928030:-|nuORF REV__ENST00000379235.5_1_9:33927886-33928030:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 749.7201538085938 2 749.993886 1497.97322 NaN NaN NaN NaN NaN NaN NaN 79.161 1 79.625 79.125 80.125 0.4642 0 0 0 1.0082 1 38638 38638 0 0 1 + 26184 15863 16923 16981 29721 29721 0.24415148478396986 QRRLKLFARR 10 Unmodified _QRRLKLFARR_ 0 0 0 REV__nc|ENSG00000148408|Q00975-2|CACNA1B REV__nc|ENSG00000148408|Q00975-2|CACNA1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 672.4274291992188 2 672.428379 1342.8422 NaN NaN NaN NaN NaN NaN NaN 80.817 1 81.065 80.565 81.565 0.24803 0 0 0 1.0015 1 37210 37210 0.40072 0 1 + 26185 12536 16924 16982 29722 29722 0.18449757830330782 QRRLLHRKKRL 11 Unmodified _QRRLLHRKKRL_ 0 0 0 REV__ENSG00000178605|ENST00000326153|GTPBP6 REV__ENSG00000178605|ENST00000326153|GTPBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 752.494140625 2 752.494585 1502.97462 NaN NaN NaN NaN NaN NaN NaN 104.44 1 105.04 104.54 105.54 0.59885 0 0 0 1.0082 1 48260 48260 0 0 1 + 26186 13767 16925 16983 29723 29723 0.2432478256714603 QRRLTNSKSKK 11 Unmodified _QRRLTNSKSKK_ 0 0 0 ENST00000304449.5_2_X:118723709-118723787:-|nuORF ENST00000304449.5_2_X:118723709-118723787:-|nuORF ENST00000304449.5_2_X:118723709-118723787:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 673.4042358398438 2 673.404766 1344.79498 NaN NaN NaN NaN NaN NaN NaN 101.94 1 102.26 101.76 102.76 0.31737 0 0 0 1.0073 1 47164 47164 1.1933 0 1 26187 6827 16926 16984 29724 29724 0.13637433768667506 QRRQLWWWRRR 11 Unmodified _QRRQLWWWRRR_ 0 0 0 REV__ENST00000591247.5_1_17:42113394-42113565:-|nuORF REV__ENST00000591247.5_1_17:42113394-42113565:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 863.984130859375 2 863.984915 1725.95528 NaN NaN NaN NaN NaN NaN NaN 93.813 1 93.899 93.399 94.399 0.086212 0 0 0 1.0082 1 49235 49235 0 0 1 + 26188 17582 16927 16985 29725 29725 0.12133826276203763 QRRQRQRQWQW 11 Unmodified _QRRQRQRQWQW_ 0 0 0 ENST00000247706.3_1_19:17411946-17414055:-|nuORF ENST00000247706.3_1_19:17411946-17414055:-|nuORF ENST00000247706.3_1_19:17411946-17414055:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.631103515625 3 552.629451 1654.86652 NaN NaN NaN NaN NaN NaN NaN 35.394 1 35.394 34.894 35.894 0 0 0 0 1.0082 1 16060 16060 0.094841 0.094841 1 26189 6496 16928 16986 29726 29726 0.06528366245925099 QRRQRRWEDIF 11 Unmodified _QRRQRRWEDIF_ 0 0 0 nc|ENSG00000123572|Q7Z2Y5-2|NRK;ENSG00000123572|ENST00000243300|NRK nc|ENSG00000123572|Q7Z2Y5-2|NRK nc|ENSG00000123572|Q7Z2Y5-2|NRK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 795.8576049804688 2 795.424022 1588.83349 NaN NaN NaN NaN NaN NaN NaN 44.726 1 45.376 44.876 45.876 0.64998 0 0 0 1.008 1 20500 20500 0.35063 0.043601 1 26190 2320 16929 16987 29727 29727 0.0626273940322335 QRRQYLLRLK 10 Unmodified _QRRQYLLRLK_ 0 0 0 nc|ENSG00000155893|Q8TE99-2|PXYLP1;ENSG00000155893|ENST00000286353|PXYLP1 nc|ENSG00000155893|Q8TE99-2|PXYLP1 nc|ENSG00000155893|Q8TE99-2|PXYLP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 687.2335205078125 2 687.428045 1372.84154 NaN NaN NaN NaN NaN NaN NaN 27.628 1 27.628 27.128 28.128 0 0 0 0 1.0015 1 12444 12444 0.40072 0.093686 1 26191 3882 16930 16988 29728 29728 0.1700291839063084 QRRRARYLHEP 11 Unmodified _QRRRARYLHEP_ 0 0 0 REV__ENST00000592378.5_1_17:74475239-74483895:-|nuORF REV__ENST00000592378.5_1_17:74475239-74483895:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.6102600097656 3 494.611397 1480.81236 NaN NaN NaN NaN NaN NaN NaN 96.193 1 96.27 95.77 96.77 0.076538 0 0 0 1.0072 1 51044 51044 1.3296 0.87513 1 + 26192 17592 16931 16989 29729 29729 0.09118774094372384 QRRRILKNPV 10 Unmodified _QRRRILKNPV_ 0 0 0 ENST00000598737.5_2_2:98292334-98315542:+|nuORF ENST00000598737.5_2_2:98292334-98315542:+|nuORF ENST00000598737.5_2_2:98292334-98315542:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.3681640625 2 640.407112 1278.79967 NaN NaN NaN NaN NaN NaN NaN 92.359 1 92.442 91.942 92.942 0.082848 0 0 0 0.99733 1 48106 48106 3.9444 2.1002 1 26193 9291 16932 16990 29730 29730 0.1714236270213405 QRRRIRDRWPR 11 Unmodified _QRRRIRDRWPR_ 0 0 0 REV__ENST00000606385.1_1_6:25016058-25042154:-|nuORF REV__ENST00000606385.1_1_6:25016058-25042154:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 797.96826171875 2 797.966723 1593.91889 NaN NaN NaN NaN NaN NaN NaN 91.874 1 91.874 91.374 92.374 0 0 0 0 1.0082 1 48663 48663 0 0 1 + 26194 17666 16933 16991 29731 29731 0.1456894937953166 QRRRLHRRRRS 11 Unmodified _QRRRLHRRRRS_ 0 0 0 ENST00000215832.10_1_22:22221790-22221904:-|nuORF ENST00000215832.10_1_22:22221790-22221904:-|nuORF ENST00000215832.10_1_22:22221790-22221904:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.3272705078125 3 526.324584 1575.95192 3.5047 0.0018446 0.89027 0.00046857 4.3949 0.0023132 526.3249650953313 101.4 0.093185 102 101.94 102.03 0.59717 10 3 4 0 0 0 0.91489 1 46954 46954 0 0 1 3922500 26195 6400 16934 16992 29732 29732 0.18698576222254815 QRRRLLLLRR 10 Unmodified _QRRRLLLLRR_ 0 0 0 REV__ENST00000324856.11_1_1:27022599-27022719:+|nuORF REV__ENST00000324856.11_1_1:27022599-27022719:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 460.8059387207031 3 460.644261 1378.91095 NaN NaN NaN NaN NaN NaN NaN 64.579 1 64.579 64.079 65.079 0 0 0 0 1.0012 1 30627 30627 0.69767 0.19171 1 + 26196 15346 16935 16993 29733 29733 0.23665422130079605 QRRRQWRQWRL 11 Unmodified _QRRRQWRQWRL_ 0 0 0 REV__ENSG00000167895|ENST00000318430|TMC8 REV__ENSG00000167895|ENST00000318430|TMC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.1392211914062 3 556.985457 1667.93454 NaN NaN NaN NaN NaN NaN NaN 60.508 1 61.248 60.748 61.748 0.7396 0 0 0 1.0082 1 27929 27929 0.08335 0.08335 1 + 26197 13313 16936 16994 29734 29734 0.12729235896586033 QRRRQWRQWRL 11 Unmodified _QRRRQWRQWRL_ 0 0 0 REV__ENSG00000167895|ENST00000318430|TMC8 REV__ENSG00000167895|ENST00000318430|TMC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 834.9758911132812 2 834.974548 1667.93454 NaN NaN NaN NaN NaN NaN NaN 23.025 1 23.666 23.166 24.166 0.64051 0 0 0 1.0082 1 10500 10500 0 0 1 + 26198 13313 16936 16994 29735 29735 0.12729235896586033 QRRRQWRQWRL 11 Unmodified _QRRRQWRQWRL_ 0 0 0 REV__ENSG00000167895|ENST00000318430|TMC8 REV__ENSG00000167895|ENST00000318430|TMC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 834.9765014648438 2 834.974548 1667.93454 NaN NaN NaN NaN NaN NaN NaN 73.847 1 74.511 74.011 75.011 0.6644 0 0 0 1.0082 1 33974 33974 0.30703 0.30703 1 + 26199 13313 16936 16994 29736 29736 0.12729235896586033 QRRRRRLWRWW 11 Unmodified _QRRRRRLWRWW_ 0 0 0 chr12:54283225-54283827|538|47.58|0.0|22.18|+|1|HNRNPA1,HNRNPA1|2;chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 chr12:54283225-54283827|538|47.58|0.0|22.18|+|1|HNRNPA1,HNRNPA1|2;chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 chr12:54283225-54283827|538|47.58|0.0|22.18|+|1|HNRNPA1,HNRNPA1|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 877.7356567382812 2 878.006182 1753.99781 NaN NaN NaN NaN NaN NaN NaN 50.234 1 50.234 49.734 50.734 0 0 0 0 1.0082 1 22999 22999 0 0 1 26200 145;146 16937 16995 29737 29737 0.15097221404471384 QRRRRRRRRWG 11 Unmodified _QRRRRRRRRWG_ 0 0 0 REV__nc|ENSG00000149177|Q12913-3|PTPRJ REV__nc|ENSG00000149177|Q12913-3|PTPRJ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 820.3460083007812 2 819.99668 1637.97881 NaN NaN NaN NaN NaN NaN NaN 89.726 1 89.726 89.226 90.226 0 0 0 0 1.0082 1 46948 46948 0 0 1 + 26201 17979 16938 16996 29738 29738 0.18533684833414554 QRRTRFISL 9 Unmodified _QRRTRFISL_ 0 0 0 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 392.9048767089844 3 392.903518 1175.68872 2.8459 0.0011182 0.09762 3.8355E-05 2.9435 0.0011565 392.9035529450537 27.551 0.26637 27.814 27.684 27.95 0.26245 51 20 3 0 0 0 0.028483 1 12530 12530 57.249 13.267 1 2583300 26202 2416 16939 16997 29739 29739 0.10790722994056523 QRRTRFISL 9 Unmodified _QRRTRFISL_ 0 0 0 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 392.90478515625 3 392.903518 1175.68872 2.7453 0.0010786 0.13158 5.1698E-05 2.8769 0.0011303 392.90354591483725 27.135 0.32751 27.757 27.599 27.927 0.62179 54 20 4 0 0 0 0.028483 1 12411 12411 57.249 57.249 1 2198100 26203 2416 16939 16997 29740 29740 0.10790722994056523 QRRWWRLLRFR 11 Unmodified _QRRWWRLLRFR_ 0 0 0 REV__ENST00000393313.5_1_7:127032353-127032743:-|nuORF REV__ENST00000393313.5_1_7:127032353-127032743:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 836.9904174804688 2 836.992209 1671.96987 NaN NaN NaN NaN NaN NaN NaN 60.569 1 60.569 60.069 61.069 0 0 0 0 1.0082 1 28155 28155 0 0 1 + 26204 15947 16940 16998 29741 29741 0.16075898424378465 QRSKAKWEL 9 Unmodified _QRSKAKWEL_ 0 0 0 REV__ENST00000415894.1_1_1:165788676-165788994:+|nuORF REV__ENST00000415894.1_1_1:165788676-165788994:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.55364990234375 3 382.552374 1144.63529 2.9287 0.0011204 0.097403 3.7262E-05 3.0261 0.0011576 382.55240534862804 19.733 0.30884 20.392 20.266 20.574 0.6583 66 23 4 0 0 0 0.26277 2 8984 8936;8984 18.373 7.4741 1 1359300 + 26205 16130 16941 16999 29742;29743 29743 0.06875925491522139 QRSKAKWEL 9 Unmodified _QRSKAKWEL_ 0 0 0 REV__ENST00000415894.1_1_1:165788676-165788994:+|nuORF REV__ENST00000415894.1_1_1:165788676-165788994:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 382.552374 1144.63529 2.8322 0.0010835 0.17381 6.6491E-05 3.0061 0.00115 382.5524283330677 20.772 0.32606 20.772 20.59 20.916 0 0.19041 4.599E-05 NaN 18.373 77 28 3 NaN NaN NaN NaN 0 NaN NaN 0 745490 + 26206 16130 16941 16999 0.06875925491522139 QRSLMRRHRKK 11 Unmodified _QRSLMRRHRKK_ 0 0 0 nc|ENSG00000198739|Q86VH5-2|LRRTM3;ENSG00000198739|ENST00000361320|LRRTM3 nc|ENSG00000198739|Q86VH5-2|LRRTM3 nc|ENSG00000198739|Q86VH5-2|LRRTM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 748.44384765625 2 748.446777 1494.879 NaN NaN NaN NaN NaN NaN NaN 74.881 1 75.139 74.639 75.639 0.25831 0 0 0 1.008 1 34445 34445 0.30703 0 1 26207 5924 16942 17000 29744 29744 0.15135686384587643 QRSVRRRYRRW 11 Unmodified _QRSVRRRYRRW_ 0 0 0 ENST00000488071.1_1_11:64494766-64496427:-|nuORF;ENST00000421556.5_1_11:64494482-64496427:-|nuORF;ENST00000464324.5_1_11:64494482-64496427:-|nuORF ENST00000488071.1_1_11:64494766-64496427:-|nuORF ENST00000488071.1_1_11:64494766-64496427:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 809.9673461914062 2 809.966723 1617.91889 NaN NaN NaN NaN NaN NaN NaN 60.295 1 60.55 60.05 61.05 0.25578 0 0 0 1.0082 1 27608 27608 0 0 1 26208 7761 16943 17001 29745 29745 0.13464949379545033 QRVKSKLE 8 Unmodified _QRVKSKLE_ 0 0 0 nc|ENSG00000002079|Q9H6N6|MYH16 nc|ENSG00000002079|Q9H6N6|MYH16 nc|ENSG00000002079|Q9H6N6|MYH16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.3017883300781 2 494.300916 986.587279 2.6471 0.0013085 0.25638 0.00012673 2.9035 0.0014352 494.30092211000726 93.971 0.38692 93.971 93.758 94.145 0 130 51 3 0 0 0 0.72814 1 50156 50156 3.5965 0.31518 1 35575000 26209 9532 16944 17002 29746 29746 0.09344851571472645 QRVKSKLE 8 Unmodified _QRVKSKLE_ 0 0 0 nc|ENSG00000002079|Q9H6N6|MYH16 nc|ENSG00000002079|Q9H6N6|MYH16 nc|ENSG00000002079|Q9H6N6|MYH16 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 494.300916 986.587279 3.8018 0.0018792 0.26227 0.00012964 4.0641 0.0020089 494.3010465180928 93.365 0.67335 93.62 93.308 93.981 0.25497 -0.065261 -8.3335E-05 NaN 3.5965 116 32 5 NaN NaN NaN NaN 0 NaN NaN 0 63202000 26210 9532 16944 17002 0.09344851571472645 QRVLEHRRRNQ 11 Unmodified _QRVLEHRRRNQ_ 0 0 0 nc|ENSG00000168309|O95990-2|FAM107A;ENSG00000168309|ENST00000360997|FAM107A;nc|ENSG00000168309|O95990-3|FAM107A;nc|ENSG00000168309|O95990-4|FAM107A nc|ENSG00000168309|O95990-2|FAM107A nc|ENSG00000168309|O95990-2|FAM107A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 746.4894409179688 2 746.421814 1490.82907 NaN NaN NaN NaN NaN NaN NaN 59.49 1 59.49 58.99 59.99 0 0 0 0 1.0063 1 27503 27503 2.4985 1.0166 1 26211 4620 16945 17003 29747 29747 0.1032927498031313 QRWKRIRQRWK 11 Unmodified _QRWKRIRQRWK_ 0 0 0 ENST00000595455.1_1_19:36244761-36245372:+|nuORF;ENSG00000267796|ENST00000301159|LIN37 ENST00000595455.1_1_19:36244761-36245372:+|nuORF ENST00000595455.1_1_19:36244761-36245372:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 821.186279296875 2 820.989666 1639.96478 NaN NaN NaN NaN NaN NaN NaN 92.745 1 92.832 92.332 93.332 0.086212 0 0 0 1.0082 1 48425 48425 0 0 1 26212 6326 16946 17004 29748 29748 0.17039594561742888 QRWKRIRQRWK 11 Unmodified _QRWKRIRQRWK_ 0 0 0 ENST00000595455.1_1_19:36244761-36245372:+|nuORF;ENSG00000267796|ENST00000301159|LIN37 ENST00000595455.1_1_19:36244761-36245372:+|nuORF ENST00000595455.1_1_19:36244761-36245372:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 820.9911499023438 2 820.989666 1639.96478 NaN NaN NaN NaN NaN NaN NaN 59.44 1 60.105 59.605 60.605 0.66503 0 0 0 1.0082 1 27211 27211 0 0 1 26213 6326 16946 17004 29749 29749 0.17039594561742888 QRWLHILSH 9 Unmodified _QRWLHILSH_ 0 0 0 REV__ENST00000304858.6_1_5:132403154-132403238:+|nuORF REV__ENST00000304858.6_1_5:132403154-132403238:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 595.3336791992188 2 595.333082 1188.65161 NaN NaN NaN NaN NaN NaN NaN 18.926 1 18.926 18.426 19.426 0 0 0 0 0.90611 1 8411 8411 2.0598 0 1 + 26214 15219 16947 17005 29750 29750 0.06483051448276456 QRWLTKRLVPI 11 Unmodified _QRWLTKRLVPI_ 0 0 0 REV__ENSG00000142207|ENST00000382751|URB1 REV__ENSG00000142207|ENST00000382751|URB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.6292419433594 3 470.629506 1408.86669 NaN NaN NaN NaN NaN NaN NaN 70.619 1 71.281 70.781 71.781 0.66209 0 0 0 1.0079 1 32368 32368 0.50596 0 1 + 26215 12319 16948 17006 29751 29751 0.1786097319320561 QRWRKLFWRLK 11 Unmodified _QRWRKLFWRLK_ 0 0 0 REV__nc|ENSG00000149639|O94964-4|MTCL2 REV__nc|ENSG00000149639|O94964-4|MTCL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 809.2415161132812 2 808.986061 1615.95757 NaN NaN NaN NaN NaN NaN NaN 97.316 1 97.918 97.418 98.418 0.6019 0 0 0 1.0082 1 44746 44746 0 0 1 + 26216 12578 16949 17007 29752 29752 0.17422861961335911 QRWRLQLRRRQ 11 Unmodified _QRWRLQLRRRQ_ 0 0 0 ENST00000359541.6_1_2:27566423-27579033:-|nuORF ENST00000359541.6_1_2:27566423-27579033:-|nuORF ENST00000359541.6_1_2:27566423-27579033:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 798.8104248046875 2 798.476923 1594.93929 NaN NaN NaN NaN NaN NaN NaN 79.873 1 80.193 79.693 80.693 0.31998 0 0 0 1.0082 1 39028 39028 0 0 1 26217 7203 16950 17008 29753 29753 0.16562120039316142 QRWRRRRHLLQ 11 Unmodified _QRWRRRRHLLQ_ 0 0 0 ENST00000372724.5_1_10:76586363-76598485:+|nuORF ENST00000372724.5_1_10:76586363-76598485:+|nuORF ENST00000372724.5_1_10:76586363-76598485:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 802.978515625 2 802.97709 1603.93963 NaN NaN NaN NaN NaN NaN NaN 91.427 1 92.089 91.589 92.589 0.66198 0 0 0 1.0082 1 42075 42075 0 0 1 26218 7342 16951 17009 29754 29754 0.16181539759213592 QRWRRYKYRFV 11 Unmodified _QRWRRYKYRFV_ 0 0 0 nc|ENSG00000155542|Q8NE22-2|SETD9;ENSG00000155542|ENST00000285947|SETD9 nc|ENSG00000155542|Q8NE22-2|SETD9 nc|ENSG00000155542|Q8NE22-2|SETD9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 829.1425170898438 2 829.46295 1656.91135 NaN NaN NaN NaN NaN NaN NaN 86.473 1 86.473 85.973 86.973 0 0 0 0 1.0079 1 44339 44339 1.1933 0.88631 1 26219 3866 16952 17010 29755 29755 0.1091679705923525 QRWWRRPRRPR 11 Unmodified _QRWWRRPRRPR_ 0 0 0 REV__ENST00000372022.5_1_9:136199397-136199478:-|nuORF REV__ENST00000372022.5_1_9:136199397-136199478:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 825.4780883789062 2 825.477257 1648.93996 NaN NaN NaN NaN NaN NaN NaN 93.278 1 93.278 92.778 93.778 0 0 0 0 1.008 1 49792 49792 0.30703 0.30703 1 + 26220 15744 16953 17011 29756 29756 0.14144959479040153 QRWWRRPRRPR 11 Unmodified _QRWWRRPRRPR_ 0 0 0 REV__ENST00000372022.5_1_9:136199397-136199478:-|nuORF REV__ENST00000372022.5_1_9:136199397-136199478:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 825.4789428710938 2 825.477257 1648.93996 NaN NaN NaN NaN NaN NaN NaN 98.322 1 98.921 98.421 99.421 0.59885 0 0 0 1.008 1 45318 45318 0.30703 0.30703 1 + 26221 15744 16953 17011 29757 29757 0.14144959479040153 QRWWWRWQHG 10 Unmodified _QRWWWRWQHG_ 0 0 0 ENST00000305123.5_1_2:227663257-227663680:-|nuORF ENST00000305123.5_1_2:227663257-227663680:-|nuORF ENST00000305123.5_1_2:227663257-227663680:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 763.369140625 2 763.371061 1524.72757 NaN NaN NaN NaN NaN NaN NaN 105.03 1 105.35 104.85 105.85 0.31782 0 0 0 1.0015 1 48483 48483 0.40072 0.050084 1 26222 6832 16954 17012 29758 29758 -0.013805516515958516 QRYLGRPR 8 Unmodified _QRYLGRPR_ 0 0 0 ENST00000555759.1_1_14:95918480-95934190:-|nuORF ENST00000555759.1_1_14:95918480-95934190:-|nuORF ENST00000555759.1_1_14:95918480-95934190:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.3052978515625 2 523.304324 1044.5941 3.4122 0.0017856 -0.8424 -0.00044083 2.5698 0.0013448 523.3038839446587 80.776 1.6208 81.436 80.742 82.363 0.65998 229 108 3 0 0 0 0.7471 1 37555 37555 0.69038 0.088878 1 1677500 26223 8919 16955 17013 29759 29759 0.07358209242693192 QRYWHPNWTIM 11 Unmodified _QRYWHPNWTIM_ 0 0 0 REV__ENST00000482108.1_2_7:94293788-94294991:+|nuORF REV__ENST00000482108.1_2_7:94293788-94294991:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 766.3684692382812 2 766.366795 1530.71904 NaN NaN NaN NaN NaN NaN NaN 48.289 1 48.942 48.442 49.442 0.65356 0 0 0 1.008 1 22098 22098 0.30703 0 1 + 26224 14620 16956 17014 29760 29760 -0.025092864030966666 QSCQPFKTA 9 Unmodified _QSCQPFKTA_ 0 0 0 ENSG00000142733|ENST00000357582|MAP3K6;nc|ENSG00000142733|O95382-3|MAP3K6;nc|ENSG00000142733|O95382-2|MAP3K6 ENSG00000142733|ENST00000357582|MAP3K6 ENSG00000142733|ENST00000357582|MAP3K6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.1636047363281 3 337.163898 1008.46987 NaN NaN NaN NaN NaN NaN NaN 80.115 1 80.364 79.864 80.864 0.24947 0 0 0 0.90431 1 36889 36889 2.4985 0 1 26225 3329 16957 17015 29761 29761 -0.03403049359656052 QSCQPFKTA 9 Unmodified _QSCQPFKTA_ 0 0 0 ENSG00000142733|ENST00000357582|MAP3K6;nc|ENSG00000142733|O95382-3|MAP3K6;nc|ENSG00000142733|O95382-2|MAP3K6 ENSG00000142733|ENST00000357582|MAP3K6 ENSG00000142733|ENST00000357582|MAP3K6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 337.16424560546875 3 337.163898 1008.46987 NaN NaN NaN NaN NaN NaN NaN 78.582 1 79.244 78.744 79.744 0.66198 0 0 0 0.90431 1 36212 36212 2.4985 0 1 26226 3329 16957 17015 29762 29762 -0.03403049359656052 QSEAGSHTL 9 Unmodified _QSEAGSHTL_ 0 0 0 ENSG00000204592|ENST00000376630|HLA-E;ENST00000474381.1_1_6:31323854-31324663:-|nuORF;nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;nc|ENSG00000204642|P30511-2|HLA-F;ENSG00000234745|ENST00000412585|HLA-B ENSG00000204592|ENST00000376630|HLA-E;nc|ENSG00000204642|P30511|HLA-F;ENSG00000234745|ENST00000412585|HLA-B ENSG00000204592|ENST00000376630|HLA-E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.2212219238281 2 465.219788 928.425024 2.8687 0.0013346 0.23078 0.00010736 3.0995 0.0014419 465.2198891842819 13.089 0.1588 13.089 12.995 13.154 0 15 7 3 0 0 0 0.0013631 1 5708 5708 115.69 0 1 1658600 26227 6023;6028;6198 16958 17016 29763 29763 -0.04205156901321061 QSEAGSHTL 9 Unmodified _QSEAGSHTL_ 0 0 0 ENSG00000204592|ENST00000376630|HLA-E;ENST00000474381.1_1_6:31323854-31324663:-|nuORF;nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;nc|ENSG00000204642|P30511-2|HLA-F;ENSG00000234745|ENST00000412585|HLA-B ENSG00000204592|ENST00000376630|HLA-E;nc|ENSG00000204642|P30511|HLA-F;ENSG00000234745|ENST00000412585|HLA-B ENSG00000204592|ENST00000376630|HLA-E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.22100830078125 2 465.219788 928.425024 2.336 0.0010868 0.27677 0.00012876 2.6128 0.0012155 465.2199013399676 12.751 0.08942 13.013 12.976 13.065 0.26154 13 6 3 0 0 0 6.8656E-09 1 5542 5542 158.2 0 1 2746300 26228 6023;6028;6198 16958 17016 29764 29764 -0.04205156901321061 QSEAGSHTL 9 Unmodified _QSEAGSHTL_ 0 0 0 ENSG00000204592|ENST00000376630|HLA-E;ENST00000474381.1_1_6:31323854-31324663:-|nuORF;nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;nc|ENSG00000204642|P30511-2|HLA-F;ENSG00000234745|ENST00000412585|HLA-B ENSG00000204592|ENST00000376630|HLA-E;nc|ENSG00000204642|P30511|HLA-F;ENSG00000234745|ENST00000412585|HLA-B ENSG00000204592|ENST00000376630|HLA-E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.22076416015625 2 465.219788 928.425024 2.0317 0.00094517 0.12479 5.8053E-05 2.1564 0.0010032 465.21982384903015 12.733 0.15566 13.04 12.936 13.091 0.30727 10 4 3 0 0 0 0.0044949 1 5761 5761 92.822 0 1 3502000 26229 6023;6028;6198 16958 17016 29765 29765 -0.04205156901321061 QSEAGSHTL 9 Unmodified _QSEAGSHTL_ 0 0 0 ENSG00000204592|ENST00000376630|HLA-E;ENST00000474381.1_1_6:31323854-31324663:-|nuORF;nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;nc|ENSG00000204642|P30511-2|HLA-F;ENSG00000234745|ENST00000412585|HLA-B ENSG00000204592|ENST00000376630|HLA-E;nc|ENSG00000204642|P30511|HLA-F;ENSG00000234745|ENST00000412585|HLA-B ENSG00000204592|ENST00000376630|HLA-E MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 465.219788 928.425024 3.1005 0.0014424 0.125 5.8151E-05 3.2255 0.0015005 465.21983672393833 12.652 0.10099 13.295 13.21 13.311 0.64272 0.18533 -7.2158E-05 NaN 158.2 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 4541200 26230 6023;6028;6198 16958 17016 -0.04205156901321061 QSEDGSHTL 9 Unmodified _QSEDGSHTL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.2156066894531 2 487.214703 972.414853 3.2947 0.0016052 -0.1079 -5.257E-05 3.1868 0.0015527 487.2146481535253 13.239 0.12662 13.239 13.168 13.295 0 13 9 2 0 0 0 0.14729 1 5791 5791 26.884 16.06 1 192400 26231 6014 16959 17017 29766 29766 -0.07245764626543405 QSEDGSHTL 9 Unmodified _QSEDGSHTL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.21624755859375 2 487.214703 972.414853 NaN NaN NaN NaN NaN NaN NaN 12.849 1 13.157 12.657 13.657 0.30727 0 0 0 0.45908 1 5797 5797 20.454 10.38 1 26232 6014 16959 17017 29767 29767 -0.07245764626543405 QSEDGSHTL 9 Unmodified _QSEDGSHTL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 487.214703 972.414853 3.4801 0.0016956 0.5982 0.00029145 4.0783 0.001987 487.2145230239297 12.719 0.10155 13.362 13.278 13.379 0.64272 0.061628 0.00064016 NaN 26.884 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 647530 26233 6014 16959 17017 -0.07245764626543405 QSFYLFWFWYP 11 Unmodified _QSFYLFWFWYP_ 0 0 0 REV__ENST00000228506.7_1_12:121134380-121134431:+|nuORF REV__ENST00000228506.7_1_12:121134380-121134431:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1584.114013671875 1 1583.7358 1582.72852 3.0642 0.0048529 -1.7927 -0.0028392 1.2715 0.0020137 1584.7344812864299 61.671 0.090149 62.401 62.383 62.474 0.73077 30 17 2 0 0 0 0.13295 1 28649 28649 1.1933 1.1933 1 91628000 + 26234 14843 16960 17018 29768 29768 -0.03953194845917096 QSIVENKSAKL 11 Unmodified _QSIVENKSAKL_ 0 0 0 REV__nc|ENSG00000151136|A6QL63-5|ABTB3 REV__nc|ENSG00000151136|A6QL63-5|ABTB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 608.8521728515625 2 608.848427 1215.6823 4.4124 0.0026865 -3.0072 -0.0018309 1.4052 0.00085557 608.8468485431213 103.39 0.1467 103.7 103.61 103.76 0.31863 16 9 2 0 0 0 0.89844 1 47799 47799 2.4985 0.84587 1 723950 + 26235 12606 16961 17019 29769 29769 0.08308740252005009 QSKFRHVF 8 Unmodified _QSKFRHVF_ 0 0 0 ENSG00000110880|ENST00000261401|CORO1C;nc|ENSG00000110880|Q9ULV4-2|CORO1C;nc|ENSG00000110880|Q9ULV4-3|CORO1C;ENST00000551059.1_1_12:109094839-109125250:-|nuORF;ENST00000453768.6_1_11:67208484-67210099:-|nuORF;ENST00000459686.5_1_17:27945497-27949916:-|nuORF;nc|ENSG00000167549|Q6QEF8|CORO6;ENSG00000167549|ENST00000388767|CORO6;ENSG00000172725|ENST00000341356|CORO1B ENSG00000110880|ENST00000261401|CORO1C;ENSG00000172725|ENST00000341356|CORO1B ENSG00000110880|ENST00000261401|CORO1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.19573974609375 3 350.194409 1047.5614 2.3104 0.00080909 0.82767 0.00028984 3.1381 0.0010989 350.1945685382891 15.329 0.87448 15.635 15.313 16.188 0.306 176 91 2 0 0 0 0.68959 1 6906 6906 6.7232 1.8262 1 280720 26236 1734;4886 16962 17020 29770 29770 0.03952002119831377 QSKLAQRRQR 10 Unmodified _QSKLAQRRQR_ 0 0 0 ENSG00000099875|ENST00000250896|MKNK2;ENST00000589441.5_1_19:2037744-2041200:-|nuORF ENSG00000099875|ENST00000250896|MKNK2 ENSG00000099875|ENST00000250896|MKNK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 424.2532043457031 3 424.25321 1269.7378 NaN NaN NaN NaN NaN NaN NaN 57.232 1 57.232 56.732 57.732 0 0 0 0 0.99807 1 26372 26372 3.3196 2.2099 1 26237 1157 16963 17021 29771 29771 0.11372011282969652 QSKNYFNSY 9 Unmodified _QSKNYFNSY_ 0 0 0 REV__ENSG00000044090|ENST00000265348|CUL7 REV__ENSG00000044090|ENST00000265348|CUL7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.7593994140625 2 575.76182 1149.50909 NaN NaN NaN NaN NaN NaN NaN 107.98 1 108.3 107.8 108.8 0.31421 0 0 0 0.90699 1 49805 49805 1.8442 0.19162 1 + 26238 10330 16964 17022 29772 29772 -0.05968625804416661 QSKQLRLA 8 Unmodified _QSKQLRLA_ 0 0 0 REV__ENSG00000099812|ENST00000215582|MISP REV__ENSG00000099812|ENST00000215582|MISP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.2892150878906 2 472.287808 942.561064 3.1725 0.0014983 -0.10201 -4.8179E-05 3.0705 0.0014501 472.2875516983432 92.91 0.46443 93.557 93.276 93.741 0.64714 27 23 2 0 0 0 0.73203 1 42745 42745 2.0598 2.0598 1 390140 + 26239 10787 16965 17023 29773 29773 0.08748582399971383 QSKYKQKL 8 Unmodified _QSKYKQKL_ 0 0 0 nc|ENSG00000133106|Q96J88-3|EPSTI1;nc|ENSG00000133106|Q96J88|EPSTI1;ENSG00000133106|ENST00000313624|EPSTI1 nc|ENSG00000133106|Q96J88-3|EPSTI1 nc|ENSG00000133106|Q96J88-3|EPSTI1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 341.5393981933594 3 341.537953 1021.59203 2.7488 0.00093881 1.1156 0.00038103 3.8644 0.0013198 341.5383373996088 10.723 0.36234 11.356 11.168 11.531 0.63304 84 32 3 0 0 0 0.52777 1 4813 4813 19.257 4.4187 1 420430 26240 9645 16966 17024 29774 29774 0.08209735714228827 QSLIRLSSH 9 Unmodified _QSLIRLSSH_ 0 0 0 ENSG00000119720|ENST00000354366|NRDE2 ENSG00000119720|ENST00000354366|NRDE2 ENSG00000119720|ENST00000354366|NRDE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.53564453125 3 347.533091 1039.57744 NaN NaN NaN NaN NaN NaN NaN 36.342 1 36.599 36.099 37.099 0.25768 0 0 0 0.90111 1 16554 16554 1.9064 0 1 26241 2163 16967 17025 29775 29775 0.05923663566090909 QSLRKKIDL 9 Unmodified _QSLRKKIDL_ 0 0 0 REV__nc|ENSG00000197362|Q8N393-2|ZNF786 REV__nc|ENSG00000197362|Q8N393-2|ZNF786 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 367.5653991699219 3 367.564391 1099.67134 2.5732 0.00094583 -0.39484 -0.00014513 2.1784 0.0008007 367.56430460694764 50.624 0.33082 50.886 50.745 51.076 0.26146 44 15 4 0 0 0 0.46674 1 23181 23181 8.9762 0 1 2287100 + 26242 14273 16968 17026 29776 29776 0.1254938266836234 QSLRLKQNKPH 11 Unmodified _QSLRLKQNKPH_ 0 0 0 REV__ENST00000589042.5_3_2:179517806-179527536:-|nuORF REV__ENST00000589042.5_3_2:179517806-179527536:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 674.8919677734375 2 674.894035 1347.77352 NaN NaN NaN NaN NaN NaN NaN 98.12 1 98.12 97.62 98.62 0 0 0 0 0.96369 1 53637 53637 10.151 1.995 1 + 26243 17562 16969 17027 29777 29777 0.11354048739963218 QSMHFPFCF 9 Unmodified _QSMHFPFCF_ 0 0 0 REV__ENSG00000083097|ENST00000349129|DOP1A REV__ENSG00000083097|ENST00000349129|DOP1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.83099365234375 3 381.829862 1142.46776 2.8509 0.0010886 -0.47251 -0.00018042 2.3784 0.00090814 381.82989497285257 13.403 0.12659 14.046 14.024 14.15 0.64272 11 8 2 0 0 0 1.2078 1 6043 6043 0.26902 0 1 128670 + 26244 10623 16970 17028 29778 29778 -0.09777801369114059 QSPAYHGGHS 10 Unmodified _QSPAYHGGHS_ 0 0 0 ENSG00000110237|ENST00000263674|ARHGEF17;ARHGEF17|p.P1183Lfs*7|1|0.44|ENSG00000110237|chr11:73355626-73355626|C/-|frameshift_variant ENSG00000110237|ENST00000263674|ARHGEF17 ENSG00000110237|ENST00000263674|ARHGEF17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 347.4899597167969 3 347.489662 1039.44716 NaN NaN NaN NaN NaN NaN NaN 47.717 1 47.717 47.217 48.217 0 0 0 0 0.9754 1 21850 21850 5.4027 0 1 26245 1706 16971 17029 29779 29779 -0.07098932432904803 QSRIRIDSL 9 Unmodified _QSRIRIDSL_ 0 0 0 nc|ENSG00000160789|P02545-2|LMNA;nc|ENSG00000160789|P02545-6|LMNA;nc|ENSG00000160789|P02545-3|LMNA;ENSG00000160789|ENST00000368300|LMNA;nc|ENSG00000160789|P02545-5|LMNA;nc|ENSG00000160789|P02545-4|LMNA;ENST00000496738.5_1_1:156104631-156105741:+|nuORF;ENST00000368298.2_1_1:156104977-156106341:+|nuORF;AGPS-LMNA|2|fusion;AGPS-LMNA|3|fusion;AGPS-LMNA|4|fusion;AGPS-LMNA|1|fusion nc|ENSG00000160789|P02545-2|LMNA nc|ENSG00000160789|P02545-2|LMNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 363.21282958984375 3 363.212128 1086.61456 2.0372 0.00073994 -3.1852 -0.0011569 -1.148 -0.00041697 363.2123316800067 33.664 0.20352 34.452 34.302 34.506 0.78795 22 14 2 0 0 0 0.060129 1 15223 15223 42.835 16.814 1 789650 26246 4080 16972 17030 29780 29780 0.07471335111858934 QSRIRIDSL 9 Unmodified _QSRIRIDSL_ 0 0 0 nc|ENSG00000160789|P02545-2|LMNA;nc|ENSG00000160789|P02545-6|LMNA;nc|ENSG00000160789|P02545-3|LMNA;ENSG00000160789|ENST00000368300|LMNA;nc|ENSG00000160789|P02545-5|LMNA;nc|ENSG00000160789|P02545-4|LMNA;ENST00000496738.5_1_1:156104631-156105741:+|nuORF;ENST00000368298.2_1_1:156104977-156106341:+|nuORF;AGPS-LMNA|2|fusion;AGPS-LMNA|3|fusion;AGPS-LMNA|4|fusion;AGPS-LMNA|1|fusion nc|ENSG00000160789|P02545-2|LMNA nc|ENSG00000160789|P02545-2|LMNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.82666015625 2 544.314554 1086.61456 3.4496 0.0018777 -0.59942 -0.00032627 2.8502 0.0015514 544.3144546371558 34.437 0.2413 34.691 34.55 34.791 0.25389 21 9 3 0 0 0 0.19396 1 15660 15660 24.991 0 1 2322200 26247 4080 16972 17030 29781 29781 0.07471335111858934 QSRIRIDSL 9 Unmodified _QSRIRIDSL_ 0 0 0 nc|ENSG00000160789|P02545-2|LMNA;nc|ENSG00000160789|P02545-6|LMNA;nc|ENSG00000160789|P02545-3|LMNA;ENSG00000160789|ENST00000368300|LMNA;nc|ENSG00000160789|P02545-5|LMNA;nc|ENSG00000160789|P02545-4|LMNA;ENST00000496738.5_1_1:156104631-156105741:+|nuORF;ENST00000368298.2_1_1:156104977-156106341:+|nuORF;AGPS-LMNA|2|fusion;AGPS-LMNA|3|fusion;AGPS-LMNA|4|fusion;AGPS-LMNA|1|fusion nc|ENSG00000160789|P02545-2|LMNA nc|ENSG00000160789|P02545-2|LMNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.2130126953125 3 363.212128 1086.61456 2.6161 0.00095019 -2.5466 -0.00092494 0.069528 2.5254E-05 363.2120074718761 34.436 0.52033 34.69 34.443 34.963 0.25389 63 23 4 0 0 0 0.019629 2 15671 15671;15726 68.76 23.02 1 5648400 26248 4080 16972 17030 29782;29783 29782 0.07471335111858934 QSRIRIDSL 9 Unmodified _QSRIRIDSL_ 0 0 0 nc|ENSG00000160789|P02545-2|LMNA;nc|ENSG00000160789|P02545-6|LMNA;nc|ENSG00000160789|P02545-3|LMNA;ENSG00000160789|ENST00000368300|LMNA;nc|ENSG00000160789|P02545-5|LMNA;nc|ENSG00000160789|P02545-4|LMNA;ENST00000496738.5_1_1:156104631-156105741:+|nuORF;ENST00000368298.2_1_1:156104977-156106341:+|nuORF;AGPS-LMNA|2|fusion;AGPS-LMNA|3|fusion;AGPS-LMNA|4|fusion;AGPS-LMNA|1|fusion nc|ENSG00000160789|P02545-2|LMNA nc|ENSG00000160789|P02545-2|LMNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.2129821777344 3 363.212128 1086.61456 2.4628 0.00089452 -1.9099 -0.0006937 0.5529 0.00020082 363.21209748969295 34.021 0.44759 34.641 34.304 34.752 0.62032 66 24 4 0 0 0 0.012412 1 15579 15579 78.61 29.083 1 3186600 26249 4080 16972 17030 29784 29784 0.07471335111858934 QSRIRIDSL 9 Unmodified _QSRIRIDSL_ 0 0 0 nc|ENSG00000160789|P02545-2|LMNA;nc|ENSG00000160789|P02545-6|LMNA;nc|ENSG00000160789|P02545-3|LMNA;ENSG00000160789|ENST00000368300|LMNA;nc|ENSG00000160789|P02545-5|LMNA;nc|ENSG00000160789|P02545-4|LMNA;ENST00000496738.5_1_1:156104631-156105741:+|nuORF;ENST00000368298.2_1_1:156104977-156106341:+|nuORF;AGPS-LMNA|2|fusion;AGPS-LMNA|3|fusion;AGPS-LMNA|4|fusion;AGPS-LMNA|1|fusion nc|ENSG00000160789|P02545-2|LMNA nc|ENSG00000160789|P02545-2|LMNA MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 544.314554 1086.61456 3.2519 0.00177 -0.1911 -0.00010402 3.0608 0.001666 544.3152855315532 34.512 0.21424 34.512 34.384 34.599 0 -0.085904 0.00040011 NaN 24.991 16 12 2 NaN NaN NaN NaN 0 NaN NaN 0 532760 26250 4080 16972 17030 0.07471335111858934 QSRIRIDSL 9 Unmodified _QSRIRIDSL_ 0 0 0 nc|ENSG00000160789|P02545-2|LMNA;nc|ENSG00000160789|P02545-6|LMNA;nc|ENSG00000160789|P02545-3|LMNA;ENSG00000160789|ENST00000368300|LMNA;nc|ENSG00000160789|P02545-5|LMNA;nc|ENSG00000160789|P02545-4|LMNA;ENST00000496738.5_1_1:156104631-156105741:+|nuORF;ENST00000368298.2_1_1:156104977-156106341:+|nuORF;AGPS-LMNA|2|fusion;AGPS-LMNA|3|fusion;AGPS-LMNA|4|fusion;AGPS-LMNA|1|fusion nc|ENSG00000160789|P02545-2|LMNA nc|ENSG00000160789|P02545-2|LMNA MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 544.314554 1086.61456 3.3872 0.0018437 -0.61701 -0.00033585 2.7701 0.0015078 544.3146384166903 33.971 0.27835 34.591 34.448 34.726 0.62031 -0.0066238 -6.3555E-05 NaN 24.991 28 14 3 NaN NaN NaN NaN 0 NaN NaN 0 1206000 26251 4080 16972 17030 0.07471335111858934 QSRLKRHGF 9 Unmodified _QSRLKRHGF_ 0 0 0 REV__ENSG00000165572|ENST00000379485|KBTBD6 REV__ENSG00000165572|ENST00000379485|KBTBD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.8231201171875 2 564.822881 1127.63121 NaN NaN NaN NaN NaN NaN NaN 102.75 1 103.35 102.85 103.85 0.59759 0 0 0 0.90511 1 47551 47551 2.3027 0.24298 1 + 26252 13168 16973 17031 29785 29785 0.0724988078845854 QSRLVELVPG 10 Unmodified _QSRLVELVPG_ 0 0 0 REV__ENST00000593411.1_1_19:17213013-17214246:+|nuORF REV__ENST00000593411.1_1_19:17213013-17214246:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.3202514648438 2 549.319306 1096.62406 3.7415 0.0020553 -1.7854 -0.00098074 1.9561 0.0010745 549.3180335689182 96.993 0.26948 97.595 97.424 97.694 0.6019 31 12 3 0 0 0 0.89464 1 44562 44562 3.9444 0.94915 1 1875000 + 26253 17600 16974 17032 29786 29786 0.0796110339738334 QSRLVELVPG 10 Unmodified _QSRLVELVPG_ 0 0 0 REV__ENST00000593411.1_1_19:17213013-17214246:+|nuORF REV__ENST00000593411.1_1_19:17213013-17214246:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 549.319306 1096.62406 3.7415 0.0020553 -1.7854 -0.00098074 1.9561 0.0010745 549.3180335689182 96.993 0.26948 97.595 97.424 97.694 0.6019 -0.059228 0.00070947 NaN 3.9444 31 12 3 NaN NaN NaN NaN 0 NaN NaN 0 1875000 + 26254 17600 16974 17032 0.0796110339738334 QSRRYRSRRWC 11 Unmodified _QSRRYRSRRWC_ 0 0 0 ENST00000327026.7_1_17:80136426-80141741:-|nuORF ENST00000327026.7_1_17:80136426-80141741:-|nuORF ENST00000327026.7_1_17:80136426-80141741:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 777.40380859375 2 777.402567 1552.79058 NaN NaN NaN NaN NaN NaN NaN 49.458 1 50.113 49.613 50.613 0.65524 0 0 0 1.008 1 22624 22624 0.35063 0 1 26255 6960 16975 17033 29787 29787 0.036296460741141345 QSSRQFPI 8 Unmodified _QSSRQFPI_ 0 0 0 REV__ENST00000471477.1_1_9:101706343-101748400:+|nuORF REV__ENST00000471477.1_1_9:101706343-101748400:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 321.50750732421875 3 321.506653 961.498129 NaN NaN NaN NaN NaN NaN NaN 12.592 1 13.235 12.735 13.735 0.64272 0 0 0 0.99035 1 5653 5653 3.5965 0 1 + 26256 14409 16976 17034 29788 29788 0.015840166119460264 QTAKTTLGSKV 11 Unmodified _QTAKTTLGSKV_ 0 0 0 nc|ENSG00000150753|P48643-2|CCT5;ENSG00000150753|ENST00000280326|CCT5 nc|ENSG00000150753|P48643-2|CCT5 nc|ENSG00000150753|P48643-2|CCT5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 378.8911437988281 3 378.555672 1132.64519 1.185 0.00044859 0.9981 0.00037783 2.1831 0.00082643 378.55578115375795 103.61 0.24131 103.67 103.49 103.73 0.052994 24 17 2 0 0 0 0.91184 1 56167 56167 0.32927 0 1 253030 26257 3676 16977 17035 29789 29789 0.08417068706239661 QTAKTTLGSKV 11 Unmodified _QTAKTTLGSKV_ 0 0 0 nc|ENSG00000150753|P48643-2|CCT5;ENSG00000150753|ENST00000280326|CCT5 nc|ENSG00000150753|P48643-2|CCT5 nc|ENSG00000150753|P48643-2|CCT5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 378.555672 1132.64519 1.185 0.00044859 0.9981 0.00037783 2.1831 0.00082643 378.55578115375795 103.61 0.24131 103.67 103.49 103.73 0.052994 0.12891 0.00041722 NaN 0.32927 24 17 2 NaN NaN NaN NaN 0 NaN NaN 0 253030 26258 3676 16977 17035 0.08417068706239661 QTAKTTLGSKV 11 Unmodified _QTAKTTLGSKV_ 0 0 0 nc|ENSG00000150753|P48643-2|CCT5;ENSG00000150753|ENST00000280326|CCT5 nc|ENSG00000150753|P48643-2|CCT5 nc|ENSG00000150753|P48643-2|CCT5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 378.555672 1132.64519 2.9209 0.0011057 0.42475 0.00016079 3.3456 0.0012665 378.5557522457053 102.98 0.15319 103.58 103.5 103.65 0.59821 0.041219 -0.00023391 NaN 0.32927 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 429010 26259 3676 16977 17035 0.08417068706239661 QTAPKGTG 8 Unmodified _QTAPKGTG_ 0 0 0 REV__ENSG00000055609|ENST00000262189|KMT2C REV__ENSG00000055609|ENST00000262189|KMT2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.20452880859375 2 380.20341 758.392267 3.1676 0.0012043 0.9294 0.00035336 4.097 0.0015577 380.2040360310301 89.859 0.5903 90.111 89.848 90.438 0.25137 33 25 2 0 0 0 0.7441 1 41350 41350 2.3027 0 1 325590 + 26260 10372 16978 17036 29790 29790 0.0034068076649873547 QTDLRKFRSY 10 Unmodified _QTDLRKFRSY_ 0 0 0 ENSG00000134398|ENST00000256797|ERN2 ENSG00000134398|ENST00000256797|ERN2 ENSG00000134398|ENST00000256797|ERN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 438.2854919433594 3 438.570204 1312.68878 NaN NaN NaN NaN NaN NaN NaN 74.498 1 75.162 74.662 75.662 0.6644 0 0 0 1.0011 1 34294 34294 0.77653 0 1 26261 2807 16979 17037 29791 29791 0.04494678203377589 QTEKKKRG 8 Unmodified _QTEKKKRG_ 0 0 0 REV__ENST00000519935.1_1_7:27209203-27211037:+|nuORF REV__ENST00000519935.1_1_7:27209203-27211037:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.79217529296875 2 487.790715 973.566878 3.3848 0.0016511 0.31693 0.0001546 3.7017 0.0018057 487.7907673720222 91.907 0.48079 92.569 92.342 92.823 0.66198 57 23 3 0 0 0 0.7471 1 42246 42246 2.5775 0 1 1900800 + 26262 17041 16980 17038 29792 29792 0.07903680911658739 QTEKKKRG 8 Unmodified _QTEKKKRG_ 0 0 0 REV__ENST00000519935.1_1_7:27209203-27211037:+|nuORF REV__ENST00000519935.1_1_7:27209203-27211037:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 487.790715 973.566878 3.3848 0.0016511 0.31693 0.0001546 3.7017 0.0018057 487.7907673720222 91.907 0.48079 92.569 92.342 92.823 0.66198 -0.0006808 0.00023635 NaN 2.5775 57 23 3 NaN NaN NaN NaN 0 NaN NaN 0 1900800 + 26263 17041 16980 17038 0.07903680911658739 QTGGFDLPE 9 Unmodified _QTGGFDLPE_ 0 0 0 REV__ENST00000504459.5_1_5:74009375-74016573:+|nuORF REV__ENST00000504459.5_1_5:74009375-74016573:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 963.4452514648438 1 963.441802 962.434526 3.7938 0.0036551 0.50963 0.000491 4.3034 0.0041461 963.4422395279158 60.513 0.23264 61.175 61.109 61.341 0.66261 14 11 2 0 0 0 0.24465 1 27730 27730 20.454 2.3186 1 505770 + 26264 10348 16981 17039 29793 29793 -0.04819388615817388 QTGGFDLPE 9 Unmodified _QTGGFDLPE_ 0 0 0 REV__ENST00000504459.5_1_5:74009375-74016573:+|nuORF REV__ENST00000504459.5_1_5:74009375-74016573:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 963.441802 962.434526 3.6794 0.0035449 0.88041 0.00084822 4.5599 0.0043932 963.4416017768299 61.168 0.18834 61.421 61.347 61.535 0.25245 0.12282 0.00015403 NaN 20.454 10 9 2 NaN NaN NaN NaN 0 NaN NaN 0 318360 + 26265 10348 16981 17039 -0.04819388615817388 QTGGFDLPE 9 Unmodified _QTGGFDLPE_ 0 0 0 REV__ENST00000504459.5_1_5:74009375-74016573:+|nuORF REV__ENST00000504459.5_1_5:74009375-74016573:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 963.441802 962.434526 3.7938 0.0036551 0.50963 0.000491 4.3034 0.0041461 963.4422395279158 60.513 0.23264 61.175 61.109 61.341 0.66261 -0.12282 -0.0002032 NaN 20.454 14 11 2 NaN NaN NaN NaN 0 NaN NaN 0 505770 + 26266 10348 16981 17039 -0.04819388615817388 QTKKREKI 8 Unmodified _QTKKREKI_ 0 0 0 nc|ENSG00000114013|P42081-2|CD86;nc|ENSG00000114013|P42081-5|CD86;nc|ENSG00000114013|P42081-6|CD86;nc|ENSG00000114013|P42081-3|CD86;ENSG00000114013|ENST00000330540|CD86;nc|ENSG00000114013|P42081-4|CD86 nc|ENSG00000114013|P42081-2|CD86 nc|ENSG00000114013|P42081-2|CD86 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 344.2179870605469 3 344.217102 1029.62948 2.7597 0.00094994 -1.0922 -0.00037595 1.6675 0.00057399 344.21708492566205 12.377 0.083646 13.014 12.978 13.062 0.63746 9 5 3 0 0 0 0.65679 1 5545 5545 9.3831 0 1 5326900 26267 1885 16982 17040 29794 29794 0.11584826979856189 QTKKTKRRPK 10 Unmodified _QTKKTKRRPK_ 0 0 0 REV__nc|ENSG00000155755|Q96Q45-2|TMEM237 REV__nc|ENSG00000155755|Q96Q45-2|TMEM237 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 635.6879272460938 2 635.906945 1269.79934 NaN NaN NaN NaN NaN NaN NaN 82.104 1 82.189 81.689 82.689 0.084106 0 0 0 0.99572 1 40486 40486 5.2969 0.76802 1 + 26268 12749 16983 17041 29795 29795 0.17522942982259337 QTKKWRKKVMM 11 Unmodified _QTKKWRKKVMM_ 0 0 0 REV__ENST00000560307.5_1_15:101821921-101825192:-|nuORF REV__ENST00000560307.5_1_15:101821921-101825192:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 732.4182739257812 2 732.420516 1462.82648 NaN NaN NaN NaN NaN NaN NaN 76.585 1 76.585 76.085 77.085 0 0 0 0 1.0044 1 37536 37536 4.897 1.9018 1 + 26269 17363 16984 17042 29796 29796 0.11357967206754438 QTKLRHEQLL 10 Unmodified _QTKLRHEQLL_ 0 0 0 REV__ENST00000554063.1_1_14:23416808-23417238:-|nuORF REV__ENST00000554063.1_1_14:23416808-23417238:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.5824890136719 3 422.582333 1264.72517 2.4673 0.0010426 -1.2758 -0.00053911 1.1916 0.00050353 422.58164493036617 105.18 0.27966 105.18 104.97 105.25 0 29 13 3 0 0 0 0.93713 1 57780 57780 0.62683 0 1 456650 + 26270 10737 16985 17043 29797 29797 0.1033955510006308 QTKLRHEQLL 10 Unmodified _QTKLRHEQLL_ 0 0 0 REV__ENST00000554063.1_1_14:23416808-23417238:-|nuORF REV__ENST00000554063.1_1_14:23416808-23417238:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 422.582333 1264.72517 2.4673 0.0010426 -1.2758 -0.00053911 1.1916 0.00050353 422.58164493036617 105.18 0.27966 105.18 104.97 105.25 0 0.020736 0.00057189 NaN 0.62683 29 13 3 NaN NaN NaN NaN 0 NaN NaN 0 456650 + 26271 10737 16985 17043 0.1033955510006308 QTLSKMVAE 9 Unmodified _QTLSKMVAE_ 0 0 0 REV__ENSG00000067334|ENST00000436063|DNTTIP2 REV__ENSG00000067334|ENST00000436063|DNTTIP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.181396484375 3 336.179437 1005.51648 NaN NaN NaN NaN NaN NaN NaN 20.656 1 21.309 20.809 21.809 0.65346 0 0 0 0.8984 1 9382 9382 2.2828 0 1 + 26272 10452 16986 17044 29798 29798 0.013943904716484212 QTPGPSALA 9 Unmodified _QTPGPSALA_ 0 0 0 REV__nc|ENSG00000059915|A5PKW4-2|PSD REV__nc|ENSG00000059915|A5PKW4-2|PSD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.2259521484375 2 421.224342 840.434132 3.0065 0.0012664 0.35449 0.00014932 3.361 0.0014157 421.22453918203917 47.457 0.39634 48.11 47.901 48.297 0.65356 35 16 3 0 0 0 0.086415 1 21695 21695 36.127 3.8215 1 918120 + 26273 10392 16987 17045 29799 29799 0.007532364549888371 QTRPRKLRRE 10 Unmodified _QTRPRKLRRE_ 0 0 0 REV__ENST00000466480.1_1_1:114448336-114454776:+|nuORF REV__ENST00000466480.1_1_1:114448336-114454776:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 447.2751159667969 3 447.272493 1338.79565 NaN NaN NaN NaN NaN NaN NaN 104.96 1 105.56 105.06 106.06 0.59885 0 0 0 1.0019 1 48475 48475 0.12286 0.028024 1 + 26274 11477 16988 17046 29800 29800 0.1398027320840356 QTSLQRKRHYW 11 Unmodified _QTSLQRKRHYW_ 0 0 0 ENST00000597589.5_1_19:47177782-47200527:-|nuORF;ENST00000599019.5_1_19:47177782-47200527:-|nuORF ENST00000597589.5_1_19:47177782-47200527:-|nuORF ENST00000597589.5_1_19:47177782-47200527:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 751.9047241210938 2 751.902391 1501.79023 NaN NaN NaN NaN NaN NaN NaN 74.339 1 74.339 73.839 74.839 0 0 0 0 1.0059 1 36305 36305 2.9952 1.5133 1 26275 9287 16989 17047 29801 29801 0.05940549625915992 QTVKRELI 8 Unmodified _QTVKRELI_ 0 0 0 ENSG00000196110|ENST00000591998|ZNF699 ENSG00000196110|ENST00000591998|ZNF699 ENSG00000196110|ENST00000591998|ZNF699 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 493.5174255371094 2 493.803291 985.59203 3.0937 0.0015277 -0.0060658 -2.9953E-06 3.0877 0.0015247 493.80349627457736 13.953 0.11791 13.953 13.888 14.005 0 9 6 2 0 0 0 0.7471 1 6113 6113 0.79363 0 1 512430 26276 5719 16990 17048 29802 29802 0.09865735714231505 QTVRILQQ 8 Unmodified _QTVRILQQ_ 0 0 0 REV__BAP1|p.E283Gfs*52|1|0.19|ENSG00000163930|chr3:52405848-52405848|T/-|frameshift_variant REV__BAP1|p.E283Gfs*52|1|0.19|ENSG00000163930|chr3:52405848-52405848|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 329.1878967285156 3 329.197819 984.571629 NaN NaN NaN NaN NaN NaN NaN 69.87 1 70.127 69.627 70.627 0.25642 0 0 0 0.99035 1 31995 31995 1.1933 0 1 + 26277 9976 16991 17049 29803 29803 0.07872565054424285 QTVRKVSVE 9 Unmodified _QTVRKVSVE_ 0 0 0 REV__ENST00000437800.6_1_12:6925109-6928492:+|nuORF REV__ENST00000437800.6_1_12:6925109-6928492:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.306396484375 2 523.303655 1044.59276 3.4122 0.0017856 0.43544 0.00022787 3.8477 0.0020135 523.3038839446587 80.776 1.6208 81.436 80.742 82.363 0.65998 229 108 3 0 0 0 1.152 1 37421 37421 1.4819 0 1 1677500 + 26278 10227 16992 17050 29804 29804 0.07224530363305348 QTWWRRRRRSI 11 Unmodified _QTWWRRRRRSI_ 0 0 0 ENSG00000154736|ENST00000284987|ADAMTS5 ENSG00000154736|ENST00000284987|ADAMTS5 ENSG00000154736|ENST00000284987|ADAMTS5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 800.9557495117188 2 800.955824 1599.89709 NaN NaN NaN NaN NaN NaN NaN 71.237 1 71.237 70.737 71.737 0 0 0 0 1.0082 1 34623 34623 0 0 1 26279 3838 16993 17051 29805 29805 0.12114144630959345 QTYRNEEEL 9 Unmodified _QTYRNEEEL_ 0 0 0 REV__ENST00000481143.2_1_X:31116236-31187660:-|nuORF REV__ENST00000481143.2_1_X:31116236-31187660:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.5206298828125 3 394.519287 1180.53603 2.9154 0.0011502 -0.4505 -0.00017773 2.4649 0.00097246 394.5193361761752 56.173 0.40663 56.841 56.658 57.064 0.66829 72 24 4 0 0 0 0.1038 1 25749 25749 10.8 1.0353 1 5117100 + 26280 16698 16994 17052 29806 29806 -0.047015619838930434 QVAERVRYYRE 11 Unmodified _QVAERVRYYRE_ 0 0 0 nc|ENSG00000213199|Q9UHC3-4|ASIC3;ENSG00000213199|ENST00000349064|ASIC3;nc|ENSG00000213199|Q9UHC3-2|ASIC3;nc|ENSG00000213199|Q9UHC3-3|ASIC3 nc|ENSG00000213199|Q9UHC3-4|ASIC3 nc|ENSG00000213199|Q9UHC3-4|ASIC3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 490.0830078125 3 490.26003 1467.75826 2.8423 0.0013935 -2.0862 -0.0010228 0.75613 0.0003707 490.5940373074578 74.394 0.035065 74.653 74.631 74.666 0.25831 4 2 2 0 0 0 0.13295 1 34218 34218 0.073264 0 1 902280 26281 6085 16995 17053 29807 29807 0.043091371521313704 QVAKALLLL 9 Unmodified _QVAKALLLL_ 0 0 0 REV__ENST00000523568.1_7:102228019-102246337:-|nuORF REV__ENST00000523568.1_7:102228019-102246337:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.8490295410156 2 484.828778 967.643003 NaN NaN NaN NaN NaN NaN NaN 64.445 1 64.445 63.945 64.945 0 0 0 0 0.86044 1 30533 30533 7.2892 2.5332 1 + 26282 11055 16996 17054 29808 29808 0.1578868475909303 QVAKPLLVD 9 Unmodified _QVAKPLLVD_ 0 0 0 nc|ENSG00000055957|P19827-3|ITIH1;nc|ENSG00000055957|P19827-2|ITIH1;ENSG00000055957|ENST00000273283|ITIH1 nc|ENSG00000055957|P19827-3|ITIH1 nc|ENSG00000055957|P19827-3|ITIH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.20416259765625 3 328.20257 981.585882 NaN NaN NaN NaN NaN NaN NaN 53.873 1 54.539 54.039 55.039 0.6665 0 0 0 0.90699 1 24637 24637 0.96228 0 1 26283 619 16997 17055 29809 29809 0.09435217482712233 QVALAPGW 8 Unmodified _QVALAPGW_ 0 0 0 REV__ENSG00000106591|ENST00000223324|MRPL32 REV__ENSG00000106591|ENST00000223324|MRPL32 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.2331237792969 2 421.231971 840.449388 NaN NaN NaN NaN NaN NaN NaN 64.088 1 64.803 64.303 65.303 0.71521 0 0 0 0.94507 1 30144 30144 9.3474 0 1 + 26284 11088 16998 17056 29810 29810 0.02278148042853445 QVALRKSL 8 Unmodified _QVALRKSL_ 0 0 0 ENSG00000221947|ENST00000408926|XKR9 ENSG00000221947|ENST00000408926|XKR9 ENSG00000221947|ENST00000408926|XKR9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 457.7930603027344 2 457.792727 913.5709 NaN NaN NaN NaN NaN NaN NaN 64.841 1 64.841 64.341 65.341 0 0 0 0 0.89651 1 30798 30798 12.532 0 1 26285 6153 16999 17057 29811 29811 0.11065770405377862 QVAMTERYRLW 11 Unmodified _QVAMTERYRLW_ 0 0 0 ENSG00000185666|ENST00000358763|SYN3 ENSG00000185666|ENST00000358763|SYN3 ENSG00000185666|ENST00000358763|SYN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 726.8765258789062 2 726.874453 1451.73435 NaN NaN NaN NaN NaN NaN NaN 72.705 1 73.369 72.869 73.869 0.66398 0 0 0 1.0059 1 33368 33368 2.9952 0 1 26286 5523 17000 17058 29812 29812 0.02655580394093704 QVARRVWDTWF 11 Unmodified _QVARRVWDTWF_ 0 0 0 REV__ENSG00000123384|ENST00000243077|LRP1 REV__ENSG00000123384|ENST00000243077|LRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 732.3798217773438 2 732.38076 1462.74697 NaN NaN NaN NaN NaN NaN NaN 64.771 1 64.771 64.271 65.271 0 0 0 0 1.0061 1 30753 30753 2.7352 1.2533 1 + 26287 11615 17001 17059 29813 29813 0.0341035984863538 QVDLYDWYRWL 11 Unmodified _QVDLYDWYRWL_ 0 0 0 nc|ENSG00000136295|Q9C0H2-4|TTYH3;ENSG00000136295|ENST00000258796|TTYH3 nc|ENSG00000136295|Q9C0H2-4|TTYH3 nc|ENSG00000136295|Q9C0H2-4|TTYH3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.4627075195312 3 519.589265 1555.74596 NaN NaN NaN NaN NaN NaN NaN 64.033 1 64.033 63.533 64.533 0 0 0 0 1.0072 1 30240 30240 0.45452 0.046251 1 26288 2943 17002 17060 29814 29814 -0.009678993109218936 QVDQRKIYVWI 11 Unmodified _QVDQRKIYVWI_ 0 0 0 REV__ENST00000380680.4_1_13:30423667-30423889:-|nuORF REV__ENST00000380680.4_1_13:30423667-30423889:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 724.4057006835938 2 724.406444 1446.79833 NaN NaN NaN NaN NaN NaN NaN 78.666 1 78.918 78.418 79.418 0.25127 0 0 0 1.0073 1 36224 36224 1.1933 0.735 1 + 26289 15881 17003 17061 29815 29815 0.09280683822703395 QVEGPQAL 8 Unmodified _QVEGPQAL_ 0 0 0 REV__nc|ENSG00000129646|Q9H0J4-2|QRICH2 REV__nc|ENSG00000129646|Q9H0J4-2|QRICH2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.2259216308594 2 421.224342 840.434132 3.0065 0.0012664 0.35449 0.00014932 3.361 0.0014157 421.22453918203917 47.457 0.39634 48.11 47.901 48.297 0.65356 35 16 3 0 0 0 0.65723 1 21799 21799 9.3474 0 1 918120 + 26290 11792 17004 17062 29816 29816 0.0075323645500020575 QVEKRKKKKR 10 Unmodified _QVEKRKKKKR_ 0 0 0 REV__ENSG00000172404|ENST00000307221|DNAJB7 REV__ENSG00000172404|ENST00000307221|DNAJB7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 664.7589721679688 2 664.43587 1326.85719 NaN NaN NaN NaN NaN NaN NaN 68.064 1 68.064 67.564 68.564 0 0 0 0 0.99464 1 32730 32730 6.2058 2.9245 1 + 26291 13547 17005 17063 29817 29817 0.2068320490768656 QVERWFRRRR 10 Unmodified _QVERWFRRRR_ 0 0 0 ENSG00000143418|ENST00000368954|CERS2;ENST00000559020.1_1_1:150940136-150940936:-|nuORF ENSG00000143418|ENST00000368954|CERS2 ENSG00000143418|ENST00000368954|CERS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.954345703125 3 496.951754 1487.83343 NaN NaN NaN NaN NaN NaN NaN 57.855 1 57.855 57.355 58.355 0 0 0 0 1.0004 1 26679 26679 1.3296 0 1 26292 3367 17006 17064 29818 29818 0.10902784193854131 QVEYMPKQLYK 11 Unmodified _QVEYMPKQLYK_ 0 0 0 REV__nc|ENSG00000157404|P10721-2|KIT REV__nc|ENSG00000157404|P10721-2|KIT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 713.8760986328125 2 713.873588 1425.73262 NaN NaN NaN NaN NaN NaN NaN 60.753 1 60.753 60.253 61.253 0 0 0 0 1.0044 1 28272 28272 4.897 1.9018 1 + 26293 12800 17007 17065 29819 29819 0.03678526585485997 QVFHLRLVLN 10 Unmodified _QVFHLRLVLN_ 0 0 0 ENSG00000163810|ENST00000296125|TGM4 ENSG00000163810|ENST00000296125|TGM4 ENSG00000163810|ENST00000296125|TGM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.871337890625 2 619.87204 1237.72953 NaN NaN NaN NaN NaN NaN NaN 90.599 1 90.85 90.35 91.35 0.25141 0 0 0 1.0003 1 41661 41661 1.4819 0 1 26294 4253 17008 17066 29820 29820 0.1201706431365892 QVFLLLIKRK 10 Unmodified _QVFLLLIKRK_ 0 0 0 REV__ENST00000397128.6_1_5:40760712-40760853:-|nuORF REV__ENST00000397128.6_1_5:40760712-40760853:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 629.4254760742188 2 629.423908 1256.83326 NaN NaN NaN NaN NaN NaN NaN 71.722 1 71.722 71.222 72.222 0 0 0 0 1.0015 1 34868 34868 0.45834 0 1 + 26295 16013 17009 17067 29821 29821 0.21511971421318776 QVFQEWWRRYM 11 Unmodified _QVFQEWWRRYM_ 0 0 0 REV__ENST00000553865.1_1_14:99968556-99969378:+|nuORF REV__ENST00000553865.1_1_14:99968556-99969378:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 814.896484375 2 814.893177 1627.7718 NaN NaN NaN NaN NaN NaN NaN 53.824 1 53.824 53.324 54.324 0 0 0 0 1.008 1 24676 24676 0.35063 0.043601 1 + 26296 10707 17010 17068 29822 29822 -0.016973283402876405 QVFQEWWRRYM 11 Unmodified _QVFQEWWRRYM_ 0 0 0 REV__ENST00000553865.1_1_14:99968556-99969378:+|nuORF REV__ENST00000553865.1_1_14:99968556-99969378:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 814.8955688476562 2 814.893177 1627.7718 NaN NaN NaN NaN NaN NaN NaN 80.733 1 80.983 80.483 81.483 0.24947 0 0 0 1.008 1 37171 37171 0.30703 0.30703 1 + 26297 10707 17010 17068 29823 29823 -0.016973283402876405 QVFRLMRI 8 Unmodified _QVFRLMRI_ 0 0 0 ENSG00000124134|ENST00000537075|KCNS1 ENSG00000124134|ENST00000537075|KCNS1 ENSG00000124134|ENST00000537075|KCNS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.25341796875 2 531.815679 1061.6168 NaN NaN NaN NaN NaN NaN NaN 79.41 1 80.071 79.571 80.571 0.66082 0 0 0 0.99035 1 36590 36590 2.5775 0.27475 1 26298 2338 17011 17069 29824 29824 0.08846092315957321 QVGDPKIAI 9 Unmodified _QVGDPKIAI_ 0 0 0 REV__ENST00000485076.1_1_17:49244191-49244524:+|nuORF REV__ENST00000485076.1_1_17:49244191-49244524:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.7783203125 2 470.776742 939.538931 2.9409 0.0013845 0.26105 0.0001229 3.2019 0.0015074 470.7769042638009 31.267 0.21831 31.885 31.74 31.958 0.61736 21 13 2 0 0 0 0.24272 1 14329 14329 27.629 0 1 401230 + 26299 16739 17012 17070 29825 29825 0.0667435793156983 QVGHVIYVK 9 Unmodified _QVGHVIYVK_ 0 0 0 REV__ENSG00000075914|ENST00000265564|EXOSC7 REV__ENSG00000075914|ENST00000265564|EXOSC7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.8037109375 2 521.805834 1041.59712 NaN NaN NaN NaN NaN NaN NaN 41.187 1 41.187 40.687 41.687 0 0 0 0 0.59707 1 18709 18709 15.847 2.3393 1 + 26300 10537 17013 17071 29826 29826 0.07798039576823612 QVGYGHTESL 10 Unmodified _QVGYGHTESL_ 0 0 0 REV__nc|ENSG00000054654|Q8WXH0|SYNE2 REV__nc|ENSG00000054654|Q8WXH0|SYNE2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.76416015625 2 545.76182 1089.50909 3.5338 0.0019286 0.40777 0.00022255 3.9415 0.0021511 545.7620642069902 52.397 0.29746 52.66 52.502 52.8 0.26345 24 14 2 0 0 0 0.38486 1 24010 24010 25.399 8.2864 1 2276200 + 26301 10365 17014 17072 29827 29827 -0.03208625804427356 QVHLHWWLWWL 11 Unmodified _QVHLHWWLWWL_ 0 0 0 ENST00000361229.8_1_X:101976007-102003782:+|nuORF ENST00000361229.8_1_X:101976007-102003782:+|nuORF ENST00000361229.8_1_X:101976007-102003782:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 802.4172973632812 2 802.419688 1602.82482 NaN NaN NaN NaN NaN NaN NaN 63.834 1 64.549 64.049 65.049 0.71521 0 0 0 1.0072 1 29953 29953 1.3295 1.3295 1 26302 7221 17015 17073 29828 29828 0.04752417504710138 QVHLHWWLWWL 11 Unmodified _QVHLHWWLWWL_ 0 0 0 ENST00000361229.8_1_X:101976007-102003782:+|nuORF ENST00000361229.8_1_X:101976007-102003782:+|nuORF ENST00000361229.8_1_X:101976007-102003782:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 802.6901245117188 2 802.419688 1602.82482 NaN NaN NaN NaN NaN NaN NaN 96.719 1 97.321 96.821 97.821 0.6019 0 0 0 1.008 1 44468 44468 0.35063 0.35063 1 26303 7221 17015 17073 29829 29829 0.04752417504710138 QVHLLIDWWDY 11 Unmodified _QVHLLIDWWDY_ 0 0 0 REV__nc|ENSG00000175221|Q9Y2X0-2|MED16 REV__nc|ENSG00000175221|Q9Y2X0-2|MED16 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 743.919189453125 2 744.369527 1486.7245 NaN NaN NaN NaN NaN NaN NaN 93.272 1 93.358 92.858 93.858 0.086212 0 0 0 1.0073 1 48832 48832 1.1933 0.84271 1 + 26304 13667 17016 17074 29830 29830 0.0006071566035643627 QVHLRLEWLSL 11 Unmodified _QVHLRLEWLSL_ 0 0 0 ENSG00000139641|ENST00000394048|ESYT1;nc|ENSG00000139641|Q9BSJ8-2|ESYT1 ENSG00000139641|ENST00000394048|ESYT1 ENSG00000139641|ENST00000394048|ESYT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 697.4030151367188 2 697.401161 1392.78777 NaN NaN NaN NaN NaN NaN NaN 76.813 1 76.813 76.313 77.313 0 0 0 0 1.0047 1 37652 37652 4.5289 1.5336 1 26305 3157 17017 17075 29831 29831 0.10708701168277912 QVHTRRPKLPQ 11 Unmodified _QVHTRRPKLPQ_ 0 0 0 ENSG00000119705|ENST00000557342|SLIRP ENSG00000119705|ENST00000557342|SLIRP ENSG00000119705|ENST00000557342|SLIRP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 680.4030151367188 2 680.402027 1358.7895 NaN NaN NaN NaN NaN NaN NaN 81.213 1 81.213 80.713 81.713 0 0 0 0 1.0057 1 40437 40437 3.2813 0.28607 1 26306 2160 17018 17076 29832 29832 0.12445754976874923 QVILKLRKIRE 11 Unmodified _QVILKLRKIRE_ 0 0 0 REV__nc|ENSG00000116127|Q8TCU4-2|ALMS1 REV__nc|ENSG00000116127|Q8TCU4-2|ALMS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.0702209472656 3 465.976794 1394.90855 NaN NaN NaN NaN NaN NaN NaN 61.874 1 61.874 61.374 62.374 0 0 0 0 1.0079 1 28917 28917 0.45452 0 1 + 26307 11394 17019 17077 29833 29833 0.2268952888171043 QVILRRMLKGR 11 Unmodified _QVILRRMLKGR_ 0 0 0 ENSG00000130312|ENST00000252602|MRPL34 ENSG00000130312|ENST00000252602|MRPL34 ENSG00000130312|ENST00000252602|MRPL34 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.4319458007812 2 685.432273 1368.84999 NaN NaN NaN NaN NaN NaN NaN 17.266 1 17.266 16.766 17.766 0 0 0 0 1.008 1 7668 7668 0.35063 0 1 26308 2587 17020 17078 29834 29834 0.1803214903557091 QVIRLYQRRR 10 Unmodified _QVIRLYQRRR_ 0 0 0 nc|ENSG00000290456|Q8N1L4-2|CYP4Z2P;nc|ENSG00000290456|Q8N1L4|CYP4Z2P;ENSG00000186160|ENST00000334194|CYP4Z1 nc|ENSG00000290456|Q8N1L4-2|CYP4Z2P nc|ENSG00000290456|Q8N1L4-2|CYP4Z2P MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 694.4254150390625 2 694.423294 1386.83203 4.5189 0.003138 -1.0545 -0.00073227 3.4644 0.0024057 694.4224355355126 95.37 0.63596 95.637 95.337 95.973 0.26751 78 39 3 0 0 0 0.94246 1 43925 43925 0.40072 0.093686 1 672130 26309 5558 17021 17079 29835 29835 0.1540915010509707 QVIRLYQRRRW 11 Unmodified _QVIRLYQRRRW_ 0 0 0 nc|ENSG00000290456|Q8N1L4-2|CYP4Z2P;nc|ENSG00000290456|Q8N1L4|CYP4Z2P;ENSG00000186160|ENST00000334194|CYP4Z1 nc|ENSG00000290456|Q8N1L4-2|CYP4Z2P nc|ENSG00000290456|Q8N1L4-2|CYP4Z2P MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 787.4609985351562 2 787.46295 1572.91135 NaN NaN NaN NaN NaN NaN NaN 62.092 1 62.092 61.592 62.592 0 0 0 0 1.0073 1 29063 29063 2.9952 2.6882 1 26310 5558 17022 17080 29836 29836 0.1478079705923392 QVKIWFMDY 9 Unmodified _QVKIWFMDY_ 0 0 0 ENSG00000218819|ENST00000405799|TDRD15 ENSG00000218819|ENST00000405799|TDRD15 ENSG00000218819|ENST00000405799|TDRD15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 615.306396484375 2 615.30481 1228.59507 NaN NaN NaN NaN NaN NaN NaN 74.518 1 74.777 74.277 75.277 0.25831 0 0 0 0.89683 1 34278 34278 4.3292 0.38484 1 26311 6142 17023 17081 29837 29837 -0.010087572232578168 QVKKKKVKM 9 Unmodified _QVKKKKVKM_ 0 0 0 REV__ENST00000513820.1_1_5:118462594-118462864:-|nuORF REV__ENST00000513820.1_1_5:118462594-118462864:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.8703002929688 2 558.867911 1115.72127 NaN NaN NaN NaN NaN NaN NaN 90.076 1 90.328 89.828 90.828 0.25137 0 0 0 0.91206 1 41423 41423 0.6015 0.076735 1 + 26312 16995 17024 17082 29838 29838 0.16803794072666278 QVKKRADE 8 Unmodified _QVKKRADE_ 0 0 0 REV__ENST00000472883.1_1_9:123290187-123301393:-|nuORF REV__ENST00000472883.1_1_9:123290187-123301393:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.27099609375 2 487.274898 972.535243 NaN NaN NaN NaN NaN NaN NaN 65.172 1 65.881 65.381 66.381 0.70891 0 0 0 0.89651 1 30784 30784 12.532 0.89125 1 + 26313 12085 17025 17083 29839 29839 0.04787688157693992 QVKKTQTQKEV 11 Unmodified _QVKKTQTQKEV_ 0 0 0 ENST00000373382.5_1_10:70883290-70883544:+|nuORF ENST00000373382.5_1_10:70883290-70883544:+|nuORF ENST00000373382.5_1_10:70883290-70883544:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 439.587890625 3 439.589265 1315.74596 NaN NaN NaN NaN NaN NaN NaN 67.441 1 68.143 67.643 68.643 0.70218 0 0 0 1.0041 1 32070 32070 2.4348 0 1 26314 7358 17026 17084 29840 29840 0.10072100689058061 QVKLLQLL 8 Unmodified _QVKLLQLL_ 0 0 0 REV__ENSG00000057294|ENST00000340811|PKP2 REV__ENSG00000057294|ENST00000340811|PKP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.82415771484375 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 13.029 1 13.029 12.529 13.529 0 0 0 0 0.94507 1 5689 5689 9.3474 0 1 + 26315 10377 17027 17085 29841 29841 0.14868398242049352 QVKLNKLAFL 10 Unmodified _QVKLNKLAFL_ 0 0 0 ENST00000563305.1_1_16:67472433-67472676:-|nuORF ENST00000563305.1_1_16:67472433-67472676:-|nuORF ENST00000563305.1_1_16:67472433-67472676:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.3734741210938 2 587.371341 1172.72813 NaN NaN NaN NaN NaN NaN NaN 86.553 1 86.583 86.083 87.083 0.030289 0 0 0 0.99733 1 43583 43583 3.9444 0.3479 1 26316 9007 17028 17086 29842 29842 0.1486743022489918 QVKREQEEQWL 11 Unmodified _QVKREQEEQWL_ 0 0 0 REV__nc|ENSG00000119392|Q53GS7-2|GLE1 REV__nc|ENSG00000119392|Q53GS7-2|GLE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.4156494140625 3 491.587924 1471.74194 NaN NaN NaN NaN NaN NaN NaN 68.096 1 68.096 67.596 68.596 0 0 0 0 1.0041 1 32748 32748 2.4348 1.1051 1 + 26317 11497 17029 17087 29843 29843 0.02494011195381063 QVKRIHEYKRQ 11 Unmodified _QVKRIHEYKRQ_ 0 0 0 nc|ENSG00000068976|P11217-2|PYGM;ENSG00000068976|ENST00000164139|PYGM;ENSG00000100504|ENST00000216392|PYGL;nc|ENSG00000100504|P06737-2|PYGL nc|ENSG00000068976|P11217-2|PYGM;ENSG00000100504|ENST00000216392|PYGL ENSG00000100504|ENST00000216392|PYGL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.65972900390625 3 495.61967 1483.83718 NaN NaN NaN NaN NaN NaN NaN 71.837 1 72.095 71.595 72.595 0.25786 0 0 0 1.0041 1 32953 32953 2.4348 1.22 1 26318 1225;743 17030 17088 29844 29844 0.1146140917703633 QVKRKILVL 9 Unmodified _QVKRKILVL_ 0 0 0 ENSG00000175826|ENST00000574322|CTDNEP1 ENSG00000175826|ENST00000574322|CTDNEP1 ENSG00000175826|ENST00000574322|CTDNEP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.25750732421875 3 366.257009 1095.7492 2.2753 0.00083334 -1.6435 -0.00060193 0.63185 0.00023142 366.2561708809636 25.745 0.47398 26.509 26.232 26.706 0.76356 20 12 2 0 0 0 1.0755 1 11587 11587 2.7352 0 1 397730 26319 5048 17031 17089 29845 29845 0.20515440324402334 QVKRKILVL 9 Unmodified _QVKRKILVL_ 0 0 0 ENSG00000175826|ENST00000574322|CTDNEP1 ENSG00000175826|ENST00000574322|CTDNEP1 ENSG00000175826|ENST00000574322|CTDNEP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.25775146484375 3 366.257009 1095.7492 2.6876 0.00098434 -0.87653 -0.00032103 1.811 0.0006633 366.25661459080425 26.256 0.33298 26.521 26.388 26.721 0.26489 70 27 4 0 0 0 0.72052 1 11923 11923 8.7454 3.3427 1 1281100 26320 5048 17031 17089 29846 29846 0.20515440324402334 QVKRKILVL 9 Unmodified _QVKRKILVL_ 0 0 0 ENSG00000175826|ENST00000574322|CTDNEP1 ENSG00000175826|ENST00000574322|CTDNEP1 ENSG00000175826|ENST00000574322|CTDNEP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.2578430175781 3 366.257009 1095.7492 2.4958 0.00091411 -0.68497 -0.00025087 1.8108 0.00066323 366.2566718136208 25.905 0.31302 26.53 26.387 26.7 0.62505 58 26 3 0 0 0 0.5141 1 11899 11899 12.241 2.6967 1 1340500 26321 5048 17031 17089 29847 29847 0.20515440324402334 QVKRNDYVHAL 11 Unmodified _QVKRNDYVHAL_ 0 0 0 nc|ENSG00000126457|Q99873-5|PRMT1;nc|ENSG00000126457|Q99873-2|PRMT1;nc|ENSG00000126457|Q99873-3|PRMT1;ENSG00000126457|ENST00000454376|PRMT1;ENST00000530361.5_1_19:50188842-50191499:+|nuORF nc|ENSG00000126457|Q99873-5|PRMT1 nc|ENSG00000126457|Q99873-5|PRMT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.24713134765625 3 448.245721 1341.71533 3.2448 0.0014545 0.24412 0.00010943 3.4889 0.0015639 448.2458128350279 20.568 0.26703 21.222 21.073 21.34 0.65346 70 25 3 0 0 0 0.37412 2 9308 9308;9352 17.863 8.0989 1 787790 26322 2452 17032 17090 29848;29849 29848 0.05814367094694717 QVKRNDYVHAL 11 Unmodified _QVKRNDYVHAL_ 0 0 0 nc|ENSG00000126457|Q99873-5|PRMT1;nc|ENSG00000126457|Q99873-2|PRMT1;nc|ENSG00000126457|Q99873-3|PRMT1;ENSG00000126457|ENST00000454376|PRMT1;ENST00000530361.5_1_19:50188842-50191499:+|nuORF nc|ENSG00000126457|Q99873-5|PRMT1 nc|ENSG00000126457|Q99873-5|PRMT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 448.245721 1341.71533 2.9438 0.0013196 0.88573 0.00039702 3.8296 0.0017166 448.2459648644738 21.603 0.15496 21.603 21.528 21.683 0 0.19044 0.00066553 NaN 17.863 22 16 2 NaN NaN NaN NaN 0 NaN NaN 0 154210 26323 2452 17032 17090 0.05814367094694717 QVKRRKYNED 10 Unmodified _QVKRRKYNED_ 0 0 0 ENSG00000124177|ENST00000373233|CHD6;nc|ENSG00000124177|Q8TD26-2|CHD6;nc|ENSG00000124177|Q8TD26-3|CHD6;ENST00000470470.1_1_20:40125942-40143569:-|nuORF ENSG00000124177|ENST00000373233|CHD6 ENSG00000124177|ENST00000373233|CHD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 668.86376953125 2 668.360025 1334.7055 4.1624 0.002782 1.4607 0.00097628 5.6232 0.0037583 668.3608175121702 103.95 0.14888 104.55 104.53 104.68 0.59821 45 33 2 0 0 0 0.94246 1 48071 48071 0.40072 0 1 503780 26324 2344 17033 17091 29850 29850 0.051531790893022844 QVKRSKVVKMR 11 Unmodified _QVKRSKVVKMR_ 0 0 0 REV__nc|ENSG00000025039|Q9NQL2-2|RRAGD REV__nc|ENSG00000025039|Q9NQL2-2|RRAGD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 453.6191101074219 3 453.618612 1357.83401 NaN NaN NaN NaN NaN NaN NaN 64.448 1 64.448 63.948 64.948 0 0 0 0 1.004 1 30536 30536 5.5233 1.6774 1 + 26325 10275 17034 17092 29851 29851 0.16940442798681943 QVLALHNRY 9 Unmodified _QVLALHNRY_ 0 0 0 ENST00000498249.1_1_2:150061334-150071221:+|nuORF ENST00000498249.1_1_2:150061334-150071221:+|nuORF ENST00000498249.1_1_2:150061334-150071221:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.5874633789062 2 557.311815 1112.60908 NaN NaN NaN NaN NaN NaN NaN 94.689 1 94.689 94.189 95.189 0 0 0 0 0.89683 1 50859 50859 4.3292 0 1 26326 8462 17035 17093 29852 29852 0.057276563200503006 QVLFLPLRPL 10 Unmodified _QVLFLPLRPL_ 0 0 0 REV__HERVH-int_dup513|chr2:34793244-34793739:+|1.4865682256419128|0.1927943028624172|2.95|519.0|13|3|sense REV__HERVH-int_dup513|chr2:34793244-34793739:+|1.4865682256419128|0.1927943028624172|2.95|519.0|13|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.2588806152344 3 399.256898 1194.74886 2.7812 0.0011104 1.1137 0.00044466 3.8949 0.0015551 399.2574314479083 33.416 0.3156 34.037 33.88 34.195 0.62031 32 12 3 0 0 0 0.93372 1 15358 15358 2.086 1.3095 1 2585400 + 26327 17731 17036 17094 29853 29853 0.15928020604565063 QVLFLPLRPL 10 Unmodified _QVLFLPLRPL_ 0 0 0 REV__HERVH-int_dup513|chr2:34793244-34793739:+|1.4865682256419128|0.1927943028624172|2.95|519.0|13|3|sense REV__HERVH-int_dup513|chr2:34793244-34793739:+|1.4865682256419128|0.1927943028624172|2.95|519.0|13|3|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 399.256898 1194.74886 2.3184 0.00092566 1.1422 0.00045603 3.4607 0.0013817 399.25744971743796 34.198 0.17701 34.198 34.094 34.271 0 -0.016995 0.00013003 NaN 2.086 18 10 2 NaN NaN NaN NaN 0 NaN NaN 0 3824600 + 26328 17731 17036 17094 0.15928020604565063 QVLFLPLRPL 10 Unmodified _QVLFLPLRPL_ 0 0 0 REV__HERVH-int_dup513|chr2:34793244-34793739:+|1.4865682256419128|0.1927943028624172|2.95|519.0|13|3|sense REV__HERVH-int_dup513|chr2:34793244-34793739:+|1.4865682256419128|0.1927943028624172|2.95|519.0|13|3|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 399.256898 1194.74886 2.2721 0.00090713 1.0395 0.00041503 3.3116 0.0013222 399.25723822885107 33.62 0.14072 34.408 34.302 34.443 0.78795 0.19249 7.0147E-06 NaN 2.086 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 508560 + 26329 17731 17036 17094 0.15928020604565063 QVLFLPLRPL 10 Unmodified _QVLFLPLRPL_ 0 0 0 REV__HERVH-int_dup513|chr2:34793244-34793739:+|1.4865682256419128|0.1927943028624172|2.95|519.0|13|3|sense REV__HERVH-int_dup513|chr2:34793244-34793739:+|1.4865682256419128|0.1927943028624172|2.95|519.0|13|3|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 399.256898 1194.74886 2.7812 0.0011104 1.1137 0.00044466 3.8949 0.0015551 399.2574314479083 33.416 0.3156 34.037 33.88 34.195 0.62031 -0.17848 9.592E-05 NaN 2.086 32 12 3 NaN NaN NaN NaN 0 NaN NaN 0 2585400 + 26330 17731 17036 17094 0.15928020604565063 QVLGEVPALQ 10 Unmodified _QVLGEVPALQ_ 0 0 0 ENST00000368408.3_1_1:155051524-155058895:+|nuORF ENST00000368408.3_1_1:155051524-155058895:+|nuORF ENST00000368408.3_1_1:155051524-155058895:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.30126953125 2 527.300581 1052.58661 NaN NaN NaN NaN NaN NaN NaN 54.452 1 54.452 53.952 54.952 0 0 0 0 0.98317 1 24981 24981 8.1555 1.4324 1 26331 7278 17037 17095 29854 29854 0.062420121317472876 QVLHLLWLLK 10 Unmodified _QVLHLLWLLK_ 0 0 0 ENST00000533796.1_1_11:755745-760254:+|nuORF ENST00000533796.1_1_11:755745-760254:+|nuORF ENST00000533796.1_1_11:755745-760254:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 632.2144165039062 2 631.902808 1261.79106 NaN NaN NaN NaN NaN NaN NaN 55.664 1 55.664 55.164 56.164 0 0 0 0 1.0001 1 25595 25595 1.6526 0 1 26332 8749 17038 17096 29855 29855 0.17063996012916505 QVLHRLLVLLQ 11 Unmodified _QVLHRLLVLLQ_ 0 0 0 REV__nc|ENSG00000101280|Q9Y264-2|ANGPT4 REV__nc|ENSG00000101280|Q9Y264-2|ANGPT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 666.4301147460938 2 666.429722 1330.84489 NaN NaN NaN NaN NaN NaN NaN 61.386 1 62.125 61.625 62.625 0.7396 0 0 0 1.0072 1 28456 28456 1.3295 0 1 + 26333 10879 17039 17097 29856 29856 0.192701684446547 QVLIQKHLVRL 11 Unmodified _QVLIQKHLVRL_ 0 0 0 ENSG00000159459|ENST00000290650|UBR1 ENSG00000159459|ENST00000290650|UBR1 ENSG00000159459|ENST00000290650|UBR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 673.9346923828125 2 673.935171 1345.85579 NaN NaN NaN NaN NaN NaN NaN 78.142 1 78.142 77.642 78.642 0 0 0 0 1.0072 1 38372 38372 1.3295 0 1 26334 4026 17040 17098 29857 29857 0.19669570818905413 QVLIQKHLVRL 11 Unmodified _QVLIQKHLVRL_ 0 0 0 ENSG00000159459|ENST00000290650|UBR1 ENSG00000159459|ENST00000290650|UBR1 ENSG00000159459|ENST00000290650|UBR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 673.9321899414062 2 673.935171 1345.85579 NaN NaN NaN NaN NaN NaN NaN 89.793 1 89.857 89.357 90.357 0.064346 0 0 0 1.008 1 46097 46097 0.35063 0 1 26335 4026 17040 17098 29858 29858 0.19669570818905413 QVLKDHRLLKM 11 Unmodified _QVLKDHRLLKM_ 0 0 0 REV__ENSG00000000938|ENST00000374005|FGR REV__ENSG00000000938|ENST00000374005|FGR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 690.8206787109375 2 690.910839 1379.80712 NaN NaN NaN NaN NaN NaN NaN 74.298 1 74.984 74.484 75.484 0.68662 0 0 0 1.0061 1 35907 35907 2.7352 0 1 + 26336 10150 17041 17099 29859 29859 0.13241334187500797 QVLLFENQYYP 11 Unmodified _QVLLFENQYYP_ 0 0 0 nc|ENSG00000144711|Q6DN90-2|IQSEC1;nc|ENSG00000144711|Q6DN90|IQSEC1;ENSG00000144711|ENST00000613206|IQSEC1 nc|ENSG00000144711|Q6DN90-2|IQSEC1 nc|ENSG00000144711|Q6DN90-2|IQSEC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 471.92779541015625 3 471.906482 1412.69762 NaN NaN NaN NaN NaN NaN NaN 66.597 1 67.301 66.801 67.801 0.7047 0 0 0 1.0073 1 31580 31580 0.40827 0 1 26337 3441 17042 17100 29860 29860 0.0077760704919001 QVLLLLLRI 9 Unmodified _QVLLLLLRI_ 0 0 0 ENST00000332674.9_2_10:112045956-112046085:+|nuORF ENST00000332674.9_2_10:112045956-112046085:+|nuORF ENST00000332674.9_2_10:112045956-112046085:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.9293212890625 2 540.878802 1079.74305 NaN NaN NaN NaN NaN NaN NaN 63.492 1 64.214 63.714 64.714 0.72236 0 0 0 0.90611 1 29745 29745 2.0598 0 1 26338 7006 17043 17101 29861 29861 0.20636922092876375 QVLLPPKKL 9 Unmodified _QVLLPPKKL_ 0 0 0 ENSG00000162621|ENST00000294635|LRRC53 ENSG00000162621|ENST00000294635|LRRC53 ENSG00000162621|ENST00000294635|LRRC53 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.7760009765625 2 518.349877 1034.6852 NaN NaN NaN NaN NaN NaN NaN 74.322 1 74.322 73.822 74.822 0 0 0 0 0.90611 1 36296 36296 2.0598 0.57785 1 26339 4150 17044 17102 29862 29862 0.1692466016745584 QVLQIRILHL 10 Unmodified _QVLQIRILHL_ 0 0 0 Tigger4a_dup3412|chr21:42574430-42574645:-|1.799983324160932|0.3457713842167352|2.38|539.0|3|1|sense Tigger4a_dup3412|chr21:42574430-42574645:-|1.799983324160932|0.3457713842167352|2.38|539.0|3|1|sense Tigger4a_dup3412|chr21:42574430-42574645:-|1.799983324160932|0.3457713842167352|2.38|539.0|3|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 616.7682495117188 2 616.895515 1231.77648 NaN NaN NaN NaN NaN NaN NaN 46.236 1 46.236 45.736 46.736 0 0 0 0 1.0001 1 21158 21158 1.6526 0 1 26340 18274 17045 17103 29863 29863 0.16985923864785946 QVLRRVQARLK 11 Unmodified _QVLRRVQARLK_ 0 0 0 REV__ENSG00000174996|ENST00000394067|KLC2 REV__ENSG00000174996|ENST00000394067|KLC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 683.9384155273438 2 683.941319 1365.86809 NaN NaN NaN NaN NaN NaN NaN 60.899 1 61.639 61.139 62.139 0.7396 0 0 0 0.98464 1 28172 28172 8.1555 2.8586 1 + 26341 13653 17046 17104 29864 29864 0.19978607281973382 QVLVRKRR 8 Unmodified _QVLVRKRR_ 0 0 0 PROS1|p.V510Gfs*3|1|0.37|ENSG00000184500|chr3:93879278-93879278|A/-|frameshift_variant;ENSG00000184500|ENST00000394236|PROS1 PROS1|p.V510Gfs*3|1|0.37|ENSG00000184500|chr3:93879278-93879278|A/-|frameshift_variant PROS1|p.V510Gfs*3|1|0.37|ENSG00000184500|chr3:93879278-93879278|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.8501586914062 2 527.851442 1053.68833 NaN NaN NaN NaN NaN NaN NaN 74.272 1 74.937 74.437 75.437 0.6644 0 0 0 0.99035 1 34184 34184 2.5775 0 1 26342 5445 17047 17105 29865 29865 0.16363348064828642 QVMFEEYRR 9 Unmodified _QVMFEEYRR_ 0 0 0 REV__nc|ENSG00000172782|Q8N9I5-2|FADS6 REV__nc|ENSG00000172782|Q8N9I5-2|FADS6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 629.332763671875 2 629.305872 1256.59719 NaN NaN NaN NaN NaN NaN NaN 60.558 1 61.298 60.798 61.798 0.7396 0 0 0 0.8984 1 27961 27961 3.9444 0.3479 1 + 26343 13562 17048 17106 29866 29866 -0.020843284854890953 QVNAKDNYW 9 Unmodified _QVNAKDNYW_ 0 0 0 nc|ENSG00000144893|Q86YW9-4|MED12L;nc|ENSG00000144893|Q86YW9|MED12L;MED12L|p.Q2074Sfs*63|1|0.33|ENSG00000144893|chr3:151416336-151416336|C/-|frameshift_variant;ENSG00000144893|ENST00000687756|MED12L;MED12L|p.Y484Sfs*2|1|0.03|ENSG00000144893|chr3:151165935-151165936|CT/-|frameshift_variant;nc|ENSG00000144893|Q86YW9-2|MED12L;nc|ENSG00000144893|Q86YW9-3|MED12L nc|ENSG00000144893|Q86YW9-4|MED12L nc|ENSG00000144893|Q86YW9-4|MED12L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.272216796875 2 569.269813 1136.52507 NaN NaN NaN NaN NaN NaN NaN 96.195 1 96.803 96.303 97.303 0.60769 0 0 0 0.90511 1 44232 44232 2.3027 0.24298 1 26344 3450 17049 17107 29867 29867 -0.037729195675410665 QVNKRQKWRRS 11 Unmodified _QVNKRQKWRRS_ 0 0 0 REV__ENSG00000144028|ENST00000323853|SNRNP200 REV__ENSG00000144028|ENST00000323853|SNRNP200 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.91058349609375 3 495.955164 1484.84366 NaN NaN NaN NaN NaN NaN NaN 69.023 1 69.023 68.523 69.523 0 0 0 0 1.0072 1 33280 33280 0.45452 0.046251 1 + 26345 12388 17050 17108 29868 29868 0.12063347128446367 QVNKRQKWRRS 11 Unmodified _QVNKRQKWRRS_ 0 0 0 REV__ENSG00000144028|ENST00000323853|SNRNP200 REV__ENSG00000144028|ENST00000323853|SNRNP200 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.07611083984375 3 495.955164 1484.84366 NaN NaN NaN NaN NaN NaN NaN 67.037 1 67.742 67.242 68.242 0.7047 0 0 0 1.0072 1 31817 31817 0.45452 0 1 + 26346 12388 17050 17108 29869 29869 0.12063347128446367 QVNQKLWKYR 10 Unmodified _QVNQKLWKYR_ 0 0 0 REV__ENST00000562687.6_3_16:32769598-32772029:+|nuORF REV__ENST00000562687.6_3_16:32769598-32772029:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 681.8857421875 2 681.885678 1361.7568 NaN NaN NaN NaN NaN NaN NaN 70.874 1 70.874 70.374 71.374 0 0 0 0 1.0001 1 34433 34433 1.6526 0.17072 1 + 26347 17384 17051 17109 29870 29870 0.09039547854035845 QVPFWWPRIRI 11 Unmodified _QVPFWWPRIRI_ 0 0 0 REV__ENSG00000203907|ENST00000370359|OOEP REV__ENSG00000203907|ENST00000370359|OOEP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 749.4285278320312 2 749.427513 1496.84047 NaN NaN NaN NaN NaN NaN NaN 86.327 1 86.327 85.827 86.827 0 0 0 0 1.008 1 44221 44221 0.35063 0 1 + 26348 14394 17052 17110 29871 29871 0.11192704021732425 QVPTWLFMQFR 11 Unmodified _QVPTWLFMQFR_ 0 0 0 REV__nc|ENSG00000291118|Q75MW2|ZNF767P REV__nc|ENSG00000291118|Q75MW2|ZNF767P MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 726.8764038085938 2 726.876465 1451.73838 NaN NaN NaN NaN NaN NaN NaN 62.162 1 62.162 61.662 62.662 0 0 0 0 1.0041 1 29105 29105 5.2969 2.0156 1 + 26349 16513 17053 17111 29872 29872 0.030576698878121533 QVPTWLFMQFR 11 Unmodified _QVPTWLFMQFR_ 0 0 0 REV__nc|ENSG00000291118|Q75MW2|ZNF767P REV__nc|ENSG00000291118|Q75MW2|ZNF767P MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 726.8761596679688 2 726.876465 1451.73838 NaN NaN NaN NaN NaN NaN NaN 60.509 1 61.249 60.749 61.749 0.7396 0 0 0 1.0041 1 27930 27930 5.2969 3.815 1 + 26350 16513 17053 17111 29873 29873 0.030576698878121533 QVPVRRFYRYK 11 Unmodified _QVPVRRFYRYK_ 0 0 0 REV__ENST00000474457.1_1_6:52958219-52962625:+|nuORF REV__ENST00000474457.1_1_6:52958219-52962625:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 756.4329223632812 2 756.433327 1510.8521 NaN NaN NaN NaN NaN NaN NaN 47.557 1 47.557 47.057 48.057 0 0 0 0 1.008 1 21773 21773 0.30703 0 1 + 26351 11261 17054 17112 29874 29874 0.11710901045080391 QVQFLFEL 8 Unmodified _QVQFLFEL_ 0 0 0 REV__ENSG00000100739|ENST00000216629|BDKRB1 REV__ENSG00000100739|ENST00000216629|BDKRB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 341.8543701171875 3 341.855171 1022.54368 2.4705 0.00084455 -2.0097 -0.00068702 0.46081 0.00015753 342.1895352434444 13.603 0.26739 14.252 14.058 14.325 0.6482 30 18 2 0 0 0 0.72385 1 6133 6133 3.9444 0 1 158960 + 26352 10846 17055 17113 29875 29875 0.03331242074330021 QVQHRYWRQIT 11 Unmodified _QVQHRYWRQIT_ 0 0 0 REV__nc|ENSG00000141577|Q9UPN4-3|CEP131 REV__nc|ENSG00000141577|Q9UPN4-3|CEP131 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.6697692871094 3 505.604019 1513.79023 NaN NaN NaN NaN NaN NaN NaN 65.18 1 65.889 65.389 66.389 0.70891 0 0 0 1.0072 1 30789 30789 0.45452 0 1 + 26353 12301 17056 17114 29876 29876 0.053885496259226784 QVQIHLLPWR 10 Unmodified _QVQIHLLPWR_ 0 0 0 REV__ENST00000394945.5_1_5:136403465-136476361:-|nuORF REV__ENST00000394945.5_1_5:136403465-136476361:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 645.3782348632812 2 645.377489 1288.74043 NaN NaN NaN NaN NaN NaN NaN 17.938 1 17.938 17.438 18.438 0 0 0 0 1.0001 1 7964 7964 1.6526 0.32309 1 + 26354 15976 17057 17115 29877 29877 0.10760466687906955 QVQKRNNVLKF 11 Unmodified _QVQKRNNVLKF_ 0 0 0 ENST00000477096.1_1_1:71530734-71530788:-|nuORF ENST00000477096.1_1_1:71530734-71530788:-|nuORF ENST00000477096.1_1_1:71530734-71530788:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 687.4063720703125 2 687.404235 1372.79392 NaN NaN NaN NaN NaN NaN NaN 96.539 1 97.141 96.641 97.641 0.6019 0 0 0 1.0059 1 44387 44387 2.9952 1.5133 1 26355 8240 17058 17116 29878 29878 0.12243219399761074 QVQVVFWR 8 Unmodified _QVQVVFWR_ 0 0 0 nc|ENSG00000064201|Q96QS1-4|TSPAN32;ENST00000461200.5_1_11:2323274-2335767:+|nuORF;ENST00000498313.5_1_11:2323379-2337620:+|nuORF;nc|ENSG00000064201|Q96QS1-3|TSPAN32;nc|ENSG00000064201|Q96QS1-5|TSPAN32;nc|ENSG00000064201|Q96QS1-2|TSPAN32;ENSG00000064201|ENST00000182290|TSPAN32 nc|ENSG00000064201|Q96QS1-4|TSPAN32 nc|ENSG00000064201|Q96QS1-4|TSPAN32 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.3357543945312 2 531.298176 1060.5818 NaN NaN NaN NaN NaN NaN NaN 96.807 1 96.807 96.307 97.307 0 0 0 0 0.9101 1 52495 52495 11.64 0 1 26356 666 17059 17117 29879 29879 0.05393172779645283 QVRDFFQKYYH 11 Unmodified _QVRDFFQKYYH_ 0 0 0 REV__ENSG00000112159|ENST00000369393|MDN1 REV__ENSG00000112159|ENST00000369393|MDN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.6346435546875 3 510.921126 1529.74155 NaN NaN NaN NaN NaN NaN NaN 69.224 1 69.224 68.724 69.724 0 0 0 0 1.0079 1 33399 33399 0.45452 0 1 + 26357 11262 17060 17118 29880 29880 -0.002133637337919936 QVREQCKKA 9 Unmodified _QVREQCKKA_ 0 0 0 REV__ENSG00000166801|ENST00000675163|FAM111A REV__ENSG00000166801|ENST00000675163|FAM111A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.2974243164062 2 545.295307 1088.57606 3.7694 0.0020554 -0.46194 -0.0002519 3.3075 0.0018035 545.295076677562 12.787 0.10118 13.43 13.379 13.48 0.64272 4 2 2 0 0 0 1.1154 1 5762 5762 2.0598 0.21551 1 430900 + 26358 13260 17061 17119 29881 29881 0.035317062056719806 QVRFCYADWRE 11 Unmodified _QVRFCYADWRE_ 0 0 0 REV__ENSG00000010327|ENST00000321725|STAB1 REV__ENSG00000010327|ENST00000321725|STAB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.84332275390625 3 491.562832 1471.66667 NaN NaN NaN NaN NaN NaN NaN 62.864 1 62.864 62.364 63.364 0 0 0 0 1.0073 1 29500 29500 1.2148 0 1 + 26359 10225 17062 17120 29882 29882 -0.050298695367473556 QVRKKQLVAFN 11 Unmodified _QVRKKQLVAFN_ 0 0 0 REV__nc|ENSG00000132361|O75153|CLUH REV__nc|ENSG00000132361|O75153|CLUH MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 665.9374389648438 2 665.901328 1329.7881 NaN NaN NaN NaN NaN NaN NaN 74.553 1 74.811 74.311 75.311 0.25831 0 0 0 0.98464 1 34295 34295 8.1555 2.8586 1 + 26360 11886 17063 17121 29883 29883 0.13640120888135243 QVRKYVMSWIK 11 Unmodified _QVRKYVMSWIK_ 0 0 0 ENSG00000111142|ENST00000323666|METAP2;nc|ENSG00000111142|P50579-3|METAP2;nc|ENSG00000111142|P50579-2|METAP2 ENSG00000111142|ENST00000323666|METAP2 ENSG00000111142|ENST00000323666|METAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.6210021972656 3 479.939352 1436.79623 NaN NaN NaN NaN NaN NaN NaN 63.753 1 64.476 63.976 64.976 0.72236 0 0 0 1.0053 1 29900 29900 3.8459 0.49018 1 26361 1744 17064 17122 29884 29884 0.09529931813221992 QVRLHVLWRWV 11 Unmodified _QVRLHVLWRWV_ 0 0 0 REV__nc|ENSG00000095383|Q9BYX2-6|TBC1D2 REV__nc|ENSG00000095383|Q9BYX2-6|TBC1D2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 746.4398803710938 2 746.438412 1490.86227 NaN NaN NaN NaN NaN NaN NaN 67.169 1 67.871 67.371 68.371 0.70218 0 0 0 1.0072 1 31888 31888 1.3295 0 1 + 26362 10762 17065 17123 29885 29885 0.13647508770282002 QVRLHWWWPKK 11 Unmodified _QVRLHWWWPKK_ 0 0 0 REV__ENST00000462349.5_1_21:44473992-44479496:-|nuORF REV__ENST00000462349.5_1_21:44473992-44479496:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 782.4378662109375 2 782.438412 1562.86227 NaN NaN NaN NaN NaN NaN NaN 87.692 1 87.732 87.232 88.232 0.039955 0 0 0 1.008 1 44471 44471 0.35063 0.043601 1 + 26363 12865 17066 17124 29886 29886 0.10335508770276647 QVRLKEKIL 9 Unmodified _QVRLKEKIL_ 0 0 0 ENST00000328194.7_2_11:9228302-9229140:-|nuORF ENST00000328194.7_2_11:9228302-9229140:-|nuORF ENST00000328194.7_2_11:9228302-9229140:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.249755859375 3 376.248403 1125.72338 2.9831 0.0011224 0.38997 0.00014673 3.3731 0.0012691 376.2485494205739 29.887 0.26979 30.145 29.969 30.239 0.25804 62 25 3 0 0 0 0.22824 1 13561 13561 21.537 0 1 1184100 26364 6969 17067 17125 29887 29887 0.16554546082124943 QVRLKEKIL 9 Unmodified _QVRLKEKIL_ 0 0 0 ENST00000328194.7_2_11:9228302-9229140:-|nuORF ENST00000328194.7_2_11:9228302-9229140:-|nuORF ENST00000328194.7_2_11:9228302-9229140:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.24945068359375 3 376.248403 1125.72338 2.6929 0.0010132 1.0843 0.00040795 3.7771 0.0014211 376.248875213647 29.533 0.30701 30.15 29.98 30.287 0.61789 56 19 4 0 0 0 0.55815 1 13515 13515 11.495 0 1 1123200 26365 6969 17067 17125 29888 29888 0.16554546082124943 QVRLQPRGM 9 Unmodified _QVRLQPRGM_ 0 0 0 nc|ENSG00000231852|P08686-2|CYP21A2;ENSG00000231852|ENST00000644719|CYP21A2 nc|ENSG00000231852|P08686-2|CYP21A2 nc|ENSG00000231852|P08686-2|CYP21A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.8097534179688 2 542.805842 1083.59713 4.1966 0.0022779 3.0361 0.001648 7.2326 0.0039259 542.8073924087557 102.45 0.15144 102.76 102.68 102.84 0.31737 8 4 2 0 0 0 1.1154 1 47406 47406 2.0598 0.21551 1 399940 26366 6184 17068 17126 29889 29889 0.05867716305192516 QVRPKLPLLKI 11 Unmodified _QVRPKLPLLKI_ 0 0 0 nc|ENSG00000198625|O15151-3|MDM4;nc|ENSG00000198625|O15151-2|MDM4;ENST00000470797.5_1_1:204494646-204501451:+|nuORF;nc|ENSG00000198625|O15151-5|MDM4;ENSG00000198625|ENST00000367182|MDM4 nc|ENSG00000198625|O15151-3|MDM4 nc|ENSG00000198625|O15151-3|MDM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 652.9440307617188 2 652.942465 1303.87038 NaN NaN NaN NaN NaN NaN NaN 108.35 1 108.35 107.85 108.85 0 0 0 0 1.008 1 59345 59345 0.35063 0 1 26367 5907 17069 17127 29890 29890 0.23059642967064065 QVRREVRNRWK 11 Unmodified _QVRREVRNRWK_ 0 0 0 ENSG00000118242|ENST00000263268|MREG;nc|ENSG00000118242|Q8N565-2|MREG ENSG00000118242|ENST00000263268|MREG ENSG00000118242|ENST00000263268|MREG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 763.9456176757812 2 763.942382 1525.87021 NaN NaN NaN NaN NaN NaN NaN 73.052 1 73.052 72.552 73.552 0 0 0 0 1.0072 1 35566 35566 1.3295 0.25807 1 26368 2106 17070 17128 29891 29891 0.1283103601977018 QVRRSQRRGFT 11 Unmodified _QVRRSQRRGFT_ 0 0 0 ENST00000510911.5_1_5:176513947-176515281:+|nuORF ENST00000510911.5_1_5:176513947-176515281:+|nuORF ENST00000510911.5_1_5:176513947-176515281:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 695.8916015625 2 695.892358 1389.77016 NaN NaN NaN NaN NaN NaN NaN 72.821 1 72.821 72.321 73.321 0 0 0 0 1.0061 1 35434 35434 2.7352 0 1 26369 8562 17071 17129 29892 29892 0.09086798685939357 QVRVYLEEQE 10 Unmodified _QVRVYLEEQE_ 0 0 0 REV__ENSG00000182871|ENST00000651438|COL18A1 REV__ENSG00000182871|ENST00000651438|COL18A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 646.8272705078125 2 646.827692 1291.64083 NaN NaN NaN NaN NaN NaN NaN 75.061 1 75.32 74.82 75.82 0.25831 0 0 0 1.0001 1 34528 34528 1.6526 0.17072 1 + 26370 13909 17072 17130 29893 29893 0.006675594926491613 QVSALYRE 8 Unmodified _QVSALYRE_ 0 0 0 REV__ENSG00000185304|ENST00000398146|RGPD2 REV__ENSG00000185304|ENST00000398146|RGPD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 322.5072937011719 3 322.506541 964.497795 2.3379 0.000754 -0.12373 -3.9903E-05 2.2142 0.00071409 322.5064807192547 27.461 0.44588 27.461 27.073 27.519 0 53 33 2 0 0 0 0.72814 1 12232 12232 3.5965 0 1 864740 + 26371 14013 17073 17131 29894 29894 0.014125968920893683 QVSFNFQADNR 11 Unmodified _QVSFNFQADNR_ 0 0 0 REV__nc|ENSG00000162949|Q6MZZ7-2|CAPN13 REV__nc|ENSG00000162949|Q6MZZ7-2|CAPN13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 442.68817138671875 3 442.545947 1324.61601 NaN NaN NaN NaN NaN NaN NaN 66.483 1 66.483 65.983 66.983 0 0 0 0 1.0073 1 31783 31783 0.40827 0 1 + 26372 12969 17074 17132 29895 29895 -0.033310755900402 QVTFDEGFDCF 11 Unmodified _QVTFDEGFDCF_ 0 0 0 REV__ENSG00000182179|ENST00000333486|UBA7 REV__ENSG00000182179|ENST00000333486|UBA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 436.5137939453125 3 436.513144 1306.5176 NaN NaN NaN NaN NaN NaN NaN 72.488 1 73.152 72.652 73.652 0.66398 0 0 0 1.0072 1 33251 33251 0.45452 0 1 + 26373 13878 17075 17133 29896 29896 -0.12339439950119413 QVTPLFIHFRN 11 Unmodified _QVTPLFIHFRN_ 0 0 0 ENSG00000166825|ENST00000300060|ANPEP ENSG00000166825|ENST00000300060|ANPEP ENSG00000166825|ENST00000300060|ANPEP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 686.381103515625 2 686.380229 1370.7459 NaN NaN NaN NaN NaN NaN NaN 79.326 1 79.578 79.078 80.078 0.25127 0 0 0 1.0073 1 36529 36529 1.1933 0 1 26374 4509 17076 17134 29897 29897 0.07536145479730294 QVTRDYDEEE 10 Unmodified _QVTRDYDEEE_ 0 0 0 ENSG00000116754|ENST00000370949|SRSF11 ENSG00000116754|ENST00000370949|SRSF11 ENSG00000116754|ENST00000370949|SRSF11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 642.272705078125 2 642.272946 1282.53134 NaN NaN NaN NaN NaN NaN NaN 60.502 1 61.242 60.742 61.742 0.7396 0 0 0 1.0001 1 27923 27923 1.6526 0 1 26375 2049 17077 17135 29898 29898 -0.09862490917294053 QVTRLRALP 9 Unmodified _QVTRLRALP_ 0 0 0 ENST00000514698.5_1_4:980866-997838:+|nuORF;ENSG00000127415|ENST00000514224|IDUA;nc|ENSG00000127415|P35475-2|IDUA ENST00000514698.5_1_4:980866-997838:+|nuORF ENST00000514698.5_1_4:980866-997838:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.329345703125 2 527.330008 1052.64546 NaN NaN NaN NaN NaN NaN NaN 64.753 1 64.753 64.253 65.253 0 0 0 0 0.796 1 30742 30742 9.3831 0.63772 1 26376 2479 17078 17136 29899 29899 0.12124533216751843 QVTRLTLK 8 Unmodified _QVTRLTLK_ 0 0 0 nc|nan|P58505-2|C21orf58;ENSG00000160298|ENST00000291691|C21orf58 nc|nan|P58505-2|C21orf58 nc|nan|P58505-2|C21orf58 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.8066101074219 2 479.805834 957.597115 NaN NaN NaN NaN NaN NaN NaN 68.657 1 69.359 68.859 69.859 0.70218 0 0 0 0.99035 1 32757 32757 4.3292 0 1 26377 4054 17079 17137 29900 29900 0.1166203957683365 QVVDGECCGDY 11 Unmodified _QVVDGECCGDY_ 0 0 0 REV__ENSG00000079557|ENST00000226355|AFM REV__ENSG00000079557|ENST00000226355|AFM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 593.9486083984375 2 594.220814 1186.42707 NaN NaN NaN NaN NaN NaN NaN 66.126 1 66.83 66.33 67.33 0.7047 0 0 0 1.0059 1 31325 31325 2.9952 0.69251 1 + + 26378 10108 17080 17138 29901 29901 -0.15868232270031513 QVVEVFLFIIL 11 Unmodified _QVVEVFLFIIL_ 0 0 0 ENST00000521508.1_1_13:52586574-52593168:+|nuORF ENST00000521508.1_1_13:52586574-52593168:+|nuORF ENST00000521508.1_1_13:52586574-52593168:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 660.4019165039062 2 660.402307 1318.79006 NaN NaN NaN NaN NaN NaN NaN 66.948 1 67.652 67.152 68.152 0.7047 0 0 0 1.0059 1 31768 31768 2.9952 0.26005 1 26379 8641 17081 17139 29902 29902 0.14341736853361908 QVVIWRKLL 9 Unmodified _QVVIWRKLL_ 0 0 0 ENST00000518829.5_1_8:94717221-94722089:+|nuORF ENST00000518829.5_1_8:94717221-94722089:+|nuORF ENST00000518829.5_1_8:94717221-94722089:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 577.8736572265625 2 577.874051 1153.73355 NaN NaN NaN NaN NaN NaN NaN 99.684 1 100.28 99.782 100.78 0.59748 0 0 0 0.90611 1 46114 46114 2.0598 0 1 26380 8611 17082 17140 29903 29903 0.16283153807376038 QVVIWRKLLT 10 Unmodified _QVVIWRKLLT_ 0 0 0 ENST00000518829.5_1_8:94717221-94722089:+|nuORF ENST00000518829.5_1_8:94717221-94722089:+|nuORF ENST00000518829.5_1_8:94717221-94722089:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 628.8255004882812 2 628.39789 1254.78123 NaN NaN NaN NaN NaN NaN NaN 73.275 1 73.939 73.439 74.439 0.66398 0 0 0 0.99774 1 33667 33667 3.5965 0.60125 1 26381 8611 17083 17141 29904 29904 0.1640280800754681 QVVKIFVIVE 10 Unmodified _QVVKIFVIVE_ 0 0 0 REV__nc|ENSG00000172139|Q4G0N8-2|SLC9C1 REV__nc|ENSG00000172139|Q4G0N8-2|SLC9C1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.364013671875 2 587.365724 1172.7169 NaN NaN NaN NaN NaN NaN NaN 72.209 1 72.467 71.967 72.967 0.25876 0 0 0 0.99774 1 33144 33144 3.5965 0.31518 1 + 26382 13539 17084 17142 29905 29905 0.13744608130718916 QVVKRMRTNEE 11 Unmodified _QVVKRMRTNEE_ 0 0 0 REV__nc|ENSG00000186628|A1L4K1-2|FSD2 REV__nc|ENSG00000186628|A1L4K1-2|FSD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.91357421875 3 463.913754 1388.71943 NaN NaN NaN NaN NaN NaN NaN 63.941 1 64.656 64.156 65.156 0.71521 0 0 0 1.0041 1 30030 30030 2.4348 1.1051 1 + 26383 14063 17085 17143 29906 29906 0.040620885261432704 QVVKTIGLR 9 Unmodified _QVVKTIGLR_ 0 0 0 ENSG00000147065|ENST00000360270|MSN;EZR|p.N186Kfs*6|1|0.25|ENSG00000092820|chr6:158783657-158783660|AGCA/-|frameshift_variant;ENSG00000092820|ENST00000367075|EZR ENSG00000147065|ENST00000360270|MSN;ENSG00000092820|ENST00000367075|EZR ENSG00000147065|ENST00000360270|MSN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.30511474609375 2 507.326934 1012.63931 NaN NaN NaN NaN NaN NaN NaN 68.53 1 68.53 68.03 69.03 0 0 0 0 0.88072 1 33004 33004 10.074 0 1 26384 3543;1101 17086 17144 29907 29907 0.13350014985235248 QVVQLSLAPED 11 Unmodified _QVVQLSLAPED_ 0 0 0 nc|ENSG00000053108|Q6MZW2-3|FSTL4;FSTL4|p.G790Vfs*6|1|0.28|ENSG00000053108|chr5:133199255-133199255|C/-|frameshift_variant;ENSG00000053108|ENST00000265342|FSTL4 nc|ENSG00000053108|Q6MZW2-3|FSTL4 nc|ENSG00000053108|Q6MZW2-3|FSTL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 599.8174438476562 2 599.819335 1197.62412 NaN NaN NaN NaN NaN NaN NaN 62.196 1 62.927 62.427 63.427 0.73077 0 0 0 0.89058 1 28960 28960 17.113 0.96379 1 26385 597 17087 17145 29908 29908 0.033210586067070835 QVVQSVVHL 9 Unmodified _QVVQSVVHL_ 0 0 0 nc|ENSG00000170776|Q12802-4|AKAP13;ENSG00000170776|ENST00000394518|AKAP13;nc|ENSG00000170776|Q12802-2|AKAP13;ENST00000559391.1_1_15:86279335-86283581:+|nuORF nc|ENSG00000170776|Q12802-4|AKAP13 nc|ENSG00000170776|Q12802-4|AKAP13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.762939453125 2 504.795466 1007.57638 NaN NaN NaN NaN NaN NaN NaN 63.852 1 63.852 63.352 64.352 0 0 0 0 0.69911 1 30115 30115 12.532 0 1 26386 4768 17088 17146 29909 29909 0.0728944919718515 QVVRARLQDQ 10 Unmodified _QVVRARLQDQ_ 0 0 0 ENSG00000164933|ENST00000297578|SLC25A32;ENST00000523701.1_1_8:104413742-104414267:-|nuORF ENSG00000164933|ENST00000297578|SLC25A32 ENSG00000164933|ENST00000297578|SLC25A32 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 606.6612548828125 2 606.84401 1211.67347 NaN NaN NaN NaN NaN NaN NaN 74.559 1 74.559 74.059 75.059 0 0 0 0 0.9754 1 36425 36425 9.3831 0.63772 1 26387 4356 17089 17147 29910 29910 0.07609811406155131 QVVRRRNVP 9 Unmodified _QVVRRRNVP_ 0 0 0 REV__nc|ENSG00000149295|P14416-3|DRD2 REV__nc|ENSG00000149295|P14416-3|DRD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.3447265625 2 562.343981 1122.67341 3.6794 0.0020691 -1.1646 -0.00065488 2.5149 0.0014142 562.3429618694144 82.831 0.56666 83.491 83.108 83.674 0.66019 39 30 2 0 0 0 1.129 2 38141 38141;38192 1.8442 0.51471 1 533410 + 26388 17981 17090 17148 29911;29912 29911 0.11697856196815337 QVVRRRNVP 9 Unmodified _QVVRRRNVP_ 0 0 0 REV__nc|ENSG00000149295|P14416-3|DRD2 REV__nc|ENSG00000149295|P14416-3|DRD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.3447875976562 2 562.343981 1122.67341 3.6826 0.0020709 -1.1234 -0.00063174 2.5592 0.0014391 562.3432381638758 83.181 0.72768 83.841 83.599 84.326 0.66019 60 43 2 0 0 0 1.2126 1 38249 38249 0.52476 0 1 928580 + 26389 17981 17090 17148 29913 29913 0.11697856196815337 QVVRRRTQRRK 11 Unmodified _QVVRRRTQRRK_ 0 0 0 ENST00000478085.5_1_22:40802939-40803686:+|nuORF;ENSG00000100359|ENST00000248929|SGSM3;nc|ENSG00000100359|Q96HU1-2|SGSM3 ENST00000478085.5_1_22:40802939-40803686:+|nuORF ENST00000478085.5_1_22:40802939-40803686:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.1037292480469 3 494.978191 1481.91274 NaN NaN NaN NaN NaN NaN NaN 66.412 1 67.117 66.617 67.617 0.7047 0 0 0 1.0079 1 31482 31482 0.45452 0.35968 1 26390 1210 17091 17149 29914 29914 0.19106431147997682 QVVVTLRREDF 11 Unmodified _QVVVTLRREDF_ 0 0 0 ENST00000463798.1_1_12:7171527-7172615:+|nuORF;ENSG00000182326|ENST00000360817|C1S ENST00000463798.1_1_12:7171527-7172615:+|nuORF ENST00000463798.1_1_12:7171527-7172615:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.5911560058594 3 454.589376 1360.7463 NaN NaN NaN NaN NaN NaN NaN 79.592 1 79.912 79.412 80.412 0.31998 0 0 0 1.0061 1 38883 38883 1.1098 0.18422 1 26391 5328 17092 17150 29915 29915 0.08035520408930097 QVWFLQRRFHK 11 Unmodified _QVWFLQRRFHK_ 0 0 0 ENST00000461141.5_1_3:183952309-183959823:+|nuORF;VWA5B2|p.I651Yfs*88|1|0.07|ENSG00000145198|chr3:184238620-184238620|C/-|frameshift_variant;ENSG00000145198|ENST00000691901|VWA5B2 ENST00000461141.5_1_3:183952309-183959823:+|nuORF ENST00000461141.5_1_3:183952309-183959823:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 772.939453125 2 772.933494 1543.85244 NaN NaN NaN NaN NaN NaN NaN 95.901 1 95.901 95.401 96.401 0 0 0 0 1.008 1 51771 51771 0.35063 0 1 26392 8077 17093 17151 29916 29916 0.10226320764900265 QVWLYWDDFR 10 Unmodified _QVWLYWDDFR_ 0 0 0 REV__nc|ENSG00000088298|Q9BV94-2|EDEM2 REV__nc|ENSG00000088298|Q9BV94-2|EDEM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 476.6061706542969 3 476.562938 1426.66699 2.4864 0.0011849 3.6397 0.0017346 6.1262 0.0029195 476.89812183619324 62.813 0.025349 63.535 63.516 63.541 0.72236 5 3 2 0 0 0 0.93628 1 29351 29351 0.69767 0.19171 1 2491600 + 26393 10677 17094 17152 29917 29917 -0.029281265452027583 QVWQNENERIH 11 Unmodified _QVWQNENERIH_ 0 0 0 ENSG00000179532|ENST00000254579|DNHD1 ENSG00000179532|ENST00000254579|DNHD1 ENSG00000179532|ENST00000254579|DNHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 726.8506469726562 2 726.852564 1451.69057 NaN NaN NaN NaN NaN NaN NaN 72.148 1 72.407 71.907 72.907 0.25876 0 0 0 1.0057 1 33115 33115 3.2813 1.7994 1 26394 5220 17095 17153 29918 29918 -0.017203127786842742 QVYEHGEQWSE 11 Unmodified _QVYEHGEQWSE_ 0 0 0 nc|ENSG00000138759|Q86XX4|FRAS1;ENSG00000138759|ENST00000512123|FRAS1;nc|ENSG00000138759|Q86XX4-4|FRAS1;nc|ENSG00000138759|Q86XX4-6|FRAS1;nc|ENSG00000138759|Q86XX4-5|FRAS1 nc|ENSG00000138759|Q86XX4|FRAS1 nc|ENSG00000138759|Q86XX4|FRAS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.8472595214844 3 464.533596 1390.57896 NaN NaN NaN NaN NaN NaN NaN 73.28 1 73.539 73.039 74.039 0.25876 0 0 0 1.0072 1 33656 33656 0.45452 0 1 26395 3115 17096 17154 29919 29919 -0.10070791926455058 QVYQKHCFRRR 11 Unmodified _QVYQKHCFRRR_ 0 0 0 ENST00000266880.11_1_12:133417602-133417977:-|nuORF ENST00000266880.11_1_12:133417602-133417977:-|nuORF ENST00000266880.11_1_12:133417602-133417977:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.7644958496094 3 507.605366 1519.79427 NaN NaN NaN NaN NaN NaN NaN 77.254 1 77.254 76.754 77.754 0 0 0 0 1.0072 1 37881 37881 0.45452 0 1 26396 6629 17097 17155 29920 29920 0.05516315847967235 QVYRKKYVIY 10 Unmodified _QVYRKKYVIY_ 0 0 0 ENST00000584906.5_1_17:8280884-8283916:-|nuORF;ENST00000415894.1_1_1:165788676-165788994:+|nuORF;ENST00000602923.1_1_11:2356544-2356979:-|nuORF;ENSG00000161970|ENST00000648839|RPL26;ENSG00000037241|ENST00000265100|RPL26L1 ENST00000584906.5_1_17:8280884-8283916:-|nuORF ENST00000584906.5_1_17:8280884-8283916:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 680.2459106445312 2 680.392805 1358.77106 NaN NaN NaN NaN NaN NaN NaN 52.961 1 53.764 53.264 54.264 0.80351 0 0 0 1.0015 1 24137 24137 0.45834 0 1 26397 516 17098 17156 29921 29921 0.10602200282323793 QWCWRWWRRPN 11 Unmodified _QWCWRWWRRPN_ 0 0 0 REV__ENST00000564348.5_1_19:7982609-7983760:+|nuORF REV__ENST00000564348.5_1_19:7982609-7983760:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 837.4027099609375 2 837.404578 1672.7946 NaN NaN NaN NaN NaN NaN NaN 83.721 1 83.749 83.249 84.249 0.028603 0 0 0 1.0082 1 41616 41616 0 0 1 + 26398 17399 17099 17157 29922 29922 -0.014882644321687621 QWCWRWWRRPN 11 Unmodified _QWCWRWWRRPN_ 0 0 0 REV__ENST00000564348.5_1_19:7982609-7983760:+|nuORF REV__ENST00000564348.5_1_19:7982609-7983760:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 837.4016723632812 2 837.404578 1672.7946 NaN NaN NaN NaN NaN NaN NaN 75.521 1 76.185 75.685 76.685 0.6644 0 0 0 1.0082 1 34795 34795 0 0 1 + 26399 17399 17099 17157 29923 29923 -0.014882644321687621 QWFTPDGF 8 Unmodified _QWFTPDGF_ 0 0 0 ENSG00000135632|ENST00000389501|SMYD5 ENSG00000135632|ENST00000389501|SMYD5 ENSG00000135632|ENST00000389501|SMYD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 333.1523132324219 3 333.151987 996.434132 NaN NaN NaN NaN NaN NaN NaN 40.058 1 40.858 40.358 41.358 0.80014 0 0 0 0.99035 1 18137 18137 0.45834 0 1 26400 2884 17100 17158 29924 29924 -0.06422763545003818 QWKLKGEL 8 Unmodified _QWKLKGEL_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;TTN|p.R30215Vfs*13|1|0.21|ENSG00000155657|chr2:178545544-178545544|G/-|frameshift_variant;nc|ENSG00000155657|Q8WZ42-5|TTN;nc|ENSG00000155657|Q8WZ42-9|TTN;nc|ENSG00000155657|Q8WZ42-10|TTN;nc|ENSG00000155657|Q8WZ42-3|TTN;TTN|p.P20319Hfs*66|1|0.07|ENSG00000155657|chr2:178582577-178582578|-/AAAATAAATAT|frameshift_variant;TTN|p.A15448Hfs*16|1|0.24|ENSG00000155657|chr2:178610249-178610261|TTCTCCTCCCAGC/-|frameshift_variant;TTN|p.G17760Ifs*40|1|0.07|ENSG00000155657|chr2:178594192-178594193|-/TCGACTTCAGAGAT|frameshift_variant;TTN|p.V17759Afs*3|1|0.05|ENSG00000155657|chr2:178594194-178594195|-/G|frameshift_variant ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.5306091308594 3 334.530798 1000.57057 2.2118 0.00073991 -0.38902 -0.00013014 1.8228 0.00060977 334.5306199893289 46.635 0.23378 47.464 47.412 47.646 0.82915 31 17 2 0 0 0 0.59268 1 21228 21228 10.824 2.6684 1 1703300 26401 3871 17101 17159 29925 29925 0.07030350685522535 QWKLKGEL 8 Unmodified _QWKLKGEL_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;TTN|p.R30215Vfs*13|1|0.21|ENSG00000155657|chr2:178545544-178545544|G/-|frameshift_variant;nc|ENSG00000155657|Q8WZ42-5|TTN;nc|ENSG00000155657|Q8WZ42-9|TTN;nc|ENSG00000155657|Q8WZ42-10|TTN;nc|ENSG00000155657|Q8WZ42-3|TTN;TTN|p.P20319Hfs*66|1|0.07|ENSG00000155657|chr2:178582577-178582578|-/AAAATAAATAT|frameshift_variant;TTN|p.A15448Hfs*16|1|0.24|ENSG00000155657|chr2:178610249-178610261|TTCTCCTCCCAGC/-|frameshift_variant;TTN|p.G17760Ifs*40|1|0.07|ENSG00000155657|chr2:178594192-178594193|-/TCGACTTCAGAGAT|frameshift_variant;TTN|p.V17759Afs*3|1|0.05|ENSG00000155657|chr2:178594194-178594195|-/G|frameshift_variant ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.53094482421875 3 334.530798 1000.57057 2.2496 0.00075256 0.41835 0.00013995 2.668 0.00089252 334.530954592414 47.08 0.36273 47.733 47.652 48.015 0.65219 47 20 3 0 0 0 0.60592 2 21545 21545;21606 10.074 3.3508 1 1705900 26402 3871 17101 17159 29926;29927 29926 0.07030350685522535 QWLKWRRLRRL 11 Unmodified _QWLKWRRLRRL_ 0 0 0 ENST00000551099.5_1_12:113659271-113664634:+|nuORF ENST00000551099.5_1_12:113659271-113664634:+|nuORF ENST00000551099.5_1_12:113659271-113664634:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 805.9993286132812 2 805.99696 1609.97937 NaN NaN NaN NaN NaN NaN NaN 69.367 1 69.367 68.867 69.867 0 0 0 0 1.0082 1 33491 33491 0.30703 0.30703 1 26403 8875 17102 17160 29928 29928 0.1987766670988549 QWLRLNKLKT 10 Unmodified _QWLRLNKLKT_ 0 0 0 REV__ENST00000523561.1_1_8:99044328-99047937:+|nuORF REV__ENST00000523561.1_1_8:99044328-99047937:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 650.3989868164062 2 650.398422 1298.78229 NaN NaN NaN NaN NaN NaN NaN 89.597 1 89.848 89.348 90.348 0.25137 0 0 0 1.0015 1 41207 41207 0.45834 0.18932 1 + 26404 17066 17103 17161 29929 29929 0.1448502237642515 QWLRLNKLKT 10 Unmodified _QWLRLNKLKT_ 0 0 0 REV__ENST00000523561.1_1_8:99044328-99047937:+|nuORF REV__ENST00000523561.1_1_8:99044328-99047937:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 650.3989868164062 2 650.398422 1298.78229 NaN NaN NaN NaN NaN NaN NaN 89.863 1 90.115 89.615 90.615 0.25137 0 0 0 1.0015 1 41326 41326 0.45834 0.10771 1 + 26405 17066 17103 17161 29930 29930 0.1448502237642515 QWLRLNKLKT 10 Unmodified _QWLRLNKLKT_ 0 0 0 REV__ENST00000523561.1_1_8:99044328-99047937:+|nuORF REV__ENST00000523561.1_1_8:99044328-99047937:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 650.3990478515625 2 650.398422 1298.78229 NaN NaN NaN NaN NaN NaN NaN 92.897 1 93.152 92.652 93.652 0.25497 0 0 0 1.0015 1 42700 42700 0.45834 0.10771 1 + 26406 17066 17103 17161 29931 29931 0.1448502237642515 QWLRLNKLKT 10 Unmodified _QWLRLNKLKT_ 0 0 0 REV__ENST00000523561.1_1_8:99044328-99047937:+|nuORF REV__ENST00000523561.1_1_8:99044328-99047937:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 650.4014282226562 2 650.398422 1298.78229 NaN NaN NaN NaN NaN NaN NaN 92.481 1 93.128 92.628 93.628 0.64714 0 0 0 1.0015 1 42549 42549 0.45834 0.18932 1 + 26407 17066 17103 17161 29932 29932 0.1448502237642515 QWLRLNKLKT 10 Unmodified _QWLRLNKLKT_ 0 0 0 REV__ENST00000523561.1_1_8:99044328-99047937:+|nuORF REV__ENST00000523561.1_1_8:99044328-99047937:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 650.3992309570312 2 650.398422 1298.78229 NaN NaN NaN NaN NaN NaN NaN 92.661 1 93.308 92.808 93.808 0.64714 0 0 0 1.0015 1 42630 42630 0.45834 0.15131 1 + 26408 17066 17103 17161 29933 29933 0.1448502237642515 QWLRLNKLKT 10 Unmodified _QWLRLNKLKT_ 0 0 0 REV__ENST00000523561.1_1_8:99044328-99047937:+|nuORF REV__ENST00000523561.1_1_8:99044328-99047937:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 650.4002685546875 2 650.398422 1298.78229 NaN NaN NaN NaN NaN NaN NaN 92.699 1 93.346 92.846 93.846 0.64714 0 0 0 1.0015 1 42647 42647 0.45834 0.15131 1 + 26409 17066 17103 17161 29934 29934 0.1448502237642515 QWLRLWTQWRR 11 Unmodified _QWLRLWTQWRR_ 0 0 0 ENSG00000177854|ENST00000369982|TMEM187 ENSG00000177854|ENST00000369982|TMEM187 ENSG00000177854|ENST00000369982|TMEM187 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.0183715820312 3 543.635542 1627.8848 NaN NaN NaN NaN NaN NaN NaN 70.918 1 71.622 71.122 72.122 0.70386 0 0 0 1.0082 1 34018 34018 0.08335 0.010087 1 26410 5138 17104 17162 29935 29935 0.09597108167895385 QWNVLFHL 8 Unmodified _QWNVLFHL_ 0 0 0 REV__ENST00000578304.1_1_17:38412687-38417062:+|nuORF REV__ENST00000578304.1_1_17:38412687-38417062:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.3571166992188 2 528.784902 1055.55525 3.4789 0.0018396 -0.66046 -0.00034924 2.8185 0.0014904 528.7842290321671 95.316 0.60346 95.934 95.729 96.332 0.61736 55 31 3 0 0 0 0.73686 1 43901 43901 2.8892 0 1 1135500 + 26411 17489 17105 17163 29936 29936 0.029694838883187913 QWPPDPPLHF 10 Unmodified _QWPPDPPLHF_ 0 0 0 ENSG00000116016|ENST00000263734|EPAS1;ENST00000466465.5_1_2:46607308-46611796:+|nuORF ENSG00000116016|ENST00000263734|EPAS1 ENSG00000116016|ENST00000263734|EPAS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.1929931640625 2 617.306198 1232.59784 NaN NaN NaN NaN NaN NaN NaN 75.701 1 75.701 75.201 76.201 0 0 0 0 0.62767 1 37099 37099 26.884 15.243 1 26412 2007 17106 17164 29937 29937 -0.009151657741313102 QWPPDPPLHF 10 Unmodified _QWPPDPPLHF_ 0 0 0 ENSG00000116016|ENST00000263734|EPAS1;ENST00000466465.5_1_2:46607308-46611796:+|nuORF ENSG00000116016|ENST00000263734|EPAS1 ENSG00000116016|ENST00000263734|EPAS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 617.17529296875 2 617.306198 1232.59784 NaN NaN NaN NaN NaN NaN NaN 74.436 1 75.123 74.623 75.623 0.68662 0 0 0 0.97102 1 35978 35978 10.074 3.8681 1 26413 2007 17106 17164 29938 29938 -0.009151657741313102 QWPRRRRRWRP 11 Unmodified _QWPRRRRRWRP_ 0 0 0 REV__ENST00000535818.1_1_11:60906157-60928919:-|nuORF REV__ENST00000535818.1_1_11:60906157-60928919:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 825.4762573242188 2 825.477257 1648.93996 NaN NaN NaN NaN NaN NaN NaN 73.076 1 73.076 72.576 73.576 0 0 0 0 1.0082 1 35582 35582 0 0 1 + 26414 17177 17107 17165 29939 29939 0.14144959479040153 QWPRRRRRWRP 11 Unmodified _QWPRRRRRWRP_ 0 0 0 REV__ENST00000535818.1_1_11:60906157-60928919:-|nuORF REV__ENST00000535818.1_1_11:60906157-60928919:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 825.480712890625 2 825.477257 1648.93996 NaN NaN NaN NaN NaN NaN NaN 95.037 1 95.037 94.537 95.537 0 0 0 0 1.0082 1 51090 51090 0 0 1 + 26415 17177 17107 17165 29940 29940 0.14144959479040153 QWPRRRRRWRP 11 Unmodified _QWPRRRRRWRP_ 0 0 0 REV__ENST00000535818.1_1_11:60906157-60928919:-|nuORF REV__ENST00000535818.1_1_11:60906157-60928919:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 825.6513671875 2 825.477257 1648.93996 NaN NaN NaN NaN NaN NaN NaN 96.088 1 96.165 95.665 96.665 0.076538 0 0 0 1.0082 1 50961 50961 0 0 1 + 26416 17177 17107 17165 29941 29941 0.14144959479040153 QWQRYQHQWQR 11 Unmodified _QWQRYQHQWQR_ 0 0 0 ENST00000577066.2_1_17:79004653-79005004:-|nuORF ENST00000577066.2_1_17:79004653-79005004:-|nuORF ENST00000577066.2_1_17:79004653-79005004:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 822.3991088867188 2 822.400547 1642.78654 NaN NaN NaN NaN NaN NaN NaN 84.622 1 84.622 84.122 85.122 0 0 0 0 1.0082 1 42881 42881 0 0 1 26417 9125 17108 17166 29942 29942 -0.00914120147945141 QWQRYREM 8 Unmodified _QWQRYREM_ 0 0 0 nc|ENSG00000131018|Q8NF91-4|SYNE1;ENSG00000131018|ENST00000367255|SYNE1;nc|ENSG00000131018|Q8NF91-8|SYNE1;nc|ENSG00000131018|Q8NF91-2|SYNE1;ENST00000367256.9_1_6:152443573-152639413:-|nuORF nc|ENSG00000131018|Q8NF91-4|SYNE1 nc|ENSG00000131018|Q8NF91-4|SYNE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 598.7516479492188 2 598.785107 1195.55566 NaN NaN NaN NaN NaN NaN NaN 73.019 1 73.718 73.218 74.218 0.69881 0 0 0 0.99035 1 35187 35187 0.69038 0.23204 1 26418 2635 17109 17167 29943 29943 -0.03429464454143272 QWRARRWRWWR 11 Unmodified _QWRARRWRWWR_ 0 0 0 REV__nc|ENSG00000171160|Q8NDC4-2|MORN4 REV__nc|ENSG00000171160|Q8NDC4-2|MORN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.6480102539062 3 581.650297 1741.92906 NaN NaN NaN NaN NaN NaN NaN 71.102 1 71.359 70.859 71.859 0.25786 0 0 0 1.0082 1 32567 32567 0 0 1 + 26419 18046 17110 17168 29944 29944 0.08777557104735934 QWRARRWRWWR 11 Unmodified _QWRARRWRWWR_ 0 0 0 REV__nc|ENSG00000171160|Q8NDC4-2|MORN4 REV__nc|ENSG00000171160|Q8NDC4-2|MORN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 871.9683837890625 2 871.971808 1741.92906 NaN NaN NaN NaN NaN NaN NaN 51.061 1 51.721 51.221 52.221 0.65956 0 0 0 1.0082 1 23348 23348 0 0 1 + 26420 18046 17110 17168 29945 29945 0.08777557104735934 QWRKKQVKNNL 11 Unmodified _QWRKKQVKNNL_ 0 0 0 REV__nc|ENSG00000067066|P23497-3|SP100 REV__nc|ENSG00000067066|P23497-3|SP100 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 721.42431640625 2 721.422959 1440.83137 4.1593 0.0030006 -1.4631 -0.0010555 2.6962 0.0019451 721.4218844484852 95.963 0.48647 96.571 96.28 96.766 0.60768 53 28 3 0 0 0 0.91345 1 44100 44100 1.3295 0.13619 1 852920 + 26421 10447 17111 17169 29946 29946 0.12858310665433237 QWRRREQERDR 11 Unmodified _QWRRREQERDR_ 0 0 0 REV__ENSG00000159450|ENST00000614923|TCHH REV__ENSG00000159450|ENST00000614923|TCHH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.2869262695312 3 538.948849 1613.82472 3.1011 0.0016713 3.0381 0.0016374 6.1392 0.0033087 539.2851159997189 48.458 0.1745 49.285 49.163 49.338 0.82705 11 8 2 0 0 0 0.91391 1 22091 22091 0.08335 0 1 422740 + 26422 12852 17112 17170 29947 29947 0.04235765766725308 QWRRRQRRRVR 11 Unmodified _QWRRRQRRRVR_ 0 0 0 ENST00000370332.5_1_1:92949124-92949509:-|nuORF ENST00000370332.5_1_1:92949124-92949509:-|nuORF ENST00000370332.5_1_1:92949124-92949509:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 826.9988403320312 2 826.998888 1651.98322 NaN NaN NaN NaN NaN NaN NaN 91.781 1 92.443 91.943 92.943 0.66198 0 0 0 1.0082 1 42235 42235 0 0 1 26423 7300 17113 17171 29948 29948 0.18331149256300705 QWTLRWHLRPR 11 Unmodified _QWTLRWHLRPR_ 0 0 0 REV__ENST00000395103.2_1_8:144806522-144808011:-|nuORF REV__ENST00000395103.2_1_8:144806522-144808011:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 774.9349975585938 2 774.936568 1547.85858 NaN NaN NaN NaN NaN NaN NaN 35.468 1 35.723 35.223 36.223 0.25524 0 0 0 1.008 1 16158 16158 0.30703 0.30703 1 + 26424 15978 17114 17172 29949 29949 0.10656838996442275 QWTSRKRK 8 Unmodified _QWTSRKRK_ 0 0 0 ENST00000275820.3_1_7:156745216-156745255:+|nuORF ENST00000275820.3_1_7:156745216-156745255:+|nuORF ENST00000275820.3_1_7:156745216-156745255:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3185424804688 2 545.317432 1088.62031 3.4792 0.0018973 -0.81329 -0.0004435 2.6659 0.0014538 545.3169124440693 83.541 1.7312 83.788 83.088 84.819 0.24722 279 102 3 0 0 0 0.74071 1 38179 38179 2.5775 1.2479 1 2574300 26425 6672 17115 17173 29950 29950 0.07954478414171717 QWVLHLKRYR 10 Unmodified _QWVLHLKRYR_ 0 0 0 REV__ENSG00000159459|ENST00000290650|UBR1 REV__ENSG00000159459|ENST00000290650|UBR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.94366455078125 3 466.942084 1397.80442 3.0482 0.0014234 1.6799 0.00078443 4.7282 0.0022078 466.942905759309 95.147 0.53116 95.765 95.681 96.212 0.61737 33 27 2 0 0 0 0.94217 1 43767 43767 0.15932 0.01943 1 612320 + 26426 12853 17116 17174 29951 29951 0.12143246844902933 QWVLQKRLRHI 11 Unmodified _QWVLQKRLRHI_ 0 0 0 REV__ENSG00000167895|ENST00000318430|TMC8 REV__ENSG00000167895|ENST00000318430|TMC8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.9697570800781 3 492.968522 1475.88374 2.735 0.0013483 -0.039867 -1.9653E-05 2.6951 0.0013286 492.96841608853913 106.02 0.12674 106.02 105.92 106.04 0 6 4 2 0 0 0 0.91462 1 58252 58252 0.08335 0.08335 1 847440 + 26427 13313 17117 17175 29952 29952 0.16482893799025078 QWWWFSNQIWI 11 Unmodified _QWWWFSNQIWI_ 0 0 0 REV__ENST00000431490.1_1_3:45201441-45201549:-|nuORF REV__ENST00000431490.1_1_3:45201441-45201549:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.9248046875 3 531.9261 1592.75647 NaN NaN NaN NaN NaN NaN NaN 96.141 1 96.217 95.717 96.717 0.076538 0 0 0 1.008 1 51003 51003 0.08335 0.010087 1 + 26428 16266 17118 17176 29953 29953 -0.016198718657960853 QWYIWVRWYSH 11 Unmodified _QWYIWVRWYSH_ 0 0 0 REV__ENST00000295992.7_1_3:142606565-142606607:-|nuORF REV__ENST00000295992.7_1_3:142606565-142606607:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 812.40087890625 2 812.39641 1622.77827 NaN NaN NaN NaN NaN NaN NaN 71.41 1 71.668 71.168 72.168 0.25786 0 0 0 1.008 1 32713 32713 0.30703 0.30703 1 + 26429 15146 17119 17177 29954 29954 -0.008210671172491857 QWYWWFWESGF 11 Unmodified _QWYWWFWESGF_ 0 0 0 REV__nc|ENSG00000001036|Q9BTY2-2|FUCA2 REV__nc|ENSG00000001036|Q9BTY2-2|FUCA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.3485717773438 2 811.348594 1620.68264 NaN NaN NaN NaN NaN NaN NaN 70.764 1 70.764 70.264 71.264 0 0 0 0 1.0082 1 34374 34374 0 0 1 + 26430 10152 17120 17178 29955 29955 -0.10287840028172468 QYAGKYVLF 9 Unmodified _QYAGKYVLF_ 0 0 0 ENST00000519214.5_1_5:150400805-150405029:+|nuORF;ENSG00000211445|ENST00000388825|GPX3 ENST00000519214.5_1_5:150400805-150405029:+|nuORF ENST00000519214.5_1_5:150400805-150405029:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.7943115234375 2 544.792392 1087.57023 3.5208 0.0019181 0.080914 4.4082E-05 3.6018 0.0019622 544.7922920199399 59.989 0.25024 60.247 60.084 60.335 0.25846 16 10 2 0 0 0 0.09451 1 27453 27453 34.102 14.845 1 486680 26431 6077 17121 17179 29956 29956 0.029949309656331025 QYAGKYVLF 9 Unmodified _QYAGKYVLF_ 0 0 0 ENST00000519214.5_1_5:150400805-150405029:+|nuORF;ENSG00000211445|ENST00000388825|GPX3 ENST00000519214.5_1_5:150400805-150405029:+|nuORF ENST00000519214.5_1_5:150400805-150405029:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.7944946289062 2 544.792392 1087.57023 3.5063 0.0019102 -0.36676 -0.00019981 3.1395 0.0017104 544.7920385238112 59.339 0.25166 60.004 59.919 60.171 0.66505 18 11 2 0 0 0 0.047285 1 27178 27178 48.346 23.672 1 914890 26432 6077 17121 17179 29957 29957 0.029949309656331025 QYASAFHFL 9 Unmodified _QYASAFHFL_ 0 0 0 nc|ENSG00000140463|Q96RK4-3|BBS4;ENSG00000140463|ENST00000268057|BBS4;nc|ENSG00000140463|Q96RK4-2|BBS4;ENST00000562219.1_1_15:73023651-73027536:+|nuORF nc|ENSG00000140463|Q96RK4-3|BBS4 nc|ENSG00000140463|Q96RK4-3|BBS4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.2666015625 2 542.266542 1082.51853 2.8062 0.0015217 -0.97088 -0.00052647 1.8353 0.00099522 542.2662077677738 68.719 0.18562 68.719 68.607 68.793 0 30 19 2 0 0 0 0.026068 1 33090 33090 60.39 33.506 1 1366400 26433 3200 17122 17180 29958 29958 -0.019428127282481 QYASAFHFL 9 Unmodified _QYASAFHFL_ 0 0 0 nc|ENSG00000140463|Q96RK4-3|BBS4;ENSG00000140463|ENST00000268057|BBS4;nc|ENSG00000140463|Q96RK4-2|BBS4;ENST00000562219.1_1_15:73023651-73027536:+|nuORF nc|ENSG00000140463|Q96RK4-3|BBS4 nc|ENSG00000140463|Q96RK4-3|BBS4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 542.266542 1082.51853 3.6307 0.0019688 0.61146 0.00033157 4.2421 0.0023004 542.2668016054233 68.629 0.2738 68.881 68.732 69.006 0.25227 0.081159 0.00041852 NaN 60.39 41 20 3 NaN NaN NaN NaN 0 NaN NaN 0 803130 26434 3200 17122 17180 -0.019428127282481 QYASRFVQL 9 Unmodified _QYASRFVQL_ 0 0 0 nc|ENSG00000142731|O00444-2|PLK4;nc|ENSG00000142731|O00444-3|PLK4;ENSG00000142731|ENST00000270861|PLK4;ENST00000507454.1_1_4:128812246-128813710:+|nuORF nc|ENSG00000142731|O00444-2|PLK4 nc|ENSG00000142731|O00444-2|PLK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.3014526367188 2 556.298373 1110.58219 3.7605 0.002092 0.21689 0.00012066 3.9774 0.0022126 556.2979589602286 50.963 0.26955 50.963 50.829 51.098 0 19 12 2 0 0 0 0.68285 1 23387 23387 9.3831 2.66 1 486550 26435 9675 17123 17181 29959 29959 0.03132547708855782 QYASRFVQL 9 Unmodified _QYASRFVQL_ 0 0 0 nc|ENSG00000142731|O00444-2|PLK4;nc|ENSG00000142731|O00444-3|PLK4;ENSG00000142731|ENST00000270861|PLK4;ENST00000507454.1_1_4:128812246-128813710:+|nuORF nc|ENSG00000142731|O00444-2|PLK4 nc|ENSG00000142731|O00444-2|PLK4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 556.298373 1110.58219 3.3973 0.0018899 0.55222 0.0003072 3.9496 0.0021971 556.2986734116253 50.048 0.21362 50.871 50.756 50.97 0.82285 -0.067855 0.0001692 NaN 9.3831 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 255030 26436 9675 17123 17181 0.03132547708855782 QYASRFVQL 9 Unmodified _QYASRFVQL_ 0 0 0 nc|ENSG00000142731|O00444-2|PLK4;nc|ENSG00000142731|O00444-3|PLK4;ENSG00000142731|ENST00000270861|PLK4;ENST00000507454.1_1_4:128812246-128813710:+|nuORF nc|ENSG00000142731|O00444-2|PLK4 nc|ENSG00000142731|O00444-2|PLK4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 556.298373 1110.58219 3.4322 0.0019094 0.35841 0.00019938 3.7907 0.0021087 556.2982672923138 50.325 0.18576 50.982 50.895 51.08 0.65735 0.043369 -4.6436E-05 NaN 9.3831 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 241470 26437 9675 17123 17181 0.03132547708855782 QYDEAVAQF 9 Unmodified _QYDEAVAQF_ 0 0 0 ENST00000527932.1_1_1:46080644-46081380:+|nuORF;nc|ENSG00000132780|P49321-2|NASP;nc|ENSG00000132780|P49321-4|NASP;ENSG00000132780|ENST00000350030|NASP;nc|ENSG00000132780|P49321-3|NASP;ENST00000529239.1_1_8:61850552-61850903:-|nuORF ENST00000527932.1_1_1:46080644-46081380:+|nuORF ENST00000527932.1_1_1:46080644-46081380:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.7455444335938 2 535.743096 1069.47164 3.1138 0.0016682 0.69311 0.00037133 3.8069 0.0020395 535.7433938254271 52.888 0.24395 52.888 52.769 53.013 0 23 13 3 0 0 0 0.038142 2 24208 24208;24259 52.268 33.011 1 521700 26438 2725 17124 17182 29960;29961 29960 -0.06031717070072773 QYDEAVAQF 9 Unmodified _QYDEAVAQF_ 0 0 0 ENST00000527932.1_1_1:46080644-46081380:+|nuORF;nc|ENSG00000132780|P49321-2|NASP;nc|ENSG00000132780|P49321-4|NASP;ENSG00000132780|ENST00000350030|NASP;nc|ENSG00000132780|P49321-3|NASP;ENST00000529239.1_1_8:61850552-61850903:-|nuORF ENST00000527932.1_1_1:46080644-46081380:+|nuORF ENST00000527932.1_1_1:46080644-46081380:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 535.7462768554688 2 535.743096 1069.47164 NaN NaN NaN NaN NaN NaN NaN 51.982 1 52.793 52.293 53.293 0.81065 0 0 0 0.21088 1 23681 23681 30.637 15.798 1 26439 2725 17124 17182 29962 29962 -0.06031717070072773 QYDEAVAQF 9 Unmodified _QYDEAVAQF_ 0 0 0 ENST00000527932.1_1_1:46080644-46081380:+|nuORF;nc|ENSG00000132780|P49321-2|NASP;nc|ENSG00000132780|P49321-4|NASP;ENSG00000132780|ENST00000350030|NASP;nc|ENSG00000132780|P49321-3|NASP;ENST00000529239.1_1_8:61850552-61850903:-|nuORF ENST00000527932.1_1_1:46080644-46081380:+|nuORF ENST00000527932.1_1_1:46080644-46081380:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.7451782226562 2 535.743096 1069.47164 3.0221 0.0016191 1.6167 0.00086614 4.6388 0.0024852 535.7436340235463 52.648 0.32146 52.911 52.756 53.077 0.26344 29 12 3 0 0 0 0.012326 1 24069 24069 78.728 44.626 1 1106400 26440 2725 17124 17182 29963 29963 -0.06031717070072773 QYDEAVAQF 9 Unmodified _QYDEAVAQF_ 0 0 0 ENST00000527932.1_1_1:46080644-46081380:+|nuORF;nc|ENSG00000132780|P49321-2|NASP;nc|ENSG00000132780|P49321-4|NASP;ENSG00000132780|ENST00000350030|NASP;nc|ENSG00000132780|P49321-3|NASP;ENST00000529239.1_1_8:61850552-61850903:-|nuORF ENST00000527932.1_1_1:46080644-46081380:+|nuORF ENST00000527932.1_1_1:46080644-46081380:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.7449951171875 2 535.743096 1069.47164 3.0438 0.0016307 0.86898 0.00046555 3.9128 0.0020962 535.7433834676182 52.31 0.32133 52.972 52.778 53.099 0.66198 34 13 3 0 0 0 0.0013204 2 23922 23875;23922 118.89 78.937 1 873190 26441 2725 17124 17182 29964;29965 29965 -0.06031717070072773 QYDPYTDSRF 10 Unmodified _QYDPYTDSRF_ 0 0 0 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-4|NAV2;ENSG00000166833|ENST00000349880|NAV2;nc|ENSG00000166833|Q8IVL1-5|NAV2;nc|ENSG00000166833|Q8IVL1-6|NAV2;nc|ENSG00000166833|Q8IVL1-8|NAV2;nc|ENSG00000166833|Q8IVL1-9|NAV2;nc|ENSG00000166833|Q8IVL1-10|NAV2;nc|ENSG00000166833|Q8IVL1-13|NAV2;nc|ENSG00000166833|Q8IVL1-12|NAV2;nc|ENSG00000166833|Q8IVL1-11|NAV2;nc|ENSG00000166833|Q8IVL1-2|NAV2;nc|ENSG00000166833|Q8IVL1|NAV2 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-8|NAV2 nc|ENSG00000166833|Q8IVL1-8|NAV2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 646.285400390625 2 646.283117 1290.55168 3.6431 0.0023545 0.88952 0.00057488 4.5326 0.0029294 646.2836971432894 42.728 0.22333 42.728 42.622 42.846 0 22 11 3 0 0 0 0.0123 2 19437 19437;19490 88.364 53.962 1 871340 26442 9530;9735 17125 17183 29966;29967 29966 -0.08197275466886822 QYDPYTDSRF 10 Unmodified _QYDPYTDSRF_ 0 0 0 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-4|NAV2;ENSG00000166833|ENST00000349880|NAV2;nc|ENSG00000166833|Q8IVL1-5|NAV2;nc|ENSG00000166833|Q8IVL1-6|NAV2;nc|ENSG00000166833|Q8IVL1-8|NAV2;nc|ENSG00000166833|Q8IVL1-9|NAV2;nc|ENSG00000166833|Q8IVL1-10|NAV2;nc|ENSG00000166833|Q8IVL1-13|NAV2;nc|ENSG00000166833|Q8IVL1-12|NAV2;nc|ENSG00000166833|Q8IVL1-11|NAV2;nc|ENSG00000166833|Q8IVL1-2|NAV2;nc|ENSG00000166833|Q8IVL1|NAV2 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-8|NAV2 nc|ENSG00000166833|Q8IVL1-8|NAV2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 646.787353515625 2 646.283117 1290.55168 3.5385 0.0022869 -0.09635 -6.2269E-05 3.4422 0.0022246 646.282761654888 41.653 0.16764 42.458 42.387 42.555 0.80508 29 16 3 0 0 0 0.12115 1 18899 18899 49.742 28.205 1 1549000 26443 9530;9735 17125 17183 29968 29968 -0.08197275466886822 QYEEQFVTL 9 Unmodified _QYEEQFVTL_ 0 0 0 ENSG00000082898|ENST00000401558|XPO1;XPO1|p.F287Lfs*3|1|0.34|ENSG00000082898|chr2:61496906-61496906|A/-|frameshift_variant;ENST00000428210.5_1_2:61720980-61752425:-|nuORF ENSG00000082898|ENST00000401558|XPO1;ENST00000428210.5_1_2:61720980-61752425:-|nuORF ENSG00000082898|ENST00000401558|XPO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.7811279296875 2 578.779679 1155.5448 NaN NaN NaN NaN NaN NaN NaN 68.332 1 69.035 68.535 69.535 0.70218 0 0 0 0.018888 1 32574 32574 74.929 49.53 1 26444 934;7822 17126 17184 29969 29969 -0.02674588347417739 QYEEQFVTL 9 Unmodified _QYEEQFVTL_ 0 0 0 ENSG00000082898|ENST00000401558|XPO1;XPO1|p.F287Lfs*3|1|0.34|ENSG00000082898|chr2:61496906-61496906|A/-|frameshift_variant;ENST00000428210.5_1_2:61720980-61752425:-|nuORF ENSG00000082898|ENST00000401558|XPO1;ENST00000428210.5_1_2:61720980-61752425:-|nuORF ENSG00000082898|ENST00000401558|XPO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.7830200195312 2 578.779679 1155.5448 3.5744 0.0020688 -0.36246 -0.00020979 3.212 0.001859 578.7796223932378 69.109 0.29686 69.364 69.252 69.549 0.25443 28 17 2 0 0 0 0.0081238 1 31656 31656 85.272 63.525 1 502490 26445 934;7822 17126 17184 29970 29970 -0.02674588347417739 QYEEQFVTL 9 Unmodified _QYEEQFVTL_ 0 0 0 ENSG00000082898|ENST00000401558|XPO1;XPO1|p.F287Lfs*3|1|0.34|ENSG00000082898|chr2:61496906-61496906|A/-|frameshift_variant;ENST00000428210.5_1_2:61720980-61752425:-|nuORF ENSG00000082898|ENST00000401558|XPO1;ENST00000428210.5_1_2:61720980-61752425:-|nuORF ENSG00000082898|ENST00000401558|XPO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.78076171875 2 578.779679 1155.5448 3.4706 0.0020087 0.6489 0.00037557 4.1195 0.0023843 578.7802212778854 68.615 0.25378 69.274 69.165 69.419 0.65924 35 19 2 0 0 0 0.017293 1 31429 31429 71.922 51.469 1 470460 26446 934;7822 17126 17184 29971 29971 -0.02674588347417739 QYEIWRELF 9 Unmodified _QYEIWRELF_ 0 0 0 nc|ENSG00000168092|P68402-3|PAFAH1B2;nc|ENSG00000168092|P68402-2|PAFAH1B2;ENST00000533206.1_1_11:117023163-117034692:+|nuORF;nc|ENSG00000168092|P68402-4|PAFAH1B2;ENSG00000168092|ENST00000527958|PAFAH1B2 nc|ENSG00000168092|P68402-3|PAFAH1B2 nc|ENSG00000168092|P68402-3|PAFAH1B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 642.32666015625 2 642.324588 1282.63462 NaN NaN NaN NaN NaN NaN NaN 84.42 1 85.085 84.585 85.585 0.66566 0 0 0 0.063391 1 38885 38885 49.554 18.286 1 26447 4605 17127 17185 29972 29972 0.0046108605179142614 QYEKLFHKW 9 Unmodified _QYEKLFHKW_ 0 0 0 ENSG00000115942|ENST00000234296|ORC2 ENSG00000115942|ENST00000234296|ORC2 ENSG00000115942|ENST00000234296|ORC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 426.89404296875 3 426.892507 1277.65569 2.8524 0.0012177 0.464 0.00019808 3.3164 0.0014158 426.8926661235222 36.757 0.31512 36.757 36.593 36.908 0 21 14 2 0 0 0 0.19413 1 16687 16687 23.79 11.615 1 568600 26448 1998 17128 17186 29973 29973 0.027970961513346992 QYEKLFHKW 9 Unmodified _QYEKLFHKW_ 0 0 0 ENSG00000115942|ENST00000234296|ORC2 ENSG00000115942|ENST00000234296|ORC2 ENSG00000115942|ENST00000234296|ORC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 427.2281799316406 3 426.892507 1277.65569 2.8661 0.0012235 0.33435 0.00014273 3.2004 0.0013662 426.8924660663333 35.614 0.24785 36.405 36.251 36.499 0.79131 19 12 2 0 0 0 0.29024 1 16134 16134 17.443 9.2871 1 372510 26449 1998 17128 17186 29974 29974 0.027970961513346992 QYEKLFHKW 9 Unmodified _QYEKLFHKW_ 0 0 0 ENSG00000115942|ENST00000234296|ORC2 ENSG00000115942|ENST00000234296|ORC2 ENSG00000115942|ENST00000234296|ORC2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 426.892507 1277.65569 3.1417 0.0013412 0.024403 1.0418E-05 3.1661 0.0013516 426.8923281929621 36.151 0.20986 36.777 36.635 36.845 0.62631 0.13078 -0.00043754 NaN 23.79 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 364440 26450 1998 17128 17186 0.027970961513346992 QYEQVKQLF 9 Unmodified _QYEQVKQLF_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;CNOT1|p.G782Hfs*19|1|0.06|ENSG00000125107|chr16:58556981-58556982|CC/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.812255859375 2 591.811313 1181.60807 3.443 0.0020376 0.26626 0.00015757 3.7093 0.0021952 591.8115849846033 51.911 0.22995 51.911 51.817 52.047 0 27 18 2 0 0 0 0.00097604 1 23756 23756 126.57 71.792 1 985250 26451 196 17129 17187 29975 29975 0.02453397160456916 QYEQVKQLF 9 Unmodified _QYEQVKQLF_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;CNOT1|p.G782Hfs*19|1|0.06|ENSG00000125107|chr16:58556981-58556982|CC/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.8140869140625 2 591.811313 1181.60807 NaN NaN NaN NaN NaN NaN NaN 51.804 1 52.066 51.566 52.566 0.26227 0 0 0 0.088432 1 23678 23678 43.858 27.709 1 26452 196 17129 17187 29976 29976 0.02453397160456916 QYEQVKQLF 9 Unmodified _QYEQVKQLF_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;CNOT1|p.G782Hfs*19|1|0.06|ENSG00000125107|chr16:58556981-58556982|CC/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 591.8141479492188 2 591.811313 1181.60807 3.5997 0.0021304 -0.19012 -0.00011251 3.4096 0.0020179 591.8111744043742 51.249 0.18085 51.909 51.842 52.022 0.65956 19 15 2 0 0 0 0.0012766 1 23462 23462 122.18 72.625 1 773990 26453 196 17129 17187 29977 29977 0.02453397160456916 QYEQVKQLF 9 Unmodified _QYEQVKQLF_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;CNOT1|p.G782Hfs*19|1|0.06|ENSG00000125107|chr16:58556981-58556982|CC/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 591.811313 1181.60807 3.1753 0.0018792 0.79121 0.00046825 3.9665 0.0023474 591.8120274032572 50.897 0.19771 51.714 51.627 51.825 0.81738 -0.13068 0.00082368 NaN 126.57 21 11 2 NaN NaN NaN NaN 0 NaN NaN 0 1141000 26454 196 17129 17187 0.02453397160456916 QYEREKVLLT 10 Unmodified _QYEREKVLLT_ 0 0 0 nc|ENSG00000143776|Q5VT25-3|CDC42BPA;nc|ENSG00000143776|Q5VT25-4|CDC42BPA;nc|ENSG00000143776|Q5VT25-5|CDC42BPA;nc|ENSG00000143776|Q5VT25|CDC42BPA;ENSG00000143776|ENST00000366766|CDC42BPA;nc|ENSG00000143776|Q5VT25-6|CDC42BPA nc|ENSG00000143776|Q5VT25-3|CDC42BPA nc|ENSG00000143776|Q5VT25-3|CDC42BPA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 639.85693359375 2 639.856252 1277.69795 3.6787 0.0023538 -0.25652 -0.00016414 3.4222 0.0021897 639.8562937602318 51.883 0.18757 52.145 52.113 52.3 0.26227 26 16 2 0 0 0 0.85706 1 23771 23771 5.7319 0.83484 1 624130 26455 3392 17130 17188 29978 29978 0.07021026769029959 QYESKVFYL 9 Unmodified _QYESKVFYL_ 0 0 0 ENSG00000128245|ENST00000248975|YWHAH;ENSG00000170027|ENST00000307630|YWHAG;ENST00000397492.1_1_22:32346295-32352776:+|nuORF ENSG00000128245|ENST00000248975|YWHAH ENSG00000128245|ENST00000248975|YWHAH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 588.8003540039062 2 588.800414 1175.58628 3.3525 0.001974 -0.3223 -0.00018977 3.0302 0.0017842 588.8003052706815 59.187 0.24675 59.187 59.097 59.343 0 53 29 3 0 0 0 0.017449 2 27386 27337;27386 88.954 29.12 1 10726000 26456 2503 17131 17189 29979;29980 29980 0.005505924119233896 QYESKVFYL 9 Unmodified _QYESKVFYL_ 0 0 0 ENSG00000128245|ENST00000248975|YWHAH;ENSG00000170027|ENST00000307630|YWHAG;ENST00000397492.1_1_22:32346295-32352776:+|nuORF ENSG00000128245|ENST00000248975|YWHAH ENSG00000128245|ENST00000248975|YWHAH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.802001953125 2 588.800414 1175.58628 3.0865 0.0018173 -0.59558 -0.00035068 2.4909 0.0014666 588.7999982070381 57.998 0.21597 58.767 58.689 58.905 0.76861 74 35 3 0 0 0 0.0013345 2 26572 26572;26612 142.08 73.999 1 11896000 26457 2503 17131 17189 29981;29982 29981 0.005505924119233896 QYESKVFYL 9 Unmodified _QYESKVFYL_ 0 0 0 ENSG00000128245|ENST00000248975|YWHAH;ENSG00000170027|ENST00000307630|YWHAG;ENST00000397492.1_1_22:32346295-32352776:+|nuORF ENSG00000128245|ENST00000248975|YWHAH ENSG00000128245|ENST00000248975|YWHAH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.8024291992188 2 588.800414 1175.58628 3.555 0.0020932 0.011291 6.648E-06 3.5663 0.0020998 588.8002729140514 59.013 0.3927 59.273 59.084 59.476 0.2593 59 19 4 0 0 0 0.0013345 3 27023 26974;27023;27068 142.08 73.999 1 3144600 26458 2503 17131 17189 29983;29984;29985 29984 0.005505924119233896 QYESKVFYL 9 Unmodified _QYESKVFYL_ 0 0 0 ENSG00000128245|ENST00000248975|YWHAH;ENSG00000170027|ENST00000307630|YWHAG;ENST00000397492.1_1_22:32346295-32352776:+|nuORF ENSG00000128245|ENST00000248975|YWHAH ENSG00000128245|ENST00000248975|YWHAH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.802734375 2 588.800414 1175.58628 3.6591 0.0021545 -0.34128 -0.00020094 3.3178 0.0019536 588.8003274821201 58.347 0.2435 59.014 58.941 59.184 0.66703 42 17 3 0 0 0 0.0016705 2 26749 26698;26749 129.77 61.692 1 5674400 26459 2503 17131 17189 29986;29987 29987 0.005505924119233896 QYFDSRGMFI 10 Unmodified _QYFDSRGMFI_ 0 0 0 ENSG00000151353|ENST00000281017|TMEM18;ENST00000497508.1_1_2:669582-669891:-|nuORF;nc|ENSG00000151353|Q96B42-2|TMEM18;ENST00000477202.1_1_2:669582-675654:-|nuORF ENSG00000151353|ENST00000281017|TMEM18 ENSG00000151353|ENST00000281017|TMEM18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 632.29736328125 2 632.294973 1262.57539 NaN NaN NaN NaN NaN NaN NaN 68.887 1 68.887 68.387 69.387 0 0 0 0 0.29634 1 33200 33200 51.415 15.371 1 26460 3703 17132 17190 29988 29988 -0.04539133234015935 QYFDSRGMFI 10 Unmodified _QYFDSRGMFI_ 0 0 0 ENSG00000151353|ENST00000281017|TMEM18;ENST00000497508.1_1_2:669582-669891:-|nuORF;nc|ENSG00000151353|Q96B42-2|TMEM18;ENST00000477202.1_1_2:669582-675654:-|nuORF ENSG00000151353|ENST00000281017|TMEM18 ENSG00000151353|ENST00000281017|TMEM18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 632.2994995117188 2 632.294973 1262.57539 4.0524 0.0025623 0.60504 0.00038257 4.6575 0.0029449 632.2962447246646 68.666 0.42392 68.918 68.702 69.126 0.25227 53 29 3 0 0 0 0.063736 1 31441 31441 76.825 29.076 1 870590 26461 3703 17132 17190 29989 29989 -0.04539133234015935 QYFPKAPEF 9 Unmodified _QYFPKAPEF_ 0 0 0 ENSG00000090686|ENST00000308271|USP48;nc|ENSG00000090686|Q86UV5-8|USP48;nc|ENSG00000090686|Q86UV5-2|USP48;nc|ENSG00000090686|Q86UV5-3|USP48;nc|ENSG00000090686|Q86UV5-5|USP48 ENSG00000090686|ENST00000308271|USP48 ENSG00000090686|ENST00000308271|USP48 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.2864990234375 2 563.782025 1125.5495 3.3731 0.0019017 -0.11721 -6.6079E-05 3.2559 0.0018356 563.7823868960722 56.358 0.22784 56.358 56.205 56.432 0 25 19 2 0 0 0 0.071132 1 25935 25935 39.95 15.929 1 571220 26462 1066 17133 17191 29990 29990 -0.008256594140220841 QYGEVANLL 9 Unmodified _QYGEVANLL_ 0 0 0 nc|ENSG00000141252|Q5VIR6-2|VPS53;nc|ENSG00000141252|Q5VIR6-3|VPS53;nc|ENSG00000141252|Q5VIR6-1|VPS53;ENSG00000141252|ENST00000437048|VPS53 nc|ENSG00000141252|Q5VIR6-2|VPS53 nc|ENSG00000141252|Q5VIR6-2|VPS53 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.2673034667969 2 503.763832 1005.51311 3.5179 0.0017722 0.0085636 4.3141E-06 3.5264 0.0017765 503.76399314683215 68.616 0.24787 68.868 68.758 69.006 0.25227 23 17 2 0 0 0 0.43294 1 31423 31423 19.257 9.8739 1 339540 26463 3241 17134 17192 29991 29991 0.010574636892783928 QYGEVANLL 9 Unmodified _QYGEVANLL_ 0 0 0 nc|ENSG00000141252|Q5VIR6-2|VPS53;nc|ENSG00000141252|Q5VIR6-3|VPS53;nc|ENSG00000141252|Q5VIR6-1|VPS53;ENSG00000141252|ENST00000437048|VPS53 nc|ENSG00000141252|Q5VIR6-2|VPS53 nc|ENSG00000141252|Q5VIR6-2|VPS53 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.76519775390625 2 503.763832 1005.51311 NaN NaN NaN NaN NaN NaN NaN 68.068 1 68.727 68.227 69.227 0.65924 0 0 0 0.14425 1 31202 31202 43.858 22.112 1 26464 3241 17134 17192 29992 29992 0.010574636892783928 QYGKNFFRI 9 Unmodified _QYGKNFFRI_ 0 0 0 ENSG00000142599|ENST00000400908|RERE ENSG00000142599|ENST00000400908|RERE ENSG00000142599|ENST00000400908|RERE MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 391.88067626953125 3 391.545219 1171.61383 2.5565 0.001001 2.6382 0.001033 5.1947 0.002034 391.5465537062853 47.99 0.3834 47.99 47.785 48.168 0 18 17 2 0 0 0 0.3144 1 21981 21981 10.8 5.0161 1 377690 26465 3318 17135 17193 29993 29993 0.0348854046278575 QYGKNFFRI 9 Unmodified _QYGKNFFRI_ 0 0 0 ENSG00000142599|ENST00000400908|RERE ENSG00000142599|ENST00000400908|RERE ENSG00000142599|ENST00000400908|RERE MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 391.545219 1171.61383 2.4503 0.0009594 3.7232 0.0014578 6.1734 0.0024172 391.54673707930215 46.772 0.22013 47.602 47.515 47.735 0.82915 -0.26231 -0.00064392 NaN 10.8 18 8 3 NaN NaN NaN NaN 0 NaN NaN 0 240140 26466 3318 17135 17193 0.0348854046278575 QYGKNFFRI 9 Unmodified _QYGKNFFRI_ 0 0 0 ENSG00000142599|ENST00000400908|RERE ENSG00000142599|ENST00000400908|RERE ENSG00000142599|ENST00000400908|RERE MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 391.545219 1171.61383 2.8231 0.0011054 5.2361 0.0020502 8.0592 0.0031555 391.5470560828603 47.347 0.2954 48 47.877 48.172 0.65356 0.1362 0.0011332 NaN 10.8 21 12 2 NaN NaN NaN NaN 0 NaN NaN 0 183070 26467 3318 17135 17193 0.0348854046278575 QYKKDGADF 9 Unmodified _QYKKDGADF_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA;ENSG00000109107|ENST00000226253|ALDOC;ENST00000398050.3_1_10:127355985-127356390:-|nuORF nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.2605590820312 2 536.258914 1070.50327 2.7357 0.001467 -0.38189 -0.00020479 2.3538 0.0012622 536.2587140327988 12.979 0.11649 13.222 13.163 13.279 0.24346 17 9 3 0 0 0 0.64206 1 5669 5669 10.074 4.3135 1 652110 26468 3661 17136 17194 29994 29994 -0.02915724316108026 QYKKDGADF 9 Unmodified _QYKKDGADF_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA;ENSG00000109107|ENST00000226253|ALDOC;ENST00000398050.3_1_10:127355985-127356390:-|nuORF nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 536.258914 1070.50327 2.3712 0.0012716 1.6626 0.00089159 4.0338 0.0021632 536.2588765184571 12.964 0.13272 13.272 13.187 13.32 0.30727 -0.036186 0.0016799 NaN 10.074 8 4 3 NaN NaN NaN NaN 0 NaN NaN 0 105770 26469 3661 17136 17194 -0.02915724316108026 QYKKDGADF 9 Unmodified _QYKKDGADF_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA;ENSG00000109107|ENST00000226253|ALDOC;ENST00000398050.3_1_10:127355985-127356390:-|nuORF nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 536.258914 1070.50327 3.4868 0.0018698 0.63142 0.00033861 4.1182 0.0022084 536.2583508986243 12.787 0.13537 13.43 13.345 13.48 0.64272 0.12182 0.00057397 NaN 10.074 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 428100 26470 3661 17136 17194 -0.02915724316108026 QYKTVEEP 8 Unmodified _QYKTVEEP_ 0 0 0 REV__ENSG00000277535|ENST00000620151|CT47C1 REV__ENSG00000277535|ENST00000620151|CT47C1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.2503967285156 2 497.248015 992.481476 3.0027 0.0014931 0.88547 0.0004403 3.8881 0.0019334 497.2487591771567 44.249 0.25896 44.518 44.473 44.732 0.2694 14 11 2 0 0 0 0.45971 1 20248 20248 24.021 8.1734 1 600540 + 26471 14746 17137 17195 29995 29995 -0.015065290646589347 QYLEQSSKL 9 Unmodified _QYLEQSSKL_ 0 0 0 ENSG00000176102|ENST00000323959|CSTF3;CSTF3|p.V609Cfs*11|1|0.18|ENSG00000176102|chr11:33085960-33085960|C/-|frameshift_variant ENSG00000176102|ENST00000323959|CSTF3 ENSG00000176102|ENST00000323959|CSTF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.2898559570312 2 548.287671 1094.56079 3.8057 0.0020866 -0.076531 -4.1961E-05 3.7291 0.0020446 548.2874606637649 31.598 0.17234 31.598 31.513 31.685 0 29 17 2 0 0 0 0.035342 1 14285 14285 65.474 43.727 1 491100 26472 5065 17138 17196 29996 29996 0.017291178894765835 QYLEQSSKL 9 Unmodified _QYLEQSSKL_ 0 0 0 ENSG00000176102|ENST00000323959|CSTF3;CSTF3|p.V609Cfs*11|1|0.18|ENSG00000176102|chr11:33085960-33085960|C/-|frameshift_variant ENSG00000176102|ENST00000323959|CSTF3 ENSG00000176102|ENST00000323959|CSTF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.7908325195312 2 548.287671 1094.56079 3.327 0.0018242 0.021121 1.158E-05 3.3481 0.0018357 548.2879184666341 30.677 0.19933 31.466 31.379 31.578 0.78879 28 15 2 0 0 0 0.035698 1 13858 13858 57.722 57.722 1 313030 26473 5065 17138 17196 29997 29997 0.017291178894765835 QYLEQSSKL 9 Unmodified _QYLEQSSKL_ 0 0 0 ENSG00000176102|ENST00000323959|CSTF3;CSTF3|p.V609Cfs*11|1|0.18|ENSG00000176102|chr11:33085960-33085960|C/-|frameshift_variant ENSG00000176102|ENST00000323959|CSTF3 ENSG00000176102|ENST00000323959|CSTF3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 548.287671 1094.56079 4.0331 0.0022113 0.64291 0.0003525 4.676 0.0025638 548.2881070136297 31.516 0.26088 31.772 31.65 31.911 0.25614 0.15447 0.00029493 NaN 65.474 28 18 2 NaN NaN NaN NaN 0 NaN NaN 0 266500 26474 5065 17138 17196 0.017291178894765835 QYLEQSSKL 9 Unmodified _QYLEQSSKL_ 0 0 0 ENSG00000176102|ENST00000323959|CSTF3;CSTF3|p.V609Cfs*11|1|0.18|ENSG00000176102|chr11:33085960-33085960|C/-|frameshift_variant ENSG00000176102|ENST00000323959|CSTF3 ENSG00000176102|ENST00000323959|CSTF3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 548.287671 1094.56079 3.535 0.0019382 0.74975 0.00041108 4.2848 0.0023493 548.2882723960051 31.018 0.21228 31.635 31.527 31.74 0.61737 0.01756 0.0004121 NaN 65.474 25 14 2 NaN NaN NaN NaN 0 NaN NaN 0 208120 26475 5065 17138 17196 0.017291178894765835 QYLGQIQHI 9 Unmodified _QYLGQIQHI_ 0 0 0 ENST00000579128.1_1_18:657682-669175:+|nuORF;nc|ENSG00000176890|P04818-3|TYMS;nc|ENSG00000176890|P04818-2|TYMS;ENSG00000176890|ENST00000323274|TYMS ENST00000579128.1_1_18:657682-669175:+|nuORF ENST00000579128.1_1_18:657682-669175:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.2997436523438 2 550.298373 1098.58219 3.4585 0.0019032 -0.47112 -0.00025926 2.9873 0.0016439 550.2976887421314 46.304 0.18008 46.304 46.209 46.39 0 23 9 4 0 0 0 0.0012997 1 21178 21178 120.45 48.528 1 1589500 26476 5091 17139 17197 29998 29998 0.03684547708849095 QYLGQIQHI 9 Unmodified _QYLGQIQHI_ 0 0 0 ENST00000579128.1_1_18:657682-669175:+|nuORF;nc|ENSG00000176890|P04818-3|TYMS;nc|ENSG00000176890|P04818-2|TYMS;ENSG00000176890|ENST00000323274|TYMS ENST00000579128.1_1_18:657682-669175:+|nuORF ENST00000579128.1_1_18:657682-669175:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.3004150390625 2 550.298373 1098.58219 3.193 0.0017571 0.16778 9.2332E-05 3.3608 0.0018495 550.2986137019245 45.252 0.25037 46.078 45.968 46.218 0.82621 33 15 3 0 0 0 0.0012997 2 20617 20617;20673 120.45 48.528 1 1286600 26477 5091 17139 17197 29999;30000 29999 0.03684547708849095 QYLGQIQHI 9 Unmodified _QYLGQIQHI_ 0 0 0 ENST00000579128.1_1_18:657682-669175:+|nuORF;nc|ENSG00000176890|P04818-3|TYMS;nc|ENSG00000176890|P04818-2|TYMS;ENSG00000176890|ENST00000323274|TYMS ENST00000579128.1_1_18:657682-669175:+|nuORF ENST00000579128.1_1_18:657682-669175:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.3020629882812 2 550.298373 1098.58219 3.5991 0.0019806 0.49469 0.00027223 4.0938 0.0022528 550.2985351045927 46.135 0.30274 46.401 46.265 46.568 0.26561 35 14 3 0 0 0 0.0014044 2 21067 21067;21120 112.59 58.76 1 1010700 26478 5091 17139 17197 30001;30002 30001 0.03684547708849095 QYLGQIQHI 9 Unmodified _QYLGQIQHI_ 0 0 0 ENST00000579128.1_1_18:657682-669175:+|nuORF;nc|ENSG00000176890|P04818-3|TYMS;nc|ENSG00000176890|P04818-2|TYMS;ENSG00000176890|ENST00000323274|TYMS ENST00000579128.1_1_18:657682-669175:+|nuORF ENST00000579128.1_1_18:657682-669175:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.8036499023438 2 550.298373 1098.58219 3.7893 0.0020853 0.71099 0.00039125 4.5003 0.0024765 550.8003648272542 45.569 0.31158 46.22 46.078 46.39 0.65104 24 12 3 0 0 0 0.0044949 1 20862 20862 92.822 50.728 1 808410 26479 5091 17139 17197 30003 30003 0.03684547708849095 QYLMKWKERYL 11 Unmodified _QYLMKWKERYL_ 0 0 0 REV__ENST00000592414.1_1_19:3052943-3053030:-|nuORF REV__ENST00000592414.1_1_19:3052943-3053030:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 779.416015625 2 779.415954 1556.81735 NaN NaN NaN NaN NaN NaN NaN 40.821 1 41.09 40.59 41.59 0.26904 0 0 0 1.0082 1 18575 18575 0 0 1 + 26480 17593 17140 17198 30004 30004 0.06121897122102382 QYLNKNALTTL 11 Unmodified _QYLNKNALTTL_ 0 0 0 ENSG00000185049|ENST00000382882|NELFA;ENST00000463820.5_1_4:1985048-1993691:-|nuORF ENSG00000185049|ENST00000382882|NELFA ENSG00000185049|ENST00000382882|NELFA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 639.8589477539062 2 639.856252 1277.69795 3.6969 0.0023655 0.25041 0.00016023 3.9473 0.0025257 639.8562728944687 52.054 0.22886 52.054 51.934 52.163 0 20 14 2 0 0 0 4.609E-06 1 23841 23841 96.367 56.417 1 797570 26481 5485 17141 17199 30005 30005 0.07021026769029959 QYLNKNALTTL 11 Unmodified _QYLNKNALTTL_ 0 0 0 ENSG00000185049|ENST00000382882|NELFA;ENST00000463820.5_1_4:1985048-1993691:-|nuORF ENSG00000185049|ENST00000382882|NELFA ENSG00000185049|ENST00000382882|NELFA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.3601684570312 2 639.856252 1277.69795 3.2078 0.0020525 0.57817 0.00036995 3.7859 0.0024225 639.8566176668573 51.009 0.17555 51.826 51.783 51.959 0.81738 18 11 2 0 0 0 0.48176 1 23245 23245 19.362 5.4559 1 821850 26482 5485 17141 17199 30006 30006 0.07021026769029959 QYLNKNALTTL 11 Unmodified _QYLNKNALTTL_ 0 0 0 ENSG00000185049|ENST00000382882|NELFA;ENST00000463820.5_1_4:1985048-1993691:-|nuORF ENSG00000185049|ENST00000382882|NELFA ENSG00000185049|ENST00000382882|NELFA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 639.8584594726562 2 639.856252 1277.69795 3.6787 0.0023538 -0.25652 -0.00016414 3.4222 0.0021897 639.8562937602318 51.883 0.18757 52.145 52.113 52.3 0.26227 26 16 2 0 0 0 0.012675 1 23723 23723 63.961 43.546 1 624130 26483 5485 17141 17199 30007 30007 0.07021026769029959 QYLNKNALTTL 11 Unmodified _QYLNKNALTTL_ 0 0 0 ENSG00000185049|ENST00000382882|NELFA;ENST00000463820.5_1_4:1985048-1993691:-|nuORF ENSG00000185049|ENST00000382882|NELFA ENSG00000185049|ENST00000382882|NELFA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 639.860595703125 2 639.856252 1277.69795 NaN NaN NaN NaN NaN NaN NaN 51.303 1 51.962 51.462 52.462 0.65956 0 0 0 0.0011962 1 23461 23461 76.825 25.195 1 26484 5485 17141 17199 30008 30008 0.07021026769029959 QYLPHVARL 9 Unmodified _QYLPHVARL_ 0 0 0 ENST00000467910.5_1_9:136231851-136242840:-|nuORF;nc|ENSG00000148248|O15260-3|SURF4;nc|ENSG00000148248|O15260-2|SURF4;ENSG00000148248|ENST00000371989|SURF4 ENST00000467910.5_1_9:136231851-136242840:-|nuORF ENST00000467910.5_1_9:136231851-136242840:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.5492858886719 3 366.213581 1095.61891 2.7217 0.00099672 0.28988 0.00010616 3.0116 0.0011029 366.2135632731074 40.75 0.30552 40.75 40.628 40.934 0 36 16 3 0 0 0 0.26118 3 18534 18499;18534;18557 19.362 11.753 1 3474300 26485 3595 17142 17200 30009;30010;30011 30010 0.07492844325406622 QYLPHVARL 9 Unmodified _QYLPHVARL_ 0 0 0 ENST00000467910.5_1_9:136231851-136242840:-|nuORF;nc|ENSG00000148248|O15260-3|SURF4;nc|ENSG00000148248|O15260-2|SURF4;ENSG00000148248|ENST00000371989|SURF4 ENST00000467910.5_1_9:136231851-136242840:-|nuORF ENST00000467910.5_1_9:136231851-136242840:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.2147521972656 3 366.213581 1095.61891 2.3826 0.00087253 0.51426 0.00018833 2.8968 0.0010609 366.2136356391634 39.893 0.34245 40.693 40.477 40.819 0.80014 37 16 3 0 0 0 0.29024 2 18046 18046;18097 17.443 9.8337 1 1561800 26486 3595 17142 17200 30012;30013 30012 0.07492844325406622 QYLPHVARL 9 Unmodified _QYLPHVARL_ 0 0 0 ENST00000467910.5_1_9:136231851-136242840:-|nuORF;nc|ENSG00000148248|O15260-3|SURF4;nc|ENSG00000148248|O15260-2|SURF4;ENSG00000148248|ENST00000371989|SURF4 ENST00000467910.5_1_9:136231851-136242840:-|nuORF ENST00000467910.5_1_9:136231851-136242840:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.2144470214844 3 366.213581 1095.61891 2.8168 0.0010315 1.236 0.00045265 4.0528 0.0014842 366.21381218327343 40.569 0.37557 40.838 40.644 41.02 0.26904 30 16 3 0 0 0 0.38625 1 18425 18425 14.405 5.0223 1 1855000 26487 3595 17142 17200 30014 30014 0.07492844325406622 QYLPHVARL 9 Unmodified _QYLPHVARL_ 0 0 0 ENST00000467910.5_1_9:136231851-136242840:-|nuORF;nc|ENSG00000148248|O15260-3|SURF4;nc|ENSG00000148248|O15260-2|SURF4;ENSG00000148248|ENST00000371989|SURF4 ENST00000467910.5_1_9:136231851-136242840:-|nuORF ENST00000467910.5_1_9:136231851-136242840:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.8179321289062 2 548.816733 1095.61891 NaN NaN NaN NaN NaN NaN NaN 40.566 1 40.835 40.335 41.335 0.26904 0 0 0 0.29408 1 18456 18456 36.127 15.673 1 26488 3595 17142 17200 30015 30015 0.07492844325406622 QYLRRLHYF 9 Unmodified _QYLRRLHYF_ 0 0 0 ENSG00000183856|ENST00000361170|IQGAP3 ENSG00000183856|ENST00000361170|IQGAP3 ENSG00000183856|ENST00000361170|IQGAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 432.57305908203125 3 432.571768 1294.69348 2.775 0.0012004 0.12298 5.3198E-05 2.8979 0.0012536 432.57176781160473 35.685 0.26124 35.685 35.543 35.804 0 29 12 3 0 0 0 0.053453 2 16182 16182;16236 45.7 18.071 1 973590 26489 5409 17143 17201 30016;30017 30016 0.057916071367799304 QYLRRLHYF 9 Unmodified _QYLRRLHYF_ 0 0 0 ENSG00000183856|ENST00000361170|IQGAP3 ENSG00000183856|ENST00000361170|IQGAP3 ENSG00000183856|ENST00000361170|IQGAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 432.5726318359375 3 432.571768 1294.69348 2.8652 0.0012394 -0.50318 -0.00021766 2.362 0.0010217 432.57160357494547 35.605 0.36762 35.86 35.683 36.05 0.25524 31 12 3 0 0 0 0.048676 2 16212 16212;16266 47.749 30.636 1 731770 26490 5409 17143 17201 30018;30019 30018 0.057916071367799304 QYLRRLHYF 9 Unmodified _QYLRRLHYF_ 0 0 0 ENSG00000183856|ENST00000361170|IQGAP3 ENSG00000183856|ENST00000361170|IQGAP3 ENSG00000183856|ENST00000361170|IQGAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 432.5730285644531 3 432.571768 1294.69348 3.1031 0.0013423 -0.18752 -8.1118E-05 2.9156 0.0012612 432.57155792387994 35.246 0.5325 35.869 35.719 36.251 0.62294 36 17 3 0 0 0 0.053453 1 16154 16154 45.7 22.963 1 657440 26491 5409 17143 17201 30020 30020 0.057916071367799304 QYLRVETQF 9 Unmodified _QYLRVETQF_ 0 0 0 nc|ENSG00000278540|Q13085-3|ACACA;nc|ENSG00000278540|Q13085-2|ACACA;nc|ENSG00000278540|Q13085|ACACA;ENSG00000278540|ENST00000616317|ACACA nc|ENSG00000278540|Q13085-3|ACACA nc|ENSG00000278540|Q13085-3|ACACA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 592.3104858398438 2 592.308938 1182.60332 3.6912 0.0021863 -0.44636 -0.00026438 3.2449 0.001922 592.3082432174124 50.979 0.16232 50.979 50.854 51.016 0 14 7 2 0 0 0 0.01 1 23354 23354 89.401 34.627 1 985760 26492 6361 17144 17202 30021 30021 0.019325130176866878 QYLRVETQF 9 Unmodified _QYLRVETQF_ 0 0 0 nc|ENSG00000278540|Q13085-3|ACACA;nc|ENSG00000278540|Q13085-2|ACACA;nc|ENSG00000278540|Q13085|ACACA;ENSG00000278540|ENST00000616317|ACACA nc|ENSG00000278540|Q13085-3|ACACA nc|ENSG00000278540|Q13085-3|ACACA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.310546875 2 592.308938 1182.60332 3.5781 0.0021194 -0.35147 -0.00020818 3.2267 0.0019112 592.3086906541055 50.032 0.24091 50.855 50.78 51.021 0.82285 17 10 2 0 0 0 0.013715 1 22835 22835 85.272 30.498 1 480930 26493 6361 17144 17202 30022 30022 0.019325130176866878 QYLRVETQF 9 Unmodified _QYLRVETQF_ 0 0 0 nc|ENSG00000278540|Q13085-3|ACACA;nc|ENSG00000278540|Q13085-2|ACACA;nc|ENSG00000278540|Q13085|ACACA;ENSG00000278540|ENST00000616317|ACACA nc|ENSG00000278540|Q13085-3|ACACA nc|ENSG00000278540|Q13085-3|ACACA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.3115844726562 2 592.308938 1182.60332 3.7472 0.0022195 0.15191 8.9979E-05 3.8991 0.0023095 592.3087106678003 50.292 0.32414 50.949 50.729 51.053 0.65735 23 12 3 0 0 0 0.019184 1 22985 22985 75.761 43.455 1 397000 26494 6361 17144 17202 30023 30023 0.019325130176866878 QYLRVETQF 9 Unmodified _QYLRVETQF_ 0 0 0 nc|ENSG00000278540|Q13085-3|ACACA;nc|ENSG00000278540|Q13085-2|ACACA;nc|ENSG00000278540|Q13085|ACACA;ENSG00000278540|ENST00000616317|ACACA nc|ENSG00000278540|Q13085-3|ACACA nc|ENSG00000278540|Q13085-3|ACACA MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 592.308938 1182.60332 3.5238 0.0020872 0.015119 8.9553E-06 3.5389 0.0020961 592.3088747768196 50.953 0.24566 51.214 51.06 51.306 0.26146 0.21511 0.0001534 NaN 89.401 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 520640 26495 6361 17144 17202 0.019325130176866878 QYLVHVNDL 9 Unmodified _QYLVHVNDL_ 0 0 0 nc|ENSG00000103494|Q68CZ1-2|RPGRIP1L;ENSG00000103494|ENST00000647211|RPGRIP1L nc|ENSG00000103494|Q68CZ1-2|RPGRIP1L nc|ENSG00000103494|Q68CZ1-2|RPGRIP1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.7933349609375 2 550.790381 1099.56621 3.6664 0.0020194 -0.077831 -4.2869E-05 3.5885 0.0019765 550.7906134956171 52.93 0.2192 52.93 52.793 53.013 0 19 11 2 0 0 0 0.02812 2 24243 24218;24243 57.722 24.936 1 520570 26496 1401 17145 17203 30024;30025 30025 0.02040841471944077 QYLVHVNDL 9 Unmodified _QYLVHVNDL_ 0 0 0 nc|ENSG00000103494|Q68CZ1-2|RPGRIP1L;ENSG00000103494|ENST00000647211|RPGRIP1L nc|ENSG00000103494|Q68CZ1-2|RPGRIP1L nc|ENSG00000103494|Q68CZ1-2|RPGRIP1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.7911987304688 2 550.790381 1099.56621 2.7226 0.0014996 1.176 0.00064772 3.8985 0.0021473 550.7909081409476 51.814 0.18328 52.624 52.54 52.723 0.81066 18 12 2 0 0 0 0.063575 1 23628 23628 41.84 15.571 1 466210 26497 1401 17145 17203 30026 30026 0.02040841471944077 QYMERLQLL 9 Unmodified _QYMERLQLL_ 0 0 0 ENST00000495589.5_1_1:155181271-155183486:+|nuORF;ENST00000440904.1_1_1:155200937-155204113:+|nuORF;nc|ENSG00000173171|Q13505-3|MTX1;ENST00000481771.5_1_1:155181647-155183486:+|nuORF;nc|ENSG00000173171|Q13505-2|MTX1;ENSG00000173171|ENST00000368376|MTX1;ENST00000495492.1_1_1:155182265-155182385:+|nuORF ENST00000495589.5_1_1:155181271-155183486:+|nuORF ENST00000495589.5_1_1:155181271-155183486:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.32275390625 2 597.320991 1192.62743 3.6123 0.0021577 -0.37665 -0.00022498 3.2357 0.0019327 597.3208912616784 64.072 0.28361 64.32 64.185 64.468 0.24803 46 17 4 0 0 0 3.5465E-15 2 29315 29315;29357 176.84 80.726 1 1649600 26498 4916 17146 17204 30027;30028 30027 0.03882030179738649 QYMERLQLL 9 Unmodified _QYMERLQLL_ 0 0 0 ENST00000495589.5_1_1:155181271-155183486:+|nuORF;ENST00000440904.1_1_1:155200937-155204113:+|nuORF;nc|ENSG00000173171|Q13505-3|MTX1;ENST00000481771.5_1_1:155181647-155183486:+|nuORF;nc|ENSG00000173171|Q13505-2|MTX1;ENSG00000173171|ENST00000368376|MTX1;ENST00000495492.1_1_1:155182265-155182385:+|nuORF ENST00000495589.5_1_1:155181271-155183486:+|nuORF ENST00000495589.5_1_1:155181271-155183486:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.3236083984375 2 597.320991 1192.62743 3.9923 0.0023847 -0.30219 -0.00018051 3.6901 0.0022041 597.3209242643021 63.469 0.27284 64.128 63.962 64.234 0.65809 43 17 3 0 0 0 3.5465E-15 2 29097 29047;29097 176.84 80.726 1 1619000 26499 4916 17146 17204 30029;30030 30030 0.03882030179738649 QYNDDDDDDD 10 Unmodified _QYNDDDDDDD_ 0 0 0 nc|ENSG00000106462|Q15910-5|EZH2;nc|ENSG00000106462|Q15910-3|EZH2;nc|ENSG00000106462|Q15910-4|EZH2;nc|ENSG00000106462|Q15910|EZH2;ENSG00000106462|ENST00000320356|EZH2;ENST00000483012.1_1_7:148516133-148534012:-|nuORF;ENST00000498186.5_1_7:148514900-148581332:-|nuORF;EZH2|p.T386Lfs*44|1|0.06|ENSG00000106462|chr7:148817946-148817947|-/ATAAAGACCAGAGTTATCTCAAGAATGTGTAG|frameshift_variant nc|ENSG00000106462|Q15910-5|EZH2;EZH2|p.T386Lfs*44|1|0.06|ENSG00000106462|chr7:148817946-148817947|-/ATAAAGACCAGAGTTATCTCAAGAATGTGTAG|frameshift_variant nc|ENSG00000106462|Q15910-5|EZH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 615.1893310546875 2 615.189276 1228.364 NaN NaN NaN NaN NaN NaN NaN 7.0411 1 7.3809 6.8809 7.8809 0.33974 0 0 0 1.002 1 3170 3170 0 0 1 26500 1572;9356 17147 17205 30031 30031 -0.24104803252748752 QYNMNFEKL 9 Unmodified _QYNMNFEKL_ 0 0 0 nc|ENSG00000165806|P55210-4|CASP7;ENSG00000165806|ENST00000369318|CASP7;nc|ENSG00000165806|P55210-3|CASP7;nc|ENSG00000165806|P55210-2|CASP7 nc|ENSG00000165806|P55210-4|CASP7 nc|ENSG00000165806|P55210-4|CASP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 593.7840576171875 2 593.781699 1185.54884 3.6544 0.0021699 0.11074 6.5753E-05 3.7652 0.0022357 593.7819198090697 53.755 0.23037 54.02 53.907 54.137 0.26462 15 8 2 0 0 0 0.044468 1 24605 24605 49.554 26.406 1 335850 26501 4423 17148 17206 30032 30032 -0.036508221253598094 QYNMNFEKL 9 Unmodified _QYNMNFEKL_ 0 0 0 nc|ENSG00000165806|P55210-4|CASP7;ENSG00000165806|ENST00000369318|CASP7;nc|ENSG00000165806|P55210-3|CASP7;nc|ENSG00000165806|P55210-2|CASP7 nc|ENSG00000165806|P55210-4|CASP7 nc|ENSG00000165806|P55210-4|CASP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 593.7828979492188 2 593.781699 1185.54884 3.7152 0.002206 0.36232 0.00021514 4.0775 0.0024211 593.7817408303039 53.23 0.22086 53.895 53.782 54.003 0.6644 10 8 2 0 0 0 0.035495 1 24365 24365 53.404 24.917 1 268680 26502 4423 17148 17206 30033 30033 -0.036508221253598094 QYNMNFEKL 9 Unmodified _QYNMNFEKL_ 0 0 0 nc|ENSG00000165806|P55210-4|CASP7;ENSG00000165806|ENST00000369318|CASP7;nc|ENSG00000165806|P55210-3|CASP7;nc|ENSG00000165806|P55210-2|CASP7 nc|ENSG00000165806|P55210-4|CASP7 nc|ENSG00000165806|P55210-4|CASP7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 593.7837524414062 2 593.781699 1185.54884 NaN NaN NaN NaN NaN NaN NaN 53.367 1 54.032 53.532 54.532 0.6644 0 0 0 0.49214 1 24405 24405 19.257 6.7254 1 26503 4423 17148 17206 30034 30034 -0.036508221253598094 QYNPHVHQL 9 Unmodified _QYNPHVHQL_ 0 0 0 ENST00000459739.5_1_10:79567604-79581271:-|nuORF;ENST00000463362.5_1_10:79552200-79579794:-|nuORF;nc|ENSG00000151208|Q8TDM6-2|DLG5;nc|ENSG00000151208|Q8TDM6-4|DLG5;ENSG00000151208|ENST00000372391|DLG5;nc|ENSG00000151208|Q8TDM6-5|DLG5;ENST00000475613.6_1_10:79552200-79579275:-|nuORF ENST00000459739.5_1_10:79567604-79581271:-|nuORF ENST00000459739.5_1_10:79567604-79581271:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.1932067871094 3 379.192957 1134.55704 2.8515 0.0010813 -0.12102 -4.5891E-05 2.7304 0.0010354 379.1928409319092 19.52 0.17025 19.52 19.454 19.624 0 49 21 3 0 0 0 0.044468 2 8689 8689;8732 49.554 34.9 1 9136100 26504 3695 17149 17207 30035;30036 30035 -0.004855070937082928 QYNPHVHQL 9 Unmodified _QYNPHVHQL_ 0 0 0 ENST00000459739.5_1_10:79567604-79581271:-|nuORF;ENST00000463362.5_1_10:79552200-79579794:-|nuORF;nc|ENSG00000151208|Q8TDM6-2|DLG5;nc|ENSG00000151208|Q8TDM6-4|DLG5;ENSG00000151208|ENST00000372391|DLG5;nc|ENSG00000151208|Q8TDM6-5|DLG5;ENST00000475613.6_1_10:79552200-79579275:-|nuORF ENST00000459739.5_1_10:79567604-79581271:-|nuORF ENST00000459739.5_1_10:79567604-79581271:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.2877807617188 2 568.285797 1134.55704 3.5085 0.0019939 -0.31244 -0.00017756 3.1961 0.0018163 568.2857477779006 19.529 0.10455 19.529 19.48 19.585 0 15 13 2 0 0 0 7.3583E-09 1 8710 8710 180.01 142.04 1 1931400 26505 3695 17149 17207 30037 30037 -0.004855070937082928 QYNPHVHQL 9 Unmodified _QYNPHVHQL_ 0 0 0 ENST00000459739.5_1_10:79567604-79581271:-|nuORF;ENST00000463362.5_1_10:79552200-79579794:-|nuORF;nc|ENSG00000151208|Q8TDM6-2|DLG5;nc|ENSG00000151208|Q8TDM6-4|DLG5;ENSG00000151208|ENST00000372391|DLG5;nc|ENSG00000151208|Q8TDM6-5|DLG5;ENST00000475613.6_1_10:79552200-79579275:-|nuORF ENST00000459739.5_1_10:79567604-79581271:-|nuORF ENST00000459739.5_1_10:79567604-79581271:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.5280456542969 3 379.192957 1134.55704 NaN NaN NaN NaN NaN NaN NaN 18.558 1 18.773 18.273 19.273 0.21445 0 0 0 0.056457 1 8253 8253 51.63 30.093 1 26506 3695 17149 17207 30038 30038 -0.004855070937082928 QYNPHVHQL 9 Unmodified _QYNPHVHQL_ 0 0 0 ENST00000459739.5_1_10:79567604-79581271:-|nuORF;ENST00000463362.5_1_10:79552200-79579794:-|nuORF;nc|ENSG00000151208|Q8TDM6-2|DLG5;nc|ENSG00000151208|Q8TDM6-4|DLG5;ENSG00000151208|ENST00000372391|DLG5;nc|ENSG00000151208|Q8TDM6-5|DLG5;ENST00000475613.6_1_10:79552200-79579275:-|nuORF ENST00000459739.5_1_10:79567604-79581271:-|nuORF ENST00000459739.5_1_10:79567604-79581271:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.1937255859375 3 379.192957 1134.55704 2.6043 0.00098754 -0.36443 -0.00013819 2.2399 0.00084935 379.192825835942 18.616 0.27504 18.914 18.69 18.965 0.29753 42 32 2 0 0 0 0.078225 2 8394 8394;8440 38.176 24.27 1 1955700 26507 3695 17149 17207 30039;30040 30039 -0.004855070937082928 QYNPHVHQL 9 Unmodified _QYNPHVHQL_ 0 0 0 ENST00000459739.5_1_10:79567604-79581271:-|nuORF;ENST00000463362.5_1_10:79552200-79579794:-|nuORF;nc|ENSG00000151208|Q8TDM6-2|DLG5;nc|ENSG00000151208|Q8TDM6-4|DLG5;ENSG00000151208|ENST00000372391|DLG5;nc|ENSG00000151208|Q8TDM6-5|DLG5;ENST00000475613.6_1_10:79552200-79579275:-|nuORF ENST00000459739.5_1_10:79567604-79581271:-|nuORF ENST00000459739.5_1_10:79567604-79581271:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.1932678222656 3 379.192957 1134.55704 2.7763 0.0010528 -1.0415 -0.00039491 1.7349 0.00065784 379.19252541762796 18.268 0.042318 18.929 18.914 18.956 0.66072 11 7 2 0 0 0 0.057945 1 8264 8264 43.772 18.781 1 7504800 26508 3695 17149 17207 30041 30041 -0.004855070937082928 QYNPKFQTL 9 Unmodified _QYNPKFQTL_ 0 0 0 GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant;nc|ENSG00000116580|Q3T8J9-2|GON4L;nc|ENSG00000116580|Q3T8J9-3|GON4L;ENSG00000116580|ENST00000368331|GON4L;ENST00000496324.5_1_1:155642327-155650230:-|nuORF;nc|ENSG00000163374|Q9H869-5|YY1AP1;nc|ENSG00000163374|Q9H869-6|YY1AP1;ENST00000436865.5_1_1:155629450-155649007:-|nuORF;nc|ENSG00000163374|Q9H869-4|YY1AP1;nc|ENSG00000163374|Q9H869-3|YY1AP1;ENSG00000163374|ENST00000355499|YY1AP1;nc|ENSG00000163374|Q9H869|YY1AP1;nc|ENSG00000163374|Q9H869-8|YY1AP1;nc|ENSG00000163374|Q9H869-9|YY1AP1 GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.8006591796875 2 569.798206 1137.58186 3.7173 0.0021181 0.23883 0.00013609 3.9561 0.0022542 569.798650500852 41.204 0.17393 41.473 41.422 41.596 0.26904 20 15 2 0 0 0 0.0012766 1 18784 18784 122.18 60.822 1 1869200 26509 9365 17150 17208 30042 30042 0.018571279890011283 QYNPKFQTL 9 Unmodified _QYNPKFQTL_ 0 0 0 GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant;nc|ENSG00000116580|Q3T8J9-2|GON4L;nc|ENSG00000116580|Q3T8J9-3|GON4L;ENSG00000116580|ENST00000368331|GON4L;ENST00000496324.5_1_1:155642327-155650230:-|nuORF;nc|ENSG00000163374|Q9H869-5|YY1AP1;nc|ENSG00000163374|Q9H869-6|YY1AP1;ENST00000436865.5_1_1:155629450-155649007:-|nuORF;nc|ENSG00000163374|Q9H869-4|YY1AP1;nc|ENSG00000163374|Q9H869-3|YY1AP1;ENSG00000163374|ENST00000355499|YY1AP1;nc|ENSG00000163374|Q9H869|YY1AP1;nc|ENSG00000163374|Q9H869-8|YY1AP1;nc|ENSG00000163374|Q9H869-9|YY1AP1 GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.8015747070312 2 569.798206 1137.58186 3.83 0.0021823 0.53199 0.00030313 4.3619 0.0024854 569.7985793286055 40.626 0.24197 41.267 41.186 41.428 0.64136 26 16 2 0 0 0 0.00027711 1 18570 18570 134.3 72.938 1 904350 26510 9365 17150 17208 30043 30043 0.018571279890011283 QYNTYPIKL 9 Unmodified _QYNTYPIKL_ 0 0 0 nc|ENSG00000058262|P61619-3|SEC61A1;ENSG00000058262|ENST00000243253|SEC61A1 nc|ENSG00000058262|P61619-3|SEC61A1 nc|ENSG00000058262|P61619-3|SEC61A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.3098754882812 2 570.308406 1138.60226 3.5439 0.0020211 0.49501 0.00028231 4.0389 0.0023034 570.3086526203509 55.113 0.25174 55.113 54.969 55.221 0 43 23 2 0 0 0 0.0012852 2 25308 25284;25308 121.53 67.701 1 3490100 26511 630 17151 17209 30044;30045 30045 0.038502986487856106 QYNTYPIKL 9 Unmodified _QYNTYPIKL_ 0 0 0 nc|ENSG00000058262|P61619-3|SEC61A1;ENSG00000058262|ENST00000243253|SEC61A1 nc|ENSG00000058262|P61619-3|SEC61A1 nc|ENSG00000058262|P61619-3|SEC61A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.3106689453125 2 570.308406 1138.60226 3.2974 0.0018805 0.20817 0.00011872 3.5056 0.0019993 570.3085337645502 53.872 0.3571 54.667 54.477 54.834 0.79552 49 16 4 0 0 0 0.0012852 2 24568 24568;24617 121.53 83.383 1 1693000 26512 630 17151 17209 30046;30047 30046 0.038502986487856106 QYNTYPIKL 9 Unmodified _QYNTYPIKL_ 0 0 0 nc|ENSG00000058262|P61619-3|SEC61A1;ENSG00000058262|ENST00000243253|SEC61A1 nc|ENSG00000058262|P61619-3|SEC61A1 nc|ENSG00000058262|P61619-3|SEC61A1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 570.308406 1138.60226 3.1871 0.0018176 0.10918 6.2267E-05 3.2963 0.0018799 570.3083933195045 55.06 0.24043 55.325 55.16 55.401 0.26543 0.19453 -0.00012105 NaN 121.53 20 12 2 NaN NaN NaN NaN 0 NaN NaN 0 2315000 26513 630 17151 17209 0.038502986487856106 QYNTYPIKL 9 Unmodified _QYNTYPIKL_ 0 0 0 nc|ENSG00000058262|P61619-3|SEC61A1;ENSG00000058262|ENST00000243253|SEC61A1 nc|ENSG00000058262|P61619-3|SEC61A1 nc|ENSG00000058262|P61619-3|SEC61A1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 570.308406 1138.60226 3.498 0.001995 -0.11624 -6.6291E-05 3.3818 0.0019287 570.3083253154389 54.287 0.26332 54.953 54.792 55.055 0.6665 -0.17725 -0.00037817 NaN 121.53 20 13 2 NaN NaN NaN NaN 0 NaN NaN 0 1166100 26514 630 17151 17209 0.038502986487856106 QYNTYPIKLF 10 Unmodified _QYNTYPIKLF_ 0 0 0 nc|ENSG00000058262|P61619-3|SEC61A1;ENSG00000058262|ENST00000243253|SEC61A1 nc|ENSG00000058262|P61619-3|SEC61A1 nc|ENSG00000058262|P61619-3|SEC61A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 643.8453979492188 2 643.842613 1285.67067 3.3262 0.0021415 0.95596 0.00061549 4.2822 0.002757 643.8431787378864 71.362 0.12418 72.025 71.941 72.065 0.66324 18 10 2 0 0 0 0.1787 1 32708 32708 41.84 27.001 1 369630 26515 630 17152 17210 30048 30048 0.03926543228635637 QYNTYPIKLF 10 Unmodified _QYNTYPIKLF_ 0 0 0 nc|ENSG00000058262|P61619-3|SEC61A1;ENSG00000058262|ENST00000243253|SEC61A1 nc|ENSG00000058262|P61619-3|SEC61A1 nc|ENSG00000058262|P61619-3|SEC61A1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 643.842613 1285.67067 3.0986 0.001995 -0.33576 -0.00021618 2.7628 0.0017788 643.842001998219 72.073 0.18721 72.073 71.967 72.155 0 0.024041 -0.0014704 NaN 41.84 22 16 2 NaN NaN NaN NaN 0 NaN NaN 0 1372100 26516 630 17152 17210 0.03926543228635637 QYPGRSLVF 9 Unmodified _QYPGRSLVF_ 0 0 0 ENSG00000089737|ENST00000621632|DDX24;ENST00000555762.1_1_14:94524146-94547480:-|nuORF;nc|ENSG00000089737|Q9GZR7-2|DDX24 ENSG00000089737|ENST00000621632|DDX24 ENSG00000089737|ENST00000621632|DDX24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.7893676757812 2 533.787641 1065.56073 3.0457 0.0016258 0.54508 0.00029096 3.5908 0.0019167 533.788048686731 52.607 0.52702 52.607 52.439 52.966 0 93 41 3 0 0 0 0.044468 3 24089 24046;24089;24134 49.554 24.155 1 1428800 26517 1049 17153 17211 30049;30050;30051 30050 0.030571626801247476 QYPGRSLVF 9 Unmodified _QYPGRSLVF_ 0 0 0 ENSG00000089737|ENST00000621632|DDX24;ENST00000555762.1_1_14:94524146-94547480:-|nuORF;nc|ENSG00000089737|Q9GZR7-2|DDX24 ENSG00000089737|ENST00000621632|DDX24 ENSG00000089737|ENST00000621632|DDX24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.7894287109375 2 533.787641 1065.56073 2.5207 0.0013455 0.74118 0.00039563 3.2619 0.0017411 533.787961492841 51.59 0.50453 52.408 52.155 52.66 0.81738 79 33 3 0 0 0 0.034495 3 23525 23429;23477;23525 53.833 28.433 1 1265600 26518 1049 17153 17211 30052;30053;30054 30054 0.030571626801247476 QYPGRSLVF 9 Unmodified _QYPGRSLVF_ 0 0 0 ENSG00000089737|ENST00000621632|DDX24;ENST00000555762.1_1_14:94524146-94547480:-|nuORF;nc|ENSG00000089737|Q9GZR7-2|DDX24 ENSG00000089737|ENST00000621632|DDX24 ENSG00000089737|ENST00000621632|DDX24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.78955078125 2 533.787641 1065.56073 3.0684 0.0016379 1.2045 0.00064297 4.2729 0.0022808 533.788267054503 52.525 0.41839 52.788 52.575 52.994 0.26345 28 16 2 0 0 0 0.044468 2 23982 23982;24039 49.554 24.155 1 921910 26519 1049 17153 17211 30055;30056 30055 0.030571626801247476 QYPGRSLVF 9 Unmodified _QYPGRSLVF_ 0 0 0 ENSG00000089737|ENST00000621632|DDX24;ENST00000555762.1_1_14:94524146-94547480:-|nuORF;nc|ENSG00000089737|Q9GZR7-2|DDX24 ENSG00000089737|ENST00000621632|DDX24 ENSG00000089737|ENST00000621632|DDX24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.790283203125 2 533.787641 1065.56073 3.0573 0.001632 1.0606 0.00056614 4.1179 0.0021981 533.7882924557631 51.825 0.55377 52.487 52.421 52.975 0.66198 45 27 2 0 0 0 0.17594 2 23821 23744;23821 24.991 6.8446 1 636070 26520 1049 17153 17211 30057;30058 30058 0.030571626801247476 QYPVIIHLI 9 Unmodified _QYPVIIHLI_ 0 0 0 ENST00000470968.6_1_1:43829589-43833598:-|nuORF;nc|ENSG00000066322|Q9BW60-2|ELOVL1;ENSG00000066322|ENST00000372458|ELOVL1 ENST00000470968.6_1_1:43829589-43833598:-|nuORF ENST00000470968.6_1_1:43829589-43833598:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.3336181640625 2 548.331685 1094.64882 3.3982 0.0018633 0.33045 0.00018119 3.7287 0.0020445 548.3318399238627 78.475 0.7522 78.729 78.292 79.044 0.25335 74 44 2 0 0 0 0.037152 5 36056 36056;36103;36150;36202;36247 52.693 38.111 1 865850 26521 704 17154 17212 30059;30060;30061;30062;30063 30059 0.10527783270754298 QYPVIIHLI 9 Unmodified _QYPVIIHLI_ 0 0 0 ENST00000470968.6_1_1:43829589-43833598:-|nuORF;nc|ENSG00000066322|Q9BW60-2|ELOVL1;ENSG00000066322|ENST00000372458|ELOVL1 ENST00000470968.6_1_1:43829589-43833598:-|nuORF ENST00000470968.6_1_1:43829589-43833598:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.3331298828125 2 548.331685 1094.64882 3.4108 0.0018703 0.27953 0.00015327 3.6904 0.0020235 548.3320561634173 77.986 0.69946 78.648 78.259 78.958 0.66198 98 42 3 0 0 0 0.044201 5 35887 35820;35887;35940;35988;36047 49.669 35.087 1 872510 26522 704 17154 17212 30064;30065;30066;30067;30068 30065 0.10527783270754298 QYPVIIHLI 9 Unmodified _QYPVIIHLI_ 0 0 0 ENST00000470968.6_1_1:43829589-43833598:-|nuORF;nc|ENSG00000066322|Q9BW60-2|ELOVL1;ENSG00000066322|ENST00000372458|ELOVL1 ENST00000470968.6_1_1:43829589-43833598:-|nuORF ENST00000470968.6_1_1:43829589-43833598:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 548.331685 1094.64882 3.0989 0.0016992 0.045828 2.5129E-05 3.1447 0.0017243 548.3309877630032 78.906 0.131 78.906 78.875 79.006 0 0.1448 -0.0002714 NaN 52.693 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 3109200 26523 704 17154 17212 0.10527783270754298 QYPVYWDHLEF 11 Unmodified _QYPVYWDHLEF_ 0 0 0 ENSG00000090487|ENST00000204566|SPG21 ENSG00000090487|ENST00000204566|SPG21 ENSG00000090487|ENST00000204566|SPG21 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 748.8466796875 2 748.845884 1495.67722 NaN NaN NaN NaN NaN NaN NaN 79.982 1 80.232 79.732 80.732 0.24947 0 0 0 0.83565 1 36827 36827 20.415 10.341 1 26524 1059 17155 17213 30069 30069 -0.05079563610615878 QYPVYWDHLEF 11 Unmodified _QYPVYWDHLEF_ 0 0 0 ENSG00000090487|ENST00000204566|SPG21 ENSG00000090487|ENST00000204566|SPG21 ENSG00000090487|ENST00000204566|SPG21 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 748.8485107421875 2 748.845884 1495.67722 NaN NaN NaN NaN NaN NaN NaN 79.445 1 80.106 79.606 80.606 0.66082 0 0 0 0.91016 1 36606 36606 15.248 9.0427 1 26525 1059 17155 17213 30070 30070 -0.05079563610615878 QYQKVPVLF 9 Unmodified _QYQKVPVLF_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.3230590820312 2 561.321317 1120.62808 3.4928 0.0019606 -0.41553 -0.00023325 3.0773 0.0017274 561.3209259446265 62.432 0.21497 62.681 62.645 62.86 0.24965 67 45 2 0 0 0 1.1247E-09 2 28584 28584;28625 162.95 109.38 1 15025000 26526 4953 17156 17214 30071;30072 30071 0.07259192891069688 QYQKVPVLF 9 Unmodified _QYQKVPVLF_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.323974609375 2 561.321317 1120.62808 3.414 0.0019164 -0.011341 -6.3659E-06 3.4027 0.00191 561.321210846843 61.804 0.18672 62.464 62.407 62.593 0.66008 58 33 2 0 0 0 4.7721999999999996E-21 2 28345 28299;28345 179.23 111.15 1 14297000 26527 4953 17156 17214 30073;30074 30074 0.07259192891069688 QYQQIISRL 9 Unmodified _QYQQIISRL_ 0 0 0 ENSG00000104881|ENST00000360957|PPP1R13L ENSG00000104881|ENST00000360957|PPP1R13L ENSG00000104881|ENST00000360957|PPP1R13L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.8263549804688 2 574.824755 1147.63496 3.6822 0.0021166 1.1782 0.00067726 4.8604 0.0027939 574.8245875880252 52.955 0.24869 52.955 52.807 53.056 0 17 12 2 0 0 0 0.0043297 1 24253 24253 93.166 27.931 1 441900 26528 1457 17157 17215 30075 30075 0.0670450577167685 QYQQIISRL 9 Unmodified _QYQQIISRL_ 0 0 0 ENSG00000104881|ENST00000360957|PPP1R13L ENSG00000104881|ENST00000360957|PPP1R13L ENSG00000104881|ENST00000360957|PPP1R13L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.8263549804688 2 574.824755 1147.63496 2.9704 0.0017075 -0.34873 -0.00020046 2.6217 0.001507 574.8241759454256 51.825 0.1873 52.636 52.513 52.7 0.81065 19 12 2 0 0 0 0.015631 1 23603 23603 74.2 18.023 1 837590 26529 1457 17157 17215 30076 30076 0.0670450577167685 QYQQIISRL 9 Unmodified _QYQQIISRL_ 0 0 0 ENSG00000104881|ENST00000360957|PPP1R13L ENSG00000104881|ENST00000360957|PPP1R13L ENSG00000104881|ENST00000360957|PPP1R13L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.8272094726562 2 574.824755 1147.63496 3.4195 0.0019656 0.38668 0.00022228 3.8061 0.0021879 574.824741897154 52.709 0.22235 52.973 52.855 53.077 0.26345 16 8 2 0 0 0 0.020338 1 24084 24084 67.838 11.661 1 679960 26530 1457 17157 17215 30077 30077 0.0670450577167685 QYQQIISRL 9 Unmodified _QYQQIISRL_ 0 0 0 ENSG00000104881|ENST00000360957|PPP1R13L ENSG00000104881|ENST00000360957|PPP1R13L ENSG00000104881|ENST00000360957|PPP1R13L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 574.8260498046875 2 574.824755 1147.63496 3.4977 0.0020106 0.63414 0.00036452 4.1319 0.0023751 574.8248152658538 52.319 0.24967 52.981 52.849 53.099 0.66198 23 10 3 0 0 0 0.0057865 2 23897 23897;23950 90.135 33.958 1 598280 26531 1457 17157 17215 30078;30079 30078 0.0670450577167685 QYRFRWLTHFK 11 Unmodified _QYRFRWLTHFK_ 0 0 0 REV__nc|ENSG00000144406|Q8N2C7-7|UNC80 REV__nc|ENSG00000144406|Q8N2C7-7|UNC80 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.9535522460938 3 527.95276 1580.83645 NaN NaN NaN NaN NaN NaN NaN 62.615 1 62.615 62.115 63.115 0 0 0 0 1.008 1 29358 29358 0.08335 0 1 + 26532 12401 17158 17216 30080 30080 0.0692661452799257 QYRIQERALF 10 Unmodified _QYRIQERALF_ 0 0 0 ENST00000560291.2_1_15:52152484-52153489:-|nuORF ENST00000560291.2_1_15:52152484-52153489:-|nuORF ENST00000560291.2_1_15:52152484-52153489:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 662.3621826171875 2 662.362036 1322.70952 NaN NaN NaN NaN NaN NaN NaN 35.412 1 36.203 35.703 36.703 0.79131 0 0 0 1.0001 1 16049 16049 1.6526 0 1 26533 8973 17159 17217 30081 30081 0.061072685830367845 QYSDVNNRW 9 Unmodified _QYSDVNNRW_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;SPTBN1|p.E1055Gfs*20|1|0.19|ENSG00000115306|chr2:54631208-54631224|GAGAGGCCTCCCTGGGA/-|frameshift_variant;ENST00000602898.1_1_2:54753540-54753741:+|nuORF ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.2709350585938 2 591.270344 1180.52613 NaN NaN NaN NaN NaN NaN NaN 30.361 1 31.15 30.65 31.65 0.78921 0 0 0 0.87786 1 13709 13709 6.7232 1.9672 1 26534 1960 17160 17218 30082 30082 -0.05690705198617252 QYSKVLNEL 9 Unmodified _QYSKVLNEL_ 0 0 0 nc|ENSG00000039560|Q9P0K7-4|RAI14;nc|ENSG00000039560|Q9P0K7-3|RAI14;ENSG00000039560|ENST00000265109|RAI14;nc|ENSG00000039560|Q9P0K7-2|RAI14 nc|ENSG00000039560|Q9P0K7-4|RAI14 nc|ENSG00000039560|Q9P0K7-4|RAI14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.29833984375 2 547.298039 1092.58152 3.5191 0.001926 -0.12143 -6.6459E-05 3.3977 0.0018596 547.2978831889749 46.374 0.22427 46.374 46.24 46.464 0 19 11 2 0 0 0 0.0027913 1 21222 21222 96.367 37.688 1 1600400 26535 529 17161 17219 30083 30083 0.0389370826915183 QYSKVLNEL 9 Unmodified _QYSKVLNEL_ 0 0 0 nc|ENSG00000039560|Q9P0K7-4|RAI14;nc|ENSG00000039560|Q9P0K7-3|RAI14;ENSG00000039560|ENST00000265109|RAI14;nc|ENSG00000039560|Q9P0K7-2|RAI14 nc|ENSG00000039560|Q9P0K7-4|RAI14 nc|ENSG00000039560|Q9P0K7-4|RAI14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.2990112304688 2 547.298039 1092.58152 3.1448 0.0017211 0.23781 0.00013015 3.3826 0.0018513 547.2980671614996 45.292 0.24717 46.118 45.995 46.242 0.82621 26 14 2 0 0 0 0.014491 1 20611 20611 75.761 27.415 1 955340 26536 529 17161 17219 30084 30084 0.0389370826915183 QYSKVLNEL 9 Unmodified _QYSKVLNEL_ 0 0 0 nc|ENSG00000039560|Q9P0K7-4|RAI14;nc|ENSG00000039560|Q9P0K7-3|RAI14;ENSG00000039560|ENST00000265109|RAI14;nc|ENSG00000039560|Q9P0K7-2|RAI14 nc|ENSG00000039560|Q9P0K7-4|RAI14 nc|ENSG00000039560|Q9P0K7-4|RAI14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.300537109375 2 547.298039 1092.58152 3.6448 0.0019948 1.1422 0.00062513 4.787 0.0026199 547.2987884823334 46.324 0.28729 46.59 46.387 46.675 0.26561 17 11 2 0 0 0 0.59776 1 21141 21141 10.824 2.9138 1 327060 26537 529 17161 17219 30085 30085 0.0389370826915183 QYSPLLAAF 9 Unmodified _QYSPLLAAF_ 0 0 0 ENSG00000082153|ENST00000409600|BZW1;nc|ENSG00000082153|Q7L1Q6-4|BZW1;nc|ENSG00000082153|Q7L1Q6-3|BZW1 ENSG00000082153|ENST00000409600|BZW1 ENSG00000082153|ENST00000409600|BZW1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.27288818359375 2 505.271293 1008.52803 3.4029 0.0017194 0.1905 9.6252E-05 3.5934 0.0018156 505.2713055335292 86.911 0.33354 87.161 86.948 87.281 0.24974 38 15 3 0 0 0 0.017293 3 40015 39952;39964;40015 71.922 25.901 1 1178500 26538 926 17162 17220 30086;30087;30088 30088 0.024109555572863428 QYSPLLAAF 9 Unmodified _QYSPLLAAF_ 0 0 0 ENSG00000082153|ENST00000409600|BZW1;nc|ENSG00000082153|Q7L1Q6-4|BZW1;nc|ENSG00000082153|Q7L1Q6-3|BZW1 ENSG00000082153|ENST00000409600|BZW1 ENSG00000082153|ENST00000409600|BZW1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.2729797363281 2 505.271293 1008.52803 3.4046 0.0017202 0.76306 0.00038555 4.1676 0.0021058 505.27144963202744 86.375 0.20065 87.045 86.884 87.085 0.67061 15 8 2 0 0 0 0.010018 1 39772 39772 81.89 27.117 1 1152600 26539 926 17162 17220 30089 30089 0.024109555572863428 QYSRFSLENNF 11 Unmodified _QYSRFSLENNF_ 0 0 0 ENSG00000115415|ENST00000361099|STAT1;nc|ENSG00000115415|P42224-2|STAT1 ENSG00000115415|ENST00000361099|STAT1 ENSG00000115415|ENST00000361099|STAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 702.8336181640625 2 702.830766 1403.64698 NaN NaN NaN NaN NaN NaN NaN 56.182 1 56.182 55.682 56.682 0 0 0 0 4.0581E-22 1 25846 25846 143.21 112.58 1 26540 1969 17163 17221 30090 30090 -0.03869922275771387 QYSRFSLENNF 11 Unmodified _QYSRFSLENNF_ 0 0 0 ENSG00000115415|ENST00000361099|STAT1;nc|ENSG00000115415|P42224-2|STAT1 ENSG00000115415|ENST00000361099|STAT1 ENSG00000115415|ENST00000361099|STAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 702.8319702148438 2 702.830766 1403.64698 3.314 0.0023292 0.40857 0.00028715 3.7226 0.0026163 702.8311654199172 55.105 0.27795 55.892 55.756 56.034 0.78711 31 18 2 0 0 0 3.8128E-15 2 25121 25121;25175 132.38 110.84 1 1067300 26541 1969 17163 17221 30091;30092 30091 -0.03869922275771387 QYSRFSLENNF 11 Unmodified _QYSRFSLENNF_ 0 0 0 ENSG00000115415|ENST00000361099|STAT1;nc|ENSG00000115415|P42224-2|STAT1 ENSG00000115415|ENST00000361099|STAT1 ENSG00000115415|ENST00000361099|STAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 702.832275390625 2 702.830766 1403.64698 3.7361 0.0026259 -0.60766 -0.00042708 3.1285 0.0021988 702.8303630628274 56.177 0.29089 56.442 56.301 56.592 0.26543 23 10 3 0 0 0 2.7481E-20 2 25701 25701;25765 147.24 122.25 1 1676300 26542 1969 17163 17221 30093;30094 30093 -0.03869922275771387 QYSRFSLENNF 11 Unmodified _QYSRFSLENNF_ 0 0 0 ENSG00000115415|ENST00000361099|STAT1;nc|ENSG00000115415|P42224-2|STAT1 ENSG00000115415|ENST00000361099|STAT1 ENSG00000115415|ENST00000361099|STAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 703.336181640625 2 702.830766 1403.64698 3.9764 0.0027948 0.24117 0.0001695 4.2176 0.0029643 702.8307763907292 55.526 0.30891 56.194 56.036 56.345 0.66798 31 13 3 0 0 0 5.6497E-20 2 25374 25374;25430 143.91 124.65 1 1364100 26543 1969 17163 17221 30095;30096 30095 -0.03869922275771387 QYTHKIYHL 9 Unmodified _QYTHKIYHL_ 0 0 0 ENST00000471825.1_1_22:28306950-28315179:-|nuORF;ENST00000460566.5_1_22:28293057-28315179:-|nuORF;PITPNB|p.Q189Rfs*8|1|0.29|ENSG00000180957|chr22:27860211-27860211|G/-|frameshift_variant;ENSG00000180957|ENST00000335272|PITPNB;nc|ENSG00000180957|P48739-2|PITPNB;nc|ENSG00000180957|P48739-3|PITPNB;ENSG00000174238|ENST00000313486|PITPNA ENST00000471825.1_1_22:28306950-28315179:-|nuORF ENST00000471825.1_1_22:28306950-28315179:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 401.549560546875 3 401.548741 1201.62439 2.7384 0.0010996 0.15837 6.3595E-05 2.8968 0.0011632 401.54877165684206 20.091 0.28047 20.091 19.953 20.233 0 89 29 4 0 0 0 0.10169 2 8959 8959;9000 23.79 12.158 1 1291800 26544 5271 17164 17222 30097;30098 30097 0.031645231171978594 QYTHKIYHL 9 Unmodified _QYTHKIYHL_ 0 0 0 ENST00000471825.1_1_22:28306950-28315179:-|nuORF;ENST00000460566.5_1_22:28293057-28315179:-|nuORF;PITPNB|p.Q189Rfs*8|1|0.29|ENSG00000180957|chr22:27860211-27860211|G/-|frameshift_variant;ENSG00000180957|ENST00000335272|PITPNB;nc|ENSG00000180957|P48739-2|PITPNB;nc|ENSG00000180957|P48739-3|PITPNB;ENSG00000174238|ENST00000313486|PITPNA ENST00000471825.1_1_22:28306950-28315179:-|nuORF ENST00000471825.1_1_22:28306950-28315179:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 401.549560546875 3 401.548741 1201.62439 2.8317 0.0011371 0.10314 4.1415E-05 2.9349 0.0011785 401.5487283441442 19.683 0.20669 19.975 19.861 20.068 0.29239 34 14 3 0 0 0 0.10169 2 8942 8942;8988 23.79 19.944 1 771170 26545 5271 17164 17222 30099;30100 30099 0.031645231171978594 QYTHKIYHL 9 Unmodified _QYTHKIYHL_ 0 0 0 ENST00000471825.1_1_22:28306950-28315179:-|nuORF;ENST00000460566.5_1_22:28293057-28315179:-|nuORF;PITPNB|p.Q189Rfs*8|1|0.29|ENSG00000180957|chr22:27860211-27860211|G/-|frameshift_variant;ENSG00000180957|ENST00000335272|PITPNB;nc|ENSG00000180957|P48739-2|PITPNB;nc|ENSG00000180957|P48739-3|PITPNB;ENSG00000174238|ENST00000313486|PITPNA ENST00000471825.1_1_22:28306950-28315179:-|nuORF ENST00000471825.1_1_22:28306950-28315179:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 401.8839111328125 3 401.548741 1201.62439 3.0756 0.001235 -0.57793 -0.00023207 2.4977 0.0010029 401.5486834600151 19.287 0.23109 19.946 19.814 20.045 0.6583 41 16 3 0 0 0 0.10169 1 8745 8745 23.79 12.158 1 1014100 26546 5271 17164 17222 30101 30101 0.031645231171978594 QYTLLKFIWM 10 Unmodified _QYTLLKFIWM_ 0 0 0 REV__ENST00000446041.6_1_3:140695894-140695999:+|nuORF REV__ENST00000446041.6_1_3:140695894-140695999:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.4369812011719 4 336.436155 1341.71552 2.4491 0.00082397 0.43888 0.00014766 2.888 0.00097162 336.4364285264082 20.555 0.25988 21.208 21.104 21.364 0.65346 59 25 3 0 0 0 0.93628 1 9333 9333 0.69767 0.19171 1 173030 + 26547 16381 17165 17223 30102 30102 0.058326507703441166 QYTPHSHQF 9 Unmodified _QYTPHSHQF_ 0 0 0 ENSG00000141564|ENST00000306801|RPTOR;nc|ENSG00000141564|Q8N122-3|RPTOR ENSG00000141564|ENST00000306801|RPTOR ENSG00000141564|ENST00000306801|RPTOR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 382.1783447265625 3 382.177195 1143.50976 2.737 0.001046 0.44783 0.00017115 3.1848 0.0012172 382.1771797098801 14.395 0.21097 14.395 14.279 14.49 0 31 12 4 0 0 0 0.14214 1 6338 6338 27.223 19.614 1 712090 26548 3271 17166 17224 30103 30103 -0.05625786364726082 QYTPHSHQF 9 Unmodified _QYTPHSHQF_ 0 0 0 ENSG00000141564|ENST00000306801|RPTOR;nc|ENSG00000141564|Q8N122-3|RPTOR ENSG00000141564|ENST00000306801|RPTOR ENSG00000141564|ENST00000306801|RPTOR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 382.17767333984375 3 382.177195 1143.50976 NaN NaN NaN NaN NaN NaN NaN 13.854 1 14.097 13.597 14.597 0.24346 0 0 0 0.14425 1 6073 6073 33.445 17.296 1 26549 3271 17166 17224 30104 30104 -0.05625786364726082 QYTQALEKF 9 Unmodified _QYTQALEKF_ 0 0 0 nc|ENSG00000151693|O43150-2|ASAP2;ENSG00000151693|ENST00000281419|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.2914428710938 2 564.290214 1126.56587 3.3519 0.0018914 0.042663 2.4074E-05 3.3945 0.0019155 564.2897354025937 44.936 0.19547 44.936 44.798 44.993 0 17 9 2 0 0 0 0.0057865 1 20529 20529 90.135 55.733 1 1432800 26550 3724 17167 17225 30105 30105 0.007654217520666862 QYTQALEKF 9 Unmodified _QYTQALEKF_ 0 0 0 nc|ENSG00000151693|O43150-2|ASAP2;ENSG00000151693|ENST00000281419|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.2920532226562 2 564.290214 1126.56587 3.2995 0.0018619 -0.089336 -5.0412E-05 3.2102 0.0018115 564.2900519850599 43.731 0.3419 44.545 44.357 44.699 0.81444 43 18 3 0 0 0 0.0020335 2 19886 19886;19933 103.82 63.874 1 789570 26551 3724 17167 17225 30106;30107 30106 0.007654217520666862 QYTQALEKF 9 Unmodified _QYTQALEKF_ 0 0 0 nc|ENSG00000151693|O43150-2|ASAP2;ENSG00000151693|ENST00000281419|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.2921752929688 2 564.290214 1126.56587 3.4164 0.0019278 0.1197 6.7544E-05 3.5361 0.0019954 564.2901121582065 44.92 0.25068 45.187 45.068 45.318 0.26768 20 12 2 0 0 0 0.0076144 1 20527 20527 86.332 44.492 1 730320 26552 3724 17167 17225 30108 30108 0.007654217520666862 QYTQALEKF 9 Unmodified _QYTQALEKF_ 0 0 0 nc|ENSG00000151693|O43150-2|ASAP2;ENSG00000151693|ENST00000281419|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 nc|ENSG00000151693|O43150-2|ASAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.2930297851562 2 564.290214 1126.56587 3.7204 0.0020994 0.23106 0.00013038 3.9515 0.0022298 564.2902766067033 44.276 0.27754 44.926 44.845 45.123 0.64999 29 12 3 0 0 0 0.016529 2 20294 20294;20375 72.968 31.128 1 701350 26553 3724 17167 17225 30109;30110 30109 0.007654217520666862 QYVDFHNQL 9 Unmodified _QYVDFHNQL_ 0 0 0 nc|ENSG00000134899|P28715-2|ERCC5;ENSG00000134899|ENST00000652225|ERCC5 nc|ENSG00000134899|P28715-2|ERCC5 nc|ENSG00000134899|P28715-2|ERCC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 582.2800903320312 2 582.277638 1162.54072 3.3882 0.0019729 -0.22358 -0.00013018 3.1646 0.0018427 582.2773703872099 47.644 0.22943 47.644 47.529 47.758 0 49 20 3 0 0 0 3.5465E-15 2 21835 21789;21835 176.84 130.32 1 7716600 26554 2835 17168 17226 30111;30112 30112 -0.03404633050490702 QYVDFHNQL 9 Unmodified _QYVDFHNQL_ 0 0 0 nc|ENSG00000134899|P28715-2|ERCC5;ENSG00000134899|ENST00000652225|ERCC5 nc|ENSG00000134899|P28715-2|ERCC5 nc|ENSG00000134899|P28715-2|ERCC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.7814331054688 2 582.277638 1162.54072 3.1459 0.0018318 -0.43122 -0.00025109 2.7147 0.0015807 582.2772168927206 46.522 0.23535 47.351 47.22 47.456 0.82915 45 21 3 0 0 0 1.7701E-14 2 21207 21166;21207 174.73 126.98 1 8950300 26555 2835 17168 17226 30113;30114 30114 -0.03404633050490702 QYVDFHNQL 9 Unmodified _QYVDFHNQL_ 0 0 0 nc|ENSG00000134899|P28715-2|ERCC5;ENSG00000134899|ENST00000652225|ERCC5 nc|ENSG00000134899|P28715-2|ERCC5 nc|ENSG00000134899|P28715-2|ERCC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.279541015625 2 582.277638 1162.54072 3.623 0.0021096 -0.31415 -0.00018292 3.3088 0.0019267 582.2774399868292 47.556 0.30061 47.82 47.642 47.942 0.26363 35 21 2 0 0 0 1.7701E-14 2 21756 21707;21756 174.73 134.77 1 4325300 26556 2835 17168 17226 30115;30116 30116 -0.03404633050490702 QYVDFHNQL 9 Unmodified _QYVDFHNQL_ 0 0 0 nc|ENSG00000134899|P28715-2|ERCC5;ENSG00000134899|ENST00000652225|ERCC5 nc|ENSG00000134899|P28715-2|ERCC5 nc|ENSG00000134899|P28715-2|ERCC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.2796020507812 2 582.277638 1162.54072 3.5684 0.0020778 -0.29208 -0.00017007 3.2763 0.0019077 582.27740767492 46.943 0.30438 47.595 47.435 47.74 0.65219 41 21 2 0 0 0 1.0706E-08 2 21486 21486;21531 155.03 117.05 1 3943300 26557 2835 17168 17226 30117;30118 30117 -0.03404633050490702 QYVVDLTSF 9 Unmodified _QYVVDLTSF_ 0 0 0 ENST00000487953.1_1_1:233091430-233112053:+|nuORF;ENST00000494689.5_1_1:233086425-233113974:+|nuORF;ENSG00000135778|ENST00000366628|NTPCR ENST00000487953.1_1_1:233091430-233112053:+|nuORF ENST00000487953.1_1_1:233091430-233112053:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.2736206054688 2 536.27149 1070.52843 2.455 0.0013165 0.63498 0.00034052 3.09 0.0016571 536.2716292927402 79.484 0.19461 79.804 79.695 79.889 0.31998 31 15 3 0 0 0 0.020151 1 38831 38831 68.081 20.332 1 1075100 26558 2898 17169 17227 30119 30119 -0.004016695135305781 QYVVDLTSF 9 Unmodified _QYVVDLTSF_ 0 0 0 ENST00000487953.1_1_1:233091430-233112053:+|nuORF;ENST00000494689.5_1_1:233086425-233113974:+|nuORF;ENSG00000135778|ENST00000366628|NTPCR ENST00000487953.1_1_1:233091430-233112053:+|nuORF ENST00000487953.1_1_1:233091430-233112053:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.2720336914062 2 536.27149 1070.52843 3.2646 0.0017507 0.01064 5.7057E-06 3.2752 0.0017564 536.2714809634234 79.453 0.22903 80.114 80.01 80.239 0.66082 24 16 2 0 0 0 0.24465 1 36589 36589 20.454 10.38 1 500520 26559 2898 17169 17227 30120 30120 -0.004016695135305781 QYVWQRKRKWR 11 Unmodified _QYVWQRKRKWR_ 0 0 0 ENST00000562283.5_1_16:84733615-84766691:+|nuORF ENST00000562283.5_1_16:84733615-84766691:+|nuORF ENST00000562283.5_1_16:84733615-84766691:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 817.4583129882812 2 817.46295 1632.91135 NaN NaN NaN NaN NaN NaN NaN 88.539 1 88.592 88.092 89.092 0.052155 0 0 0 1.0082 1 45123 45123 0 0 1 26560 8991 17170 17228 30121 30121 0.12020797059244615 QYVYWLHML 9 Unmodified _QYVYWLHML_ 0 0 0 ENSG00000135926|ENST00000258412|TMBIM1 ENSG00000135926|ENST00000258412|TMBIM1 ENSG00000135926|ENST00000258412|TMBIM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 626.8163452148438 2 626.812802 1251.61105 3.755 0.0023537 0.69501 0.00043564 4.4501 0.0027893 626.8132529012714 85.042 0.18904 85.289 85.193 85.382 0.24757 15 9 2 0 0 0 0.044201 1 39144 39144 49.669 37.428 1 492440 26561 2913 17171 17229 30122 30122 -0.004690509863849002 QYVYWLHML 9 Unmodified _QYVYWLHML_ 0 0 0 ENSG00000135926|ENST00000258412|TMBIM1 ENSG00000135926|ENST00000258412|TMBIM1 ENSG00000135926|ENST00000258412|TMBIM1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 626.812802 1251.61105 3.9145 0.0024537 1.1003 0.00068966 5.0148 0.0031433 626.8134131851768 84.349 0.21692 85.011 84.981 85.198 0.66219 -0.13907 0.00019792 NaN 49.669 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 373890 26562 2913 17171 17229 -0.004690509863849002 QYWRYDERRQM 11 Unmodified _QYWRYDERRQM_ 0 0 0 ENSG00000262406|ENST00000571244|MMP12 ENSG00000262406|ENST00000571244|MMP12 ENSG00000262406|ENST00000571244|MMP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 815.879638671875 2 815.880798 1629.74704 NaN NaN NaN NaN NaN NaN NaN 77.811 1 78.064 77.564 78.564 0.25335 0 0 0 1.0082 1 35835 35835 0 0 1 26563 6314 17172 17230 30123 30123 -0.042640082137040736 RAAECRRPKE 10 Unmodified _RAAECRRPKE_ 0 0 0 REV__ENST00000524001.1_1_8:21768344-21770030:-|nuORF REV__ENST00000524001.1_1_8:21768344-21770030:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.88555908203125 3 405.884017 1214.63022 2.72 0.001104 0.78377 0.00031812 3.5038 0.0014221 405.88421755762056 72.222 0.4539 72.481 72.181 72.635 0.25876 112 42 3 0 0 0 0.87461 1 33148 33148 2.6312 1.039 1 2100000 + 26564 12508 17173 17231 30124 30124 0.03149298357243424 RAAKVWICK 9 Unmodified _RAAKVWICK_ 0 0 0 REV__ENSG00000196169|ENST00000389916|KIF19 REV__ENSG00000196169|ENST00000389916|KIF19 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.2060546875 3 358.879545 1073.6168 2.4695 0.00088624 0.31674 0.00011367 2.7862 0.00099991 358.87949773044613 32.187 0.28153 32.805 32.647 32.928 0.61831 27 15 2 0 0 0 0.1077 1 14697 14697 7.609 5.9563 1 356950 + 26565 14192 17174 17232 30125 30125 0.08294092315964008 RAAQMYREKI 10 Unmodified _RAAQMYREKI_ 0 0 0 ENST00000527097.5_1_11:47193699-47198404:-|nuORF;nc|ENSG00000149182|Q8N6H7-2|ARFGAP2;ENST00000395449.7_1_11:47187835-47198404:-|nuORF;ENSG00000149182|ENST00000524782|ARFGAP2;ENST00000524727.5_1_11:47194869-47198404:-|nuORF ENST00000527097.5_1_11:47193699-47198404:-|nuORF ENST00000527097.5_1_11:47193699-47198404:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.3411865234375 2 633.342789 1264.67103 NaN NaN NaN NaN NaN NaN NaN 103.9 1 104.22 103.72 104.72 0.31863 0 0 0 1.0015 1 48018 48018 0.40072 0 1 26566 3630 17175 17233 30126 30126 0.049276396768618724 RAARYYYYW 9 Unmodified _RAARYYYYW_ 0 0 0 ENSG00000139926|ENST00000344768|FRMD6;nc|ENSG00000139926|Q96NE9-2|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.88116455078125 3 437.88049 1310.61964 2.7521 0.0012051 -2.6622 -0.0011657 0.089915 3.9372E-05 437.8791986918075 45.769 0.1566 46.595 46.474 46.631 0.82621 8 6 2 0 0 0 0.15661 1 20843 20843 26.268 20.971 1 432420 26567 3172 17176 17234 30127 30127 -0.023243610255349267 RAARYYYYW 9 Unmodified _RAARYYYYW_ 0 0 0 ENSG00000139926|ENST00000344768|FRMD6;nc|ENSG00000139926|Q96NE9-2|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 437.88049 1310.61964 2.7056 0.0011847 -1.7851 -0.00078168 0.92046 0.00040305 437.88006865343266 46.926 0.1551 46.926 46.787 46.943 0 0.16552 0.00084839 NaN 26.268 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 421410 26568 3172 17176 17234 -0.023243610255349267 RAAWVKVP 8 Unmodified _RAAWVKVP_ 0 0 0 ENSG00000123297|ENST00000652027|TSFM;nc|ENSG00000123297|P43897-2|TSFM ENSG00000123297|ENST00000652027|TSFM ENSG00000123297|ENST00000652027|TSFM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.7840270996094 2 463.782162 925.549771 2.8239 0.0013097 1.6812 0.00077971 4.5051 0.0020894 463.7829977796626 31.192 0.18217 31.81 31.728 31.91 0.61736 20 11 2 0 0 0 0.74071 1 14298 14298 2.5775 1.7838 1 570850 26569 2303 17177 17235 30128 30128 0.08401805096502812 RAAWVKVP 8 Unmodified _RAAWVKVP_ 0 0 0 ENSG00000123297|ENST00000652027|TSFM;nc|ENSG00000123297|P43897-2|TSFM ENSG00000123297|ENST00000652027|TSFM ENSG00000123297|ENST00000652027|TSFM MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 463.782162 925.549771 2.8942 0.0013423 2.1443 0.00099448 5.0385 0.0023367 463.7830441315949 31.733 0.18952 31.733 31.635 31.825 0 -0.042279 0.00016831 NaN 2.5775 19 17 2 NaN NaN NaN NaN 0 NaN NaN 0 299070 26570 2303 17177 17235 0.08401805096502812 RAAWVKVP 8 Unmodified _RAAWVKVP_ 0 0 0 ENSG00000123297|ENST00000652027|TSFM;nc|ENSG00000123297|P43897-2|TSFM ENSG00000123297|ENST00000652027|TSFM ENSG00000123297|ENST00000652027|TSFM MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 463.782162 925.549771 2.8648 0.0013286 2.412 0.0011186 5.2768 0.0024473 463.7830980756327 30.985 0.15384 31.774 31.69 31.843 0.78879 -0.0017651 0.00041662 NaN 2.5775 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 251680 26571 2303 17177 17235 0.08401805096502812 RAAWVKVP 8 Unmodified _RAAWVKVP_ 0 0 0 ENSG00000123297|ENST00000652027|TSFM;nc|ENSG00000123297|P43897-2|TSFM ENSG00000123297|ENST00000652027|TSFM ENSG00000123297|ENST00000652027|TSFM MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 463.782162 925.549771 3.1825 0.001476 1.6368 0.0007591 4.8192 0.0022351 463.78283677084744 31.53 0.29283 31.786 31.65 31.943 0.25614 0.010106 -0.00030246 NaN 2.5775 40 21 2 NaN NaN NaN NaN 0 NaN NaN 0 456860 26572 2303 17177 17235 0.08401805096502812 RACRPRKVLL 10 Unmodified _RACRPRKVLL_ 0 0 0 ENST00000260662.2_1_2:25022600-25022663:+|nuORF ENST00000260662.2_1_2:25022600-25022663:+|nuORF ENST00000260662.2_1_2:25022600-25022663:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 303.6943359375 4 303.693393 1210.74446 1.8374 0.000558 1.0896 0.00033091 2.927 0.00088891 303.69366025598435 33.161 0.56832 33.161 32.727 33.295 0 101 39 3 0 0 0 0.94099 1 14860 14860 0.69767 0.69767 1 2303100 26573 6546 17178 17236 30129 30129 0.14752232910018392 RADESTYVL 9 Unmodified _RADESTYVL_ 0 0 0 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.2659912109375 2 527.264196 1052.51384 3.2233 0.0016995 0.97467 0.00051391 4.198 0.0022134 527.2642701357939 38.071 0.28138 38.332 38.153 38.434 0.26083 14 8 2 0 0 0 0.11155 1 17325 17325 29.841 7.1043 1 582280 26574 1956 17179 17237 30130 30130 -0.01031741661677188 RADESTYVL 9 Unmodified _RADESTYVL_ 0 0 0 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.2654418945312 2 527.264196 1052.51384 3.2253 0.0017006 0.16422 8.6585E-05 3.3895 0.0017872 527.2644337136617 37.431 0.32695 38.061 37.939 38.266 0.62999 17 10 2 0 0 0 0.099775 2 17131 17131;17195 32.786 3.7041 1 441760 26575 1956 17179 17237 30131;30132 30131 -0.01031741661677188 RADQFEYVM 9 Unmodified _RADQFEYVM_ 0 0 0 nc|ENSG00000163882|P52434-4|POLR2H;nc|ENSG00000163882|P52434-3|POLR2H;ENSG00000163882|ENST00000456318|POLR2H;ENST00000476003.1_1_3:184084469-184086079:+|nuORF nc|ENSG00000163882|P52434-4|POLR2H nc|ENSG00000163882|P52434-4|POLR2H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.7685546875 2 579.766049 1157.51754 3.8083 0.0022079 0.18515 0.00010734 3.9934 0.0023153 579.7659379740152 51.318 0.18821 51.318 51.23 51.418 0 12 9 2 0 0 0 0.27615 1 23511 23511 18.373 9.0257 1 272550 26576 9720 17180 17238 30133 30133 -0.05491395159469903 RADQFEYVM 9 Unmodified _RADQFEYVM_ 0 0 0 nc|ENSG00000163882|P52434-4|POLR2H;nc|ENSG00000163882|P52434-3|POLR2H;ENSG00000163882|ENST00000456318|POLR2H;ENST00000476003.1_1_3:184084469-184086079:+|nuORF nc|ENSG00000163882|P52434-4|POLR2H nc|ENSG00000163882|P52434-4|POLR2H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 579.7686767578125 2 579.766049 1157.51754 3.2276 0.0018712 -0.62193 -0.00036058 2.6057 0.0015107 579.765474215191 51.334 0.099098 51.597 51.566 51.665 0.26227 5 3 2 0 0 0 0.27615 1 23484 23484 18.373 2.5259 1 394940 26577 9720 17180 17238 30134 30134 -0.05491395159469903 RAEKKKLRKTL 11 Unmodified _RAEKKKLRKTL_ 0 0 0 nc|ENSG00000031003|Q9NYF5-3|FAM13B;nc|ENSG00000031003|Q9NYF5-2|FAM13B;nc|ENSG00000031003|Q9NYF5|FAM13B;ENSG00000031003|ENST00000689681|FAM13B nc|ENSG00000031003|Q9NYF5-3|FAM13B nc|ENSG00000031003|Q9NYF5-3|FAM13B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.9518432617188 2 685.951353 1369.88815 NaN NaN NaN NaN NaN NaN NaN 79.249 1 79.91 79.41 80.41 0.66082 0 0 0 1.008 1 36516 36516 0.26902 0.26902 1 26578 494 17181 17239 30135 30135 0.21800358221912575 RAFKQGGEI 9 Unmodified _RAFKQGGEI_ 0 0 0 REV__ENSG00000115956|ENST00000234313|PLEK REV__ENSG00000115956|ENST00000234313|PLEK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 335.8551025390625 3 335.854053 1004.54033 2.3627 0.00079353 0.22079 7.4152E-05 2.5835 0.00086768 335.8540551678952 16.993 0.15109 16.993 16.88 17.031 0 19 14 2 0 0 0 0.98132 1 7537 7537 2.4985 0.84587 1 120840 + 26579 11388 17182 17240 30136 30136 0.03823992020340938 RAFKQGGEI 9 Unmodified _RAFKQGGEI_ 0 0 0 REV__ENSG00000115956|ENST00000234313|PLEK REV__ENSG00000115956|ENST00000234313|PLEK MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 335.854053 1004.54033 2.3627 0.00079353 0.22079 7.4152E-05 2.5835 0.00086768 335.8540551678952 16.993 0.15109 16.993 16.88 17.031 0 0 0 NaN 2.4985 19 14 2 NaN NaN NaN NaN 0 NaN NaN 0 120840 + 26580 11388 17182 17240 0.03823992020340938 RAFLELKLLY 10 Unmodified _RAFLELKLLY_ 0 0 0 ENST00000199764.6_1_19:42259386-42260556:+|nuORF ENST00000199764.6_1_19:42259386-42260556:+|nuORF ENST00000199764.6_1_19:42259386-42260556:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 317.1966857910156 4 317.195862 1264.75434 2.2317 0.00070788 1.0011 0.00031755 3.2328 0.0010254 317.1960998730227 45.984 0.84563 46.81 46.218 47.064 0.82621 141 43 4 0 0 0 0.93788 2 20776 20776;20830 0.56317 0.56317 1 9758700 26581 6387 17183 17241 30137;30138 30137 0.13255699396381715 RAFRALAER 9 Unmodified _RAFRALAER_ 0 0 0 REV__ENST00000530213.5_1_11:64809351-64812196:+|nuORF REV__ENST00000530213.5_1_11:64809351-64812196:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3184814453125 2 545.317432 1088.62031 3.4792 0.0018973 -0.81329 -0.0004435 2.6659 0.0014538 545.3169124440693 83.541 1.7312 83.788 83.088 84.819 0.24722 279 102 3 0 0 0 1.129 1 38235 38235 1.8442 1.8442 1 2574300 + 26582 13327 17184 17242 30139 30139 0.07954478414171717 RAGGLRRDKPP 11 Unmodified _RAGGLRRDKPP_ 0 0 0 ENST00000450525.6_1_17:38245772-38246027:+|nuORF ENST00000450525.6_1_17:38245772-38246027:+|nuORF ENST00000450525.6_1_17:38245772-38246027:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.8598022460938 2 611.859995 1221.70544 NaN NaN NaN NaN NaN NaN NaN 86.827 1 87.077 86.577 87.577 0.24974 0 0 0 1.0059 1 39968 39968 2.9952 0 1 26583 8007 17185 17243 30140 30140 0.10345223879971854 RAGHGFLLV 9 Unmodified _RAGHGFLLV_ 0 0 0 ENSG00000126458|ENST00000246792|RRAS ENSG00000126458|ENST00000246792|RRAS ENSG00000126458|ENST00000246792|RRAS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.28717041015625 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 55.145 1 55.41 54.91 55.91 0.26543 0 0 0 0.7971 1 25211 25211 9.3474 0 1 26584 2453 17186 17244 30141 30141 0.07004903608174118 RAGLSRPSV 9 Unmodified _RAGLSRPSV_ 0 0 0 Harlequin-int_dup21|chr1:46331236-46332068:-|3.510540639652003|0.0357277356843712|6.62|497.0|49|3|anti-sense Harlequin-int_dup21|chr1:46331236-46332068:-|3.510540639652003|0.0357277356843712|6.62|497.0|49|3|anti-sense Harlequin-int_dup21|chr1:46331236-46332068:-|3.510540639652003|0.0357277356843712|6.62|497.0|49|3|anti-sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 314.7129211425781 3 314.854164 941.540663 2.1049 0.00066273 0.21031 6.6217E-05 2.3152 0.00072895 314.85420450701633 17.936 0.25141 17.936 17.773 18.024 0 27 18 2 0 0 0 0.11316 1 7984 7984 2.2828 0 1 559200 26585 9376 17187 17245 30142 30142 0.06755411740186901 RAGLVLGFH 9 Unmodified _RAGLVLGFH_ 0 0 0 ENST00000467465.1_1_6:32976062-32977313:-|nuORF;ENSG00000204252|ENST00000229829|HLA-DOA ENST00000467465.1_1_6:32976062-32977313:-|nuORF ENST00000467465.1_1_6:32976062-32977313:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2852783203125 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 58.123 1 58.385 57.885 58.885 0.26227 0 0 0 0.89509 1 26611 26611 4.756 2.1785 1 26586 5993 17188 17246 30143 30143 0.07004903608185487 RAGRALTP 8 Unmodified _RAGRALTP_ 0 0 0 REV__CLCNKB|p.P342Hfs*109|1|0.34|ENSG00000184908|chr1:16050571-16050572|-/A|frameshift_variant REV__CLCNKB|p.P342Hfs*109|1|0.34|ENSG00000184908|chr1:16050571-16050572|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.2547302246094 2 421.253769 840.492984 2.8088 0.0011832 -0.23345 -9.8341E-05 2.5754 0.0010849 421.25371283123934 14.218 0.17368 14.218 14.14 14.314 0 33 14 3 0 0 0 0.21011 1 6248 6248 42.095 4.1206 1 6419400 + 26587 10063 17189 17247 30144 30144 0.06635757539982023 RAGRALTP 8 Unmodified _RAGRALTP_ 0 0 0 REV__CLCNKB|p.P342Hfs*109|1|0.34|ENSG00000184908|chr1:16050571-16050572|-/A|frameshift_variant REV__CLCNKB|p.P342Hfs*109|1|0.34|ENSG00000184908|chr1:16050571-16050572|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.25506591796875 2 421.253769 840.492984 NaN NaN NaN NaN NaN NaN NaN 13.972 1 14.28 13.78 14.78 0.30727 0 0 0 0.20533 1 6315 6315 42.095 4.1206 1 + 26588 10063 17189 17247 30145 30145 0.06635757539982023 RAGRALTP 8 Unmodified _RAGRALTP_ 0 0 0 REV__CLCNKB|p.P342Hfs*109|1|0.34|ENSG00000184908|chr1:16050571-16050572|-/A|frameshift_variant REV__CLCNKB|p.P342Hfs*109|1|0.34|ENSG00000184908|chr1:16050571-16050572|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.25482177734375 2 421.253769 840.492984 3.1734 0.0013368 -0.6533 -0.00027521 2.5201 0.0010616 421.2535351168981 13.108 0.29434 13.75 13.612 13.906 0.64272 51 18 3 0 0 0 0.21011 2 5871 5871;5912 42.095 4.1206 1 5338800 + 26589 10063 17189 17247 30146;30147 30146 0.06635757539982023 RAGRALTP 8 Unmodified _RAGRALTP_ 0 0 0 REV__CLCNKB|p.P342Hfs*109|1|0.34|ENSG00000184908|chr1:16050571-16050572|-/A|frameshift_variant REV__CLCNKB|p.P342Hfs*109|1|0.34|ENSG00000184908|chr1:16050571-16050572|-/A|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 421.253769 840.492984 2.8088 0.0011832 -0.23345 -9.8341E-05 2.5754 0.0010849 421.25371283123934 14.218 0.17368 14.218 14.14 14.314 0 0.25012 0.00017059 NaN 42.095 33 14 3 NaN NaN NaN NaN 0 NaN NaN 0 6419400 + 26590 10063 17189 17247 0.06635757539982023 RAGRALTP 8 Unmodified _RAGRALTP_ 0 0 0 REV__CLCNKB|p.P342Hfs*109|1|0.34|ENSG00000184908|chr1:16050571-16050572|-/A|frameshift_variant REV__CLCNKB|p.P342Hfs*109|1|0.34|ENSG00000184908|chr1:16050571-16050572|-/A|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 421.253769 840.492984 3.1734 0.0013368 -0.6533 -0.00027521 2.5201 0.0010616 421.2535351168981 13.108 0.29434 13.75 13.612 13.906 0.64272 -0.21709 -0.00018314 NaN 42.095 51 18 3 NaN NaN NaN NaN 0 NaN NaN 0 5338800 + 26591 10063 17189 17247 0.06635757539982023 RAHVLGFL 8 Unmodified _RAHVLGFL_ 0 0 0 nc|ENSG00000145555|Q9HD67-3|MYO10;MYO10|p.L1518Mfs*53|1|0.04|ENSG00000145555|chr5:16676145-16676146|-/AGACCAT|frameshift_variant;ENSG00000145555|ENST00000513610|MYO10 nc|ENSG00000145555|Q9HD67-3|MYO10 nc|ENSG00000145555|Q9HD67-3|MYO10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.7760925292969 2 456.774337 911.534121 2.9552 0.0013499 1.6438 0.00075084 4.599 0.0021007 456.7749754620316 87.024 0.1394 87.274 87.142 87.281 0.24974 10 6 2 0 0 0 0.7471 1 40050 40050 0.79363 0 1 580530 26592 3474 17190 17248 30148 30148 0.07481518579481872 RAIEKLKF 8 Unmodified _RAIEKLKF_ 0 0 0 REV__ENSG00000100888|ENST00000646647|CHD8 REV__ENSG00000100888|ENST00000646647|CHD8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.54736328125 3 335.54656 1003.61785 NaN NaN NaN NaN NaN NaN NaN 25.97 1 26.595 26.095 27.095 0.62505 0 0 0 0.99035 1 11907 11907 1.6526 0.45928 1 + 26593 10853 17191 17249 30149 30149 0.11618629956512905 RAKGRLTA 8 Unmodified _RAKGRLTA_ 0 0 0 REV__ENSG00000157303|ENST00000375472|SUSD3 REV__ENSG00000157303|ENST00000375472|SUSD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 436.7762756347656 2 436.774868 871.535184 3.2126 0.0014032 -0.18692 -8.1643E-05 3.0256 0.0013215 436.77479870886816 85.464 0.60432 86.13 85.839 86.443 0.66566 108 28 5 0 0 0 0.7471 1 39419 39419 0 0 1 61758000 + 26594 12798 17192 17250 30150 30150 0.09427732948347511 RAKGRQAA 8 Unmodified _RAKGRQAA_ 0 0 0 REV__nc|ENSG00000127483|Q5SSJ5-3|HP1BP3 REV__nc|ENSG00000127483|Q5SSJ5-3|HP1BP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 429.2579040527344 2 429.256843 856.499132 2.4249 0.0010409 -0.25893 -0.00011115 2.166 0.00092976 429.25670948219226 72.547 0.25431 73.211 73.06 73.314 0.66398 62 33 2 0 0 0 0.7441 1 33299 33299 2.3027 0 1 2533600 + 26595 11740 17193 17251 30151 30151 0.06514275771496614 RAKIFPEK 8 Unmodified _RAKIFPEK_ 0 0 0 REV__ENST00000554704.5_1_14:36176787-36221314:-|nuORF REV__ENST00000554704.5_1_14:36176787-36221314:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.2031555175781 3 330.202793 987.58655 NaN NaN NaN NaN NaN NaN NaN 19.863 1 20.155 19.655 20.655 0.29239 0 0 0 0.88872 1 9040 9040 13.042 0.16986 1 + 26596 13631 17194 17252 30152 30152 0.09226056922409498 RAKKKKKKK 9 Unmodified _RAKKKKKKK_ 0 0 0 ENSG00000183354|ENST00000399933|KIAA2026;KIAA2026|p.N1948Kfs*5|1|0.04|ENSG00000183354|chr9:5920152-5920153|-/AGTCTCCAGC|frameshift_variant ENSG00000183354|ENST00000399933|KIAA2026 ENSG00000183354|ENST00000399933|KIAA2026 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.7410888671875 3 381.611787 1141.81353 NaN NaN NaN NaN NaN NaN NaN 69.609 1 69.863 69.363 70.363 0.25443 0 0 0 0.91452 1 31876 31876 0 0 1 26597 5377 17195 17253 30153 30153 0.24829640201210168 RAKLLRTK 8 Unmodified _RAKLLRTK_ 0 0 0 REV__ENST00000469973.1_1_1:228328997-228329276:+|nuORF REV__ENST00000469973.1_1_1:228328997-228329276:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.3359069824219 2 493.335093 984.655633 NaN NaN NaN NaN NaN NaN NaN 103.81 1 104.13 103.63 104.63 0.31863 0 0 0 0.99035 1 47987 47987 0.6015 0 1 + 26598 16586 17196 17254 30154 30154 0.16269140941972182 RAKLRLKKKK 10 Unmodified _RAKLRLKKKK_ 0 0 0 AluSp_dup15995|chr5:178235991-178236344:-|2.46787698028414|0.1980803357196108|3.64|532.0|9|2|sense AluSp_dup15995|chr5:178235991-178236344:-|2.46787698028414|0.1980803357196108|3.64|532.0|9|2|sense AluSp_dup15995|chr5:178235991-178236344:-|2.46787698028414|0.1980803357196108|3.64|532.0|9|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 634.9525756835938 2 634.953698 1267.89284 NaN NaN NaN NaN NaN NaN NaN 13.487 1 14.13 13.63 14.63 0.64272 0 0 0 1.002 1 6059 6059 0 0 1 26599 38 17197 17255 30155 30155 0.2696128715533632 RAKRRVAQVL 10 Unmodified _RAKRRVAQVL_ 0 0 0 REV__ENSG00000075702|ENST00000401500|WDR62 REV__ENSG00000075702|ENST00000401500|WDR62 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 598.8862915039062 2 598.888555 1195.76256 NaN NaN NaN NaN NaN NaN NaN 35.411 1 36.037 35.537 36.537 0.62631 0 0 0 1.0015 1 16223 16223 0.40072 0 1 + 26600 10533 17198 17256 30156 30156 0.17250691156345965 RAKTKAEEKTM 11 Unmodified _RAKTKAEEKTM_ 0 0 0 REV__GPRASP1|p.T735Dfs*10|1|0.72|ENSG00000198932|chrX:102656112-102656113|-/G|frameshift_variant REV__GPRASP1|p.T735Dfs*10|1|0.72|ENSG00000198932|chrX:102656112-102656113|-/G|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 431.6952819824219 3 431.571216 1291.69182 NaN NaN NaN NaN NaN NaN NaN 68.298 1 69 68.5 69.5 0.70218 0 0 0 1.0073 1 32557 32557 1.2148 0.10508 1 + 26601 14384 17199 17257 30157 30157 0.0576418526584348 RAKTKYVKI 9 Unmodified _RAKTKYVKI_ 0 0 0 nc|ENSG00000122481|Q9Y3V2-3|RWDD3;nc|ENSG00000122481|Q9Y3V2-2|RWDD3;nc|ENSG00000122481|Q9Y3V2-4|RWDD3;ENST00000495272.5_1_1:95705425-95712423:+|nuORF;ENSG00000122481|ENST00000370202|RWDD3 nc|ENSG00000122481|Q9Y3V2-3|RWDD3 nc|ENSG00000122481|Q9Y3V2-3|RWDD3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 369.9863586425781 3 369.572998 1105.69716 2.8282 0.0010452 2.9398 0.0010865 5.768 0.0021317 369.9072489512322 48.591 0.42226 48.853 48.691 49.113 0.26209 24 18 2 0 0 0 0.11293 1 22256 22256 2.4985 0.84587 1 1245900 26602 2269 17200 17258 30158 30158 0.14854276910659792 RAKWRKKRMRR 11 Unmodified _RAKWRKKRMRR_ 0 0 0 ENSG00000229117|ENST00000546591|RPL41;ENST00000451383.1_1_2:67108241-67108316:-|nuORF ENSG00000229117|ENST00000546591|RPL41 ENSG00000229117|ENST00000546591|RPL41 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 786.4860229492188 2 786.486237 1570.95792 NaN NaN NaN NaN NaN NaN NaN 56.625 1 57.293 56.793 57.793 0.66829 0 0 0 1.0082 1 25905 25905 0 0 1 26603 6176 17201 17259 30159 30159 0.19527958409526036 RALFDPLLVVL 11 Unmodified _RALFDPLLVVL_ 0 0 0 ENSG00000148948|ENST00000528697|LRRC4C ENSG00000148948|ENST00000528697|LRRC4C ENSG00000148948|ENST00000528697|LRRC4C MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 314.7128601074219 4 314.699775 1254.76999 2.2265 0.00070069 1.2591 0.00039624 3.4856 0.0010969 314.7001490594421 36.503 0.60811 37.133 36.883 37.491 0.62999 39 23 2 0 0 0 0.13295 1 16614 16614 0.08335 0 1 154150 26604 3623 17202 17260 30160 30160 0.1527998591341202 RALGKNSELL 10 Unmodified _RALGKNSELL_ 0 0 0 nc|ENSG00000087269|P78316-2|NOP14;ENSG00000087269|ENST00000416614|NOP14 nc|ENSG00000087269|P78316-2|NOP14 nc|ENSG00000087269|P78316-2|NOP14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 367.55303955078125 3 367.552262 1099.63496 NaN NaN NaN NaN NaN NaN NaN 26.242 1 26.242 25.742 26.742 0 0 0 0 0.94673 1 11804 11804 8.4443 0.49891 1 26605 9569 17203 17261 30161 30161 0.0891250577167284 RALKVSLFIF 10 Unmodified _RALKVSLFIF_ 0 0 0 REV__ENSG00000088053|ENST00000310373|GP6 REV__ENSG00000088053|ENST00000310373|GP6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.5865783691406 3 398.585015 1192.73321 2.5541 0.001018 0.79469 0.00031675 3.3488 0.0013348 398.5853288186339 44.895 0.61343 45.716 45.349 45.963 0.82075 58 30 2 0 0 0 0.93503 1 20471 20471 1.9064 0 1 1692900 + 26606 10674 17204 17262 30162 30162 0.14455734087505334 RALRPKGK 8 Unmodified _RALRPKGK_ 0 0 0 REV__ENST00000572691.2_2_16:3184636-3184819:-|nuORF REV__ENST00000572691.2_2_16:3184636-3184819:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.3062438964844 2 463.306336 924.598118 NaN NaN NaN NaN NaN NaN NaN 76.051 1 76.051 75.551 76.551 0 0 0 0 0.99035 1 37270 37270 5.2307 0.47466 1 + 26607 17456 17205 17263 30163 30163 0.13280298736424356 RALRPKGK 8 Unmodified _RALRPKGK_ 0 0 0 REV__ENST00000572691.2_2_16:3184636-3184819:-|nuORF REV__ENST00000572691.2_2_16:3184636-3184819:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.4674987792969 2 463.306336 924.598118 NaN NaN NaN NaN NaN NaN NaN 73.242 1 73.941 73.441 74.441 0.69881 0 0 0 0.99035 1 35299 35299 5.2307 2.3415 1 + 26608 17456 17205 17263 30164 30164 0.13280298736424356 RALVYMLV 8 Unmodified _RALVYMLV_ 0 0 0 REV__nc|ENSG00000100599|Q8TB24-4|RIN3 REV__nc|ENSG00000100599|Q8TB24-4|RIN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 322.1946105957031 3 322.193129 963.557558 NaN NaN NaN NaN NaN NaN NaN 30.151 1 30.94 30.44 31.44 0.78921 0 0 0 0.99035 1 13611 13611 1.8442 0.19162 1 + 26609 10837 17206 17264 30165 30165 0.07432196301783733 RAMIAAGE 8 Unmodified _RAMIAAGE_ 0 0 0 ENST00000605386.1_1_12:90103555-90103792:+|nuORF ENST00000605386.1_1_12:90103555-90103792:+|nuORF ENST00000605386.1_1_12:90103555-90103792:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.7143859863281 2 409.713088 817.411622 NaN NaN NaN NaN NaN NaN NaN 15.403 1 16.057 15.557 16.557 0.65356 0 0 0 0.967 1 6937 6937 7.9102 3.1541 1 26610 9312 17207 17265 30166 30166 -0.004386862142609971 RAMRPGKRA 9 Unmodified _RAMRPGKRA_ 0 0 0 REV__ENST00000303714.8_1_2:69240472-69240565:+|nuORF REV__ENST00000303714.8_1_2:69240472-69240565:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 348.207275390625 3 348.206543 1041.5978 2.2624 0.0007878 0.86673 0.0003018 3.1292 0.0010896 348.20674773321616 41.793 0.60909 42.602 42.371 42.98 0.80855 116 48 3 0 0 0 1.0041 1 18881 18881 2.2828 1.3205 1 4500900 + 26611 15213 17208 17266 30167 30167 0.07866555744931247 RAMRPGKRA 9 Unmodified _RAMRPGKRA_ 0 0 0 REV__ENST00000303714.8_1_2:69240472-69240565:+|nuORF REV__ENST00000303714.8_1_2:69240472-69240565:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.5415344238281 3 348.206543 1041.5978 2.584 0.00089976 1.0408 0.00036242 3.6248 0.0012622 348.2068695846625 41.649 0.41554 42.293 41.902 42.317 0.64451 51 24 3 0 0 0 1.0041 1 18923 18923 2.2828 1.3205 1 7633700 + 26612 15213 17208 17266 30168 30168 0.07866555744931247 RAMRPGKRA 9 Unmodified _RAMRPGKRA_ 0 0 0 REV__ENST00000303714.8_1_2:69240472-69240565:+|nuORF REV__ENST00000303714.8_1_2:69240472-69240565:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 348.206543 1041.5978 2.4132 0.00084028 0.96179 0.0003349 3.3749 0.0011752 348.20683345196164 42.811 0.72351 42.811 42.39 43.114 0 0.0091932 7.9913E-05 NaN 2.2828 104 43 3 NaN NaN NaN NaN 0 NaN NaN 0 3969700 + 26613 15213 17208 17266 0.07866555744931247 RAMRPGKRA 9 Unmodified _RAMRPGKRA_ 0 0 0 REV__ENST00000303714.8_1_2:69240472-69240565:+|nuORF REV__ENST00000303714.8_1_2:69240472-69240565:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 348.206543 1041.5978 2.2624 0.0007878 0.86673 0.0003018 3.1292 0.0010896 348.20674773321616 41.793 0.60909 42.602 42.371 42.98 0.80855 -0.20025 -1.9393E-05 NaN 2.2828 116 48 3 NaN NaN NaN NaN 0 NaN NaN 0 4500900 + 26614 15213 17208 17266 0.07866555744931247 RAMRPGKRA 9 Unmodified _RAMRPGKRA_ 0 0 0 REV__ENST00000303714.8_1_2:69240472-69240565:+|nuORF REV__ENST00000303714.8_1_2:69240472-69240565:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 348.206543 1041.5978 2.6138 0.00091014 0.80649 0.00028083 3.4203 0.001191 348.2067500708214 42.723 0.62743 42.993 42.434 43.061 0.27021 0.19106 -8.2315E-05 NaN 2.2828 104 34 4 NaN NaN NaN NaN 0 NaN NaN 0 7208100 + 26615 15213 17208 17266 0.07866555744931247 RANESKTLL 9 Unmodified _RANESKTLL_ 0 0 0 REV__nc|ENSG00000126337|O76013-2|KRT36 REV__nc|ENSG00000126337|O76013-2|KRT36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 344.533447265625 3 344.532979 1030.57711 2.0476 0.00070547 0.31406 0.0001082 2.3617 0.00081368 344.5329623070654 13.215 0.24534 13.458 13.373 13.618 0.24346 27 17 2 0 0 0 0.41574 1 5760 5760 13.615 0 1 379590 + + 26616 10075 17209 17267 30169 30169 0.06304243846238933 RANESKTLL 9 Unmodified _RANESKTLL_ 0 0 0 REV__nc|ENSG00000126337|O76013-2|KRT36 REV__nc|ENSG00000126337|O76013-2|KRT36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.53387451171875 3 344.532979 1030.57711 1.9558 0.00067383 0.52095 0.00017948 2.4767 0.00085332 344.53311510870697 13.192 0.31667 13.499 13.32 13.637 0.30727 46 21 3 0 0 0 0.26277 1 5965 5965 18.373 0 1 1220500 + + 26617 10075 17209 17267 30170 30170 0.06304243846238933 RANIERWRKRY 11 Unmodified _RANIERWRKRY_ 0 0 0 REV__ENSG00000108592|ENST00000427159|FTSJ3 REV__ENSG00000108592|ENST00000427159|FTSJ3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 774.832275390625 2 774.436932 1546.85931 NaN NaN NaN NaN NaN NaN NaN 89.871 1 89.936 89.436 90.436 0.064346 0 0 0 1.0073 1 46158 46158 1.1933 0 1 + 26618 11151 17210 17268 30171 30171 0.10775633645471316 RANWRPAR 8 Unmodified _RANWRPAR_ 0 0 0 ENST00000418326.3_1_7:47853098-47859192:+|nuORF;nc|ENSG00000136275|Q9H7B7|PKD1L1-AS1 ENST00000418326.3_1_7:47853098-47859192:+|nuORF ENST00000418326.3_1_7:47853098-47859192:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 342.8638610839844 3 342.861653 1025.56313 NaN NaN NaN NaN NaN NaN NaN 40.671 1 40.671 40.171 41.171 0 0 0 0 0.99035 1 18464 18464 1.4819 0 1 26619 7730 17211 17269 30172 30172 0.05137055928435075 RANWRPAR 8 Unmodified _RANWRPAR_ 0 0 0 ENST00000418326.3_1_7:47853098-47859192:+|nuORF;nc|ENSG00000136275|Q9H7B7|PKD1L1-AS1 ENST00000418326.3_1_7:47853098-47859192:+|nuORF ENST00000418326.3_1_7:47853098-47859192:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.8635559082031 3 342.861653 1025.56313 NaN NaN NaN NaN NaN NaN NaN 40.232 1 41.033 40.533 41.533 0.80014 0 0 0 0.99035 1 18219 18219 1.4819 0.41044 1 26620 7730 17211 17269 30173 30173 0.05137055928435075 RAPKPYLPLP 10 Unmodified _RAPKPYLPLP_ 0 0 0 REV__ENST00000602101.6_1_19:15568751-15575169:-|nuORF REV__ENST00000602101.6_1_19:15568751-15575169:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 384.5705261230469 3 384.569365 1150.68626 2.9345 0.0011285 0.069749 2.6823E-05 3.0042 0.0011553 384.56983130255463 88.407 0.91258 89.085 88.603 89.516 0.67818 87 36 3 0 0 0 0.93584 1 40693 40693 1.7423 0.14999 1 2004400 + 26621 17642 17212 17270 30174 30174 0.11694874536351563 RAPPNRTI 8 Unmodified _RAPPNRTI_ 0 0 0 nc|ENSG00000168675|O15165-8|LDLRAD4;nc|ENSG00000168675|O15165-5|LDLRAD4;nc|ENSG00000168675|O15165-4|LDLRAD4;ENST00000435606.1_1_18:13621108-13645653:+|nuORF;nc|ENSG00000124225|Q969W9-3|PMEPA1;nc|ENSG00000168675|O15165-3|LDLRAD4;nc|ENSG00000168675|O15165-7|LDLRAD4;nc|ENSG00000124225|Q969W9-2|PMEPA1;nc|ENSG00000168675|O15165-6|LDLRAD4;ENSG00000124225|ENST00000341744|PMEPA1;nc|ENSG00000168675|O15165-2|LDLRAD4;ENSG00000168675|ENST00000359446|LDLRAD4 nc|ENSG00000168675|O15165-8|LDLRAD4 nc|ENSG00000168675|O15165-8|LDLRAD4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 308.8513488769531 3 308.850643 923.530098 2.0802 0.00064246 -0.22443 -6.9317E-05 1.8557 0.00057314 308.8504040551618 13.668 0.102 13.911 13.85 13.952 0.24346 14 9 2 0 0 0 0.63902 1 5975 5975 10.824 0.75 1 1061900 26622 2352 17213 17271 30175 30175 0.0652742908575874 RAPRRARARE 10 Unmodified _RAPRRARARE_ 0 0 0 REV__ENST00000292363.9_1_19:651790-663233:-|nuORF REV__ENST00000292363.9_1_19:651790-663233:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.8716430664062 2 619.868686 1237.72282 3.8293 0.0023737 1.1791 0.00073088 5.0084 0.0031046 619.8694594625646 90.557 0.98578 91.229 90.708 91.694 0.67271 117 49 3 0 0 0 0.93855 1 41640 41640 1.1933 0.12188 1 1600100 + 26623 15130 17214 17272 30176 30176 0.11346564205609866 RAPRRKARRKL 11 Unmodified _RAPRRKARRKL_ 0 0 0 ENST00000245816.8_1_19:6361467-6361542:+|nuORF ENST00000245816.8_1_19:6361467-6361542:+|nuORF ENST00000245816.8_1_19:6361467-6361542:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 704.465576171875 2 704.465827 1406.9171 NaN NaN NaN NaN NaN NaN NaN 86.221 1 86.469 85.969 86.969 0.24857 0 0 0 1.0082 1 39683 39683 0 0 1 26624 6486 17215 17273 30177 30177 0.22991940361566776 RAPSRRRGP 9 Unmodified _RAPSRRRGP_ 0 0 0 ENST00000338779.10_1_16:70714719-70719815:-|nuORF ENST00000338779.10_1_16:70714719-70719815:-|nuORF ENST00000338779.10_1_16:70714719-70719815:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.244384765625 3 351.544324 1051.61114 2.4915 0.00087588 0.06128 2.1543E-05 2.5528 0.00089743 351.54449792526015 27.162 0.12957 27.427 27.326 27.455 0.26489 11 8 2 0 0 0 0.11335 1 12321 12321 0.77653 0 1 278050 26625 7050 17216 17274 30178 30178 0.08740129848524703 RAQAAPAR 8 Unmodified _RAQAAPAR_ 0 0 0 REV__ENST00000428449.5_1_7:121945734-121946145:+|nuORF REV__ENST00000428449.5_1_7:121945734-121946145:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 420.744873046875 2 420.743568 839.472583 NaN NaN NaN NaN NaN NaN NaN 72.843 1 73.102 72.602 73.602 0.25876 0 0 0 0.99035 1 33444 33444 5.2307 0.90143 1 + 26626 16236 17217 17275 30179 30179 0.04642586880163435 RAQGWAPLKP 10 Unmodified _RAQGWAPLKP_ 0 0 0 ENST00000473373.1_1_20:34214165-34214426:-|nuORF;ENST00000401607.6_1_20:34214165-34218368:-|nuORF;ENST00000483495.5_1_20:34214165-34218616:-|nuORF;ENSG00000214078|ENST00000397443|CPNE1 ENST00000473373.1_1_20:34214165-34214426:-|nuORF ENST00000473373.1_1_20:34214165-34214426:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.8296508789062 2 562.322183 1122.62981 3.2921 0.0018512 0.49816 0.00028013 3.7903 0.0021314 562.3203933838633 44.719 0.56646 45.54 45.324 45.891 0.82074 80 27 4 0 0 0 0.72158 1 20310 20310 13.906 4.5586 1 2799800 26627 6108 17218 17276 30180 30180 0.07340246699686759 RAQPPMRSR 9 Unmodified _RAQPPMRSR_ 0 0 0 ENST00000594496.5_1_19:6414540-6414663:-|nuORF ENST00000594496.5_1_19:6414540-6414663:-|nuORF ENST00000594496.5_1_19:6414540-6414663:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.8030395507812 2 549.801091 1097.58763 3.5318 0.0019418 1.5869 0.00087247 5.1187 0.0028143 549.8019377758891 53.685 0.31975 53.95 53.868 54.188 0.26462 15 12 2 0 0 0 1.129 1 24618 24618 1.8442 0 1 386970 26628 9263 17219 17277 30181 30181 0.04273948019681484 RAQSILPFIK 10 Unmodified _RAQSILPFIK_ 0 0 0 REV__ENSG00000142632|ENST00000270747|ARHGEF19 REV__ENSG00000142632|ENST00000270747|ARHGEF19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.5771789550781 3 391.576519 1171.70773 2.81 0.0011003 -0.16493 -6.4584E-05 2.6451 0.0010357 391.5764161757788 34.474 0.62138 35.097 34.847 35.468 0.62294 89 36 4 0 0 0 0.20595 1 15917 15917 28.181 1.0929 1 5468300 + 26629 12339 17220 17278 30182 30182 0.12874259565069224 RARALAGQ 8 Unmodified _RARALAGQ_ 0 0 0 REV__nc|ENSG00000118515|O00141-3|SGK1 REV__nc|ENSG00000118515|O00141-3|SGK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.75299072265625 2 421.751393 841.488233 3.7226 0.00157 -0.32584 -0.00013742 3.3968 0.0014326 421.75118910610416 96.438 0.52415 96.715 96.439 96.963 0.27778 69 27 3 0 0 0 0.7471 1 44319 44319 0.69038 0 1 2252900 + 26630 17911 17221 17279 30183 30183 0.06114873397223164 RARARRRRRRR 11 Unmodified _RARARRRRRRR_ 0 0 0 ENST00000253008.2_1_9:133556683-133557598:+|nuORF ENST00000253008.2_1_9:133556683-133557598:+|nuORF ENST00000253008.2_1_9:133556683-133557598:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 783.5034790039062 2 783.504672 1564.99479 NaN NaN NaN NaN NaN NaN NaN 95.904 1 95.98 95.48 96.48 0.076538 0 0 0 1.0082 1 50824 50824 0 0 1 26631 6509 17222 17280 30184 30184 0.2348939107030219 RARGPPGTL 9 Unmodified _RARGPPGTL_ 0 0 0 REV__ENST00000262713.6_1_14:23451360-23451417:-|nuORF REV__ENST00000262713.6_1_14:23451360-23451417:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.85125732421875 3 308.850643 923.530098 2.2941 0.00070853 -0.81879 -0.00025288 1.4753 0.00045565 308.85053745361665 13.119 0.24112 13.761 13.646 13.887 0.64272 35 16 3 0 0 0 0.5141 1 5886 5886 12.241 1.4167 1 1874700 + 26632 14988 17223 17281 30185 30185 0.0652742908575874 RARGPPGTL 9 Unmodified _RARGPPGTL_ 0 0 0 REV__ENST00000262713.6_1_14:23451360-23451417:-|nuORF REV__ENST00000262713.6_1_14:23451360-23451417:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 308.850643 923.530098 1.9502 0.00060233 -0.20144 -6.2216E-05 1.7488 0.00054012 308.85065389142824 14.227 0.21978 14.227 14.094 14.314 0 0.26018 0.00030048 NaN 12.241 36 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1901800 + 26633 14988 17223 17281 0.0652742908575874 RARGPPGTL 9 Unmodified _RARGPPGTL_ 0 0 0 REV__ENST00000262713.6_1_14:23451360-23451417:-|nuORF REV__ENST00000262713.6_1_14:23451360-23451417:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 308.850643 923.530098 2.2941 0.00070853 -0.81879 -0.00025288 1.4753 0.00045565 308.85053745361665 13.119 0.24112 13.761 13.646 13.887 0.64272 -0.20497 -0.00027152 NaN 12.241 35 16 3 NaN NaN NaN NaN 0 NaN NaN 0 1874700 + 26634 14988 17223 17281 0.0652742908575874 RARHALAL 8 Unmodified _RARHALAL_ 0 0 0 REV__ENST00000526977.5_1_8:145651407-145651551:-|nuORF REV__ENST00000526977.5_1_8:145651407-145651551:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.1997375488281 3 303.190999 906.551168 NaN NaN NaN NaN NaN NaN NaN 44.039 1 44.688 44.188 45.188 0.64908 0 0 0 0.99035 1 20185 20185 0.45834 0 1 + 26635 17099 17224 17282 30186 30186 0.09415439185249852 RARLRLRKKK 10 Unmodified _RARLRLRKKK_ 0 0 0 AluSc8_dup17101|chr15:84897095-84897420:+|1.6705283761421823|0.076726924320401|4.44|523.0|4|1|sense AluSc8_dup17101|chr15:84897095-84897420:+|1.6705283761421823|0.076726924320401|4.44|523.0|4|1|sense AluSc8_dup17101|chr15:84897095-84897420:+|1.6705283761421823|0.076726924320401|4.44|523.0|4|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 662.9592895507812 2 662.959846 1323.90514 NaN NaN NaN NaN NaN NaN NaN 33.153 1 33.153 32.653 33.653 0 0 0 0 1.0015 1 15016 15016 0.40072 0 1 26636 34 17225 17283 30187 30187 0.25614323618378876 RARPVHSLL 9 Unmodified _RARPVHSLL_ 0 0 0 REV__ENST00000453096.6_1_11:18343889-18344213:+|nuORF REV__ENST00000453096.6_1_11:18343889-18344213:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.20758056640625 3 350.217325 1047.63015 NaN NaN NaN NaN NaN NaN NaN 51.497 1 52.315 51.815 52.815 0.81738 0 0 0 0.90335 1 23458 23458 2.7352 0.23671 1 + 26637 16423 17226 17284 30188 30188 0.1082366641956014 RARRPRRRDR 10 Unmodified _RARRPRRRDR_ 0 0 0 ENST00000530151.5_1_11:47586908-47587052:-|nuORF ENST00000530151.5_1_11:47586908-47587052:-|nuORF ENST00000530151.5_1_11:47586908-47587052:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.6210632324219 3 465.618997 1393.83516 NaN NaN NaN NaN NaN NaN NaN 52.675 1 53.337 52.837 53.837 0.66198 0 0 0 1.0011 1 24084 24084 0.77653 0.27058 1 26638 8708 17227 17285 30189 30189 0.15399838002485922 RARRVKANARE 11 Unmodified _RARRVKANARE_ 0 0 0 ENSG00000123307|ENST00000242994|NEUROD4 ENSG00000123307|ENST00000242994|NEUROD4 ENSG00000123307|ENST00000242994|NEUROD4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.8983154296875 2 663.8949 1325.77525 4.1405 0.0027489 0.53731 0.00035671 4.6778 0.0031056 663.8952908456082 93.364 0.79803 93.995 93.698 94.496 0.63115 106 38 4 0 0 0 0.91359 1 42905 42905 1.1933 1.1933 1 2955600 26639 2304 17228 17286 30190 30190 0.12539102548566916 RARYLFLVG 9 Unmodified _RARYLFLVG_ 0 0 0 REV__ENST00000472013.1_1_1:42922230-42922863:+|nuORF REV__ENST00000472013.1_1_1:42922230-42922863:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.82666015625 2 547.827101 1093.63965 NaN NaN NaN NaN NaN NaN NaN 92.361 1 92.361 91.861 92.861 0 0 0 0 0.89683 1 49057 49057 4.3292 0 1 + 26640 11732 17229 17287 30191 30191 0.09657434705059131 RATVPVRN 8 Unmodified _RATVPVRN_ 0 0 0 REV__ENST00000370902.7_1_10:99202997-99205519:-|nuORF REV__ENST00000370902.7_1_10:99202997-99205519:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.7737731933594 2 456.772326 911.530098 2.7726 0.0012664 0.93495 0.00042706 3.7075 0.0016935 456.7725016773706 84.163 0.39468 84.411 84.209 84.604 0.24758 55 21 4 0 0 0 0.71384 1 38789 38789 4.756 0 1 2441500 + 26641 15732 17230 17288 30192 30192 0.07079429085752054 RAVCAVVPTL 10 Unmodified _RAVCAVVPTL_ 0 0 0 ENST00000597724.6_1_19:18529691-18529790:+|nuORF ENST00000597724.6_1_19:18529691-18529790:+|nuORF ENST00000597724.6_1_19:18529691-18529790:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 343.53582763671875 3 343.535555 1027.58484 2.1422 0.00073591 -0.55713 -0.00019139 1.585 0.00054451 343.53501731888537 34.303 0.52241 35.092 34.73 35.252 0.78921 72 30 3 0 0 0 0.93713 1 15514 15514 0.62683 0.063655 1 1409400 26642 9288 17231 17289 30193 30193 0.07214679842149962 RAVIARLSPL 10 Unmodified _RAVIARLSPL_ 0 0 0 REV__nc|ENSG00000177731|Q13045-2|FLII REV__nc|ENSG00000177731|Q13045-2|FLII MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 365.9067077636719 3 365.904747 1094.69241 NaN NaN NaN NaN NaN NaN NaN 75.299 1 75.962 75.462 76.462 0.6635 0 0 0 0.99864 1 36455 36455 2.8433 0 1 + 26643 13742 17232 17290 30194 30194 0.14885392767905614 RAVKKKLRKK 10 Unmodified _RAVKKKLRKK_ 0 0 0 REV__ENST00000489152.5_1_2:74717680-74718064:+|nuORF REV__ENST00000489152.5_1_2:74717680-74718064:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 627.9890747070312 2 627.945873 1253.87719 NaN NaN NaN NaN NaN NaN NaN 65.313 1 66.022 65.522 66.522 0.70891 0 0 0 1.0003 1 30879 30879 1.4819 0 1 + 26644 16403 17233 17291 30195 30195 0.26041000638292644 RAWKRCLKKK 10 Unmodified _RAWKRCLKKK_ 0 0 0 ENST00000282382.8_2_5:114916706-114916865:-|nuORF ENST00000282382.8_2_5:114916706-114916865:-|nuORF ENST00000282382.8_2_5:114916706-114916865:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 439.6092529296875 3 439.608048 1315.80231 3.7112 0.0016315 -0.10666 -4.6887E-05 3.6045 0.0015846 439.6078244336274 104.65 0.2351 104.96 104.88 105.11 0.31863 60 48 2 0 0 0 0.12676 1 48334 48334 0 0 1 699460 26645 6700 17234 17292 30196 30196 0.1570449483538141 RAWMIQCWWRT 11 Unmodified _RAWMIQCWWRT_ 0 0 0 ENSG00000229972|ENST00000440739|IQCF3 ENSG00000229972|ENST00000440739|IQCF3 ENSG00000229972|ENST00000440739|IQCF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.9166870117188 3 512.916553 1535.72783 NaN NaN NaN NaN NaN NaN NaN 97.963 1 98.034 97.534 98.534 0.070648 0 0 0 1.0072 1 52529 52529 0.45452 0 1 26646 6178 17235 17293 30197 30197 -0.018606360382591447 RCAAARGS 8 Unmodified _RCAAARGS_ 0 0 0 ENSG00000197046|ENST00000389474|SIGLEC15 ENSG00000197046|ENST00000389474|SIGLEC15 ENSG00000197046|ENST00000389474|SIGLEC15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 396.2033386230469 2 396.200679 790.386805 NaN NaN NaN NaN NaN NaN NaN 60.14 1 60.396 59.896 60.896 0.25578 0 0 0 0.99035 1 27539 27539 4.756 1.8668 1 26647 5793 17236 17294 30198 30198 -0.0167732129699516 RCCCCCCCSD 10 Unmodified _RCCCCCCCSD_ 0 0 0 ENST00000531526.5_1_11:45944386-45945084:+|nuORF ENST00000531526.5_1_11:45944386-45945084:+|nuORF ENST00000531526.5_1_11:45944386-45945084:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.4337158203125 2 549.624746 1097.23494 NaN NaN NaN NaN NaN NaN NaN 64.304 1 64.304 63.804 64.804 0 0 0 0 1.002 1 30436 30436 0 0 1 26648 8728 17237 17295 30199 30199 -0.3097895708103806 RCCGCNCC 8 Unmodified _RCCGCNCC_ 0 0 0 ENSG00000183067|ENST00000380588|IGSF5 ENSG00000183067|ENST00000380588|IGSF5 ENSG00000183067|ENST00000380588|IGSF5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 860.917724609375 1 861.229266 860.221989 3.3063 0.0028475 -2.6166 -0.0022534 0.68973 0.00059401 861.2264216602504 89.607 0.040504 89.607 89.591 89.631 0 7 5 2 0 0 0 0.14333 1 46847 46847 0.79363 0 1 12563000 26649 5361 17238 17296 30200 30200 -0.21371284086615105 RCFTYYQEF 9 Unmodified _RCFTYYQEF_ 0 0 0 REV__ENST00000436788.2_1_6:119243146-119245209:-|nuORF REV__ENST00000436788.2_1_6:119243146-119245209:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 628.7728271484375 2 628.773874 1255.53319 NaN NaN NaN NaN NaN NaN NaN 79.059 1 79.31 78.81 79.81 0.25127 0 0 0 0.90611 1 36407 36407 2.0598 0.21551 1 + 26650 11253 17239 17297 30201 30201 -0.08435108642424893 RCGIRLPL 8 Unmodified _RCGIRLPL_ 0 0 0 nc|ENSG00000227345|Q86W56-5|PARG;nc|ENSG00000227345|Q86W56-4|PARG;nc|ENSG00000227345|Q86W56-3|PARG;nc|ENSG00000227345|Q86W56-2|PARG;ENSG00000227345|ENST00000616448|PARG nc|ENSG00000227345|Q86W56-5|PARG nc|ENSG00000227345|Q86W56-5|PARG MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.28240966796875 2 464.281472 926.548391 NaN NaN NaN NaN NaN NaN NaN 57.248 1 57.917 57.417 58.417 0.66829 0 0 0 0.99035 1 26196 26196 0.69038 0 1 26651 6171 17240 17298 30202 30202 0.08217847736113981 RCHIRFTFRHR 11 Unmodified _RCHIRFTFRHR_ 0 0 0 ENSG00000147459|ENST00000276440|DOCK5 ENSG00000147459|ENST00000276440|DOCK5 ENSG00000147459|ENST00000276440|DOCK5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 764.9124755859375 2 764.91257 1527.81059 NaN NaN NaN NaN NaN NaN NaN 12.069 1 12.707 12.207 13.207 0.63746 0 0 0 1.0082 1 5390 5390 0 0 1 26652 3566 17241 17299 30203 30203 0.06779441804724229 RCIMRQSL 8 Unmodified _RCIMRQSL_ 0 0 0 REV__ENST00000560173.1_1_19:11221401-11224126:+|nuORF REV__ENST00000560173.1_1_19:11221401-11224126:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.7687683105469 2 503.767871 1005.52119 NaN NaN NaN NaN NaN NaN NaN 52.485 1 53.147 52.647 53.647 0.66198 0 0 0 0.95658 1 23996 23996 8.5933 0 1 + 26653 17362 17242 17300 30204 30204 0.018649961334176623 RCKRQRPV 8 Unmodified _RCKRQRPV_ 0 0 0 REV__nc|ENSG00000229214|Q5T6M2|LINC00242 REV__nc|ENSG00000229214|Q5T6M2|LINC00242 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.207763671875 3 348.206543 1041.5978 2.5709 0.00089521 0.59312 0.00020653 3.164 0.0011017 348.2066862102261 42.73 1.1014 43.377 42.948 44.049 0.64693 178 76 3 0 0 0 0.7441 1 19469 19469 1.4819 1.4819 1 6263400 + 26654 18141 17243 17301 30205 30205 0.0786655574490851 RCLRFLFV 8 Unmodified _RCLRFLFV_ 0 0 0 ENST00000326397.9_1_4:184580101-184580179:-|nuORF ENST00000326397.9_1_4:184580101-184580179:-|nuORF ENST00000326397.9_1_4:184580101-184580179:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.3065795898438 2 527.304947 1052.59534 4.0284 0.0021242 -0.22775 -0.00012009 3.8006 0.0020041 527.3045757359506 95.695 0.43085 95.962 95.748 96.179 0.2675 64 23 3 0 0 0 0.74071 1 44006 44006 2.5775 0.73324 1 2768600 26655 6956 17244 17302 30206 30206 0.07114707287246347 RCLRFLFV 8 Unmodified _RCLRFLFV_ 0 0 0 ENST00000326397.9_1_4:184580101-184580179:-|nuORF ENST00000326397.9_1_4:184580101-184580179:-|nuORF ENST00000326397.9_1_4:184580101-184580179:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 527.304947 1052.59534 2.067 0.0010899 0.2111 0.00011131 2.2781 0.0012012 527.3042418104287 95.747 0.024261 95.829 95.815 95.839 0.082001 -0.034515 0.0004354 NaN 2.5775 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 2707800 26656 6956 17244 17302 0.07114707287246347 RCLRFLFV 8 Unmodified _RCLRFLFV_ 0 0 0 ENST00000326397.9_1_4:184580101-184580179:-|nuORF ENST00000326397.9_1_4:184580101-184580179:-|nuORF ENST00000326397.9_1_4:184580101-184580179:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 527.304947 1052.59534 4.0284 0.0021242 -0.22775 -0.00012009 3.8006 0.0020041 527.3045757359506 95.695 0.43085 95.962 95.748 96.179 0.2675 0.09887 -2.7404E-05 NaN 2.5775 64 23 3 NaN NaN NaN NaN 0 NaN NaN 0 2768600 26657 6956 17244 17302 0.07114707287246347 RCLRFLFV 8 Unmodified _RCLRFLFV_ 0 0 0 ENST00000326397.9_1_4:184580101-184580179:-|nuORF ENST00000326397.9_1_4:184580101-184580179:-|nuORF ENST00000326397.9_1_4:184580101-184580179:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 527.304947 1052.59534 3.4891 0.0018398 -0.15887 -8.3775E-05 3.3303 0.0017561 527.3046399844162 95.181 0.45387 95.799 95.514 95.968 0.61737 -0.064355 4.5229E-05 NaN 2.5775 63 22 4 NaN NaN NaN NaN 0 NaN NaN 0 3530700 26658 6956 17244 17302 0.07114707287246347 RCLRPALV 8 Unmodified _RCLRPALV_ 0 0 0 REV__ENST00000596232.1_1_19:36036641-36037015:+|nuORF REV__ENST00000596232.1_1_19:36036641-36037015:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.2816162109375 2 464.281472 926.548391 2.7533 0.0012783 -1.3298 -0.00061741 1.4235 0.00066088 464.28085039846644 54.784 0.20415 55.451 55.354 55.558 0.6665 19 12 2 0 0 0 0.71911 1 25105 25105 0.79363 0 1 1282400 + 26659 17611 17245 17303 30207 30207 0.08217847736102613 RCLRPALV 8 Unmodified _RCLRPALV_ 0 0 0 REV__ENST00000596232.1_1_19:36036641-36037015:+|nuORF REV__ENST00000596232.1_1_19:36036641-36037015:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 464.281472 926.548391 2.6286 0.0012204 -2.021 -0.0009383 0.60768 0.00028213 464.280467225501 55.691 0.29215 55.691 55.54 55.833 0 0.12741 -0.00016472 NaN 0.79363 39 22 2 NaN NaN NaN NaN 0 NaN NaN 0 4031300 + 26660 17611 17245 17303 0.08217847736102613 RCLRPALV 8 Unmodified _RCLRPALV_ 0 0 0 REV__ENST00000596232.1_1_19:36036641-36037015:+|nuORF REV__ENST00000596232.1_1_19:36036641-36037015:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 464.281472 926.548391 2.373 0.0011017 -2.1102 -0.00097973 0.26278 0.00012201 464.28043208983365 54.762 0.30993 55.557 55.44 55.75 0.79552 -0.0068025 -0.00024759 NaN 0.79363 29 18 2 NaN NaN NaN NaN 0 NaN NaN 0 1572300 + 26661 17611 17245 17303 0.08217847736102613 RCLRRLLHL 9 Unmodified _RCLRRLLHL_ 0 0 0 ENST00000303545.3_1_8:125487129-125487267:+|nuORF ENST00000303545.3_1_8:125487129-125487267:+|nuORF ENST00000303545.3_1_8:125487129-125487267:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.21630859375 3 393.91336 1178.71825 2.6596 0.0010476 0.87062 0.00034295 3.5302 0.0013906 393.9133350556833 39.35 0.2927 39.35 39.23 39.522 0 17 10 2 0 0 0 0.11402 1 17826 17826 0.96228 0.0979 1 605930 26662 6822 17246 17304 30208 30208 0.13603963738523817 RCLRSLPL 8 Unmodified _RCLRSLPL_ 0 0 0 REV__ENST00000339382.3_2_8:30890609-30891086:-|nuORF REV__ENST00000339382.3_2_8:30890609-30891086:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.287109375 2 479.286754 956.558955 NaN NaN NaN NaN NaN NaN NaN 48.551 1 48.813 48.313 49.313 0.26209 0 0 0 0.99035 1 22195 22195 4.3292 0 1 + 26663 15444 17247 17305 30209 30209 0.07893830390526091 RCLVAAAPRA 10 Unmodified _RCLVAAAPRA_ 0 0 0 REV__ENST00000582590.1_1_17:26731487-26733159:-|nuORF REV__ENST00000582590.1_1_17:26731487-26733159:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 342.8639221191406 3 343.199166 1026.57567 NaN NaN NaN NaN NaN NaN NaN 40.218 1 40.86 40.36 41.36 0.64136 0 0 0 0.99837 1 18377 18377 3.0723 0 1 + 26664 10541 17248 17306 30210 30210 0.06344331276454795 RCNEEQLL 8 Unmodified _RCNEEQLL_ 0 0 0 REV__ENSG00000177409|ENST00000318238|SAMD9L REV__ENSG00000177409|ENST00000318238|SAMD9L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.747314453125 2 502.745116 1003.47568 NaN NaN NaN NaN NaN NaN NaN 54.241 1 54.241 53.741 54.741 0 0 0 0 0.95658 1 24877 24877 8.5933 0 1 + 26665 13736 17249 17307 30211 30211 -0.025919508479773867 RCNRVSRIF 9 Unmodified _RCNRVSRIF_ 0 0 0 ENST00000486442.5_1_2:23929559-23929871:+|nuORF ENST00000486442.5_1_2:23929559-23929871:+|nuORF ENST00000486442.5_1_2:23929559-23929871:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 384.2157287597656 3 384.213586 1149.61893 2.7169 0.0010439 -0.25306 -9.7229E-05 2.4638 0.00094662 384.2133784359122 56.516 0.2895 56.516 56.368 56.658 0 40 22 2 0 0 0 0.55815 1 25979 25979 11.495 11.495 1 2763500 26666 8336 17250 17308 30212 30212 0.05010521053759476 RCNRVSRIF 9 Unmodified _RCNRVSRIF_ 0 0 0 ENST00000486442.5_1_2:23929559-23929871:+|nuORF ENST00000486442.5_1_2:23929559-23929871:+|nuORF ENST00000486442.5_1_2:23929559-23929871:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 384.2136535644531 3 384.213586 1149.61893 2.1764 0.00083619 -0.60013 -0.00023058 1.5762 0.00060561 384.21325707729676 55.486 0.3238 56.274 56.152 56.476 0.78711 47 27 2 0 0 0 0.33646 2 25313 25313;25376 15.248 4.449 1 3182300 26667 8336 17250 17308 30213;30214 30213 0.05010521053759476 RCNRVSRIF 9 Unmodified _RCNRVSRIF_ 0 0 0 ENST00000486442.5_1_2:23929559-23929871:+|nuORF ENST00000486442.5_1_2:23929559-23929871:+|nuORF ENST00000486442.5_1_2:23929559-23929871:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 384.213586 1149.61893 2.7855 0.0010702 -0.60267 -0.00023155 2.1828 0.00083866 384.21342513962924 56.395 0.27119 56.66 56.515 56.786 0.26543 0.21957 -8.253E-05 NaN 15.248 29 17 2 NaN NaN NaN NaN 0 NaN NaN 0 1489100 26668 8336 17250 17308 0.05010521053759476 RCNRVSRIF 9 Unmodified _RCNRVSRIF_ 0 0 0 ENST00000486442.5_1_2:23929559-23929871:+|nuORF ENST00000486442.5_1_2:23929559-23929871:+|nuORF ENST00000486442.5_1_2:23929559-23929871:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 384.213586 1149.61893 2.7962 0.0010743 -0.74767 -0.00028727 2.0485 0.00078705 384.21336575282794 55.645 0.2698 56.313 56.209 56.478 0.66798 -0.12769 -0.00024967 NaN 15.248 15 9 2 NaN NaN NaN NaN 0 NaN NaN 0 1308300 26669 8336 17250 17308 0.05010521053759476 RCPALKVLRR 10 Unmodified _RCPALKVLRR_ 0 0 0 REV__nc|ENSG00000070601|Q5SYB0-2|FRMPD1 REV__nc|ENSG00000070601|Q5SYB0-2|FRMPD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.5903625488281 3 404.588765 1210.74446 3.2115 0.0012993 0.26871 0.00010872 3.4802 0.0014081 404.5887679947137 32.592 0.55131 32.847 32.593 33.145 0.25452 62 27 3 0 0 0 0.93503 1 14891 14891 1.9064 0.69154 1 2022100 + 26670 10478 17251 17309 30215 30215 0.14752232909995655 RCRGRQPE 8 Unmodified _RCRGRQPE_ 0 0 0 REV__ENST00000337537.7_1_14:64009712-64009985:-|nuORF REV__ENST00000337537.7_1_14:64009712-64009985:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.2581481933594 2 501.256517 1000.49848 2.9936 0.0015005 0.93048 0.00046641 3.9241 0.001967 501.25685936918575 77.064 0.74009 77.727 77.333 78.073 0.66303 133 61 3 0 0 0 0.71384 1 35568 35568 4.756 4.756 1 2525400 + 26671 15429 17252 17310 30216 30216 -0.0017488693985114878 RCRKRRRKRQ 10 Unmodified _RCRKRRRKRQ_ 0 0 0 REV__ENST00000319296.9_1_16:30419378-30419444:+|nuORF REV__ENST00000319296.9_1_16:30419378-30419444:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 722.0533447265625 2 721.944736 1441.87492 NaN NaN NaN NaN NaN NaN NaN 79.293 1 79.293 78.793 79.793 0 0 0 0 1.0015 1 39157 39157 0.40072 0 1 + 26672 15307 17253 17311 30217 30217 0.1716564168154946 RCRLSLVLRPP 11 Unmodified _RCRLSLVLRPP_ 0 0 0 ENSG00000205502|ENST00000380392|C2CD4B ENSG00000205502|ENST00000380392|C2CD4B ENSG00000205502|ENST00000380392|C2CD4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.269287109375 3 437.267691 1308.78124 2.6598 0.001163 0.93096 0.00040708 3.5907 0.0015701 437.2679434567211 46.836 0.56602 47.665 47.468 48.034 0.82915 83 30 4 0 0 0 0.91168 2 21349 21349;21402 1.0136 1.0136 1 1620600 26673 6051 17254 17312 30218;30219 30218 0.13920484735899663 RCRLSLVLRPP 11 Unmodified _RCRLSLVLRPP_ 0 0 0 ENSG00000205502|ENST00000380392|C2CD4B ENSG00000205502|ENST00000380392|C2CD4B ENSG00000205502|ENST00000380392|C2CD4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2687072753906 3 437.267691 1308.78124 3.0815 0.0013474 0.27879 0.00012191 3.3603 0.0014693 437.2676183525103 48.014 0.41092 48.276 48.017 48.428 0.26209 29 16 2 0 0 0 0.87371 1 21964 21964 3.5927 1.1579 1 3077200 26674 6051 17254 17312 30220 30220 0.13920484735899663 RCRLSLVLRPP 11 Unmodified _RCRLSLVLRPP_ 0 0 0 ENSG00000205502|ENST00000380392|C2CD4B ENSG00000205502|ENST00000380392|C2CD4B ENSG00000205502|ENST00000380392|C2CD4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1309.7989501953125 1 1309.78852 1308.78124 3.2929 0.004313 1.348 0.0017657 4.641 0.0060787 1309.7896669941863 48.938 0.2743 49.2 49.088 49.362 0.26209 12 9 2 0 0 0 0.87371 1 22364 22364 7.1017 2.2047 1 435980 26675 6051 17254 17312 30221 30221 0.13920484735899663 RCRLSLVLRPP 11 Unmodified _RCRLSLVLRPP_ 0 0 0 ENSG00000205502|ENST00000380392|C2CD4B ENSG00000205502|ENST00000380392|C2CD4B ENSG00000205502|ENST00000380392|C2CD4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2689514160156 3 437.267691 1308.78124 2.9858 0.0013056 0.63608 0.00027814 3.6218 0.0015837 437.2678601822451 48.913 1.0703 49.175 48.816 49.886 0.26209 142 40 4 0 0 0 0.86798 1 22425 22425 3.8459 1.4111 1 8824200 26676 6051 17254 17312 30222 30222 0.13920484735899663 RCRLSLVLRPP 11 Unmodified _RCRLSLVLRPP_ 0 0 0 ENSG00000205502|ENST00000380392|C2CD4B ENSG00000205502|ENST00000380392|C2CD4B ENSG00000205502|ENST00000380392|C2CD4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.4003295898438 2 655.397899 1308.78124 3.624 0.0023751 0.68138 0.00044657 4.3053 0.0028217 655.899770546546 51.452 0.48704 51.714 51.548 52.035 0.26227 37 26 2 0 0 0 0.90781 1 23507 23507 4.5289 2.8762 1 1022500 26677 6051 17254 17312 30223 30223 0.13920484735899663 RCRLSLVLRPP 11 Unmodified _RCRLSLVLRPP_ 0 0 0 ENSG00000205502|ENST00000380392|C2CD4B ENSG00000205502|ENST00000380392|C2CD4B ENSG00000205502|ENST00000380392|C2CD4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2691345214844 3 437.267691 1308.78124 2.7461 0.0012008 0.80721 0.00035297 3.5534 0.0015538 437.26792183811347 51.421 0.92847 51.683 51.333 52.262 0.26227 149 58 3 0 0 0 0.91137 1 23643 23643 1.1098 0 1 6013800 26678 6051 17254 17312 30224 30224 0.13920484735899663 RCRLSLVLRPP 11 Unmodified _RCRLSLVLRPP_ 0 0 0 ENSG00000205502|ENST00000380392|C2CD4B ENSG00000205502|ENST00000380392|C2CD4B ENSG00000205502|ENST00000380392|C2CD4B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 655.397899 1308.78124 3.779 0.0024767 2.7636 0.0018112 6.5426 0.004288 655.4008557120779 51.62 0.062721 51.62 51.598 51.66 0 -0.047264 0.0025897 NaN 4.5289 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 335960 26679 6051 17254 17312 0.13920484735899663 RCRLSLVLRPP 11 Unmodified _RCRLSLVLRPP_ 0 0 0 ENSG00000205502|ENST00000380392|C2CD4B ENSG00000205502|ENST00000380392|C2CD4B ENSG00000205502|ENST00000380392|C2CD4B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 437.267691 1308.78124 3.0479 0.0013327 0.60961 0.00026656 3.6575 0.0015993 437.2677265174413 47.342 0.44079 47.996 47.732 48.172 0.65356 -0.14004 0.00021347 NaN 3.5927 47 20 3 NaN NaN NaN NaN 0 NaN NaN 0 1578900 26680 6051 17254 17312 0.13920484735899663 RCRRLVIYIKI 11 Unmodified _RCRRLVIYIKI_ 0 0 0 REV__DRD2|p.R219C|1|0.05|ENSG00000149295|chr11:113415489-113415489|G/A|missense_variant REV__DRD2|p.R219C|1|0.05|ENSG00000149295|chr11:113415489-113415489|G/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 358.97991943359375 4 358.978787 1431.88604 2.5887 0.00092928 0.62842 0.00022559 3.2171 0.0011549 358.97904692959975 52.363 0.16624 52.627 52.589 52.756 0.26345 10 6 2 0 0 0 0.91359 1 23948 23948 0.40827 0.31342 1 2577400 + 26681 10138 17255 17313 30225 30225 0.18737606212471292 RCRRRRRRRRL 11 Unmodified _RCRRRRRRRRL_ 0 0 0 ENST00000550735.6_1_12:112280040-112280175:+|nuORF ENST00000550735.6_1_12:112280040-112280175:+|nuORF ENST00000550735.6_1_12:112280040-112280175:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 820.5120239257812 2 820.514183 1639.01381 NaN NaN NaN NaN NaN NaN NaN 93.174 1 93.174 92.674 93.674 0 0 0 0 1.0082 1 49707 49707 0.30703 0.30703 1 26682 8873 17256 17314 30226 30226 0.21986604369726592 RCRRRRRRRRL 11 Unmodified _RCRRRRRRRRL_ 0 0 0 ENST00000550735.6_1_12:112280040-112280175:+|nuORF ENST00000550735.6_1_12:112280040-112280175:+|nuORF ENST00000550735.6_1_12:112280040-112280175:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 820.5116577148438 2 820.514183 1639.01381 NaN NaN NaN NaN NaN NaN NaN 63.21 1 63.932 63.432 64.432 0.72236 0 0 0 1.0082 1 29586 29586 0 0 1 26683 8873 17256 17314 30227 30227 0.21986604369726592 RCSGGGRV 8 Unmodified _RCSGGGRV_ 0 0 0 ENST00000361927.8_1_1:184006627-184006753:-|nuORF ENST00000361927.8_1_1:184006627-184006753:-|nuORF ENST00000361927.8_1_1:184006627-184006753:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 396.2025146484375 2 396.200679 790.386805 NaN NaN NaN NaN NaN NaN NaN 59.594 1 60.259 59.759 60.759 0.66503 0 0 0 0.99035 1 27280 27280 2.3027 0 1 26684 7230 17257 17315 30228 30228 -0.016773212969837914 RCSHPLRR 8 Unmodified _RCSHPLRR_ 0 0 0 ENST00000264036.5_1_11:119180042-119180144:-|nuORF ENST00000264036.5_1_11:119180042-119180144:-|nuORF ENST00000264036.5_1_11:119180042-119180144:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 342.6807861328125 3 342.190893 1023.55085 2.3407 0.00080096 -0.28674 -9.8118E-05 2.054 0.00070284 342.52497130490104 67.459 0.18917 68.116 68.015 68.204 0.65778 13 11 2 0 0 0 0.14244 1 30878 30878 3.5965 0 1 206820 26685 6598 17258 17316 30229 30229 0.04001696193768112 RCVGLSLITL 10 Unmodified _RCVGLSLITL_ 0 0 0 ENSG00000142484|ENST00000270560|TM4SF5 ENSG00000142484|ENST00000270560|TM4SF5 ENSG00000142484|ENST00000270560|TM4SF5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.22637939453125 3 358.882843 1073.6267 2.5764 0.00092462 -2.7165 -0.0009749 -0.14012 -5.0286E-05 358.8827146849705 36.317 0.29788 36.574 36.422 36.719 0.25768 17 11 2 0 0 0 0.76575 1 16576 16576 5.7834 0.48655 1 183850 26686 3311 17259 17317 30230 30230 0.09283235530688216 RCVGLSLITL 10 Unmodified _RCVGLSLITL_ 0 0 0 ENSG00000142484|ENST00000270560|TM4SF5 ENSG00000142484|ENST00000270560|TM4SF5 ENSG00000142484|ENST00000270560|TM4SF5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 358.882843 1073.6267 2.6099 0.00093665 -2.2142 -0.00079465 0.39566 0.000142 359.21611383495775 35.754 0.098846 36.38 36.296 36.395 0.62631 -0.097029 0.00038749 NaN 5.7834 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 186510 26687 3311 17259 17317 0.09283235530688216 RCWWRWPRCYW 11 Unmodified _RCWWRWPRCYW_ 0 0 0 ENST00000341500.9_1_19:7267817-7293934:-|nuORF ENST00000341500.9_1_19:7267817-7293934:-|nuORF ENST00000341500.9_1_19:7267817-7293934:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.5974731445312 3 566.595813 1696.76561 NaN NaN NaN NaN NaN NaN NaN 44.184 1 44.184 43.684 44.684 0 0 0 0 1.0082 1 20172 20172 0 0 1 26688 7076 17260 17318 30231 30231 -0.05490125052801886 RCYTEMLDNL 10 Unmodified _RCYTEMLDNL_ 0 0 0 ENSG00000123066|ENST00000281928|MED13L ENSG00000123066|ENST00000281928|MED13L ENSG00000123066|ENST00000281928|MED13L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 419.85968017578125 3 419.858258 1256.55294 NaN NaN NaN NaN NaN NaN NaN 39.286 1 40.084 39.584 40.584 0.79762 0 0 0 0.99776 1 17787 17787 3.5871 0.5148 1 26689 2290 17261 17319 30232 30232 -0.06507100693943357 RDEEETGDH 9 Unmodified _RDEEETGDH_ 0 0 0 nc|ENSG00000169554|O60315-2|ZEB2;ENSG00000169554|ENST00000627532|ZEB2 nc|ENSG00000169554|O60315-2|ZEB2 nc|ENSG00000169554|O60315-2|ZEB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.1431884765625 2 544.217974 1086.4214 NaN NaN NaN NaN NaN NaN NaN 81.042 1 81.29 80.79 81.79 0.24803 0 0 0 0.90611 1 37314 37314 2.0598 0 1 26690 4695 17262 17320 30233 30233 -0.11835871465859782 RDKKKKGHFV 10 Unmodified _RDKKKKGHFV_ 0 0 0 ENST00000557392.1_1_14:58987701-58987764:+|nuORF ENST00000557392.1_1_14:58987701-58987764:+|nuORF ENST00000557392.1_1_14:58987701-58987764:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.92181396484375 3 414.919168 1241.73567 NaN NaN NaN NaN NaN NaN NaN 82.662 1 82.909 82.409 83.409 0.24722 0 0 0 1.0003 1 38049 38049 0.62683 0 1 26691 8936 17263 17321 30234 30234 0.12447582545178193 RDKKSEVYMTE 11 Unmodified _RDKKSEVYMTE_ 0 0 0 REV__ENSG00000163466|ENST00000315717|ARPC2 REV__ENSG00000163466|ENST00000315717|ARPC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 462.5638732910156 3 462.562498 1384.66566 NaN NaN NaN NaN NaN NaN NaN 74.799 1 75.463 74.963 75.963 0.6644 0 0 0 1.0073 1 34444 34444 0.40827 0 1 + 26692 12989 17264 17322 30235 30235 -0.011281286962685044 RDKKSLLQAVA 11 Unmodified _RDKKSLLQAVA_ 0 0 0 nc|ENSG00000111799|Q99715-2|COL12A1;nc|ENSG00000111799|Q99715-4|COL12A1;ENSG00000111799|ENST00000322507|COL12A1 nc|ENSG00000111799|Q99715-2|COL12A1 nc|ENSG00000111799|Q99715-2|COL12A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 614.8731689453125 2 614.872237 1227.72992 NaN NaN NaN NaN NaN NaN NaN 52.274 1 52.536 52.036 53.036 0.26227 0 0 0 1.0074 1 23896 23896 1.0715 0 1 26693 1776 17265 17323 30236 30236 0.12516439242858723 RDLENLSL 8 Unmodified _RDLENLSL_ 0 0 0 nc|ENSG00000112339|Q9Y450-2|HBS1L nc|ENSG00000112339|Q9Y450-2|HBS1L nc|ENSG00000112339|Q9Y450-2|HBS1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.26324462890625 2 480.261456 958.50836 NaN NaN NaN NaN NaN NaN NaN 37.761 1 38.395 37.895 38.895 0.63388 0 0 0 0.9101 1 17276 17276 11.64 0 1 26694 9594 17266 17324 30237 30237 0.027445795465155243 RDLIGHIV 8 Unmodified _RDLIGHIV_ 0 0 0 nc|ENSG00000055917|Q8TB72-4|PUM2;ENSG00000055917|ENST00000361078|PUM2;nc|ENSG00000055917|Q8TB72|PUM2;nc|ENSG00000055917|Q8TB72-2|PUM2 nc|ENSG00000055917|Q8TB72-4|PUM2 nc|ENSG00000055917|Q8TB72-4|PUM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 308.1968078613281 3 308.187143 921.5396 NaN NaN NaN NaN NaN NaN NaN 39.279 1 39.546 39.046 40.046 0.26696 0 0 0 0.99035 1 17873 17873 1.8442 0 1 26695 617 17267 17325 30238 30238 0.07569197371287828 RDLIGHIV 8 Unmodified _RDLIGHIV_ 0 0 0 nc|ENSG00000055917|Q8TB72-4|PUM2;ENSG00000055917|ENST00000361078|PUM2;nc|ENSG00000055917|Q8TB72|PUM2;nc|ENSG00000055917|Q8TB72-2|PUM2 nc|ENSG00000055917|Q8TB72-4|PUM2 nc|ENSG00000055917|Q8TB72-4|PUM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 308.1968688964844 3 308.187143 921.5396 NaN NaN NaN NaN NaN NaN NaN 39.395 1 39.662 39.162 40.162 0.26696 0 0 0 0.99035 1 17925 17925 1.8442 0 1 26696 617 17267 17325 30239 30239 0.07569197371287828 RDLIIHFI 8 Unmodified _RDLIIHFI_ 0 0 0 ENSG00000175267|ENST00000389398|VWA3A ENSG00000175267|ENST00000389398|VWA3A ENSG00000175267|ENST00000389398|VWA3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.8748779296875 3 342.874677 1025.6022 2.2291 0.0007643 -0.43896 -0.00015051 1.7901 0.0006138 343.20858226388094 47.386 0.7918 48.215 47.901 48.692 0.82915 69 44 2 0 0 0 0.73686 1 21617 21617 1.8442 0 1 460940 26697 5026 17268 17326 30240 30240 0.0904234343945518 RDLIIHFI 8 Unmodified _RDLIIHFI_ 0 0 0 ENSG00000175267|ENST00000389398|VWA3A ENSG00000175267|ENST00000389398|VWA3A ENSG00000175267|ENST00000389398|VWA3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8104248046875 2 513.808377 1025.6022 3.6129 0.0018564 -0.14756 -7.5817E-05 3.4654 0.0017805 513.8080591667076 45.089 0.34486 45.739 45.592 45.937 0.64998 20 11 2 0 0 0 0.73686 1 20741 20741 2.8892 0 1 1736000 26698 5026 17268 17326 30241 30241 0.0904234343945518 RDLKDRQQLLA 11 Unmodified _RDLKDRQQLLA_ 0 0 0 ENSG00000151445|ENST00000557658|VIPAS39;nc|ENSG00000151445|Q9H9C1-2|VIPAS39 ENSG00000151445|ENST00000557658|VIPAS39 ENSG00000151445|ENST00000557658|VIPAS39 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 339.44952392578125 4 339.699301 1354.7681 1.6788 0.0005703 0.85928 0.0002919 2.5381 0.0008622 339.69962560149446 66.5 0.15647 67.205 67.146 67.302 0.7047 25 20 2 0 0 0 0.13295 1 31560 31560 2.4348 0 1 585510 26699 3707 17269 17327 30242 30242 0.10490325157502411 RDLKYTHILR 10 Unmodified _RDLKYTHILR_ 0 0 0 REV__nc|ENSG00000132635|Q9H1Q7-3|PCED1A REV__nc|ENSG00000132635|Q9H1Q7-3|PCED1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 657.8854370117188 2 657.885678 1313.7568 NaN NaN NaN NaN NaN NaN NaN 28.473 1 29.262 28.762 29.762 0.78921 0 0 0 1.0003 1 12824 12824 1.4819 0.28856 1 + 26700 11902 17270 17328 30243 30243 0.11247547854031836 RDMRKGEEEKP 11 Unmodified _RDMRKGEEEKP_ 0 0 0 ENST00000239165.8_1_17:46685133-46685232:-|nuORF ENST00000239165.8_1_17:46685133-46685232:-|nuORF ENST00000239165.8_1_17:46685133-46685232:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 687.8463745117188 2 687.84335 1373.67215 NaN NaN NaN NaN NaN NaN NaN 41.852 1 42.66 42.16 43.16 0.80855 0 0 0 1.0075 1 18997 18997 0.96228 0.50394 1 26701 6465 17271 17329 30244 30244 0.00025809255112108076 RDRKERTAL 9 Unmodified _RDRKERTAL_ 0 0 0 nc|ENSG00000196912|Q8N2N9-3|ANKRD36B;nc|ENSG00000196912|Q8N2N9-2|ANKRD36B;ENSG00000196912|ENST00000359901|ANKRD36B;nc|ENSG00000196912|Q8N2N9-4|ANKRD36B;ANKRD36|p.Y1630Sfs*5|1|0.17|ENSG00000135976|chr2:97245476-97245476|A/-|frameshift_variant;ENSG00000135976|ENST00000420699|ANKRD36;nc|ENSG00000135976|A6QL64-4|ANKRD36;ENST00000452478.2_1_2:97779461-97784257:+|nuORF;nc|ENSG00000135976|A6QL64-5|ANKRD36;ANKRD36C|p.Y236Ffs*14|1|0.18|ENSG00000174501|chr2:95980672-95980673|-/AA|frameshift_variant;nc|ENSG00000174501|Q5JPF3|ANKRD36C;ENSG00000174501|ENST00000295246|ANKRD36C nc|ENSG00000196912|Q8N2N9-3|ANKRD36B nc|ENSG00000196912|Q8N2N9-3|ANKRD36B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 382.2240295410156 3 382.223028 1143.64725 NaN NaN NaN NaN NaN NaN NaN 12.578 1 12.885 12.385 13.385 0.30727 0 0 0 0.86621 1 5673 5673 7.1017 0.47135 1 26702 5783 17272 17330 30245 30245 0.08117542234708708 RDRKKRRRWRR 11 Unmodified _RDRKKRRRWRR_ 0 0 0 ENST00000556594.1_1_14:91518767-91526894:-|nuORF ENST00000556594.1_1_14:91518767-91526894:-|nuORF ENST00000556594.1_1_14:91518767-91526894:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.0127563476562 3 557.012118 1668.01452 3.1271 0.0017418 -1.1791 -0.00065675 1.9481 0.0010851 557.0111598793352 106.28 0.1356 106.28 106.19 106.32 0 20 7 4 0 0 0 0.91459 1 58366 58366 0.094841 0.094841 1 1999900 26703 8930 17273 17331 30246 30246 0.2072372229042685 RDRKKRRRWRR 11 Unmodified _RDRKKRRRWRR_ 0 0 0 ENST00000556594.1_1_14:91518767-91526894:-|nuORF ENST00000556594.1_1_14:91518767-91526894:-|nuORF ENST00000556594.1_1_14:91518767-91526894:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.34619140625 3 557.012118 1668.01452 3.7312 0.0020783 -1.3084 -0.00072882 2.4227 0.0013495 557.3454376251532 106.33 0.15363 106.93 106.84 107 0.60074 19 6 5 0 0 0 0.91459 1 49092 49092 0.094841 0.094841 1 1058900 26704 8930 17273 17331 30247 30247 0.2072372229042685 RDRKKRRRWRR 11 Unmodified _RDRKKRRRWRR_ 0 0 0 ENST00000556594.1_1_14:91518767-91526894:-|nuORF ENST00000556594.1_1_14:91518767-91526894:-|nuORF ENST00000556594.1_1_14:91518767-91526894:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 557.012118 1668.01452 2.0344 0.0011332 -0.11526 -6.4201E-05 1.9191 0.001069 557.0118840117142 106.41 0.12839 106.45 106.38 106.51 0.04837 -0.0090053 0.0017848 NaN 0.094841 13 5 3 NaN NaN NaN NaN 0 NaN NaN 0 2217100 26705 8930 17273 17331 0.2072372229042685 RDRKKRRRWRR 11 Unmodified _RDRKKRRRWRR_ 0 0 0 ENST00000556594.1_1_14:91518767-91526894:-|nuORF ENST00000556594.1_1_14:91518767-91526894:-|nuORF ENST00000556594.1_1_14:91518767-91526894:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 557.012118 1668.01452 4.3923 0.0024465 -1.6968 -0.00094515 2.6954 0.0015014 557.0110144366945 106.34 0.14497 106.65 106.58 106.73 0.31628 0.19099 -0.0008581 NaN 0.094841 12 4 4 NaN NaN NaN NaN 0 NaN NaN 0 1310700 26706 8930 17273 17331 0.2072372229042685 RDRMYRRYWIF 11 Unmodified _RDRMYRRYWIF_ 0 0 0 nc|ENSG00000198604|Q9NRL2-2|BAZ1A;ENSG00000198604|ENST00000360310|BAZ1A nc|ENSG00000198604|Q9NRL2-2|BAZ1A nc|ENSG00000198604|Q9NRL2-2|BAZ1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 831.2382202148438 2 831.427719 1660.84088 NaN NaN NaN NaN NaN NaN NaN 80.29 1 80.29 79.79 80.79 0 0 0 0 1.0082 1 39826 39826 0 0 1 26707 5906 17274 17332 30248 30248 0.03689755679283735 RDRQQWRRREQ 11 Unmodified _RDRQQWRRREQ_ 0 0 0 REV__ENSG00000159450|ENST00000614923|TCHH REV__ENSG00000159450|ENST00000614923|TCHH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.4273681640625 2 807.427627 1612.8407 NaN NaN NaN NaN NaN NaN NaN 97.27 1 97.27 96.77 97.77 0 0 0 0 1.0082 1 52901 52901 0 0 1 + 26708 12852 17275 17333 30249 30249 0.05879472003607589 RDVKRRRRREL 11 Unmodified _RDVKRRRRREL_ 0 0 0 REV__nc|ENSG00000126012|P41229-3|KDM5C REV__nc|ENSG00000126012|P41229-3|KDM5C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.9872436523438 3 513.985346 1538.93421 3.3839 0.0017393 -0.67202 -0.00034541 2.7119 0.0013939 513.9851316566081 83.684 0.59866 83.932 83.719 84.317 0.24722 52 37 2 0 0 0 0.91403 1 38514 38514 0.073264 0.073264 1 427480 + 26709 11703 17276 17334 30250 30250 0.18629816176712666 RDVKRRRRREL 11 Unmodified _RDVKRRRRREL_ 0 0 0 REV__nc|ENSG00000126012|P41229-3|KDM5C REV__nc|ENSG00000126012|P41229-3|KDM5C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 385.9927062988281 4 385.740828 1538.93421 2.9145 0.0011242 -0.28188 -0.00010873 2.6326 0.0010155 385.9914615161369 83.224 0.70784 83.884 83.697 84.405 0.66019 100 43 4 0 0 0 0.91184 1 38334 38334 1.0136 0.93022 1 1818600 + 26710 11703 17276 17334 30251 30251 0.18629816176712666 RDVKRRRRREL 11 Unmodified _RDVKRRRRREL_ 0 0 0 REV__nc|ENSG00000126012|P41229-3|KDM5C REV__nc|ENSG00000126012|P41229-3|KDM5C MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 385.740828 1538.93421 2.8258 0.00109 -0.4715 -0.00018188 2.3543 0.00090813 385.7406415341473 83.701 0.43967 83.948 83.64 84.08 0.24722 0.032313 -0.0001663 NaN 1.0136 90 29 4 NaN NaN NaN NaN 0 NaN NaN 0 882150 + 26711 11703 17276 17334 0.18629816176712666 RDVKRRRRREL 11 Unmodified _RDVKRRRRREL_ 0 0 0 REV__nc|ENSG00000126012|P41229-3|KDM5C REV__nc|ENSG00000126012|P41229-3|KDM5C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 385.740828 1538.93421 2.9145 0.0011242 -0.28188 -0.00010873 2.6326 0.0010155 385.9914615161369 83.224 0.70784 83.884 83.697 84.405 0.66019 -0.032313 0.00012629 NaN 1.0136 100 43 4 NaN NaN NaN NaN 0 NaN NaN 0 1818600 + 26712 11703 17276 17334 0.18629816176712666 RDYDEETWCY 10 Unmodified _RDYDEETWCY_ 0 0 0 REV__ENST00000489471.5_3_2:46787807-46808219:+|nuORF REV__ENST00000489471.5_3_2:46787807-46808219:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1380.728759765625 1 1379.52086 1378.51358 3.6083 0.0049777 -0.31151 -0.00042974 3.2968 0.004548 1379.524312487766 29.715 0.022215 30.504 30.493 30.515 0.78921 4 2 2 0 0 0 0.9427 1 13406 13406 0.35063 0 1 1076000 + 26713 16794 17277 17335 30252 30252 -0.1605352944382048 RDYDRNRRERF 11 Unmodified _RDYDRNRRERF_ 0 0 0 SRRT|p.D363Vfs*14|1|0.06|ENSG00000087087|chr7:100884968-100884969|-/TTTTGTCATCATTAGA|frameshift_variant;SRRT|p.V517Dfs*13|1|0.17|ENSG00000087087|chr7:100886338-100886348|TGCGCAACGAC/-|frameshift_variant;nc|ENSG00000087087|Q9BXP5-5|SRRT;nc|ENSG00000087087|Q9BXP5-4|SRRT;nc|ENSG00000087087|Q9BXP5-2|SRRT;nc|ENSG00000087087|Q9BXP5-3|SRRT;ENSG00000087087|ENST00000611405|SRRT SRRT|p.D363Vfs*14|1|0.06|ENSG00000087087|chr7:100884968-100884969|-/TTTTGTCATCATTAGA|frameshift_variant SRRT|p.D363Vfs*14|1|0.06|ENSG00000087087|chr7:100884968-100884969|-/TTTTGTCATCATTAGA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 791.8987426757812 2 791.900911 1581.78727 NaN NaN NaN NaN NaN NaN NaN 83.087 1 83.132 82.632 83.632 0.045006 0 0 0 1.0073 1 41148 41148 1.1933 0.84271 1 26714 995 17278 17336 30253 30253 0.01964674501095942 RDYEYNRYRDY 11 Unmodified _RDYEYNRYRDY_ 0 0 0 ENSG00000214753|ENST00000301785|HNRNPUL2 ENSG00000214753|ENST00000301785|HNRNPUL2 ENSG00000214753|ENST00000301785|HNRNPUL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 806.861572265625 2 806.860586 1611.70662 NaN NaN NaN NaN NaN NaN NaN 81.012 1 81.26 80.76 81.76 0.24803 0 0 0 1.008 1 37300 37300 0.30703 0.30703 1 26715 6118 17279 17337 30254 30254 -0.07476651332444817 REAKRRVTGIW 11 Unmodified _REAKRRVTGIW_ 0 0 0 nc|ENSG00000183571|A6NFU8|PGPEP1L nc|ENSG00000183571|A6NFU8|PGPEP1L nc|ENSG00000183571|A6NFU8|PGPEP1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 686.4002685546875 2 686.402027 1370.7895 NaN NaN NaN NaN NaN NaN NaN 71.203 1 71.865 71.365 72.365 0.66209 0 0 0 1.0074 1 32632 32632 1.0715 0.61312 1 26716 9780 17280 17338 30255 30255 0.1189375497688161 REEDEVAL 8 Unmodified _REEDEVAL_ 0 0 0 ENSG00000176092|ENST00000308182|CRYBG2 ENSG00000176092|ENST00000308182|CRYBG2 ENSG00000176092|ENST00000308182|CRYBG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.7372741699219 2 480.735271 959.45599 NaN NaN NaN NaN NaN NaN NaN 32.832 1 33.62 33.12 34.12 0.78795 0 0 0 0.72306 1 14854 14854 21.747 0 1 26717 5063 17281 17339 30256 30256 -0.025360035871017317 REEECTGRAAA 11 Unmodified _REEECTGRAAA_ 0 0 0 ENST00000371080.5_1_1:64239708-64475003:+|nuORF ENST00000371080.5_1_1:64239708-64475003:+|nuORF ENST00000371080.5_1_1:64239708-64475003:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.18426513671875 3 398.184021 1191.53023 NaN NaN NaN NaN NaN NaN NaN 73.305 1 74.004 73.504 74.504 0.69881 0 0 0 1.0072 1 35328 35328 0.45452 0 1 26718 7312 17282 17340 30257 30257 -0.05786983767188758 REEEERRRWYE 11 Unmodified _REEEERRRWYE_ 0 0 0 REV__ENSG00000056097|ENST00000265069|ZFR REV__ENSG00000056097|ENST00000265069|ZFR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 819.392333984375 2 819.392584 1636.77062 NaN NaN NaN NaN NaN NaN NaN 42.27 1 42.54 42.04 43.04 0.27021 0 0 0 1.0082 1 19277 19277 0 0 1 + 26719 10375 17283 17341 30258 30258 -0.022298711754729084 REEEERRRWYE 11 Unmodified _REEEERRRWYE_ 0 0 0 REV__ENSG00000056097|ENST00000265069|ZFR REV__ENSG00000056097|ENST00000265069|ZFR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 819.3944091796875 2 819.392584 1636.77062 NaN NaN NaN NaN NaN NaN NaN 37.845 1 38.479 37.979 38.979 0.63388 0 0 0 1.0082 1 17313 17313 0 0 1 + 26720 10375 17283 17341 30259 30259 -0.022298711754729084 REEEWWKWKQE 11 Unmodified _REEEWWKWKQE_ 0 0 0 REV__ENSG00000198900|ENST00000361337|TOP1 REV__ENSG00000198900|ENST00000361337|TOP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 817.2124633789062 2 817.391522 1632.76849 NaN NaN NaN NaN NaN NaN NaN 78.681 1 78.681 78.181 79.181 0 0 0 0 1.0082 1 38732 38732 0 0 1 + 26721 14378 17284 17342 30260 30260 -0.02258299913319206 REEFYELKDRW 11 Unmodified _REEFYELKDRW_ 0 0 0 REV__ENST00000478406.5_1_1:227170215-227170924:+|nuORF REV__ENST00000478406.5_1_1:227170215-227170924:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 785.8850708007812 2 785.886072 1569.75759 NaN NaN NaN NaN NaN NaN NaN 99.892 1 100.2 99.7 100.7 0.30835 0 0 0 1.008 1 46180 46180 0.26902 0.26902 1 + 26722 12973 17285 17343 30261 30261 -0.004497022876194023 REEHKREYKRW 11 Unmodified _REEHKREYKRW_ 0 0 0 REV__nc|ENSG00000212789|Q8NFI4|ST13P5 REV__nc|ENSG00000212789|Q8NFI4|ST13P5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 808.923828125 2 808.923855 1615.83316 NaN NaN NaN NaN NaN NaN NaN 91.621 1 92.283 91.783 92.783 0.66198 0 0 0 1.0082 1 42162 42162 0 0 1 + 26723 18131 17286 17344 30262 30262 0.04987319683345959 REEQRKML 8 Unmodified _REEQRKML_ 0 0 0 REV__ENSG00000183273|ENST00000327554|CCDC60 REV__ENSG00000183273|ENST00000327554|CCDC60 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.86724853515625 3 363.865964 1088.57606 NaN NaN NaN NaN NaN NaN NaN 12.821 1 13.464 12.964 13.964 0.64272 0 0 0 0.9101 1 5756 5756 8.7454 0 1 + 26724 13926 17287 17345 30263 30263 0.035317062056719806 REERLKRRKA 10 Unmodified _REERLKRRKA_ 0 0 0 REV__nc|ENSG00000099954|Q9BXF3-2|CECR2 REV__nc|ENSG00000099954|Q9BXF3-2|CECR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 671.4132080078125 2 671.412926 1340.8113 NaN NaN NaN NaN NaN NaN NaN 86.231 1 86.901 86.401 87.401 0.67061 0 0 0 1.0015 1 39710 39710 0.40072 0 1 + 26725 10794 17288 17346 30264 30264 0.1545255972544055 REFRAKKKD 9 Unmodified _REFRAKKKD_ 0 0 0 REV__nc|ENSG00000167210|Q8IVV2|LOXHD1 REV__nc|ENSG00000167210|Q8IVV2|LOXHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.3456420898438 2 589.343646 1176.67274 3.8673 0.0022791 -1.4186 -0.00083603 2.4487 0.0014431 589.3425715603616 103.35 0.20534 103.95 103.84 104.05 0.59822 26 15 3 0 0 0 1.129 1 47807 47807 1.8442 0 1 479320 + 26726 13282 17289 17347 30265 30265 0.09147016757128767 REGTVLKV 8 Unmodified _REGTVLKV_ 0 0 0 ENST00000445160.2_1_3:197282243-197282711:-|nuORF ENST00000445160.2_1_3:197282243-197282711:-|nuORF ENST00000445160.2_1_3:197282243-197282711:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 301.1893615722656 3 301.187032 900.539266 NaN NaN NaN NaN NaN NaN NaN 23.364 1 23.64 23.14 24.14 0.27562 0 0 0 0.99035 1 10556 10556 1.1933 0 1 26727 7967 17290 17348 30266 30266 0.08501777651417797 REHEKHKYFER 11 Unmodified _REHEKHKYFER_ 0 0 0 ENSG00000173404|ENST00000310227|INSM1 ENSG00000173404|ENST00000310227|INSM1 ENSG00000173404|ENST00000310227|INSM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 779.8970336914062 2 779.897306 1557.78006 NaN NaN NaN NaN NaN NaN NaN 46.361 1 47.013 46.513 47.513 0.65219 0 0 0 1.008 1 21235 21235 0.26902 0 1 26728 4933 17291 17349 30267 30267 0.02347941900711703 REHRHRRRYYY 11 Unmodified _REHRHRRRYYY_ 0 0 0 REV__ENST00000507405.5_1_5:138755893-138773164:-|nuORF REV__ENST00000507405.5_1_5:138755893-138773164:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 846.4454956054688 2 846.440538 1690.86652 NaN NaN NaN NaN NaN NaN NaN 104.19 1 104.19 103.69 104.69 0 0 0 0 1.0082 1 57358 57358 0 0 1 + 26729 13435 17292 17350 30268 30268 0.04872366245945159 REHSTSSL 8 Unmodified _REHSTSSL_ 0 0 0 REV__ENSG00000181143|ENST00000397910|MUC16 REV__ENSG00000181143|ENST00000397910|MUC16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 306.1545104980469 3 306.154279 915.441008 2.028 0.00062089 -1.4713 -0.00045044 0.55674 0.00017045 306.1539133537727 21.775 0.22837 21.775 21.629 21.857 0 34 21 2 0 0 0 0.70799 1 9740 9740 3.5965 0 1 165410 + 26730 13844 17293 17351 30269 30269 -0.020094506644113608 REIVRWLQRWF 11 Unmodified _REIVRWLQRWF_ 0 0 0 REV__ENSG00000041802|ENST00000265245|LSG1 REV__ENSG00000041802|ENST00000265245|LSG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 794.9468994140625 2 794.946602 1587.87865 NaN NaN NaN NaN NaN NaN NaN 92.01 1 92.01 91.51 92.51 0 0 0 0 1.0082 1 48763 48763 0 0 1 + 26731 10319 17294 17352 30270 30270 0.1082258993637879 REKKKLKKKL 10 Unmodified _REKKKLKKKL_ 0 0 0 nc|ENSG00000135541|Q8N157-3|AHI1;nc|ENSG00000135541|Q8N157-2|AHI1;ENSG00000135541|ENST00000265602|AHI1 nc|ENSG00000135541|Q8N157-3|AHI1 nc|ENSG00000135541|Q8N157-3|AHI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 649.9545288085938 2 649.953364 1297.89217 NaN NaN NaN NaN NaN NaN NaN 43.038 1 43.852 43.352 44.352 0.81444 0 0 0 1.002 1 19583 19583 0 0 1 26732 2880 17295 17353 30271 30271 0.2551444771563638 REKQRRRDRTR 11 Unmodified _REKQRRRDRTR_ 0 0 0 ENSG00000105127|ENST00000269701|AKAP8;ENST00000598597.6_1_19:15465728-15479935:-|nuORF;ENST00000537303.5_1_19:15472501-15484105:-|nuORF ENSG00000105127|ENST00000269701|AKAP8 ENSG00000105127|ENST00000269701|AKAP8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.6363525390625 3 519.636605 1555.88799 NaN NaN NaN NaN NaN NaN NaN 94.782 1 94.782 94.282 95.282 0 0 0 0 1.0068 1 50923 50923 1.9275 1.4215 1 26733 1470 17296 17354 30272 30272 0.13227751274598631 REKRRLYRRRW 11 Unmodified _REKRRLYRRRW_ 0 0 0 REV__ENSG00000284188|ENST00000640271|unknown REV__ENSG00000284188|ENST00000640271|unknown MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 837.6741333007812 2 837.998023 1673.98149 NaN NaN NaN NaN NaN NaN NaN 84.546 1 84.794 84.294 85.294 0.24757 0 0 0 1.0082 1 38912 38912 0 0 1 + 26734 14771 17297 17355 30273 30273 0.17146095447719745 RELKWHLKERE 11 Unmodified _RELKWHLKERE_ 0 0 0 ENSG00000227729|ENST00000557640|RD3L ENSG00000227729|ENST00000557640|RD3L ENSG00000227729|ENST00000557640|RD3L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.955322265625 3 508.619558 1522.83684 3.4101 0.0017344 -0.18479 -9.3986E-05 3.2253 0.0016404 508.6195087039781 29.176 0.37832 29.176 28.971 29.349 0 86 29 4 0 0 0 0.91403 1 13104 13104 0.073264 0 1 742640 26735 6172 17298 17356 30274 30274 0.09633989457188363 RELLFFRRRRR 11 Unmodified _RELLFFRRRRR_ 0 0 0 ENST00000394833.6_1_4:103265936-103266233:-|nuORF ENST00000394833.6_1_4:103265936-103266233:-|nuORF ENST00000394833.6_1_4:103265936-103266233:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 802.9895629882812 2 802.989666 1603.96478 NaN NaN NaN NaN NaN NaN NaN 60.084 1 60.084 59.584 60.584 0 0 0 0 1.0082 1 27848 27848 0 0 1 26736 7546 17299 17357 30275 30275 0.18695594561745565 RELRLRPRPRL 11 Unmodified _RELRLRPRPRL_ 0 0 0 ENST00000590628.1_1_19:28296947-28297304:+|nuORF ENST00000590628.1_1_19:28296947-28297304:+|nuORF ENST00000590628.1_1_19:28296947-28297304:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.2386474609375 4 366.236385 1460.91643 2.584 0.00094635 0.72126 0.00026415 3.3052 0.0012105 366.2375824967259 45.869 0.3978 45.869 45.687 46.085 0 37 20 3 0 0 0 0.83518 3 20978 20927;20978;21048 2.4348 2.0681 1 2737100 26737 9228 17300 17358 30276;30277;30278 30277 0.2044110092185747 RELRLRPRPRL 11 Unmodified _RELRLRPRPRL_ 0 0 0 ENST00000590628.1_1_19:28296947-28297304:+|nuORF ENST00000590628.1_1_19:28296947-28297304:+|nuORF ENST00000590628.1_1_19:28296947-28297304:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.2375793457031 4 366.236385 1460.91643 2.3165 0.00084839 0.14412 5.2783E-05 2.4606 0.00090117 366.2371905380282 44.636 0.8249 45.456 45.029 45.854 0.82075 82 40 3 0 0 0 0.91149 1 20393 20393 0.36667 0.037403 1 1882400 26738 9228 17300 17358 30279 30279 0.2044110092185747 RELRLRPRPRL 11 Unmodified _RELRLRPRPRL_ 0 0 0 ENST00000590628.1_1_19:28296947-28297304:+|nuORF ENST00000590628.1_1_19:28296947-28297304:+|nuORF ENST00000590628.1_1_19:28296947-28297304:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.2386474609375 4 366.236385 1460.91643 2.5204 0.00092304 0.44197 0.00016187 2.9623 0.0010849 366.23742756002133 45.285 0.74762 45.553 45.12 45.868 0.26768 78 31 4 0 0 0 0.91068 2 20727 20565;20727 0.45452 0.32491 1 2240600 26739 9228 17300 17358 30280;30281 30281 0.2044110092185747 RELRRLILHAK 11 Unmodified _RELRRLILHAK_ 0 0 0 REV__nc|ENSG00000148219|O75129-2|ASTN2 REV__nc|ENSG00000148219|O75129-2|ASTN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.0384826660156 3 468.968522 1403.88374 NaN NaN NaN NaN NaN NaN NaN 45.78 1 46.607 46.107 47.107 0.82621 0 0 0 1.0064 1 20847 20847 2.4348 1.325 1 + 26740 12526 17301 17359 30282 30282 0.19794893799030433 RELVLPDSL 9 Unmodified _RELVLPDSL_ 0 0 0 REV__nc|ENSG00000120341|Q96JE7-3|SEC16B REV__nc|ENSG00000120341|Q96JE7-3|SEC16B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.3023071289062 2 521.300581 1040.58661 NaN NaN NaN NaN NaN NaN NaN 35.761 1 36.016 35.516 36.516 0.25524 0 0 0 0.10938 1 16289 16289 39.95 1.7741 1 + 26741 11535 17302 17360 30283 30283 0.06794012131740601 REMNPTQRGPR 11 Unmodified _REMNPTQRGPR_ 0 0 0 ENST00000465807.1_1_10:102827465-102827807:+|nuORF ENST00000465807.1_1_10:102827465-102827807:+|nuORF ENST00000465807.1_1_10:102827465-102827807:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 671.349609375 2 671.343852 1340.67315 NaN NaN NaN NaN NaN NaN NaN 82.55 1 83.21 82.71 83.71 0.66019 0 0 0 1.0061 1 38034 38034 2.7352 0.23671 1 26742 8127 17303 17361 30284 30284 0.016440684146573403 REPFCRWWKAF 11 Unmodified _REPFCRWWKAF_ 0 0 0 REV__nc|nan|Q6UWU4-3|C6orf89 REV__nc|nan|Q6UWU4-3|C6orf89 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 763.3764038085938 2 763.379706 1524.74486 NaN NaN NaN NaN NaN NaN NaN 47.239 1 48.068 47.568 48.568 0.82915 0 0 0 1.0071 1 21521 21521 1.4819 0 1 + 26743 14345 17304 17362 30285 30285 0.0034760783917135996 REPPRVWL 8 Unmodified _REPPRVWL_ 0 0 0 REV__ENST00000266383.9_1_12:671388-671643:+|nuORF REV__ENST00000266383.9_1_12:671388-671643:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.53900146484375 3 351.538176 1051.5927 2.4218 0.00085137 -0.85161 -0.00029937 1.5702 0.000552 351.5378954325328 27.851 0.21928 28.113 27.998 28.217 0.26245 22 12 2 0 0 0 0.71911 1 12673 12673 2.9952 0.71247 1 262950 + 26744 15038 17305 17363 30286 30286 0.06896575153928097 REPRVRRGKAE 11 Unmodified _REPRVRRGKAE_ 0 0 0 ENST00000337682.8_1_12:31451101-31479155:-|nuORF ENST00000337682.8_1_12:31451101-31479155:-|nuORF ENST00000337682.8_1_12:31451101-31479155:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.93438720703125 3 451.932248 1352.77491 3.2373 0.0014631 0.92847 0.00041961 4.1658 0.0018827 452.2669545459331 93.121 1.8282 93.768 93.054 94.882 0.64714 177 95 2 0 0 0 0.91345 1 42885 42885 0.45452 0 1 1111700 26745 7043 17306 17364 30287 30287 0.11263682828735 REPVPQDNVA 10 Unmodified _REPVPQDNVA_ 0 0 0 REV__nc|ENSG00000163395|Q86VF2|IGFN1 REV__nc|ENSG00000163395|Q86VF2|IGFN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.7904052734375 2 562.78837 1123.56219 3.6682 0.0020644 -1.4554 -0.0008191 2.2127 0.0012453 563.2886266777346 39.976 0.25438 40.243 40.103 40.357 0.26696 16 10 2 0 0 0 0.72019 1 18191 18191 12.241 1.4167 1 1029200 + 26746 12986 17307 17365 30288 30288 0.005347519782390009 REPVPQDNVA 10 Unmodified _REPVPQDNVA_ 0 0 0 REV__nc|ENSG00000163395|Q86VF2|IGFN1 REV__nc|ENSG00000163395|Q86VF2|IGFN1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 562.78837 1123.56219 3.6682 0.0020644 -1.4554 -0.0008191 2.2127 0.0012453 563.2886266777346 39.976 0.25438 40.243 40.103 40.357 0.26696 0 0 NaN 12.241 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 1029200 + 26747 12986 17307 17365 0.005347519782390009 REQERHRHRRW 11 Unmodified _REQERHRHRRW_ 0 0 0 REV__nc|ENSG00000278259|Q96H55-4|MYO19 REV__nc|ENSG00000278259|Q96H55-4|MYO19 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 823.435546875 2 823.435787 1644.85702 NaN NaN NaN NaN NaN NaN NaN 95.428 1 95.696 95.196 96.196 0.2675 0 0 0 1.0082 1 43847 43847 0 0 1 + 26748 14750 17308 17366 30289 30289 0.06038597960377956 REQLLFRHE 9 Unmodified _REQLLFRHE_ 0 0 0 nc|ENSG00000163006|Q96M89-2|CCDC138;ENSG00000163006|ENST00000295124|CCDC138 nc|ENSG00000163006|Q96M89-2|CCDC138 nc|ENSG00000163006|Q96M89-2|CCDC138 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.89227294921875 3 409.891278 1226.652 3.0165 0.0012364 0.57124 0.00023415 3.5878 0.0014706 409.89138985533566 15.743 1.0199 16.401 16.021 17.041 0.65798 303 137 3 0 0 0 1.0755 1 7060 7060 2.7352 0 1 177450 26749 4185 17309 17367 30290 30290 0.047744263774802675 REQPDWVL 8 Unmodified _REQPDWVL_ 0 0 0 REV__PAK6|p.R641W|1|0.38|ENSG00000137843|chr15:40275969-40275969|C/T|missense_variant REV__PAK6|p.R641W|1|0.38|ENSG00000137843|chr15:40275969-40275969|C/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.7705688476562 2 521.769448 1041.52434 3.205 0.0016723 -0.33484 -0.00017471 2.8701 0.0014975 521.7692877145178 51.902 0.66167 51.902 51.649 52.31 0 158 48 4 0 0 0 0.014171 2 23884 23689;23884 92.822 3.8683 1 26240000 + 26750 18195 17310 17368 30291;30292 30292 0.005242857834218739 REQPDWVL 8 Unmodified _REQPDWVL_ 0 0 0 REV__PAK6|p.R641W|1|0.38|ENSG00000137843|chr15:40275969-40275969|C/T|missense_variant REV__PAK6|p.R641W|1|0.38|ENSG00000137843|chr15:40275969-40275969|C/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.7700805664062 2 521.769448 1041.52434 3.1235 0.0016298 -0.46439 -0.00024231 2.6591 0.0013874 521.7692040523241 50.897 0.5247 51.714 51.434 51.959 0.81738 99 30 4 0 0 0 0.026256 1 23219 23219 81.613 2.885 1 22317000 + 26751 18195 17310 17368 30293 30293 0.005242857834218739 REQPDWVL 8 Unmodified _REQPDWVL_ 0 0 0 REV__PAK6|p.R641W|1|0.38|ENSG00000137843|chr15:40275969-40275969|C/T|missense_variant REV__PAK6|p.R641W|1|0.38|ENSG00000137843|chr15:40275969-40275969|C/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.7709350585938 2 521.769448 1041.52434 3.2828 0.0017129 -0.41779 -0.00021799 2.865 0.0014949 521.7692337439984 51.856 0.59461 52.118 51.86 52.454 0.26227 149 43 4 0 0 0 0.026256 1 23637 23637 81.613 2.885 1 17619000 + 26752 18195 17310 17368 30294 30294 0.005242857834218739 REQRLEEAQQQ 11 Unmodified _REQRLEEAQQQ_ 0 0 0 REV__ENST00000494191.6_1_1:17270607-17280126:+|nuORF REV__ENST00000494191.6_1_1:17270607-17280126:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.5750732421875 3 472.239294 1413.69605 3.3481 0.0015811 -0.28564 -0.00013489 3.0624 0.0014462 472.2390687933899 12.405 0.047505 13.046 13.017 13.065 0.64047 8 2 4 0 0 0 0.5133 1 5564 5564 11.065 0 1 6879100 + 26753 10382 17311 17369 30295 30295 0.005753660131631477 REQRQLRH 8 Unmodified _REQRQLRH_ 0 0 0 REV__ENST00000503362.1_1_4:177241184-177243347:+|nuORF REV__ENST00000503362.1_1_4:177241184-177243347:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.81591796875 2 561.815587 1121.61662 NaN NaN NaN NaN NaN NaN NaN 18.612 1 18.909 18.409 19.409 0.29753 0 0 0 0.99035 1 8442 8442 0.69038 0 1 + 26754 16902 17312 17370 30296 30296 0.060678086403413545 REQSRLRRHIF 11 Unmodified _REQSRLRRHIF_ 0 0 0 REV__ENSG00000101144|ENST00000395863|BMP7 REV__ENSG00000101144|ENST00000395863|BMP7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 749.169921875 2 749.429107 1496.84366 NaN NaN NaN NaN NaN NaN NaN 83.399 1 83.444 82.944 83.944 0.045006 0 0 0 1.008 1 41382 41382 0.30703 0 1 + 26755 10868 17313 17371 30297 30297 0.11511347128453053 REQVRGTKS 9 Unmodified _REQVRGTKS_ 0 0 0 ENST00000371080.5_1_1:64239708-64475003:+|nuORF ENST00000371080.5_1_1:64239708-64475003:+|nuORF ENST00000371080.5_1_1:64239708-64475003:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.3751220703125 2 530.796529 1059.5785 2.0497 0.001088 0.35902 0.00019057 2.4087 0.0012785 530.7971430492922 92.64 0.045349 92.726 92.695 92.74 0.086205 5 4 2 0 0 0 0.41574 1 48343 48343 13.906 0 1 4920300 26756 7312 17314 17372 30298 30298 0.05109877934978613 RERALEKLKWN 11 Unmodified _RERALEKLKWN_ 0 0 0 REV__ENSG00000169251|ENST00000351193|NMD3 REV__ENSG00000169251|ENST00000351193|NMD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 721.9144287109375 2 721.914967 1441.81538 NaN NaN NaN NaN NaN NaN NaN 20.188 1 20.188 19.688 20.688 0 0 0 0 1.008 1 9022 9022 0.30703 0.03801 1 + 26757 13386 17315 17373 30299 30299 0.11214604428505481 RERDKERQRRK 11 Unmodified _RERDKERQRRK_ 0 0 0 ZC3H18|p.E930Sfs*3|1|0.25|ENSG00000158545|chr16:88631224-88631224|G/-|frameshift_variant;ENSG00000158545|ENST00000301011|ZC3H18 ZC3H18|p.E930Sfs*3|1|0.25|ENSG00000158545|chr16:88631224-88631224|G/-|frameshift_variant ZC3H18|p.E930Sfs*3|1|0.25|ENSG00000158545|chr16:88631224-88631224|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 778.9451904296875 2 778.945653 1555.87675 NaN NaN NaN NaN NaN NaN NaN 96.005 1 96.613 96.113 97.113 0.60769 0 0 0 1.0082 1 44146 44146 0 0 1 26758 3989 17316 17374 30300 30300 0.12104929180463841 RERERDRRRDR 11 Unmodified _RERERDRRRDR_ 0 0 0 ENSG00000101191|ENST00000395343|DIDO1 ENSG00000101191|ENST00000395343|DIDO1 ENSG00000101191|ENST00000395343|DIDO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 800.43603515625 2 800.435984 1598.85741 NaN NaN NaN NaN NaN NaN NaN 44.508 1 45.158 44.658 45.658 0.64998 0 0 0 1.0082 1 20402 20402 0 0 1 26759 1270 17317 17375 30301 30301 0.08193972889580436 RERKKRDKLPF 11 Unmodified _RERKKRDKLPF_ 0 0 0 REV__ENST00000394507.5_2_7:91870378-91871424:-|nuORF REV__ENST00000394507.5_2_7:91870378-91871424:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.6332702636719 3 491.631798 1471.87356 NaN NaN NaN NaN NaN NaN NaN 88.433 1 88.485 87.985 88.985 0.052155 0 0 0 1.0079 1 45041 45041 0.40827 0 1 + 26760 15970 17318 17376 30302 30302 0.15650286073787356 RERRERRERME 11 Unmodified _RERRERRERME_ 0 0 0 ENSG00000174243|ENST00000308025|DDX23;ENST00000551189.1_1_12:49231126-49231468:-|nuORF;ENST00000547165.5_1_12:49231126-49231803:-|nuORF ENSG00000174243|ENST00000308025|DDX23 ENSG00000174243|ENST00000308025|DDX23 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 801.9222412109375 2 801.92132 1601.82809 NaN NaN NaN NaN NaN NaN NaN 74.17 1 74.17 73.67 74.67 0 0 0 0 1.008 1 36204 36204 0.30703 0 1 26761 4969 17319 17377 30303 30303 0.0512469254908865 RERRKEMLRHT 11 Unmodified _RERRKEMLRHT_ 0 0 0 REV__ENSG00000154479|ENST00000447353|CFAP210 REV__ENSG00000154479|ENST00000447353|CFAP210 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 756.4207763671875 2 756.420425 1510.8263 NaN NaN NaN NaN NaN NaN NaN 44.181 1 44.451 43.951 44.951 0.2694 0 0 0 1.008 1 20191 20191 0.30703 0 1 + 26762 12708 17320 17378 30304 30304 0.09131683531131785 RERRKPGA 8 Unmodified _RERRKPGA_ 0 0 0 nc|ENSG00000100207|Q9UGU0-2|TCF20;ENSG00000100207|ENST00000677622|TCF20 nc|ENSG00000100207|Q9UGU0-2|TCF20 nc|ENSG00000100207|Q9UGU0-2|TCF20 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2878112792969 2 485.288674 968.562795 NaN NaN NaN NaN NaN NaN NaN 69.018 1 69.677 69.177 70.177 0.65924 0 0 0 0.99035 1 31638 31638 2.5775 0 1 26763 1187 17321 17379 30305 30305 0.07725636208613196 RERRLLQRKKR 11 Unmodified _RERRLLQRKKR_ 0 0 0 ENSG00000099795|ENST00000215565|NDUFB7;ENST00000593353.5_1_19:14676947-14682853:-|nuORF ENSG00000099795|ENST00000215565|NDUFB7 ENSG00000099795|ENST00000215565|NDUFB7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 769.9978637695312 2 769.994949 1537.97534 NaN NaN NaN NaN NaN NaN NaN 61.595 1 61.595 61.095 62.095 0 0 0 0 1.0075 1 28746 28746 0.96228 0.56156 1 26764 1149 17322 17380 30306 30306 0.22787577216172394 RERRRRKRQP 10 Unmodified _RERRRRKRQP_ 0 0 0 REV__ENST00000444772.3_1_10:21805118-21806168:-|nuORF REV__ENST00000444772.3_1_10:21805118-21806168:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 719.440185546875 2 719.440341 1436.86613 NaN NaN NaN NaN NaN NaN NaN 83.202 1 83.247 82.747 83.747 0.045006 0 0 0 1.0016 1 41238 41238 0.35063 0 1 + 26765 16373 17323 17381 30307 30307 0.16516991316734675 RERRSPLRV 9 Unmodified _RERRSPLRV_ 0 0 0 REV__nc|ENSG00000156026|Q8NE86-3|MCU REV__nc|ENSG00000156026|Q8NE86-3|MCU MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.8544921875 2 584.854712 1167.69487 NaN NaN NaN NaN NaN NaN NaN 4.3892 1 4.7542 4.2542 5.2542 0.36497 0 0 0 0.91265 1 1991 1991 0.45834 0 1 + 26766 12760 17324 17382 30308 30308 0.11773241225523634 RERRSRPRQGR 11 Unmodified _RERRSRPRQGR_ 0 0 0 REV__ENST00000485364.1_1_20:31136683-31172660:-|nuORF REV__ENST00000485364.1_1_20:31136683-31172660:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 364.2140197753906 4 364.213441 1452.82466 2.7896 0.001016 -0.53138 -0.00019354 2.2582 0.00082247 364.4640411746979 56.947 0.33741 56.947 56.767 57.104 0 65 35 3 0 0 0 0.91111 1 26195 26195 0.40827 0 1 1540900 + 26767 16742 17325 17383 30309 30309 0.11635810557390869 RERVQKEPRAR 11 Unmodified _RERVQKEPRAR_ 0 0 0 REV__ENST00000290858.10_1_16:67063120-67063363:+|nuORF REV__ENST00000290858.10_1_16:67063120-67063363:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.6146545410156 3 475.611285 1423.81203 NaN NaN NaN NaN NaN NaN NaN 62.669 1 62.919 62.419 63.419 0.24965 0 0 0 1.0065 1 28696 28696 0.92553 0 1 + 26768 15124 17326 17384 30310 30310 0.11707354374516399 RERWKRRRRR 10 Unmodified _RERWKRRRRR_ 0 0 0 ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.12396240234375 4 389.491079 1553.93521 2.7754 0.001081 -0.66113 -0.00025751 2.1142 0.00082348 389.7416465248281 63.494 0.17689 64.152 64.058 64.234 0.65808 14 10 2 0 0 0 0.12676 1 29128 29128 0.15932 0 1 423080 26769 6957 17327 17385 30311 30311 0.18040075336261907 RERWKRRRRRR 11 Unmodified _RERWKRRRRRR_ 0 0 0 ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.3258666992188 3 571.019384 1710.03632 3.0073 0.0017172 -1.9628 -0.0011208 1.0445 0.00059645 571.0191303946779 69.921 0.025169 70.624 70.608 70.633 0.70302 4 2 2 0 0 0 0.13295 1 33485 33485 0 0 1 788550 26770 6957 17328 17386 30312 30312 0.20970527038957698 RERWKVKRWDK 11 Unmodified _RERWKVKRWDK_ 0 0 0 REV__ENST00000377681.7_1_20:18123344-18123419:+|nuORF REV__ENST00000377681.7_1_20:18123344-18123419:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 793.9553833007812 2 793.954958 1585.89536 NaN NaN NaN NaN NaN NaN NaN 87.597 1 87.847 87.347 88.347 0.25064 0 0 0 1.0082 1 40313 40313 0 0 1 + 26771 15837 17329 17387 30313 30313 0.12585090822358325 RERYWHLLYYL 11 Unmodified _RERYWHLLYYL_ 0 0 0 REV__ENSG00000139547|ENST00000398138|RDH16 REV__ENSG00000139547|ENST00000398138|RDH16 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.07763671875 3 537.952537 1610.83578 NaN NaN NaN NaN NaN NaN NaN 68.19 1 68.19 67.69 68.69 0 0 0 0 1.0082 1 32809 32809 0 0 1 + 26772 10276 17330 17388 30314 30314 0.05479775088338101 RESVIKINL 9 Unmodified _RESVIKINL_ 0 0 0 nc|ENSG00000142621|B1AJZ9|FHAD1;nc|ENSG00000142621|B1AJZ9-3|FHAD1;ENSG00000142621|ENST00000688493|FHAD1;nc|ENSG00000142621|B1AJZ9-4|FHAD1 nc|ENSG00000142621|B1AJZ9|FHAD1 nc|ENSG00000142621|B1AJZ9|FHAD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 357.8898010253906 3 357.888874 1070.64479 2.4841 0.00088902 -0.32017 -0.00011459 2.1639 0.00077443 357.88894308541865 30.153 0.28347 30.942 30.822 31.105 0.78921 48 26 2 0 0 0 1.101 1 13678 13678 1.1933 0 1 219140 26773 3320 17331 17389 30315 30315 0.11229693777045213 RESVIKINL 9 Unmodified _RESVIKINL_ 0 0 0 nc|ENSG00000142621|B1AJZ9|FHAD1;nc|ENSG00000142621|B1AJZ9-3|FHAD1;ENSG00000142621|ENST00000688493|FHAD1;nc|ENSG00000142621|B1AJZ9-4|FHAD1 nc|ENSG00000142621|B1AJZ9|FHAD1 nc|ENSG00000142621|B1AJZ9|FHAD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 357.888874 1070.64479 2.7779 0.00099419 -0.53524 -0.00019156 2.2427 0.00080264 357.88877474069193 31.165 0.26321 31.165 31.052 31.315 0 0.073706 -0.00017906 NaN 1.1933 35 25 2 NaN NaN NaN NaN 0 NaN NaN 0 435530 26774 3320 17331 17389 0.11229693777045213 RESVIKINL 9 Unmodified _RESVIKINL_ 0 0 0 nc|ENSG00000142621|B1AJZ9|FHAD1;nc|ENSG00000142621|B1AJZ9-3|FHAD1;ENSG00000142621|ENST00000688493|FHAD1;nc|ENSG00000142621|B1AJZ9-4|FHAD1 nc|ENSG00000142621|B1AJZ9|FHAD1 nc|ENSG00000142621|B1AJZ9|FHAD1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 357.888874 1070.64479 2.4841 0.00088902 -0.32017 -0.00011459 2.1639 0.00077443 357.88894308541865 30.153 0.28347 30.942 30.822 31.105 0.78921 -0.14872 5.1856E-05 NaN 1.1933 48 26 2 NaN NaN NaN NaN 0 NaN NaN 0 219140 26775 3320 17331 17389 0.11229693777045213 RESVIKINL 9 Unmodified _RESVIKINL_ 0 0 0 nc|ENSG00000142621|B1AJZ9|FHAD1;nc|ENSG00000142621|B1AJZ9-3|FHAD1;ENSG00000142621|ENST00000688493|FHAD1;nc|ENSG00000142621|B1AJZ9-4|FHAD1 nc|ENSG00000142621|B1AJZ9|FHAD1 nc|ENSG00000142621|B1AJZ9|FHAD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 357.888874 1070.64479 3.0483 0.001091 -0.26859 -9.6125E-05 2.7797 0.00099483 357.88875589918376 30.91 0.38212 31.166 31.025 31.407 0.25614 0.075009 0.00010724 NaN 1.1933 81 42 3 NaN NaN NaN NaN 0 NaN NaN 0 791390 26776 3320 17331 17389 0.11229693777045213 RETLLEPLRQV 11 Unmodified _RETLLEPLRQV_ 0 0 0 REV__ENSG00000198354|ENST00000360028|DCAF12L2 REV__ENSG00000198354|ENST00000360028|DCAF12L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 677.3983764648438 2 677.396076 1352.7776 4.1544 0.0028142 -0.95641 -0.00064787 3.198 0.0021663 677.395353917968 94.916 1.4515 95.533 94.852 96.304 0.61736 201 78 3 0 0 0 0.91359 1 43573 43573 0.26902 0 1 4206500 + 26777 14333 17332 17390 30316 30316 0.11532093442997393 RETWVRRRRWW 11 Unmodified _RETWVRRRRWW_ 0 0 0 REV__ENST00000471600.6_1_1:21924475-21926051:-|nuORF REV__ENST00000471600.6_1_1:21924475-21926051:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 843.9672241210938 2 843.963649 1685.91274 NaN NaN NaN NaN NaN NaN NaN 86.797 1 86.797 86.297 87.297 0 0 0 0 1.008 1 44584 44584 0.35063 0.35063 1 + 26778 16605 17333 17391 30317 30317 0.09722431148020405 RETWVRRRRWW 11 Unmodified _RETWVRRRRWW_ 0 0 0 REV__ENST00000471600.6_1_1:21924475-21926051:-|nuORF REV__ENST00000471600.6_1_1:21924475-21926051:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 843.9623413085938 2 843.963649 1685.91274 NaN NaN NaN NaN NaN NaN NaN 83.808 1 83.837 83.337 84.337 0.028603 0 0 0 1.008 1 41673 41673 0.35063 0.35063 1 + 26779 16605 17333 17391 30318 30318 0.09722431148020405 REWRCFQWWRM 11 Unmodified _REWRCFQWWRM_ 0 0 0 ENST00000430334.7_1_17:43555485-43568071:-|nuORF;ENST00000582986.5_1_17:62801160-62833227:-|nuORF ENST00000430334.7_1_17:43555485-43568071:-|nuORF ENST00000430334.7_1_17:43555485-43568071:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.914306640625 3 561.930973 1682.77109 NaN NaN NaN NaN NaN NaN NaN 64.285 1 64.285 63.785 64.785 0 0 0 0 1.0082 1 30421 30421 0 0 1 26780 7847 17334 17392 30319 30319 -0.04298446261009303 REWRRKMKRTW 11 Unmodified _REWRRKMKRTW_ 0 0 0 ENST00000486943.1_3_X:49065690-49065852:-|nuORF ENST00000486943.1_3_X:49065690-49065852:-|nuORF ENST00000486943.1_3_X:49065690-49065852:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 816.95556640625 2 816.954435 1631.89432 NaN NaN NaN NaN NaN NaN NaN 82.249 1 82.333 81.833 82.833 0.084106 0 0 0 1.008 1 40597 40597 0.26902 0 1 26781 8340 17335 17393 30320 30320 0.10364553181761949 REYHKWRTYFK 11 Unmodified _REYHKWRTYFK_ 0 0 0 MLXIP|p.P358Hfs*25|1|0.05|ENSG00000175727|chr12:122132363-122132364|-/ATGAGGT|frameshift_variant;MLXIP|p.N359Rfs*24|1|0.02|ENSG00000175727|chr12:122132364-122132365|-/AAGAGAT|frameshift_variant;nc|ENSG00000175727|Q9HAP2-3|MLXIP;ENSG00000175727|ENST00000319080|MLXIP MLXIP|p.P358Hfs*25|1|0.05|ENSG00000175727|chr12:122132363-122132364|-/ATGAGGT|frameshift_variant MLXIP|p.P358Hfs*25|1|0.05|ENSG00000175727|chr12:122132363-122132364|-/ATGAGGT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.3448486328125 2 807.420417 1612.82628 NaN NaN NaN NaN NaN NaN NaN 109.32 1 109.32 108.82 109.82 0 0 0 0 1.0082 1 59795 59795 0 0 1 26782 5045 17336 17394 30321 30321 0.044380068027749076 REYRKVRIIQD 11 Unmodified _REYRKVRIIQD_ 0 0 0 REV__ENSG00000181467|ENST00000323534|RAP2B REV__ENSG00000181467|ENST00000323534|RAP2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.6220397949219 3 492.619558 1474.83684 3.5916 0.0017693 0.6916 0.0003407 4.2832 0.00211 492.6199658348165 4.3274 0.44902 4.9499 4.7309 5.18 0.62252 51 37 3 0 0 0 0.91465 1 1965 1965 0.073264 0.073264 1 59459 + 26783 13856 17337 17395 30322 30322 0.11841989457229829 RFAKTHVF 8 Unmodified _RFAKTHVF_ 0 0 0 ENST00000565698.5_2_16:28109302-28109830:-|nuORF ENST00000565698.5_2_16:28109302-28109830:-|nuORF ENST00000565698.5_2_16:28109302-28109830:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 503.2855529785156 2 503.285069 1004.55558 NaN NaN NaN NaN NaN NaN NaN 59.683 1 59.683 59.183 60.183 0 0 0 0 0.99035 1 27601 27601 2.5775 0.51773 1 26784 9048 17338 17396 30323 30323 0.05348903608182809 RFCDNVWTF 9 Carbamidomethyl (C) _RFC(Carbamidomethyl (C))DNVWTF_ RFC(1)DNVWTF RFC(100)DNVWTF 0 1 0 ENST00000267869.8_1_15:59931333-59949661:-|nuORF;ENSG00000140307|ENST00000396060|GTF2A2 ENST00000267869.8_1_15:59931333-59949661:-|nuORF ENST00000267869.8_1_15:59931333-59949661:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 622.7819213867188 2 622.77949 1243.54443 3.2063 0.0019968 -0.50336 -0.00031348 2.7029 0.0016833 622.778973461658 68.596 0.26225 68.596 68.445 68.707 0 76 31 3 0 0 0 0.0020791 3 33036 32984;33036;33089 103.35 49.521 1 5614100 26785 3190 17339 17397 30324;30325;30326 30325 63 -0.0676028654829679 RFCDNVWTF 9 Carbamidomethyl (C) _RFC(Carbamidomethyl (C))DNVWTF_ RFC(1)DNVWTF RFC(83)DNVWTF 0 1 0 ENST00000267869.8_1_15:59931333-59949661:-|nuORF;ENSG00000140307|ENST00000396060|GTF2A2 ENST00000267869.8_1_15:59931333-59949661:-|nuORF ENST00000267869.8_1_15:59931333-59949661:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 622.7821655273438 2 622.77949 1243.54443 3.9508 0.0024605 -0.36694 -0.00022853 3.5838 0.0022319 622.7793404671894 68.561 0.3475 68.813 68.658 69.006 0.25227 66 25 3 0 0 0 0.0095519 2 31409 31409;31455 82.529 44.354 1 1833300 26786 3190 17339 17397 30327;30328 30327 63 -0.0676028654829679 RFCDNVWTF 9 Carbamidomethyl (C) _RFC(Carbamidomethyl (C))DNVWTF_ RFC(1)DNVWTF RFC(83)DNVWTF 0 1 0 ENST00000267869.8_1_15:59931333-59949661:-|nuORF;ENSG00000140307|ENST00000396060|GTF2A2 ENST00000267869.8_1_15:59931333-59949661:-|nuORF ENST00000267869.8_1_15:59931333-59949661:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 622.7811279296875 2 622.77949 1243.54443 3.6081 0.0022471 -0.24152 -0.00015041 3.3666 0.0020966 622.7793283705207 68.014 0.28035 68.672 68.542 68.822 0.65777 55 18 4 0 0 0 0.0095519 2 31193 31149;31193 82.529 44.354 1 2408800 26787 3190 17339 17397 30329;30330 30330 63 -0.0676028654829679 RFCDSSGNSF 10 Carbamidomethyl (C) _RFC(Carbamidomethyl (C))DSSGNSF_ RFC(1)DSSGNSF RFC(44)DSSGNSF 0 1 0 ENST00000468778.5_1_2:74650926-74652825:+|nuORF;ENSG00000005448|ENST00000348227|WDR54;nc|ENSG00000005448|Q9H977-4|WDR54 ENST00000468778.5_1_2:74650926-74652825:+|nuORF ENST00000468778.5_1_2:74650926-74652825:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.7421264648438 2 588.740562 1175.46657 NaN NaN NaN NaN NaN NaN NaN 26.762 1 27.541 27.041 28.041 0.7787 0 0 0 0.22117 1 12023 12023 43.982 21.246 1 26788 330 17340 17398 30331 30331 6 -0.1141434420430869 RFEEAHFTF 9 Unmodified _RFEEAHFTF_ 0 0 0 ENST00000369299.7_1_1:145575401-145580415:+|nuORF;ENSG00000131788|ENST00000393045|PIAS3;ENST00000498436.2_1_1:145578572-145580415:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 592.2816772460938 2 592.28018 1182.54581 3.3697 0.0019958 -0.21828 -0.00012928 3.1514 0.0018665 592.2799183387333 49.989 0.34393 49.989 49.822 50.166 0 49 16 4 0 0 0 0.0078872 2 22902 22852;22902 103.42 59.561 1 3183100 26789 2673 17341 17399 30332;30333 30333 -0.03816329187861811 RFEEAHFTF 9 Unmodified _RFEEAHFTF_ 0 0 0 ENST00000369299.7_1_1:145575401-145580415:+|nuORF;ENSG00000131788|ENST00000393045|PIAS3;ENST00000498436.2_1_1:145578572-145580415:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 395.1902160644531 3 395.189212 1182.54581 2.6354 0.0010415 -0.076967 -3.0417E-05 2.5585 0.0010111 395.18927804254355 48.774 0.28564 49.601 49.476 49.762 0.82705 43 16 3 0 0 0 0.088474 1 22219 22219 35.612 21.394 1 937750 26790 2673 17341 17399 30334 30334 -0.03816329187861811 RFEEAHFTF 9 Unmodified _RFEEAHFTF_ 0 0 0 ENST00000369299.7_1_1:145575401-145580415:+|nuORF;ENSG00000131788|ENST00000393045|PIAS3;ENST00000498436.2_1_1:145578572-145580415:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.2823486328125 2 592.28018 1182.54581 3.6211 0.0021447 0.17672 0.00010467 3.7978 0.0022494 592.2801601470458 49.974 0.3138 50.235 50.051 50.364 0.26146 26 11 3 0 0 0 0.044031 2 22818 22818;22876 61.602 32.52 1 1206100 26791 2673 17341 17399 30335;30336 30335 -0.03816329187861811 RFEEAHFTF 9 Unmodified _RFEEAHFTF_ 0 0 0 ENST00000369299.7_1_1:145575401-145580415:+|nuORF;ENSG00000131788|ENST00000393045|PIAS3;ENST00000498436.2_1_1:145578572-145580415:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.2823486328125 2 592.28018 1182.54581 3.8684 0.0022912 0.1232 7.2969E-05 3.9916 0.0023642 592.2801489662234 49.412 0.27809 50.067 49.915 50.194 0.65524 22 9 3 0 0 0 0.044031 2 22591 22591;22647 61.602 32.52 1 1253100 26792 2673 17341 17399 30337;30338 30337 -0.03816329187861811 RFEEAHFTF 9 Unmodified _RFEEAHFTF_ 0 0 0 ENST00000369299.7_1_1:145575401-145580415:+|nuORF;ENSG00000131788|ENST00000393045|PIAS3;ENST00000498436.2_1_1:145578572-145580415:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.1906433105469 3 395.189212 1182.54581 2.9328 0.001159 -0.27043 -0.00010687 2.6624 0.0010521 395.188991015431 49.436 0.2436 50.092 49.95 50.194 0.65524 13 8 2 0 0 0 0.76776 1 22633 22633 7.9454 4.9502 1 593570 26793 2673 17341 17399 30339 30339 -0.03816329187861811 RFEEAHFTF 9 Unmodified _RFEEAHFTF_ 0 0 0 ENST00000369299.7_1_1:145575401-145580415:+|nuORF;ENSG00000131788|ENST00000393045|PIAS3;ENST00000498436.2_1_1:145578572-145580415:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 395.189212 1182.54581 2.5543 0.0010094 -0.43442 -0.00017168 2.1199 0.00083777 395.18903107937433 49.973 0.30729 49.973 49.822 50.13 0 0.084143 -0.000215 NaN 35.612 37 14 3 NaN NaN NaN NaN 0 NaN NaN 0 1314600 26794 2673 17341 17399 -0.03816329187861811 RFEEAHFTF 9 Unmodified _RFEEAHFTF_ 0 0 0 ENST00000369299.7_1_1:145575401-145580415:+|nuORF;ENSG00000131788|ENST00000393045|PIAS3;ENST00000498436.2_1_1:145578572-145580415:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF ENST00000369299.7_1_1:145575401-145580415:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 592.28018 1182.54581 3.5255 0.0020881 0.046126 2.7319E-05 3.5716 0.0021154 592.280030407184 48.784 0.36189 49.611 49.436 49.797 0.82705 -0.18901 0.0002025 NaN 103.42 55 20 3 NaN NaN NaN NaN 0 NaN NaN 0 2099200 26795 2673 17341 17399 -0.03816329187861811 RFEEKHAYF 9 Unmodified _RFEEKHAYF_ 0 0 0 ENSG00000101343|ENST00000536226|CRNKL1;nc|ENSG00000101343|Q9BZJ0-3|CRNKL1;nc|ENSG00000101343|Q9BZJ0|CRNKL1 ENSG00000101343|ENST00000536226|CRNKL1 ENSG00000101343|ENST00000536226|CRNKL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.53692626953125 3 409.536612 1225.58801 2.2117 0.00090578 -0.363 -0.00014866 1.8487 0.00075712 409.536433776828 22.362 0.16022 22.949 22.885 23.045 0.58739 47 34 2 0 0 0 0.019184 1 9952 9952 69.338 49.976 1 3636200 26796 1285 17342 17400 30340 30340 -0.015763537795010052 RFEEKHAYF 9 Unmodified _RFEEKHAYF_ 0 0 0 ENSG00000101343|ENST00000536226|CRNKL1;nc|ENSG00000101343|Q9BZJ0-3|CRNKL1;nc|ENSG00000101343|Q9BZJ0|CRNKL1 ENSG00000101343|ENST00000536226|CRNKL1 ENSG00000101343|ENST00000536226|CRNKL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.5372009277344 3 409.536612 1225.58801 2.9532 0.0012094 -0.08347 -3.4184E-05 2.8697 0.0011752 409.5364350673827 22.674 0.10426 23.314 23.266 23.37 0.64051 17 12 2 0 0 0 0.074077 1 10336 10336 39.213 31.367 1 1015100 26797 1285 17342 17400 30341 30341 -0.015763537795010052 RFFLLMTKL 9 Unmodified _RFFLLMTKL_ 0 0 0 ENST00000295493.3_1_7:42959099-42959252:+|nuORF ENST00000295493.3_1_7:42959099-42959252:+|nuORF ENST00000295493.3_1_7:42959099-42959252:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.8578491210938 2 584.849187 1167.68382 NaN NaN NaN NaN NaN NaN NaN 2.3141 1 2.7006 2.2006 3.2006 0.38641 0 0 0 0.91238 1 1052 1052 0.52476 0 1 26798 6760 17343 17401 30342 30342 0.10668702807060981 RFGLVKGK 8 Unmodified _RFGLVKGK_ 0 0 0 REV__ENST00000595484.5_1_19:47984015-47987327:-|nuORF REV__ENST00000595484.5_1_19:47984015-47987327:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 302.1970520019531 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 50.536 1 50.536 50.036 51.036 0 0 0 0 0.99035 1 23136 23136 0.40072 0 1 + 26799 11465 17344 17402 30343 30343 0.10978091613571905 RFHKEVIKRVH 11 Unmodified _RFHKEVIKRVH_ 0 0 0 REV__ENSG00000161654|ENST00000293406|LSM12 REV__ENSG00000161654|ENST00000293406|LSM12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 724.933349609375 2 724.933494 1447.85244 NaN NaN NaN NaN NaN NaN NaN 93.5 1 93.755 93.255 94.255 0.25497 0 0 0 1.008 1 42975 42975 0.35063 0 1 + 26800 12917 17345 17403 30344 30344 0.14642320764914984 RFHLPVQCKLI 11 Unmodified _RFHLPVQCKLI_ 0 0 0 REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.9030151367188 2 677.394825 1352.7751 4.3176 0.0029247 0.89994 0.00060962 5.2176 0.0035344 677.3953216074376 92.343 0.54459 92.596 92.454 92.999 0.25253 47 27 2 0 0 0 0.91359 1 42432 42432 1.1933 0.79263 1 651260 + 26801 15426 17346 17404 30345 30345 0.112819665043844 RFIFLVTLW 9 Unmodified _RFIFLVTLW_ 0 0 0 REV__ENSG00000121743|ENST00000241125|GJA3 REV__ENSG00000121743|ENST00000241125|GJA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.8591918945312 2 597.855327 1193.6961 4.1738 0.0024953 1.491 0.00089139 5.6648 0.0033867 597.8560921384948 85.36 1.1938 86.026 85.471 86.665 0.66566 95 61 2 0 0 0 1.2126 1 39342 39342 0.52476 0 1 958420 + 26802 11562 17347 17405 30346 30346 0.10700062541741318 RFIGATANF 9 Unmodified _RFIGATANF_ 0 0 0 ENSG00000172922|ENST00000308418|RNASEH2C ENSG00000172922|ENST00000308418|RNASEH2C ENSG00000172922|ENST00000308418|RNASEH2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.7687683105469 2 498.766709 995.518865 2.8102 0.0014016 0.18081 9.0183E-05 2.991 0.0014918 498.76687582960153 47.285 0.24982 47.285 47.172 47.422 0 34 13 3 0 0 0 0.017293 2 21631 21631;21683 71.922 23.576 1 2669200 26803 4903 17348 17406 30347;30348 30347 0.02092606991595858 RFIGATANF 9 Unmodified _RFIGATANF_ 0 0 0 ENSG00000172922|ENST00000308418|RNASEH2C ENSG00000172922|ENST00000308418|RNASEH2C ENSG00000172922|ENST00000308418|RNASEH2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.7684020996094 2 498.766709 995.518865 2.9877 0.0014901 0.035513 1.7713E-05 3.0232 0.0015079 498.7667543770867 46.214 0.26867 47.043 46.887 47.156 0.82915 24 11 3 0 0 0 0.010018 1 21045 21045 81.89 31.035 1 2087400 26804 4903 17348 17406 30349 30349 0.02092606991595858 RFIGATANF 9 Unmodified _RFIGATANF_ 0 0 0 ENSG00000172922|ENST00000308418|RNASEH2C ENSG00000172922|ENST00000308418|RNASEH2C ENSG00000172922|ENST00000308418|RNASEH2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.7685852050781 2 498.766709 995.518865 3.4253 0.0017084 0.09086 4.5318E-05 3.5161 0.0017537 498.7668119443821 47.102 0.27402 47.365 47.214 47.488 0.26363 23 9 3 0 0 0 0.071132 1 21538 21538 39.95 13.066 1 589930 26805 4903 17348 17406 30350 30350 0.02092606991595858 RFIGATANF 9 Unmodified _RFIGATANF_ 0 0 0 ENSG00000172922|ENST00000308418|RNASEH2C ENSG00000172922|ENST00000308418|RNASEH2C ENSG00000172922|ENST00000308418|RNASEH2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.76824951171875 2 498.766709 995.518865 3.3704 0.001681 -0.64866 -0.00032353 2.7217 0.0013575 498.7657646950369 46.543 0.19493 47.195 47.092 47.287 0.65219 15 6 3 0 0 0 0.099775 1 21358 21358 32.786 12.332 1 478850 26806 4903 17348 17406 30351 30351 0.02092606991595858 RFIPRENGVYL 11 Unmodified _RFIPRENGVYL_ 0 0 0 ENSG00000196924|ENST00000369850|FLNA;nc|ENSG00000196924|P21333-2|FLNA;ENST00000490936.5_1_X:153577219-153578780:-|nuORF ENSG00000196924|ENST00000369850|FLNA ENSG00000196924|ENST00000369850|FLNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 455.2549743652344 3 455.254216 1362.74082 2.5729 0.0011713 0.38129 0.00017358 2.9542 0.0013449 455.5888180118144 44.34 0.18573 44.609 44.546 44.732 0.2694 17 6 3 0 0 0 0.60367 1 20269 20269 15.538 7.0941 1 562850 26807 5785 17349 17407 30352 30352 0.07395841617130827 RFIQVVRRV 9 Unmodified _RFIQVVRRV_ 0 0 0 REV__ENSG00000158445|ENST00000371741|KCNB1 REV__ENSG00000158445|ENST00000371741|KCNB1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 391.7518615722656 3 391.584008 1171.73019 2.4579 0.00096246 -0.43808 -0.00017154 2.0198 0.00079092 391.58380316723094 47.679 0.029903 47.679 47.657 47.686 0 5 4 2 0 0 0 0.11293 1 21831 21831 0.96228 0 1 1995800 + 26808 12822 17350 17408 30353 30353 0.1511990375336154 RFIRPMGLRF 10 Unmodified _RFIRPMGLRF_ 0 0 0 ENST00000560515.1_1_15:59693458-59694001:-|nuORF;ENSG00000164346|ENST00000610426|NSA2 ENST00000560515.1_1_15:59693458-59694001:-|nuORF ENST00000560515.1_1_15:59693458-59694001:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 431.5862731933594 3 431.585132 1291.73357 2.712 0.0011704 -0.42567 -0.00018371 2.2863 0.00098673 431.58492718723363 46.066 0.19788 46.892 46.789 46.987 0.82621 15 8 2 0 0 0 0.20089 1 20994 20994 39.213 21.641 1 787330 26809 4309 17351 17409 30354 30354 0.09936830535684749 RFKAKKKK 8 Unmodified _RFKAKKKK_ 0 0 0 ENST00000393667.7_1_3:121412645-121412708:-|nuORF ENST00000393667.7_1_3:121412645-121412708:-|nuORF ENST00000393667.7_1_3:121412645-121412708:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.2394104003906 3 345.237949 1032.69202 NaN NaN NaN NaN NaN NaN NaN 35.531 1 36.157 35.657 36.657 0.62631 0 0 0 0.99035 1 16276 16276 0.40072 0 1 26810 7533 17352 17410 30355 30355 0.1769801783868843 RFKALKEQRLR 11 Unmodified _RFKALKEQRLR_ 0 0 0 ENST00000563542.5_1_15:72185266-72338904:-|nuORF;nc|ENSG00000066933|B2RTY4-5|MYO9A;nc|ENSG00000066933|B2RTY4-2|MYO9A;ENSG00000066933|ENST00000356056|MYO9A;nc|ENSG00000066933|B2RTY4-4|MYO9A ENST00000563542.5_1_15:72185266-72338904:-|nuORF ENST00000563542.5_1_15:72185266-72338904:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.30157470703125 3 482.30016 1443.87865 3.9121 0.0018868 -1.2999 -0.00062695 2.6122 0.0012599 482.29941164677905 101.13 0.090111 101.44 101.38 101.47 0.31412 13 3 5 0 0 0 0.91345 1 46800 46800 0.45452 0.35968 1 7270000 26811 716 17353 17411 30356 30356 0.174465899363895 RFKALKEQRLR 11 Unmodified _RFKALKEQRLR_ 0 0 0 ENST00000563542.5_1_15:72185266-72338904:-|nuORF;nc|ENSG00000066933|B2RTY4-5|MYO9A;nc|ENSG00000066933|B2RTY4-2|MYO9A;ENSG00000066933|ENST00000356056|MYO9A;nc|ENSG00000066933|B2RTY4-4|MYO9A ENST00000563542.5_1_15:72185266-72338904:-|nuORF ENST00000563542.5_1_15:72185266-72338904:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 482.30016 1443.87865 1.8284 0.00088183 -0.78799 -0.00038005 1.0404 0.00050179 482.63433691369687 101.16 0.081696 101.22 101.17 101.25 0.059723 -0.15908 0.0011674 NaN 0.45452 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 4195500 26812 716 17353 17411 0.174465899363895 RFKALKEQRLR 11 Unmodified _RFKALKEQRLR_ 0 0 0 ENST00000563542.5_1_15:72185266-72338904:-|nuORF;nc|ENSG00000066933|B2RTY4-5|MYO9A;nc|ENSG00000066933|B2RTY4-2|MYO9A;ENSG00000066933|ENST00000356056|MYO9A;nc|ENSG00000066933|B2RTY4-4|MYO9A ENST00000563542.5_1_15:72185266-72338904:-|nuORF ENST00000563542.5_1_15:72185266-72338904:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 482.30016 1443.87865 3.9121 0.0018868 -1.2999 -0.00062695 2.6122 0.0012599 482.29941164677905 101.13 0.090111 101.44 101.38 101.47 0.31412 0.064573 0.00042674 NaN 0.45452 13 3 5 NaN NaN NaN NaN 0 NaN NaN 0 7270000 26813 716 17353 17411 0.174465899363895 RFKALKEQRLR 11 Unmodified _RFKALKEQRLR_ 0 0 0 ENST00000563542.5_1_15:72185266-72338904:-|nuORF;nc|ENSG00000066933|B2RTY4-5|MYO9A;nc|ENSG00000066933|B2RTY4-2|MYO9A;ENSG00000066933|ENST00000356056|MYO9A;nc|ENSG00000066933|B2RTY4-4|MYO9A ENST00000563542.5_1_15:72185266-72338904:-|nuORF ENST00000563542.5_1_15:72185266-72338904:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 482.30016 1443.87865 3.3683 0.0016245 -1.9575 -0.00094409 1.4109 0.00068045 482.29919660558926 101.04 0.12482 101.64 101.59 101.71 0.59717 0.26091 -0.0005247 NaN 0.45452 15 5 4 NaN NaN NaN NaN 0 NaN NaN 0 5962300 26814 716 17353 17411 0.174465899363895 RFKDRRRRDYE 11 Unmodified _RFKDRRRRDYE_ 0 0 0 REV__SRRT|p.D363Vfs*14|1|0.06|ENSG00000087087|chr7:100884968-100884969|-/TTTTGTCATCATTAGA|frameshift_variant REV__SRRT|p.D363Vfs*14|1|0.06|ENSG00000087087|chr7:100884968-100884969|-/TTTTGTCATCATTAGA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 798.9263916015625 2 798.926929 1595.8393 NaN NaN NaN NaN NaN NaN NaN 47.148 1 47.977 47.477 48.477 0.82915 0 0 0 1.0082 1 21479 21479 0 0 1 + 26815 10662 17354 17412 30357 30357 0.06521837914874595 RFKEYLWRFLR 11 Unmodified _RFKEYLWRFLR_ 0 0 0 REV__ENSG00000167904|ENST00000434581|TMEM68 REV__ENSG00000167904|ENST00000434581|TMEM68 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 807.4611206054688 2 807.456802 1612.89905 NaN NaN NaN NaN NaN NaN NaN 28.545 1 29.334 28.834 29.834 0.78921 0 0 0 1.0082 1 12857 12857 0 0 1 + 26816 13315 17355 17413 30358 30358 0.11711760596199383 RFKEYLWRFLR 11 Unmodified _RFKEYLWRFLR_ 0 0 0 REV__ENSG00000167904|ENST00000434581|TMEM68 REV__ENSG00000167904|ENST00000434581|TMEM68 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 807.4617919921875 2 807.456802 1612.89905 NaN NaN NaN NaN NaN NaN NaN 78.327 1 78.58 78.08 79.08 0.25335 0 0 0 1.0082 1 36071 36071 0 0 1 + 26817 13315 17355 17413 30359 30359 0.11711760596199383 RFKEYLWRFLR 11 Unmodified _RFKEYLWRFLR_ 0 0 0 REV__ENSG00000167904|ENST00000434581|TMEM68 REV__ENSG00000167904|ENST00000434581|TMEM68 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 807.4624633789062 2 807.456802 1612.89905 NaN NaN NaN NaN NaN NaN NaN 78.442 1 78.695 78.195 79.195 0.25335 0 0 0 1.0082 1 36123 36123 0 0 1 + 26818 13315 17355 17413 30360 30360 0.11711760596199383 RFKFWRKWRRT 11 Unmodified _RFKFWRKWRRT_ 0 0 0 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 556.325927734375 3 556.323299 1665.94807 3.2238 0.0017935 0.030561 1.7002E-05 3.2544 0.0018105 556.3236621163163 41.131 0.2299 41.935 41.863 42.093 0.8035 43 16 4 0 0 0 0.91489 2 18645 18645;18714 0 0 1 2546500 + 26819 18017 17356 17414 30361;30362 30361 0.14173093675799464 RFKFWRKWRRT 11 Unmodified _RFKFWRKWRRT_ 0 0 0 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.3270874023438 3 556.323299 1665.94807 3.7336 0.0020771 0.10576 5.8837E-05 3.8394 0.0021359 556.3238352641845 42.068 0.036335 42.338 42.321 42.358 0.27021 5 3 2 0 0 0 0.91489 1 19190 19190 0 0 1 1650800 + 26820 18017 17356 17414 30363 30363 0.14173093675799464 RFKFWRKWRRT 11 Unmodified _RFKFWRKWRRT_ 0 0 0 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 833.9813842773438 2 833.98131 1665.94807 NaN NaN NaN NaN NaN NaN NaN 91.487 1 91.738 91.238 92.238 0.25163 0 0 0 1.0082 1 42067 42067 0 0 1 + 26821 18017 17356 17414 30364 30364 0.14173093675799464 RFKFWRKWRRT 11 Unmodified _RFKFWRKWRRT_ 0 0 0 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.3257446289062 3 556.323299 1665.94807 3.6798 0.0020471 0.018737 1.0424E-05 3.6985 0.0020576 556.3235208129455 41.264 0.20878 41.908 41.793 42.001 0.64451 26 10 3 0 0 0 0.91489 1 18876 18876 0 0 1 2260100 + 26822 18017 17356 17414 30365 30365 0.14173093675799464 RFKFWRKWRRT 11 Unmodified _RFKFWRKWRRT_ 0 0 0 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 834.300537109375 2 833.98131 1665.94807 NaN NaN NaN NaN NaN NaN NaN 101.73 1 102.32 101.82 102.82 0.59717 0 0 0 1.0082 1 47098 47098 0 0 1 + 26823 18017 17356 17414 30366 30366 0.14173093675799464 RFKFWRKWRRT 11 Unmodified _RFKFWRKWRRT_ 0 0 0 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 556.323299 1665.94807 3.2238 0.0017935 0.030561 1.7002E-05 3.2544 0.0018105 556.3236621163163 41.131 0.2299 41.935 41.863 42.093 0.8035 0.013426 8.4174E-06 NaN 0 43 16 4 NaN NaN NaN NaN 0 NaN NaN 0 2546500 + 26824 18017 17356 17414 0.14173093675799464 RFKFWRKWRRT 11 Unmodified _RFKFWRKWRRT_ 0 0 0 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 556.323299 1665.94807 3.6798 0.0020471 0.018737 1.0424E-05 3.6985 0.0020576 556.3235208129455 41.264 0.20878 41.908 41.793 42.001 0.64451 -0.013426 -1.1317E-05 NaN 0 26 10 3 NaN NaN NaN NaN 0 NaN NaN 0 2260100 + 26825 18017 17356 17414 0.14173093675799464 RFKKKKKKK 9 Unmodified _RFKKKKKKK_ 0 0 0 ENST00000341776.6_1_6:15521185-15521434:+|nuORF ENST00000341776.6_1_6:15521185-15521434:+|nuORF ENST00000341776.6_1_6:15521185-15521434:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 609.9290161132812 2 609.929692 1217.84483 NaN NaN NaN NaN NaN NaN NaN 83.76 1 84.007 83.507 84.507 0.24722 0 0 0 0.91452 1 38554 38554 0 0 1 26826 7078 17357 17415 30367 30367 0.24462213235301533 RFKKLNRQLFV 11 Unmodified _RFKKLNRQLFV_ 0 0 0 REV__ENSG00000127511|ENST00000248054|SIN3B REV__ENSG00000127511|ENST00000248054|SIN3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.6343994140625 3 483.633139 1447.87759 3.2617 0.0015775 -0.56666 -0.00027405 2.695 0.0013034 483.63306422984306 36.591 0.28502 37.221 37.109 37.394 0.62999 19 12 2 0 0 0 0.91359 1 16773 16773 0.40827 0 1 161400 + 26827 11741 17358 17416 30368 30368 0.17156375567492432 RFKKLNRQLFV 11 Unmodified _RFKKLNRQLFV_ 0 0 0 REV__ENSG00000127511|ENST00000248054|SIN3B REV__ENSG00000127511|ENST00000248054|SIN3B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 483.633139 1447.87759 3.2673 0.0015802 -1.0049 -0.00048601 2.2623 0.0010941 483.966761474555 37.445 0.23847 37.445 37.346 37.585 0 0.1121 -0.00043057 NaN 0.40827 14 8 2 NaN NaN NaN NaN 0 NaN NaN 0 277470 + 26828 11741 17358 17416 0.17156375567492432 RFKKLNRQLFV 11 Unmodified _RFKKLNRQLFV_ 0 0 0 REV__ENSG00000127511|ENST00000248054|SIN3B REV__ENSG00000127511|ENST00000248054|SIN3B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 483.633139 1447.87759 3.2617 0.0015775 -0.56666 -0.00027405 2.695 0.0013034 483.63306422984306 36.591 0.28502 37.221 37.109 37.394 0.62999 -0.1121 0.0002053 NaN 0.40827 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 161400 + 26829 11741 17358 17416 0.17156375567492432 RFKKVLKKYAL 11 Unmodified _RFKKVLKKYAL_ 0 0 0 REV__ENSG00000110448|ENST00000347785|CD5 REV__ENSG00000110448|ENST00000347785|CD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.3063659667969 3 465.306252 1392.89693 NaN NaN NaN NaN NaN NaN NaN 102.52 1 103.12 102.62 103.62 0.59759 0 0 0 1.0082 1 47450 47450 0 0 1 + 26830 11205 17359 17417 30369 30369 0.21619331858437363 RFKRRVLIQYL 11 Unmodified _RFKRRVLIQYL_ 0 0 0 ENST00000481429.1_1_X:134713888-134715555:+|nuORF;ENST00000494957.5_1_X:134713813-134716222:+|nuORF;nc|ENSG00000165359|Q5JSJ4-4|INTS6L;nc|ENSG00000165359|Q5JSJ4|INTS6L;ENSG00000165359|ENST00000639893|INTS6L ENST00000481429.1_1_X:134713888-134715555:+|nuORF ENST00000481429.1_1_X:134713888-134715555:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.3237609863281 3 497.980539 1490.91979 NaN NaN NaN NaN NaN NaN NaN 77.118 1 77.781 77.281 78.281 0.66303 0 0 0 1.0082 1 35538 35538 0.08335 0.08335 1 26831 4395 17360 17418 30370 30370 0.19396350975898713 RFLDDLGLKF 10 Unmodified _RFLDDLGLKF_ 0 0 0 ENSG00000046604|ENST00000261590|DSG2 ENSG00000046604|ENST00000261590|DSG2 ENSG00000046604|ENST00000261590|DSG2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 408.5652160644531 3 408.564279 1222.67101 2.1084 0.00086143 0.82644 0.00033766 2.9349 0.0011991 408.56461402383064 75.119 0.13676 75.119 75.067 75.204 0 16 11 2 0 0 0 0.15015 1 36812 36812 32.898 28.781 1 584030 26832 551 17361 17419 30371 30371 0.06857962948492968 RFLDDLGLKF 10 Unmodified _RFLDDLGLKF_ 0 0 0 ENSG00000046604|ENST00000261590|DSG2 ENSG00000046604|ENST00000261590|DSG2 ENSG00000046604|ENST00000261590|DSG2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 612.3441162109375 2 612.342781 1222.67101 3.0798 0.0018859 -0.31436 -0.00019249 2.7654 0.0016934 612.3420457869927 75.139 0.17284 75.139 75.042 75.215 0 24 14 2 0 0 0 0.055107 1 36830 36830 61.09 34.822 1 2072400 26833 551 17361 17419 30372 30372 0.06857962948492968 RFLDDLGLKF 10 Unmodified _RFLDDLGLKF_ 0 0 0 ENSG00000046604|ENST00000261590|DSG2 ENSG00000046604|ENST00000261590|DSG2 ENSG00000046604|ENST00000261590|DSG2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 612.3439331054688 2 612.342781 1222.67101 2.8456 0.0017425 -0.56826 -0.00034797 2.2774 0.0013945 612.3424491778128 74.19 0.13212 74.877 74.805 74.937 0.68662 18 10 2 0 0 0 0.48762 1 35857 35857 21.59 9.3495 1 1381900 26834 551 17361 17419 30373 30373 0.06857962948492968 RFLEQQNKL 9 Unmodified _RFLEQQNKL_ 0 0 0 ENSG00000135480|ENST00000331817|KRT7;CON__Q3KNV1;CON__P08729;ENSG00000161849|ENST00000257951|KRT84;CON__Q9NSB2;CON__Q6ISB0;ENSG00000170442|ENST00000423955|KRT86;CON__O43790;ENSG00000170523|ENST00000293670|KRT83;CON__Q6NT21;CON__P78385;ENSG00000205426|ENST00000327741|KRT81;CON__Q14533;ENSG00000135443|ENST00000257901|KRT85;CON__P78386;CON__Q61726 ENSG00000135480|ENST00000331817|KRT7;ENSG00000135443|ENST00000257901|KRT85;CON__Q61726 ENSG00000135480|ENST00000331817|KRT7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 392.89129638671875 3 392.555895 1174.64586 NaN NaN NaN NaN NaN NaN NaN 24.666 1 25.402 24.902 25.902 0.73623 0 0 0 0.078346 1 11054 11054 45.74 0 1 + 26835 216;223;238 17362 17420 30374 30374 0.06551908145956986 RFLEQQNKL 9 Unmodified _RFLEQQNKL_ 0 0 0 ENSG00000135480|ENST00000331817|KRT7;CON__Q3KNV1;CON__P08729;ENSG00000161849|ENST00000257951|KRT84;CON__Q9NSB2;CON__Q6ISB0;ENSG00000170442|ENST00000423955|KRT86;CON__O43790;ENSG00000170523|ENST00000293670|KRT83;CON__Q6NT21;CON__P78385;ENSG00000205426|ENST00000327741|KRT81;CON__Q14533;ENSG00000135443|ENST00000257901|KRT85;CON__P78386;CON__Q61726 ENSG00000135480|ENST00000331817|KRT7;ENSG00000135443|ENST00000257901|KRT85;CON__Q61726 ENSG00000135480|ENST00000331817|KRT7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.332763671875 2 588.330205 1174.64586 NaN NaN NaN NaN NaN NaN NaN 24.677 1 25.413 24.913 25.913 0.73623 0 0 0 0.29737 1 11059 11059 34.932 0 1 + 26836 216;223;238 17362 17420 30375 30375 0.06551908145956986 RFLEQQNKL 9 Unmodified _RFLEQQNKL_ 0 0 0 ENSG00000135480|ENST00000331817|KRT7;CON__Q3KNV1;CON__P08729;ENSG00000161849|ENST00000257951|KRT84;CON__Q9NSB2;CON__Q6ISB0;ENSG00000170442|ENST00000423955|KRT86;CON__O43790;ENSG00000170523|ENST00000293670|KRT83;CON__Q6NT21;CON__P78385;ENSG00000205426|ENST00000327741|KRT81;CON__Q14533;ENSG00000135443|ENST00000257901|KRT85;CON__P78386;CON__Q61726 ENSG00000135480|ENST00000331817|KRT7;ENSG00000135443|ENST00000257901|KRT85;CON__Q61726 ENSG00000135480|ENST00000331817|KRT7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.3328857421875 2 588.330205 1174.64586 NaN NaN NaN NaN NaN NaN NaN 25.477 1 25.745 25.245 26.245 0.26777 0 0 0 0.90197 1 11563 11563 4.897 0 1 + 26837 216;223;238 17362 17420 30376 30376 0.06551908145956986 RFLLLLPLLLP 11 Unmodified _RFLLLLPLLLP_ 0 0 0 ENSG00000106397|ENST00000223127|PLOD3 ENSG00000106397|ENST00000223127|PLOD3 ENSG00000106397|ENST00000223127|PLOD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 654.4443969726562 2 654.444309 1306.87407 NaN NaN NaN NaN NaN NaN NaN 54.815 1 55.081 54.581 55.581 0.26543 0 0 0 1.0082 1 25056 25056 0 0 1 26838 1568 17363 17421 30377 30377 0.23290312740959962 RFLNDPGHLLW 11 Unmodified _RFLNDPGHLLW_ 0 0 0 ENST00000498414.5_1_6:30314081-30314584:+|nuORF;ENST00000473266.1_1_6:30313175-30314584:+|nuORF;nc|ENSG00000241370|Q9H633-3|RPP21;ENSG00000241370|ENST00000442966|RPP21;nc|ENSG00000241370|Q9H633-4|RPP21;nc|ENSG00000241370|Q9H633-2|RPP21 ENST00000498414.5_1_6:30314081-30314584:+|nuORF ENST00000498414.5_1_6:30314081-30314584:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 684.3649291992188 2 684.364579 1366.7146 3.1086 0.0021274 -0.82085 -0.00056176 2.2878 0.0015657 684.363762578026 67.645 0.19105 67.645 67.606 67.797 0 36 22 2 0 0 0 0.039944 1 32501 32501 53.317 24.235 1 2929100 26839 6223 17364 17422 30378 30378 0.04591572445656311 RFLNDPGHLLW 11 Unmodified _RFLNDPGHLLW_ 0 0 0 ENST00000498414.5_1_6:30314081-30314584:+|nuORF;ENST00000473266.1_1_6:30313175-30314584:+|nuORF;nc|ENSG00000241370|Q9H633-3|RPP21;ENSG00000241370|ENST00000442966|RPP21;nc|ENSG00000241370|Q9H633-4|RPP21;nc|ENSG00000241370|Q9H633-2|RPP21 ENST00000498414.5_1_6:30314081-30314584:+|nuORF ENST00000498414.5_1_6:30314081-30314584:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.5798645019531 3 456.578811 1366.7146 2.2024 0.0010056 0.30245 0.00013809 2.5049 0.0011437 456.57904952555293 67.694 0.25484 67.694 67.564 67.819 0 67 31 3 0 0 0 0.0011214 1 32515 32515 64.692 54.927 1 3400900 26840 6223 17364 17422 30379 30379 0.04591572445656311 RFLNDPGHLLW 11 Unmodified _RFLNDPGHLLW_ 0 0 0 ENST00000498414.5_1_6:30314081-30314584:+|nuORF;ENST00000473266.1_1_6:30313175-30314584:+|nuORF;nc|ENSG00000241370|Q9H633-3|RPP21;ENSG00000241370|ENST00000442966|RPP21;nc|ENSG00000241370|Q9H633-4|RPP21;nc|ENSG00000241370|Q9H633-2|RPP21 ENST00000498414.5_1_6:30314081-30314584:+|nuORF ENST00000498414.5_1_6:30314081-30314584:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 684.8614501953125 2 684.364579 1366.7146 3.0344 0.0020767 -0.43717 -0.00029918 2.5973 0.0017775 684.3644321692661 66.598 0.18482 67.303 67.189 67.374 0.7047 33 22 2 0 0 0 0.14478 2 31537 31537;31558 34.222 21.179 1 2090800 26841 6223 17364 17422 30380;30381 30380 0.04591572445656311 RFLNDPGHLLW 11 Unmodified _RFLNDPGHLLW_ 0 0 0 ENST00000498414.5_1_6:30314081-30314584:+|nuORF;ENST00000473266.1_1_6:30313175-30314584:+|nuORF;nc|ENSG00000241370|Q9H633-3|RPP21;ENSG00000241370|ENST00000442966|RPP21;nc|ENSG00000241370|Q9H633-4|RPP21;nc|ENSG00000241370|Q9H633-2|RPP21 ENST00000498414.5_1_6:30314081-30314584:+|nuORF ENST00000498414.5_1_6:30314081-30314584:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.5797424316406 3 456.578811 1366.7146 2.1184 0.00096721 0.10324 4.7138E-05 2.2216 0.0010143 456.57876653533043 66.57 0.28789 67.275 67.13 67.418 0.7047 89 34 3 0 0 0 0.0164 2 31541 31541;31599 50.13 46.284 1 4045500 26842 6223 17364 17422 30382;30383 30382 0.04591572445656311 RFLNDPGHLLW 11 Unmodified _RFLNDPGHLLW_ 0 0 0 ENST00000498414.5_1_6:30314081-30314584:+|nuORF;ENST00000473266.1_1_6:30313175-30314584:+|nuORF;nc|ENSG00000241370|Q9H633-3|RPP21;ENSG00000241370|ENST00000442966|RPP21;nc|ENSG00000241370|Q9H633-4|RPP21;nc|ENSG00000241370|Q9H633-2|RPP21 ENST00000498414.5_1_6:30314081-30314584:+|nuORF ENST00000498414.5_1_6:30314081-30314584:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.58056640625 3 456.578811 1366.7146 3.0053 0.0013721 0.24256 0.00011075 3.2478 0.0014829 456.5789257150271 67.55 0.27174 67.8 67.639 67.911 0.25011 32 13 3 0 0 0 0.022526 2 30959 30909;30959 53.47 48.754 1 1201400 26843 6223 17364 17422 30384;30385 30385 0.04591572445656311 RFLNDPGHLLW 11 Unmodified _RFLNDPGHLLW_ 0 0 0 ENST00000498414.5_1_6:30314081-30314584:+|nuORF;ENST00000473266.1_1_6:30313175-30314584:+|nuORF;nc|ENSG00000241370|Q9H633-3|RPP21;ENSG00000241370|ENST00000442966|RPP21;nc|ENSG00000241370|Q9H633-4|RPP21;nc|ENSG00000241370|Q9H633-2|RPP21 ENST00000498414.5_1_6:30314081-30314584:+|nuORF ENST00000498414.5_1_6:30314081-30314584:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 684.3667602539062 2 684.364579 1366.7146 4.0181 0.0027499 -0.14796 -0.00010126 3.8702 0.0026486 684.3647115299374 67.502 0.2114 67.752 67.664 67.875 0.25011 19 9 3 0 0 0 0.13712 1 30933 30933 35.612 18.499 1 820190 26844 6223 17364 17422 30386 30386 0.04591572445656311 RFLNDPGHLLW 11 Unmodified _RFLNDPGHLLW_ 0 0 0 ENST00000498414.5_1_6:30314081-30314584:+|nuORF;ENST00000473266.1_1_6:30313175-30314584:+|nuORF;nc|ENSG00000241370|Q9H633-3|RPP21;ENSG00000241370|ENST00000442966|RPP21;nc|ENSG00000241370|Q9H633-4|RPP21;nc|ENSG00000241370|Q9H633-2|RPP21 ENST00000498414.5_1_6:30314081-30314584:+|nuORF ENST00000498414.5_1_6:30314081-30314584:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.58038330078125 3 456.578811 1366.7146 2.9729 0.0013574 -0.23893 -0.00010909 2.734 0.0012483 456.5789689509192 66.895 0.25705 67.552 67.414 67.671 0.65672 38 14 4 0 0 0 0.0037149 1 30664 30664 57.204 50.58 1 1175900 26845 6223 17364 17422 30387 30387 0.04591572445656311 RFLNDPGHLLW 11 Unmodified _RFLNDPGHLLW_ 0 0 0 ENST00000498414.5_1_6:30314081-30314584:+|nuORF;ENST00000473266.1_1_6:30313175-30314584:+|nuORF;nc|ENSG00000241370|Q9H633-3|RPP21;ENSG00000241370|ENST00000442966|RPP21;nc|ENSG00000241370|Q9H633-4|RPP21;nc|ENSG00000241370|Q9H633-2|RPP21 ENST00000498414.5_1_6:30314081-30314584:+|nuORF ENST00000498414.5_1_6:30314081-30314584:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 684.3658447265625 2 684.364579 1366.7146 3.9671 0.0027149 0.2596 0.00017766 4.2266 0.0028926 684.3645887621832 66.869 0.24523 67.526 67.438 67.683 0.65672 21 13 2 0 0 0 0.26935 1 30668 30668 26.021 13.78 1 706920 26846 6223 17364 17422 30388 30388 0.04591572445656311 RFLPHGQLLF 10 Unmodified _RFLPHGQLLF_ 0 0 0 ENSG00000125843|ENST00000615891|AP5S1 ENSG00000125843|ENST00000615891|AP5S1 ENSG00000125843|ENST00000615891|AP5S1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 613.90087890625 2 614.353483 1226.69241 NaN NaN NaN NaN NaN NaN NaN 58.587 1 59.254 58.754 59.754 0.66703 0 0 0 0.99812 1 26819 26819 3.2813 1.9518 1 26847 2426 17365 17423 30389 30389 0.08813392767888217 RFLRRLYKYRK 11 Unmodified _RFLRRLYKYRK_ 0 0 0 REV__ENSG00000115446|ENST00000357765|UNC50 REV__ENSG00000115446|ENST00000357765|UNC50 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 799.9491577148438 2 799.991343 1597.96813 NaN NaN NaN NaN NaN NaN NaN 106.97 1 107.57 107.07 108.07 0.60074 0 0 0 1.0082 1 49379 49379 0 0 1 + 26848 11366 17366 17424 30390 30390 0.1930684461576675 RFLVKSHYI 9 Unmodified _RFLVKSHYI_ 0 0 0 nc|ENSG00000181827|Q2KHR2-1|RFX7;nc|ENSG00000181827|Q2KHR2-2|RFX7;ENSG00000181827|ENST00000559447|RFX7 nc|ENSG00000181827|Q2KHR2-1|RFX7 nc|ENSG00000181827|Q2KHR2-1|RFX7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 388.2301940917969 3 388.229231 1161.66586 2.6307 0.0010213 0.43137 0.00016747 3.0621 0.0011888 388.22954782475426 28.871 0.33348 29.66 29.53 29.864 0.78921 30 25 2 0 0 0 1.0252 1 12998 12998 3.5871 2.6248 1 234080 26849 5302 17367 17425 30391 30391 0.09149703876573767 RFMIISVV 8 Unmodified _RFMIISVV_ 0 0 0 REV__nc|ENSG00000134249|Q9UKF2-2|ADAM30 REV__nc|ENSG00000134249|Q9UKF2-2|ADAM30 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 322.1943664550781 3 322.193129 963.557558 NaN NaN NaN NaN NaN NaN NaN 32.916 1 33.535 33.035 34.035 0.61831 0 0 0 0.99035 1 15088 15088 0.40072 0 1 + 26850 11958 17368 17426 30392 30392 0.07432196301795102 RFMKLLLTRRA 11 Unmodified _RFMKLLLTRRA_ 0 0 0 nc|ENSG00000119509|Q9Y283-2|INVS;INVS|p.K916Rfs*27|1|0.41|ENSG00000119509|chr9:100293000-100293000|A/-|frameshift_variant;ENSG00000119509|ENST00000262457|INVS nc|ENSG00000119509|Q9Y283-2|INVS nc|ENSG00000119509|Q9Y283-2|INVS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.96026611328125 3 468.958858 1403.85474 3.6644 0.0017184 0.088403 4.1458E-05 3.7528 0.0017599 468.95879438563213 105.78 0.18566 106.1 105.99 106.17 0.31782 24 7 4 0 0 0 0.91403 1 48818 48818 0.073264 0 1 2439800 26851 2145 17369 17427 30393 30393 0.16897033178361198 RFPGSQCYSK 10 Unmodified _RFPGSQCYSK_ 0 0 0 REV__nc|ENSG00000249715|A0AVI2-4|FER1L5 REV__nc|ENSG00000249715|A0AVI2-4|FER1L5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.7772827148438 2 586.77949 1171.54443 NaN NaN NaN NaN NaN NaN NaN 27.381 1 28.002 27.502 28.502 0.62179 0 0 0 0.9952 1 12553 12553 5.7319 0.97584 1 + 26852 14648 17370 17428 30394 30394 -0.03448286548291435 RFPKKWVA 8 Unmodified _RFPKKWVA_ 0 0 0 REV__nc|ENSG00000205702|A0A087X1C5|CYP2D7 REV__nc|ENSG00000205702|A0A087X1C5|CYP2D7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.3114013671875 2 516.311087 1030.60762 NaN NaN NaN NaN NaN NaN NaN 99.455 1 100.05 99.552 100.55 0.59748 0 0 0 0.99035 1 45990 45990 2.5775 0.51773 1 + 26853 18113 17371 17429 30395 30395 0.09354067021945411 RFPRRRILKTI 11 Unmodified _RFPRRRILKTI_ 0 0 0 REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.2426452636719 3 485.984283 1454.93102 NaN NaN NaN NaN NaN NaN NaN 56.41 1 57.188 56.688 57.688 0.77786 0 0 0 1.0072 1 25790 25790 1.3296 0.82369 1 + 26854 11619 17372 17430 30396 30396 0.22175173070013443 RFPRRRRHFV 10 Unmodified _RFPRRRRHFV_ 0 0 0 ENST00000589863.5_1_19:5623107-5623161:+|nuORF ENST00000589863.5_1_19:5623107-5623161:+|nuORF ENST00000589863.5_1_19:5623107-5623161:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 713.92626953125 2 713.923795 1425.83304 NaN NaN NaN NaN NaN NaN NaN 104.88 1 105.19 104.69 105.69 0.31782 0 0 0 1.0015 1 48411 48411 0.40072 0.093686 1 26855 9219 17373 17431 30397 30397 0.13715409264659684 RFQVIHRRRR 10 Unmodified _RFQVIHRRRR_ 0 0 0 ENST00000285737.8_1_16:48330010-48333596:+|nuORF ENST00000285737.8_1_16:48330010-48333596:+|nuORF ENST00000285737.8_1_16:48330010-48333596:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 712.4373779296875 2 712.434527 1422.8545 NaN NaN NaN NaN NaN NaN NaN 70.454 1 70.711 70.211 71.211 0.25642 0 0 0 1.0015 1 32267 32267 0.40072 0.093686 1 26856 6718 17374 17432 30398 30398 0.1599879429338671 RFRKWLYKPKR 11 Unmodified _RFRKWLYKPKR_ 0 0 0 nc|ENSG00000159733|Q9HCC9-6|ZFYVE28;nc|ENSG00000159733|Q9HCC9-2|ZFYVE28;ENSG00000159733|ENST00000290974|ZFYVE28 nc|ENSG00000159733|Q9HCC9-6|ZFYVE28 nc|ENSG00000159733|Q9HCC9-6|ZFYVE28 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.56182861328125 4 395.243944 1576.94667 2.9568 0.0011687 2.127 0.00084067 5.0838 0.0020093 395.2447215199131 64.22 0.42122 64.877 64.851 65.272 0.65672 28 23 2 0 0 0 0.13295 1 29588 29588 0 0 1 1765200 26857 4033 17375 17433 30399 30399 0.18127459587049088 RFRQEWFERFW 11 Unmodified _RFRQEWFERFW_ 0 0 0 REV__ENSG00000164082|ENST00000395052|GRM2 REV__ENSG00000164082|ENST00000395052|GRM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 843.9185180664062 2 843.918041 1685.82153 NaN NaN NaN NaN NaN NaN NaN 46.994 1 47.258 46.758 47.758 0.26363 0 0 0 1.0082 1 21477 21477 0 0 1 + 26858 13059 17376 17434 30400 30400 0.006051226600220616 RFRRKFHQG 9 Unmodified _RFRRKFHQG_ 0 0 0 REV__ENST00000598647.1_1_19:50215929-50216859:+|nuORF REV__ENST00000598647.1_1_19:50215929-50216859:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 616.2506103515625 2 616.349597 1230.68464 NaN NaN NaN NaN NaN NaN NaN 17.406 1 17.406 16.906 17.906 0 0 0 0 0.91238 1 7732 7732 0.52476 0.066424 1 + 26859 17623 17377 17435 30401 30401 0.07852678290964832 RFRRLDRRWFA 11 Unmodified _RFRRLDRRWFA_ 0 0 0 REV__ENST00000505007.5_1_5:138941007-138941097:+|nuORF REV__ENST00000505007.5_1_5:138941007-138941097:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 789.9490966796875 2 789.947467 1577.88038 NaN NaN NaN NaN NaN NaN NaN 73.085 1 73.085 72.585 73.585 0 0 0 0 1.008 1 35587 35587 0.30703 0.30703 1 + 26860 16915 17378 17436 30402 30402 0.11455643745011912 RFRRYVIKLH 10 Unmodified _RFRRYVIKLH_ 0 0 0 REV__ENSG00000145592|ENST00000274242|RPL37 REV__ENSG00000145592|ENST00000274242|RPL37 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 694.2910766601562 2 694.425305 1386.83606 NaN NaN NaN NaN NaN NaN NaN 92.913 1 93.167 92.667 93.667 0.25497 0 0 0 1.0015 1 42707 42707 0.45834 0 1 + 26861 12447 17379 17437 30403 30403 0.15811239598815519 RFTLPLVL 8 Unmodified _RFTLPLVL_ 0 0 0 REV__nc|ENSG00000167984|Q7RTR2-3|NLRC3 REV__nc|ENSG00000167984|Q7RTR2-3|NLRC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 320.2066955566406 3 320.207656 957.601138 NaN NaN NaN NaN NaN NaN NaN 23.251 1 23.937 23.437 24.437 0.68536 0 0 0 0.99035 1 10363 10363 0.45834 0 1 + 26862 13320 17380 17438 30404 30404 0.12064129070552099 RFVNVVPTF 9 Unmodified _RFVNVVPTF_ 0 0 0 ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.807373046875 2 539.805834 1077.59712 3.4469 0.0018606 -0.90602 -0.00048907 2.5409 0.0013716 539.8056289842626 65.626 0.2944 66.283 66.096 66.39 0.65672 27 15 3 0 0 0 0.025323 1 30083 30083 61.357 11.424 1 764300 26863 3659 17381 17439 30405 30405 0.06142039576843672 RFVNVVPTF 9 Unmodified _RFVNVVPTF_ 0 0 0 ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU ENSG00000149806|ENST00000529639|FAU MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 539.805834 1077.59712 3.3472 0.0018068 -0.24007 -0.00012959 3.1071 0.0016773 539.805539706839 66.206 0.25482 66.454 66.347 66.602 0.24847 0.085796 0.00033671 NaN 61.357 25 15 2 NaN NaN NaN NaN 0 NaN NaN 0 800980 26864 3659 17381 17439 0.06142039576843672 RFVPKFKVL 9 Unmodified _RFVPKFKVL_ 0 0 0 INO80|p.L861Sfs*29|1|0.04|ENSG00000128908|chr15:41048271-41048272|-/TTTATAAAATCTTGATAAG|frameshift_variant;ENSG00000128908|ENST00000648947|INO80 INO80|p.L861Sfs*29|1|0.04|ENSG00000128908|chr15:41048271-41048272|-/TTTATAAAATCTTGATAAG|frameshift_variant INO80|p.L861Sfs*29|1|0.04|ENSG00000128908|chr15:41048271-41048272|-/TTTATAAAATCTTGATAAG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.5792236328125 3 378.577972 1132.71209 2.8607 0.001083 1.1215 0.00042458 3.9822 0.0015076 378.57833030460756 44.179 0.51241 44.829 44.662 45.174 0.64998 58 23 3 0 0 0 1.1154 1 20337 20337 1.0715 1.0715 1 5171800 26865 2531 17382 17440 30406 30406 0.15103768778658377 RFVPKFKVL 9 Unmodified _RFVPKFKVL_ 0 0 0 INO80|p.L861Sfs*29|1|0.04|ENSG00000128908|chr15:41048271-41048272|-/TTTATAAAATCTTGATAAG|frameshift_variant;ENSG00000128908|ENST00000648947|INO80 INO80|p.L861Sfs*29|1|0.04|ENSG00000128908|chr15:41048271-41048272|-/TTTATAAAATCTTGATAAG|frameshift_variant INO80|p.L861Sfs*29|1|0.04|ENSG00000128908|chr15:41048271-41048272|-/TTTATAAAATCTTGATAAG|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 378.577972 1132.71209 2.7005 0.0010223 1.3076 0.00049503 4.0081 0.0015174 378.5783977322058 45.006 0.4085 45.006 44.818 45.226 0 0.091323 1.3465E-05 NaN 1.0715 66 21 4 NaN NaN NaN NaN 0 NaN NaN 0 17999000 26866 2531 17382 17440 0.15103768778658377 RFVPKFKVL 9 Unmodified _RFVPKFKVL_ 0 0 0 INO80|p.L861Sfs*29|1|0.04|ENSG00000128908|chr15:41048271-41048272|-/TTTATAAAATCTTGATAAG|frameshift_variant;ENSG00000128908|ENST00000648947|INO80 INO80|p.L861Sfs*29|1|0.04|ENSG00000128908|chr15:41048271-41048272|-/TTTATAAAATCTTGATAAG|frameshift_variant INO80|p.L861Sfs*29|1|0.04|ENSG00000128908|chr15:41048271-41048272|-/TTTATAAAATCTTGATAAG|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 378.577972 1132.71209 2.3503 0.00088976 1.4024 0.00053092 3.7527 0.0014207 378.57843350003225 44.089 0.52215 44.909 44.746 45.268 0.82074 -0.0054763 0.00012115 NaN 1.0715 86 31 4 NaN NaN NaN NaN 0 NaN NaN 0 12597000 26867 2531 17382 17440 0.15103768778658377 RFVRRLLYFYK 11 Unmodified _RFVRRLLYFYK_ 0 0 0 ENSG00000164327|ENST00000357387|RICTOR;nc|ENSG00000164327|Q6R327-3|RICTOR ENSG00000164327|ENST00000357387|RICTOR ENSG00000164327|ENST00000357387|RICTOR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.1837158203125 3 520.976906 1559.90889 NaN NaN NaN NaN NaN NaN NaN 76.905 1 76.905 76.405 77.405 0 0 0 0 1.0079 1 37698 37698 0.50596 0.41111 1 26868 4306 17383 17441 30407 30407 0.15132948601603857 RFWDAMKG 8 Unmodified _RFWDAMKG_ 0 0 0 REV__ENSG00000150455|ENST00000392679|TIRAP REV__ENSG00000150455|ENST00000392679|TIRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 337.5014953613281 3 337.500733 1009.48037 2.488 0.00083969 0.29793 0.00010055 2.7859 0.00094024 337.50075916740275 13.119 0.25773 13.762 13.612 13.87 0.64272 22 16 2 0 0 0 0.72814 1 5895 5895 3.5965 0.8613 1 1086000 + 26869 12588 17384 17442 30408 30408 -0.023990219145503033 RFWDQWYLWYL 11 Unmodified _RFWDQWYLWYL_ 0 0 0 nc|ENSG00000160145|O60229|KALRN;nc|ENSG00000160145|O60229-2|KALRN;ENST00000488825.5_1_3:123813684-123881061:+|nuORF nc|ENSG00000160145|O60229|KALRN nc|ENSG00000160145|O60229|KALRN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 838.4097290039062 2 838.406444 1674.79833 NaN NaN NaN NaN NaN NaN NaN 37.251 1 37.512 37.012 38.012 0.26083 0 0 0 1.0082 1 16967 16967 0 0 1 26870 9710 17385 17443 30409 30409 -0.012073161772832464 RFWDQWYLWYL 11 Unmodified _RFWDQWYLWYL_ 0 0 0 nc|ENSG00000160145|O60229|KALRN;nc|ENSG00000160145|O60229-2|KALRN;ENST00000488825.5_1_3:123813684-123881061:+|nuORF nc|ENSG00000160145|O60229|KALRN nc|ENSG00000160145|O60229|KALRN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 838.4095458984375 2 838.406444 1674.79833 NaN NaN NaN NaN NaN NaN NaN 35.646 1 36.273 35.773 36.773 0.62631 0 0 0 1.0082 1 16327 16327 0 0 1 26871 9710 17385 17443 30410 30410 -0.012073161772832464 RFWDQWYLWYL 11 Unmodified _RFWDQWYLWYL_ 0 0 0 nc|ENSG00000160145|O60229|KALRN;nc|ENSG00000160145|O60229-2|KALRN;ENST00000488825.5_1_3:123813684-123881061:+|nuORF nc|ENSG00000160145|O60229|KALRN nc|ENSG00000160145|O60229|KALRN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 838.47265625 2 838.406444 1674.79833 NaN NaN NaN NaN NaN NaN NaN 101.69 1 102.29 101.79 102.79 0.59717 0 0 0 1.0082 1 47084 47084 0 0 1 26872 9710 17385 17443 30411 30411 -0.012073161772832464 RFWKLILLTWL 11 Unmodified _RFWKLILLTWL_ 0 0 0 ENST00000465952.5_1_13:31205167-31205455:+|nuORF ENST00000465952.5_1_13:31205167-31205455:+|nuORF ENST00000465952.5_1_13:31205167-31205455:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.9769287109375 3 496.974502 1487.90168 4.0579 0.0020167 0.43405 0.00021571 4.492 0.0022324 496.9746213995985 101.27 0.13209 101.59 101.5 101.63 0.31412 15 4 5 0 0 0 0.91459 1 46860 46860 0.094841 0 1 6802400 26873 8130 17386 17444 30412 30412 0.17724216001192872 RFWKLILLTWL 11 Unmodified _RFWKLILLTWL_ 0 0 0 ENST00000465952.5_1_13:31205167-31205455:+|nuORF ENST00000465952.5_1_13:31205167-31205455:+|nuORF ENST00000465952.5_1_13:31205167-31205455:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 496.974502 1487.90168 2.6757 0.0013298 0.99578 0.00049488 3.6715 0.0018246 496.9748411446114 101.36 0.087013 101.36 101.31 101.4 0 -0.16179 0.00059247 NaN 0.094841 7 3 3 NaN NaN NaN NaN 0 NaN NaN 0 5040800 26874 8130 17386 17444 0.17724216001192872 RFWKLILLTWL 11 Unmodified _RFWKLILLTWL_ 0 0 0 ENST00000465952.5_1_13:31205167-31205455:+|nuORF ENST00000465952.5_1_13:31205167-31205455:+|nuORF ENST00000465952.5_1_13:31205167-31205455:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 496.974502 1487.90168 1.816 0.00090248 1.2742 0.00063326 3.0902 0.0015357 496.97475012739096 101.29 0.064117 101.35 101.32 101.38 0.059723 -0.17188 0.0010076 NaN 0.094841 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 8881100 26875 8130 17386 17444 0.17724216001192872 RFWKLILLTWL 11 Unmodified _RFWKLILLTWL_ 0 0 0 ENST00000465952.5_1_13:31205167-31205455:+|nuORF ENST00000465952.5_1_13:31205167-31205455:+|nuORF ENST00000465952.5_1_13:31205167-31205455:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 496.974502 1487.90168 4.0579 0.0020167 0.43405 0.00021571 4.492 0.0022324 496.9746213995985 101.27 0.13209 101.59 101.5 101.63 0.31412 0.063301 -0.00024503 NaN 0.094841 15 4 5 NaN NaN NaN NaN 0 NaN NaN 0 6802400 26876 8130 17386 17444 0.17724216001192872 RFWKLILLTWL 11 Unmodified _RFWKLILLTWL_ 0 0 0 ENST00000465952.5_1_13:31205167-31205455:+|nuORF ENST00000465952.5_1_13:31205167-31205455:+|nuORF ENST00000465952.5_1_13:31205167-31205455:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 496.974502 1487.90168 3.4263 0.0017028 0.41343 0.00020547 3.8397 0.0019082 496.97461575570276 101.2 0.072929 101.8 101.74 101.81 0.59717 0.27037 -0.00027577 NaN 0.094841 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 10070000 26877 8130 17386 17444 0.17724216001192872 RFWPRWRRWPP 11 Unmodified _RFWPRWRRWPP_ 0 0 0 REV__ENST00000532024.1_1_11:70118214-70118385:+|nuORF REV__ENST00000532024.1_1_11:70118214-70118385:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 820.4502563476562 2 820.447103 1638.87965 NaN NaN NaN NaN NaN NaN NaN 77.204 1 77.204 76.704 77.704 0 0 0 0 1.008 1 37853 37853 0.30703 0 1 + 26878 17147 17387 17445 30413 30413 0.08576849095948091 RFWVRHRRLLL 11 Unmodified _RFWVRHRRLLL_ 0 0 0 REV__ENST00000466933.1_1_20:60758097-60768815:+|nuORF REV__ENST00000466933.1_1_20:60758097-60768815:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 776.3240356445312 2 776.478403 1550.94225 NaN NaN NaN NaN NaN NaN NaN 87.262 1 87.262 86.762 87.762 0 0 0 0 1.0082 1 44948 44948 0 0 1 + 26879 16549 17388 17446 30414 30414 0.18881995164178988 RFWWRRRKKIM 11 Unmodified _RFWWRRRKKIM_ 0 0 0 REV__ENST00000229634.13_1_6:126136448-126199430:+|nuORF REV__ENST00000229634.13_1_6:126136448-126199430:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 831.98779296875 2 831.985538 1661.95652 NaN NaN NaN NaN NaN NaN NaN 97.972 1 97.972 97.472 98.472 0 0 0 0 1.0082 1 53508 53508 0 0 1 + 26880 14852 17389 17447 30415 30415 0.1520232432078501 RFWWRRRKKIM 11 Unmodified _RFWWRRRKKIM_ 0 0 0 REV__ENST00000229634.13_1_6:126136448-126199430:+|nuORF REV__ENST00000229634.13_1_6:126136448-126199430:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 831.9895629882812 2 831.985538 1661.95652 NaN NaN NaN NaN NaN NaN NaN 14.382 1 14.608 14.108 15.108 0.22622 0 0 0 1.0082 1 6319 6319 0 0 1 + 26881 14852 17389 17447 30416 30416 0.1520232432078501 RFWWRRRKKIM 11 Unmodified _RFWWRRRKKIM_ 0 0 0 REV__ENST00000229634.13_1_6:126136448-126199430:+|nuORF REV__ENST00000229634.13_1_6:126136448-126199430:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.9946899414062 3 554.992784 1661.95652 NaN NaN NaN NaN NaN NaN NaN 61.712 1 62.443 61.943 62.943 0.73077 0 0 0 1.0082 1 28659 28659 0 0 1 + 26882 14852 17389 17447 30417 30417 0.1520232432078501 RFWWRRRKKIM 11 Unmodified _RFWWRRRKKIM_ 0 0 0 REV__ENST00000229634.13_1_6:126136448-126199430:+|nuORF REV__ENST00000229634.13_1_6:126136448-126199430:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.910888671875 3 554.992784 1661.95652 NaN NaN NaN NaN NaN NaN NaN 14.107 1 14.414 13.914 14.914 0.3069 0 0 0 1.0082 1 6380 6380 0 0 1 + 26883 14852 17389 17447 30418 30418 0.1520232432078501 RFWWRRRKKIM 11 Unmodified _RFWWRRRKKIM_ 0 0 0 REV__ENST00000229634.13_1_6:126136448-126199430:+|nuORF REV__ENST00000229634.13_1_6:126136448-126199430:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.9927368164062 3 554.992784 1661.95652 NaN NaN NaN NaN NaN NaN NaN 24.774 1 25.045 24.545 25.545 0.27129 0 0 0 1.0082 1 11232 11232 0 0 1 + 26884 14852 17389 17447 30419 30419 0.1520232432078501 RFWWRRRKKIM 11 Unmodified _RFWWRRRKKIM_ 0 0 0 REV__ENST00000229634.13_1_6:126136448-126199430:+|nuORF REV__ENST00000229634.13_1_6:126136448-126199430:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 831.9833984375 2 831.985538 1661.95652 NaN NaN NaN NaN NaN NaN NaN 56.43 1 56.696 56.196 57.196 0.26543 0 0 0 1.0082 1 25816 25816 0 0 1 + 26885 14852 17389 17447 30420 30420 0.1520232432078501 RFWWRRRKKIM 11 Unmodified _RFWWRRRKKIM_ 0 0 0 REV__ENST00000229634.13_1_6:126136448-126199430:+|nuORF REV__ENST00000229634.13_1_6:126136448-126199430:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 831.986083984375 2 831.985538 1661.95652 NaN NaN NaN NaN NaN NaN NaN 54.41 1 55.077 54.577 55.577 0.6665 0 0 0 1.0082 1 24888 24888 0 0 1 + 26886 14852 17389 17447 30421 30421 0.1520232432078501 RFYIILVI 8 Unmodified _RFYIILVI_ 0 0 0 REV__ENST00000480785.5_1_6:32916643-32917198:-|nuORF REV__ENST00000480785.5_1_6:32916643-32917198:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.2142639160156 3 346.223306 1035.64809 NaN NaN NaN NaN NaN NaN NaN 22.969 1 23.61 23.11 24.11 0.64051 0 0 0 0.86524 1 10472 10472 10.824 0 1 + 26887 14407 17390 17448 30422 30422 0.1316898862171456 RFYRRQIRNWP 11 Unmodified _RFYRRQIRNWP_ 0 0 0 REV__ENST00000487362.1_1_20:36640605-36642218:-|nuORF REV__ENST00000487362.1_1_20:36640605-36642218:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 796.4425048828125 2 796.439475 1590.8644 NaN NaN NaN NaN NaN NaN NaN 94.845 1 95.463 94.963 95.963 0.61736 0 0 0 1.008 1 43617 43617 0.30703 0 1 + 26888 10893 17391 17449 30423 30423 0.0925993750811358 RGALLLLSIYF 11 Unmodified _RGALLLLSIYF_ 0 0 0 ENST00000509573.5_1_5:138855949-138860944:-|nuORF;ENSG00000184584|ENST00000330794|STING1;ENST00000507297.5_1_5:138860740-138860965:-|nuORF;ENST00000511850.1_1_5:138858703-138860965:-|nuORF;ENST00000515507.5_1_5:138860386-138861812:-|nuORF ENST00000509573.5_1_5:138855949-138860944:-|nuORF ENST00000509573.5_1_5:138855949-138860944:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.9410400390625 2 633.384448 1264.75434 3.9114 0.0024774 0.82224 0.00052079 4.7336 0.0029982 633.8868316022827 53.112 0.49307 53.112 52.876 53.369 0 42 29 2 0 0 0 0.85254 1 24311 24311 4.5289 1.2476 1 553000 26889 5452 17392 17450 30424 30424 0.13255699396381715 RGALLLLSIYF 11 Unmodified _RGALLLLSIYF_ 0 0 0 ENST00000509573.5_1_5:138855949-138860944:-|nuORF;ENSG00000184584|ENST00000330794|STING1;ENST00000507297.5_1_5:138860740-138860965:-|nuORF;ENST00000511850.1_1_5:138858703-138860965:-|nuORF;ENST00000515507.5_1_5:138860386-138861812:-|nuORF ENST00000509573.5_1_5:138855949-138860944:-|nuORF ENST00000509573.5_1_5:138855949-138860944:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5936584472656 3 422.592058 1264.75434 3.1285 0.0013221 0.93475 0.00039502 4.0632 0.0017171 422.5923230632158 46.85 0.61535 47.115 46.784 47.4 0.26545 52 20 5 0 0 0 0.83518 1 21426 21426 2.4348 0.8425 1 6789200 26890 5452 17392 17450 30425 30425 0.13255699396381715 RGALLLLSIYF 11 Unmodified _RGALLLLSIYF_ 0 0 0 ENST00000509573.5_1_5:138855949-138860944:-|nuORF;ENSG00000184584|ENST00000330794|STING1;ENST00000507297.5_1_5:138860740-138860965:-|nuORF;ENST00000511850.1_1_5:138858703-138860965:-|nuORF;ENST00000515507.5_1_5:138860386-138861812:-|nuORF ENST00000509573.5_1_5:138855949-138860944:-|nuORF ENST00000509573.5_1_5:138855949-138860944:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 633.384448 1264.75434 3.7143 0.0023526 1.5557 0.00098534 5.2699 0.0033379 633.3852154255327 52.043 0.11751 52.705 52.66 52.778 0.66198 -0.15238 0.0003706 NaN 4.5289 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 159190 26891 5452 17392 17450 0.13255699396381715 RGARGKAP 8 Unmodified _RGARGKAP_ 0 0 0 REV__ENST00000510666.1_1_5:68840710-68849495:+|nuORF REV__ENST00000510666.1_1_5:68840710-68849495:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.7475891113281 2 406.746111 811.477669 3.472 0.0014122 0.20505 8.3402E-05 3.677 0.0014956 406.746061568335 91.816 0.4162 92.068 91.89 92.306 0.25253 44 19 3 0 0 0 0.7471 1 42177 42177 0.69038 0 1 1256600 + 26892 14301 17393 17451 30426 30426 0.06438890742799686 RGCHPDWDPP 10 Unmodified _RGCHPDWDPP_ 0 0 0 ENST00000607780.5_1_2:96685347-96687379:+|nuORF ENST00000607780.5_1_2:96685347-96687379:+|nuORF ENST00000607780.5_1_2:96685347-96687379:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.83929443359375 3 393.838185 1178.49273 NaN NaN NaN NaN NaN NaN NaN 6.0422 1 6.6658 6.1658 7.1658 0.62357 0 0 0 1.0018 1 2739 2739 0.15932 0 1 26893 9338 17394 17452 30427 30427 -0.08938030242188688 RGEEEECGSED 11 Unmodified _RGEEEECGSED_ 0 0 0 REV__nc|ENSG00000116852|O75037-3|KIF21B REV__nc|ENSG00000116852|O75037-3|KIF21B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 620.22216796875 2 620.225139 1238.43572 3.7227 0.0023089 -3.7737 -0.0023405 -0.050915 -3.1579E-05 620.2227512638699 52.865 0.21441 53.129 53.029 53.243 0.26345 14 11 2 0 0 0 0.91068 1 24173 24173 1.3295 0.13619 1 731330 + 26894 11422 17395 17453 30428 30428 -0.17395587099849763 RGEEEECGSED 11 Unmodified _RGEEEECGSED_ 0 0 0 REV__nc|ENSG00000116852|O75037-3|KIF21B REV__nc|ENSG00000116852|O75037-3|KIF21B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 620.225139 1238.43572 3.7227 0.0023089 -3.7737 -0.0023405 -0.050915 -3.1579E-05 620.2227512638699 52.865 0.21441 53.129 53.029 53.243 0.26345 -0.020739 -0.00071059 NaN 1.3295 14 11 2 NaN NaN NaN NaN 0 NaN NaN 0 731330 + 26895 11422 17395 17453 -0.17395587099849763 RGEEEECGSED 11 Unmodified _RGEEEECGSED_ 0 0 0 REV__nc|ENSG00000116852|O75037-3|KIF21B REV__nc|ENSG00000116852|O75037-3|KIF21B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 620.225139 1238.43572 3.4775 0.0021568 0.44485 0.00027591 3.9223 0.0024327 620.7250400182404 52.508 0.075111 53.17 53.126 53.201 0.66198 0.020739 0.0045223 NaN 1.3295 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 204560 + 26896 11422 17395 17453 -0.17395587099849763 RGELRRSPCL 10 Unmodified _RGELRRSPCL_ 0 0 0 REV__ENST00000421395.1_1:148902042-148902210:+|nuORF REV__ENST00000421395.1_1:148902042-148902210:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 396.5565185546875 3 396.22063 1185.64006 2.7483 0.0010889 0.18223 7.2203E-05 2.9305 0.0011611 396.22073207120764 54.107 0.48563 54.774 54.619 55.105 0.6665 51 29 2 0 0 0 0.90216 1 24732 24732 3.5871 0 1 2037700 + 26897 16176 17396 17454 30429 30429 0.05466486362638534 RGELRRSPCL 10 Unmodified _RGELRRSPCL_ 0 0 0 REV__ENST00000421395.1_1:148902042-148902210:+|nuORF REV__ENST00000421395.1_1:148902042-148902210:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 396.22063 1185.64006 2.7223 0.0010786 1.1663 0.0004621 3.8886 0.0015407 396.22085722944905 54.956 0.1957 54.956 54.819 55.014 0 0.091398 0.00077893 NaN 3.5871 29 19 3 NaN NaN NaN NaN 0 NaN NaN 0 693250 + 26898 16176 17396 17454 0.05466486362638534 RGGGAKPR 8 Unmodified _RGGGAKPR_ 0 0 0 REV__nc|ENSG00000126883|P35658-5|NUP214 REV__nc|ENSG00000126883|P35658-5|NUP214 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.73974609375 2 399.738286 797.462019 3.0125 0.0012042 0.20245 8.0929E-05 3.2149 0.0012851 399.7381463692526 81.096 0.44768 81.756 81.503 81.951 0.65997 49 21 3 0 0 0 0.7441 1 37414 37414 2.3027 0 1 2795000 + 26899 17920 17397 17455 30430 30430 0.055186042257560075 RGGKGGWG 8 Unmodified _RGGKGGWG_ 0 0 0 REV__ENST00000574205.5_1_17:7147249-7147510:-|nuORF REV__ENST00000574205.5_1_17:7147249-7147510:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 387.7055969238281 2 387.703912 773.39327 NaN NaN NaN NaN NaN NaN NaN 53.809 1 53.809 53.309 54.309 0 0 0 0 0.99035 1 24669 24669 0.69038 0 1 + 26900 17465 17398 17456 30431 30431 -0.002490600739633919 RGGKGGWG 8 Unmodified _RGGKGGWG_ 0 0 0 REV__ENST00000574205.5_1_17:7147249-7147510:-|nuORF REV__ENST00000574205.5_1_17:7147249-7147510:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 387.7055358886719 2 387.703912 773.39327 NaN NaN NaN NaN NaN NaN NaN 53.904 1 53.904 53.404 54.404 0 0 0 0 0.99035 1 24715 24715 0.69038 0 1 + 26901 17465 17398 17456 30432 30432 -0.002490600739633919 RGGKKETTR 9 Unmodified _RGGKKETTR_ 0 0 0 ENST00000373394.7_1_X:74273235-74273307:-|nuORF ENST00000373394.7_1_X:74273235-74273307:-|nuORF ENST00000373394.7_1_X:74273235-74273307:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.7989501953125 2 516.799072 1031.58359 NaN NaN NaN NaN NaN NaN NaN 83.548 1 83.548 83.048 84.048 0 0 0 0 0.81563 1 42098 42098 8.7454 1.1365 1 26902 7360 17399 17457 30433 30433 0.06906181797580757 RGGKPGAR 8 Unmodified _RGGKPGAR_ 0 0 0 ENST00000527223.6_2_19:55670954-55672526:-|nuORF;ENST00000455045.5_1_19:55670954-55672526:-|nuORF ENST00000527223.6_2_19:55670954-55672526:-|nuORF ENST00000527223.6_2_19:55670954-55672526:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.2475280761719 2 399.738286 797.462019 2.7642 0.0011049 0.043962 1.7573E-05 2.8081 0.0011225 399.7384441164753 80.617 0.367 80.866 80.613 80.98 0.24947 24 21 2 0 0 0 0.14282 1 37112 37112 2.3027 0 1 251660 26903 8040 17400 17458 30434 30434 0.055186042257560075 RGIHRPSLL 9 Unmodified _RGIHRPSLL_ 0 0 0 ENST00000444527.2_1_8:56367431-56367641:-|nuORF ENST00000444527.2_1_8:56367431-56367641:-|nuORF ENST00000444527.2_1_8:56367431-56367641:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.20782470703125 3 350.217325 1047.63015 NaN NaN NaN NaN NaN NaN NaN 51.205 1 51.205 50.705 51.705 0 0 0 0 0.89602 1 23445 23445 4.5289 0 1 26904 7959 17401 17459 30435 30435 0.1082366641956014 RGIHRPSLL 9 Unmodified _RGIHRPSLL_ 0 0 0 ENST00000444527.2_1_8:56367431-56367641:-|nuORF ENST00000444527.2_1_8:56367431-56367641:-|nuORF ENST00000444527.2_1_8:56367431-56367641:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.207763671875 3 350.217325 1047.63015 NaN NaN NaN NaN NaN NaN NaN 52.986 1 52.986 52.486 53.486 0 0 0 0 0.89602 1 24267 24267 4.5289 0 1 26905 7959 17401 17459 30436 30436 0.1082366641956014 RGIWVLLLPV 10 Unmodified _RGIWVLLLPV_ 0 0 0 ENST00000564160.1_1_16:2722719-2722887:-|nuORF;ENST00000474706.6_1_16:2588592-2588760:+|nuORF ENST00000564160.1_1_16:2722719-2722887:-|nuORF ENST00000564160.1_1_16:2722719-2722887:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1165.7467041015625 1 1165.74558 1164.7383 3.1972 0.0037271 1.2128 0.0014138 4.41 0.0051409 1165.7469540091197 39.17 0.35855 39.17 39.021 39.379 0 35 13 3 0 0 0 0.94099 2 17752 17752;17810 0.40072 0 1 3593300 26906 8214 17402 17460 30437;30438 30437 0.16252037950107479 RGIWVLLLPV 10 Unmodified _RGIWVLLLPV_ 0 0 0 ENST00000564160.1_1_16:2722719-2722887:-|nuORF;ENST00000474706.6_1_16:2588592-2588760:+|nuORF ENST00000564160.1_1_16:2722719-2722887:-|nuORF ENST00000564160.1_1_16:2722719-2722887:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1165.748046875 1 1165.74558 1164.7383 3.2014 0.003732 1.2414 0.0014471 4.4427 0.0051791 1165.7461481445318 39.643 0.3928 39.643 39.379 39.772 0 41 16 3 0 0 0 0.94099 1 17927 17927 0.40072 0 1 3455000 26907 8214 17402 17460 30439 30439 0.16252037950107479 RGIWVLLLPV 10 Unmodified _RGIWVLLLPV_ 0 0 0 ENST00000564160.1_1_16:2722719-2722887:-|nuORF;ENST00000474706.6_1_16:2588592-2588760:+|nuORF ENST00000564160.1_1_16:2722719-2722887:-|nuORF ENST00000564160.1_1_16:2722719-2722887:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1165.7498779296875 1 1165.74558 1164.7383 2.9712 0.0034637 0.9481 0.0011052 3.9193 0.0045689 1165.7465002071826 38.512 0.284 38.776 38.69 38.974 0.26408 30 11 3 0 0 0 0.94099 2 17529 17529;17573 0.40072 0 1 6369900 26908 8214 17402 17460 30440;30441 30440 0.16252037950107479 RGIWVLLLPV 10 Unmodified _RGIWVLLLPV_ 0 0 0 ENST00000564160.1_1_16:2722719-2722887:-|nuORF;ENST00000474706.6_1_16:2588592-2588760:+|nuORF ENST00000564160.1_1_16:2722719-2722887:-|nuORF ENST00000564160.1_1_16:2722719-2722887:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1165.7459716796875 1 1165.74558 1164.7383 3.0567 0.0035633 0.81484 0.00094989 3.8715 0.0045132 1165.746537746012 39.025 0.47817 39.289 38.999 39.477 0.26408 48 19 3 0 0 0 0.94099 2 17663 17663;17710 0.40072 0 1 2657300 26909 8214 17402 17460 30442;30443 30442 0.16252037950107479 RGIWVLLLPV 10 Unmodified _RGIWVLLLPV_ 0 0 0 ENST00000564160.1_1_16:2722719-2722887:-|nuORF;ENST00000474706.6_1_16:2588592-2588760:+|nuORF ENST00000564160.1_1_16:2722719-2722887:-|nuORF ENST00000564160.1_1_16:2722719-2722887:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.254638671875 3 389.253376 1164.7383 2.6874 0.0010461 1.23 0.00047877 3.9174 0.0015248 389.2537878433328 44.197 0.56094 44.467 44.435 44.996 0.26939 58 25 3 0 0 0 0.94099 1 20308 20308 0.69767 0 1 2879300 26910 8214 17402 17460 30444 30444 0.16252037950107479 RGIWVLLLPV 10 Unmodified _RGIWVLLLPV_ 0 0 0 ENST00000564160.1_1_16:2722719-2722887:-|nuORF;ENST00000474706.6_1_16:2588592-2588760:+|nuORF ENST00000564160.1_1_16:2722719-2722887:-|nuORF ENST00000564160.1_1_16:2722719-2722887:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 389.253376 1164.7383 2.6253 0.0010219 1.3945 0.0005428 4.0198 0.0015647 389.58814755862755 44.418 0.22581 44.418 44.253 44.479 0 -0.024506 0.00012247 NaN 0.69767 26 17 2 NaN NaN NaN NaN 0 NaN NaN 0 3744200 26911 8214 17402 17460 0.16252037950107479 RGKGRGPA 8 Unmodified _RGKGRGPA_ 0 0 0 REV__ENST00000574268.1_1_17:4710512-4711565:+|nuORF REV__ENST00000574268.1_1_17:4710512-4711565:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.73956298828125 2 399.738286 797.462019 3.5925 0.0014361 -0.023206 -9.2762E-06 3.5693 0.0014268 399.7380416140691 93.372 0.75128 93.627 93.217 93.968 0.25497 94 36 3 0 0 0 0.74071 1 42914 42914 2.5775 0 1 2881500 + 26912 17467 17403 17461 30445 30445 0.05518604225744639 RGKGRGPA 8 Unmodified _RGKGRGPA_ 0 0 0 REV__ENST00000574268.1_1_17:4710512-4711565:+|nuORF REV__ENST00000574268.1_1_17:4710512-4711565:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.7391052246094 2 399.738286 797.462019 3.1161 0.0012456 -0.08621 -3.4461E-05 3.0299 0.0012112 399.73807470772323 93.308 0.70889 93.939 93.564 94.273 0.63115 83 33 3 0 0 0 0.7471 1 42894 42894 0.69038 0 1 3282600 + 26913 17467 17403 17461 30446 30446 0.05518604225744639 RGKGRGPA 8 Unmodified _RGKGRGPA_ 0 0 0 REV__ENST00000574268.1_1_17:4710512-4711565:+|nuORF REV__ENST00000574268.1_1_17:4710512-4711565:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 399.738286 797.462019 3.5925 0.0014361 -0.023206 -9.2762E-06 3.5693 0.0014268 399.7380416140691 93.372 0.75128 93.627 93.217 93.968 0.25497 -0.15596 2.5469E-05 NaN 2.5775 94 36 3 NaN NaN NaN NaN 0 NaN NaN 0 2881500 + 26914 17467 17403 17461 0.05518604225744639 RGKGRGPA 8 Unmodified _RGKGRGPA_ 0 0 0 REV__ENST00000574268.1_1_17:4710512-4711565:+|nuORF REV__ENST00000574268.1_1_17:4710512-4711565:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 399.738286 797.462019 3.1161 0.0012456 -0.08621 -3.4461E-05 3.0299 0.0012112 399.73807470772323 93.308 0.70889 93.939 93.564 94.273 0.63115 0.15596 -2.4901E-05 NaN 2.5775 83 33 3 NaN NaN NaN NaN 0 NaN NaN 0 3282600 + 26915 17467 17403 17461 0.05518604225744639 RGKLKVLAT 9 Unmodified _RGKLKVLAT_ 0 0 0 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 329.2190246582031 3 329.222076 984.6444 1.7431 0.00057385 -0.98963 -0.00032581 0.75342 0.00024804 329.2221144041404 12.869 0.22713 13.176 13.023 13.25 0.30727 10 6 2 0 0 0 0.22744 1 5803 5803 21.59 7.9753 1 396090 26916 4761 17404 17462 30447 30447 0.15146318847837392 RGKLKVLAT 9 Unmodified _RGKLKVLAT_ 0 0 0 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 ENSG00000170606|ENST00000304858|HSPA4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 329.222076 984.6444 1.9424 0.00063947 0.090136 2.9675E-05 2.0325 0.00066915 329.2219572377731 12.981 0.10242 13.224 13.183 13.285 0.24346 0.02417 9.3358E-05 NaN 21.59 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 178910 26917 4761 17404 17462 0.15146318847837392 RGKRLLPRRN 10 Unmodified _RGKRLLPRRN_ 0 0 0 REV__nc|ENSG00000226746|Q8TEV8|SMCR5 REV__nc|ENSG00000226746|Q8TEV8|SMCR5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 317.1044006347656 4 317.20609 1264.79525 2.1786 0.00069106 -1.4947 -0.00047413 0.68387 0.00021693 317.2056715703824 49.474 0.45462 50.129 49.883 50.338 0.65524 26 15 2 0 0 0 0.12676 1 22574 22574 0.69767 0.46182 1 421330 + 26918 18140 17405 17463 30448 30448 0.17344898279225163 RGKRRREKQRP 11 Unmodified _RGKRRREKQRP_ 0 0 0 ENSG00000119630|ENST00000555567|PGF;nc|ENSG00000119630|P49763-4|PGF;ENST00000555253.1_1_14:75412914-75413107:-|nuORF ENSG00000119630|ENST00000555567|PGF ENSG00000119630|ENST00000555567|PGF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 367.4792175292969 4 367.477637 1465.88144 2.6817 0.00098548 0.51471 0.00018914 3.1964 0.0011746 367.4781630687622 59.269 0.56036 59.528 59.358 59.919 0.2593 84 25 5 0 0 0 0.91068 1 27134 27134 1.3296 0.87513 1 2705200 26919 2153 17406 17464 30449 30449 0.16713858113917013 RGKRRREKQRP 11 Unmodified _RGKRRREKQRP_ 0 0 0 ENSG00000119630|ENST00000555567|PGF;nc|ENSG00000119630|P49763-4|PGF;ENST00000555253.1_1_14:75412914-75413107:-|nuORF ENSG00000119630|ENST00000555567|PGF ENSG00000119630|ENST00000555567|PGF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 367.4794921875 4 367.477637 1465.88144 2.6197 0.00096269 0.75646 0.00027798 3.3762 0.0012407 367.7291915685327 58.887 0.53316 59.554 59.127 59.661 0.66703 80 21 6 0 0 0 0.91068 2 26938 26938;26958 1.3296 0.87513 1 2233400 26920 2153 17406 17464 30450;30451 30450 0.16713858113917013 RGKRRREKQRP 11 Unmodified _RGKRRREKQRP_ 0 0 0 ENSG00000119630|ENST00000555567|PGF;nc|ENSG00000119630|P49763-4|PGF;ENST00000555253.1_1_14:75412914-75413107:-|nuORF ENSG00000119630|ENST00000555567|PGF ENSG00000119630|ENST00000555567|PGF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 367.47930908203125 4 367.477637 1465.88144 2.6117 0.00095974 0.34222 0.00012576 2.9539 0.0010855 367.72909808662183 59.095 0.22076 59.762 59.644 59.865 0.66703 50 12 5 0 0 0 0.91068 1 27044 27044 1.3296 0 1 3044400 26921 2153 17406 17464 30452 30452 0.16713858113917013 RGKRRREKQRP 11 Unmodified _RGKRRREKQRP_ 0 0 0 ENSG00000119630|ENST00000555567|PGF;nc|ENSG00000119630|P49763-4|PGF;ENST00000555253.1_1_14:75412914-75413107:-|nuORF ENSG00000119630|ENST00000555567|PGF ENSG00000119630|ENST00000555567|PGF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 367.477637 1465.88144 2.5337 0.00093109 1.1108 0.00040821 3.6446 0.0013393 367.47801605912446 59.85 0.096367 59.85 59.758 59.855 0 0.13674 0.0007408 NaN 1.3296 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 1379900 26922 2153 17406 17464 0.16713858113917013 RGKRRREKQRP 11 Unmodified _RGKRRREKQRP_ 0 0 0 ENSG00000119630|ENST00000555567|PGF;nc|ENSG00000119630|P49763-4|PGF;ENST00000555253.1_1_14:75412914-75413107:-|nuORF ENSG00000119630|ENST00000555567|PGF ENSG00000119630|ENST00000555567|PGF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 367.477637 1465.88144 2.528 0.00092899 1.2391 0.00045534 3.7671 0.0013843 367.4780738523633 59.913 0.061428 59.913 59.862 59.924 0 0.11716 -9.3997E-06 NaN 1.3296 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 2841900 26923 2153 17406 17464 0.16713858113917013 RGKRRREKQRP 11 Unmodified _RGKRRREKQRP_ 0 0 0 ENSG00000119630|ENST00000555567|PGF;nc|ENSG00000119630|P49763-4|PGF;ENST00000555253.1_1_14:75412914-75413107:-|nuORF ENSG00000119630|ENST00000555567|PGF ENSG00000119630|ENST00000555567|PGF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 367.477637 1465.88144 2.0813 0.00076484 1.6384 0.00060207 3.7197 0.0013669 367.4783800324095 59.161 0.58245 59.92 59.73 60.312 0.75894 0.12424 0.00057755 NaN 1.3296 77 45 3 NaN NaN NaN NaN 0 NaN NaN 0 1259000 26924 2153 17406 17464 0.16713858113917013 RGKSVYFSK 9 Unmodified _RGKSVYFSK_ 0 0 0 REV__ENST00000494171.5_1_2:202212946-202216133:-|nuORF REV__ENST00000494171.5_1_2:202212946-202216133:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.8706970214844 3 357.869703 1070.58728 2.0799 0.00074433 1.9 0.00067994 3.9798 0.0014243 357.87038317110967 70.365 0.46472 71.027 70.713 71.178 0.66208 42 26 3 0 0 0 1.0246 1 32189 32189 2.086 0.43339 1 560040 + 26925 16824 17407 17465 30453 30453 0.054808515714512396 RGKVKVHSY 9 Unmodified _RGKVKVHSY_ 0 0 0 ENST00000370466.3_1_1:89591553-89591781:-|nuORF;ENST00000464839.5_1_1:89591553-89613456:-|nuORF ENST00000370466.3_1_1:89591553-89591781:-|nuORF ENST00000370466.3_1_1:89591553-89591781:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 358.544921875 3 358.545331 1072.61416 2.3962 0.00085914 -1.027 -0.00036822 1.3692 0.00049092 358.5449507440836 38.199 0.95467 38.833 38.415 39.37 0.63388 51 37 2 0 0 0 1.1154 1 17490 17490 1.0715 0.61312 1 315110 26926 7301 17408 17466 30454 30454 0.08075960182668496 RGLRGGRGRAH 11 Unmodified _RGLRGGRGRAH_ 0 0 0 ENST00000453604.6_1_19:11516043-11529954:-|nuORF ENST00000453604.6_1_19:11516043-11529954:-|nuORF ENST00000453604.6_1_19:11516043-11529954:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 596.85107421875 2 596.847753 1191.68095 4.2329 0.0025264 1.3817 0.00082465 5.6146 0.0033511 596.8485429414562 92.99 0.2025 93.637 93.558 93.761 0.64714 10 8 2 0 0 0 0.89309 1 42793 42793 2.7352 0.89096 1 322440 26927 8034 17409 17467 30455 30455 0.09278008517139824 RGLRGGRGRAH 11 Unmodified _RGLRGGRGRAH_ 0 0 0 ENST00000453604.6_1_19:11516043-11529954:-|nuORF ENST00000453604.6_1_19:11516043-11529954:-|nuORF ENST00000453604.6_1_19:11516043-11529954:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 596.847753 1191.68095 4.3557 0.0025997 1.2819 0.0007651 5.6376 0.0033648 596.8484667244761 93.448 0.26 93.703 93.585 93.845 0.25497 0.033071 -8.6186E-05 NaN 2.7352 15 12 2 NaN NaN NaN NaN 0 NaN NaN 0 335210 26928 8034 17409 17467 0.09278008517139824 RGLRLALSPRG 11 Unmodified _RGLRLALSPRG_ 0 0 0 ENST00000269593.4_1_17:38613016-38613178:+|nuORF ENST00000269593.4_1_17:38613016-38613178:+|nuORF ENST00000269593.4_1_17:38613016-38613178:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.9200744628906 3 399.250918 1194.73092 NaN NaN NaN NaN NaN NaN NaN 47.186 1 47.449 46.949 47.949 0.26363 0 0 0 1.0064 1 21563 21563 2.4348 0 1 26929 6646 17410 17468 30456 30456 0.14134698402381218 RGLSLEMDL 9 Unmodified _RGLSLEMDL_ 0 0 0 REV__ENST00000520528.1_1_16:67201435-67203617:+|nuORF REV__ENST00000520528.1_1_16:67201435-67203617:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 345.1831970214844 3 345.18307 1032.52738 2.3476 0.00081035 -1.5769 -0.00054432 0.77068 0.00026603 345.18242362350287 14.703 0.19781 14.929 14.814 15.011 0.22622 27 11 3 0 0 0 0.59776 1 6473 6473 7.1017 0.47135 1 420350 + 26930 17047 17411 17469 30457 30457 0.012417928459399263 RGNIVKHPL 9 Unmodified _RGNIVKHPL_ 0 0 0 ENSG00000243927|ENST00000399312|MRPS6 ENSG00000243927|ENST00000399312|MRPS6 ENSG00000243927|ENST00000399312|MRPS6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.31884765625 2 517.3169 1032.61925 3.2442 0.0016783 -0.2442 -0.00012633 3 0.0015519 517.3167439241937 18.159 0.22654 18.46 18.362 18.588 0.30158 59 25 3 0 0 0 0.75535 1 8245 8245 4.3292 0 1 688270 26931 6242 17412 17470 30458 30458 0.10424264045263953 RGPGKFFFF 9 Unmodified _RGPGKFFFF_ 0 0 0 ENST00000533107.3_1_19:1799652-1806029:-|nuORF ENST00000533107.3_1_19:1799652-1806029:-|nuORF ENST00000533107.3_1_19:1799652-1806029:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.2971801757812 2 551.795269 1101.57599 2.9761 0.0016422 -0.51028 -0.00028157 2.4658 0.0013606 551.7948812603612 68.453 0.15009 68.453 68.393 68.543 0 35 18 3 0 0 0 0.26277 1 32989 32989 19.257 2.1704 1 2424200 26932 8742 17413 17471 30459 30459 0.029260742679980467 RGPGKFFFF 9 Unmodified _RGPGKFFFF_ 0 0 0 ENST00000533107.3_1_19:1799652-1806029:-|nuORF ENST00000533107.3_1_19:1799652-1806029:-|nuORF ENST00000533107.3_1_19:1799652-1806029:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 551.795269 1101.57599 3.4354 0.0018957 1.0935 0.00060341 4.529 0.0024991 551.7957748079798 67.945 0.20664 68.603 68.439 68.645 0.65777 0.075088 0.00068648 NaN 19.257 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 371700 26933 8742 17413 17471 0.029260742679980467 RGPKMKLP 8 Unmodified _RGPKMKLP_ 0 0 0 REV__ENSG00000153147|ENST00000283131|SMARCA5 REV__ENSG00000153147|ENST00000283131|SMARCA5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 309.52508544921875 3 309.52499 925.553142 2.172 0.00067229 -1.6476 -0.00050996 0.52445 0.00016233 309.52428473148285 30.538 0.24544 30.538 30.408 30.653 0 45 20 3 0 0 0 0.7471 1 13798 13798 0.40072 0 1 2120800 + 26934 12670 17414 17472 30460 30460 0.08738731878850103 RGPKMKLP 8 Unmodified _RGPKMKLP_ 0 0 0 REV__ENSG00000153147|ENST00000283131|SMARCA5 REV__ENSG00000153147|ENST00000283131|SMARCA5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 309.52499 925.553142 2.3599 0.00073044 -2.2132 -0.00068504 0.1467 4.5407E-05 309.52422212800946 29.752 0.19577 30.542 30.456 30.651 0.78921 0.017828 -0.00032185 NaN 0.40072 32 17 2 NaN NaN NaN NaN 0 NaN NaN 0 3139700 + 26935 12670 17414 17472 0.08738731878850103 RGPKMKLP 8 Unmodified _RGPKMKLP_ 0 0 0 REV__ENSG00000153147|ENST00000283131|SMARCA5 REV__ENSG00000153147|ENST00000283131|SMARCA5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 309.52499 925.553142 2.5343 0.00078442 -1.3368 -0.00041377 1.1975 0.00037065 309.52434499260005 30.195 0.25596 30.453 30.35 30.606 0.25804 -0.071078 0.00049195 NaN 0.40072 53 19 4 NaN NaN NaN NaN 0 NaN NaN 0 1823800 + 26936 12670 17414 17472 0.08738731878850103 RGPKMKLP 8 Unmodified _RGPKMKLP_ 0 0 0 REV__ENSG00000153147|ENST00000283131|SMARCA5 REV__ENSG00000153147|ENST00000283131|SMARCA5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 309.52499 925.553142 2.1543 0.00066682 -2.1349 -0.00066081 0.019423 6.012E-06 309.5242773084258 29.945 0.23619 30.562 30.421 30.657 0.61737 0.038638 -0.00024917 NaN 0.40072 47 26 2 NaN NaN NaN NaN 0 NaN NaN 0 2030600 + 26937 12670 17414 17472 0.08738731878850103 RGPPKGKR 8 Unmodified _RGPPKGKR_ 0 0 0 ENSG00000265241|ENST00000583313|RBM8A;nc|ENSG00000265241|Q9Y5S9-2|RBM8A;ENST00000555532.2_1_14:60864810-60864996:+|nuORF ENSG00000265241|ENST00000583313|RBM8A ENSG00000265241|ENST00000583313|RBM8A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 448.28228759765625 2 448.28286 894.551168 NaN NaN NaN NaN NaN NaN NaN 59.449 1 59.449 58.949 59.949 0 0 0 0 0.99035 1 27482 27482 2.5775 0 1 26938 6318 17415 17473 30461 30461 0.09967439185265903 RGPVHGGL 8 Unmodified _RGPVHGGL_ 0 0 0 ENST00000373953.7_1_6:35227481-35248953:+|nuORF ENST00000373953.7_1_6:35227481-35248953:+|nuORF ENST00000373953.7_1_6:35227481-35248953:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 396.728271484375 2 396.727387 791.44022 2.2906 0.00090874 -0.49807 -0.0001976 1.7925 0.00071114 396.72725983047866 13.184 0.15836 13.427 13.296 13.454 0.24346 15 11 2 0 0 0 0.64692 1 5739 5739 10.183 0 1 149250 26939 7372 17416 17474 30462 30462 0.03615799477177006 RGRAARKQGA 10 Unmodified _RGRAARKQGA_ 0 0 0 REV__ENST00000496873.1_1_13:114144983-114145259:-|nuORF REV__ENST00000496873.1_1_13:114144983-114145259:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.8202514648438 2 535.81813 1069.62171 3.7206 0.0019936 0.1348 7.2229E-05 3.8554 0.0020658 535.8180206167417 95.691 0.43321 95.959 95.728 96.161 0.26751 50 23 3 0 0 0 0.90859 1 43924 43924 3.2813 0 1 1542900 + 26940 16857 17417 17475 30463 30463 0.08968112502930126 RGRGKGAA 8 Unmodified _RGRGKGAA_ 0 0 0 REV__ENSG00000112238|ENST00000369215|PRDM13 REV__ENSG00000112238|ENST00000369215|PRDM13 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 386.7299499511719 2 386.730461 771.446369 NaN NaN NaN NaN NaN NaN NaN 100.87 1 101.18 100.68 101.68 0.31412 0 0 0 0.99035 1 46679 46679 0 0 1 + 26941 11265 17418 17476 30464 30464 0.05150317708694274 RGRKKKKKKKK 11 Unmodified _RGRKKKKKKKK_ 0 0 0 REV__nc|ENSG00000111142|P50579-3|METAP2 REV__nc|ENSG00000111142|P50579-3|METAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 707.15966796875 2 707.004254 1411.99395 NaN NaN NaN NaN NaN NaN NaN 100.33 1 100.33 99.832 100.83 0 0 0 0 1.0082 1 55349 55349 0 0 1 + 26942 17893 17419 17477 30465 30465 0.30443738858025426 RGRKKKKKKKK 11 Unmodified _RGRKKKKKKKK_ 0 0 0 REV__nc|ENSG00000111142|P50579-3|METAP2 REV__nc|ENSG00000111142|P50579-3|METAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 706.8961791992188 2 707.004254 1411.99395 NaN NaN NaN NaN NaN NaN NaN 79.903 1 80.223 79.723 80.723 0.31998 0 0 0 1.0082 1 39046 39046 0 0 1 + 26943 17893 17419 17477 30466 30466 0.30443738858025426 RGRKRRRRCFR 11 Unmodified _RGRKRRRRCFR_ 0 0 0 ENST00000257626.11_2_7:77035403-77045687:-|nuORF ENST00000257626.11_2_7:77035403-77045687:-|nuORF ENST00000257626.11_2_7:77035403-77045687:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.3111572265625 3 516.311399 1545.91237 2.0669 0.0010672 -2.4106 -0.0012446 -0.34365 -0.00017743 516.3106095172474 106.27 0.1288 106.32 106.25 106.38 0.04837 10 5 3 0 0 0 0.91462 1 57521 57521 0.08335 0.08335 1 1100400 26944 6531 17420 17478 30467 30467 0.1612473294717347 RGRKRRRRCFR 11 Unmodified _RGRKRRRRCFR_ 0 0 0 ENST00000257626.11_2_7:77035403-77045687:-|nuORF ENST00000257626.11_2_7:77035403-77045687:-|nuORF ENST00000257626.11_2_7:77035403-77045687:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 516.311399 1545.91237 3.6391 0.0018789 -3.5949 -0.0018561 0.044198 2.282E-05 516.3091247052625 106.2 0.15842 106.8 106.71 106.87 0.59969 0.24774 -0.00040164 NaN 0.08335 11 4 4 NaN NaN NaN NaN 0 NaN NaN 0 651070 26945 6531 17420 17478 0.1612473294717347 RGRQRRIQRLR 11 Unmodified _RGRQRRIQRLR_ 0 0 0 ENST00000379656.7_1_19:18112104-18119556:+|nuORF ENST00000379656.7_1_19:18112104-18119556:+|nuORF ENST00000379656.7_1_19:18112104-18119556:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.83343505859375 3 498.981936 1493.92398 3.1022 0.001548 0.17172 8.5685E-05 3.2739 0.0016336 498.98191929198975 37.488 0.51227 37.488 37.272 37.784 0 23 19 2 0 0 0 0.13295 1 17058 17058 0.50596 0.36606 1 290610 26946 7453 17421 17479 30468 30468 0.1967725324213916 RGRRDDFM 8 Unmodified _RGRRDDFM_ 0 0 0 REV__nc|ENSG00000165119|P61978-3|HNRNPK REV__nc|ENSG00000165119|P61978-3|HNRNPK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.7551879882812 2 526.75635 1051.49815 NaN NaN NaN NaN NaN NaN NaN 51.194 1 51.194 50.694 51.694 0 0 0 0 0.99035 1 23440 23440 2.3027 0.65011 1 26947 13138 17422 17480 30469 30469 -0.025543066597037978 RGRRHRLQYR 10 Unmodified _RGRRHRLQYR_ 0 0 0 ENSG00000105278|ENST00000262961|ZFR2;ZFR2|p.Q729Rfs*10|1|0.38|ENSG00000105278|chr19:3813876-3813876|T/-|frameshift_variant ENSG00000105278|ENST00000262961|ZFR2 ENSG00000105278|ENST00000262961|ZFR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.60992431640625 3 466.608098 1396.80247 3.4053 0.0015889 0.1495 6.9756E-05 3.5548 0.0016587 466.60806622908734 94.245 0.56345 94.505 94.247 94.81 0.25974 43 28 2 0 0 0 0.94246 1 43418 43418 0.13989 0.04505 1 405010 26948 1482 17423 17481 30470 30470 0.11993630879624106 RGRRHRLQYR 10 Unmodified _RGRRHRLQYR_ 0 0 0 ENSG00000105278|ENST00000262961|ZFR2;ZFR2|p.Q729Rfs*10|1|0.38|ENSG00000105278|chr19:3813876-3813876|T/-|frameshift_variant ENSG00000105278|ENST00000262961|ZFR2 ENSG00000105278|ENST00000262961|ZFR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.60919189453125 3 466.608098 1396.80247 3.5635 0.0016628 0.23386 0.00010912 3.7974 0.0017719 466.6081314363555 96.693 0.94424 96.97 96.464 97.409 0.27779 160 50 4 0 0 0 0.94246 1 44285 44285 0.13989 0.04505 1 2923100 26949 1482 17423 17481 30471 30471 0.11993630879624106 RGRRRPRTRPR 11 Unmodified _RGRRRPRTRPR_ 0 0 0 ENSG00000188263|ENST00000695950|IL17REL ENSG00000188263|ENST00000695950|IL17REL ENSG00000188263|ENST00000695950|IL17REL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.64031982421875 3 488.63828 1462.89301 NaN NaN NaN NaN NaN NaN NaN 79.156 1 79.817 79.317 80.317 0.66082 0 0 0 1.0073 1 36474 36474 0.40827 0 1 26950 5661 17424 17482 30472 30472 0.18008099927897092 RGRRRRHLRRL 11 Unmodified _RGRRRRHLRRL_ 0 0 0 REV__ENST00000379162.8_1_X:24483408-24483594:+|nuORF REV__ENST00000379162.8_1_X:24483408-24483594:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 766.49072265625 2 766.490699 1530.96685 NaN NaN NaN NaN NaN NaN NaN 58.597 1 59.356 58.856 59.856 0.75894 0 0 0 1.0082 1 26881 26881 0 0 1 + 26951 15861 17425 17483 30473 30473 0.22260068090236018 RGRSCLPVPR 10 Unmodified _RGRSCLPVPR_ 0 0 0 ENST00000562435.5_1_16:47165930-47177876:-|nuORF ENST00000562435.5_1_16:47165930-47177876:-|nuORF ENST00000562435.5_1_16:47165930-47177876:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 380.8863525390625 3 380.88547 1139.63458 2.3178 0.00088283 0.68819 0.00026212 3.006 0.001145 380.88562400692376 63.296 0.6755 63.296 62.859 63.534 0 187 75 4 0 0 0 0.90859 1 29823 29823 1.5923 1.5923 1 11495000 26952 8993 17426 17484 30474 30474 0.07034807570812518 RGSGRVLAF 9 Unmodified _RGSGRVLAF_ 0 0 0 GALNT5|p.P279Lfs*10|1|0.56|ENSG00000136542|chr2:157258913-157258913|T/-|frameshift_variant;GALNT5|p.N798Kfs*10|1|0.07|ENSG00000136542|chr2:157300953-157300954|-/GGAATATGGAT|frameshift_variant;ENSG00000136542|ENST00000259056|GALNT5 GALNT5|p.P279Lfs*10|1|0.56|ENSG00000136542|chr2:157258913-157258913|T/-|frameshift_variant GALNT5|p.P279Lfs*10|1|0.56|ENSG00000136542|chr2:157258913-157258913|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 321.52325439453125 3 321.522526 961.545748 2.1239 0.00068287 0.57202 0.00018392 2.6959 0.00086679 321.5227132838771 16.76 0.88209 17.065 16.541 17.423 0.30438 224 85 3 0 0 0 1.1703 1 7405 7405 1.1933 0 1 645040 26953 2959 17427 17485 30475 30475 0.06343715602793054 RGSTDPGQC 9 Unmodified _RGSTDPGQC_ 0 0 0 ENST00000465199.5_1_1:228289759-228291133:-|nuORF ENST00000465199.5_1_1:228289759-228291133:-|nuORF ENST00000465199.5_1_1:228289759-228291133:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 307.46807861328125 3 307.467869 919.381779 NaN NaN NaN NaN NaN NaN NaN 63.481 1 64.139 63.639 64.639 0.65809 0 0 0 0.90777 1 29091 29091 0.86438 0.45611 1 26954 8122 17428 17486 30476 30476 -0.08113669950262192 RGTIRVPG 8 Unmodified _RGTIRVPG_ 0 0 0 REV__ENSG00000107833|ENST00000370110|NPM3 REV__ENSG00000107833|ENST00000370110|NPM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 428.2629699707031 2 428.261594 854.508634 2.3849 0.0010213 0.10936 4.6833E-05 2.4942 0.0010682 428.26152451246304 86.398 0.33612 86.398 86.247 86.583 0 99 43 3 0 0 0 0.68261 1 44351 44351 7.2892 2.5332 1 35401000 + 26955 11124 17429 17487 30477 30477 0.0755604405703707 RGVLNLFSSE 10 Unmodified _RGVLNLFSSE_ 0 0 0 chr4:100410355-100411186|155|13.61|0.83|4.03|-|0|EMCN,None|1 chr4:100410355-100411186|155|13.61|0.83|4.03|-|0|EMCN,None|1 chr4:100410355-100411186|155|13.61|0.83|4.03|-|0|EMCN,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.3038940429688 2 561.301113 1120.58767 NaN NaN NaN NaN NaN NaN NaN 63.662 1 64.32 63.82 64.82 0.65808 0 0 0 0.99812 1 29175 29175 3.2813 0 1 26956 171 17430 17488 30478 30478 0.032202265006844755 RGVLPFLWRV 10 Unmodified _RGVLPFLWRV_ 0 0 0 REV__ENST00000567034.5_1_16:30198826-30199264:+|nuORF REV__ENST00000567034.5_1_16:30198826-30199264:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.92181396484375 3 414.920509 1241.7397 2.8366 0.001177 -0.89948 -0.00037321 1.9371 0.00080374 415.2542661513507 82.341 0.62303 82.588 82.393 83.016 0.24722 42 34 2 0 0 0 0.12676 1 38049 38049 0.69767 0.07084 1 726210 + 26957 17429 17431 17489 30479 30479 0.12849672038851168 RGWRCLPRPLR 11 Unmodified _RGWRCLPRPLR_ 0 0 0 ENST00000461701.5_1_11:64681291-64681627:-|nuORF ENST00000461701.5_1_11:64681291-64681627:-|nuORF ENST00000461701.5_1_11:64681291-64681627:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 353.2086181640625 4 353.206933 1408.79863 2.5636 0.00090549 0.11585 4.092E-05 2.6795 0.00094641 353.207141977493 61.41 1.1426 61.662 60.9 62.043 0.25245 121 54 3 0 0 0 0.91068 1 28192 28192 0.45452 0 1 1189200 26958 8088 17432 17490 30480 30480 0.11057825061539006 RGYEWDLK 8 Unmodified _RGYEWDLK_ 0 0 0 FIP1L1|p.D156Efs*50|1|0.33|ENSG00000145216|chr4:53390587-53390588|-/AG|frameshift_variant FIP1L1|p.D156Efs*50|1|0.33|ENSG00000145216|chr4:53390587-53390588|-/AG|frameshift_variant FIP1L1|p.D156Efs*50|1|0.33|ENSG00000145216|chr4:53390587-53390588|-/AG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 356.1827087402344 3 356.182058 1065.52434 2.4239 0.00086335 -0.62779 -0.00022361 1.7961 0.00063974 356.18183334451436 46.376 0.3061 46.376 46.223 46.529 0 38 15 3 0 0 0 0.63932 1 21215 21215 10.8 3.1906 1 4940800 26959 9360 17433 17491 30481 30481 -0.005797142165874902 RGYEWDLK 8 Unmodified _RGYEWDLK_ 0 0 0 FIP1L1|p.D156Efs*50|1|0.33|ENSG00000145216|chr4:53390587-53390588|-/AG|frameshift_variant FIP1L1|p.D156Efs*50|1|0.33|ENSG00000145216|chr4:53390587-53390588|-/AG|frameshift_variant FIP1L1|p.D156Efs*50|1|0.33|ENSG00000145216|chr4:53390587-53390588|-/AG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 356.1824951171875 3 356.182058 1065.52434 2.3198 0.00082627 -0.089925 -3.203E-05 2.2299 0.00079425 356.1819669641215 45.283 0.34984 46.109 45.926 46.276 0.82621 56 20 4 0 0 0 0.58446 1 20599 20599 15.248 0.8431 1 3067300 26960 9360 17433 17491 30482 30482 -0.005797142165874902 RGYRLEWRR 9 Unmodified _RGYRLEWRR_ 0 0 0 ENSG00000114270|ENST00000681320|COL7A1;nc|ENSG00000114270|Q02388-2|COL7A1 ENSG00000114270|ENST00000681320|COL7A1 ENSG00000114270|ENST00000681320|COL7A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 646.3594360351562 2 646.360162 1290.70577 NaN NaN NaN NaN NaN NaN NaN 16.718 1 16.919 16.419 17.419 0.20057 0 0 0 0.91238 1 7389 7389 0.52476 0.066424 1 26961 1894 17434 17492 30483 30483 0.07204643599834526 RHDRRYFIIWF 11 Unmodified _RHDRRYFIIWF_ 0 0 0 REV__ENST00000374024.3_1_1:27721873-27722296:+|nuORF REV__ENST00000374024.3_1_1:27721873-27722296:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 804.9315795898438 2 804.930951 1607.84735 NaN NaN NaN NaN NaN NaN NaN 36.798 1 37.592 37.092 38.092 0.79342 0 0 0 1.0082 1 16676 16676 0 0 1 + 26962 15779 17435 17493 30484 30484 0.0677401690231818 RHFGLRFYA 9 Unmodified _RHFGLRFYA_ 0 0 0 nc|ENSG00000211454|Q8NHP1|AKR7L;ENSG00000162482|ENST00000361640|AKR7A3;ENSG00000053371|ENST00000235835|AKR7A2 nc|ENSG00000211454|Q8NHP1|AKR7L nc|ENSG00000211454|Q8NHP1|AKR7L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.8145751953125 2 583.814525 1165.6145 NaN NaN NaN NaN NaN NaN NaN 15.814 1 16.472 15.972 16.972 0.65798 0 0 0 0.91452 1 7126 7126 0 0 1 26963 598 17436 17494 30485 30485 0.038313799025445405 RHFLRRQYWHW 11 Unmodified _RHFLRRQYWHW_ 0 0 0 ENST00000513055.1_1_5:92921088-92921313:-|nuORF ENST00000513055.1_1_5:92921088-92921313:-|nuORF ENST00000513055.1_1_5:92921088-92921313:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 842.9404296875 2 842.939642 1683.86473 NaN NaN NaN NaN NaN NaN NaN 62.199 1 62.199 61.699 62.699 0 0 0 0 1.0082 1 29127 29127 0 0 1 26964 8574 17437 17495 30486 30486 0.05015357227966888 RHFWWPSHHLY 11 Unmodified _RHFWWPSHHLY_ 0 0 0 REV__nc|ENSG00000103227|Q96S06-2|LMF1 REV__nc|ENSG00000103227|Q96S06-2|LMF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 783.3817138671875 2 783.381094 1564.74764 NaN NaN NaN NaN NaN NaN NaN 86.949 1 86.979 86.479 87.479 0.030289 0 0 0 1.008 1 43880 43880 0.30703 0 1 + 26965 10961 17438 17496 30487 30487 -0.012148007116365989 RHHIQIER 8 Unmodified _RHHIQIER_ 0 0 0 nc|ENSG00000115459|Q96FG2-2|ELMOD3 nc|ENSG00000115459|Q96FG2-2|ELMOD3 nc|ENSG00000115459|Q96FG2-2|ELMOD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.8079223632812 2 544.807231 1087.59991 NaN NaN NaN NaN NaN NaN NaN 79.754 1 80.004 79.504 80.504 0.24947 0 0 0 0.99035 1 36723 36723 2.0598 0 1 26966 9606 17439 17497 30488 30488 0.05961307754387235 RHHRYRLHHEE 11 Unmodified _RHHRYRLHHEE_ 0 0 0 ENST00000298573.8_1_12:12633165-12633258:-|nuORF ENST00000298573.8_1_12:12633165-12633258:-|nuORF ENST00000298573.8_1_12:12633165-12633258:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 785.254638671875 2 785.398338 1568.78212 NaN NaN NaN NaN NaN NaN NaN 55.577 1 56.364 55.864 56.864 0.78711 0 0 0 1.0059 1 25378 25378 2.9952 1.6657 1 26967 6782 17440 17498 30489 30489 0.0204841542918075 RHIKKLKRPRK 11 Unmodified _RHIKKLKRPRK_ 0 0 0 ENST00000381120.7_1_13:28009858-28009912:-|nuORF ENST00000381120.7_1_13:28009858-28009912:-|nuORF ENST00000381120.7_1_13:28009858-28009912:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 730.49267578125 2 730.494053 1458.97355 NaN NaN NaN NaN NaN NaN NaN 75.55 1 75.55 75.05 76.05 0 0 0 0 1.0082 1 37020 37020 0 0 1 26968 7478 17441 17499 30490 30490 0.26242568198222216 RHIKKLKRPRK 11 Unmodified _RHIKKLKRPRK_ 0 0 0 ENST00000381120.7_1_13:28009858-28009912:-|nuORF ENST00000381120.7_1_13:28009858-28009912:-|nuORF ENST00000381120.7_1_13:28009858-28009912:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 730.26806640625 2 730.494053 1458.97355 NaN NaN NaN NaN NaN NaN NaN 106.52 1 107.12 106.62 107.62 0.60074 0 0 0 1.0082 1 49178 49178 0 0 1 26969 7478 17441 17499 30491 30491 0.26242568198222216 RHIRRLNKRA 10 Unmodified _RHIRRLNKRA_ 0 0 0 REV__nc|ENSG00000197568|Q9XRX5-2|ANKRD13C-DT REV__nc|ENSG00000197568|Q9XRX5-2|ANKRD13C-DT MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.2121887207031 4 330.71154 1318.81705 2.1638 0.0007156 4.3277 0.0014312 6.4915 0.0021468 330.71226345698335 71.055 0.13652 71.312 71.218 71.355 0.25786 23 13 2 0 0 0 0.12676 1 32521 32521 0.12286 0.039514 1 660270 + 26970 18097 17442 17500 30492 30492 0.17039703027762698 RHKRRRRKQK 10 Unmodified _RHKRRRRKQK_ 0 0 0 ENST00000478247.1_1_3:183882805-183888540:+|nuORF;nc|ENSG00000161202|Q92997-2|DVL3;ENSG00000161202|ENST00000313143|DVL3 ENST00000478247.1_1_3:183882805-183888540:+|nuORF ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.9878845214844 4 362.986901 1447.9185 2.6074 0.00094646 -0.13889 -5.0417E-05 2.4685 0.00089605 362.9867290509022 43.065 0.36626 43.065 42.828 43.194 0 85 29 5 0 0 0 0.94364 1 19534 19534 0.15932 0.01943 1 51819000 26971 4094 17443 17501 30493 30493 0.21245574450313143 RHKRRRRKQK 10 Unmodified _RHKRRRRKQK_ 0 0 0 ENST00000478247.1_1_3:183882805-183888540:+|nuORF;nc|ENSG00000161202|Q92997-2|DVL3;ENSG00000161202|ENST00000313143|DVL3 ENST00000478247.1_1_3:183882805-183888540:+|nuORF ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.2384338378906 4 362.986901 1447.9185 2.6131 0.00094851 -0.23903 -8.6764E-05 2.3741 0.00086175 362.98669438501986 43.723 0.44697 43.723 43.458 43.905 0 137 45 4 0 0 0 0.94364 1 19875 19875 0.15932 0.075971 1 48060000 26972 4094 17443 17501 30494 30494 0.21245574450313143 RHKRRRRKQK 10 Unmodified _RHKRRRRKQK_ 0 0 0 ENST00000478247.1_1_3:183882805-183888540:+|nuORF;nc|ENSG00000161202|Q92997-2|DVL3;ENSG00000161202|ENST00000313143|DVL3 ENST00000478247.1_1_3:183882805-183888540:+|nuORF ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.98779296875 4 362.986901 1447.9185 2.574 0.00093434 0.066922 2.4292E-05 2.641 0.00095863 362.98685928184335 45.311 0.80037 45.311 45.011 45.811 0 190 40 5 0 0 0 0.94364 5 20690 20690;20738;20795;20894;20943 0.15932 0.15932 1 27549000 26973 4094 17443 17501 30495;30496;30497;30498;30499 30495 0.21245574450313143 RHKRRRRKQK 10 Unmodified _RHKRRRRKQK_ 0 0 0 ENST00000478247.1_1_3:183882805-183888540:+|nuORF;nc|ENSG00000161202|Q92997-2|DVL3;ENSG00000161202|ENST00000313143|DVL3 ENST00000478247.1_1_3:183882805-183888540:+|nuORF ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.6477966308594 3 483.646776 1447.9185 3.1147 0.0015064 -0.083023 -4.0154E-05 3.0317 0.0014663 483.64658647783597 45.289 0.8598 45.289 45.052 45.912 0 149 43 4 0 0 0 0.94364 2 20896 20896;20945 0.15932 0.075971 1 5265200 26974 4094 17443 17501 30500;30501 30500 0.21245574450313143 RHKRRRRKQK 10 Unmodified _RHKRRRRKQK_ 0 0 0 ENST00000478247.1_1_3:183882805-183888540:+|nuORF;nc|ENSG00000161202|Q92997-2|DVL3;ENSG00000161202|ENST00000313143|DVL3 ENST00000478247.1_1_3:183882805-183888540:+|nuORF ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.9875793457031 4 362.986901 1447.9185 2.4454 0.00088766 -0.12419 -4.5078E-05 2.3212 0.00084258 362.9867217345415 47.116 0.72353 47.116 46.738 47.461 0 61 35 3 0 0 0 0.94364 1 21665 21665 0.15932 0.01943 1 2763100 26975 4094 17443 17501 30502 30502 0.21245574450313143 RHKRRRRKQK 10 Unmodified _RHKRRRRKQK_ 0 0 0 ENST00000478247.1_1_3:183882805-183888540:+|nuORF;nc|ENSG00000161202|Q92997-2|DVL3;ENSG00000161202|ENST00000313143|DVL3 ENST00000478247.1_1_3:183882805-183888540:+|nuORF ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 363.2384338378906 4 362.986901 1447.9185 2.2972 0.00083387 0.23381 8.4869E-05 2.5311 0.00091874 362.9869601836541 42.12 0.32777 42.929 42.72 43.047 0.80856 87 29 5 0 0 0 0.94364 2 19051 19051;19147 0.15932 0.01943 1 74855000 26976 4094 17443 17501 30503;30504 30503 0.21245574450313143 RHKRRRRKQK 10 Unmodified _RHKRRRRKQK_ 0 0 0 ENST00000478247.1_1_3:183882805-183888540:+|nuORF;nc|ENSG00000161202|Q92997-2|DVL3;ENSG00000161202|ENST00000313143|DVL3 ENST00000478247.1_1_3:183882805-183888540:+|nuORF ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 363.2379150390625 4 362.986901 1447.9185 2.293 0.00083233 -0.86944 -0.00031559 1.4236 0.00051673 363.23712816632985 42.383 0.035534 43.192 43.183 43.218 0.80855 8 6 2 0 0 0 0.94364 1 19254 19254 0.15932 0.01943 1 24171000 26977 4094 17443 17501 30505 30505 0.21245574450313143 RHKRRRRKQK 10 Unmodified _RHKRRRRKQK_ 0 0 0 ENST00000478247.1_1_3:183882805-183888540:+|nuORF;nc|ENSG00000161202|Q92997-2|DVL3;ENSG00000161202|ENST00000313143|DVL3 ENST00000478247.1_1_3:183882805-183888540:+|nuORF ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.9875183105469 4 362.986901 1447.9185 2.3027 0.00083585 0.18897 6.8593E-05 2.4917 0.00090444 362.9868816312235 44.601 1.3027 45.421 44.775 46.078 0.82074 261 70 5 0 0 0 0.94364 1 20153 20153 0.15932 0.01943 1 23315000 26978 4094 17443 17501 30506 30506 0.21245574450313143 RHKRRRRKQK 10 Unmodified _RHKRRRRKQK_ 0 0 0 ENST00000478247.1_1_3:183882805-183888540:+|nuORF;nc|ENSG00000161202|Q92997-2|DVL3;ENSG00000161202|ENST00000313143|DVL3 ENST00000478247.1_1_3:183882805-183888540:+|nuORF ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.23919677734375 4 362.986901 1447.9185 2.6809 0.00097315 -0.22448 -8.1483E-05 2.4565 0.00089166 362.9867890543569 42.757 0.40378 43.027 42.681 43.085 0.27021 94 22 6 0 0 0 0.94364 1 19394 19394 0.15932 0.01943 1 172050000 26979 4094 17443 17501 30507 30507 0.21245574450313143 RHKRRRRKQK 10 Unmodified _RHKRRRRKQK_ 0 0 0 ENST00000478247.1_1_3:183882805-183888540:+|nuORF;nc|ENSG00000161202|Q92997-2|DVL3;ENSG00000161202|ENST00000313143|DVL3 ENST00000478247.1_1_3:183882805-183888540:+|nuORF ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.9882507324219 4 362.986901 1447.9185 2.7199 0.00098729 0.24335 8.8332E-05 2.9632 0.0010756 362.98702488212695 41.607 0.38916 42.252 41.962 42.351 0.64451 94 28 5 0 0 0 0.94364 1 19045 19045 0.15932 0.01943 1 115410000 26980 4094 17443 17501 30508 30508 0.21245574450313143 RHKRRRRKQK 10 Unmodified _RHKRRRRKQK_ 0 0 0 ENST00000478247.1_1_3:183882805-183888540:+|nuORF;nc|ENSG00000161202|Q92997-2|DVL3;ENSG00000161202|ENST00000313143|DVL3 ENST00000478247.1_1_3:183882805-183888540:+|nuORF ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.9879150390625 4 362.986901 1447.9185 2.7125 0.00098461 -0.33505 -0.00012162 2.3775 0.00086299 362.98669567083596 41.973 0.18848 42.62 42.584 42.773 0.64693 54 29 2 0 0 0 0.94364 2 19230 19230;19275 0.15932 0.075971 1 10011000 26981 4094 17443 17501 30509;30510 30509 0.21245574450313143 RHKRRRRKQK 10 Unmodified _RHKRRRRKQK_ 0 0 0 ENST00000478247.1_1_3:183882805-183888540:+|nuORF;nc|ENSG00000161202|Q92997-2|DVL3;ENSG00000161202|ENST00000313143|DVL3 ENST00000478247.1_1_3:183882805-183888540:+|nuORF ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.9878234863281 4 362.986901 1447.9185 2.7079 0.00098295 0.1069 3.8802E-05 2.8148 0.0010217 362.98692221166715 44.029 0.70946 44.678 44.512 45.221 0.64872 152 32 5 0 0 0 0.94364 2 20230 20230;20279 0.15932 0.01943 1 55641000 26982 4094 17443 17501 30511;30512 30511 0.21245574450313143 RHKRRRRKQK 10 Unmodified _RHKRRRRKQK_ 0 0 0 ENST00000478247.1_1_3:183882805-183888540:+|nuORF;nc|ENSG00000161202|Q92997-2|DVL3;ENSG00000161202|ENST00000313143|DVL3 ENST00000478247.1_1_3:183882805-183888540:+|nuORF ENST00000478247.1_1_3:183882805-183888540:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.23809814453125 4 362.986901 1447.9185 2.8368 0.0010297 0.082386 2.9905E-05 2.9192 0.0010596 362.9868146376357 46.218 1.3604 46.869 45.983 47.343 0.65119 110 52 3 0 0 0 0.94364 1 21194 21194 0.15932 0.01943 1 2987900 26983 4094 17443 17501 30513 30513 0.21245574450313143 RHLHKKKP 8 Unmodified _RHLHKKKP_ 0 0 0 REV__ENSG00000121152|ENST00000240423|NCAPH REV__ENSG00000121152|ENST00000240423|NCAPH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.8196411132812 2 522.332885 1042.65122 3.5579 0.0018584 0.97986 0.00051182 4.5377 0.0023702 522.333266936183 102.07 0.22691 102.67 102.6 102.83 0.59759 9 8 2 0 0 0 0.7471 1 47289 47289 0.79363 0 1 96044 + 26984 11551 17444 17502 30514 30514 0.13159676519103414 RHLIKLFGVK 10 Unmodified _RHLIKLFGVK_ 0 0 0 REV__ENSG00000101220|ENST00000379772|ADISSP REV__ENSG00000101220|ENST00000379772|ADISSP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.19964599609375 4 303.450026 1209.771 2.2769 0.00069092 -1.6439 -0.00049884 0.63299 0.00019208 303.44962617764855 42.683 0.058655 43.33 43.289 43.348 0.64693 6 4 2 0 0 0 0.12676 1 19552 19552 0.69767 0.69767 1 1807400 + 26985 10873 17445 17503 30515 30515 0.17450245072973303 RHLIKLFGVK 10 Unmodified _RHLIKLFGVK_ 0 0 0 REV__ENSG00000101220|ENST00000379772|ADISSP REV__ENSG00000101220|ENST00000379772|ADISSP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.1997375488281 4 303.450026 1209.771 2.2688 0.00068845 -1.0428 -0.00031642 1.226 0.00037203 303.4497226396771 44.008 0.40157 44.656 44.491 44.893 0.64872 27 21 2 0 0 0 0.12676 1 20185 20185 0.69767 0 1 1304100 + 26986 10873 17445 17503 30516 30516 0.17450245072973303 RHLILAAE 8 Unmodified _RHLILAAE_ 0 0 0 REV__ENST00000505313.1_1_5:109190900-109200853:+|nuORF REV__ENST00000505313.1_1_5:109190900-109200853:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 308.19708251953125 3 308.187143 921.5396 NaN NaN NaN NaN NaN NaN NaN 20.887 1 20.887 20.387 21.387 0 0 0 0 0.99035 1 9346 9346 1.6526 0 1 + 26987 11283 17446 17504 30517 30517 0.0756919737126509 RHLILAAE 8 Unmodified _RHLILAAE_ 0 0 0 REV__ENST00000505313.1_1_5:109190900-109200853:+|nuORF REV__ENST00000505313.1_1_5:109190900-109200853:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 308.1969909667969 3 308.187143 921.5396 NaN NaN NaN NaN NaN NaN NaN 27.327 1 27.327 26.827 27.827 0 0 0 0 0.99035 1 12303 12303 1.6526 0 1 + 26988 11283 17446 17504 30518 30518 0.0756919737126509 RHLILAAE 8 Unmodified _RHLILAAE_ 0 0 0 REV__ENST00000505313.1_1_5:109190900-109200853:+|nuORF REV__ENST00000505313.1_1_5:109190900-109200853:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.1971435546875 3 308.187143 921.5396 NaN NaN NaN NaN NaN NaN NaN 28.466 1 29.085 28.585 29.585 0.61947 0 0 0 0.99035 1 13053 13053 3.5965 0 1 + 26989 11283 17446 17504 30519 30519 0.0756919737126509 RHLKHKFRWHN 11 Unmodified _RHLKHKFRWHN_ 0 0 0 REV__ENST00000333003.9_1_12:95434350-95442961:-|nuORF REV__ENST00000333003.9_1_12:95434350-95442961:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 779.9354858398438 2 779.93436 1557.85417 NaN NaN NaN NaN NaN NaN NaN 85.648 1 85.676 85.176 86.176 0.028603 0 0 0 1.008 1 42922 42922 0.30703 0 1 + 26990 15393 17447 17505 30520 30520 0.0975537457354676 RHNLNLFLF 9 Unmodified _RHNLNLFLF_ 0 0 0 REV__ENST00000265748.6_2_7:36429459-36435956:+|nuORF REV__ENST00000265748.6_2_7:36429459-36435956:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 391.89007568359375 3 391.889097 1172.64546 2.5185 0.00098696 0.35976 0.00014099 2.8782 0.0011279 391.8892141931038 35.687 0.54241 35.687 35.457 35.999 0 84 28 4 0 0 0 0.09451 1 16256 16256 31.268 9.6782 1 13979000 + 26991 15036 17448 17506 30521 30521 0.06604533216727759 RHNLNLFLF 9 Unmodified _RHNLNLFLF_ 0 0 0 REV__ENST00000265748.6_2_7:36429459-36435956:+|nuORF REV__ENST00000265748.6_2_7:36429459-36435956:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 391.8901672363281 3 391.889097 1172.64546 2.4545 0.0009619 0.065745 2.5765E-05 2.5203 0.00098767 391.88913133530866 34.539 0.38565 35.328 35.215 35.6 0.78921 96 38 3 0 0 0 0.071101 1 15663 15663 29.841 0.40343 1 15374000 + 26992 15036 17448 17506 30522 30522 0.06604533216727759 RHPLVQRID 9 Unmodified _RHPLVQRID_ 0 0 0 REV__ENSG00000134569|ENST00000378623|LRP4 REV__ENSG00000134569|ENST00000378623|LRP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3328247070312 2 567.330539 1132.64652 4.3807 0.0024853 -0.56253 -0.00031914 3.8181 0.0021661 567.330323397266 103.06 0.16711 103.37 103.26 103.42 0.31863 13 5 3 0 0 0 1.2169 1 47649 47649 0.45834 0 1 967000 + 26993 11968 17449 17507 30523 30523 0.0855074758567298 RHPVGLLL 8 Unmodified _RHPVGLLL_ 0 0 0 REV__ENST00000512335.5_1_5:1630638-1632802:-|nuORF REV__ENST00000512335.5_1_5:1630638-1632802:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.1968078613281 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 22.662 1 23.303 22.803 23.803 0.64051 0 0 0 0.99035 1 10323 10323 0 0 1 + 26994 16944 17450 17508 30524 30524 0.10978091613583274 RHPVGLLL 8 Unmodified _RHPVGLLL_ 0 0 0 REV__ENST00000512335.5_1_5:1630638-1632802:-|nuORF REV__ENST00000512335.5_1_5:1630638-1632802:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.1968688964844 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 68.013 1 68.671 68.171 69.171 0.65777 0 0 0 0.99035 1 31177 31177 0 0 1 + 26995 16944 17450 17508 30525 30525 0.10978091613583274 RHPWLRRRLPK 11 Unmodified _RHPWLRRRLPK_ 0 0 0 nc|ENSG00000127334|Q92630-2|DYRK2;ENSG00000127334|ENST00000344096|DYRK2 nc|ENSG00000127334|Q92630-2|DYRK2 nc|ENSG00000127334|Q92630-2|DYRK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 757.96826171875 2 757.968203 1513.92185 NaN NaN NaN NaN NaN NaN NaN 72.824 1 72.824 72.324 73.324 0 0 0 0 1.0082 1 35436 35436 0 0 1 26996 2478 17451 17509 30526 30526 0.18544824504328972 RHQLKKKKKKK 11 Unmodified _RHQLKKKKKKK_ 0 0 0 AluSz_dup100734|chr21:42594283-42594606:-|1.2254318376354785|0.0495699698250003|4.63|532.0|9|2|sense AluSz_dup100734|chr21:42594283-42594606:-|1.2254318376354785|0.0495699698250003|4.63|532.0|9|2|sense AluSz_dup100734|chr21:42594283-42594606:-|1.2254318376354785|0.0495699698250003|4.63|532.0|9|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 725.4962158203125 2 725.496262 1448.97797 NaN NaN NaN NaN NaN NaN NaN 70.768 1 71.43 70.93 71.93 0.66209 0 0 0 1.0082 1 32433 32433 0 0 1 26997 48 17452 17510 30527 30527 0.2714403262114047 RHQRRHIRHLR 11 Unmodified _RHQRRHIRHLR_ 0 0 0 REV__ENSG00000122304|ENST00000241808|PRM2 REV__ENSG00000122304|ENST00000241808|PRM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 783.1153564453125 2 782.967057 1563.91956 NaN NaN NaN NaN NaN NaN NaN 105.34 1 105.39 104.89 105.89 0.050888 0 0 0 1.008 1 56978 56978 0.30703 0.30703 1 + 26998 11582 17453 17511 30528 30528 0.1601578881925434 RHRAKRQQK 9 Unmodified _RHRAKRQQK_ 0 0 0 REV__nc|ENSG00000186472|Q9Y6V0-6|PCLO;REV__ENSG00000164061|ENST00000296452|BSN REV__nc|ENSG00000186472|Q9Y6V0-6|PCLO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 403.2477722167969 3 403.246278 1206.717 3.151 0.0012706 0.67283 0.00027131 3.8238 0.0015419 403.24642865006285 99.779 0.16935 100.38 100.29 100.46 0.59717 25 8 4 0 0 0 1.231 1 46155 46155 0.23584 0 1 17485000 + 26999 14057;13056 17454 17512 30529 30529 0.12191465693967984 RHRFPGLRR 9 Unmodified _RHRFPGLRR_ 0 0 0 ENST00000302351.8_1_5:73936169-73936514:-|nuORF ENST00000302351.8_1_5:73936169-73936514:-|nuORF ENST00000302351.8_1_5:73936169-73936514:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.8588256835938 2 597.85759 1193.70063 NaN NaN NaN NaN NaN NaN NaN 109.2 1 109.8 109.3 110.3 0.60264 0 0 0 0.91238 1 50367 50367 0.52476 0.066424 1 27000 6812 17455 17513 30530 30530 0.11152384527872528 RHRFPLRMSRR 11 Unmodified _RHRFPLRMSRR_ 0 0 0 ENST00000471215.1_1_7:73111917-73112213:+|nuORF ENST00000471215.1_1_7:73111917-73112213:+|nuORF ENST00000471215.1_1_7:73111917-73112213:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 756.434326171875 2 756.43367 1510.85279 NaN NaN NaN NaN NaN NaN NaN 93.352 1 93.438 92.938 93.938 0.086212 0 0 0 1.0073 1 48882 48882 1.1933 0.84271 1 27001 8180 17456 17514 30531 30531 0.11779417213119814 RHRHHHYKKRF 11 Unmodified _RHRHHHYKKRF_ 0 0 0 nc|ENSG00000108375|Q68DV7-3|RNF43;nc|ENSG00000108375|Q68DV7-2|RNF43;ENSG00000108375|ENST00000407977|RNF43;nc|ENSG00000108375|Q68DV7-4|RNF43 nc|ENSG00000108375|Q68DV7-3|RNF43 nc|ENSG00000108375|Q68DV7-3|RNF43 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 801.4453735351562 2 801.442883 1600.87121 NaN NaN NaN NaN NaN NaN NaN 72.147 1 72.147 71.647 72.647 0 0 0 0 1.008 1 35081 35081 0.30703 0.30703 1 27002 1630 17457 17515 30532 30532 0.09481295179307381 RHRLKWFWWIP 11 Unmodified _RHRLKWFWWIP_ 0 0 0 REV__ENST00000460045.1_1_7:128034815-128035199:-|nuORF REV__ENST00000460045.1_1_7:128034815-128035199:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 812.956787109375 2 812.95423 1623.89391 NaN NaN NaN NaN NaN NaN NaN 39.554 1 40.354 39.854 40.854 0.80014 0 0 0 1.0082 1 17907 17907 0 0 1 + 27003 16475 17458 17516 30533 30533 0.1069150152425209 RHRNPALLSL 10 Unmodified _RHRNPALLSL_ 0 0 0 HERVH-int_dup4295|chr11:71737927-71740823:+|2.9111428382893654|0.2495776091037528|3.54|531.0|58|3|sense HERVH-int_dup4295|chr11:71737927-71740823:+|2.9111428382893654|0.2495776091037528|3.54|531.0|58|3|sense HERVH-int_dup4295|chr11:71737927-71740823:+|2.9111428382893654|0.2495776091037528|3.54|531.0|58|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 392.9045715332031 3 392.903518 1175.68872 2.7453 0.0010786 0.13158 5.1698E-05 2.8769 0.0011303 392.90354591483725 27.135 0.32751 27.757 27.599 27.927 0.62179 54 20 4 0 0 0 0.3681 1 12467 12467 26.021 3.3626 1 2198100 27004 9404 17459 17517 30534 30534 0.10790722994033786 RHRPHRPSRIS 11 Unmodified _RHRPHRPSRIS_ 0 0 0 ENST00000403150.5_1_7:1580798-1581936:+|nuORF ENST00000403150.5_1_7:1580798-1581936:+|nuORF ENST00000403150.5_1_7:1580798-1581936:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 699.9011840820312 2 699.900517 1397.78648 NaN NaN NaN NaN NaN NaN NaN 87.007 1 87.683 87.183 88.183 0.67555 0 0 0 1.0074 1 40077 40077 1.0715 0.67075 1 27005 7619 17460 17518 30535 30535 0.10349924642741826 RHRPRRDR 8 Unmodified _RHRPRRDR_ 0 0 0 ENST00000522759.1_1_8:21986032-21988020:-|nuORF ENST00000522759.1_1_8:21986032-21988020:-|nuORF ENST00000522759.1_1_8:21986032-21988020:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 574.8374633789062 2 574.834646 1147.65474 3.8566 0.0022169 1.3539 0.00077828 5.2105 0.0029952 574.8353918649292 90.853 0.27571 91.526 91.398 91.674 0.67271 36 17 3 0 0 0 0.7441 1 41808 41808 2.3027 0 1 418170 27006 8652 17461 17519 30536 30536 0.08681739345638562 RHRPRRDR 8 Unmodified _RHRPRRDR_ 0 0 0 ENST00000522759.1_1_8:21986032-21988020:-|nuORF ENST00000522759.1_1_8:21986032-21988020:-|nuORF ENST00000522759.1_1_8:21986032-21988020:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 574.834646 1147.65474 3.8178 0.0021946 2.2312 0.0012826 6.049 0.0034772 574.8354928172943 91.301 0.27284 91.553 91.385 91.658 0.25163 0.013458 0.00054105 NaN 2.3027 18 10 3 NaN NaN NaN NaN 0 NaN NaN 0 478930 27007 8652 17461 17519 0.08681739345638562 RHRRRKQLRR 10 Unmodified _RHRRRKQLRR_ 0 0 0 ENST00000593209.5_2_17:40340836-40341070:-|nuORF ENST00000593209.5_2_17:40340836-40341070:-|nuORF ENST00000593209.5_2_17:40340836-40341070:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.2381286621094 4 366.235713 1460.91375 2.6048 0.00095397 1.5708 0.00057529 4.1756 0.0015293 366.23669729871614 45.59 0.53631 45.59 45.288 45.824 0 60 25 3 0 0 0 0.12676 1 20927 20927 0.15932 0.064481 1 1680800 27008 9255 17462 17520 30537 30537 0.20172690307572338 RHRRRRWQLLD 11 Unmodified _RHRRRRWQLLD_ 0 0 0 REV__ENST00000589935.1_1_18:54318575-54318788:+|nuORF REV__ENST00000589935.1_1_18:54318575-54318788:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 796.462890625 2 796.461273 1590.90799 NaN NaN NaN NaN NaN NaN NaN 102.86 1 102.92 102.42 103.42 0.055092 0 0 0 1.0082 1 55817 55817 0 0 1 + 27009 17572 17463 17521 30538 30538 0.13617547005264896 RHRRTNRRLKL 11 Unmodified _RHRRTNRRLKL_ 0 0 0 REV__ENST00000264245.8_2_3:119013288-119013453:+|nuORF REV__ENST00000264245.8_2_3:119013288-119013453:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.6521301269531 3 502.650186 1504.92873 4.0612 0.0020414 0.50733 0.00025501 4.5685 0.0022964 502.64999527632057 101.26 0.10223 101.58 101.5 101.6 0.31412 10 3 4 0 0 0 0.91462 1 46866 46866 0.08335 0.08335 1 1613900 + 27010 15015 17464 17522 30539 30539 0.19646137384916074 RHRRTNRRLKL 11 Unmodified _RHRRTNRRLKL_ 0 0 0 REV__ENST00000264245.8_2_3:119013288-119013453:+|nuORF REV__ENST00000264245.8_2_3:119013288-119013453:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 502.650186 1504.92873 2.7082 0.0013613 0.85335 0.00042894 3.5615 0.0017902 502.6505989181571 101.36 0.066055 101.36 101.31 101.37 0 -0.10694 0.00015747 NaN 0.08335 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 2218700 + 27011 15015 17464 17522 0.19646137384916074 RHRRTNRRLKL 11 Unmodified _RHRRTNRRLKL_ 0 0 0 REV__ENST00000264245.8_2_3:119013288-119013453:+|nuORF REV__ENST00000264245.8_2_3:119013288-119013453:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 502.650186 1504.92873 4.0612 0.0020414 0.50733 0.00025501 4.5685 0.0022964 502.64999527632057 101.26 0.10223 101.58 101.5 101.6 0.31412 0.10694 -0.00036432 NaN 0.08335 10 3 4 NaN NaN NaN NaN 0 NaN NaN 0 1613900 + 27012 15015 17464 17522 0.19646137384916074 RHSHKKKWRNF 11 Unmodified _RHSHKKKWRNF_ 0 0 0 REV__ENST00000534774.1_1_11:108535817-108546498:+|nuORF REV__ENST00000534774.1_1_11:108535817-108546498:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.717529296875 4 381.716822 1522.83818 3.0312 0.0011571 -0.88319 -0.00033713 2.1481 0.00081995 381.71645927318684 29.188 0.31653 29.188 29.02 29.336 0 33 24 2 0 0 0 0.91184 1 13141 13141 0.32927 0.24592 1 217660 + 27013 10122 17465 17523 30540 30540 0.0976766833664442 RHSHKKKWRNF 11 Unmodified _RHSHKKKWRNF_ 0 0 0 REV__ENST00000534774.1_1_11:108535817-108546498:+|nuORF REV__ENST00000534774.1_1_11:108535817-108546498:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.62127685546875 3 508.620004 1522.83818 3.4101 0.0017344 -1.0613 -0.00053979 2.3488 0.0011946 508.6195087039781 29.176 0.37832 29.176 28.971 29.349 0 86 29 4 0 0 0 0.89309 2 13153 13153;13199 1.1098 1.0149 1 742640 + 27014 10122 17465 17523 30541;30542 30541 0.0976766833664442 RHSHKKKWRNF 11 Unmodified _RHSHKKKWRNF_ 0 0 0 REV__ENST00000534774.1_1_11:108535817-108546498:+|nuORF REV__ENST00000534774.1_1_11:108535817-108546498:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.955322265625 3 508.620004 1522.83818 3.2105 0.0016329 -1.169 -0.00059457 2.0415 0.0010383 508.6195025528937 28.02 0.21603 28.806 28.661 28.877 0.78627 44 18 3 0 0 0 0.89309 2 12578 12578;12624 1.1098 0.70149 1 729110 + 27015 10122 17465 17523 30543;30544 30543 0.0976766833664442 RHSHKKKWRNF 11 Unmodified _RHSHKKKWRNF_ 0 0 0 REV__ENST00000534774.1_1_11:108535817-108546498:+|nuORF REV__ENST00000534774.1_1_11:108535817-108546498:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.6217346191406 3 508.620004 1522.83818 3.3213 0.0016893 -0.65514 -0.00033322 2.6662 0.0013561 508.6198093102173 28.964 0.21952 29.225 29.15 29.37 0.2602 28 16 2 0 0 0 0.91111 1 13208 13208 0.40827 0.31342 1 742070 + 27016 10122 17465 17523 30545 30545 0.0976766833664442 RHSHKKKWRNF 11 Unmodified _RHSHKKKWRNF_ 0 0 0 REV__ENST00000534774.1_1_11:108535817-108546498:+|nuORF REV__ENST00000534774.1_1_11:108535817-108546498:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.6213684082031 3 508.620004 1522.83818 3.2761 0.0016663 -0.92309 -0.0004695 2.3531 0.0011968 508.6195372459098 28.711 0.31239 29.33 29.117 29.43 0.61947 34 14 3 0 0 0 0.89309 1 13132 13132 1.1098 0.70149 1 675000 + 27017 10122 17465 17523 30546 30546 0.0976766833664442 RHSHKKKWRNF 11 Unmodified _RHSHKKKWRNF_ 0 0 0 REV__ENST00000534774.1_1_11:108535817-108546498:+|nuORF REV__ENST00000534774.1_1_11:108535817-108546498:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 381.716822 1522.83818 3.0312 0.0011571 -0.88319 -0.00033713 2.1481 0.00081995 381.71645927318684 29.188 0.31653 29.188 29.02 29.336 0 0.17191 -5.1908E-05 NaN 0.32927 33 24 2 NaN NaN NaN NaN 0 NaN NaN 0 217660 + 27018 10122 17465 17523 0.0976766833664442 RHSHKKKWRNF 11 Unmodified _RHSHKKKWRNF_ 0 0 0 REV__ENST00000534774.1_1_11:108535817-108546498:+|nuORF REV__ENST00000534774.1_1_11:108535817-108546498:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 381.716822 1522.83818 2.5655 0.00097928 -0.66571 -0.00025411 1.8998 0.00072517 381.96703951890595 28.057 0.14916 28.844 28.716 28.866 0.78627 -0.17191 0.00028016 NaN 0.32927 14 11 2 NaN NaN NaN NaN 0 NaN NaN 0 395070 + 27019 10122 17465 17523 0.0976766833664442 RHSLIPRGL 9 Unmodified _RHSLIPRGL_ 0 0 0 REV__ENST00000397621.5_1_16:755533-755779:-|nuORF REV__ENST00000397621.5_1_16:755533-755779:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.2077941894531 3 350.217325 1047.63015 NaN NaN NaN NaN NaN NaN NaN 57.129 1 57.798 57.298 58.298 0.66829 0 0 0 0.89288 1 26141 26141 5.2969 0.76802 1 + 27020 16017 17466 17524 30547 30547 0.1082366641956014 RHVFLIKNKQ 10 Unmodified _RHVFLIKNKQ_ 0 0 0 ENST00000322940.10_1_9:111702093-111702270:+|nuORF ENST00000322940.10_1_9:111702093-111702270:+|nuORF ENST00000322940.10_1_9:111702093-111702270:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.8921508789062 2 641.890764 1281.76697 3.7286 0.0023934 -2.3132 -0.0014848 1.4154 0.00090853 641.8898343906046 83.549 0.22246 83.796 83.683 83.906 0.24722 23 15 2 0 0 0 0.90859 1 38460 38460 3.2813 0.54611 1 359940 27021 6943 17467 17525 30548 30548 0.13736155579272236 RHVFRQHRTL 10 Unmodified _RHVFRQHRTL_ 0 0 0 REV__ENSG00000105732|ENST00000359044|ZNF574 REV__ENSG00000105732|ENST00000359044|ZNF574 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 675.3866577148438 2 675.386711 1348.75887 NaN NaN NaN NaN NaN NaN NaN 20.727 1 21.381 20.881 21.881 0.65346 0 0 0 1.0015 1 9415 9415 0.40072 0.050084 1 + 27022 11051 17468 17526 30549 30549 0.09844021382514256 RHVPFPTI 8 Unmodified _RHVPFPTI_ 0 0 0 REV__ENST00000508686.1_3_5:72861812-72861932:+|nuORF REV__ENST00000508686.1_3_5:72861812-72861932:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 322.8560485839844 3 322.855505 965.544686 2.1596 0.00069723 0.63699 0.00020566 2.7966 0.00090289 322.8554934407299 40.82 0.27732 40.82 40.713 40.991 0 36 17 3 0 0 0 0.5047 2 18514 18514;18560 15.847 5.0233 1 3730800 + 27023 16956 17469 17527 30550;30551 30550 0.06053501233895986 RHVPFPTI 8 Unmodified _RHVPFPTI_ 0 0 0 REV__ENST00000508686.1_3_5:72861812-72861932:+|nuORF REV__ENST00000508686.1_3_5:72861812-72861932:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 322.8564147949219 3 322.855505 965.544686 2.2716 0.00073339 0.42265 0.00013646 2.6942 0.00086984 322.8554643144261 39.91 0.30204 40.71 40.531 40.833 0.80014 36 14 3 0 0 0 0.5047 1 18054 18054 15.847 5.0233 1 2823500 + 27024 16956 17469 17527 30552 30552 0.06053501233895986 RHVPFPTI 8 Unmodified _RHVPFPTI_ 0 0 0 REV__ENST00000508686.1_3_5:72861812-72861932:+|nuORF REV__ENST00000508686.1_3_5:72861812-72861932:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.8564147949219 3 322.855505 965.544686 2.5053 0.00080886 0.65415 0.0002112 3.1595 0.0010201 322.8555550087396 40.554 0.43533 40.823 40.551 40.986 0.26904 43 17 4 0 0 0 0.59268 1 18464 18464 10.824 4.1008 1 9392000 + 27025 16956 17469 17527 30553 30553 0.06053501233895986 RHVPFPTI 8 Unmodified _RHVPFPTI_ 0 0 0 REV__ENST00000508686.1_3_5:72861812-72861932:+|nuORF REV__ENST00000508686.1_3_5:72861812-72861932:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 322.8563537597656 3 322.855505 965.544686 2.4289 0.00078419 0.8788 0.00028372 3.3077 0.0010679 322.8554838182476 40.085 0.2714 40.727 40.569 40.84 0.64135 25 9 4 0 0 0 0.5047 1 18306 18306 15.847 5.0233 1 6174000 + 27026 16956 17469 17527 30554 30554 0.06053501233895986 RHVRGLRA 8 Unmodified _RHVRGLRA_ 0 0 0 ENST00000303795.8_2_2:68694745-68717359:+|nuORF;ENST00000529851.5_1_2:68694778-68729972:+|nuORF ENST00000303795.8_2_2:68694745-68717359:+|nuORF ENST00000303795.8_2_2:68694745-68717359:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 322.2125549316406 3 322.201898 963.583865 NaN NaN NaN NaN NaN NaN NaN 31.055 1 31.672 31.172 32.172 0.61737 0 0 0 0.99035 1 14247 14247 1.4819 0.41044 1 27027 6823 17470 17528 30555 30555 0.10061646308122363 RHWRRFTEWIW 11 Unmodified _RHWRRFTEWIW_ 0 0 0 REV__ENST00000416673.6_1_2:114369763-114384446:-|nuORF REV__ENST00000416673.6_1_2:114369763-114384446:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 836.9351806640625 2 836.934025 1671.8535 NaN NaN NaN NaN NaN NaN NaN 87.567 1 87.567 87.067 88.067 0 0 0 0 1.0082 1 45193 45193 0 0 1 + 27028 16135 17471 17529 30556 30556 0.04444535133825411 RHYIKRRQKRP 11 Unmodified _RHYIKRRQKRP_ 0 0 0 REV__nc|ENSG00000106823|O94769-2|ECM2 REV__nc|ENSG00000106823|O94769-2|ECM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 769.4681396484375 2 769.468567 1536.92258 NaN NaN NaN NaN NaN NaN NaN 43.699 1 44.348 43.848 44.848 0.64872 0 0 0 1.0082 1 20029 20029 0 0 1 + 27029 11101 17472 17530 30557 30557 0.17559619153371386 RIAKYKKK 8 Unmodified _RIAKYKKK_ 0 0 0 REV__ENSG00000183625|ENST00000395940|CCR3 REV__ENSG00000183625|ENST00000395940|CCR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.8441162109375 2 517.845294 1033.67603 NaN NaN NaN NaN NaN NaN NaN 86.159 1 86.159 85.659 86.659 0 0 0 0 0.99035 1 44093 44093 2.5775 0 1 + 27030 13940 17473 17531 30558 30558 0.1605431160178341 RICKGRRI 8 Unmodified _RICKGRRI_ 0 0 0 REV__ENST00000537598.5_1_12:69080821-69103022:+|nuORF REV__ENST00000537598.5_1_12:69080821-69103022:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.29278564453125 2 501.311095 1000.60764 NaN NaN NaN NaN NaN NaN NaN 102 1 102.6 102.1 103.1 0.59759 0 0 0 0.99035 1 47223 47223 0.69038 0 1 + 27031 17190 17474 17532 30559 30559 0.10735743750296933 RIDFDEFL 8 Unmodified _RIDFDEFL_ 0 0 0 ENSG00000101470|ENST00000372555|TNNC2 ENSG00000101470|ENST00000372555|TNNC2 ENSG00000101470|ENST00000372555|TNNC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.3683471679688 2 527.763832 1053.51311 NaN NaN NaN NaN NaN NaN NaN 82.862 1 82.862 82.362 83.362 0 0 0 0 0.95658 1 41609 41609 8.5933 0 1 27032 1299 17475 17533 30560 30560 -0.011505363107289668 RIDPLAPLRL 10 Unmodified _RIDPLAPLRL_ 0 0 0 nc|ENSG801|P63132|HERVK_113_pro nc|ENSG801|P63132|HERVK_113_pro nc|ENSG801|P63132|HERVK_113_pro MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 388.5830383300781 3 388.580152 1162.71863 NaN NaN NaN NaN NaN NaN NaN 51.039 1 51.699 51.199 52.199 0.65956 0 0 0 0.99812 1 23338 23338 1.5923 0 1 27033 9886 17476 17534 30561 30561 0.14377661939352038 RIDRSLVQRL 10 Unmodified _RIDRSLVQRL_ 0 0 0 REV__URB2|p.K790Rfs*14|1|0.09|ENSG00000135763|chr1:229636981-229636982|-/GAGAGGGCTATGAAGG|frameshift_variant REV__URB2|p.K790Rfs*14|1|0.09|ENSG00000135763|chr1:229636981-229636982|-/GAGAGGGCTATGAAGG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 628.3848266601562 2 628.383303 1254.75205 3.9768 0.002499 -0.54715 -0.00034382 3.4297 0.0021552 628.3826694194654 89.612 0.90478 90.29 89.962 90.867 0.67818 86 42 3 0 0 0 0.93788 1 41198 41198 1.3295 0.25807 1 1544400 + 27034 12036 17477 17535 30562 30562 0.1348666371127365 RIFPIRFFR 9 Unmodified _RIFPIRFFR_ 0 0 0 REV__nc|ENSG00000196586|Q9UM54-5|MYO6 REV__nc|ENSG00000196586|Q9UM54-5|MYO6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 417.92181396484375 3 417.92062 1250.74003 2.729 0.0011405 0.17674 7.3862E-05 2.9058 0.0012144 417.9205622017137 39.135 0.59007 39.932 39.534 40.124 0.79762 92 28 4 0 0 0 1.178 1 17707 17707 1.0715 1.0715 1 2132700 + 27035 14233 17478 17536 30563 30563 0.12469091758725881 RIHHFIIH 8 Unmodified _RIHHFIIH_ 0 0 0 nc|ENSG00000151572|Q32M45-2|ANO4;ENSG00000151572|ENST00000392977|ANO4;chr12:100740105-100901646|299|10.57|0.2|5.71|+|ENST00000644049|ANO4,ANO4;chr12:100733857-100739854|321|10.37|0.22|5.55|+|ENST00000644049|ANO4,ANO4 nc|ENSG00000151572|Q32M45-2|ANO4 nc|ENSG00000151572|Q32M45-2|ANO4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 358.2110595703125 3 358.210282 1071.60902 2.6346 0.00094375 -0.041916 -1.5015E-05 2.5927 0.00092873 358.20997231923485 39.146 0.8694 39.146 38.724 39.593 0 64 33 3 0 0 0 0.14304 1 17823 17823 1.8442 1.5752 1 740810 27036 136 17479 17537 30564 30564 0.07607701110691778 RIHRLRRKKAK 11 Unmodified _RIHRLRRKKAK_ 0 0 0 ENSG00000066735|ENST00000423312|KIF26A ENSG00000066735|ENST00000423312|KIF26A ENSG00000066735|ENST00000423312|KIF26A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 731.4883422851562 2 731.489302 1460.96405 NaN NaN NaN NaN NaN NaN NaN 69.389 1 70.05 69.55 70.55 0.66071 0 0 0 1.0082 1 31809 31809 0 0 1 27037 711 17480 17538 30565 30565 0.25200799912704497 RIHVMKKV 8 Unmodified _RIHVMKKV_ 0 0 0 ENST00000482108.1_2_7:94296225-94296471:+|nuORF ENST00000482108.1_2_7:94296225-94296471:+|nuORF ENST00000482108.1_2_7:94296225-94296471:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.81646728515625 2 505.818221 1009.62189 NaN NaN NaN NaN NaN NaN NaN 66.816 1 67.067 66.567 67.567 0.2501 0 0 0 0.99035 1 30608 30608 2.3027 0.82083 1 27038 8302 17481 17539 30566 30566 0.11746396178580198 RIIESGTRYAF 11 Unmodified _RIIESGTRYAF_ 0 0 0 REV__nc|ENSG00000102362|Q96C24-2|SYTL4 REV__nc|ENSG00000102362|Q96C24-2|SYTL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 656.8511962890625 2 656.854044 1311.69353 NaN NaN NaN NaN NaN NaN NaN 64.896 1 65.553 65.053 66.053 0.65672 0 0 0 1.0063 1 29750 29750 2.4985 1.0166 1 + 27039 10928 17482 17540 30567 30567 0.05015562346147817 RIKKPVHI 8 Unmodified _RIKKPVHI_ 0 0 0 ENST00000251809.4_1_8:101252790-101252838:+|nuORF ENST00000251809.4_1_8:101252790-101252838:+|nuORF ENST00000251809.4_1_8:101252790-101252838:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.9178466796875 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 61.405 1 61.405 60.905 61.905 0 0 0 0 0.99035 1 28636 28636 2.5775 0.27475 1 27040 6506 17483 17541 30568 30568 0.15458042430316254 RIKKPVHI 8 Unmodified _RIKKPVHI_ 0 0 0 ENST00000251809.4_1_8:101252790-101252838:+|nuORF ENST00000251809.4_1_8:101252790-101252838:+|nuORF ENST00000251809.4_1_8:101252790-101252838:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.83489990234375 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 71.509 1 71.767 71.267 72.267 0.25786 0 0 0 0.99035 1 32758 32758 2.5775 0.27475 1 27041 6506 17483 17541 30569 30569 0.15458042430316254 RIKKPVHI 8 Unmodified _RIKKPVHI_ 0 0 0 ENST00000251809.4_1_8:101252790-101252838:+|nuORF ENST00000251809.4_1_8:101252790-101252838:+|nuORF ENST00000251809.4_1_8:101252790-101252838:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.8355407714844 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 77.375 1 77.631 77.131 78.131 0.25533 0 0 0 0.99035 1 35634 35634 2.5775 0.27475 1 27042 6506 17483 17541 30570 30570 0.15458042430316254 RIKKPVHI 8 Unmodified _RIKKPVHI_ 0 0 0 ENST00000251809.4_1_8:101252790-101252838:+|nuORF ENST00000251809.4_1_8:101252790-101252838:+|nuORF ENST00000251809.4_1_8:101252790-101252838:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.8356628417969 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 96.682 1 96.96 96.46 97.46 0.27778 0 0 0 0.99035 1 44420 44420 2.5775 0.27475 1 27043 6506 17483 17541 30571 30571 0.15458042430316254 RIKKPVHI 8 Unmodified _RIKKPVHI_ 0 0 0 ENST00000251809.4_1_8:101252790-101252838:+|nuORF ENST00000251809.4_1_8:101252790-101252838:+|nuORF ENST00000251809.4_1_8:101252790-101252838:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.83465576171875 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 74.868 1 75.532 75.032 76.032 0.6644 0 0 0 0.99035 1 34479 34479 5.2307 0.47466 1 27044 6506 17483 17541 30572 30572 0.15458042430316254 RIKKPVHI 8 Unmodified _RIKKPVHI_ 0 0 0 ENST00000251809.4_1_8:101252790-101252838:+|nuORF ENST00000251809.4_1_8:101252790-101252838:+|nuORF ENST00000251809.4_1_8:101252790-101252838:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.8347473144531 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 77.041 1 77.704 77.204 78.204 0.66303 0 0 0 0.99035 1 35501 35501 2.5775 0.27475 1 27045 6506 17483 17541 30573 30573 0.15458042430316254 RIKLKLKLH 9 Unmodified _RIKLKLKLH_ 0 0 0 REV__POLI|p.G322Dfs*33|1|0.28|ENSG00000101751|chr18:54283004-54283004|G/-|frameshift_variant REV__POLI|p.G322Dfs*33|1|0.28|ENSG00000101751|chr18:54283004-54283004|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.9454956054688 2 574.903143 1147.79173 NaN NaN NaN NaN NaN NaN NaN 82.298 1 82.298 81.798 82.798 0 0 0 0 0.91206 1 41147 41147 0.6015 0 1 + 27046 18202 17484 17542 30574 30574 0.22374835452637853 RIKLPRQKKRY 11 Unmodified _RIKLPRQKKRY_ 0 0 0 REV__ENST00000378192.2_1_9:35723947-35725691:-|nuORF REV__ENST00000378192.2_1_9:35723947-35725691:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 743.3037719726562 2 743.478069 1484.94158 NaN NaN NaN NaN NaN NaN NaN 85.393 1 85.393 84.893 85.893 0 0 0 0 1.0082 1 43469 43469 0.30703 0.03801 1 + 27047 12097 17485 17543 30575 30575 0.2185115572444829 RIKMKYLK 8 Unmodified _RIKMKYLK_ 0 0 0 ENSG00000138622|ENST00000261917|HCN4 ENSG00000138622|ENST00000261917|HCN4 ENSG00000138622|ENST00000261917|HCN4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.8985900878906 3 360.563445 1078.66851 2.4142 0.00087048 -1.1162 -0.00040245 1.298 0.00046803 360.5628971597378 33.174 0.2667 33.794 33.666 33.932 0.62031 32 15 3 0 0 0 0.7471 1 15206 15206 0.40072 0 1 319230 27048 3103 17486 17544 30576 30576 0.1323183600984521 RIKMKYLK 8 Unmodified _RIKMKYLK_ 0 0 0 ENSG00000138622|ENST00000261917|HCN4 ENSG00000138622|ENST00000261917|HCN4 ENSG00000138622|ENST00000261917|HCN4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 360.563445 1078.66851 2.6337 0.00094963 -1.4476 -0.00052194 1.1862 0.00042769 360.56265964459703 33.771 0.25125 34.025 33.853 34.104 0.25389 0.11401 -9.3899E-05 NaN 0.40072 33 15 3 NaN NaN NaN NaN 0 NaN NaN 0 434830 27049 3103 17486 17544 0.1323183600984521 RIKQKYAEL 9 Unmodified _RIKQKYAEL_ 0 0 0 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 383.5653991699219 3 383.564391 1147.67134 2.7287 0.0010466 0.00027012 1.0361E-07 2.729 0.0010467 383.5642966190138 14.164 0.13691 14.164 14.077 14.214 0 23 9 3 0 0 0 0.04013 1 6231 6231 51.415 16.483 1 1138300 27050 5780 17487 17545 30577 30577 0.1034138266836635 RIKQKYAEL 9 Unmodified _RIKQKYAEL_ 0 0 0 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 383.565185546875 3 383.564391 1147.67134 2.2974 0.00088121 0.1141 4.3765E-05 2.4115 0.00092498 383.56452684756533 13.588 0.15921 13.831 13.741 13.9 0.24346 30 14 3 0 0 0 0.082627 1 5938 5938 37.075 24.9 1 1129800 27051 5780 17487 17545 30578 30578 0.1034138266836635 RIKQKYAEL 9 Unmodified _RIKQKYAEL_ 0 0 0 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 383.5655212402344 3 383.564391 1147.67134 2.4399 0.00093587 0.065376 2.5076E-05 2.5053 0.00096095 383.56454507704626 13.625 0.24348 13.932 13.806 14.05 0.30727 53 22 3 0 0 0 0.069974 1 6154 6154 40.239 15.248 1 1040100 27052 5780 17487 17545 30579 30579 0.1034138266836635 RIKQKYAEL 9 Unmodified _RIKQKYAEL_ 0 0 0 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 ENSG00000196878|ENST00000356082|LAMB3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 383.5653991699219 3 383.564391 1147.67134 2.9278 0.001123 -0.28131 -0.0001079 2.6465 0.0010151 383.5642413407471 13.1 0.25773 13.742 13.612 13.87 0.64272 38 16 3 0 0 0 0.05668 1 5878 5878 32.037 12.676 1 2523900 27053 5780 17487 17545 30580 30580 0.1034138266836635 RILKFLKLFI 10 Unmodified _RILKFLKLFI_ 0 0 0 ENST00000546531.5_1_12:49396684-49399341:-|nuORF;nc|ENSG00000181929|P54619-2|PRKAG1;ENSG00000181929|ENST00000548065|PRKAG1;nc|ENSG00000181929|P54619-3|PRKAG1 ENST00000546531.5_1_12:49396684-49399341:-|nuORF ENST00000546531.5_1_12:49396684-49399341:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 646.4408569335938 2 645.936651 1289.85875 3.6393 0.0023507 1.9186 0.0012393 5.5579 0.00359 646.4388534653763 36.106 0.33062 36.106 36.052 36.383 0 18 15 2 0 0 0 0.94364 1 16396 16396 0 0 1 495420 27054 5304 17488 17546 30581 30581 0.22541445943716099 RILKFLKLFI 10 Unmodified _RILKFLKLFI_ 0 0 0 ENST00000546531.5_1_12:49396684-49399341:-|nuORF;nc|ENSG00000181929|P54619-2|PRKAG1;ENSG00000181929|ENST00000548065|PRKAG1;nc|ENSG00000181929|P54619-3|PRKAG1 ENST00000546531.5_1_12:49396684-49399341:-|nuORF ENST00000546531.5_1_12:49396684-49399341:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 646.4431762695312 2 645.936651 1289.85875 3.7856 0.0024452 1.8426 0.0011902 5.6282 0.0036355 645.9376124182203 33.485 0.26296 34.105 33.932 34.195 0.62031 16 9 3 0 0 0 0.94364 1 15327 15327 0 0 1 991790 27055 5304 17488 17546 30582 30582 0.22541445943716099 RILKFLKLFI 10 Unmodified _RILKFLKLFI_ 0 0 0 ENST00000546531.5_1_12:49396684-49399341:-|nuORF;nc|ENSG00000181929|P54619-2|PRKAG1;ENSG00000181929|ENST00000548065|PRKAG1;nc|ENSG00000181929|P54619-3|PRKAG1 ENST00000546531.5_1_12:49396684-49399341:-|nuORF ENST00000546531.5_1_12:49396684-49399341:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 645.936651 1289.85875 3.7883 0.002447 1.7978 0.0011612 5.5861 0.0036083 645.9376708811407 34.053 0.40151 34.307 33.964 34.365 0.25389 0.10098 -2.1467E-05 NaN 0 38 19 3 NaN NaN NaN NaN 0 NaN NaN 0 1136500 27056 5304 17488 17546 0.22541445943716099 RILKLIVRRRN 11 Unmodified _RILKLIVRRRN_ 0 0 0 ENSG00000158352|ENST00000376020|SHROOM4 ENSG00000158352|ENST00000376020|SHROOM4 ENSG00000158352|ENST00000376020|SHROOM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 718.987548828125 2 718.986061 1435.95757 NaN NaN NaN NaN NaN NaN NaN 31.006 1 31.795 31.295 32.295 0.78879 0 0 0 1.0082 1 14007 14007 0 0 1 27057 3982 17489 17547 30583 30583 0.257028619613493 RILRLKRFF 9 Unmodified _RILRLKRFF_ 0 0 0 REV__ENSG00000171105|ENST00000302850|INSR REV__ENSG00000171105|ENST00000302850|INSR MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 313.0252990722656 4 312.956747 1247.79788 2.1334 0.00066765 3.9664 0.0012413 6.0998 0.001909 312.95723604127767 51.126 0.11649 51.387 51.333 51.449 0.26146 6 4 2 0 0 0 0.11434 1 23352 23352 0.26902 0.1097 1 225050 + 27058 13473 17490 17548 30584 30584 0.18389353684165144 RILRRRKGKRE 11 Unmodified _RILRRRKGKRE_ 0 0 0 nc|ENSG00000157060|Q9BZQ2-2|SHCBP1L;ENSG00000157060|ENST00000367547|SHCBP1L nc|ENSG00000157060|Q9BZQ2-2|SHCBP1L nc|ENSG00000157060|Q9BZQ2-2|SHCBP1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.6199951171875 3 489.986687 1466.93823 NaN NaN NaN NaN NaN NaN NaN 85.499 1 86.167 85.667 86.667 0.66728 0 0 0 1.008 1 39372 39372 0.073264 0 1 27059 3937 17491 17549 30585 30585 0.2234390567043647 RILSRKYRLLM 11 Unmodified _RILSRKYRLLM_ 0 0 0 REV__ENST00000450253.6_1_4:99801895-99802249:-|nuORF REV__ENST00000450253.6_1_4:99801895-99802249:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.6355285644531 3 483.634263 1447.88096 1.8549 0.00089711 1.3546 0.00065515 3.2096 0.0015523 483.63493673705165 106.03 0.16903 106.08 105.99 106.16 0.048363 15 7 3 0 0 0 0.91328 1 57375 57375 0.50596 0.09769 1 2344200 + 27060 16407 17492 17550 30586 30586 0.17493302349839723 RILSRKYRLLM 11 Unmodified _RILSRKYRLLM_ 0 0 0 REV__ENST00000450253.6_1_4:99801895-99802249:-|nuORF REV__ENST00000450253.6_1_4:99801895-99802249:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 483.634263 1447.88096 1.8549 0.00089711 1.3546 0.00065515 3.2096 0.0015523 483.63493673705165 106.03 0.16903 106.08 105.99 106.16 0.048363 0.080849 0.00029181 NaN 0.50596 15 7 3 NaN NaN NaN NaN 0 NaN NaN 0 2344200 + 27061 16407 17492 17550 0.17493302349839723 RILVPAVRK 9 Unmodified _RILVPAVRK_ 0 0 0 REV__ENSG00000136448|ENST00000258960|NMT1 REV__ENSG00000136448|ENST00000258960|NMT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.5557250976562 2 526.358568 1050.70258 NaN NaN NaN NaN NaN NaN NaN 82.003 1 82.25 81.75 82.75 0.24722 0 0 0 0.91238 1 37745 37745 0.52476 0 1 + 27062 12069 17493 17551 30587 30587 0.1792600049311659 RILYFMTRKGL 11 Unmodified _RILYFMTRKGL_ 0 0 0 nc|ENSG00000165097|Q8NB78-2|KDM1B;ENSG00000165097|ENST00000650836|KDM1B nc|ENSG00000165097|Q8NB78-2|KDM1B nc|ENSG00000165097|Q8NB78-2|KDM1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 699.409912109375 2 699.407932 1396.80131 4.5045 0.0031505 0.80496 0.000563 5.3094 0.0037135 699.408337014271 95.049 1.0921 95.316 94.733 95.825 0.2675 119 66 3 0 0 0 0.91345 1 43649 43649 0.30703 0 1 982990 27063 4370 17494 17552 30588 30588 0.11878235675840187 RIMLRLVTYKR 11 Unmodified _RIMLRLVTYKR_ 0 0 0 REV__ENSG00000101265|ENST00000379400|RASSF2 REV__ENSG00000101265|ENST00000379400|RASSF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.6359558105469 3 483.634263 1447.88096 3.3859 0.0016376 0.64373 0.00031133 4.0297 0.0019489 483.63446760159405 105.91 0.16968 106.51 106.41 106.58 0.59969 21 6 4 0 0 0 0.91168 1 48906 48906 1.0136 0.91873 1 3785600 + 27064 10877 17495 17553 30589 30589 0.17493302349839723 RIMLRLVTYKR 11 Unmodified _RIMLRLVTYKR_ 0 0 0 REV__ENSG00000101265|ENST00000379400|RASSF2 REV__ENSG00000101265|ENST00000379400|RASSF2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 483.634263 1447.88096 3.9209 0.0018963 -0.10196 -4.9311E-05 3.819 0.001847 483.6340592603531 105.94 0.17046 106.25 106.15 106.32 0.31657 -0.1262 -0.00065842 NaN 1.0136 16 6 3 NaN NaN NaN NaN 0 NaN NaN 0 2583000 + 27065 10877 17495 17553 0.17493302349839723 RIMLRLVTYKR 11 Unmodified _RIMLRLVTYKR_ 0 0 0 REV__ENSG00000101265|ENST00000379400|RASSF2 REV__ENSG00000101265|ENST00000379400|RASSF2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 483.634263 1447.88096 3.3859 0.0016376 0.64373 0.00031133 4.0297 0.0019489 483.63446760159405 105.91 0.16968 106.51 106.41 106.58 0.59969 0.1262 0.0004235 NaN 1.0136 21 6 4 NaN NaN NaN NaN 0 NaN NaN 0 3785600 + 27066 10877 17495 17553 0.17493302349839723 RINKRILAL 9 Unmodified _RINKRILAL_ 0 0 0 ENSG00000147065|ENST00000360270|MSN;nc|ENSG00000137710|P35241-4|RDX;ENSG00000137710|ENST00000645495|RDX;nc|ENSG00000137710|P35241-5|RDX ENSG00000147065|ENST00000360270|MSN ENSG00000147065|ENST00000360270|MSN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.2494201660156 3 366.248625 1095.72405 2.5659 0.00093974 0.097928 3.5866E-05 2.6638 0.00097561 366.2486846594493 28.511 0.26042 28.771 28.583 28.843 0.2602 36 15 3 0 0 0 0.1229 2 12935 12935;12992 28.495 17 1 829760 27067 3543 17496 17554 30590;30591 30590 0.18001385521824886 RINKRILAL 9 Unmodified _RINKRILAL_ 0 0 0 ENSG00000147065|ENST00000360270|MSN;nc|ENSG00000137710|P35241-4|RDX;ENSG00000137710|ENST00000645495|RDX;nc|ENSG00000137710|P35241-5|RDX ENSG00000147065|ENST00000360270|MSN ENSG00000147065|ENST00000360270|MSN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.2495422363281 3 366.248625 1095.72405 2.5214 0.00092347 0.13622 4.9892E-05 2.6576 0.00097336 366.2486944799952 27.994 0.34715 28.614 28.474 28.821 0.61947 52 22 3 0 0 0 0.1229 2 12831 12831;12877 28.495 8.08 1 631920 27068 3543 17496 17554 30592;30593 30592 0.18001385521824886 RIPAHRRLKY 10 Unmodified _RIPAHRRLKY_ 0 0 0 nc|ENSG00000102100|P78381-4|SLC35A2 nc|ENSG00000102100|P78381-4|SLC35A2 nc|ENSG00000102100|P78381-4|SLC35A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 655.4000854492188 2 655.40183 1308.78911 NaN NaN NaN NaN NaN NaN NaN 18.187 1 18.187 17.687 18.687 0 0 0 0 1.0015 1 8079 8079 0.40072 0.093686 1 27069 9578 17497 17555 30594 30594 0.14706380047687162 RIPVLVFHA 9 Unmodified _RIPVLVFHA_ 0 0 0 nc|ENSG00000119685|Q6EMB2-3|TTLL5;TTLL5|p.S1246Pfs*10|1|0.21|ENSG00000119685|chr14:75882897-75882897|T/-|frameshift_variant;ENSG00000119685|ENST00000298832|TTLL5 nc|ENSG00000119685|Q6EMB2-3|TTLL5 nc|ENSG00000119685|Q6EMB2-3|TTLL5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.1805419921875 3 351.218555 1050.63383 2.6862 0.00094344 -0.46887 -0.00016467 2.2173 0.00077877 351.21835396914645 65.924 0.60994 66.172 65.86 66.47 0.24847 41 34 2 0 0 0 0.11383 1 30230 30230 0.26902 0 1 360840 27070 2157 17498 17556 30595 30595 0.110543361934333 RIPVTVLP 8 Unmodified _RIPVTVLP_ 0 0 0 nc|ENSG00000100918|O95072-2|REC8;ENSG00000100918|ENST00000611366|REC8 nc|ENSG00000100918|O95072-2|REC8 nc|ENSG00000100918|O95072-2|REC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 447.79022216796875 2 447.792195 893.569838 NaN NaN NaN NaN NaN NaN NaN 101.76 1 102.35 101.85 102.85 0.59717 0 0 0 0.99035 1 47112 47112 0.69038 0 1 27071 1250 17499 17557 30596 30596 0.11879556036444683 RIQPFKRRRRR 11 Unmodified _RIQPFKRRRRR_ 0 0 0 REV__ENST00000475854.1_1_X:100914419-100914797:-|nuORF REV__ENST00000475854.1_1_X:100914419-100914797:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 784.9970703125 2 784.995283 1567.97601 NaN NaN NaN NaN NaN NaN NaN 25.615 1 25.883 25.383 26.383 0.26777 0 0 0 1.008 1 11627 11627 0.30703 0 1 + 27072 15364 17500 17558 30597 30597 0.21474416655883033 RIQSLKKKIRK 11 Unmodified _RIQSLKKKIRK_ 0 0 0 ENST00000508360.5_1_4:89653076-89671014:-|nuORF;ENST00000511573.5_1_4:89649686-89680064:-|nuORF;nc|ENSG00000138640|O94988-6|FAM13A;nc|ENSG00000138640|O94988-3|FAM13A;nc|ENSG00000138640|O94988-5|FAM13A;nc|ENSG00000138640|O94988-1|FAM13A;FAM13A|p.F877Rfs*3|1|0.19|ENSG00000138640|chr4:88737484-88737490|GAAGAAG/-|frameshift_variant;ENSG00000138640|ENST00000264344|FAM13A ENST00000508360.5_1_4:89653076-89671014:-|nuORF ENST00000508360.5_1_4:89653076-89671014:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 699.4758911132812 2 699.474995 1396.93544 NaN NaN NaN NaN NaN NaN NaN 70.85 1 71.106 70.606 71.606 0.25642 0 0 0 1.008 1 32447 32447 0.26902 0.26902 1 27073 3105 17501 17559 30598 30598 0.2528463749290495 RIQSVLCLP 9 Unmodified _RIQSVLCLP_ 0 0 0 ENSG00000112541|ENST00000539869|PDE10A;nc|ENSG00000112541|Q9Y233-1|PDE10A;nc|ENSG00000112541|Q9Y233-2|PDE10A ENSG00000112541|ENST00000539869|PDE10A ENSG00000112541|ENST00000539869|PDE10A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 343.53558349609375 3 343.535555 1027.58484 2.1422 0.00073591 -0.55713 -0.00019139 1.585 0.00054451 343.53501731888537 34.303 0.52241 35.092 34.73 35.252 0.78921 72 30 3 0 0 0 1.129 1 15564 15564 0.96228 0.33545 1 1409400 27074 1811 17502 17560 30599 30599 0.07214679842149962 RIQSVLCLP 9 Unmodified _RIQSVLCLP_ 0 0 0 ENSG00000112541|ENST00000539869|PDE10A;nc|ENSG00000112541|Q9Y233-1|PDE10A;nc|ENSG00000112541|Q9Y233-2|PDE10A ENSG00000112541|ENST00000539869|PDE10A ENSG00000112541|ENST00000539869|PDE10A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.5358581542969 3 343.535555 1027.58484 2.3405 0.00080403 -1.0058 -0.00034552 1.3347 0.00045851 343.53487585658445 34.424 0.54674 35.047 34.755 35.301 0.62294 62 21 4 0 0 0 1.129 1 15857 15857 0.96228 0 1 1901200 27075 1811 17502 17560 30600 30600 0.07214679842149962 RIQTWYLCRRW 11 Unmodified _RIQTWYLCRRW_ 0 0 0 REV__nc|ENSG00000112062|Q16539-4|MAPK14 REV__nc|ENSG00000112062|Q16539-4|MAPK14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.6126708984375 3 527.61375 1579.81942 NaN NaN NaN NaN NaN NaN NaN 99.223 1 99.82 99.32 100.32 0.59748 0 0 0 1.008 1 45866 45866 0.36667 0.27183 1 + 27076 17897 17503 17561 30601 30601 0.05270370650555378 RIRLLLQLVLI 11 Unmodified _RIRLLLQLVLI_ 0 0 0 REV__ENST00000367869.1_3_6:134274441-134290035:+|nuORF REV__ENST00000367869.1_3_6:134274441-134290035:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 675.0037841796875 2 675.471389 1348.92823 NaN NaN NaN NaN NaN NaN NaN 71.614 1 72.318 71.818 72.818 0.70386 0 0 0 1.0082 1 34406 34406 0 0 1 + 27077 15673 17504 17562 30602 30602 0.26771904892507337 RIRLVIVLLL 10 Unmodified _RIRLVIVLLL_ 0 0 0 ENST00000537613.5_1_16:71929413-71949560:+|nuORF ENST00000537613.5_1_16:71929413-71949560:+|nuORF ENST00000537613.5_1_16:71929413-71949560:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.434814453125 2 604.434276 1206.854 NaN NaN NaN NaN NaN NaN NaN 84.751 1 84.751 84.251 85.251 0 0 0 0 1.0001 1 42979 42979 1.6526 1.6526 1 27078 8778 17505 17563 30603 30603 0.25884561800967276 RIRLVKHIV 9 Unmodified _RIRLVKHIV_ 0 0 0 REV__ENST00000346365.8_1_9:34329596-34339047:+|nuORF REV__ENST00000346365.8_1_9:34329596-34339047:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.3832397460938 2 567.385117 1132.75568 NaN NaN NaN NaN NaN NaN NaN 62.718 1 63.44 62.94 63.94 0.72236 0 0 0 0.90611 1 29298 29298 2.0598 1.535 1 + 27079 15509 17506 17564 30604 30604 0.19461378275786956 RIRMKVKLLHP 11 Unmodified _RIRMKVKLLHP_ 0 0 0 ENST00000559596.5_1_15:41634623-41643204:+|nuORF ENST00000559596.5_1_15:41634623-41643204:+|nuORF ENST00000559596.5_1_15:41634623-41643204:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.6367492675781 3 464.299103 1389.87548 3.5483 0.0016475 0.10279 4.7726E-05 3.6511 0.0016952 464.29905858537614 109.71 1.7986 110.02 108.5 110.3 0.31015 148 75 2 0 0 0 0.91489 2 50181 50181;50304 0 0 1 371290 27080 8967 17507 17565 30605;30606 30605 0.19613623558052495 RIRPQKKRKRR 11 Unmodified _RIRPQKKRKRR_ 0 0 0 ENSG00000159714|ENST00000565726|ZDHHC1 ENSG00000159714|ENST00000565726|ZDHHC1 ENSG00000159714|ENST00000565726|ZDHHC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 761.5032958984375 2 761.505484 1520.99641 NaN NaN NaN NaN NaN NaN NaN 93.344 1 93.975 93.475 94.475 0.63115 0 0 0 1.0082 1 42941 42941 0 0 1 27081 4031 17508 17566 30607 30607 0.25675587315686244 RIRQKWIKWCH 11 Unmodified _RIRQKWIKWCH_ 0 0 0 REV__ENST00000438300.1_1_2:133070568-133076306:+|nuORF REV__ENST00000438300.1_1_2:133070568-133076306:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.5955200195312 3 518.62599 1552.85614 NaN NaN NaN NaN NaN NaN NaN 70.958 1 70.958 70.458 71.458 0 0 0 0 1.0059 1 34475 34475 1.2148 1.12 1 + 27082 16325 17509 17567 30608 30608 0.1018266726712227 RIRQRWLWRFE 11 Unmodified _RIRQRWLWRFE_ 0 0 0 REV__nc|ENSG00000152620|Q4G0N4-3|NADK2 REV__nc|ENSG00000152620|Q4G0N4-3|NADK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 823.1347045898438 2 823.46295 1644.91135 NaN NaN NaN NaN NaN NaN NaN 98.633 1 99.23 98.73 99.73 0.59748 0 0 0 1.0082 1 45503 45503 0 0 1 + 27083 12654 17510 17568 30609 30609 0.11468797059205826 RIRREFKKRRR 11 Unmodified _RIRREFKKRRR_ 0 0 0 ENST00000457348.5_1_1:203269502-203269697:-|nuORF ENST00000457348.5_1_1:203269502-203269697:-|nuORF ENST00000457348.5_1_1:203269502-203269697:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 801.0061645507812 2 801.00839 1600.00223 NaN NaN NaN NaN NaN NaN NaN 93.136 1 93.222 92.722 93.722 0.086212 0 0 0 1.0082 1 48721 48721 0 0 1 27084 8058 17511 17569 30610 30610 0.22622685827354871 RIRRWLRRFQA 11 Unmodified _RIRRWLRRFQA_ 0 0 0 nc|ENSG00000143442|Q7Z3K3-5|POGZ;nc|ENSG00000143442|Q7Z3K3-7|POGZ;nc|ENSG00000143442|Q7Z3K3-2|POGZ;nc|ENSG00000143442|Q7Z3K3-3|POGZ;nc|ENSG00000143442|Q7Z3K3-6|POGZ;ENSG00000143442|ENST00000271715|POGZ nc|ENSG00000143442|Q7Z3K3-5|POGZ nc|ENSG00000143442|Q7Z3K3-5|POGZ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 779.4715576171875 2 779.471109 1556.92767 NaN NaN NaN NaN NaN NaN NaN 78.593 1 79.058 78.558 79.558 0.4642 0 0 0 1.0082 1 38229 38229 0 0 1 27085 3369 17512 17570 30611 30611 0.1714792301597754 RIRTSRRTIIH 11 Unmodified _RIRTSRRTIIH_ 0 0 0 nc|ENSG00000103599|Q86VS3-3|IQCH;nc|ENSG00000103599|Q86VS3-4|IQCH;nc|ENSG00000103599|Q86VS3-2|IQCH;ENSG00000103599|ENST00000335894|IQCH nc|ENSG00000103599|Q86VS3-3|IQCH nc|ENSG00000103599|Q86VS3-3|IQCH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 704.9342651367188 2 704.934025 1407.8535 NaN NaN NaN NaN NaN NaN NaN 47.662 1 47.662 47.162 48.162 0 0 0 0 1.0082 1 21824 21824 0.35063 0 1 27086 1410 17513 17571 30612 30612 0.16588535133837468 RIRVRGLRRA 10 Unmodified _RIRVRGLRRA_ 0 0 0 ENST00000518385.5_3_8:97506087-97614626:+|nuORF;ENST00000302190.8_1_8:97506012-97605724:+|nuORF ENST00000518385.5_3_8:97506087-97614626:+|nuORF ENST00000518385.5_3_8:97506087-97614626:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 626.82080078125 2 626.912896 1251.81124 NaN NaN NaN NaN NaN NaN NaN 73.486 1 73.745 73.245 74.245 0.25876 0 0 0 0.9952 1 33754 33754 5.7319 0 1 27087 6810 17514 17572 30613 30613 0.19540604516100757 RIRWKLWSHRW 11 Unmodified _RIRWKLWSHRW_ 0 0 0 REV__ENST00000583590.5_1_17:61869884-61875419:+|nuORF REV__ENST00000583590.5_1_17:61869884-61875419:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 812.0201416015625 2 812.46021 1622.90587 NaN NaN NaN NaN NaN NaN NaN 100.41 1 100.72 100.22 101.22 0.30835 0 0 0 1.0082 1 46445 46445 0 0 1 + 27088 17523 17515 17573 30614 30614 0.11933118267415921 RIRWVFKRRL 10 Unmodified _RIRWVFKRRL_ 0 0 0 ENSG00000228607|ENST00000453129|CLDN25 ENSG00000228607|ENST00000453129|CLDN25 ENSG00000228607|ENST00000453129|CLDN25 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 715.4537963867188 2 715.454397 1428.89424 NaN NaN NaN NaN NaN NaN NaN 71.847 1 71.847 71.347 72.347 0 0 0 0 1.0003 1 34927 34927 1.4819 0.28856 1 27089 6175 17516 17574 30615 30615 0.1969492124410408 RIRYRFRRFIQ 11 Unmodified _RIRYRFRRFIQ_ 0 0 0 ENSG00000096968|ENST00000381652|JAK2 ENSG00000096968|ENST00000381652|JAK2 ENSG00000096968|ENST00000381652|JAK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 805.5155639648438 2 805.978767 1609.94298 NaN NaN NaN NaN NaN NaN NaN 94.024 1 94.024 93.524 94.524 0 0 0 0 1.0082 1 50322 50322 0 0 1 27090 1131 17517 17575 30616 30616 0.16240789813195988 RISELKSY 8 Unmodified _RISELKSY_ 0 0 0 nc|ENSG00000129566|Q99973-2|TEP1;ENSG00000129566|ENST00000262715|TEP1 nc|ENSG00000129566|Q99973-2|TEP1 nc|ENSG00000129566|Q99973-2|TEP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 332.52349853515625 3 332.522192 994.544745 NaN NaN NaN NaN NaN NaN NaN 13.15 1 13.15 12.65 13.65 0 0 0 0 0.97647 1 5743 5743 5.2969 1.3525 1 27091 2555 17518 17576 30617 30617 0.04725456443236453 RISLPLPNF 9 Unmodified _RISLPLPNF_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;PDPR-VIM|1|fusion;ENST00000469543.5_1_10:17277782-17277908:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.8151245117188 2 528.813659 1055.61277 2.573 0.0013606 0.38513 0.00020366 2.9581 0.0015643 528.8139150095697 78.331 0.48888 78.331 78.103 78.592 0 90 46 3 0 0 0 0.02812 2 38506 38443;38506 57.722 37.268 1 7623200 27092 483 17519 17577 30618;30619 30619 0.08718326093890028 RISLPLPNF 9 Unmodified _RISLPLPNF_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;PDPR-VIM|1|fusion;ENST00000469543.5_1_10:17277782-17277908:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.8150024414062 2 528.813659 1055.61277 2.5695 0.0013588 0.32787 0.00017338 2.8974 0.0015322 528.8137785971511 77.466 0.6515 78.027 77.626 78.278 0.5609 110 53 3 0 0 0 0.02812 4 37550 37493;37550;37600;37640 57.722 32.323 1 6918100 27093 483 17519 17577 30620;30621;30622;30623 30621 0.08718326093890028 RISLPLPNF 9 Unmodified _RISLPLPNF_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;PDPR-VIM|1|fusion;ENST00000469543.5_1_10:17277782-17277908:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.8157348632812 2 528.813659 1055.61277 3.0938 0.001636 0.071423 3.777E-05 3.1652 0.0016738 528.8135833584403 77.904 0.62921 78.157 77.842 78.471 0.25334 97 37 3 0 0 0 0.0024283 5 35914 35772;35818;35869;35914;35963 99.755 61.781 1 6735200 27094 483 17519 17577 30624;30625;30626;30627;30628 30627 0.08718326093890028 RISLPLPNF 9 Unmodified _RISLPLPNF_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;PDPR-VIM|1|fusion;ENST00000469543.5_1_10:17277782-17277908:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.8153076171875 2 528.813659 1055.61277 3.0875 0.0016327 0.35107 0.00018565 3.4385 0.0018183 528.8137753427454 77.478 0.62213 78.141 77.781 78.403 0.66302 110 43 3 0 0 0 0.0027913 6 35747 35595;35614;35650;35693;35747;35802 96.367 58.393 1 5571400 27095 483 17519 17577 30629;30630;30631;30632;30633;30634 30633 0.08718326093890028 RISYFSHF 8 Unmodified _RISYFSHF_ 0 0 0 ENST00000514719.1_1_5:145883057-145886815:+|nuORF ENST00000514719.1_1_5:145883057-145886815:+|nuORF ENST00000514719.1_1_5:145883057-145886815:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.8481140136719 3 352.846898 1055.51886 NaN NaN NaN NaN NaN NaN NaN 14.205 1 14.205 13.705 14.705 0 0 0 0 0.86524 1 6252 6252 10.824 3.5347 1 27096 8585 17520 17578 30635 30635 -0.006673930083934465 RISYFSHF 8 Unmodified _RISYFSHF_ 0 0 0 ENST00000514719.1_1_5:145883057-145886815:+|nuORF ENST00000514719.1_1_5:145883057-145886815:+|nuORF ENST00000514719.1_1_5:145883057-145886815:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 352.8479919433594 3 352.846898 1055.51886 2.1799 0.00076918 -0.067262 -2.3733E-05 2.1127 0.00074544 352.8469160203413 13.669 0.11786 13.912 13.811 13.929 0.24346 15 9 2 0 0 0 0.59268 1 5968 5968 10.824 2.0785 1 668670 27097 8585 17520 17578 30636 30636 -0.006673930083934465 RIVGAARTS 9 Unmodified _RIVGAARTS_ 0 0 0 ENST00000544134.5_1_12:7077746-7079730:-|nuORF ENST00000544134.5_1_12:7077746-7079730:-|nuORF ENST00000544134.5_1_12:7077746-7079730:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.77911376953125 2 465.777608 929.540663 3.0955 0.0014418 0.12917 6.0164E-05 3.2247 0.001502 465.7775874744987 89.8 0.41331 90.051 89.863 90.277 0.25137 41 17 3 0 0 0 1.129 1 41316 41316 1.8442 0.19162 1 2380600 27098 8830 17521 17579 30637 30637 0.07307411740168845 RIWQFKRREWK 11 Unmodified _RIWQFKRREWK_ 0 0 0 ENSG00000146247|ENST00000275034|PHIP ENSG00000146247|ENST00000275034|PHIP ENSG00000146247|ENST00000275034|PHIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 816.9647216796875 2 816.965326 1631.9161 NaN NaN NaN NaN NaN NaN NaN 85.295 1 85.324 84.824 85.824 0.028603 0 0 0 1.0082 1 42672 42672 0 0 1 27099 3508 17522 17580 30638 30638 0.12541681202014843 RIYIKHPHLF 10 Unmodified _RIYIKHPHLF_ 0 0 0 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.9280700683594 3 441.927663 1322.76116 2.8534 0.001261 -0.55986 -0.00024742 2.2935 0.0010136 441.9273304217242 49.471 0.37743 49.471 49.357 49.735 0 37 15 3 0 0 0 0.93503 1 22765 22765 1.9064 0.45126 1 1136100 27100 1297 17523 17581 30639 30639 0.11269057067602262 RIYIWTSPWHR 11 Unmodified _RIYIWTSPWHR_ 0 0 0 REV__ENST00000215832.10_1_22:22116732-22116828:-|nuORF REV__ENST00000215832.10_1_22:22116732-22116828:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.68011474609375 3 505.60536 1513.79425 NaN NaN NaN NaN NaN NaN NaN 68.452 1 69.154 68.654 69.654 0.70218 0 0 0 1.0073 1 32636 32636 0.40827 0 1 + 27101 14796 17524 17582 30640 30640 0.057906391196183904 RIYPKIQNWV 10 Unmodified _RIYPKIQNWV_ 0 0 0 REV__ENSG00000068097|ENST00000184956|HEATR6 REV__ENSG00000068097|ENST00000184956|HEATR6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 658.8775024414062 2 658.877322 1315.74009 NaN NaN NaN NaN NaN NaN NaN 59.87 1 60.535 60.035 61.035 0.66503 0 0 0 1.0003 1 27405 27405 1.4819 0 1 + 27102 10458 17525 17583 30641 30641 0.09485046968097777 RIYRKFQYLLN 11 Unmodified _RIYRKFQYLLN_ 0 0 0 ENST00000403963.5_1_7:14249142-14880939:-|nuORF;nc|ENSG00000136267|Q9Y6T7-2|DGKB;ENSG00000136267|ENST00000402815|DGKB;nc|ENSG00000136267|Q9Y6T7|DGKB ENST00000403963.5_1_7:14249142-14880939:-|nuORF ENST00000403963.5_1_7:14249142-14880939:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 757.3670043945312 2 757.435535 1512.85652 NaN NaN NaN NaN NaN NaN NaN 87.547 1 87.547 87.047 88.047 0 0 0 0 1.0073 1 45178 45178 1.1933 0.12188 1 27103 2939 17526 17584 30642 30642 0.12060365468028067 RKAESLHQMKG 11 Unmodified _RKAESLHQMKG_ 0 0 0 ENST00000424768.1_1_7:105926068-105926206:-|nuORF ENST00000424768.1_1_7:105926068-105926206:-|nuORF ENST00000424768.1_1_7:105926068-105926206:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 428.90130615234375 3 428.899556 1283.67684 2.2637 0.00097091 0.88246 0.00037849 3.1462 0.0013494 429.23416610225513 73.077 0.45894 73.077 72.868 73.327 0 114 50 3 0 0 0 0.904 1 35607 35607 2.2527 0.32522 1 4005200 27104 7787 17527 17585 30643 30643 0.04634738188497067 RKAGVAHS 8 Unmodified _RKAGVAHS_ 0 0 0 nc|ENSG00000099917|Q96RN5-3|MED15;nc|ENSG00000099917|Q96RN5-2|MED15;ENSG00000099917|ENST00000263205|MED15 nc|ENSG00000099917|Q96RN5-3|MED15 nc|ENSG00000099917|Q96RN5-3|MED15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 413.2392883300781 2 413.238119 824.461684 3.1879 0.0013173 -0.14078 -5.8176E-05 3.0471 0.0012592 413.2380057716327 96.279 0.62035 96.886 96.6 97.22 0.60768 67 30 3 0 0 0 0.7441 1 44248 44248 2.3027 0 1 1407900 27105 1160 17528 17586 30644 30644 0.04243184505889985 RKAINNRNRKT 11 Unmodified _RKAINNRNRKT_ 0 0 0 REV__ENSG00000115263|ENST00000418842|GCG REV__ENSG00000115263|ENST00000418842|GCG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 686.4141235351562 2 685.908008 1369.80146 4.5121 0.0030949 0.5766 0.00039549 5.0887 0.0034904 685.9083621922492 95.394 1.3047 95.661 95.107 96.411 0.2675 166 74 3 0 0 0 0.91184 1 43628 43628 0.96228 0.61164 1 1640800 + 27106 11350 17529 17587 30645 30645 0.1313537172004544 RKAMKKKKLK 10 Unmodified _RKAMKKKKLK_ 0 0 0 REV__ENSG00000178279|ENST00000312693|TNP2 REV__ENSG00000178279|ENST00000312693|TNP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 629.708251953125 2 629.928835 1257.84312 NaN NaN NaN NaN NaN NaN NaN 98.29 1 98.889 98.389 99.389 0.59885 0 0 0 1.0015 1 45299 45299 0.40072 0.093686 1 + 27107 13758 17530 17588 30646 30646 0.2245083615503063 RKATKILGIIL 11 Unmodified _RKATKILGIIL_ 0 0 0 ENSG00000179546|ENST00000374619|HTR1D ENSG00000179546|ENST00000374619|HTR1D ENSG00000179546|ENST00000374619|HTR1D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.28399658203125 3 409.283336 1224.82818 NaN NaN NaN NaN NaN NaN NaN 77.563 1 78.124 77.624 78.624 0.56091 0 0 0 1.0073 1 37614 37614 1.2148 1.0555 1 27108 5221 17531 17589 30647 30647 0.224756675586832 RKCLRKAQ 8 Unmodified _RKCLRKAQ_ 0 0 0 REV__nc|ENSG00000171056|Q9BT81-2|SOX7 REV__nc|ENSG00000171056|Q9BT81-2|SOX7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.80438232421875 2 501.803103 1001.59165 NaN NaN NaN NaN NaN NaN NaN 94.227 1 94.486 93.986 94.986 0.25975 0 0 0 0.99035 1 43301 43301 2.5775 0 1 + 27109 18044 17532 17590 30648 30648 0.09092037513391915 RKDNFQTIL 9 Unmodified _RKDNFQTIL_ 0 0 0 ENST00000461241.1_1_22:31523357-31529733:+|nuORF;nc|ENSG00000185133|Q15735-3|INPP5J;nc|ENSG00000185133|Q15735-2|INPP5J;ENSG00000185133|ENST00000331075|INPP5J ENST00000461241.1_1_22:31523357-31529733:+|nuORF ENST00000461241.1_1_22:31523357-31529733:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 378.8815002441406 3 378.880379 1133.61931 2.7573 0.0010447 -0.46901 -0.0001777 2.2883 0.00086699 378.88020477564675 34.793 0.20469 35.047 34.886 35.09 0.25389 13 11 2 0 0 0 0.22744 1 15849 15849 21.59 1.0092 1 1633600 27110 5491 17533 17591 30649 30649 0.05784219254633172 RKDSKKGPL 9 Unmodified _RKDSKKGPL_ 0 0 0 REV__nc|ENSG00000083642|Q9NTI5-2|PDS5B REV__nc|ENSG00000083642|Q9NTI5-2|PDS5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.5358581542969 3 343.545219 1027.61383 2.4614 0.00084559 0.1189 4.0847E-05 2.5803 0.00088644 343.5452821734068 36.005 0.23957 36.263 36.108 36.348 0.25768 16 12 2 0 0 0 1.0041 1 16438 16438 2.2828 0 1 268040 + 27111 10630 17534 17592 30650 30650 0.10112540462819197 RKEAIDSI 8 Unmodified _RKEAIDSI_ 0 0 0 REV__nc|ENSG00000244588|Q9H4I0-2|RAD21L1 REV__nc|ENSG00000244588|Q9H4I0-2|RAD21L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 311.17919921875 3 311.178425 930.513445 2.3369 0.00072719 0.28926 9.0011E-05 2.6261 0.0008172 311.1784822575253 27.66 0.33576 28.446 28.291 28.627 0.78627 120 30 7 0 0 0 0.40815 1 12404 12404 27.629 1.3607 1 3862500 + 27112 14638 17535 17593 30651 30651 0.04540883409140406 RKFHLRKRKFL 11 Unmodified _RKFHLRKRKFL_ 0 0 0 ENST00000342992.10_3_2:179540701-179542581:-|nuORF ENST00000342992.10_3_2:179540701-179542581:-|nuORF ENST00000342992.10_3_2:179540701-179542581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 764.9894409179688 2 764.988604 1527.96265 NaN NaN NaN NaN NaN NaN NaN 29.467 1 29.467 28.967 29.967 0 0 0 0 1.0082 1 13299 13299 0 0 1 27113 7089 17536 17594 30652 30652 0.21979165823950098 RKFKKIFL 8 Unmodified _RKFKKIFL_ 0 0 0 REV__ENST00000380888.4_1_20:29523054-29523153:-|nuORF REV__ENST00000380888.4_1_20:29523054-29523153:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 360.2226257324219 3 360.57445 1078.70152 2.5334 0.00091349 1.0846 0.00039109 3.6181 0.0013046 360.5747881183007 33.201 0.56171 33.201 32.727 33.289 0 52 38 2 0 0 0 0.14346 1 14945 14945 0 0 1 1453200 + 27114 15888 17537 17595 30653 30653 0.16531786124232895 RKFKVSYSLNG 11 Unmodified _RKFKVSYSLNG_ 0 0 0 nc|ENSG00000118257|O60462-6|NRP2;nc|ENSG00000118257|O60462-4|NRP2;nc|ENSG00000118257|O60462-5|NRP2;nc|ENSG00000118257|O60462-2|NRP2;ENSG00000118257|ENST00000357785|NRP2;nc|ENSG00000118257|O60462|NRP2 nc|ENSG00000118257|O60462-6|NRP2 nc|ENSG00000118257|O60462-6|NRP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 649.8654174804688 2 649.864412 1297.71427 NaN NaN NaN NaN NaN NaN NaN 22.988 1 23.629 23.129 24.129 0.64051 0 0 0 1.008 1 10481 10481 0.26902 0.26902 1 27115 2108 17538 17596 30654 30654 0.0773215272579364 RKFQSKAK 8 Unmodified _RKFQSKAK_ 0 0 0 REV__ENSG00000072958|ENST00000291439|AP1M1 REV__ENSG00000072958|ENST00000291439|AP1M1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.3786315917969 2 496.803626 991.592698 NaN NaN NaN NaN NaN NaN NaN 57.448 1 58.216 57.716 58.716 0.76861 0 0 0 0.99035 1 26306 26306 4.756 0 1 + 27116 10500 17539 17597 30655 30655 0.09656575153940139 RKGKRAAY 8 Unmodified _RKGKRAAY_ 0 0 0 ENST00000562995.1_1_16:89389583-89390830:+|nuORF ENST00000562995.1_1_16:89389583-89390830:+|nuORF ENST00000562995.1_1_16:89389583-89390830:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 317.19439697265625 3 317.194521 948.561733 NaN NaN NaN NaN NaN NaN NaN 66.003 1 66.659 66.159 67.159 0.65672 0 0 0 0.99035 1 30261 30261 0.45834 0 1 27117 9004 17540 17598 30656 30656 0.08539421839691386 RKHKRRPKVK 10 Unmodified _RKHKRRPKVK_ 0 0 0 NKTR|p.S1045Dfs*8|1|0.23|ENSG00000114857|chr3:42638836-42638837|-/GA|frameshift_variant;ENSG00000114857|ENST00000232978|NKTR;NKTR|p.N594Kfs*19|1|0.27|ENSG00000114857|chr3:42637481-42637482|-/A|frameshift_variant;NKTR|p.A881Lfs*115|1|0.07|ENSG00000114857|chr3:42638344-42638345|-/CTAAA|frameshift_variant;ENST00000472127.1_1_3:42672642-42674322:+|nuORF NKTR|p.S1045Dfs*8|1|0.23|ENSG00000114857|chr3:42638836-42638837|-/GA|frameshift_variant NKTR|p.S1045Dfs*8|1|0.23|ENSG00000114857|chr3:42638836-42638837|-/GA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 667.2286376953125 2 666.944196 1331.87384 NaN NaN NaN NaN NaN NaN NaN 77.67 1 78.231 77.731 78.731 0.56091 0 0 0 1.0003 1 37689 37689 1.4819 1.0812 1 27118 1926 17541 17599 30657 30657 0.22117750584266105 RKHKRRRRKQ 10 Unmodified _RKHKRRRRKQ_ 0 0 0 nc|ENSG00000107404|O14640-2|DVL1;ENSG00000107404|ENST00000378888|DVL1 nc|ENSG00000107404|O14640-2|DVL1 nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.98309326171875 3 483.646776 1447.9185 3.1147 0.0015064 -0.083023 -4.0154E-05 3.0317 0.0014663 483.64658647783597 45.289 0.8598 45.289 45.052 45.912 0 149 43 4 0 0 0 0.94099 3 20636 20636;20798;20843 0.69767 0.53834 1 5265200 27119 1598 17542 17600 30658;30659;30660 30658 0.21245574450313143 RKHKRRRRKQ 10 Unmodified _RKHKRRRRKQ_ 0 0 0 nc|ENSG00000107404|O14640-2|DVL1;ENSG00000107404|ENST00000378888|DVL1 nc|ENSG00000107404|O14640-2|DVL1 nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.64874267578125 3 483.646776 1447.9185 3.0357 0.0014682 -0.11605 -5.6129E-05 2.9196 0.0014121 483.6466545109606 44.574 0.87072 45.395 44.859 45.729 0.82075 76 45 2 0 0 0 0.94364 1 20306 20306 0.15932 0 1 2320200 27120 1598 17542 17600 30661 30661 0.21245574450313143 RKHKRRRRKQ 10 Unmodified _RKHKRRRRKQ_ 0 0 0 nc|ENSG00000107404|O14640-2|DVL1;ENSG00000107404|ENST00000378888|DVL1 nc|ENSG00000107404|O14640-2|DVL1 nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.6482849121094 3 483.646776 1447.9185 2.9132 0.001409 -0.2136 -0.00010331 2.6996 0.0013057 483.64651903102026 44.73 1.012 44.998 44.666 45.678 0.26768 112 46 4 0 0 0 0.94364 1 20454 20454 0.15932 0 1 4562200 27121 1598 17542 17600 30662 30662 0.21245574450313143 RKHKRRRRKQ 10 Unmodified _RKHKRRRRKQ_ 0 0 0 nc|ENSG00000107404|O14640-2|DVL1;ENSG00000107404|ENST00000378888|DVL1 nc|ENSG00000107404|O14640-2|DVL1 nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.6480712890625 3 483.646776 1447.9185 2.9552 0.0014293 0.10346 5.0039E-05 3.0586 0.0014793 483.64663331752143 45.389 0.63041 45.657 45.172 45.803 0.26768 73 26 3 0 0 0 0.94364 2 20605 20605;20712 0.15932 0 1 5376900 27122 1598 17542 17600 30663;30664 30663 0.21245574450313143 RKHKRRRRKQ 10 Unmodified _RKHKRRRRKQ_ 0 0 0 nc|ENSG00000107404|O14640-2|DVL1;ENSG00000107404|ENST00000378888|DVL1 nc|ENSG00000107404|O14640-2|DVL1 nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.6480712890625 3 483.646776 1447.9185 3.3153 0.0016034 0.18459 8.9275E-05 3.4999 0.0016927 483.9813333417344 44.029 0.23238 44.678 44.541 44.773 0.64872 16 8 2 0 0 0 0.94099 1 20145 20145 0.69767 0.53834 1 6214400 27123 1598 17542 17600 30665 30665 0.21245574450313143 RKHKRRRRKQ 10 Unmodified _RKHKRRRRKQ_ 0 0 0 nc|ENSG00000107404|O14640-2|DVL1;ENSG00000107404|ENST00000378888|DVL1 nc|ENSG00000107404|O14640-2|DVL1 nc|ENSG00000107404|O14640-2|DVL1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 483.646776 1447.9185 2.9552 0.0014293 0.10346 5.0039E-05 3.0586 0.0014793 483.64663331752143 45.389 0.63041 45.657 45.172 45.803 0.26768 0 0 NaN 0.15932 73 26 3 NaN NaN NaN NaN 0 NaN NaN 0 5376900 27124 1598 17542 17600 0.21245574450313143 RKHKRRRRKQR 11 Unmodified _RKHKRRRRKQR_ 0 0 0 nc|ENSG00000107404|O14640-2|DVL1;ENSG00000107404|ENST00000378888|DVL1 nc|ENSG00000107404|O14640-2|DVL1 nc|ENSG00000107404|O14640-2|DVL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 322.18780517578125 5 321.811198 1604.01961 1.8994 0.00061126 -1.5855 -0.00051024 0.31392 0.00010102 322.0114299492917 69.235 0.093414 69.896 69.83 69.924 0.66071 6 5 2 0 0 0 0.13295 1 31719 31719 0.094841 0.094841 1 329790 27125 1598 17543 17601 30666 30666 0.2417602615303167 RKHLKLHVF 9 Unmodified _RKHLKLHVF_ 0 0 0 REV__nc|ENSG00000057657|O75626-3|PRDM1 REV__nc|ENSG00000057657|O75626-3|PRDM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.2501220703125 3 393.248737 1176.72438 NaN NaN NaN NaN NaN NaN NaN 98.802 1 99.102 98.602 99.602 0.29987 0 0 0 0.91342 1 45555 45555 0.26902 0.033176 1 + 27126 10378 17544 17602 30667 30667 0.14308805241671507 RKHRYRLVLWL 11 Unmodified _RKHRYRLVLWL_ 0 0 0 REV__ENST00000366591.4_1_1:236305922-236343463:+|nuORF REV__ENST00000366591.4_1_1:236305922-236343463:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.986572265625 3 513.984283 1538.93102 3.54 0.0018195 1.5184 0.00078044 5.0584 0.0026 513.9852189585787 83.228 0.30249 83.889 83.734 84.036 0.66019 35 17 3 0 0 0 0.91378 1 38326 38326 0.094841 0.021578 1 895640 + 27127 10560 17545 17603 30668 30668 0.18311173070014775 RKHRYRLVLWL 11 Unmodified _RKHRYRLVLWL_ 0 0 0 REV__ENST00000366591.4_1_1:236305922-236343463:+|nuORF REV__ENST00000366591.4_1_1:236305922-236343463:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 513.984283 1538.93102 3.3839 0.0017393 1.3954 0.00071723 4.7794 0.0024565 513.9851316566081 83.684 0.59866 83.932 83.719 84.317 0.24722 0.021499 -8.2629E-05 NaN 0.094841 52 37 2 NaN NaN NaN NaN 0 NaN NaN 0 427480 + 27128 10560 17545 17603 0.18311173070014775 RKHRYRLVLWL 11 Unmodified _RKHRYRLVLWL_ 0 0 0 REV__ENST00000366591.4_1_1:236305922-236343463:+|nuORF REV__ENST00000366591.4_1_1:236305922-236343463:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 513.984283 1538.93102 3.54 0.0018195 1.5184 0.00078044 5.0584 0.0026 513.9852189585787 83.228 0.30249 83.889 83.734 84.036 0.66019 -0.021499 0.00010701 NaN 0.094841 35 17 3 NaN NaN NaN NaN 0 NaN NaN 0 895640 + 27129 10560 17545 17603 0.18311173070014775 RKICGKQLVL 10 Unmodified _RKICGKQLVL_ 0 0 0 ENST00000216468.7_1_14:77812735-77812792:-|nuORF ENST00000216468.7_1_14:77812735-77812792:-|nuORF ENST00000216468.7_1_14:77812735-77812792:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 386.57928466796875 3 386.577754 1156.71143 2.6565 0.0010269 0.56423 0.00021812 3.2207 0.0012451 386.5779951548333 32.829 0.2505 32.829 32.712 32.962 0 28 15 2 0 0 0 0.84709 1 14881 14881 3.3196 0 1 309820 27130 6407 17546 17604 30669 30669 0.13934606067300592 RKICGKQLVL 10 Unmodified _RKICGKQLVL_ 0 0 0 ENST00000216468.7_1_14:77812735-77812792:-|nuORF ENST00000216468.7_1_14:77812735-77812792:-|nuORF ENST00000216468.7_1_14:77812735-77812792:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 386.5787048339844 3 386.577754 1156.71143 3.1067 0.001201 -0.56037 -0.00021663 2.5464 0.00098437 386.57766615955575 32.56 0.35114 32.814 32.668 33.019 0.25452 47 17 4 0 0 0 0.66557 1 14881 14881 8.9762 0 1 1536900 27131 6407 17546 17604 30670 30670 0.13934606067300592 RKICGKQLVL 10 Unmodified _RKICGKQLVL_ 0 0 0 ENST00000216468.7_1_14:77812735-77812792:-|nuORF ENST00000216468.7_1_14:77812735-77812792:-|nuORF ENST00000216468.7_1_14:77812735-77812792:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 386.5789794921875 3 386.577754 1156.71143 2.7563 0.0010655 -0.042165 -1.63E-05 2.7141 0.0010492 386.57783200807955 31.947 0.43518 32.564 32.394 32.83 0.61736 54 23 3 0 0 0 0.66557 1 14621 14621 8.9762 0 1 1482700 27132 6407 17546 17604 30671 30671 0.13934606067300592 RKIFFLILLVL 11 Unmodified _RKIFFLILLVL_ 0 0 0 REV__L1CAM|p.C1141F|1|0.12|ENSG00000198910|chrX:153863918-153863918|C/A|missense_variant REV__L1CAM|p.C1141F|1|0.12|ENSG00000198910|chrX:153863918-153863918|C/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 688.0759887695312 2 687.965409 1373.91626 NaN NaN NaN NaN NaN NaN NaN 78.957 1 79.421 78.921 79.921 0.4642 0 0 0 1.0082 1 38479 38479 0 0 1 + 27133 17752 17547 17605 30672 30672 0.2442628814933414 RKIINPCVKRP 11 Unmodified _RKIINPCVKRP_ 0 0 0 REV__ENSG00000159527|ENST00000683862|PGLYRP3 REV__ENSG00000159527|ENST00000683862|PGLYRP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.9406433105469 3 441.939575 1322.79689 2.657 0.0011742 1.0865 0.00048015 3.7434 0.0016544 441.9399701077559 54.474 0.45411 54.739 54.456 54.91 0.26462 51 20 3 0 0 0 0.89309 1 24919 24919 1.1098 0.096179 1 1180800 + 27134 12856 17548 17606 30673 30673 0.1484077125294334 RKIINPCVKRP 11 Unmodified _RKIINPCVKRP_ 0 0 0 REV__ENSG00000159527|ENST00000683862|PGLYRP3 REV__ENSG00000159527|ENST00000683862|PGLYRP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.9414367675781 3 441.939575 1322.79689 2.7476 0.0012143 0.89678 0.00039632 3.6443 0.0016106 441.9398305524471 55.913 0.26292 56.179 55.999 56.262 0.26543 17 10 2 0 0 0 0.89309 1 25575 25575 1.1098 0.096179 1 707720 + 27135 12856 17548 17606 30674 30674 0.1484077125294334 RKIINPCVKRP 11 Unmodified _RKIINPCVKRP_ 0 0 0 REV__ENSG00000159527|ENST00000683862|PGLYRP3 REV__ENSG00000159527|ENST00000683862|PGLYRP3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 441.939575 1322.79689 3.008 0.0013294 0.50108 0.00022145 3.5091 0.0015508 441.939870465558 54.989 0.26811 54.989 54.757 55.025 0 0.021891 -0.00036716 NaN 1.1098 35 25 2 NaN NaN NaN NaN 0 NaN NaN 0 806070 + 27136 12856 17548 17606 0.1484077125294334 RKIINPCVKRP 11 Unmodified _RKIINPCVKRP_ 0 0 0 REV__ENSG00000159527|ENST00000683862|PGLYRP3 REV__ENSG00000159527|ENST00000683862|PGLYRP3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 441.939575 1322.79689 2.4745 0.0010936 0.62034 0.00027415 3.0949 0.0013677 442.2740310835994 54.219 0.42262 55.015 54.675 55.097 0.79552 0.047369 -0.00020905 NaN 1.1098 30 23 2 NaN NaN NaN NaN 0 NaN NaN 0 381970 + 27137 12856 17548 17606 0.1484077125294334 RKIINPCVKRP 11 Unmodified _RKIINPCVKRP_ 0 0 0 REV__ENSG00000159527|ENST00000683862|PGLYRP3 REV__ENSG00000159527|ENST00000683862|PGLYRP3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 441.939575 1322.79689 2.657 0.0011742 1.0865 0.00048015 3.7434 0.0016544 441.9399701077559 54.474 0.45411 54.739 54.456 54.91 0.26462 -0.22863 0.00040894 NaN 1.1098 51 20 3 NaN NaN NaN NaN 0 NaN NaN 0 1180800 + 27138 12856 17548 17606 0.1484077125294334 RKIKNYRLPHV 11 Unmodified _RKIKNYRLPHV_ 0 0 0 REV__ENSG00000169508|ENST00000376414|GPR183 REV__ENSG00000169508|ENST00000376414|GPR183 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 712.4364624023438 2 712.43587 1422.85719 NaN NaN NaN NaN NaN NaN NaN 69.839 1 70.096 69.596 70.596 0.25642 0 0 0 1.008 1 31981 31981 0.30703 0 1 + 27139 13392 17549 17607 30675 30675 0.1626720490767184 RKIYKAYKWLR 11 Unmodified _RKIYKAYKWLR_ 0 0 0 nc|ENSG00000139990|Q96JK2-2|DCAF5;nc|ENSG00000139990|Q96JK2-3|DCAF5;ENSG00000139990|ENST00000341516|DCAF5 nc|ENSG00000139990|Q96JK2-2|DCAF5 nc|ENSG00000139990|Q96JK2-2|DCAF5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 762.7579956054688 2 762.96172 1523.90889 NaN NaN NaN NaN NaN NaN NaN 85.562 1 85.562 85.062 86.062 0 0 0 0 1.008 1 43602 43602 0.30703 0 1 27140 3175 17550 17608 30676 30676 0.16788948601583797 RKKAAPVP 8 Unmodified _RKKAAPVP_ 0 0 0 ENSG00000275342|ENST00000615670|PRAG1 ENSG00000275342|ENST00000615670|PRAG1 ENSG00000275342|ENST00000615670|PRAG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 433.7833251953125 2 433.782162 865.549771 NaN NaN NaN NaN NaN NaN NaN 46.263 1 46.529 46.029 47.029 0.26561 0 0 0 0.99035 1 21147 21147 2.5775 0 1 27141 6346 17551 17609 30677 30677 0.11161805096503485 RKKAAPVP 8 Unmodified _RKKAAPVP_ 0 0 0 ENSG00000275342|ENST00000615670|PRAG1 ENSG00000275342|ENST00000615670|PRAG1 ENSG00000275342|ENST00000615670|PRAG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 433.7822265625 2 433.782162 865.549771 NaN NaN NaN NaN NaN NaN NaN 46.374 1 46.639 46.139 47.139 0.26561 0 0 0 0.99035 1 21196 21196 2.5775 0 1 27142 6346 17551 17609 30678 30678 0.11161805096503485 RKKADPIDI 9 Unmodified _RKKADPIDI_ 0 0 0 REV__nc|ENSG00000099875|Q9HBH9-2|MKNK2 REV__nc|ENSG00000099875|Q9HBH9-2|MKNK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.54559326171875 3 352.545108 1054.61349 2.5582 0.00090189 -0.29216 -0.000103 2.2661 0.00079889 352.54498491714 13.942 0.14314 13.942 13.878 14.021 0 25 8 4 0 0 0 0.053359 1 6124 6124 45.74 1.348 1 5614500 + 27143 10791 17552 17610 30679 30679 0.08837120742941806 RKKADPIDI 9 Unmodified _RKKADPIDI_ 0 0 0 REV__nc|ENSG00000099875|Q9HBH9-2|MKNK2 REV__nc|ENSG00000099875|Q9HBH9-2|MKNK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 352.5459899902344 3 352.545108 1054.61349 2.0393 0.00071895 0.29347 0.00010346 2.3328 0.00082241 352.5451802849254 13.121 0.27341 13.364 13.257 13.53 0.24346 64 21 4 0 0 0 0.053359 1 5735 5735 45.74 5.5007 1 3727500 + 27144 10791 17552 17610 30680 30680 0.08837120742941806 RKKADPIDI 9 Unmodified _RKKADPIDI_ 0 0 0 REV__nc|ENSG00000099875|Q9HBH9-2|MKNK2 REV__nc|ENSG00000099875|Q9HBH9-2|MKNK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.54608154296875 3 352.545108 1054.61349 1.9795 0.00069786 0.19635 6.9222E-05 2.1758 0.00076708 352.54522902134653 13.088 0.35518 13.395 13.216 13.571 0.30727 66 19 5 0 0 0 0.053359 2 5869 5869;5920 45.74 1.348 1 8961600 + 27145 10791 17552 17610 30681;30682 30681 0.08837120742941806 RKKADPIDI 9 Unmodified _RKKADPIDI_ 0 0 0 REV__nc|ENSG00000099875|Q9HBH9-2|MKNK2 REV__nc|ENSG00000099875|Q9HBH9-2|MKNK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.5462951660156 3 352.545108 1054.61349 2.7222 0.00095971 0.64585 0.00022769 3.3681 0.0011874 352.5454537965166 12.787 0.1692 13.43 13.345 13.514 0.64272 15 4 4 0 0 0 0.053359 1 5741 5741 45.74 1.348 1 17408000 + 27146 10791 17552 17610 30683 30683 0.08837120742941806 RKKADPIDI 9 Unmodified _RKKADPIDI_ 0 0 0 REV__nc|ENSG00000099875|Q9HBH9-2|MKNK2 REV__nc|ENSG00000099875|Q9HBH9-2|MKNK2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 352.545108 1054.61349 2.5582 0.00090189 -0.29216 -0.000103 2.2661 0.00079889 352.54498491714 13.942 0.14314 13.942 13.878 14.021 0 0 0 NaN 45.74 25 8 4 NaN NaN NaN NaN 0 NaN NaN 0 5614500 + 27147 10791 17552 17610 0.08837120742941806 RKKADPIDI 9 Unmodified _RKKADPIDI_ 0 0 0 REV__nc|ENSG00000099875|Q9HBH9-2|MKNK2 REV__nc|ENSG00000099875|Q9HBH9-2|MKNK2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 352.545108 1054.61349 1.9795 0.00069786 0.19635 6.9222E-05 2.1758 0.00076708 352.54522902134653 13.088 0.35518 13.395 13.216 13.571 0.30727 -0.0013315 -0.00011638 NaN 45.74 66 19 5 NaN NaN NaN NaN 0 NaN NaN 0 8961600 + 27148 10791 17552 17610 0.08837120742941806 RKKADPIDI 9 Unmodified _RKKADPIDI_ 0 0 0 REV__nc|ENSG00000099875|Q9HBH9-2|MKNK2 REV__nc|ENSG00000099875|Q9HBH9-2|MKNK2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 352.545108 1054.61349 2.7222 0.00095971 0.64585 0.00022769 3.3681 0.0011874 352.5454537965166 12.787 0.1692 13.43 13.345 13.514 0.64272 0.033266 0.00035903 NaN 45.74 15 4 4 NaN NaN NaN NaN 0 NaN NaN 0 17408000 + 27149 10791 17552 17610 0.08837120742941806 RKKAKKNKDKY 11 Unmodified _RKKAKKNKDKY_ 0 0 0 ENSG00000113282|ENST00000411809|CLINT1;nc|ENSG00000113282|Q14677-2|CLINT1;nc|ENSG00000113282|Q14677-3|CLINT1 ENSG00000113282|ENST00000411809|CLINT1 ENSG00000113282|ENST00000411809|CLINT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 703.9356689453125 2 703.93316 1405.85177 NaN NaN NaN NaN NaN NaN NaN 25.675 1 25.675 25.175 26.175 0 0 0 0 1.008 1 11531 11531 0.30703 0.30703 1 27150 1844 17553 17611 30684 30684 0.16507481325220397 RKKDKLHLN 9 Unmodified _RKKDKLHLN_ 0 0 0 REV__nc|ENSG00000117906|Q14257-2|RCN2 REV__nc|ENSG00000117906|Q14257-2|RCN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 576.8584594726562 2 576.354014 1150.69348 3.8127 0.0021975 0.3624 0.00020887 4.1751 0.0024064 576.8558057721777 13.342 0.2325 13.984 13.847 14.08 0.64272 24 17 2 0 0 0 1.1703 1 5990 5990 0 0 1 661750 + 27151 17909 17554 17612 30685 30685 0.12415607136813378 RKKEFHQQ 8 Unmodified _RKKEFHQQ_ 0 0 0 REV__nc|ENSG00000080839|P28749-2|RBL1 REV__nc|ENSG00000080839|P28749-2|RBL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 367.23382568359375 3 367.536835 1099.58868 2.433 0.0008942 0.50013 0.00018382 2.9331 0.001078 367.53711628495626 14.608 0.17043 14.915 14.849 15.02 0.3069 20 14 2 0 0 0 0.13978 1 6619 6619 9.3831 5.0539 1 156120 + 27152 10602 17555 17613 30686 30686 0.04286485660236394 RKKFKVTLI 9 Unmodified _RKKFKVTLI_ 0 0 0 REV__ENSG00000187210|ENST00000376730|GCNT1 REV__ENSG00000187210|ENST00000376730|GCNT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 378.2579345703125 3 378.257009 1131.7492 2.7818 0.0010522 0.11945 4.5183E-05 2.9013 0.0010974 378.25709041654255 14.908 1.1159 14.908 14.607 15.723 0 425 130 5 0 0 0 0.20384 1 6731 6731 27.629 0 1 5564300 + 27153 14093 17556 17614 30687 30687 0.18859440324422394 RKKIRKKELRK 11 Unmodified _RKKIRKKELRK_ 0 0 0 REV__ENSG00000198873|ENST00000392870|GRK5 REV__ENSG00000198873|ENST00000392870|GRK5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 742.00732421875 2 742.006993 1481.99943 NaN NaN NaN NaN NaN NaN NaN 77.46 1 78.123 77.623 78.623 0.66303 0 0 0 1.0082 1 35697 35697 0 0 1 + 27154 14372 17557 17615 30688 30688 0.27771417649864816 RKKKDLKIRKK 11 Unmodified _RKKKDLKIRKK_ 0 0 0 ENSG00000189171|ENST00000476133|S100A13 ENSG00000189171|ENST00000476133|S100A13 ENSG00000189171|ENST00000476133|S100A13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 720.9954833984375 2 720.996094 1439.97764 NaN NaN NaN NaN NaN NaN NaN 40.443 1 40.443 39.943 40.943 0 0 0 0 1.0082 1 18355 18355 0 0 1 27155 5707 17558 17616 30689 30689 0.27524612901265755 RKKKEKKEKKS 11 Unmodified _RKKKEKKEKKS_ 0 0 0 REV__nc|ENSG00000130396|P55196-2|AFDN REV__nc|ENSG00000130396|P55196-2|AFDN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.3077697753906 3 472.97182 1415.89363 2.9302 0.0013859 -1.0541 -0.00049858 1.8761 0.00088733 472.97118474956807 50.512 0.22095 50.512 50.367 50.588 0 18 9 2 0 0 0 0.91359 1 23109 23109 0.40827 0 1 2449000 + 27156 11815 17559 17617 30690 30690 0.20232037013715853 RKKKEKKEKKS 11 Unmodified _RKKKEKKEKKS_ 0 0 0 REV__nc|ENSG00000130396|P55196-2|AFDN REV__nc|ENSG00000130396|P55196-2|AFDN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 354.9813537597656 4 354.980684 1415.89363 2.617 0.00092897 -0.7662 -0.00027199 1.8508 0.00065699 354.9802711061764 50.508 0.22095 50.508 50.367 50.588 0 34 9 4 0 0 0 0.91459 1 23123 23123 0.094841 0 1 4710700 + 27157 11815 17559 17617 30691 30691 0.20232037013715853 RKKKEKKEKKS 11 Unmodified _RKKKEKKEKKS_ 0 0 0 REV__nc|ENSG00000130396|P55196-2|AFDN REV__nc|ENSG00000130396|P55196-2|AFDN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.972412109375 3 472.97182 1415.89363 2.9945 0.0014163 -1.095 -0.0005179 1.8995 0.00089843 473.3057222756755 49.938 0.22019 50.761 50.612 50.832 0.82285 27 8 4 0 0 0 0.91459 1 22741 22741 0.094841 0 1 1371200 + 27158 11815 17559 17617 30692 30692 0.20232037013715853 RKKKEKKEKKS 11 Unmodified _RKKKEKKEKKS_ 0 0 0 REV__nc|ENSG00000130396|P55196-2|AFDN REV__nc|ENSG00000130396|P55196-2|AFDN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.97283935546875 3 472.97182 1415.89363 2.9413 0.0013912 -0.94589 -0.00044738 1.9955 0.00094379 472.97121706821935 49.859 0.24327 50.121 49.98 50.223 0.26146 15 8 2 0 0 0 0.91459 1 22780 22780 0.094841 0 1 2751900 + 27159 11815 17559 17617 30693 30693 0.20232037013715853 RKKKEKKEKKS 11 Unmodified _RKKKEKKEKKS_ 0 0 0 REV__nc|ENSG00000130396|P55196-2|AFDN REV__nc|ENSG00000130396|P55196-2|AFDN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.9724426269531 3 472.97182 1415.89363 2.9064 0.0013746 -1.1292 -0.00053406 1.7772 0.00084058 472.97125014861945 50.079 0.39628 50.341 50.223 50.619 0.26146 27 14 2 0 0 0 0.91459 1 22842 22842 0.094841 0 1 3774200 + 27160 11815 17559 17617 30694 30694 0.20232037013715853 RKKKEKKEKKS 11 Unmodified _RKKKEKKEKKS_ 0 0 0 REV__nc|ENSG00000130396|P55196-2|AFDN REV__nc|ENSG00000130396|P55196-2|AFDN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 354.9814147949219 4 354.980684 1415.89363 2.5692 0.00091202 -0.57949 -0.00020571 1.9897 0.00070631 354.98039306902695 49.191 0.23729 49.846 49.713 49.95 0.65524 27 7 5 0 0 0 0.91459 1 22517 22517 0.094841 0 1 5011500 + 27161 11815 17559 17617 30695 30695 0.20232037013715853 RKKKEKKEKKS 11 Unmodified _RKKKEKKEKKS_ 0 0 0 REV__nc|ENSG00000130396|P55196-2|AFDN REV__nc|ENSG00000130396|P55196-2|AFDN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.3076171875 3 472.97182 1415.89363 3.0562 0.0014455 -1.1607 -0.000549 1.8954 0.00089648 472.97125128551284 49.419 0.70016 50.074 49.734 50.434 0.65524 34 24 2 0 0 0 0.91459 1 22568 22568 0.094841 0 1 2959100 + 27162 11815 17559 17617 30696 30696 0.20232037013715853 RKKKEKKEKKS 11 Unmodified _RKKKEKKEKKS_ 0 0 0 REV__nc|ENSG00000130396|P55196-2|AFDN REV__nc|ENSG00000130396|P55196-2|AFDN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 354.9812316894531 4 354.980684 1415.89363 2.5381 0.00090099 -0.54111 -0.00019208 1.997 0.0007089 354.98042099461264 49.426 0.44833 50.081 49.95 50.398 0.65525 53 15 4 0 0 0 0.91459 1 22654 22654 0.094841 0 1 7940400 + 27163 11815 17559 17617 30697 30697 0.20232037013715853 RKKKEKKEKKS 11 Unmodified _RKKKEKKEKKS_ 0 0 0 REV__nc|ENSG00000130396|P55196-2|AFDN REV__nc|ENSG00000130396|P55196-2|AFDN MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 472.97182 1415.89363 2.9945 0.0014163 -1.095 -0.0005179 1.8995 0.00089843 473.3057222756755 49.938 0.22019 50.761 50.612 50.832 0.82285 0.223 2.6953E-06 NaN 0.40827 27 8 4 NaN NaN NaN NaN 0 NaN NaN 0 1371200 + 27164 11815 17559 17617 0.20232037013715853 RKKKKKKH 8 Unmodified _RKKKKKKH_ 0 0 0 REV__ENSG00000105849|ENST00000222567|POLR1F REV__ENSG00000105849|ENST00000222567|POLR1F MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1081.083984375 1 1080.74764 1079.74037 3.2081 0.0034671 0.12283 0.00013274 3.3309 0.0035998 1080.7467253110312 39.656 0.14051 39.923 39.794 39.934 0.26696 6 4 2 0 0 0 0.7471 1 18017 18017 0.79363 0 1 170230 + 27165 11057 17560 17618 30698 30698 0.20368511478591245 RKKKKKKKK 9 Unmodified _RKKKKKKKK_ 0 0 0 ENST00000567998.5_1_16:28621482-28621938:-|nuORF;ENST00000439685.6_1_3:112358751-112359896:-|nuORF;ENST00000475181.1_1_3:112359734-112359896:-|nuORF REV__ENST00000521713.1_1_7:6179681-6199085:+|nuORF;ENST00000567998.5_1_16:28621482-28621938:-|nuORF;REV__TRHDE|p.F993Sfs*26|1|0.04|ENSG00000072657|chr12:72663096-72663096|T/-|frameshift_variant;REV__ENST00000340726.7_1_8:72274331-72274436:-|nuORF;REV__ENST00000359543.7_1_16:10626568-10626661:-|nuORF;REV__ENST00000378289.8_1_10:14940166-14940367:-|nuORF;REV__ENST00000439685.6_1_3:112358751-112359896:-|nuORF;REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF;REV__Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|19|1|sense;REV__nc|ENSG00000111142|P50579-3|METAP2 REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 600.8253173828125 2 600.442966 1198.87138 NaN NaN NaN NaN NaN NaN NaN 54.946 1 54.946 54.446 55.446 0 0 0 0 0.91452 1 25227 25227 0 0 1 27166 16641;15849;9063;10494;15600;16333;17697;17893;11079;15457 17561 17619 30699 30699 0.2798990212661465 RKKKKKKKKKL 11 Unmodified _RKKKKKKKKKL_ 0 0 0 REV__ENST00000378289.8_1_10:14940166-14940367:-|nuORF REV__ENST00000378289.8_1_10:14940166-14940367:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.02557373046875 3 481.024079 1440.05041 NaN NaN NaN NaN NaN NaN NaN 82.464 1 82.712 82.212 83.212 0.24722 0 0 0 1.0082 1 37959 37959 0 0 1 + 27167 15849 17562 17620 30700 30700 0.3479836669471297 RKKKKKKKTIK 11 Unmodified _RKKKKKKKTIK_ 0 0 0 ENST00000308713.9_3_16:29910378-29910510:-|nuORF ENST00000308713.9_3_16:29910378-29910510:-|nuORF ENST00000308713.9_3_16:29910378-29910510:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 707.5108032226562 2 707.508838 1413.00312 NaN NaN NaN NaN NaN NaN NaN 90.498 1 90.75 90.25 91.25 0.25137 0 0 0 1.0082 1 41616 41616 0 0 1 27168 6858 17563 17621 30701 30701 0.31314087423720594 RKKKKKKRKQ 10 Unmodified _RKKKKKKRKQ_ 0 0 0 ENSG00000055483|ENST00000449938|USP36 ENSG00000055483|ENST00000449938|USP36 ENSG00000055483|ENST00000449938|USP36 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 678.365478515625 2 678.475329 1354.93611 NaN NaN NaN NaN NaN NaN NaN 56.997 1 57.261 56.761 57.761 0.26444 0 0 0 1.002 1 26081 26081 0 0 1 27169 615 17564 17622 30702 30702 0.2728347693262094 RKKKKKLK 8 Unmodified _RKKKKKLK_ 0 0 0 REV__ENSG00000116273|ENST00000377648|PHF13 REV__ENSG00000116273|ENST00000377648|PHF13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.8887939453125 2 528.890035 1055.76552 NaN NaN NaN NaN NaN NaN NaN 18.742 1 18.957 18.457 19.457 0.21445 0 0 0 0.99035 1 8351 8351 0.69038 0 1 + 27170 11403 17565 17623 30703 30703 0.2398656628115532 RKKKKKRRKDK 11 Unmodified _RKKKKKRRKDK_ 0 0 0 REV__ENST00000442210.2_1_12:123465790-123467130:+|nuORF REV__ENST00000442210.2_1_12:123465790-123467130:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 750.0095825195312 2 750.010067 1498.00558 NaN NaN NaN NaN NaN NaN NaN 44.933 1 44.933 44.433 45.433 0 0 0 0 1.0082 1 20545 20545 0 0 1 + 27171 16351 17566 17624 30704 30704 0.2764993588136804 RKKKKKRRKDK 11 Unmodified _RKKKKKRRKDK_ 0 0 0 REV__ENST00000442210.2_1_12:123465790-123467130:+|nuORF REV__ENST00000442210.2_1_12:123465790-123467130:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.3456726074219 3 500.34247 1498.00558 NaN NaN NaN NaN NaN NaN NaN 102.71 1 103.31 102.81 103.81 0.59759 0 0 0 1.0082 1 47533 47533 0 0 1 + 27172 16351 17566 17624 30705 30705 0.2764993588136804 RKKKKRKRKG 10 Unmodified _RKKKKRKRKG_ 0 0 0 REV__ENSG00000055483|ENST00000449938|USP36 REV__ENSG00000055483|ENST00000449938|USP36 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 656.959716796875 2 656.959846 1311.90514 NaN NaN NaN NaN NaN NaN NaN 34.992 1 35.615 35.115 36.115 0.62294 0 0 0 1.002 1 16035 16035 0 0 1 + 27173 10371 17567 17625 30706 30706 0.2616632361837219 RKKKKSTKAKK 11 Unmodified _RKKKKSTKAKK_ 0 0 0 REV__nc|ENSG00000153487|Q9UK53-3|ING1 REV__nc|ENSG00000153487|Q9UK53-3|ING1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 665.9547729492188 2 665.953895 1329.89324 NaN NaN NaN NaN NaN NaN NaN 54.8 1 55.065 54.565 55.565 0.26543 0 0 0 1.0082 1 25048 25048 0 0 1 + 27174 12680 17568 17626 30707 30707 0.2414866208453077 RKKKLHGRVER 11 Unmodified _RKKKLHGRVER_ 0 0 0 REV__nc|ENSG00000196562|Q8IWU5-2|SULF2 REV__nc|ENSG00000196562|Q8IWU5-2|SULF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 703.9452514648438 2 703.944393 1405.87423 NaN NaN NaN NaN NaN NaN NaN 81.773 1 82.021 81.521 82.521 0.24803 0 0 0 1.0079 1 37639 37639 1.1933 0.84271 1 + 27175 14231 17569 17627 30708 30708 0.1875312551346724 RKKKLKKKKTL 11 Unmodified _RKKKLKKKKTL_ 0 0 0 ENST00000372600.8_1_9:131679364-131679535:+|nuORF ENST00000372600.8_1_9:131679364-131679535:+|nuORF ENST00000372600.8_1_9:131679364-131679535:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 700.0027465820312 2 700.003388 1397.99222 NaN NaN NaN NaN NaN NaN NaN 70.037 1 70.74 70.24 71.24 0.70302 0 0 0 1.0082 1 33542 33542 0 0 1 27176 7339 17570 17628 30709 30709 0.30914685049424406 RKKKMRKLFK 10 Unmodified _RKKKMRKLFK_ 0 0 0 ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 341.7290954589844 4 341.477418 1361.88056 2.3452 0.00080082 0.84237 0.00028765 3.1875 0.0010885 341.4776501684552 36.382 0.67952 36.382 36.105 36.785 0 79 31 4 0 0 0 0.94443 1 16519 16519 0 0 1 2213700 27177 8964 17571 17629 30710 30710 0.2140992742065464 RKKKMRKLFK 10 Unmodified _RKKKMRKLFK_ 0 0 0 ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 341.7293701171875 4 341.477418 1361.88056 2.4232 0.00082747 1.161 0.00039647 3.5843 0.0012239 341.4777833323989 38.61 0.25341 38.61 38.491 38.744 0 33 12 3 0 0 0 0.94443 1 17493 17493 0 0 1 1765600 27178 8964 17571 17629 30711 30711 0.2140992742065464 RKKKMRKLFK 10 Unmodified _RKKKMRKLFK_ 0 0 0 ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 341.47869873046875 4 341.477418 1361.88056 2.4181 0.00082573 0.73382 0.00025058 3.1519 0.0010763 341.4776221372868 38.852 1.0016 38.852 38.491 39.492 0 75 41 4 0 0 0 0.94443 1 17589 17589 0 0 1 1920000 27179 8964 17571 17629 30712 30712 0.2140992742065464 RKKKMRKLFK 10 Unmodified _RKKKMRKLFK_ 0 0 0 ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 341.4784851074219 4 341.477418 1361.88056 2.4225 0.00082722 0.67984 0.00023215 3.1023 0.0010594 341.7284221028839 39.63 0.76417 39.63 39.276 40.04 0 47 32 2 0 0 0 0.94443 1 17921 17921 0 0 1 939700 27180 8964 17571 17629 30713 30713 0.2140992742065464 RKKKMRKLFK 10 Unmodified _RKKKMRKLFK_ 0 0 0 ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 341.4784240722656 4 341.477418 1361.88056 2.4326 0.00083066 0.96139 0.00032829 3.3939 0.001159 341.4776150143172 38.323 0.60456 38.323 37.886 38.491 0 71 23 5 0 0 0 0.12676 1 17343 17343 0 0 1 4022100 27181 8964 17571 17629 30714 30714 0.2140992742065464 RKKKMRKLFK 10 Unmodified _RKKKMRKLFK_ 0 0 0 ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.9693603515625 3 454.967465 1361.88056 2.7515 0.0012518 1.2516 0.00056942 4.0031 0.0018213 454.9679062445874 35.366 0.52757 35.621 35.391 35.918 0.25524 34 19 3 0 0 0 0.94443 1 16167 16167 0 0 1 547150 27182 8964 17571 17629 30715 30715 0.2140992742065464 RKKKMRKLFK 10 Unmodified _RKKKMRKLFK_ 0 0 0 ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.4784851074219 4 341.477418 1361.88056 2.4152 0.00082472 1.0225 0.00034918 3.4377 0.0011739 341.4776972181007 38.232 2.1084 38.496 37.085 39.193 0.26408 143 71 4 0 0 0 0.94443 1 17453 17453 0 0 1 4108900 27183 8964 17571 17629 30716 30716 0.2140992742065464 RKKKMRKLFK 10 Unmodified _RKKKMRKLFK_ 0 0 0 ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.47845458984375 4 341.477418 1361.88056 2.5806 0.00088122 1.0065 0.00034371 3.5871 0.0012249 341.4777647626036 42.567 0.37988 42.837 42.511 42.891 0.27021 31 18 2 0 0 0 0.94443 1 19435 19435 0 0 1 925310 27184 8964 17571 17629 30717 30717 0.2140992742065464 RKKKMRKLFK 10 Unmodified _RKKKMRKLFK_ 0 0 0 ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.1393127441406 4 341.477418 1361.88056 2.3793 0.00081247 0.74307 0.00025374 3.1223 0.0010662 341.47755076019644 43.674 0.36886 43.944 43.614 43.983 0.2694 23 13 2 0 0 0 0.12676 1 19904 19904 0 0 1 485240 27185 8964 17571 17629 30718 30718 0.2140992742065464 RKKKMRKLFK 10 Unmodified _RKKKMRKLFK_ 0 0 0 ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 341.4789123535156 4 341.477418 1361.88056 2.4728 0.00084441 1.1743 0.00040099 3.6471 0.0012454 341.4777604632986 39.317 0.66526 39.955 39.532 40.197 0.63778 33 25 2 0 0 0 0.94443 2 17845 17845;17905 0 0 1 885500 27186 8964 17571 17629 30719;30720 30719 0.2140992742065464 RKKKMRKLFK 10 Unmodified _RKKKMRKLFK_ 0 0 0 ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 341.477418 1361.88056 2.3379 0.00079835 -0.26247 -8.9628E-05 2.0755 0.00070872 341.7279489486264 43.872 0.067017 43.872 43.838 43.905 0 -0.035821 -0.00066888 NaN 0 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 584480 27187 8964 17571 17629 0.2140992742065464 RKKKMRKLFK 10 Unmodified _RKKKMRKLFK_ 0 0 0 ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 341.477418 1361.88056 2.4225 0.00082722 0.67984 0.00023215 3.1023 0.0010594 341.7284221028839 39.63 0.76417 39.63 39.276 40.04 0 -0.19766 -0.00018581 NaN 0 47 32 2 NaN NaN NaN NaN 0 NaN NaN 0 939700 27188 8964 17571 17629 0.2140992742065464 RKKKMRKLFK 10 Unmodified _RKKKMRKLFK_ 0 0 0 ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 341.477418 1361.88056 2.3439 0.0008004 0.74124 0.00025312 3.0852 0.0010535 341.47768826902285 38.393 0.5613 39.19 39.138 39.699 0.79762 0.16904 5.7752E-06 NaN 0 40 26 2 NaN NaN NaN NaN 0 NaN NaN 0 526660 27189 8964 17571 17629 0.2140992742065464 RKKKMRKLFK 10 Unmodified _RKKKMRKLFK_ 0 0 0 ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 341.477418 1361.88056 2.3486 0.00080199 0.67114 0.00022918 3.0197 0.0010312 341.7284088656217 39.101 0.49841 39.899 39.558 40.056 0.79762 0.071006 -0.0001977 NaN 0 29 24 2 NaN NaN NaN NaN 0 NaN NaN 0 244280 27190 8964 17571 17629 0.2140992742065464 RKKKMRKLFK 10 Unmodified _RKKKMRKLFK_ 0 0 0 ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 341.477418 1361.88056 2.3335 0.00079683 0.82469 0.00028161 3.1582 0.0010784 341.4776443504831 37.358 0.62148 38.154 37.676 38.298 0.79552 0.0049926 -0.00035452 NaN 0 73 29 3 NaN NaN NaN NaN 0 NaN NaN 0 1609300 27191 8964 17571 17629 0.2140992742065464 RKKKMRKLFK 10 Unmodified _RKKKMRKLFK_ 0 0 0 ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 341.477418 1361.88056 2.4728 0.00084441 1.1743 0.00040099 3.6471 0.0012454 341.4777604632986 39.317 0.66526 39.955 39.532 40.197 0.63778 0.12665 0.00048954 NaN 0 33 25 2 NaN NaN NaN NaN 0 NaN NaN 0 885500 27192 8964 17571 17629 0.2140992742065464 RKKKMRKLFK 10 Unmodified _RKKKMRKLFK_ 0 0 0 ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF ENST00000559305.5_1_15:59191033-59209159:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 341.477418 1361.88056 2.3215 0.00079272 1.4291 0.00048799 3.7505 0.0012807 341.4778826740513 37.339 1.4499 37.969 37.191 38.641 0.62999 -0.17924 0.00047101 NaN 0 160 56 4 NaN NaN NaN NaN 0 NaN NaN 0 2186200 27193 8964 17571 17629 0.2140992742065464 RKKKRKKLKPV 11 Unmodified _RKKKRKKLKPV_ 0 0 0 ENST00000216190.12_1_22:36906978-36907630:-|nuORF ENST00000216190.12_1_22:36906978-36907630:-|nuORF ENST00000216190.12_1_22:36906978-36907630:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 704.9774780273438 2 705.00118 1407.98781 NaN NaN NaN NaN NaN NaN NaN 80.395 1 80.564 80.064 81.064 0.16862 0 0 0 1.008 1 39395 39395 0.35063 0.043601 1 27194 6405 17572 17630 30721 30721 0.3001322062652889 RKKKSEKEKKK 11 Unmodified _RKKKSEKEKKK_ 0 0 0 REV__ENST00000321892.8_1_17:65978529-65978847:+|nuORF REV__ENST00000321892.8_1_17:65978529-65978847:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 354.9811096191406 4 354.980684 1415.89363 2.5617 0.00090934 -0.99097 -0.00035178 1.5707 0.00055757 354.98029658381205 49.859 0.22964 50.121 49.963 50.193 0.26146 21 8 3 0 0 0 0.91359 1 22790 22790 0.40827 0.31342 1 5471300 + 27195 15324 17573 17631 30722 30722 0.20232037013715853 RKKKSEKEKKK 11 Unmodified _RKKKSEKEKKK_ 0 0 0 REV__ENST00000321892.8_1_17:65978529-65978847:+|nuORF REV__ENST00000321892.8_1_17:65978529-65978847:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 354.980684 1415.89363 2.5617 0.00090934 -0.99097 -0.00035178 1.5707 0.00055757 354.98029658381205 49.859 0.22964 50.121 49.963 50.193 0.26146 -0.19333 -0.00016634 NaN 0.40827 21 8 3 NaN NaN NaN NaN 0 NaN NaN 0 5471300 + 27196 15324 17573 17631 0.20232037013715853 RKKLKKKA 8 Unmodified _RKKLKKKA_ 0 0 0 REV__ENST00000502422.5_1_5:138651717-138665081:+|nuORF REV__ENST00000502422.5_1_5:138651717-138665081:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.3632507324219 2 500.361111 998.707669 3.4435 0.001723 0.52654 0.00026346 3.97 0.0019864 500.3616639359527 103.69 0.19261 104.29 104.17 104.37 0.59822 62 28 3 0 0 0 0.7471 2 47961 47961;47981 0 0 1 1143600 + 27197 16888 17574 17632 30723;30724 30723 0.20826304355750835 RKKLKMLNIA 10 Unmodified _RKKLKMLNIA_ 0 0 0 nc|ENSG00000032444|Q8IY17-5|PNPLA6;nc|ENSG00000032444|Q8IY17-2|PNPLA6;ENSG00000032444|ENST00000600737|PNPLA6;nc|ENSG00000032444|Q8IY17-3|PNPLA6;nc|ENSG00000032444|Q8IY17|PNPLA6 nc|ENSG00000032444|Q8IY17-5|PNPLA6 nc|ENSG00000032444|Q8IY17-5|PNPLA6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.59893798828125 3 405.597037 1213.76928 NaN NaN NaN NaN NaN NaN NaN 108.55 1 108.86 108.36 109.36 0.31168 0 0 0 1.002 1 50056 50056 0 0 1 27198 498 17575 17633 30725 30725 0.1709486799275055 RKKLRRKKRRQ 11 Unmodified _RKKLRRKKRRQ_ 0 0 0 REV__nc|ENSG00000167723|Q8NET8-3|TRPV3 REV__nc|ENSG00000167723|Q8NET8-3|TRPV3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 777.0289916992188 2 777.026583 1552.03861 NaN NaN NaN NaN NaN NaN NaN 87.61 1 87.65 87.15 88.15 0.039955 0 0 0 1.0082 1 44402 44402 0 0 1 + 27199 13305 17576 17634 30726 30726 0.28467562724108575 RKKLRRKKRRQ 11 Unmodified _RKKLRRKKRRQ_ 0 0 0 REV__nc|ENSG00000167723|Q8NET8-3|TRPV3 REV__nc|ENSG00000167723|Q8NET8-3|TRPV3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 776.9393920898438 2 777.026583 1552.03861 NaN NaN NaN NaN NaN NaN NaN 98.84 1 99.14 98.64 99.64 0.29987 0 0 0 1.0082 1 45580 45580 0 0 1 + 27200 13305 17576 17634 30727 30727 0.28467562724108575 RKKLTLIV 8 Unmodified _RKKLTLIV_ 0 0 0 REV__nc|ENSG00000149970|Q8WXI2-2|CNKSR2 REV__nc|ENSG00000149970|Q8WXI2-2|CNKSR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 324.2311706542969 3 324.230572 969.669886 2.2718 0.00073657 -0.32901 -0.00010668 1.9427 0.0006299 324.2304925567426 13.046 0.1352 13.046 12.995 13.13 0 12 6 2 0 0 0 0.26626 1 5710 5710 37.974 3.5723 1 550050 + 27201 12584 17577 17635 30728 30728 0.1838379337028755 RKKLWLKIARH 11 Unmodified _RKKLWLKIARH_ 0 0 0 ENSG00000104142|ENST00000220509|VPS18 ENSG00000104142|ENST00000220509|VPS18 ENSG00000104142|ENST00000220509|VPS18 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.9070739746094 4 362.988578 1447.92521 2.4477 0.0008885 -2.1302 -0.00077325 0.31751 0.00011525 363.2392618343911 50.543 0.49337 51.201 50.971 51.464 0.65735 56 24 3 0 0 0 0.13295 1 23152 23152 0.45452 0 1 1482100 27202 1428 17578 17636 30729 30729 0.21916074558362197 RKKLYFKRKKL 11 Unmodified _RKKLYFKRKKL_ 0 0 0 REV__ENST00000342992.10_3_2:179540701-179542581:-|nuORF REV__ENST00000342992.10_3_2:179540701-179542581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 754.8521728515625 2 754.501013 1506.98747 NaN NaN NaN NaN NaN NaN NaN 54.479 1 55.145 54.645 55.645 0.6665 0 0 0 1.0082 1 24921 24921 0 0 1 + 27203 15483 17579 17637 30730 30730 0.25425800906668883 RKKLYQTFKDR 11 Unmodified _RKKLYQTFKDR_ 0 0 0 nc|ENSG00000046651|O75665-3|OFD1;ENSG00000046651|ENST00000340096|OFD1;ENST00000380567.5_2_X:13753187-13758224:+|nuORF;nc|ENSG00000046651|O75665-2|OFD1;ENST00000490265.5_1_X:13753187-13770868:+|nuORF;ENST00000485052.5_1_X:13753187-13754238:+|nuORF nc|ENSG00000046651|O75665-3|OFD1 nc|ENSG00000046651|O75665-3|OFD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 741.9317016601562 2 741.930617 1481.84668 NaN NaN NaN NaN NaN NaN NaN 71.593 1 71.593 71.093 72.093 0 0 0 0 1.008 1 34804 34804 0.30703 0 1 27204 552 17580 17638 30731 30731 0.12503177462576787 RKKMIVKKKKI 11 Unmodified _RKKMIVKKKKI_ 0 0 0 REV__ENSG00000088882|ENST00000380605|CPXM1 REV__ENSG00000088882|ENST00000380605|CPXM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 467.3282470703125 3 467.32677 1398.95848 NaN NaN NaN NaN NaN NaN NaN 108.5 1 108.82 108.32 109.32 0.31168 0 0 0 1.0082 1 50037 50037 0 0 1 + 27205 10685 17581 17639 30732 30732 0.2749594028600768 RKKPHIVI 8 Unmodified _RKKPHIVI_ 0 0 0 ENSG00000124171|ENST00000371610|PARD6B;PARD6B|p.N253*|1|0.37|ENSG00000124171|chr20:50750126-50750127|AA/-|frameshift_variant;PARD6B|p.N271Kfs*10|1|0.22|ENSG00000124171|chr20:50750181-50750182|AC/-|frameshift_variant ENSG00000124171|ENST00000371610|PARD6B ENSG00000124171|ENST00000371610|PARD6B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.8349914550781 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 67.907 1 68.565 68.065 69.065 0.65777 0 0 0 0.99035 1 31128 31128 2.8892 2.0956 1 27206 2343 17582 17640 30733 30733 0.15458042430316254 RKKQKKKH 8 Unmodified _RKKQKKKH_ 0 0 0 REV__nc|ENSG00000150776|Q6ZUT1-3|NKAPD1 REV__nc|ENSG00000150776|Q6ZUT1-3|NKAPD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.8589477539062 2 540.859267 1079.70398 NaN NaN NaN NaN NaN NaN NaN 27.558 1 27.558 27.058 28.058 0 0 0 0 0.99035 1 12412 12412 0.69038 0.088878 1 + 27207 12595 17583 17641 30734 30734 0.16731634581879007 RKKQPGAA 8 Unmodified _RKKQPGAA_ 0 0 0 chr10:58787081-58789262|155|16.64|0.32|5.71|+|2|BICC1,BICC1|2 chr10:58787081-58789262|155|16.64|0.32|5.71|+|2|BICC1,BICC1|2 chr10:58787081-58789262|155|16.64|0.32|5.71|+|2|BICC1,BICC1|2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 428.2629089355469 2 428.261594 854.508634 3.0171 0.0012921 -0.14513 -6.2152E-05 2.872 0.00123 428.2614651843856 85.781 0.62501 86.03 85.772 86.397 0.24857 83 29 4 0 0 0 0.74071 1 39410 39410 2.5775 0.27475 1 43902000 27208 130 17584 17642 30735 30735 0.0755604405703707 RKKQVKMHR 9 Unmodified _RKKQVKMHR_ 0 0 0 ENSG00000123600|ENST00000375258|METTL8 ENSG00000123600|ENST00000375258|METTL8 ENSG00000123600|ENST00000375258|METTL8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 303.43902587890625 4 303.438292 1209.72406 1.7112 0.00051924 0.87308 0.00026493 2.5843 0.00078417 303.43853986508236 60.046 0.32063 60.046 59.993 60.314 0 70 38 2 0 0 0 1.178 1 27933 27933 1.0715 0 1 6022300 27209 2321 17585 17643 30736 30736 0.12759062250211173 RKKQVKMHR 9 Unmodified _RKKQVKMHR_ 0 0 0 ENSG00000123600|ENST00000375258|METTL8 ENSG00000123600|ENST00000375258|METTL8 ENSG00000123600|ENST00000375258|METTL8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.43890380859375 4 303.438292 1209.72406 1.9335 0.00058668 0.92509 0.00028071 2.8585 0.00086739 303.4385318094113 59.194 0.44485 59.953 59.768 60.212 0.75894 105 33 4 0 0 0 1.178 1 27257 27257 1.0715 0 1 5204500 27210 2321 17585 17643 30737 30737 0.12759062250211173 RKKQVKMHR 9 Unmodified _RKKQVKMHR_ 0 0 0 ENSG00000123600|ENST00000375258|METTL8 ENSG00000123600|ENST00000375258|METTL8 ENSG00000123600|ENST00000375258|METTL8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.4391784667969 4 303.438292 1209.72406 2.1559 0.00065419 0.86274 0.00026179 3.0187 0.00091598 303.43849261476004 57.081 0.49917 57.346 57.077 57.576 0.26444 84 27 4 0 0 0 1.178 1 26159 26159 1.0715 0 1 27221000 27211 2321 17585 17643 30738 30738 0.12759062250211173 RKKQVKMHR 9 Unmodified _RKKQVKMHR_ 0 0 0 ENSG00000123600|ENST00000375258|METTL8 ENSG00000123600|ENST00000375258|METTL8 ENSG00000123600|ENST00000375258|METTL8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.4393310546875 4 303.438292 1209.72406 2.2236 0.00067472 0.72747 0.00022074 2.9511 0.00089547 303.438498947405 59.389 0.28392 59.648 59.542 59.826 0.2593 29 11 3 0 0 0 1.178 1 27240 27240 1.0715 0 1 8714300 27212 2321 17585 17643 30739 30739 0.12759062250211173 RKKQVKMHR 9 Unmodified _RKKQVKMHR_ 0 0 0 ENSG00000123600|ENST00000375258|METTL8 ENSG00000123600|ENST00000375258|METTL8 ENSG00000123600|ENST00000375258|METTL8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.6898498535156 4 303.438292 1209.72406 2.2367 0.00067871 0.68995 0.00020936 2.9267 0.00088806 303.43846663359005 59.711 0.4012 59.971 59.723 60.124 0.2593 73 24 4 0 0 0 1.178 2 27340 27340;27384 1.0715 0 1 5937000 27213 2321 17585 17643 30740;30741 30740 0.12759062250211173 RKKREERRREM 11 Unmodified _RKKREERRREM_ 0 0 0 ENST00000524944.5_1_11:65305869-65306034:+|nuORF;nc|ENSG00000142186|Q96KG9-3|SCYL1;nc|ENSG00000142186|Q96KG9-2|SCYL1;ENSG00000142186|ENST00000270176|SCYL1 ENST00000524944.5_1_11:65305869-65306034:+|nuORF ENST00000524944.5_1_11:65305869-65306034:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 787.1969604492188 2 787.444431 1572.87431 NaN NaN NaN NaN NaN NaN NaN 16.114 1 16.114 15.614 16.614 0 0 0 0 1.0082 1 7134 7134 0 0 1 27214 3299 17586 17644 30742 30742 0.11078757451150523 RKKRERKFYWK 11 Unmodified _RKKRERKFYWK_ 0 0 0 ENST00000394507.5_2_7:91870378-91871424:-|nuORF ENST00000394507.5_2_7:91870378-91871424:-|nuORF ENST00000394507.5_2_7:91870378-91871424:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 812.9896240234375 2 812.980976 1623.9474 NaN NaN NaN NaN NaN NaN NaN 89.08 1 89.132 88.632 89.632 0.052155 0 0 0 1.0082 1 45562 45562 0 0 1 27215 7542 17587 17645 30743 30743 0.16038254236104876 RKKRERKFYWK 11 Unmodified _RKKRERKFYWK_ 0 0 0 ENST00000394507.5_2_7:91870378-91871424:-|nuORF ENST00000394507.5_2_7:91870378-91871424:-|nuORF ENST00000394507.5_2_7:91870378-91871424:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 812.9845581054688 2 812.980976 1623.9474 NaN NaN NaN NaN NaN NaN NaN 91.356 1 91.431 90.931 91.931 0.075279 0 0 0 1.0082 1 47323 47323 0 0 1 27216 7542 17587 17645 30744 30744 0.16038254236104876 RKKRIKRRALL 11 Unmodified _RKKRIKRRALL_ 0 0 0 ENSG00000130943|ENST00000253255|PKDREJ ENSG00000130943|ENST00000253255|PKDREJ ENSG00000130943|ENST00000253255|PKDREJ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 719.5049438476562 2 719.501878 1436.9892 NaN NaN NaN NaN NaN NaN NaN 76.759 1 77.383 76.883 77.883 0.62397 0 0 0 1.0082 1 37214 37214 0 0 1 27217 2631 17588 17646 30745 30745 0.28818854715314046 RKKRIKRRALL 11 Unmodified _RKKRIKRRALL_ 0 0 0 ENSG00000130943|ENST00000253255|PKDREJ ENSG00000130943|ENST00000253255|PKDREJ ENSG00000130943|ENST00000253255|PKDREJ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 719.5040893554688 2 719.501878 1436.9892 NaN NaN NaN NaN NaN NaN NaN 50.101 1 50.758 50.258 51.258 0.65735 0 0 0 1.0082 1 22913 22913 0 0 1 27218 2631 17588 17646 30746 30746 0.28818854715314046 RKKRIKRRALL 11 Unmodified _RKKRIKRRALL_ 0 0 0 ENSG00000130943|ENST00000253255|PKDREJ ENSG00000130943|ENST00000253255|PKDREJ ENSG00000130943|ENST00000253255|PKDREJ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.20623779296875 3 480.003678 1436.9892 NaN NaN NaN NaN NaN NaN NaN 73.573 1 74.238 73.738 74.738 0.6644 0 0 0 1.0082 1 33818 33818 0 0 1 27219 2631 17588 17646 30747 30747 0.28818854715314046 RKKRKILARKK 11 Unmodified _RKKRKILARKK_ 0 0 0 nc|ENSG00000168297|Q7Z7A4-3|PXK;nc|ENSG00000168297|Q7Z7A4-5|PXK;nc|ENSG00000168297|Q7Z7A4-7|PXK;nc|ENSG00000168297|Q7Z7A4-2|PXK;nc|ENSG00000168297|Q7Z7A4-6|PXK;nc|ENSG00000168297|Q7Z7A4-4|PXK;ENSG00000168297|ENST00000356151|PXK nc|ENSG00000168297|Q7Z7A4-3|PXK nc|ENSG00000168297|Q7Z7A4-3|PXK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 713.006103515625 2 713.004254 1423.99395 NaN NaN NaN NaN NaN NaN NaN 30.383 1 30.383 29.883 30.883 0 0 0 0 1.0072 1 13725 13725 1.3295 0 1 27220 4618 17589 17647 30748 30748 0.2989173885805485 RKKRKKLKKRK 11 Unmodified _RKKRKKLKKRK_ 0 0 0 nc|ENSG00000230453|A2A2Z9|ANKRD18B;ENSG00000230453|ENST00000684830|ANKRD18B nc|ENSG00000230453|A2A2Z9|ANKRD18B nc|ENSG00000230453|A2A2Z9|ANKRD18B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 749.0376586914062 2 749.038628 1496.0627 NaN NaN NaN NaN NaN NaN NaN 53.257 1 54.061 53.561 54.561 0.80351 0 0 0 1.0082 1 24287 24287 0 0 1 27221 6179 17590 17648 30749 30749 0.33451403157732784 RKKRKRKKNKS 11 Unmodified _RKKRKRKKNKS_ 0 0 0 nc|ENSG00000186566|Q9UKJ3-2|GPATCH8;ENSG00000186566|ENST00000591680|GPATCH8 nc|ENSG00000186566|Q9UKJ3-2|GPATCH8 nc|ENSG00000186566|Q9UKJ3-2|GPATCH8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 728.9885864257812 2 728.986592 1455.95863 NaN NaN NaN NaN NaN NaN NaN 92.378 1 92.378 91.878 92.878 0 0 0 0 1.0082 1 49072 49072 0 0 1 27222 5579 17591 17649 30750 30750 0.2488907633025974 RKKRKRLLIL 10 Unmodified _RKKRKRLLIL_ 0 0 0 REV__ENST00000216554.7_1_14:103805174-103805581:+|nuORF REV__ENST00000216554.7_1_14:103805174-103805581:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 662.6725463867188 2 662.474798 1322.93504 NaN NaN NaN NaN NaN NaN NaN 87.433 1 87.473 86.973 87.973 0.039955 0 0 0 1.002 1 44265 44265 0 0 1 + 27223 14813 17592 17650 30751 30751 0.2864926256374929 RKKRKRLLILS 11 Unmodified _RKKRKRLLILS_ 0 0 0 REV__ENST00000216554.7_1_14:103805174-103805581:+|nuORF REV__ENST00000216554.7_1_14:103805174-103805581:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 705.9924926757812 2 705.990812 1409.96707 NaN NaN NaN NaN NaN NaN NaN 104.52 1 104.52 104.02 105.02 0 0 0 0 1.0082 1 57510 57510 0 0 1 + 27224 14813 17593 17651 30752 30752 0.2784863024689912 RKKRKTKRRIL 11 Unmodified _RKKRKTKRRIL_ 0 0 0 ENST00000415149.6_1_3:107429416-107435478:+|nuORF ENST00000415149.6_1_3:107429416-107435478:+|nuORF ENST00000415149.6_1_3:107429416-107435478:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.0108337402344 3 495.010832 1482.01067 NaN NaN NaN NaN NaN NaN NaN 40.74 1 41.01 40.51 41.51 0.26904 0 0 0 1.0082 1 18537 18537 0.094841 0.094841 1 27225 7702 17594 17652 30753 30753 0.28894239744022343 RKKRLRHRVPP 11 Unmodified _RKKRLRHRVPP_ 0 0 0 nc|ENSG00000163126|Q86SG2-2|ANKRD23;ENSG00000163126|ENST00000318357|ANKRD23 nc|ENSG00000163126|Q86SG2-2|ANKRD23 nc|ENSG00000163126|Q86SG2-2|ANKRD23 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 721.9684448242188 2 721.968203 1441.92185 NaN NaN NaN NaN NaN NaN NaN 82.321 1 82.405 81.905 82.905 0.084106 0 0 0 1.0082 1 40647 40647 0 0 1 27226 4195 17595 17653 30754 30754 0.21856824504334327 RKKRRKDYKRK 11 Unmodified _RKKRRKDYKRK_ 0 0 0 REV__nc|ENSG00000133863|Q9BXT5|TEX15 REV__nc|ENSG00000133863|Q9BXT5|TEX15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 781.591796875 2 781.497324 1560.9801 NaN NaN NaN NaN NaN NaN NaN 107.05 1 107.09 106.59 107.59 0.045425 0 0 0 1.0082 1 57882 57882 0 0 1 + 27227 11946 17596 17654 30755 30755 0.22204461358933258 RKKRRKRATKR 11 Unmodified _RKKRRKRATKR_ 0 0 0 ENST00000420660.5_1_2:219134176-219134257:-|nuORF ENST00000420660.5_1_2:219134176-219134257:-|nuORF ENST00000420660.5_1_2:219134176-219134257:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 742.4995727539062 2 742.497659 1482.98076 NaN NaN NaN NaN NaN NaN NaN 42.78 1 43.051 42.551 43.551 0.27021 0 0 0 1.0082 1 19515 19515 0 0 1 27228 7754 17597 17655 30756 30756 0.25859300798674667 RKKRRRKYRR 10 Unmodified _RKKRRRKYRR_ 0 0 0 REV__nc|ENSG00000197381|P78563-5|ADARB1 REV__nc|ENSG00000197381|P78563-5|ADARB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 751.9901123046875 2 751.990001 1501.96545 NaN NaN NaN NaN NaN NaN NaN 61 1 61.256 60.756 61.756 0.25578 0 0 0 1.002 1 27935 27935 0 0 1 + 27229 18094 17598 17656 30757 30757 0.234544340014736 RKKRRRWRRRV 11 Unmodified _RKKRRRWRRRV_ 0 0 0 ENST00000556594.1_1_14:91518767-91526894:-|nuORF ENST00000556594.1_1_14:91518767-91526894:-|nuORF ENST00000556594.1_1_14:91518767-91526894:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 826.7578125 2 827.035274 1652.05599 NaN NaN NaN NaN NaN NaN NaN 88.042 1 88.082 87.582 88.582 0.039955 0 0 0 1.0082 1 44748 44748 0 0 1 27230 8930 17599 17657 30758 30758 0.2560490304974792 RKKRWRRAP 9 Unmodified _RKKRWRRAP_ 0 0 0 REV__ENST00000524666.5_1_11:65108438-65113200:+|nuORF REV__ENST00000524666.5_1_11:65108438-65113200:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 418.2912292480469 3 418.598652 1252.77413 NaN NaN NaN NaN NaN NaN NaN 74.052 1 74.311 73.811 74.811 0.25876 0 0 0 0.89602 1 34034 34034 4.5289 2.0941 1 + 27231 11947 17600 17658 30759 30759 0.15784932970359478 RKKRYKKKKKR 11 Unmodified _RKKRYKKKKKR_ 0 0 0 ENSG00000166012|ENST00000448108|TAF1D ENSG00000166012|ENST00000448108|TAF1D ENSG00000166012|ENST00000448108|TAF1D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 774.0254516601562 2 774.02826 1546.04197 NaN NaN NaN NaN NaN NaN NaN 88.893 1 88.945 88.445 89.445 0.052155 0 0 0 1.0082 1 45419 45419 0 0 1 27232 4445 17601 17659 30760 30760 0.29078812778061547 RKKSKKKT 8 Unmodified _RKKSKKKT_ 0 0 0 REV__TTF1|p.D483Rfs*5|1|0.06|ENSG00000125482|chr9:132400183-132400184|-/ACCA|frameshift_variant REV__TTF1|p.D483Rfs*5|1|0.06|ENSG00000125482|chr9:132400183-132400184|-/ACCA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.3424377441406 2 502.340375 1002.6662 4.0599 0.0020395 0.057594 2.8932E-05 4.1175 0.0020684 502.340544999362 102.59 0.24511 102.91 102.78 103.03 0.31736 13 7 2 0 0 0 0.7471 1 47491 47491 0 0 1 145160 + 27233 11682 17602 17660 30761 30761 0.1649712359642308 RKKSKKKT 8 Unmodified _RKKSKKKT_ 0 0 0 REV__TTF1|p.D483Rfs*5|1|0.06|ENSG00000125482|chr9:132400183-132400184|-/ACCA|frameshift_variant REV__TTF1|p.D483Rfs*5|1|0.06|ENSG00000125482|chr9:132400183-132400184|-/ACCA|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 502.340375 1002.6662 4.0599 0.0020395 0.057594 2.8932E-05 4.1175 0.0020684 502.340544999362 102.59 0.24511 102.91 102.78 103.03 0.31736 -0.072031 -0.00036569 NaN 0 13 7 2 NaN NaN NaN NaN 0 NaN NaN 0 145160 + 27234 11682 17602 17660 0.1649712359642308 RKKSKKKT 8 Unmodified _RKKSKKKT_ 0 0 0 REV__TTF1|p.D483Rfs*5|1|0.06|ENSG00000125482|chr9:132400183-132400184|-/ACCA|frameshift_variant REV__TTF1|p.D483Rfs*5|1|0.06|ENSG00000125482|chr9:132400183-132400184|-/ACCA|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 502.340375 1002.6662 3.451 0.0017336 1.908 0.00095847 5.359 0.002692 502.34112683163085 102.46 0.096291 103.05 103.01 103.1 0.59759 0.072031 0.0014934 NaN 0 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 145830 + 27235 11682 17602 17660 0.1649712359642308 RKKSKLFSRLR 11 Unmodified _RKKSKLFSRLR_ 0 0 0 nc|ENSG00000136717|O00499-10|BIN1;nc|ENSG00000136717|O00499-8|BIN1;nc|ENSG00000136717|O00499-11|BIN1 nc|ENSG00000136717|O00499-10|BIN1 nc|ENSG00000136717|O00499-10|BIN1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.306884765625 3 473.640405 1417.89939 3.0151 0.0014281 -1.2075 -0.00057193 1.8075 0.00085612 473.63984802090465 50.671 0.4279 50.671 50.367 50.795 0 32 23 2 0 0 0 0.13295 1 23206 23206 1.0136 0.60531 1 1709700 27236 9657 17603 17661 30762 30762 0.2071518031607411 RKKSKLFSRLR 11 Unmodified _RKKSKLFSRLR_ 0 0 0 nc|ENSG00000136717|O00499-10|BIN1;nc|ENSG00000136717|O00499-8|BIN1;nc|ENSG00000136717|O00499-11|BIN1 nc|ENSG00000136717|O00499-10|BIN1 nc|ENSG00000136717|O00499-10|BIN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 473.640405 1417.89939 2.9333 0.0013893 -1.0247 -0.00048532 1.9086 0.00090398 473.63998875016506 50.096 0.49932 50.357 50.029 50.529 0.26146 -0.1568 0.0001177 NaN 1.0136 26 18 2 NaN NaN NaN NaN 0 NaN NaN 0 1015800 27237 9657 17603 17661 0.2071518031607411 RKKSRRLPRRW 11 Unmodified _RKKSRRLPRRW_ 0 0 0 ENST00000466287.1_1_3:179094909-179095147:+|nuORF ENST00000466287.1_1_3:179094909-179095147:+|nuORF ENST00000466287.1_1_3:179094909-179095147:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 769.8851318359375 2 769.984384 1537.95422 NaN NaN NaN NaN NaN NaN NaN 100.86 1 101.46 100.96 101.96 0.59717 0 0 0 1.008 1 46697 46697 0.30703 0.30703 1 27238 8135 17604 17662 30763 30763 0.20675611907336133 RKKVILIVVLL 11 Unmodified _RKKVILIVVLL_ 0 0 0 REV__ENST00000531050.5_1_6:128321419-128718758:-|nuORF REV__ENST00000531050.5_1_6:128321419-128718758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 431.9844970703125 3 431.982998 1292.92716 NaN NaN NaN NaN NaN NaN NaN 64.999 1 65.707 65.207 66.207 0.70891 0 0 0 1.0082 1 30664 30664 0 0 1 + 27239 17076 17605 17663 30764 30764 0.2924169052362231 RKKWWQWRRRK 11 Unmodified _RKKWWQWRRRK_ 0 0 0 REV__ENST00000324344.8_1_16:20911624-20911678:-|nuORF REV__ENST00000324344.8_1_16:20911624-20911678:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 857.51513671875 2 857.505484 1712.99641 NaN NaN NaN NaN NaN NaN NaN 103.28 1 103.87 103.37 104.37 0.59821 0 0 0 1.0082 1 47779 47779 0 0 1 + 27240 15340 17606 17664 30765 30765 0.16843587315679542 RKKYHHHRHRH 11 Unmodified _RKKYHHHRHRH_ 0 0 0 REV__nc|ENSG00000108375|Q68DV7-3|RNF43 REV__nc|ENSG00000108375|Q68DV7-3|RNF43 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 796.4384155273438 2 796.438132 1590.86171 NaN NaN NaN NaN NaN NaN NaN 40.81 1 41.455 40.955 41.955 0.64451 0 0 0 1.0082 1 18657 18657 0 0 1 + 27241 11140 17607 17665 30766 30766 0.08991526893805712 RKLDREKHKKR 11 Unmodified _RKLDREKHKKR_ 0 0 0 REV__ENSG00000054118|ENST00000354618|THRAP3 REV__ENSG00000054118|ENST00000354618|THRAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.642822265625 3 498.642697 1492.90626 2.7402 0.0013664 -1.5752 -0.00078546 1.1651 0.00058095 498.6420771713179 59.117 0.35183 59.876 59.702 60.053 0.75894 34 28 2 0 0 0 0.91345 1 27114 27114 0.45452 0 1 1294200 + 27242 10360 17608 17666 30767 30767 0.1795249319661707 RKLEKLIIHKN 11 Unmodified _RKLEKLIIHKN_ 0 0 0 nc|ENSG00000119969|Q9NRZ9-6|HELLS;nc|ENSG00000119969|Q9NRZ9-5|HELLS;nc|ENSG00000119969|Q9NRZ9-4|HELLS;nc|ENSG00000119969|Q9NRZ9-3|HELLS;nc|ENSG00000119969|Q9NRZ9-2|HELLS;ENSG00000119969|ENST00000348459|HELLS nc|ENSG00000119969|Q9NRZ9-6|HELLS nc|ENSG00000119969|Q9NRZ9-6|HELLS MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.4771728515625 4 348.72659 1390.87725 2.694 0.00093948 0.38758 0.00013516 3.0816 0.0010746 348.72672433768247 40.679 0.30197 40.948 40.733 41.035 0.26904 26 14 2 0 0 0 0.13295 1 18511 18511 0.08335 0 1 1733900 27243 2176 17609 17667 30768 30768 0.19744955847659185 RKLFFKKKSYL 11 Unmodified _RKLFFKKKSYL_ 0 0 0 ENST00000303221.9_1_5:49694656-49694779:-|nuORF ENST00000303221.9_1_5:49694656-49694779:-|nuORF ENST00000303221.9_1_5:49694656-49694779:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.6391296386719 3 486.63789 1456.89184 NaN NaN NaN NaN NaN NaN NaN 80.956 1 81.124 80.624 81.624 0.16862 0 0 0 1.0079 1 39731 39731 0.45452 0 1 27244 6820 17610 17668 30769 30769 0.18167027995787066 RKLFKKKI 8 Unmodified _RKLFKKKI_ 0 0 0 REV__nc|ENSG00000181090|Q9H9B1-4|EHMT1 REV__nc|ENSG00000181090|Q9H9B1-4|EHMT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.6072387695312 2 530.871311 1059.72807 2.7112 0.0014393 2.8238 0.0014991 5.535 0.0029384 531.3729639047666 95.197 0.027046 95.197 95.176 95.203 0 5 3 2 0 0 0 0.7471 1 51199 51199 0 0 1 9609900 + 27245 13842 17611 17669 30770 30770 0.20059475015546013 RKLFKKKI 8 Unmodified _RKLFKKKI_ 0 0 0 REV__nc|ENSG00000181090|Q9H9B1-4|EHMT1 REV__nc|ENSG00000181090|Q9H9B1-4|EHMT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.9153442382812 2 530.871311 1059.72807 NaN NaN NaN NaN NaN NaN NaN 85.847 1 85.876 85.376 86.376 0.028603 0 0 0 0.99035 1 43051 43051 0 0 1 + 27246 13842 17611 17669 30771 30771 0.20059475015546013 RKLFKKKI 8 Unmodified _RKLFKKKI_ 0 0 0 REV__nc|ENSG00000181090|Q9H9B1-4|EHMT1 REV__nc|ENSG00000181090|Q9H9B1-4|EHMT1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 530.871311 1059.72807 2.7112 0.0014393 2.8238 0.0014991 5.535 0.0029384 531.3729639047666 95.197 0.027046 95.197 95.176 95.203 0 0.12091 -0.00065216 NaN 0 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 9609900 + 27247 13842 17611 17669 0.20059475015546013 RKLFKKKI 8 Unmodified _RKLFKKKI_ 0 0 0 REV__nc|ENSG00000181090|Q9H9B1-4|EHMT1 REV__nc|ENSG00000181090|Q9H9B1-4|EHMT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 530.871311 1059.72807 1.982 0.0010522 4.8221 0.0025599 6.8042 0.0036121 531.3733414895878 94.873 0.017479 94.955 94.946 94.964 0.082001 -0.12091 0.0014695 NaN 0 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 7730700 + 27248 13842 17611 17669 0.20059475015546013 RKLFLLLRHPR 11 Unmodified _RKLFLLLRHPR_ 0 0 0 ENST00000606367.1_1_6:31165433-31165721:-|nuORF ENST00000606367.1_1_6:31165433-31165721:-|nuORF ENST00000606367.1_1_6:31165433-31165721:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 724.968994140625 2 724.96988 1447.92521 NaN NaN NaN NaN NaN NaN NaN 42.533 1 43.18 42.68 43.68 0.64693 0 0 0 1.008 1 19484 19484 0.30703 0 1 27249 9320 17612 17670 30772 30772 0.2191607455833946 RKLHLIFFHV 10 Unmodified _RKLHLIFFHV_ 0 0 0 REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.2034606933594 4 328.202751 1308.7819 2.0919 0.00068656 0.24892 8.1697E-05 2.3408 0.00076825 328.20271423272135 47.882 0.46793 47.882 47.671 48.139 0 88 27 4 0 0 0 0.9406 1 21946 21946 0.77653 0 1 7643500 + 27250 16110 17613 17671 30773 30773 0.13985647447270821 RKLHLIFFHV 10 Unmodified _RKLHLIFFHV_ 0 0 0 REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.2036437988281 4 328.202751 1308.7819 2.1994 0.00072184 0.34863 0.00011442 2.548 0.00083626 328.20279360928026 49.347 1.2693 49.347 49.022 50.291 0 223 61 5 0 0 0 0.9406 2 22791 22791;22842 0.77653 0 1 26750000 + 27251 16110 17613 17671 30774;30775 30774 0.13985647447270821 RKLHLIFFHV 10 Unmodified _RKLHLIFFHV_ 0 0 0 REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.2690734863281 3 437.267909 1308.7819 2.8357 0.00124 -0.051696 -2.2605E-05 2.784 0.0012174 437.2678155956963 52.14 0.56607 52.14 51.934 52.5 0 65 41 2 0 0 0 0.93503 1 23843 23843 1.9064 0.69154 1 2130500 + 27252 16110 17613 17671 30776 30776 0.13985647447270821 RKLHLIFFHV 10 Unmodified _RKLHLIFFHV_ 0 0 0 REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.2033996582031 4 328.202751 1308.7819 2.1785 0.00071498 0.44923 0.00014744 2.6277 0.00086242 328.2027390555365 46.834 0.52359 47.663 47.421 47.944 0.82915 103 31 4 0 0 0 0.9406 2 21310 21310;21363 0.77653 0 1 4883200 + 27253 16110 17613 17671 30777;30778 30777 0.13985647447270821 RKLHLIFFHV 10 Unmodified _RKLHLIFFHV_ 0 0 0 REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.6027526855469 3 437.267909 1308.7819 2.7892 0.0012196 -0.19913 -8.7075E-05 2.59 0.0011325 437.26768950357035 48.562 1.1142 49.389 48.805 49.919 0.82705 118 58 3 0 0 0 0.93503 1 21987 21987 1.9064 0.57673 1 3177500 + 27254 16110 17613 17671 30779 30779 0.13985647447270821 RKLHLIFFHV 10 Unmodified _RKLHLIFFHV_ 0 0 0 REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.20330810546875 4 328.202751 1308.7819 2.3124 0.00075895 0.089528 2.9383E-05 2.402 0.00078833 328.20269904399976 48.44 1.4679 49.267 48.785 50.253 0.82705 263 76 5 0 0 0 0.93372 1 22038 22038 2.086 0.0020399 1 13119000 + 27255 16110 17613 17671 30780 30780 0.13985647447270821 RKLHLIFFHV 10 Unmodified _RKLHLIFFHV_ 0 0 0 REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.2694091796875 3 437.267909 1308.7819 2.4578 0.0010747 0.68717 0.00030048 3.145 0.0013752 437.2680555182436 50.959 0.5846 51.776 51.422 52.006 0.81738 73 35 3 0 0 0 0.93372 1 23275 23275 2.086 2.086 1 2796200 + 27256 16110 17613 17671 30781 30781 0.13985647447270821 RKLHLIFFHV 10 Unmodified _RKLHLIFFHV_ 0 0 0 REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.2040710449219 4 328.202751 1308.7819 2.1052 0.00069094 0.33707 0.00011063 2.4423 0.00080157 328.45349577581896 53.489 0.39318 54.293 54.003 54.396 0.80351 60 37 3 0 0 0 0.12676 1 24447 24447 0.77653 0 1 2417900 + 27257 16110 17613 17671 30782 30782 0.13985647447270821 RKLHLIFFHV 10 Unmodified _RKLHLIFFHV_ 0 0 0 REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.2037353515625 4 328.202751 1308.7819 2.582 0.00084743 0.41462 0.00013608 2.9966 0.00098351 328.2027835766161 47.59 0.81229 47.854 47.247 48.06 0.26363 126 44 4 0 0 0 0.9406 2 21669 21669;21726 0.77653 0 1 8064400 + 27258 16110 17613 17671 30783;30784 30783 0.13985647447270821 RKLHLIFFHV 10 Unmodified _RKLHLIFFHV_ 0 0 0 REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2698974609375 3 437.267909 1308.7819 2.9858 0.0013056 0.13911 6.0828E-05 3.1249 0.0013664 437.2678601822451 48.913 1.0703 49.175 48.816 49.886 0.26209 142 40 4 0 0 0 0.93584 1 22251 22251 1.7423 0 1 8824200 + 27259 16110 17613 17671 30785 30785 0.13985647447270821 RKLHLIFFHV 10 Unmodified _RKLHLIFFHV_ 0 0 0 REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.403076171875 2 655.398225 1308.7819 3.8838 0.0025455 -0.088378 -5.7922E-05 3.7955 0.0024875 655.3979596942346 48.958 0.93945 49.22 48.873 49.813 0.26209 68 35 3 0 0 0 0.93503 1 22316 22316 1.6526 0 1 2124800 + 27260 16110 17613 17671 30786 30786 0.13985647447270821 RKLHLIFFHV 10 Unmodified _RKLHLIFFHV_ 0 0 0 REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.20343017578125 4 328.202751 1308.7819 2.4801 0.00081397 0.32144 0.0001055 2.8015 0.00091947 328.20279938228975 48.948 1.5755 49.21 48.816 50.391 0.26209 204 61 5 0 0 0 0.93372 3 22353 22353;22569;22619 2.086 0.87118 1 25525000 + 27261 16110 17613 17671 30787;30788;30789 30787 0.13985647447270821 RKLHLIFFHV 10 Unmodified _RKLHLIFFHV_ 0 0 0 REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2690124511719 3 437.267909 1308.7819 2.7461 0.0012008 0.31024 0.00013566 3.0564 0.0013365 437.26792183811347 51.421 0.92847 51.683 51.333 52.262 0.26227 149 58 3 0 0 0 0.9406 1 23726 23726 0.77653 0 1 6013800 + 27262 16110 17613 17671 30790 30790 0.13985647447270821 RKLHLIFFHV 10 Unmodified _RKLHLIFFHV_ 0 0 0 REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.2032775878906 4 328.202751 1308.7819 2.2441 0.00073651 0.11703 3.841E-05 2.3611 0.00077492 328.2025471996884 46.957 0.77052 47.609 47.004 47.774 0.65219 95 39 3 0 0 0 0.9406 2 21385 21385;21450 0.77653 0 1 9121800 + 27263 16110 17613 17671 30791;30792 30791 0.13985647447270821 RKLHLIFFHV 10 Unmodified _RKLHLIFFHV_ 0 0 0 REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.2036437988281 4 328.202751 1308.7819 2.375 0.00077947 0.47458 0.00015576 2.8495 0.00093522 328.2028528395296 48.561 1.7169 49.216 48.587 50.304 0.65524 200 63 5 0 0 0 0.93372 2 22114 22114;22222 2.086 2.086 1 18120000 + 27264 16110 17613 17671 30793;30794 30793 0.13985647447270821 RKLHLIFFHV 10 Unmodified _RKLHLIFFHV_ 0 0 0 REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2691650390625 3 437.267909 1308.7819 3.2062 0.001402 -0.032193 -1.4077E-05 3.174 0.0013879 437.26772062992023 48.493 1.1974 49.148 48.621 49.818 0.65525 149 45 4 0 0 0 0.93372 1 22357 22357 2.086 0.17963 1 4130600 + 27265 16110 17613 17671 30795 30795 0.13985647447270821 RKLHLIFFHV 10 Unmodified _RKLHLIFFHV_ 0 0 0 REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.20416259765625 4 328.202751 1308.7819 2.0817 0.00068322 0.61248 0.00020102 2.6942 0.00088424 328.4535247791277 53.784 0.66017 54.448 53.892 54.553 0.6644 95 32 4 0 0 0 0.12676 1 24637 24637 0.77653 0 1 4216700 + 27266 16110 17613 17671 30796 30796 0.13985647447270821 RKLHLIFFHV 10 Unmodified _RKLHLIFFHV_ 0 0 0 REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF REV__ENST00000412669.1_1_7:90221116-90226630:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 328.202751 1308.7819 2.6335 0.00086431 -1.5471 -0.00050777 1.0863 0.00035654 328.2019806359682 54.025 0.23868 54.025 53.906 54.145 0 -0.23026 -0.0024242 NaN 0.77653 32 19 2 NaN NaN NaN NaN 0 NaN NaN 0 1021600 + 27267 16110 17613 17671 0.13985647447270821 RKLHVILIR 9 Unmodified _RKLHVILIR_ 0 0 0 REV__ENSG00000134588|ENST00000511190|USP26 REV__ENSG00000134588|ENST00000511190|USP26 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.3919677734375 2 574.392942 1146.77133 NaN NaN NaN NaN NaN NaN NaN 55.585 1 55.585 55.085 56.085 0 0 0 0 0.91238 1 25557 25557 0.52476 0 1 + 27268 11971 17614 17672 30797 30797 0.20381664792830634 RKLHVILIR 9 Unmodified _RKLHVILIR_ 0 0 0 REV__ENSG00000134588|ENST00000511190|USP26 REV__ENSG00000134588|ENST00000511190|USP26 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.3585815429688 2 574.392942 1146.77133 NaN NaN NaN NaN NaN NaN NaN 54.66 1 55.455 54.955 55.955 0.79552 0 0 0 0.91238 1 24943 24943 0.52476 0 1 + 27269 11971 17614 17672 30798 30798 0.20381664792830634 RKLIWFVLIFL 11 Unmodified _RKLIWFVLIFL_ 0 0 0 REV__nc|ENSG00000131355|Q9BY15-2|ADGRE3 REV__nc|ENSG00000131355|Q9BY15-2|ADGRE3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.9872741699219 4 362.735155 1446.91151 2.7396 0.00099377 0.13737 4.9827E-05 2.877 0.0010436 362.7344522434236 53.208 0.78427 53.471 53.011 53.796 0.26345 107 51 3 0 0 0 0.91459 1 24228 24228 0.094841 0 1 2071800 + 27270 11853 17615 17673 30799 30799 0.20593404006558558 RKLIWFVLIFL 11 Unmodified _RKLIWFVLIFL_ 0 0 0 REV__nc|ENSG00000131355|Q9BY15-2|ADGRE3 REV__nc|ENSG00000131355|Q9BY15-2|ADGRE3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 362.735155 1446.91151 2.1519 0.00078056 0.050435 1.8295E-05 2.2023 0.00079886 362.9857612876562 52.814 0.64924 53.617 53.134 53.783 0.80351 0.12812 3.7858E-05 NaN 0.094841 82 44 3 NaN NaN NaN NaN 0 NaN NaN 0 3651300 + 27271 11853 17615 17673 0.20593404006558558 RKLIWFVLIFL 11 Unmodified _RKLIWFVLIFL_ 0 0 0 REV__nc|ENSG00000131355|Q9BY15-2|ADGRE3 REV__nc|ENSG00000131355|Q9BY15-2|ADGRE3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 362.735155 1446.91151 2.7396 0.00099377 0.13737 4.9827E-05 2.877 0.0010436 362.7344522434236 53.208 0.78427 53.471 53.011 53.796 0.26345 -0.0179 0.00016399 NaN 0.094841 107 51 3 NaN NaN NaN NaN 0 NaN NaN 0 2071800 + 27272 11853 17615 17673 0.20593404006558558 RKLIWFVLIFL 11 Unmodified _RKLIWFVLIFL_ 0 0 0 REV__nc|ENSG00000131355|Q9BY15-2|ADGRE3 REV__nc|ENSG00000131355|Q9BY15-2|ADGRE3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 362.735155 1446.91151 2.3734 0.00086091 -0.17136 -6.216E-05 2.202 0.00079875 362.9860175988146 52.717 0.81791 53.379 52.66 53.478 0.66198 -0.11022 -0.00028396 NaN 0.094841 79 41 3 NaN NaN NaN NaN 0 NaN NaN 0 2821300 + 27273 11853 17615 17673 0.20593404006558558 RKLKKKAKK 9 Unmodified _RKLKKKAKK_ 0 0 0 ENSG00000157895|ENST00000288757|C12orf43 ENSG00000157895|ENST00000288757|C12orf43 ENSG00000157895|ENST00000288757|C12orf43 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.4061889648438 2 564.408592 1126.80263 NaN NaN NaN NaN NaN NaN NaN 102.71 1 102.77 102.27 103.27 0.055092 0 0 0 0.91452 1 55748 55748 0 0 1 27274 3968 17616 17674 30800 30800 0.2443023782691398 RKLKLKRRRRP 11 Unmodified _RKLKLKRRRRP_ 0 0 0 ENST00000502782.5_1_5:34845647-34845701:+|nuORF ENST00000502782.5_1_5:34845647-34845701:+|nuORF ENST00000502782.5_1_5:34845647-34845701:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 754.016845703125 2 754.018227 1506.0219 NaN NaN NaN NaN NaN NaN NaN 64.979 1 65.227 64.727 65.727 0.24803 0 0 0 1.0082 1 29769 29769 0 0 1 27275 8484 17617 17675 30801 30801 0.2891306183812503 RKLKRLKKKR 10 Unmodified _RKLKRLKKKR_ 0 0 0 ENST00000398637.9_1_12:46581311-46581524:-|nuORF ENST00000398637.9_1_12:46581311-46581524:-|nuORF ENST00000398637.9_1_12:46581311-46581524:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 677.4878540039062 2 677.485697 1352.95684 NaN NaN NaN NaN NaN NaN NaN 13.66 1 13.66 13.16 14.16 0 0 0 0 1.002 1 5987 5987 0 0 1 27276 7594 17618 17676 30802 30802 0.2944806731227345 RKLKRLKKKR 10 Unmodified _RKLKRLKKKR_ 0 0 0 ENST00000398637.9_1_12:46581311-46581524:-|nuORF ENST00000398637.9_1_12:46581311-46581524:-|nuORF ENST00000398637.9_1_12:46581311-46581524:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.4837036132812 2 677.485697 1352.95684 NaN NaN NaN NaN NaN NaN NaN 41.656 1 41.926 41.426 42.426 0.27021 0 0 0 1.002 1 18979 18979 0 0 1 27277 7594 17618 17676 30803 30803 0.2944806731227345 RKLKRRRGRR 10 Unmodified _RKLKRRRGRR_ 0 0 0 REV__ENST00000371019.3_1_10:99093399-99093534:-|nuORF REV__ENST00000371019.3_1_10:99093399-99093534:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 691.464111328125 2 691.463619 1380.91268 NaN NaN NaN NaN NaN NaN NaN 104.85 1 104.85 104.35 105.35 0 0 0 0 1.0015 1 57659 57659 0.40072 0 1 + 27278 15734 17619 17677 30804 30804 0.23746475938651201 RKLLLKRKLL 10 Unmodified _RKLLLKRKLL_ 0 0 0 ENST00000342992.10_3_2:179510673-179515519:-|nuORF ENST00000342992.10_3_2:179510673-179515519:-|nuORF;REV__ENST00000342992.10_3_2:179510673-179515519:-|nuORF ENST00000342992.10_3_2:179510673-179515519:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.3291015625 2 640.966274 1279.918 NaN NaN NaN NaN NaN NaN NaN 72.974 1 72.974 72.474 73.474 0 0 0 0 1.002 1 35517 35517 0 0 1 27279 7088;15482 17620 17678 30805 30805 0.28923341957920456 RKLLLKRKLL 10 Unmodified _RKLLLKRKLL_ 0 0 0 ENST00000342992.10_3_2:179510673-179515519:-|nuORF ENST00000342992.10_3_2:179510673-179515519:-|nuORF;REV__ENST00000342992.10_3_2:179510673-179515519:-|nuORF ENST00000342992.10_3_2:179510673-179515519:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 640.5535278320312 2 640.966274 1279.918 NaN NaN NaN NaN NaN NaN NaN 30.894 1 31.511 31.011 32.011 0.61737 0 0 0 1.002 1 14174 14174 0 0 1 27280 7088;15482 17620 17678 30806 30806 0.28923341957920456 RKLLLKRKLLL 11 Unmodified _RKLLLKRKLLL_ 0 0 0 ENST00000342992.10_3_2:179510673-179515519:-|nuORF ENST00000342992.10_3_2:179510673-179515519:-|nuORF;REV__ENST00000342992.10_3_2:179510673-179515519:-|nuORF ENST00000342992.10_3_2:179510673-179515519:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 697.53515625 2 697.508306 1393.00206 NaN NaN NaN NaN NaN NaN NaN 96.206 1 96.283 95.783 96.783 0.076538 0 0 0 1.0082 1 51056 51056 0 0 1 27281 7088;15482 17621 17679 30807 30807 0.3212787305483289 RKLLLLKLIK 10 Unmodified _RKLLLLKLIK_ 0 0 0 REV__ENST00000349215.7_1_11:18339453-18343686:-|nuORF REV__ENST00000349215.7_1_11:18339453-18343686:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.4595336914062 2 619.457751 1236.90095 NaN NaN NaN NaN NaN NaN NaN 62.702 1 62.702 62.202 63.202 0 0 0 0 1.002 1 29404 29404 0 0 1 + 27282 15519 17622 17680 30808 30808 0.2919742135211436 RKLLVQLRRLY 11 Unmodified _RKLLVQLRRLY_ 0 0 0 ENSG00000175877|ENST00000320531|TMEM270 ENSG00000175877|ENST00000320531|TMEM270 ENSG00000175877|ENST00000320531|TMEM270 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 729.4764404296875 2 729.474995 1456.93544 NaN NaN NaN NaN NaN NaN NaN 77.227 1 77.788 77.288 78.288 0.56091 0 0 0 1.0082 1 37446 37446 0.30703 0 1 27283 5052 17623 17681 30809 30809 0.22524637492915645 RKLPFLTVL 9 Unmodified _RKLPFLTVL_ 0 0 0 ENST00000311895.7_1_16:14042563-14042626:+|nuORF ENST00000311895.7_1_16:14042563-14042626:+|nuORF ENST00000311895.7_1_16:14042563-14042626:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.9070739746094 3 362.905977 1085.6961 NaN NaN NaN NaN NaN NaN NaN 50.632 1 51.291 50.791 51.791 0.65956 0 0 0 0.62812 1 23152 23152 14.405 6.7964 1 27284 6877 17624 17682 30810 30810 0.15668062541726613 RKLPLCPLLL 10 Unmodified _RKLPLCPLLL_ 0 0 0 ENST00000229328.9_1_12:120119136-120119388:+|nuORF ENST00000229328.9_1_12:120119136-120119388:+|nuORF ENST00000229328.9_1_12:120119136-120119388:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.3790893554688 2 583.378112 1164.74167 3.5017 0.0020428 -1.4729 -0.00085926 2.0288 0.0011836 583.3769211312832 42.165 0.11525 42.165 42.068 42.183 0 10 5 3 0 0 0 0.93372 1 19194 19194 0.45834 0 1 5017600 27285 6438 17625 17683 30811 30811 0.16588964732477507 RKLPLCPLLL 10 Unmodified _RKLPLCPLLL_ 0 0 0 ENST00000229328.9_1_12:120119136-120119388:+|nuORF ENST00000229328.9_1_12:120119136-120119388:+|nuORF ENST00000229328.9_1_12:120119136-120119388:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.37890625 2 583.378112 1164.74167 3.6955 0.0021558 -1.5673 -0.0009143 2.1282 0.0012415 583.3772319578775 41.477 0.18092 41.747 41.661 41.842 0.27021 23 14 2 0 0 0 0.93372 1 18885 18885 1.8442 1.8442 1 1989900 27286 6438 17625 17683 30812 30812 0.16588964732477507 RKLPRIKKHL 10 Unmodified _RKLPRIKKHL_ 0 0 0 ENSG00000107959|ENST00000224949|PITRM1;nc|ENSG00000107959|Q5JRX3-2|PITRM1;ENST00000464395.1_1_10:3185767-3189991:-|nuORF;nc|ENSG00000107959|Q5JRX3-3|PITRM1 ENSG00000107959|ENST00000224949|PITRM1 ENSG00000107959|ENST00000224949|PITRM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 644.9369506835938 2 644.938048 1287.86154 NaN NaN NaN NaN NaN NaN NaN 89.303 1 89.367 88.867 89.867 0.064346 0 0 0 1.0015 1 45734 45734 0.45834 0.10771 1 27287 1616 17626 17684 30813 30813 0.22912714121252975 RKLPTMPN 8 Unmodified _RKLPTMPN_ 0 0 0 ENST00000372939.5_1_X:100306348-100306867:-|nuORF;ENST00000372936.3_1_X:100306601-100306867:-|nuORF;ENST00000372935.5_1_X:100297267-100306867:-|nuORF ENST00000372939.5_1_X:100306348-100306867:-|nuORF ENST00000372939.5_1_X:100306348-100306867:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.77069091796875 2 478.770937 955.527321 NaN NaN NaN NaN NaN NaN NaN 44.203 1 44.473 43.973 44.973 0.2694 0 0 0 0.89651 1 20202 20202 12.532 0 1 27288 7348 17627 17685 30814 30814 0.04777837636572713 RKLRLRVRRRR 11 Unmodified _RKLRLRVRRRR_ 0 0 0 REV__ENST00000492897.3_1_17:46669706-46679621:+|nuORF REV__ENST00000492897.3_1_17:46669706-46679621:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 783.0316772460938 2 783.0322 1564.04985 NaN NaN NaN NaN NaN NaN NaN 82.964 1 83.009 82.509 83.509 0.045006 0 0 0 1.0082 1 41054 41054 0 0 1 + 27289 16812 17628 17686 30815 30815 0.29038384818204577 RKLRLRVRRRR 11 Unmodified _RKLRLRVRRRR_ 0 0 0 REV__ENST00000492897.3_1_17:46669706-46679621:+|nuORF REV__ENST00000492897.3_1_17:46669706-46679621:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 783.0320434570312 2 783.0322 1564.04985 NaN NaN NaN NaN NaN NaN NaN 84.456 1 84.484 83.984 84.984 0.028603 0 0 0 1.0082 1 42135 42135 0 0 1 + 27290 16812 17628 17686 30816 30816 0.29038384818204577 RKLRRRKKKKA 11 Unmodified _RKLRRRKKKKA_ 0 0 0 ENST00000530731.5_1_11:124495676-124501136:+|nuORF;nc|ENSG00000154144|Q3YBR2-2|TBRG1 ENST00000530731.5_1_11:124495676-124501136:+|nuORF ENST00000530731.5_1_11:124495676-124501136:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 734.5156860351562 2 734.512777 1467.011 NaN NaN NaN NaN NaN NaN NaN 94.058 1 94.318 93.818 94.818 0.25975 0 0 0 1.0082 1 43226 43226 0 0 1 27291 8716 17629 17687 30817 30817 0.2961765946383821 RKLRRRPRRGL 11 Unmodified _RKLRRRPRRGL_ 0 0 0 REV__ENST00000251102.12_1_16:57965650-57974178:-|nuORF REV__ENST00000251102.12_1_16:57965650-57974178:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 732.4842529296875 2 732.484551 1462.95455 NaN NaN NaN NaN NaN NaN NaN 90.174 1 90.847 90.347 91.347 0.67271 0 0 0 1.0082 1 41505 41505 0 0 1 + 27292 14907 17630 17688 30818 30818 0.24159031627186778 RKLRRRREKER 11 Unmodified _RKLRRRREKER_ 0 0 0 REV__ENSG00000165091|ENST00000297784|TMC1 REV__ENSG00000165091|ENST00000297784|TMC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 791.9959106445312 2 791.99548 1581.97641 NaN NaN NaN NaN NaN NaN NaN 72.356 1 72.356 71.856 72.856 0 0 0 0 1.008 1 35197 35197 0.26902 0.26902 1 + 27293 13134 17631 17689 30819 30819 0.20869791585073472 RKLVFLFLAKI 11 Unmodified _RKLVFLFLAKI_ 0 0 0 ENST00000306954.4_1_14:93669861-93669912:-|nuORF ENST00000306954.4_1_14:93669861-93669912:-|nuORF ENST00000306954.4_1_14:93669861-93669912:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.72833251953125 4 337.72733 1346.88021 2.6826 0.00090598 1.1881 0.00040126 3.8707 0.0013072 337.72771210899964 32.572 0.40666 32.827 32.626 33.033 0.25452 34 20 2 0 0 0 0.91104 1 14789 14789 1.2148 1.12 1 1149700 27294 6844 17632 17690 30820 30820 0.2206483097245382 RKLVFLFLAKI 11 Unmodified _RKLVFLFLAKI_ 0 0 0 ENST00000306954.4_1_14:93669861-93669912:-|nuORF ENST00000306954.4_1_14:93669861-93669912:-|nuORF ENST00000306954.4_1_14:93669861-93669912:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 337.72733 1346.88021 2.2271 0.00075214 0.69772 0.00023564 2.9248 0.00098778 337.7275927167785 31.967 0.13533 32.755 32.679 32.815 0.78795 -0.035872 -0.0002723 NaN 1.2148 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 1526800 27295 6844 17632 17690 0.2206483097245382 RKLVKYVYI 9 Unmodified _RKLVKYVYI_ 0 0 0 REV__nc|ENSG00000261716|Q6DN03|H2BC20P REV__nc|ENSG00000261716|Q6DN03|H2BC20P MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.21630859375 3 394.585015 1180.73321 2.6519 0.0010464 -2.7851 -0.001099 -0.13327 -5.2587E-05 394.5836558671805 39.376 0.23531 39.376 39.23 39.465 0 11 8 2 0 0 0 0.11393 1 17826 17826 1.0715 0.3738 1 266170 + 27296 18134 17633 17691 30821 30821 0.15007734087521385 RKLWRRPRRRP 11 Unmodified _RKLWRRPRRRP_ 0 0 0 REV__ENST00000251102.12_1_16:57965650-57974178:-|nuORF REV__ENST00000251102.12_1_16:57965650-57974178:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 788.996826171875 2 788.997826 1575.9811 NaN NaN NaN NaN NaN NaN NaN 67.947 1 67.947 67.447 68.447 0 0 0 0 1.0082 1 32661 32661 0 0 1 + 27297 14907 17634 17692 30822 30822 0.21614720518505237 RKLWRRPRRRP 11 Unmodified _RKLWRRPRRRP_ 0 0 0 REV__ENST00000251102.12_1_16:57965650-57974178:-|nuORF REV__ENST00000251102.12_1_16:57965650-57974178:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 789.219970703125 2 788.997826 1575.9811 NaN NaN NaN NaN NaN NaN NaN 69.742 1 69.742 69.242 70.242 0 0 0 0 1.0082 1 33733 33733 0 0 1 + 27298 14907 17634 17692 30823 30823 0.21614720518505237 RKLWRRPRRRP 11 Unmodified _RKLWRRPRRRP_ 0 0 0 REV__ENST00000251102.12_1_16:57965650-57974178:-|nuORF REV__ENST00000251102.12_1_16:57965650-57974178:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 788.6641845703125 2 788.997826 1575.9811 NaN NaN NaN NaN NaN NaN NaN 69.769 1 70.472 69.972 70.972 0.70302 0 0 0 1.0082 1 33404 33404 0 0 1 + 27299 14907 17634 17692 30824 30824 0.21614720518505237 RKLYLQDN 8 Unmodified _RKLYLQDN_ 0 0 0 ENSG00000125848|ENST00000341420|FLRT3 ENSG00000125848|ENST00000341420|FLRT3 ENSG00000125848|ENST00000341420|FLRT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.2926025390625 2 525.290548 1048.56654 NaN NaN NaN NaN NaN NaN NaN 15.763 1 16.421 15.921 16.921 0.65798 0 0 0 0.99035 1 7102 7102 0.69038 0 1 27300 2428 17635 17693 30825 30825 0.04420261191808095 RKMKVKKRKSL 11 Unmodified _RKMKVKKRKSL_ 0 0 0 REV__nc|ENSG00000173064|Q9Y4D8-4|HECTD4 REV__nc|ENSG00000173064|Q9Y4D8-4|HECTD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 701.4637451171875 2 701.463573 1400.91259 NaN NaN NaN NaN NaN NaN NaN 58.518 1 58.518 58.018 59.018 0 0 0 0 1.0082 1 27009 27009 0 0 1 + 27301 13581 17636 17694 30826 30826 0.2281729510380046 RKMQRWRLHL 10 Unmodified _RKMQRWRLHL_ 0 0 0 REV__ENST00000229214.8_1_12:75893569-75893638:-|nuORF REV__ENST00000229214.8_1_12:75893569-75893638:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.2793884277344 3 475.278702 1422.81428 2.9766 0.0014147 -1.045 -0.00049666 1.9316 0.00091807 475.2779767908451 62.29 0.5868 62.539 61.976 62.563 0.24965 60 37 2 0 0 0 0.93658 1 28338 28338 1.5923 0.26264 1 26245000 + 27302 14847 17637 17695 30827 30827 0.11978111578628159 RKMQRWRLHL 10 Unmodified _RKMQRWRLHL_ 0 0 0 REV__ENST00000229214.8_1_12:75893569-75893638:-|nuORF REV__ENST00000229214.8_1_12:75893569-75893638:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.61395263671875 3 475.278702 1422.81428 2.9589 0.0014063 -0.51222 -0.00024345 2.4466 0.0011628 475.6128185910362 61.648 0.57549 62.308 61.8 62.376 0.66008 73 42 2 0 0 0 0.93658 1 28066 28066 1.5923 0.26264 1 21955000 + 27303 14847 17637 17695 30828 30828 0.11978111578628159 RKMQRWRLHL 10 Unmodified _RKMQRWRLHL_ 0 0 0 REV__ENST00000229214.8_1_12:75893569-75893638:-|nuORF REV__ENST00000229214.8_1_12:75893569-75893638:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 356.7116394042969 4 356.710845 1422.81428 2.343 0.00083578 -0.42075 -0.00015009 1.9223 0.00068569 356.71068383871415 62.066 0.36591 62.726 62.621 62.986 0.66008 112 41 3 0 0 0 0.94099 1 28440 28440 0.69767 0.1345 1 9540400 + 27304 14847 17637 17695 30829 30829 0.11978111578628159 RKMTKARLER 10 Unmodified _RKMTKARLER_ 0 0 0 ENSG00000171532|ENST00000302584|NEUROD2 ENSG00000171532|ENST00000302584|NEUROD2 ENSG00000171532|ENST00000302584|NEUROD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 645.2368774414062 2 644.885155 1287.75576 NaN NaN NaN NaN NaN NaN NaN 55.926 1 56.594 56.094 57.094 0.66798 0 0 0 1.0003 1 25585 25585 1.4819 0.15237 1 27305 4812 17638 17696 30830 30830 0.12339010213440815 RKNKKRRRKRR 11 Unmodified _RKNKKRRRKRR_ 0 0 0 REV__ENST00000321521.13_1_5:102544671-102544749:+|nuORF REV__ENST00000321521.13_1_5:102544671-102544749:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 791.8323364257812 2 791.527282 1581.04001 NaN NaN NaN NaN NaN NaN NaN 72.647 1 72.647 72.147 73.147 0 0 0 0 1.0082 1 35345 35345 0 0 1 + 27306 15321 17639 17697 30831 30831 0.2727319681282552 RKNKLLEIL 9 Unmodified _RKNKLLEIL_ 0 0 0 REV__nc|ENSG00000122482|Q9H582-2|ZNF644 REV__nc|ENSG00000122482|Q9H582-2|ZNF644 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.2489013671875 3 376.248403 1125.72338 3.0197 0.0011362 0.021186 7.9711E-06 3.0409 0.0011441 376.2484150811014 30.235 0.20486 30.235 30.14 30.345 0 23 13 3 0 0 0 0.071132 1 13644 13644 39.95 0 1 607820 + 27307 11586 17640 17698 30832 30832 0.16554546082124943 RKNKLLEIL 9 Unmodified _RKNKLLEIL_ 0 0 0 REV__nc|ENSG00000122482|Q9H582-2|ZNF644 REV__nc|ENSG00000122482|Q9H582-2|ZNF644 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.2498779296875 3 376.248403 1125.72338 2.6929 0.0010132 1.0843 0.00040795 3.7771 0.0014211 376.248875213647 29.533 0.30701 30.15 29.98 30.287 0.61789 56 19 4 0 0 0 0.11155 1 13562 13562 29.841 0 1 1123200 + 27308 11586 17640 17698 30833 30833 0.16554546082124943 RKNKLLEIL 9 Unmodified _RKNKLLEIL_ 0 0 0 REV__nc|ENSG00000122482|Q9H582-2|ZNF644 REV__nc|ENSG00000122482|Q9H582-2|ZNF644 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 376.248403 1125.72338 3.0197 0.0011362 0.021186 7.9711E-06 3.0409 0.0011441 376.2484150811014 30.235 0.20486 30.235 30.14 30.345 0 0.060398 -0.00065679 NaN 39.95 23 13 3 NaN NaN NaN NaN 0 NaN NaN 0 607820 + 27309 11586 17640 17698 0.16554546082124943 RKNKLLEIL 9 Unmodified _RKNKLLEIL_ 0 0 0 REV__nc|ENSG00000122482|Q9H582-2|ZNF644 REV__nc|ENSG00000122482|Q9H582-2|ZNF644 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 376.248403 1125.72338 2.5342 0.00095347 -0.57175 -0.00021512 1.9624 0.00073835 376.24797810939623 29.379 0.20276 30.168 30.01 30.213 0.78921 -0.0063574 -0.0013261 NaN 39.95 21 14 2 NaN NaN NaN NaN 0 NaN NaN 0 696130 + 27310 11586 17640 17698 0.16554546082124943 RKNKPYRPIPV 11 Unmodified _RKNKPYRPIPV_ 0 0 0 ENSG00000154640|ENST00000348354|BTG3;nc|ENSG00000154640|Q14201-2|BTG3 ENSG00000154640|ENST00000348354|BTG3 ENSG00000154640|ENST00000348354|BTG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 684.2653198242188 2 684.417146 1366.81974 NaN NaN NaN NaN NaN NaN NaN 92.334 1 92.334 91.834 92.834 0 0 0 0 1.0072 1 49038 49038 1.3295 0 1 27311 3831 17641 17699 30834 30834 0.15100113642051838 RKNKRYFCRKW 11 Unmodified _RKNKRYFCRKW_ 0 0 0 ZNF180|p.D145Mfs*57|1|0.3|ENSG00000167384|chr19:44478048-44478048|C/-|frameshift_variant ZNF180|p.D145Mfs*57|1|0.3|ENSG00000167384|chr19:44478048-44478048|C/-|frameshift_variant ZNF180|p.D145Mfs*57|1|0.3|ENSG00000167384|chr19:44478048-44478048|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.28369140625 3 528.961261 1583.86195 NaN NaN NaN NaN NaN NaN NaN 63.795 1 63.795 63.295 64.295 0 0 0 0 1.0082 1 30074 30074 0.08335 0 1 27312 18293 17642 17700 30835 30835 0.09337765778786888 RKNTPKQK 8 Unmodified _RKNTPKQK_ 0 0 0 nc|ENSG00000032219|P29374-3|ARID4A;nc|ENSG00000032219|P29374-2|ARID4A;ENSG00000032219|ENST00000355431|ARID4A nc|ENSG00000032219|P29374-3|ARID4A nc|ENSG00000032219|P29374-3|ARID4A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.3091125488281 2 500.306532 998.598512 NaN NaN NaN NaN NaN NaN NaN 102.73 1 103.05 102.55 103.55 0.31863 0 0 0 0.99035 1 47512 47512 0.69038 0 1 27313 497 17643 17701 30836 30836 0.09915673665602753 RKNWKVRKFIL 11 Unmodified _RKNWKVRKFIL_ 0 0 0 ENSG00000115956|ENST00000234313|PLEK ENSG00000115956|ENST00000234313|PLEK ENSG00000115956|ENST00000234313|PLEK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 744.9150390625 2 744.469712 1486.92487 NaN NaN NaN NaN NaN NaN NaN 103.86 1 103.91 103.41 104.41 0.052994 0 0 0 1.008 1 56273 56273 0.30703 0 1 27314 2002 17644 17702 30837 30837 0.20088654838491493 RKPKPPPQKR 10 Unmodified _RKPKPPPQKR_ 0 0 0 REV__nc|ENSG00000041515|Q9Y6X6|MYO16 REV__nc|ENSG00000041515|Q9Y6X6|MYO16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 411.261962890625 3 411.263046 1230.76731 NaN NaN NaN NaN NaN NaN NaN 66.588 1 66.838 66.338 67.338 0.2501 0 0 0 0.99976 1 30505 30505 1.9064 1.2087 1 + 27315 10318 17645 17703 30838 30838 0.16115575299090779 RKPLSQKLR 9 Unmodified _RKPLSQKLR_ 0 0 0 REV__ENSG00000135537|ENST00000368977|AFG1L REV__ENSG00000135537|ENST00000368977|AFG1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.3663330078125 2 563.364382 1124.71421 NaN NaN NaN NaN NaN NaN NaN 48.845 1 49.107 48.607 49.607 0.26209 0 0 0 0.90699 1 22329 22329 1.8442 0.36234 1 + 27316 12024 17646 17704 30839 30839 0.15684197516429776 RKPPRRPKKRR 11 Unmodified _RKPPRRPKKRR_ 0 0 0 ENST00000600714.5_1_19:53158930-53164070:-|nuORF;ENST00000602232.5_1_19:53138393-53164070:-|nuORF ENST00000600714.5_1_19:53158930-53164070:-|nuORF ENST00000600714.5_1_19:53158930-53164070:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 737.98974609375 2 737.986927 1473.9593 NaN NaN NaN NaN NaN NaN NaN 58.281 1 58.948 58.448 59.448 0.66703 0 0 0 1.0082 1 26677 26677 0.30703 0.30703 1 27317 9297 17647 17705 30840 30840 0.24127915769940955 RKQGPGAL 8 Unmodified _RKQGPGAL_ 0 0 0 REV__nc|ENSG00000084734|Q14397|GCKR REV__nc|ENSG00000084734|Q14397|GCKR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.7491149902344 2 413.748319 825.482085 NaN NaN NaN NaN NaN NaN NaN 12.97 1 13.277 12.777 13.777 0.30727 0 0 0 0.99035 1 5850 5850 2.5775 0 1 + 27318 10637 17648 17706 30841 30841 0.06236355165719942 RKQIKKKKKRK 11 Unmodified _RKQIKKKKKRK_ 0 0 0 REV__ENST00000359543.7_1_16:10626568-10626661:-|nuORF REV__ENST00000359543.7_1_16:10626568-10626661:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 734.6416625976562 2 735.017361 1468.02017 NaN NaN NaN NaN NaN NaN NaN 78.317 1 78.317 77.817 78.817 0 0 0 0 1.0082 1 38474 38474 0 0 1 + 27319 15600 17649 17707 30842 30842 0.3048800802951064 RKQIKKKKKRK 11 Unmodified _RKQIKKKKKRK_ 0 0 0 REV__ENST00000359543.7_1_16:10626568-10626661:-|nuORF REV__ENST00000359543.7_1_16:10626568-10626661:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.34588623046875 3 490.347333 1468.02017 NaN NaN NaN NaN NaN NaN NaN 76.33 1 76.954 76.454 77.454 0.62397 0 0 0 1.0082 1 36988 36988 0.08335 0.08335 1 + 27320 15600 17649 17707 30843 30843 0.3048800802951064 RKQIKKKKKRK 11 Unmodified _RKQIKKKKKRK_ 0 0 0 REV__ENST00000359543.7_1_16:10626568-10626661:-|nuORF REV__ENST00000359543.7_1_16:10626568-10626661:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.3453063964844 3 490.347333 1468.02017 NaN NaN NaN NaN NaN NaN NaN 84.979 1 85.645 85.145 86.145 0.66566 0 0 0 1.0082 1 39137 39137 0 0 1 + 27321 15600 17649 17707 30844 30844 0.3048800802951064 RKQITVKVT 9 Unmodified _RKQITVKVT_ 0 0 0 REV__ENST00000442319.1_1_3:44979231-44979369:+|nuORF REV__ENST00000442319.1_1_3:44979231-44979369:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 358.5279235839844 3 358.232752 1071.67643 2.6227 0.00093952 0.65746 0.00023552 3.2801 0.001175 358.23281515582636 13.391 0.14729 14.033 14.003 14.15 0.64272 11 10 2 0 0 0 0.11436 1 6037 6037 0.23584 0 1 89368 + 27322 16353 17650 17708 30845 30845 0.14345686530987223 RKQLKVIT 8 Unmodified _RKQLKVIT_ 0 0 0 ENST00000566621.5_2_15:36937442-36946306:+|nuORF ENST00000566621.5_2_15:36937442-36946306:+|nuORF ENST00000566621.5_2_15:36937442-36946306:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 329.22265625 3 329.222076 984.6444 2.345 0.00077202 0.11073 3.6456E-05 2.4557 0.00080847 329.2220684625198 12.984 0.19241 12.984 12.865 13.058 0 29 10 4 0 0 0 0.63902 1 5658 5658 10.824 0 1 1898100 27323 9055 17651 17709 30846 30846 0.15146318847837392 RKQQCVTL 8 Unmodified _RKQQCVTL_ 0 0 0 nc|ENSG00000133794|O00327-7|BMAL1 nc|ENSG00000133794|O00327-7|BMAL1 nc|ENSG00000133794|O00327-7|BMAL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.27288818359375 2 488.273844 974.533135 NaN NaN NaN NaN NaN NaN NaN 48.989 1 49.644 49.144 50.144 0.65524 0 0 0 0.99035 1 22413 22413 5.2307 0.47466 1 27324 9649 17652 17710 30847 30847 0.04484936148264751 RKRFKFWRKW 10 Unmodified _RKRFKFWRKW_ 0 0 0 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 769.6884765625 2 769.454397 1536.89424 NaN NaN NaN NaN NaN NaN NaN 79.574 1 79.574 79.074 80.074 0 0 0 0 1.002 1 39344 39344 0 0 1 + 27325 18017 17653 17711 30848 30848 0.14726921244096047 RKRFLIKLH 9 Unmodified _RKRFLIKLH_ 0 0 0 FARP2|p.F319Ifs*37|1|0.05|ENSG00000006607|chr2:241434243-241434244|-/GATAGGGAATT|frameshift_variant;nc|ENSG00000006607|O94887-3|FARP2;nc|ENSG00000006607|O94887-2|FARP2;ENSG00000006607|ENST00000264042|FARP2 FARP2|p.F319Ifs*37|1|0.05|ENSG00000006607|chr2:241434243-241434244|-/GATAGGGAATT|frameshift_variant FARP2|p.F319Ifs*37|1|0.05|ENSG00000006607|chr2:241434243-241434244|-/GATAGGGAATT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.0137329101562 2 605.898392 1209.78223 NaN NaN NaN NaN NaN NaN NaN 88.846 1 88.898 88.398 89.398 0.052155 0 0 0 0.90611 1 45389 45389 2.0598 0.57785 1 27326 353 17654 17712 30849 30849 0.18573067167108093 RKRFLWQHQLL 11 Unmodified _RKRFLWQHQLL_ 0 0 0 ENSG00000185085|ENST00000330574|INTS5 ENSG00000185085|ENST00000330574|INTS5 ENSG00000185085|ENST00000330574|INTS5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.9687805175781 3 508.968522 1523.88374 NaN NaN NaN NaN NaN NaN NaN 31.015 1 31.015 30.515 31.515 0 0 0 0 1.008 1 14023 14023 0.094841 0 1 27327 5488 17655 17713 30850 30850 0.14274893799029087 RKRGLKKYV 9 Unmodified _RKRGLKKYV_ 0 0 0 REV__nc|ENSG00000168016|O15050|TRANK1 REV__nc|ENSG00000168016|O15050|TRANK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.4268798828125 2 574.374749 1146.73495 NaN NaN NaN NaN NaN NaN NaN 62.381 1 63.112 62.612 63.612 0.73077 0 0 0 0.8984 1 29072 29072 3.9444 0 1 + 27328 13323 17656 17714 30851 30851 0.16744787896118396 RKRGRARRLKR 11 Unmodified _RKRGRARRLKR_ 0 0 0 REV__nc|ENSG00000134899|P28715-2|ERCC5 REV__nc|ENSG00000134899|P28715-2|ERCC5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.1590881347656 3 484.990543 1451.9498 NaN NaN NaN NaN NaN NaN NaN 67.161 1 67.161 66.661 67.661 0 0 0 0 1.0079 1 32153 32153 0.45452 0.046251 1 + 27329 11988 17657 17715 30852 30852 0.241901474844326 RKRICILVFLR 11 Unmodified _RKRICILVFLR_ 0 0 0 nc|ENSG00000184999|Q63ZE4-2|SLC22A10;ENSG00000184999|ENST00000332793|SLC22A10 nc|ENSG00000184999|Q63ZE4-2|SLC22A10 nc|ENSG00000184999|Q63ZE4-2|SLC22A10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.9726257324219 3 472.970986 1415.89113 2.9693 0.0014044 0.63325 0.00029951 3.6025 0.0017039 472.9711427216256 50.157 0.33094 50.98 50.858 51.189 0.82285 39 16 4 0 0 0 0.91459 1 22885 22885 0.094841 0 1 2739000 27330 5476 17658 17716 30853 30853 0.1998191007510286 RKRICILVFLR 11 Unmodified _RKRICILVFLR_ 0 0 0 nc|ENSG00000184999|Q63ZE4-2|SLC22A10;ENSG00000184999|ENST00000332793|SLC22A10 nc|ENSG00000184999|Q63ZE4-2|SLC22A10 nc|ENSG00000184999|Q63ZE4-2|SLC22A10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.9726867675781 3 472.970986 1415.89113 2.9064 0.0013746 0.63446 0.00030008 3.5408 0.0016747 472.97125014861945 50.079 0.39628 50.341 50.223 50.619 0.26146 27 14 2 0 0 0 0.91459 1 22895 22895 0.094841 0 1 3774200 27331 5476 17658 17716 30854 30854 0.1998191007510286 RKRKFYLRKRK 11 Unmodified _RKRKFYLRKRK_ 0 0 0 ENST00000342992.10_3_2:179540701-179542581:-|nuORF ENST00000342992.10_3_2:179540701-179542581:-|nuORF ENST00000342992.10_3_2:179540701-179542581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.0130615234375 3 527.010832 1578.01067 NaN NaN NaN NaN NaN NaN NaN 77.41 1 77.41 76.91 77.91 0 0 0 0 1.0082 1 37965 37965 0 0 1 27332 7089 17659 17717 30855 30855 0.2447823974396215 RKRKFYLRKRK 11 Unmodified _RKRKFYLRKRK_ 0 0 0 ENST00000342992.10_3_2:179540701-179542581:-|nuORF ENST00000342992.10_3_2:179540701-179542581:-|nuORF ENST00000342992.10_3_2:179540701-179542581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 789.9417114257812 2 790.01261 1578.01067 NaN NaN NaN NaN NaN NaN NaN 80.863 1 81.031 80.531 81.531 0.16862 0 0 0 1.0082 1 39663 39663 0 0 1 27333 7089 17659 17717 30856 30856 0.2447823974396215 RKRKKKKKKKQ 11 Unmodified _RKRKKKKKKKQ_ 0 0 0 REV__AluSz6_dup29803|chr11:63572851-63572957:-|1.0054337000575218|0.2400240247261108|2.07|539.0|4|3|sense REV__AluSz6_dup29803|chr11:63572851-63572957:-|1.0054337000575218|0.2400240247261108|2.07|539.0|4|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 742.5252075195312 2 742.522811 1483.03107 NaN NaN NaN NaN NaN NaN NaN 94.428 1 94.514 94.014 95.014 0.086212 0 0 0 1.0082 1 49677 49677 0 0 1 + 27334 9957 17660 17718 30857 30857 0.30887410403806825 RKRKKKPKLVR 11 Unmodified _RKRKKKPKLVR_ 0 0 0 ENST00000216185.6_1_22:36863238-36863490:-|nuORF ENST00000216185.6_1_22:36863238-36863490:-|nuORF ENST00000216185.6_1_22:36863238-36863490:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 719.0068969726562 2 719.004254 1435.99395 NaN NaN NaN NaN NaN NaN NaN 52.433 1 52.433 51.933 52.933 0 0 0 0 1.0082 1 24010 24010 0 0 1 27335 6404 17661 17719 30858 30858 0.29339738858061537 RKRKKKPKLVR 11 Unmodified _RKRKKKPKLVR_ 0 0 0 ENST00000216185.6_1_22:36863238-36863490:-|nuORF ENST00000216185.6_1_22:36863238-36863490:-|nuORF ENST00000216185.6_1_22:36863238-36863490:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 719.0048217773438 2 719.004254 1435.99395 NaN NaN NaN NaN NaN NaN NaN 86.225 1 86.256 85.756 86.756 0.030289 0 0 0 1.0082 1 43328 43328 0 0 1 27336 6404 17661 17719 30859 30859 0.29339738858061537 RKRKKRKFSLW 11 Unmodified _RKRKKRKFSLW_ 0 0 0 nc|ENSG00000177614|Q8N414-2|PGBD5;ENSG00000177614|ENST00000391860|PGBD5 nc|ENSG00000177614|Q8N414-2|PGBD5 nc|ENSG00000177614|Q8N414-2|PGBD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 766.8659057617188 2 766.986061 1531.95757 NaN NaN NaN NaN NaN NaN NaN 99.776 1 99.838 99.338 100.34 0.062241 0 0 0 1.0082 1 54003 54003 0 0 1 27337 5127 17662 17720 30860 30860 0.21286861961357317 RKRLFGGE 8 Unmodified _RKRLFGGE_ 0 0 0 REV__ENSG00000123684|ENST00000366997|LPGAT1 REV__ENSG00000123684|ENST00000366997|LPGAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.78253173828125 2 481.780151 961.545748 3.1782 0.0015312 0.75661 0.00036452 3.9348 0.0018957 481.7804808982403 16.589 0.56395 17.247 16.994 17.558 0.65798 70 52 2 0 0 0 0.7471 1 7375 7375 0 0 1 145410 + 27338 11623 17663 17721 30861 30861 0.06343715602815791 RKRLKKKKKKK 11 Unmodified _RKRLKKKKKKK_ 0 0 0 nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-5|SP100 nc|ENSG00000067066|P23497-5|SP100 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 490.3612365722656 3 490.359461 1468.05655 NaN NaN NaN NaN NaN NaN NaN 72.361 1 72.62 72.12 73.12 0.25876 0 0 0 1.0082 1 33217 33217 0 0 1 27339 9554 17664 17722 30862 30862 0.34124884926222876 RKRLQTLQRCL 11 Unmodified _RKRLQTLQRCL_ 0 0 0 ENST00000541931.5_1_12:31854930-31882022:-|nuORF;ENST00000281471.10_1_12:31862342-31882100:-|nuORF ENST00000541931.5_1_12:31854930-31882022:-|nuORF ENST00000541931.5_1_12:31854930-31882022:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.2855224609375 3 472.285633 1413.83507 3.1756 0.0014998 -1.0416 -0.00049195 2.134 0.0010078 472.2859099576304 93.722 0.54392 94.353 94.019 94.563 0.63115 35 24 2 0 0 0 0.91068 1 43123 43123 0.45452 0 1 409430 27340 6692 17665 17723 30863 30863 0.14470657167635181 RKRLRKKLRLR 11 Unmodified _RKRLRKKLRLR_ 0 0 0 ENST00000552369.5_1_12:49233297-49239534:-|nuORF ENST00000552369.5_1_12:49233297-49239534:-|nuORF ENST00000552369.5_1_12:49233297-49239534:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 762.0352783203125 2 762.033877 1522.0532 NaN NaN NaN NaN NaN NaN NaN 90.266 1 90.266 89.766 90.766 0 0 0 0 1.0082 1 47388 47388 0 0 1 27341 8889 17666 17724 30864 30864 0.3130563487222844 RKRLRKKLRLS 11 Unmodified _RKRLRKKLRLS_ 0 0 0 ENST00000547135.5_1_12:49231823-49239549:-|nuORF ENST00000547135.5_1_12:49231823-49239549:-|nuORF ENST00000547135.5_1_12:49231823-49239549:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 727.5021362304688 2 727.499336 1452.98412 NaN NaN NaN NaN NaN NaN NaN 33.236 1 34.024 33.524 34.524 0.78795 0 0 0 1.0082 1 15039 15039 0 0 1 27342 8850 17667 17725 30865 30865 0.2757455085268248 RKRLVLLLLII 11 Unmodified _RKRLVLLLLII_ 0 0 0 REV__nc|ENSG00000162739|Q96DU3-3|SLAMF6 REV__nc|ENSG00000162739|Q96DU3-3|SLAMF6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 675.5996704101562 2 675.489582 1348.96461 NaN NaN NaN NaN NaN NaN NaN 84.608 1 84.608 84.108 85.108 0 0 0 0 1.0082 1 42871 42871 0 0 1 + 27343 12957 17668 17726 30866 30866 0.3040878178924231 RKRQMKRKKKR 11 Unmodified _RKRQMKRKKKR_ 0 0 0 REV__YLPM1|p.D2015Vfs*40|1|0.15|ENSG00000119596|chr14:74821070-74821070|A/-|frameshift_variant REV__YLPM1|p.D2015Vfs*40|1|0.15|ENSG00000119596|chr14:74821070-74821070|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 772.00390625 2 772.001719 1541.98889 NaN NaN NaN NaN NaN NaN NaN 77.846 1 78.407 77.907 78.907 0.56091 0 0 0 1.0082 1 37795 37795 0 0 1 + 27344 18249 17669 17727 30867 30867 0.23957111723780145 RKRQTRRRRNP 11 Unmodified _RKRQTRRRRNP_ 0 0 0 nc|ENSG00000140264|P84101-3|SERF2;nc|ENSG00000140264|P84101-2|SERF2 nc|ENSG00000140264|P84101-3|SERF2 nc|ENSG00000140264|P84101-3|SERF2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.7364501953125 4 381.735812 1522.91414 2.8438 0.0010856 -0.59159 -0.00022583 2.2522 0.00085976 381.9864232705569 50.66 0.7965 50.66 50.166 50.963 0 83 39 3 0 0 0 0.13295 1 23056 23056 0.08335 0 1 2156500 27345 9669 17670 17728 30868 30868 0.17360065236766786 RKRQTRRRRNP 11 Unmodified _RKRQTRRRRNP_ 0 0 0 nc|ENSG00000140264|P84101-3|SERF2;nc|ENSG00000140264|P84101-2|SERF2 nc|ENSG00000140264|P84101-3|SERF2 nc|ENSG00000140264|P84101-3|SERF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.7361145019531 4 381.735812 1522.91414 2.7961 0.0010674 -0.74904 -0.00028594 2.047 0.00078143 381.73536645673505 49.419 0.70403 50.074 49.713 50.417 0.65524 44 24 2 0 0 0 0.91462 1 22490 22490 0.08335 0.08335 1 1779100 27346 9669 17670 17728 30869 30869 0.17360065236766786 RKRRAISPL 9 Unmodified _RKRRAISPL_ 0 0 0 MCUR1|p.D155Afs*18|1|0.04|ENSG00000050393|chr6:13806996-13806997|-/AG|frameshift_variant MCUR1|p.D155Afs*18|1|0.04|ENSG00000050393|chr6:13806996-13806997|-/AG|frameshift_variant MCUR1|p.D155Afs*18|1|0.04|ENSG00000050393|chr6:13806996-13806997|-/AG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.8551025390625 2 548.856724 1095.69889 NaN NaN NaN NaN NaN NaN NaN 40.368 1 40.637 40.137 41.137 0.26904 0 0 0 0.89602 1 18366 18366 3.9444 0 1 27347 9511 17671 17729 30870 30870 0.15487330719270176 RKRRAPVF 8 Unmodified _RKRRAPVF_ 0 0 0 nc|nan|F2Z3F1|C5orf67 nc|nan|F2Z3F1|C5orf67 nc|nan|F2Z3F1|C5orf67 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.88653564453125 3 343.885799 1028.63557 NaN NaN NaN NaN NaN NaN NaN 1.7646 1 2.0687 1.5687 2.5687 0.30411 0 0 0 0.99035 1 805 805 0.45834 0 1 27348 9890 17672 17730 30871 30871 0.12239390002036998 RKRRHRNWLRF 11 Unmodified _RKRRHRNWLRF_ 0 0 0 REV__HMGXB4|p.Y83Tfs*31|1|0.44|ENSG00000100281|chr22:35263861-35263861|T/-|frameshift_variant REV__HMGXB4|p.Y83Tfs*31|1|0.44|ENSG00000100281|chr22:35263861-35263861|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 812.9783325195312 2 812.979633 1623.94471 NaN NaN NaN NaN NaN NaN NaN 87.495 1 87.535 87.035 88.035 0.039955 0 0 0 1.0082 1 44312 44312 0 0 1 + 27349 17742 17673 17731 30872 30872 0.15769843621819746 RKRRKRKKKEE 11 Unmodified _RKRRKRKKKEE_ 0 0 0 ENSG00000174808|ENST00000395743|BTC ENSG00000174808|ENST00000395743|BTC ENSG00000174808|ENST00000395743|BTC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 771.496337890625 2 771.494782 1540.97501 NaN NaN NaN NaN NaN NaN NaN 31.562 1 32.35 31.85 32.85 0.78879 0 0 0 1.0082 1 14256 14256 0 0 1 27350 4998 17674 17732 30873 30873 0.22616157496349842 RKRRKRKRIRR 11 Unmodified _RKRRKRKRIRR_ 0 0 0 ENST00000277225.9_3_9:109625513-109685652:+|nuORF ENST00000277225.9_3_9:109625513-109685652:+|nuORF ENST00000277225.9_3_9:109625513-109685652:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 805.0536499023438 2 805.050924 1608.08729 NaN NaN NaN NaN NaN NaN NaN 81.971 1 81.971 81.471 82.471 0 0 0 0 1.0082 1 40899 40899 0 0 1 27351 6679 17675 17733 30874 30874 0.3075747608384063 RKRRKRKRIRR 11 Unmodified _RKRRKRKRIRR_ 0 0 0 ENST00000277225.9_3_9:109625513-109685652:+|nuORF ENST00000277225.9_3_9:109625513-109685652:+|nuORF ENST00000277225.9_3_9:109625513-109685652:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 805.1472778320312 2 805.050924 1608.08729 NaN NaN NaN NaN NaN NaN NaN 45.711 1 46.537 46.037 47.037 0.82621 0 0 0 1.0082 1 20815 20815 0 0 1 27352 6679 17675 17733 30875 30875 0.3075747608384063 RKRRKRRRFNK 11 Unmodified _RKRRKRRRFNK_ 0 0 0 REV__ENST00000488854.6_1_3:113082116-113098301:-|nuORF REV__ENST00000488854.6_1_3:113082116-113098301:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 801.0140991210938 2 801.014007 1600.01346 NaN NaN NaN NaN NaN NaN NaN 102.71 1 102.77 102.27 103.27 0.055092 0 0 0 1.0082 1 55747 55747 0 0 1 + 27353 16782 17676 17734 30876 30876 0.237455079215124 RKRRLFQLYLL 11 Unmodified _RKRRLFQLYLL_ 0 0 0 REV__ENST00000491710.5_3_6:12015770-12015848:+|nuORF REV__ENST00000491710.5_3_6:12015770-12015848:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.1961669921875 5 301.994364 1504.93544 2.1112 0.00063756 0.021452 6.4783E-06 2.1326 0.00064404 302.1958511118767 60.714 0.85376 61.376 61.069 61.923 0.66261 51 39 2 0 0 0 0.91489 1 27772 27772 0 0 1 819160 + 27354 16804 17677 17735 30877 30877 0.2031663749294239 RKRRNRKKKKK 11 Unmodified _RKRRNRKKKKK_ 0 0 0 ENSG00000087365|ENST00000322535|SF3B2 ENSG00000087365|ENST00000322535|SF3B2 ENSG00000087365|ENST00000322535|SF3B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.3482360839844 3 509.349848 1525.02771 NaN NaN NaN NaN NaN NaN NaN 32.055 1 32.055 31.555 32.555 0 0 0 0 1.0082 1 14510 14510 0 0 1 27355 1001 17678 17736 30878 30878 0.28620160349782964 RKRRNRKKKKK 11 Unmodified _RKRRNRKKKKK_ 0 0 0 ENSG00000087365|ENST00000322535|SF3B2 ENSG00000087365|ENST00000322535|SF3B2 ENSG00000087365|ENST00000322535|SF3B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 763.5230712890625 2 763.521134 1525.02771 NaN NaN NaN NaN NaN NaN NaN 94.968 1 95.585 95.085 96.085 0.61736 0 0 0 1.0082 1 43675 43675 0 0 1 27356 1001 17678 17736 30879 30879 0.28620160349782964 RKRRNRKKKKK 11 Unmodified _RKRRNRKKKKK_ 0 0 0 ENSG00000087365|ENST00000322535|SF3B2 ENSG00000087365|ENST00000322535|SF3B2 ENSG00000087365|ENST00000322535|SF3B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.3493347167969 3 509.349848 1525.02771 NaN NaN NaN NaN NaN NaN NaN 102.99 1 103.59 103.09 104.09 0.59821 0 0 0 1.0082 1 47657 47657 0 0 1 27357 1001 17678 17736 30880 30880 0.28620160349782964 RKRRRELL 8 Unmodified _RKRRRELL_ 0 0 0 REV__ENST00000233379.8_1_2:96079888-96080107:+|nuORF REV__ENST00000233379.8_1_2:96079888-96080107:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.24896240234375 3 376.247507 1125.72069 2.5342 0.00095347 1.8073 0.00067999 4.3415 0.0016335 376.24797810939623 29.379 0.20276 30.168 30.01 30.213 0.78921 21 14 2 0 0 0 0.58952 1 13212 13212 14.838 1.9657 1 696130 + 27358 14861 17679 17737 30881 30881 0.16286135467839813 RKRRRERRTRR 11 Unmodified _RKRRRERRTRR_ 0 0 0 ENST00000280571.9_1_12:123920858-123920954:-|nuORF ENST00000280571.9_1_12:123920858-123920954:-|nuORF ENST00000280571.9_1_12:123920858-123920954:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 813.608642578125 2 813.50962 1625.00469 NaN NaN NaN NaN NaN NaN NaN 109.39 1 109.43 108.93 109.93 0.041008 0 0 0 1.0082 1 59007 59007 0 0 1 27359 6688 17680 17738 30882 30882 0.21718534285037094 RKRRRKRTKFL 11 Unmodified _RKRRRKRTKFL_ 0 0 0 REV__ENST00000308478.9_1_7:110731416-110762496:+|nuORF REV__ENST00000308478.9_1_7:110731416-110762496:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 773.0118408203125 2 773.007859 1544.00117 NaN NaN NaN NaN NaN NaN NaN 15.113 1 15.767 15.267 16.267 0.65356 0 0 0 1.0082 1 6805 6805 0 0 1 + 27360 15242 17681 17739 30883 30883 0.25092471458469845 RKRRRMKKKKK 11 Unmodified _RKRRRMKKKKK_ 0 0 0 ENST00000235372.11_1_1:14105080-14105206:+|nuORF ENST00000235372.11_1_1:14105080-14105206:+|nuORF ENST00000235372.11_1_1:14105080-14105206:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 772.153564453125 2 772.019912 1542.02527 NaN NaN NaN NaN NaN NaN NaN 84.322 1 84.351 83.851 84.851 0.028603 0 0 0 1.0082 1 42037 42037 0 0 1 27361 6462 17682 17740 30884 30884 0.27593988620469645 RKRRRMKKKKK 11 Unmodified _RKRRRMKKKKK_ 0 0 0 ENST00000235372.11_1_1:14105080-14105206:+|nuORF ENST00000235372.11_1_1:14105080-14105206:+|nuORF ENST00000235372.11_1_1:14105080-14105206:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.0159301757812 3 515.0157 1542.02527 NaN NaN NaN NaN NaN NaN NaN 107.74 1 108.34 107.84 108.84 0.6019 0 0 0 1.0082 1 49722 49722 0 0 1 27362 6462 17682 17740 30885 30885 0.27593988620469645 RKRRRRAARRR 11 Unmodified _RKRRRRAARRR_ 0 0 0 REV__ENST00000493195.5_1_1:159899139-159902434:-|nuORF REV__ENST00000493195.5_1_1:159899139-159902434:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 769.5018310546875 2 769.501598 1536.98864 NaN NaN NaN NaN NaN NaN NaN 55.76 1 55.76 55.26 56.26 0 0 0 0 1.0082 1 25647 25647 0 0 1 + 27363 10649 17683 17741 30886 30886 0.24162872838792282 RKRRRRCFRKR 11 Unmodified _RKRRRRCFRKR_ 0 0 0 ENST00000257626.11_2_7:77035403-77045687:-|nuORF ENST00000257626.11_2_7:77035403-77045687:-|nuORF ENST00000257626.11_2_7:77035403-77045687:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.0054321289062 3 540.002565 1616.98587 NaN NaN NaN NaN NaN NaN NaN 93.709 1 93.709 93.209 94.209 0 0 0 0 1.0082 1 50087 50087 0 0 1 27364 6531 17684 17742 30887 30887 0.20205281389621632 RKRRRRCFRKR 11 Unmodified _RKRRRRCFRKR_ 0 0 0 ENST00000257626.11_2_7:77035403-77045687:-|nuORF ENST00000257626.11_2_7:77035403-77045687:-|nuORF ENST00000257626.11_2_7:77035403-77045687:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 809.5386962890625 2 809.50021 1616.98587 NaN NaN NaN NaN NaN NaN NaN 108.75 1 108.79 108.29 109.29 0.04248 0 0 0 1.0082 1 58702 58702 0 0 1 27365 6531 17684 17742 30888 30888 0.20205281389621632 RKRRRRLVIYI 11 Unmodified _RKRRRRLVIYI_ 0 0 0 REV__nc|ENSG00000149295|P14416-3|DRD2 REV__nc|ENSG00000149295|P14416-3|DRD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 765.007568359375 2 765.004785 1527.99502 NaN NaN NaN NaN NaN NaN NaN 84.227 1 84.475 83.975 84.975 0.24757 0 0 0 1.0082 1 38767 38767 0 0 1 + 27366 17981 17685 17743 30889 30889 0.25213953226966623 RKRRRRRSPRR 11 Unmodified _RKRRRRRSPRR_ 0 0 0 ENST00000467963.5_3_5:889215-891867:-|nuORF;nc|ENSG00000028310|Q9H8M2-6|BRD9 ENST00000467963.5_3_5:889215-891867:-|nuORF ENST00000467963.5_3_5:889215-891867:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 790.5068969726562 2 790.506881 1578.99921 NaN NaN NaN NaN NaN NaN NaN 95.226 1 95.226 94.726 95.726 0 0 0 0 1.0082 1 51231 51231 0 0 1 27367 8152 17686 17744 30890 30890 0.23286855493233816 RKRRRWRYSLE 11 Unmodified _RKRRRWRYSLE_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 535.9814453125 3 535.97808 1604.91241 3.061 0.0016406 0.93938 0.00050349 4.0004 0.0021441 535.978515448931 45.618 0.3285 46.444 46.256 46.585 0.82621 56 17 4 0 0 0 0.91489 2 20743 20743;20792 0 0 1 2920700 27368 7869 17687 17745 30891;30892 30891 0.13415011428173784 RKRRRWRYSLE 11 Unmodified _RKRRRWRYSLE_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 803.4642944335938 2 803.463481 1604.91241 NaN NaN NaN NaN NaN NaN NaN 87.115 1 87.155 86.655 87.655 0.039955 0 0 0 1.0082 1 44015 44015 0 0 1 27369 7869 17687 17745 30893 30893 0.13415011428173784 RKRRRWRYSLE 11 Unmodified _RKRRRWRYSLE_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.9801025390625 3 535.97808 1604.91241 3.06 0.0016401 0.94406 0.000506 4.004 0.0021461 535.9785502041875 46.302 0.33491 46.568 46.368 46.703 0.26561 45 13 4 0 0 0 0.91489 1 21183 21183 0 0 1 2502100 27370 7869 17687 17745 30894 30894 0.13415011428173784 RKRRRWRYSLE 11 Unmodified _RKRRRWRYSLE_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.3147583007812 3 535.97808 1604.91241 3.5019 0.0018769 0.49736 0.00026657 3.9993 0.0021435 536.3125866447876 45.693 0.43734 46.344 46.097 46.534 0.65104 47 16 4 0 0 0 0.91489 2 20915 20915;20976 0 0 1 2598400 27371 7869 17687 17745 30895;30896 30895 0.13415011428173784 RKRRRWRYSLE 11 Unmodified _RKRRRWRYSLE_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 802.9671020507812 2 803.463481 1604.91241 4.2252 0.0033948 0.60477 0.00048591 4.8299 0.0038807 803.463828519556 45.648 0.2546 46.299 46.214 46.468 0.65104 12 8 2 0 0 0 0.13295 1 20968 20968 0 0 1 363130 27372 7869 17687 17745 30897 30897 0.13415011428173784 RKRRRWRYSLE 11 Unmodified _RKRRRWRYSLE_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 803.463481 1604.91241 3.5699 0.0028683 0.67978 0.00054618 4.2497 0.0034145 803.4636880211289 46.53 0.1672 46.53 46.479 46.646 0 0.11532 4.3019E-05 NaN 0 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 514350 27373 7869 17687 17745 0.13415011428173784 RKRRYIKTLEK 11 Unmodified _RKRRYIKTLEK_ 0 0 0 REV__ENSG00000165029|ENST00000374736|ABCA1 REV__ENSG00000165029|ENST00000374736|ABCA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 745.9701538085938 2 745.967534 1489.92051 NaN NaN NaN NaN NaN NaN NaN 71.94 1 72.604 72.104 73.104 0.66324 0 0 0 1.008 1 32974 32974 0.26902 0.26902 1 + 27374 13127 17688 17746 30898 30898 0.19515145624950492 RKRRYYRREEE 11 Unmodified _RKRRYYRREEE_ 0 0 0 REV__ENST00000533424.5_1_11:67770773-67771486:-|nuORF REV__ENST00000533424.5_1_11:67770773-67771486:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 821.0529174804688 2 820.940036 1639.86552 NaN NaN NaN NaN NaN NaN NaN 108.79 1 109.39 108.89 109.89 0.60264 0 0 0 1.0082 1 50188 50188 0 0 1 + 27375 11191 17689 17747 30899 30899 0.07118107086375858 RKRSIMYTIQK 11 Unmodified _RKRSIMYTIQK_ 0 0 0 REV__nc|ENSG00000162643|Q8IWG1-2|DNAI3 REV__nc|ENSG00000162643|Q8IWG1-2|DNAI3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 356.7112731933594 4 356.710511 1422.81294 2.2349 0.00079722 0.38875 0.00013867 2.6237 0.00093589 356.7105766155942 62.127 0.22011 62.127 61.97 62.19 0 71 35 3 0 0 0 0.91104 1 29082 29082 1.2148 0 1 81904000 + 27376 12950 17690 17748 30900 30900 0.1184443269919484 RKRSIMYTIQK 11 Unmodified _RKRSIMYTIQK_ 0 0 0 REV__nc|ENSG00000162643|Q8IWG1-2|DNAI3 REV__nc|ENSG00000162643|Q8IWG1-2|DNAI3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 356.71136474609375 4 356.710511 1422.81294 2.2023 0.00078557 0.52767 0.00018822 2.7299 0.00097379 356.96142838562884 62.495 0.34014 62.495 62.4 62.74 0 73 47 2 0 0 0 0.13295 1 29251 29251 1.2148 0.70888 1 26820000 + 27377 12950 17690 17748 30901 30901 0.1184443269919484 RKRSIMYTIQK 11 Unmodified _RKRSIMYTIQK_ 0 0 0 REV__nc|ENSG00000162643|Q8IWG1-2|DNAI3 REV__nc|ENSG00000162643|Q8IWG1-2|DNAI3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 356.9620666503906 4 356.710511 1422.81294 1.9476 0.00069473 0.33168 0.00011831 2.2793 0.00081304 356.71058153518567 61.434 0.36731 62.174 61.834 62.201 0.7396 134 46 4 0 0 0 0.91104 3 28376 28376;28430;28488 1.2148 0 1 16558000 + 27378 12950 17690 17748 30902;30903;30904 30902 0.1184443269919484 RKRSIMYTIQK 11 Unmodified _RKRSIMYTIQK_ 0 0 0 REV__nc|ENSG00000162643|Q8IWG1-2|DNAI3 REV__nc|ENSG00000162643|Q8IWG1-2|DNAI3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 356.9620666503906 4 356.710511 1422.81294 1.9476 0.00069473 0.33168 0.00011831 2.2793 0.00081304 356.71058153518567 61.434 0.36731 62.174 61.834 62.201 0.7396 134 46 4 0 0 0 0.13295 1 28376 28376 1.2148 0 1 16558000 + 27379 12950 17690 17748 30905 30905 0.1184443269919484 RKRSIMYTIQK 11 Unmodified _RKRSIMYTIQK_ 0 0 0 REV__nc|ENSG00000162643|Q8IWG1-2|DNAI3 REV__nc|ENSG00000162643|Q8IWG1-2|DNAI3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 356.71173095703125 4 356.710511 1422.81294 2.535 0.00090427 0.23101 8.2404E-05 2.766 0.00098668 356.7105155844958 62.287 0.92123 62.536 61.884 62.805 0.24965 195 99 3 0 0 0 0.91104 3 28289 28289;28384;28538 1.2148 0.70888 1 96393000 + 27380 12950 17690 17748 30906;30907;30908 30906 0.1184443269919484 RKRSIMYTIQK 11 Unmodified _RKRSIMYTIQK_ 0 0 0 REV__nc|ENSG00000162643|Q8IWG1-2|DNAI3 REV__nc|ENSG00000162643|Q8IWG1-2|DNAI3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.2790222167969 3 475.278256 1422.81294 2.9766 0.0014147 -0.10701 -5.0861E-05 2.8696 0.0013639 475.2779767908451 62.29 0.5868 62.539 61.976 62.563 0.24965 60 37 2 0 0 0 0.91104 1 28442 28442 1.2148 0.65166 1 26245000 + 27381 12950 17690 17748 30909 30909 0.1184443269919484 RKRSIMYTIQK 11 Unmodified _RKRSIMYTIQK_ 0 0 0 REV__nc|ENSG00000162643|Q8IWG1-2|DNAI3 REV__nc|ENSG00000162643|Q8IWG1-2|DNAI3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 356.96209716796875 4 356.710511 1422.81294 2.3989 0.0008557 0.52784 0.00018829 2.9267 0.001044 356.96146258960675 61.648 0.70269 62.308 61.709 62.412 0.66008 99 54 2 0 0 0 0.91104 1 28237 28237 1.2148 0.588 1 69514000 + 27382 12950 17690 17748 30910 30910 0.1184443269919484 RKRSLKLILE 10 Unmodified _RKRSLKLILE_ 0 0 0 ENSG00000119720|ENST00000354366|NRDE2 ENSG00000119720|ENST00000354366|NRDE2 ENSG00000119720|ENST00000354366|NRDE2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 314.71258544921875 4 314.710674 1254.81359 2.0736 0.00065257 1.1013 0.0003466 3.1749 0.00099918 314.96102463200185 48.877 0.44854 48.877 48.629 49.078 0 48 24 3 0 0 0 0.9427 1 22288 22288 0.12286 0 1 646750 27383 2163 17691 17749 30911 30911 0.19637595410563335 RKRSPRASLRP 11 Unmodified _RKRSPRASLRP_ 0 0 0 REV__ENSG00000106571|ENST00000395925|GLI3 REV__ENSG00000106571|ENST00000395925|GLI3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.7765808105469 3 441.940855 1322.80073 3.0986 0.0013694 -1.7109 -0.0007561 1.3877 0.0006133 442.27472365985346 55.418 0.75673 56.086 55.56 56.316 0.66798 45 31 2 0 0 0 0.13295 1 25434 25434 0.92553 0.41958 1 1308900 + 27384 11087 17692 17750 30912 30912 0.15224577071035128 RKRSPRASLRP 11 Unmodified _RKRSPRASLRP_ 0 0 0 REV__ENSG00000106571|ENST00000395925|GLI3 REV__ENSG00000106571|ENST00000395925|GLI3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 441.940855 1322.80073 2.7917 0.0012338 -2.3468 -0.0010372 0.44489 0.00019662 442.2741270124974 56.193 0.23693 56.193 55.999 56.236 0 0.040582 -0.00038881 NaN 0.92553 25 17 2 NaN NaN NaN NaN 0 NaN NaN 0 466410 + 27385 11087 17692 17750 0.15224577071035128 RKRSPRASLRP 11 Unmodified _RKRSPRASLRP_ 0 0 0 REV__ENSG00000106571|ENST00000395925|GLI3 REV__ENSG00000106571|ENST00000395925|GLI3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 441.940855 1322.80073 2.7476 0.0012143 -1.9994 -0.00088362 0.74815 0.00033064 441.9398305524471 55.913 0.26292 56.179 55.999 56.262 0.26543 0.025919 7.1834E-05 NaN 0.92553 17 10 2 NaN NaN NaN NaN 0 NaN NaN 0 707720 + 27386 11087 17692 17750 0.15224577071035128 RKRVKWFCRLP 11 Unmodified _RKRVKWFCRLP_ 0 0 0 REV__ENST00000526688.1_1_8:38269909-38271480:-|nuORF REV__ENST00000526688.1_1_8:38269909-38271480:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.962646484375 3 496.962602 1487.86598 NaN NaN NaN NaN NaN NaN NaN 45.071 1 45.071 44.571 45.571 0 0 0 0 1.0082 1 20611 20611 0.094841 0 1 + 27387 17094 17693 17751 30913 30913 0.14155855272520057 RKRVLERKRRY 11 Unmodified _RKRVLERKRRY_ 0 0 0 nc|ENSG00000198300|Q9GZU2-2|PEG3;nc|ENSG00000198300|Q9GZU2-4|PEG3;ENSG00000198300|ENST00000326441|PEG3;nc|ENSG00000198300|Q9GZU2-3|PEG3 nc|ENSG00000198300|Q9GZU2-2|PEG3 nc|ENSG00000198300|Q9GZU2-2|PEG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 780.5269775390625 2 780.489499 1558.96445 NaN NaN NaN NaN NaN NaN NaN 78.964 1 79.428 78.928 79.928 0.4642 0 0 0 1.0082 1 38483 38483 0 0 1 27388 5881 17694 17752 30914 30914 0.20732174841896267 RKRWHRWQDKH 11 Unmodified _RKRWHRWQDKH_ 0 0 0 nc|ENSG00000263715|P34998-5|CRHR1;nc|ENSG00000263715|P34998-3|CRHR1;nc|ENSG00000263715|P34998-4|CRHR1;ENSG00000120088|ENST00000314537|CRHR1;nc|ENSG00000263715|P34998-1|CRHR1 nc|ENSG00000263715|P34998-5|CRHR1 nc|ENSG00000263715|P34998-5|CRHR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 817.2536010742188 2 816.940173 1631.86579 NaN NaN NaN NaN NaN NaN NaN 97.836 1 97.836 97.336 98.336 0 0 0 0 1.008 1 53395 53395 0.30703 0.30703 1 27389 2180 17695 17753 30915 30915 0.07513571596882684 RKRWKRKRKLK 11 Unmodified _RKRWKRKRKLK_ 0 0 0 REV__NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant REV__NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 792.0358276367188 2 792.033877 1582.0532 NaN NaN NaN NaN NaN NaN NaN 91.258 1 91.333 90.833 91.833 0.075279 0 0 0 1.0082 1 47246 47246 0 0 1 + 27390 18186 17696 17754 30916 30916 0.28545634872216397 RKRWLRKPRPV 11 Unmodified _RKRWLRKPRPV_ 0 0 0 nc|ENSG00000077235|Q12789-3|GTF3C1;ENSG00000077235|ENST00000356183|GTF3C1;ENST00000562609.2_1_16:27472673-27474977:-|nuORF;ENST00000564747.1_1_16:27472673-27473321:-|nuORF nc|ENSG00000077235|Q12789-3|GTF3C1 nc|ENSG00000077235|Q12789-3|GTF3C1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.05841064453125 3 497.988028 1490.94225 NaN NaN NaN NaN NaN NaN NaN 69.106 1 69.808 69.308 70.308 0.70218 0 0 0 1.0064 1 33028 33028 2.4348 1.1051 1 27391 858 17697 17755 30917 30917 0.21641995164145555 RKSKEPKE 8 Unmodified _RKSKEPKE_ 0 0 0 nc|ENSG00000169432|Q15858-4|SCN9A;nc|ENSG00000169432|Q15858-3|SCN9A;nc|ENSG00000169432|Q15858-2|SCN9A;ENSG00000169432|ENST00000642356|SCN9A;SCN9A|p.M1532*|1|0.27|ENSG00000169432|chr2:166204135-166204135|T/-|frameshift_variant nc|ENSG00000169432|Q15858-4|SCN9A nc|ENSG00000169432|Q15858-4|SCN9A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.7945556640625 2 501.290548 1000.56654 3.9078 0.001959 -0.20162 -0.00010107 3.7062 0.0018579 501.2903429392223 94.736 0.43542 94.995 94.779 95.215 0.25975 68 24 4 0 0 0 0.7441 1 43470 43470 2.3027 0.24298 1 1656900 27392 4691 17698 17756 30918 30918 0.06628261191804086 RKSKHKSAKKK 11 Unmodified _RKSKHKSAKKK_ 0 0 0 REV3L|p.N1558Kfs*2|1|0.35|ENSG00000009413|chr6:111373681-111373682|-/T|frameshift_variant;nc|ENSG00000009413|O60673-2|REV3L;ENSG00000009413|ENST00000368802|REV3L REV3L|p.N1558Kfs*2|1|0.35|ENSG00000009413|chr6:111373681-111373682|-/T|frameshift_variant REV3L|p.N1558Kfs*2|1|0.35|ENSG00000009413|chr6:111373681-111373682|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 442.6423645019531 3 442.621122 1324.84154 NaN NaN NaN NaN NaN NaN NaN 66.336 1 67.041 66.541 67.541 0.7047 0 0 0 1.0071 1 31441 31441 1.4551 0.24029 1 27393 388 17699 17757 30919 30919 0.1921091839062683 RKSKLKKL 8 Unmodified _RKSKLKKL_ 0 0 0 REV__ENSG00000164326|ENST00000296777|CARTPT REV__ENSG00000164326|ENST00000296777|CARTPT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.8531188964844 2 500.853119 999.691684 NaN NaN NaN NaN NaN NaN NaN 36.363 1 37.156 36.656 37.656 0.79342 0 0 0 0.99035 1 16480 16480 0 0 1 + 27394 13085 17700 17758 30920 30920 0.19182598118857186 RKSLVKVNRR 10 Unmodified _RKSLVKVNRR_ 0 0 0 REV__ENST00000370008.3_1_1:109351697-109351763:+|nuORF REV__ENST00000370008.3_1_1:109351697-109351763:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 419.2728576660156 3 419.273834 1254.79967 NaN NaN NaN NaN NaN NaN NaN 43.46 1 44.109 43.609 44.609 0.64872 0 0 0 0.99837 1 19913 19913 3.0723 0.33707 1 + 27395 15716 17701 17759 30921 30921 0.1824636270209794 RKSRHRRIV 9 Unmodified _RKSRHRRIV_ 0 0 0 ENST00000581655.1_1_17:80231026-80231098:-|nuORF ENST00000581655.1_1_17:80231026-80231098:-|nuORF ENST00000581655.1_1_17:80231026-80231098:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 403.25830078125 3 403.258406 1206.75339 NaN NaN NaN NaN NaN NaN NaN 65.919 1 66.576 66.076 67.076 0.65672 0 0 0 0.906 1 30223 30223 2.086 0.17963 1 27396 9152 17702 17760 30922 30922 0.1582834259070296 RKSSGLLR 8 Unmodified _RKSSGLLR_ 0 0 0 REV__ENST00000555401.5_1_14:88852083-88883103:+|nuORF REV__ENST00000555401.5_1_14:88852083-88883103:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 458.78955078125 2 458.787976 915.561398 3.0335 0.0013918 0.601 0.00027573 3.6345 0.0016675 458.788200292952 88.46 0.73123 88.712 88.39 89.122 0.25118 111 32 5 0 0 0 0.74709 1 40770 40770 2.0598 0 1 49128000 + 27397 17320 17703 17761 30923 30923 0.10024002119871511 RKSSGLLR 8 Unmodified _RKSSGLLR_ 0 0 0 REV__ENST00000555401.5_1_14:88852083-88883103:+|nuORF REV__ENST00000555401.5_1_14:88852083-88883103:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 458.7896423339844 2 458.787976 915.561398 3.0777 0.001412 0.47026 0.00021575 3.5479 0.0016277 458.7882023885997 88.055 0.63382 88.734 88.519 89.153 0.67818 89 28 5 0 0 0 0.7471 1 40598 40598 0.69038 0 1 62720000 + 27398 17320 17703 17761 30924 30924 0.10024002119871511 RKSSKLIKK 9 Unmodified _RKSSKLIKK_ 0 0 0 nc|ENSG00000156510|Q2TB90-3|HKDC1 nc|ENSG00000156510|Q2TB90-3|HKDC1 nc|ENSG00000156510|Q2TB90-3|HKDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.3717651367188 2 544.369133 1086.72371 NaN NaN NaN NaN NaN NaN NaN 103.08 1 103.67 103.17 104.17 0.59821 0 0 0 0.91452 1 47696 47696 0 0 1 27399 9703 17704 17762 30925 30925 0.18381965801995648 RKSSRLFYIR 10 Unmodified _RKSSRLFYIR_ 0 0 0 ENST00000272433.6_1_2:73228703-73285715:-|nuORF;ENST00000461352.5_1_2:73195640-73285715:-|nuORF ENST00000272433.6_1_2:73228703-73285715:-|nuORF ENST00000272433.6_1_2:73228703-73285715:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 442.6007995605469 3 442.598206 1324.77279 NaN NaN NaN NaN NaN NaN NaN 46.57 1 46.835 46.335 47.335 0.26561 0 0 0 1.0003 1 21284 21284 0.62683 0 1 27400 6654 17705 17763 30926 30926 0.12339254090943541 RKTDQLVSF 9 Unmodified _RKTDQLVSF_ 0 0 0 PPP6R1|p.H392Mfs*11|1|0.38|ENSG00000105063|chr19:55241065-55241068|ATGG/-|frameshift_variant;ENSG00000105063|ENST00000412770|PPP6R1 PPP6R1|p.H392Mfs*11|1|0.38|ENSG00000105063|chr19:55241065-55241068|ATGG/-|frameshift_variant PPP6R1|p.H392Mfs*11|1|0.38|ENSG00000105063|chr19:55241065-55241068|ATGG/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.8059692382812 2 547.303655 1092.59276 3.3665 0.0018425 0.9177 0.00050226 4.2842 0.0023448 547.3041637901316 17.838 0.22898 18.14 18.042 18.271 0.30158 36 20 2 0 0 0 1.0246 1 8095 8095 3.5965 0 1 170010 27401 1468 17706 17764 30927 30927 0.0501653036328662 RKTKAAKG 8 Unmodified _RKTKAAKG_ 0 0 0 ENST00000265362.8_1_7:83823892-83823976:-|nuORF ENST00000265362.8_1_7:83823892-83823976:-|nuORF ENST00000265362.8_1_7:83823892-83823976:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 430.27838134765625 2 430.277244 858.539935 2.8862 0.0012419 -0.2848 -0.00012254 2.6014 0.0011193 430.2772765532719 40.895 0.4373 40.895 40.729 41.166 0 48 29 2 0 0 0 0.70799 4 18536 18536;18581;18625;18694 5.2307 0 1 1696500 27402 6619 17707 17765 30928;30929;30930;30931 30928 0.10500617091122422 RKTKAAKG 8 Unmodified _RKTKAAKG_ 0 0 0 ENST00000265362.8_1_7:83823892-83823976:-|nuORF ENST00000265362.8_1_7:83823892-83823976:-|nuORF ENST00000265362.8_1_7:83823892-83823976:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 430.27838134765625 2 430.277244 858.539935 2.7118 0.0011668 -0.46227 -0.0001989 2.2495 0.00096792 430.276929828739 40.612 0.37473 41.416 41.072 41.447 0.80351 33 24 2 0 0 0 0.70799 2 18356 18356;18404 5.2307 0 1 2422400 27403 6619 17707 17765 30932;30933 30932 0.10500617091122422 RKTKAAKG 8 Unmodified _RKTKAAKG_ 0 0 0 ENST00000265362.8_1_7:83823892-83823976:-|nuORF ENST00000265362.8_1_7:83823892-83823976:-|nuORF ENST00000265362.8_1_7:83823892-83823976:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 430.27801513671875 2 430.277244 858.539935 NaN NaN NaN NaN NaN NaN NaN 40.42 1 41.221 40.721 41.721 0.80014 0 0 0 0.99035 1 18307 18307 5.2307 0 1 27404 6619 17707 17765 30934 30934 0.10500617091122422 RKTKAAKG 8 Unmodified _RKTKAAKG_ 0 0 0 ENST00000265362.8_1_7:83823892-83823976:-|nuORF ENST00000265362.8_1_7:83823892-83823976:-|nuORF ENST00000265362.8_1_7:83823892-83823976:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.27838134765625 2 430.277244 858.539935 3.0712 0.0013215 -0.1777 -7.6459E-05 2.8935 0.001245 430.2771931046301 40.425 0.57893 40.694 40.581 41.16 0.26904 45 29 2 0 0 0 0.70799 2 18550 18394;18550 5.2307 0 1 2868400 27405 6619 17707 17765 30935;30936 30936 0.10500617091122422 RKTKAAKG 8 Unmodified _RKTKAAKG_ 0 0 0 ENST00000265362.8_1_7:83823892-83823976:-|nuORF ENST00000265362.8_1_7:83823892-83823976:-|nuORF ENST00000265362.8_1_7:83823892-83823976:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 430.277244 858.539935 3.2935 0.0014171 0.24837 0.00010687 3.5419 0.001524 430.2774163432029 40.051 0.29834 40.693 40.527 40.826 0.64135 -0.067858 0.00029167 NaN 5.2307 17 10 2 NaN NaN NaN NaN 0 NaN NaN 0 1984700 27406 6619 17707 17765 0.10500617091122422 RKTKAATIL 9 Unmodified _RKTKAATIL_ 0 0 0 nc|ENSG00000121152|Q15003-2|NCAPH;ENSG00000121152|ENST00000240423|NCAPH nc|ENSG00000121152|Q15003-2|NCAPH nc|ENSG00000121152|Q15003-2|NCAPH MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.3249816894531 2 501.326934 1000.63931 NaN NaN NaN NaN NaN NaN NaN 43.879 1 44.149 43.649 44.649 0.2694 0 0 0 0.84134 1 20047 20047 7.9102 0 1 27407 2224 17708 17766 30937 30937 0.13902014985217193 RKTKAGSSVYK 11 Unmodified _RKTKAGSSVYK_ 0 0 0 REV__ENST00000262738.7_1_22:46758356-46758458:-|nuORF REV__ENST00000262738.7_1_22:46758356-46758458:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.2660217285156 3 408.906816 1223.69862 NaN NaN NaN NaN NaN NaN NaN 64.308 1 64.965 64.465 65.465 0.65672 0 0 0 1.0051 1 29481 29481 4.1166 2.6615 1 + 27408 14990 17709 17767 30938 30938 0.09571866208739266 RKTSHPISL 9 Unmodified _RKTSHPISL_ 0 0 0 REV__ENST00000480199.1_1_8:28157565-28157883:+|nuORF REV__ENST00000480199.1_1_8:28157565-28157883:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.8740539550781 3 346.873336 1037.59818 2.4051 0.00083426 -0.2361 -8.1897E-05 2.169 0.00075236 346.87333429771473 29.308 0.33113 29.926 29.756 30.087 0.61789 48 23 3 0 0 0 0.14214 1 13443 13443 27.223 0 1 785900 + 27409 11584 17710 17768 30939 30939 0.08088253945743418 RKVDWLLP 8 Unmodified _RKVDWLLP_ 0 0 0 nc|ENSG00000279245|Q8IWN6|FAM223A;nc|ENSG00000272681|A6NKX1|FAM223B nc|ENSG00000279245|Q8IWN6|FAM223A nc|ENSG00000279245|Q8IWN6|FAM223A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 342.8763122558594 3 342.874677 1025.6022 NaN NaN NaN NaN NaN NaN NaN 49.215 1 49.871 49.371 50.371 0.65524 0 0 0 0.99035 1 22514 22514 2.9952 0.49676 1 27410 9865 17711 17769 30940 30940 0.09042343439477918 RKVEVEPL 8 Unmodified _RKVEVEPL_ 0 0 0 nc|ENSG00000142949|P10586-2|PTPRF;ENSG00000142949|ENST00000359947|PTPRF nc|ENSG00000142949|P10586-2|PTPRF nc|ENSG00000142949|P10586-2|PTPRF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2904357910156 2 485.290017 968.565481 NaN NaN NaN NaN NaN NaN NaN 43.477 1 44.126 43.626 44.626 0.64872 0 0 0 0.99035 1 19920 19920 5.7604 0 1 27411 3336 17712 17770 30941 30941 0.07994046822898326 RKVILFTFK 9 Unmodified _RKVILFTFK_ 0 0 0 ENST00000367651.3_1_6:139693526-139693751:-|nuORF ENST00000367651.3_1_6:139693526-139693751:-|nuORF ENST00000367651.3_1_6:139693526-139693751:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 384.58306884765625 3 384.581493 1150.72265 2.3603 0.00090772 1.2895 0.00049593 3.6498 0.0014037 384.58192379087325 34.428 0.21909 35.217 35.108 35.327 0.78921 33 18 3 0 0 0 1.1412 1 15578 15578 0.86438 0.23755 1 6606400 27412 7270 17713 17771 30942 30942 0.15331751433109275 RKVILFTFK 9 Unmodified _RKVILFTFK_ 0 0 0 ENST00000367651.3_1_6:139693526-139693751:-|nuORF ENST00000367651.3_1_6:139693526-139693751:-|nuORF ENST00000367651.3_1_6:139693526-139693751:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 384.5830078125 3 384.581493 1150.72265 3.1252 0.0012019 1.153 0.00044344 4.2783 0.0016453 384.58183417307924 32.413 0.2535 32.668 32.526 32.78 0.25452 52 15 4 0 0 0 1.1412 1 14809 14809 0.86438 0.62853 1 9824300 27413 7270 17713 17771 30943 30943 0.15331751433109275 RKVILFTFK 9 Unmodified _RKVILFTFK_ 0 0 0 ENST00000367651.3_1_6:139693526-139693751:-|nuORF ENST00000367651.3_1_6:139693526-139693751:-|nuORF ENST00000367651.3_1_6:139693526-139693751:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 576.3710327148438 2 576.368601 1150.72265 3.6273 0.0020907 1.0686 0.00061591 4.6959 0.0027066 576.3692919082904 32.426 0.2654 33.045 32.948 33.214 0.61831 21 12 2 0 0 0 1.2169 1 14905 14905 0.45834 0 1 769030 27414 7270 17713 17771 30944 30944 0.15331751433109275 RKVILFTFKLA 11 Unmodified _RKVILFTFKLA_ 0 0 0 ENST00000367651.3_1_6:139693526-139693751:-|nuORF ENST00000367651.3_1_6:139693526-139693751:-|nuORF ENST00000367651.3_1_6:139693526-139693751:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.7196044921875 4 334.718233 1334.84383 2.4152 0.00080842 1.2198 0.00040827 3.635 0.0012167 334.7185160151232 50.096 0.21362 50.919 50.756 50.97 0.82285 20 8 3 0 0 0 0.91459 1 22821 22821 0.094841 0 1 870280 27415 7270 17714 17772 30945 30945 0.1897995407578037 RKVILFTFKLA 11 Unmodified _RKVILFTFKLA_ 0 0 0 ENST00000367651.3_1_6:139693526-139693751:-|nuORF ENST00000367651.3_1_6:139693526-139693751:-|nuORF ENST00000367651.3_1_6:139693526-139693751:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 334.718233 1334.84383 2.5538 0.00085481 1.8626 0.00062346 4.4164 0.0014783 334.7188147356369 50.999 0.48141 50.999 50.748 51.23 0 0.062932 7.5537E-05 NaN 0.094841 54 22 3 NaN NaN NaN NaN 0 NaN NaN 0 2558500 27416 7270 17714 17772 0.1897995407578037 RKVILFTFKLA 11 Unmodified _RKVILFTFKLA_ 0 0 0 ENST00000367651.3_1_6:139693526-139693751:-|nuORF ENST00000367651.3_1_6:139693526-139693751:-|nuORF ENST00000367651.3_1_6:139693526-139693751:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 334.718233 1334.84383 2.4152 0.00080842 1.2198 0.00040827 3.635 0.0012167 334.7185160151232 50.096 0.21362 50.919 50.756 50.97 0.82285 -0.01727 -0.0007852 NaN 0.094841 20 8 3 NaN NaN NaN NaN 0 NaN NaN 0 870280 27417 7270 17714 17772 0.1897995407578037 RKVILFTFKLA 11 Unmodified _RKVILFTFKLA_ 0 0 0 ENST00000367651.3_1_6:139693526-139693751:-|nuORF ENST00000367651.3_1_6:139693526-139693751:-|nuORF ENST00000367651.3_1_6:139693526-139693751:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 334.718233 1334.84383 2.3306 0.00078011 2.0699 0.00069282 4.4005 0.0014729 334.7189283758643 50.629 0.44851 50.891 50.72 51.169 0.26146 -0.045662 0.000353 NaN 0.094841 53 22 4 NaN NaN NaN NaN 0 NaN NaN 0 1123200 27418 7270 17714 17772 0.1897995407578037 RKVKHGLG 8 Unmodified _RKVKHGLG_ 0 0 0 REV__nc|ENSG00000173064|Q9Y4D8-4|HECTD4 REV__nc|ENSG00000173064|Q9Y4D8-4|HECTD4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 894.56640625 1 894.563195 893.555919 4.7587 0.0042569 0.08552 7.6503E-05 4.8442 0.0043334 894.5629066866945 103.82 0.057457 104.14 104.11 104.16 0.31863 10 6 2 0 0 0 0.7471 1 47991 47991 0 0 1 238940 + 27419 13581 17715 17773 30946 30946 0.104883233280475 RKVKKKRILS 10 Unmodified _RKVKKKRILS_ 0 0 0 ENST00000404867.7_1_5:168093318-168093375:-|nuORF ENST00000404867.7_1_5:168093318-168093375:-|nuORF ENST00000404867.7_1_5:168093318-168093375:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 628.4385375976562 2 628.437881 1254.86121 NaN NaN NaN NaN NaN NaN NaN 76.692 1 76.948 76.448 77.448 0.25533 0 0 0 1.002 1 35314 35314 0 0 1 27420 7631 17716 17774 30947 30947 0.243972944014331 RKVLGLRQKP 10 Unmodified _RKVLGLRQKP_ 0 0 0 REV__nc|nan|Q8N9H9-2|C1orf127 REV__nc|nan|Q8N9H9-2|C1orf127 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.9305725097656 3 398.931296 1193.77206 NaN NaN NaN NaN NaN NaN NaN 29.831 1 30.449 29.949 30.949 0.61789 0 0 0 1.0001 1 13680 13680 1.5923 0.13716 1 + 27421 13669 17717 17775 30948 30948 0.18292459441886422 RKVNPAAAL 9 Unmodified _RKVNPAAAL_ 0 0 0 UTP14A|p.I484Mfs*38|1|0.07|ENSG00000156697|chrX:129924877-129924878|-/GCAAGTTCAGAGGGGACTAT|frameshift_variant;nc|ENSG00000156697|Q9BVJ6-2|UTP14A;nc|ENSG00000156697|Q9BVJ6-3|UTP14A;ENSG00000156697|ENST00000394422|UTP14A UTP14A|p.I484Mfs*38|1|0.07|ENSG00000156697|chrX:129924877-129924878|-/GCAAGTTCAGAGGGGACTAT|frameshift_variant UTP14A|p.I484Mfs*38|1|0.07|ENSG00000156697|chrX:129924877-129924878|-/GCAAGTTCAGAGGGGACTAT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.29168701171875 2 470.290351 938.566149 2.8564 0.0013434 0.41812 0.00019664 3.2746 0.00154 470.2906070187414 15.345 0.74762 15.345 15.009 15.757 0 127 90 2 0 0 0 0.98132 1 6831 6831 4.3292 0 1 87313 27422 18290 17718 17776 30949 30949 0.09440886262598269 RKVRGGLPLV 10 Unmodified _RKVRGGLPLV_ 0 0 0 ENSG00000099377|ENST00000297679|HSD3B7 ENSG00000099377|ENST00000297679|HSD3B7 ENSG00000099377|ENST00000297679|HSD3B7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.6366577148438 2 547.861475 1093.7084 NaN NaN NaN NaN NaN NaN NaN 64.787 1 64.787 64.287 65.287 0 0 0 0 0.9754 1 30762 30762 9.3831 0.63772 1 27423 1143 17719 17777 30950 30950 0.16529099004787895 RKVTTVKKFF 10 Unmodified _RKVTTVKKFF_ 0 0 0 ENSG00000154710|ENST00000284957|RABGEF1;nc|ENSG00000154710|Q9UJ41-4|RABGEF1;nc|ENSG00000154710|Q9UJ41-3|RABGEF1 ENSG00000154710|ENST00000284957|RABGEF1 ENSG00000154710|ENST00000284957|RABGEF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 627.3907470703125 2 627.390065 1252.76558 NaN NaN NaN NaN NaN NaN NaN 50.423 1 50.423 49.923 50.923 0 0 0 0 1.0003 1 23085 23085 1.4819 0.15237 1 27424 3834 17720 17778 30951 30951 0.1493052149048708 RKWHKFKRRYL 11 Unmodified _RKWHKFKRRYL_ 0 0 0 REV__ENST00000368891.9_1_10:124713711-124713801:-|nuORF REV__ENST00000368891.9_1_10:124713711-124713801:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.9924926757812 3 539.991549 1616.95282 NaN NaN NaN NaN NaN NaN NaN 18.266 1 18.266 17.766 18.766 0 0 0 0 1.0082 1 8114 8114 0 0 1 + 27425 15695 17721 17779 30952 30952 0.1690197781858842 RKWRKRVRKWL 11 Unmodified _RKWRKRVRKWL_ 0 0 0 NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.6863403320312 3 538.010944 1611.011 NaN NaN NaN NaN NaN NaN NaN 77.76 1 78.014 77.514 78.514 0.25335 0 0 0 1.0082 1 35811 35811 0 0 1 27426 9895 17722 17780 30953 30953 0.22993659463850236 RKWRKRVRKWL 11 Unmodified _RKWRKRVRKWL_ 0 0 0 NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.6777954101562 3 538.010944 1611.011 3.9103 0.0021038 -0.26669 -0.00014348 3.6436 0.0019603 538.0107604892645 106.05 0.11648 106.37 106.3 106.41 0.31628 10 4 3 0 0 0 0.13295 1 48956 48956 0 0 1 503780 27427 9895 17722 17780 30954 30954 0.22993659463850236 RKWRSWKVNRY 11 Unmodified _RKWRSWKVNRY_ 0 0 0 nc|ENSG00000078549|P41586-5|ADCYAP1R1;nc|ENSG00000078549|P41586-3|ADCYAP1R1;ENSG00000078549|ENST00000304166|ADCYAP1R1;nc|ENSG00000078549|P41586-4|ADCYAP1R1;nc|ENSG00000078549|P41586-2|ADCYAP1R1 nc|ENSG00000078549|P41586-5|ADCYAP1R1 nc|ENSG00000078549|P41586-5|ADCYAP1R1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 789.9420166015625 2 789.94185 1577.86915 NaN NaN NaN NaN NaN NaN NaN 67.836 1 68.088 67.588 68.588 0.25227 0 0 0 1.0082 1 31074 31074 0 0 1 27428 879 17723 17781 30955 30955 0.10332821650877122 RKWYFKRERKK 11 Unmodified _RKWYFKRERKK_ 0 0 0 REV__ENST00000394507.5_2_7:91870378-91871424:-|nuORF REV__ENST00000394507.5_2_7:91870378-91871424:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 812.9823608398438 2 812.980976 1623.9474 NaN NaN NaN NaN NaN NaN NaN 89.25 1 89.25 88.75 89.75 0 0 0 0 1.008 1 46560 46560 0.30703 0 1 + 27429 15970 17724 17782 30956 30956 0.1603825423608214 RKYFRRKPIKK 11 Unmodified _RKYFRRKPIKK_ 0 0 0 nc|ENSG00000151914|Q03001-13|DST;ENST00000521104.1_1_6:56504020-56557947:-|nuORF nc|ENSG00000151914|Q03001-13|DST nc|ENSG00000151914|Q03001-13|DST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1519.8463134765625 1 1519.9696 1518.96232 3.0494 0.0046349 -2.2553 -0.003428 0.79406 0.0012069 1519.9628253124804 23.431 0.021433 24.116 24.097 24.118 0.68536 5 4 2 0 0 0 0.91489 1 10451 10451 0 0 1 68420000 27430 8639 17725 17783 30957 30957 0.22359746104098122 RKYIKKKKKEI 11 Unmodified _RKYIKKKKKEI_ 0 0 0 REV__L1MC5a_dup6065|chr6:25834759-25835527:-|3.3305081510680705|0.0722535869421422|5.53|514.0|23|3|sense REV__L1MC5a_dup6065|chr6:25834759-25835527:-|3.3305081510680705|0.0722535869421422|5.53|514.0|23|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 731.4854125976562 2 731.485028 1460.9555 NaN NaN NaN NaN NaN NaN NaN 82.673 1 82.718 82.218 83.218 0.045006 0 0 0 1.0082 1 40856 40856 0 0 1 + 27431 17764 17726 17784 30958 30958 0.24346388432900312 RKYIKKKKKEI 11 Unmodified _RKYIKKKKKEI_ 0 0 0 REV__L1MC5a_dup6065|chr6:25834759-25835527:-|3.3305081510680705|0.0722535869421422|5.53|514.0|23|3|sense REV__L1MC5a_dup6065|chr6:25834759-25835527:-|3.3305081510680705|0.0722535869421422|5.53|514.0|23|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 731.4869995117188 2 731.485028 1460.9555 NaN NaN NaN NaN NaN NaN NaN 77.243 1 77.498 76.998 77.998 0.25533 0 0 0 1.0082 1 35573 35573 0 0 1 + 27432 17764 17726 17784 30959 30959 0.24346388432900312 RKYPVPWHRRS 11 Unmodified _RKYPVPWHRRS_ 0 0 0 REV__ENSG00000102805|ENST00000377453|CLN5 REV__ENSG00000102805|ENST00000377453|CLN5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 741.4154052734375 2 741.415469 1480.81638 NaN NaN NaN NaN NaN NaN NaN 76.281 1 76.945 76.445 77.445 0.66387 0 0 0 1.008 1 35141 35141 0.30703 0 1 + 27433 10943 17727 17785 30960 30960 0.09520863588045358 RKYREWYEKYY 11 Unmodified _RKYREWYEKYY_ 0 0 0 ENSG00000122257|ENST00000319715|RBBP6;nc|ENSG00000122257|Q7Z6E9-2|RBBP6 ENSG00000122257|ENST00000319715|RBBP6 ENSG00000122257|ENST00000319715|RBBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 842.4674072265625 2 842.41754 1682.82053 NaN NaN NaN NaN NaN NaN NaN 97.4 1 97.471 96.971 97.971 0.070648 0 0 0 1.0082 1 52062 52062 0 0 1 27434 2263 17728 17786 30961 30961 0.006428635004795069 RKYWDRNYYMH 11 Unmodified _RKYWDRNYYMH_ 0 0 0 REV__ENSG00000256053|ENST00000409074|COA8 REV__ENSG00000256053|ENST00000409074|COA8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 816.3768310546875 2 816.380434 1630.74632 NaN NaN NaN NaN NaN NaN NaN 96.994 1 97.596 97.096 98.096 0.6019 0 0 0 1.008 1 44593 44593 0.30703 0.30703 1 + 27435 14674 17729 17787 30962 30962 -0.04382802862710378 RLAAMKPLRR 10 Unmodified _RLAAMKPLRR_ 0 0 0 ENSG00000188994|ENST00000369577|ZNF292;ZNF292|p.S1164Ffs*57|1|0.23|ENSG00000188994|chr6:87257118-87257119|-/T|frameshift_variant;ZNF292|p.E1663Dfs*7|1|0.08|ENSG00000188994|chr6:87258617-87258618|-/TGGC|frameshift_variant;ZNF292|p.E1663Wfs*12|1|0.12|ENSG00000188994|chr6:87258615-87258616|-/TG|frameshift_variant;nc|ENSG00000188994|O60281-2|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 303.694091796875 4 303.693393 1210.74446 1.9908 0.0006046 0.85287 0.00025901 2.8437 0.00086361 303.6936576654179 32.169 0.85537 32.169 31.912 32.768 0 183 73 3 0 0 0 0.9406 2 14562 14562;14665 0.77653 0.77653 1 2766700 27436 5695 17730 17788 30963;30964 30963 0.14752232909995655 RLAAMKPLRR 10 Unmodified _RLAAMKPLRR_ 0 0 0 ENSG00000188994|ENST00000369577|ZNF292;ZNF292|p.S1164Ffs*57|1|0.23|ENSG00000188994|chr6:87257118-87257119|-/T|frameshift_variant;ZNF292|p.E1663Dfs*7|1|0.08|ENSG00000188994|chr6:87258617-87258618|-/TGGC|frameshift_variant;ZNF292|p.E1663Wfs*12|1|0.12|ENSG00000188994|chr6:87258615-87258616|-/TG|frameshift_variant;nc|ENSG00000188994|O60281-2|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 303.69366455078125 4 303.693393 1210.74446 1.7513 0.00053187 1.0947 0.00033245 2.846 0.00086431 303.6936278447131 35.398 0.60661 35.398 35.175 35.782 0 96 40 3 0 0 0 0.89607 1 16162 16162 3.8763 1.3778 1 2024300 27437 5695 17730 17788 30965 30965 0.14752232909995655 RLAAMKPLRR 10 Unmodified _RLAAMKPLRR_ 0 0 0 ENSG00000188994|ENST00000369577|ZNF292;ZNF292|p.S1164Ffs*57|1|0.23|ENSG00000188994|chr6:87257118-87257119|-/T|frameshift_variant;ZNF292|p.E1663Dfs*7|1|0.08|ENSG00000188994|chr6:87258617-87258618|-/TGGC|frameshift_variant;ZNF292|p.E1663Wfs*12|1|0.12|ENSG00000188994|chr6:87258615-87258616|-/TG|frameshift_variant;nc|ENSG00000188994|O60281-2|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.59002685546875 3 404.588765 1210.74446 2.7162 0.001099 0.76485 0.00030945 3.4811 0.0014084 404.5888232639498 31.329 0.45832 32.118 31.771 32.229 0.78879 78 37 3 0 0 0 0.9406 1 14118 14118 0.77653 0 1 1062800 27438 5695 17730 17788 30966 30966 0.14752232909995655 RLAAMKPLRR 10 Unmodified _RLAAMKPLRR_ 0 0 0 ENSG00000188994|ENST00000369577|ZNF292;ZNF292|p.S1164Ffs*57|1|0.23|ENSG00000188994|chr6:87257118-87257119|-/T|frameshift_variant;ZNF292|p.E1663Dfs*7|1|0.08|ENSG00000188994|chr6:87258617-87258618|-/TGGC|frameshift_variant;ZNF292|p.E1663Wfs*12|1|0.12|ENSG00000188994|chr6:87258615-87258616|-/TG|frameshift_variant;nc|ENSG00000188994|O60281-2|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.6939392089844 4 303.693393 1210.74446 2.2857 0.00069414 0.70294 0.00021348 2.9886 0.00090762 303.69355966631224 31.419 0.73882 32.208 31.731 32.47 0.78879 146 61 3 0 0 0 0.9406 1 14184 14184 0.77653 0 1 1738100 27439 5695 17730 17788 30967 30967 0.14752232909995655 RLAAMKPLRR 10 Unmodified _RLAAMKPLRR_ 0 0 0 ENSG00000188994|ENST00000369577|ZNF292;ZNF292|p.S1164Ffs*57|1|0.23|ENSG00000188994|chr6:87257118-87257119|-/T|frameshift_variant;ZNF292|p.E1663Dfs*7|1|0.08|ENSG00000188994|chr6:87258617-87258618|-/TGGC|frameshift_variant;ZNF292|p.E1663Wfs*12|1|0.12|ENSG00000188994|chr6:87258615-87258616|-/TG|frameshift_variant;nc|ENSG00000188994|O60281-2|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.6940612792969 4 303.693393 1210.74446 2.166 0.00065781 0.43908 0.00013335 2.6051 0.00079116 303.69343223068824 34.991 0.64396 35.246 35.133 35.777 0.25524 79 33 3 0 0 0 0.89607 1 16042 16042 3.8763 1.2451 1 2552300 27440 5695 17730 17788 30968 30968 0.14752232909995655 RLAAMKPLRR 10 Unmodified _RLAAMKPLRR_ 0 0 0 ENSG00000188994|ENST00000369577|ZNF292;ZNF292|p.S1164Ffs*57|1|0.23|ENSG00000188994|chr6:87257118-87257119|-/T|frameshift_variant;ZNF292|p.E1663Dfs*7|1|0.08|ENSG00000188994|chr6:87258617-87258618|-/TGGC|frameshift_variant;ZNF292|p.E1663Wfs*12|1|0.12|ENSG00000188994|chr6:87258615-87258616|-/TG|frameshift_variant;nc|ENSG00000188994|O60281-2|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 ENSG00000188994|ENST00000369577|ZNF292 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 303.693393 1210.74446 2.1029 0.00063864 0.20975 6.3699E-05 2.3127 0.00070234 303.69346182559667 34.462 0.18592 35.251 35.077 35.263 0.78921 -0.047555 -0.00050741 NaN 3.8763 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 3606600 27441 5695 17730 17788 0.14752232909995655 RLAARGKP 8 Unmodified _RLAARGKP_ 0 0 0 ENST00000254998.2_1_20:23331374-23334728:+|nuORF ENST00000254998.2_1_20:23331374-23334728:+|nuORF ENST00000254998.2_1_20:23331374-23334728:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7808532714844 2 434.777411 867.540269 NaN NaN NaN NaN NaN NaN NaN 61.211 1 61.874 61.374 62.374 0.66261 0 0 0 0.99035 1 28027 28027 5.2307 0 1 27442 6516 17731 17789 30969 30969 0.10120036810985766 RLAEAFSLYF 10 Unmodified _RLAEAFSLYF_ 0 0 0 REV__ENSG00000104951|ENST00000391826|IL4I1 REV__ENSG00000104951|ENST00000391826|IL4I1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.5523681640625 3 406.21688 1215.62881 2.9406 0.0011945 0.23661 9.6117E-05 3.1772 0.0012906 406.21717893512283 67.203 0.21714 67.861 67.737 67.955 0.65777 20 11 2 0 0 0 0.76575 1 30825 30825 5.7834 0 1 362380 + 27443 11010 17732 17790 30970 30970 0.029619875401522222 RLALARLLK 9 Unmodified _RLALARLLK_ 0 0 0 REV__ENSG00000172340|ENST00000307227|SUCLG2 REV__ENSG00000172340|ENST00000307227|SUCLG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.6788330078125 2 527.366393 1052.71823 NaN NaN NaN NaN NaN NaN NaN 60.016 1 60.016 59.516 60.516 0 0 0 0 0.75166 1 27798 27798 10.824 3.5347 1 + 27444 13545 17733 17791 30971 30971 0.1939828701015358 RLALSKLRRRW 11 Unmodified _RLALSKLRRRW_ 0 0 0 REV__ENST00000456222.1_1_3:42605456-42610538:-|nuORF REV__ENST00000456222.1_1_3:42605456-42610538:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 727.963134765625 2 727.962586 1453.91062 NaN NaN NaN NaN NaN NaN NaN 32.291 1 32.291 31.791 32.791 0 0 0 0 1.008 1 14622 14622 0.30703 0.30703 1 + 27445 10752 17734 17792 30972 30972 0.20182002410183486 RLARAAPA 8 Unmodified _RLARAAPA_ 0 0 0 ENST00000461415.5_1_3:183962900-183966669:-|nuORF;ENST00000414845.5_1_3:183961725-183966669:-|nuORF;ENST00000397676.7_1_3:183963587-183966660:-|nuORF ENST00000461415.5_1_3:183962900-183966669:-|nuORF ENST00000461415.5_1_3:183962900-183966669:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 413.2574157714844 2 413.256311 824.49807 NaN NaN NaN NaN NaN NaN NaN 88.972 1 89.65 89.15 90.15 0.67818 0 0 0 0.99035 1 40969 40969 2.3027 0 1 27446 7699 17735 17793 30973 30973 0.07880061402602223 RLARRILRLVK 11 Unmodified _RLARRILRLVK_ 0 0 0 SCN9A|p.I1617_G1618del|1|0.06|ENSG00000169432|chr2:166199785-166199790|GCCAAT/-|inframe_deletion SCN9A|p.I1617_G1618del|1|0.06|ENSG00000169432|chr2:166199785-166199790|GCCAAT/-|inframe_deletion SCN9A|p.I1617_G1618del|1|0.06|ENSG00000169432|chr2:166199785-166199790|GCCAAT/-|inframe_deletion MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 697.4855346679688 2 697.483154 1392.95176 NaN NaN NaN NaN NaN NaN NaN 86.65 1 86.65 86.15 87.15 0 0 0 0 1.0082 1 44476 44476 0 0 1 27447 18257 17736 17794 30974 30974 0.27099763449655256 RLARRILRLVK 11 Unmodified _RLARRILRLVK_ 0 0 0 SCN9A|p.I1617_G1618del|1|0.06|ENSG00000169432|chr2:166199785-166199790|GCCAAT/-|inframe_deletion SCN9A|p.I1617_G1618del|1|0.06|ENSG00000169432|chr2:166199785-166199790|GCCAAT/-|inframe_deletion SCN9A|p.I1617_G1618del|1|0.06|ENSG00000169432|chr2:166199785-166199790|GCCAAT/-|inframe_deletion MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 697.481201171875 2 697.483154 1392.95176 NaN NaN NaN NaN NaN NaN NaN 66.82 1 67.476 66.976 67.976 0.65672 0 0 0 1.0082 1 30632 30632 0 0 1 27448 18257 17736 17794 30975 30975 0.27099763449655256 RLAVAVFH 8 Unmodified _RLAVAVFH_ 0 0 0 REV__ENSG00000149313|ENST00000278618|AASDHPPT REV__ENSG00000149313|ENST00000278618|AASDHPPT MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.5372314453125 3 304.851983 911.534121 2.0051 0.00061125 3.328 0.0010146 5.3331 0.0016258 304.85286880201863 38.51 0.1916 38.774 38.63 38.821 0.26408 7 5 2 0 0 0 0.14313 1 17545 17545 1.6526 0 1 269830 + 27449 12565 17737 17795 30976 30976 0.07481518579470503 RLAVLQPL 8 Unmodified _RLAVLQPL_ 0 0 0 ENST00000536538.1_1_12:6602900-6604254:+|nuORF;ENST00000315579.9_1_12:6602900-6603308:+|nuORF ENST00000536538.1_1_12:6602900-6604254:+|nuORF ENST00000536538.1_1_12:6602900-6604254:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.8686828613281 3 303.867522 908.580737 NaN NaN NaN NaN NaN NaN NaN 12.736 1 13.379 12.879 13.879 0.64272 0 0 0 0.99035 1 5718 5718 3.9444 0 1 27450 6898 17738 17796 30977 30977 0.12278958410763607 RLCRISRLRL 10 Unmodified _RLCRISRLRL_ 0 0 0 REV__nc|ENSG00000263715|P34998-3|CRHR1 REV__nc|ENSG00000263715|P34998-3|CRHR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.4066772460938 2 643.403515 1284.79248 3.3679 0.0021669 2.6506 0.0017054 6.0185 0.0038723 643.4048116662638 103.7 0.13069 103.7 103.62 103.75 0 14 10 2 0 0 0 0.94246 1 57134 57134 0.40072 0 1 389030 + 27451 11529 17739 17797 30978 30978 0.1614730683002108 RLCRISRLRL 10 Unmodified _RLCRISRLRL_ 0 0 0 REV__nc|ENSG00000263715|P34998-3|CRHR1 REV__nc|ENSG00000263715|P34998-3|CRHR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 643.40869140625 2 643.403515 1284.79248 NaN NaN NaN NaN NaN NaN NaN 103.51 1 103.83 103.33 104.33 0.31863 0 0 0 1.0015 1 47851 47851 0.40072 0 1 + 27452 11529 17739 17797 30979 30979 0.1614730683002108 RLCRISRLRL 10 Unmodified _RLCRISRLRL_ 0 0 0 REV__nc|ENSG00000263715|P34998-3|CRHR1 REV__nc|ENSG00000263715|P34998-3|CRHR1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 643.403515 1284.79248 3.3679 0.0021669 2.6506 0.0017054 6.0185 0.0038723 643.4048116662638 103.7 0.13069 103.7 103.62 103.75 0 0 0 NaN 0.40072 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 389030 + 27453 11529 17739 17797 0.1614730683002108 RLCRRPRL 8 Unmodified _RLCRRPRL_ 0 0 0 ENST00000539320.2_1_12:125347034-125348347:-|nuORF ENST00000539320.2_1_12:125347034-125348347:-|nuORF ENST00000539320.2_1_12:125347034-125348347:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 357.2334899902344 3 357.222305 1068.64509 NaN NaN NaN NaN NaN NaN NaN 74.46 1 75.147 74.647 75.647 0.68662 0 0 0 0.99035 1 35990 35990 3.5965 0 1 27454 8792 17740 17798 30980 30980 0.11350835015900884 RLDAFLARVRH 11 Unmodified _RLDAFLARVRH_ 0 0 0 REV__ENST00000467281.5_1_7:127228464-127228623:+|nuORF REV__ENST00000467281.5_1_7:127228464-127228623:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.9342041015625 3 451.933588 1352.77894 NaN NaN NaN NaN NaN NaN NaN 94.659 1 94.919 94.419 95.419 0.25975 0 0 0 1.0079 1 43496 43496 0.45452 0.29519 1 + 27455 16554 17741 17799 30981 30981 0.11665772322430712 RLDKASLKF 9 Unmodified _RLDKASLKF_ 0 0 0 REV__nc|ENSG00000074054|Q7Z460-2|CLASP1 REV__nc|ENSG00000074054|Q7Z460-2|CLASP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.88616943359375 3 359.885353 1076.63423 2.3737 0.00085426 0.31646 0.00011389 2.6901 0.00096815 359.8854132515299 14.977 0.3972 15.284 15.1 15.497 0.3069 72 38 2 0 0 0 0.98132 1 6814 6814 2.4985 0 1 138920 + 27456 10512 17742 17800 30982 30982 0.09897711122607689 RLDKVRRKKEE 11 Unmodified _RLDKVRRKKEE_ 0 0 0 ENSG00000185298|ENST00000329214|CCDC137 ENSG00000185298|ENST00000329214|CCDC137 ENSG00000185298|ENST00000329214|CCDC137 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 728.935791015625 2 728.938973 1455.86339 NaN NaN NaN NaN NaN NaN NaN 63.964 1 64.679 64.179 65.179 0.71521 0 0 0 1.0075 1 30049 30049 0.96228 0 1 27457 5502 17743 17801 30983 30983 0.15369678348542948 RLDLAFAWLY 10 Unmodified _RLDLAFAWLY_ 0 0 0 ENSG00000125755|ENST00000245934|SYMPK;nc|ENSG00000125755|Q92797-2|SYMPK ENSG00000125755|ENST00000245934|SYMPK ENSG00000125755|ENST00000245934|SYMPK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.2341003417969 3 423.232641 1266.67609 3.017 0.0012769 0.19632 8.3088E-05 3.2134 0.00136 423.232640067692 49.208 0.48079 49.47 49.246 49.727 0.26146 58 17 5 0 0 0 0.39588 1 22516 22516 17.049 0 1 7264200 27458 2420 17744 17802 30984 30984 0.05342266811135232 RLDREEEWRMN 11 Unmodified _RLDREEEWRMN_ 0 0 0 REV__ENST00000454769.2_1_1:151171573-151171636:+|nuORF REV__ENST00000454769.2_1_1:151171573-151171636:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 767.3671264648438 2 767.364981 1532.71541 3.4353 0.0026361 -0.49814 -0.00038226 2.9372 0.0022539 767.8659484819028 34.499 0.24497 34.499 34.384 34.629 0 29 14 3 0 0 0 0.91391 1 15622 15622 0.30703 0 1 1411500 + 27459 16438 17745 17803 30985 30985 -0.029640009676086265 RLDTLYCHLY 10 Unmodified _RLDTLYCHLY_ 0 0 0 REV__ENSG00000149635|ENST00000279028|OCSTAMP REV__ENSG00000149635|ENST00000279028|OCSTAMP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 432.88616943359375 3 432.885024 1295.63324 3.7317 0.0016154 2.2423 0.00097066 5.974 0.0025861 432.8850341110513 103.37 0.28078 103.68 103.5 103.78 0.31863 44 26 2 0 0 0 0.9406 1 47717 47717 0.77653 0 1 511380 + 27460 12577 17746 17804 30986 30986 -0.002748713086020871 RLDTLYCHLY 10 Unmodified _RLDTLYCHLY_ 0 0 0 REV__ENSG00000149635|ENST00000279028|OCSTAMP REV__ENSG00000149635|ENST00000279028|OCSTAMP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 432.885024 1295.63324 2.5537 0.0011055 2.4131 0.0010446 4.9668 0.0021501 432.88513526293326 103.75 0.049713 103.75 103.72 103.77 0 0.011864 0.00019315 NaN 0.77653 8 4 2 NaN NaN NaN NaN 0 NaN NaN 0 141030 + 27461 12577 17746 17804 -0.002748713086020871 RLDTLYCHLY 10 Unmodified _RLDTLYCHLY_ 0 0 0 REV__ENSG00000149635|ENST00000279028|OCSTAMP REV__ENSG00000149635|ENST00000279028|OCSTAMP MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 432.885024 1295.63324 3.7317 0.0016154 2.2423 0.00097066 5.974 0.0025861 432.8850341110513 103.37 0.28078 103.68 103.5 103.78 0.31863 -0.052035 -2.8682E-05 NaN 0.77653 44 26 2 NaN NaN NaN NaN 0 NaN NaN 0 511380 + 27462 12577 17746 17804 -0.002748713086020871 RLDTLYCHLY 10 Unmodified _RLDTLYCHLY_ 0 0 0 REV__ENSG00000149635|ENST00000279028|OCSTAMP REV__ENSG00000149635|ENST00000279028|OCSTAMP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 432.885024 1295.63324 3.264 0.0014129 2.2471 0.00097272 5.5111 0.0023857 433.22130555432364 103.18 0.30254 103.78 103.72 104.02 0.59822 0.040171 -2.2508E-05 NaN 0.77653 38 26 2 NaN NaN NaN NaN 0 NaN NaN 0 308840 + 27463 12577 17746 17804 -0.002748713086020871 RLEEMTCGF 9 Unmodified _RLEEMTCGF_ 0 0 0 REV__ENST00000480680.2_1_3:10429922-10491260:-|nuORF REV__ENST00000480680.2_1_3:10429922-10491260:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.2085571289062 2 543.241352 1084.46815 NaN NaN NaN NaN NaN NaN NaN 74.954 1 75.618 75.118 76.118 0.6635 0 0 0 0.89509 1 36263 36263 4.756 0.42677 1 + 27464 12794 17747 17805 30987 30987 -0.07070426439895527 RLELYRQRELH 11 Unmodified _RLELYRQRELH_ 0 0 0 REV__nc|ENSG00000066933|B2RTY4-5|MYO9A REV__nc|ENSG00000066933|B2RTY4-5|MYO9A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.952392578125 3 504.951308 1511.83209 NaN NaN NaN NaN NaN NaN NaN 25.056 1 25.792 25.292 26.292 0.73623 0 0 0 1.008 1 11238 11238 0.073264 0 1 + 27465 10446 17748 17806 30988 30988 0.09665105314434186 RLERVKFRRQ 10 Unmodified _RLERVKFRRQ_ 0 0 0 ENSG00000164600|ENST00000297142|NEUROD6 ENSG00000164600|ENST00000297142|NEUROD6 ENSG00000164600|ENST00000297142|NEUROD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 694.4254150390625 2 694.423294 1386.83203 4.1542 0.0028848 -1.177 -0.00081735 2.9772 0.0020674 694.4222306949142 94.904 0.60149 95.521 95.282 95.884 0.61736 52 30 3 0 0 0 0.94246 1 43674 43674 0.40072 0 1 1729700 27466 4326 17749 17807 30989 30989 0.1540915010509707 RLERVKFRRQ 10 Unmodified _RLERVKFRRQ_ 0 0 0 ENSG00000164600|ENST00000297142|NEUROD6 ENSG00000164600|ENST00000297142|NEUROD6 ENSG00000164600|ENST00000297142|NEUROD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.2858581542969 3 463.284621 1386.83203 3.0364 0.0014067 -0.32034 -0.00014841 2.7161 0.0012583 463.28472184307657 94.94 1.0148 95.558 94.852 95.867 0.61737 86 55 3 0 0 0 0.94246 1 43690 43690 0.13989 0 1 872540 27467 4326 17749 17807 30990 30990 0.1540915010509707 RLEYKRKRKKT 11 Unmodified _RLEYKRKRKKT_ 0 0 0 REV__ENSG00000153157|ENST00000283141|SYCP2L REV__ENSG00000153157|ENST00000283141|SYCP2L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.69158935546875 3 502.651081 1504.93141 NaN NaN NaN NaN NaN NaN NaN 59.577 1 59.577 59.077 60.077 0 0 0 0 1.0079 1 27546 27546 0.45452 0 1 + 27468 12671 17750 17808 30991 30991 0.19914547999201204 RLFERFFVLLH 11 Unmodified _RLFERFFVLLH_ 0 0 0 ENST00000557837.1_1_15:89060105-89074648:-|nuORF;ENSG00000140543|ENST00000268148|DET1;nc|ENSG00000173867|Q7L5Y6-2|DET1 ENST00000557837.1_1_15:89060105-89074648:-|nuORF ENST00000557837.1_1_15:89060105-89074648:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.9500427246094 3 492.95399 1475.84014 NaN NaN NaN NaN NaN NaN NaN 66.169 1 66.874 66.374 67.374 0.7047 0 0 0 1.0071 1 31350 31350 0.50596 0.09769 1 27469 3207 17751 17809 30992 30992 0.121252843018965 RLFHPKLII 9 Unmodified _RLFHPKLII_ 0 0 0 ENST00000579558.5_1_17:18243959-18259295:-|nuORF;nc|ENSG00000176974|P34896-3|SHMT1;nc|ENSG00000176974|P34896-2|SHMT1;ENSG00000176974|ENST00000316694|SHMT1;nc|ENSG00000176974|P34896-4|SHMT1 ENST00000579558.5_1_17:18243959-18259295:-|nuORF ENST00000579558.5_1_17:18243959-18259295:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.8679809570312 2 568.868769 1135.72298 NaN NaN NaN NaN NaN NaN NaN 24.857 1 25.593 25.093 26.093 0.73623 0 0 0 0.91238 1 11142 11142 0.52476 0.066424 1 27470 5094 17752 17810 30993 30993 0.1605517115292514 RLFIKKFK 8 Unmodified _RLFIKKFK_ 0 0 0 ENST00000380888.4_1_20:29523054-29523153:-|nuORF ENST00000380888.4_1_20:29523054-29523153:-|nuORF ENST00000380888.4_1_20:29523054-29523153:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.56378173828125 3 360.57445 1078.70152 2.408 0.00086827 1.6724 0.00060304 4.0804 0.0014713 360.57477375703394 33.253 0.056305 33.873 33.84 33.896 0.62031 4 2 2 0 0 0 0.7471 1 15243 15243 0 0 1 104370 27471 7476 17753 17811 30994 30994 0.16531786124232895 RLFIKKFK 8 Unmodified _RLFIKKFK_ 0 0 0 ENST00000380888.4_1_20:29523054-29523153:-|nuORF ENST00000380888.4_1_20:29523054-29523153:-|nuORF ENST00000380888.4_1_20:29523054-29523153:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.9097595214844 3 360.57445 1078.70152 2.5921 0.00093463 0.83487 0.00030103 3.4269 0.0012357 360.9088529024518 35.187 0.61108 35.81 35.681 36.292 0.62294 37 21 2 0 0 0 0.7471 1 16255 16255 0 0 1 241150 27472 7476 17753 17811 30995 30995 0.16531786124232895 RLFIKKFK 8 Unmodified _RLFIKKFK_ 0 0 0 ENST00000380888.4_1_20:29523054-29523153:-|nuORF ENST00000380888.4_1_20:29523054-29523153:-|nuORF ENST00000380888.4_1_20:29523054-29523153:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.57598876953125 3 360.57445 1078.70152 NaN NaN NaN NaN NaN NaN NaN 33.583 1 34.204 33.704 34.704 0.62031 0 0 0 0.99035 1 15389 15389 0 0 1 27473 7476 17753 17811 30996 30996 0.16531786124232895 RLFIKKFK 8 Unmodified _RLFIKKFK_ 0 0 0 ENST00000380888.4_1_20:29523054-29523153:-|nuORF ENST00000380888.4_1_20:29523054-29523153:-|nuORF ENST00000380888.4_1_20:29523054-29523153:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.5754089355469 3 360.57445 1078.70152 NaN NaN NaN NaN NaN NaN NaN 34.237 1 34.86 34.36 35.36 0.6227 0 0 0 0.99035 1 15686 15686 0 0 1 27474 7476 17753 17811 30997 30997 0.16531786124232895 RLFIKLHLG 9 Unmodified _RLFIKLHLG_ 0 0 0 ENST00000313733.7_1_20:60869099-60869312:+|nuORF ENST00000313733.7_1_20:60869099-60869312:+|nuORF ENST00000313733.7_1_20:60869099-60869312:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.3564453125 2 548.853119 1095.69168 3.5754 0.0019624 1.8449 0.0010126 5.4204 0.002975 548.8539115650492 42.472 0.19559 42.472 42.411 42.607 0 23 13 2 0 0 0 1.178 1 19355 19355 0.52476 0 1 668990 27475 6888 17754 17812 30998 30998 0.14766598118831098 RLFIKLHLG 9 Unmodified _RLFIKLHLG_ 0 0 0 ENST00000313733.7_1_20:60869099-60869312:+|nuORF ENST00000313733.7_1_20:60869099-60869312:+|nuORF ENST00000313733.7_1_20:60869099-60869312:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.2394714355469 3 366.237838 1095.69168 2.3105 0.00084617 0.91327 0.00033447 3.2237 0.0011806 366.2381319193368 41.61 0.18402 42.414 42.38 42.564 0.80351 33 18 2 0 0 0 1.178 1 18930 18930 1.0715 0.10919 1 2459600 27476 6888 17754 17812 30999 30999 0.14766598118831098 RLFIKLHLG 9 Unmodified _RLFIKLHLG_ 0 0 0 ENST00000313733.7_1_20:60869099-60869312:+|nuORF ENST00000313733.7_1_20:60869099-60869312:+|nuORF ENST00000313733.7_1_20:60869099-60869312:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 548.853119 1095.69168 3.5754 0.0019624 1.8449 0.0010126 5.4204 0.002975 548.8539115650492 42.472 0.19559 42.472 42.411 42.607 0 0 0 NaN 0.52476 23 13 2 NaN NaN NaN NaN 0 NaN NaN 0 668990 27477 6888 17754 17812 0.14766598118831098 RLFIQKKQ 8 Unmodified _RLFIQKKQ_ 0 0 0 REV__nc|ENSG00000170959|M0R2J8|DCDC1 REV__nc|ENSG00000170959|M0R2J8|DCDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.8375244140625 2 530.834926 1059.6553 NaN NaN NaN NaN NaN NaN NaN 86.562 1 86.592 86.092 87.092 0.030289 0 0 0 0.99035 1 43591 43591 2.3027 0 1 + 27478 13465 17755 17813 31000 31000 0.12785721222144275 RLFLLLLLI 9 Unmodified _RLFLLLLLI_ 0 0 0 REV__ENST00000562118.1_1_16:68857288-68867399:+|nuORF REV__ENST00000562118.1_1_16:68857288-68867399:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.3922729492188 2 557.391545 1112.76854 NaN NaN NaN NaN NaN NaN NaN 84.476 1 84.476 83.976 84.976 0 0 0 0 0.91452 1 42776 42776 0 0 1 + 27479 10309 17756 17814 31001 31001 0.2166639661534191 RLFPGAPPTA 10 Unmodified _RLFPGAPPTA_ 0 0 0 ENSG00000130522|ENST00000252818|JUND ENSG00000130522|ENST00000252818|JUND ENSG00000130522|ENST00000252818|JUND MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.792724609375 2 513.790184 1025.56581 3.2708 0.0016805 2.8533 0.001466 6.1241 0.0031465 513.7910505599798 39.376 0.17541 40.174 40.078 40.253 0.79762 16 7 3 0 0 0 0.90196 1 17836 17836 3.5965 1.2938 1 302080 27480 2597 17757 17815 31002 31002 0.05405466542742943 RLFPPRMAL 9 Unmodified _RLFPPRMAL_ 0 0 0 nc|ENSG00000143127|O75578-3|ITGA10;ENSG00000143127|ENST00000369304|ITGA10 nc|ENSG00000143127|O75578-3|ITGA10 nc|ENSG00000143127|O75578-3|ITGA10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.8228149414062 2 550.823504 1099.63245 NaN NaN NaN NaN NaN NaN NaN 17.551 1 17.751 17.251 18.251 0.20057 0 0 0 0.8984 1 7768 7768 3.9444 0.66309 1 27481 3344 17758 17816 31003 31003 0.08662378832991635 RLFQFKGV 8 Unmodified _RLFQFKGV_ 0 0 0 ENST00000356388.8_1_2:65540259-65540475:-|nuORF ENST00000356388.8_1_2:65540259-65540475:-|nuORF ENST00000356388.8_1_2:65540259-65540475:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 332.52337646484375 3 332.199272 993.575986 2.373 0.00078829 1.5299 0.00050823 3.9029 0.0012965 332.1999072694357 13.098 0.11981 13.098 13.01 13.13 0 6 5 2 0 0 0 0.70799 1 5726 5726 3.5965 1.7523 1 123130 27482 7157 17759 17817 31004 31004 0.0789407426799471 RLFQHKQKIQ 10 Unmodified _RLFQHKQKIQ_ 0 0 0 REV__ENST00000525674.5_1_6:133078868-133078925:-|nuORF REV__ENST00000525674.5_1_6:133078868-133078925:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 442.60076904296875 3 442.598206 1324.77279 NaN NaN NaN NaN NaN NaN NaN 45.507 1 46.334 45.834 46.834 0.82621 0 0 0 0.99464 1 20721 20721 3.3196 1.5372 1 + 27483 17085 17760 17818 31005 31005 0.12339254090943541 RLFRLLLRFLF 11 Unmodified _RLFRLLLRFLF_ 0 0 0 REV__ENSG00000171954|ENST00000269703|CYP4F22 REV__ENSG00000171954|ENST00000269703|CYP4F22 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 747.4761352539062 2 747.477006 1492.93946 NaN NaN NaN NaN NaN NaN NaN 103.34 1 103.39 102.89 103.89 0.055092 0 0 0 1.0082 1 56032 56032 0 0 1 + 27484 13528 17761 17819 31006 31006 0.2127072698660868 RLFRQLFKRS 10 Unmodified _RLFRQLFKRS_ 0 0 0 REV__nc|ENSG00000148335|Q9BV86-2|NTMT1 REV__nc|ENSG00000148335|Q9BV86-2|NTMT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 675.9085083007812 2 675.909488 1349.80442 NaN NaN NaN NaN NaN NaN NaN 88.632 1 88.632 88.132 89.132 0 0 0 0 1.0015 1 46043 46043 0.40072 0 1 + 27485 12531 17762 17820 31007 31007 0.14351246844876187 RLFRVRRIAAA 11 Unmodified _RLFRVRRIAAA_ 0 0 0 ENST00000265343.9_1_5:132299023-132299215:-|nuORF ENST00000265343.9_1_5:132299023-132299215:-|nuORF ENST00000265343.9_1_5:132299023-132299215:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 664.9231567382812 2 664.922929 1327.83131 NaN NaN NaN NaN NaN NaN NaN 48.114 1 48.114 47.614 48.614 0 0 0 0 1.0082 1 22033 22033 0 0 1 27486 6617 17763 17821 31008 31008 0.18050355456102807 RLFRWLYEKFR 11 Unmodified _RLFRWLYEKFR_ 0 0 0 ENSG00000167904|ENST00000434581|TMEM68 ENSG00000167904|ENST00000434581|TMEM68 ENSG00000167904|ENST00000434581|TMEM68 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.4564819335938 2 807.456802 1612.89905 NaN NaN NaN NaN NaN NaN NaN 64.425 1 64.425 63.925 64.925 0 0 0 0 1.0082 1 30517 30517 0 0 1 27487 4587 17764 17822 31009 31009 0.11711760596176646 RLFRWLYEKFR 11 Unmodified _RLFRWLYEKFR_ 0 0 0 ENSG00000167904|ENST00000434581|TMEM68 ENSG00000167904|ENST00000434581|TMEM68 ENSG00000167904|ENST00000434581|TMEM68 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.6853637695312 2 807.456802 1612.89905 NaN NaN NaN NaN NaN NaN NaN 87.423 1 87.423 86.923 87.923 0 0 0 0 1.0082 1 45082 45082 0 0 1 27488 4587 17764 17822 31010 31010 0.11711760596176646 RLFTAVFV 8 Unmodified _RLFTAVFV_ 0 0 0 REV__ENSG00000099194|ENST00000370355|SCD REV__ENSG00000099194|ENST00000370355|SCD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 318.19317626953125 3 318.192006 951.554188 NaN NaN NaN NaN NaN NaN NaN 12.57 1 13.213 12.713 13.713 0.64272 0 0 0 0.99035 1 5642 5642 1.8442 0 1 + 27489 10780 17765 17823 31011 31011 0.07647269519407018 RLFWVQIVL 9 Unmodified _RLFWVQIVL_ 0 0 0 nc|ENSG00000130589|Q9BYK8-2|HELZ2;ENSG00000130589|ENST00000467148|HELZ2;nc|ENSG00000130589|Q9BYK8|HELZ2;HELZ2|p.D1355Vfs*86|1|0.31|ENSG00000130589|chr20:63564758-63564758|T/-|frameshift_variant nc|ENSG00000130589|Q9BYK8-2|HELZ2 nc|ENSG00000130589|Q9BYK8-2|HELZ2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.9104309082031 3 391.90961 1172.707 2.7397 0.0010737 -0.69469 -0.00027226 2.045 0.00080145 391.9092822465427 26.513 0.20266 27.138 27.027 27.23 0.62505 17 9 2 0 0 0 0.98132 1 12173 12173 4.897 0 1 199880 27490 2601 17766 17824 31012 31012 0.12755464916017445 RLFWVQIVL 9 Unmodified _RLFWVQIVL_ 0 0 0 nc|ENSG00000130589|Q9BYK8-2|HELZ2;ENSG00000130589|ENST00000467148|HELZ2;nc|ENSG00000130589|Q9BYK8|HELZ2;HELZ2|p.D1355Vfs*86|1|0.31|ENSG00000130589|chr20:63564758-63564758|T/-|frameshift_variant nc|ENSG00000130589|Q9BYK8-2|HELZ2 nc|ENSG00000130589|Q9BYK8-2|HELZ2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 391.90961 1172.707 2.8958 0.0011349 -0.82986 -0.00032523 2.0659 0.00080967 391.9093460415435 26.929 0.17342 27.194 27.085 27.258 0.26489 0.028265 -7.1506E-05 NaN 4.897 19 11 2 NaN NaN NaN NaN 0 NaN NaN 0 342800 27491 2601 17766 17824 0.12755464916017445 RLFYRFISFKE 11 Unmodified _RLFYRFISFKE_ 0 0 0 REV__ENSG00000115239|ENST00000263634|ASB3 REV__ENSG00000115239|ENST00000263634|ASB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 753.4144287109375 2 753.416811 1504.81907 NaN NaN NaN NaN NaN NaN NaN 58.786 1 58.786 58.286 59.286 0 0 0 0 1.008 1 27146 27146 0.30703 0.03801 1 + 27492 11348 17767 17825 31013 31013 0.08685274202321125 RLGASRPLSLR 11 Unmodified _RLGASRPLSLR_ 0 0 0 ENST00000371485.7_1_10:95256438-95259836:+|nuORF ENST00000371485.7_1_10:95256438-95259836:+|nuORF ENST00000371485.7_1_10:95256438-95259836:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.2548828125 3 409.254439 1224.74149 NaN NaN NaN NaN NaN NaN NaN 64.8 1 65.515 65.015 66.015 0.71521 0 0 0 1.0065 1 30546 30546 2.2527 0 1 27493 7320 17768 17826 31014 31014 0.13810681056838803 RLGVLRALFFK 11 Unmodified _RLGVLRALFFK_ 0 0 0 nc|ENSG00000103197|P49815-7|TSC2;nc|ENSG00000103197|P49815-6|TSC2;nc|ENSG00000103197|P49815-5|TSC2;nc|ENSG00000103197|P49815-3|TSC2;nc|ENSG00000103197|P49815-2|TSC2;nc|ENSG00000103197|P49815-4|TSC2;ENSG00000103197|ENST00000219476|TSC2 nc|ENSG00000103197|P49815-7|TSC2 nc|ENSG00000103197|P49815-7|TSC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 440.7794494628906 3 440.615197 1318.82376 NaN NaN NaN NaN NaN NaN NaN 76.795 1 77.458 76.958 77.958 0.66303 0 0 0 1.0073 1 35386 35386 1.2148 0.51716 1 27494 1382 17769 17827 31015 31015 0.17710203135766278 RLGVTYFVV 9 Unmodified _RLGVTYFVV_ 0 0 0 ENSG00000165102|ENST00000379644|HGSNAT;nc|ENSG00000165102|Q68CP4|HGSNAT ENSG00000165102|ENST00000379644|HGSNAT ENSG00000165102|ENST00000379644|HGSNAT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.3793334960938 2 527.30821 1052.60187 NaN NaN NaN NaN NaN NaN NaN 57.865 1 57.865 57.365 58.365 0 0 0 0 0.90611 1 26684 26684 2.0598 0.40713 1 27495 4371 17770 17828 31016 31016 0.07766923719623264 RLHFKRKKLYF 11 Unmodified _RLHFKRKKLYF_ 0 0 0 REV__ENST00000342992.10_3_2:179540701-179542581:-|nuORF REV__ENST00000342992.10_3_2:179540701-179542581:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.318603515625 3 512.6489 1534.92487 3.3253 0.0017047 1.3909 0.00071304 4.7162 0.0024177 512.6496145256996 32.276 0.23576 32.895 32.786 33.022 0.61831 21 13 2 0 0 0 0.13295 1 14807 14807 0.094841 0.094841 1 202030 + 27496 15483 17771 17829 31017 31017 0.17880654838495502 RLHKADII 8 Unmodified _RLHKADII_ 0 0 0 STK31|p.T844R|1|0.16|ENSG00000196335|chr7:23788023-23788023|C/G|missense_variant STK31|p.T844R|1|0.16|ENSG00000196335|chr7:23788023-23788023|C/G|missense_variant STK31|p.T844R|1|0.16|ENSG00000196335|chr7:23788023-23788023|C/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 322.5349426269531 3 322.534543 964.581799 NaN NaN NaN NaN NaN NaN NaN 12.91 1 13.157 12.657 13.657 0.24697 0 0 0 0.79116 1 5620 5620 14.838 0.93222 1 27497 18261 17772 17830 31018 31018 0.09809172779637265 RLHKAGKH 8 Unmodified _RLHKAGKH_ 0 0 0 REV__nc|ENSG00000156096|P06133-2|UGT2B4;REV__ENSG00000135220|ENST00000251566|UGT2A3;REV__ENSG00000171234|ENST00000305231|UGT2B7 REV__ENSG00000171234|ENST00000305231|UGT2B7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 316.531005859375 3 316.194632 945.562067 1.6547 0.00052322 3.3917 0.0010724 5.0465 0.0015957 316.1952920531564 12.858 0.18709 13.165 13.091 13.279 0.30727 8 5 2 0 0 0 0.70799 1 5810 5810 3.5965 0 1 579800 + 27498 12763;12005;13483 17773 17831 31019 31019 0.08710841559548044 RLHKQRKLI 9 Unmodified _RLHKQRKLI_ 0 0 0 REV__nc|ENSG00000127423|Q9H7T9-2|AUNIP REV__nc|ENSG00000127423|Q9H7T9-2|AUNIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 596.6825561523438 2 596.393474 1190.77239 NaN NaN NaN NaN NaN NaN NaN 55.924 1 56.711 56.211 57.211 0.78711 0 0 0 0.91238 1 25548 25548 0.52476 0 1 + 27499 17926 17774 17832 31020 31020 0.18463879161754448 RLHKRFSAL 9 Unmodified _RLHKRFSAL_ 0 0 0 nc|ENSG00000033100|Q9P2E5-2|CHPF2;ENSG00000033100|ENST00000035307|CHPF2 nc|ENSG00000033100|Q9P2E5-2|CHPF2 nc|ENSG00000033100|Q9P2E5-2|CHPF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.5658264160156 3 376.564725 1126.67235 NaN NaN NaN NaN NaN NaN NaN 12.493 1 12.8 12.3 13.3 0.30727 0 0 0 0.90335 1 5632 5632 2.7352 0.23671 1 27500 502 17775 17833 31021 31021 0.11407641827918269 RLHLKKKEKKK 11 Unmodified _RLHLKKKEKKK_ 0 0 0 AluSx3_dup9866|chr5:139548844-139549146:-|1.519075499608694|0.1210908915224006|3.65|519.0|9|2|sense AluSx3_dup9866|chr5:139548844-139549146:-|1.519075499608694|0.1210908915224006|3.65|519.0|9|2|sense AluSx3_dup9866|chr5:139548844-139549146:-|1.519075499608694|0.1210908915224006|3.65|519.0|9|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 718.4822387695312 2 718.48282 1434.95109 NaN NaN NaN NaN NaN NaN NaN 95.187 1 95.455 94.955 95.955 0.2675 0 0 0 1.0082 1 43737 43737 0 0 1 27501 47 17776 17834 31022 31022 0.2510092400993926 RLHLLWRWPRL 11 Unmodified _RLHLLWRWPRL_ 0 0 0 REV__ENST00000392474.6_1_12:121677959-121678241:-|nuORF REV__ENST00000392474.6_1_12:121677959-121678241:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.9796142578125 3 515.980762 1544.92046 NaN NaN NaN NaN NaN NaN NaN 100.65 1 101.25 100.75 101.75 0.59717 0 0 0 1.0082 1 46597 46597 0.08335 0.08335 1 + 27502 15930 17777 17835 31023 31023 0.1697919041557725 RLHQLHTK 8 Unmodified _RLHQLHTK_ 0 0 0 REV__nc|ENSG00000164674|Q4VX76-2|SYTL3 REV__nc|ENSG00000164674|Q4VX76-2|SYTL3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.5206604003906 3 344.873559 1031.59885 2.2629 0.0007804 -2.7871 -0.00096119 -0.52421 -0.00018079 344.872380304956 14.492 0.30891 14.798 14.711 15.02 0.3069 34 21 3 0 0 0 0.13619 1 6579 6579 10.074 2.465 1 674040 + 27503 13106 17778 17836 31024 31024 0.08431093385433996 RLHQVAMRLVT 11 Unmodified _RLHQVAMRLVT_ 0 0 0 REV__nc|ENSG00000029153|Q8WYA1-9|BMAL2 REV__nc|ENSG00000029153|Q8WYA1-9|BMAL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.94940185546875 4 331.697404 1322.76051 2.218 0.0007357 1.115 0.00036985 3.333 0.0011056 331.6977256551994 49.822 0.2916 49.822 49.682 49.973 0 36 13 4 0 0 0 0.91068 1 22851 22851 1.3296 0.63198 1 1433600 + 27504 10284 17779 17837 31025 31025 0.11203894356208366 RLHRPVEKI 9 Unmodified _RLHRPVEKI_ 0 0 0 REV__nc|ENSG00000163950|Q14493-2|SLBP REV__nc|ENSG00000163950|Q14493-2|SLBP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.3565063476562 2 574.356557 1146.69856 NaN NaN NaN NaN NaN NaN NaN 10.895 1 10.895 10.395 11.395 0 0 0 0 0.91238 1 4790 4790 0.52476 0 1 + 27505 13045 17780 17838 31026 31026 0.13107910999406158 RLIARQLAKIH 11 Unmodified _RLIARQLAKIH_ 0 0 0 ENSG00000139163|ENST00000266517|ETNK1;nc|ENSG00000139163|Q9HBU6|ETNK1 ENSG00000139163|ENST00000266517|ETNK1 ENSG00000139163|ENST00000266517|ETNK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 440.1363220214844 3 440.285851 1317.83572 NaN NaN NaN NaN NaN NaN NaN 72.17 1 72.833 72.333 73.333 0.66324 0 0 0 1.0073 1 33089 33089 0.40827 0 1 27506 3132 17781 17839 31027 31027 0.18951819878975584 RLIDVLARPVN 11 Unmodified _RLIDVLARPVN_ 0 0 0 REV__ENSG00000187902|ENST00000376325|SHISA7 REV__ENSG00000187902|ENST00000376325|SHISA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3884887695312 2 633.388054 1264.76155 NaN NaN NaN NaN NaN NaN NaN 46.356 1 47.008 46.508 47.508 0.65219 0 0 0 1.0062 1 21233 21233 1.1933 0.79263 1 + 27507 14122 17782 17840 31028 31028 0.13976431996798055 RLIEKECVRYF 11 Unmodified _RLIEKECVRYF_ 0 0 0 REV__nc|ENSG00000138642|Q8IVU3-2|HERC6 REV__nc|ENSG00000138642|Q8IVU3-2|HERC6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.9309387207031 3 485.930745 1454.7704 NaN NaN NaN NaN NaN NaN NaN 61.814 1 62.544 62.044 63.044 0.73077 0 0 0 1.0059 1 28717 28717 1.2148 0 1 + 27508 12177 17783 17841 31029 31029 0.061210375709606524 RLIHDSHINIL 11 Unmodified _RLIHDSHINIL_ 0 0 0 REV__ENST00000513117.1_1_5:6633573-6668378:+|nuORF REV__ENST00000513117.1_1_5:6633573-6668378:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 666.0819091796875 2 665.883136 1329.75172 3.9366 0.0026213 -4.432 -0.0029512 -0.49542 -0.00032989 666.381154413543 37.176 0.090363 37.806 37.771 37.862 0.62999 6 4 2 0 0 0 0.13295 1 17006 17006 0.23584 0.028987 1 242650 + 27509 16988 17784 17842 31030 31030 0.10003243991423005 RLIHREQWRD 10 Unmodified _RLIHREQWRD_ 0 0 0 REV__ENSG00000136937|ENST00000375147|NCBP1 REV__ENSG00000136937|ENST00000375147|NCBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.2582092285156 3 470.256731 1407.74836 2.9646 0.0013941 -0.52193 -0.00024544 2.4427 0.0011487 470.2564763216467 26.552 0.20689 26.552 26.435 26.642 0 40 19 3 0 0 0 0.89607 1 11931 11931 3.8763 0.030424 1 1353300 + 27510 12091 17785 17843 31031 31031 0.060799939374192036 RLILKRMKIRI 11 Unmodified _RLILKRMKIRI_ 0 0 0 REV__nc|ENSG00000133678|Q8TBM7-3|TMEM254 REV__nc|ENSG00000133678|Q8TBM7-3|TMEM254 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 720.6011962890625 2 720.489591 1438.96463 NaN NaN NaN NaN NaN NaN NaN 109.65 1 109.65 109.15 110.15 0 0 0 0 1.0082 1 59945 59945 0 0 1 + 27511 17946 17786 17844 31032 31032 0.2627045851756975 RLILLKQF 8 Unmodified _RLILLKQF_ 0 0 0 REV__nc|ENSG00000197653|Q8IVF4|DNAH10 REV__nc|ENSG00000197653|Q8IVF4|DNAH10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.84326171875 2 515.84222 1029.66989 NaN NaN NaN NaN NaN NaN NaN 20.461 1 20.461 19.961 20.961 0 0 0 0 0.99035 1 9149 9149 0.79363 0 1 + 27512 14297 17787 17845 31033 31033 0.15623793370264139 RLIPSVIKYY 10 Unmodified _RLIPSVIKYY_ 0 0 0 REV__ENSG00000237521|ENST00000456448|OR7E24 REV__ENSG00000237521|ENST00000456448|OR7E24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 417.92156982421875 3 417.920174 1250.73869 2.8062 0.0011728 1.1597 0.00048468 3.9659 0.0016574 417.92050288906654 40.558 0.29942 40.558 40.37 40.669 0 30 16 2 0 0 0 0.9178 2 18365 18365;18453 2.8433 1.5923 1 5406800 + 27513 14598 17788 17846 31034;31035 31034 0.12335412879338037 RLIPSVIKYY 10 Unmodified _RLIPSVIKYY_ 0 0 0 REV__ENSG00000237521|ENST00000456448|OR7E24 REV__ENSG00000237521|ENST00000456448|OR7E24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 417.92156982421875 3 417.920174 1250.73869 2.7947 0.0011679 0.89637 0.00037461 3.691 0.0015426 417.92037846686134 40.755 0.20959 40.755 40.669 40.879 0 30 10 4 0 0 0 0.93788 1 18510 18510 1.3296 1.3296 1 5136000 + 27514 14598 17788 17846 31036 31036 0.12335412879338037 RLIPSVIKYY 10 Unmodified _RLIPSVIKYY_ 0 0 0 REV__ENSG00000237521|ENST00000456448|OR7E24 REV__ENSG00000237521|ENST00000456448|OR7E24 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 417.920174 1250.73869 2.712 0.0011334 1.5099 0.00063102 4.2219 0.0017644 417.92061495976145 39.654 0.49499 40.454 40.148 40.643 0.80014 -0.047011 0.00030171 NaN 2.8433 78 24 4 NaN NaN NaN NaN 0 NaN NaN 0 1481100 + 27515 14598 17788 17846 0.12335412879338037 RLIPTELRRE 10 Unmodified _RLIPTELRRE_ 0 0 0 ENST00000470672.1_1_2:131100637-131102299:+|nuORF;ENST00000464432.5_1_2:131100487-131103076:+|nuORF;ENST00000462392.5_1_2:131100637-131103595:+|nuORF;ENST00000473689.5_1_2:131100487-131103328:+|nuORF;ENSG00000136718|ENST00000259239|IMP4;ENST00000460766.5_1_2:131100637-131104038:+|nuORF ENST00000470672.1_1_2:131100637-131102299:+|nuORF ENST00000470672.1_1_2:131100637-131102299:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.88525390625 2 641.883136 1281.75172 4.1059 0.0026355 -0.88349 -0.0005671 3.2224 0.0020684 641.882377128056 91.512 1.3294 92.174 91.368 92.698 0.66198 195 68 4 0 0 0 0.93855 1 42016 42016 1.1933 0 1 4087000 27516 2967 17789 17847 31037 31037 0.12211243991396259 RLIQLQRWQL 10 Unmodified _RLIQLQRWQL_ 0 0 0 ENST00000547526.1_1_12:57910914-57914246:-|nuORF ENST00000547526.1_1_12:57910914-57914246:-|nuORF ENST00000547526.1_1_12:57910914-57914246:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.9446105957031 3 451.941973 1352.80409 NaN NaN NaN NaN NaN NaN NaN 50.888 1 50.888 50.388 51.388 0 0 0 0 1.0013 1 23300 23300 0.62683 0 1 27517 8853 17790 17848 31038 31038 0.1417982712500816 RLITTKGSLTK 11 Unmodified _RLITTKGSLTK_ 0 0 0 REV__ENST00000503074.1_1_5:35659153-35697983:+|nuORF REV__ENST00000503074.1_1_5:35659153-35697983:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.59088134765625 3 406.590717 1216.75032 NaN NaN NaN NaN NaN NaN NaN 60.439 1 60.695 60.195 61.195 0.25578 0 0 0 1.0073 1 27673 27673 0.40827 0.041592 1 + 27518 12653 17791 17849 31039 31039 0.15061609902659256 RLKFYRKKWRQ 11 Unmodified _RLKFYRKKWRQ_ 0 0 0 REV__nc|ENSG00000102780|Q86XP1-2|DGKH REV__nc|ENSG00000102780|Q86XP1-2|DGKH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 804.9815063476562 2 804.983518 1607.95248 NaN NaN NaN NaN NaN NaN NaN 94.791 1 94.791 94.291 95.291 0 0 0 0 1.0082 1 50930 50930 0 0 1 + 27519 10939 17792 17850 31040 31040 0.17282558098713707 RLKFYRKKWRQ 11 Unmodified _RLKFYRKKWRQ_ 0 0 0 REV__nc|ENSG00000102780|Q86XP1-2|DGKH REV__nc|ENSG00000102780|Q86XP1-2|DGKH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 804.9841918945312 2 804.983518 1607.95248 NaN NaN NaN NaN NaN NaN NaN 100.57 1 100.63 100.13 101.13 0.059723 0 0 0 1.0082 1 54581 54581 0 0 1 + 27520 10939 17792 17850 31041 31041 0.17282558098713707 RLKFYRKKWRQ 11 Unmodified _RLKFYRKKWRQ_ 0 0 0 REV__nc|ENSG00000102780|Q86XP1-2|DGKH REV__nc|ENSG00000102780|Q86XP1-2|DGKH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.9937744140625 3 536.991438 1607.95248 3.1578 0.0016957 2.1345 0.0011462 5.2923 0.0028419 536.9924227817719 48.639 0.42226 48.901 48.691 49.113 0.26209 25 18 2 0 0 0 0.91489 2 22200 22200;22211 0 0 1 582840 + 27521 10939 17792 17850 31042;31043 31042 0.17282558098713707 RLKFYRKKWRQ 11 Unmodified _RLKFYRKKWRQ_ 0 0 0 REV__nc|ENSG00000102780|Q86XP1-2|DGKH REV__nc|ENSG00000102780|Q86XP1-2|DGKH MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.9937133789062 3 536.991438 1607.95248 NaN NaN NaN NaN NaN NaN NaN 48.327 1 48.59 48.09 49.09 0.26209 0 0 0 1.0082 1 22090 22090 0 0 1 + 27522 10939 17792 17850 31044 31044 0.17282558098713707 RLKFYRKKWRQ 11 Unmodified _RLKFYRKKWRQ_ 0 0 0 REV__nc|ENSG00000102780|Q86XP1-2|DGKH REV__nc|ENSG00000102780|Q86XP1-2|DGKH MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.994140625 3 536.991438 1607.95248 NaN NaN NaN NaN NaN NaN NaN 47.938 1 48.592 48.092 49.092 0.65356 0 0 0 1.0082 1 21943 21943 0 0 1 + 27523 10939 17792 17850 31045 31045 0.17282558098713707 RLKKKEVRQRR 11 Unmodified _RLKKKEVRQRR_ 0 0 0 nc|ENSG00000116852|O75037-3|KIF21B;ENSG00000116852|ENST00000461742|KIF21B;nc|ENSG00000116852|O75037-2|KIF21B;nc|ENSG00000116852|O75037|KIF21B nc|ENSG00000116852|O75037-3|KIF21B nc|ENSG00000116852|O75037-3|KIF21B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 748.9862670898438 2 748.98405 1495.95355 NaN NaN NaN NaN NaN NaN NaN 59.727 1 59.727 59.227 60.227 0 0 0 0 1.008 1 27624 27624 0.30703 0.30703 1 27524 2053 17793 17851 31046 31046 0.22540772467618808 RLKKKKKKRK 10 Unmodified _RLKKKKKKRK_ 0 0 0 AluJb_dup107864|chr17:42999154-42999315:-|6.401154338767979|0.0002278324850216|14.78|542.0|4|2|sense AluJb_dup107864|chr17:42999154-42999315:-|6.401154338767979|0.0002278324850216|14.78|542.0|4|2|sense AluJb_dup107864|chr17:42999154-42999315:-|6.401154338767979|0.0002278324850216|14.78|542.0|4|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 670.9885864257812 2 670.988072 1339.96159 NaN NaN NaN NaN NaN NaN NaN 17.676 1 17.977 17.477 18.477 0.30158 0 0 0 1.002 1 8005 8005 0 0 1 27525 26 17794 17852 31047 31047 0.30520951455036993 RLKKKRQKERK 11 Unmodified _RLKKKRQKERK_ 0 0 0 nc|ENSG00000115282|Q49AM3-2|TTC31;ENST00000464241.5_1_2:74710222-74719357:+|nuORF;ENSG00000115282|ENST00000233623|TTC31 nc|ENSG00000115282|Q49AM3-2|TTC31 nc|ENSG00000115282|Q49AM3-2|TTC31 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 749.4940795898438 2 749.49425 1496.97395 NaN NaN NaN NaN NaN NaN NaN 35.047 1 35.839 35.339 36.339 0.79131 0 0 0 1.0082 1 15882 15882 0 0 1 27526 1958 17795 17853 31048 31048 0.24533943127426028 RLKKLLDL 8 Unmodified _RLKKLLDL_ 0 0 0 nc|ENSG00000119778|Q9ULI0-2|ATAD2B;ENSG00000119778|ENST00000238789|ATAD2B;ATAD2B|p.V1409A|1|0.29|ENSG00000119778|chr2:23754288-23754288|A/G|missense_variant nc|ENSG00000119778|Q9ULI0-2|ATAD2B nc|ENSG00000119778|Q9ULI0-2|ATAD2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 333.562744140625 3 333.56221 997.664801 2.8189 0.00094027 -0.34452 -0.00011492 2.4744 0.00082535 333.5621004716532 31.83 0.21393 32.085 31.996 32.21 0.25452 21 14 2 0 0 0 0.70799 1 14493 14493 3.5965 0 1 205520 27527 2168 17796 17854 31049 31049 0.16587489507651298 RLKKLRLKL 9 Unmodified _RLKKLRLKL_ 0 0 0 REV__nc|ENSG00000174038|Q5VYM1-3|SPATA31G1 REV__nc|ENSG00000174038|Q5VYM1-3|SPATA31G1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.4220581054688 2 584.424242 1166.83393 NaN NaN NaN NaN NaN NaN NaN 87.731 1 87.731 87.231 88.231 0 0 0 0 0.91452 1 45333 45333 0 0 1 + 27528 13621 17797 17855 31050 31050 0.25718810861008023 RLKKLRLKL 9 Unmodified _RLKKLRLKL_ 0 0 0 REV__nc|ENSG00000174038|Q5VYM1-3|SPATA31G1 REV__nc|ENSG00000174038|Q5VYM1-3|SPATA31G1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.4664916992188 2 584.424242 1166.83393 NaN NaN NaN NaN NaN NaN NaN 87.057 1 87.097 86.597 87.597 0.039955 0 0 0 0.91452 1 43966 43966 0 0 1 + 27529 13621 17797 17855 31051 31051 0.25718810861008023 RLKKRLRKRPW 11 Unmodified _RLKKRLRKRPW_ 0 0 0 REV__ENST00000547135.5_1_12:49231823-49239549:-|nuORF REV__ENST00000547135.5_1_12:49231823-49239549:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 769.1681518554688 2 769.007328 1536.0001 NaN NaN NaN NaN NaN NaN NaN 69.917 1 69.917 69.417 70.417 0 0 0 0 1.0072 1 33850 33850 1.3295 0.92882 1 + 27530 17254 17798 17856 31052 31052 0.2535425708956609 RLKKWLKPKLY 11 Unmodified _RLKKWLKPKLY_ 0 0 0 REV__ENSG00000185448|ENST00000346193|FAM47A REV__ENSG00000185448|ENST00000346193|FAM47A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 736.9769897460938 2 736.976839 1471.93913 NaN NaN NaN NaN NaN NaN NaN 63.675 1 64.397 63.897 64.897 0.72236 0 0 0 1.008 1 29861 29861 0.30703 0.03801 1 + 27531 14019 17799 17857 31053 31053 0.22203307266772754 RLKLQETA 8 Unmodified _RLKLQETA_ 0 0 0 nc|ENSG00000147256|Q6ZRI8-5|ARHGAP36;nc|ENSG00000147256|Q6ZRI8-2|ARHGAP36;nc|ENSG00000147256|Q6ZRI8-4|ARHGAP36;ENSG00000147256|ENST00000276211|ARHGAP36 nc|ENSG00000147256|Q6ZRI8-5|ARHGAP36 nc|ENSG00000147256|Q6ZRI8-5|ARHGAP36 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 320.1956481933594 3 320.194186 957.56073 NaN NaN NaN NaN NaN NaN NaN 51.816 1 52.079 51.579 52.579 0.26227 0 0 0 0.99035 1 23684 23684 1.6526 0 1 27532 3557 17800 17858 31054 31054 0.08025162680144149 RLKLRSGL 8 Unmodified _RLKLRSGL_ 0 0 0 REV__ENST00000417688.5_1_22:41253121-41266139:+|nuORF REV__ENST00000417688.5_1_22:41253121-41266139:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.8790588378906 3 314.878421 941.613434 NaN NaN NaN NaN NaN NaN NaN 14.656 1 14.963 14.463 15.463 0.3069 0 0 0 0.9101 1 6626 6626 13.042 0 1 + 27533 16142 17801 17859 31055 31055 0.14029165533622745 RLKMRLWDL 9 Unmodified _RLKMRLWDL_ 0 0 0 ENSG00000068079|ENST00000415816|IFI35;nc|ENSG00000068079|P80217-2|IFI35;ENST00000396722.2_1_17:41158964-41164381:+|nuORF;ENST00000246911.6_1_17:41158964-41165399:+|nuORF ENSG00000068079|ENST00000415816|IFI35 ENSG00000068079|ENST00000415816|IFI35 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 410.9110107421875 3 410.909504 1229.70668 2.9274 0.0012029 -0.18974 -7.7965E-05 2.7376 0.0011249 410.9094553926281 53.823 0.40493 54.087 53.907 54.312 0.26462 46 15 4 0 0 0 0.02234 2 24594 24594;24642 51.415 25.395 1 3674000 27534 732 17802 17860 31056;31057 31056 0.10101721924525009 RLKMRLWDL 9 Unmodified _RLKMRLWDL_ 0 0 0 ENSG00000068079|ENST00000415816|IFI35;nc|ENSG00000068079|P80217-2|IFI35;ENST00000396722.2_1_17:41158964-41164381:+|nuORF;ENST00000246911.6_1_17:41158964-41165399:+|nuORF ENSG00000068079|ENST00000415816|IFI35 ENSG00000068079|ENST00000415816|IFI35 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 410.9108581542969 3 410.909504 1229.70668 2.8 0.0011506 -0.24766 -0.00010177 2.5524 0.0010488 410.90944871245944 53.257 0.37 53.921 53.731 54.101 0.6644 44 15 4 0 0 0 0.029308 2 24376 24328;24376 43.982 23.401 1 3755800 27535 732 17802 17860 31058;31059 31059 0.10101721924525009 RLKNLSPLR 9 Unmodified _RLKNLSPLR_ 0 0 0 REV__nc|ENSG00000143401|Q9BTT0-3|ANP32E REV__nc|ENSG00000143401|Q9BTT0-3|ANP32E MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.8558959960938 2 548.851107 1095.68766 NaN NaN NaN NaN NaN NaN NaN 40.826 1 40.826 40.326 41.326 0 0 0 0 0.88916 1 18539 18539 6.2058 0.47393 1 + 27536 12368 17803 17861 31060 31060 0.14364508625112649 RLKQLSIV 8 Unmodified _RLKQLSIV_ 0 0 0 REV__ENST00000523741.5_1_8:126104080-126114361:+|nuORF REV__ENST00000523741.5_1_8:126104080-126114361:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 319.547607421875 3 319.54656 955.617851 2.2212 0.00070978 0.95598 0.00030548 3.1772 0.0010153 319.54684790258773 14.717 0.28472 15.371 15.24 15.525 0.65356 39 24 2 0 0 0 0.7471 1 6658 6658 1.6526 0 1 368180 + 27537 17024 17804 17862 31061 31061 0.13826629956520264 RLKQQEIQELL 11 Unmodified _RLKQQEIQELL_ 0 0 0 REV__ENSG00000166004|ENST00000325212|CEP295 REV__ENSG00000166004|ENST00000325212|CEP295 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 699.4129028320312 2 699.409183 1396.80381 4.1613 0.0029104 -1.4621 -0.0010226 2.6992 0.0018878 699.4081716937332 96.206 0.92647 96.814 96.294 97.22 0.60769 86 49 3 0 0 0 0.91111 1 44188 44188 1.1933 0 1 2662200 + 27538 13204 17805 17863 31062 31062 0.12128362614521393 RLKRIKFFNK 10 Unmodified _RLKRIKFFNK_ 0 0 0 REV__ENST00000453185.5_1_1:29522511-29533334:-|nuORF REV__ENST00000453185.5_1_1:29522511-29533334:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 675.4297485351562 2 675.430056 1348.84556 NaN NaN NaN NaN NaN NaN NaN 49.001 1 49.828 49.328 50.328 0.82705 0 0 0 1.0015 1 22324 22324 0.40072 0 1 + 27539 16425 17806 17864 31063 31063 0.18509007884335915 RLKRKKLLK 9 Unmodified _RLKRKKLLK_ 0 0 0 ENSG00000111647|ENST00000279907|BLTP3B ENSG00000111647|ENST00000279907|BLTP3B ENSG00000111647|ENST00000279907|BLTP3B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.984619140625 2 591.929692 1181.84483 NaN NaN NaN NaN NaN NaN NaN 28.542 1 28.542 28.042 29.042 0 0 0 0 0.91452 1 12871 12871 0 0 1 27540 1768 17807 17865 31064 31064 0.26118213235281473 RLKVEGHRF 9 Unmodified _RLKVEGHRF_ 0 0 0 ENST00000497128.1_1_3:52019461-52020636:+|nuORF;ENST00000465121.5_1_3:52018080-52021658:+|nuORF;nc|ENSG00000243989|Q03154-3|ACY1;nc|ENSG00000243989|Q03154-4|ACY1;ENSG00000243989|ENST00000636358|ACY1 ENST00000497128.1_1_3:52019461-52020636:+|nuORF ENST00000497128.1_1_3:52019461-52020636:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.4093017578125 2 571.333082 1140.65161 NaN NaN NaN NaN NaN NaN NaN 62.723 1 62.723 62.223 63.223 0 0 0 0 0.86044 1 29415 29415 7.2892 0.56607 1 27541 6244 17808 17866 31065 31065 0.08691051448272447 RLKVEYNRWKL 11 Unmodified _RLKVEYNRWKL_ 0 0 0 REV__ENSG00000155363|ENST00000369645|MOV10 REV__ENSG00000155363|ENST00000369645|MOV10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.2980041503906 3 502.296415 1503.86742 2.9571 0.0014854 -0.40887 -0.00020537 2.5483 0.00128 502.29615671241737 45.551 0.35119 45.551 45.36 45.711 0 48 15 4 0 0 0 0.91104 1 20884 20884 1.2148 0.20126 1 2397100 + 27542 12738 17809 17867 31066 31066 0.1356376784224267 RLKVEYNRWKL 11 Unmodified _RLKVEYNRWKL_ 0 0 0 REV__ENSG00000155363|ENST00000369645|MOV10 REV__ENSG00000155363|ENST00000369645|MOV10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.296875 3 502.296415 1503.86742 3.1066 0.0015604 -0.94905 -0.00047671 2.1575 0.0010837 502.2959929195792 45.328 0.27292 45.596 45.438 45.711 0.26768 32 10 4 0 0 0 0.89544 1 20693 20693 2.6312 0.19645 1 4154500 + 27543 12738 17809 17867 31067 31067 0.1356376784224267 RLLALRHPVF 10 Unmodified _RLLALRHPVF_ 0 0 0 ENST00000395648.7_2_11:44954150-44954441:-|nuORF ENST00000395648.7_2_11:44954150-44954441:-|nuORF ENST00000395648.7_2_11:44954150-44954441:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.3812255859375 2 611.382574 1220.7506 NaN NaN NaN NaN NaN NaN NaN 65.121 1 65.778 65.278 66.278 0.65672 0 0 0 0.99741 1 29855 29855 1.6526 0 1 27544 7557 17810 17868 31068 31068 0.1490507441317277 RLLDKGKWTDP 11 Unmodified _RLLDKGKWTDP_ 0 0 0 REV__nc|ENSG00000144771|Q9HBL6-2|LRTM1 REV__nc|ENSG00000144771|Q9HBL6-2|LRTM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 443.6841735839844 3 443.582221 1327.72483 NaN NaN NaN NaN NaN NaN NaN 69.186 1 69.186 68.686 69.686 0 0 0 0 1.0007 1 33375 33375 6.6235 2.5068 1 + 27545 12414 17811 17869 31069 31069 0.07408135380228487 RLLDRRERRKK 11 Unmodified _RLLDRRERRKK_ 0 0 0 REV__ENSG00000073910|ENST00000542859|FRY REV__ENSG00000073910|ENST00000542859|FRY MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 763.482177734375 2 763.479131 1524.94371 NaN NaN NaN NaN NaN NaN NaN 84.228 1 84.256 83.756 84.756 0.028603 0 0 0 1.0073 1 41971 41971 1.1933 0.12188 1 + 27546 10509 17812 17870 31070 31070 0.20223584462223698 RLLELHVF 8 Unmodified _RLLELHVF_ 0 0 0 ENSG00000103335|ENST00000301015|PIEZO1 ENSG00000103335|ENST00000301015|PIEZO1 ENSG00000103335|ENST00000301015|PIEZO1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.54827880859375 3 342.874677 1025.6022 2.2587 0.00077445 1.1648 0.00039937 3.4235 0.0011738 342.8749620037021 44.655 0.45781 45.476 45.324 45.782 0.82075 66 22 4 0 0 0 0.14346 1 20276 20276 0.45834 0 1 5500300 27547 1391 17813 17871 31071 31071 0.09042343439477918 RLLELIFH 8 Unmodified _RLLELIFH_ 0 0 0 REV__ENSG00000105722|ENST00000222329|ERF REV__ENSG00000105722|ENST00000222329|ERF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.5477294921875 3 347.54656 1039.61785 2.3401 0.00081329 1.1649 0.00040487 3.505 0.0012182 347.54687619692214 55.638 0.58579 55.904 55.515 56.101 0.26543 43 33 2 0 0 0 0.72814 1 25481 25481 3.5965 0 1 2580500 + 27548 11050 17814 17872 31072 31072 0.09962629956521596 RLLELIFH 8 Unmodified _RLLELIFH_ 0 0 0 REV__ENSG00000105722|ENST00000222329|ERF REV__ENSG00000105722|ENST00000222329|ERF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 347.54656 1039.61785 2.3195 0.00080615 1.74 0.00060474 4.0596 0.0014109 347.5470182430687 55.865 0.28149 55.865 55.695 55.977 0 0.023854 0.00024425 NaN 3.5965 50 21 3 NaN NaN NaN NaN 0 NaN NaN 0 1436100 + 27549 11050 17814 17872 0.09962629956521596 RLLELIFH 8 Unmodified _RLLELIFH_ 0 0 0 REV__ENSG00000105722|ENST00000222329|ERF REV__ENSG00000105722|ENST00000222329|ERF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 347.54656 1039.61785 1.968 0.00068396 1.2298 0.00042742 3.1978 0.0011114 347.5469536152381 54.864 0.473 55.66 55.341 55.814 0.79552 -0.1815 -0.0002877 NaN 3.5965 47 30 2 NaN NaN NaN NaN 0 NaN NaN 0 1423600 + 27550 11050 17814 17872 0.09962629956521596 RLLGIVRPKV 10 Unmodified _RLLGIVRPKV_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.8960571289062 2 575.892775 1149.771 NaN NaN NaN NaN NaN NaN NaN 64.236 1 64.952 64.452 65.452 0.71521 0 0 0 0.99812 1 30245 30245 3.2813 1.4371 1 + 27551 12747 17815 17873 31073 31073 0.20210245072962607 RLLGKPPKL 9 Unmodified _RLLGKPPKL_ 0 0 0 ENST00000522846.1_1_8:29048390-29120551:-|nuORF ENST00000522846.1_1_8:29048390-29120551:-|nuORF ENST00000522846.1_1_8:29048390-29120551:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 341.23504638671875 3 341.234205 1020.68079 2.7128 0.00092571 -0.10426 -3.5577E-05 2.6086 0.00089013 341.23411130341145 12.438 0.074265 13.081 13.047 13.121 0.64272 4 2 2 0 0 0 0.95612 1 5593 5593 2.7352 0 1 6203000 27552 8653 17816 17874 31074 31074 0.17127195744535584 RLLKKKKK 8 Unmodified _RLLKKKKK_ 0 0 0 AluJr_dup30890|chr7:56010465-56010753:-|1.1163034777063767|0.4309280836060434|1.37|541.0|4|1|sense AluJr_dup30890|chr7:56010465-56010753:-|1.1163034777063767|0.4309280836060434|1.37|541.0|4|1|sense AluJr_dup30890|chr7:56010465-56010753:-|1.1163034777063767|0.4309280836060434|1.37|541.0|4|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.3867797851562 2 521.384586 1040.75462 NaN NaN NaN NaN NaN NaN NaN 87.034 1 87.284 86.784 87.784 0.24974 0 0 0 0.99035 1 40061 40061 0 0 1 27553 30 17817 17875 31075 31075 0.2358716390688187 RLLKRRRREWF 11 Unmodified _RLLKRRRREWF_ 0 0 0 REV__ENST00000495311.1_1_4:57844993-57845074:+|nuORF REV__ENST00000495311.1_1_4:57844993-57845074:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 808.5375366210938 2 808.492042 1614.96953 NaN NaN NaN NaN NaN NaN NaN 100.05 1 100.11 99.608 100.61 0.062241 0 0 0 1.0082 1 54200 54200 0 0 1 + 27554 16839 17818 17876 31076 31076 0.1866447870452248 RLLKRRRREWF 11 Unmodified _RLLKRRRREWF_ 0 0 0 REV__ENST00000495311.1_1_4:57844993-57845074:+|nuORF REV__ENST00000495311.1_1_4:57844993-57845074:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 808.49267578125 2 808.492042 1614.96953 NaN NaN NaN NaN NaN NaN NaN 78.985 1 79.646 79.146 80.146 0.66082 0 0 0 1.0082 1 36396 36396 0 0 1 + 27555 16839 17818 17876 31077 31077 0.1866447870452248 RLLLAELEKE 10 Unmodified _RLLLAELEKE_ 0 0 0 nc|ENSG00000168781|Q6PFW1-6|PPIP5K1;ENST00000488768.5_1_15:43865553-43876720:-|nuORF;nc|ENSG00000168781|Q6PFW1-5|PPIP5K1;nc|ENSG00000168781|Q6PFW1-7|PPIP5K1;nc|ENSG00000168781|Q6PFW1-4|PPIP5K1;nc|ENSG00000168781|Q6PFW1-3|PPIP5K1;nc|ENSG00000168781|Q6PFW1-2|PPIP5K1;nc|ENSG00000168781|Q6PFW1|PPIP5K1;ENSG00000168781|ENST00000420765|PPIP5K1 nc|ENSG00000168781|Q6PFW1-6|PPIP5K1 nc|ENSG00000168781|Q6PFW1-6|PPIP5K1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.24127197265625 3 405.243206 1212.70779 NaN NaN NaN NaN NaN NaN NaN 79.813 1 80.063 79.563 80.563 0.24947 0 0 0 0.99995 1 36750 36750 1.7423 0.14999 1 27556 4650 17819 17877 31078 31078 0.10994214774405009 RLLLCLRPL 9 Unmodified _RLLLCLRPL_ 0 0 0 REV__nc|ENSG00000181409|Q6ZMQ8-2|AATK REV__nc|ENSG00000181409|Q6ZMQ8-2|AATK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.8555908203125 2 548.854804 1095.69505 3.6811 0.0020204 -1.2692 -0.00069658 2.4119 0.0013238 548.853752354339 40.115 0.38058 40.382 40.228 40.609 0.26696 31 15 3 0 0 0 1.0755 1 18298 18298 2.0598 0 1 895180 + 27557 18064 17820 17878 31079 31079 0.1510352490117839 RLLLHHFI 8 Unmodified _RLLLHHFI_ 0 0 0 REV__ENST00000545737.5_1_12:28410092-28458713:+|nuORF REV__ENST00000545737.5_1_12:28410092-28458713:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.207763671875 3 350.218666 1047.63417 NaN NaN NaN NaN NaN NaN NaN 47.017 1 47.846 47.346 48.346 0.82915 0 0 0 0.99035 1 21418 21418 1.8442 0 1 + 27558 17197 17821 17879 31080 31080 0.11225755913255853 RLLLHLLLNLK 11 Unmodified _RLLLHLLLNLK_ 0 0 0 nc|ENSG00000186976|Q5THR3-5|EFCAB6;nc|ENSG00000186976|Q5THR3-2|EFCAB6;ENSG00000186976|ENST00000262726|EFCAB6 nc|ENSG00000186976|Q5THR3-5|EFCAB6 nc|ENSG00000186976|Q5THR3-5|EFCAB6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 673.4558715820312 2 673.455739 1344.89693 NaN NaN NaN NaN NaN NaN NaN 28.041 1 28.828 28.328 29.328 0.78627 0 0 0 1.0082 1 12620 12620 0 0 1 27559 5595 17822 17880 31081 31081 0.23827331858410616 RLLLKFIKIMK 11 Unmodified _RLLLKFIKIMK_ 0 0 0 nc|ENSG00000107263|Q13905-2|RAPGEF1;nc|ENSG00000107263|Q13905|RAPGEF1;nc|ENSG00000107263|Q13905-4|RAPGEF1;nc|ENSG00000107263|Q13905-3|RAPGEF1;ENSG00000107263|ENST00000683357|RAPGEF1 nc|ENSG00000107263|Q13905-2|RAPGEF1 nc|ENSG00000107263|Q13905-2|RAPGEF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 701.9700317382812 2 701.970168 1401.92578 NaN NaN NaN NaN NaN NaN NaN 108.51 1 108.83 108.33 109.33 0.31168 0 0 0 1.0082 1 50041 50041 0 0 1 27560 1594 17823 17881 31082 31082 0.24089733163168603 RLLLKFIKIMK 11 Unmodified _RLLLKFIKIMK_ 0 0 0 nc|ENSG00000107263|Q13905-2|RAPGEF1;nc|ENSG00000107263|Q13905|RAPGEF1;nc|ENSG00000107263|Q13905-4|RAPGEF1;nc|ENSG00000107263|Q13905-3|RAPGEF1;ENSG00000107263|ENST00000683357|RAPGEF1 nc|ENSG00000107263|Q13905-2|RAPGEF1 nc|ENSG00000107263|Q13905-2|RAPGEF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 701.9700927734375 2 701.970168 1401.92578 NaN NaN NaN NaN NaN NaN NaN 103.68 1 104.28 103.78 104.78 0.59821 0 0 0 1.0082 1 47956 47956 0 0 1 27561 1594 17823 17881 31083 31083 0.24089733163168603 RLLLLLLLLLL 11 Unmodified _RLLLLLLLLLL_ 0 0 0 nc|ENSG00000129214|P04278-4|SHBG;nc|ENSG00000129214|P04278-3|SHBG;nc|ENSG00000129214|P04278-5|SHBG;ENSG00000129214|ENST00000380450|SHBG;DPEP3|p.A194Vfs*2|1|0.35|ENSG00000141096|chr16:67978528-67978535|GTAGGAGG/-|frameshift_variant;ENSG00000141096|ENST00000268793|DPEP3 REV__ENST00000529734.5_1_11:46105847-46142581:-|nuORF;REV__ENST00000413911.1_1_2:191745560-191746172:-|nuORF;DPEP3|p.A194Vfs*2|1|0.35|ENSG00000141096|chr16:67978528-67978535|GTAGGAGG/-|frameshift_variant;REV__DPEP3|p.A194Vfs*2|1|0.35|ENSG00000141096|chr16:67978528-67978535|GTAGGAGG/-|frameshift_variant REV__ENST00000413911.1_1_2:191745560-191746172:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 653.4834594726562 2 653.483434 1304.95232 NaN NaN NaN NaN NaN NaN NaN 88.488 1 88.739 88.239 89.239 0.25118 0 0 0 1.0082 1 40715 40715 0 0 1 27562 15332;16116;276;10137 17824 17882 31084 31084 0.31203745326183707 RLLLLLLRHR 10 Unmodified _RLLLLLLRHR_ 0 0 0 REV__nc|ENSG00000154721|P57087-2|JAM2 REV__nc|ENSG00000154721|P57087-2|JAM2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 651.4521484375 2 651.945873 1301.87719 3.7147 0.0024218 0.60377 0.00039363 4.3184 0.0028154 652.4481253085738 31.297 0.040926 32.085 32.066 32.106 0.78879 4 2 2 0 0 0 0.12676 1 14141 14141 0 0 1 172860 + 27563 12718 17825 17883 31085 31085 0.2383300063831939 RLLLPLLLKLL 11 Unmodified _RLLLPLLLKLL_ 0 0 0 REV__nc|ENSG00000184634|Q93074-3|MED12 REV__nc|ENSG00000184634|Q93074-3|MED12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 652.9735717773438 2 652.973234 1303.93191 NaN NaN NaN NaN NaN NaN NaN 28.532 1 28.792 28.292 29.292 0.2602 0 0 0 1.0082 1 12978 12978 0 0 1 + 27564 13983 17826 17884 31086 31086 0.2921057466635375 RLLLPRLLR 9 Unmodified _RLLLPRLLR_ 0 0 0 nc|ENSG00000164818|Q86Y56-2|DNAAF5;ENSG00000164818|ENST00000297440|DNAAF5 nc|ENSG00000164818|Q86Y56-2|DNAAF5 nc|ENSG00000164818|Q86Y56-2|DNAAF5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.57275390625 2 575.400767 1148.78698 NaN NaN NaN NaN NaN NaN NaN 94.665 1 94.665 94.165 95.165 0 0 0 0 0.91452 1 50837 50837 0 0 1 27565 4346 17827 17885 31087 31087 0.21853951309867625 RLLLQLVLILI 11 Unmodified _RLLLQLVLILI_ 0 0 0 REV__ENST00000367869.1_3_6:134274441-134290035:+|nuORF REV__ENST00000367869.1_3_6:134274441-134290035:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 653.6976318359375 2 653.962866 1305.91118 NaN NaN NaN NaN NaN NaN NaN 83.791 1 83.791 83.291 84.291 0 0 0 0 1.0082 1 42275 42275 0 0 1 + 27566 15673 17828 17886 31088 31088 0.2704598428670124 RLLLRKKKMRR 11 Unmodified _RLLLRKKKMRR_ 0 0 0 REV__ENSG00000123407|ENST00000243103|HOXC12 REV__ENSG00000123407|ENST00000243103|HOXC12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.1849670410156 3 500.004801 1496.99257 NaN NaN NaN NaN NaN NaN NaN 73.547 1 74.245 73.745 74.745 0.69881 0 0 0 1.0082 1 35479 35479 0 0 1 + 27567 11616 17829 17887 31089 31089 0.2639578149762656 RLLLRKKKMRR 11 Unmodified _RLLLRKKKMRR_ 0 0 0 REV__ENSG00000123407|ENST00000243103|HOXC12 REV__ENSG00000123407|ENST00000243103|HOXC12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 749.5030517578125 2 749.503564 1496.99257 NaN NaN NaN NaN NaN NaN NaN 75.751 1 76.414 75.914 76.914 0.6635 0 0 0 1.0082 1 36689 36689 0 0 1 + 27568 11616 17829 17887 31090 31090 0.2639578149762656 RLLLRKKKMRR 11 Unmodified _RLLLRKKKMRR_ 0 0 0 REV__ENSG00000123407|ENST00000243103|HOXC12 REV__ENSG00000123407|ENST00000243103|HOXC12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 749.502685546875 2 749.503564 1496.99257 NaN NaN NaN NaN NaN NaN NaN 77.239 1 77.8 77.3 78.3 0.56091 0 0 0 1.0082 1 37453 37453 0 0 1 + 27569 11616 17829 17887 31091 31091 0.2639578149762656 RLLLRLHRRRR 11 Unmodified _RLLLRLHRRRR_ 0 0 0 REV__ENST00000487330.1_1_9:74975472-74979818:-|nuORF REV__ENST00000487330.1_1_9:74975472-74979818:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 773.011962890625 2 773.013476 1544.0124 NaN NaN NaN NaN NaN NaN NaN 49.765 1 50.422 49.922 50.922 0.65735 0 0 0 1.0082 1 22763 22763 0 0 1 + 27570 15830 17830 17888 31092 31092 0.262152935525819 RLLLRRLLLPP 11 Unmodified _RLLLRRLLLPP_ 0 0 0 ENST00000497343.5_1_3:160473400-160474084:+|nuORF ENST00000497343.5_1_3:160473400-160474084:+|nuORF ENST00000497343.5_1_3:160473400-160474084:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 453.9246826171875 3 453.98188 1358.92381 NaN NaN NaN NaN NaN NaN NaN 61.307 1 62.047 61.547 62.547 0.7396 0 0 0 1.0082 1 28408 28408 0 0 1 27571 8451 17831 17889 31093 31093 0.25870440469589084 RLLPLRRLF 9 Unmodified _RLLPLRRLF_ 0 0 0 nc|ENSG00000167889|Q3V5L5-2|MGAT5B nc|ENSG00000167889|Q3V5L5-2|MGAT5B nc|ENSG00000167889|Q3V5L5-2|MGAT5B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 591.95703125 2 592.392942 1182.77133 NaN NaN NaN NaN NaN NaN NaN 79.851 1 80.512 80.012 81.012 0.66082 0 0 0 0.91206 1 36794 36794 0.6015 0 1 27572 9741 17832 17890 31094 31094 0.18725664792827956 RLLRLRYRLFR 11 Unmodified _RLLRLRYRLFR_ 0 0 0 REV__ENST00000554717.1_1_14:64108067-64108556:-|nuORF REV__ENST00000554717.1_1_14:64108067-64108556:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 781.4985961914062 2 781.499336 1560.98412 NaN NaN NaN NaN NaN NaN NaN 75.275 1 75.938 75.438 76.438 0.6635 0 0 0 1.0082 1 36443 36443 0 0 1 + 27573 17312 17833 17891 31095 31095 0.22606550852651708 RLLRSWWRRDR 11 Unmodified _RLLRSWWRRDR_ 0 0 0 ENST00000216479.7_1_14:77924477-77924549:+|nuORF ENST00000216479.7_1_14:77924477-77924549:+|nuORF ENST00000216479.7_1_14:77924477-77924549:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.301025390625 3 533.974558 1598.90185 NaN NaN NaN NaN NaN NaN NaN 69.868 1 69.868 69.368 70.368 0 0 0 0 1.0082 1 33822 33822 0 0 1 27574 6408 17834 17892 31096 31096 0.12635028773706836 RLLRWWRRQLL 11 Unmodified _RLLRWWRRQLL_ 0 0 0 ENST00000393313.5_1_7:127032353-127032743:-|nuORF ENST00000393313.5_1_7:127032353-127032743:-|nuORF ENST00000393313.5_1_7:127032353-127032743:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 798.4908447265625 2 798.491511 1594.96847 NaN NaN NaN NaN NaN NaN NaN 83.203 1 83.203 82.703 83.703 0 0 0 0 1.0082 1 41859 41859 0 0 1 27575 7530 17835 17893 31097 31097 0.1947826433561204 RLLTTLMLIP 10 Unmodified _RLLTTLMLIP_ 0 0 0 REV__ENST00000489656.5_1_10:70917876-70917945:+|nuORF REV__ENST00000489656.5_1_10:70917876-70917945:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.8668212890625 2 585.867577 1169.7206 NaN NaN NaN NaN NaN NaN NaN 86.013 1 86.683 86.183 87.183 0.67061 0 0 0 1.0003 1 39609 39609 1.4819 0 1 + 27576 16795 17836 17894 31098 31098 0.1425295463295697 RLLYKRKI 8 Unmodified _RLLYKRKI_ 0 0 0 ENST00000539644.5_1_12:124496164-124496395:+|nuORF ENST00000539644.5_1_12:124496164-124496395:+|nuORF ENST00000539644.5_1_12:124496164-124496395:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.4566650390625 2 545.366393 1088.71823 NaN NaN NaN NaN NaN NaN NaN 91.755 1 91.755 91.255 92.255 0 0 0 0 0.99035 1 48569 48569 2.5775 0 1 27577 8794 17837 17895 31099 31099 0.1774228701017364 RLMCLLSI 8 Unmodified _RLMCLLSI_ 0 0 0 nc|ENSG00000184056|Q9H267-2|VPS33B;ENSG00000184056|ENST00000333371|VPS33B nc|ENSG00000184056|Q9H267-2|VPS33B nc|ENSG00000184056|Q9H267-2|VPS33B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 316.8511047363281 3 316.850486 947.529629 2.0916 0.00066273 -0.4231 -0.00013406 1.6685 0.00052867 316.85032025352297 16.741 0.94591 17.046 16.49 17.435 0.30438 199 92 3 0 0 0 0.68959 1 7604 7604 6.7232 0 1 203120 27578 5419 17838 17896 31100 31100 0.053765500500276175 RLMCLLSI 8 Unmodified _RLMCLLSI_ 0 0 0 nc|ENSG00000184056|Q9H267-2|VPS33B;ENSG00000184056|ENST00000333371|VPS33B nc|ENSG00000184056|Q9H267-2|VPS33B nc|ENSG00000184056|Q9H267-2|VPS33B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 316.850486 947.529629 2.1673 0.0006867 0.22288 7.0618E-05 2.3902 0.00075732 316.850483459194 16.567 1.0296 17.224 16.516 17.545 0.65798 0.089346 0.00033291 NaN 6.7232 193 117 2 NaN NaN NaN NaN 0 NaN NaN 0 201890 27579 5419 17838 17896 0.053765500500276175 RLPAKRRH 8 Unmodified _RLPAKRRH_ 0 0 0 ENST00000369303.8_1_6:94120223-94120352:-|nuORF ENST00000369303.8_1_6:94120223-94120352:-|nuORF ENST00000369303.8_1_6:94120223-94120352:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.3262939453125 2 517.328134 1032.64171 NaN NaN NaN NaN NaN NaN NaN 101.49 1 101.49 100.99 101.99 0 0 0 0 0.99035 1 56062 56062 2.5775 0 1 27580 7290 17839 17897 31101 31101 0.1266990823355627 RLPEEWSQW 9 Unmodified _RLPEEWSQW_ 0 0 0 ENSG00000106211|ENST00000248553|HSPB1 ENSG00000106211|ENST00000248553|HSPB1 ENSG00000106211|ENST00000248553|HSPB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 615.8004760742188 2 615.798737 1229.58292 3.4896 0.0021489 -0.033591 -2.0685E-05 3.4561 0.0021282 615.7990258263158 62.67 0.22641 62.92 62.905 63.132 0.24965 34 20 2 0 0 0 0.023321 2 28712 28712;28769 63.961 25.987 1 1634000 27581 1556 17840 17898 31102;31103 31102 -0.022686576421165228 RLPEEWSQW 9 Unmodified _RLPEEWSQW_ 0 0 0 ENSG00000106211|ENST00000248553|HSPB1 ENSG00000106211|ENST00000248553|HSPB1 ENSG00000106211|ENST00000248553|HSPB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 615.8005981445312 2 615.798737 1229.58292 3.4164 0.0021038 -0.43193 -0.00026598 2.9845 0.0018378 615.7985705384282 62.084 0.23943 62.744 62.714 62.953 0.66008 38 23 2 0 0 0 0.013715 1 28468 28468 76.825 49.196 1 2695000 27582 1556 17840 17898 31104 31104 -0.022686576421165228 RLPEPVSPL 9 Unmodified _RLPEPVSPL_ 0 0 0 REV__nc|ENSG00000198431|Q16881-6|TXNRD1 REV__nc|ENSG00000198431|Q16881-6|TXNRD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 336.5351867675781 3 336.53432 1006.58113 2.4353 0.00081956 0.042149 1.4185E-05 2.4774 0.00083375 336.5342854215218 13.021 0.15931 13.021 12.944 13.103 0 21 8 3 0 0 0 0.3144 1 5672 5672 10.8 0 1 1540300 + 27583 18103 17841 17899 31105 31105 0.0781033333993264 RLPERLVL 8 Unmodified _RLPERLVL_ 0 0 0 ENST00000440408.5_1_Y:14774428-14774548:+|nuORF ENST00000440408.5_1_Y:14774428-14774548:+|nuORF ENST00000440408.5_1_Y:14774428-14774548:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.5511779785156 3 332.550193 994.62875 2.4467 0.00081366 -0.12481 -4.1506E-05 2.3219 0.00077215 332.55014179116245 19.593 0.20405 20.252 20.165 20.369 0.65829 23 15 2 0 0 0 0.68959 1 8897 8897 6.7232 0 1 209210 27584 7932 17842 17900 31106 31106 0.1312203233078435 RLPKLKHV 8 Unmodified _RLPKLKHV_ 0 0 0 nc|ENSG00000114631|Q9NZ53-2|PODXL2;ENSG00000114631|ENST00000342480|PODXL2 nc|ENSG00000114631|Q9NZ53-2|PODXL2 nc|ENSG00000114631|Q9NZ53-2|PODXL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.8344421386719 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 37.916 1 37.916 37.416 38.416 0 0 0 0 0.99035 1 17206 17206 0.69038 0 1 27585 1915 17843 17901 31107 31107 0.15458042430316254 RLPKLKHV 8 Unmodified _RLPKLKHV_ 0 0 0 nc|ENSG00000114631|Q9NZ53-2|PODXL2;ENSG00000114631|ENST00000342480|PODXL2 nc|ENSG00000114631|Q9NZ53-2|PODXL2 nc|ENSG00000114631|Q9NZ53-2|PODXL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.83538818359375 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 45.807 1 45.807 45.307 46.307 0 0 0 0 0.99035 1 20955 20955 0.69038 0 1 27586 1915 17843 17901 31108 31108 0.15458042430316254 RLPKLKHV 8 Unmodified _RLPKLKHV_ 0 0 0 nc|ENSG00000114631|Q9NZ53-2|PODXL2;ENSG00000114631|ENST00000342480|PODXL2 nc|ENSG00000114631|Q9NZ53-2|PODXL2 nc|ENSG00000114631|Q9NZ53-2|PODXL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.7490539550781 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 74.382 1 74.382 73.882 74.882 0 0 0 0 0.99035 1 36329 36329 4.756 2.1785 1 27587 1915 17843 17901 31109 31109 0.15458042430316254 RLPKLKHV 8 Unmodified _RLPKLKHV_ 0 0 0 nc|ENSG00000114631|Q9NZ53-2|PODXL2;ENSG00000114631|ENST00000342480|PODXL2 nc|ENSG00000114631|Q9NZ53-2|PODXL2 nc|ENSG00000114631|Q9NZ53-2|PODXL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.8684387207031 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 64.727 1 65.442 64.942 65.942 0.71521 0 0 0 0.99035 1 30508 30508 4.756 2.1785 1 27588 1915 17843 17901 31110 31110 0.15458042430316254 RLPKLKHV 8 Unmodified _RLPKLKHV_ 0 0 0 nc|ENSG00000114631|Q9NZ53-2|PODXL2;ENSG00000114631|ENST00000342480|PODXL2 nc|ENSG00000114631|Q9NZ53-2|PODXL2 nc|ENSG00000114631|Q9NZ53-2|PODXL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.8365783691406 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 77.796 1 78.357 77.857 78.857 0.56091 0 0 0 0.99035 1 37769 37769 4.756 2.1785 1 27589 1915 17843 17901 31111 31111 0.15458042430316254 RLPLIRPC 8 Unmodified _RLPLIRPC_ 0 0 0 REV__ENST00000474644.1_1_17:48276877-48278874:-|nuORF REV__ENST00000474644.1_1_17:48276877-48278874:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 323.202880859375 3 323.200507 966.579691 NaN NaN NaN NaN NaN NaN NaN 28.255 1 28.255 27.755 28.755 0 0 0 0 0.99035 1 12737 12737 1.4819 0 1 + 27590 16639 17844 17902 31112 31112 0.09506420770185287 RLPLRLFLI 9 Unmodified _RLPLRLFLI_ 0 0 0 ENSG00000099194|ENST00000370355|SCD ENSG00000099194|ENST00000370355|SCD ENSG00000099194|ENST00000370355|SCD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.8853759765625 2 570.884419 1139.75428 2.937 0.0016767 0.045441 2.5941E-05 2.9825 0.0017027 570.8843077827952 78.895 0.12395 78.895 78.861 78.985 0 16 10 2 0 0 0 0.056465 1 38906 38906 44.407 0 1 4404400 27591 1135 17845 17903 31113 31113 0.1899974418702186 RLPLRLFLI 9 Unmodified _RLPLRLFLI_ 0 0 0 ENSG00000099194|ENST00000370355|SCD ENSG00000099194|ENST00000370355|SCD ENSG00000099194|ENST00000370355|SCD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.8851928710938 2 570.884419 1139.75428 2.9815 0.0017021 -0.69197 -0.00039503 2.2896 0.0013071 570.8837326938085 77.932 0.27656 78.493 78.4 78.677 0.56091 52 21 3 0 0 0 0.062556 1 37853 37853 42.095 13.608 1 3093800 27592 1135 17845 17903 31114 31114 0.1899974418702186 RLPLRLFLI 9 Unmodified _RLPLRLFLI_ 0 0 0 ENSG00000099194|ENST00000370355|SCD ENSG00000099194|ENST00000370355|SCD ENSG00000099194|ENST00000370355|SCD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 380.9259338378906 3 380.925371 1139.75428 1.8794 0.00071592 0.10735 4.0891E-05 1.9868 0.00075682 380.92534432920826 77.95 0.2738 78.51 78.38 78.654 0.56091 45 21 3 0 0 0 0.071101 1 37865 37865 29.841 14.592 1 1849700 27593 1135 17845 17903 31115 31115 0.1899974418702186 RLPLRLFLI 9 Unmodified _RLPLRLFLI_ 0 0 0 ENSG00000099194|ENST00000370355|SCD ENSG00000099194|ENST00000370355|SCD ENSG00000099194|ENST00000370355|SCD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 570.8865356445312 2 570.884419 1139.75428 3.2933 0.0018801 0.80402 0.000459 4.0974 0.0023391 570.8845636329206 78.525 0.31419 78.778 78.625 78.939 0.25335 36 16 3 0 0 0 0.086747 2 36203 36145;36203 36.044 10.106 1 945680 27594 1135 17845 17903 31116;31117 31117 0.1899974418702186 RLPLRLFLI 9 Unmodified _RLPLRLFLI_ 0 0 0 ENSG00000099194|ENST00000370355|SCD ENSG00000099194|ENST00000370355|SCD ENSG00000099194|ENST00000370355|SCD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.8857421875 2 570.884419 1139.75428 3.5184 0.0020086 0.36046 0.00020578 3.8789 0.0022144 570.8844723579715 78.025 0.32556 78.687 78.498 78.824 0.66198 29 18 2 0 0 0 0.20384 1 35972 35972 23.148 6.2061 1 1321500 27595 1135 17845 17903 31118 31118 0.1899974418702186 RLPLRLFLI 9 Unmodified _RLPLRLFLI_ 0 0 0 ENSG00000099194|ENST00000370355|SCD ENSG00000099194|ENST00000370355|SCD ENSG00000099194|ENST00000370355|SCD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.926025390625 3 380.925371 1139.75428 2.6178 0.0009972 0.080462 3.065E-05 2.6983 0.0010279 380.9253417159707 78.025 0.25571 78.687 78.548 78.804 0.66198 24 14 2 0 0 0 0.12301 1 35974 35974 20.415 8.9198 1 537320 27596 1135 17845 17903 31119 31119 0.1899974418702186 RLPLRLFLI 9 Unmodified _RLPLRLFLI_ 0 0 0 ENSG00000099194|ENST00000370355|SCD ENSG00000099194|ENST00000370355|SCD ENSG00000099194|ENST00000370355|SCD MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 380.925371 1139.75428 2.6447 0.0010074 0.13371 5.0935E-05 2.7784 0.0010584 380.9253794513099 78.503 0.31052 78.756 78.638 78.949 0.25334 0.10508 2.9849E-05 NaN 29.841 26 16 2 NaN NaN NaN NaN 0 NaN NaN 0 393010 27597 1135 17845 17903 0.1899974418702186 RLPPRRLRIVL 11 Unmodified _RLPPRRLRIVL_ 0 0 0 REV__ENST00000524653.1_1_1:179853135-179873887:+|nuORF REV__ENST00000524653.1_1_1:179853135-179873887:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.1785583496094 3 463.649012 1387.92521 NaN NaN NaN NaN NaN NaN NaN 85.104 1 85.133 84.633 85.633 0.028603 0 0 0 1.0082 1 42564 42564 0.094841 0.011491 1 + 27598 12362 17846 17904 31120 31120 0.24676074558328764 RLPRAPVV 8 Unmodified _RLPRAPVV_ 0 0 0 ENST00000493216.1_1_22:20939304-20939799:+|nuORF ENST00000493216.1_1_22:20939304-20939799:+|nuORF ENST00000493216.1_1_22:20939304-20939799:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 303.1994934082031 3 303.199383 906.57632 NaN NaN NaN NaN NaN NaN NaN 43.832 1 43.832 43.332 44.332 0 0 0 0 0.99035 1 19995 19995 0.45834 0 1 27599 8415 17847 17905 31121 31121 0.11929493987838669 RLPRCIAV 8 Unmodified _RLPRCIAV_ 0 0 0 REV__ENSG00000184155|ENST00000334857|OR10J5 REV__ENSG00000184155|ENST00000334857|OR10J5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.2826232910156 2 464.281472 926.548391 2.7533 0.0012783 -1.3298 -0.00061741 1.4235 0.00066088 464.28085039846644 54.784 0.20415 55.451 55.354 55.558 0.6665 19 12 2 0 0 0 0.7471 1 25050 25050 0.69038 0 1 1282400 + 27600 13839 17848 17906 31122 31122 0.08217847736091244 RLPSSWALF 9 Unmodified _RLPSSWALF_ 0 0 0 ENSG00000129636|ENST00000320640|ITFG1 ENSG00000129636|ENST00000320640|ITFG1 ENSG00000129636|ENST00000320640|ITFG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.7994995117188 2 538.798009 1075.58147 2.5736 0.0013866 0.11986 6.4582E-05 2.6935 0.0014512 538.7977269297734 75.606 0.48034 76.27 76.044 76.524 0.66349 62 38 2 0 0 0 0.061685 2 36642 36561;36642 45.7 15.063 1 1619400 27601 2558 17849 17907 31123;31124 31124 0.04669753059783943 RLPTLKQRVP 10 Unmodified _RLPTLKQRVP_ 0 0 0 REV__ENST00000454741.5_1_22:28396099-28396309:+|nuORF REV__ENST00000454741.5_1_22:28396099-28396309:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 403.258056640625 3 403.259302 1206.75608 NaN NaN NaN NaN NaN NaN NaN 47.912 1 47.912 47.412 48.412 0 0 0 0 1.0013 1 21942 21942 0.62683 0.12087 1 + 27602 16436 17850 17908 31125 31125 0.1609675320498809 RLPTPEQI 8 Unmodified _RLPTPEQI_ 0 0 0 nc|ENSG00000174574|Q9H9L7-2|AKIRIN1;ENSG00000174574|ENST00000432648|AKIRIN1 nc|ENSG00000174574|Q9H9L7-2|AKIRIN1 nc|ENSG00000174574|Q9H9L7-2|AKIRIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.27569580078125 2 477.274367 952.53418 3.0876 0.0014737 0.4056 0.00019358 3.4932 0.0016672 477.27473001948874 35.415 0.30975 36.207 36.033 36.342 0.79131 29 18 2 0 0 0 0.19187 1 16054 16054 43.858 5.8843 1 335650 27603 4986 17851 17909 31126 31126 0.056014737887949195 RLPTPEQI 8 Unmodified _RLPTPEQI_ 0 0 0 nc|ENSG00000174574|Q9H9L7-2|AKIRIN1;ENSG00000174574|ENST00000432648|AKIRIN1 nc|ENSG00000174574|Q9H9L7-2|AKIRIN1 nc|ENSG00000174574|Q9H9L7-2|AKIRIN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 477.274367 952.53418 2.9391 0.0014028 0.52879 0.00025238 3.4679 0.0016551 477.2744506386594 36.26 0.46826 36.26 36.019 36.487 0 -0.039774 9.9423E-05 NaN 43.858 37 22 2 NaN NaN NaN NaN 0 NaN NaN 0 515460 27604 4986 17851 17909 0.056014737887949195 RLPTPEQI 8 Unmodified _RLPTPEQI_ 0 0 0 nc|ENSG00000174574|Q9H9L7-2|AKIRIN1;ENSG00000174574|ENST00000432648|AKIRIN1 nc|ENSG00000174574|Q9H9L7-2|AKIRIN1 nc|ENSG00000174574|Q9H9L7-2|AKIRIN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 477.274367 952.53418 3.0165 0.0014397 0.25868 0.00012346 3.2752 0.0015632 477.2742437863575 36.175 0.34308 36.433 36.205 36.548 0.25768 0.13285 -0.00015841 NaN 43.858 27 16 2 NaN NaN NaN NaN 0 NaN NaN 0 242870 27605 4986 17851 17909 0.056014737887949195 RLPVSIPLF 9 Unmodified _RLPVSIPLF_ 0 0 0 nc|ENSG00000131188|Q8TB68-2|PRR7;ENSG00000131188|ENST00000323249|PRR7 nc|ENSG00000131188|Q8TB68-2|PRR7 nc|ENSG00000131188|Q8TB68-2|PRR7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.328125 2 521.326402 1040.63825 NaN NaN NaN NaN NaN NaN NaN 84.383 1 85.045 84.545 85.545 0.66219 0 0 0 0.49214 1 38868 38868 19.257 6.7254 1 27606 2644 17852 17910 31127 31127 0.11955800616328816 RLQDEPCSGL 10 Unmodified _RLQDEPCSGL_ 0 0 0 REV__ENSG00000175121|ENST00000372789|WFDC5 REV__ENSG00000175121|ENST00000372789|WFDC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.27001953125 2 559.268955 1116.52336 3.4026 0.0019029 -1.691 -0.00094575 1.7115 0.0009572 559.2678021380932 68.226 0.31958 68.885 68.723 69.043 0.65924 44 20 3 0 0 0 0.70333 1 31327 31327 13.042 0.51092 1 1279500 + 27607 13661 17853 17911 31128 31128 -0.030242966477771915 RLQESCDSD 9 Unmodified _RLQESCDSD_ 0 0 0 nc|ENSG00000130653|Q6ZV29-4|PNPLA7;nc|ENSG00000130653|Q6ZV29-3|PNPLA7;nc|ENSG00000130653|Q6ZV29|PNPLA7;ENSG00000130653|ENST00000406427|PNPLA7;nc|ENSG00000130653|Q6ZV29-2|PNPLA7;PNPLA7|p.G712Wfs*54|1|0.46|ENSG00000130653|chr9:137484725-137484726|-/A|frameshift_variant nc|ENSG00000130653|Q6ZV29-4|PNPLA7 nc|ENSG00000130653|Q6ZV29-4|PNPLA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.7193603515625 2 526.719295 1051.42404 NaN NaN NaN NaN NaN NaN NaN 108.97 1 109.01 108.51 109.51 0.04248 0 0 0 0.90699 1 58805 58805 1.8442 1.0506 1 27608 9638 17854 17912 31129 31129 -0.09961739332538855 RLQIGKIEKE 10 Unmodified _RLQIGKIEKE_ 0 0 0 REV__L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|158|3|sense REV__L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|158|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.2459716796875 3 405.24695 1212.71902 NaN NaN NaN NaN NaN NaN NaN 78.382 1 79.044 78.544 79.544 0.66198 0 0 0 0.99807 1 36120 36120 3.3196 0.82116 1 + 27609 17789 17855 17913 31130 31130 0.12117036868562536 RLQKRRWFRRE 11 Unmodified _RLQKRRWFRRE_ 0 0 0 REV__nc|ENSG00000214022|Q9BWE0|REPIN1 REV__nc|ENSG00000214022|Q9BWE0|REPIN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 815.9793090820312 2 815.979299 1629.94404 NaN NaN NaN NaN NaN NaN NaN 43.361 1 44.01 43.51 44.51 0.64872 0 0 0 1.0082 1 19869 19869 0 0 1 + 27610 14506 17856 17914 31131 31131 0.15427004182083692 RLQQLRLRRWR 11 Unmodified _RLQQLRLRRWR_ 0 0 0 REV__ENSG00000165355|ENST00000298097|FBXO33 REV__ENSG00000165355|ENST00000298097|FBXO33 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.9963989257812 3 527.662203 1579.96478 1.9203 0.0010133 -1.5732 -0.0008301 0.34713 0.00018317 527.9955064379785 106.28 0.14812 106.33 106.25 106.4 0.04837 17 6 3 0 0 0 0.91489 1 57495 57495 0 0 1 2742300 + 27611 13154 17857 17915 31132 31132 0.19799594561732192 RLQQLRLRRWR 11 Unmodified _RLQQLRLRRWR_ 0 0 0 REV__ENSG00000165355|ENST00000298097|FBXO33 REV__ENSG00000165355|ENST00000298097|FBXO33 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 790.9882202148438 2 790.989666 1579.96478 NaN NaN NaN NaN NaN NaN NaN 104.55 1 104.6 104.1 105.1 0.052994 0 0 0 1.0082 1 56595 56595 0 0 1 + 27612 13154 17857 17915 31133 31133 0.19799594561732192 RLQRELEV 8 Unmodified _RLQRELEV_ 0 0 0 REV__CEP290|p.K1324Nfs*2|1|0.19|ENSG00000198707|chr12:88089089-88089089|T/-|frameshift_variant REV__CEP290|p.K1324Nfs*2|1|0.19|ENSG00000198707|chr12:88089089-88089089|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.20550537109375 3 348.204974 1041.59309 2.8433 0.00099004 -0.17516 -6.0992E-05 2.6681 0.00092905 348.2048245772395 30.288 0.24093 30.546 30.461 30.702 0.25804 20 12 2 0 0 0 0.21011 2 13779 13779;13836 34.402 6.7729 1 547800 + 27613 10001 17858 17916 31134;31135 31134 0.073959500831279 RLQRHRLK 8 Unmodified _RLQRHRLK_ 0 0 0 REV__ENST00000262844.9_1_X:109441588-109441660:-|nuORF REV__ENST00000262844.9_1_X:109441588-109441660:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.8541870117188 2 553.854516 1105.69448 NaN NaN NaN NaN NaN NaN NaN 68.664 1 69.323 68.823 69.823 0.65924 0 0 0 0.99035 1 31475 31475 0.69038 0 1 + 27614 14991 17859 17917 31136 31136 0.14585866296329186 RLQRMPYHYY 10 Unmodified _RLQRMPYHYY_ 0 0 0 nc|ENSG00000257524|Q969X2-2|ST6GALNAC6;ENSG00000160408|ENST00000373146|ST6GALNAC6 nc|ENSG00000257524|Q969X2-2|ST6GALNAC6 nc|ENSG00000257524|Q969X2-2|ST6GALNAC6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 713.85693359375 2 713.856064 1425.69757 NaN NaN NaN NaN NaN NaN NaN 24.034 1 24.77 24.27 25.27 0.73623 0 0 0 1.0015 1 10761 10761 0.40072 0.050084 1 27615 4058 17860 17918 31137 31137 0.001753285682070782 RLQRQQKYPQ 10 Unmodified _RLQRQQKYPQ_ 0 0 0 ENST00000438548.2_1_6:133318790-133319099:-|nuORF ENST00000438548.2_1_6:133318790-133319099:-|nuORF ENST00000438548.2_1_6:133318790-133319099:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 672.87890625 2 672.878385 1343.74222 NaN NaN NaN NaN NaN NaN NaN 76.488 1 77.152 76.652 77.652 0.66387 0 0 0 1.0003 1 35236 35236 1.4819 0 1 27616 7919 17861 17919 31138 31138 0.08409475705889236 RLQRRQLWWR 10 Unmodified _RLQRRQLWWR_ 0 0 0 REV__ENST00000262919.9_1_20:3451704-3451788:+|nuORF REV__ENST00000262919.9_1_20:3451704-3451788:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.9632568359375 3 499.960249 1496.85892 4.0592 0.0020295 1.6441 0.00082196 5.7033 0.0028514 499.961172536905 106.03 0.14253 106.35 106.27 106.41 0.31628 17 5 4 0 0 0 0.94364 1 48946 48946 0.15932 0.01943 1 1352400 + 27617 14993 17862 17920 31139 31139 0.13036258716283555 RLQYLREKKLT 11 Unmodified _RLQYLREKKLT_ 0 0 0 REV__ENST00000371873.9_1_1:47834144-47834267:+|nuORF REV__ENST00000371873.9_1_1:47834144-47834267:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 724.350830078125 2 724.440818 1446.86708 NaN NaN NaN NaN NaN NaN NaN 80.61 1 80.61 80.11 81.11 0 0 0 0 1.0072 1 40054 40054 1.3295 0 1 + 27618 15742 17863 17921 31140 31140 0.16152348122386684 RLREQRQRRHY 11 Unmodified _RLREQRQRRHY_ 0 0 0 REV__nc|ENSG00000019144|Q86UU1-3|PHLDB1 REV__nc|ENSG00000019144|Q86UU1-3|PHLDB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 799.44580078125 2 799.448363 1596.88217 NaN NaN NaN NaN NaN NaN NaN 72.191 1 72.191 71.691 72.691 0 0 0 0 1.0079 1 35106 35106 0.30703 0 1 + 27619 10261 17864 17922 31141 31141 0.10760652762951395 RLRFLKLKR 9 Unmodified _RLRFLKLKR_ 0 0 0 ENST00000590311.5_1_17:67101582-67103939:-|nuORF;ENST00000589803.5_1_17:67102167-67114054:-|nuORF;ENSG00000154262|ENST00000284425|ABCA6 ENST00000590311.5_1_17:67101582-67103939:-|nuORF ENST00000590311.5_1_17:67101582-67103939:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 615.4168090820312 2 615.419491 1228.82443 NaN NaN NaN NaN NaN NaN NaN 62.567 1 62.817 62.317 63.317 0.24965 0 0 0 0.91238 1 28647 28647 0.52476 0 1 27620 3814 17865 17923 31142 31142 0.21917042575455525 RLRFNVKVI 9 Unmodified _RLRFNVKVI_ 0 0 0 ENSG00000105556|ENST00000264819|MIER2 ENSG00000105556|ENST00000264819|MIER2 ENSG00000105556|ENST00000264819|MIER2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 572.8710327148438 2 572.8693 1143.72405 3.6712 0.0021031 -0.47778 -0.00027371 3.1934 0.0018294 572.8693097588996 59.932 0.2849 60.597 60.344 60.628 0.66503 16 13 2 0 0 0 1.1154 1 27425 27425 2.0598 0 1 449370 27621 1507 17866 17924 31143 31143 0.15793385521828895 RLRGAVRLEKW 11 Unmodified _RLRGAVRLEKW_ 0 0 0 REV__ENSG00000198569|ENST00000673835|SLC34A3 REV__ENSG00000198569|ENST00000673835|SLC34A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 461.949462890625 3 461.949239 1382.82589 3.0709 0.0014186 -0.89023 -0.00041124 2.1806 0.0010073 461.94876689037926 100.92 0.077881 101.51 101.45 101.53 0.59717 8 2 4 0 0 0 0.91359 1 46726 46726 0.40827 0.24894 1 8639500 + 27622 14341 17867 17925 31144 31144 0.14978631873577797 RLRGAVRLEKW 11 Unmodified _RLRGAVRLEKW_ 0 0 0 REV__ENSG00000198569|ENST00000673835|SLC34A3 REV__ENSG00000198569|ENST00000673835|SLC34A3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 461.949239 1382.82589 3.0709 0.0014186 -0.89023 -0.00041124 2.1806 0.0010073 461.94876689037926 100.92 0.077881 101.51 101.45 101.53 0.59717 0.1247 0.00063978 NaN 0.40827 8 2 4 NaN NaN NaN NaN 0 NaN NaN 0 8639500 + 27623 14341 17867 17925 0.14978631873577797 RLRGHRRRG 9 Unmodified _RLRGHRRRG_ 0 0 0 ENST00000553142.5_1_12:58021477-58021885:-|nuORF ENST00000553142.5_1_12:58021477-58021885:-|nuORF ENST00000553142.5_1_12:58021477-58021885:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.3582763671875 2 582.358288 1162.70202 NaN NaN NaN NaN NaN NaN NaN 8.1163 1 8.4422 7.9422 8.9422 0.32587 0 0 0 0.91452 1 3649 3649 0 0 1 27624 8895 17868 17926 31145 31145 0.1271801861662425 RLRKAALA 8 Unmodified _RLRKAALA_ 0 0 0 nc|ENSG00000138614|Q96SY0-4|INTS14;nc|ENSG00000138614|Q96SY0-3|INTS14;ENSG00000138614|ENST00000313182|INTS14 nc|ENSG00000138614|Q96SY0-4|INTS14 nc|ENSG00000138614|Q96SY0-4|INTS14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 449.8021545410156 2 449.800886 897.587219 3.6662 0.0016491 -0.55532 -0.00024979 3.1109 0.0013993 449.8005839188837 102.37 0.26875 102.69 102.6 102.87 0.31736 17 9 2 0 0 0 0.7471 2 47353 47353;47408 0.79363 0 1 203790 27625 3100 17869 17927 31146;31147 31146 0.13432896362110114 RLRKAALA 8 Unmodified _RLRKAALA_ 0 0 0 nc|ENSG00000138614|Q96SY0-4|INTS14;nc|ENSG00000138614|Q96SY0-3|INTS14;ENSG00000138614|ENST00000313182|INTS14 nc|ENSG00000138614|Q96SY0-4|INTS14 nc|ENSG00000138614|Q96SY0-4|INTS14 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 449.800886 897.587219 3.2969 0.0014829 0.57901 0.00026044 3.8759 0.0017434 449.8009108346123 102.29 0.29895 102.89 102.81 103.1 0.59759 0.09885 0.00066993 NaN 0.79363 19 11 2 NaN NaN NaN NaN 0 NaN NaN 0 157030 27626 3100 17869 17927 0.13432896362110114 RLRLADRRRRR 11 Unmodified _RLRLADRRRRR_ 0 0 0 REV__ENST00000270357.9_2_2:241508179-241513275:+|nuORF REV__ENST00000270357.9_2_2:241508179-241513275:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 762.4845581054688 2 762.48254 1522.95053 NaN NaN NaN NaN NaN NaN NaN 106.57 1 106.89 106.39 107.39 0.31628 0 0 0 1.0082 1 49178 49178 0 0 1 + 27627 15059 17870 17928 31148 31148 0.20996942133456287 RLRLAENAKL 10 Unmodified _RLRLAENAKL_ 0 0 0 REV__nc|ENSG00000178209|Q15149|PLEC REV__nc|ENSG00000178209|Q15149|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.2483215332031 3 395.247173 1182.71969 2.7472 0.0010858 -0.16079 -6.3552E-05 2.5864 0.0010223 395.2471477272661 15.527 0.89386 15.833 15.455 16.349 0.306 211 100 3 0 0 0 0.90859 1 6975 6975 1.5923 0 1 119180 + 27628 18058 17871 17929 31149 31149 0.1356387630826248 RLRLKQQEL 9 Unmodified _RLRLKQQEL_ 0 0 0 nc|ENSG00000137693|P46937-4|YAP1;nc|ENSG00000137693|P46937-5|YAP1;nc|ENSG00000137693|P46937-3|YAP1;nc|ENSG00000137693|P46937-6|YAP1;nc|ENSG00000137693|P46937-7|YAP1;nc|ENSG00000137693|P46937-2|YAP1;nc|ENSG00000137693|P46937-8|YAP1;ENSG00000137693|ENST00000282441|YAP1;nc|ENSG00000137693|P46937-9|YAP1 nc|ENSG00000137693|P46937-4|YAP1 nc|ENSG00000137693|P46937-4|YAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 395.2483825683594 3 395.247173 1182.71969 2.6827 0.0010603 0.23104 9.132E-05 2.9137 0.0011516 395.24731239455576 18.356 0.20028 18.356 18.235 18.435 0 18 10 2 0 0 0 0.76984 1 8178 8178 8.1555 0 1 184730 27629 3032 17872 17930 31150 31150 0.13563876308285217 RLRLKQQEL 9 Unmodified _RLRLKQQEL_ 0 0 0 nc|ENSG00000137693|P46937-4|YAP1;nc|ENSG00000137693|P46937-5|YAP1;nc|ENSG00000137693|P46937-3|YAP1;nc|ENSG00000137693|P46937-6|YAP1;nc|ENSG00000137693|P46937-7|YAP1;nc|ENSG00000137693|P46937-2|YAP1;nc|ENSG00000137693|P46937-8|YAP1;ENSG00000137693|ENST00000282441|YAP1;nc|ENSG00000137693|P46937-9|YAP1 nc|ENSG00000137693|P46937-4|YAP1 nc|ENSG00000137693|P46937-4|YAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.5816345214844 3 395.247173 1182.71969 2.7472 0.0010858 -0.16079 -6.3552E-05 2.5864 0.0010223 395.2471477272661 15.527 0.89386 15.833 15.455 16.349 0.306 211 100 3 0 0 0 0.98132 1 7063 7063 4.897 0 1 119180 27630 3032 17872 17930 31151 31151 0.13563876308285217 RLRLKQQEL 9 Unmodified _RLRLKQQEL_ 0 0 0 nc|ENSG00000137693|P46937-4|YAP1;nc|ENSG00000137693|P46937-5|YAP1;nc|ENSG00000137693|P46937-3|YAP1;nc|ENSG00000137693|P46937-6|YAP1;nc|ENSG00000137693|P46937-7|YAP1;nc|ENSG00000137693|P46937-2|YAP1;nc|ENSG00000137693|P46937-8|YAP1;ENSG00000137693|ENST00000282441|YAP1;nc|ENSG00000137693|P46937-9|YAP1 nc|ENSG00000137693|P46937-4|YAP1 nc|ENSG00000137693|P46937-4|YAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.24853515625 3 395.247173 1182.71969 2.9237 0.0011556 0.61112 0.00024154 3.5348 0.0013971 395.24743836740134 15.913 1.1347 16.571 16.132 17.267 0.65798 275 142 3 0 0 0 1.1154 3 7144 7144;7183;7349 2.7352 0 1 127730 27631 3032 17872 17930 31152;31153;31154 31152 0.13563876308285217 RLRLKQQEL 9 Unmodified _RLRLKQQEL_ 0 0 0 nc|ENSG00000137693|P46937-4|YAP1;nc|ENSG00000137693|P46937-5|YAP1;nc|ENSG00000137693|P46937-3|YAP1;nc|ENSG00000137693|P46937-6|YAP1;nc|ENSG00000137693|P46937-7|YAP1;nc|ENSG00000137693|P46937-2|YAP1;nc|ENSG00000137693|P46937-8|YAP1;ENSG00000137693|ENST00000282441|YAP1;nc|ENSG00000137693|P46937-9|YAP1 nc|ENSG00000137693|P46937-4|YAP1 nc|ENSG00000137693|P46937-4|YAP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 395.247173 1182.71969 2.4064 0.00095113 -0.15151 -5.9883E-05 2.2549 0.00089125 395.2471575064803 17.858 0.093225 18.059 18 18.093 0.20057 -0.14877 -0.00016404 NaN 8.1555 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 298070 27632 3032 17872 17930 0.13563876308285217 RLRLLIKFFYF 11 Unmodified _RLRLLIKFFYF_ 0 0 0 REV__nc|ENSG00000165181|Q5VXU9-3|SHOC1 REV__nc|ENSG00000165181|Q5VXU9-3|SHOC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.9787292480469 3 505.978135 1514.91258 NaN NaN NaN NaN NaN NaN NaN 106.01 1 106.06 105.56 106.56 0.04837 0 0 0 1.0082 1 57364 57364 0.094841 0 1 + 27633 18022 17873 17931 31155 31155 0.1757161837545027 RLRLQRWRPRR 11 Unmodified _RLRLQRWRPRR_ 0 0 0 REV__ENST00000533444.1_1_8:145149952-145150036:+|nuORF REV__ENST00000533444.1_1_8:145149952-145150036:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 796.992919921875 2 796.995283 1591.97601 NaN NaN NaN NaN NaN NaN NaN 30.463 1 31.253 30.753 31.753 0.78921 0 0 0 1.0082 1 13756 13756 0 0 1 + 27634 17160 17874 17932 31156 31156 0.2037041665587367 RLRLTRILRLL 11 Unmodified _RLRLTRILRLL_ 0 0 0 REV__ENST00000547754.5_1_12:100967500-100985561:+|nuORF REV__ENST00000547754.5_1_12:100967500-100985561:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 712.216796875 2 711.990812 1421.96707 NaN NaN NaN NaN NaN NaN NaN 96.97 1 96.97 96.47 97.47 0 0 0 0 1.0082 1 52637 52637 0 0 1 + 27635 17260 17875 17933 31157 31157 0.2729663024686033 RLRLWALIPW 10 Unmodified _RLRLWALIPW_ 0 0 0 ENST00000530607.1_1_1:26872355-26877988:+|nuORF;nc|ENSG00000117676|Q15418-2|RPS6KA1 ENST00000530607.1_1_1:26872355-26877988:+|nuORF ENST00000530607.1_1_1:26872355-26877988:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.7074890136719 4 331.706663 1322.79755 2.2447 0.00074457 0.73007 0.00024217 2.9747 0.00098674 331.70673294521356 55.113 0.40682 55.781 55.483 55.89 0.66798 43 16 3 0 0 0 0.94217 1 25205 25205 0.15932 0 1 1557900 27636 8714 17876 17934 31158 31158 0.14905933964291762 RLRPENTHL 9 Unmodified _RLRPENTHL_ 0 0 0 REV__SPTA1|p.N1128H|1|0.06|ENSG00000163554|chr1:158651462-158651462|T/G|missense_variant REV__SPTA1|p.N1128H|1|0.06|ENSG00000163554|chr1:158651462-158651462|T/G|missense_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.7734985351562 2 568.320171 1134.62579 3.6084 0.0020507 1.5109 0.00085869 5.1194 0.0029094 568.3211786677124 49.795 0.39061 50.453 50.277 50.668 0.65735 25 15 2 0 0 0 0.10586 1 22790 22790 4.3292 0 1 784140 + 27637 18221 17877 17935 31159 31159 0.06386157205974996 RLRQHWKLRKV 11 Unmodified _RLRQHWKLRKV_ 0 0 0 ENSG00000042429|ENST00000251871|MED17 ENSG00000042429|ENST00000251871|MED17 ENSG00000042429|ENST00000251871|MED17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 760.4757080078125 2 760.47586 1518.93717 NaN NaN NaN NaN NaN NaN NaN 73.302 1 74.001 73.501 74.501 0.69881 0 0 0 1.0082 1 35327 35327 0 0 1 27638 542 17878 17936 31160 31160 0.19845691301497936 RLRQIRRQRGR 11 Unmodified _RLRQIRRQRGR_ 0 0 0 REV__ENST00000379656.7_1_19:18112104-18119556:+|nuORF REV__ENST00000379656.7_1_19:18112104-18119556:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.73968505859375 4 374.488271 1493.92398 2.836 0.001062 -0.66168 -0.00024779 2.1743 0.00081425 374.7387911368607 39.628 1.5354 39.628 38.636 40.172 0 175 63 3 0 0 0 0.91391 3 17976 17976;18117;18198 0.08335 0.026723 1 1412700 + 27639 15871 17879 17937 31161;31162;31163 31161 0.1967725324213916 RLRRHYIKRRQ 11 Unmodified _RLRRHYIKRRQ_ 0 0 0 REV__nc|ENSG00000106823|O94769-2|ECM2 REV__nc|ENSG00000106823|O94769-2|ECM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 791.4877319335938 2 791.487291 1580.96003 NaN NaN NaN NaN NaN NaN NaN 91.618 1 91.618 91.118 92.118 0 0 0 0 1.0082 1 48452 48452 0.30703 0.03801 1 + 27640 11101 17880 17938 31164 31164 0.19278710418984701 RLRRLQRRERR 11 Unmodified _RLRRLQRRERR_ 0 0 0 ENSG00000162068|ENST00000293973|NTN3 ENSG00000162068|ENST00000293973|NTN3 ENSG00000162068|ENST00000293973|NTN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 798.1520385742188 2 798.001097 1593.98764 NaN NaN NaN NaN NaN NaN NaN 101.29 1 101.6 101.1 102.1 0.31412 0 0 0 1.0082 1 46872 46872 0 0 1 27641 4119 17881 17939 31165 31165 0.21440613679214948 RLRRLRLLRRR 11 Unmodified _RLRRLRLLRRR_ 0 0 0 ENST00000235332.5_1_1:12079550-12081702:+|nuORF;ENST00000478749.5_1_1:12079550-12082221:+|nuORF ENST00000235332.5_1_1:12079550-12081702:+|nuORF ENST00000235332.5_1_1:12079550-12081702:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 782.5316162109375 2 782.534575 1563.0546 NaN NaN NaN NaN NaN NaN NaN 66.8 1 67.504 67.004 68.004 0.7047 0 0 0 1.0082 1 31688 31688 0 0 1 27642 6460 17882 17940 31166 31166 0.29559268960974805 RLRRLRLLRRR 11 Unmodified _RLRRLRLLRRR_ 0 0 0 ENST00000235332.5_1_1:12079550-12081702:+|nuORF;ENST00000478749.5_1_1:12079550-12082221:+|nuORF ENST00000235332.5_1_1:12079550-12081702:+|nuORF ENST00000235332.5_1_1:12079550-12081702:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.0242919921875 3 522.025476 1563.0546 NaN NaN NaN NaN NaN NaN NaN 58.415 1 58.677 58.177 59.177 0.26227 0 0 0 1.0082 1 26751 26751 0 0 1 27643 6460 17882 17940 31167 31167 0.29559268960974805 RLRRLRLLRRR 11 Unmodified _RLRRLRLLRRR_ 0 0 0 ENST00000235332.5_1_1:12079550-12081702:+|nuORF;ENST00000478749.5_1_1:12079550-12082221:+|nuORF ENST00000235332.5_1_1:12079550-12081702:+|nuORF ENST00000235332.5_1_1:12079550-12081702:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.0233764648438 3 522.025476 1563.0546 NaN NaN NaN NaN NaN NaN NaN 76.09 1 76.347 75.847 76.847 0.25704 0 0 0 1.0082 1 35029 35029 0 0 1 27644 6460 17882 17940 31168 31168 0.29559268960974805 RLRRLRRHTYW 11 Unmodified _RLRRLRRHTYW_ 0 0 0 nc|ENSG00000168397|Q9Y4P1-2|ATG4B nc|ENSG00000168397|Q9Y4P1-2|ATG4B nc|ENSG00000168397|Q9Y4P1-2|ATG4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.0716552734375 2 806.974016 1611.93348 NaN NaN NaN NaN NaN NaN NaN 109.72 1 109.72 109.22 110.22 0 0 0 0 1.0082 1 59977 59977 0 0 1 27645 9745 17883 17941 31169 31169 0.1519902152767827 RLRRRQKRQNK 11 Unmodified _RLRRRQKRQNK_ 0 0 0 nc|ENSG00000101958|P23416-3|GLRA2;GLRA2|p.T387Rfs*34|1|0.06|ENSG00000101958|chrX:14730285-14730286|-/GATG|frameshift_variant;nc|ENSG00000101958|P23416-2|GLRA2;ENSG00000101958|ENST00000218075|GLRA2 nc|ENSG00000101958|P23416-3|GLRA2 nc|ENSG00000101958|P23416-3|GLRA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 769.9820556640625 2 769.982373 1537.95019 NaN NaN NaN NaN NaN NaN NaN 83.482 1 83.527 83.027 84.027 0.045006 0 0 0 1.008 1 41438 41438 0.30703 0 1 27646 1322 17884 17942 31170 31170 0.2027352241364042 RLRRRRHRRRR 11 Unmodified _RLRRRRHRRRR_ 0 0 0 REV__ENST00000498611.5_1_22:50657979-50682900:-|nuORF REV__ENST00000498611.5_1_22:50657979-50682900:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 837.5363159179688 2 837.539046 1673.06354 NaN NaN NaN NaN NaN NaN NaN 78.182 1 78.182 77.682 78.682 0 0 0 0 1.0082 1 38395 38395 0 0 1 + 27647 16872 17885 17943 31171 31171 0.25393055370000184 RLRRRRHRRRR 11 Unmodified _RLRRRRHRRRR_ 0 0 0 REV__ENST00000498611.5_1_22:50657979-50682900:-|nuORF REV__ENST00000498611.5_1_22:50657979-50682900:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 837.3360595703125 2 837.539046 1673.06354 NaN NaN NaN NaN NaN NaN NaN 102.56 1 103.16 102.66 103.66 0.59759 0 0 0 1.0082 1 47468 47468 0 0 1 + 27648 16872 17885 17943 31172 31172 0.25393055370000184 RLRRRRRPRRQ 11 Unmodified _RLRRRRRPRRQ_ 0 0 0 ENST00000295206.6_1_2:119600812-119604160:-|nuORF ENST00000295206.6_1_2:119600812-119604160:-|nuORF ENST00000295206.6_1_2:119600812-119604160:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.0133666992188 3 536.012229 1605.01486 NaN NaN NaN NaN NaN NaN NaN 81.509 1 81.509 81.009 82.009 0 0 0 0 1.0082 1 40613 40613 0 0 1 27649 6756 17886 17944 31173 31173 0.2365514201028418 RLRRRVLLRRP 11 Unmodified _RLRRRVLLRRP_ 0 0 0 ENST00000534961.5_1_8:42742976-42751856:-|nuORF;ENST00000528318.5_1_8:42716773-42751856:-|nuORF ENST00000534961.5_1_8:42742976-42751856:-|nuORF ENST00000534961.5_1_8:42742976-42751856:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 746.0015258789062 2 746.002577 1489.9906 NaN NaN NaN NaN NaN NaN NaN 80.276 1 80.936 80.436 81.436 0.65998 0 0 0 1.0082 1 36990 36990 0 0 1 27650 8688 17887 17945 31174 31174 0.2652048880404436 RLRRSRLRRAH 11 Unmodified _RLRRSRLRRAH_ 0 0 0 REV__ENST00000457303.3_1_4:184425339-184425477:-|nuORF REV__ENST00000457303.3_1_4:184425339-184425477:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 369.9864501953125 4 369.98563 1475.91341 2.7557 0.0010196 -0.86453 -0.00031987 1.8912 0.0006997 369.98534542081217 49.184 0.91055 49.184 48.824 49.735 0 151 42 4 0 0 0 0.91359 1 22544 22544 0.40827 0.31342 1 12786000 + 27651 16459 17888 17946 31175 31175 0.19449270587710998 RLRRSRLRRAH 11 Unmodified _RLRRSRLRRAH_ 0 0 0 REV__ENST00000457303.3_1_4:184425339-184425477:-|nuORF REV__ENST00000457303.3_1_4:184425339-184425477:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.7733459472656 3 492.978414 1475.91341 3.0864 0.0015215 -0.2021 -9.9633E-05 2.8843 0.0014219 493.31273063417785 49.192 0.76977 49.192 48.876 49.646 0 61 34 3 0 0 0 0.13295 1 22571 22571 0.40827 0 1 1816300 + 27652 16459 17888 17946 31176 31176 0.19449270587710998 RLRRSRLRRAH 11 Unmodified _RLRRSRLRRAH_ 0 0 0 REV__ENST00000457303.3_1_4:184425339-184425477:-|nuORF REV__ENST00000457303.3_1_4:184425339-184425477:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.8157958984375 3 492.978414 1475.91341 3.3349 0.001644 1.6289 0.00080299 4.9637 0.002447 493.3145471760246 48.587 0.72264 48.849 48.639 49.362 0.26209 44 32 3 0 0 0 0.13295 1 22203 22203 1.7824 0.85689 1 1508500 + 27653 16459 17888 17946 31177 31177 0.19449270587710998 RLRRVLRRMLR 11 Unmodified _RLRRVLRRMLR_ 0 0 0 REV__ENSG00000197324|ENST00000359591|LRP10 REV__ENSG00000197324|ENST00000359591|LRP10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 762.9970092773438 2 762.996437 1523.97832 NaN NaN NaN NaN NaN NaN NaN 22.514 1 22.514 22.014 23.014 0 0 0 0 1.0082 1 10094 10094 0 0 1 + 27654 14272 17889 17947 31178 31178 0.23729129069351984 RLRRWKLWQWW 11 Unmodified _RLRRWKLWQWW_ 0 0 0 REV__ENST00000551099.5_1_12:113659271-113664634:+|nuORF REV__ENST00000551099.5_1_12:113659271-113664634:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 857.4862060546875 2 857.483686 1712.95282 NaN NaN NaN NaN NaN NaN NaN 85.886 1 85.916 85.416 86.416 0.029716 0 0 0 1.008 1 43078 43078 0.30703 0 1 + 27655 17283 17890 17948 31179 31179 0.12485977818573701 RLRRWKLWQWW 11 Unmodified _RLRRWKLWQWW_ 0 0 0 REV__ENST00000551099.5_1_12:113659271-113664634:+|nuORF REV__ENST00000551099.5_1_12:113659271-113664634:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 857.4866943359375 2 857.483686 1712.95282 NaN NaN NaN NaN NaN NaN NaN 25.301 1 25.569 25.069 26.069 0.26777 0 0 0 1.0082 1 11481 11481 0 0 1 + 27656 17283 17890 17948 31180 31180 0.12485977818573701 RLRRWKLWQWW 11 Unmodified _RLRRWKLWQWW_ 0 0 0 REV__ENST00000551099.5_1_12:113659271-113664634:+|nuORF REV__ENST00000551099.5_1_12:113659271-113664634:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 857.4852905273438 2 857.483686 1712.95282 NaN NaN NaN NaN NaN NaN NaN 55.422 1 55.687 55.187 56.187 0.26543 0 0 0 1.0082 1 25344 25344 0 0 1 + 27657 17283 17890 17948 31181 31181 0.12485977818573701 RLRSRRRH 8 Unmodified _RLRSRRRH_ 0 0 0 ENST00000575312.1_1_17:79670028-79670313:-|nuORF ENST00000575312.1_1_17:79670028-79670313:-|nuORF ENST00000575312.1_1_17:79670028-79670313:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.8556518554688 2 568.852839 1135.69112 4.342 0.00247 0.80088 0.00045558 5.1429 0.0029255 568.8532449219227 98.308 0.24942 98.608 98.494 98.744 0.29987 62 24 4 0 0 0 0.7471 1 45234 45234 0.6015 0.6015 1 42805000 27658 9119 17891 17949 31182 31182 0.1287061624236685 RLRTTWEK 8 Unmodified _RLRTTWEK_ 0 0 0 nc|ENSG00000109756|Q9Y4G8|RAPGEF2;ENSG00000109756|ENST00000691494|RAPGEF2 nc|ENSG00000109756|Q9Y4G8|RAPGEF2 nc|ENSG00000109756|Q9Y4G8|RAPGEF2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.54315185546875 3 363.876969 1088.60908 2.5541 0.00092938 -1.1922 -0.0004338 1.3619 0.00049558 363.87643042545335 35.792 0.55619 35.792 35.411 35.967 0 38 28 2 0 0 0 0.1432 1 16100 16100 1.4819 0.91873 1 499880 27659 1684 17892 17950 31183 31183 0.0683165632001419 RLRVWLLP 8 Unmodified _RLRVWLLP_ 0 0 0 REV__ENSG00000188039|ENST00000524140|NWD1 REV__ENSG00000188039|ENST00000524140|NWD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.563720703125 3 351.562433 1051.66547 NaN NaN NaN NaN NaN NaN NaN 44.587 1 44.856 44.356 45.356 0.2694 0 0 0 0.99035 1 20378 20378 1.6526 0.69035 1 + 27660 14129 17893 17951 31184 31184 0.14170328947352573 RLRWFPPWC 9 Unmodified _RLRWFPPWC_ 0 0 0 REV__chr9:35676389-35679185|385|40.0|0.38|6.7|+|1|CA9,CA9|1 REV__chr9:35676389-35679185|385|40.0|0.38|6.7|+|1|CA9,CA9|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1260.65283203125 1 1260.64588 1259.6386 4.0129 0.0050589 0.15671 0.00019755 4.1697 0.0052565 1260.6453018110521 104.15 0.043839 104.47 104.45 104.49 0.31863 7 4 2 0 0 0 1.2459 1 48124 48124 0 0 1 1922800 + 27661 10058 17894 17952 31185 31185 0.019168970645296213 RLRYRRYARQI 11 Unmodified _RLRYRRYARQI_ 0 0 0 REV__nc|ENSG00000169432|Q15858-4|SCN9A REV__nc|ENSG00000169432|Q15858-4|SCN9A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 775.9611206054688 2 775.960575 1549.9066 NaN NaN NaN NaN NaN NaN NaN 51.786 1 52.049 51.549 52.549 0.26227 0 0 0 1.0082 1 23669 23669 0 0 1 + 27662 18036 17895 17953 31186 31186 0.15363912916495792 RLSAGRVP 8 Unmodified _RLSAGRVP_ 0 0 0 NRCAM|p.T524Ifs*9|1|0.28|ENSG00000091129|chr7:108194321-108194322|-/TA|frameshift_variant;nc|ENSG00000091129|Q92823-3|NRCAM;nc|ENSG00000091129|Q92823-4|NRCAM;nc|ENSG00000091129|Q92823-6|NRCAM;nc|ENSG00000091129|Q92823-2|NRCAM;ENSG00000091129|ENST00000379028|NRCAM;nc|ENSG00000091129|Q92823-5|NRCAM NRCAM|p.T524Ifs*9|1|0.28|ENSG00000091129|chr7:108194321-108194322|-/TA|frameshift_variant NRCAM|p.T524Ifs*9|1|0.28|ENSG00000091129|chr7:108194321-108194322|-/TA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 428.262451171875 2 428.261594 854.508634 1.9165 0.00082075 0.1592 6.8177E-05 2.0757 0.00088893 428.2615861215599 85.789 0.4025 85.818 85.626 86.029 0.028603 105 47 3 0 0 0 0.63902 1 43107 43107 10.824 0.75 1 27055000 27663 1072 17896 17954 31187 31187 0.07556044057025701 RLSERDVP 8 Unmodified _RLSERDVP_ 0 0 0 REV__ENST00000378887.3_1_19:36486765-36486891:+|nuORF REV__ENST00000378887.3_1_19:36486765-36486891:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.26806640625 2 486.267073 970.519593 2.0858 0.0010142 0.36684 0.00017838 2.4526 0.0011926 486.26713096720664 94.067 0.19164 94.154 94.047 94.239 0.086212 28 21 2 0 0 0 0.63902 1 49402 49402 10.824 2.0785 1 3014200 + 27664 15856 17897 17955 31188 31188 0.03315401640657001 RLSERDVP 8 Unmodified _RLSERDVP_ 0 0 0 REV__ENST00000378887.3_1_19:36486765-36486891:+|nuORF REV__ENST00000378887.3_1_19:36486765-36486891:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 486.267073 970.519593 2.0858 0.0010142 0.36684 0.00017838 2.4526 0.0011926 486.26713096720664 94.067 0.19164 94.154 94.047 94.239 0.086212 0.10858 0.00031294 NaN 10.824 28 21 2 NaN NaN NaN NaN 0 NaN NaN 0 3014200 + 27665 15856 17897 17955 0.03315401640657001 RLSERDVP 8 Unmodified _RLSERDVP_ 0 0 0 REV__ENST00000378887.3_1_19:36486765-36486891:+|nuORF REV__ENST00000378887.3_1_19:36486765-36486891:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 486.267073 970.519593 3.7278 0.0018127 -0.02397 -1.1656E-05 3.7038 0.0018011 486.2669511264909 93.76 0.46156 94.015 93.791 94.252 0.25497 -0.030239 -6.7129E-05 NaN 10.824 55 22 3 NaN NaN NaN NaN 0 NaN NaN 0 3083300 + 27666 15856 17897 17955 0.03315401640657001 RLSFERTWAV 10 Unmodified _RLSFERTWAV_ 0 0 0 REV__LTR46-int_dup15|chr6:25836289-25836601:-|1.146732329958959|0.031853035304567|5.17|503.0|14|2|anti-sense REV__LTR46-int_dup15|chr6:25836289-25836601:-|1.146732329958959|0.031853035304567|5.17|503.0|14|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 632.8426513671875 2 632.843479 1263.67241 NaN NaN NaN NaN NaN NaN NaN 90.284 1 90.535 90.035 91.035 0.25137 0 0 0 0.99846 1 41518 41518 2.9952 0 1 + 27667 17825 17898 17956 31189 31189 0.05111597037262072 RLSKKKRLKKK 11 Unmodified _RLSKKKRLKKK_ 0 0 0 REV__nc|ENSG00000103994|Q9H2Y7-2|ZNF106 REV__nc|ENSG00000103994|Q9H2Y7-2|ZNF106 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 706.9974365234375 2 706.998637 1411.98272 NaN NaN NaN NaN NaN NaN NaN 19.613 1 19.905 19.405 20.405 0.29239 0 0 0 1.0082 1 8924 8924 0 0 1 + 27668 10981 17899 17957 31190 31190 0.29320916763890637 RLSLPEKW 8 Unmodified _RLSLPEKW_ 0 0 0 REV__ENST00000355897.9_1_3:169755907-169797573:+|nuORF REV__ENST00000355897.9_1_3:169755907-169797573:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.5350341796875 3 343.534431 1027.58147 2.3733 0.0008153 1.026 0.00035248 3.3993 0.0011678 343.5346932809506 34.814 0.20886 35.437 35.271 35.48 0.62294 34 21 2 0 0 0 0.71911 1 15889 15889 2.9952 0 1 2369700 + 27669 15547 17900 17958 31191 31191 0.06877753059779934 RLSSAKKKI 9 Unmodified _RLSSAKKKI_ 0 0 0 nc|ENSG00000198718|Q9Y4F4|TOGARAM1;ENSG00000198718|ENST00000361462|TOGARAM1 nc|ENSG00000198718|Q9Y4F4|TOGARAM1 nc|ENSG00000198718|Q9Y4F4|TOGARAM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.8421020507812 2 515.840208 1029.66586 NaN NaN NaN NaN NaN NaN NaN 102.69 1 103 102.5 103.5 0.31863 0 0 0 0.91059 1 47492 47492 1.8442 1.0506 1 27670 5919 17901 17959 31192 31192 0.1522170387654569 RLSTKAGEV 9 Unmodified _RLSTKAGEV_ 0 0 0 REV__ENST00000371100.8_1_20:57427796-57428033:+|nuORF REV__ENST00000371100.8_1_20:57427796-57428033:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 320.8547058105469 3 320.853941 959.539994 2.1511 0.00069018 0.48101 0.00015433 2.6321 0.00084451 320.8540201179334 15.875 0.98688 15.875 15.377 16.363 0 301 119 3 0 0 0 0.36069 2 7016 7016;7057 14.405 4.3315 1 430910 + 27671 15736 17902 17960 31193;31194 31193 0.058605723004689025 RLSTKAGEV 9 Unmodified _RLSTKAGEV_ 0 0 0 REV__ENST00000371100.8_1_20:57427796-57428033:+|nuORF REV__ENST00000371100.8_1_20:57427796-57428033:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 320.85479736328125 3 320.853941 959.539994 2.2786 0.00073111 0.18168 5.8291E-05 2.4603 0.0007894 320.8539708033966 14.827 0.29511 15.053 14.91 15.205 0.22622 61 23 4 0 0 0 0.24465 1 6551 6551 14.405 0.49933 1 1333500 + 27672 15736 17902 17960 31195 31195 0.058605723004689025 RLSTKAGEV 9 Unmodified _RLSTKAGEV_ 0 0 0 REV__ENST00000371100.8_1_20:57427796-57428033:+|nuORF REV__ENST00000371100.8_1_20:57427796-57428033:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 320.8547058105469 3 320.853941 959.539994 2.2423 0.00071944 0.15884 5.0966E-05 2.4011 0.0007704 320.85394636609226 14.295 0.12981 14.943 14.89 15.02 0.6482 25 14 2 0 0 0 0.36069 1 6428 6428 14.405 4.3315 1 4743700 + 27673 15736 17902 17960 31196 31196 0.058605723004689025 RLSTKAGEV 9 Unmodified _RLSTKAGEV_ 0 0 0 REV__ENST00000371100.8_1_20:57427796-57428033:+|nuORF REV__ENST00000371100.8_1_20:57427796-57428033:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 320.853941 959.539994 2.091 0.00067091 0.12167 3.9039E-05 2.2127 0.00070995 320.85393469109636 14.365 0.15874 14.671 14.593 14.752 0.3069 -0.21784 -3.1164E-05 NaN 14.405 16 6 3 NaN NaN NaN NaN 0 NaN NaN 0 4139200 + 27674 15736 17902 17960 0.058605723004689025 RLSTKAGEV 9 Unmodified _RLSTKAGEV_ 0 0 0 REV__ENST00000371100.8_1_20:57427796-57428033:+|nuORF REV__ENST00000371100.8_1_20:57427796-57428033:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 320.853941 959.539994 2.2423 0.00071944 0.15884 5.0966E-05 2.4011 0.0007704 320.85394636609226 14.295 0.12981 14.943 14.89 15.02 0.6482 0.05406 4.6154E-06 NaN 14.405 25 14 2 NaN NaN NaN NaN 0 NaN NaN 0 4743700 + 27675 15736 17902 17960 0.058605723004689025 RLSVGVLKAVH 11 Unmodified _RLSVGVLKAVH_ 0 0 0 REV__ENSG00000092445|ENST00000263798|TYRO3 REV__ENSG00000092445|ENST00000263798|TYRO3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.5863037109375 3 393.583785 1177.72953 NaN NaN NaN NaN NaN NaN NaN 41.667 1 41.667 41.167 42.167 0 0 0 0 1.0074 1 18955 18955 1.1098 0.18422 1 + 27676 10742 17903 17961 31197 31197 0.14777064313648225 RLTLLQKQHL 10 Unmodified _RLTLLQKQHL_ 0 0 0 REV__nc|ENSG00000083535|Q8WXW3-4|PIBF1 REV__nc|ENSG00000083535|Q8WXW3-4|PIBF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 625.3914184570312 2 625.390596 1248.76664 NaN NaN NaN NaN NaN NaN NaN 102.91 1 103.51 103.01 104.01 0.59759 0 0 0 1.0015 1 47624 47624 0.40072 0 1 + 27677 10629 17904 17962 31198 31198 0.15220735859406886 RLTNLTYE 8 Unmodified _RLTNLTYE_ 0 0 0 REV__nc|ENSG00000142945|Q99661-2|KIF2C REV__nc|ENSG00000142945|Q99661-2|KIF2C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.2693176269531 2 505.269281 1008.52401 NaN NaN NaN NaN NaN NaN NaN 92.158 1 92.806 92.306 93.306 0.64714 0 0 0 0.99035 1 42403 42403 2.0598 0 1 + 27678 12349 17905 17963 31199 31199 0.020088660635565248 RLTTIHPRIK 10 Unmodified _RLTTIHPRIK_ 0 0 0 REV__nc|ENSG00000055917|Q8TB72-2|PUM2 REV__nc|ENSG00000055917|Q8TB72-2|PUM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.5984802246094 3 412.262935 1233.76697 NaN NaN NaN NaN NaN NaN NaN 68.904 1 69.563 69.063 70.063 0.65924 0 0 0 1.0003 1 31585 31585 0.62683 0 1 + 27679 10373 17906 17964 31200 31200 0.1594415557924549 RLVCLRWKELV 11 Unmodified _RLVCLRWKELV_ 0 0 0 ENST00000471501.1_1_1:11709834-11710766:-|nuORF;ENST00000466919.1_1_1:11710000-11714093:-|nuORF;ENSG00000116661|ENST00000354287|FBXO2 ENST00000471501.1_1_1:11709834-11710766:-|nuORF ENST00000471501.1_1_1:11709834-11710766:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.285400390625 3 472.28323 1413.82786 3.1979 0.0015103 1.4068 0.00066442 4.6047 0.0021747 472.2838292594372 105.9 0.15498 106.5 106.41 106.57 0.59969 14 5 4 0 0 0 0.91328 1 48914 48914 0.50596 0.17668 1 1039700 27680 2036 17907 17965 31201 31201 0.13749924567173366 RLVKFRKR 8 Unmodified _RLVKFRKR_ 0 0 0 REV__ENSG00000204612|ENST00000376708|FOXB2 REV__ENSG00000204612|ENST00000376708|FOXB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.8681640625 2 551.869634 1101.72472 NaN NaN NaN NaN NaN NaN NaN 84.194 1 84.223 83.723 84.723 0.028603 0 0 0 0.99035 1 41944 41944 0.69038 0 1 + 27681 14428 17908 17966 31202 31202 0.1779222496154489 RLVKFRKRRRL 11 Unmodified _RLVKFRKRRRL_ 0 0 0 REV__ENSG00000204612|ENST00000376708|FOXB2 REV__ENSG00000204612|ENST00000376708|FOXB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 764.5098876953125 2 764.512777 1527.011 NaN NaN NaN NaN NaN NaN NaN 75.654 1 76.318 75.818 76.818 0.6635 0 0 0 1.0082 1 36637 36637 0 0 1 + 27682 14428 17909 17967 31203 31203 0.26857659463848904 RLVLKPIKRKK 11 Unmodified _RLVLKPIKRKK_ 0 0 0 REV__nc|ENSG00000146966|Q9ULE3-2|DENND2A REV__nc|ENSG00000146966|Q9ULE3-2|DENND2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 460.328369140625 3 460.329279 1377.96601 NaN NaN NaN NaN NaN NaN NaN 64.017 1 64.733 64.233 65.233 0.71521 0 0 0 1.0082 1 30090 30090 0.094841 0.011491 1 + 27683 12490 17910 17968 31204 31204 0.29214415877936517 RLVLMLPLLC 10 Unmodified _RLVLMLPLLC_ 0 0 0 REV__chr21:44865447-44871872|119|54.61|0.69|6.3|-|0|PTTG1IP,None|1 REV__chr21:44865447-44871872|119|54.61|0.69|6.3|-|0|PTTG1IP,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 586.17138671875 2 585.858698 1169.70284 NaN NaN NaN NaN NaN NaN NaN 97.811 1 97.882 97.382 98.382 0.070648 0 0 0 0.98866 1 52408 52408 7.2892 0.56607 1 + 27684 10043 17911 17969 31205 31205 0.12477916106468001 RLVQLLFH 8 Unmodified _RLVQLLFH_ 0 0 0 REV__ENST00000412733.1_X:151869075-151869150:+|nuORF REV__ENST00000412733.1_X:151869075-151869150:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 342.54754638671875 3 342.546671 1024.61818 2.3654 0.00081027 1.0092 0.00034568 3.3746 0.001156 342.54684477778596 55.441 0.36839 55.441 55.261 55.63 0 48 28 2 0 0 0 0.7471 1 25461 25461 1.6526 0 1 2359900 + 27685 16111 17912 17970 31206 31206 0.10686049676382936 RLVQLLFH 8 Unmodified _RLVQLLFH_ 0 0 0 REV__ENST00000412733.1_X:151869075-151869150:+|nuORF REV__ENST00000412733.1_X:151869075-151869150:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.54827880859375 3 342.546671 1024.61818 NaN NaN NaN NaN NaN NaN NaN 44.527 1 45.348 44.848 45.848 0.82075 0 0 0 0.99035 1 20276 20276 0.45834 0 1 + 27686 16111 17912 17970 31207 31207 0.10686049676382936 RLVQLLFH 8 Unmodified _RLVQLLFH_ 0 0 0 REV__ENST00000412733.1_X:151869075-151869150:+|nuORF REV__ENST00000412733.1_X:151869075-151869150:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 342.547607421875 3 342.546671 1024.61818 2.2776 0.00078019 1.3475 0.00046157 3.6251 0.0012418 342.5470636120346 38.571 0.3377 38.835 38.69 39.028 0.26408 29 13 3 0 0 0 0.72385 1 17568 17568 3.9444 0 1 1497900 + 27687 16111 17912 17970 31208 31208 0.10686049676382936 RLVQLLFH 8 Unmodified _RLVQLLFH_ 0 0 0 REV__ENST00000412733.1_X:151869075-151869150:+|nuORF REV__ENST00000412733.1_X:151869075-151869150:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 342.546671 1024.61818 2.2776 0.00078019 1.3475 0.00046157 3.6251 0.0012418 342.5470636120346 38.571 0.3377 38.835 38.69 39.028 0.26408 0.0039745 -7.2667E-05 NaN 3.9444 29 13 3 NaN NaN NaN NaN 0 NaN NaN 0 1497900 + 27688 16111 17912 17970 0.10686049676382936 RLVQLLFH 8 Unmodified _RLVQLLFH_ 0 0 0 REV__ENST00000412733.1_X:151869075-151869150:+|nuORF REV__ENST00000412733.1_X:151869075-151869150:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 342.546671 1024.61818 2.2195 0.00076029 1.4578 0.00049936 3.6773 0.0012596 342.54711149345957 38.192 0.46269 38.826 38.553 39.015 0.63388 -0.0050477 4.0695E-05 NaN 3.9444 49 19 3 NaN NaN NaN NaN 0 NaN NaN 0 529400 + 27689 16111 17912 17970 0.10686049676382936 RLVRRRVGRWK 11 Unmodified _RLVRRRVGRWK_ 0 0 0 ENST00000445193.7_2_3:58292092-58292350:+|nuORF ENST00000445193.7_2_3:58292092-58292350:+|nuORF ENST00000445193.7_2_3:58292092-58292350:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 741.4738159179688 2 741.473652 1480.93275 NaN NaN NaN NaN NaN NaN NaN 52.514 1 53.176 52.676 53.676 0.66198 0 0 0 1.0082 1 24009 24009 0 0 1 27690 7969 17913 17971 31209 31209 0.2115222687862115 RLVRWLLKKVF 11 Unmodified _RLVRWLLKKVF_ 0 0 0 ENSG00000198911|ENST00000361204|SREBF2;ENST00000424354.5_1_22:42276758-42295397:+|nuORF ENSG00000198911|ENST00000361204|SREBF2 ENSG00000198911|ENST00000361204|SREBF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 729.4778442382812 2 729.477006 1456.93946 NaN NaN NaN NaN NaN NaN NaN 74.406 1 75.092 74.592 75.592 0.68662 0 0 0 1.008 1 35962 35962 0.30703 0 1 27691 5961 17914 17972 31210 31210 0.2292672698658862 RLVVELLI 8 Unmodified _RLVVELLI_ 0 0 0 ENST00000492964.1_1_2:175664846-175666604:-|nuORF;nc|ENSG00000128656|P15882-2|CHN1;nc|ENSG00000128656|P15882-3|CHN1;ENSG00000128656|ENST00000409900|CHN1 ENST00000492964.1_1_2:175664846-175666604:-|nuORF ENST00000492964.1_1_2:175664846-175666604:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.7784423828125 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 35.673 1 36.299 35.799 36.799 0.62631 0 0 0 0.99035 1 16339 16339 5.7604 0 1 27692 2523 17915 17973 31211 31211 0.14868398242049352 RLVVRSKLHR 10 Unmodified _RLVVRSKLHR_ 0 0 0 nc|ENSG00000149179|Q9H6J7-4|CSTPP1 nc|ENSG00000149179|Q9H6J7-4|CSTPP1 nc|ENSG00000149179|Q9H6J7-4|CSTPP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.9417419433594 3 421.942195 1262.80476 NaN NaN NaN NaN NaN NaN NaN 52.33 1 52.33 51.83 52.83 0 0 0 0 1.0001 1 23962 23962 1.9064 1.3432 1 27693 9686 17916 17974 31212 31212 0.18386666564720144 RLVVYIAYKV 10 Unmodified _RLVVYIAYKV_ 0 0 0 REV__ENST00000309983.4_1_6:18130894-18132387:-|nuORF REV__ENST00000309983.4_1_6:18130894-18132387:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 612.5262451171875 2 612.379166 1222.74378 NaN NaN NaN NaN NaN NaN NaN 80.079 1 80.399 79.899 80.899 0.31998 0 0 0 0.99774 1 39144 39144 3.5965 0.31518 1 + 27694 15255 17917 17975 31213 31213 0.14131716741917444 RLVYKRLHKPH 11 Unmodified _RLVYKRLHKPH_ 0 0 0 ENSG00000109929|ENST00000264027|SC5D ENSG00000109929|ENST00000264027|SC5D ENSG00000109929|ENST00000264027|SC5D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 723.9453125 2 723.943862 1445.87317 NaN NaN NaN NaN NaN NaN NaN 81.506 1 81.59 81.09 82.09 0.084106 0 0 0 1.0059 1 40075 40075 2.9952 0 1 27695 1693 17918 17976 31214 31214 0.16806911144567493 RLWRRCLERLR 11 Unmodified _RLWRRCLERLR_ 0 0 0 REV__nc|ENSG00000176371|Q7Z7L9-4|ZSCAN2 REV__nc|ENSG00000176371|Q7Z7L9-4|ZSCAN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 519.6419067382812 3 519.640411 1555.8994 NaN NaN NaN NaN NaN NaN NaN 77.823 1 78.076 77.576 78.576 0.25335 0 0 0 1.008 1 35840 35840 0.08335 0 1 + 27696 12898 17919 17977 31215 31215 0.1436885704438282 RLWRTRKRRRW 11 Unmodified _RLWRTRKRRRW_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 835.5067749023438 2 835.508558 1669.00256 NaN NaN NaN NaN NaN NaN NaN 48.63 1 49.457 48.957 49.957 0.82705 0 0 0 1.0082 1 22154 22154 0 0 1 27697 7869 17920 17978 31216 31216 0.19482105547217543 RLWVVLPIVI 10 Unmodified _RLWVVLPIVI_ 0 0 0 nc|ENSG00000125037|Q9P0I2-2|EMC3;ENSG00000125037|ENST00000245046|EMC3;ENST00000487465.5_1_3:10011273-10028351:-|nuORF nc|ENSG00000125037|Q9P0I2-2|EMC3 nc|ENSG00000125037|Q9P0I2-2|EMC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 302.704345703125 4 302.703589 1206.78525 1.9803 0.00059944 1.1229 0.0003399 3.1032 0.00093935 302.70388929487257 57.694 0.3382 57.694 57.417 57.756 0 74 40 2 0 0 0 0.94364 1 26549 26549 0.15932 0 1 1090700 27698 2386 17921 17979 31217 31217 0.1901289750126125 RLWVVLPIVI 10 Unmodified _RLWVVLPIVI_ 0 0 0 nc|ENSG00000125037|Q9P0I2-2|EMC3;ENSG00000125037|ENST00000245046|EMC3;ENST00000487465.5_1_3:10011273-10028351:-|nuORF nc|ENSG00000125037|Q9P0I2-2|EMC3 nc|ENSG00000125037|Q9P0I2-2|EMC3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 302.703589 1206.78525 1.9803 0.00059944 1.1229 0.0003399 3.1032 0.00093935 302.70388929487257 57.694 0.3382 57.694 57.417 57.756 0 0.12807 3.9239E-05 NaN 0.15932 74 40 2 NaN NaN NaN NaN 0 NaN NaN 0 1090700 27699 2386 17921 17979 0.1901289750126125 RLWVVLPIVI 10 Unmodified _RLWVVLPIVI_ 0 0 0 nc|ENSG00000125037|Q9P0I2-2|EMC3;ENSG00000125037|ENST00000245046|EMC3;ENST00000487465.5_1_3:10011273-10028351:-|nuORF nc|ENSG00000125037|Q9P0I2-2|EMC3 nc|ENSG00000125037|Q9P0I2-2|EMC3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 302.703589 1206.78525 2.0055 0.00060707 0.48015 0.00014534 2.4856 0.00075241 302.70371430479804 56.812 0.28282 57.59 57.379 57.662 0.77786 0.024592 -0.000739 NaN 0.15932 49 29 2 NaN NaN NaN NaN 0 NaN NaN 0 792420 27700 2386 17921 17979 0.1901289750126125 RLWVVLPIVI 10 Unmodified _RLWVVLPIVI_ 0 0 0 nc|ENSG00000125037|Q9P0I2-2|EMC3;ENSG00000125037|ENST00000245046|EMC3;ENST00000487465.5_1_3:10011273-10028351:-|nuORF nc|ENSG00000125037|Q9P0I2-2|EMC3 nc|ENSG00000125037|Q9P0I2-2|EMC3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 302.703589 1206.78525 2.1556 0.0006525 1.5022 0.00045472 3.6578 0.0011072 302.70399760661275 57.149 0.19622 57.413 57.254 57.45 0.26444 -0.15266 0.00049852 NaN 0.15932 17 10 2 NaN NaN NaN NaN 0 NaN NaN 0 1736000 27701 2386 17921 17979 0.1901289750126125 RLYKKKKKIKN 11 Unmodified _RLYKKKKKIKN_ 0 0 0 REV__ENST00000376510.7_1_10:23409918-23410092:+|nuORF REV__ENST00000376510.7_1_10:23409918-23410092:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.9937438964844 3 482.992556 1445.95584 NaN NaN NaN NaN NaN NaN NaN 13.149 1 13.393 12.893 13.893 0.24346 0 0 0 1.0082 1 5732 5732 0 0 1 + 27702 15822 17922 17980 31218 31218 0.25069808152738915 RLYKKKKKIKN 11 Unmodified _RLYKKKKKIKN_ 0 0 0 REV__ENST00000376510.7_1_10:23409918-23410092:+|nuORF REV__ENST00000376510.7_1_10:23409918-23410092:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.26788330078125 3 482.992556 1445.95584 NaN NaN NaN NaN NaN NaN NaN 13.707 1 14.014 13.514 14.514 0.30727 0 0 0 1.0082 1 6186 6186 0 0 1 + 27703 15822 17922 17980 31219 31219 0.25069808152738915 RLYRRQERHRR 11 Unmodified _RLYRRQERHRR_ 0 0 0 ENSG00000185955|ENST00000332375|SPACDR ENSG00000185955|ENST00000332375|SPACDR ENSG00000185955|ENST00000332375|SPACDR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 813.4688720703125 2 813.469629 1624.92471 NaN NaN NaN NaN NaN NaN NaN 104.03 1 104.08 103.58 104.58 0.052994 0 0 0 1.0082 1 56351 56351 0 0 1 27704 5548 17923 17981 31220 31220 0.13724047891196278 RLYRSLTA 8 Unmodified _RLYRSLTA_ 0 0 0 ENST00000571394.1_1_17:80904781-80918254:-|nuORF;ENSG00000175711|ENST00000320865|B3GNTL1 ENST00000571394.1_1_17:80904781-80918254:-|nuORF ENST00000571394.1_1_17:80904781-80918254:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 490.59326171875 2 490.287808 978.561064 NaN NaN NaN NaN NaN NaN NaN 29.119 1 29.379 28.879 29.879 0.2602 0 0 0 0.88162 1 13251 13251 13.508 1.8676 1 27705 5044 17924 17982 31221 31221 0.07092582399991443 RLYVQYYHC 9 Unmodified _RLYVQYYHC_ 0 0 0 nc|ENSG00000172322|Q5QGZ9-4|CLEC12A;ENSG00000172322|ENST00000304361|CLEC12A;nc|ENSG00000172322|Q5QGZ9-1|CLEC12A nc|ENSG00000172322|Q5QGZ9-4|CLEC12A nc|ENSG00000172322|Q5QGZ9-4|CLEC12A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 415.5357360839844 3 415.534214 1243.58081 NaN NaN NaN NaN NaN NaN NaN 16.345 1 16.345 15.845 16.845 0 0 0 0 0.91342 1 7239 7239 0.26902 0 1 27706 4867 17925 17983 31222 31222 -0.031234096515618148 RLYWLYWQDWF 11 Unmodified _RLYWLYWQDWF_ 0 0 0 REV__nc|ENSG00000160145|O60229-2|KALRN REV__nc|ENSG00000160145|O60229-2|KALRN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 838.4058837890625 2 838.406444 1674.79833 NaN NaN NaN NaN NaN NaN NaN 37.413 1 37.413 36.913 37.913 0 0 0 0 1.0082 1 16977 16977 0 0 1 + 27707 17997 17926 17984 31223 31223 -0.012073161773287211 RLYYYWERDYR 11 Unmodified _RLYYYWERDYR_ 0 0 0 ENSG00000128394|ENST00000308521|APOBEC3F;nc|ENSG00000179750|Q9UH17-2|APOBEC3B;nc|ENSG00000179750|Q9UH17-3|APOBEC3B;ENSG00000179750|ENST00000333467|APOBEC3B ENSG00000128394|ENST00000308521|APOBEC3F;ENSG00000179750|ENST00000333467|APOBEC3B ENSG00000179750|ENST00000333467|APOBEC3B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.6063842773438 3 561.607318 1681.80012 NaN NaN NaN NaN NaN NaN NaN 97.363 1 97.363 96.863 97.863 0 0 0 0 1.0082 1 52978 52978 0 0 1 27708 2510;5228 17927 17985 31224 31224 -0.013503071593731875 RLYYYWERDYR 11 Unmodified _RLYYYWERDYR_ 0 0 0 ENSG00000128394|ENST00000308521|APOBEC3F;nc|ENSG00000179750|Q9UH17-2|APOBEC3B;nc|ENSG00000179750|Q9UH17-3|APOBEC3B;ENSG00000179750|ENST00000333467|APOBEC3B ENSG00000128394|ENST00000308521|APOBEC3F;ENSG00000179750|ENST00000333467|APOBEC3B ENSG00000179750|ENST00000333467|APOBEC3B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.6067504882812 3 561.607318 1681.80012 NaN NaN NaN NaN NaN NaN NaN 66.636 1 67.293 66.793 67.793 0.65672 0 0 0 1.0082 1 30548 30548 0 0 1 27709 2510;5228 17927 17985 31225 31225 -0.013503071593731875 RMAVQHLRSLK 11 Unmodified _RMAVQHLRSLK_ 0 0 0 nc|ENSG00000029153|Q8WYA1-9|BMAL2;nc|ENSG00000029153|Q8WYA1-6|BMAL2;nc|ENSG00000029153|Q8WYA1-8|BMAL2;nc|ENSG00000029153|Q8WYA1-7|BMAL2;nc|ENSG00000029153|Q8WYA1-4|BMAL2;nc|ENSG00000029153|Q8WYA1-3|BMAL2;nc|ENSG00000029153|Q8WYA1-5|BMAL2;nc|ENSG00000029153|Q8WYA1-2|BMAL2;ENSG00000029153|ENST00000266503|BMAL2 nc|ENSG00000029153|Q8WYA1-9|BMAL2 nc|ENSG00000029153|Q8WYA1-9|BMAL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 669.890380859375 2 669.89298 1337.77141 NaN NaN NaN NaN NaN NaN NaN 45.306 1 45.306 44.806 45.806 0 0 0 0 1.0061 1 20724 20724 2.7352 0.23671 1 27710 489 17928 17986 31226 31226 0.11603296730504553 RMELSIFY 8 Unmodified _RMELSIFY_ 0 0 0 nc|ENSG00000148408|Q00975-2|CACNA1B;ENSG00000148408|ENST00000371372|CACNA1B nc|ENSG00000148408|Q00975-2|CACNA1B nc|ENSG00000148408|Q00975-2|CACNA1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.7728881835938 2 529.770603 1057.52665 2.8676 0.0015192 0.33806 0.00017909 3.2057 0.0016983 529.7708313296056 32.743 0.50835 33.53 33.268 33.776 0.78795 62 34 2 0 0 0 0.7441 1 14737 14737 2.3027 0 1 438860 27711 3605 17929 17987 31227 31227 0.00018998196878783347 RMELSIFY 8 Unmodified _RMELSIFY_ 0 0 0 nc|ENSG00000148408|Q00975-2|CACNA1B;ENSG00000148408|ENST00000371372|CACNA1B nc|ENSG00000148408|Q00975-2|CACNA1B nc|ENSG00000148408|Q00975-2|CACNA1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.771484375 2 529.770603 1057.52665 3.1598 0.001674 0.55739 0.00029529 3.7172 0.0019693 529.7708942880704 32.973 0.59235 33.591 33.246 33.838 0.61831 52 29 2 0 0 0 0.7441 1 15194 15194 2.3027 0 1 345130 27712 3605 17929 17987 31228 31228 0.00018998196878783347 RMKKKKKKKK 10 Unmodified _RMKKKKKKKK_ 0 0 0 REV__ENST00000367558.5_1_1:182569199-182569457:-|nuORF REV__ENST00000367558.5_1_1:182569199-182569457:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 665.9630737304688 2 665.963209 1329.91186 NaN NaN NaN NaN NaN NaN NaN 108.36 1 108.4 107.9 108.9 0.04248 0 0 0 1.002 1 58512 58512 0 0 1 + 27713 15662 17930 17988 31229 31229 0.260105004547313 RMKKKVPVIG 10 Unmodified _RMKKKVPVIG_ 0 0 0 REV__ENST00000222547.7_1_7:93628507-93628591:-|nuORF REV__ENST00000222547.7_1_7:93628507-93628591:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.3765869140625 2 578.373361 1154.73217 NaN NaN NaN NaN NaN NaN NaN 48.415 1 48.415 47.915 48.915 0 0 0 0 1.0001 1 22171 22171 1.6526 0 1 + 27714 14828 17931 17989 31230 31230 0.160991964469531 RMKKRRKKWLF 11 Unmodified _RMKKRRKKWLF_ 0 0 0 REV__NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant REV__NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 788.9907836914062 2 788.990289 1575.96603 NaN NaN NaN NaN NaN NaN NaN 97.748 1 98.347 97.847 98.847 0.59885 0 0 0 1.0082 1 44965 44965 0 0 1 + 27715 18186 17932 17990 31231 31231 0.20108092606324135 RMKMFFWEYQR 11 Unmodified _RMKMFFWEYQR_ 0 0 0 REV__ENSG00000175874|ENST00000324768|CREG2 REV__ENSG00000175874|ENST00000324768|CREG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.3909912109375 2 811.391956 1620.76936 NaN NaN NaN NaN NaN NaN NaN 90.746 1 90.746 90.246 91.246 0 0 0 0 1.0082 1 47778 47778 0 0 1 + 27716 13682 17933 17991 31232 31232 -0.016195000695688577 RMKMFFWEYQR 11 Unmodified _RMKMFFWEYQR_ 0 0 0 REV__ENSG00000175874|ENST00000324768|CREG2 REV__ENSG00000175874|ENST00000324768|CREG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.4546508789062 2 811.391956 1620.76936 NaN NaN NaN NaN NaN NaN NaN 105.82 1 105.82 105.32 106.32 0 0 0 0 1.0082 1 58145 58145 0 0 1 + 27717 13682 17933 17991 31233 31233 -0.016195000695688577 RMKMFFWEYQR 11 Unmodified _RMKMFFWEYQR_ 0 0 0 REV__ENSG00000175874|ENST00000324768|CREG2 REV__ENSG00000175874|ENST00000324768|CREG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.3953857421875 2 811.391956 1620.76936 NaN NaN NaN NaN NaN NaN NaN 87.643 1 87.683 87.183 88.183 0.039955 0 0 0 1.0082 1 44429 44429 0 0 1 + 27718 13682 17933 17991 31234 31234 -0.016195000695688577 RMKMFFWEYQR 11 Unmodified _RMKMFFWEYQR_ 0 0 0 REV__ENSG00000175874|ENST00000324768|CREG2 REV__ENSG00000175874|ENST00000324768|CREG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.3961181640625 2 811.391956 1620.76936 NaN NaN NaN NaN NaN NaN NaN 92.15 1 92.233 91.733 92.733 0.082848 0 0 0 1.0082 1 47947 47947 0 0 1 + 27719 13682 17933 17991 31235 31235 -0.016195000695688577 RMKMFFWEYQR 11 Unmodified _RMKMFFWEYQR_ 0 0 0 REV__ENSG00000175874|ENST00000324768|CREG2 REV__ENSG00000175874|ENST00000324768|CREG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.3966064453125 2 811.391956 1620.76936 NaN NaN NaN NaN NaN NaN NaN 92.724 1 92.81 92.31 93.31 0.086212 0 0 0 1.0082 1 48411 48411 0 0 1 + 27720 13682 17933 17991 31236 31236 -0.016195000695688577 RMKMWIWPRYW 11 Unmodified _RMKMWIWPRYW_ 0 0 0 ENST00000446197.7_1_14:24584891-24586136:+|nuORF;ENST00000560901.5_1_14:24584114-24586206:+|nuORF;ENST00000559382.5_2_14:24584130-24586206:+|nuORF ENST00000446197.7_1_14:24584891-24586136:+|nuORF ENST00000446197.7_1_14:24584891-24586136:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 826.9357299804688 2 826.920684 1651.82681 NaN NaN NaN NaN NaN NaN NaN 99.627 1 99.689 99.189 100.19 0.062241 0 0 0 1.008 1 53895 53895 0.35063 0 1 27721 7972 17934 17992 31237 31237 0.02697386926638501 RMKRLALYI 9 Unmodified _RMKRLALYI_ 0 0 0 REV__nc|ENSG00000130159|Q9BQ95-4|ECSIT REV__nc|ENSG00000130159|Q9BQ95-4|ECSIT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.3569946289062 2 582.357711 1162.70087 NaN NaN NaN NaN NaN NaN NaN 11.911 1 12.548 12.048 13.048 0.63746 0 0 0 0.91238 1 5329 5329 0.52476 0.066424 1 + 27722 17932 17935 17993 31238 31238 0.12602623412863068 RMKSKWML 8 Unmodified _RMKSKWML_ 0 0 0 ENSG00000173545|ENST00000308683|ZNF622 ENSG00000173545|ENST00000308683|ZNF622 ENSG00000173545|ENST00000308683|ZNF622 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.5335693359375 3 360.533269 1078.57798 2.4992 0.00090104 0.41181 0.00014847 2.911 0.0010495 360.53341575993744 27.724 0.13071 27.986 27.902 28.033 0.26245 12 7 2 0 0 0 0.61796 1 12611 12611 13.906 9.7165 1 276760 27723 4937 17936 17994 31239 31239 0.04183043689954502 RMKSKWML 8 Unmodified _RMKSKWML_ 0 0 0 ENSG00000173545|ENST00000308683|ZNF622 ENSG00000173545|ENST00000308683|ZNF622 ENSG00000173545|ENST00000308683|ZNF622 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.53436279296875 3 360.533269 1078.57798 2.4338 0.00087747 0.33099 0.00011933 2.7648 0.0009968 360.5334391762302 27.278 0.20161 27.9 27.817 28.019 0.62178 19 12 2 0 0 0 0.61796 1 12513 12513 13.906 9.7165 1 199750 27724 4937 17936 17994 31240 31240 0.04183043689954502 RMKWRRPRRCT 11 Unmodified _RMKWRRPRRCT_ 0 0 0 ENST00000456235.1_1_17:20979036-20979165:+|nuORF ENST00000456235.1_1_17:20979036-20979165:+|nuORF ENST00000456235.1_1_17:20979036-20979165:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.957275390625 3 515.954112 1544.84051 NaN NaN NaN NaN NaN NaN NaN 67.339 1 67.339 66.839 67.839 0 0 0 0 1.0079 1 32278 32278 0.50596 0.09769 1 27725 8048 17937 17995 31241 31241 0.08988057478427436 RMLLRLCI 8 Unmodified _RMLLRLCI_ 0 0 0 REV__nc|ENSG00000163491|Q6ZWH5-3|NEK10 REV__nc|ENSG00000163491|Q6ZWH5-3|NEK10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.3080139160156 2 509.306632 1016.59871 3.533 0.0017994 -0.78924 -0.00040196 2.7437 0.0013974 509.3060528360534 87.605 0.82383 87.856 87.533 88.357 0.25065 63 34 3 0 0 0 0.7471 1 40366 40366 0.79363 0 1 1797500 + 27726 12992 17938 17996 31242 31242 0.09107634069584947 RMLVENLYRD 10 Unmodified _RMLVENLYRD_ 0 0 0 nc|ENSG00000186283|Q9H497-2|TOR3A;ENSG00000186283|ENST00000367627|TOR3A nc|ENSG00000186283|Q9H497-2|TOR3A nc|ENSG00000186283|Q9H497-2|TOR3A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.8946533203125 3 436.895812 1307.66561 NaN NaN NaN NaN NaN NaN NaN 9.7929 1 10.088 9.5885 10.588 0.2956 0 0 0 0.99995 1 4359 4359 1.7423 0.67081 1 27727 5562 17939 17997 31243 31243 0.024079160943756506 RMPRWYFLL 9 Unmodified _RMPRWYFLL_ 0 0 0 ENSG00000052802|ENST00000261507|MSMO1 ENSG00000052802|ENST00000261507|MSMO1 ENSG00000052802|ENST00000261507|MSMO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 427.90338134765625 3 427.902349 1280.68522 2.2177 0.00094895 0.43601 0.00018657 2.6537 0.0011355 427.90254281607434 75.841 0.31062 76.504 76.366 76.677 0.66349 37 25 2 0 0 0 0.086747 1 36728 36728 26.268 15.469 1 1004400 27728 594 17940 17998 31244 31244 0.0561033689582473 RMQQWKRAYSA 11 Unmodified _RMQQWKRAYSA_ 0 0 0 REV__ENSG00000145476|ENST00000378802|CYP4V2 REV__ENSG00000145476|ENST00000378802|CYP4V2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 475.57904052734375 3 475.578705 1423.71429 NaN NaN NaN NaN NaN NaN NaN 91.677 1 91.76 91.26 92.26 0.082848 0 0 0 1.0072 1 47573 47573 1.3296 0.11481 1 + 27729 12442 17941 17999 31245 31245 0.019378294541638752 RMRKRIMWRRY 11 Unmodified _RMRKRIMWRRY_ 0 0 0 REV__ENSG00000066279|ENST00000367409|ASPM REV__ENSG00000066279|ENST00000367409|ASPM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 826.7486572265625 2 826.466655 1650.91876 NaN NaN NaN NaN NaN NaN NaN 27.464 1 28.25 27.75 28.75 0.78627 0 0 0 1.0082 1 12349 12349 0 0 1 + 27730 10440 17942 18000 31246 31246 0.11933490063688623 RMRRRRRRRIK 11 Unmodified _RMRRRRRRRIK_ 0 0 0 REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 820.52978515625 2 820.526759 1639.03896 NaN NaN NaN NaN NaN NaN NaN 83.916 1 83.916 83.416 84.416 0 0 0 0 1.0082 1 42364 42364 0 0 1 + 27731 17761 17943 18001 31247 31247 0.2450065917230404 RMRRRRRRRIK 11 Unmodified _RMRRRRRRRIK_ 0 0 0 REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 820.5260620117188 2 820.526759 1639.03896 NaN NaN NaN NaN NaN NaN NaN 85.079 1 85.079 84.579 85.579 0 0 0 0 1.0082 1 43221 43221 0 0 1 + 27732 17761 17943 18001 31248 31248 0.2450065917230404 RMRRRRRRRIK 11 Unmodified _RMRRRRRRRIK_ 0 0 0 REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 820.5277709960938 2 820.526759 1639.03896 NaN NaN NaN NaN NaN NaN NaN 96.561 1 96.561 96.061 97.061 0 0 0 0 1.0082 1 52294 52294 0 0 1 + 27733 17761 17943 18001 31249 31249 0.2450065917230404 RMRRRRRRRIK 11 Unmodified _RMRRRRRRRIK_ 0 0 0 REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 820.530517578125 2 820.526759 1639.03896 NaN NaN NaN NaN NaN NaN NaN 86.365 1 86.395 85.895 86.895 0.030289 0 0 0 1.0082 1 43441 43441 0 0 1 + 27734 17761 17943 18001 31250 31250 0.2450065917230404 RMRRRRRRRIK 11 Unmodified _RMRRRRRRRIK_ 0 0 0 REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 820.5277709960938 2 820.526759 1639.03896 NaN NaN NaN NaN NaN NaN NaN 104.81 1 105.41 104.91 105.91 0.59885 0 0 0 1.0082 1 48414 48414 0 0 1 + 27735 17761 17943 18001 31251 31251 0.2450065917230404 RMTAQCYL 8 Unmodified _RMTAQCYL_ 0 0 0 REV__nc|ENSG00000099866|Q13477-4|MADCAM1 REV__nc|ENSG00000099866|Q13477-4|MADCAM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 329.1578674316406 3 329.157979 984.452107 NaN NaN NaN NaN NaN NaN NaN 61.426 1 61.426 60.926 61.926 0 0 0 0 0.99035 1 28649 28649 3.5965 1.7523 1 + 27736 10790 17944 18002 31252 31252 -0.04074087886158395 RMTFRERTERH 11 Unmodified _RMTFRERTERH_ 0 0 0 nc|ENSG00000187258|Q6W5P4-2|NPSR1;ENSG00000187258|ENST00000360581|NPSR1 nc|ENSG00000187258|Q6W5P4-2|NPSR1 nc|ENSG00000187258|Q6W5P4-2|NPSR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 759.8882446289062 2 759.888958 1517.76336 NaN NaN NaN NaN NaN NaN NaN 92.143 1 92.79 92.29 93.29 0.64714 0 0 0 1.0063 1 42396 42396 2.4985 1.169 1 27737 5612 17945 18003 31253 31253 0.02519117743077004 RMTKRRDR 8 Unmodified _RMTKRRDR_ 0 0 0 ENST00000446662.5_1_16:22466144-22470768:+|nuORF ENST00000446662.5_1_16:22466144-22470768:+|nuORF ENST00000446662.5_1_16:22466144-22470768:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 373.1947937011719 3 373.548969 1117.62508 2.988 0.0011162 1.833 0.0006847 4.821 0.0018009 373.5496028177831 12.55 0.089035 13.193 13.121 13.21 0.64272 6 2 3 0 0 0 0.14021 1 5630 5630 8.7454 4.3393 1 2304300 27738 7978 17946 18004 31254 31254 0.07097039285281426 RMTLRRGPGP 10 Unmodified _RMTLRRGPGP_ 0 0 0 ENST00000376259.6_1_1:12267092-12267179:+|nuORF ENST00000376259.6_1_1:12267092-12267179:+|nuORF ENST00000376259.6_1_1:12267092-12267179:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 380.8864440917969 3 380.88547 1139.63458 2.3178 0.00088283 0.68819 0.00026212 3.006 0.001145 380.88562400692376 63.296 0.6755 63.296 62.859 63.534 0 187 75 4 0 0 0 0.85706 1 29654 29654 3.0723 3.0723 1 11495000 27739 7397 17947 18005 31255 31255 0.07034807570812518 RMTLRRGPGP 10 Unmodified _RMTLRRGPGP_ 0 0 0 ENST00000376259.6_1_1:12267092-12267179:+|nuORF ENST00000376259.6_1_1:12267092-12267179:+|nuORF ENST00000376259.6_1_1:12267092-12267179:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.8865966796875 3 380.88547 1139.63458 2.6957 0.0010267 0.49477 0.00018845 3.1904 0.0012152 380.88557071688285 62.961 0.57253 63.21 62.798 63.37 0.24965 162 54 4 0 0 0 0.90196 2 28702 28702;28801 1.7423 0.67081 1 19691000 27740 7397 17947 18005 31256;31257 31256 0.07034807570812518 RMTLRRGPGP 10 Unmodified _RMTLRRGPGP_ 0 0 0 ENST00000376259.6_1_1:12267092-12267179:+|nuORF ENST00000376259.6_1_1:12267092-12267179:+|nuORF ENST00000376259.6_1_1:12267092-12267179:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.8864440917969 3 380.88547 1139.63458 2.5593 0.00097478 0.71083 0.00027074 3.2701 0.0012455 380.88562188140713 62.329 0.60105 62.989 62.597 63.198 0.66008 187 60 4 0 0 0 0.90196 2 28429 28429;28535 1.7423 1.7423 1 23376000 27741 7397 17947 18005 31258;31259 31258 0.07034807570812518 RMTPLRAL 8 Unmodified _RMTPLRAL_ 0 0 0 ENSG00000158748|ENST00000289753|HTR6 ENSG00000158748|ENST00000289753|HTR6 ENSG00000158748|ENST00000289753|HTR6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 320.1023864746094 3 319.860262 956.558955 2.2475 0.00071888 -1.2947 -0.00041412 0.9528 0.00030476 319.85964201780723 53.114 0.60389 53.114 52.757 53.361 0 57 36 2 0 0 0 0.14244 1 24364 24364 1.4819 0 1 549370 27742 3998 17948 18006 31260 31260 0.07893830390526091 RMTPLRAL 8 Unmodified _RMTPLRAL_ 0 0 0 ENSG00000158748|ENST00000289753|HTR6 ENSG00000158748|ENST00000289753|HTR6 ENSG00000158748|ENST00000289753|HTR6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 319.860262 956.558955 1.8321 0.00058601 -1.8596 -0.00059482 -0.027542 -8.8096E-06 319.8595307001575 52.027 0.50887 52.837 52.682 53.19 0.81066 -0.13836 -0.00025588 NaN 1.4819 54 37 2 NaN NaN NaN NaN 0 NaN NaN 0 485510 27743 3998 17948 18006 0.07893830390526091 RMTPTLPLK 9 Unmodified _RMTPTLPLK_ 0 0 0 ENST00000297788.8_2_7:128455827-128457854:+|nuORF ENST00000297788.8_2_7:128455827-128457854:+|nuORF ENST00000297788.8_2_7:128455827-128457854:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.87908935546875 3 352.879322 1055.61614 NaN NaN NaN NaN NaN NaN NaN 41.438 1 41.708 41.208 42.208 0.27021 0 0 0 0.89683 1 18877 18877 2.4985 0.75621 1 27744 6775 17949 18007 31261 31261 0.09055252876260056 RMTRWIYKIFR 11 Unmodified _RMTRWIYKIFR_ 0 0 0 L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|53|2|sense L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|53|2|sense L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|53|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 785.4420776367188 2 785.44538 1568.87621 NaN NaN NaN NaN NaN NaN NaN 72.189 1 72.893 72.393 73.393 0.70386 0 0 0 1.008 1 34727 34727 0.35063 0.081612 1 27745 9438 17950 18008 31262 31262 0.11452418207068149 RMTVHILL 8 Unmodified _RMTVHILL_ 0 0 0 REV__ENST00000557446.5_1_14:62188466-62188514:+|nuORF REV__ENST00000557446.5_1_14:62188466-62188514:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.2013244628906 3 328.200395 981.579357 2.3649 0.00077618 0.54171 0.00017779 2.9067 0.00095396 328.2009983637336 51.444 0.44849 51.444 51.149 51.598 0 59 22 4 0 0 0 0.7441 1 23558 23558 1.4819 0 1 5683000 + 27746 17334 17951 18009 31263 31263 0.08783001050358052 RMTVHILL 8 Unmodified _RMTVHILL_ 0 0 0 REV__ENST00000557446.5_1_14:62188466-62188514:+|nuORF REV__ENST00000557446.5_1_14:62188466-62188514:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.20068359375 3 328.200395 981.579357 2.1531 0.00070664 -0.53639 -0.00017604 1.6167 0.0005306 328.20038534323277 50.591 0.25159 51.409 51.268 51.519 0.81738 39 12 4 0 0 0 0.70799 1 23040 23040 3.5965 2.525 1 6276100 + 27747 17334 17951 18009 31264 31264 0.08783001050358052 RMTVHILL 8 Unmodified _RMTVHILL_ 0 0 0 REV__ENST00000557446.5_1_14:62188466-62188514:+|nuORF REV__ENST00000557446.5_1_14:62188466-62188514:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 328.200395 981.579357 2.1531 0.00070664 -0.53639 -0.00017604 1.6167 0.0005306 328.20038534323277 50.591 0.25159 51.409 51.268 51.519 0.81738 -0.017541 -0.0004663 NaN 3.5965 39 12 4 NaN NaN NaN NaN 0 NaN NaN 0 6276100 + 27748 17334 17951 18009 0.08783001050358052 RMTVVVLKARH 11 Unmodified _RMTVVVLKARH_ 0 0 0 ENSG00000132718|ENST00000368324|SYT11 ENSG00000132718|ENST00000368324|SYT11 ENSG00000132718|ENST00000368324|SYT11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.20361328125 4 328.202588 1308.78124 2.3124 0.00075895 0.58612 0.00019236 2.8986 0.00095132 328.20269904399976 48.44 1.4679 49.267 48.785 50.253 0.82705 263 76 5 0 0 0 0.89988 3 22139 22086;22139;22234 2.4348 0.18206 1 13119000 27749 2723 17952 18010 31265;31266;31267 31266 0.13920484735899663 RMTVVVLKARH 11 Unmodified _RMTVVVLKARH_ 0 0 0 ENSG00000132718|ENST00000368324|SYT11 ENSG00000132718|ENST00000368324|SYT11 ENSG00000132718|ENST00000368324|SYT11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.6031494140625 3 437.267691 1308.78124 2.9858 0.0013056 0.63608 0.00027814 3.6218 0.0015837 437.2678601822451 48.913 1.0703 49.175 48.816 49.886 0.26209 142 40 4 0 0 0 0.89988 1 22305 22305 2.4348 1.1051 1 8824200 27750 2723 17952 18010 31268 31268 0.13920484735899663 RMTVVVLKARH 11 Unmodified _RMTVVVLKARH_ 0 0 0 ENSG00000132718|ENST00000368324|SYT11 ENSG00000132718|ENST00000368324|SYT11 ENSG00000132718|ENST00000368324|SYT11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.2034606933594 4 328.202588 1308.78124 2.4801 0.00081397 0.81803 0.00026848 3.2981 0.0010824 328.20279938228975 48.948 1.5755 49.21 48.816 50.391 0.26209 204 61 5 0 0 0 0.89988 1 22396 22396 2.4348 1.325 1 25525000 27751 2723 17952 18010 31269 31269 0.13920484735899663 RMTVVVLKARH 11 Unmodified _RMTVVVLKARH_ 0 0 0 ENSG00000132718|ENST00000368324|SYT11 ENSG00000132718|ENST00000368324|SYT11 ENSG00000132718|ENST00000368324|SYT11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.2013854980469 4 328.202588 1308.78124 2.0858 0.00068458 -0.90717 -0.00029774 1.1787 0.00038684 328.2016474708265 50.799 1.6248 51.459 50.835 52.46 0.65956 224 94 5 0 0 0 0.89988 1 23087 23087 2.4348 1.4212 1 22213000 27752 2723 17952 18010 31270 31270 0.13920484735899663 RMWGLWLV 8 Unmodified _RMWGLWLV_ 0 0 0 ENST00000518462.1_1_7:150066562-150066703:+|nuORF ENST00000518462.1_1_7:150066562-150066703:+|nuORF ENST00000518462.1_1_7:150066562-150066703:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.7919311523438 2 530.791672 1059.56879 NaN NaN NaN NaN NaN NaN NaN 39.666 1 40.466 39.966 40.966 0.80014 0 0 0 0.99035 1 17958 17958 2.5775 0 1 27753 8607 17953 18011 31271 31271 0.041390183959265414 RMWRVRWRYCQ 11 Unmodified _RMWRVRWRYCQ_ 0 0 0 ENSG00000184345|ENST00000333127|IQCF2 ENSG00000184345|ENST00000333127|IQCF2 ENSG00000184345|ENST00000333127|IQCF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 820.4152221679688 2 820.414088 1638.81362 NaN NaN NaN NaN NaN NaN NaN 94.508 1 94.594 94.094 95.094 0.086212 0 0 0 1.0082 1 49737 49737 0 0 1 27754 5433 17954 18012 31272 31272 0.019769488672636726 RMYFEMEQI 9 Unmodified _RMYFEMEQI_ 0 0 0 REV__nc|ENSG00000159714|Q8WTX9|ZDHHC1 REV__nc|ENSG00000159714|Q8WTX9|ZDHHC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 416.19256591796875 3 416.191348 1245.55222 2.7964 0.0011639 0.080915 3.3676E-05 2.8774 0.0011975 416.1915707105993 32.443 0.33852 32.443 32.326 32.664 0 37 22 2 0 0 0 1.0601 1 14749 14749 2.9952 0 1 424560 + 27755 17996 17955 18013 31273 31273 -0.06073895343001823 RNARPRGR 8 Unmodified _RNARPRGR_ 0 0 0 ENST00000496793.1_1_9:140513165-140513324:-|nuORF ENST00000496793.1_1_9:140513165-140513324:-|nuORF ENST00000496793.1_1_9:140513165-140513324:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.79388427734375 2 491.791915 981.569278 3.6138 0.0017772 0.077827 3.8275E-05 3.6916 0.0018155 491.79184320790546 90.962 0.44604 91.213 90.977 91.423 0.25163 54 24 4 0 0 0 0.7441 1 41862 41862 2.3027 0 1 3260300 27756 8450 17956 18014 31274 31274 0.07775574159984444 RNAVLIHF 8 Unmodified _RNAVLIHF_ 0 0 0 REV__TOM1L2|p.I140Yfs*5|1|0.26|ENSG00000175662|chr17:17884717-17884717|T/-|frameshift_variant REV__TOM1L2|p.I140Yfs*5|1|0.26|ENSG00000175662|chr17:17884717-17884717|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2899169921875 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 56.629 1 56.894 56.394 57.394 0.26543 0 0 0 0.99035 1 25909 25909 6.3541 0 1 + 27757 13675 17957 18015 31275 31275 0.07004903608174118 RNCSLNPQKR 10 Unmodified _RNCSLNPQKR_ 0 0 0 REV__ENST00000367071.4_1_21:48019160-48019283:-|nuORF REV__ENST00000367071.4_1_21:48019160-48019283:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.885498046875 3 405.884017 1214.63022 2.72 0.001104 0.78377 0.00031812 3.5038 0.0014221 405.88421755762056 72.222 0.4539 72.481 72.181 72.635 0.25876 112 42 3 0 0 0 0.90196 1 33094 33094 1.7423 0.78 1 2100000 + 27758 15647 17958 18016 31276 31276 0.03149298357243424 RNERKTIKIK 10 Unmodified _RNERKTIKIK_ 0 0 0 REV__ENST00000469553.6_1_1:174927262-174959135:+|nuORF REV__ENST00000469553.6_1_1:174927262-174959135:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 643.4080810546875 2 643.406778 1284.799 NaN NaN NaN NaN NaN NaN NaN 108.6 1 108.91 108.41 109.41 0.31168 0 0 0 1.0015 1 50078 50078 0.45834 0.057624 1 + 27759 16581 17959 18017 31277 31277 0.16799523262397997 RNFKTKTKTK 10 Unmodified _RNFKTKTKTK_ 0 0 0 ENST00000233813.4_1_2:217559507-217559828:-|nuORF ENST00000233813.4_1_2:217559507-217559828:-|nuORF ENST00000233813.4_1_2:217559507-217559828:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 417.9228820800781 3 417.922578 1250.7459 1.4432 0.00060314 -0.60507 -0.00025287 0.83813 0.00035027 417.92226247138774 100.31 0.10814 100.37 100.32 100.43 0.059723 15 7 3 0 0 0 0.94246 1 54412 54412 0.13989 0.017027 1 11466000 27760 6452 17960 18018 31278 31278 0.13056145479754377 RNFLWMNI 8 Unmodified _RNFLWMNI_ 0 0 0 REV__nc|ENSG00000130396|P55196-2|AFDN REV__nc|ENSG00000130396|P55196-2|AFDN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.28466796875 2 547.284211 1092.55387 NaN NaN NaN NaN NaN NaN NaN 48.92 1 49.747 49.247 50.247 0.82705 0 0 0 0.99035 1 22287 22287 5.7604 0 1 + 27761 11815 17961 18019 31279 31279 0.011295265279159139 RNGKPKVI 8 Unmodified _RNGKPKVI_ 0 0 0 ENSG00000075539|ENST00000358350|FRYL;FRYL|p.E2601Dfs*12|1|0.03|ENSG00000075539|chr4:48515162-48515163|-/TACTTTCA|frameshift_variant ENSG00000075539|ENST00000358350|FRYL ENSG00000075539|ENST00000358350|FRYL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.2962646484375 2 456.292894 910.571235 3.1743 0.0014484 0.96874 0.00044203 4.143 0.0018904 456.29332775349206 101.81 0.31787 102.41 102.24 102.56 0.59717 20 13 3 0 0 0 0.7471 1 47186 47186 0.69038 0 1 221060 27762 830 17962 18020 31280 31280 0.11237190125223151 RNGRFHYRFRK 11 Unmodified _RNGRFHYRFRK_ 0 0 0 REV__ENSG00000135249|ENST00000257700|RINT1 REV__ENSG00000135249|ENST00000257700|RINT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 768.9213256835938 2 768.923992 1535.83343 NaN NaN NaN NaN NaN NaN NaN 51.405 1 52.064 51.564 52.564 0.65956 0 0 0 1.008 1 23508 23508 0.30703 0 1 + 27763 12006 17963 18021 31281 31281 0.08694784193835403 RNHYRRYPRRR 11 Unmodified _RNHYRRYPRRR_ 0 0 0 ENSG00000065978|ENST00000321358|YBX1 ENSG00000065978|ENST00000321358|YBX1 ENSG00000065978|ENST00000321358|YBX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 815.45556640625 2 815.456522 1628.89849 NaN NaN NaN NaN NaN NaN NaN 75.831 1 76.494 75.994 76.994 0.66387 0 0 0 1.0082 1 34942 34942 0 0 1 27764 698 17964 18022 31282 31282 0.10919778719699025 RNIKKKGI 8 Unmodified _RNIKKKGI_ 0 0 0 nc|ENSG00000108370|O75916-3|RGS9;ENST00000581175.5_1_17:63133658-63206777:+|nuORF;nc|ENSG00000108370|O75916-5|RGS9;nc|ENSG00000108370|O75916-2|RGS9;ENSG00000108370|ENST00000262406|RGS9 nc|ENSG00000108370|O75916-3|RGS9 nc|ENSG00000108370|O75916-3|RGS9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.82525634765625 2 478.821818 955.629084 NaN NaN NaN NaN NaN NaN NaN 38.529 1 38.529 38.029 39.029 0 0 0 0 0.99035 1 17487 17487 2.8892 0 1 27765 9150 17965 18023 31283 31283 0.14949452050655054 RNILQRRRRRK 11 Unmodified _RNILQRRRRRK_ 0 0 0 ENST00000380888.4_1_20:29521812-29522016:-|nuORF ENST00000380888.4_1_20:29521812-29522016:-|nuORF ENST00000380888.4_1_20:29521812-29522016:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.0033569335938 3 518.001219 1550.98183 NaN NaN NaN NaN NaN NaN NaN 94.738 1 94.738 94.238 95.238 0 0 0 0 1.0082 1 50894 50894 0.094841 0.094841 1 27766 7475 17966 18024 31284 31284 0.22837515167543643 RNILQRRRRRK 11 Unmodified _RNILQRRRRRK_ 0 0 0 ENST00000380888.4_1_20:29521812-29522016:-|nuORF ENST00000380888.4_1_20:29521812-29522016:-|nuORF ENST00000380888.4_1_20:29521812-29522016:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 388.7540283203125 4 388.752733 1550.98183 3.0114 0.0011707 -0.043423 -1.6881E-05 2.968 0.0011538 389.0035220609713 40.076 0.32421 40.343 40.255 40.579 0.26696 30 13 3 0 0 0 0.91489 1 18290 18290 0 0 1 1728200 27767 7475 17966 18024 31285 31285 0.22837515167543643 RNIRLLGRRPT 11 Unmodified _RNIRLLGRRPT_ 0 0 0 ENSG00000162670|ENST00000367462|BRINP3 ENSG00000162670|ENST00000367462|BRINP3 ENSG00000162670|ENST00000367462|BRINP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.28558349609375 3 451.284621 1350.83203 NaN NaN NaN NaN NaN NaN NaN 68.38 1 68.632 68.132 69.132 0.25227 0 0 0 1.0073 1 31325 31325 1.2148 0 1 27768 4156 17967 18025 31286 31286 0.17065150105099747 RNKIKEKI 8 Unmodified _RNKIKEKI_ 0 0 0 REV__ENSG00000243955|ENST00000334575|GSTA1 REV__ENSG00000243955|ENST00000334575|GSTA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.55804443359375 3 343.557348 1027.65021 1.8726 0.00064334 0.33221 0.00011413 2.2048 0.00075747 343.55745695957694 12.926 0.18097 13.233 13.159 13.34 0.30727 11 6 2 0 0 0 0.70799 1 5860 5860 3.5965 1.098 1 393110 + 27769 14634 17968 18026 31287 31287 0.13749417359508698 RNKIKEKI 8 Unmodified _RNKIKEKI_ 0 0 0 REV__ENSG00000243955|ENST00000334575|GSTA1 REV__ENSG00000243955|ENST00000334575|GSTA1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 343.557348 1027.65021 1.8726 0.00064334 0.33221 0.00011413 2.2048 0.00075747 343.55745695957694 12.926 0.18097 13.233 13.159 13.34 0.30727 -0.081626 -0.00021069 NaN 3.5965 11 6 2 NaN NaN NaN NaN 0 NaN NaN 0 393110 + 27770 14634 17968 18026 0.13749417359508698 RNKIKEKI 8 Unmodified _RNKIKEKI_ 0 0 0 REV__ENSG00000243955|ENST00000334575|GSTA1 REV__ENSG00000243955|ENST00000334575|GSTA1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 343.557348 1027.65021 2.6488 0.00091001 1.1403 0.00039174 3.7891 0.0013018 343.5576713984009 12.753 0.13525 13.396 13.311 13.446 0.64272 0.081626 0.00062215 NaN 3.5965 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 557030 + 27771 14634 17968 18026 0.13749417359508698 RNKKRCRVL 9 Unmodified _RNKKRCRVL_ 0 0 0 nc|ENSG00000012124|P20273-4|CD22 nc|ENSG00000012124|P20273-4|CD22 nc|ENSG00000012124|P20273-4|CD22 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.8595581054688 2 586.861483 1171.70841 NaN NaN NaN NaN NaN NaN NaN 63.784 1 64.032 63.532 64.532 0.24803 0 0 0 0.90611 1 29213 29213 2.0598 0.21551 1 27772 9537 17969 18027 31288 31288 0.12942775733131384 RNKLKYLA 8 Unmodified _RNKLKYLA_ 0 0 0 ENSG00000142541|ENST00000391857|RPL13A;ENST00000472481.5_1_19:49990877-49994169:+|nuORF ENSG00000142541|ENST00000391857|RPL13A ENSG00000142541|ENST00000391857|RPL13A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.8791198730469 3 335.87831 1004.6131 NaN NaN NaN NaN NaN NaN NaN 13.488 1 13.795 13.295 14.295 0.30727 0 0 0 0.99035 1 6085 6085 6.2058 2.9245 1 27773 3315 17970 18028 31289 31289 0.11097745813754045 RNKRIGWLW 9 Unmodified _RNKRIGWLW_ 0 0 0 REV__SPDEF|p.R289W|1|0.34|ENSG00000124664|chr6:34538417-34538417|G/A|missense_variant REV__SPDEF|p.R289W|1|0.34|ENSG00000124664|chr6:34538417-34538417|G/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 614.8577270507812 2 614.856724 1227.69889 NaN NaN NaN NaN NaN NaN NaN 6.1824 1 6.5351 6.0351 7.0351 0.35278 0 0 0 0.91238 1 2798 2798 0.52476 0.066424 1 + 27774 18216 17971 18029 31290 31290 0.09415330719252779 RNKRIGWLW 9 Unmodified _RNKRIGWLW_ 0 0 0 REV__SPDEF|p.R289W|1|0.34|ENSG00000124664|chr6:34538417-34538417|G/A|missense_variant REV__SPDEF|p.R289W|1|0.34|ENSG00000124664|chr6:34538417-34538417|G/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 614.856689453125 2 614.856724 1227.69889 NaN NaN NaN NaN NaN NaN NaN 10 1 10.296 9.796 10.796 0.2956 0 0 0 0.91238 1 4426 4426 0.52476 0 1 + 27775 18216 17971 18029 31291 31291 0.09415330719252779 RNLLNLHQTL 10 Unmodified _RNLLNLHQTL_ 0 0 0 REV__ENST00000394287.7_1_17:37561254-37561491:-|nuORF REV__ENST00000394287.7_1_17:37561254-37561491:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.3591918945312 2 611.356754 1220.69895 3.7387 0.0022857 -0.87132 -0.00053269 2.8674 0.001753 611.3561401813841 90.557 0.7998 91.229 91.062 91.862 0.67271 80 41 2 0 0 0 0.93628 1 41925 41925 1.6526 0 1 2189400 + 27776 15964 17972 18030 31292 31292 0.09743285928584555 RNLWPLRLI 9 Unmodified _RNLWPLRLI_ 0 0 0 REV__nc|ENSG00000085721|Q9NYV6-2|RRN3 REV__nc|ENSG00000085721|Q9NYV6-2|RRN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 590.8694458007812 2 590.8693 1179.72405 NaN NaN NaN NaN NaN NaN NaN 103 1 103.32 102.82 103.82 0.31863 0 0 0 0.91238 1 47633 47633 0.52476 0 1 + 27777 10650 17973 18031 31293 31293 0.14137385521826218 RNNRNKRNRQN 11 Unmodified _RNNRNKRNRQN_ 0 0 0 ENSG00000214753|ENST00000301785|HNRNPUL2 ENSG00000214753|ENST00000301785|HNRNPUL2 ENSG00000214753|ENST00000301785|HNRNPUL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 735.4035034179688 2 735.39887 1468.78319 NaN NaN NaN NaN NaN NaN NaN 56.843 1 56.843 56.343 57.343 0 0 0 0 1.0041 1 26177 26177 5.2969 1.7004 1 27778 6118 17974 18032 31294 31294 0.06754629798092537 RNQEYGRSM 9 Unmodified _RNQEYGRSM_ 0 0 0 ENST00000451054.1_1_1:999930-1001379:+|nuORF ENST00000451054.1_1_1:999930-1001379:+|nuORF ENST00000451054.1_1_1:999930-1001379:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.2324523925781 3 380.84534 1139.51419 2.8673 0.001092 -1.9233 -0.00073248 0.94398 0.00035951 380.84472747925776 12.901 0.084224 12.901 12.833 12.917 0 4 2 2 0 0 0 0.11065 1 5615 5615 4.897 0.95262 1 157860 27779 8015 17975 18033 31295 31295 -0.049986452134589854 RNQPYWFWFLY 11 Unmodified _RNQPYWFWFLY_ 0 0 0 ENST00000228506.7_1_12:121134380-121134431:+|nuORF ENST00000228506.7_1_12:121134380-121134431:+|nuORF ENST00000228506.7_1_12:121134380-121134431:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 810.395751953125 2 810.393336 1618.77212 3.8115 0.0030888 0.069832 5.6591E-05 3.8813 0.0031454 810.393549791256 33.399 0.22731 34.019 33.88 34.107 0.62031 20 9 3 0 0 0 0.91378 1 15304 15304 0.35063 0.35063 1 538750 27780 6434 17976 18034 31296 31296 -0.01251585348768458 RNQRRRRKKKR 11 Unmodified _RNQRRRRKKKR_ 0 0 0 ENST00000361428.2_3_6:43308074-43308122:-|nuORF ENST00000361428.2_3_6:43308074-43308122:-|nuORF ENST00000361428.2_3_6:43308074-43308122:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 791.509765625 2 791.509089 1581.00362 NaN NaN NaN NaN NaN NaN NaN 99.814 1 99.876 99.376 100.38 0.062241 0 0 0 1.0082 1 54034 54034 0 0 1 27781 7224 17977 18035 31297 31297 0.2363631991611328 RNQRRYRQRRK 11 Unmodified _RNQRRYRQRRK_ 0 0 0 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000140575|ENST00000268182|IQGAP1 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 808.974365234375 2 808.975079 1615.9356 NaN NaN NaN NaN NaN NaN NaN 103.56 1 103.88 103.38 104.38 0.31863 0 0 0 1.0082 1 47873 47873 0 0 1 27782 3209 17978 18036 31298 31298 0.15227450265456355 RNRARNRWRL 10 Unmodified _RNRARNRWRL_ 0 0 0 REV__nc|ENSG00000223806|Q6XXX2|LINC00114 REV__nc|ENSG00000223806|Q6XXX2|LINC00114 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 699.4110717773438 2 699.408509 1396.80247 4.5045 0.0031505 -0.020365 -1.4244E-05 4.4841 0.0031362 699.408337014271 95.049 1.0921 95.316 94.733 95.825 0.2675 119 66 3 0 0 0 0.94246 1 43705 43705 0.40072 0 1 982990 + 27783 18136 17979 18037 31299 31299 0.11993630879624106 RNRFSLVPHN 10 Unmodified _RNRFSLVPHN_ 0 0 0 nc|ENSG00000136830|Q96TA1-2|NIBAN2;ENSG00000136830|ENST00000373312|NIBAN2 nc|ENSG00000136830|Q96TA1-2|NIBAN2 nc|ENSG00000136830|Q96TA1-2|NIBAN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.8962707519531 3 413.895022 1238.66324 2.3918 0.00098997 0.21461 8.8827E-05 2.6064 0.0010788 413.8951373056682 13.101 0.21723 13.408 13.301 13.518 0.30727 29 11 3 0 0 0 0.85706 1 5941 5941 3.0723 0 1 355110 27784 2979 17980 18038 31300 31300 0.05345248471621744 RNRHPVLI 8 Unmodified _RNRHPVLI_ 0 0 0 REV__ENST00000460321.5_1_3:118935188-118955715:-|nuORF REV__ENST00000460321.5_1_3:118935188-118955715:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.3088684082031 2 502.809242 1003.60393 3.3003 0.0016594 -2.1971 -0.0011047 1.1032 0.00055471 503.30729076575665 57.427 0.59293 58.095 58.009 58.602 0.66829 58 38 2 0 0 0 0.42655 2 26303 26303;26348 26.341 3.1929 1 1623800 + 27785 11560 17981 18039 31301;31302 31301 0.10227397248081616 RNRKAGAP 8 Unmodified _RNRKAGAP_ 0 0 0 REV__nc|ENSG00000183629|P0DX52-2|GOLGA8F REV__nc|ENSG00000183629|P0DX52-2|GOLGA8F MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.7810363769531 2 435.256843 868.499132 NaN NaN NaN NaN NaN NaN NaN 72.379 1 72.379 71.879 72.879 0 0 0 0 0.99035 1 35208 35208 2.5775 0.27475 1 + 27786 12682 17982 18040 31303 31303 0.05962275771514669 RNRLKYAL 8 Unmodified _RNRLKYAL_ 0 0 0 ENST00000419038.2_1_2:63870904-63871126:-|nuORF;ENST00000486733.2_1_X:71494866-71496063:-|nuORF;ENST00000373626.4_1_X:71494279-71497060:-|nuORF;ENSG00000280969|ENST00000629237|RPS4Y2;ENSG00000198034|ENST00000316084|RPS4X;ENSG00000129824|ENST00000250784|RPS4Y1 ENST00000419038.2_1_2:63870904-63871126:-|nuORF ENST00000419038.2_1_2:63870904-63871126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.2143249511719 3 345.213692 1032.61925 2.5229 0.00087093 -0.6082 -0.00020996 1.9147 0.00066097 345.2135184608459 19.309 0.17907 19.309 19.227 19.406 0 49 32 2 0 0 0 0.062889 2 8583 8583;8627 61.357 39.957 1 10454000 27787 2564 17983 18041 31304;31305 31304 0.10424264045263953 RNRLKYAL 8 Unmodified _RNRLKYAL_ 0 0 0 ENST00000419038.2_1_2:63870904-63871126:-|nuORF;ENST00000486733.2_1_X:71494866-71496063:-|nuORF;ENST00000373626.4_1_X:71494279-71497060:-|nuORF;ENSG00000280969|ENST00000629237|RPS4Y2;ENSG00000198034|ENST00000316084|RPS4X;ENSG00000129824|ENST00000250784|RPS4Y1 ENST00000419038.2_1_2:63870904-63871126:-|nuORF ENST00000419038.2_1_2:63870904-63871126:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 345.21435546875 3 345.213692 1032.61925 NaN NaN NaN NaN NaN NaN NaN 18.436 1 18.65 18.15 19.15 0.21445 0 0 0 0.10928 1 8185 8185 52.268 29.61 1 27788 2564 17983 18041 31306 31306 0.10424264045263953 RNRLKYAL 8 Unmodified _RNRLKYAL_ 0 0 0 ENST00000419038.2_1_2:63870904-63871126:-|nuORF;ENST00000486733.2_1_X:71494866-71496063:-|nuORF;ENST00000373626.4_1_X:71494279-71497060:-|nuORF;ENSG00000280969|ENST00000629237|RPS4Y2;ENSG00000198034|ENST00000316084|RPS4X;ENSG00000129824|ENST00000250784|RPS4Y1 ENST00000419038.2_1_2:63870904-63871126:-|nuORF ENST00000419038.2_1_2:63870904-63871126:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 345.54833984375 3 345.213692 1032.61925 2.1199 0.00073183 -0.061185 -2.1122E-05 2.0587 0.0007107 345.21375101104337 18.359 0.11566 18.56 18.516 18.631 0.20057 29 21 2 0 0 0 0.055392 1 8141 8141 37.974 15.238 1 8862500 27789 2564 17983 18041 31307 31307 0.10424264045263953 RNRLKYAL 8 Unmodified _RNRLKYAL_ 0 0 0 ENST00000419038.2_1_2:63870904-63871126:-|nuORF;ENST00000486733.2_1_X:71494866-71496063:-|nuORF;ENST00000373626.4_1_X:71494279-71497060:-|nuORF;ENSG00000280969|ENST00000629237|RPS4Y2;ENSG00000198034|ENST00000316084|RPS4X;ENSG00000129824|ENST00000250784|RPS4Y1 ENST00000419038.2_1_2:63870904-63871126:-|nuORF ENST00000419038.2_1_2:63870904-63871126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.2143249511719 3 345.213692 1032.61925 2.3089 0.00079707 0.01525 5.2644E-06 2.3242 0.00080234 345.2137529165063 18.147 0.50245 18.448 18.187 18.689 0.30158 159 50 4 0 0 0 0.062889 4 8187 8145;8187;8232;8278 61.357 33.729 1 9544900 27790 2564 17983 18041 31308;31309;31310;31311 31309 0.10424264045263953 RNRLKYAL 8 Unmodified _RNRLKYAL_ 0 0 0 ENST00000419038.2_1_2:63870904-63871126:-|nuORF;ENST00000486733.2_1_X:71494866-71496063:-|nuORF;ENST00000373626.4_1_X:71494279-71497060:-|nuORF;ENSG00000280969|ENST00000629237|RPS4Y2;ENSG00000198034|ENST00000316084|RPS4X;ENSG00000129824|ENST00000250784|RPS4Y1 ENST00000419038.2_1_2:63870904-63871126:-|nuORF ENST00000419038.2_1_2:63870904-63871126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.2145080566406 3 345.213692 1032.61925 2.4295 0.0008387 -0.057832 -1.9964E-05 2.3717 0.00081874 345.21366794949654 17.909 0.32125 18.569 18.407 18.728 0.66072 118 44 3 0 0 0 0.062889 4 8071 8029;8071;8116;8158 61.357 38.621 1 15338000 27791 2564 17983 18041 31312;31313;31314;31315 31313 0.10424264045263953 RNRLKYAL 8 Unmodified _RNRLKYAL_ 0 0 0 ENST00000419038.2_1_2:63870904-63871126:-|nuORF;ENST00000486733.2_1_X:71494866-71496063:-|nuORF;ENST00000373626.4_1_X:71494279-71497060:-|nuORF;ENSG00000280969|ENST00000629237|RPS4Y2;ENSG00000198034|ENST00000316084|RPS4X;ENSG00000129824|ENST00000250784|RPS4Y1 ENST00000419038.2_1_2:63870904-63871126:-|nuORF ENST00000419038.2_1_2:63870904-63871126:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.31787109375 2 517.3169 1032.61925 3.447 0.0017832 -0.39615 -0.00020494 3.0508 0.0015782 517.3166771854031 17.907 0.25587 18.567 18.433 18.689 0.66072 77 32 3 0 0 0 0.062889 2 8094 8094;8135 53.576 28.902 1 2353200 27792 2564 17983 18041 31316;31317 31316 0.10424264045263953 RNRRFFHDFRK 11 Unmodified _RNRRFFHDFRK_ 0 0 0 ENSG00000196131|ENST00000341702|VN1R2 ENSG00000196131|ENST00000341702|VN1R2 ENSG00000196131|ENST00000341702|VN1R2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 789.9284057617188 2 789.929274 1577.844 NaN NaN NaN NaN NaN NaN NaN 32.937 1 32.937 32.437 33.437 0 0 0 0 1.008 1 14918 14918 0.30703 0 1 27793 5721 17984 18042 31318 31318 0.07818766848299674 RNRRLHLTRRP 11 Unmodified _RNRRLHLTRRP_ 0 0 0 REV__ENSG00000166813|ENST00000394412|KIF7 REV__ENSG00000166813|ENST00000394412|KIF7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.3044738769531 3 492.302786 1473.88653 3.4168 0.0016821 0.18875 9.2922E-05 3.6056 0.001775 492.30270827072576 100.17 0.15035 100.77 100.71 100.86 0.59717 10 5 3 0 0 0 0.91462 1 46381 46381 0.08335 0 1 1928600 + 27794 13261 17985 18043 31319 31319 0.1685416197651648 RNRRSKYYYYY 11 Unmodified _RNRRSKYYYYY_ 0 0 0 REV__nc|ENSG00000146414|Q149N8-2|SHPRH REV__nc|ENSG00000146414|Q149N8-2|SHPRH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 816.9132690429688 2 816.407506 1630.80046 3.7569 0.0030672 0.72224 0.00058964 4.4791 0.0036568 816.40814180098 56.545 0.28578 56.545 56.417 56.703 0 51 22 3 0 0 0 0.91489 2 26038 26038;26094 0 0 1 4626700 + 27795 12475 17986 18044 31320;31321 31320 0.01029112560536305 RNSRFLLL 8 Unmodified _RNSRFLLL_ 0 0 0 REV__nc|ENSG00000134376|P82279-5|CRB1 REV__nc|ENSG00000134376|P82279-5|CRB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 340.2106018066406 3 340.210059 1017.60835 2.4315 0.00082721 -0.72141 -0.00024543 1.7101 0.00058178 340.20980846834146 14.57 0.20189 15.218 15.115 15.317 0.64819 48 23 3 0 0 0 0.5438 1 6567 6567 13.906 0 1 920890 + 27796 11964 17987 18045 31322 31322 0.10024861670990504 RNSRFLLL 8 Unmodified _RNSRFLLL_ 0 0 0 REV__nc|ENSG00000134376|P82279-5|CRB1 REV__nc|ENSG00000134376|P82279-5|CRB1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 340.210059 1017.60835 2.2313 0.0007591 -1.5407 -0.00052417 0.69056 0.00023493 340.2098048278472 14.565 0.29338 14.872 14.752 15.045 0.3069 -0.17292 -0.00044931 NaN 13.906 56 21 3 NaN NaN NaN NaN 0 NaN NaN 0 876200 + 27797 11964 17987 18045 0.10024861670990504 RNTFPRWRRRQ 11 Unmodified _RNTFPRWRRRQ_ 0 0 0 ENST00000482831.1_1_2:230450711-230451461:-|nuORF ENST00000482831.1_1_2:230450711-230451461:-|nuORF ENST00000482831.1_1_2:230450711-230451461:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.9639282226562 3 524.962541 1571.86579 4.1807 0.0021947 -2.1073 -0.0011062 2.0734 0.0010885 524.9616226562166 106.04 0.14253 106.36 106.27 106.41 0.31628 18 5 4 0 0 0 0.91459 1 48951 48951 0.094841 0.094841 1 1265300 27798 8306 17988 18046 31323 31323 0.10273571596849251 RNTIQITVT 9 Unmodified _RNTIQITVT_ 0 0 0 nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1;ENSG00000108175|ENST00000334512|ZMIZ1;ENST00000463056.5_1_7:44799906-44807219:+|nuORF;nc|ENSG00000122515|Q8NF64-3|ZMIZ2;nc|ENSG00000122515|Q8NF64-2|ZMIZ2;ENSG00000122515|ENST00000309315|ZMIZ2;ENST00000480964.5_1_7:44801441-44805210:+|nuORF;ENST00000478045.5_1_7:44801192-44807219:+|nuORF nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1 nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.3049926757812 2 523.303655 1044.59276 3.1749 0.0016614 0.49552 0.00025931 3.6704 0.0019207 523.3038771301912 81.305 1.8213 81.553 80.719 82.541 0.24803 235 115 3 0 0 0 1.0755 1 37596 37596 2.7352 0 1 2183000 27799 1623 17989 18047 31324 31324 0.07224530363282611 RNTIQITVT 9 Unmodified _RNTIQITVT_ 0 0 0 nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1;ENSG00000108175|ENST00000334512|ZMIZ1;ENST00000463056.5_1_7:44799906-44807219:+|nuORF;nc|ENSG00000122515|Q8NF64-3|ZMIZ2;nc|ENSG00000122515|Q8NF64-2|ZMIZ2;ENSG00000122515|ENST00000309315|ZMIZ2;ENST00000480964.5_1_7:44801441-44805210:+|nuORF;ENST00000478045.5_1_7:44801192-44807219:+|nuORF nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1 nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.3052368164062 2 523.303655 1044.59276 3.4122 0.0017856 0.43544 0.00022787 3.8477 0.0020135 523.3038839446587 80.776 1.6208 81.436 80.742 82.363 0.65998 229 108 3 0 0 0 0.94779 1 37367 37367 4.897 0 1 1677500 27800 1623 17989 18047 31325 31325 0.07224530363282611 RNTKLWLHK 9 Unmodified _RNTKLWLHK_ 0 0 0 REV__ENST00000399438.7_2_5:64960114-64960377:+|nuORF REV__ENST00000399438.7_2_5:64960114-64960377:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 598.357421875 2 598.356557 1194.69856 NaN NaN NaN NaN NaN NaN NaN 9.6904 1 9.6904 9.1904 10.19 0 0 0 0 0.91206 1 4352 4352 0.6015 0 1 + 27801 16032 17990 18048 31326 31326 0.10899910999410167 RNVFRKLL 8 Unmodified _RNVFRKLL_ 0 0 0 nc|ENSG00000151136|A6QL63-5|ABTB3;nc|ENSG00000151136|A6QL63-3|ABTB3;ENSG00000151136|ENST00000280758|ABTB3 nc|ENSG00000151136|A6QL63-5|ABTB3 nc|ENSG00000151136|A6QL63-5|ABTB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 349.22650146484375 3 349.225821 1044.65563 2.4993 0.00087283 -0.75863 -0.00026493 1.7407 0.00060789 349.2255149623023 14.806 0.44312 14.806 14.638 15.081 0 117 47 3 0 0 0 0.7471 1 6483 6483 1.6526 0.45928 1 615170 27802 3691 17991 18049 31327 31327 0.13509140941982878 RNVGKPLLV 9 Unmodified _RNVGKPLLV_ 0 0 0 ENST00000430298.6_1_19:12222513-12222840:+|nuORF ENST00000430298.6_1_19:12222513-12222840:+|nuORF ENST00000430298.6_1_19:12222513-12222840:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.5509338378906 3 332.550193 994.62875 2.4467 0.00081366 -0.12481 -4.1506E-05 2.3219 0.00077215 332.55014179116245 19.593 0.20405 20.252 20.165 20.369 0.65829 23 15 2 0 0 0 0.92418 1 8906 8906 5.2969 0 1 209210 27803 7845 17992 18050 31328 31328 0.1312203233079572 RNVKKTKS 8 Unmodified _RNVKKTKS_ 0 0 0 REV__ENST00000544670.5_1_16:19576218-19584460:+|nuORF REV__ENST00000544670.5_1_16:19576218-19584460:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.80267333984375 2 480.801083 959.587613 2.0742 0.00099726 0.48538 0.00023337 2.5595 0.0012306 480.80116451334237 91.098 0.36614 91.173 91.008 91.374 0.075272 122 53 3 0 0 0 0.71384 1 47173 47173 4.756 4.756 1 32392000 + 27804 10971 17993 18051 31329 31329 0.10620271291327299 RNVKKTKS 8 Unmodified _RNVKKTKS_ 0 0 0 REV__ENST00000544670.5_1_16:19576218-19584460:+|nuORF REV__ENST00000544670.5_1_16:19576218-19584460:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 480.801083 959.587613 2.0742 0.00099726 0.48538 0.00023337 2.5595 0.0012306 480.80116451334237 91.098 0.36614 91.173 91.008 91.374 0.075272 -0.033212 0.00040567 NaN 4.756 122 53 3 NaN NaN NaN NaN 0 NaN NaN 0 32392000 + 27805 10971 17993 18051 0.10620271291327299 RNVSTGDVNVE 11 Unmodified _RNVSTGDVNVE_ 0 0 0 ENSG00000186395|ENST00000269576|KRT10;CON__P13645 ENSG00000186395|ENST00000269576|KRT10 ENSG00000186395|ENST00000269576|KRT10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 595.2969360351562 2 595.294016 1188.57348 3.4828 0.0020733 0.93805 0.00055841 4.4209 0.0026317 595.2943033619767 20.767 0.25906 20.767 20.608 20.867 0 35 22 2 0 0 0 0.69455 2 9254 9254;9300 11.518 2.1348 1 213160 + 27806 217 17994 18052 31330;31331 31330 -0.013264707182770508 RNWQRWHRIFQ 11 Unmodified _RNWQRWHRIFQ_ 0 0 0 REV__ENSG00000081248|ENST00000362061|CACNA1S REV__ENSG00000081248|ENST00000362061|CACNA1S MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 813.9273071289062 2 813.929274 1625.844 NaN NaN NaN NaN NaN NaN NaN 95.354 1 95.354 94.854 95.854 0 0 0 0 1.008 1 51321 51321 0.30703 0.30703 1 + 27807 10608 17995 18053 31332 31332 0.05610766848303683 RNWRRWYRSFK 11 Unmodified _RNWRRWYRSFK_ 0 0 0 REV__nc|ENSG00000151067|Q13936-2|CACNA1C REV__nc|ENSG00000151067|Q13936-2|CACNA1C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 827.9447631835938 2 827.944924 1653.8753 NaN NaN NaN NaN NaN NaN NaN 32.824 1 33.442 32.942 33.942 0.61831 0 0 0 1.0082 1 15047 15047 0 0 1 + 27808 12604 17996 18054 31333 31333 0.07451339882368302 RPADPREPL 9 Unmodified _RPADPREPL_ 0 0 0 ENSG00000069011|ENST00000265340|PITX1 ENSG00000069011|ENST00000265340|PITX1 ENSG00000069011|ENST00000265340|PITX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.86236572265625 3 350.861207 1049.56179 2.7032 0.00094844 0.89933 0.00031554 3.6025 0.001264 350.86149999307844 12.784 0.33432 13.427 13.278 13.612 0.64272 15 9 2 0 0 0 0.54955 1 5796 5796 7.609 0.50723 1 444340 27809 744 17997 18055 31334 31334 0.038993770490378665 RPAGLESRL 9 Unmodified _RPAGLESRL_ 0 0 0 REV__ENST00000397091.9_1_8:38315044-38325949:-|nuORF REV__ENST00000397091.9_1_8:38315044-38325949:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 333.5306091308594 3 333.529569 997.566878 2.3456 0.00078232 0.39698 0.00013241 2.7425 0.00091472 333.5297110926558 17.589 0.31137 17.589 17.462 17.773 0 48 19 3 0 0 0 0.98958 1 7839 7839 4.1895 0 1 296990 + 27810 16012 17998 18056 31335 31335 0.06799680911649375 RPAGPQLFL 9 Unmodified _RPAGPQLFL_ 0 0 0 ENST00000483807.5_1_9:139887454-139888254:+|nuORF;ENSG00000148362|ENST00000371620|PAXX ENST00000483807.5_1_9:139887454-139888254:+|nuORF ENST00000483807.5_1_9:139887454-139888254:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 333.5301513671875 3 333.53091 997.5709 NaN NaN NaN NaN NaN NaN NaN 16.932 1 17.133 16.633 17.633 0.20057 0 0 0 0.90335 1 7491 7491 2.7352 0 1 27811 3603 17999 18057 31336 31336 0.07201770405345087 RPALRMTL 8 Unmodified _RPALRMTL_ 0 0 0 ENST00000488267.5_1_4:1695409-1696553:-|nuORF ENST00000488267.5_1_4:1695409-1696553:-|nuORF ENST00000488267.5_1_4:1695409-1696553:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 319.85992431640625 3 319.860262 956.558955 2.1202 0.00067815 -1.5243 -0.00048756 0.59586 0.00019059 319.85939173810186 49.113 0.1487 49.113 49.022 49.171 0 17 9 2 0 0 0 0.74071 1 22501 22501 1.6526 0 1 590640 27812 8362 18000 18058 31337 31337 0.07893830390526091 RPALRMTL 8 Unmodified _RPALRMTL_ 0 0 0 ENST00000488267.5_1_4:1695409-1696553:-|nuORF ENST00000488267.5_1_4:1695409-1696553:-|nuORF ENST00000488267.5_1_4:1695409-1696553:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 319.860262 956.558955 2.2921 0.00073317 -2.1322 -0.000682 0.15998 5.117E-05 319.8594445981829 48.505 0.58656 49.16 48.846 49.432 0.65524 0.02345 -0.00018785 NaN 1.6526 35 22 2 NaN NaN NaN NaN 0 NaN NaN 0 697510 27813 8362 18000 18058 0.07893830390526091 RPAQVEPLL 9 Unmodified _RPAQVEPLL_ 0 0 0 ENSG00000147813|ENST00000449291|NAPRT;nc|ENSG00000147813|Q6XQN6-2|NAPRT;ENST00000464332.5_1_8:144657010-144658430:-|nuORF ENSG00000147813|ENST00000449291|NAPRT ENSG00000147813|ENST00000449291|NAPRT MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 511.4732360839844 2 511.803291 1021.59203 3.5712 0.0018277 0.015581 7.9745E-06 3.5868 0.0018357 511.8029827977307 45.113 0.19453 45.763 45.638 45.832 0.64998 10 6 2 0 0 0 0.085001 1 20692 20692 19.257 4.4187 1 499000 27814 3581 18001 18059 31338 31338 0.08209735714228827 RPARLMLIPRS 11 Unmodified _RPARLMLIPRS_ 0 0 0 REV__ENST00000489998.5_1_1:157765891-157772050:-|nuORF REV__ENST00000489998.5_1_1:157765891-157772050:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.400634765625 2 655.397899 1308.78124 3.8838 0.0025455 0.40897 0.00026804 4.2928 0.0028135 655.3979596942346 48.958 0.93945 49.22 48.873 49.813 0.26209 68 35 3 0 0 0 0.86186 1 22438 22438 4.897 0 1 2124800 + 27815 12999 18002 18060 31339 31339 0.13920484735899663 RPARLMLIPRS 11 Unmodified _RPARLMLIPRS_ 0 0 0 REV__ENST00000489998.5_1_1:157765891-157772050:-|nuORF REV__ENST00000489998.5_1_1:157765891-157772050:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.26971435546875 3 437.267691 1308.78124 2.9166 0.0012753 0.57984 0.00025355 3.4964 0.0015289 437.2678464523284 50.769 0.49729 51.428 51.193 51.69 0.65956 75 27 3 0 0 0 0.91104 1 23182 23182 1.2148 0 1 3016400 + 27816 12999 18002 18060 31340 31340 0.13920484735899663 RPDPFQQAL 9 Unmodified _RPDPFQQAL_ 0 0 0 nc|ENSG00000064393|Q9H2X6-2|HIPK2;HIPK2|p.G1125Afs*22|1|0.19|ENSG00000064393|chr7:139573150-139573150|C/-|frameshift_variant;nc|ENSG00000064393|Q9H2X6-3|HIPK2;ENSG00000064393|ENST00000406875|HIPK2 nc|ENSG00000064393|Q9H2X6-2|HIPK2 nc|ENSG00000064393|Q9H2X6-2|HIPK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.284912109375 2 536.282723 1070.55089 NaN NaN NaN NaN NaN NaN NaN 46.971 1 46.971 46.471 47.471 0 0 0 0 0.54797 1 21501 21501 17.443 7.2921 1 27817 670 18003 18061 31341 31341 0.01843974674761739 RPDPFQQAL 9 Unmodified _RPDPFQQAL_ 0 0 0 nc|ENSG00000064393|Q9H2X6-2|HIPK2;HIPK2|p.G1125Afs*22|1|0.19|ENSG00000064393|chr7:139573150-139573150|C/-|frameshift_variant;nc|ENSG00000064393|Q9H2X6-3|HIPK2;ENSG00000064393|ENST00000406875|HIPK2 nc|ENSG00000064393|Q9H2X6-2|HIPK2 nc|ENSG00000064393|Q9H2X6-2|HIPK2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.2586059570312 2 536.282723 1070.55089 2.8614 0.0015345 0.048817 2.618E-05 2.9102 0.0015607 536.282931576444 46.892 0.32218 46.892 46.62 46.943 0 17 10 2 0 0 0 0.080874 1 21405 21405 22.658 7.8198 1 553590 27818 670 18003 18061 31342 31342 0.01843974674761739 RPDPFQQAL 9 Unmodified _RPDPFQQAL_ 0 0 0 nc|ENSG00000064393|Q9H2X6-2|HIPK2;HIPK2|p.G1125Afs*22|1|0.19|ENSG00000064393|chr7:139573150-139573150|C/-|frameshift_variant;nc|ENSG00000064393|Q9H2X6-3|HIPK2;ENSG00000064393|ENST00000406875|HIPK2 nc|ENSG00000064393|Q9H2X6-2|HIPK2 nc|ENSG00000064393|Q9H2X6-2|HIPK2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.2605590820312 2 536.282723 1070.55089 3.1758 0.0017031 -1.0367 -0.00055594 2.1391 0.0011472 536.2818734288184 46.767 0.20287 47.032 46.951 47.153 0.26561 10 6 2 0 0 0 0.080874 1 21381 21381 22.658 7.8198 1 277670 27819 670 18003 18061 31343 31343 0.01843974674761739 RPDSLDPAL 9 Unmodified _RPDSLDPAL_ 0 0 0 nc|ENSG00000143748|O15381-3|NVL;nc|ENSG00000143748|O15381-4|NVL;nc|ENSG00000143748|O15381-2|NVL;nc|ENSG00000143748|O15381-5|NVL;ENSG00000143748|ENST00000281701|NVL nc|ENSG00000143748|O15381-3|NVL nc|ENSG00000143748|O15381-3|NVL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.2647705078125 2 492.261456 982.50836 3.103 0.0015275 1.0963 0.00053966 4.1993 0.0020672 492.2620244749242 40.917 0.24682 40.917 40.766 41.013 0 28 16 2 0 0 0 0.063112 1 18595 18595 41.956 3.9816 1 1066600 27820 3390 18004 18062 31344 31344 0.016405795465175288 RPDSLDPAL 9 Unmodified _RPDSLDPAL_ 0 0 0 nc|ENSG00000143748|O15381-3|NVL;nc|ENSG00000143748|O15381-4|NVL;nc|ENSG00000143748|O15381-2|NVL;nc|ENSG00000143748|O15381-5|NVL;ENSG00000143748|ENST00000281701|NVL nc|ENSG00000143748|O15381-3|NVL nc|ENSG00000143748|O15381-3|NVL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.2620544433594 2 492.261456 982.50836 NaN NaN NaN NaN NaN NaN NaN 40.066 1 40.866 40.366 41.366 0.80014 0 0 0 0.098631 1 18141 18141 41.956 3.9816 1 27821 3390 18004 18062 31345 31345 0.016405795465175288 RPDTLDPAL 9 Unmodified _RPDTLDPAL_ 0 0 0 ENSG00000161057|ENST00000292644|PSMC2;nc|ENSG00000161057|P35998-2|PSMC2;ENST00000216407.4_1_12:68867655-68868498:+|nuORF;ENSG00000100519|ENST00000445930|PSMC6 ENSG00000161057|ENST00000292644|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.2719421386719 2 499.269281 996.52401 2.9699 0.0014828 0.3546 0.00017704 3.3245 0.0016598 499.2693978648283 42.156 0.30014 42.156 41.904 42.204 0 41 17 3 0 0 0 0.004576 2 19113 19113;19157 92.653 27.418 1 9013900 27822 4092 18005 18063 31346;31347 31346 0.02560866063549838 RPDTLDPAL 9 Unmodified _RPDTLDPAL_ 0 0 0 ENSG00000161057|ENST00000292644|PSMC2;nc|ENSG00000161057|P35998-2|PSMC2;ENST00000216407.4_1_12:68867655-68868498:+|nuORF;ENSG00000100519|ENST00000445930|PSMC6 ENSG00000161057|ENST00000292644|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.2706298828125 2 499.269281 996.52401 2.9685 0.0014821 0.33387 0.00016669 3.3024 0.0016488 499.2693813728813 41.128 0.34821 41.931 41.782 42.13 0.80351 65 29 3 0 0 0 0.0020791 3 18660 18607;18660;18712 103.35 31.431 1 5142200 27823 4092 18005 18063 31348;31349;31350 31349 0.02560866063549838 RPDTLDPAL 9 Unmodified _RPDTLDPAL_ 0 0 0 ENSG00000161057|ENST00000292644|PSMC2;nc|ENSG00000161057|P35998-2|PSMC2;ENST00000216407.4_1_12:68867655-68868498:+|nuORF;ENSG00000100519|ENST00000445930|PSMC6 ENSG00000161057|ENST00000292644|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.2707214355469 2 499.269281 996.52401 3.4508 0.0017229 -0.18379 -9.1759E-05 3.267 0.0016311 499.26903249664895 41.838 0.23257 42.108 41.89 42.123 0.27021 14 9 2 0 0 0 0.030603 1 19018 19018 55.503 15.553 1 5245400 27824 4092 18005 18063 31351 31351 0.02560866063549838 RPDTLDPAL 9 Unmodified _RPDTLDPAL_ 0 0 0 ENSG00000161057|ENST00000292644|PSMC2;nc|ENSG00000161057|P35998-2|PSMC2;ENST00000216407.4_1_12:68867655-68868498:+|nuORF;ENSG00000100519|ENST00000445930|PSMC6 ENSG00000161057|ENST00000292644|PSMC2 ENSG00000161057|ENST00000292644|PSMC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.2709655761719 2 499.269281 996.52401 3.3963 0.0016957 0.11544 5.7636E-05 3.5117 0.0017533 499.26936716273815 41.226 0.34555 41.87 41.729 42.075 0.64451 44 19 3 0 0 0 0.0020791 3 18871 18818;18871;18929 103.35 21.463 1 3601700 27825 4092 18005 18063 31352;31353;31354 31353 0.02560866063549838 RPEEDAAALEL 11 Unmodified _RPEEDAAALEL_ 0 0 0 ENSG00000177469|ENST00000357037|CAVIN1;nc|ENSG00000177469|Q6NZI2-2|CAVIN1 ENSG00000177469|ENST00000357037|CAVIN1 ENSG00000177469|ENST00000357037|CAVIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 607.3099365234375 2 607.306592 1212.59863 3.8052 0.0023109 0.15737 9.5572E-05 3.9626 0.0024065 607.306639318948 47.889 0.24637 48.152 48.019 48.265 0.26363 16 10 2 0 0 0 0.59734 1 21930 21930 15.739 2.6962 1 447820 27826 5119 18006 18064 31355 31355 0.0008358408429103292 RPEEDAAALEL 11 Unmodified _RPEEDAAALEL_ 0 0 0 ENSG00000177469|ENST00000357037|CAVIN1;nc|ENSG00000177469|Q6NZI2-2|CAVIN1 ENSG00000177469|ENST00000357037|CAVIN1 ENSG00000177469|ENST00000357037|CAVIN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 607.306592 1212.59863 3.6794 0.0022345 0.94176 0.00057194 4.6212 0.0028065 607.3069974582392 47.327 0.23419 47.98 47.855 48.09 0.65356 -0.085922 0.00043216 NaN 15.739 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 278590 27827 5119 18006 18064 0.0008358408429103292 RPEEGFVEL 9 Unmodified _RPEEGFVEL_ 0 0 0 ENST00000583454.1_1_17:73512940-73513526:+|nuORF;nc|ENSG00000182173|Q7Z6J9-2|TSEN54;ENSG00000182173|ENST00000333213|TSEN54 ENST00000583454.1_1_17:73512940-73513526:+|nuORF ENST00000583454.1_1_17:73512940-73513526:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.2763061523438 2 538.274564 1074.53457 3.0568 0.0016454 0.48008 0.00025841 3.5369 0.0019038 538.2748381844366 52.407 0.20331 52.407 52.344 52.548 0 26 15 3 0 0 0 0.049036 1 24016 24016 47.594 15.289 1 976520 27828 5314 18007 18065 31356 31356 0.0002884871801143163 RPEEGFVEL 9 Unmodified _RPEEGFVEL_ 0 0 0 ENST00000583454.1_1_17:73512940-73513526:+|nuORF;nc|ENSG00000182173|Q7Z6J9-2|TSEN54;ENSG00000182173|ENST00000333213|TSEN54 ENST00000583454.1_1_17:73512940-73513526:+|nuORF ENST00000583454.1_1_17:73512940-73513526:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 538.274564 1074.53457 2.5707 0.0013837 0.82505 0.0004441 3.3957 0.0018278 538.2750133638592 51.365 0.22054 52.182 52.099 52.319 0.81738 -0.11241 0.00016795 NaN 47.594 32 17 2 NaN NaN NaN NaN 0 NaN NaN 0 1219800 27829 5314 18007 18065 0.0002884871801143163 RPESFLFR 8 Unmodified _RPESFLFR_ 0 0 0 nc|ENSG00000186001|Q96II8-3|LRCH3;nc|ENSG00000186001|Q96II8-4|LRCH3;ENSG00000186001|ENST00000425562|LRCH3;nc|ENSG00000186001|Q96II8-2|LRCH3 nc|ENSG00000186001|Q96II8-3|LRCH3 nc|ENSG00000186001|Q96II8-3|LRCH3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.1954650878906 3 351.194298 1050.56106 NaN NaN NaN NaN NaN NaN NaN 13.327 1 13.634 13.134 14.134 0.30727 0 0 0 0.99035 1 6012 6012 3.5965 0 1 27830 5552 18008 18066 31357 31357 0.03780582400008825 RPFERTITM 9 Unmodified _RPFERTITM_ 0 0 0 nc|ENSG00000137575|O00560-3|SDCBP;nc|ENSG00000137575|O00560-2|SDCBP;ENSG00000137575|ENST00000260130|SDCBP;ENST00000523441.1_1_8:59490633-59492419:+|nuORF nc|ENSG00000137575|O00560-3|SDCBP nc|ENSG00000137575|O00560-3|SDCBP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 384.582763671875 3 384.206098 1149.59646 2.328 0.00089443 -0.14501 -5.5713E-05 2.183 0.00083872 384.2058951432577 32.32 0.26845 33.108 33.017 33.286 0.78795 37 21 2 0 0 0 0.090505 1 14618 14618 19.626 11.182 1 545150 27831 3029 18009 18067 31358 31358 0.02764876865489896 RPFERTITM 9 Unmodified _RPFERTITM_ 0 0 0 nc|ENSG00000137575|O00560-3|SDCBP;nc|ENSG00000137575|O00560-2|SDCBP;ENSG00000137575|ENST00000260130|SDCBP;ENST00000523441.1_1_8:59490633-59492419:+|nuORF nc|ENSG00000137575|O00560-3|SDCBP nc|ENSG00000137575|O00560-3|SDCBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.8088989257812 2 575.805508 1149.59646 3.4139 0.0019658 0.26439 0.00015224 3.6783 0.002118 575.8059080695649 33.247 0.44131 33.501 33.318 33.76 0.25389 58 20 4 0 0 0 0.1776 2 15104 15104;15160 15.248 11.967 1 1183200 27832 3029 18009 18067 31359;31360 31359 0.02764876865489896 RPFERTITM 9 Unmodified _RPFERTITM_ 0 0 0 nc|ENSG00000137575|O00560-3|SDCBP;nc|ENSG00000137575|O00560-2|SDCBP;ENSG00000137575|ENST00000260130|SDCBP;ENST00000523441.1_1_8:59490633-59492419:+|nuORF nc|ENSG00000137575|O00560-3|SDCBP nc|ENSG00000137575|O00560-3|SDCBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 384.2073974609375 3 384.206098 1149.59646 2.9294 0.0011255 -0.11828 -4.5443E-05 2.8111 0.00108 384.20612698398725 33.239 0.48043 33.493 33.279 33.76 0.25389 65 22 4 0 0 0 0.025529 2 15114 15114;15170 61.09 41.464 1 1596500 27833 3029 18009 18067 31361;31362 31361 0.02764876865489896 RPFERTITM 9 Unmodified _RPFERTITM_ 0 0 0 nc|ENSG00000137575|O00560-3|SDCBP;nc|ENSG00000137575|O00560-2|SDCBP;ENSG00000137575|ENST00000260130|SDCBP;ENST00000523441.1_1_8:59490633-59492419:+|nuORF nc|ENSG00000137575|O00560-3|SDCBP nc|ENSG00000137575|O00560-3|SDCBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.80810546875 2 575.805508 1149.59646 3.6012 0.0020736 0.34079 0.00019623 3.942 0.0022698 575.805892510285 32.758 0.45744 33.376 33.155 33.613 0.61831 55 20 4 0 0 0 0.12685 3 15014 14966;15014;15062 23.79 16.688 1 1217200 27834 3029 18009 18067 31363;31364;31365 31364 0.02764876865489896 RPFERTITM 9 Unmodified _RPFERTITM_ 0 0 0 nc|ENSG00000137575|O00560-3|SDCBP;nc|ENSG00000137575|O00560-2|SDCBP;ENSG00000137575|ENST00000260130|SDCBP;ENST00000523441.1_1_8:59490633-59492419:+|nuORF nc|ENSG00000137575|O00560-3|SDCBP nc|ENSG00000137575|O00560-3|SDCBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 384.20745849609375 3 384.206098 1149.59646 2.6775 0.0010287 0.030191 1.1599E-05 2.7077 0.0010403 384.206224892883 32.767 0.46075 33.386 33.126 33.587 0.61831 61 20 4 0 0 0 0.025529 2 14992 14992;15051 61.09 40.509 1 1412600 27835 3029 18009 18067 31366;31367 31366 0.02764876865489896 RPFERTITM 9 Unmodified _RPFERTITM_ 0 0 0 nc|ENSG00000137575|O00560-3|SDCBP;nc|ENSG00000137575|O00560-2|SDCBP;ENSG00000137575|ENST00000260130|SDCBP;ENST00000523441.1_1_8:59490633-59492419:+|nuORF nc|ENSG00000137575|O00560-3|SDCBP nc|ENSG00000137575|O00560-3|SDCBP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 575.805508 1149.59646 3.4704 0.0019983 -0.96467 -0.00055546 2.5057 0.0014428 576.3065804389336 33.505 0.048943 33.505 33.463 33.512 0 0.044381 -0.0013592 NaN 23.79 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 1035700 27836 3029 18009 18067 0.02764876865489896 RPGAGKGR 8 Unmodified _RPGAGKGR_ 0 0 0 REV__ENST00000309117.10_1_21:38639566-38639725:-|nuORF REV__ENST00000309117.10_1_21:38639566-38639725:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.73931884765625 2 399.738286 797.462019 3.1161 0.0012456 -0.08621 -3.4461E-05 3.0299 0.0012112 399.73807470772323 93.308 0.70889 93.939 93.564 94.273 0.63115 83 33 3 0 0 0 0.74071 1 42938 42938 2.5775 0 1 3282600 + 27837 15250 18010 18068 31368 31368 0.055186042257560075 RPGQKAVLL 9 Unmodified _RPGQKAVLL_ 0 0 0 nc|ENSG00000146839|Q9Y493-5|ZAN;nc|ENSG00000146839|Q9Y493-4|ZAN;nc|ENSG00000146839|Q9Y493-3|ZAN;nc|ENSG00000146839|Q9Y493-6|ZAN;nc|ENSG00000146839|Q9Y493-2|ZAN;ENSG00000146839|ENST00000613979|ZAN;nc|ENSG00000146839|Q9Y493-7|ZAN;ZAN|p.N2422Mfs*32|1|0.26|ENSG00000146839|chr7:100789253-100789253|A/-|frameshift_variant;ZAN|p.E1072Gfs*125|1|0.36|ENSG00000146839|chr7:100755316-100755316|A/-|frameshift_variant nc|ENSG00000146839|Q9Y493-5|ZAN nc|ENSG00000146839|Q9Y493-5|ZAN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 327.87908935546875 3 327.87831 980.613099 2.3354 0.00076571 0.6834 0.00022407 3.0188 0.00098979 327.8784887855977 18.758 0.22549 19.419 19.315 19.541 0.66072 28 17 2 0 0 0 0.30982 1 8539 8539 16.149 0.30192 1 1173200 27838 3532 18011 18069 31369 31369 0.12201745813740672 RPHHKILDM 9 Unmodified _RPHHKILDM_ 0 0 0 NSUN2|p.V238Wfs*14|1|0.3|ENSG00000037474|chr5:6620209-6620209|C/-|frameshift_variant;nc|ENSG00000037474|Q08J23-2|NSUN2;ENSG00000037474|ENST00000264670|NSUN2 NSUN2|p.V238Wfs*14|1|0.3|ENSG00000037474|chr5:6620209-6620209|C/-|frameshift_variant NSUN2|p.V238Wfs*14|1|0.3|ENSG00000037474|chr5:6620209-6620209|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 382.8788146972656 3 382.878204 1145.61278 2.4073 0.0009217 0.042037 1.6095E-05 2.4493 0.00093779 382.87829814464226 13.565 0.22205 13.872 13.729 13.952 0.30727 33 18 2 0 0 0 0.26118 1 6086 6086 19.362 14.465 1 395840 27839 518 18012 18070 31370 31370 0.045800028222402034 RPHHKILDM 9 Unmodified _RPHHKILDM_ 0 0 0 NSUN2|p.V238Wfs*14|1|0.3|ENSG00000037474|chr5:6620209-6620209|C/-|frameshift_variant;nc|ENSG00000037474|Q08J23-2|NSUN2;ENSG00000037474|ENST00000264670|NSUN2 NSUN2|p.V238Wfs*14|1|0.3|ENSG00000037474|chr5:6620209-6620209|C/-|frameshift_variant NSUN2|p.V238Wfs*14|1|0.3|ENSG00000037474|chr5:6620209-6620209|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.87921142578125 3 382.878204 1145.61278 2.9425 0.0011266 1.3302 0.0005093 4.2727 0.0016359 382.8784341135978 13.077 0.26137 13.719 13.48 13.742 0.64272 16 8 3 0 0 0 0.14214 1 5857 5857 27.223 14.983 1 999400 27840 518 18012 18070 31371 31371 0.045800028222402034 RPHHKILDM 9 Unmodified _RPHHKILDM_ 0 0 0 NSUN2|p.V238Wfs*14|1|0.3|ENSG00000037474|chr5:6620209-6620209|C/-|frameshift_variant;nc|ENSG00000037474|Q08J23-2|NSUN2;ENSG00000037474|ENST00000264670|NSUN2 NSUN2|p.V238Wfs*14|1|0.3|ENSG00000037474|chr5:6620209-6620209|C/-|frameshift_variant NSUN2|p.V238Wfs*14|1|0.3|ENSG00000037474|chr5:6620209-6620209|C/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 382.878204 1145.61278 2.2836 0.00087436 0.30901 0.00011831 2.5927 0.00099267 383.2125925880549 13.549 0.11386 13.792 13.747 13.86 0.24346 -0.0022549 0.00013653 NaN 27.223 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 197120 27841 518 18012 18070 0.045800028222402034 RPHSRVQL 8 Unmodified _RPHSRVQL_ 0 0 0 ENST00000428855.5_1_22:25003641-25006259:+|nuORF ENST00000428855.5_1_22:25003641-25006259:+|nuORF ENST00000428855.5_1_22:25003641-25006259:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.5301818847656 3 331.529792 991.567546 2.6554 0.00088033 0.23844 7.9051E-05 2.8938 0.00095938 331.5295148588288 12.325 0.026754 12.962 12.951 12.978 0.63746 5 3 2 0 0 0 0.029901 1 5508 5508 78.06 20.811 1 3695400 27842 7829 18013 18071 31372 31372 0.0714252035137406 RPIKAAIGE 9 Unmodified _RPIKAAIGE_ 0 0 0 nc|ENSG00000151849|Q9HC77-2|CENPJ;CENPJ|p.A1212Vfs*27|1|0.07|ENSG00000151849|chr13:24884229-24884230|-/ACTGTTAAAAA|frameshift_variant;ENSG00000151849|ENST00000381884|CENPJ nc|ENSG00000151849|Q9HC77-2|CENPJ nc|ENSG00000151849|Q9HC77-2|CENPJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.2926025390625 2 477.790184 953.565815 2.8341 0.0013541 0.3973 0.00018983 3.2314 0.0015439 477.79046701635053 25.356 0.2479 26.12 26.034 26.282 0.76356 39 22 2 0 0 0 0.67336 1 11379 11379 13.906 5.9959 1 406360 27843 114 18014 18072 31373 31373 0.08717466542748298 RPIKAAIGE 9 Unmodified _RPIKAAIGE_ 0 0 0 nc|ENSG00000151849|Q9HC77-2|CENPJ;CENPJ|p.A1212Vfs*27|1|0.07|ENSG00000151849|chr13:24884229-24884230|-/ACTGTTAAAAA|frameshift_variant;ENSG00000151849|ENST00000381884|CENPJ nc|ENSG00000151849|Q9HC77-2|CENPJ nc|ENSG00000151849|Q9HC77-2|CENPJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 318.86309814453125 3 318.862548 953.565815 2.3834 0.00075997 -0.079768 -2.5435E-05 2.3036 0.00073453 318.8625405469347 25.879 0.22218 26.147 26.05 26.272 0.26777 34 22 2 0 0 0 0.38625 2 11754 11754;11807 14.405 8.1996 1 305850 27844 114 18014 18072 31374;31375 31374 0.08717466542748298 RPIKAAIGE 9 Unmodified _RPIKAAIGE_ 0 0 0 nc|ENSG00000151849|Q9HC77-2|CENPJ;CENPJ|p.A1212Vfs*27|1|0.07|ENSG00000151849|chr13:24884229-24884230|-/ACTGTTAAAAA|frameshift_variant;ENSG00000151849|ENST00000381884|CENPJ nc|ENSG00000151849|Q9HC77-2|CENPJ nc|ENSG00000151849|Q9HC77-2|CENPJ MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 477.790184 953.565815 3.1149 0.0014883 0.77636 0.00037094 3.8913 0.0018592 477.79071903668256 25.906 0.35785 26.174 25.999 26.357 0.26777 -0.0012549 0.00014536 NaN 13.906 57 35 2 NaN NaN NaN NaN 0 NaN NaN 0 479590 27845 114 18014 18072 0.08717466542748298 RPIKAAIGE 9 Unmodified _RPIKAAIGE_ 0 0 0 nc|ENSG00000151849|Q9HC77-2|CENPJ;CENPJ|p.A1212Vfs*27|1|0.07|ENSG00000151849|chr13:24884229-24884230|-/ACTGTTAAAAA|frameshift_variant;ENSG00000151849|ENST00000381884|CENPJ nc|ENSG00000151849|Q9HC77-2|CENPJ nc|ENSG00000151849|Q9HC77-2|CENPJ MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 477.790184 953.565815 3.0083 0.0014373 0.62431 0.00029829 3.6326 0.0017356 477.7905648153899 25.606 0.2777 26.232 26.079 26.357 0.62505 0.056469 6.2912E-08 NaN 13.906 51 30 2 NaN NaN NaN NaN 0 NaN NaN 0 618910 27846 114 18014 18072 0.08717466542748298 RPIQKVEM 8 Unmodified _RPIQKVEM_ 0 0 0 nc|ENSG00000124783|P43307-2|SSR1;ENSG00000124783|ENST00000244763|SSR1 nc|ENSG00000124783|P43307-2|SSR1 nc|ENSG00000124783|P43307-2|SSR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.1924133300781 3 334.191788 999.553536 2.3642 0.00079009 -0.059369 -1.9841E-05 2.3048 0.00077025 334.1918183625631 18.324 0.29993 18.324 18.167 18.467 0 21 16 2 0 0 0 0.62895 1 8151 8151 8.7454 1.6437 1 297810 27847 2379 18015 18073 31376 31376 0.053741068080626064 RPIQKVEM 8 Unmodified _RPIQKVEM_ 0 0 0 nc|ENSG00000124783|P43307-2|SSR1;ENSG00000124783|ENST00000244763|SSR1 nc|ENSG00000124783|P43307-2|SSR1 nc|ENSG00000124783|P43307-2|SSR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.78515625 2 500.784044 999.553536 NaN NaN NaN NaN NaN NaN NaN 18.418 1 18.418 17.918 18.918 0 0 0 0 0.95658 1 8183 8183 8.5933 6.0158 1 27848 2379 18015 18073 31377 31377 0.053741068080626064 RPIQKVEM 8 Unmodified _RPIQKVEM_ 0 0 0 nc|ENSG00000124783|P43307-2|SSR1;ENSG00000124783|ENST00000244763|SSR1 nc|ENSG00000124783|P43307-2|SSR1 nc|ENSG00000124783|P43307-2|SSR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.78564453125 2 500.784044 999.553536 3.0053 0.001505 0.4473 0.000224 3.4526 0.001729 500.78431847377027 15.377 1.5788 15.683 15.355 16.934 0.306 389 174 3 0 0 0 0.31901 13 7116 6856;6902;6943;6988;7030;7070;7116;7158;7203;7245;7292;7341;7407 34.102 17.467 1 271930 27849 2379 18015 18073 31378;31379;31380;31381;31382;31383;31384;31385;31386;31387;31388;31389;31390 31384 0.053741068080626064 RPIQKVEM 8 Unmodified _RPIQKVEM_ 0 0 0 nc|ENSG00000124783|P43307-2|SSR1;ENSG00000124783|ENST00000244763|SSR1 nc|ENSG00000124783|P43307-2|SSR1 nc|ENSG00000124783|P43307-2|SSR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.19281005859375 3 334.191788 999.553536 2.2014 0.00073569 0.40811 0.00013639 2.6095 0.00087208 334.1919420319486 15.526 1.4679 15.832 15.369 16.837 0.306 387 164 4 0 0 0 0.39589 15 7008 6873;6920;6964;7008;7049;7090;7131;7176;7218;7248;7257;7300;7343;7388;7430 22.736 15.127 1 324710 27850 2379 18015 18073 31391;31392;31393;31394;31395;31396;31397;31398;31399;31400;31401;31402;31403;31404;31405 31394 0.053741068080626064 RPIQKVEM 8 Unmodified _RPIQKVEM_ 0 0 0 nc|ENSG00000124783|P43307-2|SSR1;ENSG00000124783|ENST00000244763|SSR1 nc|ENSG00000124783|P43307-2|SSR1 nc|ENSG00000124783|P43307-2|SSR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.1924743652344 3 334.191788 999.553536 NaN NaN NaN NaN NaN NaN NaN 16.536 1 16.841 16.341 17.341 0.30438 0 0 0 0.99035 1 7485 7485 3.2813 0.99853 1 27851 2379 18015 18073 31406 31406 0.053741068080626064 RPISLRIC 8 Unmodified _RPISLRIC_ 0 0 0 REV__ENSG00000177084|ENST00000320574|POLE REV__ENSG00000177084|ENST00000320574|POLE MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 319.8602294921875 3 319.860262 956.558955 NaN NaN NaN NaN NaN NaN NaN 48.853 1 48.853 48.353 49.353 0 0 0 0 0.99035 1 22374 22374 1.4819 0 1 + 27852 13724 18016 18074 31407 31407 0.07893830390514722 RPKCPLPP 8 Unmodified _RPKCPLPP_ 0 0 0 REV__nc|ENSG00000187912|Q6ZS10-2|CLEC17A REV__nc|ENSG00000187912|Q6ZS10-2|CLEC17A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.1789855957031 3 303.177591 906.510943 NaN NaN NaN NaN NaN NaN NaN 52.596 1 52.86 52.36 53.36 0.26345 0 0 0 0.99035 1 24045 24045 0.45834 0 1 + 27853 14123 18017 18075 31408 31408 0.05394756470491302 RPKHKEVHL 9 Unmodified _RPKHKEVHL_ 0 0 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.8979187011719 3 381.896363 1142.66726 3.1306 0.0011956 0.94569 0.00036115 4.0762 0.0015567 381.8966720250114 6.1415 0.83727 6.765 6.5415 7.3788 0.62357 172 73 4 0 0 0 0.10169 4 2802 2749;2802;2849;2894 36.506 28.351 1 309220 27854 829 18018 18076 31409;31410;31411;31412 31410 0.10163337965332175 RPKHVKALLQM 11 Unmodified _RPKHVKALLQM_ 0 0 0 nc|ENSG00000160299|O95613-2|PCNT;PCNT|p.S3190Lfs*20|1|0.06|ENSG00000160299|chr21:46441029-46441030|-/TAACA|frameshift_variant;PCNT|p.L3177Gfs*37|1|0.25|ENSG00000160299|chr21:46440989-46440990|TT/-|frameshift_variant;ENSG00000160299|ENST00000359568|PCNT nc|ENSG00000160299|O95613-2|PCNT nc|ENSG00000160299|O95613-2|PCNT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 660.900634765625 2 660.900274 1319.786 NaN NaN NaN NaN NaN NaN NaN 58.673 1 58.935 58.435 59.435 0.26227 0 0 0 1.0072 1 26870 26870 1.3295 0 1 27855 4055 18019 18077 31413 31413 0.13889368878676578 RPKIKVSLI 9 Unmodified _RPKIKVSLI_ 0 0 0 ENST00000476534.1_1_2:97269891-97271381:-|nuORF;ENST00000487070.5_1_2:97267510-97285240:-|nuORF;ENST00000597150.5_1_2:97261350-97297069:-|nuORF;nc|ENSG00000114982|Q9P2N6-6|KANSL3;ENST00000447759.5_3_2:97261350-97293793:-|nuORF;nc|ENSG00000114982|Q9P2N6-2|KANSL3;nc|ENSG00000114982|Q9P2N6-5|KANSL3;nc|ENSG00000114982|Q9P2N6-4|KANSL3;ENSG00000114982|ENST00000431828|KANSL3;nc|ENSG00000114982|Q9P2N6|KANSL3 ENST00000476534.1_1_2:97269891-97271381:-|nuORF ENST00000476534.1_1_2:97269891-97271381:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.9109191894531 3 351.90961 1052.707 NaN NaN NaN NaN NaN NaN NaN 32.15 1 32.938 32.438 33.438 0.78795 0 0 0 0.77239 1 14536 14536 10.151 5.6217 1 27856 1934 18020 18078 31414 31414 0.18275464916041528 RPKIKVSLI 9 Unmodified _RPKIKVSLI_ 0 0 0 ENST00000476534.1_1_2:97269891-97271381:-|nuORF;ENST00000487070.5_1_2:97267510-97285240:-|nuORF;ENST00000597150.5_1_2:97261350-97297069:-|nuORF;nc|ENSG00000114982|Q9P2N6-6|KANSL3;ENST00000447759.5_3_2:97261350-97293793:-|nuORF;nc|ENSG00000114982|Q9P2N6-2|KANSL3;nc|ENSG00000114982|Q9P2N6-5|KANSL3;nc|ENSG00000114982|Q9P2N6-4|KANSL3;ENSG00000114982|ENST00000431828|KANSL3;nc|ENSG00000114982|Q9P2N6|KANSL3 ENST00000476534.1_1_2:97269891-97271381:-|nuORF ENST00000476534.1_1_2:97269891-97271381:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.9107971191406 3 351.90961 1052.707 2.3896 0.00084092 1.6582 0.00058352 4.0478 0.0014244 351.91046486572344 32.372 0.50811 32.99 32.82 33.328 0.61832 40 26 2 0 0 0 0.29024 1 14844 14844 17.443 7.8987 1 420410 27857 1934 18020 18078 31415 31415 0.18275464916041528 RPKISLKF 8 Unmodified _RPKISLKF_ 0 0 0 ENSG00000198919|ENST00000361582|DZIP3;ENST00000495008.5_1_3:108355483-108366962:+|nuORF ENSG00000198919|ENST00000361582|DZIP3 ENSG00000198919|ENST00000361582|DZIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.21527099609375 3 330.214922 987.622936 2.4788 0.00081854 -0.90571 -0.00029908 1.5731 0.00051946 330.2145953812076 24.803 0.022514 25.074 25.063 25.086 0.27129 5 3 2 0 0 0 0.60101 1 11248 11248 13.906 0.86358 1 949660 27858 5963 18021 18079 31416 31416 0.12862933819133104 RPKISLKF 8 Unmodified _RPKISLKF_ 0 0 0 ENSG00000198919|ENST00000361582|DZIP3;ENST00000495008.5_1_3:108355483-108366962:+|nuORF ENSG00000198919|ENST00000361582|DZIP3 ENSG00000198919|ENST00000361582|DZIP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.2154235839844 3 330.214922 987.622936 NaN NaN NaN NaN NaN NaN NaN 24.919 1 25.19 24.69 25.69 0.27129 0 0 0 0.79394 1 11301 11301 19.257 1.1106 1 27859 5963 18021 18079 31417 31417 0.12862933819133104 RPKISLKF 8 Unmodified _RPKISLKF_ 0 0 0 ENSG00000198919|ENST00000361582|DZIP3;ENST00000495008.5_1_3:108355483-108366962:+|nuORF ENSG00000198919|ENST00000361582|DZIP3 ENSG00000198919|ENST00000361582|DZIP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.21588134765625 3 330.214922 987.622936 NaN NaN NaN NaN NaN NaN NaN 25.024 1 25.292 24.792 25.792 0.26777 0 0 0 0.79394 1 11352 11352 19.257 6.2145 1 27860 5963 18021 18079 31418 31418 0.12862933819133104 RPKISLKF 8 Unmodified _RPKISLKF_ 0 0 0 ENSG00000198919|ENST00000361582|DZIP3;ENST00000495008.5_1_3:108355483-108366962:+|nuORF ENSG00000198919|ENST00000361582|DZIP3 ENSG00000198919|ENST00000361582|DZIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.2161560058594 3 330.214922 987.622936 2.1821 0.00072055 -0.12001 -3.963E-05 2.0621 0.00068092 330.21493188783563 25.001 0.27637 25.63 25.448 25.724 0.62915 74 53 2 0 0 0 0.44001 1 11373 11373 25.399 1.3787 1 4337300 27861 5963 18021 18079 31419 31419 0.12862933819133104 RPKISLKF 8 Unmodified _RPKISLKF_ 0 0 0 ENSG00000198919|ENST00000361582|DZIP3;ENST00000495008.5_1_3:108355483-108366962:+|nuORF ENSG00000198919|ENST00000361582|DZIP3 ENSG00000198919|ENST00000361582|DZIP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.2158508300781 3 330.214922 987.622936 NaN NaN NaN NaN NaN NaN NaN 25.147 1 25.776 25.276 26.276 0.62915 0 0 0 0.87555 1 11516 11516 13.906 1.6654 1 27862 5963 18021 18079 31420 31420 0.12862933819133104 RPKLKAFL 8 Unmodified _RPKLKAFL_ 0 0 0 ENST00000494593.1_1_11:67353853-67354045:+|nuORF;ENST00000498765.5_1_11:67352240-67354045:+|nuORF;ENSG00000084207|ENST00000398606|GSTP1 ENST00000494593.1_1_11:67353853-67354045:+|nuORF ENST00000494593.1_1_11:67353853-67354045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 324.8840637207031 3 324.883284 971.628021 2.4496 0.00079583 0.30046 9.7615E-05 2.7501 0.00089345 324.88338913469016 28.171 0.18241 28.171 28.075 28.258 0 26 14 2 0 0 0 0.19187 1 12709 12709 43.858 18.459 1 454890 27863 953 18022 18080 31421 31421 0.14107237681730567 RPKLKAFL 8 Unmodified _RPKLKAFL_ 0 0 0 ENST00000494593.1_1_11:67353853-67354045:+|nuORF;ENST00000498765.5_1_11:67352240-67354045:+|nuORF;ENSG00000084207|ENST00000398606|GSTP1 ENST00000494593.1_1_11:67353853-67354045:+|nuORF ENST00000494593.1_1_11:67353853-67354045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 324.884033203125 3 324.883284 971.628021 2.3633 0.00076779 0.22193 7.2101E-05 2.5852 0.00083989 324.883266358509 27.146 0.22652 27.925 27.814 28.041 0.7787 28 16 2 0 0 0 0.090253 1 12193 12193 54.774 35.517 1 427690 27864 953 18022 18080 31422 31422 0.14107237681730567 RPKLKAFL 8 Unmodified _RPKLKAFL_ 0 0 0 ENST00000494593.1_1_11:67353853-67354045:+|nuORF;ENST00000498765.5_1_11:67352240-67354045:+|nuORF;ENSG00000084207|ENST00000398606|GSTP1 ENST00000494593.1_1_11:67353853-67354045:+|nuORF ENST00000494593.1_1_11:67353853-67354045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.88421630859375 3 324.883284 971.628021 2.2298 0.00072443 0.51948 0.00016877 2.7493 0.0008932 324.8834066016368 27.902 0.37763 28.164 27.97 28.348 0.26245 59 24 3 0 0 0 0.11358 2 12656 12656;12708 52.268 26.869 1 961860 27865 953 18022 18080 31423;31424 31423 0.14107237681730567 RPKLKAFL 8 Unmodified _RPKLKAFL_ 0 0 0 ENST00000494593.1_1_11:67353853-67354045:+|nuORF;ENST00000498765.5_1_11:67352240-67354045:+|nuORF;ENSG00000084207|ENST00000398606|GSTP1 ENST00000494593.1_1_11:67353853-67354045:+|nuORF ENST00000494593.1_1_11:67353853-67354045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.8228759765625 2 486.821287 971.628021 2.9896 0.0014554 0.33022 0.00016076 3.3199 0.0016162 486.8214139846482 27.862 0.23366 28.124 28.033 28.266 0.26245 20 14 2 0 0 0 0.54363 1 12677 12677 23.148 5.0134 1 230220 27866 953 18022 18080 31425 31425 0.14107237681730567 RPKLKAFL 8 Unmodified _RPKLKAFL_ 0 0 0 ENST00000494593.1_1_11:67353853-67354045:+|nuORF;ENST00000498765.5_1_11:67352240-67354045:+|nuORF;ENSG00000084207|ENST00000398606|GSTP1 ENST00000494593.1_1_11:67353853-67354045:+|nuORF ENST00000494593.1_1_11:67353853-67354045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.8842468261719 3 324.883284 971.628021 2.1097 0.00068541 0.85554 0.00027795 2.9652 0.00096336 324.8835187849572 27.494 0.39771 28.116 27.927 28.324 0.62179 58 26 3 0 0 0 0.11358 2 12619 12569;12619 52.268 21.632 1 946440 27867 953 18022 18080 31426;31427 31427 0.14107237681730567 RPKLKAFL 8 Unmodified _RPKLKAFL_ 0 0 0 ENST00000494593.1_1_11:67353853-67354045:+|nuORF;ENST00000498765.5_1_11:67352240-67354045:+|nuORF;ENSG00000084207|ENST00000398606|GSTP1 ENST00000494593.1_1_11:67353853-67354045:+|nuORF ENST00000494593.1_1_11:67353853-67354045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.77825927734375 2 486.821287 971.628021 3.1078 0.0015129 0.69503 0.00033836 3.8028 0.0018513 486.8216072028861 27.505 0.26708 28.127 27.973 28.24 0.62178 28 18 2 0 0 0 0.45971 2 12621 12580;12621 23.148 12.904 1 241550 27868 953 18022 18080 31428;31429 31429 0.14107237681730567 RPKPIITSV 9 Unmodified _RPKPIITSV_ 0 0 0 ENSG00000168802|ENST00000448552|CHTF8 ENSG00000168802|ENST00000448552|CHTF8 ENSG00000168802|ENST00000448552|CHTF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.82342529296875 2 505.821484 1009.62842 NaN NaN NaN NaN NaN NaN NaN 26.32 1 26.945 26.445 27.445 0.62505 0 0 0 0.90699 1 12067 12067 1.8442 0 1 27869 4652 18023 18081 31430 31430 0.12398612610934379 RPKPKIIQT 9 Unmodified _RPKPKIIQT_ 0 0 0 nc|ENSG00000159200|P53805-4|RCAN1;nc|ENSG00000159200|P53805-3|RCAN1;nc|ENSG00000159200|P53805-2|RCAN1;ENSG00000159200|ENST00000313806|RCAN1 nc|ENSG00000159200|P53805-4|RCAN1 nc|ENSG00000159200|P53805-4|RCAN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.9013977050781 3 360.901114 1079.68151 1.8049 0.00065138 -0.74283 -0.00026809 1.062 0.00038329 360.90080966402337 12.349 0.032721 12.656 12.64 12.672 0.30727 5 3 2 0 0 0 0.21127 1 5560 5560 22.658 17.761 1 6779500 27870 4015 18024 18082 31431 31431 0.14485990393609427 RPKPKIIQT 9 Unmodified _RPKPKIIQT_ 0 0 0 nc|ENSG00000159200|P53805-4|RCAN1;nc|ENSG00000159200|P53805-3|RCAN1;nc|ENSG00000159200|P53805-2|RCAN1;ENSG00000159200|ENST00000313806|RCAN1 nc|ENSG00000159200|P53805-4|RCAN1 nc|ENSG00000159200|P53805-4|RCAN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.9015808105469 3 360.901114 1079.68151 2.9195 0.0010537 -1.2908 -0.00046586 1.6287 0.00058779 360.9006400458405 12.34 0.04196 12.978 12.961 13.003 0.63746 5 3 2 0 0 0 0.076469 1 5518 5518 38.615 18.2 1 4479600 27871 4015 18024 18082 31432 31432 0.14485990393609427 RPKPLLLKLL 10 Unmodified _RPKPLLLKLL_ 0 0 0 nc|ENSG00000135679|Q00987-7|MDM2;ENST00000493419.1_1_12:69202221-69210726:+|nuORF;nc|ENSG00000135679|Q00987-5|MDM2;nc|ENSG00000135679|Q00987-10|MDM2;nc|ENSG00000135679|Q00987-9|MDM2;nc|ENSG00000135679|Q00987|MDM2;ENSG00000135679|ENST00000258149|MDM2 nc|ENSG00000135679|Q00987-7|MDM2 nc|ENSG00000135679|Q00987-7|MDM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 595.9271850585938 2 595.921001 1189.82745 NaN NaN NaN NaN NaN NaN NaN 85.359 1 85.359 84.859 85.859 0 0 0 0 1.002 1 43441 43441 0 0 1 27872 2888 18025 18083 31433 31433 0.24012872909656835 RPKPLLLKLL 10 Unmodified _RPKPLLLKLL_ 0 0 0 nc|ENSG00000135679|Q00987-7|MDM2;ENST00000493419.1_1_12:69202221-69210726:+|nuORF;nc|ENSG00000135679|Q00987-5|MDM2;nc|ENSG00000135679|Q00987-10|MDM2;nc|ENSG00000135679|Q00987-9|MDM2;nc|ENSG00000135679|Q00987|MDM2;ENSG00000135679|ENST00000258149|MDM2 nc|ENSG00000135679|Q00987-7|MDM2 nc|ENSG00000135679|Q00987-7|MDM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 596.1035766601562 2 595.921001 1189.82745 NaN NaN NaN NaN NaN NaN NaN 96.255 1 96.331 95.831 96.831 0.076538 0 0 0 1.002 1 51098 51098 0 0 1 27873 2888 18025 18083 31434 31434 0.24012872909656835 RPKQLTKKKKK 11 Unmodified _RPKQLTKKKKK_ 0 0 0 REV__ENST00000426826.2_1_1:150026325-150026897:+|nuORF REV__ENST00000426826.2_1_1:150026325-150026897:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 691.97265625 2 691.969545 1381.92454 NaN NaN NaN NaN NaN NaN NaN 44.97 1 44.97 44.47 45.47 0 0 0 0 1.0082 1 20562 20562 0 0 1 + 27874 16220 18026 18084 31435 31435 0.24885235118608762 RPKRIRRPKI 10 Unmodified _RPKRIRRPKI_ 0 0 0 REV__ENST00000418132.7_1_17:38296747-38323177:+|nuORF REV__ENST00000418132.7_1_17:38296747-38323177:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 660.447021484375 2 660.446572 1318.87859 NaN NaN NaN NaN NaN NaN NaN 108.94 1 109.25 108.75 109.75 0.31168 0 0 0 1.002 1 50231 50231 0 0 1 + 27875 11139 18027 18085 31436 31436 0.2319063472707512 RPKRIRRRP 9 Unmodified _RPKRIRRRP_ 0 0 0 REV__ENST00000276520.12_1_8:38645194-38645254:+|nuORF REV__ENST00000276520.12_1_8:38645194-38645254:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 309.5252990722656 4 309.457445 1233.80067 2.5594 0.00079202 0.075573 2.3387E-05 2.635 0.00081541 309.4567714253865 30.268 0.32598 30.526 30.49 30.816 0.25804 28 16 3 0 0 0 0.11436 1 13886 13886 0.23584 0 1 474150 + 27876 15077 18028 18086 31437 31437 0.19312621861695334 RPKRIRRRP 9 Unmodified _RPKRIRRRP_ 0 0 0 REV__ENST00000276520.12_1_8:38645194-38645254:+|nuORF REV__ENST00000276520.12_1_8:38645194-38645254:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 309.457445 1233.80067 2.1481 0.00066475 -1.2139 -0.00037565 0.93422 0.0002891 309.4567835051409 29.827 0.22505 30.445 30.258 30.483 0.61789 -0.040603 -0.00039624 NaN 0.23584 16 13 3 NaN NaN NaN NaN 0 NaN NaN 0 700690 + 27877 15077 18028 18086 0.19312621861695334 RPKVKHIL 8 Unmodified _RPKVKHIL_ 0 0 0 nc|nan|Q8N4C9-2|C17orf78;ENSG00000278505|ENST00000615133|C17orf78 nc|nan|Q8N4C9-2|C17orf78 nc|nan|Q8N4C9-2|C17orf78 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.8347473144531 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 59.428 1 60.177 59.677 60.677 0.74927 0 0 0 0.99035 1 27306 27306 5.7604 0 1 27878 6360 18029 18087 31438 31438 0.15458042430316254 RPLALRLLKPK 11 Unmodified _RPLALRLLKPK_ 0 0 0 ENST00000379160.3_1_20:5100338-5107184:-|nuORF ENST00000379160.3_1_20:5100338-5107184:-|nuORF ENST00000379160.3_1_20:5100338-5107184:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 652.9473876953125 2 652.948082 1303.88161 NaN NaN NaN NaN NaN NaN NaN 38.961 1 39.225 38.725 39.725 0.26408 0 0 0 1.0082 1 17730 17730 0 0 1 27879 7446 18030 18088 31439 31439 0.24182465061176117 RPLGAVPR 8 Unmodified _RPLGAVPR_ 0 0 0 ENST00000529542.1_1_19:46825061-46834596:+|nuORF;nc|ENSG00000124440|Q9Y2N7-6|HIF3A;nc|ENSG00000124440|Q9Y2N7-7|HIF3A;nc|ENSG00000124440|Q9Y2N7-5|HIF3A;nc|ENSG00000124440|Q9Y2N7-3|HIF3A;ENST00000244302.8_1_19:46800333-46834596:+|nuORF;nc|ENSG00000124440|Q9Y2N7-2|HIF3A;ENSG00000124440|ENST00000377670|HIF3A ENST00000529542.1_1_19:46825061-46834596:+|nuORF ENST00000529542.1_1_19:46825061-46834596:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 433.2732849121094 2 433.271961 864.52937 NaN NaN NaN NaN NaN NaN NaN 64.66 1 65.317 64.817 65.817 0.65672 0 0 0 0.99035 1 29641 29641 4.756 0 1 27880 2360 18031 18089 31440 31440 0.09168634436696266 RPLHKKLV 8 Unmodified _RPLHKKLV_ 0 0 0 nc|ENSG00000128512|Q8N1I0-2|DOCK4;nc|ENSG00000128512|Q8N1I0|DOCK4;ENSG00000128512|ENST00000428084|DOCK4 nc|ENSG00000128512|Q8N1I0-2|DOCK4 nc|ENSG00000128512|Q8N1I0-2|DOCK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 495.8342590332031 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 76.701 1 77.325 76.825 77.825 0.62397 0 0 0 0.99035 1 37185 37185 2.3027 0 1 27881 2513 18032 18090 31441 31441 0.15458042430327623 RPLKFTDL 8 Unmodified _RPLKFTDL_ 0 0 0 REV__ENST00000544591.1_1_12:10710036-10710147:+|nuORF REV__ENST00000544591.1_1_12:10710036-10710147:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.5316467285156 3 330.530798 988.570566 2.2364 0.0007392 0.79687 0.00026339 3.0333 0.0010026 330.53109411790433 38.409 0.72668 38.673 38.066 38.793 0.26408 39 22 2 0 0 0 0.3435 1 17493 17493 32.305 3.2239 1 1444900 + 27882 17240 18033 18091 31442 31442 0.07582350685515848 RPLKFTDL 8 Unmodified _RPLKFTDL_ 0 0 0 REV__ENST00000544591.1_1_12:10710036-10710147:+|nuORF REV__ENST00000544591.1_1_12:10710036-10710147:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.531494140625 3 330.530798 988.570566 2.1424 0.00070814 0.47062 0.00015555 2.6131 0.00086369 330.53099027295826 37.872 0.78325 38.506 37.919 38.703 0.63388 56 26 3 0 0 0 0.4188 2 17304 17304;17353 26.884 6.43 1 778190 + 27883 17240 18033 18091 31443;31444 31443 0.07582350685515848 RPLKKILLRK 10 Unmodified _RPLKKILLRK_ 0 0 0 REV__nc|ENSG00000114374|O00507-2|USP9Y REV__nc|ENSG00000114374|O00507-2|USP9Y MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.9486083984375 2 632.950624 1263.8867 NaN NaN NaN NaN NaN NaN NaN 57.866 1 58.635 58.135 59.135 0.76861 0 0 0 1.002 1 26525 26525 0 0 1 + 27884 11320 18034 18092 31445 31445 0.2653076892381705 RPLKLPRRLLR 11 Unmodified _RPLKLPRRLLR_ 0 0 0 ENST00000451837.5_1_22:24056493-24059477:-|nuORF;ENST00000452737.5_1_22:24056401-24059477:-|nuORF;nc|ENSG00000272578|Q6P575|GUSBP11 ENST00000451837.5_1_22:24056493-24059477:-|nuORF ENST00000451837.5_1_22:24056493-24059477:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 709.48388671875 2 709.483154 1416.95176 NaN NaN NaN NaN NaN NaN NaN 54.182 1 54.182 53.682 54.682 0 0 0 0 1.0082 1 24849 24849 0 0 1 27885 8021 18035 18093 31446 31446 0.25995763449691367 RPLKLPRRLLR 11 Unmodified _RPLKLPRRLLR_ 0 0 0 ENST00000451837.5_1_22:24056493-24059477:-|nuORF;ENST00000452737.5_1_22:24056401-24059477:-|nuORF;nc|ENSG00000272578|Q6P575|GUSBP11 ENST00000451837.5_1_22:24056493-24059477:-|nuORF ENST00000451837.5_1_22:24056493-24059477:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 709.1535034179688 2 709.483154 1416.95176 NaN NaN NaN NaN NaN NaN NaN 45.76 1 46.411 45.911 46.911 0.65104 0 0 0 1.0082 1 20966 20966 0 0 1 27886 8021 18035 18093 31447 31447 0.25995763449691367 RPLKRAAA 8 Unmodified _RPLKRAAA_ 0 0 0 REV__CON__REFSEQ:XP_932229 REV__CON__REFSEQ:XP_932229 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 882.5682983398438 1 882.563195 881.555919 4.752 0.0041939 -0.59214 -0.0005226 4.1599 0.0036713 882.5627208170966 103.02 0.13631 103.34 103.29 103.42 0.31863 7 4 2 0 0 0 0.7471 1 47660 47660 0 0 1 308760 + + 27887 10109 18036 18094 31448 31448 0.11040323328018076 RPLLAALA 8 Unmodified _RPLLAALA_ 0 0 0 ENSG00000176387|ENST00000326152|HSD11B2 ENSG00000176387|ENST00000326152|HSD11B2 ENSG00000176387|ENST00000326152|HSD11B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.7710266113281 2 412.771263 823.527973 NaN NaN NaN NaN NaN NaN NaN 15.417 1 15.723 15.223 16.223 0.306 0 0 0 0.99035 1 6971 6971 0 0 1 27888 5075 18037 18095 31449 31449 0.10915000347927162 RPLLLLLLLLL 11 Unmodified _RPLLLLLLLLL_ 0 0 0 nc|ENSG00000185896|P11279-2|LAMP1;ENSG00000185896|ENST00000332556|LAMP1;LAMP1|p.K152Nfs*12|1|0.38|ENSG00000185896|chr13:113310756-113310756|A/-|frameshift_variant nc|ENSG00000185896|P11279-2|LAMP1 nc|ENSG00000185896|P11279-2|LAMP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 645.4686889648438 2 645.467784 1288.92102 NaN NaN NaN NaN NaN NaN NaN 39.48 1 40.118 39.618 40.618 0.63778 0 0 0 1.0082 1 18042 18042 0 0 1 27889 5539 18038 18096 31450 31450 0.2881117229210304 RPLLSHFL 8 Unmodified _RPLLSHFL_ 0 0 0 ENST00000264934.5_1_5:32230418-32242200:-|nuORF ENST00000264934.5_1_5:32230418-32242200:-|nuORF ENST00000264934.5_1_5:32230418-32242200:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.2004089355469 3 328.199272 981.575986 NaN NaN NaN NaN NaN NaN NaN 43.075 1 43.889 43.389 44.389 0.81444 0 0 0 0.99035 1 19601 19601 3.2813 0 1 27890 6614 18039 18097 31451 31451 0.08446074267999393 RPLLSHFL 8 Unmodified _RPLLSHFL_ 0 0 0 ENST00000264934.5_1_5:32230418-32242200:-|nuORF ENST00000264934.5_1_5:32230418-32242200:-|nuORF ENST00000264934.5_1_5:32230418-32242200:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.2006530761719 3 328.199272 981.575986 NaN NaN NaN NaN NaN NaN NaN 43.838 1 44.107 43.607 44.607 0.2694 0 0 0 0.99035 1 20026 20026 3.2813 0 1 27891 6614 18039 18097 31452 31452 0.08446074267999393 RPLLSLQW 8 Unmodified _RPLLSLQW_ 0 0 0 ENST00000589104.5_1_19:5070919-5151519:+|nuORF;nc|ENSG00000127663|O94953|KDM4B;ENSG00000127663|ENST00000159111|KDM4B ENST00000589104.5_1_19:5070919-5151519:+|nuORF ENST00000589104.5_1_19:5070919-5151519:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.21234130859375 3 338.202793 1011.58655 2.4451 0.00082695 -0.025648 -8.6743E-06 2.4195 0.00081827 338.2028018937401 39.338 0.32819 39.975 39.831 40.159 0.63778 25 11 3 0 0 0 0.13289 1 18047 18047 17.113 0 1 877920 27892 2489 18040 18098 31453 31453 0.08122056922411502 RPLLSLQW 8 Unmodified _RPLLSLQW_ 0 0 0 ENST00000589104.5_1_19:5070919-5151519:+|nuORF;nc|ENSG00000127663|O94953|KDM4B;ENSG00000127663|ENST00000159111|KDM4B ENST00000589104.5_1_19:5070919-5151519:+|nuORF ENST00000589104.5_1_19:5070919-5151519:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 338.202793 1011.58655 2.3851 0.00080663 0.58142 0.00019664 2.9665 0.0010033 338.2029324265421 40.109 0.40845 40.109 39.845 40.253 0 0.068291 0.0002936 NaN 17.113 42 15 3 NaN NaN NaN NaN 0 NaN NaN 0 883520 27893 2489 18040 18098 0.08122056922411502 RPLLSLQW 8 Unmodified _RPLLSLQW_ 0 0 0 ENST00000589104.5_1_19:5070919-5151519:+|nuORF;nc|ENSG00000127663|O94953|KDM4B;ENSG00000127663|ENST00000159111|KDM4B ENST00000589104.5_1_19:5070919-5151519:+|nuORF ENST00000589104.5_1_19:5070919-5151519:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 338.202793 1011.58655 2.4987 0.00084508 0.14284 4.8308E-05 2.6416 0.00089338 338.20291752677684 39.771 0.34551 40.038 39.853 40.199 0.26696 -0.0030282 -0.00015139 NaN 17.113 30 11 3 NaN NaN NaN NaN 0 NaN NaN 0 1179000 27894 2489 18040 18098 0.08122056922411502 RPLLSNLIS 9 Unmodified _RPLLSNLIS_ 0 0 0 REV__nc|ENSG00000067177|P46020-3|PHKA1 REV__nc|ENSG00000067177|P46020-3|PHKA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 338.21051025390625 3 338.209836 1011.60768 2.3873 0.00080739 0.94066 0.00031814 3.3279 0.0011255 338.2102085482117 40.322 0.29626 40.322 40.172 40.468 0 19 9 3 0 0 0 0.057945 1 18280 18280 34.222 11.447 1 1214000 + 27895 10449 18041 18099 31454 31454 0.10234022231293238 RPLLSNLIS 9 Unmodified _RPLLSNLIS_ 0 0 0 REV__nc|ENSG00000067177|P46020-3|PHKA1 REV__nc|ENSG00000067177|P46020-3|PHKA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.2120666503906 3 338.209836 1011.60768 2.5483 0.00086186 1.7193 0.0005815 4.2677 0.0014434 338.2106935571709 39.973 0.38229 40.24 40.103 40.485 0.26696 36 15 3 0 0 0 0.048676 1 18189 18189 37.075 8.841 1 3046800 + 27896 10449 18041 18099 31455 31455 0.10234022231293238 RPLLSNLIS 9 Unmodified _RPLLSNLIS_ 0 0 0 REV__nc|ENSG00000067177|P46020-3|PHKA1 REV__nc|ENSG00000067177|P46020-3|PHKA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.21234130859375 3 338.209836 1011.60768 2.4843 0.00084022 1.6707 0.00056506 4.1551 0.0014053 338.2105698686889 39.528 0.32727 40.166 39.997 40.325 0.63778 31 15 3 0 0 0 0.071132 1 18047 18047 30.703 8.904 1 3593800 + 27897 10449 18041 18099 31456 31456 0.10234022231293238 RPLLSNLIS 9 Unmodified _RPLLSNLIS_ 0 0 0 REV__nc|ENSG00000067177|P46020-3|PHKA1 REV__nc|ENSG00000067177|P46020-3|PHKA1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 338.209836 1011.60768 2.3873 0.00080739 0.94066 0.00031814 3.3279 0.0011255 338.2102085482117 40.322 0.29626 40.322 40.172 40.468 0 0.13824 -0.00040064 NaN 37.075 19 9 3 NaN NaN NaN NaN 0 NaN NaN 0 1214000 + 27898 10449 18041 18099 0.10234022231293238 RPLLSNLIS 9 Unmodified _RPLLSNLIS_ 0 0 0 REV__nc|ENSG00000067177|P46020-3|PHKA1 REV__nc|ENSG00000067177|P46020-3|PHKA1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 338.209836 1011.60768 2.3413 0.00079185 1.0664 0.00036068 3.4077 0.0011525 338.2102823803037 39.21 0.35876 40.007 39.873 40.232 0.79762 -0.17624 -0.00027303 NaN 37.075 37 16 3 NaN NaN NaN NaN 0 NaN NaN 0 1097600 + 27899 10449 18041 18099 0.10234022231293238 RPLLSNLIS 9 Unmodified _RPLLSNLIS_ 0 0 0 REV__nc|ENSG00000067177|P46020-3|PHKA1 REV__nc|ENSG00000067177|P46020-3|PHKA1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 338.209836 1011.60768 2.4843 0.00084022 1.6707 0.00056506 4.1551 0.0014053 338.2105698686889 39.528 0.32727 40.166 39.997 40.325 0.63778 -0.017967 0.00034013 NaN 37.075 31 15 3 NaN NaN NaN NaN 0 NaN NaN 0 3593800 + 27900 10449 18041 18099 0.10234022231293238 RPLLSPVLIRA 11 Unmodified _RPLLSPVLIRA_ 0 0 0 REV__ENST00000013070.10_1_14:93694016-93694247:+|nuORF REV__ENST00000013070.10_1_14:93694016-93694247:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.27386474609375 3 412.271319 1233.79213 NaN NaN NaN NaN NaN NaN NaN 42.318 1 42.588 42.088 43.088 0.27021 0 0 0 1.0053 1 19299 19299 3.8459 0 1 + 27901 14775 18042 18100 31457 31457 0.18458210381845674 RPLPRRRKR 9 Unmodified _RPLPRRRKR_ 0 0 0 REV__ENST00000298966.2_11:93232511-93276567:-|nuORF REV__ENST00000298966.2_11:93232511-93276567:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 309.4581298828125 4 309.457445 1233.80067 2.1784 0.00067411 0.22043 6.8212E-05 2.3988 0.00074232 309.4575893049668 45.722 0.80688 45.989 45.62 46.426 0.26768 52 32 2 0 0 0 1.231 1 20918 20918 0.23584 0 1 1378900 + 27902 15173 18043 18101 31458 31458 0.19312621861672596 RPLPRRRKR 9 Unmodified _RPLPRRRKR_ 0 0 0 REV__ENST00000298966.2_11:93232511-93276567:-|nuORF REV__ENST00000298966.2_11:93232511-93276567:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 309.457445 1233.80067 2.3768 0.0007355 0.52536 0.00016258 2.9021 0.00089808 309.4576079656476 45.442 0.35793 46.093 45.911 46.269 0.65104 0.051904 0.00021668 NaN 0.23584 25 16 2 NaN NaN NaN NaN 0 NaN NaN 0 481860 + 27903 15173 18043 18101 0.19312621861672596 RPLPTQIHIK 10 Unmodified _RPLPTQIHIK_ 0 0 0 ENSG00000123066|ENST00000281928|MED13L;ENST00000548694.1_1_12:116413318-116418680:-|nuORF ENSG00000123066|ENST00000281928|MED13L ENSG00000123066|ENST00000281928|MED13L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 601.876953125 2 601.87204 1201.72953 NaN NaN NaN NaN NaN NaN NaN 5.1772 1 5.8001 5.3001 6.3001 0.62294 0 0 0 1.0019 1 2349 2349 0.35063 0 1 27904 2290 18044 18102 31459 31459 0.1367306431363886 RPLQLSRS 8 Unmodified _RPLQLSRS_ 0 0 0 REV__ENST00000401985.3_1_5:179221106-179223480:+|nuORF REV__ENST00000401985.3_1_5:179221106-179223480:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.787353515625 2 478.785433 955.556313 3.2596 0.0015607 -0.10082 -4.8269E-05 3.1588 0.0015124 478.78538443618936 86.446 0.30228 87.117 86.955 87.258 0.67061 23 14 2 0 0 0 0.7441 1 39852 39852 2.3027 0 1 1784100 + 27905 16048 18045 18103 31460 31460 0.0767569825721921 RPLQLSRS 8 Unmodified _RPLQLSRS_ 0 0 0 REV__ENST00000401985.3_1_5:179221106-179223480:+|nuORF REV__ENST00000401985.3_1_5:179221106-179223480:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 478.785433 955.556313 3.2596 0.0015607 -0.10082 -4.8269E-05 3.1588 0.0015124 478.78538443618936 86.446 0.30228 87.117 86.955 87.258 0.67061 0.06031 -0.00012516 NaN 2.3027 23 14 2 NaN NaN NaN NaN 0 NaN NaN 0 1784100 + 27906 16048 18045 18103 0.0767569825721921 RPLRAHRRQRV 11 Unmodified _RPLRAHRRQRV_ 0 0 0 ENST00000321599.8_2_3:49770337-49775792:-|nuORF ENST00000321599.8_2_3:49770337-49775792:-|nuORF ENST00000321599.8_2_3:49770337-49775792:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.6351013183594 3 482.299265 1443.87596 1.8284 0.00088183 1.0679 0.00051507 2.8963 0.0013969 482.63433691369687 101.16 0.081696 101.22 101.17 101.25 0.059723 5 3 2 0 0 0 0.91359 1 54943 54943 0.40827 0.31342 1 4195500 27907 6932 18046 18104 31461 31461 0.17178179322081633 RPLRDKKASL 10 Unmodified _RPLRDKKASL_ 0 0 0 REV__nc|ENSG00000168016|O15050|TRANK1 REV__nc|ENSG00000168016|O15050|TRANK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.2486267089844 3 395.247173 1182.71969 2.7472 0.0010858 -0.16079 -6.3552E-05 2.5864 0.0010223 395.2471477272661 15.527 0.89386 15.833 15.455 16.349 0.306 211 100 3 0 0 0 0.93788 1 6898 6898 0.56317 0.057215 1 119180 + 27908 13323 18047 18105 31462 31462 0.1356387630826248 RPLRDKKASL 10 Unmodified _RPLRDKKASL_ 0 0 0 REV__nc|ENSG00000168016|O15050|TRANK1 REV__nc|ENSG00000168016|O15050|TRANK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.24835205078125 3 395.247173 1182.71969 2.9237 0.0011556 0.61112 0.00024154 3.5348 0.0013971 395.24743836740134 15.913 1.1347 16.571 16.132 17.267 0.65798 275 142 3 0 0 0 0.93628 1 7061 7061 0.69767 0.19171 1 127730 + 27909 13323 18047 18105 31463 31463 0.1356387630826248 RPLRRKRLRF 10 Unmodified _RPLRRKRLRF_ 0 0 0 REV__ENST00000378223.3_1_1:3773558-3773771:-|nuORF REV__ENST00000378223.3_1_1:3773558-3773771:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.5315856933594 4 350.232374 1396.90039 2.5419 0.00089027 1.0302 0.00036082 3.5722 0.0012511 350.23248314501063 48.99 1.1981 49.646 49.173 50.371 0.65524 58 42 2 0 0 0 0.12676 1 22475 22475 0.13989 0 1 549680 + 27910 15848 18048 18106 31464 31464 0.21781439475603293 RPLSLLLALLC 11 Unmodified _RPLSLLLALLC_ 0 0 0 ENSG00000101384|ENST00000254958|JAG1 ENSG00000101384|ENST00000254958|JAG1 ENSG00000101384|ENST00000254958|JAG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 303.6943054199219 4 303.694064 1210.74715 1.8374 0.000558 -1.121 -0.00034043 0.71643 0.00021757 303.69366025598435 33.161 0.56832 33.161 32.727 33.295 0 101 39 3 0 0 0 0.91104 1 14906 14906 1.2148 1.2148 1 2303100 27911 1290 18049 18107 31465 31465 0.15020643524303523 RPLWFPRRI 9 Unmodified _RPLWFPRRI_ 0 0 0 ENST00000541961.5_1_11:66259062-66259225:+|nuORF ENST00000541961.5_1_11:66259062-66259225:+|nuORF ENST00000541961.5_1_11:66259062-66259225:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 310.9419860839844 4 310.941097 1239.73528 1.9763 0.00061451 1.5257 0.00047439 3.5019 0.0010889 310.94130964441723 50.352 0.39412 50.352 50.214 50.608 0 40 17 4 0 0 0 1.1154 1 23070 23070 1.0715 1.0715 1 1820800 27912 8813 18050 18108 31466 31466 0.12500207615971703 RPLWFPRRI 9 Unmodified _RPLWFPRRI_ 0 0 0 ENST00000541961.5_1_11:66259062-66259225:+|nuORF ENST00000541961.5_1_11:66259062-66259225:+|nuORF ENST00000541961.5_1_11:66259062-66259225:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 310.94207763671875 4 310.941097 1239.73528 2.198 0.00068345 0.90696 0.00028201 3.105 0.00096546 310.9411981022465 50.201 0.81408 50.463 49.946 50.76 0.26146 74 34 3 0 0 0 1.1154 1 22829 22829 1.0715 1.0715 1 2619700 27913 8813 18050 18108 31467 31467 0.12500207615971703 RPNRKDVVELK 11 Unmodified _RPNRKDVVELK_ 0 0 0 REV__nc|ENSG00000154655|Q8NA19-2|L3MBTL4 REV__nc|ENSG00000154655|Q8NA19-2|L3MBTL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.4042358398438 2 677.401692 1352.78883 NaN NaN NaN NaN NaN NaN NaN 60.329 1 61.078 60.578 61.578 0.74927 0 0 0 0.99227 1 27813 27813 12.873 6.2422 1 + 27914 12717 18051 18109 31468 31468 0.12654915537177658 RPNSIDPAL 9 Unmodified _RPNSIDPAL_ 0 0 0 ENSG00000165280|ENST00000358901|VCP;ENST00000493886.5_1_9:35057116-35062147:-|nuORF ENSG00000165280|ENST00000358901|VCP ENSG00000165280|ENST00000358901|VCP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.7714538574219 2 491.769448 981.524344 3.0153 0.0014828 0.1775 8.7289E-05 3.1928 0.0015701 491.7695070498147 35.961 0.44693 35.961 35.72 36.167 0 69 26 4 0 0 0 0.0079462 3 16275 16275;16320;16370 85.642 26.963 1 2456500 27915 4385 18052 18110 31469;31470;31471 31469 0.032842857833998096 RPNSIDPAL 9 Unmodified _RPNSIDPAL_ 0 0 0 ENSG00000165280|ENST00000358901|VCP;ENST00000493886.5_1_9:35057116-35062147:-|nuORF ENSG00000165280|ENST00000358901|VCP ENSG00000165280|ENST00000358901|VCP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.7710266113281 2 491.769448 981.524344 3.1875 0.0015675 -0.012095 -5.9478E-06 3.1754 0.0015616 491.76938798242037 35.031 0.41636 35.822 35.654 36.071 0.79131 63 26 3 0 0 0 0.014491 3 15895 15844;15895;15943 75.761 19.584 1 1810000 27916 4385 18052 18110 31472;31473;31474 31473 0.032842857833998096 RPNSIDPAL 9 Unmodified _RPNSIDPAL_ 0 0 0 ENSG00000165280|ENST00000358901|VCP;ENST00000493886.5_1_9:35057116-35062147:-|nuORF ENSG00000165280|ENST00000358901|VCP ENSG00000165280|ENST00000358901|VCP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7710266113281 2 491.769448 981.524344 3.1472 0.0015477 -0.21259 -0.00010454 2.9346 0.0014432 491.7693763000626 35.761 0.53849 36.016 35.777 36.315 0.25524 58 22 4 0 0 0 0.0029142 3 16287 16237;16287;16337 96.111 28.03 1 2800200 27917 4385 18052 18110 31475;31476;31477 31476 0.032842857833998096 RPNSIDPAL 9 Unmodified _RPNSIDPAL_ 0 0 0 ENSG00000165280|ENST00000358901|VCP;ENST00000493886.5_1_9:35057116-35062147:-|nuORF ENSG00000165280|ENST00000358901|VCP ENSG00000165280|ENST00000358901|VCP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.77099609375 2 491.769448 981.524344 3.2646 0.0016054 0.14032 6.9003E-05 3.4049 0.0016744 491.7694708105213 35.345 0.37386 35.972 35.793 36.167 0.62631 32 11 3 0 0 0 0.0079462 2 16214 16162;16214 85.642 26.963 1 2589300 27918 4385 18052 18110 31478;31479 31479 0.032842857833998096 RPNVGRGG 8 Unmodified _RPNVGRGG_ 0 0 0 REV__ENST00000356016.7_1_10:98592747-98593206:+|nuORF REV__ENST00000356016.7_1_10:98592747-98593206:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.25 2 406.727918 811.441283 2.898 0.0011787 0.72502 0.00029489 3.623 0.0014736 406.7282836672977 82.976 0.41595 83.223 83.016 83.432 0.24722 47 21 3 0 0 0 0.14337 1 38143 38143 0.69038 0 1 3306600 + 27919 15550 18053 18111 31480 31480 0.028020138460988164 RPNVGRGG 8 Unmodified _RPNVGRGG_ 0 0 0 REV__ENST00000356016.7_1_10:98592747-98593206:+|nuORF REV__ENST00000356016.7_1_10:98592747-98593206:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.2494812011719 2 406.727918 811.441283 3.08 0.0012527 0.27853 0.00011329 3.3585 0.001366 406.72805745886853 82.633 0.52644 83.293 82.965 83.491 0.66019 71 31 3 0 0 0 0.14337 1 37975 37975 0.69038 0 1 3094800 + 27920 15550 18053 18111 31481 31481 0.028020138460988164 RPNWLALLIRK 11 Unmodified _RPNWLALLIRK_ 0 0 0 REV__ENSG00000134640|ENST00000257068|MTNR1B REV__ENSG00000134640|ENST00000257068|MTNR1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 690.4348754882812 2 690.435338 1378.85612 NaN NaN NaN NaN NaN NaN NaN 26.446 1 26.711 26.211 27.211 0.26489 0 0 0 1.0082 1 12016 12016 0 0 1 + 27921 11974 18054 18112 31482 31482 0.18184990538748025 RPPGRPAG 8 Unmodified _RPPGRPAG_ 0 0 0 KMT2B|p.D1819Mfs*70|1|0.11|ENSG00000272333|chr19:35731923-35731941|AGGACCCCCCACTGGACAC/-|frameshift_variant;ENSG00000272333|ENST00000420124|KMT2B KMT2B|p.D1819Mfs*70|1|0.11|ENSG00000272333|chr19:35731923-35731941|AGGACCCCCCACTGGACAC/-|frameshift_variant KMT2B|p.D1819Mfs*70|1|0.11|ENSG00000272333|chr19:35731923-35731941|AGGACCCCCCACTGGACAC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.23345947265625 2 404.232836 806.45112 2.1084 0.0008523 -0.35077 -0.00014179 1.7577 0.00071051 404.2326736460331 78.984 0.1861 78.984 78.875 79.061 0 23 14 2 0 0 0 0.7471 1 38987 38987 0.69038 0 1 3488400 27922 6335 18055 18113 31483 31483 0.04015201851461825 RPPIKKIKKRK 11 Unmodified _RPPIKKIKKRK_ 0 0 0 AluSg_dup32969|chr19:8369923-8370238:+|1.2725624925183865|0.3756702758649972|1.76|531.0|8|2|sense AluSg_dup32969|chr19:8369923-8370238:+|1.2725624925183865|0.3756702758649972|1.76|531.0|8|2|sense AluSg_dup32969|chr19:8369923-8370238:+|1.2725624925183865|0.3756702758649972|1.76|531.0|8|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 696.4867553710938 2 696.487905 1390.96126 NaN NaN NaN NaN NaN NaN NaN 96.193 1 96.801 96.301 97.301 0.60769 0 0 0 1.0082 1 44231 44231 0 0 1 27923 36 18056 18114 31484 31484 0.28141531735172975 RPPIKQLILH 10 Unmodified _RPPIKQLILH_ 0 0 0 REV__ENST00000419783.1_2_3:49394673-49394790:-|nuORF REV__ENST00000419783.1_2_3:49394673-49394790:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.5992736816406 3 405.595914 1213.76591 NaN NaN NaN NaN NaN NaN NaN 108.36 1 108.67 108.17 109.17 0.31168 0 0 0 1.0018 1 49973 49973 0.15932 0 1 + 27924 16161 18057 18115 31485 31485 0.16757941210380523 RPPKRKYLS 9 Unmodified _RPPKRKYLS_ 0 0 0 ENST00000470359.2_1_13:37621536-37625627:-|nuORF;nc|ENSG00000102710|Q8NEM7-2|SUPT20H;ENSG00000102710|ENST00000350612|SUPT20H;nc|ENSG00000102710|Q8NEM7-3|SUPT20H ENST00000470359.2_1_13:37621536-37625627:-|nuORF ENST00000470359.2_1_13:37621536-37625627:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 382.2370910644531 3 382.236497 1143.68766 1.9568 0.00074796 -0.036132 -1.3811E-05 1.9207 0.00073415 382.23646677203453 6.3273 0.50829 6.667 6.4651 6.9734 0.33974 141 66 3 0 0 0 1.231 1 2971 2971 0.23584 0 1 68956 27925 1351 18058 18116 31486 31486 0.12156508625139395 RPPKRKYLS 9 Unmodified _RPPKRKYLS_ 0 0 0 ENST00000470359.2_1_13:37621536-37625627:-|nuORF;nc|ENSG00000102710|Q8NEM7-2|SUPT20H;ENSG00000102710|ENST00000350612|SUPT20H;nc|ENSG00000102710|Q8NEM7-3|SUPT20H ENST00000470359.2_1_13:37621536-37625627:-|nuORF ENST00000470359.2_1_13:37621536-37625627:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 382.23712158203125 3 382.236497 1143.68766 NaN NaN NaN NaN NaN NaN NaN 8.4476 1 8.7538 8.2538 9.2538 0.30618 0 0 0 0.91356 1 3821 3821 0.23584 0 1 27926 1351 18058 18116 31487 31487 0.12156508625139395 RPPLHWVLLA 10 Unmodified _RPPLHWVLLA_ 0 0 0 nc|ENSG00000157992|Q53RY4-2|KRTCAP3;ENSG00000157992|ENST00000288873|KRTCAP3 nc|ENSG00000157992|Q53RY4-2|KRTCAP3 nc|ENSG00000157992|Q53RY4-2|KRTCAP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.3683471679688 2 601.36385 1200.71315 NaN NaN NaN NaN NaN NaN NaN 5.0249 1 5.3899 4.8899 5.8899 0.36497 0 0 0 1.0015 1 2280 2280 0.45834 0.057624 1 27927 3970 18059 18117 31488 31488 0.12081983147572828 RPPLLLLLLLL 11 Unmodified _RPPLLLLLLLL_ 0 0 0 nc|ENSG00000185033|Q9NPR2-2|SEMA4B;ENSG00000185033|ENST00000411539|SEMA4B;SEMA4B|p.N175Mfs*161|1|0.16|ENSG00000185033|chr15:90221007-90221008|-/GGACGAGAAGGGGATGTCCA|frameshift_variant nc|ENSG00000185033|Q9NPR2-2|SEMA4B;REV__nc|ENSG00000155093|Q92932-2|PTPRN2 nc|ENSG00000185033|Q9NPR2-2|SEMA4B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 637.279541015625 2 637.452134 1272.88972 NaN NaN NaN NaN NaN NaN NaN 93.93 1 94.561 94.061 95.061 0.63115 0 0 0 1.0082 1 43203 43203 0 0 1 27928 5480;12734 18060 18118 31489 31489 0.2641859925799963 RPPRKRRLRKL 11 Unmodified _RPPRKRRLRKL_ 0 0 0 REV__ENSG00000119986|ENST00000370626|AVPI1 REV__ENSG00000119986|ENST00000370626|AVPI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 738.80322265625 2 738.497127 1474.9797 NaN NaN NaN NaN NaN NaN NaN 104.23 1 104.23 103.73 104.73 0 0 0 0 1.0082 1 57374 57374 0 0 1 + 27929 11524 18061 18119 31490 31490 0.2612108642977091 RPPSFHLL 8 Unmodified _RPPSFHLL_ 0 0 0 ENST00000425690.7_1_19:45165089-45165437:+|nuORF ENST00000425690.7_1_19:45165089-45165437:+|nuORF ENST00000425690.7_1_19:45165089-45165437:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 322.85638427734375 3 322.855505 965.544686 2.2716 0.00073339 0.42265 0.00013646 2.6942 0.00086984 322.8554643144261 39.91 0.30204 40.71 40.531 40.833 0.80014 36 14 3 0 0 0 0.61796 1 18101 18101 9.3831 2.0939 1 2823500 27930 7798 18062 18120 31491 31491 0.06053501233895986 RPPVTPVLLE 10 Unmodified _RPPVTPVLLE_ 0 0 0 ENST00000462351.5_1_2:220160899-220172331:-|nuORF;nc|ENSG00000054356|Q16849-3|PTPRN;nc|ENSG00000054356|Q16849-2|PTPRN;ENSG00000054356|ENST00000295718|PTPRN ENST00000462351.5_1_2:220160899-220172331:-|nuORF ENST00000462351.5_1_2:220160899-220172331:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.8417358398438 2 560.839874 1119.66519 3.4287 0.001923 -0.22271 -0.0001249 3.206 0.0017981 560.839720407374 49.401 0.25884 49.401 49.297 49.556 0 17 10 2 0 0 0 0.75049 1 22678 22678 10.8 1.4164 1 1276900 27931 607 18063 18121 31492 31492 0.11014864436856442 RPPWRRWRPWF 11 Unmodified _RPPWRRWRPWF_ 0 0 0 ENST00000532024.1_1_11:70118214-70118385:+|nuORF ENST00000532024.1_1_11:70118214-70118385:+|nuORF ENST00000532024.1_1_11:70118214-70118385:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 820.446044921875 2 820.447103 1638.87965 NaN NaN NaN NaN NaN NaN NaN 82.331 1 82.416 81.916 82.916 0.084106 0 0 0 1.0082 1 40655 40655 0 0 1 27932 8731 18064 18122 31493 31493 0.08576849095948091 RPPWRRWRPWF 11 Unmodified _RPPWRRWRPWF_ 0 0 0 ENST00000532024.1_1_11:70118214-70118385:+|nuORF ENST00000532024.1_1_11:70118214-70118385:+|nuORF ENST00000532024.1_1_11:70118214-70118385:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 820.5299072265625 2 820.447103 1638.87965 NaN NaN NaN NaN NaN NaN NaN 97.796 1 98.085 97.585 98.585 0.28923 0 0 0 1.008 1 44944 44944 0.30703 0 1 27933 8731 18064 18122 31494 31494 0.08576849095948091 RPQGLLWL 8 Unmodified _RPQGLLWL_ 0 0 0 NLGN4X|p.R765Lfs*14|1|0.04|ENSG00000146938|chrX:5892979-5892980|-/AACATAGAAGA|frameshift_variant;nc|ENSG00000165246|Q8NFZ3|NLGN4Y;ENSG00000146938|ENST00000381095|NLGN4X;nc|ENSG00000146938|Q8N0W4-2|NLGN4X;ENSG00000165246|ENST00000684976|NLGN4Y;nc|ENSG00000165246|Q8NFZ3-4|NLGN4Y;ENST00000476359.1_1_Y:16733999-16863586:+|nuORF NLGN4X|p.R765Lfs*14|1|0.04|ENSG00000146938|chrX:5892979-5892980|-/AACATAGAAGA|frameshift_variant NLGN4X|p.R765Lfs*14|1|0.04|ENSG00000146938|chrX:5892979-5892980|-/AACATAGAAGA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.7974548339844 2 491.795269 981.575986 3.0528 0.0015013 1.4396 0.000708 4.4924 0.0022093 491.79587603630074 55.498 0.26127 55.498 55.381 55.642 0 41 19 3 0 0 0 0.69414 1 25518 25518 6.3541 0 1 3944900 27934 3539 18065 18123 31495 31495 0.08446074267999393 RPQGLLWL 8 Unmodified _RPQGLLWL_ 0 0 0 NLGN4X|p.R765Lfs*14|1|0.04|ENSG00000146938|chrX:5892979-5892980|-/AACATAGAAGA|frameshift_variant;nc|ENSG00000165246|Q8NFZ3|NLGN4Y;ENSG00000146938|ENST00000381095|NLGN4X;nc|ENSG00000146938|Q8N0W4-2|NLGN4X;ENSG00000165246|ENST00000684976|NLGN4Y;nc|ENSG00000165246|Q8NFZ3-4|NLGN4Y;ENST00000476359.1_1_Y:16733999-16863586:+|nuORF NLGN4X|p.R765Lfs*14|1|0.04|ENSG00000146938|chrX:5892979-5892980|-/AACATAGAAGA|frameshift_variant NLGN4X|p.R765Lfs*14|1|0.04|ENSG00000146938|chrX:5892979-5892980|-/AACATAGAAGA|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 491.795269 981.575986 2.7912 0.0013727 2.5931 0.0012753 5.3843 0.002648 491.79666027018294 54.836 0.23423 55.632 55.477 55.711 0.79552 0.098945 0.00070938 NaN 6.3541 27 13 3 NaN NaN NaN NaN 0 NaN NaN 0 2090700 27935 3539 18065 18123 0.08446074267999393 RPQGLLWL 8 Unmodified _RPQGLLWL_ 0 0 0 NLGN4X|p.R765Lfs*14|1|0.04|ENSG00000146938|chrX:5892979-5892980|-/AACATAGAAGA|frameshift_variant;nc|ENSG00000165246|Q8NFZ3|NLGN4Y;ENSG00000146938|ENST00000381095|NLGN4X;nc|ENSG00000146938|Q8N0W4-2|NLGN4X;ENSG00000165246|ENST00000684976|NLGN4Y;nc|ENSG00000165246|Q8NFZ3-4|NLGN4Y;ENST00000476359.1_1_Y:16733999-16863586:+|nuORF NLGN4X|p.R765Lfs*14|1|0.04|ENSG00000146938|chrX:5892979-5892980|-/AACATAGAAGA|frameshift_variant NLGN4X|p.R765Lfs*14|1|0.04|ENSG00000146938|chrX:5892979-5892980|-/AACATAGAAGA|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 491.795269 981.575986 2.9182 0.0014352 1.8238 0.00089692 4.742 0.0023321 491.79598309533 55.204 0.64675 55.469 55.16 55.807 0.26543 -0.063486 -4.7317E-05 NaN 6.3541 69 36 2 NaN NaN NaN NaN 0 NaN NaN 0 3764300 27936 3539 18065 18123 0.08446074267999393 RPQIRSEL 8 Unmodified _RPQIRSEL_ 0 0 0 ENSG00000162302|ENST00000334205|RPS6KA4;nc|ENSG00000162302|O75676-2|RPS6KA4;ENST00000532885.5_1_11:64129381-64135843:+|nuORF ENSG00000162302|ENST00000334205|RPS6KA4 ENSG00000162302|ENST00000334205|RPS6KA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 333.5308532714844 3 333.529569 997.566878 2.3691 0.00079018 0.55602 0.00018545 2.9252 0.00097563 333.52978066723074 14.57 0.17327 15.218 15.156 15.33 0.6482 30 19 2 0 0 0 0.68261 1 6568 6568 7.2892 0 1 405630 27937 4127 18066 18124 31496 31496 0.06799680911672112 RPQIRSEL 8 Unmodified _RPQIRSEL_ 0 0 0 ENSG00000162302|ENST00000334205|RPS6KA4;nc|ENSG00000162302|O75676-2|RPS6KA4;ENST00000532885.5_1_11:64129381-64135843:+|nuORF ENSG00000162302|ENST00000334205|RPS6KA4 ENSG00000162302|ENST00000334205|RPS6KA4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 333.529569 997.566878 2.1842 0.00072849 0.58033 0.00019356 2.7645 0.00092205 333.5297635637756 14.56 0.38385 14.867 14.779 15.163 0.3069 -0.17557 1.0441E-05 NaN 7.2892 56 29 3 NaN NaN NaN NaN 0 NaN NaN 0 331690 27938 4127 18066 18124 0.06799680911672112 RPQIRSEL 8 Unmodified _RPQIRSEL_ 0 0 0 ENSG00000162302|ENST00000334205|RPS6KA4;nc|ENSG00000162302|O75676-2|RPS6KA4;ENST00000532885.5_1_11:64129381-64135843:+|nuORF ENSG00000162302|ENST00000334205|RPS6KA4 ENSG00000162302|ENST00000334205|RPS6KA4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 333.529569 997.566878 2.3691 0.00079018 0.55602 0.00018545 2.9252 0.00097563 333.52978066723074 14.57 0.17327 15.218 15.156 15.33 0.6482 0.17557 -1.3883E-05 NaN 7.2892 30 19 2 NaN NaN NaN NaN 0 NaN NaN 0 405630 27939 4127 18066 18124 0.06799680911672112 RPRCLAVLP 9 Unmodified _RPRCLAVLP_ 0 0 0 nc|ENSG00000175221|Q9Y2X0-4|MED16 nc|ENSG00000175221|Q9Y2X0-4|MED16 nc|ENSG00000175221|Q9Y2X0-4|MED16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.8104248046875 2 512.807854 1023.60115 4.2283 0.0021683 0.9545 0.00048948 5.1828 0.0026578 512.8081221955816 100.23 0.15405 100.53 100.43 100.58 0.30834 10 5 3 0 0 0 0.95612 1 46378 46378 4.756 0 1 1050400 27940 9760 18067 18125 31497 31497 0.09029805798911639 RPRCLAVLP 9 Unmodified _RPRCLAVLP_ 0 0 0 nc|ENSG00000175221|Q9Y2X0-4|MED16 nc|ENSG00000175221|Q9Y2X0-4|MED16 nc|ENSG00000175221|Q9Y2X0-4|MED16 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 512.807854 1023.60115 3.5978 0.001845 2.3544 0.0012073 5.9522 0.0030523 512.8087966167518 100.17 0.07608 100.77 100.71 100.79 0.59717 0.11717 0.00095077 NaN 4.756 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 803550 27941 9760 18067 18125 0.09029805798911639 RPRCRRRRRRR 11 Unmodified _RPRCRRRRRRR_ 0 0 0 ENST00000447274.6_1_11:67056466-67056871:+|nuORF ENST00000447274.6_1_11:67056466-67056871:+|nuORF ENST00000447274.6_1_11:67056466-67056871:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.0006103515625 3 542.001447 1622.98251 NaN NaN NaN NaN NaN NaN NaN 44.995 1 45.821 45.321 46.321 0.82621 0 0 0 1.0082 1 20490 20490 0 0 1 27942 7984 18068 18126 31498 31498 0.19594031335623185 RPRCRRRRRRR 11 Unmodified _RPRCRRRRRRR_ 0 0 0 ENST00000447274.6_1_11:67056466-67056871:+|nuORF ENST00000447274.6_1_11:67056466-67056871:+|nuORF ENST00000447274.6_1_11:67056466-67056871:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.00244140625 3 542.001447 1622.98251 NaN NaN NaN NaN NaN NaN NaN 66.21 1 66.915 66.415 67.415 0.7047 0 0 0 1.0082 1 31372 31372 0 0 1 27943 7984 18068 18126 31499 31499 0.19594031335623185 RPRCRRRRRRR 11 Unmodified _RPRCRRRRRRR_ 0 0 0 ENST00000447274.6_1_11:67056466-67056871:+|nuORF ENST00000447274.6_1_11:67056466-67056871:+|nuORF ENST00000447274.6_1_11:67056466-67056871:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 812.49609375 2 812.498533 1622.98251 NaN NaN NaN NaN NaN NaN NaN 59.238 1 59.497 58.997 59.997 0.2593 0 0 0 1.0082 1 27127 27127 0 0 1 27944 7984 18068 18126 31500 31500 0.19594031335623185 RPRDKQMEL 9 Unmodified _RPRDKQMEL_ 0 0 0 ENSG00000109854|ENST00000451739|HTATIP2;nc|ENSG00000109854|Q9BUP3-3|HTATIP2 ENSG00000109854|ENST00000451739|HTATIP2 ENSG00000109854|ENST00000451739|HTATIP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.5460205078125 3 391.545002 1171.61318 2.2248 0.00087112 0.14625 5.7264E-05 2.3711 0.00092839 391.5450449435488 12.679 0.14855 12.987 12.909 13.058 0.30727 9 4 3 0 0 0 0.10584 1 5736 5736 23.801 9.5829 1 1297300 27945 1689 18069 18127 31501 31501 0.03423377751460066 RPRDKQMEL 9 Unmodified _RPRDKQMEL_ 0 0 0 ENSG00000109854|ENST00000451739|HTATIP2;nc|ENSG00000109854|Q9BUP3-3|HTATIP2 ENSG00000109854|ENST00000451739|HTATIP2 ENSG00000109854|ENST00000451739|HTATIP2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 391.545002 1171.61318 2.764 0.0010822 0.16771 6.5665E-05 2.9317 0.0011479 391.54515611573504 12.985 0.12482 12.985 12.896 13.021 0 -0.00082739 1.7101E-05 NaN 23.801 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 301420 27946 1689 18069 18127 0.03423377751460066 RPRGKWLL 8 Unmodified _RPRGKWLL_ 0 0 0 REV__ENSG00000183153|ENST00000578689|GJD3 REV__ENSG00000183153|ENST00000578689|GJD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.3208618164062 2 513.321986 1024.62942 NaN NaN NaN NaN NaN NaN NaN 70.933 1 71.191 70.691 71.691 0.25786 0 0 0 0.99035 1 32486 32486 5.7604 0 1 + 27947 13921 18070 18128 31502 31502 0.11808871770517726 RPRKAFLL 8 Unmodified _RPRKAFLL_ 0 0 0 ENSG00000155660|ENST00000652332|PDIA4 ENSG00000155660|ENST00000652332|PDIA4 ENSG00000155660|ENST00000652332|PDIA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.21929931640625 3 334.218666 999.634169 NaN NaN NaN NaN NaN NaN NaN 26.186 1 26.186 25.686 26.686 0 0 0 0 0.37748 1 11776 11776 32.305 6.9062 1 27948 3873 18071 18129 31503 31503 0.1343375591327458 RPRKPEKWRL 10 Unmodified _RPRKPEKWRL_ 0 0 0 REV__ENSG00000103064|ENST00000219343|SLC7A6 REV__ENSG00000103064|ENST00000219343|SLC7A6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 683.4144287109375 2 683.414937 1364.81532 NaN NaN NaN NaN NaN NaN NaN 86.614 1 86.614 86.114 87.114 0 0 0 0 1.0003 1 44446 44446 2.9952 1.6657 1 + 27949 10957 18072 18130 31504 31504 0.14750649219172374 RPRLRAARRRW 11 Unmodified _RPRLRAARRRW_ 0 0 0 REV__ENST00000394236.7_1_3:93692655-93692814:-|nuORF REV__ENST00000394236.7_1_3:93692655-93692814:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 747.4609985351562 2 747.461076 1492.9076 NaN NaN NaN NaN NaN NaN NaN 59.31 1 59.569 59.069 60.069 0.2593 0 0 0 1.0082 1 27159 27159 0 0 1 + 27950 15961 18073 18131 31505 31505 0.1808617207602765 RPRMWRRWLP 10 Unmodified _RPRMWRRWLP_ 0 0 0 REV__ENST00000391992.3_1_12:9181361-9181625:-|nuORF REV__ENST00000391992.3_1_12:9181361-9181625:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 727.4122924804688 2 727.409132 1452.80371 NaN NaN NaN NaN NaN NaN NaN 64.12 1 64.368 63.868 64.868 0.24803 0 0 0 1.0015 1 29367 29367 0.40072 0.050084 1 + 27951 15925 18074 18132 31506 31506 0.0954212892418127 RPRNRPYFQRR 11 Unmodified _RPRNRPYFQRR_ 0 0 0 ENSG00000006047|ENST00000007699|YBX2 ENSG00000006047|ENST00000007699|YBX2 ENSG00000006047|ENST00000007699|YBX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 773.4320678710938 2 773.434724 1544.85489 NaN NaN NaN NaN NaN NaN NaN 99.802 1 99.865 99.365 100.36 0.062241 0 0 0 1.0072 1 54026 54026 1.3295 0 1 27952 340 18075 18133 31507 31507 0.10426169222569115 RPRPRRRRRRV 11 Unmodified _RPRPRRRRRRV_ 0 0 0 REV__ENST00000549122.5_1_12:93965649-93966593:+|nuORF REV__ENST00000549122.5_1_12:93965649-93966593:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 781.0009155273438 2 781.003974 1559.99339 NaN NaN NaN NaN NaN NaN NaN 43.68 1 44.329 43.829 44.829 0.64872 0 0 0 1.0082 1 20020 20020 0 0 1 + 27953 17268 18076 18134 31508 31508 0.23579756981553146 RPRPRVLLK 9 Unmodified _RPRPRVLLK_ 0 0 0 nc|ENSG00000204991|Q8WWL2-4|SPIRE2;nc|ENSG00000204991|Q8WWL2-3|SPIRE2;nc|ENSG00000204991|Q8WWL2-2|SPIRE2;ENST00000569108.5_1_16:89916567-89936677:+|nuORF;ENSG00000204991|ENST00000378247|SPIRE2 nc|ENSG00000204991|Q8WWL2-4|SPIRE2 nc|ENSG00000204991|Q8WWL2-4|SPIRE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.8832397460938 2 567.882742 1133.75093 NaN NaN NaN NaN NaN NaN NaN 13.336 1 13.336 12.836 13.836 0 0 0 0 0.91238 1 5829 5829 0.52476 0 1 27954 6040 18077 18135 31509 31509 0.18940494133016728 RPRQFVPER 9 Unmodified _RPRQFVPER_ 0 0 0 REV__ENST00000579768.1_1_17:55926599-55927356:-|nuORF REV__ENST00000579768.1_1_17:55926599-55927356:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.5617980957031 3 395.559751 1183.65742 NaN NaN NaN NaN NaN NaN NaN 66.004 1 66.253 65.753 66.753 0.24848 0 0 0 0.8984 1 30237 30237 2.2828 0 1 + 27955 13859 18078 18136 31510 31510 0.07294149959943752 RPRRKPKN 8 Unmodified _RPRRKPKN_ 0 0 0 ENSG00000168875|ENST00000306087|SOX14 ENSG00000168875|ENST00000306087|SOX14 ENSG00000168875|ENST00000306087|SOX14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.3323364257812 2 526.333416 1050.65228 NaN NaN NaN NaN NaN NaN NaN 10.051 1 10.347 9.8467 10.847 0.2956 0 0 0 0.99035 1 4444 4444 0.69038 0.088878 1 27956 4657 18079 18137 31511 31511 0.1289789088798443 RPRRLRVLRI 10 Unmodified _RPRRLRVLRI_ 0 0 0 ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 667.9529418945312 2 667.952021 1333.88949 3.5227 0.002353 -1.4633 -0.00097744 2.0594 0.0013756 667.950461711237 33.505 0.031628 33.505 33.493 33.525 0 4 2 2 0 0 0 0.94364 1 15196 15196 0 0 1 1776700 27957 8705 18080 18138 31512 31512 0.23590037101371308 RPRRLRVLRI 10 Unmodified _RPRRLRVLRI_ 0 0 0 ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 667.9512329101562 2 667.952021 1333.88949 3.5577 0.0023764 -1.7146 -0.0011453 1.8431 0.0012311 667.9509242029997 35.656 0.19761 35.656 35.564 35.762 0 17 9 2 0 0 0 0.94364 1 16179 16179 0 0 1 741140 27958 8705 18080 18138 31513 31513 0.23590037101371308 RPRRLRVLRI 10 Unmodified _RPRRLRVLRI_ 0 0 0 ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 667.953369140625 2 667.952021 1333.88949 NaN NaN NaN NaN NaN NaN NaN 30.701 1 30.701 30.201 31.201 0 0 0 0 1.0018 1 13873 13873 0 0 1 27959 8705 18080 18138 31514 31514 0.23590037101371308 RPRRLRVLRI 10 Unmodified _RPRRLRVLRI_ 0 0 0 ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 668.4553833007812 2 667.952021 1333.88949 3.9972 0.00267 -1.7466 -0.0011666 2.2507 0.0015033 667.9507609410825 32.583 0.57458 32.837 32.744 33.319 0.25452 36 26 3 0 0 0 0.94364 1 14845 14845 0 0 1 2623400 27960 8705 18080 18138 31515 31515 0.23590037101371308 RPRRLRVLRI 10 Unmodified _RPRRLRVLRI_ 0 0 0 ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 667.953857421875 2 667.952021 1333.88949 3.7612 0.0025123 -2.4375 -0.0016281 1.3237 0.00088418 667.9500141146826 34.558 0.29178 34.812 34.672 34.963 0.25389 15 11 2 0 0 0 0.94364 1 15801 15801 0 0 1 740460 27961 8705 18080 18138 31516 31516 0.23590037101371308 RPRRLRVLRI 10 Unmodified _RPRRLRVLRI_ 0 0 0 ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 445.637451171875 3 445.637106 1333.88949 2.8208 0.0012571 -2.1384 -0.00095296 0.68242 0.00030411 445.6360353800306 34.974 0.15706 35.229 35.182 35.339 0.25524 14 9 2 0 0 0 0.94364 1 15938 15938 0.15932 0.15932 1 1786000 27962 8705 18080 18138 31517 31517 0.23590037101371308 RPRRLRVLRI 10 Unmodified _RPRRLRVLRI_ 0 0 0 ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 667.9535522460938 2 667.952021 1333.88949 NaN NaN NaN NaN NaN NaN NaN 30.034 1 30.292 29.792 30.792 0.25804 0 0 0 1.0011 1 13670 13670 0 0 1 27963 8705 18080 18138 31518 31518 0.23590037101371308 RPRRLRVLRI 10 Unmodified _RPRRLRVLRI_ 0 0 0 ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 667.952880859375 2 667.952021 1333.88949 NaN NaN NaN NaN NaN NaN NaN 30.126 1 30.384 29.884 30.884 0.25804 0 0 0 1.0018 1 13712 13712 0 0 1 27964 8705 18080 18138 31519 31519 0.23590037101371308 RPRRLRVLRI 10 Unmodified _RPRRLRVLRI_ 0 0 0 ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 667.953369140625 2 667.952021 1333.88949 NaN NaN NaN NaN NaN NaN NaN 30.299 1 30.557 30.057 31.057 0.25804 0 0 0 1.0011 1 13790 13790 0 0 1 27965 8705 18080 18138 31520 31520 0.23590037101371308 RPRRLRVLRI 10 Unmodified _RPRRLRVLRI_ 0 0 0 ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 667.9539184570312 2 667.952021 1333.88949 NaN NaN NaN NaN NaN NaN NaN 32.716 1 32.97 32.47 33.47 0.25389 0 0 0 1.0011 1 14899 14899 0 0 1 27966 8705 18080 18138 31521 31521 0.23590037101371308 RPRRLRVLRI 10 Unmodified _RPRRLRVLRI_ 0 0 0 ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 667.9536743164062 2 667.952021 1333.88949 3.9109 0.0026123 -2.0097 -0.0013424 1.9012 0.0012699 667.9505208465291 32.087 0.32763 32.705 32.458 32.786 0.61831 19 16 2 0 0 0 0.94364 1 14687 14687 0 0 1 666510 27967 8705 18080 18138 31522 31522 0.23590037101371308 RPRRLRVLRI 10 Unmodified _RPRRLRVLRI_ 0 0 0 ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 667.95361328125 2 667.952021 1333.88949 3.8952 0.0026018 -2.8885 -0.0019294 1.0066 0.00067239 667.9501341164047 32.275 0.10833 32.893 32.82 32.928 0.61832 12 5 4 0 0 0 0.94364 1 14803 14803 0 0 1 587590 27968 8705 18080 18138 31523 31523 0.23590037101371308 RPRRLRVLRI 10 Unmodified _RPRRLRVLRI_ 0 0 0 ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 667.9531860351562 2 667.952021 1333.88949 3.8853 0.0025952 -1.4432 -0.00096399 2.4421 0.0016312 667.9508886368197 32.426 0.17801 33.045 32.948 33.126 0.61831 17 9 3 0 0 0 0.94364 1 14860 14860 0 0 1 815820 27969 8705 18080 18138 31524 31524 0.23590037101371308 RPRRLRVLRI 10 Unmodified _RPRRLRVLRI_ 0 0 0 ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 667.9537353515625 2 667.952021 1333.88949 NaN NaN NaN NaN NaN NaN NaN 30.164 1 30.781 30.281 31.281 0.61737 0 0 0 1.0018 1 13838 13838 0 0 1 27970 8705 18080 18138 31525 31525 0.23590037101371308 RPRRLRVLRI 10 Unmodified _RPRRLRVLRI_ 0 0 0 ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF ENST00000529943.6_1_16:31724582-31724693:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 667.952021 1333.88949 3.5227 0.002353 -1.4633 -0.00097744 2.0594 0.0013756 667.950461711237 33.505 0.031628 33.505 33.493 33.525 0 0 0 NaN 0 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 1776700 27971 8705 18080 18138 0.23590037101371308 RPRRPRRHWRR 11 Unmodified _RPRRPRRHWRR_ 0 0 0 REV__ENST00000527920.5_1_11:65339976-65340141:+|nuORF REV__ENST00000527920.5_1_11:65339976-65340141:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 814.9893188476562 2 814.988324 1627.96209 NaN NaN NaN NaN NaN NaN NaN 76.02 1 76.644 76.144 77.144 0.62397 0 0 0 1.0082 1 36826 36826 0 0 1 + 27972 17108 18081 18139 31526 31526 0.17323183947473808 RPRRRRRRRQE 11 Unmodified _RPRRRRRRRQE_ 0 0 0 ENST00000514738.5_1_5:31193871-31267519:+|nuORF ENST00000514738.5_1_5:31193871-31267519:+|nuORF ENST00000514738.5_1_5:31193871-31267519:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 811.4949951171875 2 811.49397 1620.97339 NaN NaN NaN NaN NaN NaN NaN 85.087 1 85.335 84.835 85.835 0.24757 0 0 0 1.0082 1 39157 39157 0 0 1 27973 8586 18082 18140 31527 31527 0.18773961250963112 RPRRSAPKGRK 11 Unmodified _RPRRSAPKGRK_ 0 0 0 ENSG00000239697|ENST00000293825|TNFSF12;nc|ENSG00000239697|O43508-2|TNFSF12 ENSG00000239697|ENST00000293825|TNFSF12 ENSG00000239697|ENST00000293825|TNFSF12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.9422302246094 3 436.940966 1307.80107 NaN NaN NaN NaN NaN NaN NaN 66.99 1 67.694 67.194 68.194 0.7047 0 0 0 1.0072 1 31793 31793 1.3296 0.11481 1 27974 6211 18083 18141 31528 31528 0.1594799679087373 RPRVLPRAR 9 Unmodified _RPRVLPRAR_ 0 0 0 ENST00000530220.1_1_19:10461512-10463916:-|nuORF ENST00000530220.1_1_19:10461512-10463916:-|nuORF ENST00000530220.1_1_19:10461512-10463916:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.2456970214844 3 374.243986 1119.71013 NaN NaN NaN NaN NaN NaN NaN 46.167 1 46.167 45.667 46.667 0 0 0 0 0.89683 1 21125 21125 2.4985 0 1 27975 8711 18084 18142 31529 31529 0.15506152813395602 RPRVRVEAL 9 Unmodified _RPRVRVEAL_ 0 0 0 ENST00000480655.5_1_20:34262894-34263203:-|nuORF;nc|ENSG00000244005|Q9Y697-2|NFS1;nc|ENSG00000244005|Q9Y697-3|NFS1;ENSG00000244005|ENST00000374092|NFS1 ENST00000480655.5_1_20:34262894-34263203:-|nuORF ENST00000480655.5_1_20:34262894-34263203:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.8971862792969 3 365.896363 1094.66726 2.4587 0.00089963 0.12091 4.4242E-05 2.5796 0.00094387 365.8963911181629 18.086 0.28763 18.388 18.285 18.573 0.30159 58 31 3 0 0 0 0.3144 2 8220 8175;8220 15.248 2.8154 1 551750 27976 6245 18085 18143 31530;31531 31531 0.12371337965328166 RPRVRVEAL 9 Unmodified _RPRVRVEAL_ 0 0 0 ENST00000480655.5_1_20:34262894-34263203:-|nuORF;nc|ENSG00000244005|Q9Y697-2|NFS1;nc|ENSG00000244005|Q9Y697-3|NFS1;ENSG00000244005|ENST00000374092|NFS1 ENST00000480655.5_1_20:34262894-34263203:-|nuORF ENST00000480655.5_1_20:34262894-34263203:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.8973388671875 3 365.896363 1094.66726 2.6195 0.00095847 -0.18066 -6.6105E-05 2.4389 0.00089237 365.89629890523054 17.954 0.17086 18.615 18.514 18.685 0.66072 31 22 2 0 0 0 0.19064 1 8109 8109 22.658 7.4096 1 665250 27977 6245 18085 18143 31532 31532 0.12371337965328166 RPSEEDEEL 9 Unmodified _RPSEEDEEL_ 0 0 0 ENSG00000154734|ENST00000284984|ADAMTS1 ENSG00000154734|ENST00000284984|ADAMTS1 ENSG00000154734|ENST00000284984|ADAMTS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.2473754882812 2 552.2462 1102.47785 3.6716 0.0020276 -0.13631 -7.5275E-05 3.5353 0.0019524 552.2461674978265 20.089 0.42689 20.089 19.935 20.362 0 99 39 3 0 0 0 0.023321 3 8951 8951;8993;9038 63.961 24.011 1 1139700 27978 3837 18086 18144 31533;31534;31535 31533 -0.06929243629178927 RPSEEDEEL 9 Unmodified _RPSEEDEEL_ 0 0 0 ENSG00000154734|ENST00000284984|ADAMTS1 ENSG00000154734|ENST00000284984|ADAMTS1 ENSG00000154734|ENST00000284984|ADAMTS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.2482299804688 2 552.2462 1102.47785 NaN NaN NaN NaN NaN NaN NaN 19.698 1 19.991 19.491 20.491 0.29239 0 0 0 0.19548 1 8963 8963 31.268 10.815 1 27979 3837 18086 18144 31536 31536 -0.06929243629178927 RPSEEDEEL 9 Unmodified _RPSEEDEEL_ 0 0 0 ENSG00000154734|ENST00000284984|ADAMTS1 ENSG00000154734|ENST00000284984|ADAMTS1 ENSG00000154734|ENST00000284984|ADAMTS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.2478637695312 2 552.2462 1102.47785 3.6727 0.0020282 -0.85815 -0.00047391 2.8145 0.0015543 552.2459134236531 19.385 0.33226 20.044 19.918 20.25 0.65829 37 23 2 0 0 0 0.057945 1 8789 8789 43.772 9.3707 1 539650 27980 3837 18086 18144 31537 31537 -0.06929243629178927 RPSGKPKR 8 Unmodified _RPSGKPKR_ 0 0 0 REV__nc|ENSG00000111642|Q14839-2|CHD4 REV__nc|ENSG00000111642|Q14839-2|CHD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.289306640625 2 463.288143 924.561733 NaN NaN NaN NaN NaN NaN NaN 55.077 1 55.077 54.577 55.577 0 0 0 0 0.99035 1 25292 25292 4.756 0 1 + 27981 11242 18087 18145 31538 31538 0.0964342183970075 RPSRKKRRRRP 11 Unmodified _RPSRKKRRRRP_ 0 0 0 ENST00000296490.7_1_3:52312489-52312597:-|nuORF ENST00000296490.7_1_3:52312489-52312597:-|nuORF ENST00000296490.7_1_3:52312489-52312597:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.3236389160156 3 498.322181 1491.94471 3.0209 0.0015054 0.30335 0.00015117 3.3243 0.0016566 498.322222452918 44.44 0.44724 44.709 44.515 44.962 0.2694 38 16 3 0 0 0 0.91345 1 20336 20336 0.45452 0 1 532220 27982 6767 18088 18146 31539 31539 0.21841843621791668 RPTFKFRKYR 10 Unmodified _RPTFKFRKYR_ 0 0 0 L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|10|1|sense;L1PA6_dup2662|chr6:160208729-160214880:-|1.2665007636170862|0.0221250906454286|5.84|510.0|126|3|sense L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|10|1|sense L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|10|1|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.6098327636719 3 466.942084 1397.80442 3.0482 0.0014234 1.6799 0.00078443 4.7282 0.0022078 466.942905759309 95.147 0.53116 95.765 95.681 96.212 0.61737 33 27 2 0 0 0 0.12676 1 43869 43869 0.13989 0.04505 1 612320 27983 9470 18089 18147 31540 31540 0.12143246844880196 RPTPQDYEM 9 Unmodified _RPTPQDYEM_ 0 0 0 nc|ENSG00000100888|Q9HCK8-2|CHD8;ENSG00000100888|ENST00000646647|CHD8 nc|ENSG00000100888|Q9HCK8-2|CHD8 nc|ENSG00000100888|Q9HCK8-2|CHD8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.7584228515625 2 568.755681 1135.49681 NaN NaN NaN NaN NaN NaN NaN 28.675 1 28.675 28.175 29.175 0 0 0 0 0.37777 1 12933 12933 23.79 12.149 1 27984 1247 18090 18148 31541 31541 -0.06551985539135785 RPTPQDYEM 9 Unmodified _RPTPQDYEM_ 0 0 0 nc|ENSG00000100888|Q9HCK8-2|CHD8;ENSG00000100888|ENST00000646647|CHD8 nc|ENSG00000100888|Q9HCK8-2|CHD8 nc|ENSG00000100888|Q9HCK8-2|CHD8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.7583618164062 2 568.755681 1135.49681 NaN NaN NaN NaN NaN NaN NaN 27.645 1 28.431 27.931 28.931 0.78627 0 0 0 0.64145 1 12435 12435 14.405 8.1996 1 27985 1247 18090 18148 31542 31542 -0.06551985539135785 RPTPQDYEM 9 Unmodified _RPTPQDYEM_ 0 0 0 nc|ENSG00000100888|Q9HCK8-2|CHD8;ENSG00000100888|ENST00000646647|CHD8 nc|ENSG00000100888|Q9HCK8-2|CHD8 nc|ENSG00000100888|Q9HCK8-2|CHD8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.7586059570312 2 568.755681 1135.49681 NaN NaN NaN NaN NaN NaN NaN 27.799 1 28.585 28.085 29.085 0.78627 0 0 0 0.73102 1 12507 12507 11.495 5.2889 1 27986 1247 18090 18148 31543 31543 -0.06551985539135785 RPTPQDYEM 9 Unmodified _RPTPQDYEM_ 0 0 0 nc|ENSG00000100888|Q9HCK8-2|CHD8;ENSG00000100888|ENST00000646647|CHD8 nc|ENSG00000100888|Q9HCK8-2|CHD8 nc|ENSG00000100888|Q9HCK8-2|CHD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.7582397460938 2 568.755681 1135.49681 3.4542 0.0019646 0.64341 0.00036594 4.0976 0.0023306 568.7558948038433 28.558 0.28719 28.819 28.668 28.955 0.2602 25 19 2 0 0 0 0.11155 2 12977 12977;13044 29.841 13.691 1 296940 27987 1247 18090 18148 31544;31545 31544 -0.06551985539135785 RPTPQDYEM 9 Unmodified _RPTPQDYEM_ 0 0 0 nc|ENSG00000100888|Q9HCK8-2|CHD8;ENSG00000100888|ENST00000646647|CHD8 nc|ENSG00000100888|Q9HCK8-2|CHD8 nc|ENSG00000100888|Q9HCK8-2|CHD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.7583618164062 2 568.755681 1135.49681 3.5488 0.0020184 0.32916 0.00018721 3.878 0.0022056 568.7559566080832 28.267 0.41883 28.887 28.674 29.092 0.61947 34 28 2 0 0 0 0.38625 2 12912 12912;12966 14.405 9.5084 1 226790 27988 1247 18090 18148 31546;31547 31546 -0.06551985539135785 RPTSVDPAL 9 Unmodified _RPTSVDPAL_ 0 0 0 ENSG00000105373|ENST00000246802|NOP53;ENST00000599253.1_1_19:48248882-48249496:+|nuORF;ENST00000594525.5_1_19:48248816-48255954:+|nuORF;ENST00000598681.5_1_19:48248882-48259836:+|nuORF ENSG00000105373|ENST00000246802|NOP53 ENSG00000105373|ENST00000246802|NOP53 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.2653503417969 2 478.263999 954.513445 3.2418 0.0015504 0.052969 2.5333E-05 3.2947 0.0015758 478.26407377568916 30.65 0.62305 30.65 30.176 30.799 0 98 47 3 0 0 0 0.016529 2 13810 13810;13856 72.968 26.947 1 4582100 27989 1491 18091 18149 31548;31549 31548 0.03436883409131042 RPTSVDPAL 9 Unmodified _RPTSVDPAL_ 0 0 0 ENSG00000105373|ENST00000246802|NOP53;ENST00000599253.1_1_19:48248882-48249496:+|nuORF;ENST00000594525.5_1_19:48248816-48255954:+|nuORF;ENST00000598681.5_1_19:48248882-48259836:+|nuORF ENSG00000105373|ENST00000246802|NOP53 ENSG00000105373|ENST00000246802|NOP53 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.2653503417969 2 478.263999 954.513445 3.1256 0.0014949 -0.10916 -5.2207E-05 3.0164 0.0014426 478.2639386828527 29.759 0.29674 30.548 30.4 30.697 0.78921 64 28 3 0 0 0 0.016529 3 13423 13378;13423;13472 72.968 18.194 1 4106600 27990 1491 18091 18149 31550;31551;31552 31551 0.03436883409131042 RPTSVDPAL 9 Unmodified _RPTSVDPAL_ 0 0 0 ENSG00000105373|ENST00000246802|NOP53;ENST00000599253.1_1_19:48248882-48249496:+|nuORF;ENST00000594525.5_1_19:48248816-48255954:+|nuORF;ENST00000598681.5_1_19:48248882-48259836:+|nuORF ENSG00000105373|ENST00000246802|NOP53 ENSG00000105373|ENST00000246802|NOP53 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.2654724121094 2 478.263999 954.513445 3.379 0.0016161 -0.044001 -2.1044E-05 3.335 0.001595 478.26395916427543 30.365 0.45392 30.623 30.39 30.844 0.25804 66 25 3 0 0 0 0.016529 2 13811 13811;13866 72.968 18.194 1 3135500 27991 1491 18091 18149 31553;31554 31553 0.03436883409131042 RPTSVDPAL 9 Unmodified _RPTSVDPAL_ 0 0 0 ENSG00000105373|ENST00000246802|NOP53;ENST00000599253.1_1_19:48248882-48249496:+|nuORF;ENST00000594525.5_1_19:48248816-48255954:+|nuORF;ENST00000598681.5_1_19:48248882-48259836:+|nuORF ENSG00000105373|ENST00000246802|NOP53 ENSG00000105373|ENST00000246802|NOP53 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.26513671875 2 478.263999 954.513445 3.129 0.0014965 -0.38911 -0.0001861 2.7399 0.0013104 478.26382932580236 30.047 0.62244 30.664 30.27 30.892 0.61737 87 49 3 0 0 0 0.0095519 3 13787 13743;13787;13844 82.529 18.293 1 4346600 27992 1491 18091 18149 31555;31556;31557 31556 0.03436883409131042 RPVKKPKIRRK 11 Unmodified _RPVKKPKIRRK_ 0 0 0 ENSG00000137413|ENST00000372977|TAF8;nc|ENSG00000137413|Q7Z7C8-2|TAF8 ENSG00000137413|ENST00000372977|TAF8 ENSG00000137413|ENST00000372977|TAF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 703.482421875 2 703.483154 1404.95176 NaN NaN NaN NaN NaN NaN NaN 82.694 1 82.739 82.239 83.239 0.045006 0 0 0 1.0082 1 40871 40871 0 0 1 27993 3015 18092 18150 31558 31558 0.26547763449661943 RPVKSILNNKN 11 Unmodified _RPVKSILNNKN_ 0 0 0 REV__nc|ENSG00000132000|Q6PEZ8-2|PODNL1 REV__nc|ENSG00000132000|Q6PEZ8-2|PODNL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 642.7025146484375 2 641.883136 1281.75172 4.0928 0.0026271 -0.61759 -0.00039642 3.4752 0.0022307 641.8823416332649 89.355 1.5909 90.034 89.276 90.867 0.67818 114 73 3 0 0 0 0.91149 1 41029 41029 1.0715 0.67075 1 1115200 + 27994 17941 18093 18151 31559 31559 0.12211243991418996 RPVLIKARRC 10 Unmodified _RPVLIKARRC_ 0 0 0 ENST00000328747.11_1_7:64838810-64838879:+|nuORF ENST00000328747.11_1_7:64838810-64838879:+|nuORF ENST00000328747.11_1_7:64838810-64838879:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.694091796875 4 303.693393 1210.74446 2.0279 0.00061585 0.93174 0.00028296 2.9596 0.00089881 303.6936591376021 34.048 0.94116 34.669 34.107 35.048 0.62031 93 43 3 0 0 0 0.9406 1 15581 15581 0.77653 0 1 1333200 27995 6974 18094 18152 31560 31560 0.14752232910018392 RPVLIKARRC 10 Unmodified _RPVLIKARRC_ 0 0 0 ENST00000328747.11_1_7:64838810-64838879:+|nuORF ENST00000328747.11_1_7:64838810-64838879:+|nuORF ENST00000328747.11_1_7:64838810-64838879:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 303.693393 1210.74446 1.6716 0.00050765 1.2053 0.00036604 2.8769 0.00087368 303.6937609203698 34.825 0.44555 34.825 34.599 35.044 0 0.1029 0.00034999 NaN 0.77653 54 30 3 NaN NaN NaN NaN 0 NaN NaN 0 2858200 27996 6974 18094 18152 0.14752232910018392 RPVLIKARRC 10 Unmodified _RPVLIKARRC_ 0 0 0 ENST00000328747.11_1_7:64838810-64838879:+|nuORF ENST00000328747.11_1_7:64838810-64838879:+|nuORF ENST00000328747.11_1_7:64838810-64838879:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 303.693393 1210.74446 2.1946 0.00066649 0.66812 0.0002029 2.8627 0.0008694 303.6935991952206 34.419 0.63099 34.673 34.418 35.049 0.25389 -0.049139 -0.00030255 NaN 0.77653 72 30 3 NaN NaN NaN NaN 0 NaN NaN 0 2077700 27997 6974 18094 18152 0.14752232910018392 RPVLIKARRC 10 Unmodified _RPVLIKARRC_ 0 0 0 ENST00000328747.11_1_7:64838810-64838879:+|nuORF ENST00000328747.11_1_7:64838810-64838879:+|nuORF ENST00000328747.11_1_7:64838810-64838879:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 303.693393 1210.74446 2.0279 0.00061585 0.93174 0.00028296 2.9596 0.00089881 303.6936591376021 34.048 0.94116 34.669 34.107 35.048 0.62031 -0.053762 1.7687E-05 NaN 0.77653 93 43 3 NaN NaN NaN NaN 0 NaN NaN 0 1333200 27998 6974 18094 18152 0.14752232910018392 RPWHWHWRRRR 11 Unmodified _RPWHWHWRRRR_ 0 0 0 REV__ENST00000321582.9_1_9:124855435-124855555:-|nuORF REV__ENST00000321582.9_1_9:124855435-124855555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 576.9804077148438 3 576.982159 1727.92465 NaN NaN NaN NaN NaN NaN NaN 18.697 1 18.911 18.411 19.411 0.21445 0 0 0 1.0082 1 8328 8328 0 0 1 + 27999 15322 18095 18153 31561 31561 0.08980092681827045 RPWLRGQKK 9 Unmodified _RPWLRGQKK_ 0 0 0 ENSG00000196169|ENST00000389916|KIF19 ENSG00000196169|ENST00000389916|KIF19 ENSG00000196169|ENST00000389916|KIF19 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.1931762695312 2 584.856724 1167.69889 NaN NaN NaN NaN NaN NaN NaN 10.34 1 10.973 10.473 11.473 0.63304 0 0 0 0.91238 1 4657 4657 0.52476 0 1 28000 5723 18096 18154 31562 31562 0.12175330719264821 RPWLRPAAL 9 Unmodified _RPWLRPAAL_ 0 0 0 nc|ENSG00000162073|Q8N4S7-3|PAQR4;nc|ENSG00000162073|Q8N4S7-2|PAQR4;ENSG00000162073|ENST00000318782|PAQR4 nc|ENSG00000162073|Q8N4S7-3|PAQR4 nc|ENSG00000162073|Q8N4S7-3|PAQR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.328857421875 2 540.327268 1078.63998 3.1366 0.0016948 1.3319 0.00071964 4.4684 0.0024144 540.328148219797 43.54 0.27873 43.81 43.637 43.916 0.27021 21 9 3 0 0 0 0.053453 1 19855 19855 34.102 22.462 1 804980 28001 4120 18097 18155 31563 31563 0.10380854424920472 RPWLRPAAL 9 Unmodified _RPWLRPAAL_ 0 0 0 nc|ENSG00000162073|Q8N4S7-3|PAQR4;nc|ENSG00000162073|Q8N4S7-2|PAQR4;ENSG00000162073|ENST00000318782|PAQR4 nc|ENSG00000162073|Q8N4S7-3|PAQR4 nc|ENSG00000162073|Q8N4S7-3|PAQR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.5550842285156 3 360.553937 1078.63998 2.5209 0.00090893 0.71855 0.00025908 3.2395 0.001168 360.5542174391741 43.53 0.27873 43.8 43.637 43.916 0.27021 24 9 3 0 0 0 0.091193 1 19877 19877 34.932 23.437 1 655950 28002 4120 18097 18155 31564 31564 0.10380854424920472 RPWLRPAAL 9 Unmodified _RPWLRPAAL_ 0 0 0 nc|ENSG00000162073|Q8N4S7-3|PAQR4;nc|ENSG00000162073|Q8N4S7-2|PAQR4;ENSG00000162073|ENST00000318782|PAQR4 nc|ENSG00000162073|Q8N4S7-3|PAQR4 nc|ENSG00000162073|Q8N4S7-3|PAQR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.3294067382812 2 540.327268 1078.63998 3.4994 0.0018908 0.49746 0.00026879 3.9969 0.0021596 540.3274634695601 42.867 0.23673 43.514 43.442 43.678 0.64693 22 12 2 0 0 0 0.5141 1 19654 19654 12.532 4.6214 1 786950 28003 4120 18097 18155 31565 31565 0.10380854424920472 RPWLRPAAL 9 Unmodified _RPWLRPAAL_ 0 0 0 nc|ENSG00000162073|Q8N4S7-3|PAQR4;nc|ENSG00000162073|Q8N4S7-2|PAQR4;ENSG00000162073|ENST00000318782|PAQR4 nc|ENSG00000162073|Q8N4S7-3|PAQR4 nc|ENSG00000162073|Q8N4S7-3|PAQR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.5550842285156 3 360.553937 1078.63998 2.6821 0.00096706 0.34908 0.00012586 3.0312 0.0010929 360.5541622008824 42.895 0.19187 43.542 43.466 43.658 0.64693 16 9 3 0 0 0 0.030603 1 19670 19670 55.503 40.254 1 621140 28004 4120 18097 18155 31566 31566 0.10380854424920472 RQAEKYYIL 9 Unmodified _RQAEKYYIL_ 0 0 0 ENSG00000198162|ENST00000356554|MAN1A2 ENSG00000198162|ENST00000356554|MAN1A2 ENSG00000198162|ENST00000356554|MAN1A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 395.22174072265625 3 395.220513 1182.63971 NaN NaN NaN NaN NaN NaN NaN 38.43 1 39.228 38.728 39.728 0.79762 0 0 0 0.88922 1 17407 17407 6.1918 1.2948 1 28005 5871 18098 18156 31567 31567 0.05569389914421663 RQAKVLLPKL 10 Unmodified _RQAKVLLPKL_ 0 0 0 REV__ENSG00000198920|ENST00000361413|KIAA0753 REV__ENSG00000198920|ENST00000361413|KIAA0753 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.3946533203125 2 583.392608 1164.77066 NaN NaN NaN NaN NaN NaN NaN 104.63 1 104.95 104.45 105.45 0.31863 0 0 0 1.0015 1 48302 48302 0.40072 0 1 + 28006 14381 18099 18157 31568 31568 0.19486825353124004 RQAPGLLW 8 Unmodified _RQAPGLLW_ 0 0 0 ENSG00000002330|ENST00000309032|BAD ENSG00000002330|ENST00000309032|BAD ENSG00000002330|ENST00000309032|BAD MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.0920104980469 3 314.183622 939.529036 2.3046 0.00072406 1.9448 0.00061103 4.2494 0.0013351 314.18416194500355 33.714 0.23458 33.968 33.829 34.063 0.25389 23 15 2 0 0 0 0.14333 1 15354 15354 0.45834 0 1 128300 28007 299 18100 18158 31569 31569 0.0568521471685699 RQAPGLLW 8 Unmodified _RQAPGLLW_ 0 0 0 ENSG00000002330|ENST00000309032|BAD ENSG00000002330|ENST00000309032|BAD ENSG00000002330|ENST00000309032|BAD MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 314.183622 939.529036 2.0231 0.00063563 4.7886 0.0015045 6.8117 0.0021401 314.18518249791754 32.955 0.13264 33.573 33.48 33.613 0.61831 -0.19727 0.0024611 NaN 0.45834 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 81981 28008 299 18100 18158 0.0568521471685699 RQARLIREREA 11 Unmodified _RQARLIREREA_ 0 0 0 ENST00000566987.5_1_16:71893923-71901814:-|nuORF;nc|ENSG00000102984|O75541-2|ZNF821;ENSG00000102984|ENST00000425432|ZNF821 ENST00000566987.5_1_16:71893923-71901814:-|nuORF ENST00000566987.5_1_16:71893923-71901814:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 699.4132690429688 2 699.40784 1396.80113 4.6026 0.0032191 0.80143 0.00056053 5.404 0.0037796 699.4082800680894 96.678 0.902 96.956 96.464 97.366 0.27779 122 47 3 0 0 0 0.91359 1 44466 44466 1.1933 0 1 2648900 28009 1365 18101 18159 31570 31570 0.11859952000213525 RQARTRLEAPR 11 Unmodified _RQARTRLEAPR_ 0 0 0 REV__ENST00000507197.5_1_5:138609816-138614020:+|nuORF REV__ENST00000507197.5_1_5:138609816-138614020:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.93402099609375 3 451.932248 1352.77491 3.2373 0.0014631 0.92847 0.00041961 4.1658 0.0018827 452.2669545459331 93.121 1.8282 93.768 93.054 94.882 0.64714 177 95 2 0 0 0 0.91328 1 42731 42731 0.50596 0.09769 1 1111700 + 28010 16929 18102 18160 31571 31571 0.11263682828735 RQCRKPQR 8 Unmodified _RQCRKPQR_ 0 0 0 ENST00000309415.7_1_2:110053543-110065938:+|nuORF ENST00000309415.7_1_2:110053543-110065938:+|nuORF ENST00000309415.7_1_2:110053543-110065938:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.8707275390625 3 357.869931 1070.58796 2.2111 0.00079128 0.90064 0.00032231 3.1117 0.0011136 357.87019927613466 62.613 0.377 62.613 62.476 62.853 0 84 47 2 0 0 0 0.74071 1 29399 29399 1.6526 1.6526 1 11696000 28011 6859 18103 18161 31572 31572 0.055493677395361374 RQCRKPQR 8 Unmodified _RQCRKPQR_ 0 0 0 ENST00000309415.7_1_2:110053543-110065938:+|nuORF ENST00000309415.7_1_2:110053543-110065938:+|nuORF ENST00000309415.7_1_2:110053543-110065938:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 358.2052001953125 3 357.869931 1070.58796 2.8013 0.0010025 0.74446 0.00026642 3.5458 0.0012689 357.87013766065405 67.279 0.47678 67.529 67.205 67.682 0.25011 68 31 3 0 0 0 0.70799 2 30785 30785;30833 3.5965 0.17072 1 1053700 28012 6859 18103 18161 31573;31574 31573 0.055493677395361374 RQCRKPQR 8 Unmodified _RQCRKPQR_ 0 0 0 ENST00000309415.7_1_2:110053543-110065938:+|nuORF ENST00000309415.7_1_2:110053543-110065938:+|nuORF ENST00000309415.7_1_2:110053543-110065938:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.871337890625 3 357.869931 1070.58796 2.5173 0.00090088 1.0898 0.00039002 3.6072 0.0012909 357.8702349472915 67.094 0.51572 67.752 67.439 67.955 0.65777 56 28 3 0 0 0 0.70799 2 30669 30669;30715 3.5965 1.098 1 719180 28013 6859 18103 18161 31575;31576 31575 0.055493677395361374 RQCRKPQR 8 Unmodified _RQCRKPQR_ 0 0 0 ENST00000309415.7_1_2:110053543-110065938:+|nuORF ENST00000309415.7_1_2:110053543-110065938:+|nuORF ENST00000309415.7_1_2:110053543-110065938:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 357.869931 1070.58796 2.2111 0.00079128 0.90064 0.00032231 3.1117 0.0011136 357.87019927613466 62.613 0.377 62.613 62.476 62.853 0 0.0021457 0.00035888 NaN 1.6526 84 47 2 NaN NaN NaN NaN 0 NaN NaN 0 11696000 28014 6859 18103 18161 0.055493677395361374 RQCRKPQR 8 Unmodified _RQCRKPQR_ 0 0 0 ENST00000309415.7_1_2:110053543-110065938:+|nuORF ENST00000309415.7_1_2:110053543-110065938:+|nuORF ENST00000309415.7_1_2:110053543-110065938:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 357.869931 1070.58796 2.3777 0.00085091 0.61013 0.00021835 2.9878 0.0010693 357.8700823802509 61.84 0.29293 62.5 62.389 62.682 0.66008 -0.11088 4.698E-05 NaN 1.6526 94 54 2 NaN NaN NaN NaN 0 NaN NaN 0 17002000 28015 6859 18103 18161 0.055493677395361374 RQDNLNGT 8 Unmodified _RQDNLNGT_ 0 0 0 nc|ENSG00000169807|O14603-2|PRY;ENSG00000169807|ENST00000303804|PRY2;ENSG00000169789|ENST00000303728|PRY nc|ENSG00000169807|O14603-2|PRY nc|ENSG00000169807|O14603-2|PRY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 917.4469604492188 1 917.443534 916.436257 3.9823 0.0036535 -0.4898 -0.00044936 3.4925 0.0032041 917.4433596951259 65.883 0.30084 66.54 66.408 66.709 0.65672 45 18 3 0 0 0 0.5438 1 30268 30268 18.135 0 1 1343100 28016 4713 18104 18162 31577 31577 -0.025303348072043264 RQDRQKWLFWR 11 Unmodified _RQDRQKWLFWR_ 0 0 0 REV__ENST00000529107.5_2_17:72211823-72233491:+|nuORF REV__ENST00000529107.5_2_17:72211823-72233491:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 809.5215454101562 2 809.939308 1617.86406 NaN NaN NaN NaN NaN NaN NaN 96.988 1 96.988 96.488 97.488 0 0 0 0 1.008 1 52656 52656 0.26902 0.26902 1 + 28017 15055 18105 18163 31578 31578 0.07984517788258927 RQETSSKIQFR 11 Unmodified _RQETSSKIQFR_ 0 0 0 REV__ENST00000448393.6_1_1:158988313-158988376:+|nuORF REV__ENST00000448393.6_1_1:158988313-158988376:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 690.8779907226562 2 690.373132 1378.73171 4.6268 0.0031942 0.79479 0.0005487 5.4216 0.0037429 690.3735357657544 104.7 0.22772 105.02 104.89 105.12 0.31863 70 46 2 0 0 0 0.91391 1 48324 48324 0.30703 0.30703 1 562570 + 28018 16394 18106 18164 31579 31579 0.057494482607808095 RQEYKHLY 8 Unmodified _RQEYKHLY_ 0 0 0 nc|ENSG00000066230|P48764-2|SLC9A3;ENSG00000066230|ENST00000264938|SLC9A3 nc|ENSG00000066230|P48764-2|SLC9A3 nc|ENSG00000066230|P48764-2|SLC9A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.7977294921875 2 568.795998 1135.57744 3.5383 0.0020126 0.54537 0.00031021 4.0837 0.0023228 568.7962951447429 32.413 0.16417 33.031 32.991 33.155 0.61831 12 7 2 0 0 0 0.60101 1 14886 14886 12.532 1.7076 1 140010 28019 701 18107 18165 31580 31580 0.015076635660989268 RQEYKHLY 8 Unmodified _RQEYKHLY_ 0 0 0 nc|ENSG00000066230|P48764-2|SLC9A3;ENSG00000066230|ENST00000264938|SLC9A3 nc|ENSG00000066230|P48764-2|SLC9A3 nc|ENSG00000066230|P48764-2|SLC9A3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 568.795998 1135.57744 3.6786 0.0020924 -0.8298 -0.00047199 2.8488 0.0016204 568.795658155521 32.903 0.12223 33.156 33.051 33.174 0.25389 0.062672 -0.0013367 NaN 12.532 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 162890 28020 701 18107 18165 0.015076635660989268 RQFHGLLV 8 Unmodified _RQFHGLLV_ 0 0 0 ENST00000459850.5_1_9:139905575-139923366:-|nuORF;nc|ENSG00000107331|Q9BZC7-2|ABCA2;nc|ENSG00000107331|Q9BZC7|ABCA2;ENSG00000107331|ENST00000341511|ABCA2;nc|ENSG00000107331|Q9BZC7-4|ABCA2;ENST00000487109.5_1_9:139906084-139911410:-|nuORF ENST00000459850.5_1_9:139905575-139923366:-|nuORF ENST00000459850.5_1_9:139905575-139923366:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.28839111328125 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 53.86 1 54.124 53.624 54.624 0.26462 0 0 0 0.99035 1 24630 24630 0.79363 0 1 28021 1596 18108 18166 31581 31581 0.07004903608196855 RQHEWPWRIYL 11 Unmodified _RQHEWPWRIYL_ 0 0 0 REV__ENST00000513392.1_1_5:56869894-56874676:+|nuORF REV__ENST00000513392.1_1_5:56869894-56874676:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 792.4151611328125 2 792.415134 1582.81572 NaN NaN NaN NaN NaN NaN NaN 50.404 1 50.404 49.904 50.904 0 0 0 0 1.0082 1 23076 23076 0 0 1 + 28022 16991 18109 18167 31582 31582 0.04762024148385535 RQHFIGVL 8 Unmodified _RQHFIGVL_ 0 0 0 MYH3|p.N1505Tfs*2|1|0.27|ENSG00000109063|chr17:10634027-10634027|C/-|frameshift_variant;MYH3|p.N1503Kfs*16|1|0.26|ENSG00000109063|chr17:10634029-10634030|TA/-|frameshift_variant;ENSG00000109063|ENST00000583535|MYH3 MYH3|p.N1505Tfs*2|1|0.27|ENSG00000109063|chr17:10634027-10634027|C/-|frameshift_variant MYH3|p.N1505Tfs*2|1|0.27|ENSG00000109063|chr17:10634027-10634027|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.28717041015625 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 56.473 1 56.738 56.238 57.238 0.26543 0 0 0 0.99035 1 25836 25836 2.8892 0 1 28023 1665 18110 18168 31583 31583 0.07004903608185487 RQHFPYERRRV 11 Unmodified _RQHFPYERRRV_ 0 0 0 GBGT1|p.Q238H|1|0.32|ENSG00000148288|chr9:133153907-133153907|C/G|missense_variant GBGT1|p.Q238H|1|0.32|ENSG00000148288|chr9:133153907-133153907|C/G|missense_variant GBGT1|p.Q238H|1|0.32|ENSG00000148288|chr9:133153907-133153907|C/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 772.4235229492188 2 772.421282 1542.82801 NaN NaN NaN NaN NaN NaN NaN 88.774 1 88.827 88.327 89.327 0.052155 0 0 0 1.008 1 45325 45325 1.0715 0.72083 1 28024 9363 18111 18169 31584 31584 0.07831060611374596 RQHHHHHHHHH 11 Unmodified _RQHHHHHHHHH_ 0 0 0 nc|ENSG00000141837|O00555-5|CACNA1A;nc|ENSG00000141837|O00555-3|CACNA1A;nc|ENSG00000141837|O00555-2|CACNA1A;nc|ENSG00000141837|O00555-6|CACNA1A;nc|ENSG00000141837|O00555-4|CACNA1A;ENSG00000141837|ENST00000360228|CACNA1A nc|ENSG00000141837|O00555-5|CACNA1A nc|ENSG00000141837|O00555-5|CACNA1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 768.8567504882812 2 768.857506 1535.70046 NaN NaN NaN NaN NaN NaN NaN 46.301 1 46.567 46.067 47.067 0.26561 0 0 0 1.008 1 21163 21163 0.30703 0 1 28025 3287 18112 18170 31585 31585 -0.045962224193999646 RQILKKRRKK 10 Unmodified _RQILKKRRKK_ 0 0 0 ENST00000215794.7_1_22:18640479-18640539:+|nuORF ENST00000215794.7_1_22:18640479-18640539:+|nuORF ENST00000215794.7_1_22:18640479-18640539:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.4664306640625 2 677.467504 1352.92046 NaN NaN NaN NaN NaN NaN NaN 81.594 1 81.678 81.178 82.178 0.084106 0 0 0 1.002 1 40134 40134 0 0 1 28026 6399 18113 18171 31586 31586 0.25811190415561214 RQINWTVL 8 Unmodified _RQINWTVL_ 0 0 0 ENSG00000114391|ENST00000394077|RPL24 ENSG00000114391|ENST00000394077|RPL24 ENSG00000114391|ENST00000394077|RPL24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 343.8668518066406 3 343.866181 1028.57671 2.5441 0.00087485 -0.4399 -0.00015127 2.1043 0.00072358 343.86602391029635 26.093 0.2481 26.093 25.987 26.236 0 79 31 3 0 0 0 0.17174 2 11739 11696;11739 46.021 19.753 1 13335000 28027 1902 18114 18172 31587;31588 31588 0.06356868917032443 RQINWTVL 8 Unmodified _RQINWTVL_ 0 0 0 ENSG00000114391|ENST00000394077|RPL24 ENSG00000114391|ENST00000394077|RPL24 ENSG00000114391|ENST00000394077|RPL24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 343.8669128417969 3 343.866181 1028.57671 2.1317 0.00073301 0.29211 0.00010045 2.4238 0.00083345 343.8663011206079 25.172 0.27059 25.935 25.794 26.064 0.76356 83 24 4 0 0 0 0.17174 2 11268 11268;11315 46.021 19.753 1 9023600 28028 1902 18114 18172 31589;31590 31589 0.06356868917032443 RQINWTVL 8 Unmodified _RQINWTVL_ 0 0 0 ENSG00000114391|ENST00000394077|RPL24 ENSG00000114391|ENST00000394077|RPL24 ENSG00000114391|ENST00000394077|RPL24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.8670959472656 3 343.866181 1028.57671 2.5646 0.00088187 -0.11582 -3.9827E-05 2.4488 0.00084205 343.86617691203867 25.866 0.3423 26.134 25.959 26.301 0.26777 105 33 4 0 0 0 0.26626 2 11762 11713;11762 37.974 17.559 1 6258800 28029 1902 18114 18172 31591;31592 31592 0.06356868917032443 RQINWTVL 8 Unmodified _RQINWTVL_ 0 0 0 ENSG00000114391|ENST00000394077|RPL24 ENSG00000114391|ENST00000394077|RPL24 ENSG00000114391|ENST00000394077|RPL24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.8672790527344 3 343.866181 1028.57671 2.2981 0.00079023 0.38511 0.00013243 2.6832 0.00092266 343.86633435221023 25.537 0.31683 26.162 26.029 26.346 0.62505 100 35 4 0 0 0 0.26626 2 11727 11683;11727 37.974 15.238 1 5392500 28030 1902 18114 18172 31593;31594 31594 0.06356868917032443 RQIRKKHRRRE 11 Unmodified _RQIRKKHRRRE_ 0 0 0 REV__ENST00000461933.1_1_3:169684610-169686205:+|nuORF REV__ENST00000461933.1_1_3:169684610-169686205:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 391.74658203125 4 391.494825 1561.95019 2.6476 0.0010365 -0.18881 -7.3918E-05 2.4588 0.00096261 391.4947006864404 55.316 0.17259 55.316 55.251 55.424 0 59 13 6 0 0 0 0.91391 1 25404 25404 0.08335 0.08335 1 128380000 + 28031 16498 18115 18173 31595 31595 0.1916952241360832 RQIRKKHRRRE 11 Unmodified _RQIRKKHRRRE_ 0 0 0 REV__ENST00000461933.1_1_3:169684610-169686205:+|nuORF REV__ENST00000461933.1_1_3:169684610-169686205:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.9935302734375 3 521.657341 1561.95019 3.1984 0.0016685 -0.21466 -0.00011198 2.9838 0.0015565 521.9914873294349 55.33 0.13111 55.33 55.261 55.393 0 30 10 3 0 0 0 0.91391 1 25405 25405 0.08335 0 1 22781000 + 28032 16498 18115 18173 31596 31596 0.1916952241360832 RQIRKKHRRRE 11 Unmodified _RQIRKKHRRRE_ 0 0 0 REV__ENST00000461933.1_1_3:169684610-169686205:+|nuORF REV__ENST00000461933.1_1_3:169684610-169686205:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 391.49578857421875 4 391.494825 1561.95019 2.5999 0.0010178 -0.4001 -0.00015664 2.1997 0.00086119 391.4946003486833 55.484 0.27081 55.484 55.381 55.652 0 100 20 6 0 0 0 0.91403 1 25512 25512 0.073264 0.073264 1 105680000 + 28033 16498 18115 18173 31597 31597 0.1916952241360832 RQIRKKHRRRE 11 Unmodified _RQIRKKHRRRE_ 0 0 0 REV__ENST00000461933.1_1_3:169684610-169686205:+|nuORF REV__ENST00000461933.1_1_3:169684610-169686205:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 391.4962158203125 4 391.494825 1561.95019 2.1904 0.00085752 -0.14904 -5.8347E-05 2.0413 0.00079918 391.4947554008573 54.629 1.0905 55.425 55.061 56.151 0.79552 299 73 6 0 0 0 0.91391 9 25012 24818;24868;24917;24963;25012;25061;25106;25161;25203 0.08335 0.08335 1 79193000 + 28034 16498 18115 18173 31598;31599;31600;31601;31602;31603;31604;31605;31606 31602 0.1916952241360832 RQIRKKHRRRE 11 Unmodified _RQIRKKHRRRE_ 0 0 0 REV__ENST00000461933.1_1_3:169684610-169686205:+|nuORF REV__ENST00000461933.1_1_3:169684610-169686205:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.658935546875 3 521.657341 1561.95019 3.0128 0.0015716 -0.14648 -7.6413E-05 2.8663 0.0014952 521.6572458130219 54.833 0.32397 55.628 55.477 55.801 0.79552 42 20 3 0 0 0 0.91489 2 24981 24981;25023 0 0 1 5490600 + 28035 16498 18115 18173 31607;31608 31607 0.1916952241360832 RQIRKKHRRRE 11 Unmodified _RQIRKKHRRRE_ 0 0 0 REV__ENST00000461933.1_1_3:169684610-169686205:+|nuORF REV__ENST00000461933.1_1_3:169684610-169686205:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.7469787597656 4 391.494825 1561.95019 2.6608 0.0010417 -0.19366 -7.5817E-05 2.4672 0.00096588 391.49475599274945 55.099 0.75285 55.364 55.113 55.865 0.26543 209 43 6 0 0 0 0.91391 1 25109 25109 0.08335 0.08335 1 169730000 + 28036 16498 18115 18173 31609 31609 0.1916952241360832 RQIRKKHRRRE 11 Unmodified _RQIRKKHRRRE_ 0 0 0 REV__ENST00000461933.1_1_3:169684610-169686205:+|nuORF REV__ENST00000461933.1_1_3:169684610-169686205:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1562.9638671875 1 1562.95747 1561.95019 2.9048 0.0045401 -0.12963 -0.00020261 2.7752 0.0043375 1562.9573191109935 55.137 0.24305 55.402 55.283 55.526 0.26543 19 15 2 0 0 0 0.91489 1 25215 25215 0 0 1 2825500 + 28037 16498 18115 18173 31610 31610 0.1916952241360832 RQIWRRRRKM 10 Unmodified _RQIWRRRRKM_ 0 0 0 REV__ENST00000257749.8_2_6:90661229-90661412:-|nuORF REV__ENST00000257749.8_2_6:90661229-90661412:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 743.444580078125 2 743.444037 1484.87352 NaN NaN NaN NaN NaN NaN NaN 78.771 1 79.236 78.736 79.736 0.4642 0 0 0 0.99464 1 38338 38338 6.2058 2.6093 1 + 28038 14942 18116 18174 31611 31611 0.1504800759275895 RQKEEWWIKRL 11 Unmodified _RQKEEWWIKRL_ 0 0 0 REV__ENST00000357242.9_1_X:106045958-106046036:+|nuORF REV__ENST00000357242.9_1_X:106045958-106046036:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 786.4432983398438 2 786.443892 1570.87323 NaN NaN NaN NaN NaN NaN NaN 40.797 1 41.6 41.1 42.1 0.80351 0 0 0 1.0082 1 18491 18491 0 0 1 + 28039 15563 18117 18175 31612 31612 0.1106286635390461 RQKGSPRRPR 10 Unmodified _RQKGSPRRPR_ 0 0 0 REV__ENST00000569825.1_1_16:70288612-70289662:-|nuORF REV__ENST00000569825.1_1_16:70288612-70289662:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.2516174316406 3 413.2498 1236.72757 3.7917 0.0015669 0.40139 0.00016587 4.1931 0.0017328 413.24987905801834 97.333 0.36655 97.623 97.406 97.772 0.28923 31 16 2 0 0 0 0.94165 1 44679 44679 0.56317 0.10865 1 1482100 + 28040 17441 18118 18176 31613 31613 0.11867448348402831 RQKGSPRRPR 10 Unmodified _RQKGSPRRPR_ 0 0 0 REV__ENST00000569825.1_1_16:70288612-70289662:-|nuORF REV__ENST00000569825.1_1_16:70288612-70289662:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 413.2513732910156 3 413.2498 1236.72757 3.1897 0.0013181 1.2157 0.0005024 4.4054 0.0018205 413.25014274381437 96.851 0.45332 97.453 97.267 97.72 0.6019 50 20 4 0 0 0 0.94099 1 44498 44498 0.69767 0.24315 1 1450400 + 28041 17441 18118 18176 31614 31614 0.11867448348402831 RQKKLMHKLQ 10 Unmodified _RQKKLMHKLQ_ 0 0 0 ENSG00000123171|ENST00000242819|CCDC70 ENSG00000123171|ENST00000242819|CCDC70 ENSG00000123171|ENST00000242819|CCDC70 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.2034912109375 4 328.202588 1308.78124 2.0919 0.00068656 0.74551 0.00024468 2.8374 0.00093124 328.20271423272135 47.882 0.46793 47.882 47.671 48.139 0 88 27 4 0 0 0 0.12676 1 21990 21990 1.7423 0.67081 1 7643500 28042 2298 18119 18177 31615 31615 0.139204847359224 RQKKLMHKLQ 10 Unmodified _RQKKLMHKLQ_ 0 0 0 ENSG00000123171|ENST00000242819|CCDC70 ENSG00000123171|ENST00000242819|CCDC70 ENSG00000123171|ENST00000242819|CCDC70 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.2036437988281 4 328.202588 1308.78124 2.3124 0.00075895 0.58612 0.00019236 2.8986 0.00095132 328.20269904399976 48.44 1.4679 49.267 48.785 50.253 0.82705 263 76 5 0 0 0 0.93584 1 22190 22190 1.7423 0.52744 1 13119000 28043 2298 18119 18177 31616 31616 0.139204847359224 RQKKLMHKLQ 10 Unmodified _RQKKLMHKLQ_ 0 0 0 ENSG00000123171|ENST00000242819|CCDC70 ENSG00000123171|ENST00000242819|CCDC70 ENSG00000123171|ENST00000242819|CCDC70 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.2033996582031 4 328.202588 1308.78124 2.2441 0.00073651 0.61362 0.00020139 2.8577 0.0009379 328.2025471996884 46.957 0.77052 47.609 47.004 47.774 0.65219 95 39 3 0 0 0 0.12676 1 21503 21503 1.7423 0.67081 1 9121800 28044 2298 18119 18177 31617 31617 0.139204847359224 RQKKSSRKR 9 Unmodified _RQKKSSRKR_ 0 0 0 ENST00000592604.5_1_19:11123597-11172489:+|nuORF;nc|ENSG00000127616|P51532-5|SMARCA4;nc|ENSG00000127616|P51532-2|SMARCA4;nc|ENSG00000127616|P51532-3|SMARCA4;nc|ENSG00000127616|P51532-4|SMARCA4;ENSG00000127616|ENST00000344626|SMARCA4;ENST00000591595.5_1_19:11130023-11172489:+|nuORF;ENST00000585799.5_1_19:11132109-11172489:+|nuORF ENST00000592604.5_1_19:11123597-11172489:+|nuORF ENST00000592604.5_1_19:11123597-11172489:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.3655395507812 2 587.367987 1172.72142 NaN NaN NaN NaN NaN NaN NaN 52.428 1 52.428 51.928 52.928 0 0 0 0 0.90777 1 24008 24008 1.6526 0.32309 1 28045 2488 18120 18178 31618 31618 0.141969301168956 RQKLVAVI 8 Unmodified _RQKLVAVI_ 0 0 0 REV__nc|ENSG00000122882|O95905-2|ECD REV__nc|ENSG00000122882|O95905-2|ECD MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 309.5248718261719 3 309.543038 925.607286 2.2692 0.0007024 -0.68638 -0.00021246 1.5828 0.00048994 309.5427367377447 33.547 0.30752 33.801 33.642 33.95 0.25389 25 18 2 0 0 0 0.141 1 15270 15270 3.5965 0 1 365240 + 28046 11597 18121 18179 31619 31619 0.1415064730207405 RQKNKIESI 9 Unmodified _RQKNKIESI_ 0 0 0 REV__ENSG00000117133|ENST00000370654|RPF1 REV__ENSG00000117133|ENST00000370654|RPF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 372.5568542480469 3 372.555895 1114.64586 NaN NaN NaN NaN NaN NaN NaN 12.371 1 12.678 12.178 13.178 0.30727 0 0 0 0.3934 1 5565 5565 21.537 0 1 + 28047 11433 18122 18180 31620 31620 0.09311908145923553 RQKQLPRRR 9 Unmodified _RQKQLPRRR_ 0 0 0 REV__ENSG00000063438|ENST00000684583|AHRR REV__ENSG00000063438|ENST00000684583|AHRR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.010498046875 2 619.389254 1236.76395 NaN NaN NaN NaN NaN NaN NaN 83.044 1 83.291 82.791 83.791 0.24722 0 0 0 0.91238 1 38227 38227 0.52476 0 1 + 28048 10406 18123 18181 31621 31621 0.1550432524511507 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.9871826171875 4 362.986901 1447.9185 2.6072 0.00094636 -0.64484 -0.00023407 1.9623 0.00071229 363.2373881215194 43.271 0.29801 43.271 43.146 43.444 0 96 66 2 0 0 0 0.94374 1 19731 19731 0.13989 0 1 77559000 + 28049 11114 18124 18182 31622 31622 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.6479797363281 3 483.646776 1447.9185 3.1525 0.0015247 -0.21413 -0.00010356 2.9384 0.0014211 483.6464841170534 43.652 0.30542 43.652 43.532 43.838 0 67 29 3 0 0 0 0.94134 3 19870 19870;19920;19972 0.62683 0 1 5470000 + 28050 11114 18124 18182 31623;31624;31625 31623 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.6480712890625 3 483.646776 1447.9185 3.1147 0.0015064 -0.083023 -4.0154E-05 3.0317 0.0014663 483.64658647783597 45.289 0.8598 45.289 45.052 45.912 0 149 43 4 0 0 0 0.94374 1 20740 20740 0.13989 0 1 5265200 + 28051 11114 18124 18182 31626 31626 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.9875793457031 4 362.986901 1447.9185 2.5401 0.00092202 -0.20943 -7.602E-05 2.3307 0.000846 362.98674666416287 45.945 0.41904 45.945 45.79 46.209 0 85 21 5 0 0 0 0.94374 2 21052 21052;21115 0.13989 0 1 18345000 + 28052 11114 18124 18182 31627;31628 31627 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.9878234863281 4 362.986901 1447.9185 2.5025 0.00090836 -0.23872 -8.6651E-05 2.2637 0.00082171 362.9867437859419 46.4 0.95683 46.4 46.151 47.108 0 89 44 3 0 0 0 0.94374 1 21268 21268 0.13989 0 1 2881300 + 28053 11114 18124 18182 31629 31629 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.9877014160156 4 362.986901 1447.9185 2.4454 0.00088766 -0.12419 -4.5078E-05 2.3212 0.00084258 362.9867217345415 47.116 0.72353 47.116 46.738 47.461 0 61 35 3 0 0 0 0.94374 3 21441 21441;21499;21717 0.13989 0 1 2763100 + 28054 11114 18124 18182 31630;31631;31632 31630 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.9877014160156 4 362.986901 1447.9185 2.4507 0.00088958 -0.72821 -0.00026433 1.7225 0.00062525 363.2374965584131 47.645 0.22406 47.645 47.441 47.665 0 27 15 2 0 0 0 0.94374 1 21766 21766 0.13989 0 1 5161800 + 28055 11114 18124 18182 31633 31633 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.2394714355469 4 362.986901 1447.9185 2.5444 0.0009236 -0.52239 -0.00018962 2.022 0.00073398 362.986561420716 47.77 0.67963 47.77 47.657 48.336 0 94 40 3 0 0 0 0.94374 3 21887 21887;21948;21997 0.13989 0 1 2542500 + 28056 11114 18124 18182 31634;31635;31636 31634 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.98736572265625 4 362.986901 1447.9185 2.7013 0.00098054 -0.015801 -5.7355E-06 2.6855 0.00097481 362.9866825895441 48.865 0.68579 48.865 48.336 49.022 0 88 41 3 0 0 0 0.94374 2 22213 22213;22325 0.13989 0 1 1182600 + 28057 11114 18124 18182 31637;31638 31637 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.2394714355469 4 362.986901 1447.9185 2.5444 0.0009236 -0.52239 -0.00018962 2.022 0.00073398 362.986561420716 47.77 0.67963 47.77 47.657 48.336 0 94 40 3 0 0 0 0.12676 1 21887 21887 0.13989 0 1 2542500 + 28058 11114 18124 18182 31639 31639 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.98779296875 4 362.986901 1447.9185 2.5025 0.00090836 -0.23872 -8.6651E-05 2.2637 0.00082171 362.9867437859419 46.4 0.95683 46.4 46.151 47.108 0 89 44 3 0 0 0 0.12676 1 21499 21499 0.13989 0 1 2881300 + 28059 11114 18124 18182 31640 31640 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.6484069824219 3 483.646776 1447.9185 3.0327 0.0014667 -0.10802 -5.2243E-05 2.9247 0.0014145 483.6464949575972 42.139 0.21749 42.948 42.751 42.968 0.80855 32 13 3 0 0 0 0.94374 1 19140 19140 0.13989 0 1 5077800 + 28060 11114 18124 18182 31641 31641 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.9877014160156 4 362.986901 1447.9185 2.3027 0.00083585 0.18897 6.8593E-05 2.4917 0.00090444 362.9868816312235 44.601 1.3027 45.421 44.775 46.078 0.82074 261 70 5 0 0 0 0.94374 1 20202 20202 0.13989 0 1 23315000 + 28061 11114 18124 18182 31642 31642 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.98291015625 3 483.646776 1447.9185 3.0357 0.0014682 -0.11605 -5.6129E-05 2.9196 0.0014121 483.6466545109606 44.574 0.87072 45.395 44.859 45.729 0.82075 76 45 2 0 0 0 0.94134 2 20254 20232;20254 0.62683 0.4675 1 2320200 + 28062 11114 18124 18182 31643;31644 31644 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.9875793457031 4 362.986901 1447.9185 2.3453 0.0008513 0.10562 3.8339E-05 2.4509 0.00088964 362.9867676738187 45.876 1.116 46.702 45.948 47.064 0.82621 106 60 4 0 0 0 0.94374 2 20651 20651;20886 0.13989 0 1 2397000 + 28063 11114 18124 18182 31645;31646 31645 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 724.9678955078125 2 724.966526 1447.9185 NaN NaN NaN NaN NaN NaN NaN 44.448 1 45.269 44.769 45.769 0.82075 0 0 0 1.0019 1 20241 20241 0.40072 0 1 + 28064 11114 18124 18182 31647 31647 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 724.9678955078125 2 724.966526 1447.9185 NaN NaN NaN NaN NaN NaN NaN 44.94 1 45.761 45.261 46.261 0.82075 0 0 0 1.0019 1 20466 20466 0.40072 0 1 + 28065 11114 18124 18182 31648 31648 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.6488342285156 3 483.646776 1447.9185 3.146 0.0015215 -0.088701 -4.29E-05 3.0573 0.0014786 483.98106434710104 42.757 0.38616 43.027 42.703 43.089 0.27021 53 22 4 0 0 0 0.94374 3 19411 19411;19463;19518 0.13989 0 1 27274000 + 28066 11114 18124 18182 31649;31650;31651 31649 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.9878845214844 4 362.986901 1447.9185 2.6809 0.00097315 -0.22448 -8.1483E-05 2.4565 0.00089166 362.9867890543569 42.757 0.40378 43.027 42.681 43.085 0.27021 94 22 6 0 0 0 0.94374 1 19509 19509 0.13989 0 1 172050000 + 28067 11114 18124 18182 31652 31652 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 725.4700927734375 2 724.966526 1447.9185 3.6405 0.0026393 -0.44136 -0.00031997 3.1992 0.0023193 724.965902900044 44.747 0.5895 45.014 44.666 45.255 0.26768 71 27 3 0 0 0 0.94374 1 20411 20411 0.40072 0 1 2770900 + 28068 11114 18124 18182 31653 31653 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.64776611328125 3 483.646776 1447.9185 2.9132 0.001409 -0.2136 -0.00010331 2.6996 0.0013057 483.64651903102026 44.73 1.012 44.998 44.666 45.678 0.26768 112 46 4 0 0 0 0.94374 1 20507 20507 0.13989 0 1 4562200 + 28069 11114 18124 18182 31654 31654 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.987548828125 4 362.986901 1447.9185 2.4606 0.00089316 -0.016517 -5.9954E-06 2.4441 0.00088716 362.9868567910303 45.038 1.369 45.306 44.634 46.003 0.26768 162 59 5 0 0 0 0.94374 1 20521 20521 0.13989 0 1 37162000 + 28070 11114 18124 18182 31655 31655 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.64837646484375 3 483.646776 1447.9185 2.9552 0.0014293 0.10346 5.0039E-05 3.0586 0.0014793 483.64663331752143 45.389 0.63041 45.657 45.172 45.803 0.26768 73 26 3 0 0 0 0.94374 3 20560 20560;20655;20768 0.13989 0 1 5376900 + 28071 11114 18124 18182 31656;31657;31658 31656 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 724.96826171875 2 724.966526 1447.9185 3.683 0.00267 -0.055651 -4.0345E-05 3.6273 0.0026297 725.4678519751775 45.247 0.60162 45.515 45.172 45.774 0.26768 62 25 3 0 0 0 0.94443 1 20771 20771 0 0 1 2797400 + 28072 11114 18124 18182 31659 31659 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.23858642578125 4 362.986901 1447.9185 2.7807 0.0010094 -0.16446 -5.9697E-05 2.6162 0.00094966 363.2375435057215 46.672 1.4287 46.938 46.078 47.507 0.26561 132 55 3 0 0 0 0.94374 2 21405 21405;21577 0.13989 0 1 6257500 + 28073 11114 18124 18182 31660;31661 31660 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.9878845214844 4 362.986901 1447.9185 2.8236 0.0010249 -0.46443 -0.00016858 2.3592 0.00085637 362.9866426392085 47.627 1.2008 47.891 47.368 48.569 0.26363 111 61 2 0 0 0 0.94374 5 21632 21632;21694;21881;21925;21986 0.13989 0 1 3449200 + 28074 11114 18124 18182 31662;31663;31664;31665;31666 31662 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.9876708984375 4 362.986901 1447.9185 2.7756 0.0010075 0.23558 8.5512E-05 3.0112 0.001093 363.2378746454228 48.51 0.56056 48.773 48.552 49.113 0.26209 82 31 3 0 0 0 0.94374 1 22131 22131 0.13989 0 1 2461400 + 28075 11114 18124 18182 31667 31667 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.6483459472656 3 483.646776 1447.9185 3.3359 0.0016134 0.057697 2.7905E-05 3.3936 0.0016413 483.6467496919858 41.607 0.31664 42.251 41.978 42.295 0.64451 51 16 5 0 0 0 0.94374 2 18953 18953;19051 0.13989 0 1 16006000 + 28076 11114 18124 18182 31668;31669 31668 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.6483459472656 3 483.646776 1447.9185 3.3275 0.0016093 -0.25163 -0.0001217 3.0758 0.0014876 483.6466438138956 42.311 0.32133 42.958 42.847 43.168 0.64693 47 24 4 0 0 0 0.94374 1 19369 19369 0.13989 0 1 2834700 + 28077 11114 18124 18182 31670 31670 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.9883117675781 4 362.986901 1447.9185 2.7079 0.00098295 0.1069 3.8802E-05 2.8148 0.0010217 362.98692221166715 44.029 0.70946 44.678 44.512 45.221 0.64872 152 32 5 0 0 0 0.94374 2 20181 20131;20181 0.13989 0 1 55641000 + 28078 11114 18124 18182 31671;31672 31672 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.98291015625 3 483.646776 1447.9185 3.3153 0.0016034 0.18459 8.9275E-05 3.4999 0.0016927 483.9813333417344 44.029 0.23238 44.678 44.541 44.773 0.64872 16 8 2 0 0 0 0.94374 1 20199 20199 0.13989 0 1 6214400 + 28079 11114 18124 18182 31673 31673 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.6476745605469 3 483.646776 1447.9185 3.324 0.0016077 -0.16755 -8.1034E-05 3.1565 0.0015266 483.64663491485504 44.176 0.44779 44.826 44.775 45.223 0.64998 41 21 2 0 0 0 0.94374 1 20296 20296 0.13989 0 1 5824500 + 28080 11114 18124 18182 31674 31674 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.988037109375 4 362.986901 1447.9185 2.8368 0.0010297 0.082386 2.9905E-05 2.9192 0.0010596 362.9868146376357 46.218 1.3604 46.869 45.983 47.343 0.65119 110 52 3 0 0 0 0.94374 1 21141 21141 0.13989 0 1 2987900 + 28081 11114 18124 18182 31675 31675 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.2383728027344 4 362.986901 1447.9185 2.6712 0.00096962 -0.25378 -9.2117E-05 2.4174 0.0008775 363.2375303283903 46.789 0.62069 47.442 47.004 47.624 0.65219 36 24 2 0 0 0 0.94374 2 21280 21280;21341 0.13989 0 1 2349300 + 28082 11114 18124 18182 31676;31677 31676 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.9879455566406 4 362.986901 1447.9185 2.6048 0.00094551 0.17099 6.2066E-05 2.7758 0.0010076 362.9868172785886 47.775 0.53494 48.429 48.147 48.682 0.65356 46 22 3 0 0 0 0.94374 1 21879 21879 0.13989 0 1 1440800 + 28083 11114 18124 18182 31678 31678 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.9877624511719 4 362.986901 1447.9185 2.6712 0.00096962 -0.25378 -9.2117E-05 2.4174 0.0008775 363.2375303283903 46.789 0.62069 47.442 47.004 47.624 0.65219 36 24 2 0 0 0 0.12676 1 21468 21468 0.13989 0 1 2349300 + 28084 11114 18124 18182 31679 31679 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.7417297363281 4 362.986901 1447.9185 2.6758 0.00097128 0.65142 0.00023646 3.3272 0.0012077 362.9868183430822 48.935 0.38116 49.59 49.31 49.691 0.65524 29 13 4 0 0 0 0.12676 1 22303 22303 0.13989 0 1 2304500 + 28085 11114 18124 18182 31680 31680 0.21245574450313143 RQKRRRRKHK 10 Unmodified _RQKRRRRKHK_ 0 0 0 REV__nc|ENSG00000107404|O14640-2|DVL1 REV__nc|ENSG00000107404|O14640-2|DVL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.8048095703125 3 483.646776 1447.9185 3.3275 0.0016093 -0.25163 -0.0001217 3.0758 0.0014876 483.6466438138956 42.311 0.32133 42.958 42.847 43.168 0.64693 47 24 4 0 0 0 0.12676 1 19457 19457 0.62683 0 1 2834700 + 28086 11114 18124 18182 31681 31681 0.21245574450313143 RQKVAAGP 8 Unmodified _RQKVAAGP_ 0 0 0 REV__nc|ENSG00000204406|Q9P267-2|MBD5 REV__nc|ENSG00000204406|Q9P267-2|MBD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.7508544921875 2 413.748319 825.482085 NaN NaN NaN NaN NaN NaN NaN 52.421 1 52.685 52.185 53.185 0.26345 0 0 0 0.99035 1 23966 23966 2.5775 0 1 + 28087 14415 18125 18183 31682 31682 0.062363551657085736 RQKVRQFAL 9 Unmodified _RQKVRQFAL_ 0 0 0 ENST00000540006.5_1_13:111293886-111296904:-|nuORF;ENST00000541239.5_1_13:111293886-111295180:-|nuORF;ENST00000535516.5_1_13:111293886-111298616:-|nuORF;ENSG00000134905|ENST00000257347|CARS2 ENST00000540006.5_1_13:111293886-111296904:-|nuORF ENST00000540006.5_1_13:111293886-111296904:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 382.5693054199219 3 382.568247 1144.68291 2.8354 0.0010847 0.27952 0.00010693 3.1149 0.0011917 382.56833032804565 21.495 0.19563 21.495 21.379 21.575 0 35 21 2 0 0 0 0.54955 1 9629 9629 7.609 2.7119 1 299980 28088 2838 18126 18184 31683 31683 0.11635624482391904 RQKVRQFAL 9 Unmodified _RQKVRQFAL_ 0 0 0 ENST00000540006.5_1_13:111293886-111296904:-|nuORF;ENST00000541239.5_1_13:111293886-111295180:-|nuORF;ENST00000535516.5_1_13:111293886-111298616:-|nuORF;ENSG00000134905|ENST00000257347|CARS2 ENST00000540006.5_1_13:111293886-111296904:-|nuORF ENST00000540006.5_1_13:111293886-111296904:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.5697937011719 3 382.568247 1144.68291 2.8884 0.001105 0.5264 0.00020138 3.4148 0.0013064 382.56841657308996 20.484 0.31333 21.137 20.98 21.294 0.65346 66 26 3 0 0 0 0.032303 2 9316 9272;9316 41.956 30.461 1 930110 28089 2838 18126 18184 31684;31685 31685 0.11635624482391904 RQLAFVHV 8 Unmodified _RQLAFVHV_ 0 0 0 REV__ENST00000485825.1_1_7:107215546-107218002:+|nuORF REV__ENST00000485825.1_1_7:107215546-107218002:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.9496765136719 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 55.786 1 56.573 56.073 57.073 0.78711 0 0 0 0.99035 1 25479 25479 2.8892 0 1 + 28090 16747 18127 18185 31686 31686 0.07004903608185487 RQLPMKIRING 11 Unmodified _RQLPMKIRING_ 0 0 0 ENSG00000179361|ENST00000346246|ARID3B;nc|ENSG00000179361|Q8IVW6|ARID3B ENSG00000179361|ENST00000346246|ARID3B ENSG00000179361|ENST00000346246|ARID3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 442.60040283203125 3 442.599329 1324.77616 2.7187 0.0012033 0.66726 0.00029533 3.386 0.0014986 442.5994608099235 46.363 1.3255 46.363 45.711 47.037 0 165 62 3 0 0 0 0.91068 1 21473 21473 0.45452 0 1 2490300 28091 5213 18128 18186 31687 31687 0.12676180873290832 RQLPMKIRING 11 Unmodified _RQLPMKIRING_ 0 0 0 ENSG00000179361|ENST00000346246|ARID3B;nc|ENSG00000179361|Q8IVW6|ARID3B ENSG00000179361|ENST00000346246|ARID3B ENSG00000179361|ENST00000346246|ARID3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 442.6010437011719 3 442.599329 1324.77616 2.7409 0.0012131 0.35042 0.00015509 3.0913 0.0013682 442.59944689783043 45.867 0.42305 46.693 46.517 46.94 0.82621 28 21 2 0 0 0 0.91068 1 20958 20958 0.45452 0 1 1008500 28092 5213 18128 18186 31688 31688 0.12676180873290832 RQLPMKIRING 11 Unmodified _RQLPMKIRING_ 0 0 0 ENSG00000179361|ENST00000346246|ARID3B;nc|ENSG00000179361|Q8IVW6|ARID3B ENSG00000179361|ENST00000346246|ARID3B ENSG00000179361|ENST00000346246|ARID3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.6007080078125 3 442.599329 1324.77616 3.305 0.0014628 0.50896 0.00022526 3.8139 0.001688 442.5994221264095 44.977 1.4106 45.627 45.291 46.702 0.64998 117 53 3 0 0 0 0.91068 1 21068 21068 0.45452 0 1 2286400 28093 5213 18128 18186 31689 31689 0.12676180873290832 RQLSQKRRCLK 11 Unmodified _RQLSQKRRCLK_ 0 0 0 ENST00000589042.5_3_2:179517806-179527536:-|nuORF ENST00000589042.5_3_2:179517806-179527536:-|nuORF ENST00000589042.5_3_2:179517806-179527536:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.6192932128906 3 472.617383 1414.83032 3.189 0.0015072 1.3068 0.00061764 4.4958 0.0021248 472.6179832296441 94.782 0.9402 95.4 94.741 95.681 0.61737 70 52 2 0 0 0 0.91359 1 43477 43477 0.40827 0 1 858270 28094 9213 18129 18187 31690 31690 0.13949773024864953 RQLVHFGL 8 Unmodified _RQLVHFGL_ 0 0 0 REV__ENST00000215574.8_1_19:541660-541819:+|nuORF REV__ENST00000215574.8_1_19:541660-541819:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2880859375 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 63.581 1 63.83 63.33 64.33 0.24803 0 0 0 0.99035 1 29119 29119 5.7604 0.52976 1 + 28095 14795 18130 18188 31691 31691 0.07004903608185487 RQLVHFGL 8 Unmodified _RQLVHFGL_ 0 0 0 REV__ENST00000215574.8_1_19:541660-541819:+|nuORF REV__ENST00000215574.8_1_19:541660-541819:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2889709472656 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 67.248 1 67.498 66.998 67.998 0.2501 0 0 0 0.99035 1 30806 30806 2.8892 0 1 + 28096 14795 18130 18188 31692 31692 0.07004903608185487 RQLVHFGL 8 Unmodified _RQLVHFGL_ 0 0 0 REV__ENST00000215574.8_1_19:541660-541819:+|nuORF REV__ENST00000215574.8_1_19:541660-541819:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2889404296875 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 68.727 1 68.979 68.479 69.479 0.25227 0 0 0 0.99035 1 31484 31484 2.5775 0 1 + 28097 14795 18130 18188 31693 31693 0.07004903608185487 RQLVTDKI 8 Unmodified _RQLVTDKI_ 0 0 0 REV__nc|ENSG00000159131|P22102-2|GART REV__nc|ENSG00000159131|P22102-2|GART MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 324.866455078125 3 324.86607 971.57638 2.2089 0.0007176 -0.079333 -2.5773E-05 2.1296 0.00069183 324.8659568853003 26.052 0.25428 26.815 26.692 26.946 0.76356 28 15 2 0 0 0 0.72385 1 11739 11739 3.9444 0 1 552960 + 28098 12843 18131 18189 31694 31694 0.0894544919716509 RQLWALRRL 9 Unmodified _RQLWALRRL_ 0 0 0 REV__ENST00000418710.2_1_7:20824815-20825286:-|nuORF REV__ENST00000418710.2_1_7:20824815-20825286:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.58984375 3 404.587641 1210.74109 NaN NaN NaN NaN NaN NaN NaN 31.508 1 32.297 31.797 32.797 0.78879 0 0 0 0.90965 1 14231 14231 1.1933 0 1 + 28099 16152 18132 18190 31695 31695 0.14415306127648364 RQLWWWRRRPQ 11 Unmodified _RQLWWWRRRPQ_ 0 0 0 REV__ENST00000591247.5_1_17:42113394-42113565:-|nuORF REV__ENST00000591247.5_1_17:42113394-42113565:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 834.4000244140625 2 834.460742 1666.90693 NaN NaN NaN NaN NaN NaN NaN 87.072 1 87.112 86.612 87.612 0.039955 0 0 0 1.0082 1 43979 43979 0 0 1 + 28100 17582 18133 18191 31696 31696 0.10015332636316998 RQLYVLGS 8 Unmodified _RQLYVLGS_ 0 0 0 ENSG00000182179|ENST00000333486|UBA7 ENSG00000182179|ENST00000333486|UBA7 ENSG00000182179|ENST00000333486|UBA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 468.2709655761719 2 468.269084 934.523616 NaN NaN NaN NaN NaN NaN NaN 5.0295 1 5.0295 4.5295 5.5295 0 0 0 0 0.99035 1 2285 2285 0.69038 0 1 28101 5316 18134 18192 31697 31697 0.053734911343894964 RQMKMKVHRFK 11 Unmodified _RQMKMKVHRFK_ 0 0 0 nc|ENSG00000079841|Q86UR5-12|RIMS1;nc|ENSG00000079841|Q86UR5-5|RIMS1;nc|ENSG00000079841|Q86UR5-3|RIMS1;nc|ENSG00000079841|Q86UR5-4|RIMS1;ENSG00000079841|ENST00000521978|RIMS1 nc|ENSG00000079841|Q86UR5-12|RIMS1 nc|ENSG00000079841|Q86UR5-12|RIMS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.9559020996094 3 496.951597 1487.83296 NaN NaN NaN NaN NaN NaN NaN 57.582 1 57.582 57.082 58.082 0 0 0 0 1.0073 1 26545 26545 1.2148 0.70888 1 28102 900 18135 18193 31698 31698 0.1085590515815511 RQMKSLGL 8 Unmodified _RQMKSLGL_ 0 0 0 REV__nc|ENSG00000102038|P28370-2|SMARCA1 REV__nc|ENSG00000102038|P28370-2|SMARCA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 311.5170593261719 3 311.516383 931.527321 2.0178 0.00062859 0.50823 0.00015832 2.5261 0.00078691 311.51658832823375 14.461 0.2129 14.768 14.654 14.867 0.3069 29 9 4 0 0 0 0.67495 1 6575 6575 5.7319 2.1354 1 4962000 + 28103 10917 18136 18194 31699 31699 0.058818376365934455 RQMTKASVL 9 Unmodified _RQMTKASVL_ 0 0 0 REV__ENST00000488236.5_1_3:9495468-9506425:+|nuORF REV__ENST00000488236.5_1_3:9495468-9506425:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.1997985839844 3 345.198943 1032.575 2.3073 0.00079649 1.0578 0.00036514 3.3651 0.0011616 345.1993922735838 18.042 0.26908 18.343 18.137 18.406 0.30158 62 28 3 0 0 0 0.29523 1 8126 8126 12.175 5.073 1 771820 + 28104 16778 18137 18195 31700 31700 0.06001491836786954 RQMTKASVL 9 Unmodified _RQMTKASVL_ 0 0 0 REV__ENST00000488236.5_1_3:9495468-9506425:+|nuORF REV__ENST00000488236.5_1_3:9495468-9506425:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.21441650390625 3 345.198943 1032.575 2.3073 0.00079649 1.0578 0.00036514 3.3651 0.0011616 345.1993922735838 18.042 0.26908 18.343 18.137 18.406 0.30158 62 28 3 0 0 0 0.10127 1 8145 8145 12.175 5.073 1 771820 + 28105 16778 18137 18195 31701 31701 0.06001491836786954 RQMTKASVL 9 Unmodified _RQMTKASVL_ 0 0 0 REV__ENST00000488236.5_1_3:9495468-9506425:+|nuORF REV__ENST00000488236.5_1_3:9495468-9506425:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.2005920410156 3 345.198943 1032.575 2.4194 0.00083517 1.7693 0.00061075 4.1886 0.0014459 345.1995374173274 17.774 0.18044 18.435 18.369 18.55 0.66072 33 23 2 0 0 0 0.5141 1 8038 8038 12.175 0.68004 1 957760 + 28106 16778 18137 18195 31702 31702 0.06001491836786954 RQNVPLPREL 10 Unmodified _RQNVPLPREL_ 0 0 0 REV__nc|ENSG00000100804|P28074-2|PSMB5 REV__nc|ENSG00000100804|P28074-2|PSMB5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.861328125 2 611.356754 1220.69895 3.7109 0.0022687 -0.98101 -0.00059975 2.7298 0.0016689 611.3559359689682 87.416 0.7215 88.092 87.808 88.529 0.67555 74 34 3 0 0 0 0.90196 1 40167 40167 3.5965 0 1 1111100 + 28107 10850 18138 18196 31703 31703 0.09743285928607293 RQPHRKKRRRM 11 Unmodified _RQPHRKKRRRM_ 0 0 0 REV__ENST00000338745.10_3_3:18466531-18466693:-|nuORF REV__ENST00000338745.10_3_3:18466531-18466693:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 774.9630126953125 2 774.965668 1547.91678 NaN NaN NaN NaN NaN NaN NaN 52.25 1 53.061 52.561 53.561 0.81065 0 0 0 1.008 1 23804 23804 0.30703 0.03801 1 + 28108 15438 18139 18197 31704 31704 0.16474197370052934 RQPKVQLA 8 Unmodified _RQPKVQLA_ 0 0 0 REV__nc|ENSG00000140598|Q7Z2Z2-2|EFL1 REV__nc|ENSG00000140598|Q7Z2Z2-2|EFL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.29217529296875 2 470.290351 938.566149 2.8564 0.0013434 0.41812 0.00019664 3.2746 0.00154 470.2906070187414 15.345 0.74762 15.345 15.009 15.757 0 127 90 2 0 0 0 0.74071 1 6881 6881 2.5775 0 1 87313 + 28109 12260 18140 18198 31705 31705 0.09440886262609638 RQPLAPGL 8 Unmodified _RQPLAPGL_ 0 0 0 ENST00000494201.1_1_2:69598548-69614317:-|nuORF ENST00000494201.1_1_2:69598548-69614317:-|nuORF ENST00000494201.1_1_2:69598548-69614317:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 426.2603454589844 2 426.25852 850.502486 2.6965 0.0011494 0.12548 5.3486E-05 2.822 0.0012029 426.258643025563 15.736 0.76536 16.042 15.485 16.25 0.306 124 83 2 0 0 0 0.7471 1 6935 6935 0.69038 0 1 58997 28110 8420 18141 18199 31706 31706 0.07125525825529166 RQPQRWWRRPR 11 Unmodified _RQPQRWWRRPR_ 0 0 0 REV__ENST00000372022.5_1_9:136199397-136199478:-|nuORF REV__ENST00000372022.5_1_9:136199397-136199478:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.3467407226562 2 811.455991 1620.89743 NaN NaN NaN NaN NaN NaN NaN 93.657 1 93.743 93.243 94.243 0.086212 0 0 0 1.008 1 49118 49118 0.30703 0.30703 1 + 28111 15744 18142 18200 31707 31707 0.1118156435079527 RQQRLQRRRRR 11 Unmodified _RQQRLQRRRRR_ 0 0 0 ENST00000394166.7_1_15:96874192-96874351:+|nuORF ENST00000394166.7_1_15:96874192-96874351:+|nuORF ENST00000394166.7_1_15:96874192-96874351:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 804.9943237304688 2 804.996346 1607.97814 NaN NaN NaN NaN NaN NaN NaN 69.954 1 70.614 70.114 71.114 0.66071 0 0 0 1.0082 1 32074 32074 0 0 1 28112 7539 18143 18201 31708 31708 0.19846845393703916 RQQWTRWAWRQ 11 Unmodified _RQQWTRWAWRQ_ 0 0 0 REV__ENST00000491400.5_1_6:35254110-35255623:+|nuORF REV__ENST00000491400.5_1_6:35254110-35255623:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 801.41357421875 2 801.413457 1600.81236 NaN NaN NaN NaN NaN NaN NaN 74.115 1 74.78 74.28 75.28 0.6644 0 0 0 1.0082 1 34109 34109 0 0 1 + 28113 14850 18144 18202 31709 31709 0.03598774094371038 RQRFDRKLKRW 11 Unmodified _RQRFDRKLKRW_ 0 0 0 nc|ENSG00000244754|Q92802-2|N4BP2L2 nc|ENSG00000244754|Q92802-2|N4BP2L2 nc|ENSG00000244754|Q92802-2|N4BP2L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.3162231445312 3 530.314692 1587.92225 3.2777 0.0017382 0.090344 4.7911E-05 3.3681 0.0017861 530.3148214999758 6.2881 0.17121 6.2881 6.2091 6.3803 0 27 17 2 0 0 0 0.91489 1 2853 2853 0 0 1 31114 28114 9848 18145 18203 31710 31710 0.15180199433530106 RQRFDRKLKRW 11 Unmodified _RQRFDRKLKRW_ 0 0 0 nc|ENSG00000244754|Q92802-2|N4BP2L2 nc|ENSG00000244754|Q92802-2|N4BP2L2 nc|ENSG00000244754|Q92802-2|N4BP2L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.316162109375 3 530.314692 1587.92225 2.369 0.0012563 0.75364 0.00039967 3.1227 0.001656 530.6492267998299 5.8252 0.2455 6.1304 6.0433 6.2888 0.30519 41 27 2 0 0 0 0.91489 2 2636 2636;2686 0 0 1 65603 28115 9848 18145 18203 31711;31712 31711 0.15180199433530106 RQRFDRKLKRW 11 Unmodified _RQRFDRKLKRW_ 0 0 0 nc|ENSG00000244754|Q92802-2|N4BP2L2 nc|ENSG00000244754|Q92802-2|N4BP2L2 nc|ENSG00000244754|Q92802-2|N4BP2L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.31591796875 3 530.314692 1587.92225 3.6493 0.0019353 0.12171 6.4543E-05 3.771 0.0019998 530.648963913874 4.3593 0.36483 4.9818 4.6799 5.0447 0.62252 42 30 2 0 0 0 0.91489 2 1940 1940;1995 0 0 1 85564 28116 9848 18145 18203 31713;31714 31713 0.15180199433530106 RQRKRERKKKR 11 Unmodified _RQRKRERKKKR_ 0 0 0 ENST00000543442.1_1_12:67660488-67660587:-|nuORF ENST00000543442.1_1_12:67660488-67660587:-|nuORF ENST00000543442.1_1_12:67660488-67660587:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 785.004150390625 2 785.005848 1567.99714 NaN NaN NaN NaN NaN NaN NaN 63.969 1 63.969 63.469 64.469 0 0 0 0 1.0082 1 30193 30193 0 0 1 28117 8826 18146 18204 31715 31715 0.23586381964742031 RQRLFEKRYRY 11 Unmodified _RQRLFEKRYRY_ 0 0 0 REV__nc|ENSG00000169994|Q6PIF6-2|MYO7B REV__nc|ENSG00000169994|Q6PIF6-2|MYO7B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 807.9525146484375 2 807.952415 1613.89028 NaN NaN NaN NaN NaN NaN NaN 81.804 1 81.889 81.389 82.389 0.084106 0 0 0 1.0082 1 40278 40278 0 0 1 + 28118 13416 18147 18205 31716 31716 0.1078878695975618 RQRQRQRQRAA 11 Unmodified _RQRQRQRQRAA_ 0 0 0 ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 364.2134704589844 4 364.213441 1452.82466 2.779 0.0010122 -0.97059 -0.0003535 1.8084 0.00065866 364.21296127977655 57.202 0.38152 57.202 57.104 57.486 0 69 40 2 0 0 0 0.88721 2 26423 26369;26423 1.2148 0.80657 1 1557100 28119 3711 18148 18206 31717;31718 31718 0.11635810557413606 RQRQRQRQRAA 11 Unmodified _RQRQRQRQRAA_ 0 0 0 ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 364.2140197753906 4 364.213441 1452.82466 2.6254 0.00095619 -0.062461 -2.2749E-05 2.5629 0.00093344 364.2131969049548 58.472 0.50943 58.472 58.352 58.861 0 109 44 3 0 0 0 0.88721 3 26996 26996;27049;27109 1.2148 1.1315 1 2149000 28120 3711 18148 18206 31719;31720;31721 31719 0.11635810557413606 RQRQRQRQRAA 11 Unmodified _RQRQRQRQRAA_ 0 0 0 ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 364.4658203125 4 364.213441 1452.82466 2.4605 0.00089615 -0.65169 -0.00023736 1.8088 0.00065879 364.2128568128985 60.287 0.14378 60.287 60.16 60.304 0 18 14 2 0 0 0 0.13295 1 27968 27968 1.2148 0.70888 1 1313600 28121 3711 18148 18206 31722 31722 0.11635810557413606 RQRQRQRQRAA 11 Unmodified _RQRQRQRQRAA_ 0 0 0 ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 364.2145080566406 4 364.213441 1452.82466 2.126 0.00077432 -0.65256 -0.00023767 1.4735 0.00053665 364.2130482320957 56.294 0.51197 57.072 56.686 57.198 0.77786 82 46 2 0 0 0 0.91068 1 25660 25660 0.45452 0.046251 1 1118600 28122 3711 18148 18206 31723 31723 0.11635810557413606 RQRQRQRQRAA 11 Unmodified _RQRQRQRQRAA_ 0 0 0 ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 364.2138977050781 4 364.213441 1452.82466 2.1198 0.00077207 -0.51393 -0.00018718 1.6059 0.00058489 364.21313959774994 57.478 0.3182 58.246 58.216 58.534 0.76861 55 27 3 0 0 0 0.88721 2 26330 26330;26381 1.2148 1.2148 1 2813600 28123 3711 18148 18206 31724;31725 31724 0.11635810557413606 RQRQRQRQRAA 11 Unmodified _RQRQRQRQRAA_ 0 0 0 ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 364.21441650390625 4 364.213441 1452.82466 2.0661 0.00075249 -0.09693 -3.5303E-05 1.9691 0.00071719 364.21336200116815 59.195 0.75959 59.954 59.717 60.477 0.75894 100 57 2 0 0 0 0.88721 2 27295 27212;27295 1.2148 0.80657 1 1328200 28124 3711 18148 18206 31726;31727 31727 0.11635810557413606 RQRQRQRQRAA 11 Unmodified _RQRQRQRQRAA_ 0 0 0 ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 364.2145080566406 4 364.213441 1452.82466 2.5817 0.0009403 -0.10397 -3.7867E-05 2.4778 0.00090244 364.21306964389584 57.003 0.63955 57.268 56.881 57.52 0.26444 79 33 4 0 0 0 0.88721 1 26127 26127 1.2148 0.10508 1 2455500 28125 3711 18148 18206 31728 31728 0.11635810557413606 RQRQRQRQRAA 11 Unmodified _RQRQRQRQRAA_ 0 0 0 ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 364.21435546875 4 364.213441 1452.82466 2.5905 0.00094349 -0.23277 -8.4777E-05 2.3577 0.00085871 364.2131866428455 57.99 0.71082 58.252 57.735 58.446 0.26227 113 41 4 0 0 0 0.91068 1 26493 26493 0.45452 0.37117 1 1833100 28126 3711 18148 18206 31729 31729 0.11635810557413606 RQRQRQRQRAA 11 Unmodified _RQRQRQRQRAA_ 0 0 0 ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.2137145996094 4 364.213441 1452.82466 2.6074 0.00094965 -0.50181 -0.00018276 2.1056 0.00076688 364.2130679021406 55.905 0.87594 56.573 56.106 56.982 0.66798 88 41 4 0 0 0 0.91068 1 25540 25540 0.45452 0 1 1619200 28127 3711 18148 18206 31730 31730 0.11635810557413606 RQRQRQRQRAA 11 Unmodified _RQRQRQRQRAA_ 0 0 0 ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.4650573730469 4 364.213441 1452.82466 2.6283 0.00095727 -0.44587 -0.00016239 2.1825 0.00079488 364.21310479770057 57.339 0.67354 58.008 57.957 58.63 0.66829 104 45 4 0 0 0 0.88721 1 26254 26254 1.2148 0.80657 1 4671700 28128 3711 18148 18206 31731 31731 0.11635810557413606 RQRQRQRQRAA 11 Unmodified _RQRQRQRQRAA_ 0 0 0 ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.2142333984375 4 364.213441 1452.82466 2.5827 0.00094065 -0.090708 -3.3037E-05 2.492 0.00090761 364.2131981479555 59.672 0.73689 60.337 59.892 60.628 0.66503 78 34 3 0 0 0 0.88721 1 27274 27274 1.2148 0.80657 1 1437100 28129 3711 18148 18206 31732 31732 0.11635810557413606 RQRQRQRQRAA 11 Unmodified _RQRQRQRQRAA_ 0 0 0 ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 364.213441 1452.82466 2.7896 0.001016 -0.53138 -0.00019354 2.2582 0.00082247 364.4640411746979 56.947 0.33741 56.947 56.767 57.104 0 0.11894 -4.7187E-05 NaN 0.45452 65 35 3 NaN NaN NaN NaN 0 NaN NaN 0 1540900 28130 3711 18148 18206 0.11635810557413606 RQRQRQRQRAA 11 Unmodified _RQRQRQRQRAA_ 0 0 0 ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 364.213441 1452.82466 2.1464 0.00078174 -1.0445 -0.00038043 1.1019 0.00040132 364.2129448102068 56.568 0.28905 57.346 57.174 57.463 0.77786 0.13403 -0.00050521 NaN 1.2148 44 28 2 NaN NaN NaN NaN 0 NaN NaN 0 1007000 28131 3711 18148 18206 0.11635810557413606 RQRQRQRQRAA 11 Unmodified _RQRQRQRQRAA_ 0 0 0 ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 364.213441 1452.82466 2.5756 0.00093807 -0.20291 -7.3904E-05 2.3727 0.00086416 364.2129304147114 56.456 0.49683 56.722 56.431 56.928 0.26543 -0.107 0.00043134 NaN 0.45452 63 29 3 NaN NaN NaN NaN 0 NaN NaN 0 1835200 28132 3711 18148 18206 0.11635810557413606 RQRQRQRQRAA 11 Unmodified _RQRQRQRQRAA_ 0 0 0 ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 364.213441 1452.82466 2.6663 0.00097112 -0.10703 -3.8982E-05 2.5593 0.00093214 364.2130338189065 60.138 0.68647 60.394 60.009 60.696 0.25578 0.15082 4.8853E-05 NaN 1.2148 86 34 3 NaN NaN NaN NaN 0 NaN NaN 0 1279000 28133 3711 18148 18206 0.11635810557413606 RQRQRQRQRAA 11 Unmodified _RQRQRQRQRAA_ 0 0 0 ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 364.213441 1452.82466 2.6074 0.00094965 -0.50181 -0.00018276 2.1056 0.00076688 364.2130679021406 55.905 0.87594 56.573 56.106 56.982 0.66798 -0.25557 -4.1043E-06 NaN 0.45452 88 41 4 NaN NaN NaN NaN 0 NaN NaN 0 1619200 28134 3711 18148 18206 0.11635810557413606 RQRQRRRWLVR 11 Unmodified _RQRQRRRWLVR_ 0 0 0 REV__ENST00000263754.4_1_3:20081618-20081714:+|nuORF REV__ENST00000263754.4_1_3:20081618-20081714:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 805.5346069335938 2 805.490365 1608.96618 NaN NaN NaN NaN NaN NaN NaN 55.754 1 55.754 55.254 56.254 0 0 0 0 1.0082 1 25644 25644 0 0 1 + 28135 15004 18149 18207 31733 31733 0.18605228650540084 RQRRCRHHRRH 11 Unmodified _RQRRCRHHRRH_ 0 0 0 REV__ENSG00000185966|ENST00000368789|LCE3E REV__ENSG00000185966|ENST00000368789|LCE3E MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 799.4378662109375 2 799.438141 1596.86173 NaN NaN NaN NaN NaN NaN NaN 86.649 1 86.649 86.149 87.149 0 0 0 0 1.0082 1 44475 44475 0 0 1 + 28136 12983 18150 18208 31734 31734 0.08717203622154557 RQRRFKRR 8 Unmodified _RQRRFKRR_ 0 0 0 REV__ENSG00000171388|ENST00000429967|APLN REV__ENSG00000171388|ENST00000429967|APLN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.8753662109375 2 601.876314 1201.73807 NaN NaN NaN NaN NaN NaN NaN 4.8425 1 5.2075 4.7075 5.7075 0.36497 0 0 0 0.99035 1 2197 2197 0.69038 0 1 + 28137 13491 18151 18209 31735 31735 0.1452747579348852 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8202514648438 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 2.6762 1 3.2983 2.7983 3.7983 0.6221 0 0 0 0.91452 1 1217 1217 0 0 1 28138 8713 18152 18210 31736 31736 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.82080078125 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 3.197 1 3.8191 3.3191 4.3191 0.6221 0 0 0 0.91452 1 1453 1453 0 0 1 28139 8713 18152 18210 31737 31737 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.81982421875 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 3.4623 1 4.0844 3.5844 4.5844 0.6221 0 0 0 0.91452 1 1574 1574 0 0 1 28140 8713 18152 18210 31738 31738 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8202514648438 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 3.7398 1 4.3623 3.8623 4.8623 0.62252 0 0 0 0.91452 1 1699 1699 0 0 1 28141 8713 18152 18210 31739 31739 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8200073242188 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 3.9019 1 4.5244 4.0244 5.0244 0.62252 0 0 0 0.91452 1 1772 1772 0 0 1 28142 8713 18152 18210 31740 31740 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8201904296875 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 4.0178 1 4.6403 4.1403 5.1403 0.62252 0 0 0 0.91452 1 1824 1824 0 0 1 28143 8713 18152 18210 31741 31741 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8197021484375 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 4.3328 1 4.9553 4.4553 5.4553 0.62252 0 0 0 0.91452 1 1966 1966 0 0 1 28144 8713 18152 18210 31742 31742 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8194580078125 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 4.5025 1 5.125 4.625 5.625 0.62252 0 0 0 0.91452 1 2043 2043 0 0 1 28145 8713 18152 18210 31743 31743 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8208618164062 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 4.8839 1 5.5069 5.0069 6.0069 0.62294 0 0 0 0.91452 1 2216 2216 0 0 1 28146 8713 18152 18210 31744 31744 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8197021484375 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 6.3101 1 6.9336 6.4336 7.4336 0.62357 0 0 0 0.91452 1 2859 2859 0 0 1 28147 8713 18152 18210 31745 31745 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8201904296875 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 6.7085 1 7.3321 6.8321 7.8321 0.62357 0 0 0 0.91452 1 3039 3039 0 0 1 28148 8713 18152 18210 31746 31746 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8187866210938 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 7.1964 1 7.8212 7.3212 8.3212 0.62473 0 0 0 0.91452 1 3257 3257 0 0 1 28149 8713 18152 18210 31747 31747 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.820556640625 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 7.3531 1 7.9778 7.4778 8.4778 0.62473 0 0 0 0.91452 1 3327 3327 0 0 1 28150 8713 18152 18210 31748 31748 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8200073242188 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 7.6 1 8.2248 7.7248 8.7248 0.62473 0 0 0 0.91452 1 3433 3433 0 0 1 28151 8713 18152 18210 31749 31749 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8207397460938 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 8.1257 1 8.7524 8.2524 9.2524 0.62663 0 0 0 0.91452 1 3665 3665 0 0 1 28152 8713 18152 18210 31750 31750 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8197631835938 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 8.2972 1 8.9239 8.4239 9.4239 0.62663 0 0 0 0.91452 1 3741 3741 0 0 1 28153 8713 18152 18210 31751 31751 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.81982421875 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 8.5816 1 9.2083 8.7083 9.7083 0.62663 0 0 0 0.91452 1 3868 3868 0 0 1 28154 8713 18152 18210 31752 31752 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8200073242188 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 9.0031 1 9.6297 9.1297 10.13 0.62663 0 0 0 0.91452 1 4056 4056 0 0 1 28155 8713 18152 18210 31753 31753 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8192138671875 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 9.5471 1 10.176 9.6764 10.676 0.62936 0 0 0 0.91452 1 4299 4299 0 0 1 28156 8713 18152 18210 31754 31754 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8203125 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 10.317 1 10.95 10.45 11.45 0.63304 0 0 0 0.91452 1 4647 4647 0 0 1 28157 8713 18152 18210 31755 31755 0.10885898134051786 RQRRLLGGA 9 Unmodified _RQRRLLGGA_ 0 0 0 ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF ENST00000530404.5_3_11:843688-847263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8197631835938 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 10.578 1 11.211 10.711 11.711 0.63304 0 0 0 0.91452 1 4765 4765 0 0 1 28158 8713 18152 18210 31756 31756 0.10885898134051786 RQRRRQRWRP 10 Unmodified _RQRRRQRWRP_ 0 0 0 REV__ENST00000374355.7_1_X:69672199-69672442:+|nuORF REV__ENST00000374355.7_1_X:69672199-69672442:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 747.9371948242188 2 747.940508 1493.86646 NaN NaN NaN NaN NaN NaN NaN 88.962 1 88.962 88.462 89.462 0 0 0 0 1.0001 1 46322 46322 1.6526 0.17072 1 + 28159 15783 18153 18211 31757 31757 0.1392841103659066 RQRVKMEKSKW 11 Unmodified _RQRVKMEKSKW_ 0 0 0 REV__ENSG00000198900|ENST00000361337|TOP1 REV__ENSG00000198900|ENST00000361337|TOP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.7246398925781 3 492.613639 1474.81909 NaN NaN NaN NaN NaN NaN NaN 73.537 1 73.795 73.295 74.295 0.25876 0 0 0 1.0059 1 33779 33779 1.2148 0.76031 1 + 28160 14378 18154 18212 31758 31758 0.10066950930718122 RQSCCCCCCC 10 Unmodified _RQSCCCCCCC_ 0 0 0 nc|ENSG00000231721|A0A455ZAR2|LINC-PINT;ENST00000451786.5_1_7:130792823-130793084:-|nuORF nc|ENSG00000231721|A0A455ZAR2|LINC-PINT nc|ENSG00000231721|A0A455ZAR2|LINC-PINT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.14013671875 2 556.140563 1110.26657 NaN NaN NaN NaN NaN NaN NaN 55.778 1 56.043 55.543 56.543 0.26543 0 0 0 1.002 1 25511 25511 0 0 1 28161 8019 18155 18213 31759 31759 -0.28414964327089365 RQSFGIYNL 9 Unmodified _RQSFGIYNL_ 0 0 0 REV__nc|ENSG00000166928|Q96JA4-2|MS4A14 REV__nc|ENSG00000166928|Q96JA4-2|MS4A14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.5305480957031 3 366.529458 1096.56654 2.8113 0.0010304 -0.62873 -0.00023045 2.1826 0.00079997 366.52922196924874 40.497 0.19876 41.138 41.057 41.256 0.64135 29 19 2 0 0 0 0.59921 1 18493 18493 10.8 2.644 1 1470200 + 28162 13270 18156 18214 31760 31760 0.022122611918121038 RQTARLAF 8 Unmodified _RQTARLAF_ 0 0 0 ENSG00000182327|ENST00000331264|GLTPD2 ENSG00000182327|ENST00000331264|GLTPD2 ENSG00000182327|ENST00000331264|GLTPD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 321.52349853515625 3 321.522526 961.545748 2.1992 0.00070709 0.34299 0.00011028 2.5422 0.00081737 321.5227052512535 18.279 0.28736 18.279 18.114 18.401 0 25 16 2 0 0 0 0.60101 1 8134 8134 13.906 0 1 587630 28163 5329 18157 18215 31761 31761 0.06343715602793054 RQTARLAF 8 Unmodified _RQTARLAF_ 0 0 0 ENSG00000182327|ENST00000331264|GLTPD2 ENSG00000182327|ENST00000331264|GLTPD2 ENSG00000182327|ENST00000331264|GLTPD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 321.5234375 3 321.522526 961.545748 2.1239 0.00068287 0.57202 0.00018392 2.6959 0.00086679 321.5227132838771 16.76 0.88209 17.065 16.541 17.423 0.30438 224 85 3 0 0 0 0.68959 1 7492 7492 6.7232 0 1 645040 28164 5329 18157 18215 31762 31762 0.06343715602793054 RQTIPRIR 8 Unmodified _RQTIPRIR_ 0 0 0 nc|ENSG00000189057|Q6SJ93-2|FAM111B;ENSG00000189057|ENST00000343597|FAM111B nc|ENSG00000189057|Q6SJ93-2|FAM111B nc|ENSG00000189057|Q6SJ93-2|FAM111B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.326171875 2 520.327799 1038.64105 NaN NaN NaN NaN NaN NaN NaN 102.16 1 102.22 101.72 102.72 0.057198 0 0 0 0.99035 1 55471 55471 2.3027 0 1 28165 5701 18158 18216 31763 31763 0.12327068793820217 RQTKAIHPLSA 11 Unmodified _RQTKAIHPLSA_ 0 0 0 REV__nc|ENSG00000196123|Q68EN5-2|MATCAP1 REV__nc|ENSG00000196123|Q68EN5-2|MATCAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.3578491210938 2 611.356754 1220.69895 3.7786 0.0023101 -0.82284 -0.00050305 2.9558 0.001807 611.3562635632172 87.727 1.3442 87.978 87.314 88.658 0.25064 109 59 3 0 0 0 0.83518 3 40360 40360;40418;40524 5.2969 0 1 1826700 + 28166 14189 18159 18217 31764;31765;31766 31764 0.09743285928607293 RQTKAIHPLSA 11 Unmodified _RQTKAIHPLSA_ 0 0 0 REV__nc|ENSG00000196123|Q68EN5-2|MATCAP1 REV__nc|ENSG00000196123|Q68EN5-2|MATCAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.3587646484375 2 611.356754 1220.69895 3.9302 0.0024028 -0.74464 -0.00045524 3.1856 0.0019475 611.3560789814101 90.033 2.3692 90.285 89.498 91.868 0.25136 339 114 4 0 0 0 0.83518 3 41089 41089;41395;41520 5.2969 0 1 4331900 + 28167 14189 18159 18217 31767;31768;31769 31767 0.09743285928607293 RQTKAIHPLSA 11 Unmodified _RQTKAIHPLSA_ 0 0 0 REV__nc|ENSG00000196123|Q68EN5-2|MATCAP1 REV__nc|ENSG00000196123|Q68EN5-2|MATCAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.358154296875 2 611.356754 1220.69895 3.7109 0.0022687 -0.98101 -0.00059975 2.7298 0.0016689 611.3559359689682 87.416 0.7215 88.092 87.808 88.529 0.67555 74 34 3 0 0 0 0.83518 1 40352 40352 5.2969 0 1 1111100 + 28168 14189 18159 18217 31770 31770 0.09743285928607293 RQTVPWLL 8 Unmodified _RQTVPWLL_ 0 0 0 ENST00000510805.1_1_4:144480662-144481064:+|nuORF ENST00000510805.1_1_4:144480662-144481064:+|nuORF ENST00000510805.1_1_4:144480662-144481064:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 338.2046203613281 3 338.202793 1011.58655 2.4068 0.00081398 1.8012 0.00060917 4.208 0.0014232 338.2034767221404 37.728 0.27512 37.728 37.585 37.86 0 25 10 3 0 0 0 0.73203 1 17125 17125 3.2813 0.54611 1 1314400 28169 8559 18160 18218 31771 31771 0.08122056922411502 RQTVPWLL 8 Unmodified _RQTVPWLL_ 0 0 0 ENST00000510805.1_1_4:144480662-144481064:+|nuORF ENST00000510805.1_1_4:144480662-144481064:+|nuORF ENST00000510805.1_1_4:144480662-144481064:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 338.202793 1011.58655 2.3237 0.00078589 1.2797 0.0004328 3.6034 0.0012187 338.2032461835679 37.106 0.31046 37.9 37.691 38.001 0.79342 0.087082 -0.00061653 NaN 3.2813 32 14 3 NaN NaN NaN NaN 0 NaN NaN 0 546720 28170 8559 18160 18218 0.08122056922411502 RQTVPWLL 8 Unmodified _RQTVPWLL_ 0 0 0 ENST00000510805.1_1_4:144480662-144481064:+|nuORF ENST00000510805.1_1_4:144480662-144481064:+|nuORF ENST00000510805.1_1_4:144480662-144481064:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 338.202793 1011.58655 2.5846 0.00087411 1.7925 0.00060622 4.3771 0.0014803 338.2034305807726 37.468 0.32229 37.729 37.6 37.923 0.26083 -0.083952 -9.6247E-05 NaN 3.2813 15 9 2 NaN NaN NaN NaN 0 NaN NaN 0 1166900 28171 8559 18160 18218 0.08122056922411502 RQTVPWLL 8 Unmodified _RQTVPWLL_ 0 0 0 ENST00000510805.1_1_4:144480662-144481064:+|nuORF ENST00000510805.1_1_4:144480662-144481064:+|nuORF ENST00000510805.1_1_4:144480662-144481064:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 338.202793 1011.58655 2.308 0.00078058 2.2936 0.0007757 4.6016 0.0015563 338.20362152550075 37.264 0.3727 37.894 37.681 38.054 0.62999 0.081381 0.00041218 NaN 3.2813 40 15 3 NaN NaN NaN NaN 0 NaN NaN 0 846760 28172 8559 18160 18218 0.08122056922411502 RQTWRRRWIWA 11 Unmodified _RQTWRRRWIWA_ 0 0 0 ENST00000300086.4_1_16:75681724-75681847:+|nuORF ENST00000300086.4_1_16:75681724-75681847:+|nuORF ENST00000300086.4_1_16:75681724-75681847:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.967529296875 3 538.967404 1613.88038 NaN NaN NaN NaN NaN NaN NaN 96.367 1 96.444 95.944 96.944 0.076538 0 0 0 1.0082 1 51189 51189 0.094841 0 1 28173 6792 18161 18219 31772 31772 0.09799643745009234 RQTWRWHQYRD 11 Unmodified _RQTWRWHQYRD_ 0 0 0 ENSG00000186143|ENST00000335524|PRR30 ENSG00000186143|ENST00000335524|PRR30 ENSG00000186143|ENST00000335524|PRR30 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 816.4000244140625 2 816.400547 1630.78654 NaN NaN NaN NaN NaN NaN NaN 88.043 1 88.043 87.543 88.543 0 0 0 0 1.0082 1 45580 45580 0 0 1 28174 5557 18162 18220 31773 31773 -0.0036212014795182768 RQVLFPLLLP 10 Unmodified _RQVLFPLLLP_ 0 0 0 nc|ENSG00000253305|Q9Y5F9-2|PCDHGB6;ENSG00000253305|ENST00000520790|PCDHGB6;nc|ENSG00000254122|Q9Y5F8-2|PCDHGB7;ENSG00000254122|ENST00000398594|PCDHGB7 nc|ENSG00000253305|Q9Y5F9-2|PCDHGB6 nc|ENSG00000253305|Q9Y5F9-2|PCDHGB6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.59320068359375 3 399.256898 1194.74886 2.6384 0.0010534 1.6355 0.000653 4.2739 0.0017064 399.2576108171102 36.965 0.26118 36.965 36.818 37.08 0 17 10 2 0 0 0 0.9406 1 16766 16766 0.77653 0 1 583590 28175 6271 18163 18221 31774 31774 0.15928020604565063 RQVLPNQQL 9 Unmodified _RQVLPNQQL_ 0 0 0 REV__ENSG00000221823|ENST00000234310|PPP3R1 REV__ENSG00000221823|ENST00000234310|PPP3R1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.88104248046875 3 365.88049 1094.61964 2.4198 0.00088535 -1.0916 -0.00039938 1.3282 0.00048597 365.8800475346114 14.999 0.46822 15.305 15.085 15.553 0.3069 69 47 2 0 0 0 0.92418 1 6763 6763 5.2969 0 1 209310 + 28176 14537 18164 18222 31775 31775 0.07611638974458401 RQVNLQQFI 9 Unmodified _RQVNLQQFI_ 0 0 0 nc|ENSG00000123094|Q8NHQ8-2|RASSF8;ENSG00000123094|ENST00000689635|RASSF8 nc|ENSG00000123094|Q8NHQ8-2|RASSF8 nc|ENSG00000123094|Q8NHQ8-2|RASSF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 382.5532531738281 3 382.552374 1144.63529 2.8322 0.0010835 0.17381 6.6491E-05 3.0061 0.00115 382.5524283330677 20.772 0.32606 20.772 20.59 20.916 0 77 28 3 0 0 0 0.54955 1 9307 9307 11.495 0 1 745490 28177 2291 18165 18223 31776 31776 0.06875925491522139 RQWQKGIWQW 10 Unmodified _RQWQKGIWQW_ 0 0 0 ENST00000416702.1_1_10:21318746-21318953:+|nuORF ENST00000416702.1_1_10:21318746-21318953:+|nuORF ENST00000416702.1_1_10:21318746-21318953:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 708.3682861328125 2 708.370195 1414.72584 NaN NaN NaN NaN NaN NaN NaN 85.116 1 85.781 85.281 86.281 0.66566 0 0 0 1.0003 1 39198 39198 1.4819 0.15237 1 28178 7717 18166 18224 31777 31777 0.0350639453979511 RRAAIAQA 8 Unmodified _RRAAIAQA_ 0 0 0 ENSG00000122692|ENST00000397149|SMU1;ENST00000379752.5_1_1:157029999-157030212:-|nuORF ENSG00000122692|ENST00000397149|SMU1 ENSG00000122692|ENST00000397149|SMU1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 428.7606201171875 2 428.759218 855.503883 3.5881 0.0015385 -0.2808 -0.0001204 3.3073 0.0014181 428.7590447463973 94.663 0.40395 94.923 94.709 95.113 0.25975 58 23 3 0 0 0 0.7471 2 43455 43455;43508 0.69038 0 1 1246300 28179 2278 18167 18225 31778;31779 31778 0.07035159914255473 RRAAIAQA 8 Unmodified _RRAAIAQA_ 0 0 0 ENSG00000122692|ENST00000397149|SMU1;ENST00000379752.5_1_1:157029999-157030212:-|nuORF ENSG00000122692|ENST00000397149|SMU1 ENSG00000122692|ENST00000397149|SMU1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 428.7603759765625 2 428.759218 855.503883 3.2348 0.0013869 -0.029769 -1.2764E-05 3.205 0.0013742 428.7591149306419 94.188 0.47649 94.819 94.581 95.057 0.63115 63 27 3 0 0 0 0.7471 1 43294 43294 0.69038 0 1 1516400 28180 2278 18167 18225 31780 31780 0.07035159914255473 RRAAIKKKKH 10 Unmodified _RRAAIKKKKH_ 0 0 0 REV__ENSG00000175048|ENST00000359775|ZDHHC14 REV__ENSG00000175048|ENST00000359775|ZDHHC14 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 309.5370178222656 4 309.709737 1234.80984 1.9971 0.00061852 -4.1246 -0.0012774 -2.1275 -0.00065892 309.70756867266334 38.401 0.13857 38.401 38.332 38.47 0 8 5 2 0 0 0 0.12676 1 17427 17427 0.62683 0.12087 1 281000 + 28181 13655 18168 18226 31781 31781 0.20182970427345026 RRAAIKKKKH 10 Unmodified _RRAAIKKKKH_ 0 0 0 REV__ENSG00000175048|ENST00000359775|ZDHHC14 REV__ENSG00000175048|ENST00000359775|ZDHHC14 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 309.709737 1234.80984 2.0886 0.00064685 -8.1145 -0.0025131 -6.0259 -0.0018663 309.7075790078144 37.377 0.1382 38.007 37.889 38.027 0.62999 -0.19681 -0.0017364 NaN 0.62683 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 162010 + 28182 13655 18168 18226 0.20182970427345026 RRAARRLHRLF 11 Unmodified _RRAARRLHRLF_ 0 0 0 nc|ENSG00000154358|Q5VST9|OBSCN;nc|ENSG00000154358|Q5VST9-2|OBSCN;nc|ENSG00000154358|Q5VST9-6|OBSCN;ENSG00000154358|ENST00000680850|OBSCN;nc|ENSG00000154358|Q5VST9-3|OBSCN nc|ENSG00000154358|Q5VST9|OBSCN nc|ENSG00000154358|Q5VST9|OBSCN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.7860107421875 3 484.635877 1450.8858 NaN NaN NaN NaN NaN NaN NaN 66.383 1 67.087 66.587 67.587 0.7047 0 0 0 1.0073 1 31467 31467 0.40827 0 1 28183 3821 18169 18227 31782 31782 0.17839367327474065 RRAARRRRKRL 11 Unmodified _RRAARRRRKRL_ 0 0 0 ENST00000496645.5_1_1:159897137-159899822:-|nuORF;nc|ENSG00000085552|Q9P2J2-2|IGSF9;ENSG00000085552|ENST00000368094|IGSF9;ENST00000493195.5_1_1:159899139-159902434:-|nuORF ENST00000496645.5_1_1:159897137-159899822:-|nuORF ENST00000496645.5_1_1:159897137-159899822:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 747.992919921875 2 747.993075 1493.9716 NaN NaN NaN NaN NaN NaN NaN 14.306 1 14.532 14.032 15.032 0.22622 0 0 0 1.0082 1 6284 6284 0 0 1 28184 970 18170 18228 31783 31783 0.24436952232986187 RRAARRRRKRL 11 Unmodified _RRAARRRRKRL_ 0 0 0 ENST00000496645.5_1_1:159897137-159899822:-|nuORF;nc|ENSG00000085552|Q9P2J2-2|IGSF9;ENSG00000085552|ENST00000368094|IGSF9;ENST00000493195.5_1_1:159899139-159902434:-|nuORF ENST00000496645.5_1_1:159897137-159899822:-|nuORF ENST00000496645.5_1_1:159897137-159899822:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 747.9920043945312 2 747.993075 1493.9716 NaN NaN NaN NaN NaN NaN NaN 77.526 1 77.779 77.279 78.279 0.25335 0 0 0 1.0082 1 35703 35703 0 0 1 28185 970 18170 18228 31784 31784 0.24436952232986187 RRAARRRRKRL 11 Unmodified _RRAARRRRKRL_ 0 0 0 ENST00000496645.5_1_1:159897137-159899822:-|nuORF;nc|ENSG00000085552|Q9P2J2-2|IGSF9;ENSG00000085552|ENST00000368094|IGSF9;ENST00000493195.5_1_1:159899139-159902434:-|nuORF ENST00000496645.5_1_1:159897137-159899822:-|nuORF ENST00000496645.5_1_1:159897137-159899822:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 747.9926147460938 2 747.993075 1493.9716 NaN NaN NaN NaN NaN NaN NaN 66.906 1 67.562 67.062 68.062 0.65672 0 0 0 1.0082 1 30671 30671 0 0 1 28186 970 18170 18228 31785 31785 0.24436952232986187 RRAIRKRRKLR 11 Unmodified _RRAIRKRRKLR_ 0 0 0 REV__nc|ENSG00000171320|Q56NI9-2|ESCO2 REV__nc|ENSG00000171320|Q56NI9-2|ESCO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 755.01171875 2 755.013476 1508.0124 NaN NaN NaN NaN NaN NaN NaN 45.851 1 45.851 45.351 46.351 0 0 0 0 1.0082 1 20975 20975 0 0 1 + 28187 13489 18171 18229 31786 31786 0.2787129355263005 RRALARLVLRL 11 Unmodified _RRALARLVLRL_ 0 0 0 nc|ENSG00000197858|O43292-2|GPAA1;ENSG00000197858|ENST00000355091|GPAA1;ENST00000532758.5_1_8:145137633-145138586:+|nuORF nc|ENSG00000197858|O43292-2|GPAA1 nc|ENSG00000197858|O43292-2|GPAA1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.73065185546875 4 334.980753 1335.89391 2.2882 0.00076649 -0.32468 -0.00010876 1.9635 0.00065773 334.9807366987734 37.214 0.23271 37.844 37.706 37.939 0.62999 16 10 2 0 0 0 0.13295 1 16990 16990 0.08335 0 1 371330 28188 5844 18172 18230 31787 31787 0.23939501524250772 RRALQGDYDQS 11 Unmodified _RRALQGDYDQS_ 0 0 0 nc|ENSG00000002822|Q9Y6D9-3|MAD1L1;nc|ENSG00000002822|Q9Y6D9-4|MAD1L1;ENSG00000002822|ENST00000265854|MAD1L1 nc|ENSG00000002822|Q9Y6D9-3|MAD1L1 nc|ENSG00000002822|Q9Y6D9-3|MAD1L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 436.88067626953125 3 436.881219 1307.62183 NaN NaN NaN NaN NaN NaN NaN 15.785 1 16.443 15.943 16.943 0.65798 0 0 0 1.0082 1 7112 7112 0.094841 0.094841 1 28189 305 18173 18231 31788 31788 -0.019679770783795902 RRAPIARQLSR 11 Unmodified _RRAPIARQLSR_ 0 0 0 REV__ENST00000342879.7_1_19:35645831-35645993:+|nuORF REV__ENST00000342879.7_1_19:35645831-35645993:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.77490234375 3 441.940855 1322.80073 NaN NaN NaN NaN NaN NaN NaN 56.774 1 56.774 56.274 57.274 0 0 0 0 1.0061 1 26138 26138 1.1098 0.096179 1 + 28190 15475 18174 18232 31789 31789 0.15224577071035128 RRAPLAPG 8 Unmodified _RRAPLAPG_ 0 0 0 REV__ENSG00000099822|ENST00000251287|HCN2 REV__ENSG00000099822|ENST00000251287|HCN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 419.2591857910156 2 419.256311 836.49807 NaN NaN NaN NaN NaN NaN NaN 103.93 1 104.25 103.75 104.75 0.31863 0 0 0 0.99035 1 48031 48031 0.69038 0 1 + 28191 10788 18175 18233 31790 31790 0.0732806140260891 RRAREKRRQ 9 Unmodified _RRAREKRRQ_ 0 0 0 ENSG00000182798|ENST00000400004|MAGEB17 ENSG00000182798|ENST00000400004|MAGEB17 ENSG00000182798|ENST00000400004|MAGEB17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 419.2591857910156 3 419.257066 1254.74937 3.2115 0.0013464 1.2862 0.00053926 4.4977 0.0018857 419.2576181569223 103.86 0.12373 104.46 104.39 104.51 0.59822 25 21 2 0 0 0 1.2126 1 48037 48037 0.23584 0 1 474990 28192 5351 18176 18234 31791 31791 0.13218253096965782 RRARGHTALR 10 Unmodified _RRARGHTALR_ 0 0 0 ENST00000515008.1_1_5:138283142-138289110:-|nuORF ENST00000515008.1_1_5:138283142-138289110:-|nuORF ENST00000515008.1_1_5:138283142-138289110:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.3606567382812 2 597.357954 1192.70135 4.2462 0.0025365 0.91379 0.00054586 5.16 0.0030824 597.3583948434206 95.362 0.61168 95.969 95.804 96.416 0.60768 83 32 4 0 0 0 0.94165 1 43816 43816 1.3295 1.3295 1 3303500 28193 8589 18177 18235 31792 31792 0.11271179176901569 RRARGPRLPR 10 Unmodified _RRARGPRLPR_ 0 0 0 REV__ENST00000399443.7_1_18:21851750-21852050:-|nuORF REV__ENST00000399443.7_1_18:21851750-21852050:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 412.263427734375 3 412.262039 1233.76429 NaN NaN NaN NaN NaN NaN NaN 69.198 1 69.198 68.698 69.698 0 0 0 0 0.99774 1 33382 33382 3.5871 1.8448 1 + 28194 16033 18178 18236 31793 31793 0.1567574496496036 RRARVWRRHR 10 Unmodified _RRARVWRRHR_ 0 0 0 ENSG00000204779|ENST00000377420|FOXD4L5;ENSG00000184659|ENST00000377413|FOXD4L4;ENSG00000273514|ENST00000622588|FOXD4L6;ENSG00000187559|ENST00000342833|FOXD4L3;ENSG00000170122|ENST00000382500|FOXD4 ENSG00000204779|ENST00000377420|FOXD4L5 ENSG00000204779|ENST00000377420|FOXD4L5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 724.9396362304688 2 724.937768 1447.86098 NaN NaN NaN NaN NaN NaN NaN 69.357 1 69.357 68.857 69.857 0 0 0 0 1.0003 1 33482 33482 1.4819 0 1 28195 4732 18179 18237 31794 31794 0.15496732244764644 RRARWHWRHLP 11 Unmodified _RRARWHWRHLP_ 0 0 0 ENST00000607222.1_1_1:1550199-1550712:-|nuORF ENST00000607222.1_1_1:1550199-1550712:-|nuORF ENST00000607222.1_1_1:1550199-1550712:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 785.9434204101562 2 785.939976 1569.8654 3.3125 0.0026034 2.4276 0.0019079 5.74 0.0045113 786.4430697610081 93.023 0.029022 93.023 92.999 93.028 0 5 3 2 0 0 0 0.91462 1 49574 49574 0.30703 0 1 11466000 28196 9334 18180 18238 31795 31795 0.10326196667688237 RRARWRRRRAP 11 Unmodified _RRARWRRRRAP_ 0 0 0 ENST00000373548.7_1_1:32757705-32768263:+|nuORF ENST00000373548.7_1_1:32757705-32768263:+|nuORF ENST00000373548.7_1_1:32757705-32768263:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 384.7392272949219 4 384.988438 1535.92465 2.9147 0.0011221 -0.25074 -9.6532E-05 2.664 0.0010256 384.98865719343644 43.18 0.3613 43.829 43.73 44.091 0.64872 26 18 2 0 0 0 0.13295 1 19838 19838 0.08335 0.08335 1 1114600 28197 7364 18181 18239 31796 31796 0.17812092681833747 RRASRIPLGP 10 Unmodified _RRASRIPLGP_ 0 0 0 REV__ENSG00000165478|ENST00000298251|HEPACAM REV__ENSG00000165478|ENST00000298251|HEPACAM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.8475341796875 2 561.846356 1121.67816 3.7313 0.0020964 -0.9833 -0.00055246 2.748 0.001544 561.8456646548796 91.569 0.70294 92.231 91.995 92.698 0.66198 101 35 4 0 0 0 0.93713 1 42135 42135 1.4819 0.8804 1 3339000 + 28198 13160 18182 18240 31797 31797 0.12218740339585565 RRATLWSR 8 Unmodified _RRATLWSR_ 0 0 0 REV__ENST00000463462.5_1_7:148982563-148988696:+|nuORF REV__ENST00000463462.5_1_7:148982563-148988696:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.3057861328125 2 523.304324 1044.5941 3.2863 0.0017197 -0.21971 -0.00011497 3.0666 0.0016047 523.3041180473004 78.488 0.97118 79.15 78.761 79.732 0.66198 84 63 2 0 0 0 0.7471 1 36075 36075 1.8442 0 1 593950 + 28199 16216 18183 18241 31798 31798 0.07358209242693192 RRATRLLCV 9 Unmodified _RRATRLLCV_ 0 0 0 ENST00000602813.1_1_1:28975127-28975199:+|nuORF ENST00000602813.1_1_1:28975127-28975199:+|nuORF ENST00000602813.1_1_1:28975127-28975199:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.2127990722656 3 363.222082 1086.64442 NaN NaN NaN NaN NaN NaN NaN 34.1 1 34.72 34.22 35.22 0.62031 0 0 0 0.75166 1 15624 15624 7.1017 0.47827 1 28200 9306 18184 18242 31799 31799 0.10455995576194255 RRATRTRRWAW 11 Unmodified _RRATRTRRWAW_ 0 0 0 REV__ENST00000314586.10_2_16:67218670-67218839:-|nuORF REV__ENST00000314586.10_2_16:67218670-67218839:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.7615051269531 3 505.955387 1514.84433 NaN NaN NaN NaN NaN NaN NaN 65.36 1 65.36 64.86 65.86 0 0 0 0 1.0075 1 31132 31132 0.32927 0 1 + 28201 15283 18185 18243 31800 31800 0.10750186568179743 RRCCFCCRCCC 11 Unmodified _RRCCFCCRCCC_ 0 0 0 REV__ENSG00000183067|ENST00000380588|IGSF5 REV__ENSG00000183067|ENST00000380588|IGSF5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 452.4903259277344 3 452.489477 1354.4466 NaN NaN NaN NaN NaN NaN NaN 68.575 1 68.575 68.075 69.075 0 0 0 0 1.008 1 33029 33029 0.08335 0.08335 1 + 28202 13914 18186 18244 31801 31801 -0.21644240599425757 RRCLAPPLLAR 11 Unmodified _RRCLAPPLLAR_ 0 0 0 REV__ENST00000442007.1_1_6:73972946-73980200:+|nuORF REV__ENST00000442007.1_1_6:73972946-73980200:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.5941467285156 3 422.592286 1264.75503 2.8503 0.0012045 0.80704 0.00034105 3.6574 0.0015456 422.59249374216097 48.739 0.53342 48.739 48.466 49 0 40 29 2 0 0 0 0.91111 1 22328 22328 0.40827 0 1 508570 + 28203 16349 18187 18245 31802 31802 0.13324215564421138 RRCLAPPLLAR 11 Unmodified _RRCLAPPLLAR_ 0 0 0 REV__ENST00000442007.1_1_6:73972946-73980200:+|nuORF REV__ENST00000442007.1_1_6:73972946-73980200:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 317.1968994140625 4 317.196034 1264.75503 2.2317 0.00070788 0.46086 0.00014618 2.6925 0.00085406 317.1960998730227 45.984 0.84563 46.81 46.218 47.064 0.82621 141 43 4 0 0 0 0.91111 1 20720 20720 0.40827 0.26837 1 9758700 + 28204 16349 18187 18245 31803 31803 0.13324215564421138 RRCLAPPLLAR 11 Unmodified _RRCLAPPLLAR_ 0 0 0 REV__ENST00000442007.1_1_6:73972946-73980200:+|nuORF REV__ENST00000442007.1_1_6:73972946-73980200:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.1969299316406 4 317.196034 1264.75503 2.3359 0.00074095 0.93403 0.00029627 3.27 0.0010372 317.1962706123493 46.167 0.5174 46.432 46.103 46.62 0.26561 78 22 4 0 0 0 0.91111 1 21049 21049 0.40827 0 1 10960000 + 28205 16349 18187 18245 31804 31804 0.13324215564421138 RRCLAPPLLAR 11 Unmodified _RRCLAPPLLAR_ 0 0 0 REV__ENST00000442007.1_1_6:73972946-73980200:+|nuORF REV__ENST00000442007.1_1_6:73972946-73980200:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.593505859375 3 422.592286 1264.75503 3.283 0.0013874 0.58611 0.00024769 3.8691 0.001635 422.5923992642799 45.569 1.1841 46.22 45.721 46.905 0.65104 158 44 5 0 0 0 0.91111 1 20707 20707 0.40827 0 1 4626900 + 28206 16349 18187 18245 31805 31805 0.13324215564421138 RRCLQRLL 8 Unmodified _RRCLQRLL_ 0 0 0 REV__nc|ENSG00000130529|Q8TD43-2|TRPM4 REV__nc|ENSG00000130529|Q8TD43-2|TRPM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.3240356445312 2 529.324202 1056.63385 NaN NaN NaN NaN NaN NaN NaN 91.744 1 92.406 91.906 92.906 0.66198 0 0 0 0.99035 1 42218 42218 2.5775 0 1 + 28207 11822 18188 18246 31806 31806 0.10780012921759408 RRCLTVPL 8 Unmodified _RRCLTVPL_ 0 0 0 nc|nan|Q6X4T0-2|C12orf54 REV__ENST00000587213.5_1_19:56159538-56160159:+|nuORF REV__ENST00000587213.5_1_19:56159538-56160159:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 319.86041259765625 3 319.860262 956.558955 2.5239 0.0008073 -1.486 -0.00047531 1.0379 0.00033199 319.8595755156291 47.713 0.31721 47.977 47.921 48.238 0.26363 35 16 3 0 0 0 0.7441 1 21856 21856 1.4819 0 1 2745500 28208 9893 18189 18247 31807 31807 0.07893830390526091 RRCPLALV 8 Unmodified _RRCPLALV_ 0 0 0 REV__ENST00000446716.5_1_2:220081206-220083551:-|nuORF REV__ENST00000446716.5_1_2:220081206-220083551:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.28228759765625 2 464.281472 926.548391 2.6193 0.0012161 -0.63937 -0.00029685 1.98 0.00091926 464.28113583291344 55.954 0.21262 55.954 55.866 56.079 0 23 14 2 0 0 0 0.72385 1 25769 25769 2.5775 0 1 968150 + 28209 11379 18190 18248 31808 31808 0.08217847736102613 RRCSPRRPARR 11 Unmodified _RRCSPRRPARR_ 0 0 0 REV__ENST00000440364.6_1_5:153826115-153832963:+|nuORF REV__ENST00000440364.6_1_5:153826115-153832963:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 353.45794677734375 4 353.457548 1409.80109 2.4942 0.00088161 0.17696 6.2548E-05 2.6712 0.00094416 353.4575249998822 56.31 0.21376 56.31 56.168 56.382 0 24 19 2 0 0 0 0.13295 1 25879 25879 0.45452 0 1 753950 + 28210 15163 18191 18249 31809 31809 0.11257673519230593 RRCVKQRP 8 Unmodified _RRCVKQRP_ 0 0 0 KMT2B|p.D1819Mfs*70|1|0.11|ENSG00000272333|chr19:35731923-35731941|AGGACCCCCCACTGGACAC/-|frameshift_variant;ENSG00000272333|ENST00000420124|KMT2B KMT2B|p.D1819Mfs*70|1|0.11|ENSG00000272333|chr19:35731923-35731941|AGGACCCCCCACTGGACAC/-|frameshift_variant KMT2B|p.D1819Mfs*70|1|0.11|ENSG00000272333|chr19:35731923-35731941|AGGACCCCCCACTGGACAC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.2073669433594 3 348.206543 1041.5978 2.474 0.00086145 0.76534 0.0002665 3.2393 0.0011279 348.2066866071032 43.208 0.77502 43.478 43.275 44.05 0.27021 134 53 4 0 0 0 0.70799 1 19667 19667 3.5965 3.5965 1 10071000 28211 6335 18192 18250 31810 31810 0.0786655574490851 RRCVKQRP 8 Unmodified _RRCVKQRP_ 0 0 0 KMT2B|p.D1819Mfs*70|1|0.11|ENSG00000272333|chr19:35731923-35731941|AGGACCCCCCACTGGACAC/-|frameshift_variant;ENSG00000272333|ENST00000420124|KMT2B KMT2B|p.D1819Mfs*70|1|0.11|ENSG00000272333|chr19:35731923-35731941|AGGACCCCCCACTGGACAC/-|frameshift_variant KMT2B|p.D1819Mfs*70|1|0.11|ENSG00000272333|chr19:35731923-35731941|AGGACCCCCCACTGGACAC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.2078857421875 3 348.206543 1041.5978 2.5709 0.00089521 0.59312 0.00020653 3.164 0.0011017 348.2066862102261 42.73 1.1014 43.377 42.948 44.049 0.64693 178 76 3 0 0 0 0.7441 1 19417 19417 1.4819 0 1 6263400 28212 6335 18192 18250 31811 31811 0.0786655574490851 RRCVKQRP 8 Unmodified _RRCVKQRP_ 0 0 0 KMT2B|p.D1819Mfs*70|1|0.11|ENSG00000272333|chr19:35731923-35731941|AGGACCCCCCACTGGACAC/-|frameshift_variant;ENSG00000272333|ENST00000420124|KMT2B KMT2B|p.D1819Mfs*70|1|0.11|ENSG00000272333|chr19:35731923-35731941|AGGACCCCCCACTGGACAC/-|frameshift_variant KMT2B|p.D1819Mfs*70|1|0.11|ENSG00000272333|chr19:35731923-35731941|AGGACCCCCCACTGGACAC/-|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 348.206543 1041.5978 2.2524 0.00078431 0.63702 0.00022182 2.8895 0.0010061 348.2066186140434 42.675 0.4065 43.484 43.323 43.73 0.80855 0.037526 -3.5729E-05 NaN 3.5965 100 58 3 NaN NaN NaN NaN 0 NaN NaN 0 7501100 28213 6335 18192 18250 0.0786655574490851 RRCWGRLWWHR 11 Unmodified _RRCWGRLWWHR_ 0 0 0 REV__ENST00000473038.5_1_1:46033610-46035625:+|nuORF REV__ENST00000473038.5_1_1:46033610-46035625:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.5896606445312 3 537.949467 1610.82657 NaN NaN NaN NaN NaN NaN NaN 85.15 1 85.15 84.65 85.65 0 0 0 0 1.0082 1 43273 43273 0 0 1 + 28214 16622 18193 18251 31812 31812 0.04559148041653316 RRDLKRDKRP 10 Unmodified _RRDLKRDKRP_ 0 0 0 REV__nc|ENSG00000101282|Q2I0M5-2|RSPO4 REV__nc|ENSG00000101282|Q2I0M5-2|RSPO4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 671.2118530273438 2 670.405101 1338.79565 4.6144 0.0030935 0.87705 0.00058798 5.4915 0.0036815 670.4055653026614 100.78 0.083809 101.1 101.03 101.11 0.31412 6 2 3 0 0 0 0.94134 1 46631 46631 1.4819 0 1 4480000 + 28215 10880 18194 18252 31813 31813 0.13980273208380822 RRDLRRFRRRR 11 Unmodified _RRDLRRFRRRR_ 0 0 0 ENST00000505007.5_1_5:138941007-138941097:+|nuORF ENST00000505007.5_1_5:138941007-138941097:+|nuORF ENST00000505007.5_1_5:138941007-138941097:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 822.003662109375 2 822.006713 1641.99887 NaN NaN NaN NaN NaN NaN NaN 62.3 1 63.031 62.531 63.531 0.73077 0 0 0 1.008 1 29024 29024 0.30703 0.30703 1 28216 8499 18195 18253 31814 31814 0.20355435773353747 RRDQSRPLL 9 Unmodified _RRDQSRPLL_ 0 0 0 REV__ENST00000437099.6_1_17:9815315-9815396:-|nuORF REV__ENST00000437099.6_1_17:9815315-9815396:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 380.89306640625 3 380.891389 1139.65234 NaN NaN NaN NaN NaN NaN NaN 43.484 1 44.299 43.799 44.799 0.81444 0 0 0 0.89683 1 19795 19795 2.4985 0 1 + 28217 16315 18196 18254 31815 31815 0.08809846097324225 RRDRGAQRPRR 11 Unmodified _RRDRGAQRPRR_ 0 0 0 ENST00000376377.2_1_6:30711502-30711607:-|nuORF ENST00000376377.2_1_6:30711502-30711607:-|nuORF ENST00000376377.2_1_6:30711502-30711607:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 712.9194946289062 2 712.414323 1422.81409 3.861 0.0027506 0.035972 2.5627E-05 3.897 0.0027762 712.915762063662 61.418 0.3308 62.08 61.956 62.287 0.66261 33 18 2 0 0 0 0.91168 1 28106 28106 0.96228 0 1 743620 28218 7399 18197 18255 31816 31816 0.11959827902978759 RRDRVVRLTP 10 Unmodified _RRDRVVRLTP_ 0 0 0 ENST00000268182.9_1_15:90991945-90996021:+|nuORF ENST00000268182.9_1_15:90991945-90996021:+|nuORF ENST00000268182.9_1_15:90991945-90996021:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 423.4989929199219 3 423.261705 1266.76329 NaN NaN NaN NaN NaN NaN NaN 60.412 1 61.075 60.575 61.575 0.66322 0 0 0 0.99837 1 27660 27660 3.0723 0.22898 1 28219 6633 18198 18256 31817 31817 0.1405748580539239 RREESYRWYRE 11 Unmodified _RREESYRWYRE_ 0 0 0 REV__ENSG00000125966|ENST00000246186|MMP24 REV__ENSG00000125966|ENST00000246186|MMP24 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 815.3995971679688 2 815.39767 1628.78079 NaN NaN NaN NaN NaN NaN NaN 61.131 1 61.794 61.294 62.294 0.66261 0 0 0 1.0082 1 27991 27991 0 0 1 + 28220 11702 18199 18257 31818 31818 -0.008452634502646106 RRELRPRRRRP 11 Unmodified _RRELRPRRRRP_ 0 0 0 REV__ENST00000557385.1_1_X:119384635-119386530:+|nuORF REV__ENST00000557385.1_1_X:119384635-119386530:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 774.481689453125 2 774.48254 1546.95053 NaN NaN NaN NaN NaN NaN NaN 79.527 1 79.778 79.278 80.278 0.25127 0 0 0 1.0082 1 36620 36620 0 0 1 + 28221 15355 18200 18258 31819 31819 0.1989294213346966 RRELRRRTILL 11 Unmodified _RRELRRRTILL_ 0 0 0 ENSG00000121680|ENST00000378750|PEX16;nc|ENSG00000121680|Q9Y5Y5-2|PEX16 ENSG00000121680|ENST00000378750|PEX16 ENSG00000121680|ENST00000378750|PEX16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 741.4788208007812 2 741.4786 1480.94265 NaN NaN NaN NaN NaN NaN NaN 79.062 1 79.313 78.813 79.813 0.25127 0 0 0 1.0082 1 36408 36408 0 0 1 28222 2236 18201 18259 31820 31820 0.22141370093368096 RRERRWDRWVP 11 Unmodified _RRERRWDRWVP_ 0 0 0 ENST00000565219.1_1_16:29466524-29469442:+|nuORF ENST00000565219.1_1_16:29466524-29469442:+|nuORF ENST00000565219.1_1_16:29466524-29469442:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 806.0866088867188 2 806.440006 1610.86546 NaN NaN NaN NaN NaN NaN NaN 103.09 1 103.09 102.59 103.59 0 0 0 0 1.008 1 56853 56853 0.35063 0 1 28223 9039 18202 18260 31821 31821 0.08446151877001284 RRETEEFNDLL 11 Unmodified _RRETEEFNDLL_ 0 0 0 nc|ENSG00000136826|O43474-4|KLF4;ENST00000497048.5_1_9:110248034-110250560:-|nuORF;ENSG00000136826|ENST00000374672|KLF4;nc|ENSG00000136826|O43474|KLF4 nc|ENSG00000136826|O43474-4|KLF4 nc|ENSG00000136826|O43474-4|KLF4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.731689453125 3 474.572162 1420.69466 3.2106 0.0015236 2.5078 0.0011901 5.7184 0.0027138 474.57340763517345 19.683 0.10378 20.341 20.266 20.369 0.6583 12 8 2 0 0 0 0.13295 1 8919 8919 5.8681 2.0222 1 100950 28224 2978 18203 18261 31822 31822 0.0011373192437531543 RREWRRKMKRT 11 Unmodified _RREWRRKMKRT_ 0 0 0 ENST00000486943.1_3_X:49065690-49065852:-|nuORF ENST00000486943.1_3_X:49065690-49065852:-|nuORF ENST00000486943.1_3_X:49065690-49065852:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 802.2094116210938 2 801.965334 1601.91611 NaN NaN NaN NaN NaN NaN NaN 79.929 1 79.929 79.429 80.429 0 0 0 0 1.0082 1 39574 39574 0 0 1 28225 8340 18204 18262 31823 31823 0.1392335793032089 RRFFLRCIIWN 11 Unmodified _RRFFLRCIIWN_ 0 0 0 nc|ENSG00000135636|O75923-3|DYSF;nc|ENSG00000135636|O75923-9|DYSF;nc|ENSG00000135636|O75923|DYSF;nc|ENSG00000135636|O75923-14|DYSF;nc|ENSG00000135636|O75923-6|DYSF;nc|ENSG00000135636|O75923-12|DYSF;nc|ENSG00000135636|O75923-5|DYSF;nc|ENSG00000135636|O75923-11|DYSF;nc|ENSG00000135636|O75923-4|DYSF;nc|ENSG00000135636|O75923-10|DYSF;nc|ENSG00000135636|O75923-2|DYSF;nc|ENSG00000135636|O75923-8|DYSF;nc|ENSG00000135636|O75923-7|DYSF;ENSG00000135636|ENST00000410020|DYSF;nc|ENSG00000135636|O75923-15|DYSF nc|ENSG00000135636|O75923-3|DYSF nc|ENSG00000135636|O75923-3|DYSF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.7254943847656 3 508.618724 1522.83434 3.2105 0.0016329 1.3475 0.00068537 4.558 0.0023183 508.6195025528937 28.02 0.21603 28.806 28.661 28.877 0.78627 44 18 3 0 0 0 0.91111 1 12548 12548 0.40827 0.335 1 729110 28226 2885 18205 18263 31824 31824 0.0938386251857537 RRFHHRMQKQI 11 Unmodified _RRFHHRMQKQI_ 0 0 0 nc|ENSG00000196115|Q6NVV9-6|ADAM5;nc|ENSG00000196115|Q6NVV9-7|ADAM5;nc|ENSG00000196115|Q6NVV9|ADAM5 nc|ENSG00000196115|Q6NVV9-6|ADAM5 nc|ENSG00000196115|Q6NVV9-6|ADAM5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 768.9257202148438 2 768.925677 1535.8368 NaN NaN NaN NaN NaN NaN NaN 28.817 1 28.817 28.317 29.317 0 0 0 0 1.0082 1 13000 13000 0 0 1 28227 9793 18206 18264 31825 31825 0.09031710976228169 RRFIKRVY 8 Unmodified _RRFIKRVY_ 0 0 0 nc|ENSG00000021574|Q9UBP0-4|SPAST;nc|ENSG00000021574|Q9UBP0-3|SPAST;nc|ENSG00000021574|Q9UBP0-2|SPAST;ENSG00000021574|ENST00000315285|SPAST nc|ENSG00000021574|Q9UBP0-4|SPAST nc|ENSG00000021574|Q9UBP0-4|SPAST MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.3550415039062 2 569.353817 1136.69308 NaN NaN NaN NaN NaN NaN NaN 103.74 1 104.06 103.56 104.56 0.31863 0 0 0 0.99035 1 47956 47956 0.79363 0 1 28228 458 18207 18265 31826 31826 0.13020232207600202 RRFLKKNEV 9 Unmodified _RRFLKKNEV_ 0 0 0 ENSG00000130147|ENST00000392011|SH3BP4 ENSG00000130147|ENST00000392011|SH3BP4 ENSG00000130147|ENST00000392011|SH3BP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.2440185546875 3 397.243652 1188.70913 NaN NaN NaN NaN NaN NaN NaN 80.621 1 81.281 80.781 81.781 0.65998 0 0 0 0.91059 1 37149 37149 0.96228 0.26461 1 28229 2574 18208 18266 31827 31827 0.12231893653847692 RRFLKLLRFYI 11 Unmodified _RRFLKLLRFYI_ 0 0 0 ENST00000488002.5_1_3:179322588-179334847:+|nuORF;ENST00000359944.10_1_3:179322640-179341825:+|nuORF;ENSG00000136521|ENST00000259037|NDUFB5 ENST00000488002.5_1_3:179322588-179334847:+|nuORF ENST00000488002.5_1_3:179322588-179334847:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.9891662597656 3 508.989034 1523.94527 NaN NaN NaN NaN NaN NaN NaN 69.453 1 69.707 69.207 70.207 0.25443 0 0 0 1.0082 1 31806 31806 0.094841 0 1 28230 2954 18209 18267 31828 31828 0.20425825498318773 RRFMRRRKRRL 11 Unmodified _RRFMRRRKRRL_ 0 0 0 ENST00000391975.5_1_2:242194961-242195633:-|nuORF ENST00000391975.5_1_2:242194961-242195633:-|nuORF ENST00000391975.5_1_2:242194961-242195633:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 816.0114135742188 2 816.01041 1630.00627 NaN NaN NaN NaN NaN NaN NaN 29.172 1 29.172 28.672 29.672 0 0 0 0 1.0082 1 13164 13164 0 0 1 28231 7508 18210 18268 31829 31829 0.21646452049435538 RRFMRRRKRRL 11 Unmodified _RRFMRRRKRRL_ 0 0 0 ENST00000391975.5_1_2:242194961-242195633:-|nuORF ENST00000391975.5_1_2:242194961-242195633:-|nuORF ENST00000391975.5_1_2:242194961-242195633:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 816.0132446289062 2 816.01041 1630.00627 NaN NaN NaN NaN NaN NaN NaN 42.173 1 42.443 41.943 42.943 0.27021 0 0 0 1.0082 1 19232 19232 0 0 1 28232 7508 18210 18268 31830 31830 0.21646452049435538 RRFMRRRKRRL 11 Unmodified _RRFMRRRKRRL_ 0 0 0 ENST00000391975.5_1_2:242194961-242195633:-|nuORF ENST00000391975.5_1_2:242194961-242195633:-|nuORF ENST00000391975.5_1_2:242194961-242195633:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 326.7103271484375 5 327.00853 1630.00627 2.1695 0.00070945 2.4216 0.00079189 4.5911 0.0015013 327.21099097023114 79.457 1.0338 79.708 79.139 80.173 0.25127 99 66 2 0 0 0 0.13295 1 36582 36582 0 0 1 401700 28233 7508 18210 18268 31831 31831 0.21646452049435538 RRFNRLKPKKK 11 Unmodified _RRFNRLKPKKK_ 0 0 0 REV__ENST00000549009.1_1_12:110574622-110600787:+|nuORF REV__ENST00000549009.1_1_12:110574622-110600787:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 735.9779052734375 2 735.978236 1469.94192 NaN NaN NaN NaN NaN NaN NaN 64.176 1 64.891 64.391 65.391 0.71521 0 0 0 1.0082 1 30207 30207 0 0 1 + 28234 17266 18211 18269 31832 31832 0.22574575444264156 RRFRRRHS 8 Unmodified _RRFRRRHS_ 0 0 0 REV__nc|ENSG00000241127|Q9NRH1-2|YAE1 REV__nc|ENSG00000241127|Q9NRH1-2|YAE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.8465576171875 2 585.845013 1169.67547 NaN NaN NaN NaN NaN NaN NaN 6.4646 1 6.8043 6.3043 7.3043 0.33974 0 0 0 0.99035 1 2920 2920 0 0 1 + 28235 18148 18212 18270 31833 31833 0.09742329725327181 RRFVNRLR 8 Unmodified _RRFVNRLR_ 0 0 0 REV__ENSG00000105397|ENST00000525621|TYK2 REV__ENSG00000105397|ENST00000525621|TYK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.848388671875 2 558.84669 1115.67883 NaN NaN NaN NaN NaN NaN NaN 15.632 1 16.286 15.786 16.786 0.65356 0 0 0 0.99035 1 7041 7041 0.69038 0.088878 1 + 28236 11031 18213 18271 31834 31834 0.12561579779298881 RRFWKLRQEI 10 Unmodified _RRFWKLRQEI_ 0 0 0 nc|ENSG00000148814|Q9C0I9-4|LRRC27;nc|ENSG00000148814|Q9C0I9-3|LRRC27;nc|ENSG00000148814|Q9C0I9-2|LRRC27;ENSG00000148814|ENST00000368614|LRRC27 nc|ENSG00000148814|Q9C0I9-4|LRRC27 nc|ENSG00000148814|Q9C0I9-4|LRRC27 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.9867858886719 3 477.949239 1430.82589 NaN NaN NaN NaN NaN NaN NaN 73.807 1 74.494 73.994 74.994 0.68662 0 0 0 0.99995 1 35622 35622 1.7423 0.41263 1 28237 3616 18214 18272 31835 31835 0.12770631873604543 RRGAEVVL 8 Unmodified _RRGAEVVL_ 0 0 0 ENST00000483688.2_1_1:207244099-207248655:+|nuORF ENST00000483688.2_1_1:207244099-207248655:+|nuORF ENST00000483688.2_1_1:207244099-207248655:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.2763977050781 2 450.274701 898.534849 3.2355 0.0014569 0.43925 0.00019778 3.6747 0.0016546 450.27489624913534 88.055 0.64559 88.733 88.532 89.178 0.67818 92 28 5 0 0 0 0.7471 1 40494 40494 0.69038 0 1 63570000 28238 8316 18215 18273 31836 31836 0.08152313228526964 RRGDFIHVM 9 Unmodified _RRGDFIHVM_ 0 0 0 nc|ENSG00000177885|P62993-2|GRB2;ENST00000462266.1_1_17:73316451-73322393:-|nuORF;ENSG00000177885|ENST00000316804|GRB2 nc|ENSG00000177885|P62993-2|GRB2 nc|ENSG00000177885|P62993-2|GRB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 377.5354309082031 3 377.534437 1129.58148 2.7167 0.0010256 0.24871 9.3898E-05 2.9654 0.0011195 377.53446647387136 32.953 0.21835 32.953 32.86 33.078 0 19 12 2 0 0 0 0.30351 1 14929 14929 16.566 10.374 1 218380 28239 9763 18216 18274 31837 31837 0.02187429788159534 RRGDFIHVM 9 Unmodified _RRGDFIHVM_ 0 0 0 nc|ENSG00000177885|P62993-2|GRB2;ENST00000462266.1_1_17:73316451-73322393:-|nuORF;ENSG00000177885|ENST00000316804|GRB2 nc|ENSG00000177885|P62993-2|GRB2 nc|ENSG00000177885|P62993-2|GRB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 377.535400390625 3 377.534437 1129.58148 2.966 0.0011198 -0.12818 -4.8392E-05 2.8378 0.0010714 377.53439909787534 32.718 0.29161 32.972 32.882 33.174 0.25389 21 12 2 0 0 0 0.22744 2 14916 14916;14969 21.59 12.046 1 311930 28240 9763 18216 18274 31838;31839 31838 0.02187429788159534 RRGDFIHVM 9 Unmodified _RRGDFIHVM_ 0 0 0 nc|ENSG00000177885|P62993-2|GRB2;ENST00000462266.1_1_17:73316451-73322393:-|nuORF;ENSG00000177885|ENST00000316804|GRB2 nc|ENSG00000177885|P62993-2|GRB2 nc|ENSG00000177885|P62993-2|GRB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.53521728515625 3 377.534437 1129.58148 2.6497 0.0010004 0.0035124 1.3261E-06 2.6532 0.0010017 377.53440076871294 32.129 0.27951 32.748 32.622 32.901 0.61831 26 15 2 0 0 0 0.22744 2 14734 14734;14788 21.59 16.187 1 271670 28241 9763 18216 18274 31840;31841 31840 0.02187429788159534 RRGLWWLVPRL 11 Unmodified _RRGLWWLVPRL_ 0 0 0 nc|ENSG00000197430|Q96PE5-3|OPALIN;nc|ENSG00000197430|Q96PE5-4|OPALIN;nc|ENSG00000197430|Q96PE5-2|OPALIN;ENSG00000197430|ENST00000371172|OPALIN nc|ENSG00000197430|Q96PE5-3|OPALIN nc|ENSG00000197430|Q96PE5-3|OPALIN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.8462829589844 3 484.629729 1450.86736 NaN NaN NaN NaN NaN NaN NaN 19.574 1 19.866 19.366 20.366 0.29239 0 0 0 1.0082 1 8906 8906 0.094841 0 1 28242 5817 18217 18275 31842 31842 0.15995812632900197 RRGQVGPV 8 Unmodified _RRGQVGPV_ 0 0 0 ENST00000462875.1_1_6:31609004-31609235:-|nuORF ENST00000462875.1_1_6:31609004-31609235:-|nuORF ENST00000462875.1_1_6:31609004-31609235:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.76031494140625 2 434.759218 867.503883 2.7113 0.0011787 0.094424 4.1052E-05 2.8057 0.0012198 434.7592129682691 81.398 0.41379 81.646 81.466 81.88 0.24803 55 22 3 0 0 0 0.74071 2 37467 37420;37467 2.5775 0 1 4010200 28243 8097 18218 18276 31843;31844 31844 0.06483159914284897 RRGQVGPV 8 Unmodified _RRGQVGPV_ 0 0 0 ENST00000462875.1_1_6:31609004-31609235:-|nuORF ENST00000462875.1_1_6:31609004-31609235:-|nuORF ENST00000462875.1_1_6:31609004-31609235:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.76019287109375 2 434.759218 867.503883 2.8767 0.0012507 0.99463 0.00043242 3.8713 0.0016831 434.7594616615782 77.496 0.31749 78.159 78.035 78.353 0.66303 22 18 2 0 0 0 0.7471 1 35720 35720 0.79363 0 1 454440 28244 8097 18218 18276 31845 31845 0.06483159914284897 RRGRAAPA 8 Unmodified _RRGRAAPA_ 0 0 0 ENST00000495294.1_1_X:2825959-2847358:-|nuORF;ENST00000494870.5_1_X:2838537-2847316:-|nuORF;nc|ENSG00000006756|P51689-2|ARSD;nc|ENSG00000006756|P51689-3|ARSD;ENSG00000006756|ENST00000381154|ARSD ENST00000495294.1_1_X:2825959-2847358:-|nuORF ENST00000495294.1_1_X:2825959-2847358:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 427.75689697265625 2 427.75701 853.499467 NaN NaN NaN NaN NaN NaN NaN 61.31 1 61.973 61.473 62.473 0.66261 0 0 0 0.99035 1 28076 28076 2.5775 0 1 28245 359 18219 18277 31846 31846 0.06685695491353272 RRGRKGKRPA 10 Unmodified _RRGRKGKRPA_ 0 0 0 REV__ENSG00000156853|ENST00000287461|ZNF689 REV__ENSG00000156853|ENST00000287461|ZNF689 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.6708068847656 3 394.586523 1180.73774 NaN NaN NaN NaN NaN NaN NaN 70.951 1 71.654 71.154 72.154 0.70386 0 0 0 0.99995 1 34036 34036 1.7423 0.52744 1 + 28246 12785 18220 18278 31847 31847 0.15460056073652595 RRGRKQCPA 9 Unmodified _RRGRKQCPA_ 0 0 0 ENST00000422625.5_1_3:190231879-190272481:+|nuORF;ENST00000072516.7_2_3:190231855-190282134:+|nuORF;ENST00000439062.5_2_3:190231855-190268205:+|nuORF;ENST00000447382.5_2_3:190231879-190282131:+|nuORF ENST00000422625.5_1_3:190231879-190272481:+|nuORF ENST00000422625.5_1_3:190231879-190272481:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.86981201171875 3 357.869931 1070.58796 2.511 0.0008986 0.18842 6.743E-05 2.6994 0.00096603 357.8699717126149 62.47 0.33262 62.72 62.602 62.934 0.24965 92 70 2 0 0 0 1.0041 1 28585 28585 2.2828 1.0894 1 23111000 28247 6380 18221 18279 31848 31848 0.055493677395361374 RRGRRLRLRRL 11 Unmodified _RRGRRLRLRRL_ 0 0 0 ENST00000316059.6_1_11:58346648-58346858:+|nuORF ENST00000316059.6_1_11:58346648-58346858:+|nuORF ENST00000316059.6_1_11:58346648-58346858:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 754.5025024414062 2 754.503275 1506.992 NaN NaN NaN NaN NaN NaN NaN 63.334 1 64.056 63.556 64.556 0.72236 0 0 0 1.0082 1 29658 29658 0 0 1 28248 6900 18222 18280 31849 31849 0.25878122892800093 RRGRRRWRKRW 11 Unmodified _RRGRRRWRKRW_ 0 0 0 ENST00000261427.9_1_4:39699814-39699901:+|nuORF ENST00000261427.9_1_4:39699814-39699901:+|nuORF ENST00000261427.9_1_4:39699814-39699901:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.0032958984375 3 557.005075 1667.99339 NaN NaN NaN NaN NaN NaN NaN 92.669 1 92.669 92.169 93.169 0 0 0 0 1.0079 1 49300 49300 0.45452 0.046251 1 28249 6559 18223 18281 31850 31850 0.18611756981545113 RRGRTVAW 8 Unmodified _RRGRTVAW_ 0 0 0 REV__nc|ENSG00000110811|Q8IVL6-2|P3H3 REV__nc|ENSG00000110811|Q8IVL6-2|P3H3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.292724609375 2 501.291217 1000.56788 3.0511 0.0015295 -0.69492 -0.00034835 2.3562 0.0011812 501.2907932816766 78.748 1.673 78.999 78.211 79.884 0.25127 201 105 2 0 0 0 0.74071 1 36012 36012 2.5775 0 1 1159000 + 28250 11214 18224 18282 31851 31851 0.06761940071214667 RRGRWRTNIAR 11 Unmodified _RRGRWRTNIAR_ 0 0 0 REV__ENST00000238714.7_1_2:60983533-60983617:+|nuORF REV__ENST00000238714.7_1_2:60983533-60983617:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.2847900390625 3 481.283503 1440.82868 3.8615 0.0018585 -0.54172 -0.00026072 3.3198 0.0015978 481.2831115114792 96.379 1.1285 96.657 96.204 97.333 0.27778 147 58 4 0 0 0 0.91345 2 44217 44217;44378 0.45452 0.33165 1 1145700 + 28251 14874 18225 18283 31852;31853 31852 0.1258990005112537 RRGRWRTNIAR 11 Unmodified _RRGRWRTNIAR_ 0 0 0 REV__ENST00000238714.7_1_2:60983533-60983617:+|nuORF REV__ENST00000238714.7_1_2:60983533-60983617:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.6184387207031 3 481.283503 1440.82868 3.3513 0.0016129 -0.77598 -0.00037347 2.5753 0.0012394 481.28289747349424 95.954 1.2495 96.562 95.934 97.184 0.60769 162 66 3 0 0 0 0.91345 1 43953 43953 0.45452 0.29519 1 1354200 + 28252 14874 18225 18283 31854 31854 0.1258990005112537 RRGRWRWSDWF 11 Unmodified _RRGRWRWSDWF_ 0 0 0 nc|ENSG00000048162|Q9Y3C1-3|NOP16;nc|ENSG00000048162|Q9Y3C1-2|NOP16 nc|ENSG00000048162|Q9Y3C1-3|NOP16 nc|ENSG00000048162|Q9Y3C1-3|NOP16 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.9900512695312 3 536.607875 1606.8018 NaN NaN NaN NaN NaN NaN NaN 59.925 1 60.674 60.174 61.174 0.74927 0 0 0 1.0073 1 27540 27540 0.40827 0 1 28253 9542 18226 18284 31855 31855 0.022667914399107758 RRGVRPIF 8 Unmodified _RRGVRPIF_ 0 0 0 REV__nc|ENSG00000176261|Q8IWT0-2|ZBTB8OS REV__nc|ENSG00000176261|Q8IWT0-2|ZBTB8OS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.8141784667969 2 500.811785 999.609017 3.253 0.0016291 -0.79524 -0.00039827 2.4578 0.0012309 500.8113698372753 17.193 0.49351 17.853 17.452 17.945 0.66072 61 39 2 0 0 0 0.7471 1 7613 7613 2.3027 0 1 186050 + 28254 18052 18227 18285 31856 31856 0.10919701110685764 RRHCRHRRRRR 11 Unmodified _RRHCRHRRRRR_ 0 0 0 ENST00000361078.6_1_2:20550380-20550560:-|nuORF ENST00000361078.6_1_2:20550380-20550560:-|nuORF ENST00000361078.6_1_2:20550380-20550560:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 822.9791870117188 2 822.980507 1643.94646 NaN NaN NaN NaN NaN NaN NaN 84.993 1 84.993 84.493 85.493 0 0 0 0 1.0082 1 43163 43163 0 0 1 28255 7219 18228 18286 31857 31857 0.15024574158746873 RRHHRCRRQRP 11 Unmodified _RRHHRCRRQRP_ 0 0 0 ENSG00000163202|ENST00000368787|LCE3D ENSG00000163202|ENST00000368787|LCE3D ENSG00000163202|ENST00000368787|LCE3D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 779.43505859375 2 779.435067 1556.85558 NaN NaN NaN NaN NaN NaN NaN 78.29 1 78.29 77.79 78.79 0 0 0 0 1.0082 1 38456 38456 0 0 1 28256 4200 18229 18287 31858 31858 0.09942685390637962 RRHHRRQRLHH 11 Unmodified _RRHHRRQRLHH_ 0 0 0 REV__ENSG00000132716|ENST00000368074|DCAF8 REV__ENSG00000132716|ENST00000368074|DCAF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 794.9546508789062 2 794.954481 1587.89441 NaN NaN NaN NaN NaN NaN NaN 74.285 1 74.971 74.471 75.471 0.68662 0 0 0 1.0082 1 35900 35900 0 0 1 + 28257 11909 18230 18288 31859 31859 0.12397734016667528 RRHIKKLKRPR 11 Unmodified _RRHIKKLKRPR_ 0 0 0 ENST00000381120.7_1_13:28009858-28009912:-|nuORF ENST00000381120.7_1_13:28009858-28009912:-|nuORF ENST00000381120.7_1_13:28009858-28009912:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 744.4949340820312 2 744.497127 1486.9797 NaN NaN NaN NaN NaN NaN NaN 55.723 1 55.723 55.223 56.223 0 0 0 0 1.0082 1 25626 25626 0 0 1 28258 7478 18231 18289 31860 31860 0.2556908642975486 RRHKKRIQRLW 11 Unmodified _RRHKKRIQRLW_ 0 0 0 ENST00000461933.1_1_3:169684610-169686205:+|nuORF ENST00000461933.1_1_3:169684610-169686205:+|nuORF ENST00000461933.1_1_3:169684610-169686205:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 789.444580078125 2 788.992209 1575.96987 NaN NaN NaN NaN NaN NaN NaN 83.873 1 83.873 83.373 84.373 0 0 0 0 1.0082 1 42335 42335 0 0 1 28259 8090 18232 18290 31861 31861 0.20491898424393185 RRHKKRIQRLW 11 Unmodified _RRHKKRIQRLW_ 0 0 0 ENST00000461933.1_1_3:169684610-169686205:+|nuORF ENST00000461933.1_1_3:169684610-169686205:+|nuORF ENST00000461933.1_1_3:169684610-169686205:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 788.993408203125 2 788.992209 1575.96987 NaN NaN NaN NaN NaN NaN NaN 91.319 1 91.319 90.819 91.819 0 0 0 0 1.0082 1 48204 48204 0 0 1 28260 8090 18232 18290 31862 31862 0.20491898424393185 RRHKRRRRKQK 11 Unmodified _RRHKRRRRKQK_ 0 0 0 ENST00000478247.1_1_3:183882805-183888540:+|nuORF;nc|ENSG00000161202|Q92997-2|DVL3;ENSG00000161202|ENST00000313143|DVL3 ENST00000478247.1_1_3:183882805-183888540:+|nuORF ENST00000478247.1_1_3:183882805-183888540:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 803.0191650390625 2 803.017081 1604.01961 NaN NaN NaN NaN NaN NaN NaN 80.808 1 80.977 80.477 81.477 0.16862 0 0 0 1.0082 1 39626 39626 0 0 1 28261 4094 18233 18291 31863 31863 0.2417602615303167 RRHLCTENP 9 Unmodified _RRHLCTENP_ 0 0 0 REV__ENST00000471851.1_1_7:5269292-5270538:+|nuORF REV__ENST00000471851.1_1_7:5269292-5270538:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.2839965820312 2 563.282731 1124.55091 3.7697 0.0021234 -0.40879 -0.00023026 3.3609 0.0018931 563.2827376118461 102.41 0.19482 103.01 102.91 103.1 0.59759 14 6 3 0 0 0 1.129 1 47414 47414 1.8442 0.51471 1 817300 + 28262 16610 18234 18292 31864 31864 -0.006383485969081448 RRHLLVWFLLA 11 Unmodified _RRHLLVWFLLA_ 0 0 0 REV__ENSG00000213203|ENST00000307194|GIMAP1 REV__ENSG00000213203|ENST00000307194|GIMAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 712.4379272460938 2 712.437881 1422.86121 NaN NaN NaN NaN NaN NaN NaN 88.32 1 88.998 88.498 89.498 0.67818 0 0 0 1.0082 1 40678 40678 0 0 1 + 28263 14490 18235 18293 31865 31865 0.16669294401413026 RRHRELYSKR 10 Unmodified _RRHRELYSKR_ 0 0 0 REV__ENSG00000213793|ENST00000638862|ZNF888 REV__ENSG00000213793|ENST00000638862|ZNF888 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 700.9039916992188 2 700.902725 1399.7909 NaN NaN NaN NaN NaN NaN NaN 83.228 1 83.273 82.773 83.773 0.045006 0 0 0 0.99464 1 41256 41256 6.2058 0.47393 1 + 28264 14502 18236 18294 31866 31866 0.1069938906562129 RRHRRLHLHFR 11 Unmodified _RRHRRLHLHFR_ 0 0 0 REV__ENSG00000182986|ENST00000682928|ZNF320 REV__ENSG00000182986|ENST00000682928|ZNF320 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 792.4712524414062 2 792.471975 1582.9294 NaN NaN NaN NaN NaN NaN NaN 85.264 1 85.292 84.792 85.792 0.028603 0 0 0 1.008 1 42653 42653 0.30703 0 1 + 28265 13913 18237 18295 31867 31867 0.16124976824607984 RRHRRRRRREG 11 Unmodified _RRHRRRRRREG_ 0 0 0 ENST00000419807.5_3_2:44395715-44396385:+|nuORF ENST00000419807.5_3_2:44395715-44396385:+|nuORF ENST00000419807.5_3_2:44395715-44396385:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.987060546875 3 530.988084 1589.94242 NaN NaN NaN NaN NaN NaN NaN 82.301 1 82.301 81.801 82.801 0 0 0 0 1.0082 1 41150 41150 0.08335 0 1 28266 7747 18238 18296 31868 31868 0.17104807936698307 RRHRRRRRREG 11 Unmodified _RRHRRRRRREG_ 0 0 0 ENST00000419807.5_3_2:44395715-44396385:+|nuORF ENST00000419807.5_3_2:44395715-44396385:+|nuORF ENST00000419807.5_3_2:44395715-44396385:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.2598876953125 3 530.988084 1589.94242 NaN NaN NaN NaN NaN NaN NaN 86.171 1 86.201 85.701 86.701 0.030289 0 0 0 1.0079 1 43284 43284 0.45452 0.37117 1 28267 7747 18238 18296 31869 31869 0.17104807936698307 RRHRRRRRREG 11 Unmodified _RRHRRRRRREG_ 0 0 0 ENST00000419807.5_3_2:44395715-44396385:+|nuORF ENST00000419807.5_3_2:44395715-44396385:+|nuORF ENST00000419807.5_3_2:44395715-44396385:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.8382568359375 3 530.988084 1589.94242 NaN NaN NaN NaN NaN NaN NaN 91.58 1 91.662 91.162 92.162 0.082848 0 0 0 1.0082 1 47501 47501 0.08335 0.08335 1 28268 7747 18238 18296 31870 31870 0.17104807936698307 RRHRRRVQ 8 Unmodified _RRHRRRVQ_ 0 0 0 ENST00000563939.2_1_16:67063920-67070621:+|nuORF ENST00000563939.2_1_16:67063920-67070621:+|nuORF ENST00000563939.2_1_16:67063920-67070621:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.3606567382812 2 582.358288 1162.70202 NaN NaN NaN NaN NaN NaN NaN 5.0164 1 5.3813 4.8813 5.8813 0.36497 0 0 0 0.99035 1 2276 2276 0.69038 0 1 28269 9020 18239 18297 31871 31871 0.12718018616646987 RRHRRRVQ 8 Unmodified _RRHRRRVQ_ 0 0 0 ENST00000563939.2_1_16:67063920-67070621:+|nuORF ENST00000563939.2_1_16:67063920-67070621:+|nuORF ENST00000563939.2_1_16:67063920-67070621:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.35888671875 2 582.358288 1162.70202 NaN NaN NaN NaN NaN NaN NaN 7.9483 1 8.2741 7.7741 8.7741 0.32587 0 0 0 0.99035 1 3574 3574 0.69038 0 1 28270 9020 18239 18297 31872 31872 0.12718018616646987 RRHTSKMR 8 Unmodified _RRHTSKMR_ 0 0 0 ENST00000525294.5_1_6:44102412-44108244:+|nuORF;nc|ENSG00000137216|Q5T3F8-2|TMEM63B;TMEM63B|p.R426Hfs*74|1|0.13|ENSG00000137216|chr6:44148806-44148813|TCCGAGGC/-|frameshift_variant;ENST00000534326.5_1_6:44102273-44116742:+|nuORF;nc|ENSG00000137216|Q5T3F8-3|TMEM63B;ENSG00000137216|ENST00000323267|TMEM63B ENST00000525294.5_1_6:44102412-44108244:+|nuORF ENST00000525294.5_1_6:44102412-44108244:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.8711853027344 3 357.869931 1070.58796 2.2111 0.00079128 0.90064 0.00032231 3.1117 0.0011136 357.87019927613466 62.613 0.377 62.613 62.476 62.853 0 84 47 2 0 0 0 0.74709 1 29344 29344 1.3295 0.36726 1 11696000 28271 3004 18240 18298 31873 31873 0.055493677395361374 RRIFLKLLLTL 11 Unmodified _RRIFLKLLLTL_ 0 0 0 ENST00000299980.8_2_16:71766795-71766843:-|nuORF ENST00000299980.8_2_16:71766795-71766843:-|nuORF ENST00000299980.8_2_16:71766795-71766843:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.6491394042969 3 462.650018 1384.92823 NaN NaN NaN NaN NaN NaN NaN 86.88 1 87.13 86.63 87.63 0.24974 0 0 0 1.0082 1 39992 39992 0.094841 0 1 28272 6790 18241 18299 31874 31874 0.2511590489250466 RRIFLKLLLTL 11 Unmodified _RRIFLKLLLTL_ 0 0 0 ENST00000299980.8_2_16:71766795-71766843:-|nuORF ENST00000299980.8_2_16:71766795-71766843:-|nuORF ENST00000299980.8_2_16:71766795-71766843:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 462.64794921875 3 462.650018 1384.92823 NaN NaN NaN NaN NaN NaN NaN 85.338 1 86.003 85.503 86.503 0.66566 0 0 0 1.0082 1 39298 39298 0.094841 0 1 28273 6790 18241 18299 31875 31875 0.2511590489250466 RRIFRMRI 8 Unmodified _RRIFRMRI_ 0 0 0 REV__ENST00000462715.1_1_1:36602806-36603094:-|nuORF REV__ENST00000462715.1_1_1:36602806-36603094:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.3546142578125 2 574.353294 1146.69204 NaN NaN NaN NaN NaN NaN NaN 10.048 1 10.343 9.8432 10.843 0.2956 0 0 0 0.99035 1 4442 4442 0 0 1 + 28274 10359 18242 18300 31876 31876 0.12455694567051978 RRIIKRTVKKV 11 Unmodified _RRIIKRTVKKV_ 0 0 0 REV__nc|ENSG00000145362|Q01484-5|ANK2 REV__nc|ENSG00000145362|Q01484-5|ANK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 698.6725463867188 2 698.982987 1395.95142 NaN NaN NaN NaN NaN NaN NaN 86.544 1 86.575 86.075 87.075 0.030289 0 0 0 1.0082 1 43577 43577 0 0 1 + 28275 12438 18243 18301 31877 31877 0.2692834372978723 RRIKLSLSW 9 Unmodified _RRIKLSLSW_ 0 0 0 ENST00000382080.5_1_8:15095190-15095259:-|nuORF ENST00000382080.5_1_8:15095190-15095259:-|nuORF ENST00000382080.5_1_8:15095190-15095259:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 579.5259399414062 2 579.858932 1157.70331 NaN NaN NaN NaN NaN NaN NaN 8.0465 1 8.6731 8.1731 9.1731 0.62663 0 0 0 0.91238 1 3630 3630 0.52476 0 1 28276 7490 18244 18302 31878 31878 0.13076795142160336 RRILRRRKIEV 11 Unmodified _RRILRRRKIEV_ 0 0 0 ENSG00000130935|ENST00000253247|NOL11 ENSG00000130935|ENST00000253247|NOL11 ENSG00000130935|ENST00000253247|NOL11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 747.9957885742188 2 747.994417 1493.97428 NaN NaN NaN NaN NaN NaN NaN 24.998 1 25.734 25.234 26.234 0.73623 0 0 0 1.008 1 11210 11210 0.26902 0.26902 1 28277 2628 18245 18303 31879 31879 0.24705362847294055 RRIQEQLRRLK 11 Unmodified _RRIQEQLRRLK_ 0 0 0 ENSG00000122728|ENST00000242310|TAF1L;nc|ENSG00000147133|P21675-23|TAF1;nc|ENSG00000147133|P21675-24|TAF1;nc|ENSG00000147133|P21675-21|TAF1;nc|ENSG00000147133|P21675-15|TAF1;nc|ENSG00000147133|P21675-19|TAF1;nc|ENSG00000147133|P21675-20|TAF1;nc|ENSG00000147133|P21675-13|TAF1;nc|ENSG00000147133|P21675-16|TAF1;nc|ENSG00000147133|P21675-18|TAF1;nc|ENSG00000147133|P21675-22|TAF1;nc|ENSG00000147133|P21675-1|TAF1;ENSG00000147133|ENST00000423759|TAF1;nc|ENSG00000147133|P21675|TAF1;nc|ENSG00000147133|P21675-17|TAF1;nc|ENSG00000147133|P21675-25|TAF1 ENSG00000122728|ENST00000242310|TAF1L;nc|ENSG00000147133|P21675-23|TAF1 ENSG00000122728|ENST00000242310|TAF1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 748.4678955078125 2 748.468232 1494.92191 NaN NaN NaN NaN NaN NaN NaN 89.678 1 89.678 89.178 90.178 0 0 0 0 1.0082 1 46907 46907 0 0 1 28278 2280;3548 18246 18304 31880 31880 0.1942477971365406 RRIREIQKRFR 11 Unmodified _RRIREIQKRFR_ 0 0 0 ENSG00000124074|ENST00000243878|ENKD1 ENSG00000124074|ENST00000243878|ENKD1 ENSG00000124074|ENST00000243878|ENKD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 779.4816284179688 2 779.481674 1556.9488 NaN NaN NaN NaN NaN NaN NaN 22.516 1 22.516 22.016 23.016 0 0 0 0 1.0082 1 10095 10095 0 0 1 28279 2334 18247 18305 31881 31881 0.19259888324836538 RRIRFRKKFV 10 Unmodified _RRIRFRKKFV_ 0 0 0 REV__ENST00000493793.1_1_1:51887572-51887638:-|nuORF REV__ENST00000493793.1_1_1:51887572-51887638:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 703.4557495117188 2 703.454397 1404.89424 NaN NaN NaN NaN NaN NaN NaN 46.919 1 46.919 46.419 47.419 0 0 0 0 1.0015 1 21477 21477 0.40072 0.1317 1 + 28280 16819 18248 18306 31882 31882 0.20798921244090707 RRIRKMLTFK 10 Unmodified _RRIRKMLTFK_ 0 0 0 ENST00000495346.1_1_10:71993524-71993614:-|nuORF ENST00000495346.1_1_10:71993524-71993614:-|nuORF ENST00000495346.1_1_10:71993524-71993614:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.20501708984375 4 337.964409 1347.82853 2.4891 0.00084122 0.0049199 1.6628E-06 2.494 0.00084288 337.96448726985477 41.595 0.1787 42.24 42.1 42.279 0.64451 15 8 2 0 0 0 0.94364 1 18988 18988 0.15932 0.01943 1 1865200 28281 8430 18249 18307 31883 31883 0.16852764006875987 RRIRKRKRRK 10 Unmodified _RRIRKRKRRK_ 0 0 0 REV__ENST00000277225.9_3_9:109625513-109685652:+|nuORF REV__ENST00000277225.9_3_9:109625513-109685652:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 727.0003662109375 2 727.000368 1451.98618 NaN NaN NaN NaN NaN NaN NaN 63.395 1 63.643 63.143 64.143 0.24803 0 0 0 1.002 1 29033 29033 0 0 1 + 28282 15081 18250 18308 31884 31884 0.278270243811221 RRIRRFKQEWL 11 Unmodified _RRIRRFKQEWL_ 0 0 0 ENSG00000019485|ENST00000683152|PRDM11 ENSG00000019485|ENST00000683152|PRDM11 ENSG00000019485|ENST00000683152|PRDM11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 794.4708862304688 2 794.470775 1586.927 NaN NaN NaN NaN NaN NaN NaN 97.308 1 97.308 96.808 97.808 0 0 0 0 1.0082 1 52931 52931 0 0 1 28283 449 18251 18309 31885 31885 0.15701083576323072 RRKARRPAGK 10 Unmodified _RRKARRPAGK_ 0 0 0 REV__ENST00000303460.4_1_12:54379677-54382961:+|nuORF REV__ENST00000303460.4_1_12:54379677-54382961:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.2603454589844 3 399.258406 1194.75339 NaN NaN NaN NaN NaN NaN NaN 61.125 1 61.125 60.625 61.625 0 0 0 0 0.99995 1 28487 28487 1.7423 0 1 + 28284 15210 18252 18310 31886 31886 0.16380342590673536 RRKDRRDRMLR 11 Unmodified _RRKDRRDRMLR_ 0 0 0 ENSG00000198756|ENST00000361927|COLGALT2 ENSG00000198756|ENST00000361927|COLGALT2 ENSG00000198756|ENST00000361927|COLGALT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 779.4525756835938 2 779.452591 1556.89063 NaN NaN NaN NaN NaN NaN NaN 52.242 1 52.904 52.404 53.404 0.66198 0 0 0 1.0082 1 23887 23887 0 0 1 28285 5931 18253 18311 31887 31887 0.1344588340791688 RRKEHQRRFYW 11 Unmodified _RRKEHQRRFYW_ 0 0 0 ENSG00000171044|ENST00000416569|XKR6 ENSG00000171044|ENST00000416569|XKR6 ENSG00000171044|ENST00000416569|XKR6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.6351318359375 3 554.634313 1660.88111 NaN NaN NaN NaN NaN NaN NaN 53.526 1 53.526 53.026 54.026 0 0 0 0 1.008 1 24528 24528 0.073264 0.073264 1 28286 4784 18254 18312 31888 31888 0.07710438394065022 RRKFRPHAAL 10 Unmodified _RRKFRPHAAL_ 0 0 0 REV__nc|ENSG00000100207|Q9UGU0-2|TCF20 REV__nc|ENSG00000100207|Q9UGU0-2|TCF20 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 417.9232482910156 3 417.923024 1250.74724 NaN NaN NaN NaN NaN NaN NaN 110 1 110.29 109.79 110.79 0.29288 0 0 0 1.002 1 50697 50697 0 0 1 + 28287 10810 18255 18313 31889 31889 0.13189824359187696 RRKFYLILKKR 11 Unmodified _RRKFYLILKKR_ 0 0 0 REV__nc|ENSG00000196498|Q9Y618-5|NCOR2 REV__nc|ENSG00000196498|Q9Y618-5|NCOR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 761.0179443359375 2 760.998637 1519.98272 NaN NaN NaN NaN NaN NaN NaN 108.49 1 109.09 108.59 109.59 0.60264 0 0 0 1.008 1 50053 50053 0.30703 0.30703 1 + 28288 14222 18256 18314 31890 31890 0.2435291676390534 RRKGAIIL 8 Unmodified _RRKGAIIL_ 0 0 0 nc|ENSG00000155886|Q9UI40-2|SLC24A2;ENSG00000155886|ENST00000341998|SLC24A2 nc|ENSG00000155886|Q9UI40-2|SLC24A2 nc|ENSG00000155886|Q9UI40-2|SLC24A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 926.6310424804688 1 926.625796 925.618519 4.6489 0.0043077 1.108 0.0010267 5.7569 0.0053345 926.6267561259513 103.29 0.12254 103.61 103.53 103.65 0.31863 12 8 2 0 0 0 0.7471 1 47748 47748 0 0 1 176980 28289 3880 18257 18315 31891 31891 0.15273469396242945 RRKGAIIL 8 Unmodified _RRKGAIIL_ 0 0 0 nc|ENSG00000155886|Q9UI40-2|SLC24A2;ENSG00000155886|ENST00000341998|SLC24A2 nc|ENSG00000155886|Q9UI40-2|SLC24A2 nc|ENSG00000155886|Q9UI40-2|SLC24A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 926.6280517578125 1 926.625796 925.618519 4.0787 0.0037795 0.9782 0.00090642 5.0569 0.0046859 926.6269239850589 103.22 0.11626 103.82 103.76 103.87 0.59821 10 7 2 0 0 0 0.7471 1 47760 47760 0 0 1 188400 28290 3880 18257 18315 31892 31892 0.15273469396242945 RRKGPGAA 8 Unmodified _RRKGPGAA_ 0 0 0 REV__ENSG00000020181|ENST00000412232|ADGRA2 REV__ENSG00000020181|ENST00000412232|ADGRA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.747314453125 2 406.746111 811.477669 3.472 0.0014122 0.20505 8.3402E-05 3.677 0.0014956 406.746061568335 91.816 0.4162 92.068 91.89 92.306 0.25253 44 19 3 0 0 0 0.7471 1 42278 42278 0.79363 0 1 1256600 + 28291 10263 18258 18316 31893 31893 0.06438890742799686 RRKGPSSRPR 10 Unmodified _RRKGPSSRPR_ 0 0 0 ENST00000452079.5_2_1:3663585-3663774:-|nuORF ENST00000452079.5_2_1:3663585-3663774:-|nuORF ENST00000452079.5_2_1:3663585-3663774:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 598.8599243164062 2 598.857786 1195.70102 NaN NaN NaN NaN NaN NaN NaN 12.167 1 12.428 11.928 12.928 0.26154 0 0 0 1.0003 1 5231 5231 1.4819 0 1 28292 8024 18259 18317 31894 31894 0.11099759457079017 RRKHTIAK 8 Unmodified _RRKHTIAK_ 0 0 0 ENST00000556354.5_1_14:23983477-24028046:+|nuORF ENST00000556354.5_1_14:23983477-24028046:+|nuORF ENST00000556354.5_1_14:23983477-24028046:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 337.2185363769531 3 337.217437 1008.63048 NaN NaN NaN NaN NaN NaN NaN 5.836 1 6.1887 5.6887 6.6887 0.35278 0 0 0 0.99035 1 2644 2644 0.45834 0 1 28293 8923 18260 18318 31895 31895 0.12651086139408108 RRKIKGKK 8 Unmodified _RRKIKGKK_ 0 0 0 ENSG00000103994|ENST00000564754|ZNF106;nc|ENSG00000103994|Q9H2Y7|ZNF106;nc|ENSG00000103994|Q9H2Y7-2|ZNF106 ENSG00000103994|ENST00000564754|ZNF106 ENSG00000103994|ENST00000564754|ZNF106 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 338.4706726074219 3 338.573332 1012.69817 NaN NaN NaN NaN NaN NaN NaN 68.468 1 69.171 68.671 69.671 0.70218 0 0 0 0.99035 1 32644 32644 0 0 1 28294 1418 18261 18319 31896 31896 0.19232536070228434 RRKILVKGKKL 11 Unmodified _RRKILVKGKKL_ 0 0 0 ENST00000483685.5_1_2:219487553-219498591:+|nuORF;ENST00000459791.5_1_2:219494200-219498591:+|nuORF;ENST00000473443.5_1_2:219483577-219498591:+|nuORF;ENSG00000115556|ENST00000450993|PLCD4 ENST00000483685.5_1_2:219487553-219498591:+|nuORF ENST00000483685.5_1_2:219487553-219498591:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 446.9873046875 3 446.985513 1337.93471 NaN NaN NaN NaN NaN NaN NaN 74.388 1 74.388 73.888 74.888 0 0 0 0 1.0082 1 36333 36333 0 0 1 28295 1975 18262 18320 31897 31897 0.2792584284388795 RRKKEKKKKHR 11 Unmodified _RRKKEKKKKHR_ 0 0 0 ENST00000592262.1_1_19:33604586-33621063:+|nuORF;ENSG00000076650|ENST00000170564|GPATCH1 ENST00000592262.1_1_19:33604586-33621063:+|nuORF ENST00000592262.1_1_19:33604586-33621063:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.0036926269531 3 508.002337 1520.98518 NaN NaN NaN NaN NaN NaN NaN 29.666 1 30.456 29.956 30.956 0.78921 0 0 0 1.0082 1 13380 13380 0 0 1 28296 9244 18263 18321 31898 31898 0.24552765221551454 RRKKELRRLRK 11 Unmodified _RRKKELRRLRK_ 0 0 0 REV__nc|ENSG00000006283|O43497-34|CACNA1G;REV__nc|ENSG00000100346|Q9P0X4-3|CACNA1I REV__nc|ENSG00000006283|O43497-34|CACNA1G MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 770.0133056640625 2 770.013141 1538.01173 NaN NaN NaN NaN NaN NaN NaN 79.985 1 80.234 79.734 80.734 0.24947 0 0 0 1.0082 1 36828 36828 0 0 1 + 28297 17852;10823 18264 18322 31899 31899 0.2642445411290737 RRKKKKKKKKR 11 Unmodified _RRKKKKKKKKR_ 0 0 0 REV__ENST00000439685.6_1_3:112358751-112359896:-|nuORF;REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 756.660400390625 2 756.544077 1511.0736 NaN NaN NaN NaN NaN NaN NaN 12.759 1 13.021 12.521 13.521 0.26154 0 0 0 1.0082 1 5550 5550 0 0 1 28298 16641;16333 18265 18323 31900 31900 0.3385080553202897 RRKKKKKKRTN 11 Unmodified _RRKKKKKKRTN_ 0 0 0 ENST00000341049.6_1_7:116199659-116199932:+|nuORF ENST00000341049.6_1_7:116199659-116199932:+|nuORF ENST00000341049.6_1_7:116199659-116199932:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 735.9976806640625 2 735.994417 1469.97428 NaN NaN NaN NaN NaN NaN NaN 73.35 1 74.049 73.549 74.549 0.69881 0 0 0 1.0082 1 35355 35355 0 0 1 28299 7069 18266 18324 31901 31901 0.2580936284730342 RRKKKKKKRTN 11 Unmodified _RRKKKKKKRTN_ 0 0 0 ENST00000341049.6_1_7:116199659-116199932:+|nuORF ENST00000341049.6_1_7:116199659-116199932:+|nuORF ENST00000341049.6_1_7:116199659-116199932:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 736.000244140625 2 735.994417 1469.97428 NaN NaN NaN NaN NaN NaN NaN 105.24 1 105.56 105.06 106.06 0.31782 0 0 0 1.0082 1 48582 48582 0 0 1 28300 7069 18266 18324 31902 31902 0.2580936284730342 RRKKKKKYRKK 11 Unmodified _RRKKKKKYRKK_ 0 0 0 REV__ENSG00000166012|ENST00000448108|TAF1D REV__ENSG00000166012|ENST00000448108|TAF1D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 774.0291748046875 2 774.02826 1546.04197 NaN NaN NaN NaN NaN NaN NaN 17.158 1 17.819 17.319 18.319 0.66072 0 0 0 1.0082 1 7738 7738 0 0 1 + 28301 13205 18267 18325 31903 31903 0.29078812778084284 RRKKKLRKL 9 Unmodified _RRKKKLRKL_ 0 0 0 ENST00000429378.5_3_16:242971-256079:-|nuORF ENST00000429378.5_3_16:242971-256079:-|nuORF ENST00000429378.5_3_16:242971-256079:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 613.4414672851562 2 613.438215 1224.86188 NaN NaN NaN NaN NaN NaN NaN 6.6422 1 7.2658 6.7658 7.7658 0.62357 0 0 0 0.91452 1 3009 3009 0 0 1 28302 7833 18268 18326 31904 31904 0.25844133841133043 RRKKKLRKLSL 11 Unmodified _RRKKKLRKLSL_ 0 0 0 ENST00000429378.5_3_16:242971-256079:-|nuORF ENST00000429378.5_3_16:242971-256079:-|nuORF ENST00000429378.5_3_16:242971-256079:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 713.4981079101562 2 713.496262 1424.97797 NaN NaN NaN NaN NaN NaN NaN 93.941 1 93.941 93.441 94.441 0 0 0 0 1.0082 1 50258 50258 0 0 1 28303 7833 18269 18327 31905 31905 0.28248032621195307 RRKKKRKKLCQ 11 Unmodified _RRKKKRKKLCQ_ 0 0 0 ENSG00000170396|ENST00000302277|ZNF804A ENSG00000170396|ENST00000302277|ZNF804A ENSG00000170396|ENST00000302277|ZNF804A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 736.4788818359375 2 736.477546 1470.94054 NaN NaN NaN NaN NaN NaN NaN 77.098 1 77.761 77.261 78.261 0.66303 0 0 0 1.008 1 35528 35528 0.30703 0.30703 1 28304 4747 18270 18328 31906 31906 0.2239061808390943 RRKKKVKKLKA 11 Unmodified _RRKKKVKKLKA_ 0 0 0 REV__INO80|p.L861Sfs*29|1|0.04|ENSG00000128908|chr15:41048271-41048272|-/TTTATAAAATCTTGATAAG|frameshift_variant REV__INO80|p.L861Sfs*29|1|0.04|ENSG00000128908|chr15:41048271-41048272|-/TTTATAAAATCTTGATAAG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 691.9951171875 2 691.993355 1381.97216 NaN NaN NaN NaN NaN NaN NaN 75.878 1 75.878 75.378 76.378 0 0 0 0 1.0082 1 37187 37187 0 0 1 + 28305 11774 18271 18329 31907 31907 0.29644934109501264 RRKKLFKK 8 Unmodified _RRKKLFKK_ 0 0 0 nc|ENSG00000196562|Q8IWU5-2|SULF2;ENSG00000196562|ENST00000688720|SULF2 nc|ENSG00000196562|Q8IWU5-2|SULF2 nc|ENSG00000196562|Q8IWU5-2|SULF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1104.9178466796875 1 1103.75239 1102.74512 3.483 0.0038444 -1.611 -0.0017781 1.8721 0.0020663 1103.749188357606 42.625 0.040054 43.272 43.26 43.3 0.64693 5 4 2 0 0 0 0.7471 1 19532 19532 0 0 1 1742700 28306 5756 18272 18330 31908 31908 0.1978539562135211 RRKKRKKKRKK 11 Unmodified _RRKKRKKKRKK_ 0 0 0 ENST00000216190.12_1_22:36906978-36907630:-|nuORF ENST00000216190.12_1_22:36906978-36907630:-|nuORF ENST00000216190.12_1_22:36906978-36907630:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.0340576171875 3 514.03386 1539.07975 NaN NaN NaN NaN NaN NaN NaN 27.788 1 28.05 27.55 28.55 0.26245 0 0 0 1.0082 1 12636 12636 0 0 1 28307 6405 18273 18331 31909 31909 0.3317732376353888 RRKKRKPKKP 10 Unmodified _RRKKRKPKKP_ 0 0 0 REV__ENST00000590548.5_1_19:11597897-11616622:-|nuORF REV__ENST00000590548.5_1_19:11597897-11616622:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.30706787109375 3 441.305357 1320.89424 NaN NaN NaN NaN NaN NaN NaN 94.963 1 95.223 94.723 95.723 0.25975 0 0 0 1.0019 1 43635 43635 0.13989 0.04505 1 + 28308 17576 18274 18332 31910 31910 0.24662921244112113 RRKKRKPKKPV 11 Unmodified _RRKKRKPKKPV_ 0 0 0 REV__ENST00000590548.5_1_19:11597897-11616622:-|nuORF REV__ENST00000590548.5_1_19:11597897-11616622:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.3274230957031 3 474.328161 1419.96265 NaN NaN NaN NaN NaN NaN NaN 75.429 1 76.093 75.593 76.593 0.6644 0 0 0 1.0082 1 34750 34750 0.094841 0.011491 1 + 28309 17576 18275 18333 31911 31911 0.2694716582395813 RRKKRLRHRVP 11 Unmodified _RRKKRLRHRVP_ 0 0 0 nc|ENSG00000163126|Q86SG2-2|ANKRD23;ENSG00000163126|ENST00000318357|ANKRD23 nc|ENSG00000163126|Q86SG2-2|ANKRD23 nc|ENSG00000163126|Q86SG2-2|ANKRD23 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 751.492431640625 2 751.492376 1500.9702 NaN NaN NaN NaN NaN NaN NaN 52.477 1 52.741 52.241 53.241 0.26345 0 0 0 1.0082 1 23991 23991 0 0 1 28310 4195 18276 18334 31912 31912 0.23975318144221092 RRKKRWRRKKG 11 Unmodified _RRKKRWRRKKG_ 0 0 0 REV__nc|ENSG00000290320|P0DW85|H2BN1 REV__nc|ENSG00000290320|P0DW85|H2BN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.0066528320312 3 519.006193 1553.99675 NaN NaN NaN NaN NaN NaN NaN 62.085 1 62.085 61.585 62.585 0 0 0 0 1.0082 1 29058 29058 0 0 1 + 28311 18173 18277 18335 31913 31913 0.24191007035528855 RRKKVNKF 8 Unmodified _RRKKVNKF_ 0 0 0 REV__ENSG00000114948|ENST00000264377|ADAM23 REV__ENSG00000114948|ENST00000264377|ADAM23 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.8025512695312 2 538.345992 1074.67743 NaN NaN NaN NaN NaN NaN NaN 13.218 1 13.461 12.961 13.961 0.24346 0 0 0 0.99035 1 5763 5763 0.69038 0.69038 1 + 28312 11338 18278 18336 31914 31914 0.14307945690552515 RRKKVRHQRKK 11 Unmodified _RRKKVRHQRKK_ 0 0 0 REV__nc|ENSG00000070047|Q9P1Y6-2|PHRF1 REV__nc|ENSG00000070047|Q9P1Y6-2|PHRF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 760.4976196289062 2 760.497659 1518.98076 NaN NaN NaN NaN NaN NaN NaN 24.519 1 25.255 24.755 25.755 0.73623 0 0 0 1.0082 1 10988 10988 0 0 1 + 28313 10474 18279 18337 31915 31915 0.24203300798649252 RRKLHQRN 8 Unmodified _RRKLHQRN_ 0 0 0 ENST00000459737.5_1_14:56079280-56084690:+|nuORF;KTN1|p.T183Lfs*41|1|0.58|ENSG00000126777|chr14:55616538-55616538|A/-|frameshift_variant ENST00000459737.5_1_14:56079280-56084690:+|nuORF ENST00000459737.5_1_14:56079280-56084690:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.3356323242188 2 554.333947 1106.65334 NaN NaN NaN NaN NaN NaN NaN 84.89 1 85.555 85.055 86.055 0.66566 0 0 0 0.99035 1 39097 39097 0.69038 0.088878 1 28314 8064 18280 18338 31916 31916 0.10428105256892195 RRKLIHDGCLL 11 Unmodified _RRKLIHDGCLL_ 0 0 0 nc|ENSG00000116584|Q92974-3|ARHGEF2;nc|ENSG00000116584|Q92974-2|ARHGEF2;ENSG00000116584|ENST00000361247|ARHGEF2;ENST00000474428.6_1_1:155922555-155932010:-|nuORF nc|ENSG00000116584|Q92974-3|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 441.9290771484375 3 441.927446 1322.76051 2.8026 0.0012386 0.031637 1.3981E-05 2.8343 0.0012525 441.9274313256063 48.604 0.36598 49.431 49.296 49.662 0.82705 47 20 3 0 0 0 0.91028 1 22129 22129 1.4551 0 1 1024100 28315 2034 18281 18339 31917 31917 0.1120389435625384 RRKLIRHYQ 9 Unmodified _RRKLIRHYQ_ 0 0 0 REV__nc|ENSG00000001167|P23511-2|NFYA REV__nc|ENSG00000001167|P23511-2|NFYA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 635.3861694335938 2 635.38618 1268.75781 NaN NaN NaN NaN NaN NaN NaN 92.998 1 93.645 93.145 94.145 0.64714 0 0 0 0.91238 1 42784 42784 0.52476 0.12405 1 + 28316 10153 18282 18340 31918 31918 0.13417807013615857 RRKLKNKRRRS 11 Unmodified _RRKLKNKRRRS_ 0 0 0 nc|ENSG00000139154|Q6ZN18-3|AEBP2;ENSG00000139154|ENST00000266508|AEBP2;nc|ENSG00000139154|Q6ZN18|AEBP2 nc|ENSG00000139154|Q6ZN18-3|AEBP2 nc|ENSG00000139154|Q6ZN18-3|AEBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.99395751953125 3 499.993953 1496.96003 NaN NaN NaN NaN NaN NaN NaN 90.094 1 90.158 89.658 90.658 0.064346 0 0 0 1.0082 1 46339 46339 0 0 1 28317 3131 18283 18341 31919 31919 0.23142710419006107 RRKLKPKIQP 10 Unmodified _RRKLKPKIQP_ 0 0 0 ENSG00000151687|ENST00000684021|ANKAR ENSG00000151687|ENST00000684021|ANKAR ENSG00000151687|ENST00000684021|ANKAR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 632.2056274414062 2 632.422231 1262.82991 NaN NaN NaN NaN NaN NaN NaN 81.506 1 81.506 81.006 82.006 0 0 0 0 1.0001 1 40609 40609 1.6526 0.32309 1 28318 3722 18284 18342 31920 31920 0.2090072136732033 RRKLLAIFFI 10 Unmodified _RRKLLAIFFI_ 0 0 0 ENST00000260665.11_1_2:44175627-44176776:-|nuORF ENST00000260665.11_1_2:44175627-44176776:-|nuORF ENST00000260665.11_1_2:44175627-44176776:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 426.279052734375 3 426.279926 1275.81795 NaN NaN NaN NaN NaN NaN NaN 60.77 1 61.51 61.01 62.01 0.7396 0 0 0 1.0011 1 28094 28094 0.77653 0 1 28319 6547 18285 18343 31921 31921 0.19107104624140447 RRKQKKRRRRM 11 Unmodified _RRKQKKRRRRM_ 0 0 0 REV__ENST00000325083.12_1_8:17815084-17817658:+|nuORF REV__ENST00000325083.12_1_8:17815084-17817658:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 800.0105590820312 2 800.007867 1598.00118 NaN NaN NaN NaN NaN NaN NaN 89.974 1 89.974 89.474 90.474 0 0 0 0 1.0082 1 47151 47151 0 0 1 + 28320 15349 18286 18344 31922 31922 0.22610148186822698 RRKQKKRRRRM 11 Unmodified _RRKQKKRRRRM_ 0 0 0 REV__ENST00000325083.12_1_8:17815084-17817658:+|nuORF REV__ENST00000325083.12_1_8:17815084-17817658:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 800.0062255859375 2 800.007867 1598.00118 NaN NaN NaN NaN NaN NaN NaN 54.941 1 55.607 55.107 56.107 0.6665 0 0 0 1.0082 1 25141 25141 0 0 1 + 28321 15349 18286 18344 31923 31923 0.22610148186822698 RRKRAPPVRV 10 Unmodified _RRKRAPPVRV_ 0 0 0 nc|ENSG00000146414|Q149N8-2|SHPRH;nc|ENSG00000146414|Q149N8-4|SHPRH;ENSG00000146414|ENST00000275233|SHPRH;nc|ENSG00000146414|Q149N8-5|SHPRH nc|ENSG00000146414|Q149N8-2|SHPRH nc|ENSG00000146414|Q149N8-2|SHPRH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 412.2716369628906 3 412.270424 1233.78944 NaN NaN NaN NaN NaN NaN NaN 45.758 1 45.758 45.258 46.258 0 0 0 0 1.0003 1 20932 20932 0.62683 0 1 28322 3516 18287 18345 31924 31924 0.18189799767537806 RRKRFKRQPLL 11 Unmodified _RRKRFKRQPLL_ 0 0 0 ENSG00000251493|ENST00000615637|FOXD1 ENSG00000251493|ENST00000615637|FOXD1 ENSG00000251493|ENST00000615637|FOXD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 749.0371704101562 2 749.483686 1496.95282 NaN NaN NaN NaN NaN NaN NaN 82.375 1 82.375 81.875 82.875 0 0 0 0 1.0082 1 41218 41218 0 0 1 28323 6268 18288 18346 31925 31925 0.22421977818612504 RRKRFVLCLII 11 Unmodified _RRKRFVLCLII_ 0 0 0 ENST00000233557.7_1_2:27656618-27656883:+|nuORF ENST00000233557.7_1_2:27656618-27656883:+|nuORF ENST00000233557.7_1_2:27656618-27656883:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 355.23175048828125 4 354.980059 1415.89113 2.4369 0.00086506 0.62238 0.00022093 3.0593 0.001086 354.9802186017736 50.163 0.47013 50.985 50.832 51.302 0.82285 68 22 5 0 0 0 0.91459 1 22848 22848 0.094841 0 1 8180000 28324 6451 18289 18347 31926 31926 0.19981910075125597 RRKRFVLCLII 11 Unmodified _RRKRFVLCLII_ 0 0 0 ENST00000233557.7_1_2:27656618-27656883:+|nuORF ENST00000233557.7_1_2:27656618-27656883:+|nuORF ENST00000233557.7_1_2:27656618-27656883:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 354.980059 1415.89113 2.7994 0.00099372 -0.6885 -0.00024441 2.1109 0.00074931 354.98031669309455 51.149 0.053539 51.149 51.113 51.167 0 0.081743 -0.0018058 NaN 0.094841 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 181220 28325 6451 18289 18347 0.19981910075125597 RRKRGRKKKLV 11 Unmodified _RRKRGRKKKLV_ 0 0 0 REV__nc|ENSG00000156650|Q8WYB5-3|KAT6B REV__nc|ENSG00000156650|Q8WYB5-3|KAT6B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 712.9927368164062 2 712.991678 1423.9688 NaN NaN NaN NaN NaN NaN NaN 43.174 1 43.989 43.489 44.489 0.81444 0 0 0 1.008 1 19650 19650 0.30703 0.30703 1 + 28326 12779 18290 18348 31927 31927 0.273776840554774 RRKRHKKHKNG 11 Unmodified _RRKRHKKHKNG_ 0 0 0 REV__ENSG00000122257|ENST00000319715|RBBP6 REV__ENSG00000122257|ENST00000319715|RBBP6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 482.300537109375 3 482.299265 1443.87596 2.8101 0.0013553 0.14654 7.0678E-05 2.9566 0.001426 482.29926410428465 101.21 0.086914 101.21 101.17 101.26 0 6 2 3 0 0 0 0.91459 1 55940 55940 0.094841 0 1 9672200 + 28327 11580 18291 18349 31928 31928 0.17178179322127107 RRKRHKYFIRK 11 Unmodified _RRKRHKYFIRK_ 0 0 0 REV__nc|nan|F2Z3F1|C5orf67 REV__nc|nan|F2Z3F1|C5orf67 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1588.361328125 1 1587.98189 1586.97462 3.3975 0.0053951 1.3577 0.002156 4.7552 0.0075511 1587.9845486898057 57.308 0.084373 57.976 57.957 58.041 0.66829 12 9 2 0 0 0 0.13295 1 26217 26217 0 0 1 10441000 + 28328 18182 18292 18350 31929 31929 0.20460782567147362 RRKRIPEQK 9 Unmodified _RRKRIPEQK_ 0 0 0 REV__ENST00000407916.2_1_7:55002243-55002453:+|nuORF REV__ENST00000407916.2_1_7:55002243-55002453:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 404.2552185058594 3 404.254551 1209.74182 NaN NaN NaN NaN NaN NaN NaN 29.655 1 30.272 29.772 30.772 0.61789 0 0 0 0.91059 1 13600 13600 0.96228 0 1 + 28329 16082 18293 18351 31930 31930 0.14534100776677406 RRKRKKHRELI 11 Unmodified _RRKRKKHRELI_ 0 0 0 ENSG00000122728|ENST00000242310|TAF1L ENSG00000122728|ENST00000242310|TAF1L ENSG00000122728|ENST00000242310|TAF1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 760.517822265625 2 760.492042 1518.96953 NaN NaN NaN NaN NaN NaN NaN 93.026 1 93.112 92.612 93.612 0.086212 0 0 0 1.0082 1 48641 48641 0 0 1 28330 2280 18294 18352 31931 31931 0.23080478704559937 RRKRKKKKK 9 Unmodified _RRKRKKKKK_ 0 0 0 REV__ENSG00000116273|ENST00000377648|PHF13 REV__ENSG00000116273|ENST00000377648|PHF13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 628.4476928710938 2 628.449114 1254.88368 NaN NaN NaN NaN NaN NaN NaN 41.334 1 41.334 40.834 41.834 0 0 0 0 0.90611 1 18784 18784 2.0598 0 1 + 28331 11403 18295 18353 31932 31932 0.26642938589679943 RRKRKMQRWRL 11 Unmodified _RRKRKMQRWRL_ 0 0 0 REV__ENST00000229214.8_1_12:75893569-75893638:-|nuORF REV__ENST00000229214.8_1_12:75893569-75893638:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 807.4922485351562 2 807.491519 1612.96848 NaN NaN NaN NaN NaN NaN NaN 63.761 1 64.484 63.984 64.984 0.72211 0 0 0 1.0082 1 29907 29907 0 0 1 + 28332 14847 18296 18354 31933 31933 0.18651941063990307 RRKRLRHRGR 10 Unmodified _RRKRLRHRGR_ 0 0 0 nc|ENSG00000088053|Q9HCN6-2|GP6;nc|ENSG00000088053|Q9HCN6|GP6 nc|ENSG00000088053|Q9HCN6-2|GP6 nc|ENSG00000088053|Q9HCN6-2|GP6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 348.476806640625 4 348.476435 1389.87663 2.3371 0.00081441 -0.24519 -8.5444E-05 2.0919 0.00072896 348.72703448254435 40.034 0.72789 40.834 40.198 40.926 0.80014 98 40 3 0 0 0 0.94364 1 18066 18066 0.15932 0.064481 1 1730900 28333 9571 18297 18355 31934 31934 0.19729018761813677 RRKRLRHRGRA 11 Unmodified _RRKRLRHRGRA_ 0 0 0 nc|ENSG00000088053|Q9HCN6-2|GP6;nc|ENSG00000088053|Q9HCN6|GP6 nc|ENSG00000088053|Q9HCN6-2|GP6 nc|ENSG00000088053|Q9HCN6-2|GP6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.23828125 4 366.235713 1460.91375 2.3165 0.00084839 1.9772 0.00072412 4.2937 0.0015725 366.2371905380282 44.636 0.8249 45.456 45.029 45.854 0.82075 82 40 3 0 0 0 0.91462 1 20500 20500 0.08335 0.08335 1 1882400 28334 9571 18298 18356 31935 31935 0.20172690307572338 RRKRLRHRGRA 11 Unmodified _RRKRLRHRGRA_ 0 0 0 nc|ENSG00000088053|Q9HCN6-2|GP6;nc|ENSG00000088053|Q9HCN6|GP6 nc|ENSG00000088053|Q9HCN6-2|GP6 nc|ENSG00000088053|Q9HCN6-2|GP6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.2379150390625 4 366.235713 1460.91375 2.5204 0.00092304 2.275 0.0008332 4.7954 0.0017562 366.23742756002133 45.285 0.74762 45.553 45.12 45.868 0.26768 78 31 4 0 0 0 0.91359 1 20669 20669 0.40827 0 1 2240600 28335 9571 18298 18356 31936 31936 0.20172690307572338 RRKRRFRLLE 10 Unmodified _RRKRRFRLLE_ 0 0 0 REV__ENSG00000145888|ENST00000274576|GLRA1 REV__ENSG00000145888|ENST00000274576|GLRA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 715.5076293945312 2 715.452385 1428.89022 NaN NaN NaN NaN NaN NaN NaN 99.903 1 100.5 100 101 0.59717 0 0 0 1.002 1 46226 46226 0 0 1 + 28336 12459 18299 18357 31937 31937 0.19292831750431105 RRKRRLFQLYL 11 Unmodified _RRKRRLFQLYL_ 0 0 0 REV__ENST00000491710.5_3_6:12015770-12015848:+|nuORF REV__ENST00000491710.5_3_6:12015770-12015848:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 774.9845581054688 2 774.983518 1547.95248 NaN NaN NaN NaN NaN NaN NaN 103.74 1 103.79 103.29 104.29 0.052994 0 0 0 1.0082 1 56218 56218 0 0 1 + 28337 16804 18300 18358 31938 31938 0.20042558098748486 RRKRRMKVKKK 11 Unmodified _RRKRRMKVKKK_ 0 0 0 REV__ENST00000538503.5_1_12:121878388-121880774:-|nuORF REV__ENST00000538503.5_1_12:121878388-121880774:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 757.507080078125 2 757.506638 1512.99872 NaN NaN NaN NaN NaN NaN NaN 96.134 1 96.134 95.634 96.634 0 0 0 0 1.0082 1 51946 51946 0 0 1 + 28338 10690 18301 18359 31939 31939 0.26274299729152517 RRKRRMKVKKK 11 Unmodified _RRKRRMKVKKK_ 0 0 0 REV__ENST00000538503.5_1_12:121878388-121880774:-|nuORF REV__ENST00000538503.5_1_12:121878388-121880774:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 757.5084838867188 2 757.506638 1512.99872 NaN NaN NaN NaN NaN NaN NaN 55.66 1 56.447 55.947 56.947 0.78711 0 0 0 1.0082 1 25418 25418 0 0 1 + 28339 10690 18301 18359 31940 31940 0.26274299729152517 RRKRRMKVKKK 11 Unmodified _RRKRRMKVKKK_ 0 0 0 REV__ENST00000538503.5_1_12:121878388-121880774:-|nuORF REV__ENST00000538503.5_1_12:121878388-121880774:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 757.5086059570312 2 757.506638 1512.99872 NaN NaN NaN NaN NaN NaN NaN 63.71 1 63.958 63.458 64.458 0.24803 0 0 0 1.0082 1 29179 29179 0 0 1 + 28340 10690 18301 18359 31941 31941 0.26274299729152517 RRKRRPPRPRS 11 Unmodified _RRKRRPPRPRS_ 0 0 0 REV__nc|ENSG00000158321|Q8WXX7-3|AUTS2 REV__nc|ENSG00000158321|Q8WXX7-3|AUTS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.97650146484375 3 487.974781 1460.90251 3.4127 0.0016653 -0.24546 -0.00011978 3.1672 0.0015455 487.974778340445 101.04 0.085426 101.64 101.59 101.67 0.59717 8 3 3 0 0 0 0.91465 1 46795 46795 0.073264 0.073264 1 1441000 + 28341 12821 18302 18360 31942 31942 0.19049868213437549 RRKRRPPRPRS 11 Unmodified _RRKRRPPRPRS_ 0 0 0 REV__nc|ENSG00000158321|Q8WXX7-3|AUTS2 REV__nc|ENSG00000158321|Q8WXX7-3|AUTS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.976806640625 3 487.974781 1460.90251 NaN NaN NaN NaN NaN NaN NaN 101.09 1 101.69 101.19 102.19 0.59717 0 0 0 1.0079 1 46806 46806 0.40827 0.32491 1 + 28342 12821 18302 18360 31943 31943 0.19049868213437549 RRKRRQEEWEK 11 Unmodified _RRKRRQEEWEK_ 0 0 0 ENSG00000172775|ENST00000309137|PSME3IP1 ENSG00000172775|ENST00000309137|PSME3IP1 ENSG00000172775|ENST00000309137|PSME3IP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 800.9432983398438 2 800.942579 1599.8706 NaN NaN NaN NaN NaN NaN NaN 73.055 1 73.055 72.555 73.555 0 0 0 0 1.0082 1 35569 35569 0 0 1 28343 4892 18303 18361 31944 31944 0.0946641094901679 RRKRRQGWL 9 Unmodified _RRKRRQGWL_ 0 0 0 ENST00000601072.1_1_19:53703894-53707275:+|nuORF ENST00000601072.1_1_19:53703894-53707275:+|nuORF ENST00000601072.1_1_19:53703894-53707275:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 628.385009765625 2 628.383971 1254.75339 3.9708 0.0024952 -1.5558 -0.00097763 2.415 0.0015175 628.3830225556386 89.208 0.46672 89.886 89.565 90.031 0.67818 34 19 2 0 0 0 1.2078 2 41000 41000;41061 0.6015 0 1 805570 28344 9300 18304 18362 31945;31946 31945 0.1362034259068423 RRKRRRFYARL 11 Unmodified _RRKRRRFYARL_ 0 0 0 ENST00000565493.1_1_20:34637734-34637854:-|nuORF ENST00000565493.1_1_20:34637734-34637854:-|nuORF ENST00000565493.1_1_20:34637734-34637854:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.6614990234375 3 526.662314 1576.96511 NaN NaN NaN NaN NaN NaN NaN 87.804 1 87.804 87.304 88.304 0 0 0 0 1.0073 1 45391 45391 0.40827 0.32491 1 28345 9045 18305 18363 31947 31947 0.19971014281645694 RRKRRRKKNKR 11 Unmodified _RRKRRRKKNKR_ 0 0 0 ENST00000321521.13_1_5:102544671-102544749:+|nuORF ENST00000321521.13_1_5:102544671-102544749:+|nuORF ENST00000321521.13_1_5:102544671-102544749:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 791.5283203125 2 791.527282 1581.04001 NaN NaN NaN NaN NaN NaN NaN 53.169 1 53.973 53.473 54.473 0.80351 0 0 0 1.008 1 24244 24244 0.30703 0 1 28346 6930 18306 18364 31948 31948 0.27273196812848255 RRKRRRMKKKK 11 Unmodified _RRKRRRMKKKK_ 0 0 0 ENST00000235372.11_1_1:14105080-14105206:+|nuORF ENST00000235372.11_1_1:14105080-14105206:+|nuORF ENST00000235372.11_1_1:14105080-14105206:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 786.0245971679688 2 786.022986 1570.03142 NaN NaN NaN NaN NaN NaN NaN 61.959 1 62.69 62.19 63.19 0.73077 0 0 0 1.0082 1 28808 28808 0 0 1 28347 6462 18307 18365 31949 31949 0.2692050685200229 RRKRTKFLLKL 11 Unmodified _RRKRTKFLLKL_ 0 0 0 REV__ENST00000308478.9_1_7:110731416-110762496:+|nuORF REV__ENST00000308478.9_1_7:110731416-110762496:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 729.9764404296875 2 729.990812 1457.96707 NaN NaN NaN NaN NaN NaN NaN 98.807 1 98.873 98.373 99.373 0.066025 0 0 0 1.0082 1 53231 53231 0 0 1 + 28348 15242 18308 18366 31950 31950 0.2564063024690313 RRKRTKFLLKL 11 Unmodified _RRKRTKFLLKL_ 0 0 0 REV__ENST00000308478.9_1_7:110731416-110762496:+|nuORF REV__ENST00000308478.9_1_7:110731416-110762496:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 729.9908447265625 2 729.990812 1457.96707 NaN NaN NaN NaN NaN NaN NaN 45.61 1 45.878 45.378 46.378 0.26768 0 0 0 1.0082 1 20850 20850 0 0 1 + 28349 15242 18308 18366 31951 31951 0.2564063024690313 RRKRTRWLRRG 11 Unmodified _RRKRTRWLRRG_ 0 0 0 REV__ENST00000433071.2_1_21:32931573-32932426:+|nuORF REV__ENST00000433071.2_1_21:32931573-32932426:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 770.9804077148438 2 770.979633 1539.94471 NaN NaN NaN NaN NaN NaN NaN 88.751 1 89.002 88.502 89.502 0.25118 0 0 0 1.0082 1 40835 40835 0.30703 0.30703 1 + 28350 16277 18309 18367 31952 31952 0.19633843621795677 RRKTKRKKRKQ 11 Unmodified _RRKTKRKKRKQ_ 0 0 0 REV__ENST00000415149.6_1_3:107429416-107435478:+|nuORF REV__ENST00000415149.6_1_3:107429416-107435478:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 757.0061645507812 2 757.005316 1511.99608 NaN NaN NaN NaN NaN NaN NaN 83.711 1 83.958 83.458 84.458 0.24722 0 0 0 1.0082 1 38531 38531 0 0 1 + 28351 16127 18310 18368 31953 31953 0.26056167595857005 RRKVEEIKAEL 11 Unmodified _RRKVEEIKAEL_ 0 0 0 ALMS1|p.V2785Sfs*8|1|0.2|ENSG00000116127|chr2:73490309-73490310|-/A|frameshift_variant;nc|ENSG00000116127|Q8TCU4-3|ALMS1;nc|ENSG00000116127|Q8TCU4-2|ALMS1;ENSG00000116127|ENST00000613296|ALMS1 ALMS1|p.V2785Sfs*8|1|0.2|ENSG00000116127|chr2:73490309-73490310|-/A|frameshift_variant ALMS1|p.V2785Sfs*8|1|0.2|ENSG00000116127|chr2:73490309-73490310|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.944580078125 3 457.608659 1369.80415 3.4933 0.0015986 -0.79044 -0.00036171 2.7029 0.0012369 457.60823584062376 95.514 1.4489 95.781 95.139 96.588 0.2675 193 82 3 0 0 0 0.91391 1 43770 43770 0.08335 0 1 1246800 28352 25 18311 18369 31954 31954 0.1340378233435331 RRKVFMNVYFW 11 Unmodified _RRKVFMNVYFW_ 0 0 0 nc|ENSG00000101158|Q8IXH7-3|NELFCD;ENST00000482747.1_1_20:57556337-57564148:+|nuORF nc|ENSG00000101158|Q8IXH7-3|NELFCD nc|ENSG00000101158|Q8IXH7-3|NELFCD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.9417114257812 3 515.943096 1544.80746 NaN NaN NaN NaN NaN NaN NaN 79.874 1 80.123 79.623 80.623 0.24947 0 0 0 1.0082 1 36777 36777 0.094841 0.011491 1 28353 8305 18312 18370 31955 31955 0.05684753907371487 RRKWIRYRRYK 11 Unmodified _RRKWIRYRRYK_ 0 0 0 nc|ENSG00000205356|Q7Z6L1-3|TECPR1;ENSG00000205356|ENST00000447648|TECPR1;nc|ENSG00000205356|Q7Z6L1-2|TECPR1;nc|ENSG00000205356|Q7Z6L1-4|TECPR1 nc|ENSG00000205356|Q7Z6L1-3|TECPR1 nc|ENSG00000205356|Q7Z6L1-3|TECPR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 841.0060424804688 2 841.005316 1679.99608 NaN NaN NaN NaN NaN NaN NaN 55.405 1 56.073 55.573 56.573 0.66798 0 0 0 1.0082 1 25345 25345 0 0 1 28354 6047 18313 18371 31956 31956 0.18328167595859668 RRKWLRISP 9 Unmodified _RRKWLRISP_ 0 0 0 ENST00000023939.8_1_20:55043665-55043737:+|nuORF ENST00000023939.8_1_20:55043665-55043737:+|nuORF ENST00000023939.8_1_20:55043665-55043737:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.6940002441406 4 303.69255 1210.74109 2.2015 0.00066857 0.28797 8.7456E-05 2.4894 0.00075602 303.6925165727334 34.774 0.42857 35.563 35.485 35.914 0.78921 42 29 2 0 0 0 0.11293 1 15724 15724 2.4985 0.75621 1 516260 28355 6376 18314 18372 31957 31957 0.14415306127648364 RRKYERKREER 11 Unmodified _RRKYERKREER_ 0 0 0 ENSG00000100380|ENST00000216218|ST13 ENSG00000100380|ENST00000216218|ST13 ENSG00000100380|ENST00000216218|ST13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 803.4586791992188 2 803.455853 1604.89715 NaN NaN NaN NaN NaN NaN NaN 83.673 1 83.702 83.202 84.202 0.028603 0 0 0 1.0082 1 41581 41581 0 0 1 28356 1213 18315 18373 31958 31958 0.11890099840320545 RRKYRREWWCP 11 Unmodified _RRKYRREWWCP_ 0 0 0 REV__ENST00000492991.5_1_9:132595938-132597442:-|nuORF REV__ENST00000492991.5_1_9:132595938-132597442:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 818.4259643554688 2 818.42551 1634.83647 NaN NaN NaN NaN NaN NaN NaN 63.888 1 63.888 63.388 64.388 0 0 0 0 1.0082 1 30137 30137 0 0 1 + 28357 16813 18316 18374 31959 31959 0.044442912563908976 RRKYRREWWCP 11 Unmodified _RRKYRREWWCP_ 0 0 0 REV__ENST00000492991.5_1_9:132595938-132597442:-|nuORF REV__ENST00000492991.5_1_9:132595938-132597442:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 818.4264526367188 2 818.42551 1634.83647 NaN NaN NaN NaN NaN NaN NaN 67.542 1 68.244 67.744 68.744 0.70218 0 0 0 1.0082 1 32130 32130 0 0 1 + 28358 16813 18316 18374 31960 31960 0.044442912563908976 RRKYWFLNRRL 11 Unmodified _RRKYWFLNRRL_ 0 0 0 nc|ENSG00000171634|Q12830-4|BPTF;BPTF|p.A3017Efs*15|1|0.04|ENSG00000171634|chr17:67975903-67975904|-/AATATTCT|frameshift_variant;ENSG00000171634|ENST00000306378|BPTF;nc|ENSG00000171634|Q12830|BPTF nc|ENSG00000171634|Q12830-4|BPTF nc|ENSG00000171634|Q12830-4|BPTF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 804.4740600585938 2 804.473318 1606.93208 NaN NaN NaN NaN NaN NaN NaN 88.953 1 89.005 88.505 89.505 0.052155 0 0 0 1.0082 1 45466 45466 0 0 1 28359 87 18317 18375 31961 31961 0.15289387438929225 RRLAAPRLPSL 11 Unmodified _RRLAAPRLPSL_ 0 0 0 REV__ENST00000536896.2_1_1:26146746-26147157:-|nuORF REV__ENST00000536896.2_1_1:26146746-26147157:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 417.2674865722656 3 417.266568 1248.77787 NaN NaN NaN NaN NaN NaN NaN 71.232 1 71.232 70.732 71.732 0 0 0 0 1.0061 1 34620 34620 1.1098 0 1 + 28360 17183 18318 18376 31962 31962 0.16343557953564414 RRLARSWG 8 Unmodified _RRLARSWG_ 0 0 0 REV__ENST00000512687.5_1_5:68530748-68551520:+|nuORF REV__ENST00000512687.5_1_5:68530748-68551520:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.2925109863281 2 501.291217 1000.56788 4.0603 0.0020354 -0.62305 -0.00031233 3.4372 0.0017231 501.2904583114255 102.04 0.17672 102.36 102.26 102.44 0.31737 11 5 3 0 0 0 0.74071 1 47210 47210 2.5775 0 1 1537000 + 28361 16982 18319 18377 31963 31963 0.06761940071237404 RRLCFFFFFFF 11 Unmodified _RRLCFFFFFFF_ 0 0 0 REV__ENST00000557320.5_1_14:96999700-97000015:+|nuORF REV__ENST00000557320.5_1_14:96999700-97000015:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 789.2862548828125 2 788.899743 1575.78493 NaN NaN NaN NaN NaN NaN NaN 80.842 1 80.842 80.342 81.342 0 0 0 0 1.008 1 40223 40223 0.35063 0 1 + 28362 17332 18320 18378 31964 31964 0.020071545097380294 RRLDPELSL 9 Unmodified _RRLDPELSL_ 0 0 0 ENSG00000161328|ENST00000270115|LRRC56 ENSG00000161328|ENST00000270115|LRRC56 ENSG00000161328|ENST00000270115|LRRC56 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.88201904296875 3 366.880379 1097.61931 2.6274 0.00096393 0.64861 0.00023796 3.276 0.0012019 366.8806845150698 16.704 0.82815 17.362 16.696 17.524 0.65798 132 92 2 0 0 0 1.1849 1 7457 7457 0.96228 0 1 86350 28363 4098 18321 18379 31965 31965 0.07440219254635849 RRLDSLNGKKI 11 Unmodified _RRLDSLNGKKI_ 0 0 0 ENST00000544492.5_1_13:49076918-49089862:-|nuORF;nc|ENSG00000136161|O95199-2|RCBTB2;ENSG00000136161|ENST00000344532|RCBTB2 ENST00000544492.5_1_13:49076918-49089862:-|nuORF ENST00000544492.5_1_13:49076918-49089862:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 650.3993530273438 2 650.39641 1298.77827 4.2799 0.0027836 -0.45446 -0.00029558 3.8254 0.002488 650.3962701297736 91.809 1.5567 92.061 91.527 93.084 0.25253 141 77 3 0 0 0 0.91359 1 42176 42176 0.26902 0 1 1576200 28364 2929 18322 18380 31966 31966 0.14082932882729438 RRLFKKIWIF 10 Unmodified _RRLFKKIWIF_ 0 0 0 ENST00000541657.5_3_12:122240596-122240792:-|nuORF;ENST00000541694.5_1_12:122240596-122240713:-|nuORF;ENST00000536662.5_1_12:122240596-122240785:-|nuORF ENST00000541657.5_3_12:122240596-122240792:-|nuORF ENST00000541657.5_3_12:122240596-122240792:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.5511779785156 4 352.475038 1405.87105 2.3538 0.00082964 -0.63149 -0.00022259 1.7223 0.00060706 352.47489260587156 38.443 0.1288 38.707 38.63 38.758 0.26408 5 3 2 0 0 0 0.12676 1 17509 17509 0 0 1 328930 28365 8771 18323 18381 31967 31967 0.18434482406769348 RRLFRERYRLH 11 Unmodified _RRLFRERYRLH_ 0 0 0 ENSG00000184292|ENST00000371225|TACSTD2 ENSG00000184292|ENST00000371225|TACSTD2 ENSG00000184292|ENST00000371225|TACSTD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 801.4663696289062 2 801.466024 1600.9175 NaN NaN NaN NaN NaN NaN NaN 85.073 1 85.073 84.573 85.573 0 0 0 0 1.0082 1 43218 43218 0 0 1 28366 5431 18324 18382 31968 31968 0.14107315290789302 RRLFRGPRRKK 11 Unmodified _RRLFRGPRRKK_ 0 0 0 ENSG00000284188|ENST00000640271|unknown ENSG00000284188|ENST00000640271|unknown ENSG00000284188|ENST00000640271|unknown MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 735.4006958007812 2 735.473652 1468.93275 NaN NaN NaN NaN NaN NaN NaN 25.668 1 26.431 25.931 26.931 0.76356 0 0 0 1.0082 1 11523 11523 0 0 1 28367 6373 18325 18383 31969 31969 0.21704226878614463 RRLGCLLERLP 11 Unmodified _RRLGCLLERLP_ 0 0 0 ENSG00000253117|ENST00000254627|OC90;nc|ENSG00000253117|Q02509-3|OC90 ENSG00000253117|ENST00000254627|OC90 ENSG00000253117|ENST00000254627|OC90 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 442.600830078125 3 442.599329 1324.77616 2.7187 0.0012033 0.66726 0.00029533 3.386 0.0014986 442.5994608099235 46.363 1.3255 46.363 45.711 47.037 0 165 62 3 0 0 0 0.89309 1 21403 21403 1.1098 1.1098 1 2490300 28368 6269 18326 18384 31970 31970 0.12676180873290832 RRLGRVRIRLL 11 Unmodified _RRLGRVRIRLL_ 0 0 0 REV__ENST00000518385.5_3_8:97506087-97614626:+|nuORF REV__ENST00000518385.5_3_8:97506087-97614626:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 704.4786987304688 2 704.478403 1406.94225 NaN NaN NaN NaN NaN NaN NaN 35.151 1 35.943 35.443 36.443 0.79131 0 0 0 1.0082 1 15929 15929 0 0 1 + 28369 15195 18327 18385 31971 31971 0.2550599516416696 RRLHRRRRGR 10 Unmodified _RRLHRRRRGR_ 0 0 0 ENST00000379162.8_1_X:24483408-24483594:+|nuORF ENST00000379162.8_1_X:24483408-24483594:+|nuORF ENST00000379162.8_1_X:24483408-24483594:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 709.9484252929688 2 709.948667 1417.88278 NaN NaN NaN NaN NaN NaN NaN 41.278 1 41.923 41.423 42.423 0.64451 0 0 0 1.002 1 18882 18882 0 0 1 28370 7447 18328 18386 31972 31972 0.19055536993300848 RRLIVKQFFY 10 Unmodified _RRLIVKQFFY_ 0 0 0 REV__nc|ENSG00000197134|Q9Y2Q1-4|ZNF257 REV__nc|ENSG00000197134|Q9Y2Q1-4|ZNF257 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 343.1994323730469 4 343.208033 1368.80303 2.1992 0.00075477 1.4342 0.00049223 3.6334 0.001247 343.20870752309565 47.018 0.19454 47.848 47.735 47.93 0.82915 14 11 2 0 0 0 0.12676 1 21384 21384 0.77653 0.078866 1 342570 + 28371 14259 18329 18387 31973 31973 0.13337612756117778 RRLIVRKDRHL 11 Unmodified _RRLIVRKDRHL_ 0 0 0 ENSG00000066279|ENST00000367409|ASPM;nc|ENSG00000066279|Q8IZT6-2|ASPM ENSG00000066279|ENST00000367409|ASPM ENSG00000066279|ENST00000367409|ASPM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.2391052246094 4 366.236385 1460.91643 2.3165 0.00084839 0.14412 5.2783E-05 2.4606 0.00090117 366.2371905380282 44.636 0.8249 45.456 45.029 45.854 0.82075 82 40 3 0 0 0 0.91391 1 20205 20205 0.08335 0 1 1882400 28372 703 18330 18388 31974 31974 0.20441100921880206 RRLKKKKLIKV 11 Unmodified _RRLKKKKLIKV_ 0 0 0 REV__ENST00000586358.5_1_19:1207098-1220516:+|nuORF REV__ENST00000586358.5_1_19:1207098-1220516:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 705.51171875 2 705.51138 1409.00821 NaN NaN NaN NaN NaN NaN NaN 57.932 1 58.601 58.101 59.101 0.66829 0 0 0 1.0082 1 26512 26512 0 0 1 + 28373 11460 18331 18389 31975 31975 0.3200639128633611 RRLKKLCRPLP 11 Unmodified _RRLKKLCRPLP_ 0 0 0 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1;ENSG00000141219|ENST00000535032|C17orf80 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.72589111328125 4 345.724958 1378.87073 2.3482 0.00081184 0.8683 0.00030019 3.2165 0.001112 345.7252022051797 45.377 0.70904 45.377 45.226 45.935 0 76 34 4 0 0 0 0.91345 1 20778 20778 0.45452 0.046251 1 1746400 28374 3240 18332 18390 31976 31976 0.1964473941527558 RRLKKLCRPLP 11 Unmodified _RRLKKLCRPLP_ 0 0 0 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1;ENSG00000141219|ENST00000535032|C17orf80 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 460.2043151855469 3 460.630852 1378.87073 2.6695 0.0012297 1.1163 0.0005142 3.7858 0.0017439 460.6313275957628 45.596 0.67127 45.596 45.241 45.912 0 51 32 3 0 0 0 0.13295 1 20767 20767 0.094841 0.094841 1 624050 28375 3240 18332 18390 31977 31977 0.1964473941527558 RRLKKLCRPLP 11 Unmodified _RRLKKLCRPLP_ 0 0 0 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1;ENSG00000141219|ENST00000535032|C17orf80 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 345.7259826660156 4 345.724958 1378.87073 2.2628 0.00078229 0.49825 0.00017226 2.761 0.00095455 345.72509858797457 44.59 0.58002 45.411 45.149 45.729 0.82075 87 28 4 0 0 0 0.91068 1 20290 20290 1.3296 0.11481 1 2636800 28376 3240 18332 18390 31978 31978 0.1964473941527558 RRLKKLCRPLP 11 Unmodified _RRLKKLCRPLP_ 0 0 0 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1;ENSG00000141219|ENST00000535032|C17orf80 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 345.72589111328125 4 345.724958 1378.87073 2.2963 0.00079389 0.79797 0.00027588 3.0943 0.0010698 345.97597584392986 45.985 0.25176 46.811 46.763 47.015 0.82621 28 10 3 0 0 0 0.91345 1 20985 20985 0.45452 0.45452 1 2305100 28377 3240 18332 18390 31979 31979 0.1964473941527558 RRLKKLCRPLP 11 Unmodified _RRLKKLCRPLP_ 0 0 0 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1;ENSG00000141219|ENST00000535032|C17orf80 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 345.9767150878906 4 345.724958 1378.87073 2.2742 0.00078623 0.70938 0.00024525 2.9835 0.0010315 345.7252939968091 46.302 0.23378 47.131 46.964 47.198 0.82915 26 11 4 0 0 0 0.91345 1 21079 21079 0.45452 0 1 2408500 28378 3240 18332 18390 31980 31980 0.1964473941527558 RRLKKLCRPLP 11 Unmodified _RRLKKLCRPLP_ 0 0 0 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1;ENSG00000141219|ENST00000535032|C17orf80 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.7262878417969 4 345.724958 1378.87073 2.7037 0.00093474 0.97175 0.00033596 3.6755 0.0012707 345.72524027050014 46.126 0.64198 46.777 46.214 46.856 0.65104 68 20 4 0 0 0 0.91068 1 21138 21138 1.3296 0.87513 1 2567700 28379 3240 18332 18390 31981 31981 0.1964473941527558 RRLKKLCRPLP 11 Unmodified _RRLKKLCRPLP_ 0 0 0 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1;ENSG00000141219|ENST00000535032|C17orf80 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 345.724958 1378.87073 2.2359 0.000773 0.27786 9.6064E-05 2.5137 0.00086906 345.725215959201 47.047 0.29657 47.047 46.876 47.172 0 0.062178 -0.00055539 NaN 1.3296 32 14 3 NaN NaN NaN NaN 0 NaN NaN 0 4511000 28380 3240 18332 18390 0.1964473941527558 RRLKKLCRPLP 11 Unmodified _RRLKKLCRPLP_ 0 0 0 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1;ENSG00000141219|ENST00000535032|C17orf80 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 345.724958 1378.87073 2.2742 0.00078623 0.70938 0.00024525 2.9835 0.0010315 345.7252939968091 46.302 0.23378 47.131 46.964 47.198 0.82915 0.14596 4.1359E-05 NaN 1.3296 26 11 4 NaN NaN NaN NaN 0 NaN NaN 0 2408500 28381 3240 18332 18390 0.1964473941527558 RRLKKLCRPLP 11 Unmodified _RRLKKLCRPLP_ 0 0 0 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1;ENSG00000141219|ENST00000535032|C17orf80 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 345.724958 1378.87073 2.7037 0.00093474 0.97175 0.00033596 3.6755 0.0012707 345.72524027050014 46.126 0.64198 46.777 46.214 46.856 0.65104 -0.20814 0.00040419 NaN 1.3296 68 20 4 NaN NaN NaN NaN 0 NaN NaN 0 2567700 28382 3240 18332 18390 0.1964473941527558 RRLKLLGMR 9 Unmodified _RRLKLLGMR_ 0 0 0 REV__ENST00000312438.7_1_11:67134982-67141182:-|nuORF REV__ENST00000312438.7_1_11:67134982-67141182:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.58349609375 3 381.58161 1141.723 2.5489 0.00097261 1.3681 0.00052203 3.917 0.0014946 381.5820812750236 77.413 0.26486 78.076 77.972 78.237 0.66303 45 16 3 0 0 0 1.178 1 35672 35672 1.0715 0.10919 1 2167100 + 28383 15272 18333 18391 31982 31982 0.15780847881273985 RRLKQATQFLH 11 Unmodified _RRLKQATQFLH_ 0 0 0 ENSG00000053702|ENST00000337508|NRIP2 ENSG00000053702|ENST00000337508|NRIP2 ENSG00000053702|ENST00000337508|NRIP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 699.4097900390625 2 699.409852 1396.80515 NaN NaN NaN NaN NaN NaN NaN 38.638 1 38.902 38.402 39.402 0.26408 0 0 0 1.008 1 17586 17586 0.35063 0 1 28384 600 18334 18392 31983 31983 0.12262041493909237 RRLKRKRRKMR 11 Unmodified _RRLKRKRRKMR_ 0 0 0 ENSG00000229117|ENST00000546591|RPL41 ENSG00000229117|ENST00000546591|RPL41 ENSG00000229117|ENST00000546591|RPL41 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 792.4493408203125 2 792.520611 1583.02667 NaN NaN NaN NaN NaN NaN NaN 78.953 1 79.417 78.917 79.917 0.4642 0 0 0 1.0082 1 38475 38475 0 0 1 28385 6176 18335 18393 31984 31984 0.2584762270923875 RRLKRKRRKMR 11 Unmodified _RRLKRKRRKMR_ 0 0 0 ENSG00000229117|ENST00000546591|RPL41 ENSG00000229117|ENST00000546591|RPL41 ENSG00000229117|ENST00000546591|RPL41 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 792.5179443359375 2 792.520611 1583.02667 NaN NaN NaN NaN NaN NaN NaN 74.782 1 75.041 74.541 75.541 0.25831 0 0 0 1.0082 1 34406 34406 0 0 1 28386 6176 18335 18393 31985 31985 0.2584762270923875 RRLKRKRRKMR 11 Unmodified _RRLKRKRRKMR_ 0 0 0 ENSG00000229117|ENST00000546591|RPL41 ENSG00000229117|ENST00000546591|RPL41 ENSG00000229117|ENST00000546591|RPL41 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 792.5182495117188 2 792.520611 1583.02667 NaN NaN NaN NaN NaN NaN NaN 92.77 1 93.022 92.522 93.522 0.25253 0 0 0 1.0082 1 42642 42642 0 0 1 28387 6176 18335 18393 31986 31986 0.2584762270923875 RRLKRKRRKMR 11 Unmodified _RRLKRKRRKMR_ 0 0 0 ENSG00000229117|ENST00000546591|RPL41 ENSG00000229117|ENST00000546591|RPL41 ENSG00000229117|ENST00000546591|RPL41 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 792.51806640625 2 792.520611 1583.02667 NaN NaN NaN NaN NaN NaN NaN 74.372 1 75.036 74.536 75.536 0.6644 0 0 0 1.0082 1 34235 34235 0 0 1 28388 6176 18335 18393 31987 31987 0.2584762270923875 RRLLAPCLPAR 11 Unmodified _RRLLAPCLPAR_ 0 0 0 ENSG00000176381|ENST00000322583|PRR18 ENSG00000176381|ENST00000322583|PRR18 ENSG00000176381|ENST00000322583|PRR18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.1967468261719 4 317.196034 1264.75503 2.3359 0.00074095 0.93403 0.00029627 3.27 0.0010372 317.1962706123493 46.167 0.5174 46.432 46.103 46.62 0.26561 78 22 4 0 0 0 0.91111 1 21006 21006 0.40827 0 1 10960000 28389 5074 18336 18394 31988 31988 0.13324215564421138 RRLLAPCLPAR 11 Unmodified _RRLLAPCLPAR_ 0 0 0 ENSG00000176381|ENST00000322583|PRR18 ENSG00000176381|ENST00000322583|PRR18 ENSG00000176381|ENST00000322583|PRR18 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 317.196034 1264.75503 2.3819 0.00075552 0.9056 0.00028725 3.2875 0.0010428 317.196252508508 45.573 0.65471 46.224 45.781 46.435 0.65104 -0.10433 -1.5344E-05 NaN 0.40827 108 27 5 NaN NaN NaN NaN 0 NaN NaN 0 8769100 28390 5074 18336 18394 0.13324215564421138 RRLLHRWRRLR 11 Unmodified _RRLLHRWRRLR_ 0 0 0 REV__ENST00000342232.4_1_8:75233190-75233559:-|nuORF REV__ENST00000342232.4_1_8:75233190-75233559:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 809.512451171875 2 809.5111 1617.00765 NaN NaN NaN NaN NaN NaN NaN 46.51 1 46.51 46.01 47.01 0 0 0 0 1.0082 1 21289 21289 0 0 1 + 28391 15471 18337 18395 31989 31989 0.2238240940985179 RRLLILILK 9 Unmodified _RRLLILILK_ 0 0 0 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 nc|ENSG00000184613|Q99435-2|NELL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.4141845703125 2 569.413343 1136.81213 NaN NaN NaN NaN NaN NaN NaN 88.664 1 88.664 88.164 89.164 0 0 0 0 0.91238 1 46072 46072 0.52476 0.52476 1 28392 9783 18338 18396 31990 31990 0.24920006112461124 RRLLKVPRLLL 11 Unmodified _RRLLKVPRLLL_ 0 0 0 REV__ENSG00000139044|ENST00000266383|B4GALNT3 REV__ENSG00000139044|ENST00000266383|B4GALNT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 689.038330078125 2 688.982456 1375.95036 NaN NaN NaN NaN NaN NaN NaN 103.25 1 103.31 102.81 103.81 0.055092 0 0 0 1.0082 1 55994 55994 0 0 1 + 28393 12201 18339 18397 31991 31991 0.27742129360922263 RRLLKVPRLLL 11 Unmodified _RRLLKVPRLLL_ 0 0 0 REV__ENSG00000139044|ENST00000266383|B4GALNT3 REV__ENSG00000139044|ENST00000266383|B4GALNT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 688.5103759765625 2 688.982456 1375.95036 NaN NaN NaN NaN NaN NaN NaN 106.81 1 107.41 106.91 107.91 0.60074 0 0 0 1.0082 1 49310 49310 0 0 1 + 28394 12201 18339 18397 31992 31992 0.27742129360922263 RRLLLHLI 8 Unmodified _RRLLLHLI_ 0 0 0 REV__ENST00000424919.1_1_X:150162237-150162561:+|nuORF REV__ENST00000424919.1_1_X:150162237-150162561:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.4862365722656 3 345.237949 1032.69202 NaN NaN NaN NaN NaN NaN NaN 32.812 1 32.812 32.312 33.312 0 0 0 0 0.99035 1 14861 14861 0 0 1 + 28395 16205 18340 18398 31993 31993 0.17698017838711166 RRLLLLLLLLL 11 Unmodified _RRLLLLLLLLL_ 0 0 0 DPEP3|p.A194Vfs*2|1|0.35|ENSG00000141096|chr16:67978528-67978535|GTAGGAGG/-|frameshift_variant;ENSG00000141096|ENST00000268793|DPEP3 DPEP3|p.A194Vfs*2|1|0.35|ENSG00000141096|chr16:67978528-67978535|GTAGGAGG/-|frameshift_variant DPEP3|p.A194Vfs*2|1|0.35|ENSG00000141096|chr16:67978528-67978535|GTAGGAGG/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.3310546875 3 450.330397 1347.96936 NaN NaN NaN NaN NaN NaN NaN 81.912 1 82.159 81.659 82.659 0.24722 0 0 0 1.0082 1 37703 37703 0 0 1 28396 276 18341 18399 31994 31994 0.3092966593201254 RRLLLRYHLLR 11 Unmodified _RRLLLRYHLLR_ 0 0 0 REV__ENSG00000006607|ENST00000264042|FARP2 REV__ENSG00000006607|ENST00000264042|FARP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 754.9833984375 2 754.986061 1507.95757 NaN NaN NaN NaN NaN NaN NaN 90.868 1 90.868 90.368 91.368 0 0 0 0 1.0072 1 47851 47851 1.3295 0.9789 1 + 28397 10192 18342 18400 31995 31995 0.22390861961343944 RRLLPRVRLL 10 Unmodified _RRLLPRVRLL_ 0 0 0 nc|ENSG00000011478|Q9NXS2-3|QPCTL;ENSG00000011478|ENST00000012049|QPCTL nc|ENSG00000011478|Q9NXS2-3|QPCTL nc|ENSG00000011478|Q9NXS2-3|QPCTL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 646.157470703125 2 646.443498 1290.87244 NaN NaN NaN NaN NaN NaN NaN 82.602 1 82.849 82.349 83.349 0.24722 0 0 0 1.002 1 38022 38022 0 0 1 28398 418 18343 18401 31996 31996 0.23864116495542476 RRLLQARA 8 Unmodified _RRLLQARA_ 0 0 0 ENSG00000116032|ENST00000234389|GRIN3B ENSG00000116032|ENST00000234389|GRIN3B ENSG00000116032|ENST00000234389|GRIN3B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.2029724121094 3 328.545553 982.614831 2.5319 0.00083185 -1.1843 -0.00038911 1.3476 0.00044274 328.5460032950699 48.555 0.27836 48.817 48.677 48.955 0.26209 30 12 3 0 0 0 0.14132 1 22246 22246 3.2813 0 1 1084200 28399 2009 18344 18402 31997 31997 0.12282799622357743 RRLLWLLGPRR 11 Unmodified _RRLLWLLGPRR_ 0 0 0 ENST00000265896.9_1_8:126010760-126010880:+|nuORF ENST00000265896.9_1_8:126010760-126010880:+|nuORF ENST00000265896.9_1_8:126010760-126010880:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.3099060058594 3 479.308878 1434.90481 2.5099 0.001203 -0.83816 -0.00040174 1.6718 0.0008013 479.30950169767567 72.669 0.054367 73.333 73.303 73.358 0.66398 6 4 2 0 0 0 0.13295 1 33356 33356 4.7159 3.6062 1 1346400 28400 6625 18345 18403 31998 31998 0.20474903898525554 RRLMRPLWL 9 Unmodified _RRLMRPLWL_ 0 0 0 nc|ENSG00000198689|Q92581-1|SLC9A6;nc|ENSG00000198689|Q92581|SLC9A6 nc|ENSG00000198689|Q92581-1|SLC9A6 nc|ENSG00000198689|Q92581-1|SLC9A6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 311.1487121582031 4 310.941939 1239.73865 2.1637 0.00067278 0.55734 0.0001733 2.721 0.00084608 310.94149684138785 55.811 0.16504 56.479 56.426 56.591 0.66798 6 5 2 0 0 0 0.11408 1 25512 25512 0.26902 0.26902 1 175680 28401 9809 18346 18404 31999 31999 0.12837134398341732 RRLPALAA 8 Unmodified _RRLPALAA_ 0 0 0 ENST00000294409.2_1_1:28995295-29010143:+|nuORF ENST00000294409.2_1_1:28995295-29010143:+|nuORF ENST00000294409.2_1_1:28995295-29010143:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.2804260253906 2 434.279786 866.54502 3.7278 0.0016189 -1.2205 -0.00053003 2.5074 0.0010889 434.27880224162874 101.76 0.5002 102.07 101.87 102.37 0.31737 23 17 2 0 0 0 0.7471 1 47059 47059 0 0 1 326310 28402 6746 18347 18405 32000 32000 0.10640920953721889 RRLPALAA 8 Unmodified _RRLPALAA_ 0 0 0 ENST00000294409.2_1_1:28995295-29010143:+|nuORF ENST00000294409.2_1_1:28995295-29010143:+|nuORF ENST00000294409.2_1_1:28995295-29010143:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 434.279786 866.54502 3.2691 0.0014197 -0.69555 -0.00030206 2.5736 0.0011177 434.27915252414283 101.64 0.40698 102.23 102.08 102.49 0.59717 0.079852 0.00031787 NaN 0 19 16 2 NaN NaN NaN NaN 0 NaN NaN 0 294860 28403 6746 18347 18405 0.10640920953721889 RRLPRRRRLEW 11 Unmodified _RRLPRRRRLEW_ 0 0 0 REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF REV__ENST00000376771.8_1_X:48398216-48399763:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 797.4888305664062 2 797.487291 1592.96003 NaN NaN NaN NaN NaN NaN NaN 93.019 1 93.274 92.774 93.774 0.25497 0 0 0 1.0082 1 42755 42755 0 0 1 + 28404 15827 18348 18406 32001 32001 0.18726710419036863 RRLPRVVKRR 10 Unmodified _RRLPRVVKRR_ 0 0 0 ENST00000549988.5_1_12:76453547-76478450:-|nuORF ENST00000549988.5_1_12:76453547-76478450:-|nuORF ENST00000549988.5_1_12:76453547-76478450:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.4523315429688 2 668.449646 1334.88474 NaN NaN NaN NaN NaN NaN NaN 54.467 1 55.262 54.762 55.762 0.79552 0 0 0 1.0019 1 24851 24851 0.40072 0 1 28405 8864 18349 18407 32002 32002 0.23069152958578343 RRLQFRRKRVL 11 Unmodified _RRLQFRRKRVL_ 0 0 0 REV__ENSG00000230358|ENST00000424157|SPDYE21 REV__ENSG00000230358|ENST00000424157|SPDYE21 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.0004577636719 3 509.998815 1526.97462 NaN NaN NaN NaN NaN NaN NaN 43.711 1 43.711 43.211 44.211 0 0 0 0 1.008 1 19936 19936 0.094841 0.094841 1 + 28406 14573 18350 18408 32003 32003 0.2322078256711393 RRLQLALRQR 10 Unmodified _RRLQLALRQR_ 0 0 0 ENST00000418710.2_1_7:20824815-20825286:-|nuORF ENST00000418710.2_1_7:20824815-20825286:-|nuORF ENST00000418710.2_1_7:20824815-20825286:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.2689208984375 3 437.2811 1308.82147 NaN NaN NaN NaN NaN NaN NaN 48.961 1 48.961 48.461 49.461 0 0 0 0 0.99776 1 22423 22423 3.5871 0.5148 1 28407 7735 18351 18409 32004 32004 0.17941167450658213 RRLQMRII 8 Unmodified _RRLQMRII_ 0 0 0 REV__nc|ENSG00000123143|Q16512-3|PKN1 REV__nc|ENSG00000123143|Q16512-3|PKN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.5650329589844 3 362.562327 1084.66515 2.9357 0.0010644 0.85441 0.00030978 3.7901 0.0013741 362.89781589323627 88.96 0.38912 89.211 89.056 89.445 0.25118 37 14 4 0 0 0 0.7471 1 40988 40988 0.40072 0 1 1325500 + 28408 11604 18352 18410 32005 32005 0.126205859558695 RRLRCRRLRWA 11 Unmodified _RRLRCRRLRWA_ 0 0 0 ENST00000392973.7_1_16:90075326-90076003:-|nuORF ENST00000392973.7_1_16:90075326-90076003:-|nuORF ENST00000392973.7_1_16:90075326-90076003:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 771.46142578125 2 771.462761 1540.91097 NaN NaN NaN NaN NaN NaN NaN 105.05 1 105.36 104.86 105.86 0.31782 0 0 0 1.008 1 48491 48491 0.30703 0.03801 1 28409 7526 18353 18411 32006 32006 0.16215098858424426 RRLRGELQRH 10 Unmodified _RRLRGELQRH_ 0 0 0 ENST00000477320.1_1_1:31189731-31192090:-|nuORF ENST00000477320.1_1_1:31189731-31192090:-|nuORF ENST00000477320.1_1_1:31189731-31192090:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 440.8219909667969 3 440.928837 1319.76468 NaN NaN NaN NaN NaN NaN NaN 65.873 1 65.873 65.373 66.373 0 0 0 0 0.99995 1 31402 31402 1.7423 0.14999 1 28410 8245 18354 18412 32007 32007 0.11759119894145442 RRLRKRPF 8 Unmodified _RRLRKRPF_ 0 0 0 REV__ENSG00000124104|ENST00000491381|SNX21 REV__ENSG00000124104|ENST00000491381|SNX21 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.8626708984375 2 564.864883 1127.71521 NaN NaN NaN NaN NaN NaN NaN 62.328 1 62.988 62.488 63.488 0.66008 0 0 0 0.99035 1 28561 28561 2.5775 0.27475 1 + 28411 11634 18355 18413 32008 32008 0.15646456676017806 RRLRLLWLLRC 11 Unmodified _RRLRLLWLLRC_ 0 0 0 REV__ENSG00000213171|ENST00000368820|LINGO4 REV__ENSG00000213171|ENST00000368820|LINGO4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 749.4697265625 2 749.46919 1496.92383 NaN NaN NaN NaN NaN NaN NaN 73.364 1 74.063 73.563 74.563 0.69881 0 0 0 1.0082 1 35366 35366 0 0 1 + 28412 14489 18356 18414 32009 32009 0.1952411719794327 RRLRLRLRLLA 11 Unmodified _RRLRLRLRLLA_ 0 0 0 REV__ENST00000234111.8_1_2:10588250-10588409:-|nuORF REV__ENST00000234111.8_1_2:10588250-10588409:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 718.1649780273438 2 718.494053 1434.97355 NaN NaN NaN NaN NaN NaN NaN 99.942 1 100 99.504 100.5 0.062241 0 0 0 1.008 1 54123 54123 0.30703 0.30703 1 + 28413 14866 18357 18415 32010 32010 0.2734656819825432 RRLRLVLH 8 Unmodified _RRLRLVLH_ 0 0 0 REV__ENST00000272091.7_1_1:226180251-226183014:-|nuORF REV__ENST00000272091.7_1_1:226180251-226183014:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.88037109375 2 531.853984 1061.69342 NaN NaN NaN NaN NaN NaN NaN 77.195 1 77.756 77.256 78.256 0.56091 0 0 0 0.99035 1 37428 37428 2.5775 0 1 + 28414 15065 18358 18416 32011 32011 0.1650365192742811 RRLRPRRWQQ 10 Unmodified _RRLRPRRWQQ_ 0 0 0 REV__ENSG00000136378|ENST00000388820|ADAMTS7 REV__ENSG00000136378|ENST00000388820|ADAMTS7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.4791564941406 3 484.623748 1450.84942 NaN NaN NaN NaN NaN NaN NaN 73.839 1 73.839 73.339 74.339 0 0 0 0 1.0011 1 36022 36022 0.77653 0.27058 1 + 28415 12067 18359 18417 32012 32012 0.14202490430761827 RRLRRGDKH 9 Unmodified _RRLRRGDKH_ 0 0 0 ENST00000586061.1_1_19:783197-784896:+|nuORF ENST00000586061.1_1_19:783197-784896:+|nuORF ENST00000586061.1_1_19:783197-784896:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.575927734375 3 398.574395 1192.70135 3.7609 0.001499 0.16981 6.7682E-05 3.9307 0.0015667 398.574400843143 95.914 0.43704 96.182 96.017 96.454 0.2675 53 22 3 0 0 0 1.1849 2 44047 44047;44099 0.96228 0 1 1004700 28416 9181 18360 18418 32013;32014 32013 0.11271179176924306 RRLRRGDKH 9 Unmodified _RRLRRGDKH_ 0 0 0 ENST00000586061.1_1_19:783197-784896:+|nuORF ENST00000586061.1_1_19:783197-784896:+|nuORF ENST00000586061.1_1_19:783197-784896:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.57598876953125 3 398.574395 1192.70135 3.1179 0.0012427 1.038 0.00041371 4.1559 0.0016564 398.5747684599356 95.378 0.55137 95.986 95.804 96.356 0.60769 67 29 4 0 0 0 1.1849 1 43833 43833 0.96228 0 1 1084600 28417 9181 18360 18418 32015 32015 0.11271179176924306 RRLRRRRPAWV 11 Unmodified _RRLRRRRPAWV_ 0 0 0 REV__ENST00000376736.5_1_9:79009086-79009278:-|nuORF REV__ENST00000376736.5_1_9:79009086-79009278:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 305.18487548828125 5 305.195056 1520.9389 2.3261 0.0007099 0.43817 0.00013373 2.7642 0.00084363 305.19484956909685 49.301 0.16563 50.128 50.087 50.253 0.82705 11 7 2 0 0 0 0.91489 1 22479 22479 0 0 1 165430 + 28418 15825 18361 18419 32016 32016 0.19926745110160482 RRLRRSRGPR 10 Unmodified _RRLRRSRGPR_ 0 0 0 REV__ENST00000515045.1_1_5:177059676-177099177:-|nuORF REV__ENST00000515045.1_1_5:177059676-177099177:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.27783203125 3 437.27646 1308.80755 NaN NaN NaN NaN NaN NaN NaN 66.761 1 67.418 66.918 67.918 0.65672 0 0 0 0.99807 1 30605 30605 3.3196 1.4133 1 + 28419 17012 18362 18420 32017 32017 0.1654993474226103 RRLRRSWRQFA 11 Unmodified _RRLRRSWRQFA_ 0 0 0 ENST00000471374.1_1_22:32352234-32352363:+|nuORF ENST00000471374.1_1_22:32352234-32352363:+|nuORF ENST00000471374.1_1_22:32352234-32352363:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 766.445556640625 2 766.445092 1530.87563 NaN NaN NaN NaN NaN NaN NaN 104.94 1 105.25 104.75 105.75 0.31782 0 0 0 1.0082 1 48440 48440 0 0 1 28420 8181 18363 18421 32018 32018 0.13142759602237675 RRLRVWLRPSL 11 Unmodified _RRLRVWLRPSL_ 0 0 0 REV__ENST00000393539.6_1_16:71495855-71496077:-|nuORF REV__ENST00000393539.6_1_16:71495855-71496077:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.482421875 4 363.732206 1450.89972 2.7611 0.0010043 0.74428 0.00027072 3.5054 0.001275 363.73247841935375 40.359 0.43481 40.628 40.324 40.759 0.26904 26 15 2 0 0 0 0.13295 1 18343 18343 1.2148 0.76031 1 1061600 + 28421 15953 18364 18422 32019 32019 0.19230600035916723 RRLTPLLLLLL 11 Unmodified _RRLTPLLLLLL_ 0 0 0 REV__ENST00000319190.9_1_2:47168484-47168661:+|nuORF REV__ENST00000319190.9_1_2:47168484-47168661:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 660.96044921875 2 660.958115 1319.90168 NaN NaN NaN NaN NaN NaN NaN 68.193 1 68.193 67.693 68.693 0 0 0 0 1.0082 1 32810 32810 0 0 1 + 28422 15306 18365 18423 32020 32020 0.2545221600119021 RRLTTEWAL 9 Unmodified _RRLTTEWAL_ 0 0 0 REV__ENST00000399921.5_1_21:30699631-30701811:+|nuORF REV__ENST00000399921.5_1_21:30699631-30701811:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 382.5535583496094 3 382.552374 1144.63529 2.8322 0.0010835 0.17381 6.6491E-05 3.0061 0.00115 382.5524283330677 20.772 0.32606 20.772 20.59 20.916 0 77 28 3 0 0 0 0.76984 1 9263 9263 4.897 1.8247 1 745490 + 28423 16038 18366 18424 32021 32021 0.06875925491522139 RRLVKLAPCR 10 Unmodified _RRLVKLAPCR_ 0 0 0 nc|ENSG00000070601|Q5SYB0-2|FRMPD1;nc|ENSG00000070601|Q5SYB0-3|FRMPD1;FRMPD1|p.S1133Lfs*4|1|0.07|ENSG00000070601|chr9:37745429-37745430|-/TGTA|frameshift_variant;ENSG00000070601|ENST00000377765|FRMPD1 nc|ENSG00000070601|Q5SYB0-2|FRMPD1 nc|ENSG00000070601|Q5SYB0-2|FRMPD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.58966064453125 3 404.588765 1210.74446 2.7306 0.0011048 0.21576 8.7293E-05 2.9464 0.0011921 404.5887371510544 32.215 0.89974 32.215 31.925 32.825 0 148 76 2 0 0 0 0.93503 2 14568 14568;14611 1.9064 1.9064 1 1283300 28424 767 18367 18425 32022;32023 32022 0.14752232909995655 RRLVKLAPCR 10 Unmodified _RRLVKLAPCR_ 0 0 0 nc|ENSG00000070601|Q5SYB0-2|FRMPD1;nc|ENSG00000070601|Q5SYB0-3|FRMPD1;FRMPD1|p.S1133Lfs*4|1|0.07|ENSG00000070601|chr9:37745429-37745430|-/TGTA|frameshift_variant;ENSG00000070601|ENST00000377765|FRMPD1 nc|ENSG00000070601|Q5SYB0-2|FRMPD1 nc|ENSG00000070601|Q5SYB0-2|FRMPD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.59039306640625 3 404.588765 1210.74446 2.579 0.0010434 0.89388 0.00036165 3.4728 0.0014051 404.589067976146 33.229 0.47657 33.229 32.812 33.289 0 67 33 3 0 0 0 0.93503 1 15025 15025 1.9064 1.9064 1 1643000 28425 767 18367 18425 32024 32024 0.14752232909995655 RRLVKLAPCR 10 Unmodified _RRLVKLAPCR_ 0 0 0 nc|ENSG00000070601|Q5SYB0-2|FRMPD1;nc|ENSG00000070601|Q5SYB0-3|FRMPD1;FRMPD1|p.S1133Lfs*4|1|0.07|ENSG00000070601|chr9:37745429-37745430|-/TGTA|frameshift_variant;ENSG00000070601|ENST00000377765|FRMPD1 nc|ENSG00000070601|Q5SYB0-2|FRMPD1 nc|ENSG00000070601|Q5SYB0-2|FRMPD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.590576171875 3 404.588765 1210.74446 2.3878 0.0009661 0.81523 0.00032983 3.2031 0.0012959 404.5890488489597 34.776 0.67218 34.776 34.29 34.962 0 85 40 3 0 0 0 0.93503 1 15733 15733 1.9064 1.9064 1 1232000 28426 767 18367 18425 32025 32025 0.14752232909995655 RRLVKLAPCR 10 Unmodified _RRLVKLAPCR_ 0 0 0 nc|ENSG00000070601|Q5SYB0-2|FRMPD1;nc|ENSG00000070601|Q5SYB0-3|FRMPD1;FRMPD1|p.S1133Lfs*4|1|0.07|ENSG00000070601|chr9:37745429-37745430|-/TGTA|frameshift_variant;ENSG00000070601|ENST00000377765|FRMPD1 nc|ENSG00000070601|Q5SYB0-2|FRMPD1 nc|ENSG00000070601|Q5SYB0-2|FRMPD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.5903015136719 3 404.588765 1210.74446 2.7162 0.001099 0.76485 0.00030945 3.4811 0.0014084 404.5888232639498 31.329 0.45832 32.118 31.771 32.229 0.78879 78 37 3 0 0 0 0.93503 1 14071 14071 1.9064 1.2087 1 1062800 28427 767 18367 18425 32026 32026 0.14752232909995655 RRLVKLAPCR 10 Unmodified _RRLVKLAPCR_ 0 0 0 nc|ENSG00000070601|Q5SYB0-2|FRMPD1;nc|ENSG00000070601|Q5SYB0-3|FRMPD1;FRMPD1|p.S1133Lfs*4|1|0.07|ENSG00000070601|chr9:37745429-37745430|-/TGTA|frameshift_variant;ENSG00000070601|ENST00000377765|FRMPD1 nc|ENSG00000070601|Q5SYB0-2|FRMPD1 nc|ENSG00000070601|Q5SYB0-2|FRMPD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.5901184082031 3 404.588765 1210.74446 NaN NaN NaN NaN NaN NaN NaN 33.827 1 34.615 34.115 35.115 0.78795 0 0 0 0.99976 1 15315 15315 1.9064 0.45126 1 28428 767 18367 18425 32027 32027 0.14752232909995655 RRLVKLAPCR 10 Unmodified _RRLVKLAPCR_ 0 0 0 nc|ENSG00000070601|Q5SYB0-2|FRMPD1;nc|ENSG00000070601|Q5SYB0-3|FRMPD1;FRMPD1|p.S1133Lfs*4|1|0.07|ENSG00000070601|chr9:37745429-37745430|-/TGTA|frameshift_variant;ENSG00000070601|ENST00000377765|FRMPD1 nc|ENSG00000070601|Q5SYB0-2|FRMPD1 nc|ENSG00000070601|Q5SYB0-2|FRMPD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.9253234863281 3 404.588765 1210.74446 3.3685 0.0013629 0.71737 0.00029024 4.0859 0.0016531 404.5888647189285 31.953 0.53869 32.208 31.92 32.459 0.25452 87 37 3 0 0 0 0.9406 1 14508 14508 0.77653 0 1 1252300 28429 767 18367 18425 32028 32028 0.14752232909995655 RRLVKLAPCR 10 Unmodified _RRLVKLAPCR_ 0 0 0 nc|ENSG00000070601|Q5SYB0-2|FRMPD1;nc|ENSG00000070601|Q5SYB0-3|FRMPD1;FRMPD1|p.S1133Lfs*4|1|0.07|ENSG00000070601|chr9:37745429-37745430|-/TGTA|frameshift_variant;ENSG00000070601|ENST00000377765|FRMPD1 nc|ENSG00000070601|Q5SYB0-2|FRMPD1 nc|ENSG00000070601|Q5SYB0-2|FRMPD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 404.9246826171875 3 404.588765 1210.74446 2.9165 0.00118 0.34486 0.00013953 3.2614 0.0013195 404.5887410745076 31.845 0.51869 32.463 32.287 32.806 0.61736 79 32 4 0 0 0 0.9406 1 14603 14603 0.77653 0.77653 1 1257900 28430 767 18367 18425 32029 32029 0.14752232909995655 RRLVRQQRRRR 11 Unmodified _RRLVRQQRRRR_ 0 0 0 REV__ENST00000397992.5_1_16:72984846-73092758:-|nuORF REV__ENST00000397992.5_1_16:72984846-73092758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 790.4996337890625 2 790.501264 1578.98797 NaN NaN NaN NaN NaN NaN NaN 70.554 1 70.554 70.054 71.054 0 0 0 0 1.0082 1 34256 34256 0.30703 0 1 + 28431 16021 18368 18426 32030 32030 0.22164033399076288 RRLVRRLRRWG 11 Unmodified _RRLVRRLRRWG_ 0 0 0 ENSG00000197324|ENST00000359591|LRP10 ENSG00000197324|ENST00000359591|LRP10 ENSG00000197324|ENST00000359591|LRP10 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 762.1410522460938 2 762.484551 1522.95455 3.3716 0.0025708 -0.67816 -0.00051709 2.6934 0.0020537 762.4825754016671 106.64 0.11999 106.64 106.53 106.65 0 5 4 2 0 0 0 0.13295 1 58537 58537 0 0 1 787080 28432 5808 18369 18427 32031 32031 0.21399031627174736 RRLVVEWAG 9 Unmodified _RRLVVEWAG_ 0 0 0 REV__ENST00000558590.1_1_14:103394982-103395396:+|nuORF REV__ENST00000558590.1_1_14:103394982-103395396:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.7599182128906 3 362.545331 1084.61416 2.6689 0.00096761 0.44216 0.0001603 3.1111 0.0011279 362.5454821681894 20.814 0.1899 21.468 21.364 21.554 0.65346 26 14 2 0 0 0 0.11393 1 9439 9439 1.0715 1.0715 1 106120 + 28433 17348 18370 18428 32032 32032 0.07523960182652445 RRLWFRCFRLR 11 Unmodified _RRLWFRCFRLR_ 0 0 0 REV__ENST00000471680.1_1_1:118472412-118472487:+|nuORF REV__ENST00000471680.1_1_1:118472412-118472487:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.97705078125 3 536.977134 1607.90957 NaN NaN NaN NaN NaN NaN NaN 27.324 1 27.324 26.824 27.824 0 0 0 0 1.0082 1 12302 12302 0.08335 0.08335 1 + 28434 16606 18371 18429 32033 32033 0.1299346476964729 RRLWRTRKRRR 11 Unmodified _RRLWRTRKRRR_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 820.51904296875 2 820.519457 1639.02436 NaN NaN NaN NaN NaN NaN NaN 78.893 1 79.357 78.857 79.857 0.4642 0 0 0 1.0082 1 38430 38430 0 0 1 28435 7869 18372 18430 32034 32034 0.23040910295776484 RRLWWYHWICW 11 Unmodified _RRLWWYHWICW_ 0 0 0 nc|ENSG00000198964|Q86VZ5-2|SGMS1;ENSG00000198964|ENST00000361781|SGMS1 nc|ENSG00000198964|Q86VZ5-2|SGMS1 nc|ENSG00000198964|Q86VZ5-2|SGMS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 852.925048828125 2 852.922072 1703.82959 NaN NaN NaN NaN NaN NaN NaN 93.308 1 93.308 92.808 93.808 0 0 0 0 1.0082 1 49815 49815 0 0 1 28436 5970 18373 18431 32035 32035 0.005829783758144913 RRLWWYHWICW 11 Unmodified _RRLWWYHWICW_ 0 0 0 nc|ENSG00000198964|Q86VZ5-2|SGMS1;ENSG00000198964|ENST00000361781|SGMS1 nc|ENSG00000198964|Q86VZ5-2|SGMS1 nc|ENSG00000198964|Q86VZ5-2|SGMS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.8975830078125 3 568.950474 1703.82959 NaN NaN NaN NaN NaN NaN NaN 105.75 1 105.8 105.3 106.3 0.050888 0 0 0 1.0082 1 57228 57228 0 0 1 28437 5970 18373 18431 32036 32036 0.005829783758144913 RRLYWFRRPEA 11 Unmodified _RRLYWFRRPEA_ 0 0 0 ENST00000408953.3_1_5:159826916-159827063:-|nuORF ENST00000408953.3_1_5:159826916-159827063:-|nuORF ENST00000408953.3_1_5:159826916-159827063:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 775.42626953125 2 775.428576 1548.8426 NaN NaN NaN NaN NaN NaN NaN 89.733 1 89.985 89.485 90.485 0.25137 0 0 0 1.0082 1 41268 41268 0.23584 0.23584 1 28438 7650 18374 18432 32037 32037 0.09013132759537257 RRMKRRRRWIQ 11 Unmodified _RRMKRRRRWIQ_ 0 0 0 ENST00000257749.8_2_6:90661229-90661412:-|nuORF ENST00000257749.8_2_6:90661229-90661412:-|nuORF ENST00000257749.8_2_6:90661229-90661412:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 821.4972534179688 2 821.494593 1640.97463 NaN NaN NaN NaN NaN NaN NaN 70.509 1 70.765 70.265 71.265 0.25642 0 0 0 1.0082 1 32292 32292 0 0 1 28439 6534 18375 18433 32038 32038 0.17978459295522953 RRMLEQLLLAE 11 Unmodified _RRMLEQLLLAE_ 0 0 0 nc|ENSG00000118407|Q7Z7B0-2|FILIP1;ENSG00000118407|ENST00000237172|FILIP1 nc|ENSG00000118407|Q7Z7B0-2|FILIP1 nc|ENSG00000118407|Q7Z7B0-2|FILIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 686.3671875 2 686.392479 1370.7704 NaN NaN NaN NaN NaN NaN NaN 54.269 1 54.534 54.034 55.034 0.26462 0 0 0 0.98464 1 24816 24816 8.1555 1.4324 1 28440 2111 18376 18434 32039 32039 0.09985037571004796 RRMRRLHLQLK 11 Unmodified _RRMRRLHLQLK_ 0 0 0 REV__ENST00000278198.2_1_11:40315224-40315422:-|nuORF REV__ENST00000278198.2_1_11:40315224-40315422:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 753.9673461914062 2 753.967345 1505.92014 NaN NaN NaN NaN NaN NaN NaN 80.504 1 81.164 80.664 81.664 0.65998 0 0 0 1.0082 1 37096 37096 0 0 1 + 28441 15082 18377 18435 32040 32040 0.18741447424099533 RRMRRRRRRRI 11 Unmodified _RRMRRRRRRRI_ 0 0 0 REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 834.5333862304688 2 834.529833 1667.04511 NaN NaN NaN NaN NaN NaN NaN 59.766 1 60.431 59.931 60.931 0.66503 0 0 0 1.0082 1 27358 27358 0 0 1 + 28442 17761 18378 18436 32041 32041 0.23827177403813948 RRMRRRRRWTR 11 Unmodified _RRMRRRRRWTR_ 0 0 0 ENST00000281708.8_1_4:153271275-153332654:-|nuORF ENST00000281708.8_1_4:153271275-153332654:-|nuORF ENST00000281708.8_1_4:153271275-153332654:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 843.503662109375 2 843.500741 1684.98693 NaN NaN NaN NaN NaN NaN NaN 21.112 1 21.112 20.612 21.612 0 0 0 0 1.0082 1 9448 9448 0 0 1 28443 6694 18379 18437 32042 32042 0.17183495758536083 RRMRTVKNI 9 Unmodified _RRMRTVKNI_ 0 0 0 nc|ENSG00000067798|Q8IVL0-3|NAV3;nc|ENSG00000067798|Q8IVL0-2|NAV3;ENSG00000067798|ENST00000397909|NAV3 nc|ENSG00000067798|Q8IVL0-3|NAV3 nc|ENSG00000067798|Q8IVL0-3|NAV3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.3536376953125 2 587.353491 1172.69243 NaN NaN NaN NaN NaN NaN NaN 3.4908 1 3.8671 3.3671 4.3671 0.37632 0 0 0 0.91452 1 1585 1585 0 0 1 28444 726 18380 18438 32043 32043 0.11299069496271841 RRNFRNSRKQF 11 Unmodified _RRNFRNSRKQF_ 0 0 0 ENST00000481358.5_1_3:113724481-113724535:-|nuORF ENST00000481358.5_1_3:113724481-113724535:-|nuORF ENST00000481358.5_1_3:113724481-113724535:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 755.2398071289062 2 754.918907 1507.82326 NaN NaN NaN NaN NaN NaN NaN 107.55 1 107.86 107.36 108.36 0.31421 0 0 0 1.008 1 49611 49611 0.30703 0 1 28445 8292 18381 18439 32044 32044 0.08966176468629783 RRNFRNWRRWR 11 Unmodified _RRNFRNWRRWR_ 0 0 0 REV__nc|ENSG00000157388|Q01668-4|CACNA1D REV__nc|ENSG00000157388|Q01668-4|CACNA1D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 851.9702758789062 2 851.972339 1701.93013 NaN NaN NaN NaN NaN NaN NaN 45.652 1 46.478 45.978 46.978 0.82621 0 0 0 1.0082 1 20787 20787 0 0 1 + 28446 12799 18382 18440 32045 32045 0.10723771473635679 RRNLFWYKRR 10 Unmodified _RRNLFWYKRR_ 0 0 0 REV__nc|ENSG00000171634|Q12830-4|BPTF REV__nc|ENSG00000171634|Q12830-4|BPTF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.958251953125 3 498.956616 1493.84802 NaN NaN NaN NaN NaN NaN NaN 42.986 1 43.8 43.3 44.3 0.81444 0 0 0 1.0015 1 19550 19550 0.13989 0.04505 1 + 28447 9981 18383 18441 32046 32046 0.12084856341994055 RRNMGLRK 8 Unmodified _RRNMGLRK_ 0 0 0 REV__nc|ENSG00000184792|Q969R2-3|OSBP2 REV__nc|ENSG00000184792|Q969R2-3|OSBP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 344.17327880859375 3 344.206543 1029.5978 2.2764 0.00078355 0.98898 0.00034041 3.2654 0.001124 344.2068563971503 26.189 0.54544 26.968 26.547 27.092 0.7787 56 37 3 0 0 0 0.14313 1 11609 11609 1.6526 0 1 1853800 + 28448 18073 18384 18442 32047 32047 0.08418555744924561 RRNRRRRKP 9 Unmodified _RRNRRRRKP_ 0 0 0 ENST00000464624.6_1_20:57428320-57466719:+|nuORF;nc|ENSG00000087460|Q5JWF2-3|GNAS;nc|ENSG00000087460|Q5JWF2-2|GNAS;nc|ENSG00000087460|Q5JWF2|GNAS ENST00000464624.6_1_20:57428320-57466719:+|nuORF ENST00000464624.6_1_20:57428320-57466719:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 647.9122314453125 2 647.911219 1293.80789 NaN NaN NaN NaN NaN NaN NaN 70.564 1 70.821 70.321 71.321 0.25642 0 0 0 0.91238 1 32317 32317 0.52476 0.12405 1 28449 8116 18385 18443 32048 32048 0.17273354462099633 RRNRSKPLFH 10 Unmodified _RRNRSKPLFH_ 0 0 0 ENST00000491117.5_1_7:2770817-2802736:-|nuORF;nc|ENSG00000146535|Q03113-3|GNA12;nc|ENSG00000146535|Q03113-2|GNA12;ENSG00000146535|ENST00000275364|GNA12 ENST00000491117.5_1_7:2770817-2802736:-|nuORF ENST00000491117.5_1_7:2770817-2802736:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.2008056640625 4 328.444269 1309.74797 2.1913 0.00071973 0.93089 0.00030575 3.1222 0.0010255 328.44450447022825 43.437 0.30158 44.251 44.156 44.458 0.81444 24 13 2 0 0 0 0.12676 1 19772 19772 0.69767 0 1 482650 28450 3523 18386 18444 32049 32049 0.10548619008227433 RRPEVKRPAKR 11 Unmodified _RRPEVKRPAKR_ 0 0 0 REV__nc|ENSG00000175193|Q9H300-2|PARL REV__nc|ENSG00000175193|Q9H300-2|PARL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 697.1223754882812 2 696.936568 1391.85858 NaN NaN NaN NaN NaN NaN NaN 26.705 1 26.705 26.205 27.205 0 0 0 0 1.008 1 12026 12026 0.30703 0.03801 1 + 28451 13663 18387 18445 32050 32050 0.1783283899642356 RRPGGAAP 8 Unmodified _RRPGGAAP_ 0 0 0 ENST00000397498.8_1_17:79650136-79650781:-|nuORF ENST00000397498.8_1_17:79650136-79650781:-|nuORF ENST00000397498.8_1_17:79650136-79650781:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.2262268066406 2 391.225011 780.435469 2.7454 0.0010741 -0.0062487 -2.4446E-06 2.7392 0.0010716 391.2248469070013 81.496 0.42538 81.744 81.551 81.976 0.24803 52 21 3 0 0 0 0.7471 2 37513 37513;37570 0.79363 0 1 2562600 28452 7581 18388 18446 32051;32052 32051 0.0364691533441146 RRPGPLKG 8 Unmodified _RRPGPLKG_ 0 0 0 ENST00000509943.1_1_17:48286340-48286481:+|nuORF ENST00000509943.1_1_17:48286340-48286481:+|nuORF ENST00000509943.1_1_17:48286340-48286481:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 880.5524291992188 1 880.547545 879.540269 4.7521 0.0041845 0.73411 0.00064641 5.4862 0.0048309 880.5482767948761 103.62 0.076149 103.93 103.89 103.97 0.31863 13 10 2 0 0 0 0.7471 1 47889 47889 0 0 1 300230 28453 8550 18389 18447 32053 32053 0.09568036811003822 RRPHKKHA 8 Unmodified _RRPHKKHA_ 0 0 0 ENST00000474361.6_1_X:1719073-1720484:+|nuORF;ENSG00000197976|ENST00000313871|AKAP17A ENST00000474361.6_1_X:1719073-1720484:+|nuORF ENST00000474361.6_1_X:1719073-1720484:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.8780517578125 3 343.877415 1028.61041 1.6802 0.00057777 0.41691 0.00014336 2.0971 0.00072113 343.87749442110305 10.052 0.45093 10.359 10.18 10.631 0.307 83 57 2 0 0 0 0.7471 1 4651 4651 0 0 1 50953 28454 5855 18390 18448 32054 32054 0.0972533519945955 RRPKAFIL 8 Unmodified _RRPKAFIL_ 0 0 0 ENST00000563969.5_1_16:67311562-67311856:+|nuORF ENST00000563969.5_1_16:67311562-67311856:+|nuORF ENST00000563969.5_1_16:67311562-67311856:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.2195739746094 3 334.218666 999.634169 2.1185 0.00070804 0.20552 6.869E-05 2.324 0.00077673 334.21880127968024 25.262 0.29282 26.025 25.863 26.155 0.76356 50 24 3 0 0 0 0.26626 2 11307 11307;11358 37.974 0 1 872020 28455 9021 18391 18449 32055;32056 32055 0.1343375591327458 RRPKAFIL 8 Unmodified _RRPKAFIL_ 0 0 0 ENST00000563969.5_1_16:67311562-67311856:+|nuORF ENST00000563969.5_1_16:67311562-67311856:+|nuORF ENST00000563969.5_1_16:67311562-67311856:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.21954345703125 3 334.218666 999.634169 2.5006 0.00083574 -0.093539 -3.1262E-05 2.407 0.00080448 334.2186358161298 25.799 0.33386 26.067 25.918 26.252 0.26777 76 32 3 0 0 0 0.52777 2 11727 11684;11727 19.257 0 1 890500 28456 9021 18391 18449 32057;32058 32058 0.1343375591327458 RRPKAFIL 8 Unmodified _RRPKAFIL_ 0 0 0 ENST00000563969.5_1_16:67311562-67311856:+|nuORF ENST00000563969.5_1_16:67311562-67311856:+|nuORF ENST00000563969.5_1_16:67311562-67311856:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.21917724609375 3 334.218666 999.634169 2.2109 0.00073892 0.51823 0.0001732 2.7291 0.00091212 334.2188550788607 25.461 0.2304 26.09 25.977 26.207 0.62915 48 25 2 0 0 0 0.58952 1 11670 11670 14.838 0 1 935320 28457 9021 18391 18449 32059 32059 0.1343375591327458 RRPKHHRK 8 Unmodified _RRPKHHRK_ 0 0 0 REV__ENST00000424363.5_1_7:22534421-22534983:-|nuORF REV__ENST00000424363.5_1_7:22534421-22534983:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.8442993164062 2 557.844482 1113.67441 NaN NaN NaN NaN NaN NaN NaN 9.4504 1 9.7616 9.2616 10.262 0.31115 0 0 0 0.99035 1 4219 4219 0 0 1 + 28458 16203 18392 18450 32060 32060 0.1221211535639668 RRPLGRLP 8 Unmodified _RRPLGRLP_ 0 0 0 ENST00000607047.1_1_8:38240229-38240670:+|nuORF ENST00000607047.1_1_8:38240229-38240670:+|nuORF ENST00000607047.1_1_8:38240229-38240670:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 322.211181640625 3 322.210282 963.609017 2.2956 0.00073967 -0.19699 -6.3473E-05 2.0986 0.0006762 322.2102374865095 14.627 0.18851 14.854 14.743 14.932 0.22622 25 13 2 0 0 0 0.60592 1 6420 6420 10.074 0 1 220770 28459 9332 18393 18451 32061 32061 0.1257570111069981 RRPLGRLP 8 Unmodified _RRPLGRLP_ 0 0 0 ENST00000607047.1_1_8:38240229-38240670:+|nuORF ENST00000607047.1_1_8:38240229-38240670:+|nuORF ENST00000607047.1_1_8:38240229-38240670:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 322.210282 963.609017 2.1539 0.000694 0.41057 0.00013229 2.5644 0.00082628 322.21050002642136 15.028 0.52288 15.028 14.783 15.306 0 0.087338 0.00020691 NaN 10.074 80 59 2 NaN NaN NaN NaN 0 NaN NaN 0 119700 28460 9332 18393 18451 0.1257570111069981 RRPLMVPV 8 Unmodified _RRPLMVPV_ 0 0 0 REV__ENSG00000137760|ENST00000428149|ALKBH8 REV__ENSG00000137760|ENST00000428149|ALKBH8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.2025451660156 3 323.200507 966.579691 NaN NaN NaN NaN NaN NaN NaN 32.641 1 32.895 32.395 33.395 0.25443 0 0 0 0.99035 1 14866 14866 1.8442 0.6509 1 + 28461 12125 18394 18452 32062 32062 0.09506420770196655 RRPLRLAL 8 Unmodified _RRPLRLAL_ 0 0 0 REV__ENST00000378292.7_1_9:35690423-35690990:-|nuORF REV__ENST00000378292.7_1_9:35690423-35690990:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.7838134765625 2 497.83526 993.655967 NaN NaN NaN NaN NaN NaN NaN 35.557 1 35.812 35.312 36.312 0.25524 0 0 0 0.99035 1 16198 16198 0.79363 0 1 + 28462 15850 18395 18453 32063 32063 0.1588856066181279 RRPLRQYELVF 11 Unmodified _RRPLRQYELVF_ 0 0 0 REV__nc|ENSG00000015520|Q9UHC9-4|NPC1L1 REV__nc|ENSG00000015520|Q9UHC9-4|NPC1L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.9565124511719 3 492.952649 1475.83612 NaN NaN NaN NaN NaN NaN NaN 5.7741 1 6.0793 5.5793 6.5793 0.30519 0 0 0 1.008 1 2624 2624 0.08335 0 1 + 28463 10255 18396 18454 32064 32064 0.11723194808132575 RRPLRRGP 8 Unmodified _RRPLRRGP_ 0 0 0 REV__ENST00000379656.7_1_19:18112104-18119556:+|nuORF REV__ENST00000379656.7_1_19:18112104-18119556:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.3208923339844 2 504.320309 1006.62606 NaN NaN NaN NaN NaN NaN NaN 85.134 1 85.383 84.883 85.883 0.24808 0 0 0 0.99035 1 39178 39178 0.69038 0 1 + 28464 15871 18397 18455 32065 32065 0.12301621716505906 RRPLRRGP 8 Unmodified _RRPLRRGP_ 0 0 0 REV__ENST00000379656.7_1_19:18112104-18119556:+|nuORF REV__ENST00000379656.7_1_19:18112104-18119556:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.3224182128906 2 504.320309 1006.62606 3.3901 0.0017097 -0.8005 -0.00040371 2.5896 0.001306 504.32004052559716 84.881 0.34962 85.547 85.308 85.658 0.66566 28 17 2 0 0 0 0.7471 1 39087 39087 0.69038 0 1 443300 + 28465 15871 18397 18455 32066 32066 0.12301621716505906 RRPLSPLV 8 Unmodified _RRPLSPLV_ 0 0 0 REV__ENST00000372042.5_1_X:109964733-110005983:-|nuORF REV__ENST00000372042.5_1_X:109964733-110005983:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 313.2042236328125 3 313.202905 936.586885 NaN NaN NaN NaN NaN NaN NaN 59.468 1 59.728 59.228 60.228 0.2593 0 0 0 0.99035 1 27232 27232 1.6526 0 1 + 28466 15745 18398 18456 32067 32067 0.11605476642273516 RRPPRWRQKLE 11 Unmodified _RRPPRWRQKLE_ 0 0 0 ENSG00000174282|ENST00000380599|ZBTB4 ENSG00000174282|ENST00000380599|ZBTB4 ENSG00000174282|ENST00000380599|ZBTB4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 761.4472045898438 2 761.4473 1520.88005 NaN NaN NaN NaN NaN NaN NaN 85.975 1 86.223 85.723 86.723 0.24857 0 0 0 1.0082 1 39570 39570 0 0 1 28467 4970 18399 18457 32068 32068 0.1404422402513319 RRPQLLPL 8 Unmodified _RRPQLLPL_ 0 0 0 ENSG00000122679|ENST00000242249|RAMP3 ENSG00000122679|ENST00000242249|RAMP3 ENSG00000122679|ENST00000242249|RAMP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.5513000488281 3 331.550304 991.629084 2.6572 0.00088101 1.1997 0.00039778 3.857 0.0012788 331.5506534188887 10.262 0.49419 10.895 10.665 11.16 0.63304 101 45 3 0 0 0 0.7471 1 4591 4591 0.45834 0 1 136350 28468 2277 18400 18458 32069 32069 0.13293452050652377 RRPRRRPRRWL 11 Unmodified _RRPRRRPRRWL_ 0 0 0 ENST00000251102.12_1_16:57965650-57974178:-|nuORF ENST00000251102.12_1_16:57965650-57974178:-|nuORF ENST00000251102.12_1_16:57965650-57974178:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 803.0042114257812 2 803.0009 1603.98725 NaN NaN NaN NaN NaN NaN NaN 91.275 1 91.526 91.026 92.026 0.25163 0 0 0 1.0082 1 41973 41973 0 0 1 28469 6501 18401 18459 32070 32070 0.20941238750037883 RRPRRRWELRP 11 Unmodified _RRPRRRWELRP_ 0 0 0 REV__ENST00000291572.12_1_21:45404383-45404527:+|nuORF REV__ENST00000291572.12_1_21:45404383-45404527:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 789.4468383789062 2 789.471641 1576.92873 NaN NaN NaN NaN NaN NaN NaN 106.48 1 106.53 106.03 107.03 0.04837 0 0 0 1.0082 1 57601 57601 0 0 1 + 28470 15127 18402 18460 32071 32071 0.16334137384910719 RRPRRWWRQPQ 11 Unmodified _RRPRRWWRQPQ_ 0 0 0 ENST00000372022.5_1_9:136199397-136199478:-|nuORF ENST00000372022.5_1_9:136199397-136199478:-|nuORF ENST00000372022.5_1_9:136199397-136199478:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.5833129882812 2 811.455991 1620.89743 NaN NaN NaN NaN NaN NaN NaN 99.999 1 99.999 99.499 100.5 0 0 0 0 1.008 1 55111 55111 0.30703 0 1 28471 7330 18403 18461 32072 32072 0.11181564350840745 RRPSKKRRRRP 11 Unmodified _RRPSKKRRRRP_ 0 0 0 REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 373.9951477050781 4 373.993455 1491.94471 2.7361 0.0010233 -0.32027 -0.00011978 2.4158 0.00090351 373.99330135236033 45.025 1.1404 45.025 44.593 45.734 0 147 60 3 0 0 0 0.91345 1 20463 20463 0.45452 0 1 2286800 + 28472 15426 18404 18462 32073 32073 0.21841843621791668 RRPSKKRRRRP 11 Unmodified _RRPSKKRRRRP_ 0 0 0 REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.2453308105469 4 373.993455 1491.94471 2.576 0.0009634 -0.16198 -6.0581E-05 2.414 0.00090282 373.9933039931775 47.572 0.53424 47.572 47.108 47.642 0 63 29 4 0 0 0 0.91459 1 21777 21777 0.094841 0 1 2056800 + 28473 15426 18404 18462 32074 32074 0.21841843621791668 RRPSKKRRRRP 11 Unmodified _RRPSKKRRRRP_ 0 0 0 REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.7738037109375 3 498.322181 1491.94471 2.8508 0.0014206 0.24038 0.00011978 3.0912 0.0015404 498.6567394893272 46.772 0.1404 46.772 46.673 46.814 0 7 4 2 0 0 0 0.13295 1 21378 21378 0.094841 0 1 232160 + 28474 15426 18404 18462 32075 32075 0.21841843621791668 RRPSKKRRRRP 11 Unmodified _RRPSKKRRRRP_ 0 0 0 REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 373.99432373046875 4 373.993455 1491.94471 2.3076 0.00086304 -0.31569 -0.00011807 1.992 0.00074498 373.9933458858455 43.942 1.1451 44.763 44.123 45.268 0.82074 98 66 2 0 0 0 0.91359 1 19909 19909 0.40827 0 1 1932600 + 28475 15426 18404 18462 32076 32076 0.21841843621791668 RRPSKKRRRRP 11 Unmodified _RRPSKKRRRRP_ 0 0 0 REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.24517822265625 4 373.993455 1491.94471 2.5503 0.00095381 -0.2756 -0.00010307 2.2747 0.00085073 374.2442472196758 44.065 0.13422 44.334 44.207 44.341 0.2694 14 10 2 0 0 0 0.91345 1 20125 20125 0.45452 0 1 3387900 + 28476 15426 18404 18462 32077 32077 0.21841843621791668 RRPSKKRRRRP 11 Unmodified _RRPSKKRRRRP_ 0 0 0 REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.9943542480469 4 373.993455 1491.94471 2.5341 0.00094774 0.25022 9.358E-05 2.7843 0.0010413 374.24426978596426 44.438 0.60053 44.708 44.424 45.025 0.2694 73 30 4 0 0 0 0.91345 1 20304 20304 0.45452 0 1 2898100 + 28477 15426 18404 18462 32078 32078 0.21841843621791668 RRPSKKRRRRP 11 Unmodified _RRPSKKRRRRP_ 0 0 0 REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 747.484375 2 746.979633 1491.94471 3.6233 0.0027066 0.19121 0.00014283 3.8145 0.0028494 747.4816464278847 44.452 0.32744 44.721 44.56 44.888 0.26939 13 10 2 0 0 0 0.91459 1 20327 20327 0 0 1 384970 + 28478 15426 18404 18462 32079 32079 0.21841843621791668 RRPSKKRRRRP 11 Unmodified _RRPSKKRRRRP_ 0 0 0 REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.2457275390625 4 373.993455 1491.94471 2.9088 0.0010879 -0.053049 -1.984E-05 2.8557 0.001068 374.2442335464059 46.698 1.2154 46.963 46.307 47.522 0.26561 131 47 4 0 0 0 0.91345 1 21323 21323 0.45452 0 1 4392400 + 28479 15426 18404 18462 32080 32080 0.21841843621791668 RRPSKKRRRRP 11 Unmodified _RRPSKKRRRRP_ 0 0 0 REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.2457275390625 4 373.993455 1491.94471 2.9088 0.0010879 -0.053049 -1.984E-05 2.8557 0.001068 374.2442335464059 46.698 1.2154 46.963 46.307 47.522 0.26561 131 47 4 0 0 0 0.13295 1 21323 21323 0.45452 0 1 4392400 + 28480 15426 18404 18462 32081 32081 0.21841843621791668 RRPSKKRRRRP 11 Unmodified _RRPSKKRRRRP_ 0 0 0 REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.7728271484375 3 498.322181 1491.94471 3.3582 0.0016735 -0.46943 -0.00023393 2.8888 0.0014395 498.3220681108047 46.446 0.27416 46.712 46.535 46.809 0.26561 12 9 2 0 0 0 0.13295 1 21233 21233 0.094841 0 1 399390 + 28481 15426 18404 18462 32082 32082 0.21841843621791668 RRPSKKRRRRP 11 Unmodified _RRPSKKRRRRP_ 0 0 0 REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 373.9953308105469 4 373.993455 1491.94471 2.8093 0.0010507 -0.10663 -3.9878E-05 2.7027 0.0010108 374.24415051425194 44.101 0.70417 44.751 44.492 45.197 0.64999 86 34 4 0 0 0 0.91068 3 20121 20121;20184;20254 1.3296 0 1 3151400 + 28482 15426 18404 18462 32083;32084;32085 32083 0.21841843621791668 RRPSKKRRRRP 11 Unmodified _RRPSKKRRRRP_ 0 0 0 REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 373.993455 1491.94471 2.7361 0.0010233 -0.32027 -0.00011978 2.4158 0.00090351 373.99330135236033 45.025 1.1404 45.025 44.593 45.734 0 0.10624 -7.993E-06 NaN 1.3296 147 60 3 NaN NaN NaN NaN 0 NaN NaN 0 2286800 + 28483 15426 18404 18462 0.21841843621791668 RRPSKKRRRRP 11 Unmodified _RRPSKKRRRRP_ 0 0 0 REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 373.993455 1491.94471 2.7592 0.0010319 -0.43087 -0.00016114 2.3283 0.00087079 373.9932416791426 44.028 0.1628 44.028 43.993 44.156 0 -0.098431 -0.00020207 NaN 0.45452 35 16 3 NaN NaN NaN NaN 0 NaN NaN 0 2512700 + 28484 15426 18404 18462 0.21841843621791668 RRPSKKRRRRP 11 Unmodified _RRPSKKRRRRP_ 0 0 0 REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 373.993455 1491.94471 2.3076 0.00086304 -0.31569 -0.00011807 1.992 0.00074498 373.9933458858455 43.942 1.1451 44.763 44.123 45.268 0.82074 -0.1558 -1.1458E-06 NaN 1.3296 98 66 2 NaN NaN NaN NaN 0 NaN NaN 0 1932600 + 28485 15426 18404 18462 0.21841843621791668 RRPSKKRRRRP 11 Unmodified _RRPSKKRRRRP_ 0 0 0 REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 373.993455 1491.94471 2.5736 0.00096253 -0.52429 -0.00019608 2.0494 0.00076645 373.9932996185634 44.867 0.56287 45.135 44.96 45.523 0.26768 0.21654 -0.00031321 NaN 1.3296 54 30 3 NaN NaN NaN NaN 0 NaN NaN 0 2810200 + 28486 15426 18404 18462 0.21841843621791668 RRPSKKRRRRP 11 Unmodified _RRPSKKRRRRP_ 0 0 0 REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 373.993455 1491.94471 2.5503 0.00095381 -0.2756 -0.00010307 2.2747 0.00085073 374.2442472196758 44.065 0.13422 44.334 44.207 44.341 0.2694 0.20787 3.0207E-05 NaN 0.45452 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 3387900 + 28487 15426 18404 18462 0.21841843621791668 RRPSKKRRRRP 11 Unmodified _RRPSKKRRRRP_ 0 0 0 REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 373.993455 1491.94471 2.8093 0.0010507 -0.10663 -3.9878E-05 2.7027 0.0010108 374.24415051425194 44.101 0.70417 44.751 44.492 45.197 0.64999 -0.16698 0.00031161 NaN 1.3296 86 34 4 NaN NaN NaN NaN 0 NaN NaN 0 3151400 + 28488 15426 18404 18462 0.21841843621791668 RRPSKKRRRRP 11 Unmodified _RRPSKKRRRRP_ 0 0 0 REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF REV__ENST00000337014.10_2_17:80376485-80377700:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 373.993455 1491.94471 2.8047 0.001049 0.092622 3.464E-05 2.8974 0.0010836 373.99320907103026 43.368 0.26974 44.017 43.851 44.121 0.64872 -0.10944 0.00058106 NaN 0.45452 23 9 3 NaN NaN NaN NaN 0 NaN NaN 0 569050 + 28489 15426 18404 18462 0.21841843621791668 RRPWLHTK 8 Unmodified _RRPWLHTK_ 0 0 0 REV__RALGAPB|p.A220Hfs*53|1|0.05|ENSG00000170471|chr20:38499550-38499551|-/CATCTTTG|frameshift_variant REV__RALGAPB|p.A220Hfs*53|1|0.05|ENSG00000170471|chr20:38499550-38499551|-/CATCTTTG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.4486083984375 2 547.322517 1092.63048 2.8701 0.0015709 -0.10897 -5.9641E-05 2.7611 0.0015112 547.3210602302817 13.113 0.0532 13.357 13.32 13.373 0.24346 5 4 2 0 0 0 0.7471 1 5722 5722 0.69038 0 1 160670 + 28490 18203 18405 18463 32086 32086 0.08787086139386702 RRPWRLKRRWN 11 Unmodified _RRPWRLKRRWN_ 0 0 0 ENST00000505606.6_1_5:43121886-43122210:+|nuORF ENST00000505606.6_1_5:43121886-43122210:+|nuORF ENST00000505606.6_1_5:43121886-43122210:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.9905395507812 3 541.990431 1622.94946 NaN NaN NaN NaN NaN NaN NaN 68.231 1 68.934 68.434 69.434 0.70218 0 0 0 1.0082 1 32521 32521 0.08335 0.08335 1 28491 8506 18406 18464 32087 32087 0.16290727764589974 RRPYNYRRRPR 11 Unmodified _RRPYNYRRRPR_ 0 0 0 ENST00000540447.5_1_12:10853889-10854789:-|nuORF;ENST00000536823.5_1_12:10853889-10856822:-|nuORF;ENST00000542002.5_1_12:10853889-10868397:-|nuORF;nc|ENSG00000060138|P16989-2|YBX3;ENSG00000060138|ENST00000228251|YBX3 ENST00000540447.5_1_12:10853889-10854789:-|nuORF ENST00000540447.5_1_12:10853889-10854789:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 795.5652465820312 2 795.453448 1588.89234 NaN NaN NaN NaN NaN NaN NaN 108.69 1 109 108.5 109.5 0.31168 0 0 0 1.0082 1 50119 50119 0 0 1 28492 639 18407 18465 32088 32088 0.1214526048818243 RRQAKQEELKR 11 Unmodified _RRQAKQEELKR_ 0 0 0 ENSG00000243156|ENST00000441493|MICAL3 ENSG00000243156|ENST00000441493|MICAL3 ENSG00000243156|ENST00000441493|MICAL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.28515625 3 481.283057 1440.82734 3.811 0.0018342 0.24388 0.00011737 4.0549 0.0019515 481.28313871394994 95.555 0.51495 95.822 95.679 96.194 0.26751 53 28 2 0 0 0 0.91459 1 43947 43947 0.094841 0 1 469500 28493 6234 18408 18466 32089 32089 0.1245622117169205 RRQARRHLHGR 11 Unmodified _RRQARRHLHGR_ 0 0 0 REV__ENST00000164024.4_1_3:48692826-48693791:-|nuORF REV__ENST00000164024.4_1_3:48692826-48693791:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.6193542480469 3 481.618997 1441.83516 NaN NaN NaN NaN NaN NaN NaN 101.27 1 101.87 101.37 102.37 0.59717 0 0 0 1.0082 1 46888 46888 0.094841 0 1 + 28494 14786 18409 18467 32090 32090 0.1319183800248993 RRQEEKKKRRK 11 Unmodified _RRQEEKKKRRK_ 0 0 0 REV__nc|ENSG00000132466|O75179-2|ANKRD17 REV__nc|ENSG00000132466|O75179-2|ANKRD17 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 771.4760131835938 2 771.476589 1540.93862 NaN NaN NaN NaN NaN NaN NaN 73.223 1 73.887 73.387 74.387 0.66398 0 0 0 1.0082 1 33640 33640 0 0 1 + 28495 11892 18410 18468 32091 32091 0.18979280599614867 RRQFHVRPQPR 11 Unmodified _RRQFHVRPQPR_ 0 0 0 REV__ENSG00000148468|ENST00000378116|FAM171A1 REV__ENSG00000148468|ENST00000378116|FAM171A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 738.925048828125 2 738.923992 1475.83343 NaN NaN NaN NaN NaN NaN NaN 31.33 1 31.33 30.83 31.83 0 0 0 0 1.008 1 14171 14171 0.30703 0 1 + 28496 12539 18411 18469 32092 32092 0.11454784193870182 RRQFNREMKRK 11 Unmodified _RRQFNREMKRK_ 0 0 0 ENST00000495826.5_1_22:20074657-20094820:+|nuORF;nc|ENSG00000128191|Q8WYQ5-3|DGCR8;ENSG00000128191|ENST00000351989|DGCR8;ENST00000498171.5_1_22:20077477-20097628:+|nuORF ENST00000495826.5_1_22:20074657-20094820:+|nuORF ENST00000495826.5_1_22:20074657-20094820:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 774.9361572265625 2 774.936242 1547.85793 NaN NaN NaN NaN NaN NaN NaN 52.365 1 53.027 52.527 53.527 0.66198 0 0 0 1.0082 1 23942 23942 0 0 1 28497 2501 18412 18470 32093 32093 0.10591676285071117 RRQFWGHWWGR 11 Unmodified _RRQFWGHWWGR_ 0 0 0 ENST00000481024.5_1_X:30671646-30683673:+|nuORF ENST00000481024.5_1_X:30671646-30683673:+|nuORF ENST00000481024.5_1_X:30671646-30683673:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 786.397705078125 2 786.39761 1570.78067 NaN NaN NaN NaN NaN NaN NaN 87.872 1 88.122 87.622 88.622 0.25064 0 0 0 1.0082 1 40438 40438 0 0 1 28498 8286 18413 18471 32094 32094 0.018108261310771923 RRQGRGRGRAR 11 Unmodified _RRQGRGRGRAR_ 0 0 0 ENSG00000100038|ENST00000357179|TOP3B;ENST00000457270.5_1_22:22311488-22312070:-|nuORF;ENST00000457179.5_1_22:22311488-22316996:-|nuORF ENSG00000100038|ENST00000357179|TOP3B ENSG00000100038|ENST00000357179|TOP3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 332.20233154296875 4 332.201605 1324.77731 2.1126 0.00070181 -0.036673 -1.2183E-05 2.0759 0.00068963 332.20147249621493 46.391 1.551 46.391 45.659 47.21 0 246 74 4 0 0 0 0.89309 2 21258 21012;21258 1.1098 0 1 4924700 28499 1169 18414 18472 32095;32096 32096 0.1279157607707475 RRQGRGRGRAR 11 Unmodified _RRQGRGRGRAR_ 0 0 0 ENSG00000100038|ENST00000357179|TOP3B;ENST00000457270.5_1_22:22311488-22312070:-|nuORF;ENST00000457179.5_1_22:22311488-22316996:-|nuORF ENSG00000100038|ENST00000357179|TOP3B ENSG00000100038|ENST00000357179|TOP3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 332.20233154296875 4 332.201605 1324.77731 2.2587 0.00075036 -0.24337 -8.0848E-05 2.0154 0.00066951 332.2014026852753 45.405 1.0472 46.231 45.51 46.558 0.82621 179 56 4 0 0 0 0.89309 3 20708 20473;20521;20708 1.1098 0 1 2565600 28500 1169 18414 18472 32097;32098;32099 32099 0.1279157607707475 RRQGRGRGRAR 11 Unmodified _RRQGRGRGRAR_ 0 0 0 ENSG00000100038|ENST00000357179|TOP3B;ENST00000457270.5_1_22:22311488-22312070:-|nuORF;ENST00000457179.5_1_22:22311488-22316996:-|nuORF ENSG00000100038|ENST00000357179|TOP3B ENSG00000100038|ENST00000357179|TOP3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 332.20208740234375 4 332.201605 1324.77731 2.3721 0.00078802 -0.055611 -1.8474E-05 2.3165 0.00076955 332.201514358242 45.554 1.4753 45.821 45.507 46.982 0.26768 164 58 4 0 0 0 0.89309 1 20908 20908 1.1098 0 1 7435100 28501 1169 18414 18472 32100 32100 0.1279157607707475 RRQGRGRGRAR 11 Unmodified _RRQGRGRGRAR_ 0 0 0 ENSG00000100038|ENST00000357179|TOP3B;ENST00000457270.5_1_22:22311488-22312070:-|nuORF;ENST00000457179.5_1_22:22311488-22316996:-|nuORF ENSG00000100038|ENST00000357179|TOP3B ENSG00000100038|ENST00000357179|TOP3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.2022705078125 4 332.201605 1324.77731 2.4927 0.00082808 0.14127 4.6929E-05 2.634 0.00087501 332.201510829835 44.974 1.5724 45.624 45.197 46.769 0.64998 185 59 5 0 0 0 0.89309 1 20823 20823 2.4348 2.4348 1 4843100 28502 1169 18414 18472 32101 32101 0.1279157607707475 RRQHVWLRHLY 11 Unmodified _RRQHVWLRHLY_ 0 0 0 ENST00000434140.5_2_3:46717393-46723043:-|nuORF ENST00000434140.5_2_3:46717393-46723043:-|nuORF ENST00000434140.5_2_3:46717393-46723043:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 782.4432373046875 2 782.442018 1562.86948 NaN NaN NaN NaN NaN NaN NaN 71.892 1 72.555 72.055 73.055 0.66324 0 0 0 1.008 1 32952 32952 0.30703 0.03801 1 28503 7882 18415 18473 32102 32102 0.11056241370738462 RRQILRRRIHQ 11 Unmodified _RRQILRRRIHQ_ 0 0 0 REV__ENSG00000214929|ENST00000344803|SPATA31D1 REV__ENSG00000214929|ENST00000344803|SPATA31D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 767.0386352539062 2 766.479466 1530.94438 3.2232 0.0024705 2.0136 0.0015434 5.2367 0.0040138 766.4823900806183 84.355 0.13889 84.355 84.33 84.469 0 19 14 2 0 0 0 0.91489 1 42733 42733 0 0 1 23275000 + 28504 14519 18416 18474 32103 32103 0.20014423901966438 RRQKERRKKV 10 Unmodified _RRQKERRKKV_ 0 0 0 REV__ENST00000537303.5_1_19:15472501-15484105:-|nuORF REV__ENST00000537303.5_1_19:15472501-15484105:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 692.4465942382812 2 692.442018 1382.86948 NaN NaN NaN NaN NaN NaN NaN 101.99 1 102.31 101.81 102.81 0.31737 0 0 0 1.0016 1 47186 47186 0.35063 0.043601 1 + 28505 11013 18417 18475 32104 32104 0.19336241370706375 RRQKKRSS 8 Unmodified _RRQKKRSS_ 0 0 0 REV__ENST00000553756.1_1_14:24036504-24036892:-|nuORF REV__ENST00000553756.1_1_14:24036504-24036892:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 349.2163391113281 3 349.216096 1044.62646 NaN NaN NaN NaN NaN NaN NaN 7.9343 1 8.5591 8.0591 9.0591 0.62473 0 0 0 0.99035 1 3580 3580 0.35063 0 1 + 28506 15247 18418 18476 32105 32105 0.10592996645709718 RRQKRERRKRR 11 Unmodified _RRQKRERRKRR_ 0 0 0 REV__ENSG00000130764|ENST00000378251|LRRC47 REV__ENSG00000130764|ENST00000378251|LRRC47 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 813.0103149414062 2 813.011996 1624.00944 NaN NaN NaN NaN NaN NaN NaN 42.933 1 43.748 43.248 44.248 0.81444 0 0 0 1.0082 1 19521 19521 0 0 1 + 28507 11831 18419 18477 32106 32106 0.22239418427784585 RRQKRERRKRR 11 Unmodified _RRQKRERRKRR_ 0 0 0 REV__ENSG00000130764|ENST00000378251|LRRC47 REV__ENSG00000130764|ENST00000378251|LRRC47 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 813.0096435546875 2 813.011996 1624.00944 NaN NaN NaN NaN NaN NaN NaN 47.968 1 48.621 48.121 49.121 0.65356 0 0 0 1.0082 1 21956 21956 0 0 1 + 28508 11831 18419 18477 32107 32107 0.22239418427784585 RRQLWWWRRRP 11 Unmodified _RRQLWWWRRRP_ 0 0 0 REV__ENST00000591247.5_1_17:42113394-42113565:-|nuORF REV__ENST00000591247.5_1_17:42113394-42113565:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 848.6722412109375 2 848.482008 1694.94946 NaN NaN NaN NaN NaN NaN NaN 99.51 1 99.572 99.072 100.07 0.062241 0 0 0 1.0082 1 53818 53818 0 0 1 + 28509 17582 18420 18478 32108 32108 0.12978727764539144 RRQNLYIWRFR 11 Unmodified _RRQNLYIWRFR_ 0 0 0 ENST00000521082.5_1_7:23205510-23207476:+|nuORF ENST00000521082.5_1_7:23205510-23207476:+|nuORF ENST00000521082.5_1_7:23205510-23207476:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 804.454833984375 2 804.455125 1606.8957 NaN NaN NaN NaN NaN NaN NaN 85.487 1 85.487 84.987 85.987 0 0 0 0 1.0082 1 43538 43538 0 0 1 28510 8638 18421 18479 32109 32109 0.11652510542171512 RRQPQFRLL 9 Unmodified _RRQPQFRLL_ 0 0 0 REV__ENST00000296490.7_1_3:52312258-52312303:-|nuORF REV__ENST00000296490.7_1_3:52312258-52312303:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.2469787597656 3 405.247396 1212.72036 NaN NaN NaN NaN NaN NaN NaN 74.658 1 75.322 74.822 75.822 0.6644 0 0 0 0.90965 1 34373 34373 1.1933 0.083588 1 + 28511 15154 18422 18480 32110 32110 0.12250715747995855 RRQRHRRRYQF 11 Unmodified _RRQRHRRRYQF_ 0 0 0 REV__ENSG00000001629|ENST00000265742|ANKIB1 REV__ENSG00000001629|ENST00000265742|ANKIB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 829.9689331054688 2 829.969797 1657.92504 NaN NaN NaN NaN NaN NaN NaN 78.207 1 78.207 77.707 78.707 0 0 0 0 1.008 1 38407 38407 0.30703 0 1 + 28512 9962 18423 18481 32111 32111 0.12239467611061627 RRQRRERRFRR 11 Unmodified _RRQRRERRFRR_ 0 0 0 nc|ENSG00000204498|Q9UBC1-2|NFKBIL1;nc|ENSG00000204498|Q9UBC1-3|NFKBIL1;ENSG00000204498|ENST00000376148|NFKBIL1 nc|ENSG00000204498|Q9UBC1-2|NFKBIL1 nc|ENSG00000204498|Q9UBC1-2|NFKBIL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.0018920898438 3 558.003622 1670.98904 NaN NaN NaN NaN NaN NaN NaN 55.716 1 55.716 55.216 56.216 0 0 0 0 1.0082 1 25622 25622 0.08335 0 1 28513 6012 18424 18482 32112 32112 0.18038247767958637 RRQRRERRFRR 11 Unmodified _RRQRRERRFRR_ 0 0 0 nc|ENSG00000204498|Q9UBC1-2|NFKBIL1;nc|ENSG00000204498|Q9UBC1-3|NFKBIL1;ENSG00000204498|ENST00000376148|NFKBIL1 nc|ENSG00000204498|Q9UBC1-2|NFKBIL1 nc|ENSG00000204498|Q9UBC1-2|NFKBIL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.6159057617188 3 558.003622 1670.98904 NaN NaN NaN NaN NaN NaN NaN 67.645 1 67.645 67.145 68.145 0 0 0 0 1.0082 1 32488 32488 0 0 1 28514 6012 18424 18482 32113 32113 0.18038247767958637 RRQRRERRFRR 11 Unmodified _RRQRRERRFRR_ 0 0 0 nc|ENSG00000204498|Q9UBC1-2|NFKBIL1;nc|ENSG00000204498|Q9UBC1-3|NFKBIL1;ENSG00000204498|ENST00000376148|NFKBIL1 nc|ENSG00000204498|Q9UBC1-2|NFKBIL1 nc|ENSG00000204498|Q9UBC1-2|NFKBIL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.0039672851562 3 558.003622 1670.98904 NaN NaN NaN NaN NaN NaN NaN 29.261 1 30.05 29.55 30.55 0.78921 0 0 0 1.0082 1 13188 13188 0 0 1 28515 6012 18424 18482 32114 32114 0.18038247767958637 RRQRRERRFRR 11 Unmodified _RRQRRERRFRR_ 0 0 0 nc|ENSG00000204498|Q9UBC1-2|NFKBIL1;nc|ENSG00000204498|Q9UBC1-3|NFKBIL1;ENSG00000204498|ENST00000376148|NFKBIL1 nc|ENSG00000204498|Q9UBC1-2|NFKBIL1 nc|ENSG00000204498|Q9UBC1-2|NFKBIL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.0029296875 3 558.003622 1670.98904 NaN NaN NaN NaN NaN NaN NaN 74.414 1 75.101 74.601 75.601 0.68662 0 0 0 1.0082 1 35966 35966 0 0 1 28516 6012 18424 18482 32115 32115 0.18038247767958637 RRQRRRRQRRG 11 Unmodified _RRQRRRRQRRG_ 0 0 0 REV__ENST00000394967.2_1_2:175202164-175202371:+|nuORF REV__ENST00000394967.2_1_2:175202164-175202371:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.662353515625 3 527.659967 1579.95807 2.7934 0.001474 2.3084 0.0012181 5.1018 0.002692 527.6608271777714 106.15 0.13462 106.15 106.08 106.21 0 15 5 3 0 0 0 0.91111 1 58310 58310 0.40827 0 1 3183400 + 28517 15977 18425 18483 32116 32116 0.1912909445375135 RRQRRRRQRRG 11 Unmodified _RRQRRRRQRRG_ 0 0 0 REV__ENST00000394967.2_1_2:175202164-175202371:+|nuORF REV__ENST00000394967.2_1_2:175202164-175202371:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.66259765625 3 527.659967 1579.95807 4.1055 0.0021663 0.62187 0.00032814 4.7274 0.0024945 527.6602446694072 106.21 0.14741 106.53 106.43 106.58 0.31628 15 4 5 0 0 0 0.91391 1 49023 49023 0.08335 0 1 2870200 + 28518 15977 18425 18483 32117 32117 0.1912909445375135 RRQRRRRQRRG 11 Unmodified _RRQRRRRQRRG_ 0 0 0 REV__ENST00000394967.2_1_2:175202164-175202371:+|nuORF REV__ENST00000394967.2_1_2:175202164-175202371:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.662353515625 3 527.659967 1579.95807 3.4947 0.001844 1.3402 0.00070715 4.8349 0.0025512 527.6605251627515 106.19 0.18555 106.79 106.68 106.87 0.59969 13 5 4 0 0 0 0.91391 1 49036 49036 0.08335 0 1 2957400 + 28519 15977 18425 18483 32118 32118 0.1912909445375135 RRQRRRRQRRG 11 Unmodified _RRQRRRRQRRG_ 0 0 0 REV__ENST00000394967.2_1_2:175202164-175202371:+|nuORF REV__ENST00000394967.2_1_2:175202164-175202371:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 527.659967 1579.95807 2.7934 0.001474 2.3084 0.0012181 5.1018 0.002692 527.6608271777714 106.15 0.13462 106.15 106.08 106.21 0 -0.19096 0.00092593 NaN 0.40827 15 5 3 NaN NaN NaN NaN 0 NaN NaN 0 3183400 + 28520 15977 18425 18483 0.1912909445375135 RRQRRRRQRRG 11 Unmodified _RRQRRRRQRRG_ 0 0 0 REV__ENST00000394967.2_1_2:175202164-175202371:+|nuORF REV__ENST00000394967.2_1_2:175202164-175202371:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 527.659967 1579.95807 1.9203 0.0010133 2.6645 0.0014059 4.5848 0.0024192 527.9955064379785 106.28 0.14812 106.33 106.25 106.4 0.04837 -0.0033152 0.0014895 NaN 0.40827 17 6 3 NaN NaN NaN NaN 0 NaN NaN 0 2742300 + 28521 15977 18425 18483 0.1912909445375135 RRQRWRRRRHL 11 Unmodified _RRQRWRRRRHL_ 0 0 0 ENST00000372724.5_1_10:76586363-76598485:+|nuORF ENST00000372724.5_1_10:76586363-76598485:+|nuORF ENST00000372724.5_1_10:76586363-76598485:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 838.5107421875 2 838.506881 1674.99921 NaN NaN NaN NaN NaN NaN NaN 63.61 1 63.61 63.11 64.11 0 0 0 0 1.0082 1 29949 29949 0 0 1 28522 7342 18426 18484 32119 32119 0.18870855493241834 RRQRWRRRRHL 11 Unmodified _RRQRWRRRRHL_ 0 0 0 ENST00000372724.5_1_10:76586363-76598485:+|nuORF ENST00000372724.5_1_10:76586363-76598485:+|nuORF ENST00000372724.5_1_10:76586363-76598485:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 838.510498046875 2 838.506881 1674.99921 NaN NaN NaN NaN NaN NaN NaN 92.654 1 92.74 92.24 93.24 0.086212 0 0 0 1.0082 1 48353 48353 0 0 1 28523 7342 18426 18484 32120 32120 0.18870855493241834 RRQRWTRAPRR 11 Unmodified _RRQRWTRAPRR_ 0 0 0 REV__ENST00000578692.1_1_17:29124415-29151644:-|nuORF REV__ENST00000578692.1_1_17:29124415-29151644:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 769.9536743164062 2 769.953615 1537.89268 NaN NaN NaN NaN NaN NaN NaN 82.684 1 83.344 82.844 83.844 0.66019 0 0 0 1.0082 1 38097 38097 0 0 1 + 28524 17493 18427 18485 32121 32121 0.14524680208046448 RRQSGKKLP 9 Unmodified _RRQSGKKLP_ 0 0 0 ENSG00000143476|ENST00000366991|DTL ENSG00000143476|ENST00000366991|DTL ENSG00000143476|ENST00000366991|DTL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.2368469238281 3 357.22448 1068.65161 NaN NaN NaN NaN NaN NaN NaN 83.37 1 84.032 83.532 84.532 0.66219 0 0 0 0.91014 1 38400 38400 1.0715 0 1 28525 3371 18428 18486 32122 32122 0.12003051448277802 RRQSGKKLP 9 Unmodified _RRQSGKKLP_ 0 0 0 ENSG00000143476|ENST00000366991|DTL ENSG00000143476|ENST00000366991|DTL ENSG00000143476|ENST00000366991|DTL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.2369079589844 3 357.22448 1068.65161 NaN NaN NaN NaN NaN NaN NaN 83.469 1 84.132 83.632 84.632 0.66219 0 0 0 0.91014 1 38446 38446 1.0715 0 1 28526 3371 18428 18486 32123 32123 0.12003051448277802 RRQSRRRKKRF 11 Unmodified _RRQSRRRKKRF_ 0 0 0 REV__nc|ENSG00000186854|Q86V40-2|TRABD2A REV__nc|ENSG00000186854|Q86V40-2|TRABD2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 787.4893798828125 2 787.490365 1572.96618 NaN NaN NaN NaN NaN NaN NaN 82.174 1 82.258 81.758 82.758 0.084106 0 0 0 1.0082 1 40533 40533 0 0 1 + 28527 14073 18429 18487 32124 32124 0.20261228650497287 RRQTLRPLW 9 Unmodified _RRQTLRPLW_ 0 0 0 REV__ENST00000398808.3_1_11:61038963-61040779:-|nuORF REV__ENST00000398808.3_1_11:61038963-61040779:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.3666381835938 2 613.367456 1224.72036 NaN NaN NaN NaN NaN NaN NaN 108.53 1 108.85 108.35 109.35 0.31168 0 0 0 0.91265 1 50050 50050 0.45834 0 1 + 28528 16028 18430 18488 32125 32125 0.11698715747979804 RRQTWRRRWIW 11 Unmodified _RRQTWRRRWIW_ 0 0 0 ENST00000300086.4_1_16:75681724-75681847:+|nuORF ENST00000300086.4_1_16:75681724-75681847:+|nuORF ENST00000300086.4_1_16:75681724-75681847:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 850.4827270507812 2 850.479466 1698.94438 NaN NaN NaN NaN NaN NaN NaN 24.102 1 24.839 24.339 25.339 0.73623 0 0 0 1.0082 1 10791 10791 0 0 1 28529 6792 18431 18489 32126 32126 0.12286423901969101 RRQTWRRRWIW 11 Unmodified _RRQTWRRRWIW_ 0 0 0 ENST00000300086.4_1_16:75681724-75681847:+|nuORF ENST00000300086.4_1_16:75681724-75681847:+|nuORF ENST00000300086.4_1_16:75681724-75681847:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 850.483154296875 2 850.479466 1698.94438 NaN NaN NaN NaN NaN NaN NaN 58.936 1 59.195 58.695 59.695 0.2593 0 0 0 1.0082 1 26991 26991 0 0 1 28530 6792 18431 18489 32127 32127 0.12286423901969101 RRQWRRRRRPQ 11 Unmodified _RRQWRRRRRPQ_ 0 0 0 ENST00000295206.6_1_2:119600812-119604160:-|nuORF ENST00000295206.6_1_2:119600812-119604160:-|nuORF ENST00000295206.6_1_2:119600812-119604160:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.0459594726562 3 550.996468 1649.96757 NaN NaN NaN NaN NaN NaN NaN 67.266 1 67.266 66.766 67.766 0 0 0 0 1.0082 1 32222 32222 0.094841 0.011491 1 28531 6756 18432 18490 32128 32128 0.1685886273928645 RRQWWRPWLDH 11 Unmodified _RRQWWRPWLDH_ 0 0 0 ENSG00000103335|ENST00000301015|PIEZO1 ENSG00000103335|ENST00000301015|PIEZO1 ENSG00000103335|ENST00000301015|PIEZO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.6240234375 3 545.951642 1634.8331 NaN NaN NaN NaN NaN NaN NaN 17.126 1 17.787 17.287 18.287 0.66072 0 0 0 1.0082 1 7723 7723 0 0 1 28532 1391 18433 18491 32129 32129 0.04107364474020869 RRQYLLSL 8 Unmodified _RRQYLLSL_ 0 0 0 ENST00000532865.5_2_6:26365433-26365496:+|nuORF ENST00000532865.5_2_6:26365433-26365496:+|nuORF ENST00000532865.5_2_6:26365433-26365496:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.2154235839844 3 350.213581 1047.61891 2.3336 0.00081727 1.5665 0.0005486 3.9001 0.0013659 350.2143192152025 37.709 0.40932 38.343 38.118 38.528 0.63389 28 13 3 0 0 0 0.70799 1 17307 17307 3.5965 0 1 547230 28533 8738 18434 18492 32130 32130 0.0970084432542535 RRQYWRLLVRR 11 Unmodified _RRQYWRLLVRR_ 0 0 0 REV__ENST00000379847.3_9:32573035-32573095:-|nuORF REV__ENST00000379847.3_9:32573035-32573095:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 801.8856201171875 2 801.484217 1600.95388 NaN NaN NaN NaN NaN NaN NaN 98.838 1 99.436 98.936 99.936 0.59748 0 0 0 1.008 1 45625 45625 0.30703 0.30703 1 + 28534 15875 18435 18493 32131 32131 0.17744192187456065 RRRAPAGVVP 10 Unmodified _RRRAPAGVVP_ 0 0 0 ENST00000603791.1_1_6:3751774-3752740:+|nuORF ENST00000603791.1_1_6:3751774-3752740:+|nuORF ENST00000603791.1_1_6:3751774-3752740:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.8353881835938 2 539.833249 1077.65194 3.5598 0.0019217 -0.73026 -0.00039422 2.8296 0.0015275 539.8326990306359 89.793 0.5903 90.045 89.848 90.438 0.25136 68 25 4 0 0 0 0.93534 1 41239 41239 1.8442 0.19162 1 1875700 28535 9308 18436 18494 32132 32132 0.11622471168129778 RRRAPAGVVP 10 Unmodified _RRRAPAGVVP_ 0 0 0 ENST00000603791.1_1_6:3751774-3752740:+|nuORF ENST00000603791.1_1_6:3751774-3752740:+|nuORF ENST00000603791.1_1_6:3751774-3752740:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.8361206054688 2 539.833249 1077.65194 3.5122 0.001896 -0.19257 -0.00010396 3.3196 0.001792 539.8329956643092 89.417 0.68742 90.095 89.91 90.597 0.67818 74 33 3 0 0 0 0.93534 1 41128 41128 1.8442 1.8442 1 1999900 28536 9308 18436 18494 32133 32133 0.11622471168129778 RRRARRRLQQQ 11 Unmodified _RRRARRRLQQQ_ 0 0 0 ENST00000469480.1_1_11:62342568-62343792:-|nuORF;ENSG00000149016|ENST00000476907|TUT1 ENST00000469480.1_1_11:62342568-62343792:-|nuORF ENST00000469480.1_1_11:62342568-62343792:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 305.18499755859375 5 305.590105 1522.91414 2.026 0.00061913 0.18911 5.779E-05 2.2151 0.00067692 305.5901430268316 50.669 0.73909 50.669 50.199 50.938 0 61 36 2 0 0 0 0.13295 1 22989 22989 0 0 1 2680500 28537 3624 18437 18495 32134 32134 0.17360065236789524 RRRARRRLQQQ 11 Unmodified _RRRARRRLQQQ_ 0 0 0 ENST00000469480.1_1_11:62342568-62343792:-|nuORF;ENSG00000149016|ENST00000476907|TUT1 ENST00000469480.1_1_11:62342568-62343792:-|nuORF ENST00000469480.1_1_11:62342568-62343792:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.3035888671875 3 508.645324 1522.91414 3.2489 0.0016525 -0.10545 -5.3639E-05 3.1434 0.0015989 508.6452121191148 50.107 0.22712 50.368 50.302 50.529 0.26146 13 8 2 0 0 0 0.13295 1 22906 22906 0.45452 0 1 354180 28538 3624 18437 18495 32135 32135 0.17360065236789524 RRRARRRLQQQ 11 Unmodified _RRRARRRLQQQ_ 0 0 0 ENST00000469480.1_1_11:62342568-62343792:-|nuORF;ENSG00000149016|ENST00000476907|TUT1 ENST00000469480.1_1_11:62342568-62343792:-|nuORF ENST00000469480.1_1_11:62342568-62343792:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 305.7063293457031 5 305.590105 1522.91414 2.0029 0.00061207 0.44886 0.00013717 2.4518 0.00074923 305.79081842241646 54.273 0.1765 54.939 54.843 55.019 0.6665 14 7 3 0 0 0 0.91489 1 24783 24783 0 0 1 820430 28539 3624 18437 18495 32136 32136 0.17360065236789524 RRRARRRLQQQ 11 Unmodified _RRRARRRLQQQ_ 0 0 0 ENST00000469480.1_1_11:62342568-62343792:-|nuORF;ENSG00000149016|ENST00000476907|TUT1 ENST00000469480.1_1_11:62342568-62343792:-|nuORF ENST00000469480.1_1_11:62342568-62343792:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.73712158203125 4 381.735812 1522.91414 2.6973 0.0010296 0.38745 0.0001479 3.0847 0.0011775 381.98672075351357 54.856 0.30864 55.522 55.444 55.753 0.6665 26 13 3 0 0 0 0.91489 1 25130 25130 0 0 1 439350 28540 3624 18437 18495 32137 32137 0.17360065236789524 RRRARRRLQQQ 11 Unmodified _RRRARRRLQQQ_ 0 0 0 ENST00000469480.1_1_11:62342568-62343792:-|nuORF;ENSG00000149016|ENST00000476907|TUT1 ENST00000469480.1_1_11:62342568-62343792:-|nuORF ENST00000469480.1_1_11:62342568-62343792:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 305.1849670410156 5 305.590105 1522.91414 2.1876 0.00066852 0.13945 4.2614E-05 2.3271 0.00071114 305.59005640346385 49.419 0.63749 50.074 49.734 50.371 0.65524 55 21 3 0 0 0 0.13295 1 22528 22528 0 0 1 1981000 28541 3624 18437 18495 32138 32138 0.17360065236789524 RRRARRRLQQQ 11 Unmodified _RRRARRRLQQQ_ 0 0 0 ENST00000469480.1_1_11:62342568-62343792:-|nuORF;ENSG00000149016|ENST00000476907|TUT1 ENST00000469480.1_1_11:62342568-62343792:-|nuORF ENST00000469480.1_1_11:62342568-62343792:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 5 305.590105 1522.91414 2.3426 0.00071587 -0.32168 -9.8303E-05 2.0209 0.00061757 305.589877399363 49.882 0.96862 50.705 50.22 51.189 0.82285 0.019219 -0.00032486 NaN 0 76 48 3 NaN NaN NaN NaN 0 NaN NaN 0 686360 28542 3624 18437 18495 0.17360065236789524 RRRARRRLQQQ 11 Unmodified _RRRARRRLQQQ_ 0 0 0 ENST00000469480.1_1_11:62342568-62343792:-|nuORF;ENSG00000149016|ENST00000476907|TUT1 ENST00000469480.1_1_11:62342568-62343792:-|nuORF ENST00000469480.1_1_11:62342568-62343792:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 381.735812 1522.91414 2.5845 0.00098659 0.12752 4.868E-05 2.712 0.0010353 381.73593994228486 55.321 0.068619 55.586 55.548 55.616 0.26543 0.032166 -0.00027514 NaN 0 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 525930 28543 3624 18437 18495 0.17360065236789524 RRRARRRLQQQ 11 Unmodified _RRRARRRLQQQ_ 0 0 0 ENST00000469480.1_1_11:62342568-62343792:-|nuORF;ENSG00000149016|ENST00000476907|TUT1 ENST00000469480.1_1_11:62342568-62343792:-|nuORF ENST00000469480.1_1_11:62342568-62343792:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 5 305.590105 1522.91414 2.1278 0.00065025 -0.26439 -8.0794E-05 1.8635 0.00056945 305.5900391873911 50.422 0.29219 50.683 50.587 50.879 0.26146 -0.0024406 -0.00023732 NaN 0 24 15 2 NaN NaN NaN NaN 0 NaN NaN 0 761430 28544 3624 18437 18495 0.17360065236789524 RRRARRRLQQQ 11 Unmodified _RRRARRRLQQQ_ 0 0 0 ENST00000469480.1_1_11:62342568-62343792:-|nuORF;ENSG00000149016|ENST00000476907|TUT1 ENST00000469480.1_1_11:62342568-62343792:-|nuORF ENST00000469480.1_1_11:62342568-62343792:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 5 305.590105 1522.91414 2.1744 0.00066446 0.20012 6.1155E-05 2.3745 0.00072562 305.5900319853743 50.13 0.71594 50.391 49.903 50.619 0.26146 0.15877 4.3622E-05 NaN 0 67 27 3 NaN NaN NaN NaN 0 NaN NaN 0 1220800 28545 3624 18437 18495 0.17360065236789524 RRRARRRLQQQ 11 Unmodified _RRRARRRLQQQ_ 0 0 0 ENST00000469480.1_1_11:62342568-62343792:-|nuORF;ENSG00000149016|ENST00000476907|TUT1 ENST00000469480.1_1_11:62342568-62343792:-|nuORF ENST00000469480.1_1_11:62342568-62343792:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 5 305.590105 1522.91414 1.9135 0.00058473 1.5234 0.00046553 3.4368 0.0010503 305.59060330464655 55.015 0.1268 55.28 55.178 55.305 0.26543 0.17057 0.0011067 NaN 0 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 864530 28546 3624 18437 18495 0.17360065236789524 RRRARRRLQQQ 11 Unmodified _RRRARRRLQQQ_ 0 0 0 ENST00000469480.1_1_11:62342568-62343792:-|nuORF;ENSG00000149016|ENST00000476907|TUT1 ENST00000469480.1_1_11:62342568-62343792:-|nuORF ENST00000469480.1_1_11:62342568-62343792:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 381.735812 1522.91414 2.6973 0.0010296 0.38745 0.0001479 3.0847 0.0011775 381.98672075351357 54.856 0.30864 55.522 55.444 55.753 0.6665 -0.032166 0.00012175 NaN 0 26 13 3 NaN NaN NaN NaN 0 NaN NaN 0 439350 28547 3624 18437 18495 0.17360065236789524 RRRARRRLQQQ 11 Unmodified _RRRARRRLQQQ_ 0 0 0 ENST00000469480.1_1_11:62342568-62343792:-|nuORF;ENSG00000149016|ENST00000476907|TUT1 ENST00000469480.1_1_11:62342568-62343792:-|nuORF ENST00000469480.1_1_11:62342568-62343792:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 5 305.590105 1522.91414 2.0029 0.00061207 0.44886 0.00013717 2.4518 0.00074923 305.79081842241646 54.273 0.1765 54.939 54.843 55.019 0.6665 -0.17057 -0.00053518 NaN 0 14 7 3 NaN NaN NaN NaN 0 NaN NaN 0 820430 28548 3624 18437 18495 0.17360065236789524 RRRAVWRPWRL 11 Unmodified _RRRAVWRPWRL_ 0 0 0 REV__ENST00000370406.7_1_X:149106490-149106673:-|nuORF REV__ENST00000370406.7_1_X:149106490-149106673:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 776.4695434570312 2 776.465827 1550.9171 NaN NaN NaN NaN NaN NaN NaN 80.816 1 81.476 80.976 81.976 0.65998 0 0 0 1.0082 1 37238 37238 0 0 1 + 28549 15725 18438 18496 32139 32139 0.1636794036160154 RRRDALRLR 9 Unmodified _RRRDALRLR_ 0 0 0 ENST00000270357.9_2_2:241508179-241513275:+|nuORF ENST00000270357.9_2_2:241508179-241513275:+|nuORF ENST00000270357.9_2_2:241508179-241513275:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.58990478515625 3 404.590045 1210.7483 NaN NaN NaN NaN NaN NaN NaN 31.61 1 32.399 31.899 32.899 0.78879 0 0 0 0.89602 1 14278 14278 4.5289 0 1 28550 6649 18439 18497 32140 32140 0.15136038728041967 RRRDALRLR 9 Unmodified _RRRDALRLR_ 0 0 0 ENST00000270357.9_2_2:241508179-241513275:+|nuORF ENST00000270357.9_2_2:241508179-241513275:+|nuORF ENST00000270357.9_2_2:241508179-241513275:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.5898742675781 3 404.590045 1210.7483 NaN NaN NaN NaN NaN NaN NaN 31.731 1 32.519 32.019 33.019 0.78795 0 0 0 0.89602 1 14335 14335 4.5289 0 1 28551 6649 18439 18497 32141 32141 0.15136038728041967 RRRDAQRRRPG 11 Unmodified _RRRDAQRRRPG_ 0 0 0 ENST00000471135.2_1_17:17586964-17696247:+|nuORF ENST00000471135.2_1_17:17586964-17696247:+|nuORF ENST00000471135.2_1_17:17586964-17696247:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 356.71173095703125 4 356.7108 1422.81409 2.3989 0.0008557 -0.28127 -0.00010033 2.1176 0.00075536 356.96146258960675 61.648 0.70269 62.308 61.709 62.412 0.66008 99 54 2 0 0 0 0.91068 1 28030 28030 1.3296 0.11481 1 69514000 28552 8179 18440 18498 32142 32142 0.11959827902956022 RRRDRERERLR 11 Unmodified _RRRDRERERLR_ 0 0 0 REV__ENST00000524669.5_1_11:57417156-57417411:-|nuORF REV__ENST00000524669.5_1_11:57417156-57417411:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 799.4612426757812 2 799.464544 1596.91454 NaN NaN NaN NaN NaN NaN NaN 56.866 1 57.644 57.144 58.144 0.77786 0 0 0 1.008 1 26011 26011 0.26902 0.26902 1 + 28553 17077 18441 18499 32143 32143 0.13995440165945183 RRREAPLRR 9 Unmodified _RRREAPLRR_ 0 0 0 REV__ENST00000493483.5_1_1:33799498-33815372:-|nuORF REV__ENST00000493483.5_1_1:33799498-33815372:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 303.190185546875 4 303.19044 1208.73265 1.9534 0.00059225 -1.085 -0.00032897 0.86836 0.00026328 303.18987860168977 39.547 0.5681 39.547 39.255 39.823 0 52 24 3 0 0 0 1.178 1 17956 17956 1.0715 0 1 1987800 + 28554 16750 18442 18500 32144 32144 0.13663752211004976 RRREIHEHKLR 11 Unmodified _RRREIHEHKLR_ 0 0 0 REV__ENSG00000160007|ENST00000672722|ARHGAP35 REV__ENSG00000160007|ENST00000672722|ARHGAP35 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.6359558105469 3 510.634313 1528.88111 NaN NaN NaN NaN NaN NaN NaN 106.24 1 106.84 106.34 107.34 0.60014 0 0 0 1.0082 1 49055 49055 0 0 1 + 28555 12861 18443 18501 32145 32145 0.13782438394059682 RRREKPRRRER 11 Unmodified _RRREKPRRRER_ 0 0 0 REV__nc|ENSG00000077157|O60237-4|PPP1R12B REV__nc|ENSG00000077157|O60237-4|PPP1R12B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 797.826171875 2 797.982904 1593.95125 NaN NaN NaN NaN NaN NaN NaN 99.702 1 100.01 99.511 100.51 0.30835 0 0 0 1.0082 1 46083 46083 0 0 1 + 28556 10552 18444 18502 32146 32146 0.17803736782525448 RRRELLELRRK 11 Unmodified _RRRELLELRRK_ 0 0 0 ENSG00000159450|ENST00000614923|TCHH ENSG00000159450|ENST00000614923|TCHH ENSG00000159450|ENST00000614923|TCHH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 762.98095703125 2 762.981507 1523.94846 NaN NaN NaN NaN NaN NaN NaN 96.579 1 96.656 96.156 97.156 0.076538 0 0 0 1.0082 1 51368 51368 0 0 1 28557 4025 18445 18503 32147 32147 0.20744468604993926 RRRELRRLRKE 11 Unmodified _RRRELRRLRKE_ 0 0 0 REV__nc|ENSG00000196557|O95180-2|CACNA1H REV__nc|ENSG00000196557|O95180-2|CACNA1H MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 784.4932861328125 2 784.49003 1566.96551 NaN NaN NaN NaN NaN NaN NaN 95.651 1 95.919 95.419 96.419 0.2675 0 0 0 1.0082 1 43949 43949 0 0 1 + 28558 14230 18446 18504 32148 32148 0.20470389210800022 RRRELRRLRKE 11 Unmodified _RRRELRRLRKE_ 0 0 0 REV__nc|ENSG00000196557|O95180-2|CACNA1H REV__nc|ENSG00000196557|O95180-2|CACNA1H MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 784.4918823242188 2 784.49003 1566.96551 NaN NaN NaN NaN NaN NaN NaN 95.201 1 95.819 95.319 96.319 0.61736 0 0 0 1.0082 1 43781 43781 0 0 1 + 28559 14230 18446 18504 32149 32149 0.20470389210800022 RRRELWFWWR 10 Unmodified _RRRELWFWWR_ 0 0 0 ENST00000246635.7_1_17:39661629-39661743:-|nuORF ENST00000246635.7_1_17:39661629-39661743:-|nuORF ENST00000246635.7_1_17:39661629-39661743:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.0043334960938 3 530.956616 1589.84802 NaN NaN NaN NaN NaN NaN NaN 63.717 1 64.439 63.939 64.939 0.72236 0 0 0 1.0019 1 29874 29874 0.12286 0.028024 1 28560 6492 18447 18505 32150 32150 0.07668856342002073 RRRELWFWWRG 11 Unmodified _RRRELWFWWRG_ 0 0 0 ENST00000246635.7_1_17:39661629-39661743:-|nuORF ENST00000246635.7_1_17:39661629-39661743:-|nuORF ENST00000246635.7_1_17:39661629-39661743:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 824.4385375976562 2 824.442018 1646.86948 NaN NaN NaN NaN NaN NaN NaN 58.528 1 59.195 58.695 59.695 0.66703 0 0 0 1.008 1 26792 26792 0.30703 0.30703 1 28561 6492 18448 18506 32151 32151 0.07192241370694319 RRREPWQERLL 11 Unmodified _RRREPWQERLL_ 0 0 0 REV__nc|ENSG00000079337|O95398-2|RAPGEF3 REV__nc|ENSG00000079337|O95398-2|RAPGEF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 769.9381713867188 2 769.936765 1537.85898 NaN NaN NaN NaN NaN NaN NaN 92.581 1 92.667 92.167 93.167 0.086212 0 0 0 1.008 1 48293 48293 0.26902 0.26902 1 + 28562 10579 18449 18507 32152 32152 0.1115621392561934 RRRERRRRKRQ 11 Unmodified _RRRERRRRKRQ_ 0 0 0 REV__ENST00000444772.3_1_10:21805118-21806168:-|nuORF REV__ENST00000444772.3_1_10:21805118-21806168:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 827.0157470703125 2 827.01507 1652.01559 NaN NaN NaN NaN NaN NaN NaN 42.479 1 42.749 42.249 43.249 0.27021 0 0 0 1.0082 1 19372 19372 0 0 1 + 28563 16373 18450 18508 32153 32153 0.2156593665931723 RRRERRRRLMN 11 Unmodified _RRRERRRRLMN_ 0 0 0 REV__ENST00000352432.8_2_3:10369406-10369550:-|nuORF REV__ENST00000352432.8_2_3:10369406-10369550:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.5397338867188 3 533.65008 1597.92841 NaN NaN NaN NaN NaN NaN NaN 82.894 1 82.939 82.439 83.439 0.045006 0 0 0 1.0079 1 41003 41003 0.45452 0.31463 1 + 28564 15527 18451 18509 32154 32154 0.1533639439342096 RRRFRRLDRRW 11 Unmodified _RRRFRRLDRRW_ 0 0 0 REV__ENST00000505007.5_1_5:138941007-138941097:+|nuORF REV__ENST00000505007.5_1_5:138941007-138941097:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 836.9966430664062 2 836.995814 1671.97708 NaN NaN NaN NaN NaN NaN NaN 63.047 1 63.769 63.269 64.269 0.72236 0 0 0 1.0082 1 29496 29496 0 0 1 + 28565 16915 18452 18510 32155 32155 0.16796631024794806 RRRFWRQTQQL 11 Unmodified _RRRFWRQTQQL_ 0 0 0 REV__ENST00000558501.5_1_19:8275630-8321979:+|nuORF REV__ENST00000558501.5_1_19:8275630-8321979:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 525.628662109375 3 525.63068 1573.87021 NaN NaN NaN NaN NaN NaN NaN 71.727 1 72.431 71.931 72.931 0.70386 0 0 0 1.0079 1 34475 34475 0.50596 0.051438 1 + 28566 10716 18453 18511 32156 32156 0.10623036019796928 RRRGLAGV 8 Unmodified _RRRGLAGV_ 0 0 0 REV__ENST00000392432.6_1_3:194349154-194354092:-|nuORF REV__ENST00000392432.6_1_3:194349154-194354092:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 442.7812194824219 2 442.780485 883.546417 NaN NaN NaN NaN NaN NaN NaN 66.345 1 66.345 65.845 66.845 0 0 0 0 0.99035 1 31699 31699 5.2307 0 1 + 28567 15928 18454 18512 32157 32157 0.09998555042511725 RRRGQRQPRRR 11 Unmodified _RRRGQRQPRRR_ 0 0 0 ENST00000480045.5_1_1:53793643-53793739:-|nuORF ENST00000480045.5_1_1:53793643-53793739:-|nuORF ENST00000480045.5_1_1:53793643-53793739:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.2350769042969 4 381.234708 1520.90972 2.9062 0.001108 -3.3041 -0.0012596 -0.39791 -0.0001517 381.2333657377474 49.168 0.19782 49.43 49.298 49.496 0.26146 10 7 2 0 0 0 0.91111 1 22495 22495 0.40827 0.32491 1 532990 28568 8273 18455 18513 32158 32158 0.17010600813841847 RRRGRFLTRRG 11 Unmodified _RRRGRFLTRRG_ 0 0 0 REV__nc|ENSG00000161813|Q71RC2-2|LARP4 REV__nc|ENSG00000161813|Q71RC2-2|LARP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 477.6288757324219 3 477.627381 1429.86031 3.8773 0.0018519 0.093869 4.4834E-05 3.9712 0.0018967 477.62735597403866 100.03 0.12119 100.33 100.26 100.38 0.30834 12 5 3 0 0 0 0.91459 1 46268 46268 0.094841 0 1 1595300 + 28569 12920 18456 18514 32159 32159 0.16257892805037955 RRRGRFLTRRG 11 Unmodified _RRRGRFLTRRG_ 0 0 0 REV__nc|ENSG00000161813|Q71RC2-2|LARP4 REV__nc|ENSG00000161813|Q71RC2-2|LARP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.62872314453125 3 477.627381 1429.86031 3.3055 0.0015788 0.24609 0.00011754 3.5516 0.0016964 477.6274574718843 99.889 0.14716 100.49 100.42 100.57 0.59717 16 7 3 0 0 0 0.91459 1 46232 46232 0.094841 0 1 2885300 + 28570 12920 18456 18514 32160 32160 0.16257892805037955 RRRGRFLTRRG 11 Unmodified _RRRGRFLTRRG_ 0 0 0 REV__nc|ENSG00000161813|Q71RC2-2|LARP4 REV__nc|ENSG00000161813|Q71RC2-2|LARP4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 477.627381 1429.86031 3.8773 0.0018519 0.093869 4.4834E-05 3.9712 0.0018967 477.62735597403866 100.03 0.12119 100.33 100.26 100.38 0.30834 -0.07642 -0.00012148 NaN 0.094841 12 5 3 NaN NaN NaN NaN 0 NaN NaN 0 1595300 + 28571 12920 18456 18514 0.16257892805037955 RRRGRFLTRRG 11 Unmodified _RRRGRFLTRRG_ 0 0 0 REV__nc|ENSG00000161813|Q71RC2-2|LARP4 REV__nc|ENSG00000161813|Q71RC2-2|LARP4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 477.627381 1429.86031 3.3055 0.0015788 0.24609 0.00011754 3.5516 0.0016964 477.6274574718843 99.889 0.14716 100.49 100.42 100.57 0.59717 0.07642 9.6642E-05 NaN 0.094841 16 7 3 NaN NaN NaN NaN 0 NaN NaN 0 2885300 + 28572 12920 18456 18514 0.16257892805037955 RRRGWPRRR 9 Unmodified _RRRGWPRRR_ 0 0 0 ENST00000481904.5_1_6:35744395-35744569:+|nuORF ENST00000481904.5_1_6:35744395-35744569:+|nuORF ENST00000481904.5_1_6:35744395-35744569:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.3955078125 2 648.392662 1294.77077 2.3741 0.0015393 0.31274 0.00020278 2.6868 0.0017421 648.3939872042848 100.57 0.14346 100.63 100.57 100.71 0.059723 10 8 2 0 0 0 0.96953 1 54593 54593 3.9444 0.66309 1 7759700 28573 8298 18457 18515 32161 32161 0.13517682916335616 RRRGWPRRR 9 Unmodified _RRRGWPRRR_ 0 0 0 ENST00000481904.5_1_6:35744395-35744569:+|nuORF ENST00000481904.5_1_6:35744395-35744569:+|nuORF ENST00000481904.5_1_6:35744395-35744569:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 648.392662 1294.77077 3.3455 0.0021692 0.593 0.0003845 3.9385 0.0025537 648.3931707930087 100.71 0.085663 100.71 100.64 100.72 0 0.042127 3.3136E-05 NaN 3.9444 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 5566600 28574 8298 18457 18515 0.13517682916335616 RRRHAFRRQA 10 Unmodified _RRRHAFRRQA_ 0 0 0 nc|ENSG00000022567|Q5BKX6-2|SLC45A4;nc|ENSG00000022567|Q5BKX6|SLC45A4;nc|ENSG00000022567|Q5BKX6-3|SLC45A4;ENSG00000022567|ENST00000517878|SLC45A4 nc|ENSG00000022567|Q5BKX6-2|SLC45A4 nc|ENSG00000022567|Q5BKX6-2|SLC45A4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 677.4014892578125 2 677.395402 1352.77625 4.1363 0.0028019 0.10887 7.3751E-05 4.2452 0.0028757 677.3955368761267 92.085 0.45309 92.732 92.421 92.874 0.64714 37 21 2 0 0 0 0.94374 1 42392 42392 0.40072 0.050084 1 493780 28575 464 18458 18516 32162 32162 0.11397361708168319 RRRHKVCWRLN 11 Unmodified _RRRHKVCWRLN_ 0 0 0 ENST00000304877.17_2_6:125475035-125541268:+|nuORF ENST00000304877.17_2_6:125475035-125541268:+|nuORF ENST00000304877.17_2_6:125475035-125541268:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 762.4342651367188 2 762.43367 1522.85279 NaN NaN NaN NaN NaN NaN NaN 85.489 1 86.155 85.655 86.655 0.66566 0 0 0 1.0082 1 39366 39366 0 0 1 28576 6831 18459 18517 32163 32163 0.112274172131265 RRRHLPGRRF 10 Unmodified _RRRHLPGRRF_ 0 0 0 ENST00000347739.3_1_8:22887146-22887185:-|nuORF ENST00000347739.3_1_8:22887146-22887185:-|nuORF ENST00000347739.3_1_8:22887146-22887185:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 675.9063110351562 2 675.908145 1349.80174 NaN NaN NaN NaN NaN NaN NaN 107.15 1 107.47 106.97 107.97 0.31421 0 0 0 1.0015 1 49437 49437 0.40072 0.050084 1 28577 7120 18460 18518 32164 32164 0.14082836230591056 RRRHLRRLLLL 11 Unmodified _RRRHLRRLLLL_ 0 0 0 REV__ENST00000379162.8_1_X:24483408-24483594:+|nuORF REV__ENST00000379162.8_1_X:24483408-24483594:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 751.505126953125 2 751.504952 1500.99535 NaN NaN NaN NaN NaN NaN NaN 40.589 1 41.392 40.892 41.892 0.80351 0 0 0 1.0082 1 18387 18387 0 0 1 + 28578 15861 18461 18519 32165 32165 0.26489372946844014 RRRHQRKYRRY 11 Unmodified _RRRHQRKYRRY_ 0 0 0 nc|ENSG00000117616|Q9BUV0-3|RSRP1;nc|ENSG00000117616|Q9BUV0-2|RSRP1;ENSG00000117616|ENST00000243189|RSRP1 nc|ENSG00000117616|Q9BUV0-3|RSRP1 nc|ENSG00000117616|Q9BUV0-3|RSRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.9933471679688 3 558.992723 1673.95634 NaN NaN NaN NaN NaN NaN NaN 109.96 1 110.27 109.77 110.77 0.31015 0 0 0 1.0082 1 50680 50680 0 0 1 28579 2085 18462 18520 32166 32166 0.14632040645165034 RRRHRPRRRRL 11 Unmodified _RRRHRPRRRRL_ 0 0 0 ENST00000532915.1_1_11:62538888-62545815:+|nuORF;ENST00000524976.5_1_11:62538888-62549806:+|nuORF ENST00000532915.1_1_11:62538888-62545815:+|nuORF ENST00000532915.1_1_11:62538888-62545815:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.0128784179688 3 539.012341 1614.01519 NaN NaN NaN NaN NaN NaN NaN 61.618 1 61.618 61.118 62.118 0 0 0 0 1.0082 1 28760 28760 0 0 1 28580 8668 18463 18521 32167 32167 0.23274561730136156 RRRHRPRRRRL 11 Unmodified _RRRHRPRRRRL_ 0 0 0 ENST00000532915.1_1_11:62538888-62545815:+|nuORF;ENST00000524976.5_1_11:62538888-62549806:+|nuORF ENST00000532915.1_1_11:62538888-62545815:+|nuORF ENST00000532915.1_1_11:62538888-62545815:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.012939453125 3 539.012341 1614.01519 NaN NaN NaN NaN NaN NaN NaN 68.267 1 68.969 68.469 69.469 0.70218 0 0 0 1.0082 1 32541 32541 0.094841 0 1 28581 8668 18463 18521 32168 32168 0.23274561730136156 RRRHRPRRRRL 11 Unmodified _RRRHRPRRRRL_ 0 0 0 ENST00000532915.1_1_11:62538888-62545815:+|nuORF;ENST00000524976.5_1_11:62538888-62549806:+|nuORF ENST00000532915.1_1_11:62538888-62545815:+|nuORF ENST00000532915.1_1_11:62538888-62545815:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 808.0145263671875 2 808.014873 1614.01519 NaN NaN NaN NaN NaN NaN NaN 104.33 1 104.39 103.89 104.89 0.052994 0 0 0 1.0082 1 56496 56496 0 0 1 28582 8668 18463 18521 32169 32169 0.23274561730136156 RRRHRPRRRRL 11 Unmodified _RRRHRPRRRRL_ 0 0 0 ENST00000532915.1_1_11:62538888-62545815:+|nuORF;ENST00000524976.5_1_11:62538888-62549806:+|nuORF ENST00000532915.1_1_11:62538888-62545815:+|nuORF ENST00000532915.1_1_11:62538888-62545815:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 808.011962890625 2 808.014873 1614.01519 NaN NaN NaN NaN NaN NaN NaN 84.339 1 84.586 84.086 85.086 0.24757 0 0 0 1.0082 1 38817 38817 0 0 1 28583 8668 18463 18521 32170 32170 0.23274561730136156 RRRHWWDWVR 10 Unmodified _RRRHWWDWVR_ 0 0 0 REV__ENST00000583780.1_2_17:18263786-18266854:-|nuORF REV__ENST00000583780.1_2_17:18263786-18266854:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 776.8778686523438 2 776.910885 1551.80722 NaN NaN NaN NaN NaN NaN NaN 87.534 1 87.534 87.034 88.034 0 0 0 0 1.0016 1 45168 45168 0.35063 0.081612 1 + 28584 17524 18464 18522 32171 32171 0.05338515022367574 RRRHWWDWVRQ 11 Unmodified _RRRHWWDWVRQ_ 0 0 0 REV__ENST00000583780.1_2_17:18263786-18266854:-|nuORF REV__ENST00000583780.1_2_17:18263786-18266854:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.738037109375 3 560.962541 1679.86579 NaN NaN NaN NaN NaN NaN NaN 39.754 1 39.754 39.254 40.254 0 0 0 0 1.0082 1 18042 18042 0.08335 0 1 + 28585 17524 18465 18523 32172 32172 0.05305571596863956 RRRIHQELKKR 11 Unmodified _RRRIHQELKKR_ 0 0 0 REV__ENSG00000214929|ENST00000344803|SPATA31D1 REV__ENSG00000214929|ENST00000344803|SPATA31D1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.6917419433594 4 380.740563 1518.93315 2.7866 0.001061 -0.80368 -0.00030599 1.9829 0.00075496 380.9907112051039 57.578 0.1997 58.246 58.174 58.374 0.66829 18 13 2 0 0 0 0.13295 1 26321 26321 0.094841 0 1 392140 + 28586 14519 18466 18524 32173 32173 0.19443601807802224 RRRIHQELKKR 11 Unmodified _RRRIHQELKKR_ 0 0 0 REV__ENSG00000214929|ENST00000344803|SPATA31D1 REV__ENSG00000214929|ENST00000344803|SPATA31D1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 380.740563 1518.93315 2.2093 0.00084117 -1.5923 -0.00060626 0.617 0.00023492 380.99097157890003 57.267 0.058594 58.035 58.009 58.068 0.76861 -0.1055 -0.00085603 NaN 0.094841 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 780240 + 28587 14519 18466 18524 0.19443601807802224 RRRIKLTF 8 Unmodified _RRRIKLTF_ 0 0 0 nc|ENSG00000115762|Q96CS7-2|PLEKHB2 nc|ENSG00000115762|Q96CS7-2|PLEKHB2 nc|ENSG00000115762|Q96CS7-2|PLEKHB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.8941040039062 2 545.353817 1088.69308 NaN NaN NaN NaN NaN NaN NaN 85.932 1 86.602 86.102 87.102 0.67061 0 0 0 0.99035 1 39570 39570 2.5775 0 1 28588 9607 18467 18525 32174 32174 0.15228232207596193 RRRKKERKEKR 11 Unmodified _RRRKKERKEKR_ 0 0 0 ENST00000521946.5_1_8:70505207-70554528:+|nuORF;ENSG00000137573|ENST00000402687|SULF1 ENST00000521946.5_1_8:70505207-70554528:+|nuORF ENST00000521946.5_1_8:70505207-70554528:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 785.50048828125 2 785.497856 1568.98116 NaN NaN NaN NaN NaN NaN NaN 86.777 1 86.808 86.308 87.308 0.030289 0 0 0 1.0082 1 43755 43755 0 0 1 28589 3027 18468 18526 32175 32175 0.2194267572785975 RRRKKKKAKR 10 Unmodified _RRRKKKKAKR_ 0 0 0 ENST00000530731.5_1_11:124495676-124501136:+|nuORF;nc|ENSG00000154144|Q3YBR2-2|TBRG1 ENST00000530731.5_1_11:124495676-124501136:+|nuORF ENST00000530731.5_1_11:124495676-124501136:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.9713134765625 2 677.970745 1353.92694 NaN NaN NaN NaN NaN NaN NaN 91.743 1 91.995 91.495 92.495 0.25253 0 0 0 1.002 1 42182 42182 0 0 1 28590 8716 18469 18527 32176 32176 0.2641312836697125 RRRKKKKKHHL 11 Unmodified _RRRKKKKKHHL_ 0 0 0 nc|ENSG00000160208|Q14684-2|RRP1B;ENSG00000160208|ENST00000340648|RRP1B nc|ENSG00000160208|Q14684-2|RRP1B nc|ENSG00000160208|Q14684-2|RRP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 758.005615234375 2 758.002577 1513.9906 NaN NaN NaN NaN NaN NaN NaN 49.63 1 49.63 49.13 50.13 0 0 0 0 1.0082 1 22724 22724 0 0 1 28591 4047 18470 18528 32177 32177 0.25416488804057735 RRRKKKVKKLK 11 Unmodified _RRRKKKVKKLK_ 0 0 0 REV__INO80|p.L861Sfs*29|1|0.04|ENSG00000128908|chr15:41048271-41048272|-/TTTATAAAATCTTGATAAG|frameshift_variant REV__INO80|p.L861Sfs*29|1|0.04|ENSG00000128908|chr15:41048271-41048272|-/TTTATAAAATCTTGATAAG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 734.526611328125 2 734.525353 1467.03615 NaN NaN NaN NaN NaN NaN NaN 77.95 1 78.203 77.703 78.703 0.25335 0 0 0 1.0082 1 35898 35898 0 0 1 + 28592 11774 18471 18529 32178 32178 0.32131714266415656 RRRKKKVKKLK 11 Unmodified _RRRKKKVKKLK_ 0 0 0 REV__INO80|p.L861Sfs*29|1|0.04|ENSG00000128908|chr15:41048271-41048272|-/TTTATAAAATCTTGATAAG|frameshift_variant REV__INO80|p.L861Sfs*29|1|0.04|ENSG00000128908|chr15:41048271-41048272|-/TTTATAAAATCTTGATAAG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.83831787109375 3 490.019328 1467.03615 NaN NaN NaN NaN NaN NaN NaN 74.751 1 75.415 74.915 75.915 0.6644 0 0 0 1.0082 1 34419 34419 0 0 1 + 28593 11774 18471 18529 32179 32179 0.32131714266415656 RRRKKLDKVRK 11 Unmodified _RRRKKLDKVRK_ 0 0 0 REV__nc|ENSG00000204713|P14373-2|TRIM27 REV__nc|ENSG00000204713|P14373-2|TRIM27 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 741.9940795898438 2 741.994417 1481.97428 NaN NaN NaN NaN NaN NaN NaN 31.509 1 31.509 31.009 32.009 0 0 0 0 1.0082 1 14255 14255 0 0 1 + 28594 14438 18472 18530 32180 32180 0.2525736284726463 RRRKKLILLRI 11 Unmodified _RRRKKLILLRI_ 0 0 0 ENST00000395954.3_1_20:52773958-52774087:-|nuORF ENST00000395954.3_1_20:52773958-52774087:-|nuORF ENST00000395954.3_1_20:52773958-52774087:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 733.0220947265625 2 733.019904 1464.02525 NaN NaN NaN NaN NaN NaN NaN 52.006 1 52.006 51.506 52.506 0 0 0 0 1.0082 1 23813 23813 0 0 1 28595 7562 18473 18531 32181 32181 0.3118031189217163 RRRKKRKKKRK 11 Unmodified _RRRKKRKKKRK_ 0 0 0 ENST00000216190.12_1_22:36906978-36907630:-|nuORF ENST00000216190.12_1_22:36906978-36907630:-|nuORF ENST00000216190.12_1_22:36906978-36907630:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 784.5494384765625 2 784.550225 1567.0859 NaN NaN NaN NaN NaN NaN NaN 64.702 1 64.95 64.45 65.45 0.24803 0 0 0 1.0082 1 29642 29642 0 0 1 28596 6405 18474 18532 32182 32182 0.32503841995071525 RRRKKRKKKRK 11 Unmodified _RRRKKRKKKRK_ 0 0 0 ENST00000216190.12_1_22:36906978-36907630:-|nuORF ENST00000216190.12_1_22:36906978-36907630:-|nuORF ENST00000216190.12_1_22:36906978-36907630:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.4978637695312 3 523.369242 1567.0859 NaN NaN NaN NaN NaN NaN NaN 68.794 1 69.453 68.953 69.953 0.65924 0 0 0 1.0082 1 31535 31535 0 0 1 28597 6405 18474 18532 32183 32183 0.32503841995071525 RRRKPPKC 8 Unmodified _RRRKPPKC_ 0 0 0 REV__ENST00000508548.1_1_6:57016996-57018898:+|nuORF REV__ENST00000508548.1_1_6:57016996-57018898:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.593994140625 3 347.546788 1039.61854 2.2409 0.00077881 1.05 0.00036492 3.2908 0.0011437 347.5470383256541 52.895 0.66577 53.56 53.405 54.071 0.6644 72 32 3 0 0 0 0.1432 1 24422 24422 1.4819 0 1 2391400 + 28598 16955 18475 18533 32184 32184 0.10031146124583756 RRRKPPKC 8 Unmodified _RRRKPPKC_ 0 0 0 REV__ENST00000508548.1_1_6:57016996-57018898:+|nuORF REV__ENST00000508548.1_1_6:57016996-57018898:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 347.546788 1039.61854 2.748 0.00095506 0.95048 0.00033034 3.6985 0.0012854 347.5470220988661 53.492 0.15811 53.492 53.404 53.562 0 -0.051851 0.00024152 NaN 1.4819 20 10 3 NaN NaN NaN NaN 0 NaN NaN 0 1323000 + 28599 16955 18475 18533 0.10031146124583756 RRRKPPKC 8 Unmodified _RRRKPPKC_ 0 0 0 REV__ENST00000508548.1_1_6:57016996-57018898:+|nuORF REV__ENST00000508548.1_1_6:57016996-57018898:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 347.546788 1039.61854 2.1416 0.0007443 0.27007 9.3862E-05 2.4116 0.00083816 347.546908495281 52.777 0.44373 53.581 53.439 53.883 0.80351 0.036338 -0.00046791 NaN 1.4819 57 29 2 NaN NaN NaN NaN 0 NaN NaN 0 2019300 + 28600 16955 18475 18533 0.10031146124583756 RRRKPQSV 8 Unmodified _RRRKPQSV_ 0 0 0 REV__PIWIL1|p.S562Ifs*30|1|0.09|ENSG00000125207|chr12:130361199-130361199|G/-|frameshift_variant REV__PIWIL1|p.S562Ifs*30|1|0.09|ENSG00000125207|chr12:130361199-130361199|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8196411132812 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 2.2149 1 2.8365 2.3365 3.3365 0.62157 0 0 0 0.99035 1 1008 1008 0.69038 0 1 + 28601 11671 18476 18534 32185 32185 0.10885898134029048 RRRKQWEKIYR 11 Unmodified _RRRKQWEKIYR_ 0 0 0 ENST00000553956.6_1_17:62527116-62533894:+|nuORF ENST00000553956.6_1_17:62527116-62533894:+|nuORF ENST00000553956.6_1_17:62527116-62533894:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 809.97216796875 2 809.973682 1617.93281 NaN NaN NaN NaN NaN NaN NaN 65.931 1 65.931 65.431 66.431 0 0 0 0 1.008 1 31439 31439 0.30703 0.30703 1 28602 8901 18477 18535 32186 32186 0.14856182087964953 RRRKRAPKI 9 Unmodified _RRRKRAPKI_ 0 0 0 REV__nc|ENSG00000181090|Q9H9B1-4|EHMT1 REV__nc|ENSG00000181090|Q9H9B1-4|EHMT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.2678527832031 3 394.266902 1179.77888 NaN NaN NaN NaN NaN NaN NaN 39.79 1 40.59 40.09 41.09 0.80014 0 0 0 0.90431 1 18015 18015 2.4985 0.59211 1 + 28603 13842 18478 18536 32187 32187 0.19617817113112324 RRRKRFKVLKS 11 Unmodified _RRRKRFKVLKS_ 0 0 0 ENSG00000171956|ENST00000396057|FOXB1 ENSG00000171956|ENST00000396057|FOXB1 ENSG00000171956|ENST00000396057|FOXB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 737.2979736328125 2 737.483686 1472.95282 NaN NaN NaN NaN NaN NaN NaN 83.943 1 83.943 83.443 84.443 0 0 0 0 1.0082 1 42384 42384 0 0 1 28604 4848 18479 18537 32188 32188 0.23525977818576393 RRRKRKLKELK 11 Unmodified _RRRKRKLKELK_ 0 0 0 REV__ENST00000216297.6_1_14:21829121-21829307:-|nuORF REV__ENST00000216297.6_1_14:21829121-21829307:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 755.7448120117188 2 756.010067 1510.00558 NaN NaN NaN NaN NaN NaN NaN 104.94 1 104.94 104.44 105.44 0 0 0 0 1.0082 1 57703 57703 0 0 1 + 28605 14809 18480 18538 32189 32189 0.2709793588139746 RRRKRLQELE 10 Unmodified _RRRKRLQELE_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A nc|ENSG00000090889|O95239-2|KIF4A nc|ENSG00000090889|O95239-2|KIF4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 461.9493408203125 3 461.947898 1382.82186 3.5674 0.001648 0.59825 0.00027636 4.1656 0.0019243 461.9477253019568 100.95 0.11273 101.27 101.2 101.32 0.31412 7 3 3 0 0 0 0.94364 1 46740 46740 0.15932 0 1 2002600 28606 1069 18481 18539 32190 32190 0.1457654237992756 RRRKRRKRRRF 11 Unmodified _RRRKRRKRRRF_ 0 0 0 REV__ENST00000488854.6_1_3:113082116-113098301:-|nuORF REV__ENST00000488854.6_1_3:113082116-113098301:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 836.0440673828125 2 836.046173 1670.07779 NaN NaN NaN NaN NaN NaN NaN 88.743 1 88.796 88.296 89.296 0.052155 0 0 0 1.0082 1 45304 45304 0 0 1 + 28607 16782 18482 18540 32191 32191 0.2695570779831087 RRRKRRKRRRF 11 Unmodified _RRRKRRKRRRF_ 0 0 0 REV__ENST00000488854.6_1_3:113082116-113098301:-|nuORF REV__ENST00000488854.6_1_3:113082116-113098301:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 836.0477294921875 2 836.046173 1670.07779 NaN NaN NaN NaN NaN NaN NaN 104.02 1 104.34 103.84 104.84 0.31863 0 0 0 1.0082 1 48070 48070 0 0 1 + 28608 16782 18482 18540 32192 32192 0.2695570779831087 RRRKRSRNRAI 11 Unmodified _RRRKRSRNRAI_ 0 0 0 ENSG00000156802|ENST00000287394|ATAD2;ENST00000517666.5_1_8:124333376-124408650:-|nuORF;ENST00000521903.5_1_8:124361561-124413087:-|nuORF;ENST00000521496.5_1_8:124357024-124408597:-|nuORF;nc|ENSG00000156802|Q6PL18-2|ATAD2;ATAD2|p.L665Cfs*24|1|0.08|ENSG00000156802|chr8:123347311-123347312|-/AATTCAGAACAAATAAAACA|frameshift_variant ENSG00000156802|ENST00000287394|ATAD2 ENSG00000156802|ENST00000287394|ATAD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 734.5623779296875 2 734.96144 1467.90833 NaN NaN NaN NaN NaN NaN NaN 17.272 1 17.576 17.076 18.076 0.30438 0 0 0 1.0082 1 7822 7822 0 0 1 28609 3925 18483 18541 32193 32193 0.19308966725111532 RRRKRTRWLRR 11 Unmodified _RRRKRTRWLRR_ 0 0 0 REV__ENST00000433071.2_1_21:32931573-32932426:+|nuORF REV__ENST00000433071.2_1_21:32931573-32932426:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 820.5203857421875 2 820.519457 1639.02436 NaN NaN NaN NaN NaN NaN NaN 44.49 1 44.49 43.99 44.99 0 0 0 0 1.0082 1 20328 20328 0 0 1 + 28610 16277 18484 18542 32194 32194 0.23040910295799222 RRRLEKRIYIP 11 Unmodified _RRRLEKRIYIP_ 0 0 0 ENSG00000102781|ENST00000380615|KATNAL1;nc|ENSG00000186625|O75449-2|KATNA1;ENSG00000186625|ENST00000367411|KATNA1 ENSG00000102781|ENST00000380615|KATNAL1 ENSG00000102781|ENST00000380615|KATNAL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 750.4682006835938 2 750.467701 1498.92085 NaN NaN NaN NaN NaN NaN NaN 82.321 1 82.321 81.821 82.821 0 0 0 0 1.0082 1 41169 41169 0 0 1 28611 1353 18485 18543 32195 32195 0.19134565344802468 RRRLEQKL 8 Unmodified _RRRLEQKL_ 0 0 0 ENST00000526769.3_1_11:6735844-6741409:-|nuORF;nc|ENSG00000254838|Q7Z2Y8|GVINP1 ENST00000526769.3_1_11:6735844-6741409:-|nuORF ENST00000526769.3_1_11:6735844-6741409:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.9015808105469 3 366.899996 1097.67816 2.9794 0.0010931 0.50505 0.0001853 3.4844 0.0012784 366.90026436950717 10.531 0.3253 11.164 11.02 11.346 0.63304 47 30 2 0 0 0 0.7471 1 4760 4760 0.45834 0 1 89215 28612 8680 18486 18544 32196 32196 0.13322740339617667 RRRLFPPLLVH 11 Unmodified _RRRLFPPLLVH_ 0 0 0 REV__ENST00000508453.1_1_4:108852799-108857674:+|nuORF REV__ENST00000508453.1_1_4:108852799-108857674:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 468.6291198730469 3 468.629729 1402.86736 NaN NaN NaN NaN NaN NaN NaN 99.609 1 100.21 99.706 100.71 0.59748 0 0 0 1.0082 1 46071 46071 0.094841 0.011491 1 + 28613 12731 18487 18545 32197 32197 0.18203812632918925 RRRLHFRLPR 10 Unmodified _RRRLHFRLPR_ 0 0 0 ENST00000491195.1_1_3:150264653-150284742:-|nuORF;ENST00000479209.1_1_3:150264653-150320920:-|nuORF ENST00000491195.1_1_3:150264653-150284742:-|nuORF ENST00000491195.1_1_3:150264653-150284742:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 703.97119140625 2 703.939445 1405.86434 NaN NaN NaN NaN NaN NaN NaN 85.755 1 85.755 85.255 86.255 0 0 0 0 1.0001 1 43752 43752 1.6526 0 1 28614 8261 18488 18546 32198 32198 0.17763982298788505 RRRLHRRRRSP 11 Unmodified _RRRLHRRRRSP_ 0 0 0 ENST00000215832.10_1_22:22221790-22221904:-|nuORF ENST00000215832.10_1_22:22221790-22221904:-|nuORF ENST00000215832.10_1_22:22221790-22221904:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.7847290039062 3 515.989313 1544.94611 NaN NaN NaN NaN NaN NaN NaN 58.582 1 59.25 58.75 59.75 0.66703 0 0 0 1.008 1 26817 26817 0.073264 0 1 28615 6400 18489 18547 32199 32199 0.19543477710567458 RRRLLKVPRLL 11 Unmodified _RRRLLKVPRLL_ 0 0 0 REV__ENSG00000139044|ENST00000266383|B4GALNT3 REV__ENSG00000139044|ENST00000266383|B4GALNT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 710.5961303710938 2 710.490979 1418.96741 NaN NaN NaN NaN NaN NaN NaN 87.547 1 87.547 87.047 88.047 0 0 0 0 1.0082 1 45179 45179 0 0 1 + 28616 12201 18490 18548 32200 32200 0.27468049966751096 RRRLLLLLPRI 11 Unmodified _RRRLLLLLPRI_ 0 0 0 REV__ENST00000560665.1_1_15:65804856-65809996:-|nuORF REV__ENST00000560665.1_1_15:65804856-65809996:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 709.9954833984375 2 709.993355 1417.97216 NaN NaN NaN NaN NaN NaN NaN 53.36 1 54.025 53.525 54.525 0.6644 0 0 0 1.0082 1 24402 24402 0 0 1 + 28617 17366 18491 18549 32201 32201 0.27988934109521324 RRRLPRRRRQN 11 Unmodified _RRRLPRRRRQN_ 0 0 0 REV__nc|ENSG00000059145|Q9H9P5|UNKL REV__nc|ENSG00000059145|Q9H9P5|UNKL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 782.484375 2 782.485614 1562.95667 NaN NaN NaN NaN NaN NaN NaN 54.747 1 55.542 55.042 56.042 0.79552 0 0 0 1.008 1 24984 24984 0.30703 0.30703 1 + 28618 10386 18492 18550 32202 32202 0.19771460365018356 RRRLPRRRRQN 11 Unmodified _RRRLPRRRRQN_ 0 0 0 REV__nc|ENSG00000059145|Q9H9P5|UNKL REV__nc|ENSG00000059145|Q9H9P5|UNKL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 782.486083984375 2 782.485614 1562.95667 NaN NaN NaN NaN NaN NaN NaN 54.879 1 55.675 55.175 56.175 0.79552 0 0 0 1.0073 1 25046 25046 1.1933 1.1933 1 + 28619 10386 18492 18550 32203 32203 0.19771460365018356 RRRLQHQRLRR 11 Unmodified _RRRLQHQRLRR_ 0 0 0 ENST00000262304.8_1_16:2141877-2142581:-|nuORF ENST00000262304.8_1_16:2141877-2142581:-|nuORF ENST00000262304.8_1_16:2141877-2142581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 787.9880981445312 2 787.987989 1573.96143 NaN NaN NaN NaN NaN NaN NaN 90.643 1 90.719 90.219 91.219 0.075279 0 0 0 1.0082 1 46756 46756 0 0 1 28620 6573 18493 18551 32204 32204 0.19740344507749796 RRRLQHQRLRR 11 Unmodified _RRRLQHQRLRR_ 0 0 0 ENST00000262304.8_1_16:2141877-2142581:-|nuORF ENST00000262304.8_1_16:2141877-2142581:-|nuORF ENST00000262304.8_1_16:2141877-2142581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 787.9888916015625 2 787.987989 1573.96143 NaN NaN NaN NaN NaN NaN NaN 94.274 1 94.36 93.86 94.86 0.086212 0 0 0 1.0082 1 49553 49553 0 0 1 28621 6573 18493 18551 32205 32205 0.19740344507749796 RRRLRGCRA 9 Unmodified _RRRLRGCRA_ 0 0 0 ENST00000303212.2_1_19:5824142-5828303:+|nuORF ENST00000303212.2_1_19:5824142-5828303:+|nuORF ENST00000303212.2_1_19:5824142-5828303:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.89776611328125 3 381.896592 1142.66795 NaN NaN NaN NaN NaN NaN NaN 8.5997 1 8.5997 8.0997 9.0997 0 0 0 0 0.91452 1 3879 3879 0 0 1 28622 6819 18494 18552 32206 32206 0.10231854133394336 RRRLRRRLRRF 11 Unmodified _RRRLRRRLRRF_ 0 0 0 REV__ENST00000368655.4_1_1:153800818-153895301:-|nuORF REV__ENST00000368655.4_1_1:153800818-153895301:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 821.0443725585938 2 821.035274 1640.05599 NaN NaN NaN NaN NaN NaN NaN 90.369 1 90.369 89.869 90.869 0 0 0 0 1.0082 1 47471 47471 0 0 1 + 28623 15689 18495 18553 32207 32207 0.2615690304974123 RRRLRRRLRRF 11 Unmodified _RRRLRRRLRRF_ 0 0 0 REV__ENST00000368655.4_1_1:153800818-153895301:-|nuORF REV__ENST00000368655.4_1_1:153800818-153895301:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 821.034423828125 2 821.035274 1640.05599 NaN NaN NaN NaN NaN NaN NaN 97.897 1 98.496 97.996 98.996 0.59885 0 0 0 1.0082 1 45061 45061 0 0 1 + 28624 15689 18495 18553 32208 32208 0.2615690304974123 RRRLSRNRP 9 Unmodified _RRRLSRNRP_ 0 0 0 ENST00000481182.1_1_19:36206000-36206174:+|nuORF ENST00000481182.1_1_19:36206000-36206174:+|nuORF ENST00000481182.1_1_19:36206000-36206174:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 404.2515563964844 3 404.249911 1209.7279 3.1481 0.0012726 0.95191 0.00038481 4.1 0.0016574 404.2501773277058 95.384 0.39745 95.992 95.825 96.223 0.60768 48 20 3 0 0 0 0.11436 1 43864 43864 0.23584 0 1 544590 28625 8288 18496 18554 32209 32209 0.13142868068257485 RRRLSRNRP 9 Unmodified _RRRLSRNRP_ 0 0 0 ENST00000481182.1_1_19:36206000-36206174:+|nuORF ENST00000481182.1_1_19:36206000-36206174:+|nuORF ENST00000481182.1_1_19:36206000-36206174:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 404.249911 1209.7279 3.7444 0.0015137 0.19359 7.8261E-05 3.938 0.001592 404.2498810496304 95.925 0.45589 96.193 95.998 96.454 0.2675 0.10048 -0.00043844 NaN 0.23584 40 23 3 NaN NaN NaN NaN 0 NaN NaN 0 527170 28626 8288 18496 18554 0.13142868068257485 RRRLVLNHT 9 Unmodified _RRRLVLNHT_ 0 0 0 ENSG00000261587|ENST00000696146|TMEM249 ENSG00000261587|ENST00000696146|TMEM249 ENSG00000261587|ENST00000696146|TMEM249 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.8548583984375 2 582.857255 1163.69996 NaN NaN NaN NaN NaN NaN NaN 101.25 1 101.56 101.06 102.06 0.31412 0 0 0 0.90777 1 46854 46854 1.6526 0 1 28627 6310 18497 18555 32210 32210 0.12465545088161889 RRRLWRWWKLQ 11 Unmodified _RRRLWRWWKLQ_ 0 0 0 chr12:54283225-54283827|538|47.58|0.0|22.18|+|1|HNRNPA1,HNRNPA1|2 chr12:54283225-54283827|538|47.58|0.0|22.18|+|1|HNRNPA1,HNRNPA1|2 chr12:54283225-54283827|538|47.58|0.0|22.18|+|1|HNRNPA1,HNRNPA1|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 842.4951782226562 2 842.494585 1682.97462 NaN NaN NaN NaN NaN NaN NaN 39.972 1 40.239 39.739 40.739 0.26696 0 0 0 1.0082 1 18184 18184 0 0 1 28628 145 18498 18556 32211 32211 0.1604478256715538 RRRLYRKRAQF 11 Unmodified _RRRLYRKRAQF_ 0 0 0 REV__ENSG00000266714|ENST00000645453|MYO15B REV__ENSG00000266714|ENST00000645453|MYO15B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 775.4688720703125 2 775.468567 1548.92258 NaN NaN NaN NaN NaN NaN NaN 81.464 1 81.57 81.07 82.07 0.10583 0 0 0 1.0082 1 40047 40047 0 0 1 + 28629 14709 18499 18557 32212 32212 0.17007619153378073 RRRMKRRRRWI 11 Unmodified _RRRMKRRRRWI_ 0 0 0 ENST00000257749.8_2_6:90661229-90661412:-|nuORF ENST00000257749.8_2_6:90661229-90661412:-|nuORF ENST00000257749.8_2_6:90661229-90661412:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 835.516357421875 2 835.51586 1669.01717 NaN NaN NaN NaN NaN NaN NaN 61.552 1 61.552 61.052 62.052 0 0 0 0 1.0082 1 28721 28721 0 0 1 28630 6534 18500 18558 32213 32213 0.209418544237451 RRRMKRRRRWI 11 Unmodified _RRRMKRRRRWI_ 0 0 0 ENST00000257749.8_2_6:90661229-90661412:-|nuORF ENST00000257749.8_2_6:90661229-90661412:-|nuORF ENST00000257749.8_2_6:90661229-90661412:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 835.5191040039062 2 835.51586 1669.01717 NaN NaN NaN NaN NaN NaN NaN 81.389 1 81.389 80.889 81.889 0 0 0 0 1.0082 1 40538 40538 0 0 1 28631 6534 18500 18558 32214 32214 0.209418544237451 RRRMRRRRRRP 11 Unmodified _RRRMRRRRRRP_ 0 0 0 nc|ENSG00000182872|P0DW28|RBM10 nc|ENSG00000182872|P0DW28|RBM10 nc|ENSG00000182872|P0DW28|RBM10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 826.6085815429688 2 826.514183 1651.01381 NaN NaN NaN NaN NaN NaN NaN 99.272 1 99.572 99.072 100.07 0.29987 0 0 0 1.0082 1 45846 45846 0 0 1 28632 9775 18501 18559 32215 32215 0.21434604369710542 RRRMRRTRRRL 11 Unmodified _RRRMRRTRRRL_ 0 0 0 ENST00000423021.2_1_9:5112335-5112581:+|nuORF ENST00000423021.2_1_9:5112335-5112581:+|nuORF ENST00000423021.2_1_9:5112335-5112581:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 807.005615234375 2 807.003116 1611.99168 NaN NaN NaN NaN NaN NaN NaN 52.325 1 52.987 52.487 53.487 0.66198 0 0 0 1.0082 1 23924 23924 0 0 1 28633 7775 18502 18560 32216 32216 0.21016379901311666 RRRMYEHCEM 10 Unmodified _RRRMYEHCEM_ 0 0 0 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 706.318115234375 2 705.813015 1409.61148 4.3068 0.0030398 1.6728 0.0011807 5.9796 0.0042205 705.8143075749937 31.364 0.2425 31.62 31.536 31.778 0.25614 32 16 3 0 0 0 0.89464 1 14280 14280 3.9444 0.66309 1 289460 + 28634 12335 18503 18561 32217 32217 -0.07694322600491432 RRRMYEHCEM 10 Unmodified _RRRMYEHCEM_ 0 0 0 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 705.8175048828125 2 705.813015 1409.61148 3.9556 0.0027919 1.5177 0.0010712 5.4733 0.0038631 705.8140593861707 30.939 0.20371 31.557 31.467 31.671 0.61737 18 11 2 0 0 0 0.93713 1 14239 14239 1.4819 0.28856 1 340210 + 28635 12335 18503 18561 32218 32218 -0.07694322600491432 RRRNDHRR 8 Unmodified _RRRNDHRR_ 0 0 0 REV__ENST00000570051.5_1_16:2312273-2318093:-|nuORF REV__ENST00000570051.5_1_16:2312273-2318093:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 583.3307495117188 2 583.329728 1164.6449 NaN NaN NaN NaN NaN NaN NaN 108.49 1 108.53 108.03 109.03 0.04248 0 0 0 0.99035 1 58576 58576 2.3027 0.4585 1 + 28636 14473 18504 18562 32219 32219 0.06916551340259502 RRRNLLLRRF 10 Unmodified _RRRNLLLRRF_ 0 0 0 ENST00000544844.5_1_11:64085187-64085430:-|nuORF ENST00000544844.5_1_11:64085187-64085430:-|nuORF ENST00000544844.5_1_11:64085187-64085430:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.3023681640625 3 467.300494 1398.87965 NaN NaN NaN NaN NaN NaN NaN 89.063 1 89.063 88.563 89.563 0 0 0 0 0.99807 1 46405 46405 3.3196 2.8651 1 28637 8839 18505 18563 32220 32220 0.19616849095950784 RRRNPRRFQYR 11 Unmodified _RRRNPRRFQYR_ 0 0 0 nc|ENSG00000059145|Q9H9P5|UNKL;ENSG00000059145|ENST00000389221|UNKL;nc|ENSG00000059145|Q9H9P5-6|UNKL;ENST00000502438.6_1_16:1449373-1453182:-|nuORF;ENST00000509981.1_1_16:1447085-1449499:-|nuORF nc|ENSG00000059145|Q9H9P5|UNKL nc|ENSG00000059145|Q9H9P5|UNKL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 802.95947265625 2 802.958898 1603.90324 NaN NaN NaN NaN NaN NaN NaN 89.095 1 89.095 88.595 89.595 0 0 0 0 1.0082 1 46433 46433 0 0 1 28638 634 18506 18564 32221 32221 0.12544662862501355 RRRNQNRVP 9 Unmodified _RRRNQNRVP_ 0 0 0 ENSG00000242732|ENST00000609883|RTL5 ENSG00000242732|ENST00000609883|RTL5 ENSG00000242732|ENST00000609883|RTL5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 597.939453125 2 598.347586 1194.68062 NaN NaN NaN NaN NaN NaN NaN 81.814 1 81.814 81.314 82.314 0 0 0 0 0.75166 1 40793 40793 10.824 2.6684 1 28639 6231 18507 18565 32222 32222 0.09106588797271797 RRRPAAPW 8 Unmodified _RRRPAAPW_ 0 0 0 REV__ENST00000308406.9_1_17:19285328-19285739:+|nuORF REV__ENST00000308406.9_1_17:19285328-19285739:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 337.1995544433594 3 337.198265 1008.57297 NaN NaN NaN NaN NaN NaN NaN 24.715 1 25.452 24.952 25.952 0.73623 0 0 0 0.99035 1 11076 11076 0.45834 0.2225 1 + 28640 15241 18508 18566 32223 32223 0.06902243933836871 RRRPHFIRRL 10 Unmodified _RRRPHFIRRL_ 0 0 0 REV__ENST00000264071.6_1_19:6501614-6502320:-|nuORF REV__ENST00000264071.6_1_19:6501614-6502320:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 703.9369506835938 2 703.939445 1405.86434 NaN NaN NaN NaN NaN NaN NaN 36.398 1 37.024 36.524 37.524 0.62631 0 0 0 1.0015 1 16667 16667 0.40072 0.093686 1 + 28641 15011 18509 18567 32224 32224 0.17763982298765768 RRRPPLRRRRV 11 Unmodified _RRRPPLRRRRV_ 0 0 0 ENST00000357060.7_2_10:105990583-105992116:-|nuORF ENST00000357060.7_2_10:105990583-105992116:-|nuORF ENST00000357060.7_2_10:105990583-105992116:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 304.8652038574219 5 304.402546 1516.97635 2.2535 0.00068598 0.087597 2.6665E-05 2.3411 0.00071264 304.40262602468977 36.297 0.26021 36.923 36.845 37.105 0.62631 9 7 2 0 0 0 0.13295 1 16700 16700 0.08335 0.08335 1 152520 28642 7170 18510 18568 32225 32225 0.2385383637574705 RRRPRRKLRRR 11 Unmodified _RRRPRRKLRRR_ 0 0 0 REV__ENST00000251102.12_1_16:57965650-57974178:-|nuORF REV__ENST00000251102.12_1_16:57965650-57974178:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 803.3956298828125 2 803.532898 1605.05124 NaN NaN NaN NaN NaN NaN NaN 85.959 1 85.989 85.489 86.489 0.030289 0 0 0 1.0082 1 43128 43128 0 0 1 + 28643 14907 18511 18569 32226 32226 0.2729201890697368 RRRPRRRRPRL 11 Unmodified _RRRPRRRRPRL_ 0 0 0 ENST00000557385.1_1_X:119384635-119386530:+|nuORF;ENST00000326624.2_1_X:119384635-119387278:+|nuORF ENST00000557385.1_1_X:119384635-119386530:+|nuORF ENST00000557385.1_1_X:119384635-119386530:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 788.0120239257812 2 788.011799 1574.00904 NaN NaN NaN NaN NaN NaN NaN 80.2 1 80.52 80.02 81.02 0.31998 0 0 0 1.0082 1 39234 39234 0 0 1 28644 6958 18512 18570 32227 32227 0.24500043498596824 RRRPRRRRPRL 11 Unmodified _RRRPRRRRPRL_ 0 0 0 ENST00000557385.1_1_X:119384635-119386530:+|nuORF;ENST00000326624.2_1_X:119384635-119387278:+|nuORF ENST00000557385.1_1_X:119384635-119386530:+|nuORF ENST00000557385.1_1_X:119384635-119386530:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 788.0108032226562 2 788.011799 1574.00904 NaN NaN NaN NaN NaN NaN NaN 105.26 1 105.86 105.36 106.36 0.59969 0 0 0 1.0082 1 48612 48612 0 0 1 28645 6958 18512 18570 32228 32228 0.24500043498596824 RRRPRRRTRRQ 11 Unmodified _RRRPRRRTRRQ_ 0 0 0 REV__ENST00000245923.8_1_19:45998158-46000175:-|nuORF REV__ENST00000245923.8_1_19:45998158-46000175:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.0020751953125 3 532.000101 1592.97847 NaN NaN NaN NaN NaN NaN NaN 101.57 1 101.57 101.07 102.07 0 0 0 0 1.0082 1 56109 56109 0 0 1 + 28646 14893 18513 18571 32229 32229 0.20570265113542519 RRRPRRRTRRQ 11 Unmodified _RRRPRRRTRRQ_ 0 0 0 REV__ENST00000245923.8_1_19:45998158-46000175:-|nuORF REV__ENST00000245923.8_1_19:45998158-46000175:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 797.4949951171875 2 797.496513 1592.97847 NaN NaN NaN NaN NaN NaN NaN 52.885 1 53.689 53.189 54.189 0.80351 0 0 0 1.0082 1 24101 24101 0 0 1 + 28647 14893 18513 18571 32230 32230 0.20570265113542519 RRRPRRRTRRQ 11 Unmodified _RRRPRRRTRRQ_ 0 0 0 REV__ENST00000245923.8_1_19:45998158-46000175:-|nuORF REV__ENST00000245923.8_1_19:45998158-46000175:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.2266845703125 4 399.251895 1592.97847 2.9228 0.0011669 0.26133 0.00010434 3.1841 0.0012713 399.5034460101551 28.555 0.37954 28.815 28.514 28.894 0.2602 31 23 2 0 0 0 0.13295 1 13001 13001 0 0 1 580030 + 28648 14893 18513 18571 32231 32231 0.20570265113542519 RRRPRRRTRRQ 11 Unmodified _RRRPRRRTRRQ_ 0 0 0 REV__ENST00000245923.8_1_19:45998158-46000175:-|nuORF REV__ENST00000245923.8_1_19:45998158-46000175:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.3367919921875 3 532.000101 1592.97847 NaN NaN NaN NaN NaN NaN NaN 101.43 1 102.03 101.53 102.53 0.59717 0 0 0 1.0082 1 46965 46965 0 0 1 + 28649 14893 18513 18571 32232 32232 0.20570265113542519 RRRPRRRVSRL 11 Unmodified _RRRPRRRVSRL_ 0 0 0 ENST00000568956.1_1_19:56116859-56125214:+|nuORF ENST00000568956.1_1_19:56116859-56125214:+|nuORF ENST00000568956.1_1_19:56116859-56125214:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 754.21826171875 2 754.485082 1506.95561 NaN NaN NaN NaN NaN NaN NaN 106.96 1 107.28 106.78 107.78 0.31628 0 0 0 1.0082 1 49353 49353 0 0 1 28650 9072 18514 18572 32233 32233 0.22241245996087855 RRRPVKRRRL 10 Unmodified _RRRPVKRRRL_ 0 0 0 ENST00000419783.1_2_3:49395567-49395990:-|nuORF ENST00000419783.1_2_3:49395567-49395990:-|nuORF ENST00000419783.1_2_3:49395567-49395990:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 696.9661254882812 2 696.965994 1391.91744 NaN NaN NaN NaN NaN NaN NaN 49.171 1 49.826 49.326 50.326 0.65524 0 0 0 1.002 1 22494 22494 0 0 1 28651 7746 18515 18573 32234 32234 0.23715360081450854 RRRQDKFWYCR 11 Unmodified _RRRQDKFWYCR_ 0 0 0 nc|ENSG00000155849|Q92556-2|ELMO1;nc|ENSG00000155849|Q92556-3|ELMO1;ENSG00000155849|ENST00000310758|ELMO1 nc|ENSG00000155849|Q92556-2|ELMO1 nc|ENSG00000155849|Q92556-2|ELMO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.4530029296875 2 807.415143 1612.81573 NaN NaN NaN NaN NaN NaN NaN 63.58 1 63.58 63.08 64.08 0 0 0 0 1.0082 1 29930 29930 0 0 1 28652 3877 18516 18574 32235 32235 0.033837008767250154 RRRQEKARVLH 11 Unmodified _RRRQEKARVLH_ 0 0 0 REV__ENSG00000165966|ENST00000402685|PDZRN4 REV__ENSG00000165966|ENST00000402685|PDZRN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 724.9379272460938 2 724.937099 1447.85965 NaN NaN NaN NaN NaN NaN NaN 65.252 1 65.961 65.461 66.461 0.70891 0 0 0 1.0061 1 30838 30838 2.7352 1.2533 1 + 28653 13201 18517 18575 32236 32236 0.15363053365354062 RRRQEREKKYR 11 Unmodified _RRRQEREKKYR_ 0 0 0 ENSG00000159450|ENST00000614923|TCHH ENSG00000159450|ENST00000614923|TCHH ENSG00000159450|ENST00000614923|TCHH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 802.9652709960938 2 802.963846 1603.91314 NaN NaN NaN NaN NaN NaN NaN 72.17 1 72.874 72.374 73.374 0.70386 0 0 0 1.008 1 34714 34714 0.26902 0.26902 1 28654 4025 18518 18576 32237 32237 0.13533806077202826 RRRQKRQEQER 11 Unmodified _RRRQKRQEQER_ 0 0 0 ENSG00000159450|ENST00000614923|TCHH ENSG00000159450|ENST00000614923|TCHH ENSG00000159450|ENST00000614923|TCHH MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 785.4406127929688 2 785.443277 1568.872 NaN NaN NaN NaN NaN NaN NaN 98.727 1 99.027 98.527 99.527 0.29987 0 0 0 1.008 1 45518 45518 0.26902 0.26902 1 28655 4025 18519 18577 32238 32238 0.11032045037768512 RRRQLKLVPLP 11 Unmodified _RRRQLKLVPLP_ 0 0 0 REV__ENST00000316846.2_11:65545618-65547282:-|nuORF REV__ENST00000316846.2_11:65545618-65547282:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 688.4539184570312 2 688.454062 1374.89357 NaN NaN NaN NaN NaN NaN NaN 48.948 1 49.21 48.71 49.71 0.26209 0 0 0 1.0082 1 22375 22375 0 0 1 + 28656 15295 18520 18578 32239 32239 0.22112081804402806 RRRQLYRRERR 11 Unmodified _RRRQLYRRERR_ 0 0 0 REV__nc|ENSG00000179362|Q86SG4-3|HMGN2P46 REV__nc|ENSG00000179362|Q86SG4-3|HMGN2P46 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.9981689453125 3 548.996245 1643.96691 NaN NaN NaN NaN NaN NaN NaN 78.725 1 78.725 78.225 79.225 0 0 0 0 1.0082 1 38759 38759 0 0 1 + 28657 18061 18521 18579 32240 32240 0.1706802329954371 RRRQRRQRRGR 11 Unmodified _RRRQRRQRRGR_ 0 0 0 REV__ENST00000255977.6_2_7:140178977-140179166:-|nuORF REV__ENST00000255977.6_2_7:140178977-140179166:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 790.9852905273438 2 790.986312 1579.95807 NaN NaN NaN NaN NaN NaN NaN 52.221 1 52.221 51.721 52.721 0 0 0 0 1.0082 1 23912 23912 0 0 1 + 28658 14932 18522 18580 32241 32241 0.1912909445375135 RRRRAHRERHR 11 Unmodified _RRRRAHRERHR_ 0 0 0 REV__ENST00000317357.9_1_6:107955847-107956252:+|nuORF REV__ENST00000317357.9_1_6:107955847-107956252:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.3134155273438 3 529.312567 1584.91587 3.4824 0.0018433 -0.55666 -0.00029465 2.9258 0.0015486 529.3119489256603 106.19 0.13354 106.79 106.71 106.84 0.59969 9 3 3 0 0 0 0.91459 1 49040 49040 0.094841 0 1 1122500 + 28659 15299 18523 18581 32242 32242 0.14681119045371815 RRRRARKKTV 10 Unmodified _RRRRARKKTV_ 0 0 0 ENST00000568808.5_1_15:55653104-55669251:-|nuORF;nc|ENSG00000260916|Q9ULG6-3|CCPG1;nc|ENSG00000260916|Q9ULG6-4|CCPG1;nc|ENSG00000260916|Q9ULG6-2|CCPG1;ENST00000568372.5_1_15:55651699-55664264:-|nuORF;nc|ENSG00000260916|Q9ULG6|CCPG1;ENSG00000260916|ENST00000442196|CCPG1 ENST00000568808.5_1_15:55653104-55669251:-|nuORF ENST00000568808.5_1_15:55653104-55669251:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 663.9383544921875 2 663.936902 1325.85925 NaN NaN NaN NaN NaN NaN NaN 30.167 1 30.167 29.667 30.667 0 0 0 0 1.0016 1 13626 13626 0.35063 0 1 28660 6307 18524 18582 32243 32243 0.2093567843614892 RRRRARLRFMK 11 Unmodified _RRRRARLRFMK_ 0 0 0 nc|ENSG00000172116|P10966-7|CD8B;ENSG00000254126|ENST00000643224|CD8B2;ENSG00000172116|ENST00000390655|CD8B;nc|ENSG00000172116|P10966-3|CD8B;nc|ENSG00000172116|P10966-2|CD8B;nc|ENSG00000172116|P10966-6|CD8B;nc|ENSG00000172116|P10966-4|CD8B nc|ENSG00000172116|P10966-7|CD8B nc|ENSG00000172116|P10966-7|CD8B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.9880981445312 3 515.988033 1544.94227 NaN NaN NaN NaN NaN NaN NaN 108.03 1 108.35 107.85 108.85 0.31421 0 0 0 1.0082 1 49827 49827 0 0 1 28661 4856 18525 18583 32244 32244 0.19159671892475671 RRRRDWYKIRL 11 Unmodified _RRRRDWYKIRL_ 0 0 0 REV__ENSG00000189132|ENST00000329357|FAM47B REV__ENSG00000189132|ENST00000329357|FAM47B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 809.4818115234375 2 809.481674 1616.9488 NaN NaN NaN NaN NaN NaN NaN 53.399 1 53.662 53.162 54.162 0.26362 0 0 0 1.0082 1 24421 24421 0 0 1 + 28662 14173 18526 18584 32245 32245 0.1649988832486997 RRRREKRKRAL 11 Unmodified _RRRREKRKRAL_ 0 0 0 nc|ENSG00000132773|Q96GM8-2|TOE1;ENST00000495703.5_1_1:45808500-45809371:+|nuORF;ENSG00000132773|ENST00000372090|TOE1 nc|ENSG00000132773|Q96GM8-2|TOE1 nc|ENSG00000132773|Q96GM8-2|TOE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 762.992919921875 2 762.99274 1523.97093 NaN NaN NaN NaN NaN NaN NaN 56.855 1 57.633 57.133 58.133 0.77786 0 0 0 1.0082 1 26006 26006 0 0 1 28663 9644 18527 18585 32246 32246 0.2299011279330898 RRRREVKRRLL 11 Unmodified _RRRREVKRRLL_ 0 0 0 nc|ENSG00000164663|Q70CQ1-2|USP49;ENSG00000164663|ENST00000682992|USP49 nc|ENSG00000164663|Q70CQ1-2|USP49 nc|ENSG00000164663|Q70CQ1-2|USP49 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 769.5044555664062 2 769.502941 1536.99133 NaN NaN NaN NaN NaN NaN NaN 106.15 1 106.2 105.7 106.7 0.04837 0 0 0 1.0082 1 57430 57430 0 0 1 28664 4333 18528 18586 32247 32247 0.2443128345310015 RRRRFDRERRF 11 Unmodified _RRRRFDRERRF_ 0 0 0 REV__ENST00000488868.1_1_1:28559432-28559522:-|nuORF REV__ENST00000488868.1_1_1:28559432-28559522:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 825.4713745117188 2 825.469629 1648.92471 NaN NaN NaN NaN NaN NaN NaN 93.765 1 94.396 93.896 94.896 0.63115 0 0 0 1.0082 1 43129 43129 0 0 1 + 28665 16783 18529 18587 32248 32248 0.12620047891186914 RRRRFRRLDRR 11 Unmodified _RRRRFRRLDRR_ 0 0 0 REV__ENST00000505007.5_1_5:138941007-138941097:+|nuORF REV__ENST00000505007.5_1_5:138941007-138941097:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 822.0078735351562 2 822.006713 1641.99887 NaN NaN NaN NaN NaN NaN NaN 100.77 1 101.08 100.58 101.58 0.31412 0 0 0 1.0082 1 46629 46629 0 0 1 + 28666 16915 18530 18588 32249 32249 0.20355435773376485 RRRRFWIEFRL 11 Unmodified _RRRRFWIEFRL_ 0 0 0 REV__ENST00000504041.1_1_5:169407-179718:+|nuORF REV__ENST00000504041.1_1_5:169407-179718:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 817.9789428710938 2 817.978767 1633.94298 NaN NaN NaN NaN NaN NaN NaN 93.224 1 93.224 92.724 93.724 0 0 0 0 1.0082 1 49751 49751 0 0 1 + 28667 12678 18531 18589 32250 32250 0.15136789813186624 RRRRFWIEFRL 11 Unmodified _RRRRFWIEFRL_ 0 0 0 REV__ENST00000504041.1_1_5:169407-179718:+|nuORF REV__ENST00000504041.1_1_5:169407-179718:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 817.9799194335938 2 817.978767 1633.94298 NaN NaN NaN NaN NaN NaN NaN 84.769 1 84.797 84.297 85.297 0.028603 0 0 0 1.0082 1 42361 42361 0 0 1 + 28668 12678 18531 18589 32251 32251 0.15136789813186624 RRRRFWIEFRL 11 Unmodified _RRRRFWIEFRL_ 0 0 0 REV__ENST00000504041.1_1_5:169407-179718:+|nuORF REV__ENST00000504041.1_1_5:169407-179718:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 817.9804077148438 2 817.978767 1633.94298 NaN NaN NaN NaN NaN NaN NaN 87.885 1 87.925 87.425 88.425 0.039955 0 0 0 1.0082 1 44621 44621 0 0 1 + 28669 12678 18531 18589 32252 32252 0.15136789813186624 RRRRFWIEFRL 11 Unmodified _RRRRFWIEFRL_ 0 0 0 REV__ENST00000504041.1_1_5:169407-179718:+|nuORF REV__ENST00000504041.1_1_5:169407-179718:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 818.0357666015625 2 817.978767 1633.94298 NaN NaN NaN NaN NaN NaN NaN 88.109 1 88.161 87.661 88.661 0.052155 0 0 0 1.0082 1 44802 44802 0 0 1 + 28670 12678 18531 18589 32253 32253 0.15136789813186624 RRRRFWREVQR 11 Unmodified _RRRRFWREVQR_ 0 0 0 REV__ENSG00000143418|ENST00000368954|CERS2 REV__ENSG00000143418|ENST00000368954|CERS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 822.97607421875 2 822.974548 1643.93454 NaN NaN NaN NaN NaN NaN NaN 17.614 1 17.614 17.114 18.114 0 0 0 0 1.0082 1 7826 7826 0 0 1 + 28671 12369 18532 18590 32254 32254 0.1383323589657266 RRRRFWREVQR 11 Unmodified _RRRRFWREVQR_ 0 0 0 REV__ENSG00000143418|ENST00000368954|CERS2 REV__ENSG00000143418|ENST00000368954|CERS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.987060546875 3 548.985457 1643.93454 NaN NaN NaN NaN NaN NaN NaN 86.042 1 86.072 85.572 86.572 0.030289 0 0 0 1.0082 1 43198 43198 0 0 1 + 28672 12369 18532 18590 32255 32255 0.1383323589657266 RRRRGFGRHVG 11 Unmodified _RRRRGFGRHVG_ 0 0 0 ENST00000283429.10_1_16:4524572-4524719:-|nuORF ENST00000283429.10_1_16:4524572-4524719:-|nuORF ENST00000283429.10_1_16:4524572-4524719:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.3982543945312 2 677.395402 1352.77625 4.5055 0.003052 -0.014199 -9.6182E-06 4.4913 0.0030424 677.3952872764893 95.336 1.0246 95.603 95.107 96.131 0.2675 193 60 4 0 0 0 0.91345 1 43878 43878 0.30703 0 1 3364300 28673 6707 18533 18591 32256 32256 0.11397361708145581 RRRRGRRTRSR 11 Unmodified _RRRRGRRTRSR_ 0 0 0 ENST00000543940.1_1_12:124114818-124118191:-|nuORF;ENST00000452159.6_1_12:124114706-124118224:-|nuORF ENST00000543940.1_1_12:124114818-124118191:-|nuORF ENST00000543940.1_1_12:124114818-124118191:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.4392395019531 5 303.391401 1511.92062 2.136 0.00064803 1.6989 0.00051542 3.8348 0.0011635 303.39200061820645 59.184 0.093277 59.851 59.772 59.865 0.66703 6 3 2 0 0 0 0.13295 1 27085 27085 1.2148 0 1 385720 28674 8027 18534 18592 32257 32257 0.185140031881474 RRRRHKKP 8 Unmodified _RRRRHKKP_ 0 0 0 ENSG00000166343|ENST00000299432|MSS51 ENSG00000166343|ENST00000299432|MSS51 ENSG00000166343|ENST00000299432|MSS51 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.3663330078125 2 567.365582 1132.71661 3.3338 0.0018915 -2.1861 -0.0012403 1.1477 0.00065116 567.3641840664424 45.015 0.26936 45.015 44.839 45.109 0 32 13 3 0 0 0 0.7471 1 20558 20558 0.69038 0 1 3482500 28675 4475 18535 18593 32258 32258 0.1555609076476685 RRRRHRQRLL 10 Unmodified _RRRRHRQRLL_ 0 0 0 ENST00000403681.6_2_12:66218024-66218900:+|nuORF ENST00000403681.6_2_12:66218024-66218900:+|nuORF ENST00000403681.6_2_12:66218024-66218900:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.48358154296875 4 362.482989 1445.90285 2.6391 0.00095661 -0.41278 -0.00014963 2.2263 0.00080699 362.48287089622073 53.631 0.24875 53.896 53.797 54.045 0.26462 13 10 2 0 0 0 0.94246 1 24544 24544 0.13989 0.056541 1 1317600 28676 7622 18536 18594 32259 32259 0.1977328793329889 RRRRHRRRRLR 11 Unmodified _RRRRHRRRRLR_ 0 0 0 ENST00000498611.5_1_22:50657979-50682900:-|nuORF ENST00000498611.5_1_22:50657979-50682900:-|nuORF ENST00000498611.5_1_22:50657979-50682900:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 837.5426025390625 2 837.539046 1673.06354 NaN NaN NaN NaN NaN NaN NaN 98.088 1 98.377 97.877 98.877 0.28923 0 0 0 1.0082 1 45125 45125 0 0 1 28677 8464 18537 18595 32260 32260 0.2539305537002292 RRRRHRRRRV 10 Unmodified _RRRRHRRRRV_ 0 0 0 REV__ENST00000498611.5_1_22:50657979-50682900:-|nuORF REV__ENST00000498611.5_1_22:50657979-50682900:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.2410888671875 3 501.989536 1502.94678 NaN NaN NaN NaN NaN NaN NaN 73.078 1 73.078 72.578 73.578 0 0 0 0 1.0019 1 35583 35583 0.13989 0.04505 1 + 28678 16872 18538 18596 32261 32261 0.21542317150260715 RRRRIKIAQRL 11 Unmodified _RRRRIKIAQRL_ 0 0 0 REV__nc|ENSG00000092929|Q70J99-3|UNC13D REV__nc|ENSG00000092929|Q70J99-3|UNC13D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 733.4868774414062 2 733.48676 1464.95897 NaN NaN NaN NaN NaN NaN NaN 88.517 1 89.195 88.695 89.695 0.67818 0 0 0 1.0082 1 40766 40766 0 0 1 + 28679 17876 18539 18597 32262 32262 0.24508496050111717 RRRRILQLVLL 11 Unmodified _RRRRILQLVLL_ 0 0 0 REV__ENSG00000204301|ENST00000375023|NOTCH4 REV__ENSG00000204301|ENST00000375023|NOTCH4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 718.4904174804688 2 718.488437 1434.96232 NaN NaN NaN NaN NaN NaN NaN 82.629 1 82.674 82.174 83.174 0.045006 0 0 0 1.0082 1 40825 40825 0 0 1 + 28680 14411 18540 18598 32263 32263 0.2622374610411953 RRRRIRRKGAR 11 Unmodified _RRRRIRRKGAR_ 0 0 0 ENST00000430166.5_1_3:14989684-14989858:-|nuORF ENST00000430166.5_1_3:14989684-14989858:-|nuORF ENST00000430166.5_1_3:14989684-14989858:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 740.9830932617188 2 740.98525 1479.95595 NaN NaN NaN NaN NaN NaN NaN 75.625 1 75.625 75.125 76.125 0 0 0 0 1.0072 1 37058 37058 1.3295 0.92882 1 28681 7843 18541 18599 32264 32264 0.23516665715942509 RRRRKGRQRPI 11 Unmodified _RRRRKGRQRPI_ 0 0 0 ENST00000308664.10_1_12:110719006-110719138:+|nuORF ENST00000308664.10_1_12:110719006-110719138:+|nuORF ENST00000308664.10_1_12:110719006-110719138:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.9864501953125 3 493.650297 1477.92906 3.0467 0.001504 -0.038368 -1.894E-05 3.0084 0.0014851 493.98491603470774 38.332 0.72765 38.596 38.246 38.974 0.26408 40 25 3 0 0 0 0.91345 1 17428 17428 0.45452 0.35968 1 684450 28682 6856 18542 18600 32265 32265 0.20921557104793465 RRRRKGRQRPI 11 Unmodified _RRRRKGRQRPI_ 0 0 0 ENST00000308664.10_1_12:110719006-110719138:+|nuORF ENST00000308664.10_1_12:110719006-110719138:+|nuORF ENST00000308664.10_1_12:110719006-110719138:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 493.650297 1477.92906 3.1039 0.0015322 -0.0027185 -1.342E-06 3.1012 0.0015309 493.9850039639249 38.643 0.46693 38.643 38.424 38.891 0 0.023235 3.5645E-05 NaN 0.45452 29 21 2 NaN NaN NaN NaN 0 NaN NaN 0 405830 28683 6856 18542 18600 0.20921557104793465 RRRRKHRRMLR 11 Unmodified _RRRRKHRRMLR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.0082397460938 3 541.006198 1619.99677 NaN NaN NaN NaN NaN NaN NaN 41.027 1 41.027 40.527 41.527 0 0 0 0 1.0082 1 18633 18633 0 0 1 + 28684 12908 18543 18601 32266 32266 0.21156683763911133 RRRRKHRRMLR 11 Unmodified _RRRRKHRRMLR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.0062255859375 2 811.005659 1619.99677 NaN NaN NaN NaN NaN NaN NaN 53.441 1 53.441 52.941 53.941 0 0 0 0 1.0082 1 24486 24486 0 0 1 + 28685 12908 18543 18601 32267 32267 0.21156683763911133 RRRRKHRRMLR 11 Unmodified _RRRRKHRRMLR_ 0 0 0 REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF REV__ENST00000478247.1_1_3:183882805-183888540:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.7210083007812 3 541.006198 1619.99677 NaN NaN NaN NaN NaN NaN NaN 65.223 1 65.223 64.723 65.723 0 0 0 0 1.0082 1 31034 31034 0 0 1 + 28686 12908 18543 18601 32268 32268 0.21156683763911133 RRRRKKQKRRE 11 Unmodified _RRRRKKQKRRE_ 0 0 0 ENST00000325083.12_1_8:17815084-17817658:+|nuORF ENST00000325083.12_1_8:17815084-17817658:+|nuORF ENST00000325083.12_1_8:17815084-17817658:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 532.6778564453125 3 533.008373 1596.00329 NaN NaN NaN NaN NaN NaN NaN 67.973 1 68.675 68.175 69.175 0.70218 0 0 0 1.0082 1 32372 32372 0 0 1 28687 6954 18544 18602 32269 32269 0.22912900196274677 RRRRKKRKPKK 11 Unmodified _RRRRKKRKPKK_ 0 0 0 REV__ENST00000590548.5_1_19:11597897-11616622:-|nuORF REV__ENST00000590548.5_1_19:11597897-11616622:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 769.0952758789062 2 769.029126 1536.0437 NaN NaN NaN NaN NaN NaN NaN 91.963 1 91.963 91.463 92.463 0 0 0 0 1.0082 1 48728 48728 0 0 1 + 28688 17576 18545 18603 32270 32270 0.2971186658669467 RRRRKKRKRKR 11 Unmodified _RRRRKKRKRKR_ 0 0 0 REV__ENST00000554578.5_1_12:57642832-57642988:-|nuORF REV__ENST00000554578.5_1_12:57642832-57642988:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 812.5595703125 2 812.556373 1623.09819 NaN NaN NaN NaN NaN NaN NaN 76.469 1 76.725 76.225 77.225 0.25533 0 0 0 1.0082 1 35207 35207 0 0 1 + 28689 17310 18546 18604 32271 32271 0.3115687845811408 RRRRKKRSPRP 11 Unmodified _RRRRKKRSPRP_ 0 0 0 REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 373.99383544921875 4 373.993455 1491.94471 2.7592 0.0010319 -0.43087 -0.00016114 2.3283 0.00087079 373.9932416791426 44.028 0.1628 44.028 43.993 44.156 0 35 16 3 0 0 0 0.91462 1 20138 20138 0.08335 0.010087 1 2512700 + 28690 15155 18547 18605 32272 32272 0.21841843621814405 RRRRKKRSPRP 11 Unmodified _RRRRKKRSPRP_ 0 0 0 REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.24468994140625 4 373.993455 1491.94471 2.576 0.0009634 -0.16198 -6.0581E-05 2.414 0.00090282 373.9933039931775 47.572 0.53424 47.572 47.108 47.642 0 63 29 4 0 0 0 0.91359 2 21674 21674;21725 0.40827 0.32491 1 2056800 + 28691 15155 18547 18605 32273;32274 32273 0.21841843621814405 RRRRKKRSPRP 11 Unmodified _RRRRKKRSPRP_ 0 0 0 REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.2448425292969 4 373.993455 1491.94471 2.3076 0.00086304 -0.31569 -0.00011807 1.992 0.00074498 373.9933458858455 43.942 1.1451 44.763 44.123 45.268 0.82074 98 66 2 0 0 0 0.91359 1 20036 20036 0.40827 0.31342 1 1932600 + 28692 15155 18547 18605 32275 32275 0.21841843621814405 RRRRKKRSPRP 11 Unmodified _RRRRKKRSPRP_ 0 0 0 REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 373.99517822265625 4 373.993455 1491.94471 2.3579 0.00088183 0.19418 7.2621E-05 2.5521 0.00095446 373.99355901864914 46.041 0.64046 46.867 46.658 47.298 0.82621 87 33 3 0 0 0 0.91459 1 21097 21097 0.094841 0 1 1468200 + 28693 15155 18547 18605 32276 32276 0.21841843621814405 RRRRKKRSPRP 11 Unmodified _RRRRKKRSPRP_ 0 0 0 REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.9949951171875 4 373.993455 1491.94471 2.5341 0.00094774 0.25022 9.358E-05 2.7843 0.0010413 374.24426978596426 44.438 0.60053 44.708 44.424 45.025 0.2694 73 30 4 0 0 0 0.91345 2 20245 20245;20364 0.45452 0 1 2898100 + 28694 15155 18547 18605 32277;32278 32277 0.21841843621814405 RRRRKKRSPRP 11 Unmodified _RRRRKKRSPRP_ 0 0 0 REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.9943542480469 4 373.993455 1491.94471 2.6418 0.00098801 0.15161 5.6701E-05 2.7934 0.0010447 374.2440993374586 45.539 0.51204 45.807 45.541 46.053 0.26768 55 18 4 0 0 0 0.85532 1 20873 20873 4.4062 3.9002 1 2920900 + 28695 15155 18547 18605 32279 32279 0.21841843621814405 RRRRKKRSPRP 11 Unmodified _RRRRKKRSPRP_ 0 0 0 REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.2449035644531 4 373.993455 1491.94471 2.7114 0.0010141 -0.73002 -0.00027302 1.9814 0.00074103 374.24397946541376 45.908 0.25603 46.174 46.051 46.307 0.26561 26 9 3 0 0 0 0.91373 1 20997 20997 0.36667 0.28332 1 1606100 + 28696 15155 18547 18605 32280 32280 0.21841843621814405 RRRRKKRSPRP 11 Unmodified _RRRRKKRSPRP_ 0 0 0 REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.9948425292969 4 373.993455 1491.94471 2.9088 0.0010879 -0.053049 -1.984E-05 2.8557 0.001068 374.2442335464059 46.698 1.2154 46.963 46.307 47.522 0.26561 131 47 4 0 0 0 0.91104 1 21386 21386 1.2148 0.76031 1 4392400 + 28697 15155 18547 18605 32281 32281 0.21841843621814405 RRRRKKRSPRP 11 Unmodified _RRRRKKRSPRP_ 0 0 0 REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 373.993455 1491.94471 2.576 0.0009634 -0.16198 -6.0581E-05 2.414 0.00090282 373.9933039931775 47.572 0.53424 47.572 47.108 47.642 0 -0.063947 0.00022726 NaN 0.40827 63 29 4 NaN NaN NaN NaN 0 NaN NaN 0 2056800 + 28698 15155 18547 18605 0.21841843621814405 RRRRKKRSPRP 11 Unmodified _RRRRKKRSPRP_ 0 0 0 REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 373.993455 1491.94471 2.6094 0.00097591 0.29751 0.00011127 2.907 0.0010872 373.99345129806136 47.023 0.62778 47.023 46.603 47.231 0 0.078951 0.00018892 NaN 1.2148 63 27 3 NaN NaN NaN NaN 0 NaN NaN 0 1562400 + 28699 15155 18547 18605 0.21841843621814405 RRRRKKRSPRP 11 Unmodified _RRRRKKRSPRP_ 0 0 0 REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 373.993455 1491.94471 2.3579 0.00088183 0.19418 7.2621E-05 2.5521 0.00095446 373.99355901864914 46.041 0.64046 46.867 46.658 47.298 0.82621 -0.077153 3.4331E-05 NaN 1.2148 87 33 3 NaN NaN NaN NaN 0 NaN NaN 0 1468200 + 28700 15155 18547 18605 0.21841843621814405 RRRRKKRSPRP 11 Unmodified _RRRRKKRSPRP_ 0 0 0 REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 373.993455 1491.94471 2.6418 0.00098801 0.15161 5.6701E-05 2.7934 0.0010447 374.2440993374586 45.539 0.51204 45.807 45.541 46.053 0.26768 0.095362 3.5126E-06 NaN 4.4062 55 18 4 NaN NaN NaN NaN 0 NaN NaN 0 2920900 + 28701 15155 18547 18605 0.21841843621814405 RRRRKKRSPRP 11 Unmodified _RRRRKKRSPRP_ 0 0 0 REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 373.993455 1491.94471 2.6104 0.00097628 -0.93764 -0.00035067 1.6728 0.00062561 373.9930347984353 47.048 0.087036 47.7 47.666 47.753 0.65219 0.063947 -0.00093311 NaN 0.40827 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 854560 + 28702 15155 18547 18605 0.21841843621814405 RRRRKKRSPRP 11 Unmodified _RRRRKKRSPRP_ 0 0 0 REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 373.993455 1491.94471 2.854 0.0010674 0.14684 5.4916E-05 3.0008 0.0011223 374.24419112651515 44.966 0.86668 45.616 45.174 46.041 0.64999 -0.095362 -3.6281E-06 NaN 4.4062 78 33 3 NaN NaN NaN NaN 0 NaN NaN 0 1655900 + 28703 15155 18547 18605 0.21841843621814405 RRRRKKRSPRP 11 Unmodified _RRRRKKRSPRP_ 0 0 0 REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF REV__ENST00000296490.7_1_3:52312489-52312597:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 373.993455 1491.94471 2.9171 0.001091 0.23717 8.87E-05 3.1543 0.0011797 373.9935066178539 46.271 1.5345 46.923 46.002 47.537 0.65219 -0.020918 9.8646E-05 NaN 1.2148 138 57 3 NaN NaN NaN NaN 0 NaN NaN 0 2019500 + 28704 15155 18547 18605 0.21841843621814405 RRRRKKWRKMN 11 Unmodified _RRRRKKWRKMN_ 0 0 0 REV__FBXO3|p.M415Wfs*73|1|0.18|ENSG00000110429|chr11:33742081-33742081|T/-|frameshift_variant REV__FBXO3|p.M415Wfs*73|1|0.18|ENSG00000110429|chr11:33742081-33742081|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 807.9899291992188 2 807.989143 1613.96373 NaN NaN NaN NaN NaN NaN NaN 93.386 1 94.017 93.517 94.517 0.63115 0 0 0 1.0082 1 42960 42960 0 0 1 + 28705 17687 18548 18606 32282 32282 0.1813105692122008 RRRRKLKLKRK 11 Unmodified _RRRRKLKLKRK_ 0 0 0 REV__ENST00000502782.5_1_5:34845647-34845701:+|nuORF REV__ENST00000502782.5_1_5:34845647-34845701:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 769.634033203125 2 769.539326 1537.0641 NaN NaN NaN NaN NaN NaN NaN 107.87 1 107.87 107.37 108.37 0 0 0 0 1.0082 1 59134 59134 0 0 1 + 28706 16896 18549 18607 32283 32283 0.3170503724650189 RRRRKLKLKRK 11 Unmodified _RRRRKLKLKRK_ 0 0 0 REV__ENST00000502782.5_1_5:34845647-34845701:+|nuORF REV__ENST00000502782.5_1_5:34845647-34845701:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 769.5410766601562 2 769.539326 1537.0641 NaN NaN NaN NaN NaN NaN NaN 92.802 1 92.888 92.388 93.388 0.086212 0 0 0 1.0082 1 48467 48467 0 0 1 + 28707 16896 18549 18607 32284 32284 0.3170503724650189 RRRRKPPRL 9 Unmodified _RRRRKPPRL_ 0 0 0 REV__ENST00000551269.1_1_12:50037029-50037194:+|nuORF REV__ENST00000551269.1_1_12:50037029-50037194:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 309.5372314453125 4 309.457445 1233.80067 2.2952 0.00071027 -1.8477 -0.00057179 0.4475 0.00013848 309.7073512782795 39.86 0.15775 40.127 40.01 40.168 0.26696 7 4 2 0 0 0 0.11436 1 18147 18147 0.23584 0 1 104570 + 28708 11215 18550 18608 32285 32285 0.19312621861695334 RRRRKQRKKK 10 Unmodified _RRRRKQRKKK_ 0 0 0 ENST00000579674.1_1_17:27898877-27899117:+|nuORF;ENSG00000167543|ENST00000301057|TP53I13 ENST00000579674.1_1_17:27898877-27899117:+|nuORF ENST00000579674.1_1_17:27898877-27899117:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 720.90478515625 2 720.484551 1438.95455 NaN NaN NaN NaN NaN NaN NaN 93.433 1 93.519 93.019 94.019 0.086212 0 0 0 1.002 1 48940 48940 0 0 1 28709 4560 18551 18609 32286 32286 0.25263031627173405 RRRRKRAPKIW 11 Unmodified _RRRRKRAPKIW_ 0 0 0 REV__nc|ENSG00000181090|Q9H9B1-4|EHMT1 REV__nc|ENSG00000181090|Q9H9B1-4|EHMT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.3262939453125 3 508.327043 1521.9593 2.7572 0.0014016 -2.7686 -0.0014073 -0.011373 -5.7811E-06 508.325556340246 105.82 0.095116 105.82 105.76 105.85 0 7 4 2 0 0 0 0.91391 1 58159 58159 0.08335 0.08335 1 1115400 + 28710 13842 18552 18610 32287 32287 0.21919915769967702 RRRRKRAPKIW 11 Unmodified _RRRRKRAPKIW_ 0 0 0 REV__nc|ENSG00000181090|Q9H9B1-4|EHMT1 REV__nc|ENSG00000181090|Q9H9B1-4|EHMT1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 508.327043 1521.9593 2.7572 0.0014016 -2.7686 -0.0014073 -0.011373 -5.7811E-06 508.325556340246 105.82 0.095116 105.82 105.76 105.85 0 -0.18688 0.000385 NaN 0.08335 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1115400 + 28711 13842 18552 18610 0.21919915769967702 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.9759826660156 3 478.974893 1433.90285 3.1193 0.001494 0.13165 6.3058E-05 3.2509 0.0015571 478.97484245102083 37.497 0.44835 37.497 37.219 37.667 0 47 16 4 0 0 0 0.94443 1 17006 17006 0 0 1 1156100 + 28712 17861 18553 18611 32288 32288 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.4837341308594 4 359.482989 1433.90285 2.6781 0.00096275 -0.082391 -2.9618E-05 2.5957 0.00093313 359.48281835315447 37.777 0.32325 37.777 37.637 37.96 0 42 12 4 0 0 0 0.9427 1 17200 17200 0.12286 0.12286 1 5924200 + 28713 17861 18553 18611 32289 32289 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.4836730957031 4 359.482989 1433.90285 2.6696 0.00095967 0.21481 7.7221E-05 2.8844 0.0010369 359.4829228965769 38.131 0.35492 38.131 37.91 38.265 0 44 12 5 0 0 0 0.9427 1 17321 17321 0.12286 0.12286 1 6206300 + 28714 17861 18553 18611 32290 32290 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.48370361328125 4 359.482989 1433.90285 2.6562 0.00095486 0.0031708 1.1399E-06 2.6594 0.000956 359.4829012505675 39.779 0.86102 39.779 39.255 40.116 0 156 36 5 0 0 0 0.9427 6 17985 17878;17985;18038;18092;18143;18191 0.12286 0 1 10408000 + 28715 17861 18553 18611 32291;32292;32293;32294;32295;32296 32292 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 359.4840087890625 4 359.482989 1433.90285 2.4555 0.00088271 0.22093 7.942E-05 2.6764 0.00096213 359.48295737928623 36.095 0.44035 36.887 36.637 37.078 0.79131 74 17 5 0 0 0 0.94443 1 16285 16285 0 0 1 5578700 + 28716 17861 18553 18611 32297 32297 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 359.483642578125 4 359.482989 1433.90285 2.3799 0.00085555 0.2441 8.7751E-05 2.6241 0.0009433 359.4829314175097 37.041 0.56167 37.834 37.481 38.042 0.79342 73 25 4 0 0 0 0.94443 3 16714 16714;16766;16811 0 0 1 4129800 + 28717 17861 18553 18611 32298;32299;32300 32298 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 359.7344970703125 4 359.482989 1433.90285 2.3918 0.00085981 0.059254 2.1301E-05 2.4511 0.00088112 359.48285881410425 38.546 1.0555 39.343 38.784 39.84 0.79762 158 46 5 0 0 0 0.9427 6 17449 17286;17449;17501;17552;17601;17646 0.12286 0.12286 1 3888800 + 28718 17861 18553 18611 32301;32302;32303;32304;32305;32306 32302 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 359.7345886230469 4 359.482989 1433.90285 2.3858 0.00085767 0.15176 5.4554E-05 2.5376 0.00091222 359.4830185371379 39.435 0.32111 40.234 40.106 40.427 0.79895 28 15 2 0 0 0 0.94443 3 17811 17811;17859;17904 0 0 1 2380700 + 28719 17861 18553 18611 32307;32308;32309 32307 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 359.48406982421875 4 359.482989 1433.90285 2.3858 0.00085767 0.15176 5.4554E-05 2.5376 0.00091222 359.4830185371379 39.435 0.32111 40.234 40.106 40.427 0.79895 28 15 2 0 0 0 0.12676 1 17904 17904 0 0 1 2380700 + 28720 17861 18553 18611 32310 32310 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 359.7344970703125 4 359.482989 1433.90285 2.3918 0.00085981 0.059254 2.1301E-05 2.4511 0.00088112 359.48285881410425 38.546 1.0555 39.343 38.784 39.84 0.79762 158 46 5 0 0 0 0.12676 1 17449 17449 0.12286 0.12286 1 3888800 + 28721 17861 18553 18611 32311 32311 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 359.7345275878906 4 359.482989 1433.90285 2.3799 0.00085555 0.2441 8.7751E-05 2.6241 0.0009433 359.4829314175097 37.041 0.56167 37.834 37.481 38.042 0.79342 73 25 4 0 0 0 0.12676 1 16630 16630 0.13989 0.13989 1 4129800 + 28722 17861 18553 18611 32312 32312 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.4833679199219 4 359.482989 1433.90285 2.6978 0.00096982 0.0048033 1.7267E-06 2.7026 0.00097155 359.4828759414128 37.028 0.54763 37.288 36.898 37.446 0.25977 65 17 4 0 0 0 0.9427 2 16744 16744;16920 0.12286 0.12286 1 7217900 + 28723 17861 18553 18611 32313;32314 32313 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.31060791015625 3 478.974893 1433.90285 3.2083 0.0015367 0.064462 3.0876E-05 3.2727 0.0015676 478.97483135987113 37.307 0.3726 37.568 37.416 37.789 0.26083 32 11 4 0 0 0 0.94443 1 17005 17005 0 0 1 1180600 + 28724 17861 18553 18611 32315 32315 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.4831237792969 4 359.482989 1433.90285 2.6563 0.00095489 0.19154 6.8854E-05 2.8478 0.0010237 359.48295080047177 37.706 0.4854 37.967 37.758 38.243 0.26083 58 15 5 0 0 0 0.94443 1 17255 17255 0 0 1 4497900 + 28725 17861 18553 18611 32316 32316 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.48358154296875 4 359.482989 1433.90285 2.4192 0.00086965 0.071092 2.5556E-05 2.4903 0.00089521 359.4829079440855 38.707 0.50314 38.971 38.69 39.193 0.26408 74 19 5 0 0 0 0.94443 2 17558 17558;17664 0 0 1 7539200 + 28726 17861 18553 18611 32317;32318 32317 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.4838562011719 4 359.482989 1433.90285 2.5248 0.00090762 0.11667 4.1941E-05 2.6415 0.00094956 359.4829357102737 39.153 0.7061 39.417 39.144 39.851 0.26408 118 28 6 0 0 0 0.94443 6 17711 17711;17763;17807;17867;17927;17982 0 0 1 7092400 + 28727 17861 18553 18611 32319;32320;32321;32322;32323;32324 32319 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.4838562011719 4 359.482989 1433.90285 2.4633 0.00088551 0.19028 6.8402E-05 2.6536 0.00095391 359.73377574923046 45.053 0.64849 45.321 45.154 45.803 0.26768 71 27 4 0 0 0 0.94443 1 20778 20778 0 0 1 1397100 + 28728 17861 18553 18611 32325 32325 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.483642578125 4 359.482989 1433.90285 2.6411 0.00094944 0.10105 3.6326E-05 2.7422 0.00098577 359.4829453987258 36.156 0.83068 36.782 36.52 37.35 0.62631 103 29 4 0 0 0 0.94443 3 16612 16612;16670;16726 0 0 1 7848900 + 28729 17861 18553 18611 32326;32327;32328 32326 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.48406982421875 4 359.482989 1433.90285 2.5584 0.00091968 0.3967 0.00014261 2.9551 0.0010623 359.4829863605634 36.974 0.56001 37.604 37.329 37.889 0.62999 72 23 4 0 0 0 0.94246 2 16850 16850;16967 0.13989 0.04505 1 3479500 + 28730 17861 18553 18611 32329;32330 32329 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.4839782714844 4 359.482989 1433.90285 2.5233 0.00090708 0.30475 0.00010955 2.828 0.0010166 359.48298229262326 38.984 1.1087 39.622 38.808 39.917 0.63778 157 42 4 0 0 0 0.94443 2 17775 17775;17936 0 0 1 6128000 + 28731 17861 18553 18611 32331;32332 32331 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.976806640625 3 478.974893 1433.90285 3.1457 0.0015067 0.03601 1.7248E-05 3.1817 0.001524 479.30918971673776 38.996 1.1805 39.634 38.897 40.078 0.63778 54 43 2 0 0 0 0.94443 1 17926 17926 0 0 1 794220 + 28732 17861 18553 18611 32333 32333 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 478.974893 1433.90285 3.1108 0.00149 1.1374 0.00054478 4.2482 0.0020348 479.30942251142693 37.803 0.56747 37.803 37.637 38.204 0 0.14918 0.0015797 NaN 0 42 21 3 NaN NaN NaN NaN 0 NaN NaN 0 1079500 + 28733 17861 18553 18611 0.2032528793331494 RRRRKRRHIT 10 Unmodified _RRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 478.974893 1433.90285 3.1427 0.0015053 -0.11292 -5.4088E-05 3.0298 0.0014512 478.97475521802744 36.96 0.43389 37.59 37.354 37.788 0.62999 -0.063948 -0.00021695 NaN 0 31 17 3 NaN NaN NaN NaN 0 NaN NaN 0 457530 + 28734 17861 18553 18611 0.2032528793331494 RRRRKRRRRRE 11 Unmodified _RRRRKRRRRRE_ 0 0 0 REV__ENST00000444772.3_1_10:21805118-21806168:-|nuORF REV__ENST00000444772.3_1_10:21805118-21806168:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.97265625 3 561.02665 1680.05812 NaN NaN NaN NaN NaN NaN NaN 65.672 1 66.381 65.881 66.881 0.70891 0 0 0 1.0082 1 31078 31078 0 0 1 + 28735 16373 18554 18612 32334 32334 0.24529331787562114 RRRRKWKGRRR 11 Unmodified _RRRRKWKGRRR_ 0 0 0 REV__nc|ENSG00000130159|Q9BQ95-4|ECSIT REV__nc|ENSG00000130159|Q9BQ95-4|ECSIT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.6787719726562 3 537.676958 1610.00904 2.7624 0.0014853 -0.32679 -0.00017571 2.4356 0.0013096 537.6769148739263 105.98 0.10207 105.98 105.92 106.02 0 6 3 2 0 0 0 0.91489 1 58233 58233 0 0 1 1132500 + 28736 17932 18555 18613 32335 32335 0.2284404349857141 RRRRKWKGRRR 11 Unmodified _RRRRKWKGRRR_ 0 0 0 REV__nc|ENSG00000130159|Q9BQ95-4|ECSIT REV__nc|ENSG00000130159|Q9BQ95-4|ECSIT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 806.0115966796875 2 806.011799 1610.00904 NaN NaN NaN NaN NaN NaN NaN 59.509 1 60.174 59.674 60.674 0.66503 0 0 0 1.0082 1 27242 27242 0 0 1 + 28737 17932 18555 18613 32336 32336 0.2284404349857141 RRRRKWKGRRR 11 Unmodified _RRRRKWKGRRR_ 0 0 0 REV__nc|ENSG00000130159|Q9BQ95-4|ECSIT REV__nc|ENSG00000130159|Q9BQ95-4|ECSIT MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 537.676958 1610.00904 2.7624 0.0014853 -0.32679 -0.00017571 2.4356 0.0013096 537.6769148739263 105.98 0.10207 105.98 105.92 106.02 0 -0.055838 4.8002E-05 NaN 0 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1132500 + 28738 17932 18555 18613 0.2284404349857141 RRRRKWKGRRR 11 Unmodified _RRRRKWKGRRR_ 0 0 0 REV__nc|ENSG00000130159|Q9BQ95-4|ECSIT REV__nc|ENSG00000130159|Q9BQ95-4|ECSIT MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 537.676958 1610.00904 1.8287 0.00098325 -0.48597 -0.00026129 1.3427 0.00072195 538.0115750452644 106.04 0.13359 106.09 106.03 106.16 0.04837 0.055838 -0.00020876 NaN 0 13 5 3 NaN NaN NaN NaN 0 NaN NaN 0 1482400 + 28739 17932 18555 18613 0.2284404349857141 RRRRLKKPKVL 11 Unmodified _RRRRLKKPKVL_ 0 0 0 ENST00000367265.7_1_1:202777435-202777672:-|nuORF ENST00000367265.7_1_1:202777435-202777672:-|nuORF ENST00000367265.7_1_1:202777435-202777672:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.6628112792969 3 484.003678 1448.9892 NaN NaN NaN NaN NaN NaN NaN 65.236 1 65.236 64.736 65.736 0 0 0 0 1.0082 1 31045 31045 0 0 1 28740 7255 18556 18614 32337 32337 0.2826685471527526 RRRRLKKPKVL 11 Unmodified _RRRRLKKPKVL_ 0 0 0 ENST00000367265.7_1_1:202777435-202777672:-|nuORF ENST00000367265.7_1_1:202777435-202777672:-|nuORF ENST00000367265.7_1_1:202777435-202777672:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 725.49951171875 2 725.501878 1448.9892 NaN NaN NaN NaN NaN NaN NaN 104.91 1 105.22 104.72 105.72 0.31782 0 0 0 1.0082 1 48426 48426 0 0 1 28741 7255 18556 18614 32338 32338 0.2826685471527526 RRRRLLSCPHR 11 Unmodified _RRRRLLSCPHR_ 0 0 0 nc|ENSG00000116514|Q6ZMZ0-3|RNF19B nc|ENSG00000116514|Q6ZMZ0-3|RNF19B nc|ENSG00000116514|Q6ZMZ0-3|RNF19B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.05047607421875 3 483.952989 1448.83714 NaN NaN NaN NaN NaN NaN NaN 68.625 1 69.327 68.827 69.827 0.70218 0 0 0 1.0073 1 32737 32737 1.2148 0.20126 1 28742 9612 18557 18615 32339 32339 0.13067130696094864 RRRRLPPRK 9 Unmodified _RRRRLPPRK_ 0 0 0 ENSG00000225614|ENST00000565624|ZNF469 ENSG00000225614|ENST00000565624|ZNF469 ENSG00000225614|ENST00000565624|ZNF469 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 309.53704833984375 4 309.457445 1233.80067 2.0163 0.00062397 -0.89946 -0.00027834 1.1169 0.00034563 309.4567981244798 37.551 0.68931 37.551 37.298 37.987 0 56 26 3 0 0 0 0.11436 1 17079 17079 0.23584 0 1 396820 28743 6167 18558 18616 32340 32340 0.19312621861672596 RRRRLPPRK 9 Unmodified _RRRRLPPRK_ 0 0 0 ENSG00000225614|ENST00000565624|ZNF469 ENSG00000225614|ENST00000565624|ZNF469 ENSG00000225614|ENST00000565624|ZNF469 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 309.5373229980469 4 309.457445 1233.80067 2.2417 0.00069372 -2.1965 -0.00067974 0.045175 1.398E-05 309.4568415053835 36.1 0.58539 36.726 36.52 37.105 0.62631 21 18 2 0 0 0 0.11436 1 16505 16505 0.23584 0 1 449590 28744 6167 18558 18616 32341 32341 0.19312621861672596 RRRRLPQRQRL 11 Unmodified _RRRRLPQRQRL_ 0 0 0 ENST00000331569.5_1_8:37554703-37555105:+|nuORF ENST00000331569.5_1_8:37554703-37555105:+|nuORF ENST00000331569.5_1_8:37554703-37555105:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 767.9906616210938 2 767.984915 1533.95528 NaN NaN NaN NaN NaN NaN NaN 97.637 1 97.707 97.207 98.207 0.070648 0 0 0 1.0082 1 52265 52265 0 0 1 28745 6992 18559 18617 32342 32342 0.20965826276233201 RRRRLQRPKRR 11 Unmodified _RRRRLQRPKRR_ 0 0 0 ENST00000591269.1_1_18:13687790-13726416:-|nuORF ENST00000591269.1_1_18:13687790-13726416:-|nuORF ENST00000591269.1_1_18:13687790-13726416:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 789.5111083984375 2 789.511632 1577.00871 NaN NaN NaN NaN NaN NaN NaN 60.531 1 60.531 60.031 61.031 0 0 0 0 1.0082 1 28127 28127 0 0 1 28746 9235 18560 18618 32343 32343 0.24328623778728797 RRRRLQRRRQL 11 Unmodified _RRRRLQRRRQL_ 0 0 0 ENSG00000215612|ENST00000400677|HMX1 ENSG00000215612|ENST00000400677|HMX1 ENSG00000215612|ENST00000400677|HMX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 797.886962890625 2 797.509089 1593.00362 NaN NaN NaN NaN NaN NaN NaN 79.58 1 79.58 79.08 80.08 0 0 0 0 1.0082 1 39349 39349 0 0 1 28747 6135 18561 18619 32344 32344 0.23084319916119966 RRRRLRRWR 9 Unmodified _RRRRLRRWR_ 0 0 0 REV__ENST00000422955.5_2_3:49977585-50000034:+|nuORF REV__ENST00000422955.5_2_3:49977585-50000034:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 706.1642456054688 2 705.948136 1409.88172 NaN NaN NaN NaN NaN NaN NaN 101.67 1 101.67 101.17 102.17 0 0 0 0 0.91238 1 56169 56169 0.52476 0 1 + 28748 16186 18562 18620 32345 32345 0.1931732262441983 RRRRLVRQQRR 11 Unmodified _RRRRLVRQQRR_ 0 0 0 REV__ENST00000397992.5_1_16:72984846-73092758:-|nuORF REV__ENST00000397992.5_1_16:72984846-73092758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 790.4996948242188 2 790.501264 1578.98797 NaN NaN NaN NaN NaN NaN NaN 109.23 1 109.54 109.04 110.04 0.31015 0 0 0 1.0079 1 50356 50356 1.1933 0 1 + 28749 16021 18563 18621 32346 32346 0.22164033399099026 RRRRLWRWWKL 11 Unmodified _RRRRLWRWWKL_ 0 0 0 chr12:54283225-54283827|538|47.58|0.0|22.18|+|1|HNRNPA1,HNRNPA1|2 chr12:54283225-54283827|538|47.58|0.0|22.18|+|1|HNRNPA1,HNRNPA1|2 chr12:54283225-54283827|538|47.58|0.0|22.18|+|1|HNRNPA1,HNRNPA1|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 856.5171508789062 2 856.515851 1711.01715 NaN NaN NaN NaN NaN NaN NaN 60.707 1 61.447 60.947 61.947 0.7396 0 0 0 1.0082 1 28059 28059 0 0 1 28750 145 18564 18622 32347 32347 0.19008177695377526 RRRRLWRWWKL 11 Unmodified _RRRRLWRWWKL_ 0 0 0 chr12:54283225-54283827|538|47.58|0.0|22.18|+|1|HNRNPA1,HNRNPA1|2 chr12:54283225-54283827|538|47.58|0.0|22.18|+|1|HNRNPA1,HNRNPA1|2 chr12:54283225-54283827|538|47.58|0.0|22.18|+|1|HNRNPA1,HNRNPA1|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 856.5194091796875 2 856.515851 1711.01715 NaN NaN NaN NaN NaN NaN NaN 103.25 1 103.85 103.35 104.35 0.59821 0 0 0 1.0082 1 47767 47767 0 0 1 28751 145 18564 18622 32348 32348 0.19008177695377526 RRRRLWRWWW 10 Unmodified _RRRRLWRWWW_ 0 0 0 chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 828.9696655273438 2 828.965994 1655.91744 NaN NaN NaN NaN NaN NaN NaN 84.497 1 84.497 83.997 84.997 0 0 0 0 1.002 1 42790 42790 0 0 1 28752 146 18565 18623 32349 32349 0.1157136008141606 RRRRLWRWWW 10 Unmodified _RRRRLWRWWW_ 0 0 0 chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 829.0645141601562 2 828.965994 1655.91744 NaN NaN NaN NaN NaN NaN NaN 107.7 1 107.7 107.2 108.2 0 0 0 0 1.0015 1 59050 59050 0.40072 0.40072 1 28753 146 18565 18623 32350 32350 0.1157136008141606 RRRRMEMKRRR 11 Unmodified _RRRRMEMKRRR_ 0 0 0 REV__nc|ENSG00000164334|A1A519-4|FAM170A REV__nc|ENSG00000164334|A1A519-4|FAM170A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 815.9752807617188 2 815.97571 1629.93687 NaN NaN NaN NaN NaN NaN NaN 55.455 1 55.72 55.22 56.22 0.26543 0 0 0 1.0082 1 25359 25359 0 0 1 + 28754 18015 18566 18624 32351 32351 0.14709625038358354 RRRRMKMKKKK 11 Unmodified _RRRRMKMKKKK_ 0 0 0 REV__ENST00000559471.5_1_15:49284721-49284799:-|nuORF REV__ENST00000559471.5_1_15:49284721-49284799:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 773.4933471679688 2 773.492673 1544.97079 NaN NaN NaN NaN NaN NaN NaN 92.288 1 92.935 92.435 93.435 0.64714 0 0 0 1.0082 1 42461 42461 0 0 1 + 28755 17357 18567 18625 32352 32352 0.2201065347740041 RRRRNRRHQFW 11 Unmodified _RRRRNRRHQFW_ 0 0 0 REV__ENST00000464624.6_1_20:57428320-57466719:+|nuORF REV__ENST00000464624.6_1_20:57428320-57466719:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 834.4714965820312 2 834.469964 1666.92537 NaN NaN NaN NaN NaN NaN NaN 87.007 1 87.256 86.756 87.756 0.24974 0 0 0 1.0082 1 40049 40049 0 0 1 + 28756 16532 18568 18626 32353 32353 0.11858887330913603 RRRRPDRRR 9 Unmodified _RRRRPDRRR_ 0 0 0 REV__nc|ENSG00000251359|Q96NR7|WWC2-AS2 REV__nc|ENSG00000251359|Q96NR7|WWC2-AS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.9412841796875 3 441.939959 1322.79805 3.008 0.0013294 -0.36969 -0.00016338 2.6383 0.001166 441.939870465558 54.989 0.26811 54.989 54.757 55.025 0 35 25 2 0 0 0 1.1412 1 25200 25200 0.86438 0 1 806070 + 28757 17491 18569 18627 32354 32354 0.14956166456704523 RRRRPDRRR 9 Unmodified _RRRRPDRRR_ 0 0 0 REV__nc|ENSG00000251359|Q96NR7|WWC2-AS2 REV__nc|ENSG00000251359|Q96NR7|WWC2-AS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.7077941894531 4 331.706789 1322.79805 2.008 0.00066606 -0.53163 -0.00017634 1.4764 0.00048972 331.7064829791462 55.799 0.38013 56.586 56.383 56.763 0.78711 64 29 3 0 0 0 1.1412 1 25453 25453 0.86438 0 1 1738800 + 28758 17491 18569 18627 32355 32355 0.14956166456704523 RRRRPDRRR 9 Unmodified _RRRRPDRRR_ 0 0 0 REV__nc|ENSG00000251359|Q96NR7|WWC2-AS2 REV__nc|ENSG00000251359|Q96NR7|WWC2-AS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.9410095214844 3 441.939959 1322.79805 2.9012 0.0012821 -0.44998 -0.00019887 2.4512 0.0010833 441.93970859960757 53.573 0.79893 53.838 53.513 54.312 0.26462 67 37 2 0 0 0 1.1412 1 24567 24567 0.86438 0.40986 1 1556200 + 28759 17491 18569 18627 32356 32356 0.14956166456704523 RRRRPDRRR 9 Unmodified _RRRRPDRRR_ 0 0 0 REV__nc|ENSG00000251359|Q96NR7|WWC2-AS2 REV__nc|ENSG00000251359|Q96NR7|WWC2-AS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.9415588378906 3 441.939959 1322.79805 2.6569 0.0011742 0.21569 9.5322E-05 2.8726 0.0012695 441.9399701077559 54.474 0.45411 54.739 54.456 54.91 0.26462 51 20 3 0 0 0 1.1412 1 24867 24867 0.86438 0.86438 1 1180800 + 28760 17491 18569 18627 32357 32357 0.14956166456704523 RRRRPDRRR 9 Unmodified _RRRRPDRRR_ 0 0 0 REV__nc|ENSG00000251359|Q96NR7|WWC2-AS2 REV__nc|ENSG00000251359|Q96NR7|WWC2-AS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.7073669433594 4 331.706789 1322.79805 2.2895 0.00075945 -0.0071465 -2.3705E-06 2.2824 0.00075708 331.7066874686364 55.439 0.46024 56.107 55.856 56.316 0.66798 46 18 3 0 0 0 1.1412 1 25325 25325 0.86438 0.40986 1 2767600 + 28761 17491 18569 18627 32358 32358 0.14956166456704523 RRRRPEPL 8 Unmodified _RRRRPEPL_ 0 0 0 REV__ENST00000380752.9_1_13:30127989-30169592:-|nuORF REV__ENST00000380752.9_1_13:30127989-30169592:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.3311157226562 2 540.330873 1078.64719 4.0575 0.0021924 -1.945 -0.0010509 2.1125 0.0011415 540.3295969503286 102.45 0.17632 102.76 102.66 102.84 0.31737 15 5 4 0 0 0 0.74709 1 47389 47389 2.0598 0 1 1854000 + 28762 15883 18570 18628 32359 32359 0.1110158702535955 RRRRPKRRRRK 11 Unmodified _RRRRPKRRRRK_ 0 0 0 ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.0396118164062 2 811.038348 1620.06214 NaN NaN NaN NaN NaN NaN NaN 81.969 1 81.969 81.469 82.469 0 0 0 0 1.0082 1 40898 40898 0 0 1 28763 8971 18571 18629 32360 32360 0.2769142128126987 RRRRPKRRRRK 11 Unmodified _RRRRPKRRRRK_ 0 0 0 ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.0419311523438 2 811.038348 1620.06214 NaN NaN NaN NaN NaN NaN NaN 88.605 1 88.605 88.105 89.105 0 0 0 0 1.0082 1 46023 46023 0 0 1 28764 8971 18571 18629 32361 32361 0.2769142128126987 RRRRPKRRRRK 11 Unmodified _RRRRPKRRRRK_ 0 0 0 ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.0359497070312 2 811.038348 1620.06214 NaN NaN NaN NaN NaN NaN NaN 94.968 1 94.968 94.468 95.468 0 0 0 0 1.0082 1 51045 51045 0 0 1 28765 8971 18571 18629 32362 32362 0.2769142128126987 RRRRPKRRRRK 11 Unmodified _RRRRPKRRRRK_ 0 0 0 ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.099365234375 2 811.038348 1620.06214 NaN NaN NaN NaN NaN NaN NaN 96.499 1 96.499 95.999 96.999 0 0 0 0 1.0082 1 52244 52244 0 0 1 28766 8971 18571 18629 32363 32363 0.2769142128126987 RRRRPKRRRRK 11 Unmodified _RRRRPKRRRRK_ 0 0 0 ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.0277099609375 3 541.027991 1620.06214 NaN NaN NaN NaN NaN NaN NaN 64.118 1 64.833 64.333 65.333 0.71521 0 0 0 1.0082 1 30165 30165 0 0 1 28767 8971 18571 18629 32364 32364 0.2769142128126987 RRRRPKRRRRK 11 Unmodified _RRRRPKRRRRK_ 0 0 0 ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.0427856445312 2 811.038348 1620.06214 NaN NaN NaN NaN NaN NaN NaN 92.659 1 92.745 92.245 93.245 0.086212 0 0 0 1.0082 1 48359 48359 0 0 1 28768 8971 18571 18629 32365 32365 0.2769142128126987 RRRRPKRRRRK 11 Unmodified _RRRRPKRRRRK_ 0 0 0 ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.0391845703125 2 811.038348 1620.06214 NaN NaN NaN NaN NaN NaN NaN 94.267 1 94.353 93.853 94.853 0.086212 0 0 0 1.0082 1 49549 49549 0 0 1 28769 8971 18571 18629 32366 32366 0.2769142128126987 RRRRPKRRRRK 11 Unmodified _RRRRPKRRRRK_ 0 0 0 ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.0400390625 2 811.038348 1620.06214 NaN NaN NaN NaN NaN NaN NaN 94.833 1 94.915 94.415 95.415 0.082001 0 0 0 1.0082 1 49991 49991 0 0 1 28770 8971 18571 18629 32367 32367 0.2769142128126987 RRRRPKRRRRK 11 Unmodified _RRRRPKRRRRK_ 0 0 0 ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.0665283203125 2 811.038348 1620.06214 NaN NaN NaN NaN NaN NaN NaN 102.07 1 102.12 101.62 102.62 0.057198 0 0 0 1.0082 1 55420 55420 0 0 1 28771 8971 18571 18629 32368 32368 0.2769142128126987 RRRRPLGWS 9 Unmodified _RRRRPLGWS_ 0 0 0 ENST00000295025.12_1_2:61108769-61108910:+|nuORF ENST00000295025.12_1_2:61108769-61108910:+|nuORF ENST00000295025.12_1_2:61108769-61108910:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 395.2227783203125 3 395.23549 1182.68464 2.6152 0.0010336 -0.98754 -0.00039031 1.6277 0.00064333 395.56935154318 32.664 0.38253 32.664 32.402 32.785 0 39 25 2 0 0 0 1.0041 1 14814 14814 2.2828 0.69049 1 253780 28772 6753 18572 18630 32369 32369 0.1006067829098356 RRRRPLRRRDG 11 Unmodified _RRRRPLRRRDG_ 0 0 0 nc|ENSG00000059145|Q9H9P5|UNKL;ENSG00000059145|ENST00000389221|UNKL;nc|ENSG00000059145|Q9H9P5-6|UNKL;ENST00000503648.1_1_16:1451355-1464692:-|nuORF;nc|ENSG00000059145|Q9H9P5-5|UNKL nc|ENSG00000059145|Q9H9P5|UNKL nc|ENSG00000059145|Q9H9P5|UNKL MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.97698974609375 3 498.641802 1492.90358 2.8444 0.0014183 0.20589 0.00010266 3.0503 0.001521 498.97618257009344 59.898 0.16562 59.898 59.758 59.924 0 19 16 2 0 0 0 0.13295 1 27669 27669 0.40827 0 1 3570000 28773 634 18573 18631 32370 32370 0.1768408258233194 RRRRPLRRRDG 11 Unmodified _RRRRPLRRRDG_ 0 0 0 nc|ENSG00000059145|Q9H9P5|UNKL;ENSG00000059145|ENST00000389221|UNKL;nc|ENSG00000059145|Q9H9P5-6|UNKL;ENST00000503648.1_1_16:1451355-1464692:-|nuORF;nc|ENSG00000059145|Q9H9P5-5|UNKL nc|ENSG00000059145|Q9H9P5|UNKL nc|ENSG00000059145|Q9H9P5|UNKL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.23394775390625 4 374.233171 1492.90358 2.1026 0.00078685 -0.1866 -6.9833E-05 1.916 0.00071702 374.2330418258285 59.117 0.71799 59.876 59.525 60.243 0.75894 177 62 4 0 0 0 0.91373 1 27223 27223 0.36667 0.27183 1 6446500 28774 634 18573 18631 32371 32371 0.1768408258233194 RRRRPLRRRDG 11 Unmodified _RRRRPLRRRDG_ 0 0 0 nc|ENSG00000059145|Q9H9P5|UNKL;ENSG00000059145|ENST00000389221|UNKL;nc|ENSG00000059145|Q9H9P5-6|UNKL;ENST00000503648.1_1_16:1451355-1464692:-|nuORF;nc|ENSG00000059145|Q9H9P5-5|UNKL nc|ENSG00000059145|Q9H9P5|UNKL nc|ENSG00000059145|Q9H9P5|UNKL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.6434020996094 3 498.641802 1492.90358 3.2345 0.0016128 -0.21653 -0.00010797 3.018 0.0015049 498.6415318086049 59.272 0.31521 59.532 59.408 59.723 0.2593 27 12 3 0 0 0 0.91104 1 27153 27153 1.2148 0.76031 1 2242800 28775 634 18573 18631 32372 32372 0.1768408258233194 RRRRPLRRRDG 11 Unmodified _RRRRPLRRRDG_ 0 0 0 nc|ENSG00000059145|Q9H9P5|UNKL;ENSG00000059145|ENST00000389221|UNKL;nc|ENSG00000059145|Q9H9P5-6|UNKL;ENST00000503648.1_1_16:1451355-1464692:-|nuORF;nc|ENSG00000059145|Q9H9P5-5|UNKL nc|ENSG00000059145|Q9H9P5|UNKL nc|ENSG00000059145|Q9H9P5|UNKL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.2337951660156 4 374.233171 1492.90358 2.7504 0.0010293 -0.50286 -0.00018819 2.2475 0.00084109 374.23284892241173 59.258 0.60291 59.517 59.316 59.919 0.2593 105 27 5 0 0 0 0.91345 1 27176 27176 0.45452 0.35968 1 13274000 28776 634 18573 18631 32373 32373 0.1768408258233194 RRRRPLRRRDG 11 Unmodified _RRRRPLRRRDG_ 0 0 0 nc|ENSG00000059145|Q9H9P5|UNKL;ENSG00000059145|ENST00000389221|UNKL;nc|ENSG00000059145|Q9H9P5-6|UNKL;ENST00000503648.1_1_16:1451355-1464692:-|nuORF;nc|ENSG00000059145|Q9H9P5-5|UNKL nc|ENSG00000059145|Q9H9P5|UNKL nc|ENSG00000059145|Q9H9P5|UNKL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.6435546875 3 498.641802 1492.90358 3.2409 0.001616 0.13365 6.6646E-05 3.3745 0.0016827 498.6418181409717 58.83 0.58004 59.497 59.108 59.688 0.66703 62 24 3 0 0 0 0.89544 4 26859 26859;26911;26966;27016 2.6312 1.4164 1 2374700 28777 634 18573 18631 32374;32375;32376;32377 32374 0.1768408258233194 RRRRPLRRRDG 11 Unmodified _RRRRPLRRRDG_ 0 0 0 nc|ENSG00000059145|Q9H9P5|UNKL;ENSG00000059145|ENST00000389221|UNKL;nc|ENSG00000059145|Q9H9P5-6|UNKL;ENST00000503648.1_1_16:1451355-1464692:-|nuORF;nc|ENSG00000059145|Q9H9P5-5|UNKL nc|ENSG00000059145|Q9H9P5|UNKL nc|ENSG00000059145|Q9H9P5|UNKL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.9776306152344 3 498.641802 1492.90358 3.2317 0.0016115 -0.12399 -6.1828E-05 3.1078 0.0015497 498.6414603271144 59.107 0.13659 59.774 59.675 59.811 0.66703 20 8 3 0 0 0 0.91359 1 27063 27063 0.40827 0.31342 1 2064500 28778 634 18573 18631 32378 32378 0.1768408258233194 RRRRPRLERR 10 Unmodified _RRRRPRLERR_ 0 0 0 ENST00000557385.1_1_X:119384635-119386530:+|nuORF;ENST00000326624.2_1_X:119384635-119387278:+|nuORF ENST00000557385.1_1_X:119384635-119386530:+|nuORF ENST00000557385.1_1_X:119384635-119386530:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.481689453125 4 363.481717 1449.89776 2.6977 0.00098057 -0.43554 -0.00015831 2.2622 0.00082226 363.4814349797781 39.563 1.0941 40.201 39.503 40.597 0.63778 84 45 3 0 0 0 0.94374 1 18090 18090 0.13989 0.04505 1 1377100 28779 6958 18574 18632 32379 32379 0.19080984070660634 RRRRPRLERRL 11 Unmodified _RRRRPRLERRL_ 0 0 0 ENST00000557385.1_1_X:119384635-119386530:+|nuORF;ENST00000326624.2_1_X:119384635-119387278:+|nuORF ENST00000557385.1_1_X:119384635-119386530:+|nuORF ENST00000557385.1_1_X:119384635-119386530:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.9995727539062 3 522.001219 1562.98183 NaN NaN NaN NaN NaN NaN NaN 74.708 1 74.708 74.208 75.208 0 0 0 0 1.0082 1 36529 36529 0.094841 0 1 28780 6958 18575 18633 32380 32380 0.22285515167573067 RRRRPRRLRIQ 11 Unmodified _RRRRPRRLRIQ_ 0 0 0 REV__nc|ENSG00000114654|Q9HA90|EFCC1 REV__nc|ENSG00000114654|Q9HA90|EFCC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 782.0072631835938 2 782.006182 1561.99781 NaN NaN NaN NaN NaN NaN NaN 104.73 1 104.73 104.23 105.23 0 0 0 0 1.0082 1 57603 57603 0 0 1 + 28781 11328 18576 18634 32381 32381 0.23929221404478085 RRRRPRRRRRV 11 Unmodified _RRRRPRRRRRV_ 0 0 0 ENSG00000185163|ENST00000397333|DDX51 ENSG00000185163|ENST00000397333|DDX51 ENSG00000185163|ENST00000397333|DDX51 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 810.525634765625 2 810.528147 1619.04174 NaN NaN NaN NaN NaN NaN NaN 104.13 1 104.13 103.63 104.63 0 0 0 0 1.0082 1 57328 57328 0 0 1 28782 5494 18577 18635 32382 32382 0.2569825062143991 RRRRPRRRRRV 11 Unmodified _RRRRPRRRRRV_ 0 0 0 ENSG00000185163|ENST00000397333|DDX51 ENSG00000185163|ENST00000397333|DDX51 ENSG00000185163|ENST00000397333|DDX51 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 810.528076171875 2 810.528147 1619.04174 NaN NaN NaN NaN NaN NaN NaN 104.62 1 104.67 104.17 105.17 0.052994 0 0 0 1.0082 1 56627 56627 0 0 1 28783 5494 18577 18635 32383 32383 0.2569825062143991 RRRRPRRRVP 10 Unmodified _RRRRPRRRVP_ 0 0 0 REV__ENST00000358344.7_1_5:177631560-177631635:+|nuORF REV__ENST00000358344.7_1_5:177631560-177631635:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.3072204589844 3 468.971371 1403.89228 2.7591 0.0012939 0.2866 0.00013441 3.0457 0.0014283 469.3057760463624 45.465 0.3266 46.291 46.093 46.42 0.82621 25 18 2 0 0 0 0.94134 2 20709 20652;20709 0.62683 0.17231 1 1459000 + 28784 15580 18578 18636 32384;32385 32385 0.20649305278834618 RRRRPRRRVP 10 Unmodified _RRRRPRRRVP_ 0 0 0 REV__ENST00000358344.7_1_5:177631560-177631635:+|nuORF REV__ENST00000358344.7_1_5:177631560-177631635:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 352.2316589355469 4 351.980347 1403.89228 2.3229 0.00081762 -0.41809 -0.00014716 1.9048 0.00067046 351.98012652685844 45.694 1.0578 46.521 46.006 47.064 0.82621 185 56 5 0 0 0 0.94364 1 20846 20846 0.15932 0 1 14907000 + 28785 15580 18578 18636 32386 32386 0.20649305278834618 RRRRPRRRVP 10 Unmodified _RRRRPRRRVP_ 0 0 0 REV__ENST00000358344.7_1_5:177631560-177631635:+|nuORF REV__ENST00000358344.7_1_5:177631560-177631635:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 468.972900390625 3 468.971371 1403.89228 2.7591 0.0012939 0.2866 0.00013441 3.0457 0.0014283 469.3057760463624 45.465 0.3266 46.291 46.093 46.42 0.82621 25 18 2 0 0 0 0.12676 1 20652 20652 0.13989 0.056541 1 1459000 + 28786 15580 18578 18636 32387 32387 0.20649305278834618 RRRRPRRRVPV 11 Unmodified _RRRRPRRRVPV_ 0 0 0 REV__ENST00000358344.7_1_5:177631560-177631635:+|nuORF REV__ENST00000358344.7_1_5:177631560-177631635:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 752.4869384765625 2 752.487625 1502.9607 NaN NaN NaN NaN NaN NaN NaN 88.821 1 88.873 88.373 89.373 0.052155 0 0 0 1.008 1 45368 45368 0.35063 0.35063 1 + 28787 15580 18579 18637 32388 32388 0.22933549858680635 RRRRPSLLR 9 Unmodified _RRRRPSLLR_ 0 0 0 REV__ENST00000375344.7_1_9:97136898-97137102:+|nuORF REV__ENST00000375344.7_1_9:97136898-97137102:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 303.1991882324219 4 303.199536 1208.76904 1.853 0.00056184 -1.8779 -0.00056937 -0.024822 -7.526E-06 303.19891065857445 42.35 0.16548 42.35 42.306 42.471 0 27 17 3 0 0 0 1.0894 1 19282 19282 2.4985 0 1 4484000 + 28788 15801 18580 18638 32389 32389 0.1730062910773995 RRRRQKYLHRF 11 Unmodified _RRRRQKYLHRF_ 0 0 0 REV__nc|ENSG00000074696|Q9P035-2|HACD3 REV__nc|ENSG00000074696|Q9P035-2|HACD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 808.4322509765625 2 808.479466 1614.94438 NaN NaN NaN NaN NaN NaN NaN 106.21 1 106.21 105.71 106.71 0 0 0 0 1.0082 1 58330 58330 0 0 1 + 28789 10518 18581 18639 32390 32390 0.1615042390196777 RRRRQRAPTL 10 Unmodified _RRRRQRAPTL_ 0 0 0 REV__ENSG00000236609|ENST00000457543|ZNF853 REV__ENSG00000236609|ENST00000457543|ZNF853 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 327.9574279785156 4 328.206356 1308.79632 2.3539 0.00077258 2.9849 0.00097967 5.3389 0.0017522 328.2073314354646 36.156 0.40671 36.782 36.635 37.042 0.62631 18 12 3 0 0 0 0.93584 1 16589 16589 1.7423 0 1 335870 + 28790 14594 18582 18640 32391 32391 0.15427112648103503 RRRRRARERER 11 Unmodified _RRRRRARERER_ 0 0 0 REV__ENSG00000139767|ENST00000267260|SRRM4 REV__ENSG00000139767|ENST00000267260|SRRM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 798.9764404296875 2 798.978153 1595.94175 NaN NaN NaN NaN NaN NaN NaN 101.73 1 102.05 101.55 102.55 0.31737 0 0 0 1.0082 1 47068 47068 0 0 1 + 28791 12220 18583 18641 32392 32392 0.1676196849698499 RRRRRCSRRDR 11 Unmodified _RRRRRCSRRDR_ 0 0 0 ENSG00000156860|ENST00000356166|FBRS ENSG00000156860|ENST00000356166|FBRS ENSG00000156860|ENST00000356166|FBRS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 786.9517211914062 2 786.951081 1571.88761 NaN NaN NaN NaN NaN NaN NaN 53.033 1 53.297 52.797 53.797 0.26345 0 0 0 1.0082 1 24247 24247 0 0 1 28792 3928 18584 18642 32393 32393 0.12454053073793148 RRRRRDWFWRA 11 Unmodified _RRRRRDWFWRA_ 0 0 0 ENST00000361972.8_1_10:7212945-7217999:-|nuORF ENST00000361972.8_1_10:7212945-7217999:-|nuORF ENST00000361972.8_1_10:7212945-7217999:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 830.8818359375 2 830.96144 1659.90833 NaN NaN NaN NaN NaN NaN NaN 106.26 1 106.26 105.76 106.76 0 0 0 0 1.0082 1 58358 58358 0 0 1 28793 7232 18585 18643 32394 32394 0.1047696672510483 RRRRREERSLH 11 Unmodified _RRRRREERSLH_ 0 0 0 REV__ENSG00000171786|ENST00000302101|NHLH1 REV__ENSG00000171786|ENST00000302101|NHLH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.6348266601562 3 517.633084 1549.87742 NaN NaN NaN NaN NaN NaN NaN 74.291 1 74.291 73.791 74.791 0 0 0 0 1.0079 1 36281 36281 0.45452 0.046251 1 + 28794 13515 18586 18644 32395 32395 0.12447768620222632 RRRRREGRWRP 11 Unmodified _RRRRREGRWRP_ 0 0 0 ENST00000083182.7_1_17:58603276-58603570:-|nuORF ENST00000083182.7_1_17:58603276-58603570:-|nuORF ENST00000083182.7_1_17:58603276-58603570:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 790.8016967773438 2 790.964514 1579.91448 NaN NaN NaN NaN NaN NaN NaN 69.755 1 69.755 69.255 70.255 0 0 0 0 1.0082 1 33743 33743 0 0 1 28795 6382 18587 18645 32396 32396 0.1477148495662277 RRRRREKRKRA 11 Unmodified _RRRRREKRKRA_ 0 0 0 nc|ENSG00000132773|Q96GM8-2|TOE1;ENST00000495703.5_1_1:45808500-45809371:+|nuORF;ENSG00000132773|ENST00000372090|TOE1 nc|ENSG00000132773|Q96GM8-2|TOE1 nc|ENSG00000132773|Q96GM8-2|TOE1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 314.4457702636719 5 314.404871 1566.98797 1.969 0.00061906 0.12625 3.9693E-05 2.0952 0.00065875 314.6055179296061 53.655 0.37576 54.319 54.003 54.379 0.6644 33 19 2 0 0 0 0.13295 1 24447 24447 0.073264 0 1 350290 28796 9644 18588 18646 32397 32397 0.2271603339909234 RRRRRELLLP 10 Unmodified _RRRRRELLLP_ 0 0 0 REV__ENST00000527733.5_2_11:11863598-11863643:+|nuORF REV__ENST00000527733.5_2_11:11863598-11863643:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 682.9395751953125 2 682.939111 1363.86367 NaN NaN NaN NaN NaN NaN NaN 28.401 1 28.401 27.901 28.901 0 0 0 0 1.002 1 12804 12804 0 0 1 + 28797 17107 18589 18647 32398 32398 0.1962914285907118 RRRRRERRLF 10 Unmodified _RRRRRERRLF_ 0 0 0 ENST00000254998.2_1_20:23331374-23334728:+|nuORF ENST00000254998.2_1_20:23331374-23334728:+|nuORF ENST00000254998.2_1_20:23331374-23334728:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 750.964599609375 2 750.963983 1499.91341 NaN NaN NaN NaN NaN NaN NaN 31.157 1 31.157 30.657 31.657 0 0 0 0 1.002 1 14091 14091 0 0 1 28798 6516 18590 18648 32399 32399 0.18345270587724372 RRRRRERRRRK 11 Unmodified _RRRRRERRRRK_ 0 0 0 REV__ENST00000444772.3_1_10:21805118-21806168:-|nuORF REV__ENST00000444772.3_1_10:21805118-21806168:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 841.0359497070312 2 841.036336 1680.05812 NaN NaN NaN NaN NaN NaN NaN 100.88 1 100.88 100.38 101.38 0 0 0 0 1.0082 1 55747 55747 0 0 1 + 28799 16373 18591 18649 32400 32400 0.24529331787539377 RRRRRHKRK 9 Unmodified _RRRRRHKRK_ 0 0 0 nc|ENSG00000080493|Q9Y6R1-4|SLC4A4;ENSG00000080493|ENST00000264485|SLC4A4;nc|ENSG00000080493|Q9Y6R1-5|SLC4A4 nc|ENSG00000080493|Q9Y6R1-4|SLC4A4 nc|ENSG00000080493|Q9Y6R1-4|SLC4A4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 674.9401245117188 2 674.940311 1347.86607 NaN NaN NaN NaN NaN NaN NaN 47.952 1 48.215 47.715 48.715 0.26322 0 0 0 0.91452 1 21920 21920 0 0 1 28800 907 18592 18650 32401 32401 0.20605036107372143 RRRRRHKRK 9 Unmodified _RRRRRHKRK_ 0 0 0 nc|ENSG00000080493|Q9Y6R1-4|SLC4A4;ENSG00000080493|ENST00000264485|SLC4A4;nc|ENSG00000080493|Q9Y6R1-5|SLC4A4 nc|ENSG00000080493|Q9Y6R1-4|SLC4A4 nc|ENSG00000080493|Q9Y6R1-4|SLC4A4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.204345703125 4 337.973794 1347.86607 2.5895 0.00087519 -1.8445 -0.00062338 0.74508 0.00025182 337.9729669594757 37.282 0.44144 37.543 37.316 37.758 0.26083 17 13 2 0 0 0 0.11436 1 17076 17076 0.23584 0.076522 1 235730 28801 907 18592 18650 32402 32402 0.20605036107372143 RRRRRHLRLLL 11 Unmodified _RRRRRHLRLLL_ 0 0 0 ENST00000487330.1_1_9:74975472-74979818:-|nuORF;ENST00000376962.9_1_9:74978504-74980043:-|nuORF ENST00000487330.1_1_9:74975472-74979818:-|nuORF ENST00000487330.1_1_9:74975472-74979818:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 773.0151977539062 2 773.013476 1544.0124 NaN NaN NaN NaN NaN NaN NaN 20.505 1 20.505 20.005 21.005 0 0 0 0 1.0082 1 9170 9170 0 0 1 28802 7406 18593 18651 32403 32403 0.2621529355265011 RRRRRHLRLLL 11 Unmodified _RRRRRHLRLLL_ 0 0 0 ENST00000487330.1_1_9:74975472-74979818:-|nuORF;ENST00000376962.9_1_9:74978504-74980043:-|nuORF ENST00000487330.1_1_9:74975472-74979818:-|nuORF ENST00000487330.1_1_9:74975472-74979818:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 773.01513671875 2 773.013476 1544.0124 NaN NaN NaN NaN NaN NaN NaN 105.29 1 105.34 104.84 105.84 0.050888 0 0 0 1.0082 1 56953 56953 0 0 1 28803 7406 18593 18651 32404 32404 0.2621529355265011 RRRRRHWWDWV 11 Unmodified _RRRRRHWWDWV_ 0 0 0 REV__ENST00000583780.1_2_17:18263786-18266854:-|nuORF REV__ENST00000583780.1_2_17:18263786-18266854:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 855.3425903320312 2 854.96144 1707.90833 NaN NaN NaN NaN NaN NaN NaN 80.771 1 80.939 80.439 81.439 0.16862 0 0 0 1.0082 1 39605 39605 0 0 1 + 28804 17524 18594 18652 32405 32405 0.0826896672510884 RRRRRKKIA 9 Unmodified _RRRRRKKIA_ 0 0 0 REV__ENSG00000164626|ENST00000359534|KCNK5 REV__ENSG00000164626|ENST00000359534|KCNK5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.4212036132812 2 620.420888 1238.82722 NaN NaN NaN NaN NaN NaN NaN 49.147 1 49.974 49.474 50.474 0.82705 0 0 0 0.91452 1 22390 22390 0 0 1 + 28805 13102 18595 18653 32406 32406 0.21736310753044563 RRRRRKQRKVK 11 Unmodified _RRRRRKQRKVK_ 0 0 0 TSPYL2|p.D585Gfs*41|1|0.04|ENSG00000184205|chrX:53086145-53086146|-/GTTTC|frameshift_variant;ENSG00000184205|ENST00000375442|TSPYL2 TSPYL2|p.D585Gfs*41|1|0.04|ENSG00000184205|chrX:53086145-53086146|-/GTTTC|frameshift_variant TSPYL2|p.D585Gfs*41|1|0.04|ENSG00000184205|chrX:53086145-53086146|-/GTTTC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.0152587890625 3 523.01698 1566.02911 NaN NaN NaN NaN NaN NaN NaN 96.685 1 96.685 96.185 97.185 0 0 0 0 1.0082 1 52392 52392 0 0 1 28806 5426 18596 18654 32407 32407 0.2687379443852933 RRRRRKRPRQG 11 Unmodified _RRRRRKRPRQG_ 0 0 0 ENST00000605573.1_1_3:187871072-187871573:-|nuORF ENST00000605573.1_1_3:187871072-187871573:-|nuORF ENST00000605573.1_1_3:187871072-187871573:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.9898376464844 3 507.989313 1520.94611 NaN NaN NaN NaN NaN NaN NaN 15.46 1 15.671 15.171 16.171 0.21108 0 0 0 1.0082 1 6818 6818 0 0 1 28807 9313 18597 18655 32408 32408 0.20647477710576823 RRRRRKRRHIT 11 Unmodified _RRRRRKRRHIT_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.827880859375 3 531.008596 1590.00396 NaN NaN NaN NaN NaN NaN NaN 74.658 1 75.345 74.845 75.845 0.68662 0 0 0 1.0082 1 36088 36088 0 0 1 + 28808 17861 18598 18656 32409 32409 0.2325573963601073 RRRRRKRRKRR 11 Unmodified _RRRRRKRRKRR_ 0 0 0 REV__ENST00000488854.6_1_3:113082116-113098301:-|nuORF REV__ENST00000488854.6_1_3:113082116-113098301:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 840.5656127929688 2 840.562521 1679.11049 NaN NaN NaN NaN NaN NaN NaN 94.933 1 94.933 94.433 95.433 0 0 0 0 1.0082 1 51021 51021 0 0 1 + 28809 16782 18599 18657 32410 32410 0.2980991492115663 RRRRRKRRREL 11 Unmodified _RRRRRKRRREL_ 0 0 0 REV__ENST00000549136.1_1_12:95869939-95877074:+|nuORF REV__ENST00000549136.1_1_12:95869939-95877074:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 819.524169921875 2 819.527813 1637.04107 NaN NaN NaN NaN NaN NaN NaN 57.887 1 58.149 57.649 58.649 0.26227 0 0 0 1.0082 1 26503 26503 0 0 1 + 28810 17269 18600 18658 32411 32411 0.2480341118175602 RRRRRKRRREL 11 Unmodified _RRRRRKRRREL_ 0 0 0 REV__ENST00000549136.1_1_12:95869939-95877074:+|nuORF REV__ENST00000549136.1_1_12:95869939-95877074:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 819.5269165039062 2 819.527813 1637.04107 NaN NaN NaN NaN NaN NaN NaN 81.761 1 82.01 81.51 82.51 0.24803 0 0 0 1.0082 1 37634 37634 0 0 1 + 28811 17269 18600 18658 32412 32412 0.2480341118175602 RRRRRKSKCKL 11 Unmodified _RRRRRKSKCKL_ 0 0 0 REV__ADARB2|p.S683Rfs*27|1|0.37|ENSG00000185736|chr10:1183364-1183364|G/-|frameshift_variant REV__ADARB2|p.S683Rfs*27|1|0.37|ENSG00000185736|chr10:1183364-1183364|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 743.9705200195312 2 743.970419 1485.92629 NaN NaN NaN NaN NaN NaN NaN 53.72 1 54.384 53.884 54.884 0.6644 0 0 0 1.0082 1 24568 24568 0 0 1 + 28812 9925 18601 18659 32413 32413 0.2027596565562817 RRRRRKWRERT 11 Unmodified _RRRRRKWRERT_ 0 0 0 REV__ENST00000326402.8_2_11:92930946-92931072:-|nuORF REV__ENST00000326402.8_2_11:92930946-92931072:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 828.5 2 828.498721 1654.98289 NaN NaN NaN NaN NaN NaN NaN 86.731 1 86.981 86.481 87.481 0.24974 0 0 0 1.0082 1 39926 39926 0 0 1 + 28813 15354 18602 18660 32414 32414 0.18159729536478153 RRRRRLLFWDK 11 Unmodified _RRRRRLLFWDK_ 0 0 0 nc|ENSG00000100918|O95072-2|REC8;ENSG00000100918|ENST00000611366|REC8 nc|ENSG00000100918|O95072-2|REC8 nc|ENSG00000100918|O95072-2|REC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 801.4874877929688 2 801.484217 1600.95388 NaN NaN NaN NaN NaN NaN NaN 60.84 1 60.84 60.34 61.34 0 0 0 0 1.008 1 28326 28326 0.26902 0.26902 1 28814 1250 18603 18661 32415 32415 0.17744192187478802 RRRRRLLIHPR 11 Unmodified _RRRRRLLIHPR_ 0 0 0 ENST00000295065.9_1_2:32235333-32235450:-|nuORF ENST00000295065.9_1_2:32235333-32235450:-|nuORF ENST00000295065.9_1_2:32235333-32235450:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 764.9992065429688 2 764.997826 1527.9811 NaN NaN NaN NaN NaN NaN NaN 105.62 1 105.62 105.12 106.12 0 0 0 0 1.0082 1 58036 58036 0 0 1 28815 6754 18604 18662 32416 32416 0.23822720518546703 RRRRRLRRRPR 11 Unmodified _RRRRRLRRRPR_ 0 0 0 ENSG00000183579|ENST00000544604|ZNRF3 ENSG00000183579|ENST00000544604|ZNRF3 ENSG00000183579|ENST00000544604|ZNRF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 817.5328979492188 2 817.535972 1633.05739 NaN NaN NaN NaN NaN NaN NaN 90.371 1 90.371 89.871 90.871 0 0 0 0 1.0082 1 47474 47474 0 0 1 28816 5389 18605 18663 32417 32417 0.26618537138506326 RRRRRMKRPFR 11 Unmodified _RRRRRMKRPFR_ 0 0 0 ENSG00000183770|ENST00000648323|FOXL2 ENSG00000183770|ENST00000648323|FOXL2 ENSG00000183770|ENST00000648323|FOXL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 807.9971313476562 2 807.99476 1613.97497 NaN NaN NaN NaN NaN NaN NaN 54.553 1 55.219 54.719 55.719 0.6665 0 0 0 1.0082 1 24959 24959 0 0 1 28817 5405 18606 18664 32418 32418 0.1925387901535487 RRRRRMRRRGW 11 Unmodified _RRRRRMRRRGW_ 0 0 0 L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 821.490478515625 2 821.487634 1640.96071 NaN NaN NaN NaN NaN NaN NaN 100.01 1 100.01 99.508 100.51 0 0 0 0 1.0071 1 55117 55117 1.4819 1.1313 1 28818 9436 18607 18665 32419 32419 0.16587226587057557 RRRRRPHLPRG 11 Unmodified _RRRRRPHLPRG_ 0 0 0 ENST00000397558.6_2_12:120427683-120428022:+|nuORF ENST00000397558.6_2_12:120427683-120428022:+|nuORF ENST00000397558.6_2_12:120427683-120428022:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 728.9530639648438 2 728.950876 1455.8872 NaN NaN NaN NaN NaN NaN NaN 79.401 1 80.062 79.562 80.562 0.66082 0 0 0 1.0082 1 36586 36586 0.30703 0 1 28819 7582 18608 18666 32420 32420 0.17749001416245846 RRRRRPLLLFY 11 Unmodified _RRRRRPLLLFY_ 0 0 0 REV__ENST00000340384.4_1_9:140135667-140136192:+|nuORF REV__ENST00000340384.4_1_9:140135667-140136192:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.0263671875 3 515.991549 1544.95282 NaN NaN NaN NaN NaN NaN NaN 66.413 1 66.413 65.913 66.913 0 0 0 0 1.0082 1 31741 31741 0.094841 0 1 + 28820 15455 18609 18667 32421 32421 0.20213977818616513 RRRRRPLLLFY 11 Unmodified _RRRRRPLLLFY_ 0 0 0 REV__ENST00000340384.4_1_9:140135667-140136192:+|nuORF REV__ENST00000340384.4_1_9:140135667-140136192:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.4719848632812 3 515.991549 1544.95282 NaN NaN NaN NaN NaN NaN NaN 63.294 1 64.016 63.516 64.516 0.72236 0 0 0 1.0082 1 29636 29636 0.094841 0 1 + 28821 15455 18609 18667 32422 32422 0.20213977818616513 RRRRRPWARRW 11 Unmodified _RRRRRPWARRW_ 0 0 0 REV__ENSG00000117791|ENST00000366913|MTARC2 REV__ENSG00000117791|ENST00000366913|MTARC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 826.4917602539062 2 826.490699 1650.96685 NaN NaN NaN NaN NaN NaN NaN 87.983 1 88.023 87.523 88.523 0.039955 0 0 0 1.0082 1 44700 44700 0 0 1 + 28822 11454 18610 18668 32423 32423 0.16740068090234672 RRRRRQRQRKM 11 Unmodified _RRRRRQRQRKM_ 0 0 0 ENST00000558733.5_1_15:58947546-59041769:-|nuORF;ENST00000560608.5_1_15:58971480-59041769:-|nuORF;ENST00000561149.1_1_15:58974496-59041769:-|nuORF ENST00000558733.5_1_15:58947546-59041769:-|nuORF ENST00000558733.5_1_15:58947546-59041769:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 813.9949340820312 2 813.992749 1625.97094 NaN NaN NaN NaN NaN NaN NaN 97.45 1 97.52 97.02 98.02 0.070648 0 0 0 1.0082 1 52106 52106 0 0 1 28823 8957 18611 18669 32424 32424 0.1829978952162037 RRRRRQRRRRP 11 Unmodified _RRRRRQRRRRP_ 0 0 0 ENST00000444772.3_1_10:21805118-21806168:-|nuORF ENST00000444772.3_1_10:21805118-21806168:-|nuORF ENST00000444772.3_1_10:21805118-21806168:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 825.0260620117188 2 825.023229 1648.03191 NaN NaN NaN NaN NaN NaN NaN 63.668 1 64.326 63.826 64.826 0.65809 0 0 0 1.0082 1 29178 29178 0 0 1 28824 7962 18612 18670 32425 32425 0.23381062616067538 RRRRRQRRRRQ 11 Unmodified _RRRRRQRRRRQ_ 0 0 0 REV__ENST00000394967.2_1_2:175202164-175202371:+|nuORF REV__ENST00000394967.2_1_2:175202164-175202371:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 840.4315185546875 2 840.526136 1679.03772 NaN NaN NaN NaN NaN NaN NaN 87.384 1 87.384 86.884 87.884 0 0 0 0 1.0082 1 45050 45050 0 0 1 + 28825 15977 18613 18671 32426 32426 0.22536161127732157 RRRRRQRRRRQ 11 Unmodified _RRRRRQRRRRQ_ 0 0 0 REV__ENST00000394967.2_1_2:175202164-175202371:+|nuORF REV__ENST00000394967.2_1_2:175202164-175202371:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 840.5223999023438 2 840.526136 1679.03772 NaN NaN NaN NaN NaN NaN NaN 75.776 1 76.44 75.94 76.94 0.66387 0 0 0 1.0082 1 34916 34916 0 0 1 + 28826 15977 18613 18671 32427 32427 0.22536161127732157 RRRRRREKRK 10 Unmodified _RRRRRREKRK_ 0 0 0 nc|ENSG00000132773|Q96GM8-2|TOE1;ENST00000495703.5_1_1:45808500-45809371:+|nuORF;ENSG00000132773|ENST00000372090|TOE1 nc|ENSG00000132773|Q96GM8-2|TOE1 nc|ENSG00000132773|Q96GM8-2|TOE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.6571350097656 3 499.657563 1495.95086 NaN NaN NaN NaN NaN NaN NaN 29.844 1 29.844 29.344 30.344 0 0 0 0 1.002 1 13476 13476 0 0 1 28827 9644 18614 18672 32428 32428 0.2227236185331094 RRRRRRERRLF 11 Unmodified _RRRRRRERRLF_ 0 0 0 ENST00000254998.2_1_20:23331374-23334728:+|nuORF ENST00000254998.2_1_20:23331374-23334728:+|nuORF ENST00000254998.2_1_20:23331374-23334728:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 829.0146484375 2 829.014538 1656.01452 NaN NaN NaN NaN NaN NaN NaN 76.195 1 76.195 75.695 76.695 0 0 0 0 1.0082 1 37340 37340 0 0 1 28828 6516 18615 18673 32429 32429 0.21275722290420163 RRRRRRGP 8 Unmodified _RRRRRRGP_ 0 0 0 ENSG00000248767|ENST00000506382|FOXL3 REV__ENST00000496231.1_1_1:249152613-249153213:-|nuORF REV__ENST00000496231.1_1_1:249152613-249153213:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.3554077148438 2 555.353006 1108.69146 4.3893 0.0024376 0.10474 5.8167E-05 4.494 0.0024958 555.352951329146 109.11 1.344 109.42 108.69 110.04 0.31168 84 57 2 0 0 0 0.7471 3 50175 50175;50297;50361 0 0 1 148490 28829 6258 18616 18674 32430;32431;32432 32430 0.14146035962221504 RRRRRRHRRCR 11 Unmodified _RRRRRRHRRCR_ 0 0 0 ENSG00000184560|ENST00000333870|SPEM2 ENSG00000184560|ENST00000333870|SPEM2 ENSG00000184560|ENST00000333870|SPEM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 832.5068359375 2 832.501607 1662.98866 NaN NaN NaN NaN NaN NaN NaN 104.22 1 104.28 103.78 104.78 0.052994 0 0 0 1.0082 1 56444 56444 0 0 1 28830 5448 18617 18675 32433 32433 0.1836854956713978 RRRRRRHRRCR 11 Unmodified _RRRRRRHRRCR_ 0 0 0 ENSG00000184560|ENST00000333870|SPEM2 ENSG00000184560|ENST00000333870|SPEM2 ENSG00000184560|ENST00000333870|SPEM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 832.5089111328125 2 832.501607 1662.98866 NaN NaN NaN NaN NaN NaN NaN 104.14 1 104.45 103.95 104.95 0.31863 0 0 0 1.0082 1 48117 48117 0 0 1 28831 5448 18617 18675 32434 32434 0.1836854956713978 RRRRRRHRRRE 11 Unmodified _RRRRRRHRRRE_ 0 0 0 REV__ENST00000419807.5_3_2:44395715-44396385:+|nuORF REV__ENST00000419807.5_3_2:44395715-44396385:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.0164794921875 3 564.014633 1689.02207 NaN NaN NaN NaN NaN NaN NaN 81.774 1 81.774 81.274 82.274 0 0 0 0 1.008 1 40771 40771 0.073264 0.073264 1 + 28832 16162 18618 18676 32435 32435 0.20511874610679115 RRRRRRHRRRE 11 Unmodified _RRRRRRHRRRE_ 0 0 0 REV__ENST00000419807.5_3_2:44395715-44396385:+|nuORF REV__ENST00000419807.5_3_2:44395715-44396385:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 845.5167846679688 2 845.518311 1689.02207 NaN NaN NaN NaN NaN NaN NaN 103.31 1 103.36 102.86 103.86 0.055092 0 0 0 1.0082 1 56020 56020 0 0 1 + 28833 16162 18618 18676 32436 32436 0.20511874610679115 RRRRRRIKKH 10 Unmodified _RRRRRRIKKH_ 0 0 0 REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 731.4835815429688 2 731.482343 1460.95013 NaN NaN NaN NaN NaN NaN NaN 104.71 1 104.71 104.21 105.21 0 0 0 0 1.002 1 57594 57594 0 0 1 + 28834 17761 18619 18677 32437 32437 0.23809567204284576 RRRRRRIKKHL 11 Unmodified _RRRRRRIKKHL_ 0 0 0 REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 787.8346557617188 2 788.024375 1574.0342 NaN NaN NaN NaN NaN NaN NaN 83.934 1 83.963 83.463 84.463 0.028603 0 0 0 1.0082 1 41763 41763 0 0 1 + 28835 17761 18620 18678 32438 32438 0.2701409830117427 RRRRRRKIEIE 11 Unmodified _RRRRRRKIEIE_ 0 0 0 ENSG00000171316|ENST00000423902|CHD7 ENSG00000171316|ENST00000423902|CHD7 ENSG00000171316|ENST00000423902|CHD7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 784.4905395507812 2 784.49003 1566.96551 NaN NaN NaN NaN NaN NaN NaN 92.473 1 93.12 92.62 93.62 0.64714 0 0 0 1.0082 1 42545 42545 0 0 1 28836 4798 18621 18679 32439 32439 0.20470389210845497 RRRRRRKRGPF 11 Unmodified _RRRRRRKRGPF_ 0 0 0 REV__nc|ENSG00000135272|Q9P1T7-1|MDFIC REV__nc|ENSG00000135272|Q9P1T7-1|MDFIC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 770.986328125 2 770.98525 1539.95595 NaN NaN NaN NaN NaN NaN NaN 87.155 1 87.195 86.695 87.695 0.039955 0 0 0 1.0082 1 44045 44045 0 0 1 + 28837 17948 18622 18680 32440 32440 0.20756665715953204 RRRRRRKRMRW 11 Unmodified _RRRRRRKRMRW_ 0 0 0 REV__ENST00000487093.5_1_3:51575631-51661706:+|nuORF REV__ENST00000487093.5_1_3:51575631-51661706:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 572.1848754882812 3 571.685348 1712.03421 3.0674 0.0017536 2.4129 0.0013794 5.4803 0.003133 571.6861018368049 9.5907 0.022993 9.8863 9.877 9.9 0.2956 6 4 2 0 0 0 0.13295 1 4278 4278 0 0 1 138100 + 28838 16762 18623 18681 32441 32441 0.20667775029528457 RRRRRRKRMRW 11 Unmodified _RRRRRRKRMRW_ 0 0 0 REV__ENST00000487093.5_1_3:51575631-51661706:+|nuORF REV__ENST00000487093.5_1_3:51575631-51661706:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 857.0274047851562 2 857.024383 1712.03421 NaN NaN NaN NaN NaN NaN NaN 80.761 1 81.421 80.921 81.921 0.65998 0 0 0 1.0082 1 37213 37213 0 0 1 + 28839 16762 18623 18681 32442 32442 0.20667775029528457 RRRRRRKRMRW 11 Unmodified _RRRRRRKRMRW_ 0 0 0 REV__ENST00000487093.5_1_3:51575631-51661706:+|nuORF REV__ENST00000487093.5_1_3:51575631-51661706:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 571.685348 1712.03421 3.6735 0.0021001 -3.8996 -0.0022294 -0.22609 -0.00012925 571.6835422980021 10.006 0.020418 10.006 9.9905 10.011 0 0.06004 -0.0035218 NaN 0 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 83902 + 28840 16762 18623 18681 0.20667775029528457 RRRRRRKRRHI 11 Unmodified _RRRRRRKRRHI_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 823.5396728515625 2 823.535972 1645.05739 NaN NaN NaN NaN NaN NaN NaN 83.301 1 83.301 82.801 83.801 0 0 0 0 1.0082 1 41930 41930 0 0 1 + 28841 17861 18624 18682 32443 32443 0.26066537138513013 RRRRRRKRRHI 11 Unmodified _RRRRRRKRRHI_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 823.5394287109375 2 823.535972 1645.05739 NaN NaN NaN NaN NaN NaN NaN 59.85 1 60.109 59.609 60.609 0.2593 0 0 0 1.0082 1 27408 27408 0 0 1 + 28842 17861 18624 18682 32444 32444 0.26066537138513013 RRRRRRLFF 9 Unmodified _RRRRRRLFF_ 0 0 0 ENST00000550735.6_1_12:112280040-112280175:+|nuORF ENST00000550735.6_1_12:112280040-112280175:+|nuORF ENST00000550735.6_1_12:112280040-112280175:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 681.9293212890625 2 681.926338 1361.83812 NaN NaN NaN NaN NaN NaN NaN 55.381 1 56.168 55.668 56.668 0.78711 0 0 0 0.91206 1 25282 25282 0.6015 0 1 28843 8873 18625 18683 32445 32445 0.17167713127287243 RRRRRRLLFWD 11 Unmodified _RRRRRRLLFWD_ 0 0 0 nc|ENSG00000100918|O95072-2|REC8;ENSG00000100918|ENST00000611366|REC8 nc|ENSG00000100918|O95072-2|REC8 nc|ENSG00000100918|O95072-2|REC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 815.6455688476562 2 815.487291 1628.96003 NaN NaN NaN NaN NaN NaN NaN 100.68 1 100.68 100.18 101.18 0 0 0 0 1.0082 1 55599 55599 0 0 1 28844 1250 18626 18684 32446 32446 0.17070710419011448 RRRRRRLLLLL 11 Unmodified _RRRRRRLLLLL_ 0 0 0 ENST00000492275.5_1_21:38445580-38480706:+|nuORF;ENST00000355666.5_1_21:38445580-38459609:+|nuORF ENST00000492275.5_1_21:38445580-38480706:+|nuORF ENST00000492275.5_1_21:38445580-38480706:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 761.029541015625 2 761.026052 1520.03755 NaN NaN NaN NaN NaN NaN NaN 99.495 1 99.557 99.057 100.06 0.062241 0 0 0 1.0082 1 53803 53803 0 0 1 28845 7152 18627 18685 32447 32447 0.29833348355214184 RRRRRRLVVP 10 Unmodified _RRRRRRLVVP_ 0 0 0 REV__ENST00000373930.3_1_9:123476433-123476640:-|nuORF REV__ENST00000373930.3_1_9:123476433-123476640:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 682.806396484375 2 682.45272 1362.89089 NaN NaN NaN NaN NaN NaN NaN 94.97 1 95.052 94.552 95.552 0.082001 0 0 0 1.0015 1 50094 50094 0.45834 0 1 + 28846 15778 18628 18686 32448 32448 0.2239567119008825 RRRRRRPLWRV 11 Unmodified _RRRRRRPLWRV_ 0 0 0 ENSG00000171873|ENST00000379453|ADRA1D ENSG00000171873|ENST00000379453|ADRA1D ENSG00000171873|ENST00000379453|ADRA1D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 804.0090942382812 2 804.008725 1606.0029 NaN NaN NaN NaN NaN NaN NaN 101.8 1 101.86 101.36 102.36 0.057198 0 0 0 1.0082 1 55280 55280 0 0 1 28847 4841 18629 18687 32449 32449 0.22413525267074874 RRRRRRPRRRG 11 Unmodified _RRRRRRPRRRG_ 0 0 0 REV__ENST00000378308.6_2_X:40944993-40945185:+|nuORF REV__ENST00000378308.6_2_X:40944993-40945185:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 789.5028076171875 2 789.504672 1576.99479 NaN NaN NaN NaN NaN NaN NaN 65.957 1 66.613 66.113 67.113 0.65672 0 0 0 1.0082 1 30240 30240 0 0 1 + 28848 15851 18630 18688 32450 32450 0.22937391070308877 RRRRRRPRRRR 11 Unmodified _RRRRRRPRRRR_ 0 0 0 ENST00000453677.1_1_7:104654330-104654752:-|nuORF ENST00000453677.1_1_7:104654330-104654752:-|nuORF;REV__ENST00000453677.1_1_7:104654330-104654752:-|nuORF ENST00000453677.1_1_7:104654330-104654752:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 839.1382446289062 2 839.044496 1676.07444 NaN NaN NaN NaN NaN NaN NaN 84.675 1 84.703 84.203 85.203 0.028603 0 0 0 1.0082 1 42292 42292 0 0 1 28849 8035;16429 18631 18689 32451 32451 0.26344457744289684 RRRRRRPRRRR 11 Unmodified _RRRRRRPRRRR_ 0 0 0 ENST00000453677.1_1_7:104654330-104654752:-|nuORF ENST00000453677.1_1_7:104654330-104654752:-|nuORF;REV__ENST00000453677.1_1_7:104654330-104654752:-|nuORF ENST00000453677.1_1_7:104654330-104654752:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 839.0414428710938 2 839.044496 1676.07444 NaN NaN NaN NaN NaN NaN NaN 97.535 1 97.825 97.325 98.325 0.28923 0 0 0 1.0082 1 44810 44810 0 0 1 28850 8035;16429 18631 18689 32452 32452 0.26344457744289684 RRRRRRPYPRP 11 Unmodified _RRRRRRPYPRP_ 0 0 0 REV__ENST00000533683.6_2_19:14201006-14201489:-|nuORF REV__ENST00000533683.6_2_19:14201006-14201489:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 783.477783203125 2 783.477257 1564.93996 NaN NaN NaN NaN NaN NaN NaN 87.887 1 87.887 87.387 88.387 0 0 0 0 1.0082 1 45459 45459 0 0 1 + 28851 17163 18632 18690 32453 32453 0.1800895947906156 RRRRRRQARPW 11 Unmodified _RRRRRRQARPW_ 0 0 0 REV__ENST00000524945.5_1_8:70745220-70745430:-|nuORF REV__ENST00000524945.5_1_8:70745220-70745430:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.9912719726562 3 531.989313 1592.94611 NaN NaN NaN NaN NaN NaN NaN 87.952 1 87.952 87.452 88.452 0 0 0 0 1.0082 1 45504 45504 0.094841 0 1 + 28852 17081 18633 18691 32454 32454 0.17335477710571467 RRRRRRQARPW 11 Unmodified _RRRRRRQARPW_ 0 0 0 REV__ENST00000524945.5_1_8:70745220-70745430:-|nuORF REV__ENST00000524945.5_1_8:70745220-70745430:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 532.453125 3 531.989313 1592.94611 NaN NaN NaN NaN NaN NaN NaN 88.969 1 89.021 88.521 89.521 0.052155 0 0 0 1.0082 1 45479 45479 0 0 1 + 28853 17081 18633 18691 32455 32455 0.17335477710571467 RRRRRRQQRRC 11 Unmodified _RRRRRRQQRRC_ 0 0 0 ENST00000397992.5_1_16:72984846-73092758:-|nuORF ENST00000397992.5_1_16:72984846-73092758:-|nuORF ENST00000397992.5_1_16:72984846-73092758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 813.9843139648438 2 813.980173 1625.94579 NaN NaN NaN NaN NaN NaN NaN 87.531 1 87.531 87.031 88.031 0 0 0 0 1.0082 1 45167 45167 0 0 1 28854 7587 18634 18692 32456 32456 0.15785734719065658 RRRRRRQQRRC 11 Unmodified _RRRRRRQQRRC_ 0 0 0 ENST00000397992.5_1_16:72984846-73092758:-|nuORF ENST00000397992.5_1_16:72984846-73092758:-|nuORF ENST00000397992.5_1_16:72984846-73092758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 813.98876953125 2 813.980173 1625.94579 NaN NaN NaN NaN NaN NaN NaN 87.616 1 87.616 87.116 88.116 0 0 0 0 1.0082 1 45230 45230 0 0 1 28855 7587 18634 18692 32457 32457 0.15785734719065658 RRRRRRQQRRC 11 Unmodified _RRRRRRQQRRC_ 0 0 0 ENST00000397992.5_1_16:72984846-73092758:-|nuORF ENST00000397992.5_1_16:72984846-73092758:-|nuORF ENST00000397992.5_1_16:72984846-73092758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 813.927490234375 2 813.980173 1625.94579 NaN NaN NaN NaN NaN NaN NaN 89.779 1 89.779 89.279 90.279 0 0 0 0 1.0082 1 46993 46993 0 0 1 28856 7587 18634 18692 32458 32458 0.15785734719065658 RRRRRRQQRRC 11 Unmodified _RRRRRRQQRRC_ 0 0 0 ENST00000397992.5_1_16:72984846-73092758:-|nuORF ENST00000397992.5_1_16:72984846-73092758:-|nuORF ENST00000397992.5_1_16:72984846-73092758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 814.453369140625 2 813.980173 1625.94579 NaN NaN NaN NaN NaN NaN NaN 90.505 1 90.58 90.08 91.08 0.075279 0 0 0 1.0082 1 46658 46658 0 0 1 28857 7587 18634 18692 32459 32459 0.15785734719065658 RRRRRRQQRRC 11 Unmodified _RRRRRRQQRRC_ 0 0 0 ENST00000397992.5_1_16:72984846-73092758:-|nuORF ENST00000397992.5_1_16:72984846-73092758:-|nuORF ENST00000397992.5_1_16:72984846-73092758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 813.9847412109375 2 813.980173 1625.94579 NaN NaN NaN NaN NaN NaN NaN 92.512 1 92.594 92.094 93.094 0.082848 0 0 0 1.0082 1 48239 48239 0 0 1 28858 7587 18634 18692 32460 32460 0.15785734719065658 RRRRRRQQRRC 11 Unmodified _RRRRRRQQRRC_ 0 0 0 ENST00000397992.5_1_16:72984846-73092758:-|nuORF ENST00000397992.5_1_16:72984846-73092758:-|nuORF ENST00000397992.5_1_16:72984846-73092758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 814.1063842773438 2 813.980173 1625.94579 NaN NaN NaN NaN NaN NaN NaN 93.092 1 93.347 92.847 93.847 0.25497 0 0 0 1.0082 1 42789 42789 0 0 1 28859 7587 18634 18692 32461 32461 0.15785734719065658 RRRRRRQRRRR 11 Unmodified _RRRRRRQRRRR_ 0 0 0 ENST00000444772.3_1_10:21805118-21806168:-|nuORF REV__ENST00000394967.2_1_2:175202164-175202371:+|nuORF;ENST00000444772.3_1_10:21805118-21806168:-|nuORF REV__ENST00000394967.2_1_2:175202164-175202371:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.0325317382812 3 570.034027 1707.08025 NaN NaN NaN NaN NaN NaN NaN 17.158 1 17.158 16.658 17.658 0 0 0 0 1.0082 1 7618 7618 0 0 1 28860 15977;7962 18635 18693 32462 32462 0.25499556255954303 RRRRRRRAQVR 11 Unmodified _RRRRRRRAQVR_ 0 0 0 ENST00000477216.1_1_3:170075473-170077492:+|nuORF ENST00000477216.1_1_3:170075473-170077492:+|nuORF ENST00000477216.1_1_3:170075473-170077492:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 783.9459228515625 2 783.499056 1564.98356 NaN NaN NaN NaN NaN NaN NaN 94.205 1 94.291 93.791 94.791 0.086212 0 0 0 1.0082 1 49500 49500 0 0 1 28861 8244 18636 18694 32463 32463 0.22366568976190138 RRRRRRRDLLL 11 Unmodified _RRRRRRRDLLL_ 0 0 0 ENSG00000185052|ENST00000328041|SLC24A3 ENSG00000185052|ENST00000328041|SLC24A3 ENSG00000185052|ENST00000328041|SLC24A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 314.218017578125 5 314.006772 1564.99748 2.0924 0.00065703 2.7258 0.00085591 4.8182 0.0015129 314.20754057377695 37.561 0.10325 37.561 37.482 37.585 0 5 3 2 0 0 0 0.91489 1 17056 17056 0 0 1 119450 28862 5486 18637 18695 32464 32464 0.23757801684655533 RRRRRRRGQRQ 11 Unmodified _RRRRRRRGQRQ_ 0 0 0 ENST00000480045.5_1_1:53793643-53793739:-|nuORF ENST00000480045.5_1_1:53793643-53793739:-|nuORF ENST00000480045.5_1_1:53793643-53793739:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.6235961914062 3 527.659967 1579.95807 4.1055 0.0021663 0.62187 0.00032814 4.7274 0.0024945 527.6602446694072 106.21 0.14741 106.53 106.43 106.58 0.31628 15 4 5 0 0 0 0.91489 1 48994 48994 0 0 1 2870200 28863 8273 18638 18696 32465 32465 0.19129094453774087 RRRRRRRGQRQ 11 Unmodified _RRRRRRRGQRQ_ 0 0 0 ENST00000480045.5_1_1:53793643-53793739:-|nuORF ENST00000480045.5_1_1:53793643-53793739:-|nuORF ENST00000480045.5_1_1:53793643-53793739:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.9573364257812 3 527.659967 1579.95807 3.4947 0.001844 1.3402 0.00070715 4.8349 0.0025512 527.6605251627515 106.19 0.18555 106.79 106.68 106.87 0.59969 13 5 4 0 0 0 0.91489 2 49001 49001;49029 0 0 1 2957400 28864 8273 18638 18696 32466;32467 32466 0.19129094453774087 RRRRRRRHYHH 11 Unmodified _RRRRRRRHYHH_ 0 0 0 ENST00000337565.9_1_2:111878510-111881339:+|nuORF ENST00000337565.9_1_2:111878510-111881339:+|nuORF ENST00000337565.9_1_2:111878510-111881339:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 843.488037109375 2 843.486479 1684.95841 NaN NaN NaN NaN NaN NaN NaN 89.259 1 89.324 88.824 89.824 0.064346 0 0 0 1.0082 1 45702 45702 0 0 1 28865 7042 18639 18697 32468 32468 0.1433251417363408 RRRRRRRIKKH 11 Unmodified _RRRRRRRIKKH_ 0 0 0 REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 809.4357299804688 2 809.532898 1617.05124 NaN NaN NaN NaN NaN NaN NaN 104.88 1 104.88 104.38 105.38 0 0 0 0 1.0082 1 57671 57671 0 0 1 + 28866 17761 18640 18698 32469 32469 0.26740018907003105 RRRRRRRKRMR 11 Unmodified _RRRRRRRKRMR_ 0 0 0 REV__ENST00000487093.5_1_3:51575631-51661706:+|nuORF REV__ENST00000487093.5_1_3:51575631-51661706:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 842.038818359375 2 842.035282 1682.05601 NaN NaN NaN NaN NaN NaN NaN 94.632 1 94.632 94.132 95.132 0 0 0 0 1.0082 1 50809 50809 0 0 1 + 28867 16762 18641 18699 32470 32470 0.24226579778087398 RRRRRRRKRMR 11 Unmodified _RRRRRRRKRMR_ 0 0 0 REV__ENST00000487093.5_1_3:51575631-51661706:+|nuORF REV__ENST00000487093.5_1_3:51575631-51661706:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 842.032958984375 2 842.035282 1682.05601 NaN NaN NaN NaN NaN NaN NaN 66.24 1 66.488 65.988 66.988 0.24848 0 0 0 1.0082 1 30347 30347 0 0 1 + 28868 16762 18641 18699 32471 32471 0.24226579778087398 RRRRRRRKRRH 11 Unmodified _RRRRRRRKRRH_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 845.046142578125 2 845.044496 1688.07444 NaN NaN NaN NaN NaN NaN NaN 99.658 1 99.658 99.158 100.16 0 0 0 0 1.0082 1 54851 54851 0 0 1 + 28869 17861 18642 18700 32472 32472 0.2579245774431911 RRRRRRRKRRH 11 Unmodified _RRRRRRRKRRH_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 845.0471801757812 2 845.044496 1688.07444 NaN NaN NaN NaN NaN NaN NaN 101.53 1 101.53 101.03 102.03 0 0 0 0 1.0082 1 56088 56088 0 0 1 + 28870 17861 18642 18700 32473 32473 0.2579245774431911 RRRRRRRKRRH 11 Unmodified _RRRRRRRKRRH_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 845.0480346679688 2 845.044496 1688.07444 NaN NaN NaN NaN NaN NaN NaN 63.194 1 63.916 63.416 64.416 0.72236 0 0 0 1.0082 1 29577 29577 0 0 1 + 28871 17861 18642 18700 32474 32474 0.2579245774431911 RRRRRRRKRRH 11 Unmodified _RRRRRRRKRRH_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 845.0475463867188 2 845.044496 1688.07444 NaN NaN NaN NaN NaN NaN NaN 65.435 1 65.683 65.183 66.183 0.24803 0 0 0 1.0082 1 29977 29977 0 0 1 + 28872 17861 18642 18700 32475 32475 0.2579245774431911 RRRRRRRKRRH 11 Unmodified _RRRRRRRKRRH_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 845.0482788085938 2 845.044496 1688.07444 NaN NaN NaN NaN NaN NaN NaN 69.745 1 70 69.5 70.5 0.25443 0 0 0 1.0082 1 31938 31938 0 0 1 + 28873 17861 18642 18700 32476 32476 0.2579245774431911 RRRRRRRLLEP 11 Unmodified _RRRRRRRLLEP_ 0 0 0 ENST00000545495.5_1_1:161094264-161102471:-|nuORF ENST00000545495.5_1_1:161094264-161102471:-|nuORF ENST00000545495.5_1_1:161094264-161102471:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 782.4990844726562 2 782.49819 1562.98183 NaN NaN NaN NaN NaN NaN NaN 72.27 1 72.27 71.77 72.77 0 0 0 0 1.0082 1 35150 35150 0 0 1 28874 8842 18643 18701 32477 32477 0.22285515167595804 RRRRRRRLLFW 11 Unmodified _RRRRRRRLLFW_ 0 0 0 nc|ENSG00000100918|O95072-2|REC8;ENSG00000100918|ENST00000611366|REC8 nc|ENSG00000100918|O95072-2|REC8 nc|ENSG00000100918|O95072-2|REC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 836.0272827148438 2 836.024375 1670.0342 NaN NaN NaN NaN NaN NaN NaN 74.306 1 74.992 74.492 75.492 0.68662 0 0 0 1.0082 1 35912 35912 0 0 1 28875 1250 18644 18702 32478 32478 0.22598098301205027 RRRRRRRLSRL 11 Unmodified _RRRRRRRLSRL_ 0 0 0 ENST00000373930.3_1_9:123476433-123476640:-|nuORF ENST00000373930.3_1_9:123476433-123476640:-|nuORF ENST00000373930.3_1_9:123476433-123476640:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 791.1761474609375 2 791.017081 1580.01961 NaN NaN NaN NaN NaN NaN NaN 16.842 1 16.842 16.342 17.342 0 0 0 0 1.0082 1 7470 7470 0 0 1 28876 7371 18645 18703 32479 32479 0.2528002615306377 RRRRRRRMRRR 11 Unmodified _RRRRRRRMRRR_ 0 0 0 L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense;nc|ENSG00000182872|P0DW28|RBM10 L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense;nc|ENSG00000182872|P0DW28|RBM10 L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 856.039306640625 2 856.038356 1710.06216 NaN NaN NaN NaN NaN NaN NaN 66.156 1 66.156 65.656 66.656 0 0 0 0 1.0082 1 31590 31590 0 0 1 28877 9436;9775 18646 18704 32480 32480 0.23553098009620044 RRRRRRRMRRR 11 Unmodified _RRRRRRRMRRR_ 0 0 0 L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense;nc|ENSG00000182872|P0DW28|RBM10 L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense;nc|ENSG00000182872|P0DW28|RBM10 L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 856.0401000976562 2 856.038356 1710.06216 NaN NaN NaN NaN NaN NaN NaN 71.481 1 71.481 70.981 71.981 0 0 0 0 1.0082 1 34747 34747 0 0 1 28878 9436;9775 18646 18704 32481 32481 0.23553098009620044 RRRRRRRPLWR 11 Unmodified _RRRRRRRPLWR_ 0 0 0 ENSG00000171873|ENST00000379453|ADRA1D ENSG00000171873|ENST00000379453|ADRA1D ENSG00000171873|ENST00000379453|ADRA1D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 832.528076171875 2 832.525073 1663.03559 NaN NaN NaN NaN NaN NaN NaN 90.131 1 90.195 89.695 90.695 0.064346 0 0 0 1.0082 1 46365 46365 0 0 1 28879 4841 18647 18705 32482 32482 0.23059732389947385 RRRRRRRPPRE 11 Unmodified _RRRRRRRPPRE_ 0 0 0 ENST00000394967.2_1_2:175202164-175202371:+|nuORF ENST00000394967.2_1_2:175202164-175202371:+|nuORF ENST00000394967.2_1_2:175202164-175202371:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 795.9920654296875 2 795.991063 1589.96757 NaN NaN NaN NaN NaN NaN NaN 73.524 1 73.782 73.282 74.282 0.25876 0 0 0 1.008 1 33773 33773 0.26902 0.26902 1 28880 7548 18648 18706 32483 32483 0.19618862739298493 RRRRRRRPRKL 11 Unmodified _RRRRRRRPRKL_ 0 0 0 REV__ENST00000367590.8_1_1:180601192-180601402:+|nuORF REV__ENST00000367590.8_1_1:180601192-180601402:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 803.3157348632812 2 803.532898 1605.05124 NaN NaN NaN NaN NaN NaN NaN 83.872 1 83.872 83.372 84.372 0 0 0 0 1.0082 1 42334 42334 0 0 1 + 28881 15664 18649 18707 32484 32484 0.2729201890699642 RRRRRRRPRKL 11 Unmodified _RRRRRRRPRKL_ 0 0 0 REV__ENST00000367590.8_1_1:180601192-180601402:+|nuORF REV__ENST00000367590.8_1_1:180601192-180601402:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 803.5905151367188 2 803.532898 1605.05124 NaN NaN NaN NaN NaN NaN NaN 98.54 1 98.54 98.04 99.04 0 0 0 0 1.0082 1 53964 53964 0 0 1 + 28882 15664 18649 18707 32485 32485 0.2729201890699642 RRRRRRRPRKL 11 Unmodified _RRRRRRRPRKL_ 0 0 0 REV__ENST00000367590.8_1_1:180601192-180601402:+|nuORF REV__ENST00000367590.8_1_1:180601192-180601402:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 803.5376586914062 2 803.532898 1605.05124 NaN NaN NaN NaN NaN NaN NaN 99.898 1 99.898 99.398 100.4 0 0 0 0 1.0082 1 55039 55039 0 0 1 + 28883 15664 18649 18707 32486 32486 0.2729201890699642 RRRRRRRPRPR 11 Unmodified _RRRRRRRPRPR_ 0 0 0 REV__nc|ENSG00000140320|Q8TBE0-3|BAHD1 REV__nc|ENSG00000140320|Q8TBE0-3|BAHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.0159912109375 3 540.015974 1617.02609 NaN NaN NaN NaN NaN NaN NaN 43.474 1 44.288 43.788 44.788 0.81444 0 0 0 1.0082 1 19790 19790 0 0 1 + 28884 12238 18650 18708 32487 32487 0.24225964104425657 RRRRRRRPRRS 11 Unmodified _RRRRRRRPRRS_ 0 0 0 REV__ENST00000514738.5_1_5:31193871-31267519:+|nuORF REV__ENST00000514738.5_1_5:31193871-31267519:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 804.512451171875 2 804.509955 1607.00536 NaN NaN NaN NaN NaN NaN NaN 86.864 1 86.864 86.364 87.364 0 0 0 0 1.0082 1 44638 44638 0 0 1 + 28885 17011 18651 18709 32488 32488 0.2261337372476646 RRRRRRRPRRS 11 Unmodified _RRRRRRRPRRS_ 0 0 0 REV__ENST00000514738.5_1_5:31193871-31267519:+|nuORF REV__ENST00000514738.5_1_5:31193871-31267519:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 804.5106811523438 2 804.509955 1607.00536 NaN NaN NaN NaN NaN NaN NaN 45.736 1 46.562 46.062 47.062 0.82621 0 0 0 1.0082 1 20826 20826 0 0 1 + 28886 17011 18651 18709 32489 32489 0.2261337372476646 RRRRRRRPRRS 11 Unmodified _RRRRRRRPRRS_ 0 0 0 REV__ENST00000514738.5_1_5:31193871-31267519:+|nuORF REV__ENST00000514738.5_1_5:31193871-31267519:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 804.5103149414062 2 804.509955 1607.00536 NaN NaN NaN NaN NaN NaN NaN 94.563 1 94.649 94.149 95.149 0.086212 0 0 0 1.0082 1 49784 49784 0 0 1 + 28887 17011 18651 18709 32490 32490 0.2261337372476646 RRRRRRRPRRS 11 Unmodified _RRRRRRRPRRS_ 0 0 0 REV__ENST00000514738.5_1_5:31193871-31267519:+|nuORF REV__ENST00000514738.5_1_5:31193871-31267519:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 804.5170288085938 2 804.509955 1607.00536 NaN NaN NaN NaN NaN NaN NaN 14.48 1 15.128 14.628 15.628 0.6482 0 0 0 1.0082 1 6518 6518 0 0 1 + 28888 17011 18651 18709 32491 32491 0.2261337372476646 RRRRRRRQARP 11 Unmodified _RRRRRRRQARP_ 0 0 0 REV__ENST00000524945.5_1_8:70745220-70745430:-|nuORF REV__ENST00000524945.5_1_8:70745220-70745430:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 782.4219970703125 2 782.49123 1562.96791 NaN NaN NaN NaN NaN NaN NaN 24.919 1 25.656 25.156 26.156 0.73623 0 0 0 1.0082 1 11173 11173 0 0 1 + 28889 17081 18652 18710 32492 32492 0.20894282459153146 RRRRRRRQARP 11 Unmodified _RRRRRRRQARP_ 0 0 0 REV__ENST00000524945.5_1_8:70745220-70745430:-|nuORF REV__ENST00000524945.5_1_8:70745220-70745430:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.0480346679688 3 521.996579 1562.96791 NaN NaN NaN NaN NaN NaN NaN 26.014 1 26.639 26.139 27.139 0.62505 0 0 0 1.0082 1 11928 11928 0 0 1 + 28890 17081 18652 18710 32493 32493 0.20894282459153146 RRRRRRRQARP 11 Unmodified _RRRRRRRQARP_ 0 0 0 REV__ENST00000524945.5_1_8:70745220-70745430:-|nuORF REV__ENST00000524945.5_1_8:70745220-70745430:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 782.4962768554688 2 782.49123 1562.96791 NaN NaN NaN NaN NaN NaN NaN 26.265 1 26.89 26.39 27.39 0.62505 0 0 0 1.0082 1 12043 12043 0 0 1 + 28891 17081 18652 18710 32494 32494 0.20894282459153146 RRRRRRRRCRC 11 Unmodified _RRRRRRRRCRC_ 0 0 0 REV__ENST00000337565.9_1_2:111878510-111881339:+|nuORF REV__ENST00000337565.9_1_2:111878510-111881339:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.9887084960938 3 543.986921 1628.93893 4.2744 0.0023252 1.6189 0.00088067 5.8933 0.0032059 543.9874540407601 106.28 0.14766 106.59 106.52 106.67 0.31628 12 4 4 0 0 0 0.91489 1 49055 49055 0 0 1 847670 + 28892 15431 18653 18711 32495 32495 0.1496209856686619 RRRRRRRRCRC 11 Unmodified _RRRRRRRRCRC_ 0 0 0 REV__ENST00000337565.9_1_2:111878510-111881339:+|nuORF REV__ENST00000337565.9_1_2:111878510-111881339:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 815.4815673828125 2 815.476743 1628.93893 NaN NaN NaN NaN NaN NaN NaN 104.24 1 104.56 104.06 105.06 0.31863 0 0 0 1.0082 1 48169 48169 0 0 1 + 28893 15431 18653 18711 32496 32496 0.1496209856686619 RRRRRRRRCRC 11 Unmodified _RRRRRRRRCRC_ 0 0 0 REV__ENST00000337565.9_1_2:111878510-111881339:+|nuORF REV__ENST00000337565.9_1_2:111878510-111881339:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 543.986921 1628.93893 1.8763 0.0010207 2.7111 0.0014748 4.5873 0.0024955 543.9886498262806 106.34 0.12995 106.39 106.31 106.44 0.04837 -0.22776 0.0008697 NaN 0 12 5 3 NaN NaN NaN NaN 0 NaN NaN 0 1257400 + 28894 15431 18653 18711 0.1496209856686619 RRRRRRRRCRC 11 Unmodified _RRRRRRRRCRC_ 0 0 0 REV__ENST00000337565.9_1_2:111878510-111881339:+|nuORF REV__ENST00000337565.9_1_2:111878510-111881339:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 543.986921 1628.93893 4.2744 0.0023252 1.6189 0.00088067 5.8933 0.0032059 543.9874540407601 106.28 0.14766 106.59 106.52 106.67 0.31628 -0.022601 -0.00091265 NaN 0 12 4 4 NaN NaN NaN NaN 0 NaN NaN 0 847670 + 28895 15431 18653 18711 0.1496209856686619 RRRRRRRRCRC 11 Unmodified _RRRRRRRRCRC_ 0 0 0 REV__ENST00000337565.9_1_2:111878510-111881339:+|nuORF REV__ENST00000337565.9_1_2:111878510-111881339:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 543.986921 1628.93893 3.6859 0.0020051 2.1519 0.0011706 5.8377 0.0031757 543.9880608592531 106.27 0.13555 106.87 106.78 106.91 0.60074 0.25036 -4.2903E-05 NaN 0 15 4 4 NaN NaN NaN NaN 0 NaN NaN 0 632340 + 28896 15431 18653 18711 0.1496209856686619 RRRRRRRRLFF 11 Unmodified _RRRRRRRRLFF_ 0 0 0 ENST00000550735.6_1_12:112280040-112280175:+|nuORF ENST00000550735.6_1_12:112280040-112280175:+|nuORF ENST00000550735.6_1_12:112280040-112280175:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.6511840820312 3 559.020725 1674.04034 NaN NaN NaN NaN NaN NaN NaN 68.376 1 68.376 67.876 68.876 0 0 0 0 1.0082 1 32917 32917 0.08335 0 1 28897 8873 18654 18712 32497 32497 0.23028616532701562 RRRRRRRRRCS 11 Unmodified _RRRRRRRRRCS_ 0 0 0 ENST00000374994.8_2_9:101867473-101891187:+|nuORF ENST00000374994.8_2_9:101867473-101891187:+|nuORF ENST00000374994.8_2_9:101867473-101891187:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.4024047851562 2 807.488165 1612.96178 NaN NaN NaN NaN NaN NaN NaN 98.68 1 98.68 98.18 99.18 0 0 0 0 1.0082 1 54070 54070 0 0 1 28898 7387 18655 18713 32498 32498 0.17981440955986727 RRRRRRRRRCS 11 Unmodified _RRRRRRRRRCS_ 0 0 0 ENST00000374994.8_2_9:101867473-101891187:+|nuORF ENST00000374994.8_2_9:101867473-101891187:+|nuORF ENST00000374994.8_2_9:101867473-101891187:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 807.4884033203125 2 807.488165 1612.96178 NaN NaN NaN NaN NaN NaN NaN 82.638 1 83.298 82.798 83.798 0.66019 0 0 0 1.0082 1 38076 38076 0 0 1 28899 7387 18655 18713 32499 32499 0.17981440955986727 RRRRRRRRRGE 11 Unmodified _RRRRRRRRRGE_ 0 0 0 REV__ENST00000497336.1_1_X:48316945-48325440:-|nuORF REV__ENST00000497336.1_1_X:48316945-48325440:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 805.4976196289062 2 805.499587 1608.98462 NaN NaN NaN NaN NaN NaN NaN 29.049 1 29.839 29.339 30.339 0.78921 0 0 0 1.0082 1 13090 13090 0 0 1 + 28900 16859 18656 18714 32500 32500 0.20448783345068478 RRRRRRRRRGF 11 Unmodified _RRRRRRRRRGF_ 0 0 0 REV__ENST00000083182.7_1_17:58603276-58603570:-|nuORF REV__ENST00000083182.7_1_17:58603276-58603570:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 814.8007202148438 2 814.512497 1627.01044 NaN NaN NaN NaN NaN NaN NaN 82.218 1 82.218 81.718 82.718 0 0 0 0 1.0082 1 41084 41084 0 0 1 + 28901 14784 18657 18715 32501 32501 0.22201677587349877 RRRRRRRRRGF 11 Unmodified _RRRRRRRRRGF_ 0 0 0 REV__ENST00000083182.7_1_17:58603276-58603570:-|nuORF REV__ENST00000083182.7_1_17:58603276-58603570:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 814.5111083984375 2 814.512497 1627.01044 NaN NaN NaN NaN NaN NaN NaN 45.818 1 46.644 46.144 47.144 0.82621 0 0 0 1.0082 1 20864 20864 0 0 1 + 28902 14784 18657 18715 32502 32502 0.22201677587349877 RRRRRRRRRHS 11 Unmodified _RRRRRRRRRHS_ 0 0 0 ENST00000356978.8_1_14:90863393-90866410:+|nuORF;ENST00000447653.7_1_14:90863393-90865345:+|nuORF ENST00000356978.8_1_14:90863393-90866410:+|nuORF ENST00000356978.8_1_14:90863393-90866410:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 824.5167236328125 2 824.513029 1647.0115 NaN NaN NaN NaN NaN NaN NaN 73.795 1 74.481 73.981 74.981 0.68662 0 0 0 1.0082 1 35613 35613 0 0 1 28903 7167 18658 18716 32503 32503 0.21387891956283056 RRRRRRRRRP 10 Unmodified _RRRRRRRRRP_ 0 0 0 ENST00000497336.1_1_X:48316945-48325440:-|nuORF REV__ENST00000372324.5_1_1:44444922-44446927:+|nuORF REV__ENST00000372324.5_1_1:44444922-44446927:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 760.9940795898438 2 760.99394 1519.97333 NaN NaN NaN NaN NaN NaN NaN 96.937 1 96.937 96.437 97.437 0 0 0 0 1.002 1 52606 52606 0 0 1 28904 15750 18659 18717 32504 32504 0.2341400604161663 RRRRRRRRRRA 11 Unmodified _RRRRRRRRRRA_ 0 0 0 ENST00000253008.2_1_9:133556683-133557598:+|nuORF REV__ENSG00000185052|ENST00000328041|SLC24A3;ENST00000253008.2_1_9:133556683-133557598:+|nuORF ENST00000253008.2_1_9:133556683-133557598:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 825.9833374023438 2 826.036671 1650.05879 NaN NaN NaN NaN NaN NaN NaN 98.709 1 98.775 98.275 99.275 0.066025 0 0 0 1.0082 1 53151 53151 0 0 1 28905 6509;14003 18660 18718 32505 32505 0.25976171227262057 RRRRRRRRRRH 11 Unmodified _RRRRRRRRRRH_ 0 0 0 ENST00000337565.9_1_2:111878510-111881339:+|nuORF ENST00000337565.9_1_2:111878510-111881339:+|nuORF ENST00000337565.9_1_2:111878510-111881339:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 859.0512084960938 2 859.04757 1716.08059 NaN NaN NaN NaN NaN NaN NaN 72.228 1 72.932 72.432 73.432 0.70386 0 0 0 1.0082 1 34754 34754 0 0 1 28906 7042 18661 18719 32506 32506 0.25118975975829017 RRRRRRRRSRR 11 Unmodified _RRRRRRRRSRR_ 0 0 0 REV__ENST00000366641.3_1_1:231557623-231557677:-|nuORF REV__ENST00000366641.3_1_1:231557623-231557677:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 834.0361328125 2 834.034128 1666.0537 NaN NaN NaN NaN NaN NaN NaN 80.556 1 81.216 80.716 81.716 0.65998 0 0 0 1.0082 1 37120 37120 0 0 1 + 28907 15643 18662 18720 32507 32507 0.24731867364653226 RRRRRRRRTEL 11 Unmodified _RRRRRRRRTEL_ 0 0 0 ENST00000396212.6_1_16:19535261-19535342:+|nuORF ENST00000396212.6_1_16:19535261-19535342:+|nuORF ENST00000396212.6_1_16:19535261-19535342:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 806.0042724609375 2 806.004171 1609.99379 NaN NaN NaN NaN NaN NaN NaN 69.763 1 70.423 69.923 70.923 0.66071 0 0 0 1.0082 1 31986 31986 0 0 1 28908 7566 18663 18721 32508 32508 0.21319131910786382 RRRRRRRRTRL 11 Unmodified _RRRRRRRRTRL_ 0 0 0 REV__ENST00000333602.10_1_3:195635568-195635940:-|nuORF REV__ENST00000333602.10_1_3:195635568-195635940:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 819.8482055664062 2 819.53343 1637.05231 NaN NaN NaN NaN NaN NaN NaN 67.146 1 67.146 66.646 67.646 0 0 0 0 1.0082 1 32143 32143 0 0 1 + 28909 15398 18664 18722 32509 32509 0.2592623327589081 RRRRRRRRVPE 11 Unmodified _RRRRRRRRVPE_ 0 0 0 ENST00000220562.8_1_8:28559112-28571023:+|nuORF ENST00000220562.8_1_8:28559112-28571023:+|nuORF ENST00000220562.8_1_8:28559112-28571023:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 797.0001831054688 2 796.998888 1591.98322 NaN NaN NaN NaN NaN NaN NaN 30.156 1 30.945 30.445 31.445 0.78921 0 0 0 1.0082 1 13613 13613 0 0 1 28910 6418 18665 18723 32510 32510 0.21091149256312747 RRRRRRRRVVL 11 Unmodified _RRRRRRRRVVL_ 0 0 0 REV__ENST00000356978.8_1_14:90863393-90866410:+|nuORF REV__ENST00000356978.8_1_14:90863393-90866410:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.2965698242188 3 527.020725 1578.04034 NaN NaN NaN NaN NaN NaN NaN 86.88 1 86.88 86.38 87.38 0 0 0 0 1.0082 1 44650 44650 0 0 1 + 28911 15561 18666 18724 32511 32511 0.2744461653271628 RRRRRRRRWCS 11 Unmodified _RRRRRRRRWCS_ 0 0 0 REV__ENST00000374994.8_2_9:101867473-101891187:+|nuORF REV__ENST00000374994.8_2_9:101867473-101891187:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.1066284179688 3 548.653936 1642.93998 NaN NaN NaN NaN NaN NaN NaN 85.406 1 85.406 84.906 85.906 0 0 0 0 1.0082 1 43480 43480 0 0 1 + 28912 15797 18667 18725 32512 32512 0.14422636207427786 RRRRRRRRWGP 11 Unmodified _RRRRRRRRWGP_ 0 0 0 REV__ENST00000288502.8_2_9:117373626-117379440:+|nuORF REV__ENST00000288502.8_2_9:117373626-117379440:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 804.4949951171875 2 804.493773 1606.97299 NaN NaN NaN NaN NaN NaN NaN 96.353 1 96.353 95.853 96.853 0 0 0 0 1.008 1 52121 52121 0.30703 0 1 + 28913 15118 18668 18726 32513 32513 0.19378586321749935 RRRRRRRRWKR 11 Unmodified _RRRRRRRRWKR_ 0 0 0 REV__ENST00000306085.10_3_7:100730337-100730388:+|nuORF REV__ENST00000306085.10_3_7:100730337-100730388:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.8591918945312 3 580.03889 1737.09484 NaN NaN NaN NaN NaN NaN NaN 67.384 1 67.384 66.884 67.884 0 0 0 0 1.0082 1 32310 32310 0 0 1 + 28914 15229 18669 18727 32514 32514 0.25577628404130337 RRRRRRRSRSR 11 Unmodified _RRRRRRRSRSR_ 0 0 0 REV__ENST00000396401.7_1_8:54934824-54934959:-|nuORF REV__ENST00000396401.7_1_8:54934824-54934959:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 799.5004272460938 2 799.499587 1596.98462 NaN NaN NaN NaN NaN NaN NaN 89.499 1 89.75 89.25 90.25 0.25118 0 0 0 1.0082 1 41163 41163 0 0 1 + 28915 16003 18670 18728 32515 32515 0.21000783345107266 RRRRRRRSRSS 11 Unmodified _RRRRRRRSRSS_ 0 0 0 nc|ENSG00000177679|A6NNA2|SRRM3;ENSG00000177679|ENST00000611745|SRRM3 nc|ENSG00000177679|A6NNA2|SRRM3 nc|ENSG00000177679|A6NNA2|SRRM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 764.63427734375 2 764.965046 1527.91554 NaN NaN NaN NaN NaN NaN NaN 106.45 1 106.76 106.26 107.26 0.31628 0 0 0 1.0082 1 49122 49122 0.26902 0 1 28916 5131 18671 18729 32516 32516 0.17269699325538568 RRRRRRRTRAW 11 Unmodified _RRRRRRRTRAW_ 0 0 0 ENST00000276602.10_1_8:73921164-73926156:+|nuORF ENST00000276602.10_1_8:73921164-73926156:+|nuORF ENST00000276602.10_1_8:73921164-73926156:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 813.4998779296875 2 813.499056 1624.98356 NaN NaN NaN NaN NaN NaN NaN 30.086 1 30.875 30.375 31.375 0.78921 0 0 0 1.0082 1 13580 13580 0 0 1 28917 6678 18672 18730 32517 32517 0.19606568976200833 RRRRRRRVVLL 11 Unmodified _RRRRRRRVVLL_ 0 0 0 REV__ENST00000356978.8_1_14:90863393-90866410:+|nuORF REV__ENST00000356978.8_1_14:90863393-90866410:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 768.5220947265625 2 768.518925 1535.0233 NaN NaN NaN NaN NaN NaN NaN 69.341 1 70.044 69.544 70.544 0.70302 0 0 0 1.008 1 33181 33181 0.30703 0.30703 1 + 28918 15561 18673 18731 32518 32518 0.27718695926910186 RRRRRRRWGPV 11 Unmodified _RRRRRRRWGPV_ 0 0 0 REV__ENST00000288502.8_2_9:117373626-117379440:+|nuORF REV__ENST00000288502.8_2_9:117373626-117379440:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 388.2427673339844 4 388.492351 1549.9403 2.6639 0.0010349 -0.11979 -4.6539E-05 2.5441 0.00098837 388.49227438779565 54.519 0.25124 54.784 54.659 54.911 0.26521 19 10 2 0 0 0 0.13295 1 24915 24915 0.094841 0 1 1042900 + 28919 15118 18674 18732 32519 32519 0.18732379198900162 RRRRRRRWQWR 11 Unmodified _RRRRRRRWQWR_ 0 0 0 ENST00000487093.5_1_3:51575631-51661706:+|nuORF ENST00000487093.5_1_3:51575631-51661706:+|nuORF ENST00000487093.5_1_3:51575631-51661706:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.9154052734375 3 590.019495 1767.03666 NaN NaN NaN NaN NaN NaN NaN 90.101 1 90.101 89.601 90.601 0 0 0 0 1.0082 1 47254 47254 0.094841 0 1 28920 8342 18675 18733 32520 32520 0.18381946758859158 RRRRRRRWQWR 11 Unmodified _RRRRRRRWQWR_ 0 0 0 ENST00000487093.5_1_3:51575631-51661706:+|nuORF ENST00000487093.5_1_3:51575631-51661706:+|nuORF ENST00000487093.5_1_3:51575631-51661706:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.8895263671875 3 590.019495 1767.03666 NaN NaN NaN NaN NaN NaN NaN 78.984 1 79.448 78.948 79.948 0.4642 0 0 0 1.0082 1 38501 38501 0 0 1 28921 8342 18675 18733 32521 32521 0.18381946758859158 RRRRRRSRRLQ 11 Unmodified _RRRRRRSRRLQ_ 0 0 0 ENST00000418710.2_1_7:20824815-20825286:-|nuORF ENST00000418710.2_1_7:20824815-20825286:-|nuORF ENST00000418710.2_1_7:20824815-20825286:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 798.5051879882812 2 798.504338 1594.99412 NaN NaN NaN NaN NaN NaN NaN 73.418 1 74.117 73.617 74.617 0.69881 0 0 0 1.0082 1 35402 35402 0 0 1 28922 7735 18676 18734 32522 32522 0.22042551630624985 RRRRRRWHWHW 11 Unmodified _RRRRRRWHWHW_ 0 0 0 ENST00000321582.9_1_9:124855435-124855555:-|nuORF ENST00000321582.9_1_9:124855435-124855555:-|nuORF ENST00000321582.9_1_9:124855435-124855555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 894.4956665039062 2 894.493773 1786.97299 NaN NaN NaN NaN NaN NaN NaN 67.415 1 67.665 67.165 68.165 0.2501 0 0 0 1.0082 1 30883 30883 0 0 1 28923 6931 18677 18735 32523 32523 0.11098586321782022 RRRRRRWHWHW 11 Unmodified _RRRRRRWHWHW_ 0 0 0 ENST00000321582.9_1_9:124855435-124855555:-|nuORF ENST00000321582.9_1_9:124855435-124855555:-|nuORF ENST00000321582.9_1_9:124855435-124855555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 894.5003051757812 2 894.493773 1786.97299 NaN NaN NaN NaN NaN NaN NaN 66.81 1 67.467 66.967 67.967 0.65672 0 0 0 1.0082 1 30628 30628 0 0 1 28924 6931 18677 18735 32524 32524 0.11098586321782022 RRRRRRWRRRR 11 Unmodified _RRRRRRWRRRR_ 0 0 0 ENST00000556735.1_1_14:51134724-51134856:-|nuORF;ENST00000510148.1_1_5:179921418-179921547:+|nuORF REV__ENST00000510148.1_1_5:179921418-179921547:+|nuORF;ENST00000510148.1_1_5:179921418-179921547:+|nuORF REV__ENST00000510148.1_1_5:179921418-179921547:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 883.646240234375 2 883.55777 1765.10099 NaN NaN NaN NaN NaN NaN NaN 47.622 1 48.276 47.776 48.776 0.65356 0 0 0 1.0082 1 21801 21801 0 0 1 28925 16967;8552 18678 18736 32525 32525 0.24904146635640245 RRRRRVRRLA 10 Unmodified _RRRRRVRRLA_ 0 0 0 REV__ENST00000373812.7_2_1:29063436-29063616:+|nuORF REV__ENST00000373812.7_2_1:29063436-29063616:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 697.96142578125 2 697.961243 1393.90793 NaN NaN NaN NaN NaN NaN NaN 93.645 1 93.9 93.4 94.4 0.25497 0 0 0 1.002 1 43040 43040 0 0 1 + 28926 15774 18679 18737 32526 32526 0.22673591795933135 RRRRRVVLLLV 11 Unmodified _RRRRRVVLLLV_ 0 0 0 REV__ENSG00000171587|ENST00000400454|DSCAM REV__ENSG00000171587|ENST00000400454|DSCAM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 718.495361328125 2 718.494053 1434.97355 NaN NaN NaN NaN NaN NaN NaN 77.695 1 77.695 77.195 78.195 0 0 0 0 1.0082 1 38112 38112 0 0 1 + 28927 13504 18680 18738 32527 32527 0.27346568198277055 RRRRRVVLLLV 11 Unmodified _RRRRRVVLLLV_ 0 0 0 REV__ENSG00000171587|ENST00000400454|DSCAM REV__ENSG00000171587|ENST00000400454|DSCAM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 718.4974975585938 2 718.494053 1434.97355 NaN NaN NaN NaN NaN NaN NaN 104.29 1 104.29 103.79 104.79 0 0 0 0 1.0082 1 57403 57403 0 0 1 + 28928 13504 18680 18738 32528 32528 0.27346568198277055 RRRRRWKRTYM 11 Unmodified _RRRRRWKRTYM_ 0 0 0 REV__ENST00000306085.10_3_7:100730337-100730388:+|nuORF REV__ENST00000306085.10_3_7:100730337-100730388:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 832.9821166992188 2 832.978776 1663.943 NaN NaN NaN NaN NaN NaN NaN 76.127 1 76.384 75.884 76.884 0.25704 0 0 0 1.0082 1 35047 35047 0 0 1 + 28929 15229 18681 18739 32529 32529 0.13758466541526104 RRRRRWLFWRR 11 Unmodified _RRRRRWLFWRR_ 0 0 0 REV__ENST00000368742.3_1_1:153234210-153234426:+|nuORF REV__ENST00000368742.3_1_1:153234210-153234426:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 872.524658203125 2 872.521999 1743.02945 NaN NaN NaN NaN NaN NaN NaN 100.08 1 100.14 99.639 100.64 0.062241 0 0 0 1.0082 1 54224 54224 0 0 1 + 28930 15691 18682 18740 32530 32530 0.18765214158406707 RRRRRWQWRSV 11 Unmodified _RRRRRWQWRSV_ 0 0 0 ENST00000487093.5_1_3:51575631-51661706:+|nuORF ENST00000487093.5_1_3:51575631-51661706:+|nuORF ENST00000487093.5_1_3:51575631-51661706:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.9835205078125 3 547.985569 1640.93488 NaN NaN NaN NaN NaN NaN NaN 108.14 1 108.45 107.95 108.95 0.31168 0 0 0 1.0082 1 49874 49874 0.094841 0.094841 1 28931 8342 18683 18741 32531 32531 0.14004655616440687 RRRRRWRLGRL 11 Unmodified _RRRRRWRLGRL_ 0 0 0 ENST00000507139.5_1_5:139028301-139059434:+|nuORF;ENST00000302517.7_1_5:139028169-139060149:+|nuORF ENST00000507139.5_1_5:139028301-139059434:+|nuORF ENST00000507139.5_1_5:139028301-139059434:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 791.0038452148438 2 791.0009 1579.98725 NaN NaN NaN NaN NaN NaN NaN 75.001 1 75.259 74.759 75.759 0.25831 0 0 0 1.0082 1 34500 34500 0 0 1 28932 6817 18684 18742 32532 32532 0.22045238750047247 RRRRRWWWRR 10 Unmodified _RRRRRWWWRR_ 0 0 0 REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 835.48876953125 2 835.485417 1668.95628 NaN NaN NaN NaN NaN NaN NaN 13.894 1 13.894 13.394 14.394 0 0 0 0 1.002 1 6110 6110 0 0 1 + 28933 15733 18685 18743 32533 32533 0.14856085435803834 RRRRRWWWRR 10 Unmodified _RRRRRWWWRR_ 0 0 0 REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 835.4862060546875 2 835.485417 1668.95628 NaN NaN NaN NaN NaN NaN NaN 26.935 1 26.935 26.435 27.435 0 0 0 0 1.002 1 12131 12131 0 0 1 + 28934 15733 18685 18743 32534 32534 0.14856085435803834 RRRRRWWWRR 10 Unmodified _RRRRRWWWRR_ 0 0 0 REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 835.8753051757812 2 835.485417 1668.95628 NaN NaN NaN NaN NaN NaN NaN 99.704 1 99.766 99.266 100.27 0.062241 0 0 0 1.002 1 53955 53955 0 0 1 + 28935 15733 18685 18743 32535 32535 0.14856085435803834 RRRRRWWWRR 10 Unmodified _RRRRRWWWRR_ 0 0 0 REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.7459106445312 3 557.326037 1668.95628 4.3916 0.0024475 2.9788 0.0016602 7.3703 0.0041077 557.3280789402535 101.65 0.076477 101.96 101.91 101.98 0.31737 4 2 2 0 0 0 0.94443 1 47011 47011 0 0 1 169150 + 28936 15733 18685 18743 32536 32536 0.14856085435803834 RRRRRWWWRR 10 Unmodified _RRRRRWWWRR_ 0 0 0 REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 835.4857788085938 2 835.485417 1668.95628 NaN NaN NaN NaN NaN NaN NaN 44.219 1 44.869 44.369 45.369 0.64998 0 0 0 1.002 1 20268 20268 0 0 1 + 28937 15733 18685 18743 32537 32537 0.14856085435803834 RRRRSHLKWK 10 Unmodified _RRRRSHLKWK_ 0 0 0 REV__nc|ENSG00000197467|Q5TAT6-11|COL13A1 REV__nc|ENSG00000197467|Q5TAT6-11|COL13A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 711.9365844726562 2 711.936902 1421.85925 NaN NaN NaN NaN NaN NaN NaN 35.829 1 36.085 35.585 36.585 0.25524 0 0 0 1.0016 1 16319 16319 0.35063 0 1 + 28938 14281 18686 18744 32538 32538 0.165196784361342 RRRRSRPG 8 Unmodified _RRRRSRPG_ 0 0 0 REV__ENST00000341184.6_1_22:39853353-39853542:+|nuORF REV__ENST00000341184.6_1_22:39853353-39853542:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.5478820800781 3 347.548068 1039.62238 NaN NaN NaN NaN NaN NaN NaN 53.842 1 54.507 54.007 55.007 0.66478 0 0 0 0.99035 1 24623 24623 5.7319 0 1 + 28939 15459 18687 18745 32539 32539 0.10414951942652806 RRRRSRQRQRY 11 Unmodified _RRRRSRQRQRY_ 0 0 0 REV__ENSG00000175646|ENST00000312511|PRM1 REV__ENSG00000175646|ENST00000312511|PRM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 809.4744873046875 2 809.472703 1616.93085 NaN NaN NaN NaN NaN NaN NaN 30.859 1 31.648 31.148 32.148 0.78879 0 0 0 1.0082 1 13939 13939 0 0 1 + 28940 13674 18688 18746 32540 32540 0.147065661227316 RRRRSRQRQRY 11 Unmodified _RRRRSRQRQRY_ 0 0 0 REV__ENSG00000175646|ENST00000312511|PRM1 REV__ENSG00000175646|ENST00000312511|PRM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.1823120117188 3 539.984228 1616.93085 NaN NaN NaN NaN NaN NaN NaN 59.078 1 59.837 59.337 60.337 0.75894 0 0 0 1.0082 1 27150 27150 0 0 1 + 28941 13674 18688 18746 32541 32541 0.147065661227316 RRRRSRQRQRY 11 Unmodified _RRRRSRQRQRY_ 0 0 0 REV__ENSG00000175646|ENST00000312511|PRM1 REV__ENSG00000175646|ENST00000312511|PRM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.9859008789062 3 539.984228 1616.93085 4.0245 0.0021732 1.5603 0.00084251 5.5848 0.0030157 539.9848024135873 106.34 0.11919 106.65 106.58 106.7 0.31628 6 3 2 0 0 0 0.91489 1 49089 49089 0 0 1 329420 + 28942 13674 18688 18746 32542 32542 0.147065661227316 RRRRSRQRQRY 11 Unmodified _RRRRSRQRQRY_ 0 0 0 REV__ENSG00000175646|ENST00000312511|PRM1 REV__ENSG00000175646|ENST00000312511|PRM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.3207397460938 3 539.984228 1616.93085 3.5542 0.0019192 1.8982 0.001025 5.4523 0.0029442 539.9850151209241 99.537 0.25955 100.13 99.97 100.23 0.59748 20 15 2 0 0 0 0.91489 2 46029 46029;46046 0 0 1 1871300 + 28943 13674 18688 18746 32543;32544 32543 0.147065661227316 RRRRSRQRQRY 11 Unmodified _RRRRSRQRQRY_ 0 0 0 REV__ENSG00000175646|ENST00000312511|PRM1 REV__ENSG00000175646|ENST00000312511|PRM1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.3207397460938 3 539.984228 1616.93085 3.5542 0.0019192 1.8982 0.001025 5.4523 0.0029442 539.9850151209241 99.537 0.25955 100.13 99.97 100.23 0.59748 20 15 2 0 0 0 0.13295 1 46029 46029 0 0 1 1871300 + 28944 13674 18688 18746 32545 32545 0.147065661227316 RRRRSRQRQRY 11 Unmodified _RRRRSRQRQRY_ 0 0 0 REV__ENSG00000175646|ENST00000312511|PRM1 REV__ENSG00000175646|ENST00000312511|PRM1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 539.984228 1616.93085 1.8301 0.0009882 3.3571 0.0018128 5.1872 0.002801 539.9856270252404 106.41 0.1086 106.46 106.38 106.49 0.04837 -0.097975 0.00050729 NaN 0 9 4 3 NaN NaN NaN NaN 0 NaN NaN 0 656950 + 28945 13674 18688 18746 0.147065661227316 RRRRSRQRQRY 11 Unmodified _RRRRSRQRQRY_ 0 0 0 REV__ENSG00000175646|ENST00000312511|PRM1 REV__ENSG00000175646|ENST00000312511|PRM1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 539.984228 1616.93085 4.0326 0.0021775 1.8049 0.00097464 5.8375 0.0031522 539.9849939192051 99.987 0.35165 100.3 100.13 100.49 0.30835 0.080518 -5.5301E-05 NaN 0 35 16 3 NaN NaN NaN NaN 0 NaN NaN 0 2339500 + 28946 13674 18688 18746 0.147065661227316 RRRRSRQRQRY 11 Unmodified _RRRRSRQRQRY_ 0 0 0 REV__ENSG00000175646|ENST00000312511|PRM1 REV__ENSG00000175646|ENST00000312511|PRM1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 539.984228 1616.93085 4.0245 0.0021732 1.5603 0.00084251 5.5848 0.0030157 539.9848024135873 106.34 0.11919 106.65 106.58 106.7 0.31628 0.097975 -0.0024036 NaN 0 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 329420 + 28947 13674 18688 18746 0.147065661227316 RRRRSRRL 8 Unmodified _RRRRSRRL_ 0 0 0 ENST00000418710.2_1_7:20824815-20825286:-|nuORF ENST00000418710.2_1_7:20824815-20825286:-|nuORF ENST00000418710.2_1_7:20824815-20825286:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.3756713867188 2 578.373938 1154.73332 NaN NaN NaN NaN NaN NaN NaN 46.098 1 46.363 45.863 46.863 0.26561 0 0 0 0.99035 1 21072 21072 1.8442 0 1 28948 7735 18689 18747 32546 32546 0.1621459165073702 RRRRSRVPI 9 Unmodified _RRRRSRVPI_ 0 0 0 ENST00000458412.1_2_15:44092902-44093782:+|nuORF ENST00000458412.1_2_15:44092902-44093782:+|nuORF ENST00000458412.1_2_15:44092902-44093782:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.2594909667969 3 399.258406 1194.75339 2.6733 0.0010673 -1.798 -0.00071788 0.8753 0.00034947 399.5916976146029 36.481 0.52153 37.274 37.003 37.524 0.79342 51 25 3 0 0 0 1.2289 1 16582 16582 0.26902 0.033176 1 301060 28949 8063 18690 18748 32547 32547 0.16380342590696273 RRRRSRWLRHL 11 Unmodified _RRRRSRWLRHL_ 0 0 0 REV__ENST00000389561.6_1_12:132551999-132562003:+|nuORF REV__ENST00000389561.6_1_12:132551999-132562003:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 796.48583984375 2 796.485082 1590.95561 NaN NaN NaN NaN NaN NaN NaN 89.095 1 89.147 88.647 89.647 0.052155 0 0 0 1.0082 1 45573 45573 0 0 1 + 28950 15913 18691 18749 32548 32548 0.18377245996111924 RRRRSSRRRHR 11 Unmodified _RRRRSSRRRHR_ 0 0 0 REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 395.49444580078125 4 395.492882 1577.94242 2.5262 0.00099909 1.4286 0.00056502 3.9548 0.0015641 395.49337670117757 45.287 0.50173 45.287 45.033 45.535 0 38 26 2 0 0 0 0.91489 1 20746 20746 0 0 1 688520 + 28951 17658 18692 18750 32549 32549 0.17656807936714358 RRRRSSRRRHR 11 Unmodified _RRRRSSRRRHR_ 0 0 0 REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.9904174804688 3 526.988084 1577.94242 NaN NaN NaN NaN NaN NaN NaN 95.103 1 95.103 94.603 95.603 0 0 0 0 1.0082 1 51132 51132 0 0 1 + 28952 17658 18692 18750 32550 32550 0.17656807936714358 RRRRSSRRRHR 11 Unmodified _RRRRSSRRRHR_ 0 0 0 REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 316.596923828125 5 316.595761 1577.94242 2.3325 0.00073845 1.151 0.0003644 3.4835 0.0011029 316.5960453722962 49.166 0.63489 49.993 49.688 50.323 0.82705 40 31 2 0 0 0 0.91489 1 22373 22373 0 0 1 249350 + 28953 17658 18692 18750 32551 32551 0.17656807936714358 RRRRSSRRRHR 11 Unmodified _RRRRSSRRRHR_ 0 0 0 REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.4941101074219 4 395.492882 1577.94242 2.8771 0.0011379 1.105 0.00043703 3.9821 0.0015749 395.49324076308227 45.454 0.93765 45.722 45.371 46.309 0.26768 57 36 2 0 0 0 0.91489 2 20759 20759;20832 0 0 1 1550400 + 28954 17658 18692 18750 32552;32553 32552 0.17656807936714358 RRRRSSRRRHR 11 Unmodified _RRRRSSRRRHR_ 0 0 0 REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.4932861328125 4 395.492882 1577.94242 3.0344 0.0012001 1.385 0.00054777 4.4195 0.0017479 395.4933466859899 49.357 0.6253 49.619 49.298 49.923 0.26146 47 23 3 0 0 0 0.91489 1 22624 22624 0 0 1 364120 + 28955 17658 18692 18750 32554 32554 0.17656807936714358 RRRRSSRRRHR 11 Unmodified _RRRRSSRRRHR_ 0 0 0 REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.9903564453125 3 526.988084 1577.94242 NaN NaN NaN NaN NaN NaN NaN 45.549 1 45.817 45.317 46.317 0.26768 0 0 0 1.0082 1 20822 20822 0.073264 0.073264 1 + 28956 17658 18692 18750 32555 32555 0.17656807936714358 RRRRSSRRRHR 11 Unmodified _RRRRSSRRRHR_ 0 0 0 REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.49468994140625 4 395.492882 1577.94242 2.9887 0.001182 1.5671 0.00061976 4.5557 0.0018018 395.74418116770073 46.652 0.53316 47.304 47.004 47.537 0.65219 36 18 3 0 0 0 0.91489 2 21318 21318;21410 0 0 1 524190 + 28957 17658 18692 18750 32556;32557 32556 0.17656807936714358 RRRRSSRRRHR 11 Unmodified _RRRRSSRRRHR_ 0 0 0 REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 395.492882 1577.94242 2.4866 0.00098342 1.4182 0.00056087 3.9047 0.0015443 395.7442055089963 45.929 0.87639 45.929 45.494 46.37 0 0.10369 0.00023076 NaN 0 56 44 2 NaN NaN NaN NaN 0 NaN NaN 0 1497400 + 28958 17658 18692 18750 0.17656807936714358 RRRRSSRRRHR 11 Unmodified _RRRRSSRRRHR_ 0 0 0 REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 395.492882 1577.94242 2.5262 0.00099909 1.4286 0.00056502 3.9548 0.0015641 395.49337670117757 45.287 0.50173 45.287 45.033 45.535 0 -0.052864 4.5651E-05 NaN 0 38 26 2 NaN NaN NaN NaN 0 NaN NaN 0 688520 + 28959 17658 18692 18750 0.17656807936714358 RRRRSSRRRHR 11 Unmodified _RRRRSSRRRHR_ 0 0 0 REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 5 316.595761 1577.94242 2.0283 0.00064217 1.8402 0.00058262 3.8686 0.0012248 316.59625962098767 50.207 0.90551 50.207 49.703 50.608 0 0.10687 0.00039382 NaN 0 98 43 3 NaN NaN NaN NaN 0 NaN NaN 0 425650 + 28960 17658 18692 18750 0.17656807936714358 RRRRSSRRRHR 11 Unmodified _RRRRSSRRRHR_ 0 0 0 REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 5 316.595761 1577.94242 2.3325 0.00073845 1.151 0.0003644 3.4835 0.0011029 316.5960453722962 49.166 0.63489 49.993 49.688 50.323 0.82705 -0.10687 -0.00069726 NaN 0 40 31 2 NaN NaN NaN NaN 0 NaN NaN 0 249350 + 28961 17658 18692 18750 0.17656807936714358 RRRRSSRRRHR 11 Unmodified _RRRRSSRRRHR_ 0 0 0 REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 395.492882 1577.94242 3.0344 0.0012001 1.385 0.00054777 4.4195 0.0017479 395.4933466859899 49.357 0.6253 49.619 49.298 49.923 0.26146 -0.037373 -0.00018538 NaN 0 47 23 3 NaN NaN NaN NaN 0 NaN NaN 0 364120 + 28962 17658 18692 18750 0.17656807936714358 RRRRSSRRRHR 11 Unmodified _RRRRSSRRRHR_ 0 0 0 REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 395.492882 1577.94242 3.1717 0.0012544 1.4822 0.00058619 4.6539 0.0018406 395.4933003524166 47.107 0.73775 47.37 47.009 47.747 0.26363 0.033141 -5.8087E-05 NaN 0 51 27 3 NaN NaN NaN NaN 0 NaN NaN 0 575850 + 28963 17658 18692 18750 0.17656807936714358 RRRRSSRRRHR 11 Unmodified _RRRRSSRRRHR_ 0 0 0 REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 395.492882 1577.94242 3.0604 0.0012104 1.3835 0.00054717 4.4439 0.0017575 395.7441443521432 44.743 1.1656 45.393 44.894 46.06 0.64998 0.052864 -2.5744E-05 NaN 0 95 46 3 NaN NaN NaN NaN 0 NaN NaN 0 986930 + 28964 17658 18692 18750 0.17656807936714358 RRRRSSRRRHR 11 Unmodified _RRRRSSRRRHR_ 0 0 0 REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 395.492882 1577.94242 2.9771 0.0011774 1.5962 0.0006313 4.5734 0.0018087 395.49349128376156 49.038 0.81856 49.693 49.401 50.22 0.65525 0.037373 0.00014874 NaN 0 50 29 3 NaN NaN NaN NaN 0 NaN NaN 0 514660 + 28965 17658 18692 18750 0.17656807936714358 RRRRSSRRRHR 11 Unmodified _RRRRSSRRRHR_ 0 0 0 REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF REV__ENST00000605386.1_1_12:90102939-90103125:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 395.492882 1577.94242 2.9887 0.001182 1.5671 0.00061976 4.5557 0.0018018 395.74418116770073 46.652 0.53316 47.304 47.004 47.537 0.65219 -0.033141 7.6175E-05 NaN 0 36 18 3 NaN NaN NaN NaN 0 NaN NaN 0 524190 + 28966 17658 18692 18750 0.17656807936714358 RRRRTKKKTKK 11 Unmodified _RRRRTKKKTKK_ 0 0 0 REV__ENSG00000109685|ENST00000508803|NSD2 REV__ENSG00000109685|ENST00000508803|NSD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 743.5006713867188 2 743.499867 1484.98518 NaN NaN NaN NaN NaN NaN NaN 21.242 1 21.242 20.742 21.742 0 0 0 0 1.0082 1 9508 9508 0 0 1 + 28967 11175 18693 18751 32558 32558 0.2620876522155413 RRRRTLYRNYH 11 Unmodified _RRRRTLYRNYH_ 0 0 0 REV__ENSG00000260027|ENST00000239165|HOXB7 REV__ENSG00000260027|ENST00000239165|HOXB7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.968505859375 3 530.966063 1589.87636 NaN NaN NaN NaN NaN NaN NaN 69.115 1 69.817 69.317 70.317 0.70218 0 0 0 1.0074 1 33035 33035 0.36667 0.36667 1 + 28968 11146 18694 18752 32559 32559 0.10501554251345624 RRRRVRAAWP 10 Unmodified _RRRRVRAAWP_ 0 0 0 ENST00000280780.6_2_10:126432740-126432824:-|nuORF ENST00000280780.6_2_10:126432740-126432824:-|nuORF ENST00000280780.6_2_10:126432740-126432824:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.94049072265625 3 441.937556 1322.79084 NaN NaN NaN NaN NaN NaN NaN 54.033 1 54.033 53.533 54.533 0 0 0 0 0.99807 1 24776 24776 3.3196 0 1 28969 6689 18695 18753 32560 32560 0.1423543385631092 RRRRVRRRKFR 11 Unmodified _RRRRVRRRKFR_ 0 0 0 REV__nc|ENSG00000203880|Q9NV79-3|PCMTD2 REV__nc|ENSG00000203880|Q9NV79-3|PCMTD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 821.529296875 2 821.532898 1641.05124 NaN NaN NaN NaN NaN NaN NaN 82.894 1 83.555 83.055 84.055 0.66019 0 0 0 1.0082 1 38194 38194 0 0 1 + 28970 14393 18696 18754 32561 32561 0.25636018906971003 RRRRVYLR 8 Unmodified _RRRRVYLR_ 0 0 0 REV__nc|ENSG00000150672|Q15700-4|DLG2;REV__ENST00000529111.5_1_11:83344252-84634162:-|nuORF REV__ENST00000529111.5_1_11:83344252-84634162:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.8726806640625 2 587.87324 1173.73193 NaN NaN NaN NaN NaN NaN NaN 17.683 1 17.984 17.484 18.484 0.30158 0 0 0 0.99035 1 8008 8008 0.69038 0.088878 1 + 28971 17982;12590 18697 18755 32562 32562 0.15200957561955875 RRRRWHWHWPR 11 Unmodified _RRRRWHWHWPR_ 0 0 0 ENST00000321582.9_1_9:124855435-124855555:-|nuORF ENST00000321582.9_1_9:124855435-124855555:-|nuORF ENST00000321582.9_1_9:124855435-124855555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 864.9714965820312 2 864.9696 1727.92465 NaN NaN NaN NaN NaN NaN NaN 74.711 1 74.969 74.469 75.469 0.25831 0 0 0 1.0082 1 34369 34369 0 0 1 28972 6931 18698 18756 32563 32563 0.0898009268187252 RRRRWHWHWPR 11 Unmodified _RRRRWHWHWPR_ 0 0 0 ENST00000321582.9_1_9:124855435-124855555:-|nuORF ENST00000321582.9_1_9:124855435-124855555:-|nuORF ENST00000321582.9_1_9:124855435-124855555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 576.9833374023438 3 576.982159 1727.92465 NaN NaN NaN NaN NaN NaN NaN 105.9 1 106.5 106 107 0.59969 0 0 0 1.0082 1 48902 48902 0 0 1 28973 6931 18698 18756 32564 32564 0.0898009268187252 RRRRWKRKRRR 11 Unmodified _RRRRWKRKRRR_ 0 0 0 ENST00000557821.5_1_15:40588574-40589003:-|nuORF;ENST00000260402.7_1_15:40588574-40589003:-|nuORF ENST00000557821.5_1_15:40588574-40589003:-|nuORF ENST00000557821.5_1_15:40588574-40589003:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 855.548095703125 2 855.551622 1709.08869 NaN NaN NaN NaN NaN NaN NaN 86.63 1 86.63 86.13 87.13 0 0 0 0 1.0082 1 44457 44457 0 0 1 28974 6544 18699 18757 32565 32565 0.26251110172574954 RRRRWWFIRGR 11 Unmodified _RRRRWWFIRGR_ 0 0 0 REV__ENST00000216554.7_1_14:103806831-103806882:+|nuORF REV__ENST00000216554.7_1_14:103806831-103806882:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 822.9828491210938 2 822.982176 1643.9498 NaN NaN NaN NaN NaN NaN NaN 81.288 1 81.456 80.956 81.956 0.16862 0 0 0 1.0082 1 39939 39939 0 0 1 + 28975 14814 18700 18758 32566 32566 0.153581474844259 RRRRWWSVTWW 11 Unmodified _RRRRWWSVTWW_ 0 0 0 ENST00000380486.3_2_21:43339056-43362335:-|nuORF ENST00000380486.3_2_21:43339056-43362335:-|nuORF ENST00000380486.3_2_21:43339056-43362335:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 837.9500732421875 2 837.947467 1673.88038 NaN NaN NaN NaN NaN NaN NaN 58.127 1 58.796 58.296 59.296 0.66829 0 0 0 1.0082 1 26601 26601 0 0 1 28976 7467 18701 18759 32567 32567 0.07039643744997193 RRRRWWSVTWW 11 Unmodified _RRRRWWSVTWW_ 0 0 0 ENST00000380486.3_2_21:43339056-43362335:-|nuORF ENST00000380486.3_2_21:43339056-43362335:-|nuORF ENST00000380486.3_2_21:43339056-43362335:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 837.9501953125 2 837.947467 1673.88038 NaN NaN NaN NaN NaN NaN NaN 63.623 1 64.282 63.782 64.782 0.65809 0 0 0 1.0082 1 29157 29157 0 0 1 28977 7467 18701 18759 32568 32568 0.07039643744997193 RRRSERKVTR 10 Unmodified _RRRSERKVTR_ 0 0 0 ENSG00000162009|ENST00000689027|SSTR5 ENSG00000162009|ENST00000689027|SSTR5 ENSG00000162009|ENST00000689027|SSTR5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 448.61041259765625 3 448.607875 1342.8018 NaN NaN NaN NaN NaN NaN NaN 93.859 1 94.114 93.614 94.614 0.25497 0 0 0 1.0013 1 43136 43136 0.62683 0.17231 1 28978 4115 18702 18760 32569 32569 0.14410791439922832 RRRSLFFE 8 Unmodified _RRRSLFFE_ 0 0 0 REV__ENSG00000184160|ENST00000330055|ADRA2C REV__ENSG00000184160|ENST00000330055|ADRA2C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 555.8121337890625 2 555.811982 1109.60941 NaN NaN NaN NaN NaN NaN NaN 43.855 1 44.673 44.173 45.173 0.81819 0 0 0 0.99035 1 19964 19964 0.69038 0 1 + 28979 13958 18703 18761 32570 32570 0.0589907603989559 RRRSLLLLLLL 11 Unmodified _RRRSLLLLLLL_ 0 0 0 REV__ENSG00000124212|ENST00000244043|PTGIS REV__ENSG00000124212|ENST00000244043|PTGIS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 683.4754028320312 2 683.474463 1364.93437 NaN NaN NaN NaN NaN NaN NaN 104.3 1 104.9 104.4 105.4 0.59885 0 0 0 1.0082 1 48213 48213 0 0 1 + 28980 11643 18704 18762 32571 32571 0.26650423124056033 RRRSRVAPRG 10 Unmodified _RRRSRVAPRG_ 0 0 0 REV__ENST00000359479.7_1_3:155572111-155572216:-|nuORF REV__ENST00000359479.7_1_3:155572111-155572216:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 605.87255859375 2 605.871228 1209.7279 3.5475 0.0021493 -2.0364 -0.0012338 1.5111 0.00091555 605.8695520363949 57.895 0.39856 57.895 57.675 58.073 0 70 37 3 0 0 0 0.86398 1 26712 26712 5.7319 0 1 1544400 + 28981 15597 18705 18763 32572 32572 0.13142868068257485 RRRTAARPWL 10 Unmodified _RRRTAARPWL_ 0 0 0 ENST00000481323.1_1_20:17948856-17949358:-|nuORF;ENST00000486039.1_1_20:17948856-17949322:-|nuORF ENST00000481323.1_1_20:17948856-17949358:-|nuORF ENST00000481323.1_1_20:17948856-17949358:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.884033203125 2 641.883804 1281.75306 4.131 0.0026516 -1.4443 -0.00092709 2.6866 0.0017245 641.8826889380277 89.752 0.99398 90.004 89.517 90.511 0.25137 91 45 3 0 0 0 0.93788 1 41262 41262 1.3295 0.13619 1 954720 28982 8291 18706 18764 32573 32573 0.1234492287080684 RRRTPRWL 8 Unmodified _RRRTPRWL_ 0 0 0 REV__ENST00000532245.5_1_11:57529333-57563148:+|nuORF REV__ENST00000532245.5_1_11:57529333-57563148:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.8471069335938 2 570.84669 1139.67883 NaN NaN NaN NaN NaN NaN NaN 93.194 1 93.825 93.325 94.325 0.63115 0 0 0 0.99035 1 42873 42873 0.69038 0.088878 1 + 28983 17150 18707 18765 32574 32574 0.11457579779312255 RRRTPRWLRGR 11 Unmodified _RRRTPRWLRGR_ 0 0 0 REV__ENST00000532245.5_1_11:57529333-57563148:+|nuORF REV__ENST00000532245.5_1_11:57529333-57563148:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 755.4586791992188 2 755.458533 1508.90251 NaN NaN NaN NaN NaN NaN NaN 53.592 1 54.257 53.757 54.757 0.6644 0 0 0 1.0082 1 24508 24508 0 0 1 + 28984 17150 18708 18766 32575 32575 0.1684186821341882 RRRTRLSRWRW 11 Unmodified _RRRTRLSRWRW_ 0 0 0 REV__ENST00000344697.2_1_3:43122946-43147521:-|nuORF REV__ENST00000344697.2_1_3:43122946-43147521:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 814.9776611328125 2 814.97709 1627.93963 NaN NaN NaN NaN NaN NaN NaN 31.77 1 31.77 31.27 32.27 0 0 0 0 1.0082 1 14377 14377 0 0 1 + 28985 15497 18709 18767 32576 32576 0.1507753975918149 RRRTRLSRWRW 11 Unmodified _RRRTRLSRWRW_ 0 0 0 REV__ENST00000344697.2_1_3:43122946-43147521:-|nuORF REV__ENST00000344697.2_1_3:43122946-43147521:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 814.9808349609375 2 814.97709 1627.93963 NaN NaN NaN NaN NaN NaN NaN 31.918 1 31.918 31.418 32.418 0 0 0 0 1.0082 1 14447 14447 0 0 1 + 28986 15497 18709 18767 32577 32577 0.1507753975918149 RRRTRLSRWRW 11 Unmodified _RRRTRLSRWRW_ 0 0 0 REV__ENST00000344697.2_1_3:43122946-43147521:-|nuORF REV__ENST00000344697.2_1_3:43122946-43147521:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 814.9804077148438 2 814.97709 1627.93963 NaN NaN NaN NaN NaN NaN NaN 32.014 1 32.014 31.514 32.514 0 0 0 0 1.0082 1 14491 14491 0 0 1 + 28987 15497 18709 18767 32578 32578 0.1507753975918149 RRRTRLSRWRW 11 Unmodified _RRRTRLSRWRW_ 0 0 0 REV__ENST00000344697.2_1_3:43122946-43147521:-|nuORF REV__ENST00000344697.2_1_3:43122946-43147521:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 814.977294921875 2 814.97709 1627.93963 NaN NaN NaN NaN NaN NaN NaN 30.567 1 31.357 30.857 31.857 0.78921 0 0 0 1.0082 1 13804 13804 0 0 1 + 28988 15497 18709 18767 32579 32579 0.1507753975918149 RRRTSPPV 8 Unmodified _RRRTSPPV_ 0 0 0 nc|ENSG00000101298|O15079|SNPH;ENSG00000101298|ENST00000381867|SNPH nc|ENSG00000101298|O15079|SNPH nc|ENSG00000101298|O15079|SNPH MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.7914123535156 2 484.79105 967.567546 NaN NaN NaN NaN NaN NaN NaN 39.225 1 39.863 39.363 40.363 0.63778 0 0 0 0.93233 1 17929 17929 10.183 0.83596 1 28989 1282 18710 18768 32580 32580 0.08246520351372055 RRRVKEDKKKR 11 Unmodified _RRRVKEDKKKR_ 0 0 0 ENSG00000166164|ENST00000394688|BRD7;nc|ENSG00000166164|Q9NPI1-2|BRD7;BRD7|p.F178Vfs*5|1|0.33|ENSG00000166164|chr16:50350082-50350083|-/AC|frameshift_variant;ENST00000466133.1_1_3:159818637-159819075:+|nuORF ENSG00000166164|ENST00000394688|BRD7 ENSG00000166164|ENST00000394688|BRD7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 749.976806640625 2 749.973682 1497.93281 NaN NaN NaN NaN NaN NaN NaN 41.772 1 42.581 42.081 43.081 0.80855 0 0 0 1.0082 1 18960 18960 0.26902 0.26902 1 28990 4455 18711 18769 32581 32581 0.20376182087943562 RRRVRLLIFAL 11 Unmodified _RRRVRLLIFAL_ 0 0 0 REV__nc|ENSG00000130202|Q92692-2|NECTIN2 REV__nc|ENSG00000130202|Q92692-2|NECTIN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 706.9700317382812 2 706.96988 1411.92521 NaN NaN NaN NaN NaN NaN NaN 63.669 1 63.917 63.417 64.417 0.24803 0 0 0 1.008 1 29160 29160 0.35063 0 1 + 28991 17933 18712 18770 32582 32582 0.23572074558387612 RRRVRRRKFRP 11 Unmodified _RRRVRRRKFRP_ 0 0 0 REV__nc|ENSG00000203880|Q9NV79-3|PCMTD2 REV__nc|ENSG00000203880|Q9NV79-3|PCMTD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 792.0092163085938 2 792.008725 1582.0029 NaN NaN NaN NaN NaN NaN NaN 74.853 1 74.853 74.353 75.353 0 0 0 0 1.0082 1 36639 36639 0 0 1 + 28992 14393 18713 18771 32583 32583 0.23517525267084238 RRRWHWHWPRP 11 Unmodified _RRRWHWHWPRP_ 0 0 0 ENST00000321582.9_1_9:124855435-124855555:-|nuORF ENST00000321582.9_1_9:124855435-124855555:-|nuORF ENST00000321582.9_1_9:124855435-124855555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 835.4461059570312 2 835.445426 1668.8763 NaN NaN NaN NaN NaN NaN NaN 63.349 1 63.349 62.849 63.849 0 0 0 0 1.0082 1 29796 29796 0 0 1 28993 6931 18714 18772 32584 32584 0.06861599041963018 RRRWHWHWPRP 11 Unmodified _RRRWHWHWPRP_ 0 0 0 ENST00000321582.9_1_9:124855435-124855555:-|nuORF ENST00000321582.9_1_9:124855435-124855555:-|nuORF ENST00000321582.9_1_9:124855435-124855555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 835.4459228515625 2 835.445426 1668.8763 NaN NaN NaN NaN NaN NaN NaN 80.139 1 80.388 79.888 80.888 0.24947 0 0 0 1.0082 1 36900 36900 0 0 1 28994 6931 18714 18772 32585 32585 0.06861599041963018 RRRWIQRRPRW 11 Unmodified _RRRWIQRRPRW_ 0 0 0 ENST00000257749.8_2_6:90661229-90661412:-|nuORF ENST00000257749.8_2_6:90661229-90661412:-|nuORF ENST00000257749.8_2_6:90661229-90661412:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 555.9990234375 3 555.997697 1664.97126 NaN NaN NaN NaN NaN NaN NaN 97.64 1 97.711 97.211 98.211 0.070648 0 0 0 1.008 1 52270 52270 0.08335 0.08335 1 28995 6534 18715 18773 32586 32586 0.16537532513120823 RRRWQHRYWRE 11 Unmodified _RRRWQHRYWRE_ 0 0 0 ENST00000570069.5_1_16:1826945-1827407:+|nuORF;ENST00000561903.6_1_16:1826945-1828699:+|nuORF ENST00000570069.5_1_16:1826945-1827407:+|nuORF ENST00000570069.5_1_16:1826945-1827407:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 865.283447265625 2 864.956355 1727.89816 NaN NaN NaN NaN NaN NaN NaN 84.788 1 84.817 84.317 85.317 0.028603 0 0 0 1.0082 1 42373 42373 0 0 1 28996 8989 18716 18774 32587 32587 0.06332358999884491 RRRWRRRRFA 10 Unmodified _RRRWRRRRFA_ 0 0 0 REV__nc|ENSG00000135636|O75923-15|DYSF REV__nc|ENSG00000135636|O75923-15|DYSF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.97601318359375 3 505.975004 1514.90318 1.8302 0.00092602 0.21839 0.0001105 2.0486 0.0010365 505.9750885306063 101.4 0.083839 101.45 101.42 101.5 0.057198 7 3 3 0 0 0 0.94443 1 55069 55069 0 0 1 5310300 + 28997 12030 18717 18775 32588 32588 0.16632707653138823 RRRWRRRRPSL 11 Unmodified _RRRWRRRRPSL_ 0 0 0 REV__ENST00000375344.7_1_9:97136898-97137102:+|nuORF REV__ENST00000375344.7_1_9:97136898-97137102:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.249267578125 4 399.498904 1593.96651 2.8597 0.0011424 -0.22825 -9.1187E-05 2.6314 0.0010513 399.4989132440966 53.39 0.4379 53.39 53.083 53.521 0 37 29 2 0 0 0 0.13295 1 24523 24523 0.08335 0.010087 1 1641700 + 28998 15801 18718 18776 32589 32589 0.19328648370378687 RRRWRRRRPSL 11 Unmodified _RRRWRRRRPSL_ 0 0 0 REV__ENST00000375344.7_1_9:97136898-97137102:+|nuORF REV__ENST00000375344.7_1_9:97136898-97137102:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 399.498904 1593.96651 2.2695 0.00090667 0.18158 7.254E-05 2.4511 0.00097921 399.4990541286728 52.399 0.4578 53.21 52.846 53.304 0.81065 -0.090076 0.00037136 NaN 0.08335 39 31 2 NaN NaN NaN NaN 0 NaN NaN 0 706770 + 28999 15801 18718 18776 0.19328648370378687 RRRWRRWRRPL 11 Unmodified _RRRWRRWRRPL_ 0 0 0 UNC80|p.G758Lfs*13|1|0.04|ENSG00000144406|chr2:209820618-209820619|-/ATTA|frameshift_variant;UNC80|p.G757Vfs*14|1|0.06|ENSG00000144406|chr2:209820617-209820618|-/TCAT|frameshift_variant UNC80|p.G758Lfs*13|1|0.04|ENSG00000144406|chr2:209820618-209820619|-/ATTA|frameshift_variant;UNC80|p.G757Vfs*14|1|0.06|ENSG00000144406|chr2:209820617-209820618|-/TCAT|frameshift_variant UNC80|p.G758Lfs*13|1|0.04|ENSG00000144406|chr2:209820618-209820619|-/ATTA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 847.514404296875 2 847.514174 1693.0138 NaN NaN NaN NaN NaN NaN NaN 106.92 1 107.23 106.73 107.73 0.31628 0 0 0 1.0082 1 49331 49331 0 0 1 29000 18287;18286 18719 18777 32590 32590 0.19500927641365706 RRRWVRLRRRD 11 Unmodified _RRRWVRLRRRD_ 0 0 0 nc|ENSG00000135636|O75923-3|DYSF;nc|ENSG00000135636|O75923-9|DYSF;nc|ENSG00000135636|O75923|DYSF;nc|ENSG00000135636|O75923-14|DYSF;nc|ENSG00000135636|O75923-6|DYSF;nc|ENSG00000135636|O75923-12|DYSF;nc|ENSG00000135636|O75923-5|DYSF;nc|ENSG00000135636|O75923-11|DYSF;nc|ENSG00000135636|O75923-4|DYSF;nc|ENSG00000135636|O75923-10|DYSF;nc|ENSG00000135636|O75923-2|DYSF;nc|ENSG00000135636|O75923-8|DYSF;nc|ENSG00000135636|O75923-7|DYSF;ENSG00000135636|ENST00000410020|DYSF;nc|ENSG00000135636|O75923-15|DYSF nc|ENSG00000135636|O75923-3|DYSF nc|ENSG00000135636|O75923-3|DYSF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 812.9948120117188 2 812.995814 1623.97708 NaN NaN NaN NaN NaN NaN NaN 52.087 1 52.749 52.249 53.249 0.66198 0 0 0 1.0082 1 23818 23818 0 0 1 29001 2885 18720 18778 32591 32591 0.19004631024790797 RRRWWSVTWW 10 Unmodified _RRRWWSVTWW_ 0 0 0 ENST00000380486.3_2_21:43339056-43362335:-|nuORF ENST00000380486.3_2_21:43339056-43362335:-|nuORF ENST00000380486.3_2_21:43339056-43362335:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 759.53564453125 2 759.896912 1517.77927 NaN NaN NaN NaN NaN NaN NaN 106.52 1 106.84 106.34 107.34 0.31628 0 0 0 1.0015 1 49156 49156 0.40072 0.050084 1 29002 7467 18721 18779 32592 32592 0.04109192042301402 RRRWWWLQRRQ 11 Unmodified _RRRWWWLQRRQ_ 0 0 0 ENST00000591247.5_1_17:42113394-42113565:-|nuORF ENST00000591247.5_1_17:42113394-42113565:-|nuORF ENST00000591247.5_1_17:42113394-42113565:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 863.991455078125 2 863.984915 1725.95528 NaN NaN NaN NaN NaN NaN NaN 53.223 1 54.026 53.526 54.526 0.80351 0 0 0 1.0082 1 24268 24268 0 0 1 29003 9234 18722 18780 32593 32593 0.121338262762265 RRRWWWLQRRQ 11 Unmodified _RRRWWWLQRRQ_ 0 0 0 ENST00000591247.5_1_17:42113394-42113565:-|nuORF ENST00000591247.5_1_17:42113394-42113565:-|nuORF ENST00000591247.5_1_17:42113394-42113565:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 863.8360595703125 2 863.984915 1725.95528 NaN NaN NaN NaN NaN NaN NaN 55.359 1 56.146 55.646 56.646 0.78711 0 0 0 1.0082 1 25272 25272 0 0 1 29004 9234 18722 18780 32594 32594 0.121338262762265 RRRWYAWKERL 11 Unmodified _RRRWYAWKERL_ 0 0 0 REV__nc|ENSG00000003096|Q9P2N7-5|KLHL13 REV__nc|ENSG00000003096|Q9P2N7-5|KLHL13 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 810.4552001953125 2 810.455125 1618.8957 NaN NaN NaN NaN NaN NaN NaN 83.359 1 83.606 83.106 84.106 0.24722 0 0 0 1.0082 1 38370 38370 0 0 1 + 29005 17849 18723 18781 32595 32595 0.11100510542178199 RRRYLRRKER 10 Unmodified _RRRYLRRKER_ 0 0 0 ENSG00000284188|ENST00000640271|unknown ENSG00000284188|ENST00000640271|unknown ENSG00000284188|ENST00000640271|unknown MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.9759826660156 3 496.97467 1487.90218 2.6757 0.0013298 0.65871 0.00032736 3.3344 0.0016571 496.9748411446114 101.36 0.087013 101.36 101.31 101.4 0 7 3 3 0 0 0 0.94443 1 56007 56007 0 0 1 5040800 29006 6373 18724 18782 32596 32596 0.17774448493582895 RRRYVRRRGRR 11 Unmodified _RRRYVRRRGRR_ 0 0 0 REV__ENST00000469908.5_2_16:2390982-2391318:+|nuORF REV__ENST00000469908.5_2_16:2390982-2391318:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 793.9943237304688 2 793.993606 1585.97266 NaN NaN NaN NaN NaN NaN NaN 55.339 1 56.126 55.626 56.626 0.78711 0 0 0 1.0082 1 25262 25262 0 0 1 + 29007 16584 18725 18783 32597 32597 0.20311166601891273 RRRYYDRWKQQ 11 Unmodified _RRRYYDRWKQQ_ 0 0 0 REV__nc|ENSG00000066933|B2RTY4-5|MYO9A REV__nc|ENSG00000066933|B2RTY4-5|MYO9A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 827.935791015625 2 827.937296 1653.86004 NaN NaN NaN NaN NaN NaN NaN 58.199 1 58.968 58.468 59.468 0.76861 0 0 0 1.0082 1 26685 26685 0 0 1 + 29008 10446 18726 18784 32598 32598 0.059264282945150626 RRSGPGGLG 9 Unmodified _RRSGPGGLG_ 0 0 0 REV__ENST00000300737.8_1_11:3876932-3877493:+|nuORF REV__ENST00000300737.8_1_11:3876932-3877493:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 428.2627258300781 2 428.741025 855.467498 3.1828 0.0013646 0.59082 0.00025331 3.7736 0.0016179 428.74133938185764 85.548 0.43649 86.218 86.031 86.467 0.6706 63 20 4 0 0 0 0.11443 1 39430 39430 0 0 1 3332600 + 29009 15186 18727 18785 32599 32599 0.0339828301758871 RRSKERRMKQ 10 Unmodified _RRSKERRMKQ_ 0 0 0 ENSG00000089116|ENST00000261731|LHX5;ENSG00000273706|ENST00000614239|LHX1 ENSG00000089116|ENST00000261731|LHX5 ENSG00000089116|ENST00000261731|LHX5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 344.22869873046875 4 344.451931 1373.77862 2.3703 0.00081645 2.3409 0.00080632 4.7112 0.0016228 344.45284980650234 44.835 0.16331 44.835 44.759 44.922 0 11 8 2 0 0 0 0.12676 1 20472 20472 0.62683 0 1 193410 29010 1032 18728 18786 32600 32600 0.10668029330963691 RRSKERRMKQ 10 Unmodified _RRSKERRMKQ_ 0 0 0 ENSG00000089116|ENST00000261731|LHX5;ENSG00000273706|ENST00000614239|LHX1 ENSG00000089116|ENST00000261731|LHX5 ENSG00000089116|ENST00000261731|LHX5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 344.451931 1373.77862 2.2302 0.00076819 3.0258 0.0010422 5.2559 0.0018104 344.4530262187514 43.739 0.46073 44.554 44.238 44.699 0.81444 -0.1404 0.00022959 NaN 0.62683 33 24 2 NaN NaN NaN NaN 0 NaN NaN 0 291700 29011 1032 18728 18786 0.10668029330963691 RRSKKLAVVHF 11 Unmodified _RRSKKLAVVHF_ 0 0 0 ENSG00000160294|ENST00000291688|MCM3AP ENSG00000160294|ENST00000291688|MCM3AP ENSG00000160294|ENST00000291688|MCM3AP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 447.61260986328125 3 447.613967 1339.82007 NaN NaN NaN NaN NaN NaN NaN 72.11 1 72.814 72.314 73.314 0.70386 0 0 0 1.0059 1 34677 34677 1.2148 0.20126 1 29012 4053 18729 18787 32601 32601 0.1637553336190649 RRSKKVAYK 9 Unmodified _RRSKKVAYK_ 0 0 0 REV__ENST00000520464.1_1_5:172537514-172550222:+|nuORF REV__ENST00000520464.1_1_5:172537514-172550222:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.2277526855469 3 379.24013 1134.69856 NaN NaN NaN NaN NaN NaN NaN 55.368 1 56.036 55.536 56.536 0.66798 0 0 0 0.91059 1 25328 25328 0.96228 0 1 + 29013 13093 18730 18788 32602 32602 0.13659910999399472 RRSKRRPPKP 10 Unmodified _RRSKRRPPKP_ 0 0 0 REV__nc|ENSG00000152270|Q13370-2|PDE3B REV__nc|ENSG00000152270|Q13370-2|PDE3B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 426.6051025390625 3 426.605695 1276.79525 NaN NaN NaN NaN NaN NaN NaN 76.15 1 76.407 75.907 76.907 0.25704 0 0 0 1.0001 1 35057 35057 1.5923 1.1378 1 + 29014 12645 18731 18789 32603 32603 0.16792898279209112 RRSKSLSKVR 10 Unmodified _RRSKSLSKVR_ 0 0 0 REV__nc|ENSG00000172943|Q9UPP1-5|PHF8 REV__nc|ENSG00000172943|Q9UPP1-5|PHF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.25885009765625 3 406.258072 1215.75239 NaN NaN NaN NaN NaN NaN NaN 71.008 1 71.266 70.766 71.766 0.25786 0 0 0 0.99995 1 32523 32523 1.7423 0 1 + 29015 13574 18732 18790 32604 32604 0.15314083431121617 RRSKYDIL 8 Unmodified _RRSKYDIL_ 0 0 0 nc|ENSG00000077235|Q12789-3|GTF3C1;ENSG00000077235|ENST00000356183|GTF3C1;GTF3C1|p.Q1078Afs*25|1|0.3|ENSG00000077235|chr16:27489664-27489665|-/T|frameshift_variant nc|ENSG00000077235|Q12789-3|GTF3C1 nc|ENSG00000077235|Q12789-3|GTF3C1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.2083435058594 3 350.873336 1049.59818 NaN NaN NaN NaN NaN NaN NaN 21.796 1 22.077 21.577 22.577 0.28085 0 0 0 0.57508 1 9857 9857 26.268 0.86883 1 29016 858 18733 18791 32605 32605 0.07536253945750104 RRSKYDIL 8 Unmodified _RRSKYDIL_ 0 0 0 nc|ENSG00000077235|Q12789-3|GTF3C1;ENSG00000077235|ENST00000356183|GTF3C1;GTF3C1|p.Q1078Afs*25|1|0.3|ENSG00000077235|chr16:27489664-27489665|-/T|frameshift_variant nc|ENSG00000077235|Q12789-3|GTF3C1 nc|ENSG00000077235|Q12789-3|GTF3C1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.8736877441406 3 350.873336 1049.59818 NaN NaN NaN NaN NaN NaN NaN 21.82 1 22.101 21.601 22.601 0.28085 0 0 0 0.57508 1 9868 9868 26.268 5.8536 1 29017 858 18733 18791 32606 32606 0.07536253945750104 RRSKYDIL 8 Unmodified _RRSKYDIL_ 0 0 0 nc|ENSG00000077235|Q12789-3|GTF3C1;ENSG00000077235|ENST00000356183|GTF3C1;GTF3C1|p.Q1078Afs*25|1|0.3|ENSG00000077235|chr16:27489664-27489665|-/T|frameshift_variant nc|ENSG00000077235|Q12789-3|GTF3C1 nc|ENSG00000077235|Q12789-3|GTF3C1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.8734436035156 3 350.873336 1049.59818 NaN NaN NaN NaN NaN NaN NaN 21.912 1 22.192 21.692 22.692 0.28085 0 0 0 0.29949 1 9909 9909 36.127 11.136 1 29018 858 18733 18791 32607 32607 0.07536253945750104 RRSKYDIL 8 Unmodified _RRSKYDIL_ 0 0 0 nc|ENSG00000077235|Q12789-3|GTF3C1;ENSG00000077235|ENST00000356183|GTF3C1;GTF3C1|p.Q1078Afs*25|1|0.3|ENSG00000077235|chr16:27489664-27489665|-/T|frameshift_variant nc|ENSG00000077235|Q12789-3|GTF3C1 nc|ENSG00000077235|Q12789-3|GTF3C1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.8740539550781 3 350.873336 1049.59818 2.5136 0.00088196 -0.56426 -0.00019799 1.9493 0.00068397 350.8733166237801 21.553 0.097393 22.2 22.147 22.244 0.64714 22 20 2 0 0 0 0.42759 1 9791 9791 26.268 7.895 1 7214600 29019 858 18733 18791 32608 32608 0.07536253945750104 RRSLRHIFRRR 11 Unmodified _RRSLRHIFRRR_ 0 0 0 ENSG00000111252|ENST00000341259|SH2B3 ENSG00000111252|ENST00000341259|SH2B3 ENSG00000111252|ENST00000341259|SH2B3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 776.9795532226562 2 776.979633 1551.94471 NaN NaN NaN NaN NaN NaN NaN 82.861 1 82.861 82.361 83.361 0 0 0 0 1.0082 1 41608 41608 0 0 1 29020 1750 18734 18792 32609 32609 0.19081843621779626 RRSPYLWRRA 10 Unmodified _RRSPYLWRRA_ 0 0 0 ENSG00000183971|ENST00000566435|NPW ENSG00000183971|ENST00000566435|NPW ENSG00000183971|ENST00000566435|NPW MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 680.88916015625 2 680.889087 1359.76362 NaN NaN NaN NaN NaN NaN NaN 31.448 1 32.236 31.736 32.736 0.78879 0 0 0 1.0015 1 14203 14203 0.40072 0 1 29021 5417 18735 18793 32610 32610 0.09812905525245696 RRSQVRRSQRR 11 Unmodified _RRSQVRRSQRR_ 0 0 0 ENST00000510911.5_1_5:176513947-176515281:+|nuORF ENST00000510911.5_1_5:176513947-176515281:+|nuORF ENST00000510911.5_1_5:176513947-176515281:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 742.9397583007812 2 742.940705 1483.86686 NaN NaN NaN NaN NaN NaN NaN 41.904 1 41.904 41.404 42.404 0 0 0 0 1.008 1 19069 19069 0.30703 0 1 29022 8562 18736 18794 32611 32611 0.14427785965767725 RRSRLQRRQ 9 Unmodified _RRSRLQRRQ_ 0 0 0 nc|ENSG00000172830|Q8TE77-4|SSH3;nc|ENSG00000172830|Q8TE77-2|SSH3;ENSG00000172830|ENST00000308127|SSH3 nc|ENSG00000172830|Q8TE77-4|SSH3 nc|ENSG00000172830|Q8TE77-4|SSH3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 628.3846435546875 2 628.38196 1254.74937 NaN NaN NaN NaN NaN NaN NaN 90.282 1 90.955 90.455 91.455 0.67271 0 0 0 0.91238 1 41557 41557 0.52476 0 1 29023 4896 18737 18795 32612 32612 0.1321825309698852 RRSRRQRREFR 11 Unmodified _RRSRRQRREFR_ 0 0 0 nc|ENSG00000104859|Q8N2M8-3|CLASRP;nc|ENSG00000104859|Q8N2M8-4|CLASRP;ENSG00000104859|ENST00000221455|CLASRP nc|ENSG00000104859|Q8N2M8-3|CLASRP nc|ENSG00000104859|Q8N2M8-3|CLASRP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 801.9675903320312 2 801.967254 1601.91995 NaN NaN NaN NaN NaN NaN NaN 57.853 1 57.853 57.353 58.353 0 0 0 0 1.0082 1 26678 26678 0 0 1 29024 1455 18738 18796 32613 32613 0.14307163748435414 RRSRRRGP 8 Unmodified _RRSRRRGP_ 0 0 0 ENST00000311806.7_1_3:38207121-38207184:+|nuORF ENST00000311806.7_1_3:38207121-38207184:+|nuORF ENST00000311806.7_1_3:38207121-38207184:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 347.5474548339844 3 347.548068 1039.62238 NaN NaN NaN NaN NaN NaN NaN 54.151 1 54.151 53.651 54.651 0 0 0 0 0.99035 1 24834 24834 3.2813 0.28607 1 29025 6874 18739 18797 32614 32614 0.10414951942652806 RRSRSLARPKP 11 Unmodified _RRSRSLARPKP_ 0 0 0 REV__nc|ENSG00000087460|P84996|GNAS REV__nc|ENSG00000087460|P84996|GNAS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.94049072265625 3 441.940855 1322.80073 NaN NaN NaN NaN NaN NaN NaN 54.87 1 55.135 54.635 55.635 0.26543 0 0 0 1.0063 1 25082 25082 1.0136 0.088041 1 + 29026 17873 18740 18798 32615 32615 0.15224577071035128 RRSTKGLV 8 Unmodified _RRSTKGLV_ 0 0 0 REV__nc|ENSG00000114993|Q9BST9-3|RTKN REV__nc|ENSG00000114993|Q9BST9-3|RTKN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 458.78948974609375 2 458.787976 915.561398 3.0335 0.0013918 0.601 0.00027573 3.6345 0.0016675 458.788200292952 88.46 0.73123 88.712 88.39 89.122 0.25118 111 32 5 0 0 0 0.7471 1 40719 40719 0 0 1 49128000 + 29027 11339 18741 18799 32616 32616 0.10024002119871511 RRSTRRRRRRR 11 Unmodified _RRSTRRRRRRR_ 0 0 0 REV__ENST00000267984.3_1_15:81294113-81294617:+|nuORF REV__ENST00000267984.3_1_15:81294113-81294617:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 806.5076293945312 2 806.507412 1611.00027 NaN NaN NaN NaN NaN NaN NaN 77.643 1 77.897 77.397 78.397 0.25335 0 0 0 1.0082 1 35758 35758 0 0 1 + 29028 15045 18742 18800 32617 32617 0.21921069862128206 RRSVLPLLTR 10 Unmodified _RRSVLPLLTR_ 0 0 0 REV__nc|ENSG00000114270|Q02388-2|COL7A1 REV__nc|ENSG00000114270|Q02388-2|COL7A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.2650146484375 3 404.262935 1209.76697 NaN NaN NaN NaN NaN NaN NaN 41.114 1 41.918 41.418 42.418 0.80351 0 0 0 1.0006 1 18650 18650 1.2148 0.10508 1 + 29029 11319 18743 18801 32618 32618 0.1704815557927759 RRSVLVRNP 9 Unmodified _RRSVLVRNP_ 0 0 0 ENSG00000198816|ENST00000597229|ZNF358 ENSG00000198816|ENST00000597229|ZNF358 ENSG00000198816|ENST00000597229|ZNF358 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.22796630859375 3 366.228113 1095.66251 NaN NaN NaN NaN NaN NaN NaN 67.115 1 67.365 66.865 67.865 0.2501 0 0 0 0.88916 1 30745 30745 3.8763 1.033 1 29030 5941 18744 18802 32619 32619 0.11850453822557938 RRTACPIL 8 Unmodified _RRTACPIL_ 0 0 0 REV__ENST00000358600.7_1_19:14518929-14519079:+|nuORF REV__ENST00000358600.7_1_19:14518929-14519079:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 310.51690673828125 3 310.516495 928.527655 NaN NaN NaN NaN NaN NaN NaN 62.646 1 62.895 62.395 63.395 0.24965 0 0 0 0.99035 1 28684 28684 1.4819 0 1 + 29031 15582 18745 18803 32620 32620 0.060532573564501035 RRTAQEPRRIA 11 Unmodified _RRTAQEPRRIA_ 0 0 0 ENST00000597578.1_1_16:86524111-86542471:-|nuORF;ENST00000599749.5_1_16:86524596-86542567:-|nuORF ENST00000597578.1_1_16:86524111-86542471:-|nuORF ENST00000597578.1_1_16:86524111-86542471:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.93365478515625 3 451.932248 1352.77491 NaN NaN NaN NaN NaN NaN NaN 94.521 1 94.78 94.28 95.28 0.25975 0 0 0 1.0079 1 43434 43434 0.40827 0.24894 1 29032 9286 18746 18804 32621 32621 0.11263682828757737 RRTAQEPRRIA 11 Unmodified _RRTAQEPRRIA_ 0 0 0 ENST00000597578.1_1_16:86524111-86542471:-|nuORF;ENST00000599749.5_1_16:86524596-86542567:-|nuORF ENST00000597578.1_1_16:86524111-86542471:-|nuORF ENST00000597578.1_1_16:86524111-86542471:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 452.26849365234375 3 451.932248 1352.77491 3.2373 0.0014631 0.92847 0.00041961 4.1658 0.0018827 452.2669545459331 93.121 1.8282 93.768 93.054 94.882 0.64714 177 95 2 0 0 0 0.91359 2 42782 42782;42835 0.40827 0.24894 1 1111700 29033 9286 18746 18804 32622;32623 32622 0.11263682828757737 RRTLAAGP 8 Unmodified _RRTLAAGP_ 0 0 0 REV__ENST00000348165.9_1_7:157061377-157061479:+|nuORF REV__ENST00000348165.9_1_7:157061377-157061479:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.25506591796875 2 421.253769 840.492984 2.791 0.0011757 0.63398 0.00026707 3.4249 0.0014428 421.2540039124337 77.238 0.42274 77.493 77.356 77.779 0.25533 39 29 2 0 0 0 0.7441 1 35527 35527 2.3027 0 1 457260 + 29034 15517 18747 18805 32624 32624 0.06635757539982023 RRTLAAGP 8 Unmodified _RRTLAAGP_ 0 0 0 REV__ENST00000348165.9_1_7:157061377-157061479:+|nuORF REV__ENST00000348165.9_1_7:157061377-157061479:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.254638671875 2 421.253769 840.492984 2.7513 0.001159 0.32029 0.00013492 3.0716 0.0012939 421.2537947049987 76.912 0.43361 77.575 77.44 77.873 0.66303 48 36 2 0 0 0 0.7441 1 35495 35495 2.3027 0 1 381720 + 29035 15517 18747 18805 32625 32625 0.06635757539982023 RRTRRRSLLLL 11 Unmodified _RRTRRRSLLLL_ 0 0 0 REV__ENSG00000124212|ENST00000244043|PTGIS REV__ENSG00000124212|ENST00000244043|PTGIS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1439.9483642578125 1 1439.93936 1438.93208 3.3288 0.0047933 2.8899 0.0041613 6.2188 0.0089546 1439.9480866838767 2.203 0.026042 2.203 2.1801 2.2061 0 4 2 2 0 0 0 0.91489 1 1006 1006 0 0 1 30509 + 29036 11643 18748 18806 32626 32626 0.230173874389493 RRTSLISL 8 Unmodified _RRTSLISL_ 0 0 0 ENST00000376327.5_1_X:49030724-49031098:+|nuORF ENST00000376327.5_1_X:49030724-49031098:+|nuORF ENST00000376327.5_1_X:49030724-49031098:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.2972106933594 2 473.295633 944.576714 2.908 0.0013763 0.93023 0.00044027 3.8382 0.0018166 473.29580306082045 56.992 0.30361 57.256 57.008 57.311 0.26444 19 12 2 0 0 0 0.69597 1 26043 26043 8.5933 1.8701 1 1277100 29037 7398 18749 18807 32627 32627 0.1022086891704248 RRTWRQQKERR 11 Unmodified _RRTWRQQKERR_ 0 0 0 REV__ENSG00000100888|ENST00000646647|CHD8 REV__ENSG00000100888|ENST00000646647|CHD8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 800.4567260742188 2 800.456188 1598.89782 NaN NaN NaN NaN NaN NaN NaN 98.073 1 98.672 98.172 99.172 0.59885 0 0 0 1.0082 1 45157 45157 0 0 1 + 29038 10853 18750 18808 32628 32628 0.12232939280011124 RRVFFRNIKIL 11 Unmodified _RRVFFRNIKIL_ 0 0 0 ENSG00000137975|ENST00000370565|CLCA2 ENSG00000137975|ENST00000370565|CLCA2 ENSG00000137975|ENST00000370565|CLCA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 731.4044189453125 2 731.461887 1460.90922 NaN NaN NaN NaN NaN NaN NaN 88.813 1 88.813 88.313 89.313 0 0 0 0 1.0082 1 46195 46195 0.30703 0 1 29039 3062 18751 18809 32629 32629 0.19720368321463866 RRVGLWRKRKF 11 Unmodified _RRVGLWRKRKF_ 0 0 0 ENST00000455089.5_1_7:55087016-55210125:+|nuORF ENST00000455089.5_1_7:55087016-55210125:+|nuORF ENST00000455089.5_1_7:55087016-55210125:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 751.4705810546875 2 751.470578 1500.9266 NaN NaN NaN NaN NaN NaN NaN 77.592 1 77.845 77.345 78.345 0.25335 0 0 0 1.0082 1 35734 35734 0 0 1 29040 8042 18752 18810 32630 32630 0.19617708647092513 RRVKKRRKPKA 11 Unmodified _RRVKKRRKPKA_ 0 0 0 REV__ENSG00000135392|ENST00000678005|DNAJC14 REV__ENSG00000135392|ENST00000678005|DNAJC14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 711.984375 2 711.983853 1421.95315 NaN NaN NaN NaN NaN NaN NaN 50.351 1 51.008 50.508 51.508 0.65735 0 0 0 1.0082 1 23025 23025 0 0 1 + 29041 12014 18753 18811 32631 32631 0.2590539753844041 RRVKKSRSKKR 11 Unmodified _RRVKKSRSKKR_ 0 0 0 REV__nc|ENSG00000115750|Q53T94-3|TAF1B REV__nc|ENSG00000115750|Q53T94-3|TAF1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 714.9715576171875 2 714.970942 1427.92733 NaN NaN NaN NaN NaN NaN NaN 75.3 1 75.965 75.465 76.465 0.6644 0 0 0 1.0082 1 34687 34687 0 0 1 + 29042 11382 18754 18812 32632 32632 0.23048503296149647 RRVLLRWYQRR 11 Unmodified _RRVLLRWYQRR_ 0 0 0 ENST00000379847.3_9:32573035-32573095:-|nuORF ENST00000379847.3_9:32573035-32573095:-|nuORF ENST00000379847.3_9:32573035-32573095:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 801.486328125 2 801.484217 1600.95388 NaN NaN NaN NaN NaN NaN NaN 70.483 1 71.187 70.687 71.687 0.70386 0 0 0 1.0082 1 33777 33777 0 0 1 29043 7456 18755 18813 32633 32633 0.17744192187478802 RRVLLRWYQRR 11 Unmodified _RRVLLRWYQRR_ 0 0 0 ENST00000379847.3_9:32573035-32573095:-|nuORF ENST00000379847.3_9:32573035-32573095:-|nuORF ENST00000379847.3_9:32573035-32573095:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 801.4843139648438 2 801.484217 1600.95388 NaN NaN NaN NaN NaN NaN NaN 97.11 1 97.388 96.888 97.888 0.27778 0 0 0 1.0082 1 44606 44606 0 0 1 29044 7456 18755 18813 32634 32634 0.17744192187478802 RRVLVLMASKH 11 Unmodified _RRVLVLMASKH_ 0 0 0 nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000100796|Q6IN85-2|PPP4R3A;ENSG00000100796|ENST00000554943|PPP4R3A;nc|ENSG00000100796|Q6IN85-4|PPP4R3A nc|ENSG00000100796|Q6IN85-5|PPP4R3A nc|ENSG00000100796|Q6IN85-5|PPP4R3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.4543762207031 4 328.202588 1308.78124 2.1785 0.00071498 0.94582 0.00031042 3.1243 0.0010254 328.2027390555365 46.834 0.52359 47.663 47.421 47.944 0.82915 103 31 4 0 0 0 0.91068 1 21258 21258 1.3296 0.82369 1 4883200 29045 1241 18756 18814 32635 32635 0.13920484735899663 RRVLVLMASKH 11 Unmodified _RRVLVLMASKH_ 0 0 0 nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000100796|Q6IN85-2|PPP4R3A;ENSG00000100796|ENST00000554943|PPP4R3A;nc|ENSG00000100796|Q6IN85-4|PPP4R3A nc|ENSG00000100796|Q6IN85-5|PPP4R3A nc|ENSG00000100796|Q6IN85-5|PPP4R3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.2685546875 3 437.267691 1308.78124 2.8283 0.0012367 0.24236 0.00010598 3.0706 0.0013427 437.26768406317467 48.763 0.49987 49.59 49.505 50.005 0.82705 51 27 2 0 0 0 0.91068 1 22283 22283 1.3296 0 1 1977200 29046 1241 18756 18814 32636 32636 0.13920484735899663 RRVLVLMASKH 11 Unmodified _RRVLVLMASKH_ 0 0 0 nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000100796|Q6IN85-2|PPP4R3A;ENSG00000100796|ENST00000554943|PPP4R3A;nc|ENSG00000100796|Q6IN85-4|PPP4R3A nc|ENSG00000100796|Q6IN85-5|PPP4R3A nc|ENSG00000100796|Q6IN85-5|PPP4R3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.20343017578125 4 328.202588 1308.78124 2.3124 0.00075895 0.58612 0.00019236 2.8986 0.00095132 328.20269904399976 48.44 1.4679 49.267 48.785 50.253 0.82705 263 76 5 0 0 0 0.91137 1 22328 22328 1.1098 0.33322 1 13119000 29047 1241 18756 18814 32637 32637 0.13920484735899663 RRVLVLMASKH 11 Unmodified _RRVLVLMASKH_ 0 0 0 nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000100796|Q6IN85-2|PPP4R3A;ENSG00000100796|ENST00000554943|PPP4R3A;nc|ENSG00000100796|Q6IN85-4|PPP4R3A nc|ENSG00000100796|Q6IN85-5|PPP4R3A nc|ENSG00000100796|Q6IN85-5|PPP4R3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.26885986328125 3 437.267691 1308.78124 2.2957 0.0010038 1.1902 0.00052042 3.4859 0.0015243 437.2681490880172 51.244 0.46684 52.061 51.897 52.364 0.81738 56 35 2 0 0 0 0.91137 1 23321 23321 1.1098 1.1098 1 1490900 29048 1241 18756 18814 32638 32638 0.13920484735899663 RRVLVLMASKH 11 Unmodified _RRVLVLMASKH_ 0 0 0 nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000100796|Q6IN85-2|PPP4R3A;ENSG00000100796|ENST00000554943|PPP4R3A;nc|ENSG00000100796|Q6IN85-4|PPP4R3A nc|ENSG00000100796|Q6IN85-5|PPP4R3A nc|ENSG00000100796|Q6IN85-5|PPP4R3A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.20391845703125 4 328.202588 1308.78124 2.5433 0.00083471 0.92017 0.000302 3.4634 0.0011367 328.20282248775595 48.379 0.38772 48.641 48.428 48.816 0.26209 93 24 4 0 0 0 0.13295 1 22059 22059 1.3296 0 1 8015800 29049 1241 18756 18814 32639 32639 0.13920484735899663 RRVLVLMASKH 11 Unmodified _RRVLVLMASKH_ 0 0 0 nc|ENSG00000100796|Q6IN85-5|PPP4R3A;nc|ENSG00000100796|Q6IN85-2|PPP4R3A;ENSG00000100796|ENST00000554943|PPP4R3A;nc|ENSG00000100796|Q6IN85-4|PPP4R3A nc|ENSG00000100796|Q6IN85-5|PPP4R3A nc|ENSG00000100796|Q6IN85-5|PPP4R3A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 328.202588 1308.78124 2.2143 0.00072674 1.3746 0.00045115 3.5889 0.0011779 328.2028988361119 47.377 0.47102 48.03 47.701 48.172 0.65356 0.17302 0.00050593 NaN 1.3296 87 22 5 NaN NaN NaN NaN 0 NaN NaN 0 5597800 29050 1241 18756 18814 0.13920484735899663 RRVPRRRLRRR 11 Unmodified _RRVPRRRLRRR_ 0 0 0 ENST00000243082.4_1_12:54367506-54369194:+|nuORF ENST00000243082.4_1_12:54367506-54369194:+|nuORF ENST00000243082.4_1_12:54367506-54369194:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 789.017333984375 2 789.019624 1576.02469 NaN NaN NaN NaN NaN NaN NaN 74.109 1 74.796 74.296 75.296 0.68662 0 0 0 1.0082 1 35804 35804 0 0 1 29051 6471 18757 18815 32640 32640 0.25972330015633815 RRVRGKSGGR 10 Unmodified _RRVRGKSGGR_ 0 0 0 REV__ENST00000475577.5_1_6:10527835-10626837:+|nuORF REV__ENST00000475577.5_1_6:10527835-10626837:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.8422241210938 2 564.844679 1127.67481 NaN NaN NaN NaN NaN NaN NaN 10.843 1 10.843 10.343 11.343 0 0 0 0 1.002 1 4773 4773 0 0 1 + 29052 16643 18758 18816 32641 32641 0.11607490285632593 RRVRKRRARLV 11 Unmodified _RRVRKRRARLV_ 0 0 0 ENSG00000162738|ENST00000368061|VANGL2 ENSG00000162738|ENST00000368061|VANGL2 ENSG00000162738|ENST00000368061|VANGL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 733.4925537109375 2 733.492376 1464.9702 NaN NaN NaN NaN NaN NaN NaN 16.951 1 17.256 16.756 17.756 0.30438 0 0 0 1.0082 1 7676 7676 0 0 1 29053 4163 18759 18817 32642 32642 0.25631318144246507 RRVRPVSLMVP 11 Unmodified _RRVRPVSLMVP_ 0 0 0 nc|ENSG00000151067|Q13936-2|CACNA1C;nc|ENSG00000151067|Q13936-6|CACNA1C;nc|ENSG00000151067|Q13936-34|CACNA1C;nc|ENSG00000151067|Q13936-28|CACNA1C;nc|ENSG00000151067|Q13936-36|CACNA1C;nc|ENSG00000151067|Q13936-33|CACNA1C;nc|ENSG00000151067|Q13936-14|CACNA1C;nc|ENSG00000151067|Q13936-18|CACNA1C;nc|ENSG00000151067|Q13936-11|CACNA1C;nc|ENSG00000151067|Q13936-5|CACNA1C;ENSG00000151067|ENST00000399655|CACNA1C;nc|ENSG00000151067|Q13936-17|CACNA1C;nc|ENSG00000151067|Q13936-4|CACNA1C;nc|ENSG00000151067|Q13936-8|CACNA1C;nc|ENSG00000151067|Q13936|CACNA1C;nc|ENSG00000151067|Q13936-3|CACNA1C;nc|ENSG00000151067|Q13936-9|CACNA1C;nc|ENSG00000151067|Q13936-10|CACNA1C;nc|ENSG00000151067|Q13936-31|CACNA1C;nc|ENSG00000151067|Q13936-30|CACNA1C;nc|ENSG00000151067|Q13936-13|CACNA1C;nc|ENSG00000151067|Q13936-27|CACNA1C;nc|ENSG00000151067|Q13936-24|CACNA1C;nc|ENSG00000151067|Q13936-19|CACNA1C;nc|ENSG00000151067|Q13936-35|CACNA1C;nc|ENSG00000151067|Q13936-20|CACNA1C;nc|ENSG00000151067|Q13936-21|CACNA1C;nc|ENSG00000151067|Q13936-22|CACNA1C;nc|ENSG00000151067|Q13936-23|CACNA1C;nc|ENSG00000151067|Q13936-37|CACNA1C;nc|ENSG00000151067|Q13936-7|CACNA1C;nc|ENSG00000151067|Q13936-26|CACNA1C;nc|ENSG00000151067|Q13936-15|CACNA1C;nc|ENSG00000151067|Q13936-16|CACNA1C;nc|ENSG00000151067|Q13936-29|CACNA1C;nc|ENSG00000151067|Q13936-25|CACNA1C;nc|ENSG00000151067|Q13936-32|CACNA1C nc|ENSG00000151067|Q13936-2|CACNA1C nc|ENSG00000151067|Q13936-2|CACNA1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.6037902832031 3 437.267691 1308.78124 2.7767 0.0012142 0.5281 0.00023092 3.3048 0.0014451 437.26775386581687 47.867 0.43262 47.867 47.678 48.111 0 62 25 3 0 0 0 0.86186 2 21865 21865;21921 4.1166 2.1891 1 3708400 29054 3689 18760 18818 32643;32644 32643 0.13920484735899663 RRVRPVSLMVP 11 Unmodified _RRVRPVSLMVP_ 0 0 0 nc|ENSG00000151067|Q13936-2|CACNA1C;nc|ENSG00000151067|Q13936-6|CACNA1C;nc|ENSG00000151067|Q13936-34|CACNA1C;nc|ENSG00000151067|Q13936-28|CACNA1C;nc|ENSG00000151067|Q13936-36|CACNA1C;nc|ENSG00000151067|Q13936-33|CACNA1C;nc|ENSG00000151067|Q13936-14|CACNA1C;nc|ENSG00000151067|Q13936-18|CACNA1C;nc|ENSG00000151067|Q13936-11|CACNA1C;nc|ENSG00000151067|Q13936-5|CACNA1C;ENSG00000151067|ENST00000399655|CACNA1C;nc|ENSG00000151067|Q13936-17|CACNA1C;nc|ENSG00000151067|Q13936-4|CACNA1C;nc|ENSG00000151067|Q13936-8|CACNA1C;nc|ENSG00000151067|Q13936|CACNA1C;nc|ENSG00000151067|Q13936-3|CACNA1C;nc|ENSG00000151067|Q13936-9|CACNA1C;nc|ENSG00000151067|Q13936-10|CACNA1C;nc|ENSG00000151067|Q13936-31|CACNA1C;nc|ENSG00000151067|Q13936-30|CACNA1C;nc|ENSG00000151067|Q13936-13|CACNA1C;nc|ENSG00000151067|Q13936-27|CACNA1C;nc|ENSG00000151067|Q13936-24|CACNA1C;nc|ENSG00000151067|Q13936-19|CACNA1C;nc|ENSG00000151067|Q13936-35|CACNA1C;nc|ENSG00000151067|Q13936-20|CACNA1C;nc|ENSG00000151067|Q13936-21|CACNA1C;nc|ENSG00000151067|Q13936-22|CACNA1C;nc|ENSG00000151067|Q13936-23|CACNA1C;nc|ENSG00000151067|Q13936-37|CACNA1C;nc|ENSG00000151067|Q13936-7|CACNA1C;nc|ENSG00000151067|Q13936-26|CACNA1C;nc|ENSG00000151067|Q13936-15|CACNA1C;nc|ENSG00000151067|Q13936-16|CACNA1C;nc|ENSG00000151067|Q13936-29|CACNA1C;nc|ENSG00000151067|Q13936-25|CACNA1C;nc|ENSG00000151067|Q13936-32|CACNA1C nc|ENSG00000151067|Q13936-2|CACNA1C nc|ENSG00000151067|Q13936-2|CACNA1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.2691345214844 3 437.267691 1308.78124 2.8836 0.0012609 0.44427 0.00019427 3.3279 0.0014552 437.26774739425275 49.355 1.0501 49.355 49.022 50.072 0 163 49 4 0 0 0 0.904 1 22792 22792 2.2527 0.16672 1 8602100 29055 3689 18760 18818 32645 32645 0.13920484735899663 RRVRPVSLMVP 11 Unmodified _RRVRPVSLMVP_ 0 0 0 nc|ENSG00000151067|Q13936-2|CACNA1C;nc|ENSG00000151067|Q13936-6|CACNA1C;nc|ENSG00000151067|Q13936-34|CACNA1C;nc|ENSG00000151067|Q13936-28|CACNA1C;nc|ENSG00000151067|Q13936-36|CACNA1C;nc|ENSG00000151067|Q13936-33|CACNA1C;nc|ENSG00000151067|Q13936-14|CACNA1C;nc|ENSG00000151067|Q13936-18|CACNA1C;nc|ENSG00000151067|Q13936-11|CACNA1C;nc|ENSG00000151067|Q13936-5|CACNA1C;ENSG00000151067|ENST00000399655|CACNA1C;nc|ENSG00000151067|Q13936-17|CACNA1C;nc|ENSG00000151067|Q13936-4|CACNA1C;nc|ENSG00000151067|Q13936-8|CACNA1C;nc|ENSG00000151067|Q13936|CACNA1C;nc|ENSG00000151067|Q13936-3|CACNA1C;nc|ENSG00000151067|Q13936-9|CACNA1C;nc|ENSG00000151067|Q13936-10|CACNA1C;nc|ENSG00000151067|Q13936-31|CACNA1C;nc|ENSG00000151067|Q13936-30|CACNA1C;nc|ENSG00000151067|Q13936-13|CACNA1C;nc|ENSG00000151067|Q13936-27|CACNA1C;nc|ENSG00000151067|Q13936-24|CACNA1C;nc|ENSG00000151067|Q13936-19|CACNA1C;nc|ENSG00000151067|Q13936-35|CACNA1C;nc|ENSG00000151067|Q13936-20|CACNA1C;nc|ENSG00000151067|Q13936-21|CACNA1C;nc|ENSG00000151067|Q13936-22|CACNA1C;nc|ENSG00000151067|Q13936-23|CACNA1C;nc|ENSG00000151067|Q13936-37|CACNA1C;nc|ENSG00000151067|Q13936-7|CACNA1C;nc|ENSG00000151067|Q13936-26|CACNA1C;nc|ENSG00000151067|Q13936-15|CACNA1C;nc|ENSG00000151067|Q13936-16|CACNA1C;nc|ENSG00000151067|Q13936-29|CACNA1C;nc|ENSG00000151067|Q13936-25|CACNA1C;nc|ENSG00000151067|Q13936-32|CACNA1C nc|ENSG00000151067|Q13936-2|CACNA1C nc|ENSG00000151067|Q13936-2|CACNA1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2693786621094 3 437.267691 1308.78124 3.0872 0.00135 0.56624 0.0002476 3.6535 0.0015976 437.60229076292666 47.604 0.77988 47.868 47.28 48.06 0.26363 108 43 4 0 0 0 0.86798 3 21670 21569;21619;21670 3.8459 2.2527 1 5192500 29056 3689 18760 18818 32646;32647;32648 32648 0.13920484735899663 RRVRPVSLMVP 11 Unmodified _RRVRPVSLMVP_ 0 0 0 nc|ENSG00000151067|Q13936-2|CACNA1C;nc|ENSG00000151067|Q13936-6|CACNA1C;nc|ENSG00000151067|Q13936-34|CACNA1C;nc|ENSG00000151067|Q13936-28|CACNA1C;nc|ENSG00000151067|Q13936-36|CACNA1C;nc|ENSG00000151067|Q13936-33|CACNA1C;nc|ENSG00000151067|Q13936-14|CACNA1C;nc|ENSG00000151067|Q13936-18|CACNA1C;nc|ENSG00000151067|Q13936-11|CACNA1C;nc|ENSG00000151067|Q13936-5|CACNA1C;ENSG00000151067|ENST00000399655|CACNA1C;nc|ENSG00000151067|Q13936-17|CACNA1C;nc|ENSG00000151067|Q13936-4|CACNA1C;nc|ENSG00000151067|Q13936-8|CACNA1C;nc|ENSG00000151067|Q13936|CACNA1C;nc|ENSG00000151067|Q13936-3|CACNA1C;nc|ENSG00000151067|Q13936-9|CACNA1C;nc|ENSG00000151067|Q13936-10|CACNA1C;nc|ENSG00000151067|Q13936-31|CACNA1C;nc|ENSG00000151067|Q13936-30|CACNA1C;nc|ENSG00000151067|Q13936-13|CACNA1C;nc|ENSG00000151067|Q13936-27|CACNA1C;nc|ENSG00000151067|Q13936-24|CACNA1C;nc|ENSG00000151067|Q13936-19|CACNA1C;nc|ENSG00000151067|Q13936-35|CACNA1C;nc|ENSG00000151067|Q13936-20|CACNA1C;nc|ENSG00000151067|Q13936-21|CACNA1C;nc|ENSG00000151067|Q13936-22|CACNA1C;nc|ENSG00000151067|Q13936-23|CACNA1C;nc|ENSG00000151067|Q13936-37|CACNA1C;nc|ENSG00000151067|Q13936-7|CACNA1C;nc|ENSG00000151067|Q13936-26|CACNA1C;nc|ENSG00000151067|Q13936-15|CACNA1C;nc|ENSG00000151067|Q13936-16|CACNA1C;nc|ENSG00000151067|Q13936-29|CACNA1C;nc|ENSG00000151067|Q13936-25|CACNA1C;nc|ENSG00000151067|Q13936-32|CACNA1C nc|ENSG00000151067|Q13936-2|CACNA1C nc|ENSG00000151067|Q13936-2|CACNA1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2694396972656 3 437.267691 1308.78124 3.0737 0.001344 0.35591 0.00015563 3.4296 0.0014997 437.26766316545127 46.951 0.67994 47.603 47.196 47.876 0.65219 76 36 3 0 0 0 0.89544 2 21369 21369;21527 2.6312 1.8547 1 4995300 29057 3689 18760 18818 32649;32650 32649 0.13920484735899663 RRVRPVSLMVP 11 Unmodified _RRVRPVSLMVP_ 0 0 0 nc|ENSG00000151067|Q13936-2|CACNA1C;nc|ENSG00000151067|Q13936-6|CACNA1C;nc|ENSG00000151067|Q13936-34|CACNA1C;nc|ENSG00000151067|Q13936-28|CACNA1C;nc|ENSG00000151067|Q13936-36|CACNA1C;nc|ENSG00000151067|Q13936-33|CACNA1C;nc|ENSG00000151067|Q13936-14|CACNA1C;nc|ENSG00000151067|Q13936-18|CACNA1C;nc|ENSG00000151067|Q13936-11|CACNA1C;nc|ENSG00000151067|Q13936-5|CACNA1C;ENSG00000151067|ENST00000399655|CACNA1C;nc|ENSG00000151067|Q13936-17|CACNA1C;nc|ENSG00000151067|Q13936-4|CACNA1C;nc|ENSG00000151067|Q13936-8|CACNA1C;nc|ENSG00000151067|Q13936|CACNA1C;nc|ENSG00000151067|Q13936-3|CACNA1C;nc|ENSG00000151067|Q13936-9|CACNA1C;nc|ENSG00000151067|Q13936-10|CACNA1C;nc|ENSG00000151067|Q13936-31|CACNA1C;nc|ENSG00000151067|Q13936-30|CACNA1C;nc|ENSG00000151067|Q13936-13|CACNA1C;nc|ENSG00000151067|Q13936-27|CACNA1C;nc|ENSG00000151067|Q13936-24|CACNA1C;nc|ENSG00000151067|Q13936-19|CACNA1C;nc|ENSG00000151067|Q13936-35|CACNA1C;nc|ENSG00000151067|Q13936-20|CACNA1C;nc|ENSG00000151067|Q13936-21|CACNA1C;nc|ENSG00000151067|Q13936-22|CACNA1C;nc|ENSG00000151067|Q13936-23|CACNA1C;nc|ENSG00000151067|Q13936-37|CACNA1C;nc|ENSG00000151067|Q13936-7|CACNA1C;nc|ENSG00000151067|Q13936-26|CACNA1C;nc|ENSG00000151067|Q13936-15|CACNA1C;nc|ENSG00000151067|Q13936-16|CACNA1C;nc|ENSG00000151067|Q13936-29|CACNA1C;nc|ENSG00000151067|Q13936-25|CACNA1C;nc|ENSG00000151067|Q13936-32|CACNA1C nc|ENSG00000151067|Q13936-2|CACNA1C nc|ENSG00000151067|Q13936-2|CACNA1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2677001953125 3 437.267691 1308.78124 3.1089 0.0013594 -0.81685 -0.00035718 2.2921 0.0010023 437.2670080248682 47.753 0.4466 48.406 48.172 48.619 0.65356 53 19 3 0 0 0 0.904 1 21833 21833 2.2527 1.0379 1 1294100 29058 3689 18760 18818 32651 32651 0.13920484735899663 RRVVPVLLLLI 11 Unmodified _RRVVPVLLLLI_ 0 0 0 REV__ENST00000421092.1_1_20:58517212-58517281:+|nuORF REV__ENST00000421092.1_1_20:58517212-58517281:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.9541015625 2 645.952833 1289.89111 NaN NaN NaN NaN NaN NaN NaN 14.436 1 14.662 14.162 15.162 0.22622 0 0 0 1.0082 1 6344 6344 0 0 1 + 29059 16175 18761 18819 32652 32652 0.257762333467781 RRVYRRRRIK 10 Unmodified _RRVYRRRRIK_ 0 0 0 ENST00000261192.11_1_12:25054751-25054805:-|nuORF ENST00000261192.11_1_12:25054751-25054805:-|nuORF ENST00000261192.11_1_12:25054751-25054805:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 730.2192993164062 2 729.971277 1457.928 NaN NaN NaN NaN NaN NaN NaN 102.31 1 102.91 102.41 103.41 0.59759 0 0 0 1.0015 1 47360 47360 0.40072 0.093686 1 29060 6551 18762 18820 32653 32653 0.21735342735860286 RRVYRRRRIKR 11 Unmodified _RRVYRRRRIKR_ 0 0 0 ENST00000261192.11_1_12:25054751-25054805:-|nuORF ENST00000261192.11_1_12:25054751-25054805:-|nuORF ENST00000261192.11_1_12:25054751-25054805:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 808.0191650390625 2 808.021832 1614.02911 NaN NaN NaN NaN NaN NaN NaN 81.536 1 82.196 81.696 82.696 0.65998 0 0 0 1.0082 1 37570 37570 0 0 1 29061 6551 18763 18821 32654 32654 0.24665794438556077 RRWCPWWCRPW 11 Unmodified _RRWCPWWCRPW_ 0 0 0 REV__ENST00000534167.5_1_8:145168880-145169283:+|nuORF REV__ENST00000534167.5_1_8:145168880-145169283:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 816.385009765625 2 816.3848 1630.75505 NaN NaN NaN NaN NaN NaN NaN 62.334 1 62.334 61.834 62.834 0 0 0 0 1.0082 1 29203 29203 0 0 1 + 29062 17165 18764 18822 32655 32655 -0.03510107707234056 RRWDYKERYLE 11 Unmodified _RRWDYKERYLE_ 0 0 0 REV__ENSG00000091009|ENST00000265271|RBM27 REV__ENSG00000091009|ENST00000265271|RBM27 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.3056640625 2 807.412788 1612.81102 NaN NaN NaN NaN NaN NaN NaN 79.193 1 79.193 78.693 79.693 0 0 0 0 1.0082 1 39091 39091 0 0 1 + 29063 10723 18765 18823 32656 32656 0.029130952149216682 RRWEWGWRRSW 11 Unmodified _RRWEWGWRRSW_ 0 0 0 ENST00000456291.1_3_9:123638279-123638699:-|nuORF ENST00000456291.1_3_9:123638279-123638699:-|nuORF ENST00000456291.1_3_9:123638279-123638699:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 831.0336303710938 2 830.921449 1659.82835 NaN NaN NaN NaN NaN NaN NaN 100.24 1 100.55 100.05 101.05 0.30835 0 0 0 1.0082 1 46361 46361 0 0 1 29064 8049 18766 18824 32657 32657 0.024824803312640142 RRWGRRRQWRW 11 Unmodified _RRWGRRRQWRW_ 0 0 0 REV__ENST00000513117.1_1_5:6633573-6668378:+|nuORF REV__ENST00000513117.1_1_5:6633573-6668378:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.43798828125 3 566.98568 1697.93521 NaN NaN NaN NaN NaN NaN NaN 88.776 1 88.828 88.328 89.328 0.052155 0 0 0 1.0082 1 45327 45327 0.08335 0 1 + 29065 16988 18767 18825 32658 32658 0.11416075336273934 RRWGWEWRRKR 11 Unmodified _RRWGWEWRRKR_ 0 0 0 REV__ENST00000456291.1_3_9:123638279-123638699:-|nuORF REV__ENST00000456291.1_3_9:123638279-123638699:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 836.2522583007812 2 836.463816 1670.91308 NaN NaN NaN NaN NaN NaN NaN 94.389 1 94.389 93.889 94.889 0 0 0 0 1.0082 1 50620 50620 0 0 1 + 29066 16452 18768 18826 32659 32659 0.1044585086783627 RRWHKSRLLQ 10 Unmodified _RRWHKSRLLQ_ 0 0 0 nc|ENSG00000253159|O60330-2|PCDHGA12;ENSG00000253159|ENST00000252085|PCDHGA12;nc|ENSG00000253485|Q9Y5G8-2|PCDHGA5;nc|ENSG00000253537|Q9Y5G6-2|PCDHGA7;nc|ENSG00000253767|Q9Y5G5-2|PCDHGA8;nc|ENSG00000081853|Q9Y5H1-2|PCDHGA2;nc|ENSG00000254245|Q9Y5H0-2|PCDHGA3;nc|ENSG00000253846|Q9Y5H3-2|PCDHGA10;ENSG00000253485|ENST00000518069|PCDHGA5;ENSG00000254245|ENST00000253812|PCDHGA3;ENSG00000253767|ENST00000398604|PCDHGA8;ENSG00000253537|ENST00000518325|PCDHGA7;ENSG00000081853|ENST00000394576|PCDHGA2;ENSG00000253846|ENST00000398610|PCDHGA10;nc|ENSG00000204956|Q9Y5H4-2|PCDHGA1;ENSG00000204956|ENST00000517417|PCDHGA1 nc|ENSG00000253159|O60330-2|PCDHGA12;nc|ENSG00000204956|Q9Y5H4-2|PCDHGA1 nc|ENSG00000204956|Q9Y5H4-2|PCDHGA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 690.412109375 2 690.410186 1378.80582 NaN NaN NaN NaN NaN NaN NaN 82.097 1 82.757 82.257 83.257 0.65998 0 0 0 1.0015 1 37828 37828 0.40072 0.050084 1 29067 6270;6036 18769 18827 32660 32660 0.13156880933638604 RRWKKRVRVPV 11 Unmodified _RRWKKRVRVPV_ 0 0 0 REV__nc|ENSG00000134668|Q6ZMY3-5|SPOCD1 REV__nc|ENSG00000134668|Q6ZMY3-5|SPOCD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 740.1715087890625 2 740.478403 1478.94225 NaN NaN NaN NaN NaN NaN NaN 100.1 1 100.4 99.904 100.9 0.30835 0 0 0 1.008 1 46291 46291 0.35063 0 1 + 29068 11975 18770 18828 32661 32661 0.22193995164116131 RRWKRWFKF 9 Unmodified _RRWKRWFKF_ 0 0 0 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.607666015625 3 470.607036 1408.79928 2.6974 0.0012694 -0.8145 -0.00038331 1.8829 0.0008861 470.94096320238856 55.802 0.36459 55.802 55.749 56.114 0 39 27 2 0 0 0 1.1154 1 25734 25734 2.7352 2.2292 1 1143500 29069 9726 18771 18829 32662 32662 0.11122987772910164 RRWLQLWRRPR 11 Unmodified _RRWLQLWRRPR_ 0 0 0 REV__ENSG00000185215|ENST00000560869|TNFAIP2 REV__ENSG00000185215|ENST00000560869|TNFAIP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 811.9833984375 2 811.984384 1621.95422 NaN NaN NaN NaN NaN NaN NaN 52.753 1 53.414 52.914 53.914 0.66198 0 0 0 1.0082 1 24121 24121 0 0 1 + 29070 14008 18772 18830 32663 32663 0.16811611907314727 RRWMIRKRMR 10 Unmodified _RRWMIRKRMR_ 0 0 0 ENSG00000066279|ENST00000367409|ASPM ENSG00000066279|ENST00000367409|ASPM ENSG00000066279|ENST00000367409|ASPM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.9588623046875 3 496.959086 1487.85543 NaN NaN NaN NaN NaN NaN NaN 104.67 1 105.27 104.77 105.77 0.59885 0 0 0 1.0019 1 48350 48350 0.13989 0 1 29071 703 18773 18831 32664 32664 0.1310154934642469 RRWPHKRRRPR 11 Unmodified _RRWPHKRRRPR_ 0 0 0 REV__ENST00000264607.8_1_2:239335652-239342206:+|nuORF REV__ENST00000264607.8_1_2:239335652-239342206:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 800.9844360351562 2 800.98525 1599.95595 NaN NaN NaN NaN NaN NaN NaN 57.724 1 58.392 57.892 58.892 0.66829 0 0 0 1.0082 1 26415 26415 0 0 1 + 29072 15020 18774 18832 32665 32665 0.17996665715918425 RRWQRRPRRRR 11 Unmodified _RRWQRRPRRRR_ 0 0 0 REV__ENST00000295206.6_1_2:119600812-119604160:-|nuORF REV__ENST00000295206.6_1_2:119600812-119604160:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 840.0133056640625 2 840.01233 1678.01011 NaN NaN NaN NaN NaN NaN NaN 76.896 1 77.52 77.02 78.02 0.62397 0 0 0 1.0082 1 37285 37285 0 0 1 + 29073 15141 18775 18833 32666 32666 0.19822257867508597 RRWRLHCLKLQ 11 Unmodified _RRWRLHCLKLQ_ 0 0 0 ENSG00000120254|ENST00000367321|MTHFD1L ENSG00000120254|ENST00000367321|MTHFD1L ENSG00000120254|ENST00000367321|MTHFD1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 503.5221252441406 3 503.629623 1507.86704 NaN NaN NaN NaN NaN NaN NaN 70.855 1 70.855 70.355 71.355 0 0 0 0 1.0073 1 34424 34424 0.40827 0 1 29074 2185 18776 18834 32667 32667 0.13342069641430498 RRWRNIVDQI 10 Unmodified _RRWRNIVDQI_ 0 0 0 nc|ENSG00000140598|Q7Z2Z2-2|EFL1;ENSG00000140598|ENST00000268206|EFL1 nc|ENSG00000140598|Q7Z2Z2-2|EFL1 nc|ENSG00000140598|Q7Z2Z2-2|EFL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 678.3844604492188 2 678.386377 1354.7582 NaN NaN NaN NaN NaN NaN NaN 20.91 1 20.91 20.41 21.41 0 0 0 0 1.0015 1 9356 9356 0.40072 0.050084 1 29075 3211 18777 18835 32668 32668 0.0950118194280094 RRWRQRRRRG 10 Unmodified _RRWRQRRRRG_ 0 0 0 REV__ENST00000525786.1_1_11:96120692-96123066:-|nuORF REV__ENST00000525786.1_1_11:96120692-96123066:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 741.9494018554688 2 741.946125 1481.8777 NaN NaN NaN NaN NaN NaN NaN 103.05 1 103.65 103.15 104.15 0.59821 0 0 0 1.0015 1 47685 47685 0.40072 0 1 + 29076 17079 18778 18836 32669 32669 0.15603233130696026 RRWRQRRRRGQ 11 Unmodified _RRWRQRRRRGQ_ 0 0 0 REV__ENST00000525786.1_1_11:96120692-96123066:-|nuORF REV__ENST00000525786.1_1_11:96120692-96123066:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 806.0840454101562 2 805.975413 1609.93627 NaN NaN NaN NaN NaN NaN NaN 105.72 1 105.77 105.27 106.27 0.050888 0 0 0 1.0082 1 57210 57210 0 0 1 + 29077 17079 18779 18837 32670 32670 0.15570289705192408 RRWRQRRRWPY 11 Unmodified _RRWRQRRRWPY_ 0 0 0 REV__ENST00000372724.5_1_10:76586363-76598485:+|nuORF REV__ENST00000372724.5_1_10:76586363-76598485:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 858.4851684570312 2 858.48254 1714.95053 NaN NaN NaN NaN NaN NaN NaN 89.042 1 89.042 88.542 89.542 0 0 0 0 1.0082 1 46387 46387 0 0 1 + 29078 15759 18780 18838 32671 32671 0.1216494213349506 RRWRQRRRWPY 11 Unmodified _RRWRQRRRWPY_ 0 0 0 REV__ENST00000372724.5_1_10:76586363-76598485:+|nuORF REV__ENST00000372724.5_1_10:76586363-76598485:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 858.4829711914062 2 858.48254 1714.95053 NaN NaN NaN NaN NaN NaN NaN 83.714 1 83.742 83.242 84.242 0.028603 0 0 0 1.0082 1 41611 41611 0 0 1 + 29079 15759 18780 18838 32672 32672 0.1216494213349506 RRWRREGPIRR 11 Unmodified _RRWRREGPIRR_ 0 0 0 REV__ENST00000419218.5_1_3:49507755-49524722:+|nuORF REV__ENST00000419218.5_1_3:49507755-49524722:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 769.4581909179688 2 769.455991 1536.89743 NaN NaN NaN NaN NaN NaN NaN 53.37 1 53.37 52.87 53.87 0 0 0 0 1.0082 1 24448 24448 0.26902 0.26902 1 + 29080 15248 18781 18839 32673 32673 0.15045564350839413 RRWRRLQRRFE 11 Unmodified _RRWRRLQRRFE_ 0 0 0 REV__ENST00000403729.6_1_4:80993792-80994179:-|nuORF REV__ENST00000403729.6_1_4:80993792-80994179:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 829.7836303710938 2 829.982373 1657.95019 NaN NaN NaN NaN NaN NaN NaN 106.31 1 106.36 105.86 106.86 0.04837 0 0 0 1.0082 1 57518 57518 0 0 1 + 29081 16058 18782 18840 32674 32674 0.14753522413616338 RRWRRLQRRFE 11 Unmodified _RRWRRLQRRFE_ 0 0 0 REV__ENST00000403729.6_1_4:80993792-80994179:-|nuORF REV__ENST00000403729.6_1_4:80993792-80994179:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 829.9830322265625 2 829.982373 1657.95019 NaN NaN NaN NaN NaN NaN NaN 38.213 1 38.847 38.347 39.347 0.63388 0 0 0 1.0082 1 17478 17478 0 0 1 + 29082 16058 18782 18840 32675 32675 0.14753522413616338 RRWRRLQRRFE 11 Unmodified _RRWRRLQRRFE_ 0 0 0 REV__ENST00000403729.6_1_4:80993792-80994179:-|nuORF REV__ENST00000403729.6_1_4:80993792-80994179:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 829.9830322265625 2 829.982373 1657.95019 NaN NaN NaN NaN NaN NaN NaN 106.41 1 107.01 106.51 107.51 0.60074 0 0 0 1.0082 1 49132 49132 0 0 1 + 29083 16058 18782 18840 32676 32676 0.14753522413616338 RRWRRRKKRDR 11 Unmodified _RRWRRRKKRDR_ 0 0 0 REV__ENST00000556594.1_1_14:91518767-91526894:-|nuORF REV__ENST00000556594.1_1_14:91518767-91526894:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.347900390625 3 557.012118 1668.01452 2.0344 0.0011332 -0.11526 -6.4201E-05 1.9191 0.001069 557.0118840117142 106.41 0.12839 106.45 106.38 106.51 0.04837 13 5 3 0 0 0 0.91489 1 57573 57573 0 0 1 2217100 + 29084 17327 18783 18841 32677 32677 0.20723722290404112 RRWRRRKKRDR 11 Unmodified _RRWRRRKKRDR_ 0 0 0 REV__ENST00000556594.1_1_14:91518767-91526894:-|nuORF REV__ENST00000556594.1_1_14:91518767-91526894:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.0140380859375 3 557.012118 1668.01452 4.3923 0.0024465 -1.6968 -0.00094515 2.6954 0.0015014 557.0110144366945 106.34 0.14497 106.65 106.58 106.73 0.31628 12 4 4 0 0 0 0.91489 1 49076 49076 0 0 1 1310700 + 29085 17327 18783 18841 32678 32678 0.20723722290404112 RRWRRRLPLLL 11 Unmodified _RRWRRRLPLLL_ 0 0 0 REV__ENST00000418337.6_2_7:151292537-151329253:-|nuORF REV__ENST00000418337.6_2_7:151292537-151329253:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 768.0025634765625 2 767.999503 1533.98445 NaN NaN NaN NaN NaN NaN NaN 68.277 1 68.529 68.029 69.029 0.25227 0 0 0 1.0082 1 31277 31277 0 0 1 + 29086 16149 18784 18842 32679 32679 0.23881970572551836 RRWRRRLTRRP 11 Unmodified _RRWRRRLTRRP_ 0 0 0 ENST00000375344.7_1_9:97136898-97137102:+|nuORF ENST00000375344.7_1_9:97136898-97137102:+|nuORF ENST00000375344.7_1_9:97136898-97137102:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.6921691894531 5 322.603709 1607.98216 2.0318 0.00065547 0.5264 0.00016982 2.5582 0.00082529 322.60389329665213 54.901 0.21196 55.167 55.093 55.305 0.26543 18 12 2 0 0 0 0.13295 1 25159 25159 0.073264 0.073264 1 1509100 29087 7391 18785 18843 32680 32680 0.20248934887422365 RRWRRRRDRAH 11 Unmodified _RRWRRRRDRAH_ 0 0 0 ENST00000425427.6_1_5:153570544-153674427:+|nuORF ENST00000425427.6_1_5:153570544-153674427:+|nuORF ENST00000425427.6_1_5:153570544-153674427:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 810.968017578125 2 810.967588 1619.92062 NaN NaN NaN NaN NaN NaN NaN 39.96 1 40.227 39.727 40.727 0.26696 0 0 0 1.0082 1 18179 18179 0 0 1 29088 7796 18786 18844 32681 32681 0.13546003188139366 RRWRRRRRRL 10 Unmodified _RRWRRRRRRL_ 0 0 0 ENST00000492275.5_1_21:38445580-38480706:+|nuORF;ENST00000355666.5_1_21:38445580-38459609:+|nuORF ENST00000492275.5_1_21:38445580-38480706:+|nuORF ENST00000492275.5_1_21:38445580-38480706:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.0039672851562 3 523.001553 1565.98283 2.8386 0.0014846 0.32306 0.00016896 3.1617 0.0016536 523.0018067184332 105.9 0.12917 105.9 105.81 105.94 0 9 5 3 0 0 0 0.94443 1 58202 58202 0 0 1 1137200 29089 7152 18787 18845 32682 32682 0.2224777432713836 RRWRRRRRRL 10 Unmodified _RRWRRRRRRL_ 0 0 0 ENST00000492275.5_1_21:38445580-38480706:+|nuORF;ENST00000355666.5_1_21:38445580-38459609:+|nuORF ENST00000492275.5_1_21:38445580-38480706:+|nuORF ENST00000492275.5_1_21:38445580-38480706:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.0027465820312 3 523.001553 1565.98283 NaN NaN NaN NaN NaN NaN NaN 106.02 1 106.07 105.57 106.57 0.04837 0 0 0 1.002 1 57368 57368 0 0 1 29090 7152 18787 18845 32683 32683 0.2224777432713836 RRWRRRRRRL 10 Unmodified _RRWRRRRRRL_ 0 0 0 ENST00000492275.5_1_21:38445580-38480706:+|nuORF;ENST00000355666.5_1_21:38445580-38459609:+|nuORF ENST00000492275.5_1_21:38445580-38480706:+|nuORF ENST00000492275.5_1_21:38445580-38480706:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.00390625 3 523.001553 1565.98283 4.2035 0.0021984 -1.5642 -0.00081809 2.6392 0.0013803 523.0008937301026 105.97 0.13493 106.28 106.21 106.35 0.31628 10 4 3 0 0 0 0.94374 1 48912 48912 0.13989 0.056541 1 1101100 29091 7152 18787 18845 32684 32684 0.2224777432713836 RRWRRRRRRL 10 Unmodified _RRWRRRRRRL_ 0 0 0 ENST00000492275.5_1_21:38445580-38480706:+|nuORF;ENST00000355666.5_1_21:38445580-38459609:+|nuORF ENST00000492275.5_1_21:38445580-38480706:+|nuORF ENST00000492275.5_1_21:38445580-38480706:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 523.001553 1565.98283 2.083 0.0010894 0.36777 0.00019234 2.4508 0.0012818 523.0018832921388 105.98 0.10144 106.02 105.96 106.06 0.048363 -0.044032 0.000938 NaN 0.13989 10 5 3 NaN NaN NaN NaN 0 NaN NaN 0 1072200 29092 7152 18787 18845 0.2224777432713836 RRWRRRRRRRR 11 Unmodified _RRWRRRRRRRR_ 0 0 0 REV__ENST00000556735.1_1_14:51134724-51134856:-|nuORF;REV__ENST00000510148.1_1_5:179921418-179921547:+|nuORF REV__ENST00000556735.1_1_14:51134724-51134856:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 883.5006103515625 2 883.55777 1765.10099 NaN NaN NaN NaN NaN NaN NaN 96.958 1 96.958 96.458 97.458 0 0 0 0 1.0082 1 52626 52626 0 0 1 + 29093 17329;16967 18788 18846 32685 32685 0.24904146635617508 RRWRRSPRWRR 11 Unmodified _RRWRRSPRWRR_ 0 0 0 REV__ENST00000376874.8_1_12:124017965-124018079:-|nuORF REV__ENST00000376874.8_1_12:124017965-124018079:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.6016235351562 3 556.661196 1666.96176 NaN NaN NaN NaN NaN NaN NaN 16.809 1 17.47 16.97 17.97 0.66072 0 0 0 1.0082 1 7578 7578 0 0 1 + 29094 15829 18789 18847 32686 32686 0.15495764227603104 RRWRRWRGECE 11 Unmodified _RRWRRWRGECE_ 0 0 0 REV__ENST00000514589.5_1_4:76439408-76439555:-|nuORF REV__ENST00000514589.5_1_4:76439408-76439555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.4790649414062 3 530.604137 1588.79058 NaN NaN NaN NaN NaN NaN NaN 71.999 1 72.703 72.203 73.203 0.70386 0 0 0 1.008 1 34619 34619 0.08335 0 1 + 29095 17009 18790 18848 32687 32687 0.019736460741569317 RRWRRWRRRLG 11 Unmodified _RRWRRWRRRLG_ 0 0 0 REV__UNC80|p.G758Lfs*13|1|0.04|ENSG00000144406|chr2:209820618-209820619|-/ATTA|frameshift_variant REV__UNC80|p.G758Lfs*13|1|0.04|ENSG00000144406|chr2:209820618-209820619|-/ATTA|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.698486328125 5 331.603776 1652.9825 2.3176 0.00076851 1.7547 0.00058188 4.0723 0.0013504 331.60438180387973 49.497 0.35596 50.153 49.982 50.338 0.65524 17 12 2 0 0 0 0.13295 1 22619 22619 0 0 1 316270 + 29096 18244 18791 18849 32688 32688 0.18212354607271664 RRWRRWRWRWP 11 Unmodified _RRWRRWRWRWP_ 0 0 0 REV__ENST00000253814.5_1_5:141488387-141511833:+|nuORF REV__ENST00000253814.5_1_5:141488387-141511833:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 899.004150390625 2 899.0009 1795.98725 NaN NaN NaN NaN NaN NaN NaN 70.147 1 70.808 70.308 71.308 0.66071 0 0 0 1.0082 1 32163 32163 0 0 1 + 29097 14920 18792 18850 32689 32689 0.12109238750053919 RRWRSWRTAVR 11 Unmodified _RRWRSWRTAVR_ 0 0 0 ENST00000380861.8_2_X:10085519-10085585:+|nuORF ENST00000380861.8_2_X:10085519-10085585:+|nuORF ENST00000380861.8_2_X:10085519-10085585:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 765.4392700195312 2 765.437267 1528.85998 NaN NaN NaN NaN NaN NaN NaN 81.74 1 81.74 81.24 82.24 0 0 0 0 1.008 1 40752 40752 0.26902 0.26902 1 29098 7474 18793 18851 32690 32690 0.11670473085177946 RRWRWWRNGWK 11 Unmodified _RRWRWWRNGWK_ 0 0 0 REV__nc|ENSG00000171160|Q8NDC4-2|MORN4 REV__nc|ENSG00000171160|Q8NDC4-2|MORN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 844.1605834960938 2 843.953084 1685.89161 NaN NaN NaN NaN NaN NaN NaN 79.122 1 79.586 79.086 80.086 0.4642 0 0 0 1.0082 1 38611 38611 0 0 1 + 29099 18046 18794 18852 32691 32691 0.07610465839138669 RRWRWWRNGWK 11 Unmodified _RRWRWWRNGWK_ 0 0 0 REV__nc|ENSG00000171160|Q8NDC4-2|MORN4 REV__nc|ENSG00000171160|Q8NDC4-2|MORN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 843.955810546875 2 843.953084 1685.89161 NaN NaN NaN NaN NaN NaN NaN 93.023 1 93.278 92.778 93.778 0.25497 0 0 0 1.0082 1 42757 42757 0 0 1 + 29100 18046 18794 18852 32692 32692 0.07610465839138669 RRWSRWFRKNK 11 Unmodified _RRWSRWFRKNK_ 0 0 0 REV__ENST00000496222.1_1_3:160156960-160167504:-|nuORF REV__ENST00000496222.1_1_3:160156960-160167504:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 810.4608154296875 2 810.460742 1618.90693 NaN NaN NaN NaN NaN NaN NaN 60.813 1 61.552 61.052 62.052 0.7396 0 0 0 1.0082 1 28123 28123 0 0 1 + 29101 16724 18795 18853 32693 32693 0.12223332636312989 RRWVERAFWKF 11 Unmodified _RRWVERAFWKF_ 0 0 0 ENST00000568670.5_1_15:89787216-89801935:+|nuORF;ENST00000300027.12_3_15:89787195-89790958:+|nuORF ENST00000568670.5_1_15:89787216-89801935:+|nuORF ENST00000568670.5_1_15:89787216-89801935:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.8118286132812 3 527.624755 1579.85244 NaN NaN NaN NaN NaN NaN NaN 33.423 1 34.211 33.711 34.711 0.78795 0 0 0 1.008 1 15124 15124 0.094841 0.011491 1 29102 6791 18796 18854 32694 32694 0.08570320764897588 RRWVRRSRGP 10 Unmodified _RRWVRRSRGP_ 0 0 0 ENST00000432590.5_2_10:104181253-104181715:+|nuORF ENST00000432590.5_2_10:104181253-104181715:+|nuORF ENST00000432590.5_2_10:104181253-104181715:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.7074279785156 4 332.199802 1324.7701 2.3018 0.00076464 2.8418 0.00094403 5.1435 0.0017087 332.2004098698064 56.002 0.15025 56.268 56.15 56.301 0.26543 9 6 2 0 0 0 0.12676 1 25583 25583 0.62683 0 1 343940 29103 7862 18797 18855 32695 32695 0.12070843476635673 RRWWFYLFILQ 11 Unmodified _RRWWFYLFILQ_ 0 0 0 REV__ENST00000471075.1_1_3:171371881-171395443:-|nuORF REV__ENST00000471075.1_1_3:171371881-171395443:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 814.6130981445312 2 814.448446 1626.88234 NaN NaN NaN NaN NaN NaN NaN 93.874 1 93.874 93.374 94.374 0 0 0 0 1.0082 1 50209 50209 0 0 1 + 29104 16598 18798 18856 32696 32696 0.09397259710249273 RRWWPLLLGL 10 Unmodified _RRWWPLLLGL_ 0 0 0 REV__ENST00000374979.7_2_11:124644802-124670283:-|nuORF REV__ENST00000374979.7_2_11:124644802-124670283:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.2032775878906 4 328.202751 1308.7819 2.0919 0.00068656 0.24892 8.1697E-05 2.3408 0.00076825 328.20271423272135 47.882 0.46793 47.882 47.671 48.139 0 88 27 4 0 0 0 0.9406 1 21892 21892 0.77653 0 1 7643500 + 29105 15795 18799 18857 32697 32697 0.13985647447270821 RRWWPLLLGL 10 Unmodified _RRWWPLLLGL_ 0 0 0 REV__ENST00000374979.7_2_11:124644802-124670283:-|nuORF REV__ENST00000374979.7_2_11:124644802-124670283:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.2691345214844 3 437.267909 1308.7819 2.8836 0.0012609 -0.0527 -2.3044E-05 2.8309 0.0012379 437.26774739425275 49.355 1.0501 49.355 49.022 50.072 0 163 49 4 0 0 0 0.89607 2 22592 22592;22849 3.8763 1.033 1 8602100 + 29106 15795 18799 18857 32698;32699 32698 0.13985647447270821 RRWWPLLLGL 10 Unmodified _RRWWPLLLGL_ 0 0 0 REV__ENST00000374979.7_2_11:124644802-124670283:-|nuORF REV__ENST00000374979.7_2_11:124644802-124670283:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 655.4005737304688 2 655.398225 1308.7819 3.6689 0.0024046 0.23529 0.00015421 3.9042 0.0025588 655.3982104035153 49.339 0.91315 49.339 49.078 49.991 0 90 41 3 0 0 0 0.83816 1 22593 22593 1.6526 0 1 2065300 + 29107 15795 18799 18857 32700 32700 0.13985647447270821 RRWWPLLLGL 10 Unmodified _RRWWPLLLGL_ 0 0 0 REV__ENST00000374979.7_2_11:124644802-124670283:-|nuORF REV__ENST00000374979.7_2_11:124644802-124670283:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.3998413085938 2 655.398225 1308.7819 3.9769 0.0026064 -0.19562 -0.00012821 3.7813 0.0024782 655.3980458178571 47.513 0.42627 47.777 47.368 47.795 0.26363 29 17 2 0 0 0 0.88949 2 21700 21641;21700 0.45834 0 1 1072700 + 29108 15795 18799 18857 32701;32702 32702 0.13985647447270821 RRWWPLLLGL 10 Unmodified _RRWWPLLLGL_ 0 0 0 REV__ENST00000374979.7_2_11:124644802-124670283:-|nuORF REV__ENST00000374979.7_2_11:124644802-124670283:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.4005737304688 2 655.398225 1308.7819 3.8838 0.0025455 -0.088378 -5.7922E-05 3.7955 0.0024875 655.3979596942346 48.958 0.93945 49.22 48.873 49.813 0.26209 68 35 3 0 0 0 0.84738 1 22369 22369 3.5965 0.8613 1 2124800 + 29109 15795 18799 18857 32703 32703 0.13985647447270821 RRWWPLLLGL 10 Unmodified _RRWWPLLLGL_ 0 0 0 REV__ENST00000374979.7_2_11:124644802-124670283:-|nuORF REV__ENST00000374979.7_2_11:124644802-124670283:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2690124511719 3 437.267909 1308.7819 2.9858 0.0013056 0.13911 6.0828E-05 3.1249 0.0013664 437.2678601822451 48.913 1.0703 49.175 48.816 49.886 0.26209 142 40 4 0 0 0 0.89607 1 22546 22546 3.8763 1.4415 1 8824200 + 29110 15795 18799 18857 32704 32704 0.13985647447270821 RRWWPLLLGL 10 Unmodified _RRWWPLLLGL_ 0 0 0 REV__ENST00000374979.7_2_11:124644802-124670283:-|nuORF REV__ENST00000374979.7_2_11:124644802-124670283:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.26904296875 3 437.267909 1308.7819 3.2062 0.001402 -0.032193 -1.4077E-05 3.174 0.0013879 437.26772062992023 48.493 1.1974 49.148 48.621 49.818 0.65525 149 45 4 0 0 0 0.89607 1 22169 22169 3.8763 1.4415 1 4130600 + 29111 15795 18799 18857 32705 32705 0.13985647447270821 RRWWPLLLGL 10 Unmodified _RRWWPLLLGL_ 0 0 0 REV__ENST00000374979.7_2_11:124644802-124670283:-|nuORF REV__ENST00000374979.7_2_11:124644802-124670283:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.2036437988281 4 328.202751 1308.7819 2.375 0.00077947 0.47458 0.00015576 2.8495 0.00093522 328.2028528395296 48.561 1.7169 49.216 48.587 50.304 0.65524 200 63 5 0 0 0 0.94099 1 22389 22389 0.69767 0 1 18120000 + 29112 15795 18799 18857 32706 32706 0.13985647447270821 RRWWRFLLWS 10 Unmodified _RRWWRFLLWS_ 0 0 0 REV__ENST00000463462.5_1_7:148982563-148988696:+|nuORF REV__ENST00000463462.5_1_7:148982563-148988696:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 753.4161987304688 2 753.41748 1504.82041 NaN NaN NaN NaN NaN NaN NaN 82.532 1 82.779 82.279 83.279 0.24722 0 0 0 1.0015 1 37990 37990 0.40072 0.050084 1 + 29113 16216 18800 18858 32707 32707 0.08818953081777181 RRWWRRRLWQL 11 Unmodified _RRWWRRRLWQL_ 0 0 0 ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 856.5001220703125 2 856.497659 1710.98076 NaN NaN NaN NaN NaN NaN NaN 86.412 1 86.442 85.942 86.942 0.030289 0 0 0 1.0082 1 43478 43478 0 0 1 29114 6713 18801 18859 32708 32708 0.15371300798688026 RRWWWRRRRR 10 Unmodified _RRWWWRRRRR_ 0 0 0 ENST00000475204.5_1_1:70687068-70687435:+|nuORF;ENST00000370951.5_1_1:70671397-70687435:+|nuORF;ENST00000463877.1_1_1:70671397-70687435:+|nuORF;ENST00000395136.6_2_1:70687096-70687432:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 835.4854125976562 2 835.485417 1668.95628 NaN NaN NaN NaN NaN NaN NaN 85.93 1 85.96 85.46 86.46 0.030289 0 0 0 1.002 1 43109 43109 0 0 1 29115 7310 18802 18860 32709 32709 0.14856085435781097 RRWWWRRRRR 10 Unmodified _RRWWWRRRRR_ 0 0 0 ENST00000475204.5_1_1:70687068-70687435:+|nuORF;ENST00000370951.5_1_1:70671397-70687435:+|nuORF;ENST00000463877.1_1_1:70671397-70687435:+|nuORF;ENST00000395136.6_2_1:70687096-70687432:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 835.6635131835938 2 835.485417 1668.95628 NaN NaN NaN NaN NaN NaN NaN 96.766 1 97.044 96.544 97.544 0.27778 0 0 0 1.002 1 44458 44458 0 0 1 29116 7310 18802 18860 32710 32710 0.14856085435781097 RRWYKTENEYY 11 Unmodified _RRWYKTENEYY_ 0 0 0 nc|ENSG00000054392|Q5VTY9-5|HHAT;nc|ENSG00000054392|Q5VTY9-2|HHAT;ENSG00000054392|ENST00000261458|HHAT;nc|ENSG00000054392|Q5VTY9-7|HHAT;nc|ENSG00000054392|Q5VTY9-3|HHAT nc|ENSG00000054392|Q5VTY9-5|HHAT nc|ENSG00000054392|Q5VTY9-5|HHAT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 804.3839721679688 2 804.383697 1606.75284 NaN NaN NaN NaN NaN NaN NaN 84.805 1 84.805 84.305 85.305 0 0 0 0 1.0082 1 43022 43022 0 0 1 29117 9545 18803 18861 32711 32711 -0.02626586430324096 RRWYWYYIRIL 11 Unmodified _RRWYWYYIRIL_ 0 0 0 REV__ENSG00000163686|ENST00000478253|ABHD6 REV__ENSG00000163686|ENST00000478253|ABHD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 844.7156982421875 2 844.464627 1686.9147 NaN NaN NaN NaN NaN NaN NaN 100.27 1 100.33 99.83 100.83 0.059723 0 0 0 1.0082 1 54371 54371 0 0 1 + 29118 13016 18804 18862 32712 32712 0.09872047113276494 RRYIRRLRAIR 11 Unmodified _RRYIRRLRAIR_ 0 0 0 nc|ENSG00000130939|O95155-3|UBE4B;nc|ENSG00000130939|O95155-2|UBE4B;ENSG00000130939|ENST00000343090|UBE4B;nc|ENSG00000130939|O95155-4|UBE4B nc|ENSG00000130939|O95155-3|UBE4B nc|ENSG00000130939|O95155-3|UBE4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 764.9923706054688 2 764.992209 1527.96987 NaN NaN NaN NaN NaN NaN NaN 72.66 1 73.359 72.859 73.859 0.69881 0 0 0 1.0082 1 35001 35001 0 0 1 29119 2629 18805 18863 32713 32713 0.22699898424389175 RRYKRRRKKR 10 Unmodified _RRYKRRRKKR_ 0 0 0 nc|ENSG00000197381|P78563-5|ADARB1 nc|ENSG00000197381|P78563-5|ADARB1 nc|ENSG00000197381|P78563-5|ADARB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 751.5469970703125 2 751.990001 1501.96545 NaN NaN NaN NaN NaN NaN NaN 54.566 1 55.362 54.862 55.862 0.79552 0 0 0 1.002 1 24898 24898 0 0 1 29120 9805 18806 18864 32714 32714 0.23454434001450863 RRYKRRRKKRS 11 Unmodified _RRYKRRRKKRS_ 0 0 0 nc|ENSG00000197381|P78563-5|ADARB1 nc|ENSG00000197381|P78563-5|ADARB1 nc|ENSG00000197381|P78563-5|ADARB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 795.5052490234375 2 795.506015 1588.99748 NaN NaN NaN NaN NaN NaN NaN 32.254 1 32.872 32.372 33.372 0.61831 0 0 0 1.0082 1 14790 14790 0 0 1 29121 9805 18807 18865 32715 32715 0.22653801684600694 RRYQRHYYYYR 11 Unmodified _RRYQRHYYYYR_ 0 0 0 REV__ENST00000565031.1_1_16:2009625-2011290:+|nuORF REV__ENST00000565031.1_1_16:2009625-2011290:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 862.435302734375 2 862.431847 1722.84914 NaN NaN NaN NaN NaN NaN NaN 55.093 1 55.88 55.38 56.38 0.78711 0 0 0 1.0082 1 25149 25149 0 0 1 + 29122 12273 18808 18866 32716 32716 0.01663025920288419 RRYQRHYYYYR 11 Unmodified _RRYQRHYYYYR_ 0 0 0 REV__ENST00000565031.1_1_16:2009625-2011290:+|nuORF REV__ENST00000565031.1_1_16:2009625-2011290:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 862.4334106445312 2 862.431847 1722.84914 NaN NaN NaN NaN NaN NaN NaN 80.277 1 80.597 80.097 81.097 0.31998 0 0 0 1.0082 1 39298 39298 0 0 1 + 29123 12273 18808 18866 32717 32717 0.01663025920288419 RRYQRHYYYYR 11 Unmodified _RRYQRHYYYYR_ 0 0 0 REV__ENST00000565031.1_1_16:2009625-2011290:+|nuORF REV__ENST00000565031.1_1_16:2009625-2011290:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 862.1889038085938 2 862.431847 1722.84914 NaN NaN NaN NaN NaN NaN NaN 55.7 1 55.965 55.465 56.465 0.26543 0 0 0 1.0082 1 25475 25475 0 0 1 + 29124 12273 18808 18866 32718 32718 0.01663025920288419 RRYRERRYTRR 11 Unmodified _RRYRERRYTRR_ 0 0 0 RSRP1|p.G99_F100del|1|0.38|ENSG00000117616|chr1:25246664-25246669|GAACCC/-|inframe_deletion RSRP1|p.G99_F100del|1|0.38|ENSG00000117616|chr1:25246664-25246669|GAACCC/-|inframe_deletion RSRP1|p.G99_F100del|1|0.38|ENSG00000117616|chr1:25246664-25246669|GAACCC/-|inframe_deletion MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 834.4784545898438 2 834.474912 1666.93527 NaN NaN NaN NaN NaN NaN NaN 31.563 1 31.818 31.318 32.318 0.25452 0 0 0 1.0082 1 14370 14370 0 0 1 29125 18254 18809 18867 32719 32719 0.12848030545615075 RRYRERRYTRR 11 Unmodified _RRYRERRYTRR_ 0 0 0 RSRP1|p.G99_F100del|1|0.38|ENSG00000117616|chr1:25246664-25246669|GAACCC/-|inframe_deletion RSRP1|p.G99_F100del|1|0.38|ENSG00000117616|chr1:25246664-25246669|GAACCC/-|inframe_deletion RSRP1|p.G99_F100del|1|0.38|ENSG00000117616|chr1:25246664-25246669|GAACCC/-|inframe_deletion MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 834.4764404296875 2 834.474912 1666.93527 NaN NaN NaN NaN NaN NaN NaN 93.879 1 94.134 93.634 94.634 0.25497 0 0 0 1.0082 1 43145 43145 0 0 1 29126 18254 18809 18867 32720 32720 0.12848030545615075 RRYRERRYTRR 11 Unmodified _RRYRERRYTRR_ 0 0 0 RSRP1|p.G99_F100del|1|0.38|ENSG00000117616|chr1:25246664-25246669|GAACCC/-|inframe_deletion RSRP1|p.G99_F100del|1|0.38|ENSG00000117616|chr1:25246664-25246669|GAACCC/-|inframe_deletion RSRP1|p.G99_F100del|1|0.38|ENSG00000117616|chr1:25246664-25246669|GAACCC/-|inframe_deletion MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.2705078125 3 556.652367 1666.93527 3.3118 0.0018435 4.425 0.0024632 7.7368 0.0043067 556.6562954610204 71.543 0.054276 71.801 71.753 71.807 0.25786 4 2 2 0 0 0 0.13295 1 32759 32759 0 0 1 2216600 29127 18254 18809 18867 32721 32721 0.12848030545615075 RRYRIWKRRRV 11 Unmodified _RRYRIWKRRRV_ 0 0 0 REV__nc|ENSG00000205356|Q7Z6L1-3|TECPR1 REV__nc|ENSG00000205356|Q7Z6L1-3|TECPR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.7083129882812 3 549.009714 1644.00731 NaN NaN NaN NaN NaN NaN NaN 94.92 1 95.002 94.502 95.502 0.082001 0 0 0 1.0082 1 50052 50052 0.094841 0.094841 1 + 29128 14459 18810 18868 32722 32722 0.2110698968995166 RRYSVEYL 8 Unmodified _RRYSVEYL_ 0 0 0 REV__ENSG00000171105|ENST00000302850|INSR REV__ENSG00000171105|ENST00000302850|INSR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.2890625 2 543.290548 1084.56654 NaN NaN NaN NaN NaN NaN NaN 60.412 1 60.668 60.168 61.168 0.25578 0 0 0 0.30079 1 27661 27661 36.044 1.9418 1 + 29129 13473 18811 18869 32723 32723 0.027642611918054172 RRYYDRWKQQI 11 Unmodified _RRYYDRWKQQI_ 0 0 0 REV__nc|ENSG00000066933|B2RTY4-5|MYO9A REV__nc|ENSG00000066933|B2RTY4-5|MYO9A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.2899169921875 3 537.954941 1610.84299 NaN NaN NaN NaN NaN NaN NaN 70.045 1 70.748 70.248 71.248 0.70302 0 0 0 1.0082 1 33547 33547 0 0 1 + 29130 10446 18812 18870 32724 32724 0.062005076887317045 RRYYDRWKQQI 11 Unmodified _RRYYDRWKQQI_ 0 0 0 REV__nc|ENSG00000066933|B2RTY4-5|MYO9A REV__nc|ENSG00000066933|B2RTY4-5|MYO9A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 806.4287719726562 2 806.428773 1610.84299 NaN NaN NaN NaN NaN NaN NaN 104.79 1 105.39 104.89 105.89 0.59885 0 0 0 1.0082 1 48405 48405 0 0 1 + 29131 10446 18812 18870 32725 32725 0.062005076887317045 RSARRKRKKHR 11 Unmodified _RSARRKRKKHR_ 0 0 0 ENSG00000122728|ENST00000242310|TAF1L ENSG00000122728|ENST00000242310|TAF1L ENSG00000122728|ENST00000242310|TAF1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 370.49066162109375 4 370.489542 1477.92906 2.5407 0.00094129 0.17586 6.5154E-05 2.7165 0.0010064 370.4895209262862 38.292 0.94679 38.556 38.246 39.193 0.26408 69 33 3 0 0 0 0.91373 1 17474 17474 0.36667 0.28332 1 3790300 29132 2280 18813 18871 32726 32726 0.20921557104770727 RSARRKRKKHR 11 Unmodified _RSARRKRKKHR_ 0 0 0 ENSG00000122728|ENST00000242310|TAF1L ENSG00000122728|ENST00000242310|TAF1L ENSG00000122728|ENST00000242310|TAF1L MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 370.489542 1477.92906 2.7983 0.0010368 0.00010875 4.0291E-08 2.7984 0.0010368 370.4893169082096 38.625 0.58478 38.625 38.332 38.916 0 0.080769 -0.00018638 NaN 0.36667 84 26 4 NaN NaN NaN NaN 0 NaN NaN 0 1754700 29133 2280 18813 18871 0.20921557104770727 RSARRKRKKHR 11 Unmodified _RSARRKRKKHR_ 0 0 0 ENSG00000122728|ENST00000242310|TAF1L ENSG00000122728|ENST00000242310|TAF1L ENSG00000122728|ENST00000242310|TAF1L MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 370.489542 1477.92906 2.4105 0.00089307 0.23838 8.8317E-05 2.6489 0.00098138 370.48939148725793 37.656 0.4319 38.452 38.182 38.614 0.79552 -0.092475 0.00016673 NaN 0.36667 51 19 3 NaN NaN NaN NaN 0 NaN NaN 0 1258400 29134 2280 18813 18871 0.20921557104770727 RSASTGAQ 8 Unmodified _RSASTGAQ_ 0 0 0 nc|ENSG00000165970|Q9Y345-3|SLC6A5;ENSG00000165970|ENST00000525748|SLC6A5 nc|ENSG00000165970|Q9Y345-3|SLC6A5 nc|ENSG00000165970|Q9Y345-3|SLC6A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 389.2016906738281 2 389.196116 776.37768 NaN NaN NaN NaN NaN NaN NaN 103.04 1 103.09 102.59 103.59 0.055092 0 0 0 0.99035 1 55898 55898 2.0598 0 1 29135 4439 18814 18872 32727 32727 -0.019453913816619206 RSAVAKVDLS 10 Unmodified _RSAVAKVDLS_ 0 0 0 REV__ENST00000485596.5_1_15:85634092-85681131:+|nuORF REV__ENST00000485596.5_1_15:85634092-85681131:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.3062133789062 2 523.303655 1044.59276 2.8355 0.0014838 1.0259 0.00053686 3.8614 0.0020207 523.304307856067 102.83 0.17027 102.83 102.76 102.93 0 11 6 3 0 0 0 0.93855 1 56750 56750 1.1933 0.23107 1 687240 + 29136 10504 18815 18873 32728 32728 0.07224530363282611 RSDMAQNLKDL 11 Unmodified _RSDMAQNLKDL_ 0 0 0 ENST00000544134.5_1_12:7077746-7079730:-|nuORF;ENST00000546217.1_1_12:7079496-7079730:-|nuORF;ENST00000542294.1_1_12:7079357-7079730:-|nuORF;ENST00000543465.5_1_12:7077022-7079730:-|nuORF ENST00000544134.5_1_12:7077746-7079730:-|nuORF ENST00000544134.5_1_12:7077746-7079730:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 430.8376770019531 3 430.887205 1289.63978 NaN NaN NaN NaN NaN NaN NaN 44.87 1 44.87 44.37 45.37 0 0 0 0 0.99639 1 20516 20516 7.0371 0.40671 1 29137 8830 18816 18874 32729 32729 0.006550218520942508 RSERCWWNERC 11 Unmodified _RSERCWWNERC_ 0 0 0 ENST00000373741.8_1_1:31532324-31538588:-|nuORF ENST00000373741.8_1_1:31532324-31538588:-|nuORF ENST00000373741.8_1_1:31532324-31538588:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 762.8327026367188 2 762.832794 1523.65103 NaN NaN NaN NaN NaN NaN NaN 16.828 1 16.828 16.328 17.328 0 0 0 0 1.0082 1 7464 7464 0 0 1 29138 7368 18817 18875 32730 32730 -0.08984479325408756 RSFKHDVRGN 10 Unmodified _RSFKHDVRGN_ 0 0 0 ENSG00000187522|ENST00000378372|HSPA14 ENSG00000187522|ENST00000378372|HSPA14 ENSG00000187522|ENST00000378372|HSPA14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.8851623535156 3 405.882894 1214.62685 NaN NaN NaN NaN NaN NaN NaN 72.101 1 72.805 72.305 73.305 0.70386 0 0 0 0.99812 1 34672 34672 1.5923 0.13716 1 29139 5619 18818 18876 32731 32731 0.02812371574896133 RSFKHDVRGN 10 Unmodified _RSFKHDVRGN_ 0 0 0 ENSG00000187522|ENST00000378372|HSPA14 ENSG00000187522|ENST00000378372|HSPA14 ENSG00000187522|ENST00000378372|HSPA14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.885009765625 3 405.882894 1214.62685 NaN NaN NaN NaN NaN NaN NaN 71.651 1 72.314 71.814 72.814 0.66324 0 0 0 0.99812 1 32842 32842 1.5923 0 1 29140 5619 18818 18876 32732 32732 0.02812371574896133 RSFVSYLYF 9 Unmodified _RSFVSYLYF_ 0 0 0 Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|82|2|sense Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|82|2|sense Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|82|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.5389709472656 3 394.537842 1180.5917 2.6663 0.001052 -0.38421 -0.00015159 2.2821 0.00090038 394.53767283781644 48.622 0.31729 48.622 48.482 48.799 0 26 18 2 0 0 0 1.1138 1 22294 22294 2.086 0 1 451020 29141 9374 18819 18877 32733 32733 0.008623159943681458 RSHIKEHRQLL 11 Unmodified _RSHIKEHRQLL_ 0 0 0 REV__nc|ENSG00000162702|Q9Y2X9-2|ZNF281 REV__nc|ENSG00000162702|Q9Y2X9-2|ZNF281 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 708.9141235351562 2 708.912759 1415.81096 3.6875 0.0026141 1.0896 0.00077246 4.7771 0.0033865 708.9134180362037 51.979 0.25565 51.979 51.871 52.127 0 37 17 3 0 0 0 0.75723 2 23794 23794;23844 8.7454 0 1 1101900 + 29142 12952 18820 18878 32734;32735 32734 0.11969140005612644 RSHLVRHM 8 Unmodified _RSHLVRHM_ 0 0 0 ENSG00000166188|ENST00000299237|ZNF319 ENSG00000166188|ENST00000299237|ZNF319 ENSG00000166188|ENST00000299237|ZNF319 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.8603820800781 3 345.859144 1034.5556 1.6939 0.00058584 0.28042 9.6986E-05 1.9743 0.00068283 345.85916128052907 9.5537 0.52955 9.8604 9.5791 10.109 0.30663 96 55 2 0 0 0 0.7471 4 4257 4257;4301;4344;4397 1.8442 0 1 108340 29143 4459 18821 18879 32736;32737;32738;32739 32736 0.03970580336522289 RSHLVRHM 8 Unmodified _RSHLVRHM_ 0 0 0 ENSG00000166188|ENST00000299237|ZNF319 ENSG00000166188|ENST00000299237|ZNF319 ENSG00000166188|ENST00000299237|ZNF319 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 345.859144 1034.5556 1.6939 0.00058584 0.28042 9.6986E-05 1.9743 0.00068283 345.85916128052907 9.5537 0.52955 9.8604 9.5791 10.109 0.30663 0 0 NaN 1.8442 96 55 2 NaN NaN NaN NaN 0 NaN NaN 0 108340 29144 4459 18821 18879 0.03970580336522289 RSIARVRFRYS 11 Unmodified _RSIARVRFRYS_ 0 0 0 REV__ENST00000475306.1_1_1:24410803-24434643:-|nuORF REV__ENST00000475306.1_1_1:24410803-24434643:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.9389953613281 3 470.940743 1409.8004 NaN NaN NaN NaN NaN NaN NaN 85.818 1 85.846 85.346 86.346 0.028603 0 0 0 1.0037 1 43029 43029 5.8681 3.9406 1 + 29145 12341 18822 18880 32740 32740 0.1118915735119117 RSILPFHI 8 Unmodified _RSILPFHI_ 0 0 0 REV__ENST00000454079.5_1_3:50004874-50005063:+|nuORF REV__ENST00000454079.5_1_3:50004874-50005063:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7963562011719 2 491.795269 981.575986 3.3407 0.001643 1.3814 0.00067934 4.7221 0.0023223 491.79572697718265 43.705 0.23346 44.354 44.187 44.42 0.64872 23 14 2 0 0 0 0.70799 1 19996 19996 5.2307 0 1 4206900 + 29146 16431 18823 18881 32741 32741 0.08446074267999393 RSKKLDIYYLR 11 Unmodified _RSKKLDIYYLR_ 0 0 0 REV__GSAP|p.N794Kfs*6|1|0.07|ENSG00000186088|chr7:77311932-77311933|-/GTAGACCC|frameshift_variant REV__GSAP|p.N794Kfs*6|1|0.07|ENSG00000186088|chr7:77311932-77311933|-/GTAGACCC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 727.9284057617188 2 727.927543 1453.84053 NaN NaN NaN NaN NaN NaN NaN 45.104 1 45.93 45.43 46.43 0.82621 0 0 0 1.008 1 20540 20540 0.30703 0 1 + 29147 14042 18824 18882 32742 32742 0.13176659231089616 RSKLRSVSV 9 Unmodified _RSKLRSVSV_ 0 0 0 ENST00000469704.1_1_20:17934783-17949290:-|nuORF;ENSG00000089006|ENST00000377759|SNX5 ENST00000469704.1_1_20:17934783-17949290:-|nuORF ENST00000469704.1_1_20:17934783-17949290:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 344.54815673828125 3 344.548852 1030.62473 2.5765 0.00088774 -2.7721 -0.00095512 -0.19556 -6.7381E-05 344.5473988648477 12.591 0.072845 12.591 12.557 12.63 0 9 6 2 0 0 0 0.035342 1 5485 5485 53.47 26.246 1 1776500 29148 8165 18825 18883 32743 32743 0.1106394283708596 RSKLRSVSV 9 Unmodified _RSKLRSVSV_ 0 0 0 ENST00000469704.1_1_20:17934783-17949290:-|nuORF;ENSG00000089006|ENST00000377759|SNX5 ENST00000469704.1_1_20:17934783-17949290:-|nuORF ENST00000469704.1_1_20:17934783-17949290:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 344.548852 1030.62473 1.7123 0.00058997 -2.2659 -0.00078071 -0.55357 -0.00019073 344.5485232322851 12.433 0.098142 12.74 12.672 12.77 0.30727 0.074378 0.00045631 NaN 53.47 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 3543500 29149 8165 18825 18883 0.1106394283708596 RSKLTENL 8 Unmodified _RSKLTENL_ 0 0 0 ENSG00000117266|ENST00000429964|CDK18;nc|ENSG00000117266|Q07002-3|CDK18;ENST00000504648.5_1_1:205492597-205500503:+|nuORF;nc|ENSG00000059758|Q00537-2|CDK17;ENSG00000059758|ENST00000261211|CDK17;ENST00000505932.5_1_1:205492708-205498898:+|nuORF;ENST00000476153.6_1_1:205492708-205496295:+|nuORF ENSG00000117266|ENST00000429964|CDK18 ENSG00000117266|ENST00000429964|CDK18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 320.8546447753906 3 320.853941 959.539994 2.091 0.00067091 0.12167 3.9039E-05 2.2127 0.00070995 320.85393469109636 14.365 0.15874 14.671 14.593 14.752 0.3069 16 6 3 0 0 0 0.57648 1 6505 6505 12.241 0 1 4139200 29150 2066 18826 18884 32744 32744 0.058605723004689025 RSKRFRLL 8 Unmodified _RSKRFRLL_ 0 0 0 nc|ENSG00000048342|Q9P2K1-2|CC2D2A;ENSG00000048342|ENST00000424120|CC2D2A nc|ENSG00000048342|Q9P2K1-2|CC2D2A nc|ENSG00000048342|Q9P2K1-2|CC2D2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.2358703613281 3 359.233087 1074.67743 NaN NaN NaN NaN NaN NaN NaN 61.312 1 61.564 61.064 62.064 0.25245 0 0 0 0.99035 1 28078 28078 1.4819 0 1 29151 567 18827 18885 32745 32745 0.14307945690575252 RSKSKITVTS 10 Unmodified _RSKSKITVTS_ 0 0 0 RPL22|p.Y90Ifs*6|1|0.27|ENSG00000116251|chr1:6186791-6186792|-/T|frameshift_variant;ENSG00000116251|ENST00000234875|RPL22;ENST00000469811.1_1_14:77352823-77353039:-|nuORF RPL22|p.Y90Ifs*6|1|0.27|ENSG00000116251|chr1:6186791-6186792|-/T|frameshift_variant RPL22|p.Y90Ifs*6|1|0.27|ENSG00000116251|chr1:6186791-6186792|-/T|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.8320922851562 2 553.830037 1105.64552 3.513 0.0019456 -0.31558 -0.00017478 3.1975 0.0017709 553.8300131900018 83.535 1.7337 83.782 83.072 84.806 0.24722 190 102 3 0 0 0 0.87461 2 38457 38457;38634 4.897 4.897 1 1263700 29152 2021 18828 18886 32746;32747 32746 0.09692488426094314 RSKSKITVTS 10 Unmodified _RSKSKITVTS_ 0 0 0 RPL22|p.Y90Ifs*6|1|0.27|ENSG00000116251|chr1:6186791-6186792|-/T|frameshift_variant;ENSG00000116251|ENST00000234875|RPL22;ENST00000469811.1_1_14:77352823-77353039:-|nuORF RPL22|p.Y90Ifs*6|1|0.27|ENSG00000116251|chr1:6186791-6186792|-/T|frameshift_variant RPL22|p.Y90Ifs*6|1|0.27|ENSG00000116251|chr1:6186791-6186792|-/T|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.8325805664062 2 553.830037 1105.64552 3.6482 0.0020205 -0.88014 -0.00048745 2.7681 0.0015331 553.8298872609851 83.238 1.3416 83.898 83.123 84.464 0.66019 144 80 2 0 0 0 0.80609 1 38332 38332 8.1555 5.1603 1 2121600 29153 2021 18828 18886 32748 32748 0.09692488426094314 RSLGPVGR 8 Unmodified _RSLGPVGR_ 0 0 0 REV__nc|ENSG00000151651|P78325-2|ADAM8 REV__nc|ENSG00000151651|P78325-2|ADAM8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.2547912597656 2 421.253769 840.492984 2.7513 0.001159 0.32029 0.00013492 3.0716 0.0012939 421.2537947049987 76.912 0.43361 77.575 77.44 77.873 0.66303 48 36 2 0 0 0 0.72385 1 35438 35438 3.9444 1.8846 1 381720 + 29154 17983 18829 18887 32749 32749 0.06635757539993392 RSLGPVGR 8 Unmodified _RSLGPVGR_ 0 0 0 REV__nc|ENSG00000151651|P78325-2|ADAM8 REV__nc|ENSG00000151651|P78325-2|ADAM8 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 421.253769 840.492984 2.791 0.0011757 0.63398 0.00026707 3.4249 0.0014428 421.2540039124337 77.238 0.42274 77.493 77.356 77.779 0.25533 -0.041127 0.00012738 NaN 3.9444 39 29 2 NaN NaN NaN NaN 0 NaN NaN 0 457260 + 29155 17983 18829 18887 0.06635757539993392 RSLGPVGR 8 Unmodified _RSLGPVGR_ 0 0 0 REV__nc|ENSG00000151651|P78325-2|ADAM8 REV__nc|ENSG00000151651|P78325-2|ADAM8 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 421.253769 840.492984 2.7513 0.001159 0.32029 0.00013492 3.0716 0.0012939 421.2537947049987 76.912 0.43361 77.575 77.44 77.873 0.66303 0.041127 -0.00013691 NaN 3.9444 48 36 2 NaN NaN NaN NaN 0 NaN NaN 0 381720 + 29156 17983 18829 18887 0.06635757539993392 RSLKTQWWHWW 11 Unmodified _RSLKTQWWHWW_ 0 0 0 ENST00000318443.9_1_15:73976775-73994724:+|nuORF ENST00000318443.9_1_15:73976775-73994724:+|nuORF ENST00000318443.9_1_15:73976775-73994724:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.41015625 2 807.409852 1612.80515 NaN NaN NaN NaN NaN NaN NaN 53.07 1 53.07 52.57 53.57 0 0 0 0 1.0082 1 24305 24305 0 0 1 29157 6916 18830 18888 32750 32750 0.02326041493915909 RSLLASMPYR 10 Unmodified _RSLLASMPYR_ 0 0 0 REV__ENSG00000133318|ENST00000377819|RTN3 REV__ENSG00000133318|ENST00000377819|RTN3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.51361083984375 3 398.553497 1192.63866 2.9876 0.0011907 -0.57128 -0.00022769 2.4163 0.00096302 398.55324901847524 45.941 0.22317 46.207 46.103 46.326 0.26561 13 8 2 0 0 0 0.12676 1 21040 21040 0.62683 0 1 441920 + 29158 11932 18831 18889 32751 32751 0.05004852273850702 RSLPILLQQVQ 11 Unmodified _RSLPILLQQVQ_ 0 0 0 ENST00000557709.1_1_14:83484701-83484893:-|nuORF ENST00000557709.1_1_14:83484701-83484893:-|nuORF ENST00000557709.1_1_14:83484701-83484893:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.5971374511719 3 432.266233 1293.77687 NaN NaN NaN NaN NaN NaN NaN 66.839 1 67.544 67.044 68.044 0.7047 0 0 0 1.0063 1 31709 31709 1.0136 0 1 29159 8943 18832 18890 32752 32752 0.14173298793980393 RSLQHILVQ 9 Unmodified _RSLQHILVQ_ 0 0 0 REV__nc|ENSG00000261236|Q14137-2|BOP1 REV__nc|ENSG00000261236|Q14137-2|BOP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.22216796875 3 365.220735 1092.64038 2.6638 0.00097286 0.40409 0.00014758 3.0678 0.0011204 365.2209661793665 18.553 0.30088 19.214 19.089 19.39 0.66072 109 35 4 0 0 0 0.078225 1 8389 8389 29.437 3.4165 1 25441000 + 29160 14691 18833 18891 32753 32753 0.0977622935411091 RSLRRRKRRRR 11 Unmodified _RSLRRRKRRRR_ 0 0 0 ENST00000356166.10_3_16:30671065-30671251:+|nuORF ENST00000356166.10_3_16:30671065-30671251:+|nuORF ENST00000356166.10_3_16:30671065-30671251:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 798.5201416015625 2 798.522531 1595.03051 NaN NaN NaN NaN NaN NaN NaN 66.548 1 66.548 66.048 67.048 0 0 0 0 1.0082 1 31822 31822 0 0 1 29161 7153 18834 18892 32754 32754 0.25679428527314485 RSQIEQPL 8 Unmodified _RSQIEQPL_ 0 0 0 REV__ENSG00000006194|ENST00000219069|ZNF263 REV__ENSG00000006194|ENST00000219069|ZNF263 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.77117919921875 2 485.769448 969.524344 3.339 0.001622 0.1419 6.8929E-05 3.4809 0.0016909 485.7694866081749 21.84 0.31752 21.84 21.67 21.987 0 59 26 3 0 0 0 0.51067 1 9832 9832 20.454 0 1 363050 + 29162 10188 18835 18893 32755 32755 0.03836285783427229 RSQLKVKD 8 Unmodified _RSQLKVKD_ 0 0 0 REV__ENSG00000108828|ENST00000355653|VAT1 REV__ENSG00000108828|ENST00000355653|VAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2950134277344 2 487.293091 972.571629 3.1877 0.0015533 0.06083 2.9642E-05 3.2485 0.001583 487.29298025470536 85.121 0.72693 85.369 85.174 85.901 0.24758 87 41 3 0 0 0 0.72814 1 39188 39188 3.5965 0.60125 1 967810 + 29163 11158 18836 18894 32756 32756 0.08424565054417599 RSRKKRARPN 10 Unmodified _RSRKKRARPN_ 0 0 0 REV__ENSG00000170092|ENST00000625065|SPDYE5 REV__ENSG00000170092|ENST00000625065|SPDYE5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.5986022949219 3 423.597199 1267.76977 3.76 0.0015927 0.063036 2.6702E-05 3.823 0.0016194 423.5972018972526 109.74 0.72737 110.05 109.57 110.3 0.31016 40 27 2 0 0 0 0.94246 1 50583 50583 0.13989 0 1 123740 + 29164 13421 18837 18895 32757 32757 0.14659423756802425 RSRKKRRT 8 Unmodified _RSRKKRRT_ 0 0 0 REV__ENST00000355683.9_2_14:31424854-31495419:-|nuORF REV__ENST00000355683.9_2_14:31424854-31495419:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.237060546875 3 363.23549 1086.68464 NaN NaN NaN NaN NaN NaN NaN 61.428 1 61.428 60.928 61.928 0 0 0 0 0.99035 1 28650 28650 3.5965 0 1 + 29165 15543 18838 18896 32758 32758 0.1447667829099828 RSRKLCHQL 9 Unmodified _RSRKLCHQL_ 0 0 0 REV__ENST00000607664.1_1_11:18363085-18363274:+|nuORF REV__ENST00000607664.1_1_11:18363085-18363274:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 380.88604736328125 3 380.88547 1139.63458 2.3178 0.00088283 0.68819 0.00026212 3.006 0.001145 380.88562400692376 63.296 0.6755 63.296 62.859 63.534 0 187 75 4 0 0 0 1.129 1 29539 29539 0.96228 0 1 11495000 + 29166 17673 18839 18897 32759 32759 0.07034807570812518 RSRKLCRI 8 Unmodified _RSRKLCRI_ 0 0 0 REV__nc|ENSG00000128805|Q7Z5H3-3|ARHGAP22 REV__nc|ENSG00000128805|Q7Z5H3-3|ARHGAP22 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.54638671875 3 344.546677 1030.6182 1.7123 0.00058997 4.0469 0.0013943 5.7592 0.0019843 344.5485232322851 12.433 0.098142 12.74 12.672 12.77 0.30727 8 6 2 0 0 0 0.51123 1 5613 5613 20.415 5.1661 1 3543500 + 29167 17928 18840 18898 32760 32760 0.1041172640473178 RSRKLILFIVF 11 Unmodified _RSRKLILFIVF_ 0 0 0 nc|ENSG00000165646|Q05940-2|SLC18A2;ENSG00000165646|ENST00000644641|SLC18A2 nc|ENSG00000165646|Q05940-2|SLC18A2 nc|ENSG00000165646|Q05940-2|SLC18A2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.4771728515625 4 348.727595 1390.88128 2.6516 0.00092467 -0.83485 -0.00029114 1.8167 0.00063354 348.72719260778297 40.296 0.65414 40.563 40.103 40.757 0.26696 51 24 3 0 0 0 0.13295 1 18338 18338 0.40827 0.335 1 2527300 29168 4412 18841 18899 32761 32761 0.20147045341354897 RSRKLILFIVF 11 Unmodified _RSRKLILFIVF_ 0 0 0 nc|ENSG00000165646|Q05940-2|SLC18A2;ENSG00000165646|ENST00000644641|SLC18A2 nc|ENSG00000165646|Q05940-2|SLC18A2 nc|ENSG00000165646|Q05940-2|SLC18A2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.4773254394531 4 348.727595 1390.88128 2.6277 0.00091634 -1.2764 -0.00044513 1.3512 0.00047121 348.72708283330724 39.735 0.59449 40.376 40.178 40.772 0.64136 45 26 2 0 0 0 0.13295 1 18176 18176 0.40827 0.335 1 1432800 29169 4412 18841 18899 32762 32762 0.20147045341354897 RSRKLKLF 8 Unmodified _RSRKLKLF_ 0 0 0 ENSG00000196305|ENST00000443024|IARS1 ENSG00000196305|ENST00000443024|IARS1 ENSG00000196305|ENST00000443024|IARS1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.2074890136719 3 349.897704 1046.67128 2.4477 0.00085646 -0.45983 -0.00016089 1.9879 0.00069557 350.2320772909991 49.777 0.050823 50.434 50.4 50.451 0.65735 4 2 2 0 0 0 0.14331 1 22767 22767 0.26902 0 1 393270 29170 5731 18842 18900 32763 32763 0.1498142745901987 RSRKRHKRKRS 11 Unmodified _RSRKRHKRKRS_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.4890441894531 4 374.488271 1493.92398 2.8502 0.0010674 -0.74978 -0.00028079 2.1004 0.00078658 374.4878673738441 37.359 1.3636 37.359 36.624 37.987 0 193 54 4 0 0 0 0.91184 3 16765 16765;16810;16861 0.32927 0.25601 1 1846700 + 29171 14485 18843 18901 32764;32765;32766 32764 0.1967725324213916 RSRKRHKRKRS 11 Unmodified _RSRKRHKRKRS_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.4888916015625 4 374.488271 1493.92398 2.836 0.001062 -0.66168 -0.00024779 2.1743 0.00081425 374.7387911368607 39.628 1.5354 39.628 38.636 40.172 0 175 63 3 0 0 0 0.89844 1 17800 17800 1.0136 0.93022 1 1412700 + 29172 14485 18843 18901 32767 32767 0.1967725324213916 RSRKRHKRKRS 11 Unmodified _RSRKRHKRKRS_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.48883056640625 4 374.488271 1493.92398 2.505 0.00093811 -0.39138 -0.00014657 2.1136 0.00079154 374.7389320195896 35.816 1.2401 36.607 36.406 37.646 0.79131 151 55 4 0 0 0 0.89844 3 16244 16192;16244;16310 1.0136 0.60531 1 3822200 + 29173 14485 18843 18901 32768;32769;32770 32769 0.1967725324213916 RSRKRHKRKRS 11 Unmodified _RSRKRHKRKRS_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.4895935058594 4 374.488271 1493.92398 2.4286 0.00090949 -0.40254 -0.00015075 2.0261 0.00075875 374.4878763846132 38.188 1.5095 38.983 38.452 39.961 0.79552 120 65 4 0 0 0 0.91184 2 17144 17144;17233 0.32927 0.25601 1 1489500 + 29174 14485 18843 18901 32771;32772 32771 0.1967725324213916 RSRKRHKRKRS 11 Unmodified _RSRKRHKRKRS_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.4891662597656 4 374.488271 1493.92398 2.7883 0.0010442 -0.76343 -0.0002859 2.0249 0.00075831 374.4879519939438 36.581 1.3641 36.838 36.422 37.786 0.25768 129 47 4 0 0 0 0.89844 3 16674 16622;16674;16740 1.0136 0.6843 1 2886100 + 29175 14485 18843 18901 32773;32774;32775 32774 0.1967725324213916 RSRKRHKRKRS 11 Unmodified _RSRKRHKRKRS_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.48931884765625 4 374.488271 1493.92398 2.5817 0.00096681 -0.2666 -9.9838E-05 2.3151 0.00086697 374.48798355040594 38.539 1.5964 38.803 38.437 40.034 0.26408 155 61 4 0 0 0 0.89844 1 17518 17518 1.0136 0.60531 1 3421100 + 29176 14485 18843 18901 32776 32776 0.1967725324213916 RSRKRHKRKRS 11 Unmodified _RSRKRHKRKRS_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.4891052246094 4 374.488271 1493.92398 2.7748 0.0010391 -0.61106 -0.00022883 2.1637 0.00081029 374.4880122841594 35.901 1.2261 36.528 36.099 37.325 0.62631 127 44 4 0 0 0 0.89844 3 16456 16400;16456;16518 1.0136 0.60531 1 3139000 + 29177 14485 18843 18901 32777;32778;32779 32778 0.1967725324213916 RSRKRHKRKRS 11 Unmodified _RSRKRHKRKRS_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 374.488271 1493.92398 2.5893 0.00096965 -0.22871 -8.5651E-05 2.3606 0.000884 374.48803964428834 38.456 1.8491 39.09 38.118 39.968 0.63388 0.13109 0.00011127 NaN 1.0136 140 69 4 NaN NaN NaN NaN 0 NaN NaN 0 698580 + 29178 14485 18843 18901 0.1967725324213916 RSRKVQLPPLL 11 Unmodified _RSRKVQLPPLL_ 0 0 0 REV__ENST00000568206.1_1_15:28362108-28362639:-|nuORF REV__ENST00000568206.1_1_15:28362108-28362639:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 327.08660888671875 4 327.463399 1305.82449 1.7277 0.00056577 -1.0323 -0.00033804 0.69544 0.00022773 327.46300779904533 51.514 0.33155 52.332 52.155 52.487 0.81738 36 22 2 0 0 0 0.13295 1 23519 23519 0.40827 0.24894 1 1412900 + 29179 17425 18844 18902 32780 32780 0.18380997784856845 RSRKVQLPPLL 11 Unmodified _RSRKVQLPPLL_ 0 0 0 REV__ENST00000568206.1_1_15:28362108-28362639:-|nuORF REV__ENST00000568206.1_1_15:28362108-28362639:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 327.463399 1305.82449 2.1769 0.00071287 -1.4813 -0.00048507 0.69563 0.00022779 327.4629674833918 52.633 0.21755 52.633 52.576 52.793 0 0.20465 -0.00018998 NaN 0.40827 31 19 2 NaN NaN NaN NaN 0 NaN NaN 0 3000700 + 29180 17425 18844 18902 0.18380997784856845 RSRKVQLPPLL 11 Unmodified _RSRKVQLPPLL_ 0 0 0 REV__ENST00000568206.1_1_15:28362108-28362639:-|nuORF REV__ENST00000568206.1_1_15:28362108-28362639:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 327.463399 1305.82449 2.3094 0.00075625 -1.4653 -0.00047984 0.8441 0.00027641 327.4629826193965 52.058 0.43847 52.32 52.15 52.588 0.26228 -0.10789 -0.00016903 NaN 0.40827 40 29 2 NaN NaN NaN NaN 0 NaN NaN 0 1989900 + 29181 17425 18844 18902 0.18380997784856845 RSRLTPVSPES 11 Unmodified _RSRLTPVSPES_ 0 0 0 ENST00000466342.1_1_5:179250916-179260288:+|nuORF;nc|ENSG00000161011|Q13501-2|SQSTM1;ENSG00000161011|ENST00000389805|SQSTM1 ENST00000466342.1_1_5:179250916-179260288:+|nuORF ENST00000466342.1_1_5:179250916-179260288:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.835205078125 2 614.835851 1227.65715 NaN NaN NaN NaN NaN NaN NaN 55.079 1 55.079 54.579 55.579 0 0 0 0 1.0075 1 25293 25293 0.96228 0 1 29182 4090 18845 18903 32781 32781 0.052426854494115105 RSRPLPPPG 9 Unmodified _RSRPLPPPG_ 0 0 0 ENST00000599172.2_1_9:131938181-131938688:+|nuORF ENST00000599172.2_1_9:131938181-131938688:+|nuORF ENST00000599172.2_1_9:131938181-131938688:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.78973388671875 2 488.787976 975.561398 NaN NaN NaN NaN NaN NaN NaN 19.078 1 19.375 18.875 19.875 0.29753 0 0 0 0.69911 1 8669 8669 12.532 4.6214 1 29183 9292 18846 18904 32782 32782 0.07264002119848101 RSRRCRCRRRR 11 Unmodified _RSRRCRCRRRR_ 0 0 0 ENST00000583932.1_1_17:56065528-56065615:-|nuORF ENST00000583932.1_1_17:56065528-56065615:-|nuORF ENST00000583932.1_1_17:56065528-56065615:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.012451171875 3 520.963893 1559.86985 NaN NaN NaN NaN NaN NaN NaN 61.705 1 61.705 61.205 62.205 0 0 0 0 1.0082 1 28814 28814 0.094841 0 1 29184 9164 18847 18905 32783 32783 0.11231014547274754 RSRSRKRHKRK 11 Unmodified _RSRSRKRHKRK_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.31781005859375 3 498.981936 1493.92398 3.0683 0.001531 0.30842 0.00015389 3.3767 0.0016849 499.3163401467913 37.104 0.63084 37.104 36.691 37.322 0 48 25 3 0 0 0 0.91391 1 16869 16869 0.08335 0 1 367260 + 29185 14485 18848 18906 32784 32784 0.1967725324213916 RSRSRKRHKRK 11 Unmodified _RSRSRKRHKRK_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.7400207519531 4 374.488271 1493.92398 2.836 0.001062 -0.66168 -0.00024779 2.1743 0.00081425 374.7387911368607 39.628 1.5354 39.628 38.636 40.172 0 175 63 3 0 0 0 0.91149 2 17743 17743;17855 0.36667 0.037403 1 1412700 + 29186 14485 18848 18906 32785;32786 32785 0.1967725324213916 RSRSRKRHKRK 11 Unmodified _RSRSRKRHKRK_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.73992919921875 4 374.488271 1493.92398 2.4286 0.00090949 -0.40254 -0.00015075 2.0261 0.00075875 374.4878763846132 38.188 1.5095 38.983 38.452 39.961 0.79552 120 65 4 0 0 0 0.91391 1 17295 17295 0.08335 0 1 1489500 + 29187 14485 18848 18906 32787 32787 0.1967725324213916 RSRSRKRHKRK 11 Unmodified _RSRSRKRHKRK_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.9836730957031 3 498.981936 1493.92398 3.2439 0.0016187 -0.096659 -4.8231E-05 3.1473 0.0015704 499.3160369034282 36.567 0.50266 36.824 36.576 37.078 0.25768 38 18 3 0 0 0 0.91391 1 16648 16648 0.45452 0.37117 1 439510 + 29188 14485 18848 18906 32788 32788 0.1967725324213916 RSRSRKRHKRK 11 Unmodified _RSRSRKRHKRK_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.4894104003906 4 374.488271 1493.92398 2.5817 0.00096681 -0.2666 -9.9838E-05 2.3151 0.00086697 374.48798355040594 38.539 1.5964 38.803 38.437 40.034 0.26408 155 61 4 0 0 0 0.91149 3 17457 17457;17576;17638 0.36667 0.28332 1 3421100 + 29189 14485 18848 18906 32789;32790;32791 32789 0.1967725324213916 RSRSRKRHKRK 11 Unmodified _RSRSRKRHKRK_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.8337707519531 3 498.981936 1493.92398 3.3418 0.0016675 -0.15977 -7.9722E-05 3.182 0.0015878 498.98191008558985 37.051 0.70184 37.312 36.994 37.696 0.26083 36 22 2 0 0 0 0.13295 1 17004 17004 0.08335 0 1 308750 + 29190 14485 18848 18906 32792 32792 0.1967725324213916 RSRSRKRHKRK 11 Unmodified _RSRSRKRHKRK_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.74029541015625 4 374.488271 1493.92398 2.5893 0.00096965 -0.22871 -8.5651E-05 2.3606 0.000884 374.48803964428834 38.456 1.8491 39.09 38.118 39.968 0.63388 140 69 4 0 0 0 0.91391 1 17489 17489 0.08335 0 1 698580 + 29191 14485 18848 18906 32793 32793 0.1967725324213916 RSRSRKRHKRK 11 Unmodified _RSRSRKRHKRK_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 498.981936 1493.92398 3.0683 0.001531 0.30842 0.00015389 3.3767 0.0016849 499.3163401467913 37.104 0.63084 37.104 36.691 37.322 0 0.13964 0.00028797 NaN 0.08335 48 25 3 NaN NaN NaN NaN 0 NaN NaN 0 367260 + 29192 14485 18848 18906 0.1967725324213916 RSRSRKRHKRK 11 Unmodified _RSRSRKRHKRK_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 498.981936 1493.92398 3.2439 0.0016187 -0.096659 -4.8231E-05 3.1473 0.0015704 499.3160369034282 36.567 0.50266 36.824 36.576 37.078 0.25768 -0.13964 -0.00031841 NaN 0.08335 38 18 3 NaN NaN NaN NaN 0 NaN NaN 0 439510 + 29193 14485 18848 18906 0.1967725324213916 RSRVYKRYKKR 11 Unmodified _RSRVYKRYKKR_ 0 0 0 REV__nc|ENSG00000162711|Q96P20-3|NLRP3 REV__nc|ENSG00000162711|Q96P20-3|NLRP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 770.4717407226562 2 770.470775 1538.927 NaN NaN NaN NaN NaN NaN NaN 59.238 1 59.238 58.738 59.738 0 0 0 0 1.008 1 27377 27377 0.26902 0 1 + 29194 12953 18849 18907 32794 32794 0.17909083576273588 RSRWRRPWRVR 11 Unmodified _RSRWRRPWRVR_ 0 0 0 ENST00000481661.1_1_14:59931594-59931975:-|nuORF ENST00000481661.1_1_14:59931594-59931975:-|nuORF ENST00000481661.1_1_14:59931594-59931975:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.1383972167969 4 403.489542 1609.92906 3.1665 0.0012777 -1.1391 -0.00045961 2.0274 0.00081805 403.48933551887603 66.609 0.08284 66.859 66.805 66.888 0.2501 5 3 2 0 0 0 0.13295 1 30503 30503 0 0 1 427890 29195 8296 18850 18908 32795 32795 0.14849557104730593 RSSALKQQKK 10 Unmodified _RSSALKQQKK_ 0 0 0 ZNF485|p.H428Q|1|0.25|ENSG00000198298|chr10:43617327-43617327|T/G|missense_variant ZNF485|p.H428Q|1|0.25|ENSG00000198298|chr10:43617327-43617327|T/G|missense_variant ZNF485|p.H428Q|1|0.25|ENSG00000198298|chr10:43617327-43617327|T/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.3573608398438 2 587.356754 1172.69895 NaN NaN NaN NaN NaN NaN NaN 51.752 1 52.414 51.914 52.914 0.66198 0 0 0 0.99225 1 23666 23666 6.7232 0.99131 1 29196 18296 18851 18909 32796 32796 0.11951285928603284 RSSALLLRRVE 11 Unmodified _RSSALLLRRVE_ 0 0 0 REV__nc|ENSG00000198399|Q9NZM3-3|ITSN2 REV__nc|ENSG00000198399|Q9NZM3-3|ITSN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 650.3981323242188 2 650.39641 1298.77827 4.2799 0.0027836 -0.45446 -0.00029558 3.8254 0.002488 650.3962701297736 91.809 1.5567 92.061 91.527 93.084 0.25253 141 77 3 0 0 0 0.91104 1 42271 42271 1.1933 0 1 1576200 + 29197 18102 18852 18910 32797 32797 0.14082932882752175 RSSALLLRRVE 11 Unmodified _RSSALLLRRVE_ 0 0 0 REV__nc|ENSG00000198399|Q9NZM3-3|ITSN2 REV__nc|ENSG00000198399|Q9NZM3-3|ITSN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 650.3991088867188 2 650.39641 1298.77827 4.1142 0.0026759 -0.51135 -0.00033258 3.6028 0.0023433 650.3961305130782 91.482 1.3216 92.144 91.534 92.856 0.66198 132 63 3 0 0 0 0.91104 2 42127 42127;42222 1.1933 0 1 2244600 + 29198 18102 18852 18910 32798;32799 32798 0.14082932882752175 RSSALRPKRP 10 Unmodified _RSSALRPKRP_ 0 0 0 nc|ENSG00000171634|Q12830-4|BPTF;BPTF|p.A3017Efs*15|1|0.04|ENSG00000171634|chr17:67975903-67975904|-/AATATTCT|frameshift_variant;ENSG00000171634|ENST00000306378|BPTF;nc|ENSG00000171634|Q12830|BPTF nc|ENSG00000171634|Q12830-4|BPTF nc|ENSG00000171634|Q12830-4|BPTF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.3589477539062 2 584.357088 1166.69962 3.5428 0.0020703 -0.65702 -0.00038394 2.8858 0.0016864 584.3565834047538 85.728 0.64976 85.976 85.416 86.066 0.24857 47 33 2 0 0 0 0.93713 1 39478 39478 1.4819 0 1 868700 29199 87 18853 18911 32800 32800 0.12294125368293862 RSSARLTGKVF 11 Unmodified _RSSARLTGKVF_ 0 0 0 REV__ENST00000437205.5_1_3:183639090-183689734:-|nuORF REV__ENST00000437205.5_1_3:183639090-183689734:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.3587036132812 2 611.356754 1220.69895 3.7249 0.0022773 -0.35511 -0.0002171 3.3698 0.0020602 611.3563796151667 89.549 1.5947 90.227 89.501 91.096 0.67818 190 72 4 0 0 0 0.89844 1 41176 41176 2.4985 0.84587 1 4220300 + 29200 11331 18854 18912 32801 32801 0.09743285928584555 RSSCCCCCC 9 Unmodified _RSSCCCCCC_ 0 0 0 REV__ENSG00000080709|ENST00000673685|KCNN2 REV__ENSG00000080709|ENST00000673685|KCNN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.1237487792969 2 484.122696 966.230839 3.1687 0.001534 -0.96943 -0.00046932 2.1992 0.0010647 484.1222784852165 31.591 0.081833 32.209 32.151 32.232 0.61737 9 5 2 0 0 0 1.2459 1 14483 14483 0 0 1 224990 + 29201 10598 18855 18913 32802 32802 -0.2536267851245384 RSSESRNR 8 Unmodified _RSSESRNR_ 0 0 0 REV__nc|ENSG00000163728|Q96N46-2|TTC14 REV__nc|ENSG00000163728|Q96N46-2|TTC14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.1732177734375 3 331.172444 990.495504 NaN NaN NaN NaN NaN NaN NaN 70.907 1 70.907 70.407 71.407 0 0 0 0 0.99035 1 34450 34450 3.2813 0.28607 1 + 29202 13021 18856 18914 32803 32803 -0.00012438792998636927 RSSGSGGGA 9 Unmodified _RSSGSGGGA_ 0 0 0 ENSG00000185640|ENST00000330553|KRT79;CON__Q5XKE5 ENSG00000185640|ENST00000330553|KRT79 ENSG00000185640|ENST00000330553|KRT79 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 368.1738586425781 2 368.172641 734.33073 2.6939 0.00099182 0.35587 0.00013102 3.0498 0.0011228 368.17261027998177 58.373 0.27721 58.373 58.327 58.605 0 37 26 2 0 0 0 1.1154 1 26951 26951 2.0598 0 1 1636800 + 29203 237 18857 18915 32804 32804 -0.04706250932792955 RSSLRRSRQKP 11 Unmodified _RSSLRRSRQKP_ 0 0 0 REV__nc|ENSG00000198604|Q9NRL2-2|BAZ1A REV__nc|ENSG00000198604|Q9NRL2-2|BAZ1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.9113159179688 2 685.908008 1369.80146 4.5121 0.0030949 0.5766 0.00039549 5.0887 0.0034904 685.9083621922492 95.394 1.3047 95.661 95.107 96.411 0.2675 166 74 3 0 0 0 0.91184 1 43880 43880 0.96228 0.43751 1 1640800 + 29204 14343 18858 18916 32805 32805 0.13135371720068179 RSSLVRQRKRE 11 Unmodified _RSSLVRQRKRE_ 0 0 0 REV__ENSG00000107077|ENST00000381309|KDM4C REV__ENSG00000107077|ENST00000381309|KDM4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 707.9247436523438 2 707.921115 1413.82768 4.1614 0.0029459 0.62974 0.00044581 4.7911 0.0033917 707.9215012450778 96.173 0.53041 96.781 96.653 97.184 0.60769 48 25 3 0 0 0 0.91359 1 44255 44255 1.1933 1.1933 1 1760000 + 29205 11105 18859 18917 32806 32806 0.13731640891523966 RSSNLTKHKIV 11 Unmodified _RSSNLTKHKIV_ 0 0 0 ENSG00000182141|ENST00000356929|ZNF708 ENSG00000182141|ENST00000356929|ZNF708 ENSG00000182141|ENST00000356929|ZNF708 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.885498046875 2 641.883136 1281.75172 4.2699 0.0027408 -1.0168 -0.00065269 3.2531 0.0020881 641.8823463323495 91.922 1.25 92.174 91.475 92.725 0.25253 214 60 4 0 0 0 0.91111 3 42050 42050;42246;42393 1.1933 0.12188 1 2749900 29206 5313 18860 18918 32807;32808;32809 32807 0.12211243991396259 RSSRFLIKMFL 11 Unmodified _RSSRFLIKMFL_ 0 0 0 REV__ENST00000491720.5_1_2:182783382-182783506:+|nuORF REV__ENST00000491720.5_1_2:182783382-182783506:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.6092224121094 3 466.607713 1396.80131 3.0529 0.0014245 1.1784 0.00054983 4.2313 0.0019744 466.6081629207554 96.207 0.68438 96.814 96.615 97.3 0.60768 105 32 5 0 0 0 0.91359 1 44274 44274 0.40827 0 1 3062300 + 29207 16805 18861 18919 32810 32810 0.11878235675885662 RSSRLRKTF 9 Unmodified _RSSRLRKTF_ 0 0 0 REV__ENST00000566445.5_1_16:75642811-75646269:-|nuORF REV__ENST00000566445.5_1_16:75642811-75646269:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.8453369140625 2 575.843813 1149.67307 3.4294 0.0019748 -1.3655 -0.0007863 2.0639 0.0011885 575.8433308338505 85.771 1.3247 86.019 85.297 86.622 0.24857 140 68 3 0 0 0 1.129 1 39475 39475 1.8442 0 1 2393700 + 29208 17422 18862 18920 32811 32811 0.10422436476960684 RSSRRQLFRPL 11 Unmodified _RSSRRQLFRPL_ 0 0 0 REV__ENSG00000175857|ENST00000502276|GAPT REV__ENSG00000175857|ENST00000502276|GAPT MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 707.9248046875 2 708.420751 1414.82695 4.6022 0.0032603 4.231 0.0029973 8.8332 0.0062576 708.4248894468775 96.648 0.51122 96.926 96.452 96.963 0.27778 33 26 2 0 0 0 0.13295 1 44395 44395 1.1933 0 1 689440 + 29209 13681 18863 18921 32812 32812 0.13612846242494925 RSSTVRRKQRP 11 Unmodified _RSSTVRRKQRP_ 0 0 0 REV__ENST00000596989.1_1_19:23491864-23578234:-|nuORF REV__ENST00000596989.1_1_19:23491864-23578234:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.9118041992188 2 685.908008 1369.80146 4.5121 0.0030949 0.5766 0.00039549 5.0887 0.0034904 685.9083621922492 95.394 1.3047 95.661 95.107 96.411 0.2675 166 74 3 0 0 0 0.91111 2 43677 43677;43780 1.1933 0 1 1640800 + 29210 17616 18864 18922 32813;32814 32813 0.13135371720068179 RSTLDKLKDAP 11 Unmodified _RSTLDKLKDAP_ 0 0 0 REV__ENSG00000109685|ENST00000508803|NSD2 REV__ENSG00000109685|ENST00000508803|NSD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 622.345947265625 2 622.353877 1242.6932 NaN NaN NaN NaN NaN NaN NaN 96.484 1 96.484 95.984 96.984 0 0 0 0 1.005 1 52232 52232 4.1895 0.59301 1 + 29211 11175 18865 18923 32815 32815 0.08156142626285146 RSTQERPRRPL 11 Unmodified _RSTQERPRRPL_ 0 0 0 ENSG00000152492|ENST00000392455|CCDC50 ENSG00000152492|ENST00000392455|CCDC50 ENSG00000152492|ENST00000392455|CCDC50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.20648193359375 4 349.703646 1394.78548 2.5076 0.00087692 -0.33907 -0.00011858 2.1685 0.00075835 349.9536821960008 49.354 0.53308 50.009 49.713 50.246 0.65525 48 18 3 0 0 0 0.91068 1 22612 22612 0.45452 0 1 1020400 29212 3750 18866 18924 32816 32816 0.10387665483153796 RSVMIRILAKH 11 Unmodified _RSVMIRILAKH_ 0 0 0 REV__ENSG00000135046|ENST00000257497|ANXA1 REV__ENSG00000135046|ENST00000257497|ANXA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.95849609375 4 331.7065 1322.79689 2.1522 0.00071389 0.91951 0.00030501 3.0717 0.0010189 331.70671931125315 55.266 0.60477 55.531 55.178 55.783 0.26543 89 34 3 0 0 0 0.91111 1 25161 25161 0.40827 0 1 5491100 + 29213 11994 18867 18925 32817 32817 0.14840771252966078 RSVRWKLWLFT 11 Unmodified _RSVRWKLWLFT_ 0 0 0 REV__ENSG00000127362|ENST00000247879|TAS2R3 REV__ENSG00000127362|ENST00000247879|TAS2R3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 746.4332275390625 2 746.432796 1490.85104 NaN NaN NaN NaN NaN NaN NaN 66.774 1 67.024 66.524 67.524 0.2501 0 0 0 1.0075 1 30589 30589 0.96228 0 1 + 29214 11737 18868 18926 32818 32818 0.12524686676147212 RSWIGPGD 8 Unmodified _RSWIGPGD_ 0 0 0 ENSG00000196440|ENST00000423738|ARMCX4 ENSG00000196440|ENST00000423738|ARMCX4 ENSG00000196440|ENST00000423738|ARMCX4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 887.4429321289062 1 887.436992 886.429715 4.7556 0.0042203 1.5125 0.0013423 6.2681 0.0055626 887.4386157738052 104.48 0.078278 104.8 104.76 104.84 0.31863 23 18 2 0 0 0 0.7471 1 48239 48239 0.69038 0 1 507500 29215 5745 18869 18927 32819 32819 -0.018042279678979867 RSWRRRWQHRY 11 Unmodified _RSWRRRWQHRY_ 0 0 0 ENST00000570069.5_1_16:1826945-1827407:+|nuORF;ENST00000561903.6_1_16:1826945-1828699:+|nuORF ENST00000570069.5_1_16:1826945-1827407:+|nuORF ENST00000570069.5_1_16:1826945-1827407:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 844.039306640625 2 843.951072 1685.88759 NaN NaN NaN NaN NaN NaN NaN 99.373 1 99.435 98.935 99.935 0.062241 0 0 0 1.0082 1 53706 53706 0 0 1 29216 8989 18870 18928 32820 32820 0.07208376345465695 RTARKAVA 8 Unmodified _RTARKAVA_ 0 0 0 PLEKHA6|p.V328Yfs*172|1|0.3|ENSG00000143850|chr1:204259283-204259283|C/-|frameshift_variant;ENSG00000143850|ENST00000272203|PLEKHA6 PLEKHA6|p.V328Yfs*172|1|0.3|ENSG00000143850|chr1:204259283-204259283|C/-|frameshift_variant PLEKHA6|p.V328Yfs*172|1|0.3|ENSG00000143850|chr1:204259283-204259283|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.7751770019531 2 436.774868 871.535184 1.9484 0.00085102 0.18215 7.956E-05 2.1306 0.00093058 436.7749407544228 85.768 0.43036 85.797 85.626 86.057 0.02861 107 51 3 0 0 0 0.71384 1 43127 43127 4.756 0 1 19183000 29217 3397 18871 18929 32821 32821 0.09427732948370249 RTARPKRRR 9 Unmodified _RTARPKRRR_ 0 0 0 REV__nc|ENSG00000115266|O95996-3|APC2 REV__nc|ENSG00000115266|O95996-3|APC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.2586669921875 3 399.590156 1195.74864 NaN NaN NaN NaN NaN NaN NaN 40.816 1 41.085 40.585 41.585 0.26904 0 0 0 0.90431 1 18573 18573 2.4985 0.59211 1 + 29218 11351 18872 18930 32822 32822 0.15859458447926045 RTDWLLGAL 9 Unmodified _RTDWLLGAL_ 0 0 0 ENST00000564128.1_1_16:67866129-67867804:-|nuORF;ENST00000569862.5_1_16:67865986-67867804:-|nuORF ENST00000564128.1_1_16:67866129-67867804:-|nuORF ENST00000564128.1_1_16:67866129-67867804:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.7980346679688 2 522.795466 1043.57638 3.0582 0.0015988 0.52128 0.00027252 3.5794 0.0018713 522.7954941217813 54.121 0.42262 54.917 54.675 55.097 0.79552 58 23 3 0 0 0 0.11155 1 24655 24655 39.957 39.957 1 1274700 29219 9026 18873 18931 32823 32823 0.056334491971938405 RTERRRWKVIY 11 Unmodified _RTERRRWKVIY_ 0 0 0 REV__ENST00000404977.6_1_1:204937408-204955114:+|nuORF REV__ENST00000404977.6_1_1:204937408-204955114:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.6411743164062 3 521.639064 1561.89536 NaN NaN NaN NaN NaN NaN NaN 31.416 1 32.205 31.705 32.705 0.78879 0 0 0 1.0082 1 14188 14188 0.073264 0.073264 1 + 29220 12998 18874 18932 32824 32824 0.13689090822344951 RTFWYWNYNYY 11 Unmodified _RTFWYWNYNYY_ 0 0 0 nc|ENSG00000106392|Q9NS00-2|C1GALT1;ENSG00000106392|ENST00000436587|C1GALT1 nc|ENSG00000106392|Q9NS00-2|C1GALT1 nc|ENSG00000106392|Q9NS00-2|C1GALT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 838.3726806640625 2 838.370058 1674.72556 NaN NaN NaN NaN NaN NaN NaN 65.488 1 66.197 65.697 66.697 0.70891 0 0 0 1.0082 1 30980 30980 0 0 1 29221 1567 18875 18933 32825 32825 -0.08481069970684985 RTHTEERL 8 Unmodified _RTHTEERL_ 0 0 0 ENSG00000198028|ENST00000301480|ZNF560 ENSG00000198028|ENST00000301480|ZNF560 ENSG00000198028|ENST00000301480|ZNF560 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.2757568359375 2 521.275429 1040.53631 NaN NaN NaN NaN NaN NaN NaN 22.994 1 23.634 23.134 24.134 0.64051 0 0 0 0.86133 1 10484 10484 14.838 1.3304 1 29222 5859 18876 18934 32826 32826 0.0176590252663118 RTITLKKPPGA 11 Unmodified _RTITLKKPPGA_ 0 0 0 ENSG00000120509|ENST00000239666|PDZD11;nc|ENSG00000120509|Q5EBL8-2|PDZD11 ENSG00000120509|ENST00000239666|PDZD11 ENSG00000120509|ENST00000239666|PDZD11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.5860595703125 3 394.583674 1180.72919 2.7877 0.0011 3.2075 0.0012656 5.9952 0.0023656 394.5846664973879 38.779 0.29732 39.043 38.896 39.193 0.26408 14 11 2 0 0 0 0.89844 1 17697 17697 1.0136 0.38675 1 411370 29223 2193 18877 18935 32827 32827 0.14605644593802936 RTKAKQLY 8 Unmodified _RTKAKQLY_ 0 0 0 REV__ENSG00000183644|ENST00000375618|HOATZ REV__ENSG00000183644|ENST00000375618|HOATZ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.32330322265625 2 504.303458 1006.59236 NaN NaN NaN NaN NaN NaN NaN 63.202 1 63.86 63.36 64.36 0.65808 0 0 0 0.99035 1 28960 28960 5.2307 0 1 + 29224 13941 18878 18936 32828 32828 0.0893315543406743 RTKKKKKKLI 10 Unmodified _RTKKKKKKLI_ 0 0 0 REV__ENST00000427154.1_1_1:23346896-23414436:-|nuORF REV__ENST00000427154.1_1_1:23346896-23414436:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 424.30731201171875 3 424.306363 1269.89726 NaN NaN NaN NaN NaN NaN NaN 29.373 1 30.163 29.663 30.663 0.78921 0 0 0 1.0018 1 13239 13239 0.15932 0 1 + 29225 16225 18879 18937 32829 32829 0.2731075157826126 RTKREERRREF 11 Unmodified _RTKREERRREF_ 0 0 0 REV__nc|ENSG00000119041|Q9Y5Q9-2|GTF3C3 REV__nc|ENSG00000119041|Q9Y5Q9-2|GTF3C3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 781.934814453125 2 781.934754 1561.85495 NaN NaN NaN NaN NaN NaN NaN 37.918 1 37.918 37.418 38.418 0 0 0 0 1.008 1 17207 17207 0.35063 0 1 + 29226 11488 18880 18938 32830 32830 0.09650124431937002 RTLFRGRRRRE 11 Unmodified _RTLFRGRRRRE_ 0 0 0 nc|ENSG00000161813|Q71RC2-2|LARP4;nc|ENSG00000161813|Q71RC2-6|LARP4;nc|ENSG00000161813|Q71RC2-5|LARP4;nc|ENSG00000161813|Q71RC2-3|LARP4;ENSG00000161813|ENST00000398473|LARP4;nc|ENSG00000161813|Q71RC2-4|LARP4 nc|ENSG00000161813|Q71RC2-2|LARP4 nc|ENSG00000161813|Q71RC2-2|LARP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.6355285644531 3 501.634424 1501.88144 2.7012 0.001355 -0.017562 -8.8095E-06 2.6836 0.0013462 501.6342035809924 106.08 0.11707 106.08 106.02 106.14 0 9 5 2 0 0 0 0.91459 1 58287 58287 0.094841 0 1 1206200 29227 4104 18881 18939 32831 32831 0.15057858113891598 RTLFRGRRRRE 11 Unmodified _RTLFRGRRRRE_ 0 0 0 nc|ENSG00000161813|Q71RC2-2|LARP4;nc|ENSG00000161813|Q71RC2-6|LARP4;nc|ENSG00000161813|Q71RC2-5|LARP4;nc|ENSG00000161813|Q71RC2-3|LARP4;ENSG00000161813|ENST00000398473|LARP4;nc|ENSG00000161813|Q71RC2-4|LARP4 nc|ENSG00000161813|Q71RC2-2|LARP4 nc|ENSG00000161813|Q71RC2-2|LARP4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 501.634424 1501.88144 1.7872 0.00089654 1.1246 0.00056415 2.9119 0.0014607 501.63501083338247 106.2 0.14378 106.25 106.19 106.34 0.04837 -0.0088587 0.0013842 NaN 0.094841 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 1438000 29228 4104 18881 18939 0.15057858113891598 RTLFRGRRRRE 11 Unmodified _RTLFRGRRRRE_ 0 0 0 nc|ENSG00000161813|Q71RC2-2|LARP4;nc|ENSG00000161813|Q71RC2-6|LARP4;nc|ENSG00000161813|Q71RC2-5|LARP4;nc|ENSG00000161813|Q71RC2-3|LARP4;ENSG00000161813|ENST00000398473|LARP4;nc|ENSG00000161813|Q71RC2-4|LARP4 nc|ENSG00000161813|Q71RC2-2|LARP4 nc|ENSG00000161813|Q71RC2-2|LARP4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 501.634424 1501.88144 4.0598 0.0020366 0.083707 4.199E-05 4.1435 0.0020785 501.63440044218083 106.13 0.12125 106.44 106.37 106.49 0.31628 0.18603 -0.00018229 NaN 0.094841 12 4 3 NaN NaN NaN NaN 0 NaN NaN 0 859530 29229 4104 18881 18939 0.15057858113891598 RTLGRVPG 8 Unmodified _RTLGRVPG_ 0 0 0 ENST00000359060.5_1_1:1498357-1498459:-|nuORF ENST00000359060.5_1_1:1498357-1498459:-|nuORF ENST00000359060.5_1_1:1498357-1498459:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 428.2616882324219 2 428.261594 854.508634 2.3849 0.0010213 0.10936 4.6833E-05 2.4942 0.0010682 428.26152451246304 86.398 0.33612 86.398 86.247 86.583 0 99 43 3 0 0 0 0.61796 1 44204 44204 12.532 0 1 35401000 29230 7199 18882 18940 32832 32832 0.0755604405703707 RTLLRLLLRLL 11 Unmodified _RTLLRLLLRLL_ 0 0 0 ENSG00000183921|ENST00000602312|SDR42E2 ENSG00000183921|ENST00000602312|SDR42E2 ENSG00000183921|ENST00000602312|SDR42E2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 690.4862670898438 2 690.482289 1378.95002 NaN NaN NaN NaN NaN NaN NaN 95.207 1 95.475 94.975 95.975 0.2675 0 0 0 1.0082 1 43746 43746 0 0 1 29231 5412 18883 18941 32833 32833 0.27570709641076974 RTLNVTKEEP 10 Unmodified _RTLNVTKEEP_ 0 0 0 ENSG00000179532|ENST00000254579|DNHD1 ENSG00000179532|ENST00000254579|DNHD1 ENSG00000179532|ENST00000254579|DNHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 396.2214660644531 3 396.21906 1185.63535 NaN NaN NaN NaN NaN NaN NaN 54.971 1 55.236 54.736 55.736 0.26543 0 0 0 0.99641 1 25129 25129 4.7159 0.87001 1 29232 5220 18884 18942 32834 32834 0.04995880700857924 RTLRRRWRRRR 11 Unmodified _RTLRRRWRRRR_ 0 0 0 REV__ENST00000375344.7_1_9:97136898-97137102:+|nuORF REV__ENST00000375344.7_1_9:97136898-97137102:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 834.5223999023438 2 834.522531 1667.03051 NaN NaN NaN NaN NaN NaN NaN 94.989 1 95.607 95.107 96.107 0.61736 0 0 0 1.0082 1 43685 43685 0 0 1 + 29233 15801 18885 18943 32835 32835 0.22367428527286393 RTLTIELRRP 10 Unmodified _RTLTIELRRP_ 0 0 0 nc|ENSG00000185973|Q9NVH6-6|TMLHE;nc|ENSG00000185973|Q9NVH6-5|TMLHE;ENSG00000185973|ENST00000334398|TMLHE;nc|ENSG00000185973|Q9NVH6-8|TMLHE;nc|ENSG00000185973|Q9NVH6-7|TMLHE nc|ENSG00000185973|Q9NVH6-6|TMLHE nc|ENSG00000185973|Q9NVH6-6|TMLHE MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 418.9259033203125 3 418.926211 1253.7568 NaN NaN NaN NaN NaN NaN NaN 54.346 1 54.346 53.846 54.846 0 0 0 0 0.99807 1 24927 24927 3.3196 0.24738 1 29234 5550 18886 18944 32836 32836 0.1400754785402114 RTLYREVMLEN 11 Unmodified _RTLYREVMLEN_ 0 0 0 ENST00000402618.6_1_20:18269192-18290832:+|nuORF;ENST00000492115.2_1_9:97041094-97054826:+|nuORF;ENSG00000175787|ENST00000395395|ZNF169;nc|ENSG00000125846|P52736-2|ZNF133;ENSG00000125846|ENST00000425686|ZNF133;nc|ENSG00000125846|P52736-5|ZNF133 ENST00000402618.6_1_20:18269192-18290832:+|nuORF ENST00000402618.6_1_20:18269192-18290832:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 712.1666259765625 2 712.371743 1422.72893 NaN NaN NaN NaN NaN NaN NaN 84.357 1 84.357 83.857 84.857 0 0 0 0 1.0065 1 42696 42696 2.2828 0.95324 1 29235 7616 18887 18945 32837 32837 0.03447856811658312 RTMGSSPAPRR 11 Unmodified _RTMGSSPAPRR_ 0 0 0 REV__ENST00000361972.8_1_10:7212945-7217999:-|nuORF REV__ENST00000361972.8_1_10:7212945-7217999:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 405.88580322265625 3 405.884017 1214.63022 2.0639 0.00083772 0.67109 0.00027238 2.735 0.0011101 405.8841465295639 72.959 0.47316 72.959 72.54 73.013 0 75 44 2 0 0 0 0.83518 1 35431 35431 2.4348 0 1 2148100 + 29236 15635 18888 18946 32838 32838 0.03149298357220687 RTMGSSPAPRR 11 Unmodified _RTMGSSPAPRR_ 0 0 0 REV__ENST00000361972.8_1_10:7212945-7217999:-|nuORF REV__ENST00000361972.8_1_10:7212945-7217999:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.21923828125 3 405.884017 1214.63022 2.304 0.00093514 0.89895 0.00036487 3.2029 0.0013 405.88417911873387 72.123 0.76781 72.786 72.195 72.962 0.66324 109 59 3 0 0 0 0.89309 1 32892 32892 1.1098 1.1098 1 2213400 + 29237 15635 18888 18946 32839 32839 0.03149298357220687 RTMTGEPLP 9 Unmodified _RTMTGEPLP_ 0 0 0 REV__ENST00000499006.6_1_14:98435621-98444449:-|nuORF REV__ENST00000499006.6_1_14:98435621-98444449:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.25823974609375 2 501.257859 1000.50117 2.4919 0.0012491 -1.3085 -0.00065589 1.1834 0.00059319 501.25694633715847 76.833 0.45013 77.457 77.299 77.749 0.62397 67 32 3 0 0 0 0.98132 1 37276 37276 4.3292 0 1 1305500 + 29238 16877 18889 18947 32840 32840 0.000935236744339818 RTNINSSRDP 10 Unmodified _RTNINSSRDP_ 0 0 0 ENSG00000198734|ENST00000367797|F5 ENSG00000198734|ENST00000367797|F5 ENSG00000198734|ENST00000367797|F5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.20013427734375 3 387.198659 1158.57415 NaN NaN NaN NaN NaN NaN NaN 92.419 1 93.067 92.567 93.567 0.64714 0 0 0 1.0006 1 42521 42521 0.50596 0 1 29239 5923 18890 18948 32841 32841 0.001203687214456295 RTNINSSRDP 10 Unmodified _RTNINSSRDP_ 0 0 0 ENSG00000198734|ENST00000367797|F5 ENSG00000198734|ENST00000367797|F5 ENSG00000198734|ENST00000367797|F5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.19976806640625 3 387.198659 1158.57415 NaN NaN NaN NaN NaN NaN NaN 92.52 1 93.167 92.667 93.667 0.64714 0 0 0 1.0006 1 42567 42567 0.50596 0 1 29240 5923 18890 18948 32842 32842 0.001203687214456295 RTPRLWRRRQW 11 Unmodified _RTPRLWRRRQW_ 0 0 0 REV__nc|ENSG00000105618|Q8WWY3-2|PRPF31 REV__nc|ENSG00000105618|Q8WWY3-2|PRPF31 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 805.8811645507812 2 805.966191 1609.91783 NaN NaN NaN NaN NaN NaN NaN 69.63 1 69.63 69.13 70.13 0 0 0 0 1.0082 1 33654 33654 0.35063 0.35063 1 + 29241 17887 18891 18949 32843 32843 0.1372673501061854 RTPRTRRWRGF 11 Unmodified _RTPRTRRWRGF_ 0 0 0 chr6:30345228-30345322|352|21.19|0.0|21.02|+|1|RPP21,None|1;ENST00000428040.6_1_6:30313057-30313281:+|nuORF chr6:30345228-30345322|352|21.19|0.0|21.02|+|1|RPP21,None|1 chr6:30345228-30345322|352|21.19|0.0|21.02|+|1|RPP21,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.9541931152344 3 496.951754 1487.83343 NaN NaN NaN NaN NaN NaN NaN 56.694 1 57.472 56.972 57.972 0.77786 0 0 0 1.0071 1 25927 25927 1.4551 0.12547 1 29242 186 18892 18950 32844 32844 0.10902784193854131 RTRAGKKG 8 Unmodified _RTRAGKKG_ 0 0 0 REV__nc|ENSG00000132128|Q15345-3|LRRC41 REV__nc|ENSG00000132128|Q15345-3|LRRC41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2585144042969 2 437.272493 872.530432 3.2672 0.0014286 0.13325 5.8266E-05 3.4004 0.0014869 437.27248923560035 94.197 0.44796 94.828 94.599 95.047 0.63115 41 25 3 0 0 0 0.7471 1 43236 43236 0.52476 0.52476 1 798030 + 29243 11878 18893 18951 32845 32845 0.08906848805611389 RTRAGKKG 8 Unmodified _RTRAGKKG_ 0 0 0 REV__nc|ENSG00000132128|Q15345-3|LRRC41 REV__nc|ENSG00000132128|Q15345-3|LRRC41 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 437.272493 872.530432 3.5608 0.001557 -0.35842 -0.00015673 3.2024 0.0014003 437.27225725413734 94.684 0.37331 94.943 94.725 95.099 0.25975 0.05763 -0.00031939 NaN 0.52476 33 21 2 NaN NaN NaN NaN 0 NaN NaN 0 360270 + 29244 11878 18893 18951 0.08906848805611389 RTRAQWLPQVR 11 Unmodified _RTRAQWLPQVR_ 0 0 0 REV__ENST00000500893.3_1_20:279324-279489:+|nuORF REV__ENST00000500893.3_1_20:279324-279489:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.9424133300781 3 470.940743 1409.8004 NaN NaN NaN NaN NaN NaN NaN 56.072 1 56.337 55.837 56.837 0.26543 0 0 0 1.0066 1 25645 25645 2.084 0 1 + 29245 16880 18894 18952 32846 32846 0.11189157351145695 RTRASRRPRA 10 Unmodified _RTRASRRPRA_ 0 0 0 ENST00000235180.4_1_1:35334661-35351837:-|nuORF ENST00000235180.4_1_1:35334661-35351837:-|nuORF ENST00000235180.4_1_1:35334661-35351837:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.58148193359375 3 409.581549 1225.72282 NaN NaN NaN NaN NaN NaN NaN 98.913 1 99.213 98.713 99.713 0.29987 0 0 0 0.99678 1 45633 45633 4.4062 1.5629 1 29246 6458 18895 18953 32847 32847 0.11898564205648654 RTRAVRPLSL 10 Unmodified _RTRAVRPLSL_ 0 0 0 REV__chr19:6586405-6586581|130|62.98|0.04|10.47|-|0|TE_info:AluJr,AluJr_dup76409,Alu,SINE,donor,+,6586581,6586803|CD70,None|2 REV__chr19:6586405-6586581|130|62.98|0.04|10.47|-|0|TE_info:AluJr,AluJr_dup76409,Alu,SINE,donor,+,6586581,6586803|CD70,None|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.867919921875 2 584.867289 1167.72002 NaN NaN NaN NaN NaN NaN NaN 95.537 1 95.804 95.304 96.304 0.2675 0 0 0 0.99905 1 43896 43896 2.4985 0.84587 1 + 29247 10038 18896 18954 32848 32848 0.1428729602812382 RTRKKKKKKWY 11 Unmodified _RTRKKKKKKWY_ 0 0 0 REV__ENST00000406316.6_3_2:51255552-51255684:-|nuORF REV__ENST00000406316.6_3_2:51255552-51255684:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 775.49658203125 2 775.493719 1548.97288 NaN NaN NaN NaN NaN NaN NaN 69.132 1 69.834 69.334 70.334 0.70218 0 0 0 1.0082 1 33049 33049 0 0 1 + 29248 16070 18897 18955 32849 32849 0.2203572875853297 RTRLAAAP 8 Unmodified _RTRLAAAP_ 0 0 0 REV__ENST00000561241.1_1_15:63340374-63341172:-|nuORF REV__ENST00000561241.1_1_15:63340374-63341172:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 428.2627868652344 2 428.261594 854.508634 3.0171 0.0012921 -0.14513 -6.2152E-05 2.872 0.00123 428.2614651843856 85.781 0.62501 86.03 85.772 86.397 0.24857 83 29 4 0 0 0 0.7471 2 39470 39470;39524 0 0 1 43902000 + 29249 17370 18898 18956 32850;32851 32850 0.07556044057014333 RTRLMELHRQW 11 Unmodified _RTRLMELHRQW_ 0 0 0 nc|ENSG00000197694|Q13813-3|SPTAN1;nc|ENSG00000197694|Q13813|SPTAN1;ENSG00000197694|ENST00000372739|SPTAN1;SPTAN1|p.W2169Cfs*90|1|0.11|ENSG00000197694|chr9:128626632-128626632|G/-|frameshift_variant nc|ENSG00000197694|Q13813-3|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 763.4097900390625 2 763.412069 1524.80958 NaN NaN NaN NaN NaN NaN NaN 31.602 1 32.391 31.891 32.891 0.78879 0 0 0 1.008 1 14274 14274 0.26902 0 1 29250 5834 18899 18957 32852 32852 0.06817182645181674 RTRLWLRWKVH 11 Unmodified _RTRLWLRWKVH_ 0 0 0 ENST00000538342.5_1_16:28875260-28880378:+|nuORF ENST00000538342.5_1_16:28875260-28880378:+|nuORF ENST00000538342.5_1_16:28875260-28880378:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 775.9619140625 2 775.962586 1549.91062 NaN NaN NaN NaN NaN NaN NaN 84.728 1 85.393 84.893 85.893 0.66566 0 0 0 1.0082 1 39024 39024 0 0 1 29251 8782 18900 18958 32853 32853 0.15766002410168767 RTRPRPRLR 9 Unmodified _RTRPRPRLR_ 0 0 0 ENST00000354276.7_1_19:48608698-48613772:-|nuORF;nc|ENSG00000105499|Q9UP65-3|PLA2G4C ENST00000354276.7_1_19:48608698-48613772:-|nuORF ENST00000354276.7_1_19:48608698-48613772:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 403.2581481933594 3 403.258406 1206.75339 NaN NaN NaN NaN NaN NaN NaN 68.311 1 69.013 68.513 69.513 0.70218 0 0 0 0.89868 1 32563 32563 3.8763 0 1 29252 7142 18901 18959 32854 32854 0.15828342590680222 RTRQRRLLHRK 11 Unmodified _RTRQRRLLHRK_ 0 0 0 REV__ENSG00000178605|ENST00000326153|GTPBP6 REV__ENSG00000178605|ENST00000326153|GTPBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 760.8388061523438 2 760.479466 1518.94438 NaN NaN NaN NaN NaN NaN NaN 18.087 1 18.087 17.587 18.587 0 0 0 0 1.0082 1 8033 8033 0 0 1 + 29253 13767 18902 18960 32855 32855 0.20566423901937014 RTRRMKRRRKR 11 Unmodified _RTRRMKRRRKR_ 0 0 0 REV__ENST00000463639.1_1_6:32945663-32945765:+|nuORF REV__ENST00000463639.1_1_6:32945663-32945765:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.2665405273438 3 534.006087 1598.99643 NaN NaN NaN NaN NaN NaN NaN 90.863 1 90.863 90.363 91.363 0 0 0 0 1.0081 1 47848 47848 0.064406 0 1 + 29254 16514 18903 18961 32856 32856 0.2208926404405247 RTRRRRRRRRS 11 Unmodified _RTRRRRRRRRS_ 0 0 0 REV__ENST00000587097.5_1_17:42276902-42277037:-|nuORF REV__ENST00000587097.5_1_17:42276902-42277037:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.7303466796875 3 538.007367 1611.00027 NaN NaN NaN NaN NaN NaN NaN 72.827 1 73.491 72.991 73.991 0.66398 0 0 0 1.0082 1 33439 33439 0.073264 0.073264 1 + 29255 17548 18904 18962 32857 32857 0.2192106986210547 RTRSWPNKD 9 Unmodified _RTRSWPNKD_ 0 0 0 REV__ENST00000446986.1_1_X:118601674-118602110:-|nuORF REV__ENST00000446986.1_1_X:118601674-118602110:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.5393981933594 3 387.203744 1158.5894 2.8843 0.0011168 -0.99003 -0.00038334 1.8942 0.00073345 387.53769372552006 14.311 0.10082 14.959 14.919 15.02 0.64819 13 10 2 0 0 0 0.55815 1 6453 6453 11.495 3.5493 1 1025200 + 29256 15988 18905 18963 32858 32858 0.01645280309253394 RTRSWPNKD 9 Unmodified _RTRSWPNKD_ 0 0 0 REV__ENST00000446986.1_1_X:118601674-118602110:-|nuORF REV__ENST00000446986.1_1_X:118601674-118602110:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 387.203744 1158.5894 2.5266 0.00097833 -0.93701 -0.00036282 1.5896 0.00061551 387.20338706987394 14.815 0.22676 15.041 14.91 15.136 0.22622 0.15537 3.5342E-05 NaN 11.495 33 15 3 NaN NaN NaN NaN 0 NaN NaN 0 182080 + 29257 15988 18905 18963 0.01645280309253394 RTRSWPNKD 9 Unmodified _RTRSWPNKD_ 0 0 0 REV__ENST00000446986.1_1_X:118601674-118602110:-|nuORF REV__ENST00000446986.1_1_X:118601674-118602110:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 387.203744 1158.5894 2.6395 0.001022 -1.2092 -0.0004682 1.4303 0.00055382 387.2031867058065 14.35 0.11756 14.657 14.593 14.711 0.3069 -0.22867 -0.00028082 NaN 11.495 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 489190 + 29258 15988 18905 18963 0.01645280309253394 RTRSWPNKD 9 Unmodified _RTRSWPNKD_ 0 0 0 REV__ENST00000446986.1_1_X:118601674-118602110:-|nuORF REV__ENST00000446986.1_1_X:118601674-118602110:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 387.203744 1158.5894 2.8843 0.0011168 -0.99003 -0.00038334 1.8942 0.00073345 387.53769372552006 14.311 0.10082 14.959 14.919 15.02 0.64819 0.073302 -2.6239E-05 NaN 11.495 13 10 2 NaN NaN NaN NaN 0 NaN NaN 0 1025200 + 29259 15988 18905 18963 0.01645280309253394 RTRTGDVLL 9 Unmodified _RTRTGDVLL_ 0 0 0 ENSG00000064703|ENST00000369702|DDX20;nc|ENSG00000064703|Q9UHI6-2|DDX20 ENSG00000064703|ENST00000369702|DDX20 ENSG00000064703|ENST00000369702|DDX20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.8056030273438 2 515.803823 1029.59309 2.7622 0.0014248 0.27496 0.00014183 3.0372 0.0015666 515.8038772447662 12.698 0.088096 13.005 12.969 13.058 0.30727 4 2 2 0 0 0 1.0041 1 5751 5751 3.9444 0 1 361730 29260 677 18906 18964 32859 32859 0.07947950083143951 RTSQIPRL 8 Unmodified _RTSQIPRL_ 0 0 0 ENST00000495019.5_2_3:125075950-125076085:-|nuORF ENST00000495019.5_2_3:125075950-125076085:-|nuORF ENST00000495019.5_2_3:125075950-125076085:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.19921875 3 324.197931 969.571963 2.2233 0.0007208 1.1294 0.00036615 3.3527 0.001087 324.19838135073843 16.643 0.85959 17.301 16.755 17.614 0.65798 148 90 2 0 0 0 0.71384 1 7576 7576 3.2813 0.54611 1 122590 29261 8427 18907 18965 32860 32860 0.08595984774274257 RTWRRRRRMRR 11 Unmodified _RTWRRRRRMRR_ 0 0 0 REV__ENST00000281708.8_1_4:153271275-153332654:-|nuORF REV__ENST00000281708.8_1_4:153271275-153332654:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 843.7149047851562 2 843.500741 1684.98693 NaN NaN NaN NaN NaN NaN NaN 100.68 1 100.68 100.18 101.18 0 0 0 0 1.0082 1 55596 55596 0 0 1 + 29262 15091 18908 18966 32861 32861 0.17183495758513345 RVAAGRAK 8 Unmodified _RVAAGRAK_ 0 0 0 REV__ENSG00000171234|ENST00000305231|UGT2B7 REV__ENSG00000171234|ENST00000305231|UGT2B7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.76324462890625 2 414.761761 827.508969 3.1112 0.0012904 -0.0859 -3.5628E-05 3.0253 0.0012548 414.7616990757853 82.685 0.80868 83.345 82.965 83.773 0.66019 144 46 5 0 0 0 0.7471 1 38172 38172 0.69038 0 1 48409000 + 29263 13483 18909 18967 32862 32862 0.08831463776880355 RVALLASHPR 10 Unmodified _RVALLASHPR_ 0 0 0 REV__nc|ENSG00000168763|Q8NE01-2|CNNM3 REV__nc|ENSG00000168763|Q8NE01-2|CNNM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.341796875 2 560.340907 1118.66726 2.1142 0.0011847 -0.026382 -1.4783E-05 2.0878 0.0011699 560.3403418433696 98.362 0.12928 98.428 98.357 98.486 0.066032 16 9 3 0 0 0 0.9146 1 52871 52871 2.9952 0 1 18894000 + 29264 13365 18910 18968 32863 32863 0.11267337965296065 RVALRCRPLVP 11 Unmodified _RVALRCRPLVP_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 427.2654113769531 3 427.26417 1278.77068 3.1954 0.0013653 0.3555 0.00015189 3.5509 0.0015172 427.26422481651895 53.632 0.82609 53.632 53.336 54.162 0 215 63 5 0 0 0 0.89309 6 24453 24453;24508;24558;24606;24662;24709 2.4348 1.1098 1 52197000 29265 1069;6170 18911 18969 32864;32865;32866;32867;32868;32869 32864 0.14244502081464816 RVALRCRPLVP 11 Unmodified _RVALRCRPLVP_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 640.394775390625 2 640.392616 1278.77068 4.0716 0.0026074 0.44463 0.00028474 4.5163 0.0028922 640.392855801153 53.622 0.66453 53.622 53.369 54.034 0 121 47 3 0 0 0 0.84422 3 24614 24538;24614;24697 4.897 2.3985 1 7373400 29266 1069;6170 18911 18969 32870;32871;32872 32871 0.14244502081464816 RVALRCRPLVP 11 Unmodified _RVALRCRPLVP_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1279.781494140625 1 1279.77796 1278.77068 3.5004 0.0044798 0.089024 0.00011393 3.5895 0.0045937 1279.7781078621158 53.667 0.52583 53.667 53.404 53.93 0 65 36 2 0 0 0 0.89309 1 24542 24542 2.7352 0.23671 1 2374100 29267 1069;6170 18911 18969 32873 32873 0.14244502081464816 RVALRCRPLVP 11 Unmodified _RVALRCRPLVP_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 427.265869140625 3 427.26417 1278.77068 3.2735 0.0013986 0.10671 4.5593E-05 3.3802 0.0014442 427.26416021042604 54.016 0.3499 54.016 53.918 54.268 0 80 28 3 0 0 0 0.89309 1 24851 24851 1.1098 0.096179 1 17434000 29268 1069;6170 18911 18969 32874 32874 0.14244502081464816 RVALRCRPLVP 11 Unmodified _RVALRCRPLVP_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 427.2655944824219 3 427.26417 1278.77068 2.5155 0.0010748 0.15722 6.7173E-05 2.6727 0.0011419 427.2641305992262 52.707 0.70494 53.515 53.172 53.877 0.80791 172 45 4 0 0 0 0.89309 2 23895 23895;23944 1.1098 0.096179 1 31818000 29269 1069;6170 18911 18969 32875;32876 32875 0.14244502081464816 RVALRCRPLVP 11 Unmodified _RVALRCRPLVP_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 320.7006530761719 4 320.699946 1278.77068 2.0654 0.00066238 0.39083 0.00012534 2.4563 0.00078772 320.7000518036142 52.746 1.0254 53.549 53.162 54.187 0.8035 272 78 5 0 0 0 0.89309 1 24141 24141 1.1098 1.1098 1 79905000 29270 1069;6170 18911 18969 32877 32877 0.14244502081464816 RVALRCRPLVP 11 Unmodified _RVALRCRPLVP_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 427.2654113769531 3 427.26417 1278.77068 2.5959 0.0011091 0.19629 8.3866E-05 2.7922 0.001193 427.26427762744083 53.133 0.16842 53.937 53.86 54.028 0.80351 48 16 4 0 0 0 0.89309 1 24234 24234 1.1098 0 1 15099000 29271 1069;6170 18911 18969 32878 32878 0.14244502081464816 RVALRCRPLVP 11 Unmodified _RVALRCRPLVP_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.3943481445312 2 640.392616 1278.77068 NaN NaN NaN NaN NaN NaN NaN 52.716 1 53.52 53.02 54.02 0.80351 0 0 0 1.0061 1 24021 24021 2.7352 0 1 29272 1069;6170 18911 18969 32879 32879 0.14244502081464816 RVALRCRPLVP 11 Unmodified _RVALRCRPLVP_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 427.26580810546875 3 427.26417 1278.77068 3.0249 0.0012924 0.28393 0.00012131 3.3089 0.0014138 427.26419859333964 52.934 0.95043 53.197 52.8 53.75 0.26345 235 57 5 0 0 0 0.89309 7 24080 24080;24128;24177;24227;24276;24320;24366 2.4348 2.4348 1 38287000 29273 1069;6170 18911 18969 32880;32881;32882;32883;32884;32885;32886 32880 0.14244502081464816 RVALRCRPLVP 11 Unmodified _RVALRCRPLVP_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1279.7835693359375 1 1279.77796 1278.77068 3.2838 0.0042025 0.73101 0.00093553 4.0148 0.0051381 1279.7787083902103 52.844 0.89556 53.107 52.855 53.75 0.26345 93 55 2 0 0 0 0.89309 5 24299 24093;24205;24254;24299;24345 2.7352 0.23671 1 2285300 29274 1069;6170 18911 18969 32887;32888;32889;32890;32891 32890 0.14244502081464816 RVALRCRPLVP 11 Unmodified _RVALRCRPLVP_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 640.3955688476562 2 640.392616 1278.77068 3.8794 0.0024843 0.37613 0.00024087 4.2555 0.0027252 640.3927004764116 52.844 0.90569 53.107 52.824 53.73 0.26345 145 55 3 0 0 0 0.89309 5 24095 24095;24150;24199;24246;24346 2.7352 0.23671 1 5890600 29275 1069;6170 18911 18969 32892;32893;32894;32895;32896 32892 0.14244502081464816 RVALRCRPLVP 11 Unmodified _RVALRCRPLVP_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 427.2654724121094 3 427.26417 1278.77068 2.9647 0.0012667 0.57759 0.00024678 3.5423 0.0015135 427.26434015004907 53.568 0.60837 53.833 53.552 54.16 0.26462 95 28 4 0 0 0 0.89309 4 24411 24411;24457;24503;24565 2.4348 1.325 1 31520000 29276 1069;6170 18911 18969 32897;32898;32899;32900 32897 0.14244502081464816 RVALRCRPLVP 11 Unmodified _RVALRCRPLVP_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 427.5999450683594 3 427.26417 1278.77068 2.8504 0.0012179 0.40728 0.00017402 3.2577 0.0013919 427.2642530507898 52.741 1.0866 53.403 52.849 53.936 0.66198 199 47 5 0 0 0 0.89309 7 23973 23973;24028;24073;24120;24169;24225;24331 2.4348 1.325 1 73516000 29277 1069;6170 18911 18969 32901;32902;32903;32904;32905;32906;32907 32901 0.14244502081464816 RVALRCRPLVP 11 Unmodified _RVALRCRPLVP_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 640.3965454101562 2 640.392616 1278.77068 3.7417 0.0023962 0.46986 0.0003009 4.2116 0.0026971 640.3927736894027 52.756 0.78955 53.418 53.049 53.839 0.66198 115 41 3 0 0 0 0.89309 2 24006 24006;24055 2.7352 0.23671 1 10073000 29278 1069;6170 18911 18969 32908;32909 32908 0.14244502081464816 RVALRCRPLVP 11 Unmodified _RVALRCRPLVP_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1279.7835693359375 1 1279.77796 1278.77068 3.1519 0.0040338 0.21586 0.00027626 3.3678 0.00431 1279.7782599118766 52.727 0.52746 53.389 53.233 53.76 0.66198 48 31 2 0 0 0 0.89309 3 24065 24065;24119;24175 2.7352 0.23671 1 3554500 29279 1069;6170 18911 18969 32910;32911;32912 32910 0.14244502081464816 RVALRCRPLVP 11 Unmodified _RVALRCRPLVP_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 320.701171875 4 320.699946 1278.77068 1.9786 0.00063455 1.079 0.00034603 3.0576 0.00098058 320.7002937278933 53.032 0.97091 53.696 53.52 54.491 0.6644 84 45 3 0 0 0 0.89309 1 24199 24199 1.1098 1.1098 1 115840000 29280 1069;6170 18911 18969 32913 32913 0.14244502081464816 RVALRCRPLVP 11 Unmodified _RVALRCRPLVP_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 320.699946 1278.77068 2.5366 0.00081347 0.52559 0.00016856 3.0621 0.00098203 320.7000773717856 54.007 0.66612 54.007 53.781 54.447 0 0.16067 -0.00033793 NaN 1.1098 163 50 5 NaN NaN NaN NaN 0 NaN NaN 0 57795000 29281 1069;6170 18911 18969 0.14244502081464816 RVALRCRPLVP 11 Unmodified _RVALRCRPLVP_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 427.26417 1278.77068 2.5959 0.0011091 0.19629 8.3866E-05 2.7922 0.001193 427.26427762744083 53.133 0.16842 53.937 53.86 54.028 0.80351 0.23589 -0.00028227 NaN 1.1098 48 16 4 NaN NaN NaN NaN 0 NaN NaN 0 15099000 29282 1069;6170 18911 18969 0.14244502081464816 RVALRCRPLVP 11 Unmodified _RVALRCRPLVP_ 0 0 0 nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000090889|ENST00000374403|KIF4A;ENSG00000226650|ENST00000435029|KIF4B;KIF4B|p.N790Sfs*35|1|0.07|ENSG00000226650|chr5:155016227-155016228|-/GC|frameshift_variant nc|ENSG00000090889|O95239-2|KIF4A;ENSG00000226650|ENST00000435029|KIF4B ENSG00000226650|ENST00000435029|KIF4B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 320.699946 1278.77068 2.3725 0.00076087 0.97501 0.00031269 3.3476 0.0010736 320.700282095173 53.572 1.3104 53.837 53.539 54.849 0.26462 -0.010018 0.0002386 NaN 1.1098 174 61 5 NaN NaN NaN NaN 0 NaN NaN 0 99606000 29283 1069;6170 18911 18969 0.14244502081464816 RVALTRVLP 9 Unmodified _RVALTRVLP_ 0 0 0 ENST00000460680.5_1_3:52436208-52436307:-|nuORF ENST00000460680.5_1_3:52436208-52436307:-|nuORF ENST00000460680.5_1_3:52436208-52436307:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 342.2154846191406 3 342.225709 1023.6553 NaN NaN NaN NaN NaN NaN NaN 65.067 1 65.724 65.224 66.224 0.65672 0 0 0 0.8974 1 29830 29830 4.1895 0 1 29284 8075 18912 18970 32914 32914 0.14441721222135584 RVAPEEHPVL 10 Unmodified _RVAPEEHPVL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.8197021484375 2 573.81693 1145.61931 NaN NaN NaN NaN NaN NaN NaN 25.378 1 26.141 25.641 26.641 0.76356 0 0 0 0.97298 1 11389 11389 10.8 3.5103 1 29285 832;5762 18913 18971 32915 32915 0.052322192545943835 RVAPEEHPVL 10 Unmodified _RVAPEEHPVL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 573.8191528320312 2 573.81693 1145.61931 3.4481 0.0019786 0.527 0.0003024 3.9751 0.002281 573.8168605893281 26.017 0.1833 26.285 26.174 26.357 0.26777 22 17 2 0 0 0 0.85419 1 11804 11804 9.544 4.2471 1 277960 29286 832;5762 18913 18971 32916 32916 0.052322192545943835 RVAPEEHPVL 10 Unmodified _RVAPEEHPVL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 573.81693 1145.61931 3.4481 0.0019786 0.527 0.0003024 3.9751 0.002281 573.8168605893281 26.017 0.1833 26.285 26.174 26.357 0.26777 -0.019949 -0.00017491 NaN 9.544 22 17 2 NaN NaN NaN NaN 0 NaN NaN 0 277960 29287 832;5762 18913 18971 0.052322192545943835 RVAPEEHPVL 10 Unmodified _RVAPEEHPVL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000576214.2_1_17:79478712-79479765:-|nuORF;ENST00000462494.5_1_7:5568599-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENSG00000196604|ENST00000409914|POTEF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 573.81693 1145.61931 3.5775 0.0020528 0.89007 0.00051073 4.4676 0.0025636 573.817642627729 25.7 0.077188 26.325 26.275 26.352 0.62505 0.019949 0.00024176 NaN 9.544 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 186630 29288 832;5762 18913 18971 0.052322192545943835 RVELKDQPKQL 11 Unmodified _RVELKDQPKQL_ 0 0 0 REV__nc|ENSG00000163803|Q6P1J6-2|PLB1 REV__nc|ENSG00000163803|Q6P1J6-2|PLB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.93450927734375 3 451.933143 1352.7776 3.2306 0.00146 -1.1575 -0.00052313 2.0731 0.0009369 451.93263246933907 92.173 0.54157 92.821 92.405 92.947 0.64714 39 25 2 0 0 0 0.91359 1 42406 42406 0.40827 0.24894 1 261240 + 29289 18011 18914 18972 32917 32917 0.11532093443042868 RVFHLLGV 8 Unmodified _RVFHLLGV_ 0 0 0 ENSG00000198805|ENST00000361505|PNP;ENST00000557229.5_1_14:20942916-20943195:+|nuORF;ENST00000554056.5_1_14:20942916-20944757:+|nuORF ENSG00000198805|ENST00000361505|PNP ENSG00000198805|ENST00000361505|PNP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.1968994140625 3 314.19575 939.565421 NaN NaN NaN NaN NaN NaN NaN 38.569 1 38.833 38.333 39.333 0.26408 0 0 0 0.99035 1 17555 17555 1.6526 0 1 29290 5938 18915 18973 32918 32918 0.09322091613580596 RVFVRNREKRR 11 Unmodified _RVFVRNREKRR_ 0 0 0 nc|ENSG00000154358|Q5VST9|OBSCN;nc|ENSG00000154358|Q5VST9-2|OBSCN;nc|ENSG00000154358|Q5VST9-6|OBSCN;ENSG00000154358|ENST00000680850|OBSCN nc|ENSG00000154358|Q5VST9|OBSCN nc|ENSG00000154358|Q5VST9|OBSCN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.9757080078125 3 505.974558 1514.90185 4.068 0.0020583 -0.11387 -5.7613E-05 3.9541 0.0020007 505.9746184435747 105.97 0.13493 106.28 106.21 106.35 0.31628 7 4 2 0 0 0 0.91489 1 48924 48924 0 0 1 550480 29291 3821 18916 18974 32919 32919 0.16499028773705504 RVFVRNREKRR 11 Unmodified _RVFVRNREKRR_ 0 0 0 nc|ENSG00000154358|Q5VST9|OBSCN;nc|ENSG00000154358|Q5VST9-2|OBSCN;nc|ENSG00000154358|Q5VST9-6|OBSCN;ENSG00000154358|ENST00000680850|OBSCN nc|ENSG00000154358|Q5VST9|OBSCN nc|ENSG00000154358|Q5VST9|OBSCN MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 505.974558 1514.90185 2.725 0.0013788 0.71637 0.00036247 3.4413 0.0017412 506.3091380260207 105.88 0.10898 105.88 105.83 105.94 0 -0.18356 4.9971E-06 NaN 0 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 520230 29292 3821 18916 18974 0.16499028773705504 RVFVRNREKRR 11 Unmodified _RVFVRNREKRR_ 0 0 0 nc|ENSG00000154358|Q5VST9|OBSCN;nc|ENSG00000154358|Q5VST9-2|OBSCN;nc|ENSG00000154358|Q5VST9-6|OBSCN;ENSG00000154358|ENST00000680850|OBSCN nc|ENSG00000154358|Q5VST9|OBSCN nc|ENSG00000154358|Q5VST9|OBSCN MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 505.974558 1514.90185 1.8296 0.00092575 3.0204 0.0015283 4.85 0.002454 505.9764974369744 105.98 0.081512 106.03 105.96 106.04 0.04837 -0.035287 0.0035024 NaN 0 9 4 3 NaN NaN NaN NaN 0 NaN NaN 0 1706200 29293 3821 18916 18974 0.16499028773705504 RVGFSMADSF 10 Oxidation (M) _RVGFSM(Oxidation (M))ADSF_ RVGFSM(1)ADSF RVGFSM(56)ADSF 0 0 1 REV__ENST00000586962.1_1_19:36507796-36536816:+|nuORF REV__ENST00000586962.1_1_19:36507796-36536816:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.7605590820312 2 566.758223 1131.50189 3.4424 0.001951 -0.37573 -0.00021295 3.0667 0.0017381 566.7580980568255 48.521 0.31639 48.521 48.372 48.689 0 45 19 3 0 0 0 0.075518 1 22234 22234 56.177 6.244 1 1526600 + 29294 17547 18917 18975 32920 32920 103 -0.058596816765202675 RVHKAGWLSI 10 Unmodified _RVHKAGWLSI_ 0 0 0 ENST00000380050.7_1_7:90839070-90839154:+|nuORF ENST00000380050.7_1_7:90839070-90839154:+|nuORF ENST00000380050.7_1_7:90839070-90839154:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.5660095214844 3 389.564614 1165.67201 2.7124 0.0010567 0.70083 0.00027302 3.4132 0.0013297 389.564658707371 18.08 0.27467 18.382 18.357 18.631 0.30159 67 31 3 0 0 0 0.93503 1 8196 8196 1.9064 1.9064 1 277220 29295 7462 18918 18976 32921 32921 0.0958022210809304 RVHPLTPPRPL 11 Unmodified _RVHPLTPPRPL_ 0 0 0 REV__ENST00000271857.6_1_1:153749171-153750656:+|nuORF REV__ENST00000271857.6_1_1:153749171-153750656:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.892333984375 2 641.890764 1281.76697 4.0533 0.0026018 -2.4112 -0.0015477 1.6421 0.0010541 641.8893525077059 82.994 0.22073 83.654 83.534 83.755 0.66019 18 11 2 0 0 0 0.80504 1 38233 38233 6.6304 2.1015 1 435670 + 29296 15064 18919 18977 32922 32922 0.13736155579249498 RVHPLTPPRPL 11 Unmodified _RVHPLTPPRPL_ 0 0 0 REV__ENST00000271857.6_1_1:153749171-153750656:+|nuORF REV__ENST00000271857.6_1_1:153749171-153750656:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 641.890764 1281.76697 4.0533 0.0026018 -2.4112 -0.0015477 1.6421 0.0010541 641.8893525077059 82.994 0.22073 83.654 83.534 83.755 0.66019 -0.071029 -7.4479E-05 NaN 6.6304 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 435670 + 29297 15064 18919 18977 0.13736155579249498 RVIVWLTEA 9 Unmodified _RVIVWLTEA_ 0 0 0 REV__ENST00000522385.1_2_5:133541820-133561213:-|nuORF REV__ENST00000522385.1_2_5:133541820-133561213:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.98736572265625 3 362.88172 1085.62333 2.3143 0.00083983 -0.85472 -0.00031016 1.4596 0.00052967 362.8819053098642 46.333 0.11604 47.162 47.067 47.183 0.82915 7 5 2 0 0 0 0.11065 1 21098 21098 4.897 0 1 381590 + 29298 17057 18920 18978 32923 32923 0.08394308748302137 RVIVYFVAL 9 Unmodified _RVIVYFVAL_ 0 0 0 nc|ENSG00000100678|P57103-3|SLC8A3;ENSG00000100678|ENST00000356921|SLC8A3;nc|ENSG00000100678|P57103-6|SLC8A3;nc|ENSG00000100678|P57103-7|SLC8A3;nc|ENSG00000100678|P57103|SLC8A3 nc|ENSG00000100678|P57103-3|SLC8A3 nc|ENSG00000100678|P57103-3|SLC8A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.3348999023438 2 540.334227 1078.6539 NaN NaN NaN NaN NaN NaN NaN 89.903 1 90.576 90.076 91.076 0.67271 0 0 0 0.90611 1 41390 41390 2.0598 0 1 29299 1236 18921 18979 32924 32924 0.1177208713336313 RVKAKKKKKK 10 Unmodified _RVKAKKKKKK_ 0 0 0 ENSG00000189134|ENST00000343684|NKAPL ENSG00000189134|ENST00000343684|NKAPL ENSG00000189134|ENST00000343684|NKAPL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.449462890625 2 621.448249 1240.88194 NaN NaN NaN NaN NaN NaN NaN 38.437 1 39.235 38.735 39.735 0.79762 0 0 0 1.002 1 17410 17410 0 0 1 29300 5705 18922 18980 32925 32925 0.27113884781056186 RVKLFSFVKKT 11 Unmodified _RVKLFSFVKKT_ 0 0 0 nc|ENSG00000131951|Q6ZRR7-2|LRRC9;nc|ENSG00000131951|Q6ZRR7|LRRC9;ENSG00000131951|ENST00000570145|LRRC9 nc|ENSG00000131951|Q6ZRR7-2|LRRC9 nc|ENSG00000131951|Q6ZRR7-2|LRRC9 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.14306640625 4 338.965774 1351.83399 2.7057 0.00091714 -0.27122 -9.1934E-05 2.4345 0.00082521 338.9657173028595 67.93 0.096252 68.182 68.136 68.232 0.25227 8 5 2 0 0 0 0.13295 1 31139 31139 0.50596 0.43269 1 227530 29301 2677 18923 18981 32926 32926 0.17214766070355836 RVKLVRQMY 9 Unmodified _RVKLVRQMY_ 0 0 0 REV__ENST00000498171.5_1_22:20077477-20097628:+|nuORF REV__ENST00000498171.5_1_22:20077477-20097628:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 596.8512573242188 2 596.852793 1191.69103 NaN NaN NaN NaN NaN NaN NaN 51.579 1 51.842 51.342 52.342 0.26227 0 0 0 0.91238 1 23572 23572 0.52476 0.066424 1 + 29302 11758 18924 18982 32927 32927 0.10285435407490695 RVKPDRKPK 9 Unmodified _RVKPDRKPK_ 0 0 0 ENSG00000168412|ENST00000307161|MTNR1A ENSG00000168412|ENST00000307161|MTNR1A ENSG00000168412|ENST00000307161|MTNR1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 375.2392272949219 3 375.24013 1122.69856 NaN NaN NaN NaN NaN NaN NaN 34.601 1 35.224 34.724 35.724 0.62294 0 0 0 0.89983 1 15850 15850 2.086 0 1 29303 4627 18925 18983 32928 32928 0.14211910999392785 RVKPKKKKKKK 11 Unmodified _RVKPKKKKKKK_ 0 0 0 ENSG00000025293|ENST00000374012|PHF20 ENSG00000025293|ENST00000374012|PHF20 ENSG00000025293|ENST00000374012|PHF20 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 698.5016479492188 2 698.503555 1394.99256 NaN NaN NaN NaN NaN NaN NaN 69.922 1 70.583 70.083 71.083 0.66071 0 0 0 1.0082 1 32059 32059 0 0 1 29304 477 18926 18984 32929 32929 0.31086104769269696 RVKPNPRKL 9 Unmodified _RVKPNPRKL_ 0 0 0 ENST00000456845.6_1_8:38852921-38853071:-|nuORF ENST00000456845.6_1_8:38852921-38853071:-|nuORF ENST00000456845.6_1_8:38852921-38853071:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.359130859375 2 554.359099 1106.70365 NaN NaN NaN NaN NaN NaN NaN 24.764 1 25.5 25 26 0.73623 0 0 0 0.91238 1 11099 11099 0.52476 0.066424 1 29305 8053 18927 18985 32930 32930 0.15456214862024353 RVKRAAAG 8 Unmodified _RVKRAAAG_ 0 0 0 REV__ENSG00000166813|ENST00000394412|KIF7 REV__ENSG00000166813|ENST00000394412|KIF7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.7629089355469 2 414.761761 827.508969 3.1112 0.0012904 -0.0859 -3.5628E-05 3.0253 0.0012548 414.7616990757853 82.685 0.80868 83.345 82.965 83.773 0.66019 144 46 5 0 0 0 0.7471 1 37971 37971 0.69038 0 1 48409000 + 29306 13261 18928 18986 32931 32931 0.08831463776891724 RVKRKLRWHG 10 Unmodified _RVKRKLRWHG_ 0 0 0 REV__ENST00000392589.5_1_6:110501031-110501112:-|nuORF REV__ENST00000392589.5_1_6:110501031-110501112:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.4171752929688 2 668.415272 1334.81599 NaN NaN NaN NaN NaN NaN NaN 52.739 1 53.542 53.042 54.042 0.80351 0 0 0 1.0015 1 24031 24031 0.40072 0 1 + 29307 15932 18929 18987 32932 32932 0.16197488658872317 RVKRKLRWHG 10 Unmodified _RVKRKLRWHG_ 0 0 0 REV__ENST00000392589.5_1_6:110501031-110501112:-|nuORF REV__ENST00000392589.5_1_6:110501031-110501112:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 668.4125366210938 2 668.415272 1334.81599 NaN NaN NaN NaN NaN NaN NaN 28.228 1 28.847 28.347 29.347 0.61947 0 0 0 1.0015 1 12944 12944 0.40072 0.050084 1 + 29308 15932 18929 18987 32933 32933 0.16197488658872317 RVKRQRQWTI 10 Unmodified _RVKRQRQWTI_ 0 0 0 REV__ENST00000492556.5_1_22:51018168-51020414:-|nuORF REV__ENST00000492556.5_1_22:51018168-51020414:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 686.411865234375 2 685.910019 1369.80549 4.1423 0.0028412 -1.829 -0.0012545 2.3133 0.0015867 685.9086503027535 93.124 0.98734 93.769 93.171 94.158 0.64504 87 51 2 0 0 0 0.94246 1 42917 42917 0.40072 0.050084 1 850080 + 29309 16566 18930 18988 32934 32934 0.13537461213786628 RVKRQRQWTI 10 Unmodified _RVKRQRQWTI_ 0 0 0 REV__ENST00000492556.5_1_22:51018168-51020414:-|nuORF REV__ENST00000492556.5_1_22:51018168-51020414:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.9114379882812 2 685.910019 1369.80549 4.1545 0.0028496 -1.678 -0.001151 2.4765 0.0016987 685.9086674867965 94.938 0.94016 95.555 94.962 95.902 0.61736 106 52 5 0 0 0 0.90859 2 43755 43521;43755 3.2813 1.9518 1 3449400 + 29310 16566 18930 18988 32935;32936 32936 0.13537461213786628 RVKRQRQWTI 10 Unmodified _RVKRQRQWTI_ 0 0 0 REV__ENST00000492556.5_1_22:51018168-51020414:-|nuORF REV__ENST00000492556.5_1_22:51018168-51020414:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.911376953125 2 685.910019 1369.80549 4.1579 0.0028519 -1.4602 -0.0010016 2.6977 0.0018504 685.9086240986137 95.443 0.52081 96.051 95.857 96.378 0.60769 50 27 3 0 0 0 0.94246 1 43925 43925 0.40072 0.050084 1 650940 + 29311 16566 18930 18988 32937 32937 0.13537461213786628 RVKRVLMGPR 10 Unmodified _RVKRVLMGPR_ 0 0 0 ENSG00000238083|ENST00000576629|LRRC37A2;ENSG00000176681|ENST00000320254|LRRC37A;ENST00000572638.1_1_17:44625595-44632942:+|nuORF ENSG00000238083|ENST00000576629|LRRC37A2 ENSG00000238083|ENST00000576629|LRRC37A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.58984375 3 404.588765 1210.74446 2.7306 0.0011048 0.21576 8.7293E-05 2.9464 0.0011921 404.5887371510544 32.215 0.89974 32.215 31.925 32.825 0 148 76 2 0 0 0 0.9406 1 14521 14521 0.77653 0.078866 1 1283300 29312 5084 18931 18989 32938 32938 0.14752232910018392 RVKRVLMGPR 10 Unmodified _RVKRVLMGPR_ 0 0 0 ENSG00000238083|ENST00000576629|LRRC37A2;ENSG00000176681|ENST00000320254|LRRC37A;ENST00000572638.1_1_17:44625595-44632942:+|nuORF ENSG00000238083|ENST00000576629|LRRC37A2 ENSG00000238083|ENST00000576629|LRRC37A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.69415283203125 4 303.693393 1210.74446 2.433 0.00073888 0.7362 0.00022358 3.1692 0.00096246 303.69356243256715 32.595 0.58846 32.849 32.668 33.256 0.25452 78 27 4 0 0 0 0.94099 1 14910 14910 0.69767 0 1 3864400 29313 5084 18931 18989 32939 32939 0.14752232910018392 RVKRVLMGPR 10 Unmodified _RVKRVLMGPR_ 0 0 0 ENSG00000238083|ENST00000576629|LRRC37A2;ENSG00000176681|ENST00000320254|LRRC37A;ENST00000572638.1_1_17:44625595-44632942:+|nuORF ENSG00000238083|ENST00000576629|LRRC37A2 ENSG00000238083|ENST00000576629|LRRC37A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 404.590576171875 3 404.588765 1210.74446 2.9401 0.0011895 0.97221 0.00039334 3.9123 0.0015829 404.58901111196343 31.191 0.65288 31.809 31.608 32.261 0.61737 125 45 3 0 0 0 0.9406 1 14357 14357 0.77653 0.77653 1 1201100 29314 5084 18931 18989 32940 32940 0.14752232910018392 RVKYGPLPL 9 Unmodified _RVKYGPLPL_ 0 0 0 REV__ENSG00000120756|ENST00000457734|PLS1 REV__ENSG00000120756|ENST00000457734|PLS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.52142333984375 3 348.218443 1041.6335 NaN NaN NaN NaN NaN NaN NaN 12.84 1 13.483 12.983 13.983 0.64272 0 0 0 0.90228 1 5764 5764 2.9952 0 1 + 29315 11545 18932 18990 32941 32941 0.11434916473581325 RVLEPLLLLLL 11 Unmodified _RVLEPLLLLLL_ 0 0 0 ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 323.52880859375 4 323.72325 1290.86389 2.2209 0.00071897 0.058476 1.893E-05 2.2794 0.0007379 323.72315544592897 37.623 0.49906 37.623 37.219 37.718 0 25 18 2 0 0 0 0.13295 1 16932 16932 0 0 1 236770 29316 936 18933 18991 32942 32942 0.2300970501573829 RVLEPLLLLLL 11 Unmodified _RVLEPLLLLLL_ 0 0 0 ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A ENSG00000083097|ENST00000349129|DOP1A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 323.72325 1290.86389 2.2883 0.00074078 -0.69015 -0.00022342 1.5982 0.00051737 323.72301844176945 37.074 0.93784 37.867 37.674 38.612 0.79342 0.12197 -0.00033991 NaN 0 49 44 2 NaN NaN NaN NaN 0 NaN NaN 0 271500 29317 936 18933 18991 0.2300970501573829 RVLFPRVPL 9 Unmodified _RVLFPRVPL_ 0 0 0 ENST00000588572.6_3_19:55865056-55865797:-|nuORF ENST00000588572.6_3_19:55865056-55865797:-|nuORF ENST00000588572.6_3_19:55865056-55865797:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.2391357421875 3 366.237838 1095.69168 2.3177 0.00084883 1.6288 0.00059654 3.9465 0.0014454 366.23850589599687 41.226 0.15034 42.029 41.943 42.093 0.80351 14 9 2 0 0 0 1.1849 1 18689 18689 0.96228 0 1 739210 29318 9205 18934 18992 32943 32943 0.14766598118831098 RVLFPRVPL 9 Unmodified _RVLFPRVPL_ 0 0 0 ENST00000588572.6_3_19:55865056-55865797:-|nuORF ENST00000588572.6_3_19:55865056-55865797:-|nuORF ENST00000588572.6_3_19:55865056-55865797:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.2394714355469 3 366.237838 1095.69168 NaN NaN NaN NaN NaN NaN NaN 41.801 1 42.071 41.571 42.571 0.27021 0 0 0 0.90431 1 19045 19045 2.4985 1.9353 1 29319 9205 18934 18992 32944 32944 0.14766598118831098 RVLFPRVPL 9 Unmodified _RVLFPRVPL_ 0 0 0 ENST00000588572.6_3_19:55865056-55865797:-|nuORF ENST00000588572.6_3_19:55865056-55865797:-|nuORF ENST00000588572.6_3_19:55865056-55865797:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 366.237838 1095.69168 2.9165 0.0010681 1.2924 0.00047334 4.209 0.0015415 366.23835493004344 41.553 0.19257 41.823 41.752 41.944 0.27021 -0.063368 -0.00030973 NaN 0.96228 18 8 3 NaN NaN NaN NaN 0 NaN NaN 0 1464700 29320 9205 18934 18992 0.14766598118831098 RVLFPRVPL 9 Unmodified _RVLFPRVPL_ 0 0 0 ENST00000588572.6_3_19:55865056-55865797:-|nuORF ENST00000588572.6_3_19:55865056-55865797:-|nuORF ENST00000588572.6_3_19:55865056-55865797:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 366.237838 1095.69168 2.7618 0.0010115 1.9939 0.00073024 4.7557 0.0017417 366.2384943557692 41.163 0.16183 41.807 41.74 41.902 0.64451 -0.079295 0.00046098 NaN 0.96228 15 8 2 NaN NaN NaN NaN 0 NaN NaN 0 3975500 29321 9205 18934 18992 0.14766598118831098 RVLLIRHQQHF 11 Unmodified _RVLLIRHQQHF_ 0 0 0 ENST00000296509.10_1_4:120986924-120987941:-|nuORF ENST00000296509.10_1_4:120986924-120987941:-|nuORF ENST00000296509.10_1_4:120986924-120987941:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 482.8199768066406 3 482.952872 1445.83679 NaN NaN NaN NaN NaN NaN NaN 68.85 1 68.85 68.35 69.35 0 0 0 0 1.0079 1 33179 33179 0.45452 0 1 29322 6768 18935 18993 32945 32945 0.13170034247877993 RVLVYGGR 8 Unmodified _RVLVYGGR_ 0 0 0 nc|ENSG00000151552|P09417-2|QDPR;ENSG00000151552|ENST00000281243|QDPR nc|ENSG00000151552|P09417-2|QDPR nc|ENSG00000151552|P09417-2|QDPR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 307.1890563964844 3 307.187255 918.539935 NaN NaN NaN NaN NaN NaN NaN 28.021 1 28.807 28.307 29.307 0.78627 0 0 0 0.99035 1 12611 12611 0.40072 0 1 29323 3715 18936 18994 32946 32946 0.07740617091133117 RVLVYGGR 8 Unmodified _RVLVYGGR_ 0 0 0 nc|ENSG00000151552|P09417-2|QDPR;ENSG00000151552|ENST00000281243|QDPR nc|ENSG00000151552|P09417-2|QDPR nc|ENSG00000151552|P09417-2|QDPR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 307.1893615722656 3 307.187255 918.539935 NaN NaN NaN NaN NaN NaN NaN 28.501 1 29.29 28.79 29.79 0.78921 0 0 0 0.99035 1 12837 12837 0.40072 0 1 29324 3715 18936 18994 32947 32947 0.07740617091133117 RVMKKRRRRER 11 Unmodified _RVMKKRRRRER_ 0 0 0 ENST00000358731.8_2_5:70751498-70751573:+|nuORF ENST00000358731.8_2_5:70751498-70751573:+|nuORF ENST00000358731.8_2_5:70751498-70751573:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 785.9869995117188 2 785.986601 1569.95865 NaN NaN NaN NaN NaN NaN NaN 89.007 1 89.059 88.559 89.559 0.052155 0 0 0 1.0082 1 45507 45507 0 0 1 29325 7196 18937 18995 32948 32948 0.19646753058600552 RVNRAAKS 8 Unmodified _RVNRAAKS_ 0 0 0 nc|ENSG00000169247|Q8TF17-5|SH3TC2;ENSG00000169247|ENST00000515425|SH3TC2;nc|ENSG00000169247|Q8TF17-4|SH3TC2;ENST00000504517.5_1_5:148386573-148411207:-|nuORF;ENST00000510779.1_1_5:148384276-148408226:-|nuORF nc|ENSG00000169247|Q8TF17-5|SH3TC2 nc|ENSG00000169247|Q8TF17-5|SH3TC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.2710266113281 2 451.26995 900.525347 2.245 0.0010131 0.10905 4.9213E-05 2.3541 0.0010623 451.2697800974097 76.517 0.30202 76.517 76.357 76.659 0 37 19 3 0 0 0 0.71384 1 37526 37526 4.756 1.1595 1 2131500 29326 4679 18938 18996 32949 32949 0.07110544942986508 RVNRAAKS 8 Unmodified _RVNRAAKS_ 0 0 0 nc|ENSG00000169247|Q8TF17-5|SH3TC2;ENSG00000169247|ENST00000515425|SH3TC2;nc|ENSG00000169247|Q8TF17-4|SH3TC2;ENST00000504517.5_1_5:148386573-148411207:-|nuORF;ENST00000510779.1_1_5:148384276-148408226:-|nuORF nc|ENSG00000169247|Q8TF17-5|SH3TC2 nc|ENSG00000169247|Q8TF17-5|SH3TC2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 451.26995 900.525347 2.5835 0.0011659 0.69165 0.00031212 3.2752 0.001478 451.27025279375795 75.995 0.29939 76.252 76.082 76.381 0.25704 -0.13302 0.00022585 NaN 4.756 54 22 3 NaN NaN NaN NaN 0 NaN NaN 0 1535900 29327 4679 18938 18996 0.07110544942986508 RVNRAAKS 8 Unmodified _RVNRAAKS_ 0 0 0 nc|ENSG00000169247|Q8TF17-5|SH3TC2;ENSG00000169247|ENST00000515425|SH3TC2;nc|ENSG00000169247|Q8TF17-4|SH3TC2;ENST00000504517.5_1_5:148386573-148411207:-|nuORF;ENST00000510779.1_1_5:148384276-148408226:-|nuORF nc|ENSG00000169247|Q8TF17-5|SH3TC2 nc|ENSG00000169247|Q8TF17-5|SH3TC2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 451.26995 900.525347 2.663 0.0012017 0.3519 0.0001588 3.0149 0.0013605 451.27006861109186 75.622 0.30727 76.286 76.119 76.427 0.6644 -0.09909 -8.0788E-05 NaN 4.756 53 28 2 NaN NaN NaN NaN 0 NaN NaN 0 2038200 29328 4679 18938 18996 0.07110544942986508 RVNRPAAG 8 Unmodified _RVNRPAAG_ 0 0 0 REV__ENST00000594728.1_1_11:62432848-62433109:+|nuORF REV__ENST00000594728.1_1_11:62432848-62433109:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 420.74481201171875 2 420.743568 839.472583 2.2273 0.00093714 0.20551 8.6468E-05 2.4329 0.0010236 420.7436186871169 72.803 0.31577 73.502 73.324 73.64 0.69881 53 27 3 0 0 0 0.7471 1 35091 35091 0.79363 0 1 2153000 + 29329 17606 18939 18997 32950 32950 0.04642586880174804 RVPCLIPP 8 Unmodified _RVPCLIPP_ 0 0 0 ENST00000583167.5_1_17:45892556-45892844:-|nuORF ENST00000583167.5_1_17:45892556-45892844:-|nuORF ENST00000583167.5_1_17:45892556-45892844:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 447.76702880859375 2 447.765123 893.515694 3.2554 0.0014576 0.94203 0.00042181 4.1974 0.0018795 447.7656019786828 85.455 0.59849 86.12 85.729 86.327 0.66566 88 27 5 0 0 0 0.74071 2 39322 39322;39384 2.5775 2.5775 1 3895300 29330 9160 18940 18998 32951;32952 32951 0.06467640613254844 RVPCLIPP 8 Unmodified _RVPCLIPP_ 0 0 0 ENST00000583167.5_1_17:45892556-45892844:-|nuORF ENST00000583167.5_1_17:45892556-45892844:-|nuORF ENST00000583167.5_1_17:45892556-45892844:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 447.765123 893.515694 2.9536 0.0013225 1.5904 0.00071211 4.544 0.0020346 447.76575895136875 85.823 0.38097 86.071 85.861 86.242 0.24857 -0.024679 0.00025258 NaN 2.5775 32 17 2 NaN NaN NaN NaN 0 NaN NaN 0 2667900 29331 9160 18940 18998 0.06467640613254844 RVPLLLPLLLL 11 Unmodified _RVPLLLPLLLL_ 0 0 0 ENSG00000168140|ENST00000304735|VASN ENSG00000168140|ENST00000304735|VASN ENSG00000168140|ENST00000304735|VASN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 420.63116455078125 3 420.631965 1258.87407 NaN NaN NaN NaN NaN NaN NaN 64.003 1 64.003 63.503 64.503 0 0 0 0 1.0082 1 30218 30218 0.094841 0 1 29332 4610 18941 18999 32953 32953 0.25498312740955953 RVPRRLLVVFV 11 Unmodified _RVPRRLLVVFV_ 0 0 0 ENST00000502486.5_2_4:42153705-42154329:-|nuORF ENST00000502486.5_2_4:42153705-42154329:-|nuORF ENST00000502486.5_2_4:42153705-42154329:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 339.2098693847656 4 339.226491 1352.87686 1.7803 0.00060394 -0.91047 -0.00030886 0.86987 0.00029508 339.47702699353056 51.404 0.51935 52.222 52.013 52.533 0.81738 48 36 2 0 0 0 0.13295 1 23549 23549 0.094841 0.094841 1 1022400 29333 8479 18942 19000 32954 32954 0.21453580918432635 RVPRRLLVVFV 11 Unmodified _RVPRRLLVVFV_ 0 0 0 ENST00000502486.5_2_4:42153705-42154329:-|nuORF ENST00000502486.5_2_4:42153705-42154329:-|nuORF ENST00000502486.5_2_4:42153705-42154329:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 339.226491 1352.87686 2.2328 0.00075743 -1.0191 -0.00034571 1.2137 0.00041172 339.2261177328911 52.374 0.10169 52.374 52.32 52.421 0 0.12923 -0.00015477 NaN 0.094841 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 919690 29334 8479 18942 19000 0.21453580918432635 RVPRRLLVVFV 11 Unmodified _RVPRRLLVVFV_ 0 0 0 ENST00000502486.5_2_4:42153705-42154329:-|nuORF ENST00000502486.5_2_4:42153705-42154329:-|nuORF ENST00000502486.5_2_4:42153705-42154329:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 339.226491 1352.87686 2.3603 0.00080066 -0.86009 -0.00029176 1.5002 0.0005089 339.22614667387757 51.876 0.41674 52.138 51.969 52.386 0.26227 -0.10652 6.1017E-05 NaN 0.094841 57 33 2 NaN NaN NaN NaN 0 NaN NaN 0 2238300 29335 8479 18942 19000 0.21453580918432635 RVPSCFYRG 9 Unmodified _RVPSCFYRG_ 0 0 0 REV__nc|ENSG00000121897|O43766-2|LIAS REV__nc|ENSG00000121897|O43766-2|LIAS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.2750244140625 2 542.771468 1083.52838 3.6404 0.0019759 -1.5061 -0.00081747 2.1343 0.0011585 542.770157200119 95.187 0.35301 95.804 95.591 95.944 0.61736 39 17 3 0 0 0 1.1412 1 43747 43747 1.6526 0.32309 1 723900 + 29336 11567 18943 19001 32955 32955 -0.010039479945362473 RVPTPRML 8 Unmodified _RVPTPRML_ 0 0 0 ENST00000380593.4_1_20:2795617-2795865:+|nuORF ENST00000380593.4_1_20:2795617-2795865:+|nuORF ENST00000380593.4_1_20:2795617-2795865:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2875061035156 2 485.286754 968.558955 NaN NaN NaN NaN NaN NaN NaN 49.533 1 49.794 49.294 50.294 0.26146 0 0 0 0.99035 1 22641 22641 2.8892 0 1 29337 7469 18944 19002 32956 32956 0.07341830390544146 RVQARRRRRRR 11 Unmodified _RVQARRRRRRR_ 0 0 0 REV__ENST00000477216.1_1_3:170075473-170077492:+|nuORF REV__ENST00000477216.1_1_3:170075473-170077492:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 783.6177978515625 2 783.499056 1564.98356 NaN NaN NaN NaN NaN NaN NaN 94.66 1 94.746 94.246 95.246 0.086212 0 0 0 1.0082 1 49856 49856 0 0 1 + 29338 16662 18945 19003 32957 32957 0.223665689761674 RVQFFRSLF 9 Unmodified _RVQFFRSLF_ 0 0 0 ENST00000242059.9_1_7:29980347-29980398:-|nuORF ENST00000242059.9_1_7:29980347-29980398:-|nuORF ENST00000242059.9_1_7:29980347-29980398:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 600.3402709960938 2 600.337833 1198.66111 NaN NaN NaN NaN NaN NaN NaN 33.26 1 33.26 32.76 33.76 0 0 0 0 0.89683 1 15067 15067 4.3292 0 1 29339 6468 18946 19004 32958 32958 0.06972819733800861 RVRERKKRRLH 11 Unmodified _RVRERKKRRLH_ 0 0 0 REV__ENSG00000127804|ENST00000263092|METTL16 REV__ENSG00000127804|ENST00000263092|METTL16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 767.4873657226562 2 767.487291 1532.96003 NaN NaN NaN NaN NaN NaN NaN 75.081 1 75.34 74.84 75.84 0.25831 0 0 0 1.0082 1 34538 34538 0 0 1 + 29340 11746 18947 19005 32959 32959 0.2148671041900343 RVRFMRRIG 9 Unmodified _RVRFMRRIG_ 0 0 0 REV__ENST00000545024.1_5:69806308-69808341:+|nuORF REV__ENST00000545024.1_5:69806308-69808341:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 595.8577270507812 2 595.856201 1189.69785 NaN NaN NaN NaN NaN NaN NaN 11.531 1 11.531 11.031 12.031 0 0 0 0 0.91452 1 5028 5028 0 0 1 + 29341 17014 18948 19006 32960 32960 0.11058793078723284 RVRGVGGK 8 Unmodified _RVRGVGGK_ 0 0 0 REV__ENST00000575842.5_1_17:79479547-79479733:-|nuORF REV__ENST00000575842.5_1_17:79479547-79479733:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.7630615234375 2 414.761761 827.508969 2.8761 0.0011929 0.32587 0.00013516 3.202 0.0013281 414.7618723000169 83.013 0.58218 83.26 83.016 83.598 0.24722 95 29 5 0 0 0 0.7471 3 38147 38147;38255;38305 0.69038 0 1 51790000 + 29342 17476 18949 19007 32961;32962;32963 32961 0.08831463776903092 RVRGVGGK 8 Unmodified _RVRGVGGK_ 0 0 0 REV__ENST00000575842.5_1_17:79479547-79479733:-|nuORF REV__ENST00000575842.5_1_17:79479547-79479733:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.7633361816406 2 414.761761 827.508969 3.5857 0.0014872 0.28456 0.00011803 3.8702 0.0016052 414.76163713637897 93.999 0.56911 94.259 93.959 94.528 0.25975 60 27 3 0 0 0 0.7471 1 43133 43133 0.69038 0 1 855870 + 29343 17476 18949 19007 32964 32964 0.08831463776903092 RVRGVGGK 8 Unmodified _RVRGVGGK_ 0 0 0 REV__ENST00000575842.5_1_17:79479547-79479733:-|nuORF REV__ENST00000575842.5_1_17:79479547-79479733:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.7628479003906 2 414.761761 827.508969 3.1795 0.0013188 0.23176 9.6126E-05 3.4113 0.0014149 414.76168675998247 93.847 0.78346 94.478 94.212 94.995 0.63115 74 39 3 0 0 0 0.7471 1 43132 43132 0.69038 0 1 903410 + 29344 17476 18949 19007 32965 32965 0.08831463776903092 RVRHARAPA 9 Unmodified _RVRHARAPA_ 0 0 0 ENST00000323249.7_1_5:176881025-176882032:+|nuORF;ENST00000502922.5_1_5:176873849-176882032:+|nuORF ENST00000323249.7_1_5:176881025-176882032:+|nuORF ENST00000323249.7_1_5:176881025-176882032:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.310791015625 2 517.309941 1032.60533 3.4357 0.0017773 -1.0564 -0.00054647 2.3794 0.0012309 517.3092808498385 84.211 0.33451 84.459 84.3 84.635 0.24758 35 17 3 0 0 0 1.129 1 38740 38740 1.8442 1.8442 1 918310 29345 6946 18950 19008 32966 32966 0.09033031336821296 RVRKMIKRLHL 11 Unmodified _RVRKMIKRLHL_ 0 0 0 ENST00000427566.2_1_1:248100136-248100640:-|nuORF ENST00000427566.2_1_1:248100136-248100640:-|nuORF ENST00000427566.2_1_1:248100136-248100640:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 362.9869689941406 4 363.238233 1448.92383 2.508 0.000911 -1.7444 -0.00063362 0.76363 0.00027738 363.2375830120545 47.06 0.16607 47.712 47.652 47.818 0.65219 15 11 2 0 0 0 0.13295 1 21537 21537 0.50596 0.41111 1 628400 29346 7820 18951 19009 32967 32967 0.21732117197961998 RVRKMIKRLHL 11 Unmodified _RVRKMIKRLHL_ 0 0 0 ENST00000427566.2_1_1:248100136-248100640:-|nuORF ENST00000427566.2_1_1:248100136-248100640:-|nuORF ENST00000427566.2_1_1:248100136-248100640:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 363.238233 1448.92383 2.2647 0.00082264 -0.97059 -0.00035256 1.2941 0.00047008 363.23800037508255 47.201 0.4549 48.03 47.878 48.333 0.82915 0.15905 0.00057726 NaN 0.50596 39 27 2 NaN NaN NaN NaN 0 NaN NaN 0 608400 29347 7820 18951 19009 0.21732117197961998 RVRKRLRLNRK 11 Unmodified _RVRKRLRLNRK_ 0 0 0 REV__ENST00000319511.6_1_17:42264666-42264957:+|nuORF REV__ENST00000319511.6_1_17:42264666-42264957:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 748.0015869140625 2 748.000034 1493.98552 NaN NaN NaN NaN NaN NaN NaN 94.026 1 94.026 93.526 94.526 0 0 0 0 1.0082 1 50324 50324 0 0 1 + 29348 15309 18952 19010 32968 32968 0.25828184941428844 RVRKRLRRIIV 11 Unmodified _RVRKRLRRIIV_ 0 0 0 REV__ENST00000564682.5_1_16:28565295-28592384:+|nuORF REV__ENST00000564682.5_1_16:28565295-28592384:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 488.9813232421875 3 489.007311 1464.0001 NaN NaN NaN NaN NaN NaN NaN 64.254 1 64.969 64.469 65.469 0.71521 0 0 0 1.008 1 30254 30254 0.08335 0.08335 1 + 29349 17404 18953 19011 32969 32969 0.2866625708959418 RVRLRLKKEKK 11 Unmodified _RVRLRLKKEKK_ 0 0 0 AluSc8_dup5967|chr5:1408001-1408339:-|1.0254959645658634|0.0176600485494751|5.86|497.0|1|1|sense AluSc8_dup5967|chr5:1408001-1408339:-|1.0254959645658634|0.0176600485494751|5.86|497.0|1|1|sense AluSc8_dup5967|chr5:1408001-1408339:-|1.0254959645658634|0.0176600485494751|5.86|497.0|1|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 727.556640625 2 727.493719 1452.97288 NaN NaN NaN NaN NaN NaN NaN 109.32 1 109.63 109.13 110.13 0.31015 0 0 0 1.0082 1 50397 50397 0 0 1 29350 35 18954 19012 32970 32970 0.2645172875854769 RVRLRLKKRER 11 Unmodified _RVRLRLKKRER_ 0 0 0 AluSx_dup36597|chr6:31181261-31181538:+|1.0973757676720983|0.2428367131672077|2.18|536.0|8|2|sense AluSx_dup36597|chr6:31181261-31181538:+|1.0973757676720983|0.2428367131672077|2.18|536.0|8|2|sense AluSx_dup36597|chr6:31181261-31181538:+|1.0973757676720983|0.2428367131672077|2.18|536.0|8|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 755.4994506835938 2 755.499867 1508.98518 NaN NaN NaN NaN NaN NaN NaN 71.01 1 71.267 70.767 71.767 0.25786 0 0 0 1.0082 1 32524 32524 0 0 1 29351 42 18955 19013 32971 32971 0.25104765221567504 RVRLRPLQLRR 11 Unmodified _RVRLRPLQLRR_ 0 0 0 REV__nc|ENSG00000105227|Q9BXM0-3|PRX REV__nc|ENSG00000105227|Q9BXM0-3|PRX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 731.6483764648438 2 731.98131 1461.94807 NaN NaN NaN NaN NaN NaN NaN 13.732 1 13.732 13.232 14.232 0 0 0 0 1.0082 1 6024 6024 0 0 1 + 29352 11021 18956 19014 32972 32972 0.23557093675822216 RVRLRPLQLRR 11 Unmodified _RVRLRPLQLRR_ 0 0 0 REV__nc|ENSG00000105227|Q9BXM0-3|PRX REV__nc|ENSG00000105227|Q9BXM0-3|PRX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 732.2246704101562 2 731.98131 1461.94807 NaN NaN NaN NaN NaN NaN NaN 94.296 1 94.383 93.883 94.883 0.086212 0 0 0 1.0082 1 49573 49573 0 0 1 + 29353 11021 18956 19014 32973 32973 0.23557093675822216 RVRPAEALI 9 Unmodified _RVRPAEALI_ 0 0 0 REV__nc|ENSG00000114270|Q02388-2|COL7A1 REV__nc|ENSG00000114270|Q02388-2|COL7A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.2129821777344 3 342.213581 1023.61891 NaN NaN NaN NaN NaN NaN NaN 29.406 1 30.195 29.695 30.695 0.78921 0 0 0 0.90965 1 13255 13255 1.1933 0 1 + 29354 11319 18957 19015 32974 32974 0.10804844325411977 RVRPRKRRRPR 11 Unmodified _RVRPRKRRRPR_ 0 0 0 ENSG00000133247|ENST00000255613|KMT5C ENSG00000133247|ENST00000255613|KMT5C ENSG00000133247|ENST00000255613|KMT5C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 767.0023803710938 2 767.0009 1531.98725 NaN NaN NaN NaN NaN NaN NaN 74.903 1 75.567 75.067 76.067 0.6635 0 0 0 1.0082 1 36227 36227 0 0 1 29355 2756 18958 19016 32975 32975 0.24253238750043238 RVRPRRPRRR 10 Unmodified _RVRPRRPRRR_ 0 0 0 ENST00000371873.9_1_1:47799697-47834181:+|nuORF ENST00000371873.9_1_1:47799697-47834181:+|nuORF ENST00000371873.9_1_1:47799697-47834181:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.972412109375 3 468.971371 1403.89228 2.7823 0.0013048 0.029066 1.3631E-05 2.8114 0.0013184 468.9711746237948 45.638 0.71516 45.906 45.774 46.489 0.26768 102 30 4 0 0 0 0.94099 1 20955 20955 0.69767 0.53834 1 7342800 29356 7327 18959 19017 32976 32976 0.20649305278834618 RVRQKVKTK 9 Unmodified _RVRQKVKTK_ 0 0 0 REV__ENSG00000183763|ENST00000331456|TRAIP REV__ENSG00000183763|ENST00000331456|TRAIP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.87548828125 2 571.877656 1141.74076 NaN NaN NaN NaN NaN NaN NaN 66.964 1 67.621 67.121 68.121 0.65762 0 0 0 0.90699 1 30697 30697 1.8442 0.19162 1 + 29357 13946 18960 19018 32977 32977 0.17555886407785692 RVRRPAPL 8 Unmodified _RVRRPAPL_ 0 0 0 REV__ENST00000339195.10_2_21:47706310-47706622:+|nuORF REV__ENST00000339195.10_2_21:47706310-47706622:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 322.21148681640625 3 322.210282 963.609017 2.1539 0.000694 0.41057 0.00013229 2.5644 0.00082628 322.21050002642136 15.028 0.52288 15.028 14.783 15.306 0 80 59 2 0 0 0 0.74071 1 6629 6629 1.6526 0 1 119700 + 29358 15442 18961 19019 32978 32978 0.1257570111069981 RVRRRQRRRWQ 11 Unmodified _RVRRRQRRRWQ_ 0 0 0 REV__ENST00000370332.5_1_1:92949124-92949509:-|nuORF REV__ENST00000370332.5_1_1:92949124-92949509:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.6984558105469 5 331.403921 1651.98322 2.3387 0.00077505 -1.272 -0.00042156 1.0667 0.00035349 331.60402098044307 50.268 0.28236 50.529 50.364 50.647 0.26146 14 9 2 0 0 0 0.13295 1 23011 23011 0.45452 0.45452 1 305990 + 29359 15721 18962 19020 32979 32979 0.18331149256323442 RVRRRRNRTYK 11 Unmodified _RVRRRRNRTYK_ 0 0 0 REV__ENST00000481195.5_1_5:133561503-133561806:-|nuORF REV__ENST00000481195.5_1_5:133561503-133561806:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 390.9916687011719 4 390.990912 1559.93454 2.6562 0.0010385 0.059454 2.3246E-05 2.7156 0.0010618 391.24179193504415 58.11 0.33705 58.11 57.873 58.21 0 83 33 4 0 0 0 0.91391 1 26829 26829 0.08335 0.08335 1 2248800 + 29360 16699 18963 19021 32980 32980 0.17697235896571328 RVRRRRRRRPS 11 Unmodified _RVRRRRRRRPS_ 0 0 0 REV__ENST00000337537.7_1_14:64009813-64009936:-|nuORF REV__ENST00000337537.7_1_14:64009813-64009936:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 775.9965209960938 2 775.993606 1549.97266 NaN NaN NaN NaN NaN NaN NaN 26.406 1 27.185 26.685 27.685 0.7787 0 0 0 1.0082 1 11861 11861 0 0 1 + 29361 15430 18964 19022 32981 32981 0.21967166601916688 RVRVKGGG 8 Unmodified _RVRVKGGG_ 0 0 0 ENSG00000105193|ENST00000251453|RPS16 ENSG00000105193|ENST00000251453|RPS16 ENSG00000105193|ENST00000251453|RPS16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.76300048828125 2 414.761761 827.508969 3.5857 0.0014872 0.28456 0.00011803 3.8702 0.0016052 414.76163713637897 93.999 0.56911 94.259 93.959 94.528 0.25975 60 27 3 0 0 0 0.7471 1 43237 43237 0 0 1 855870 29362 1476 18965 19023 32982 32982 0.08831463776914461 RVSFRRQS 8 Unmodified _RVSFRRQS_ 0 0 0 REV__ENST00000449298.1_1_1:247803159-247803258:+|nuORF REV__ENST00000449298.1_1_1:247803159-247803258:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.251708984375 2 518.293956 1034.57336 NaN NaN NaN NaN NaN NaN NaN 80.224 1 80.544 80.044 81.044 0.31998 0 0 0 0.99035 1 39255 39255 4.3292 0.38484 1 + 29363 16402 18966 19024 32983 32983 0.05745618863056734 RVSKVKNIARE 11 Unmodified _RVSKVKNIARE_ 0 0 0 REV__nc|ENSG00000131725|Q5JSH3-4|WDR44 REV__nc|ENSG00000131725|Q5JSH3-4|WDR44 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 650.39892578125 2 650.39641 1298.77827 4.2799 0.0027836 -0.45446 -0.00029558 3.8254 0.002488 650.3962701297736 91.809 1.5567 92.061 91.527 93.084 0.25253 141 77 3 0 0 0 0.91359 1 42333 42333 0.26902 0 1 1576200 + 29364 11864 18967 19025 32984 32984 0.14082932882752175 RVSKVKNIARE 11 Unmodified _RVSKVKNIARE_ 0 0 0 REV__nc|ENSG00000131725|Q5JSH3-4|WDR44 REV__nc|ENSG00000131725|Q5JSH3-4|WDR44 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 650.3992919921875 2 650.39641 1298.77827 4.1142 0.0026759 -0.51135 -0.00033258 3.6028 0.0023433 650.3961305130782 91.482 1.3216 92.144 91.534 92.856 0.66198 132 63 3 0 0 0 0.91359 1 42418 42418 0.26902 0 1 2244600 + 29365 11864 18967 19025 32985 32985 0.14082932882752175 RVSLFVLFLV 10 Unmodified _RVSLFVLFLV_ 0 0 0 ENSG00000213215|ENST00000641412|OR2F1 ENSG00000213215|ENST00000641412|OR2F1 ENSG00000213215|ENST00000641412|OR2F1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.2538757324219 3 398.253265 1191.73797 2.8405 0.0011313 -0.92005 -0.00036641 1.9205 0.00076484 398.25297012718073 63.919 0.68417 64.167 63.96 64.644 0.24803 75 43 2 0 0 0 0.9406 1 29212 29212 0.77653 0.078866 1 1459300 29366 6086 18968 19026 32986 32986 0.14976618230275562 RVSLFVLFLV 10 Unmodified _RVSLFVLFLV_ 0 0 0 ENSG00000213215|ENST00000641412|OR2F1 ENSG00000213215|ENST00000641412|OR2F1 ENSG00000213215|ENST00000641412|OR2F1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 398.253265 1191.73797 2.8405 0.0011313 -0.92005 -0.00036641 1.9205 0.00076484 398.25297012718073 63.919 0.68417 64.167 63.96 64.644 0.24803 -0.085725 6.2777E-05 NaN 0.77653 75 43 2 NaN NaN NaN NaN 0 NaN NaN 0 1459300 29367 6086 18968 19026 0.14976618230275562 RVSLFVLFLV 10 Unmodified _RVSLFVLFLV_ 0 0 0 ENSG00000213215|ENST00000641412|OR2F1 ENSG00000213215|ENST00000641412|OR2F1 ENSG00000213215|ENST00000641412|OR2F1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 398.253265 1191.73797 2.8835 0.0011484 -0.99777 -0.00039737 1.8857 0.000751 398.2529238094491 63.681 0.95404 64.339 63.745 64.699 0.65756 0.085725 -3.0077E-05 NaN 0.77653 103 66 2 NaN NaN NaN NaN 0 NaN NaN 0 2724900 29368 6086 18968 19026 0.14976618230275562 RVSRLSHLRHH 11 Unmodified _RVSRLSHLRHH_ 0 0 0 ENSG00000175175|ENST00000308249|PPM1E;nc|ENSG00000175175|Q8WY54-3|PPM1E ENSG00000175175|ENST00000308249|PPM1E ENSG00000175175|ENST00000308249|PPM1E MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 699.8063354492188 2 699.402892 1396.79123 NaN NaN NaN NaN NaN NaN NaN 46.753 1 47.406 46.906 47.906 0.65219 0 0 0 1.0075 1 21413 21413 0.96228 0.61164 1 29369 5017 18969 19027 32987 32987 0.10870808785512054 RVSRPKPRRN 10 Unmodified _RVSRPKPRRN_ 0 0 0 ENST00000565493.1_1_20:34638316-34638640:-|nuORF ENST00000565493.1_1_20:34638316-34638640:-|nuORF ENST00000565493.1_1_20:34638316-34638640:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.9289245605469 3 422.593566 1264.75887 NaN NaN NaN NaN NaN NaN NaN 68.633 1 69.292 68.792 69.792 0.65924 0 0 0 0.99864 1 31461 31461 2.8433 1.881 1 29370 9046 18970 19028 32988 32988 0.13708021382512925 RVSVLGGL 8 Unmodified _RVSVLGGL_ 0 0 0 MLT1H2_dup1235|chr4:69119706-69119888:+|2.695483134643567|0.0582734853734306|5.53|532.0|11|2|anti-sense MLT1H2_dup1235|chr4:69119706-69119888:+|2.695483134643567|0.0582734853734306|5.53|532.0|11|2|anti-sense MLT1H2_dup1235|chr4:69119706-69119888:+|2.695483134643567|0.0582734853734306|5.53|532.0|11|2|anti-sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 800.5047607421875 1 800.498864 799.491587 4.1594 0.0033296 2.4499 0.0019611 6.6093 0.0052907 800.500341820462 103.62 0.039284 104.22 104.19 104.23 0.59821 5 3 2 0 0 0 0.7471 1 47936 47936 0 0 1 242740 29371 9522 18971 19029 32989 32989 0.08382123451258394 RVTAVLVVVH 10 Unmodified _RVTAVLVVVH_ 0 0 0 REV__ENSG00000100714|ENST00000652337|MTHFD1 REV__ENSG00000100714|ENST00000652337|MTHFD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.8485717773438 2 546.848033 1091.68151 NaN NaN NaN NaN NaN NaN NaN 15.157 1 15.463 14.963 15.963 0.306 0 0 0 1.002 1 6852 6852 0 0 1 + 29372 10843 18972 19030 32990 32990 0.1393399039363885 RVVHLLPL 8 Unmodified _RVVHLLPL_ 0 0 0 nc|ENSG00000224586|O75715-2|GPX5;ENSG00000224586|ENST00000412168|GPX5 nc|ENSG00000224586|O75715-2|GPX5 nc|ENSG00000224586|O75715-2|GPX5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 316.2120666503906 3 316.2114 945.612371 NaN NaN NaN NaN NaN NaN NaN 36.101 1 36.892 36.392 37.392 0.79131 0 0 0 0.99035 1 16362 16362 1.8442 0 1 29373 6165 18973 19031 32991 32991 0.13738951164714308 RVVISHFV 8 Unmodified _RVVISHFV_ 0 0 0 REV__ENST00000438277.5_1_2:128855105-128928859:+|nuORF REV__ENST00000438277.5_1_2:128855105-128928859:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 319.5291442871094 3 319.527388 955.560336 NaN NaN NaN NaN NaN NaN NaN 33.496 1 33.496 32.996 33.996 0 0 0 0 0.99035 1 15182 15182 1.8442 0 1 + 29374 16324 18974 19032 32992 32992 0.08077787750949028 RVVPIRKIHAL 11 Unmodified _RVVPIRKIHAL_ 0 0 0 nc|ENSG00000078618|O43847-2|NRDC;ENSG00000078618|ENST00000352171|NRDC;ENST00000473805.5_1_1:52281970-52293513:-|nuORF nc|ENSG00000078618|O43847-2|NRDC nc|ENSG00000078618|O43847-2|NRDC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 651.4306030273438 2 651.430056 1300.84556 NaN NaN NaN NaN NaN NaN NaN 60.05 1 60.306 59.806 60.806 0.25578 0 0 0 1.0082 1 27498 27498 0 0 1 29375 880 18975 19033 32993 32993 0.2071700788437738 RVVRGPRGL 9 Unmodified _RVVRGPRGL_ 0 0 0 REV__ENST00000564858.1_1_16:88877682-88878307:-|nuORF REV__ENST00000564858.1_1_16:88877682-88878307:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 337.2181091308594 3 337.217437 1008.63048 2.7078 0.00091311 0.937 0.00031597 3.6448 0.0012291 337.21773457604553 6.195 0.32636 6.8186 6.6968 7.0232 0.62357 51 28 2 0 0 0 1.2459 1 2814 2814 0 0 1 60188 + 29376 17406 18976 19034 32994 32994 0.12651086139430845 RVVSLVTLFYI 11 Unmodified _RVVSLVTLFYI_ 0 0 0 REV__ENSG00000152207|ENST00000682523|CYSLTR2 REV__ENSG00000152207|ENST00000682523|CYSLTR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.26904296875 3 437.267463 1308.78056 2.7892 0.0012196 0.82038 0.00035873 3.6096 0.0015783 437.26768950357035 48.562 1.1142 49.389 48.805 49.919 0.82705 118 58 3 0 0 0 0.86798 1 22140 22140 3.8459 0.52627 1 3177500 + 29377 10030 18977 19035 32995 32995 0.13851968567882977 RVVSLVTLFYI 11 Unmodified _RVVSLVTLFYI_ 0 0 0 REV__ENSG00000152207|ENST00000682523|CYSLTR2 REV__ENSG00000152207|ENST00000682523|CYSLTR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2691650390625 3 437.267463 1308.78056 3.2062 0.001402 0.98732 0.00043172 4.1935 0.0018337 437.26772062992023 48.493 1.1974 49.148 48.621 49.818 0.65525 149 45 4 0 0 0 0.89988 1 22286 22286 2.4348 0.18206 1 4130600 + 29378 10030 18977 19035 32996 32996 0.13851968567882977 RVVVGGPP 8 Unmodified _RVVVGGPP_ 0 0 0 REV__ENSG00000184144|ENST00000331830|CNTN2 REV__ENSG00000184144|ENST00000331830|CNTN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 390.74017333984375 2 390.739963 779.465373 NaN NaN NaN NaN NaN NaN NaN 101.54 1 101.59 101.09 102.09 0.057198 0 0 0 0.99035 1 55136 55136 0.79363 0 1 + 29379 13957 18978 19036 32997 32997 0.06681854279770505 RVVVRRRRPLS 11 Unmodified _RVVVRRRRPLS_ 0 0 0 REV__ENST00000368804.5_1_1:152079991-152080243:-|nuORF REV__ENST00000368804.5_1_1:152079991-152080243:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.3052062988281 3 465.304016 1392.89022 NaN NaN NaN NaN NaN NaN NaN 102.68 1 103 102.5 103.5 0.31863 0 0 0 1.0082 1 47489 47489 0 0 1 + 29380 15692 18979 19037 32998 32998 0.20948831750411046 RVWKVPKPRRK 11 Unmodified _RVWKVPKPRRK_ 0 0 0 ENSG00000187166|ENST00000335017|H1-7 ENSG00000187166|ENST00000335017|H1-7 ENSG00000187166|ENST00000335017|H1-7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 725.4675903320312 2 725.467504 1448.92046 3.6488 0.0026471 0.82734 0.00060021 4.4761 0.0032473 725.4679351000343 42.964 0.11186 42.964 42.874 42.986 0 7 4 2 0 0 0 0.91391 1 19561 19561 0.30703 0 1 869610 29381 5606 18980 19038 32999 32999 0.21395190415569232 RVWLQPRPL 9 Unmodified _RVWLQPRPL_ 0 0 0 ENST00000463471.6_1_1:2491166-2493466:+|nuORF;ENST00000496064.5_1_1:2491286-2492222:+|nuORF ENST00000463471.6_1_1:2491166-2493466:+|nuORF ENST00000463471.6_1_1:2491166-2493466:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.8563232421875 2 582.85365 1163.69275 NaN NaN NaN NaN NaN NaN NaN 11.387 1 11.667 11.167 12.167 0.2792 0 0 0 0.91238 1 4939 4939 0.52476 0.066424 1 29382 8105 18981 19039 33000 33000 0.11744812487745548 RVWRRRRHTYY 11 Unmodified _RVWRRRRHTYY_ 0 0 0 REV__nc|ENSG00000135636|O75923-15|DYSF REV__nc|ENSG00000135636|O75923-15|DYSF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 824.9566040039062 2 824.955824 1647.89709 NaN NaN NaN NaN NaN NaN NaN 29.81 1 30.428 29.928 30.928 0.61789 0 0 0 1.0082 1 13670 13670 0 0 1 + 29383 12030 18982 19040 33001 33001 0.09906144630986091 RVWWYRPFQYF 11 Unmodified _RVWWYRPFQYF_ 0 0 0 nc|ENSG00000198964|Q86VZ5-2|SGMS1;ENSG00000198964|ENST00000361781|SGMS1 nc|ENSG00000198964|Q86VZ5-2|SGMS1 nc|ENSG00000198964|Q86VZ5-2|SGMS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 824.357421875 2 824.414603 1646.81465 NaN NaN NaN NaN NaN NaN NaN 93.207 1 93.207 92.707 93.707 0 0 0 0 1.0082 1 49738 49738 0 0 1 29384 5970 18983 19041 33002 33002 0.017118097794309506 RVWWYRPFQYF 11 Unmodified _RVWWYRPFQYF_ 0 0 0 nc|ENSG00000198964|Q86VZ5-2|SGMS1;ENSG00000198964|ENST00000361781|SGMS1 nc|ENSG00000198964|Q86VZ5-2|SGMS1 nc|ENSG00000198964|Q86VZ5-2|SGMS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 824.4180297851562 2 824.414603 1646.81465 NaN NaN NaN NaN NaN NaN NaN 54.584 1 54.85 54.35 55.35 0.26543 0 0 0 1.008 1 24951 24951 0.30703 0.30703 1 29385 5970 18983 19041 33003 33003 0.017118097794309506 RWAAKQPI 8 Unmodified _RWAAKQPI_ 0 0 0 REV__ENSG00000083857|ENST00000441802|FAT1 REV__ENSG00000083857|ENST00000441802|FAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2878112792969 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 48.486 1 48.748 48.248 49.248 0.26209 0 0 0 0.99035 1 22165 22165 5.2307 0.47466 1 + 29386 10632 18984 19042 33004 33004 0.07004903608162749 RWAELLPL 8 Unmodified _RWAELLPL_ 0 0 0 ENST00000528713.5_1_11:500482-502162:-|nuORF;ENST00000531223.1_1_11:499763-502162:-|nuORF;ENST00000525522.5_1_11:499827-504867:-|nuORF;ENSG00000023191|ENST00000354420|RNH1;ENST00000533592.2_1_11:501898-502162:-|nuORF ENST00000528713.5_1_11:500482-502162:-|nuORF ENST00000528713.5_1_11:500482-502162:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 333.20013427734375 3 333.19916 996.575651 2.3914 0.00079681 0.033998 1.1328E-05 2.4254 0.00080813 333.19941350884807 13.005 0.055683 13.005 12.981 13.036 0 5 3 2 0 0 0 0.7471 1 5686 5686 1.8442 0 1 146850 29387 468 18985 19043 33005 33005 0.07722654548138053 RWALAVLLAF 10 Unmodified _RWALAVLLAF_ 0 0 0 nc|ENSG00000211701|A0A0A0MS02|TRGV1 nc|ENSG00000211701|A0A0A0MS02|TRGV1 nc|ENSG00000211701|A0A0A0MS02|TRGV1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 580.3519897460938 2 580.352951 1158.69135 NaN NaN NaN NaN NaN NaN NaN 102.72 1 103.04 102.54 103.54 0.31863 0 0 0 0.99983 1 47506 47506 1.8442 0 1 29388 9821 18986 19044 33006 33006 0.11835178398973767 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 403.6049499511719 3 403.269027 1206.78525 2.4132 0.00097318 0.87212 0.0003517 3.2853 0.0013249 403.26920346149734 56.456 0.15856 57.234 57.142 57.3 0.77786 24 16 2 0 0 0 0.9406 1 25820 25820 0.77653 0 1 607290 29389 9685 18987 19045 33007 33007 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 302.7044677734375 4 302.703589 1206.78525 2.0116 0.00060893 1.0191 0.00030849 3.0308 0.00091742 302.7038562702187 56.476 0.20704 57.254 57.117 57.324 0.77786 45 21 3 0 0 0 0.94364 1 25850 25850 0.15932 0 1 915290 29390 9685 18987 19045 33008 33008 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 302.70458984375 4 302.703589 1206.78525 2.0055 0.00060707 0.48015 0.00014534 2.4856 0.00075241 302.70371430479804 56.812 0.28282 57.59 57.379 57.662 0.77786 49 29 2 0 0 0 0.94364 1 25984 25984 0.15932 0 1 792420 29391 9685 18987 19045 33009 33009 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 302.7044677734375 4 302.703589 1206.78525 2.0003 0.0006055 1.056 0.00031967 3.0564 0.00092517 302.70385896537067 56.962 0.1768 57.74 57.645 57.822 0.77786 30 17 2 0 0 0 0.94364 1 26034 26034 0.15932 0 1 1433000 29392 9685 18987 19045 33010 33010 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 302.7043151855469 4 302.703589 1206.78525 1.9435 0.00058832 1.2542 0.00037964 3.1977 0.00096795 302.7039605881931 59.008 0.20966 59.767 59.717 59.927 0.75894 27 16 2 0 0 0 0.94364 1 27128 27128 0.15932 0 1 681710 29393 9685 18987 19045 33011 33011 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 302.70458984375 4 302.703589 1206.78525 2.1584 0.00065334 1.2154 0.0003679 3.3737 0.0010212 302.9546739596562 57.324 0.16187 57.589 57.441 57.603 0.26444 36 15 4 0 0 0 0.94099 1 26217 26217 0.69767 0 1 2941600 29394 9685 18987 19045 33012 33012 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.27056884765625 3 403.269027 1206.78525 2.9393 0.0011853 0.43235 0.00017435 3.3717 0.0013597 403.26908997323955 57.327 0.12307 57.592 57.48 57.603 0.26444 17 12 2 0 0 0 0.94099 1 26232 26232 0.69767 0 1 2934200 29395 9685 18987 19045 33013 33013 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.27032470703125 3 403.269027 1206.78525 2.943 0.0011868 0.84753 0.00034178 3.7905 0.0015286 403.26931080912834 57.554 0.29478 57.818 57.71 58.005 0.26444 36 18 3 0 0 0 0.93503 1 26344 26344 1.9064 0 1 920240 29396 9685 18987 19045 33014 33014 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 302.7049865722656 4 302.703589 1206.78525 2.2402 0.00067811 1.3534 0.00040969 3.5936 0.0010878 302.703954791172 60.189 0.30369 60.444 60.275 60.579 0.25578 39 15 4 0 0 0 0.94364 2 27537 27537;27594 0.15932 0 1 1031100 29397 9685 18987 19045 33015;33016 33015 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 403.6051940917969 3 403.269027 1206.78525 2.9849 0.0012037 0.35032 0.00014127 3.3353 0.001345 403.6036556046893 56.201 0.29153 56.869 56.73 57.021 0.66829 33 18 2 0 0 0 0.94099 1 25771 25771 0.69767 0 1 784030 29398 9685 18987 19045 33017 33017 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 403.269027 1206.78525 2.7495 0.0011088 0.73492 0.00029637 3.4844 0.0014052 403.26931934179106 57.285 0.15898 57.285 57.228 57.387 0 -0.0056003 -0.00011516 NaN 0.77653 24 15 2 NaN NaN NaN NaN 0 NaN NaN 0 1048800 29399 9685 18987 19045 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 403.269027 1206.78525 2.6854 0.0010829 1.3618 0.00054917 4.0472 0.0016321 403.26954112462954 57.839 0.16938 57.839 57.756 57.925 0 -0.011246 0.00027234 NaN 1.9064 32 14 3 NaN NaN NaN NaN 0 NaN NaN 0 1067900 29400 9685 18987 19045 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 403.269027 1206.78525 2.4132 0.00097318 0.87212 0.0003517 3.2853 0.0013249 403.26920346149734 56.456 0.15856 57.234 57.142 57.3 0.77786 -0.057407 5.0818E-05 NaN 0.77653 24 16 2 NaN NaN NaN NaN 0 NaN NaN 0 607290 29401 9685 18987 19045 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 403.269027 1206.78525 2.3951 0.00096586 0.93255 0.00037607 3.3276 0.0013419 403.2692641123637 57.245 0.15079 58.014 57.917 58.068 0.76861 0.16418 -0.00024697 NaN 1.9064 25 15 3 NaN NaN NaN NaN 0 NaN NaN 0 541090 29402 9685 18987 19045 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 302.703589 1206.78525 1.9282 0.00058366 1.5883 0.00048079 3.5165 0.0010645 302.95484165783245 59.391 0.30561 60.141 59.937 60.243 0.74927 -0.15347 0.00021535 NaN 0.15932 46 22 3 NaN NaN NaN NaN 0 NaN NaN 0 780430 29403 9685 18987 19045 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 403.269027 1206.78525 2.938 0.0011848 0.81877 0.00033018 3.7568 0.001515 403.26914912009624 57.104 0.23259 57.368 57.254 57.487 0.26444 0.077484 -1.372E-05 NaN 0.77653 25 13 3 NaN NaN NaN NaN 0 NaN NaN 0 1531000 29404 9685 18987 19045 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 302.703589 1206.78525 2.2356 0.00067671 0.68016 0.00020589 2.9157 0.0008826 302.70364470938785 59.704 0.22033 59.963 59.782 60.002 0.2593 0.097988 -0.00037479 NaN 0.15932 31 13 3 NaN NaN NaN NaN 0 NaN NaN 0 1919300 29405 9685 18987 19045 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 403.269027 1206.78525 3.0024 0.0012108 0.74115 0.00029888 3.7435 0.0015096 403.6037613582349 56.796 0.22813 57.465 57.35 57.578 0.66829 -0.063629 0.00020407 NaN 0.69767 20 12 2 NaN NaN NaN NaN 0 NaN NaN 0 1422000 29406 9685 18987 19045 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 403.269027 1206.78525 2.9961 0.0012082 0.8884 0.00035826 3.8845 0.0015665 403.2691053136371 56.608 0.32025 57.277 57.064 57.385 0.66829 -0.014476 7.052E-05 NaN 0.77653 31 18 3 NaN NaN NaN NaN 0 NaN NaN 0 708290 29407 9685 18987 19045 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 403.269027 1206.78525 3.0096 0.0012137 1.3131 0.00052952 4.3227 0.0017432 403.26951196368464 57.06 0.32144 57.728 57.578 57.899 0.66829 -0.12155 0.00021337 NaN 1.9064 29 14 3 NaN NaN NaN NaN 0 NaN NaN 0 1687100 29408 9685 18987 19045 0.19012897501283987 RWALPLLLLL 10 Unmodified _RWALPLLLLL_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ;nc|ENSG00000149177|Q12913-2|PTPRJ;ENSG00000149177|ENST00000418331|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 302.703589 1206.78525 2.1424 0.00064851 1.2426 0.00037614 3.385 0.0010246 302.70392848798286 59.632 0.24712 60.297 60.171 60.418 0.66503 0.0031581 -0.00020324 NaN 0.15932 26 10 3 NaN NaN NaN NaN 0 NaN NaN 0 1141700 29409 9685 18987 19045 0.19012897501283987 RWARWLWRRLF 11 Unmodified _RWARWLWRRLF_ 0 0 0 ENST00000491791.1_1_3:49377935-49378118:-|nuORF ENST00000491791.1_1_3:49377935-49378118:-|nuORF ENST00000491791.1_1_3:49377935-49378118:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 823.8535766601562 2 823.470578 1644.9266 NaN NaN NaN NaN NaN NaN NaN 91.156 1 91.407 90.907 91.907 0.25163 0 0 0 1.0082 1 41917 41917 0 0 1 29410 8398 18988 19046 33018 33018 0.12993708647081803 RWCTLHTEF 9 Unmodified _RWCTLHTEF_ 0 0 0 ENSG00000111817|ENST00000644252|DSE ENSG00000111817|ENST00000644252|DSE ENSG00000111817|ENST00000644252|DSE MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 398.19171142578125 3 398.190447 1191.54951 2.6476 0.0010542 0.059249 2.3593E-05 2.7068 0.0010778 398.1906073633404 40.386 0.25905 40.386 40.253 40.512 0 22 8 3 0 0 0 0.59776 1 18308 18308 7.1017 0 1 1677100 29411 1777 18989 19047 33019 33019 -0.03859982685639807 RWCWCTRWCWW 11 Unmodified _RWCWCTRWCWW_ 0 0 0 REV__ENST00000246115.4_1_19:3178863-3179049:+|nuORF REV__ENST00000246115.4_1_19:3178863-3179049:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 836.3513793945312 2 836.349568 1670.68458 NaN NaN NaN NaN NaN NaN NaN 13.38 1 13.38 12.88 13.88 0 0 0 0 1.0082 1 5850 5850 0 0 1 + 29412 14894 18990 19048 33020 33020 -0.12393149087210986 RWDLYRRKVET 11 Unmodified _RWDLYRRKVET_ 0 0 0 REV__ENSG00000170903|ENST00000301919|MSANTD4 REV__ENSG00000170903|ENST00000301919|MSANTD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 761.4174194335938 2 761.417874 1520.82119 NaN NaN NaN NaN NaN NaN NaN 16.773 1 16.974 16.474 17.474 0.20057 0 0 0 1.0082 1 7415 7415 0 0 1 + 29413 13461 18991 19049 33021 33021 0.08161702940128635 RWDRCRYYHDR 11 Unmodified _RWDRCRYYHDR_ 0 0 0 ENST00000521713.1_1_7:6179681-6199085:+|nuORF;ENSG00000106346|ENST00000306177|USP42;nc|ENSG00000106346|Q9H9J4|USP42;ENST00000479544.6_1_7:6150764-6196715:+|nuORF ENST00000521713.1_1_7:6179681-6199085:+|nuORF ENST00000521713.1_1_7:6179681-6199085:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 813.4735107421875 2 813.378757 1624.74296 NaN NaN NaN NaN NaN NaN NaN 79.406 1 79.406 78.906 79.906 0 0 0 0 1.0082 1 39223 39223 0 0 1 29414 1564 18992 19050 33022 33022 -0.04442052916715511 RWELQEFRWIR 11 Unmodified _RWELQEFRWIR_ 0 0 0 REV__nc|ENSG00000185658|Q9NSI6-3|BRWD1 REV__nc|ENSG00000185658|Q9NSI6-3|BRWD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 809.9329833984375 2 809.933691 1617.85283 NaN NaN NaN NaN NaN NaN NaN 58.756 1 59.018 58.518 59.518 0.26227 0 0 0 1.0082 1 26909 26909 0 0 1 + 29415 14027 18993 19051 33023 33023 0.068616956941014 RWEWGWRRSWP 11 Unmodified _RWEWGWRRSWP_ 0 0 0 ENST00000456291.1_3_9:123638279-123638699:-|nuORF ENST00000456291.1_3_9:123638279-123638699:-|nuORF ENST00000456291.1_3_9:123638279-123638699:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.7896118164062 3 534.600609 1600.78 NaN NaN NaN NaN NaN NaN NaN 54.524 1 54.524 54.024 55.024 0 0 0 0 1.0079 1 25021 25021 0.45452 0.046251 1 29416 8049 18994 19052 33024 33024 0.0036398669133177464 RWFTLWRWWTR 11 Unmodified _RWFTLWRWWTR_ 0 0 0 REV__nc|ENSG00000164284|Q8TAA5-2|GRPEL2 REV__nc|ENSG00000164284|Q8TAA5-2|GRPEL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 847.4497680664062 2 847.446769 1692.87898 NaN NaN NaN NaN NaN NaN NaN 100.3 1 100.36 99.86 100.86 0.059723 0 0 0 1.0082 1 54390 54390 0 0 1 + 29417 18014 18995 19053 33025 33025 0.060260096562387844 RWFWLVRVLL 10 Unmodified _RWFWLVRVLL_ 0 0 0 DUOXA2|p.L157Gfs*8|1|0.34|ENSG00000140274|chr15:45116643-45116644|CC/-|frameshift_variant;ENSG00000140274|ENST00000323030|DUOXA2 DUOXA2|p.L157Gfs*8|1|0.34|ENSG00000140274|chr15:45116643-45116644|CC/-|frameshift_variant DUOXA2|p.L157Gfs*8|1|0.34|ENSG00000140274|chr15:45116643-45116644|CC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 694.42529296875 2 694.4217 1386.82885 4.5189 0.003138 1.2409 0.00086168 5.7597 0.0039997 694.4224355355126 95.37 0.63596 95.637 95.337 95.973 0.26751 78 39 3 0 0 0 0.94246 1 43785 43785 0.40072 0 1 672130 29418 281 18996 19054 33026 33026 0.15090506998399178 RWFYRDKFFLY 11 Unmodified _RWFYRDKFFLY_ 0 0 0 REV__ENSG00000166670|ENST00000279441|MMP10 REV__ENSG00000166670|ENST00000279441|MMP10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 820.9217529296875 2 820.922261 1639.82997 NaN NaN NaN NaN NaN NaN NaN 98.354 1 98.654 98.154 99.154 0.29987 0 0 0 1.008 1 45290 45290 0.26902 0.26902 1 + 29419 13253 18997 19055 33027 33027 0.035646765766387034 RWGPVAHPF 9 Unmodified _RWGPVAHPF_ 0 0 0 ENST00000353704.2_2_9:35732632-35732818:+|nuORF ENST00000353704.2_2_9:35732632-35732818:+|nuORF ENST00000353704.2_2_9:35732632-35732818:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.7858276367188 2 533.782693 1065.55083 3.0105 0.0016069 1.2278 0.00065539 4.2383 0.0022623 533.7836578915992 42.375 0.14624 42.375 42.334 42.48 0 24 14 2 0 0 0 0.12301 1 19294 19294 28.487 7.6156 1 1627600 29420 7139 18998 19056 33028 33028 0.02068019465400539 RWGPVAHPF 9 Unmodified _RWGPVAHPF_ 0 0 0 ENST00000353704.2_2_9:35732632-35732818:+|nuORF ENST00000353704.2_2_9:35732632-35732818:+|nuORF ENST00000353704.2_2_9:35732632-35732818:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.7850341796875 2 533.782693 1065.55083 3.0165 0.0016102 0.62731 0.00033485 3.6438 0.001945 533.7829093407693 41.215 0.24227 42.019 41.888 42.13 0.8035 26 16 2 0 0 0 0.20384 2 18725 18678;18725 23.148 10.617 1 878450 29421 7139 18998 19056 33029;33030 33030 0.02068019465400539 RWGPVAHPF 9 Unmodified _RWGPVAHPF_ 0 0 0 ENST00000353704.2_2_9:35732632-35732818:+|nuORF ENST00000353704.2_2_9:35732632-35732818:+|nuORF ENST00000353704.2_2_9:35732632-35732818:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.7846069335938 2 533.782693 1065.55083 NaN NaN NaN NaN NaN NaN NaN 42.351 1 42.621 42.121 43.121 0.27021 0 0 0 0.86044 1 19314 19314 7.2892 0 1 29422 7139 18998 19056 33031 33031 0.02068019465400539 RWHELRRFWIR 11 Unmodified _RWHELRRFWIR_ 0 0 0 ENST00000549078.5_1_12:53344429-53346127:+|nuORF ENST00000549078.5_1_12:53344429-53346127:+|nuORF ENST00000549078.5_1_12:53344429-53346127:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 827.9642333984375 2 827.963117 1653.91168 NaN NaN NaN NaN NaN NaN NaN 86.325 1 86.355 85.855 86.855 0.030289 0 0 0 1.0082 1 43409 43409 0 0 1 29423 8859 18999 19057 33032 33032 0.11088216779103277 RWKFIKRWKTR 11 Unmodified _RWKFIKRWKTR_ 0 0 0 nc|ENSG00000197415|Q14D04-2|VEPH1;ENSG00000197415|ENST00000362010|VEPH1 nc|ENSG00000197415|Q14D04-2|VEPH1 nc|ENSG00000197415|Q14D04-2|VEPH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 535.6588134765625 3 535.6598 1603.95757 NaN NaN NaN NaN NaN NaN NaN 86.322 1 86.352 85.852 86.852 0.030289 0 0 0 1.0082 1 43406 43406 0.073264 0.073264 1 29424 5815 19000 19058 33033 33033 0.17974861961329225 RWKFIKYR 8 Unmodified _RWKFIKYR_ 0 0 0 REV__ENST00000570035.5_1_16:72604348-72698865:-|nuORF REV__ENST00000570035.5_1_16:72604348-72698865:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 598.85693359375 2 598.856193 1195.69783 NaN NaN NaN NaN NaN NaN NaN 9.3024 1 9.6136 9.1136 10.114 0.31115 0 0 0 0.99035 1 4164 4164 0.69038 0 1 + 29425 17443 19001 19059 33034 33034 0.10781116350358388 RWKKRFFVL 9 Unmodified _RWKKRFFVL_ 0 0 0 nc|ENSG00000163618|Q9ULU8-2|CADPS;nc|ENSG00000163618|Q9ULU8-3|CADPS;ENSG00000163618|ENST00000383710|CADPS;nc|ENSG00000163618|Q9ULU8-4|CADPS nc|ENSG00000163618|Q9ULU8-2|CADPS nc|ENSG00000163618|Q9ULU8-2|CADPS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 320.70037841796875 4 320.700109 1278.77133 2.0654 0.00066238 -0.11737 -3.7642E-05 1.9481 0.00062474 320.7000518036142 52.746 1.0254 53.549 53.162 54.187 0.8035 272 78 5 0 0 0 1.1154 1 24279 24279 1.0715 0.61694 1 79905000 29426 4230 19002 19060 33035 33035 0.14309664792813237 RWKKRFFVL 9 Unmodified _RWKKRFFVL_ 0 0 0 nc|ENSG00000163618|Q9ULU8-2|CADPS;nc|ENSG00000163618|Q9ULU8-3|CADPS;ENSG00000163618|ENST00000383710|CADPS;nc|ENSG00000163618|Q9ULU8-4|CADPS nc|ENSG00000163618|Q9ULU8-2|CADPS nc|ENSG00000163618|Q9ULU8-2|CADPS MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 320.7011413574219 4 320.700109 1278.77133 1.9724 0.00063256 0.55526 0.00017807 2.5277 0.00081064 320.7003347607698 52.758 0.90335 53.42 52.987 53.89 0.66198 175 46 5 0 0 0 0.11393 1 24254 24254 1.0715 1.0715 1 157800000 29427 4230 19002 19060 33036 33036 0.14309664792813237 RWKKRFFVL 9 Unmodified _RWKKRFFVL_ 0 0 0 nc|ENSG00000163618|Q9ULU8-2|CADPS;nc|ENSG00000163618|Q9ULU8-3|CADPS;ENSG00000163618|ENST00000383710|CADPS;nc|ENSG00000163618|Q9ULU8-4|CADPS nc|ENSG00000163618|Q9ULU8-2|CADPS nc|ENSG00000163618|Q9ULU8-2|CADPS MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 320.700109 1278.77133 2.46 0.00078892 0.32112 0.00010298 2.7811 0.0008919 320.7001895142869 53.659 0.65444 53.659 53.264 53.918 0 0.19825 0.00014594 NaN 1.0715 210 47 6 NaN NaN NaN NaN 0 NaN NaN 0 112240000 29428 4230 19002 19060 0.14309664792813237 RWKKRRRRKRR 11 Unmodified _RWKKRRRRKRR_ 0 0 0 FBXO3|p.M415Wfs*73|1|0.18|ENSG00000110429|chr11:33742081-33742081|T/-|frameshift_variant FBXO3|p.M415Wfs*73|1|0.18|ENSG00000110429|chr11:33742081-33742081|T/-|frameshift_variant FBXO3|p.M415Wfs*73|1|0.18|ENSG00000110429|chr11:33742081-33742081|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 841.5460815429688 2 841.548548 1681.08254 NaN NaN NaN NaN NaN NaN NaN 59.851 1 60.516 60.016 61.016 0.66503 0 0 0 1.0082 1 27396 27396 0 0 1 29429 9359 19003 19061 33037 33037 0.2692459194104231 RWKKRRRRKRR 11 Unmodified _RWKKRRRRKRR_ 0 0 0 FBXO3|p.M415Wfs*73|1|0.18|ENSG00000110429|chr11:33742081-33742081|T/-|frameshift_variant FBXO3|p.M415Wfs*73|1|0.18|ENSG00000110429|chr11:33742081-33742081|T/-|frameshift_variant FBXO3|p.M415Wfs*73|1|0.18|ENSG00000110429|chr11:33742081-33742081|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 841.3001708984375 2 841.548548 1681.08254 NaN NaN NaN NaN NaN NaN NaN 106.91 1 107.51 107.01 108.01 0.60074 0 0 0 1.0082 1 49352 49352 0 0 1 29430 9359 19003 19061 33038 33038 0.2692459194104231 RWKLDGPR 8 Unmodified _RWKLDGPR_ 0 0 0 Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|156|1|anti-sense;Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|150|1|anti-sense Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|156|1|anti-sense Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|156|1|anti-sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 343.199462890625 3 343.198042 1026.5723 2.424 0.00083192 -0.85292 -0.00029272 1.5711 0.0005392 343.1977449675482 40.684 0.40696 40.684 40.561 40.968 0 34 25 2 0 0 0 0.72814 1 18457 18457 3.5965 1.098 1 2795300 29431 9372 19004 19062 33039 33039 0.06007404494130242 RWKLVQGTKI 10 Unmodified _RWKLVQGTKI_ 0 0 0 ENST00000588166.1_1_19:5135556-5138314:+|nuORF ENST00000588166.1_1_19:5135556-5138314:+|nuORF ENST00000588166.1_1_19:5135556-5138314:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 410.2543640136719 3 410.255669 1227.74518 NaN NaN NaN NaN NaN NaN NaN 68.458 1 69.118 68.618 69.618 0.65924 0 0 0 0.99954 1 31380 31380 2.086 1.3883 1 29432 9201 19005 19063 33040 33040 0.14041350830689225 RWKPASQPTI 10 Unmodified _RWKPASQPTI_ 0 0 0 ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E ENSG00000204592|ENST00000376630|HLA-E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.55938720703125 3 395.224257 1182.65094 2.7895 0.0011025 0.44627 0.00017638 3.2358 0.0012788 395.2244534660208 27.603 0.21363 28.224 28.146 28.36 0.62179 16 11 2 0 0 0 0.90216 1 12656 12656 3.5871 0.74377 1 191300 29433 6023 19006 19064 33041 33041 0.06692212008556453 RWKQISRRRKK 11 Unmodified _RWKQISRRRKK_ 0 0 0 ENST00000558931.5_1_14:24614427-24614592:-|nuORF ENST00000558931.5_1_14:24614427-24614592:-|nuORF ENST00000558931.5_1_14:24614427-24614592:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 771.483642578125 2 771.484217 1540.95388 NaN NaN NaN NaN NaN NaN NaN 55.1 1 55.767 55.267 56.267 0.66798 0 0 0 1.0082 1 25213 25213 0 0 1 29434 8960 19007 19065 33042 33042 0.20504192187468107 RWKRKRQWVYQ 11 Unmodified _RWKRKRQWVYQ_ 0 0 0 REV__ENST00000562283.5_1_16:84733615-84766691:+|nuORF REV__ENST00000562283.5_1_16:84733615-84766691:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 817.3871459960938 2 817.46295 1632.91135 NaN NaN NaN NaN NaN NaN NaN 86.219 1 86.25 85.75 86.75 0.030289 0 0 0 1.0082 1 43322 43322 0 0 1 + 29435 17381 19008 19066 33043 33043 0.12020797059267352 RWKRKRQWVYQ 11 Unmodified _RWKRKRQWVYQ_ 0 0 0 REV__ENST00000562283.5_1_16:84733615-84766691:+|nuORF REV__ENST00000562283.5_1_16:84733615-84766691:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 817.6355590820312 2 817.46295 1632.91135 NaN NaN NaN NaN NaN NaN NaN 108.6 1 109.21 108.71 109.71 0.60264 0 0 0 1.0082 1 50105 50105 0 0 1 + 29436 17381 19008 19066 33044 33044 0.12020797059267352 RWKRRRNP 8 Unmodified _RWKRRRNP_ 0 0 0 REV__ENST00000354828.7_1_21:27107345-27113889:+|nuORF REV__ENST00000354828.7_1_21:27107345-27113889:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.6898803710938 2 584.849765 1167.68498 NaN NaN NaN NaN NaN NaN NaN 4.9873 1 5.3523 4.8523 5.8523 0.36497 0 0 0 0.99035 1 2263 2263 0.69038 0.16561 1 + 29437 15535 19009 19067 33045 33045 0.107840980108449 RWKRRRRRRLP 11 Unmodified _RWKRRRRRRLP_ 0 0 0 ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 410.2659912109375 4 409.764638 1635.02945 2.7177 0.0011136 -0.60873 -0.00024943 2.109 0.00086418 410.26528940516187 49.163 0.4279 49.163 48.896 49.324 0 43 20 3 0 0 0 0.91345 2 22539 22470;22539 0.45452 0.35968 1 1137500 29438 6957 19010 19068 33046;33047 33047 0.2373321415841474 RWKRRRRRRLP 11 Unmodified _RWKRRRRRRLP_ 0 0 0 ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.2035827636719 5 328.013166 1635.02945 2.4229 0.00079475 0.051148 1.6777E-05 2.4741 0.00081152 328.01339865103336 51.3 0.60603 51.3 50.938 51.544 0 62 31 3 0 0 0 0.91489 1 23488 23488 0 0 1 608030 29439 6957 19010 19068 33048 33048 0.2373321415841474 RWKRRRRRRLP 11 Unmodified _RWKRRRRRRLP_ 0 0 0 ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 818.5881958007812 2 818.521999 1635.02945 NaN NaN NaN NaN NaN NaN NaN 92.317 1 92.317 91.817 92.817 0 0 0 0 1.0082 1 49024 49024 0 0 1 29440 6957 19010 19068 33049 33049 0.2373321415841474 RWKRRRRRRLP 11 Unmodified _RWKRRRRRRLP_ 0 0 0 ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 818.4654541015625 2 818.521999 1635.02945 NaN NaN NaN NaN NaN NaN NaN 92.554 1 92.554 92.054 93.054 0 0 0 0 1.0082 1 49213 49213 0 0 1 29441 6957 19010 19068 33050 33050 0.2373321415841474 RWKRRRRRRLP 11 Unmodified _RWKRRRRRRLP_ 0 0 0 ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.2021789550781 5 328.013166 1635.02945 2.1025 0.00068965 0.76405 0.00025062 2.8666 0.00094027 328.0133626825624 50.7 0.4212 51.517 51.322 51.743 0.81738 27 22 2 0 0 0 0.13295 1 23128 23128 0.45452 0.45452 1 649530 29442 6957 19010 19068 33051 33051 0.2373321415841474 RWKRRRRRRLP 11 Unmodified _RWKRRRRRRLP_ 0 0 0 ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.203369140625 5 328.013166 1635.02945 2.5308 0.00083012 -1.2544 -0.00041148 1.2763 0.00041865 328.2132834996688 48.519 0.60458 48.781 48.568 49.172 0.2621 91 32 5 0 0 0 0.91345 3 22152 22152;22246;22295 0.45452 0.45452 1 2434600 29443 6957 19010 19068 33052;33053;33054 33052 0.2373321415841474 RWKRRRRRRLP 11 Unmodified _RWKRRRRRRLP_ 0 0 0 ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.7658996582031 4 409.764638 1635.02945 3.1259 0.0012809 0.29986 0.00012287 3.4258 0.0014038 410.26572391303415 48.473 0.24023 48.735 48.633 48.873 0.2621 33 14 4 0 0 0 0.91489 1 22180 22180 0 0 1 1025700 29444 6957 19010 19068 33055 33055 0.2373321415841474 RWKRRRRRRLP 11 Unmodified _RWKRRRRRRLP_ 0 0 0 ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 410.266357421875 4 409.764638 1635.02945 2.8523 0.0011688 0.64931 0.00026606 3.5016 0.0014348 410.2659933084734 50.952 0.28439 51.214 51.021 51.306 0.26146 24 13 3 0 0 0 0.91104 1 23280 23280 1.2148 1.2148 1 545820 29445 6957 19010 19068 33056 33056 0.2373321415841474 RWKRRRRRRLP 11 Unmodified _RWKRRRRRRLP_ 0 0 0 ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.2039794921875 5 328.013166 1635.02945 2.2937 0.00075236 -1.4059 -0.00046115 0.88779 0.00029121 328.2130790723419 47.88 0.38351 48.533 48.321 48.704 0.65356 43 16 4 0 0 0 0.91345 2 21853 21853;21900 0.45452 0.45452 1 919050 29446 6957 19010 19068 33057;33058 33057 0.2373321415841474 RWKRRRRRRLP 11 Unmodified _RWKRRRRRRLP_ 0 0 0 ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.20361328125 5 328.013166 1635.02945 2.3416 0.00076809 -0.64158 -0.00021045 1.7001 0.00055764 328.2132252755842 48.142 0.42464 48.796 48.562 48.987 0.65356 46 15 4 0 0 0 0.91462 2 22012 22012;22063 0.08335 0 1 971110 29447 6957 19010 19068 33059;33060 33059 0.2373321415841474 RWKRRRRRRLP 11 Unmodified _RWKRRRRRRLP_ 0 0 0 ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.2013854980469 5 328.013166 1635.02945 2.1973 0.00072074 -0.014853 -4.872E-06 2.1824 0.00071586 328.21362625736333 50.133 0.78243 50.79 50.373 51.156 0.65735 77 33 4 0 0 0 0.13295 1 23087 23087 0 0 1 1159800 29448 6957 19010 19068 33061 33061 0.2373321415841474 RWKRRRRRRLP 11 Unmodified _RWKRRRRRRLP_ 0 0 0 ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 5 328.013166 1635.02945 2.2541 0.00073938 -0.58275 -0.00019115 1.6714 0.00054823 328.0131242033907 50.426 0.19519 51.249 51.107 51.302 0.82285 0.0036644 -0.00091816 NaN 0 16 8 3 NaN NaN NaN NaN 0 NaN NaN 0 302800 29449 6957 19010 19068 0.2373321415841474 RWKRRRRRRLP 11 Unmodified _RWKRRRRRRLP_ 0 0 0 ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 5 328.013166 1635.02945 2.2628 0.00074223 0.12283 4.0291E-05 2.3856 0.00078252 328.21396603147934 50.926 0.56875 51.188 50.835 51.404 0.26146 -0.058001 0.00023904 NaN 0 69 25 5 NaN NaN NaN NaN 0 NaN NaN 0 1922300 29450 6957 19010 19068 0.2373321415841474 RWKRRRRRRLP 11 Unmodified _RWKRRRRRRLP_ 0 0 0 ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF ENST00000326402.8_2_11:92930946-92931072:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 409.764638 1635.02945 3.0626 0.001255 -0.16255 -6.6607E-05 2.9001 0.0011884 410.2655031106107 48.126 0.2999 48.78 48.619 48.919 0.65356 0.022476 -0.00046531 NaN 0 19 10 3 NaN NaN NaN NaN 0 NaN NaN 0 271790 29451 6957 19010 19068 0.2373321415841474 RWKRRWPWKRG 11 Unmodified _RWKRRWPWKRG_ 0 0 0 REV__nc|ENSG00000136807|P50750-2|CDK9 REV__nc|ENSG00000136807|P50750-2|CDK9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 806.4686279296875 2 806.465827 1610.9171 NaN NaN NaN NaN NaN NaN NaN 32.423 1 33.211 32.711 33.711 0.78795 0 0 0 1.0082 1 14666 14666 0 0 1 + 29452 17953 19011 19069 33062 33062 0.13607940361566762 RWKWMRSRFTR 11 Unmodified _RWKWMRSRFTR_ 0 0 0 REV__ENST00000359013.4_1_3:30648217-30664756:+|nuORF REV__ENST00000359013.4_1_3:30648217-30664756:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 805.4357299804688 2 805.435878 1608.8572 NaN NaN NaN NaN NaN NaN NaN 68.115 1 68.818 68.318 69.318 0.70218 0 0 0 1.0082 1 32460 32460 0 0 1 + 29453 15590 19012 19070 33063 33063 0.07712881636007296 RWLLIRFKREF 11 Unmodified _RWLLIRFKREF_ 0 0 0 ENSG00000121749|ENST00000485960|TBC1D15;nc|ENSG00000121749|Q8TC07-3|TBC1D15;nc|ENSG00000121749|Q8TC07|TBC1D15 ENSG00000121749|ENST00000485960|TBC1D15 ENSG00000121749|ENST00000485960|TBC1D15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.0183715820312 3 521.980539 1562.91979 NaN NaN NaN NaN NaN NaN NaN 74.187 1 74.187 73.687 74.687 0 0 0 0 1.0082 1 36216 36216 0.094841 0 1 29454 2240 19013 19071 33064 33064 0.16084350975825146 RWLLIRFKREF 11 Unmodified _RWLLIRFKREF_ 0 0 0 ENSG00000121749|ENST00000485960|TBC1D15;nc|ENSG00000121749|Q8TC07-3|TBC1D15;nc|ENSG00000121749|Q8TC07|TBC1D15 ENSG00000121749|ENST00000485960|TBC1D15 ENSG00000121749|ENST00000485960|TBC1D15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.6963500976562 3 521.980539 1562.91979 NaN NaN NaN NaN NaN NaN NaN 69.505 1 70.208 69.708 70.708 0.70302 0 0 0 1.0082 1 33267 33267 0 0 1 29455 2240 19013 19071 33065 33065 0.16084350975825146 RWLLLKLLLLL 11 Unmodified _RWLLLKLLLLL_ 0 0 0 ENSG00000115155|ENST00000272371|OTOF;nc|ENSG00000115155|Q9HC10-4|OTOF;nc|ENSG00000115155|Q9HC10-3|OTOF ENSG00000115155|ENST00000272371|OTOF ENSG00000115155|ENST00000272371|OTOF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 697.4865112304688 2 697.486508 1392.95846 NaN NaN NaN NaN NaN NaN NaN 46.507 1 47.336 46.836 47.836 0.82915 0 0 0 1.0082 1 21183 21183 0 0 1 29456 1946 19014 19072 33066 33066 0.2777026355770431 RWLLLSRGPAV 11 Unmodified _RWLLLSRGPAV_ 0 0 0 ENST00000378980.7_1_9:34564791-34581145:-|nuORF ENST00000378980.7_1_9:34564791-34581145:-|nuORF ENST00000378980.7_1_9:34564791-34581145:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.8876953125 2 634.385314 1266.75608 3.9701 0.0025186 3.1585 0.0020037 7.1286 0.0045223 634.3877286963246 46.945 0.21379 47.209 47.066 47.28 0.26363 10 6 2 0 0 0 0.13295 1 21458 21458 2.2828 0.19677 1 244020 29457 7444 19015 19073 33067 33067 0.13336753204976048 RWLLRWLFWRL 11 Unmodified _RWLLRWLFWRL_ 0 0 0 REV__ENST00000264649.10_1_17:40610912-40612943:+|nuORF REV__ENST00000264649.10_1_17:40610912-40612943:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 822.98583984375 2 822.98553 1643.95651 NaN NaN NaN NaN NaN NaN NaN 76.294 1 76.294 75.794 76.794 0 0 0 0 1.0082 1 37387 37387 0 0 1 + 29458 15022 19016 19074 33068 33068 0.1602864759242948 RWLLRWLFWRL 11 Unmodified _RWLLRWLFWRL_ 0 0 0 REV__ENST00000264649.10_1_17:40610912-40612943:+|nuORF REV__ENST00000264649.10_1_17:40610912-40612943:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 822.9862060546875 2 822.98553 1643.95651 NaN NaN NaN NaN NaN NaN NaN 87.249 1 87.249 86.749 87.749 0 0 0 0 1.0082 1 44936 44936 0 0 1 + 29459 15022 19016 19074 33069 33069 0.1602864759242948 RWLPQKNAAQF 11 Unmodified _RWLPQKNAAQF_ 0 0 0 ENSG00000221914|ENST00000380737|PPP2R2A;nc|ENSG00000221914|P63151-2|PPP2R2A;ENST00000520438.1_1_8:26212061-26216435:+|nuORF ENSG00000221914|ENST00000380737|PPP2R2A ENSG00000221914|ENST00000380737|PPP2R2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 453.58367919921875 3 453.582444 1357.7255 2.7861 0.0012637 0.048362 2.1936E-05 2.8344 0.0012856 453.58237263886014 36.781 0.26902 37.574 37.44 37.709 0.79342 17 11 2 0 0 0 0.69508 1 16664 16664 12.856 11.746 1 271680 29460 6151 19017 19075 33070 33070 0.06094974819916388 RWLPQKNAAQF 11 Unmodified _RWLPQKNAAQF_ 0 0 0 ENSG00000221914|ENST00000380737|PPP2R2A;nc|ENSG00000221914|P63151-2|PPP2R2A;ENST00000520438.1_1_8:26212061-26216435:+|nuORF ENSG00000221914|ENST00000380737|PPP2R2A ENSG00000221914|ENST00000380737|PPP2R2A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 453.582444 1357.7255 2.9982 0.0013599 0.55458 0.00025155 3.5528 0.0016115 453.5826174729374 37.23 0.23827 37.86 37.728 37.966 0.62999 0.14255 0.00054534 NaN 12.856 13 10 2 NaN NaN NaN NaN 0 NaN NaN 0 148760 29461 6151 19017 19075 0.06094974819916388 RWLQDRKIFIF 11 Unmodified _RWLQDRKIFIF_ 0 0 0 REV__ENSG00000168615|ENST00000487273|ADAM9 REV__ENSG00000168615|ENST00000487273|ADAM9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 761.4410400390625 2 761.438078 1520.8616 NaN NaN NaN NaN NaN NaN NaN 80.906 1 80.906 80.406 81.406 0 0 0 0 1.0079 1 40258 40258 0.26902 0 1 + 29462 13358 19018 19076 33071 33071 0.12200669330582059 RWLRFWLLFWL 11 Unmodified _RWLRFWLLFWL_ 0 0 0 ENST00000531894.5_1_16:70011782-70023933:-|nuORF ENST00000531894.5_1_16:70011782-70023933:-|nuORF ENST00000531894.5_1_16:70011782-70023933:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 818.4684448242188 2 818.469181 1634.92381 NaN NaN NaN NaN NaN NaN NaN 66.395 1 66.395 65.895 66.895 0 0 0 0 1.0082 1 31730 31730 0 0 1 29463 8729 19019 19077 33072 33072 0.13174440469583715 RWLRPFIPKP 10 Unmodified _RWLRPFIPKP_ 0 0 0 nc|ENSG00000186684|Q4G0S4|CYP27C1;ENSG00000186684|ENST00000664447|CYP27C1;nc|ENSG00000186684|Q4G0S4-1|CYP27C1 nc|ENSG00000186684|Q4G0S4|CYP27C1 nc|ENSG00000186684|Q4G0S4|CYP27C1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2692565917969 3 437.267909 1308.7819 2.9858 0.0013056 0.13911 6.0828E-05 3.1249 0.0013664 437.2678601822451 48.913 1.0703 49.175 48.816 49.886 0.26209 142 40 4 0 0 0 0.93503 1 22605 22605 1.9064 1.9064 1 8824200 29464 5582 19020 19078 33073 33073 0.13985647447248084 RWLRRKLRARR 11 Unmodified _RWLRRKLRARR_ 0 0 0 ENSG00000255690|ENST00000539664|TRIL ENSG00000255690|ENST00000539664|TRIL ENSG00000255690|ENST00000539664|TRIL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.007080078125 3 523.006193 1565.99675 NaN NaN NaN NaN NaN NaN NaN 74.051 1 74.051 73.551 74.551 0 0 0 0 1.0082 1 36138 36138 0.08335 0.08335 1 29465 6286 19021 19079 33074 33074 0.2363900703555828 RWLRRQELLLP 11 Unmodified _RWLRRQELLLP_ 0 0 0 REV__ENST00000494373.1_1_2:54014190-54014463:+|nuORF REV__ENST00000494373.1_1_2:54014190-54014463:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.9705810546875 3 493.96841 1478.8834 3.0289 0.0014962 1.3925 0.00068786 4.4215 0.0021841 493.9686834881802 52.983 0.088341 53.647 53.595 53.683 0.6644 5 3 2 0 0 0 0.91149 1 24237 24237 0.36667 0.28332 1 581650 + 29466 16827 19022 19080 33075 33075 0.16311474079179789 RWLRSRRRRPR 11 Unmodified _RWLRSRRRRPR_ 0 0 0 ENSG00000179598|ENST00000321560|PLD6 ENSG00000179598|ENST00000321560|PLD6 ENSG00000179598|ENST00000321560|PLD6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.24957275390625 4 399.498904 1593.96651 2.4127 0.00096389 0.79153 0.00031622 3.2043 0.0012801 399.4992399625396 50.814 0.5407 51.631 51.297 51.838 0.81738 50 29 3 0 0 0 0.13295 1 23174 23174 0.40827 0 1 1333000 29467 5224 19023 19081 33076 33076 0.1932864837035595 RWLRSRRRRPR 11 Unmodified _RWLRSRRRRPR_ 0 0 0 ENSG00000179598|ENST00000321560|PLD6 ENSG00000179598|ENST00000321560|PLD6 ENSG00000179598|ENST00000321560|PLD6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 399.498904 1593.96651 2.7831 0.0011118 0.76349 0.00030501 3.5466 0.0014169 399.4991525596221 50.726 0.21296 51.385 51.253 51.466 0.65956 -0.12308 -3.3449E-05 NaN 0.40827 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 1817600 29468 5224 19023 19081 0.1932864837035595 RWLSRVLLFFS 11 Unmodified _RWLSRVLLFFS_ 0 0 0 REV__ENSG00000121314|ENST00000240615|TAS2R8 REV__ENSG00000121314|ENST00000240615|TAS2R8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 356.7118835449219 4 356.710674 1422.81359 2.2023 0.00078557 0.070765 2.5243E-05 2.273 0.00081081 356.96142838562884 62.495 0.34014 62.495 62.4 62.74 0 73 47 2 0 0 0 0.89988 1 29299 29299 2.4348 0.8425 1 26820000 + 29469 11554 19024 19082 33077 33077 0.11909595410543261 RWLSRVLLFFS 11 Unmodified _RWLSRVLLFFS_ 0 0 0 REV__ENSG00000121314|ENST00000240615|TAS2R8 REV__ENSG00000121314|ENST00000240615|TAS2R8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.61480712890625 3 475.278473 1422.81359 2.9766 0.0014147 -0.56424 -0.00026817 2.4124 0.0011466 475.2779767908451 62.29 0.5868 62.539 61.976 62.563 0.24965 60 37 2 0 0 0 0.86798 2 28394 28394;28498 3.8459 2.2536 1 26245000 + 29470 11554 19024 19082 33078;33079 33078 0.11909595410543261 RWLSRVLLFFS 11 Unmodified _RWLSRVLLFFS_ 0 0 0 REV__ENSG00000121314|ENST00000240615|TAS2R8 REV__ENSG00000121314|ENST00000240615|TAS2R8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.6145324707031 3 475.278473 1422.81359 2.9023 0.0013794 0.39066 0.00018567 3.293 0.0015651 475.27841991313517 62.078 0.30817 62.738 62.628 62.936 0.66008 65 35 3 0 0 0 0.90781 1 28474 28474 2.084 0.49169 1 4213100 + 29471 11554 19024 19082 33080 33080 0.11909595410543261 RWLSRVLLFFS 11 Unmodified _RWLSRVLLFFS_ 0 0 0 REV__ENSG00000121314|ENST00000240615|TAS2R8 REV__ENSG00000121314|ENST00000240615|TAS2R8 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.6145324707031 3 475.278473 1422.81359 2.9023 0.0013794 0.39066 0.00018567 3.293 0.0015651 475.27841991313517 62.078 0.30817 62.738 62.628 62.936 0.66008 65 35 3 0 0 0 0.13295 1 28474 28474 2.084 0.49169 1 4213100 + 29472 11554 19024 19082 33081 33081 0.11909595410543261 RWLSRVLLFFS 11 Unmodified _RWLSRVLLFFS_ 0 0 0 REV__ENSG00000121314|ENST00000240615|TAS2R8 REV__ENSG00000121314|ENST00000240615|TAS2R8 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 475.278473 1422.81359 2.5215 0.0011984 -1.3875 -0.00065943 1.134 0.00053899 475.2771553145318 61.4 0.12454 62.14 62.063 62.188 0.7396 -0.1892 -0.001608 NaN 3.8459 24 16 2 NaN NaN NaN NaN 0 NaN NaN 0 4395400 + 29473 11554 19024 19082 0.11909595410543261 RWLSRVLLFFS 11 Unmodified _RWLSRVLLFFS_ 0 0 0 REV__ENSG00000121314|ENST00000240615|TAS2R8 REV__ENSG00000121314|ENST00000240615|TAS2R8 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 475.278473 1422.81359 2.9589 0.0014063 -0.031467 -1.4955E-05 2.9274 0.0013913 475.6128185910362 61.648 0.57549 62.308 61.8 62.376 0.66008 -0.021058 0.0003254 NaN 3.8459 73 42 2 NaN NaN NaN NaN 0 NaN NaN 0 21955000 + 29474 11554 19024 19082 0.11909595410543261 RWLWWQPWWWK 11 Unmodified _RWLWWQPWWWK_ 0 0 0 chr12:54282820-54283827|539|21.2|0.0|21.02|+|1|HNRNPA1,HNRNPA1|1 chr12:54282820-54283827|539|21.2|0.0|21.02|+|1|HNRNPA1,HNRNPA1|1 chr12:54282820-54283827|539|21.2|0.0|21.02|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 879.4430541992188 2 879.446237 1756.87792 NaN NaN NaN NaN NaN NaN NaN 81.508 1 81.592 81.092 82.092 0.084106 0 0 0 1.0082 1 40076 40076 0 0 1 29475 140 19025 19083 33082 33082 0.029757952873296745 RWLWWQPWWWK 11 Unmodified _RWLWWQPWWWK_ 0 0 0 chr12:54282820-54283827|539|21.2|0.0|21.02|+|1|HNRNPA1,HNRNPA1|1 chr12:54282820-54283827|539|21.2|0.0|21.02|+|1|HNRNPA1,HNRNPA1|1 chr12:54282820-54283827|539|21.2|0.0|21.02|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 879.4448852539062 2 879.446237 1756.87792 NaN NaN NaN NaN NaN NaN NaN 47.399 1 48.053 47.553 48.553 0.65356 0 0 0 1.0082 1 21703 21703 0 0 1 29476 140 19025 19083 33083 33083 0.029757952873296745 RWMKKRFLYLH 11 Unmodified _RWMKKRFLYLH_ 0 0 0 ENST00000260604.8_1_2:55870335-55906871:-|nuORF ENST00000260604.8_1_2:55870335-55906871:-|nuORF ENST00000260604.8_1_2:55870335-55906871:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 789.4479370117188 2 789.447923 1576.88129 NaN NaN NaN NaN NaN NaN NaN 79.74 1 80.4 79.9 80.9 0.66082 0 0 0 1.0082 1 36742 36742 0 0 1 29477 6545 19026 19084 33084 33084 0.1159272206971309 RWMRKLVQQKR 11 Unmodified _RWMRKLVQQKR_ 0 0 0 REV__L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|111|2|sense REV__L1PA4_dup9053|chr11:71723728-71729843:+|1.0580169052279165|0.2217380373234672|2.25|534.0|111|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 764.9559936523438 2 764.953904 1527.89325 NaN NaN NaN NaN NaN NaN NaN 69.015 1 69.015 68.515 69.515 0 0 0 0 1.008 1 33275 33275 0.30703 0 1 + 29478 17788 19027 19085 33085 33085 0.15042338812872913 RWMSQHNRF 9 Unmodified _RWMSQHNRF_ 0 0 0 nc|ENSG00000168092|P68402-3|PAFAH1B2;nc|ENSG00000168092|P68402-2|PAFAH1B2;ENST00000533206.1_1_11:117023163-117034692:+|nuORF;nc|ENSG00000168092|P68402-4|PAFAH1B2;ENSG00000168092|ENST00000527958|PAFAH1B2 nc|ENSG00000168092|P68402-3|PAFAH1B2 nc|ENSG00000168092|P68402-3|PAFAH1B2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.2068176269531 3 421.205091 1260.59344 2.8733 0.0012103 0.64093 0.00026996 3.5142 0.0014802 421.20520827525627 18.207 0.1368 18.207 18.14 18.276 0 10 7 2 0 0 0 1.0246 1 8112 8112 2.086 1.6777 1 143310 29479 4605 19028 19086 33086 33086 -0.02642953468671294 RWPILVFEIG 10 Unmodified _RWPILVFEIG_ 0 0 0 REV__ENSG00000064989|ENST00000392370|CALCRL REV__ENSG00000064989|ENST00000392370|CALCRL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 615.358154296875 2 615.355691 1228.69683 NaN NaN NaN NaN NaN NaN NaN 9.9046 1 10.2 9.7002 10.7 0.2956 0 0 0 1.0003 1 4394 4394 1.4819 0 1 + 29480 10421 19029 19087 33087 33087 0.09162857190813156 RWPKKSAEF 9 Unmodified _RWPKKSAEF_ 0 0 0 ENST00000582935.1_1_18:47016781-47017264:-|nuORF;nc|ENSG00000265681|P18621-2|RPL17;ENST00000414070.1_1_1:109535017-109535455:+|nuORF;ENSG00000265681|ENST00000580261|RPL17;nc|ENSG00000265681|P18621-3|RPL17 ENST00000582935.1_1_18:47016781-47017264:-|nuORF ENST00000582935.1_1_18:47016781-47017264:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 383.54644775390625 3 383.545219 1147.61383 2.7858 0.0010685 0.14356 5.5064E-05 2.9294 0.0011235 383.545257430751 17.905 1.2196 17.905 17.447 18.667 0 261 80 4 0 0 0 0.01463 5 7916 7828;7875;7916;8082;8133 75.571 57.424 1 3978900 29481 6319 19030 19088 33088;33089;33090;33091;33092 33090 0.04592540462795114 RWPKKSAEF 9 Unmodified _RWPKKSAEF_ 0 0 0 ENST00000582935.1_1_18:47016781-47017264:-|nuORF;nc|ENSG00000265681|P18621-2|RPL17;ENST00000414070.1_1_1:109535017-109535455:+|nuORF;ENSG00000265681|ENST00000580261|RPL17;nc|ENSG00000265681|P18621-3|RPL17 ENST00000582935.1_1_18:47016781-47017264:-|nuORF ENST00000582935.1_1_18:47016781-47017264:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.8156127929688 2 574.81419 1147.61383 3.6631 0.0021056 0.065941 3.7904E-05 3.7291 0.0021435 574.8137323012681 17.903 0.53445 17.903 17.579 18.114 0 59 40 2 0 0 0 0.70688 2 7918 7879;7918 8.7454 3.0136 1 397980 29482 6319 19030 19088 33093;33094 33094 0.04592540462795114 RWPKKSAEF 9 Unmodified _RWPKKSAEF_ 0 0 0 ENST00000582935.1_1_18:47016781-47017264:-|nuORF;nc|ENSG00000265681|P18621-2|RPL17;ENST00000414070.1_1_1:109535017-109535455:+|nuORF;ENSG00000265681|ENST00000580261|RPL17;nc|ENSG00000265681|P18621-3|RPL17 ENST00000582935.1_1_18:47016781-47017264:-|nuORF ENST00000582935.1_1_18:47016781-47017264:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 383.54632568359375 3 383.545219 1147.61383 2.3299 0.00089363 -0.018886 -7.2436E-06 2.311 0.00088639 383.54517512826 17.649 0.96784 17.85 17.125 18.093 0.20057 239 103 3 0 0 0 0.01463 7 7885 7663;7710;7754;7797;7841;7885;7931 75.571 57.424 1 3862300 29483 6319 19030 19088 33095;33096;33097;33098;33099;33100;33101 33100 0.04592540462795114 RWPKKSAEF 9 Unmodified _RWPKKSAEF_ 0 0 0 ENST00000582935.1_1_18:47016781-47017264:-|nuORF;nc|ENSG00000265681|P18621-2|RPL17;ENST00000414070.1_1_1:109535017-109535455:+|nuORF;ENSG00000265681|ENST00000580261|RPL17;nc|ENSG00000265681|P18621-3|RPL17 ENST00000582935.1_1_18:47016781-47017264:-|nuORF ENST00000582935.1_1_18:47016781-47017264:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 574.81419 1147.61383 3.3396 0.0019196 -0.75819 -0.00043582 2.5814 0.0014838 575.3145886500322 17.355 0.14973 17.555 17.493 17.643 0.20057 -0.17398 -0.00076401 NaN 8.7454 18 13 2 NaN NaN NaN NaN 0 NaN NaN 0 201660 29484 6319 19030 19088 0.04592540462795114 RWPKKSAEF 9 Unmodified _RWPKKSAEF_ 0 0 0 ENST00000582935.1_1_18:47016781-47017264:-|nuORF;nc|ENSG00000265681|P18621-2|RPL17;ENST00000414070.1_1_1:109535017-109535455:+|nuORF;ENSG00000265681|ENST00000580261|RPL17;nc|ENSG00000265681|P18621-3|RPL17 ENST00000582935.1_1_18:47016781-47017264:-|nuORF ENST00000582935.1_1_18:47016781-47017264:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 383.545219 1147.61383 2.6329 0.0010098 0.3289 0.00012615 2.9618 0.001136 383.5452933110667 17.375 1.0374 17.676 16.901 17.938 0.30158 -0.10925 0.00015362 NaN 75.571 135 86 2 NaN NaN NaN NaN 0 NaN NaN 0 262880 29485 6319 19030 19088 0.04592540462795114 RWPKKSAEF 9 Unmodified _RWPKKSAEF_ 0 0 0 ENST00000582935.1_1_18:47016781-47017264:-|nuORF;nc|ENSG00000265681|P18621-2|RPL17;ENST00000414070.1_1_1:109535017-109535455:+|nuORF;ENSG00000265681|ENST00000580261|RPL17;nc|ENSG00000265681|P18621-3|RPL17 ENST00000582935.1_1_18:47016781-47017264:-|nuORF ENST00000582935.1_1_18:47016781-47017264:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 383.545219 1147.61383 2.7869 0.0010689 0.40587 0.00015567 3.1927 0.0012246 383.54538403188457 17.05 1.0687 17.711 16.809 17.878 0.66072 -0.074842 0.00024218 NaN 75.571 144 103 2 NaN NaN NaN NaN 0 NaN NaN 0 194200 29486 6319 19030 19088 0.04592540462795114 RWPKKSAEFLL 11 Unmodified _RWPKKSAEFLL_ 0 0 0 ENST00000582935.1_1_18:47016781-47017264:-|nuORF;nc|ENSG00000265681|P18621-2|RPL17;ENST00000414070.1_1_1:109535017-109535455:+|nuORF;ENSG00000265681|ENST00000580261|RPL17;nc|ENSG00000265681|P18621-3|RPL17 ENST00000582935.1_1_18:47016781-47017264:-|nuORF ENST00000582935.1_1_18:47016781-47017264:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 458.9359130859375 3 458.934595 1373.78196 2.7086 0.0012431 0.41018 0.00018824 3.1188 0.0014313 458.9347439707942 44.988 1.2309 44.988 44.593 45.824 0 191 65 4 0 0 0 0.00017095 7 20548 20441;20496;20548;20600;20656;20704;20756 68.484 48.497 1 5253400 29487 6319 19031 19089 33102;33103;33104;33105;33106;33107;33108 33104 0.11001602656597242 RWPKKSAEFLL 11 Unmodified _RWPKKSAEFLL_ 0 0 0 ENST00000582935.1_1_18:47016781-47017264:-|nuORF;nc|ENSG00000265681|P18621-2|RPL17;ENST00000414070.1_1_1:109535017-109535455:+|nuORF;ENSG00000265681|ENST00000580261|RPL17;nc|ENSG00000265681|P18621-3|RPL17 ENST00000582935.1_1_18:47016781-47017264:-|nuORF ENST00000582935.1_1_18:47016781-47017264:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 458.93585205078125 3 458.934595 1373.78196 2.6556 0.0012187 0.28089 0.00012891 2.9365 0.0013476 458.934663432 43.893 1.2445 44.714 44.08 45.324 0.82074 246 73 5 0 0 0 0.0033297 8 19811 19757;19811;19861;19907;19955;20006;20048;20123 53.798 37.524 1 4736300 29488 6319 19031 19089 33109;33110;33111;33112;33113;33114;33115;33116 33110 0.11001602656597242 RWPKKSAEFLL 11 Unmodified _RWPKKSAEFLL_ 0 0 0 ENST00000582935.1_1_18:47016781-47017264:-|nuORF;nc|ENSG00000265681|P18621-2|RPL17;ENST00000414070.1_1_1:109535017-109535455:+|nuORF;ENSG00000265681|ENST00000580261|RPL17;nc|ENSG00000265681|P18621-3|RPL17 ENST00000582935.1_1_18:47016781-47017264:-|nuORF ENST00000582935.1_1_18:47016781-47017264:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 687.902099609375 2 687.898254 1373.78196 NaN NaN NaN NaN NaN NaN NaN 43.67 1 44.485 43.985 44.985 0.81444 0 0 0 0.93511 1 19879 19879 12.873 5.2637 1 29489 6319 19031 19089 33117 33117 0.11001602656597242 RWPKKSAEFLL 11 Unmodified _RWPKKSAEFLL_ 0 0 0 ENST00000582935.1_1_18:47016781-47017264:-|nuORF;nc|ENSG00000265681|P18621-2|RPL17;ENST00000414070.1_1_1:109535017-109535455:+|nuORF;ENSG00000265681|ENST00000580261|RPL17;nc|ENSG00000265681|P18621-3|RPL17 ENST00000582935.1_1_18:47016781-47017264:-|nuORF ENST00000582935.1_1_18:47016781-47017264:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 459.2705993652344 3 458.934595 1373.78196 2.5964 0.0011916 0.73196 0.00033592 3.3283 0.0015275 458.93474588188246 44.848 1.2443 45.116 44.559 45.803 0.26768 139 54 3 0 0 0 0.08145 2 20572 20572;20659 31.462 17.66 1 1654800 29490 6319 19031 19089 33118;33119 33118 0.11001602656597242 RWPKKSAEFLL 11 Unmodified _RWPKKSAEFLL_ 0 0 0 ENST00000582935.1_1_18:47016781-47017264:-|nuORF;nc|ENSG00000265681|P18621-2|RPL17;ENST00000414070.1_1_1:109535017-109535455:+|nuORF;ENSG00000265681|ENST00000580261|RPL17;nc|ENSG00000265681|P18621-3|RPL17 ENST00000582935.1_1_18:47016781-47017264:-|nuORF ENST00000582935.1_1_18:47016781-47017264:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 458.9363708496094 3 458.934595 1373.78196 3.0649 0.0014066 0.46311 0.00021254 3.528 0.0016191 459.26922260172466 44.145 0.92584 44.795 44.505 45.431 0.64998 105 41 3 0 0 0 0.079902 1 20186 20186 32.518 16.98 1 2227500 29491 6319 19031 19089 33120 33120 0.11001602656597242 RWPKLKDL 8 Unmodified _RWPKLKDL_ 0 0 0 REV__ENST00000398499.5_1_21:43414155-43422480:-|nuORF REV__ENST00000398499.5_1_21:43414155-43422480:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.55029296875 3 352.550193 1054.62875 NaN NaN NaN NaN NaN NaN NaN 20.491 1 21.145 20.645 21.645 0.65346 0 0 0 0.99035 1 9305 9305 3.9444 0 1 + 29492 16024 19032 19090 33121 33121 0.10362032330772308 RWPLRLVLLWV 11 Unmodified _RWPLRLVLLWV_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.8434143066406 4 363.481592 1449.89726 2.7021 0.00098216 0.40242 0.00014627 3.1045 0.0011284 363.4817918351547 43.429 0.22958 44.078 43.891 44.121 0.64872 16 7 3 0 0 0 0.13295 1 19825 19825 0.094841 0 1 619800 + 29493 12705 19033 19091 33122 33122 0.19030751578247873 RWPMRYDQWWE 11 Unmodified _RWPMRYDQWWE_ 0 0 0 ENSG00000126107|ENST00000372172|HECTD3;nc|ENSG00000126107|Q5T447-2|HECTD3 ENSG00000126107|ENST00000372172|HECTD3 ENSG00000126107|ENST00000372172|HECTD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 826.8742065429688 2 826.874985 1651.73542 NaN NaN NaN NaN NaN NaN NaN 55.934 1 56.602 56.102 57.102 0.66798 0 0 0 1.0082 1 25589 25589 0 0 1 29494 2444 19034 19092 33123 33123 -0.06438205237009242 RWPPGPRPLP 10 Unmodified _RWPPGPRPLP_ 0 0 0 ENSG00000073067|ENST00000308919|CYP2W1 ENSG00000073067|ENST00000308919|CYP2W1 ENSG00000073067|ENST00000308919|CYP2W1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.837158203125 2 586.838 1171.66145 NaN NaN NaN NaN NaN NaN NaN 103.51 1 103.51 103.01 104.01 0 0 0 0 1.0001 1 57041 57041 1.6526 0 1 29495 801 19035 19093 33124 33124 0.08248239453655515 RWPWDRYSRWN 11 Unmodified _RWPWDRYSRWN_ 0 0 0 REV__ENST00000253329.2_1_6:149862180-149862721:-|nuORF REV__ENST00000253329.2_1_6:149862180-149862721:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.3938598632812 2 811.39219 1620.76983 NaN NaN NaN NaN NaN NaN NaN 91.842 1 91.842 91.342 92.342 0 0 0 0 1.0082 1 48636 48636 0 0 1 + 29496 14918 19036 19094 33125 33125 -0.01572621033892574 RWPWDRYSRWN 11 Unmodified _RWPWDRYSRWN_ 0 0 0 REV__ENST00000253329.2_1_6:149862180-149862721:-|nuORF REV__ENST00000253329.2_1_6:149862180-149862721:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.39501953125 2 811.39219 1620.76983 NaN NaN NaN NaN NaN NaN NaN 93.611 1 93.611 93.111 94.111 0 0 0 0 1.0082 1 50012 50012 0 0 1 + 29497 14918 19036 19094 33126 33126 -0.01572621033892574 RWPWDRYSRWN 11 Unmodified _RWPWDRYSRWN_ 0 0 0 REV__ENST00000253329.2_1_6:149862180-149862721:-|nuORF REV__ENST00000253329.2_1_6:149862180-149862721:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.395263671875 2 811.39219 1620.76983 NaN NaN NaN NaN NaN NaN NaN 88.102 1 88.154 87.654 88.654 0.052155 0 0 0 1.0082 1 44797 44797 0 0 1 + 29498 14918 19036 19094 33127 33127 -0.01572621033892574 RWPWDRYSRWN 11 Unmodified _RWPWDRYSRWN_ 0 0 0 REV__ENST00000253329.2_1_6:149862180-149862721:-|nuORF REV__ENST00000253329.2_1_6:149862180-149862721:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.390380859375 2 811.39219 1620.76983 NaN NaN NaN NaN NaN NaN NaN 91.28 1 91.355 90.855 91.855 0.075279 0 0 0 1.0082 1 47263 47263 0 0 1 + 29499 14918 19036 19094 33128 33128 -0.01572621033892574 RWPWRWCWRRW 11 Unmodified _RWPWRWCWRRW_ 0 0 0 REV__nc|ENSG00000127252|Q9HDD0-2|PLAAT1 REV__nc|ENSG00000127252|Q9HDD0-2|PLAAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 887.3811645507812 2 887.444037 1772.87352 NaN NaN NaN NaN NaN NaN NaN 108.56 1 108.6 108.1 109.1 0.04248 0 0 0 1.008 1 58612 58612 0.30703 0.30703 1 + 29500 17925 19037 19095 33129 33129 0.018000075927602666 RWQQRQEWRER 11 Unmodified _RWQQRQEWRER_ 0 0 0 REV__ENSG00000136378|ENST00000388820|ADAMTS7 REV__ENSG00000136378|ENST00000388820|ADAMTS7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 830.2466430664062 2 829.424553 1656.83455 3.3956 0.0028164 1.6542 0.001372 5.0498 0.0041884 829.4260513218297 103.25 0.040329 103.25 103.22 103.26 0 6 2 3 0 0 0 0.91489 1 56913 56913 0 0 1 661540 + 29501 12067 19038 19096 33130 33130 0.03240953772115063 RWQQRQEWRER 11 Unmodified _RWQQRQEWRER_ 0 0 0 REV__ENSG00000136378|ENST00000388820|ADAMTS7 REV__ENSG00000136378|ENST00000388820|ADAMTS7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 829.4295043945312 2 829.424553 1656.83455 4.1607 0.003451 0.40583 0.0003366 4.5665 0.0037876 829.4267048463007 103.17 0.056442 103.77 103.75 103.8 0.59821 21 5 6 0 0 0 0.91489 1 47739 47739 0 0 1 1415000 + 29502 12067 19038 19096 33131 33131 0.03240953772115063 RWQQRQEWRER 11 Unmodified _RWQQRQEWRER_ 0 0 0 REV__ENSG00000136378|ENST00000388820|ADAMTS7 REV__ENSG00000136378|ENST00000388820|ADAMTS7 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 829.424553 1656.83455 3.3956 0.0028164 1.6542 0.001372 5.0498 0.0041884 829.4260513218297 103.25 0.040329 103.25 103.22 103.26 0 -0.27257 -0.00040939 NaN 0 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 661540 + 29503 12067 19038 19096 0.03240953772115063 RWQQRQEWRER 11 Unmodified _RWQQRQEWRER_ 0 0 0 REV__ENSG00000136378|ENST00000388820|ADAMTS7 REV__ENSG00000136378|ENST00000388820|ADAMTS7 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 829.424553 1656.83455 4.7174 0.0039127 2.4913 0.0020663 7.2087 0.005979 829.4265252639834 103.22 0.032814 103.54 103.52 103.55 0.31863 0.021437 0.00097913 NaN 0 8 4 2 NaN NaN NaN NaN 0 NaN NaN 0 947210 + 29504 12067 19038 19096 0.03240953772115063 RWQQRQEWRER 11 Unmodified _RWQQRQEWRER_ 0 0 0 REV__ENSG00000136378|ENST00000388820|ADAMTS7 REV__ENSG00000136378|ENST00000388820|ADAMTS7 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 829.424553 1656.83455 4.1607 0.003451 0.40583 0.0003366 4.5665 0.0037876 829.4267048463007 103.17 0.056442 103.77 103.75 103.8 0.59821 0.25113 -0.0024803 NaN 0 21 5 6 NaN NaN NaN NaN 0 NaN NaN 0 1415000 + 29505 12067 19038 19096 0.03240953772115063 RWQRRPRRRRR 11 Unmodified _RWQRRPRRRRR_ 0 0 0 REV__ENST00000295206.6_1_2:119600812-119604160:-|nuORF REV__ENST00000295206.6_1_2:119600812-119604160:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 840.01025390625 2 840.01233 1678.01011 NaN NaN NaN NaN NaN NaN NaN 73.804 1 74.49 73.99 74.99 0.68662 0 0 0 1.0082 1 35620 35620 0 0 1 + 29506 15141 19039 19097 33132 33132 0.1982225786748586 RWQRRPRRRRR 11 Unmodified _RWQRRPRRRRR_ 0 0 0 REV__ENST00000295206.6_1_2:119600812-119604160:-|nuORF REV__ENST00000295206.6_1_2:119600812-119604160:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 840.0108642578125 2 840.01233 1678.01011 NaN NaN NaN NaN NaN NaN NaN 86.06 1 86.308 85.808 86.808 0.24857 0 0 0 1.0082 1 39610 39610 0 0 1 + 29507 15141 19039 19097 33133 33133 0.1982225786748586 RWQRRRQTVER 11 Unmodified _RWQRRRQTVER_ 0 0 0 ENSG00000167895|ENST00000318430|TMC8 ENSG00000167895|ENST00000318430|TMC8 ENSG00000167895|ENST00000318430|TMC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 785.9400634765625 2 785.942913 1569.87127 NaN NaN NaN NaN NaN NaN NaN 56.659 1 57.327 56.827 57.827 0.66829 0 0 0 1.0073 1 25920 25920 1.1933 0.88631 1 29508 4586 19040 19098 33134 33134 0.10913250388671258 RWQVERRRWQW 11 Unmodified _RWQVERRRWQW_ 0 0 0 ENST00000508390.1_1_3:131245302-131245881:+|nuORF ENST00000508390.1_1_3:131245302-131245881:+|nuORF ENST00000508390.1_1_3:131245302-131245881:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 843.4495849609375 2 843.447831 1684.88111 NaN NaN NaN NaN NaN NaN NaN 109.27 1 109.87 109.37 110.37 0.60264 0 0 0 1.0082 1 50399 50399 0 0 1 29509 8530 19041 19099 33135 33135 0.06606438394055658 RWRAAARQRRA 11 Unmodified _RWRAAARQRRA_ 0 0 0 REV__ENST00000284548.15_1_1:228401330-228402045:+|nuORF REV__ENST00000284548.15_1_1:228401330-228402045:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 699.412109375 2 699.408509 1396.80247 4.6026 0.0032191 -0.15467 -0.00010818 4.4479 0.0031109 699.4082800680894 96.678 0.902 96.956 96.464 97.366 0.27779 122 47 3 0 0 0 0.89309 1 44426 44426 2.7352 0.23671 1 2648900 + 29510 15103 19042 19100 33136 33136 0.11993630879624106 RWRAAARQRRA 11 Unmodified _RWRAAARQRRA_ 0 0 0 REV__ENST00000284548.15_1_1:228401330-228402045:+|nuORF REV__ENST00000284548.15_1_1:228401330-228402045:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 699.408509 1396.80247 4.6026 0.0032191 -0.15467 -0.00010818 4.4479 0.0031109 699.4082800680894 96.678 0.902 96.956 96.464 97.366 0.27779 0.070954 0.00021516 NaN 2.7352 122 47 3 NaN NaN NaN NaN 0 NaN NaN 0 2648900 + 29511 15103 19042 19100 0.11993630879624106 RWRAAARQRRA 11 Unmodified _RWRAAARQRRA_ 0 0 0 REV__ENST00000284548.15_1_1:228401330-228402045:+|nuORF REV__ENST00000284548.15_1_1:228401330-228402045:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 699.408509 1396.80247 4.1613 0.0029104 -0.49844 -0.00034861 3.6628 0.0025618 699.4081716937332 96.206 0.92647 96.814 96.294 97.22 0.60769 -0.070954 -0.00026571 NaN 2.7352 86 49 3 NaN NaN NaN NaN 0 NaN NaN 0 2662200 + 29512 15103 19042 19100 0.11993630879624106 RWRCRRLRAIY 11 Unmodified _RWRCRRLRAIY_ 0 0 0 ENSG00000136286|ENST00000258787|MYO1G;ENST00000483585.5_1_7:45002340-45005995:-|nuORF;ENST00000463516.5_1_7:45003626-45005995:-|nuORF ENSG00000136286|ENST00000258787|MYO1G ENSG00000136286|ENST00000258787|MYO1G MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 774.9442749023438 2 774.94387 1547.87319 NaN NaN NaN NaN NaN NaN NaN 84.783 1 85.449 84.949 85.949 0.66566 0 0 0 1.0082 1 39049 39049 0 0 1 29513 2942 19043 19101 33137 33137 0.1211658787296983 RWRHFLLWRRK 11 Unmodified _RWRHFLLWRRK_ 0 0 0 REV__ENST00000603928.2_2_9:136890984-136891107:+|nuORF REV__ENST00000603928.2_2_9:136890984-136891107:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 827.4908447265625 2 827.489302 1652.96405 NaN NaN NaN NaN NaN NaN NaN 84.178 1 84.178 83.678 84.678 0 0 0 0 1.0082 1 42560 42560 0 0 1 + 29514 17651 19044 19102 33138 33138 0.16368799912697796 RWRHKLSVK 9 Unmodified _RWRHKLSVK_ 0 0 0 ENSG00000203837|ENST00000369230|PNLIPRP3 ENSG00000203837|ENST00000369230|PNLIPRP3 ENSG00000203837|ENST00000369230|PNLIPRP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 605.3694458007812 2 605.369998 1208.72544 NaN NaN NaN NaN NaN NaN NaN 103.44 1 103.5 103 104 0.055092 0 0 0 0.90699 1 56081 56081 1.8442 1.2427 1 29515 5978 19045 19103 33139 33139 0.12943019610588635 RWRKLFWRLK 10 Unmodified _RWRKLFWRLK_ 0 0 0 REV__nc|ENSG00000149639|O94964-4|MTCL2 REV__nc|ENSG00000149639|O94964-4|MTCL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.9757080078125 3 496.973607 1487.89899 1.816 0.00090248 3.0754 0.0015284 4.8913 0.0024309 496.97475012739096 101.29 0.064117 101.35 101.32 101.38 0.059723 5 3 2 0 0 0 0.94364 1 55015 55015 0.15932 0.064481 1 8881100 + 29516 12578 19046 19104 33140 33140 0.17455805386885004 RWRKLFWRLKM 11 Unmodified _RWRKLFWRLKM_ 0 0 0 REV__nc|ENSG00000149639|O94964-4|MTCL2 REV__nc|ENSG00000149639|O94964-4|MTCL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 810.4797973632812 2 810.477015 1618.93948 NaN NaN NaN NaN NaN NaN NaN 85.731 1 86.402 85.902 86.902 0.67061 0 0 0 1.0082 1 39478 39478 0 0 1 + 29517 12578 19047 19105 33141 33141 0.15476403714978915 RWRKLMEYQQD 11 Unmodified _RWRKLMEYQQD_ 0 0 0 REV__ENST00000473343.5_1_1:6521496-6523040:-|nuORF REV__ENST00000473343.5_1_1:6521496-6523040:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 776.9315795898438 2 776.888092 1551.76163 NaN NaN NaN NaN NaN NaN NaN 58.746 1 58.746 58.246 59.246 0 0 0 0 1.0074 1 27125 27125 1.0715 0.72083 1 + 29518 14530 19048 19106 33142 33142 0.007820639345027303 RWRKRWRRWRW 11 Unmodified _RWRKRWRRWRW_ 0 0 0 ENST00000261427.9_1_4:39699814-39699901:+|nuORF ENST00000261427.9_1_4:39699814-39699901:+|nuORF ENST00000261427.9_1_4:39699814-39699901:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 914.525634765625 2 914.521999 1827.02945 NaN NaN NaN NaN NaN NaN NaN 83.896 1 84.558 84.058 85.058 0.66219 0 0 0 1.0082 1 38642 38642 0 0 1 29519 6559 19049 19107 33143 33143 0.14901214158408038 RWRLRPRQRPL 11 Unmodified _RWRLRPRQRPL_ 0 0 0 ENST00000331593.5_1_1:39957407-39957644:+|nuORF ENST00000331593.5_1_1:39957407-39957644:+|nuORF ENST00000331593.5_1_1:39957407-39957644:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.9832458496094 3 511.983165 1532.92767 NaN NaN NaN NaN NaN NaN NaN 26.322 1 26.322 25.822 26.822 0 0 0 0 1.0082 1 11844 11844 0 0 1 29520 6993 19050 19108 33144 33144 0.1825192301600964 RWRMHKKKHKR 11 Unmodified _RWRMHKKKHKR_ 0 0 0 REV__ENSG00000205857|ENST00000382119|NANOGNB REV__ENSG00000205857|ENST00000382119|NANOGNB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.9876708984375 3 530.9844 1589.93137 3.9872 0.0021172 1.7848 0.0009477 5.772 0.0030649 530.9850956968179 99.74 0.23859 100.05 99.881 100.12 0.30835 17 12 2 0 0 0 0.91462 1 46090 46090 0.08335 0.08335 1 1474900 + 29521 14470 19051 19109 33145 33145 0.1600026951819018 RWRMHKKKHKR 11 Unmodified _RWRMHKKKHKR_ 0 0 0 REV__ENSG00000205857|ENST00000382119|NANOGNB REV__ENSG00000205857|ENST00000382119|NANOGNB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.3225708007812 3 530.9844 1589.93137 3.9823 0.0021145 2.2122 0.0011746 6.1945 0.0032892 531.3203261148342 106.28 0.14766 106.6 106.52 106.67 0.31628 9 4 3 0 0 0 0.91489 1 49071 49071 0 0 1 431520 + 29522 14470 19051 19109 33146 33146 0.1600026951819018 RWRMHKKKHKR 11 Unmodified _RWRMHKKKHKR_ 0 0 0 REV__ENSG00000205857|ENST00000382119|NANOGNB REV__ENSG00000205857|ENST00000382119|NANOGNB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.9879150390625 3 530.9844 1589.93137 3.47 0.0018425 2.5346 0.0013459 6.0047 0.0031884 530.9857248911665 99.571 0.25893 100.17 100.08 100.34 0.59748 18 14 2 0 0 0 0.91489 1 46095 46095 0 0 1 1742800 + 29523 14470 19051 19109 33147 33147 0.1600026951819018 RWRMHKKKHKR 11 Unmodified _RWRMHKKKHKR_ 0 0 0 REV__ENSG00000205857|ENST00000382119|NANOGNB REV__ENSG00000205857|ENST00000382119|NANOGNB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.3212280273438 3 530.9844 1589.93137 3.4699 0.0018425 1.6807 0.00089242 5.1506 0.0027349 531.3196947141081 106.26 0.13555 106.86 106.78 106.91 0.60074 10 4 3 0 0 0 0.91489 1 49079 49079 0 0 1 501690 + 29524 14470 19051 19109 33148 33148 0.1600026951819018 RWRMHKKKHKR 11 Unmodified _RWRMHKKKHKR_ 0 0 0 REV__ENSG00000205857|ENST00000382119|NANOGNB REV__ENSG00000205857|ENST00000382119|NANOGNB MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 530.9844 1589.93137 1.824 0.00096849 2.3275 0.0012358 4.1514 0.0022043 530.985603764445 106.35 0.10946 106.4 106.31 106.42 0.04837 -0.21744 0.0005415 NaN 0 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 530920 + 29525 14470 19051 19109 0.1600026951819018 RWRMHKKKHKR 11 Unmodified _RWRMHKKKHKR_ 0 0 0 REV__ENSG00000205857|ENST00000382119|NANOGNB REV__ENSG00000205857|ENST00000382119|NANOGNB MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 530.9844 1589.93137 3.9823 0.0021145 2.2122 0.0011746 6.1945 0.0032892 531.3203261148342 106.28 0.14766 106.6 106.52 106.67 0.31628 -0.023615 0.00035789 NaN 0 9 4 3 NaN NaN NaN NaN 0 NaN NaN 0 431520 + 29526 14470 19051 19109 0.1600026951819018 RWRMHKKKHKR 11 Unmodified _RWRMHKKKHKR_ 0 0 0 REV__ENSG00000205857|ENST00000382119|NANOGNB REV__ENSG00000205857|ENST00000382119|NANOGNB MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 530.9844 1589.93137 3.9872 0.0021172 1.7848 0.0009477 5.772 0.0030649 530.9850956968179 99.74 0.23859 100.05 99.881 100.12 0.30835 -0.060022 -0.0003305 NaN 0.08335 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 1474900 + 29527 14470 19051 19109 0.1600026951819018 RWRMHKKKHKR 11 Unmodified _RWRMHKKKHKR_ 0 0 0 REV__ENSG00000205857|ENST00000382119|NANOGNB REV__ENSG00000205857|ENST00000382119|NANOGNB MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 530.9844 1589.93137 3.4699 0.0018425 1.6807 0.00089242 5.1506 0.0027349 531.3196947141081 106.26 0.13555 106.86 106.78 106.91 0.60074 0.24105 -0.0004888 NaN 0 10 4 3 NaN NaN NaN NaN 0 NaN NaN 0 501690 + 29528 14470 19051 19109 0.1600026951819018 RWRRHHRRQRL 11 Unmodified _RWRRHHRRQRL_ 0 0 0 REV__ENSG00000132716|ENST00000368074|DCAF8 REV__ENSG00000132716|ENST00000368074|DCAF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 828.65380859375 2 828.985781 1655.95701 NaN NaN NaN NaN NaN NaN NaN 82.415 1 82.415 81.915 82.915 0 0 0 0 1.0082 1 41257 41257 0 0 1 + 29529 11909 19052 19110 33149 33149 0.15526880084848926 RWRRRDHRLWS 11 Unmodified _RWRRRDHRLWS_ 0 0 0 REV__ENSG00000174010|ENST00000328046|KLHL15 REV__ENSG00000174010|ENST00000328046|KLHL15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.9662475585938 3 541.966174 1622.87669 NaN NaN NaN NaN NaN NaN NaN 81.299 1 81.547 81.047 82.047 0.24803 0 0 0 1.0082 1 37432 37432 0 0 1 + 29530 13620 19053 19111 33150 33150 0.09016973971165498 RWRRRKKRDRP 11 Unmodified _RWRRRKKRDRP_ 0 0 0 REV__ENST00000556594.1_1_14:91518767-91526894:-|nuORF REV__ENST00000556594.1_1_14:91518767-91526894:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 805.4902954101562 2 805.490365 1608.96618 NaN NaN NaN NaN NaN NaN NaN 89.518 1 89.769 89.269 90.269 0.25137 0 0 0 1.0082 1 41172 41172 0 0 1 + 29531 17327 19054 19112 33151 33151 0.18605228650517347 RWRRRKRTRW 10 Unmodified _RWRRRKRTRW_ 0 0 0 REV__ENST00000433071.2_1_21:32931573-32932426:+|nuORF REV__ENST00000433071.2_1_21:32931573-32932426:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 778.9681396484375 2 778.966526 1555.9185 NaN NaN NaN NaN NaN NaN NaN 65.262 1 65.262 64.762 65.762 0 0 0 0 1.0015 1 31063 31063 0.40072 0.093686 1 + 29532 16277 19055 19113 33152 33152 0.16277574450327847 RWRRRRRRLLL 11 Unmodified _RWRRRRRRLLL_ 0 0 0 ENST00000492275.5_1_21:38445580-38480706:+|nuORF;ENST00000355666.5_1_21:38445580-38459609:+|nuORF ENST00000492275.5_1_21:38445580-38480706:+|nuORF ENST00000492275.5_1_21:38445580-38480706:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 819.033447265625 2 819.0322 1636.04985 NaN NaN NaN NaN NaN NaN NaN 83.91 1 83.91 83.41 84.41 0 0 0 0 1.0082 1 42359 42359 0 0 1 29533 7152 19056 19114 33153 33153 0.25726384818244696 RWRRRRRRLLL 11 Unmodified _RWRRRRRRLLL_ 0 0 0 ENST00000492275.5_1_21:38445580-38480706:+|nuORF;ENST00000355666.5_1_21:38445580-38459609:+|nuORF ENST00000492275.5_1_21:38445580-38480706:+|nuORF ENST00000492275.5_1_21:38445580-38480706:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 819.0850219726562 2 819.0322 1636.04985 NaN NaN NaN NaN NaN NaN NaN 87.725 1 87.725 87.225 88.225 0 0 0 0 1.0082 1 45327 45327 0 0 1 29534 7152 19056 19114 33154 33154 0.25726384818244696 RWRRRRRRRRA 11 Unmodified _RWRRRRRRRRA_ 0 0 0 REV__ENST00000510148.1_1_5:179921418-179921547:+|nuORF REV__ENST00000510148.1_1_5:179921418-179921547:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 841.0250854492188 2 841.025772 1680.03699 NaN NaN NaN NaN NaN NaN NaN 45.262 1 45.913 45.413 46.413 0.65104 0 0 0 1.0082 1 20742 20742 0 0 1 + 29535 16967 19057 19115 33155 33155 0.22417366478680378 RWRRWNRFNRR 11 Unmodified _RWRRWNRFNRR_ 0 0 0 nc|ENSG00000157388|Q01668-4|CACNA1D;nc|ENSG00000157388|Q01668-3|CACNA1D;ENSG00000157388|ENST00000350061|CACNA1D;nc|ENSG00000157388|Q01668-2|CACNA1D nc|ENSG00000157388|Q01668-4|CACNA1D nc|ENSG00000157388|Q01668-4|CACNA1D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 851.9700317382812 2 851.972339 1701.93013 NaN NaN NaN NaN NaN NaN NaN 45.442 1 45.442 44.942 45.942 0 0 0 0 1.008 1 20787 20787 0.30703 0.30703 1 29536 3948 19058 19116 33156 33156 0.10723771473658417 RWRRWRLEVV 10 Unmodified _RWRRWRLEVV_ 0 0 0 ENST00000256858.10_2_18:59854532-59854781:+|nuORF ENST00000256858.10_2_18:59854532-59854781:+|nuORF ENST00000256858.10_2_18:59854532-59854781:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 728.42333984375 2 728.425836 1454.83712 NaN NaN NaN NaN NaN NaN NaN 45.32 1 45.32 44.82 45.82 0 0 0 0 1.0015 1 20730 20730 0.45834 0 1 29537 6525 19059 19117 33157 33157 0.1278945396772997 RWRRWRRRMVD 11 Unmodified _RWRRWRRRMVD_ 0 0 0 REV__UNC80|p.G757Vfs*14|1|0.06|ENSG00000144406|chr2:209820617-209820618|-/TCAT|frameshift_variant REV__UNC80|p.G757Vfs*14|1|0.06|ENSG00000144406|chr2:209820617-209820618|-/TCAT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 836.96337890625 2 836.963126 1671.9117 NaN NaN NaN NaN NaN NaN NaN 63.056 1 63.778 63.278 64.278 0.72236 0 0 0 1.0082 1 29502 29502 0 0 1 + 29538 18243 19060 19118 33158 33158 0.1026189350743607 RWRTNLRRRTL 11 Unmodified _RWRTNLRRRTL_ 0 0 0 REV__ENSG00000196497|ENST00000354464|IPO4 REV__ENSG00000196497|ENST00000354464|IPO4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.97393798828125 3 509.974558 1526.90185 NaN NaN NaN NaN NaN NaN NaN 78.407 1 78.407 77.907 78.907 0 0 0 0 1.006 1 38531 38531 2.8433 0.4085 1 + 29539 14221 19061 19119 33159 33159 0.15947028773734928 RWRWLERW 8 Unmodified _RWRWLERW_ 0 0 0 REV__nc|ENSG00000204536|Q8TD31-3|CCHCR1 REV__nc|ENSG00000204536|Q8TD31-3|CCHCR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 644.347412109375 2 644.346523 1286.67849 NaN NaN NaN NaN NaN NaN NaN 103.14 1 103.74 103.24 104.24 0.59821 0 0 0 0.99035 1 47722 47722 0.79363 0 1 + 29540 14424 19062 19120 33160 33160 0.04662160059456255 RWRWLRNWTHF 11 Unmodified _RWRWLRNWTHF_ 0 0 0 REV__ENST00000382162.7_1_22:31904270-32000328:+|nuORF REV__ENST00000382162.7_1_22:31904270-32000328:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 829.4859008789062 2 829.434193 1656.85383 NaN NaN NaN NaN NaN NaN NaN 98.223 1 98.289 97.789 98.789 0.066025 0 0 0 1.0082 1 52747 52747 0 0 1 + 29541 14319 19063 19121 33161 33161 0.05167954853664014 RWRWPWCARDW 11 Unmodified _RWRWPWCARDW_ 0 0 0 REV__ENST00000589087.5_1_19:2806818-2807876:+|nuORF REV__ENST00000589087.5_1_19:2806818-2807876:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.2655029296875 3 539.926328 1616.75715 3.1638 0.0017082 0.55778 0.00030116 3.7216 0.0020094 540.2614728339015 49.191 0.32962 50.018 49.824 50.153 0.82705 33 16 3 0 0 0 0.91462 1 22385 22385 0.08335 0 1 831460 + 29542 17564 19064 19122 33162 33162 -0.026553556977660264 RWRWPWCARDW 11 Unmodified _RWRWPWCARDW_ 0 0 0 REV__ENST00000589087.5_1_19:2806818-2807876:+|nuORF REV__ENST00000589087.5_1_19:2806818-2807876:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.9275512695312 3 539.926328 1616.75715 3.4041 0.0018379 0.79741 0.00043054 4.2015 0.0022685 540.2610089103352 49.383 0.1931 50.039 49.915 50.109 0.65525 12 6 2 0 0 0 0.91462 1 22579 22579 0.08335 0.08335 1 404950 + 29543 17564 19064 19122 33163 33163 -0.026553556977660264 RWRWQRLRRRL 11 Unmodified _RWRWQRLRRRL_ 0 0 0 REV__ENST00000341285.7_2_4:15656858-15657005:-|nuORF REV__ENST00000341285.7_2_4:15656858-15657005:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 841.51123046875 2 841.508558 1681.00256 NaN NaN NaN NaN NaN NaN NaN 67.025 1 67.729 67.229 68.229 0.7047 0 0 0 1.0082 1 31810 31810 0 0 1 + 29544 15463 19065 19123 33164 33164 0.1893010554722423 RWRWRKRWRLT 11 Unmodified _RWRWRKRWRLT_ 0 0 0 REV__ENST00000507209.5_1_4:187125362-187125452:+|nuORF REV__ENST00000507209.5_1_4:187125362-187125452:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 850.4990844726562 2 850.497659 1698.98076 NaN NaN NaN NaN NaN NaN NaN 104.37 1 104.43 103.93 104.93 0.052994 0 0 0 1.0082 1 56515 56515 0 0 1 + 29545 16937 19066 19124 33165 33165 0.15923300798658602 RWRWRKRWRLT 11 Unmodified _RWRWRKRWRLT_ 0 0 0 REV__ENST00000507209.5_1_4:187125362-187125452:+|nuORF REV__ENST00000507209.5_1_4:187125362-187125452:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 850.4981689453125 2 850.497659 1698.98076 NaN NaN NaN NaN NaN NaN NaN 100.1 1 100.7 100.2 101.2 0.59717 0 0 0 1.0082 1 46323 46323 0 0 1 + 29546 16937 19066 19124 33166 33166 0.15923300798658602 RWRWRRQRQLC 11 Unmodified _RWRWRRQRQLC_ 0 0 0 ENST00000263360.10_1_11:85955988-85956345:+|nuORF ENST00000263360.10_1_11:85955988-85956345:+|nuORF ENST00000263360.10_1_11:85955988-85956345:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.5687866210938 3 548.63566 1642.88515 NaN NaN NaN NaN NaN NaN NaN 94.271 1 94.271 93.771 94.771 0 0 0 0 1.0082 1 50522 50522 0.094841 0.011491 1 29547 6590 19067 19125 33167 33167 0.08942204616118943 RWRYRCWERRF 11 Unmodified _RWRYRCWERRF_ 0 0 0 ENST00000328599.4_1_8:125463328-125463391:+|nuORF ENST00000328599.4_1_8:125463328-125463391:+|nuORF ENST00000328599.4_1_8:125463328-125463391:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 857.435546875 2 857.436409 1712.85827 NaN NaN NaN NaN NaN NaN NaN 92.373 1 92.373 91.873 92.873 0 0 0 0 1.0082 1 49067 49067 0 0 1 29548 6972 19068 19126 33168 33168 0.030350960048963316 RWRYRCWERRF 11 Unmodified _RWRYRCWERRF_ 0 0 0 ENST00000328599.4_1_8:125463328-125463391:+|nuORF ENST00000328599.4_1_8:125463328-125463391:+|nuORF ENST00000328599.4_1_8:125463328-125463391:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 857.4330444335938 2 857.436409 1712.85827 NaN NaN NaN NaN NaN NaN NaN 67.677 1 68.38 67.88 68.88 0.70218 0 0 0 1.0082 1 32205 32205 0 0 1 29549 6972 19068 19126 33169 33169 0.030350960048963316 RWSKRARPQQD 11 Unmodified _RWSKRARPQQD_ 0 0 0 ENSG00000146216|ENST00000259750|TTBK1 ENSG00000146216|ENST00000259750|TTBK1 ENSG00000146216|ENST00000259750|TTBK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 714.3864135742188 2 714.384365 1426.75418 NaN NaN NaN NaN NaN NaN NaN 93.849 1 94.48 93.98 94.98 0.63115 0 0 0 1.0075 1 43167 43167 0.96228 0.56156 1 29550 3506 19069 19127 33170 33170 0.05787092449077136 RWTRWCRRRTR 11 Unmodified _RWTRWCRRRTR_ 0 0 0 ENST00000521604.6_1_8:54923030-54934756:-|nuORF ENST00000521604.6_1_8:54923030-54934756:-|nuORF ENST00000521604.6_1_8:54923030-54934756:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.9652099609375 3 544.967409 1631.8804 NaN NaN NaN NaN NaN NaN NaN 102.36 1 102.42 101.92 102.92 0.057198 0 0 0 1.0082 1 55574 55574 0 0 1 29551 8642 19070 19128 33171 33171 0.0897332047331929 RWTSWLRRMW 10 Unmodified _RWTSWLRRMW_ 0 0 0 ENST00000494566.5_1_11:64110692-64111255:+|nuORF ENST00000494566.5_1_11:64110692-64111255:+|nuORF ENST00000494566.5_1_11:64110692-64111255:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.2629699707031 3 493.259307 1476.75609 4.0305 0.0019881 1.5057 0.00074269 5.5362 0.0027308 493.2601391340495 105.92 0.12788 106.24 106.17 106.3 0.31719 14 4 4 0 0 0 0.94364 1 48891 48891 0.15932 0.064481 1 883410 29552 8423 19071 19129 33172 33172 0.03678429933324878 RWTSWLRRMW 10 Unmodified _RWTSWLRRMW_ 0 0 0 ENST00000494566.5_1_11:64110692-64111255:+|nuORF ENST00000494566.5_1_11:64110692-64111255:+|nuORF ENST00000494566.5_1_11:64110692-64111255:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 493.259307 1476.75609 2.7281 0.0013457 2.164 0.0010674 4.8921 0.0024131 493.5949242139197 105.93 0.11353 105.93 105.85 105.97 0 -0.15621 0.00057725 NaN 0.15932 8 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1021700 29553 8423 19071 19129 0.03678429933324878 RWVRPWALL 9 Unmodified _RWVRPWALL_ 0 0 0 REV__DHX58|p.V436Afs*25|1|0.11|ENSG00000108771|chr17:42105112-42105113|-/GG|frameshift_variant REV__DHX58|p.V436Afs*25|1|0.11|ENSG00000108771|chr17:42105112-42105113|-/GG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 598.85693359375 2 598.856193 1195.69783 NaN NaN NaN NaN NaN NaN NaN 10.061 1 10.061 9.561 10.561 0 0 0 0 0.91206 1 4505 4505 0.6015 0 1 + 29554 10130 19072 19130 33173 33173 0.10781116350358388 RWVRRKYN 8 Unmodified _RWVRRKYN_ 0 0 0 nc|ENSG00000196557|O95180-2|CACNA1H;ENSG00000196557|ENST00000348261|CACNA1H nc|ENSG00000196557|O95180-2|CACNA1H nc|ENSG00000196557|O95180-2|CACNA1H MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.23193359375 3 393.228224 1176.66284 NaN NaN NaN NaN NaN NaN NaN 103.9 1 103.9 103.4 104.4 0 0 0 0 0.99035 1 57221 57221 1.6526 0.58116 1 29555 9799 19073 19131 33174 33174 0.08157873542427296 RWWHRRYEDVE 11 Unmodified _RWWHRRYEDVE_ 0 0 0 REV__nc|ENSG00000010072|Q9H040-3|SPRTN REV__nc|ENSG00000010072|Q9H040-3|SPRTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 816.3963012695312 2 816.39493 1630.77531 NaN NaN NaN NaN NaN NaN NaN 90.492 1 90.492 89.992 90.992 0 0 0 0 1.0082 1 47577 47577 0 0 1 + 29556 10221 19074 19132 33175 33175 -0.014849422420411429 RWWQLRHRLWF 11 Unmodified _RWWQLRHRLWF_ 0 0 0 REV__ENSG00000256525|ENST00000539111|POLG2 REV__ENSG00000256525|ENST00000539111|POLG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.6112060546875 3 561.975899 1682.90587 NaN NaN NaN NaN NaN NaN NaN 53.826 1 54.624 54.124 55.124 0.79822 0 0 0 1.0082 1 24562 24562 0 0 1 + 29557 14678 19075 19133 33176 33176 0.09173118267426617 RWWQWNRLKLY 11 Unmodified _RWWQWNRLKLY_ 0 0 0 REV__nc|ENSG00000100345|P35579-2|MYH9 REV__nc|ENSG00000100345|P35579-2|MYH9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 824.9473876953125 2 824.946602 1647.87865 NaN NaN NaN NaN NaN NaN NaN 88.511 1 88.563 88.063 89.063 0.052155 0 0 0 1.0082 1 45103 45103 0 0 1 + 29558 10822 19076 19134 33177 33177 0.08062589936412223 RWWQWNRLKLY 11 Unmodified _RWWQWNRLKLY_ 0 0 0 REV__nc|ENSG00000100345|P35579-2|MYH9 REV__nc|ENSG00000100345|P35579-2|MYH9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 824.9486694335938 2 824.946602 1647.87865 NaN NaN NaN NaN NaN NaN NaN 102.57 1 103.17 102.67 103.67 0.59759 0 0 0 1.0082 1 47473 47473 0 0 1 + 29559 10822 19076 19134 33178 33178 0.08062589936412223 RWWRRRRRRGE 11 Unmodified _RWWRRRRRRGE_ 0 0 0 REV__ENST00000463413.1_3_7:129710461-129710557:+|nuORF REV__ENST00000463413.1_3_7:129710461-129710557:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 835.4760131835938 2 835.477789 1668.94102 NaN NaN NaN NaN NaN NaN NaN 86.072 1 86.072 85.572 86.572 0 0 0 0 1.0082 1 44015 44015 0 0 1 + 29560 16509 19077 19135 33179 33179 0.13331173847950595 RWWRRRWNPRL 11 Unmodified _RWWRRRWNPRL_ 0 0 0 ENST00000463462.5_1_7:148982563-148988696:+|nuORF;ENST00000426347.5_1_7:148982610-148985528:+|nuORF;ENST00000481817.5_1_7:148984700-148990670:+|nuORF ENST00000463462.5_1_7:148982563-148988696:+|nuORF ENST00000463462.5_1_7:148982563-148988696:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 841.4758911132812 2 841.474183 1680.93381 NaN NaN NaN NaN NaN NaN NaN 89.237 1 89.301 88.801 89.801 0.064346 0 0 0 1.008 1 45681 45681 0.26902 0.26902 1 29561 8104 19078 19136 33180 33180 0.12058441247540941 RWWRRRWNPRL 11 Unmodified _RWWRRRWNPRL_ 0 0 0 ENST00000463462.5_1_7:148982563-148988696:+|nuORF;ENST00000426347.5_1_7:148982610-148985528:+|nuORF;ENST00000481817.5_1_7:148984700-148990670:+|nuORF ENST00000463462.5_1_7:148982563-148988696:+|nuORF ENST00000463462.5_1_7:148982563-148988696:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 841.4771118164062 2 841.474183 1680.93381 NaN NaN NaN NaN NaN NaN NaN 34.284 1 34.907 34.407 35.407 0.62294 0 0 0 1.0082 1 15707 15707 0 0 1 29562 8104 19078 19136 33181 33181 0.12058441247540941 RWWRWTFPRPR 11 Unmodified _RWWRWTFPRPR_ 0 0 0 chr5:1062509-1063844|226|12.73|0.57|4.48|-|1|None,SLC12A7|1 chr5:1062509-1063844|226|12.73|0.57|4.48|-|1|None,SLC12A7|1 chr5:1062509-1063844|226|12.73|0.57|4.48|-|1|None,SLC12A7|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 822.4449462890625 2 822.44456 1642.87457 NaN NaN NaN NaN NaN NaN NaN 101.93 1 102.52 102.02 103.02 0.59759 0 0 0 1.0082 1 47189 47189 0 0 1 29563 175 19079 19137 33182 33182 0.07884545233332574 RWWWRRRRRHR 11 Unmodified _RWWWRRRRRHR_ 0 0 0 ENST00000475204.5_1_1:70687068-70687435:+|nuORF;ENST00000370951.5_1_1:70671397-70687435:+|nuORF;ENST00000463877.1_1_1:70671397-70687435:+|nuORF;ENST00000395136.6_2_1:70687096-70687432:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 904.0131225585938 2 904.014873 1806.01519 NaN NaN NaN NaN NaN NaN NaN 94.8 1 94.882 94.382 95.382 0.082001 0 0 0 1.0082 1 49965 49965 0 0 1 29564 7310 19080 19138 33183 33183 0.14442561730106718 RWWWRRWRARR 11 Unmodified _RWWWRRWRARR_ 0 0 0 REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 885.9960327148438 2 885.993075 1769.9716 NaN NaN NaN NaN NaN NaN NaN 95.202 1 95.284 94.784 95.784 0.082001 0 0 0 1.0082 1 50275 50275 0 0 1 + 29565 15733 19081 19139 33184 33184 0.11740952232980817 RWWYLKITFYL 11 Unmodified _RWWYLKITFYL_ 0 0 0 REV__ENSG00000145428|ENST00000347063|RNF175 REV__ENSG00000145428|ENST00000347063|RNF175 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 794.9373779296875 2 794.937379 1587.86021 NaN NaN NaN NaN NaN NaN NaN 40.923 1 40.923 40.423 41.423 0 0 0 0 1.0082 1 18584 18584 0 0 1 + 29566 12440 19082 19140 33185 33185 0.0897903524182766 RWYRDWKSRKT 11 Unmodified _RWYRDWKSRKT_ 0 0 0 REV__ENST00000397278.7_1_22:36650991-36653415:+|nuORF REV__ENST00000397278.7_1_22:36650991-36653415:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 791.4234008789062 2 791.423491 1580.83243 NaN NaN NaN NaN NaN NaN NaN 76.309 1 76.972 76.472 77.472 0.66387 0 0 0 1.0082 1 35153 35153 0 0 1 + 29567 16015 19083 19141 33186 33186 0.0652452503427412 RWYRHQWRRRW 11 Unmodified _RWYRHQWRRRW_ 0 0 0 REV__ENST00000570069.5_1_16:1826945-1827407:+|nuORF REV__ENST00000570069.5_1_16:1826945-1827407:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 595.9848022460938 3 595.985569 1784.93488 NaN NaN NaN NaN NaN NaN NaN 47.813 1 47.813 47.313 48.313 0 0 0 0 1.0082 1 21896 21896 0 0 1 + 29568 17377 19084 19142 33187 33187 0.07380655616407239 RWYRHQWRRRW 11 Unmodified _RWYRHQWRRRW_ 0 0 0 REV__ENST00000570069.5_1_16:1826945-1827407:+|nuORF REV__ENST00000570069.5_1_16:1826945-1827407:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 893.4811401367188 2 893.474715 1784.93488 NaN NaN NaN NaN NaN NaN NaN 46.736 1 47.388 46.888 47.888 0.65219 0 0 0 1.0082 1 21405 21405 0 0 1 + 29569 17377 19084 19142 33188 33188 0.07380655616407239 RYAAQLPAL 9 Unmodified _RYAAQLPAL_ 0 0 0 ENSG00000141456|ENST00000572293|PELP1;PELP1|p.P491Lfs*7|1|0.28|ENSG00000141456|chr17:4674620-4674620|G/-|frameshift_variant ENSG00000141456|ENST00000572293|PELP1 ENSG00000141456|ENST00000572293|PELP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.7914123535156 2 501.790184 1001.56581 2.7436 0.0013767 0.47709 0.0002394 3.2207 0.0016161 501.79044534176944 52.517 0.17891 53.328 53.19 53.369 0.81065 11 10 2 0 0 0 0.59776 1 23927 23927 10.824 1.4408 1 202630 29570 3257 19085 19143 33189 33189 0.0650946654272957 RYADSDKI 8 Unmodified _RYADSDKI_ 0 0 0 REV__nc|ENSG00000106608|Q8TCY9-3|URGCP REV__nc|ENSG00000106608|Q8TCY9-3|URGCP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.16534423828125 3 323.166296 966.47706 NaN NaN NaN NaN NaN NaN NaN 14.144 1 14.451 13.951 14.951 0.3069 0 0 0 0.53054 1 6398 6398 27.629 4.8925 1 + 29571 11089 19086 19144 33190 33190 -0.00751993487585878 RYALAPPG 8 Unmodified _RYALAPPG_ 0 0 0 REV__nc|ENSG00000177302|Q13472-3|TOP3A REV__nc|ENSG00000177302|Q13472-3|TOP3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 844.4703369140625 1 844.467564 843.460287 3.7529 0.0031692 -1.0561 -0.00089181 2.6969 0.0022774 844.4667479679533 48.281 0.33942 48.281 48.061 48.401 0 25 18 2 0 0 0 0.48211 1 22098 22098 22.453 1.999 1 842700 + 29572 13733 19087 19145 33191 33191 0.03229550417131577 RYALIMHKL 9 Unmodified _RYALIMHKL_ 0 0 0 ZBTB11|p.A610Lfs*25|1|0.14|ENSG00000066422|chr3:101660001-101660002|CA/-|frameshift_variant;ENSG00000066422|ENST00000312938|ZBTB11 ZBTB11|p.A610Lfs*25|1|0.14|ENSG00000066422|chr3:101660001-101660002|CA/-|frameshift_variant ZBTB11|p.A610Lfs*25|1|0.14|ENSG00000066422|chr3:101660001-101660002|CA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 382.5616149902344 3 382.226833 1143.65867 2.1293 0.00081386 0.12513 4.7828E-05 2.2544 0.00086169 382.2266887972785 33.222 0.22719 34.01 33.912 34.139 0.78795 22 14 2 0 0 0 0.30351 1 15031 15031 16.566 12.69 1 293640 29573 707 19088 19146 33192 33192 0.09258648004492898 RYALIMHKL 9 Unmodified _RYALIMHKL_ 0 0 0 ZBTB11|p.A610Lfs*25|1|0.14|ENSG00000066422|chr3:101660001-101660002|CA/-|frameshift_variant;ENSG00000066422|ENST00000312938|ZBTB11 ZBTB11|p.A610Lfs*25|1|0.14|ENSG00000066422|chr3:101660001-101660002|CA/-|frameshift_variant ZBTB11|p.A610Lfs*25|1|0.14|ENSG00000066422|chr3:101660001-101660002|CA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.5628662109375 3 382.226833 1143.65867 2.6087 0.00099712 0.14184 5.4214E-05 2.7505 0.0010513 382.2265058647763 33.684 0.2873 34.305 34.079 34.366 0.62031 16 10 2 0 0 0 0.47677 1 15450 15450 12.873 7.5757 1 315730 29574 707 19088 19146 33193 33193 0.09258648004492898 RYALQMEQL 9 Unmodified _RYALQMEQL_ 0 0 0 ENSG00000111057|ENST00000388835|KRT18;ENST00000411618.1_1_9:30799684-30799825:-|nuORF;ENST00000549078.5_1_12:53344429-53346127:+|nuORF ENSG00000111057|ENST00000388835|KRT18;ENST00000549078.5_1_12:53344429-53346127:+|nuORF ENST00000549078.5_1_12:53344429-53346127:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 576.2991943359375 2 576.297516 1150.58048 3.8605 0.0022248 0.072217 4.1619E-05 3.9327 0.0022664 576.2975418985097 53.335 0.21275 53.335 53.167 53.379 0 25 14 2 0 0 0 0.02234 1 24410 24410 65.235 27.261 1 1498600 29575 8859;1741 19089 19147 33194 33194 0.011211706285848777 RYALQMEQL 9 Unmodified _RYALQMEQL_ 0 0 0 ENSG00000111057|ENST00000388835|KRT18;ENST00000411618.1_1_9:30799684-30799825:-|nuORF;ENST00000549078.5_1_12:53344429-53346127:+|nuORF ENSG00000111057|ENST00000388835|KRT18;ENST00000549078.5_1_12:53344429-53346127:+|nuORF ENST00000549078.5_1_12:53344429-53346127:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.7565307617188 2 576.297516 1150.58048 3.4548 0.001991 0.36951 0.00021295 3.8243 0.0022039 576.2979498370327 53.178 0.27693 53.441 53.323 53.6 0.26345 33 21 2 0 0 0 0.027384 1 24289 24289 41.84 11.203 1 1173400 29576 8859;1741 19089 19147 33195 33195 0.011211706285848777 RYALQMEQL 9 Unmodified _RYALQMEQL_ 0 0 0 ENSG00000111057|ENST00000388835|KRT18;ENST00000411618.1_1_9:30799684-30799825:-|nuORF;ENST00000549078.5_1_12:53344429-53346127:+|nuORF ENSG00000111057|ENST00000388835|KRT18;ENST00000549078.5_1_12:53344429-53346127:+|nuORF ENST00000549078.5_1_12:53344429-53346127:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 576.297516 1150.58048 3.0378 0.0017507 -0.26491 -0.00015267 2.7729 0.001598 576.2977726451754 52.205 0.26748 53.015 52.855 53.123 0.81066 -0.24866 -0.00034348 NaN 65.235 43 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1512900 29577 8859;1741 19089 19147 0.011211706285848777 RYAMTVWYF 9 Unmodified _RYAMTVWYF_ 0 0 0 ENSG00000129521|ENST00000250457|EGLN3 ENSG00000129521|ENST00000250457|EGLN3 ENSG00000129521|ENST00000250457|EGLN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.3003540039062 2 618.797152 1235.57975 3.4271 0.0021206 -0.6063 -0.00037518 2.8207 0.0017455 618.7969498428297 79.272 0.32547 79.523 79.394 79.719 0.25127 40 19 3 0 0 0 0.136 2 36486 36486;36536 27.629 13.723 1 912960 29578 2552 19090 19148 33196;33197 33196 -0.028616240204655696 RYAMTVWYF 9 Unmodified _RYAMTVWYF_ 0 0 0 ENSG00000129521|ENST00000250457|EGLN3 ENSG00000129521|ENST00000250457|EGLN3 ENSG00000129521|ENST00000250457|EGLN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 618.7979125976562 2 618.797152 1235.57975 3.6091 0.0022333 0.064646 4.0003E-05 3.6738 0.0022733 618.7972652275678 78.659 0.29945 79.321 79.186 79.485 0.66198 32 19 2 0 0 0 0.22824 2 36239 36239;36292 21.537 7.1316 1 1146300 29579 2552 19090 19148 33198;33199 33198 -0.028616240204655696 RYAMTVWYF 9 Unmodified _RYAMTVWYF_ 0 0 0 ENSG00000129521|ENST00000250457|EGLN3 ENSG00000129521|ENST00000250457|EGLN3 ENSG00000129521|ENST00000250457|EGLN3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 618.797152 1235.57975 3.2743 0.0020261 1.6851 0.0010427 4.9594 0.0030689 618.7973032752498 79.274 0.1815 79.274 79.194 79.376 0 -0.09914 0.0023156 NaN 27.629 22 16 2 NaN NaN NaN NaN 0 NaN NaN 0 7825600 29580 2552 19090 19148 -0.028616240204655696 RYASINTHL 9 Unmodified _RYASINTHL_ 0 0 0 ENST00000578904.1_1_17:80208040-80213403:-|nuORF;ENST00000584377.5_1_17:80203885-80211156:-|nuORF;ENST00000581241.5_1_17:80206597-80211051:-|nuORF;nc|ENSG00000141551|P48730-2|CSNK1D;ENSG00000141551|ENST00000314028|CSNK1D;ENSG00000213923|ENST00000396832|CSNK1E ENST00000578904.1_1_17:80208040-80213403:-|nuORF ENST00000578904.1_1_17:80208040-80213403:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 358.8622131347656 3 358.861207 1073.56179 2.8591 0.001026 -0.3038 -0.00010902 2.5553 0.00091701 358.8610866604378 27.898 0.23969 27.898 27.789 28.029 0 29 18 2 0 0 0 0.044531 1 12559 12559 49.527 23.507 1 572740 29581 3268 19091 19149 33200 33200 0.027953770490512397 RYASINTHL 9 Unmodified _RYASINTHL_ 0 0 0 ENST00000578904.1_1_17:80208040-80213403:-|nuORF;ENST00000584377.5_1_17:80203885-80211156:-|nuORF;ENST00000581241.5_1_17:80206597-80211051:-|nuORF;nc|ENSG00000141551|P48730-2|CSNK1D;ENSG00000141551|ENST00000314028|CSNK1D;ENSG00000213923|ENST00000396832|CSNK1E ENST00000578904.1_1_17:80208040-80213403:-|nuORF ENST00000578904.1_1_17:80208040-80213403:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.7902221679688 2 537.788173 1073.56179 3.3778 0.0018165 -0.045986 -2.4731E-05 3.3318 0.0017918 537.7881686494904 27.91 0.23969 27.91 27.789 28.029 0 46 18 3 0 0 0 0.12685 1 12598 12598 29.841 1.3537 1 1579600 29582 3268 19091 19149 33201 33201 0.027953770490512397 RYASINTHL 9 Unmodified _RYASINTHL_ 0 0 0 ENST00000578904.1_1_17:80208040-80213403:-|nuORF;ENST00000584377.5_1_17:80203885-80211156:-|nuORF;ENST00000581241.5_1_17:80206597-80211051:-|nuORF;nc|ENSG00000141551|P48730-2|CSNK1D;ENSG00000141551|ENST00000314028|CSNK1D;ENSG00000213923|ENST00000396832|CSNK1E ENST00000578904.1_1_17:80208040-80213403:-|nuORF ENST00000578904.1_1_17:80208040-80213403:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.7900390625 2 537.788173 1073.56179 3.1421 0.0016898 -0.1293 -6.9536E-05 3.0128 0.0016203 537.787833236155 26.918 0.18674 27.697 27.615 27.802 0.7787 34 13 3 0 0 0 0.034576 1 12086 12086 57.108 20.981 1 2025600 29583 3268 19091 19149 33202 33202 0.027953770490512397 RYASINTHL 9 Unmodified _RYASINTHL_ 0 0 0 ENST00000578904.1_1_17:80208040-80213403:-|nuORF;ENST00000584377.5_1_17:80203885-80211156:-|nuORF;ENST00000581241.5_1_17:80206597-80211051:-|nuORF;nc|ENSG00000141551|P48730-2|CSNK1D;ENSG00000141551|ENST00000314028|CSNK1D;ENSG00000213923|ENST00000396832|CSNK1E ENST00000578904.1_1_17:80208040-80213403:-|nuORF ENST00000578904.1_1_17:80208040-80213403:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 358.862548828125 3 358.861207 1073.56179 NaN NaN NaN NaN NaN NaN NaN 26.962 1 27.741 27.241 28.241 0.7787 0 0 0 0.078346 1 12116 12116 45.74 23.082 1 29584 3268 19091 19149 33203 33203 0.027953770490512397 RYASINTHL 9 Unmodified _RYASINTHL_ 0 0 0 ENST00000578904.1_1_17:80208040-80213403:-|nuORF;ENST00000584377.5_1_17:80203885-80211156:-|nuORF;ENST00000581241.5_1_17:80206597-80211051:-|nuORF;nc|ENSG00000141551|P48730-2|CSNK1D;ENSG00000141551|ENST00000314028|CSNK1D;ENSG00000213923|ENST00000396832|CSNK1E ENST00000578904.1_1_17:80208040-80213403:-|nuORF ENST00000578904.1_1_17:80208040-80213403:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 358.86248779296875 3 358.861207 1073.56179 2.4769 0.00088888 0.4086 0.00014663 2.8855 0.0010355 358.8613167590628 27.806 0.24528 28.068 27.95 28.196 0.26245 28 14 3 0 0 0 0.1229 2 12628 12628;12684 28.495 15.452 1 417630 29585 3268 19091 19149 33204;33205 33204 0.027953770490512397 RYASINTHL 9 Unmodified _RYASINTHL_ 0 0 0 ENST00000578904.1_1_17:80208040-80213403:-|nuORF;ENST00000584377.5_1_17:80203885-80211156:-|nuORF;ENST00000581241.5_1_17:80206597-80211051:-|nuORF;nc|ENSG00000141551|P48730-2|CSNK1D;ENSG00000141551|ENST00000314028|CSNK1D;ENSG00000213923|ENST00000396832|CSNK1E ENST00000578904.1_1_17:80208040-80213403:-|nuORF ENST00000578904.1_1_17:80208040-80213403:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.79052734375 2 537.788173 1073.56179 2.9504 0.0015867 0.63672 0.00034242 3.5871 0.0019291 537.7884919433528 27.818 0.30312 28.081 27.914 28.217 0.26245 41 17 3 0 0 0 0.090603 1 12661 12661 30.703 2.2166 1 916080 29586 3268 19091 19149 33206 33206 0.027953770490512397 RYASINTHL 9 Unmodified _RYASINTHL_ 0 0 0 ENST00000578904.1_1_17:80208040-80213403:-|nuORF;ENST00000584377.5_1_17:80203885-80211156:-|nuORF;ENST00000581241.5_1_17:80206597-80211051:-|nuORF;nc|ENSG00000141551|P48730-2|CSNK1D;ENSG00000141551|ENST00000314028|CSNK1D;ENSG00000213923|ENST00000396832|CSNK1E ENST00000578904.1_1_17:80208040-80213403:-|nuORF ENST00000578904.1_1_17:80208040-80213403:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 358.8625183105469 3 358.861207 1073.56179 2.4265 0.00087077 0.32408 0.0001163 2.7506 0.00098707 358.86139724703565 27.416 0.20299 28.038 27.943 28.146 0.62178 29 15 3 0 0 0 0.19413 1 12566 12566 23.79 12.295 1 283810 29587 3268 19091 19149 33207 33207 0.027953770490512397 RYASINTHL 9 Unmodified _RYASINTHL_ 0 0 0 ENST00000578904.1_1_17:80208040-80213403:-|nuORF;ENST00000584377.5_1_17:80203885-80211156:-|nuORF;ENST00000581241.5_1_17:80206597-80211051:-|nuORF;nc|ENSG00000141551|P48730-2|CSNK1D;ENSG00000141551|ENST00000314028|CSNK1D;ENSG00000213923|ENST00000396832|CSNK1E ENST00000578904.1_1_17:80208040-80213403:-|nuORF ENST00000578904.1_1_17:80208040-80213403:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.7901611328125 2 537.788173 1073.56179 3.1827 0.0017116 0.68192 0.00036673 3.8646 0.0020783 537.7884985332981 27.459 0.31106 28.081 27.871 28.182 0.62178 53 21 3 0 0 0 0.047921 1 12576 12576 51.415 13.441 1 1089600 29588 3268 19091 19149 33208 33208 0.027953770490512397 RYAWIKRQL 9 Unmodified _RYAWIKRQL_ 0 0 0 nc|ENSG00000141252|Q5VIR6-2|VPS53;nc|ENSG00000141252|Q5VIR6-3|VPS53;nc|ENSG00000141252|Q5VIR6-1|VPS53;ENSG00000141252|ENST00000437048|VPS53;ENST00000576149.5_1_17:503295-579448:-|nuORF nc|ENSG00000141252|Q5VIR6-2|VPS53 nc|ENSG00000141252|Q5VIR6-2|VPS53 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 411.9134826660156 3 411.912013 1232.71421 2.7835 0.0011466 -0.012702 -5.2321E-06 2.7708 0.0011413 411.91204176676047 28.85 0.33944 29.639 29.468 29.807 0.78921 42 26 2 0 0 0 0.43294 2 12968 12968;13016 13.615 11.116 1 324040 29589 3241 19092 19150 33209;33210 33209 0.10716197516467219 RYAWIKRQL 9 Unmodified _RYAWIKRQL_ 0 0 0 nc|ENSG00000141252|Q5VIR6-2|VPS53;nc|ENSG00000141252|Q5VIR6-3|VPS53;nc|ENSG00000141252|Q5VIR6-1|VPS53;ENSG00000141252|ENST00000437048|VPS53;ENST00000576149.5_1_17:503295-579448:-|nuORF nc|ENSG00000141252|Q5VIR6-2|VPS53 nc|ENSG00000141252|Q5VIR6-2|VPS53 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 411.91357421875 3 411.912013 1232.71421 NaN NaN NaN NaN NaN NaN NaN 29.025 1 29.815 29.315 30.315 0.78921 0 0 0 0.89602 1 13080 13080 4.5289 1.8976 1 29590 3241 19092 19150 33211 33211 0.10716197516467219 RYDNVTILF 9 Unmodified _RYDNVTILF_ 0 0 0 ENSG00000061918|ENST00000264424|GUCY1B1;nc|ENSG00000061918|Q02153-3|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.8081665039062 2 570.806031 1139.59751 3.2434 0.0018514 -0.49284 -0.00028131 2.7506 0.0015701 570.8060273407133 70.046 0.17947 70.707 70.59 70.769 0.66071 15 11 2 0 0 0 0.19413 1 32110 32110 23.79 5.6548 1 464420 29591 649 19093 19151 33212 33212 0.0332941450603812 RYDNVTILF 9 Unmodified _RYDNVTILF_ 0 0 0 ENSG00000061918|ENST00000264424|GUCY1B1;nc|ENSG00000061918|Q02153-3|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 570.806031 1139.59751 3.3042 0.0018861 0.6372 0.00036372 3.9414 0.0022498 570.8061882949924 70.596 0.22169 70.853 70.716 70.937 0.25642 0.073037 0.00078418 NaN 23.79 15 12 2 NaN NaN NaN NaN 0 NaN NaN 0 425590 29592 649 19093 19151 0.0332941450603812 RYDPHLNRW 9 Unmodified _RYDPHLNRW_ 0 0 0 ENSG00000167487|ENST00000300976|KLHL26 ENSG00000167487|ENST00000300976|KLHL26 ENSG00000167487|ENST00000300976|KLHL26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 419.8833923339844 3 419.547623 1255.62104 3.0347 0.0012732 0.40352 0.0001693 3.4382 0.0014425 419.54781382051186 27.856 0.24905 27.856 27.728 27.977 0 35 20 2 0 0 0 0.11316 2 12526 12526;12577 29.437 22.814 1 557230 29593 4555 19094 19152 33213;33214 33213 0.0034527306320342177 RYDPHLNRW 9 Unmodified _RYDPHLNRW_ 0 0 0 ENSG00000167487|ENST00000300976|KLHL26 ENSG00000167487|ENST00000300976|KLHL26 ENSG00000167487|ENST00000300976|KLHL26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 419.54840087890625 3 419.547623 1255.62104 2.7505 0.001154 -0.17322 -7.2675E-05 2.5773 0.0010813 419.54752111785893 26.857 0.19163 27.636 27.538 27.729 0.7787 20 13 2 0 0 0 0.076469 1 12065 12065 38.615 20.275 1 568900 29594 4555 19094 19152 33215 33215 0.0034527306320342177 RYDPHLNRW 9 Unmodified _RYDPHLNRW_ 0 0 0 ENSG00000167487|ENST00000300976|KLHL26 ENSG00000167487|ENST00000300976|KLHL26 ENSG00000167487|ENST00000300976|KLHL26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 419.5491943359375 3 419.547623 1255.62104 2.911 0.0012213 1.0761 0.00045149 3.9872 0.0016728 419.5479614925084 27.512 0.22386 28.134 28.044 28.268 0.62179 19 14 2 0 0 0 0.67336 1 12638 12638 9.544 5.4273 1 203280 29595 4555 19094 19152 33216 33216 0.0034527306320342177 RYDPKTNQW 9 Unmodified _RYDPKTNQW_ 0 0 0 nc|ENSG00000076321|Q9Y2M5-2|KLHL20;KLHL20|p.K600Nfs*2|1|0.05|ENSG00000076321|chr1:173785216-173785217|-/CT|frameshift_variant;KLHL20|p.M601Rfs*9|1|0.05|ENSG00000076321|chr1:173785217-173785218|-/CGACTAAGATGTT|frameshift_variant;ENSG00000076321|ENST00000209884|KLHL20 nc|ENSG00000076321|Q9Y2M5-2|KLHL20 nc|ENSG00000076321|Q9Y2M5-2|KLHL20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 403.5350036621094 3 403.2 1206.57817 2.7606 0.0011131 -0.25849 -0.00010423 2.5021 0.0010089 403.2000082760043 22.466 0.22589 22.466 22.284 22.51 0 30 16 2 0 0 0 0.29024 1 10060 10060 17.443 12.546 1 476400 29596 845 19095 19153 33217 33217 -0.016855417848773868 RYDPQTNEW 9 Unmodified _RYDPQTNEW_ 0 0 0 nc|ENSG00000076321|Q9Y2M5-2|KLHL20;KLHL20|p.K600Nfs*2|1|0.05|ENSG00000076321|chr1:173785216-173785217|-/CT|frameshift_variant;KLHL20|p.M601Rfs*9|1|0.05|ENSG00000076321|chr1:173785217-173785218|-/CGACTAAGATGTT|frameshift_variant;ENSG00000076321|ENST00000209884|KLHL20 nc|ENSG00000076321|Q9Y2M5-2|KLHL20 nc|ENSG00000076321|Q9Y2M5-2|KLHL20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.7719116210938 2 604.770177 1207.5258 3.2842 0.0019862 -0.052711 -3.1878E-05 3.2315 0.0019543 604.7698358224583 33.72 0.15166 33.72 33.635 33.787 0 17 11 2 0 0 0 0.063112 1 15281 15281 41.956 25.806 1 647330 29597 845 19096 19154 33218 33218 -0.06966124918471905 RYDPQTNEW 9 Unmodified _RYDPQTNEW_ 0 0 0 nc|ENSG00000076321|Q9Y2M5-2|KLHL20;KLHL20|p.K600Nfs*2|1|0.05|ENSG00000076321|chr1:173785216-173785217|-/CT|frameshift_variant;KLHL20|p.M601Rfs*9|1|0.05|ENSG00000076321|chr1:173785217-173785218|-/CGACTAAGATGTT|frameshift_variant;ENSG00000076321|ENST00000209884|KLHL20 nc|ENSG00000076321|Q9Y2M5-2|KLHL20 nc|ENSG00000076321|Q9Y2M5-2|KLHL20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 604.7724609375 2 604.770177 1207.5258 3.1975 0.0019337 -0.66584 -0.00040268 2.5316 0.001531 604.7701586137347 32.578 0.23033 33.366 33.226 33.456 0.78795 27 15 2 0 0 0 0.084899 1 14712 14712 36.506 16.092 1 450060 29598 845 19096 19154 33219 33219 -0.06966124918471905 RYEDRVKLPFF 11 Unmodified _RYEDRVKLPFF_ 0 0 0 REV__ENST00000463783.1_1_3:196663884-196664019:-|nuORF REV__ENST00000463783.1_1_3:196663884-196664019:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 735.3992309570312 2 735.398618 1468.78268 NaN NaN NaN NaN NaN NaN NaN 60.022 1 60.772 60.272 61.272 0.74927 0 0 0 0.99571 1 27611 27611 7.1017 3.5052 1 + 29599 16518 19097 19155 33220 33220 0.06704397305634302 RYFDGNLEKL 10 Unmodified _RYFDGNLEKL_ 0 0 0 ENSG00000166233|ENST00000379887|ARIH1 ENSG00000166233|ENST00000379887|ARIH1 ENSG00000166233|ENST00000379887|ARIH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 418.8885192871094 3 418.887422 1253.64044 NaN NaN NaN NaN NaN NaN NaN 46.207 1 46.473 45.973 46.973 0.26561 0 0 0 0.97628 1 21122 21122 9.2438 5.6511 1 29600 4464 19098 19156 33221 33221 0.02376184563490824 RYFDPANGKF 10 Unmodified _RYFDPANGKF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2;ENST00000598182.5_1_19:3980752-3982305:-|nuORF ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 607.80419921875 2 607.80128 1213.58801 3.6036 0.0021903 0.22406 0.00013619 3.8277 0.0023265 607.8014829679499 39.859 0.51809 39.859 39.653 40.172 0 83 22 5 0 0 0 4.1527E-20 5 18091 18040;18091;18132;18142;18192 171.46 131.51 1 14447000 29601 4569 19099 19157 33222;33223;33224;33225;33226 33223 -0.010243537794849544 RYFDPANGKF 10 Unmodified _RYFDPANGKF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2;ENST00000598182.5_1_19:3980752-3982305:-|nuORF ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 405.537841796875 3 405.536612 1213.58801 2.7101 0.0010991 0.36408 0.00014765 3.0742 0.0012467 405.5369017365138 39.858 0.50283 39.858 39.637 40.14 0 90 22 5 0 0 0 3.5654E-05 2 18114 18114;18166 85.764 74.965 1 15591000 29602 4569 19099 19157 33227;33228 33227 -0.010243537794849544 RYFDPANGKF 10 Unmodified _RYFDPANGKF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2;ENST00000598182.5_1_19:3980752-3982305:-|nuORF ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 607.8033447265625 2 607.80128 1213.58801 3.3921 0.0020617 0.11621 7.0631E-05 3.5083 0.0021324 607.8013981053639 38.668 0.5436 39.466 39.156 39.699 0.79762 100 25 5 0 0 0 3.3629E-09 4 17521 17413;17463;17521;17573 147.24 111.11 1 10170000 29603 4569 19099 19157 33229;33230;33231;33232 33231 -0.010243537794849544 RYFDPANGKF 10 Unmodified _RYFDPANGKF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2;ENST00000598182.5_1_19:3980752-3982305:-|nuORF ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.537841796875 3 405.536612 1213.58801 2.6791 0.0010865 0.0041598 1.687E-06 2.6833 0.0010882 405.5366828818041 38.656 0.56475 39.454 39.156 39.721 0.79762 107 26 5 0 0 0 3.5654E-05 3 17534 17482;17534;17582 85.764 70.516 1 10845000 29604 4569 19099 19157 33233;33234;33235 33234 -0.010243537794849544 RYFDPANGKF 10 Unmodified _RYFDPANGKF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2;ENST00000598182.5_1_19:3980752-3982305:-|nuORF ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 607.8033447265625 2 607.80128 1213.58801 3.6687 0.0022298 0.0099477 6.0462E-06 3.6786 0.0022359 607.8013251088429 39.943 0.52625 40.21 39.853 40.38 0.26696 59 20 4 0 0 0 6.9134E-09 4 18131 18069;18131;18187;18247 143.91 111.6 1 7627600 29605 4569 19099 19157 33236;33237;33238;33239 33237 -0.010243537794849544 RYFDPANGKF 10 Unmodified _RYFDPANGKF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2;ENST00000598182.5_1_19:3980752-3982305:-|nuORF ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.53778076171875 3 405.536612 1213.58801 3.0563 0.0012394 -0.28105 -0.00011398 2.7752 0.0011254 405.53651817799266 39.936 0.56346 40.203 39.794 40.357 0.26696 63 21 4 0 0 0 0.011059 3 18119 18119;18174;18222 68.76 57.96 1 8407400 29606 4569 19099 19157 33240;33241;33242 33240 -0.010243537794849544 RYFDPANGKF 10 Unmodified _RYFDPANGKF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2;ENST00000598182.5_1_19:3980752-3982305:-|nuORF ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 607.8037109375 2 607.80128 1213.58801 3.8163 0.0023196 0.1351 8.2116E-05 3.9514 0.0024017 607.8013901586689 39.438 0.44244 40.076 39.831 40.273 0.63778 65 19 5 0 0 0 1.0195999999999998E-28 3 18018 17966;18018;18066 187.14 143.28 1 6124600 29607 4569 19099 19157 33243;33244;33245 33244 -0.010243537794849544 RYFDPANGKF 10 Unmodified _RYFDPANGKF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2;ENST00000598182.5_1_19:3980752-3982305:-|nuORF ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.53790283203125 3 405.536612 1213.58801 3.0813 0.0012496 0.10772 4.3684E-05 3.1891 0.0012933 405.53666638831083 39.426 0.51831 40.064 39.785 40.303 0.63778 67 22 4 0 0 0 3.5654E-05 1 18019 18019 85.764 74.965 1 5996700 29608 4569 19099 19157 33246 33246 -0.010243537794849544 RYFDVGLHNF 10 Unmodified _RYFDVGLHNF_ 0 0 0 nc|ENSG00000054392|Q5VTY9-5|HHAT;nc|ENSG00000054392|Q5VTY9-2|HHAT;ENSG00000054392|ENST00000261458|HHAT;nc|ENSG00000054392|Q5VTY9-7|HHAT;nc|ENSG00000054392|Q5VTY9-3|HHAT;nc|ENSG00000054392|Q5VTY9-6|HHAT nc|ENSG00000054392|Q5VTY9-5|HHAT nc|ENSG00000054392|Q5VTY9-5|HHAT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.3115234375 2 634.314554 1266.61456 NaN NaN NaN NaN NaN NaN NaN 56.55 1 56.55 56.05 57.05 0 0 0 0 0.1968 1 26025 26025 45.74 28.627 1 29609 9545 19100 19158 33247 33247 -0.00808664888131716 RYFENPQVI 9 Unmodified _RYFENPQVI_ 0 0 0 nc|ENSG00000196367|Q9Y4A5-2|TRRAP;nc|ENSG00000196367|Q9Y4A5|TRRAP;ENSG00000196367|ENST00000456197|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.3056030273438 2 583.303655 1164.59276 3.5823 0.0020896 -0.34532 -0.00020142 3.237 0.0018882 583.3032349290182 48.309 0.31312 48.309 48.139 48.452 0 39 19 3 0 0 0 0.02812 2 22093 22093;22139 57.722 39.576 1 1582200 29610 5739 19101 19159 33248;33249 33248 0.017045303632812647 RYFENPQVI 9 Unmodified _RYFENPQVI_ 0 0 0 nc|ENSG00000196367|Q9Y4A5-2|TRRAP;nc|ENSG00000196367|Q9Y4A5|TRRAP;ENSG00000196367|ENST00000456197|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 583.305419921875 2 583.303655 1164.59276 3.0813 0.0017974 0.49388 0.00028808 3.5752 0.0020854 583.3037224633312 47.207 0.26981 48.036 47.889 48.159 0.82915 35 15 4 0 0 0 0.014491 2 21517 21470;21517 75.761 50.362 1 1119300 29611 5739 19101 19159 33250;33251 33251 0.017045303632812647 RYFENPQVI 9 Unmodified _RYFENPQVI_ 0 0 0 nc|ENSG00000196367|Q9Y4A5-2|TRRAP;nc|ENSG00000196367|Q9Y4A5|TRRAP;ENSG00000196367|ENST00000456197|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.304931640625 2 583.303655 1164.59276 3.6177 0.0021102 0.1878 0.00010955 3.8055 0.0022198 583.3036633086153 48.218 0.2487 48.48 48.319 48.568 0.26209 18 9 3 0 0 0 0.057945 1 22040 22040 43.772 25.626 1 844710 29612 5739 19101 19159 33252 33252 0.017045303632812647 RYFENPQVI 9 Unmodified _RYFENPQVI_ 0 0 0 nc|ENSG00000196367|Q9Y4A5-2|TRRAP;nc|ENSG00000196367|Q9Y4A5|TRRAP;ENSG00000196367|ENST00000456197|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.3058471679688 2 583.303655 1164.59276 3.5882 0.002093 0.52184 0.00030439 4.1101 0.0023974 583.3038618600494 47.68 0.31949 48.334 48.113 48.432 0.65356 25 14 3 0 0 0 0.044468 2 21789 21789;21845 49.554 31.408 1 677680 29613 5739 19101 19159 33253;33254 33253 0.017045303632812647 RYFGSFGT 8 Unmodified _RYFGSFGT_ 0 0 0 REV__ENST00000488550.5_1_2:66798235-66798658:+|nuORF REV__ENST00000488550.5_1_2:66798235-66798658:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 467.7253112792969 2 467.72451 933.434466 NaN NaN NaN NaN NaN NaN NaN 41.254 1 41.523 41.023 42.023 0.26904 0 0 0 0.99035 1 18787 18787 5.2307 0 1 + 29614 16780 19102 19160 33255 33255 -0.034913438251237494 RYFIAPAKF 9 Unmodified _RYFIAPAKF_ 0 0 0 ENSG00000135862|ENST00000258341|LAMC1;LAMC1|p.C916Vfs*123|1|0.4|ENSG00000135862|chr1:183125494-183125494|C/-|frameshift_variant ENSG00000135862|ENST00000258341|LAMC1 ENSG00000135862|ENST00000258341|LAMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.8175048828125 2 556.816202 1111.61785 3.4068 0.001897 -0.48353 -0.00026924 2.9233 0.0016277 556.8155164255744 48.061 0.21251 48.061 47.955 48.168 0 23 9 3 0 0 0 0.086415 1 22000 22000 36.127 9.2434 1 685070 29615 2904 19103 19161 33256 33256 0.06650629956516241 RYFIAPAKF 9 Unmodified _RYFIAPAKF_ 0 0 0 ENSG00000135862|ENST00000258341|LAMC1;LAMC1|p.C916Vfs*123|1|0.4|ENSG00000135862|chr1:183125494-183125494|C/-|frameshift_variant ENSG00000135862|ENST00000258341|LAMC1 ENSG00000135862|ENST00000258341|LAMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 556.8178100585938 2 556.816202 1111.61785 3.1738 0.0017672 -0.61788 -0.00034404 2.5559 0.0014232 556.8155469159973 46.925 0.28753 47.754 47.613 47.901 0.82915 22 13 3 0 0 0 0.057744 1 21367 21367 43.858 23.405 1 410830 29616 2904 19103 19161 33257 33257 0.06650629956516241 RYFIAPAKF 9 Unmodified _RYFIAPAKF_ 0 0 0 ENSG00000135862|ENST00000258341|LAMC1;LAMC1|p.C916Vfs*123|1|0.4|ENSG00000135862|chr1:183125494-183125494|C/-|frameshift_variant ENSG00000135862|ENST00000258341|LAMC1 ENSG00000135862|ENST00000258341|LAMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.8175659179688 2 556.816202 1111.61785 3.4779 0.0019366 -1.1 -0.00061252 2.3779 0.001324 556.815627819094 47.208 0.18591 47.861 47.774 47.96 0.65219 13 8 2 0 0 0 0.41574 1 21629 21629 13.906 7.1829 1 250540 29617 2904 19103 19161 33258 33258 0.06650629956516241 RYFKGPELL 9 Unmodified _RYFKGPELL_ 0 0 0 ENSG00000254598|ENST00000528848|CSNK2A3;ENSG00000101266|ENST00000217244|CSNK2A1;ENSG00000070770|ENST00000262506|CSNK2A2;nc|ENSG00000101266|P68400-2|CSNK2A1 ENSG00000254598|ENST00000528848|CSNK2A3 ENSG00000254598|ENST00000528848|CSNK2A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.82080078125 2 561.818941 1121.62333 3.3023 0.0018553 0.032797 1.8426E-05 3.3351 0.0018737 561.8188427636219 46.02 0.40004 46.02 45.79 46.19 0 59 20 4 0 0 0 0.016363 2 21095 21034;21095 89.401 89.401 1 7621300 29618 1278 19104 19162 33259;33260 33260 0.06738308748322197 RYFKGPELL 9 Unmodified _RYFKGPELL_ 0 0 0 ENSG00000254598|ENST00000528848|CSNK2A3;ENSG00000101266|ENST00000217244|CSNK2A1;ENSG00000070770|ENST00000262506|CSNK2A2;nc|ENSG00000101266|P68400-2|CSNK2A1 ENSG00000254598|ENST00000528848|CSNK2A3 ENSG00000254598|ENST00000528848|CSNK2A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.8822326660156 3 374.88172 1121.62333 2.6686 0.0010004 -0.33217 -0.00012452 2.3364 0.00087589 374.8815457779462 46.024 0.39836 46.024 45.811 46.209 0 37 20 2 0 0 0 0.030603 1 21081 21081 55.503 55.503 1 4191800 29619 1278 19104 19162 33261 33261 0.06738308748322197 RYFKGPELL 9 Unmodified _RYFKGPELL_ 0 0 0 ENSG00000254598|ENST00000528848|CSNK2A3;ENSG00000101266|ENST00000217244|CSNK2A1;ENSG00000070770|ENST00000262506|CSNK2A2;nc|ENSG00000101266|P68400-2|CSNK2A1 ENSG00000254598|ENST00000528848|CSNK2A3 ENSG00000254598|ENST00000528848|CSNK2A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.8826599121094 3 374.88172 1121.62333 2.3515 0.00088152 -0.20175 -7.5633E-05 2.1497 0.00080588 374.8816126523419 44.829 0.43851 45.65 45.467 45.905 0.82075 37 20 2 0 0 0 0.025135 2 20406 20406;20460 61.602 34.379 1 3506700 29620 1278 19104 19162 33262;33263 33262 0.06738308748322197 RYFKGPELL 9 Unmodified _RYFKGPELL_ 0 0 0 ENSG00000254598|ENST00000528848|CSNK2A3;ENSG00000101266|ENST00000217244|CSNK2A1;ENSG00000070770|ENST00000262506|CSNK2A2;nc|ENSG00000101266|P68400-2|CSNK2A1 ENSG00000254598|ENST00000528848|CSNK2A3 ENSG00000254598|ENST00000528848|CSNK2A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.8206176757812 2 561.818941 1121.62333 NaN NaN NaN NaN NaN NaN NaN 44.788 1 45.609 45.109 46.109 0.82075 0 0 0 0.016962 1 20397 20397 93.166 34.487 1 29621 1278 19104 19162 33264 33264 0.06738308748322197 RYFKGPELL 9 Unmodified _RYFKGPELL_ 0 0 0 ENSG00000254598|ENST00000528848|CSNK2A3;ENSG00000101266|ENST00000217244|CSNK2A1;ENSG00000070770|ENST00000262506|CSNK2A2;nc|ENSG00000101266|P68400-2|CSNK2A1 ENSG00000254598|ENST00000528848|CSNK2A3 ENSG00000254598|ENST00000528848|CSNK2A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.820556640625 2 561.818941 1121.62333 NaN NaN NaN NaN NaN NaN NaN 44.896 1 45.716 45.216 46.216 0.82075 0 0 0 0.016962 1 20446 20446 93.166 51.326 1 29622 1278 19104 19162 33265 33265 0.06738308748322197 RYFKGPELL 9 Unmodified _RYFKGPELL_ 0 0 0 ENSG00000254598|ENST00000528848|CSNK2A3;ENSG00000101266|ENST00000217244|CSNK2A1;ENSG00000070770|ENST00000262506|CSNK2A2;nc|ENSG00000101266|P68400-2|CSNK2A1 ENSG00000254598|ENST00000528848|CSNK2A3 ENSG00000254598|ENST00000528848|CSNK2A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.8204345703125 2 561.818941 1121.62333 3.5057 0.0019695 -0.19522 -0.00010968 3.3104 0.0018599 561.8186772175142 45.781 0.36646 46.047 45.866 46.232 0.26561 35 14 3 0 0 0 0.013552 2 20956 20891;20956 93.166 93.166 1 3942200 29623 1278 19104 19162 33266;33267 33267 0.06738308748322197 RYFKGPELL 9 Unmodified _RYFKGPELL_ 0 0 0 ENSG00000254598|ENST00000528848|CSNK2A3;ENSG00000101266|ENST00000217244|CSNK2A1;ENSG00000070770|ENST00000262506|CSNK2A2;nc|ENSG00000101266|P68400-2|CSNK2A1 ENSG00000254598|ENST00000528848|CSNK2A3 ENSG00000254598|ENST00000528848|CSNK2A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.88262939453125 3 374.88172 1121.62333 2.6818 0.0010053 -0.34159 -0.00012806 2.3402 0.00087729 374.88157471619394 45.759 0.36646 46.025 45.867 46.233 0.2666 28 14 2 0 0 0 0.025135 2 20917 20917;20977 61.602 38.944 1 1803800 29624 1278 19104 19162 33268;33269 33268 0.06738308748322197 RYFKGPELL 9 Unmodified _RYFKGPELL_ 0 0 0 ENSG00000254598|ENST00000528848|CSNK2A3;ENSG00000101266|ENST00000217244|CSNK2A1;ENSG00000070770|ENST00000262506|CSNK2A2;nc|ENSG00000101266|P68400-2|CSNK2A1 ENSG00000254598|ENST00000528848|CSNK2A3 ENSG00000254598|ENST00000528848|CSNK2A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.8209228515625 2 561.818941 1121.62333 3.7588 0.0021118 -0.045437 -2.5528E-05 3.7134 0.0020862 561.8188213437367 45.13 0.43466 45.78 45.566 46.001 0.65051 46 16 4 0 0 0 0.0078872 3 20701 20653;20701;20751 103.42 85.642 1 3622400 29625 1278 19104 19162 33270;33271;33272 33271 0.06738308748322197 RYFKGPELL 9 Unmodified _RYFKGPELL_ 0 0 0 ENSG00000254598|ENST00000528848|CSNK2A3;ENSG00000101266|ENST00000217244|CSNK2A1;ENSG00000070770|ENST00000262506|CSNK2A2;nc|ENSG00000101266|P68400-2|CSNK2A1 ENSG00000254598|ENST00000528848|CSNK2A3 ENSG00000254598|ENST00000528848|CSNK2A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.88275146484375 3 374.88172 1121.62333 2.8829 0.0010808 -0.28308 -0.00010612 2.5998 0.00097463 374.8816457734759 45.144 0.37305 45.795 45.593 45.966 0.65098 22 13 2 0 0 0 0.02812 1 20693 20693 57.722 26.454 1 1879600 29626 1278 19104 19162 33273 33273 0.06738308748322197 RYFKTPRKF 9 Unmodified _RYFKTPRKF_ 0 0 0 nc|ENSG00000148337|Q9ULV3-5|CIZ1;nc|ENSG00000148337|Q9ULV3-3|CIZ1;nc|ENSG00000148337|Q9ULV3-4|CIZ1;nc|ENSG00000148337|Q9ULV3-2|CIZ1;ENSG00000148337|ENST00000372938|CIZ1 nc|ENSG00000148337|Q9ULV3-5|CIZ1 nc|ENSG00000148337|Q9ULV3-5|CIZ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 414.91082763671875 3 414.90838 1241.70331 2.762 0.001146 1.1724 0.00048644 3.9344 0.0016324 414.90898326051064 14.702 0.85418 14.702 14.354 15.208 0 211 91 3 0 0 0 0.021401 5 6460 6372;6460;6503;6591;6639 55.503 44.008 1 539870 29627 3599 19105 19163 33274;33275;33276;33277;33278 33275 0.09212795142161667 RYFKTPRKF 9 Unmodified _RYFKTPRKF_ 0 0 0 nc|ENSG00000148337|Q9ULV3-5|CIZ1;nc|ENSG00000148337|Q9ULV3-3|CIZ1;nc|ENSG00000148337|Q9ULV3-4|CIZ1;nc|ENSG00000148337|Q9ULV3-2|CIZ1;ENSG00000148337|ENST00000372938|CIZ1 nc|ENSG00000148337|Q9ULV3-5|CIZ1 nc|ENSG00000148337|Q9ULV3-5|CIZ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 414.9097595214844 3 414.90838 1241.70331 NaN NaN NaN NaN NaN NaN NaN 14.519 1 14.519 14.019 15.019 0 0 0 0 0.10938 1 6397 6397 37.075 28.919 1 29628 3599 19105 19163 33279 33279 0.09212795142161667 RYFKTPRKF 9 Unmodified _RYFKTPRKF_ 0 0 0 nc|ENSG00000148337|Q9ULV3-5|CIZ1;nc|ENSG00000148337|Q9ULV3-3|CIZ1;nc|ENSG00000148337|Q9ULV3-4|CIZ1;nc|ENSG00000148337|Q9ULV3-2|CIZ1;ENSG00000148337|ENST00000372938|CIZ1 nc|ENSG00000148337|Q9ULV3-5|CIZ1 nc|ENSG00000148337|Q9ULV3-5|CIZ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 414.9084167480469 3 414.90838 1241.70331 NaN NaN NaN NaN NaN NaN NaN 14.556 1 14.556 14.056 15.056 0 0 0 0 0.099253 1 6414 6414 32.037 22.494 1 29629 3599 19105 19163 33280 33280 0.09212795142161667 RYFKTPRKF 9 Unmodified _RYFKTPRKF_ 0 0 0 nc|ENSG00000148337|Q9ULV3-5|CIZ1;nc|ENSG00000148337|Q9ULV3-3|CIZ1;nc|ENSG00000148337|Q9ULV3-4|CIZ1;nc|ENSG00000148337|Q9ULV3-2|CIZ1;ENSG00000148337|ENST00000372938|CIZ1 nc|ENSG00000148337|Q9ULV3-5|CIZ1 nc|ENSG00000148337|Q9ULV3-5|CIZ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 415.24365234375 3 414.90838 1241.70331 2.6262 0.0010896 0.087274 3.6211E-05 2.7134 0.0011258 414.9085743263667 14.049 0.31356 14.275 14.106 14.42 0.22622 60 28 3 0 0 0 0.0020791 2 6182 6143;6182 110.55 90.138 1 1741700 29630 3599 19105 19163 33281;33282 33282 0.09212795142161667 RYFKTPRKF 9 Unmodified _RYFKTPRKF_ 0 0 0 nc|ENSG00000148337|Q9ULV3-5|CIZ1;nc|ENSG00000148337|Q9ULV3-3|CIZ1;nc|ENSG00000148337|Q9ULV3-4|CIZ1;nc|ENSG00000148337|Q9ULV3-2|CIZ1;ENSG00000148337|ENST00000372938|CIZ1 nc|ENSG00000148337|Q9ULV3-5|CIZ1 nc|ENSG00000148337|Q9ULV3-5|CIZ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 311.4330139160156 4 311.433104 1241.70331 2.1803 0.00067902 -0.25566 -7.962E-05 1.9247 0.0005994 311.4329960514038 14.052 0.29899 14.278 14.121 14.42 0.22622 66 26 3 0 0 0 0.0046538 1 6151 6151 93.166 71.576 1 1571300 29631 3599 19105 19163 33283 33283 0.09212795142161667 RYFKTPRKF 9 Unmodified _RYFKTPRKF_ 0 0 0 nc|ENSG00000148337|Q9ULV3-5|CIZ1;nc|ENSG00000148337|Q9ULV3-3|CIZ1;nc|ENSG00000148337|Q9ULV3-4|CIZ1;nc|ENSG00000148337|Q9ULV3-2|CIZ1;ENSG00000148337|ENST00000372938|CIZ1 nc|ENSG00000148337|Q9ULV3-5|CIZ1 nc|ENSG00000148337|Q9ULV3-5|CIZ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.90985107421875 3 414.90838 1241.70331 NaN NaN NaN NaN NaN NaN NaN 14.096 1 14.745 14.245 15.245 0.6482 0 0 0 0.015435 1 6338 6338 71.708 55.433 1 29632 3599 19105 19163 33284 33284 0.09212795142161667 RYFLLITNLL 10 Unmodified _RYFLLITNLL_ 0 0 0 ENST00000503601.1_1_4:2083186-2091962:-|nuORF ENST00000503601.1_1_4:2083186-2091962:-|nuORF ENST00000503601.1_1_4:2083186-2091962:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5937805175781 3 422.592058 1264.75434 3.1285 0.0013221 1.0677 0.0004512 4.1962 0.0017733 422.5924149082851 47.859 0.39108 48.123 47.986 48.377 0.26363 27 16 2 0 0 0 0.83621 1 21871 21871 3.5871 1.6807 1 472410 29633 8490 19106 19164 33285 33285 0.13255699396404452 RYFNILYKHRL 11 Unmodified _RYFNILYKHRL_ 0 0 0 REV__nc|ENSG00000139908|Q6SA08-3|TSSK4 REV__nc|ENSG00000139908|Q6SA08-3|TSSK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 761.9429931640625 2 761.935702 1521.85685 NaN NaN NaN NaN NaN NaN NaN 83.884 1 84.547 84.047 85.047 0.66219 0 0 0 1.0061 1 38637 38637 2.7352 1.4057 1 + 29634 12223 19107 19165 33286 33286 0.11679785187834568 RYFPDLDEL 9 Unmodified _RYFPDLDEL_ 0 0 0 REV__nc|ENSG00000168356|Q9UI33-2|SCN11A REV__nc|ENSG00000168356|Q9UI33-2|SCN11A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.2892456054688 2 584.287671 1166.56079 3.3684 0.0019681 0.71654 0.00041867 4.085 0.0023868 584.2876266374305 59.811 0.28165 59.811 59.624 59.905 0 70 26 4 0 0 0 0.079031 2 27615 27615;27667 37.974 7.3375 1 11220000 + 29635 13345 19108 19166 33287;33288 33287 -0.015828821105287716 RYFPDLDEL 9 Unmodified _RYFPDLDEL_ 0 0 0 REV__nc|ENSG00000168356|Q9UI33-2|SCN11A REV__nc|ENSG00000168356|Q9UI33-2|SCN11A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.28955078125 2 584.287671 1166.56079 2.9209 0.0017067 0.21795 0.00012735 3.1389 0.001834 584.2874259917168 58.692 0.25753 59.451 59.321 59.578 0.75894 81 28 4 0 0 0 0.19064 2 26910 26910;26970 24.021 7.0783 1 12540000 + 29636 13345 19108 19166 33289;33290 33289 -0.015828821105287716 RYFPDLDEL 9 Unmodified _RYFPDLDEL_ 0 0 0 REV__nc|ENSG00000168356|Q9UI33-2|SCN11A REV__nc|ENSG00000168356|Q9UI33-2|SCN11A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.289306640625 2 584.287671 1166.56079 3.4824 0.0020347 0.33497 0.00019572 3.8174 0.0022305 584.2876107940444 59.517 0.34495 59.776 59.596 59.941 0.2593 60 15 5 0 0 0 0.079031 1 27228 27228 37.974 0 1 7490800 + 29637 13345 19108 19166 33291 33291 -0.015828821105287716 RYFPDLDEL 9 Unmodified _RYFPDLDEL_ 0 0 0 REV__nc|ENSG00000168356|Q9UI33-2|SCN11A REV__nc|ENSG00000168356|Q9UI33-2|SCN11A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.2896118164062 2 584.287671 1166.56079 3.56 0.0020801 0.25806 0.00015078 3.8181 0.0022309 584.2875364397667 58.943 0.43345 59.61 59.378 59.811 0.66703 81 22 4 0 0 0 0.023109 3 27029 26924;26979;27029 64.236 16.488 1 7671300 + 29638 13345 19108 19166 33292;33293;33294 33294 -0.015828821105287716 RYFPDLDEL 9 Unmodified _RYFPDLDEL_ 0 0 0 REV__nc|ENSG00000168356|Q9UI33-2|SCN11A REV__nc|ENSG00000168356|Q9UI33-2|SCN11A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 584.287671 1166.56079 3.3684 0.0019681 0.71654 0.00041867 4.085 0.0023868 584.2876266374305 59.811 0.28165 59.811 59.624 59.905 0 0.14892 0.00043361 NaN 64.236 70 26 4 NaN NaN NaN NaN 0 NaN NaN 0 11220000 + 29639 13345 19108 19166 -0.015828821105287716 RYFPDLDEL 9 Unmodified _RYFPDLDEL_ 0 0 0 REV__nc|ENSG00000168356|Q9UI33-2|SCN11A REV__nc|ENSG00000168356|Q9UI33-2|SCN11A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 584.287671 1166.56079 2.9209 0.0017067 0.21795 0.00012735 3.1389 0.001834 584.2874259917168 58.692 0.25753 59.451 59.321 59.578 0.75894 -0.21067 -0.00014903 NaN 64.236 81 28 4 NaN NaN NaN NaN 0 NaN NaN 0 12540000 + 29640 13345 19108 19166 -0.015828821105287716 RYFPDLDEL 9 Unmodified _RYFPDLDEL_ 0 0 0 REV__nc|ENSG00000168356|Q9UI33-2|SCN11A REV__nc|ENSG00000168356|Q9UI33-2|SCN11A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 584.287671 1166.56079 3.4824 0.0020347 0.33497 0.00019572 3.8174 0.0022305 584.2876107940444 59.517 0.34495 59.776 59.596 59.941 0.2593 0.11401 -1.2285E-05 NaN 64.236 60 15 5 NaN NaN NaN NaN 0 NaN NaN 0 7490800 + 29641 13345 19108 19166 -0.015828821105287716 RYFPDLDEL 9 Unmodified _RYFPDLDEL_ 0 0 0 REV__nc|ENSG00000168356|Q9UI33-2|SCN11A REV__nc|ENSG00000168356|Q9UI33-2|SCN11A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 584.287671 1166.56079 3.56 0.0020801 0.25806 0.00015078 3.8181 0.0022309 584.2875364397667 58.943 0.43345 59.61 59.378 59.811 0.66703 -0.052258 -0.00010216 NaN 64.236 81 22 4 NaN NaN NaN NaN 0 NaN NaN 0 7671300 + 29642 13345 19108 19166 -0.015828821105287716 RYFYKQKRTKR 11 Unmodified _RYFYKQKRTKR_ 0 0 0 REV__nc|ENSG00000176444|P49760-3|CLK2 REV__nc|ENSG00000176444|P49760-3|CLK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 787.4566650390625 2 787.457333 1572.90011 NaN NaN NaN NaN NaN NaN NaN 43.009 1 43.009 42.509 43.509 0 0 0 0 1.0082 1 19581 19581 0 0 1 + 29643 13705 19109 19167 33295 33295 0.13657974965076392 RYFYKVHQL 9 Unmodified _RYFYKVHQL_ 0 0 0 nc|ENSG00000160058|Q9NW68-9|BSDC1;nc|ENSG00000160058|Q9NW68-4|BSDC1;nc|ENSG00000160058|Q9NW68-8|BSDC1;nc|ENSG00000160058|Q9NW68-2|BSDC1;ENSG00000160058|ENST00000455895|BSDC1;nc|ENSG00000160058|Q9NW68-7|BSDC1;nc|ENSG00000160058|Q9NW68-3|BSDC1 nc|ENSG00000160058|Q9NW68-9|BSDC1 nc|ENSG00000160058|Q9NW68-9|BSDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 418.5652770996094 3 418.564502 1252.67168 2.9835 0.0012488 0.06603 2.7638E-05 3.0496 0.0012764 418.89883481496094 27.43 0.14005 27.43 27.342 27.482 0 13 10 2 0 0 0 0.097139 1 12346 12346 33.445 24.201 1 626740 29644 4040 19110 19168 33296 33296 0.05544802388226344 RYFYKVHQL 9 Unmodified _RYFYKVHQL_ 0 0 0 nc|ENSG00000160058|Q9NW68-9|BSDC1;nc|ENSG00000160058|Q9NW68-4|BSDC1;nc|ENSG00000160058|Q9NW68-8|BSDC1;nc|ENSG00000160058|Q9NW68-2|BSDC1;ENSG00000160058|ENST00000455895|BSDC1;nc|ENSG00000160058|Q9NW68-7|BSDC1;nc|ENSG00000160058|Q9NW68-3|BSDC1 nc|ENSG00000160058|Q9NW68-9|BSDC1 nc|ENSG00000160058|Q9NW68-9|BSDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 418.566162109375 3 418.564502 1252.67168 2.6927 0.0011271 0.063944 2.6765E-05 2.7567 0.0011538 418.56449795541954 26.465 0.24476 27.244 27.116 27.361 0.7787 33 18 2 0 0 0 0.38625 1 11874 11874 14.405 6.7964 1 380890 29645 4040 19110 19168 33297 33297 0.05544802388226344 RYFYKVHQL 9 Unmodified _RYFYKVHQL_ 0 0 0 nc|ENSG00000160058|Q9NW68-9|BSDC1;nc|ENSG00000160058|Q9NW68-4|BSDC1;nc|ENSG00000160058|Q9NW68-8|BSDC1;nc|ENSG00000160058|Q9NW68-2|BSDC1;ENSG00000160058|ENST00000455895|BSDC1;nc|ENSG00000160058|Q9NW68-7|BSDC1;nc|ENSG00000160058|Q9NW68-3|BSDC1 nc|ENSG00000160058|Q9NW68-9|BSDC1 nc|ENSG00000160058|Q9NW68-9|BSDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 418.5660400390625 3 418.564502 1252.67168 NaN NaN NaN NaN NaN NaN NaN 27.468 1 27.731 27.231 28.231 0.26245 0 0 0 0.48891 1 12488 12488 19.362 11.206 1 29646 4040 19110 19168 33298 33298 0.05544802388226344 RYFYKVHQL 9 Unmodified _RYFYKVHQL_ 0 0 0 nc|ENSG00000160058|Q9NW68-9|BSDC1;nc|ENSG00000160058|Q9NW68-4|BSDC1;nc|ENSG00000160058|Q9NW68-8|BSDC1;nc|ENSG00000160058|Q9NW68-2|BSDC1;ENSG00000160058|ENST00000455895|BSDC1;nc|ENSG00000160058|Q9NW68-7|BSDC1;nc|ENSG00000160058|Q9NW68-3|BSDC1 nc|ENSG00000160058|Q9NW68-9|BSDC1 nc|ENSG00000160058|Q9NW68-9|BSDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 418.566162109375 3 418.564502 1252.67168 2.8892 0.0012093 0.23518 9.844E-05 3.1244 0.0013078 418.56444859029233 27.186 0.26314 27.807 27.645 27.908 0.62179 21 15 2 0 0 0 0.27615 2 12477 12426;12477 18.373 13.326 1 321080 29647 4040 19110 19168 33299;33300 33300 0.05544802388226344 RYGCAQCKLCS 11 Unmodified _RYGCAQCKLCS_ 0 0 0 REV__ENST00000487163.5_1_1:161131815-161133927:+|nuORF REV__ENST00000487163.5_1_1:161131815-161133927:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 411.1842956542969 3 411.184199 1230.53077 2.7841 0.0011448 -1.3514 -0.00055569 1.4326 0.00058907 411.1834902923429 37.505 0.39614 37.505 37.322 37.718 0 23 14 2 0 0 0 0.82535 1 17019 17019 2.6312 0 1 386990 + 29648 12359 19111 19169 33301 33301 -0.0752760364337064 RYGDGGSTF 9 Unmodified _RYGDGGSTF_ 0 0 0 HNRNPH1|p.H338Rfs*56|1|0.06|ENSG00000169045|chr5:179617557-179617558|AT/-|frameshift_variant;ENSG00000169045|ENST00000393432|HNRNPH1;ENST00000515481.5_1_5:179044503-179045371:-|nuORF;ENST00000502904.5_1_5:179043989-179045371:-|nuORF HNRNPH1|p.H338Rfs*56|1|0.06|ENSG00000169045|chr5:179617557-179617558|AT/-|frameshift_variant HNRNPH1|p.H338Rfs*56|1|0.06|ENSG00000169045|chr5:179617557-179617558|AT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.21588134765625 2 480.214506 958.414459 NaN NaN NaN NaN NaN NaN NaN 22.437 1 23.024 22.524 23.524 0.58739 0 0 0 0.088893 1 9981 9981 43.772 9.5851 1 29649 4667 19112 19170 33302 33302 -0.06641139555756581 RYGDVFQI 8 Unmodified _RYGDVFQI_ 0 0 0 ENSG00000138061|ENST00000610745|CYP1B1;CYP1B1|p.P253Rfs*25|1|0.16|ENSG00000138061|chr2:38074631-38074631|G/-|frameshift_variant ENSG00000138061|ENST00000610745|CYP1B1 ENSG00000138061|ENST00000610745|CYP1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.2605895996094 2 499.258717 996.50288 2.8867 0.0014412 0.11541 5.7621E-05 3.0021 0.0014988 499.2587808692036 59.328 0.2413 59.328 59.262 59.503 0 36 20 2 0 0 0 0.17174 2 27468 27413;27468 46.021 11.919 1 2298300 29650 3066 19113 19171 33303;33304 33304 0.004489007547249457 RYGDVFQI 8 Unmodified _RYGDVFQI_ 0 0 0 ENSG00000138061|ENST00000610745|CYP1B1;CYP1B1|p.P253Rfs*25|1|0.16|ENSG00000138061|chr2:38074631-38074631|G/-|frameshift_variant ENSG00000138061|ENST00000610745|CYP1B1 ENSG00000138061|ENST00000610745|CYP1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.26190185546875 2 499.258717 996.50288 2.7539 0.0013749 1.4892 0.0007435 4.2432 0.0021184 499.25946293426784 58.196 0.28909 58.964 58.854 59.143 0.76861 49 30 2 0 0 0 0.19187 1 26669 26669 43.858 11.553 1 3839800 29651 3066 19113 19171 33305 33305 0.004489007547249457 RYGDVFQI 8 Unmodified _RYGDVFQI_ 0 0 0 ENSG00000138061|ENST00000610745|CYP1B1;CYP1B1|p.P253Rfs*25|1|0.16|ENSG00000138061|chr2:38074631-38074631|G/-|frameshift_variant ENSG00000138061|ENST00000610745|CYP1B1 ENSG00000138061|ENST00000610745|CYP1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.2608337402344 2 499.258717 996.50288 3.231 0.0016131 1.1467 0.00057249 4.3777 0.0021856 499.259324539547 59.22 0.36622 59.479 59.254 59.62 0.2593 27 16 2 0 0 0 0.45971 1 27095 27095 24.021 2.2739 1 811760 29652 3066 19113 19171 33306 33306 0.004489007547249457 RYGDVFQI 8 Unmodified _RYGDVFQI_ 0 0 0 ENSG00000138061|ENST00000610745|CYP1B1;CYP1B1|p.P253Rfs*25|1|0.16|ENSG00000138061|chr2:38074631-38074631|G/-|frameshift_variant ENSG00000138061|ENST00000610745|CYP1B1 ENSG00000138061|ENST00000610745|CYP1B1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 499.258717 996.50288 3.2512 0.0016232 0.4211 0.00021024 3.6723 0.0018334 499.25893471021686 58.553 0.29945 59.22 59.052 59.352 0.66703 -0.027923 -0.00021971 NaN 46.021 17 11 2 NaN NaN NaN NaN 0 NaN NaN 0 876650 29653 3066 19113 19171 0.004489007547249457 RYGLLTNEI 9 Unmodified _RYGLLTNEI_ 0 0 0 ENST00000586522.5_1_17:40255624-40263910:-|nuORF;ENSG00000108771|ENST00000251642|DHX58 ENST00000586522.5_1_17:40255624-40263910:-|nuORF ENST00000586522.5_1_17:40255624-40263910:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.8002319335938 2 539.798206 1077.58186 NaN NaN NaN NaN NaN NaN NaN 55.181 1 55.447 54.947 55.947 0.26543 0 0 0 0.062126 1 25230 25230 49.933 19.296 1 29654 1647 19114 19172 33307 33307 0.046171279889904326 RYGLLTNEI 9 Unmodified _RYGLLTNEI_ 0 0 0 ENST00000586522.5_1_17:40255624-40263910:-|nuORF;ENSG00000108771|ENST00000251642|DHX58 ENST00000586522.5_1_17:40255624-40263910:-|nuORF ENST00000586522.5_1_17:40255624-40263910:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.8007202148438 2 539.798206 1077.58186 3.2224 0.0017394 0.16198 8.7437E-05 3.3844 0.0018269 539.7981118778337 54.37 0.20134 55.036 54.903 55.105 0.6665 17 10 2 0 0 0 0.044468 1 24861 24861 49.554 9.6046 1 1579900 29655 1647 19114 19172 33308 33308 0.046171279889904326 RYGLLTNEI 9 Unmodified _RYGLLTNEI_ 0 0 0 ENST00000586522.5_1_17:40255624-40263910:-|nuORF;ENSG00000108771|ENST00000251642|DHX58 ENST00000586522.5_1_17:40255624-40263910:-|nuORF ENST00000586522.5_1_17:40255624-40263910:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 539.798206 1077.58186 2.8243 0.0015246 -0.60851 -0.00032848 2.2158 0.0011961 539.7973619671316 53.95 0.33178 54.746 54.587 54.919 0.79552 -0.14523 -0.00061233 NaN 49.554 35 15 3 NaN NaN NaN NaN 0 NaN NaN 0 625230 29656 1647 19114 19172 0.046171279889904326 RYGLVTNEI 9 Unmodified _RYGLVTNEI_ 0 0 0 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.7918090820312 2 532.790381 1063.56621 2.9128 0.0015519 0.62785 0.00033451 3.5407 0.0018864 532.7906665544203 46.679 0.34074 46.679 46.502 46.842 0 27 12 3 0 0 0 0.015098 1 21351 21351 74.929 14.539 1 2553400 29657 1956 19115 19173 33309 33309 0.036968414719467546 RYGLVTNEI 9 Unmodified _RYGLVTNEI_ 0 0 0 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.29296875 2 532.790381 1063.56621 3.06 0.0016303 -0.6847 -0.0003648 2.3753 0.0012655 532.7900758277434 45.656 0.49732 46.482 46.133 46.631 0.82621 47 25 3 0 0 0 0.093314 2 20766 20766;20822 34.402 5.9149 1 2560700 29658 1956 19115 19173 33310;33311 33310 0.036968414719467546 RYGLVTNEI 9 Unmodified _RYGLVTNEI_ 0 0 0 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 532.7920532226562 2 532.790381 1063.56621 3.2569 0.0017353 -0.83919 -0.00044711 2.4177 0.0012882 532.7898686138711 46.601 0.71471 46.866 46.469 47.184 0.26561 53 25 3 0 0 0 0.0012766 2 21279 21279;21332 122.18 40.566 1 4887200 29659 1956 19115 19173 33312;33313 33312 0.036968414719467546 RYGLVTNEI 9 Unmodified _RYGLVTNEI_ 0 0 0 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.792724609375 2 532.790381 1063.56621 3.555 0.0018941 -0.19827 -0.00010564 3.3567 0.0017884 532.790253947958 46.005 0.61264 46.656 46.39 47.003 0.65104 49 21 4 0 0 0 0.0020791 2 21059 21059;21119 103.35 32.22 1 4286300 29660 1956 19115 19173 33314;33315 33314 0.036968414719467546 RYGNTPFLF 9 Unmodified _RYGNTPFLF_ 0 0 0 CHM|p.M554Kfs*5|1|0.05|ENSG00000188419|chrX:85873161-85873162|-/GTAGTACCATT|frameshift_variant;ENSG00000188419|ENST00000357749|CHM CHM|p.M554Kfs*5|1|0.05|ENSG00000188419|chrX:85873161-85873162|-/GTAGTACCATT|frameshift_variant CHM|p.M554Kfs*5|1|0.05|ENSG00000188419|chrX:85873161-85873162|-/GTAGTACCATT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.7903442382812 2 557.787641 1113.56073 3.8536 0.0021495 -0.039995 -2.2309E-05 3.8136 0.0021272 557.7876908546351 68.679 0.23567 68.932 68.816 69.052 0.25227 16 13 2 0 0 0 0.26277 1 31459 31459 19.257 1.122 1 307270 29661 118 19116 19174 33316 33316 0.008491626801287566 RYGNTPFLF 9 Unmodified _RYGNTPFLF_ 0 0 0 CHM|p.M554Kfs*5|1|0.05|ENSG00000188419|chrX:85873161-85873162|-/GTAGTACCATT|frameshift_variant;ENSG00000188419|ENST00000357749|CHM CHM|p.M554Kfs*5|1|0.05|ENSG00000188419|chrX:85873161-85873162|-/GTAGTACCATT|frameshift_variant CHM|p.M554Kfs*5|1|0.05|ENSG00000188419|chrX:85873161-85873162|-/GTAGTACCATT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.7908325195312 2 557.787641 1113.56073 3.4124 0.0019034 -0.055149 -3.0761E-05 3.3572 0.0018726 557.7879389730892 68.093 0.177 68.752 68.647 68.824 0.65924 16 11 2 0 0 0 0.41574 1 31201 31201 13.906 13.906 1 444830 29662 118 19116 19174 33317 33317 0.008491626801287566 RYGNTPFLF 9 Unmodified _RYGNTPFLF_ 0 0 0 CHM|p.M554Kfs*5|1|0.05|ENSG00000188419|chrX:85873161-85873162|-/GTAGTACCATT|frameshift_variant;ENSG00000188419|ENST00000357749|CHM CHM|p.M554Kfs*5|1|0.05|ENSG00000188419|chrX:85873161-85873162|-/GTAGTACCATT|frameshift_variant CHM|p.M554Kfs*5|1|0.05|ENSG00000188419|chrX:85873161-85873162|-/GTAGTACCATT|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 557.787641 1113.56073 3.8536 0.0021495 -0.039995 -2.2309E-05 3.8136 0.0021272 557.7876908546351 68.679 0.23567 68.932 68.816 69.052 0.25227 0.089621 9.0169E-06 NaN 19.257 16 13 2 NaN NaN NaN NaN 0 NaN NaN 0 307270 29663 118 19116 19174 0.008491626801287566 RYGPIVDVY 9 Unmodified _RYGPIVDVY_ 0 0 0 nc|ENSG00000188529|O75494-5|SRSF10;nc|ENSG00000188529|O75494-4|SRSF10;nc|ENSG00000188529|O75494-6|SRSF10;nc|ENSG00000188529|O75494-3|SRSF10;nc|ENSG00000188529|O75494-2|SRSF10;ENSG00000154548|ENST00000452027|SRSF12;ENSG00000188529|ENST00000492112|SRSF10 nc|ENSG00000188529|O75494-5|SRSF10 nc|ENSG00000188529|O75494-5|SRSF10 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.208740234375 2 541.287474 1080.5604 2.5107 0.001359 -0.33326 -0.00018039 2.1774 0.0011786 541.2872194503523 51.618 0.28922 52.429 52.267 52.557 0.81065 37 16 3 0 0 0 0.058713 1 23512 23512 29.082 13.234 1 1477900 29664 3828 19117 19175 33318 33318 0.023337429602634074 RYGPIVDVY 9 Unmodified _RYGPIVDVY_ 0 0 0 nc|ENSG00000188529|O75494-5|SRSF10;nc|ENSG00000188529|O75494-4|SRSF10;nc|ENSG00000188529|O75494-6|SRSF10;nc|ENSG00000188529|O75494-3|SRSF10;nc|ENSG00000188529|O75494-2|SRSF10;ENSG00000154548|ENST00000452027|SRSF12;ENSG00000188529|ENST00000492112|SRSF10 nc|ENSG00000188529|O75494-5|SRSF10 nc|ENSG00000188529|O75494-5|SRSF10 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 541.287474 1080.5604 3.3093 0.0017913 -0.29135 -0.0001577 3.018 0.0016336 541.2872728345621 52.639 0.32661 52.639 52.467 52.793 0 0.057094 -8.3377E-05 NaN 29.082 63 29 3 NaN NaN NaN NaN 0 NaN NaN 0 1652900 29665 3828 19117 19175 0.023337429602634074 RYGPIVDVY 9 Unmodified _RYGPIVDVY_ 0 0 0 nc|ENSG00000188529|O75494-5|SRSF10;nc|ENSG00000188529|O75494-4|SRSF10;nc|ENSG00000188529|O75494-6|SRSF10;nc|ENSG00000188529|O75494-3|SRSF10;nc|ENSG00000188529|O75494-2|SRSF10;ENSG00000154548|ENST00000452027|SRSF12;ENSG00000188529|ENST00000492112|SRSF10 nc|ENSG00000188529|O75494-5|SRSF10 nc|ENSG00000188529|O75494-5|SRSF10 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 541.287474 1080.5604 3.2754 0.0017729 -0.26276 -0.00014223 3.0126 0.0016307 541.2872030537001 52.421 0.16624 52.684 52.589 52.756 0.26344 0.10246 -5.2429E-05 NaN 29.082 11 6 2 NaN NaN NaN NaN 0 NaN NaN 0 475590 29666 3828 19117 19175 0.023337429602634074 RYGPIVDVY 9 Unmodified _RYGPIVDVY_ 0 0 0 nc|ENSG00000188529|O75494-5|SRSF10;nc|ENSG00000188529|O75494-4|SRSF10;nc|ENSG00000188529|O75494-6|SRSF10;nc|ENSG00000188529|O75494-3|SRSF10;nc|ENSG00000188529|O75494-2|SRSF10;ENSG00000154548|ENST00000452027|SRSF12;ENSG00000188529|ENST00000492112|SRSF10 nc|ENSG00000188529|O75494-5|SRSF10 nc|ENSG00000188529|O75494-5|SRSF10 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 541.287474 1080.5604 3.2056 0.0017351 -0.053265 -2.8832E-05 3.1523 0.0017063 541.2873404112014 51.913 0.23691 52.575 52.448 52.685 0.66198 -0.0067305 0.00017437 NaN 29.082 20 13 2 NaN NaN NaN NaN 0 NaN NaN 0 416970 29667 3828 19117 19175 0.023337429602634074 RYGSDFYSM 9 Unmodified _RYGSDFYSM_ 0 0 0 ENST00000584350.1_1_17:66246608-66253107:+|nuORF;nc|ENSG00000196704|Q86W34-5|AMZ2;ENSG00000196704|ENST00000359904|AMZ2 ENST00000584350.1_1_17:66246608-66253107:+|nuORF ENST00000584350.1_1_17:66246608-66253107:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.23974609375 2 563.237124 1124.45969 3.301 0.0018592 -0.57361 -0.00032308 2.7273 0.0015361 563.2368543025668 45.905 0.27641 45.905 45.659 45.935 0 27 12 3 0 0 0 0.093314 2 20946 20946;21005 34.402 16.255 1 1207100 29668 5772 19118 19176 33319;33320 33319 -0.09755657084883751 RYGSDFYSM 9 Unmodified _RYGSDFYSM_ 0 0 0 ENST00000584350.1_1_17:66246608-66253107:+|nuORF;nc|ENSG00000196704|Q86W34-5|AMZ2;ENSG00000196704|ENST00000359904|AMZ2 ENST00000584350.1_1_17:66246608-66253107:+|nuORF ENST00000584350.1_1_17:66246608-66253107:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.8282470703125 2 563.237124 1124.45969 3.3045 0.0018612 -0.061628 -3.4711E-05 3.2429 0.0018265 563.2370837051566 44.656 0.26566 45.477 45.368 45.633 0.82075 30 13 3 0 0 0 0.068676 1 20368 20368 26.268 11.43 1 1681000 29669 5772 19118 19176 33321 33321 -0.09755657084883751 RYGSDFYSM 9 Unmodified _RYGSDFYSM_ 0 0 0 ENST00000584350.1_1_17:66246608-66253107:+|nuORF;nc|ENSG00000196704|Q86W34-5|AMZ2;ENSG00000196704|ENST00000359904|AMZ2 ENST00000584350.1_1_17:66246608-66253107:+|nuORF ENST00000584350.1_1_17:66246608-66253107:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.238037109375 2 563.237124 1124.45969 3.5359 0.0019915 -0.38207 -0.0002152 3.1538 0.0017763 563.2369246441295 45.87 0.26344 46.136 46.001 46.265 0.26561 19 9 3 0 0 0 0.136 1 20986 20986 27.629 10.516 1 866590 29670 5772 19118 19176 33322 33322 -0.09755657084883751 RYGSDFYSM 9 Unmodified _RYGSDFYSM_ 0 0 0 ENST00000584350.1_1_17:66246608-66253107:+|nuORF;nc|ENSG00000196704|Q86W34-5|AMZ2;ENSG00000196704|ENST00000359904|AMZ2 ENST00000584350.1_1_17:66246608-66253107:+|nuORF ENST00000584350.1_1_17:66246608-66253107:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.2385864257812 2 563.237124 1124.45969 3.7818 0.00213 -0.32089 -0.00018074 3.4609 0.0019493 563.2370417653237 45.222 0.32743 45.873 45.751 46.078 0.65104 23 13 3 0 0 0 0.55815 1 20773 20773 11.495 5.2889 1 450380 29671 5772 19118 19176 33323 33323 -0.09755657084883751 RYHDKDRKERR 11 Unmodified _RYHDKDRKERR_ 0 0 0 REV__ENSG00000129292|ENST00000395386|PHF20L1 REV__ENSG00000129292|ENST00000395386|PHF20L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 779.9190673828125 2 779.919104 1557.82365 NaN NaN NaN NaN NaN NaN NaN 52.035 1 52.035 51.535 52.535 0 0 0 0 1.0082 1 23826 23826 0 0 1 + 29672 11782 19119 19177 33324 33324 0.06705551397794807 RYHKRVRRW 9 Unmodified _RYHKRVRRW_ 0 0 0 REV__ENST00000396757.5_1_9:35615990-35616170:-|nuORF REV__ENST00000396757.5_1_9:35615990-35616170:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 678.8984375 2 678.897246 1355.77994 NaN NaN NaN NaN NaN NaN NaN 40.205 1 41.006 40.506 41.506 0.80014 0 0 0 0.91238 1 18206 18206 0.52476 0.066424 1 + 29673 16007 19120 19178 33325 33325 0.11628031482018741 RYIANTVEL 9 Unmodified _RYIANTVEL_ 0 0 0 ENSG00000118705|ENST00000237530|RPN2;nc|ENSG00000118705|P04844-2|RPN2;RPN2|p.D355Y|1|0.26|ENSG00000118705|chr20:37213836-37213836|G/T|missense_variant ENSG00000118705|ENST00000237530|RPN2 ENSG00000118705|ENST00000237530|RPN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.8011474609375 2 539.798206 1077.58186 3.1363 0.001693 -0.10178 -5.494E-05 3.0345 0.001638 539.7981763371034 45.899 0.3999 45.899 45.711 46.111 0 65 20 4 0 0 0 0.010018 3 20954 20954;21010;21056 81.89 19.318 1 18332000 29674 2121 19121 19179 33326;33327;33328 33326 0.0461712798901317 RYIANTVEL 9 Unmodified _RYIANTVEL_ 0 0 0 ENSG00000118705|ENST00000237530|RPN2;nc|ENSG00000118705|P04844-2|RPN2;RPN2|p.D355Y|1|0.26|ENSG00000118705|chr20:37213836-37213836|G/T|missense_variant ENSG00000118705|ENST00000237530|RPN2 ENSG00000118705|ENST00000237530|RPN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.7996826171875 2 539.798206 1077.58186 3.0272 0.0016341 -0.12666 -6.8371E-05 2.9006 0.0015657 539.798180294589 44.814 0.42387 45.634 45.467 45.891 0.82074 67 19 5 0 0 0 0.0020408 2 20378 20378;20424 103.75 22.135 1 18825000 29675 2121 19121 19179 33329;33330 33329 0.0461712798901317 RYIANTVEL 9 Unmodified _RYIANTVEL_ 0 0 0 ENSG00000118705|ENST00000237530|RPN2;nc|ENSG00000118705|P04844-2|RPN2;RPN2|p.D355Y|1|0.26|ENSG00000118705|chr20:37213836-37213836|G/T|missense_variant ENSG00000118705|ENST00000237530|RPN2 ENSG00000118705|ENST00000237530|RPN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.7994995117188 2 539.798206 1077.58186 3.1109 0.0016793 0.096398 5.2036E-05 3.2073 0.0017313 539.7982269069819 45.704 0.32257 45.971 45.803 46.125 0.26768 41 12 4 0 0 0 0.0046538 2 20866 20866;20914 92.491 20.569 1 15650000 29676 2121 19121 19179 33331;33332 33331 0.0461712798901317 RYIANTVEL 9 Unmodified _RYIANTVEL_ 0 0 0 ENSG00000118705|ENST00000237530|RPN2;nc|ENSG00000118705|P04844-2|RPN2;RPN2|p.D355Y|1|0.26|ENSG00000118705|chr20:37213836-37213836|G/T|missense_variant ENSG00000118705|ENST00000237530|RPN2 ENSG00000118705|ENST00000237530|RPN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.800048828125 2 539.798206 1077.58186 3.5411 0.0019115 -0.098254 -5.3037E-05 3.4429 0.0018585 539.7980729017206 45.026 0.36707 45.676 45.515 45.882 0.64998 39 13 4 0 0 0 0.010018 2 20621 20621;20676 81.89 19.318 1 13559000 29677 2121 19121 19179 33333;33334 33333 0.0461712798901317 RYIAQVKHL 9 Unmodified _RYIAQVKHL_ 0 0 0 ENST00000267068.5_2_13:33110791-33110824:-|nuORF ENST00000267068.5_2_13:33110791-33110824:-|nuORF ENST00000267068.5_2_13:33110791-33110824:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.5617980957031 3 376.560981 1126.66111 2.8485 0.0010726 -0.38631 -0.00014547 2.4622 0.00092717 376.5608497425078 17.964 0.34051 17.964 17.773 18.114 0 68 26 3 0 0 0 0.001731 3 7973 7925;7973;8019 106.94 73.495 1 2238200 29678 6631 19122 19180 33335;33336;33337 33336 0.10284819733806216 RYIAQVKHL 9 Unmodified _RYIAQVKHL_ 0 0 0 ENST00000267068.5_2_13:33110791-33110824:-|nuORF ENST00000267068.5_2_13:33110791-33110824:-|nuORF ENST00000267068.5_2_13:33110791-33110824:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.5617370605469 3 376.560981 1126.66111 2.2663 0.00085339 0.18819 7.0867E-05 2.4545 0.00092426 376.5610440569817 17.566 0.25186 17.767 17.607 17.859 0.20057 58 21 3 0 0 0 0.0027913 2 7782 7737;7782 96.367 63.581 1 1901100 29679 6631 19122 19180 33338;33339 33339 0.10284819733806216 RYIAQVKHL 9 Unmodified _RYIAQVKHL_ 0 0 0 ENST00000267068.5_2_13:33110791-33110824:-|nuORF ENST00000267068.5_2_13:33110791-33110824:-|nuORF ENST00000267068.5_2_13:33110791-33110824:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.5620422363281 3 376.560981 1126.66111 2.5309 0.00095305 0.16989 6.3973E-05 2.7008 0.001017 376.5609881608051 14.634 0.31415 14.94 14.815 15.129 0.3069 79 24 4 0 0 0 0.001731 4 6593 6584;6593;6635;6679 106.94 66.99 1 1950700 29680 6631 19122 19180 33340;33341;33342;33343 33341 0.10284819733806216 RYIAQVKHL 9 Unmodified _RYIAQVKHL_ 0 0 0 ENST00000267068.5_2_13:33110791-33110824:-|nuORF ENST00000267068.5_2_13:33110791-33110824:-|nuORF ENST00000267068.5_2_13:33110791-33110824:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.56195068359375 3 376.560981 1126.66111 2.7677 0.0010422 0.28553 0.00010752 3.0533 0.0011497 376.56105874879825 14.735 0.38715 15.388 15.24 15.627 0.65356 90 35 3 0 0 0 0.0061394 4 6639 6592;6639;6676;6724 89.401 49.451 1 1363700 29681 6631 19122 19180 33344;33345;33346;33347 33345 0.10284819733806216 RYIASYLALT 10 Unmodified _RYIASYLALT_ 0 0 0 ACER3|p.V258Dfs*8|1|0.05|ENSG00000078124|chr11:77020295-77020296|-/ATATCAGAGAGTATTTTTAT|frameshift_variant;ENSG00000078124|ENST00000532485|ACER3;ACER3|p.I259Sfs*10|1|0.03|ENSG00000078124|chr11:77020297-77020298|-/AGTTTATTTAAATTTATTA|frameshift_variant;ENST00000527508.1_1_11:76637608-76709863:+|nuORF;ENST00000530334.5_1_11:76579304-76726162:+|nuORF ACER3|p.V258Dfs*8|1|0.05|ENSG00000078124|chr11:77020295-77020296|-/ATATCAGAGAGTATTTTTAT|frameshift_variant ACER3|p.V258Dfs*8|1|0.05|ENSG00000078124|chr11:77020295-77020296|-/ATATCAGAGAGTATTTTTAT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 391.5606994628906 3 390.888763 1169.64446 2.2894 0.00089489 1.3151 0.00051404 3.6044 0.0014089 391.22372348317117 57.595 0.2948 58.363 58.226 58.521 0.76861 59 24 4 0 0 0 0.85597 2 26352 26352;26373 5.7834 1.5939 1 2777300 29682 6 19123 19181 33348;33349 33348 0.06642274057162467 RYIASYLALT 10 Unmodified _RYIASYLALT_ 0 0 0 ACER3|p.V258Dfs*8|1|0.05|ENSG00000078124|chr11:77020295-77020296|-/ATATCAGAGAGTATTTTTAT|frameshift_variant;ENSG00000078124|ENST00000532485|ACER3;ACER3|p.I259Sfs*10|1|0.03|ENSG00000078124|chr11:77020297-77020298|-/AGTTTATTTAAATTTATTA|frameshift_variant;ENST00000527508.1_1_11:76637608-76709863:+|nuORF;ENST00000530334.5_1_11:76579304-76726162:+|nuORF ACER3|p.V258Dfs*8|1|0.05|ENSG00000078124|chr11:77020295-77020296|-/ATATCAGAGAGTATTTTTAT|frameshift_variant ACER3|p.V258Dfs*8|1|0.05|ENSG00000078124|chr11:77020295-77020296|-/ATATCAGAGAGTATTTTTAT|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 390.888763 1169.64446 2.8755 0.001124 1.1387 0.00044509 4.0142 0.0015691 390.889084057397 58.151 0.22031 58.413 58.213 58.433 0.26227 0.024964 -8.771E-05 NaN 5.7834 22 11 3 NaN NaN NaN NaN 0 NaN NaN 0 1369500 29683 6 19123 19181 0.06642274057162467 RYIDRIHIF 9 Unmodified _RYIDRIHIF_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 411.5696105957031 3 411.568135 1231.68258 2.7561 0.0011343 0.40086 0.00016498 3.157 0.0012993 411.5681886927218 48.372 0.4135 48.372 48.168 48.581 0 87 26 4 0 0 0 0.031228 2 22186 22105;22186 55.235 53.47 1 5245500 29684 4968 19124 19182 33350;33351 33351 0.07600204762502472 RYIDRIHIF 9 Unmodified _RYIDRIHIF_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 411.5693054199219 3 411.568135 1231.68258 2.5653 0.0010558 0.39705 0.00016341 2.9623 0.0012192 411.5682722515548 47.252 0.36971 48.082 47.878 48.248 0.82915 57 21 4 0 0 0 0.023885 3 21529 21487;21529;21582 63.227 50.355 1 4732900 29685 4968 19124 19182 33352;33353;33354 33353 0.07600204762502472 RYIDRIHIF 9 Unmodified _RYIDRIHIF_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 411.56939697265625 3 411.568135 1231.68258 3.1361 0.0012907 0.16788 6.9095E-05 3.304 0.0013598 411.56817368168845 48.253 0.29219 48.515 48.347 48.639 0.26209 35 15 3 0 0 0 0.094033 2 22079 22026;22079 34.222 24.678 1 2454300 29686 4968 19124 19182 33355;33356 33356 0.07600204762502472 RYIDRIHIF 9 Unmodified _RYIDRIHIF_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 411.5697021484375 3 411.568135 1231.68258 2.9983 0.001234 0.84552 0.00034799 3.8438 0.001582 411.56834397136674 47.632 0.39571 48.285 48.113 48.508 0.65356 45 17 3 0 0 0 0.039961 2 21783 21783;21834 51.488 41.724 1 1631700 29687 4968 19124 19182 33357;33358 33357 0.07600204762502472 RYIDRIHIFF 10 Unmodified _RYIDRIHIFF_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 460.9266357421875 3 460.59094 1378.75099 2.3614 0.0010876 0.58803 0.00027084 2.9494 0.0013585 460.59124712198565 62.879 0.28777 62.879 62.74 63.028 0 88 33 3 0 0 0 0.18287 2 29562 29499;29562 41.347 29.716 1 15033000 29688 4968 19125 19183 33359;33360 33360 0.07676449342352498 RYIDRIHIFF 10 Unmodified _RYIDRIHIFF_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 460.5924987792969 3 460.59094 1378.75099 2.6089 0.0012016 0.34681 0.00015974 2.9557 0.0013614 460.5910168770424 63.011 0.32502 63.26 63.11 63.435 0.24965 59 18 4 0 0 0 0.23581 3 28872 28830;28872;28918 35.08 26.793 1 4179700 29689 4968 19125 19183 33361;33362;33363 33362 0.07676449342352498 RYIDRIHIFF 10 Unmodified _RYIDRIHIFF_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 460.59222412109375 3 460.59094 1378.75099 2.6915 0.0012397 0.059454 2.7384E-05 2.751 0.0012671 460.5909863076385 62.419 0.37136 63.079 62.877 63.249 0.66008 75 25 4 0 0 0 0.42358 1 28619 28619 23.964 17.73 1 4567500 29690 4968 19125 19183 33364 33364 0.07676449342352498 RYIDTHNRV 9 Unmodified _RYIDTHNRV_ 0 0 0 ENSG00000145632|ENST00000274289|PLK2;ENST00000502671.5_1_5:57749965-57753328:-|nuORF ENSG00000145632|ENST00000274289|PLK2 ENSG00000145632|ENST00000274289|PLK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 391.8765869140625 3 391.875628 1172.60505 2.7824 0.0010903 -0.16818 -6.5904E-05 2.6142 0.0010244 391.87555921338367 12.734 0.13073 12.734 12.675 12.806 0 21 7 4 0 0 0 0.0012799 1 5553 5553 121.93 46.359 1 12906000 29691 3478 19126 19184 33365 33365 0.025655668263198095 RYIDTHNRV 9 Unmodified _RYIDTHNRV_ 0 0 0 ENSG00000145632|ENST00000274289|PLK2;ENST00000502671.5_1_5:57749965-57753328:-|nuORF ENSG00000145632|ENST00000274289|PLK2 ENSG00000145632|ENST00000274289|PLK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 391.876220703125 3 391.875628 1172.60505 2.0807 0.00081537 -0.33989 -0.00013319 1.7408 0.00068218 391.8755560996346 12.506 0.067352 12.768 12.737 12.804 0.26154 25 10 3 0 0 0 0.0012799 1 5418 5418 121.93 46.359 1 21046000 29692 3478 19126 19184 33366 33366 0.025655668263198095 RYIDTHNRV 9 Unmodified _RYIDTHNRV_ 0 0 0 ENSG00000145632|ENST00000274289|PLK2;ENST00000502671.5_1_5:57749965-57753328:-|nuORF ENSG00000145632|ENST00000274289|PLK2 ENSG00000145632|ENST00000274289|PLK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.8919372558594 3 391.875628 1172.60505 2.1693 0.00085009 0.55229 0.00021643 2.7216 0.0010665 391.8759824912193 12.5 0.097315 12.807 12.751 12.848 0.30727 8 3 3 0 0 0 0.0041939 2 5630 5630;5643 93.448 34.396 1 6380200 29693 3478 19126 19184 33367;33368 33367 0.025655668263198095 RYIDTHNRV 9 Unmodified _RYIDTHNRV_ 0 0 0 ENSG00000145632|ENST00000274289|PLK2;ENST00000502671.5_1_5:57749965-57753328:-|nuORF ENSG00000145632|ENST00000274289|PLK2 ENSG00000145632|ENST00000274289|PLK2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 391.875628 1172.60505 3.1927 0.0012511 -0.0098492 -3.8597E-06 3.1829 0.0012473 391.8755798963356 12.462 0.074265 13.104 13.047 13.121 0.64272 0.2509 3.5195E-05 NaN 121.93 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 4311900 29694 3478 19126 19184 0.025655668263198095 RYIFAKNLF 9 Unmodified _RYIFAKNLF_ 0 0 0 nc|ENSG00000114956|Q16854-3|DGUOK;nc|ENSG00000114956|Q16854-5|DGUOK;ENSG00000114956|ENST00000264093|DGUOK nc|ENSG00000114956|Q16854-3|DGUOK nc|ENSG00000114956|Q16854-3|DGUOK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 586.3356323242188 2 586.334759 1170.65496 3.0196 0.0017705 -0.93996 -0.00055113 2.0796 0.0012194 586.334710921029 57.571 0.17687 58.339 58.247 58.424 0.76861 25 12 3 0 0 0 0.049036 1 26374 26374 61.357 29.052 1 1227600 29695 1933 19127 19185 33369 33369 0.07646301502268216 RYIFAKNLF 9 Unmodified _RYIFAKNLF_ 0 0 0 nc|ENSG00000114956|Q16854-3|DGUOK;nc|ENSG00000114956|Q16854-5|DGUOK;ENSG00000114956|ENST00000264093|DGUOK nc|ENSG00000114956|Q16854-3|DGUOK nc|ENSG00000114956|Q16854-3|DGUOK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.3352661132812 2 586.334759 1170.65496 NaN NaN NaN NaN NaN NaN NaN 57.993 1 58.661 58.161 59.161 0.66829 0 0 0 0.056457 1 26540 26540 57.471 28.39 1 29696 1933 19127 19185 33370 33370 0.07646301502268216 RYIKALETL 9 Unmodified _RYIKALETL_ 0 0 0 nc|ENSG00000113522|Q92878-3|RAD50;ENSG00000113522|ENST00000378823|RAD50;nc|ENSG00000113522|Q92878-2|RAD50;RAD50|p.H531Qfs*10|1|0.24|ENSG00000113522|chr5:132591362-132591365|CATA/-|frameshift_variant nc|ENSG00000113522|Q92878-3|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.8330688476562 2 553.832049 1105.64954 3.5628 0.0019732 -0.30306 -0.00016784 3.2597 0.0018053 553.8315523738406 40.644 0.22854 40.644 40.598 40.826 0 16 11 2 0 0 0 0.0079462 1 18465 18465 85.642 29.464 1 2869000 29697 1858 19128 19186 33371 33371 0.10094577919812764 RYIKALETL 9 Unmodified _RYIKALETL_ 0 0 0 nc|ENSG00000113522|Q92878-3|RAD50;ENSG00000113522|ENST00000378823|RAD50;nc|ENSG00000113522|Q92878-2|RAD50;RAD50|p.H531Qfs*10|1|0.24|ENSG00000113522|chr5:132591362-132591365|CATA/-|frameshift_variant nc|ENSG00000113522|Q92878-3|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.8328857421875 2 553.832049 1105.64954 3.2741 0.0018133 -0.32933 -0.00018239 2.9447 0.0016309 553.8318529376456 39.697 0.29101 40.497 40.337 40.628 0.80014 31 14 3 0 0 0 0.048676 2 17954 17954;18004 47.749 10.547 1 1806900 29698 1858 19128 19186 33372;33373 33372 0.10094577919812764 RYIKALETL 9 Unmodified _RYIKALETL_ 0 0 0 nc|ENSG00000113522|Q92878-3|RAD50;ENSG00000113522|ENST00000378823|RAD50;nc|ENSG00000113522|Q92878-2|RAD50;RAD50|p.H531Qfs*10|1|0.24|ENSG00000113522|chr5:132591362-132591365|CATA/-|frameshift_variant nc|ENSG00000113522|Q92878-3|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.8355712890625 2 553.832049 1105.64954 3.7142 0.002057 0.2872 0.00015906 4.0014 0.0022161 553.832192047131 40.507 0.24685 40.776 40.644 40.891 0.26904 12 8 2 0 0 0 0.02631 1 18423 18423 60.074 20.124 1 1297000 29699 1858 19128 19186 33374 33374 0.10094577919812764 RYIKALETL 9 Unmodified _RYIKALETL_ 0 0 0 nc|ENSG00000113522|Q92878-3|RAD50;ENSG00000113522|ENST00000378823|RAD50;nc|ENSG00000113522|Q92878-2|RAD50;RAD50|p.H531Qfs*10|1|0.24|ENSG00000113522|chr5:132591362-132591365|CATA/-|frameshift_variant nc|ENSG00000113522|Q92878-3|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.833984375 2 553.832049 1105.64954 NaN NaN NaN NaN NaN NaN NaN 40.052 1 40.693 40.193 41.193 0.64136 0 0 0 0.069424 1 18300 18300 47.749 7.799 1 29700 1858 19128 19186 33375 33375 0.10094577919812764 RYILEPFFI 9 Unmodified _RYILEPFFI_ 0 0 0 ENSG00000151012|ENST00000280612|SLC7A11 ENSG00000151012|ENST00000280612|SLC7A11 ENSG00000151012|ENST00000280612|SLC7A11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 599.3414916992188 2 599.336967 1196.65938 4.1893 0.0025108 -0.23592 -0.00014139 3.9534 0.0023694 599.3365336714561 91.3 0.2575 91.552 91.45 91.708 0.25163 22 9 3 0 0 0 0.029308 2 41997 41984;41997 56.177 27.69 1 938710 29701 3687 19129 19187 33376;33377 33377 0.0689176592518379 RYILEPFFI 9 Unmodified _RYILEPFFI_ 0 0 0 ENSG00000151012|ENST00000280612|SLC7A11 ENSG00000151012|ENST00000280612|SLC7A11 ENSG00000151012|ENST00000280612|SLC7A11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 599.3392944335938 2 599.336967 1196.65938 4.1507 0.0024877 -0.70522 -0.00042267 3.4455 0.002065 599.3361021704645 90.634 0.27863 91.307 91.19 91.469 0.67271 32 15 3 0 0 0 0.029308 1 41734 41734 56.177 34.43 1 765960 29702 3687 19129 19187 33378 33378 0.0689176592518379 RYILYWRKRFT 11 Unmodified _RYILYWRKRFT_ 0 0 0 ENSG00000198839|ENST00000361822|ZNF277;ZNF277|p.C178Afs*13|1|0.16|ENSG00000198839|chr7:112318245-112318245|T/-|frameshift_variant ENSG00000198839|ENST00000361822|ZNF277 ENSG00000198839|ENST00000361822|ZNF277 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 801.4561767578125 2 801.456802 1600.89905 NaN NaN NaN NaN NaN NaN NaN 86.754 1 86.785 86.285 87.285 0.030289 0 0 0 1.0082 1 43736 43736 0 0 1 29703 5948 19130 19188 33379 33379 0.12263760596169959 RYIPTAAAF 9 Unmodified _RYIPTAAAF_ 0 0 0 nc|ENSG00000058262|P61619-3|SEC61A1;ENSG00000058262|ENST00000243253|SEC61A1;ENST00000498837.1_1_3:127786720-127788502:+|nuORF;nc|ENSG00000065665|Q9H9S3-3|SEC61A2;ENSG00000065665|ENST00000298428|SEC61A2 nc|ENSG00000058262|P61619-3|SEC61A1 nc|ENSG00000058262|P61619-3|SEC61A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.2787780761719 2 505.276909 1008.53927 3.0829 0.0015577 -0.0243 -1.2278E-05 3.0586 0.0015455 505.2770910816148 48.259 0.67809 48.259 48.011 48.689 0 129 39 5 0 0 0 0.0023958 3 22099 22039;22099;22145 123.45 62.093 1 45465000 29704 630 19131 19189 33380;33381;33382 33381 0.035337776513983954 RYIPTAAAF 9 Unmodified _RYIPTAAAF_ 0 0 0 nc|ENSG00000058262|P61619-3|SEC61A1;ENSG00000058262|ENST00000243253|SEC61A1;ENST00000498837.1_1_3:127786720-127788502:+|nuORF;nc|ENSG00000065665|Q9H9S3-3|SEC61A2;ENSG00000065665|ENST00000298428|SEC61A2 nc|ENSG00000058262|P61619-3|SEC61A1 nc|ENSG00000058262|P61619-3|SEC61A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.27874755859375 2 505.276909 1008.53927 2.9689 0.0015001 0.40119 0.00020271 3.3701 0.0017028 505.27735730052416 47.214 0.77393 48.043 47.793 48.567 0.82915 122 46 5 0 0 0 0.0057865 3 21549 21441;21492;21549 99.799 40.223 1 38142000 29705 630 19131 19189 33383;33384;33385 33385 0.035337776513983954 RYIPTAAAF 9 Unmodified _RYIPTAAAF_ 0 0 0 nc|ENSG00000058262|P61619-3|SEC61A1;ENSG00000058262|ENST00000243253|SEC61A1;ENST00000498837.1_1_3:127786720-127788502:+|nuORF;nc|ENSG00000065665|Q9H9S3-3|SEC61A2;ENSG00000065665|ENST00000298428|SEC61A2 nc|ENSG00000058262|P61619-3|SEC61A1 nc|ENSG00000058262|P61619-3|SEC61A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.2787170410156 2 505.276909 1008.53927 3.4084 0.0017222 0.1849 9.3425E-05 3.5933 0.0018156 505.2772707459838 48.179 0.76322 48.442 48.216 48.979 0.26209 85 38 5 0 0 0 0.0023958 4 22024 21968;22012;22024;22077 111.29 49.93 1 22489000 29706 630 19131 19189 33386;33387;33388;33389 33388 0.035337776513983954 RYIPTAAAF 9 Unmodified _RYIPTAAAF_ 0 0 0 nc|ENSG00000058262|P61619-3|SEC61A1;ENSG00000058262|ENST00000243253|SEC61A1;ENST00000498837.1_1_3:127786720-127788502:+|nuORF;nc|ENSG00000065665|Q9H9S3-3|SEC61A2;ENSG00000065665|ENST00000298428|SEC61A2 nc|ENSG00000058262|P61619-3|SEC61A1 nc|ENSG00000058262|P61619-3|SEC61A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.2791748046875 2 505.276909 1008.53927 3.275 0.0016548 0.3082 0.00015573 3.5833 0.0018105 505.27728603547246 47.605 1.0388 48.259 47.776 48.815 0.65356 99 44 5 0 0 0 0.0023958 3 21780 21726;21780;21832 111.29 49.93 1 21156000 29707 630 19131 19189 33390;33391;33392 33391 0.035337776513983954 RYIRDAHTF 9 Unmodified _RYIRDAHTF_ 0 0 0 ENSG00000160007|ENST00000672722|ARHGAP35 ENSG00000160007|ENST00000672722|ARHGAP35 ENSG00000160007|ENST00000672722|ARHGAP35 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.5412292480469 3 393.540357 1177.59924 2.6731 0.001052 -0.18243 -7.1792E-05 2.4907 0.00098017 393.5403448571467 16.771 1.0253 16.771 15.99 17.015 0 303 127 3 0 0 0 0.088474 7 7391 7123;7205;7251;7297;7343;7391;7496 35.612 30.703 1 689810 29708 4038 19132 19190 33393;33394;33395;33396;33397;33398;33399 33398 0.017544683146297757 RYIRDAHTF 9 Unmodified _RYIRDAHTF_ 0 0 0 ENSG00000160007|ENST00000672722|ARHGAP35 ENSG00000160007|ENST00000672722|ARHGAP35 ENSG00000160007|ENST00000672722|ARHGAP35 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 393.5412902832031 3 393.540357 1177.59924 2.5715 0.001012 0.11854 4.6652E-05 2.6901 0.0010586 393.5404357624468 14.96 0.42979 15.187 14.994 15.423 0.22622 146 46 4 0 0 0 0.017449 3 6578 6532;6578;6622 71.708 46.717 1 1594100 29709 4038 19132 19190 33400;33401;33402 33401 0.017544683146297757 RYIRDAHTF 9 Unmodified _RYIRDAHTF_ 0 0 0 ENSG00000160007|ENST00000672722|ARHGAP35 ENSG00000160007|ENST00000672722|ARHGAP35 ENSG00000160007|ENST00000672722|ARHGAP35 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.54107666015625 3 393.540357 1177.59924 NaN NaN NaN NaN NaN NaN NaN 14.298 1 14.605 14.105 15.105 0.3069 0 0 0 0.078346 1 6471 6471 45.74 25.753 1 29710 4038 19132 19190 33403 33403 0.017544683146297757 RYIRDAHTF 9 Unmodified _RYIRDAHTF_ 0 0 0 ENSG00000160007|ENST00000672722|ARHGAP35 ENSG00000160007|ENST00000672722|ARHGAP35 ENSG00000160007|ENST00000672722|ARHGAP35 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.54132080078125 3 393.540357 1177.59924 2.9478 0.0011601 0.26863 0.00010572 3.2165 0.0012658 393.8746804655548 14.287 0.1061 14.935 14.876 14.982 0.64819 22 13 2 0 0 0 0.031228 1 6422 6422 55.235 39.696 1 1976100 29711 4038 19132 19190 33404 33404 0.017544683146297757 RYISPDQLADL 11 Unmodified _RYISPDQLADL_ 0 0 0 nc|ENSG00000074800|P06733-2|ENO1;ENST00000464920.1_1_1:8921421-8930582:-|nuORF;ENSG00000074800|ENST00000234590|ENO1 nc|ENSG00000074800|P06733-2|ENO1 nc|ENSG00000074800|P06733-2|ENO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 645.8383178710938 2 645.838059 1289.66157 3.9476 0.0025495 0.12143 7.8423E-05 4.069 0.0026279 645.8380846621864 60.132 0.18809 60.797 60.772 60.96 0.66503 19 11 2 0 0 0 0.079902 1 27578 27578 46.022 22.233 1 1078000 29712 822 19133 19191 33405 33405 0.02832149872347145 RYKEKVAEL 9 Unmodified _RYKEKVAEL_ 0 0 0 nc|ENSG00000136504|O95251-3|KAT7;nc|ENSG00000136504|O95251-5|KAT7;nc|ENSG00000136504|O95251-2|KAT7;nc|ENSG00000136504|O95251-4|KAT7;ENSG00000136504|ENST00000259021|KAT7 nc|ENSG00000136504|O95251-3|KAT7 nc|ENSG00000136504|O95251-3|KAT7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.22119140625 3 379.220513 1134.63971 2.7792 0.0010539 -0.27886 -0.00010575 2.5004 0.0009482 379.55450967845604 14.026 0.10594 14.026 13.971 14.077 0 12 5 3 0 0 0 0.12685 1 6176 6176 28.234 11.185 1 522950 29713 2953 19134 19192 33406 33406 0.07777389914417654 RYKEKVAEL 9 Unmodified _RYKEKVAEL_ 0 0 0 nc|ENSG00000136504|O95251-3|KAT7;nc|ENSG00000136504|O95251-5|KAT7;nc|ENSG00000136504|O95251-2|KAT7;nc|ENSG00000136504|O95251-4|KAT7;ENSG00000136504|ENST00000259021|KAT7 nc|ENSG00000136504|O95251-3|KAT7 nc|ENSG00000136504|O95251-3|KAT7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.22216796875 3 379.220513 1134.63971 2.211 0.00083846 1.153 0.00043723 3.364 0.0012757 379.22103600529687 13.422 0.16685 13.666 13.549 13.716 0.24346 22 13 2 0 0 0 0.63753 1 5865 5865 10.151 3.9587 1 375730 29714 2953 19134 19192 33407 33407 0.07777389914417654 RYKEKVAEL 9 Unmodified _RYKEKVAEL_ 0 0 0 nc|ENSG00000136504|O95251-3|KAT7;nc|ENSG00000136504|O95251-5|KAT7;nc|ENSG00000136504|O95251-2|KAT7;nc|ENSG00000136504|O95251-4|KAT7;ENSG00000136504|ENST00000259021|KAT7 nc|ENSG00000136504|O95251-3|KAT7 nc|ENSG00000136504|O95251-3|KAT7 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 379.220513 1134.63971 2.3026 0.00087319 0.70023 0.00026554 3.0028 0.0011387 379.22072566907093 13.339 0.19831 13.646 13.554 13.752 0.30727 -0.086956 5.4629E-05 NaN 28.234 26 15 2 NaN NaN NaN NaN 0 NaN NaN 0 102030 29715 2953 19134 19192 0.07777389914417654 RYKEKVAEL 9 Unmodified _RYKEKVAEL_ 0 0 0 nc|ENSG00000136504|O95251-3|KAT7;nc|ENSG00000136504|O95251-5|KAT7;nc|ENSG00000136504|O95251-2|KAT7;nc|ENSG00000136504|O95251-4|KAT7;ENSG00000136504|ENST00000259021|KAT7 nc|ENSG00000136504|O95251-3|KAT7 nc|ENSG00000136504|O95251-3|KAT7 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 379.220513 1134.63971 2.9296 0.001111 0.29003 0.00010998 3.2196 0.001221 379.2206048472346 12.952 0.19316 13.595 13.48 13.673 0.64272 -0.13855 -0.00041204 NaN 28.234 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 249650 29716 2953 19134 19192 0.07777389914417654 RYKGPGFEYF 10 Unmodified _RYKGPGFEYF_ 0 0 0 nc|ENSG00000166133|Q8IZ73-2|RPUSD2;ENSG00000166133|ENST00000315616|RPUSD2 nc|ENSG00000166133|Q8IZ73-2|RPUSD2 nc|ENSG00000166133|Q8IZ73-2|RPUSD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 632.3147583007812 2 632.31148 1262.60841 3.7493 0.0023708 0.17908 0.00011323 3.9284 0.002484 632.3117889033166 49.475 0.32317 49.475 49.344 49.667 0 20 12 2 0 0 0 0.15015 2 22659 22659;22717 45.7 16.618 1 595950 29717 4452 19135 19193 33408;33409 33408 -0.012391831196737257 RYKGPGFEYF 10 Unmodified _RYKGPGFEYF_ 0 0 0 nc|ENSG00000166133|Q8IZ73-2|RPUSD2;ENSG00000166133|ENST00000315616|RPUSD2 nc|ENSG00000166133|Q8IZ73-2|RPUSD2 nc|ENSG00000166133|Q8IZ73-2|RPUSD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.3141479492188 2 632.31148 1262.60841 3.4739 0.0021966 -1.5667 -0.00099064 1.9072 0.0012059 632.3105998376833 48.162 0.21596 48.992 48.875 49.091 0.82915 16 10 2 0 0 0 0.26801 1 21955 21955 31.268 19.028 1 356770 29718 4452 19135 19193 33410 33410 -0.012391831196737257 RYKGPGFEYF 10 Unmodified _RYKGPGFEYF_ 0 0 0 nc|ENSG00000166133|Q8IZ73-2|RPUSD2;ENSG00000166133|ENST00000315616|RPUSD2 nc|ENSG00000166133|Q8IZ73-2|RPUSD2 nc|ENSG00000166133|Q8IZ73-2|RPUSD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 632.3158569335938 2 632.31148 1262.60841 3.7921 0.0023978 1.3147 0.00083128 5.1068 0.0032291 632.311750662772 49.554 0.27478 49.815 49.671 49.946 0.26146 12 10 2 0 0 0 0.63441 1 22665 22665 16.149 7.9936 1 235600 29719 4452 19135 19193 33411 33411 -0.012391831196737257 RYKKKLLCRIK 11 Unmodified _RYKKKLLCRIK_ 0 0 0 REV__ENST00000367450.7_1_1:192992066-192992111:-|nuORF REV__ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.9876708984375 4 362.986612 1447.91734 2.2765 0.00082634 0.26145 9.4903E-05 2.5379 0.00092124 362.9865758611249 46.573 1.0329 47.402 47.374 48.407 0.82915 90 68 2 0 0 0 0.91345 1 21338 21338 0.45452 0.29519 1 2531000 + 29720 15656 19136 19194 33412 33412 0.21130179246574698 RYKKKLLCRIK 11 Unmodified _RYKKKLLCRIK_ 0 0 0 REV__ENST00000367450.7_1_1:192992066-192992111:-|nuORF REV__ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 362.986612 1447.91734 2.4507 0.00088958 0.066916 2.429E-05 2.5176 0.00091387 363.2374965584131 47.645 0.22406 47.645 47.441 47.665 0 0.14886 -0.00043792 NaN 0.45452 27 15 2 NaN NaN NaN NaN 0 NaN NaN 0 5161800 + 29721 15656 19136 19194 0.21130179246574698 RYKKKLLCRIK 11 Unmodified _RYKKKLLCRIK_ 0 0 0 REV__ENST00000367450.7_1_1:192992066-192992111:-|nuORF REV__ENST00000367450.7_1_1:192992066-192992111:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 362.986612 1447.91734 2.2765 0.00082634 0.26145 9.4903E-05 2.5379 0.00092124 362.9865758611249 46.573 1.0329 47.402 47.374 48.407 0.82915 -0.094054 -0.00015547 NaN 0.45452 90 68 2 NaN NaN NaN NaN 0 NaN NaN 0 2531000 + 29722 15656 19136 19194 0.21130179246574698 RYKLYQEMF 9 Unmodified _RYKLYQEMF_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 426.8855285644531 3 426.549753 1276.62743 2.8667 0.0012228 -0.52304 -0.0002231 2.3437 0.00099971 426.54957670296847 49.019 0.312 49.019 48.859 49.171 0 49 16 4 0 0 0 0.079031 2 22434 22434;22483 28.495 17.695 1 1780100 29723 282 19137 19195 33413;33414 33413 0.000180301797172433 RYKLYQEMF 9 Unmodified _RYKLYQEMF_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 639.3250732421875 2 639.320991 1276.62743 3.7512 0.0023982 -0.37354 -0.00023881 3.3777 0.0021594 639.3206346282789 49.034 0.29548 49.034 48.859 49.154 0 37 15 3 0 0 0 0.043585 2 22436 22436;22489 49.933 26.591 1 1534000 29724 282 19137 19195 33415;33416 33415 0.000180301797172433 RYKLYQEMF 9 Unmodified _RYKLYQEMF_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 639.3229370117188 2 639.320991 1276.62743 3.4851 0.0022281 -0.39463 -0.0002523 3.0905 0.0019758 639.3208851723288 47.68 0.34991 48.509 48.318 48.668 0.82915 41 18 3 0 0 0 0.057744 2 21683 21683;21735 43.858 29.952 1 1160000 29725 282 19137 19195 33417;33418 33417 0.000180301797172433 RYKLYQEMF 9 Unmodified _RYKLYQEMF_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 426.8857421875 3 426.549753 1276.62743 2.6655 0.001137 -0.17178 -7.3275E-05 2.4938 0.0010637 426.54970973381444 47.674 0.34991 48.503 48.318 48.668 0.82915 55 18 4 0 0 0 0.10837 2 21691 21691;21747 22.658 19.071 1 1546200 29726 282 19137 19195 33419;33420 33419 0.000180301797172433 RYKLYQEMF 9 Unmodified _RYKLYQEMF_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 426.5503845214844 3 426.549753 1276.62743 3.0267 0.001291 -0.69854 -0.00029796 2.3281 0.00099306 426.54958513422724 49.042 0.3674 49.304 49.06 49.427 0.26167 30 13 3 0 0 0 0.19064 2 22380 22380;22440 22.658 18.469 1 1281000 29727 282 19137 19195 33421;33422 33421 0.000180301797172433 RYKLYQEMF 9 Unmodified _RYKLYQEMF_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 639.3240356445312 2 639.320991 1276.62743 3.881 0.0024812 -0.35707 -0.00022828 3.5239 0.0022529 639.3209076738824 49.005 0.35864 49.268 49.088 49.446 0.2621 28 13 3 0 0 0 0.024388 2 22385 22385;22445 62.573 43.316 1 933290 29728 282 19137 19195 33423;33424 33423 0.000180301797172433 RYKLYQEMF 9 Unmodified _RYKLYQEMF_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 639.3236083984375 2 639.320991 1276.62743 4.0748 0.0026051 0.12829 8.2017E-05 4.2031 0.0026871 639.3206012083012 48.523 0.35356 49.179 48.988 49.342 0.65525 29 13 3 0 0 0 0.027384 2 22234 22184;22234 58.679 38.225 1 1142400 29729 282 19137 19195 33425;33426 33426 0.000180301797172433 RYKLYQEMF 9 Unmodified _RYKLYQEMF_ 0 0 0 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant;ENSG00000197102|ENST00000360184|DYNC1H1 DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 426.5501708984375 3 426.549753 1276.62743 3.1803 0.0013565 -0.30383 -0.0001296 2.8764 0.0012269 426.549529098604 48.539 0.38307 49.194 48.988 49.371 0.65524 32 14 3 0 0 0 0.079031 1 22202 22202 34.932 27.83 1 1151000 29730 282 19137 19195 33427 33427 0.000180301797172433 RYKQDVERF 9 Unmodified _RYKQDVERF_ 0 0 0 ENSG00000198887|ENST00000361138|SMC5 ENSG00000198887|ENST00000361138|SMC5 ENSG00000198887|ENST00000361138|SMC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 414.22021484375 3 414.219283 1239.63602 2.7489 0.0011386 0.37379 0.00015483 3.1227 0.0012935 414.2193770830037 14.354 0.14096 14.354 14.279 14.42 0 16 7 3 0 0 0 0.16071 1 6330 6330 25.997 12.479 1 301990 29731 5956 19138 19196 33428 33428 0.025787201405364613 RYKQDVERF 9 Unmodified _RYKQDVERF_ 0 0 0 ENSG00000198887|ENST00000361138|SMC5 ENSG00000198887|ENST00000361138|SMC5 ENSG00000198887|ENST00000361138|SMC5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 414.219283 1239.63602 3.0881 0.0012792 0.071159 2.9475E-05 3.1593 0.0013086 414.2193527948601 13.473 0.15304 14.115 14.066 14.22 0.64272 -0.1193 -0.00023074 NaN 25.997 11 9 2 NaN NaN NaN NaN 0 NaN NaN 0 87530 29732 5956 19138 19196 0.025787201405364613 RYKREWERYRE 11 Unmodified _RYKREWERYRE_ 0 0 0 REV__ENSG00000122257|ENST00000319715|RBBP6 REV__ENSG00000122257|ENST00000319715|RBBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 835.92919921875 2 835.929137 1669.84372 NaN NaN NaN NaN NaN NaN NaN 86.963 1 86.963 86.463 87.463 0 0 0 0 1.0082 1 44710 44710 0 0 1 + 29733 11580 19139 19197 33429 33429 0.03559302337794179 RYKREWERYRE 11 Unmodified _RYKREWERYRE_ 0 0 0 REV__ENSG00000122257|ENST00000319715|RBBP6 REV__ENSG00000122257|ENST00000319715|RBBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 835.9303588867188 2 835.929137 1669.84372 NaN NaN NaN NaN NaN NaN NaN 104.84 1 105.15 104.65 105.65 0.31782 0 0 0 1.0082 1 48392 48392 0 0 1 + 29734 11580 19139 19197 33430 33430 0.03559302337794179 RYKYRRWRQWL 11 Unmodified _RYKYRRWRQWL_ 0 0 0 REV__nc|ENSG00000155542|Q8NE22-2|SETD9 REV__nc|ENSG00000155542|Q8NE22-2|SETD9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 855.9783935546875 2 855.976225 1709.9379 NaN NaN NaN NaN NaN NaN NaN 80.278 1 80.278 79.778 80.778 0 0 0 0 1.0082 1 39817 39817 0 0 1 + 29735 12743 19140 19198 33431 33431 0.11132485950588489 RYKYRRWRQWL 11 Unmodified _RYKYRRWRQWL_ 0 0 0 REV__nc|ENSG00000155542|Q8NE22-2|SETD9 REV__nc|ENSG00000155542|Q8NE22-2|SETD9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 855.9735717773438 2 855.976225 1709.9379 NaN NaN NaN NaN NaN NaN NaN 86.176 1 86.176 85.676 86.676 0 0 0 0 1.0082 1 44107 44107 0 0 1 + 29736 12743 19140 19198 33432 33432 0.11132485950588489 RYKYRRWRQWL 11 Unmodified _RYKYRRWRQWL_ 0 0 0 REV__nc|ENSG00000155542|Q8NE22-2|SETD9 REV__nc|ENSG00000155542|Q8NE22-2|SETD9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.20166015625 3 570.986575 1709.9379 NaN NaN NaN NaN NaN NaN NaN 90.421 1 90.421 89.921 90.921 0 0 0 0 1.0082 1 47520 47520 0 0 1 + 29737 12743 19140 19198 33433 33433 0.11132485950588489 RYKYRRWRQWL 11 Unmodified _RYKYRRWRQWL_ 0 0 0 REV__nc|ENSG00000155542|Q8NE22-2|SETD9 REV__nc|ENSG00000155542|Q8NE22-2|SETD9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 855.9790649414062 2 855.976225 1709.9379 NaN NaN NaN NaN NaN NaN NaN 95.166 1 95.248 94.748 95.748 0.082001 0 0 0 1.0082 1 50247 50247 0 0 1 + 29738 12743 19140 19198 33434 33434 0.11132485950588489 RYLADLPTL 9 Unmodified _RYLADLPTL_ 0 0 0 nc|ENSG00000130695|Q6P2H3|CEP85;ENSG00000130695|ENST00000451429|CEP85;nc|ENSG00000130695|Q6P2H3-4|CEP85 nc|ENSG00000130695|Q6P2H3|CEP85 nc|ENSG00000130695|Q6P2H3|CEP85 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.3051147460938 2 531.303124 1060.5917 3.3083 0.0017577 0.14168 7.5273E-05 3.45 0.001833 531.3032910603681 66.356 0.26408 66.604 66.485 66.749 0.24848 27 15 2 0 0 0 0.063575 1 30409 30409 41.84 1.8899 1 653570 29739 2605 19141 19199 33435 33435 0.06382315994369492 RYLADLPTL 9 Unmodified _RYLADLPTL_ 0 0 0 nc|ENSG00000130695|Q6P2H3|CEP85;ENSG00000130695|ENST00000451429|CEP85;nc|ENSG00000130695|Q6P2H3-4|CEP85 nc|ENSG00000130695|Q6P2H3|CEP85 nc|ENSG00000130695|Q6P2H3|CEP85 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.3048095703125 2 531.303124 1060.5917 3.3596 0.001785 -0.40357 -0.00021442 2.9561 0.0015706 531.3031348935807 65.747 0.18487 66.404 66.309 66.494 0.65672 18 9 2 0 0 0 0.043585 1 30144 30144 49.933 2.1843 1 623610 29740 2605 19141 19199 33436 33436 0.06382315994369492 RYLALLLP 8 Unmodified _RYLALLLP_ 0 0 0 REV__ENSG00000075399|ENST00000389386|VPS9D1 REV__ENSG00000075399|ENST00000389386|VPS9D1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 320.20001220703125 3 320.207656 957.601138 NaN NaN NaN NaN NaN NaN NaN 77.704 1 78.367 77.867 78.867 0.66303 0 0 0 0.99035 1 35810 35810 0.45834 0 1 + 29741 10526 19142 19200 33437 33437 0.12064129070574836 RYLDKTEQW 9 Unmodified _RYLDKTEQW_ 0 0 0 nc|ENSG00000244731|P0C0L4-2|C4A;ENSG00000244731|ENST00000428956|C4A;ENSG00000224389|ENST00000435363|C4B;CON__P01030 nc|ENSG00000244731|P0C0L4-2|C4A;CON__P01030 nc|ENSG00000244731|P0C0L4-2|C4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.5445556640625 3 413.543655 1237.60914 3.457 0.0014296 -0.67583 -0.00027948 2.7812 0.0011501 413.54334839819904 31.121 0.3655 31.377 31.187 31.552 0.25614 79 31 3 0 0 0 0.049036 2 14185 14128;14185 47.594 40.493 1 1276000 + 29742 6164;212 19143 19201 33438;33439 33439 -0.00016388470635320118 RYLDKTEQW 9 Unmodified _RYLDKTEQW_ 0 0 0 nc|ENSG00000244731|P0C0L4-2|C4A;ENSG00000244731|ENST00000428956|C4A;ENSG00000224389|ENST00000435363|C4B;CON__P01030 nc|ENSG00000244731|P0C0L4-2|C4A;CON__P01030 nc|ENSG00000244731|P0C0L4-2|C4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.8137817382812 2 619.811845 1237.60914 4.1306 0.0025602 0.040092 2.4849E-05 4.1707 0.0025851 619.8118152919672 31.118 0.27274 31.374 31.251 31.524 0.25614 37 20 2 0 0 0 0.10437 2 14142 14142;14199 40.239 27.999 1 487930 + 29743 6164;212 19143 19201 33440;33441 33440 -0.00016388470635320118 RYLDKTEQW 9 Unmodified _RYLDKTEQW_ 0 0 0 nc|ENSG00000244731|P0C0L4-2|C4A;ENSG00000244731|ENST00000428956|C4A;ENSG00000224389|ENST00000435363|C4B;CON__P01030 nc|ENSG00000244731|P0C0L4-2|C4A;CON__P01030 nc|ENSG00000244731|P0C0L4-2|C4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.8138427734375 2 619.811845 1237.60914 3.6656 0.002272 0.33883 0.00021001 4.0044 0.002482 619.8119064177718 30.704 0.2689 31.321 31.152 31.421 0.61737 37 15 3 0 0 0 0.044031 2 14093 14048;14093 53.404 27.136 1 551260 + 29744 6164;212 19143 19201 33442;33443 33443 -0.00016388470635320118 RYLDKTEQW 9 Unmodified _RYLDKTEQW_ 0 0 0 nc|ENSG00000244731|P0C0L4-2|C4A;ENSG00000244731|ENST00000428956|C4A;ENSG00000224389|ENST00000435363|C4B;CON__P01030 nc|ENSG00000244731|P0C0L4-2|C4A;CON__P01030 nc|ENSG00000244731|P0C0L4-2|C4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 413.54473876953125 3 413.543655 1237.60914 2.9907 0.0012368 -0.23634 -9.7739E-05 2.7543 0.001139 413.5435343575878 30.68 0.30954 31.298 31.141 31.45 0.61737 49 18 3 0 0 0 0.082627 2 14087 14087;14132 37.075 24.9 1 1105400 + 29745 6164;212 19143 19201 33444;33445 33444 -0.00016388470635320118 RYLDLFTNF 9 Unmodified _RYLDLFTNF_ 0 0 0 ENSG00000100196|ENST00000216014|KDELR3;nc|ENSG00000100196|O43731-2|KDELR3 ENSG00000100196|ENST00000216014|KDELR3 ENSG00000100196|ENST00000216014|KDELR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 594.8095092773438 2 594.806031 1187.59751 3.5713 0.0021242 1.4904 0.00088649 5.0617 0.0030107 594.8070188662408 82.124 0.28181 82.371 82.215 82.497 0.24722 46 24 3 0 0 0 0.028592 1 37778 37778 61.602 34.718 1 1035000 29746 1185 19144 19202 33446 33446 0.011214145060421288 RYLDLFTNF 9 Unmodified _RYLDLFTNF_ 0 0 0 ENSG00000100196|ENST00000216014|KDELR3;nc|ENSG00000100196|O43731-2|KDELR3 ENSG00000100196|ENST00000216014|KDELR3 ENSG00000100196|ENST00000216014|KDELR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 594.8085327148438 2 594.806031 1187.59751 4.0371 0.0024013 0.56116 0.00033378 4.5982 0.0027351 594.8061324598852 81.402 0.24168 82.062 81.974 82.216 0.65998 42 23 2 0 0 0 0.01463 1 37508 37508 82.529 53.448 1 1084000 29747 1185 19144 19202 33447 33447 0.011214145060421288 RYLDLFTSF 9 Unmodified _RYLDLFTSF_ 0 0 0 ENSG00000136240|ENST00000258739|KDELR2;ENST00000462052.1_1_7:6513727-6523688:-|nuORF;nc|ENSG00000136240|P33947-2|KDELR2 ENSG00000136240|ENST00000258739|KDELR2 ENSG00000136240|ENST00000258739|KDELR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.3016357421875 2 581.300581 1160.58661 2.5406 0.0014768 0.71436 0.00041526 3.2549 0.0018921 581.3005726116883 82.453 0.15033 82.538 82.5 82.65 0.084106 22 12 2 0 0 0 0.03963 1 40756 40756 51.63 13.656 1 1875500 29748 2936 19145 19203 33448 33448 0.012740121317619924 RYLDLFTSF 9 Unmodified _RYLDLFTSF_ 0 0 0 ENSG00000136240|ENST00000258739|KDELR2;ENST00000462052.1_1_7:6513727-6523688:-|nuORF;nc|ENSG00000136240|P33947-2|KDELR2 ENSG00000136240|ENST00000258739|KDELR2 ENSG00000136240|ENST00000258739|KDELR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.3021850585938 2 581.300581 1160.58661 3.3583 0.0019522 -0.0032071 -1.8643E-06 3.3551 0.0019503 581.3004762735363 83.474 0.36769 83.721 83.509 83.877 0.24722 57 21 3 0 0 0 0.016529 2 38397 38397;38444 72.968 34.994 1 1513600 29749 2936 19145 19203 33449;33450 33449 0.012740121317619924 RYLDLFTSF 9 Unmodified _RYLDLFTSF_ 0 0 0 ENSG00000136240|ENST00000258739|KDELR2;ENST00000462052.1_1_7:6513727-6523688:-|nuORF;nc|ENSG00000136240|P33947-2|KDELR2 ENSG00000136240|ENST00000258739|KDELR2 ENSG00000136240|ENST00000258739|KDELR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.3026733398438 2 581.300581 1160.58661 3.735 0.0021711 -0.091555 -5.3221E-05 3.6434 0.0021179 581.3003747474451 82.961 0.28224 83.621 83.491 83.773 0.66019 38 14 3 0 0 0 0.014491 2 38238 38197;38238 75.761 37.787 1 1566400 29750 2936 19145 19203 33451;33452 33452 0.012740121317619924 RYLDLLETL 9 Unmodified _RYLDLLETL_ 0 0 0 REV__nc|ENSG00000164944|Q69YN4-4|VIRMA REV__nc|ENSG00000164944|Q69YN4-4|VIRMA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.32421875 2 568.321514 1134.62847 3.445 0.0019579 0.158 8.9793E-05 3.603 0.0020477 568.3219005152596 50.426 0.23098 50.687 50.529 50.76 0.26146 18 11 2 0 0 0 0.36069 1 23027 23027 14.838 1.2234 1 835090 + 29751 13123 19146 19204 33453 33453 0.06654567820282864 RYLDWRKRRL 10 Unmodified _RYLDWRKRRL_ 0 0 0 ENSG00000175701|ENST00000611969|MTLN;nc|ENSG00000175701|Q8NCU8-1|MTLN ENSG00000175701|ENST00000611969|MTLN ENSG00000175701|ENST00000611969|MTLN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 731.431396484375 2 731.431119 1460.84768 NaN NaN NaN NaN NaN NaN NaN 17.717 1 18.377 17.877 18.877 0.66072 0 0 0 1.0015 1 8000 8000 0.40072 0.093686 1 29752 5043 19147 19205 33454 33454 0.13569436622128705 RYLEAALRL 9 Unmodified _RYLEAALRL_ 0 0 0 ENSG00000141696|ENST00000393928|P3H4 ENSG00000141696|ENST00000393928|P3H4 ENSG00000141696|ENST00000393928|P3H4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.83154296875 2 552.82984 1103.64513 3.6026 0.0019916 -0.63225 -0.00034953 2.9703 0.0016421 552.8293989310023 50.458 0.35749 50.458 50.268 50.626 0 39 15 3 0 0 0 0.044531 2 23130 23081;23130 49.527 25.507 1 3451700 29753 3282 19148 19206 33455;33456 33456 0.09745113496887825 RYLEAALRL 9 Unmodified _RYLEAALRL_ 0 0 0 ENSG00000141696|ENST00000393928|P3H4 ENSG00000141696|ENST00000393928|P3H4 ENSG00000141696|ENST00000393928|P3H4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.8318481445312 2 552.82984 1103.64513 3.3475 0.0018506 -0.77586 -0.00042892 2.5717 0.0014217 552.8294992217795 49.472 0.3633 50.295 50.083 50.446 0.82285 49 18 4 0 0 0 0.044531 2 22543 22500;22543 49.527 15.425 1 3159400 29754 3282 19148 19206 33457;33458 33458 0.09745113496887825 RYLEAALRL 9 Unmodified _RYLEAALRL_ 0 0 0 ENSG00000141696|ENST00000393928|P3H4 ENSG00000141696|ENST00000393928|P3H4 ENSG00000141696|ENST00000393928|P3H4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.8314819335938 2 552.82984 1103.64513 3.4939 0.0019315 -1.8222 -0.0010073 1.6717 0.00092416 552.8289242434583 50.23 0.37614 50.492 50.32 50.697 0.26146 27 14 3 0 0 0 0.16035 1 22947 22947 26.021 8.9078 1 1120700 29755 3282 19148 19206 33459 33459 0.09745113496887825 RYLEAALRL 9 Unmodified _RYLEAALRL_ 0 0 0 ENSG00000141696|ENST00000393928|P3H4 ENSG00000141696|ENST00000393928|P3H4 ENSG00000141696|ENST00000393928|P3H4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.8316040039062 2 552.82984 1103.64513 3.5546 0.0019651 -1.7633 -0.0009748 1.7913 0.0009903 552.8286159854981 49.6 0.30812 50.257 50.111 50.419 0.65735 25 10 4 0 0 0 0.1776 1 22683 22683 24.882 5.5196 1 1163300 29756 3282 19148 19206 33460 33460 0.09745113496887825 RYLEKNVKL 9 Unmodified _RYLEKNVKL_ 0 0 0 ENSG00000137574|ENST00000260129|TGS1;ENST00000523948.5_1_8:56686169-56737149:+|nuORF ENSG00000137574|ENST00000260129|TGS1;ENST00000523948.5_1_8:56686169-56737149:+|nuORF ENST00000523948.5_1_8:56686169-56737149:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 388.2374572753906 3 388.236274 1161.68699 2.7845 0.001081 0.27328 0.0001061 3.0578 0.0011871 388.23630472993915 21.579 0.30699 21.579 21.438 21.745 0 104 31 4 0 0 0 0.0013345 2 9678 9632;9678 117.84 62.589 1 1318900 29757 3028;8661 19149 19207 33461;33462 33462 0.11261669185432766 RYLEKNVKL 9 Unmodified _RYLEKNVKL_ 0 0 0 ENSG00000137574|ENST00000260129|TGS1;ENST00000523948.5_1_8:56686169-56737149:+|nuORF ENSG00000137574|ENST00000260129|TGS1;ENST00000523948.5_1_8:56686169-56737149:+|nuORF ENST00000523948.5_1_8:56686169-56737149:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.8535766601562 2 581.850773 1161.68699 NaN NaN NaN NaN NaN NaN NaN 21.619 1 21.619 21.119 22.119 0 0 0 0 0.89089 1 9684 9684 5.2969 2.0156 1 29758 3028;8661 19149 19207 33463 33463 0.11261669185432766 RYLEKNVKL 9 Unmodified _RYLEKNVKL_ 0 0 0 ENSG00000137574|ENST00000260129|TGS1;ENST00000523948.5_1_8:56686169-56737149:+|nuORF ENSG00000137574|ENST00000260129|TGS1;ENST00000523948.5_1_8:56686169-56737149:+|nuORF ENST00000523948.5_1_8:56686169-56737149:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 388.23724365234375 3 388.236274 1161.68699 2.9446 0.0011432 0.23437 9.0993E-05 3.179 0.0012342 388.2362494358138 20.489 0.35374 21.143 20.954 21.308 0.65346 69 31 3 0 0 0 0.028592 2 9323 9281;9323 57.108 26.676 1 623160 29759 3028;8661 19149 19207 33464;33465 33465 0.11261669185432766 RYLEKPMEI 9 Unmodified _RYLEKPMEI_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.8173217773438 2 589.815541 1177.61653 3.532 0.0020832 -0.093308 -5.5035E-05 3.4386 0.0020282 589.8156582854649 37.535 0.66732 37.535 37.219 37.886 0 91 25 5 0 0 0 0.0014118 4 17004 16947;17004;17052;17112 132.38 86.68 1 11820000 29760 4637 19150 19208 33466;33467;33468;33469 33467 0.03482627805442462 RYLEKPMEI 9 Unmodified _RYLEKPMEI_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.54736328125 3 393.54612 1177.61653 2.6955 0.0010608 -0.096736 -3.807E-05 2.5987 0.0010227 393.54622586834887 37.54 0.71651 37.54 37.219 37.935 0 96 27 5 0 0 0 0.0061394 4 16956 16956;17005;17054;17114 78.06 41.554 1 9400800 29761 4637 19150 19208 33470;33471;33472;33473 33470 0.03482627805442462 RYLEKPMEI 9 Unmodified _RYLEKPMEI_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.8179931640625 2 589.815541 1177.61653 3.4611 0.0020414 0.027732 1.6357E-05 3.4889 0.0020578 589.8157273178668 36.289 0.79832 37.082 36.816 37.614 0.79342 136 36 5 0 0 0 0.0014118 6 16416 16366;16416;16471;16518;16567;16614 132.38 83.17 1 9214400 29762 4637 19150 19208 33474;33475;33476;33477;33478;33479 33475 0.03482627805442462 RYLEKPMEI 9 Unmodified _RYLEKPMEI_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 393.5472717285156 3 393.54612 1177.61653 2.6373 0.0010379 0.031433 1.237E-05 2.6687 0.0010503 393.54628917216996 36.291 0.77343 37.085 36.789 37.562 0.79342 140 35 5 0 0 0 0.016363 6 16385 16385;16435;16493;16548;16597;16662 73.196 43.356 1 8567800 29763 4637 19150 19208 33480;33481;33482;33483;33484;33485 33480 0.03482627805442462 RYLEKPMEI 9 Unmodified _RYLEKPMEI_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.5473937988281 3 393.54612 1177.61653 3.0861 0.0012145 -0.25874 -0.00010182 2.8273 0.0011127 393.54611214073395 37.379 1.016 37.64 37.35 38.366 0.26083 85 32 4 0 0 0 0.0061394 5 17000 16953;17000;17061;17118;17174 73.196 45.548 1 6674600 29764 4637 19150 19208 33486;33487;33488;33489;33490 33487 0.03482627805442462 RYLEKPMEI 9 Unmodified _RYLEKPMEI_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.8180541992188 2 589.815541 1177.61653 3.7238 0.0021963 -0.26108 -0.00015399 3.4627 0.0020424 589.8155903415828 37.385 0.6609 37.646 37.35 38.011 0.26083 81 20 5 0 0 0 0.00045036 4 17015 16954;17015;17073;17133 132.38 80.111 1 7365900 29765 4637 19150 19208 33491;33492;33493;33494 33492 0.03482627805442462 RYLEKPMEI 9 Unmodified _RYLEKPMEI_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.8177490234375 2 589.815541 1177.61653 3.7522 0.0022131 -0.12044 -7.1039E-05 3.6317 0.0021421 589.8156155335845 36.741 0.80722 37.371 37.014 37.821 0.62999 129 33 5 0 0 0 0.0012877 5 16809 16706;16754;16809;16858;16909 121.35 69.716 1 5181900 29766 4637 19150 19208 33495;33496;33497;33498;33499 33497 0.03482627805442462 RYLEKPMEI 9 Unmodified _RYLEKPMEI_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.54742431640625 3 393.54612 1177.61653 2.9277 0.0011522 -0.19156 -7.5386E-05 2.7362 0.0010768 393.54619498953207 36.745 0.82509 37.375 37.014 37.839 0.62999 130 34 5 0 0 0 0.0061394 5 16827 16739;16784;16827;16880;16928 74.2 39.498 1 4230600 29767 4637 19150 19208 33500;33501;33502;33503;33504 33502 0.03482627805442462 RYLEKPMEI 9 Oxidation (M) _RYLEKPM(Oxidation (M))EI_ RYLEKPM(1)EI RYLEKPM(61)EI 0 0 1 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.8789978027344 3 398.877758 1193.61144 2.4977 0.00099626 0.0089787 3.5814E-06 2.5066 0.00099984 398.8778590637749 25.696 0.39341 26.459 26.282 26.675 0.76356 59 24 4 0 0 0 0.025529 1 11527 11527 61.09 31.249 1 1199600 29768 4637 19150 19209 33505 33505 64 0.022383239428108936 RYLEKPMEI 9 Oxidation (M) _RYLEKPM(Oxidation (M))EI_ RYLEKPM(1)EI RYLEKPM(65)EI 0 0 1 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.8789367675781 3 398.877758 1193.61144 3.0065 0.0011992 -0.15352 -6.1235E-05 2.853 0.001138 398.87766846336666 26.566 0.41725 26.831 26.631 27.049 0.26489 76 29 3 0 0 0 0.022157 1 12101 12101 65.474 35.633 1 1199400 29769 4637 19150 19209 33506 33506 64 0.022383239428108936 RYLEKPMEI 9 Oxidation (M) _RYLEKPM(Oxidation (M))EI_ RYLEKPM(1)EI RYLEKPM(50)EI 0 0 1 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.8140258789062 2 597.812999 1193.61144 3.9276 0.002348 -0.44638 -0.00026685 3.4812 0.0020811 597.8128504816915 26.181 0.34026 26.807 26.663 27.003 0.62505 55 20 4 0 0 0 0.044468 2 11977 11977;12021 49.554 33.707 1 1122800 29770 4637 19150 19209 33507;33508 33507 64 0.022383239428108936 RYLEKPMEI 9 Oxidation (M) _RYLEKPM(Oxidation (M))EI_ 0 0 1 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 398.877758 1193.61144 2.7455 0.0010951 0.48633 0.00019398 3.2318 0.0012891 398.8779115541067 26.719 0.25897 26.719 26.586 26.845 0 0.015531 0.00029387 NaN 65.474 45 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1458700 29771 4637 19150 19209 64 0.022383239428108936 RYLEKPMEI 9 Oxidation (M) _RYLEKPM(Oxidation (M))EI_ 0 0 1 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 398.877758 1193.61144 2.8196 0.0011247 0.63779 0.0002544 3.4574 0.0013791 398.87802857122153 26.181 0.39603 26.806 26.651 27.047 0.62505 0.10188 0.00047512 NaN 65.474 65 24 4 NaN NaN NaN NaN 0 NaN NaN 0 1380600 29772 4637 19150 19209 64 0.022383239428108936 RYLENGKETL 10 Unmodified _RYLENGKETL_ 0 0 0 nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;ENST00000484704.5_1_6:29691969-29693843:+|nuORF;nc|ENSG00000204642|P30511-2|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF;nc|ENSG00000206341|P01893|HLA-H;ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910749-29913287:+|nuORF nc|ENSG00000204642|P30511|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000206503|ENST00000376809|HLA-A nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 408.55438232421875 3 408.21906 1221.63535 2.255 0.00092052 -0.028637 -1.169E-05 2.2263 0.00090883 408.2191094052046 21.629 0.23711 22.034 21.915 22.152 0.40533 93 41 3 0 0 0 1.4639E-05 3 9599 9558;9599;9644 119.6 83.56 1 7596300 29773 6014;6072;6028 19151 19210 33509;33510;33511 33510 0.03339880700855247 RYLENGKETL 10 Unmodified _RYLENGKETL_ 0 0 0 nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;ENST00000484704.5_1_6:29691969-29693843:+|nuORF;nc|ENSG00000204642|P30511-2|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF;nc|ENSG00000206341|P01893|HLA-H;ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910749-29913287:+|nuORF nc|ENSG00000204642|P30511|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000206503|ENST00000376809|HLA-A nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 611.8258056640625 2 611.824952 1221.63535 2.9113 0.0017812 0.047836 2.9267E-05 2.9592 0.0018105 611.8250411601307 21.621 0.2076 22.027 21.922 22.13 0.40534 59 36 2 0 0 0 3.4101E-05 2 9568 9568;9612 135.72 53.189 1 5660400 29774 6014;6072;6028 19151 19210 33512;33513 33512 0.03339880700855247 RYLENGKETL 10 Unmodified _RYLENGKETL_ 0 0 0 nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;ENST00000484704.5_1_6:29691969-29693843:+|nuORF;nc|ENSG00000204642|P30511-2|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF;nc|ENSG00000206341|P01893|HLA-H;ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910749-29913287:+|nuORF nc|ENSG00000204642|P30511|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000206503|ENST00000376809|HLA-A nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 408.2202453613281 3 408.21906 1221.63535 2.9393 0.0011999 -0.45832 -0.00018709 2.4809 0.0010128 408.21883449771605 22.333 0.28671 22.614 22.448 22.734 0.28085 80 65 2 0 0 0 3.682E-05 3 10088 10052;10088;10123 110.18 79.748 1 4411500 29775 6014;6072;6028 19151 19210 33514;33515;33516 33515 0.03339880700855247 RYLENGKETL 10 Unmodified _RYLENGKETL_ 0 0 0 nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;ENST00000484704.5_1_6:29691969-29693843:+|nuORF;nc|ENSG00000204642|P30511-2|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF;nc|ENSG00000206341|P01893|HLA-H;ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910749-29913287:+|nuORF nc|ENSG00000204642|P30511|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000206503|ENST00000376809|HLA-A nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 612.3276977539062 2 611.824952 1221.63535 3.5177 0.0021522 -0.33733 -0.00020639 3.1804 0.0019458 611.8249724579956 22.4 0.15712 22.681 22.556 22.713 0.28085 43 35 2 0 0 0 0.020118 2 10072 10072;10110 90.135 24.228 1 2334600 29776 6014;6072;6028 19151 19210 33517;33518 33517 0.03339880700855247 RYLENGKETL 10 Unmodified _RYLENGKETL_ 0 0 0 nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;ENST00000484704.5_1_6:29691969-29693843:+|nuORF;nc|ENSG00000204642|P30511-2|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF;nc|ENSG00000206341|P01893|HLA-H;ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910749-29913287:+|nuORF nc|ENSG00000204642|P30511|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000206503|ENST00000376809|HLA-A nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.8272705078125 2 611.824952 1221.63535 NaN NaN NaN NaN NaN NaN NaN 21.906 1 22.553 22.053 23.053 0.64714 0 0 0 1.2178E-05 1 9956 9956 139.32 66.353 1 29777 6014;6072;6028 19151 19210 33519 33519 0.03339880700855247 RYLENGKETL 10 Unmodified _RYLENGKETL_ 0 0 0 nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;ENST00000484704.5_1_6:29691969-29693843:+|nuORF;nc|ENSG00000204642|P30511-2|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF;nc|ENSG00000206341|P01893|HLA-H;ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910749-29913287:+|nuORF nc|ENSG00000204642|P30511|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000206503|ENST00000376809|HLA-A nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 408.2203063964844 3 408.21906 1221.63535 NaN NaN NaN NaN NaN NaN NaN 21.927 1 22.574 22.074 23.074 0.64714 0 0 0 0.01131 1 9966 9966 110.18 79.748 1 29778 6014;6072;6028 19151 19210 33520 33520 0.03339880700855247 RYLENGKETL 10 Unmodified _RYLENGKETL_ 0 0 0 nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;ENST00000484704.5_1_6:29691969-29693843:+|nuORF;nc|ENSG00000204642|P30511-2|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF;nc|ENSG00000206341|P01893|HLA-H;ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910749-29913287:+|nuORF nc|ENSG00000204642|P30511|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000206503|ENST00000376809|HLA-A nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.8274536132812 2 611.824952 1221.63535 NaN NaN NaN NaN NaN NaN NaN 21.995 1 22.642 22.142 23.142 0.64714 0 0 0 1.1328000000000001E-24 1 10000 10000 166.77 74.116 1 29779 6014;6072;6028 19151 19210 33521 33521 0.03339880700855247 RYLENGKETL 10 Unmodified _RYLENGKETL_ 0 0 0 nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;ENST00000484704.5_1_6:29691969-29693843:+|nuORF;nc|ENSG00000204642|P30511-2|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF;nc|ENSG00000206341|P01893|HLA-H;ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910749-29913287:+|nuORF nc|ENSG00000204642|P30511|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000206503|ENST00000376809|HLA-A nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 408.2198486328125 3 408.21906 1221.63535 NaN NaN NaN NaN NaN NaN NaN 22.026 1 22.673 22.173 23.173 0.64714 0 0 0 0.036322 1 10013 10013 101.12 68.218 1 29780 6014;6072;6028 19151 19210 33522 33522 0.03339880700855247 RYLEQLHQL 9 Unmodified _RYLEQLHQL_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 600.3316650390625 2 600.330205 1198.64586 3.425 0.0020561 -0.10358 -6.2184E-05 3.3214 0.0019939 600.3300047038207 39.561 0.28683 39.561 39.405 39.692 0 35 11 4 0 0 0 0.00076775 2 17972 17920;17972 139.78 70.677 1 6398200 29781 4637 19152 19211 33523;33524 33524 0.05447908145947622 RYLEQLHQL 9 Unmodified _RYLEQLHQL_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 400.556884765625 3 400.555895 1198.64586 2.6645 0.0010673 -0.022676 -9.0829E-06 2.6418 0.0010582 400.55585290145547 39.569 0.40131 39.569 39.35 39.752 0 45 16 4 0 0 0 1.4994E-08 2 17931 17931;17984 151.48 106.54 1 9493300 29782 4637 19152 19211 33525;33526 33525 0.05447908145947622 RYLEQLHQL 9 Unmodified _RYLEQLHQL_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 400.55694580078125 3 400.555895 1198.64586 2.6525 0.0010625 0.14791 5.9246E-05 2.8004 0.0011217 400.55591734560994 38.346 0.42081 39.143 38.938 39.359 0.79734 54 18 4 0 0 0 3.1999E-05 2 17340 17340;17393 139.78 94.837 1 7575000 29783 4637 19152 19211 33527;33528 33527 0.05447908145947622 RYLEQLHQL 9 Unmodified _RYLEQLHQL_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 600.33251953125 2 600.330205 1198.64586 3.4778 0.0020879 -0.55147 -0.00033107 2.9264 0.0017568 600.3296567519441 38.357 0.33533 39.154 38.984 39.32 0.79762 39 14 3 0 0 0 0.0024178 2 17394 17342;17394 117.84 51.381 1 5191000 29784 4637 19152 19211 33529;33530 33530 0.05447908145947622 RYLEQLHQL 9 Unmodified _RYLEQLHQL_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.5570373535156 3 400.555895 1198.64586 2.9675 0.0011886 -0.14298 -5.727E-05 2.8245 0.0011314 400.55581565759826 39.413 0.42793 39.68 39.451 39.879 0.26696 48 15 4 0 0 0 3.1999E-05 1 17912 17912 139.78 80.729 1 4738900 29785 4637 19152 19211 33531 33531 0.05447908145947622 RYLEQLHQL 9 Unmodified _RYLEQLHQL_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 600.33203125 2 600.330205 1198.64586 3.6833 0.0022112 -0.071854 -4.3136E-05 3.6114 0.002168 600.3300529066414 39.403 0.4259 39.67 39.48 39.906 0.26696 45 15 4 0 0 0 0.0011013 2 17915 17915;17968 136.39 73.819 1 3125500 29786 4637 19152 19211 33532;33533 33532 0.05447908145947622 RYLEQLHQL 9 Unmodified _RYLEQLHQL_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 600.3328247070312 2 600.330205 1198.64586 3.9783 0.0023883 -0.37183 -0.00022322 3.6064 0.0021651 600.3296775337636 39.039 0.37577 39.677 39.455 39.831 0.63778 34 13 3 0 0 0 0.010744 2 17804 17804;17858 87.258 45.419 1 2277000 29787 4637 19152 19211 33534;33535 33534 0.05447908145947622 RYLEQLHQL 9 Unmodified _RYLEQLHQL_ 0 0 0 nc|ENSG00000168610|P40763-3|STAT3;nc|ENSG00000168610|P40763-2|STAT3;ENSG00000168610|ENST00000264657|STAT3 nc|ENSG00000168610|P40763-3|STAT3 nc|ENSG00000168610|P40763-3|STAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 400.556884765625 3 400.555895 1198.64586 2.9669 0.0011884 -0.045921 -1.8394E-05 2.921 0.00117 400.55581218778786 39.013 0.40648 39.651 39.455 39.861 0.63778 44 14 4 0 0 0 0.00079456 2 17815 17815;17871 128.57 92.067 1 3180600 29788 4637 19152 19211 33536;33537 33536 0.05447908145947622 RYLERLIKL 9 Unmodified _RYLERLIKL_ 0 0 0 ENSG00000172009|ENST00000307741|THOP1 ENSG00000172009|ENST00000307741|THOP1 ENSG00000172009|ENST00000307741|THOP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 401.9249267578125 3 401.923919 1202.74993 2.5969 0.0010437 -0.41486 -0.00016674 2.182 0.000877 401.9237062926465 45.16 0.30537 45.986 45.815 46.12 0.82621 47 18 3 0 0 0 0.011692 2 20574 20531;20574 64.927 20.945 1 1650800 29789 4851 19153 19212 33538;33539 33539 0.1566623497344608 RYLERLIKL 9 Unmodified _RYLERLIKL_ 0 0 0 ENSG00000172009|ENST00000307741|THOP1 ENSG00000172009|ENST00000307741|THOP1 ENSG00000172009|ENST00000307741|THOP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 401.92486572265625 3 401.923919 1202.74993 3.1603 0.0012702 -0.029872 -1.2006E-05 3.1304 0.0012582 401.92380415725023 45.302 0.3163 45.954 45.781 46.097 0.65104 33 13 4 0 0 0 0.044468 1 20737 20737 39.213 8.5096 1 947350 29790 4851 19153 19212 33540 33540 0.1566623497344608 RYLERLIKL 9 Unmodified _RYLERLIKL_ 0 0 0 ENSG00000172009|ENST00000307741|THOP1 ENSG00000172009|ENST00000307741|THOP1 ENSG00000172009|ENST00000307741|THOP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 401.923919 1202.74993 2.4962 0.0010033 -0.28318 -0.00011382 2.213 0.00088946 401.9238138282816 46.264 0.25904 46.264 46.111 46.37 0 0.16739 0.00012871 NaN 64.927 29 13 3 NaN NaN NaN NaN 0 NaN NaN 0 1910300 29791 4851 19153 19212 0.1566623497344608 RYLERLIKL 9 Unmodified _RYLERLIKL_ 0 0 0 ENSG00000172009|ENST00000307741|THOP1 ENSG00000172009|ENST00000307741|THOP1 ENSG00000172009|ENST00000307741|THOP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 401.923919 1202.74993 2.9699 0.0011937 -0.63514 -0.00025528 2.3348 0.00093841 401.9237233772667 45.919 0.27522 46.184 46.051 46.326 0.26561 0.087165 -0.00029568 NaN 64.927 19 10 3 NaN NaN NaN NaN 0 NaN NaN 0 1754300 29792 4851 19153 19212 0.1566623497344608 RYLEVMRKL 9 Unmodified _RYLEVMRKL_ 0 0 0 nc|ENSG00000119383|Q15257-4|PTPA;nc|ENSG00000119383|Q15257-3|PTPA;ENSG00000119383|ENST00000393370|PTPA;nc|ENSG00000119383|Q15257|PTPA nc|ENSG00000119383|Q15257-4|PTPA nc|ENSG00000119383|Q15257-4|PTPA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 403.2388000488281 3 403.237509 1206.6907 2.4474 0.00098688 0.15502 6.2508E-05 2.6024 0.0010494 403.23760882727623 35.158 0.24827 35.158 34.991 35.239 0 29 19 2 0 0 0 0.0057865 2 15961 15908;15961 90.135 70.773 1 2139100 29793 2139 19154 19213 33541;33542 33542 0.09562015687629355 RYLEVMRKL 9 Unmodified _RYLEVMRKL_ 0 0 0 nc|ENSG00000119383|Q15257-4|PTPA;nc|ENSG00000119383|Q15257-3|PTPA;ENSG00000119383|ENST00000393370|PTPA;nc|ENSG00000119383|Q15257|PTPA nc|ENSG00000119383|Q15257-4|PTPA nc|ENSG00000119383|Q15257-4|PTPA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 403.23858642578125 3 403.237509 1206.6907 2.4463 0.00098643 -0.16118 -6.4995E-05 2.2851 0.00092143 403.2374994768582 34.205 0.33971 34.995 34.806 35.146 0.78921 47 19 4 0 0 0 0.0057865 2 15460 15460;15515 90.135 68.598 1 1148600 29794 2139 19154 19213 33543;33544 33543 0.09562015687629355 RYLEVMRKL 9 Unmodified _RYLEVMRKL_ 0 0 0 nc|ENSG00000119383|Q15257-4|PTPA;nc|ENSG00000119383|Q15257-3|PTPA;ENSG00000119383|ENST00000393370|PTPA;nc|ENSG00000119383|Q15257|PTPA nc|ENSG00000119383|Q15257-4|PTPA nc|ENSG00000119383|Q15257-4|PTPA MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 403.237509 1206.6907 2.9079 0.0011726 -0.27696 -0.00011168 2.631 0.0010609 403.23743912173387 34.606 0.1865 35.229 35.085 35.271 0.62294 0.10201 -0.00021495 NaN 90.135 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 542120 29795 2139 19154 19213 0.09562015687629355 RYLEYFEKI 9 Unmodified _RYLEYFEKI_ 0 0 0 ENSG00000143643|ENST00000366661|TTC13;nc|ENSG00000143643|Q8NBP0-2|TTC13;ENST00000471302.2_1_1:231047214-231057243:-|nuORF ENSG00000143643|ENST00000366661|TTC13 ENSG00000143643|ENST00000366661|TTC13 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 630.837890625 2 630.834788 1259.65502 3.2036 0.002021 -0.12289 -7.7522E-05 3.0808 0.0019434 630.8345290719272 54.036 0.22173 54.832 54.697 54.919 0.79552 17 11 2 0 0 0 0.1077 1 24684 24684 7.609 3.0801 1 193200 29796 3385 19155 19214 33545 33545 0.03558256711630747 RYLFFYWFKYY 11 Unmodified _RYLFFYWFKYY_ 0 0 0 ENST00000505799.1_1_5:37379427-37381852:+|nuORF ENST00000505799.1_1_5:37379427-37381852:+|nuORF ENST00000505799.1_1_5:37379427-37381852:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 848.4193115234375 2 848.421562 1694.82857 NaN NaN NaN NaN NaN NaN NaN 94.115 1 94.201 93.701 94.701 0.086212 0 0 0 1.008 1 49439 49439 0.30703 0.30703 1 29797 8507 19156 19215 33546 33546 0.008950424878776175 RYLGKVLEL 9 Unmodified _RYLGKVLEL_ 0 0 0 ENSG00000132361|ENST00000651024|CLUH;nc|ENSG00000132361|O75153|CLUH;ENST00000573641.1_1_17:2598433-2598937:-|nuORF ENSG00000132361|ENST00000651024|CLUH ENSG00000132361|ENST00000651024|CLUH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.8361206054688 2 545.834591 1089.65463 3.4162 0.0018647 -0.24536 -0.00013393 3.1709 0.0017308 545.8343701457666 47.548 0.189 47.548 47.422 47.611 0 23 9 3 0 0 0 0.048715 1 21750 21750 60.074 36.053 1 2433500 29798 2694 19157 19216 33547 33547 0.11338881782398857 RYLGKVLEL 9 Unmodified _RYLGKVLEL_ 0 0 0 ENSG00000132361|ENST00000651024|CLUH;nc|ENSG00000132361|O75153|CLUH;ENST00000573641.1_1_17:2598433-2598937:-|nuORF ENSG00000132361|ENST00000651024|CLUH ENSG00000132361|ENST00000651024|CLUH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.8363647460938 2 545.834591 1089.65463 3.0951 0.0016894 0.64071 0.00034972 3.7358 0.0020391 545.834829380908 46.42 0.19189 47.249 47.138 47.33 0.82915 27 11 4 0 0 0 0.04013 1 21118 21118 56.177 28.548 1 1640800 29799 2694 19157 19216 33548 33548 0.11338881782398857 RYLGKVLEL 9 Unmodified _RYLGKVLEL_ 0 0 0 ENSG00000132361|ENST00000651024|CLUH;nc|ENSG00000132361|O75153|CLUH;ENST00000573641.1_1_17:2598433-2598937:-|nuORF ENSG00000132361|ENST00000651024|CLUH ENSG00000132361|ENST00000651024|CLUH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.8373413085938 2 545.834591 1089.65463 3.7481 0.0020458 -0.08638 -4.7149E-05 3.6617 0.0019987 545.8344495319323 47.303 0.27112 47.567 47.421 47.692 0.26363 31 11 3 0 0 0 0.10277 2 21583 21583;21649 39.95 13.682 1 936820 29800 2694 19157 19216 33549;33550 33549 0.11338881782398857 RYLGKVLEL 9 Unmodified _RYLGKVLEL_ 0 0 0 ENSG00000132361|ENST00000651024|CLUH;nc|ENSG00000132361|O75153|CLUH;ENST00000573641.1_1_17:2598433-2598937:-|nuORF ENSG00000132361|ENST00000651024|CLUH ENSG00000132361|ENST00000651024|CLUH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.8358764648438 2 545.834591 1089.65463 3.6247 0.0019785 -0.58608 -0.0003199 3.0386 0.0016586 545.8341999079621 46.669 0.27347 47.322 47.196 47.469 0.65219 19 8 3 0 0 0 0.057456 1 21372 21372 56.177 23.391 1 1130200 29801 2694 19157 19216 33551 33551 0.11338881782398857 RYLGKVLEL 9 Unmodified _RYLGKVLEL_ 0 0 0 ENSG00000132361|ENST00000651024|CLUH;nc|ENSG00000132361|O75153|CLUH;ENST00000573641.1_1_17:2598433-2598937:-|nuORF ENSG00000132361|ENST00000651024|CLUH ENSG00000132361|ENST00000651024|CLUH MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 545.834591 1089.65463 3.7481 0.0020458 -0.08638 -4.7149E-05 3.6617 0.0019987 545.8344495319323 47.303 0.27112 47.567 47.421 47.692 0.26363 0.14549 -0.00027306 NaN 56.177 31 11 3 NaN NaN NaN NaN 0 NaN NaN 0 936820 29802 2694 19157 19216 0.11338881782398857 RYLHVEGGNF 10 Unmodified _RYLHVEGGNF_ 0 0 0 nc|ENSG00000168214|Q06330-3|RBPJ;nc|ENSG00000168214|Q06330-2|RBPJ;nc|ENSG00000168214|Q06330-5|RBPJ;nc|ENSG00000168214|Q06330-4|RBPJ;nc|ENSG00000168214|Q06330-6|RBPJ;ENSG00000168214|ENST00000355476|RBPJ;nc|ENSG00000168214|Q06330|RBPJ;ENST00000506903.1_1_4:26422193-26426401:+|nuORF;ENST00000514380.5_1_4:26322378-26431729:+|nuORF;RBPJ|p.E392Rfs*41|1|0.05|ENSG00000168214|chr4:26430508-26430509|-/A|frameshift_variant;RBPJ|p.E392Afs*42|1|0.05|ENSG00000168214|chr4:26430509-26430510|-/CTAA|frameshift_variant nc|ENSG00000168214|Q06330-3|RBPJ nc|ENSG00000168214|Q06330-3|RBPJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 397.8695983886719 3 397.868362 1190.58326 2.3769 0.00094571 0.65134 0.00025915 3.0283 0.0012049 397.8685565919365 32.665 0.21849 33.453 33.326 33.545 0.78795 25 17 2 0 0 0 0.67467 1 14783 14783 12.856 10.77 1 232680 29803 4614 19158 19217 33552 33552 -0.004412379222458185 RYLLTQELL 9 Unmodified _RYLLTQELL_ 0 0 0 ENSG00000103335|ENST00000301015|PIEZO1 ENSG00000103335|ENST00000301015|PIEZO1 ENSG00000103335|ENST00000301015|PIEZO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 574.8391723632812 2 574.837331 1147.66011 3.663 0.0021056 0.22945 0.0001319 3.8925 0.0022375 574.8371536553634 67.251 0.25584 67.909 67.779 68.035 0.65777 25 14 2 0 0 0 0.048676 1 30831 30831 47.749 5.9091 1 626780 29804 1391 19159 19218 33553 33553 0.09218560574208823 RYLLTQELL 9 Unmodified _RYLLTQELL_ 0 0 0 ENSG00000103335|ENST00000301015|PIEZO1 ENSG00000103335|ENST00000301015|PIEZO1 ENSG00000103335|ENST00000301015|PIEZO1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 574.837331 1147.66011 3.0061 0.001728 -1.5935 -0.00091601 1.4126 0.00081202 574.8369008718247 68.111 0.077515 68.111 68.055 68.133 0 0.10117 -0.0016988 NaN 47.749 13 10 2 NaN NaN NaN NaN 0 NaN NaN 0 2094700 29805 1391 19159 19218 0.09218560574208823 RYLNEFEEL 9 Unmodified _RYLNEFEEL_ 0 0 0 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1;ENSG00000086232|ENST00000199389|EIF2AK1 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 606.8006591796875 2 606.798403 1211.58225 NaN NaN NaN NaN NaN NaN NaN 58.854 1 58.854 58.354 59.354 0 0 0 0 1.0029E-06 1 27182 27182 118.89 37.005 1 29806 981 19160 19219 33554 33554 -0.015074970817977373 RYLNEFEEL 9 Unmodified _RYLNEFEEL_ 0 0 0 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1;ENSG00000086232|ENST00000199389|EIF2AK1 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 606.8004760742188 2 606.798403 1211.58225 NaN NaN NaN NaN NaN NaN NaN 58.947 1 58.947 58.447 59.447 0 0 0 0 0.0067332 1 27229 27229 88.954 23.719 1 29807 981 19160 19219 33555 33555 -0.015074970817977373 RYLNEFEEL 9 Unmodified _RYLNEFEEL_ 0 0 0 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1;ENSG00000086232|ENST00000199389|EIF2AK1 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.7999877929688 2 606.798403 1211.58225 3.1162 0.0018909 0.21429 0.00013003 3.3305 0.0020209 606.7983902743982 57.731 0.23549 58.5 58.311 58.547 0.76861 43 18 3 0 0 0 0.00055091 1 26428 26428 131.27 60.134 1 7493200 29808 981 19160 19219 33556 33556 -0.015074970817977373 RYLNEFEEL 9 Unmodified _RYLNEFEEL_ 0 0 0 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1;ENSG00000086232|ENST00000199389|EIF2AK1 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 606.7996215820312 2 606.798403 1211.58225 3.5967 0.0021825 -0.016606 -1.0076E-05 3.5801 0.0021724 606.7982451839265 58.722 0.33722 58.984 58.899 59.236 0.26228 56 28 3 0 0 0 0.0017071 2 26880 26880;26928 107.19 50.98 1 3823600 29809 981 19160 19219 33557;33558 33557 -0.015074970817977373 RYLNEFEEL 9 Unmodified _RYLNEFEEL_ 0 0 0 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1;ENSG00000086232|ENST00000199389|EIF2AK1 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 606.7999877929688 2 606.798403 1211.58225 NaN NaN NaN NaN NaN NaN NaN 58.272 1 58.939 58.439 59.439 0.66703 0 0 0 0.00011071 1 26673 26673 107.19 48.508 1 29810 981 19160 19219 33559 33559 -0.015074970817977373 RYLNKAFHI 9 Unmodified _RYLNKAFHI_ 0 0 0 ENSG00000151503|ENST00000534548|NCAPD3 ENSG00000151503|ENST00000534548|NCAPD3 ENSG00000151503|ENST00000534548|NCAPD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 387.89056396484375 3 387.889097 1160.64546 2.7013 0.0010478 0.33539 0.00013009 3.0367 0.0011779 387.8893630229915 32.579 0.1812 32.579 32.455 32.636 0 17 10 2 0 0 0 0.086415 1 14733 14733 36.127 25.976 1 191640 29811 3714 19161 19220 33560 33560 0.0715653321674381 RYLPDTLLL 9 Unmodified _RYLPDTLLL_ 0 0 0 ENSG00000093010|ENST00000361682|COMT;nc|ENSG00000093010|P21964-2|COMT;ENST00000207636.9_1_22:19951681-19956256:+|nuORF ENSG00000093010|ENST00000361682|COMT ENSG00000093010|ENST00000361682|COMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.32861328125 2 552.326599 1102.63865 2.9707 0.0016408 0.066158 3.6541E-05 3.0368 0.0016773 552.3265588859256 73.805 0.23338 73.805 73.662 73.895 0 42 21 2 0 0 0 0.093314 1 35957 35957 34.402 3.7652 1 6249600 29812 1106 19162 19221 33561 33561 0.09143175545523263 RYLPDTLLL 9 Unmodified _RYLPDTLLL_ 0 0 0 ENSG00000093010|ENST00000361682|COMT;nc|ENSG00000093010|P21964-2|COMT;ENST00000207636.9_1_22:19951681-19956256:+|nuORF ENSG00000093010|ENST00000361682|COMT ENSG00000093010|ENST00000361682|COMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.3292236328125 2 552.326599 1102.63865 2.7701 0.00153 0.46347 0.00025599 3.2336 0.001786 552.3268101996158 72.774 0.29697 73.473 73.315 73.612 0.69881 59 26 3 0 0 0 0.029308 2 35036 35036;35098 56.177 12.319 1 6589900 29813 1106 19162 19221 33562;33563 33562 0.09143175545523263 RYLPDTLLL 9 Unmodified _RYLPDTLLL_ 0 0 0 ENSG00000093010|ENST00000361682|COMT;nc|ENSG00000093010|P21964-2|COMT;ENST00000207636.9_1_22:19951681-19956256:+|nuORF ENSG00000093010|ENST00000361682|COMT ENSG00000093010|ENST00000361682|COMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.3287353515625 2 552.326599 1102.63865 3.2674 0.0018047 -0.19077 -0.00010537 3.0766 0.0016993 552.3263448849037 73.35 0.31213 73.609 73.482 73.794 0.25876 73 29 3 0 0 0 0.048676 2 33667 33667;33716 47.749 11.622 1 2066400 29814 1106 19162 19221 33564;33565 33564 0.09143175545523263 RYLPDTLLL 9 Unmodified _RYLPDTLLL_ 0 0 0 ENSG00000093010|ENST00000361682|COMT;nc|ENSG00000093010|P21964-2|COMT;ENST00000207636.9_1_22:19951681-19956256:+|nuORF ENSG00000093010|ENST00000361682|COMT ENSG00000093010|ENST00000361682|COMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.3279418945312 2 552.326599 1102.63865 2.9321 0.0016195 0.15359 8.4834E-05 3.0857 0.0017043 552.3266168027528 72.9 0.23055 73.564 73.431 73.661 0.66398 56 23 3 0 0 0 0.136 2 33447 33447;33497 27.629 0.74515 1 3522300 29815 1106 19162 19221 33566;33567 33566 0.09143175545523263 RYLPKGFLNQF 11 Unmodified _RYLPKGFLNQF_ 0 0 0 nc|ENSG00000169398|Q05397-7|PTK2;nc|ENSG00000169398|Q05397|PTK2;nc|ENSG00000169398|Q05397-5|PTK2;PTK2|p.Q300Hfs*16|1|0.02|ENSG00000169398|chr8:140803618-140803619|-/AAATAGGGATGTTTTAGAATTG|frameshift_variant;ENSG00000169398|ENST00000696786|PTK2 nc|ENSG00000169398|Q05397-7|PTK2 nc|ENSG00000169398|Q05397-7|PTK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 461.5924072265625 3 461.590828 1381.75066 2.666 0.0012306 0.75136 0.00034682 3.4174 0.0015774 461.9254070512187 58.921 0.20766 58.921 58.749 58.957 0 33 15 3 0 0 0 0.14087 2 27176 27176;27226 28.181 23.465 1 4533800 29816 9748 19163 19222 33568;33569 33568 0.07505029622507209 RYLPKGFLNQF 11 Unmodified _RYLPKGFLNQF_ 0 0 0 nc|ENSG00000169398|Q05397-7|PTK2;nc|ENSG00000169398|Q05397|PTK2;nc|ENSG00000169398|Q05397-5|PTK2;PTK2|p.Q300Hfs*16|1|0.02|ENSG00000169398|chr8:140803618-140803619|-/AAATAGGGATGTTTTAGAATTG|frameshift_variant;ENSG00000169398|ENST00000696786|PTK2 nc|ENSG00000169398|Q05397-7|PTK2 nc|ENSG00000169398|Q05397-7|PTK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 692.3869018554688 2 691.882604 1381.75066 3.6063 0.0024951 0.26878 0.00018597 3.875 0.0026811 691.882334104827 58.855 0.17054 58.855 58.758 58.928 0 18 11 2 0 0 0 0.0018972 1 27184 27184 76.825 59.712 1 1030200 29817 9748 19163 19222 33570 33570 0.07505029622507209 RYLPKGFLNQF 11 Unmodified _RYLPKGFLNQF_ 0 0 0 nc|ENSG00000169398|Q05397-7|PTK2;nc|ENSG00000169398|Q05397|PTK2;nc|ENSG00000169398|Q05397-5|PTK2;PTK2|p.Q300Hfs*16|1|0.02|ENSG00000169398|chr8:140803618-140803619|-/AAATAGGGATGTTTTAGAATTG|frameshift_variant;ENSG00000169398|ENST00000696786|PTK2 nc|ENSG00000169398|Q05397-7|PTK2 nc|ENSG00000169398|Q05397-7|PTK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 461.5923767089844 3 461.590828 1381.75066 2.4875 0.0011482 0.57923 0.00026737 3.0667 0.0014156 461.59091244814107 57.673 0.25007 58.442 58.284 58.534 0.76861 45 19 3 0 0 0 0.092227 1 26404 26404 35.08 32.827 1 1990000 29818 9748 19163 19222 33571 33571 0.07505029622507209 RYLPKLKAF 9 Unmodified _RYLPKLKAF_ 0 0 0 ENSG00000121671|ENST00000616080|CRY2;nc|ENSG00000121671|Q49AN0-2|CRY2 ENSG00000121671|ENST00000616080|CRY2 ENSG00000121671|ENST00000616080|CRY2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.2388916015625 3 379.237726 1134.69135 2.8188 0.001069 0.23744 9.0048E-05 3.0563 0.0011591 379.2377509628309 37.302 0.15977 37.302 37.219 37.378 0 8 5 2 0 0 0 0.21127 1 16938 16938 22.658 13.913 1 325120 29819 2235 19164 19223 33572 33572 0.12939178398960394 RYLPKLKAF 9 Unmodified _RYLPKLKAF_ 0 0 0 ENSG00000121671|ENST00000616080|CRY2;nc|ENSG00000121671|Q49AN0-2|CRY2 ENSG00000121671|ENST00000616080|CRY2 ENSG00000121671|ENST00000616080|CRY2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.2384033203125 3 379.237726 1134.69135 2.5376 0.00096234 -0.063455 -2.4065E-05 2.4741 0.00093828 379.23739840571693 36.08 0.24384 36.871 36.757 37.001 0.79132 18 8 3 0 0 0 0.091193 1 16357 16357 34.932 29.635 1 263410 29820 2235 19164 19223 33573 33573 0.12939178398960394 RYLPKLKAF 9 Unmodified _RYLPKLKAF_ 0 0 0 ENSG00000121671|ENST00000616080|CRY2;nc|ENSG00000121671|Q49AN0-2|CRY2 ENSG00000121671|ENST00000616080|CRY2 ENSG00000121671|ENST00000616080|CRY2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 379.237726 1134.69135 2.8309 0.0010736 -0.69088 -0.00026201 2.14 0.00081159 379.2374223038975 36.454 0.33133 37.084 36.917 37.248 0.62999 0.10637 -0.00023954 NaN 34.932 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 149110 29821 2235 19164 19223 0.12939178398960394 RYLPTGSFPF 10 Unmodified _RYLPTGSFPF_ 0 0 0 nc|ENSG00000104723|Q13454-2|TUSC3;ENSG00000104723|ENST00000503731|TUSC3 nc|ENSG00000104723|Q13454-2|TUSC3 nc|ENSG00000104723|Q13454-2|TUSC3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 593.205322265625 2 592.808574 1183.60259 3.4538 0.0020474 -0.6741 -0.00039961 2.7797 0.0016478 592.8087131505686 69.976 0.10405 70.637 70.577 70.681 0.66071 9 6 2 0 0 0 0.12676 1 32057 32057 13.042 2.2185 1 382940 29822 9582 19165 19224 33574 33574 0.01813718368634909 RYLQTLTTI 9 Unmodified _RYLQTLTTI_ 0 0 0 nc|ENSG00000148175|P27105-2|STOM;ENSG00000148175|ENST00000286713|STOM nc|ENSG00000148175|P27105-2|STOM nc|ENSG00000148175|P27105-2|STOM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.8231201171875 2 554.821681 1107.62881 3.0295 0.0016808 0.2949 0.00016362 3.3244 0.0018444 554.8217273216206 52.701 0.19556 53.512 53.369 53.565 0.81065 17 11 2 0 0 0 0.0063542 1 24006 24006 88.954 14.025 1 1652600 29823 3592 19166 19225 33575 33575 0.0792998754011478 RYLQTLTTI 9 Unmodified _RYLQTLTTI_ 0 0 0 nc|ENSG00000148175|P27105-2|STOM;ENSG00000148175|ENST00000286713|STOM nc|ENSG00000148175|P27105-2|STOM nc|ENSG00000148175|P27105-2|STOM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.3260498046875 2 554.821681 1107.62881 3.5864 0.0019898 0.10843 6.0159E-05 3.6948 0.00205 554.8218085156045 53.565 0.27511 53.829 53.714 53.989 0.26462 32 12 3 0 0 0 0.0063542 2 24480 24480;24530 88.954 13.188 1 2380500 29824 3592 19166 19225 33576;33577 33576 0.0792998754011478 RYLQTLTTI 9 Unmodified _RYLQTLTTI_ 0 0 0 nc|ENSG00000148175|P27105-2|STOM;ENSG00000148175|ENST00000286713|STOM nc|ENSG00000148175|P27105-2|STOM nc|ENSG00000148175|P27105-2|STOM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.3257446289062 2 554.821681 1107.62881 3.3411 0.0018537 -0.45896 -0.00025464 2.8821 0.0015991 554.8215078291787 53.069 0.27059 53.734 53.595 53.865 0.6644 26 11 3 0 0 0 0.0029142 2 24260 24260;24320 96.111 14.221 1 2394900 29825 3592 19166 19225 33578;33579 33578 0.0792998754011478 RYLRELPLLF 10 Unmodified _RYLRELPLLF_ 0 0 0 nc|ENSG00000119777|Q6NUQ4-2|TMEM214;ENSG00000119777|ENST00000238788|TMEM214;ENST00000469445.1_1_2:27263203-27263702:+|nuORF nc|ENSG00000119777|Q6NUQ4-2|TMEM214 nc|ENSG00000119777|Q6NUQ4-2|TMEM214 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 440.6002502441406 3 440.599324 1318.77614 2.2853 0.0010069 0.60293 0.00026565 2.8882 0.0012725 440.59957033738704 72.815 0.27498 73.514 73.374 73.649 0.69881 31 23 2 0 0 0 0.50702 1 35115 35115 20.871 3.008 1 873770 29826 2167 19167 19226 33580 33580 0.12950504144941988 RYLRELPLLF 10 Unmodified _RYLRELPLLF_ 0 0 0 nc|ENSG00000119777|Q6NUQ4-2|TMEM214;ENSG00000119777|ENST00000238788|TMEM214;ENST00000469445.1_1_2:27263203-27263702:+|nuORF nc|ENSG00000119777|Q6NUQ4-2|TMEM214 nc|ENSG00000119777|Q6NUQ4-2|TMEM214 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 440.77886962890625 3 440.599324 1318.77614 2.5038 0.0011032 1.1029 0.00048592 3.6067 0.0015891 440.60047584300565 73.039 0.1237 73.703 73.641 73.765 0.66398 11 10 2 0 0 0 0.69332 1 33546 33546 13.519 0.64606 1 296080 29827 2167 19167 19226 33581 33581 0.12950504144941988 RYLRELPLLF 10 Unmodified _RYLRELPLLF_ 0 0 0 nc|ENSG00000119777|Q6NUQ4-2|TMEM214;ENSG00000119777|ENST00000238788|TMEM214;ENST00000469445.1_1_2:27263203-27263702:+|nuORF nc|ENSG00000119777|Q6NUQ4-2|TMEM214 nc|ENSG00000119777|Q6NUQ4-2|TMEM214 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 440.599324 1318.77614 2.2853 0.0010069 0.60293 0.00026565 2.8882 0.0012725 440.59957033738704 72.815 0.27498 73.514 73.374 73.649 0.69881 -0.094696 -0.00015864 NaN 20.871 31 23 2 NaN NaN NaN NaN 0 NaN NaN 0 873770 29828 2167 19167 19226 0.12950504144941988 RYLRLLEI 8 Unmodified _RYLRLLEI_ 0 0 0 nc|ENSG00000174792|Q17RF5-2|ODAPH nc|ENSG00000174792|Q17RF5-2|ODAPH nc|ENSG00000174792|Q17RF5-2|ODAPH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.2265319824219 3 359.225598 1074.65496 2.5916 0.00093097 -0.020149 -7.2382E-06 2.5715 0.00092374 359.2256130802488 36.439 0.27738 36.696 36.548 36.826 0.25768 18 10 2 0 0 0 0.74071 1 16634 16634 1.6526 0 1 616830 29829 9758 19168 19227 33582 33582 0.12062301502260198 RYLSFYWFKYY 11 Unmodified _RYLSFYWFKYY_ 0 0 0 ENST00000509649.5_1_5:21459626-21462031:+|nuORF ENST00000509649.5_1_5:21459626-21462031:+|nuORF ENST00000509649.5_1_5:21459626-21462031:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 818.7136840820312 2 818.403369 1634.79219 NaN NaN NaN NaN NaN NaN NaN 90.235 1 90.299 89.799 90.799 0.064346 0 0 0 1.0082 1 46449 46449 0 0 1 29830 8544 19169 19228 33583 33583 0.0001816559115468408 RYLSKVLEL 9 Unmodified _RYLSKVLEL_ 0 0 0 nc|nan|Q8WUR7-2|C15orf40;ENSG00000169609|ENST00000304177|C15orf40;nc|nan|Q8WUR7-3|C15orf40;ENST00000565725.1_1_15:83677164-83680359:-|nuORF nc|nan|Q8WUR7-2|C15orf40 nc|nan|Q8WUR7-2|C15orf40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.8412475585938 2 560.839874 1119.66519 3.4287 0.001923 -0.22271 -0.0001249 3.206 0.0017981 560.839720407374 49.401 0.25884 49.401 49.297 49.556 0 17 10 2 0 0 0 0.091193 1 22614 22614 34.932 7.3033 1 1276900 29831 4699 19170 19229 33584 33584 0.11014864436833705 RYLSKVLEL 9 Unmodified _RYLSKVLEL_ 0 0 0 nc|nan|Q8WUR7-2|C15orf40;ENSG00000169609|ENST00000304177|C15orf40;nc|nan|Q8WUR7-3|C15orf40;ENST00000565725.1_1_15:83677164-83680359:-|nuORF nc|nan|Q8WUR7-2|C15orf40 nc|nan|Q8WUR7-2|C15orf40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.56439208984375 3 374.229008 1119.66519 2.4071 0.0009008 -0.28707 -0.00010743 2.12 0.00079337 374.2287451673359 48.327 0.25509 49.154 49.025 49.28 0.82705 20 11 2 0 0 0 0.043585 1 21999 21999 45.74 15.899 1 965150 29832 4699 19170 19229 33585 33585 0.11014864436833705 RYLSKVLEL 9 Unmodified _RYLSKVLEL_ 0 0 0 nc|nan|Q8WUR7-2|C15orf40;ENSG00000169609|ENST00000304177|C15orf40;nc|nan|Q8WUR7-3|C15orf40;ENST00000565725.1_1_15:83677164-83680359:-|nuORF nc|nan|Q8WUR7-2|C15orf40 nc|nan|Q8WUR7-2|C15orf40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.8411865234375 2 560.839874 1119.66519 3.3247 0.0018646 -0.40646 -0.00022796 2.9182 0.0016367 560.8396247401635 48.339 0.27876 49.166 49.001 49.28 0.82705 20 12 2 0 0 0 0.084899 1 22030 22030 36.506 3.7205 1 824460 29833 4699 19170 19229 33586 33586 0.11014864436833705 RYLSKVLEL 9 Unmodified _RYLSKVLEL_ 0 0 0 nc|nan|Q8WUR7-2|C15orf40;ENSG00000169609|ENST00000304177|C15orf40;nc|nan|Q8WUR7-3|C15orf40;ENST00000565725.1_1_15:83677164-83680359:-|nuORF nc|nan|Q8WUR7-2|C15orf40 nc|nan|Q8WUR7-2|C15orf40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.8419799804688 2 560.839874 1119.66519 3.6549 0.0020498 -0.23407 -0.00013128 3.4208 0.0019185 560.8398842778658 49.201 0.25784 49.462 49.329 49.587 0.26146 14 9 2 0 0 0 0.030603 1 22504 22504 55.503 17.327 1 581050 29834 4699 19170 19229 33587 33587 0.11014864436833705 RYLSKVLEL 9 Unmodified _RYLSKVLEL_ 0 0 0 nc|nan|Q8WUR7-2|C15orf40;ENSG00000169609|ENST00000304177|C15orf40;nc|nan|Q8WUR7-3|C15orf40;ENST00000565725.1_1_15:83677164-83680359:-|nuORF nc|nan|Q8WUR7-2|C15orf40 nc|nan|Q8WUR7-2|C15orf40 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 374.229008 1119.66519 2.792 0.0010448 -0.34407 -0.00012876 2.4479 0.00091609 374.5631929732399 49.375 0.22891 49.375 49.297 49.526 0 0.11054 -2.9108E-05 NaN 45.74 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 778420 29835 4699 19170 19229 0.11014864436833705 RYLSPKYIKMF 11 Unmodified _RYLSPKYIKMF_ 0 0 0 ENSG00000161960|ENST00000293831|EIF4A1;ENST00000578324.5_1_17:7477602-7481249:+|nuORF;nc|ENSG00000161960|P60842-2|EIF4A1;ENST00000581621.1_1_17:7476159-7481249:+|nuORF;ENST00000577731.1_1_17:7478540-7480862:+|nuORF;ENST00000581544.5_1_17:7477924-7481249:+|nuORF;ENST00000448133.1_1_13:61211649-61211793:-|nuORF ENSG00000161960|ENST00000293831|EIF4A1 ENSG00000161960|ENST00000293831|EIF4A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 482.6052551269531 3 482.603969 1444.79008 3.0901 0.0014913 -0.20908 -0.0001009 2.881 0.0013904 482.60396381012794 47.984 0.43585 47.984 47.813 48.248 0 58 18 4 0 0 0 0.0021447 1 21984 21984 75.941 58.369 1 3056800 29836 4112 19171 19230 33588 33588 0.08547413581686669 RYLSPKYIKMF 11 Unmodified _RYLSPKYIKMF_ 0 0 0 ENSG00000161960|ENST00000293831|EIF4A1;ENST00000578324.5_1_17:7477602-7481249:+|nuORF;nc|ENSG00000161960|P60842-2|EIF4A1;ENST00000581621.1_1_17:7476159-7481249:+|nuORF;ENST00000577731.1_1_17:7478540-7480862:+|nuORF;ENST00000581544.5_1_17:7477924-7481249:+|nuORF;ENST00000448133.1_1_13:61211649-61211793:-|nuORF ENSG00000161960|ENST00000293831|EIF4A1 ENSG00000161960|ENST00000293831|EIF4A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.6055908203125 3 482.603969 1444.79008 2.9895 0.0014427 -0.033511 -1.6173E-05 2.956 0.0014266 482.6040273741395 46.828 0.37303 47.657 47.448 47.821 0.82915 51 18 4 0 0 0 0.00014138 3 21291 21291;21348;21395 85.729 80.206 1 2759300 29837 4112 19171 19230 33589;33590;33591 33589 0.08547413581686669 RYLSPKYIKMF 11 Unmodified _RYLSPKYIKMF_ 0 0 0 ENSG00000161960|ENST00000293831|EIF4A1;ENST00000578324.5_1_17:7477602-7481249:+|nuORF;nc|ENSG00000161960|P60842-2|EIF4A1;ENST00000581621.1_1_17:7476159-7481249:+|nuORF;ENST00000577731.1_1_17:7478540-7480862:+|nuORF;ENST00000581544.5_1_17:7477924-7481249:+|nuORF;ENST00000448133.1_1_13:61211649-61211793:-|nuORF ENSG00000161960|ENST00000293831|EIF4A1 ENSG00000161960|ENST00000293831|EIF4A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.60565185546875 3 482.603969 1444.79008 3.2798 0.0015828 -0.20554 -9.9193E-05 3.0742 0.0014836 482.6039205058642 47.94 0.41896 48.204 47.986 48.405 0.26363 51 17 4 0 0 0 0.0037113 1 21911 21911 70.345 60.58 1 2182100 29838 4112 19171 19230 33592 33592 0.08547413581686669 RYLSPKYIKMF 11 Unmodified _RYLSPKYIKMF_ 0 0 0 ENSG00000161960|ENST00000293831|EIF4A1;ENST00000578324.5_1_17:7477602-7481249:+|nuORF;nc|ENSG00000161960|P60842-2|EIF4A1;ENST00000581621.1_1_17:7476159-7481249:+|nuORF;ENST00000577731.1_1_17:7478540-7480862:+|nuORF;ENST00000581544.5_1_17:7477924-7481249:+|nuORF;ENST00000448133.1_1_13:61211649-61211793:-|nuORF ENSG00000161960|ENST00000293831|EIF4A1 ENSG00000161960|ENST00000293831|EIF4A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.9400634765625 3 482.603969 1444.79008 3.1419 0.0015163 0.10437 5.0372E-05 3.2463 0.0015667 482.60408660781235 47.385 0.4735 48.038 47.741 48.214 0.65356 70 21 4 0 0 0 0.0016054 1 21672 21672 77.867 66.802 1 1446100 29839 4112 19171 19230 33593 33593 0.08547413581686669 RYLTGAWRL 9 Unmodified _RYLTGAWRL_ 0 0 0 nc|ENSG00000120697|Q9Y673-2|ALG5;ENSG00000120697|ENST00000239891|ALG5 nc|ENSG00000120697|Q9Y673-2|ALG5 nc|ENSG00000120697|Q9Y673-2|ALG5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.552978515625 3 379.217214 1134.62981 2.8084 0.001065 -0.2792 -0.00010588 2.5292 0.00095912 379.21709348594186 50.502 0.27221 50.502 50.336 50.608 0 26 11 3 0 0 0 0.0063542 2 23140 23091;23140 71.708 55.559 1 964310 29840 2208 19172 19231 33594;33595 33595 0.06788246699693445 RYLTGAWRL 9 Unmodified _RYLTGAWRL_ 0 0 0 nc|ENSG00000120697|Q9Y673-2|ALG5;ENSG00000120697|ENST00000239891|ALG5 nc|ENSG00000120697|Q9Y673-2|ALG5 nc|ENSG00000120697|Q9Y673-2|ALG5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.55224609375 3 379.217214 1134.62981 2.5322 0.00096025 -0.24814 -9.4099E-05 2.284 0.00086615 379.5512806379205 49.33 0.33797 50.157 49.985 50.323 0.82705 34 15 3 0 0 0 0.012326 3 22444 22444;22456;22511 63.227 51.71 1 691560 29841 2208 19172 19231 33596;33597;33598 33596 0.06788246699693445 RYLTGAWRL 9 Unmodified _RYLTGAWRL_ 0 0 0 nc|ENSG00000120697|Q9Y673-2|ALG5;ENSG00000120697|ENST00000239891|ALG5 nc|ENSG00000120697|Q9Y673-2|ALG5 nc|ENSG00000120697|Q9Y673-2|ALG5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.3240966796875 2 568.322183 1134.62981 3.5804 0.0020348 -0.6594 -0.00037475 2.921 0.0016601 568.3218283872557 49.364 0.33628 50.191 50.005 50.342 0.82705 36 15 3 0 0 0 0.81759 1 22449 22449 7.1017 0.37856 1 735610 29842 2208 19172 19231 33599 33599 0.06788246699693445 RYLTGAWRL 9 Unmodified _RYLTGAWRL_ 0 0 0 nc|ENSG00000120697|Q9Y673-2|ALG5;ENSG00000120697|ENST00000239891|ALG5 nc|ENSG00000120697|Q9Y673-2|ALG5 nc|ENSG00000120697|Q9Y673-2|ALG5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 379.217214 1134.62981 2.7274 0.0010343 -1.1677 -0.00044283 1.5596 0.00059144 379.21689855891094 49.712 0.25493 50.369 50.277 50.532 0.65735 0.026478 -0.00092151 NaN 71.708 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 557640 29843 2208 19172 19231 0.06788246699693445 RYLTVAAVF 9 Unmodified _RYLTVAAVF_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENST00000454403.1_1_13:41958968-41959286:-|nuORF;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.3019409179688 2 520.300384 1038.58622 3.5605 0.0018525 -0.18047 -9.3898E-05 3.38 0.0017586 520.3003253219604 66.223 0.3606 66.472 66.289 66.65 0.24847 61 20 4 0 0 0 0.017293 3 30350 30299;30350;30410 71.922 41.286 1 9552500 29844 5660;1452 19173 19232 33600;33601;33602 33601 0.06846637202556849 RYLTVAAVF 9 Unmodified _RYLTVAAVF_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENST00000454403.1_1_13:41958968-41959286:-|nuORF;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.302001953125 2 520.300384 1038.58622 3.4741 0.0018076 -0.28179 -0.00014661 3.1923 0.0016609 520.3002230297728 65.568 0.35265 66.225 66.056 66.408 0.65672 55 18 4 0 0 0 0.024388 3 30035 30035;30077;30135 62.573 34.086 1 8708400 29845 5660;1452 19173 19232 33603;33604;33605 33603 0.06846637202556849 RYLTVAAVF 9 Unmodified _RYLTVAAVF_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENST00000454403.1_1_13:41958968-41959286:-|nuORF;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 520.300384 1038.58622 2.8282 0.0014715 -0.88619 -0.00046109 1.942 0.0010104 520.2998341953567 65.34 0.16086 66.049 65.993 66.153 0.70891 -0.24063 -0.0005884 NaN 71.922 37 20 2 NaN NaN NaN NaN 0 NaN NaN 0 6758500 29846 5660;1452 19173 19232 0.06846637202556849 RYLTVATVF 9 Unmodified _RYLTVATVF_ 0 0 0 nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3 nc|ENSG00000258947|Q13509-2|TUBB3 nc|ENSG00000258947|Q13509-2|TUBB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.308349609375 2 535.305667 1068.59678 2.966 0.0015877 0.44375 0.00023754 3.4097 0.0018253 535.3058190401266 64.673 0.23067 64.921 64.822 65.053 0.24803 43 25 2 0 0 0 0.078225 2 29606 29606;29659 38.176 14.155 1 4030700 29847 6301 19174 19233 33606;33607 33606 0.06522619856991696 RYLTVATVF 9 Unmodified _RYLTVATVF_ 0 0 0 nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3 nc|ENSG00000258947|Q13509-2|TUBB3 nc|ENSG00000258947|Q13509-2|TUBB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.3068237304688 2 535.305667 1068.59678 NaN NaN NaN NaN NaN NaN NaN 63.993 1 64.65 64.15 65.15 0.65672 0 0 0 0.31736 1 29328 29328 26.268 2.2476 1 29848 6301 19174 19233 33608 33608 0.06522619856991696 RYLTVATVF 9 Unmodified _RYLTVATVF_ 0 0 0 nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3 nc|ENSG00000258947|Q13509-2|TUBB3 nc|ENSG00000258947|Q13509-2|TUBB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.3068237304688 2 535.305667 1068.59678 NaN NaN NaN NaN NaN NaN NaN 64.11 1 64.767 64.267 65.267 0.65672 0 0 0 0.078562 1 29385 29385 45.7 15.063 1 29849 6301 19174 19233 33609 33609 0.06522619856991696 RYLVEVEEL 9 Unmodified _RYLVEVEEL_ 0 0 0 ENSG00000088356|ENST00000202017|PDRG1 ENSG00000088356|ENST00000202017|PDRG1 ENSG00000088356|ENST00000202017|PDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.313232421875 2 575.311146 1148.60774 3.1394 0.0018061 0.77328 0.00044488 3.9127 0.002251 575.311401749163 59.787 0.16746 60.536 60.402 60.569 0.74927 20 14 2 0 0 0 0.063112 1 27444 27444 41.956 0.11592 1 1634900 29850 1013 19175 19234 33610 33610 0.03937977440614304 RYLVEVEEL 9 Unmodified _RYLVEVEEL_ 0 0 0 ENSG00000088356|ENST00000202017|PDRG1 ENSG00000088356|ENST00000202017|PDRG1 ENSG00000088356|ENST00000202017|PDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.3165893554688 2 575.311146 1148.60774 3.3719 0.0019399 2.1931 0.0012617 5.565 0.0032016 575.312526154078 60.626 0.21157 60.881 60.848 61.059 0.25578 24 14 2 0 0 0 0.24524 1 27846 27846 20.415 2.2682 1 1011700 29851 1013 19175 19234 33611 33611 0.03937977440614304 RYLVEVEEL 9 Unmodified _RYLVEVEEL_ 0 0 0 ENSG00000088356|ENST00000202017|PDRG1 ENSG00000088356|ENST00000202017|PDRG1 ENSG00000088356|ENST00000202017|PDRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.3147583007812 2 575.311146 1148.60774 3.7009 0.0021292 3.9922 0.0022968 7.6931 0.0044259 575.3129851727676 60.12 0.11224 60.785 60.748 60.86 0.66503 12 9 2 0 0 0 0.084899 1 27534 27534 36.506 2.1045 1 1708300 29852 1013 19175 19234 33612 33612 0.03937977440614304 RYLVHPSR 8 Unmodified _RYLVHPSR_ 0 0 0 ENST00000507681.1_1_5:179868817-179869781:+|nuORF ENST00000507681.1_1_5:179868817-179869781:+|nuORF ENST00000507681.1_1_5:179868817-179869781:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 343.20880126953125 3 343.198042 1026.5723 NaN NaN NaN NaN NaN NaN NaN 47.143 1 47.973 47.473 48.473 0.82915 0 0 0 0.99035 1 21477 21477 3.5965 0.60125 1 29853 8525 19176 19235 33613 33613 0.06007404494130242 RYLVISEKL 9 Unmodified _RYLVISEKL_ 0 0 0 ENSG00000116212|ENST00000371370|LRRC42 ENSG00000116212|ENST00000371370|LRRC42 ENSG00000116212|ENST00000371370|LRRC42 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.8416748046875 2 560.839874 1119.66519 3.3546 0.0018814 0.18995 0.00010653 3.5446 0.0019879 560.8397622355678 45.35 0.27942 45.35 45.215 45.494 0 34 14 3 0 0 0 0.023321 1 20741 20741 63.961 22.005 1 2601900 29854 2020 19177 19236 33614 33614 0.11014864436833705 RYLVISEKL 9 Unmodified _RYLVISEKL_ 0 0 0 ENSG00000116212|ENST00000371370|LRRC42 ENSG00000116212|ENST00000371370|LRRC42 ENSG00000116212|ENST00000371370|LRRC42 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.8414306640625 2 560.839874 1119.66519 3.2367 0.0018152 -0.05356 -3.0038E-05 3.1831 0.0017852 560.8398894299648 44.229 0.32361 45.049 44.887 45.21 0.82075 49 17 4 0 0 0 0.010904 2 20146 20091;20146 80.676 29.046 1 1834800 29855 2020 19177 19236 33615;33616 33616 0.11014864436833705 RYLVISEKL 9 Unmodified _RYLVISEKL_ 0 0 0 ENSG00000116212|ENST00000371370|LRRC42 ENSG00000116212|ENST00000371370|LRRC42 ENSG00000116212|ENST00000371370|LRRC42 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.8416748046875 2 560.839874 1119.66519 3.4391 0.0019288 -0.14016 -7.8606E-05 3.299 0.0018502 560.839570675988 45.231 0.28251 45.499 45.337 45.62 0.26768 27 12 3 0 0 0 0.0023958 2 20660 20660;20714 100.09 20.494 1 2234100 29856 2020 19177 19236 33617;33618 33617 0.11014864436833705 RYLVISEKL 9 Unmodified _RYLVISEKL_ 0 0 0 ENSG00000116212|ENST00000371370|LRRC42 ENSG00000116212|ENST00000371370|LRRC42 ENSG00000116212|ENST00000371370|LRRC42 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.8416748046875 2 560.839874 1119.66519 3.7088 0.00208 0.047219 2.6482E-05 3.756 0.0021065 560.8397724431575 44.543 0.35685 45.193 45.014 45.371 0.64998 33 13 4 0 0 0 0.0090098 2 20445 20395;20445 83.429 23.85 1 1595300 29857 2020 19177 19236 33619;33620 33620 0.11014864436833705 RYLVKYGK 8 Unmodified _RYLVKYGK_ 0 0 0 REV__nc|ENSG00000144619|Q8IWV2-2|CNTN4 REV__nc|ENSG00000144619|Q8IWV2-2|CNTN4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 342.8759765625 3 342.874677 1025.6022 2.4046 0.00082448 -0.72815 -0.00024967 1.6765 0.00057482 343.208361121595 47.656 0.52924 48.309 48.09 48.619 0.65356 44 23 2 0 0 0 0.141 1 21784 21784 6.7232 2.3939 1 730180 + 29858 12409 19178 19237 33621 33621 0.0904234343945518 RYMDAWNTV 9 Unmodified _RYMDAWNTV_ 0 0 0 ENSG00000099800|ENST00000215570|TIMM13 ENSG00000099800|ENST00000215570|TIMM13 ENSG00000099800|ENST00000215570|TIMM13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.26904296875 2 578.266216 1154.51788 3.5866 0.002074 0.3805 0.00022003 3.9671 0.002294 578.2665215900174 50.218 0.31234 50.218 50.054 50.367 0 40 15 3 0 0 0 0.011692 2 22974 22974;23032 79.596 50.515 1 1425800 29859 1151 19179 19238 33622;33623 33622 -0.053199754396246135 RYMDAWNTV 9 Unmodified _RYMDAWNTV_ 0 0 0 ENSG00000099800|ENST00000215570|TIMM13 ENSG00000099800|ENST00000215570|TIMM13 ENSG00000099800|ENST00000215570|TIMM13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.2678833007812 2 578.266216 1154.51788 3.4379 0.001988 -0.73862 -0.00042712 2.6993 0.0015609 578.266138027148 49.113 0.36162 49.94 49.762 50.124 0.82705 46 18 4 0 0 0 0.0024283 3 22393 22348;22393;22450 99.755 61.781 1 1137000 29860 1151 19179 19238 33624;33625;33626 33625 -0.053199754396246135 RYMDAWNTV 9 Unmodified _RYMDAWNTV_ 0 0 0 ENSG00000099800|ENST00000215570|TIMM13 ENSG00000099800|ENST00000215570|TIMM13 ENSG00000099800|ENST00000215570|TIMM13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.2689208984375 2 578.266216 1154.51788 3.2952 0.0019055 0.7881 0.00045573 4.0833 0.0023612 578.2663644424662 50.202 0.22261 50.463 50.364 50.587 0.26146 14 7 3 0 0 0 0.084899 1 22946 22946 36.506 18.36 1 416320 29861 1151 19179 19238 33627 33627 -0.053199754396246135 RYMDAWNTV 9 Unmodified _RYMDAWNTV_ 0 0 0 ENSG00000099800|ENST00000215570|TIMM13 ENSG00000099800|ENST00000215570|TIMM13 ENSG00000099800|ENST00000215570|TIMM13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.26904296875 2 578.266216 1154.51788 3.6984 0.0021386 0.92443 0.00053457 4.6228 0.0026732 578.2666111651857 49.616 0.17309 50.273 50.167 50.34 0.65735 10 5 2 0 0 0 0.084899 1 22710 22710 36.506 17.144 1 386770 29862 1151 19179 19238 33628 33628 -0.053199754396246135 RYMDQWVPVI 10 Unmodified _RYMDQWVPVI_ 0 0 0 ENSG00000116717|ENST00000370986|GADD45A;nc|ENSG00000116717|P24522-2|GADD45A ENSG00000116717|ENST00000370986|GADD45A ENSG00000116717|ENST00000370986|GADD45A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 653.837646484375 2 653.834265 1305.65398 NaN NaN NaN NaN NaN NaN NaN 75.875 1 76.539 76.039 77.039 0.6635 0 0 0 0.34662 1 36755 36755 34.932 18.783 1 29863 2044 19180 19239 33629 33629 0.013377190710343712 RYMDQWVPVI 10 Unmodified _RYMDQWVPVI_ 0 0 0 ENSG00000116717|ENST00000370986|GADD45A;nc|ENSG00000116717|P24522-2|GADD45A ENSG00000116717|ENST00000370986|GADD45A ENSG00000116717|ENST00000370986|GADD45A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 653.8363037109375 2 653.834265 1305.65398 3.5861 0.0023447 0.366 0.0002393 3.9521 0.002584 653.8345785312573 76.628 0.16543 76.883 76.797 76.962 0.25533 13 10 2 0 0 0 0.69129 1 35306 35306 13.615 7.883 1 552630 29864 2044 19180 19239 33630 33630 0.013377190710343712 RYMDQWVPVI 10 Unmodified _RYMDQWVPVI_ 0 0 0 ENSG00000116717|ENST00000370986|GADD45A;nc|ENSG00000116717|P24522-2|GADD45A ENSG00000116717|ENST00000370986|GADD45A ENSG00000116717|ENST00000370986|GADD45A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 653.8375854492188 2 653.834265 1305.65398 3.5798 0.0023406 -0.27545 -0.0001801 3.3044 0.0021605 653.8338450061402 76.183 0.19514 76.847 76.736 76.931 0.66387 16 12 2 0 0 0 0.57441 1 35079 35079 18.373 10.218 1 464260 29865 2044 19180 19239 33631 33631 0.013377190710343712 RYMDQWVPVI 10 Unmodified _RYMDQWVPVI_ 0 0 0 ENSG00000116717|ENST00000370986|GADD45A;nc|ENSG00000116717|P24522-2|GADD45A ENSG00000116717|ENST00000370986|GADD45A ENSG00000116717|ENST00000370986|GADD45A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 653.834265 1305.65398 3.113 0.0020354 0.70413 0.00046039 3.8172 0.0024958 654.3358500971611 76.936 0.15031 76.936 76.854 77.004 0 0.046992 0.00069851 NaN 18.373 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 1285800 29866 2044 19180 19239 0.013377190710343712 RYMEVSGNL 9 Unmodified _RYMEVSGNL_ 0 0 0 ENSG00000183431|ENST00000373019|SF3A3 ENSG00000183431|ENST00000373019|SF3A3 ENSG00000183431|ENST00000373019|SF3A3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.2479858398438 2 534.760766 1067.50698 3.0982 0.0016568 1.362 0.00072836 4.4602 0.0023852 534.7609206538713 38.699 0.3116 38.699 38.58 38.891 0 18 13 2 0 0 0 0.046443 1 17565 17565 34.932 9.5328 1 596560 29867 5380 19181 19240 33632 33632 -0.02407377813869971 RYMEVSGNL 9 Unmodified _RYMEVSGNL_ 0 0 0 ENSG00000183431|ENST00000373019|SF3A3 ENSG00000183431|ENST00000373019|SF3A3 ENSG00000183431|ENST00000373019|SF3A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 534.76318359375 2 534.760766 1067.50698 3.099 0.0016572 2.246 0.0012011 5.345 0.0028583 534.7611157312749 37.691 0.24786 38.487 38.341 38.588 0.79552 16 11 2 0 0 0 0.43294 1 17108 17108 13.615 2.7909 1 589090 29868 5380 19181 19240 33633 33633 -0.02407377813869971 RYMNHMQSL 9 Unmodified _RYMNHMQSL_ 0 0 0 ENSG00000166233|ENST00000379887|ARIH1 ENSG00000166233|ENST00000379887|ARIH1 ENSG00000166233|ENST00000379887|ARIH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.2750854492188 2 590.273518 1178.53248 3.6756 0.0021696 -4.1704 -0.0024617 -0.49488 -0.00029211 590.2712072104069 22.876 0.049049 23.517 23.477 23.526 0.64051 8 5 2 0 0 0 0.043585 1 10418 10418 49.933 19.296 1 703770 29869 4464 19182 19241 33634 33634 -0.04964226563106422 RYMPPAHRNF 10 Oxidation (M) _RYM(Oxidation (M))PPAHRNF_ RYM(1)PPAHRNF RYM(55)PPAHRNF 0 0 1 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 435.5495300292969 3 435.548746 1303.62441 2.2329 0.00097253 -0.26085 -0.00011361 1.972 0.00085892 435.5487520139151 12.835 0.21974 13.142 12.996 13.216 0.30727 19 6 4 0 0 0 0.081745 1 5780 5780 55.235 48.198 1 1378800 29870 2646 19183 19242 33635 33635 39 -0.015258001544225408 RYMPPAHRNF 10 Unmodified _RYMPPAHRNF_ 0 0 0 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.21826171875 3 430.217108 1287.62949 2.6656 0.0011468 -0.696 -0.00029943 1.9696 0.00084736 430.2167916547772 14.131 0.39782 14.438 14.381 14.779 0.3069 56 29 2 0 0 0 3.4213E-05 3 6375 6375;6417;6464 84.522 71.666 1 27968000 29871 2646 19183 19243 33636;33637;33638 33636 -0.0028149629181370983 RYMPPAHRNF 10 Unmodified _RYMPPAHRNF_ 0 0 0 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.552734375 3 430.217108 1287.62949 2.721 0.0011706 -0.30204 -0.00012994 2.419 0.0010407 430.2169302890707 18.625 0.16788 18.922 18.781 18.949 0.29753 36 20 2 0 0 0 0.019635 1 8422 8422 63.227 57.444 1 1815000 29872 2646 19183 19243 33639 33639 -0.0028149629181370983 RYMPPAHRNF 10 Unmodified _RYMPPAHRNF_ 0 0 0 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.21881103515625 3 430.217108 1287.62949 NaN NaN NaN NaN NaN NaN NaN 18.657 1 18.955 18.455 19.455 0.29753 0 0 0 0.087978 1 8465 8465 40.725 32.281 1 29873 2646 19183 19243 33640 33640 -0.0028149629181370983 RYMPPAHRNF 10 Unmodified _RYMPPAHRNF_ 0 0 0 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.2178955078125 3 430.217108 1287.62949 3.135 0.0013487 -0.8 -0.00034417 2.335 0.0010045 430.21669528254125 14.108 0.26172 14.756 14.698 14.96 0.6482 113 40 4 0 0 0 2.3684E-06 3 6370 6328;6370;6416 110.79 97.937 1 31408000 29874 2646 19183 19243 33641;33642;33643 33642 -0.0028149629181370983 RYMPPAHRNF 10 Unmodified _RYMPPAHRNF_ 0 0 0 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 644.8240966796875 2 644.822024 1287.62949 4.0192 0.0025916 0.40702 0.00026245 4.4262 0.0028541 644.8218217644172 14.104 0.066245 14.752 14.728 14.794 0.6482 13 10 2 0 0 0 4.3296E-06 1 6344 6344 126.57 94.528 1 2597400 29875 2646 19183 19243 33644 33644 -0.0028149629181370983 RYMPPAHRNF 10 Unmodified _RYMPPAHRNF_ 0 0 0 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.21905517578125 3 430.217108 1287.62949 NaN NaN NaN NaN NaN NaN NaN 18.162 1 18.823 18.323 19.323 0.66072 0 0 0 4.3105E-05 1 8215 8215 107.1 90.051 1 29876 2646 19183 19243 33645 33645 -0.0028149629181370983 RYMPPAHRNF 10 Unmodified _RYMPPAHRNF_ 0 0 0 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 430.217108 1287.62949 3.0962 0.001332 -0.34156 -0.00014694 2.7546 0.0011851 430.5515731918912 18.181 0.019222 18.842 18.832 18.851 0.66072 -0.040069 -4.2531E-05 NaN 63.227 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 2947300 29877 2646 19183 19243 -0.0028149629181370983 RYMPPAHRNFL 11 Unmodified _RYMPPAHRNFL_ 0 0 0 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 467.91351318359375 3 467.911796 1400.71356 NaN NaN NaN NaN NaN NaN NaN 28.813 1 29.074 28.574 29.574 0.2602 0 0 0 0.22283 1 13110 13110 38.559 31.082 1 29878 2646 19184 19244 33646 33646 0.02923034805098723 RYMPPAHRNFL 11 Unmodified _RYMPPAHRNFL_ 0 0 0 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 467.9131774902344 3 467.911796 1400.71356 NaN NaN NaN NaN NaN NaN NaN 29.059 1 29.319 28.819 29.819 0.2602 0 0 0 0.95688 1 13224 13224 5.8681 4.5385 1 29879 2646 19184 19244 33647 33647 0.02923034805098723 RYMPPAHRNFL 11 Unmodified _RYMPPAHRNFL_ 0 0 0 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 ENSG00000131203|ENST00000518237|IDO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.9139099121094 3 467.911796 1400.71356 2.8224 0.0013206 0.36135 0.00016908 3.1837 0.0014897 467.91191590152397 28.397 0.58024 29.017 28.777 29.358 0.61947 66 35 2 0 0 0 0.19044 3 12952 12952;12995;13045 28.181 25.338 1 450930 29880 2646 19184 19244 33648;33649;33650 33648 0.02923034805098723 RYMPQNPCII 10 Carbamidomethyl (C) _RYMPQNPC(Carbamidomethyl (C))II_ RYMPQNPC(1)II RYMPQNPC(79)II 0 1 0 ENST00000502424.1_1_5:14797477-14798464:-|nuORF;nc|ENSG00000162521|Q09028-4|RBBP4;nc|ENSG00000162521|Q09028-3|RBBP4;nc|ENSG00000162521|Q09028-2|RBBP4;ENSG00000162521|ENST00000373493|RBBP4;ENST00000398588.2_1_6:58446590-58447106:-|nuORF;ENST00000401893.7_1_1:33116898-33134028:+|nuORF ENST00000502424.1_1_5:14797477-14798464:-|nuORF ENST00000502424.1_1_5:14797477-14798464:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 646.322509765625 2 646.317925 1290.6213 3.744 0.0024198 0.039227 2.5353E-05 3.7832 0.0024451 646.3183188464924 48.417 0.38939 48.417 48.192 48.581 0 59 25 3 0 0 0 0.019222 3 22167 22122;22167;22221 78.728 51.844 1 2365700 29881 4141 19185 19245 33651;33652;33653 33652 75 -0.012388113234464981 RYMPQNPCII 10 Carbamidomethyl (C) _RYMPQNPC(Carbamidomethyl (C))II_ RYMPQNPC(1)II RYMPQNPC(69)II 0 1 0 ENST00000502424.1_1_5:14797477-14798464:-|nuORF;nc|ENSG00000162521|Q09028-4|RBBP4;nc|ENSG00000162521|Q09028-3|RBBP4;nc|ENSG00000162521|Q09028-2|RBBP4;ENSG00000162521|ENST00000373493|RBBP4;ENST00000398588.2_1_6:58446590-58447106:-|nuORF;ENST00000401893.7_1_1:33116898-33134028:+|nuORF ENST00000502424.1_1_5:14797477-14798464:-|nuORF ENST00000502424.1_1_5:14797477-14798464:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 646.3196411132812 2 646.317925 1290.6213 3.512 0.0022699 0.078719 5.0878E-05 3.5907 0.0023207 646.318315849401 47.302 0.30759 48.131 47.997 48.305 0.82915 41 17 3 0 0 0 0.021807 2 21589 21533;21589 69.105 49.987 1 2306100 29882 4141 19185 19245 33654;33655 33655 75 -0.012388113234464981 RYMPQNPCII 10 Carbamidomethyl (C) _RYMPQNPC(Carbamidomethyl (C))II_ RYMPQNPC(1)II RYMPQNPC(63)II 0 1 0 ENST00000502424.1_1_5:14797477-14798464:-|nuORF;nc|ENSG00000162521|Q09028-4|RBBP4;nc|ENSG00000162521|Q09028-3|RBBP4;nc|ENSG00000162521|Q09028-2|RBBP4;ENSG00000162521|ENST00000373493|RBBP4;ENST00000398588.2_1_6:58446590-58447106:-|nuORF;ENST00000401893.7_1_1:33116898-33134028:+|nuORF ENST00000502424.1_1_5:14797477-14798464:-|nuORF ENST00000502424.1_1_5:14797477-14798464:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 646.3198852539062 2 646.317925 1290.6213 3.9465 0.0025507 -0.0533 -3.4449E-05 3.8932 0.0025162 646.3176887493602 48.248 0.27895 48.51 48.347 48.626 0.2621 30 13 3 0 0 0 0.048946 2 22082 22031;22082 62.573 46.726 1 1334300 29883 4141 19185 19245 33656;33657 33657 75 -0.012388113234464981 RYMPQNPCII 10 Carbamidomethyl (C) _RYMPQNPC(Carbamidomethyl (C))II_ RYMPQNPC(1)II RYMPQNPC(65)II 0 1 0 ENST00000502424.1_1_5:14797477-14798464:-|nuORF;nc|ENSG00000162521|Q09028-4|RBBP4;nc|ENSG00000162521|Q09028-3|RBBP4;nc|ENSG00000162521|Q09028-2|RBBP4;ENSG00000162521|ENST00000373493|RBBP4;ENST00000398588.2_1_6:58446590-58447106:-|nuORF;ENST00000401893.7_1_1:33116898-33134028:+|nuORF ENST00000502424.1_1_5:14797477-14798464:-|nuORF ENST00000502424.1_1_5:14797477-14798464:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 646.3204345703125 2 646.317925 1290.6213 3.9592 0.0025589 0.012195 7.8818E-06 3.9714 0.0025668 646.318219262466 47.682 0.335 48.335 48.147 48.482 0.65356 30 14 3 0 0 0 0.037885 2 21821 21821;21870 65.235 47.089 1 1248600 29884 4141 19185 19245 33658;33659 33658 75 -0.012388113234464981 RYMPQNPHI 9 Unmodified _RYMPQNPHI_ 0 0 0 ENSG00000102054|ENST00000380087|RBBP7;nc|ENSG00000102054|Q16576-2|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.2916259765625 2 578.290025 1154.5655 3.7855 0.0021891 -0.32541 -0.00018818 3.4601 0.0020009 578.2897493346195 26.786 0.20102 26.786 26.663 26.864 0 20 12 2 0 0 0 0.071101 1 12074 12074 39.957 11.47 1 426820 29885 1328 19186 19246 33660 33660 -0.005602764487548484 RYMPQNPHI 9 Unmodified _RYMPQNPHI_ 0 0 0 ENSG00000102054|ENST00000380087|RBBP7;nc|ENSG00000102054|Q16576-2|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.7932739257812 2 578.290025 1154.5655 3.2545 0.0018821 -0.76834 -0.00044432 2.4862 0.0014377 578.289402641578 25.766 0.20147 26.529 26.431 26.633 0.76356 20 11 3 0 0 0 0.29781 1 11592 11592 16.942 4.4107 1 418760 29886 1328 19186 19246 33661 33661 -0.005602764487548484 RYMPQNPHI 9 Unmodified _RYMPQNPHI_ 0 0 0 ENSG00000102054|ENST00000380087|RBBP7;nc|ENSG00000102054|Q16576-2|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.7929077148438 2 578.290025 1154.5655 3.3417 0.0019325 0.33905 0.00019607 3.6807 0.0021285 578.2898703566566 26.728 0.18992 26.993 26.88 27.07 0.26489 20 11 2 0 0 0 0.3144 1 12161 12161 15.847 4.2069 1 168310 29887 1328 19186 19246 33662 33662 -0.005602764487548484 RYMPQNPHI 9 Unmodified _RYMPQNPHI_ 0 0 0 ENSG00000102054|ENST00000380087|RBBP7;nc|ENSG00000102054|Q16576-2|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.2918090820312 2 578.290025 1154.5655 3.5643 0.0020612 0.30045 0.00017375 3.8647 0.0022349 578.2901352794112 26.343 0.22065 26.968 26.848 27.068 0.62505 21 11 2 0 0 0 0.24465 1 12065 12065 20.454 8.8133 1 276760 29888 1328 19186 19246 33663 33663 -0.005602764487548484 RYMPQNPHII 10 Unmodified _RYMPQNPHII_ 0 0 0 ENSG00000102054|ENST00000380087|RBBP7;nc|ENSG00000102054|Q16576-2|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 423.55828857421875 3 423.55713 1267.64956 2.8013 0.0011865 0.058414 2.4742E-05 2.8597 0.0012113 423.557236207321 36.538 0.41544 36.538 36.325 36.74 0 55 19 4 0 0 0 0.01901 3 16581 16528;16581;16628 80.676 62.303 1 3719500 29889 1328 19187 19247 33664;33665;33666 33665 0.026442546481575846 RYMPQNPHII 10 Unmodified _RYMPQNPHII_ 0 0 0 ENSG00000102054|ENST00000380087|RBBP7;nc|ENSG00000102054|Q16576-2|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.8336791992188 2 634.832057 1267.64956 3.732 0.0023692 -0.42327 -0.00026871 3.3087 0.0021005 634.8317314087096 36.528 0.30117 36.528 36.366 36.668 0 34 14 3 0 0 0 0.13557 2 16561 16561;16617 56.177 32.387 1 1428400 29890 1328 19187 19247 33667;33668 33667 0.026442546481575846 RYMPQNPHII 10 Unmodified _RYMPQNPHII_ 0 0 0 ENSG00000102054|ENST00000380087|RBBP7;nc|ENSG00000102054|Q16576-2|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 423.5584411621094 3 423.55713 1267.64956 2.8563 0.0012098 0.28021 0.00011868 3.1365 0.0013285 423.5573276897411 35.583 0.30399 36.374 36.217 36.521 0.79131 51 15 5 0 0 0 0.01901 2 16138 16089;16138 80.676 62.303 1 3257100 29891 1328 19187 19247 33669;33670 33670 0.026442546481575846 RYMPQNPHII 10 Unmodified _RYMPQNPHII_ 0 0 0 ENSG00000102054|ENST00000380087|RBBP7;nc|ENSG00000102054|Q16576-2|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 634.8344116210938 2 634.832057 1267.64956 3.6481 0.0023159 0.4548 0.00028872 4.1029 0.0026046 634.8318800359407 35.584 0.22148 36.375 36.233 36.455 0.79131 27 11 4 0 0 0 0.18812 1 16113 16113 56.177 32.387 1 1210900 29892 1328 19187 19247 33671 33671 0.026442546481575846 RYMPQNPHII 10 Unmodified _RYMPQNPHII_ 0 0 0 ENSG00000102054|ENST00000380087|RBBP7;nc|ENSG00000102054|Q16576-2|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.5582275390625 3 423.55713 1267.64956 2.923 0.001238 -0.30246 -0.00012811 2.6205 0.0011099 423.55714212972407 36.452 0.30008 36.71 36.526 36.826 0.25768 37 11 4 0 0 0 0.019986 2 16604 16555;16604 71.708 53.335 1 2387300 29893 1328 19187 19247 33672;33673 33673 0.026442546481575846 RYMPQNPHII 10 Unmodified _RYMPQNPHII_ 0 0 0 ENSG00000102054|ENST00000380087|RBBP7;nc|ENSG00000102054|Q16576-2|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 634.83447265625 2 634.832057 1267.64956 3.7671 0.0023915 -0.5754 -0.00036528 3.1917 0.0020262 634.8319883154976 36.419 0.24864 36.676 36.548 36.797 0.25768 27 9 4 0 0 0 0.17471 1 16589 16589 49.933 26.143 1 922590 29894 1328 19187 19247 33674 33674 0.026442546481575846 RYMPQNPHII 10 Unmodified _RYMPQNPHII_ 0 0 0 ENSG00000102054|ENST00000380087|RBBP7;nc|ENSG00000102054|Q16576-2|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 423.5582580566406 3 423.55713 1267.64956 3.1134 0.0013187 -0.35369 -0.00014981 2.7597 0.0011689 423.5570455216888 35.898 0.29413 36.525 36.341 36.635 0.62631 29 10 4 0 0 0 0.10915 2 16458 16401;16458 51.415 33.042 1 1920300 29895 1328 19187 19247 33675;33676 33676 0.026442546481575846 RYMPQNPHII 10 Unmodified _RYMPQNPHII_ 0 0 0 ENSG00000102054|ENST00000380087|RBBP7;nc|ENSG00000102054|Q16576-2|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 ENSG00000102054|ENST00000380087|RBBP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 634.8338012695312 2 634.832057 1267.64956 4.0157 0.0025493 -0.35985 -0.00022844 3.6559 0.0023209 634.8318579496857 35.86 0.25954 36.486 36.341 36.601 0.62631 20 9 3 0 0 0 0.14784 1 16428 16428 62.573 38.783 1 981930 29896 1328 19187 19247 33677 33677 0.026442546481575846 RYMRIYRRYIY 11 Unmodified _RYMRIYRRYIY_ 0 0 0 nc|ENSG00000179397|Q5SY80-3|CATSPERE;ENSG00000179397|ENST00000366534|CATSPERE nc|ENSG00000179397|Q5SY80-3|CATSPERE nc|ENSG00000179397|Q5SY80-3|CATSPERE MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 826.948486328125 2 826.945744 1651.87694 NaN NaN NaN NaN NaN NaN NaN 43.786 1 44.055 43.555 44.555 0.2694 0 0 0 1.0082 1 20000 20000 0 0 1 29897 5215 19188 19248 33678 33678 0.07707212856143997 RYNEKCFKL 9 Carbamidomethyl (C) _RYNEKC(Carbamidomethyl (C))FKL_ RYNEKC(1)FKL RYNEKC(120)FKL 0 1 0 ENSG00000114796|ENST00000242810|KLHL24 ENSG00000114796|ENST00000242810|KLHL24 ENSG00000114796|ENST00000242810|KLHL24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 419.8865661621094 3 419.885135 1256.63358 2.9111 0.0012223 -0.38145 -0.00016016 2.5296 0.0010622 419.8849773816885 24.406 0.15277 24.406 24.328 24.481 0 49 30 2 0 0 0 0.0013345 2 10943 10943;10988 117.84 95.063 1 7696000 29898 1923 19189 19249 33679;33680 33679 45 0.015525484112231425 RYNERLDRLFI 11 Unmodified _RYNERLDRLFI_ 0 0 0 ENSG00000132801|ENST00000255152|ZSWIM3 ENSG00000132801|ENST00000255152|ZSWIM3 ENSG00000132801|ENST00000255152|ZSWIM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.2793884277344 3 498.944042 1493.8103 3.1413 0.0015673 -1.4852 -0.00074105 1.6561 0.00082628 499.27665755427415 49.926 0.30621 50.749 50.526 50.832 0.82285 19 13 2 0 0 0 0.81399 1 22749 22749 6.2344 0.83165 1 274050 29899 2726 19190 19250 33681 33681 0.08314300565871235 RYNPENNTW 9 Unmodified _RYNPENNTW_ 0 0 0 ENST00000480769.5_1_1:185267169-185274781:-|nuORF;ENST00000459929.5_1_1:185267169-185275646:-|nuORF;ENSG00000116679|ENST00000367498|IVNS1ABP;ENST00000494880.5_1_1:185268818-185270317:-|nuORF ENST00000480769.5_1_1:185267169-185274781:-|nuORF ENST00000480769.5_1_1:185267169-185274781:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 597.2738037109375 2 597.270344 1192.52613 NaN NaN NaN NaN NaN NaN NaN 30.653 1 30.653 30.153 31.153 0 0 0 0 0.0046916 1 13851 13851 92.653 62.017 1 29900 2039 19191 19251 33682 33682 -0.062427051986333026 RYNPENNTW 9 Unmodified _RYNPENNTW_ 0 0 0 ENST00000480769.5_1_1:185267169-185274781:-|nuORF;ENST00000459929.5_1_1:185267169-185275646:-|nuORF;ENSG00000116679|ENST00000367498|IVNS1ABP;ENST00000494880.5_1_1:185268818-185270317:-|nuORF ENST00000480769.5_1_1:185267169-185274781:-|nuORF ENST00000480769.5_1_1:185267169-185274781:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 597.2724609375 2 597.270344 1192.52613 NaN NaN NaN NaN NaN NaN NaN 29.543 1 30.332 29.832 30.832 0.78921 0 0 0 0.011979 1 13320 13320 82.529 51.893 1 29901 2039 19191 19251 33683 33683 -0.062427051986333026 RYNPENNTW 9 Unmodified _RYNPENNTW_ 0 0 0 ENST00000480769.5_1_1:185267169-185274781:-|nuORF;ENST00000459929.5_1_1:185267169-185275646:-|nuORF;ENSG00000116679|ENST00000367498|IVNS1ABP;ENST00000494880.5_1_1:185268818-185270317:-|nuORF ENST00000480769.5_1_1:185267169-185274781:-|nuORF ENST00000480769.5_1_1:185267169-185274781:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 597.2716674804688 2 597.270344 1192.52613 NaN NaN NaN NaN NaN NaN NaN 29.565 1 30.354 29.854 30.854 0.78921 0 0 0 0.00016988 1 13331 13331 103.35 61.514 1 29902 2039 19191 19251 33684 33684 -0.062427051986333026 RYNPENNTW 9 Unmodified _RYNPENNTW_ 0 0 0 ENST00000480769.5_1_1:185267169-185274781:-|nuORF;ENST00000459929.5_1_1:185267169-185275646:-|nuORF;ENSG00000116679|ENST00000367498|IVNS1ABP;ENST00000494880.5_1_1:185268818-185270317:-|nuORF ENST00000480769.5_1_1:185267169-185274781:-|nuORF ENST00000480769.5_1_1:185267169-185274781:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.2723388671875 2 597.270344 1192.52613 4.1504 0.0024789 0.34808 0.0002079 4.4985 0.0026868 597.2704166820805 30.624 0.28345 30.88 30.7 30.983 0.25614 31 19 2 0 0 0 0.10584 2 13918 13918;13970 31.268 15.421 1 260810 29903 2039 19191 19251 33685;33686 33685 -0.062427051986333026 RYNPENNTW 9 Unmodified _RYNPENNTW_ 0 0 0 ENST00000480769.5_1_1:185267169-185274781:-|nuORF;ENST00000459929.5_1_1:185267169-185275646:-|nuORF;ENSG00000116679|ENST00000367498|IVNS1ABP;ENST00000494880.5_1_1:185268818-185270317:-|nuORF ENST00000480769.5_1_1:185267169-185274781:-|nuORF ENST00000480769.5_1_1:185267169-185274781:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.2734985351562 2 597.270344 1192.52613 4.0703 0.002431 -0.67692 -0.00040431 3.3933 0.0020267 597.2696838973173 30.277 0.19917 30.894 30.777 30.976 0.61737 15 8 2 0 0 0 0.24524 1 13900 13900 20.415 9.5906 1 263080 29904 2039 19191 19251 33687 33687 -0.062427051986333026 RYNPNLNTW 9 Unmodified _RYNPNLNTW_ 0 0 0 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.2936401367188 2 589.291079 1176.56761 3.4976 0.0020611 0.74614 0.00043969 4.2438 0.0025008 589.291581707538 43.336 0.2485 43.606 43.572 43.82 0.27021 21 12 2 0 0 0 0.038142 2 19806 19806;19880 52.268 18.166 1 829380 29905 5171 19192 19252 33688;33689 33688 -0.013615244393122339 RYNPNLNTW 9 Unmodified _RYNPNLNTW_ 0 0 0 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.2947387695312 2 589.291079 1176.56761 3.7909 0.0022339 0.075657 4.4584E-05 3.8665 0.0022785 589.2911446912407 42.882 0.1648 43.529 43.455 43.619 0.64693 12 8 2 0 0 0 0.052704 1 19644 19644 46.021 11.919 1 513510 29906 5171 19192 19252 33690 33690 -0.013615244393122339 RYNPRTNQW 9 Unmodified _RYNPRTNQW_ 0 0 0 nc|ENSG00000076321|Q9Y2M5-2|KLHL20;KLHL20|p.K600Nfs*2|1|0.05|ENSG00000076321|chr1:173785216-173785217|-/CT|frameshift_variant;KLHL20|p.M601Rfs*9|1|0.05|ENSG00000076321|chr1:173785217-173785218|-/CGACTAAGATGTT|frameshift_variant;ENSG00000076321|ENST00000209884|KLHL20 nc|ENSG00000076321|Q9Y2M5-2|KLHL20 nc|ENSG00000076321|Q9Y2M5-2|KLHL20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 412.208984375 3 412.207377 1233.6003 2.828 0.0011657 0.23415 9.6517E-05 3.0621 0.0012622 412.2075004665437 19.975 0.20572 19.975 19.861 20.066 0 38 17 3 0 0 0 0.10837 2 8895 8895;8942 22.658 7.7009 1 496580 29907 845 19193 19253 33691;33692 33691 -0.007153173164397231 RYNPRTNQW 9 Unmodified _RYNPRTNQW_ 0 0 0 nc|ENSG00000076321|Q9Y2M5-2|KLHL20;KLHL20|p.K600Nfs*2|1|0.05|ENSG00000076321|chr1:173785216-173785217|-/CT|frameshift_variant;KLHL20|p.M601Rfs*9|1|0.05|ENSG00000076321|chr1:173785217-173785218|-/CGACTAAGATGTT|frameshift_variant;ENSG00000076321|ENST00000209884|KLHL20 nc|ENSG00000076321|Q9Y2M5-2|KLHL20 nc|ENSG00000076321|Q9Y2M5-2|KLHL20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.2088623046875 3 412.207377 1233.6003 2.7995 0.001154 0.16916 6.9731E-05 2.9687 0.0012237 412.2077314721204 19.699 0.1708 19.991 19.876 20.046 0.29239 22 11 3 0 0 0 0.41574 1 8970 8970 9.544 3.7605 1 262390 29908 845 19193 19253 33693 33693 -0.007153173164397231 RYNPRTNQW 9 Unmodified _RYNPRTNQW_ 0 0 0 nc|ENSG00000076321|Q9Y2M5-2|KLHL20;KLHL20|p.K600Nfs*2|1|0.05|ENSG00000076321|chr1:173785216-173785217|-/CT|frameshift_variant;KLHL20|p.M601Rfs*9|1|0.05|ENSG00000076321|chr1:173785217-173785218|-/CGACTAAGATGTT|frameshift_variant;ENSG00000076321|ENST00000209884|KLHL20 nc|ENSG00000076321|Q9Y2M5-2|KLHL20 nc|ENSG00000076321|Q9Y2M5-2|KLHL20 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 412.207377 1233.6003 3.1179 0.0012852 0.071302 2.9391E-05 3.1892 0.0013146 412.207526747755 19.365 0.20835 20.023 19.858 20.066 0.6583 0.026542 -0.00015766 NaN 22.658 18 15 2 NaN NaN NaN NaN 0 NaN NaN 0 385230 29909 845 19193 19253 -0.007153173164397231 RYPDNLKHL 9 Unmodified _RYPDNLKHL_ 0 0 0 CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant;ENST00000552606.1_1_12:82750710-82752155:-|nuORF;ENSG00000133773|ENST00000256151|CCDC59;ENST00000406807.2_1_6:149812705-149813218:-|nuORF CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant;ENST00000406807.2_1_6:149812705-149813218:-|nuORF CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 385.8817443847656 3 385.88049 1154.61964 2.8076 0.0010834 0.10036 3.8728E-05 2.908 0.0011221 385.88053380525406 22.001 0.49154 22.001 21.771 22.263 0 127 39 5 0 0 0 2.5075E-05 3 9862 9820;9862;9907 117.84 89.343 1 5840800 29910 104;7646 19194 19254 33694;33695;33696 33695 0.04851638974469097 RYPDNLKHL 9 Unmodified _RYPDNLKHL_ 0 0 0 CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant;ENST00000552606.1_1_12:82750710-82752155:-|nuORF;ENSG00000133773|ENST00000256151|CCDC59;ENST00000406807.2_1_6:149812705-149813218:-|nuORF CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant;ENST00000406807.2_1_6:149812705-149813218:-|nuORF CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 385.88128662109375 3 385.88049 1154.61964 2.1474 0.00082864 -0.28855 -0.00011134 1.8589 0.0007173 385.88035201925317 20.731 0.16281 21.136 21.079 21.241 0.40534 54 34 2 0 0 0 3.3938E-05 2 9198 9198;9235 114.19 88.166 1 14399000 29911 104;7646 19194 19254 33697;33698 33697 0.04851638974469097 RYPDNLKHL 9 Unmodified _RYPDNLKHL_ 0 0 0 CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant;ENST00000552606.1_1_12:82750710-82752155:-|nuORF;ENSG00000133773|ENST00000256151|CCDC59;ENST00000406807.2_1_6:149812705-149813218:-|nuORF CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant;ENST00000406807.2_1_6:149812705-149813218:-|nuORF CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 385.8815612792969 3 385.88049 1154.61964 2.8912 0.0011157 -0.35333 -0.00013634 2.5379 0.00097932 385.88030675923216 20.989 0.31149 21.642 21.353 21.665 0.65346 52 22 3 0 0 0 0.0013204 1 9504 9504 96.936 71.945 1 5332200 29912 104;7646 19194 19254 33699 33699 0.04851638974469097 RYPDNLKHLY 10 Unmodified _RYPDNLKHLY_ 0 0 0 CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant;ENST00000552606.1_1_12:82750710-82752155:-|nuORF;ENSG00000133773|ENST00000256151|CCDC59;ENST00000406807.2_1_6:149812705-149813218:-|nuORF CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant;ENST00000406807.2_1_6:149812705-149813218:-|nuORF CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 440.2362365722656 3 440.234933 1317.68297 3.0425 0.0013394 0.22793 0.00010034 3.2704 0.0014398 440.23502430184 31.565 0.31076 31.565 31.41 31.721 0 66 29 3 0 0 0 0.094408 2 14295 14245;14295 53.47 33.483 1 922200 29913 104;7646 19195 19255 33700;33701 33701 0.0368357969173303 RYPDNLKHLY 10 Unmodified _RYPDNLKHLY_ 0 0 0 CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant;ENST00000552606.1_1_12:82750710-82752155:-|nuORF;ENSG00000133773|ENST00000256151|CCDC59;ENST00000406807.2_1_6:149812705-149813218:-|nuORF CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant;ENST00000406807.2_1_6:149812705-149813218:-|nuORF CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 440.57025146484375 3 440.234933 1317.68297 2.8945 0.0012743 -0.10019 -4.4105E-05 2.7943 0.0012302 440.2349522453125 30.574 0.37231 31.363 31.13 31.502 0.78921 70 29 3 0 0 0 0.040143 3 13784 13736;13784;13834 64.692 46.352 1 597550 29914 104;7646 19195 19255 33702;33703;33704 33703 0.0368357969173303 RYPDNLKHLY 10 Unmodified _RYPDNLKHLY_ 0 0 0 CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant;ENST00000552606.1_1_12:82750710-82752155:-|nuORF;ENSG00000133773|ENST00000256151|CCDC59;ENST00000406807.2_1_6:149812705-149813218:-|nuORF CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant;ENST00000406807.2_1_6:149812705-149813218:-|nuORF CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 440.23577880859375 3 440.234933 1317.68297 3.0854 0.0013583 0.038138 1.679E-05 3.1236 0.0013751 440.2348458304802 30.948 0.29632 31.565 31.407 31.703 0.61737 36 18 3 0 0 0 0.1949 1 14196 14196 39.923 24.384 1 410420 29915 104;7646 19195 19255 33705 33705 0.0368357969173303 RYPDNLKHLYL 11 Unmodified _RYPDNLKHLYL_ 0 0 0 CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant;ENST00000552606.1_1_12:82750710-82752155:-|nuORF;ENSG00000133773|ENST00000256151|CCDC59 CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.26617431640625 3 477.929621 1430.76703 2.9604 0.0014149 0.22581 0.00010792 3.1862 0.0015228 477.9296151301708 44.965 0.3098 44.965 44.759 45.069 0 45 15 4 0 0 0 0.00047218 1 20525 20525 61.165 51.148 1 4572000 29916 104 19196 19256 33706 33706 0.06888110788622726 RYPDNLKHLYL 11 Unmodified _RYPDNLKHLYL_ 0 0 0 CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant;ENST00000552606.1_1_12:82750710-82752155:-|nuORF;ENSG00000133773|ENST00000256151|CCDC59 CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.930908203125 3 477.929621 1430.76703 2.9035 0.0013877 -0.052382 -2.5035E-05 2.8511 0.0013626 477.9295580726533 43.719 0.39259 44.534 44.336 44.729 0.81444 73 21 4 0 0 0 1.8423E-09 3 19924 19876;19924;19977 92.409 68.445 1 3721900 29917 104 19196 19256 33707;33708;33709 33708 0.06888110788622726 RYPDNLKHLYL 11 Unmodified _RYPDNLKHLYL_ 0 0 0 CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant;ENST00000552606.1_1_12:82750710-82752155:-|nuORF;ENSG00000133773|ENST00000256151|CCDC59 CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.93109130859375 3 477.929621 1430.76703 3.2463 0.0015515 0.029304 1.4005E-05 3.2756 0.0015655 477.929585437825 44.159 0.32335 44.809 44.631 44.955 0.64998 36 15 3 0 0 0 3.5832E-05 1 20221 20221 70.321 58.689 1 4446600 29918 104 19196 19256 33710 33710 0.06888110788622726 RYPDNLKHLYL 11 Unmodified _RYPDNLKHLYL_ 0 0 0 CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant;ENST00000552606.1_1_12:82750710-82752155:-|nuORF;ENSG00000133773|ENST00000256151|CCDC59 CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant CCDC59|p.Q107Efs*20|1|0.06|ENSG00000133773|chr12:82357105-82357106|-/CTTC|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 477.929621 1430.76703 2.8718 0.0013725 -0.020074 -9.5939E-06 2.8518 0.0013629 477.92966595340664 44.766 0.40685 45.034 44.799 45.205 0.26768 0.098065 -0.00013158 NaN 70.321 55 21 3 NaN NaN NaN NaN 0 NaN NaN 0 3331700 29919 104 19196 19256 0.06888110788622726 RYPDRITLI 9 Unmodified _RYPDRITLI_ 0 0 0 ENSG00000149923|ENST00000279387|PPP4C;ENST00000566749.5_1_16:30094185-30096380:+|nuORF;ENST00000567040.5_1_16:30087698-30094972:+|nuORF ENSG00000149923|ENST00000279387|PPP4C ENSG00000149923|ENST00000279387|PPP4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 573.8375244140625 2 573.835123 1145.65569 3.5918 0.0020611 -0.44979 -0.0002581 3.142 0.001803 573.8348779434398 49.101 0.55587 49.101 48.742 49.297 0 92 29 4 0 0 0 0.014491 4 22433 22382;22433;22481;22535 75.761 35.804 1 8242600 29920 3660 19197 19257 33711;33712;33713;33714 33712 0.08869096151329359 RYPDRITLI 9 Unmodified _RYPDRITLI_ 0 0 0 ENSG00000149923|ENST00000279387|PPP4C;ENST00000566749.5_1_16:30094185-30096380:+|nuORF;ENST00000567040.5_1_16:30087698-30094972:+|nuORF ENSG00000149923|ENST00000279387|PPP4C ENSG00000149923|ENST00000279387|PPP4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 382.8935241699219 3 382.892507 1145.65569 2.7402 0.0010492 -0.22686 -8.6863E-05 2.5133 0.00096233 382.8923806960689 49.09 0.55587 49.09 48.742 49.297 0 95 29 4 0 0 0 0.010018 2 22517 22400;22517 65.474 29.861 1 8082200 29921 3660 19197 19257 33715;33716 33716 0.08869096151329359 RYPDRITLI 9 Unmodified _RYPDRITLI_ 0 0 0 ENSG00000149923|ENST00000279387|PPP4C;ENST00000566749.5_1_16:30094185-30096380:+|nuORF;ENST00000567040.5_1_16:30087698-30094972:+|nuORF ENSG00000149923|ENST00000279387|PPP4C ENSG00000149923|ENST00000279387|PPP4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 382.893310546875 3 382.892507 1145.65569 2.4399 0.00093421 0.032722 1.2529E-05 2.4726 0.00094674 382.8924720004204 47.907 0.65706 48.736 48.39 49.047 0.82915 93 30 4 0 0 0 0.010018 4 21778 21728;21778;21830;21883 65.474 31.252 1 6262300 29922 3660 19197 19257 33717;33718;33719;33720 33718 0.08869096151329359 RYPDRITLI 9 Unmodified _RYPDRITLI_ 0 0 0 ENSG00000149923|ENST00000279387|PPP4C;ENST00000566749.5_1_16:30094185-30096380:+|nuORF;ENST00000567040.5_1_16:30087698-30094972:+|nuORF ENSG00000149923|ENST00000279387|PPP4C ENSG00000149923|ENST00000279387|PPP4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.8368530273438 2 573.835123 1145.65569 3.48 0.001997 -0.5726 -0.00032858 2.9074 0.0016684 573.8347658636696 47.895 0.5852 48.725 48.442 49.027 0.82915 76 26 4 0 0 0 0.0095519 4 21800 21750;21800;21853;21904 82.529 32.596 1 6781000 29923 3660 19197 19257 33721;33722;33723;33724 33722 0.08869096151329359 RYPDRITLI 9 Unmodified _RYPDRITLI_ 0 0 0 ENSG00000149923|ENST00000279387|PPP4C;ENST00000566749.5_1_16:30094185-30096380:+|nuORF;ENST00000567040.5_1_16:30087698-30094972:+|nuORF ENSG00000149923|ENST00000279387|PPP4C ENSG00000149923|ENST00000279387|PPP4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 573.8369140625 2 573.835123 1145.65569 3.5078 0.0020129 0.04616 2.6488E-05 3.554 0.0020394 573.8351037226063 48.801 0.51424 49.063 48.816 49.33 0.2621 60 19 4 0 0 0 0.004576 3 22304 22250;22304;22367 92.653 47.291 1 5262600 29924 3660 19197 19257 33725;33726;33727 33726 0.08869096151329359 RYPDRITLI 9 Unmodified _RYPDRITLI_ 0 0 0 ENSG00000149923|ENST00000279387|PPP4C;ENST00000566749.5_1_16:30094185-30096380:+|nuORF;ENST00000567040.5_1_16:30087698-30094972:+|nuORF ENSG00000149923|ENST00000279387|PPP4C ENSG00000149923|ENST00000279387|PPP4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 382.8935852050781 3 382.892507 1145.65569 2.9561 0.0011319 0.10914 4.1788E-05 3.0653 0.0011737 382.8924494546314 48.833 0.58529 49.095 48.745 49.33 0.2621 63 23 4 0 0 0 0.010018 2 22297 22297;22413 65.474 24.749 1 5548700 29925 3660 19197 19257 33728;33729 33728 0.08869096151329359 RYPDRITLI 9 Unmodified _RYPDRITLI_ 0 0 0 ENSG00000149923|ENST00000279387|PPP4C;ENST00000566749.5_1_16:30094185-30096380:+|nuORF;ENST00000567040.5_1_16:30087698-30094972:+|nuORF ENSG00000149923|ENST00000279387|PPP4C ENSG00000149923|ENST00000279387|PPP4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 573.837158203125 2 573.835123 1145.65569 3.7857 0.0021724 -0.15095 -8.6622E-05 3.6348 0.0020858 573.8349766585334 48.28 0.60944 48.933 48.562 49.171 0.65356 77 23 4 0 0 0 0.021401 4 22052 21994;22052;22106;22158 66.457 39.573 1 3776800 29926 3660 19197 19257 33730;33731;33732;33733 33731 0.08869096151329359 RYPDRITLI 9 Unmodified _RYPDRITLI_ 0 0 0 ENSG00000149923|ENST00000279387|PPP4C;ENST00000566749.5_1_16:30094185-30096380:+|nuORF;ENST00000567040.5_1_16:30087698-30094972:+|nuORF ENSG00000149923|ENST00000279387|PPP4C ENSG00000149923|ENST00000279387|PPP4C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.8938903808594 3 382.892507 1145.65569 2.8719 0.0010996 0.17389 6.6582E-05 3.0458 0.0011662 382.8925332552893 48.31 0.69132 48.963 48.508 49.2 0.65356 83 27 4 0 0 0 0.010018 3 22091 22000;22091;22147 65.474 31.814 1 4001100 29927 3660 19197 19257 33734;33735;33736 33735 0.08869096151329359 RYPDSHQLF 9 Unmodified _RYPDSHQLF_ 0 0 0 nc|ENSG00000138757|Q9UN86-2|G3BP2;ENSG00000138757|ENST00000359707|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.7889404296875 2 581.78563 1161.55671 3.6085 0.0020994 0.51084 0.0002972 4.1193 0.0023966 581.786017812537 36.885 0.5746 36.885 36.593 37.168 0 42 24 2 0 0 0 0.26118 3 16720 16655;16720;16796 19.362 7.9114 1 467940 29928 3114 19198 19258 33737;33738;33739 33738 -0.017609268135856837 RYPDSHQLF 9 Unmodified _RYPDSHQLF_ 0 0 0 nc|ENSG00000138757|Q9UN86-2|G3BP2;ENSG00000138757|ENST00000359707|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 388.19390869140625 3 388.192845 1161.55671 2.6946 0.001046 0.45956 0.0001784 3.1541 0.0012244 388.1930080943851 36.886 0.67902 36.886 36.593 37.272 0 61 28 3 0 0 0 0.063575 4 16786 16675;16728;16786;16838 32.037 24.429 1 492460 29929 3114 19198 19258 33740;33741;33742;33743 33742 -0.017609268135856837 RYPDSHQLF 9 Unmodified _RYPDSHQLF_ 0 0 0 nc|ENSG00000138757|Q9UN86-2|G3BP2;ENSG00000138757|ENST00000359707|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 388.1936950683594 3 388.192845 1161.55671 2.6354 0.001023 -0.10315 -4.0043E-05 2.5322 0.000983 388.19278252636656 35.808 0.55566 36.6 36.342 36.898 0.79132 38 24 2 0 0 0 0.136 2 16262 16262;16329 20.581 15.178 1 1740900 29930 3114 19198 19258 33744;33745 33744 -0.017609268135856837 RYPDSHQLF 9 Unmodified _RYPDSHQLF_ 0 0 0 nc|ENSG00000138757|Q9UN86-2|G3BP2;ENSG00000138757|ENST00000359707|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 388.1937255859375 3 388.192845 1161.55671 2.9737 0.0011544 0.66552 0.00025835 3.6392 0.0014127 388.1929915142104 36.854 0.75043 37.112 36.847 37.597 0.25768 40 24 2 0 0 0 0.136 4 16804 16750;16804;16883;16958 20.581 15.178 1 478650 29931 3114 19198 19258 33746;33747;33748;33749 33747 -0.017609268135856837 RYPDSHQLF 9 Unmodified _RYPDSHQLF_ 0 0 0 nc|ENSG00000138757|Q9UN86-2|G3BP2;ENSG00000138757|ENST00000359707|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.788818359375 2 581.78563 1161.55671 3.4933 0.0020323 0.5213 0.00030328 4.0146 0.0023356 581.7858408812701 36.903 0.57865 37.16 36.896 37.475 0.25768 24 18 2 0 0 0 0.26118 2 16760 16760;16821 19.362 9.288 1 358740 29932 3114 19198 19258 33750;33751 33750 -0.017609268135856837 RYPDSHQLF 9 Unmodified _RYPDSHQLF_ 0 0 0 nc|ENSG00000138757|Q9UN86-2|G3BP2;ENSG00000138757|ENST00000359707|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 388.1940002441406 3 388.192845 1161.55671 2.9232 0.0011347 0.66797 0.0002593 3.5911 0.001394 388.19316320471756 36.236 0.72122 36.862 36.541 37.262 0.62631 37 24 2 0 0 0 0.22824 3 16565 16565;16649;16729 15.739 11.794 1 513700 29933 3114 19198 19258 33752;33753;33754 33752 -0.017609268135856837 RYPDSHQLF 9 Unmodified _RYPDSHQLF_ 0 0 0 nc|ENSG00000138757|Q9UN86-2|G3BP2;ENSG00000138757|ENST00000359707|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.7874755859375 2 581.78563 1161.55671 3.7149 0.0021613 -0.17681 -0.00010287 3.5381 0.0020584 581.7854709951616 36.268 0.57491 36.894 36.635 37.21 0.62631 30 18 2 0 0 0 0.33646 2 16592 16592;16707 15.248 5.8654 1 281240 29934 3114 19198 19258 33755;33756 33755 -0.017609268135856837 RYPDSHQLF 9 Unmodified _RYPDSHQLF_ 0 0 0 nc|ENSG00000138757|Q9UN86-2|G3BP2;ENSG00000138757|ENST00000359707|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 nc|ENSG00000138757|Q9UN86-2|G3BP2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 581.78563 1161.55671 3.3607 0.0019552 -0.07404 -4.3075E-05 3.2866 0.0019121 581.7855555114761 35.764 0.44332 36.555 36.455 36.898 0.79132 -0.223 -0.00016192 NaN 19.362 24 18 2 NaN NaN NaN NaN 0 NaN NaN 0 1348900 29935 3114 19198 19258 -0.017609268135856837 RYPNKLDTI 9 Unmodified _RYPNKLDTI_ 0 0 0 ENSG00000153395|ENST00000283415|LPCAT1;ENST00000513757.5_1_5:1479693-1494872:-|nuORF ENSG00000153395|ENST00000283415|LPCAT1 ENSG00000153395|ENST00000283415|LPCAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.313232421875 2 560.31148 1118.60841 3.7221 0.0020855 0.017528 9.8212E-06 3.7396 0.0020953 560.3114998984506 28.201 0.35014 28.201 27.961 28.311 0 59 27 3 0 0 0 0.0084842 2 12722 12679;12722 103.35 57.333 1 968980 29936 3786 19199 19259 33757;33758 33758 0.05384816880314247 RYPNKLDTI 9 Unmodified _RYPNKLDTI_ 0 0 0 ENSG00000153395|ENST00000283415|LPCAT1;ENST00000513757.5_1_5:1479693-1494872:-|nuORF ENSG00000153395|ENST00000283415|LPCAT1 ENSG00000153395|ENST00000283415|LPCAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 373.8780212402344 3 373.876746 1118.60841 3.0825 0.0011525 -0.37513 -0.00014025 2.7073 0.0010122 373.8767339241143 28.2 0.37028 28.2 27.941 28.311 0 58 29 3 0 0 0 0.035495 1 12708 12708 53.404 36.291 1 1090600 29937 3786 19199 19259 33759 33759 0.05384816880314247 RYPNKLDTI 9 Unmodified _RYPNKLDTI_ 0 0 0 ENSG00000153395|ENST00000283415|LPCAT1;ENST00000513757.5_1_5:1479693-1494872:-|nuORF ENSG00000153395|ENST00000283415|LPCAT1 ENSG00000153395|ENST00000283415|LPCAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.3130493164062 2 560.31148 1118.60841 3.4008 0.0019055 -0.070122 -3.929E-05 3.3307 0.0018662 560.3113174899713 27.145 0.34449 27.924 27.742 28.087 0.7787 64 26 3 0 0 0 0.019184 3 12186 12141;12186;12230 85.642 47.668 1 1043100 29938 3786 19199 19259 33760;33761;33762 33761 0.05384816880314247 RYPNKLDTI 9 Unmodified _RYPNKLDTI_ 0 0 0 ENSG00000153395|ENST00000283415|LPCAT1;ENST00000513757.5_1_5:1479693-1494872:-|nuORF ENSG00000153395|ENST00000283415|LPCAT1 ENSG00000153395|ENST00000283415|LPCAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 373.8775939941406 3 373.876746 1118.60841 2.4838 0.00092863 -0.3905 -0.000146 2.0933 0.00078264 373.876739028168 27.092 0.38691 27.87 27.689 28.076 0.7787 74 29 3 0 0 0 0.1229 1 12217 12217 28.495 16.254 1 878750 29939 3786 19199 19259 33763 33763 0.05384816880314247 RYPNKLDTI 9 Unmodified _RYPNKLDTI_ 0 0 0 ENSG00000153395|ENST00000283415|LPCAT1;ENST00000513757.5_1_5:1479693-1494872:-|nuORF ENSG00000153395|ENST00000283415|LPCAT1 ENSG00000153395|ENST00000283415|LPCAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.3139038085938 2 560.31148 1118.60841 3.422 0.0019174 -0.15345 -8.5978E-05 3.2685 0.0018314 560.3113858967286 28.141 0.47436 28.404 28.129 28.604 0.26245 60 34 2 0 0 0 0.082627 2 12770 12770;12820 47.749 17.819 1 784890 29940 3786 19199 19259 33764;33765 33764 0.05384816880314247 RYPNKLDTI 9 Unmodified _RYPNKLDTI_ 0 0 0 ENSG00000153395|ENST00000283415|LPCAT1;ENST00000513757.5_1_5:1479693-1494872:-|nuORF ENSG00000153395|ENST00000283415|LPCAT1 ENSG00000153395|ENST00000283415|LPCAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.8778381347656 3 373.876746 1118.60841 2.5909 0.00096867 -0.22066 -8.2499E-05 2.3702 0.00088617 373.876740652781 28.096 0.38581 28.358 28.156 28.541 0.26245 64 29 3 0 0 0 0.136 1 12819 12819 27.629 16.134 1 861630 29941 3786 19199 19259 33766 33766 0.05384816880314247 RYPNKLDTI 9 Unmodified _RYPNKLDTI_ 0 0 0 ENSG00000153395|ENST00000283415|LPCAT1;ENST00000513757.5_1_5:1479693-1494872:-|nuORF ENSG00000153395|ENST00000283415|LPCAT1 ENSG00000153395|ENST00000283415|LPCAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.3131713867188 2 560.31148 1118.60841 3.4577 0.0019374 -0.14356 -8.044E-05 3.3141 0.0018569 560.3114160117557 27.7 0.39312 28.32 28.069 28.462 0.61947 47 25 3 0 0 0 0.027096 2 12698 12698;12744 72.968 34.994 1 767950 29942 3786 19199 19259 33767;33768 33767 0.05384816880314247 RYPNKLDTI 9 Unmodified _RYPNKLDTI_ 0 0 0 ENSG00000153395|ENST00000283415|LPCAT1;ENST00000513757.5_1_5:1479693-1494872:-|nuORF ENSG00000153395|ENST00000283415|LPCAT1 ENSG00000153395|ENST00000283415|LPCAT1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.1807861328125 3 373.876746 1118.60841 2.5802 0.00096469 -0.19879 -7.4325E-05 2.3814 0.00089036 373.8768292710197 27.73 0.39426 28.349 28.08 28.474 0.61947 32 25 2 0 0 0 0.1038 1 12674 12674 10.8 3.1906 1 636950 29943 3786 19199 19259 33769 33769 0.05384816880314247 RYPNKLDTITW 11 Unmodified _RYPNKLDTITW_ 0 0 0 ENSG00000153395|ENST00000283415|LPCAT1;ENST00000513757.5_1_5:1479693-1494872:-|nuORF ENSG00000153395|ENST00000283415|LPCAT1 ENSG00000153395|ENST00000283415|LPCAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 469.58819580078125 3 469.585743 1405.7354 2.9942 0.001406 0.35945 0.00016879 3.3537 0.0015748 469.58595551820986 50.724 0.18868 50.724 50.691 50.879 0 21 9 3 0 0 0 0.20043 1 23236 23236 28.181 24.065 1 763200 29944 3786 19200 19260 33770 33770 0.048761180346446054 RYPNKLDTITW 11 Unmodified _RYPNKLDTITW_ 0 0 0 ENSG00000153395|ENST00000283415|LPCAT1;ENST00000513757.5_1_5:1479693-1494872:-|nuORF ENSG00000153395|ENST00000283415|LPCAT1 ENSG00000153395|ENST00000283415|LPCAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 703.8776245117188 2 703.874976 1405.7354 3.8681 0.0027227 0.62239 0.00043809 4.4905 0.0031607 704.3764387706617 50.74 0.1516 50.74 50.702 50.854 0 13 7 2 0 0 0 0.14165 1 23258 23258 29.437 19.287 1 733050 29945 3786 19200 19260 33771 33771 0.048761180346446054 RYPNKLDTITW 11 Unmodified _RYPNKLDTITW_ 0 0 0 ENSG00000153395|ENST00000283415|LPCAT1;ENST00000513757.5_1_5:1479693-1494872:-|nuORF ENSG00000153395|ENST00000283415|LPCAT1 ENSG00000153395|ENST00000283415|LPCAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.586669921875 3 469.585743 1405.7354 2.9002 0.0013619 -0.26819 -0.00012594 2.6321 0.001236 469.58555304331566 49.691 0.3835 50.514 50.373 50.756 0.82285 26 20 2 0 0 0 0.36521 1 22660 22660 23.016 19.696 1 1156600 29946 3786 19200 19260 33772 33772 0.048761180346446054 RYPNKLDTITW 11 Unmodified _RYPNKLDTITW_ 0 0 0 ENSG00000153395|ENST00000283415|LPCAT1;ENST00000513757.5_1_5:1479693-1494872:-|nuORF ENSG00000153395|ENST00000283415|LPCAT1 ENSG00000153395|ENST00000283415|LPCAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 469.58734130859375 3 469.585743 1405.7354 2.7418 0.0012875 0.0077779 3.6524E-06 2.7495 0.0012911 469.5858808729637 50.79 0.35377 51.051 50.815 51.169 0.26146 24 16 2 0 0 0 0.51437 1 23208 23208 18.34 15.708 1 357250 29947 3786 19200 19260 33773 33773 0.048761180346446054 RYPNKLDTITW 11 Unmodified _RYPNKLDTITW_ 0 0 0 ENSG00000153395|ENST00000283415|LPCAT1;ENST00000513757.5_1_5:1479693-1494872:-|nuORF ENSG00000153395|ENST00000283415|LPCAT1 ENSG00000153395|ENST00000283415|LPCAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 469.58721923828125 3 469.585743 1405.7354 2.8827 0.0013537 -0.23941 -0.00011242 2.6433 0.0012412 469.5856981486445 50.061 0.34584 50.719 50.507 50.853 0.65735 17 12 2 0 0 0 0.70479 1 22885 22885 11.065 9.7356 1 275350 29948 3786 19200 19260 33774 33774 0.048761180346446054 RYPNSHTHYF 10 Unmodified _RYPNSHTHYF_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.5429992675781 3 441.207266 1320.59997 2.9762 0.0013131 0.245 0.0001081 3.2212 0.0014212 441.54167693845716 19.69 0.75373 19.69 19.624 20.378 0 99 67 2 0 0 0 0.15953 3 8800 8800;8853;8910 44.392 38.2 1 881650 29949 196 19201 19261 33775;33776;33777 33775 -0.04750737036306418 RYPNSHTHYF 10 Unmodified _RYPNSHTHYF_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.2083740234375 3 441.207266 1320.59997 2.7033 0.0011927 0.71707 0.00031638 3.4204 0.0015091 441.20763028748337 19.444 0.4345 19.742 19.628 20.062 0.29753 83 36 3 0 0 0 0.36873 2 8909 8909;8956 25.997 23.366 1 511760 29950 196 19201 19261 33778;33779 33778 -0.04750737036306418 RYPNSHTHYF 10 Unmodified _RYPNSHTHYF_ 0 0 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.2085876464844 3 441.207266 1320.59997 3.2184 0.00142 -0.20241 -8.9303E-05 3.016 0.0013307 441.2072222806718 19.176 0.27182 19.834 19.737 20.009 0.6583 38 20 2 0 0 0 0.3084 2 8691 8691;8739 28.234 20.757 1 323180 29951 196 19201 19261 33780;33781 33780 -0.04750737036306418 RYPSLWRRL 9 Unmodified _RYPSLWRRL_ 0 0 0 ENSG00000099956|ENST00000644036|SMARCB1;nc|ENSG00000099956|Q12824-2|SMARCB1 ENSG00000099956|ENST00000644036|SMARCB1 ENSG00000099956|ENST00000644036|SMARCB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 416.24566650390625 3 416.243763 1245.70946 2.7994 0.0011652 -0.019716 -8.2068E-06 2.7797 0.001157 416.2436209270464 40.506 0.79016 40.506 39.752 40.542 0 36 31 2 0 0 0 0.15661 1 18353 18353 19.626 8.727 1 1342300 29952 1162 19202 19262 33782 33782 0.09643313373703677 RYPSLWRRL 9 Unmodified _RYPSLWRRL_ 0 0 0 ENSG00000099956|ENST00000644036|SMARCB1;nc|ENSG00000099956|Q12824-2|SMARCB1 ENSG00000099956|ENST00000644036|SMARCB1 ENSG00000099956|ENST00000644036|SMARCB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 416.2453918457031 3 416.243763 1245.70946 2.6973 0.0011227 0.038493 1.6023E-05 2.7358 0.0011388 416.2437208290073 39.993 1.7957 40.793 39.263 41.059 0.80014 164 98 3 0 0 0 0.048676 3 18047 18047;18129;18191 51.415 29.825 1 1318400 29953 1162 19202 19262 33783;33784;33785 33783 0.09643313373703677 RYPSLWRRL 9 Unmodified _RYPSLWRRL_ 0 0 0 ENSG00000099956|ENST00000644036|SMARCB1;nc|ENSG00000099956|Q12824-2|SMARCB1 ENSG00000099956|ENST00000644036|SMARCB1 ENSG00000099956|ENST00000644036|SMARCB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 416.2441101074219 3 416.243763 1245.70946 NaN NaN NaN NaN NaN NaN NaN 41.178 1 41.447 40.947 41.947 0.26904 0 0 0 0.77475 1 18750 18750 10.151 5.9611 1 29954 1162 19202 19262 33786 33786 0.09643313373703677 RYPSLWRRL 9 Unmodified _RYPSLWRRL_ 0 0 0 ENSG00000099956|ENST00000644036|SMARCB1;nc|ENSG00000099956|Q12824-2|SMARCB1 ENSG00000099956|ENST00000644036|SMARCB1 ENSG00000099956|ENST00000644036|SMARCB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 416.243896484375 3 416.243763 1245.70946 3.2033 0.0013334 -2.6257 -0.0010929 0.57763 0.00024043 416.2425872615761 40.557 0.30363 41.198 41.148 41.452 0.64136 24 21 2 0 0 0 0.8705 1 18613 18613 3.8763 1.3778 1 711560 29955 1162 19202 19262 33787 33787 0.09643313373703677 RYPTSIASL 9 Unmodified _RYPTSIASL_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3;ENST00000481952.1_1_10:124921781-124922345:+|nuORF ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.2813720703125 2 504.279649 1006.54475 3.1006 0.0015636 0.087676 4.4213E-05 3.1883 0.0016078 504.27963254186733 48.579 1.2147 48.579 47.903 49.118 0 126 69 2 0 0 0 0.00143 5 22253 22031;22209;22253;22304;22352 110.67 21.721 1 4189700 29956 3825 19203 19263 33788;33789;33790;33791;33792 33790 0.04173456443231771 RYPTSIASL 9 Unmodified _RYPTSIASL_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3;ENST00000481952.1_1_10:124921781-124922345:+|nuORF ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.2811279296875 2 504.279649 1006.54475 2.9756 0.0015005 0.25422 0.0001282 3.2298 0.0016287 504.2797137111137 47.374 1.0548 48.203 47.613 48.668 0.82915 112 57 2 0 0 0 0.001377 5 21640 21422;21592;21640;21689;21748 114.65 21.027 1 3740800 29957 3825 19203 19263 33793;33794;33795;33796;33797 33795 0.04173456443231771 RYPTSIASL 9 Unmodified _RYPTSIASL_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3;ENST00000481952.1_1_10:124921781-124922345:+|nuORF ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.281005859375 2 504.279649 1006.54475 3.3843 0.0017067 -0.42729 -0.00021548 2.9571 0.0014912 504.2792303682104 48.553 1.0655 48.815 48.134 49.2 0.26209 93 51 2 0 0 0 0.001377 2 22159 22111;22159 114.65 14.85 1 3484900 29958 3825 19203 19263 33798;33799 33799 0.04173456443231771 RYPTSIASL 9 Unmodified _RYPTSIASL_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3;ENST00000481952.1_1_10:124921781-124922345:+|nuORF ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.2815856933594 2 504.279649 1006.54475 3.3073 0.0016678 -0.18627 -9.3932E-05 3.121 0.0015739 504.27941508258164 47.93 1.1825 48.583 47.901 49.083 0.65356 89 49 2 0 0 0 0.004576 4 21934 21890;21934;21990;22057 92.653 13.925 1 2562500 29959 3825 19203 19263 33800;33801;33802;33803 33801 0.04173456443231771 RYPTSIASLAF 11 Unmodified _RYPTSIASLAF_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3;ENST00000481952.1_1_10:124921781-124922345:+|nuORF ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.3348388671875 2 613.332413 1224.65027 2.7263 0.0016721 -0.083127 -5.0985E-05 2.6432 0.0016212 613.3323011628328 68.379 0.36118 69.081 68.858 69.22 0.70218 58 36 2 0 0 0 0.039944 2 32559 32559;32613 53.317 9.4566 1 1976700 29960 3825 19204 19264 33804;33805 33804 0.04693372568840459 RYPTSIASLAF 11 Unmodified _RYPTSIASLAF_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3;ENST00000481952.1_1_10:124921781-124922345:+|nuORF ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.3355102539062 2 613.332413 1224.65027 3.7605 0.0023064 -0.30502 -0.00018708 3.4554 0.0021193 613.3322877183867 69.252 0.60518 69.506 69.16 69.766 0.25443 96 40 3 0 0 0 0.039944 3 31702 31702;31749;31800 53.317 11.361 1 1459900 29961 3825 19204 19264 33806;33807;33808 33806 0.04693372568840459 RYPTSIASLAF 11 Unmodified _RYPTSIASLAF_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3;ENST00000481952.1_1_10:124921781-124922345:+|nuORF ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 613.332413 1224.65027 3.3451 0.0020516 -0.24889 -0.00015266 3.0962 0.001899 613.3324898548404 68.71 0.55701 69.369 69.043 69.6 0.65924 -0.068538 3.5738E-05 NaN 53.317 95 39 3 NaN NaN NaN NaN 0 NaN NaN 0 1353500 29962 3825 19204 19264 0.04693372568840459 RYPVGRFPSL 10 Unmodified _RYPVGRFPSL_ 0 0 0 ENST00000431297.1_1_21:15134673-15136650:+|nuORF;ENSG00000141965|ENST00000269856|FEM1A ENST00000431297.1_1_21:15134673-15136650:+|nuORF ENST00000431297.1_1_21:15134673-15136650:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 397.8933410644531 3 397.892619 1190.65603 NaN NaN NaN NaN NaN NaN NaN 48.818 1 48.818 48.318 49.318 0 0 0 0 0.79388 1 22358 22358 24.882 17.273 1 29963 3288 19205 19265 33809 33809 0.06832515871178657 RYPVGRFPSL 10 Unmodified _RYPVGRFPSL_ 0 0 0 ENST00000431297.1_1_21:15134673-15136650:+|nuORF;ENSG00000141965|ENST00000269856|FEM1A ENST00000431297.1_1_21:15134673-15136650:+|nuORF ENST00000431297.1_1_21:15134673-15136650:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 397.8932189941406 3 397.892619 1190.65603 2.5304 0.0010068 -0.23508 -9.3537E-05 2.2953 0.00091328 397.8923780813234 47.552 0.26865 48.381 48.275 48.544 0.82915 27 16 2 0 0 0 0.32471 1 21678 21678 18.721 11.112 1 322680 29964 3288 19205 19265 33810 33810 0.06832515871178657 RYPWAFHWWHR 11 Unmodified _RYPWAFHWWHR_ 0 0 0 REV__THE1B-int_dup2461|chr9:39963661-39965204:+|1.814289323776622|0.4033997191753589|2.17|537.0|16|2|sense REV__THE1B-int_dup2461|chr9:39963661-39965204:+|1.814289323776622|0.4033997191753589|2.17|537.0|16|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 821.18310546875 2 821.402361 1640.79017 NaN NaN NaN NaN NaN NaN NaN 49.387 1 50.043 49.543 50.543 0.65524 0 0 0 1.008 1 22592 22592 0.30703 0.30703 1 + 29965 18231 19206 19266 33811 33811 -0.004594055834104438 RYQALFHDF 9 Unmodified _RYQALFHDF_ 0 0 0 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.53387451171875 3 399.533091 1195.57744 NaN NaN NaN NaN NaN NaN NaN 39.903 1 40.17 39.67 40.67 0.26696 0 0 0 0.89509 1 18153 18153 2.7352 0 1 29966 5011 19207 19267 33812 33812 -0.012523364339131149 RYQDAIRVF 9 Unmodified _RYQDAIRVF_ 0 0 0 nc|ENSG00000100129|Q9Y262-2|EIF3L;ENSG00000100129|ENST00000652021|EIF3L;ENST00000457262.1_1_10:43062145-43062928:+|nuORF nc|ENSG00000100129|Q9Y262-2|EIF3L nc|ENSG00000100129|Q9Y262-2|EIF3L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.3189086914062 2 584.317097 1166.61964 3.4868 0.0020374 0.22796 0.0001332 3.7148 0.0021706 584.3170832244314 45.05 0.30381 45.05 44.898 45.202 0 28 14 3 0 0 0 0.0090824 1 20589 20589 90.135 48.179 1 3692500 29967 1179 19208 19268 33813 33813 0.04299638974453046 RYQDAIRVF 9 Unmodified _RYQDAIRVF_ 0 0 0 nc|ENSG00000100129|Q9Y262-2|EIF3L;ENSG00000100129|ENST00000652021|EIF3L;ENST00000457262.1_1_10:43062145-43062928:+|nuORF nc|ENSG00000100129|Q9Y262-2|EIF3L nc|ENSG00000100129|Q9Y262-2|EIF3L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.8819885253906 3 389.88049 1166.61964 2.5958 0.0010121 -0.026993 -1.0524E-05 2.5688 0.0010015 389.880505595989 45.054 0.26666 45.054 44.922 45.189 0 21 12 2 0 0 0 0.01 2 20593 20593;20650 81.915 32.388 1 1814800 29968 1179 19208 19268 33814;33815 33814 0.04299638974453046 RYQDAIRVF 9 Unmodified _RYQDAIRVF_ 0 0 0 nc|ENSG00000100129|Q9Y262-2|EIF3L;ENSG00000100129|ENST00000652021|EIF3L;ENST00000457262.1_1_10:43062145-43062928:+|nuORF nc|ENSG00000100129|Q9Y262-2|EIF3L nc|ENSG00000100129|Q9Y262-2|EIF3L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.3187866210938 2 584.317097 1166.61964 3.1079 0.001816 -0.057461 -3.3576E-05 3.0505 0.0017824 584.3171207529306 43.873 0.35222 44.693 44.507 44.859 0.82075 58 24 3 0 0 0 0.0025279 2 19975 19927;19975 96.936 49.341 1 2894200 29969 1179 19208 19268 33816;33817 33817 0.04299638974453046 RYQDAIRVF 9 Unmodified _RYQDAIRVF_ 0 0 0 nc|ENSG00000100129|Q9Y262-2|EIF3L;ENSG00000100129|ENST00000652021|EIF3L;ENST00000457262.1_1_10:43062145-43062928:+|nuORF nc|ENSG00000100129|Q9Y262-2|EIF3L nc|ENSG00000100129|Q9Y262-2|EIF3L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 389.8811340332031 3 389.88049 1166.61964 2.4394 0.00095109 -0.32172 -0.00012543 2.1177 0.00082565 389.8803774249114 43.887 0.33928 44.708 44.507 44.846 0.82075 52 23 3 0 0 0 0.0023358 2 19969 19969;20014 100.71 35.235 1 1535900 29970 1179 19208 19268 33818;33819 33818 0.04299638974453046 RYQDAIRVF 9 Unmodified _RYQDAIRVF_ 0 0 0 nc|ENSG00000100129|Q9Y262-2|EIF3L;ENSG00000100129|ENST00000652021|EIF3L;ENST00000457262.1_1_10:43062145-43062928:+|nuORF nc|ENSG00000100129|Q9Y262-2|EIF3L nc|ENSG00000100129|Q9Y262-2|EIF3L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.3187255859375 2 584.317097 1166.61964 3.3055 0.0019315 0.32333 0.00018893 3.6289 0.0021204 584.317272550599 45.001 0.35302 45.269 45.085 45.438 0.26768 39 17 3 0 0 0 0.019629 2 20579 20533;20579 65.474 41.684 1 1259500 29971 1179 19208 19268 33820;33821 33821 0.04299638974453046 RYQDAIRVF 9 Unmodified _RYQDAIRVF_ 0 0 0 nc|ENSG00000100129|Q9Y262-2|EIF3L;ENSG00000100129|ENST00000652021|EIF3L;ENST00000457262.1_1_10:43062145-43062928:+|nuORF nc|ENSG00000100129|Q9Y262-2|EIF3L nc|ENSG00000100129|Q9Y262-2|EIF3L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.8818664550781 3 389.88049 1166.61964 2.7501 0.0010722 -0.44255 -0.00017254 2.3075 0.00089965 389.88052617610134 45.005 0.32125 45.273 45.068 45.389 0.26768 26 16 2 0 0 0 0.012813 1 20539 20539 78.06 40.986 1 761160 29972 1179 19208 19268 33822 33822 0.04299638974453046 RYQDAIRVF 9 Unmodified _RYQDAIRVF_ 0 0 0 nc|ENSG00000100129|Q9Y262-2|EIF3L;ENSG00000100129|ENST00000652021|EIF3L;ENST00000457262.1_1_10:43062145-43062928:+|nuORF nc|ENSG00000100129|Q9Y262-2|EIF3L nc|ENSG00000100129|Q9Y262-2|EIF3L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.8824768066406 3 389.88049 1166.61964 2.9787 0.0011613 0.68797 0.00026822 3.6666 0.0014295 389.8808415291918 44.254 0.32117 44.904 44.828 45.149 0.64999 27 14 3 0 0 0 0.022157 2 20338 20281;20338 65.474 38.25 1 940520 29973 1179 19208 19268 33823;33824 33824 0.04299638974453046 RYQDAIRVF 9 Unmodified _RYQDAIRVF_ 0 0 0 nc|ENSG00000100129|Q9Y262-2|EIF3L;ENSG00000100129|ENST00000652021|EIF3L;ENST00000457262.1_1_10:43062145-43062928:+|nuORF nc|ENSG00000100129|Q9Y262-2|EIF3L nc|ENSG00000100129|Q9Y262-2|EIF3L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.3201293945312 2 584.317097 1166.61964 3.7013 0.0021627 -0.09814 -5.7345E-05 3.6031 0.0021054 584.3171159456562 44.284 0.34681 44.934 44.828 45.174 0.64998 33 15 3 0 0 0 0.035342 2 20300 20300;20355 57.249 39.103 1 1210600 29974 1179 19208 19268 33825;33826 33825 0.04299638974453046 RYQDIIHSI 9 Unmodified _RYQDIIHSI_ 0 0 0 ENSG00000009954|ENST00000339594|BAZ1B;nc|ENSG00000009954|Q9UIG0-2|BAZ1B;ENST00000466844.1_1_7:72877242-72880699:-|nuORF ENSG00000009954|ENST00000339594|BAZ1B ENSG00000009954|ENST00000339594|BAZ1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 572.810791015625 2 572.809105 1143.60366 3.3542 0.0019213 0.41708 0.00023891 3.7713 0.0021602 572.8088268004853 46.949 0.31599 46.949 46.738 47.054 0 30 12 3 0 0 0 0.0053299 2 21456 21456;21504 99.755 38.645 1 2741900 29975 392 19209 19269 33827;33828 33827 0.03759932737557392 RYQDIIHSI 9 Unmodified _RYQDIIHSI_ 0 0 0 ENSG00000009954|ENST00000339594|BAZ1B;nc|ENSG00000009954|Q9UIG0-2|BAZ1B;ENST00000466844.1_1_7:72877242-72880699:-|nuORF ENSG00000009954|ENST00000339594|BAZ1B ENSG00000009954|ENST00000339594|BAZ1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 382.208984375 3 382.208495 1143.60366 2.5374 0.00096983 0.13567 5.1853E-05 2.6731 0.0010217 382.20816676316923 46.954 0.28144 46.954 46.738 47.019 0 24 10 3 0 0 0 0.0090098 1 21474 21474 83.429 63.014 1 1187600 29976 392 19209 19269 33829 33829 0.03759932737557392 RYQDIIHSI 9 Unmodified _RYQDIIHSI_ 0 0 0 ENSG00000009954|ENST00000339594|BAZ1B;nc|ENSG00000009954|Q9UIG0-2|BAZ1B;ENST00000466844.1_1_7:72877242-72880699:-|nuORF ENSG00000009954|ENST00000339594|BAZ1B ENSG00000009954|ENST00000339594|BAZ1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 382.20916748046875 3 382.208495 1143.60366 2.4545 0.00093813 -0.44159 -0.00016878 2.0129 0.00076935 382.2082689144044 45.859 0.25489 46.686 46.558 46.812 0.82621 22 13 2 0 0 0 0.015631 2 20875 20875;20934 74.2 59.242 1 2116200 29977 392 19209 19269 33830;33831 33830 0.03759932737557392 RYQDIIHSI 9 Unmodified _RYQDIIHSI_ 0 0 0 ENSG00000009954|ENST00000339594|BAZ1B;nc|ENSG00000009954|Q9UIG0-2|BAZ1B;ENST00000466844.1_1_7:72877242-72880699:-|nuORF ENSG00000009954|ENST00000339594|BAZ1B ENSG00000009954|ENST00000339594|BAZ1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 572.8103637695312 2 572.809105 1143.60366 3.5411 0.0020284 -0.79642 -0.0004562 2.7446 0.0015722 572.8089262554375 45.879 0.32095 46.705 46.517 46.838 0.82621 29 16 2 0 0 0 0.056501 1 20884 20884 55.503 13.547 1 2867500 29978 392 19209 19269 33832 33832 0.03759932737557392 RYQDIIHSI 9 Unmodified _RYQDIIHSI_ 0 0 0 ENSG00000009954|ENST00000339594|BAZ1B;nc|ENSG00000009954|Q9UIG0-2|BAZ1B;ENST00000466844.1_1_7:72877242-72880699:-|nuORF ENSG00000009954|ENST00000339594|BAZ1B ENSG00000009954|ENST00000339594|BAZ1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.8116455078125 2 572.809105 1143.60366 3.6087 0.0020671 -0.31154 -0.00017845 3.2971 0.0018886 572.8090988933943 46.775 0.22955 47.041 46.924 47.153 0.26561 17 7 3 0 0 0 0.0066378 2 21374 21374;21428 106.94 40.483 1 1978900 29979 392 19209 19269 33833;33834 33833 0.03759932737557392 RYQDIIHSI 9 Unmodified _RYQDIIHSI_ 0 0 0 ENSG00000009954|ENST00000339594|BAZ1B;nc|ENSG00000009954|Q9UIG0-2|BAZ1B;ENST00000466844.1_1_7:72877242-72880699:-|nuORF ENSG00000009954|ENST00000339594|BAZ1B ENSG00000009954|ENST00000339594|BAZ1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 572.8138427734375 2 572.809105 1143.60366 3.9285 0.0022503 -0.41379 -0.00023702 3.5147 0.0020132 572.808948648475 46.241 0.29998 46.894 46.704 47.004 0.65219 26 11 3 0 0 0 0.028592 1 21150 21150 70.332 32.156 1 2471700 29980 392 19209 19269 33835 33835 0.03759932737557392 RYQDIIHSI 9 Unmodified _RYQDIIHSI_ 0 0 0 ENSG00000009954|ENST00000339594|BAZ1B;nc|ENSG00000009954|Q9UIG0-2|BAZ1B;ENST00000466844.1_1_7:72877242-72880699:-|nuORF ENSG00000009954|ENST00000339594|BAZ1B ENSG00000009954|ENST00000339594|BAZ1B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 382.208495 1143.60366 3.0227 0.0011553 -0.38517 -0.00014722 2.6375 0.0010081 382.2080650857701 46.777 0.20287 47.042 46.951 47.153 0.26561 0.14839 -0.00014558 NaN 83.429 14 6 3 NaN NaN NaN NaN 0 NaN NaN 0 1253200 29981 392 19209 19269 0.03759932737557392 RYQDIIHSI 9 Unmodified _RYQDIIHSI_ 0 0 0 ENSG00000009954|ENST00000339594|BAZ1B;nc|ENSG00000009954|Q9UIG0-2|BAZ1B;ENST00000466844.1_1_7:72877242-72880699:-|nuORF ENSG00000009954|ENST00000339594|BAZ1B ENSG00000009954|ENST00000339594|BAZ1B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 382.208495 1143.60366 3.0209 0.0011546 -0.10103 -3.8614E-05 2.9198 0.001116 382.2081628321307 46.241 0.25583 46.894 46.704 46.96 0.65219 -0.00029936 0.00018023 NaN 83.429 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 1215900 29982 392 19209 19269 0.03759932737557392 RYQEDVQQL 9 Unmodified _RYQEDVQQL_ 0 0 0 nc|ENSG00000126001|Q9BV73-2|CEP250;ENSG00000126001|ENST00000397527|CEP250 nc|ENSG00000126001|Q9BV73-2|CEP250 nc|ENSG00000126001|Q9BV73-2|CEP250 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.7967529296875 2 589.793652 1177.57275 3.4945 0.002061 -0.28536 -0.0001683 3.2091 0.0018927 589.7929448315599 28.901 0.16191 29.69 29.646 29.807 0.78921 17 11 2 0 0 0 0.94779 1 13041 13041 4.897 0.95262 1 205830 29983 2441 19210 19270 33836 33836 -0.008932653673355162 RYQESLGNTVF 11 Unmodified _RYQESLGNTVF_ 0 0 0 nc|ENSG00000198961|O43164-2|PJA2;ENSG00000198961|ENST00000361189|PJA2 nc|ENSG00000198961|O43164-2|PJA2 nc|ENSG00000198961|O43164-2|PJA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 657.3310546875 2 657.327859 1312.64116 3.6306 0.0023865 0.46013 0.00030245 4.0907 0.0026889 657.3278640672953 49.98 0.22302 49.98 49.849 50.072 0 21 10 3 0 0 0 0.079902 1 22870 22870 46.022 35.198 1 716800 29984 5969 19211 19271 33837 33837 -0.0026502078749217617 RYQESLGNTVF 11 Unmodified _RYQESLGNTVF_ 0 0 0 nc|ENSG00000198961|O43164-2|PJA2;ENSG00000198961|ENST00000361189|PJA2 nc|ENSG00000198961|O43164-2|PJA2 nc|ENSG00000198961|O43164-2|PJA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 657.3297729492188 2 657.327859 1312.64116 3.7565 0.0024692 -0.51828 -0.00034068 3.2382 0.0021286 657.3274808780047 48.847 0.26487 49.674 49.559 49.824 0.82705 33 15 3 0 0 0 0.059527 1 22247 22247 49.742 35.337 1 604680 29985 5969 19211 19271 33838 33838 -0.0026502078749217617 RYQESLGNTVF 11 Unmodified _RYQESLGNTVF_ 0 0 0 nc|ENSG00000198961|O43164-2|PJA2;ENSG00000198961|ENST00000361189|PJA2 nc|ENSG00000198961|O43164-2|PJA2 nc|ENSG00000198961|O43164-2|PJA2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 657.327859 1312.64116 3.7611 0.0024723 0.12239 8.0449E-05 3.8835 0.0025527 657.3283012084688 49.92 0.16868 50.181 50.081 50.25 0.26146 0.23613 0.00022507 NaN 49.742 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 326490 29986 5969 19211 19271 -0.0026502078749217617 RYQEVDRRF 9 Unmodified _RYQEVDRRF_ 0 0 0 nc|ENSG00000083896|Q96MU7-2|YTHDC1;ENSG00000083896|ENST00000344157|YTHDC1 nc|ENSG00000083896|Q96MU7-2|YTHDC1 nc|ENSG00000083896|Q96MU7-2|YTHDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 423.5559997558594 3 423.554666 1267.64217 NaN NaN NaN NaN NaN NaN NaN 15.796 1 15.796 15.296 16.296 0 0 0 0 0.90673 1 6988 6988 1.9064 1.042 1 29987 947 19212 19272 33839 33839 0.01905238372069107 RYQEVDRRF 9 Unmodified _RYQEVDRRF_ 0 0 0 nc|ENSG00000083896|Q96MU7-2|YTHDC1;ENSG00000083896|ENST00000344157|YTHDC1 nc|ENSG00000083896|Q96MU7-2|YTHDC1 nc|ENSG00000083896|Q96MU7-2|YTHDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 423.5564270019531 3 423.554666 1267.64217 NaN NaN NaN NaN NaN NaN NaN 15.903 1 15.903 15.403 16.403 0 0 0 0 0.906 1 7038 7038 2.086 1.0145 1 29988 947 19212 19272 33840 33840 0.01905238372069107 RYQEVDRRF 9 Unmodified _RYQEVDRRF_ 0 0 0 nc|ENSG00000083896|Q96MU7-2|YTHDC1;ENSG00000083896|ENST00000344157|YTHDC1 nc|ENSG00000083896|Q96MU7-2|YTHDC1 nc|ENSG00000083896|Q96MU7-2|YTHDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 423.55621337890625 3 423.554666 1267.64217 2.7358 0.0011588 0.3255 0.00013787 3.0613 0.0012966 423.55488785393527 14.745 0.32273 14.972 14.814 15.136 0.22622 42 21 3 0 0 0 0.30351 2 6458 6458;6522 16.566 8.1216 1 322920 29989 947 19212 19272 33841;33842 33841 0.01905238372069107 RYQFRRSLN 9 Unmodified _RYQFRRSLN_ 0 0 0 REV__ENSG00000102174|ENST00000379374|PHEX REV__ENSG00000102174|ENST00000379374|PHEX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 413.896240234375 3 413.895022 1238.66324 2.3799 0.00098505 0.044331 1.8349E-05 2.4243 0.0010034 413.8950684567431 13.152 0.27829 13.396 13.271 13.549 0.24346 70 22 4 0 0 0 0.057744 2 5743 5696;5743 33.445 9.6438 1 3641300 + 29990 10921 19213 19273 33843;33844 33844 0.05345248471621744 RYQFRRSLN 9 Unmodified _RYQFRRSLN_ 0 0 0 REV__ENSG00000102174|ENST00000379374|PHEX REV__ENSG00000102174|ENST00000379374|PHEX MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 413.895022 1238.66324 2.8017 0.0011596 -0.8343 -0.00034531 1.9674 0.00081429 413.89463029889765 13.585 0.13132 13.585 13.521 13.652 0 0.11856 -0.00092983 NaN 33.445 38 24 2 NaN NaN NaN NaN 0 NaN NaN 0 8716300 + 29991 10921 19213 19273 0.05345248471621744 RYQFRRSLN 9 Unmodified _RYQFRRSLN_ 0 0 0 REV__ENSG00000102174|ENST00000379374|PHEX REV__ENSG00000102174|ENST00000379374|PHEX MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 413.895022 1238.66324 2.3799 0.00098505 0.044331 1.8349E-05 2.4243 0.0010034 413.8950684567431 13.152 0.27829 13.396 13.271 13.549 0.24346 -0.070195 0.00016116 NaN 33.445 70 22 4 NaN NaN NaN NaN 0 NaN NaN 0 3641300 + 29992 10921 19213 19273 0.05345248471621744 RYQKPIKT 8 Unmodified _RYQKPIKT_ 0 0 0 REV__ENSG00000126861|ENST00000247271|OMG REV__ENSG00000126861|ENST00000247271|OMG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.2106628417969 3 345.209948 1032.60801 2.3557 0.00081322 0.023252 8.0269E-06 2.379 0.00082124 345.2099966597055 34.471 0.33175 35.094 34.94 35.271 0.62294 25 11 3 0 0 0 0.65723 1 15811 15811 10.824 0 1 664130 + 29993 11724 19214 19274 33845 33845 0.09301441951151901 RYQLGDDKK 9 Unmodified _RYQLGDDKK_ 0 0 0 REV__nc|ENSG00000241697|Q8IYR6-2|TMEFF1 REV__nc|ENSG00000241697|Q8IYR6-2|TMEFF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.798583984375 2 561.798737 1121.58292 NaN NaN NaN NaN NaN NaN NaN 17.087 1 17.287 16.787 17.787 0.20057 0 0 0 0.90699 1 7556 7556 1.8442 0 1 + 29994 14613 19215 19275 33846 33846 0.0269934235789151 RYQQWMERF 9 Unmodified _RYQQWMERF_ 0 0 0 ENST00000487229.6_1_17:12905763-12906899:-|nuORF;nc|ENSG00000006744|Q9BQ52-2|ELAC2;ENST00000484122.5_1_17:12899737-12920449:-|nuORF;ENST00000480891.5_1_17:12896137-12909314:-|nuORF;nc|ENSG00000006744|Q9BQ52-4|ELAC2;ENSG00000006744|ENST00000338034|ELAC2 ENST00000487229.6_1_17:12905763-12906899:-|nuORF ENST00000487229.6_1_17:12905763-12906899:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 448.54974365234375 3 448.548635 1342.62407 2.6404 0.0011843 -0.77741 -0.00034871 1.863 0.00083563 448.5480476629944 46.962 0.38029 46.962 46.704 47.085 0 41 15 4 0 0 0 0.0029142 2 21443 21443;21498 78.06 58.074 1 2168500 29995 357 19216 19276 33847;33848 33847 -0.03353219874293245 RYQQWMERF 9 Unmodified _RYQQWMERF_ 0 0 0 ENST00000487229.6_1_17:12905763-12906899:-|nuORF;nc|ENSG00000006744|Q9BQ52-2|ELAC2;ENST00000484122.5_1_17:12899737-12920449:-|nuORF;ENST00000480891.5_1_17:12896137-12909314:-|nuORF;nc|ENSG00000006744|Q9BQ52-4|ELAC2;ENSG00000006744|ENST00000338034|ELAC2 ENST00000487229.6_1_17:12905763-12906899:-|nuORF ENST00000487229.6_1_17:12905763-12906899:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 672.3217163085938 2 672.319314 1342.62407 3.496 0.0023504 0.16933 0.00011384 3.6653 0.0024643 672.3191103314869 46.915 0.39294 46.915 46.704 47.097 0 31 16 3 0 0 0 0.026853 3 21485 21485;21531;21539 59.368 38.954 1 1508300 29996 357 19216 19276 33849;33850;33851 33849 -0.03353219874293245 RYQQWMERF 9 Unmodified _RYQQWMERF_ 0 0 0 ENST00000487229.6_1_17:12905763-12906899:-|nuORF;nc|ENSG00000006744|Q9BQ52-2|ELAC2;ENST00000484122.5_1_17:12899737-12920449:-|nuORF;ENST00000480891.5_1_17:12896137-12909314:-|nuORF;nc|ENSG00000006744|Q9BQ52-4|ELAC2;ENSG00000006744|ENST00000338034|ELAC2 ENST00000487229.6_1_17:12905763-12906899:-|nuORF ENST00000487229.6_1_17:12905763-12906899:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 448.54962158203125 3 448.548635 1342.62407 2.7446 0.0012311 -0.61273 -0.00027484 2.1319 0.00095626 448.5484477628741 45.812 0.31549 46.638 46.474 46.789 0.82621 36 16 3 0 0 0 1.8233E-05 2 20869 20824;20869 117.76 97.774 1 4566200 29997 357 19216 19276 33852;33853 33853 -0.03353219874293245 RYQQWMERF 9 Unmodified _RYQQWMERF_ 0 0 0 ENST00000487229.6_1_17:12905763-12906899:-|nuORF;nc|ENSG00000006744|Q9BQ52-2|ELAC2;ENST00000484122.5_1_17:12899737-12920449:-|nuORF;ENST00000480891.5_1_17:12896137-12909314:-|nuORF;nc|ENSG00000006744|Q9BQ52-4|ELAC2;ENSG00000006744|ENST00000338034|ELAC2 ENST00000487229.6_1_17:12905763-12906899:-|nuORF ENST00000487229.6_1_17:12905763-12906899:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 672.8270263671875 2 672.319314 1342.62407 3.6554 0.0024576 -0.1484 -9.9771E-05 3.507 0.0023578 672.820416574141 45.795 0.20048 46.622 46.474 46.674 0.82621 15 9 2 0 0 0 0.053453 1 20834 20834 45.7 29.551 1 1777600 29998 357 19216 19276 33854 33854 -0.03353219874293245 RYQQWMERF 9 Unmodified _RYQQWMERF_ 0 0 0 ENST00000487229.6_1_17:12905763-12906899:-|nuORF;nc|ENSG00000006744|Q9BQ52-2|ELAC2;ENST00000484122.5_1_17:12899737-12920449:-|nuORF;ENST00000480891.5_1_17:12896137-12909314:-|nuORF;nc|ENSG00000006744|Q9BQ52-4|ELAC2;ENSG00000006744|ENST00000338034|ELAC2 ENST00000487229.6_1_17:12905763-12906899:-|nuORF ENST00000487229.6_1_17:12905763-12906899:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 448.5502014160156 3 448.548635 1342.62407 3.0425 0.0013647 -0.24952 -0.00011192 2.7929 0.0012528 448.548600818137 47.032 0.36852 47.296 47.151 47.52 0.26363 28 13 3 0 0 0 0.0079462 2 21489 21489;21551 69.338 53.8 1 1260100 29999 357 19216 19276 33855;33856 33855 -0.03353219874293245 RYQQWMERF 9 Unmodified _RYQQWMERF_ 0 0 0 ENST00000487229.6_1_17:12905763-12906899:-|nuORF;nc|ENSG00000006744|Q9BQ52-2|ELAC2;ENST00000484122.5_1_17:12899737-12920449:-|nuORF;ENST00000480891.5_1_17:12896137-12909314:-|nuORF;nc|ENSG00000006744|Q9BQ52-4|ELAC2;ENSG00000006744|ENST00000338034|ELAC2 ENST00000487229.6_1_17:12905763-12906899:-|nuORF ENST00000487229.6_1_17:12905763-12906899:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 672.3214721679688 2 672.319314 1342.62407 3.9825 0.0026775 -0.26198 -0.00017613 3.7205 0.0025014 672.8209728403455 47.063 0.2895 47.326 47.151 47.441 0.26363 22 9 3 0 0 0 0.15661 1 21515 21515 26.268 14.027 1 604840 30000 357 19216 19276 33857 33857 -0.03353219874293245 RYQQWMERF 9 Unmodified _RYQQWMERF_ 0 0 0 ENST00000487229.6_1_17:12905763-12906899:-|nuORF;nc|ENSG00000006744|Q9BQ52-2|ELAC2;ENST00000484122.5_1_17:12899737-12920449:-|nuORF;ENST00000480891.5_1_17:12896137-12909314:-|nuORF;nc|ENSG00000006744|Q9BQ52-4|ELAC2;ENSG00000006744|ENST00000338034|ELAC2 ENST00000487229.6_1_17:12905763-12906899:-|nuORF ENST00000487229.6_1_17:12905763-12906899:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.5496520996094 3 448.548635 1342.62407 3.2313 0.0014494 -0.16215 -7.2733E-05 3.0692 0.0013767 448.5486124655211 46.612 0.29036 47.264 47.113 47.403 0.65219 27 9 4 0 0 0 0.0079462 1 21335 21335 78.06 65.833 1 999180 30001 357 19216 19276 33858 33858 -0.03353219874293245 RYQQWMERF 9 Unmodified _RYQQWMERF_ 0 0 0 ENST00000487229.6_1_17:12905763-12906899:-|nuORF;nc|ENSG00000006744|Q9BQ52-2|ELAC2;ENST00000484122.5_1_17:12899737-12920449:-|nuORF;ENST00000480891.5_1_17:12896137-12909314:-|nuORF;nc|ENSG00000006744|Q9BQ52-4|ELAC2;ENSG00000006744|ENST00000338034|ELAC2 ENST00000487229.6_1_17:12905763-12906899:-|nuORF ENST00000487229.6_1_17:12905763-12906899:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 672.3232421875 2 672.319314 1342.62407 4.0738 0.0027389 -0.50244 -0.0003378 3.5714 0.0024011 672.3188654211672 46.609 0.25826 47.262 47.113 47.371 0.65219 13 8 2 0 0 0 0.097139 1 21360 21360 33.445 21.204 1 657630 30002 357 19216 19276 33859 33859 -0.03353219874293245 RYQREWEQRRR 11 Unmodified _RYQREWEQRRR_ 0 0 0 REV__ENSG00000159450|ENST00000614923|TCHH REV__ENSG00000159450|ENST00000614923|TCHH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 831.9370727539062 2 831.937828 1661.8611 NaN NaN NaN NaN NaN NaN NaN 52.815 1 53.618 53.118 54.118 0.80351 0 0 0 1.0082 1 24067 24067 0 0 1 + 30003 12852 19217 19277 33860 33860 0.056646426634188174 RYQRWLQYKFF 11 Unmodified _RYQRWLQYKFF_ 0 0 0 ENSG00000117000|ENST00000372771|RLF;RLF|p.D1028Afs*6|1|0.23|ENSG00000117000|chr1:40237785-40237786|AT/-|frameshift_variant ENSG00000117000|ENST00000372771|RLF ENSG00000117000|ENST00000372771|RLF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 817.744140625 2 817.93316 1633.85177 NaN NaN NaN NaN NaN NaN NaN 100.54 1 100.54 100.04 101.04 0 0 0 0 1.008 1 55507 55507 0.30703 0.30703 1 30004 2057 19218 19278 33861 33861 0.06019481325211018 RYQSFGNNHF 10 Unmodified _RYQSFGNNHF_ 0 0 0 ENSG00000167165|ENST00000305139|UGT1A6;nc|ENSG00000167165|P19224-3|UGT1A6 ENSG00000167165|ENST00000305139|UGT1A6 ENSG00000167165|ENST00000305139|UGT1A6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 423.86517333984375 3 423.863499 1268.56867 3.0206 0.0012803 -0.027933 -1.184E-05 2.9926 0.0012685 423.863575123964 27.343 0.29212 27.343 27.164 27.457 0 51 20 3 0 0 0 0.014734 2 12325 12280;12325 66.683 52.512 1 1267800 30005 4533 19219 19279 33862;33863 33863 -0.0548731007038441 RYQSFGNNHF 10 Unmodified _RYQSFGNNHF_ 0 0 0 ENSG00000167165|ENST00000305139|UGT1A6;nc|ENSG00000167165|P19224-3|UGT1A6 ENSG00000167165|ENST00000305139|UGT1A6 ENSG00000167165|ENST00000305139|UGT1A6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 635.2921752929688 2 635.291611 1268.56867 3.9468 0.0025074 -0.12584 -7.9947E-05 3.821 0.0024275 635.2914186158624 27.33 0.24714 27.33 27.188 27.436 0 28 17 3 0 0 0 0.45566 1 12294 12294 22.775 11.975 1 687810 30006 4533 19219 19279 33864 33864 -0.0548731007038441 RYQSFGNNHF 10 Unmodified _RYQSFGNNHF_ 0 0 0 ENSG00000167165|ENST00000305139|UGT1A6;nc|ENSG00000167165|P19224-3|UGT1A6 ENSG00000167165|ENST00000305139|UGT1A6 ENSG00000167165|ENST00000305139|UGT1A6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 635.2915649414062 2 635.291611 1268.56867 3.4779 0.0022095 0.0073573 4.674E-06 3.4852 0.0022141 635.291582785018 26.266 0.35525 27.045 26.882 27.237 0.7787 50 27 2 0 0 0 0.56502 2 11770 11770;11818 18.721 10.007 1 428860 30007 4533 19219 19279 33865;33866 33865 -0.0548731007038441 RYQSFGNNHF 10 Unmodified _RYQSFGNNHF_ 0 0 0 ENSG00000167165|ENST00000305139|UGT1A6;nc|ENSG00000167165|P19224-3|UGT1A6 ENSG00000167165|ENST00000305139|UGT1A6 ENSG00000167165|ENST00000305139|UGT1A6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 423.86492919921875 3 423.863499 1268.56867 2.6857 0.0011384 0.19803 8.3937E-05 2.8837 0.0012223 423.86365393168995 26.23 0.38498 27.008 26.852 27.237 0.7787 72 29 3 0 0 0 0.007163 2 11793 11793;11839 70.929 70.929 1 1042100 30008 4533 19219 19279 33867;33868 33867 -0.0548731007038441 RYQTKFRHL 9 Unmodified _RYQTKFRHL_ 0 0 0 nc|ENSG00000121289|Q96ST8-3|CEP89;nc|ENSG00000121289|Q96ST8-2|CEP89;ENSG00000121289|ENST00000305768|CEP89 nc|ENSG00000121289|Q96ST8-3|CEP89 nc|ENSG00000121289|Q96ST8-3|CEP89 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 416.90478515625 3 416.903518 1247.68872 2.8954 0.0012071 0.25602 0.00010673 3.1514 0.0013138 416.9036060164084 12.849 0.12575 12.849 12.77 12.896 0 11 4 3 0 0 0 1.523E-21 1 5609 5609 187.14 137.4 1 2778700 30009 2226 19220 19280 33869 33869 0.0747872299402843 RYQTKFRHL 9 Unmodified _RYQTKFRHL_ 0 0 0 nc|ENSG00000121289|Q96ST8-3|CEP89;nc|ENSG00000121289|Q96ST8-2|CEP89;ENSG00000121289|ENST00000305768|CEP89 nc|ENSG00000121289|Q96ST8-3|CEP89 nc|ENSG00000121289|Q96ST8-3|CEP89 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 312.9303283691406 4 312.929457 1247.68872 2.1363 0.00066851 0.43727 0.00013683 2.5736 0.00080535 312.9296065126107 12.849 0.14646 12.849 12.77 12.917 0 11 5 3 0 0 0 0.10584 1 5622 5622 31.268 22.824 1 3169400 30010 2226 19220 19280 33870 33870 0.0747872299402843 RYQTKFRHL 9 Unmodified _RYQTKFRHL_ 0 0 0 nc|ENSG00000121289|Q96ST8-3|CEP89;nc|ENSG00000121289|Q96ST8-2|CEP89;ENSG00000121289|ENST00000305768|CEP89 nc|ENSG00000121289|Q96ST8-3|CEP89 nc|ENSG00000121289|Q96ST8-3|CEP89 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 416.905029296875 3 416.903518 1247.68872 2.2343 0.0009315 -0.25266 -0.00010533 1.9817 0.00082616 416.903510940758 12.573 0.054991 12.835 12.798 12.853 0.26154 10 6 2 0 0 0 0.00079405 1 5455 5455 128.58 67.489 1 4738700 30011 2226 19220 19280 33871 33871 0.0747872299402843 RYQTKFRHL 9 Unmodified _RYQTKFRHL_ 0 0 0 nc|ENSG00000121289|Q96ST8-3|CEP89;nc|ENSG00000121289|Q96ST8-2|CEP89;ENSG00000121289|ENST00000305768|CEP89 nc|ENSG00000121289|Q96ST8-3|CEP89 nc|ENSG00000121289|Q96ST8-3|CEP89 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 312.929457 1247.68872 1.7825 0.00055779 0.074153 2.3205E-05 1.8566 0.00058099 312.92954512772656 12.569 0.045719 12.831 12.798 12.844 0.26154 -0.017499 -0.00036836 NaN 31.268 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 4123600 30012 2226 19220 19280 0.0747872299402843 RYQTKFRHL 9 Unmodified _RYQTKFRHL_ 0 0 0 nc|ENSG00000121289|Q96ST8-3|CEP89;nc|ENSG00000121289|Q96ST8-2|CEP89;ENSG00000121289|ENST00000305768|CEP89 nc|ENSG00000121289|Q96ST8-3|CEP89 nc|ENSG00000121289|Q96ST8-3|CEP89 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 312.929457 1247.68872 1.525 0.00047721 0.19572 6.1246E-05 1.7207 0.00053846 312.9293648654311 12.558 0.088211 12.865 12.794 12.882 0.30727 0.016923 -0.00021619 NaN 31.268 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 2235400 30013 2226 19220 19280 0.0747872299402843 RYRDRLQYF 9 Unmodified _RYRDRLQYF_ 0 0 0 IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant;ENSG00000140575|ENST00000268182|IQGAP1;ENST00000558003.1_1_15:91017136-91017370:+|nuORF IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant IQGAP1|p.E1502Nfs*2|1|0.29|ENSG00000140575|chr15:90492587-90492587|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 439.568359375 3 439.566794 1315.67855 NaN NaN NaN NaN NaN NaN NaN 31.118 1 31.118 30.618 31.618 0 0 0 0 0.90431 1 14073 14073 2.4985 1.3051 1 30014 3209 19221 19281 33872 33872 0.03334115268785354 RYRDYRYPPDN 11 Unmodified _RYRDYRYPPDN_ 0 0 0 ANO5|p.D815N|1|0.31|ENSG00000171714|chr11:22276122-22276122|G/A|missense_variant ANO5|p.D815N|1|0.31|ENSG00000171714|chr11:22276122-22276122|G/A|missense_variant ANO5|p.D815N|1|0.31|ENSG00000171714|chr11:22276122-22276122|G/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 757.8599853515625 2 757.860389 1513.70622 NaN NaN NaN NaN NaN NaN NaN 92.053 1 92.136 91.636 92.636 0.082848 0 0 0 1.008 1 47871 47871 0.30703 0 1 30015 59 19222 19282 33873 33873 -0.030080262616138498 RYRDYYRQYNR 11 Unmodified _RYRDYYRQYNR_ 0 0 0 ENSG00000214753|ENST00000301785|HNRNPUL2 ENSG00000214753|ENST00000301785|HNRNPUL2 ENSG00000214753|ENST00000301785|HNRNPUL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 826.9046630859375 2 826.905662 1651.79677 NaN NaN NaN NaN NaN NaN NaN 88.721 1 88.972 88.472 89.472 0.25118 0 0 0 1.0082 1 40822 40822 0 0 1 30016 6118 19223 19283 33874 33874 -0.003055572133689566 RYRGDYDRF 9 Unmodified _RYRGDYDRF_ 0 0 0 ENSG00000214753|ENST00000301785|HNRNPUL2 ENSG00000214753|ENST00000301785|HNRNPUL2 ENSG00000214753|ENST00000301785|HNRNPUL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 416.87127685546875 3 416.535383 1246.58432 2.8337 0.0011803 -0.010363 -4.3166E-06 2.8233 0.001176 416.53527666041197 18.2 0.21865 18.2 18.114 18.332 0 18 12 2 0 0 0 0.1776 1 8099 8099 24.882 17.844 1 308360 30017 6118 19224 19284 33875 33875 -0.02911023553360792 RYRHYFRLLVR 11 Unmodified _RYRHYFRLLVR_ 0 0 0 nc|ENSG00000284922|Q8WZ04|TOMT nc|ENSG00000284922|Q8WZ04|TOMT nc|ENSG00000284922|Q8WZ04|TOMT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 789.9602661132812 2 789.960043 1577.90553 NaN NaN NaN NaN NaN NaN NaN 59.996 1 59.996 59.496 60.496 0 0 0 0 1.0082 1 27786 27786 0 0 1 30018 9875 19225 19285 33876 33876 0.13969698547566622 RYRIRFGR 8 Unmodified _RYRIRFGR_ 0 0 0 REV__ENST00000369046.8_1_6:107097010-107100239:+|nuORF REV__ENST00000369046.8_1_6:107097010-107100239:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 375.2261962890625 3 375.224703 1122.65228 NaN NaN NaN NaN NaN NaN NaN 20.255 1 20.521 20.021 21.021 0.26616 0 0 0 0.99035 1 9001 9001 1.6526 0.17072 1 + 30019 15700 19226 19286 33877 33877 0.09585890888001813 RYRITIGNKT 10 Unmodified _RYRITIGNKT_ 0 0 0 nc|ENSG00000278540|Q13085-3|ACACA;nc|ENSG00000278540|Q13085-2|ACACA;nc|ENSG00000278540|Q13085|ACACA;ENSG00000278540|ENST00000616317|ACACA nc|ENSG00000278540|Q13085-3|ACACA nc|ENSG00000278540|Q13085-3|ACACA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.3582153320312 2 611.356754 1220.69895 3.9302 0.0024028 -0.74464 -0.00045524 3.1856 0.0019475 611.3560789814101 90.033 2.3692 90.285 89.498 91.868 0.25136 339 114 4 0 0 0 0.93788 1 41861 41861 1.3295 0 1 4331900 30020 6361 19227 19287 33878 33878 0.09743285928584555 RYRKINKVM 9 Unmodified _RYRKINKVM_ 0 0 0 REV__ENST00000439248.5_1_22:43464548-43465849:-|nuORF REV__ENST00000439248.5_1_22:43464548-43465849:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 604.360107421875 2 604.358242 1206.70193 4.4826 0.0027091 -0.76517 -0.00046244 3.7174 0.0022466 604.3574696125917 100.61 0.5815 100.92 100.83 101.41 0.31412 59 19 4 0 0 0 1.129 1 46551 46551 1.8442 0.36234 1 7396800 + 30021 10817 19228 19288 33879 33879 0.10684837781741408 RYRKINKVM 9 Unmodified _RYRKINKVM_ 0 0 0 REV__ENST00000439248.5_1_22:43464548-43465849:-|nuORF REV__ENST00000439248.5_1_22:43464548-43465849:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 604.3596801757812 2 604.358242 1206.70193 4.0117 0.0024245 -0.77504 -0.0004684 3.2367 0.0019561 604.3576048571407 100.53 0.60339 101.12 101 101.61 0.59716 61 20 4 0 0 0 1.2126 1 46724 46724 0.52476 0 1 7285300 + 30022 10817 19228 19288 33880 33880 0.10684837781741408 RYRPQHIFF 9 Unmodified _RYRPQHIFF_ 0 0 0 ENST00000584031.5_1_17:61511765-61513383:-|nuORF;ENSG00000008283|ENST00000360793|CYB561 ENST00000584031.5_1_17:61511765-61513383:-|nuORF ENST00000584031.5_1_17:61511765-61513383:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.8976135253906 3 421.896363 1262.66726 2.839 0.0011978 0.71809 0.00030296 3.5571 0.0015007 421.8963803934284 38.962 0.26537 38.962 38.834 39.1 0 14 9 2 0 0 0 0.54955 1 17711 17711 7.609 5.8667 1 288580 30023 375 19229 19289 33881 33881 0.04643337965308092 RYRPQHIFF 9 Unmodified _RYRPQHIFF_ 0 0 0 ENST00000584031.5_1_17:61511765-61513383:-|nuORF;ENSG00000008283|ENST00000360793|CYB561 ENST00000584031.5_1_17:61511765-61513383:-|nuORF ENST00000584031.5_1_17:61511765-61513383:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.8978271484375 3 421.896363 1262.66726 2.8795 0.0012148 0.33515 0.0001414 3.2147 0.0013562 421.89653139338066 38.255 0.26753 38.888 38.804 39.072 0.63388 18 11 2 0 0 0 0.98132 1 17484 17484 2.4985 1.4849 1 205200 30024 375 19229 19289 33882 33882 0.04643337965308092 RYRPRLFRRYM 11 Unmodified _RYRPRLFRRYM_ 0 0 0 REV__ENSG00000138080|ENST00000380320|EMILIN1 REV__ENSG00000138080|ENST00000380320|EMILIN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.45166015625 2 807.451528 1612.8885 NaN NaN NaN NaN NaN NaN NaN 58.679 1 58.679 58.179 59.179 0 0 0 0 1.0082 1 27088 27088 0 0 1 + 30025 12146 19230 19290 33883 33883 0.10657454670126754 RYRPWRRWKRR 11 Unmodified _RYRPWRRWKRR_ 0 0 0 ENST00000284061.7_2_17:54911541-54912223:+|nuORF ENST00000284061.7_2_17:54911541-54912223:+|nuORF ENST00000284061.7_2_17:54911541-54912223:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 858.49951171875 2 858.500733 1714.98691 NaN NaN NaN NaN NaN NaN NaN 97.157 1 97.157 96.657 97.657 0 0 0 0 1.0082 1 52803 52803 0 0 1 30026 6711 19231 19291 33884 33884 0.15801819030161823 RYRPWRRWKRR 11 Unmodified _RYRPWRRWKRR_ 0 0 0 ENST00000284061.7_2_17:54911541-54912223:+|nuORF ENST00000284061.7_2_17:54911541-54912223:+|nuORF ENST00000284061.7_2_17:54911541-54912223:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 858.50048828125 2 858.500733 1714.98691 NaN NaN NaN NaN NaN NaN NaN 55.948 1 56.616 56.116 57.116 0.66798 0 0 0 1.0082 1 25595 25595 0 0 1 30027 6711 19231 19291 33885 33885 0.15801819030161823 RYRQRYEKHY 10 Unmodified _RYRQRYEKHY_ 0 0 0 REV__ENST00000600588.1_1_19:6593418-6593715:+|nuORF REV__ENST00000600588.1_1_19:6593418-6593715:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 749.8834838867188 2 749.886741 1497.75893 NaN NaN NaN NaN NaN NaN NaN 94.394 1 94.394 93.894 94.894 0 0 0 0 1.0015 1 50623 50623 0.40072 0.050084 1 + 30028 17634 19232 19292 33886 33886 0.02995976591842009 RYRQSMNNF 9 Unmodified _RYRQSMNNF_ 0 0 0 ENSG00000148926|ENST00000278175|ADM ENSG00000148926|ENST00000278175|ADM ENSG00000148926|ENST00000278175|ADM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.86260986328125 3 405.861101 1214.56147 2.477 0.0010053 -0.22844 -9.2716E-05 2.2486 0.00091261 405.8610747477373 17.864 0.078018 18.064 18.015 18.093 0.20057 9 5 2 0 0 0 0.136 1 7919 7919 20.581 11.605 1 333900 30029 3622 19233 19293 33887 33887 -0.03722365942462602 RYRQSMNNF 9 Unmodified _RYRQSMNNF_ 0 0 0 ENSG00000148926|ENST00000278175|ADM ENSG00000148926|ENST00000278175|ADM ENSG00000148926|ENST00000278175|ADM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.86236572265625 3 405.861101 1214.56147 2.7808 0.0011286 0.18567 7.5356E-05 2.9665 0.001204 405.86124569803366 17.386 0.47842 17.688 17.398 17.876 0.30159 90 36 3 0 0 0 0.136 3 7877 7834;7877;7925 20.581 11.605 1 402300 30030 3622 19233 19293 33888;33889;33890 33889 -0.03722365942462602 RYRQSMNNF 9 Unmodified _RYRQSMNNF_ 0 0 0 ENSG00000148926|ENST00000278175|ADM ENSG00000148926|ENST00000278175|ADM ENSG00000148926|ENST00000278175|ADM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.8626708984375 3 405.861101 1214.56147 2.9649 0.0012033 -0.044968 -1.8251E-05 2.9199 0.0011851 405.8611639115699 17.236 0.41504 17.897 17.687 18.102 0.66072 63 29 3 0 0 0 0.093314 2 7756 7756;7799 26.021 13.148 1 491390 30031 3622 19233 19293 33891;33892 33891 -0.03722365942462602 RYRRRYWVLPY 11 Unmodified _RYRRRYWVLPY_ 0 0 0 nc|ENSG00000076108|Q9UIF9-3|BAZ2A;ENSG00000076108|ENST00000549884|BAZ2A;nc|ENSG00000076108|Q9UIF9|BAZ2A;nc|ENSG00000076108|Q9UIF9-2|BAZ2A nc|ENSG00000076108|Q9UIF9-3|BAZ2A nc|ENSG00000076108|Q9UIF9-3|BAZ2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 814.4527587890625 2 814.452051 1626.88955 NaN NaN NaN NaN NaN NaN NaN 72.035 1 72.035 71.535 72.535 0 0 0 0 1.0082 1 35025 35025 0 0 1 30032 842 19234 19294 33893 33893 0.10117992310711088 RYRTHVRMHRR 11 Unmodified _RYRTHVRMHRR_ 0 0 0 REV__ENSG00000171872|ENST00000372299|KLF17 REV__ENSG00000171872|ENST00000372299|KLF17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 392.7227478027344 4 392.720739 1566.85385 2.5909 0.0010175 0.87536 0.00034377 3.4662 0.0013613 392.72120462293367 69.236 0.50731 69.897 69.543 70.051 0.66071 111 36 4 0 0 0 0.91403 1 31783 31783 0.40827 0.31342 1 2661100 + 30033 13525 19235 19295 33894 33894 0.0930963158200484 RYRTHVRMHRR 11 Unmodified _RYRTHVRMHRR_ 0 0 0 REV__ENSG00000171872|ENST00000372299|KLF17 REV__ENSG00000171872|ENST00000372299|KLF17 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 392.720739 1566.85385 2.0056 0.00078765 0.98398 0.00038643 2.9896 0.0011741 392.7212081574555 70.065 0.2488 70.065 69.857 70.106 0 0.085241 -0.00011925 NaN 0.40827 53 28 3 NaN NaN NaN NaN 0 NaN NaN 0 1718400 + 30034 13525 19235 19295 0.0930963158200484 RYRTHVRMHRR 11 Unmodified _RYRTHVRMHRR_ 0 0 0 REV__ENSG00000171872|ENST00000372299|KLF17 REV__ENSG00000171872|ENST00000372299|KLF17 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 392.720739 1566.85385 1.994 0.00078308 1.429 0.00056122 3.423 0.0013443 392.97202490632884 69.265 0.31161 69.967 69.84 70.151 0.70218 -0.012739 0.0005799 NaN 0.40827 61 38 3 NaN NaN NaN NaN 0 NaN NaN 0 2356200 + 30035 13525 19235 19295 0.0930963158200484 RYRTHVRMHRR 11 Unmodified _RYRTHVRMHRR_ 0 0 0 REV__ENSG00000171872|ENST00000372299|KLF17 REV__ENSG00000171872|ENST00000372299|KLF17 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 392.720739 1566.85385 2.9966 0.0011768 0.96252 0.000378 3.9591 0.0015548 392.72117541011727 69.735 1.0598 69.989 69.609 70.669 0.25443 0.0099769 -0.00015296 NaN 0.40827 158 73 4 NaN NaN NaN NaN 0 NaN NaN 0 2126300 + 30036 13525 19235 19295 0.0930963158200484 RYRTHVRMHRR 11 Unmodified _RYRTHVRMHRR_ 0 0 0 REV__ENSG00000171872|ENST00000372299|KLF17 REV__ENSG00000171872|ENST00000372299|KLF17 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 392.720739 1566.85385 2.5909 0.0010175 0.87536 0.00034377 3.4662 0.0013613 392.72120462293367 69.236 0.50731 69.897 69.543 70.051 0.66071 -0.082478 -0.00028987 NaN 0.40827 111 36 4 NaN NaN NaN NaN 0 NaN NaN 0 2661100 + 30037 13525 19235 19295 0.0930963158200484 RYSDSTFTF 9 Unmodified _RYSDSTFTF_ 0 0 0 ENSG00000151883|ENST00000281631|PARP8;ENST00000503561.7_1_5:49963882-50057668:+|nuORF;ENST00000510040.1_1_5:49962653-49963972:+|nuORF;nc|ENSG00000151883|Q8N3A8-2|PARP8 ENSG00000151883|ENST00000281631|PARP8 ENSG00000151883|ENST00000281631|PARP8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.2578125 2 562.256371 1122.49819 3.4304 0.0019288 -0.3379 -0.00018999 3.0925 0.0017388 562.2561952769937 51.944 0.34365 51.944 51.783 52.127 0 58 26 3 0 0 0 0.010018 2 23791 23744;23791 81.89 20.533 1 2552500 30038 3731 19236 19296 33895;33896 33896 -0.058160281787195345 RYSDSTFTF 9 Unmodified _RYSDSTFTF_ 0 0 0 ENSG00000151883|ENST00000281631|PARP8;ENST00000503561.7_1_5:49963882-50057668:+|nuORF;ENST00000510040.1_1_5:49962653-49963972:+|nuORF;nc|ENSG00000151883|Q8N3A8-2|PARP8 ENSG00000151883|ENST00000281631|PARP8 ENSG00000151883|ENST00000281631|PARP8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.2579956054688 2 562.256371 1122.49819 3.1022 0.0017442 -0.034562 -1.9433E-05 3.0676 0.0017248 562.2561821118371 50.866 0.31975 51.683 51.48 51.8 0.81738 41 16 3 0 0 0 0.021401 2 23156 23156;23202 66.457 14.188 1 1520700 30039 3731 19236 19296 33897;33898 33897 -0.058160281787195345 RYSEGIKHVL 10 Unmodified _RYSEGIKHVL_ 0 0 0 nc|ENSG00000165475|Q9Y2S2-2|CRYL1;ENSG00000165475|ENST00000298248|CRYL1 nc|ENSG00000165475|Q9Y2S2-2|CRYL1 nc|ENSG00000165475|Q9Y2S2-2|CRYL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 401.2291259765625 3 401.227779 1200.66151 2.7431 0.0011006 0.1076 4.3173E-05 2.8507 0.0011438 401.2278996604691 21.937 0.29433 21.937 21.771 22.066 0 55 23 3 0 0 0 0.20642 1 9821 9821 38.559 25.04 1 361290 30040 4400 19237 19297 33899 33899 0.06920194663007351 RYSEYAEEF 9 Unmodified _RYSEYAEEF_ 0 0 0 ENSG00000139505|ENST00000381801|MTMR6 ENSG00000139505|ENST00000381801|MTMR6 ENSG00000139505|ENST00000381801|MTMR6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 597.2601928710938 2 597.259111 1192.50367 3.3592 0.0020063 0.44785 0.00026748 3.807 0.0022738 597.2593097467113 40.711 0.15718 40.711 40.669 40.826 0 12 7 2 0 0 0 0.10584 1 18518 18518 31.268 16.43 1 1761700 30041 3151 19238 19298 33900 33900 -0.0848834938692562 RYSEYAEEF 9 Unmodified _RYSEYAEEF_ 0 0 0 ENSG00000139505|ENST00000381801|MTMR6 ENSG00000139505|ENST00000381801|MTMR6 ENSG00000139505|ENST00000381801|MTMR6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 597.260498046875 2 597.259111 1192.50367 3.5026 0.002092 -1.0863 -0.00064883 2.4163 0.0014432 597.257930863943 39.648 0.33649 40.448 40.235 40.571 0.80014 30 17 2 0 0 0 0.33646 1 17934 17934 15.248 2.7169 1 652300 30042 3151 19238 19298 33901 33901 -0.0848834938692562 RYSGNQVLF 9 Unmodified _RYSGNQVLF_ 0 0 0 nc|ENSG00000158987|Q8TEU7-6|RAPGEF6;nc|ENSG00000158987|Q8TEU7-2|RAPGEF6;nc|ENSG00000158987|Q8TEU7-5|RAPGEF6;nc|ENSG00000158987|Q8TEU7-3|RAPGEF6;ENSG00000158987|ENST00000509018|RAPGEF6;nc|ENSG00000158987|Q8TEU7-4|RAPGEF6 nc|ENSG00000158987|Q8TEU7-6|RAPGEF6 nc|ENSG00000158987|Q8TEU7-6|RAPGEF6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.2837524414062 2 542.282723 1082.55089 3.3271 0.0018042 -0.70544 -0.00038255 2.6216 0.0014217 542.2825165039856 45.437 0.24678 45.437 45.288 45.535 0 17 11 3 0 0 0 0.21127 1 20785 20785 22.658 5.7158 1 510800 30043 4006 19239 19299 33902 33902 0.012919746747684258 RYSGNQVLF 9 Unmodified _RYSGNQVLF_ 0 0 0 nc|ENSG00000158987|Q8TEU7-6|RAPGEF6;nc|ENSG00000158987|Q8TEU7-2|RAPGEF6;nc|ENSG00000158987|Q8TEU7-5|RAPGEF6;nc|ENSG00000158987|Q8TEU7-3|RAPGEF6;ENSG00000158987|ENST00000509018|RAPGEF6;nc|ENSG00000158987|Q8TEU7-4|RAPGEF6 nc|ENSG00000158987|Q8TEU7-6|RAPGEF6 nc|ENSG00000158987|Q8TEU7-6|RAPGEF6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 542.282723 1082.55089 3.0192 0.0016373 0.27967 0.00015166 3.2989 0.0017889 542.283073083994 44.276 0.29305 45.097 44.899 45.192 0.82075 -0.21403 0.00078882 NaN 22.658 25 15 2 NaN NaN NaN NaN 0 NaN NaN 0 474720 30044 4006 19239 19299 0.012919746747684258 RYSGNQVLF 9 Unmodified _RYSGNQVLF_ 0 0 0 nc|ENSG00000158987|Q8TEU7-6|RAPGEF6;nc|ENSG00000158987|Q8TEU7-2|RAPGEF6;nc|ENSG00000158987|Q8TEU7-5|RAPGEF6;nc|ENSG00000158987|Q8TEU7-3|RAPGEF6;ENSG00000158987|ENST00000509018|RAPGEF6;nc|ENSG00000158987|Q8TEU7-4|RAPGEF6 nc|ENSG00000158987|Q8TEU7-6|RAPGEF6 nc|ENSG00000158987|Q8TEU7-6|RAPGEF6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 542.282723 1082.55089 3.5933 0.0019486 -1.6795 -0.00091078 1.9138 0.0010378 542.2810601354936 44.749 0.14068 45.399 45.346 45.487 0.64998 0.087975 -0.0013361 NaN 22.658 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 223240 30045 4006 19239 19299 0.012919746747684258 RYSPVLSRF 9 Unmodified _RYSPVLSRF_ 0 0 0 COG1|p.T572Lfs*57|1|0.22|ENSG00000166685|chr17:73201539-73201539|G/-|frameshift_variant;ENSG00000166685|ENST00000299886|COG1 COG1|p.T572Lfs*57|1|0.22|ENSG00000166685|chr17:73201539-73201539|G/-|frameshift_variant COG1|p.T572Lfs*57|1|0.22|ENSG00000166685|chr17:73201539-73201539|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.8160400390625 2 562.81419 1123.61383 3.4644 0.0019498 0.17042 9.5913E-05 3.6348 0.0020457 562.814038247784 40.387 0.26809 40.387 40.225 40.493 0 12 8 2 0 0 0 0.074077 1 18322 18322 39.213 19.851 1 1049800 30046 201 19240 19300 33903 33903 0.05696540462804478 RYSPVLSRF 9 Unmodified _RYSPVLSRF_ 0 0 0 COG1|p.T572Lfs*57|1|0.22|ENSG00000166685|chr17:73201539-73201539|G/-|frameshift_variant;ENSG00000166685|ENST00000299886|COG1 COG1|p.T572Lfs*57|1|0.22|ENSG00000166685|chr17:73201539-73201539|G/-|frameshift_variant COG1|p.T572Lfs*57|1|0.22|ENSG00000166685|chr17:73201539-73201539|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.8158569335938 2 562.81419 1123.61383 3.3896 0.0019077 0.4591 0.00025839 3.8487 0.0021661 562.8143484111957 39.247 0.39247 40.045 39.84 40.232 0.79762 39 18 3 0 0 0 0.30351 2 17767 17767;17813 16.566 6.4919 1 935890 30047 201 19240 19300 33904;33905 33904 0.05696540462804478 RYSPVLSRF 9 Unmodified _RYSPVLSRF_ 0 0 0 COG1|p.T572Lfs*57|1|0.22|ENSG00000166685|chr17:73201539-73201539|G/-|frameshift_variant;ENSG00000166685|ENST00000299886|COG1 COG1|p.T572Lfs*57|1|0.22|ENSG00000166685|chr17:73201539-73201539|G/-|frameshift_variant COG1|p.T572Lfs*57|1|0.22|ENSG00000166685|chr17:73201539-73201539|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.8165893554688 2 562.81419 1123.61383 3.7033 0.0020843 0.52525 0.00029562 4.2285 0.0023799 562.8144055804752 40.246 0.2047 40.513 40.404 40.609 0.26696 12 6 2 0 0 0 0.22744 1 18318 18318 21.59 7.6841 1 626220 30048 201 19240 19300 33906 33906 0.05696540462804478 RYSPVLSRF 9 Unmodified _RYSPVLSRF_ 0 0 0 COG1|p.T572Lfs*57|1|0.22|ENSG00000166685|chr17:73201539-73201539|G/-|frameshift_variant;ENSG00000166685|ENST00000299886|COG1 COG1|p.T572Lfs*57|1|0.22|ENSG00000166685|chr17:73201539-73201539|G/-|frameshift_variant COG1|p.T572Lfs*57|1|0.22|ENSG00000166685|chr17:73201539-73201539|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.8161010742188 2 562.81419 1123.61383 3.757 0.0021145 -0.14324 -8.062E-05 3.6138 0.0020339 562.814138943093 39.756 0.21228 40.398 40.277 40.489 0.64136 16 8 2 0 0 0 0.43294 1 18155 18155 13.615 3.5409 1 798550 30049 201 19240 19300 33907 33907 0.05696540462804478 RYSRKGFLF 9 Unmodified _RYSRKGFLF_ 0 0 0 nc|ENSG00000196235|O00267-2|SUPT5H;ENSG00000196235|ENST00000432763|SUPT5H;ENST00000599335.5_1_19:39959399-39965382:+|nuORF nc|ENSG00000196235|O00267-2|SUPT5H nc|ENSG00000196235|O00267-2|SUPT5H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 391.89019775390625 3 391.889097 1172.64546 2.5185 0.00098696 0.35976 0.00014099 2.8782 0.0011279 391.8892141931038 35.687 0.54241 35.687 35.457 35.999 0 84 28 4 0 0 0 0.021401 2 16200 16145;16200 53.317 27.296 1 13979000 30050 5728 19241 19301 33908;33909 33909 0.06604533216750497 RYSRKGFLF 9 Unmodified _RYSRKGFLF_ 0 0 0 nc|ENSG00000196235|O00267-2|SUPT5H;ENSG00000196235|ENST00000432763|SUPT5H;ENST00000599335.5_1_19:39959399-39965382:+|nuORF nc|ENSG00000196235|O00267-2|SUPT5H nc|ENSG00000196235|O00267-2|SUPT5H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.3328247070312 2 587.330008 1172.64546 3.382 0.0019863 0.32969 0.00019364 3.7117 0.00218 587.330013548626 35.705 0.3409 35.705 35.543 35.884 0 35 16 3 0 0 0 0.15661 1 16173 16173 26.268 8.1332 1 1467600 30051 5728 19241 19301 33910 33910 0.06604533216750497 RYSRKGFLF 9 Unmodified _RYSRKGFLF_ 0 0 0 nc|ENSG00000196235|O00267-2|SUPT5H;ENSG00000196235|ENST00000432763|SUPT5H;ENST00000599335.5_1_19:39959399-39965382:+|nuORF nc|ENSG00000196235|O00267-2|SUPT5H nc|ENSG00000196235|O00267-2|SUPT5H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 391.89007568359375 3 391.889097 1172.64546 2.4545 0.0009619 0.065745 2.5765E-05 2.5203 0.00098767 391.88913133530866 34.539 0.38565 35.328 35.215 35.6 0.78921 96 38 3 0 0 0 0.02812 2 15708 15619;15708 46.022 14.754 1 15374000 30052 5728 19241 19301 33911;33912 33912 0.06604533216750497 RYSRKGFLF 9 Unmodified _RYSRKGFLF_ 0 0 0 nc|ENSG00000196235|O00267-2|SUPT5H;ENSG00000196235|ENST00000432763|SUPT5H;ENST00000599335.5_1_19:39959399-39965382:+|nuORF nc|ENSG00000196235|O00267-2|SUPT5H nc|ENSG00000196235|O00267-2|SUPT5H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.8901672363281 3 391.889097 1172.64546 2.8918 0.0011332 -0.1898 -7.438E-05 2.702 0.0010589 391.8890250134023 35.569 0.59706 35.825 35.509 36.106 0.25524 51 20 3 0 0 0 0.071132 1 16163 16163 30.703 4.4353 1 4393500 30053 5728 19241 19301 33913 33913 0.06604533216750497 RYSRKGFLF 9 Unmodified _RYSRKGFLF_ 0 0 0 nc|ENSG00000196235|O00267-2|SUPT5H;ENSG00000196235|ENST00000432763|SUPT5H;ENST00000599335.5_1_19:39959399-39965382:+|nuORF nc|ENSG00000196235|O00267-2|SUPT5H nc|ENSG00000196235|O00267-2|SUPT5H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.8904113769531 3 391.889097 1172.64546 2.8783 0.001128 0.27153 0.00010641 3.1498 0.0012344 391.8891110407643 35.11 0.39866 35.733 35.565 35.964 0.62294 61 19 5 0 0 0 0.03963 3 16101 16050;16101;16159 40.725 14.704 1 3703100 30054 5728 19241 19301 33914;33915;33916 33915 0.06604533216750497 RYSRKGFLF 9 Unmodified _RYSRKGFLF_ 0 0 0 nc|ENSG00000196235|O00267-2|SUPT5H;ENSG00000196235|ENST00000432763|SUPT5H;ENST00000599335.5_1_19:39959399-39965382:+|nuORF nc|ENSG00000196235|O00267-2|SUPT5H nc|ENSG00000196235|O00267-2|SUPT5H MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 587.330008 1172.64546 3.4761 0.0020416 -0.21696 -0.00012743 3.2591 0.0019142 587.3296169153609 35.539 0.28331 35.794 35.683 35.966 0.25524 0.044187 -0.00030899 NaN 26.268 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 379200 30055 5728 19241 19301 0.06604533216750497 RYSSMAASF 9 Unmodified _RYSSMAASF_ 0 0 0 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.23602294921875 2 510.234384 1018.45422 3.2013 0.0016334 -0.20994 -0.00010712 2.9914 0.0015263 510.23450107512207 37.83 0.56091 37.83 37.585 38.146 0 83 21 5 0 0 0 0.0013314 3 17169 17113;17169;17223 118.07 56.711 1 39416000 30056 4131 19242 19302 33917;33918;33919 33918 -0.054273358766863566 RYSSMAASF 9 Unmodified _RYSSMAASF_ 0 0 0 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1019.4660034179688 1 1019.46149 1018.45422 3.4974 0.0035654 -0.27167 -0.00027696 3.2257 0.0032885 1019.4616767015763 37.844 0.24171 37.844 37.694 37.935 0 21 9 3 0 0 0 0.0095519 1 17153 17153 82.529 48.128 1 1179800 30057 4131 19242 19302 33920 33920 -0.054273358766863566 RYSSMAASF 9 Unmodified _RYSSMAASF_ 0 0 0 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.2361145019531 2 510.234384 1018.45422 3.1735 0.0016192 -0.2772 -0.00014144 2.8963 0.0014778 510.2345189565949 36.68 0.62863 37.473 37.221 37.849 0.79342 109 29 5 0 0 0 1.0706E-08 4 16604 16559;16604;16648;16710 155.03 93.669 1 31595000 30058 4131 19242 19302 33921;33922;33923;33924 33922 -0.054273358766863566 RYSSMAASF 9 Unmodified _RYSSMAASF_ 0 0 0 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.2360534667969 2 510.234384 1018.45422 3.329 0.0016986 -0.21019 -0.00010725 3.1189 0.0015913 510.2344367483146 37.876 0.51069 38.137 37.889 38.4 0.26083 65 16 5 0 0 0 0.001731 3 17248 17190;17248;17304 106.94 50.763 1 15840000 30059 4131 19242 19302 33925;33926;33927 33926 -0.054273358766863566 RYSSMAASF 9 Unmodified _RYSSMAASF_ 0 0 0 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.2364501953125 2 510.234384 1018.45422 3.3137 0.0016907 -0.074951 -3.8243E-05 3.2387 0.0016525 510.2344932623547 37.312 0.55492 37.942 37.653 38.208 0.62999 79 21 5 0 0 0 0.00143 3 17047 16992;17047;17110 110.67 58.406 1 14217000 30060 4131 19242 19302 33928;33929;33930 33929 -0.054273358766863566 RYSSMAASF 9 Unmodified _RYSSMAASF_ 0 0 0 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 1019.46149 1018.45422 3.5771 0.0036468 -0.30737 -0.00031335 3.2698 0.0033334 1019.4615130895194 36.713 0.226 37.506 37.388 37.614 0.79342 -0.16887 -2.512E-05 NaN 82.529 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 333000 30061 4131 19242 19302 -0.054273358766863566 RYSSMAASF 9 Oxidation (M) _RYSSM(Oxidation (M))AASF_ RYSSM(1)AASF RYSSM(56)AASF 0 0 1 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.2335815429688 2 518.231842 1034.44913 2.891 0.0014982 0.48756 0.00025267 3.3785 0.0017509 518.2321967320277 22.988 0.28278 23.673 23.534 23.816 0.68536 80 39 3 0 0 0 0.030603 1 10241 10241 55.503 11.644 1 1438900 30062 4131 19242 19303 33931 33931 58 -0.06671639739306556 RYSSMAASF 9 Oxidation (M) _RYSSM(Oxidation (M))AASF_ RYSSM(1)AASF RYSSM(40)AASF 0 0 1 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 ENSG00000162366|ENST00000294338|PDZK1IP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.2345581054688 2 518.231842 1034.44913 3.3584 0.0017404 0.067321 3.4888E-05 3.4257 0.0017753 518.2319126794622 23.207 0.15068 23.847 23.725 23.876 0.64051 26 19 2 0 0 0 0.069974 1 10562 10562 40.239 9.6027 1 3230300 30063 4131 19242 19303 33932 33932 58 -0.06671639739306556 RYSVFFQSL 9 Unmodified _RYSVFFQSL_ 0 0 0 ENST00000497315.5_1_3:64004227-64005057:-|nuORF;nc|ENSG00000163636|Q15008-3|PSMD6;nc|ENSG00000163636|Q15008-2|PSMD6;ENST00000476464.5_1_3:63996346-64008248:-|nuORF;ENSG00000163636|ENST00000295901|PSMD6;nc|ENSG00000163636|Q15008-4|PSMD6 ENST00000497315.5_1_3:64004227-64005057:-|nuORF ENST00000497315.5_1_3:64004227-64005057:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 573.8043823242188 2 573.800749 1145.58694 3.3743 0.0019362 1.2074 0.00069283 4.5818 0.002629 573.801367842174 70.001 0.18819 70.258 70.18 70.368 0.25642 21 11 3 0 0 0 0.025135 1 32068 32068 61.602 11.669 1 387770 30064 4235 19243 19304 33933 33933 0.019974318516233325 RYSVFFQSL 9 Unmodified _RYSVFFQSL_ 0 0 0 ENST00000497315.5_1_3:64004227-64005057:-|nuORF;nc|ENSG00000163636|Q15008-3|PSMD6;nc|ENSG00000163636|Q15008-2|PSMD6;ENST00000476464.5_1_3:63996346-64008248:-|nuORF;ENSG00000163636|ENST00000295901|PSMD6;nc|ENSG00000163636|Q15008-4|PSMD6 ENST00000497315.5_1_3:64004227-64005057:-|nuORF ENST00000497315.5_1_3:64004227-64005057:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 573.802978515625 2 573.800749 1145.58694 3.3663 0.0019316 0.31619 0.00018143 3.6825 0.002113 573.8010091963819 69.467 0.20721 70.127 70.025 70.232 0.66071 21 14 2 0 0 0 0.17594 1 31839 31839 24.991 0.97039 1 488400 30065 4235 19243 19304 33934 33934 0.019974318516233325 RYSVFFQSL 9 Unmodified _RYSVFFQSL_ 0 0 0 ENST00000497315.5_1_3:64004227-64005057:-|nuORF;nc|ENSG00000163636|Q15008-3|PSMD6;nc|ENSG00000163636|Q15008-2|PSMD6;ENST00000476464.5_1_3:63996346-64008248:-|nuORF;ENSG00000163636|ENST00000295901|PSMD6;nc|ENSG00000163636|Q15008-4|PSMD6 ENST00000497315.5_1_3:64004227-64005057:-|nuORF ENST00000497315.5_1_3:64004227-64005057:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 573.800749 1145.58694 3.3663 0.0019316 0.31619 0.00018143 3.6825 0.002113 573.8010091963819 69.467 0.20721 70.127 70.025 70.232 0.66071 -0.065206 -0.00066731 NaN 61.602 21 14 2 NaN NaN NaN NaN 0 NaN NaN 0 488400 30066 4235 19243 19304 0.019974318516233325 RYTDVTTVL 9 Unmodified _RYTDVTTVL_ 0 0 0 nc|ENSG00000122778|Q9HCM3-2|KIAA1549;ENSG00000122778|ENST00000422774|KIAA1549 nc|ENSG00000122778|Q9HCM3-2|KIAA1549 nc|ENSG00000122778|Q9HCM3-2|KIAA1549 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.2927856445312 2 534.290214 1066.56587 3.1205 0.0016672 0.71851 0.00038389 3.839 0.0020511 534.2907146740874 48.543 0.37356 48.543 48.411 48.785 0 34 22 2 0 0 0 0.15661 1 22276 22276 26.268 3.5319 1 948080 30067 2283 19244 19305 33935 33935 0.03525421752101465 RYTFYVLEF 9 Unmodified _RYTFYVLEF_ 0 0 0 ENSG00000142892|ENST00000370812|PIGK;nc|ENSG00000142892|Q92643-2|PIGK ENSG00000142892|ENST00000370812|PIGK ENSG00000142892|ENST00000370812|PIGK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.6607666015625 2 619.316232 1236.61791 3.6067 0.0022337 -0.60758 -0.00037628 2.9991 0.0018574 619.817167151644 83.897 0.15947 84.145 84.033 84.192 0.24722 13 8 2 0 0 0 0.17594 1 38605 38605 24.991 12.75 1 543210 30068 3333 19245 19306 33936 33936 0.009065851658533575 RYTFYVLEF 9 Unmodified _RYTFYVLEF_ 0 0 0 ENSG00000142892|ENST00000370812|PIGK;nc|ENSG00000142892|Q92643-2|PIGK ENSG00000142892|ENST00000370812|PIGK ENSG00000142892|ENST00000370812|PIGK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.8204956054688 2 619.316232 1236.61791 3.7756 0.0023383 -0.0781 -4.8369E-05 3.6975 0.0022899 619.8178427673291 83.357 0.20519 84.019 83.889 84.094 0.66219 19 13 2 0 0 0 0.59921 1 38377 38377 10.8 0.72558 1 356390 30069 3333 19245 19306 33937 33937 0.009065851658533575 RYTIVQQQI 9 Unmodified _RYTIVQQQI_ 0 0 0 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2;ENSG00000130640|ENST00000252936|TUBGCP2;nc|ENSG00000130640|Q9BSJ2-4|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 574.826904296875 2 574.824755 1147.63496 NaN NaN NaN NaN NaN NaN NaN 39.932 1 40.574 40.074 41.074 0.64136 0 0 0 0.48891 1 18251 18251 19.362 1.2156 1 30070 2604 19246 19307 33938 33938 0.0670450577167685 RYTKTKYL 8 Unmodified _RYTKTKYL_ 0 0 0 REV__nc|ENSG00000064651|P55011-3|SLC12A2 REV__nc|ENSG00000064651|P55011-3|SLC12A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 358.21136474609375 3 358.209836 1071.60768 2.7618 0.00098931 0.25201 9.0274E-05 3.0138 0.0010796 358.20981879002335 66.471 0.27003 66.719 66.559 66.829 0.24848 23 14 2 0 0 0 0.70799 1 30435 30435 3.5965 1.8542 1 356880 + 30071 10414 19247 19308 33939 33939 0.07474022231258459 RYTKTKYL 8 Unmodified _RYTKTKYL_ 0 0 0 REV__nc|ENSG00000064651|P55011-3|SLC12A2 REV__nc|ENSG00000064651|P55011-3|SLC12A2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 358.209836 1071.60768 2.7618 0.00098931 0.25201 9.0274E-05 3.0138 0.0010796 358.20981879002335 66.471 0.27003 66.719 66.559 66.829 0.24848 0.12922 1.2815E-05 NaN 3.5965 23 14 2 NaN NaN NaN NaN 0 NaN NaN 0 356880 + 30072 10414 19247 19308 0.07474022231258459 RYTKWKYFKGR 11 Unmodified _RYTKWKYFKGR_ 0 0 0 REV__nc|ENSG00000142303|Q9H324|ADAMTS10 REV__nc|ENSG00000142303|Q9H324|ADAMTS10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.620849609375 3 511.62101 1531.8412 NaN NaN NaN NaN NaN NaN NaN 91.649 1 91.649 91.149 92.149 0 0 0 0 1.0059 1 48478 48478 1.2148 0.76031 1 + 30073 12321 19248 19309 33940 33940 0.09655498670736051 RYTTEFHEL 9 Unmodified _RYTTEFHEL_ 0 0 0 ENST00000524549.1_1_11:9597437-9598815:+|nuORF;nc|ENSG00000166483|P30291-2|WEE1;ENSG00000166483|ENST00000450114|WEE1 ENST00000524549.1_1_11:9597437-9598815:+|nuORF ENST00000524549.1_1_11:9597437-9598815:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 598.29296875 2 598.290745 1194.56694 NaN NaN NaN NaN NaN NaN NaN 34.513 1 34.513 34.013 35.013 0 0 0 0 0.23029 1 15646 15646 29.841 12.728 1 30074 4488 19249 19310 33941 33941 -0.022563638790188634 RYTTEFHEL 9 Unmodified _RYTTEFHEL_ 0 0 0 ENST00000524549.1_1_11:9597437-9598815:+|nuORF;nc|ENSG00000166483|P30291-2|WEE1;ENSG00000166483|ENST00000450114|WEE1 ENST00000524549.1_1_11:9597437-9598815:+|nuORF ENST00000524549.1_1_11:9597437-9598815:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.3853149414062 2 598.290745 1194.56694 3.7306 0.002232 1.7593 0.0010525 5.4898 0.0032845 598.7934191457814 34.505 0.11254 34.759 34.699 34.812 0.25389 5 3 2 0 0 0 0.1077 1 15736 15736 7.609 2.3121 1 509210 30075 4488 19249 19310 33942 33942 -0.022563638790188634 RYTVGGLETF 10 Unmodified _RYTVGGLETF_ 0 0 0 nc|ENSG00000111679|P29350-2|PTPN6;ENST00000416215.6_1_12:7061038-7070080:+|nuORF;ENSG00000111679|ENST00000318974|PTPN6;nc|ENSG00000111679|P29350-3|PTPN6;nc|ENSG00000111679|P29350-4|PTPN6 nc|ENSG00000111679|P29350-2|PTPN6 nc|ENSG00000111679|P29350-2|PTPN6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.7960815429688 2 571.795663 1141.57677 NaN NaN NaN NaN NaN NaN NaN 54.409 1 55.205 54.705 55.705 0.79552 0 0 0 0.97053 1 24825 24825 10.151 1.4052 1 30076 1770 19250 19311 33943 33943 0.011648241263856107 RYVEIVSQF 9 Unmodified _RYVEIVSQF_ 0 0 0 nc|ENSG00000006715|P49754-2|VPS41;nc|ENSG00000006715|P49754-3|VPS41;ENSG00000006715|ENST00000310301|VPS41 nc|ENSG00000006715|P49754-2|VPS41 nc|ENSG00000006715|P49754-2|VPS41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.8084716796875 2 570.806031 1139.59751 3.5336 0.002017 0.69068 0.00039424 4.2242 0.0024112 570.8064393439842 56.723 0.24661 56.723 56.557 56.804 0 36 20 2 0 0 0 0.0095519 1 26072 26072 82.529 32.596 1 1347100 30077 356 19251 19312 33944 33944 0.0332941450603812 RYVEIVSQF 9 Unmodified _RYVEIVSQF_ 0 0 0 nc|ENSG00000006715|P49754-2|VPS41;nc|ENSG00000006715|P49754-3|VPS41;ENSG00000006715|ENST00000310301|VPS41 nc|ENSG00000006715|P49754-2|VPS41 nc|ENSG00000006715|P49754-2|VPS41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.80859375 2 570.806031 1139.59751 3.2757 0.0018698 1.1059 0.00063124 4.3816 0.0025011 570.8057311159322 55.785 0.25051 56.572 56.431 56.681 0.78711 39 19 3 0 0 0 0.018453 1 25458 25458 70.332 20.399 1 1115800 30078 356 19251 19312 33945 33945 0.0332941450603812 RYVEIVSQF 9 Unmodified _RYVEIVSQF_ 0 0 0 nc|ENSG00000006715|P49754-2|VPS41;nc|ENSG00000006715|P49754-3|VPS41;ENSG00000006715|ENST00000310301|VPS41 nc|ENSG00000006715|P49754-2|VPS41 nc|ENSG00000006715|P49754-2|VPS41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 570.8071899414062 2 570.806031 1139.59751 3.4033 0.0019426 0.035969 2.0531E-05 3.4392 0.0019631 571.3077279486753 56.552 0.23577 56.817 56.681 56.916 0.26543 26 15 2 0 0 0 0.023321 1 25859 25859 63.961 22.121 1 1120400 30079 356 19251 19312 33946 33946 0.0332941450603812 RYVEIVSQF 9 Unmodified _RYVEIVSQF_ 0 0 0 nc|ENSG00000006715|P49754-2|VPS41;nc|ENSG00000006715|P49754-3|VPS41;ENSG00000006715|ENST00000310301|VPS41 nc|ENSG00000006715|P49754-2|VPS41 nc|ENSG00000006715|P49754-2|VPS41 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.8085327148438 2 570.806031 1139.59751 NaN NaN NaN NaN NaN NaN NaN 55.808 1 56.476 55.976 56.976 0.66798 0 0 0 0.026708 1 25532 25532 61.602 19.762 1 30080 356 19251 19312 33947 33947 0.0332941450603812 RYVELAWGF 9 Unmodified _RYVELAWGF_ 0 0 0 ENST00000566056.1_1_16:30959736-30965162:+|nuORF;ENSG00000175938|ENST00000318663|ORAI3 ENST00000566056.1_1_16:30959736-30965162:+|nuORF ENST00000566056.1_1_16:30959736-30965162:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.7979736328125 2 570.795466 1139.57638 2.9044 0.0016578 0.20141 0.00011496 3.1058 0.0017728 570.7956450967524 75.588 0.26902 75.588 75.441 75.71 0 34 21 2 0 0 0 0.10584 1 37019 37019 31.268 12.011 1 2383100 30081 5056 19252 19313 33948 33948 0.012174491971563839 RYVELAWGF 9 Unmodified _RYVELAWGF_ 0 0 0 ENST00000566056.1_1_16:30959736-30965162:+|nuORF;ENSG00000175938|ENST00000318663|ORAI3 ENST00000566056.1_1_16:30959736-30965162:+|nuORF ENST00000566056.1_1_16:30959736-30965162:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 570.795466 1139.57638 3.1903 0.001821 -0.00015338 -8.755E-08 3.1902 0.0018209 570.7954253413486 75.506 0.22467 75.763 75.636 75.861 0.25704 0.087631 -0.00013944 NaN 31.268 25 19 2 NaN NaN NaN NaN 0 NaN NaN 0 729800 30082 5056 19252 19313 0.012174491971563839 RYVFQSENTF 10 Unmodified _RYVFQSENTF_ 0 0 0 nc|ENSG00000107882|Q9UMX1-2|SUFU;nc|ENSG00000107882|Q9UMX1-3|SUFU;ENSG00000107882|ENST00000369902|SUFU nc|ENSG00000107882|Q9UMX1-2|SUFU nc|ENSG00000107882|Q9UMX1-2|SUFU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 645.8110961914062 2 645.809302 1289.60405 3.6627 0.0023654 -0.23523 -0.00015191 3.4275 0.0022135 645.8089438010119 49.799 0.19008 49.799 49.722 49.912 0 14 8 2 0 0 0 0.14986 1 22808 22808 45.74 29.591 1 442420 30083 1613 19253 19314 33949 33949 -0.029166923332468286 RYVFQSENTF 10 Unmodified _RYVFQSENTF_ 0 0 0 nc|ENSG00000107882|Q9UMX1-2|SUFU;nc|ENSG00000107882|Q9UMX1-3|SUFU;ENSG00000107882|ENST00000369902|SUFU nc|ENSG00000107882|Q9UMX1-2|SUFU nc|ENSG00000107882|Q9UMX1-2|SUFU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.8124389648438 2 645.809302 1289.60405 3.6485 0.0023563 -0.26849 -0.00017339 3.3801 0.0021829 645.808790850248 48.697 0.20789 49.524 49.394 49.602 0.82705 19 11 2 0 0 0 0.19222 1 22177 22177 40.239 22.093 1 391090 30084 1613 19253 19314 33950 33950 -0.029166923332468286 RYVFQSENTF 10 Unmodified _RYVFQSENTF_ 0 0 0 nc|ENSG00000107882|Q9UMX1-2|SUFU;nc|ENSG00000107882|Q9UMX1-3|SUFU;ENSG00000107882|ENST00000369902|SUFU nc|ENSG00000107882|Q9UMX1-2|SUFU nc|ENSG00000107882|Q9UMX1-2|SUFU MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 645.809302 1289.60405 3.9972 0.0025814 0.36021 0.00023263 4.3574 0.0028141 645.8096711727147 49.29 0.15383 49.946 49.883 50.037 0.65524 0.18947 0.00054583 NaN 45.74 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 198760 30085 1613 19253 19314 -0.029166923332468286 RYVLYPNNF 9 Unmodified _RYVLYPNNF_ 0 0 0 ENST00000563908.1_1_15:72647792-72668286:-|nuORF;ENSG00000213614|ENST00000268097|HEXA ENST00000563908.1_1_15:72647792-72668286:-|nuORF ENST00000563908.1_1_15:72647792-72668286:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.3084716796875 2 593.306198 1184.59784 NaN NaN NaN NaN NaN NaN NaN 56.433 1 56.433 55.933 56.933 0 0 0 0 0.026708 1 25967 25967 78.149 56.403 1 30086 6093 19254 19315 33951 33951 0.012928342258874181 RYVPLLLLLLL 11 Unmodified _RYVPLLLLLLL_ 0 0 0 ENST00000565192.1_1_6:31022106-31024293:+|nuORF;nc|ENSG00000228789|E2RYF7|HCG22 ENST00000565192.1_1_6:31022106-31024293:+|nuORF ENST00000565192.1_1_6:31022106-31024293:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 663.4500122070312 2 663.449591 1324.88463 NaN NaN NaN NaN NaN NaN NaN 102.43 1 102.43 101.93 102.93 0 0 0 0 1.0082 1 56548 56548 0 0 1 30087 9038 19255 19316 33952 33952 0.23518295395388122 RYVPRASYF 9 Unmodified _RYVPRASYF_ 0 0 0 ENST00000510058.1_1_6:41904922-41909441:-|nuORF;nc|ENSG00000112576|P30281-3|CCND3;ENSG00000112576|ENST00000372991|CCND3 ENST00000510058.1_1_6:41904922-41909441:-|nuORF ENST00000510058.1_1_6:41904922-41909441:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.8081665039062 2 579.806365 1157.59818 3.3431 0.0019383 -0.026743 -1.5506E-05 3.3163 0.0019228 579.8060383536179 34.093 0.24251 34.093 33.996 34.238 0 24 14 3 0 0 0 0.1081 1 15437 15437 32.786 20.254 1 1852900 30088 1812 19256 19317 33953 33953 0.025682539457420717 RYVPRASYF 9 Unmodified _RYVPRASYF_ 0 0 0 ENST00000510058.1_1_6:41904922-41909441:-|nuORF;nc|ENSG00000112576|P30281-3|CCND3;ENSG00000112576|ENST00000372991|CCND3 ENST00000510058.1_1_6:41904922-41909441:-|nuORF ENST00000510058.1_1_6:41904922-41909441:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 386.87396240234375 3 386.873336 1157.59818 NaN NaN NaN NaN NaN NaN NaN 34.126 1 34.126 33.626 34.626 0 0 0 0 0.063482 1 15466 15466 49.527 34.279 1 30089 1812 19256 19317 33954 33954 0.025682539457420717 RYVPRASYF 9 Unmodified _RYVPRASYF_ 0 0 0 ENST00000510058.1_1_6:41904922-41909441:-|nuORF;nc|ENSG00000112576|P30281-3|CCND3;ENSG00000112576|ENST00000372991|CCND3 ENST00000510058.1_1_6:41904922-41909441:-|nuORF ENST00000510058.1_1_6:41904922-41909441:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 579.8087158203125 2 579.806365 1157.59818 2.998 0.0017383 0.38677 0.00022425 3.3848 0.0019625 579.8064679759632 33.092 0.37366 33.88 33.701 34.074 0.78795 53 23 3 0 0 0 0.082627 2 14958 14958;15010 39.95 27.418 1 1451400 30090 1812 19256 19317 33955;33956 33955 0.025682539457420717 RYVPRASYF 9 Unmodified _RYVPRASYF_ 0 0 0 ENST00000510058.1_1_6:41904922-41909441:-|nuORF;nc|ENSG00000112576|P30281-3|CCND3;ENSG00000112576|ENST00000372991|CCND3 ENST00000510058.1_1_6:41904922-41909441:-|nuORF ENST00000510058.1_1_6:41904922-41909441:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 386.8742980957031 3 386.873336 1157.59818 2.8772 0.0011131 -0.27434 -0.00010613 2.6029 0.001007 386.87309062623245 34.135 0.24825 34.389 34.226 34.474 0.25389 13 10 2 0 0 0 0.057456 1 15547 15547 43.982 29.025 1 1715400 30091 1812 19256 19317 33957 33957 0.025682539457420717 RYVPRASYF 9 Unmodified _RYVPRASYF_ 0 0 0 ENST00000510058.1_1_6:41904922-41909441:-|nuORF;nc|ENSG00000112576|P30281-3|CCND3;ENSG00000112576|ENST00000372991|CCND3 ENST00000510058.1_1_6:41904922-41909441:-|nuORF ENST00000510058.1_1_6:41904922-41909441:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 579.808837890625 2 579.806365 1157.59818 NaN NaN NaN NaN NaN NaN NaN 34.092 1 34.346 33.846 34.846 0.25389 0 0 0 0.54797 1 15524 15524 13.042 2.8591 1 30092 1812 19256 19317 33958 33958 0.025682539457420717 RYVPRASYF 9 Unmodified _RYVPRASYF_ 0 0 0 ENST00000510058.1_1_6:41904922-41909441:-|nuORF;nc|ENSG00000112576|P30281-3|CCND3;ENSG00000112576|ENST00000372991|CCND3 ENST00000510058.1_1_6:41904922-41909441:-|nuORF ENST00000510058.1_1_6:41904922-41909441:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 579.8089599609375 2 579.806365 1157.59818 3.4927 0.0020251 -0.080386 -4.6608E-05 3.4123 0.0019785 579.8063862457282 33.626 0.36606 34.246 34.052 34.418 0.62031 38 14 4 0 0 0 0.47677 2 15363 15363;15420 13.042 7.8118 1 847070 30093 1812 19256 19317 33959;33960 33959 0.025682539457420717 RYVPRASYF 9 Unmodified _RYVPRASYF_ 0 0 0 ENST00000510058.1_1_6:41904922-41909441:-|nuORF;nc|ENSG00000112576|P30281-3|CCND3;ENSG00000112576|ENST00000372991|CCND3 ENST00000510058.1_1_6:41904922-41909441:-|nuORF ENST00000510058.1_1_6:41904922-41909441:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 386.8743591308594 3 386.873336 1157.59818 2.6553 0.0010273 -0.011788 -4.5603E-06 2.6435 0.0010227 386.8732856543916 33.667 0.35489 34.288 34.052 34.407 0.62031 29 13 3 0 0 0 0.1229 1 15408 15408 28.495 19.111 1 585800 30094 1812 19256 19317 33961 33961 0.025682539457420717 RYVQQLQRL 9 Unmodified _RYVQQLQRL_ 0 0 0 ENSG00000055950|ENST00000318364|MRPL43;nc|ENSG00000055950|Q8N983-3|MRPL43;nc|ENSG00000055950|Q8N983-2|MRPL43;nc|ENSG00000055950|Q8N983|MRPL43;nc|ENSG00000055950|Q8N983-6|MRPL43;nc|ENSG00000055950|Q8N983-7|MRPL43 ENSG00000055950|ENST00000318364|MRPL43 ENSG00000055950|ENST00000318364|MRPL43 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 401.9046325683594 3 401.903406 1202.68839 2.86 0.0011495 -0.52329 -0.00021031 2.3367 0.00093914 401.903236058246 30.471 0.20494 30.471 30.328 30.533 0 20 13 2 0 0 0 0.049036 1 13751 13751 47.594 19.1 1 640470 30095 618 19257 19318 33962 33962 0.09515303274179132 RYVQQLQRL 9 Unmodified _RYVQQLQRL_ 0 0 0 ENSG00000055950|ENST00000318364|MRPL43;nc|ENSG00000055950|Q8N983-3|MRPL43;nc|ENSG00000055950|Q8N983-2|MRPL43;nc|ENSG00000055950|Q8N983|MRPL43;nc|ENSG00000055950|Q8N983-6|MRPL43;nc|ENSG00000055950|Q8N983-7|MRPL43 ENSG00000055950|ENST00000318364|MRPL43 ENSG00000055950|ENST00000318364|MRPL43 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 401.903406 1202.68839 3.2797 0.0013181 -1.3494 -0.00054231 1.9303 0.0007758 402.2372249486998 30.144 0.070539 30.402 30.366 30.437 0.25804 -0.034458 -0.00069181 NaN 47.594 11 6 3 NaN NaN NaN NaN 0 NaN NaN 0 203460 30096 618 19257 19318 0.09515303274179132 RYVRRLDFF 9 Unmodified _RYVRRLDFF_ 0 0 0 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-5|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-3|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-4|CSNK1G3;nc|ENSG00000151292|Q9Y6M4|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-2|CSNK1G3;ENSG00000151292|ENST00000696905|CSNK1G3;nc|ENSG00000169118|Q9HCP0-2|CSNK1G1;ENSG00000133275|ENST00000255641|CSNK1G2;ENSG00000169118|ENST00000303052|CSNK1G1 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 424.5728454589844 3 424.571768 1270.69348 2.7741 0.0011778 0.46962 0.00019939 3.2437 0.0013772 424.57199594748846 43.038 0.23998 43.038 42.874 43.114 0 21 12 2 0 0 0 0.19413 1 19630 19630 23.79 4.4278 1 2985000 30097 3698 19258 19319 33963 33963 0.06895607136789295 RYVRRLDFF 9 Unmodified _RYVRRLDFF_ 0 0 0 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-5|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-3|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-4|CSNK1G3;nc|ENSG00000151292|Q9Y6M4|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-2|CSNK1G3;ENSG00000151292|ENST00000696905|CSNK1G3;nc|ENSG00000169118|Q9HCP0-2|CSNK1G1;ENSG00000133275|ENST00000255641|CSNK1G2;ENSG00000169118|ENST00000303052|CSNK1G1 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 424.5726623535156 3 424.571768 1270.69348 2.6486 0.0011245 0.021886 9.292E-06 2.6705 0.0011338 424.5718365498347 41.913 0.30018 42.722 42.53 42.831 0.80856 43 19 3 0 0 0 0.03963 2 19029 18981;19029 51.63 28.894 1 3274400 30098 3698 19258 19319 33964;33965 33965 0.06895607136789295 RYVRRLDFF 9 Unmodified _RYVRRLDFF_ 0 0 0 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-5|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-3|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-4|CSNK1G3;nc|ENSG00000151292|Q9Y6M4|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-2|CSNK1G3;ENSG00000151292|ENST00000696905|CSNK1G3;nc|ENSG00000169118|Q9HCP0-2|CSNK1G1;ENSG00000133275|ENST00000255641|CSNK1G2;ENSG00000169118|ENST00000303052|CSNK1G1 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 424.5723876953125 3 424.571768 1270.69348 2.9371 0.001247 -0.18373 -7.8006E-05 2.7534 0.001169 424.5717051017394 42.933 0.14656 43.203 43.186 43.332 0.27021 16 12 2 0 0 0 0.063112 1 19608 19608 41.956 24.843 1 5813200 30099 3698 19258 19319 33966 33966 0.06895607136789295 RYVRRLDFF 9 Unmodified _RYVRRLDFF_ 0 0 0 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-5|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-3|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-4|CSNK1G3;nc|ENSG00000151292|Q9Y6M4|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-2|CSNK1G3;ENSG00000151292|ENST00000696905|CSNK1G3;nc|ENSG00000169118|Q9HCP0-2|CSNK1G1;ENSG00000133275|ENST00000255641|CSNK1G2;ENSG00000169118|ENST00000303052|CSNK1G1 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 424.5733947753906 3 424.571768 1270.69348 NaN NaN NaN NaN NaN NaN NaN 42.156 1 42.803 42.303 43.303 0.64693 0 0 0 0.34849 1 19306 19306 24.991 8.7164 1 30100 3698 19258 19319 33967 33967 0.06895607136789295 RYVRRLDFF 9 Unmodified _RYVRRLDFF_ 0 0 0 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-5|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-3|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-4|CSNK1G3;nc|ENSG00000151292|Q9Y6M4|CSNK1G3;nc|ENSG00000151292|Q9Y6M4-2|CSNK1G3;ENSG00000151292|ENST00000696905|CSNK1G3;nc|ENSG00000169118|Q9HCP0-2|CSNK1G1;ENSG00000133275|ENST00000255641|CSNK1G2;ENSG00000169118|ENST00000303052|CSNK1G1 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3 nc|ENSG00000151292|Q9Y6M4-6|CSNK1G3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 424.5736999511719 3 424.571768 1270.69348 NaN NaN NaN NaN NaN NaN NaN 42.254 1 42.901 42.401 43.401 0.64693 0 0 0 0.34849 1 19354 19354 24.991 16.239 1 30101 3698 19258 19319 33968 33968 0.06895607136789295 RYVWWKKSL 9 Unmodified _RYVWWKKSL_ 0 0 0 ENSG00000151461|ENST00000357604|UPF2 ENSG00000151461|ENST00000357604|UPF2 ENSG00000151461|ENST00000357604|UPF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.9122314453125 3 422.576631 1264.70806 2.8544 0.0012062 0.37409 0.00015808 3.2285 0.0013643 422.5767184323164 38.559 0.27666 38.559 38.402 38.679 0 29 13 3 0 0 0 0.02631 1 17480 17480 63.227 40.453 1 598130 30102 3709 19259 19320 33969 33969 0.08629679284945269 RYVWWKKSL 9 Unmodified _RYVWWKKSL_ 0 0 0 ENSG00000151461|ENST00000357604|UPF2 ENSG00000151461|ENST00000357604|UPF2 ENSG00000151461|ENST00000357604|UPF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.5779113769531 3 422.576631 1264.70806 2.7317 0.0011543 0.16101 6.804E-05 2.8927 0.0012224 422.57661458267427 37.411 0.22542 38.207 38.115 38.341 0.79552 18 9 3 0 0 0 0.02812 1 16963 16963 53.317 32.446 1 474380 30103 3709 19259 19320 33970 33970 0.08629679284945269 RYWFWIRNCFL 11 Unmodified _RYWFWIRNCFL_ 0 0 0 ENST00000498642.5_1_1:19923574-19948639:+|nuORF;chr1:19616013-19622100|143|12.52|0.71|4.14|+|1|TE_info:AluSx,AluSx_dup1532,Alu,SINE,donor,-,19615912,19616013|None,MICOS10-NBL1|2 ENST00000498642.5_1_1:19923574-19948639:+|nuORF ENST00000498642.5_1_1:19923574-19948639:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 802.4037475585938 2 802.403181 1602.79181 NaN NaN NaN NaN NaN NaN NaN 103.11 1 103.7 103.2 104.2 0.59821 0 0 0 1.0082 1 47709 47709 0 0 1 30104 122 19260 19321 33971 33971 0.014524673903451912 RYWPFSMDC 9 Unmodified _RYWPFSMDC_ 0 0 0 ENSG00000134013|ENST00000389131|LOXL2;ENST00000520925.1_1_8:23179624-23191135:-|nuORF ENSG00000134013|ENST00000389131|LOXL2 ENSG00000134013|ENST00000389131|LOXL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.7474975585938 2 602.749344 1203.48414 NaN NaN NaN NaN NaN NaN NaN 106.58 1 106.63 106.13 107.13 0.04837 0 0 0 0.90611 1 57654 57654 2.0598 0.21551 1 30105 2781 19261 19322 33972 33972 -0.10946720202991855 RYYKIYFYPED 11 Unmodified _RYYKIYFYPED_ 0 0 0 ENSG00000183690|ENST00000420999|EFHC2 ENSG00000183690|ENST00000420999|EFHC2 ENSG00000183690|ENST00000420999|EFHC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 778.8772583007812 2 778.874642 1555.73473 NaN NaN NaN NaN NaN NaN NaN 64.91 1 65.619 65.119 66.119 0.70891 0 0 0 1.0072 1 30604 30604 1.3295 0 1 30106 5398 19262 19323 33973 33973 -0.02090721405079421 RYYNELRRRYY 11 Unmodified _RYYNELRRRYY_ 0 0 0 ENSG00000115423|ENST00000389394|DNAH6;DNAH6|p.R2893Pfs*33|1|0.06|ENSG00000115423|chr2:84705697-84705698|-/CTTATCATATTCTAAAA|frameshift_variant ENSG00000115423|ENST00000389394|DNAH6 ENSG00000115423|ENST00000389394|DNAH6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 826.4257202148438 2 826.42623 1650.83791 NaN NaN NaN NaN NaN NaN NaN 101.9 1 102.5 102 103 0.59759 0 0 0 1.0082 1 47178 47178 0 0 1 30107 271 19263 19324 33974 33974 0.03852203826136247 RYYYRRDIVRK 11 Unmodified _RYYYRRDIVRK_ 0 0 0 ENSG00000105672|ENST00000402764|ETV2;nc|ENSG00000105672|O00321-2|ETV2 ENSG00000105672|ENST00000402764|ETV2 ENSG00000105672|ENST00000402764|ETV2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 794.4467163085938 2 794.446966 1586.87938 NaN NaN NaN NaN NaN NaN NaN 67.659 1 67.659 67.159 68.159 0 0 0 0 1.0082 1 32498 32498 0 0 1 30108 1519 19264 19325 33975 33975 0.10941384585430569 RYYYYCRFRWR 11 Unmodified _RYYYYCRFRWR_ 0 0 0 REV__nc|ENSG00000105609|O75023|LILRB5 REV__nc|ENSG00000105609|O75023|LILRB5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.1137084960938 3 577.949021 1730.82523 NaN NaN NaN NaN NaN NaN NaN 97.619 1 97.908 97.408 98.408 0.28923 0 0 0 1.0082 1 44858 44858 0 0 1 + 30109 11043 19265 19326 33976 33976 -0.010945308378040863 RYYYYHRQYRR 11 Unmodified _RYYYYHRQYRR_ 0 0 0 ENST00000565031.1_1_16:2009625-2011290:+|nuORF;nc|ENSG00000140990|O96000-2|NDUFB10;ENSG00000140990|ENST00000268668|NDUFB10 ENST00000565031.1_1_16:2009625-2011290:+|nuORF ENST00000565031.1_1_16:2009625-2011290:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 862.4314575195312 2 862.431847 1722.84914 NaN NaN NaN NaN NaN NaN NaN 92.809 1 92.809 92.309 93.309 0 0 0 0 1.0082 1 49405 49405 0 0 1 30110 3225 19266 19327 33977 33977 0.016630259202429443 SAAKGPRR 8 Unmodified _SAAKGPRR_ 0 0 0 REV__ENST00000542754.6_3_14:31494687-31494903:+|nuORF REV__ENST00000542754.6_3_14:31494687-31494903:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.7528381347656 2 421.751393 841.488233 3.7226 0.00157 -0.32584 -0.00013742 3.3968 0.0014326 421.75118910610416 96.438 0.52415 96.715 96.439 96.963 0.27778 69 27 3 0 0 0 0.7471 2 44275 44275;44369 0.69038 0 1 2252900 + 30111 17228 19267 19328 33978;33979 33978 0.06114873397223164 SAALYRIPK 9 Unmodified _SAALYRIPK_ 0 0 0 ENSG00000137819|ENST00000395407|PAQR5 ENSG00000137819|ENST00000395407|PAQR5 ENSG00000137819|ENST00000395407|PAQR5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.23614501953125 2 509.805834 1017.59712 3.2737 0.001669 -0.18453 -9.4072E-05 3.0892 0.0015749 509.80611536243373 37.428 0.24086 38.058 37.939 38.18 0.62999 11 7 2 0 0 0 0.098886 1 17110 17110 7.9102 0 1 372300 30112 3044 19268 19329 33980 33980 0.08902039576832976 SAAPWGGG 8 Unmodified _SAAPWGGG_ 0 0 0 ENST00000242719.3_1_1:51702154-51702313:+|nuORF ENST00000242719.3_1_1:51702154-51702313:+|nuORF ENST00000242719.3_1_1:51702154-51702313:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.6649169921875 2 351.663921 701.313289 2.3937 0.00084177 1.0599 0.00037274 3.4536 0.0012145 351.6643779821076 78.319 0.82598 78.572 78.055 78.881 0.25334 60 44 2 0 0 0 0.7471 4 35995 35995;36014;36099;36108 0 0 1 357090 30113 6469 19269 19330 33981;33982;33983;33984 33981 -0.04931546467787484 SAAPWGGG 8 Unmodified _SAAPWGGG_ 0 0 0 ENST00000242719.3_1_1:51702154-51702313:+|nuORF ENST00000242719.3_1_1:51702154-51702313:+|nuORF ENST00000242719.3_1_1:51702154-51702313:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.66534423828125 2 351.663921 701.313289 2.3673 0.00083251 0.82951 0.00029171 3.1969 0.0011242 351.66426369986146 78.26 0.69508 78.922 78.48 79.175 0.66198 54 42 2 0 0 0 0.7471 2 36019 36019;36074 0 0 1 342410 30114 6469 19269 19330 33985;33986 33985 -0.04931546467787484 SAATIRTHL 9 Unmodified _SAATIRTHL_ 0 0 0 REV__nc|ENSG00000164638|Q7RTT9-2|SLC29A4 REV__nc|ENSG00000164638|Q7RTT9-2|SLC29A4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.27764892578125 2 485.277441 968.540328 NaN NaN NaN NaN NaN NaN NaN 47.045 1 47.697 47.197 48.197 0.65219 0 0 0 0.82031 1 21548 21548 8.5933 0 1 + 30115 18018 19270 19331 33987 33987 0.054799920203208785 SACEFCMCDH 10 Unmodified _SACEFCMCDH_ 0 0 0 nc|ENSG00000138759|Q86XX4|FRAS1;ENSG00000138759|ENST00000512123|FRAS1;nc|ENSG00000138759|Q86XX4-4|FRAS1;nc|ENSG00000138759|Q86XX4-6|FRAS1;nc|ENSG00000138759|Q86XX4-5|FRAS1 nc|ENSG00000138759|Q86XX4|FRAS1 nc|ENSG00000138759|Q86XX4|FRAS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 382.45654296875 3 382.455479 1144.34461 NaN NaN NaN NaN NaN NaN NaN 19.354 1 19.651 19.151 20.151 0.29753 0 0 0 1.0012 1 8801 8801 0.69767 0 1 30116 3115 19271 19332 33988 33988 -0.221791688742087 SADILMLVL 9 Unmodified _SADILMLVL_ 0 0 0 REV__BMS1|p.K484Ifs*79|1|0.03|ENSG00000165733|chr10:42796694-42796695|-/TT|frameshift_variant REV__BMS1|p.K484Ifs*79|1|0.03|ENSG00000165733|chr10:42796694-42796695|-/TT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 974.5634765625 1 974.559081 973.551804 4.3556 0.0042448 -0.54972 -0.00053574 3.8059 0.003709 974.5584390140111 95.501 0.23253 95.768 95.668 95.901 0.2675 21 13 2 0 0 0 0.12301 1 43929 43929 28.487 5.3384 1 577600 + 30117 9980 19272 19333 33989 33989 0.06397052999443531 SADKPDSVL 9 Unmodified _SADKPDSVL_ 0 0 0 nc|ENSG00000111877|Q9NXL9-4|MCM9;ENSG00000111877|ENST00000619706|MCM9 nc|ENSG00000111877|Q9NXL9-4|MCM9 nc|ENSG00000111877|Q9NXL9-4|MCM9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.24188232421875 2 466.24019 930.465826 NaN NaN NaN NaN NaN NaN NaN 26.838 1 26.838 26.338 27.338 0 0 0 0 0.52632 1 12086 12086 18.146 3.3081 1 30118 1783 19273 19334 33990 33990 -0.0021881558170662174 SADLRADAM 9 Unmodified _SADLRADAM_ 0 0 0 ENSG00000147065|ENST00000360270|MSN;ENST00000511640.1_1_5:25910858-25911257:+|nuORF ENSG00000147065|ENST00000360270|MSN ENSG00000147065|ENST00000360270|MSN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 475.2261047363281 2 475.224017 948.43348 3.0959 0.0014712 0.41936 0.00019929 3.5152 0.0016705 475.2244453552633 27.074 0.25692 27.074 26.953 27.21 0 24 14 2 0 0 0 0.11155 1 12203 12203 29.841 8.3036 1 160070 30119 3543 19274 19335 33991 33991 -0.042799262563676166 SADLRADAM 9 Unmodified _SADLRADAM_ 0 0 0 ENSG00000147065|ENST00000360270|MSN;ENST00000511640.1_1_5:25910858-25911257:+|nuORF ENSG00000147065|ENST00000360270|MSN ENSG00000147065|ENST00000360270|MSN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 475.2257385253906 2 475.224017 948.43348 NaN NaN NaN NaN NaN NaN NaN 26.191 1 26.969 26.469 27.469 0.7787 0 0 0 0.34849 1 11760 11760 24.991 6.8446 1 30120 3543 19274 19335 33992 33992 -0.042799262563676166 SADLRADAM 9 Unmodified _SADLRADAM_ 0 0 0 ENSG00000147065|ENST00000360270|MSN;ENST00000511640.1_1_5:25910858-25911257:+|nuORF ENSG00000147065|ENST00000360270|MSN ENSG00000147065|ENST00000360270|MSN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.2251892089844 2 475.224017 948.43348 2.9926 0.0014222 -0.0059202 -2.8134E-06 2.9867 0.0014194 475.22421808082606 26.909 0.25017 27.173 27.008 27.258 0.26489 26 15 2 0 0 0 0.069974 1 12199 12199 40.239 12.61 1 238870 30121 3543 19274 19335 33993 33993 -0.042799262563676166 SADLRADAM 9 Unmodified _SADLRADAM_ 0 0 0 ENSG00000147065|ENST00000360270|MSN;ENST00000511640.1_1_5:25910858-25911257:+|nuORF ENSG00000147065|ENST00000360270|MSN ENSG00000147065|ENST00000360270|MSN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.2252502441406 2 475.224017 948.43348 2.9546 0.0014041 0.54508 0.00025904 3.4997 0.0016631 475.2242398267378 26.533 0.22646 27.158 27.003 27.23 0.62505 17 11 2 0 0 0 0.11155 1 12170 12170 29.841 5.1667 1 247780 30122 3543 19274 19335 33994 33994 -0.042799262563676166 SADMSHVAL 9 Unmodified _SADMSHVAL_ 0 0 0 COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant;ENSG00000122218|ENST00000241704|COPA;nc|ENSG00000122218|P53621-2|COPA;ENST00000481522.1_1_1:160275221-160275586:-|nuORF COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.72216796875 2 465.72111 929.427666 2.8097 0.0013085 0.27467 0.00012792 3.0843 0.0014364 465.72126632111383 38.472 0.224 38.472 38.356 38.58 0 20 10 3 0 0 0 0.025323 1 17449 17449 61.357 31.133 1 588100 30123 242 19275 19336 33995 33995 -0.039870247680369175 SADMSHVAL 9 Unmodified _SADMSHVAL_ 0 0 0 COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant;ENSG00000122218|ENST00000241704|COPA;nc|ENSG00000122218|P53621-2|COPA;ENST00000481522.1_1_1:160275221-160275586:-|nuORF COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.7221984863281 2 465.72111 929.427666 2.7597 0.0012853 0.45453 0.00021168 3.2143 0.0014969 465.7212017051603 37.485 0.24323 38.281 38.162 38.406 0.79552 17 10 2 0 0 0 0.052704 1 16971 16971 46.021 17.534 1 556760 30124 242 19275 19336 33996 33996 -0.039870247680369175 SADMSHVAL 9 Unmodified _SADMSHVAL_ 0 0 0 COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant;ENSG00000122218|ENST00000241704|COPA;nc|ENSG00000122218|P53621-2|COPA;ENST00000481522.1_1_1:160275221-160275586:-|nuORF COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.7220764160156 2 465.72111 929.427666 2.5836 0.0012032 0.78797 0.00036698 3.3715 0.0015702 465.72152277661314 38.279 0.28679 38.543 38.403 38.69 0.26408 12 8 2 0 0 0 0.0063783 1 17425 17425 88.904 50.752 1 1170400 30125 242 19275 19336 33997 33997 -0.039870247680369175 SADMSHVAL 9 Unmodified _SADMSHVAL_ 0 0 0 COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant;ENSG00000122218|ENST00000241704|COPA;nc|ENSG00000122218|P53621-2|COPA;ENST00000481522.1_1_1:160275221-160275586:-|nuORF COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.72308349609375 2 465.72111 929.427666 2.7135 0.0012637 0.51715 0.00024085 3.2306 0.0015046 465.7214027458005 37.69 0.31532 38.324 38.151 38.466 0.63388 24 10 3 0 0 0 0.025323 2 17234 17234;17294 68.081 44.932 1 885820 30126 242 19275 19336 33998;33999 33998 -0.039870247680369175 SADPHFYIWDS 11 Unmodified _SADPHFYIWDS_ 0 0 0 REV__ENST00000493106.1_1_2:172325537-172330486:+|nuORF REV__ENST00000493106.1_1_2:172325537-172330486:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 669.2955932617188 2 669.293485 1336.57242 NaN NaN NaN NaN NaN NaN NaN 17.191 1 17.191 16.691 17.691 0 0 0 0 0.97845 1 7633 7633 8.7454 4.2165 1 + 30127 11384 19276 19337 34000 34000 -0.08240685087184829 SADPNVVDL 9 Unmodified _SADPNVVDL_ 0 0 0 ENST00000567143.1_1_16:58436992-58437325:+|nuORF;ENSG00000181938|ENST00000318129|GINS3;nc|ENSG00000181938|Q9BRX5-3|GINS3 ENST00000567143.1_1_16:58436992-58437325:+|nuORF ENST00000567143.1_1_16:58436992-58437325:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.2340393066406 2 465.232364 928.450176 2.8179 0.001311 -0.086584 -4.0282E-05 2.7314 0.0012707 465.23225689053885 53.294 0.19331 53.558 53.481 53.674 0.26345 19 12 2 0 0 0 0.21008 1 24383 24383 22.736 6.8891 1 577380 30128 5305 19277 19338 34001 34001 -0.016911020987663505 SADPNVVDL 9 Unmodified _SADPNVVDL_ 0 0 0 ENST00000567143.1_1_16:58436992-58437325:+|nuORF;ENSG00000181938|ENST00000318129|GINS3;nc|ENSG00000181938|Q9BRX5-3|GINS3 ENST00000567143.1_1_16:58436992-58437325:+|nuORF ENST00000567143.1_1_16:58436992-58437325:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.2340393066406 2 465.232364 928.450176 NaN NaN NaN NaN NaN NaN NaN 52.874 1 53.539 53.039 54.039 0.6644 0 0 0 0.52632 1 24180 24180 18.146 2.2992 1 30129 5305 19277 19338 34002 34002 -0.016911020987663505 SADSLEHVL 9 Unmodified _SADSLEHVL_ 0 0 0 ENSG00000110344|ENST00000252108|UBE4A;nc|ENSG00000110344|Q14139-2|UBE4A ENSG00000110344|ENST00000252108|UBE4A ENSG00000110344|ENST00000252108|UBE4A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.7306213378906 2 485.745639 969.476725 NaN NaN NaN NaN NaN NaN NaN 46.58 1 47.409 46.909 47.909 0.82915 0 0 0 0.021399 1 21219 21219 71.134 22.788 1 30130 1710 19278 19339 34003 34003 -0.00923413207442536 SADSLEHVL 9 Unmodified _SADSLEHVL_ 0 0 0 ENSG00000110344|ENST00000252108|UBE4A;nc|ENSG00000110344|Q14139-2|UBE4A ENSG00000110344|ENST00000252108|UBE4A ENSG00000110344|ENST00000252108|UBE4A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.74688720703125 2 485.745639 969.476725 NaN NaN NaN NaN NaN NaN NaN 46.586 1 47.415 46.915 47.915 0.82915 0 0 0 0.023099 1 21222 21222 68.081 13.307 1 30131 1710 19278 19339 34004 34004 -0.00923413207442536 SADSLEHVL 9 Unmodified _SADSLEHVL_ 0 0 0 ENSG00000110344|ENST00000252108|UBE4A;nc|ENSG00000110344|Q14139-2|UBE4A ENSG00000110344|ENST00000252108|UBE4A ENSG00000110344|ENST00000252108|UBE4A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.731689453125 2 485.745639 969.476725 NaN NaN NaN NaN NaN NaN NaN 47.581 1 47.845 47.345 48.345 0.26363 0 0 0 0.026844 1 21744 21744 61.357 13.012 1 30132 1710 19278 19339 34005 34005 -0.00923413207442536 SADVAAVVM 9 Unmodified _SADVAAVVM_ 0 0 0 ENSG00000152684|ENST00000274311|PELO ENSG00000152684|ENST00000274311|PELO ENSG00000152684|ENST00000274311|PELO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 862.4344482421875 1 862.43388 861.426604 3.9076 0.0033701 0.16971 0.00014637 4.0773 0.0035164 862.4340458583569 54.993 0.31927 55.661 55.461 55.78 0.66798 22 13 2 0 0 0 0.028312 2 25132 25132;25201 57.471 13.064 1 759990 30133 3759 19279 19340 34006;34007 34006 -0.009652391369286306 SAEAGSPAM 9 Unmodified _SAEAGSPAM_ 0 0 0 ENSG00000120129|ENST00000239223|DUSP1 ENSG00000120129|ENST00000239223|DUSP1 ENSG00000120129|ENST00000239223|DUSP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 820.3568725585938 1 820.350545 819.343268 3.8458 0.0031549 1.2053 0.00098876 5.0511 0.0041437 820.3517375136884 21.112 0.23054 21.112 20.965 21.196 0 24 16 2 0 0 0 0.29781 1 9420 9420 16.942 4.4107 1 266260 30134 2181 19280 19341 34008 34008 -0.0736297558479464 SAEAGSPAM 9 Unmodified _SAEAGSPAM_ 0 0 0 ENSG00000120129|ENST00000239223|DUSP1 ENSG00000120129|ENST00000239223|DUSP1 ENSG00000120129|ENST00000239223|DUSP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 410.6802978515625 2 410.678911 819.343268 2.8189 0.0011576 0.30785 0.00012643 3.1267 0.0012841 410.679083595377 21.104 0.24477 21.104 20.965 21.21 0 31 17 2 0 0 0 0.062556 2 9423 9423;9467 42.095 21.641 1 318210 30135 2181 19280 19341 34009;34010 34009 -0.0736297558479464 SAEAGSPAM 9 Unmodified _SAEAGSPAM_ 0 0 0 ENSG00000120129|ENST00000239223|DUSP1 ENSG00000120129|ENST00000239223|DUSP1 ENSG00000120129|ENST00000239223|DUSP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 410.6800537109375 2 410.678911 819.343268 3.1204 0.0012815 0.082622 3.3931E-05 3.203 0.0013154 410.6789732094518 20.265 0.29784 20.919 20.775 21.073 0.65346 51 22 3 0 0 0 0.026068 2 9206 9162;9206 60.39 18.295 1 369030 30136 2181 19280 19341 34011;34012 34012 -0.0736297558479464 SAEAGSPAM 9 Unmodified _SAEAGSPAM_ 0 0 0 ENSG00000120129|ENST00000239223|DUSP1 ENSG00000120129|ENST00000239223|DUSP1 ENSG00000120129|ENST00000239223|DUSP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 820.3533935546875 1 820.350545 819.343268 4.1004 0.0033638 -0.14865 -0.00012194 3.9518 0.0032418 820.3506079910537 20.295 0.29784 20.948 20.775 21.073 0.65346 41 22 3 0 0 0 0.012869 2 9210 9168;9210 77.984 10.64 1 391060 30137 2181 19280 19341 34013;34014 34014 -0.0736297558479464 SAEEKAAVTSL 11 Unmodified _SAEEKAAVTSL_ 0 0 0 CON__Q3SX09 CON__Q3SX09 CON__Q3SX09 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.2933349609375 2 553.290411 1104.56627 3.3679 0.0018634 1.67 0.00092402 5.0379 0.0027874 553.2915715632726 28.955 0.13889 29.744 29.725 29.864 0.78921 14 8 2 0 0 0 0.37662 1 13062 13062 22.658 3.2961 1 141390 + 30138 235 19281 19342 34015 34015 0.018167966812825398 SAEEKAAVTSL 11 Unmodified _SAEEKAAVTSL_ 0 0 0 CON__Q3SX09 CON__Q3SX09 CON__Q3SX09 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.293701171875 2 553.290411 1104.56627 3.723 0.0020599 0.65613 0.00036303 4.3791 0.0024229 553.2908167642343 29.633 0.36441 29.892 29.672 30.036 0.25804 31 27 2 0 0 0 0.61022 2 13510 13448;13510 15.248 4.4246 1 240620 + 30139 235 19281 19342 34016;34017 34017 0.018167966812825398 SAEEKAAVTSL 11 Unmodified _SAEEKAAVTSL_ 0 0 0 CON__Q3SX09 CON__Q3SX09 CON__Q3SX09 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.29345703125 2 553.290411 1104.56627 NaN NaN NaN NaN NaN NaN NaN 29.257 1 29.875 29.375 30.375 0.61789 0 0 0 0.57047 1 13417 13417 26.021 5.5671 1 + 30140 235 19281 19342 34018 34018 0.018167966812825398 SAEPSPTVM 9 Unmodified _SAEPSPTVM_ 0 0 0 nc|ENSG00000089159|P49023-2|PXN;nc|ENSG00000089159|P49023|PXN;nc|ENSG00000089159|P49023-3|PXN;ENSG00000089159|ENST00000637617|PXN nc|ENSG00000089159|P49023-2|PXN nc|ENSG00000089159|P49023-2|PXN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 918.4274291992188 1 918.42371 917.416433 3.7907 0.0034815 0.36495 0.00033518 4.1557 0.0038167 918.4238761501575 36.942 0.38277 36.942 36.785 37.168 0 25 15 2 0 0 0 0.0023685 3 16783 16737;16783;16832 100.37 42.647 1 718220 30141 1036 19282 19343 34019;34020;34021 34020 -0.04557846862155657 SAEPSPTVM 9 Unmodified _SAEPSPTVM_ 0 0 0 nc|ENSG00000089159|P49023-2|PXN;nc|ENSG00000089159|P49023|PXN;nc|ENSG00000089159|P49023-3|PXN;ENSG00000089159|ENST00000637617|PXN nc|ENSG00000089159|P49023-2|PXN nc|ENSG00000089159|P49023-2|PXN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 459.7172546386719 2 459.715493 917.416433 2.7946 0.0012847 0.060394 2.7764E-05 2.855 0.0013125 459.7156453872455 37.019 0.42908 37.019 36.767 37.196 0 38 17 3 0 0 0 0.047285 2 16811 16762;16811 48.346 21.347 1 855680 30142 1036 19282 19343 34022;34023 34023 -0.04557846862155657 SAEPSPTVM 9 Unmodified _SAEPSPTVM_ 0 0 0 nc|ENSG00000089159|P49023-2|PXN;nc|ENSG00000089159|P49023|PXN;nc|ENSG00000089159|P49023-3|PXN;ENSG00000089159|ENST00000637617|PXN nc|ENSG00000089159|P49023-2|PXN nc|ENSG00000089159|P49023-2|PXN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 918.42724609375 1 918.42371 917.416433 3.6707 0.0033713 -0.28382 -0.00026067 3.3869 0.0031106 918.4238189204768 36.093 0.37886 36.884 36.699 37.078 0.79132 30 14 3 0 0 0 0.0016284 2 16333 16333;16384 108 47.607 1 995040 30143 1036 19282 19343 34024;34025 34024 -0.04557846862155657 SAEPSPTVM 9 Unmodified _SAEPSPTVM_ 0 0 0 nc|ENSG00000089159|P49023-2|PXN;nc|ENSG00000089159|P49023|PXN;nc|ENSG00000089159|P49023-3|PXN;ENSG00000089159|ENST00000637617|PXN nc|ENSG00000089159|P49023-2|PXN nc|ENSG00000089159|P49023-2|PXN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 459.71722412109375 2 459.715493 917.416433 2.8374 0.0013044 0.55368 0.00025454 3.3911 0.0015589 459.7158219478361 36.089 0.47324 36.88 36.699 37.172 0.79131 40 18 3 0 0 0 0.071101 1 16364 16364 39.957 21.822 1 855580 30144 1036 19282 19343 34026 34026 -0.04557846862155657 SAEPSPTVM 9 Unmodified _SAEPSPTVM_ 0 0 0 nc|ENSG00000089159|P49023-2|PXN;nc|ENSG00000089159|P49023|PXN;nc|ENSG00000089159|P49023-3|PXN;ENSG00000089159|ENST00000637617|PXN nc|ENSG00000089159|P49023-2|PXN nc|ENSG00000089159|P49023-2|PXN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 918.42724609375 1 918.42371 917.416433 3.9065 0.0035878 -0.39989 -0.00036727 3.5066 0.0032205 918.423405699082 36.768 0.42345 37.026 36.826 37.249 0.25768 35 14 3 0 0 0 0.0016284 3 16752 16698;16752;16812 108 47.607 1 1245700 30145 1036 19282 19343 34027;34028;34029 34028 -0.04557846862155657 SAEPSPTVM 9 Unmodified _SAEPSPTVM_ 0 0 0 nc|ENSG00000089159|P49023-2|PXN;nc|ENSG00000089159|P49023|PXN;nc|ENSG00000089159|P49023-3|PXN;ENSG00000089159|ENST00000637617|PXN nc|ENSG00000089159|P49023-2|PXN nc|ENSG00000089159|P49023-2|PXN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 459.7168273925781 2 459.715493 917.416433 2.8105 0.001292 -0.024015 -1.104E-05 2.7864 0.001281 459.71568122620835 36.776 0.60783 37.033 36.673 37.281 0.25768 50 21 4 0 0 0 0.0063783 2 16769 16716;16769 88.904 48.946 1 1768700 30146 1036 19282 19343 34030;34031 34031 -0.04557846862155657 SAEPSPTVM 9 Unmodified _SAEPSPTVM_ 0 0 0 nc|ENSG00000089159|P49023-2|PXN;nc|ENSG00000089159|P49023|PXN;nc|ENSG00000089159|P49023-3|PXN;ENSG00000089159|ENST00000637617|PXN nc|ENSG00000089159|P49023-2|PXN nc|ENSG00000089159|P49023-2|PXN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 918.427978515625 1 918.42371 917.416433 4.0004 0.003674 -0.93576 -0.00085942 3.0646 0.0028146 918.423220007299 36.22 0.4725 36.846 36.601 37.073 0.62631 34 14 3 0 0 0 0.00081333 2 16544 16544;16609 128.37 64.129 1 1449900 30147 1036 19282 19343 34032;34033 34032 -0.04557846862155657 SAEPSPTVM 9 Unmodified _SAEPSPTVM_ 0 0 0 nc|ENSG00000089159|P49023-2|PXN;nc|ENSG00000089159|P49023|PXN;nc|ENSG00000089159|P49023-3|PXN;ENSG00000089159|ENST00000637617|PXN nc|ENSG00000089159|P49023-2|PXN nc|ENSG00000089159|P49023-2|PXN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 459.71722412109375 2 459.715493 917.416433 3.0168 0.0013869 -0.49273 -0.00022651 2.5241 0.0011604 459.7155430023633 36.219 0.47007 36.845 36.635 37.105 0.62631 38 14 4 0 0 0 0.017868 2 16558 16558;16615 71.134 31.176 1 1221900 30148 1036 19282 19343 34034;34035 34034 -0.04557846862155657 SAESLETLY 9 Unmodified _SAESLETLY_ 0 0 0 PSD3|p.Q887Yfs*33|1|0.05|ENSG00000156011|chr8:18572656-18572657|-/GGAAAAAGTA|frameshift_variant;ENSG00000156011|ENST00000327040|PSD3;nc|ENSG00000156011|Q9NYI0|PSD3 PSD3|p.Q887Yfs*33|1|0.05|ENSG00000156011|chr8:18572656-18572657|-/GGAAAAAGTA|frameshift_variant PSD3|p.Q887Yfs*33|1|0.05|ENSG00000156011|chr8:18572656-18572657|-/GGAAAAAGTA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1012.4869384765625 1 1012.48333 1011.47606 3.6279 0.0036732 0.50953 0.00051589 4.1375 0.0041891 1012.4841475646649 51.371 0.31002 51.371 51.247 51.557 0 32 15 3 0 0 0 0.086747 1 23545 23545 36.044 1.9418 1 1145700 30149 3891 19283 19344 34036 34036 -0.029222526471357924 SAESLETLY 9 Unmodified _SAESLETLY_ 0 0 0 PSD3|p.Q887Yfs*33|1|0.05|ENSG00000156011|chr8:18572656-18572657|-/GGAAAAAGTA|frameshift_variant;ENSG00000156011|ENST00000327040|PSD3;nc|ENSG00000156011|Q9NYI0|PSD3 PSD3|p.Q887Yfs*33|1|0.05|ENSG00000156011|chr8:18572656-18572657|-/GGAAAAAGTA|frameshift_variant PSD3|p.Q887Yfs*33|1|0.05|ENSG00000156011|chr8:18572656-18572657|-/GGAAAAAGTA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1012.489013671875 1 1012.48333 1011.47606 3.4304 0.0034732 -0.11251 -0.00011391 3.3179 0.0033593 1012.4827006431262 50.564 0.23145 51.381 51.268 51.499 0.81738 16 11 2 0 0 0 0.12301 1 23016 23016 28.487 1.6032 1 2013600 30150 3891 19283 19344 34037 34037 -0.029222526471357924 SAFESRPRFRR 11 Unmodified _SAFESRPRFRR_ 0 0 0 REV__ENSG00000044090|ENST00000265348|CUL7 REV__ENSG00000044090|ENST00000265348|CUL7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.25787353515625 3 470.256731 1407.74836 2.6759 0.0012584 -0.43136 -0.00020285 2.2445 0.0010555 470.25662545737896 25.52 0.26157 26.284 26.138 26.399 0.76356 63 22 4 0 0 0 0.86798 1 11425 11425 3.8459 1.4111 1 1142000 + 30151 10330 19284 19345 34038 34038 0.06079993937396466 SAFLKTIAL 9 Unmodified _SAFLKTIAL_ 0 0 0 nc|ENSG00000105197|Q3ZCQ8-3|TIMM50;ENSG00000105197|ENST00000607714|TIMM50;nc|ENSG00000105197|Q3ZCQ8-2|TIMM50 nc|ENSG00000105197|Q3ZCQ8-3|TIMM50 nc|ENSG00000105197|Q3ZCQ8-3|TIMM50 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.2979736328125 2 482.29731 962.580068 NaN NaN NaN NaN NaN NaN NaN 66.679 1 66.929 66.429 67.429 0.2501 0 0 0 0.1585 1 30546 30546 32.786 3.7041 1 30152 1477 19285 19346 34039 34039 0.09728118971031563 SAFLKTIAL 9 Unmodified _SAFLKTIAL_ 0 0 0 nc|ENSG00000105197|Q3ZCQ8-3|TIMM50;ENSG00000105197|ENST00000607714|TIMM50;nc|ENSG00000105197|Q3ZCQ8-2|TIMM50 nc|ENSG00000105197|Q3ZCQ8-3|TIMM50 nc|ENSG00000105197|Q3ZCQ8-3|TIMM50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.2992248535156 2 482.29731 962.580068 3.2428 0.001564 0.8784 0.00042365 4.1212 0.0019876 482.2977100755057 66.003 0.20217 66.66 66.55 66.753 0.65672 14 11 2 0 0 0 0.084899 1 30252 30252 36.506 10.238 1 349380 30153 1477 19285 19346 34040 34040 0.09728118971031563 SAGEDLPVM 9 Unmodified _SAGEDLPVM_ 0 0 0 REV__nc|ENSG00000122126|Q01968-2|OCRL REV__nc|ENSG00000122126|Q01968-2|OCRL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 459.7166748046875 2 459.715493 917.416433 2.8105 0.001292 -0.024015 -1.104E-05 2.7864 0.001281 459.71568122620835 36.776 0.60783 37.033 36.673 37.281 0.25768 50 21 4 0 0 0 0.20384 1 16834 16834 23.148 10.617 1 1768700 + 30154 11573 19286 19347 34041 34041 -0.04557846862155657 SAGEDLPVM 9 Unmodified _SAGEDLPVM_ 0 0 0 REV__nc|ENSG00000122126|Q01968-2|OCRL REV__nc|ENSG00000122126|Q01968-2|OCRL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 459.71697998046875 2 459.715493 917.416433 3.0168 0.0013869 -0.49273 -0.00022651 2.5241 0.0011604 459.7155430023633 36.219 0.47007 36.845 36.635 37.105 0.62631 38 14 4 0 0 0 0.98132 1 16688 16688 4.3292 1.44 1 1221900 + 30155 11573 19286 19347 34042 34042 -0.04557846862155657 SAHDQSLVL 9 Unmodified _SAHDQSLVL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;nc|ENSG00000163359|P12111-4|COL6A3;ENST00000491769.1_1_2:238233419-238250825:-|nuORF nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.255859375 2 485.253631 968.49271 NaN NaN NaN NaN NaN NaN NaN 38.428 1 39.226 38.726 39.726 0.79762 0 0 0 0.13912 1 17406 17406 34.402 8.0604 1 30156 4204 19287 19348 34043 34043 0.007202930294738508 SAHNKDIAL 9 Unmodified _SAHNKDIAL_ 0 0 0 ENST00000411772.5_2_15:43699583-43738985:-|nuORF;nc|ENSG00000067369|Q12888|TP53BP1;nc|ENSG00000067369|Q12888-3|TP53BP1;ENSG00000067369|ENST00000382044|TP53BP1 ENST00000411772.5_2_15:43699583-43738985:-|nuORF ENST00000411772.5_2_15:43699583-43738985:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.51104736328125 3 323.510174 967.508694 2.1461 0.0006943 0.45205 0.00014624 2.5982 0.00084054 323.5103142155434 17.473 0.35028 17.774 17.588 17.938 0.30158 35 24 2 0 0 0 0.11458 2 7934 7885;7934 27.223 16.424 1 258300 30157 723 19288 19349 34044;34045 34045 0.023639992663675002 SAHNKDIAL 9 Unmodified _SAHNKDIAL_ 0 0 0 ENST00000411772.5_2_15:43699583-43738985:-|nuORF;nc|ENSG00000067369|Q12888|TP53BP1;nc|ENSG00000067369|Q12888-3|TP53BP1;ENSG00000067369|ENST00000382044|TP53BP1 ENST00000411772.5_2_15:43699583-43738985:-|nuORF ENST00000411772.5_2_15:43699583-43738985:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.7633056640625 2 484.761623 967.508694 2.8961 0.0014039 1.0888 0.00052782 3.9849 0.0019317 484.7617944056582 17.486 0.24501 17.787 17.676 17.921 0.30158 24 15 2 0 0 0 0.46674 1 7935 7935 13.042 4.2971 1 126050 30158 723 19288 19349 34046 34046 0.023639992663675002 SAHNKDIAL 9 Unmodified _SAHNKDIAL_ 0 0 0 ENST00000411772.5_2_15:43699583-43738985:-|nuORF;nc|ENSG00000067369|Q12888|TP53BP1;nc|ENSG00000067369|Q12888-3|TP53BP1;ENSG00000067369|ENST00000382044|TP53BP1 ENST00000411772.5_2_15:43699583-43738985:-|nuORF ENST00000411772.5_2_15:43699583-43738985:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.8450012207031 3 323.510174 967.508694 2.1983 0.00071116 0.43192 0.00013973 2.6302 0.00085089 323.51033762031955 17.222 0.21453 17.883 17.866 18.081 0.66072 26 15 2 0 0 0 0.086415 3 7784 7784;7789;7838 27.223 19.278 1 290360 30159 723 19288 19349 34047;34048;34049 34047 0.023639992663675002 SAHNKDIAL 9 Unmodified _SAHNKDIAL_ 0 0 0 ENST00000411772.5_2_15:43699583-43738985:-|nuORF;nc|ENSG00000067369|Q12888|TP53BP1;nc|ENSG00000067369|Q12888-3|TP53BP1;ENSG00000067369|ENST00000382044|TP53BP1 ENST00000411772.5_2_15:43699583-43738985:-|nuORF ENST00000411772.5_2_15:43699583-43738985:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.76275634765625 2 484.761623 967.508694 3.2024 0.0015524 0.20345 9.8625E-05 3.4059 0.001651 484.7616982214544 17.294 0.36003 17.955 17.708 18.068 0.66072 30 23 2 0 0 0 0.084899 1 7788 7788 36.506 13.77 1 294860 30160 723 19288 19349 34050 34050 0.023639992663675002 SAIALIYLFRI 11 Unmodified _SAIALIYLFRI_ 0 0 0 ENST00000378078.4_1_9:35752961-35753141:+|nuORF ENST00000378078.4_1_9:35752961-35753141:+|nuORF ENST00000378078.4_1_9:35752961-35753141:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 427.2652893066406 3 427.263941 1278.76999 2.5155 0.0010748 0.692 0.00029566 3.2075 0.0013704 427.2641305992262 52.707 0.70494 53.515 53.172 53.877 0.80791 172 45 4 0 0 0 0.88721 1 24092 24092 1.2148 0.10508 1 31818000 30161 7426 19289 19350 34051 34051 0.14175985913402656 SAIFPDVAL 9 Unmodified _SAIFPDVAL_ 0 0 0 nc|ENSG00000143499|Q9NRG4-2|SMYD2;ENST00000471645.5_1_1:214454597-214504559:+|nuORF;ENST00000491455.5_1_1:214454597-214505536:+|nuORF;ENSG00000143499|ENST00000366957|SMYD2 nc|ENSG00000143499|Q9NRG4-2|SMYD2 nc|ENSG00000143499|Q9NRG4-2|SMYD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 932.5137939453125 1 932.50876 931.501483 4.0051 0.0037348 -0.20154 -0.00018794 3.8036 0.0035469 932.5076922308991 86.119 0.20025 86.79 86.715 86.916 0.6706 16 11 2 0 0 0 0.09451 1 39664 39664 34.102 9.4286 1 432270 30162 3375 19290 19351 34052 34052 0.032992666659424685 SAIFPDVAL 9 Unmodified _SAIFPDVAL_ 0 0 0 nc|ENSG00000143499|Q9NRG4-2|SMYD2;ENST00000471645.5_1_1:214454597-214504559:+|nuORF;ENST00000491455.5_1_1:214454597-214505536:+|nuORF;ENSG00000143499|ENST00000366957|SMYD2 nc|ENSG00000143499|Q9NRG4-2|SMYD2 nc|ENSG00000143499|Q9NRG4-2|SMYD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.75836181640625 2 466.758018 931.501483 2.9925 0.0013968 -0.28895 -0.00013487 2.7036 0.0012619 466.75769117858255 86.111 0.27912 86.782 86.676 86.955 0.67061 25 16 2 0 0 0 0.14729 1 39678 39678 26.884 9.9414 1 500450 30163 3375 19290 19351 34053 34053 0.032992666659424685 SAIHILDVL 9 Unmodified _SAIHILDVL_ 0 0 0 ENSG00000137200|ENST00000373451|CMTR1 ENSG00000137200|ENST00000373451|CMTR1 ENSG00000137200|ENST00000373451|CMTR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 490.7923889160156 2 490.792392 979.570232 3.0259 0.0014851 -0.21843 -0.0001072 2.8075 0.0013779 490.7922252631817 78.014 0.25971 78.267 78.125 78.384 0.25335 38 14 3 0 0 0 0.10169 2 35903 35903;35953 32.305 5.4218 1 1025000 30164 3003 19291 19352 34054;34055 34054 0.07962930965663872 SAIHILDVL 9 Unmodified _SAIHILDVL_ 0 0 0 ENSG00000137200|ENST00000373451|CMTR1 ENSG00000137200|ENST00000373451|CMTR1 ENSG00000137200|ENST00000373451|CMTR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.79339599609375 2 490.792392 979.570232 3.0319 0.001488 0.65055 0.00031928 3.6824 0.0018073 490.79276021579375 77.547 0.28144 78.21 78.054 78.335 0.66303 41 16 4 0 0 0 0.047285 1 35738 35738 48.346 14.243 1 1022400 30165 3003 19291 19352 34056 34056 0.07962930965663872 SAIKDFVL 8 Unmodified _SAIKDFVL_ 0 0 0 ENSG00000155660|ENST00000652332|PDIA4 ENSG00000155660|ENST00000652332|PDIA4 ENSG00000155660|ENST00000652332|PDIA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 446.7621154785156 2 446.760561 891.506569 2.6406 0.0011797 0.71233 0.00031824 3.3529 0.001498 446.76074905065224 60.074 0.17908 60.074 60.01 60.189 0 33 22 2 0 0 0 0.03983 1 27845 27845 69.105 18.25 1 2798800 30166 3873 19292 19353 34057 34057 0.05647570528560664 SAIKDFVL 8 Unmodified _SAIKDFVL_ 0 0 0 ENSG00000155660|ENST00000652332|PDIA4 ENSG00000155660|ENST00000652332|PDIA4 ENSG00000155660|ENST00000652332|PDIA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 446.761962890625 2 446.760561 891.506569 2.4659 0.0011017 0.028652 1.28E-05 2.4946 0.0011145 446.76051367396286 58.935 0.27041 59.694 59.569 59.839 0.75894 52 27 2 0 0 0 0.029216 2 27104 27047;27104 78.728 17.458 1 4123800 30167 3873 19292 19353 34058;34059 34059 0.05647570528560664 SAIKDFVL 8 Unmodified _SAIKDFVL_ 0 0 0 ENSG00000155660|ENST00000652332|PDIA4 ENSG00000155660|ENST00000652332|PDIA4 ENSG00000155660|ENST00000652332|PDIA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 446.76214599609375 2 446.760561 891.506569 2.8917 0.0012919 0.22469 0.00010038 3.1164 0.0013923 446.76061174448415 59.853 0.29891 60.112 59.98 60.279 0.2593 36 15 3 0 0 0 0.03983 2 27385 27385;27446 69.105 14.331 1 2348700 30168 3873 19292 19353 34060;34061 34060 0.05647570528560664 SAIKDFVL 8 Unmodified _SAIKDFVL_ 0 0 0 ENSG00000155660|ENST00000652332|PDIA4 ENSG00000155660|ENST00000652332|PDIA4 ENSG00000155660|ENST00000652332|PDIA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 446.76202392578125 2 446.760561 891.506569 3.115 0.0013917 -0.2688 -0.00012009 2.8462 0.0012716 446.7604440257807 59.258 0.3524 59.925 59.732 60.085 0.66703 35 16 3 0 0 0 0.03983 2 27108 27108;27158 69.105 14.331 1 3361000 30169 3873 19292 19353 34062;34063 34062 0.05647570528560664 SAIKEEQEL 9 Unmodified _SAIKEEQEL_ 0 0 0 nc|ENSG00000113649|O14776-2|TCERG1;nc|ENSG00000113649|O14776|TCERG1;ENSG00000113649|ENST00000679501|TCERG1;ENST00000507175.5_1_5:145826912-145859658:+|nuORF nc|ENSG00000113649|O14776-2|TCERG1 nc|ENSG00000113649|O14776-2|TCERG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.7734375 2 523.771854 1045.52915 3.4745 0.0018199 0.33948 0.00017781 3.814 0.0019977 523.7719465953049 25.445 0.23855 25.713 25.549 25.788 0.26777 32 21 2 0 0 0 0.016529 2 11566 11517;11566 72.968 21.338 1 460830 30170 1868 19293 19354 34064;34065 34065 0.008211251355305649 SAKGAALG 8 Unmodified _SAKGAALG_ 0 0 0 REV__nc|ENSG00000171533|Q96JE9-2|MAP6 REV__nc|ENSG00000171533|Q96JE9-2|MAP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 337.69744873046875 2 337.695221 673.375889 NaN NaN NaN NaN NaN NaN NaN 44.325 1 45.146 44.646 45.646 0.82075 0 0 0 0.99035 1 20185 20185 0.6015 0 1 + 30171 13502 19294 19355 34066 34066 0.026135996003858963 SAKGAALG 8 Unmodified _SAKGAALG_ 0 0 0 REV__nc|ENSG00000171533|Q96JE9-2|MAP6 REV__nc|ENSG00000171533|Q96JE9-2|MAP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.6975402832031 2 337.695221 673.375889 NaN NaN NaN NaN NaN NaN NaN 44.861 1 45.128 44.628 45.628 0.26768 0 0 0 0.99035 1 20504 20504 0.6015 0 1 + 30172 13502 19294 19355 34067 34067 0.026135996003858963 SAKSVTSHDQ 10 Unmodified _SAKSVTSHDQ_ 0 0 0 ENSG00000183831|ENST00000333279|ANKRD45;nc|ENSG00000285777|Q5TZF3-1|ANKRD45 ENSG00000183831|ENST00000333279|ANKRD45 ENSG00000183831|ENST00000333279|ANKRD45 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.5408935546875 2 530.256902 1058.49925 3.4752 0.0018428 0.17742 9.4077E-05 3.6526 0.0019368 530.7584526291432 97.797 0.085442 98.395 98.36 98.445 0.59885 10 8 2 0 0 0 0.12676 1 44981 44981 2.7352 0 1 17209000 30173 5408 19295 19356 34068 34068 -0.027658138098104246 SAKSVTSHDQ 10 Unmodified _SAKSVTSHDQ_ 0 0 0 ENSG00000183831|ENST00000333279|ANKRD45;nc|ENSG00000285777|Q5TZF3-1|ANKRD45 ENSG00000183831|ENST00000333279|ANKRD45 ENSG00000183831|ENST00000333279|ANKRD45 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 530.256902 1058.49925 4.0113 0.002127 0.32254 0.00017103 4.3338 0.002298 530.7583240846129 97.945 0.060753 98.234 98.21 98.271 0.28924 -0.080454 8.6971E-05 NaN 2.7352 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 6062300 30174 5408 19295 19356 -0.027658138098104246 SAKWLSRYN 9 Unmodified _SAKWLSRYN_ 0 0 0 REV__ENST00000359523.6_1_1:167759109-167759259:+|nuORF REV__ENST00000359523.6_1_1:167759109-167759259:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 375.5343017578125 3 375.533091 1123.57744 2.6792 0.0010061 0.29173 0.00010955 2.9709 0.0011157 375.53316628085366 35.792 0.3407 35.792 35.626 35.967 0 31 18 2 0 0 0 0.83994 1 16266 16266 4.1895 0 1 784850 + 30175 15599 19296 19357 34069 34069 0.020596635660922402 SALEPLPLPFH 11 Unmodified _SALEPLPLPFH_ 0 0 0 nc|ENSG00000169247|Q8TF17-5|SH3TC2;ENSG00000169247|ENST00000515425|SH3TC2 nc|ENSG00000169247|Q8TF17-5|SH3TC2 nc|ENSG00000169247|Q8TF17-5|SH3TC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 610.8356323242188 2 610.837331 1219.66011 NaN NaN NaN NaN NaN NaN NaN 109.42 1 109.42 108.92 109.92 0 0 0 0 1.0071 1 59841 59841 1.4819 0.28856 1 30176 4679 19297 19358 34070 34070 0.05906560574226205 SALGRAPW 8 Unmodified _SALGRAPW_ 0 0 0 ENST00000373314.7_1_9:130268657-130269107:-|nuORF ENST00000373314.7_1_9:130268657-130269107:-|nuORF ENST00000373314.7_1_9:130268657-130269107:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 429.23651123046875 2 429.235045 856.455536 NaN NaN NaN NaN NaN NaN NaN 64.489 1 65.204 64.704 65.704 0.71521 0 0 0 0.95658 1 30386 30386 8.5933 0 1 30177 7355 19298 19359 34071 34071 0.021566662743680354 SALQSLQGLQQ 11 Unmodified _SALQSLQGLQQ_ 0 0 0 ENST00000358094.7_1_X:56295423-56310924:+|nuORF;ENST00000462627.5_1_X:56295800-56310924:+|nuORF;nc|ENSG00000102349|O95600-4|KLF8;nc|ENSG00000102349|O95600-3|KLF8;ENSG00000102349|ENST00000468660|KLF8 ENST00000358094.7_1_X:56295423-56310924:+|nuORF ENST00000358094.7_1_X:56295423-56310924:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 586.423828125 2 586.817127 1171.6197 NaN NaN NaN NaN NaN NaN NaN 28.156 1 28.943 28.443 29.443 0.78627 0 0 0 1.0061 1 12675 12675 2.7352 0.89096 1 30178 1342 19299 19360 34072 34072 0.04075594183814246 SAMVRVISV 9 Unmodified _SAMVRVISV_ 0 0 0 EDC4|p.M271Cfs*23|1|0.09|ENSG00000038358|chr16:67877762-67877762|A/-|frameshift_variant;ENST00000572221.5_1_16:67909733-67911757:+|nuORF;ENST00000536072.6_1_16:67909906-67914140:+|nuORF;ENSG00000038358|ENST00000358933|EDC4 EDC4|p.M271Cfs*23|1|0.09|ENSG00000038358|chr16:67877762-67877762|A/-|frameshift_variant EDC4|p.M271Cfs*23|1|0.09|ENSG00000038358|chr16:67877762-67877762|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.2796325683594 2 481.278595 960.542637 3.0273 0.001457 0.053589 2.5791E-05 3.0809 0.0014828 481.2783746311146 50.1 0.16085 50.361 50.277 50.438 0.26146 9 6 2 0 0 0 0.035698 1 22908 22908 53.317 27.049 1 431000 30179 285 19300 19361 34073 34073 0.06078704433787152 SAMVRVISV 9 Unmodified _SAMVRVISV_ 0 0 0 EDC4|p.M271Cfs*23|1|0.09|ENSG00000038358|chr16:67877762-67877762|A/-|frameshift_variant;ENST00000572221.5_1_16:67909733-67911757:+|nuORF;ENST00000536072.6_1_16:67909906-67914140:+|nuORF;ENSG00000038358|ENST00000358933|EDC4 EDC4|p.M271Cfs*23|1|0.09|ENSG00000038358|chr16:67877762-67877762|A/-|frameshift_variant EDC4|p.M271Cfs*23|1|0.09|ENSG00000038358|chr16:67877762-67877762|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.28045654296875 2 481.278595 960.542637 3.1935 0.001537 0.60859 0.0002929 3.8021 0.0018299 481.27888165871155 49.486 0.18394 50.141 50.01 50.194 0.65524 9 6 2 0 0 0 0.019184 1 22636 22636 69.338 36.553 1 314130 30180 285 19300 19361 34074 34074 0.06078704433787152 SANLEEVTM 9 Unmodified _SANLEEVTM_ 0 0 0 nc|ENSG00000124795|P35659-2|DEK;ENSG00000124795|ENST00000652689|DEK nc|ENSG00000124795|P35659-2|DEK nc|ENSG00000124795|P35659-2|DEK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 497.2330017089844 2 497.231507 992.448462 3.2305 0.0016063 0.48732 0.00024231 3.7178 0.0018486 497.23164695646733 50.845 0.21886 50.845 50.72 50.938 0 20 8 3 0 0 0 0.012326 1 23272 23272 78.728 38.279 1 1005900 30181 2382 19301 19362 34075 34075 -0.048064791790238814 SANLEEVTM 9 Unmodified _SANLEEVTM_ 0 0 0 nc|ENSG00000124795|P35659-2|DEK;ENSG00000124795|ENST00000652689|DEK nc|ENSG00000124795|P35659-2|DEK nc|ENSG00000124795|P35659-2|DEK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 497.23309326171875 2 497.231507 992.448462 3.1746 0.0015785 0.38046 0.00018918 3.5551 0.0017677 497.23165408650453 49.956 0.2935 50.779 50.636 50.929 0.82285 28 11 3 0 0 0 0.012326 1 22742 22742 78.728 34.321 1 1035800 30182 2382 19301 19362 34076 34076 -0.048064791790238814 SANLEEVTM 9 Unmodified _SANLEEVTM_ 0 0 0 nc|ENSG00000124795|P35659-2|DEK;ENSG00000124795|ENST00000652689|DEK nc|ENSG00000124795|P35659-2|DEK nc|ENSG00000124795|P35659-2|DEK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.2330627441406 2 497.231507 992.448462 3.1208 0.0015517 0.23911 0.00011889 3.3599 0.0016706 497.2316704058135 50.737 0.35925 50.998 50.835 51.195 0.26146 40 16 3 0 0 0 0.0063542 2 23214 23160;23214 88.954 54.851 1 1590900 30183 2382 19301 19362 34077;34078 34078 -0.048064791790238814 SANLEEVTM 9 Unmodified _SANLEEVTM_ 0 0 0 nc|ENSG00000124795|P35659-2|DEK;ENSG00000124795|ENST00000652689|DEK nc|ENSG00000124795|P35659-2|DEK nc|ENSG00000124795|P35659-2|DEK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 993.4616088867188 1 993.455738 992.448462 3.4455 0.003423 -0.4801 -0.00047696 2.9654 0.002946 993.4558633615667 50.75 0.28387 51.012 50.852 51.136 0.26146 21 12 2 0 0 0 0.012326 1 23178 23178 78.728 40.754 1 735770 30184 2382 19301 19362 34079 34079 -0.048064791790238814 SANLEEVTM 9 Unmodified _SANLEEVTM_ 0 0 0 nc|ENSG00000124795|P35659-2|DEK;ENSG00000124795|ENST00000652689|DEK nc|ENSG00000124795|P35659-2|DEK nc|ENSG00000124795|P35659-2|DEK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 993.4602661132812 1 993.455738 992.448462 3.6462 0.0036223 0.26393 0.0002622 3.9101 0.0038845 993.4560157681072 50.106 0.27488 50.763 50.642 50.917 0.65735 19 10 2 0 0 0 0.029308 2 22949 22893;22949 56.177 26.23 1 593650 30185 2382 19301 19362 34080;34081 34081 -0.048064791790238814 SANLEEVTM 9 Unmodified _SANLEEVTM_ 0 0 0 nc|ENSG00000124795|P35659-2|DEK;ENSG00000124795|ENST00000652689|DEK nc|ENSG00000124795|P35659-2|DEK nc|ENSG00000124795|P35659-2|DEK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.2328186035156 2 497.231507 992.448462 3.1681 0.0015753 0.13384 6.6551E-05 3.302 0.0016418 497.2316203436223 50.149 0.37975 50.807 50.591 50.971 0.65735 36 14 3 0 0 0 0.004576 2 22931 22931;22984 92.653 48.795 1 1240800 30186 2382 19301 19362 34082;34083 34082 -0.048064791790238814 SANRSDPV 8 Unmodified _SANRSDPV_ 0 0 0 nc|ENSG00000079385|P13688-2|CEACAM1;ENSG00000079385|ENST00000161559|CEACAM1;ENST00000403136.1_1_19:43025413-43032607:-|nuORF;nc|ENSG00000079385|P13688-4|CEACAM1;ENST00000344391.9_1_19:43023158-43032553:-|nuORF;nc|ENSG00000079385|P13688-11|CEACAM1;nc|ENSG00000079385|P13688-9|CEACAM1;nc|ENSG00000079385|P13688-3|CEACAM1;nc|ENSG00000079385|P13688-6|CEACAM1;ENST00000377806.7_1_19:43023094-43032607:-|nuORF;nc|ENSG00000079385|P13688-5|CEACAM1;nc|ENSG00000079385|P13688-8|CEACAM1;nc|ENSG00000079385|P13688-10|CEACAM1;nc|ENSG00000105388|P06731-2|CEACAM5;ENSG00000086548|ENST00000199764|CEACAM6;ENSG00000105388|ENST00000221992|CEACAM5 nc|ENSG00000079385|P13688-2|CEACAM1 nc|ENSG00000079385|P13688-2|CEACAM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.21014404296875 2 423.209224 844.403895 NaN NaN NaN NaN NaN NaN NaN 12.491 1 12.798 12.298 13.298 0.30727 0 0 0 0.99035 1 5631 5631 5.7604 0 1 30187 894 19302 19363 34084 34084 -0.024531222101927597 SAQRQWRQYEA 11 Unmodified _SAQRQWRQYEA_ 0 0 0 REV__ENST00000538126.5_1_16:71712656-71757677:-|nuORF REV__ENST00000538126.5_1_16:71712656-71757677:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 711.8524780273438 2 711.847281 1421.68001 3.7665 0.0026812 1.9401 0.0013811 5.7066 0.0040622 711.84868384862 35.25 0.22458 35.505 35.426 35.651 0.25524 14 8 3 0 0 0 0.72546 1 16070 16070 10.151 4.8537 1 362060 + 30188 10314 19303 19364 34085 34085 -0.013962954330736466 SAQRWWWRWQ 10 Unmodified _SAQRWWWRWQ_ 0 0 0 ENST00000305123.5_1_2:227663257-227663680:-|nuORF ENST00000305123.5_1_2:227663257-227663680:-|nuORF ENST00000305123.5_1_2:227663257-227663680:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 745.2772216796875 2 745.365444 1488.71634 NaN NaN NaN NaN NaN NaN NaN 101.16 1 101.47 100.97 101.97 0.31412 0 0 0 1.0015 1 46813 46813 0.40072 0.050084 1 30189 6832 19304 19365 34086 34086 -0.00847373745727964 SARGIWGP 8 Unmodified _SARGIWGP_ 0 0 0 REV__ENST00000330688.8_1_3:25469886-25470027:+|nuORF REV__ENST00000330688.8_1_3:25469886-25470027:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.22857666015625 2 422.22722 842.439886 2.9697 0.0012539 1.1228 0.00047406 4.0925 0.0017279 422.2277528774178 65.169 0.56877 65.417 64.937 65.506 0.24803 50 30 2 0 0 0 0.71384 1 29808 29808 4.756 0 1 842430 + 30190 15373 19305 19366 34087 34087 0.012363797573243573 SARGIWGP 8 Unmodified _SARGIWGP_ 0 0 0 REV__ENST00000330688.8_1_3:25469886-25470027:+|nuORF REV__ENST00000330688.8_1_3:25469886-25470027:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 422.22722 842.439886 3.0955 0.001307 1.6665 0.00070366 4.762 0.0020107 422.2278484537839 64.361 0.42102 65.018 64.873 65.294 0.65672 -0.19992 0.00020316 NaN 4.756 38 21 2 NaN NaN NaN NaN 0 NaN NaN 0 879910 + 30191 15373 19305 19366 0.012363797573243573 SARIRPTAV 9 Unmodified _SARIRPTAV_ 0 0 0 nc|ENSG00000100242|Q9UH99-3|SUN2;ENSG00000100242|ENST00000689035|SUN2;nc|ENSG00000100242|Q9UH99-2|SUN2 nc|ENSG00000100242|Q9UH99-3|SUN2 nc|ENSG00000100242|Q9UH99-3|SUN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.1988220214844 3 324.197931 969.571963 2.2983 0.00074509 0.37613 0.00012194 2.6744 0.00086703 324.19804352646497 13.597 0.24698 14.245 14.099 14.346 0.64819 41 16 3 0 0 0 0.10837 2 6083 6083;6132 22.658 11.163 1 400210 30192 1194 19306 19367 34088;34089 34088 0.08595984774274257 SARIRPTAV 9 Unmodified _SARIRPTAV_ 0 0 0 nc|ENSG00000100242|Q9UH99-3|SUN2;ENSG00000100242|ENST00000689035|SUN2;nc|ENSG00000100242|Q9UH99-2|SUN2 nc|ENSG00000100242|Q9UH99-3|SUN2 nc|ENSG00000100242|Q9UH99-3|SUN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.7953796386719 2 485.793258 969.571963 3.3046 0.0016053 0.088195 4.2844E-05 3.3928 0.0016482 485.7932196034683 13.592 0.28868 14.24 14.058 14.346 0.64819 45 19 3 0 0 0 0.071132 1 6084 6084 39.95 10.868 1 474480 30193 1194 19306 19367 34090 34090 0.08595984774274257 SARIRPTAV 9 Unmodified _SARIRPTAV_ 0 0 0 nc|ENSG00000100242|Q9UH99-3|SUN2;ENSG00000100242|ENST00000689035|SUN2;nc|ENSG00000100242|Q9UH99-2|SUN2 nc|ENSG00000100242|Q9UH99-3|SUN2 nc|ENSG00000100242|Q9UH99-3|SUN2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 485.793258 969.571963 3.235 0.0015716 -0.099799 -4.8482E-05 3.1352 0.0015231 485.79325885268076 14.316 0.10389 14.316 14.25 14.354 0 0.037755 -0.00016816 NaN 39.95 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 213490 30194 1194 19306 19367 0.08595984774274257 SARIRPTAV 9 Unmodified _SARIRPTAV_ 0 0 0 nc|ENSG00000100242|Q9UH99-3|SUN2;ENSG00000100242|ENST00000689035|SUN2;nc|ENSG00000100242|Q9UH99-2|SUN2 nc|ENSG00000100242|Q9UH99-3|SUN2 nc|ENSG00000100242|Q9UH99-3|SUN2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 324.197931 969.571963 2.1664 0.00070234 0.90042 0.00029192 3.0668 0.00099426 324.1984106713555 14.308 0.12402 14.308 14.25 14.374 0 0.010124 0.00047677 NaN 22.658 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 245230 30195 1194 19306 19367 0.08595984774274257 SARIRPTAV 9 Unmodified _SARIRPTAV_ 0 0 0 nc|ENSG00000100242|Q9UH99-3|SUN2;ENSG00000100242|ENST00000689035|SUN2;nc|ENSG00000100242|Q9UH99-2|SUN2 nc|ENSG00000100242|Q9UH99-3|SUN2 nc|ENSG00000100242|Q9UH99-3|SUN2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 324.197931 969.571963 2.2307 0.00072319 0.18643 6.0439E-05 2.4171 0.00078363 324.19802851124723 14.115 0.14049 14.341 14.261 14.402 0.22622 0.043028 -0.00021766 NaN 22.658 18 13 2 NaN NaN NaN NaN 0 NaN NaN 0 183050 30196 1194 19306 19367 0.08595984774274257 SARLLPLLCLP 11 Unmodified _SARLLPLLCLP_ 0 0 0 ENST00000558512.5_2_15:60770923-60771109:-|nuORF ENST00000558512.5_2_15:60770923-60771109:-|nuORF ENST00000558512.5_2_15:60770923-60771109:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.5810546875 3 399.245893 1194.71585 3.0003 0.0011979 0.057206 2.2839E-05 3.0575 0.0012207 399.2462333737952 80.88 0.21611 81.54 81.421 81.637 0.65998 15 9 2 0 0 0 0.91104 1 37270 37270 1.2148 0.35046 1 416550 30197 8950 19307 19368 34091 34091 0.12628070490200116 SARQKLQL 8 Unmodified _SARQKLQL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.2890625 2 472.287808 942.561064 2.759 0.001303 -0.18161 -8.5771E-05 2.5774 0.0012173 472.2878938742418 19.456 0.18639 19.754 19.694 19.881 0.29753 30 18 2 0 0 0 0.23539 1 8859 8859 39.95 11.463 1 328660 30198 1207 19308 19369 34092 34092 0.08748582400005489 SARQKLQL 8 Unmodified _SARQKLQL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.28924560546875 2 472.287808 942.561064 3.1105 0.001469 -0.76701 -0.00036225 2.3435 0.0011068 472.28756585300397 19.085 0.24481 19.743 19.644 19.888 0.6583 31 20 2 0 0 0 0.51123 1 8705 8705 19.257 11.347 1 594480 30199 1207 19308 19369 34093 34093 0.08748582400005489 SARQKLQL 8 Unmodified _SARQKLQL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 472.287808 942.561064 2.9651 0.0014004 0.32746 0.00015466 3.2926 0.0015551 472.28785987907827 20.003 0.14187 20.003 19.909 20.051 0 0.17009 0.00062548 NaN 39.95 13 11 2 NaN NaN NaN NaN 0 NaN NaN 0 167530 30200 1207 19308 19369 0.08748582400005489 SARRLPATV 9 Unmodified _SARRLPATV_ 0 0 0 REV__ENST00000512880.5_1_5:68513742-68513844:+|nuORF REV__ENST00000512880.5_1_5:68513742-68513844:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.794677734375 2 485.793258 969.571963 3.3046 0.0016053 0.088195 4.2844E-05 3.3928 0.0016482 485.7932196034683 13.592 0.28868 14.24 14.058 14.346 0.64819 45 19 3 0 0 0 0.59776 1 6130 6130 10.824 0 1 474480 + 30201 16986 19309 19370 34094 34094 0.08595984774285625 SASPAQDKRL 10 Unmodified _SASPAQDKRL_ 0 0 0 nc|ENSG00000111859|Q14511-3|NEDD9;ENSG00000111859|ENST00000379446|NEDD9 nc|ENSG00000111859|Q14511-3|NEDD9 nc|ENSG00000111859|Q14511-3|NEDD9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 358.19781494140625 3 358.196367 1071.56727 2.527 0.00090516 0.6479 0.00023207 3.1749 0.0011372 358.1966102328451 17.373 0.25593 18.034 17.846 18.102 0.66072 30 18 2 0 0 0 0.84709 1 7853 7853 3.3196 0.88486 1 242230 30202 1780 19310 19371 34095 34095 0.034350558408505094 SASPGVSTSI 10 Unmodified _SASPGVSTSI_ 0 0 0 REV__nc|ENSG00000129472|Q8WUD1-2|RAB2B REV__nc|ENSG00000129472|Q8WUD1-2|RAB2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 453.234130859375 2 453.232364 904.450176 3.1386 0.0014225 0.17665 8.0062E-05 3.3152 0.0015026 453.2325000310143 46.601 0.2978 47.254 47.137 47.435 0.65219 21 9 3 0 0 0 0.58053 1 21396 21396 18.146 0 1 997830 + 30203 11787 19311 19372 34096 34096 -0.005871020987456177 SASQTRDVL 9 Unmodified _SASQTRDVL_ 0 0 0 nc|ENSG00000176390|Q8IUI8-2|CRLF3;ENSG00000176390|ENST00000324238|CRLF3 nc|ENSG00000176390|Q8IUI8-2|CRLF3 nc|ENSG00000176390|Q8IUI8-2|CRLF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 488.7582702636719 2 488.756538 975.498523 3.2772 0.0016017 0.78495 0.00038365 4.0621 0.0019854 488.75677175958117 21.723 0.16862 21.723 21.592 21.76 0 22 15 2 0 0 0 0.30982 1 9705 9705 16.149 0 1 158010 30204 5076 19312 19373 34097 34097 0.009793915411478338 SASQTRDVL 9 Unmodified _SASQTRDVL_ 0 0 0 nc|ENSG00000176390|Q8IUI8-2|CRLF3;ENSG00000176390|ENST00000324238|CRLF3 nc|ENSG00000176390|Q8IUI8-2|CRLF3 nc|ENSG00000176390|Q8IUI8-2|CRLF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.75872802734375 2 488.756538 975.498523 3.3154 0.0016204 0.049309 2.41E-05 3.3647 0.0016445 488.7565641669736 20.854 0.22124 21.508 21.377 21.598 0.65346 25 15 2 0 0 0 0.17594 1 9456 9456 24.991 0 1 180530 30205 5076 19312 19373 34098 34098 0.009793915411478338 SASRKKKKKKK 11 Unmodified _SASRKKKKKKK_ 0 0 0 AluSc_dup13832|chr7:33006087-33006413:-|2.432637109564385|0.4159080058002372|2.55|540.0|10|3|sense AluSc_dup13832|chr7:33006087-33006413:-|2.432637109564385|0.4159080058002372|2.55|540.0|10|3|sense AluSc_dup13832|chr7:33006087-33006413:-|2.432637109564385|0.4159080058002372|2.55|540.0|10|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 658.944091796875 2 658.94607 1315.87759 NaN NaN NaN NaN NaN NaN NaN 70.337 1 70.337 69.837 70.837 0 0 0 0 1.0072 1 34114 34114 1.3295 0 1 30206 32 19313 19374 34099 34099 0.23228375567487092 SASRKRKH 8 Unmodified _SASRKRKH_ 0 0 0 ENST00000454990.5_1_14:45711969-45712041:-|nuORF ENST00000454990.5_1_14:45711969-45712041:-|nuORF ENST00000454990.5_1_14:45711969-45712041:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2869567871094 2 485.288674 968.562795 NaN NaN NaN NaN NaN NaN NaN 69.347 1 70.008 69.508 70.508 0.66071 0 0 0 0.99035 1 31789 31789 3.9444 1.3669 1 30207 8039 19314 19375 34100 34100 0.07725636208613196 SASVENVSL 9 Unmodified _SASVENVSL_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 453.2334289550781 2 453.232364 904.450176 2.5799 0.0011693 0.27969 0.00012677 2.8595 0.001296 453.23248098687293 47.305 0.3085 47.305 47.172 47.481 0 26 16 2 0 0 0 0.0023685 2 21638 21638;21692 100.37 39.014 1 945590 30208 5547 19315 19376 34101;34102 34101 -0.005871020987456177 SASVENVSL 9 Unmodified _SASVENVSL_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 905.4586181640625 1 905.457453 904.450176 3.5423 0.0032074 0.68836 0.00062328 4.2307 0.0038307 905.4575107833854 47.335 0.19119 47.335 47.231 47.422 0 13 10 2 0 0 0 0.012748 1 21657 21657 78.149 23.376 1 570970 30209 5547 19315 19376 34103 34103 -0.005871020987456177 SASVENVSL 9 Unmodified _SASVENVSL_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 905.462158203125 1 905.457453 904.450176 4.0999 0.0037123 1.013 0.00091727 5.1129 0.0046295 905.4587211333413 47.14 0.27279 47.404 47.247 47.52 0.26363 16 10 2 0 0 0 0.020151 1 21533 21533 68.081 22.06 1 487370 30210 5547 19315 19376 34104 34104 -0.005871020987456177 SASVENVSL 9 Unmodified _SASVENVSL_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.23388671875 2 453.232364 904.450176 3.0048 0.0013619 0.60373 0.00027363 3.6085 0.0016355 453.2326087387747 47.115 0.34212 47.378 47.214 47.556 0.26363 29 13 3 0 0 0 0.0063783 2 21550 21550;21592 88.904 20.823 1 1111800 30211 5547 19315 19376 34105;34106 34105 -0.005871020987456177 SASVENVSL 9 Unmodified _SASVENVSL_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 453.234130859375 2 453.232364 904.450176 3.1386 0.0014225 0.17665 8.0062E-05 3.3152 0.0015026 453.2325000310143 46.601 0.2978 47.254 47.137 47.435 0.65219 21 9 3 0 0 0 0.0023685 1 21333 21333 100.37 36.135 1 997830 30212 5547 19315 19376 34107 34107 -0.005871020987456177 SASVENVSL 9 Unmodified _SASVENVSL_ 0 0 0 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 ENSG00000185950|ENST00000375856|IRS2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 453.232364 904.450176 2.6939 0.001221 -0.90465 -0.00041002 1.7893 0.00081095 453.23210729171103 46.324 0.2837 47.153 47.018 47.301 0.82915 -0.1196 -0.0010025 NaN 100.37 23 15 2 NaN NaN NaN NaN 0 NaN NaN 0 813200 30213 5547 19315 19376 -0.005871020987456177 SASYYEQYHSL 11 Unmodified _SASYYEQYHSL_ 0 0 0 nc|ENSG00000080618|Q96IY4-2|CPB2;ENSG00000080618|ENST00000181383|CPB2 nc|ENSG00000080618|Q96IY4-2|CPB2 nc|ENSG00000080618|Q96IY4-2|CPB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 449.8683166503906 3 449.866575 1346.5779 2.8629 0.0012879 -1.495 -0.00067256 1.3679 0.00061537 449.8662641897034 39.626 0.25932 39.626 39.492 39.752 0 23 11 3 0 0 0 0.88075 1 17975 17975 1.3296 0 1 1023200 30214 911 19316 19377 34108 34108 -0.08153006295378873 SATDMDSD 8 Unmodified _SATDMDSD_ 0 0 0 nc|ENSG00000150893|Q5SZK8-2|FREM2;ENSG00000150893|ENST00000280481|FREM2 nc|ENSG00000150893|Q5SZK8-2|FREM2 nc|ENSG00000150893|Q5SZK8-2|FREM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.1509094238281 2 421.14764 840.280727 NaN NaN NaN NaN NaN NaN NaN 54.474 1 54.474 53.974 54.974 0 0 0 0 0.99035 1 24994 24994 2.3027 0 1 30215 3681 19317 19378 34109 34109 -0.14580166443636244 SATLVDEVF 9 Unmodified _SATLVDEVF_ 0 0 0 ENSG00000117748|ENST00000373912|RPA2;nc|ENSG00000117748|P15927-2|RPA2;nc|ENSG00000117748|P15927-3|RPA2 ENSG00000117748|ENST00000373912|RPA2 ENSG00000117748|ENST00000373912|RPA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 980.4949951171875 1 980.493504 979.486227 3.3471 0.0032818 -0.50923 -0.0004993 2.8379 0.0027826 980.4925947041761 75.735 0.28004 75.992 75.893 76.173 0.25705 28 22 2 0 0 0 0.032303 1 34897 34897 54.774 26.287 1 553870 30216 2093 19318 19379 34110 34110 -0.004336449219067617 SATLVDEVF 9 Unmodified _SATLVDEVF_ 0 0 0 ENSG00000117748|ENST00000373912|RPA2;nc|ENSG00000117748|P15927-2|RPA2;nc|ENSG00000117748|P15927-3|RPA2 ENSG00000117748|ENST00000373912|RPA2 ENSG00000117748|ENST00000373912|RPA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 980.496826171875 1 980.493504 979.486227 3.3157 0.003251 -0.93761 -0.00091932 2.3781 0.0023317 980.4930086325934 75.251 0.24599 75.915 75.787 76.033 0.6644 29 19 2 0 0 0 0.047285 2 34645 34645;34699 48.346 6.2513 1 558750 30217 2093 19318 19379 34111;34112 34111 -0.004336449219067617 SATRRIGPSP 10 Unmodified _SATRRIGPSP_ 0 0 0 ENST00000315367.3_1_8:96146033-96166318:+|nuORF ENST00000315367.3_1_8:96146033-96166318:+|nuORF ENST00000315367.3_1_8:96146033-96166318:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.2924194335938 2 521.293622 1040.57269 NaN NaN NaN NaN NaN NaN NaN 56.234 1 57.011 56.511 57.511 0.77786 0 0 0 0.99846 1 25702 25702 2.9952 0.10602 1 30218 6896 19319 19380 34113 34113 0.05402779423343418 SAVKEGTAM 9 Unmodified _SAVKEGTAM_ 0 0 0 ENSG00000122870|ENST00000373886|BICC1;nc|ENSG00000122870|Q9H694-2|BICC1 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 447.2247619628906 2 447.223485 892.432418 2.3816 0.0010651 0.26737 0.00011958 2.649 0.0011847 447.2235594610828 12.857 0.1159 13.119 13.065 13.181 0.26154 15 9 2 0 0 0 0.0020727 1 5601 5601 103.42 35.339 1 2495900 30219 2285 19320 19381 34114 34114 -0.018101406252640118 SAVKEGTAM 9 Unmodified _SAVKEGTAM_ 0 0 0 ENSG00000122870|ENST00000373886|BICC1;nc|ENSG00000122870|Q9H694-2|BICC1 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 447.2245178222656 2 447.223485 892.432418 2.1965 0.00098235 -0.29168 -0.00013045 1.9049 0.0008519 447.22342997757886 12.822 0.16439 13.129 13.023 13.187 0.30727 12 4 4 0 0 0 0.0020727 1 5792 5792 103.42 38.184 1 1467100 30220 2285 19320 19381 34115 34115 -0.018101406252640118 SAVKEGTAM 9 Unmodified _SAVKEGTAM_ 0 0 0 ENSG00000122870|ENST00000373886|BICC1;nc|ENSG00000122870|Q9H694-2|BICC1 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 447.22528076171875 2 447.223485 892.432418 3.3931 0.0015175 0.61154 0.00027349 4.0046 0.0017909 447.22372677429973 12.685 0.13507 13.328 13.244 13.379 0.64272 5 3 2 0 0 0 0.36069 1 5714 5714 14.838 0 1 2763100 30221 2285 19320 19381 34116 34116 -0.018101406252640118 SAVLALYKTL 10 Unmodified _SAVLALYKTL_ 0 0 0 ENSG00000024048|ENST00000372901|UBR2;nc|ENSG00000024048|Q8IWV8|UBR2 ENSG00000024048|ENST00000372901|UBR2 ENSG00000024048|ENST00000372901|UBR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 360.2225341796875 3 360.221742 1077.6434 2.5555 0.00092056 0.11161 4.0206E-05 2.6671 0.00096076 360.2217827611737 45.133 0.35975 45.133 44.97 45.33 0 63 19 4 0 0 0 0.1787 1 20635 20635 29.437 0 1 10220000 30222 473 19321 19382 34117 34117 0.10768059688280118 SAVSVLTSAL 10 Unmodified _SAVSVLTSAL_ 0 0 0 nc|ENSG00000183873|Q14524-5|SCN5A;nc|ENSG00000183873|Q14524-3|SCN5A;nc|ENSG00000183873|Q14524-6|SCN5A;ENSG00000183873|ENST00000423572|SCN5A;nc|ENSG00000183873|Q14524|SCN5A;nc|ENSG00000183873|Q14524-4|SCN5A nc|ENSG00000183873|Q14524-5|SCN5A nc|ENSG00000183873|Q14524-5|SCN5A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.2752990722656 2 474.274032 946.533512 NaN NaN NaN NaN NaN NaN NaN 42.233 1 42.503 42.003 43.003 0.27021 0 0 0 0.68715 1 19260 19260 25.399 1.3787 1 30223 5410 19322 19383 34118 34118 0.058106343490862855 SAVVHEYAL 9 Unmodified _SAVVHEYAL_ 0 0 0 ENSG00000057252|ENST00000367619|SOAT1;nc|ENSG00000057252|P35610-3|SOAT1;nc|ENSG00000057252|P35610-2|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.7602844238281 2 494.758549 987.502546 3.0847 0.0015262 0.32748 0.00016202 3.4122 0.0016882 494.7586516383829 40.014 0.33311 40.014 39.807 40.14 0 29 13 3 0 0 0 0.0063783 2 18133 18133;18196 88.904 52.859 1 989790 30224 622 19323 19384 34119;34120 34119 0.008294810348388637 SAVVHEYAL 9 Unmodified _SAVVHEYAL_ 0 0 0 ENSG00000057252|ENST00000367619|SOAT1;nc|ENSG00000057252|P35610-3|SOAT1;nc|ENSG00000057252|P35610-2|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.7598571777344 2 494.758549 987.502546 3.1382 0.0015526 -0.19349 -9.5731E-05 2.9447 0.0014569 494.75839341438376 38.889 0.32512 39.686 39.514 39.84 0.79762 36 15 3 0 0 0 0.0081238 2 17627 17590;17627 85.272 47.298 1 682360 30225 622 19323 19384 34121;34122 34122 0.008294810348388637 SAVVHEYAL 9 Unmodified _SAVVHEYAL_ 0 0 0 ENSG00000057252|ENST00000367619|SOAT1;nc|ENSG00000057252|P35610-3|SOAT1;nc|ENSG00000057252|P35610-2|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.7603454589844 2 494.758549 987.502546 3.2731 0.0016194 0.083232 4.118E-05 3.3563 0.0016606 494.75854120005823 39.846 0.34964 40.113 39.879 40.228 0.26696 29 11 4 0 0 0 0.0063783 2 18091 18091;18148 88.904 42.883 1 1796000 30226 622 19323 19384 34123;34124 34123 0.008294810348388637 SAVVHEYAL 9 Unmodified _SAVVHEYAL_ 0 0 0 ENSG00000057252|ENST00000367619|SOAT1;nc|ENSG00000057252|P35610-3|SOAT1;nc|ENSG00000057252|P35610-2|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 ENSG00000057252|ENST00000367619|SOAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.7603454589844 2 494.758549 987.502546 3.3334 0.0016492 0.06723 3.3262E-05 3.4006 0.0016825 494.75871059377215 39.427 0.30099 40.065 39.887 40.188 0.63778 30 11 4 0 0 0 0.012748 2 17985 17985;18048 78.149 47.513 1 1694800 30227 622 19323 19384 34125;34126 34125 0.008294810348388637 SAWAGLREAA 10 Unmodified _SAWAGLREAA_ 0 0 0 ENSG00000160460|ENST00000598249|SPTBN4;nc|ENSG00000160460|Q9H254-4|SPTBN4;nc|ENSG00000160460|Q9H254-3|SPTBN4;ENST00000596900.5_1_19:41036434-41060733:+|nuORF;nc|ENSG00000160460|Q9H254-5|SPTBN4 ENSG00000160460|ENST00000598249|SPTBN4 ENSG00000160460|ENST00000598249|SPTBN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.2656860351562 2 516.267073 1030.51959 NaN NaN NaN NaN NaN NaN NaN 34.916 1 34.916 34.416 35.416 0 0 0 0 0.91986 1 15831 15831 18.146 3.5647 1 30228 4061 19324 19385 34127 34127 0.005554016406676965 SAWGPVAR 8 Unmodified _SAWGPVAR_ 0 0 0 REV__ENSG00000196371|ENST00000358752|FUT4 REV__ENSG00000196371|ENST00000358752|FUT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.2286682128906 2 422.22722 842.439886 NaN NaN NaN NaN NaN NaN NaN 53.509 1 54.312 53.812 54.812 0.80351 0 0 0 0.99035 1 24410 24410 4.756 2.1785 1 + 30229 14209 19325 19386 34128 34128 0.012363797573129887 SAYLRELVLL 10 Unmodified _SAYLRELVLL_ 0 0 0 REV__ENST00000408045.7_1_2:43571220-43805671:-|nuORF REV__ENST00000408045.7_1_2:43571220-43805671:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 392.9064636230469 3 392.904413 1175.69141 2.917 0.0011461 1.0466 0.00041122 3.9636 0.0015573 392.90511781145165 15.217 0.91779 15.87 15.56 16.478 0.65356 270 111 3 0 0 0 0.84738 1 6825 6825 6.1918 1.4759 1 318350 + 30230 11389 19326 19387 34129 34129 0.11059133608318916 SCCCCCCC 8 Unmodified _SCCCCCCC_ 0 0 0 nc|ENSG00000231721|A0A455ZAR2|LINC-PINT;ENST00000451786.5_1_7:130792823-130793084:-|nuORF REV__ENST00000498308.1_1_7:5111775-5112846:+|nuORF;nc|ENSG00000231721|A0A455ZAR2|LINC-PINT;REV__nc|ENSG00000231721|A0A455ZAR2|LINC-PINT REV__ENST00000498308.1_1_7:5111775-5112846:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 414.0615539550781 2 414.060719 826.106884 NaN NaN NaN NaN NaN NaN NaN 54.287 1 54.287 53.787 54.787 0 0 0 0 0.99035 1 24899 24899 0 0 1 30231 16869;8019;16417 19327 19388 34130 34130 -0.31312472604292907 SCCCCCCCS 9 Unmodified _SCCCCCCCS_ 0 0 0 nc|ENSG00000231721|A0A455ZAR2|LINC-PINT;ENST00000451786.5_1_7:130792823-130793084:-|nuORF nc|ENSG00000231721|A0A455ZAR2|LINC-PINT;REV__nc|ENSG00000231721|A0A455ZAR2|LINC-PINT REV__nc|ENSG00000231721|A0A455ZAR2|LINC-PINT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 305.5196838378906 3 305.386914 913.138913 NaN NaN NaN NaN NaN NaN NaN 46.42 1 47.249 46.749 47.749 0.82915 0 0 0 0.91452 1 21143 21143 0 0 1 30232 8019;16417 19328 19389 34131 34131 -0.32113104921143076 SCCCCCCGHR 10 Unmodified _SCCCCCCGHR_ 0 0 0 ENST00000483722.1_1_6:41166134-41168799:-|nuORF ENST00000483722.1_1_6:41166134-41168799:-|nuORF ENST00000483722.1_1_6:41166134-41168799:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.6490478515625 2 537.64687 1073.27919 NaN NaN NaN NaN NaN NaN NaN 73.649 1 74.348 73.848 74.848 0.69881 0 0 0 1.002 1 35533 35533 0 0 1 30233 8317 19329 19390 34132 34132 -0.254521848725517 SCCCCWCFC 9 Unmodified _SCCCCWCFC_ 0 0 0 REV__ENSG00000091844|ENST00000206262|RGS17 REV__ENSG00000091844|ENST00000206262|RGS17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.1296997070312 2 529.12999 1056.24543 NaN NaN NaN NaN NaN NaN NaN 99.875 1 99.875 99.375 100.37 0 0 0 0 0.91452 1 55021 55021 0 0 1 + 30234 10735 19330 19391 34133 34133 -0.28044606364323954 SCCCCWCFC 9 Unmodified _SCCCCWCFC_ 0 0 0 REV__ENSG00000091844|ENST00000206262|RGS17 REV__ENSG00000091844|ENST00000206262|RGS17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.1297607421875 2 529.12999 1056.24543 NaN NaN NaN NaN NaN NaN NaN 83.773 1 83.801 83.301 84.301 0.028603 0 0 0 0.91452 1 41647 41647 0 0 1 + 30235 10735 19330 19391 34134 34134 -0.28044606364323954 SCCPCCCC 8 Unmodified _SCCPCCCC_ 0 0 0 ENSG00000183307|ENST00000331437|TMEM121B ENSG00000183307|ENST00000331437|TMEM121B ENSG00000183307|ENST00000331437|TMEM121B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 411.08380126953125 2 411.082508 820.150464 NaN NaN NaN NaN NaN NaN NaN 83.677 1 83.925 83.425 84.425 0.24722 0 0 0 0.99035 1 38516 38516 0 0 1 30236 5375 19331 19392 34135 34135 -0.26680539835501804 SCCPCCCC 8 Unmodified _SCCPCCCC_ 0 0 0 ENSG00000183307|ENST00000331437|TMEM121B ENSG00000183307|ENST00000331437|TMEM121B ENSG00000183307|ENST00000331437|TMEM121B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 410.75555419921875 2 411.082508 820.150464 NaN NaN NaN NaN NaN NaN NaN 83.912 1 84.159 83.659 84.659 0.24722 0 0 0 0.99035 1 38623 38623 0 0 1 30237 5375 19331 19392 34136 34136 -0.26680539835501804 SCCPCCCC 8 Unmodified _SCCPCCCC_ 0 0 0 ENSG00000183307|ENST00000331437|TMEM121B ENSG00000183307|ENST00000331437|TMEM121B ENSG00000183307|ENST00000331437|TMEM121B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 411.0830993652344 2 411.082508 820.150464 NaN NaN NaN NaN NaN NaN NaN 86.896 1 87.145 86.645 87.645 0.24974 0 0 0 0.99035 1 39999 39999 0 0 1 30238 5375 19331 19392 34137 34137 -0.26680539835501804 SCCPCCCC 8 Unmodified _SCCPCCCC_ 0 0 0 ENSG00000183307|ENST00000331437|TMEM121B ENSG00000183307|ENST00000331437|TMEM121B ENSG00000183307|ENST00000331437|TMEM121B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 411.0835266113281 2 411.082508 820.150464 NaN NaN NaN NaN NaN NaN NaN 87.219 1 87.469 86.969 87.969 0.24974 0 0 0 0.99035 1 40144 40144 0 0 1 30239 5375 19331 19392 34138 34138 -0.26680539835501804 SCCPCCCC 8 Unmodified _SCCPCCCC_ 0 0 0 ENSG00000183307|ENST00000331437|TMEM121B ENSG00000183307|ENST00000331437|TMEM121B ENSG00000183307|ENST00000331437|TMEM121B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 411.083740234375 2 411.082508 820.150464 NaN NaN NaN NaN NaN NaN NaN 89.594 1 89.846 89.346 90.346 0.25137 0 0 0 0.99035 1 41206 41206 0 0 1 30240 5375 19331 19392 34139 34139 -0.26680539835501804 SCCPCCCC 8 Unmodified _SCCPCCCC_ 0 0 0 ENSG00000183307|ENST00000331437|TMEM121B ENSG00000183307|ENST00000331437|TMEM121B ENSG00000183307|ENST00000331437|TMEM121B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 411.08367919921875 2 411.082508 820.150464 NaN NaN NaN NaN NaN NaN NaN 88.05 1 88.728 88.228 89.228 0.67818 0 0 0 0.99035 1 40556 40556 0 0 1 30241 5375 19331 19392 34140 34140 -0.26680539835501804 SCCPCCCCCG 10 Unmodified _SCCPCCCCCG_ 0 0 0 ENSG00000183307|ENST00000331437|TMEM121B ENSG00000183307|ENST00000331437|TMEM121B ENSG00000183307|ENST00000331437|TMEM121B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.03033447265625 2 491.097832 980.181112 NaN NaN NaN NaN NaN NaN NaN 60.855 1 60.855 60.355 61.355 0 0 0 0 1.002 1 28334 28334 0 0 1 30242 5375 19332 19393 34141 34141 -0.309771295127689 SCCSHCDG 8 Unmodified _SCCSHCDG_ 0 0 0 REV__ENSG00000182566|ENST00000328853|CLEC4G REV__ENSG00000182566|ENST00000328853|CLEC4G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.1577758789062 1 811.21677 810.209494 3.2887 0.0026679 2.4871 0.0020175 5.7758 0.0046854 811.2219103685094 89.555 0.079124 89.555 89.516 89.595 0 13 11 2 0 0 0 0.14355 1 46840 46840 0 0 1 23956000 + 30243 13896 19333 19394 34142 34142 -0.20320280953649217 SCCYCCPCCCF 11 Unmodified _SCCYCCPCCCF_ 0 0 0 REV__ENST00000346964.6_2_3:196770181-196770280:-|nuORF REV__ENST00000346964.6_2_3:196770181-196770280:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.6512451171875 2 617.652972 1233.29139 NaN NaN NaN NaN NaN NaN NaN 62.102 1 62.102 61.602 62.602 0 0 0 0 1.0082 1 29070 29070 0 0 1 + 30244 15512 19334 19395 34143 34143 -0.3159232924438129 SCDCFFDRKRQ 11 Unmodified _SCDCFFDRKRQ_ 0 0 0 REV__ENSG00000273274|ENST00000609129|ZBTB8B REV__ENSG00000273274|ENST00000609129|ZBTB8B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 702.8107299804688 2 702.810996 1403.60744 NaN NaN NaN NaN NaN NaN NaN 83.595 1 83.843 83.343 84.343 0.24722 0 0 0 1.0061 1 38478 38478 2.7352 2.3345 1 + 30245 14723 19335 19396 34144 34144 -0.07822088822558726 SCDDNGCDCQ 10 Unmodified _SCDDNGCDCQ_ 0 0 0 ENST00000509537.1_1_4:187511811-187516897:-|nuORF ENST00000509537.1_1_4:187511811-187516897:-|nuORF ENST00000509537.1_1_4:187511811-187516897:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.2587890625 2 530.144249 1058.27394 NaN NaN NaN NaN NaN NaN NaN 86.387 1 86.387 85.887 86.887 0 0 0 0 1.002 1 44264 44264 0 0 1 30246 8542 19336 19397 34145 34145 -0.2528617065815979 SCEEQGED 8 Unmodified _SCEEQGED_ 0 0 0 REV__nc|ENSG00000135773|O14815-2|CAPN9 REV__nc|ENSG00000135773|O14815-2|CAPN9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 448.6944274902344 2 448.650547 895.286541 NaN NaN NaN NaN NaN NaN NaN 63.126 1 63.126 62.626 63.626 0 0 0 0 0.99035 1 29658 29658 0.69038 0 1 + 30247 12037 19337 19398 34146 34146 -0.16529067931958252 SCFMCEMET 9 Unmodified _SCFMCEMET_ 0 0 0 ENST00000590244.1_1_17:58543761-58603427:-|nuORF ENST00000590244.1_1_17:58543761-58603427:-|nuORF ENST00000590244.1_1_17:58543761-58603427:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.6776733398438 2 540.678881 1079.34321 NaN NaN NaN NaN NaN NaN NaN 90.94 1 91.191 90.691 91.691 0.25163 0 0 0 0.91238 1 41816 41816 0.52476 0 1 30248 9222 19338 19399 34147 34147 -0.1932880296296844 SCGGACED 8 Unmodified _SCGGACED_ 0 0 0 REV__nc|ENSG00000065361|P21860-3|ERBB3 REV__nc|ENSG00000065361|P21860-3|ERBB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 371.1018981933594 2 371.112546 740.210539 NaN NaN NaN NaN NaN NaN NaN 77.685 1 77.685 77.185 78.185 0 0 0 0 0.99035 1 38107 38107 0 0 1 + 30249 10430 19339 19400 34148 34148 -0.1699574331310032 SCHIRVGP 8 Unmodified _SCHIRVGP_ 0 0 0 ENSG00000153283|ENST00000352690|CD96;nc|ENSG00000153283|P40200|CD96 ENSG00000153283|ENST00000352690|CD96 ENSG00000153283|ENST00000352690|CD96 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.2459716796875 2 434.726529 867.438506 NaN NaN NaN NaN NaN NaN NaN 66.647 1 66.647 66.147 67.147 0 0 0 0 0.99035 1 31874 31874 2.5775 0 1 30250 3783 19340 19401 34149 34149 -0.0005157760308520665 SCNKGGWL 8 Unmodified _SCNKGGWL_ 0 0 0 REV__ENST00000371207.8_2_10:97515409-97515493:+|nuORF REV__ENST00000371207.8_2_10:97515409-97515493:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 432.7051086425781 2 432.705263 863.395972 3.1806 0.0013763 -1.4195 -0.00061421 1.7612 0.00076207 432.70395697377637 82.638 0.40606 83.298 83.085 83.491 0.66019 59 23 3 0 0 0 0.74071 1 38048 38048 2.5775 0.27475 1 1012800 + 30251 15737 19341 19402 34150 34150 -0.041189727313280855 SCRCHSCCSCC 11 Unmodified _SCRCHSCCSCC_ 0 0 0 REV__ENST00000485924.2_1_1:155295438-155296706:+|nuORF REV__ENST00000485924.2_1_1:155295438-155296706:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 596.2322387695312 2 596.168166 1190.32178 NaN NaN NaN NaN NaN NaN NaN 89.951 1 90.202 89.702 90.702 0.25137 0 0 0 1.0082 1 41365 41365 0 0 1 + 30252 15683 19342 19403 34151 34151 -0.2657683453494428 SCRRRIHL 8 Unmodified _SCRRRIHL_ 0 0 0 ENST00000330514.4_1_17:42883048-42884925:-|nuORF;ENST00000586267.1_1_17:42883048-42906984:-|nuORF;ENST00000590758.3_1_17:42883048-42908178:-|nuORF ENST00000330514.4_1_17:42883048-42884925:-|nuORF ENST00000330514.4_1_17:42883048-42884925:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 347.5355529785156 3 347.53466 1039.58215 2.2612 0.00078583 0.92434 0.00032124 3.1855 0.0011071 347.53498337621915 47.644 0.37978 47.644 47.314 47.694 0 43 27 3 0 0 0 0.7471 1 21802 21802 1.6526 0 1 3780300 30253 6984 19343 19404 34152 34152 0.06394269227871519 SCRRRIHL 8 Unmodified _SCRRRIHL_ 0 0 0 ENST00000330514.4_1_17:42883048-42884925:-|nuORF;ENST00000586267.1_1_17:42883048-42906984:-|nuORF;ENST00000590758.3_1_17:42883048-42908178:-|nuORF ENST00000330514.4_1_17:42883048-42884925:-|nuORF ENST00000330514.4_1_17:42883048-42884925:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 347.5355529785156 3 347.53466 1039.58215 2.2372 0.00077752 0.7359 0.00025575 2.9731 0.0010333 347.5349198774242 46.685 0.42514 47.514 47.417 47.842 0.82915 71 24 4 0 0 0 0.73556 1 21323 21323 2.9952 0 1 2343900 30254 6984 19343 19404 34153 34153 0.06394269227871519 SCRRRIHL 8 Unmodified _SCRRRIHL_ 0 0 0 ENST00000330514.4_1_17:42883048-42884925:-|nuORF;ENST00000586267.1_1_17:42883048-42906984:-|nuORF;ENST00000590758.3_1_17:42883048-42908178:-|nuORF ENST00000330514.4_1_17:42883048-42884925:-|nuORF ENST00000330514.4_1_17:42883048-42884925:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 347.53466 1039.58215 2.2612 0.00078583 0.92434 0.00032124 3.1855 0.0011071 347.53498337621915 47.644 0.37978 47.644 47.314 47.694 0 0.11591 6.7424E-05 NaN 1.6526 43 27 3 NaN NaN NaN NaN 0 NaN NaN 0 3780300 30255 6984 19343 19404 0.06394269227871519 SCRRRIHL 8 Unmodified _SCRRRIHL_ 0 0 0 ENST00000330514.4_1_17:42883048-42884925:-|nuORF;ENST00000586267.1_1_17:42883048-42906984:-|nuORF;ENST00000590758.3_1_17:42883048-42908178:-|nuORF ENST00000330514.4_1_17:42883048-42884925:-|nuORF ENST00000330514.4_1_17:42883048-42884925:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 347.53466 1039.58215 2.2591 0.00078512 1.1096 0.00038563 3.3687 0.0011707 347.86939296619283 46.523 0.10357 47.353 47.259 47.363 0.82915 -0.17538 0.00026058 NaN 1.6526 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 2860200 30256 6984 19343 19404 0.06394269227871519 SCRRRIHL 8 Unmodified _SCRRRIHL_ 0 0 0 ENST00000330514.4_1_17:42883048-42884925:-|nuORF;ENST00000586267.1_1_17:42883048-42906984:-|nuORF;ENST00000590758.3_1_17:42883048-42908178:-|nuORF ENST00000330514.4_1_17:42883048-42884925:-|nuORF ENST00000330514.4_1_17:42883048-42884925:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 347.53466 1039.58215 2.4021 0.00083482 0.78038 0.00027121 3.1825 0.001106 347.53486198063797 46.935 0.69292 47.587 47.226 47.919 0.65219 0.059476 -8.2667E-05 NaN 1.6526 69 37 2 NaN NaN NaN NaN 0 NaN NaN 0 5606200 30257 6984 19343 19404 0.06394269227871519 SCRWNETF 8 Unmodified _SCRWNETF_ 0 0 0 ENST00000556548.5_1_14:24910766-24911042:-|nuORF ENST00000556548.5_1_14:24910766-24911042:-|nuORF ENST00000556548.5_1_14:24910766-24911042:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.7259521484375 2 521.724184 1041.43381 3.2189 0.0016794 0.14562 7.5975E-05 3.3645 0.0017554 521.7243111594676 15.267 0.43629 15.267 15.031 15.467 0 97 52 2 0 0 0 0.74071 1 6758 6758 2.5775 0 1 102040 30258 8926 19344 19405 34154 34154 -0.08524506536514309 SCSSSSDG 8 Unmodified _SCSSSSDG_ 0 0 0 REV__ENSG00000111424|ENST00000549336|VDR REV__ENSG00000111424|ENST00000549336|VDR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.122314453125 2 365.121425 728.228298 NaN NaN NaN NaN NaN NaN NaN 66.285 1 66.942 66.442 67.442 0.65672 0 0 0 0.99035 1 30390 30390 0.69038 0 1 + 30259 11232 19345 19406 34155 34155 -0.14668704786572562 SCSYGHSSQQ 10 Unmodified _SCSYGHSSQQ_ 0 0 0 REV__ENSG00000152749|ENST00000376958|GPR180 REV__ENSG00000152749|ENST00000376958|GPR180 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.21240234375 2 542.211637 1082.40872 NaN NaN NaN NaN NaN NaN NaN 28.614 1 28.874 28.374 29.374 0.2602 0 0 0 0.9952 1 13016 13016 5.7319 1.4026 1 + 30260 12657 19346 19407 34156 34156 -0.12918606129733234 SCVHCVFH 8 Unmodified _SCVHCVFH_ 0 0 0 ENST00000472597.1_1_4:71503451-71503547:+|nuORF ENST00000472597.1_1_4:71503451-71503547:+|nuORF ENST00000472597.1_1_4:71503451-71503547:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 311.1346435546875 3 311.135286 930.384028 NaN NaN NaN NaN NaN NaN NaN 65.8 1 66.509 66.009 67.009 0.70891 0 0 0 0.99035 1 31146 31146 1.8442 0.19162 1 30261 8190 19347 19408 34157 34157 -0.08394912746155114 SCVHCVFH 8 Unmodified _SCVHCVFH_ 0 0 0 ENST00000472597.1_1_4:71503451-71503547:+|nuORF ENST00000472597.1_1_4:71503451-71503547:+|nuORF ENST00000472597.1_1_4:71503451-71503547:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 311.1353759765625 3 311.135286 930.384028 NaN NaN NaN NaN NaN NaN NaN 73.265 1 73.964 73.464 74.464 0.69881 0 0 0 0.99035 1 35310 35310 1.8442 0.19162 1 30262 8190 19347 19408 34158 34158 -0.08394912746155114 SCVHCVFH 8 Unmodified _SCVHCVFH_ 0 0 0 ENST00000472597.1_1_4:71503451-71503547:+|nuORF ENST00000472597.1_1_4:71503451-71503547:+|nuORF ENST00000472597.1_1_4:71503451-71503547:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 311.1360778808594 3 311.135286 930.384028 NaN NaN NaN NaN NaN NaN NaN 73.414 1 73.672 73.172 74.172 0.25876 0 0 0 0.99035 1 33719 33719 1.8442 0.19162 1 30263 8190 19347 19408 34159 34159 -0.08394912746155114 SCVHCVFH 8 Unmodified _SCVHCVFH_ 0 0 0 ENST00000472597.1_1_4:71503451-71503547:+|nuORF ENST00000472597.1_1_4:71503451-71503547:+|nuORF ENST00000472597.1_1_4:71503451-71503547:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 311.1354064941406 3 311.135286 930.384028 NaN NaN NaN NaN NaN NaN NaN 64.341 1 64.998 64.498 65.498 0.65672 0 0 0 0.99035 1 29496 29496 1.8442 1.0677 1 30264 8190 19347 19408 34160 34160 -0.08394912746155114 SCYILCQGGKE 11 Unmodified _SCYILCQGGKE_ 0 0 0 REV__ENST00000577703.1_1_18:9103009-9103312:+|nuORF REV__ENST00000577703.1_1_18:9103009-9103312:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 600.7754516601562 2 600.773016 1199.53148 3.4888 0.002096 0.41317 0.00024822 3.902 0.0023442 600.7736895383612 44.287 0.21707 44.556 44.515 44.732 0.2694 17 8 3 0 0 0 0.72546 1 20270 20270 10.151 0.76745 1 579050 + 30265 17484 19348 19409 34161 34161 -0.06030485722658341 SDCGGGGG 8 Unmodified _SDCGGGGG_ 0 0 0 ENST00000554567.1_2_14:56046961-56101257:+|nuORF ENST00000554567.1_2_14:56046961-56101257:+|nuORF ENST00000554567.1_2_14:56046961-56101257:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 609.1950073242188 1 609.193316 608.186039 3.721 0.0022668 0.6372 0.00038818 4.3582 0.002655 609.1933865787811 64.409 0.36344 65.066 64.931 65.294 0.65672 22 16 2 0 0 0 0.7471 1 29575 29575 0 0 1 685820 30266 8909 19349 19410 34162 34162 -0.13372635404289213 SDCGGGGG 8 Unmodified _SDCGGGGG_ 0 0 0 ENST00000554567.1_2_14:56046961-56101257:+|nuORF ENST00000554567.1_2_14:56046961-56101257:+|nuORF ENST00000554567.1_2_14:56046961-56101257:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 609.5335693359375 1 609.193316 608.186039 3.5307 0.0021509 0.67504 0.00041123 4.2058 0.0025621 609.1931583065601 63.142 0.31681 63.8 63.631 63.947 0.65808 24 18 2 0 0 0 0.14355 1 28946 28946 0 0 1 878280 30267 8909 19349 19410 34163 34163 -0.13372635404289213 SDCGGGGG 8 Unmodified _SDCGGGGG_ 0 0 0 ENST00000554567.1_2_14:56046961-56101257:+|nuORF ENST00000554567.1_2_14:56046961-56101257:+|nuORF ENST00000554567.1_2_14:56046961-56101257:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 609.193316 608.186039 3.376 0.0020566 0.98087 0.00059754 4.3569 0.0026542 609.1933537158806 63.542 0.3517 63.79 63.638 63.99 0.24803 -0.0053498 0.00010909 NaN 0 26 19 2 NaN NaN NaN NaN 0 NaN NaN 0 695950 30268 8909 19349 19410 -0.13372635404289213 SDCPSPLS 8 Unmodified _SDCPSPLS_ 0 0 0 REV__ENST00000469006.1_1_2:241987790-241991533:+|nuORF REV__ENST00000469006.1_1_2:241987790-241991533:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.1755676269531 2 403.173461 804.332369 NaN NaN NaN NaN NaN NaN NaN 93.593 1 93.848 93.348 94.348 0.25497 0 0 0 0.99035 1 43017 43017 2.3027 0 1 + 30269 12962 19350 19411 34164 34164 -0.0776237795906809 SDCSSSSS 8 Unmodified _SDCSSSSS_ 0 0 0 ENSG00000151929|ENST00000369085|BAG3 ENSG00000151929|ENST00000369085|BAG3 ENSG00000151929|ENST00000369085|BAG3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.7261657714844 2 380.126708 758.238863 2.0572 0.000782 0.22986 8.7377E-05 2.2871 0.00086938 380.12659581055544 52.163 0.45997 52.973 52.821 53.281 0.81065 43 31 2 0 0 0 0.14355 1 23867 23867 0 0 1 587700 30270 3733 19351 19412 34165 34165 -0.14992722132149083 SDCSSSSS 8 Unmodified _SDCSSSSS_ 0 0 0 ENSG00000151929|ENST00000369085|BAG3 ENSG00000151929|ENST00000369085|BAG3 ENSG00000151929|ENST00000369085|BAG3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 380.126708 758.238863 2.8264 0.0010744 -0.27939 -0.0001062 2.547 0.00096818 380.1263842647608 52.859 0.33248 52.859 52.779 53.112 0 -0.05733 -0.00017475 NaN 0 32 18 2 NaN NaN NaN NaN 0 NaN NaN 0 732480 30271 3733 19351 19412 -0.14992722132149083 SDDDDDDDDC 10 Unmodified _SDDDDDDDDC_ 0 0 0 PLCB1|p.L966Ffs*11|1|0.05|ENSG00000182621|chr20:8765325-8765326|-/CTTA|frameshift_variant;nc|ENSG00000182621|Q9NQ66-2|PLCB1;ENSG00000182621|ENST00000338037|PLCB1 PLCB1|p.L966Ffs*11|1|0.05|ENSG00000182621|chr20:8765325-8765326|-/CTTA|frameshift_variant PLCB1|p.L966Ffs*11|1|0.05|ENSG00000182621|chr20:8765325-8765326|-/CTTA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 565.3523559570312 2 565.140937 1128.26732 NaN NaN NaN NaN NaN NaN NaN 71.054 1 71.758 71.258 72.258 0.70386 0 0 0 1.002 1 34101 34101 0 0 1 30272 5339 19352 19413 34166 34166 -0.2916811380418949 SDDDNDDDNGN 11 Unmodified _SDDDNDDDNGN_ 0 0 0 ENSG00000147174|ENST00000373696|GCNA ENSG00000147174|ENST00000373696|GCNA ENSG00000147174|ENST00000373696|GCNA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.1845703125 2 598.184525 1194.3545 NaN NaN NaN NaN NaN NaN NaN 57.223 1 57.488 56.988 57.988 0.26444 0 0 0 1.0082 1 26191 26191 0 0 1 30273 3553 19353 19414 34167 34167 -0.23490571538263794 SDDLPLFQL 9 Unmodified _SDDLPLFQL_ 0 0 0 REV__nc|ENSG00000051825|Q99550-2|MPHOSPH9 REV__nc|ENSG00000051825|Q99550-2|MPHOSPH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.273193359375 2 524.27149 1046.52843 2.678 0.001404 0.26773 0.00014036 2.9458 0.0015444 524.2712560921965 72.113 0.16743 72.776 72.734 72.902 0.66324 22 17 2 0 0 0 0.16976 1 33087 33087 25.399 0 1 1095200 + 30274 10353 19354 19415 34168 34168 0.00702330486478786 SDDMSYCHD 9 Unmodified _SDDMSYCHD_ 0 0 0 REV__ENSG00000165392|ENST00000298139|WRN REV__ENSG00000165392|ENST00000298139|WRN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.79248046875 2 536.670957 1071.32736 NaN NaN NaN NaN NaN NaN NaN 59.375 1 59.375 58.875 59.875 0 0 0 0 0.90611 1 27446 27446 2.0598 1.2661 1 + 30275 13157 19355 19416 34169 34169 -0.20545049884003674 SDDSSDDNSDD 11 Unmodified _SDDSSDDNSDD_ 0 0 0 ENSG00000147174|ENST00000373696|GCNA ENSG00000147174|ENST00000373696|GCNA ENSG00000147174|ENST00000373696|GCNA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.1787719726562 2 586.178908 1170.34326 NaN NaN NaN NaN NaN NaN NaN 79.631 1 79.882 79.382 80.382 0.25127 0 0 0 1.0082 1 36667 36667 0 0 1 30276 3553 19356 19417 34170 34170 -0.23509393632411957 SDEDFSDFDE 10 Unmodified _SDEDFSDFDE_ 0 0 0 ENSG00000131747|ENST00000423485|TOP2A;nc|ENSG00000131747|P11388-2|TOP2A;nc|ENSG00000131747|P11388-3|TOP2A;nc|ENSG00000131747|P11388-4|TOP2A ENSG00000131747|ENST00000423485|TOP2A ENSG00000131747|ENST00000423485|TOP2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.8538818359375 2 603.20948 1204.40441 NaN NaN NaN NaN NaN NaN NaN 47.463 1 48.292 47.792 48.792 0.82915 0 0 0 0.99774 1 21624 21624 3.5965 0 1 30277 2671 19357 19418 34171 34171 -0.18961836862331438 SDEEEDEF 8 Unmodified _SDEEEDEF_ 0 0 0 REV__ENSG00000198231|ENST00000389924|DDX42 REV__ENSG00000198231|ENST00000389924|DDX42 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.6782531738281 2 500.174909 998.335265 2.855 0.001428 -0.48847 -0.00024432 2.3666 0.0011837 500.1745400754688 33.635 0.28162 33.635 33.525 33.807 0 83 23 5 0 0 0 0.70799 1 15226 15226 5.2307 0 1 6048200 + 30278 14330 19358 19419 34172 34172 -0.16396876091221202 SDGPHLWH 8 Unmodified _SDGPHLWH_ 0 0 0 REV__ENST00000328041.10_1_20:19673975-19677472:+|nuORF REV__ENST00000328041.10_1_20:19673975-19677472:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.72174072265625 2 474.719759 947.424964 3.3793 0.0016042 0.13071 6.205E-05 3.51 0.0016663 474.71983240378927 30.481 0.5582 30.737 30.516 31.074 0.25614 69 36 2 0 0 0 0.42655 4 13850 13796;13850;13905;13953 26.341 1.4373 1 806830 + 30279 15360 19359 19420 34173;34174;34175;34176 34174 -0.05085112110668888 SDGPHLWH 8 Unmodified _SDGPHLWH_ 0 0 0 REV__ENST00000328041.10_1_20:19673975-19677472:+|nuORF REV__ENST00000328041.10_1_20:19673975-19677472:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.72100830078125 2 474.719759 947.424964 3.0712 0.001458 0.32113 0.00015245 3.3923 0.0016104 474.7199349150288 30.073 0.4105 30.691 30.619 31.029 0.61737 44 25 2 0 0 0 0.31786 3 13861 13795;13861;13926 34.187 7.8461 1 712840 + 30280 15360 19359 19420 34177;34178;34179 34178 -0.05085112110668888 SDHRPRPPG 9 Unmodified _SDHRPRPPG_ 0 0 0 nc|ENSG00000101187|Q96BD0-2|SLCO4A1 nc|ENSG00000101187|Q96BD0-2|SLCO4A1 nc|ENSG00000101187|Q96BD0-2|SLCO4A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 340.177978515625 3 340.177418 1017.51043 NaN NaN NaN NaN NaN NaN NaN 69.63 1 70.291 69.791 70.791 0.66071 0 0 0 0.90611 1 31924 31924 1.0715 0 1 30281 9576 19360 19421 34180 34180 0.0023705307499994888 SDIIAGLV 8 Unmodified _SDIIAGLV_ 0 0 0 ENSG00000134780|ENST00000257215|DAGLA ENSG00000134780|ENST00000257215|DAGLA ENSG00000134780|ENST00000257215|DAGLA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.234375 2 394.231636 786.448719 NaN NaN NaN NaN NaN NaN NaN 46.187 1 46.452 45.952 46.952 0.26561 0 0 0 0.99035 1 21113 21113 2.8892 0 1 30282 2830 19361 19422 34181 34181 0.04695308603152171 SDKRRRRRRRR 11 Unmodified _SDKRRRRRRRR_ 0 0 0 REV__ENSG00000229674|ENST00000448797|H2AL3 REV__ENSG00000229674|ENST00000448797|H2AL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 799.4935913085938 2 799.49397 1596.97339 NaN NaN NaN NaN NaN NaN NaN 95.941 1 96.548 96.048 97.048 0.60769 0 0 0 1.0082 1 44116 44116 0 0 1 + 30283 14570 19362 19423 34182 34182 0.19877961250927 SDPEKRRKL 9 Unmodified _SDPEKRRKL_ 0 0 0 ENST00000433031.1_1_7:57215791-57215998:-|nuORF ENST00000433031.1_1_7:57215791-57215998:-|nuORF ENST00000433031.1_1_7:57215791-57215998:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.8887939453125 3 376.887645 1127.64111 2.5583 0.00096419 0.28755 0.00010838 2.8458 0.0010726 376.8877737739488 16.797 1.407 17.101 16.153 17.56 0.30438 347 148 3 0 0 0 1.1849 1 7272 7272 0.96228 0 1 437530 30284 7868 19363 19424 34183 34183 0.08239024003182749 SDPGNRNR 8 Unmodified _SDPGNRNR_ 0 0 0 nc|ENSG00000083799|Q9NQC7-2|CYLD;ENSG00000083799|ENST00000427738|CYLD;ENST00000563629.1_1_16:50783909-50820919:+|nuORF;ENST00000569891.5_1_16:50783609-50818363:+|nuORF;ENST00000563976.1_1_16:50810130-50811860:+|nuORF nc|ENSG00000083799|Q9NQC7-2|CYLD nc|ENSG00000083799|Q9NQC7-2|CYLD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 458.2259521484375 2 458.223197 914.431841 3.0565 0.0014005 -0.91549 -0.0004195 2.141 0.00098105 458.22283390234605 19.046 0.50667 19.705 19.538 20.045 0.6583 104 40 3 0 0 0 0.4188 2 8731 8731;8779 26.884 26.884 1 2499200 30285 943 19364 19425 34184;34185 34184 -0.02879799230106528 SDPLELVAT 9 Unmodified _SDPLELVAT_ 0 0 0 nc|ENSG00000105609|O75023-2|LILRB5;nc|ENSG00000105609|O75023|LILRB5;ENSG00000105609|ENST00000449561|LILRB5 nc|ENSG00000105609|O75023-2|LILRB5 nc|ENSG00000105609|O75023-2|LILRB5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.7513732910156 2 472.75039 943.486227 3.1321 0.0014807 -0.010529 -4.9776E-06 3.1215 0.0014757 472.7503513839451 66.75 0.58556 67 66.668 67.254 0.2501 76 33 3 0 0 0 0.22507 1 30455 30455 21.747 0 1 1464100 30286 1512 19365 19426 34186 34186 0.012223550780959158 SDVIHQSVYEL 11 Unmodified _SDVIHQSVYEL_ 0 0 0 ENSG00000106546|ENST00000242057|AHR;AHR|p.Q667Pfs*7|1|0.3|ENSG00000106546|chr7:17339823-17339824|-/C|frameshift_variant ENSG00000106546|ENST00000242057|AHR ENSG00000106546|ENST00000242057|AHR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.3228759765625 2 645.322242 1288.62993 NaN NaN NaN NaN NaN NaN NaN 56.444 1 57.222 56.722 57.722 0.77786 0 0 0 0.97845 1 25806 25806 8.7454 2.5396 1 30287 1576 19366 19427 34187 34187 -0.002838428815948646 SDVVENNFTL 10 Unmodified _SDVVENNFTL_ 0 0 0 ENSG00000171189|ENST00000327783|GRIK1;nc|ENSG00000171189|P39086-2|GRIK1;nc|ENSG00000171189|P39086|GRIK1;nc|ENSG00000164418|Q13002-2|GRIK2;nc|ENSG00000164418|Q13002-5|GRIK2;ENSG00000164418|ENST00000369134|GRIK2 ENSG00000171189|ENST00000327783|GRIK1 ENSG00000171189|ENST00000327783|GRIK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.8534851074219 3 379.852266 1136.53497 2.7617 0.001049 0.091972 3.4936E-05 2.8537 0.001084 379.852295013149 26.97 0.27184 27.234 27.099 27.371 0.26489 31 17 2 0 0 0 0.89464 1 12311 12311 1.9064 0 1 389870 30288 4792 19367 19428 34188 34188 -0.027837763527941206 SDYYWKRDIER 11 Unmodified _SDYYWKRDIER_ 0 0 0 REV__nc|ENSG00000141314|P58872-2|RHBDL3 REV__nc|ENSG00000141314|P58872-2|RHBDL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.91632080078125 3 510.91604 1529.72629 NaN NaN NaN NaN NaN NaN NaN 93.249 1 93.249 92.749 93.749 0 0 0 0 1.0073 1 49769 49769 0.40827 0.078994 1 + 30289 12282 19368 19429 34189 34189 -0.017382753216679703 SEAIIARREPK 11 Unmodified _SEAIIARREPK_ 0 0 0 nc|ENSG00000138834|Q9UPT6|MAPK8IP3;ENSG00000138834|ENST00000610761|MAPK8IP3 nc|ENSG00000138834|Q9UPT6|MAPK8IP3 nc|ENSG00000138834|Q9UPT6|MAPK8IP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 635.3655395507812 2 635.367318 1268.72008 NaN NaN NaN NaN NaN NaN NaN 58.668 1 58.668 58.168 59.168 0 0 0 0 0.61918 1 27083 27083 24.991 3.454 1 30290 3123 19369 19430 34190 34190 0.09647251237447563 SECILFFYLV 10 Unmodified _SECILFFYLV_ 0 0 0 REV__nc|ENSG00000205754|G3V0H7|SLCO1B7 REV__nc|ENSG00000205754|G3V0H7|SLCO1B7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 617.3135986328125 2 617.314843 1232.61513 NaN NaN NaN NaN NaN NaN NaN 59.235 1 59.495 58.995 59.995 0.2593 0 0 0 0.99983 1 27126 27126 1.8442 0 1 + 30291 18115 19370 19431 34191 34191 0.008129937166586387 SECLKKLQKV 10 Unmodified _SECLKKLQKV_ 0 0 0 ENST00000548878.6_1_12:110874873-110883331:-|nuORF ENST00000548878.6_1_12:110874873-110883331:-|nuORF ENST00000548878.6_1_12:110874873-110883331:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.3455200195312 2 588.344466 1174.67438 NaN NaN NaN NaN NaN NaN NaN 10.373 1 11.006 10.506 11.506 0.63304 0 0 0 1.0015 1 4672 4672 0.40072 0.050084 1 30292 8857 19371 19432 34192 34192 0.09402889730858988 SEDDEDMQDMD 11 Unmodified _SEDDEDMQDMD_ 0 0 0 ENSG00000110200|ENST00000227618|ANAPC15;nc|ENSG00000110200|P60006-2|ANAPC15 ENSG00000110200|ENST00000227618|ANAPC15 ENSG00000110200|ENST00000227618|ANAPC15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 665.4232177734375 2 665.208297 1328.40204 NaN NaN NaN NaN NaN NaN NaN 92.903 1 92.903 92.403 93.403 0 0 0 0 1.0073 1 49478 49478 1.1933 0.59184 1 30293 1704 19372 19433 34193 34193 -0.24902376653949432 SEDSRESSI 9 Unmodified _SEDSRESSI_ 0 0 0 ENST00000579055.5_1_17:72281302-72310327:+|nuORF;nc|ENSG00000171595|Q9GZS0-2|DNAI2;ENSG00000171595|ENST00000311014|DNAI2 ENST00000579055.5_1_17:72281302-72310327:+|nuORF ENST00000579055.5_1_17:72281302-72310327:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.22601318359375 2 505.225268 1008.43598 3.048 0.0015399 -1.1637 -0.00058795 1.8842 0.00095196 505.22443372870123 76.711 0.33655 76.966 76.797 77.133 0.25533 63 23 4 0 0 0 0.64206 1 35283 35283 10.074 0.6908 1 1410100 30294 4818 19373 19434 34194 34194 -0.06789799317687084 SEDWWERKRKW 11 Unmodified _SEDWWERKRKW_ 0 0 0 REV__ENSG00000230358|ENST00000424157|SPDYE21 REV__ENSG00000230358|ENST00000424157|SPDYE21 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 803.4007568359375 2 803.399681 1604.78481 NaN NaN NaN NaN NaN NaN NaN 31.902 1 31.902 31.402 32.402 0 0 0 0 1.008 1 14439 14439 0.35063 0.081612 1 + 30295 14573 19374 19435 34195 34195 0.006608260434177282 SEDWWERKRKW 11 Unmodified _SEDWWERKRKW_ 0 0 0 REV__ENSG00000230358|ENST00000424157|SPDYE21 REV__ENSG00000230358|ENST00000424157|SPDYE21 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 803.4000244140625 2 803.399681 1604.78481 NaN NaN NaN NaN NaN NaN NaN 60.443 1 60.443 59.943 60.943 0 0 0 0 1.008 1 28068 28068 0.30703 0.03801 1 + 30296 14573 19374 19435 34196 34196 0.006608260434177282 SEEEPKLKY 9 Unmodified _SEEEPKLKY_ 0 0 0 nc|ENSG00000006715|P49754-2|VPS41;nc|ENSG00000006715|P49754-3|VPS41;ENSG00000006715|ENST00000310301|VPS41 nc|ENSG00000006715|P49754-2|VPS41 nc|ENSG00000006715|P49754-2|VPS41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.86151123046875 3 374.860761 1121.56045 2.8463 0.001067 -0.52991 -0.00019864 2.3164 0.00086834 374.86047431205543 16.951 0.31149 16.951 16.75 17.061 0 55 32 2 0 0 0 0.78763 1 7504 7504 7.609 0 1 238630 30297 356 19375 19436 34197 34197 0.0045369816962193 SEEISNSVI 9 Unmodified _SEEISNSVI_ 0 0 0 nc|ENSG00000176293|P52742-2|ZNF135;ENSG00000176293|ENST00000313434|ZNF135;nc|ENSG00000176293|P52742-3|ZNF135;nc|ENSG00000176293|P52742-4|ZNF135 nc|ENSG00000176293|P52742-2|ZNF135 nc|ENSG00000176293|P52742-2|ZNF135 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.24444580078125 2 489.242929 976.471305 2.938 0.0014374 0.56045 0.0002742 3.4984 0.0017116 489.24309435503795 38.503 0.34667 38.767 38.569 38.916 0.26408 22 12 3 0 0 0 0.032303 1 17535 17535 54.774 2.5052 1 1576800 30298 5073 19376 19437 34198 34198 -0.017871367898919743 SEELIKKEM 9 Unmodified _SEELIKKEM_ 0 0 0 ENSG00000096401|ENST00000371477|CDC5L ENSG00000096401|ENST00000371477|CDC5L ENSG00000096401|ENST00000371477|CDC5L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.7265625 2 553.791732 1105.56891 NaN NaN NaN NaN NaN NaN NaN 70.419 1 71.123 70.623 71.623 0.70386 0 0 0 0.81563 1 33741 33741 8.7454 0.83525 1 30299 1128 19377 19438 34199 34199 0.020349288146007893 SEENGPLMM 9 Unmodified _SEENGPLMM_ 0 0 0 ENSG00000122728|ENST00000242310|TAF1L;TAF1L|p.Y702N|1|0.29|ENSG00000122728|chr9:32633476-32633476|A/T|missense_variant;nc|ENSG00000147133|P21675-23|TAF1;nc|ENSG00000147133|P21675-24|TAF1;nc|ENSG00000147133|P21675-21|TAF1;nc|ENSG00000147133|P21675-15|TAF1;nc|ENSG00000147133|P21675-19|TAF1;nc|ENSG00000147133|P21675-20|TAF1;nc|ENSG00000147133|P21675-13|TAF1;nc|ENSG00000147133|P21675-16|TAF1;nc|ENSG00000147133|P21675-18|TAF1;nc|ENSG00000147133|P21675-22|TAF1;nc|ENSG00000147133|P21675-1|TAF1;ENSG00000147133|ENST00000423759|TAF1;nc|ENSG00000147133|P21675|TAF1;nc|ENSG00000147133|P21675-17|TAF1;nc|ENSG00000147133|P21675-25|TAF1 ENSG00000122728|ENST00000242310|TAF1L;nc|ENSG00000147133|P21675-23|TAF1 ENSG00000122728|ENST00000242310|TAF1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.32183837890625 2 504.21226 1006.40997 NaN NaN NaN NaN NaN NaN NaN 51.05 1 51.05 50.55 51.55 0 0 0 0 0.49214 1 23375 23375 19.257 0 1 30300 2280;3548 19378 19439 34200 34200 -0.0929810808519278 SEERLREMF 9 Unmodified _SEERLREMF_ 0 0 0 ENSG00000152700|ENST00000402673|SAR1B ENSG00000152700|ENST00000402673|SAR1B ENSG00000152700|ENST00000402673|SAR1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.5338134765625 3 399.529129 1195.56556 2.6595 0.0010625 4.3179 0.0017251 6.9773 0.0027877 399.53316246008075 39.87 0.33046 39.87 39.709 40.04 0 27 14 3 0 0 0 0.76984 1 18099 18099 4.897 1.31 1 376010 30301 3761 19379 19440 34201 34201 -0.024403212394190632 SEERLREMF 9 Unmodified _SEERLREMF_ 0 0 0 ENSG00000152700|ENST00000402673|SAR1B ENSG00000152700|ENST00000402673|SAR1B ENSG00000152700|ENST00000402673|SAR1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.5338439941406 3 399.529129 1195.56556 2.6458 0.0010571 3.6699 0.0014662 6.3157 0.0025233 399.8632720744921 38.642 0.33797 39.439 39.281 39.619 0.79762 20 15 2 0 0 0 0.76984 1 17525 17525 4.897 0.95262 1 204390 30302 3761 19379 19440 34202 34202 -0.024403212394190632 SEFLYLKKKVE 11 Unmodified _SEFLYLKKKVE_ 0 0 0 ENST00000512335.5_1_5:1629185-1629341:-|nuORF ENST00000512335.5_1_5:1629185-1629341:-|nuORF ENST00000512335.5_1_5:1629185-1629341:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 692.1903076171875 2 692.397753 1382.78095 NaN NaN NaN NaN NaN NaN NaN 65.111 1 65.359 64.859 65.859 0.24803 0 0 0 1.0038 1 29829 29829 5.7319 0.43497 1 30303 8571 19380 19441 34203 34203 0.104873434970159 SEFPKGIIVH 10 Unmodified _SEFPKGIIVH_ 0 0 0 ENSG00000123983|ENST00000357430|ACSL3 ENSG00000123983|ENST00000357430|ACSL3 ENSG00000123983|ENST00000357430|ACSL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.2143859863281 3 376.213358 1125.61824 2.7137 0.0010209 0.89808 0.00033787 3.6118 0.0013588 376.21353941922035 56.266 0.63964 56.266 55.793 56.432 0 96 50 3 0 0 0 0.84738 1 25794 25794 6.1918 0 1 1976700 30304 2329 19381 19442 34204 34204 0.06046004885729417 SEGCGEDG 8 Unmodified _SEGCGEDG_ 0 0 0 nc|ENSG00000166484|Q13164-4|MAPK7;ENST00000570306.5_1_17:19283765-19285121:+|nuORF nc|ENSG00000166484|Q13164-4|MAPK7 nc|ENSG00000166484|Q13164-4|MAPK7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 377.12371826171875 2 377.121425 752.228298 NaN NaN NaN NaN NaN NaN NaN 46.11 1 46.375 45.875 46.875 0.26561 0 0 0 0.99035 1 21077 21077 0.69038 0 1 30305 9086 19382 19443 34205 34205 -0.15772704786581926 SEGGENFCQM 10 Unmodified _SEGGENFCQM_ 0 0 0 REV__nc|ENSG00000144857|Q9BWV1|BOC REV__nc|ENSG00000144857|Q9BWV1|BOC MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 367.5777893066406 3 367.804041 1100.39029 2.8806 0.0010595 -1.4433 -0.00053084 1.4373 0.00052865 367.80351443676494 12.719 0.13535 13.362 13.278 13.413 0.64272 9 3 3 0 0 0 0.12676 1 5716 5716 0.15932 0 1 933930 + 30306 10410 19383 19444 34206 34206 -0.1558848409595157 SEHHRYDDQY 10 Unmodified _SEHHRYDDQY_ 0 0 0 REV__nc|ENSG00000091986|Q76M96-3|CCDC80 REV__nc|ENSG00000091986|Q76M96-3|CCDC80 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 675.4207153320312 2 675.278897 1348.54324 NaN NaN NaN NaN NaN NaN NaN 98.687 1 98.987 98.487 99.487 0.29987 0 0 0 1.0001 1 45494 45494 1.6526 0 1 + 30307 10736 19384 19445 34207 34207 -0.1170882938347404 SEIHQRSKL 9 Unmodified _SEIHQRSKL_ 0 0 0 nc|ENSG00000188649|Q6DHV5-4|CC2D2B;ENSG00000188649|ENST00000646931|CC2D2B nc|ENSG00000188649|Q6DHV5-4|CC2D2B nc|ENSG00000188649|Q6DHV5-4|CC2D2B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.5406799316406 3 366.540245 1096.59891 NaN NaN NaN NaN NaN NaN NaN 21.588 1 21.875 21.375 22.375 0.28662 0 0 0 0.54797 1 9769 9769 17.443 0.87677 1 30308 5675 19385 19446 34208 34208 0.05447048594805892 SEILKRYKRYI 11 Unmodified _SEILKRYKRYI_ 0 0 0 REV__ENSG00000177294|ENST00000321535|FBXO39 REV__ENSG00000177294|ENST00000321535|FBXO39 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 734.9334106445312 2 734.935368 1467.85618 NaN NaN NaN NaN NaN NaN NaN 40.081 1 40.722 40.222 41.222 0.64136 0 0 0 1.008 1 18313 18313 0.35063 0 1 + 30309 13732 19386 19447 34209 34209 0.14096945748110556 SEKIILLLISI 11 Unmodified _SEKIILLLISI_ 0 0 0 REV__ENST00000472099.1_1_1:109338858-109339065:+|nuORF REV__ENST00000472099.1_1_1:109338858-109339065:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 621.3482666015625 2 621.407589 1240.80063 NaN NaN NaN NaN NaN NaN NaN 92.017 1 92.017 91.517 92.517 0 0 0 0 1.0057 1 48768 48768 3.2813 1.9518 1 + 30310 16613 19387 19448 34210 34210 0.18985719507827525 SEKRRTHPSEL 11 Unmodified _SEKRRTHPSEL_ 0 0 0 REV__ENSG00000205502|ENST00000380392|C2CD4B REV__ENSG00000205502|ENST00000380392|C2CD4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.6903686523438 2 670.357482 1338.70041 NaN NaN NaN NaN NaN NaN NaN 55.465 1 56.252 55.752 56.752 0.78711 0 0 0 0.92425 1 25324 25324 13.906 4.5229 1 + 30311 14340 19388 19449 34211 34211 0.04460875226709504 SEKRSRKRKK 10 Unmodified _SEKRSRKRKK_ 0 0 0 REV__nc|ENSG00000261716|Q6DN03|H2BC20P REV__nc|ENSG00000261716|Q6DN03|H2BC20P MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 651.61279296875 2 651.907476 1301.8004 NaN NaN NaN NaN NaN NaN NaN 97.967 1 97.967 97.467 98.467 0 0 0 0 1.0001 1 53503 53503 1.6526 0 1 + 30312 18134 19389 19450 34212 34212 0.16157157351153728 SEKTSEQPME 10 Unmodified _SEKTSEQPME_ 0 0 0 ENST00000562674.1_1_16:51177135-51177219:-|nuORF ENST00000562674.1_1_16:51177135-51177219:-|nuORF ENST00000562674.1_1_16:51177135-51177219:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.2555541992188 2 583.255711 1164.49687 NaN NaN NaN NaN NaN NaN NaN 97.98 1 97.98 97.48 98.48 0 0 0 0 0.99774 1 53516 53516 3.5965 0 1 30313 8996 19390 19451 34213 34213 -0.07880030329806686 SEKYKPSL 8 Unmodified _SEKYKPSL_ 0 0 0 REV__ENST00000465553.5_1_X:154508114-154563754:-|nuORF REV__ENST00000465553.5_1_X:154508114-154563754:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 317.8436279296875 3 317.843042 950.507297 2.1476 0.0006826 0.20895 6.6414E-05 2.3565 0.00074901 317.84312599981564 17.893 0.2607 17.893 17.686 17.947 0 31 16 3 0 0 0 0.61166 1 7948 7948 13.042 2.243 1 461340 + 30314 12757 19391 19452 34214 34214 0.030063651776117695 SELASTIYE 9 Unmodified _SELASTIYE_ 0 0 0 REV__ENSG00000138160|ENST00000260731|KIF11 REV__ENSG00000138160|ENST00000260731|KIF11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1012.492431640625 1 1012.48333 1011.47606 3.6279 0.0036732 0.50953 0.00051589 4.1375 0.0041891 1012.4841475646649 51.371 0.31002 51.371 51.247 51.557 0 32 15 3 0 0 0 0.12301 1 23496 23496 28.487 1.6032 1 1145700 + 30315 12151 19392 19453 34215 34215 -0.029222526471244237 SELASTIYE 9 Unmodified _SELASTIYE_ 0 0 0 REV__ENSG00000138160|ENST00000260731|KIF11 REV__ENSG00000138160|ENST00000260731|KIF11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1012.4825439453125 1 1012.48333 1011.47606 3.326 0.0033675 0.38929 0.00039415 3.7153 0.0037616 1012.4828608176899 51.362 0.19874 51.624 51.49 51.688 0.26227 13 8 2 0 0 0 0.12301 1 23495 23495 28.487 10.352 1 1237200 + 30316 12151 19392 19453 34216 34216 -0.029222526471244237 SELFKDLFVEL 11 Unmodified _SELFKDLFVEL_ 0 0 0 nc|ENSG00000076716|O75487-2|GPC4;ENSG00000076716|ENST00000370828|GPC4 nc|ENSG00000076716|O75487-2|GPC4 nc|ENSG00000076716|O75487-2|GPC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.35888671875 2 670.360836 1338.70712 NaN NaN NaN NaN NaN NaN NaN 55.582 1 56.369 55.869 56.869 0.78711 0 0 0 1.0038 1 25380 25380 5.7319 0 1 30317 849 19393 19454 34217 34217 0.05131375334690347 SELFKTQTRRI 11 Unmodified _SELFKTQTRRI_ 0 0 0 ENST00000563371.5_1_15:42553198-42564267:-|nuORF ENST00000563371.5_1_15:42553198-42564267:-|nuORF ENST00000563371.5_1_15:42553198-42564267:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 690.0673828125 2 689.8937 1377.77285 NaN NaN NaN NaN NaN NaN NaN 78.244 1 78.708 78.208 79.208 0.4642 0 0 0 1.0061 1 38019 38019 2.7352 1.4057 1 30318 9011 19394 19455 34218 34218 0.09907209300263276 SELHLLIRNLQ 11 Unmodified _SELHLLIRNLQ_ 0 0 0 REV__ENST00000395181.2_1_2:190176192-190176438:-|nuORF REV__ENST00000395181.2_1_2:190176192-190176438:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 668.3914184570312 2 668.390793 1334.76703 NaN NaN NaN NaN NaN NaN NaN 20.903 1 20.903 20.403 21.403 0 0 0 0 0.97175 1 9353 9353 9.3831 0 1 + 30319 15980 19395 19456 34219 34219 0.11304110788614707 SELKNIRLRLE 11 Unmodified _SELKNIRLRLE_ 0 0 0 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;ENST00000476350.1_1_1:39768622-39838291:+|nuORF nc|ENSG00000127603|Q9UPN3-4|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.910400390625 2 685.90935 1369.80415 4.1545 0.0028496 -0.70309 -0.00048226 3.4514 0.0023674 685.9086674867965 94.938 0.94016 95.555 94.962 95.902 0.61736 106 52 5 0 0 0 0.90332 1 43804 43804 2.2828 1.0894 1 3449400 30320 2487 19396 19457 34220 34220 0.1340378233435331 SELRRRWHRWR 11 Unmodified _SELRRRWHRWR_ 0 0 0 ENSG00000215644|ENST00000400723|GCGR ENSG00000215644|ENST00000400723|GCGR ENSG00000215644|ENST00000400723|GCGR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 819.4534301757812 2 819.453448 1636.89234 NaN NaN NaN NaN NaN NaN NaN 60.655 1 60.655 60.155 61.155 0 0 0 0 1.0082 1 28215 28215 0 0 1 30321 6136 19397 19458 34221 34221 0.09937260488186439 SELRRRWHRWR 11 Unmodified _SELRRRWHRWR_ 0 0 0 ENSG00000215644|ENST00000400723|GCGR ENSG00000215644|ENST00000400723|GCGR ENSG00000215644|ENST00000400723|GCGR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.6420288085938 3 546.638057 1636.89234 NaN NaN NaN NaN NaN NaN NaN 70.736 1 71.44 70.94 71.94 0.70386 0 0 0 1.0073 1 33919 33919 0.40827 0.32491 1 30322 6136 19397 19458 34222 34222 0.09937260488186439 SENETFRKF 9 Unmodified _SENETFRKF_ 0 0 0 ENSG00000187775|ENST00000389840|DNAH17;nc|ENSG00000187775|Q9UFH2-4|DNAH17;ENST00000589793.1_1_17:76539878-76567391:-|nuORF ENSG00000187775|ENST00000389840|DNAH17 ENSG00000187775|ENST00000389840|DNAH17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.2515869140625 2 579.28292 1156.55129 NaN NaN NaN NaN NaN NaN NaN 97.783 1 97.783 97.283 98.283 0 0 0 0 0.8984 1 53349 53349 3.9444 1.6417 1 30323 5635 19398 19459 34223 34223 -0.020726503960531772 SEPARPGG 8 Unmodified _SEPARPGG_ 0 0 0 ENST00000362000.9_1_7:65540928-65547388:+|nuORF ENST00000362000.9_1_7:65540928-65547388:+|nuORF ENST00000362000.9_1_7:65540928-65547388:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 385.695556640625 2 385.69321 769.371866 NaN NaN NaN NaN NaN NaN NaN 56.415 1 56.681 56.181 57.181 0.26543 0 0 0 0.99035 1 25809 25809 2.3027 0 1 30324 7234 19399 19460 34224 34224 -0.02204489893324535 SEPGLNEI 8 Unmodified _SEPGLNEI_ 0 0 0 REV__nc|ENSG00000186376|P51815-2|ZNF75D REV__nc|ENSG00000186376|P51815-2|ZNF75D MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 858.7578735351562 1 858.420339 857.413062 3.8234 0.0032821 2.3871 0.0020492 6.2105 0.0053312 858.4215440396957 64.422 0.10243 64.671 64.599 64.702 0.24803 8 5 2 0 0 0 0.10619 1 29511 29511 26.341 6.9023 1 969720 + 30325 14053 19400 19461 34225 34225 -0.021347736445136434 SEPTEFTIPD 10 Unmodified _SEPTEFTIPD_ 0 0 0 REV__nc|ENSG00000179915|Q9ULB1|NRXN1 REV__nc|ENSG00000179915|Q9ULB1|NRXN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.1761779785156 3 379.176638 1134.50808 NaN NaN NaN NaN NaN NaN NaN 51.764 1 52.574 52.074 53.074 0.81065 0 0 0 0.99954 1 23579 23579 2.086 0.34373 1 + 30326 13811 19401 19462 34226 34226 -0.05378884963965902 SEPYCCFA 8 Unmodified _SEPYCCFA_ 0 0 0 REV__ENST00000374500.9_1_6:33385387-33385937:-|nuORF REV__ENST00000374500.9_1_6:33385387-33385937:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 307.1162109375 3 307.115668 918.325175 NaN NaN NaN NaN NaN NaN NaN 47.075 1 47.728 47.228 48.228 0.65219 0 0 0 0.99035 1 21562 21562 0.45834 0 1 + 30327 15786 19402 19463 34227 34227 -0.13725433831154987 SEQLGPNWRQ 10 Unmodified _SEQLGPNWRQ_ 0 0 0 REV__ENST00000368674.5_1_10:128191356-128211334:-|nuORF REV__ENST00000368674.5_1_10:128191356-128211334:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 607.8577270507812 2 607.799269 1213.58398 NaN NaN NaN NaN NaN NaN NaN 16.812 1 17.013 16.513 17.513 0.20057 0 0 0 0.96627 1 7434 7434 10.824 0 1 + 30328 12710 19403 19464 34228 34228 -0.014264432732034038 SEQRRRWRGWC 11 Unmodified _SEQRRRWRGWC_ 0 0 0 REV__ENST00000479712.1_1_13:115052026-115057011:+|nuORF REV__ENST00000479712.1_1_13:115052026-115057011:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 760.3729248046875 2 760.376017 1518.73748 NaN NaN NaN NaN NaN NaN NaN 105.54 1 105.59 105.09 106.09 0.050888 0 0 0 1.0072 1 57105 57105 1.3295 0.13619 1 + 30329 16679 19404 19465 34229 34229 -0.0011373170850674796 SEQYCFQRFRR 11 Unmodified _SEQYCFQRFRR_ 0 0 0 REV__ENSG00000187987|ENST00000289788|ZSCAN23 REV__ENSG00000187987|ENST00000289788|ZSCAN23 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 760.3790283203125 2 760.364784 1518.71502 NaN NaN NaN NaN NaN NaN NaN 90.95 1 90.95 90.45 91.45 0 0 0 0 1.0072 1 47910 47910 1.3295 0.9789 1 + 30330 14126 19405 19466 34230 34230 -0.023593758968218026 SERQLQKI 8 Unmodified _SERQLQKI_ 0 0 0 ENST00000480341.5_1_13:22077016-22089705:-|nuORF ENST00000480341.5_1_13:22077016-22089705:-|nuORF ENST00000480341.5_1_13:22077016-22089705:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.2920227050781 2 501.290548 1000.56654 NaN NaN NaN NaN NaN NaN NaN 102.58 1 102.58 102.08 103.08 0 0 0 0 0.99035 1 56618 56618 2.3027 0 1 30331 8275 19406 19467 34231 34231 0.06628261191792717 SERQVALWDT 10 Unmodified _SERQVALWDT_ 0 0 0 ENST00000567034.5_1_16:30198370-30199113:+|nuORF;ENSG00000102879|ENST00000219150|CORO1A ENST00000567034.5_1_16:30198370-30199113:+|nuORF ENST00000567034.5_1_16:30198370-30199113:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 602.8033447265625 2 602.801477 1203.5884 3.8669 0.0023309 -0.22274 -0.00013427 3.6441 0.0021967 602.8010756279672 49.753 0.36912 50.41 50.222 50.591 0.65735 24 14 2 0 0 0 0.72019 1 22784 22784 12.241 1.4411 1 1691900 30332 1358 19407 19468 34232 34232 -0.005249788503078889 SERRRRRPPRA 11 Unmodified _SERRRRRPPRA_ 0 0 0 REV__ENSG00000112787|ENST00000680143|FBRSL1 REV__ENSG00000112787|ENST00000680143|FBRSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 718.6862182617188 2 718.924523 1435.83449 NaN NaN NaN NaN NaN NaN NaN 78.564 1 78.564 78.064 79.064 0 0 0 0 1.0072 1 38648 38648 1.3295 0 1 + 30333 11281 19408 19469 34233 34233 0.13400998562792665 SETITQEVVWV 11 Unmodified _SETITQEVVWV_ 0 0 0 ENST00000418231.2_1_X:73350641-73351442:+|nuORF ENST00000418231.2_1_X:73350641-73351442:+|nuORF ENST00000418231.2_1_X:73350641-73351442:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 430.7648010253906 3 430.890721 1289.65033 1.4915 0.00064267 -1.4737 -0.00063499 0.017818 7.6778E-06 431.22550745183634 103.21 0.38955 103.27 102.97 103.36 0.055099 23 16 2 0 0 0 0.91068 1 55902 55902 1.3296 0 1 447990 30334 7727 19409 19470 34234 34234 0.017093277781896177 SETQFVKI 8 Unmodified _SETQFVKI_ 0 0 0 REV__nc|ENSG00000137812|Q8NG31-3|KNL1 REV__nc|ENSG00000137812|Q8NG31-3|KNL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.84381103515625 3 317.843042 950.507297 2.0858 0.00066297 0.47052 0.00014955 2.5563 0.00081252 317.843107066125 15.609 0.77356 15.915 15.575 16.349 0.306 150 86 2 0 0 0 0.7471 1 6959 6959 1.6526 0.45928 1 137590 + 30335 12129 19410 19471 34235 34235 0.030063651776117695 SEVHRGIINP 10 Unmodified _SEVHRGIINP_ 0 0 0 nc|ENSG00000139116|Q7Z4S6-3|KIF21A nc|ENSG00000139116|Q7Z4S6-3|KIF21A nc|ENSG00000139116|Q7Z4S6-3|KIF21A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.5419006347656 3 374.540245 1120.59891 2.5975 0.00097285 -0.92491 -0.00034642 1.6725 0.00062643 374.5402771254962 27.939 0.24229 28.559 28.431 28.674 0.61947 21 17 2 0 0 0 0.76575 1 12805 12805 5.7834 0 1 517070 30336 9667 19411 19472 34236 34236 0.043430485948192654 SEVKIKRRSVK 11 Unmodified _SEVKIKRRSVK_ 0 0 0 ENSG00000266074|ENST00000675386|BAHCC1;nc|ENSG00000266074|Q9P281|BAHCC1 ENSG00000266074|ENST00000675386|BAHCC1 ENSG00000266074|ENST00000675386|BAHCC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 443.9499206542969 3 443.949016 1328.82522 3.3071 0.0014682 -1.1853 -0.00052622 2.1217 0.00094195 443.9484609651833 100.44 0.10017 101.04 100.98 101.08 0.59717 9 3 4 0 0 0 0.91111 1 46513 46513 0.40827 0 1 3667800 30337 6322 19412 19473 34237 34237 0.17395792433876522 SEVKIKRRSVK 11 Unmodified _SEVKIKRRSVK_ 0 0 0 ENSG00000266074|ENST00000675386|BAHCC1;nc|ENSG00000266074|Q9P281|BAHCC1 ENSG00000266074|ENST00000675386|BAHCC1 ENSG00000266074|ENST00000675386|BAHCC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 443.949016 1328.82522 2.5129 0.0011156 -0.874 -0.00038801 1.6389 0.00072761 443.94916418511445 100.7 0.043411 100.7 100.68 100.72 0 -0.16413 0.00059055 NaN 0.40827 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 1856400 30338 6322 19412 19473 0.17395792433876522 SEVKIKRRSVK 11 Unmodified _SEVKIKRRSVK_ 0 0 0 ENSG00000266074|ENST00000675386|BAHCC1;nc|ENSG00000266074|Q9P281|BAHCC1 ENSG00000266074|ENST00000675386|BAHCC1 ENSG00000266074|ENST00000675386|BAHCC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 443.949016 1328.82522 3.6978 0.0016416 -1.4359 -0.00063746 2.2619 0.0010042 443.948419157421 100.54 0.10534 100.85 100.81 100.91 0.31412 -0.01142 -0.00015779 NaN 0.40827 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1089000 30339 6322 19412 19473 0.17395792433876522 SEWQELRQFQR 11 Unmodified _SEWQELRQFQR_ 0 0 0 REV__ENST00000546793.1_1_12:53438990-53439816:-|nuORF REV__ENST00000546793.1_1_12:53438990-53439816:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 753.8765258789062 2 753.876039 1505.73752 NaN NaN NaN NaN NaN NaN NaN 69.611 1 70.272 69.772 70.772 0.66071 0 0 0 1.008 1 31915 31915 0.30703 0 1 + 30340 17250 19413 19474 34238 34238 0.004885467724307091 SEYHAMCLWDG 11 Unmodified _SEYHAMCLWDG_ 0 0 0 REV__ENSG00000171489|ENST00000376940|SPACA5 REV__ENSG00000171489|ENST00000376940|SPACA5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.84417724609375 3 437.842608 1310.50599 2.9027 0.0012709 0.52914 0.00023168 3.4319 0.0015026 437.8431513914826 14.349 0.15958 14.349 14.296 14.455 0 17 8 3 0 0 0 0.91391 1 6346 6346 0.08335 0.010087 1 140260 + 30341 13497 19414 19475 34239 34239 -0.13683960245111848 SFAEEDSDEI 10 Unmodified _SFAEEDSDEI_ 0 0 0 REV__ENSG00000086570|ENST00000261800|FAT2 REV__ENSG00000086570|ENST00000261800|FAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.15692138671875 3 381.155903 1140.44588 2.8301 0.0010787 0.013403 5.1086E-06 2.8435 0.0010838 381.15591120895766 19.29 0.1657 19.29 19.227 19.392 0 41 30 2 0 0 0 0.66557 1 8606 8606 8.9762 0 1 7645400 + 30342 10656 19415 19476 34240 34240 -0.11872656102991641 SFAEEDSDEI 10 Unmodified _SFAEEDSDEI_ 0 0 0 REV__ENSG00000086570|ENST00000261800|FAT2 REV__ENSG00000086570|ENST00000261800|FAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.2329711914062 2 571.230216 1140.44588 3.6616 0.0020916 0.61355 0.00035048 4.2751 0.0024421 571.230562249803 17.805 0.29808 18.465 18.364 18.662 0.66072 64 39 2 0 0 0 0.25925 1 8057 8057 32.305 0 1 1801100 + 30343 10656 19415 19476 34241 34241 -0.11872656102991641 SFCCGTCG 8 Unmodified _SFCCGTCG_ 0 0 0 ENSG00000234965|ENST00000621082|SHISA8;nc|ENSG00000234965|B8ZZ34-3|SHISA8 ENSG00000234965|ENST00000621082|SHISA8 ENSG00000234965|ENST00000621082|SHISA8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.1236572265625 2 389.12186 776.229166 NaN NaN NaN NaN NaN NaN NaN 68.132 1 68.384 67.884 68.884 0.25227 0 0 0 0.99035 1 31211 31211 0 0 1 30344 6199 19416 19477 34242 34242 -0.1678990494286836 SFDATGSGF 9 Unmodified _SFDATGSGF_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 888.3760375976562 1 888.373389 887.366112 4.0181 0.0035696 -0.33579 -0.0002983 3.6823 0.0032713 888.3731391241752 49.143 0.31956 49.404 49.268 49.587 0.26146 15 11 2 0 0 0 0.020718 1 22460 22460 67.344 22.937 1 741900 30345 5155 19417 19478 34243 34243 -0.08207633195638664 SFDATGSGF 9 Unmodified _SFDATGSGF_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 888.3754272460938 1 888.373389 887.366112 4.0788 0.0036235 -0.30274 -0.00026894 3.7761 0.0033546 888.3732252470994 48.743 0.29886 49.398 49.227 49.525 0.65525 15 10 2 0 0 0 0.010221 1 22296 22296 81.613 29.345 1 658090 30346 5155 19417 19478 34244 34244 -0.08207633195638664 SFDGIIAMM 9 Unmodified _SFDGIIAMM_ 0 0 0 ENST00000423067.1_1_2:75878548-75878614:-|nuORF;ENSG00000213246|ENST00000225504|SUPT4H1 ENST00000423067.1_1_2:75878548-75878614:-|nuORF ENST00000423067.1_1_2:75878548-75878614:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 984.457763671875 1 984.452901 983.445625 4.0991 0.0040354 1.3531 0.0013321 5.4523 0.0053675 984.4547665532998 92.119 0.16815 92.372 92.324 92.492 0.25253 10 8 2 0 0 0 0.12301 1 42372 42372 28.487 16.847 1 291380 30347 6087 19418 19479 34245 34245 -0.04676025837522957 SFDLLKKAL 9 Unmodified _SFDLLKKAL_ 0 0 0 REV__BBX|p.F697Ifs*8|1|0.34|ENSG00000114439|chr3:107778396-107778397|-/A|frameshift_variant REV__BBX|p.F697Ifs*8|1|0.34|ENSG00000114439|chr3:107778396-107778397|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 345.54833984375 3 345.546337 1033.61718 NaN NaN NaN NaN NaN NaN NaN 18.343 1 18.544 18.044 19.044 0.20057 0 0 0 0.73102 1 8141 8141 11.495 0 1 + 30348 9977 19419 19480 34246 34246 0.10171790516801593 SFDSTVRL 8 Unmodified _SFDSTVRL_ 0 0 0 ENSG00000092377|ENST00000383032|TBL1Y;nc|ENSG00000101849|O60907-2|TBL1X;ENSG00000101849|ENST00000645353|TBL1X;ENSG00000177565|ENST00000457928|TBL1XR1 ENSG00000092377|ENST00000383032|TBL1Y;ENSG00000177565|ENST00000457928|TBL1XR1 ENSG00000177565|ENST00000457928|TBL1XR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.2460632324219 2 462.742899 923.471246 2.9224 0.0013523 -0.77993 -0.00036091 2.1425 0.00099143 462.7426359960457 46.678 0.25845 46.944 46.809 47.068 0.26561 17 8 3 0 0 0 0.051348 1 21334 21334 65.235 15.302 1 1909700 30349 1097;5122 19420 19481 34247 34247 0.006449080007655539 SFDSTVRL 8 Unmodified _SFDSTVRL_ 0 0 0 ENSG00000092377|ENST00000383032|TBL1Y;nc|ENSG00000101849|O60907-2|TBL1X;ENSG00000101849|ENST00000645353|TBL1X;ENSG00000177565|ENST00000457928|TBL1XR1 ENSG00000092377|ENST00000383032|TBL1Y;ENSG00000177565|ENST00000457928|TBL1XR1 ENSG00000177565|ENST00000457928|TBL1XR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 462.7438659667969 2 462.742899 923.471246 3.1579 0.0014613 0.051913 2.4023E-05 3.2098 0.0014853 462.74284795892595 46.093 0.31226 46.744 46.567 46.879 0.65104 23 9 3 0 0 0 0.033113 2 21099 21099;21163 74.929 16.25 1 1296600 30350 1097;5122 19420 19481 34248;34249 34248 0.006449080007655539 SFDSTVRL 8 Unmodified _SFDSTVRL_ 0 0 0 ENSG00000092377|ENST00000383032|TBL1Y;nc|ENSG00000101849|O60907-2|TBL1X;ENSG00000101849|ENST00000645353|TBL1X;ENSG00000177565|ENST00000457928|TBL1XR1 ENSG00000092377|ENST00000383032|TBL1Y;ENSG00000177565|ENST00000457928|TBL1XR1 ENSG00000177565|ENST00000457928|TBL1XR1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 462.742899 923.471246 2.5705 0.0011895 -0.13261 -6.1365E-05 2.4379 0.0011281 462.743035988824 46.772 0.19646 46.772 46.646 46.842 0 0.009099 8.5236E-05 NaN 74.929 12 6 2 NaN NaN NaN NaN 0 NaN NaN 0 504950 30351 1097;5122 19420 19481 0.006449080007655539 SFDSTVRL 8 Unmodified _SFDSTVRL_ 0 0 0 ENSG00000092377|ENST00000383032|TBL1Y;nc|ENSG00000101849|O60907-2|TBL1X;ENSG00000101849|ENST00000645353|TBL1X;ENSG00000177565|ENST00000457928|TBL1XR1 ENSG00000092377|ENST00000383032|TBL1Y;ENSG00000177565|ENST00000457928|TBL1XR1 ENSG00000177565|ENST00000457928|TBL1XR1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 462.742899 923.471246 2.7309 0.0012637 -0.36884 -0.00017068 2.3621 0.001093 462.74273144533436 45.766 0.18394 46.592 46.474 46.658 0.82621 -0.171 -0.00013339 NaN 74.929 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 395280 30352 1097;5122 19420 19481 0.006449080007655539 SFERRPELS 9 Unmodified _SFERRPELS_ 0 0 0 REV__L1M5_dup24793|chr7:135244558-135245275:-|1.2017468508099545|0.0705357099877845|4.09|518.0|14|2|sense REV__L1M5_dup24793|chr7:135244558-135245275:-|1.2017468508099545|0.0705357099877845|4.09|518.0|14|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.7949829101562 2 560.790912 1119.56727 3.827 0.0021462 2.0865 0.0011701 5.9135 0.0033163 560.7920867138693 32.476 0.27617 32.731 32.593 32.87 0.25452 22 14 2 0 0 0 0.36069 1 14794 14794 14.838 0.93222 1 739350 + 30353 17755 19421 19482 34250 34250 0.012270558408772558 SFERRPELS 9 Unmodified _SFERRPELS_ 0 0 0 REV__L1M5_dup24793|chr7:135244558-135245275:-|1.2017468508099545|0.0705357099877845|4.09|518.0|14|2|sense REV__L1M5_dup24793|chr7:135244558-135245275:-|1.2017468508099545|0.0705357099877845|4.09|518.0|14|2|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 560.790912 1119.56727 3.827 0.0021462 2.0865 0.0011701 5.9135 0.0033163 560.7920867138693 32.476 0.27617 32.731 32.593 32.87 0.25452 0.13056 0.00012911 NaN 14.838 22 14 2 NaN NaN NaN NaN 0 NaN NaN 0 739350 + 30354 17755 19421 19482 0.012270558408772558 SFERRPELS 9 Unmodified _SFERRPELS_ 0 0 0 REV__L1M5_dup24793|chr7:135244558-135245275:-|1.2017468508099545|0.0705357099877845|4.09|518.0|14|2|sense REV__L1M5_dup24793|chr7:135244558-135245275:-|1.2017468508099545|0.0705357099877845|4.09|518.0|14|2|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 560.790912 1119.56727 3.5157 0.0019715 1.8997 0.0010653 5.4154 0.0030369 560.7919626358519 31.852 0.21744 32.47 32.354 32.572 0.61736 -0.13056 -8.0373E-05 NaN 14.838 20 12 2 NaN NaN NaN NaN 0 NaN NaN 0 469700 + 30355 17755 19421 19482 0.012270558408772558 SFGKKKGAL 9 Unmodified _SFGKKKGAL_ 0 0 0 REV__ENSG00000117228|ENST00000370473|GBP1 REV__ENSG00000117228|ENST00000370473|GBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 312.5281066894531 3 312.527277 934.560001 2.28 0.00071257 0.67476 0.00021088 2.9548 0.00092345 312.5274320479142 13.165 0.23067 13.808 13.699 13.93 0.64272 54 17 4 0 0 0 0.21008 1 5891 5891 21.59 2.2282 1 4694800 + 30356 11438 19422 19483 34251 34251 0.09010368031078997 SFGRPKGG 8 Unmodified _SFGRPKGG_ 0 0 0 REV__ENST00000467785.5_1_7:158448006-158486027:-|nuORF REV__ENST00000467785.5_1_7:158448006-158486027:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 403.221435546875 2 403.219395 804.424236 2.9153 0.0011755 1.2056 0.00048614 4.1209 0.0016616 403.21966207346907 29.53 1.2457 29.53 29.141 30.387 0 187 100 2 0 0 0 0.71384 1 13474 13474 4.756 4.756 1 1416200 + 30357 12488 19423 19484 34252 34252 0.014200932402900435 SFGVLACKSMF 11 Unmodified _SFGVLACKSMF_ 0 0 0 REV__ENST00000445551.1_1_1:47898899-47899076:-|nuORF REV__ENST00000445551.1_1_1:47898899-47899076:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.1972961425781 3 397.196322 1188.56714 3.0029 0.0011927 -0.84982 -0.00033754 2.1531 0.00085518 397.19620751087473 53.648 0.27361 53.913 53.797 54.07 0.26462 31 11 4 0 0 0 0.41238 1 24542 24542 17.049 9.4396 1 2483600 + 30358 16378 19424 19485 34253 34253 -0.01960403475027306 SFGVLACKSMF 11 Unmodified _SFGVLACKSMF_ 0 0 0 REV__ENST00000445551.1_1_1:47898899-47899076:-|nuORF REV__ENST00000445551.1_1_1:47898899-47899076:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 595.2930297851562 2 595.290845 1188.56714 3.7314 0.0022213 -0.1642 -9.7747E-05 3.5672 0.0021235 595.2911339098263 53.655 0.21415 53.92 53.831 54.045 0.26462 19 8 4 0 0 0 0.19044 1 24557 24557 28.495 6.9575 1 1383700 + 30359 16378 19424 19485 34254 34254 -0.01960403475027306 SFGVLACKSMF 11 Unmodified _SFGVLACKSMF_ 0 0 0 REV__ENST00000445551.1_1_1:47898899-47899076:-|nuORF REV__ENST00000445551.1_1_1:47898899-47899076:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 595.2928466796875 2 595.290845 1188.56714 3.8047 0.0022649 -1.084 -0.00064528 2.7208 0.0016196 595.2906155160615 53.129 0.18524 53.794 53.731 53.916 0.6644 22 7 4 0 0 0 0.14906 1 24294 24294 33.445 5.8161 1 1675400 + 30360 16378 19424 19485 34255 34255 -0.01960403475027306 SFGVLACKSMF 11 Unmodified _SFGVLACKSMF_ 0 0 0 REV__ENST00000445551.1_1_1:47898899-47899076:-|nuORF REV__ENST00000445551.1_1_1:47898899-47899076:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.1972961425781 3 397.196322 1188.56714 2.7243 0.0010821 -0.61832 -0.0002456 2.106 0.0008365 397.19624087749713 53.119 0.23301 53.784 53.683 53.916 0.6644 24 9 4 0 0 0 0.52054 1 24302 24302 10.315 5.7864 1 2076300 + 30361 16378 19424 19485 34256 34256 -0.01960403475027306 SFGVLACKSMF 11 Unmodified _SFGVLACKSMF_ 0 0 0 REV__ENST00000445551.1_1_1:47898899-47899076:-|nuORF REV__ENST00000445551.1_1_1:47898899-47899076:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 595.290845 1188.56714 3.7314 0.0022213 -0.1642 -9.7747E-05 3.5672 0.0021235 595.2911339098263 53.655 0.21415 53.92 53.831 54.045 0.26462 0.063169 0.00063243 NaN 33.445 19 8 4 NaN NaN NaN NaN 0 NaN NaN 0 1383700 + 30362 16378 19424 19485 -0.01960403475027306 SFGVLACKSMF 11 Unmodified _SFGVLACKSMF_ 0 0 0 REV__ENST00000445551.1_1_1:47898899-47899076:-|nuORF REV__ENST00000445551.1_1_1:47898899-47899076:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 397.196322 1188.56714 3.0029 0.0011927 -0.84982 -0.00033754 2.1531 0.00085518 397.19620751087473 53.648 0.27361 53.913 53.797 54.07 0.26462 0.064503 -0.00013255 NaN 17.049 31 11 4 NaN NaN NaN NaN 0 NaN NaN 0 2483600 + 30363 16378 19424 19485 -0.01960403475027306 SFGVLACKSMF 11 Unmodified _SFGVLACKSMF_ 0 0 0 REV__ENST00000445551.1_1_1:47898899-47899076:-|nuORF REV__ENST00000445551.1_1_1:47898899-47899076:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 595.290845 1188.56714 3.8047 0.0022649 -1.084 -0.00064528 2.7208 0.0016196 595.2906155160615 53.129 0.18524 53.794 53.731 53.916 0.6644 -0.063169 -0.00046263 NaN 33.445 22 7 4 NaN NaN NaN NaN 0 NaN NaN 0 1675400 + 30364 16378 19424 19485 -0.01960403475027306 SFGVLACKSMF 11 Unmodified _SFGVLACKSMF_ 0 0 0 REV__ENST00000445551.1_1_1:47898899-47899076:-|nuORF REV__ENST00000445551.1_1_1:47898899-47899076:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 397.196322 1188.56714 2.7243 0.0010821 -0.61832 -0.0002456 2.106 0.0008365 397.19624087749713 53.119 0.23301 53.784 53.683 53.916 0.6644 -0.064503 0.0001433 NaN 17.049 24 9 4 NaN NaN NaN NaN 0 NaN NaN 0 2076300 + 30365 16378 19424 19485 -0.01960403475027306 SFHAFVYDL 9 Unmodified _SFHAFVYDL_ 0 0 0 REV__ENST00000503404.5_1_4:159156813-159174676:+|nuORF REV__ENST00000503404.5_1_4:159156813-159174676:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.2854614257812 2 549.766374 1097.5182 3.6727 0.0020191 -1.0189 -0.00056014 2.6538 0.001459 549.7658112102574 43.006 0.5317 43.655 43.421 43.953 0.64872 40 31 2 0 0 0 0.098886 1 19616 19616 12.532 0.89125 1 1149800 + 30366 13065 19425 19486 34257 34257 -0.026662324480867028 SFHNIHNTF 9 Unmodified _SFHNIHNTF_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3;ENST00000481952.1_1_10:124921781-124922345:+|nuORF ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 372.8465270996094 3 372.845557 1115.51484 2.9433 0.0010974 -0.15842 -5.9066E-05 2.7849 0.0010383 372.845482955673 26.78 0.2793 26.78 26.652 26.932 0 55 18 4 0 0 0 0.048676 1 12058 12058 37.075 22.117 1 2627100 30367 3825 19426 19487 34258 34258 -0.038294825021012 SFHNIHNTF 9 Unmodified _SFHNIHNTF_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3;ENST00000481952.1_1_10:124921781-124922345:+|nuORF ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.7666015625 2 558.764697 1115.51484 3.599 0.002011 0.22011 0.00012299 3.8191 0.002134 558.7647035990118 26.791 0.25208 26.791 26.679 26.932 0 40 16 3 0 0 0 2.9434E-05 1 12060 12060 140.63 98.794 1 1212900 30368 3825 19426 19487 34259 34259 -0.038294825021012 SFHNIHNTF 9 Unmodified _SFHNIHNTF_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3;ENST00000481952.1_1_10:124921781-124922345:+|nuORF ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 372.8465576171875 3 372.845557 1115.51484 2.2952 0.00085577 0.074083 2.7621E-05 2.3693 0.00088339 372.8455562463419 25.784 0.35747 26.547 26.365 26.722 0.76357 57 20 4 0 0 0 0.019364 2 11552 11552;11596 55.235 31.434 1 2281900 30369 3825 19426 19487 34260;34261 34260 -0.038294825021012 SFHNIHNTF 9 Unmodified _SFHNIHNTF_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3;ENST00000481952.1_1_10:124921781-124922345:+|nuORF ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.766357421875 2 558.764697 1115.51484 3.2002 0.0017881 0.42129 0.0002354 3.6215 0.0020235 558.7650044020851 25.801 0.25827 26.565 26.417 26.675 0.76357 34 14 3 0 0 0 9.5847E-09 1 11583 11583 155.95 116 1 828270 30370 3825 19426 19487 34262 34262 -0.038294825021012 SFHNIHNTF 9 Unmodified _SFHNIHNTF_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3;ENST00000481952.1_1_10:124921781-124922345:+|nuORF ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.7669067382812 2 558.764697 1115.51484 3.5504 0.0019838 0.346 0.00019333 3.8964 0.0021772 558.7648585180767 26.76 0.32453 27.024 26.851 27.176 0.26489 37 20 3 0 0 0 0.022157 2 12189 12140;12189 65.474 40.074 1 531340 30371 3825 19426 19487 34263;34264 34264 -0.038294825021012 SFHNIHNTF 9 Unmodified _SFHNIHNTF_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3;ENST00000481952.1_1_10:124921781-124922345:+|nuORF ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 372.84637451171875 3 372.845557 1115.51484 2.712 0.0010112 -0.070297 -2.621E-05 2.6417 0.00098495 372.8455047652425 26.747 0.34955 27.012 26.826 27.176 0.26489 51 22 3 0 0 0 0.048676 1 12150 12150 37.075 29.466 1 1223700 30372 3825 19426 19487 34265 34265 -0.038294825021012 SFHNIHNTF 9 Unmodified _SFHNIHNTF_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3;ENST00000481952.1_1_10:124921781-124922345:+|nuORF ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.7664184570312 2 558.764697 1115.51484 3.4295 0.0019163 0.30954 0.00017296 3.7391 0.0020893 558.7648532868105 26.369 0.24282 26.994 26.868 27.111 0.62505 31 12 3 0 0 0 0.0014285 1 12072 12072 110.79 70.835 1 779810 30373 3825 19426 19487 34266 34266 -0.038294825021012 SFHNIHNTF 9 Unmodified _SFHNIHNTF_ 0 0 0 ENSG00000154473|ENST00000368865|BUB3;nc|ENSG00000154473|O43684-2|BUB3;ENST00000481952.1_1_10:124921781-124922345:+|nuORF ENSG00000154473|ENST00000368865|BUB3 ENSG00000154473|ENST00000368865|BUB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 372.8464050292969 3 372.845557 1115.51484 2.5535 0.00095205 0.014036 5.2331E-06 2.5675 0.00095728 372.84553734097364 26.369 0.26251 26.994 26.868 27.131 0.62505 34 13 3 0 0 0 0.048676 1 12080 12080 43.982 33.083 1 1438800 30374 3825 19426 19487 34267 34267 -0.038294825021012 SFILHLAEDD 10 Unmodified _SFILHLAEDD_ 0 0 0 ENST00000462285.5_1_1:63919396-63919471:-|nuORF ENST00000462285.5_1_1:63919396-63919471:-|nuORF ENST00000462285.5_1_1:63919396-63919471:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 580.2848510742188 2 580.285128 1158.5557 NaN NaN NaN NaN NaN NaN NaN 99.133 1 99.199 98.699 99.699 0.066025 0 0 0 0.99464 1 53501 53501 6.2058 0 1 30375 8093 19427 19488 34268 34268 -0.017231859731509758 SFKKKFFYN 9 Unmodified _SFKKKFFYN_ 0 0 0 ENSG00000137200|ENST00000373451|CMTR1 ENSG00000137200|ENST00000373451|CMTR1 ENSG00000137200|ENST00000373451|CMTR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 403.55450439453125 3 403.553603 1207.63898 2.6376 0.0010644 0.14318 5.7781E-05 2.7808 0.0011222 403.5536598502691 15.087 0.40402 15.313 15.128 15.532 0.22622 97 52 2 0 0 0 1.0894 1 6669 6669 2.4985 0.063701 1 259720 30376 3003 19428 19489 34269 34269 0.043465952653832574 SFKRSIIVLF 10 Unmodified _SFKRSIIVLF_ 0 0 0 REV__ENST00000484843.1_1_4:106638770-106744253:+|nuORF REV__ENST00000484843.1_1_4:106638770-106744253:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 403.4848937988281 3 403.916653 1208.72813 2.6882 0.0010858 -1.4939 -0.00060341 1.1943 0.0004824 404.2498241467319 39.101 0.46244 39.101 38.834 39.297 0 22 17 2 0 0 0 0.12676 1 17780 17780 0.13989 0 1 550780 + 30377 12191 19429 19490 34270 34270 0.13211430224873766 SFKYTLLY 8 Unmodified _SFKYTLLY_ 0 0 0 REV__ENSG00000168152|ENST00000302236|THAP9 REV__ENSG00000168152|ENST00000302236|THAP9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.5246276855469 3 345.523421 1033.54843 NaN NaN NaN NaN NaN NaN NaN 28.097 1 28.097 27.597 28.597 0 0 0 0 0.967 1 12663 12663 5.7319 0 1 + 30378 13334 19430 19491 34271 34271 0.03300126217095567 SFLARRLDR 9 Unmodified _SFLARRLDR_ 0 0 0 REV__nc|ENSG00000134775|Q2V2M9-2|FHOD3 REV__nc|ENSG00000134775|Q2V2M9-2|FHOD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.332275390625 2 567.330539 1132.64652 3.738 0.0021207 -0.80606 -0.0004573 2.9319 0.0016634 567.329888988863 85.423 1.7358 86.089 85.344 87.08 0.66566 236 91 4 0 0 0 1.1154 1 39302 39302 2.0598 0 1 3198100 + 30379 11981 19431 19492 34272 34272 0.08550747585650242 SFLHYYLL 8 Unmodified _SFLHYYLL_ 0 0 0 REV__ENST00000475426.1_1_1:42898780-42901095:-|nuORF REV__ENST00000475426.1_1_1:42898780-42901095:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.7820434570312 2 528.28166 1054.54877 3.0893 0.001632 -1.2247 -0.00064701 1.8646 0.00098502 528.2812554461472 52.081 0.17951 52.081 52.006 52.185 0 16 9 2 0 0 0 0.5047 1 23849 23849 20.871 0 1 385830 + 30380 16642 19432 19493 34273 34273 0.023675459369314922 SFLVERLLHII 11 Unmodified _SFLVERLLHII_ 0 0 0 ENSG00000109805|ENST00000251496|NCAPG ENSG00000109805|ENST00000251496|NCAPG ENSG00000109805|ENST00000251496|NCAPG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 447.273681640625 3 447.274729 1338.80236 NaN NaN NaN NaN NaN NaN NaN 100.85 1 100.91 100.41 101.41 0.059723 0 0 0 1.0079 1 54753 54753 0.40827 0.32491 1 30381 1687 19433 19494 34274 34274 0.14650773316429877 SFLVRPKRRRR 11 Unmodified _SFLVRPKRRRR_ 0 0 0 REV__ENSG00000183072|ENST00000329198|NKX2-5 REV__ENSG00000183072|ENST00000329198|NKX2-5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 735.9703979492188 2 735.96566 1469.91677 NaN NaN NaN NaN NaN NaN NaN 79.319 1 79.639 79.139 80.139 0.31998 0 0 0 1.008 1 38742 38742 0.35063 0 1 + 30382 13915 19434 19495 34275 34275 0.20060520641709445 SFNILLPKYI 10 Unmodified _SFNILLPKYI_ 0 0 0 REV__ENSG00000118997|ENST00000312428|DNAH7 REV__ENSG00000118997|ENST00000312428|DNAH7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 604.2716064453125 2 604.357899 1206.70125 2.1525 0.0013009 0.92848 0.00056114 3.081 0.001862 604.3582708039182 100.63 0.53114 100.69 100.61 101.14 0.059723 35 27 2 0 0 0 0.9146 1 54775 54775 2.9952 1.151 1 5090900 + 30383 11487 19435 19496 34276 34276 0.10616321613701984 SFNILLPKYI 10 Unmodified _SFNILLPKYI_ 0 0 0 REV__ENSG00000118997|ENST00000312428|DNAH7 REV__ENSG00000118997|ENST00000312428|DNAH7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 604.3606567382812 2 604.357899 1206.70125 4.4826 0.0027091 -0.19806 -0.0001197 4.2845 0.0025894 604.3574696125917 100.61 0.5815 100.92 100.83 101.41 0.31412 59 19 4 0 0 0 0.93713 2 46672 46672;46738 1.4819 0.95714 1 7396800 + 30384 11487 19435 19496 34277;34278 34277 0.10616321613701984 SFNILLPKYI 10 Unmodified _SFNILLPKYI_ 0 0 0 REV__ENSG00000118997|ENST00000312428|DNAH7 REV__ENSG00000118997|ENST00000312428|DNAH7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 604.360107421875 2 604.357899 1206.70125 4.0117 0.0024245 -0.20792 -0.00012566 3.8038 0.0022988 604.3576048571407 100.53 0.60339 101.12 101 101.61 0.59716 61 20 4 0 0 0 0.93713 3 46515 46515;46579;46648 1.4819 0.95714 1 7285300 + 30385 11487 19435 19496 34279;34280;34281 34279 0.10616321613701984 SFNILLPKYI 10 Unmodified _SFNILLPKYI_ 0 0 0 REV__ENSG00000118997|ENST00000312428|DNAH7 REV__ENSG00000118997|ENST00000312428|DNAH7 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 604.357899 1206.70125 4.0117 0.0024245 -0.20792 -0.00012566 3.8038 0.0022988 604.3576048571407 100.53 0.60339 101.12 101 101.61 0.59716 0.2447 -0.00034225 NaN 2.9952 61 20 4 NaN NaN NaN NaN 0 NaN NaN 0 7285300 + 30386 11487 19435 19496 0.10616321613701984 SFQVILLEHII 11 Unmodified _SFQVILLEHII_ 0 0 0 ENSG00000129933|ENST00000262815|MAU2;ENST00000587938.7_1_19:19453454-19455783:+|nuORF ENSG00000129933|ENST00000262815|MAU2 ENSG00000129933|ENST00000262815|MAU2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.9293518066406 3 437.927218 1310.75982 2.9375 0.0012864 1.1236 0.00049207 4.0612 0.0017785 437.92751504301924 40.178 0.85854 40.178 39.653 40.512 0 86 34 3 0 0 0 0.89309 3 18107 18107;18170;18227 2.4348 0.18206 1 931650 30387 2567 19436 19497 34282;34283;34284 34282 0.11687378188184994 SFQVILLEHII 11 Unmodified _SFQVILLEHII_ 0 0 0 ENSG00000129933|ENST00000262815|MAU2;ENST00000587938.7_1_19:19453454-19455783:+|nuORF ENSG00000129933|ENST00000262815|MAU2 ENSG00000129933|ENST00000262815|MAU2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 438.26300048828125 3 437.927218 1310.75982 2.7971 0.0012249 1.0268 0.00044966 3.8239 0.0016746 437.9275896916548 39.072 0.99592 39.87 39.338 40.334 0.79762 100 47 3 0 0 0 0.83518 3 17676 17583;17628;17676 2.4348 1.4212 1 637470 30388 2567 19436 19497 34285;34286;34287 34287 0.11687378188184994 SFQVILLEHII 11 Unmodified _SFQVILLEHII_ 0 0 0 ENSG00000129933|ENST00000262815|MAU2;ENST00000587938.7_1_19:19453454-19455783:+|nuORF ENSG00000129933|ENST00000262815|MAU2 ENSG00000129933|ENST00000262815|MAU2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.928955078125 3 437.927218 1310.75982 2.9104 0.0012745 0.89231 0.00039077 3.8027 0.0016653 437.9274691272659 39.978 0.84368 40.245 39.451 40.295 0.26696 81 30 3 0 0 0 0.89309 4 17918 17918;17971;18031;18080 1.1098 0.096179 1 1004900 30389 2567 19436 19497 34288;34289;34290;34291 34288 0.11687378188184994 SFQVILLEHII 11 Unmodified _SFQVILLEHII_ 0 0 0 ENSG00000129933|ENST00000262815|MAU2;ENST00000587938.7_1_19:19453454-19455783:+|nuORF ENSG00000129933|ENST00000262815|MAU2 ENSG00000129933|ENST00000262815|MAU2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.92889404296875 3 437.927218 1310.75982 3.1766 0.0013911 0.68253 0.0002989 3.8591 0.00169 437.9273364909026 39.467 0.63309 40.104 39.617 40.25 0.63778 59 26 3 0 0 0 0.89309 2 17890 17890;17949 1.1098 0.096179 1 1399500 30390 2567 19436 19497 34292;34293 34292 0.11687378188184994 SFRAKHLIEA 10 Unmodified _SFRAKHLIEA_ 0 0 0 REV__ENSG00000104312|ENST00000220751|RIPK2 REV__ENSG00000104312|ENST00000220751|RIPK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 391.2260437011719 3 391.224257 1170.65094 NaN NaN NaN NaN NaN NaN NaN 81.421 1 81.589 81.089 82.089 0.16862 0 0 0 0.99812 1 40023 40023 1.5923 0.63001 1 + 30391 10987 19437 19498 34294 34294 0.07244212008549766 SFRKKYEL 8 Unmodified _SFRKKYEL_ 0 0 0 ENST00000542939.1_1_12:118576827-118582605:+|nuORF;ENSG00000089220|ENST00000261313|PEBP1 ENST00000542939.1_1_12:118576827-118582605:+|nuORF ENST00000542939.1_1_12:118576827-118582605:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.5389404296875 3 357.537953 1069.59203 2.6405 0.00094406 -0.37371 -0.00013361 2.2667 0.00081045 357.5378418446879 17.065 0.25275 17.065 16.826 17.079 0 41 24 2 0 0 0 0.52777 1 7564 7564 20.415 11.031 1 518360 30392 1040 19438 19499 34295 34295 0.06001735714221468 SFRKKYEL 8 Unmodified _SFRKKYEL_ 0 0 0 ENST00000542939.1_1_12:118576827-118582605:+|nuORF;ENSG00000089220|ENST00000261313|PEBP1 ENST00000542939.1_1_12:118576827-118582605:+|nuORF ENST00000542939.1_1_12:118576827-118582605:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.5386047363281 3 357.537953 1069.59203 2.3517 0.00084083 -0.10803 -3.8626E-05 2.2437 0.0008022 357.53779571225346 14.421 0.23927 14.728 14.593 14.833 0.3069 23 10 4 0 0 0 0.17473 1 6526 6526 38.615 15.957 1 2603000 30393 1040 19438 19499 34296 34296 0.06001735714221468 SFRKKYEL 8 Unmodified _SFRKKYEL_ 0 0 0 ENST00000542939.1_1_12:118576827-118582605:+|nuORF;ENSG00000089220|ENST00000261313|PEBP1 ENST00000542939.1_1_12:118576827-118582605:+|nuORF ENST00000542939.1_1_12:118576827-118582605:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.53857421875 3 357.537953 1069.59203 2.5927 0.00092699 0.25739 9.2026E-05 2.8501 0.001019 357.53805977545835 14.436 0.16367 15.084 14.993 15.156 0.6482 34 13 3 0 0 0 0.059272 2 6488 6488;6531 53.404 33.778 1 3206100 30394 1040 19438 19499 34297;34298 34297 0.06001735714221468 SFRKKYEL 8 Unmodified _SFRKKYEL_ 0 0 0 ENST00000542939.1_1_12:118576827-118582605:+|nuORF;ENSG00000089220|ENST00000261313|PEBP1 ENST00000542939.1_1_12:118576827-118582605:+|nuORF ENST00000542939.1_1_12:118576827-118582605:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.8064575195312 2 535.803291 1069.59203 3.3072 0.001772 0.60442 0.00032385 3.9116 0.0020958 535.8036303789621 14.442 0.099916 15.09 15.02 15.12 0.64819 12 7 2 0 0 0 0.31493 1 6506 6506 34.402 23.578 1 776820 30395 1040 19438 19499 34299 34299 0.06001735714221468 SFRLERHSNI 10 Unmodified _SFRLERHSNI_ 0 0 0 ENSG00000119703|ENST00000524913|ZC2HC1C ENSG00000119703|ENST00000524913|ZC2HC1C ENSG00000119703|ENST00000524913|ZC2HC1C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 629.8356323242188 2 629.836185 1257.65782 NaN NaN NaN NaN NaN NaN NaN 79.897 1 80.558 80.058 81.058 0.66082 0 0 0 1.0003 1 36815 36815 1.4819 0 1 30396 2159 19439 19500 34300 34300 0.039295248891448864 SFRLLFLF 8 Unmodified _SFRLLFLF_ 0 0 0 REV__nc|ENSG00000103932|Q9BWH6-2|RPAP1 REV__nc|ENSG00000103932|Q9BWH6-2|RPAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.8077392578125 2 521.807845 1041.60114 NaN NaN NaN NaN NaN NaN NaN 43.412 1 44.061 43.561 44.561 0.64872 0 0 0 0.99035 1 19891 19891 5.7604 0 1 + 30397 10979 19440 19501 34301 34301 0.08200129070542062 SFSASKIFI 9 Unmodified _SFSASKIFI_ 0 0 0 nc|ENSG00000145817|Q969M3-2|YIPF5;ENSG00000145817|ENST00000274496|YIPF5;nc|ENSG00000145817|Q969M3-3|YIPF5 nc|ENSG00000145817|Q969M3-2|YIPF5 nc|ENSG00000145817|Q969M3-2|YIPF5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.2558898925781 2 500.279118 998.543683 NaN NaN NaN NaN NaN NaN NaN 29.755 1 30.373 29.873 30.873 0.61789 0 0 0 0.89315 1 13645 13645 5.2307 2.3415 1 30398 3490 19441 19502 34302 34302 0.04435242074339385 SFSIMEFSL 9 Unmodified _SFSIMEFSL_ 0 0 0 TNIK|p.S574Mfs*23|1|0.18|ENSG00000154310|chr3:171128766-171128766|C/-|frameshift_variant TNIK|p.S574Mfs*23|1|0.18|ENSG00000154310|chr3:171128766-171128766|C/-|frameshift_variant TNIK|p.S574Mfs*23|1|0.18|ENSG00000154310|chr3:171128766-171128766|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.7582397460938 2 530.754618 1059.49468 3.1217 0.0016569 0.15572 8.2646E-05 3.2774 0.0017395 530.7539150916109 26.733 0.67828 27.512 27.419 28.097 0.7787 63 52 2 0 0 0 0.028312 1 12008 12008 57.471 0 1 2002100 30399 18279 19442 19503 34303 34303 -0.032684142769085156 SFSRDRFRSDR 11 Unmodified _SFSRDRFRSDR_ 0 0 0 REV__ENST00000555997.1_1_14:69256252-69257717:-|nuORF REV__ENST00000555997.1_1_14:69256252-69257717:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 714.8638916015625 2 714.85818 1427.70181 3.6734 0.002626 1.2474 0.00089173 4.9208 0.0035177 714.8595920350982 37.461 0.24907 38.257 38.136 38.385 0.79552 30 10 4 0 0 0 0.75723 1 17009 17009 8.7454 0.58988 1 1469000 + 30400 14026 19443 19504 34304 34304 0.005065093154371425 SFSRRRKHK 9 Unmodified _SFSRRRKHK_ 0 0 0 REV__ENSG00000139767|ENST00000267260|SRRM4 REV__ENSG00000139767|ENST00000267260|SRRM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 601.0228881835938 2 601.35488 1200.69521 NaN NaN NaN NaN NaN NaN NaN 9.2288 1 9.2288 8.7288 9.7288 0 0 0 0 0.91238 1 4165 4165 0.52476 0 1 + 30401 12220 19444 19505 34305 34305 0.1028866094541172 SFSSRDPYL 9 Unmodified _SFSSRDPYL_ 0 0 0 nc|ENSG00000088053|Q9HCN6-2|GP6;nc|ENSG00000088053|Q9HCN6|GP6;ENSG00000088053|ENST00000310373|GP6 nc|ENSG00000088053|Q9HCN6-2|GP6 nc|ENSG00000088053|Q9HCN6-2|GP6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.762451171875 2 536.258914 1070.50327 3.0115 0.0016149 0.44864 0.00024059 3.4601 0.0018555 536.7607394526426 36.59 0.24442 36.848 36.774 37.018 0.25768 14 8 2 0 0 0 0.54955 1 16690 16690 11.64 0 1 214070 30402 9571 19445 19506 34306 34306 -0.02915724316108026 SFSSRDPYL 9 Unmodified _SFSSRDPYL_ 0 0 0 nc|ENSG00000088053|Q9HCN6-2|GP6;nc|ENSG00000088053|Q9HCN6|GP6;ENSG00000088053|ENST00000310373|GP6 nc|ENSG00000088053|Q9HCN6-2|GP6 nc|ENSG00000088053|Q9HCN6-2|GP6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 536.258914 1070.50327 3.0453 0.0016331 0.31376 0.00016826 3.3591 0.0018013 536.259119908542 36.712 0.27143 36.712 36.593 36.865 0 -0.033713 0.00023499 NaN 11.64 15 12 2 NaN NaN NaN NaN 0 NaN NaN 0 190910 30403 9571 19445 19506 -0.02915724316108026 SFSSRDPYL 9 Unmodified _SFSSRDPYL_ 0 0 0 nc|ENSG00000088053|Q9HCN6-2|GP6;nc|ENSG00000088053|Q9HCN6|GP6;ENSG00000088053|ENST00000310373|GP6 nc|ENSG00000088053|Q9HCN6-2|GP6 nc|ENSG00000088053|Q9HCN6-2|GP6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 536.258914 1070.50327 3.3337 0.0017877 -0.8108 -0.0004348 2.5229 0.0013529 536.2588551614359 36.052 0.22779 36.678 36.567 36.794 0.62631 -0.067852 -0.00097113 NaN 11.64 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 283550 30404 9571 19445 19506 -0.02915724316108026 SFSTVHEKF 9 Unmodified _SFSTVHEKF_ 0 0 0 nc|ENSG00000134987|Q8NI36|WDR36;ENST00000505303.5_1_5:110428043-110447004:+|nuORF;ENSG00000134987|ENST00000513710|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 361.1828308105469 3 361.181946 1080.52401 2.8851 0.001042 0.059003 2.1311E-05 2.9441 0.0010633 361.1819821734908 27.878 0.22182 27.878 27.739 27.961 0 41 18 3 0 0 0 0.057945 1 12539 12539 40.725 20.144 1 1137800 30405 9654 19446 19507 34307 34307 -0.01303133936426093 SFSTVHEKF 9 Unmodified _SFSTVHEKF_ 0 0 0 nc|ENSG00000134987|Q8NI36|WDR36;ENST00000505303.5_1_5:110428043-110447004:+|nuORF;ENSG00000134987|ENST00000513710|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.2710571289062 2 541.269281 1080.52401 3.5903 0.0019433 0.31686 0.00017151 3.9071 0.0021148 541.2695681786881 27.867 0.18254 27.867 27.739 27.922 0 18 14 2 0 0 0 0.091193 1 12549 12549 34.932 14.478 1 348150 30406 9654 19446 19507 34308 34308 -0.01303133936426093 SFSTVHEKF 9 Unmodified _SFSTVHEKF_ 0 0 0 nc|ENSG00000134987|Q8NI36|WDR36;ENST00000505303.5_1_5:110428043-110447004:+|nuORF;ENSG00000134987|ENST00000513710|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 361.1830139160156 3 361.181946 1080.52401 2.4217 0.00087468 0.046165 1.6674E-05 2.4679 0.00089135 361.18202139394805 26.884 0.19725 27.663 27.572 27.769 0.7787 29 13 3 0 0 0 0.03963 1 12076 12076 47.732 23.931 1 1522000 30407 9654 19446 19507 34309 34309 -0.01303133936426093 SFSTVHEKF 9 Unmodified _SFSTVHEKF_ 0 0 0 nc|ENSG00000134987|Q8NI36|WDR36;ENST00000505303.5_1_5:110428043-110447004:+|nuORF;ENSG00000134987|ENST00000513710|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.2720947265625 2 541.269281 1080.52401 3.1571 0.0017088 0.51145 0.00027683 3.6685 0.0019857 541.2695901619562 27.79 0.22397 28.053 27.95 28.174 0.26245 20 13 2 0 0 0 0.17594 1 12631 12631 24.991 11.085 1 236340 30408 9654 19446 19507 34310 34310 -0.01303133936426093 SFSTVHEKF 9 Unmodified _SFSTVHEKF_ 0 0 0 nc|ENSG00000134987|Q8NI36|WDR36;ENST00000505303.5_1_5:110428043-110447004:+|nuORF;ENSG00000134987|ENST00000513710|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.2714233398438 2 541.269281 1080.52401 NaN NaN NaN NaN NaN NaN NaN 27.458 1 28.08 27.58 28.58 0.62179 0 0 0 0.13628 1 12589 12589 34.932 14.478 1 30409 9654 19446 19507 34311 34311 -0.01303133936426093 SFSTVHEKF 9 Unmodified _SFSTVHEKF_ 0 0 0 nc|ENSG00000134987|Q8NI36|WDR36;ENST00000505303.5_1_5:110428043-110447004:+|nuORF;ENSG00000134987|ENST00000513710|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 361.181946 1080.52401 2.4953 0.00090127 0.46025 0.00016623 2.9556 0.0010675 361.18214589189495 27.808 0.28428 28.071 27.933 28.217 0.26245 0.15287 0.00014434 NaN 47.732 42 16 3 NaN NaN NaN NaN 0 NaN NaN 0 692480 30410 9654 19446 19507 -0.01303133936426093 SFSTVHEKF 9 Unmodified _SFSTVHEKF_ 0 0 0 nc|ENSG00000134987|Q8NI36|WDR36;ENST00000505303.5_1_5:110428043-110447004:+|nuORF;ENSG00000134987|ENST00000513710|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 nc|ENSG00000134987|Q8NI36|WDR36 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 361.181946 1080.52401 2.4453 0.00088318 0.67292 0.00024305 3.1182 0.0011262 361.18221116851925 27.439 0.29232 28.06 27.908 28.201 0.62178 0.14235 0.00037478 NaN 47.732 36 20 2 NaN NaN NaN NaN 0 NaN NaN 0 824780 30411 9654 19446 19507 -0.01303133936426093 SFTKPKVIS 9 Unmodified _SFTKPKVIS_ 0 0 0 ENSG00000178338|ENST00000322434|ZNF354B ENSG00000178338|ENST00000322434|ZNF354B ENSG00000178338|ENST00000322434|ZNF354B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.1921081542969 3 336.20257 1005.58588 NaN NaN NaN NaN NaN NaN NaN 26.156 1 26.781 26.281 27.281 0.62505 0 0 0 0.91014 1 11993 11993 1.0715 0.61312 1 30412 5161 19447 19508 34312 34312 0.08331217482702868 SFTYMWDL 8 Unmodified _SFTYMWDL_ 0 0 0 REV__ENSG00000122557|ENST00000311350|HERPUD2 REV__ENSG00000122557|ENST00000311350|HERPUD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.7347412109375 2 531.733686 1061.45282 3.1039 0.0016504 -0.56437 -0.0003001 2.5395 0.0013504 531.7332286853726 48.292 0.31699 48.292 48.084 48.401 0 35 17 3 0 0 0 0.70146 1 22081 22081 5.7604 0 1 1451300 + 30413 11588 19448 19509 34313 34313 -0.07544969965465498 SFTYMWDL 8 Unmodified _SFTYMWDL_ 0 0 0 REV__ENSG00000122557|ENST00000311350|HERPUD2 REV__ENSG00000122557|ENST00000311350|HERPUD2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 531.733686 1061.45282 3.1039 0.0016504 -0.56437 -0.0003001 2.5395 0.0013504 531.7332286853726 48.292 0.31699 48.292 48.084 48.401 0 0.048538 0.00018196 NaN 5.7604 35 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1451300 + 30414 11588 19448 19509 -0.07544969965465498 SFTYMWDL 8 Unmodified _SFTYMWDL_ 0 0 0 REV__ENSG00000122557|ENST00000311350|HERPUD2 REV__ENSG00000122557|ENST00000311350|HERPUD2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 531.733686 1061.45282 3.2703 0.0017389 -0.85108 -0.00045255 2.4193 0.0012864 531.7333340206588 47.594 0.29004 48.248 48.09 48.38 0.65356 0.0045387 -0.00012294 NaN 5.7604 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 353420 + 30415 11588 19448 19509 -0.07544969965465498 SFVNGYAAF 9 Unmodified _SFVNGYAAF_ 0 0 0 REV__ENST00000505303.5_1_5:110428043-110447004:+|nuORF REV__ENST00000505303.5_1_5:110428043-110447004:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.7281188964844 2 488.232168 974.449782 3.1594 0.0015425 0.46653 0.00022777 3.6259 0.0017703 488.23241220976433 78.551 0.23861 79.213 79.083 79.322 0.66197 25 16 2 0 0 0 0.29781 1 36169 36169 16.942 3.4344 1 484870 + 30416 11992 19449 19510 34314 34314 -0.03846477027968831 SFVVKQEF 8 Unmodified _SFVVKQEF_ 0 0 0 REV__ENSG00000275023|ENST00000621332|MLLT6 REV__ENSG00000275023|ENST00000621332|MLLT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.264892578125 2 492.263468 982.512382 3.0624 0.0015075 0.4314 0.00021236 3.4938 0.0017199 492.26365888244686 49.697 0.26717 49.697 49.526 49.793 0 26 11 3 0 0 0 0.23923 1 22741 22741 39.957 5.8549 1 585510 + 30417 14732 19450 19511 34315 34315 0.02042669040235978 SFWDEPWC 8 Unmodified _SFWDEPWC_ 0 0 0 nc|ENSG00000196371|P22083-2|FUT4;ENSG00000196371|ENST00000358752|FUT4 nc|ENSG00000196371|P22083-2|FUT4 nc|ENSG00000196371|P22083-2|FUT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.211181640625 2 535.207835 1068.40112 2.857 0.0015291 1.5604 0.00083515 4.4175 0.0023643 535.7099481172248 62.986 0.18242 63.235 63.188 63.37 0.24965 18 10 2 0 0 0 0.70146 1 28863 28863 5.7604 0.52976 1 490110 30418 5740 19451 19512 34316 34316 -0.1303471365936275 SFWDEPWC 8 Unmodified _SFWDEPWC_ 0 0 0 nc|ENSG00000196371|P22083-2|FUT4;ENSG00000196371|ENST00000358752|FUT4 nc|ENSG00000196371|P22083-2|FUT4 nc|ENSG00000196371|P22083-2|FUT4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 535.207835 1068.40112 3.0278 0.0016205 1.7398 0.00093113 4.7675 0.0025516 535.2087449807237 62.479 0.15957 63.14 63.039 63.198 0.66008 -0.04788 4.2613E-05 NaN 5.7604 18 9 2 NaN NaN NaN NaN 0 NaN NaN 0 570900 30419 5740 19451 19512 -0.1303471365936275 SFYELKIQP 9 Unmodified _SFYELKIQP_ 0 0 0 REV__ENST00000358120.2_1_1:248261979-248262807:+|nuORF REV__ENST00000358120.2_1_1:248261979-248262807:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.0046997070312 2 562.802957 1123.59136 NaN NaN NaN NaN NaN NaN NaN 91.601 1 91.684 91.184 92.184 0.082848 0 0 0 0.86044 1 47517 47517 7.2892 0.56607 1 + 30420 15577 19452 19513 34317 34317 0.03450896274512161 SFYLLPFI 8 Unmodified _SFYLLPFI_ 0 0 0 nc|ENSG00000211672|A0A075B6K6|IGLV4-3 nc|ENSG00000211672|A0A075B6K6|IGLV4-3 nc|ENSG00000211672|A0A075B6K6|IGLV4-3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.28155517578125 2 500.281129 998.547705 NaN NaN NaN NaN NaN NaN NaN 45.485 1 46.311 45.811 46.811 0.82621 0 0 0 0.93233 1 20711 20711 10.183 0 1 30421 9820 19453 19514 34318 34318 0.04837331568035097 SFYVFAIF 8 Unmodified _SFYVFAIF_ 0 0 0 REV__nc|ENSG00000163312|Q8TDG4-5|HELQ REV__nc|ENSG00000163312|Q8TDG4-5|HELQ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.2579650878906 2 497.257654 992.500755 3.4074 0.0016943 0.43316 0.00021539 3.8405 0.0019097 497.2577458050487 93.357 0.24393 93.988 93.838 94.082 0.63115 21 12 2 0 0 0 0.73686 1 42962 42962 2.8892 0.31174 1 283700 + 30422 16343 19454 19515 34319 34319 0.00420472016912754 SFYWHSDW 8 Unmodified _SFYWHSDW_ 0 0 0 ENST00000397457.6_2_6:8015674-8015845:-|nuORF ENST00000397457.6_2_6:8015674-8015845:-|nuORF ENST00000397457.6_2_6:8015674-8015845:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.2316284179688 2 564.232699 1126.45084 NaN NaN NaN NaN NaN NaN NaN 89.239 1 89.239 88.739 89.739 0 0 0 0 0.99035 1 46553 46553 2.5775 0.27475 1 30423 7580 19455 19516 34320 34320 -0.10732262659030312 SGAPLDLAGAL 11 Unmodified _SGAPLDLAGAL_ 0 0 0 REV__ENSG00000165072|ENST00000377182|MAMDC2 REV__ENSG00000165072|ENST00000377182|MAMDC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.7730712890625 2 492.771657 983.528761 3.1589 0.0015566 -1.7539 -0.00086426 1.405 0.00069235 492.77046104831265 48.322 0.50442 49.149 49.001 49.505 0.82705 49 25 3 0 0 0 0.12301 2 22017 22017;22071 38.176 16.639 1 1612200 + 30424 13132 19456 19517 34321;34322 34321 0.036337502063247484 SGAPLDLAGAL 11 Unmodified _SGAPLDLAGAL_ 0 0 0 REV__ENSG00000165072|ENST00000377182|MAMDC2 REV__ENSG00000165072|ENST00000377182|MAMDC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.7734375 2 492.771657 983.528761 3.2853 0.0016189 0.017991 8.8657E-06 3.3033 0.0016277 492.7716542287256 49.156 0.31512 49.418 49.246 49.562 0.26146 26 11 3 0 0 0 0.12301 1 22503 22503 38.176 5.3899 1 1387200 + 30425 13132 19456 19517 34323 34323 0.036337502063247484 SGCCHSRRHH 10 Unmodified _SGCCHSRRHH_ 0 0 0 REV__ENST00000547992.5_1_12:58138858-58140853:+|nuORF REV__ENST00000547992.5_1_12:58138858-58140853:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.84002685546875 3 393.838414 1178.49341 NaN NaN NaN NaN NaN NaN NaN 4.96 1 5.5829 5.0829 6.0829 0.62294 0 0 0 1.002 1 2251 2251 0 0 1 + 30426 14943 19457 19518 34324 34324 -0.08869514074126528 SGCCHSRRHH 10 Unmodified _SGCCHSRRHH_ 0 0 0 REV__ENST00000547992.5_1_12:58138858-58140853:+|nuORF REV__ENST00000547992.5_1_12:58138858-58140853:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.84027099609375 3 393.838414 1178.49341 NaN NaN NaN NaN NaN NaN NaN 5.2018 1 5.8247 5.3247 6.3247 0.62294 0 0 0 1.002 1 2360 2360 0 0 1 + 30427 14943 19457 19518 34325 34325 -0.08869514074126528 SGCCHSRRHH 10 Unmodified _SGCCHSRRHH_ 0 0 0 REV__ENST00000547992.5_1_12:58138858-58140853:+|nuORF REV__ENST00000547992.5_1_12:58138858-58140853:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8398132324219 3 393.838414 1178.49341 NaN NaN NaN NaN NaN NaN NaN 5.3418 1 5.9647 5.4647 6.4647 0.62294 0 0 0 1.002 1 2424 2424 0 0 1 + 30428 14943 19457 19518 34326 34326 -0.08869514074126528 SGDACDFD 8 Unmodified _SGDACDFD_ 0 0 0 REV__ENSG00000168702|ENST00000389484|LRP1B REV__ENSG00000168702|ENST00000389484|LRP1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 830.2667846679688 1 829.266875 828.259598 3.6674 0.0030412 -1.348 -0.0011179 2.3193 0.0019234 829.2665842677004 15.89 0.3765 16.196 16.019 16.395 0.306 68 44 2 0 0 0 0.7471 2 7180 7180;7215 0.69038 0.69038 1 51187 + 30429 13361 19458 19519 34327;34328 34327 -0.1614013175250193 SGDCCCCS 8 Unmodified _SGDCCCCS_ 0 0 0 ENST00000404569.5_3_22:39905450-39907313:+|nuORF ENST00000404569.5_3_22:39905450-39907313:+|nuORF ENST00000404569.5_3_22:39905450-39907313:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 388.7506408691406 2 389.08716 776.159766 NaN NaN NaN NaN NaN NaN NaN 46.334 1 46.987 46.487 47.487 0.65219 0 0 0 0.99035 1 21223 21223 0 0 1 30430 7627 19459 19520 34329 34329 -0.23726731953956914 SGDDDSDED 9 Unmodified _SGDDDSDED_ 0 0 0 REV__nc|ENSG00000153827|Q14669-4|TRIP12 REV__nc|ENSG00000153827|Q14669-4|TRIP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 954.2850341796875 1 954.28067 953.273393 3.7011 0.0035319 -0.070051 -6.6849E-05 3.631 0.003465 954.2798850417366 37.933 0.38829 38.194 37.889 38.278 0.26083 15 12 2 0 0 0 1.2459 2 17209 17209;17263 0 0 1 308420 + 30431 12686 19460 19521 34330;34331 34330 -0.20511227510360186 SGDGAKKILI 10 Unmodified _SGDGAKKILI_ 0 0 0 REV__ENSG00000077549|ENST00000264202|CAPZB REV__ENSG00000077549|ENST00000264202|CAPZB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.5383605957031 3 334.537842 1000.5917 NaN NaN NaN NaN NaN NaN NaN 12.971 1 12.971 12.471 13.471 0 0 0 0 0.99776 1 5662 5662 3.5871 1.0886 1 + 30432 10559 19461 19522 34332 34332 0.09142315994392902 SGELKNGF 8 Unmodified _SGELKNGF_ 0 0 0 ENST00000490851.5_1_7:18832955-19035682:+|nuORF;ENST00000461159.6_1_7:18330122-18868840:+|nuORF;HDAC9|p.Y832Mfs*39|1|0.35|ENSG00000048052|chr7:18835500-18835500|T/-|frameshift_variant;nc|ENSG00000048052|Q9UKV0-4|HDAC9;nc|ENSG00000048052|Q9UKV0-2|HDAC9;HDAC9|p.G954Sfs*19|1|0.03|ENSG00000048052|chr7:18935873-18935874|-/TCTAACAT|frameshift_variant;nc|ENSG00000048052|Q9UKV0|HDAC9;nc|ENSG00000048052|Q9UKV0-6|HDAC9;nc|ENSG00000048052|Q9UKV0-5|HDAC9;ENSG00000048052|ENST00000686413|HDAC9 ENST00000490851.5_1_7:18832955-19035682:+|nuORF ENST00000490851.5_1_7:18832955-19035682:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 426.2181701660156 2 426.216517 850.418482 NaN NaN NaN NaN NaN NaN NaN 89.889 1 90.141 89.641 90.641 0.25137 0 0 0 0.99035 1 41338 41338 2.5775 0 1 30433 565 19462 19523 34333 34333 -0.012710500620414678 SGFFGGGG 8 Unmodified _SGFFGGGG_ 0 0 0 REV__ENSG00000182871|ENST00000651438|COL18A1 REV__ENSG00000182871|ENST00000651438|COL18A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.2942504882812 1 685.294016 684.28674 3.6403 0.0024947 1.0016 0.00068636 4.6418 0.003181 685.2945229151504 78.296 0.99384 78.549 77.945 78.939 0.25335 93 55 2 0 0 0 0.7471 1 35932 35932 0 0 1 925830 + 30434 13909 19463 19524 34334 34334 -0.06803235359120663 SGFFGGGG 8 Unmodified _SGFFGGGG_ 0 0 0 REV__ENSG00000182871|ENST00000651438|COL18A1 REV__ENSG00000182871|ENST00000651438|COL18A1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 685.294016 684.28674 3.6403 0.0024947 1.0016 0.00068636 4.6418 0.003181 685.2945229151504 78.296 0.99384 78.549 77.945 78.939 0.25335 -0.1747 0.00011619 NaN 0 93 55 2 NaN NaN NaN NaN 0 NaN NaN 0 925830 + 30435 13909 19463 19524 -0.06803235359120663 SGFFGGGG 8 Unmodified _SGFFGGGG_ 0 0 0 REV__ENSG00000182871|ENST00000651438|COL18A1 REV__ENSG00000182871|ENST00000651438|COL18A1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 685.294016 684.28674 3.8627 0.0026471 0.68211 0.00046745 4.5448 0.0031145 685.2945259949373 78.236 0.97287 78.898 78.268 79.241 0.66198 0.1747 -0.00010272 NaN 0 93 60 2 NaN NaN NaN NaN 0 NaN NaN 0 1244000 + 30436 13909 19463 19524 -0.06803235359120663 SGFYKNVV 8 Unmodified _SGFYKNVV_ 0 0 0 nc|ENSG00000140105|P23381-2|WARS1;SLC25A29-WARS|2|fusion;ENSG00000140105|ENST00000392882|WARS1 nc|ENSG00000140105|P23381-2|WARS1 nc|ENSG00000140105|P23381-2|WARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.24395751953125 2 457.242535 912.470518 2.8921 0.0013224 0.47166 0.00021566 3.3638 0.0015381 457.24267227501326 37.136 0.35213 37.397 37.189 37.541 0.26083 24 10 3 0 0 0 0.0089417 2 16895 16895;16950 111.29 62.941 1 1593500 30437 3182 19464 19525 34335;34336 34335 0.010781133517070884 SGFYKNVV 8 Unmodified _SGFYKNVV_ 0 0 0 nc|ENSG00000140105|P23381-2|WARS1;SLC25A29-WARS|2|fusion;ENSG00000140105|ENST00000392882|WARS1 nc|ENSG00000140105|P23381-2|WARS1 nc|ENSG00000140105|P23381-2|WARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.2440185546875 2 457.242535 912.470518 3.0603 0.0013993 0.58529 0.00026762 3.6456 0.0016669 457.2427153890721 36.456 0.34914 37.086 36.917 37.266 0.62999 32 12 3 0 0 0 0.010413 2 16687 16687;16737 96.285 47.939 1 1261200 30438 3182 19464 19525 34337;34338 34337 0.010781133517070884 SGGDGGGC 8 Unmodified _SGGDGGGC_ 0 0 0 REV__ENST00000451198.2_1_20:35249346-35249823:+|nuORF REV__ENST00000451198.2_1_20:35249346-35249823:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 609.1926879882812 1 609.193316 608.186039 3.5824 0.0021824 -0.11094 -6.7583E-05 3.4715 0.0021148 609.192760955142 64.842 0.33418 65.09 64.947 65.281 0.24803 28 18 2 0 0 0 0.7471 1 29759 29759 0 0 1 639320 + 30439 16412 19465 19526 34339 34339 -0.1337263540430058 SGGDGGGC 8 Unmodified _SGGDGGGC_ 0 0 0 REV__ENST00000451198.2_1_20:35249346-35249823:+|nuORF REV__ENST00000451198.2_1_20:35249346-35249823:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 609.193316 608.186039 3.5824 0.0021824 -0.11094 -6.7583E-05 3.4715 0.0021148 609.192760955142 64.842 0.33418 65.09 64.947 65.281 0.24803 0.012164 -0.00022836 NaN 0 28 18 2 NaN NaN NaN NaN 0 NaN NaN 0 639320 + 30440 16412 19465 19526 -0.1337263540430058 SGGGGGGCG 9 Unmodified _SGGGGGGCG_ 0 0 0 REV__ENSG00000156017|ENST00000376834|CARNMT1 REV__ENSG00000156017|ENST00000376834|CARNMT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 607.9198608398438 1 608.2093 607.202024 4.0795 0.0024812 -0.6846 -0.00041638 3.3949 0.0020648 608.2106971006581 91.817 0.66768 92.07 91.787 92.454 0.25253 45 33 2 0 0 0 1.2459 1 42274 42274 0 0 1 265250 + 30441 12759 19466 19527 34340 34340 -0.11728929167406932 SGGGGGGCG 9 Unmodified _SGGGGGGCG_ 0 0 0 REV__ENSG00000156017|ENST00000376834|CARNMT1 REV__ENSG00000156017|ENST00000376834|CARNMT1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 607.8037719726562 1 608.2093 607.202024 3.704 0.0022528 -1.5014 -0.00091314 2.2026 0.0013397 608.2104979050549 40.114 0.066978 40.381 40.337 40.404 0.26696 4 2 2 0 0 0 0.11443 1 18247 18247 0 0 1 210470 + 30442 12759 19466 19527 34341 34341 -0.11728929167406932 SGGGGGGCG 9 Unmodified _SGGGGGGCG_ 0 0 0 REV__ENSG00000156017|ENST00000376834|CARNMT1 REV__ENSG00000156017|ENST00000376834|CARNMT1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 608.2093 607.202024 4.0795 0.0024812 -0.6846 -0.00041638 3.3949 0.0020648 608.2106971006581 91.817 0.66768 92.07 91.787 92.454 0.25253 0 0 NaN 0 45 33 2 NaN NaN NaN NaN 0 NaN NaN 0 265250 + 30443 12759 19466 19527 -0.11728929167406932 SGGGGGGCG 9 Unmodified _SGGGGGGCG_ 0 0 0 REV__ENSG00000156017|ENST00000376834|CARNMT1 REV__ENSG00000156017|ENST00000376834|CARNMT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 608.2093 607.202024 3.861 0.0023483 0.16552 0.00010067 4.0265 0.002449 608.2100158661175 39.658 0.28698 40.296 40.217 40.504 0.63778 -0.042551 0.0001504 NaN 0 12 12 2 NaN NaN NaN NaN 0 NaN NaN 0 392670 + 30444 12759 19466 19527 -0.11728929167406932 SGGSSRNS 8 Unmodified _SGGSSRNS_ 0 0 0 ENST00000600328.7_1_19:18376706-18377168:-|nuORF ENST00000600328.7_1_19:18376706-18377168:-|nuORF ENST00000600328.7_1_19:18376706-18377168:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.1710510253906 2 376.170099 750.325644 2.4429 0.00091895 0.26471 9.9577E-05 2.7076 0.0010185 376.17016064458886 48.482 0.4546 49.309 49.089 49.544 0.82705 34 23 2 0 0 0 0.74071 2 22062 22062;22115 2.5775 0 1 881020 30445 9294 19467 19528 34342;34343 34342 -0.059505547954131544 SGGSSRNS 8 Unmodified _SGGSSRNS_ 0 0 0 ENST00000600328.7_1_19:18376706-18377168:-|nuORF ENST00000600328.7_1_19:18376706-18377168:-|nuORF ENST00000600328.7_1_19:18376706-18377168:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.1712646484375 2 376.170099 750.325644 2.8338 0.001066 0.040529 1.5246E-05 2.8744 0.0010812 376.17018094480676 49.303 0.54133 49.564 49.298 49.839 0.26146 42 19 3 0 0 0 0.74071 1 22534 22534 2.5775 0 1 1456800 30446 9294 19467 19528 34344 34344 -0.059505547954131544 SGHVSLCWRP 10 Unmodified _SGHVSLCWRP_ 0 0 0 ENSG00000188263|ENST00000695950|IL17REL;nc|ENSG00000188263|Q6ZVW7-2|IL17REL ENSG00000188263|ENST00000695950|IL17REL ENSG00000188263|ENST00000695950|IL17REL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.19146728515625 3 381.190559 1140.54985 NaN NaN NaN NaN NaN NaN NaN 84.549 1 85.214 84.714 85.714 0.66566 0 0 0 1.0001 1 38943 38943 0.69767 0 1 30447 5661 19468 19529 34345 34345 -0.014805629657985264 SGIIWKFHRPL 11 Unmodified _SGIIWKFHRPL_ 0 0 0 REV__nc|ENSG00000127311|Q8NG08-2|HELB REV__nc|ENSG00000127311|Q8NG08-2|HELB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 677.4004516601562 2 677.393139 1352.77173 NaN NaN NaN NaN NaN NaN NaN 95.324 1 95.938 95.438 96.438 0.6136 0 0 0 1.0079 1 43838 43838 1.1933 0.84271 1 + 30448 11734 19469 19530 34346 34346 0.10945039722014371 SGIYPSKSI 9 Unmodified _SGIYPSKSI_ 0 0 0 REV__ENST00000285667.3_1_21:15744094-15744136:-|nuORF REV__ENST00000285667.3_1_21:15744094-15744136:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 317.8433837890625 3 317.843042 950.507297 2.1133 0.00067169 0.0023791 7.5619E-07 2.1156 0.00067244 317.8430039027011 17.387 0.15678 17.588 17.499 17.656 0.20057 23 13 2 0 0 0 0.30982 1 7674 7674 16.149 2.2431 1 281830 + 30449 15107 19470 19531 34347 34347 0.030063651776117695 SGKKVNLQL 9 Unmodified _SGKKVNLQL_ 0 0 0 REV__ENSG00000156162|ENST00000414645|DPY19L4 REV__ENSG00000156162|ENST00000414645|DPY19L4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 329.53985595703125 3 329.537953 985.59203 2.0723 0.00068289 -0.12009 -3.9575E-05 1.9522 0.00064331 329.53795595949083 13.456 0.20215 13.699 13.589 13.791 0.24346 42 20 3 0 0 0 0.33646 1 5867 5867 15.248 0.8431 1 936540 + 30450 12765 19471 19532 34348 34348 0.09865735714231505 SGKLKLSL 8 Unmodified _SGKLKLSL_ 0 0 0 nc|ENSG00000171566|O43660-2|PLRG1;ENSG00000171566|ENST00000499023|PLRG1 nc|ENSG00000171566|O43660-2|PLRG1 nc|ENSG00000171566|O43660-2|PLRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 423.2777099609375 2 423.276378 844.538203 2.7461 0.0011623 0.48687 0.00020608 3.2329 0.0013684 423.27644399986053 36.055 0.21165 36.055 35.955 36.167 0 17 13 2 0 0 0 0.057323 1 16366 16366 63.227 7.7248 1 415970 30451 4815 19472 19533 34349 34349 0.10971563282521402 SGKLKLSL 8 Unmodified _SGKLKLSL_ 0 0 0 nc|ENSG00000171566|O43660-2|PLRG1;ENSG00000171566|ENST00000499023|PLRG1 nc|ENSG00000171566|O43660-2|PLRG1 nc|ENSG00000171566|O43660-2|PLRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 423.2774353027344 2 423.276378 844.538203 2.7595 0.001168 0.0624 2.6413E-05 2.8219 0.0011944 423.2764219297512 35.177 0.17591 35.968 35.805 35.981 0.79131 15 9 2 0 0 0 0.33696 1 15903 15903 32.786 0 1 342170 30452 4815 19472 19533 34350 34350 0.10971563282521402 SGKLKLSL 8 Unmodified _SGKLKLSL_ 0 0 0 nc|ENSG00000171566|O43660-2|PLRG1;ENSG00000171566|ENST00000499023|PLRG1 nc|ENSG00000171566|O43660-2|PLRG1 nc|ENSG00000171566|O43660-2|PLRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.2769470214844 2 423.276378 844.538203 2.8998 0.0012274 -0.49106 -0.00020786 2.4087 0.0010195 423.2761589496305 35.947 0.36197 36.205 35.968 36.33 0.25768 28 16 2 0 0 0 0.036418 2 16332 16332;16379 71.708 7.7474 1 503190 30453 4815 19472 19533 34351;34352 34351 0.10971563282521402 SGKLKLSL 8 Unmodified _SGKLKLSL_ 0 0 0 nc|ENSG00000171566|O43660-2|PLRG1;ENSG00000171566|ENST00000499023|PLRG1 nc|ENSG00000171566|O43660-2|PLRG1 nc|ENSG00000171566|O43660-2|PLRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 423.27789306640625 2 423.276378 844.538203 3.0834 0.0013051 0.4654 0.00019699 3.5488 0.0015021 423.2765562298856 35.421 0.29706 36.048 35.87 36.167 0.62631 15 8 2 0 0 0 0.010185 1 16233 16233 96.936 10.604 1 581370 30454 4815 19472 19533 34353 34353 0.10971563282521402 SGKRRKKRRHR 11 Unmodified _SGKRRKKRRHR_ 0 0 0 nc|ENSG00000067066|P23497-3|SP100;nc|ENSG00000067066|P23497|SP100;ENSG00000067066|ENST00000340126|SP100 nc|ENSG00000067066|P23497-3|SP100 nc|ENSG00000067066|P23497-3|SP100 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 732.9642333984375 2 732.963983 1463.91341 NaN NaN NaN NaN NaN NaN NaN 104.16 1 104.16 103.66 104.66 0 0 0 0 1.0082 1 57344 57344 0 0 1 30455 719 19473 19534 34354 34354 0.2000127058772705 SGKSEPPSRST 11 Unmodified _SGKSEPPSRST_ 0 0 0 REV__nc|ENSG00000188596|Q96N23-2|CFAP54 REV__nc|ENSG00000188596|Q96N23-2|CFAP54 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 378.22540283203125 3 378.191282 1131.55202 NaN NaN NaN NaN NaN NaN NaN 103 1 103 102.5 103.5 0 0 0 0 1.0073 1 56809 56809 0.40827 0 1 + 30456 14152 19474 19535 34355 34355 -0.008498557469920343 SGLAGLLFLAL 11 Unmodified _SGLAGLLFLAL_ 0 0 0 nc|ENSG00000169884|O00744-2|WNT10B;ENSG00000169884|ENST00000301061|WNT10B nc|ENSG00000169884|O00744-2|WNT10B nc|ENSG00000169884|O00744-2|WNT10B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.8324584960938 2 537.831517 1073.64848 3.233 0.0017388 0.00833 4.4802E-06 3.2413 0.0017433 537.8313359668786 67.637 0.26111 68.295 68.135 68.397 0.65777 30 17 3 0 0 0 0.070445 1 30977 30977 47.749 5.9091 1 862120 30457 4718 19475 19536 34356 34356 0.11460363550872898 SGLAGLLFLAL 11 Unmodified _SGLAGLLFLAL_ 0 0 0 nc|ENSG00000169884|O00744-2|WNT10B;ENSG00000169884|ENST00000301061|WNT10B nc|ENSG00000169884|O00744-2|WNT10B nc|ENSG00000169884|O00744-2|WNT10B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 537.831517 1073.64848 3.3411 0.0017969 -0.20979 -0.00011283 3.1313 0.0016841 537.8314003354982 68.15 0.2556 68.402 68.299 68.555 0.25227 0.053858 -0.00012647 NaN 47.749 39 18 3 NaN NaN NaN NaN 0 NaN NaN 0 757810 30458 4718 19475 19536 0.11460363550872898 SGLIVVVLKVV 11 Unmodified _SGLIVVVLKVV_ 0 0 0 nc|ENSG00000258227|Q9NY25-2|CLEC5A;ENSG00000258227|ENST00000546910|CLEC5A nc|ENSG00000258227|Q9NY25-2|CLEC5A nc|ENSG00000258227|Q9NY25-2|CLEC5A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.231201171875 2 563.383917 1124.75328 NaN NaN NaN NaN NaN NaN NaN 84.031 1 84.694 84.194 85.194 0.66219 0 0 0 1.0073 1 38706 38706 1.1933 0.66858 1 30459 6297 19476 19537 34357 34357 0.19589485027449882 SGMARKGP 8 Unmodified _SGMARKGP_ 0 0 0 ENSG00000139797|ENST00000267291|RNF113B ENSG00000139797|ENST00000267291|RNF113B ENSG00000139797|ENST00000267291|RNF113B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 402.21435546875 2 402.213255 802.411957 NaN NaN NaN NaN NaN NaN NaN 69.585 1 70.245 69.745 70.745 0.66071 0 0 0 0.99035 1 31902 31902 2.5775 0 1 30460 3167 19477 19538 34358 34358 0.0028473350558897437 SGMVKQVAL 9 Unmodified _SGMVKQVAL_ 0 0 0 ENSG00000104331|ENST00000262644|BPNT2 ENSG00000104331|ENST00000262644|BPNT2 ENSG00000104331|ENST00000262644|BPNT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.7669677734375 2 466.76532 931.516088 2.7204 0.0012698 1.0599 0.00049473 3.7803 0.0017645 466.76546271654115 37.965 0.2127 38.226 38.123 38.336 0.26083 10 6 2 0 0 0 0.063112 1 17295 17295 41.956 12.874 1 426680 30461 1432 19478 19539 34359 34359 0.04759015542447287 SGMVKQVAL 9 Unmodified _SGMVKQVAL_ 0 0 0 ENSG00000104331|ENST00000262644|BPNT2 ENSG00000104331|ENST00000262644|BPNT2 ENSG00000104331|ENST00000262644|BPNT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.7662658691406 2 466.76532 931.516088 2.7982 0.0013061 0.64728 0.00030213 3.4455 0.0016082 466.7656263253536 37.373 0.16534 38.003 37.889 38.054 0.62999 9 5 2 0 0 0 0.057945 1 17115 17115 43.772 14.691 1 367090 30462 1432 19478 19539 34360 34360 0.04759015542447287 SGNRSKPT 8 Unmodified _SGNRSKPT_ 0 0 0 REV__nc|ENSG00000126970|Q9NQZ6-4|ZC4H2 REV__nc|ENSG00000126970|Q9NQZ6-4|ZC4H2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 846.445068359375 1 846.442806 845.435529 2.3522 0.001991 0.1751 0.00014821 2.5273 0.0021392 846.4428276190996 104.13 0.082901 104.19 104.14 104.23 0.052986 21 7 4 0 0 0 0.71384 1 56397 56397 4.756 2.4533 1 71821000 + 30463 17922 19479 19540 34361 34361 0.006628705437492499 SGNRSKPT 8 Unmodified _SGNRSKPT_ 0 0 0 REV__nc|ENSG00000126970|Q9NQZ6-4|ZC4H2 REV__nc|ENSG00000126970|Q9NQZ6-4|ZC4H2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 846.4434204101562 1 846.442806 845.435529 4.7299 0.0040036 -1.0981 -0.00092951 3.6318 0.0030741 846.4417025070876 104.15 0.06987 104.47 104.43 104.5 0.31863 29 7 5 0 0 0 0.71384 1 48118 48118 4.756 2.4533 1 150910000 + 30464 17922 19479 19540 34362 34362 0.006628705437492499 SGNRSKPT 8 Unmodified _SGNRSKPT_ 0 0 0 REV__nc|ENSG00000126970|Q9NQZ6-4|ZC4H2 REV__nc|ENSG00000126970|Q9NQZ6-4|ZC4H2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 846.442806 845.435529 2.3522 0.001991 0.1751 0.00014821 2.5273 0.0021392 846.4428276190996 104.13 0.082901 104.19 104.14 104.23 0.052986 -0.26749 0.00079345 NaN 4.756 21 7 4 NaN NaN NaN NaN 0 NaN NaN 0 71821000 + 30465 17922 19479 19540 0.006628705437492499 SGNRSKPT 8 Unmodified _SGNRSKPT_ 0 0 0 REV__nc|ENSG00000126970|Q9NQZ6-4|ZC4H2 REV__nc|ENSG00000126970|Q9NQZ6-4|ZC4H2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 846.442806 845.435529 4.7299 0.0040036 -1.0981 -0.00092951 3.6318 0.0030741 846.4417025070876 104.15 0.06987 104.47 104.43 104.5 0.31863 0.014888 -0.00028427 NaN 4.756 29 7 5 NaN NaN NaN NaN 0 NaN NaN 0 150910000 + 30466 17922 19479 19540 0.006628705437492499 SGNRSKPT 8 Unmodified _SGNRSKPT_ 0 0 0 REV__nc|ENSG00000126970|Q9NQZ6-4|ZC4H2 REV__nc|ENSG00000126970|Q9NQZ6-4|ZC4H2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 846.442806 845.435529 4.1592 0.0035205 -1.0148 -0.00085893 3.1444 0.0026616 846.4417623899001 104.11 0.055374 104.71 104.67 104.73 0.59885 0.25261 -0.00021369 NaN 4.756 34 8 5 NaN NaN NaN NaN 0 NaN NaN 0 96654000 + 30467 17922 19479 19540 0.006628705437492499 SGPLGPLK 8 Unmodified _SGPLGPLK_ 0 0 0 ENSG00000174469|ENST00000361727|CNTNAP2 ENSG00000174469|ENST00000361727|CNTNAP2 ENSG00000174469|ENST00000361727|CNTNAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 384.7373962402344 2 384.734346 767.454139 NaN NaN NaN NaN NaN NaN NaN 56.734 1 56.998 56.498 57.498 0.26444 0 0 0 0.99035 1 25958 25958 2.5775 0 1 30468 4980 19480 19541 34363 34363 0.0611103218561766 SGQGRTTTA 9 Unmodified _SGQGRTTTA_ 0 0 0 ENSG00000107719|ENST00000263563|PALD1 ENSG00000107719|ENST00000263563|PALD1 ENSG00000107719|ENST00000263563|PALD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 878.4363403320312 1 878.432635 877.425358 4.7507 0.0041731 -1.0806 -0.00094923 3.6701 0.0032239 878.431778053201 104.11 0.032654 104.43 104.41 104.44 0.31863 7 5 2 0 0 0 1.2459 1 48108 48108 0 0 1 491700 30469 1606 19481 19542 34364 34364 -0.01825737181502518 SGRALRLR 8 Unmodified _SGRALRLR_ 0 0 0 ENST00000599109.5_1_19:58861526-58863787:-|nuORF;nc|ENSG00000121410|P04217-2|A1BG;ENSG00000121410|ENST00000263100|A1BG ENST00000599109.5_1_19:58861526-58863787:-|nuORF ENST00000599109.5_1_19:58861526-58863787:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.79229736328125 2 464.793592 927.572632 NaN NaN NaN NaN NaN NaN NaN 28.243 1 28.863 28.363 29.363 0.61947 0 0 0 0.99035 1 12951 12951 2.0598 0 1 30470 2228 19482 19543 34365 34365 0.10594824213967513 SGRCCPFCCCC 11 Unmodified _SGRCCPFCCCC_ 0 0 0 REV__nc|ENSG00000188877|Q6S8J7-2|POTEA REV__nc|ENSG00000188877|Q6S8J7-2|POTEA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.0308227539062 2 591.178003 1180.34145 NaN NaN NaN NaN NaN NaN NaN 44.473 1 45.294 44.794 45.794 0.82075 0 0 0 1.0082 1 20252 20252 0 0 1 + 30471 18086 19483 19544 34366 34366 -0.24150458524218266 SGSKLPSVLMI 11 Unmodified _SGSKLPSVLMI_ 0 0 0 REV__ENST00000451750.5_1_19:15783919-15791491:+|nuORF REV__ENST00000451750.5_1_19:15783919-15791491:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.88690185546875 3 377.886253 1130.63693 NaN NaN NaN NaN NaN NaN NaN 20.556 1 21.209 20.709 21.709 0.65346 0 0 0 0.96775 1 9335 9335 9.7643 2.7272 1 + 30472 16415 19484 19545 34367 34367 0.07683798465245673 SGSKLPSVLMI 11 Unmodified _SGSKLPSVLMI_ 0 0 0 REV__ENST00000451750.5_1_19:15783919-15791491:+|nuORF REV__ENST00000451750.5_1_19:15783919-15791491:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.8868408203125 3 377.886253 1130.63693 NaN NaN NaN NaN NaN NaN NaN 20.653 1 21.307 20.807 21.807 0.65346 0 0 0 1.0048 1 9381 9381 4.4062 0.52982 1 + 30473 16415 19484 19545 34368 34368 0.07683798465245673 SGYAGKISQMP 11 Unmodified _SGYAGKISQMP_ 0 0 0 ENSG00000163655|ENST00000496455|GMPS;nc|ENSG00000163655|P49915-2|GMPS;ENST00000514075.2_1_4:8176279-8176723:+|nuORF ENSG00000163655|ENST00000496455|GMPS ENSG00000163655|ENST00000496455|GMPS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.785888671875 2 569.781699 1137.54884 3.5158 0.0020033 0.11915 6.7891E-05 3.635 0.0020711 569.782463866062 45.829 0.87866 46.655 46.256 47.135 0.82621 60 28 3 0 0 0 0.44818 1 20975 20975 20.415 1.1575 1 4824200 30474 4238 19485 19546 34369 34369 -0.014428221253865559 SGYDSDDDDEM 11 Unmodified _SGYDSDDDDEM_ 0 0 0 REV__nc|ENSG00000069275|Q9H1E3-2|NUCKS1 REV__nc|ENSG00000069275|Q9H1E3-2|NUCKS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 624.6985473632812 2 624.69588 1247.37721 NaN NaN NaN NaN NaN NaN NaN 73.368 1 74.031 73.531 74.531 0.66398 0 0 0 1.0072 1 33714 33714 1.3295 0.80477 1 + 30475 10469 19486 19547 34370 34370 -0.2365868846502508 SGYNEQSDMMR 11 Unmodified _SGYNEQSDMMR_ 0 0 0 REV__nc|ENSG00000124151|Q9Y6Q9-2|NCOA3 REV__nc|ENSG00000124151|Q9Y6Q9-2|NCOA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 439.84478759765625 3 439.844788 1316.51254 NaN NaN NaN NaN NaN NaN NaN 15.068 1 15.375 14.875 15.875 0.3069 0 0 0 1.008 1 6811 6811 0.094841 0 1 + 30476 11637 19487 19548 34371 34371 -0.13306067084386086 SHALIKSLF 9 Unmodified _SHALIKSLF_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B;ENST00000494129.1_1_2:192246088-192252282:+|nuORF nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.3044738769531 2 508.300384 1014.58622 3.1961 0.0016246 2.2631 0.0011503 5.4592 0.0027749 508.3016052321987 49.468 0.49921 50.29 49.947 50.446 0.82285 57 25 3 0 0 0 0.084899 1 22489 22489 36.506 10.165 1 545160 30477 2521 19488 19549 34372 34372 0.07950637202566213 SHDHILTYHG 10 Unmodified _SHDHILTYHG_ 0 0 0 REV__ENSG00000087263|ENST00000566157|OGFOD1 REV__ENSG00000087263|ENST00000566157|OGFOD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.94287109375 2 590.280712 1178.54687 NaN NaN NaN NaN NaN NaN NaN 104.47 1 104.79 104.29 105.29 0.31863 0 0 0 1.0001 1 48242 48242 1.6526 0.17072 1 + 30478 10667 19489 19550 34373 34373 -0.03526114818964743 SHDPCGCC 8 Unmodified _SHDPCGCC_ 0 0 0 ENSG00000170464|ENST00000302060|DNAJC18 ENSG00000170464|ENST00000302060|DNAJC18 ENSG00000170464|ENST00000302060|DNAJC18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 821.278564453125 1 821.237505 820.230229 3.3917 0.0027854 2.243 0.001842 5.6346 0.0046274 821.2426368638698 100.03 0.064682 100.03 99.984 100.05 0 5 4 2 0 0 0 0.7471 1 55119 55119 0 0 1 4333300 30479 4749 19490 19551 34374 34374 -0.1870769057399002 SHDVYDRLT 9 Unmodified _SHDVYDRLT_ 0 0 0 REV__nc|ENSG00000156469|Q96E29-3|MTERF3 REV__nc|ENSG00000156469|Q96E29-3|MTERF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 369.18072509765625 3 369.180605 1104.51999 2.294 0.00084689 -0.3875 -0.00014306 1.9065 0.00070383 369.18041559865077 13.876 0.33209 14.119 14.049 14.381 0.24346 66 35 3 0 0 0 0.38625 1 6084 6084 14.405 4.2548 1 1481500 + 30480 12775 19491 19552 34375 34375 -0.028092234301539065 SHDVYDRLT 9 Unmodified _SHDVYDRLT_ 0 0 0 REV__nc|ENSG00000156469|Q96E29-3|MTERF3 REV__nc|ENSG00000156469|Q96E29-3|MTERF3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 369.180605 1104.51999 2.7452 0.0010135 0.19028 7.0247E-05 2.9355 0.0010837 369.1806725845031 14.246 0.25004 14.246 14.189 14.439 0 0.026983 0.00044581 NaN 14.405 52 17 4 NaN NaN NaN NaN 0 NaN NaN 0 2827400 + 30481 12775 19491 19552 -0.028092234301539065 SHDVYDRLT 9 Unmodified _SHDVYDRLT_ 0 0 0 REV__nc|ENSG00000156469|Q96E29-3|MTERF3 REV__nc|ENSG00000156469|Q96E29-3|MTERF3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 369.180605 1104.51999 2.294 0.00084689 -0.3875 -0.00014306 1.9065 0.00070383 369.18041559865077 13.876 0.33209 14.119 14.049 14.381 0.24346 -0.10002 -0.0001941 NaN 14.405 66 35 3 NaN NaN NaN NaN 0 NaN NaN 0 1481500 + 30482 12775 19491 19552 -0.028092234301539065 SHFASCYD 8 Unmodified _SHFASCYD_ 0 0 0 REV__ENSG00000143512|ENST00000343410|HHIPL2 REV__ENSG00000143512|ENST00000343410|HHIPL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.176513671875 2 465.176535 928.338517 NaN NaN NaN NaN NaN NaN NaN 34.597 1 35.22 34.72 35.72 0.62294 0 0 0 0.99035 1 15848 15848 2.5775 0 1 + 30483 12372 19492 19553 34376 34376 -0.12851859727550163 SHGKITEEVV 10 Unmodified _SHGKITEEVV_ 0 0 0 REV__CDKAL1|p.M405Nfs*39|1|0.1|ENSG00000145996|chr6:21065205-21065206|-/ACAATACCTTACAAGAAAAAGATCTTACCACTTGTGC|frameshift_variant REV__CDKAL1|p.M405Nfs*39|1|0.1|ENSG00000145996|chr6:21065205-21065206|-/ACAATACCTTACAAGAAAAAGATCTTACCACTTGTGC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.8645935058594 3 366.864506 1097.57169 NaN NaN NaN NaN NaN NaN NaN 41.223 1 41.223 40.723 41.723 0 0 0 0 0.92988 1 18728 18728 16.566 0.41677 1 + 30484 9999 19493 19554 34377 34377 0.02680520263766084 SHHIHELD 8 Unmodified _SHHIHELD_ 0 0 0 REV__nc|ENSG00000156414|Q8NDG6-2|TDRD9 REV__nc|ENSG00000156414|Q8NDG6-2|TDRD9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 329.8271484375 3 329.826274 986.456993 2.6307 0.00086767 0.33806 0.0001115 2.9688 0.00097917 329.82631874444377 12.364 0.03614 13.002 12.978 13.014 0.63746 6 2 3 0 0 0 0.62895 1 5536 5536 8.7454 0 1 2293500 + 30485 12772 19494 19555 34378 34378 -0.03677744427545804 SHHRAHYETEG 11 Unmodified _SHHRAHYETEG_ 0 0 0 nc|ENSG00000131196|O95644-8|NFATC1;nc|ENSG00000131196|O95644-11|NFATC1;nc|ENSG00000131196|O95644-3|NFATC1;nc|ENSG00000131196|O95644-10|NFATC1;nc|ENSG00000131196|O95644-2|NFATC1;nc|ENSG00000131196|O95644-5|NFATC1;nc|ENSG00000131196|O95644-4|NFATC1;nc|ENSG00000131196|O95644-6|NFATC1;ENSG00000131196|ENST00000427363|NFATC1 nc|ENSG00000131196|O95644-8|NFATC1 nc|ENSG00000131196|O95644-8|NFATC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 662.7981567382812 2 662.294882 1322.57521 2.4405 0.0016163 -0.064065 -4.243E-05 2.3764 0.0015739 662.2950472282477 104.28 0.39981 104.34 104.18 104.58 0.052994 75 42 3 0 0 0 0.91489 1 56542 56542 0 0 1 800540 30486 2645 19495 19556 34379 34379 -0.07317416909677377 SHIQQHRK 8 Unmodified _SHIQQHRK_ 0 0 0 REV__ENSG00000179930|ENST00000339948|ZNF648 REV__ENSG00000179930|ENST00000339948|ZNF648 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 517.287109375 2 517.286131 1032.55771 2.7288 0.0014116 -0.61378 -0.0003175 2.115 0.0010941 517.2855470696818 79.454 0.57773 79.774 79.632 80.209 0.31998 69 41 3 0 0 0 0.68959 1 38836 38836 5.2307 0 1 2014100 + 30487 13815 19496 19557 34380 34380 0.04273332345997005 SHKLLRCI 8 Unmodified _SHKLLRCI_ 0 0 0 REV__nc|ENSG00000058404|Q13554-7|CAMK2B REV__nc|ENSG00000058404|Q13554-7|CAMK2B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2898864746094 2 485.286754 968.558955 NaN NaN NaN NaN NaN NaN NaN 49.297 1 49.952 49.452 50.452 0.65524 0 0 0 0.99035 1 22551 22551 0.79363 0 1 + 30488 10381 19497 19558 34381 34381 0.07341830390521409 SHKPRVVP 8 Unmodified _SHKPRVVP_ 0 0 0 REV__ENST00000508478.1_1_5:175956522-175957037:-|nuORF REV__ENST00000508478.1_1_5:175956522-175957037:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 307.1891174316406 3 307.187255 918.539935 NaN NaN NaN NaN NaN NaN NaN 42.514 1 43.161 42.661 43.661 0.64693 0 0 0 0.99035 1 19476 19476 1.6526 0.17072 1 + 30489 16954 19498 19559 34382 34382 0.07740617091133117 SHKRHRRR 8 Unmodified _SHKRHRRR_ 0 0 0 REV__ENSG00000125266|ENST00000646441|EFNB2 REV__ENSG00000125266|ENST00000646441|EFNB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.8389892578125 2 566.837188 1131.65982 NaN NaN NaN NaN NaN NaN NaN 9.6946 1 9.9902 9.4902 10.49 0.2956 0 0 0 0.99035 1 4320 4320 0 0 1 + 30490 11674 19499 19560 34383 34383 0.0992604320827013 SHLHINYTI 9 Unmodified _SHLHINYTI_ 0 0 0 REV__YIPF3|p.A243S|1|0.1|ENSG00000137207|chr6:43512814-43512814|C/A|missense_variant REV__YIPF3|p.A243S|1|0.1|ENSG00000137207|chr6:43512814-43512814|C/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.5301818847656 3 366.529458 1096.56654 2.8113 0.0010304 -0.62873 -0.00023045 2.1826 0.00079997 366.52922196924874 40.497 0.19876 41.138 41.057 41.256 0.64135 29 19 2 0 0 0 0.59921 1 18547 18547 10.8 0 1 1470200 + 30491 18248 19500 19561 34384 34384 0.022122611917893664 SHLKMRIM 8 Unmodified _SHLKMRIM_ 0 0 0 ENST00000559125.1_1_15:89011266-89011446:+|nuORF ENST00000559125.1_1_15:89011266-89011446:+|nuORF ENST00000559125.1_1_15:89011266-89011446:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 339.19012451171875 3 339.189502 1014.54668 2.271 0.00077031 0.25832 8.7618E-05 2.5293 0.00085793 339.1897165792614 15.71 0.53392 15.921 15.632 16.166 0.21108 143 80 2 0 0 0 0.74709 1 6905 6905 1.3295 0.46516 1 77879 30492 8961 19501 19562 34385 34385 0.039984706558357175 SHPGVTPP 8 Unmodified _SHPGVTPP_ 0 0 0 REV__nc|ENSG00000134369|Q8NEY1-7|NAV1 REV__nc|ENSG00000134369|Q8NEY1-7|NAV1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 396.2070007324219 2 396.205953 790.397353 3.0713 0.0012169 -0.47566 -0.00018846 2.5956 0.0010284 396.20556121222467 92.448 0.5453 93.095 92.841 93.386 0.64714 42 27 2 0 0 0 0.74071 1 42577 42577 2.5775 0 1 510110 + 30493 11963 19502 19563 34386 34386 -0.006230153709225306 SHPGVTPP 8 Unmodified _SHPGVTPP_ 0 0 0 REV__nc|ENSG00000134369|Q8NEY1-7|NAV1 REV__nc|ENSG00000134369|Q8NEY1-7|NAV1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 396.205953 790.397353 3.5149 0.0013926 -2.2696 -0.00089921 1.2453 0.00049341 396.2046495716664 92.511 0.84592 92.764 92.324 93.17 0.25253 -0.16567 -0.0010153 NaN 2.5775 56 44 2 NaN NaN NaN NaN 0 NaN NaN 0 431950 + 30494 11963 19502 19563 -0.006230153709225306 SHPNVIRL 8 Unmodified _SHPNVIRL_ 0 0 0 ENSG00000153208|ENST00000295408|MERTK ENSG00000153208|ENST00000295408|MERTK ENSG00000153208|ENST00000295408|MERTK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 468.276123046875 2 468.274701 934.534849 3.0382 0.0014227 -0.67253 -0.00031493 2.3657 0.0011078 468.2743550283056 20.218 0.21138 20.871 20.743 20.954 0.65346 22 16 2 0 0 0 0.73686 1 9174 9174 2.8892 0 1 118620 30495 3778 19503 19564 34387 34387 0.06496313228501549 SHRFKRAN 8 Unmodified _SHRFKRAN_ 0 0 0 REV__ENSG00000133124|ENST00000372129|IRS4 REV__ENSG00000133124|ENST00000372129|IRS4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 339.19036865234375 3 339.189658 1014.54715 2.271 0.00077031 -0.20259 -6.8717E-05 2.0684 0.00070159 339.1897165792614 15.71 0.53392 15.921 15.632 16.166 0.21108 143 80 2 0 0 0 0.7471 1 6946 6946 0.40072 0 1 77879 + 30496 11924 19504 19565 34388 34388 0.04045349691557476 SHTEMPGTLQA 11 Unmodified _SHTEMPGTLQA_ 0 0 0 nc|ENSG00000173898|O15020-2|SPTBN2;ENSG00000173898|ENST00000533211|SPTBN2;SPTBN2|p.S1719Pfs*11|1|0.21|ENSG00000173898|chr11:66692572-66692572|G/-|frameshift_variant nc|ENSG00000173898|O15020-2|SPTBN2 nc|ENSG00000173898|O15020-2|SPTBN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.2761840820312 2 586.274238 1170.53392 3.4746 0.002037 0.051756 3.0343E-05 3.5263 0.0020674 586.2741062462098 28.608 0.40082 29.227 28.985 29.386 0.61947 41 20 3 0 0 0 0.77056 1 13105 13105 8.1555 1.9497 1 367920 30497 4957 19505 19566 34389 34389 -0.044523139933517086 SHWLIQLR 8 Unmodified _SHWLIQLR_ 0 0 0 ENST00000422374.1_1_1:56046773-56080673:+|nuORF ENST00000422374.1_1_1:56046773-56080673:+|nuORF ENST00000422374.1_1_1:56046773-56080673:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.8551330566406 3 351.538176 1051.5927 2.4218 0.00085137 -0.85161 -0.00029937 1.5702 0.000552 351.5378954325328 27.851 0.21928 28.113 27.998 28.217 0.26245 22 12 2 0 0 0 0.14063 1 12678 12678 3.9444 0 1 262950 30498 7767 19506 19567 34390 34390 0.06896575153928097 SHWLIQLR 8 Unmodified _SHWLIQLR_ 0 0 0 ENST00000422374.1_1_1:56046773-56080673:+|nuORF ENST00000422374.1_1_1:56046773-56080673:+|nuORF ENST00000422374.1_1_1:56046773-56080673:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.8545837402344 3 351.538176 1051.5927 2.3596 0.00082949 -0.89782 -0.00031562 1.4618 0.00051388 351.5377568033369 27.453 0.19713 28.075 27.985 28.182 0.62178 20 14 2 0 0 0 0.14225 1 12595 12595 3.9444 0 1 147640 30499 7767 19506 19567 34391 34391 0.06896575153928097 SIAFIIYKFVK 11 Unmodified _SIAFIIYKFVK_ 0 0 0 nc|ENSG00000129003|Q709C8-4|VPS13C;nc|ENSG00000129003|Q709C8-2|VPS13C;nc|ENSG00000129003|Q709C8-3|VPS13C;ENSG00000129003|ENST00000644861|VPS13C nc|ENSG00000129003|Q709C8-4|VPS13C nc|ENSG00000129003|Q709C8-4|VPS13C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 664.9050903320312 2 664.902474 1327.7904 NaN NaN NaN NaN NaN NaN NaN 49.721 1 50.544 50.044 51.044 0.82285 0 0 0 1.0074 1 22650 22650 1.0715 0.5467 1 30500 2535 19507 19568 34392 34392 0.13961156573191147 SIAKRLQSI 9 Unmodified _SIAKRLQSI_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA;ENST00000566012.1_1_16:30077179-30079547:+|nuORF;ENST00000564521.6_1_16:30075769-30079042:+|nuORF;ALDOA|p.G103Vfs*7|1|0.18|ENSG00000149925|chr16:30067643-30067643|C/-|frameshift_variant nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.318359375 2 508.316566 1014.61858 3.211 0.0016322 0.50042 0.00025437 3.7114 0.0018866 508.3165723765515 28.481 0.31134 28.741 28.583 28.894 0.2602 35 19 3 0 0 0 0.044031 1 12967 12967 38.615 0 1 739050 30501 3661 19508 19569 34393 34393 0.11185424605582739 SIAKRLQSI 9 Unmodified _SIAKRLQSI_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA;ENST00000566012.1_1_16:30077179-30079547:+|nuORF;ENST00000564521.6_1_16:30075769-30079042:+|nuORF;ALDOA|p.G103Vfs*7|1|0.18|ENSG00000149925|chr16:30067643-30067643|C/-|frameshift_variant nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.31854248046875 2 508.316566 1014.61858 3.2419 0.0016479 -0.099452 -5.0553E-05 3.1425 0.0015974 508.3164264539241 28.099 0.37033 28.719 28.538 28.908 0.61947 42 24 2 0 0 0 0.074077 2 12895 12846;12895 34.932 0 1 594370 30502 3661 19508 19569 34394;34395 34395 0.11185424605582739 SIDAAYYDLF 10 Unmodified _SIDAAYYDLF_ 0 0 0 REV__ENSG00000278803|ENST00000458091|PWWP4 REV__ENSG00000278803|ENST00000458091|PWWP4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 588.8324584960938 2 589.274229 1176.53391 2.9028 0.0017105 1.1356 0.00066916 4.0383 0.0023797 589.2752305160634 67.003 0.17442 67.003 66.938 67.112 0 34 22 3 0 0 0 0.10128 1 32106 32106 24.021 9.1823 1 2014800 + 30503 14754 19509 19570 34396 34396 -0.04729990721739341 SIDRGKGVL 9 Unmodified _SIDRGKGVL_ 0 0 0 REV__ENST00000541700.5_1_12:2062443-2113597:-|nuORF REV__ENST00000541700.5_1_12:2062443-2113597:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 315.5232238769531 3 315.522303 943.545079 2.1565 0.00068042 0.15714 4.9581E-05 2.3136 0.00073 315.52239622655543 21.284 0.22218 21.284 21.186 21.409 0 30 20 2 0 0 0 0.59776 1 9525 9525 7.1017 0 1 254910 + 30504 12603 19510 19571 34397 34397 0.0710487616311184 SIEGPDAKL 9 Unmodified _SIEGPDAKL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.25103759765625 2 465.250557 928.486562 NaN NaN NaN NaN NaN NaN NaN 32.332 1 33.12 32.62 33.62 0.78795 0 0 0 0.2842 1 14623 14623 27.629 4.8925 1 30505 2385 19511 19572 34398 34398 0.01945774797957256 SIEGPDAKL 9 Unmodified _SIEGPDAKL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.2518310546875 2 465.250557 928.486562 2.7248 0.0012677 0.1847 8.5931E-05 2.9095 0.0013536 465.25058813753327 32.605 0.25523 33.223 33.049 33.304 0.61831 18 11 2 0 0 0 0.136 1 14932 14932 27.629 4.8925 1 214130 30506 2385 19511 19572 34399 34399 0.01945774797957256 SIEGPDAKL 9 Unmodified _SIEGPDAKL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 465.250557 928.486562 2.8347 0.0013188 -0.11805 -5.4922E-05 2.7166 0.0012639 465.2504851646818 33.095 0.22082 33.349 33.256 33.476 0.25389 0.063093 -0.00018995 NaN 27.629 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 189270 30507 2385 19511 19572 0.01945774797957256 SIEIFKNFKMY 11 Unmodified _SIEIFKNFKMY_ 0 0 0 ENST00000344922.9_2_1:222839752-222839908:+|nuORF ENST00000344922.9_2_1:222839752-222839908:+|nuORF ENST00000344922.9_2_1:222839752-222839908:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 710.6607055664062 2 710.370681 1418.72681 NaN NaN NaN NaN NaN NaN NaN 80.883 1 81.052 80.552 81.552 0.16862 0 0 0 1.0061 1 39680 39680 2.7352 1.0826 1 30508 7106 19512 19573 34400 34400 0.034194280738347516 SIENLVEVLD 10 Unmodified _SIENLVEVLD_ 0 0 0 REV__ENSG00000115464|ENST00000398571|USP34 REV__ENSG00000115464|ENST00000398571|USP34 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 565.802490234375 2 565.800611 1129.58667 3.525 0.0019945 -0.22709 -0.00012849 3.2979 0.001866 565.8003734513519 27.299 0.30029 28.085 27.918 28.218 0.78627 63 23 4 0 0 0 0.55361 2 12319 12227;12319 27.223 2.3417 1 2233400 + 30509 11367 19513 19574 34401;34402 34402 0.027059673410803953 SIERTLLQRRQ 11 Unmodified _SIERTLLQRRQ_ 0 0 0 REV__ENST00000486015.1_1_10:77162714-77167299:+|nuORF REV__ENST00000486015.1_1_10:77162714-77167299:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 700.4152221679688 2 700.410049 1398.80554 NaN NaN NaN NaN NaN NaN NaN 92.336 1 92.984 92.484 93.484 0.64714 0 0 0 1.0074 1 42483 42483 1.0715 0.67075 1 + 30510 16751 19514 19575 34403 34403 0.12209416423115727 SIFLHWRRPAF 11 Unmodified _SIFLHWRRPAF_ 0 0 0 ENSG00000166450|ENST00000389286|PRTG ENSG00000166450|ENST00000389286|PRTG ENSG00000166450|ENST00000389286|PRTG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 715.3956909179688 2 715.396213 1428.77787 NaN NaN NaN NaN NaN NaN NaN 69.755 1 69.755 69.255 70.255 0 0 0 0 1.0057 1 33744 33744 3.2813 0 1 30511 4486 19515 19576 34404 34404 0.08063557953551026 SIFSLLSYILR 11 Unmodified _SIFSLLSYILR_ 0 0 0 REV__ENSG00000170255|ENST00000526914|MRGPRX1 REV__ENSG00000170255|ENST00000526914|MRGPRX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 438.2631530761719 3 437.927218 1310.75982 2.7449 0.0012021 0.99845 0.00043725 3.7433 0.0016393 438.26198004442284 38.929 0.55221 39.193 38.896 39.448 0.26408 33 23 2 0 0 0 0.86022 1 17659 17659 1.9275 0 1 548940 + 30512 13429 19516 19577 34405 34405 0.11687378188162256 SIFVLISKLC 10 Unmodified _SIFVLISKLC_ 0 0 0 REV__ENST00000229266.7_2_12:102117024-102117060:+|nuORF REV__ENST00000229266.7_2_12:102117024-102117060:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.0291748046875 2 561.833203 1121.65185 NaN NaN NaN NaN NaN NaN NaN 54.428 1 54.428 53.928 54.928 0 0 0 0 0.98317 1 24968 24968 8.1555 0.8663 1 + 30513 14848 19517 19578 34406 34406 0.09589290333269673 SIGPSKWQF 9 Unmodified _SIGPSKWQF_ 0 0 0 REV__nc|ENSG00000126259|Q6UWL6-3|KIRREL2 REV__nc|ENSG00000126259|Q6UWL6-3|KIRREL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.8539733886719 3 350.51867 1048.53418 2.6301 0.00092189 0.43081 0.00015101 3.0609 0.0010729 350.8531638741431 13.055 0.1981 13.698 13.58 13.778 0.64272 25 9 5 0 0 0 0.59776 1 5877 5877 7.1017 0 1 2146100 + 30514 17919 19518 19579 34407 34407 0.01185473788791569 SIGRAAKRHK 10 Unmodified _SIGRAAKRHK_ 0 0 0 ENST00000370793.5_1_1:78180415-78181454:-|nuORF ENST00000370793.5_1_1:78180415-78181454:-|nuORF ENST00000370793.5_1_1:78180415-78181454:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.34521484375 2 562.343981 1122.67341 3.5302 0.0019852 -0.78286 -0.00044024 2.7474 0.001545 562.3434774690411 83.528 0.8209 83.776 83.388 84.209 0.24722 75 49 2 0 0 0 0.93788 1 38402 38402 1.3295 0 1 585740 30515 7308 19519 19580 34408 34408 0.11697856196815337 SIGYELLLPG 10 Unmodified _SIGYELLLPG_ 0 0 0 REV__ENST00000306185.7_1_8:121455511-121457378:-|nuORF REV__ENST00000306185.7_1_8:121455511-121457378:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.2986450195312 2 531.297507 1060.58046 NaN NaN NaN NaN NaN NaN NaN 91.68 1 91.68 91.18 92.18 0 0 0 0 0.97944 1 48504 48504 8.7454 0.83525 1 + 30516 15231 19520 19581 34409 34409 0.05259493900234702 SIKKGFFR 8 Unmodified _SIKKGFFR_ 0 0 0 ENST00000295400.10_1_2:70677757-70680369:-|nuORF ENST00000295400.10_1_2:70677757-70680369:-|nuORF ENST00000295400.10_1_2:70677757-70680369:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.79718017578125 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 39.015 1 39.279 38.779 39.779 0.26408 0 0 0 0.99035 1 17755 17755 2.3027 0.24298 1 30517 6757 19521 19582 34410 34410 0.08446074267999393 SIKKLITSM 9 Unmodified _SIKKLITSM_ 0 0 0 ENSG00000137076|ENST00000314888|TLN1;nc|ENSG00000137076|Q9Y490-2|TLN1 ENSG00000137076|ENST00000314888|TLN1 ENSG00000137076|ENST00000314888|TLN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.81109619140625 2 510.809728 1019.6049 3.1574 0.0016128 -0.24905 -0.00012722 2.9083 0.0014856 510.80962966907947 38.655 0.29601 38.92 38.793 39.089 0.26408 29 12 3 0 0 0 0.0020727 2 17577 17577;17626 103.42 33.087 1 1661000 30518 2996 19522 19583 34411;34412 34411 0.09588430782116575 SIKKLITSM 9 Unmodified _SIKKLITSM_ 0 0 0 ENSG00000137076|ENST00000314888|TLN1;nc|ENSG00000137076|Q9Y490-2|TLN1 ENSG00000137076|ENST00000314888|TLN1 ENSG00000137076|ENST00000314888|TLN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.8114013671875 2 510.809728 1019.6049 3.2042 0.0016367 -0.096255 -4.9168E-05 3.1079 0.0015875 510.80978358873404 38.194 0.49089 38.828 38.581 39.072 0.63388 47 20 3 0 0 0 0.0071692 2 17457 17457;17506 87.258 37.731 1 1550200 30519 2996 19522 19583 34413;34414 34413 0.09588430782116575 SIKKLITSM 9 Unmodified _SIKKLITSM_ 0 0 0 ENSG00000137076|ENST00000314888|TLN1;nc|ENSG00000137076|Q9Y490-2|TLN1 ENSG00000137076|ENST00000314888|TLN1 ENSG00000137076|ENST00000314888|TLN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 510.809728 1019.6049 3.1786 0.0016237 0.559 0.00028554 3.7376 0.0019092 510.8099806506596 38.91 0.24498 38.91 38.744 38.989 0 0.023809 0.00062656 NaN 103.42 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 311870 30520 2996 19522 19583 0.09588430782116575 SIKRRAMEL 9 Unmodified _SIKRRAMEL_ 0 0 0 ENST00000565642.5_1_16:71777395-71799448:-|nuORF;ENSG00000166747|ENST00000299980|AP1G1;nc|ENSG00000166747|O43747-2|AP1G1 ENST00000565642.5_1_16:71777395-71799448:-|nuORF ENST00000565642.5_1_16:71777395-71799448:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 368.5504150390625 3 368.549976 1102.6281 2.4385 0.00089872 -0.5667 -0.00020886 1.8718 0.00068986 368.54973103240155 14.164 0.05907 14.471 14.442 14.501 0.3069 9 6 2 0 0 0 0.025135 1 6406 6406 49.742 14.13 1 3716900 30521 4504 19523 19584 34415 34415 0.08088869619450634 SIKRRAMEL 9 Unmodified _SIKRRAMEL_ 0 0 0 ENST00000565642.5_1_16:71777395-71799448:-|nuORF;ENSG00000166747|ENST00000299980|AP1G1;nc|ENSG00000166747|O43747-2|AP1G1 ENST00000565642.5_1_16:71777395-71799448:-|nuORF ENST00000565642.5_1_16:71777395-71799448:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 368.549976 1102.6281 2.7431 0.001011 -0.38525 -0.00014198 2.3578 0.00086897 368.5499256876644 14.615 0.28078 14.615 14.503 14.783 0 0.21027 -3.5853E-05 NaN 49.742 72 32 3 NaN NaN NaN NaN 0 NaN NaN 0 254750 30522 4504 19523 19584 0.08088869619450634 SIKRRAMEL 9 Unmodified _SIKRRAMEL_ 0 0 0 ENST00000565642.5_1_16:71777395-71799448:-|nuORF;ENSG00000166747|ENST00000299980|AP1G1;nc|ENSG00000166747|O43747-2|AP1G1 ENST00000565642.5_1_16:71777395-71799448:-|nuORF ENST00000565642.5_1_16:71777395-71799448:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 368.549976 1102.6281 2.3144 0.00085296 -0.7963 -0.00029348 1.5181 0.00055949 368.5497270668389 14.007 0.16055 14.241 14.146 14.307 0.23444 -0.16299 -0.00049033 NaN 49.742 19 14 2 NaN NaN NaN NaN 0 NaN NaN 0 391630 30523 4504 19523 19584 0.08088869619450634 SIKRRAMEL 9 Unmodified _SIKRRAMEL_ 0 0 0 ENST00000565642.5_1_16:71777395-71799448:-|nuORF;ENSG00000166747|ENST00000299980|AP1G1;nc|ENSG00000166747|O43747-2|AP1G1 ENST00000565642.5_1_16:71777395-71799448:-|nuORF ENST00000565642.5_1_16:71777395-71799448:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 368.549976 1102.6281 2.7141 0.0010003 0.016755 6.175E-06 2.7309 0.0010065 368.5501488064886 13.643 0.2175 14.291 14.21 14.427 0.64819 -0.11333 0.00040863 NaN 49.742 40 16 3 NaN NaN NaN NaN 0 NaN NaN 0 372340 30524 4504 19523 19584 0.08088869619450634 SIKWMIKIRKR 11 Unmodified _SIKWMIKIRKR_ 0 0 0 ENSG00000065600|ENST00000261455|PACC1;nc|ENSG00000065600|Q9H813-2|PACC1 ENSG00000065600|ENST00000261455|PACC1 ENSG00000065600|ENST00000261455|PACC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 730.021728515625 2 729.958123 1457.90169 NaN NaN NaN NaN NaN NaN NaN 100.43 1 100.49 99.99 100.99 0.059723 0 0 0 1.0061 1 54488 54488 2.7352 1.4057 1 30525 694 19524 19585 34416 34416 0.19105892729476182 SILIRRKRS 9 Unmodified _SILIRRKRS_ 0 0 0 REV__nc|ENSG00000162843|B1ANS9-2|WDR64 REV__nc|ENSG00000162843|B1ANS9-2|WDR64 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.8692626953125 2 564.869831 1127.72511 NaN NaN NaN NaN NaN NaN NaN 41.777 1 42.585 42.085 43.085 0.80855 0 0 0 0.91265 1 18962 18962 0.45834 0 1 + 30526 12965 19525 19586 34417 34417 0.16635599890742014 SILKLYFII 9 Unmodified _SILKLYFII_ 0 0 0 REV__ENST00000366844.7_2_1:225684441-225684513:-|nuORF REV__ENST00000366844.7_2_1:225684441-225684513:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.3541870117188 2 555.352086 1108.68962 NaN NaN NaN NaN NaN NaN NaN 108.4 1 108.71 108.21 109.21 0.31168 0 0 0 0.91206 1 49988 49988 0.6015 0 1 + 30527 15645 19526 19587 34418 34418 0.13962124590375424 SILKRQKHL 9 Unmodified _SILKRQKHL_ 0 0 0 nc|ENSG00000127423|Q9H7T9-2|AUNIP nc|ENSG00000127423|Q9H7T9-2|AUNIP nc|ENSG00000127423|Q9H7T9-2|AUNIP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.9090270996094 3 374.90838 1121.70331 NaN NaN NaN NaN NaN NaN NaN 12.385 1 12.692 12.192 13.192 0.30727 0 0 0 0.83378 1 5573 5573 8.1555 0 1 30528 9628 19527 19588 34419 34419 0.14732795142163013 SILMGEGWWKL 11 Unmodified _SILMGEGWWKL_ 0 0 0 REV__ENST00000380946.3_1_10:3825413-3827293:-|nuORF REV__ENST00000380946.3_1_10:3825413-3827293:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 660.3117065429688 2 660.344466 1318.67438 NaN NaN NaN NaN NaN NaN NaN 109.25 1 109.25 108.75 109.75 0 0 0 0 1.0059 1 59759 59759 2.9952 0 1 + 30529 15889 19528 19589 34420 34420 0.027788897308710148 SILNEMMQL 9 Unmodified _SILNEMMQL_ 0 0 0 REV__nc|ENSG00000188916|Q6ZSG2-2|INSYN2A REV__nc|ENSG00000188916|Q6ZSG2-2|INSYN2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.7669677734375 2 539.767203 1077.51985 3.1913 0.0017225 -2.1923 -0.0011833 0.99899 0.00053922 539.765563764287 54.113 0.16128 54.779 54.663 54.824 0.6665 12 8 2 0 0 0 0.19064 1 24764 24764 24.021 0 1 923690 + 30530 14167 19529 19590 34421 34421 -0.015806827459982742 SIMEIIIWLHD 11 Unmodified _SIMEIIIWLHD_ 0 0 0 REV__nc|ENSG00000133863|Q9BXT5|TEX15 REV__nc|ENSG00000133863|Q9BXT5|TEX15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.134521484375 2 685.362856 1368.71116 NaN NaN NaN NaN NaN NaN NaN 79.812 1 79.812 79.312 80.312 0 0 0 0 1.0041 1 39499 39499 5.2969 0 1 + 30531 11946 19530 19591 34422 34422 0.04155141556793751 SIMIVRHL 8 Unmodified _SIMIVRHL_ 0 0 0 ENST00000322348.5_1_5:74325336-74325411:-|nuORF ENST00000322348.5_1_5:74325336-74325411:-|nuORF ENST00000322348.5_1_5:74325336-74325411:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 323.528564453125 3 323.528512 967.563706 2.0457 0.00066184 -1.0841 -0.00035074 0.96157 0.00031109 323.52812852655535 35.813 0.37823 35.813 35.604 35.982 0 69 20 5 0 0 0 0.71384 1 16224 16224 3.2813 3.2813 1 29298000 30532 6940 19531 19592 34423 34423 0.07862714533291637 SIMIVRHL 8 Unmodified _SIMIVRHL_ 0 0 0 ENST00000322348.5_1_5:74325336-74325411:-|nuORF ENST00000322348.5_1_5:74325336-74325411:-|nuORF ENST00000322348.5_1_5:74325336-74325411:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 968.5704345703125 1 968.570983 967.563706 3.7414 0.0036238 -2.0299 -0.0019661 1.7115 0.0016577 968.5688217223047 36.986 0.26854 37.244 37.078 37.347 0.25768 13 8 2 0 0 0 0.71384 1 16827 16827 4.756 2.1785 1 645010 30533 6940 19531 19592 34424 34424 0.07862714533291637 SIMIVRHL 8 Unmodified _SIMIVRHL_ 0 0 0 ENST00000322348.5_1_5:74325336-74325411:-|nuORF ENST00000322348.5_1_5:74325336-74325411:-|nuORF ENST00000322348.5_1_5:74325336-74325411:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 323.528512 967.563706 2.2448 0.00072627 -1.6426 -0.00053143 0.60225 0.00019484 323.52795388546366 34.837 0.34683 35.627 35.485 35.832 0.78921 -0.14297 -0.00021956 NaN 3.2813 93 25 5 NaN NaN NaN NaN 0 NaN NaN 0 25882000 30534 6940 19531 19592 0.07862714533291637 SIMIVRHL 8 Unmodified _SIMIVRHL_ 0 0 0 ENST00000322348.5_1_5:74325336-74325411:-|nuORF ENST00000322348.5_1_5:74325336-74325411:-|nuORF ENST00000322348.5_1_5:74325336-74325411:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 323.528512 967.563706 2.3115 0.00074783 -1.8045 -0.00058381 0.50695 0.00016401 323.52796674505333 35.554 0.45629 35.809 35.594 36.05 0.25524 0.039222 -0.00037673 NaN 3.2813 61 15 5 NaN NaN NaN NaN 0 NaN NaN 0 29740000 30535 6940 19531 19592 0.07862714533291637 SIMIVRHL 8 Unmodified _SIMIVRHL_ 0 0 0 ENST00000322348.5_1_5:74325336-74325411:-|nuORF ENST00000322348.5_1_5:74325336-74325411:-|nuORF ENST00000322348.5_1_5:74325336-74325411:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 968.570983 967.563706 3.8936 0.0037712 -0.57045 -0.00055252 3.3231 0.0032187 968.5689189446118 36.27 0.15157 36.896 36.762 36.913 0.62631 -0.21472 0.0010478 NaN 4.756 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 426820 30536 6940 19531 19592 0.07862714533291637 SIMKRTAL 8 Unmodified _SIMKRTAL_ 0 0 0 nc|ENSG00000114573|P38606-2|ATP6V1A;ENSG00000114573|ENST00000273398|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 307.1851501464844 3 307.184634 918.532072 2.2809 0.00070064 -0.16732 -5.1399E-05 2.1135 0.00064924 307.1847291269828 19.408 0.17948 20.066 19.974 20.153 0.65829 23 12 3 0 0 0 0.49519 1 8806 8806 21.537 5.3879 1 346090 30537 1913 19532 19593 34425 34425 0.06954721779345618 SIMKRTAL 8 Unmodified _SIMKRTAL_ 0 0 0 nc|ENSG00000114573|P38606-2|ATP6V1A;ENSG00000114573|ENST00000273398|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 307.184634 918.532072 2.029 0.00062327 0.4322 0.00013276 2.4612 0.00075604 307.18464096407786 20.354 0.13322 20.354 20.245 20.378 0 0.14387 0.00037185 NaN 21.537 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 113380 30538 1913 19532 19593 0.06954721779345618 SIMLRQPAL 9 Unmodified _SIMLRQPAL_ 0 0 0 REV__ENSG00000188107|ENST00000503581|EYS REV__ENSG00000188107|ENST00000503581|EYS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 343.5357971191406 3 343.535555 1027.58484 2.332 0.00080113 -1.3044 -0.0004481 1.0276 0.00035303 343.53486304668763 36.044 1.3694 36.044 35.683 37.053 0 119 66 3 0 0 0 0.98132 2 16308 16308;16327 2.4985 0.41248 1 2729200 + 30539 14132 19533 19594 34426;34427 34426 0.07214679842149962 SIMLRQPAL 9 Unmodified _SIMLRQPAL_ 0 0 0 REV__ENSG00000188107|ENST00000503581|EYS REV__ENSG00000188107|ENST00000503581|EYS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.5353698730469 3 343.535555 1027.58484 2.4551 0.00084343 -1.2647 -0.00043449 1.1904 0.00040894 343.5347677101566 35.642 1.0187 35.897 35.297 36.315 0.25524 123 42 4 0 0 0 0.98132 2 16229 16229;16324 2.4985 0.41248 1 1981200 + 30540 14132 19533 19594 34428;34429 34428 0.07214679842149962 SIMLRQPAL 9 Unmodified _SIMLRQPAL_ 0 0 0 REV__ENSG00000188107|ENST00000503581|EYS REV__ENSG00000188107|ENST00000503581|EYS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.53594970703125 3 343.535555 1027.58484 2.4364 0.00083699 -0.90313 -0.00031026 1.5333 0.00052673 343.5349805203638 35.312 0.47519 35.936 35.656 36.131 0.62464 43 17 3 0 0 0 0.98132 1 16147 16147 2.4985 0.41248 1 2132500 + 30541 14132 19533 19594 34430 34430 0.07214679842149962 SINPKHRP 8 Unmodified _SINPKHRP_ 0 0 0 REV__ENST00000510852.1_1_4:120188537-120193190:+|nuORF REV__ENST00000510852.1_1_4:120188537-120193190:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 316.85101318359375 3 316.850643 947.530098 2.0916 0.00066273 -0.9165 -0.00029039 1.1751 0.00037234 316.85032025352297 16.741 0.94591 17.046 16.49 17.435 0.30438 199 92 3 0 0 0 0.7471 1 7699 7699 1.6526 1.6526 1 203120 + 30542 12439 19534 19595 34431 34431 0.05423429085749376 SIPRLNPKKV 10 Unmodified _SIPRLNPKKV_ 0 0 0 REV__ENSG00000174705|ENST00000311601|SH3PXD2B REV__ENSG00000174705|ENST00000311601|SH3PXD2B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 576.3710327148438 2 576.36659 1150.71863 NaN NaN NaN NaN NaN NaN NaN 31.697 1 32.314 31.814 32.814 0.61737 0 0 0 0.99846 1 14535 14535 2.9952 0.41776 1 + 30543 13641 19535 19596 34432 34432 0.1492966193934535 SIPTTKAFLHL 11 Unmodified _SIPTTKAFLHL_ 0 0 0 REV__ENST00000560014.5_1_15:60678333-60678423:-|nuORF REV__ENST00000560014.5_1_15:60678333-60678423:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.2333984375 2 614.358431 1226.70231 NaN NaN NaN NaN NaN NaN NaN 72.111 1 72.111 71.611 72.611 0 0 0 0 0.99038 1 35063 35063 7.609 0.50723 1 + 30544 17360 19536 19597 34433 34433 0.09802535982612426 SIQFCCCCC 9 Unmodified _SIQFCCCCC_ 0 0 0 REV__ENST00000606389.5_1_2:69691306-69691378:-|nuORF REV__ENST00000606389.5_1_2:69691306-69691378:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.076416015625 2 505.157062 1008.29957 NaN NaN NaN NaN NaN NaN NaN 67.16 1 67.16 66.66 67.66 0 0 0 0 0.91206 1 32152 32152 0.6015 0.6015 1 + 30545 17667 19537 19598 34434 34434 -0.2042469094109265 SIQKFVPYLI 10 Unmodified _SIQKFVPYLI_ 0 0 0 ENST00000469328.5_1_7:128033063-128040541:-|nuORF;ENST00000484496.5_1_7:128032984-128040541:-|nuORF;nc|ENSG00000106348|P20839-2|IMPDH1;nc|ENSG00000106348|P20839-4|IMPDH1;nc|ENSG00000106348|P20839|IMPDH1;nc|ENSG00000106348|P20839-3|IMPDH1;nc|ENSG00000106348|P20839-7|IMPDH1;nc|ENSG00000106348|P20839-5|IMPDH1;ENSG00000106348|ENST00000338791|IMPDH1 ENST00000469328.5_1_7:128033063-128040541:-|nuORF ENST00000469328.5_1_7:128033063-128040541:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 604.3592529296875 2 604.357899 1206.70125 2.1525 0.0013009 0.92848 0.00056114 3.081 0.001862 604.3582708039182 100.63 0.53114 100.69 100.61 101.14 0.059723 35 27 2 0 0 0 0.92007 1 54647 54647 2.7352 0.67545 1 5090900 30546 1565 19538 19599 34435 34435 0.10616321613701984 SIQKFVPYLI 10 Unmodified _SIQKFVPYLI_ 0 0 0 ENST00000469328.5_1_7:128033063-128040541:-|nuORF;ENST00000484496.5_1_7:128032984-128040541:-|nuORF;nc|ENSG00000106348|P20839-2|IMPDH1;nc|ENSG00000106348|P20839-4|IMPDH1;nc|ENSG00000106348|P20839|IMPDH1;nc|ENSG00000106348|P20839-3|IMPDH1;nc|ENSG00000106348|P20839-7|IMPDH1;nc|ENSG00000106348|P20839-5|IMPDH1;ENSG00000106348|ENST00000338791|IMPDH1 ENST00000469328.5_1_7:128033063-128040541:-|nuORF ENST00000469328.5_1_7:128033063-128040541:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 604.3599243164062 2 604.357899 1206.70125 4.4826 0.0027091 -0.19806 -0.0001197 4.2845 0.0025894 604.3574696125917 100.61 0.5815 100.92 100.83 101.41 0.31412 59 19 4 0 0 0 0.93713 1 46610 46610 1.4819 0 1 7396800 30547 1565 19538 19599 34436 34436 0.10616321613701984 SIREQWWRWNR 11 Unmodified _SIREQWWRWNR_ 0 0 0 ENST00000510393.5_1_1:16083148-16084686:+|nuORF ENST00000510393.5_1_1:16083148-16084686:+|nuORF ENST00000510393.5_1_1:16083148-16084686:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.2246704101562 3 539.611285 1615.81203 2.7878 0.0015043 -0.19397 -0.00010467 2.5938 0.0013996 539.6116511209206 54.203 0.14169 54.998 54.919 55.061 0.79552 11 8 2 0 0 0 0.13295 1 24743 24743 0.08335 0.018944 1 370550 30548 8555 19539 19600 34437 34437 0.028753543744869603 SIRFKVVL 8 Unmodified _SIRFKVVL_ 0 0 0 ENSG00000119913|ENST00000646139|TECTB ENSG00000119913|ENST00000646139|TECTB ENSG00000119913|ENST00000646139|TECTB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.3118591308594 2 481.313295 960.612037 NaN NaN NaN NaN NaN NaN NaN 28.98 1 29.24 28.74 29.74 0.2602 0 0 0 0.99035 1 13188 13188 4.756 2.1785 1 30549 2171 19540 19601 34438 34438 0.130155314448416 SIRIRYFKRKY 11 Unmodified _SIRIRYFKRKY_ 0 0 0 REV__ENST00000389032.7_1_12:27475478-27475652:+|nuORF REV__ENST00000389032.7_1_12:27475478-27475652:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 765.4563598632812 2 765.456802 1528.89905 NaN NaN NaN NaN NaN NaN NaN 79.793 1 80.113 79.613 80.613 0.31998 0 0 0 1.008 1 38987 38987 0.30703 0.30703 1 + 30550 15905 19541 19602 34439 34439 0.15575760596198052 SIRLKNKQL 9 Unmodified _SIRLKNKQL_ 0 0 0 REV__GRIN2A|p.S1341Afs*56|1|0.34|ENSG00000183454|chr16:9763523-9763523|T/-|frameshift_variant REV__GRIN2A|p.S1341Afs*56|1|0.34|ENSG00000183454|chr16:9763523-9763523|T/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 367.2181396484375 3 367.236385 1098.68733 2.4853 0.0009127 -0.43927 -0.00016132 2.0461 0.00075138 367.23614816840967 19.286 0.16973 19.584 19.467 19.637 0.29753 32 19 2 0 0 0 0.1038 1 8774 8774 7.1017 2.2047 1 567760 + 30551 13933 19542 19603 34440 34440 0.1419308890526736 SIRLKNKQL 9 Unmodified _SIRLKNKQL_ 0 0 0 REV__GRIN2A|p.S1341Afs*56|1|0.34|ENSG00000183454|chr16:9763523-9763523|T/-|frameshift_variant REV__GRIN2A|p.S1341Afs*56|1|0.34|ENSG00000183454|chr16:9763523-9763523|T/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 367.2181396484375 3 367.236385 1098.68733 2.705 0.00099338 0.41247 0.00015147 3.1175 0.0011449 367.2363852331777 18.89 0.16348 19.551 19.426 19.589 0.66072 19 12 2 0 0 0 0.10755 1 8570 8570 8.4443 2.2385 1 502750 + 30552 13933 19542 19603 34441 34441 0.1419308890526736 SIRNINRKFFR 11 Unmodified _SIRNINRKFFR_ 0 0 0 REV__ENST00000577961.5_1_18:723830-723905:-|nuORF REV__ENST00000577961.5_1_18:723830-723905:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 725.8692016601562 2 725.923126 1449.8317 NaN NaN NaN NaN NaN NaN NaN 100.47 1 100.47 99.97 100.97 0 0 0 0 1.0061 1 55456 55456 2.7352 1.4057 1 + 30553 17486 19543 19604 34442 34442 0.12477730385239738 SIRRIQVQAI 10 Unmodified _SIRRIQVQAI_ 0 0 0 REV__ENSG00000169676|ENST00000304374|DRD5 REV__ENSG00000169676|ENST00000304374|DRD5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.2480773925781 3 395.247173 1182.71969 2.7472 0.0010858 -0.16079 -6.3552E-05 2.5864 0.0010223 395.2471477272661 15.527 0.89386 15.833 15.455 16.349 0.306 211 100 3 0 0 0 0.93713 1 7149 7149 1.7423 0 1 119180 + 30554 13398 19544 19605 34443 34443 0.13563876308285217 SIRRIQVQAI 10 Unmodified _SIRRIQVQAI_ 0 0 0 REV__ENSG00000169676|ENST00000304374|DRD5 REV__ENSG00000169676|ENST00000304374|DRD5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.2484436035156 3 395.247173 1182.71969 2.9237 0.0011556 0.61112 0.00024154 3.5348 0.0013971 395.24743836740134 15.913 1.1347 16.571 16.132 17.267 0.65798 275 142 3 0 0 0 0.93713 1 7101 7101 0.62683 0 1 127730 + 30555 13398 19544 19605 34444 34444 0.13563876308285217 SIRRPPPPG 9 Unmodified _SIRRPPPPG_ 0 0 0 REV__ENSG00000011028|ENST00000303375|MRC2 REV__ENSG00000011028|ENST00000303375|MRC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.78912353515625 2 488.787976 975.561398 NaN NaN NaN NaN NaN NaN NaN 18.668 1 19.329 18.829 19.829 0.66072 0 0 0 0.90511 1 8462 8462 2.3027 0 1 + 30556 10231 19545 19606 34445 34445 0.07264002119848101 SIRTRRRQQR 10 Unmodified _SIRTRRRQQR_ 0 0 0 REV__ENST00000523367.1_1_8:63161359-63775831:+|nuORF REV__ENST00000523367.1_1_8:63161359-63775831:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 678.7583618164062 2 678.905799 1355.79705 NaN NaN NaN NaN NaN NaN NaN 106.45 1 106.45 105.95 106.95 0 0 0 0 0.99774 1 58452 58452 3.5965 0.60125 1 + 30557 17063 19546 19607 34446 34446 0.1333790729715929 SIRVPIIVPI 10 Unmodified _SIRVPIIVPI_ 0 0 0 nc|ENSG00000132842|O00203-3|AP3B1;ENSG00000132842|ENST00000255194|AP3B1;AP3B1|p.K923Nfs*4|1|0.36|ENSG00000132842|chr5:78039083-78039083|T/-|frameshift_variant;AP3B2|p.N220Tfs*9|1|0.37|ENSG00000103723|chr15:82680949-82680949|T/-|frameshift_variant;nc|ENSG00000103723|Q13367-3|AP3B2;nc|ENSG00000103723|Q13367|AP3B2;ENSG00000103723|ENST00000535359|AP3B2 nc|ENSG00000132842|O00203-3|AP3B1 nc|ENSG00000132842|O00203-3|AP3B1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.5964965820312 2 553.868434 1105.72232 2.9994 0.0016613 1.44 0.00079757 4.4394 0.0024589 553.8669980582335 80.089 0.079849 80.089 80.028 80.107 0 5 4 2 0 0 0 0.12676 1 39674 39674 0.35063 0 1 4424300 30558 2729 19547 19608 34447 34447 0.17368331713214502 SIRYKHRYRT 10 Unmodified _SIRYKHRYRT_ 0 0 0 chr5:112234749-112239660|157|13.5|0.34|5.31|-|1|None,EPB41L4A|1 chr5:112234749-112239660|157|13.5|0.34|5.31|-|1|None,EPB41L4A|1 chr5:112234749-112239660|157|13.5|0.34|5.31|-|1|None,EPB41L4A|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 690.489013671875 2 690.386377 1378.7582 NaN NaN NaN NaN NaN NaN NaN 109.57 1 109.57 109.07 110.07 0 0 0 0 0.99812 1 59907 59907 3.2813 0.54611 1 30559 176 19548 19609 34448 34448 0.08397181942768839 SIVEQGDPP 9 Unmodified _SIVEQGDPP_ 0 0 0 REV__nc|ENSG00000120341|Q96JE7-3|SEC16B REV__nc|ENSG00000120341|Q96JE7-3|SEC16B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.2335205078125 2 471.232364 940.450176 3.0354 0.0014304 0.013519 6.3705E-06 3.049 0.0014368 471.23216290417963 35.557 0.4276 36.184 35.967 36.395 0.62631 24 14 2 0 0 0 0.19064 1 16267 16267 24.021 2.2739 1 403530 + 30560 11535 19549 19610 34449 34449 -0.02243102098759664 SIVEQGDPP 9 Unmodified _SIVEQGDPP_ 0 0 0 REV__nc|ENSG00000120341|Q96JE7-3|SEC16B REV__nc|ENSG00000120341|Q96JE7-3|SEC16B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 471.232364 940.450176 2.786 0.0013129 0.45005 0.00021208 3.2361 0.0015249 471.23251163515863 36.125 0.51997 36.125 35.967 36.487 0 -0.038816 0.00024855 NaN 24.021 45 26 2 NaN NaN NaN NaN 0 NaN NaN 0 476870 + 30561 11535 19549 19610 -0.02243102098759664 SIVEQGDPP 9 Unmodified _SIVEQGDPP_ 0 0 0 REV__nc|ENSG00000120341|Q96JE7-3|SEC16B REV__nc|ENSG00000120341|Q96JE7-3|SEC16B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 471.232364 940.450176 2.9343 0.0013827 0.33256 0.00015671 3.2668 0.0015394 471.2324709502452 35.292 0.47392 36.083 35.932 36.406 0.79131 -0.08056 0.00013782 NaN 24.021 38 28 2 NaN NaN NaN NaN 0 NaN NaN 0 508870 + 30562 11535 19549 19610 -0.02243102098759664 SIVEQGDPP 9 Unmodified _SIVEQGDPP_ 0 0 0 REV__nc|ENSG00000120341|Q96JE7-3|SEC16B REV__nc|ENSG00000120341|Q96JE7-3|SEC16B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 471.232364 940.450176 2.87 0.0013525 -0.12517 -5.8983E-05 2.7449 0.0012935 471.232251221601 36.005 0.57718 36.263 36.022 36.599 0.25768 0.099309 -0.00029357 NaN 24.021 46 25 2 NaN NaN NaN NaN 0 NaN NaN 0 680290 + 30563 11535 19549 19610 -0.02243102098759664 SIVEQGDPP 9 Unmodified _SIVEQGDPP_ 0 0 0 REV__nc|ENSG00000120341|Q96JE7-3|SEC16B REV__nc|ENSG00000120341|Q96JE7-3|SEC16B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 471.232364 940.450176 3.0354 0.0014304 0.013519 6.3705E-06 3.049 0.0014368 471.23216290417963 35.557 0.4276 36.184 35.967 36.395 0.62631 0.020068 -0.00016286 NaN 24.021 24 14 2 NaN NaN NaN NaN 0 NaN NaN 0 403530 + 30564 11535 19549 19610 -0.02243102098759664 SIWEERLLWW 10 Unmodified _SIWEERLLWW_ 0 0 0 REV__L1P2_dup354|chr3:177908608-177914071:+|1.579459827711941|0.1324791782257567|3.58|528.0|6|1|sense REV__L1P2_dup354|chr3:177908608-177914071:+|1.579459827711941|0.1324791782257567|3.58|528.0|6|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 709.3687744140625 2 709.366787 1416.71902 NaN NaN NaN NaN NaN NaN NaN 29.459 1 30.077 29.577 30.577 0.61789 0 0 0 1.0001 1 13511 13511 1.6526 0.32309 1 + 30565 17778 19550 19611 34450 34450 0.027330368685625217 SIWELIHTK 9 Unmodified _SIWELIHTK_ 0 0 0 nc|ENSG00000146426|Q8IVF5-3|TIAM2;nc|ENSG00000146426|Q8IVF5-4|TIAM2;ENSG00000146426|ENST00000682666|TIAM2;nc|ENSG00000146426|Q8IVF5-5|TIAM2;nc|ENSG00000146426|Q8IVF5-2|TIAM2 nc|ENSG00000146426|Q8IVF5-3|TIAM2 nc|ENSG00000146426|Q8IVF5-3|TIAM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.81982421875 2 563.816399 1125.61824 3.3474 0.0018873 2.9403 0.0016578 6.2877 0.0035451 563.8178895922164 55.341 0.15786 55.607 55.56 55.718 0.26543 10 7 2 0 0 0 0.98958 1 25311 25311 3.5965 0.31518 1 783690 30566 3519 19551 19612 34451 34451 0.060460048857066795 SIWELIHTK 9 Unmodified _SIWELIHTK_ 0 0 0 nc|ENSG00000146426|Q8IVF5-3|TIAM2;nc|ENSG00000146426|Q8IVF5-4|TIAM2;ENSG00000146426|ENST00000682666|TIAM2;nc|ENSG00000146426|Q8IVF5-5|TIAM2;nc|ENSG00000146426|Q8IVF5-2|TIAM2 nc|ENSG00000146426|Q8IVF5-3|TIAM2 nc|ENSG00000146426|Q8IVF5-3|TIAM2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 563.816399 1125.61824 3.468 0.0019553 2.5987 0.0014652 6.0667 0.0034205 563.8176841760239 54.543 0.060501 55.21 55.169 55.229 0.6665 -0.19843 -0.00017629 NaN 3.5965 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 756850 30567 3519 19551 19612 0.060460048857066795 SIWIMLLHLWP 11 Unmodified _SIWIMLLHLWP_ 0 0 0 REV__ENST00000498416.2_1_13:60566620-60566695:-|nuORF REV__ENST00000498416.2_1_13:60566620-60566695:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 704.8945922851562 2 704.894126 1407.7737 NaN NaN NaN NaN NaN NaN NaN 60.285 1 60.285 59.785 60.785 0 0 0 0 1.0079 1 27961 27961 1.3295 0.92882 1 + 30568 16870 19552 19613 34452 34452 0.08612332415623314 SIWVMKLM 8 Unmodified _SIWVMKLM_ 0 0 0 REV__YTHDC2|p.L804*|1|0.43|ENSG00000047188|chr5:113563461-113563468|TAATTGTA/-|frameshift_variant REV__YTHDC2|p.L804*|1|0.43|ENSG00000047188|chr5:113563461-113563468|TAATTGTA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.2807922363281 2 504.274467 1006.53438 3.4875 0.0017587 -0.21103 -0.00010642 3.2765 0.0016522 504.2743389528815 12.855 0.33504 13.497 13.311 13.646 0.64272 27 9 4 0 0 0 0.74071 1 5734 5734 2.5775 0 1 9274300 + 30569 10334 19553 19614 34453 34453 0.03137434192785804 SIWYLREMKM 10 Unmodified _SIWYLREMKM_ 0 0 0 ENST00000515066.6_1_5:115202367-115202448:+|nuORF ENST00000515066.6_1_5:115202367-115202448:+|nuORF ENST00000515066.6_1_5:115202367-115202448:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 679.1793212890625 2 678.843776 1355.673 NaN NaN NaN NaN NaN NaN NaN 98.934 1 99 98.5 99.5 0.066025 0 0 0 0.9952 1 53336 53336 5.7319 0.43497 1 30570 8590 19554 19615 34454 34454 0.009389323704454 SIYCECAKNGL 11 Unmodified _SIYCECAKNGL_ 0 0 0 REV__ENST00000566127.1_1_16:29540393-29548932:-|nuORF REV__ENST00000566127.1_1_16:29540393-29548932:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 600.7755737304688 2 600.773016 1199.53148 3.3574 0.002017 -0.11294 -6.7852E-05 3.2445 0.0019492 600.7727555038705 43.311 0.21828 44.125 44.082 44.3 0.81444 21 13 2 0 0 0 0.61022 1 19724 19724 15.248 3.0078 1 713660 + 30571 12796 19555 19616 34455 34455 -0.06030485722681078 SIYCECAKNGL 11 Unmodified _SIYCECAKNGL_ 0 0 0 REV__ENST00000566127.1_1_16:29540393-29548932:-|nuORF REV__ENST00000566127.1_1_16:29540393-29548932:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 600.773016 1199.53148 3.3574 0.002017 -0.11294 -6.7852E-05 3.2445 0.0019492 600.7727555038705 43.311 0.21828 44.125 44.082 44.3 0.81444 0 0 NaN 15.248 21 13 2 NaN NaN NaN NaN 0 NaN NaN 0 713660 + 30572 12796 19555 19616 -0.06030485722681078 SIYKLNKEWIL 11 Unmodified _SIYKLNKEWIL_ 0 0 0 REV__ENSG00000143387|ENST00000271651|CTSK REV__ENSG00000143387|ENST00000271651|CTSK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 704.048828125 2 703.905745 1405.79694 NaN NaN NaN NaN NaN NaN NaN 100.85 1 100.91 100.41 101.41 0.059723 0 0 0 0.96369 1 54756 54756 10.151 4.8537 1 + 30573 12366 19556 19617 34456 34456 0.11027049733957028 SIYKWMYYYYR 11 Unmodified _SIYKWMYYYYR_ 0 0 0 REV__nc|ENSG00000072041|Q9H2J7-3|SLC6A15 REV__nc|ENSG00000072041|Q9H2J7-3|SLC6A15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 818.2572631835938 2 818.386862 1634.75917 NaN NaN NaN NaN NaN NaN NaN 81.314 1 81.483 80.983 81.983 0.16862 0 0 0 1.0072 1 39958 39958 1.3295 1.3295 1 + 30574 10486 19557 19618 34457 34457 -0.03281784523164788 SKAIQRWAK 9 Unmodified _SKAIQRWAK_ 0 0 0 ENST00000497960.5_1_22:45567810-45567882:+|nuORF ENST00000497960.5_1_22:45567810-45567882:+|nuORF ENST00000497960.5_1_22:45567810-45567882:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.3236083984375 2 544.322183 1086.62981 NaN NaN NaN NaN NaN NaN NaN 12.438 1 13.081 12.581 13.581 0.64272 0 0 0 0.91014 1 5574 5574 0.52476 0 1 30575 8459 19558 19619 34458 34458 0.08996246699689436 SKALGKNKKVR 11 Unmodified _SKALGKNKKVR_ 0 0 0 nc|ENSG00000154059|Q9P2X3-2|IMPACT;ENSG00000154059|ENST00000284202|IMPACT nc|ENSG00000154059|Q9P2X3-2|IMPACT nc|ENSG00000154059|Q9P2X3-2|IMPACT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 410.2681579589844 3 410.266456 1227.77754 NaN NaN NaN NaN NaN NaN NaN 57.365 1 57.629 57.129 58.129 0.26444 0 0 0 1.0065 1 26259 26259 2.2527 0.51045 1 30576 3799 19559 19620 34459 34459 0.17276138233683014 SKDERDKILK 10 Unmodified _SKDERDKILK_ 0 0 0 REV__nc|ENSG00000164190|Q6KC79-2|NIPBL REV__nc|ENSG00000164190|Q6KC79-2|NIPBL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.3536376953125 2 616.353877 1230.6932 NaN NaN NaN NaN NaN NaN NaN 99.684 1 99.747 99.247 100.25 0.062241 0 0 0 0.9952 1 53938 53938 5.7319 0 1 + 30577 13075 19560 19621 34460 34460 0.08708142626255722 SKDGNGGGGG 10 Unmodified _SKDGNGGGGG_ 0 0 0 nc|ENSG00000292354|O15266-2|SHOX;ENSG00000185960|ENST00000686671|SHOX nc|ENSG00000292354|O15266-2|SHOX nc|ENSG00000292354|O15266-2|SHOX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 805.3466796875 1 805.343485 804.336209 4.1603 0.0033505 0.27288 0.00021976 4.4332 0.0035703 805.3434674689416 103.32 0.071747 103.92 103.87 103.94 0.59822 8 4 3 0 0 0 0.94443 1 47808 47808 0 0 1 376850 30578 5549 19561 19622 34461 34461 -0.07378572140964934 SKDGNGGGGG 10 Unmodified _SKDGNGGGGG_ 0 0 0 nc|ENSG00000292354|O15266-2|SHOX;ENSG00000185960|ENST00000686671|SHOX nc|ENSG00000292354|O15266-2|SHOX nc|ENSG00000292354|O15266-2|SHOX MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 805.343485 804.336209 4.7019 0.0037867 -2.4888 -0.0020043 2.2131 0.0017823 805.3411062373805 103.65 0.034416 103.97 103.94 103.98 0.31863 0.024189 -0.0010263 NaN 0 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 199510 30579 5549 19561 19622 -0.07378572140964934 SKEKFENL 8 Unmodified _SKEKFENL_ 0 0 0 nc|ENSG00000183199|Q58FF7|HSP90AB3P;ENST00000505987.1_1_4:88814417-88815164:+|nuORF nc|ENSG00000183199|Q58FF7|HSP90AB3P nc|ENSG00000183199|Q58FF7|HSP90AB3P MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 332.1788024902344 3 332.178313 993.513111 1.9461 0.00064647 0.21386 7.1039E-05 2.16 0.00071751 332.1784097223676 12.98 0.11649 13.223 13.163 13.279 0.24346 14 9 2 0 0 0 0.5584 1 5654 5654 17.113 3.498 1 380920 30580 9778 19562 19623 34462 34462 0.01609463689283075 SKEKFENL 8 Unmodified _SKEKFENL_ 0 0 0 nc|ENSG00000183199|Q58FF7|HSP90AB3P;ENST00000505987.1_1_4:88814417-88815164:+|nuORF nc|ENSG00000183199|Q58FF7|HSP90AB3P nc|ENSG00000183199|Q58FF7|HSP90AB3P MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 332.178313 993.513111 1.7885 0.0005941 0.036715 1.2196E-05 1.8252 0.0006063 332.17854802160275 12.926 0.1418 13.233 13.159 13.301 0.30727 -0.054665 -4.339E-05 NaN 17.113 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 205360 30581 9778 19562 19623 0.01609463689283075 SKEKFENL 8 Unmodified _SKEKFENL_ 0 0 0 nc|ENSG00000183199|Q58FF7|HSP90AB3P;ENST00000505987.1_1_4:88814417-88815164:+|nuORF nc|ENSG00000183199|Q58FF7|HSP90AB3P nc|ENSG00000183199|Q58FF7|HSP90AB3P MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 332.178313 993.513111 2.5285 0.00083991 -1.8571 -0.00061688 0.67142 0.00022303 332.17824288056255 12.764 0.20303 13.406 13.345 13.548 0.64272 0.11877 -0.0019306 NaN 17.113 10 5 3 NaN NaN NaN NaN 0 NaN NaN 0 239040 30582 9778 19562 19623 0.01609463689283075 SKEMRLQHLE 10 Unmodified _SKEMRLQHLE_ 0 0 0 REV__nc|ENSG00000173230|Q14789|GOLGB1 REV__nc|ENSG00000173230|Q14789|GOLGB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 424.2259521484375 3 424.223928 1269.64996 2.9674 0.0012588 1.9548 0.00082928 4.9222 0.0020881 424.2246252701046 12.734 0.088818 12.734 12.699 12.788 0 10 4 3 0 0 0 0.91298 1 5572 5572 3.0723 1.1448 1 861720 + 30583 13591 19563 19624 34463 34463 0.02591629577364074 SKEPPIVL 8 Unmodified _SKEPPIVL_ 0 0 0 REV__ENST00000425159.7_1_17:45567593-45569825:-|nuORF REV__ENST00000425159.7_1_17:45567593-45569825:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.271240234375 2 441.768386 881.522219 3.225 0.0014247 0.25393 0.00011218 3.4789 0.0015369 441.7683473812971 84.366 0.38593 85.028 84.856 85.242 0.66219 48 22 3 0 0 0 0.13749 1 38823 38823 12.532 0 1 732730 + 30584 14755 19564 19625 34464 34464 0.07671857045602337 SKEQKRVWF 9 Unmodified _SKEQKRVWF_ 0 0 0 ENSG00000039319|ENST00000505560|ZFYVE16;ENST00000512558.5_1_5:79729945-79747536:+|nuORF;ENST00000511829.5_1_5:79738958-79744113:+|nuORF ENSG00000039319|ENST00000505560|ZFYVE16 ENSG00000039319|ENST00000505560|ZFYVE16 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.16796875 2 604.332747 1206.65094 NaN NaN NaN NaN NaN NaN NaN 89.932 1 89.932 89.432 90.432 0 0 0 0 0.77475 1 47116 47116 10.074 3.3508 1 30585 526 19565 19626 34465 34465 0.05588212008547089 SKERPRLPR 9 Unmodified _SKERPRLPR_ 0 0 0 ENSG00000221843|ENST00000447166|C2orf16 ENSG00000221843|ENST00000447166|C2orf16 ENSG00000221843|ENST00000447166|C2orf16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.2331848144531 3 380.231634 1137.67307 NaN NaN NaN NaN NaN NaN NaN 81.049 1 81.709 81.209 82.209 0.65998 0 0 0 0.90519 1 37342 37342 2.2828 0 1 30586 6147 19566 19627 34466 34466 0.10974436476976734 SKESYILHM 9 Unmodified _SKESYILHM_ 0 0 0 ENST00000577928.5_1_18:19263865-19284533:-|nuORF;ENST00000578270.5_1_18:19244077-19283696:-|nuORF;ENST00000579875.5_1_18:19244061-19284599:-|nuORF;ENST00000579982.1_1_18:19282269-19284734:-|nuORF;ABHD3|p.I233Mfs*7|1|0.31|ENSG00000158201|chr18:21659313-21659313|A/-|frameshift_variant;ENSG00000158201|ENST00000289119|ABHD3 ENST00000577928.5_1_18:19263865-19284533:-|nuORF ENST00000577928.5_1_18:19263865-19284533:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.1493530273438 2 554.278792 1106.54303 NaN NaN NaN NaN NaN NaN NaN 92.869 1 92.955 92.455 93.455 0.086212 0 0 0 0.89683 1 48517 48517 4.3292 0 1 30587 1 19567 19628 34467 34467 -0.005979206370284373 SKFVPLKRKKR 11 Unmodified _SKFVPLKRKKR_ 0 0 0 REV__ENST00000427497.3_1_17:17110364-17131447:-|nuORF REV__ENST00000427497.3_1_17:17110364-17131447:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 693.9578857421875 2 693.956438 1385.89832 NaN NaN NaN NaN NaN NaN NaN 90.813 1 91.485 90.985 91.985 0.67271 0 0 0 1.008 1 41797 41797 0.26902 0.26902 1 + 30588 16228 19568 19629 34468 34468 0.22080965947134246 SKGAPLIP 8 Unmodified _SKGAPLIP_ 0 0 0 ENST00000536682.1_19:35167898-35168335:-|nuORF ENST00000536682.1_19:35167898-35168335:-|nuORF ENST00000536682.1_19:35167898-35168335:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 391.74420166015625 2 391.742171 781.469789 NaN NaN NaN NaN NaN NaN NaN 51.445 1 51.707 51.207 52.207 0.26227 0 0 0 0.99035 1 23510 23510 0.79363 0 1 30589 8772 19569 19630 34469 34469 0.07031318702672706 SKGKGKDKDP 10 Unmodified _SKGKGKDKDP_ 0 0 0 REV__nc|ENSG00000142611|Q9HAZ2-4|PRDM16 REV__nc|ENSG00000142611|Q9HAZ2-4|PRDM16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.2947387695312 2 530.293288 1058.57202 3.4751 0.0018428 -0.40451 -0.00021451 3.0706 0.0016283 530.2928716948237 97.323 0.33512 97.925 97.78 98.115 0.6019 36 17 3 0 0 0 0.85706 1 44775 44775 5.7319 0 1 2098300 + 30590 12336 19570 19631 34470 34470 0.045079399835913136 SKGKGKDKDP 10 Unmodified _SKGKGKDKDP_ 0 0 0 REV__nc|ENSG00000142611|Q9HAZ2-4|PRDM16 REV__nc|ENSG00000142611|Q9HAZ2-4|PRDM16 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 530.293288 1058.57202 4.0111 0.0021271 -0.062797 -3.3301E-05 3.9483 0.0020938 530.2930723174334 97.733 0.21812 98.022 97.859 98.077 0.28924 0.048554 8.4521E-05 NaN 5.7319 25 14 2 NaN NaN NaN NaN 0 NaN NaN 0 3426400 + 30591 12336 19570 19631 0.045079399835913136 SKGKKMVDFVK 11 Unmodified _SKGKKMVDFVK_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.91424560546875 3 422.912803 1265.71658 NaN NaN NaN NaN NaN NaN NaN 34.17 1 34.423 33.923 34.923 0.25389 0 0 0 0.91901 1 15560 15560 8.2864 0 1 + 30592 9967 19571 19632 34471 34471 0.09434865139223803 SKGKPFRKPI 10 Unmodified _SKGKPFRKPI_ 0 0 0 ENSG00000187527|ENST00000342358|ATP13A5 ENSG00000187527|ENST00000342358|ATP13A5 ENSG00000187527|ENST00000342358|ATP13A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.3628540039062 2 579.361308 1156.70806 NaN NaN NaN NaN NaN NaN NaN 86.182 1 86.182 85.682 86.682 0 0 0 0 0.98317 1 44114 44114 8.1555 1.9497 1 30593 5620 19572 19633 34472 34472 0.13597679284930564 SKHKKHKAKKK 11 Unmodified _SKHKKHKAKKK_ 0 0 0 REV__KIAA2026|p.N1948Kfs*5|1|0.04|ENSG00000183354|chr9:5920152-5920153|-/AGTCTCCAGC|frameshift_variant REV__KIAA2026|p.N1948Kfs*5|1|0.04|ENSG00000183354|chr9:5920152-5920153|-/AGTCTCCAGC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 674.4383544921875 2 674.438412 1346.86227 NaN NaN NaN NaN NaN NaN NaN 22.22 1 22.807 22.307 23.307 0.58739 0 0 0 1.0082 1 9882 9882 0 0 1 + 30594 13929 19573 19634 34473 34473 0.20271508770269975 SKIIFINVM 9 Unmodified _SKIIFINVM_ 0 0 0 REV__ENST00000446113.6_1_11:19192027-19194295:+|nuORF REV__ENST00000446113.6_1_11:19192027-19194295:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1064.9915771484375 1 1064.61726 1063.60999 3.4089 0.0036292 3.862 0.0041116 7.2709 0.0077408 1064.6217797322408 86.448 0.23175 86.698 86.542 86.774 0.24974 14 9 2 0 0 0 0.11053 1 39722 39722 1.8442 0 1 4624300 + 30595 16383 19574 19635 34474 34474 0.08072734644701995 SKIIVEDRK 9 Unmodified _SKIIVEDRK_ 0 0 0 ENST00000492220.1_1_1:150381497-150445807:+|nuORF;nc|ENSG00000163125|Q5VT52-2|RPRD2;nc|ENSG00000163125|Q5VT52-3|RPRD2;ENSG00000163125|ENST00000369068|RPRD2;nc|ENSG00000163125|Q5VT52-5|RPRD2 ENST00000492220.1_1_1:150381497-150445807:+|nuORF ENST00000492220.1_1_1:150381497-150445807:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.86651611328125 3 363.220513 1086.63971 2.1226 0.00077096 3.5434 0.001287 5.666 0.002058 363.2218873189732 33.967 0.18834 34.756 34.675 34.864 0.78921 17 11 2 0 0 0 0.10489 1 15404 15404 6.6304 0 1 325280 30596 4194 19575 19636 34475 34475 0.09985389914413645 SKITRITSLT 10 Unmodified _SKITRITSLT_ 0 0 0 ENSG00000119401|ENST00000450136|TRIM32 ENSG00000119401|ENST00000450136|TRIM32 ENSG00000119401|ENST00000450136|TRIM32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.3424072265625 2 560.340238 1118.66592 3.7511 0.0021019 -0.022372 -1.2536E-05 3.7287 0.0020894 560.3401528965048 98.094 0.20642 98.693 98.551 98.758 0.59885 45 19 3 0 0 0 0.85706 1 45200 45200 5.7319 0 1 35410000 30597 2141 19576 19637 34476 34476 0.11133659085885483 SKITRITSLT 10 Unmodified _SKITRITSLT_ 0 0 0 ENSG00000119401|ENST00000450136|TRIM32 ENSG00000119401|ENST00000450136|TRIM32 ENSG00000119401|ENST00000450136|TRIM32 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 560.340238 1118.66592 2.1142 0.0011847 1.167 0.00065392 3.2812 0.0018386 560.3403418433696 98.362 0.12928 98.428 98.357 98.486 0.066032 -0.15298 0.0014374 NaN 5.7319 16 9 3 NaN NaN NaN NaN 0 NaN NaN 0 18894000 30598 2141 19576 19637 0.11133659085885483 SKITRITSLT 10 Unmodified _SKITRITSLT_ 0 0 0 ENSG00000119401|ENST00000450136|TRIM32 ENSG00000119401|ENST00000450136|TRIM32 ENSG00000119401|ENST00000450136|TRIM32 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 560.340238 1118.66592 4.4002 0.0024656 -0.51328 -0.00028761 3.8869 0.002178 560.3398113261803 98.315 0.23923 98.615 98.504 98.744 0.29987 0.033733 -0.00044571 NaN 5.7319 70 23 4 NaN NaN NaN NaN 0 NaN NaN 0 47894000 30599 2141 19576 19637 0.11133659085885483 SKKDVRNFKAW 11 Unmodified _SKKDVRNFKAW_ 0 0 0 ENSG00000126353|ENST00000246657|CCR7 ENSG00000126353|ENST00000246657|CCR7 ENSG00000126353|ENST00000246657|CCR7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 689.7876586914062 2 689.883136 1377.75172 NaN NaN NaN NaN NaN NaN NaN 98.921 1 99.519 99.019 100.02 0.59748 0 0 0 1.0041 1 45680 45680 5.2969 0 1 30600 2449 19577 19638 34477 34477 0.07795243991427014 SKKELTLWEKN 11 Unmodified _SKKELTLWEKN_ 0 0 0 nc|ENSG00000188869|Q7Z5M5-2|TMC3;ENST00000559982.1_1_15:81630174-81666445:-|nuORF;ENSG00000188869|ENST00000359440|TMC3 nc|ENSG00000188869|Q7Z5M5-2|TMC3 nc|ENSG00000188869|Q7Z5M5-2|TMC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 688.383056640625 2 688.382634 1374.75072 NaN NaN NaN NaN NaN NaN NaN 14.54 1 14.54 14.04 15.04 0 0 0 0 1.0061 1 6406 6406 2.7352 0 1 30601 5687 19578 19639 34478 34478 0.07832984831861722 SKKGGAMK 8 Unmodified _SKKGGAMK_ 0 0 0 REV__ENSG00000215115|ENST00000535490|CXorf49 REV__ENSG00000215115|ENST00000535490|CXorf49 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.7341613769531 2 403.73128 805.448008 3.1346 0.0012655 1.4191 0.00057293 4.5537 0.0018385 403.731948156078 65.997 0.22397 66.246 66.048 66.272 0.24847 15 11 2 0 0 0 0.7441 1 30232 30232 2.3027 0 1 269830 + 30602 14523 19579 19640 34479 34479 0.03750190682444554 SKKGGAMK 8 Unmodified _SKKGGAMK_ 0 0 0 REV__ENSG00000215115|ENST00000535490|CXorf49 REV__ENSG00000215115|ENST00000535490|CXorf49 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 403.73128 805.448008 3.1346 0.0012655 1.4191 0.00057293 4.5537 0.0018385 403.731948156078 65.997 0.22397 66.246 66.048 66.272 0.24847 0 0 NaN 2.3027 15 11 2 NaN NaN NaN NaN 0 NaN NaN 0 269830 + 30603 14523 19579 19640 0.03750190682444554 SKKGKAKDKII 11 Unmodified _SKKGKAKDKII_ 0 0 0 REV__nc|ENSG00000133706|Q9P2J5-2|LARS1 REV__nc|ENSG00000133706|Q9P2J5-2|LARS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 608.3978271484375 2 608.392805 1214.77106 NaN NaN NaN NaN NaN NaN NaN 87.993 1 87.993 87.493 88.493 0 0 0 0 1.005 1 45539 45539 4.1895 1.1943 1 + 30604 11942 19580 19641 34480 34480 0.17226200282311765 SKKGPFIKR 9 Unmodified _SKKGPFIKR_ 0 0 0 REV__ENSG00000179477|ENST00000647874|ALOX12B REV__ENSG00000179477|ENST00000647874|ALOX12B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.8353271484375 2 530.834926 1059.6553 NaN NaN NaN NaN NaN NaN NaN 88.181 1 88.181 87.681 88.681 0 0 0 0 0.87786 1 45696 45696 6.7232 0 1 + 30605 13799 19581 19642 34481 34481 0.12785721222144275 SKKGPFIKR 9 Unmodified _SKKGPFIKR_ 0 0 0 REV__ENSG00000179477|ENST00000647874|ALOX12B REV__ENSG00000179477|ENST00000647874|ALOX12B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.835205078125 2 530.834926 1059.6553 NaN NaN NaN NaN NaN NaN NaN 88.633 1 88.685 88.185 89.185 0.052155 0 0 0 0.87786 1 45207 45207 6.7232 0.99131 1 + 30606 13799 19581 19642 34482 34482 0.12785721222144275 SKKGQKQKK 9 Unmodified _SKKGQKQKK_ 0 0 0 REV__ENST00000471144.1_1_20:47852884-47860241:+|nuORF REV__ENST00000471144.1_1_20:47852884-47860241:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.6854248046875 2 530.33529 1058.65603 2.6642 0.0014129 0.31389 0.00016647 2.9781 0.0015794 530.8363780509491 89.684 0.061523 89.684 89.64 89.702 0 10 8 2 0 0 0 0.096132 1 46915 46915 6.2058 2.6093 1 9191100 + 30607 11646 19582 19643 34483 34483 0.12904515871173317 SKKKKKKGKKS 11 Unmodified _SKKKKKKGKKS_ 0 0 0 ENSG00000136045|ENST00000412830|PWP1 ENSG00000136045|ENST00000412830|PWP1 ENSG00000136045|ENST00000412830|PWP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 637.6015625 2 637.935171 1273.85579 NaN NaN NaN NaN NaN NaN NaN 85.986 1 85.986 85.486 86.486 0 0 0 0 1.0073 1 43944 43944 1.1933 0 1 30608 2921 19583 19644 34484 34484 0.22981570818933506 SKKKKKKKKKK 11 Unmodified _SKKKKKKKKKK_ 0 0 0 AluSz6_dup29803|chr11:63572851-63572957:-|1.0054337000575218|0.2400240247261108|2.07|539.0|3|2|sense;ENST00000349223.9_1_16:68260779-68260980:+|nuORF;ENST00000373344.9_1_X:76762287-76762440:-|nuORF AluSz6_dup29803|chr11:63572851-63572957:-|1.0054337000575218|0.2400240247261108|2.07|539.0|3|2|sense;ENST00000349223.9_1_16:68260779-68260980:+|nuORF;ENST00000373344.9_1_X:76762287-76762440:-|nuORF AluSz6_dup29803|chr11:63572851-63572957:-|1.0054337000575218|0.2400240247261108|2.07|539.0|3|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 694.0045776367188 2 694.003388 1385.99222 NaN NaN NaN NaN NaN NaN NaN 65.523 1 65.523 65.023 66.023 0 0 0 0 1.0082 1 31231 31231 0 0 1 30609 51;7129;7356 19584 19645 34485 34485 0.3146668504941772 SKKKKKRKQKH 11 Unmodified _SKKKKKRKQKH_ 0 0 0 ENST00000282030.5_1_18:42644666-42644876:+|nuORF ENST00000282030.5_1_18:42644666-42644876:+|nuORF ENST00000282030.5_1_18:42644666-42644876:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 712.1666259765625 2 712.470244 1422.92593 3.205 0.0022835 -0.38266 -0.00027264 2.8224 0.0020108 712.9712790273013 84.361 0.074875 84.361 84.343 84.418 0 11 8 2 0 0 0 0.13295 1 42696 42696 0 0 1 12195000 30610 6696 19585 19646 34486 34486 0.23138869207377866 SKKLLLNL 8 Unmodified _SKKLLLNL_ 0 0 0 ENST00000515074.1_1_4:163244087-163244557:+|nuORF REV__ENST00000339514.8_1_2:192234998-192248009:+|nuORF REV__ENST00000339514.8_1_2:192234998-192248009:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 310.2118835449219 3 310.211177 927.611703 2.2465 0.00069688 0.37995 0.00011786 2.6264 0.00081474 310.2112471495218 29.395 0.30866 29.395 29.203 29.512 0 64 26 4 0 0 0 0.61796 1 13258 13258 9.3831 0 1 1340000 30611 8591 19586 19647 34487 34487 0.1450011172498762 SKKLLLNL 8 Unmodified _SKKLLLNL_ 0 0 0 ENST00000515074.1_1_4:163244087-163244557:+|nuORF REV__ENST00000339514.8_1_2:192234998-192248009:+|nuORF REV__ENST00000339514.8_1_2:192234998-192248009:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 310.21185302734375 3 310.211177 927.611703 2.0922 0.00064902 0.17684 5.4859E-05 2.269 0.00070388 310.2112244327114 28.643 0.3694 29.262 29.071 29.44 0.61947 41 17 3 0 0 0 0.61796 1 13139 13139 9.3831 0 1 1696200 30612 8591 19586 19647 34488 34488 0.1450011172498762 SKKLLTIILK 10 Unmodified _SKKLLTIILK_ 0 0 0 ENSG00000196074|ENST00000357552|SYCP2 ENSG00000196074|ENST00000357552|SYCP2 ENSG00000196074|ENST00000357552|SYCP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.9077758789062 2 578.905017 1155.79548 NaN NaN NaN NaN NaN NaN NaN 89.902 1 89.902 89.402 90.402 0 0 0 0 1.0004 1 47089 47089 1.3295 0.9789 1 30613 5715 19587 19648 34489 34489 0.22381460435849476 SKKLRKLHQS 10 Unmodified _SKKLRKLHQS_ 0 0 0 REV__nc|ENSG00000141431|Q9C0F0-2|ASXL3 REV__nc|ENSG00000141431|Q9C0F0-2|ASXL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 612.8823852539062 2 612.880396 1223.74624 3.3337 0.0020431 -1.4971 -0.00091751 1.8366 0.0011256 612.8793293615148 100.06 0.1347 100.06 99.984 100.12 0 19 9 3 0 0 0 0.93584 1 55144 55144 1.4819 0 1 12797000 + 30614 12285 19588 19649 34490 34490 0.1433156519960903 SKKQLFLLLSF 11 Unmodified _SKKQLFLLLSF_ 0 0 0 ENST00000479857.1_1_6:47549752-47549854:+|nuORF ENST00000479857.1_1_6:47549752-47549854:+|nuORF ENST00000479857.1_1_6:47549752-47549854:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.9579772949219 4 331.706329 1322.79621 2.6641 0.0008837 0.78988 0.00026201 3.454 0.0011457 331.7065386707902 54.008 0.71559 54.008 53.676 54.391 0 131 52 3 0 0 0 0.88721 1 24869 24869 1.2148 0 1 2968000 30615 8269 19589 19650 34491 34491 0.1477225508488118 SKKQLFLLLSF 11 Unmodified _SKKQLFLLLSF_ 0 0 0 ENST00000479857.1_1_6:47549752-47549854:+|nuORF ENST00000479857.1_1_6:47549752-47549854:+|nuORF ENST00000479857.1_1_6:47549752-47549854:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.7074279785156 4 331.706329 1322.79621 2.5559 0.00084782 0.62014 0.0002057 3.1761 0.0010535 331.70645887165 54.421 0.1702 54.421 54.319 54.489 0 17 13 2 0 0 0 0.88721 1 24957 24957 1.2148 0 1 1090600 30616 8269 19589 19650 34492 34492 0.1477225508488118 SKKQLFLLLSF 11 Unmodified _SKKQLFLLLSF_ 0 0 0 ENST00000479857.1_1_6:47549752-47549854:+|nuORF ENST00000479857.1_1_6:47549752-47549854:+|nuORF ENST00000479857.1_1_6:47549752-47549854:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.70745849609375 4 331.706329 1322.79621 2.2163 0.00073517 0.92024 0.00030525 3.1366 0.0010404 331.7066301833599 55.43 0.43364 55.43 55.261 55.695 0 83 33 3 0 0 0 0.88721 1 25450 25450 1.2148 0 1 3799200 30617 8269 19589 19650 34493 34493 0.1477225508488118 SKKQLFLLLSF 11 Unmodified _SKKQLFLLLSF_ 0 0 0 ENST00000479857.1_1_6:47549752-47549854:+|nuORF ENST00000479857.1_1_6:47549752-47549854:+|nuORF ENST00000479857.1_1_6:47549752-47549854:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.70751953125 4 331.706329 1322.79621 2.4406 0.00080955 1.0391 0.00034469 3.4797 0.0011542 331.70663387722306 53.591 1.0331 53.855 53.401 54.434 0.26462 123 53 3 0 0 0 0.88721 1 24680 24680 1.2148 0 1 3999100 30618 8269 19589 19650 34494 34494 0.1477225508488118 SKKQLFLLLSF 11 Unmodified _SKKQLFLLLSF_ 0 0 0 ENST00000479857.1_1_6:47549752-47549854:+|nuORF ENST00000479857.1_1_6:47549752-47549854:+|nuORF ENST00000479857.1_1_6:47549752-47549854:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.7074279785156 4 331.706329 1322.79621 2.2821 0.00075698 1.3533 0.00044889 3.6353 0.0012059 331.7065911957931 55.901 0.30116 56.166 55.961 56.262 0.26543 29 12 3 0 0 0 0.91111 1 25583 25583 0.40827 0 1 2108300 30619 8269 19589 19650 34495 34495 0.1477225508488118 SKKQLFLLLSF 11 Unmodified _SKKQLFLLLSF_ 0 0 0 ENST00000479857.1_1_6:47549752-47549854:+|nuORF ENST00000479857.1_1_6:47549752-47549854:+|nuORF ENST00000479857.1_1_6:47549752-47549854:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.9411315917969 3 441.939346 1322.79621 2.9119 0.0012869 1.0226 0.00045194 3.9346 0.0017388 441.93978806320905 53.08 0.60686 53.744 53.494 54.101 0.6644 41 26 2 0 0 0 0.88721 1 24390 24390 1.2148 0 1 1447200 30620 8269 19589 19650 34496 34496 0.1477225508488118 SKKQLFLLLSF 11 Unmodified _SKKQLFLLLSF_ 0 0 0 ENST00000479857.1_1_6:47549752-47549854:+|nuORF ENST00000479857.1_1_6:47549752-47549854:+|nuORF ENST00000479857.1_1_6:47549752-47549854:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 331.706329 1322.79621 2.1171 0.00070225 1.6656 0.00055249 3.7827 0.0012547 331.7067682753332 53.736 0.39466 54.4 54.163 54.557 0.6644 -0.013317 0.00054824 NaN 1.2148 74 22 4 NaN NaN NaN NaN 0 NaN NaN 0 3597400 30621 8269 19589 19650 0.1477225508488118 SKKQRRYR 8 Unmodified _SKKQRRYR_ 0 0 0 ENST00000595981.5_1_19:58787755-58788595:+|nuORF ENST00000595981.5_1_19:58787755-58788595:+|nuORF ENST00000595981.5_1_19:58787755-58788595:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.337890625 2 561.336156 1120.65776 3.71 0.0020826 -1.1829 -0.000664 2.5271 0.0014186 561.3353267395446 88.625 0.31137 89.303 89.178 89.489 0.67818 30 13 3 0 0 0 0.7441 1 40827 40827 2.3027 0.4585 1 626650 30622 9274 19590 19651 34497 34497 0.10225569679778346 SKKQRRYR 8 Unmodified _SKKQRRYR_ 0 0 0 ENST00000595981.5_1_19:58787755-58788595:+|nuORF ENST00000595981.5_1_19:58787755-58788595:+|nuORF ENST00000595981.5_1_19:58787755-58788595:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 561.336156 1120.65776 3.8792 0.0021775 -1.2256 -0.00068797 2.6536 0.0014896 561.3355134691781 89.012 0.27722 89.263 89.122 89.399 0.25118 -0.019816 -2.4807E-05 NaN 2.3027 14 9 2 NaN NaN NaN NaN 0 NaN NaN 0 484510 30623 9274 19590 19651 0.10225569679778346 SKKQRRYR 8 Unmodified _SKKQRRYR_ 0 0 0 ENST00000595981.5_1_19:58787755-58788595:+|nuORF ENST00000595981.5_1_19:58787755-58788595:+|nuORF ENST00000595981.5_1_19:58787755-58788595:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 561.336156 1120.65776 3.71 0.0020826 -1.1829 -0.000664 2.5271 0.0014186 561.3353267395446 88.625 0.31137 89.303 89.178 89.489 0.67818 0.019816 2.3133E-05 NaN 2.3027 30 13 3 NaN NaN NaN NaN 0 NaN NaN 0 626650 30624 9274 19590 19651 0.10225569679778346 SKKRKKKKKK 10 Unmodified _SKKRKKKKKK_ 0 0 0 REV__ENST00000392686.6_1_3:178977460-178977592:-|nuORF REV__ENST00000392686.6_1_3:178977460-178977592:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 643.9588012695312 2 643.958981 1285.90341 NaN NaN NaN NaN NaN NaN NaN 52.727 1 53.389 52.889 53.889 0.66198 0 0 0 1.002 1 24108 24108 0 0 1 + 30625 15934 19591 19652 34498 34498 0.27189269809741745 SKKWKRRS 8 Unmodified _SKKWKRRS_ 0 0 0 REV__ENST00000477250.1_1_13:36857607-36857776:-|nuORF REV__ENST00000477250.1_1_13:36857607-36857776:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.32958984375 2 538.327799 1074.64105 3.9406 0.0021214 -1.1272 -0.00060682 2.8134 0.0015145 538.3270684943617 97.423 0.35515 97.712 97.493 97.848 0.28923 59 17 5 0 0 0 0.73556 1 44797 44797 4.3292 0 1 48021000 + 30626 15876 19592 19653 34499 34499 0.1067106879381754 SKLISVSK 8 Unmodified _SKLISVSK_ 0 0 0 ENSG00000075539|ENST00000358350|FRYL;FRYL|p.E2601Dfs*12|1|0.03|ENSG00000075539|chr4:48515162-48515163|-/TACTTTCA|frameshift_variant;ENST00000512297.1_1_4:48537755-48542514:-|nuORF ENSG00000075539|ENST00000358350|FRYL ENSG00000075539|ENST00000358350|FRYL MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 861.7946166992188 1 861.540394 860.533118 2.7244 0.0023472 -0.39875 -0.00034354 2.3256 0.0020036 861.5410178690661 87.633 0.030029 87.673 87.655 87.685 0.039955 6 3 2 0 0 0 0.13817 1 44423 44423 1.6526 0 1 19811000 30627 830 19593 19654 34500 34500 0.09727259419901202 SKLKKKLML 9 Unmodified _SKLKKKLML_ 0 0 0 REV__ENST00000569028.2_1_16:34712445-34712784:-|nuORF REV__ENST00000569028.2_1_16:34712445-34712784:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.8692016601562 2 544.864837 1087.71512 NaN NaN NaN NaN NaN NaN NaN 50.134 1 50.134 49.634 50.634 0 0 0 0 0.90511 1 22952 22952 2.3027 0 1 + 30628 17437 19594 19655 34501 34501 0.1747727584115637 SKLKKRALKL 10 Unmodified _SKLKKRALKL_ 0 0 0 ENSG00000104164|ENST00000220531|BLOC1S6 ENSG00000104164|ENST00000220531|BLOC1S6 ENSG00000104164|ENST00000220531|BLOC1S6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 592.4927368164062 2 592.913707 1183.81286 NaN NaN NaN NaN NaN NaN NaN 87.526 1 87.526 87.026 88.026 0 0 0 0 1.0003 1 45164 45164 1.4819 0 1 30629 1429 19595 19656 34502 34502 0.22830800761494174 SKLKSEIKK 9 Unmodified _SKLKSEIKK_ 0 0 0 ENSG00000136478|ENST00000584379|TEX2;nc|ENSG00000136478|Q8IWB9-2|TEX2 ENSG00000136478|ENST00000584379|TEX2 ENSG00000136478|ENST00000584379|TEX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.9139404296875 2 530.839874 1059.66519 NaN NaN NaN NaN NaN NaN NaN 96.868 1 96.945 96.445 97.445 0.076538 0 0 0 0.88916 1 51605 51605 6.2058 0 1 30630 2951 19596 19657 34503 34503 0.13774864436845746 SKLLSRRAP 9 Unmodified _SKLLSRRAP_ 0 0 0 REV__ENST00000040663.7_1_19:13879748-13879829:+|nuORF REV__ENST00000040663.7_1_19:13879748-13879829:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.1008605957031 3 343.217214 1026.62981 2.4361 0.00083613 -2.5653 -0.00088045 -0.12914 -4.4323E-05 343.2160028634065 56.683 0.12442 57.351 57.244 57.368 0.66829 9 5 2 0 0 0 0.11293 1 25893 25893 0.96228 0 1 299070 + 30631 14778 19597 19658 34504 34504 0.11756246699678741 SKLPGDKE 8 Unmodified _SKLPGDKE_ 0 0 0 ENSG00000131791|ENST00000254101|PRKAB2 ENSG00000131791|ENST00000254101|PRKAB2 ENSG00000131791|ENST00000254101|PRKAB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2385559082031 2 437.23745 872.460347 NaN NaN NaN NaN NaN NaN NaN 81.04 1 81.7 81.2 82.2 0.65998 0 0 0 0.99035 1 37338 37338 3.5965 1.2938 1 30632 2674 19598 19659 34505 34505 0.019015056264720442 SKLPRPKA 8 Unmodified _SKLPRPKA_ 0 0 0 ENSG00000105278|ENST00000262961|ZFR2;ZFR2|p.Q729Rfs*10|1|0.38|ENSG00000105278|chr19:3813876-3813876|T/-|frameshift_variant;nc|ENSG00000105278|Q9UPR6-3|ZFR2 ENSG00000105278|ENST00000262961|ZFR2 ENSG00000105278|ENST00000262961|ZFR2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 448.28753662109375 2 448.787444 895.560336 2.8702 0.0012881 -0.09805 -4.4004E-05 2.7722 0.0012441 448.78747160659293 37.09 0.19993 37.09 36.968 37.168 0 9 7 2 0 0 0 0.14282 1 16836 16836 2.3027 0 1 246800 30633 1482 19599 19660 34506 34506 0.10837787750938332 SKLPRPKA 8 Unmodified _SKLPRPKA_ 0 0 0 ENSG00000105278|ENST00000262961|ZFR2;ZFR2|p.Q729Rfs*10|1|0.38|ENSG00000105278|chr19:3813876-3813876|T/-|frameshift_variant;nc|ENSG00000105278|Q9UPR6-3|ZFR2 ENSG00000105278|ENST00000262961|ZFR2 ENSG00000105278|ENST00000262961|ZFR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 448.7890625 2 448.787444 895.560336 NaN NaN NaN NaN NaN NaN NaN 36.135 1 36.928 36.428 37.428 0.79245 0 0 0 0.99035 1 16377 16377 2.3027 0 1 30634 1482 19599 19660 34507 34507 0.10837787750938332 SKLRHHRLYRQ 11 Unmodified _SKLRHHRLYRQ_ 0 0 0 nc|ENSG00000079156|Q9BZF3-6|OSBPL6;nc|ENSG00000079156|Q9BZF3-2|OSBPL6;nc|ENSG00000079156|Q9BZF3-4|OSBPL6;ENSG00000079156|ENST00000190611|OSBPL6;nc|ENSG00000079156|Q9BZF3-3|OSBPL6;nc|ENSG00000079156|Q9BZF3-5|OSBPL6 nc|ENSG00000079156|Q9BZF3-6|OSBPL6 nc|ENSG00000079156|Q9BZF3-6|OSBPL6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 747.4305419921875 2 747.43165 1492.84875 NaN NaN NaN NaN NaN NaN NaN 13.935 1 13.935 13.435 14.435 0 0 0 0 1.0061 1 6129 6129 2.7352 1.4057 1 30635 888 19600 19661 34508 34508 0.12203650991068571 SKLSLKRLKKK 11 Unmodified _SKLSLKRLKKK_ 0 0 0 REV__ENST00000429378.5_3_16:242971-256079:-|nuORF REV__ENST00000429378.5_3_16:242971-256079:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 664.95849609375 2 664.958646 1327.90274 NaN NaN NaN NaN NaN NaN NaN 38.247 1 39.043 38.543 39.543 0.79552 0 0 0 1.0082 1 17324 17324 0 0 1 + 30636 16240 19601 19662 34509 34509 0.2519043037004849 SKLVKKKRRKK 11 Unmodified _SKLVKKKRRKK_ 0 0 0 REV__nc|ENSG00000146278|Q12796-2|PNRC1 REV__nc|ENSG00000146278|Q12796-2|PNRC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 699.6695556640625 2 699.990812 1397.96707 NaN NaN NaN NaN NaN NaN NaN 85.608 1 85.608 85.108 86.108 0 0 0 0 1.0079 1 43640 43640 1.1933 0 1 + 30637 17973 19602 19663 34510 34510 0.2840063024684696 SKPPLLDV 8 Unmodified _SKPPLLDV_ 0 0 0 REV__ENST00000576723.5_1_17:7843028-7852016:+|nuORF REV__ENST00000576723.5_1_17:7843028-7852016:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.762939453125 2 434.760561 867.506569 NaN NaN NaN NaN NaN NaN NaN 93.681 1 94.312 93.812 94.812 0.63115 0 0 0 0.99035 1 43091 43091 2.5775 0 1 + 30638 13419 19603 19664 34511 34511 0.06751570528581397 SKPREIASLIR 11 Unmodified _SKPREIASLIR_ 0 0 0 ENSG00000172765|ENST00000393238|TMCC1;nc|ENSG00000172765|O94876-2|TMCC1 ENSG00000172765|ENST00000393238|TMCC1 ENSG00000172765|ENST00000393238|TMCC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 635.1546630859375 2 635.385511 1268.75647 NaN NaN NaN NaN NaN NaN NaN 99.744 1 100.34 99.841 100.84 0.59717 0 0 0 1.005 1 46147 46147 4.1895 0.59301 1 30639 4889 19604 19665 34512 34512 0.13284128134182538 SKPRRELRRA 10 Unmodified _SKPRRELRRA_ 0 0 0 ENSG00000166813|ENST00000394412|KIF7 ENSG00000166813|ENST00000394412|KIF7 ENSG00000166813|ENST00000394412|KIF7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.6983642578125 2 634.886544 1267.75853 NaN NaN NaN NaN NaN NaN NaN 87.367 1 87.367 86.867 87.867 0 0 0 0 0.99846 1 45031 45031 2.9952 0.49676 1 30640 4508 19605 19666 34513 34513 0.1353660166262216 SKPSERHVFI 10 Unmodified _SKPSERHVFI_ 0 0 0 nc|ENSG00000111799|Q99715-2|COL12A1;nc|ENSG00000111799|Q99715-4|COL12A1;ENSG00000111799|ENST00000322507|COL12A1 nc|ENSG00000111799|Q99715-2|COL12A1 nc|ENSG00000111799|Q99715-2|COL12A1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 400.2193908691406 3 400.555895 1198.64586 2.6043 0.0010432 -1.2295 -0.00049247 1.3748 0.00055068 400.5554481496152 26.335 0.31315 27.114 27 27.314 0.7787 32 26 2 0 0 0 0.12676 1 11860 11860 3.5871 0.95582 1 157190 30641 1776 19606 19667 34514 34514 0.05447908145947622 SKPSERHVFI 10 Unmodified _SKPSERHVFI_ 0 0 0 nc|ENSG00000111799|Q99715-2|COL12A1;nc|ENSG00000111799|Q99715-4|COL12A1;ENSG00000111799|ENST00000322507|COL12A1 nc|ENSG00000111799|Q99715-2|COL12A1 nc|ENSG00000111799|Q99715-2|COL12A1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 400.555895 1198.64586 2.9305 0.0011738 -1.005 -0.00040255 1.9255 0.00077126 400.5555972444987 27.288 0.16187 27.55 27.453 27.615 0.26245 0.17984 7.6946E-05 NaN 3.5871 16 13 2 NaN NaN NaN NaN 0 NaN NaN 0 410690 30642 1776 19606 19667 0.05447908145947622 SKPSERHVFI 10 Unmodified _SKPSERHVFI_ 0 0 0 nc|ENSG00000111799|Q99715-2|COL12A1;nc|ENSG00000111799|Q99715-4|COL12A1;ENSG00000111799|ENST00000322507|COL12A1 nc|ENSG00000111799|Q99715-2|COL12A1 nc|ENSG00000111799|Q99715-2|COL12A1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 400.555895 1198.64586 2.8192 0.0011293 -0.54955 -0.00022013 2.2697 0.00090914 400.5554771298449 26.862 0.33098 27.484 27.314 27.645 0.62178 0.11306 0.00062421 NaN 3.5871 27 24 2 NaN NaN NaN NaN 0 NaN NaN 0 334500 30643 1776 19606 19667 0.05447908145947622 SKQIKRLKNP 10 Unmodified _SKQIKRLKNP_ 0 0 0 REV__ENST00000233190.10_1_2:207012501-207013785:-|nuORF REV__ENST00000233190.10_1_2:207012501-207013785:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.58978271484375 3 404.59094 1210.75099 NaN NaN NaN NaN NaN NaN NaN 33.297 1 33.297 32.797 33.797 0 0 0 0 1.0001 1 15085 15085 1.5923 0.48253 1 + 30644 14860 19607 19668 34515 34515 0.15404449342349835 SKQILKQKLL 10 Unmodified _SKQILKQKLL_ 0 0 0 nc|ENSG00000104517|O95071-2|UBR5;ENSG00000104517|ENST00000520539|UBR5 nc|ENSG00000104517|O95071-2|UBR5 nc|ENSG00000104517|O95071-2|UBR5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 599.9011840820312 2 599.897723 1197.78089 NaN NaN NaN NaN NaN NaN NaN 93.233 1 93.319 92.819 93.819 0.086212 0 0 0 0.99846 1 48797 48797 2.9952 0 1 30645 1442 19608 19669 34516 34516 0.18991388287713562 SKQQAKIEAT 10 Unmodified _SKQQAKIEAT_ 0 0 0 ENSG00000055609|ENST00000262189|KMT2C;nc|ENSG00000055609|Q8NEZ4-2|KMT2C;nc|ENSG00000055609|Q8NEZ4-3|KMT2C ENSG00000055609|ENST00000262189|KMT2C ENSG00000055609|ENST00000262189|KMT2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.3080444335938 2 552.306395 1102.59824 4.3922 0.0024259 -0.19002 -0.00010495 4.2022 0.0023209 552.3057959951618 99.042 0.14027 99.342 99.273 99.413 0.29987 17 9 3 0 0 0 0.81759 1 45701 45701 7.609 0.31972 1 3180300 30646 616 19609 19670 34517 34517 0.05104209155069839 SKREPVKPKR 10 Unmodified _SKREPVKPKR_ 0 0 0 REV__nc|ENSG00000188158|Q6T4R5-4|NHS REV__nc|ENSG00000188158|Q6T4R5-4|NHS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 408.92388916015625 3 408.922689 1223.74624 NaN NaN NaN NaN NaN NaN NaN 103.17 1 103.49 102.99 103.99 0.31863 0 0 0 1.0013 1 47702 47702 0.62683 0.41997 1 + 30647 14134 19610 19671 34518 34518 0.14331565199586294 SKRKKRVV 8 Unmodified _SKRKKRVV_ 0 0 0 REV__RNF111|p.S570Tfs*48|1|0.14|ENSG00000157450|chr15:59075975-59075978|AGCA/-|frameshift_variant REV__RNF111|p.S570Tfs*48|1|0.14|ENSG00000157450|chr15:59075975-59075978|AGCA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.8403015136719 2 500.840542 999.666532 NaN NaN NaN NaN NaN NaN NaN 107 1 107.32 106.82 107.82 0.31628 0 0 0 0.99035 1 49368 49368 0.6015 0.6015 1 + 30648 12802 19611 19672 34519 34519 0.1666854331626837 SKRKLKKIKA 10 Unmodified _SKRKLKKIKA_ 0 0 0 REV__SYNE2|p.Q817Kfs*12|1|0.39|ENSG00000054654|chr14:63990544-63990544|T/-|frameshift_variant REV__SYNE2|p.Q817Kfs*12|1|0.39|ENSG00000054654|chr14:63990544-63990544|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 600.4246826171875 2 600.419157 1198.82376 NaN NaN NaN NaN NaN NaN NaN 101.3 1 101.89 101.39 102.39 0.59717 0 0 0 1.0003 1 46900 46900 1.4819 0.15237 1 + 30649 18227 19612 19673 34520 34520 0.23230203135767624 SKRLGADWK 9 Unmodified _SKRLGADWK_ 0 0 0 ENSG00000134595|ENST00000370536|SOX3 ENSG00000134595|ENST00000370536|SOX3 ENSG00000134595|ENST00000370536|SOX3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.7996215820312 2 530.79854 1059.58253 NaN NaN NaN NaN NaN NaN NaN 86.431 1 86.431 85.931 86.931 0 0 0 0 0.8911 1 44300 44300 5.7319 0 1 30650 2819 19613 19674 34521 34521 0.05511967428697062 SKRRHWRRRKL 11 Unmodified _SKRRHWRRRKL_ 0 0 0 ENST00000478577.1_1_17:54650436-54650553:+|nuORF ENST00000478577.1_1_17:54650436-54650553:+|nuORF ENST00000478577.1_1_17:54650436-54650553:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.9923706054688 3 526.994064 1577.96036 NaN NaN NaN NaN NaN NaN NaN 69.049 1 69.708 69.208 70.208 0.65924 0 0 0 1.0082 1 31652 31652 0.094841 0.094841 1 30651 8254 19614 19675 34522 34522 0.1945013013882999 SKRRKGQRVH 10 Unmodified _SKRRKGQRVH_ 0 0 0 REV__ENSG00000143512|ENST00000343410|HHIPL2 REV__ENSG00000143512|ENST00000343410|HHIPL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 313.69293212890625 4 313.693081 1250.74322 2.2768 0.00071421 -1.1145 -0.0003496 1.1623 0.00036461 313.69231436414384 39.104 0.89393 39.901 39.301 40.195 0.79762 155 42 5 0 0 0 0.94134 1 17738 17738 0.62683 0 1 3869100 + 30652 12372 19615 19676 34523 34523 0.1278773486544651 SKRRKIFKKKL 11 Unmodified _SKRRKIFKKKL_ 0 0 0 REV__ENSG00000011114|ENST00000334746|BTBD7 REV__ENSG00000011114|ENST00000334746|BTBD7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 716.4854736328125 2 716.485363 1430.95617 NaN NaN NaN NaN NaN NaN NaN 80.136 1 80.386 79.886 80.886 0.24947 0 0 0 1.0082 1 36899 36899 0 0 1 + 30653 10232 19616 19677 34524 34524 0.2579322787257752 SKRRLIFSKRK 11 Unmodified _SKRRLIFSKRK_ 0 0 0 ENSG00000124762|ENST00000244741|CDKN1A ENSG00000124762|ENST00000244741|CDKN1A ENSG00000124762|ENST00000244741|CDKN1A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.3070373535156 3 473.640405 1417.89939 3.0753 0.0014566 -1.1325 -0.00053639 1.9428 0.00092018 473.63994711579085 49.436 0.43059 50.091 49.763 50.194 0.65525 19 14 2 0 0 0 0.13295 1 22504 22504 0.40827 0.31342 1 730350 30654 2377 19617 19678 34525 34525 0.20715180316051374 SKRRLQVCH 9 Unmodified _SKRRLQVCH_ 0 0 0 ENST00000474094.1_1_6:74502386-74513776:+|nuORF ENST00000474094.1_1_6:74502386-74513776:+|nuORF ENST00000474094.1_1_6:74502386-74513776:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.2147216796875 3 376.213586 1125.61893 2.5002 0.00094062 0.80024 0.00030106 3.3005 0.0012417 376.2138032553641 55.187 0.70216 55.452 55.133 55.835 0.26543 70 39 3 0 0 0 1.1138 1 25364 25364 2.086 2.086 1 3824300 30655 8203 19618 19679 34526 34526 0.061145210537461026 SKRRYMLVIII 11 Unmodified _SKRRYMLVIII_ 0 0 0 REV__nc|ENSG00000164050|O43157-2|PLXNB1 REV__nc|ENSG00000164050|O43157-2|PLXNB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 696.734375 2 696.431407 1390.84826 NaN NaN NaN NaN NaN NaN NaN 82.258 1 82.258 81.758 82.758 0 0 0 0 1.0063 1 41113 41113 2.4985 0.84587 1 + 30656 13054 19619 19680 34527 34527 0.1684709522698995 SKRSKNIKKK 10 Unmodified _SKRSKNIKKK_ 0 0 0 ENSG00000177025|ENST00000314391|C19orf18 ENSG00000177025|ENST00000314391|C19orf18 ENSG00000177025|ENST00000314391|C19orf18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 609.1218872070312 2 608.896046 1215.77754 NaN NaN NaN NaN NaN NaN NaN 87.216 1 87.216 86.716 87.716 0 0 0 0 0.99572 1 44911 44911 5.2969 1.3525 1 30657 5096 19620 19681 34528 34528 0.17828138233676327 SKRSRGLL 8 Unmodified _SKRSRGLL_ 0 0 0 REV__ENST00000543714.5_1_11:73689377-73689479:-|nuORF REV__ENST00000543714.5_1_11:73689377-73689479:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 458.7897033691406 2 458.787976 915.561398 3.0777 0.001412 0.47026 0.00021575 3.5479 0.0016277 458.7882023885997 88.055 0.63382 88.734 88.519 89.153 0.67818 89 28 5 0 0 0 0.74709 1 40656 40656 2.0598 0 1 62720000 + 30658 17234 19621 19682 34529 34529 0.10024002119860143 SKRVGIIGA 9 Unmodified _SKRVGIIGA_ 0 0 0 nc|ENSG00000293458|O60774|FMO6P nc|ENSG00000293458|O60774|FMO6P nc|ENSG00000293458|O60774|FMO6P MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.7882995605469 2 450.784902 899.55525 NaN NaN NaN NaN NaN NaN NaN 62.615 1 62.864 62.364 63.364 0.24965 0 0 0 0.8911 1 28670 28670 5.7319 0.50118 1 30659 9885 19622 19683 34530 34530 0.10145483888334184 SKRWFKRWKWK 11 Unmodified _SKRWFKRWKWK_ 0 0 0 REV__ENST00000315183.11_2_16:24801717-24801792:+|nuORF REV__ENST00000315183.11_2_16:24801717-24801792:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 818.5280151367188 2 818.472786 1634.93102 NaN NaN NaN NaN NaN NaN NaN 92.438 1 92.521 92.021 93.021 0.082848 0 0 0 1.0073 1 48172 48172 1.1933 0 1 + 30660 15285 19623 19684 34531 34531 0.13895173070000055 SKRYQKFL 8 Unmodified _SKRYQKFL_ 0 0 0 REV__nc|ENSG00000168234|Q8N584-3|TTC39C REV__nc|ENSG00000168234|Q8N584-3|TTC39C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.3126831054688 2 535.311284 1068.60801 NaN NaN NaN NaN NaN NaN NaN 102.2 1 102.79 102.29 103.29 0.59759 0 0 0 0.99035 1 47308 47308 0.69038 0 1 + 30661 18031 19624 19685 34532 34532 0.07645441951149223 SKSAGPLLHL 10 Unmodified _SKSAGPLLHL_ 0 0 0 REV__ENST00000549913.6_1_12:113307544-113334582:+|nuORF REV__ENST00000549913.6_1_12:113307544-113334582:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 511.8040466308594 2 511.803291 1021.59203 NaN NaN NaN NaN NaN NaN NaN 83.009 1 83.054 82.554 83.554 0.045006 0 0 0 0.96579 1 41087 41087 12.241 1.4167 1 + 30662 10693 19625 19686 34533 34533 0.08209735714251565 SKSCVVGHIEL 11 Unmodified _SKSCVVGHIEL_ 0 0 0 REV__ENSG00000079691|ENST00000329474|CARMIL1 REV__ENSG00000079691|ENST00000329474|CARMIL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 391.21087646484375 3 391.209508 1170.60669 2.6869 0.0010512 -0.032763 -1.2817E-05 2.6542 0.0010383 391.2094321329058 39.653 0.23959 39.653 39.551 39.79 0 22 11 3 0 0 0 0.75708 1 17998 17998 8.7518 2.1283 1 1011200 + 30663 10585 19626 19687 34534 34534 0.02821439800072767 SKSCVVGHIEL 11 Unmodified _SKSCVVGHIEL_ 0 0 0 REV__ENSG00000079691|ENST00000329474|CARMIL1 REV__ENSG00000079691|ENST00000329474|CARMIL1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 391.209508 1170.60669 2.6869 0.0010512 -0.032763 -1.2817E-05 2.6542 0.0010383 391.2094321329058 39.653 0.23959 39.653 39.551 39.79 0 0 0 NaN 8.7518 22 11 3 NaN NaN NaN NaN 0 NaN NaN 0 1011200 + 30664 10585 19626 19687 0.02821439800072767 SKSEVKKKK 9 Unmodified _SKSEVKKKK_ 0 0 0 REV__nc|ENSG00000084093|Q13127-4|REST REV__nc|ENSG00000084093|Q13127-4|REST MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.8369140625 2 531.337498 1060.66044 2.1644 0.00115 -1.5027 -0.00079846 0.66167 0.00035157 531.3369618657551 88.883 0.035385 88.935 88.921 88.956 0.052155 8 4 2 0 0 0 0.10873 1 45409 45409 1.3295 0 1 9321300 + 30665 10634 19627 19688 34535 34535 0.13253980294075518 SKSGTKKKK 9 Unmodified _SKSGTKKKK_ 0 0 0 REV__DNAJC1|p.E254Kfs*4|1|0.3|ENSG00000136770|chr10:21904583-21904583|T/-|frameshift_variant REV__DNAJC1|p.E254Kfs*4|1|0.3|ENSG00000136770|chr10:21904583-21904583|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.31622314453125 2 496.316566 990.618579 NaN NaN NaN NaN NaN NaN NaN 102.94 1 102.94 102.44 103.44 0 0 0 0 0.91452 1 56785 56785 0 0 1 + 30666 10133 19628 19689 34536 34536 0.12289424605557997 SKSSAPAG 8 Unmodified _SKSSAPAG_ 0 0 0 REV__ENSG00000138031|ENST00000679454|ADCY3 REV__ENSG00000138031|ENST00000679454|ADCY3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.6849060058594 2 352.682311 703.350068 NaN NaN NaN NaN NaN NaN NaN 70.701 1 70.958 70.458 71.458 0.25642 0 0 0 0.99035 1 32379 32379 2.3027 0.24298 1 + 30667 12142 19629 19690 34537 34537 -0.013472946419142318 SKTEVTDLRRT 11 Unmodified _SKTEVTDLRRT_ 0 0 0 CON__P19001 CON__P19001 CON__P19001 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 653.5570068359375 2 653.35969 1304.70483 NaN NaN NaN NaN NaN NaN NaN 88.616 1 88.668 88.168 89.168 0.052155 0 0 0 1.0063 1 45192 45192 2.4985 0.84587 1 + 30668 219 19630 19691 34538 34538 0.06466339649591646 SKTGRVQER 9 Unmodified _SKTGRVQER_ 0 0 0 REV__ENST00000371080.5_1_1:64239708-64475003:+|nuORF REV__ENST00000371080.5_1_1:64239708-64475003:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.8382568359375 2 530.796529 1059.5785 2.6323 0.0013972 0.20443 0.00010851 2.8367 0.0015057 530.7972158294144 86.726 0.05555 86.726 86.686 86.742 0 10 8 2 0 0 0 0.75535 1 44522 44522 8.1555 0 1 25768000 + 30669 15735 19631 19692 34539 34539 0.05109877934978613 SKTSGKAK 8 Unmodified _SKTSGKAK_ 0 0 0 nc|ENSG00000123243|Q86UX2-4|ITIH5;ENST00000476417.5_1_10:7615057-7659255:-|nuORF nc|ENSG00000123243|Q86UX2-4|ITIH5 nc|ENSG00000123243|Q86UX2-4|ITIH5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 403.7407531738281 2 403.74016 805.465767 NaN NaN NaN NaN NaN NaN NaN 90.653 1 91.325 90.825 91.825 0.67271 0 0 0 0.99035 1 41724 41724 0.69038 0 1 30670 8231 19632 19693 34540 34540 0.05525229208944893 SKVAERRYV 9 Unmodified _SKVAERRYV_ 0 0 0 REV__ENST00000411990.6_1_1:207235951-207252361:+|nuORF REV__ENST00000411990.6_1_1:207235951-207252361:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.310791015625 2 554.317097 1106.61964 NaN NaN NaN NaN NaN NaN NaN 94.353 1 94.353 93.853 94.853 0 0 0 0 0.87786 1 50588 50588 6.7232 0 1 + 30671 11625 19633 19694 34541 34541 0.07059638974465088 SKVKLKKTKK 10 Unmodified _SKVKLKKTKK_ 0 0 0 nc|ENSG00000084093|Q13127-4|REST;ENSG00000084093|ENST00000309042|REST nc|ENSG00000084093|Q13127-4|REST nc|ENSG00000084093|Q13127-4|REST MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 594.6783447265625 2 594.41354 1186.81253 NaN NaN NaN NaN NaN NaN NaN 97.851 1 98.141 97.641 98.641 0.28923 0 0 0 1.0017 1 44985 44985 0.30703 0.30703 1 30672 952 19634 19695 34542 34542 0.2265938104160341 SKVKRRVR 8 Unmodified _SKVKRRVR_ 0 0 0 nc|ENSG00000184792|Q969R2-3|OSBP2;nc|ENSG00000184792|Q969R2-2|OSBP2;ENSG00000184792|ENST00000332585|OSBP2;nc|ENSG00000184792|Q969R2-5|OSBP2;nc|ENSG00000184792|Q969R2-4|OSBP2;nc|ENSG00000184792|Q969R2-6|OSBP2 nc|ENSG00000184792|Q969R2-3|OSBP2 nc|ENSG00000184792|Q969R2-3|OSBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.842529296875 2 514.843616 1027.67268 NaN NaN NaN NaN NaN NaN NaN 90.296 1 90.36 89.86 90.86 0.064346 0 0 0 0.99035 1 46496 46496 2.3027 0 1 30673 5462 19635 19696 34543 34543 0.15995061547778278 SKVKSSVQLI 10 Unmodified _SKVKSSVQLI_ 0 0 0 REV__ENST00000556852.1_1_14:74538902-74551097:-|nuORF REV__ENST00000556852.1_1_14:74538902-74551097:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.837890625 2 544.837331 1087.66011 NaN NaN NaN NaN NaN NaN NaN 87.709 1 87.749 87.249 88.249 0.039955 0 0 0 0.96642 1 44483 44483 10.8 1.4164 1 + 30674 11513 19636 19697 34544 34544 0.11978560574243602 SKVLHYQKHL 10 Unmodified _SKVLHYQKHL_ 0 0 0 REV__ENST00000557725.5_1_14:93172722-93179177:-|nuORF REV__ENST00000557725.5_1_14:93172722-93179177:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 626.4437255859375 2 626.861672 1251.70879 3.988 0.0024999 -3.1539 -0.001977 0.83416 0.0005229 626.8591750690949 100.42 0.093536 101.01 100.96 101.05 0.59717 6 3 2 0 0 0 0.12676 1 46487 46487 11.495 2.1116 1 866650 + 30675 10838 19637 19698 34545 34545 0.09300473933990361 SKVLHYQKHL 10 Unmodified _SKVLHYQKHL_ 0 0 0 REV__ENST00000557725.5_1_14:93172722-93179177:-|nuORF REV__ENST00000557725.5_1_14:93172722-93179177:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 626.861672 1251.70879 4.5366 0.0028438 -3.9516 -0.0024771 0.58493 0.00036667 626.8579357372628 100.52 0.065216 100.83 100.79 100.85 0.31412 -0.092299 -0.0007562 NaN 11.495 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 582170 + 30676 10838 19637 19698 0.09300473933990361 SKVRHKLRKFL 11 Unmodified _SKVRHKLRKFL_ 0 0 0 nc|ENSG00000159314|Q6ZUM4-2|ARHGAP27;nc|ENSG00000159314|Q6ZUM4-3|ARHGAP27;ENSG00000159314|ENST00000685559|ARHGAP27 nc|ENSG00000159314|Q6ZUM4-2|ARHGAP27 nc|ENSG00000159314|Q6ZUM4-2|ARHGAP27 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.3084716796875 3 471.305134 1410.89357 NaN NaN NaN NaN NaN NaN NaN 102.69 1 103.29 102.79 103.79 0.59759 0 0 0 1.008 1 47524 47524 0.073264 0.073264 1 30677 4018 19638 19699 34546 34546 0.20456081804400128 SKWERQDYEKM 11 Unmodified _SKWERQDYEKM_ 0 0 0 nc|ENSG00000144115|Q86YJ6-5|THNSL2;nc|ENSG00000144115|Q86YJ6-2|THNSL2 nc|ENSG00000144115|Q86YJ6-5|THNSL2 nc|ENSG00000144115|Q86YJ6-5|THNSL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.56951904296875 3 500.569764 1498.68746 NaN NaN NaN NaN NaN NaN NaN 57.918 1 58.586 58.086 59.086 0.66829 0 0 0 1.008 1 26505 26505 0.073264 0 1 30678 9679 19639 19700 34547 34547 -0.04193323947697536 SKWYYESSERD 11 Unmodified _SKWYYESSERD_ 0 0 0 REV__nc|ENSG00000169064|A8MT70-3|ZBBX REV__nc|ENSG00000169064|A8MT70-3|ZBBX MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 725.1864624023438 2 725.317688 1448.62082 NaN NaN NaN NaN NaN NaN NaN 109.48 1 110.09 109.59 110.59 0.60264 0 0 0 1.0073 1 50493 50493 1.1933 0 1 + 30679 13379 19640 19701 34548 34548 -0.0855423623797833 SKYIAKTI 8 Unmodified _SKYIAKTI_ 0 0 0 REV__nc|ENSG00000138768|O60763-2|USO1 REV__nc|ENSG00000138768|O60763-2|USO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.5246887207031 3 308.523532 922.548768 2.29 0.00070653 0.3773 0.00011641 2.6674 0.00082294 308.5236296847323 19.512 0.20459 20.17 20.081 20.286 0.6583 23 13 2 0 0 0 0.73556 1 8867 8867 2.9952 0.49676 1 191340 + 30680 17962 19641 19702 34549 34549 0.08439545936960258 SKYVKTLNE 9 Unmodified _SKYVKTLNE_ 0 0 0 REV__nc|ENSG00000107331|Q9BZC7|ABCA2 REV__nc|ENSG00000107331|Q9BZC7|ABCA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.6476440429688 2 541.298039 1080.58152 NaN NaN NaN NaN NaN NaN NaN 89.886 1 89.95 89.45 90.45 0.064346 0 0 0 0.8911 1 46170 46170 5.7319 0.43497 1 + 30681 11112 19642 19703 34550 34550 0.04445708269145143 SLARGQRRRPL 11 Unmodified _SLARGQRRRPL_ 0 0 0 REV__ENST00000452622.1_1_7:560084-560396:+|nuORF REV__ENST00000452622.1_1_7:560084-560396:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.2041931152344 4 328.203547 1308.78508 2.0725 0.0006802 -1.8179 -0.00059665 0.25456 8.3547E-05 328.20299361227546 54.867 0.3083 55.132 55.093 55.401 0.26543 35 18 3 0 0 0 0.91373 1 25093 25093 0.36667 0.20735 1 1403500 + 30682 16420 19643 19704 34551 34551 0.1430429055399145 SLARLIFSVFL 11 Unmodified _SLARLIFSVFL_ 0 0 0 REV__ENSG00000080293|ENST00000019103|SCTR REV__ENSG00000080293|ENST00000019103|SCTR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 317.19683837890625 4 317.195862 1264.75434 2.2317 0.00070788 1.0011 0.00031755 3.2328 0.0010254 317.1960998730227 45.984 0.84563 46.81 46.218 47.064 0.82621 141 43 4 0 0 0 0.89844 1 20929 20929 1.0136 0.55906 1 9758700 + 30683 10591 19644 19705 34552 34552 0.13255699396381715 SLASYTFLIDD 11 Unmodified _SLASYTFLIDD_ 0 0 0 nc|ENSG00000158966|Q5VU97-2|CACHD1;ENSG00000158966|ENST00000651257|CACHD1 nc|ENSG00000158966|Q5VU97-2|CACHD1 nc|ENSG00000158966|Q5VU97-2|CACHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 622.8037109375 2 622.805894 1243.59723 NaN NaN NaN NaN NaN NaN NaN 49.767 1 50.424 49.924 50.924 0.65735 0 0 0 1.0061 1 22764 22764 2.7352 1.0826 1 30684 4005 19645 19706 34553 34553 -0.014820500044606888 SLAVSKRR 8 Unmodified _SLAVSKRR_ 0 0 0 REV__ENST00000587681.5_1_19:10229095-10230535:-|nuORF REV__ENST00000587681.5_1_19:10229095-10230535:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 458.78955078125 2 458.787976 915.561398 1.8458 0.00084682 0.4922 0.00022581 2.338 0.0010726 458.78808683603944 88.561 0.30602 88.613 88.443 88.749 0.052155 91 41 3 0 0 0 0.74071 1 45190 45190 2.5775 0 1 30935000 + 30685 17552 19646 19707 34554 34554 0.10024002119860143 SLAVSKRR 8 Unmodified _SLAVSKRR_ 0 0 0 REV__ENST00000587681.5_1_19:10229095-10230535:-|nuORF REV__ENST00000587681.5_1_19:10229095-10230535:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 458.7896728515625 2 458.787976 915.561398 3.0777 0.001412 0.47026 0.00021575 3.5479 0.0016277 458.7882023885997 88.055 0.63382 88.734 88.519 89.153 0.67818 89 28 5 0 0 0 0.74071 2 40496 40496;40542 2.5775 0 1 62720000 + 30686 17552 19646 19707 34555;34556 34555 0.10024002119860143 SLAVSKRR 8 Unmodified _SLAVSKRR_ 0 0 0 REV__ENST00000587681.5_1_19:10229095-10230535:-|nuORF REV__ENST00000587681.5_1_19:10229095-10230535:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 458.787976 915.561398 3.0777 0.001412 0.47026 0.00021575 3.5479 0.0016277 458.7882023885997 88.055 0.63382 88.734 88.519 89.153 0.67818 0.047514 -5.0348E-05 NaN 2.5775 89 28 5 NaN NaN NaN NaN 0 NaN NaN 0 62720000 + 30687 17552 19646 19707 0.10024002119860143 SLAVSYQQ 8 Unmodified _SLAVSYQQ_ 0 0 0 ENST00000602172.1_1_19:48758950-48759049:+|nuORF ENST00000602172.1_1_19:48758950-48759049:+|nuORF ENST00000602172.1_1_19:48758950-48759049:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.23138427734375 2 448.229625 894.444697 3.3029 0.0014804 0.54215 0.00024301 3.845 0.0017235 448.22984449494635 93.278 0.64317 93.909 93.63 94.273 0.63115 64 30 3 0 0 0 0.74071 1 42987 42987 2.5775 0 1 939650 30688 9303 19647 19708 34557 34557 -0.006747808905629427 SLCQACCC 8 Unmodified _SLCQACCC_ 0 0 0 ENST00000413916.5_1_7:44807392-44807602:+|nuORF ENST00000413916.5_1_7:44807392-44807602:+|nuORF ENST00000413916.5_1_7:44807392-44807602:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 831.2645263671875 1 830.266363 829.259086 3.9091 0.0032456 -0.52551 -0.00043631 3.3836 0.0028093 830.2681439135649 8.7898 0.47986 8.7898 8.51 8.9898 0 82 47 2 0 0 0 0.7471 1 4014 4014 0.79363 0 1 37273 30689 7694 19648 19709 34558 34558 -0.16237289269213306 SLDLKDGLI 9 Unmodified _SLDLKDGLI_ 0 0 0 REV__ENST00000343889.8_1_1:2411150-2434522:+|nuORF REV__ENST00000343889.8_1_1:2411150-2434522:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2813415527344 2 487.281857 972.549162 2.9384 0.0014319 0.63768 0.00031073 3.5761 0.0017426 487.28149712842276 76.685 0.27606 76.94 76.811 77.087 0.25533 29 19 2 0 0 0 0.20384 2 35307 35307;35364 23.148 0 1 705010 + 30690 12571 19649 19710 34559;34560 34559 0.06178920866148019 SLDLKDGLI 9 Unmodified _SLDLKDGLI_ 0 0 0 REV__ENST00000343889.8_1_1:2411150-2434522:+|nuORF REV__ENST00000343889.8_1_1:2411150-2434522:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.28485107421875 2 487.281857 972.549162 NaN NaN NaN NaN NaN NaN NaN 76.232 1 76.895 76.395 77.395 0.66387 0 0 0 0.3934 1 35118 35118 23.148 0 1 + 30691 12571 19649 19710 34561 34561 0.06178920866148019 SLDLSPPP 8 Unmodified _SLDLSPPP_ 0 0 0 ENST00000405995.5_1_9:134372150-134372429:+|nuORF ENST00000405995.5_1_9:134372150-134372429:+|nuORF ENST00000405995.5_1_9:134372150-134372429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 825.4420166015625 1 825.435261 824.427984 3.5991 0.0029708 0.51748 0.00042715 4.1166 0.003398 825.4356666689308 76.243 0.30111 76.907 76.765 77.066 0.66387 33 18 2 0 0 0 0.18676 1 35193 35193 44.407 1.439 1 1120400 30692 7641 19650 19711 34562 34562 0.008747182234742468 SLDLYYPVY 9 Unmodified _SLDLYYPVY_ 0 0 0 REV__ENSG00000179476|ENST00000325192|C14orf28 REV__ENSG00000179476|ENST00000325192|C14orf28 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.7890625 3 378.190219 1131.54883 NaN NaN NaN NaN NaN NaN NaN 69.4 1 70.061 69.561 70.561 0.66071 0 0 0 0.90611 1 31814 31814 1.0715 0.10919 1 + 30693 13798 19651 19712 34563 34563 -0.011684988537126628 SLDRKKYMKA 10 Unmodified _SLDRKKYMKA_ 0 0 0 ENSG00000103540|ENST00000694978|CCP110;nc|ENSG00000103540|O43303|CCP110 ENSG00000103540|ENST00000694978|CCP110 ENSG00000103540|ENST00000694978|CCP110 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 620.3458862304688 2 620.34754 1238.68053 NaN NaN NaN NaN NaN NaN NaN 16.573 1 17.231 16.731 17.731 0.65798 0 0 0 1.0004 1 7469 7469 1.3295 0.13619 1 30694 1406 19652 19713 34564 34564 0.07073407962388956 SLDRLRAL 8 Unmodified _SLDRLRAL_ 0 0 0 nc|ENSG00000056487|Q96EK2-3|PHF21B;ENSG00000056487|ENST00000313237|PHF21B;nc|ENSG00000056487|Q96EK2-4|PHF21B nc|ENSG00000056487|Q96EK2-3|PHF21B nc|ENSG00000056487|Q96EK2-3|PHF21B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.2919006347656 2 472.287808 942.561064 3.3695 0.0015914 0.84535 0.00039925 4.2148 0.0019906 472.28831019479253 90.943 0.82042 91.195 90.913 91.734 0.25163 135 39 5 0 0 0 0.72385 1 41945 41945 0.69038 0 1 68593000 30695 621 19653 19714 34565 34565 0.08748582400005489 SLEAEREQFD 10 Unmodified _SLEAEREQFD_ 0 0 0 nc|ENSG00000130787|O75146-2|HIP1R;ENST00000452196.6_1_12:123320097-123341792:+|nuORF;ENSG00000130787|ENST00000253083|HIP1R nc|ENSG00000130787|O75146-2|HIP1R nc|ENSG00000130787|O75146-2|HIP1R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 408.5238952636719 3 408.522808 1222.5466 NaN NaN NaN NaN NaN NaN NaN 37.691 1 37.691 37.191 38.191 0 0 0 0 0.99976 1 17105 17105 1.9064 1.2087 1 30696 2622 19654 19715 34566 34566 -0.05577579329474247 SLEKRQKRRWY 11 Unmodified _SLEKRQKRRWY_ 0 0 0 REV__nc|ENSG00000154134|Q96MS0-2|ROBO3 REV__nc|ENSG00000154134|Q96MS0-2|ROBO3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 775.4403076171875 2 775.439141 1548.86373 NaN NaN NaN NaN NaN NaN NaN 63.104 1 63.104 62.604 63.604 0 0 0 0 1.0073 1 29645 29645 1.1933 0.88631 1 + 30697 12694 19655 19716 34567 34567 0.11125098068396255 SLELKENVHLE 11 Unmodified _SLELKENVHLE_ 0 0 0 nc|ENSG00000138039|P22888-2|LHCGR;ENSG00000138039|ENST00000294954|LHCGR nc|ENSG00000138039|P22888-2|LHCGR nc|ENSG00000138039|P22888-2|LHCGR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.5711669921875 3 437.56987 1309.68778 3.0088 0.0013165 0.10023 4.3859E-05 3.109 0.0013604 437.5698485232526 22.054 0.3316 22.054 21.871 22.202 0 65 24 3 0 0 0 0.82535 1 9922 9922 2.6312 0 1 819140 30698 3064 19656 19717 34568 34568 0.04532419043835034 SLEPRRVTNQ 10 Unmodified _SLEPRRVTNQ_ 0 0 0 ENSG00000169184|ENST00000302326|MN1 ENSG00000169184|ENST00000302326|MN1 ENSG00000169184|ENST00000302326|MN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.5682373046875 3 400.554554 1198.64183 NaN NaN NaN NaN NaN NaN NaN 27.173 1 27.437 26.937 27.937 0.26445 0 0 0 0.94673 1 12349 12349 8.4443 3.7284 1 30699 4674 19657 19718 34569 34569 0.050458186522291726 SLETRNKI 8 Unmodified _SLETRNKI_ 0 0 0 ENSG00000135925|ENST00000258411|WNT10A ENSG00000135925|ENST00000258411|WNT10A ENSG00000135925|ENST00000258411|WNT10A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 320.8546142578125 3 320.853941 959.539994 2.1511 0.00069018 0.48101 0.00015433 2.6321 0.00084451 320.8540201179334 15.875 0.98688 15.875 15.377 16.363 0 301 119 3 0 0 0 0.70799 1 6880 6880 3.5965 0 1 430910 30700 2912 19658 19719 34570 34570 0.058605723004689025 SLFKRLYSL 9 Unmodified _SLFKRLYSL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.8369750976562 2 563.834591 1125.65463 NaN NaN NaN NaN NaN NaN NaN 56.356 1 56.621 56.121 57.121 0.26543 0 0 0 0.14425 1 25779 25779 33.445 1.1394 1 30701 6272 19659 19720 34571 34571 0.0968288178239618 SLFKRLYSL 9 Unmodified _SLFKRLYSL_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.8369750976562 2 563.834591 1125.65463 3.5906 0.0020245 -0.34571 -0.00019493 3.2449 0.0018296 563.8343735878308 55.646 0.24731 56.314 56.179 56.426 0.66798 14 8 2 0 0 0 0.1081 1 25466 25466 30.703 4.4353 1 1175400 30702 6272 19659 19720 34572 34572 0.0968288178239618 SLFNKLDKYLK 11 Unmodified _SLFNKLDKYLK_ 0 0 0 REV__ENST00000605039.5_1_12:51696457-51717886:-|nuORF REV__ENST00000605039.5_1_12:51696457-51717886:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.134521484375 2 684.89792 1367.78129 3.1524 0.002159 -0.054597 -3.7393E-05 3.0978 0.0021216 685.3991800827952 79.8 0.038742 79.8 79.776 79.815 0 4 2 2 0 0 0 0.13295 1 39499 39499 2.7352 0 1 6432300 + 30703 9978 19660 19721 34573 34573 0.1121076321687724 SLFYLENKFEW 11 Unmodified _SLFYLENKFEW_ 0 0 0 REV__ENSG00000154262|ENST00000284425|ABCA6 REV__ENSG00000154262|ENST00000284425|ABCA6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 738.3917846679688 2 738.36391 1474.71327 NaN NaN NaN NaN NaN NaN NaN 77.527 1 78.087 77.587 78.587 0.56091 0 0 0 1.0059 1 37596 37596 2.9952 0 1 + 30704 12703 19661 19722 34574 34574 -0.005101064337850403 SLGKSFFKTL 10 Unmodified _SLGKSFFKTL_ 0 0 0 nc|ENSG00000156675|Q6WKZ4-5|RAB11FIP1 nc|ENSG00000156675|Q6WKZ4-5|RAB11FIP1 nc|ENSG00000156675|Q6WKZ4-5|RAB11FIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.5547790527344 3 376.553492 1126.63865 2.9164 0.0010982 1.001 0.00037692 3.9174 0.0014751 376.5539115244909 12.888 0.16546 13.531 13.446 13.612 0.64272 6 4 2 0 0 0 0.78028 1 5804 5804 8.4443 4.0382 1 291650 30705 9704 19662 19723 34575 34575 0.08039175545536636 SLGLLANQRKR 11 Unmodified _SLGLLANQRKR_ 0 0 0 ENST00000471188.5_1_7:92887474-92887687:+|nuORF;nc|ENSG00000004766|Q96JG6-2|VPS50;ENST00000441602.5_1_7:92883193-92979232:+|nuORF;nc|ENSG00000004766|Q96JG6-3|VPS50;ENSG00000004766|ENST00000305866|VPS50 ENST00000471188.5_1_7:92887474-92887687:+|nuORF ENST00000471188.5_1_7:92887474-92887687:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 628.3854370117188 2 628.383303 1254.75205 3.9768 0.002499 -0.54715 -0.00034382 3.4297 0.0021552 628.3826694194654 89.612 0.90478 90.29 89.962 90.867 0.67818 86 42 3 0 0 0 0.91111 1 41312 41312 1.1933 1.1933 1 1544400 30706 316 19663 19724 34576 34576 0.13486663711250912 SLGLMPKSI 9 Unmodified _SLGLMPKSI_ 0 0 0 ENSG00000008311|ENST00000417368|AASS ENSG00000008311|ENST00000417368|AASS ENSG00000008311|ENST00000417368|AASS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.2768249511719 2 473.275521 944.536489 3.0533 0.001445 -0.28294 -0.00013391 2.7703 0.0013111 473.27543726798774 29.267 0.40497 29.527 29.299 29.704 0.2602 58 24 3 0 0 0 0.029308 2 13310 13267;13310 56.177 4.7618 1 437710 30707 377 19664 19725 34577;34578 34578 0.06200186202261193 SLGQEATRAP 10 Unmodified _SLGQEATRAP_ 0 0 0 ENST00000371250.3_1_1:57002717-57044912:-|nuORF ENST00000371250.3_1_1:57002717-57044912:-|nuORF ENST00000371250.3_1_1:57002717-57044912:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.2689208984375 2 515.269813 1028.52507 3.2825 0.0016914 -2.5332 -0.0013053 0.74928 0.00038608 515.770365593129 38.011 0.23913 38.645 38.438 38.677 0.63388 12 7 2 0 0 0 0.12676 1 17388 17388 7.2892 0.56607 1 698340 30708 7315 19665 19726 34579 34579 0.011950804324669662 SLHAHGLA 8 Unmodified _SLHAHGLA_ 0 0 0 ENSG00000188938|ENST00000375412|FAM120AOS ENSG00000188938|ENST00000375412|FAM120AOS ENSG00000188938|ENST00000375412|FAM120AOS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 403.2211608886719 2 403.219395 804.424236 2.9153 0.0011755 1.2056 0.00048614 4.1209 0.0016616 403.21966207346907 29.53 1.2457 29.53 29.141 30.387 0 187 100 2 0 0 0 0.70146 1 13238 13238 5.7604 0 1 1416200 30709 5691 19666 19727 34580 34580 0.014200932402786748 SLHAHGLA 8 Unmodified _SLHAHGLA_ 0 0 0 ENSG00000188938|ENST00000375412|FAM120AOS ENSG00000188938|ENST00000375412|FAM120AOS ENSG00000188938|ENST00000375412|FAM120AOS MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 403.219395 804.424236 2.751 0.0011093 1.4611 0.00058915 4.2121 0.0016984 403.2197662175901 28.467 1.1128 29.256 29.085 30.198 0.78921 -0.16835 -8.1232E-05 NaN 5.7604 185 92 3 NaN NaN NaN NaN 0 NaN NaN 0 1552800 30710 5691 19666 19727 0.014200932402786748 SLHAHGLA 8 Unmodified _SLHAHGLA_ 0 0 0 ENSG00000188938|ENST00000375412|FAM120AOS ENSG00000188938|ENST00000375412|FAM120AOS ENSG00000188938|ENST00000375412|FAM120AOS MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 403.219395 804.424236 3.1061 0.0012524 1.8291 0.00073753 4.9352 0.00199 403.219998660371 29.149 1.0047 29.409 29.187 30.192 0.2602 -0.015567 0.00021553 NaN 5.7604 156 73 3 NaN NaN NaN NaN 0 NaN NaN 0 1107300 30711 5691 19666 19727 0.014200932402786748 SLHAHGLA 8 Unmodified _SLHAHGLA_ 0 0 0 ENSG00000188938|ENST00000375412|FAM120AOS ENSG00000188938|ENST00000375412|FAM120AOS ENSG00000188938|ENST00000375412|FAM120AOS MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 403.219395 804.424236 2.9205 0.0011776 1.5529 0.00062616 4.4734 0.0018038 403.21995210493225 28.885 1.2339 29.503 29.053 30.287 0.61789 0.078255 -7.2049E-06 NaN 5.7604 147 83 2 NaN NaN NaN NaN 0 NaN NaN 0 1381700 30712 5691 19666 19727 0.014200932402786748 SLHHRPPWLWS 11 Unmodified _SLHHRPPWLWS_ 0 0 0 REV__ENST00000395715.7_1_8:116680788-116680932:-|nuORF REV__ENST00000395715.7_1_8:116680788-116680932:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 708.3729248046875 2 708.370195 1414.72584 NaN NaN NaN NaN NaN NaN NaN 68.038 1 68.74 68.24 69.24 0.70218 0 0 0 1.0061 1 32413 32413 2.7352 0.23671 1 + 30713 15990 19667 19728 34581 34581 0.03506394539772373 SLHPHPFTML 10 Unmodified _SLHPHPFTML_ 0 0 0 ENST00000496699.1_1_1:117509714-117517097:+|nuORF ENST00000496699.1_1_1:117509714-117517097:+|nuORF ENST00000496699.1_1_1:117509714-117517097:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 590.3037109375 2 590.302601 1178.59065 NaN NaN NaN NaN NaN NaN NaN 50.546 1 50.807 50.307 51.307 0.26146 0 0 0 0.99225 1 23103 23103 6.7232 1.4263 1 30714 8448 19668 19729 34582 34582 0.008497783538132353 SLHQFLWARM 10 Unmodified _SLHQFLWARM_ 0 0 0 REV__nc|ENSG00000179277|A6NDR6|MEIS3P1 REV__nc|ENSG00000179277|A6NDR6|MEIS3P1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 644.8369750976562 2 644.8346 1287.65465 3.9027 0.0025166 2.1236 0.0013694 6.0262 0.0038859 644.8360002377713 29.413 0.17855 29.671 29.613 29.791 0.25804 13 9 2 0 0 0 0.80609 1 13425 13425 8.1555 1.9497 1 201600 + 30715 11032 19669 19730 34583 34583 0.022325585107410006 SLHRKKLQL 9 Unmodified _SLHRKKLQL_ 0 0 0 nc|ENSG00000110841|Q86W92-4|PPFIBP1;ENSG00000110841|ENST00000228425|PPFIBP1;nc|ENSG00000110841|Q86W92|PPFIBP1;nc|ENSG00000110841|Q86W92-3|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.909423828125 3 374.90838 1121.70331 3.0474 0.0011425 0.12243 4.59E-05 3.1699 0.0011884 374.908368120247 12.361 0.03614 12.999 12.978 13.014 0.63746 4 2 2 0 0 0 0.22744 1 5535 5535 21.59 10.072 1 3286300 30716 1731 19670 19731 34584 34584 0.14732795142163013 SLHRKKLQL 9 Unmodified _SLHRKKLQL_ 0 0 0 nc|ENSG00000110841|Q86W92-4|PPFIBP1;ENSG00000110841|ENST00000228425|PPFIBP1;nc|ENSG00000110841|Q86W92|PPFIBP1;nc|ENSG00000110841|Q86W92-3|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 nc|ENSG00000110841|Q86W92-4|PPFIBP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 374.90838 1121.70331 1.9471 0.00072999 -0.10475 -3.9271E-05 1.8424 0.00069072 374.90841171483 12.371 0.037971 12.678 12.653 12.691 0.30727 -0.16032 -0.0001011 NaN 21.59 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 2085700 30717 1731 19670 19731 0.14732795142163013 SLHSAKIK 8 Unmodified _SLHSAKIK_ 0 0 0 ENST00000480023.1_1_9:132591268-132591846:-|nuORF ENST00000480023.1_1_9:132591268-132591846:-|nuORF ENST00000480023.1_1_9:132591268-132591846:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 442.75775146484375 2 442.271627 882.528701 2.2467 0.00099367 -0.70425 -0.00031147 1.5425 0.0006822 442.2713998189811 75.87 0.028976 76.533 76.515 76.544 0.6635 4 2 2 0 0 0 0.14146 1 36750 36750 5.2307 0 1 242010 30718 8272 19671 19732 34585 34585 0.08273794996989636 SLIITPKP 8 Unmodified _SLIITPKP_ 0 0 0 REV__ENST00000576708.5_2_17:5265347-5290366:-|nuORF REV__ENST00000576708.5_2_17:5265347-5290366:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.78204345703125 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 54.85 1 54.85 54.35 55.35 0 0 0 0 0.99035 1 25180 25180 2.0598 0 1 + 30719 11147 19672 19733 34586 34586 0.10388447425282266 SLIIYHPRCPK 11 Unmodified _SLIIYHPRCPK_ 0 0 0 ENST00000531050.5_1_6:128321419-128718758:-|nuORF ENST00000531050.5_1_6:128321419-128718758:-|nuORF ENST00000531050.5_1_6:128321419-128718758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.8705444335938 2 663.871182 1325.72781 NaN NaN NaN NaN NaN NaN NaN 84.564 1 84.812 84.312 85.312 0.24757 0 0 0 1.0059 1 38921 38921 2.9952 0.26005 1 30720 8723 19673 19734 34587 34587 0.07797687233392026 SLILLYLYGTR 11 Unmodified _SLILLYLYGTR_ 0 0 0 ENSG00000160870|ENST00000336374|CYP3A7;ENSG00000282301|ENST00000620220|CYP3A7-CYP3A51P;nc|ENSG00000160870|P24462-2|CYP3A7 ENSG00000160870|ENST00000336374|CYP3A7 ENSG00000160870|ENST00000336374|CYP3A7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 438.2625732421875 3 437.927218 1310.75982 3.0351 0.0013292 0.95796 0.00041952 3.9931 0.0017487 437.9274949958067 38.749 0.72941 39.386 38.92 39.649 0.63778 70 26 3 0 0 0 0.91111 1 17567 17567 0.40827 0 1 744430 30721 4084 19674 19735 34588 34588 0.11687378188162256 SLILRAGF 8 Unmodified _SLILRAGF_ 0 0 0 ENST00000419007.5_1_3:50311657-50311978:+|nuORF ENST00000419007.5_1_3:50311657-50311978:+|nuORF ENST00000419007.5_1_3:50311657-50311978:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 876.533203125 1 876.530164 875.522887 4.1565 0.0036433 -0.47331 -0.00041487 3.6832 0.0032284 876.5292267124263 104.18 0.048729 104.78 104.74 104.79 0.59885 16 10 2 0 0 0 0.7471 1 48168 48168 0.79363 0 1 542810 30722 7736 19675 19736 34589 34589 0.08014696485327022 SLIPQTDLFV 10 Unmodified _SLIPQTDLFV_ 0 0 0 REV__ENST00000595700.5_1_19:44242246-44254893:-|nuORF REV__ENST00000595700.5_1_19:44242246-44254893:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 378.21343994140625 3 378.213135 1131.61758 2.5038 0.00094696 0.79203 0.00029955 3.2958 0.0012465 378.21311007659364 36.387 0.38091 37.181 37.026 37.407 0.79342 32 18 3 0 0 0 0.93503 1 16531 16531 1.9064 0.83491 1 226980 + 30723 11053 19676 19737 34590 34590 0.05703165445970626 SLIRPKPKMK 10 Unmodified _SLIRPKPKMK_ 0 0 0 REV__ENST00000481250.1_1_4:156294267-156297002:-|nuORF REV__ENST00000481250.1_1_4:156294267-156297002:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.92352294921875 3 399.921521 1196.74273 3.8332 0.001533 0.98909 0.00039556 4.8223 0.0019286 399.92185422085646 99.408 0.12503 99.716 99.652 99.777 0.30834 13 6 3 0 0 0 0.94165 1 45921 45921 0.56317 0.29415 1 2731800 + 30724 13063 19677 19738 34591 34591 0.15223179101371898 SLISRRRRLL 10 Unmodified _SLISRRRRLL_ 0 0 0 ENST00000312275.9_1_3:157261142-157271066:+|nuORF ENST00000312275.9_1_3:157261142-157271066:+|nuORF ENST00000312275.9_1_3:157261142-157271066:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 635.4803466796875 2 635.414937 1268.81532 NaN NaN NaN NaN NaN NaN NaN 80.33 1 80.65 80.15 81.15 0.31998 0 0 0 1.0001 1 39346 39346 1.6526 0 1 30725 6880 19678 19739 34592 34592 0.19166649219187093 SLISWLEEEEE 11 Unmodified _SLISWLEEEEE_ 0 0 0 ENSG00000198028|ENST00000301480|ZNF560 ENSG00000198028|ENST00000301480|ZNF560 ENSG00000198028|ENST00000301480|ZNF560 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 682.3173217773438 2 682.316822 1362.61909 NaN NaN NaN NaN NaN NaN NaN 71.592 1 72.296 71.796 72.796 0.70386 0 0 0 1.0038 1 34396 34396 5.7319 2.1354 1 30726 5859 19679 19740 34593 34593 -0.047712900465512575 SLKALIKPLII 11 Unmodified _SLKALIKPLII_ 0 0 0 REV__ENSG00000165972|ENST00000344280|CCDC38 REV__ENSG00000165972|ENST00000344280|CCDC38 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 604.918212890625 2 604.920667 1207.82678 NaN NaN NaN NaN NaN NaN NaN 64.6 1 65.256 64.756 65.756 0.65672 0 0 0 1.0071 1 29613 29613 1.4819 0 1 + 30727 13202 19680 19741 34594 34594 0.23118033469950205 SLKARNQTL 9 Unmodified _SLKARNQTL_ 0 0 0 nc|ENSG00000166435|Q6P2D8-3|XRRA1;nc|ENSG00000166435|Q6P2D8|XRRA1;ENSG00000166435|ENST00000684022|XRRA1 nc|ENSG00000166435|Q6P2D8-3|XRRA1 nc|ENSG00000166435|Q6P2D8-3|XRRA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 344.2059326171875 3 344.204974 1029.59309 2.6909 0.00092621 0.16912 5.8211E-05 2.86 0.00098442 344.2050609587472 12.618 0.13484 13.261 13.176 13.311 0.64272 5 3 2 0 0 0 0.3144 1 5681 5681 10.8 3.1906 1 3239500 30728 4483 19681 19742 34595 34595 0.07947950083121214 SLKEKIYRL 9 Unmodified _SLKEKIYRL_ 0 0 0 ENST00000354485.5_1_9:676972-730286:+|nuORF;ENST00000489369.5_1_9:676972-732786:+|nuORF;nc|ENSG00000107104|Q14678-2|KANK1;ENSG00000107104|ENST00000382297|KANK1 ENST00000354485.5_1_9:676972-730286:+|nuORF ENST00000354485.5_1_9:676972-730286:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 383.9054260253906 3 383.904524 1148.69174 2.7062 0.0010389 -0.025374 -9.7413E-06 2.6808 0.0010292 383.9044928464128 28.254 0.3628 28.516 28.322 28.685 0.26245 69 27 3 0 0 0 0.0053299 1 12844 12844 91.085 26.393 1 2051800 30729 1589 19682 19743 34596 34596 0.1233455332817357 SLKEKIYRL 9 Unmodified _SLKEKIYRL_ 0 0 0 ENST00000354485.5_1_9:676972-730286:+|nuORF;ENST00000489369.5_1_9:676972-732786:+|nuORF;nc|ENSG00000107104|Q14678-2|KANK1;ENSG00000107104|ENST00000382297|KANK1 ENST00000354485.5_1_9:676972-730286:+|nuORF ENST00000354485.5_1_9:676972-730286:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.3558959960938 2 575.353148 1148.69174 3.2211 0.0018533 0.61673 0.00035484 3.8378 0.0022081 575.3536254917366 28.26 0.11043 28.523 28.506 28.616 0.26245 8 6 2 0 0 0 0.24272 1 12862 12862 16.149 9.9433 1 302330 30730 1589 19682 19743 34597 34597 0.1233455332817357 SLKEKIYRL 9 Unmodified _SLKEKIYRL_ 0 0 0 ENST00000354485.5_1_9:676972-730286:+|nuORF;ENST00000489369.5_1_9:676972-732786:+|nuORF;nc|ENSG00000107104|Q14678-2|KANK1;ENSG00000107104|ENST00000382297|KANK1 ENST00000354485.5_1_9:676972-730286:+|nuORF ENST00000354485.5_1_9:676972-730286:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 383.9057922363281 3 383.904524 1148.69174 2.6891 0.0010324 0.1187 4.5569E-05 2.8078 0.0010779 383.9044799444507 27.815 0.39831 28.434 28.266 28.664 0.61947 76 26 4 0 0 0 0.01 1 12786 12786 81.915 34.862 1 2205000 30731 1589 19682 19743 34598 34598 0.1233455332817357 SLKEKIYRL 9 Unmodified _SLKEKIYRL_ 0 0 0 ENST00000354485.5_1_9:676972-730286:+|nuORF;ENST00000489369.5_1_9:676972-732786:+|nuORF;nc|ENSG00000107104|Q14678-2|KANK1;ENSG00000107104|ENST00000382297|KANK1 ENST00000354485.5_1_9:676972-730286:+|nuORF ENST00000354485.5_1_9:676972-730286:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 383.904524 1148.69174 3.0019 0.0011524 -0.23748 -9.1171E-05 2.7644 0.0010613 384.2386963678825 28.277 0.21599 28.277 28.124 28.34 0 -0.03363 -0.00019334 NaN 91.085 31 15 3 NaN NaN NaN NaN 0 NaN NaN 0 950580 30732 1589 19682 19743 0.1233455332817357 SLKEKIYRL 9 Unmodified _SLKEKIYRL_ 0 0 0 ENST00000354485.5_1_9:676972-730286:+|nuORF;ENST00000489369.5_1_9:676972-732786:+|nuORF;nc|ENSG00000107104|Q14678-2|KANK1;ENSG00000107104|ENST00000382297|KANK1 ENST00000354485.5_1_9:676972-730286:+|nuORF ENST00000354485.5_1_9:676972-730286:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 383.904524 1148.69174 2.5762 0.00098901 -0.19456 -7.4691E-05 2.3816 0.00091432 383.90452620080964 27.236 0.23107 28.015 27.883 28.114 0.7787 -0.2957 -0.0001439 NaN 91.085 40 17 3 NaN NaN NaN NaN 0 NaN NaN 0 752810 30733 1589 19682 19743 0.1233455332817357 SLKERRLKKRR 11 Unmodified _SLKERRLKKRR_ 0 0 0 ENST00000333010.6_1_5:147040929-147162182:-|nuORF ENST00000333010.6_1_5:147040929-147162182:-|nuORF ENST00000333010.6_1_5:147040929-147162182:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 735.4776611328125 2 735.4786 1468.94265 NaN NaN NaN NaN NaN NaN NaN 25.714 1 26.339 25.839 26.839 0.62505 0 0 0 1.0082 1 11788 11788 0 0 1 30734 7008 19683 19744 34599 34599 0.22693370093315934 SLKGSTSLL 9 Unmodified _SLKGSTSLL_ 0 0 0 ENST00000521195.1_1_8:104320096-104343734:+|nuORF;nc|ENSG00000164930|O60353-2|FZD6;ENSG00000164930|ENST00000358755|FZD6 ENST00000521195.1_1_8:104320096-104343734:+|nuORF ENST00000521195.1_1_8:104320096-104343734:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.2705078125 2 453.26875 904.522947 2.1683 0.00098284 1.8425 0.00083514 4.0108 0.001818 453.2696558254676 12.869 0.17577 13.176 13.125 13.301 0.30727 6 5 2 0 0 0 0.21008 1 5820 5820 22.736 0 1 506030 30735 4355 19684 19745 34600 34600 0.06686651694678858 SLKGSTSLL 9 Unmodified _SLKGSTSLL_ 0 0 0 ENST00000521195.1_1_8:104320096-104343734:+|nuORF;nc|ENSG00000164930|O60353-2|FZD6;ENSG00000164930|ENST00000358755|FZD6 ENST00000521195.1_1_8:104320096-104343734:+|nuORF ENST00000521195.1_1_8:104320096-104343734:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 453.26875 904.522947 3.2962 0.0014941 -0.21826 -9.893E-05 3.078 0.0013952 453.26841728808 12.719 0.13535 13.362 13.278 13.413 0.64272 0.092992 -0.0014857 NaN 22.736 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 790380 30736 4355 19684 19745 0.06686651694678858 SLKIRKEM 8 Unmodified _SLKIRKEM_ 0 0 0 nc|ENSG00000115561|Q9Y3E7-4|CHMP3;ENSG00000115561|ENST00000263856|CHMP3;nc|ENSG00000115561|Q9Y3E7-3|CHMP3;ENST00000485465.1_1_2:86768467-86790471:-|nuORF nc|ENSG00000115561|Q9Y3E7-4|CHMP3 nc|ENSG00000115561|Q9Y3E7-4|CHMP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 335.5364990234375 3 335.535555 1003.58484 2.4055 0.00080712 -0.37142 -0.00012462 2.0341 0.0006825 335.5355579424143 13.187 0.13718 13.187 13.13 13.267 0 14 9 2 0 0 0 0.66465 1 5783 5783 8.7454 1.4562 1 190910 30737 1976 19685 19746 34601 34601 0.08318679842147958 SLKIRKEM 8 Unmodified _SLKIRKEM_ 0 0 0 nc|ENSG00000115561|Q9Y3E7-4|CHMP3;ENSG00000115561|ENST00000263856|CHMP3;nc|ENSG00000115561|Q9Y3E7-3|CHMP3;ENST00000485465.1_1_2:86768467-86790471:-|nuORF nc|ENSG00000115561|Q9Y3E7-4|CHMP3 nc|ENSG00000115561|Q9Y3E7-4|CHMP3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 335.535555 1003.58484 1.9025 0.00063837 0.54929 0.00018431 2.4518 0.00082268 335.5356062005883 12.779 0.060063 13.041 13.005 13.065 0.26154 -0.073102 0.0006775 NaN 8.7454 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 845830 30738 1976 19685 19746 0.08318679842147958 SLKKKKKKKK 10 Unmodified _SLKKKKKKKK_ 0 0 0 AluSz_dup92746|chr19:8370431-8370725:+|2.024774437320444|0.4902100207963893|2.05|539.0|8|2|sense AluSz_dup92746|chr19:8370431-8370725:+|2.024774437320444|0.4902100207963893|2.05|539.0|8|2|sense AluSz_dup92746|chr19:8370431-8370725:+|2.024774437320444|0.4902100207963893|2.05|539.0|8|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 622.44873046875 2 622.450457 1242.88636 NaN NaN NaN NaN NaN NaN NaN 80.722 1 81.382 80.882 81.882 0.65998 0 0 0 1.002 1 37195 37195 0 0 1 30739 50 19686 19747 34602 34602 0.27463349203958387 SLKKKKSIRF 10 Unmodified _SLKKKKSIRF_ 0 0 0 ENST00000416373.6_1_9:110046419-110062447:+|nuORF ENST00000416373.6_1_9:110046419-110062447:+|nuORF ENST00000416373.6_1_9:110046419-110062447:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 617.9059448242188 2 617.90334 1233.79213 NaN NaN NaN NaN NaN NaN NaN 85.863 1 85.892 85.392 86.392 0.028603 0 0 0 1.0014 1 43063 43063 1.3295 0.87119 1 30740 7712 19687 19748 34603 34603 0.18458210381822937 SLKKLVLRKLR 11 Unmodified _SLKKLVLRKLR_ 0 0 0 ENSG00000185745|ENST00000371804|IFIT1;nc|ENSG00000185745|P09914-2|IFIT1 ENSG00000185745|ENST00000371804|IFIT1 ENSG00000185745|ENST00000371804|IFIT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.4769897460938 2 677.474463 1352.93437 NaN NaN NaN NaN NaN NaN NaN 98.787 1 98.853 98.353 99.353 0.066025 0 0 0 1.008 1 53214 53214 0.35063 0 1 30741 5529 19688 19749 34604 34604 0.2720242312402661 SLKKLWVMNS 10 Unmodified _SLKKLWVMNS_ 0 0 0 ENSG00000128594|ENST00000249363|LRRC4 ENSG00000128594|ENST00000249363|LRRC4 ENSG00000128594|ENST00000249363|LRRC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1206.279541015625 1 1205.67109 1204.66381 3.3446 0.0040325 3.8367 0.0046258 7.1813 0.0086583 1205.6756660015415 29.641 0.042599 30.259 30.227 30.27 0.61789 4 2 2 0 0 0 0.93788 1 13584 13584 1.3295 0.72803 1 129180 30742 2518 19689 19750 34605 34605 0.06966907076457574 SLKLKKWFTKL 11 Unmodified _SLKLKKWFTKL_ 0 0 0 REV__ENST00000556408.5_1_14:71787209-71880727:+|nuORF REV__ENST00000556408.5_1_14:71787209-71880727:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 696.440185546875 2 696.442298 1390.87004 NaN NaN NaN NaN NaN NaN NaN 58.305 1 58.305 57.805 58.805 0 0 0 0 1.0074 1 26902 26902 1.0715 0.72083 1 + 30743 17325 19690 19751 34606 34606 0.1902422324719737 SLKLLKSHRVL 11 Unmodified _SLKLLKSHRVL_ 0 0 0 ENSG00000115604|ENST00000233957|IL18R1 ENSG00000115604|ENST00000233957|IL18R1 ENSG00000115604|ENST00000233957|IL18R1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.4224853515625 2 647.421897 1292.82924 NaN NaN NaN NaN NaN NaN NaN 99.243 1 99.243 98.743 99.743 0 0 0 0 1.0041 1 54528 54528 5.2969 2.5617 1 30744 1979 19691 19752 34607 34607 0.1945388192759765 SLKLVLLVLL 10 Unmodified _SLKLVLLVLL_ 0 0 0 ENST00000532483.5_1_14:73572990-73578268:+|nuORF ENST00000532483.5_1_14:73572990-73578268:+|nuORF ENST00000532483.5_1_14:73572990-73578268:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.8946533203125 2 555.89666 1109.77877 NaN NaN NaN NaN NaN NaN NaN 95.138 1 95.755 95.255 96.255 0.61736 0 0 0 1.0001 1 43752 43752 1.6526 0 1 30745 8736 19692 19753 34608 34608 0.2282695954988867 SLKRRLYKLV 10 Unmodified _SLKRRLYKLV_ 0 0 0 REV__ENSG00000166377|ENST00000426216|ATP9B REV__ENSG00000166377|ENST00000426216|ATP9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 637.9467163085938 2 638.416614 1274.81868 NaN NaN NaN NaN NaN NaN NaN 80.15 1 80.47 79.97 80.97 0.31998 0 0 0 1.0001 1 39193 39193 1.6526 0 1 + 30746 13231 19693 19754 34609 34609 0.19225899273146752 SLKSKVLSV 9 Unmodified _SLKSKVLSV_ 0 0 0 nc|ENSG00000139977|Q147X3-2|NAA30;ENSG00000139977|ENST00000556492|NAA30 nc|ENSG00000139977|Q147X3-2|NAA30 nc|ENSG00000139977|Q147X3-2|NAA30 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 320.8748474121094 3 320.874454 959.601532 NaN NaN NaN NaN NaN NaN NaN 28.916 1 29.176 28.676 29.676 0.2602 0 0 0 0.24879 1 13158 13158 21.59 13.981 1 30747 3174 19694 19755 34610 34610 0.12011503999758588 SLKSKVLSV 9 Unmodified _SLKSKVLSV_ 0 0 0 nc|ENSG00000139977|Q147X3-2|NAA30;ENSG00000139977|ENST00000556492|NAA30 nc|ENSG00000139977|Q147X3-2|NAA30 nc|ENSG00000139977|Q147X3-2|NAA30 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.8095703125 2 480.808042 959.601532 3.0955 0.0014884 -0.37225 -0.00017898 2.7233 0.0013094 480.8077720960834 28.597 0.2831 29.217 29.054 29.337 0.61947 23 13 2 0 0 0 0.082627 2 13085 13085;13149 37.075 20.926 1 362290 30748 3174 19694 19755 34611;34612 34611 0.12011503999758588 SLKSKVLSV 9 Unmodified _SLKSKVLSV_ 0 0 0 nc|ENSG00000139977|Q147X3-2|NAA30;ENSG00000139977|ENST00000556492|NAA30 nc|ENSG00000139977|Q147X3-2|NAA30 nc|ENSG00000139977|Q147X3-2|NAA30 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 320.8752746582031 3 320.874454 959.601532 2.1147 0.00067854 -0.21386 -6.8623E-05 1.9008 0.00060992 320.87443741271966 28.593 0.31158 29.212 29.026 29.337 0.61947 25 15 2 0 0 0 0.89849 1 13120 13120 3.5871 0.85186 1 199100 30749 3174 19694 19755 34613 34613 0.12011503999758588 SLKVRPVAL 9 Unmodified _SLKVRPVAL_ 0 0 0 nc|ENSG00000096717|Q96EB6-2|SIRT1;SIRT1|p.D663Rfs*2|1|0.42|ENSG00000096717|chr10:67916333-67916334|-/A|frameshift_variant;ENSG00000096717|ENST00000212015|SIRT1 nc|ENSG00000096717|Q96EB6-2|SIRT1 nc|ENSG00000096717|Q96EB6-2|SIRT1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.2496337890625 2 491.824027 981.633501 3.1832 0.0015656 0.62296 0.00030639 3.8062 0.001872 491.8242906210113 37.251 0.21339 37.881 37.752 37.966 0.62999 14 9 2 0 0 0 0.040749 1 17038 17038 36.506 13.77 1 167460 30750 1130 19695 19756 34614 34614 0.14194916473547892 SLKVRPVAL 9 Unmodified _SLKVRPVAL_ 0 0 0 nc|ENSG00000096717|Q96EB6-2|SIRT1;SIRT1|p.D663Rfs*2|1|0.42|ENSG00000096717|chr10:67916333-67916334|-/A|frameshift_variant;ENSG00000096717|ENST00000212015|SIRT1 nc|ENSG00000096717|Q96EB6-2|SIRT1 nc|ENSG00000096717|Q96EB6-2|SIRT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 491.824027 981.633501 3.1671 0.0015577 0.72045 0.00035433 3.8876 0.001912 491.8244449115872 37.897 0.20485 38.158 38.038 38.243 0.26083 0.13846 6.1399E-05 NaN 36.506 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 254700 30751 1130 19695 19756 0.14194916473547892 SLKWYLRER 9 Unmodified _SLKWYLRER_ 0 0 0 REV__ENSG00000181143|ENST00000397910|MUC16 REV__ENSG00000181143|ENST00000397910|MUC16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 625.790771484375 2 625.853847 1249.69314 NaN NaN NaN NaN NaN NaN NaN 86.266 1 86.937 86.437 87.437 0.67061 0 0 0 0.90777 1 39726 39726 1.6526 0.32309 1 + 30752 13844 19696 19757 34615 34615 0.07828187416930632 SLKYWFWRAFF 11 Unmodified _SLKYWFWRAFF_ 0 0 0 Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|145|3|anti-sense Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|145|3|anti-sense Harlequin-int_dup467|chr19:52899759-52902003:-|1.2947376396248438|0.289692074971568|2.16|541.0|145|3|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 775.8994750976562 2 775.900797 1549.78704 NaN NaN NaN NaN NaN NaN NaN 60.005 1 60.005 59.505 60.505 0 0 0 0 1.008 1 27791 27791 0.35063 0.043601 1 30753 9389 19697 19758 34616 34616 0.03413906519176635 SLLASGTAAL 10 Unmodified _SLLASGTAAL_ 0 0 0 ENSG00000092096|ENST00000354772|SLC22A17;nc|ENSG00000092096|Q8WUG5|SLC22A17 ENSG00000092096|ENST00000354772|SLC22A17 ENSG00000092096|ENST00000354772|SLC22A17 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.2622375488281 2 452.260925 902.507297 NaN NaN NaN NaN NaN NaN NaN 38.076 1 38.337 37.837 38.837 0.26083 0 0 0 0.94083 1 17337 17337 14.838 0 1 30754 1091 19698 19759 34617 34617 0.052143651776077604 SLLESTKK 8 Unmodified _SLLESTKK_ 0 0 0 GP1BA|p.T494Nfs*4|1|0.36|ENSG00000185245|chr17:4934077-4934078|-/A|frameshift_variant;ENSG00000185245|ENST00000329125|GP1BA GP1BA|p.T494Nfs*4|1|0.36|ENSG00000185245|chr17:4934077-4934078|-/A|frameshift_variant GP1BA|p.T494Nfs*4|1|0.36|ENSG00000185245|chr17:4934077-4934078|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 453.26959228515625 2 453.26875 904.522947 NaN NaN NaN NaN NaN NaN NaN 12.775 1 13.417 12.917 13.917 0.64272 0 0 0 0.99035 1 5735 5735 2.5775 0 1 30755 5498 19699 19760 34618 34618 0.06686651694678858 SLLHKKKKE 9 Unmodified _SLLHKKKKE_ 0 0 0 RSL1D1|p.N281H|1|0.12|ENSG00000171490|chr16:11841709-11841709|T/G|missense_variant RSL1D1|p.N281H|1|0.12|ENSG00000171490|chr16:11841709-11841709|T/G|missense_variant RSL1D1|p.N281H|1|0.12|ENSG00000171490|chr16:11841709-11841709|T/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.8563842773438 2 555.853316 1109.69208 NaN NaN NaN NaN NaN NaN NaN 109.46 1 109.77 109.27 110.27 0.31015 0 0 0 0.91206 1 50460 50460 0.6015 0 1 30756 18253 19700 19761 34619 34619 0.14161973048044274 SLLHQRYWYQQ 11 Unmodified _SLLHQRYWYQQ_ 0 0 0 REV__YLPM1|p.D2015Vfs*40|1|0.15|ENSG00000119596|chr14:74821070-74821070|A/-|frameshift_variant REV__YLPM1|p.D2015Vfs*40|1|0.15|ENSG00000119596|chr14:74821070-74821070|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 761.3818359375 2 761.3835 1520.75245 NaN NaN NaN NaN NaN NaN NaN 70.66 1 71.322 70.822 71.822 0.66209 0 0 0 1.0061 1 32386 32386 2.7352 0 1 + 30757 18249 19701 19762 34620 34620 0.01290038640468083 SLLKEIMLL 9 Unmodified _SLLKEIMLL_ 0 0 0 ENST00000534699.5_1_1:115272937-115273130:-|nuORF ENST00000534699.5_1_1:115272937-115273130:-|nuORF ENST00000534699.5_1_1:115272937-115273130:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 353.8902282714844 3 353.887594 1058.64095 NaN NaN NaN NaN NaN NaN NaN 14.299 1 14.947 14.447 15.447 0.6482 0 0 0 0.021399 1 6435 6435 63.961 10.557 1 30758 8756 19702 19763 34621 34621 0.11397887958969477 SLLKKKKKKI 10 Unmodified _SLLKKKKKKI_ 0 0 0 AluSc8_dup5967|chr5:1408001-1408339:-|1.0254959645658634|0.0176600485494751|5.86|497.0|1|1|sense AluSc8_dup5967|chr5:1408001-1408339:-|1.0254959645658634|0.0176600485494751|5.86|497.0|1|1|sense AluSc8_dup5967|chr5:1408001-1408339:-|1.0254959645658634|0.0176600485494751|5.86|497.0|1|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 607.4398803710938 2 607.439558 1212.86456 NaN NaN NaN NaN NaN NaN NaN 59.208 1 59.208 58.708 59.708 0 0 0 0 1.002 1 27361 27361 0 0 1 30759 35 19703 19764 34622 34622 0.2666454445541149 SLLKKKRKKWK 11 Unmodified _SLLKKKRKKWK_ 0 0 0 ENST00000471830.1_1_20:3888626-3888701:+|nuORF ENST00000471830.1_1_20:3888626-3888701:+|nuORF ENST00000471830.1_1_20:3888626-3888701:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 722.23779296875 2 721.987738 1441.96092 NaN NaN NaN NaN NaN NaN NaN 66.327 1 67.032 66.532 67.532 0.7047 0 0 0 1.008 1 31435 31435 0.30703 0.03801 1 30760 8184 19704 19765 34623 34623 0.2576211201535443 SLLKKKRKKWK 11 Unmodified _SLLKKKRKKWK_ 0 0 0 ENST00000471830.1_1_20:3888626-3888701:+|nuORF ENST00000471830.1_1_20:3888626-3888701:+|nuORF ENST00000471830.1_1_20:3888626-3888701:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 721.9880981445312 2 721.987738 1441.96092 NaN NaN NaN NaN NaN NaN NaN 73.341 1 74.04 73.54 74.54 0.69881 0 0 0 1.0072 1 35347 35347 1.3295 0.9789 1 30761 8184 19704 19765 34624 34624 0.2576211201535443 SLLMHLLR 8 Unmodified _SLLMHLLR_ 0 0 0 REV__ENST00000563604.1_1_15:43017617-43017824:-|nuORF REV__ENST00000563604.1_1_15:43017617-43017824:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.0841979980469 2 491.796955 981.579357 NaN NaN NaN NaN NaN NaN NaN 56.035 1 56.815 56.315 57.315 0.77954 0 0 0 0.99035 1 25606 25606 2.3027 0 1 + 30762 12240 19705 19766 34625 34625 0.08783001050346684 SLLPRKKAHL 10 Unmodified _SLLPRKKAHL_ 0 0 0 ENSG00000198780|ENST00000687041|FAM169A ENSG00000198780|ENST00000687041|FAM169A ENSG00000198780|ENST00000687041|FAM169A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 388.25482177734375 3 388.252147 1161.73461 NaN NaN NaN NaN NaN NaN NaN 40.085 1 40.885 40.385 41.385 0.80014 0 0 0 1.0013 1 18150 18150 0.62683 0 1 30763 5933 19706 19767 34626 34626 0.16021368176279793 SLLRAKRIHR 10 Unmodified _SLLRAKRIHR_ 0 0 0 ENST00000244040.3_1_20:56934856-56935048:+|nuORF ENST00000244040.3_1_20:56934856-56935048:+|nuORF ENST00000244040.3_1_20:56934856-56935048:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 625.4843139648438 2 625.40183 1248.78911 3.2575 0.0020373 -1.7961 -0.0011233 1.4615 0.000914 625.4006683889559 80.083 0.083656 80.083 80.012 80.096 0 6 4 2 0 0 0 0.89464 1 39630 39630 3.9444 0 1 5254100 30764 6476 19707 19768 34627 34627 0.17466380047676466 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 968.5743408203125 1 968.567612 967.560336 3.493 0.0033832 1.3358 0.0012938 4.8288 0.004677 968.5690834809919 35.817 0.22165 35.817 35.703 35.924 0 16 11 2 0 0 0 0.71384 2 16235 16235;16284 4.756 0 1 1163200 + 30765 12305 19708 19769 34628;34629 34628 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 968.5711669921875 1 968.567612 967.560336 3.5975 0.0034844 2.6367 0.0025538 6.2342 0.0060382 968.569379187147 36.671 0.19183 36.671 36.593 36.785 0 15 8 2 0 0 0 0.67495 2 16692 16639;16692 7.9102 0 1 531650 + 30766 12305 19708 19769 34630;34631 34631 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.78997802734375 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 51.784 1 51.784 51.284 52.284 0 0 0 0 0.99035 1 23707 23707 4.756 0 1 + 30767 12305 19708 19769 34632 34632 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.7890930175781 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 52.491 1 52.491 51.991 52.991 0 0 0 0 0.99035 1 24037 24037 4.756 0 1 + 30768 12305 19708 19769 34633 34633 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.79010009765625 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 59.505 1 59.505 59.005 60.005 0 0 0 0 0.99035 1 27510 27510 4.756 0 1 + 30769 12305 19708 19769 34634 34634 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.7893981933594 2 484.787444 967.560336 3.2314 0.0015666 0.93284 0.00045223 4.1643 0.0020188 484.78804015418507 35.983 0.67582 36.774 36.66 37.336 0.79131 45 28 4 0 0 0 0.71384 1 16350 16350 4.756 0 1 1911900 + 30770 12305 19708 19769 34635 34635 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.7888488769531 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 57.275 1 58.044 57.544 58.544 0.76861 0 0 0 0.99035 1 26215 26215 4.756 0 1 + 30771 12305 19708 19769 34636 34636 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 968.5753173828125 1 968.567612 967.560336 3.6129 0.0034994 1.6646 0.0016123 5.2776 0.0051117 968.569098399705 35.556 0.31127 35.811 35.683 35.994 0.25524 23 10 3 0 0 0 0.71384 2 16190 16190;16241 4.756 0 1 1312400 + 30772 12305 19708 19769 34637;34638 34637 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 968.5712890625 1 968.567612 967.560336 3.6221 0.0035082 1.6531 0.0016011 5.2752 0.0051094 968.5688299041007 36.007 0.31325 36.265 36.108 36.422 0.25768 30 15 3 0 0 0 0.71384 2 16375 16375;16423 4.756 0 1 883590 + 30773 12305 19708 19769 34639;34640 34639 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 968.5731201171875 1 968.567612 967.560336 3.665 0.0035498 1.6739 0.0016212 5.3388 0.005171 968.569114665833 36.58 0.25586 36.838 36.673 36.929 0.25768 20 9 3 0 0 0 0.71384 1 16671 16671 4.756 0 1 837520 + 30774 12305 19708 19769 34641 34641 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.78936767578125 2 484.787444 967.560336 3.193 0.0015479 1.0034 0.00048644 4.1964 0.0020344 484.78803689184537 36.974 0.64031 37.232 37.018 37.659 0.25768 49 20 4 0 0 0 0.71384 1 16861 16861 4.756 0 1 4081100 + 30775 12305 19708 19769 34642 34642 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.7895202636719 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 46.422 1 46.688 46.188 47.188 0.26561 0 0 0 0.99035 1 21217 21217 4.756 0 1 + 30776 12305 19708 19769 34643 34643 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.7894592285156 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 48.965 1 49.227 48.727 49.727 0.26209 0 0 0 0.99035 1 22383 22383 4.756 0 1 + 30777 12305 19708 19769 34644 34644 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.7896423339844 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 49.39 1 49.652 49.152 50.152 0.26146 0 0 0 0.95658 1 22577 22577 8.5933 3.3626 1 + 30778 12305 19708 19769 34645 34645 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.7900695800781 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 54.103 1 54.368 53.868 54.868 0.26462 0 0 0 0.99035 1 24740 24740 4.756 0 1 + 30779 12305 19708 19769 34646 34646 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.78570556640625 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 56.032 1 56.297 55.797 56.797 0.26543 0 0 0 0.99035 1 25627 25627 4.756 0 1 + 30780 12305 19708 19769 34647 34647 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.7900695800781 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 56.331 1 56.596 56.096 57.096 0.26543 0 0 0 0.99035 1 25767 25767 4.756 0 1 + 30781 12305 19708 19769 34648 34648 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.79010009765625 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 59.872 1 60.131 59.631 60.631 0.2593 0 0 0 0.99035 1 27418 27418 4.756 0 1 + 30782 12305 19708 19769 34649 34649 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.78900146484375 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 65.705 1 65.953 65.453 66.453 0.24848 0 0 0 0.99035 1 30100 30100 4.756 0 1 + 30783 12305 19708 19769 34650 34650 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.78826904296875 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 65.942 1 66.19 65.69 66.69 0.24848 0 0 0 0.99035 1 30209 30209 4.756 0 1 + 30784 12305 19708 19769 34651 34651 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.7901306152344 2 484.787444 967.560336 3.3094 0.0016044 0.98958 0.00047974 4.299 0.0020841 484.78794166653347 36.266 0.40977 36.893 36.695 37.105 0.62631 37 12 4 0 0 0 0.71384 2 16567 16567;16624 4.756 0 1 3273500 + 30785 12305 19708 19769 34652;34653 34652 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.7896423339844 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 57.69 1 58.358 57.858 58.858 0.66829 0 0 0 0.99035 1 26399 26399 5.7604 0 1 + 30786 12305 19708 19769 34654 34654 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.7889099121094 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 62.681 1 63.339 62.839 63.839 0.65808 0 0 0 0.99035 1 28726 28726 4.756 0 1 + 30787 12305 19708 19769 34655 34655 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.78961181640625 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 65.249 1 65.906 65.406 66.406 0.65672 0 0 0 0.99035 1 29914 29914 4.756 0 1 + 30788 12305 19708 19769 34656 34656 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.78887939453125 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 69.77 1 70.431 69.931 70.931 0.66071 0 0 0 0.99035 1 31989 31989 4.756 0 1 + 30789 12305 19708 19769 34657 34657 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.7898864746094 2 484.787444 967.560336 NaN NaN NaN NaN NaN NaN NaN 70.547 1 71.21 70.71 71.71 0.66209 0 0 0 0.95658 1 32336 32336 8.5933 3.3626 1 + 30790 12305 19708 19769 34658 34658 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 968.567612 967.560336 3.493 0.0033832 1.3358 0.0012938 4.8288 0.004677 968.5690834809919 35.817 0.22165 35.817 35.703 35.924 0 0.002878 -0.00020579 NaN 4.756 16 11 2 NaN NaN NaN NaN 0 NaN NaN 0 1163200 + 30791 12305 19708 19769 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 968.567612 967.560336 3.5975 0.0034844 2.6367 0.0025538 6.2342 0.0060382 968.569379187147 36.671 0.19183 36.671 36.593 36.785 0 -0.012268 0.00098268 NaN 7.9102 15 8 2 NaN NaN NaN NaN 0 NaN NaN 0 531650 + 30792 12305 19708 19769 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 968.567612 967.560336 3.544 0.0034326 1.8116 0.0017547 5.3555 0.0051872 968.5689944195263 36.189 0.1908 36.189 36.105 36.296 0 -0.038005 5.0584E-05 NaN 4.756 15 8 2 NaN NaN NaN NaN 0 NaN NaN 0 885810 + 30793 12305 19708 19769 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 484.787444 967.560336 3.234 0.0015678 1.4006 0.00067898 4.6346 0.0022468 484.78813961255366 36.7 0.4698 36.7 36.438 36.908 0 -0.096872 0.00013956 NaN 4.756 54 21 4 NaN NaN NaN NaN 0 NaN NaN 0 4488100 + 30794 12305 19708 19769 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 484.787444 967.560336 3.2314 0.0015666 0.93284 0.00045223 4.1643 0.0020188 484.78804015418507 35.983 0.67582 36.774 36.66 37.336 0.79131 -0.02321 -0.00031394 NaN 4.756 45 28 4 NaN NaN NaN NaN 0 NaN NaN 0 1911900 + 30795 12305 19708 19769 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 968.567612 967.560336 3.6129 0.0034994 1.6646 0.0016123 5.2776 0.0051117 968.569098399705 35.556 0.31127 35.811 35.683 35.994 0.25524 -0.002878 0.0001127 NaN 4.756 23 10 3 NaN NaN NaN NaN 0 NaN NaN 0 1312400 + 30796 12305 19708 19769 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 968.567612 967.560336 3.665 0.0035498 1.6739 0.0016212 5.3388 0.005171 968.569114665833 36.58 0.25586 36.838 36.673 36.929 0.25768 0.15478 5.0098E-05 NaN 7.9102 20 9 3 NaN NaN NaN NaN 0 NaN NaN 0 837520 + 30797 12305 19708 19769 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 968.567612 967.560336 3.6221 0.0035082 1.6531 0.0016011 5.2752 0.0051094 968.5688299041007 36.007 0.31325 36.265 36.108 36.422 0.25768 0.038005 -0.00010294 NaN 4.756 30 15 3 NaN NaN NaN NaN 0 NaN NaN 0 883590 + 30798 12305 19708 19769 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 484.787444 967.560336 3.1133 0.0015093 1.5433 0.00074818 4.6566 0.0022575 484.7881605573843 36.564 0.39151 36.822 36.599 36.991 0.25768 0.024787 0.00027796 NaN 4.756 43 14 4 NaN NaN NaN NaN 0 NaN NaN 0 4233000 + 30799 12305 19708 19769 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 968.567612 967.560336 3.8738 0.0037521 0.99859 0.0009672 4.8724 0.0047192 968.5687098239678 35.914 0.1091 36.541 36.491 36.601 0.62631 -0.14251 -0.00060395 NaN 7.9102 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 384730 + 30800 12305 19708 19769 0.07525787750944346 SLLRPHVF 8 Unmodified _SLLRPHVF_ 0 0 0 REV__ENSG00000141699|ENST00000309428|RETREG3 REV__ENSG00000141699|ENST00000309428|RETREG3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 484.787444 967.560336 3.3094 0.0016044 0.98958 0.00047974 4.299 0.0020841 484.78794166653347 36.266 0.40977 36.893 36.695 37.105 0.62631 0.095294 -0.00025892 NaN 4.756 37 12 4 NaN NaN NaN NaN 0 NaN NaN 0 3273500 + 30801 12305 19708 19769 0.07525787750944346 SLLRQPSEL 9 Unmodified _SLLRQPSEL_ 0 0 0 REV__ENST00000536066.1_1_12:2967806-2973707:-|nuORF REV__ENST00000536066.1_1_12:2967806-2973707:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.201904296875 3 348.201229 1041.58186 2.6142 0.00091027 0.63987 0.0002228 3.2541 0.0011331 348.20148104832873 36.945 0.27803 37.203 37.102 37.38 0.25768 10 8 2 0 0 0 0.76984 1 16853 16853 8.1555 0.54658 1 251600 + 30802 11222 19709 19770 34659 34659 0.06273127989015848 SLLRVSIFS 9 Unmodified _SLLRVSIFS_ 0 0 0 REV__ENST00000521672.5_1_5:170814874-170818337:+|nuORF REV__ENST00000521672.5_1_5:170814874-170818337:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 341.20684814453125 3 341.206203 1020.59678 2.6856 0.00091633 0.24098 8.2223E-05 2.9265 0.00099855 341.20625126595206 29.028 0.25567 29.028 28.886 29.141 0 32 19 2 0 0 0 0.41574 1 13085 13085 9.544 0 1 312890 + 30803 17030 19710 19771 34660 34660 0.08730619857010424 SLLRVSIFS 9 Unmodified _SLLRVSIFS_ 0 0 0 REV__ENST00000521672.5_1_5:170814874-170818337:+|nuORF REV__ENST00000521672.5_1_5:170814874-170818337:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.2071228027344 3 341.206203 1020.59678 NaN NaN NaN NaN NaN NaN NaN 28.822 1 29.082 28.582 29.582 0.2602 0 0 0 0.054323 1 13114 13114 40.239 5.3071 1 + 30804 17030 19710 19771 34661 34661 0.08730619857010424 SLLRVSIFS 9 Unmodified _SLLRVSIFS_ 0 0 0 REV__ENST00000521672.5_1_5:170814874-170818337:+|nuORF REV__ENST00000521672.5_1_5:170814874-170818337:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 341.20721435546875 3 341.206203 1020.59678 2.3147 0.0007898 0.29722 0.00010141 2.6119 0.00089121 341.2062982399439 28.492 0.35025 29.112 28.948 29.299 0.61947 45 19 3 0 0 0 0.10837 2 13095 13043;13095 22.658 4.285 1 802850 + 30805 17030 19710 19771 34662;34663 34663 0.08730619857010424 SLLRVSIFS 9 Unmodified _SLLRVSIFS_ 0 0 0 REV__ENST00000521672.5_1_5:170814874-170818337:+|nuORF REV__ENST00000521672.5_1_5:170814874-170818337:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 341.206203 1020.59678 2.6856 0.00091633 0.24098 8.2223E-05 2.9265 0.00099855 341.20625126595206 29.028 0.25567 29.028 28.886 29.141 0 -0.041695 -2.7344E-05 NaN 22.658 32 19 2 NaN NaN NaN NaN 0 NaN NaN 0 312890 + 30806 17030 19710 19771 0.08730619857010424 SLLRVSIFS 9 Unmodified _SLLRVSIFS_ 0 0 0 REV__ENST00000521672.5_1_5:170814874-170818337:+|nuORF REV__ENST00000521672.5_1_5:170814874-170818337:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 341.206203 1020.59678 2.3147 0.0007898 0.29722 0.00010141 2.6119 0.00089121 341.2062982399439 28.492 0.35025 29.112 28.948 29.299 0.61947 0.041695 3.0224E-05 NaN 22.658 45 19 3 NaN NaN NaN NaN 0 NaN NaN 0 802850 + 30807 17030 19710 19771 0.08730619857010424 SLLVQYRRV 9 Unmodified _SLLVQYRRV_ 0 0 0 REV__ENST00000562120.1_1_16:2093562-2096203:-|nuORF REV__ENST00000562120.1_1_16:2093562-2096203:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.56494140625 3 378.564502 1132.67168 2.6817 0.0010152 0.0049144 1.8604E-06 2.6866 0.0010171 378.5644389198481 31.882 0.24282 32.499 32.354 32.597 0.61737 21 13 2 0 0 0 0.98132 1 14664 14664 4.897 2.3985 1 812410 + 30808 10424 19711 19772 34664 34664 0.1106480238822769 SLLWKAHK 8 Unmodified _SLLWKAHK_ 0 0 0 nc|ENSG00000231852|P08686-2|CYP21A2;ENSG00000231852|ENST00000644719|CYP21A2 nc|ENSG00000231852|P08686-2|CYP21A2 nc|ENSG00000231852|P08686-2|CYP21A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7969665527344 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 46.962 1 47.226 46.726 47.726 0.26363 0 0 0 0.99035 1 21463 21463 2.0598 0 1 30809 6184 19712 19773 34665 34665 0.08446074267988024 SLLWKAHK 8 Unmodified _SLLWKAHK_ 0 0 0 nc|ENSG00000231852|P08686-2|CYP21A2;ENSG00000231852|ENST00000644719|CYP21A2 nc|ENSG00000231852|P08686-2|CYP21A2 nc|ENSG00000231852|P08686-2|CYP21A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.79833984375 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 52.923 1 53.187 52.687 53.687 0.26345 0 0 0 0.99035 1 24195 24195 4.756 0 1 30810 6184 19712 19773 34666 34666 0.08446074267988024 SLLWKAHK 8 Unmodified _SLLWKAHK_ 0 0 0 nc|ENSG00000231852|P08686-2|CYP21A2;ENSG00000231852|ENST00000644719|CYP21A2 nc|ENSG00000231852|P08686-2|CYP21A2 nc|ENSG00000231852|P08686-2|CYP21A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7968444824219 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 38.77 1 39.408 38.908 39.908 0.63778 0 0 0 0.99035 1 17726 17726 2.0598 0 1 30811 6184 19712 19773 34667 34667 0.08446074267988024 SLLWTKLRP 9 Unmodified _SLLWTKLRP_ 0 0 0 REV__ENST00000473828.1_1_1:109633494-109635705:+|nuORF REV__ENST00000473828.1_1_1:109633494-109635705:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.6740112304688 2 557.342584 1112.67061 NaN NaN NaN NaN NaN NaN NaN 36.849 1 36.849 36.349 37.349 0 0 0 0 0.90611 1 16724 16724 2.0598 0.40713 1 + 30812 14529 19713 19774 34668 34668 0.11878588019294511 SLLWVIVSVLH 11 Unmodified _SLLWVIVSVLH_ 0 0 0 REV__ENSG00000184451|ENST00000332438|CCR10 REV__ENSG00000184451|ENST00000332438|CCR10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.59332275390625 3 422.592058 1264.75434 2.6938 0.0011384 1.0911 0.00046109 3.7849 0.0015995 422.592456816052 45.797 0.78267 46.624 46.256 47.039 0.82621 113 40 4 0 0 0 0.88721 1 20778 20778 2.6312 2.0044 1 5485100 + 30813 13974 19714 19775 34669 34669 0.13255699396381715 SLMGSGPRMKQ 11 Unmodified _SLMGSGPRMKQ_ 0 0 0 REV__nc|ENSG00000048707|Q5THJ4-2|VPS13D REV__nc|ENSG00000048707|Q5THJ4-2|VPS13D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 596.2385864257812 2 596.302275 1190.59 NaN NaN NaN NaN NaN NaN NaN 56.098 1 56.876 56.376 57.376 0.77786 0 0 0 0.97845 1 25637 25637 8.7454 2.0222 1 + 30814 10342 19715 19776 34670 34670 0.0023261564244876354 SLMVLHRL 8 Unmodified _SLMVLHRL_ 0 0 0 REV__ENSG00000148204|ENST00000373631|CRB2 REV__ENSG00000148204|ENST00000373631|CRB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 323.5282897949219 3 323.528512 967.563706 NaN NaN NaN NaN NaN NaN NaN 43.136 1 43.95 43.45 44.45 0.81444 0 0 0 0.99035 1 19631 19631 1.6526 0 1 + 30815 12525 19716 19777 34671 34671 0.07862714533291637 SLNKTNGG 8 Unmodified _SLNKTNGG_ 0 0 0 ENSG00000143105|ENST00000369771|KCNA10 ENSG00000143105|ENST00000369771|KCNA10 ENSG00000143105|ENST00000369771|KCNA10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.706787109375 2 395.706317 789.398081 NaN NaN NaN NaN NaN NaN NaN 79.767 1 80.017 79.517 80.517 0.24947 0 0 0 0.99035 1 36729 36729 4.756 2.1785 1 30816 3342 19717 19778 34672 34672 -0.0050422072185938305 SLNLARNSIL 10 Unmodified _SLNLARNSIL_ 0 0 0 REV__ENST00000361055.8_1_3:69124642-69126989:-|nuORF REV__ENST00000361055.8_1_3:69124642-69126989:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 367.55316162109375 3 367.552262 1099.63496 2.7366 0.0010058 0.11549 4.2449E-05 2.8521 0.0010483 367.55226119319144 25.897 0.26764 26.164 26.05 26.318 0.26777 67 27 3 0 0 0 0.24154 1 11771 11771 23.801 4.1751 1 985330 + 30817 15618 19718 19779 34673 34673 0.0891250577167284 SLNLARNSIL 10 Unmodified _SLNLARNSIL_ 0 0 0 REV__ENST00000361055.8_1_3:69124642-69126989:-|nuORF REV__ENST00000361055.8_1_3:69124642-69126989:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 367.552262 1099.63496 2.2038 0.00081001 0.17086 6.2801E-05 2.3747 0.00087281 367.55237935820537 25.221 0.21611 25.985 25.898 26.114 0.76356 -0.13135 -7.1628E-05 NaN 23.801 27 18 2 NaN NaN NaN NaN 0 NaN NaN 0 567650 + 30818 15618 19718 19779 0.0891250577167284 SLNLARNSIL 10 Unmodified _SLNLARNSIL_ 0 0 0 REV__ENST00000361055.8_1_3:69124642-69126989:-|nuORF REV__ENST00000361055.8_1_3:69124642-69126989:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 367.552262 1099.63496 2.7366 0.0010058 0.11549 4.2449E-05 2.8521 0.0010483 367.55226119319144 25.897 0.26764 26.164 26.05 26.318 0.26777 0.048513 -0.00013268 NaN 23.801 67 27 3 NaN NaN NaN NaN 0 NaN NaN 0 985330 + 30819 15618 19718 19779 0.0891250577167284 SLNLARNSIL 10 Unmodified _SLNLARNSIL_ 0 0 0 REV__ENST00000361055.8_1_3:69124642-69126989:-|nuORF REV__ENST00000361055.8_1_3:69124642-69126989:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 367.552262 1099.63496 2.5141 0.00092406 0.39821 0.00014636 2.9123 0.0010704 367.5524097651189 25.574 0.2537 26.199 26.079 26.333 0.62505 0.082838 0.00017906 NaN 23.801 63 27 3 NaN NaN NaN NaN 0 NaN NaN 0 1004600 + 30820 15618 19718 19779 0.0891250577167284 SLNLVHCVLVF 11 Unmodified _SLNLVHCVLVF_ 0 0 0 ENST00000244496.5_1_6:42997153-42997255:+|nuORF ENST00000244496.5_1_6:42997153-42997255:+|nuORF ENST00000244496.5_1_6:42997153-42997255:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 622.3489379882812 2 622.347009 1242.67946 NaN NaN NaN NaN NaN NaN NaN 89.63 1 89.881 89.381 90.381 0.25137 0 0 0 1.0061 1 41222 41222 2.7352 0 1 30821 6481 19719 19780 34674 34674 0.0678319359346915 SLNREPYRETK 11 Unmodified _SLNREPYRETK_ 0 0 0 ENSG00000150471|ENST00000683033|ADGRL3 ENSG00000150471|ENST00000683033|ADGRL3 ENSG00000150471|ENST00000683033|ADGRL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 696.8140869140625 2 696.86514 1391.71573 NaN NaN NaN NaN NaN NaN NaN 109.51 1 109.51 109.01 110.01 0 0 0 0 0.99038 1 59879 59879 7.609 1.4032 1 30822 3668 19720 19781 34675 34675 0.03553742023882478 SLPCIVLAGR 10 Unmodified _SLPCIVLAGR_ 0 0 0 nc|ENSG00000148357|Q8NDA2-4|HMCN2;nc|ENSG00000148357|Q8NDA2-1|HMCN2;ENSG00000148357|ENST00000683500|HMCN2 nc|ENSG00000148357|Q8NDA2-4|HMCN2 nc|ENSG00000148357|Q8NDA2-4|HMCN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.8005981445312 2 514.799694 1027.58484 NaN NaN NaN NaN NaN NaN NaN 35.079 1 35.079 34.579 35.579 0 0 0 0 1.0003 1 15910 15910 1.4819 0 1 30823 3601 19721 19782 34676 34676 0.07214679842149962 SLPFLLPLRGV 11 Unmodified _SLPFLLPLRGV_ 0 0 0 REV__ENST00000476089.1_1_2:182322160-182322253:+|nuORF REV__ENST00000476089.1_1_2:182322160-182322253:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.6940002441406 4 303.693221 1210.74378 2.1497 0.00065286 0.9079 0.00027572 3.0576 0.00092858 303.6935479892094 34.571 0.17826 35.36 35.318 35.496 0.78921 29 19 2 0 0 0 0.91068 1 15724 15724 1.3296 0.11481 1 2704900 + 30824 16647 19722 19783 34677 34677 0.14683716741910757 SLPGLKRYE 9 Unmodified _SLPGLKRYE_ 0 0 0 REV__nc|ENSG00000141485|Q86YT5-2|SLC13A5 REV__nc|ENSG00000141485|Q86YT5-2|SLC13A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 532.2836303710938 2 531.800749 1061.58694 NaN NaN NaN NaN NaN NaN NaN 41.514 1 41.784 41.284 42.284 0.27021 0 0 0 0.49214 1 18913 18913 19.257 2.1441 1 + 30825 12293 19723 19784 34678 34678 0.058614318515992636 SLPHEGSSPSL 11 Unmodified _SLPHEGSSPSL_ 0 0 0 ENSG00000167548|ENST00000301067|KMT2D;nc|ENSG00000167548|O14686-3|KMT2D ENSG00000167548|ENST00000301067|KMT2D ENSG00000167548|ENST00000301067|KMT2D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.7763061523438 2 555.774928 1109.5353 NaN NaN NaN NaN NaN NaN NaN 25.355 1 25.623 25.123 26.123 0.26777 0 0 0 0.98464 1 11505 11505 8.1555 0.54658 1 30826 4561 19724 19785 34679 34679 -0.015083566329394671 SLPLLVWV 8 Unmodified _SLPLLVWV_ 0 0 0 REV__ENST00000567020.6_2_16:2551236-2551404:+|nuORF REV__ENST00000567020.6_2_16:2551236-2551404:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 309.5370178222656 3 309.528506 925.56369 NaN NaN NaN NaN NaN NaN NaN 37.669 1 38.465 37.965 38.965 0.79552 0 0 0 0.99035 1 17067 17067 0.45834 0 1 + 30827 17427 19725 19786 34680 34680 0.0979303780494547 SLPPWLNP 8 Unmodified _SLPPWLNP_ 0 0 0 ENST00000355520.5_1_X:67653551-67653611:-|nuORF ENST00000355520.5_1_X:67653551-67653611:-|nuORF ENST00000355520.5_1_X:67653551-67653611:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.2546691894531 2 462.252903 922.491253 NaN NaN NaN NaN NaN NaN NaN 43.527 1 43.797 43.297 44.297 0.27021 0 0 0 0.99035 1 19882 19882 4.756 2.1785 1 30828 7151 19726 19787 34681 34681 0.02690703731366284 SLPRALHF 8 Unmodified _SLPRALHF_ 0 0 0 ENST00000395756.5_1_17:17715938-17721122:-|nuORF;nc|ENSG00000072310|P36956-3|SREBF1;nc|ENSG00000072310|P36956-2|SREBF1;ENSG00000072310|ENST00000261646|SREBF1;nc|ENSG00000072310|P36956-4|SREBF1 ENST00000395756.5_1_17:17715938-17721122:-|nuORF ENST00000395756.5_1_17:17715938-17721122:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.7418518066406 2 470.771794 939.529036 2.859 0.0013459 -0.61157 -0.00028791 2.2474 0.001058 470.77179867770593 32.686 0.25028 33.304 33.126 33.376 0.61831 17 11 2 0 0 0 0.13917 1 14983 14983 5.2307 4.437 1 200150 30829 789 19727 19788 34682 34682 0.05685214716845621 SLPRIGDIF 9 Unmodified _SLPRIGDIF_ 0 0 0 nc|ENSG00000105991|P49639-2|HOXA1 nc|ENSG00000105991|P49639-2|HOXA1 nc|ENSG00000105991|P49639-2|HOXA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.51416015625 3 339.862437 1016.56548 2.6296 0.00089369 -0.17371 -5.9039E-05 2.4559 0.00083465 339.8622798923738 40.659 0.60063 40.928 40.435 41.035 0.26904 61 24 3 0 0 0 0.46674 1 18317 18317 12.873 0 1 3523700 30830 9587 19728 19789 34683 34683 0.05786046822879598 SLPRLQSLRVP 11 Unmodified _SLPRLQSLRVP_ 0 0 0 nc|ENSG00000141497|Q9H091-2|ZMYND15;ENSG00000141497|ENST00000433935|ZMYND15;nc|ENSG00000141497|Q9H091-3|ZMYND15 nc|ENSG00000141497|Q9H091-2|ZMYND15 nc|ENSG00000141497|Q9H091-2|ZMYND15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.59417724609375 3 422.594461 1264.76155 2.2778 0.00096258 -3.3877 -0.0014316 -1.1099 -0.00046904 422.9277788332788 51.243 0.08532 52.06 52.013 52.099 0.81738 9 6 2 0 0 0 0.90967 1 23345 23345 1.6479 0 1 433850 30831 3261 19729 19790 34684 34684 0.13976431996775318 SLPRLQSLRVP 11 Unmodified _SLPRLQSLRVP_ 0 0 0 nc|ENSG00000141497|Q9H091-2|ZMYND15;ENSG00000141497|ENST00000433935|ZMYND15;nc|ENSG00000141497|Q9H091-3|ZMYND15 nc|ENSG00000141497|Q9H091-2|ZMYND15 nc|ENSG00000141497|Q9H091-2|ZMYND15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.5946044921875 3 422.594461 1264.76155 NaN NaN NaN NaN NaN NaN NaN 63.055 1 63.714 63.214 64.214 0.65808 0 0 0 1.0058 1 28894 28894 3.134 0.50272 1 30832 3261 19729 19790 34685 34685 0.13976431996775318 SLPRWVRRFWP 11 Unmodified _SLPRWVRRFWP_ 0 0 0 ENST00000272438.8_1_2:71215398-71215467:-|nuORF ENST00000272438.8_1_2:71215398-71215467:-|nuORF ENST00000272438.8_1_2:71215398-71215467:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 750.4906616210938 2 750.422762 1498.83097 NaN NaN NaN NaN NaN NaN NaN 106.47 1 106.47 105.97 106.97 0 0 0 0 1.0072 1 58461 58461 1.3295 0 1 30833 6655 19730 19791 34686 34686 0.10150935736191968 SLQAHALSL 9 Unmodified _SLQAHALSL_ 0 0 0 REV__nc|ENSG00000033627|Q93050-1|ATP6V0A1 REV__nc|ENSG00000033627|Q93050-1|ATP6V0A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.2698059082031 2 470.266542 938.51853 2.9621 0.001393 0.73654 0.00034637 3.6987 0.0017394 470.2669122676977 16.783 0.90907 17.444 16.914 17.824 0.66072 182 84 3 0 0 0 0.76984 1 7413 7413 7.9102 0 1 451120 + 30834 10297 19731 19792 34687 34687 0.0468118727176261 SLQHEFRL 8 Unmodified _SLQHEFRL_ 0 0 0 ENST00000464528.5_1_17:1639209-1640976:+|nuORF ENST00000464528.5_1_17:1639209-1640976:+|nuORF ENST00000464528.5_1_17:1639209-1640976:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.2769165039062 2 515.277441 1028.54033 3.2576 0.0016785 -1.2339 -0.00063579 2.0237 0.0010428 515.277015526986 38.896 0.42078 38.896 38.679 39.1 0 35 16 3 0 0 0 0.56084 1 17612 17612 16.942 2.104 1 1051500 30835 8114 19732 19793 34688 34688 0.027199920203202055 SLQKKRKRRVY 11 Unmodified _SLQKKRKRRVY_ 0 0 0 ENST00000348579.6_1_16:67428515-67429028:-|nuORF ENST00000348579.6_1_16:67428515-67429028:-|nuORF ENST00000348579.6_1_16:67428515-67429028:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 731.4599609375 2 731.459876 1460.9052 NaN NaN NaN NaN NaN NaN NaN 68.043 1 68.296 67.796 68.796 0.25227 0 0 0 1.0082 1 31170 31170 0.26902 0.26902 1 30836 7128 19733 19794 34689 34689 0.1931827882772268 SLQRLNIY 8 Unmodified _SLQRLNIY_ 0 0 0 REV__nc|ENSG00000167632|Q96Q05-3|TRAPPC9 REV__nc|ENSG00000167632|Q96Q05-3|TRAPPC9 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.2385559082031 2 503.787641 1005.56073 3.1989 0.0016115 -1.4114 -0.00071102 1.7875 0.00090052 503.7867826179765 50.096 0.30077 50.753 50.642 50.943 0.65735 18 11 2 0 0 0 0.14282 1 22875 22875 2.3027 0 1 274330 + 30837 13296 19734 19795 34690 34690 0.05817162680114052 SLQVLAPQ 8 Unmodified _SLQVLAPQ_ 0 0 0 REV__ENST00000400337.6_1_21:46933073-46933574:+|nuORF REV__ENST00000400337.6_1_21:46933073-46933574:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 428.2496643066406 2 428.25036 854.486168 NaN NaN NaN NaN NaN NaN NaN 79.552 1 79.872 79.372 80.372 0.31998 0 0 0 0.97647 1 38864 38864 7.2892 0 1 + 30838 16041 19735 19796 34691 34691 0.05310399868744753 SLQVLLLLLLL 11 Unmodified _SLQVLLLLLLL_ 0 0 0 ENSG00000114554|ENST00000393409|PLXNA1 ENSG00000114554|ENST00000393409|PLXNA1 ENSG00000114554|ENST00000393409|PLXNA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 413.2890930175781 3 413.287975 1236.8421 NaN NaN NaN NaN NaN NaN NaN 86.992 1 87.668 87.168 88.168 0.67555 0 0 0 1.0071 1 40070 40070 1.4551 0 1 30839 1912 19736 19797 34692 34692 0.2331490026715528 SLRELWRQ 8 Unmodified _SLRELWRQ_ 0 0 0 REV__ENST00000549478.1_1_12:104350574-104350781:-|nuORF REV__ENST00000549478.1_1_12:104350574-104350781:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1087.60302734375 1 1087.6007 1086.59343 3.55 0.003861 -2.7147 -0.0029525 0.83526 0.00090842 1087.5953273565506 26.779 0.058035 27.558 27.514 27.572 0.7787 5 4 2 0 0 0 0.74071 1 12034 12034 2.5775 0 1 843320 + 30840 17273 19737 19798 34693 34693 0.053593698029771986 SLRERDAAL 9 Unmodified _SLRERDAAL_ 0 0 0 nc|ENSG00000137497|Q14980-4|NUMA1;nc|ENSG00000137497|Q14980-3|NUMA1;nc|ENSG00000137497|Q14980-2|NUMA1;ENSG00000137497|ENST00000393695|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.1935729980469 3 344.192845 1029.55671 2.2604 0.00077802 0.63976 0.0002202 2.9002 0.00099822 344.19300328022507 14.827 0.26592 15.134 14.988 15.254 0.3069 40 22 2 0 0 0 0.83994 1 6687 6687 7.1017 0 1 140380 30841 3022 19738 19799 34694 34694 0.04311073186408976 SLRERDAAL 9 Unmodified _SLRERDAAL_ 0 0 0 nc|ENSG00000137497|Q14980-4|NUMA1;nc|ENSG00000137497|Q14980-3|NUMA1;nc|ENSG00000137497|Q14980-2|NUMA1;ENSG00000137497|ENST00000393695|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 344.192845 1029.55671 2.2604 0.00077802 0.63976 0.0002202 2.9002 0.00099822 344.19300328022507 14.827 0.26592 15.134 14.988 15.254 0.3069 -0.17231 6.8714E-05 NaN 7.1017 40 22 2 NaN NaN NaN NaN 0 NaN NaN 0 140380 30842 3022 19738 19799 0.04311073186408976 SLRERDAAL 9 Unmodified _SLRERDAAL_ 0 0 0 nc|ENSG00000137497|Q14980-4|NUMA1;nc|ENSG00000137497|Q14980-3|NUMA1;nc|ENSG00000137497|Q14980-2|NUMA1;ENSG00000137497|ENST00000393695|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 344.192845 1029.55671 2.459 0.00084638 0.42136 0.00014503 2.8804 0.00099141 344.19287607610937 14.825 0.29283 15.479 15.392 15.685 0.65356 0.17231 -0.0001568 NaN 7.1017 31 24 2 NaN NaN NaN NaN 0 NaN NaN 0 155380 30843 3022 19738 19799 0.04311073186408976 SLRFKKKKKK 10 Unmodified _SLRFKKKKKK_ 0 0 0 ENST00000341776.6_1_6:15521185-15521434:+|nuORF ENST00000341776.6_1_6:15521185-15521434:+|nuORF ENST00000341776.6_1_6:15521185-15521434:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.8659057617188 2 645.940257 1289.86596 NaN NaN NaN NaN NaN NaN NaN 55.223 1 56.01 55.51 56.51 0.78711 0 0 0 1.0019 1 25208 25208 0.40072 0.40072 1 30844 7078 19739 19800 34695 34695 0.23262178544155176 SLRIMICL 8 Unmodified _SLRIMICL_ 0 0 0 nc|ENSG00000133958|Q9P2D8-2|UNC79;nc|ENSG00000133958|Q9P2D8|UNC79;nc|ENSG00000133958|Q9P2D8-3|UNC79;ENSG00000133958|ENST00000695012|UNC79 nc|ENSG00000133958|Q9P2D8-2|UNC79 nc|ENSG00000133958|Q9P2D8-2|UNC79 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 316.8510437011719 3 316.850486 947.529629 2.0916 0.00066273 -0.4231 -0.00013406 1.6685 0.00052867 316.85032025352297 16.741 0.94591 17.046 16.49 17.435 0.30438 199 92 3 0 0 0 0.72385 1 7517 7517 3.9444 0 1 203120 30845 2777 19740 19801 34696 34696 0.0537655005000488 SLRKIRRPQNR 11 Unmodified _SLRKIRRPQNR_ 0 0 0 REV__ENST00000609694.5_1_21:46341180-46342894:+|nuORF REV__ENST00000609694.5_1_21:46341180-46342894:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 712.4396362304688 2 712.439475 1422.8644 NaN NaN NaN NaN NaN NaN NaN 85.669 1 86.339 85.839 86.839 0.67061 0 0 0 1.008 1 39450 39450 0.35063 0 1 + 30846 17680 19741 19802 34697 34697 0.16987937508133655 SLRKLIRIFRL 11 Unmodified _SLRKLIRIFRL_ 0 0 0 ENST00000370952.3_1_1:70654857-70654932:-|nuORF ENST00000370952.3_1_1:70654857-70654932:-|nuORF ENST00000370952.3_1_1:70654857-70654932:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 707.7657470703125 2 707.972088 1413.92962 NaN NaN NaN NaN NaN NaN NaN 79.063 1 79.527 79.027 80.027 0.4642 0 0 0 1.0057 1 38565 38565 3.2813 0 1 30847 7311 19742 19803 34698 34698 0.2392153898124434 SLRKRNSWRHR 11 Unmodified _SLRKRNSWRHR_ 0 0 0 REV__MCTP2|p.N603Ifs*5|1|0.36|ENSG00000140563|chr15:94398979-94398979|A/-|frameshift_variant REV__MCTP2|p.N603Ifs*5|1|0.36|ENSG00000140563|chr15:94398979-94398979|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 748.4246826171875 2 748.426899 1494.83924 NaN NaN NaN NaN NaN NaN NaN 60.201 1 60.951 60.451 61.451 0.74927 0 0 0 1.0073 1 27724 27724 1.1933 0.84271 1 + 30848 12258 19743 19804 34699 34699 0.11161882705528114 SLRLHDLL 8 Unmodified _SLRLHDLL_ 0 0 0 REV__ENST00000406117.6_1_22:44322822-44359208:+|nuORF REV__ENST00000406117.6_1_22:44322822-44359208:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 322.8635559082031 3 322.862548 965.565815 2.2134 0.00071462 -0.10036 -3.2404E-05 2.113 0.00068221 322.86253773918924 26.103 0.32008 26.866 26.706 27.026 0.76356 45 22 3 0 0 0 0.62895 1 11778 11778 8.7454 2.5396 1 1146100 + 30849 10821 19744 19805 34700 34700 0.08165466542754984 SLRLKKRLRKR 11 Unmodified _SLRLKKRLRKR_ 0 0 0 REV__ENST00000547135.5_1_12:49231823-49239549:-|nuORF REV__ENST00000547135.5_1_12:49231823-49239549:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 727.4970092773438 2 727.499336 1452.98412 NaN NaN NaN NaN NaN NaN NaN 55.794 1 56.581 56.081 57.081 0.78711 0 0 0 1.0082 1 25483 25483 0 0 1 + 30850 17254 19745 19806 34701 34701 0.27574550852637003 SLRLPSAKAKD 11 Unmodified _SLRLPSAKAKD_ 0 0 0 REV__ENST00000575500.5_2_17:78163648-78178987:+|nuORF REV__ENST00000575500.5_2_17:78163648-78178987:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.9030456542969 3 395.903183 1184.68772 3.5945 0.0014231 -3.2612 -0.0012911 0.33326 0.00013194 395.90192316897156 93.746 0.2526 94.001 93.822 94.074 0.25497 21 10 3 0 0 0 0.86022 1 43072 43072 1.9275 0.33522 1 290700 + 30851 12297 19746 19807 34702 34702 0.10276463834452443 SLRLPSAKAKD 11 Unmodified _SLRLPSAKAKD_ 0 0 0 REV__ENST00000575500.5_2_17:78163648-78178987:+|nuORF REV__ENST00000575500.5_2_17:78163648-78178987:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 395.903183 1184.68772 3.5945 0.0014231 -3.2612 -0.0012911 0.33326 0.00013194 395.90192316897156 93.746 0.2526 94.001 93.822 94.074 0.25497 0.16423 -0.00038543 NaN 1.9275 21 10 3 NaN NaN NaN NaN 0 NaN NaN 0 290700 + 30852 12297 19746 19807 0.10276463834452443 SLRPLDVAV 9 Unmodified _SLRPLDVAV_ 0 0 0 REV__ENST00000561277.5_1_15:77348159-77348452:-|nuORF REV__ENST00000561277.5_1_15:77348159-77348452:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2901916503906 2 485.290017 968.565481 3.2909 0.001597 -1.4263 -0.00069215 1.8646 0.00090488 485.28890664368413 39.286 0.57272 39.924 39.586 40.159 0.63778 27 20 2 0 0 0 0.46674 1 18011 18011 13.042 1.4022 1 421620 + 30853 17371 19747 19808 34703 34703 0.07994046822886958 SLRPLRQGRGR 11 Unmodified _SLRPLRQGRGR_ 0 0 0 REV__ENST00000263026.9_1_16:22217644-22236999:+|nuORF REV__ENST00000263026.9_1_16:22217644-22236999:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 324.6993103027344 4 324.699635 1294.76943 2.1333 0.00069268 -1.8465 -0.00059955 0.28681 9.3127E-05 324.6990789100849 52.049 0.21847 52.049 51.967 52.185 0 19 12 2 0 0 0 0.91168 1 23848 23848 1.0136 0.31591 1 500720 + 30854 14995 19748 19809 34704 34704 0.13384004036902297 SLRPLRQGRGR 11 Unmodified _SLRPLRQGRGR_ 0 0 0 REV__ENST00000263026.9_1_16:22217644-22236999:+|nuORF REV__ENST00000263026.9_1_16:22217644-22236999:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 324.699635 1294.76943 2.2108 0.00071785 -1.844 -0.00059876 0.36676 0.00011909 324.69886476115374 51.701 0.23651 51.963 51.774 52.011 0.26227 -0.042722 1.2861E-06 NaN 1.0136 27 12 3 NaN NaN NaN NaN 0 NaN NaN 0 479210 + 30855 14995 19748 19809 0.13384004036902297 SLRPPKRRRR 10 Unmodified _SLRPPKRRRR_ 0 0 0 nc|ENSG00000110844|Q6NWY9-2|PRPF40B;nc|ENSG00000110844|Q6NWY9-3|PRPF40B;nc|ENSG00000110844|Q6NWY9|PRPF40B;ENSG00000110844|ENST00000548825|PRPF40B;ENST00000551269.1_1_12:50037029-50037194:+|nuORF nc|ENSG00000110844|Q6NWY9-2|PRPF40B nc|ENSG00000110844|Q6NWY9-2|PRPF40B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.2867126464844 3 441.284844 1320.8327 NaN NaN NaN NaN NaN NaN NaN 42.433 1 42.433 41.933 42.933 0 0 0 0 1.0012 1 19318 19318 0.69767 0.19171 1 30856 1732 19749 19810 34705 34705 0.1851198954479969 SLRPPKRRRR 10 Unmodified _SLRPPKRRRR_ 0 0 0 nc|ENSG00000110844|Q6NWY9-2|PRPF40B;nc|ENSG00000110844|Q6NWY9-3|PRPF40B;nc|ENSG00000110844|Q6NWY9|PRPF40B;ENSG00000110844|ENST00000548825|PRPF40B;ENST00000551269.1_1_12:50037029-50037194:+|nuORF nc|ENSG00000110844|Q6NWY9-2|PRPF40B nc|ENSG00000110844|Q6NWY9-2|PRPF40B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.28521728515625 3 441.284844 1320.8327 NaN NaN NaN NaN NaN NaN NaN 42.518 1 42.788 42.288 43.288 0.27021 0 0 0 0.99976 1 19389 19389 1.9064 0.57673 1 30857 1732 19749 19810 34706 34706 0.1851198954479969 SLRQILRHKRK 11 Unmodified _SLRQILRHKRK_ 0 0 0 ENST00000537025.6_1_17:66040173-66040476:+|nuORF ENST00000537025.6_1_17:66040173-66040476:+|nuORF ENST00000537025.6_1_17:66040173-66040476:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 717.9602661132812 2 717.960043 1433.90553 3.7442 0.0026882 -1.5501 -0.0011129 2.1941 0.0015753 717.9584248965226 39.809 0.44429 39.809 39.672 40.116 0 43 19 3 0 0 0 0.89844 1 18118 18118 2.4985 1.3051 1 703620 30858 8773 19750 19811 34707 34707 0.20593698547577333 SLRQILRHKRK 11 Unmodified _SLRQILRHKRK_ 0 0 0 ENST00000537025.6_1_17:66040173-66040476:+|nuORF ENST00000537025.6_1_17:66040173-66040476:+|nuORF ENST00000537025.6_1_17:66040173-66040476:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.73370361328125 4 359.48366 1433.90553 2.5051 0.00090053 -2.3742 -0.00085349 0.13085 4.7038E-05 359.7335943738851 50.606 0.34565 50.868 50.73 51.076 0.26146 34 16 3 0 0 0 0.91149 1 23139 23139 0.36667 0.28332 1 518480 30859 8773 19750 19811 34708 34708 0.20593698547577333 SLRQILRHKRK 11 Unmodified _SLRQILRHKRK_ 0 0 0 ENST00000537025.6_1_17:66040173-66040476:+|nuORF ENST00000537025.6_1_17:66040173-66040476:+|nuORF ENST00000537025.6_1_17:66040173-66040476:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.7342834472656 4 359.48366 1433.90553 2.4787 0.00089107 -1.3955 -0.00050165 1.0833 0.00038942 359.48305437557246 50.963 0.37352 51.225 51.076 51.449 0.26146 34 16 3 0 0 0 0.89844 1 23294 23294 1.0136 0.55906 1 804300 30860 8773 19750 19811 34709 34709 0.20593698547577333 SLRQILRHKRK 11 Unmodified _SLRQILRHKRK_ 0 0 0 ENST00000537025.6_1_17:66040173-66040476:+|nuORF ENST00000537025.6_1_17:66040173-66040476:+|nuORF ENST00000537025.6_1_17:66040173-66040476:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 717.9630126953125 2 717.960043 1433.90553 NaN NaN NaN NaN NaN NaN NaN 38.892 1 39.156 38.656 39.656 0.26408 0 0 0 1.0074 1 17699 17699 1.0715 0.72083 1 30861 8773 19750 19811 34710 34710 0.20593698547577333 SLRQILRHKRK 11 Unmodified _SLRQILRHKRK_ 0 0 0 ENST00000537025.6_1_17:66040173-66040476:+|nuORF ENST00000537025.6_1_17:66040173-66040476:+|nuORF ENST00000537025.6_1_17:66040173-66040476:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 359.48366 1433.90553 2.4032 0.00086391 -1.7342 -0.00062342 0.66896 0.00024048 359.4829218105155 50.255 0.60019 51.077 50.727 51.327 0.82285 0.10491 0.00027629 NaN 0.36667 45 27 2 NaN NaN NaN NaN 0 NaN NaN 0 417340 30862 8773 19750 19811 0.20593698547577333 SLRQILRHKRK 11 Unmodified _SLRQILRHKRK_ 0 0 0 ENST00000537025.6_1_17:66040173-66040476:+|nuORF ENST00000537025.6_1_17:66040173-66040476:+|nuORF ENST00000537025.6_1_17:66040173-66040476:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 717.960043 1433.90553 3.8542 0.0027671 -2.6877 -0.0019297 1.1665 0.00083748 717.9581807769629 39.865 0.34551 40.132 39.853 40.199 0.26696 0.16195 -0.001101 NaN 2.4985 17 11 2 NaN NaN NaN NaN 0 NaN NaN 0 430260 30863 8773 19750 19811 0.20593698547577333 SLRQRPMPR 9 Unmodified _SLRQRPMPR_ 0 0 0 DNMT3A|p.E616Dfs*35|1|0.15|ENSG00000119772|chr2:25244158-25244158|T/-|frameshift_variant;DNMT3A|p.S839Pfs*2|1|0.35|ENSG00000119772|chr2:25235789-25235789|A/-|frameshift_variant;ENSG00000119772|ENST00000321117|DNMT3A DNMT3A|p.E616Dfs*35|1|0.15|ENSG00000119772|chr2:25244158-25244158|T/-|frameshift_variant DNMT3A|p.E616Dfs*35|1|0.15|ENSG00000119772|chr2:25244158-25244158|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.8866271972656 3 380.88547 1139.63458 2.5593 0.00097478 0.71083 0.00027074 3.2701 0.0012455 380.88562188140713 62.329 0.60105 62.989 62.597 63.198 0.66008 187 60 4 0 0 0 1.129 1 28633 28633 0.96228 0 1 23376000 30864 274 19751 19812 34711 34711 0.07034807570812518 SLRRLRCRRLR 11 Unmodified _SLRRLRCRRLR_ 0 0 0 ENST00000392973.7_1_16:90075326-90076003:-|nuORF ENST00000392973.7_1_16:90075326-90076003:-|nuORF ENST00000392973.7_1_16:90075326-90076003:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 742.622802734375 2 742.962594 1483.91064 NaN NaN NaN NaN NaN NaN NaN 80.007 1 80.327 79.827 80.827 0.31998 0 0 0 1.0057 1 39103 39103 3.2813 2.9307 1 30865 7526 19752 19813 34712 34712 0.18803679138545704 SLRRRRRR 8 Unmodified _SLRRRRRR_ 0 0 0 REV__ENST00000373930.3_1_9:123476433-123476640:-|nuORF REV__ENST00000373930.3_1_9:123476433-123476640:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.3746948242188 2 578.373938 1154.73332 NaN NaN NaN NaN NaN NaN NaN 69.057 1 69.716 69.216 70.216 0.65924 0 0 0 0.99035 1 31656 31656 0.79363 0 1 + 30866 15778 19753 19814 34713 34713 0.1621459165073702 SLRRRRRRRRR 11 Unmodified _SLRRRRRRRRR_ 0 0 0 REV__ENST00000373930.3_1_9:123476433-123476640:-|nuORF REV__ENST00000373930.3_1_9:123476433-123476640:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 812.487060546875 2 812.525605 1623.03666 NaN NaN NaN NaN NaN NaN NaN 109.05 1 109.36 108.86 109.86 0.31168 0 0 0 1.0082 1 50278 50278 0 0 1 + 30867 15778 19754 19815 34714 34714 0.2500594675884713 SLRSFLLMCCS 11 Unmodified _SLRSFLLMCCS_ 0 0 0 ENST00000563328.4_1_16:72699134-72781048:+|nuORF ENST00000563328.4_1_16:72699134-72781048:+|nuORF ENST00000563328.4_1_16:72699134-72781048:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 630.3851318359375 2 630.300887 1258.58722 NaN NaN NaN NaN NaN NaN NaN 80.728 1 80.896 80.396 81.396 0.16862 0 0 0 0.97845 1 39579 39579 8.7454 0 1 30868 9008 19755 19816 34715 34715 -0.03172975806683098 SLRVRTVDV 9 Unmodified _SLRVRTVDV_ 0 0 0 nc|ENSG00000146021|Q9UH77-3|KLHL3;nc|ENSG00000146021|Q9UH77-2|KLHL3;ENSG00000146021|ENST00000309755|KLHL3 nc|ENSG00000146021|Q9UH77-3|KLHL3 nc|ENSG00000146021|Q9UH77-3|KLHL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 348.8783874511719 3 348.876857 1043.60874 NaN NaN NaN NaN NaN NaN NaN 18.011 1 18.011 17.511 18.511 0 0 0 0 0.68339 1 7998 7998 12.873 4.1272 1 30869 3501 19756 19817 34716 34716 0.08868236600187629 SLRWLDFFILT 11 Unmodified _SLRWLDFFILT_ 0 0 0 REV__ENSG00000140323|ENST00000267889|DISP2 REV__ENSG00000140323|ENST00000267889|DISP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 706.057373046875 2 705.892638 1409.77072 NaN NaN NaN NaN NaN NaN NaN 80.63 1 80.799 80.299 81.299 0.16862 0 0 0 1.0059 1 39527 39527 2.9952 0 1 + 30870 12239 19757 19818 34717 34717 0.08222780562459775 SLRWRDQIYRR 11 Unmodified _SLRWRDQIYRR_ 0 0 0 ENST00000285279.9_1_7:55540109-55540292:-|nuORF ENST00000285279.9_1_7:55540109-55540292:-|nuORF ENST00000285279.9_1_7:55540109-55540292:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 774.9282836914062 2 774.92894 1547.84333 NaN NaN NaN NaN NaN NaN NaN 59.826 1 60.575 60.075 61.075 0.74927 0 0 0 1.008 1 27492 27492 0.35063 0 1 30871 6716 19758 19819 34718 34718 0.09131927408589036 SLSGGKGF 8 Unmodified _SLSGGKGF_ 0 0 0 ENST00000491694.1_1_3:111658417-111664240:+|nuORF;nc|ENSG00000144824|Q86SQ0-2|PHLDB2;nc|ENSG00000144824|Q86SQ0-3|PHLDB2;ENSG00000144824|ENST00000431670|PHLDB2 ENST00000491694.1_1_3:111658417-111664240:+|nuORF ENST00000491694.1_1_3:111658417-111664240:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.7011413574219 2 376.700503 751.386454 2.3342 0.00087929 0.20676 7.7887E-05 2.541 0.00095718 376.7004651771586 25.876 0.29826 26.64 26.481 26.779 0.76356 37 18 3 0 0 0 0.70146 1 11588 11588 5.7604 0.52976 1 742210 30872 3448 19759 19820 34719 34719 0.0008158225481338377 SLSRGWLLP 9 Unmodified _SLSRGWLLP_ 0 0 0 ENST00000264649.10_1_17:40673857-40673962:+|nuORF ENST00000264649.10_1_17:40673857-40673962:+|nuORF ENST00000264649.10_1_17:40673857-40673962:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.800537109375 2 514.798009 1027.58147 NaN NaN NaN NaN NaN NaN NaN 34.46 1 35.082 34.582 35.582 0.62294 0 0 0 0.90699 1 15786 15786 1.8442 0 1 30873 6609 19760 19821 34720 34720 0.06877753059802671 SLTKIKNRRKK 11 Unmodified _SLTKIKNRRKK_ 0 0 0 REV__ENSG00000120210|ENST00000381641|INSL6 REV__ENSG00000120210|ENST00000381641|INSL6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 686.4487915039062 2 686.448977 1370.8834 NaN NaN NaN NaN NaN NaN NaN 70.511 1 70.511 70.011 71.011 0 0 0 0 1.0072 1 34225 34225 1.3295 0 1 + 30874 11532 19761 19822 34721 34721 0.21279474079165084 SLTLTPSL 8 Unmodified _SLTLTPSL_ 0 0 0 nc|ENSG00000280109|Q8WY50|PLAC4 nc|ENSG00000280109|Q8WY50|PLAC4 nc|ENSG00000280109|Q8WY50|PLAC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 416.24603271484375 2 416.244744 830.474934 2.7143 0.0011298 1.6338 0.00068006 4.3481 0.0018099 416.2454159189463 14.641 0.20308 14.867 14.77 14.973 0.22622 25 14 2 0 0 0 0.60592 1 6430 6430 13.508 0 1 186680 30875 9869 19762 19823 34722 34722 0.052915777746079584 SLTLTPSL 8 Unmodified _SLTLTPSL_ 0 0 0 nc|ENSG00000280109|Q8WY50|PLAC4 nc|ENSG00000280109|Q8WY50|PLAC4 nc|ENSG00000280109|Q8WY50|PLAC4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 416.244744 830.474934 2.7792 0.0011568 1.8924 0.00078768 4.6716 0.0019445 416.2454954238314 15.146 0.5913 15.146 14.902 15.494 0 0.13961 7.1586E-05 NaN 13.508 96 68 2 NaN NaN NaN NaN 0 NaN NaN 0 87037 30876 9869 19762 19823 0.052915777746079584 SLTPFSPQAHA 11 Unmodified _SLTPFSPQAHA_ 0 0 0 REV__ENST00000246174.6_2_X:101856417-101857057:+|nuORF REV__ENST00000246174.6_2_X:101856417-101857057:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.2932739257812 2 578.293288 1154.57202 NaN NaN NaN NaN NaN NaN NaN 35.34 1 36.132 35.632 36.632 0.79131 0 0 0 1.0059 1 16016 16016 2.9952 0 1 + 30877 14895 19763 19824 34723 34723 0.0009193998364480649 SLVFWRRKWLR 11 Unmodified _SLVFWRRKWLR_ 0 0 0 REV__nc|ENSG00000105559|Q9H4M7-2|PLEKHA4 REV__nc|ENSG00000105559|Q9H4M7-2|PLEKHA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 773.9598999023438 2 773.959512 1545.90447 NaN NaN NaN NaN NaN NaN NaN 78.471 1 78.471 77.971 78.971 0 0 0 0 1.0082 1 38574 38574 0.30703 0 1 + 30878 11042 19764 19825 34724 34724 0.15335484178672232 SLVGSVAS 8 Unmodified _SLVGSVAS_ 0 0 0 REV__nc|ENSG00000180638|Q86VL8-2|SLC47A2 REV__nc|ENSG00000180638|Q86VL8-2|SLC47A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 360.21221923828125 2 360.200336 718.386119 NaN NaN NaN NaN NaN NaN NaN 27.205 1 27.984 27.484 28.484 0.7787 0 0 0 0.67718 1 12228 12228 23.148 0 1 + 30879 13827 19765 19826 34725 34725 0.015661625349480346 SLVKKKKKLK 10 Unmodified _SLVKKKKKLK_ 0 0 0 REV__ENST00000282964.5_1_21:21112145-21112373:+|nuORF REV__ENST00000282964.5_1_21:21112145-21112373:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 600.18212890625 2 600.431733 1198.84891 NaN NaN NaN NaN NaN NaN NaN 73.032 1 73.731 73.231 74.231 0.69881 0 0 0 1.0001 1 35194 35194 1.6526 0 1 + 30880 15095 19766 19827 34726 34726 0.2574425793834507 SLVKKLKKKK 10 Unmodified _SLVKKLKKKK_ 0 0 0 SMAD9|p.P152Lfs*22|1|0.06|ENSG00000120693|chr13:36872874-36872875|-/AAATACGGGAAAATAA|frameshift_variant;nc|ENSG00000120693|O15198-2|SMAD9;ENSG00000120693|ENST00000379826|SMAD9 SMAD9|p.P152Lfs*22|1|0.06|ENSG00000120693|chr13:36872874-36872875|-/AAATACGGGAAAATAA|frameshift_variant SMAD9|p.P152Lfs*22|1|0.06|ENSG00000120693|chr13:36872874-36872875|-/AAATACGGGAAAATAA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 600.4309692382812 2 600.431733 1198.84891 NaN NaN NaN NaN NaN NaN NaN 105.11 1 105.43 104.93 105.93 0.31782 0 0 0 1.002 1 48522 48522 0 0 1 30881 2205 19767 19828 34727 34727 0.25744257938322335 SLVNLGGSK 9 Unmodified _SLVNLGGSK_ 0 0 0 ENSG00000167768|ENST00000252244|KRT1;CON__P04264 ENSG00000167768|ENST00000252244|KRT1 ENSG00000167768|ENST00000252244|KRT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.7548522949219 2 437.753267 873.491981 2.5252 0.0011054 0.87955 0.00038502 3.4048 0.0014905 437.75354762714477 32.732 0.25259 33.52 33.414 33.666 0.78795 25 19 2 0 0 0 0.091193 1 14813 14813 34.932 2.6266 1 251140 + 30882 4579 19768 19829 34728 34728 0.05017498380436791 SLVPGLKRPIM 11 Unmodified _SLVPGLKRPIM_ 0 0 0 REV__ENST00000561504.1_1_10:88730503-88743627:+|nuORF REV__ENST00000561504.1_1_10:88730503-88743627:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1210.7335205078125 1 1210.73403 1209.72675 3.3931 0.0041082 0.56324 0.00068194 3.9564 0.0047901 1210.7364642345117 56.642 0.1868 57.31 57.214 57.401 0.66829 18 9 2 0 0 0 0.89988 1 25901 25901 2.7352 1.0826 1 1122600 + 30883 16278 19769 19830 34729 34729 0.13027472864473566 SLVRMREPA 9 Unmodified _SLVRMREPA_ 0 0 0 REV__ENST00000409465.5_1_2:191849046-191850367:-|nuORF REV__ENST00000409465.5_1_2:191849046-191850367:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1058.58349609375 1 1058.57752 1057.57025 3.2804 0.0034726 3.4337 0.0036349 6.7142 0.0071075 1058.5767579749386 36.44 0.093204 36.44 36.394 36.487 0 5 3 2 0 0 0 1.1154 1 16557 16557 2.0598 0 1 197140 + 30884 16096 19770 19831 34730 34730 0.04376607694007362 SLVRMWRVRWR 11 Unmodified _SLVRMWRVRWR_ 0 0 0 ENSG00000184345|ENST00000333127|IQCF2 ENSG00000184345|ENST00000333127|IQCF2 ENSG00000184345|ENST00000333127|IQCF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 772.9407958984375 2 772.940796 1543.86704 NaN NaN NaN NaN NaN NaN NaN 62.9 1 63.558 63.058 64.058 0.65808 0 0 0 1.0074 1 28824 28824 1.0715 0.76443 1 30885 5433 19771 19832 34731 34731 0.11686069641382346 SLVRVPQRR 9 Unmodified _SLVRVPQRR_ 0 0 0 REV__ENSG00000142182|ENST00000628202|DNMT3L REV__ENSG00000142182|ENST00000628202|DNMT3L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 555.8460083007812 2 555.846356 1109.67816 NaN NaN NaN NaN NaN NaN NaN 52.936 1 53.74 53.24 54.24 0.80351 0 0 0 0.89983 1 24125 24125 3.5965 0.31518 1 + 30886 12316 19772 19833 34732 34732 0.12770740339601616 SLVTFNWFLVV 11 Unmodified _SLVTFNWFLVV_ 0 0 0 nc|ENSG00000095383|Q9BYX2-6|TBC1D2;nc|ENSG00000095383|Q9BYX2-5|TBC1D2;nc|ENSG00000095383|Q9BYX2-4|TBC1D2;nc|ENSG00000095383|Q9BYX2-3|TBC1D2;nc|ENSG00000095383|Q9BYX2-2|TBC1D2;ENSG00000095383|ENST00000465784|TBC1D2 nc|ENSG00000095383|Q9BYX2-6|TBC1D2 nc|ENSG00000095383|Q9BYX2-6|TBC1D2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 662.8705444335938 2 662.868631 1323.72271 NaN NaN NaN NaN NaN NaN NaN 79.113 1 79.578 79.078 80.078 0.4642 0 0 0 1.0059 1 38604 38604 2.9952 1.6657 1 30887 1118 19773 19834 34733 34733 0.07379706642404926 SLVVLRTKV 9 Unmodified _SLVVLRTKV_ 0 0 0 ENST00000506098.5_1_4:77065364-77065620:-|nuORF ENST00000506098.5_1_4:77065364-77065620:-|nuORF ENST00000506098.5_1_4:77065364-77065620:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.89459228515625 3 338.893848 1013.65972 1.6448 0.00055743 1.104 0.00037414 2.7489 0.00093157 338.8941953137461 4.6442 0.34195 4.9489 4.7901 5.132 0.30465 49 33 2 0 0 0 1.2289 1 2114 2114 0.26902 0 1 70871 30888 8510 19774 19835 34734 34734 0.15343185645053836 SLVWVWLI 8 Unmodified _SLVWVWLI_ 0 0 0 REV__ENSG00000169715|ENST00000330439|MT1E REV__ENSG00000169715|ENST00000330439|MT1E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.30255126953125 2 508.302396 1014.59024 3.26 0.0016571 -0.94381 -0.00047974 2.3162 0.0011773 508.30197343469155 49.93 0.60743 50.192 49.98 50.587 0.26146 53 22 3 0 0 0 0.57648 1 22971 22971 14.582 0 1 1372200 + 30889 13400 19775 19836 34735 34735 0.08352726696284662 SLWLSRELIYL 11 Unmodified _SLWLSRELIYL_ 0 0 0 REV__ENST00000311322.8_1_8:19824553-19824622:+|nuORF REV__ENST00000311322.8_1_8:19824553-19824622:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 696.681640625 2 696.89792 1391.78129 NaN NaN NaN NaN NaN NaN NaN 100.19 1 100.19 99.693 100.69 0 0 0 0 1.0047 1 55257 55257 4.5289 1.2476 1 + 30890 15267 19776 19837 34736 34736 0.1010676321691335 SLWSGLIRARQ 11 Unmodified _SLWSGLIRARQ_ 0 0 0 REV__ENST00000281187.9_1_11:134115764-134115887:+|nuORF REV__ENST00000281187.9_1_11:134115764-134115887:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.8703002929688 2 643.870028 1285.7255 NaN NaN NaN NaN NaN NaN NaN 101.79 1 101.79 101.29 102.29 0 0 0 0 1.0041 1 56232 56232 5.2969 0 1 + 30891 15090 19777 19838 34737 34737 0.09406974819921743 SLYDFWEYYLP 11 Unmodified _SLYDFWEYYLP_ 0 0 0 ENST00000547670.5_1_12:49494396-49503620:-|nuORF;nc|ENSG00000139636|Q6UX01-5|LMBR1L;ENST00000550867.5_1_12:49494935-49504419:-|nuORF;nc|ENSG00000139636|Q6UX01-3|LMBR1L;nc|ENSG00000139636|Q6UX01-4|LMBR1L;nc|ENSG00000139636|Q6UX01-2|LMBR1L;ENSG00000139636|ENST00000267102|LMBR1L;ENST00000552141.5_1_12:49495806-49497560:-|nuORF ENST00000547670.5_1_12:49494396-49503620:-|nuORF ENST00000547670.5_1_12:49494396-49503620:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 748.3427124023438 2 748.342643 1494.67073 NaN NaN NaN NaN NaN NaN NaN 105.08 1 105.67 105.17 106.17 0.59885 0 0 0 1.008 1 48528 48528 0.35063 0 1 30892 3156 19778 19839 34738 34738 -0.0568150156198044 SLYDNYSL 8 Unmodified _SLYDNYSL_ 0 0 0 REV__ENSG00000277758|ENST00000615923|SYT15B REV__ENSG00000277758|ENST00000615923|SYT15B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.7250671386719 2 487.726915 973.439277 NaN NaN NaN NaN NaN NaN NaN 54.643 1 54.643 54.143 55.143 0 0 0 0 0.94507 1 25081 25081 9.3474 0.75416 1 + 30893 14402 19779 19840 34739 34739 -0.048505044730404734 SLYFFIQL 8 Unmodified _SLYFFIQL_ 0 0 0 REV__nc|ENSG00000161040|Q8NEE6-4|FBXL13 REV__nc|ENSG00000161040|Q8NEE6-4|FBXL13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.7916259765625 2 515.784036 1029.55352 3.3131 0.0017089 -0.55496 -0.00028624 2.7582 0.0014226 515.7841871387243 77.935 0.146 78.188 78.146 78.292 0.25335 12 8 2 0 0 0 0.37185 1 35889 35889 30.225 7.0764 1 303380 + 30894 12906 19780 19841 34740 34740 0.03992430079733822 SLYILERSLWL 11 Unmodified _SLYILERSLWL_ 0 0 0 ENST00000311322.8_1_8:19824553-19824622:+|nuORF ENST00000311322.8_1_8:19824553-19824622:+|nuORF ENST00000311322.8_1_8:19824553-19824622:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 696.6787719726562 2 696.89792 1391.78129 NaN NaN NaN NaN NaN NaN NaN 99.328 1 99.628 99.128 100.13 0.29987 0 0 0 1.0041 1 45876 45876 5.2969 1.1074 1 30895 6871 19781 19842 34741 34741 0.10106763216890613 SLYIWIVKKWS 11 Unmodified _SLYIWIVKKWS_ 0 0 0 REV__ENSG00000127249|ENST00000342695|ATP13A4 REV__ENSG00000127249|ENST00000342695|ATP13A4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 711.9052734375 2 711.91083 1421.80711 NaN NaN NaN NaN NaN NaN NaN 90.72 1 90.72 90.22 91.22 0 0 0 0 1.0074 1 47757 47757 1.0715 0.61312 1 + 30896 11733 19782 19843 34742 34742 0.113076574591787 SLYKKISVL 9 Unmodified _SLYKKISVL_ 0 0 0 ENST00000264926.6_1_3:8990217-8990253:-|nuORF ENST00000264926.6_1_3:8990217-8990253:-|nuORF ENST00000264926.6_1_3:8990217-8990253:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.8906555175781 3 350.890104 1049.64848 2.3478 0.00082383 0.54783 0.00019223 2.8957 0.0010161 350.8901296231998 38.632 0.20644 38.896 38.793 38.999 0.26408 13 9 2 0 0 0 0.8705 1 17609 17609 3.8763 1.033 1 505200 30897 6612 19783 19844 34743 34743 0.12564363550905 SLYKKISVL 9 Unmodified _SLYKKISVL_ 0 0 0 ENST00000264926.6_1_3:8990217-8990253:-|nuORF ENST00000264926.6_1_3:8990217-8990253:-|nuORF ENST00000264926.6_1_3:8990217-8990253:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 350.890104 1049.64848 2.3478 0.00082383 0.54783 0.00019223 2.8957 0.0010161 350.8901296231998 38.632 0.20644 38.896 38.793 38.999 0.26408 0.063484 -0.00022968 NaN 3.8763 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 505200 30898 6612 19783 19844 0.12564363550905 SLYKKISVL 9 Unmodified _SLYKKISVL_ 0 0 0 ENST00000264926.6_1_3:8990217-8990253:-|nuORF ENST00000264926.6_1_3:8990217-8990253:-|nuORF ENST00000264926.6_1_3:8990217-8990253:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 350.890104 1049.64848 2.2873 0.00080259 0.97006 0.00034039 3.2574 0.001143 350.89037635469646 38.135 0.29238 38.769 38.581 38.873 0.63388 -0.063484 0.00021479 NaN 3.8763 15 12 2 NaN NaN NaN NaN 0 NaN NaN 0 427220 30899 6612 19783 19844 0.12564363550905 SLYRDRRREIR 11 Unmodified _SLYRDRRREIR_ 0 0 0 REV__ENST00000578686.1_1_17:37816548-37817339:+|nuORF REV__ENST00000578686.1_1_17:37816548-37817339:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 760.43115234375 2 760.431847 1518.84914 NaN NaN NaN NaN NaN NaN NaN 55.135 1 55.923 55.423 56.423 0.78711 0 0 0 1.0072 1 25168 25168 1.3295 0 1 + 30900 11866 19784 19845 34744 34744 0.11047025920265696 SLYRLRRCHYW 11 Unmodified _SLYRLRRCHYW_ 0 0 0 REV__MRGPRX3|p.P135L|1|0.24|ENSG00000179826|chr11:18137606-18137606|C/T|missense_variant REV__MRGPRX3|p.P135L|1|0.24|ENSG00000179826|chr11:18137606-18137606|C/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 777.236083984375 2 776.901337 1551.78812 NaN NaN NaN NaN NaN NaN NaN 106.84 1 107.16 106.66 107.66 0.31628 0 0 0 1.0072 1 49299 49299 1.3295 0.13619 1 + 30901 17841 19785 19846 34745 34745 0.034297976164907595 SLYRQQRFRR 10 Unmodified _SLYRQQRFRR_ 0 0 0 REV__ENSG00000136327|ENST00000258829|NKX2-8 REV__ENSG00000136327|ENST00000258829|NKX2-8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 705.394775390625 2 705.397276 1408.78 NaN NaN NaN NaN NaN NaN NaN 71.365 1 71.622 71.122 72.122 0.25786 0 0 0 1.0015 1 32691 32691 0.40072 0.050084 1 + 30902 11696 19786 19847 34746 34746 0.09195986691338476 SLYYCFYPPH 10 Unmodified _SLYYCFYPPH_ 0 0 0 REV__ENST00000356384.4_1_9:137328607-137328931:+|nuORF REV__ENST00000356384.4_1_9:137328607-137328931:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.5298767089844 3 430.526837 1288.55868 NaN NaN NaN NaN NaN NaN NaN 40.885 1 41.154 40.654 41.654 0.26904 0 0 0 1.0015 1 18605 18605 0.15932 0 1 + 30903 15554 19787 19848 34747 34747 -0.07405634119982096 SMCMSGFCTC 10 Unmodified _SMCMSGFCTC_ 0 0 0 ENST00000319888.10_1_18:2567287-2567389:-|nuORF ENST00000319888.10_1_18:2567287-2567389:-|nuORF ENST00000319888.10_1_18:2567287-2567389:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.1676635742188 2 535.167627 1068.3207 NaN NaN NaN NaN NaN NaN NaN 93.094 1 93.094 92.594 93.594 0 0 0 0 1.002 1 49633 49633 0 0 1 30904 6919 19788 19849 34748 34748 -0.2107272563218885 SMDDFPPP 8 Unmodified _SMDDFPPP_ 0 0 0 ENSG00000138771|ENST00000296043|SHROOM3 ENSG00000138771|ENST00000296043|SHROOM3 ENSG00000138771|ENST00000296043|SHROOM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 452.7786865234375 2 453.189111 904.363669 NaN NaN NaN NaN NaN NaN NaN 103.09 1 103.15 102.65 103.65 0.055092 0 0 0 0.99035 1 55923 55923 0.79363 0 1 30905 3118 19789 19850 34749 34749 -0.0923380492497472 SMDMDEEHHDD 11 Unmodified _SMDMDEEHHDD_ 0 0 0 REV__ENSG00000116754|ENST00000370949|SRSF11 REV__ENSG00000116754|ENST00000370949|SRSF11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 680.7245483398438 2 680.724449 1359.43434 NaN NaN NaN NaN NaN NaN NaN 96.931 1 97.208 96.708 97.708 0.27778 0 0 0 1.0082 1 44533 44533 0 0 1 + 30906 11419 19790 19851 34750 34750 -0.23099544460274046 SMFHNRHLF 9 Unmodified _SMFHNRHLF_ 0 0 0 nc|ENSG00000126457|Q99873-5|PRMT1;nc|ENSG00000126457|Q99873-2|PRMT1;nc|ENSG00000126457|Q99873-3|PRMT1;ENSG00000126457|ENST00000454376|PRMT1;ENST00000525616.1_1_19:50180537-50188241:+|nuORF nc|ENSG00000126457|Q99873-5|PRMT1 nc|ENSG00000126457|Q99873-5|PRMT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 396.8635559082031 3 396.862554 1187.56583 2.4642 0.00097794 -0.32403 -0.00012859 2.1402 0.00084935 396.86246063907316 32.208 0.17186 32.996 32.944 33.116 0.78795 24 18 2 0 0 0 0.20384 2 14550 14550;14598 21.537 19.795 1 435220 30907 2452 19791 19852 34751;34752 34751 -0.020448567289122366 SMGGGGGG 8 Unmodified _SMGGGGGG_ 0 0 0 nc|ENSG00000108840|Q9UQL6-2|HDAC5;ENSG00000108840|ENST00000682912|HDAC5;nc|ENSG00000108840|Q9UQL6-3|HDAC5 nc|ENSG00000108840|Q9UQL6-2|HDAC5 nc|ENSG00000108840|Q9UQL6-2|HDAC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 579.827392578125 1 579.219137 578.21186 3.4055 0.0019725 2.1425 0.001241 5.548 0.0032135 579.220367382018 84.82 0.3741 85.067 84.855 85.23 0.24757 26 18 2 0 0 0 0.7471 1 38966 38966 0 0 1 399510 30908 1655 19792 19853 34753 34753 -0.09411741162011822 SMGGGGGG 8 Unmodified _SMGGGGGG_ 0 0 0 nc|ENSG00000108840|Q9UQL6-2|HDAC5;ENSG00000108840|ENST00000682912|HDAC5;nc|ENSG00000108840|Q9UQL6-3|HDAC5 nc|ENSG00000108840|Q9UQL6-2|HDAC5 nc|ENSG00000108840|Q9UQL6-2|HDAC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 579.2214965820312 1 579.219137 578.21186 3.7724 0.002185 1.0875 0.00062993 4.8599 0.002815 579.2193657115239 82.617 0.55894 83.277 83.04 83.599 0.66019 39 32 2 0 0 0 0.7471 2 38031 38031;38104 0 0 1 649570 30909 1655 19792 19853 34754;34755 34754 -0.09411741162011822 SMGGGGGG 8 Unmodified _SMGGGGGG_ 0 0 0 nc|ENSG00000108840|Q9UQL6-2|HDAC5;ENSG00000108840|ENST00000682912|HDAC5;nc|ENSG00000108840|Q9UQL6-3|HDAC5 nc|ENSG00000108840|Q9UQL6-2|HDAC5 nc|ENSG00000108840|Q9UQL6-2|HDAC5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 579.219137 578.21186 3.7838 0.0021917 1.9798 0.0011467 5.7636 0.0033384 579.2202163350037 84.421 0.46926 85.087 84.813 85.282 0.66566 0.0095878 -2.3708E-05 NaN 0 38 27 2 NaN NaN NaN NaN 0 NaN NaN 0 417910 30910 1655 19792 19853 -0.09411741162011822 SMKKVRRYKQG 11 Unmodified _SMKKVRRYKQG_ 0 0 0 REV__nc|ENSG00000109111|Q7KZ85-3|SUPT6H REV__nc|ENSG00000109111|Q7KZ85-3|SUPT6H MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 690.675048828125 2 690.898263 1379.78197 NaN NaN NaN NaN NaN NaN NaN 108.62 1 109.22 108.72 109.72 0.60264 0 0 0 1.0072 1 50113 50113 1.3295 0.13619 1 + 30911 11164 19793 19854 34756 34756 0.10727279384946087 SMLCCCCM 8 Unmodified _SMLCCCCM_ 0 0 0 ENST00000570019.1_1_15:34666200-34666557:-|nuORF ENST00000570019.1_1_15:34666200-34666557:-|nuORF ENST00000570019.1_1_15:34666200-34666557:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 447.13214111328125 2 447.129459 892.244364 3.6879 0.001649 -0.073447 -3.284E-05 3.6145 0.0016161 447.13060541413836 102.56 0.12305 102.88 102.81 102.93 0.31737 9 3 4 0 0 0 0.7471 1 47454 47454 0 0 1 1457200 30912 9082 19794 19855 34757 34757 -0.20606820733212317 SMLCCCCM 8 Unmodified _SMLCCCCM_ 0 0 0 ENST00000570019.1_1_15:34666200-34666557:-|nuORF ENST00000570019.1_1_15:34666200-34666557:-|nuORF ENST00000570019.1_1_15:34666200-34666557:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 447.129459 892.244364 2.4941 0.0011152 -1.2172 -0.00054426 1.2769 0.00057094 447.13010217195864 102.65 0.096016 102.65 102.57 102.66 0 -0.057819 -0.0014844 NaN 0 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 715640 30913 9082 19794 19855 -0.20606820733212317 SMLCCCCM 8 Unmodified _SMLCCCCM_ 0 0 0 ENST00000570019.1_1_15:34666200-34666557:-|nuORF ENST00000570019.1_1_15:34666200-34666557:-|nuORF ENST00000570019.1_1_15:34666200-34666557:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 447.129459 892.244364 3.3187 0.0014839 0.99162 0.00044338 4.3103 0.0019273 447.1301872883487 101.99 0.072815 102.59 102.56 102.63 0.59759 -0.11681 0.00049088 NaN 0 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 581440 30914 9082 19794 19855 -0.20606820733212317 SMPLSTCRD 9 Unmodified _SMPLSTCRD_ 0 0 0 REV__ENST00000526890.5_1_11:3039499-3039766:-|nuORF REV__ENST00000526890.5_1_11:3039499-3039766:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.2265625 2 505.225702 1008.43685 2.9079 0.0014691 -1.2135 -0.0006131 1.6944 0.00085603 505.22474340660017 76.24 0.32925 76.904 76.751 77.081 0.66387 51 20 3 0 0 0 0.68285 1 35147 35147 9.3831 0.63772 1 1068700 + 30915 17098 19795 19856 34758 34758 -0.06702999473998261 SMPPAESVPL 10 Unmodified _SMPPAESVPL_ 0 0 0 ENSG00000129749|ENST00000250699|CHRNA10 ENSG00000129749|ENST00000250699|CHRNA10 ENSG00000129749|ENST00000250699|CHRNA10 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.323486328125 2 514.260068 1026.50558 3.4269 0.0017623 -0.037501 -1.9285E-05 3.3893 0.001743 514.2598997355842 29.795 0.3931 30.413 30.07 30.463 0.61789 39 23 2 0 0 0 0.12676 1 13629 13629 13.906 3.0821 1 287160 30916 2563 19796 19857 34759 34759 -0.006610119026390748 SMTRYFYLF 9 Unmodified _SMTRYFYLF_ 0 0 0 nc|ENSG00000204403|Q6UXS9-7|CASP12;nc|ENSG00000204403|Q6UXS9-5|CASP12;nc|ENSG00000204403|Q6UXS9|CASP12;ENST00000531091.5_1_11:104774182-104777189:-|nuORF;ENST00000529565.1_1_11:104815482-104817977:-|nuORF;nc|ENSG00000204403|Q6UXS9-3|CASP12;nc|ENSG00000196954|P49662-2|CASP4;ENSG00000196954|ENST00000444739|CASP4 nc|ENSG00000204403|Q6UXS9-7|CASP12 nc|ENSG00000204403|Q6UXS9-7|CASP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 614.299560546875 2 614.296985 1226.57942 3.4431 0.0021151 0.056322 3.4599E-05 3.4995 0.0021497 614.2972676147812 82.148 0.27884 82.395 82.241 82.52 0.24722 51 22 3 0 0 0 0.021401 2 37803 37803;37847 66.457 43.308 1 1589100 30917 9813 19797 19858 34760;34761 34760 -0.024810437403175456 SMTRYFYLF 9 Unmodified _SMTRYFYLF_ 0 0 0 nc|ENSG00000204403|Q6UXS9-7|CASP12;nc|ENSG00000204403|Q6UXS9-5|CASP12;nc|ENSG00000204403|Q6UXS9|CASP12;ENST00000531091.5_1_11:104774182-104777189:-|nuORF;ENST00000529565.1_1_11:104815482-104817977:-|nuORF;nc|ENSG00000204403|Q6UXS9-3|CASP12;nc|ENSG00000196954|P49662-2|CASP4;ENSG00000196954|ENST00000444739|CASP4 nc|ENSG00000204403|Q6UXS9-7|CASP12 nc|ENSG00000204403|Q6UXS9-7|CASP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 614.2985229492188 2 614.296985 1226.57942 3.654 0.0022447 -0.28149 -0.00017292 3.3725 0.0020717 614.296925560859 81.413 0.27879 82.073 81.951 82.23 0.65997 69 26 3 0 0 0 0.063112 1 37549 37549 41.956 19.219 1 1409000 30918 9813 19797 19858 34762 34762 -0.024810437403175456 SNADQPPVDN 10 Unmodified _SNADQPPVDN_ 0 0 0 ENSG00000163424|ENST00000295622|TEX55 ENSG00000163424|ENST00000295622|TEX55 ENSG00000163424|ENST00000295622|TEX55 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.7352905273438 2 528.73326 1055.45197 3.2203 0.0017027 1.2328 0.00065181 4.4531 0.0023545 528.7337394487753 83.991 0.30597 84.239 84.062 84.368 0.24722 28 17 2 0 0 0 0.68517 1 38671 38671 13.906 2.2658 1 1018400 30919 4205 19798 19859 34763 34763 -0.07354093080789426 SNCAEPCSC 9 Unmodified _SNCAEPCSC_ 0 0 0 ENST00000591983.5_1_17:76130956-76133538:+|nuORF ENST00000591983.5_1_17:76130956-76133538:+|nuORF ENST00000591983.5_1_17:76130956-76133538:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.69622802734375 3 305.099801 912.277573 NaN NaN NaN NaN NaN NaN NaN 66.069 1 66.773 66.273 67.273 0.7047 0 0 0 0.91342 1 31292 31292 0.26902 0 1 30920 9241 19799 19860 34764 34764 -0.18207456093648489 SNCAEPCSC 9 Unmodified _SNCAEPCSC_ 0 0 0 ENST00000591983.5_1_17:76130956-76133538:+|nuORF ENST00000591983.5_1_17:76130956-76133538:+|nuORF ENST00000591983.5_1_17:76130956-76133538:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.10107421875 3 305.099801 912.277573 NaN NaN NaN NaN NaN NaN NaN 66.311 1 66.559 66.059 67.059 0.24848 0 0 0 0.91342 1 30380 30380 0.26902 0 1 30921 9241 19799 19860 34765 34765 -0.18207456093648489 SNEEVEDESEP 11 Unmodified _SNEEVEDESEP_ 0 0 0 REV__ENST00000253968.10_1_9:96714524-96715047:-|nuORF REV__ENST00000253968.10_1_9:96714524-96715047:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.8349914550781 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 1.446 1 1.446 0.94596 1.946 0 0 0 0 1.0082 1 661 661 0 0 1 + 30922 14921 19800 19861 34766 34766 -0.14210493770815447 SNEEVEDESEP 11 Unmodified _SNEEVEDESEP_ 0 0 0 REV__ENST00000253968.10_1_9:96714524-96715047:-|nuORF REV__ENST00000253968.10_1_9:96714524-96715047:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.83502197265625 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 1.5711 1 1.5711 1.0711 2.0711 0 0 0 0 1.0082 1 718 718 0 0 1 + 30923 14921 19800 19861 34767 34767 -0.14210493770815447 SNEEVEDESEP 11 Unmodified _SNEEVEDESEP_ 0 0 0 REV__ENST00000253968.10_1_9:96714524-96715047:-|nuORF REV__ENST00000253968.10_1_9:96714524-96715047:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.83416748046875 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 7.658 1 7.658 7.158 8.158 0 0 0 0 1.0082 1 3455 3455 0 0 1 + 30924 14921 19800 19861 34768 34768 -0.14210493770815447 SNEEVEDESEP 11 Unmodified _SNEEVEDESEP_ 0 0 0 REV__ENST00000253968.10_1_9:96714524-96715047:-|nuORF REV__ENST00000253968.10_1_9:96714524-96715047:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.834716796875 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 7.8393 1 7.8393 7.3393 8.3393 0 0 0 0 1.0082 1 3537 3537 0 0 1 + 30925 14921 19800 19861 34769 34769 -0.14210493770815447 SNEEVEDESEP 11 Unmodified _SNEEVEDESEP_ 0 0 0 REV__ENST00000253968.10_1_9:96714524-96715047:-|nuORF REV__ENST00000253968.10_1_9:96714524-96715047:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.8344421386719 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 8.6155 1 8.6155 8.1155 9.1155 0 0 0 0 1.0082 1 3886 3886 0 0 1 + 30926 14921 19800 19861 34770 34770 -0.14210493770815447 SNEEVEDESEP 11 Unmodified _SNEEVEDESEP_ 0 0 0 REV__ENST00000253968.10_1_9:96714524-96715047:-|nuORF REV__ENST00000253968.10_1_9:96714524-96715047:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.8345642089844 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 6.4557 1 6.7955 6.2955 7.2955 0.33974 0 0 0 1.0082 1 2916 2916 0 0 1 + 30927 14921 19800 19861 34771 34771 -0.14210493770815447 SNEEVEDESEP 11 Unmodified _SNEEVEDESEP_ 0 0 0 REV__ENST00000253968.10_1_9:96714524-96715047:-|nuORF REV__ENST00000253968.10_1_9:96714524-96715047:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.8347473144531 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 6.5499 1 6.8897 6.3897 7.3897 0.33974 0 0 0 1.0082 1 2958 2958 0 0 1 + 30928 14921 19800 19861 34772 34772 -0.14210493770815447 SNFLLSVLV 9 Unmodified _SNFLLSVLV_ 0 0 0 nc|ENSG00000143147|Q8N6U8-2|GPR161;ENST00000493800.1_1_1:168059784-168074118:-|nuORF;ENSG00000143147|ENST00000682931|GPR161;nc|ENSG00000143147|Q8N6U8-6|GPR161 nc|ENSG00000143147|Q8N6U8-2|GPR161 nc|ENSG00000143147|Q8N6U8-2|GPR161 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.19989013671875 3 331.198937 990.574983 NaN NaN NaN NaN NaN NaN NaN 28.35 1 29.137 28.637 29.637 0.78627 0 0 0 0.89683 1 12765 12765 2.4985 0 1 30929 3345 19801 19862 34773 34773 0.07931815108429419 SNFLLSVLV 9 Unmodified _SNFLLSVLV_ 0 0 0 nc|ENSG00000143147|Q8N6U8-2|GPR161;ENST00000493800.1_1_1:168059784-168074118:-|nuORF;ENSG00000143147|ENST00000682931|GPR161;nc|ENSG00000143147|Q8N6U8-6|GPR161 nc|ENSG00000143147|Q8N6U8-2|GPR161 nc|ENSG00000143147|Q8N6U8-2|GPR161 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.19921875 3 331.198937 990.574983 2.2456 0.00074375 1.8089 0.00059912 4.0546 0.0013429 331.1988000847955 28.901 0.71381 29.519 29.141 29.854 0.61789 75 50 3 0 0 0 0.98132 2 13232 13232;13312 2.4985 0 1 941010 30930 3345 19801 19862 34774;34775 34774 0.07931815108429419 SNLILTAK 8 Unmodified _SNLILTAK_ 0 0 0 REV__ENSG00000137310|ENST00000376257|TCF19 REV__ENSG00000137310|ENST00000376257|TCF19 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.2670593261719 2 430.26601 858.517468 NaN NaN NaN NaN NaN NaN NaN 51.535 1 51.797 51.297 52.297 0.26227 0 0 0 0.9851 1 23552 23552 6.7232 0 1 + 30931 12106 19802 19863 34776 34776 0.08254972902830104 SNNGSATNN 9 Unmodified _SNNGSATNN_ 0 0 0 REV__ENSG00000198231|ENST00000389924|DDX42 REV__ENSG00000198231|ENST00000389924|DDX42 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 878.3632202148438 1 878.359864 877.352587 4.7499 0.0041721 -0.94241 -0.00082777 3.8075 0.0033443 878.3589370942251 103.06 0.088913 103.38 103.34 103.42 0.31863 4 2 2 0 0 0 1.2459 1 47677 47677 0 0 1 1089700 + 30932 14330 19803 19864 34777 34777 -0.09099490974915625 SNNGSATNN 9 Unmodified _SNNGSATNN_ 0 0 0 REV__ENSG00000198231|ENST00000389924|DDX42 REV__ENSG00000198231|ENST00000389924|DDX42 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 878.359864 877.352587 4.7499 0.0041721 -0.94241 -0.00082777 3.8075 0.0033443 878.3589370942251 103.06 0.088913 103.38 103.34 103.42 0.31863 -0.11159 4.3764E-05 NaN 0 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 1089700 + 30933 14330 19803 19864 -0.09099490974915625 SNNGSATNN 9 Unmodified _SNNGSATNN_ 0 0 0 REV__ENSG00000198231|ENST00000389924|DDX42 REV__ENSG00000198231|ENST00000389924|DDX42 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 878.359864 877.352587 4.1566 0.003651 -2.0719 -0.0018199 2.0847 0.0018311 878.356943175244 103 0.1231 103.6 103.56 103.69 0.59821 0.11159 -0.00094831 NaN 0 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 250530 + 30934 14330 19803 19864 -0.09099490974915625 SNRRRRQTWRR 11 Unmodified _SNRRRRQTWRR_ 0 0 0 REV__ENST00000233468.4_1_2:24290678-24291201:-|nuORF REV__ENST00000233468.4_1_2:24290678-24291201:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 786.446044921875 2 786.446154 1570.87776 NaN NaN NaN NaN NaN NaN NaN 93.038 1 93.038 92.538 93.538 0 0 0 0 1.0082 1 49584 49584 0 0 1 + 30935 14862 19804 19865 34778 34778 0.1151518834003582 SNSSAPIRSMS 11 Unmodified _SNSSAPIRSMS_ 0 0 0 REV__ENSG00000110066|ENST00000304363|KMT5B REV__ENSG00000110066|ENST00000304363|KMT5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.7734985351562 2 568.771862 1135.52917 3.6044 0.0020501 0.6088 0.00034627 4.2132 0.0023963 568.7720203522613 49.856 0.35806 50.513 50.34 50.698 0.65735 27 14 3 0 0 0 0.71079 1 22790 22790 10.8 1.4164 1 843940 + 30936 11193 19805 19866 34779 34779 -0.03317198136119259 SPAADNIEM 9 Unmodified _SPAADNIEM_ 0 0 0 ENST00000512981.5_1_4:48833247-48854006:+|nuORF;nc|ENSG00000109180|Q9NX40-3|OCIAD1;nc|ENSG00000109180|Q9NX40-2|OCIAD1;nc|ENSG00000109180|Q9NX40-4|OCIAD1;ENSG00000109180|ENST00000264312|OCIAD1 ENST00000512981.5_1_4:48833247-48854006:+|nuORF ENST00000512981.5_1_4:48833247-48854006:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.2119445800781 2 474.210575 946.406597 NaN NaN NaN NaN NaN NaN NaN 39.739 1 40.38 39.88 40.88 0.64136 0 0 0 0.65681 1 18164 18164 13.906 3.8321 1 30937 1671 19806 19867 34780 34780 -0.06875034867550767 SPAEGRVTE 9 Unmodified _SPAEGRVTE_ 0 0 0 REV__nc|ENSG00000136002|Q9NR80-4|ARHGEF4 REV__nc|ENSG00000136002|Q9NR80-4|ARHGEF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.2369079589844 2 473.235439 944.456324 2.9379 0.0013903 0.65481 0.00030988 3.5927 0.0017002 473.2356649963164 17.589 0.22704 17.589 17.475 17.702 0 21 14 2 0 0 0 0.17594 1 7812 7812 24.991 0 1 171610 + 30938 12054 19807 19868 34781 34781 -0.018125838672403916 SPAEGRVTE 9 Unmodified _SPAEGRVTE_ 0 0 0 REV__nc|ENSG00000136002|Q9NR80-4|ARHGEF4 REV__nc|ENSG00000136002|Q9NR80-4|ARHGEF4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 473.235439 944.456324 2.9379 0.0013903 0.65481 0.00030988 3.5927 0.0017002 473.2356649963164 17.589 0.22704 17.589 17.475 17.702 0 0 0 NaN 24.991 21 14 2 NaN NaN NaN NaN 0 NaN NaN 0 171610 + 30939 12054 19807 19868 -0.018125838672403916 SPAGEQEP 8 Unmodified _SPAGEQEP_ 0 0 0 ENST00000555700.1_1_14:73729065-73729536:+|nuORF;ENST00000554314.1_1_14:73727947-73731040:+|nuORF;nc|ENSG00000100767|O95428-4|PAPLN;nc|ENSG00000100767|O95428-6|PAPLN;nc|ENSG00000100767|O95428-5|PAPLN;ENSG00000100767|ENST00000644200|PAPLN ENST00000555700.1_1_14:73729065-73729536:+|nuORF ENST00000555700.1_1_14:73729065-73729536:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.68359375 2 407.682507 813.350462 2.7696 0.0011291 0.61145 0.00024928 3.3811 0.0013784 407.6826408982621 16.898 0.47065 17.203 17.014 17.484 0.30438 47 38 2 0 0 0 0.74071 1 7742 7742 2.5775 0 1 77973 30940 1240 19808 19869 34782 34782 -0.06367919712715775 SPAPKLAW 8 Unmodified _SPAPKLAW_ 0 0 0 ENST00000480479.5_1_1:1324040-1326370:-|nuORF;ENST00000505849.5_1_1:1324040-1326969:-|nuORF ENST00000480479.5_1_1:1324040-1326370:-|nuORF ENST00000480479.5_1_1:1324040-1326370:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.2489318847656 2 435.247621 868.480688 3.025 0.0013166 -0.10368 -4.5127E-05 2.9213 0.0012715 435.2474877556256 54.93 0.42926 55.596 55.46 55.889 0.6665 34 17 2 0 0 0 0.7441 1 25127 25127 2.3027 1.5091 1 700590 30941 8278 19809 19870 34783 34783 0.041187210769294325 SPASDTYIVF 10 Unmodified _SPASDTYIVF_ 0 0 0 ENSG00000196531|ENST00000454682|NACA;nc|ENSG00000196531|Q13765|NACA;nc|ENSG00000196531|E9PAV3-2|NACA ENSG00000196531|ENST00000454682|NACA ENSG00000196531|ENST00000454682|NACA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.2743530273438 2 550.268947 1098.52334 NaN NaN NaN NaN NaN NaN NaN 73.578 1 74.276 73.776 74.776 0.69881 0 0 0 0.33005 1 35494 35494 36.127 15.673 1 30942 5752 19810 19871 34784 34784 -0.0219797337615546 SPCAAELTAL 10 Carbamidomethyl (C) _SPC(Carbamidomethyl (C))AAELTAL_ SPC(1)AAELTAL SPC(42)AAELTAL 0 1 0 nc|ENSG00000161813|Q71RC2-2|LARP4;nc|ENSG00000161813|Q71RC2-6|LARP4;nc|ENSG00000161813|Q71RC2-5|LARP4;nc|ENSG00000161813|Q71RC2-3|LARP4;ENSG00000161813|ENST00000398473|LARP4;nc|ENSG00000161813|Q71RC2-4|LARP4 nc|ENSG00000161813|Q71RC2-2|LARP4 nc|ENSG00000161813|Q71RC2-2|LARP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.7572631835938 2 516.755149 1031.49575 3.0298 0.0015657 -0.44252 -0.00022868 2.5873 0.001337 516.7551069749865 59.127 0.26484 59.886 59.789 60.053 0.75894 22 18 2 0 0 0 0.1787 1 27193 27193 41.84 14.956 1 532310 30943 4104 19811 19872 34785 34785 73 -0.018741999080702954 SPCAAELTAL 10 Carbamidomethyl (C) _SPC(Carbamidomethyl (C))AAELTAL_ 0 1 0 nc|ENSG00000161813|Q71RC2-2|LARP4;nc|ENSG00000161813|Q71RC2-6|LARP4;nc|ENSG00000161813|Q71RC2-5|LARP4;nc|ENSG00000161813|Q71RC2-3|LARP4;ENSG00000161813|ENST00000398473|LARP4;nc|ENSG00000161813|Q71RC2-4|LARP4 nc|ENSG00000161813|Q71RC2-2|LARP4 nc|ENSG00000161813|Q71RC2-2|LARP4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 516.755149 1031.49575 3.4791 0.0017979 0.15585 8.0536E-05 3.635 0.0018784 516.7550398545078 59.983 0.26917 60.243 60.085 60.354 0.2593 0.16679 0.00038824 NaN 41.84 19 11 2 NaN NaN NaN NaN 0 NaN NaN 0 703990 30944 4104 19811 19872 73 -0.018741999080702954 SPCAAELTAL 10 Carbamidomethyl (C) _SPC(Carbamidomethyl (C))AAELTAL_ 0 1 0 nc|ENSG00000161813|Q71RC2-2|LARP4;nc|ENSG00000161813|Q71RC2-6|LARP4;nc|ENSG00000161813|Q71RC2-5|LARP4;nc|ENSG00000161813|Q71RC2-3|LARP4;ENSG00000161813|ENST00000398473|LARP4;nc|ENSG00000161813|Q71RC2-4|LARP4 nc|ENSG00000161813|Q71RC2-2|LARP4 nc|ENSG00000161813|Q71RC2-2|LARP4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 516.755149 1031.49575 3.4326 0.0017738 -0.42333 -0.00021876 3.0093 0.0015551 516.7548278778713 59.434 0.31355 60.099 59.937 60.251 0.66503 0.022934 -0.00021035 NaN 41.84 18 13 2 NaN NaN NaN NaN 0 NaN NaN 0 828750 30945 4104 19811 19872 73 -0.018741999080702954 SPDAKIFCL 9 Carbamidomethyl (C) _SPDAKIFC(Carbamidomethyl (C))L_ SPDAKIFC(1)L SPDAKIFC(74)L 0 1 0 ENST00000474757.1_1_X:55757854-55777647:+|nuORF;ENST00000498762.1_1_X:55748624-55758085:+|nuORF;ENSG00000155876|ENST00000380527|RRAGA;ENSG00000083750|ENST00000374941|RRAGB;nc|ENSG00000083750|Q5VZM2|RRAGB ENST00000474757.1_1_X:55757854-55777647:+|nuORF ENST00000474757.1_1_X:55757854-55777647:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.77001953125 2 525.76806 1049.52157 3.3444 0.0017584 -0.12929 -6.7975E-05 3.2151 0.0016904 525.7679729743232 61.37 0.22802 61.622 61.518 61.746 0.25245 17 10 2 0 0 0 0.015631 1 28113 28113 74.2 45.118 1 476320 30946 942 19812 19873 34786 34786 19 -0.001213056657661582 SPDAKIFCL 9 Carbamidomethyl (C) _SPDAKIFC(Carbamidomethyl (C))L_ SPDAKIFC(1)L SPDAKIFC(62)L 0 1 0 ENST00000474757.1_1_X:55757854-55777647:+|nuORF;ENST00000498762.1_1_X:55748624-55758085:+|nuORF;ENSG00000155876|ENST00000380527|RRAGA;ENSG00000083750|ENST00000374941|RRAGB;nc|ENSG00000083750|Q5VZM2|RRAGB ENST00000474757.1_1_X:55757854-55777647:+|nuORF ENST00000474757.1_1_X:55757854-55777647:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.7694702148438 2 525.76806 1049.52157 NaN NaN NaN NaN NaN NaN NaN 60.77 1 61.433 60.933 61.933 0.66261 0 0 0 0.026708 1 27825 27825 61.602 29.296 1 30947 942 19812 19873 34787 34787 19 -0.001213056657661582 SPDDDYHAL 9 Unmodified _SPDDDYHAL_ 0 0 0 nc|ENSG00000038532|Q2KHT3-2|CLEC16A;ENSG00000038532|ENST00000409790|CLEC16A;ENST00000476025.5_1_16:11118684-11133620:+|nuORF;ENST00000487189.5_1_16:11118684-11138007:+|nuORF nc|ENSG00000038532|Q2KHT3-2|CLEC16A nc|ENSG00000038532|Q2KHT3-2|CLEC16A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.7194213867188 2 516.717079 1031.4196 NaN NaN NaN NaN NaN NaN NaN 30.939 1 31.195 30.695 31.695 0.25614 0 0 0 0.3934 1 14080 14080 23.148 11.508 1 30948 522 19813 19874 34788 34788 -0.09484880483819325 SPDDLDFRL 9 Unmodified _SPDDLDFRL_ 0 0 0 nc|ENSG00000139734|Q9NSV4-2|DIAPH3;nc|ENSG00000139734|Q9NSV4-1|DIAPH3;nc|ENSG00000139734|Q9NSV4-7|DIAPH3;nc|ENSG00000139734|Q9NSV4-6|DIAPH3;nc|ENSG00000139734|Q9NSV4-5|DIAPH3;nc|ENSG00000139734|Q9NSV4-4|DIAPH3;ENSG00000139734|ENST00000400324|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.26611328125 2 539.264196 1076.51384 3.1807 0.0017152 0.025096 1.3534E-05 3.2058 0.0017288 539.2642226480908 64.917 0.32506 65.165 64.987 65.312 0.24803 41 16 3 0 0 0 0.0013355 2 29725 29725;29774 117.76 44.793 1 1965200 30949 3164 19814 19875 34789;34790 34789 -0.021357416616638147 SPDDLDFRL 9 Unmodified _SPDDLDFRL_ 0 0 0 nc|ENSG00000139734|Q9NSV4-2|DIAPH3;nc|ENSG00000139734|Q9NSV4-1|DIAPH3;nc|ENSG00000139734|Q9NSV4-7|DIAPH3;nc|ENSG00000139734|Q9NSV4-6|DIAPH3;nc|ENSG00000139734|Q9NSV4-5|DIAPH3;nc|ENSG00000139734|Q9NSV4-4|DIAPH3;ENSG00000139734|ENST00000400324|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.2661743164062 2 539.264196 1076.51384 3.4074 0.0018375 0.55666 0.00030019 3.9641 0.0021377 539.264371976615 64.313 0.27328 64.97 64.851 65.124 0.65672 38 18 3 0 0 0 2.9434E-05 2 29510 29458;29510 140.63 47.98 1 2350000 30950 3164 19814 19875 34791;34792 34792 -0.021357416616638147 SPDDLDFRL 9 Unmodified _SPDDLDFRL_ 0 0 0 nc|ENSG00000139734|Q9NSV4-2|DIAPH3;nc|ENSG00000139734|Q9NSV4-1|DIAPH3;nc|ENSG00000139734|Q9NSV4-7|DIAPH3;nc|ENSG00000139734|Q9NSV4-6|DIAPH3;nc|ENSG00000139734|Q9NSV4-5|DIAPH3;nc|ENSG00000139734|Q9NSV4-4|DIAPH3;ENSG00000139734|ENST00000400324|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 nc|ENSG00000139734|Q9NSV4-2|DIAPH3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 539.264196 1076.51384 2.6847 0.0014478 -0.20704 -0.00011165 2.4777 0.0013361 539.2642078676954 65.083 0.18098 65.083 64.949 65.13 0 0.010327 -0.00053835 NaN 140.63 37 24 2 NaN NaN NaN NaN 0 NaN NaN 0 4868000 30951 3164 19814 19875 -0.021357416616638147 SPDEHEPLL 9 Unmodified _SPDEHEPLL_ 0 0 0 ENSG00000204217|ENST00000374580|BMPR2 ENSG00000204217|ENST00000374580|BMPR2 ENSG00000204217|ENST00000374580|BMPR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.752685546875 2 518.750921 1035.48729 3.2579 0.00169 -0.013995 -7.2598E-06 3.2439 0.0016828 518.7509695805281 39.15 0.4176 39.15 38.962 39.379 0 35 15 3 0 0 0 0.0014044 1 17790 17790 112.59 61.738 1 1384200 30952 5992 19815 19876 34793 34793 -0.029034305530103666 SPDEHEPLL 9 Unmodified _SPDEHEPLL_ 0 0 0 ENSG00000204217|ENST00000374580|BMPR2 ENSG00000204217|ENST00000374580|BMPR2 ENSG00000204217|ENST00000374580|BMPR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.7525634765625 2 518.750921 1035.48729 3.4193 0.0017738 -0.22859 -0.00011858 3.1907 0.0016552 518.7508886146774 38.069 0.36478 38.864 38.722 39.087 0.79552 29 12 3 0 0 0 0.0013631 1 17244 17244 115.69 71.285 1 1476100 30953 5992 19815 19876 34794 34794 -0.029034305530103666 SPDEHEPLL 9 Unmodified _SPDEHEPLL_ 0 0 0 ENSG00000204217|ENST00000374580|BMPR2 ENSG00000204217|ENST00000374580|BMPR2 ENSG00000204217|ENST00000374580|BMPR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 518.753173828125 2 518.750921 1035.48729 3.2779 0.0017004 0.56587 0.00029355 3.8438 0.001994 518.7510068024362 38.917 0.42805 39.181 38.916 39.344 0.26408 33 17 3 0 0 0 0.0012997 2 17692 17692;17752 120.45 76.043 1 1221300 30954 5992 19815 19876 34795;34796 34795 -0.029034305530103666 SPDEHEPLL 9 Unmodified _SPDEHEPLL_ 0 0 0 ENSG00000204217|ENST00000374580|BMPR2 ENSG00000204217|ENST00000374580|BMPR2 ENSG00000204217|ENST00000374580|BMPR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.7527465820312 2 518.750921 1035.48729 3.2946 0.0017091 0.56274 0.00029192 3.8573 0.002001 518.7510939267632 38.403 0.48069 39.037 38.822 39.303 0.63388 46 19 3 0 0 0 0.0023685 1 17559 17559 100.37 55.964 1 866270 30955 5992 19815 19876 34797 34797 -0.029034305530103666 SPDENENEV 9 Unmodified _SPDENENEV_ 0 0 0 ENSG00000117228|ENST00000370473|GBP1;ENST00000459831.1_1_1:89524386-89525013:-|nuORF ENSG00000117228|ENST00000370473|GBP1 ENSG00000117228|ENST00000370473|GBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.7112426757812 2 516.709451 1031.40435 3.22 0.0016638 0.31496 0.00016274 3.5349 0.0018265 516.7095824497281 15.455 0.69986 15.761 15.474 16.174 0.306 122 74 2 0 0 0 0.8705 2 7023 6965;7023 6.2058 2.6093 1 86125 30956 2064 19816 19877 34798;34799 34799 -0.11009792071672564 SPDENENEV 9 Unmodified _SPDENENEV_ 0 0 0 ENSG00000117228|ENST00000370473|GBP1;ENST00000459831.1_1_1:89524386-89525013:-|nuORF ENSG00000117228|ENST00000370473|GBP1 ENSG00000117228|ENST00000370473|GBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.7116088867188 2 516.709451 1031.40435 3.487 0.0018018 0.54601 0.00028213 4.033 0.0020839 516.7097596481233 15.199 0.6049 15.853 15.596 16.201 0.65356 123 72 2 0 0 0 0.29523 3 6833 6833;6873;6912 17.113 13.516 1 151960 30957 2064 19816 19877 34800;34801;34802 34800 -0.11009792071672564 SPDENLVSL 9 Unmodified _SPDENLVSL_ 0 0 0 ENST00000569761.1_1_15:75195123-75197568:-|nuORF;ENST00000566894.1_1_15:75197493-75197640:-|nuORF;ENST00000564857.1_1_15:75197493-75199009:-|nuORF;nc|ENSG00000178761|Q5XKK7-3|FAM219B;ENSG00000178761|ENST00000357635|FAM219B ENST00000569761.1_1_15:75195123-75197568:-|nuORF ENST00000569761.1_1_15:75195123-75197568:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.4973449707031 2 487.245472 972.476391 2.9339 0.0014295 -0.97701 -0.00047604 1.9568 0.00095347 487.245065825898 60.936 0.22965 60.936 60.845 61.075 0 36 26 2 0 0 0 0.00018095 1 28372 28372 47.749 11.622 1 1469200 30958 5179 19817 19878 34803 34803 -0.010948329272878254 SPDENLVSL 9 Unmodified _SPDENLVSL_ 0 0 0 ENST00000569761.1_1_15:75195123-75197568:-|nuORF;ENST00000566894.1_1_15:75197493-75197640:-|nuORF;ENST00000564857.1_1_15:75197493-75199009:-|nuORF;nc|ENSG00000178761|Q5XKK7-3|FAM219B;ENSG00000178761|ENST00000357635|FAM219B ENST00000569761.1_1_15:75195123-75197568:-|nuORF ENST00000569761.1_1_15:75195123-75197568:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.24713134765625 2 487.245472 972.476391 3.142 0.0015309 0.020577 1.0026E-05 3.1626 0.001541 487.24546461883773 60.767 0.30928 61.023 60.869 61.179 0.25578 34 16 3 0 0 0 0.0028306 3 27834 27782;27834;27889 96.285 11.013 1 1116700 30959 5179 19817 19878 34804;34805;34806 34805 -0.010948329272878254 SPDENLVSL 9 Unmodified _SPDENLVSL_ 0 0 0 ENST00000569761.1_1_15:75195123-75197568:-|nuORF;ENST00000566894.1_1_15:75197493-75197640:-|nuORF;ENST00000564857.1_1_15:75197493-75199009:-|nuORF;nc|ENSG00000178761|Q5XKK7-3|FAM219B;ENSG00000178761|ENST00000357635|FAM219B ENST00000569761.1_1_15:75195123-75197568:-|nuORF ENST00000569761.1_1_15:75195123-75197568:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.2475280761719 2 487.245472 972.476391 3.2204 0.0015691 0.18681 9.1022E-05 3.4072 0.0016602 487.2455445223159 60.136 0.22012 60.801 60.781 61.001 0.66503 22 12 2 0 0 0 0.0016284 1 27552 27552 108 36.863 1 1263900 30960 5179 19817 19878 34807 34807 -0.010948329272878254 SPDEVAKEL 9 Unmodified _SPDEVAKEL_ 0 0 0 ENSG00000130147|ENST00000392011|SH3BP4;nc|ENSG00000130147|Q9P0V3-2|SH3BP4;SH3BP4|p.Q166Dfs*17|1|0.32|ENSG00000130147|chr2:235041265-235041266|CA/-|frameshift_variant ENSG00000130147|ENST00000392011|SH3BP4 ENSG00000130147|ENST00000392011|SH3BP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.2552185058594 2 494.253297 986.492041 2.7471 0.0013577 1.145 0.00056591 3.892 0.0019237 494.25384253928263 33.476 0.31206 34.264 34.018 34.33 0.78795 24 18 2 0 0 0 0.04013 1 15143 15143 51.415 9.4597 1 328770 30961 2574 19818 19879 34808 34808 -0.0017454641023277873 SPDEVAKEL 9 Unmodified _SPDEVAKEL_ 0 0 0 ENSG00000130147|ENST00000392011|SH3BP4;nc|ENSG00000130147|Q9P0V3-2|SH3BP4;SH3BP4|p.Q166Dfs*17|1|0.32|ENSG00000130147|chr2:235041265-235041266|CA/-|frameshift_variant ENSG00000130147|ENST00000392011|SH3BP4 ENSG00000130147|ENST00000392011|SH3BP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.2551574707031 2 494.253297 986.492041 NaN NaN NaN NaN NaN NaN NaN 33.802 1 34.422 33.922 34.922 0.62031 0 0 0 0.063482 1 15488 15488 49.527 9.288 1 30962 2574 19818 19879 34809 34809 -0.0017454641023277873 SPDEVAKEL 9 Unmodified _SPDEVAKEL_ 0 0 0 ENSG00000130147|ENST00000392011|SH3BP4;nc|ENSG00000130147|Q9P0V3-2|SH3BP4;SH3BP4|p.Q166Dfs*17|1|0.32|ENSG00000130147|chr2:235041265-235041266|CA/-|frameshift_variant ENSG00000130147|ENST00000392011|SH3BP4 ENSG00000130147|ENST00000392011|SH3BP4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 494.253297 986.492041 2.7458 0.0013571 0.96119 0.00047507 3.707 0.0018322 494.2535395827204 34.274 0.25324 34.274 34.211 34.464 0 0.0050846 -0.00013625 NaN 51.415 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 508890 30963 2574 19818 19879 -0.0017454641023277873 SPDFDNQTL 9 Unmodified _SPDFDNQTL_ 0 0 0 nc|ENSG00000187778|Q96EZ8-3|MCRS1;ENSG00000187778|ENST00000343810|MCRS1;nc|ENSG00000187778|Q96EZ8-2|MCRS1;nc|ENSG00000187778|Q96EZ8-4|MCRS1 nc|ENSG00000187778|Q96EZ8-3|MCRS1 nc|ENSG00000187778|Q96EZ8-3|MCRS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.7332153320312 2 518.732729 1035.4509 NaN NaN NaN NaN NaN NaN NaN 46.751 1 47.581 47.081 48.081 0.82915 0 0 0 0.023099 1 21300 21300 68.081 28.123 1 30964 5636 19819 19880 34810 34810 -0.06540307449699867 SPDGSDPKL 9 Unmodified _SPDGSDPKL_ 0 0 0 nc|ENSG00000114742|Q8TAF3-5|WDR48;nc|ENSG00000114742|Q8TAF3-4|WDR48;nc|ENSG00000114742|Q8TAF3-3|WDR48;ENSG00000114742|ENST00000302313|WDR48 nc|ENSG00000114742|Q8TAF3-5|WDR48 nc|ENSG00000114742|Q8TAF3-5|WDR48 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 458.22607421875 2 458.224539 914.434526 2.8772 0.0013184 -1.5568 -0.00071338 1.3203 0.00060501 458.223692842146 19.918 0.49594 19.918 19.729 20.225 0 106 44 3 0 0 0 0.00055091 3 8936 8893;8936;8979 131.27 49.377 1 1756600 30965 1920 19820 19881 34811;34812;34813 34812 -0.026113886158100286 SPDGSDPKL 9 Unmodified _SPDGSDPKL_ 0 0 0 nc|ENSG00000114742|Q8TAF3-5|WDR48;nc|ENSG00000114742|Q8TAF3-4|WDR48;nc|ENSG00000114742|Q8TAF3-3|WDR48;ENSG00000114742|ENST00000302313|WDR48 nc|ENSG00000114742|Q8TAF3-5|WDR48 nc|ENSG00000114742|Q8TAF3-5|WDR48 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 458.2261047363281 2 458.224539 914.434526 2.5916 0.0011875 -2.8391 -0.0013009 -0.24749 -0.00011341 458.2233663401319 19.422 0.47728 19.72 19.574 20.052 0.29753 93 41 3 0 0 0 0.00143 2 8902 8857;8902 110.67 44.218 1 2816900 30966 1920 19820 19881 34814;34815 34815 -0.026113886158100286 SPDHPVVL 8 Unmodified _SPDHPVVL_ 0 0 0 nc|ENSG00000172530|Q8N9N5-6|BANP;nc|ENSG00000172530|Q8N9N5-2|BANP;nc|ENSG00000172530|Q8N9N5-4|BANP;nc|ENSG00000172530|Q8N9N5-7|BANP;nc|ENSG00000172530|Q8N9N5|BANP;ENSG00000172530|ENST00000682872|BANP nc|ENSG00000172530|Q8N9N5-6|BANP nc|ENSG00000172530|Q8N9N5-6|BANP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 432.23638916015625 2 432.23471 862.454868 3.0074 0.0012999 0.17008 7.3515E-05 3.1775 0.0013734 432.2347442713382 34.445 0.304 35.068 34.919 35.223 0.62294 21 10 3 0 0 0 0.26384 1 15802 15802 38.151 3.9638 1 510880 30967 4876 19821 19882 34816 34816 0.018138268346547193 SPDHPVVL 8 Unmodified _SPDHPVVL_ 0 0 0 nc|ENSG00000172530|Q8N9N5-6|BANP;nc|ENSG00000172530|Q8N9N5-2|BANP;nc|ENSG00000172530|Q8N9N5-4|BANP;nc|ENSG00000172530|Q8N9N5-7|BANP;nc|ENSG00000172530|Q8N9N5|BANP;ENSG00000172530|ENST00000682872|BANP nc|ENSG00000172530|Q8N9N5-6|BANP nc|ENSG00000172530|Q8N9N5-6|BANP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 432.23471 862.454868 2.5736 0.0011124 -0.24315 -0.0001051 2.3305 0.0010073 432.2345114921427 34.228 0.27022 35.017 34.911 35.181 0.78921 -0.02531 -0.00016201 NaN 38.151 24 14 2 NaN NaN NaN NaN 0 NaN NaN 0 476930 30968 4876 19821 19882 0.018138268346547193 SPDLDMHAL 9 Unmodified _SPDLDMHAL_ 0 0 0 ENSG00000165338|ENST00000298068|HECTD2 ENSG00000165338|ENST00000298068|HECTD2 ENSG00000165338|ENST00000298068|HECTD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.73614501953125 2 499.734217 997.453881 3.1143 0.0015563 0.22224 0.00011106 3.3365 0.0016674 499.734445605626 51.644 0.55741 51.644 51.4 51.958 0 76 37 3 0 0 0 0.0014044 2 23609 23609;23655 112.59 70.499 1 957880 30969 4393 19822 19883 34817;34818 34817 -0.04494755596556388 SPDLDMHAL 9 Unmodified _SPDLDMHAL_ 0 0 0 ENSG00000165338|ENST00000298068|HECTD2 ENSG00000165338|ENST00000298068|HECTD2 ENSG00000165338|ENST00000298068|HECTD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.73626708984375 2 499.734217 997.453881 2.8087 0.0014036 0.35913 0.00017947 3.1678 0.0015831 499.73441439117727 50.795 0.47335 51.612 51.364 51.838 0.81738 53 26 3 0 0 0 0.0014044 2 23129 23081;23129 112.59 70.499 1 957840 30970 4393 19822 19883 34819;34820 34820 -0.04494755596556388 SPDLDMHAL 9 Unmodified _SPDLDMHAL_ 0 0 0 ENSG00000165338|ENST00000298068|HECTD2 ENSG00000165338|ENST00000298068|HECTD2 ENSG00000165338|ENST00000298068|HECTD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.73602294921875 2 499.734217 997.453881 3.0635 0.0015309 0.28205 0.00014095 3.3455 0.0016719 499.7345088192543 50.863 0.52666 51.523 51.315 51.842 0.65956 39 29 2 0 0 0 0.041436 1 23333 23333 50.855 29.108 1 802150 30971 4393 19822 19883 34821 34821 -0.04494755596556388 SPDLGAVEL 9 Unmodified _SPDLGAVEL_ 0 0 0 nc|ENSG00000123143|Q16512-3|PKN1;ENST00000585839.5_1_19:14544333-14578454:+|nuORF;ENSG00000123143|ENST00000242783|PKN1;nc|ENSG00000123143|Q16512-2|PKN1 nc|ENSG00000123143|Q16512-3|PKN1 nc|ENSG00000123143|Q16512-3|PKN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 900.46875 1 900.467289 899.460012 4.0541 0.0036506 0.50648 0.00045607 4.5606 0.0041066 900.4678643508856 65.666 0.40889 65.914 65.718 66.127 0.24847 41 23 2 0 0 0 0.0044949 3 30034 30034;30081;30131 92.822 18.399 1 801990 30972 2295 19823 19884 34822;34823;34824 34822 0.006260859066173907 SPDLGAVEL 9 Unmodified _SPDLGAVEL_ 0 0 0 nc|ENSG00000123143|Q16512-3|PKN1;ENST00000585839.5_1_19:14544333-14578454:+|nuORF;ENSG00000123143|ENST00000242783|PKN1;nc|ENSG00000123143|Q16512-2|PKN1 nc|ENSG00000123143|Q16512-3|PKN1 nc|ENSG00000123143|Q16512-3|PKN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.7383728027344 2 450.737283 899.460012 2.9589 0.0013337 -0.22328 -0.00010064 2.7356 0.0012331 450.73713356669435 65.709 0.3748 65.957 65.718 66.093 0.24848 34 21 2 0 0 0 0.14729 1 30035 30035 26.884 6.43 1 463390 30973 2295 19823 19884 34825 34825 0.006260859066173907 SPDLGAVEL 9 Unmodified _SPDLGAVEL_ 0 0 0 nc|ENSG00000123143|Q16512-3|PKN1;ENST00000585839.5_1_19:14544333-14578454:+|nuORF;ENSG00000123143|ENST00000242783|PKN1;nc|ENSG00000123143|Q16512-2|PKN1 nc|ENSG00000123143|Q16512-3|PKN1 nc|ENSG00000123143|Q16512-3|PKN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 900.4706420898438 1 900.467289 899.460012 4.0101 0.003611 0.18122 0.00016319 4.1914 0.0037742 900.4670552809747 65.083 0.44018 65.74 65.541 65.981 0.65672 50 30 2 0 0 0 0.0023685 4 29825 29778;29825;29873;29936 100.37 25.949 1 1092500 30974 2295 19823 19884 34826;34827;34828;34829 34827 0.006260859066173907 SPDLGAVEL 9 Unmodified _SPDLGAVEL_ 0 0 0 nc|ENSG00000123143|Q16512-3|PKN1;ENST00000585839.5_1_19:14544333-14578454:+|nuORF;ENSG00000123143|ENST00000242783|PKN1;nc|ENSG00000123143|Q16512-2|PKN1 nc|ENSG00000123143|Q16512-3|PKN1 nc|ENSG00000123143|Q16512-3|PKN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.7388916015625 2 450.737283 899.460012 NaN NaN NaN NaN NaN NaN NaN 65.032 1 65.689 65.189 66.189 0.65672 0 0 0 0.30236 1 29814 29814 26.884 5.137 1 30975 2295 19823 19884 34830 34830 0.006260859066173907 SPDPLRPLEF 10 Unmodified _SPDPLRPLEF_ 0 0 0 nc|ENSG00000059122|Q4VC44-5|FLYWCH1;ENST00000570752.5_1_16:2986460-2998725:+|nuORF;nc|ENSG00000059122|Q4VC44-4|FLYWCH1;ENST00000574985.1_1_16:2986529-2998725:+|nuORF;nc|ENSG00000059122|Q4VC44-2|FLYWCH1;ENSG00000059122|ENST00000253928|FLYWCH1;nc|ENSG00000059122|Q4VC44-3|FLYWCH1 nc|ENSG00000059122|Q4VC44-5|FLYWCH1 nc|ENSG00000059122|Q4VC44-5|FLYWCH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 585.8138427734375 2 585.811313 1169.60807 3.6277 0.0021251 0.091557 5.3635E-05 3.7192 0.0021788 585.8113742036204 69.385 0.2162 69.639 69.549 69.766 0.25443 22 15 2 0 0 0 0.10862 1 31778 31778 51.488 34.375 1 321430 30976 633 19824 19885 34831 34831 0.030053971604502294 SPDPLRPLEF 10 Unmodified _SPDPLRPLEF_ 0 0 0 nc|ENSG00000059122|Q4VC44-5|FLYWCH1;ENST00000570752.5_1_16:2986460-2998725:+|nuORF;nc|ENSG00000059122|Q4VC44-4|FLYWCH1;ENST00000574985.1_1_16:2986529-2998725:+|nuORF;nc|ENSG00000059122|Q4VC44-2|FLYWCH1;ENSG00000059122|ENST00000253928|FLYWCH1;nc|ENSG00000059122|Q4VC44-3|FLYWCH1 nc|ENSG00000059122|Q4VC44-5|FLYWCH1 nc|ENSG00000059122|Q4VC44-5|FLYWCH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.8121337890625 2 585.811313 1169.60807 NaN NaN NaN NaN NaN NaN NaN 68.778 1 69.438 68.938 69.938 0.65924 0 0 0 0.33719 1 31528 31528 35.612 19.765 1 30977 633 19824 19885 34832 34832 0.030053971604502294 SPDPSKHLL 9 Unmodified _SPDPSKHLL_ 0 0 0 ENSG00000154237|ENST00000388948|LRRK1;nc|ENSG00000154237|Q38SD2-2|LRRK1 ENSG00000154237|ENST00000388948|LRRK1 ENSG00000154237|ENST00000388948|LRRK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.8511657714844 3 331.850308 992.529095 NaN NaN NaN NaN NaN NaN NaN 24.478 1 25.215 24.715 25.715 0.73623 0 0 0 0.23029 1 10968 10968 29.841 11.467 1 30978 3811 19825 19886 34833 34833 0.03253169926199462 SPDSEHVTL 9 Unmodified _SPDSEHVTL_ 0 0 0 nc|ENSG00000127914|Q99996-5|AKAP9;nc|ENSG00000127914|Q99996-3|AKAP9;ENSG00000127914|ENST00000356239|AKAP9;nc|ENSG00000127914|Q99996-1|AKAP9;nc|ENSG00000127914|Q99996-6|AKAP9;ENST00000463118.1_1_7:91729006-91736737:+|nuORF;ENST00000487258.5_1_7:91722364-91739470:+|nuORF nc|ENSG00000127914|Q99996-5|AKAP9 nc|ENSG00000127914|Q99996-5|AKAP9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.73724365234375 2 492.735271 983.45599 3.2576 0.0016051 0.4465 0.00022001 3.7041 0.0018251 492.73527756986033 29.031 0.20057 29.82 29.739 29.939 0.78921 22 12 2 0 0 0 0.14729 1 13088 13088 26.884 8.7373 1 175780 30979 2491 19826 19887 34834 34834 -0.0364000358707699 SPDSEVTSL 9 Unmodified _SPDSEVTSL_ 0 0 0 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8;ENSG00000033030|ENST00000633063|ZCCHC8 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.7227783203125 2 467.72183 933.429106 NaN NaN NaN NaN NaN NaN NaN 41.855 1 41.855 41.355 42.355 0 0 0 0 0.0045985 1 19045 19045 92.822 21.689 1 30980 500 19827 19888 34835 34835 -0.04027112198264149 SPDSEVTSL 9 Unmodified _SPDSEVTSL_ 0 0 0 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8;ENSG00000033030|ENST00000633063|ZCCHC8 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.7233581542969 2 467.72183 933.429106 NaN NaN NaN NaN NaN NaN NaN 41.997 1 41.997 41.497 42.497 0 0 0 0 0.17021 1 19112 19112 32.305 11.852 1 30981 500 19827 19888 34836 34836 -0.04027112198264149 SPDSEVTSL 9 Unmodified _SPDSEVTSL_ 0 0 0 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8;ENSG00000033030|ENST00000633063|ZCCHC8 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 467.7231750488281 2 467.72183 933.429106 NaN NaN NaN NaN NaN NaN NaN 40.982 1 41.785 41.285 42.285 0.80351 0 0 0 0.019349 1 18582 18582 74.423 16.951 1 30982 500 19827 19888 34837 34837 -0.04027112198264149 SPDSEVTSL 9 Unmodified _SPDSEVTSL_ 0 0 0 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8;ENSG00000033030|ENST00000633063|ZCCHC8 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 467.7235412597656 2 467.72183 933.429106 3.0347 0.0014194 0.030509 1.427E-05 3.0652 0.0014337 467.7217927055971 41.678 0.25586 41.948 41.818 42.074 0.27021 15 9 2 0 0 0 0.0080831 1 18996 18996 85.357 10.934 1 722180 30983 500 19827 19888 34838 34838 -0.04027112198264149 SPDSEVTSL 9 Unmodified _SPDSEVTSL_ 0 0 0 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8;ENSG00000033030|ENST00000633063|ZCCHC8 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 934.4414672851562 1 934.436383 933.429106 4.0262 0.0037623 0.12716 0.00011882 4.1534 0.0038811 934.436685286564 41.72 0.18336 41.991 41.89 42.074 0.27021 9 6 2 0 0 0 0.047285 1 19025 19025 48.346 8.3885 1 356100 30984 500 19827 19888 34839 34839 -0.04027112198264149 SPDSEVTSL 9 Unmodified _SPDSEVTSL_ 0 0 0 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8;ENSG00000033030|ENST00000633063|ZCCHC8 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 467.72265625 2 467.72183 933.429106 NaN NaN NaN NaN NaN NaN NaN 41.828 1 42.098 41.598 42.598 0.27021 0 0 0 0.14073 1 19057 19057 34.102 9.4286 1 30985 500 19827 19888 34840 34840 -0.04027112198264149 SPDSEVTSL 9 Unmodified _SPDSEVTSL_ 0 0 0 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8;ENSG00000033030|ENST00000633063|ZCCHC8 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8 nc|ENSG00000033030|Q6NZY4-2|ZCCHC8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.7224426269531 2 467.72183 933.429106 3.0415 0.0014226 0.31437 0.00014704 3.3558 0.0015696 467.721719745255 41.129 0.18072 41.774 41.74 41.92 0.64451 11 9 2 0 0 0 0.015468 1 18845 18845 74.423 10.186 1 941500 30986 500 19827 19888 34841 34841 -0.04027112198264149 SPDSGVYEM 9 Unmodified _SPDSGVYEM_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;nc|ENSG00000173193|Q460N5-5|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.7042236328125 2 492.702583 983.390612 3.0396 0.0014976 -0.23852 -0.00011752 2.8011 0.0013801 492.7025727415911 41.689 0.28027 41.689 41.548 41.828 0 52 31 3 0 0 0 0.0019388 3 18966 18918;18966;19032 104.8 60.392 1 2693300 30987 4917 19828 19889 34842;34843;34844 34843 -0.10174741104447094 SPDSGVYEM 9 Unmodified _SPDSGVYEM_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;nc|ENSG00000173193|Q460N5-5|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.7041015625 2 492.702583 983.390612 NaN NaN NaN NaN NaN NaN NaN 40.825 1 41.628 41.128 42.128 0.80351 0 0 0 1.1497E-06 1 18504 18504 117.6 66.744 1 30988 4917 19828 19889 34845 34845 -0.10174741104447094 SPDSGVYEM 9 Unmodified _SPDSGVYEM_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;nc|ENSG00000173193|Q460N5-5|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.70391845703125 2 492.702583 983.390612 3.4487 0.0016992 -0.40518 -0.00019963 3.0435 0.0014996 492.7025185939939 41.549 0.41318 41.82 41.661 42.074 0.27021 66 23 4 0 0 0 0.0013377 3 18879 18879;18934;18993 117.6 66.744 1 10321000 30989 4917 19828 19889 34846;34847;34848 34846 -0.10174741104447094 SPDSGVYEM 9 Unmodified _SPDSGVYEM_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;nc|ENSG00000173193|Q460N5-5|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 984.4033203125 1 984.397889 983.390612 3.8435 0.0037835 0.12006 0.00011818 3.9636 0.0039017 984.398338318605 41.551 0.37787 41.821 41.666 42.044 0.27021 48 21 3 0 0 0 0.0012997 2 18889 18889;18948 120.45 72.105 1 5277500 30990 4917 19828 19889 34849;34850 34849 -0.10174741104447094 SPDSGVYEM 9 Unmodified _SPDSGVYEM_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;nc|ENSG00000173193|Q460N5-5|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 984.4011840820312 1 984.397889 983.390612 3.9053 0.0038444 -0.078576 -7.735E-05 3.8267 0.003767 984.3974697043905 41.011 0.20358 41.656 41.641 41.845 0.64451 33 18 2 0 0 0 0.00033079 2 18797 18754;18797 133.7 82.847 1 10161000 30991 4917 19828 19889 34851;34852 34852 -0.10174741104447094 SPDSGVYEM 9 Unmodified _SPDSGVYEM_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;nc|ENSG00000173193|Q460N5-5|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.7041931152344 2 492.702583 983.390612 3.3876 0.0016691 -0.24797 -0.00012217 3.1396 0.0015469 492.70234420109904 41.036 0.22713 41.68 41.618 41.845 0.64451 40 24 2 0 0 0 0.0013377 2 18755 18755;18805 117.6 66.744 1 17521000 30992 4917 19828 19889 34853;34854 34853 -0.10174741104447094 SPDSGVYEM 9 Oxidation (M) _SPDSGVYEM(Oxidation (M))_ SPDSGVYEM(1) SPDSGVYEM(130) 0 0 1 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;nc|ENSG00000173193|Q460N5-5|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.70147705078125 2 500.70004 999.385527 NaN NaN NaN NaN NaN NaN NaN 22.785 1 23.065 22.565 23.565 0.28085 0 0 0 2.4046E-07 1 10281 10281 125.62 74.77 1 30993 4917 19828 19890 34855 34855 67 -0.11419044967067293 SPDSGVYEM 9 Oxidation (M) _SPDSGVYEM(Oxidation (M))_ SPDSGVYEM(1) SPDSGVYEM(140) 0 0 1 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;nc|ENSG00000173193|Q460N5-3|PARP14;nc|ENSG00000173193|Q460N5-5|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.70147705078125 2 500.70004 999.385527 NaN NaN NaN NaN NaN NaN NaN 22.331 1 22.972 22.472 23.472 0.64051 0 0 0 2.755E-11 1 10162 10162 139.54 88.689 1 30994 4917 19828 19890 34856 34856 67 -0.11419044967067293 SPDTESPVL 9 Unmodified _SPDTESPVL_ 0 0 0 nc|ENSG00000078674|Q15154-2|PCM1;nc|ENSG00000078674|Q15154-5|PCM1;ENSG00000078674|ENST00000325083|PCM1 nc|ENSG00000078674|Q15154-2|PCM1 nc|ENSG00000078674|Q15154-2|PCM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.7344055175781 2 472.732197 943.449842 NaN NaN NaN NaN NaN NaN NaN 43.432 1 43.702 43.202 44.202 0.27021 0 0 0 0.10934 1 19840 19840 39.957 13.074 1 30995 881 19829 19891 34857 34857 -0.024145218186276907 SPDTVSPSL 9 Unmodified _SPDTVSPSL_ 0 0 0 ENSG00000105700|ENST00000222307|KXD1 ENSG00000105700|ENST00000222307|KXD1 ENSG00000105700|ENST00000222307|KXD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 902.4509887695312 1 902.446553 901.439277 3.7054 0.003344 0.56677 0.00051148 4.2722 0.0038554 902.4468520570204 42.485 0.17235 42.485 42.401 42.573 0 16 12 2 0 0 0 0.010221 1 19326 19326 81.613 17.377 1 591890 30996 1523 19830 19892 34858 34858 -0.015385044730351183 SPDVNYEEL 9 Unmodified _SPDVNYEEL_ 0 0 0 ENSG00000165916|ENST00000298852|PSMC3 ENSG00000165916|ENST00000298852|PSMC3 ENSG00000165916|ENST00000298852|PSMC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.2429809570312 2 533.240386 1064.46622 3.0644 0.0016341 0.61785 0.00032946 3.6823 0.0019635 533.2405391916739 51.262 0.3403 51.921 51.88 52.221 0.65956 30 23 2 0 0 0 0.11458 1 23442 23442 29.082 14.243 1 748960 30997 4434 19831 19893 34859 34859 -0.06343440652517529 SPEAQPKTL 9 Unmodified _SPEAQPKTL_ 0 0 0 nc|ENSG00000160710|P55265-5|ADAR;ENSG00000160710|ENST00000368474|ADAR;nc|ENSG00000160710|P55265-4|ADAR nc|ENSG00000160710|P55265-5|ADAR nc|ENSG00000160710|P55265-5|ADAR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.76531982421875 2 485.763832 969.513111 NaN NaN NaN NaN NaN NaN NaN 18.919 1 18.919 18.419 19.419 0 0 0 0 1.0673000000000001E-57 1 8408 8408 205.91 141.95 1 30998 4072 19832 19894 34860 34860 0.027134636892810704 SPEAQPKTL 9 Unmodified _SPEAQPKTL_ 0 0 0 nc|ENSG00000160710|P55265-5|ADAR;ENSG00000160710|ENST00000368474|ADAR;nc|ENSG00000160710|P55265-4|ADAR nc|ENSG00000160710|P55265-5|ADAR nc|ENSG00000160710|P55265-5|ADAR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.7652587890625 2 485.763832 969.513111 2.9442 0.0014302 -0.28957 -0.00014066 2.6546 0.0012895 485.7636619929117 18.328 0.13485 18.528 18.48 18.615 0.20057 45 27 2 0 0 0 4.7502E-21 2 8166 8128;8166 179.28 117.93 1 9544700 30999 4072 19832 19894 34861;34862 34862 0.027134636892810704 SPEAQPKTL 9 Unmodified _SPEAQPKTL_ 0 0 0 nc|ENSG00000160710|P55265-5|ADAR;ENSG00000160710|ENST00000368474|ADAR;nc|ENSG00000160710|P55265-4|ADAR nc|ENSG00000160710|P55265-5|ADAR nc|ENSG00000160710|P55265-5|ADAR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.7655029296875 2 485.763832 969.513111 2.9169 0.0014169 0.31457 0.00015281 3.2314 0.0015697 485.7639418643256 18.365 0.35255 18.667 18.487 18.839 0.30159 107 33 4 0 0 0 4.7502E-21 5 8309 8266;8309;8356;8397;8405 179.28 117.93 1 4122800 31000 4072 19832 19894 34863;34864;34865;34866;34867 34864 0.027134636892810704 SPEAQPKTL 9 Unmodified _SPEAQPKTL_ 0 0 0 nc|ENSG00000160710|P55265-5|ADAR;ENSG00000160710|ENST00000368474|ADAR;nc|ENSG00000160710|P55265-4|ADAR nc|ENSG00000160710|P55265-5|ADAR nc|ENSG00000160710|P55265-5|ADAR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.7652282714844 2 485.763832 969.513111 3.2418 0.0015747 -0.23305 -0.00011321 3.0087 0.0014615 485.76374572169414 18.04 0.23601 18.701 18.546 18.782 0.66072 86 37 3 0 0 0 5.733800000000001E-41 2 8147 8102;8147 205.91 132.94 1 8627200 31001 4072 19832 19894 34868;34869 34869 0.027134636892810704 SPEDGIHEL 9 Unmodified _SPEDGIHEL_ 0 0 0 ENSG00000115414|ENST00000354785|FN1;nc|ENSG00000115414|P02751-7|FN1;nc|ENSG00000115414|P02751-1|FN1;nc|ENSG00000115414|P02751-4|FN1;nc|ENSG00000115414|P02751-3|FN1;nc|ENSG00000115414|P02751-6|FN1;nc|ENSG00000115414|P02751-5|FN1;nc|ENSG00000115414|P02751-17|FN1;nc|ENSG00000115414|P02751-11|FN1;ENST00000492816.6_1_2:216245477-216245942:-|nuORF ENSG00000115414|ENST00000354785|FN1 ENSG00000115414|ENST00000354785|FN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.73779296875 2 498.735271 995.45599 2.9774 0.0014849 0.37373 0.00018639 3.3511 0.0016713 498.7355039386848 36.241 0.38607 36.241 36.052 36.438 0 28 18 2 0 0 0 0.0016284 2 16412 16412;16482 108 40.653 1 919920 31002 1968 19833 19895 34870;34871 34870 -0.04192003587104409 SPEDGIHEL 9 Unmodified _SPEDGIHEL_ 0 0 0 ENSG00000115414|ENST00000354785|FN1;nc|ENSG00000115414|P02751-7|FN1;nc|ENSG00000115414|P02751-1|FN1;nc|ENSG00000115414|P02751-4|FN1;nc|ENSG00000115414|P02751-3|FN1;nc|ENSG00000115414|P02751-6|FN1;nc|ENSG00000115414|P02751-5|FN1;nc|ENSG00000115414|P02751-17|FN1;nc|ENSG00000115414|P02751-11|FN1;ENST00000492816.6_1_2:216245477-216245942:-|nuORF ENSG00000115414|ENST00000354785|FN1 ENSG00000115414|ENST00000354785|FN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.7376403808594 2 498.735271 995.45599 3.1193 0.0015557 0.3703 0.00018468 3.4896 0.0017404 498.7353885888096 35.311 0.37309 36.102 35.878 36.251 0.79132 39 22 3 0 0 0 0.00081333 2 15971 15971;16027 128.37 70.894 1 821770 31003 1968 19833 19895 34872;34873 34872 -0.04192003587104409 SPEDGIHEL 9 Unmodified _SPEDGIHEL_ 0 0 0 ENSG00000115414|ENST00000354785|FN1;nc|ENSG00000115414|P02751-7|FN1;nc|ENSG00000115414|P02751-1|FN1;nc|ENSG00000115414|P02751-4|FN1;nc|ENSG00000115414|P02751-3|FN1;nc|ENSG00000115414|P02751-6|FN1;nc|ENSG00000115414|P02751-5|FN1;nc|ENSG00000115414|P02751-17|FN1;nc|ENSG00000115414|P02751-11|FN1;ENST00000492816.6_1_2:216245477-216245942:-|nuORF ENSG00000115414|ENST00000354785|FN1 ENSG00000115414|ENST00000354785|FN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.73626708984375 2 498.735271 995.45599 3.2034 0.0015977 0.56395 0.00028126 3.7674 0.0018789 498.7353490995069 36.219 0.38147 36.477 36.243 36.625 0.25768 48 17 4 0 0 0 0.0012577 2 16472 16472;16531 123.45 49.028 1 1021300 31004 1968 19833 19895 34874;34875 34874 -0.04192003587104409 SPEDGIHEL 9 Unmodified _SPEDGIHEL_ 0 0 0 ENSG00000115414|ENST00000354785|FN1;nc|ENSG00000115414|P02751-7|FN1;nc|ENSG00000115414|P02751-1|FN1;nc|ENSG00000115414|P02751-4|FN1;nc|ENSG00000115414|P02751-3|FN1;nc|ENSG00000115414|P02751-6|FN1;nc|ENSG00000115414|P02751-5|FN1;nc|ENSG00000115414|P02751-17|FN1;nc|ENSG00000115414|P02751-11|FN1;ENST00000492816.6_1_2:216245477-216245942:-|nuORF ENSG00000115414|ENST00000354785|FN1 ENSG00000115414|ENST00000354785|FN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.7374572753906 2 498.735271 995.45599 3.3089 0.0016503 0.3039 0.00015157 3.6128 0.0018018 498.7352179167789 35.688 0.39252 36.314 36.099 36.491 0.62631 30 14 3 0 0 0 0.0013631 2 16336 16336;16394 115.69 48.348 1 1047200 31005 1968 19833 19895 34876;34877 34876 -0.04192003587104409 SPEDSCLSSL 10 Carbamidomethyl (C) _SPEDSC(Carbamidomethyl (C))LSSL_ SPEDSC(1)LSSL SPEDSC(52)LSSL 0 1 0 REV__ENSG00000133318|ENST00000377819|RTN3 REV__ENSG00000133318|ENST00000377819|RTN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.7392578125 2 547.737154 1093.45975 3.0036 0.0016452 0.039783 2.1791E-05 3.0433 0.001667 547.7373585721665 34.222 0.52241 35.011 34.73 35.252 0.78921 101 30 4 0 0 0 0.10303 1 15589 15589 52.268 6.5687 1 3965800 + 31006 11932 19834 19896 34878 34878 108 -0.0832370187554261 SPEEIDAQL 9 Unmodified _SPEEIDAQL_ 0 0 0 ENSG00000106244|ENST00000350498|PDAP1 ENSG00000106244|ENST00000350498|PDAP1 ENSG00000106244|ENST00000350498|PDAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.24432373046875 2 501.242929 1000.47131 2.9962 0.0015018 0.049041 2.4581E-05 3.0452 0.0015264 501.2429829506312 49.962 0.61329 49.962 49.586 50.199 0 81 29 4 0 0 0 0.0014044 4 22891 22799;22846;22891;22938 112.59 38.17 1 9811800 31007 1558 19835 19897 34879;34880;34881;34882 34881 -0.02891136789912707 SPEEIDAQL 9 Unmodified _SPEEIDAQL_ 0 0 0 ENSG00000106244|ENST00000350498|PDAP1 ENSG00000106244|ENST00000350498|PDAP1 ENSG00000106244|ENST00000350498|PDAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1001.48583984375 1 1001.47858 1000.47131 3.444 0.0034491 2.2763 0.0022797 5.7203 0.0057288 1001.4821524353266 49.955 0.26082 49.955 49.793 50.054 0 22 11 3 0 0 0 0.0023685 1 22867 22867 100.37 36.135 1 1337200 31008 1558 19835 19897 34883 34883 -0.02891136789912707 SPEEIDAQL 9 Unmodified _SPEEIDAQL_ 0 0 0 ENSG00000106244|ENST00000350498|PDAP1 ENSG00000106244|ENST00000350498|PDAP1 ENSG00000106244|ENST00000350498|PDAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.2444763183594 2 501.242929 1000.47131 3.1143 0.001561 -0.12879 -6.4555E-05 2.9855 0.0014964 501.24283568225223 49.046 0.66519 49.873 49.641 50.306 0.82705 92 33 4 0 0 0 0.0014044 5 22327 22282;22327;22377;22428;22469 112.59 38.17 1 7352100 31009 1558 19835 19897 34884;34885;34886;34887;34888 34885 -0.02891136789912707 SPEEIDAQL 9 Unmodified _SPEEIDAQL_ 0 0 0 ENSG00000106244|ENST00000350498|PDAP1 ENSG00000106244|ENST00000350498|PDAP1 ENSG00000106244|ENST00000350498|PDAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1001.482177734375 1 1001.47858 1000.47131 3.6219 0.0036273 3.8082 0.0038138 7.4301 0.0074411 1001.4842392028738 49.05 0.22326 49.877 49.782 50.005 0.82705 18 11 2 0 0 0 0.0013631 1 22341 22341 115.69 51.456 1 605650 31010 1558 19835 19897 34889 34889 -0.02891136789912707 SPEEIDAQL 9 Unmodified _SPEEIDAQL_ 0 0 0 ENSG00000106244|ENST00000350498|PDAP1 ENSG00000106244|ENST00000350498|PDAP1 ENSG00000106244|ENST00000350498|PDAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.24456787109375 2 501.242929 1000.47131 3.2292 0.0016186 0.28368 0.00014219 3.5128 0.0017608 501.24304697630964 49.834 0.53846 50.096 49.782 50.32 0.26146 63 21 4 0 0 0 0.0014044 3 22745 22689;22745;22800 112.59 36.135 1 7111400 31011 1558 19835 19897 34890;34891;34892 34891 -0.02891136789912707 SPEEIDAQL 9 Unmodified _SPEEIDAQL_ 0 0 0 ENSG00000106244|ENST00000350498|PDAP1 ENSG00000106244|ENST00000350498|PDAP1 ENSG00000106244|ENST00000350498|PDAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1001.4822387695312 1 1001.47858 1000.47131 3.5189 0.0035241 0.23639 0.00023674 3.7553 0.0037608 1001.4797558508216 49.834 0.28944 50.095 49.903 50.193 0.26146 22 11 3 0 0 0 0.0063783 2 22729 22729;22799 88.904 34.13 1 1023900 31012 1558 19835 19897 34893;34894 34893 -0.02891136789912707 SPEEIDAQL 9 Unmodified _SPEEIDAQL_ 0 0 0 ENSG00000106244|ENST00000350498|PDAP1 ENSG00000106244|ENST00000350498|PDAP1 ENSG00000106244|ENST00000350498|PDAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.24493408203125 2 501.242929 1000.47131 3.3049 0.0016565 0.24846 0.00012454 3.5533 0.0017811 501.2430388917788 49.312 0.45984 49.968 49.734 50.194 0.65525 45 15 4 0 0 0 0.0010612 3 22559 22506;22559;22609 125.62 40.268 1 7827400 31013 1558 19835 19897 34895;34896;34897 34896 -0.02891136789912707 SPEEIDAQL 9 Unmodified _SPEEIDAQL_ 0 0 0 ENSG00000106244|ENST00000350498|PDAP1 ENSG00000106244|ENST00000350498|PDAP1 ENSG00000106244|ENST00000350498|PDAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1001.4830932617188 1 1001.47858 1000.47131 3.7365 0.0037421 0.87177 0.00087306 4.6083 0.0046151 1001.4794259014878 49.312 0.27068 49.967 49.791 50.062 0.65524 15 8 2 0 0 0 0.0063783 2 22583 22527;22583 88.904 34.13 1 936290 31014 1558 19835 19897 34898;34899 34899 -0.02891136789912707 SPEEKALRRKL 11 Unmodified _SPEEKALRRKL_ 0 0 0 ENST00000482720.1_1_22:29194993-29196512:-|nuORF;nc|ENSG00000100219|P17861|XBP1;ENSG00000100219|ENST00000344347|XBP1 ENST00000482720.1_1_22:29194993-29196512:-|nuORF ENST00000482720.1_1_22:29194993-29196512:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 442.9334716796875 3 442.933254 1325.77793 NaN NaN NaN NaN NaN NaN NaN 105.47 1 105.78 105.28 106.28 0.31782 0 0 0 1.0079 1 48683 48683 0.45452 0.35968 1 31015 1188 19836 19898 34900 34900 0.12807513162874784 SPEGKEESL 9 Unmodified _SPEGKEESL_ 0 0 0 nc|ENSG00000157654|Q9Y2D5-9|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-8|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-9|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-9|PALM2AKAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 488.2358093261719 2 488.235104 974.455655 3.1941 0.0015595 0.55 0.00026853 3.7441 0.001828 488.23535200557944 14.857 0.31635 14.857 14.693 15.009 0 46 31 2 0 0 0 0.15661 1 6574 6574 26.268 2.2476 1 131540 31016 9706 19837 19899 34901 34901 -0.03259423306951703 SPENEEHIL 9 Unmodified _SPENEEHIL_ 0 0 0 ENSG00000141564|ENST00000306801|RPTOR;nc|ENSG00000141564|Q8N122-3|RPTOR;ENST00000577161.5_1_17:78519375-78883449:+|nuORF ENSG00000141564|ENST00000306801|RPTOR ENSG00000141564|ENST00000306801|RPTOR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.2559204101562 2 534.253828 1066.4931 3.0055 0.0016057 0.99864 0.00053353 4.0041 0.0021392 534.2540537165256 33.009 0.31646 33.009 32.799 33.116 0 45 19 3 0 0 0 0.0076144 1 14928 14928 86.332 57.845 1 725930 31017 3271 19838 19900 34902 34902 -0.0374833204132301 SPENEEHIL 9 Unmodified _SPENEEHIL_ 0 0 0 ENSG00000141564|ENST00000306801|RPTOR;nc|ENSG00000141564|Q8N122-3|RPTOR;ENST00000577161.5_1_17:78519375-78883449:+|nuORF ENSG00000141564|ENST00000306801|RPTOR ENSG00000141564|ENST00000306801|RPTOR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 534.2545776367188 2 534.253828 1066.4931 3.0058 0.0016058 0.35197 0.00018804 3.3577 0.0017939 534.2536509257143 31.946 0.19159 32.734 32.6 32.791 0.78795 28 17 2 0 0 0 0.025135 1 14416 14416 61.602 34.718 1 813000 31018 3271 19838 19900 34903 34903 -0.0374833204132301 SPENEEHIL 9 Unmodified _SPENEEHIL_ 0 0 0 ENSG00000141564|ENST00000306801|RPTOR;nc|ENSG00000141564|Q8N122-3|RPTOR;ENST00000577161.5_1_17:78519375-78883449:+|nuORF ENSG00000141564|ENST00000306801|RPTOR ENSG00000141564|ENST00000306801|RPTOR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 534.2559204101562 2 534.253828 1066.4931 3.2049 0.0017123 0.41919 0.00022396 3.6241 0.0019362 534.2539868117102 32.854 0.30229 33.108 32.929 33.232 0.25389 36 12 4 0 0 0 0.0057865 2 14934 14934;14985 90.135 63.251 1 882720 31019 3271 19838 19900 34904;34905 34904 -0.0374833204132301 SPENEEHIL 9 Unmodified _SPENEEHIL_ 0 0 0 ENSG00000141564|ENST00000306801|RPTOR;nc|ENSG00000141564|Q8N122-3|RPTOR;ENST00000577161.5_1_17:78519375-78883449:+|nuORF ENSG00000141564|ENST00000306801|RPTOR ENSG00000141564|ENST00000306801|RPTOR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 534.2561645507812 2 534.253828 1066.4931 3.1735 0.0016954 0.56804 0.00030348 3.7415 0.0019989 534.2540484558917 32.362 0.39545 32.981 32.731 33.126 0.61831 57 21 3 0 0 0 0.0076144 2 14796 14796;14843 86.332 57.845 1 850720 31020 3271 19838 19900 34906;34907 34906 -0.0374833204132301 SPENSDPQF 9 Unmodified _SPENSDPQF_ 0 0 0 ENSG00000061918|ENST00000264424|GUCY1B1;nc|ENSG00000061918|Q02153-2|GUCY1B1;nc|ENSG00000061918|Q02153-3|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.718994140625 2 510.717079 1019.4196 3.1149 0.0015908 0.53648 0.00027399 3.6514 0.0018648 510.7175410774678 32.809 0.66133 32.809 32.402 33.064 0 74 42 3 0 0 0 0.027384 2 14921 14835;14921 58.679 34.658 1 498240 31021 649 19839 19901 34908;34909 34909 -0.08932880483803274 SPENSDPQF 9 Unmodified _SPENSDPQF_ 0 0 0 ENSG00000061918|ENST00000264424|GUCY1B1;nc|ENSG00000061918|Q02153-2|GUCY1B1;nc|ENSG00000061918|Q02153-3|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.7189636230469 2 510.717079 1019.4196 NaN NaN NaN NaN NaN NaN NaN 31.975 1 32.763 32.263 33.263 0.78795 0 0 0 0.018132 1 14452 14452 75.761 39.717 1 31022 649 19839 19901 34910 34910 -0.08932880483803274 SPENSDPQF 9 Unmodified _SPENSDPQF_ 0 0 0 ENSG00000061918|ENST00000264424|GUCY1B1;nc|ENSG00000061918|Q02153-2|GUCY1B1;nc|ENSG00000061918|Q02153-3|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.7181701660156 2 510.717079 1019.4196 NaN NaN NaN NaN NaN NaN NaN 32.774 1 33.028 32.528 33.528 0.25389 0 0 0 0.01256 1 14926 14926 81.89 43.715 1 31023 649 19839 19901 34911 34911 -0.08932880483803274 SPENSDPQF 9 Unmodified _SPENSDPQF_ 0 0 0 ENSG00000061918|ENST00000264424|GUCY1B1;nc|ENSG00000061918|Q02153-2|GUCY1B1;nc|ENSG00000061918|Q02153-3|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 ENSG00000061918|ENST00000264424|GUCY1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.71929931640625 2 510.717079 1019.4196 3.2955 0.001683 0.21476 0.00010968 3.5102 0.0017927 510.71713787074464 32.278 0.36517 32.896 32.684 33.049 0.61832 44 21 3 0 0 0 0.017293 2 14813 14758;14813 71.922 47.902 1 449740 31024 649 19839 19901 34912;34913 34913 -0.08932880483803274 SPEPGAVVL 9 Unmodified _SPEPGAVVL_ 0 0 0 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-5|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-7|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-6|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 435.24456787109375 2 434.742368 867.470183 2.9824 0.0012966 -0.36543 -0.00015887 2.6169 0.0011377 434.7422472662802 55.148 0.14383 55.148 55.052 55.196 0 22 13 2 0 0 0 0.10169 1 25324 25324 32.305 8.2849 1 1845900 31025 9705 19840 19902 34914 34914 0.031146936318691587 SPEPGAVVL 9 Unmodified _SPEPGAVVL_ 0 0 0 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-5|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-7|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-6|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 868.4810791015625 1 868.47746 867.470183 3.3126 0.0028769 0.99019 0.00085996 4.3028 0.0037368 868.4777392780276 54.095 0.37636 54.89 54.736 55.113 0.79552 39 21 2 0 0 0 0.0080831 3 24701 24648;24701;24742 85.357 43.262 1 901250 31026 9705 19840 19902 34915;34916;34917 34916 0.031146936318691587 SPEPGAVVL 9 Unmodified _SPEPGAVVL_ 0 0 0 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-5|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-7|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-6|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.7432861328125 2 434.742368 867.470183 2.4752 0.0010761 0.54263 0.00023591 3.0178 0.001312 434.74256073858487 54.136 0.47092 54.932 54.675 55.146 0.79552 60 26 3 0 0 0 0.028312 3 24679 24679;24723;24775 57.471 28.985 1 1008800 31027 9705 19840 19902 34918;34919;34920 34918 0.031146936318691587 SPEPGAVVL 9 Unmodified _SPEPGAVVL_ 0 0 0 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-5|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-7|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-6|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.7436218261719 2 434.742368 867.470183 2.5815 0.0011223 0.64044 0.00027843 3.222 0.0014007 434.7424492049256 54.896 0.25715 55.161 55.026 55.283 0.26543 30 19 2 0 0 0 0.071101 1 25089 25089 39.957 11.47 1 1399200 31028 9705 19840 19902 34921 34921 0.031146936318691587 SPEPGAVVL 9 Unmodified _SPEPGAVVL_ 0 0 0 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-5|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-7|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-6|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.743408203125 2 434.742368 867.470183 2.9283 0.0012731 0.25924 0.0001127 3.1876 0.0013858 434.7423869411344 54.292 0.29493 54.959 54.76 55.055 0.6665 24 16 2 0 0 0 0.14729 1 24772 24772 26.884 5.137 1 1377100 31029 9705 19840 19902 34922 34922 0.031146936318691587 SPEPGAVVL 9 Unmodified _SPEPGAVVL_ 0 0 0 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-5|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-7|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5-6|PALM2AKAP2;nc|ENSG00000157654|Q9Y2D5|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2 nc|ENSG00000157654|Q9Y2D5-3|PALM2AKAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 868.48095703125 1 868.47746 867.470183 3.8138 0.0033122 0.85268 0.00074053 4.6665 0.0040528 868.4779273325245 54.208 0.3136 54.875 54.76 55.074 0.6665 24 17 2 0 0 0 0.020718 1 24804 24804 67.344 25.249 1 899790 31030 9705 19840 19902 34923 34923 0.031146936318691587 SPEPKDQTL 9 Unmodified _SPEPKDQTL_ 0 0 0 nc|ENSG00000173692|Q99460-2|PSMD1;ENSG00000173692|ENST00000308696|PSMD1 nc|ENSG00000173692|Q99460-2|PSMD1 nc|ENSG00000173692|Q99460-2|PSMD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.7609558105469 2 507.758746 1013.50294 3.1758 0.0016125 -0.068299 -3.4679E-05 3.1075 0.0015778 507.75891559485393 18.711 0.1535 18.711 18.568 18.722 0 25 13 3 0 0 0 0.001383 1 8286 8286 114.2 43.87 1 3525000 31031 4947 19841 19903 34924 34924 -0.003271440359412736 SPEPKDQTL 9 Unmodified _SPEPKDQTL_ 0 0 0 nc|ENSG00000173692|Q99460-2|PSMD1;ENSG00000173692|ENST00000308696|PSMD1 nc|ENSG00000173692|Q99460-2|PSMD1 nc|ENSG00000173692|Q99460-2|PSMD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.7607116699219 2 507.758746 1013.50294 3.0841 0.001566 0.58555 0.00029732 3.6697 0.0018633 507.7590502284897 17.826 0.39928 18.127 17.902 18.302 0.30158 90 33 3 0 0 0 0.00076206 3 8057 8012;8057;8102 128.93 36.963 1 683480 31032 4947 19841 19903 34925;34926;34927 34926 -0.003271440359412736 SPEPKDQTL 9 Unmodified _SPEPKDQTL_ 0 0 0 nc|ENSG00000173692|Q99460-2|PSMD1;ENSG00000173692|ENST00000308696|PSMD1 nc|ENSG00000173692|Q99460-2|PSMD1 nc|ENSG00000173692|Q99460-2|PSMD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.7595520019531 2 507.758746 1013.50294 3.3072 0.0016793 -0.15619 -7.9309E-05 3.151 0.0016 507.75868401549525 17.591 0.29624 18.252 18.102 18.398 0.66072 74 37 3 0 0 0 0.0010698 3 7949 7873;7904;7949 125.53 39.888 1 1600000 31033 4947 19841 19903 34928;34929;34930 34930 -0.003271440359412736 SPEPTDTAL 9 Unmodified _SPEPTDTAL_ 0 0 0 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.72625732421875 2 465.724372 929.434192 2.6943 0.0012548 0.42663 0.00019869 3.1209 0.0014535 465.7245442679343 36.095 0.30979 36.095 35.955 36.265 0 28 17 2 0 0 0 0.012869 2 16381 16381;16436 77.984 27.129 1 842810 31034 5936 19842 19904 34931;34932 34931 -0.033348083356827374 SPEPTDTAL 9 Unmodified _SPEPTDTAL_ 0 0 0 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 930.4484252929688 1 930.441468 929.434192 3.6588 0.0034043 0.11614 0.00010806 3.7749 0.0035124 930.4420884118917 36.112 0.22709 36.112 36.009 36.236 0 15 12 2 0 0 0 0.052704 1 16400 16400 46.021 3.9264 1 436790 31035 5936 19842 19904 34933 34933 -0.033348083356827374 SPEPTDTAL 9 Unmodified _SPEPTDTAL_ 0 0 0 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.7257995605469 2 465.724372 929.434192 2.8307 0.0013183 0.43104 0.00020075 3.2617 0.0015191 465.72453574288903 35.345 0.29093 36.136 35.981 36.272 0.79131 31 17 2 0 0 0 0.028312 2 16026 15981;16026 57.471 19.32 1 555200 31036 5936 19842 19904 34934;34935 34935 -0.033348083356827374 SPEPTDTAL 9 Unmodified _SPEPTDTAL_ 0 0 0 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.7257080078125 2 465.724372 929.434192 2.7003 0.0012576 0.25369 0.00011815 2.954 0.0013758 465.72446382525214 35.932 0.45445 36.189 35.94 36.395 0.25631 37 20 2 0 0 0 0.012869 3 16330 16330;16389;16439 77.984 33.577 1 1004600 31037 5936 19842 19904 34936;34937;34938 34936 -0.033348083356827374 SPEPTDTAL 9 Unmodified _SPEPTDTAL_ 0 0 0 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.7265625 2 465.724372 929.434192 2.8907 0.0013463 0.52977 0.00024673 3.4205 0.001593 465.72465202218854 35.476 0.31713 36.102 35.938 36.255 0.62631 23 9 3 0 0 0 0.020718 2 16235 16235;16291 67.344 22.937 1 650490 31038 5936 19842 19904 34939;34940 34939 -0.033348083356827374 SPEPTDTAL 9 Unmodified _SPEPTDTAL_ 0 0 0 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 930.4495239257812 1 930.441468 929.434192 3.9325 0.003659 1.4532 0.0013521 5.3857 0.0050111 930.442849812765 35.465 0.23388 36.091 35.967 36.201 0.62631 11 6 2 0 0 0 0.028312 2 16245 16245;16258 57.471 12.679 1 441060 31039 5936 19842 19904 34941;34942 34941 -0.033348083356827374 SPERMMALG 9 2 Oxidation (M) _SPERM(Oxidation (M))M(Oxidation (M))ALG_ SPERM(1)M(1)ALG SPERM(42)M(42)ALG 0 0 2 ENST00000564218.5_1_16:31448362-31454203:-|nuORF ENST00000564218.5_1_16:31448362-31454203:-|nuORF ENST00000564218.5_1_16:31448362-31454203:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.2344970703125 2 512.233527 1022.4525 3.1199 0.0015981 0.30744 0.00015748 3.4274 0.0017556 512.2335484746692 49.959 0.26847 49.959 49.822 50.091 0 22 12 2 0 0 0 0.063575 1 22861 22861 41.84 10.571 1 679040 31040 9027 19843 19905 34943 34943 89;90 -0.057827129569432145 SPERMMALG 9 2 Oxidation (M) _SPERM(Oxidation (M))M(Oxidation (M))ALG_ 0 0 2 ENST00000564218.5_1_16:31448362-31454203:-|nuORF ENST00000564218.5_1_16:31448362-31454203:-|nuORF ENST00000564218.5_1_16:31448362-31454203:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 512.233527 1022.4525 3.2658 0.0016729 0.67911 0.00034786 3.9449 0.0020207 512.2337547283705 49.007 0.28299 49.834 49.722 50.005 0.82705 -0.13221 0.00013298 NaN 41.84 24 14 2 NaN NaN NaN NaN 0 NaN NaN 0 420570 31041 9027 19843 19905 89;90 -0.057827129569432145 SPERMMALG 9 2 Oxidation (M) _SPERM(Oxidation (M))M(Oxidation (M))ALG_ 0 0 2 ENST00000564218.5_1_16:31448362-31454203:-|nuORF ENST00000564218.5_1_16:31448362-31454203:-|nuORF ENST00000564218.5_1_16:31448362-31454203:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 512.233527 1022.4525 3.3802 0.0017315 0.53597 0.00027454 3.9162 0.002006 512.2337614909986 49.823 0.28944 50.084 49.903 50.193 0.26146 0.11821 -1.366E-05 NaN 41.84 19 11 2 NaN NaN NaN NaN 0 NaN NaN 0 479760 31042 9027 19843 19905 89;90 -0.057827129569432145 SPERMMALG 9 2 Oxidation (M) _SPERM(Oxidation (M))M(Oxidation (M))ALG_ 0 0 2 ENST00000564218.5_1_16:31448362-31454203:-|nuORF ENST00000564218.5_1_16:31448362-31454203:-|nuORF ENST00000564218.5_1_16:31448362-31454203:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 512.233527 1022.4525 3.445 0.0017646 0.78457 0.00040188 4.2296 0.0021665 512.2337925177625 49.331 0.26469 49.987 49.818 50.083 0.65525 0.020647 0.00024102 NaN 41.84 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 333940 31043 9027 19843 19905 89;90 -0.057827129569432145 SPETRENAL 9 Unmodified _SPETRENAL_ 0 0 0 nc|ENSG00000144580|Q92600-3|CNOT9;ENSG00000144580|ENST00000273064|CNOT9;nc|ENSG00000144580|Q92600-2|CNOT9 nc|ENSG00000144580|Q92600-3|CNOT9 nc|ENSG00000144580|Q92600-3|CNOT9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.7544250488281 2 508.753995 1015.49344 3.1748 0.0016152 0.67822 0.00034505 3.8531 0.0019603 508.7542290531517 17.479 0.25739 17.479 17.355 17.612 0 34 15 3 0 0 0 0.057945 1 7764 7764 43.772 17.504 1 245790 31044 3434 19844 19906 34944 34944 -0.0136891232148173 SPETRENAL 9 Unmodified _SPETRENAL_ 0 0 0 nc|ENSG00000144580|Q92600-3|CNOT9;ENSG00000144580|ENST00000273064|CNOT9;nc|ENSG00000144580|Q92600-2|CNOT9 nc|ENSG00000144580|Q92600-3|CNOT9 nc|ENSG00000144580|Q92600-3|CNOT9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.7557678222656 2 508.753995 1015.49344 NaN NaN NaN NaN NaN NaN NaN 16.783 1 16.984 16.484 17.484 0.20057 0 0 0 0.49214 1 7420 7420 19.257 6.7254 1 31045 3434 19844 19906 34945 34945 -0.0136891232148173 SPETRENAL 9 Unmodified _SPETRENAL_ 0 0 0 nc|ENSG00000144580|Q92600-3|CNOT9;ENSG00000144580|ENST00000273064|CNOT9;nc|ENSG00000144580|Q92600-2|CNOT9 nc|ENSG00000144580|Q92600-3|CNOT9 nc|ENSG00000144580|Q92600-3|CNOT9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.7560119628906 2 508.753995 1015.49344 3.0703 0.001562 0.42579 0.00021662 3.4961 0.0017787 508.7540732756329 14.94 0.37947 15.246 15.085 15.464 0.3069 62 36 2 0 0 0 0.15661 1 6756 6756 26.268 9.3258 1 143840 31046 3434 19844 19906 34946 34946 -0.0136891232148173 SPETRENAL 9 Unmodified _SPETRENAL_ 0 0 0 nc|ENSG00000144580|Q92600-3|CNOT9;ENSG00000144580|ENST00000273064|CNOT9;nc|ENSG00000144580|Q92600-2|CNOT9 nc|ENSG00000144580|Q92600-3|CNOT9 nc|ENSG00000144580|Q92600-3|CNOT9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.75616455078125 2 508.753995 1015.49344 3.3857 0.0017225 0.51525 0.00026214 3.9009 0.0019846 508.75413859105146 14.878 0.30476 15.531 15.392 15.697 0.65356 43 26 2 0 0 0 0.091193 1 6688 6688 34.932 10.911 1 211070 31047 3434 19844 19906 34947 34947 -0.0136891232148173 SPETRENAL 9 Unmodified _SPETRENAL_ 0 0 0 nc|ENSG00000144580|Q92600-3|CNOT9;ENSG00000144580|ENST00000273064|CNOT9;nc|ENSG00000144580|Q92600-2|CNOT9 nc|ENSG00000144580|Q92600-3|CNOT9 nc|ENSG00000144580|Q92600-3|CNOT9 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 508.753995 1015.49344 3.1748 0.0016152 0.67822 0.00034505 3.8531 0.0019603 508.7542290531517 17.479 0.25739 17.479 17.355 17.612 0 0 0 NaN 43.772 34 15 3 NaN NaN NaN NaN 0 NaN NaN 0 245790 31048 3434 19844 19906 -0.0136891232148173 SPETRENAL 9 Unmodified _SPETRENAL_ 0 0 0 nc|ENSG00000144580|Q92600-3|CNOT9;ENSG00000144580|ENST00000273064|CNOT9;nc|ENSG00000144580|Q92600-2|CNOT9 nc|ENSG00000144580|Q92600-3|CNOT9 nc|ENSG00000144580|Q92600-3|CNOT9 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 508.753995 1015.49344 3.0703 0.001562 0.42579 0.00021662 3.4961 0.0017787 508.7540732756329 14.94 0.37947 15.246 15.085 15.464 0.3069 -0.14252 -6.1134E-05 NaN 34.932 62 36 2 NaN NaN NaN NaN 0 NaN NaN 0 143840 31049 3434 19844 19906 -0.0136891232148173 SPEYFEPIL 9 Unmodified _SPEYFEPIL_ 0 0 0 ENST00000526766.1_1_11:112051504-112052349:+|nuORF;ENSG00000104756|ENST00000221200|KCTD9;ENST00000434597.2_1_9:37477166-37477928:+|nuORF ENST00000526766.1_1_11:112051504-112052349:+|nuORF ENST00000526766.1_1_11:112051504-112052349:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.7749633789062 2 547.773865 1093.53318 3.4536 0.0018918 -0.013897 -7.6122E-06 3.4397 0.0018842 547.7736711681142 82.564 0.35223 82.811 82.626 82.978 0.24722 27 16 2 0 0 0 0.021401 1 37996 37996 85.357 43.262 1 819150 31050 1448 19845 19907 34948 34948 -0.00984785370769714 SPEYFEPIL 9 Unmodified _SPEYFEPIL_ 0 0 0 ENST00000526766.1_1_11:112051504-112052349:+|nuORF;ENSG00000104756|ENST00000221200|KCTD9;ENST00000434597.2_1_9:37477166-37477928:+|nuORF ENST00000526766.1_1_11:112051504-112052349:+|nuORF ENST00000526766.1_1_11:112051504-112052349:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.7754516601562 2 547.773865 1093.53318 3.648 0.0019983 0.30543 0.0001673 3.9534 0.0021656 547.7741002136588 81.935 0.27779 82.595 82.452 82.73 0.65998 26 14 2 0 0 0 0.044468 2 37732 37732;37777 64.236 22.142 1 930950 31051 1448 19845 19907 34949;34950 34949 -0.00984785370769714 SPFKVPRVP 9 Unmodified _SPFKVPRVP_ 0 0 0 REV__ENSG00000165138|ENST00000353234|ANKS6 REV__ENSG00000165138|ENST00000353234|ANKS6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.87518310546875 3 342.874677 1025.6022 2.3998 0.00082282 1.0162 0.00034842 3.4159 0.0011712 342.8750213262062 49.146 0.36454 49.973 49.722 50.087 0.82705 57 18 4 0 0 0 1.1412 1 22349 22349 0.86438 0.16671 1 3378900 + 31052 13142 19846 19908 34951 34951 0.09042343439477918 SPGTWFWGWYW 11 Unmodified _SPGTWFWGWYW_ 0 0 0 REV__ENST00000512411.5_1_4:8368690-8375449:-|nuORF REV__ENST00000512411.5_1_4:8368690-8375449:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 736.8229370117188 2 736.824755 1471.63496 NaN NaN NaN NaN NaN NaN NaN 91.046 1 91.298 90.798 91.798 0.25163 0 0 0 1.0072 1 41865 41865 1.3295 1.0225 1 + 31053 16980 19847 19909 34952 34952 -0.08199494228324511 SPHEESISL 9 Unmodified _SPHEESISL_ 0 0 0 ENSG00000055609|ENST00000262189|KMT2C;nc|ENSG00000055609|Q8NEZ4-2|KMT2C;nc|ENSG00000055609|Q8NEZ4-3|KMT2C ENSG00000055609|ENST00000262189|KMT2C ENSG00000055609|ENST00000262189|KMT2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.7429504394531 2 499.743096 997.47164 2.9586 0.0014785 -0.18995 -9.4929E-05 2.7686 0.0013836 499.7429130977915 36.008 0.3215 36.008 35.845 36.167 0 32 20 2 0 0 0 0.010221 1 16345 16345 81.613 24.142 1 740840 31054 616 19848 19910 34953 34953 -0.027197170700446804 SPHEESISL 9 Unmodified _SPHEESISL_ 0 0 0 ENSG00000055609|ENST00000262189|KMT2C;nc|ENSG00000055609|Q8NEZ4-2|KMT2C;nc|ENSG00000055609|Q8NEZ4-3|KMT2C ENSG00000055609|ENST00000262189|KMT2C ENSG00000055609|ENST00000262189|KMT2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.74462890625 2 499.743096 997.47164 3.0472 0.0015228 -0.14031 -7.0121E-05 2.9069 0.0014527 499.7431166664917 35.082 0.28822 35.873 35.672 35.961 0.79131 36 17 3 0 0 0 0.015468 2 15866 15866;15913 74.423 23.568 1 483690 31055 616 19848 19910 34954;34955 34954 -0.027197170700446804 SPHEESISL 9 Unmodified _SPHEESISL_ 0 0 0 ENSG00000055609|ENST00000262189|KMT2C;nc|ENSG00000055609|Q8NEZ4-2|KMT2C;nc|ENSG00000055609|Q8NEZ4-3|KMT2C ENSG00000055609|ENST00000262189|KMT2C ENSG00000055609|ENST00000262189|KMT2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.74346923828125 2 499.743096 997.47164 3.1973 0.0015978 -1.0643 -0.00053187 2.133 0.001066 499.74262438850263 35.924 0.42719 36.18 35.918 36.345 0.25524 35 19 2 0 0 0 0.015468 2 16344 16344;16394 74.423 23.568 1 727600 31056 616 19848 19910 34956;34957 34956 -0.027197170700446804 SPHEESISL 9 Unmodified _SPHEESISL_ 0 0 0 ENSG00000055609|ENST00000262189|KMT2C;nc|ENSG00000055609|Q8NEZ4-2|KMT2C;nc|ENSG00000055609|Q8NEZ4-3|KMT2C ENSG00000055609|ENST00000262189|KMT2C ENSG00000055609|ENST00000262189|KMT2C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.7449645996094 2 499.743096 997.47164 3.2976 0.001648 0.40161 0.0002007 3.6992 0.0018487 499.743248247817 35.455 0.35849 36.082 35.842 36.201 0.62631 17 10 2 0 0 0 0.015468 1 16234 16234 74.423 23.568 1 680630 31057 616 19848 19910 34958 34958 -0.027197170700446804 SPHEESISL 9 Unmodified _SPHEESISL_ 0 0 0 ENSG00000055609|ENST00000262189|KMT2C;nc|ENSG00000055609|Q8NEZ4-2|KMT2C;nc|ENSG00000055609|Q8NEZ4-3|KMT2C ENSG00000055609|ENST00000262189|KMT2C ENSG00000055609|ENST00000262189|KMT2C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.7445983886719 2 499.743096 997.47164 NaN NaN NaN NaN NaN NaN NaN 35.575 1 36.201 35.701 36.701 0.62631 0 0 0 0.56337 1 16295 16295 16.942 3.4344 1 31058 616 19848 19910 34959 34959 -0.027197170700446804 SPHLEEISL 9 Unmodified _SPHLEEISL_ 0 0 0 ENST00000538453.5_1_16:57103718-57116437:+|nuORF;ENST00000545081.5_1_16:57093337-57116437:+|nuORF;nc|ENSG00000140853|Q86WI3-4|NLRC5;ENSG00000140853|ENST00000688547|NLRC5 ENST00000538453.5_1_16:57103718-57116437:+|nuORF ENST00000538453.5_1_16:57103718-57116437:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.77001953125 2 512.769114 1023.52368 3.146 0.0016132 -1.0387 -0.00053263 2.1073 0.0010805 512.7684445340618 55.273 0.19706 55.539 55.443 55.64 0.26543 19 13 2 0 0 0 0.052704 1 25301 25301 46.021 6.0636 1 1697400 31059 3221 19849 19911 34960 34960 0.01285446343717922 SPHQAEPYL 9 Unmodified _SPHQAEPYL_ 0 0 0 nc|ENSG00000185507|Q92985-2|IRF7;ENSG00000185507|ENST00000525445|IRF7;nc|ENSG00000185507|Q92985-4|IRF7;ENST00000533182.5_1_11:612647-613950:-|nuORF nc|ENSG00000185507|Q92985-2|IRF7 nc|ENSG00000185507|Q92985-2|IRF7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.2554931640625 2 521.253631 1040.49271 3.8984 0.0020321 0.098488 5.1337E-05 3.9969 0.0020834 521.2536562333092 31.393 0.2545 31.649 31.506 31.76 0.25614 30 19 2 0 0 0 0.078225 1 14291 14291 38.176 1.7094 1 242290 31060 5512 19850 19912 34961 34961 -0.025917069705201357 SPHQAEPYL 9 Unmodified _SPHQAEPYL_ 0 0 0 nc|ENSG00000185507|Q92985-2|IRF7;ENSG00000185507|ENST00000525445|IRF7;nc|ENSG00000185507|Q92985-4|IRF7;ENST00000533182.5_1_11:612647-613950:-|nuORF nc|ENSG00000185507|Q92985-2|IRF7 nc|ENSG00000185507|Q92985-2|IRF7 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 521.253631 1040.49271 3.3667 0.0017549 0.52261 0.00027241 3.8893 0.0020273 521.2538381716423 30.908 0.23341 31.525 31.391 31.625 0.61737 -0.061867 0.00023257 NaN 38.176 22 13 2 NaN NaN NaN NaN 0 NaN NaN 0 200810 31061 5512 19850 19912 -0.025917069705201357 SPIEPLNPV 9 Unmodified _SPIEPLNPV_ 0 0 0 REV__PLEKHG2|p.L964Rfs*79|1|0.24|ENSG00000090924|chr19:39424022-39424031|CCTCCAGGTG/-|frameshift_variant REV__PLEKHG2|p.L964Rfs*79|1|0.24|ENSG00000090924|chr19:39424022-39424031|CCTCCAGGTG/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.51544189453125 3 322.514925 964.522947 1.5296 0.00049333 -1.1028 -0.00035566 0.42685 0.00013767 322.5145593629148 1.4623 0.65912 1.7664 1.3084 1.9675 0.30411 120 53 4 0 0 0 1.1911 1 607 607 0.86438 0.40604 1 499940 + 31062 10721 19851 19913 34962 34962 0.03926651694678185 SPISSDQSL 9 Unmodified _SPISSDQSL_ 0 0 0 ENSG00000125686|ENST00000300651|MED1 ENSG00000125686|ENST00000300651|MED1 ENSG00000125686|ENST00000300651|MED1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.2314147949219 2 467.229822 932.445091 2.785 0.0013012 0.45317 0.00021174 3.2382 0.001513 467.2301272135595 36.692 0.33246 36.692 36.532 36.865 0 30 15 3 0 0 0 0.0063783 2 16641 16641;16710 88.904 34.13 1 753180 31063 2414 19852 19914 34963;34964 34963 -0.023834059613704994 SPISSDQSL 9 Unmodified _SPISSDQSL_ 0 0 0 ENSG00000125686|ENST00000300651|MED1 ENSG00000125686|ENST00000300651|MED1 ENSG00000125686|ENST00000300651|MED1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 467.23077392578125 2 467.229822 932.445091 2.8589 0.0013358 0.24747 0.00011563 3.1064 0.0014514 467.22997882428575 35.808 0.24388 36.599 36.48 36.724 0.79131 18 11 2 0 0 0 0.0012997 1 16249 16249 120.45 38.837 1 1909400 31064 2414 19852 19914 34965 34965 -0.023834059613704994 SPISSDQSL 9 Unmodified _SPISSDQSL_ 0 0 0 ENSG00000125686|ENST00000300651|MED1 ENSG00000125686|ENST00000300651|MED1 ENSG00000125686|ENST00000300651|MED1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 467.2309875488281 2 467.229822 932.445091 2.8015 0.001309 0.31704 0.00014813 3.1186 0.0014571 467.2299841609293 36.569 0.28981 36.827 36.673 36.963 0.25768 20 10 3 0 0 0 0.010221 2 16641 16641;16705 81.613 33.267 1 698820 31065 2414 19852 19914 34966;34967 34966 -0.023834059613704994 SPISSDQSL 9 Unmodified _SPISSDQSL_ 0 0 0 ENSG00000125686|ENST00000300651|MED1 ENSG00000125686|ENST00000300651|MED1 ENSG00000125686|ENST00000300651|MED1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.2318420410156 2 467.229822 932.445091 2.9608 0.0013834 0.55724 0.00026036 3.518 0.0016437 467.23000710234476 36.052 0.25323 36.678 36.541 36.794 0.62631 12 7 2 0 0 0 0.010221 1 16507 16507 81.613 33.267 1 827320 31066 2414 19852 19914 34968 34968 -0.023834059613704994 SPKFKTTV 8 Unmodified _SPKFKTTV_ 0 0 0 ENSG00000072958|ENST00000291439|AP1M1;nc|ENSG00000072958|Q9BXS5-2|AP1M1 ENSG00000072958|ENST00000291439|AP1M1 ENSG00000072958|ENST00000291439|AP1M1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.2681579589844 2 454.26601 906.517468 2.8743 0.0013057 0.96335 0.00043762 3.8377 0.0017433 454.26653056733335 18.367 0.23231 18.367 18.276 18.509 0 19 12 2 0 0 0 0.15709 1 8161 8161 47.594 27.141 1 294850 31067 800 19853 19915 34969 34969 0.06046972902845482 SPKFKTTV 8 Unmodified _SPKFKTTV_ 0 0 0 ENSG00000072958|ENST00000291439|AP1M1;nc|ENSG00000072958|Q9BXS5-2|AP1M1 ENSG00000072958|ENST00000291439|AP1M1 ENSG00000072958|ENST00000291439|AP1M1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.2671813964844 2 454.26601 906.517468 NaN NaN NaN NaN NaN NaN NaN 17.838 1 18.039 17.539 18.539 0.20057 0 0 0 0.57508 1 7906 7906 26.268 11.43 1 31068 800 19853 19915 34970 34970 0.06046972902845482 SPKHGPRGR 9 Unmodified _SPKHGPRGR_ 0 0 0 REV__ENSG00000163686|ENST00000478253|ABHD6 REV__ENSG00000163686|ENST00000478253|ABHD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.1909484863281 3 331.189658 990.547145 NaN NaN NaN NaN NaN NaN NaN 68.363 1 69.022 68.522 69.522 0.65924 0 0 0 0.90519 1 31337 31337 2.2828 0 1 + 31069 13016 19854 19916 34971 34971 0.0514934969156684 SPKPKDEFIL 10 Unmodified _SPKPKDEFIL_ 0 0 0 REV__nc|ENSG00000104218|Q1MSJ5-2|CSPP1 REV__nc|ENSG00000104218|Q1MSJ5-2|CSPP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.21044921875 2 587.329339 1172.64412 NaN NaN NaN NaN NaN NaN NaN 59.688 1 60.437 59.937 60.937 0.74927 0 0 0 0.9952 1 27425 27425 5.7319 0.97584 1 + 31070 10114 19855 19917 34972 34972 0.06470854337317178 SPKRIKVEQQP 11 Unmodified _SPKRIKVEQQP_ 0 0 0 nc|ENSG00000138386|Q13506-2|NAB1 nc|ENSG00000138386|Q13506-2|NAB1 nc|ENSG00000138386|Q13506-2|NAB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.3860473632812 2 655.382968 1308.75138 4.4039 0.0028862 -0.77274 -0.00050644 3.6311 0.0023798 655.3824689708856 93.777 0.80315 94.032 93.803 94.606 0.25497 133 38 4 0 0 0 0.91137 1 43023 43023 2.7352 2.7352 1 4380800 31071 9663 19856 19918 34973 34973 0.10935824271541605 SPKVRKVL 8 Unmodified _SPKVRKVL_ 0 0 0 ENSG00000147604|ENST00000352983|RPL7;ENST00000461190.1_1_3:123871117-123871351:-|nuORF;ENST00000449200.1_1_22:40502501-40502987:-|nuORF;ENST00000402913.2_1_X:26704220-26705692:+|nuORF;ENST00000397636.2_1_7:99737498-99738123:-|nuORF ENSG00000147604|ENST00000352983|RPL7 ENSG00000147604|ENST00000352983|RPL7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 309.5437316894531 3 309.543038 925.607286 NaN NaN NaN NaN NaN NaN NaN 12.497 1 12.497 11.997 12.997 0 0 0 0 0.79394 1 5436 5436 19.257 9.1831 1 31072 3576 19857 19919 34974 34974 0.14150647302096786 SPKVRKVL 8 Unmodified _SPKVRKVL_ 0 0 0 ENSG00000147604|ENST00000352983|RPL7;ENST00000461190.1_1_3:123871117-123871351:-|nuORF;ENST00000449200.1_1_22:40502501-40502987:-|nuORF;ENST00000402913.2_1_X:26704220-26705692:+|nuORF;ENST00000397636.2_1_7:99737498-99738123:-|nuORF ENSG00000147604|ENST00000352983|RPL7 ENSG00000147604|ENST00000352983|RPL7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 309.54364013671875 3 309.543038 925.607286 1.435 0.00044421 -0.84641 -0.000262 0.58864 0.00018221 309.5430532899794 12.371 0.037971 12.678 12.653 12.691 0.30727 5 3 2 0 0 0 0.52777 1 5572 5572 19.257 9.1831 1 2150500 31073 3576 19857 19919 34975 34975 0.14150647302096786 SPKVRKVL 8 Unmodified _SPKVRKVL_ 0 0 0 ENSG00000147604|ENST00000352983|RPL7;ENST00000461190.1_1_3:123871117-123871351:-|nuORF;ENST00000449200.1_1_22:40502501-40502987:-|nuORF;ENST00000402913.2_1_X:26704220-26705692:+|nuORF;ENST00000397636.2_1_7:99737498-99738123:-|nuORF ENSG00000147604|ENST00000352983|RPL7 ENSG00000147604|ENST00000352983|RPL7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 309.54412841796875 3 309.543038 925.607286 NaN NaN NaN NaN NaN NaN NaN 12.377 1 13.015 12.515 13.515 0.63746 0 0 0 0.9851 1 5538 5538 6.7232 1.4263 1 31074 3576 19857 19919 34976 34976 0.14150647302096786 SPKVRLSL 8 Unmodified _SPKVRLSL_ 0 0 0 ENST00000539384.5_1_12:6560901-6571312:+|nuORF;ENSG00000139192|ENST00000266556|TAPBPL;nc|ENSG00000139192|Q9BX59-2|TAPBPL;nc|ENSG00000139192|Q9BX59-7|TAPBPL ENST00000539384.5_1_12:6560901-6571312:+|nuORF ENST00000539384.5_1_12:6560901-6571312:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.2887268066406 2 450.287277 898.560001 3.0403 0.001369 0.0072784 3.2774E-06 3.0476 0.0013723 450.2872484173007 34.497 0.28421 35.12 34.987 35.271 0.62294 14 9 2 0 0 0 0.30771 1 15812 15812 34.932 3.6637 1 284920 31075 3136 19858 19920 34977 34977 0.10666368031104412 SPKVRLSL 8 Unmodified _SPKVRLSL_ 0 0 0 ENST00000539384.5_1_12:6560901-6571312:+|nuORF;ENSG00000139192|ENST00000266556|TAPBPL;nc|ENSG00000139192|Q9BX59-2|TAPBPL;nc|ENSG00000139192|Q9BX59-7|TAPBPL ENST00000539384.5_1_12:6560901-6571312:+|nuORF ENST00000539384.5_1_12:6560901-6571312:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 450.287277 898.560001 2.5952 0.0011686 0.35263 0.00015879 2.9479 0.0013274 450.28747383376367 34.342 0.1435 35.131 35.02 35.163 0.78921 0.0052122 0.00017538 NaN 34.932 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 103930 31076 3136 19858 19920 0.10666368031104412 SPLASPSTSI 10 Unmodified _SPLASPSTSI_ 0 0 0 nc|ENSG00000080345|Q5UIP0-2|RIF1;ENSG00000080345|ENST00000444746|RIF1 nc|ENSG00000080345|Q5UIP0-2|RIF1 nc|ENSG00000080345|Q5UIP0-2|RIF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.2574157714844 2 480.25584 958.497126 3.2735 0.0015721 0.25771 0.00012377 3.5312 0.0016959 480.25593770507214 31.203 0.26344 31.203 31.076 31.339 0 58 24 3 0 0 0 0.019635 2 14096 14096;14145 74.929 13.327 1 1060800 31077 906 19859 19921 34978;34979 34978 0.01621757452392103 SPLASPSTSI 10 Unmodified _SPLASPSTSI_ 0 0 0 nc|ENSG00000080345|Q5UIP0-2|RIF1;ENSG00000080345|ENST00000444746|RIF1 nc|ENSG00000080345|Q5UIP0-2|RIF1 nc|ENSG00000080345|Q5UIP0-2|RIF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.2572937011719 2 480.25584 958.497126 3.1708 0.0015228 0.061924 2.9739E-05 3.2327 0.0015525 480.2557845025943 30.305 0.40316 31.095 30.896 31.3 0.78921 81 34 3 0 0 0 0.019635 2 13680 13634;13680 74.929 9.4553 1 807170 31078 906 19859 19921 34980;34981 34981 0.01621757452392103 SPLASPSTSI 10 Unmodified _SPLASPSTSI_ 0 0 0 nc|ENSG00000080345|Q5UIP0-2|RIF1;ENSG00000080345|ENST00000444746|RIF1 nc|ENSG00000080345|Q5UIP0-2|RIF1 nc|ENSG00000080345|Q5UIP0-2|RIF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.2574768066406 2 480.25584 958.497126 3.5578 0.0017087 0.068413 3.2856E-05 3.6262 0.0017415 480.25582742276464 31.103 0.35 31.359 31.174 31.524 0.25614 70 29 3 0 0 0 0.019635 1 14166 14166 74.929 0.72935 1 1086000 31079 906 19859 19921 34982 34982 0.01621757452392103 SPLASPSTSI 10 Unmodified _SPLASPSTSI_ 0 0 0 nc|ENSG00000080345|Q5UIP0-2|RIF1;ENSG00000080345|ENST00000444746|RIF1 nc|ENSG00000080345|Q5UIP0-2|RIF1 nc|ENSG00000080345|Q5UIP0-2|RIF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.2572326660156 2 480.25584 958.497126 3.1417 0.0015088 0.26104 0.00012537 3.4027 0.0016342 480.2559275795974 30.64 0.345 31.257 31.105 31.45 0.61737 50 21 3 0 0 0 0.019635 1 14078 14078 74.929 0.72935 1 1295500 31080 906 19859 19921 34983 34983 0.01621757452392103 SPLDESWTLD 10 Unmodified _SPLDESWTLD_ 0 0 0 REV__nc|ENSG00000063015|Q53EL9-2|SEZ6 REV__nc|ENSG00000063015|Q53EL9-2|SEZ6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.7666015625 2 581.766768 1161.51898 NaN NaN NaN NaN NaN NaN NaN 32.869 1 33.487 32.987 33.987 0.61831 0 0 0 0.99812 1 15067 15067 3.2813 0 1 + 31081 10403 19860 19922 34984 34984 -0.05531482589708503 SPLFCCRCD 9 Unmodified _SPLFCCRCD_ 0 0 0 REV__ENST00000429139.1_1_9:127420791-127420986:+|nuORF REV__ENST00000429139.1_1_9:127420791-127420986:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.4773254394531 3 348.475091 1042.40344 NaN NaN NaN NaN NaN NaN NaN 39.766 1 40.407 39.907 40.907 0.64136 0 0 0 0.91238 1 18176 18176 0.23584 0 1 + 31082 16237 19861 19923 34985 34985 -0.11606324517561006 SPLGKEDTL 9 Unmodified _SPLGKEDTL_ 0 0 0 ENSG00000155561|ENST00000285968|NUP205;NUP205|p.H1034Tfs*4|1|0.19|ENSG00000155561|chr7:135607274-135607274|T/-|frameshift_variant ENSG00000155561|ENST00000285968|NUP205 ENSG00000155561|ENST00000285968|NUP205 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.2573547363281 2 480.25584 958.497126 3.5578 0.0017087 0.068413 3.2856E-05 3.6262 0.0017415 480.25582742276464 31.103 0.35 31.359 31.174 31.524 0.25614 70 29 3 0 0 0 0.0043297 2 14119 14119;14216 93.166 17.405 1 1086000 31083 3868 19862 19924 34986;34987 34986 0.01621757452392103 SPLGKEDTL 9 Unmodified _SPLGKEDTL_ 0 0 0 ENSG00000155561|ENST00000285968|NUP205;NUP205|p.H1034Tfs*4|1|0.19|ENSG00000155561|chr7:135607274-135607274|T/-|frameshift_variant ENSG00000155561|ENST00000285968|NUP205 ENSG00000155561|ENST00000285968|NUP205 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.2574157714844 2 480.25584 958.497126 3.1417 0.0015088 0.26104 0.00012537 3.4027 0.0016342 480.2559275795974 30.64 0.345 31.257 31.105 31.45 0.61737 50 21 3 0 0 0 0.013715 1 14028 14028 76.825 1.064 1 1295500 31084 3868 19862 19924 34988 34988 0.01621757452392103 SPLKKLRLDKK 11 Unmodified _SPLKKLRLDKK_ 0 0 0 REV__nc|ENSG00000128849|Q0VF96-2|CGNL1 REV__nc|ENSG00000128849|Q0VF96-2|CGNL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 442.6255187988281 3 442.625761 1324.85546 NaN NaN NaN NaN NaN NaN NaN 60.191 1 60.191 59.691 60.691 0 0 0 0 1.0079 1 27912 27912 0.40827 0.078994 1 + 31085 11773 19863 19925 34989 34989 0.2060215109904675 SPLKTGRKRHR 11 Unmodified _SPLKTGRKRHR_ 0 0 0 ENSG00000146834|ENST00000310512|MEPCE ENSG00000146834|ENST00000310512|MEPCE ENSG00000146834|ENST00000310512|MEPCE MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 668.407958984375 2 668.407644 1334.80073 NaN NaN NaN NaN NaN NaN NaN 30.669 1 30.669 30.169 31.169 0 0 0 0 1.0075 1 13858 13858 0.96228 0.56156 1 31086 3531 19864 19926 34990 34990 0.14672577071019077 SPLPQEVVM 9 Unmodified _SPLPQEVVM_ 0 0 0 ENSG00000142327|ENST00000270357|RNPEPL1 ENSG00000142327|ENST00000270357|RNPEPL1 ENSG00000142327|ENST00000270357|RNPEPL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.2648010253906 2 500.26261 998.510668 3.1863 0.001594 -0.43831 -0.00021927 2.748 0.0013747 500.76368977191805 62.233 0.24813 62.483 62.274 62.522 0.24965 20 10 3 0 0 0 0.071132 2 28490 28436;28490 39.95 20.693 1 1689700 31087 3306 19865 19927 34991;34992 34992 0.011352919599744382 SPLPQEVVM 9 Unmodified _SPLPQEVVM_ 0 0 0 ENSG00000142327|ENST00000270357|RNPEPL1 ENSG00000142327|ENST00000270357|RNPEPL1 ENSG00000142327|ENST00000270357|RNPEPL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.264404296875 2 500.26261 998.510668 3.1284 0.001565 0.19842 9.9262E-05 3.3268 0.0016643 500.26253191626296 61.594 0.17686 62.254 62.108 62.285 0.66008 14 8 2 0 0 0 0.099775 1 28181 28181 32.786 13.529 1 733220 31088 3306 19865 19927 34993 34993 0.011352919599744382 SPLQDVSTI 9 Unmodified _SPLQDVSTI_ 0 0 0 nc|ENSG00000134444|Q9P260|RELCH;ENSG00000134444|ENST00000644646|RELCH;nc|ENSG00000134444|Q9P260-2|RELCH nc|ENSG00000134444|Q9P260|RELCH nc|ENSG00000134444|Q9P260|RELCH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.25762939453125 2 480.25584 958.497126 3.1708 0.0015228 0.061924 2.9739E-05 3.2327 0.0015525 480.2557845025943 30.305 0.40316 31.095 30.896 31.3 0.78921 81 34 3 0 0 0 0.035495 1 13724 13724 53.404 0 1 807170 31089 2810 19866 19928 34994 34994 0.01621757452392103 SPLTKSISL 9 Unmodified _SPLTKSISL_ 0 0 0 nc|ENSG00000170776|Q12802-4|AKAP13;ENSG00000170776|ENST00000394518|AKAP13;nc|ENSG00000170776|Q12802-2|AKAP13 nc|ENSG00000170776|Q12802-4|AKAP13 nc|ENSG00000170776|Q12802-4|AKAP13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.28521728515625 2 473.2844 944.554247 3.1075 0.0014707 -1.1625 -0.00055018 1.9451 0.00092057 473.2837429148061 48.568 0.24699 48.83 48.708 48.955 0.26209 15 10 2 0 0 0 0.053359 1 22234 22234 45.74 3.7843 1 743240 31090 4768 19867 19929 34995 34995 0.079752247287729 SPLTKSISL 9 Unmodified _SPLTKSISL_ 0 0 0 nc|ENSG00000170776|Q12802-4|AKAP13;ENSG00000170776|ENST00000394518|AKAP13;nc|ENSG00000170776|Q12802-2|AKAP13 nc|ENSG00000170776|Q12802-4|AKAP13 nc|ENSG00000170776|Q12802-4|AKAP13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.2857666015625 2 473.2844 944.554247 3.0777 0.0014566 0.11068 5.2381E-05 3.1884 0.001509 473.2843878361645 47.948 0.27107 48.602 48.458 48.729 0.65356 18 10 2 0 0 0 0.0057865 1 21965 21965 90.135 26.174 1 688490 31091 4768 19867 19929 34996 34996 0.079752247287729 SPLTKSISL 9 Unmodified _SPLTKSISL_ 0 0 0 nc|ENSG00000170776|Q12802-4|AKAP13;ENSG00000170776|ENST00000394518|AKAP13;nc|ENSG00000170776|Q12802-2|AKAP13 nc|ENSG00000170776|Q12802-4|AKAP13 nc|ENSG00000170776|Q12802-4|AKAP13 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 473.2844 944.554247 2.8267 0.0013378 -0.29971 -0.00014185 2.527 0.001196 473.2842539517303 47.67 0.18723 48.499 48.407 48.595 0.82915 -0.1446 9.5548E-05 NaN 90.135 11 8 2 NaN NaN NaN NaN 0 NaN NaN 0 179440 31092 4768 19867 19929 0.079752247287729 SPLVRRTL 8 Unmodified _SPLVRRTL_ 0 0 0 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 314.5354309082031 3 314.534543 940.581799 2.1432 0.0006741 0.63105 0.00019849 2.7742 0.00087258 314.53472809489284 21.863 0.28325 21.863 21.731 22.014 0 39 23 2 0 0 0 0.57648 1 9790 9790 12.241 0 1 257620 31093 1990 19868 19930 34997 34997 0.10913172779669367 SPLVRRTL 8 Unmodified _SPLVRRTL_ 0 0 0 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 314.534543 940.581799 2.2449 0.00070609 0.84549 0.00026594 3.0904 0.00097203 314.5348053458126 20.843 0.28074 21.497 21.318 21.598 0.65346 -0.18324 0.00010566 NaN 12.241 38 20 2 NaN NaN NaN NaN 0 NaN NaN 0 276070 31094 1990 19868 19930 0.10913172779669367 SPMDDGFVSL 10 Unmodified _SPMDDGFVSL_ 0 0 0 ENST00000524546.5_1_8:42911603-42924800:+|nuORF;nc|ENSG00000168522|P49354-2|FNTA;ENSG00000168522|ENST00000302279|FNTA ENST00000524546.5_1_8:42911603-42924800:+|nuORF ENST00000524546.5_1_8:42911603-42924800:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 534.240966796875 2 534.239332 1066.46411 2.7867 0.0014888 -0.18185 -9.715E-05 2.6049 0.0013916 534.239054244721 74.869 0.29353 75.533 75.385 75.678 0.6644 47 24 3 0 0 0 0.1787 1 34463 34463 41.84 13.353 1 1103700 31095 4631 19869 19931 34998 34998 -0.06646192661969508 SPMLKSGM 8 Unmodified _SPMLKSGM_ 0 0 0 nc|ENSG00000167978|Q9UQ35-2|SRRM2;ENSG00000167978|ENST00000301740|SRRM2;SRRM2|p.R1377Pfs*50|1|0.03|ENSG00000167978|chr16:2764657-2764660|AGAT/-|frameshift_variant nc|ENSG00000167978|Q9UQ35-2|SRRM2 nc|ENSG00000167978|Q9UQ35-2|SRRM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 425.71319580078125 2 425.711699 849.408845 NaN NaN NaN NaN NaN NaN NaN 25.895 1 26.52 26.02 27.02 0.62505 0 0 0 0.88872 1 11872 11872 13.042 0.51092 1 31096 4589 19870 19932 34999 34999 -0.021882776634242873 SPNANEPPL 9 Unmodified _SPNANEPPL_ 0 0 0 ENST00000503467.1_1_4:17587853-17609209:+|nuORF;nc|ENSG00000002549|P28838-2|LAP3;ENSG00000002549|ENST00000226299|LAP3 ENST00000503467.1_1_4:17587853-17609209:+|nuORF ENST00000503467.1_1_4:17587853-17609209:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 469.73394775390625 2 469.732532 937.45051 2.8192 0.0013243 0.48667 0.00022861 3.3059 0.0015529 469.7329500550783 35.618 0.48941 35.873 35.713 36.203 0.25524 22 17 2 0 0 0 0.099775 1 16238 16238 32.786 5.902 1 176250 31097 300 19871 19933 35000 35000 -0.020716823789143746 SPNANEPPL 9 Unmodified _SPNANEPPL_ 0 0 0 ENST00000503467.1_1_4:17587853-17609209:+|nuORF;nc|ENSG00000002549|P28838-2|LAP3;ENSG00000002549|ENST00000226299|LAP3 ENST00000503467.1_1_4:17587853-17609209:+|nuORF ENST00000503467.1_1_4:17587853-17609209:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 469.7344665527344 2 469.732532 937.45051 NaN NaN NaN NaN NaN NaN NaN 35.309 1 35.933 35.433 36.433 0.62437 0 0 0 0.40345 1 16178 16178 22.736 4.5899 1 31098 300 19871 19933 35001 35001 -0.020716823789143746 SPNQKLLAV 9 Unmodified _SPNQKLLAV_ 0 0 0 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.2899475097656 2 485.290017 968.565481 3.2823 0.0015929 -2.2918 -0.0011122 0.9905 0.00048068 485.2880630410241 40.024 0.4945 40.024 39.875 40.37 0 25 18 2 0 0 0 0.10837 1 18148 18148 30.637 6.616 1 341790 31099 683 19872 19934 35002 35002 0.07994046822898326 SPNQKLLAV 9 Unmodified _SPNQKLLAV_ 0 0 0 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.29058837890625 2 485.290017 968.565481 3.1697 0.0015382 -2.4877 -0.0012072 0.68204 0.00033099 485.28823684186364 38.974 0.36441 39.772 39.599 39.963 0.79762 22 17 2 0 0 0 0.063575 1 17651 17651 41.84 7.4379 1 223990 31100 683 19872 19934 35003 35003 0.07994046822898326 SPNQKLLAV 9 Unmodified _SPNQKLLAV_ 0 0 0 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2916564941406 2 485.290017 968.565481 3.1332 0.0015205 -0.2528 -0.00012268 2.8804 0.0013978 485.28969989950696 39.719 0.42362 39.986 39.745 40.168 0.26696 20 14 2 0 0 0 0.084899 2 18093 18041;18093 36.506 8.8774 1 497500 31101 683 19872 19934 35004;35005 35005 0.07994046822898326 SPNQKLLAV 9 Unmodified _SPNQKLLAV_ 0 0 0 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2916259765625 2 485.290017 968.565481 3.2909 0.001597 -1.4263 -0.00069215 1.8646 0.00090488 485.28890664368413 39.286 0.57272 39.924 39.586 40.159 0.63778 27 20 2 0 0 0 0.02812 1 17953 17953 57.722 12.022 1 421620 31102 683 19872 19934 35006 35006 0.07994046822898326 SPNSDDTVL 9 Unmodified _SPNSDDTVL_ 0 0 0 ARMCX3|p.L251Yfs*14|1|0.26|ENSG00000102401|chrX:101625729-101625729|T/-|frameshift_variant;ENSG00000102401|ENST00000471229|ARMCX3 ARMCX3|p.L251Yfs*14|1|0.26|ENSG00000102401|chrX:101625729-101625729|T/-|frameshift_variant ARMCX3|p.L251Yfs*14|1|0.26|ENSG00000102401|chrX:101625729-101625729|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.2214660644531 2 474.219454 946.424355 2.7528 0.0013054 0.3141 0.00014895 3.0669 0.0014544 474.21956258972455 35.539 0.31087 35.539 35.392 35.703 0 31 14 3 0 0 0 0.010018 2 16125 16125;16171 81.89 43.916 1 1073700 31103 68 19873 19935 35007;35008 35007 -0.05099996341050428 SPNSDDTVL 9 Unmodified _SPNSDDTVL_ 0 0 0 ARMCX3|p.L251Yfs*14|1|0.26|ENSG00000102401|chrX:101625729-101625729|T/-|frameshift_variant;ENSG00000102401|ENST00000471229|ARMCX3 ARMCX3|p.L251Yfs*14|1|0.26|ENSG00000102401|chrX:101625729-101625729|T/-|frameshift_variant ARMCX3|p.L251Yfs*14|1|0.26|ENSG00000102401|chrX:101625729-101625729|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.22076416015625 2 474.219454 946.424355 2.8671 0.0013596 0.091301 4.3297E-05 2.9584 0.0014029 474.2194612370625 34.773 0.28883 35.562 35.468 35.757 0.78921 36 21 2 0 0 0 0.010018 2 15751 15751;15797 81.89 37.173 1 890880 31104 68 19873 19935 35009;35010 35009 -0.05099996341050428 SPNSDDTVL 9 Unmodified _SPNSDDTVL_ 0 0 0 ARMCX3|p.L251Yfs*14|1|0.26|ENSG00000102401|chrX:101625729-101625729|T/-|frameshift_variant;ENSG00000102401|ENST00000471229|ARMCX3 ARMCX3|p.L251Yfs*14|1|0.26|ENSG00000102401|chrX:101625729-101625729|T/-|frameshift_variant ARMCX3|p.L251Yfs*14|1|0.26|ENSG00000102401|chrX:101625729-101625729|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.2206115722656 2 474.219454 946.424355 2.9504 0.0013992 0.34296 0.00016264 3.2934 0.0015618 474.21962970894435 35.358 0.33308 35.613 35.444 35.777 0.25524 27 11 3 0 0 0 0.017293 2 16089 16089;16149 71.922 39.617 1 788940 31105 68 19873 19935 35011;35012 35011 -0.05099996341050428 SPNSDDTVL 9 Unmodified _SPNSDDTVL_ 0 0 0 ARMCX3|p.L251Yfs*14|1|0.26|ENSG00000102401|chrX:101625729-101625729|T/-|frameshift_variant;ENSG00000102401|ENST00000471229|ARMCX3 ARMCX3|p.L251Yfs*14|1|0.26|ENSG00000102401|chrX:101625729-101625729|T/-|frameshift_variant ARMCX3|p.L251Yfs*14|1|0.26|ENSG00000102401|chrX:101625729-101625729|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.2209777832031 2 474.219454 946.424355 NaN NaN NaN NaN NaN NaN NaN 34.985 1 35.608 35.108 36.108 0.62294 0 0 0 0.049096 1 16032 16032 53.833 28.433 1 31106 68 19873 19935 35013 35013 -0.05099996341050428 SPPAPPSQSLL 11 Unmodified _SPPAPPSQSLL_ 0 0 0 REV__nc|ENSG00000126562|Q96J92-3|WNK4 REV__nc|ENSG00000126562|Q96J92-3|WNK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.1480102539062 2 547.298039 1092.58152 3.8153 0.0020881 -0.43961 -0.0002406 3.3757 0.0018475 547.7992360860422 45.679 0.2546 46.33 46.214 46.468 0.65104 13 8 2 0 0 0 0.82535 1 20894 20894 5.7319 0.97584 1 312350 + 31107 11714 19874 19936 35014 35014 0.0389370826915183 SPPQGPQGL 9 Unmodified _SPPQGPQGL_ 0 0 0 REV__ENSG00000065526|ENST00000375759|SPEN REV__ENSG00000065526|ENST00000375759|SPEN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 440.73138427734375 2 440.729792 879.445031 NaN NaN NaN NaN NaN NaN NaN 25.619 1 26.383 25.883 26.883 0.76356 0 0 0 0.89509 1 11501 11501 4.756 0 1 + 31108 10431 19875 19937 35015 35015 0.00048638829287028784 SPPVSPLI 8 Unmodified _SPPVSPLI_ 0 0 0 REV__ENSG00000172497|ENST00000307624|ACOT12 REV__ENSG00000172497|ENST00000307624|ACOT12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.242919921875 2 405.242004 808.469455 2.9863 0.0012102 0.54043 0.000219 3.5268 0.0014292 405.24287702394247 79.617 0.36995 80.278 79.964 80.334 0.66082 40 26 2 0 0 0 0.74071 1 36591 36591 2.5775 0 1 348940 + 31109 13552 19876 19938 35016 35016 0.05755898982818053 SPQAEQPSL 9 Unmodified _SPQAEQPSL_ 0 0 0 ZC3HC1|p.T372Pfs*7|1|0.26|ENSG00000091732|chr7:130023631-130023631|G/-|frameshift_variant;nc|ENSG00000091732|Q86WB0-3|ZC3HC1;nc|ENSG00000091732|Q86WB0-2|ZC3HC1;ENSG00000091732|ENST00000358303|ZC3HC1 ZC3HC1|p.T372Pfs*7|1|0.26|ENSG00000091732|chr7:130023631-130023631|G/-|frameshift_variant ZC3HC1|p.T372Pfs*7|1|0.26|ENSG00000091732|chr7:130023631-130023631|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.7391662597656 2 478.737814 955.461075 3.0649 0.0014673 -0.08554 -4.0951E-05 2.9794 0.0014263 478.73783648295705 32.548 0.35065 32.548 32.376 32.727 0 46 24 3 0 0 0 0.0079462 1 14740 14740 85.642 35.709 1 507060 31110 1083 19877 19939 35017 35017 -0.018436997244748454 SPQAEQPSL 9 Unmodified _SPQAEQPSL_ 0 0 0 ZC3HC1|p.T372Pfs*7|1|0.26|ENSG00000091732|chr7:130023631-130023631|G/-|frameshift_variant;nc|ENSG00000091732|Q86WB0-3|ZC3HC1;nc|ENSG00000091732|Q86WB0-2|ZC3HC1;ENSG00000091732|ENST00000358303|ZC3HC1 ZC3HC1|p.T372Pfs*7|1|0.26|ENSG00000091732|chr7:130023631-130023631|G/-|frameshift_variant ZC3HC1|p.T372Pfs*7|1|0.26|ENSG00000091732|chr7:130023631-130023631|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.739501953125 2 478.737814 955.461075 NaN NaN NaN NaN NaN NaN NaN 31.725 1 32.513 32.013 33.013 0.78795 0 0 0 0.020959 1 14332 14332 71.922 21.989 1 31111 1083 19877 19939 35018 35018 -0.018436997244748454 SPQAEQPSL 9 Unmodified _SPQAEQPSL_ 0 0 0 ZC3HC1|p.T372Pfs*7|1|0.26|ENSG00000091732|chr7:130023631-130023631|G/-|frameshift_variant;nc|ENSG00000091732|Q86WB0-3|ZC3HC1;nc|ENSG00000091732|Q86WB0-2|ZC3HC1;ENSG00000091732|ENST00000358303|ZC3HC1 ZC3HC1|p.T372Pfs*7|1|0.26|ENSG00000091732|chr7:130023631-130023631|G/-|frameshift_variant ZC3HC1|p.T372Pfs*7|1|0.26|ENSG00000091732|chr7:130023631-130023631|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.73870849609375 2 478.737814 955.461075 3.3216 0.0015902 -0.071042 -3.4011E-05 3.2506 0.0015562 478.73769589398023 32.378 0.25158 32.633 32.576 32.827 0.25452 21 14 2 0 0 0 0.017293 1 14779 14779 71.922 21.989 1 459610 31112 1083 19877 19939 35019 35019 -0.018436997244748454 SPQAEQPSL 9 Unmodified _SPQAEQPSL_ 0 0 0 ZC3HC1|p.T372Pfs*7|1|0.26|ENSG00000091732|chr7:130023631-130023631|G/-|frameshift_variant;nc|ENSG00000091732|Q86WB0-3|ZC3HC1;nc|ENSG00000091732|Q86WB0-2|ZC3HC1;ENSG00000091732|ENST00000358303|ZC3HC1 ZC3HC1|p.T372Pfs*7|1|0.26|ENSG00000091732|chr7:130023631-130023631|G/-|frameshift_variant ZC3HC1|p.T372Pfs*7|1|0.26|ENSG00000091732|chr7:130023631-130023631|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.7392272949219 2 478.737814 955.461075 3.0806 0.0014748 -0.16504 -7.9009E-05 2.9155 0.0013958 478.73788307937843 31.882 0.27831 32.5 32.367 32.646 0.61737 23 14 2 0 0 0 0.017293 2 14597 14597;14667 71.922 21.989 1 309290 31113 1083 19877 19939 35020;35021 35020 -0.018436997244748454 SPQLREAVL 9 Unmodified _SPQLREAVL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3;ENST00000491769.1_1_2:238252944-238263658:-|nuORF nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.7931213378906 2 506.792924 1011.57129 3.0141 0.0015275 -0.24023 -0.00012175 2.7739 0.0014058 506.792742658848 42.06 0.22899 42.06 41.933 42.162 0 19 12 2 0 0 0 0.0053299 1 19145 19145 91.085 29.483 1 2023600 31114 4204 19878 19940 35022 35022 0.06597145334569632 SPQLREAVL 9 Unmodified _SPQLREAVL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3;ENST00000491769.1_1_2:238252944-238263658:-|nuORF nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.7943420410156 2 506.792924 1011.57129 3.0337 0.0015374 -0.17564 -8.9012E-05 2.858 0.0014484 506.7927918999158 41.054 0.20208 41.857 41.831 42.033 0.80351 29 16 2 0 0 0 0.0012877 2 18633 18633;18683 121.35 46.417 1 2110200 31115 4204 19878 19940 35023;35024 35023 0.06597145334569632 SPQLREAVL 9 Unmodified _SPQLREAVL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3;ENST00000491769.1_1_2:238252944-238263658:-|nuORF nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 506.792924 1011.57129 3.4888 0.0017681 -0.49913 -0.00025296 2.9897 0.0015152 506.792536011512 41.791 0.10761 42.061 41.966 42.074 0.27021 0.1069 -0.00030048 NaN 121.35 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 679630 31116 4204 19878 19940 0.06597145334569632 SPQLREAVL 9 Unmodified _SPQLREAVL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3;ENST00000491769.1_1_2:238252944-238263658:-|nuORF nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 506.792924 1011.57129 3.45 0.0017485 -0.11271 -5.7123E-05 3.3373 0.0016913 506.79289344099544 41.194 0.15281 41.839 41.749 41.902 0.64451 -0.11566 9.1188E-05 NaN 121.35 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 1393200 31117 4204 19878 19940 0.06597145334569632 SPRREARRPKG 11 Unmodified _SPRREARRPKG_ 0 0 0 REV__ENST00000392562.5_1_17:73401186-73401555:-|nuORF REV__ENST00000392562.5_1_17:73401186-73401555:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.25848388671875 3 437.256843 1308.7487 3.5065 0.0015332 1.0013 0.00043783 4.5078 0.0019711 437.25716686113356 93.875 1.2314 94.13 93.353 94.585 0.25497 162 59 4 0 0 0 0.91328 1 43235 43235 0.50596 0.051438 1 1485300 + 31118 15931 19879 19941 35025 35025 0.10667413657233737 SPSGDYVV 8 Unmodified _SPSGDYVV_ 0 0 0 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 823.3858032226562 1 823.383225 822.375948 3.809 0.0031362 -0.12631 -0.000104 3.6827 0.0030322 823.3833407399127 37.503 0.34544 37.503 37.322 37.667 0 20 12 2 0 0 0 0.013019 2 17003 17003;17051 93.883 37.342 1 834000 31119 683 19880 19942 35026;35027 35026 -0.042344451902749825 SPSGDYVV 8 Unmodified _SPSGDYVV_ 0 0 0 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 823.38671875 1 823.383225 822.375948 3.6654 0.003018 0.28358 0.00023349 3.9489 0.0032515 823.3833740432567 36.566 0.35595 37.359 37.149 37.505 0.79342 31 17 2 0 0 0 0.013019 3 16566 16517;16566;16613 93.883 37.342 1 732600 31120 683 19880 19942 35028;35029;35030 35029 -0.042344451902749825 SPSGDYVV 8 Unmodified _SPSGDYVV_ 0 0 0 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 823.3880615234375 1 823.383225 822.375948 4.0344 0.0033219 0.48587 0.00040005 4.5203 0.0037219 823.3834867890773 37.374 0.34203 37.635 37.447 37.789 0.26083 16 10 2 0 0 0 0.056325 1 17014 17014 63.563 16.642 1 474330 31121 683 19880 19942 35031 35031 -0.042344451902749825 SPSGDYVV 8 Unmodified _SPSGDYVV_ 0 0 0 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 ENSG00000065183|ENST00000349139|WDR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 823.385986328125 1 823.383225 822.375948 4.0016 0.0032949 0.32801 0.00027008 4.3296 0.0035649 823.3832353753706 36.816 0.33245 37.446 37.266 37.598 0.62999 24 13 2 0 0 0 0.077224 3 16857 16806;16857;16906 56.541 22.247 1 381680 31122 683 19880 19942 35032;35033;35034 35033 -0.042344451902749825 SPSLERPLQRR 11 Unmodified _SPSLERPLQRR_ 0 0 0 ENST00000569492.1_1_16:35037299-35037500:-|nuORF ENST00000569492.1_1_16:35037299-35037500:-|nuORF ENST00000569492.1_1_16:35037299-35037500:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 669.7153930664062 2 669.883667 1337.75278 NaN NaN NaN NaN NaN NaN NaN 107.36 1 107.96 107.46 108.46 0.6019 0 0 0 1.0072 1 49551 49551 1.3295 0 1 31123 9076 19881 19943 35035 35035 0.09741458360304023 SPSMIHLM 8 Unmodified _SPSMIHLM_ 0 0 0 ENST00000373696.7_1_X:70823497-70824427:+|nuORF ENST00000373696.7_1_X:70823497-70824427:+|nuORF ENST00000373696.7_1_X:70823497-70824427:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 458.2217102050781 2 458.224974 914.435394 2.8772 0.0013184 -2.5044 -0.0011476 0.37276 0.00017081 458.223692842146 19.918 0.49594 19.918 19.729 20.225 0 106 44 3 0 0 0 0.42655 1 8849 8849 26.341 0.94196 1 1756600 31124 7367 19882 19944 35036 35036 -0.025245887720870996 SPSPMDPHM 9 Unmodified _SPSPMDPHM_ 0 0 0 nc|ENSG00000101224|P30305-3|CDC25B;nc|ENSG00000101224|P30305-2|CDC25B;ENSG00000101224|ENST00000245960|CDC25B;nc|ENSG00000101224|P30305-4|CDC25B nc|ENSG00000101224|P30305-3|CDC25B nc|ENSG00000101224|P30305-3|CDC25B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.70977783203125 2 499.707145 997.399737 3.5661 0.001782 0.53942 0.00026955 4.1055 0.0020515 499.70735734458873 32.181 0.26756 32.436 32.191 32.459 0.25452 25 15 2 0 0 0 0.079031 1 14598 14598 37.974 23.136 1 358370 31125 1275 19883 19945 35037 35037 -0.09906671019757596 SPSPMDPHM 9 Unmodified _SPSPMDPHM_ 0 0 0 nc|ENSG00000101224|P30305-3|CDC25B;nc|ENSG00000101224|P30305-2|CDC25B;ENSG00000101224|ENST00000245960|CDC25B;nc|ENSG00000101224|P30305-4|CDC25B nc|ENSG00000101224|P30305-3|CDC25B nc|ENSG00000101224|P30305-3|CDC25B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.7088928222656 2 499.707145 997.399737 3.2176 0.0016078 0.68205 0.00034082 3.8996 0.0019487 499.70730752438527 31.542 0.256 32.16 32.005 32.261 0.61737 30 18 2 0 0 0 0.071101 1 14434 14434 39.957 16.809 1 325360 31126 1275 19883 19945 35038 35038 -0.09906671019757596 SPSPSDPVL 9 Unmodified _SPSPSDPVL_ 0 0 0 ENST00000486146.2_1_2:231068050-231077551:-|nuORF;nc|ENSG00000135899|Q9HB58-5|SP110;nc|ENSG00000135899|Q9HB58-3|SP110;nc|ENSG00000135899|Q9HB58-7|SP110;nc|ENSG00000135899|Q9HB58|SP110;ENSG00000135899|ENST00000258381|SP110 ENST00000486146.2_1_2:231068050-231077551:-|nuORF ENST00000486146.2_1_2:231068050-231077551:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 898.4555053710938 1 898.451639 897.444362 3.7562 0.0033748 0.51679 0.00046431 4.273 0.0038391 898.4524666788334 44.803 0.39792 45.071 44.857 45.255 0.26768 30 21 2 0 0 0 0.0010612 2 20459 20459;20530 125.62 47.64 1 1089600 31127 2905 19884 19946 35039;35040 35039 -0.008462006104196007 SPSPSDPVL 9 Unmodified _SPSPSDPVL_ 0 0 0 ENST00000486146.2_1_2:231068050-231077551:-|nuORF;nc|ENSG00000135899|Q9HB58-5|SP110;nc|ENSG00000135899|Q9HB58-3|SP110;nc|ENSG00000135899|Q9HB58-7|SP110;nc|ENSG00000135899|Q9HB58|SP110;ENSG00000135899|ENST00000258381|SP110 ENST00000486146.2_1_2:231068050-231077551:-|nuORF ENST00000486146.2_1_2:231068050-231077551:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 449.7299499511719 2 449.729458 897.444362 2.6621 0.0011972 -0.70999 -0.0003193 1.9521 0.00087792 449.728809923014 44.826 0.45654 45.094 44.799 45.255 0.26768 40 23 2 0 0 0 0.023109 1 20476 20476 64.236 6.765 1 1122100 31128 2905 19884 19946 35041 35041 -0.008462006104196007 SPSPSDPVL 9 Unmodified _SPSPSDPVL_ 0 0 0 ENST00000486146.2_1_2:231068050-231077551:-|nuORF;nc|ENSG00000135899|Q9HB58-5|SP110;nc|ENSG00000135899|Q9HB58-3|SP110;nc|ENSG00000135899|Q9HB58-7|SP110;nc|ENSG00000135899|Q9HB58|SP110;ENSG00000135899|ENST00000258381|SP110 ENST00000486146.2_1_2:231068050-231077551:-|nuORF ENST00000486146.2_1_2:231068050-231077551:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 449.7307434082031 2 449.729458 897.444362 3.238 0.0014562 -0.58598 -0.00026353 2.652 0.0011927 449.72907733766755 44.22 0.3173 44.87 44.775 45.092 0.64998 27 16 2 0 0 0 0.032303 2 20263 20263;20317 54.774 14.816 1 632380 31129 2905 19884 19946 35042;35043 35042 -0.008462006104196007 SPSPSDPVL 9 Unmodified _SPSPSDPVL_ 0 0 0 ENST00000486146.2_1_2:231068050-231077551:-|nuORF;nc|ENSG00000135899|Q9HB58-5|SP110;nc|ENSG00000135899|Q9HB58-3|SP110;nc|ENSG00000135899|Q9HB58-7|SP110;nc|ENSG00000135899|Q9HB58|SP110;ENSG00000135899|ENST00000258381|SP110 ENST00000486146.2_1_2:231068050-231077551:-|nuORF ENST00000486146.2_1_2:231068050-231077551:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 898.4541015625 1 898.451639 897.444362 4.0728 0.0036592 0.074476 6.6913E-05 4.1473 0.0037261 898.4516464211629 44.264 0.3981 44.914 44.725 45.123 0.64998 31 19 2 0 0 0 3.957E-14 2 20287 20287;20345 171.47 74.392 1 1082100 31130 2905 19884 19946 35044;35045 35044 -0.008462006104196007 SPSVHPIASL 10 Unmodified _SPSVHPIASL_ 0 0 0 REV__ENST00000481918.1_1_1:213186664-213188729:-|nuORF REV__ENST00000481918.1_1_1:213186664-213188729:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.28131103515625 2 504.279649 1006.54475 3.1006 0.0015636 0.087676 4.4213E-05 3.1883 0.0016078 504.27963254186733 48.579 1.2147 48.579 47.903 49.118 0 126 69 2 0 0 0 0.16336 1 22401 22401 43.858 3.9086 1 4189700 + 31131 16709 19885 19947 35046 35046 0.04173456443231771 SPSYPEISF 9 Unmodified _SPSYPEISF_ 0 0 0 ENST00000463409.6_1_10:22605382-22615407:+|nuORF;ENSG00000148444|ENST00000376836|COMMD3;ENST00000602395.1_1_10:22607528-22615407:+|nuORF;ENST00000496071.5_1_10:22607528-22608924:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.7452392578125 2 513.742565 1025.47058 3.2527 0.001671 0.15854 8.1451E-05 3.4112 0.0017525 513.742109661318 70.549 0.26182 70.806 70.716 70.977 0.25642 16 14 2 0 0 0 0.16976 1 32330 32330 25.399 11.891 1 426220 31132 3606 19886 19948 35047 35047 -0.0411393143897385 SPSYPEISF 9 Unmodified _SPSYPEISF_ 0 0 0 ENST00000463409.6_1_10:22605382-22615407:+|nuORF;ENSG00000148444|ENST00000376836|COMMD3;ENST00000602395.1_1_10:22607528-22615407:+|nuORF;ENST00000496071.5_1_10:22607528-22608924:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF ENST00000463409.6_1_10:22605382-22615407:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 513.742565 1025.47058 3.0101 0.0015464 0.21112 0.00010846 3.2212 0.0016549 513.7427269946386 70.049 0.29568 70.71 70.577 70.873 0.66072 -0.047897 1.3843E-05 NaN 25.399 27 18 2 NaN NaN NaN NaN 0 NaN NaN 0 469000 31133 3606 19886 19948 -0.0411393143897385 SPTAYCDCWEK 11 Unmodified _SPTAYCDCWEK_ 0 0 0 nc|ENSG00000104517|O95071-2|UBR5;ENSG00000104517|ENST00000520539|UBR5 nc|ENSG00000104517|O95071-2|UBR5 nc|ENSG00000104517|O95071-2|UBR5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 651.7605590820312 2 651.760106 1301.50566 3.7363 0.0024352 -3.0622 -0.0019958 0.67409 0.00043935 651.7583682795492 34.958 0.03302 35.214 35.196 35.229 0.25524 4 2 2 0 0 0 0.88075 1 15935 15935 3.2813 0.28607 1 1430900 31134 1442 19887 19949 35048 35048 -0.13303379964986561 SPTAYCDCWEK 11 Unmodified _SPTAYCDCWEK_ 0 0 0 nc|ENSG00000104517|O95071-2|UBR5;ENSG00000104517|ENST00000520539|UBR5 nc|ENSG00000104517|O95071-2|UBR5 nc|ENSG00000104517|O95071-2|UBR5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 651.760106 1301.50566 3.9139 0.0025509 -2.9481 -0.0019215 0.9658 0.00062947 651.758291986868 34.673 0.25903 35.296 35.085 35.344 0.62294 0.041352 7.5539E-05 NaN 3.2813 14 13 2 NaN NaN NaN NaN 0 NaN NaN 0 1470000 31135 1442 19887 19949 -0.13303379964986561 SPTDSDVSL 9 Unmodified _SPTDSDVSL_ 0 0 0 ENSG00000171992|ENST00000307662|SYNPO ENSG00000171992|ENST00000307662|SYNPO ENSG00000171992|ENST00000307662|SYNPO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 920.4266967773438 1 920.420733 919.413456 3.7933 0.0034915 -0.26183 -0.000241 3.5315 0.0032505 920.4206505704528 39.382 0.23712 39.382 39.255 39.492 0 20 8 3 0 0 0 0.010221 2 17838 17838;17888 81.613 29.345 1 769470 31136 4850 19888 19950 35049;35050 35049 -0.049473987153191956 SPTDSDVSL 9 Unmodified _SPTDSDVSL_ 0 0 0 ENSG00000171992|ENST00000307662|SYNPO ENSG00000171992|ENST00000307662|SYNPO ENSG00000171992|ENST00000307662|SYNPO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 460.7153625488281 2 460.714005 919.413456 2.7965 0.0012884 0.47051 0.00021677 3.267 0.0015051 460.714305857996 39.368 0.2896 39.368 39.203 39.492 0 22 10 3 0 0 0 0.023109 1 17893 17893 64.236 26.262 1 1051500 31137 4850 19888 19950 35051 35051 -0.049473987153191956 SPTDSDVSL 9 Unmodified _SPTDSDVSL_ 0 0 0 ENSG00000171992|ENST00000307662|SYNPO ENSG00000171992|ENST00000307662|SYNPO ENSG00000171992|ENST00000307662|SYNPO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 920.4232788085938 1 920.420733 919.413456 3.6029 0.0033162 -0.25309 -0.00023295 3.3498 0.0030833 920.4201234281317 38.407 0.23109 39.205 39.089 39.32 0.79762 18 10 2 0 0 0 0.010221 2 17392 17392;17445 81.613 34.323 1 869590 31138 4850 19888 19950 35052;35053 35052 -0.049473987153191956 SPTDSDVSL 9 Unmodified _SPTDSDVSL_ 0 0 0 ENSG00000171992|ENST00000307662|SYNPO ENSG00000171992|ENST00000307662|SYNPO ENSG00000171992|ENST00000307662|SYNPO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 460.71588134765625 2 460.714005 919.413456 2.7728 0.0012775 0.37159 0.0001712 3.1444 0.0014487 460.714217216241 38.41 0.36375 39.207 39.034 39.398 0.79762 32 16 3 0 0 0 0.041436 1 17438 17438 50.855 8.7605 1 1418000 31139 4850 19888 19950 35054 35054 -0.049473987153191956 SPTDSDVSL 9 Unmodified _SPTDSDVSL_ 0 0 0 ENSG00000171992|ENST00000307662|SYNPO ENSG00000171992|ENST00000307662|SYNPO ENSG00000171992|ENST00000307662|SYNPO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 920.4235229492188 1 920.420733 919.413456 3.7348 0.0034376 0.35801 0.00032952 4.0928 0.0037671 920.4205973222928 39.068 0.33273 39.332 39.144 39.477 0.26408 23 14 2 0 0 0 0.010221 2 17766 17766;17808 81.613 20.256 1 916600 31140 4850 19888 19950 35055;35056 35055 -0.049473987153191956 SPTDSDVSL 9 Unmodified _SPTDSDVSL_ 0 0 0 ENSG00000171992|ENST00000307662|SYNPO ENSG00000171992|ENST00000307662|SYNPO ENSG00000171992|ENST00000307662|SYNPO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 460.71551513671875 2 460.714005 919.413456 2.6386 0.0012156 0.58515 0.00026958 3.2237 0.0014852 460.7141893812231 39.043 0.3655 39.307 39.144 39.51 0.26408 34 15 3 0 0 0 0.010221 1 17794 17794 81.613 26.84 1 1874700 31141 4850 19888 19950 35057 35057 -0.049473987153191956 SPTDSDVSL 9 Unmodified _SPTDSDVSL_ 0 0 0 ENSG00000171992|ENST00000307662|SYNPO ENSG00000171992|ENST00000307662|SYNPO ENSG00000171992|ENST00000307662|SYNPO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 920.42529296875 1 920.420733 919.413456 3.8385 0.003533 -0.12305 -0.00011326 3.7154 0.0034198 920.4208151264108 38.686 0.32477 39.324 39.13 39.455 0.63778 26 11 3 0 0 0 0.023109 2 17649 17649;17719 64.236 26.262 1 838090 31142 4850 19888 19950 35058;35059 35058 -0.049473987153191956 SPTDSDVSL 9 Unmodified _SPTDSDVSL_ 0 0 0 ENSG00000171992|ENST00000307662|SYNPO ENSG00000171992|ENST00000307662|SYNPO ENSG00000171992|ENST00000307662|SYNPO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 460.71551513671875 2 460.714005 919.413456 2.8425 0.0013096 0.48652 0.00022415 3.329 0.0015337 460.71425127753605 38.726 0.40164 39.364 39.102 39.503 0.63778 30 14 3 0 0 0 0.023109 1 17678 17678 64.236 22.142 1 892070 31143 4850 19888 19950 35060 35060 -0.049473987153191956 SPTKGLYLS 9 Unmodified _SPTKGLYLS_ 0 0 0 nc|ENSG00000206072|Q96P15-3|SERPINB11;nc|ENSG00000206072|Q96P15-2|SERPINB11;ENSG00000206072|ENST00000544088|SERPINB11 nc|ENSG00000206072|Q96P15-3|SERPINB11 nc|ENSG00000206072|Q96P15-3|SERPINB11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.514892578125 3 322.514925 964.522947 1.5296 0.00049333 -1.1028 -0.00035566 0.42685 0.00013767 322.5145593629148 1.4623 0.65912 1.7664 1.3084 1.9675 0.30411 120 53 4 0 0 0 0.94779 1 697 697 4.897 0 1 499940 31144 6067 19889 19951 35061 35061 0.039266516946554475 SPTKLDVTL 9 Unmodified _SPTKLDVTL_ 0 0 0 nc|ENSG00000047849|P27816-2|MAP4;nc|ENSG00000047849|P27816-6|MAP4;nc|ENSG00000047849|P27816|MAP4;ENSG00000047849|ENST00000683076|MAP4;nc|ENSG00000047849|P27816-5|MAP4 nc|ENSG00000047849|P27816-2|MAP4 nc|ENSG00000047849|P27816-2|MAP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.2840270996094 2 487.281857 972.549162 3.2112 0.0015648 -0.15792 -7.6953E-05 3.0533 0.0014878 487.28166033504493 49.117 0.2576 49.117 48.966 49.224 0 24 13 2 0 0 0 0.0071692 2 22474 22474;22530 87.258 12.329 1 1148700 31145 562 19890 19952 35062;35063 35062 0.06178920866148019 SPTKLDVTL 9 Unmodified _SPTKLDVTL_ 0 0 0 nc|ENSG00000047849|P27816-2|MAP4;nc|ENSG00000047849|P27816-6|MAP4;nc|ENSG00000047849|P27816|MAP4;ENSG00000047849|ENST00000683076|MAP4;nc|ENSG00000047849|P27816-5|MAP4 nc|ENSG00000047849|P27816-2|MAP4 nc|ENSG00000047849|P27816-2|MAP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.28314208984375 2 487.281857 972.549162 3.1587 0.0015392 -0.18714 -9.1189E-05 2.9715 0.001448 487.28164957225715 48.076 0.29217 48.905 48.735 49.027 0.82915 32 13 3 0 0 0 0.012813 2 21875 21875;21930 78.06 21.883 1 883050 31146 562 19890 19952 35064;35065 35064 0.06178920866148019 SPTKLDVTL 9 Unmodified _SPTKLDVTL_ 0 0 0 nc|ENSG00000047849|P27816-2|MAP4;nc|ENSG00000047849|P27816-6|MAP4;nc|ENSG00000047849|P27816|MAP4;ENSG00000047849|ENST00000683076|MAP4;nc|ENSG00000047849|P27816-5|MAP4 nc|ENSG00000047849|P27816-2|MAP4 nc|ENSG00000047849|P27816-2|MAP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.2846984863281 2 487.281857 972.549162 3.3254 0.0016204 0.55921 0.00027249 3.8846 0.0018929 487.28215715710866 48.336 0.2394 48.99 48.844 49.083 0.65356 16 9 2 0 0 0 0.010904 1 22108 22108 80.676 20.602 1 429700 31147 562 19890 19952 35066 35066 0.06178920866148019 SPTWEGHVL 9 Unmodified _SPTWEGHVL_ 0 0 0 nc|ENSG00000115325|Q99704-2|DOK1 nc|ENSG00000115325|Q99704-2|DOK1 nc|ENSG00000115325|Q99704-2|DOK1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.2885131835938 2 513.256174 1024.49779 3.4867 0.0017896 -1.4413 -0.00073977 2.0454 0.0010498 513.2561816172234 49.233 0.13436 49.494 49.427 49.562 0.26146 6 4 2 0 0 0 0.067591 1 22494 22494 25.399 8.457 1 175890 31148 9605 19891 19953 35067 35067 -0.013474031079113047 SPVAKDVDL 9 Unmodified _SPVAKDVDL_ 0 0 0 ENSG00000165280|ENST00000358901|VCP;ENST00000493886.5_1_9:35057116-35062147:-|nuORF ENSG00000165280|ENST00000358901|VCP ENSG00000165280|ENST00000358901|VCP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.2601623535156 2 472.258382 942.502212 2.5463 0.0012025 0.49638 0.00023442 3.0426 0.0014369 472.2589776152151 33.102 0.1222 33.89 33.852 33.974 0.78795 13 8 2 0 0 0 0.17594 1 14981 14981 24.991 6.8446 1 214440 31149 4385 19892 19954 35068 35068 0.028660613149895653 SPVAKDVDL 9 Unmodified _SPVAKDVDL_ 0 0 0 ENSG00000165280|ENST00000358901|VCP;ENST00000493886.5_1_9:35057116-35062147:-|nuORF ENSG00000165280|ENST00000358901|VCP ENSG00000165280|ENST00000358901|VCP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.25958251953125 2 472.258382 942.502212 2.8508 0.0013463 1.5864 0.0007492 4.4372 0.0020955 472.25834205398536 33.349 0.21243 33.969 33.84 34.052 0.62031 13 9 2 0 0 0 0.17594 1 15270 15270 24.991 2.2547 1 188480 31150 4385 19892 19954 35069 35069 0.028660613149895653 SPVEHHPAD 9 Unmodified _SPVEHHPAD_ 0 0 0 nc|ENSG00000170579|O14490-7|DLGAP1;ENSG00000170579|ENST00000315677|DLGAP1 nc|ENSG00000170579|O14490-7|DLGAP1 nc|ENSG00000170579|O14490-7|DLGAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.72979736328125 2 494.727781 987.441008 3.2921 0.0016287 -0.11598 -5.7379E-05 3.1761 0.0015713 494.7277143874092 18.532 0.3652 19.192 19.112 19.478 0.66072 92 39 3 0 0 0 0.29781 1 8501 8501 16.942 4.4107 1 4736000 31151 4758 19893 19955 35070 35070 -0.053214506644280846 SPVGLHFL 8 Unmodified _SPVGLHFL_ 0 0 0 ENSG00000167191|ENST00000300571|GPRC5B;nc|ENSG00000167191|Q9NZH0-2|GPRC5B ENSG00000167191|ENST00000300571|GPRC5B ENSG00000167191|ENST00000300571|GPRC5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 435.24853515625 2 435.247621 868.480688 2.7478 0.001196 -0.54924 -0.00023905 2.1986 0.00095692 435.24724804249695 55.666 0.39323 55.932 55.907 56.301 0.26543 27 19 2 0 0 0 0.73686 1 25497 25497 2.8892 0.31174 1 1101500 31152 4536 19894 19956 35071 35071 0.04118721076940801 SPVPHSLSVL 10 Unmodified _SPVPHSLSVL_ 0 0 0 REV__ENST00000512805.5_1_5:180670799-180670976:-|nuORF REV__ENST00000512805.5_1_5:180670799-180670976:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.2969970703125 2 518.295299 1034.57605 3.3826 0.0017532 -0.86598 -0.00044883 2.5166 0.0013044 518.2953343625495 51.46 0.33129 51.46 51.266 51.598 0 35 16 3 0 0 0 0.55057 1 23522 23522 19.257 4.0085 1 997590 + 31153 16985 19895 19957 35072 35072 0.060140294773418645 SPVTQEPEL 9 Unmodified _SPVTQEPEL_ 0 0 0 nc|ENSG00000143442|Q7Z3K3-5|POGZ;nc|ENSG00000143442|Q7Z3K3-7|POGZ;nc|ENSG00000143442|Q7Z3K3-2|POGZ;nc|ENSG00000143442|Q7Z3K3-3|POGZ;nc|ENSG00000143442|Q7Z3K3-6|POGZ;ENSG00000143442|ENST00000271715|POGZ nc|ENSG00000143442|Q7Z3K3-5|POGZ nc|ENSG00000143442|Q7Z3K3-5|POGZ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.255126953125 2 500.253297 998.492041 2.9861 0.0014938 0.67932 0.00033983 3.6654 0.0018336 500.25361978105013 44.91 0.48072 44.91 44.692 45.172 0 58 24 4 0 0 0 0.00055091 2 20499 20499;20556 131.27 72.589 1 4477400 31154 3369 19896 19958 35073;35074 35073 -0.007265464102374608 SPVTQEPEL 9 Unmodified _SPVTQEPEL_ 0 0 0 nc|ENSG00000143442|Q7Z3K3-5|POGZ;nc|ENSG00000143442|Q7Z3K3-7|POGZ;nc|ENSG00000143442|Q7Z3K3-2|POGZ;nc|ENSG00000143442|Q7Z3K3-3|POGZ;nc|ENSG00000143442|Q7Z3K3-6|POGZ;ENSG00000143442|ENST00000271715|POGZ nc|ENSG00000143442|Q7Z3K3-5|POGZ nc|ENSG00000143442|Q7Z3K3-5|POGZ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.25567626953125 2 500.253297 998.492041 2.9335 0.0014675 0.82622 0.00041332 3.7598 0.0018808 500.25368749328874 43.933 0.59608 44.753 44.489 45.085 0.82074 105 38 3 0 0 0 1.8233E-05 5 20046 19914;19958;20005;20046;20105 144.35 69.91 1 6247700 31155 3369 19896 19958 35075;35076;35077;35078;35079 35078 -0.007265464102374608 SPVTQEPEL 9 Unmodified _SPVTQEPEL_ 0 0 0 nc|ENSG00000143442|Q7Z3K3-5|POGZ;nc|ENSG00000143442|Q7Z3K3-7|POGZ;nc|ENSG00000143442|Q7Z3K3-2|POGZ;nc|ENSG00000143442|Q7Z3K3-3|POGZ;nc|ENSG00000143442|Q7Z3K3-6|POGZ;ENSG00000143442|ENST00000271715|POGZ nc|ENSG00000143442|Q7Z3K3-5|POGZ nc|ENSG00000143442|Q7Z3K3-5|POGZ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.25506591796875 2 500.253297 998.492041 3.0515 0.0015265 0.91005 0.00045525 3.9616 0.0019818 500.25371357295387 44.731 0.58805 44.999 44.73 45.318 0.26768 73 28 3 0 0 0 6.8656E-09 4 20440 20394;20440;20489;20535 158.2 87.069 1 5815700 31156 3369 19896 19958 35080;35081;35082;35083 35081 -0.007265464102374608 SPVTQEPEL 9 Unmodified _SPVTQEPEL_ 0 0 0 nc|ENSG00000143442|Q7Z3K3-5|POGZ;nc|ENSG00000143442|Q7Z3K3-7|POGZ;nc|ENSG00000143442|Q7Z3K3-2|POGZ;nc|ENSG00000143442|Q7Z3K3-3|POGZ;nc|ENSG00000143442|Q7Z3K3-6|POGZ;ENSG00000143442|ENST00000271715|POGZ nc|ENSG00000143442|Q7Z3K3-5|POGZ nc|ENSG00000143442|Q7Z3K3-5|POGZ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.25543212890625 2 500.253297 998.492041 NaN NaN NaN NaN NaN NaN NaN 44.501 1 45.151 44.651 45.651 0.64998 0 0 0 0.65681 1 20399 20399 13.906 3.8321 1 31157 3369 19896 19958 35084 35084 -0.007265464102374608 SPVTRPGR 8 Unmodified _SPVTRPGR_ 0 0 0 REV__ENST00000232375.7_1_3:48573059-48573767:-|nuORF REV__ENST00000232375.7_1_3:48573059-48573767:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 435.2530517578125 2 435.251226 868.487899 3.0834 0.0013421 0.22948 9.9881E-05 3.3129 0.0014419 435.2512687995472 87.205 0.41972 87.455 87.222 87.642 0.24974 46 20 3 0 0 0 0.74709 2 40083 40083;40137 2.0598 0 1 2336900 + 31158 14859 19897 19959 35085;35086 35085 0.04839453677379879 SPVTRPGR 8 Unmodified _SPVTRPGR_ 0 0 0 REV__ENST00000232375.7_1_3:48573059-48573767:-|nuORF REV__ENST00000232375.7_1_3:48573059-48573767:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.2524719238281 2 435.251226 868.487899 3.2092 0.0013968 -0.55354 -0.00024093 2.6556 0.0011559 435.25100724489363 85.978 0.27805 86.648 86.513 86.791 0.67061 32 20 2 0 0 0 0.74709 1 39608 39608 2.0598 0 1 445040 + 31159 14859 19897 19959 35087 35087 0.04839453677379879 SPWCSCYWYWW 11 Unmodified _SPWCSCYWYWW_ 0 0 0 REV__ENST00000359165.5_1_12:19609713-19609968:-|nuORF REV__ENST00000359165.5_1_12:19609713-19609968:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 783.80322265625 2 783.802108 1565.58966 NaN NaN NaN NaN NaN NaN NaN 56.855 1 57.119 56.619 57.619 0.26444 0 0 0 1.008 1 26015 26015 0.30703 0.30703 1 + 31160 15591 19898 19960 35088 35088 -0.17050804077393877 SPWTLRCPPL 10 Unmodified _SPWTLRCPPL_ 0 0 0 REV__ENST00000489256.5_1_2:242051902-242052094:-|nuORF REV__ENST00000489256.5_1_2:242051902-242052094:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.21142578125 2 585.310426 1168.6063 NaN NaN NaN NaN NaN NaN NaN 58.039 1 58.039 57.539 58.539 0 0 0 0 0.96627 1 26768 26768 10.824 4.6181 1 + 31161 16789 19899 19961 35089 35089 0.028740648708662775 SPYIRTKL 8 Unmodified _SPYIRTKL_ 0 0 0 ENSG00000261609|ENST00000648994|GAN ENSG00000261609|ENST00000648994|GAN ENSG00000261609|ENST00000648994|GAN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 326.5316162109375 3 326.530798 976.570566 NaN NaN NaN NaN NaN NaN NaN 27.455 1 27.717 27.217 28.217 0.26245 0 0 0 0.50246 1 12482 12482 29.082 8.667 1 31162 6312 19900 19962 35090 35090 0.08134350685497793 SPYIRTKL 8 Unmodified _SPYIRTKL_ 0 0 0 ENSG00000261609|ENST00000648994|GAN ENSG00000261609|ENST00000648994|GAN ENSG00000261609|ENST00000648994|GAN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.2938537597656 2 489.292559 976.570566 NaN NaN NaN NaN NaN NaN NaN 27.481 1 27.743 27.243 28.243 0.26245 0 0 0 0.69067 1 12494 12494 22.736 12.662 1 31163 6312 19900 19962 35091 35091 0.08134350685497793 SPYPPLISPR 10 Unmodified _SPYPPLISPR_ 0 0 0 REV__ENSG00000089558|ENST00000264661|KCNH4 REV__ENSG00000089558|ENST00000264661|KCNH4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.2145080566406 3 376.213358 1125.61824 2.6517 0.00099762 0.73861 0.00027788 3.3904 0.0012755 376.213603144372 56.018 0.6312 56.283 55.937 56.568 0.26543 86 26 4 0 0 0 0.90778 1 25663 25663 3.3196 0.24738 1 3026000 + 31164 10700 19901 19963 35092 35092 0.060460048857066795 SQAAMPHPE 9 Unmodified _SQAAMPHPE_ 0 0 0 ENSG00000196663|ENST00000359520|TECPR2;ENST00000559124.1_1_14:102963896-102964591:+|nuORF ENSG00000196663|ENST00000359520|TECPR2 ENSG00000196663|ENST00000359520|TECPR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 323.14837646484375 3 323.148248 966.422915 NaN NaN NaN NaN NaN NaN NaN 47.125 1 47.955 47.455 48.455 0.82915 0 0 0 0.91099 1 21469 21469 0.86438 0.087843 1 31165 5766 19902 19964 35093 35093 -0.06163908910787086 SQASRKDICL 10 Unmodified _SQASRKDICL_ 0 0 0 nc|ENSG00000140993|Q6NT04-2|TIGD7;ENSG00000140993|ENST00000396862|TIGD7 nc|ENSG00000140993|Q6NT04-2|TIGD7 nc|ENSG00000140993|Q6NT04-2|TIGD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 373.86260986328125 3 374.197491 1119.57064 2.6411 0.0009883 0.14826 5.5479E-05 2.7894 0.0010438 374.1975336516567 31.837 0.32189 32.454 32.345 32.667 0.61737 34 16 3 0 0 0 0.84738 1 14655 14655 6.1918 0.46 1 1027200 31166 3227 19903 19965 35094 35094 0.015639826232018095 SQCCSACSH 9 Unmodified _SQCCSACSH_ 0 0 0 nc|ENSG00000183283|Q15038-5|DAZAP2 nc|ENSG00000183283|Q15038-5|DAZAP2 nc|ENSG00000183283|Q15038-5|DAZAP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 925.3777465820312 1 925.296083 924.288807 3.4047 0.0031504 0.86411 0.00079956 4.2688 0.0039499 925.29736644213 17.767 0.15436 17.968 17.911 18.065 0.20057 15 13 2 0 0 0 0.10694 1 7870 7870 7.2892 7.2892 1 1558400 31167 9779 19904 19966 35095 35095 -0.17636633999507012 SQDMLDYFDF 10 Unmodified _SQDMLDYFDF_ 0 0 0 CON__P50448 CON__P50448 CON__P50448 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 640.760986328125 2 640.760629 1279.5067 NaN NaN NaN NaN NaN NaN NaN 99.821 1 99.821 99.321 100.32 0 0 0 0 0.94673 1 54980 54980 13.906 1.6654 1 + 31168 222 19905 19967 35096 35096 -0.1218684232439955 SQDYNNEDE 9 Unmodified _SQDYNNEDE_ 0 0 0 nc|ENSG00000031003|Q9NYF5-3|FAM13B;nc|ENSG00000031003|Q9NYF5-2|FAM13B;nc|ENSG00000031003|Q9NYF5|FAM13B;ENSG00000031003|ENST00000689681|FAM13B;FAM13B|p.T763Vfs*28|1|0.04|ENSG00000031003|chr5:137943205-137943206|-/ATATGTTGAAAACTGCAGTACA|frameshift_variant nc|ENSG00000031003|Q9NYF5-3|FAM13B nc|ENSG00000031003|Q9NYF5-3|FAM13B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.9475708007812 2 557.20199 1112.38943 NaN NaN NaN NaN NaN NaN NaN 50.211 1 50.211 49.711 50.711 0 0 0 0 0.90847 1 22988 22988 1.4819 0.68827 1 31169 494 19906 19968 35097 35097 -0.16227283939656445 SQEELQDW 8 Unmodified _SQEELQDW_ 0 0 0 ENSG00000124181|ENST00000685551|PLCG1;nc|ENSG00000124181|P19174|PLCG1;ENST00000477870.5_1_20:39796371-39799023:+|nuORF ENSG00000124181|ENST00000685551|PLCG1 ENSG00000124181|ENST00000685551|PLCG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.4859619140625 3 345.485695 1033.43525 NaN NaN NaN NaN NaN NaN NaN 35.485 1 35.74 35.24 36.24 0.25524 0 0 0 0.99035 1 16166 16166 1.4819 0 1 31170 2345 19907 19969 35098 35098 -0.08012593966759596 SQGGSSSGGGG 11 Unmodified _SQGGSSSGGGG_ 0 0 0 REV__nc|ENSG00000005379|O95153-2|TSPOAP1 REV__nc|ENSG00000005379|O95153-2|TSPOAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 837.336181640625 1 837.333315 836.326038 4.7244 0.0039559 0.4713 0.00039463 5.1957 0.0043505 837.3334505837895 102.56 0.15382 102.88 102.81 102.96 0.31737 9 4 3 0 0 0 0.91489 1 47443 47443 0 0 1 13775000 + 31171 10180 19908 19970 35099 35099 -0.09867179866205333 SQHFRRAR 8 Unmodified _SQHFRRAR_ 0 0 0 AluSx_dup53403|chr9:19118729-19118992:-|1.083222306755762|0.4486538563620115|1.27|521.0|6|2|sense AluSx_dup53403|chr9:19118729-19118992:-|1.083222306755762|0.4486538563620115|1.27|521.0|6|2|sense AluSx_dup53403|chr9:19118729-19118992:-|1.083222306755762|0.4486538563620115|1.27|521.0|6|2|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 353.2086181640625 3 353.196924 1056.56894 2.5547 0.0009023 1.7525 0.00061899 4.3072 0.0015213 353.1971982600077 61.842 0.78745 62.094 61.384 62.171 0.25245 66 40 2 0 0 0 0.1426 1 28192 28192 0.30703 0 1 1213300 31172 44 19909 19971 35100 35100 0.04292154440122431 SQHKIIHV 8 Unmodified _SQHKIIHV_ 0 0 0 ENST00000429248.1_1_7:56706781-56707144:-|nuORF ENST00000429248.1_1_7:56706781-56707144:-|nuORF ENST00000429248.1_1_7:56706781-56707144:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.28497314453125 2 481.282526 960.550499 NaN NaN NaN NaN NaN NaN NaN 98.291 1 98.89 98.39 99.39 0.59885 0 0 0 0.99035 1 45300 45300 2.3027 0 1 31173 7831 19910 19972 35101 35101 0.06864599745574651 SQILKHLL 8 Unmodified _SQILKHLL_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT;ENST00000546313.1_1_11:114167278-114168881:+|nuORF ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 476.30413818359375 2 476.302927 950.591301 3.1405 0.0014958 0.092445 4.4032E-05 3.2329 0.0015399 476.3030181746939 42.451 0.3198 42.721 42.571 42.891 0.27021 32 14 3 0 0 0 0.059272 1 19347 19347 62.573 1.2152 1 1831200 31174 4502 19911 19973 35102 35102 0.11402941065182404 SQILKHLL 8 Unmodified _SQILKHLL_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT;ENST00000546313.1_1_11:114167278-114168881:+|nuORF ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 476.30474853515625 2 476.302927 950.591301 3.2376 0.0015421 0.64709 0.00030821 3.8847 0.0018503 476.30325527082783 41.626 0.1615 42.271 42.133 42.295 0.64451 14 7 3 0 0 0 0.036198 1 19019 19019 71.922 9.3496 1 3397800 31175 4502 19911 19973 35103 35103 0.11402941065182404 SQILKHLL 8 Unmodified _SQILKHLL_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT;ENST00000546313.1_1_11:114167278-114168881:+|nuORF ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 476.302927 950.591301 2.9031 0.0013828 1.3194 0.00062845 4.2225 0.0020112 476.3032285137646 42.68 0.15982 42.68 42.591 42.751 0 -0.020731 0.00096068 NaN 62.573 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 298900 31176 4502 19911 19973 0.11402941065182404 SQILKHLL 8 Unmodified _SQILKHLL_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT;ENST00000546313.1_1_11:114167278-114168881:+|nuORF ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 476.302927 950.591301 2.8872 0.0013752 -0.24467 -0.00011654 2.6425 0.0012586 476.3028715599257 41.647 0.11582 42.451 42.424 42.539 0.8035 0.08983 -0.00024371 NaN 71.922 11 9 2 NaN NaN NaN NaN 0 NaN NaN 0 354030 31177 4502 19911 19973 0.11402941065182404 SQKIMIPPL 9 Unmodified _SQKIMIPPL_ 0 0 0 chr1:155904801-155910450|161|12.85|0.22|5.85|-|0|None,RIT1|1 chr1:155904801-155910450|161|12.85|0.22|5.85|-|0|None,RIT1|1 chr1:155904801-155910450|161|12.85|0.22|5.85|-|0|None,RIT1|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.8077392578125 2 513.804445 1025.59434 4.0083 0.0020595 1.1743 0.00060337 5.1826 0.0026629 513.8047943820819 93.365 0.43153 93.62 93.414 93.845 0.25497 47 20 3 0 0 0 0.98132 1 42859 42859 4.3292 1.44 1 3751900 31178 119 19912 19974 35104 35104 0.08256448127690419 SQKKRGHFRVK 11 Unmodified _SQKKRGHFRVK_ 0 0 0 REV__ENSG00000171189|ENST00000327783|GRIK1 REV__ENSG00000171189|ENST00000327783|GRIK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 686.413818359375 2 685.910019 1369.80549 4.1361 0.002837 -2.0561 -0.0014103 2.0801 0.0014267 685.9082606118027 92.167 0.45309 92.815 92.421 92.874 0.64714 31 21 2 0 0 0 0.91111 1 42288 42288 1.1933 0.23107 1 316060 + 31179 13481 19913 19975 35105 35105 0.1353746121376389 SQLKRWLGGF 10 Unmodified _SQLKRWLGGF_ 0 0 0 REV__ENST00000396326.2_1_10:30806804-30806981:-|nuORF REV__ENST00000396326.2_1_10:30806804-30806981:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 596.5399780273438 2 596.33529 1190.65603 NaN NaN NaN NaN NaN NaN NaN 76.881 1 77.137 76.637 77.637 0.25533 0 0 0 0.99687 1 35402 35402 4.3292 0.38484 1 + 31180 16001 19914 19976 35106 35106 0.06832515871178657 SQLMRLMVAK 10 Unmodified _SQLMRLMVAK_ 0 0 0 ENSG00000143742|ENST00000304786|SRP9 ENSG00000143742|ENST00000304786|SRP9 ENSG00000143742|ENST00000304786|SRP9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.833984375 2 588.833211 1175.65187 NaN NaN NaN NaN NaN NaN NaN 12.514 1 12.776 12.276 13.276 0.26154 0 0 0 0.95221 1 5423 5423 13.042 3.6593 1 31181 3389 19915 19977 35107 35107 0.07106967061599789 SQLRNHER 8 Unmodified _SQLRNHER_ 0 0 0 nc|ENSG00000168813|Q8TCN5-2|ZNF507;ENSG00000168813|ENST00000355898|ZNF507 nc|ENSG00000168813|Q8TCN5-2|ZNF507 nc|ENSG00000168813|Q8TCN5-2|ZNF507 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 347.18560791015625 3 347.184573 1038.53189 NaN NaN NaN NaN NaN NaN NaN 76.139 1 76.139 75.639 76.639 0 0 0 0 0.99035 1 37312 37312 2.9952 0 1 31182 4655 19916 19978 35108 35108 0.014164381037062412 SQMLRAVSL 9 Unmodified _SQMLRAVSL_ 0 0 0 nc|ENSG00000076108|Q9UIF9-3|BAZ2A;ENSG00000076108|ENST00000549884|BAZ2A;nc|ENSG00000076108|Q9UIF9|BAZ2A;nc|ENSG00000076108|Q9UIF9-2|BAZ2A nc|ENSG00000076108|Q9UIF9-3|BAZ2A nc|ENSG00000076108|Q9UIF9-3|BAZ2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.2850646972656 2 502.781502 1003.54845 3.1807 0.0015992 -0.19785 -9.9474E-05 2.9829 0.0014997 502.7812027322601 50.219 0.38511 50.876 50.668 51.053 0.65735 21 14 2 0 0 0 0.035698 1 22972 22972 53.317 15.141 1 529650 31183 842 19917 19979 35109 35109 0.04681802945447089 SQMLRAVSL 9 Unmodified _SQMLRAVSL_ 0 0 0 nc|ENSG00000076108|Q9UIF9-3|BAZ2A;ENSG00000076108|ENST00000549884|BAZ2A;nc|ENSG00000076108|Q9UIF9|BAZ2A;nc|ENSG00000076108|Q9UIF9-2|BAZ2A nc|ENSG00000076108|Q9UIF9-3|BAZ2A nc|ENSG00000076108|Q9UIF9-3|BAZ2A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 502.781502 1003.54845 3.3258 0.0016721 -0.7923 -0.00039836 2.5335 0.0012738 503.2833773422294 51.048 0.091331 51.048 51.007 51.098 0 -0.0042177 -0.0007316 NaN 53.317 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 161940 31184 842 19917 19979 0.04681802945447089 SQMLRAVSL 9 Unmodified _SQMLRAVSL_ 0 0 0 nc|ENSG00000076108|Q9UIF9-3|BAZ2A;ENSG00000076108|ENST00000549884|BAZ2A;nc|ENSG00000076108|Q9UIF9|BAZ2A;nc|ENSG00000076108|Q9UIF9-2|BAZ2A nc|ENSG00000076108|Q9UIF9-3|BAZ2A nc|ENSG00000076108|Q9UIF9-3|BAZ2A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 502.781502 1003.54845 3.108 0.0015627 0.12281 6.1746E-05 3.2308 0.0016244 502.781428893746 50.971 0.23024 51.233 51.076 51.306 0.26146 0.18038 0.00018861 NaN 53.317 20 10 2 NaN NaN NaN NaN 0 NaN NaN 0 619510 31185 842 19917 19979 0.04681802945447089 SQPIVKKDKRQ 11 Unmodified _SQPIVKKDKRQ_ 0 0 0 nc|ENSG00000078304|Q13362-4|PPP2R5C;ENSG00000078304|ENST00000694906|PPP2R5C;ENST00000556068.5_1_14:102228230-102284455:+|nuORF nc|ENSG00000078304|Q13362-4|PPP2R5C nc|ENSG00000078304|Q13362-4|PPP2R5C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.8986206054688 2 663.896243 1325.77793 4.1442 0.0027513 -1.618 -0.0010742 2.5262 0.0016771 663.8953975828853 94.126 0.82365 94.757 94.395 95.219 0.63115 97 47 3 0 0 0 0.91328 1 43327 43327 0 0 1 1005800 31186 876 19918 19980 35110 35110 0.12807513162874784 SQRIAKSQF 9 Unmodified _SQRIAKSQF_ 0 0 0 ENST00000317147.9_1_16:58554392-58554671:-|nuORF ENST00000317147.9_1_16:58554392-58554671:-|nuORF ENST00000317147.9_1_16:58554392-58554671:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 532.79931640625 2 532.795998 1063.57744 2.9444 0.0015688 2.4458 0.0013031 5.3902 0.0028719 532.7975376986561 70.529 0.23716 70.786 70.645 70.882 0.25642 22 15 2 0 0 0 0.27958 1 32303 32303 18.146 0.011366 1 1152800 31187 6911 19919 19981 35111 35111 0.048196635660815446 SQRIQRPGR 9 Unmodified _SQRIQRPGR_ 0 0 0 ENST00000534320.5_1_11:587364-591403:+|nuORF ENST00000534320.5_1_11:587364-591403:+|nuORF ENST00000534320.5_1_11:587364-591403:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.3206787109375 2 549.317963 1096.62137 4.394 0.0024137 -0.44956 -0.00024695 3.9445 0.0021668 549.3178643253783 97.424 0.24311 97.714 97.549 97.793 0.28923 16 9 3 0 0 0 1.0601 1 44755 44755 2.9952 0.26005 1 2430300 31188 8752 19920 19982 35112 35112 0.0769269278309821 SQRLRRHG 8 Unmodified _SQRLRRHG_ 0 0 0 ENST00000519067.5_1_8:142225870-142228200:-|nuORF ENST00000519067.5_1_8:142225870-142228200:-|nuORF ENST00000519067.5_1_8:142225870-142228200:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.29339599609375 2 505.291748 1008.56894 3.8209 0.0019307 0.35213 0.00017793 4.1731 0.0021086 505.291629167539 93.368 0.73566 93.623 93.086 93.822 0.25497 72 38 3 0 0 0 0.7441 1 42964 42964 2.3027 0.4585 1 4390700 31189 8616 19921 19983 35113 35113 0.0650015444012979 SQRLRRHG 8 Unmodified _SQRLRRHG_ 0 0 0 ENST00000519067.5_1_8:142225870-142228200:-|nuORF ENST00000519067.5_1_8:142225870-142228200:-|nuORF ENST00000519067.5_1_8:142225870-142228200:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.2940368652344 2 505.291748 1008.56894 3.4465 0.0017415 -0.1713 -8.6558E-05 3.2752 0.0016549 505.29149188366404 92.927 0.39338 93.574 93.386 93.779 0.64714 60 20 4 0 0 0 0.71384 1 42706 42706 4.756 0.81161 1 3726300 31190 8616 19921 19983 35114 35114 0.0650015444012979 SQRLTVVR 8 Unmodified _SQRLTVVR_ 0 0 0 ENST00000494366.5_1_16:277301-278728:-|nuORF ENST00000494366.5_1_16:277301-278728:-|nuORF ENST00000494366.5_1_16:277301-278728:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.7962646484375 2 479.793258 957.571963 3.3179 0.0015919 0.15593 7.4816E-05 3.4738 0.0016667 479.7934912557807 88.142 0.43498 88.393 88.252 88.687 0.25064 27 20 2 0 0 0 0.7471 1 40678 40678 1.8442 0 1 457480 31191 8422 19922 19984 35115 35115 0.09147984774278939 SQSHSNQCA 9 Unmodified _SQSHSNQCA_ 0 0 0 REV__ANKRD6|p.L498Wfs*5|1|0.34|ENSG00000135299|chr6:89629116-89629116|C/-|frameshift_variant REV__ANKRD6|p.L498Wfs*5|1|0.34|ENSG00000135299|chr6:89629116-89629116|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 321.13165283203125 3 321.131257 960.371943 NaN NaN NaN NaN NaN NaN NaN 75.904 1 75.904 75.404 76.404 0 0 0 0 0.91059 1 37199 37199 0.96228 0.50394 1 + 31192 9964 19923 19985 35116 35116 -0.10982857955650616 SQSHSNQCA 9 Unmodified _SQSHSNQCA_ 0 0 0 REV__ANKRD6|p.L498Wfs*5|1|0.34|ENSG00000135299|chr6:89629116-89629116|C/-|frameshift_variant REV__ANKRD6|p.L498Wfs*5|1|0.34|ENSG00000135299|chr6:89629116-89629116|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 321.13250732421875 3 321.131257 960.371943 NaN NaN NaN NaN NaN NaN NaN 65.187 1 65.435 64.935 65.935 0.24803 0 0 0 0.91059 1 29864 29864 0.96228 0.50394 1 + 31193 9964 19923 19985 35117 35117 -0.10982857955650616 SQSHSNQCA 9 Unmodified _SQSHSNQCA_ 0 0 0 REV__ANKRD6|p.L498Wfs*5|1|0.34|ENSG00000135299|chr6:89629116-89629116|C/-|frameshift_variant REV__ANKRD6|p.L498Wfs*5|1|0.34|ENSG00000135299|chr6:89629116-89629116|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 321.1322021484375 3 321.131257 960.371943 NaN NaN NaN NaN NaN NaN NaN 61.618 1 62.278 61.778 62.778 0.66008 0 0 0 0.91059 1 28220 28220 0.96228 0.50394 1 + 31194 9964 19923 19985 35118 35118 -0.10982857955650616 SQSTKSKIH 9 Unmodified _SQSTKSKIH_ 0 0 0 REV__ENSG00000124091|ENST00000243913|GCNT7 REV__ENSG00000124091|ENST00000243913|GCNT7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.2818298339844 2 508.28018 1014.54581 4.0616 0.0020644 -0.4057 -0.00020621 3.6559 0.0018582 508.2797575313298 96.125 0.37599 96.403 96.171 96.547 0.27779 53 18 4 0 0 0 1.0246 1 44109 44109 3.5965 3.5965 1 2585000 + 31195 11631 19924 19986 35119 35119 0.03911670812135526 SQSVVRLL 8 Unmodified _SQSVVRLL_ 0 0 0 REV__ENST00000579014.5_1_18:6942080-7042306:-|nuORF REV__ENST00000579014.5_1_18:6942080-7042306:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.27685546875 2 451.276909 900.539266 NaN NaN NaN NaN NaN NaN NaN 109.23 1 109.54 109.04 110.04 0.31015 0 0 0 0.99035 1 50360 50360 2.3027 0 1 + 31196 10908 19925 19987 35120 35120 0.08501777651417797 SQTAKSKA 8 Unmodified _SQTAKSKA_ 0 0 0 ENST00000455071.1_1_6:86098335-86098551:-|nuORF ENST00000455071.1_1_6:86098335-86098551:-|nuORF ENST00000455071.1_1_6:86098335-86098551:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 410.7303771972656 2 410.729792 819.445031 3.559 0.0014618 -1.2449 -0.00051133 2.3141 0.00095047 410.7290597403423 93.365 0.59092 93.62 93.308 93.899 0.25497 58 28 3 0 0 0 0.7471 1 42984 42984 0.79363 0 1 956140 31197 8041 19926 19988 35121 35121 0.02808638829276333 SQTIRIAI 8 Unmodified _SQTIRIAI_ 0 0 0 REV__ENST00000503337.1_1_17:48757061-48757208:+|nuORF REV__ENST00000503337.1_1_17:48757061-48757208:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.27740478515625 2 451.276909 900.539266 NaN NaN NaN NaN NaN NaN NaN 109.53 1 109.84 109.34 110.34 0.31015 0 0 0 0.99035 1 50488 50488 0.79363 0 1 + 31198 16901 19927 19989 35122 35122 0.0850177765139506 SQYLRNLTFLL 11 Unmodified _SQYLRNLTFLL_ 0 0 0 ENSG00000170482|ENST00000348729|SLC23A1;nc|ENSG00000170482|Q9UHI7-2|SLC23A1;ENST00000504513.1_2_5:138715022-138715755:-|nuORF;ENST00000506512.1_1_5:138715578-138715872:-|nuORF ENSG00000170482|ENST00000348729|SLC23A1 ENSG00000170482|ENST00000348729|SLC23A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 684.3870239257812 2 684.387719 1366.76089 NaN NaN NaN NaN NaN NaN NaN 62.516 1 62.516 62.016 63.016 0 0 0 0 1.0047 1 29303 29303 4.5289 0.33936 1 31199 4751 19928 19990 35123 35123 0.0921759255707002 SRAKRPTA 8 Unmodified _SRAKRPTA_ 0 0 0 REV__ENST00000515245.5_1_3:129821671-129830240:-|nuORF REV__ENST00000515245.5_1_3:129821671-129830240:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 443.76580810546875 2 443.764501 885.514448 3.0571 0.0013566 0.41281 0.00018319 3.4699 0.0015398 443.7645965983212 87.213 0.41972 87.463 87.222 87.642 0.24974 46 20 3 0 0 0 0.71911 1 40154 40154 4.3292 0 1 2593600 + 31200 17016 19929 19991 35124 35124 0.06711142568701689 SRAKRPTA 8 Unmodified _SRAKRPTA_ 0 0 0 REV__ENST00000515245.5_1_3:129821671-129830240:-|nuORF REV__ENST00000515245.5_1_3:129821671-129830240:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 443.765625 2 443.764501 885.514448 3.2482 0.0014414 0.1049 4.655E-05 3.3531 0.001488 443.7643454611637 86.839 0.39109 87.514 87.342 87.733 0.67555 40 16 4 0 0 0 0.7471 1 40038 40038 1.8442 0 1 2221700 + 31201 17016 19929 19991 35125 35125 0.06711142568701689 SRAKRPTA 8 Unmodified _SRAKRPTA_ 0 0 0 REV__ENST00000515245.5_1_3:129821671-129830240:-|nuORF REV__ENST00000515245.5_1_3:129821671-129830240:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 443.764501 885.514448 3.0571 0.0013566 0.41281 0.00018319 3.4699 0.0015398 443.7645965983212 87.213 0.41972 87.463 87.222 87.642 0.24974 -0.025969 0.0001118 NaN 4.3292 46 20 3 NaN NaN NaN NaN 0 NaN NaN 0 2593600 + 31202 17016 19929 19991 0.06711142568701689 SRALTGEFW 9 Unmodified _SRALTGEFW_ 0 0 0 ENST00000361763.8_1_11:118175656-118183365:+|nuORF ENST00000361763.8_1_11:118175656-118183365:+|nuORF ENST00000361763.8_1_11:118175656-118183365:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.2926025390625 2 533.769448 1065.52434 3.5055 0.0018711 0.66451 0.0003547 4.17 0.0022258 533.7695642875359 45.617 0.37484 46.268 46.061 46.435 0.65104 37 15 3 0 0 0 0.10789 1 20857 20857 3.5965 0 1 985370 31203 7227 19930 19992 35126 35126 -0.005797142165647529 SRASTLRR 8 Unmodified _SRASTLRR_ 0 0 0 nc|ENSG00000141971|Q96EY5-2|MVB12A;nc|ENSG00000141971|Q96EY5-3|MVB12A;ENSG00000141971|ENST00000317040|MVB12A nc|ENSG00000141971|Q96EY5-2|MVB12A nc|ENSG00000141971|Q96EY5-2|MVB12A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 316.1905517578125 3 316.189547 945.546811 NaN NaN NaN NaN NaN NaN NaN 66.227 1 66.476 65.976 66.976 0.24848 0 0 0 0.99035 1 30341 30341 1.4819 0 1 31204 3289 19931 19993 35127 35127 0.07185929971717542 SRCHRCCH 8 Unmodified _SRCHRCCH_ 0 0 0 nc|ENSG00000156050|Q96MY7-2|FAM161B nc|ENSG00000156050|Q96MY7-2|FAM161B nc|ENSG00000156050|Q96MY7-2|FAM161B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1001.4033813476562 1 1001.39747 1000.39019 3.7763 0.0037815 0.60241 0.00060325 4.3787 0.0043848 1001.401541275055 13.438 0.08749 14.081 14.052 14.14 0.64272 6 5 2 0 0 0 0.7471 1 6034 6034 0 0 1 78361 31205 9701 19932 19994 35128 35128 -0.1099871778628767 SRCWYCCSI 9 Unmodified _SRCWYCCSI_ 0 0 0 ENST00000551541.5_1_18:3451729-3456373:+|nuORF ENST00000551541.5_1_18:3451729-3456373:+|nuORF ENST00000551541.5_1_18:3451729-3456373:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.7294921875 2 560.722272 1119.42999 NaN NaN NaN NaN NaN NaN NaN 54.125 1 54.125 53.625 54.625 0 0 0 0 0.89509 1 24821 24821 4.756 0 1 31206 8880 19933 19995 35129 35129 -0.12494635626217132 SRDGCCCGC 9 Unmodified _SRDGCCCGC_ 0 0 0 REV__nc|ENSG00000077238|P24394-3|IL4R REV__nc|ENSG00000077238|P24394-3|IL4R MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.4686584472656 2 452.132433 902.250313 NaN NaN NaN NaN NaN NaN NaN 51.917 1 52.18 51.68 52.68 0.26227 0 0 0 0.91452 1 23733 23733 0 0 1 + 31207 10555 19934 19996 35130 35130 -0.20472262905673233 SREKQQLL 8 Unmodified _SREKQQLL_ 0 0 0 PDE4DIP|p.Y267*|1|0.1|ENSG00000178104|chr1:148961867-148961868|TA/-|frameshift_variant;nc|ENSG00000178104|Q5VU43-6|PDE4DIP;nc|ENSG00000178104|Q5VU43-7|PDE4DIP;nc|ENSG00000178104|Q5VU43-3|PDE4DIP;nc|ENSG00000178104|Q5VU43|PDE4DIP;nc|ENSG00000178104|Q5VU43-4|PDE4DIP;ENSG00000178104|ENST00000695795|PDE4DIP PDE4DIP|p.Y267*|1|0.1|ENSG00000178104|chr1:148961867-148961868|TA/-|frameshift_variant PDE4DIP|p.Y267*|1|0.1|ENSG00000178104|chr1:148961867-148961868|TA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.2923583984375 2 501.290548 1000.56654 3.1802 0.0015942 0.52714 0.00026425 3.7073 0.0018584 501.2907464807802 78.42 2.0239 79.082 78.283 80.307 0.66198 237 131 2 0 0 0 0.70146 1 35990 35990 5.7604 1.0044 1 1407600 31208 5148 19935 19997 35131 35131 0.06628261191815454 SREPPSPAV 9 Unmodified _SREPPSPAV_ 0 0 0 ENST00000591030.5_1_19:6477238-6481723:-|nuORF ENST00000591030.5_1_19:6477238-6481723:-|nuORF ENST00000591030.5_1_19:6477238-6481723:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.24847412109375 2 470.248349 938.482145 NaN NaN NaN NaN NaN NaN NaN 47.509 1 48.338 47.838 48.838 0.82915 0 0 0 0.89509 1 21645 21645 4.756 0 1 31209 9230 19936 19998 35132 35132 0.010443103750503724 SRFETEFF 8 Unmodified _SRFETEFF_ 0 0 0 REV__ENST00000519416.5_2_8:38706173-38706524:+|nuORF REV__ENST00000519416.5_2_8:38706173-38706524:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.7509155273438 2 531.748182 1061.48181 3.0283 0.0016103 0.44917 0.00023885 3.4775 0.0018491 531.7482364196227 56.105 0.49666 56.37 56.071 56.568 0.26543 31 19 2 0 0 0 0.3435 1 25705 25705 32.305 2.0807 1 648640 + 31210 17035 19937 19999 35133 35133 -0.046471093448190004 SRFGNAFHL 9 Unmodified _SRFGNAFHL_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8;ENST00000573716.1_1_17:1581802-1582496:-|nuORF ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.207275390625 3 350.182281 1047.52501 2.6171 0.00091647 -0.90692 -0.00031759 1.7102 0.00059888 350.5162005727412 44.78 0.11577 45.43 45.371 45.487 0.64998 5 3 2 0 0 0 0.10847 1 20508 20508 7.1017 5.2575 1 134840 31211 4968 19938 20000 35134 35134 0.0031512522314187663 SRFRRRCWRRR 11 Unmodified _SRFRRRCWRRR_ 0 0 0 ENSG00000249715|ENST00000624922|FER1L5 ENSG00000249715|ENST00000624922|FER1L5 ENSG00000249715|ENST00000624922|FER1L5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.6439208984375 3 545.643037 1633.90728 3.5597 0.0019423 -2.1534 -0.001175 1.4063 0.00076733 545.64195581611 52.161 0.14217 52.161 52.064 52.206 0 11 8 2 0 0 0 0.91489 1 23898 23898 0 0 1 478580 31212 6262 19939 20001 35135 35135 0.1156842908451381 SRFRRRCWRRR 11 Unmodified _SRFRRRCWRRR_ 0 0 0 ENSG00000249715|ENST00000624922|FER1L5 ENSG00000249715|ENST00000624922|FER1L5 ENSG00000249715|ENST00000624922|FER1L5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.6434326171875 3 545.643037 1633.90728 NaN NaN NaN NaN NaN NaN NaN 52.003 1 52.265 51.765 52.765 0.26227 0 0 0 1.0082 1 23772 23772 0 0 1 31213 6262 19939 20001 35136 35136 0.1156842908451381 SRFRRRCWRRR 11 Unmodified _SRFRRRCWRRR_ 0 0 0 ENSG00000249715|ENST00000624922|FER1L5 ENSG00000249715|ENST00000624922|FER1L5 ENSG00000249715|ENST00000624922|FER1L5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 545.643037 1633.90728 2.7348 0.0014922 -2.0623 -0.0011253 0.67247 0.00036693 545.6418339380238 51.204 0.10086 52.022 51.959 52.06 0.81738 -0.069813 9.1682E-05 NaN 0 15 9 2 NaN NaN NaN NaN 0 NaN NaN 0 646620 31214 6262 19939 20001 0.1156842908451381 SRGDFVVEY 9 Unmodified _SRGDFVVEY_ 0 0 0 ENST00000437519.5_1_12:123868737-123892247:+|nuORF;ENSG00000183955|ENST00000402868|KMT5A;nc|ENSG00000183955|Q9NQR1|KMT5A ENST00000437519.5_1_12:123868737-123892247:+|nuORF ENST00000437519.5_1_12:123868737-123892247:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.2586059570312 2 536.258914 1070.50327 2.867 0.0015374 0.72718 0.00038996 3.5941 0.0019274 536.259309096128 46.788 0.34628 46.788 46.62 46.967 0 23 11 3 0 0 0 0.17594 1 21405 21405 24.991 3.454 1 1101000 31215 5414 19940 20002 35137 35137 -0.029157243160852886 SRGDFVVEY 9 Unmodified _SRGDFVVEY_ 0 0 0 ENST00000437519.5_1_12:123868737-123892247:+|nuORF;ENSG00000183955|ENST00000402868|KMT5A;nc|ENSG00000183955|Q9NQR1|KMT5A ENST00000437519.5_1_12:123868737-123892247:+|nuORF ENST00000437519.5_1_12:123868737-123892247:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.2605590820312 2 536.258914 1070.50327 NaN NaN NaN NaN NaN NaN NaN 46.781 1 47.047 46.547 47.547 0.26561 0 0 0 0.34849 1 21381 21381 24.991 1.8425 1 31216 5414 19940 20002 35138 35138 -0.029157243160852886 SRGDFVVEY 9 Unmodified _SRGDFVVEY_ 0 0 0 ENST00000437519.5_1_12:123868737-123892247:+|nuORF;ENSG00000183955|ENST00000402868|KMT5A;nc|ENSG00000183955|Q9NQR1|KMT5A ENST00000437519.5_1_12:123868737-123892247:+|nuORF ENST00000437519.5_1_12:123868737-123892247:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.2591552734375 2 536.258914 1070.50327 3.5016 0.0018778 -0.094301 -5.057E-05 3.4073 0.0018272 536.2583216965227 46.23 0.24139 46.882 46.738 46.979 0.6517 13 9 2 0 0 0 0.26118 1 21187 21187 19.362 0.10495 1 515180 31217 5414 19940 20002 35139 35139 -0.029157243160852886 SRGHPKTL 8 Unmodified _SRGHPKTL_ 0 0 0 REV__ENST00000495552.1_1_3:52870541-52870643:-|nuORF REV__ENST00000495552.1_1_3:52870541-52870643:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 448.25994873046875 2 448.259051 894.503549 2.8418 0.0012739 0.27991 0.00012547 3.1217 0.0013993 448.2590767657083 84.159 0.41122 84.407 84.193 84.604 0.24757 56 22 4 0 0 0 0.74071 1 38681 38681 2.5775 0.27475 1 2930300 + 31218 16843 19941 20003 35140 35140 0.05207740194430244 SRGKKKKKK 9 Unmodified _SRGKKKKKK_ 0 0 0 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.2521667480469 3 363.252258 1086.73495 NaN NaN NaN NaN NaN NaN NaN 37.909 1 37.909 37.409 38.409 0 0 0 0 0.91452 1 17203 17203 0 0 1 31219 3166 19942 20004 35141 35141 0.19504787896130438 SRGKKKKKK 9 Unmodified _SRGKKKKKK_ 0 0 0 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.2541809082031 3 363.252258 1086.73495 NaN NaN NaN NaN NaN NaN NaN 76.962 1 76.962 76.462 77.462 0 0 0 0 0.91452 1 37726 37726 0 0 1 31220 3166 19942 20004 35142 35142 0.19504787896130438 SRGKKKKKK 9 Unmodified _SRGKKKKKK_ 0 0 0 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 363.25341796875 3 363.252258 1086.73495 NaN NaN NaN NaN NaN NaN NaN 75.086 1 75.749 75.249 76.249 0.6635 0 0 0 0.91452 1 36344 36344 0 0 1 31221 3166 19942 20004 35143 35143 0.19504787896130438 SRGKKKKKK 9 Unmodified _SRGKKKKKK_ 0 0 0 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.25384521484375 3 363.252258 1086.73495 NaN NaN NaN NaN NaN NaN NaN 59.208 1 59.467 58.967 59.967 0.2593 0 0 0 0.91452 1 27113 27113 0 0 1 31222 3166 19942 20004 35144 35144 0.19504787896130438 SRGKKKKKK 9 Unmodified _SRGKKKKKK_ 0 0 0 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.2540283203125 3 363.252258 1086.73495 NaN NaN NaN NaN NaN NaN NaN 108.68 1 108.99 108.49 109.49 0.31168 0 0 0 0.91452 1 50115 50115 0 0 1 31223 3166 19942 20004 35145 35145 0.19504787896130438 SRGKKKKKK 9 Unmodified _SRGKKKKKK_ 0 0 0 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.2534484863281 3 363.252258 1086.73495 NaN NaN NaN NaN NaN NaN NaN 64.358 1 65.015 64.515 65.515 0.65672 0 0 0 0.91452 1 29504 29504 0 0 1 31224 3166 19942 20004 35146 35146 0.19504787896130438 SRGKKKKKK 9 Unmodified _SRGKKKKKK_ 0 0 0 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 ENSG00000139767|ENST00000267260|SRRM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.2536315917969 3 363.252258 1086.73495 NaN NaN NaN NaN NaN NaN NaN 72.34 1 73.003 72.503 73.503 0.66324 0 0 0 0.91452 1 33175 33175 0 0 1 31225 3166 19942 20004 35147 35147 0.19504787896130438 SRGLKGFV 8 Unmodified _SRGLKGFV_ 0 0 0 REV__ENSG00000196576|ENST00000359337|PLXNB2 REV__ENSG00000196576|ENST00000359337|PLXNB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 432.5245666503906 2 432.25852 862.502486 NaN NaN NaN NaN NaN NaN NaN 101.76 1 102.08 101.58 102.58 0.31737 0 0 0 0.99035 1 47082 47082 2.3027 0 1 + 31226 14232 19943 20005 35148 35148 0.06573525825524484 SRGQTHGA 8 Unmodified _SRGQTHGA_ 0 0 0 REV__ENST00000539777.5_1_1:168054550-168054703:-|nuORF REV__ENST00000539777.5_1_1:168054550-168054703:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 407.2039794921875 2 407.201733 812.388913 NaN NaN NaN NaN NaN NaN NaN 24.796 1 25.532 25.032 26.032 0.73623 0 0 0 0.99035 1 11114 11114 5.2307 0.47466 1 + 31227 17204 19944 20006 35149 35149 -0.024785692875298082 SRGQTHGA 8 Unmodified _SRGQTHGA_ 0 0 0 REV__ENST00000539777.5_1_1:168054550-168054703:-|nuORF REV__ENST00000539777.5_1_1:168054550-168054703:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 407.20330810546875 2 407.201733 812.388913 NaN NaN NaN NaN NaN NaN NaN 24.882 1 25.619 25.119 26.119 0.73623 0 0 0 0.99035 1 11155 11155 5.2307 0.47466 1 + 31228 17204 19944 20006 35150 35150 -0.024785692875298082 SRHKHKKHKKK 11 Unmodified _SRHKHKKHKKK_ 0 0 0 REV__ENSG00000273559|ENST00000614790|CWC25 REV__ENSG00000273559|ENST00000614790|CWC25 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 721.4523315429688 2 721.452385 1440.89022 NaN NaN NaN NaN NaN NaN NaN 70.033 1 70.289 69.789 70.789 0.25642 0 0 0 1.0082 1 32071 32071 0 0 1 + 31229 14724 19945 20007 35151 35151 0.1874083175036958 SRIARALAL 9 Unmodified _SRIARALAL_ 0 0 0 ENSG00000142871|ENST00000451137|CCN1 ENSG00000142871|ENST00000451137|CCN1 ENSG00000142871|ENST00000451137|CCN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 324.21063232421875 3 324.210059 969.608348 1.941 0.0006293 0.25644 8.3141E-05 2.1975 0.00071244 324.2101263849834 34.962 0.36808 34.962 34.796 35.164 0 76 27 4 0 0 0 0.049036 3 15803 15803;15848;15899 37.771 15.113 1 8882800 31230 3332 19946 20008 35152;35153;35154 35152 0.12232861670975126 SRIARALAL 9 Unmodified _SRIARALAL_ 0 0 0 ENSG00000142871|ENST00000451137|CCN1 ENSG00000142871|ENST00000451137|CCN1 ENSG00000142871|ENST00000451137|CCN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 486.31463623046875 2 485.811451 969.608348 3.0055 0.0014601 -0.043578 -2.117E-05 2.9619 0.0014389 485.811410397674 34.946 0.36808 34.946 34.796 35.164 0 77 27 4 0 0 0 0.0023958 3 15812 15812;15856;15903 100.09 44.588 1 17040000 31231 3332 19946 20008 35155;35156;35157 35155 0.12232861670975126 SRIARALAL 9 Unmodified _SRIARALAL_ 0 0 0 ENSG00000142871|ENST00000451137|CCN1 ENSG00000142871|ENST00000451137|CCN1 ENSG00000142871|ENST00000451137|CCN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.8126525878906 2 485.811451 969.608348 2.9249 0.0014209 -0.11747 -5.7069E-05 2.8074 0.0013639 485.8113860344844 34.078 0.43224 34.867 34.675 35.108 0.78921 77 25 4 0 0 0 0.0014317 2 15411 15367;15411 110.55 46.592 1 8742000 31232 3332 19946 20008 35158;35159 35159 0.12232861670975126 SRIARALAL 9 Unmodified _SRIARALAL_ 0 0 0 ENSG00000142871|ENST00000451137|CCN1 ENSG00000142871|ENST00000451137|CCN1 ENSG00000142871|ENST00000451137|CCN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.8131408691406 2 485.811451 969.608348 3.0722 0.0014925 0.19339 9.395E-05 3.2656 0.0015865 485.8115278137115 34.837 0.44964 35.092 34.87 35.32 0.25465 91 31 4 0 0 0 0.0023958 3 15814 15814;15861;15909 100.09 44.588 1 41964000 31233 3332 19946 20008 35160;35161;35162 35160 0.12232861670975126 SRIARALAL 9 Unmodified _SRIARALAL_ 0 0 0 ENSG00000142871|ENST00000451137|CCN1 ENSG00000142871|ENST00000451137|CCN1 ENSG00000142871|ENST00000451137|CCN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 324.2109680175781 3 324.210059 969.608348 2.3184 0.00075164 0.24063 7.8016E-05 2.559 0.00082966 324.21007816545705 34.84 0.35151 35.095 34.907 35.258 0.2549 72 26 3 0 0 0 0.023321 2 15877 15833;15877 51.488 19.451 1 21160000 31234 3332 19946 20008 35163;35164 35164 0.12232861670975126 SRIARALAL 9 Unmodified _SRIARALAL_ 0 0 0 ENSG00000142871|ENST00000451137|CCN1 ENSG00000142871|ENST00000451137|CCN1 ENSG00000142871|ENST00000451137|CCN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.8128356933594 2 485.811451 969.608348 3.1483 0.0015295 -0.10419 -5.0619E-05 3.0441 0.0014789 485.8114603243613 34.381 0.42506 35.004 34.798 35.223 0.62294 53 15 4 0 0 0 0.0014317 3 15750 15697;15750;15808 110.55 46.592 1 22537000 31235 3332 19946 20008 35165;35166;35167 35166 0.12232861670975126 SRIARALAL 9 Unmodified _SRIARALAL_ 0 0 0 ENSG00000142871|ENST00000451137|CCN1 ENSG00000142871|ENST00000451137|CCN1 ENSG00000142871|ENST00000451137|CCN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.2107238769531 3 324.210059 969.608348 2.1421 0.0006945 0.077932 2.5266E-05 2.22 0.00071976 324.2100843511519 34.381 0.45168 35.004 34.82 35.271 0.62294 55 16 5 0 0 0 0.030603 2 15751 15699;15751 44.392 18.371 1 12081000 31236 3332 19946 20008 35168;35169 35169 0.12232861670975126 SRIKLGLKS 9 Unmodified _SRIKLGLKS_ 0 0 0 ENSG00000124575|ENST00000244534|H1-3;ENSG00000168298|ENST00000304218|H1-4;ENSG00000184357|ENST00000331442|H1-5;ENSG00000187837|ENST00000343677|H1-2 ENSG00000124575|ENST00000244534|H1-3;ENSG00000168298|ENST00000304218|H1-4;ENSG00000184357|ENST00000331442|H1-5;ENSG00000187837|ENST00000343677|H1-2 ENSG00000184357|ENST00000331442|H1-5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.5534362792969 3 334.553715 1000.63931 NaN NaN NaN NaN NaN NaN NaN 14.244 1 14.55 14.05 15.05 0.3069 0 0 0 0.55812 1 6445 6445 12.175 0 1 31237 5435;2368;4619;5640 19947 20009 35170 35170 0.1390201498522856 SRKESYSVY 9 Unmodified _SRKESYSVY_ 0 0 0 nc|ENSG00000203814|Q5QNW6-2|H2BC18;ENSG00000273703|ENST00000621112|H2BC14;ENSG00000158373|ENST00000377777|H2BC5;ENSG00000278588|ENST00000377733|H2BC10;ENSG00000277224|ENST00000356530|H2BC7;ENSG00000275713|ENST00000619466|H2BC9;ENSG00000273802|ENST00000541790|H2BC8;ENSG00000233822|ENST00000612898|H2BC15;ENSG00000203814|ENST00000369167|H2BC18;ENSG00000185130|ENST00000377401|H2BC13;ENSG00000180596|ENST00000396984|H2BC4;ENSG00000274290|ENST00000614097|H2BC6;ENST00000609585.1_1_1:149399050-149399179:-|nuORF;ENSG00000197903|ENST00000356950|H2BC12;ENSG00000234289|ENST00000599962|H2BC12L;ENST00000469483.1_1_1:149775510-149783878:-|nuORF;ENST00000412169.1_1_1:120906105-120906168:+|nuORF nc|ENSG00000203814|Q5QNW6-2|H2BC18 nc|ENSG00000203814|Q5QNW6-2|H2BC18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.779541015625 2 559.77747 1117.54039 3.6003 0.0020154 0.34702 0.00019425 3.9474 0.0022096 559.7775619140642 15.176 0.39444 15.829 15.664 16.058 0.65356 75 44 2 0 0 0 0.41574 1 6834 6834 13.906 0.86358 1 122450 31238 3983 19948 20010 35171 35171 -0.013680527703172629 SRKESYSVY 9 Unmodified _SRKESYSVY_ 0 0 0 nc|ENSG00000203814|Q5QNW6-2|H2BC18;ENSG00000273703|ENST00000621112|H2BC14;ENSG00000158373|ENST00000377777|H2BC5;ENSG00000278588|ENST00000377733|H2BC10;ENSG00000277224|ENST00000356530|H2BC7;ENSG00000275713|ENST00000619466|H2BC9;ENSG00000273802|ENST00000541790|H2BC8;ENSG00000233822|ENST00000612898|H2BC15;ENSG00000203814|ENST00000369167|H2BC18;ENSG00000185130|ENST00000377401|H2BC13;ENSG00000180596|ENST00000396984|H2BC4;ENSG00000274290|ENST00000614097|H2BC6;ENST00000609585.1_1_1:149399050-149399179:-|nuORF;ENSG00000197903|ENST00000356950|H2BC12;ENSG00000234289|ENST00000599962|H2BC12L;ENST00000469483.1_1_1:149775510-149783878:-|nuORF;ENST00000412169.1_1_1:120906105-120906168:+|nuORF nc|ENSG00000203814|Q5QNW6-2|H2BC18 nc|ENSG00000203814|Q5QNW6-2|H2BC18 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 559.77747 1117.54039 3.3379 0.0018685 0.21858 0.00012235 3.5565 0.0019908 559.7776106131595 15.156 0.38467 15.462 15.306 15.691 0.306 -0.18344 -7.0587E-05 NaN 13.906 55 37 2 NaN NaN NaN NaN 0 NaN NaN 0 95431 31239 3983 19948 20010 -0.013680527703172629 SRKGKKEK 8 Unmodified _SRKGKKEK_ 0 0 0 ENSG00000149798|ENST00000279249|CDC42EP2 ENSG00000149798|ENST00000279249|CDC42EP2 ENSG00000149798|ENST00000279249|CDC42EP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.8022155761719 2 480.801083 959.587613 2.6803 0.0012887 0.093066 4.4746E-05 2.7733 0.0013334 480.80101888036654 91.606 0.35052 91.606 91.432 91.783 0 120 49 3 0 0 0 0.71911 1 48331 48331 4.3292 0 1 40901000 31240 3658 19949 20011 35172 35172 0.10620271291327299 SRKGKKEK 8 Unmodified _SRKGKKEK_ 0 0 0 ENSG00000149798|ENST00000279249|CDC42EP2 ENSG00000149798|ENST00000279249|CDC42EP2 ENSG00000149798|ENST00000279249|CDC42EP2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 480.801083 959.587613 2.6803 0.0012887 0.093066 4.4746E-05 2.7733 0.0013334 480.80101888036654 91.606 0.35052 91.606 91.432 91.783 0 0 0 NaN 4.3292 120 49 3 NaN NaN NaN NaN 0 NaN NaN 0 40901000 31241 3658 19949 20011 0.10620271291327299 SRKGVTATCE 10 Unmodified _SRKGVTATCE_ 0 0 0 REV__nc|ENSG00000113889|P01042-3|KNG1 REV__nc|ENSG00000113889|P01042-3|KNG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.1797790527344 3 351.178207 1050.51279 NaN NaN NaN NaN NaN NaN NaN 71.735 1 72.398 71.898 72.898 0.66324 0 0 0 0.99995 1 32880 32880 1.7423 0.089654 1 + 31242 11311 19950 20012 35173 35173 -0.010442793022320984 SRKKILKRLRQ 11 Unmodified _SRKKILKRLRQ_ 0 0 0 REV__ENSG00000090470|ENST00000204549|PDCD7 REV__ENSG00000090470|ENST00000204549|PDCD7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 713.478271484375 2 713.478069 1424.94158 NaN NaN NaN NaN NaN NaN NaN 79.816 1 80.065 79.565 80.565 0.24947 0 0 0 1.0082 1 36751 36751 0 0 1 + 31243 10710 19951 20013 35174 35174 0.24611155724460332 SRKLQPLK 8 Unmodified _SRKLQPLK_ 0 0 0 REV__ENST00000401813.7_1_1:2121150-2129708:-|nuORF REV__ENST00000401813.7_1_1:2121150-2129708:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.3152770996094 2 485.313826 968.613099 3.9319 0.0019082 0.34364 0.00016677 4.2755 0.002075 485.3137831851214 102.61 0.30964 102.93 102.78 103.09 0.31737 14 10 2 0 0 0 0.7471 1 47490 47490 0.69038 0 1 142390 + 31244 16046 19952 20014 35175 35175 0.12753745813756723 SRKQWRNRQKN 11 Unmodified _SRKQWRNRQKN_ 0 0 0 ENSG00000132275|ENST00000254605|RRP8 ENSG00000132275|ENST00000254605|RRP8 ENSG00000132275|ENST00000254605|RRP8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.0811462402344 3 500.946668 1499.81818 NaN NaN NaN NaN NaN NaN NaN 78.304 1 78.304 77.804 78.804 0 0 0 0 1.0079 1 38467 38467 0.50596 0 1 31245 2687 19953 20015 35176 35176 0.08825872606030316 SRKRAAAP 8 Unmodified _SRKRAAAP_ 0 0 0 ENSG00000165868|ENST00000369209|HSPA12A ENSG00000165868|ENST00000369209|HSPA12A ENSG00000165868|ENST00000369209|HSPA12A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 428.76019287109375 2 428.759218 855.503883 3.5881 0.0015385 -0.2808 -0.0001204 3.3073 0.0014181 428.7590447463973 94.663 0.40395 94.923 94.709 95.113 0.25975 58 23 3 0 0 0 0.7471 1 43577 43577 0.69038 0 1 1246300 31246 4429 19954 20016 35177 35177 0.07035159914266842 SRKRGLRHR 9 Unmodified _SRKRGLRHR_ 0 0 0 REV__ENSG00000135392|ENST00000678005|DNAJC14 REV__ENSG00000135392|ENST00000678005|DNAJC14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.2548522949219 3 389.242756 1164.70644 NaN NaN NaN NaN NaN NaN NaN 39.425 1 39.425 38.925 39.925 0 0 0 0 0.90431 1 17891 17891 2.4985 0.59211 1 + 31247 12014 19955 20017 35178 35178 0.13067483039549188 SRKRKHRKRSR 11 Unmodified _SRKRKHRKRSR_ 0 0 0 nc|ENSG00000213079|Q9UPN6-2|SCAF8;ENSG00000213079|ENST00000367178|SCAF8 nc|ENSG00000213079|Q9UPN6-2|SCAF8 nc|ENSG00000213079|Q9UPN6-2|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.7397766113281 4 374.488271 1493.92398 2.836 0.001062 -0.66168 -0.00024779 2.1743 0.00081425 374.7387911368607 39.628 1.5354 39.628 38.636 40.172 0 175 63 3 0 0 0 0.91111 1 17919 17919 0.40827 0 1 1412700 31248 6082 19956 20018 35179 35179 0.1967725324213916 SRKRKKRIMR 10 Unmodified _SRKRKKRIMR_ 0 0 0 REV__ENST00000434027.2_1_5:98106159-98115843:+|nuORF REV__ENST00000434027.2_1_5:98106159-98115843:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 340.2214660644531 4 340.471395 1357.85647 2.3401 0.00079674 -0.54221 -0.00018461 1.7979 0.00061213 340.47127363618876 60.715 0.19124 61.378 61.264 61.455 0.66261 12 10 2 0 0 0 0.12676 1 27833 27833 0.62683 0.62683 1 789290 + 31249 16289 19957 20019 35180 35180 0.1918608698697426 SRKRLKPF 8 Unmodified _SRKRLKPF_ 0 0 0 REV__ENST00000574857.1_1_17:2268210-2275697:+|nuORF REV__ENST00000574857.1_1_17:2268210-2275697:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.5552978515625 3 344.553937 1030.63998 2.2741 0.00078357 0.97199 0.0003349 3.2461 0.0011185 344.55426822981724 44.186 0.14667 44.456 44.435 44.581 0.2694 11 10 2 0 0 0 0.7471 1 20234 20234 1.4819 0 1 2642800 + 31250 12280 19958 20020 35181 35181 0.125888544249392 SRKRQLISNKK 11 Unmodified _SRKRQLISNKK_ 0 0 0 REV__ENSG00000143630|ENST00000368358|HCN3 REV__ENSG00000143630|ENST00000368358|HCN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.286376953125 3 453.284398 1356.83137 NaN NaN NaN NaN NaN NaN NaN 77.095 1 77.35 76.85 77.85 0.25533 0 0 0 1.0063 1 35502 35502 1.0136 0.55906 1 + 31251 12374 19959 20021 35182 35182 0.16722310665409168 SRKRRKGK 8 Unmodified _SRKRRKGK_ 0 0 0 ENSG00000163453|ENST00000295666|IGFBP7;nc|ENSG00000163453|Q16270-2|IGFBP7 ENSG00000163453|ENST00000295666|IGFBP7 ENSG00000163453|ENST00000295666|IGFBP7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.2250061035156 3 339.224703 1014.65228 NaN NaN NaN NaN NaN NaN NaN 64.483 1 64.731 64.231 65.231 0.24803 0 0 0 0.99035 1 29535 29535 1.4819 0 1 31252 4210 19960 20022 35183 35183 0.14553890887998477 SRKRRYVRRKQ 11 Unmodified _SRKRRYVRRKQ_ 0 0 0 REV__ENSG00000119403|ENST00000373896|PHF19 REV__ENSG00000119403|ENST00000373896|PHF19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.6510925292969 3 511.650075 1531.92839 2.8164 0.001441 -0.52602 -0.00026914 2.2904 0.0011719 511.64979327637326 101.45 0.081924 101.45 101.4 101.48 0 8 3 3 0 0 0 0.91459 1 56054 56054 0.094841 0 1 2792700 + 31253 11500 19961 20023 35184 35184 0.1837071766506142 SRKRRYVRRKQ 11 Unmodified _SRKRRYVRRKQ_ 0 0 0 REV__ENSG00000119403|ENST00000373896|PHF19 REV__ENSG00000119403|ENST00000373896|PHF19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 511.9873352050781 3 511.650075 1531.92839 4.2015 0.0021497 -0.18897 -9.6689E-05 4.0126 0.002053 511.649855587729 101.35 0.098526 101.67 101.6 101.7 0.31412 12 3 4 0 0 0 0.91459 1 46902 46902 0.094841 0.094841 1 8222700 + 31254 11500 19961 20023 35185 35185 0.1837071766506142 SRLKKSQFLI 10 Unmodified _SRLKKSQFLI_ 0 0 0 ENSG00000198734|ENST00000367797|F5 ENSG00000198734|ENST00000367797|F5 ENSG00000198734|ENST00000367797|F5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.2641296386719 3 407.255557 1218.74484 2.2198 0.00090404 0.59096 0.00024067 2.8108 0.0011447 407.2558158011175 12.5 0.13133 12.807 12.751 12.882 0.30727 10 4 3 0 0 0 0.12676 1 5614 5614 7.4771 1.6936 1 13398000 31255 5923 19962 20024 35186 35186 0.14421931110859987 SRLLRPRRLRL 11 Unmodified _SRLLRPRRLRL_ 0 0 0 REV__ENST00000008527.9_1_12:107486796-107487117:-|nuORF REV__ENST00000008527.9_1_12:107486796-107487117:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 718.4771728515625 2 718.47586 1434.93717 NaN NaN NaN NaN NaN NaN NaN 81.928 1 82.175 81.675 82.675 0.24722 0 0 0 1.0082 1 37710 37710 0 0 1 + 31256 14773 19963 20025 35187 35187 0.2370969130154208 SRLMRRHKRRR 11 Unmodified _SRLMRRHKRRR_ 0 0 0 ENST00000478247.1_1_3:183882805-183888540:+|nuORF;nc|ENSG00000161202|Q92997-2|DVL3;ENSG00000161202|ENST00000313143|DVL3 ENST00000478247.1_1_3:183882805-183888540:+|nuORF ENST00000478247.1_1_3:183882805-183888540:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 776.4710083007812 2 776.471118 1550.92768 NaN NaN NaN NaN NaN NaN NaN 42.05 1 42.05 41.55 42.55 0 0 0 0 1.0082 1 19131 19131 0 0 1 31257 4094 19964 20026 35188 35188 0.17425599744319697 SRLQTVAR 8 Unmodified _SRLQTVAR_ 0 0 0 REV__nc|ENSG00000204614|Q6P9F5-2|TRIM40 REV__nc|ENSG00000204614|Q6P9F5-2|TRIM40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.77911376953125 2 465.777608 929.540663 2.9888 0.0013921 0.57364 0.00026719 3.5624 0.0016593 465.7778214132926 89.461 0.42361 90.139 89.89 90.314 0.67818 51 21 3 0 0 0 0.7471 2 41178 41178;41229 1.8442 0 1 2346500 + 31258 14430 19965 20027 35189;35190 35189 0.07307411740180214 SRLRRLPPRHL 11 Unmodified _SRLRRLPPRHL_ 0 0 0 ENST00000259512.8_1_8:124054423-124054528:-|nuORF ENST00000259512.8_1_8:124054423-124054528:-|nuORF ENST00000259512.8_1_8:124054423-124054528:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 467.8479309082031 3 467.628499 1399.86367 NaN NaN NaN NaN NaN NaN NaN 66.538 1 67.243 66.743 67.743 0.7047 0 0 0 1.0071 1 31549 31549 0.50596 0 1 31259 6541 19966 20028 35191 35191 0.17973142859045765 SRLRWHKGLI 10 Unmodified _SRLRWHKGLI_ 0 0 0 REV__nc|ENSG00000127241|P48740|MASP1 REV__nc|ENSG00000127241|P48740|MASP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.5938415527344 3 422.591163 1264.75166 NaN NaN NaN NaN NaN NaN NaN 58.396 1 59.063 58.563 59.563 0.66703 0 0 0 0.99877 1 26732 26732 1.3296 0.31607 1 + 31260 17924 19967 20029 35192 35192 0.12987288782096584 SRLWRLVWPL 10 Unmodified _SRLWRLVWPL_ 0 0 0 REV__ENSG00000179598|ENST00000321560|PLD6 REV__ENSG00000179598|ENST00000321560|PLD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 442.6006774902344 3 442.599547 1324.77681 2.7187 0.0012033 0.17627 7.8018E-05 2.895 0.0012813 442.5994608099235 46.363 1.3255 46.363 45.711 47.037 0 165 62 3 0 0 0 0.90196 2 21031 21031;21296 3.5871 2.4773 1 2490300 + 31261 13801 19968 20030 35193;35194 35193 0.12741343584639253 SRLWRLVWPL 10 Unmodified _SRLWRLVWPL_ 0 0 0 REV__ENSG00000179598|ENST00000321560|PLD6 REV__ENSG00000179598|ENST00000321560|PLD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 332.20208740234375 4 332.201479 1324.77681 2.2587 0.00075036 0.13483 4.4791E-05 2.3936 0.00079515 332.2014026852753 45.405 1.0472 46.231 45.51 46.558 0.82621 179 56 4 0 0 0 0.90196 1 20616 20616 3.5871 3.5871 1 2565600 + 31262 13801 19968 20030 35195 35195 0.12741343584639253 SRLWRLVWPL 10 Unmodified _SRLWRLVWPL_ 0 0 0 REV__ENSG00000179598|ENST00000321560|PLD6 REV__ENSG00000179598|ENST00000321560|PLD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 332.4531555175781 4 332.201479 1324.77681 2.2738 0.00075537 -0.41647 -0.00013835 1.8574 0.00061701 332.2011344231241 45.892 0.54728 46.719 46.517 47.064 0.82621 81 26 4 0 0 0 0.90196 1 20954 20954 3.5871 2.4773 1 3405400 + 31263 13801 19968 20030 35196 35196 0.12741343584639253 SRLWRLVWPL 10 Unmodified _SRLWRLVWPL_ 0 0 0 REV__ENSG00000179598|ENST00000321560|PLD6 REV__ENSG00000179598|ENST00000321560|PLD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 442.6007995605469 3 442.599547 1324.77681 2.8233 0.0012496 0.17497 7.7443E-05 2.9982 0.001327 442.5995918265809 45.572 1.2865 45.84 45.587 46.874 0.26768 118 50 3 0 0 0 0.90196 3 20998 20998;21090;21207 3.5871 2.4773 1 3819200 + 31264 13801 19968 20030 35197;35198;35199 35197 0.12741343584639253 SRLWRLVWPL 10 Unmodified _SRLWRLVWPL_ 0 0 0 REV__ENSG00000179598|ENST00000321560|PLD6 REV__ENSG00000179598|ENST00000321560|PLD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.20233154296875 4 332.201479 1324.77681 2.4927 0.00082808 0.51947 0.00017257 3.0122 0.0010007 332.201510829835 44.974 1.5724 45.624 45.197 46.769 0.64998 185 59 5 0 0 0 0.90196 1 20664 20664 3.5871 3.5871 1 4843100 + 31265 13801 19968 20030 35200 35200 0.12741343584639253 SRLWRLVWPL 10 Unmodified _SRLWRLVWPL_ 0 0 0 REV__ENSG00000179598|ENST00000321560|PLD6 REV__ENSG00000179598|ENST00000321560|PLD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.6009521484375 3 442.599547 1324.77681 3.305 0.0014628 0.017973 7.9548E-06 3.3229 0.0014707 442.5994221264095 44.977 1.4106 45.627 45.291 46.702 0.64998 117 53 3 0 0 0 0.90196 1 20678 20678 3.5871 1.9948 1 2286400 + 31266 13801 19968 20030 35201 35201 0.12741343584639253 SRLYRLEGFRK 11 Unmodified _SRLYRLEGFRK_ 0 0 0 ENST00000418251.6_1_2:113943320-113958989:+|nuORF;ENST00000409656.5_1_2:113943320-113958989:+|nuORF;nc|ENSG00000125637|Q8NDX1-2|PSD4;ENSG00000125637|ENST00000245796|PSD4 ENST00000418251.6_1_2:113943320-113958989:+|nuORF ENST00000418251.6_1_2:113943320-113958989:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 713.1009521484375 2 712.909685 1423.80482 NaN NaN NaN NaN NaN NaN NaN 84.42 1 84.449 83.949 84.949 0.028603 0 0 0 1.005 1 42104 42104 4.1895 1.1943 1 31267 2410 19969 20031 35202 35202 0.10986621774054584 SRNAYMLVY 9 Unmodified _SRNAYMLVY_ 0 0 0 ENSG00000090686|ENST00000308271|USP48;nc|ENSG00000090686|Q86UV5-8|USP48;nc|ENSG00000090686|Q86UV5-2|USP48;nc|ENSG00000090686|Q86UV5-3|USP48;nc|ENSG00000090686|Q86UV5-7|USP48 ENSG00000090686|ENST00000308271|USP48 ENSG00000090686|ENST00000308271|USP48 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.7810668945312 2 558.778959 1115.54336 NaN NaN NaN NaN NaN NaN NaN 52.327 1 52.989 52.489 53.489 0.66198 0 0 0 0.70806 1 23925 23925 12.241 0.60036 1 31268 1066 19970 20032 35203 35203 -0.009785009171764614 SRNVNIKKL 9 Unmodified _SRNVNIKKL_ 0 0 0 HAL1_dup9681|chr6:160215926-160216687:+|17.712225196789895|0.2873859347405961|5.95|533.0|14|2|sense HAL1_dup9681|chr6:160215926-160216687:+|17.712225196789895|0.2873859347405961|5.95|533.0|14|2|sense HAL1_dup9681|chr6:160215926-160216687:+|17.712225196789895|0.2873859347405961|5.95|533.0|14|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 358.5333251953125 3 357.892619 1070.65603 1.9826 0.00070957 0.28889 0.00010339 2.2715 0.00081296 357.89271454184063 12.978 0.30047 13.286 13.125 13.426 0.30727 37 12 4 0 0 0 1.0894 1 5784 5784 2.4985 0 1 1275300 31269 9367 19971 20033 35204 35204 0.12352515871180003 SRPFKRKI 8 Unmodified _SRPFKRKI_ 0 0 0 REV__ENST00000514430.5_1_4:103590092-103612100:-|nuORF REV__ENST00000514430.5_1_4:103590092-103612100:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 344.53387451171875 3 344.553937 1030.63998 2.6169 0.00090166 1.2996 0.00044779 3.9165 0.0013494 344.88941255815064 12.897 0.16546 13.54 13.446 13.612 0.64272 6 4 2 0 0 0 0.13289 1 5787 5787 17.113 2.2746 1 155220 + 31270 17005 19972 20034 35205 35205 0.125888544249392 SRPFRRVQW 9 Unmodified _SRPFRRVQW_ 0 0 0 ENST00000488010.5_1_3:69097467-69097563:-|nuORF ENST00000488010.5_1_3:69097467-69097563:-|nuORF ENST00000488010.5_1_3:69097467-69097563:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 616.3445434570312 2 616.343981 1230.67341 NaN NaN NaN NaN NaN NaN NaN 100.97 1 101.28 100.78 101.78 0.31412 0 0 0 0.90699 1 46726 46726 1.8442 0 1 31271 8359 19973 20035 35206 35206 0.06729856196852779 SRPILMLRAPR 11 Unmodified _SRPILMLRAPR_ 0 0 0 ENST00000489998.5_1_1:157765891-157772050:-|nuORF;nc|ENSG00000163534|Q96LA6-3|FCRL1;nc|ENSG00000163534|Q96LA6-2|FCRL1;ENSG00000163534|ENST00000368176|FCRL1 ENST00000489998.5_1_1:157765891-157772050:-|nuORF ENST00000489998.5_1_1:157765891-157772050:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.6029357910156 3 437.267691 1308.78124 2.8836 0.0012609 0.44427 0.00019427 3.3279 0.0014552 437.26774739425275 49.355 1.0501 49.355 49.022 50.072 0 163 49 4 0 0 0 0.90781 1 22536 22536 2.084 0.17759 1 8602100 31272 4220 19974 20036 35207 35207 0.13920484735899663 SRPILMLRAPR 11 Unmodified _SRPILMLRAPR_ 0 0 0 ENST00000489998.5_1_1:157765891-157772050:-|nuORF;nc|ENSG00000163534|Q96LA6-3|FCRL1;nc|ENSG00000163534|Q96LA6-2|FCRL1;ENSG00000163534|ENST00000368176|FCRL1 ENST00000489998.5_1_1:157765891-157772050:-|nuORF ENST00000489998.5_1_1:157765891-157772050:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.20330810546875 4 328.202588 1308.78124 2.3124 0.00075895 0.58612 0.00019236 2.8986 0.00095132 328.20269904399976 48.44 1.4679 49.267 48.785 50.253 0.82705 263 76 5 0 0 0 0.91196 1 22279 22279 0.92553 0.149 1 13119000 31273 4220 19974 20036 35208 35208 0.13920484735899663 SRPILMLRAPR 11 Unmodified _SRPILMLRAPR_ 0 0 0 ENST00000489998.5_1_1:157765891-157772050:-|nuORF;nc|ENSG00000163534|Q96LA6-3|FCRL1;nc|ENSG00000163534|Q96LA6-2|FCRL1;ENSG00000163534|ENST00000368176|FCRL1 ENST00000489998.5_1_1:157765891-157772050:-|nuORF ENST00000489998.5_1_1:157765891-157772050:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.2035827636719 4 328.202588 1308.78124 2.582 0.00084743 0.91121 0.00029906 3.4932 0.0011465 328.2027835766161 47.59 0.81229 47.854 47.247 48.06 0.26363 126 44 4 0 0 0 0.91196 1 21609 21609 0.92553 0.149 1 8064400 31274 4220 19974 20036 35209 35209 0.13920484735899663 SRPILMLRAPR 11 Unmodified _SRPILMLRAPR_ 0 0 0 ENST00000489998.5_1_1:157765891-157772050:-|nuORF;nc|ENSG00000163534|Q96LA6-3|FCRL1;nc|ENSG00000163534|Q96LA6-2|FCRL1;ENSG00000163534|ENST00000368176|FCRL1 ENST00000489998.5_1_1:157765891-157772050:-|nuORF ENST00000489998.5_1_1:157765891-157772050:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2703552246094 3 437.267691 1308.78124 2.9858 0.0013056 0.63608 0.00027814 3.6218 0.0015837 437.2678601822451 48.913 1.0703 49.175 48.816 49.886 0.26209 142 40 4 0 0 0 0.87371 1 22225 22225 3.5927 1.3399 1 8824200 31275 4220 19974 20036 35210 35210 0.13920484735899663 SRPILTLRVP 10 Unmodified _SRPILTLRVP_ 0 0 0 nc|ENSG00000143297|Q96RD9-3|FCRL5;ENSG00000143297|ENST00000361835|FCRL5 nc|ENSG00000143297|Q96RD9-3|FCRL5 nc|ENSG00000143297|Q96RD9-3|FCRL5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 576.3721313476562 2 576.36659 1150.71863 NaN NaN NaN NaN NaN NaN NaN 37.961 1 37.961 37.461 38.461 0 0 0 0 0.99846 1 17227 17227 2.9952 0 1 31276 3356 19975 20037 35211 35211 0.14929661939368088 SRPPSRQRAVR 11 Unmodified _SRPPSRQRAVR_ 0 0 0 nc|ENSG00000177685|Q8N4Y2-2|CRACR2B;ENST00000530688.5_1_11:829331-830866:+|nuORF;ENST00000528694.1_1_11:829854-830133:+|nuORF nc|ENSG00000177685|Q8N4Y2-2|CRACR2B nc|ENSG00000177685|Q8N4Y2-2|CRACR2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.25823974609375 3 437.256843 1308.7487 2.5524 0.001116 0.78352 0.0003426 3.3359 0.0014586 437.25718462412226 105.66 0.18631 105.66 105.54 105.72 0 16 10 3 0 0 0 0.91328 1 58075 58075 0.50596 0.09769 1 1273100 31277 8715 19976 20038 35212 35212 0.10667413657256475 SRPRPRRRRRR 11 Unmodified _SRPRPRRRRRR_ 0 0 0 REV__ENST00000549122.5_1_12:93965649-93966593:+|nuORF REV__ENST00000549122.5_1_12:93965649-93966593:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 774.9850463867188 2 774.985781 1547.95701 NaN NaN NaN NaN NaN NaN NaN 75.659 1 75.916 75.416 76.416 0.25704 0 0 0 1.0082 1 34823 34823 0 0 1 + 31278 17268 19977 20039 35213 35213 0.20494880084834222 SRPVSRRLV 9 Unmodified _SRPVSRRLV_ 0 0 0 ENSG00000146918|ENST00000356309|NCAPG2;nc|ENSG00000146918|Q86XI2-2|NCAPG2;NCAPG2|p.Q736Tfs*12|1|0.06|ENSG00000146918|chr7:158656560-158656561|-/AGAGTTGAGT|frameshift_variant;ENST00000467785.5_1_7:158448006-158486027:-|nuORF;ENST00000432615.5_1_7:158447451-158457424:-|nuORF ENSG00000146918|ENST00000356309|NCAPG2 ENSG00000146918|ENST00000356309|NCAPG2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.55596923828125 3 357.22448 1068.65161 2.6685 0.00095325 3.8526 0.0013762 6.5211 0.0023295 357.56103016452664 13.131 0.10541 13.773 13.742 13.847 0.64272 12 9 2 0 0 0 0.10847 1 5909 5909 7.1017 0 1 700430 31279 3538 19978 20040 35214 35214 0.12003051448255064 SRQLFGWL 8 Unmodified _SRQLFGWL_ 0 0 0 nc|ENSG00000173852|Q2PZI1|DPY19L1;ENSG00000173852|ENST00000638088|DPY19L1;ENST00000426647.2_1_7:32852458-32867019:+|nuORF;nc|ENSG00000177990|Q6NUT2-2|DPY19L2;ENST00000413230.6_1_12:63954294-63977630:-|nuORF;ENSG00000177990|ENST00000324472|DPY19L2 nc|ENSG00000173852|Q2PZI1|DPY19L1 nc|ENSG00000173852|Q2PZI1|DPY19L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.1776428222656 3 336.187143 1005.5396 NaN NaN NaN NaN NaN NaN NaN 82.548 1 83.208 82.708 83.708 0.66019 0 0 0 0.99035 1 38033 38033 2.9952 0.71247 1 31280 4956 19979 20041 35215 35215 0.03705197371277791 SRQWHLRRWWR 11 Unmodified _SRQWHLRRWWR_ 0 0 0 REV__ENST00000431361.1_1_20:61432246-61432384:-|nuORF REV__ENST00000431361.1_1_20:61432246-61432384:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 833.948486328125 2 833.950541 1665.88653 NaN NaN NaN NaN NaN NaN NaN 78.14 1 78.14 77.64 78.64 0 0 0 0 1.008 1 38371 38371 0.26902 0.26902 1 + 31281 16265 19980 20042 35216 35216 0.08022161976532516 SRQWHLRRWWR 11 Unmodified _SRQWHLRRWWR_ 0 0 0 REV__ENST00000431361.1_1_20:61432246-61432384:-|nuORF REV__ENST00000431361.1_1_20:61432246-61432384:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 834.0987548828125 2 833.950541 1665.88653 NaN NaN NaN NaN NaN NaN NaN 108.23 1 108.27 107.77 108.77 0.04248 0 0 0 1.0082 1 58451 58451 0 0 1 + 31282 16265 19980 20042 35217 35217 0.08022161976532516 SRQWHLRRWWR 11 Unmodified _SRQWHLRRWWR_ 0 0 0 REV__ENST00000431361.1_1_20:61432246-61432384:-|nuORF REV__ENST00000431361.1_1_20:61432246-61432384:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 833.9536743164062 2 833.950541 1665.88653 NaN NaN NaN NaN NaN NaN NaN 88.156 1 88.834 88.334 89.334 0.67818 0 0 0 1.0082 1 40605 40605 0 0 1 + 31283 16265 19980 20042 35218 35218 0.08022161976532516 SRRALPPLRT 10 Unmodified _SRRALPPLRT_ 0 0 0 ENST00000469179.1_1_9:72000772-72001488:+|nuORF;ENST00000460871.1_1_9:71990729-72006671:+|nuORF;nc|ENSG00000135063|Q15884-1|ENTREP1;nc|ENSG00000135063|Q15884|ENTREP1;ENSG00000135063|ENST00000303068|ENTREP1 ENST00000469179.1_1_9:72000772-72001488:+|nuORF ENST00000469179.1_1_9:72000772-72001488:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.3624877929688 2 583.859464 1165.70437 3.7498 0.0021894 -1.0028 -0.0005855 2.747 0.0016039 583.8586852341052 93.651 0.64449 94.282 94.082 94.726 0.63115 76 30 4 0 0 0 0.93855 1 43035 43035 1.1933 0 1 2733900 31284 2844 19981 20043 35219 35219 0.1281500951106409 SRRFMRRRKRR 11 Unmodified _SRRFMRRRKRR_ 0 0 0 ENST00000391975.5_1_2:242194961-242195633:-|nuORF ENST00000391975.5_1_2:242194961-242195633:-|nuORF ENST00000391975.5_1_2:242194961-242195633:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 802.982421875 2 802.984392 1603.95423 NaN NaN NaN NaN NaN NaN NaN 105.42 1 105.47 104.97 105.97 0.050888 0 0 0 1.0082 1 57028 57028 0 0 1 31285 7508 19982 20044 35220 35220 0.17641288635672936 SRRFRGRHYKW 11 Unmodified _SRRFRGRHYKW_ 0 0 0 ENST00000513709.1_1_5:5235169-5239274:+|nuORF;nc|ENSG00000145536|Q8TE57-2|ADAMTS16;ENSG00000145536|ENST00000274181|ADAMTS16 ENST00000513709.1_1_5:5235169-5239274:+|nuORF ENST00000513709.1_1_5:5235169-5239274:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 774.9246215820312 2 774.923992 1547.83343 NaN NaN NaN NaN NaN NaN NaN 87.583 1 87.834 87.334 88.334 0.25064 0 0 0 1.0082 1 40307 40307 0 0 1 31286 3473 19983 20045 35221 35221 0.08142784193910302 SRRIRTRSTV 10 Unmodified _SRRIRTRSTV_ 0 0 0 REV__ENST00000553883.1_1_14:94401004-94406176:-|nuORF REV__ENST00000553883.1_1_14:94401004-94406176:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.3711547851562 2 616.370727 1230.7269 NaN NaN NaN NaN NaN NaN NaN 31.99 1 32.778 32.278 33.278 0.78795 0 0 0 1.0003 1 14459 14459 1.4819 0 1 + 31287 10840 19984 20046 35222 35222 0.12076608908682829 SRRKAAGP 8 Unmodified _SRRKAAGP_ 0 0 0 REV__ENST00000421536.5_1_2:187351098-187359978:+|nuORF REV__ENST00000421536.5_1_2:187351098-187359978:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.75238037109375 2 421.751393 841.488233 2.885 0.0012168 0.39112 0.00016495 3.2762 0.0013817 421.7515569560439 83.519 0.34138 83.766 83.509 83.851 0.24722 32 19 2 0 0 0 0.7441 2 38408 38408;38465 2.3027 0 1 392650 + 31288 16177 19985 20047 35223;35224 35223 0.061148733972345326 SRRKAAGP 8 Unmodified _SRRKAAGP_ 0 0 0 REV__ENST00000421536.5_1_2:187351098-187359978:+|nuORF REV__ENST00000421536.5_1_2:187351098-187359978:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 421.751393 841.488233 2.885 0.0012168 0.39112 0.00016495 3.2762 0.0013817 421.7515569560439 83.519 0.34138 83.766 83.509 83.851 0.24722 -0.04008 0.00016428 NaN 2.3027 32 19 2 NaN NaN NaN NaN 0 NaN NaN 0 392650 + 31289 16177 19985 20047 0.061148733972345326 SRRKFKKIFLR 11 Unmodified _SRRKFKKIFLR_ 0 0 0 REV__ENST00000380888.4_1_20:29523054-29523153:-|nuORF REV__ENST00000380888.4_1_20:29523054-29523153:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 739.9774169921875 2 739.975162 1477.93577 3.664 0.0027113 -3.6279 -0.0026845 0.036154 2.6753E-05 740.4742820894951 38.365 0.32086 38.63 38.403 38.724 0.26408 14 9 2 0 0 0 0.91345 1 17501 17501 0.30703 0 1 389420 + 31290 15888 19986 20048 35225 35225 0.21592057212774307 SRRKGRNRRTH 11 Unmodified _SRRKGRNRRTH_ 0 0 0 ENST00000419007.5_1_3:50313561-50314134:+|nuORF;nc|ENSG00000012171|Q13214-2|SEMA3B;ENSG00000012171|ENST00000616701|SEMA3B ENST00000419007.5_1_3:50313561-50314134:+|nuORF ENST00000419007.5_1_3:50313561-50314134:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 356.71197509765625 4 356.7108 1422.81409 2.1815 0.00077817 -0.14713 -5.2482E-05 2.0344 0.00072569 356.96146764087337 62.831 0.56246 62.831 62.683 63.245 0 121 64 3 0 0 0 0.91104 1 29664 29664 1.2148 0.588 1 11984000 31291 423 19987 20049 35226 35226 0.11959827902978759 SRRKGRNRRTH 11 Unmodified _SRRKGRNRRTH_ 0 0 0 ENST00000419007.5_1_3:50313561-50314134:+|nuORF;nc|ENSG00000012171|Q13214-2|SEMA3B;ENSG00000012171|ENST00000616701|SEMA3B ENST00000419007.5_1_3:50313561-50314134:+|nuORF ENST00000419007.5_1_3:50313561-50314134:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 356.96197509765625 4 356.7108 1422.81409 1.9101 0.00068136 -0.89324 -0.00031863 1.0169 0.00036273 356.71045612899684 62.085 0.25531 62.816 62.737 62.992 0.73077 51 37 2 0 0 0 0.91104 1 28916 28916 1.2148 0.51716 1 8061500 31292 423 19987 20049 35227 35227 0.11959827902978759 SRRKGRNRRTH 11 Unmodified _SRRKGRNRRTH_ 0 0 0 ENST00000419007.5_1_3:50313561-50314134:+|nuORF;nc|ENSG00000012171|Q13214-2|SEMA3B;ENSG00000012171|ENST00000616701|SEMA3B ENST00000419007.5_1_3:50313561-50314134:+|nuORF ENST00000419007.5_1_3:50313561-50314134:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.27947998046875 3 475.278641 1422.81409 2.9589 0.0014063 -0.38393 -0.00018247 2.5749 0.0012238 475.6128185910362 61.648 0.57549 62.308 61.8 62.376 0.66008 73 42 2 0 0 0 0.91168 1 28033 28033 1.0136 0.38675 1 21955000 31293 423 19987 20049 35228 35228 0.11959827902978759 SRRKHRRRRR 10 Unmodified _SRRKHRRRRR_ 0 0 0 nc|ENSG00000176444|P49760-3|CLK2;ENSG00000176444|ENST00000368361|CLK2;ENST00000484699.1_1_1:155239218-155239476:-|nuORF;nc|ENSG00000176444|P49760-2|CLK2;ENST00000476983.5_1_1:155238132-155243105:-|nuORF nc|ENSG00000176444|P49760-3|CLK2 nc|ENSG00000176444|P49760-3|CLK2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.2391662597656 4 366.733338 1462.90425 2.6645 0.00097717 -2.2503 -0.00082524 0.41427 0.00015192 366.98428868230036 44.095 0.04884 44.095 44.053 44.102 0 5 3 2 0 0 0 0.12676 1 20119 20119 1.7423 0.96574 1 369180 31294 5079 19988 20050 35229 35229 0.19130922022031882 SRRKRRHRSR 10 Unmodified _SRRKRRHRSR_ 0 0 0 nc|ENSG00000177679|A6NNA2|SRRM3;ENSG00000177679|ENST00000611745|SRRM3 nc|ENSG00000177679|A6NNA2|SRRM3 nc|ENSG00000177679|A6NNA2|SRRM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.024658203125 3 465.618997 1393.83516 NaN NaN NaN NaN NaN NaN NaN 68.019 1 68.721 68.221 69.221 0.70218 0 0 0 0.99995 1 32401 32401 1.7423 0.28716 1 31295 5131 19989 20051 35230 35230 0.15399838002485922 SRRKSILS 8 Unmodified _SRRKSILS_ 0 0 0 ENST00000569430.6_3_16:28505449-28506076:-|nuORF ENST00000569430.6_3_16:28505449-28506076:-|nuORF ENST00000569430.6_3_16:28505449-28506076:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.7954406738281 2 473.793258 945.571963 3.1453 0.0014902 -0.048976 -2.3205E-05 3.0964 0.001467 473.79328233936013 82.277 0.51887 82.937 82.707 83.226 0.66019 55 30 2 0 0 0 0.7471 1 37929 37929 1.8442 0 1 845930 31296 9075 19990 20052 35231 35231 0.0969998477429499 SRRKWLIP 8 Unmodified _SRRKWLIP_ 0 0 0 ENSG00000051825|ENST00000606320|MPHOSPH9;nc|ENSG00000051825|Q99550-2|MPHOSPH9;ENST00000541823.1_1_12:123651200-123664510:-|nuORF ENSG00000051825|ENST00000606320|MPHOSPH9 ENSG00000051825|ENST00000606320|MPHOSPH9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.6611938476562 2 528.327268 1054.63998 NaN NaN NaN NaN NaN NaN NaN 69.653 1 70.314 69.814 70.814 0.66071 0 0 0 0.99035 1 31935 31935 2.3027 0.24298 1 31297 590 19991 20053 35232 35232 0.11484854424952573 SRRPRRRRRRR 11 Unmodified _SRRPRRRRRRR_ 0 0 0 ENST00000514738.5_1_5:31193871-31267519:+|nuORF ENST00000514738.5_1_5:31193871-31267519:+|nuORF ENST00000514738.5_1_5:31193871-31267519:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 804.5091552734375 2 804.509955 1607.00536 NaN NaN NaN NaN NaN NaN NaN 49.766 1 49.766 49.266 50.266 0 0 0 0 1.0082 1 22786 22786 0 0 1 31298 8586 19992 20054 35233 35233 0.22613373724743724 SRRPRRRRRRR 11 Unmodified _SRRPRRRRRRR_ 0 0 0 ENST00000514738.5_1_5:31193871-31267519:+|nuORF ENST00000514738.5_1_5:31193871-31267519:+|nuORF ENST00000514738.5_1_5:31193871-31267519:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 804.4617309570312 2 804.509955 1607.00536 NaN NaN NaN NaN NaN NaN NaN 93.414 1 93.414 92.914 93.914 0 0 0 0 1.0082 1 49870 49870 0 0 1 31299 8586 19992 20054 35234 35234 0.22613373724743724 SRRRKKRFRQE 11 Unmodified _SRRRKKRFRQE_ 0 0 0 REV__nc|ENSG00000186854|Q86V40-2|TRABD2A REV__nc|ENSG00000186854|Q86V40-2|TRABD2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.3120727539062 3 516.309829 1545.90766 4.2803 0.00221 -0.30497 -0.00015746 3.9754 0.0020525 516.3100663098803 99.378 0.14636 99.687 99.652 99.798 0.30835 18 7 4 0 0 0 0.91459 1 45930 45930 0.094841 0 1 2820700 + 31300 14073 19993 20055 35235 35235 0.15654127285415598 SRRRKKRFRQE 11 Unmodified _SRRRKKRFRQE_ 0 0 0 REV__nc|ENSG00000186854|Q86V40-2|TRABD2A REV__nc|ENSG00000186854|Q86V40-2|TRABD2A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 516.309829 1545.90766 4.2803 0.00221 -0.30497 -0.00015746 3.9754 0.0020525 516.3100663098803 99.378 0.14636 99.687 99.652 99.798 0.30835 -0.10459 -0.00028823 NaN 0.094841 18 7 4 NaN NaN NaN NaN 0 NaN NaN 0 2820700 + 31301 14073 19993 20055 0.15654127285415598 SRRRKRKWRRR 11 Unmodified _SRRRKRKWRRR_ 0 0 0 REV__ENST00000557821.5_1_15:40588574-40589003:-|nuORF REV__ENST00000557821.5_1_15:40588574-40589003:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 820.9188232421875 2 821.017081 1640.01961 NaN NaN NaN NaN NaN NaN NaN 78.626 1 78.626 78.126 79.126 0 0 0 0 1.0082 1 38695 38695 0 0 1 + 31302 14956 19994 20056 35236 35236 0.22520026153028994 SRRRKRKWRRR 11 Unmodified _SRRRKRKWRRR_ 0 0 0 REV__ENST00000557821.5_1_15:40588574-40589003:-|nuORF REV__ENST00000557821.5_1_15:40588574-40589003:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 821.0165405273438 2 821.017081 1640.01961 NaN NaN NaN NaN NaN NaN NaN 78.692 1 79.156 78.656 79.656 0.4642 0 0 0 1.0082 1 38293 38293 0 0 1 + 31303 14956 19994 20056 35237 35237 0.22520026153028994 SRRRPRPRWRL 11 Unmodified _SRRRPRPRWRL_ 0 0 0 nc|ENSG00000120913|Q96JY6-2|PDLIM2 nc|ENSG00000120913|Q96JY6-2|PDLIM2 nc|ENSG00000120913|Q96JY6-2|PDLIM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 768.4667358398438 2 768.466358 1534.91816 NaN NaN NaN NaN NaN NaN NaN 35.29 1 35.545 35.045 36.045 0.25524 0 0 0 1.0082 1 16080 16080 0 0 1 31304 9617 19995 20057 35238 35238 0.17210154730491922 SRRRRHLRRRQ 11 Unmodified _SRRRRHLRRRQ_ 0 0 0 REV__ENST00000215832.10_1_22:22221790-22221904:-|nuORF REV__ENST00000215832.10_1_22:22221790-22221904:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.3270263671875 3 526.324584 1575.95192 2.8075 0.0014777 2.2032 0.0011596 5.0107 0.0026373 526.3256033964498 101.53 0.1007 101.53 101.48 101.58 0 10 4 4 0 0 0 0.91462 1 56098 56098 0.08335 0.08335 1 4399800 + 31305 14797 19996 20058 35239 35239 0.18698576222232077 SRRRRHLRRRQ 11 Unmodified _SRRRRHLRRRQ_ 0 0 0 REV__ENST00000215832.10_1_22:22221790-22221904:-|nuORF REV__ENST00000215832.10_1_22:22221790-22221904:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.3271484375 3 526.324584 1575.95192 4.1548 0.0021868 0.84769 0.00044616 5.0025 0.002633 526.3249132976787 101.5 0.12602 101.81 101.72 101.85 0.31412 13 4 4 0 0 0 0.91462 1 46966 46966 0.08335 0.08335 1 2751700 + 31306 14797 19996 20058 35240 35240 0.18698576222232077 SRRRRHLRRRQ 11 Unmodified _SRRRRHLRRRQ_ 0 0 0 REV__ENST00000215832.10_1_22:22221790-22221904:-|nuORF REV__ENST00000215832.10_1_22:22221790-22221904:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 526.324584 1575.95192 2.8075 0.0014777 2.2032 0.0011596 5.0107 0.0026373 526.3256033964498 101.53 0.1007 101.53 101.48 101.58 0 -0.1909 0.00142 NaN 0.08335 10 4 4 NaN NaN NaN NaN 0 NaN NaN 0 4399800 + 31307 14797 19996 20058 0.18698576222232077 SRRRRHLRRRQ 11 Unmodified _SRRRRHLRRRQ_ 0 0 0 REV__ENST00000215832.10_1_22:22221790-22221904:-|nuORF REV__ENST00000215832.10_1_22:22221790-22221904:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 526.324584 1575.95192 1.9688 0.0010362 2.8395 0.0014945 4.8082 0.0025307 526.3255366100927 101.5 0.067528 101.55 101.52 101.58 0.057198 -0.17033 0.0024246 NaN 0.08335 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 2702600 + 31308 14797 19996 20058 0.18698576222232077 SRRRRKWKGRR 11 Unmodified _SRRRRKWKGRR_ 0 0 0 REV__nc|ENSG00000130159|Q9BQ95-4|ECSIT REV__nc|ENSG00000130159|Q9BQ95-4|ECSIT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 771.85205078125 2 771.477257 1540.93996 NaN NaN NaN NaN NaN NaN NaN 107.88 1 108.19 107.69 108.69 0.31421 0 0 0 1.0082 1 49759 49759 0 0 1 + 31309 17932 19997 20059 35241 35241 0.1911295947902545 SRRRRRKRA 9 Unmodified _SRRRRRKRA_ 0 0 0 ENST00000518385.5_3_8:97506087-97614626:+|nuORF;ENST00000302190.8_1_8:97506012-97605724:+|nuORF ENST00000518385.5_3_8:97506087-97614626:+|nuORF ENST00000518385.5_3_8:97506087-97614626:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 310.94207763671875 4 311.20261 1240.78134 2.225 0.00069243 0.57662 0.00017945 2.8016 0.00087188 311.20325034817904 49.978 0.14342 50.239 50.133 50.277 0.26146 5 4 2 0 0 0 0.11393 1 22829 22829 0.23584 0 1 165320 31310 6810 19998 20060 35242 35242 0.1705766557079187 SRRRRRKRKK 10 Unmodified _SRRRRRKRKK_ 0 0 0 REV__nc|ENSG00000028310|Q9H8M2-6|BRD9 REV__nc|ENSG00000028310|Q9H8M2-6|BRD9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 476.32012939453125 3 476.318659 1425.93415 NaN NaN NaN NaN NaN NaN NaN 40.004 1 40.645 40.145 41.145 0.64136 0 0 0 1.0003 1 18277 18277 0.62683 0 1 + 31311 17856 19999 20061 35243 35243 0.23821860967382236 SRRRRRLR 8 Unmodified _SRRRRRLR_ 0 0 0 REV__ENST00000426250.3_1_12:72665645-72666709:-|nuORF REV__ENST00000426250.3_1_12:72665645-72666709:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.3746948242188 2 578.373938 1154.73332 NaN NaN NaN NaN NaN NaN NaN 45.404 1 46.055 45.555 46.555 0.65104 0 0 0 0.99035 1 20806 20806 0.6015 0 1 + 31312 16214 20000 20062 35244 35244 0.1621459165073702 SRRRRRRHKRR 11 Unmodified _SRRRRRRHKRR_ 0 0 0 REV__nc|ENSG00000176444|P49760-3|CLK2 REV__nc|ENSG00000176444|P49760-3|CLK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 810.4527587890625 2 810.509955 1619.00536 NaN NaN NaN NaN NaN NaN NaN 87.364 1 87.364 86.864 87.864 0 0 0 0 1.0082 1 45030 45030 0 0 1 + 31313 13705 20001 20063 35245 35245 0.22061373724727673 SRRRRRRKER 10 Unmodified _SRRRRRRKER_ 0 0 0 REV__ENSG00000126461|ENST00000360565|SCAF1 REV__ENSG00000126461|ENST00000360565|SCAF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 728.4518432617188 2 728.45124 1454.88793 NaN NaN NaN NaN NaN NaN NaN 45.228 1 45.228 44.728 45.728 0 0 0 0 1.0003 1 20687 20687 1.4819 0.28856 1 + 31314 11710 20002 20064 35246 35246 0.17867796065274888 SRRRRRRRRHG 11 Unmodified _SRRRRRRRRHG_ 0 0 0 ENST00000366641.3_1_1:231557623-231557677:-|nuORF ENST00000366641.3_1_1:231557623-231557677:-|nuORF ENST00000366641.3_1_1:231557623-231557677:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 774.9765625 2 774.973205 1547.93186 3.7144 0.0028785 1.3692 0.0010611 5.0836 0.0039397 774.9741130744841 49.194 0.75623 49.194 49.118 49.874 0 51 32 2 0 0 0 0.91459 2 22575 22575;22585 0.35063 0.35063 1 994700 31315 7237 20003 20065 35247;35248 35247 0.17980825282256774 SRRRRRRRRHG 11 Unmodified _SRRRRRRRRHG_ 0 0 0 ENST00000366641.3_1_1:231557623-231557677:-|nuORF ENST00000366641.3_1_1:231557623-231557677:-|nuORF ENST00000366641.3_1_1:231557623-231557677:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 387.991943359375 4 387.990241 1547.93186 2.5682 0.00099642 0.23677 9.1866E-05 2.8049 0.0010883 387.9904943749369 52.418 0.21716 52.418 52.31 52.527 0 22 16 2 0 0 0 0.91359 1 23978 23978 0.40827 0 1 970550 31316 7237 20003 20065 35249 35249 0.17980825282256774 SRRRRRTARIR 11 Unmodified _SRRRRRTARIR_ 0 0 0 REV__ENST00000323039.9_2_19:40321124-40324722:-|nuORF REV__ENST00000323039.9_2_19:40321124-40324722:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 742.4671020507812 2 742.46689 1482.91923 NaN NaN NaN NaN NaN NaN NaN 61.629 1 62.289 61.789 62.789 0.66008 0 0 0 1.0082 1 28225 28225 0 0 1 + 31317 15331 20004 20066 35250 35250 0.1970836909938498 SRRSPIHHV 9 Unmodified _SRRSPIHHV_ 0 0 0 REV__ENST00000505813.1_1_5:110285472-110285946:-|nuORF REV__ENST00000505813.1_1_5:110285472-110285946:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.5434875488281 3 363.540579 1087.59991 NaN NaN NaN NaN NaN NaN NaN 35.317 1 35.317 34.817 35.817 0 0 0 0 0.89683 1 16023 16023 2.4985 0.21571 1 + 31318 16925 20005 20067 35251 35251 0.05961307754364498 SRRWRRWNRFN 11 Unmodified _SRRWRRWNRFN_ 0 0 0 nc|ENSG00000157388|Q01668-4|CACNA1D;nc|ENSG00000157388|Q01668-3|CACNA1D;ENSG00000157388|ENST00000350061|CACNA1D;nc|ENSG00000157388|Q01668-2|CACNA1D nc|ENSG00000157388|Q01668-4|CACNA1D nc|ENSG00000157388|Q01668-4|CACNA1D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 817.4381103515625 2 817.437798 1632.86104 NaN NaN NaN NaN NaN NaN NaN 56.013 1 56.013 55.513 56.513 0 0 0 0 1.0082 1 25774 25774 0 0 1 31319 3948 20006 20068 35252 35252 0.06992687454135194 SRSARLIRHR 10 Unmodified _SRSARLIRHR_ 0 0 0 nc|ENSG00000140265|Q8IWY8-4|ZSCAN29;ENSG00000140265|ENST00000684362|ZSCAN29;ENST00000566849.5_1_15:43653273-43656590:-|nuORF;nc|ENSG00000140265|Q8IWY8-2|ZSCAN29 nc|ENSG00000140265|Q8IWY8-4|ZSCAN29 nc|ENSG00000140265|Q8IWY8-4|ZSCAN29 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 313.69305419921875 4 313.693081 1250.74322 2.0637 0.00064736 -1.0866 -0.00034086 0.97707 0.0003065 313.69244204396546 40.233 0.49656 40.233 39.845 40.341 0 68 18 4 0 0 0 0.94134 1 18210 18210 0.62683 0.17231 1 6241200 31320 3187 20007 20069 35253 35253 0.12787734865469247 SRSARLIRHR 10 Unmodified _SRSARLIRHR_ 0 0 0 nc|ENSG00000140265|Q8IWY8-4|ZSCAN29;ENSG00000140265|ENST00000684362|ZSCAN29;ENST00000566849.5_1_15:43653273-43656590:-|nuORF;nc|ENSG00000140265|Q8IWY8-2|ZSCAN29 nc|ENSG00000140265|Q8IWY8-4|ZSCAN29 nc|ENSG00000140265|Q8IWY8-4|ZSCAN29 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 313.6929626464844 4 313.693081 1250.74322 2.2768 0.00071421 -1.1145 -0.0003496 1.1623 0.00036461 313.69231436414384 39.104 0.89393 39.901 39.301 40.195 0.79762 155 42 5 0 0 0 0.94134 1 17691 17691 0.62683 0.17231 1 3869100 31321 3187 20007 20069 35254 35254 0.12787734865469247 SRSARLIRHR 10 Unmodified _SRSARLIRHR_ 0 0 0 nc|ENSG00000140265|Q8IWY8-4|ZSCAN29;ENSG00000140265|ENST00000684362|ZSCAN29;ENST00000566849.5_1_15:43653273-43656590:-|nuORF;nc|ENSG00000140265|Q8IWY8-2|ZSCAN29 nc|ENSG00000140265|Q8IWY8-4|ZSCAN29 nc|ENSG00000140265|Q8IWY8-4|ZSCAN29 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 313.6930847167969 4 313.693081 1250.74322 2.3043 0.00072285 -1.1878 -0.0003726 1.1165 0.00035025 313.69235544528976 39.805 0.677 40.072 39.578 40.255 0.26696 78 24 4 0 0 0 0.93658 1 18117 18117 1.5923 0.89462 1 5143400 31322 3187 20007 20069 35255 35255 0.12787734865469247 SRSARLIRHR 10 Unmodified _SRSARLIRHR_ 0 0 0 nc|ENSG00000140265|Q8IWY8-4|ZSCAN29;ENSG00000140265|ENST00000684362|ZSCAN29;ENST00000566849.5_1_15:43653273-43656590:-|nuORF;nc|ENSG00000140265|Q8IWY8-2|ZSCAN29 nc|ENSG00000140265|Q8IWY8-4|ZSCAN29 nc|ENSG00000140265|Q8IWY8-4|ZSCAN29 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 313.6929626464844 4 313.693081 1250.74322 2.336 0.0007328 -1.4813 -0.00046468 0.85469 0.00026811 313.6923627605265 39.892 1.0868 40.533 39.686 40.772 0.64136 87 45 3 0 0 0 0.93658 1 18236 18236 1.5923 0.13716 1 7574300 31323 3187 20007 20069 35256 35256 0.12787734865469247 SRSETKYI 8 Unmodified _SRSETKYI_ 0 0 0 REV__nc|ENSG00000024048|Q8IWV8-3|UBR2 REV__nc|ENSG00000024048|Q8IWV8-3|UBR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.5103454589844 3 328.510063 982.50836 NaN NaN NaN NaN NaN NaN NaN 13.116 1 13.759 13.259 14.259 0.64272 0 0 0 0.967 1 5887 5887 5.7319 1.5423 1 + 31324 17855 20008 20070 35257 35257 0.01640579546540266 SRSKRRHRTV 10 Unmodified _SRSKRRHRTV_ 0 0 0 ENSG00000173578|ENST00000309285|XCR1 ENSG00000173578|ENST00000309285|XCR1 ENSG00000173578|ENST00000309285|XCR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.8848876953125 2 641.881793 1281.74903 4.1059 0.0026355 1.2083 0.00077557 5.3142 0.0034111 641.882377128056 91.512 1.3294 92.174 91.368 92.698 0.66198 195 68 4 0 0 0 0.93713 1 42070 42070 1.4819 0.28856 1 4087000 31325 4941 20009 20071 35258 35258 0.11942833377111128 SRSKRRHRTV 10 Unmodified _SRSKRRHRTV_ 0 0 0 ENSG00000173578|ENST00000309285|XCR1 ENSG00000173578|ENST00000309285|XCR1 ENSG00000173578|ENST00000309285|XCR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.8844604492188 2 641.881793 1281.74903 4.1103 0.0026383 1.1928 0.00076566 5.3031 0.003404 641.8823640476354 92.382 1.1525 93.029 92.627 93.779 0.64714 85 58 2 0 0 0 0.93713 1 42443 42443 1.4819 0.28856 1 936840 31326 4941 20009 20071 35259 35259 0.11942833377111128 SRSPHKRKRN 10 Unmodified _SRSPHKRKRN_ 0 0 0 ENSG00000168566|ENST00000342415|SNRNP48 ENSG00000168566|ENST00000342415|SNRNP48 ENSG00000168566|ENST00000342415|SNRNP48 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.3714599609375 2 633.368518 1264.72248 4.1316 0.0026168 1.0957 0.00069396 5.2272 0.0033108 633.3690522411799 89.672 1.7163 89.923 89.418 91.134 0.25137 145 83 3 0 0 0 0.93713 1 41219 41219 1.4819 0 1 1444700 31327 4634 20010 20072 35260 35260 0.10071144485800687 SRSPHKRKRN 10 Unmodified _SRSPHKRKRN_ 0 0 0 ENSG00000168566|ENST00000342415|SNRNP48 ENSG00000168566|ENST00000342415|SNRNP48 ENSG00000168566|ENST00000342415|SNRNP48 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.37109375 2 633.368518 1264.72248 NaN NaN NaN NaN NaN NaN NaN 91.355 1 91.607 91.107 92.107 0.25163 0 0 0 1.0003 1 42009 42009 1.4819 0 1 31328 4634 20010 20072 35261 35261 0.10071144485800687 SRSPHKRKRN 10 Unmodified _SRSPHKRKRN_ 0 0 0 ENSG00000168566|ENST00000342415|SNRNP48 ENSG00000168566|ENST00000342415|SNRNP48 ENSG00000168566|ENST00000342415|SNRNP48 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.3720703125 2 633.368518 1264.72248 NaN NaN NaN NaN NaN NaN NaN 91.47 1 91.722 91.222 92.222 0.25163 0 0 0 1.0003 1 42060 42060 1.4819 0 1 31329 4634 20010 20072 35262 35262 0.10071144485800687 SRSRKRHKRKR 11 Unmodified _SRSRKRHKRKR_ 0 0 0 REV__ENSG00000213079|ENST00000367178|SCAF8 REV__ENSG00000213079|ENST00000367178|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.7396240234375 4 374.488271 1493.92398 2.5893 0.00096965 -0.22871 -8.5651E-05 2.3606 0.000884 374.48803964428834 38.456 1.8491 39.09 38.118 39.968 0.63388 140 69 4 0 0 0 0.91403 1 17756 17756 0.073264 0 1 698580 + 31330 14485 20011 20073 35263 35263 0.1967725324213916 SRSRKRRRLA 10 Unmodified _SRSRKRRRLA_ 0 0 0 REV__ENST00000282516.12_2_5:36877126-36877222:+|nuORF REV__ENST00000282516.12_2_5:36877126-36877222:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 643.407958984375 2 643.405435 1284.79632 NaN NaN NaN NaN NaN NaN NaN 103.6 1 103.92 103.42 104.42 0.31863 0 0 0 1.002 1 47892 47892 0 0 1 + 31331 15094 20012 20074 35264 35264 0.16531112648135604 SRSRRRRRER 10 Unmodified _SRSRRRRRER_ 0 0 0 REV__ENSG00000116754|ENST00000370949|SRSF11 REV__ENSG00000116754|ENST00000370949|SRSF11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 707.9248046875 2 707.919772 1413.82499 NaN NaN NaN NaN NaN NaN NaN 96.63 1 96.907 96.407 97.407 0.27778 0 0 0 1.0003 1 44395 44395 1.4819 0.28856 1 + 31332 11419 20013 20075 35265 35265 0.13463230277238836 SRSRRRRYRY 10 Unmodified _SRSRRRRYRY_ 0 0 0 REV__ENSG00000075461|ENST00000262138|CACNG4 REV__ENSG00000075461|ENST00000262138|CACNG4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 728.4114990234375 2 728.411249 1454.80794 NaN NaN NaN NaN NaN NaN NaN 85.684 1 86.355 85.855 86.855 0.67061 0 0 0 1.0016 1 39457 39457 0.35063 0 1 + 31333 10529 20014 20076 35266 35266 0.09873309671479547 SRSRWVRF 8 Unmodified _SRSRWVRF_ 0 0 0 REV__ENST00000541975.2_2_12:133758174-133764492:+|nuORF REV__ENST00000541975.2_2_12:133758174-133764492:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.3059692382812 2 547.304324 1092.5941 3.3665 0.0018425 -0.30412 -0.00016644 3.0624 0.0016761 547.3041637901316 17.838 0.22898 18.14 18.042 18.271 0.30158 36 20 2 0 0 0 0.72385 1 8123 8123 2.5775 0 1 170010 + 31334 17192 20015 20077 35267 35267 0.051502092427199386 SRSSKQRLKIP 11 Unmodified _SRSSKQRLKIP_ 0 0 0 ENSG00000148773|ENST00000368654|MKI67;nc|ENSG00000148773|P46013-2|MKI67 ENSG00000148773|ENST00000368654|MKI67 ENSG00000148773|ENST00000368654|MKI67 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 650.399169921875 2 650.39641 1298.77827 4.2799 0.0027836 -0.45446 -0.00029558 3.8254 0.002488 650.3962701297736 91.809 1.5567 92.061 91.527 93.084 0.25253 141 77 3 0 0 0 0.91359 1 42217 42217 1.1933 0 1 1576200 31335 3615 20016 20078 35268 35268 0.14082932882752175 SRTHKKKFI 9 Unmodified _SRTHKKKFI_ 0 0 0 REV__ENST00000378182.3_1_13:50591365-50591479:+|nuORF REV__ENST00000378182.3_1_13:50591365-50591479:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.23809814453125 3 382.236497 1143.68766 3.1333 0.0011977 -0.39347 -0.0001504 2.7398 0.0010473 382.2364251050236 6.6496 0.45556 7.2732 7.0427 7.4982 0.62357 107 41 3 0 0 0 1.1138 1 3045 3045 2.086 0.75636 1 95435 + 31336 15846 20017 20079 35269 35269 0.12156508625139395 SRTMLRDNQGL 11 Unmodified _SRTMLRDNQGL_ 0 0 0 nc|ENSG00000165309|Q5W041-4|ARMC3;ENSG00000165309|ENST00000298032|ARMC3;nc|ENSG00000165309|Q5W041-3|ARMC3;nc|ENSG00000165309|Q5W041-5|ARMC3 nc|ENSG00000165309|Q5W041-4|ARMC3 nc|ENSG00000165309|Q5W041-4|ARMC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.88916015625 3 430.890949 1289.65102 3.2565 0.0014032 -3.0479 -0.0013133 0.20866 8.991E-05 431.2249061455356 103.27 0.25372 103.86 103.74 104 0.59822 29 17 2 0 0 0 0.91149 1 47742 47742 0.36667 0 1 339930 31337 4388 20018 20080 35270 35270 0.01777843946251778 SRVLKKKLKKK 11 Unmodified _SRVLKKKLKKK_ 0 0 0 REV__nc|ENSG00000135541|Q8N157-3|AHI1 REV__nc|ENSG00000135541|Q8N157-3|AHI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 678.482177734375 2 678.482289 1354.95002 NaN NaN NaN NaN NaN NaN NaN 81.766 1 81.85 81.35 82.35 0.084106 0 0 0 1.0082 1 40255 40255 0 0 1 + 31338 12026 20019 20081 35271 35271 0.28674709641040863 SRVLLLLLLLL 11 Unmodified _SRVLLLLLLLL_ 0 0 0 ENSG00000161921|ENST00000293778|CXCL16 ENSG00000161921|ENST00000293778|CXCL16 ENSG00000161921|ENST00000293778|CXCL16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.6346435546875 2 633.449591 1264.88463 NaN NaN NaN NaN NaN NaN NaN 85.914 1 86.163 85.663 86.663 0.24857 0 0 0 1.0082 1 39542 39542 0 0 1 31339 4109 20020 20082 35272 35272 0.26278295395400164 SRVMVTPLRRP 11 Unmodified _SRVMVTPLRRP_ 0 0 0 REV__ENSG00000112983|ENST00000254900|BRD8 REV__ENSG00000112983|ENST00000254900|BRD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.6983337402344 4 328.697404 1310.76051 2.2617 0.00074342 0.90782 0.0002984 3.1695 0.0010418 328.6976695892243 40.317 0.78276 40.317 39.729 40.512 0 59 30 2 0 0 0 0.91068 2 18195 18195;18253 1.3296 1.3296 1 1643200 + 31340 11284 20021 20083 35273;35274 35273 0.11755894356247154 SRVMVTPLRRP 11 Unmodified _SRVMVTPLRRP_ 0 0 0 REV__ENSG00000112983|ENST00000254900|BRD8 REV__ENSG00000112983|ENST00000254900|BRD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.6985778808594 4 328.697404 1310.76051 2.3141 0.00076062 1.0306 0.00033876 3.3447 0.0010994 328.69763054634245 39.02 1.1054 39.818 39.338 40.444 0.79762 141 53 3 0 0 0 0.91068 1 17575 17575 1.3296 0.11481 1 937940 + 31341 11284 20021 20083 35275 35275 0.11755894356247154 SRVMVTPLRRP 11 Unmodified _SRVMVTPLRRP_ 0 0 0 REV__ENSG00000112983|ENST00000254900|BRD8 REV__ENSG00000112983|ENST00000254900|BRD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.6983337402344 4 328.697404 1310.76051 2.4099 0.00079213 0.8065 0.0002651 3.2164 0.0010572 328.6975751219054 39.961 1.0846 40.228 39.32 40.404 0.26696 110 42 4 0 0 0 0.91068 1 18121 18121 1.3296 1.3296 1 1469300 + 31342 11284 20021 20083 35276 35276 0.11755894356247154 SRVMVTPLRRP 11 Unmodified _SRVMVTPLRRP_ 0 0 0 REV__ENSG00000112983|ENST00000254900|BRD8 REV__ENSG00000112983|ENST00000254900|BRD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.6988220214844 4 328.697404 1310.76051 2.3596 0.0007756 1.12 0.00036813 3.4796 0.0011437 328.697703189899 39.516 0.79295 40.154 39.532 40.325 0.63778 77 32 3 0 0 0 0.91068 2 17950 17950;18013 1.3296 1.3296 1 2302200 + 31343 11284 20021 20083 35277;35278 35277 0.11755894356247154 SRVNGAWQY 9 Unmodified _SRVNGAWQY_ 0 0 0 ENST00000412609.5_1_19:40170059-40174276:+|nuORF;ENST00000598164.2_1_19:40172096-40174784:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.7660522460938 2 540.764697 1079.51484 3.2426 0.0017535 -0.27934 -0.00015106 2.9632 0.0016024 540.7646433096511 34.392 0.29633 34.646 34.516 34.812 0.25389 29 12 3 0 0 0 0.020338 2 15688 15633;15688 67.838 39.351 1 1714000 31344 7681 20022 20084 35279;35280 35280 -0.021734825020985227 SRVNGAWQY 9 Unmodified _SRVNGAWQY_ 0 0 0 ENST00000412609.5_1_19:40170059-40174276:+|nuORF;ENST00000598164.2_1_19:40172096-40174784:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.7664794921875 2 540.764697 1079.51484 3.27 0.0017683 0.37737 0.00020407 3.6474 0.0019724 540.7648658787674 33.98 0.33722 34.6 34.389 34.726 0.62032 39 18 3 0 0 0 0.053359 3 15555 15509;15555;15601 45.74 27.605 1 1304900 31345 7681 20022 20084 35281;35282;35283 35282 -0.021734825020985227 SSAFASQVI 9 Unmodified _SSAFASQVI_ 0 0 0 REV__nc|ENSG00000100105|Q9HBE1-3|PATZ1 REV__nc|ENSG00000100105|Q9HBE1-3|PATZ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 455.2389221191406 2 455.23745 908.460347 2.8344 0.0012903 0.63796 0.00029042 3.4723 0.0015807 455.2377675035308 33.451 0.32263 33.704 33.506 33.829 0.25389 27 15 2 0 0 0 0.16976 1 15201 15201 25.399 2.663 1 490740 + 31346 10803 20023 20085 35284 35284 0.002455056264693667 SSARLMVR 8 Unmodified _SSARLMVR_ 0 0 0 REV__ENST00000430948.6_1_6:24645972-24646038:-|nuORF REV__ENST00000430948.6_1_6:24645972-24646038:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 307.1758728027344 3 307.17625 918.50692 NaN NaN NaN NaN NaN NaN NaN 29.248 1 30.037 29.537 30.537 0.78921 0 0 0 0.99035 1 13182 13182 1.4819 1.0236 1 + 31347 16261 20024 20086 35285 35285 0.04440666976779539 SSASCRCCCCC 11 Unmodified _SSASCRCCCCC_ 0 0 0 ENST00000561457.2_1_9:139008415-139008820:-|nuORF ENST00000561457.2_1_9:139008415-139008820:-|nuORF ENST00000561457.2_1_9:139008415-139008820:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.1593627929688 2 563.157267 1124.29998 NaN NaN NaN NaN NaN NaN NaN 13.444 1 13.688 13.188 14.188 0.24346 0 0 0 1.008 1 5868 5868 0.26902 0.26902 1 31348 8985 20025 20087 35286 35286 -0.2571963928353398 SSCCNPCC 8 Unmodified _SSCCNPCC_ 0 0 0 ENSG00000244411|ENST00000398536|KRTAP5-7;ENSG00000204572|ENST00000398531|KRTAP5-10;ENSG00000241598|ENST00000399682|KRTAP5-4;nc|ENSG00000241598|Q6L8H1|KRTAP5-4 ENSG00000244411|ENST00000398536|KRTAP5-7 ENSG00000244411|ENST00000398536|KRTAP5-7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 816.2184448242188 1 816.214327 815.207051 3.9043 0.0031868 -0.97109 -0.00079262 2.9332 0.0023941 816.2154515739603 2.6923 0.2764 2.6923 2.5017 2.7781 0 35 25 2 0 0 0 0.7471 2 1238 1238;1243 0 0 1 30233 31349 6019 20026 20088 35287;35288 35287 -0.20794452682969222 SSCCNPCC 8 Unmodified _SSCCNPCC_ 0 0 0 ENSG00000244411|ENST00000398536|KRTAP5-7;ENSG00000204572|ENST00000398531|KRTAP5-10;ENSG00000241598|ENST00000399682|KRTAP5-4;nc|ENSG00000241598|Q6L8H1|KRTAP5-4 ENSG00000244411|ENST00000398536|KRTAP5-7 ENSG00000244411|ENST00000398536|KRTAP5-7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 816.216552734375 1 816.214327 815.207051 3.9043 0.0031868 -0.49389 -0.00040312 3.4104 0.0027837 816.2159014159129 3.2746 0.47715 3.2746 2.8693 3.3465 0 61 47 2 0 0 0 0.7471 1 1452 1452 0 0 1 37024 31350 6019 20026 20088 35289 35289 -0.20794452682969222 SSCCNPCC 8 Unmodified _SSCCNPCC_ 0 0 0 ENSG00000244411|ENST00000398536|KRTAP5-7;ENSG00000204572|ENST00000398531|KRTAP5-10;ENSG00000241598|ENST00000399682|KRTAP5-4;nc|ENSG00000241598|Q6L8H1|KRTAP5-4 ENSG00000244411|ENST00000398536|KRTAP5-7 ENSG00000244411|ENST00000398536|KRTAP5-7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 816.21923828125 1 816.214327 815.207051 3.904 0.0031865 -0.24318 -0.00019849 3.6608 0.002988 816.2159762260032 3.4087 0.20421 3.4087 3.3138 3.518 0 28 20 2 0 0 0 0.7471 1 1524 1524 0 0 1 30603 31351 6019 20026 20088 35290 35290 -0.20794452682969222 SSCCNPCC 8 Unmodified _SSCCNPCC_ 0 0 0 ENSG00000244411|ENST00000398536|KRTAP5-7;ENSG00000204572|ENST00000398531|KRTAP5-10;ENSG00000241598|ENST00000399682|KRTAP5-4;nc|ENSG00000241598|Q6L8H1|KRTAP5-4 ENSG00000244411|ENST00000398536|KRTAP5-7 ENSG00000244411|ENST00000398536|KRTAP5-7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 817.2171020507812 1 816.214327 815.207051 3.9042 0.0031867 -1.4498 -0.0011834 2.4544 0.0020033 816.2153148714359 6.0761 0.63788 6.0761 5.9553 6.5932 0 115 77 2 0 0 0 0.7471 8 2725 2725;2761;2783;2825;2829;2871;2917;2965 0 0 1 31260 31352 6019 20026 20088 35291;35292;35293;35294;35295;35296;35297;35298 35291 -0.20794452682969222 SSCCNPCC 8 Unmodified _SSCCNPCC_ 0 0 0 ENSG00000244411|ENST00000398536|KRTAP5-7;ENSG00000204572|ENST00000398531|KRTAP5-10;ENSG00000241598|ENST00000399682|KRTAP5-4;nc|ENSG00000241598|Q6L8H1|KRTAP5-4 ENSG00000244411|ENST00000398536|KRTAP5-7 ENSG00000244411|ENST00000398536|KRTAP5-7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 816.2183227539062 1 816.214327 815.207051 3.1034 0.002533 -0.4436 -0.00036207 2.6598 0.002171 816.2162183544442 2.6508 0.12526 3.0372 2.9478 3.073 0.38641 22 16 2 0 0 0 0.7471 1 1215 1215 0 0 1 28072 31353 6019 20026 20088 35299 35299 -0.20794452682969222 SSCCNPCC 8 Unmodified _SSCCNPCC_ 0 0 0 ENSG00000244411|ENST00000398536|KRTAP5-7;ENSG00000204572|ENST00000398531|KRTAP5-10;ENSG00000241598|ENST00000399682|KRTAP5-4;nc|ENSG00000241598|Q6L8H1|KRTAP5-4 ENSG00000244411|ENST00000398536|KRTAP5-7 ENSG00000244411|ENST00000398536|KRTAP5-7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 817.2174072265625 1 816.214327 815.207051 3.1033 0.002533 -0.37651 -0.00030731 2.7268 0.0022257 816.2161222410507 4.7397 0.3926 5.1046 4.9391 5.3317 0.36497 57 42 2 0 0 0 0.7471 2 2122 2122;2171 0 0 1 41651 31354 6019 20026 20088 35300;35301 35300 -0.20794452682969222 SSCCNPCC 8 Unmodified _SSCCNPCC_ 0 0 0 ENSG00000244411|ENST00000398536|KRTAP5-7;ENSG00000204572|ENST00000398531|KRTAP5-10;ENSG00000241598|ENST00000399682|KRTAP5-4;nc|ENSG00000241598|Q6L8H1|KRTAP5-4 ENSG00000244411|ENST00000398536|KRTAP5-7 ENSG00000244411|ENST00000398536|KRTAP5-7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 816.2171630859375 1 816.214327 815.207051 3.1035 0.0025331 -1.0292 -0.00084002 2.0743 0.0016931 816.2155876885008 5.9771 0.42615 6.3299 6.2052 6.6314 0.35278 82 51 2 0 0 0 0.7471 1 2776 2776 0 0 1 29407 31355 6019 20026 20088 35302 35302 -0.20794452682969222 SSCCNPCC 8 Unmodified _SSCCNPCC_ 0 0 0 ENSG00000244411|ENST00000398536|KRTAP5-7;ENSG00000204572|ENST00000398531|KRTAP5-10;ENSG00000241598|ENST00000399682|KRTAP5-4;nc|ENSG00000241598|Q6L8H1|KRTAP5-4 ENSG00000244411|ENST00000398536|KRTAP5-7 ENSG00000244411|ENST00000398536|KRTAP5-7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 816.2206420898438 1 816.214327 815.207051 3.1041 0.0025336 -1.0651 -0.00086931 2.0391 0.0016643 816.2164242322183 7.694 0.22757 8.0199 7.8589 8.0865 0.32587 50 28 3 0 0 0 0.7471 2 3431 3431;3460 0 0 1 41976 31356 6019 20026 20088 35303;35304 35303 -0.20794452682969222 SSCCNPCC 8 Unmodified _SSCCNPCC_ 0 0 0 ENSG00000244411|ENST00000398536|KRTAP5-7;ENSG00000204572|ENST00000398531|KRTAP5-10;ENSG00000241598|ENST00000399682|KRTAP5-4;nc|ENSG00000241598|Q6L8H1|KRTAP5-4 ENSG00000244411|ENST00000398536|KRTAP5-7 ENSG00000244411|ENST00000398536|KRTAP5-7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 816.2173461914062 1 816.214327 815.207051 3.0669 0.0025032 -0.20291 -0.00016562 2.864 0.0023376 816.2161172134003 1.9399 0.72694 2.244 1.871 2.598 0.30411 88 60 2 0 0 0 0.7471 2 891 891;970 0 0 1 32872 31357 6019 20026 20088 35305;35306 35305 -0.20794452682969222 SSCCNPCC 8 Unmodified _SSCCNPCC_ 0 0 0 ENSG00000244411|ENST00000398536|KRTAP5-7;ENSG00000204572|ENST00000398531|KRTAP5-10;ENSG00000241598|ENST00000399682|KRTAP5-4;nc|ENSG00000241598|Q6L8H1|KRTAP5-4 ENSG00000244411|ENST00000398536|KRTAP5-7 ENSG00000244411|ENST00000398536|KRTAP5-7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 817.2184448242188 1 816.214327 815.207051 3.0669 0.0025033 -0.012067 -9.8495E-06 3.0548 0.0024934 816.216918312584 2.9199 0.42921 3.2241 3.1111 3.5403 0.3042 42 32 2 0 0 0 0.7471 2 1416 1416;1455 0 0 1 28634 31358 6019 20026 20088 35307;35308 35307 -0.20794452682969222 SSCCNPCC 8 Unmodified _SSCCNPCC_ 0 0 0 ENSG00000244411|ENST00000398536|KRTAP5-7;ENSG00000204572|ENST00000398531|KRTAP5-10;ENSG00000241598|ENST00000399682|KRTAP5-4;nc|ENSG00000241598|Q6L8H1|KRTAP5-4 ENSG00000244411|ENST00000398536|KRTAP5-7 ENSG00000244411|ENST00000398536|KRTAP5-7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 816.2195434570312 1 816.214327 815.207051 3.0669 0.0025032 -0.87351 -0.00071297 2.1934 0.0017903 816.2159209044548 5.6329 0.20376 5.9381 5.8173 6.0211 0.30519 37 25 2 0 0 0 0.7471 1 2545 2545 0 0 1 40492 31359 6019 20026 20088 35309 35309 -0.20794452682969222 SSCCNPCC 8 Unmodified _SSCCNPCC_ 0 0 0 ENSG00000244411|ENST00000398536|KRTAP5-7;ENSG00000204572|ENST00000398531|KRTAP5-10;ENSG00000241598|ENST00000399682|KRTAP5-4;nc|ENSG00000241598|Q6L8H1|KRTAP5-4 ENSG00000244411|ENST00000398536|KRTAP5-7 ENSG00000244411|ENST00000398536|KRTAP5-7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 816.2164306640625 1 816.214327 815.207051 3.0665 0.0025029 -0.96689 -0.00078919 2.0996 0.0017137 816.2153099824984 11.598 0.10857 11.905 11.85 11.958 0.30727 25 22 2 0 0 0 0.7471 1 5230 5230 0 0 1 48401 31360 6019 20026 20088 35310 35310 -0.20794452682969222 SSCCNPCC 8 Unmodified _SSCCNPCC_ 0 0 0 ENSG00000244411|ENST00000398536|KRTAP5-7;ENSG00000204572|ENST00000398531|KRTAP5-10;ENSG00000241598|ENST00000399682|KRTAP5-4;nc|ENSG00000241598|Q6L8H1|KRTAP5-4 ENSG00000244411|ENST00000398536|KRTAP5-7 ENSG00000244411|ENST00000398536|KRTAP5-7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 816.2163696289062 1 816.214327 815.207051 3.6702 0.0029957 -1.5359 -0.0012536 2.1343 0.001742 816.2152834544789 16.901 0.028965 17.206 17.19 17.219 0.30438 4 2 2 0 0 0 0.7471 1 7656 7656 0 0 1 32601 31361 6019 20026 20088 35311 35311 -0.20794452682969222 SSCCNPCC 8 Unmodified _SSCCNPCC_ 0 0 0 ENSG00000244411|ENST00000398536|KRTAP5-7;ENSG00000204572|ENST00000398531|KRTAP5-10;ENSG00000241598|ENST00000399682|KRTAP5-4;nc|ENSG00000241598|Q6L8H1|KRTAP5-4 ENSG00000244411|ENST00000398536|KRTAP5-7 ENSG00000244411|ENST00000398536|KRTAP5-7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 816.2169799804688 1 816.214327 815.207051 4.3338 0.0035373 -1.024 -0.00083584 3.3098 0.0027015 816.2153500177444 3.0145 0.18567 3.6366 3.5318 3.7175 0.6221 38 22 2 0 0 0 0.7471 1 1364 1364 0 0 1 38986 31362 6019 20026 20088 35312 35312 -0.20794452682969222 SSCCNPCC 8 Unmodified _SSCCNPCC_ 0 0 0 ENSG00000244411|ENST00000398536|KRTAP5-7;ENSG00000204572|ENST00000398531|KRTAP5-10;ENSG00000241598|ENST00000399682|KRTAP5-4;nc|ENSG00000241598|Q6L8H1|KRTAP5-4 ENSG00000244411|ENST00000398536|KRTAP5-7 ENSG00000244411|ENST00000398536|KRTAP5-7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 817.2174072265625 1 816.214327 815.207051 4.3336 0.0035371 -0.028013 -2.2865E-05 4.3056 0.0035143 816.21598960669 3.5571 0.22771 4.1792 4.0482 4.2759 0.6221 27 20 2 0 0 0 0.7471 2 1614 1614;1653 0 0 1 44761 31363 6019 20026 20088 35313;35314 35313 -0.20794452682969222 SSCCNPCC 8 Unmodified _SSCCNPCC_ 0 0 0 ENSG00000244411|ENST00000398536|KRTAP5-7;ENSG00000204572|ENST00000398531|KRTAP5-10;ENSG00000241598|ENST00000399682|KRTAP5-4;nc|ENSG00000241598|Q6L8H1|KRTAP5-4 ENSG00000244411|ENST00000398536|KRTAP5-7 ENSG00000244411|ENST00000398536|KRTAP5-7 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 816.214327 815.207051 3.9042 0.0031867 0.48621 0.00039685 4.3904 0.0035835 816.2164827891743 5.1609 0.14399 5.1609 5.0814 5.2254 0 0.02813 0.00040588 NaN 0 26 18 2 NaN NaN NaN NaN 0 NaN NaN 0 35997 31364 6019 20026 20088 -0.20794452682969222 SSCCNPCC 8 Unmodified _SSCCNPCC_ 0 0 0 ENSG00000244411|ENST00000398536|KRTAP5-7;ENSG00000204572|ENST00000398531|KRTAP5-10;ENSG00000241598|ENST00000399682|KRTAP5-4;nc|ENSG00000241598|Q6L8H1|KRTAP5-4 ENSG00000244411|ENST00000398536|KRTAP5-7 ENSG00000244411|ENST00000398536|KRTAP5-7 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 816.214327 815.207051 3.9035 0.0031861 0.58424 0.00047687 4.4877 0.003663 816.2160366322732 2.83 0.1824 2.83 2.7706 2.953 0 -0.10358 0.00027202 NaN 0 28 20 2 NaN NaN NaN NaN 0 NaN NaN 0 44223 31365 6019 20026 20088 -0.20794452682969222 SSCCNPCC 8 Unmodified _SSCCNPCC_ 0 0 0 ENSG00000244411|ENST00000398536|KRTAP5-7;ENSG00000204572|ENST00000398531|KRTAP5-10;ENSG00000241598|ENST00000399682|KRTAP5-4;nc|ENSG00000241598|Q6L8H1|KRTAP5-4 ENSG00000244411|ENST00000398536|KRTAP5-7 ENSG00000244411|ENST00000398536|KRTAP5-7 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 816.214327 815.207051 3.1034 0.002533 3.0473 0.0024873 6.1507 0.0050203 816.2156369582802 11.33 0.021997 11.609 11.589 11.611 0.2792 -0.14775 0.0026933 NaN 0 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 30956 31366 6019 20026 20088 -0.20794452682969222 SSCGDSGG 8 Unmodified _SSCGDSGG_ 0 0 0 ENST00000529874.5_1_11:118980840-118984381:+|nuORF ENST00000529874.5_1_11:118980840-118984381:+|nuORF ENST00000529874.5_1_11:118980840-118984381:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.7120361328125 2 335.110861 668.207169 NaN NaN NaN NaN NaN NaN NaN 65.247 1 65.903 65.403 66.403 0.65672 0 0 0 0.99035 1 29913 29913 0.69038 0 1 31367 8703 20027 20089 35315 35315 -0.14020670095430887 SSCGPCCGC 9 Unmodified _SSCGPCCGC_ 0 0 0 REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 816.2195434570312 1 816.214327 815.207051 3.9035 0.0031861 0.58424 0.00047687 4.4877 0.003663 816.2160366322732 2.83 0.1824 2.83 2.7706 2.953 0 28 20 2 0 0 0 1.2459 2 1290 1290;1332 0 0 1 44223 + 31368 17750 20028 20090 35316;35317 35316 -0.20794452682957854 SSCGPCCGC 9 Unmodified _SSCGPCCGC_ 0 0 0 REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 817.2188110351562 1 816.214327 815.207051 3.9042 0.0031867 0.48621 0.00039685 4.3904 0.0035835 816.2164827891743 5.1609 0.14399 5.1609 5.0814 5.2254 0 26 18 2 0 0 0 1.2459 2 2328 2328;2366 0 0 1 35997 + 31369 17750 20028 20090 35318;35319 35318 -0.20794452682957854 SSCGPCCGC 9 Unmodified _SSCGPCCGC_ 0 0 0 REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 816.2190551757812 1 816.214327 815.207051 3.1032 0.0025329 0.35084 0.00028636 3.4541 0.0028193 816.2164697942912 7.9123 0.23978 8.2381 8.0653 8.3051 0.32587 45 29 2 0 0 0 1.2459 2 3539 3539;3563 0 0 1 27376 + 31370 17750 20028 20090 35320;35321 35320 -0.20794452682957854 SSCGPCCGC 9 Unmodified _SSCGPCCGC_ 0 0 0 REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 816.2221069335938 1 816.214327 815.207051 3.067 0.0025033 0.19323 0.00015772 3.2602 0.002661 816.2167370981133 0.40233 0.23328 0.70644 0.56304 0.79631 0.30411 44 29 2 0 0 0 1.2459 2 141 141;188 0 0 1 67916 + 31371 17750 20028 20090 35322;35323 35322 -0.20794452682957854 SSCGPCCGC 9 Unmodified _SSCGPCCGC_ 0 0 0 REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 816.2186279296875 1 816.214327 815.207051 3.0663 0.0025027 0.047527 3.8792E-05 3.1138 0.0025415 816.2157125717782 7.9016 0.31364 8.2078 8.0411 8.3548 0.30618 39 26 2 0 0 0 1.2459 1 3591 3591 0 0 1 41369 + 31372 17750 20028 20090 35324 35324 -0.20794452682957854 SSCGPCCGC 9 Unmodified _SSCGPCCGC_ 0 0 0 REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 817.2158203125 1 816.214327 815.207051 3.0668 0.0025031 0.063815 5.2086E-05 3.1306 0.0025552 816.2162325274993 10.089 0.1676 10.396 10.327 10.494 0.30699 29 20 2 0 0 0 1.2459 1 4568 4568 0 0 1 37975 + 31373 17750 20028 20090 35325 35325 -0.20794452682957854 SSCGPCCGC 9 Unmodified _SSCGPCCGC_ 0 0 0 REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 816.2191162109375 1 816.214327 815.207051 4.3342 0.0035376 0.098231 8.0177E-05 4.4324 0.0036178 816.2151567575964 7.1989 0.14547 7.8236 7.7592 7.9047 0.62473 17 10 2 0 0 0 1.2459 1 3247 3247 0 0 1 20611 + 31374 17750 20028 20090 35326 35326 -0.20794452682957854 SSCGPCCGC 9 Unmodified _SSCGPCCGC_ 0 0 0 REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 816.214327 815.207051 3.1032 0.0025329 0.35084 0.00028636 3.4541 0.0028193 816.2164697942912 7.9123 0.23978 8.2381 8.0653 8.3051 0.32587 0.14829 0.00015714 NaN 0 45 29 2 NaN NaN NaN NaN 0 NaN NaN 0 27376 + 31375 17750 20028 20090 -0.20794452682957854 SSCGPCCGC 9 Unmodified _SSCGPCCGC_ 0 0 0 REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 816.214327 815.207051 3.0663 0.0025027 0.047527 3.8792E-05 3.1138 0.0025415 816.2157125717782 7.9016 0.31364 8.2078 8.0411 8.3548 0.30618 0.11795 -9.0434E-05 NaN 0 39 26 2 NaN NaN NaN NaN 0 NaN NaN 0 41369 + 31376 17750 20028 20090 -0.20794452682957854 SSCGPCCGC 9 Unmodified _SSCGPCCGC_ 0 0 0 REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 816.214327 815.207051 3.0668 0.0025031 0.063815 5.2086E-05 3.1306 0.0025552 816.2162325274993 10.089 0.1676 10.396 10.327 10.494 0.30699 0.085914 -0.0001142 NaN 0 29 20 2 NaN NaN NaN NaN 0 NaN NaN 0 37975 + 31377 17750 20028 20090 -0.20794452682957854 SSCGPCCGC 9 Unmodified _SSCGPCCGC_ 0 0 0 REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 816.214327 815.207051 4.3342 0.0035376 0.098231 8.0177E-05 4.4324 0.0036178 816.2151567575964 7.1989 0.14547 7.8236 7.7592 7.9047 0.62473 -0.26624 -4.9049E-05 NaN 0 17 10 2 NaN NaN NaN NaN 0 NaN NaN 0 20611 + 31378 17750 20028 20090 -0.20794452682957854 SSCGPCCGC 9 Unmodified _SSCGPCCGC_ 0 0 0 REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant REV__KCNQ2|p.R432C|1|0.22|ENSG00000075043|chr20:63419626-63419626|G/A|missense_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 816.214327 815.207051 4.3335 0.0035371 0.45273 0.00036952 4.7863 0.0039066 816.216311066017 9.5944 0.19316 10.224 10.085 10.279 0.62936 -0.085914 0.00020324 NaN 0 16 12 2 NaN NaN NaN NaN 0 NaN NaN 0 29951 + 31379 17750 20028 20090 -0.20794452682957854 SSCHICPSHE 10 Unmodified _SSCHICPSHE_ 0 0 0 REV__ENST00000498822.5_1_3:51996828-51996966:-|nuORF REV__ENST00000498822.5_1_3:51996828-51996966:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.218994140625 2 550.218408 1098.42226 NaN NaN NaN NaN NaN NaN NaN 87.765 1 88.443 87.943 88.943 0.67818 0 0 0 1.0003 1 40424 40424 1.4819 0.68827 1 + 31380 16875 20029 20091 35327 35327 -0.12301071622141535 SSCPGDPS 8 Unmodified _SSCPGDPS_ 0 0 0 ENST00000203630.9_2_12:6862424-6862610:-|nuORF ENST00000203630.9_2_12:6862424-6862610:-|nuORF ENST00000203630.9_2_12:6862424-6862610:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 375.14471435546875 2 375.142161 748.269769 NaN NaN NaN NaN NaN NaN NaN 90.088 1 90.761 90.261 91.261 0.67271 0 0 0 0.99035 1 41467 41467 2.5775 0 1 31381 6390 20030 20092 35328 35328 -0.1144352402725417 SSDASCYY 8 Unmodified _SSDASCYY_ 0 0 0 REV__ENSG00000196865|ENST00000369301|NHLRC2 REV__ENSG00000196865|ENST00000369301|NHLRC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 448.6286926269531 2 448.160551 894.306548 NaN NaN NaN NaN NaN NaN NaN 77.99 1 78.243 77.743 78.743 0.25335 0 0 0 0.99035 1 35917 35917 0.79363 0 1 + 31382 14243 20031 20093 35329 35329 -0.14483272201357522 SSDDCGEC 8 Unmodified _SSDDCGEC_ 0 0 0 REV__ENST00000509614.1_1_4:103822343-103831634:-|nuORF REV__ENST00000509614.1_1_4:103822343-103831634:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 816.2196044921875 1 815.21821 814.210933 3.1038 0.0025303 -3.9953 -0.003257 -0.89145 -0.00072673 815.2160840227981 11.256 0.04685 11.535 11.506 11.553 0.2792 15 9 2 0 0 0 0.7471 2 4881 4881;4886 0 0 1 34900 + 31383 16964 20032 20094 35330;35331 35330 -0.20360368383899186 SSDDCGEC 8 Unmodified _SSDDCGEC_ 0 0 0 REV__ENST00000509614.1_1_4:103822343-103831634:-|nuORF REV__ENST00000509614.1_1_4:103822343-103831634:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 815.21821 814.210933 3.1038 0.0025303 -3.9953 -0.003257 -0.89145 -0.00072673 815.2160840227981 11.256 0.04685 11.535 11.506 11.553 0.2792 -0.094836 0.00088322 NaN 0 15 9 2 NaN NaN NaN NaN 0 NaN NaN 0 34900 + 31384 16964 20032 20094 -0.20360368383899186 SSDDCGEC 8 Unmodified _SSDDCGEC_ 0 0 0 REV__ENST00000509614.1_1_4:103822343-103831634:-|nuORF REV__ENST00000509614.1_1_4:103822343-103831634:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 815.21821 814.210933 4.3342 0.0035333 -5.244 -0.004275 -0.90975 -0.00074165 815.2146647868959 11.091 0.34203 11.724 11.444 11.786 0.63304 0.094836 -0.00013474 NaN 0 58 35 2 NaN NaN NaN NaN 0 NaN NaN 0 41477 + 31385 16964 20032 20094 -0.20360368383899186 SSDDDDDDDD 10 Unmodified _SSDDDDDDDD_ 0 0 0 nc|ENSG00000197969|Q96RL7-2|VPS13A nc|ENSG00000197969|Q96RL7-2|VPS13A;REV__ENSG00000118096|ENST00000264021|IFT46 nc|ENSG00000197969|Q96RL7-2|VPS13A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.1671142578125 2 557.152359 1112.29017 NaN NaN NaN NaN NaN NaN NaN 67.692 1 67.692 67.192 68.192 0 0 0 0 1.002 1 32516 32516 0 0 1 31386 9808;11462 20033 20095 35332 35332 -0.2614877141506895 SSDDDDDDDDD 11 Unmodified _SSDDDDDDDDD_ 0 0 0 nc|ENSG00000197969|Q96RL7-2|VPS13A nc|ENSG00000197969|Q96RL7-2|VPS13A nc|ENSG00000197969|Q96RL7-2|VPS13A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.6651000976562 2 614.665831 1227.31711 NaN NaN NaN NaN NaN NaN NaN 31.086 1 31.086 30.586 31.586 0 0 0 0 1.0082 1 14058 14058 0 0 1 31387 9808 20034 20096 35333 35333 -0.28745707594544 SSDEEACP 8 Unmodified _SSDEEACP_ 0 0 0 ENSG00000162063|ENST00000397066|CCNF ENSG00000162063|ENST00000397066|CCNF ENSG00000162063|ENST00000397066|CCNF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 419.4851379394531 2 419.150183 836.285813 NaN NaN NaN NaN NaN NaN NaN 65.697 1 66.354 65.854 66.854 0.65672 0 0 0 0.99035 1 30118 30118 0.69038 0 1 31388 4118 20035 20097 35334 35334 -0.13887862581020727 SSEDDDDDDD 10 Unmodified _SSEDDDDDDD_ 0 0 0 nc|ENSG00000077782|P11362-14|FGFR1;nc|ENSG00000077782|P11362-4|FGFR1;nc|ENSG00000077782|P11362-3|FGFR1;nc|ENSG00000077782|P11362-21|FGFR1;ENSG00000077782|ENST00000447712|FGFR1;nc|ENSG00000077782|P11362-19|FGFR1;nc|ENSG00000077782|P11362-7|FGFR1;nc|ENSG00000077782|P11362-2|FGFR1;nc|ENSG00000077782|P11362-20|FGFR1;ENST00000474970.1_1_8:38285813-38287302:-|nuORF;nc|ENSG00000077782|P11362-18|FGFR1;nc|ENSG00000077782|P11362-16|FGFR1;ENST00000496296.5_1_8:38281789-38325791:-|nuORF;ENST00000470826.5_1_8:38281789-38325791:-|nuORF;ENST00000526570.5_1_8:38285813-38285975:-|nuORF;nc|ENSG00000077782|P11362-11|FGFR1;nc|ENSG00000077782|P11362-10|FGFR1;nc|ENSG00000077782|P11362-9|FGFR1;nc|ENSG00000077782|P11362-8|FGFR1 nc|ENSG00000077782|P11362-14|FGFR1;nc|ENSG00000077782|P11362-11|FGFR1 nc|ENSG00000077782|P11362-14|FGFR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.1595458984375 2 564.160184 1126.30582 NaN NaN NaN NaN NaN NaN NaN 21.997 1 22.585 22.085 23.085 0.58739 0 0 0 1.002 1 9774 9774 0 0 1 31389 869;9563 20036 20098 35335 35335 -0.2522848489802527 SSEEFEDKWFR 11 Unmodified _SSEEFEDKWFR_ 0 0 0 ENSG00000189376|ENST00000276704|C8orf76 ENSG00000189376|ENST00000276704|C8orf76 ENSG00000189376|ENST00000276704|C8orf76 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 730.330078125 2 730.328056 1458.64156 NaN NaN NaN NaN NaN NaN NaN 29.51 1 29.51 29.01 30.01 0 0 0 0 1.0072 1 13320 13320 1.3295 0 1 31390 5712 20037 20099 35336 35336 -0.06941645858296397 SSEHECCDSH 10 Unmodified _SSEHECCDSH_ 0 0 0 REV__nc|ENSG00000285946|P0DV60|LCE7A REV__nc|ENSG00000285946|P0DV60|LCE7A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.1848754882812 2 567.184762 1132.35497 NaN NaN NaN NaN NaN NaN NaN 20.767 1 21.173 20.673 21.673 0.40533 0 0 0 1.002 1 9221 9221 0 0 1 + 31391 18169 20038 20100 35337 35337 -0.2059114662374668 SSEHIVEREAE 11 Unmodified _SSEHIVEREAE_ 0 0 0 nc|ENSG00000157168|Q02297-11|NRG1;nc|ENSG00000157168|Q02297-7|NRG1;ENSG00000157168|ENST00000405005|NRG1;nc|ENSG00000157168|Q02297-6|NRG1;nc|ENSG00000157168|Q02297-2|NRG1;nc|ENSG00000157168|Q02297-12|NRG1;nc|ENSG00000157168|Q02297-3|NRG1 nc|ENSG00000157168|Q02297-11|NRG1 nc|ENSG00000157168|Q02297-11|NRG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 643.3070678710938 2 643.304581 1284.59461 3.6777 0.0023659 -0.52933 -0.00034052 3.1484 0.0020254 643.3043726016225 43.565 0.35591 43.835 43.628 43.984 0.27021 39 12 4 0 0 0 0.71079 1 19914 19914 10.8 2.0541 1 5807800 31392 3941 20039 20101 35338 35338 -0.03630505409387297 SSEIQMMTL 9 Unmodified _SSEIQMMTL_ 0 0 0 nc|ENSG00000170325|Q9NQV6-2|PRDM10;nc|ENSG00000170325|Q9NQV6-1|PRDM10;nc|ENSG00000170325|Q9NQV6-5|PRDM10;nc|ENSG00000170325|Q9NQV6|PRDM10;ENSG00000170325|ENST00000360871|PRDM10;nc|ENSG00000170325|Q9NQV6-7|PRDM10;nc|ENSG00000170325|Q9NQV6-6|PRDM10 nc|ENSG00000170325|Q9NQV6-2|PRDM10 nc|ENSG00000170325|Q9NQV6-2|PRDM10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.2434692382812 2 520.24356 1038.47257 2.8954 0.0015063 -0.030272 -1.5749E-05 2.8651 0.0014906 520.2419772916712 70.551 0.7182 71.213 70.987 71.705 0.66209 153 43 6 0 0 0 0.032303 2 32309 32309;32359 54.774 12.679 1 4368200 31393 4742 20040 20102 35339;35340 35339 -0.04512962016997335 SSENKKGF 8 Unmodified _SSENKKGF_ 0 0 0 REV__ENST00000302517.7_1_5:139063018-139063435:+|nuORF REV__ENST00000302517.7_1_5:139063018-139063435:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 448.7285461425781 2 448.727249 895.439946 3.0106 0.0013509 0.49272 0.0002211 3.5033 0.001572 448.72738443039276 27.207 0.15732 27.207 27.091 27.249 0 15 10 2 0 0 0 0.70799 1 12230 12230 5.2307 5.2307 1 211440 + 31394 15201 20041 20103 35341 35341 -0.011956650333218022 SSERTLSGF 9 Unmodified _SSERTLSGF_ 0 0 0 REV__ENST00000582314.5_1_17:17997264-18003464:+|nuORF REV__ENST00000582314.5_1_17:17997264-18003464:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.2446594238281 2 492.243264 982.471974 3.2736 0.0016114 0.44622 0.00021965 3.7198 0.0018311 492.243468124234 27.155 0.21319 27.155 27.046 27.259 0 22 14 2 0 0 0 0.24465 1 12208 12208 20.454 0 1 230890 + 31395 17514 20042 20104 35342 35342 -0.01996297350160603 SSERTLSGF 9 Unmodified _SSERTLSGF_ 0 0 0 REV__ENST00000582314.5_1_17:17997264-18003464:+|nuORF REV__ENST00000582314.5_1_17:17997264-18003464:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.7459411621094 2 492.243264 982.471974 3.1202 0.0015359 0.82593 0.00040656 3.9462 0.0019425 492.24385635864036 26.248 0.25806 27.027 26.907 27.165 0.7787 33 21 2 0 0 0 0.36069 2 11787 11787;11835 14.838 0 1 193010 + 31396 17514 20042 20104 35343;35344 35343 -0.01996297350160603 SSERTLSGF 9 Unmodified _SSERTLSGF_ 0 0 0 REV__ENST00000582314.5_1_17:17997264-18003464:+|nuORF REV__ENST00000582314.5_1_17:17997264-18003464:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 492.243264 982.471974 3.2736 0.0016114 0.44622 0.00021965 3.7198 0.0018311 492.243468124234 27.155 0.21319 27.155 27.046 27.259 0 0.063971 -0.00012814 NaN 20.454 22 14 2 NaN NaN NaN NaN 0 NaN NaN 0 230890 + 31397 17514 20042 20104 -0.01996297350160603 SSERTLSGF 9 Unmodified _SSERTLSGF_ 0 0 0 REV__ENST00000582314.5_1_17:17997264-18003464:+|nuORF REV__ENST00000582314.5_1_17:17997264-18003464:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 492.243264 982.471974 3.1202 0.0015359 0.82593 0.00040656 3.9462 0.0019425 492.24385635864036 26.248 0.25806 27.027 26.907 27.165 0.7787 -0.063971 0.00024568 NaN 20.454 33 21 2 NaN NaN NaN NaN 0 NaN NaN 0 193010 + 31398 17514 20042 20104 -0.01996297350160603 SSFLRRLYEEE 11 Unmodified _SSFLRRLYEEE_ 0 0 0 ENSG00000135443|ENST00000257901|KRT85;CON__P78386 ENSG00000135443|ENST00000257901|KRT85 ENSG00000135443|ENST00000257901|KRT85 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 714.8670654296875 2 714.859523 1427.70449 3.6392 0.0026015 1.1456 0.00081898 4.7848 0.0034205 714.8621122489172 38.366 0.18713 38.63 38.503 38.69 0.26408 12 5 3 0 0 0 0.67822 1 17480 17480 12.241 0 1 826470 + 31399 223 20043 20105 35345 35345 0.007749199297677478 SSFLRRLYEEE 11 Unmodified _SSFLRRLYEEE_ 0 0 0 ENSG00000135443|ENST00000257901|KRT85;CON__P78386 ENSG00000135443|ENST00000257901|KRT85 ENSG00000135443|ENST00000257901|KRT85 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 714.863525390625 2 714.859523 1427.70449 3.8272 0.0027359 0.60658 0.00043362 4.4338 0.0031696 715.3620463842856 37.791 0.27699 38.425 38.304 38.581 0.63388 22 9 3 0 0 0 0.67822 1 17286 17286 12.241 4.6317 1 572190 + 31400 223 20043 20105 35346 35346 0.007749199297677478 SSGGSGCG 8 Unmodified _SSGGSGCG_ 0 0 0 REV__ENSG00000138756|ENST00000502613|BMP2K;REV__nc|ENSG00000138756|Q9NSY1-2|BMP2K REV__ENSG00000138756|ENST00000502613|BMP2K MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.2125244140625 1 611.208966 610.201689 3.5607 0.0021763 1.2218 0.00074676 4.7825 0.0029231 611.2096388129913 52.215 0.37461 52.215 51.992 52.366 0 48 26 2 0 0 0 0.7471 1 23966 23966 0 0 1 2624900 + 31401 12187;17961 20044 20106 35347 35347 -0.11900348887240852 SSGGSGCG 8 Unmodified _SSGGSGCG_ 0 0 0 REV__ENSG00000138756|ENST00000502613|BMP2K;REV__nc|ENSG00000138756|Q9NSY1-2|BMP2K REV__ENSG00000138756|ENST00000502613|BMP2K MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.6690673828125 1 611.208966 610.201689 4.0265 0.0024611 1.2769 0.00078048 5.3035 0.0032415 611.2095340417616 54.083 0.36602 54.083 53.971 54.337 0 40 28 2 0 0 0 0.14355 1 24906 24906 0 0 1 1348100 + 31402 12187;17961 20044 20106 35348 35348 -0.11900348887240852 SSGGSGCG 8 Unmodified _SSGGSGCG_ 0 0 0 REV__ENSG00000138756|ENST00000502613|BMP2K;REV__nc|ENSG00000138756|Q9NSY1-2|BMP2K REV__ENSG00000138756|ENST00000502613|BMP2K MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 611.208966 610.201689 3.5607 0.0021763 1.2218 0.00074676 4.7825 0.0029231 611.2096388129913 52.215 0.37461 52.215 51.992 52.366 0 -0.0084427 -0.00025216 NaN 0 48 26 2 NaN NaN NaN NaN 0 NaN NaN 0 2624900 + 31403 12187;17961 20044 20106 -0.11900348887240852 SSGGSGCG 8 Unmodified _SSGGSGCG_ 0 0 0 REV__ENSG00000138756|ENST00000502613|BMP2K;REV__nc|ENSG00000138756|Q9NSY1-2|BMP2K REV__ENSG00000138756|ENST00000502613|BMP2K MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 611.208966 610.201689 2.7589 0.0016863 2.1007 0.001284 4.8596 0.0029703 611.210103628583 51.529 0.36005 52.346 52.173 52.533 0.81738 0.12254 0.00028506 NaN 0 55 24 3 NaN NaN NaN NaN 0 NaN NaN 0 2467300 + 31404 12187;17961 20044 20106 -0.11900348887240852 SSGGSGCG 8 Unmodified _SSGGSGCG_ 0 0 0 REV__ENSG00000138756|ENST00000502613|BMP2K;REV__nc|ENSG00000138756|Q9NSY1-2|BMP2K REV__ENSG00000138756|ENST00000502613|BMP2K MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 611.208966 610.201689 3.1495 0.001925 1.5565 0.00095132 4.706 0.0028763 611.2098740161798 53.331 0.28243 54.135 54.041 54.323 0.80351 0.030892 -0.00015358 NaN 0 41 27 2 NaN NaN NaN NaN 0 NaN NaN 0 1752100 + 31405 12187;17961 20044 20106 -0.11900348887240852 SSGGSGCG 8 Unmodified _SSGGSGCG_ 0 0 0 REV__ENSG00000138756|ENST00000502613|BMP2K;REV__nc|ENSG00000138756|Q9NSY1-2|BMP2K REV__ENSG00000138756|ENST00000502613|BMP2K MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 611.208966 610.201689 3.453 0.0021105 1.3145 0.00080346 4.7676 0.002914 611.2095253963296 51.891 0.37637 52.154 51.982 52.359 0.26228 -0.069881 -0.00019545 NaN 0 67 31 3 NaN NaN NaN NaN 0 NaN NaN 0 2966600 + 31406 12187;17961 20044 20106 -0.11900348887240852 SSGGSGCG 8 Unmodified _SSGGSGCG_ 0 0 0 REV__ENSG00000138756|ENST00000502613|BMP2K;REV__nc|ENSG00000138756|Q9NSY1-2|BMP2K REV__ENSG00000138756|ENST00000502613|BMP2K MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 611.208966 610.201689 3.5098 0.0021452 1.949 0.0011912 5.4588 0.0033365 611.2099804220139 53.815 0.42732 54.079 53.884 54.312 0.26462 -0.024354 8.6326E-05 NaN 0 36 16 3 NaN NaN NaN NaN 0 NaN NaN 0 1723700 + 31407 12187;17961 20044 20106 -0.11900348887240852 SSGGSGCG 8 Unmodified _SSGGSGCG_ 0 0 0 REV__ENSG00000138756|ENST00000502613|BMP2K;REV__nc|ENSG00000138756|Q9NSY1-2|BMP2K REV__ENSG00000138756|ENST00000502613|BMP2K MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 611.208966 610.201689 3.3865 0.0020699 1.8906 0.0011556 5.2771 0.0032254 611.2098853696702 51.52 0.39277 52.179 51.939 52.332 0.65956 -0.044213 0.00015664 NaN 0 57 23 3 NaN NaN NaN NaN 0 NaN NaN 0 2815000 + 31408 12187;17961 20044 20106 -0.11900348887240852 SSGGSGCG 8 Unmodified _SSGGSGCG_ 0 0 0 REV__ENSG00000138756|ENST00000502613|BMP2K;REV__nc|ENSG00000138756|Q9NSY1-2|BMP2K REV__ENSG00000138756|ENST00000502613|BMP2K MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 611.208966 610.201689 3.4019 0.0020793 2.0473 0.0012513 5.4491 0.0033306 611.2100544917134 53.454 0.41421 54.118 53.865 54.279 0.6644 0.014631 0.0001464 NaN 0 30 18 2 NaN NaN NaN NaN 0 NaN NaN 0 1530000 + 31409 12187;17961 20044 20106 -0.11900348887240852 SSGPVDPMM 9 Unmodified _SSGPVDPMM_ 0 0 0 ENSG00000090487|ENST00000204566|SPG21;nc|ENSG00000090487|Q9NZD8-2|SPG21 ENSG00000090487|ENST00000204566|SPG21 ENSG00000090487|ENST00000204566|SPG21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 920.388671875 1 920.385216 919.377939 3.5231 0.0032426 0.49435 0.000455 4.0175 0.0036976 920.3857866420772 47.485 0.26148 47.485 47.334 47.595 0 24 14 2 0 0 0 0.012748 2 21748 21702;21748 78.149 52.75 1 1048400 31410 1059 20045 20107 35349;35350 35350 -0.08497475768331242 SSGPVDPMM 9 Unmodified _SSGPVDPMM_ 0 0 0 ENSG00000090487|ENST00000204566|SPG21;nc|ENSG00000090487|Q9NZD8-2|SPG21 ENSG00000090487|ENST00000204566|SPG21 ENSG00000090487|ENST00000204566|SPG21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 460.697998046875 2 460.696246 919.377939 2.526 0.0011637 0.12885 5.9361E-05 2.6549 0.0012231 460.6961742388747 47.489 0.23804 47.489 47.334 47.572 0 23 13 2 0 0 0 0.071101 1 21711 21711 39.957 16.809 1 1104900 31411 1059 20045 20107 35351 35351 -0.08497475768331242 SSGPVDPMM 9 Unmodified _SSGPVDPMM_ 0 0 0 ENSG00000090487|ENST00000204566|SPG21;nc|ENSG00000090487|Q9NZD8-2|SPG21 ENSG00000090487|ENST00000204566|SPG21 ENSG00000090487|ENST00000204566|SPG21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 920.3875732421875 1 920.385216 919.377939 3.5058 0.0032267 -1.1021 -0.0010143 2.4038 0.0022124 920.3841570183787 46.487 0.1095 47.316 47.22 47.33 0.82915 7 4 2 0 0 0 0.032303 1 21161 21161 54.774 33.027 1 929950 31412 1059 20045 20107 35352 35352 -0.08497475768331242 SSGPVDPMM 9 Unmodified _SSGPVDPMM_ 0 0 0 ENSG00000090487|ENST00000204566|SPG21;nc|ENSG00000090487|Q9NZD8-2|SPG21 ENSG00000090487|ENST00000204566|SPG21 ENSG00000090487|ENST00000204566|SPG21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 920.388427734375 1 920.385216 919.377939 4.041 0.0037192 0.51985 0.00047847 4.5608 0.0041977 920.3856681314783 47.266 0.40533 47.53 47.342 47.747 0.26363 27 16 2 0 0 0 0.025323 2 21616 21566;21616 61.357 39.611 1 964510 31413 1059 20045 20107 35353;35354 35354 -0.08497475768331242 SSGPVDPMM 9 Unmodified _SSGPVDPMM_ 0 0 0 ENSG00000090487|ENST00000204566|SPG21;nc|ENSG00000090487|Q9NZD8-2|SPG21 ENSG00000090487|ENST00000204566|SPG21 ENSG00000090487|ENST00000204566|SPG21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 460.6979064941406 2 460.696246 919.377939 2.9445 0.0013565 -0.37497 -0.00017275 2.5696 0.0011838 460.6963877980103 47.26 0.43051 47.524 47.342 47.772 0.26363 38 17 3 0 0 0 0.032303 1 21593 21593 54.774 31.625 1 1143000 31414 1059 20045 20107 35355 35355 -0.08497475768331242 SSGPVDPMM 9 Unmodified _SSGPVDPMM_ 0 0 0 ENSG00000090487|ENST00000204566|SPG21;nc|ENSG00000090487|Q9NZD8-2|SPG21 ENSG00000090487|ENST00000204566|SPG21 ENSG00000090487|ENST00000204566|SPG21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 920.3892822265625 1 920.385216 919.377939 3.9586 0.0036435 -0.2826 -0.0002601 3.676 0.0033834 920.3857731465566 46.71 0.3112 47.362 47.226 47.537 0.65219 21 9 3 0 0 0 0.010221 2 21419 21367;21419 81.613 51.388 1 1035900 31415 1059 20045 20107 35356;35357 35357 -0.08497475768331242 SSGPVDPMM 9 Unmodified _SSGPVDPMM_ 0 0 0 ENSG00000090487|ENST00000204566|SPG21;nc|ENSG00000090487|Q9NZD8-2|SPG21 ENSG00000090487|ENST00000204566|SPG21 ENSG00000090487|ENST00000204566|SPG21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 460.6973571777344 2 460.696246 919.377939 2.9645 0.0013657 -1.5629 -0.00072001 1.4016 0.00064571 460.6959705709942 46.705 0.27347 47.357 47.196 47.469 0.65219 22 8 4 0 0 0 0.079031 1 21394 21394 37.974 14.826 1 973610 31416 1059 20045 20107 35358 35358 -0.08497475768331242 SSGPVDPMM 9 Unmodified _SSGPVDPMM_ 0 0 0 ENSG00000090487|ENST00000204566|SPG21;nc|ENSG00000090487|Q9NZD8-2|SPG21 ENSG00000090487|ENST00000204566|SPG21 ENSG00000090487|ENST00000204566|SPG21 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 920.385216 919.377939 3.4978 0.0032194 0.16611 0.00015289 3.6639 0.0033722 920.3851012822627 46.553 0.026379 47.382 47.368 47.394 0.82915 -0.083488 -0.00027739 NaN 78.149 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1689400 31417 1059 20045 20107 -0.08497475768331242 SSGRSGNA 8 Unmodified _SSGRSGNA_ 0 0 0 REV__ENST00000521913.6_3_8:26371709-26371754:+|nuORF REV__ENST00000521913.6_3_8:26371709-26371754:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 368.1738586425781 2 368.172641 734.33073 2.6322 0.0009691 -0.24598 -9.0565E-05 2.3862 0.00087853 368.17255712954227 58.156 0.32067 58.418 58.112 58.433 0.26227 30 18 3 0 0 0 0.74709 1 26616 26616 2.0598 0 1 2287000 + 31418 17054 20046 20108 35359 35359 -0.047062509328043234 SSGRSGNA 8 Unmodified _SSGRSGNA_ 0 0 0 REV__ENST00000521913.6_3_8:26371709-26371754:+|nuORF REV__ENST00000521913.6_3_8:26371709-26371754:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 368.17376708984375 2 368.172641 734.33073 2.6616 0.00097993 -0.25068 -9.2294E-05 2.4109 0.00088763 368.1725155198639 57.59 0.41201 58.258 58.061 58.473 0.66829 46 26 2 0 0 0 0.74709 1 26330 26330 2.0598 0 1 978150 + 31419 17054 20046 20108 35360 35360 -0.047062509328043234 SSGRSGNA 8 Unmodified _SSGRSGNA_ 0 0 0 REV__ENST00000521913.6_3_8:26371709-26371754:+|nuORF REV__ENST00000521913.6_3_8:26371709-26371754:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 368.172641 734.33073 2.1304 0.00078437 -0.38632 -0.00014223 1.7441 0.00064214 368.17257725866114 57.494 0.13357 58.263 58.232 58.365 0.76861 -0.065221 -0.00020493 NaN 2.0598 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 774480 + 31420 17054 20046 20108 -0.047062509328043234 SSGRSGNA 8 Unmodified _SSGRSGNA_ 0 0 0 REV__ENST00000521913.6_3_8:26371709-26371754:+|nuORF REV__ENST00000521913.6_3_8:26371709-26371754:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 368.172641 734.33073 2.6322 0.0009691 -0.24598 -9.0565E-05 2.3862 0.00087853 368.17255712954227 58.156 0.32067 58.418 58.112 58.433 0.26227 0.090102 -0.0001016 NaN 2.0598 30 18 3 NaN NaN NaN NaN 0 NaN NaN 0 2287000 + 31421 17054 20046 20108 -0.047062509328043234 SSGRSGNA 8 Unmodified _SSGRSGNA_ 0 0 0 REV__ENST00000521913.6_3_8:26371709-26371754:+|nuORF REV__ENST00000521913.6_3_8:26371709-26371754:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 368.172641 734.33073 2.6616 0.00097993 -0.25068 -9.2294E-05 2.4109 0.00088763 368.1725155198639 57.59 0.41201 58.258 58.061 58.473 0.66829 -0.070123 -0.00010505 NaN 2.0598 46 26 2 NaN NaN NaN NaN 0 NaN NaN 0 978150 + 31422 17054 20046 20108 -0.047062509328043234 SSGSGNRA 8 Unmodified _SSGSGNRA_ 0 0 0 REV__ENST00000295958.9_2_4:39606797-39640607:-|nuORF REV__ENST00000295958.9_2_4:39606797-39640607:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 368.1734313964844 2 368.172641 734.33073 2.6616 0.00097993 -0.25068 -9.2294E-05 2.4109 0.00088763 368.1725155198639 57.59 0.41201 58.258 58.061 58.473 0.66829 46 26 2 0 0 0 0.7471 1 26377 26377 0.69038 0 1 978150 + 31423 15144 20047 20109 35361 35361 -0.04706250932815692 SSHLLDRGL 9 Unmodified _SSHLLDRGL_ 0 0 0 ENST00000538771.5_1_19:42806829-42806913:-|nuORF;ENST00000595530.5_1_19:42806174-42806913:-|nuORF ENST00000538771.5_1_19:42806829-42806913:-|nuORF ENST00000538771.5_1_19:42806829-42806913:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.27728271484375 2 499.274898 996.535243 3.3614 0.0016783 1.7442 0.00087085 5.1056 0.0025491 499.2754385046452 20.551 0.19777 21.205 21.073 21.271 0.65346 25 18 2 0 0 0 0.8705 1 9319 9319 6.2058 1.4498 1 94612 31424 8785 20048 20110 35362 35362 0.03683688157718734 SSHQDSSRMS 10 Unmodified _SSHQDSSRMS_ 0 0 0 nc|ENSG00000112175|P22003-2|BMP5;ENSG00000112175|ENST00000370830|BMP5 nc|ENSG00000112175|P22003-2|BMP5 nc|ENSG00000112175|P22003-2|BMP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.0555419921875 2 561.235644 1120.45673 NaN NaN NaN NaN NaN NaN NaN 39.635 1 39.635 39.135 40.135 0 0 0 0 0.99774 1 17986 17986 3.5965 0 1 31425 1796 20049 20111 35363 35363 -0.09867532209682395 SSHRGGGG 8 Unmodified _SSHRGGGG_ 0 0 0 ENSG00000112541|ENST00000539869|PDE10A;PDE10A|p.K133Rfs*31|1|0.24|ENSG00000112541|chr6:165435346-165435346|T/-|frameshift_variant ENSG00000112541|ENST00000539869|PDE10A ENSG00000112541|ENST00000539869|PDE10A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 714.1497802734375 1 714.327776 713.320499 3.0398 0.0021714 1.2818 0.00091563 4.3216 0.003087 714.326315426761 79.116 0.05909 79.58 79.545 79.604 0.4642 5 4 2 0 0 0 0.14337 1 38613 38613 0.69038 0 1 7188900 31426 1811 20050 20112 35364 35364 -0.047628138673530884 SSHYAIFFMRR 11 Unmodified _SSHYAIFFMRR_ 0 0 0 chr12:104601609-104601906|202|11.54|0.7|4.04|+|2|None,CHST11|2 chr12:104601609-104601906|202|11.54|0.7|4.04|+|2|None,CHST11|2 chr12:104601609-104601906|202|11.54|0.7|4.04|+|2|None,CHST11|2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.2403564453125 3 472.239801 1413.69757 2.3721 0.0011202 -1.0988 -0.00051889 1.2733 0.00060131 472.2392849478107 12.438 0.072912 12.7 12.664 12.737 0.26154 13 5 4 0 0 0 0.12301 1 5381 5381 24.957 6.6174 1 32142000 31427 137 20051 20113 35365 35365 0.007273285681549169 SSIDCLCA 8 Unmodified _SSIDCLCA_ 0 0 0 nc|ENSG00000103051|Q9H9E3-3|COG4;nc|ENSG00000103051|Q9H9E3|COG4;ENSG00000103051|ENST00000323786|COG4;ENST00000526700.5_1_16:70530266-70542451:-|nuORF nc|ENSG00000103051|Q9H9E3-3|COG4 nc|ENSG00000103051|Q9H9E3-3|COG4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 811.3341064453125 1 811.332452 810.325175 4.7062 0.0038183 -0.33627 -0.00027283 4.3699 0.0035455 811.3322603148932 103.69 0.020454 104.01 103.99 104.02 0.31863 4 2 2 0 0 0 0.7471 1 47937 47937 0.79363 0 1 155050 31428 1371 20052 20114 35366 35366 -0.08757433831169692 SSIRRRELRH 10 Unmodified _SSIRRRELRH_ 0 0 0 REV__ENSG00000140543|ENST00000268148|DET1 REV__ENSG00000140543|ENST00000268148|DET1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2588195800781 3 437.256843 1308.7487 3.2624 0.0014265 0.81984 0.00035848 4.0822 0.001785 437.2570799771275 93.412 1.3315 94.044 93.329 94.66 0.63115 139 66 3 0 0 0 0.94364 1 43133 43133 0.15932 0.064481 1 1386600 + 31429 12256 20053 20115 35367 35367 0.10667413657256475 SSKARLRSL 9 Unmodified _SSKARLRSL_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.8778381347656 3 339.876969 1016.60908 NaN NaN NaN NaN NaN NaN NaN 12.356 1 12.664 12.164 13.164 0.30727 0 0 0 0.10523 1 5555 5555 40.725 10.021 1 31430 5155 20054 20116 35368 35368 0.10143656320042282 SSKEKIRL 8 Unmodified _SSKEKIRL_ 0 0 0 ENSG00000169902|ENST00000304842|TPST1 ENSG00000169902|ENST00000304842|TPST1 ENSG00000169902|ENST00000304842|TPST1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 320.8668518066406 3 320.86607 959.57638 2.2245 0.00071378 -0.31867 -0.00010225 1.9059 0.00061153 320.86587384382756 13.118 0.13154 13.118 13.036 13.168 0 8 5 2 0 0 0 0.7471 1 5747 5747 1.4819 0 1 157620 31431 4720 20055 20117 35369 35369 0.09497449197169772 SSKIKRITSS 10 Unmodified _SSKIKRITSS_ 0 0 0 REV__nc|ENSG00000116690|Q92954-5|PRG4 REV__nc|ENSG00000116690|Q92954-5|PRG4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.8322143554688 2 553.830037 1105.64552 3.6482 0.0020205 -0.88014 -0.00048745 2.7681 0.0015331 553.8298872609851 83.238 1.3416 83.898 83.123 84.464 0.66019 144 80 2 0 0 0 0.9146 1 38281 38281 2.9952 0 1 2121600 + 31432 11413 20056 20118 35370 35370 0.09692488426071577 SSKKKKKKK 9 Unmodified _SSKKKKKKK_ 0 0 0 AluSz_dup100734|chr21:42594283-42594606:-|1.2254318376354785|0.0495699698250003|4.63|532.0|14|3|sense;Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|4|1|sense REV__ENST00000433510.2_1_17:46713640-46724167:-|nuORF;Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|4|1|sense Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|4|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.3067626953125 2 545.376958 1088.73936 NaN NaN NaN NaN NaN NaN NaN 85.91 1 85.94 85.44 86.44 0.030289 0 0 0 0.91452 1 43097 43097 0 0 1 31433 9370;16284 20057 20119 35371 35371 0.19854252319009902 SSKKKRKKRAK 11 Unmodified _SSKKKRKKRAK_ 0 0 0 REV__ENSG00000006062|ENST00000344686|MAP3K14 REV__ENSG00000006062|ENST00000344686|MAP3K14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 672.949462890625 2 672.949144 1343.88374 NaN NaN NaN NaN NaN NaN NaN 89.099 1 89.35 88.85 89.85 0.25118 0 0 0 1.0082 1 40982 40982 0 0 1 + 31434 10186 20058 20120 35372 35372 0.22554893799019737 SSKKTKKK 8 Unmodified _SSKKTKKK_ 0 0 0 NAA35|p.K567Rfs*6|1|0.45|ENSG00000135040|chr9:86016663-86016663|A/-|frameshift_variant;ENSG00000135040|ENST00000361671|NAA35 NAA35|p.K567Rfs*6|1|0.45|ENSG00000135040|chr9:86016663-86016663|A/-|frameshift_variant NAA35|p.K567Rfs*6|1|0.45|ENSG00000135040|chr9:86016663-86016663|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 934.60546875 1 934.604392 933.597115 3.3237 0.0031064 -2.7988 -0.0026158 0.52489 0.00049056 934.6038450727784 95.777 0.056473 95.777 95.727 95.783 0 9 7 2 0 0 0 0.7471 2 51664 51664;51671 0 0 1 16806000 31435 2841 20059 20121 35373;35374 35373 0.12766039576843013 SSKKTKKK 8 Unmodified _SSKKTKKK_ 0 0 0 NAA35|p.K567Rfs*6|1|0.45|ENSG00000135040|chr9:86016663-86016663|A/-|frameshift_variant;ENSG00000135040|ENST00000361671|NAA35 NAA35|p.K567Rfs*6|1|0.45|ENSG00000135040|chr9:86016663-86016663|A/-|frameshift_variant NAA35|p.K567Rfs*6|1|0.45|ENSG00000135040|chr9:86016663-86016663|A/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 934.3381958007812 1 934.604392 933.597115 2.5044 0.0023407 -1.45 -0.0013552 1.0544 0.00098549 934.6045418258691 93.929 0.046753 94.015 93.993 94.04 0.086212 7 5 2 0 0 0 0.14355 1 49317 49317 0 0 1 13702000 31436 2841 20059 20121 35375 35375 0.12766039576843013 SSKYFSTI 8 Unmodified _SSKYFSTI_ 0 0 0 REV__SLC3A1|p.I238Kfs*26|1|0.31|ENSG00000138079|chr2:44281468-44281469|-/AAAATATACTGATTATTATA|frameshift_variant REV__SLC3A1|p.I238Kfs*26|1|0.31|ENSG00000138079|chr2:44281468-44281469|-/AAAATATACTGATTATTATA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.740966796875 2 466.739825 931.465098 2.8875 0.0013477 -0.030548 -1.4258E-05 2.857 0.0013335 466.73965619692376 56.099 0.92217 56.767 56.479 57.401 0.66829 72 51 2 0 0 0 0.57648 1 25938 25938 15.847 0 1 763810 + 31437 12145 20060 20122 35376 35376 -0.0033761023075840058 SSLTRHRRLH 10 Unmodified _SSLTRHRRLH_ 0 0 0 ZNF845|p.S733Tfs*8|1|0.09|ENSG00000213799|chr19:53352870-53352871|-/TACG|frameshift_variant;ENSG00000213799|ENST00000458035|ZNF845 ZNF845|p.S733Tfs*8|1|0.09|ENSG00000213799|chr19:53352870-53352871|-/TACG|frameshift_variant ZNF845|p.S733Tfs*8|1|0.09|ENSG00000213799|chr19:53352870-53352871|-/TACG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 631.670654296875 2 631.863069 1261.71158 NaN NaN NaN NaN NaN NaN NaN 27.864 1 27.864 27.364 28.364 0 0 0 0 1.0001 1 12554 12554 1.6526 0 1 31438 6100 20061 20123 35377 35377 0.09119742111488449 SSMEDGED 8 Unmodified _SSMEDGED_ 0 0 0 nc|ENSG00000184014|Q6IQ26-2|DENND5A;ENSG00000184014|ENST00000328194|DENND5A;ENST00000532696.1_1_11:9225120-9228222:-|nuORF nc|ENSG00000184014|Q6IQ26-2|DENND5A nc|ENSG00000184014|Q6IQ26-2|DENND5A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 435.145263671875 2 435.145098 868.275642 NaN NaN NaN NaN NaN NaN NaN 61.943 1 62.674 62.174 63.174 0.73077 0 0 0 0.99035 1 28799 28799 2.5775 0 1 31439 5418 20062 20124 35378 35378 -0.1637647030623839 SSNCMCGQ 8 Unmodified _SSNCMCGQ_ 0 0 0 nc|ENSG00000181090|Q9H9B1-3|EHMT1;ENSG00000181090|ENST00000460843|EHMT1;ENST00000483653.1_1_9:140707949-140709038:+|nuORF nc|ENSG00000181090|Q9H9B1-3|EHMT1 nc|ENSG00000181090|Q9H9B1-3|EHMT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 829.2738037109375 1 829.26372 828.256444 4.3361 0.0035958 0.90868 0.00075354 5.2448 0.0043493 829.2669731023692 7.4984 0.93012 8.1231 7.6703 8.6004 0.62473 146 70 3 0 0 0 0.7471 1 3372 3372 0.69038 0 1 40838 31440 5281 20063 20125 35379 35379 -0.1645542140249745 SSNCMCGQ 8 Unmodified _SSNCMCGQ_ 0 0 0 nc|ENSG00000181090|Q9H9B1-3|EHMT1;ENSG00000181090|ENST00000460843|EHMT1;ENST00000483653.1_1_9:140707949-140709038:+|nuORF nc|ENSG00000181090|Q9H9B1-3|EHMT1 nc|ENSG00000181090|Q9H9B1-3|EHMT1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 829.26372 828.256444 3.0998 0.0025706 1.7331 0.0014372 4.8329 0.0040078 829.2676760848407 7.7947 0.60499 8.1205 7.7914 8.3964 0.32587 -0.0013077 0.00028349 NaN 0.69038 191 79 3 NaN NaN NaN NaN 0 NaN NaN 0 59297 31441 5281 20063 20125 -0.1645542140249745 SSNGNRTA 8 Unmodified _SSNGNRTA_ 0 0 0 ENST00000300141.10_1_15:65804856-65810023:-|nuORF;ENST00000560665.1_1_15:65804856-65809996:-|nuORF ENST00000300141.10_1_15:65804856-65810023:-|nuORF ENST00000300141.10_1_15:65804856-65810023:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 806.3773193359375 1 806.37512 805.367843 4.7026 0.0037921 -0.50028 -0.00040341 4.2023 0.0033886 806.3749585434513 103.69 0.024284 104.01 103.99 104.02 0.31863 5 3 2 0 0 0 0.7471 1 47936 47936 0 0 1 282800 31442 6794 20064 20126 35380 35380 -0.042625793870570305 SSNGNRTA 8 Unmodified _SSNGNRTA_ 0 0 0 ENST00000300141.10_1_15:65804856-65810023:-|nuORF;ENST00000560665.1_1_15:65804856-65809996:-|nuORF ENST00000300141.10_1_15:65804856-65810023:-|nuORF ENST00000300141.10_1_15:65804856-65810023:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 806.37512 805.367843 3.3877 0.0027318 -2.593 -0.0020909 0.79472 0.00064084 806.3720175847968 103.71 0.068939 103.71 103.67 103.74 0 -0.28118 -0.00099119 NaN 0 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 429520 31443 6794 20064 20126 -0.042625793870570305 SSNRTSGGL 9 Unmodified _SSNRTSGGL_ 0 0 0 ENSG00000196345|ENST00000426540|ZKSCAN7 ENSG00000196345|ENST00000426540|ZKSCAN7 ENSG00000196345|ENST00000426540|ZKSCAN7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 878.440185546875 1 878.432635 877.425358 4.7515 0.0041738 0.07523 6.6084E-05 4.8267 0.0042399 878.4326022815297 103.85 0.071556 104.17 104.14 104.21 0.31863 16 5 4 0 0 0 1.2459 1 48001 48001 0 0 1 4466700 31444 5736 20065 20127 35381 35381 -0.018257371814456747 SSNRTSGGL 9 Unmodified _SSNRTSGGL_ 0 0 0 ENSG00000196345|ENST00000426540|ZKSCAN7 ENSG00000196345|ENST00000426540|ZKSCAN7 ENSG00000196345|ENST00000426540|ZKSCAN7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 878.4354248046875 1 878.432635 877.425358 4.1573 0.0036519 0.25845 0.00022703 4.4157 0.0038789 878.4328847431946 103.8 0.037064 104.4 104.37 104.41 0.59821 10 4 3 0 0 0 1.2459 1 48012 48012 0 0 1 1619800 31445 5736 20065 20127 35382 35382 -0.018257371814456747 SSNWDDDS 8 Unmodified _SSNWDDDS_ 0 0 0 ENST00000575040.1_3_16:3023137-3024254:-|nuORF;ENST00000575981.1_1_16:3022956-3024767:-|nuORF;nc|ENSG00000127564|Q99640-4|PKMYT1;nc|ENSG00000127564|Q99640-2|PKMYT1;nc|ENSG00000127564|Q99640-3|PKMYT1;ENSG00000127564|ENST00000262300|PKMYT1 ENST00000575040.1_3_16:3023137-3024254:-|nuORF ENST00000575040.1_3_16:3023137-3024254:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 462.8349304199219 2 463.162136 924.309719 NaN NaN NaN NaN NaN NaN NaN 27.902 1 27.902 27.402 28.402 0 0 0 0 0.99035 1 12572 12572 5.2307 0 1 31446 2485 20066 20128 35383 35383 -0.15546305822988415 SSPHPGGPGEW 11 Unmodified _SSPHPGGPGEW_ 0 0 0 ENST00000222330.7_1_19:42734404-42734476:-|nuORF ENST00000222330.7_1_19:42734404-42734476:-|nuORF ENST00000222330.7_1_19:42734404-42734476:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 369.8344421386719 3 369.833317 1106.47812 2.6752 0.00098938 -0.034735 -1.2846E-05 2.6405 0.00097653 369.83326147031477 43.132 0.36068 43.403 43.202 43.563 0.27021 76 37 3 0 0 0 0.5535 2 19681 19681;19735 9.7643 2.1553 1 14793000 31447 6423 20067 20129 35384;35385 35384 -0.07085779118642677 SSPHPGGPGEW 11 Unmodified _SSPHPGGPGEW_ 0 0 0 ENST00000222330.7_1_19:42734404-42734476:-|nuORF ENST00000222330.7_1_19:42734404-42734476:-|nuORF ENST00000222330.7_1_19:42734404-42734476:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 369.83416748046875 3 369.833317 1106.47812 2.7734 0.0010257 -0.36659 -0.00013558 2.4068 0.00089011 369.8331407549258 42.546 0.48889 43.193 42.901 43.39 0.64693 114 41 4 0 0 0 0.5535 2 19474 19474;19523 9.7643 0.45093 1 8048400 31448 6423 20067 20129 35386;35387 35386 -0.07085779118642677 SSPISHFLDLL 11 Unmodified _SSPISHFLDLL_ 0 0 0 nc|ENSG00000140525|Q9NVI1-2|FANCI;nc|ENSG00000140525|Q9NVI1-1|FANCI;ENSG00000140525|ENST00000310775|FANCI;ENST00000566895.5_1_15:89821926-89825160:+|nuORF nc|ENSG00000140525|Q9NVI1-2|FANCI nc|ENSG00000140525|Q9NVI1-2|FANCI MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 614.8338012695312 2 614.832246 1227.64994 NaN NaN NaN NaN NaN NaN NaN 23.3 1 23.985 23.485 24.485 0.68536 0 0 0 1.0061 1 10390 10390 2.7352 0.45242 1 31449 3205 20068 20130 35388 35388 0.0452195284899517 SSPNLGRI 8 Unmodified _SSPNLGRI_ 0 0 0 nc|ENSG00000006534|P43353-2|ALDH3B1;ENSG00000006534|ENST00000342456|ALDH3B1 nc|ENSG00000006534|P43353-2|ALDH3B1 nc|ENSG00000006534|P43353-2|ALDH3B1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.2531433105469 2 422.237784 842.461016 NaN NaN NaN NaN NaN NaN NaN 103.02 1 103.62 103.12 104.12 0.59821 0 0 0 0.99035 1 47670 47670 0.69038 0 1 31450 350 20069 20131 35389 35389 0.03348345066206093 SSQSDANTSL 10 Unmodified _SSQSDANTSL_ 0 0 0 REV__nc|ENSG00000152457|Q96SD1-2|DCLRE1C REV__nc|ENSG00000152457|Q96SD1-2|DCLRE1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.22601318359375 2 505.225268 1008.43598 3.048 0.0015399 -1.1637 -0.00058795 1.8842 0.00095196 505.22443372870123 76.711 0.33655 76.966 76.797 77.133 0.25533 63 23 4 0 0 0 0.67467 1 35331 35331 14.405 1.3629 1 1410100 + 31451 12651 20070 20132 35390 35390 -0.06789799317709821 SSRALTLLSSV 11 Unmodified _SSRALTLLSSV_ 0 0 0 ENSG00000105605|ENST00000391767|CACNG7 ENSG00000105605|ENST00000391767|CACNG7 ENSG00000105605|ENST00000391767|CACNG7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3318481445312 2 567.32987 1132.64519 3.7251 0.0021133 -0.090249 -5.1201E-05 3.6348 0.0020621 567.3297413726835 86.782 0.75046 87.031 86.891 87.642 0.24974 75 36 3 0 0 0 0.91149 1 39979 39979 1.0715 1.0715 1 1561000 31452 1511 20071 20133 35391 35391 0.08417068706239661 SSRCGCKN 8 Unmodified _SSRCGCKN_ 0 0 0 nc|ENSG00000145794|Q96KG7-2|MEGF10;ENSG00000145794|ENST00000503335|MEGF10 nc|ENSG00000145794|Q96KG7-2|MEGF10 nc|ENSG00000145794|Q96KG7-2|MEGF10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 854.3631591796875 1 854.360732 853.353456 4.734 0.0040446 -1.2529 -0.0010704 3.4811 0.0029741 854.3592174109383 103.34 0.065971 103.66 103.62 103.69 0.31863 7 3 3 0 0 0 0.7471 1 47783 47783 0 0 1 2580900 31453 3489 20072 20134 35392 35392 -0.07908691131206069 SSRCGCKN 8 Unmodified _SSRCGCKN_ 0 0 0 nc|ENSG00000145794|Q96KG7-2|MEGF10;ENSG00000145794|ENST00000503335|MEGF10 nc|ENSG00000145794|Q96KG7-2|MEGF10 nc|ENSG00000145794|Q96KG7-2|MEGF10 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 854.360732 853.353456 4.1584 0.0035528 -1.9401 -0.0016576 2.2183 0.0018952 854.358683453971 103.3 0.054626 103.89 103.86 103.91 0.59821 0.11793 -0.00010382 NaN 0 8 3 3 NaN NaN NaN NaN 0 NaN NaN 0 2480900 31454 3489 20072 20134 -0.07908691131206069 SSREKLKEI 9 Unmodified _SSREKLKEI_ 0 0 0 REV__nc|ENSG00000100815|Q15643-2|TRIP11 REV__nc|ENSG00000100815|Q15643-2|TRIP11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3186645507812 2 545.316763 1088.61897 3.4792 0.0018973 0.41297 0.0002252 3.8922 0.0021225 545.3169124440693 83.541 1.7312 83.788 83.088 84.819 0.24722 279 102 3 0 0 0 1.129 1 38480 38480 1.8442 0 1 2574300 + 31455 10851 20073 20135 35393 35393 0.07820799534761136 SSREKLKEI 9 Unmodified _SSREKLKEI_ 0 0 0 REV__nc|ENSG00000100815|Q15643-2|TRIP11 REV__nc|ENSG00000100815|Q15643-2|TRIP11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.3185424804688 2 545.316763 1088.61897 3.6481 0.0019894 0.14333 7.8163E-05 3.7914 0.0020675 545.3167571998881 83.226 1.6957 83.886 83.094 84.79 0.66019 259 100 4 0 0 0 1.129 1 38325 38325 1.8442 0 1 2968300 + 31456 10851 20073 20135 35394 35394 0.07820799534761136 SSRGIAIAVQ 10 Unmodified _SSRGIAIAVQ_ 0 0 0 ENSG00000100441|ENST00000553935|KHNYN ENSG00000100441|ENST00000553935|KHNYN ENSG00000100441|ENST00000553935|KHNYN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.29248046875 2 501.290548 1000.56654 3.0512 0.0015295 0.63904 0.00032035 3.6902 0.0018499 501.2907932816766 78.748 1.673 78.999 78.211 79.884 0.25127 201 105 2 0 0 0 0.92007 2 36267 36064;36267 2.7352 0.43246 1 1159000 31457 1219 20074 20136 35395;35396 35396 0.06628261191792717 SSRGIAIAVQ 10 Unmodified _SSRGIAIAVQ_ 0 0 0 ENSG00000100441|ENST00000553935|KHNYN ENSG00000100441|ENST00000553935|KHNYN ENSG00000100441|ENST00000553935|KHNYN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.2922058105469 2 501.290548 1000.56654 3.1802 0.0015942 0.52714 0.00026425 3.7073 0.0018584 501.2907464807802 78.42 2.0239 79.082 78.283 80.307 0.66198 237 131 2 0 0 0 0.92007 1 36136 36136 2.7352 0.15772 1 1407600 31458 1219 20074 20136 35397 35397 0.06628261191792717 SSRKNAFVKKT 11 Unmodified _SSRKNAFVKKT_ 0 0 0 ENST00000560118.1_1_15:59732271-59738696:+|nuORF ENST00000560118.1_1_15:59732271-59738696:+|nuORF ENST00000560118.1_1_15:59732271-59738696:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.3720703125 2 633.369861 1264.72517 4.2694 0.0027041 -0.9001 -0.0005701 3.3693 0.002134 633.3692298680046 91.899 1.3015 92.152 91.424 92.725 0.25253 203 62 4 0 0 0 0.89844 5 42256 42157;42256;42307;42357;42505 2.4985 1.3051 1 4722900 31459 8970 20075 20137 35398;35399;35400;35401;35402 35399 0.10339555100040343 SSRKNAFVKKT 11 Unmodified _SSRKNAFVKKT_ 0 0 0 ENST00000560118.1_1_15:59732271-59738696:+|nuORF ENST00000560118.1_1_15:59732271-59738696:+|nuORF ENST00000560118.1_1_15:59732271-59738696:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.37158203125 2 633.369861 1264.72517 4.079 0.0025835 -0.99884 -0.00063264 3.0801 0.0019509 633.3691578354671 91.522 1.3285 92.184 91.419 92.747 0.66198 211 67 4 0 0 0 0.91111 3 41930 41930;42090;42236 1.1933 0 1 5118200 31460 8970 20075 20137 35403;35404;35405 35403 0.10339555100040343 SSRKSKKRAF 10 Unmodified _SSRKSKKRAF_ 0 0 0 ENSG00000182752|ENST00000328252|PAPPA ENSG00000182752|ENST00000328252|PAPPA ENSG00000182752|ENST00000328252|PAPPA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.36083984375 2 597.856921 1193.69929 3.9924 0.0023869 -0.84278 -0.00050386 3.1496 0.001883 597.8562840729154 88.049 1.5851 88.3 87.389 88.974 0.25064 150 71 3 0 0 0 0.93713 3 40344 40344;40398;40502 1.4819 0 1 2539600 31461 5348 20076 20138 35406;35407;35408 35406 0.11018705648439209 SSRKSKKRAF 10 Unmodified _SSRKSKKRAF_ 0 0 0 ENSG00000182752|ENST00000328252|PAPPA ENSG00000182752|ENST00000328252|PAPPA ENSG00000182752|ENST00000328252|PAPPA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.858154296875 2 597.856921 1193.69929 4.1819 0.0025002 -1.1487 -0.00068674 3.0332 0.0018134 597.856047462573 87.599 1.5253 88.275 87.488 89.013 0.67554 152 70 4 0 0 0 0.9146 3 40327 40052;40327;40380 2.9952 1.3426 1 3695000 31462 5348 20076 20138 35409;35410;35411 35410 0.11018705648439209 SSRLVIIMKM 10 Unmodified _SSRLVIIMKM_ 0 0 0 REV__ENST00000438193.1_2_19:54872771-54881940:-|nuORF REV__ENST00000438193.1_2_19:54872771-54881940:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.3452758789062 2 589.343412 1176.67227 3.8184 0.0022503 -0.50822 -0.00029951 3.3102 0.0019508 589.3430058868945 87.609 1.6161 88.285 87.488 89.104 0.67555 193 74 4 0 0 0 0.93713 2 40314 40314;40370 1.4819 0 1 4219400 + 31463 16323 20077 20139 35412;35413 35412 0.09100137721407009 SSRNVKVRYL 10 Unmodified _SSRNVKVRYL_ 0 0 0 ENST00000487196.1_1_10:5800911-5803598:+|nuORF ENST00000487196.1_1_10:5800911-5803598:+|nuORF ENST00000487196.1_1_10:5800911-5803598:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.3587036132812 2 611.356754 1220.69895 3.7249 0.0022773 -0.35511 -0.0002171 3.3698 0.0020602 611.3563796151667 89.549 1.5947 90.227 89.501 91.096 0.67818 190 72 4 0 0 0 0.90196 2 41019 41019;41327 3.5965 1.9439 1 4220300 31464 8348 20078 20140 35414;35415 35414 0.09743285928607293 SSRRINPLRL 10 Unmodified _SSRRINPLRL_ 0 0 0 REV__nc|ENSG00000099204|O14639-5|ABLIM1 REV__nc|ENSG00000099204|O14639-5|ABLIM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 606.37158203125 2 606.370195 1210.72584 NaN NaN NaN NaN NaN NaN NaN 87.838 1 88.089 87.589 88.589 0.25064 0 0 0 0.99774 1 40423 40423 3.5965 0 1 + 31465 17878 20079 20141 35416 35416 0.12890394539772387 SSRRQRKVGRP 11 Unmodified _SSRRQRKVGRP_ 0 0 0 REV__RSBN1|p.N713Mfs*14|1|0.06|ENSG00000081019|chr1:113766251-113766252|-/GATATGTACATATTCAAACACA|frameshift_variant REV__RSBN1|p.N713Mfs*14|1|0.06|ENSG00000081019|chr1:113766251-113766252|-/GATATGTACATATTCAAACACA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.8985595703125 2 663.8949 1325.77525 4.1369 0.0027464 0.085666 5.6873E-05 4.2225 0.0028033 663.8950744037554 92.938 0.46426 93.585 93.345 93.809 0.64714 59 24 3 0 0 0 0.91359 1 42755 42755 1.1933 0 1 1705000 + 31466 10606 20080 20142 35417 35417 0.12539102548589653 SSRRRRPRAP 10 Unmodified _SSRRRRPRAP_ 0 0 0 REV__ENST00000402690.6_3_18:45423134-45457349:-|nuORF REV__ENST00000402690.6_3_18:45423134-45457349:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.8717041015625 2 619.868686 1237.72282 NaN NaN NaN NaN NaN NaN NaN 90.111 1 90.363 89.863 90.863 0.25137 0 0 0 1.0003 1 41439 41439 1.4819 0 1 + 31467 16050 20081 20143 35418 35418 0.11346564205632603 SSRRRRPRAP 10 Unmodified _SSRRRRPRAP_ 0 0 0 REV__ENST00000402690.6_3_18:45423134-45457349:-|nuORF REV__ENST00000402690.6_3_18:45423134-45457349:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.8723754882812 2 619.868686 1237.72282 3.8241 0.0023704 0.84263 0.00052232 4.6667 0.0028928 619.8696079744037 89.535 1.3247 90.213 89.542 90.867 0.67818 146 60 3 0 0 0 0.93713 2 40974 40974;41247 1.4819 0 1 2591400 + 31468 16050 20081 20143 35419;35420 35419 0.11346564205632603 SSRRRVQGKVH 11 Unmodified _SSRRRVQGKVH_ 0 0 0 REV__ENST00000479818.5_1_22:50713453-50713714:-|nuORF REV__ENST00000479818.5_1_22:50713453-50713714:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.25860595703125 3 437.256843 1308.7487 3.3761 0.0014762 0.90127 0.00039409 4.2774 0.0018703 437.25705831996004 91.88 1.3259 92.133 91.475 92.801 0.25253 128 64 3 0 0 0 0.91104 1 42141 42141 1.2148 0.4383 1 557110 + 31469 16680 20082 20144 35421 35421 0.10667413657256475 SSRRRVQGKVH 11 Unmodified _SSRRRVQGKVH_ 0 0 0 REV__ENST00000479818.5_1_22:50713453-50713714:-|nuORF REV__ENST00000479818.5_1_22:50713453-50713714:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2589416503906 3 437.256843 1308.7487 3.5065 0.0015332 1.0013 0.00043783 4.5078 0.0019711 437.25716686113356 93.875 1.2314 94.13 93.353 94.585 0.25497 162 59 4 0 0 0 0.91359 1 42920 42920 0.40827 0 1 1485300 + 31470 16680 20082 20144 35422 35422 0.10667413657256475 SSRRRVQGKVH 11 Unmodified _SSRRRVQGKVH_ 0 0 0 REV__ENST00000479818.5_1_22:50713453-50713714:-|nuORF REV__ENST00000479818.5_1_22:50713453-50713714:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2585754394531 3 437.256843 1308.7487 3.2502 0.0014212 0.65593 0.00028681 3.9061 0.001708 437.25701269589587 91.413 0.98799 92.075 91.598 92.586 0.66198 86 46 3 0 0 0 0.91359 1 42095 42095 0.40827 0.24894 1 578490 + 31471 16680 20082 20144 35423 35423 0.10667413657256475 SSRRRVQGKVH 11 Unmodified _SSRRRVQGKVH_ 0 0 0 REV__ENST00000479818.5_1_22:50713453-50713714:-|nuORF REV__ENST00000479818.5_1_22:50713453-50713714:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2582092285156 3 437.256843 1308.7487 3.2624 0.0014265 0.81984 0.00035848 4.0822 0.001785 437.2570799771275 93.412 1.3315 94.044 93.329 94.66 0.63115 139 66 3 0 0 0 0.91359 1 42722 42722 0.40827 0.24894 1 1386600 + 31472 16680 20082 20144 35424 35424 0.10667413657256475 SSSDDDDDDDE 11 Unmodified _SSSDDDDDDDE_ 0 0 0 REV__ENST00000526570.5_1_8:38285813-38285975:-|nuORF REV__ENST00000526570.5_1_8:38285813-38285975:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 607.3951416015625 2 607.676199 1213.33784 NaN NaN NaN NaN NaN NaN NaN 97.444 1 98.046 97.546 98.546 0.6019 0 0 0 1.008 1 44806 44806 0.30703 0 1 + 31473 10563 20083 20145 35425 35425 -0.26029117214852704 SSSFCKGC 8 Unmodified _SSSFCKGC_ 0 0 0 REV__ENST00000438300.1_1_2:133070568-133076306:+|nuORF REV__ENST00000438300.1_1_2:133070568-133076306:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.66119384765625 2 409.662206 817.30986 NaN NaN NaN NaN NaN NaN NaN 63.983 1 64.231 63.731 64.731 0.24803 0 0 0 0.99035 1 29304 29304 0.69038 0 1 + 31474 16325 20084 20146 35426 35426 -0.10610300628343339 SSSGGNRS 8 Unmodified _SSSGGNRS_ 0 0 0 REV__SP8|p.I175Tfs*84|1|0.38|ENSG00000164651|chr7:20785239-20785239|A/-|frameshift_variant REV__SP8|p.I175Tfs*84|1|0.38|ENSG00000164651|chr7:20785239-20785239|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.1711120605469 2 376.170099 750.325644 2.7729 0.0010431 -0.40218 -0.00015129 2.3707 0.00089178 376.17001809765554 49.397 0.4435 49.397 49.224 49.667 0 36 17 3 0 0 0 0.74071 3 22595 22595;22652;22706 2.5775 0 1 1103700 + 31475 13105 20085 20147 35427;35428;35429 35427 -0.05950554795424523 SSSKSKKKK 9 Unmodified _SSSKSKKKK_ 0 0 0 nc|ENSG00000171634|Q12830-4|BPTF;BPTF|p.A3017Efs*15|1|0.04|ENSG00000171634|chr17:67975903-67975904|-/AATATTCT|frameshift_variant;ENSG00000171634|ENST00000306378|BPTF;nc|ENSG00000171634|Q12830|BPTF nc|ENSG00000171634|Q12830-4|BPTF nc|ENSG00000171634|Q12830-4|BPTF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.3134765625 2 504.314023 1006.61349 NaN NaN NaN NaN NaN NaN NaN 102.51 1 103.1 102.6 103.6 0.59759 0 0 0 0.91452 1 47444 47444 0 0 1 31476 87 20086 20148 35430 35430 0.11045120742949166 SSSRGLDHL 9 Unmodified _SSSRGLDHL_ 0 0 0 REV__ENSG00000117868|ENST00000275418|ESYT2 REV__ENSG00000117868|ENST00000275418|ESYT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.2491760253906 2 486.24888 970.483208 NaN NaN NaN NaN NaN NaN NaN 47.527 1 47.791 47.291 48.291 0.26363 0 0 0 0.56337 1 21718 21718 16.942 2.104 1 + 31477 11456 20087 20149 35431 35431 -0.0032147525606660565 SSSSGRNQ 8 Unmodified _SSSSGRNQ_ 0 0 0 REV__ENST00000552945.1_1_12:105582201-105583926:-|nuORF REV__ENST00000552945.1_1_12:105582201-105583926:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 822.3720092773438 1 822.370035 821.362758 3.3934 0.0027906 -0.027513 -2.2626E-05 3.3658 0.002768 822.369534988275 103.66 0.046188 103.66 103.64 103.69 0 6 2 3 0 0 0 0.7471 1 57120 57120 0 0 1 3394600 + 31478 17298 20088 20150 35432 35432 -0.055068832496658615 SSSSGRNQ 8 Unmodified _SSSSGRNQ_ 0 0 0 REV__ENST00000552945.1_1_12:105582201-105583926:-|nuORF REV__ENST00000552945.1_1_12:105582201-105583926:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 822.4588012695312 1 822.370035 821.362758 4.7141 0.0038768 -0.74058 -0.00060903 3.9736 0.0032677 822.3694949925874 103.54 0.035164 103.86 103.84 103.87 0.31863 20 8 3 0 0 0 0.7471 1 47859 47859 0 0 1 3359000 + 31479 17298 20088 20150 35433 35433 -0.055068832496658615 SSSSGRNQ 8 Unmodified _SSSSGRNQ_ 0 0 0 REV__ENST00000552945.1_1_12:105582201-105583926:-|nuORF REV__ENST00000552945.1_1_12:105582201-105583926:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 822.3739624023438 1 822.370035 821.362758 4.7146 0.0038771 -0.28436 -0.00023385 4.4302 0.0036433 822.3696846022276 103.65 0.049812 103.97 103.93 103.98 0.31863 9 4 4 0 0 0 0.7471 1 47917 47917 0 0 1 3046900 + 31480 17298 20088 20150 35434 35434 -0.055068832496658615 SSSSGRNQ 8 Unmodified _SSSSGRNQ_ 0 0 0 REV__ENST00000552945.1_1_12:105582201-105583926:-|nuORF REV__ENST00000552945.1_1_12:105582201-105583926:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 822.3720703125 1 822.370035 821.362758 4.1596 0.0034207 -0.14991 -0.00012328 4.0097 0.0032975 822.3695631296109 103.6 0.050049 104.2 104.16 104.21 0.59821 7 4 3 0 0 0 0.7471 1 47926 47926 0 0 1 2494100 + 31481 17298 20088 20150 35435 35435 -0.055068832496658615 SSSSGRNQ 8 Unmodified _SSSSGRNQ_ 0 0 0 REV__ENST00000552945.1_1_12:105582201-105583926:-|nuORF REV__ENST00000552945.1_1_12:105582201-105583926:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 822.370035 821.362758 3.3934 0.0027906 -0.027513 -2.2626E-05 3.3658 0.002768 822.369534988275 103.66 0.046188 103.66 103.64 103.69 0 0.021758 -0.00029946 NaN 0 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 3394600 + 31482 17298 20088 20150 -0.055068832496658615 SSSSGRNQ 8 Unmodified _SSSSGRNQ_ 0 0 0 REV__ENST00000552945.1_1_12:105582201-105583926:-|nuORF REV__ENST00000552945.1_1_12:105582201-105583926:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 822.370035 821.362758 2.3609 0.0019415 1.1517 0.00094714 3.5126 0.0028887 822.3708731599169 103.35 0.050781 103.4 103.36 103.41 0.055092 -0.23956 0.00067031 NaN 0 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 4259800 + 31483 17298 20088 20150 -0.055068832496658615 SSSSGRNQ 8 Unmodified _SSSSGRNQ_ 0 0 0 REV__ENST00000552945.1_1_12:105582201-105583926:-|nuORF REV__ENST00000552945.1_1_12:105582201-105583926:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 822.370035 821.362758 4.7146 0.0038771 -0.28436 -0.00023385 4.4302 0.0036433 822.3696846022276 103.65 0.049812 103.97 103.93 103.98 0.31863 -0.061239 0.00041636 NaN 0 9 4 4 NaN NaN NaN NaN 0 NaN NaN 0 3046900 + 31484 17298 20088 20150 -0.055068832496658615 SSSSGRNQ 8 Unmodified _SSSSGRNQ_ 0 0 0 REV__ENST00000552945.1_1_12:105582201-105583926:-|nuORF REV__ENST00000552945.1_1_12:105582201-105583926:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 822.370035 821.362758 4.7141 0.0038768 -0.74058 -0.00060903 3.9736 0.0032677 822.3694949925874 103.54 0.035164 103.86 103.84 103.87 0.31863 0.2178 -0.00088587 NaN 0 20 8 3 NaN NaN NaN NaN 0 NaN NaN 0 3359000 + 31485 17298 20088 20150 -0.055068832496658615 SSSSGRNQ 8 Unmodified _SSSSGRNQ_ 0 0 0 REV__ENST00000552945.1_1_12:105582201-105583926:-|nuORF REV__ENST00000552945.1_1_12:105582201-105583926:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 822.370035 821.362758 4.1594 0.0034206 -1.0623 -0.0008736 3.0971 0.002547 822.3691183462956 103.49 0.034645 104.09 104.07 104.1 0.59821 0.061239 -0.00022338 NaN 0 18 7 3 NaN NaN NaN NaN 0 NaN NaN 0 4173600 + 31486 17298 20088 20150 -0.055068832496658615 SSSSSRGGGG 10 Unmodified _SSSSSRGGGG_ 0 0 0 REV__ENSG00000151615|ENST00000281321|POU4F2 REV__ENSG00000151615|ENST00000281321|POU4F2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 838.3675537109375 1 838.364949 837.357673 4.1593 0.003487 0.29181 0.00024464 4.4511 0.0037316 838.3644761726284 103.3 0.03923 103.9 103.87 103.91 0.59821 6 2 3 0 0 0 0.94443 1 47794 47794 0 0 1 342900 + 31487 12621 20089 20151 35436 35436 -0.06751187112263324 SSSSSSSSEDS 11 Unmodified _SSSSSSSSEDS_ 0 0 0 ENSG00000237452|ENST00000457052|MEIOSIN ENSG00000237452|ENST00000457052|MEIOSIN ENSG00000237452|ENST00000457052|MEIOSIN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.6911010742188 2 523.691455 1045.36836 NaN NaN NaN NaN NaN NaN NaN 94.349 1 94.966 94.466 95.466 0.61736 0 0 0 1.0073 1 43392 43392 1.1933 0 1 31488 6205 20090 20152 35437 35437 -0.15251294039171626 SSTFFWRRLFL 11 Unmodified _SSTFFWRRLFL_ 0 0 0 REV__ENST00000427960.5_1_2:190332257-190332293:+|nuORF REV__ENST00000427960.5_1_2:190332257-190332293:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 730.396484375 2 730.395879 1458.7772 NaN NaN NaN NaN NaN NaN NaN 24.507 1 25.244 24.744 25.744 0.73623 0 0 0 1.0072 1 10982 10982 1.3295 0 1 + 31489 16232 20091 20153 35438 35438 0.06616718513828346 SSTHLFPAF 9 Unmodified _SSTHLFPAF_ 0 0 0 ENST00000531405.5_1_11:65339268-65339352:+|nuORF ENST00000531405.5_1_11:65339268-65339352:+|nuORF ENST00000531405.5_1_11:65339268-65339352:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.8746643066406 2 503.753267 1005.49198 NaN NaN NaN NaN NaN NaN NaN 56.452 1 57.23 56.73 57.73 0.77786 0 0 0 0.89509 1 25810 25810 4.756 0.42677 1 31490 8727 20092 20154 35439 35439 -0.010545016195806056 SSTVSSSCSS 10 Unmodified _SSTVSSSCSS_ 0 0 0 nc|ENSG00000069020|O15021-2|MAST4;nc|ENSG00000069020|O15021-3|MAST4;nc|ENSG00000069020|O15021-6|MAST4;ENSG00000069020|ENST00000403625|MAST4 nc|ENSG00000069020|O15021-2|MAST4 nc|ENSG00000069020|O15021-2|MAST4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 311.1354675292969 3 311.12729 930.36004 NaN NaN NaN NaN NaN NaN NaN 67.228 1 67.886 67.386 68.386 0.65777 0 0 0 1.0012 1 30817 30817 0.69767 0 1 31491 745 20093 20155 35440 35440 -0.10792519489484675 SSWKFDKGF 9 Unmodified _SSWKFDKGF_ 0 0 0 REV__ENST00000600110.1_1_19:23779328-23779892:+|nuORF REV__ENST00000600110.1_1_19:23779328-23779892:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.7333374023438 2 551.271824 1100.5291 3.3829 0.0018649 1.8409 0.0010148 5.2238 0.0028798 551.2731280154197 68.349 0.20273 69.008 68.859 69.062 0.65924 23 12 2 0 0 0 0.084995 1 31279 31279 7.9102 1.187 1 465570 + 31492 17632 20094 20156 35441 35441 -0.017148300737972022 SSWNYRRSWSM 11 Unmodified _SSWNYRRSWSM_ 0 0 0 ENST00000531272.6_1_11:66249671-66254026:+|nuORF ENST00000531272.6_1_11:66249671-66254026:+|nuORF ENST00000531272.6_1_11:66249671-66254026:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 730.3299560546875 2 730.33041 1458.64627 NaN NaN NaN NaN NaN NaN NaN 23.522 1 24.207 23.707 24.707 0.68536 0 0 0 1.0057 1 10499 10499 3.2813 0 1 31493 8726 20095 20157 35442 35442 -0.06471040196515787 SSWVPRIVP 9 Unmodified _SSWVPRIVP_ 0 0 0 ENSG00000153012|ENST00000382114|LGI2 ENSG00000153012|ENST00000382114|LGI2 ENSG00000153012|ENST00000382114|LGI2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.53570556640625 3 347.534431 1039.58147 2.6412 0.00091789 1.0178 0.00035371 3.6589 0.0012716 347.5348128337389 48.824 0.62807 49.086 48.902 49.53 0.2621 49 24 3 0 0 0 0.98958 1 22302 22302 4.1895 4.1895 1 6690700 31494 3767 20096 20158 35443 35443 0.06325753059786621 SSYDDDMDENS 11 Unmodified _SSYDDDMDENS_ 0 0 0 nc|ENSG00000256463|Q9BXA9-3|SALL3;nc|ENSG00000256463|Q9BXA9-4|SALL3;nc|ENSG00000256463|Q9BXA9-2|SALL3;ENSG00000256463|ENST00000537592|SALL3 nc|ENSG00000256463|Q9BXA9-3|SALL3 nc|ENSG00000256463|Q9BXA9-3|SALL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 639.4721069335938 2 639.209154 1276.40376 NaN NaN NaN NaN NaN NaN NaN 78.581 1 78.581 78.081 79.081 0 0 0 0 1.0082 1 38663 38663 0 0 1 31495 6291 20097 20159 35444 35444 -0.22338999573662477 SSYDLSRDRT 10 Unmodified _SSYDLSRDRT_ 0 0 0 REV__nc|ENSG00000170100|Q96MU6-2|ZNF778 REV__nc|ENSG00000170100|Q96MU6-2|ZNF778 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 400.528076171875 3 400.526553 1198.55783 2.626 0.0010518 0.40439 0.00016197 3.0304 0.0012138 400.5267553322407 48.275 0.30613 49.105 48.955 49.261 0.82915 30 14 3 0 0 0 0.87461 1 22035 22035 2.6312 0.54727 1 1102200 + 31496 13422 20098 20160 35445 35445 -0.03350757235330093 SSYTLCVNEFC 11 Unmodified _SSYTLCVNEFC_ 0 0 0 ENST00000493051.1_1_2:110886666-110902094:-|nuORF ENST00000493051.1_1_2:110886666-110902094:-|nuORF ENST00000493051.1_1_2:110886666-110902094:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.1702880859375 2 633.262481 1264.51041 NaN NaN NaN NaN NaN NaN NaN 31.182 1 31.182 30.682 31.682 0 0 0 0 1.0073 1 14102 14102 1.1933 0 1 31497 8412 20099 20161 35446 35446 -0.11126495822190918 STARLPGRR 9 Unmodified _STARLPGRR_ 0 0 0 REV__ENSG00000179772|ENST00000375978|FOXS1 REV__ENSG00000179772|ENST00000375978|FOXS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 338.2037658691406 3 338.536946 1012.58901 2.2345 0.00075646 0.84851 0.00028725 3.083 0.0010437 338.53705427266567 42.073 0.065182 42.881 42.831 42.896 0.80855 5 3 2 0 0 0 0.87132 1 19108 19108 6.1918 2.3155 1 669830 + 31498 13804 20100 20162 35447 35447 0.0832190538010309 STARLPGRR 9 Unmodified _STARLPGRR_ 0 0 0 REV__ENSG00000179772|ENST00000375978|FOXS1 REV__ENSG00000179772|ENST00000375978|FOXS1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 338.536946 1012.58901 2.2345 0.00075646 0.84851 0.00028725 3.083 0.0010437 338.53705427266567 42.073 0.065182 42.881 42.831 42.896 0.80855 0 0 NaN 6.1918 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 669830 + 31499 13804 20100 20162 0.0832190538010309 STCCCFLKL 9 Unmodified _STCCCFLKL_ 0 0 0 ENST00000472667.1_1_2:170355634-170355844:+|nuORF ENST00000472667.1_1_2:170355634-170355844:+|nuORF ENST00000472667.1_1_2:170355634-170355844:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.23394775390625 2 509.231941 1016.44933 3.3648 0.0017135 -0.29904 -0.00015228 3.0658 0.0015612 509.2319305184659 29.099 0.33042 29.359 29.225 29.555 0.2602 30 20 2 0 0 0 0.64206 1 13256 13256 10.074 2.7847 1 159350 31500 8191 20101 20163 35448 35448 -0.058236793353216854 STCFTDDDDE 10 Unmodified _STCFTDDDDE_ 0 0 0 REV__ENSG00000179833|ENST00000313349|SERTAD2 REV__ENSG00000179833|ENST00000313349|SERTAD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.1927490234375 2 574.190233 1146.36591 NaN NaN NaN NaN NaN NaN NaN 27.612 1 28.398 27.898 28.898 0.78627 0 0 0 1.0015 1 12420 12420 0.40072 0.40072 1 + 31501 13805 20102 20164 35449 35449 -0.2014146576850635 STCWRCCCCC 10 Unmodified _STCWRCCCCC_ 0 0 0 REV__ENST00000519715.1_1_5:140012405-140013200:-|nuORF REV__ENST00000519715.1_1_5:140012405-140013200:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.5057983398438 2 584.170178 1166.3258 2.1118 0.0012337 -0.25232 -0.0001474 1.8595 0.0010863 584.6707709037005 94.598 0.028198 94.684 94.665 94.693 0.086205 6 4 2 0 0 0 0.12676 1 49801 49801 0 0 1 5541100 + 31502 17039 20103 20165 35450 35450 -0.25070745041261944 STDFDDMDDWD 11 Unmodified _STDFDDMDDWD_ 0 0 0 REV__ENSG00000197299|ENST00000355112|BLM REV__ENSG00000197299|ENST00000355112|BLM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 681.2303466796875 2 681.227347 1360.44014 NaN NaN NaN NaN NaN NaN NaN 28.262 1 28.262 27.762 28.762 0 0 0 0 1.008 1 12740 12740 0.30703 0.03801 1 + 31503 14270 20104 20166 35451 35451 -0.22566122676971645 STDFDDMDDWD 11 Unmodified _STDFDDMDDWD_ 0 0 0 REV__ENSG00000197299|ENST00000355112|BLM REV__ENSG00000197299|ENST00000355112|BLM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 681.2313232421875 2 681.227347 1360.44014 NaN NaN NaN NaN NaN NaN NaN 65.866 1 66.114 65.614 66.614 0.24848 0 0 0 1.0072 1 30174 30174 1.3295 0.92882 1 + 31504 14270 20104 20166 35452 35452 -0.22566122676971645 STDFDDMDDWD 11 Unmodified _STDFDDMDDWD_ 0 0 0 REV__ENSG00000197299|ENST00000355112|BLM REV__ENSG00000197299|ENST00000355112|BLM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 681.2304077148438 2 681.227347 1360.44014 NaN NaN NaN NaN NaN NaN NaN 71.274 1 71.532 71.032 72.032 0.25786 0 0 0 1.0073 1 32648 32648 1.1933 0.88631 1 + 31505 14270 20104 20166 35453 35453 -0.22566122676971645 STDFDDMDDWD 11 Unmodified _STDFDDMDDWD_ 0 0 0 REV__ENSG00000197299|ENST00000355112|BLM REV__ENSG00000197299|ENST00000355112|BLM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 680.843505859375 2 681.227347 1360.44014 NaN NaN NaN NaN NaN NaN NaN 78.459 1 78.713 78.213 79.213 0.25335 0 0 0 1.0072 1 36131 36131 1.3295 0.9789 1 + 31506 14270 20104 20166 35454 35454 -0.22566122676971645 STDFDDMDDWD 11 Unmodified _STDFDDMDDWD_ 0 0 0 REV__ENSG00000197299|ENST00000355112|BLM REV__ENSG00000197299|ENST00000355112|BLM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 680.7957763671875 2 681.227347 1360.44014 NaN NaN NaN NaN NaN NaN NaN 79.672 1 79.923 79.423 80.423 0.25045 0 0 0 1.0072 1 36686 36686 1.3295 0.92882 1 + 31507 14270 20104 20166 35455 35455 -0.22566122676971645 STDFDDMDDWD 11 Unmodified _STDFDDMDDWD_ 0 0 0 REV__ENSG00000197299|ENST00000355112|BLM REV__ENSG00000197299|ENST00000355112|BLM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 680.7782592773438 2 681.227347 1360.44014 NaN NaN NaN NaN NaN NaN NaN 81.515 1 81.763 81.263 82.263 0.24803 0 0 0 1.0073 1 37530 37530 1.1933 0.84271 1 + 31508 14270 20104 20166 35456 35456 -0.22566122676971645 STDFDDMDDWD 11 Unmodified _STDFDDMDDWD_ 0 0 0 REV__ENSG00000197299|ENST00000355112|BLM REV__ENSG00000197299|ENST00000355112|BLM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 681.2313232421875 2 681.227347 1360.44014 NaN NaN NaN NaN NaN NaN NaN 85.253 1 85.502 85.002 86.002 0.24857 0 0 0 1.0072 1 39233 39233 1.3295 0.9789 1 + 31509 14270 20104 20166 35457 35457 -0.22566122676971645 STDFDDMDDWD 11 Unmodified _STDFDDMDDWD_ 0 0 0 REV__ENSG00000197299|ENST00000355112|BLM REV__ENSG00000197299|ENST00000355112|BLM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 681.2322998046875 2 681.227347 1360.44014 NaN NaN NaN NaN NaN NaN NaN 96.61 1 96.887 96.387 97.387 0.27778 0 0 0 1.008 1 44386 44386 0.30703 0.30703 1 + 31510 14270 20104 20166 35458 35458 -0.22566122676971645 STDFDDMDDWD 11 Unmodified _STDFDDMDDWD_ 0 0 0 REV__ENSG00000197299|ENST00000355112|BLM REV__ENSG00000197299|ENST00000355112|BLM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 681.229248046875 2 681.227347 1360.44014 NaN NaN NaN NaN NaN NaN NaN 69.752 1 70.413 69.913 70.913 0.66071 0 0 0 1.0072 1 31981 31981 1.3295 0 1 + 31511 14270 20104 20166 35459 35459 -0.22566122676971645 STDFDDMDDWD 11 Unmodified _STDFDDMDDWD_ 0 0 0 REV__ENSG00000197299|ENST00000355112|BLM REV__ENSG00000197299|ENST00000355112|BLM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 681.231689453125 2 681.227347 1360.44014 NaN NaN NaN NaN NaN NaN NaN 71.643 1 72.306 71.806 72.806 0.66324 0 0 0 1.0073 1 32838 32838 1.1933 0.84271 1 + 31512 14270 20104 20166 35460 35460 -0.22566122676971645 STDFDDMDDWD 11 Unmodified _STDFDDMDDWD_ 0 0 0 REV__ENSG00000197299|ENST00000355112|BLM REV__ENSG00000197299|ENST00000355112|BLM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 681.2313232421875 2 681.227347 1360.44014 NaN NaN NaN NaN NaN NaN NaN 77.58 1 78.243 77.743 78.743 0.66303 0 0 0 1.0072 1 35752 35752 1.3295 0.92882 1 + 31513 14270 20104 20166 35461 35461 -0.22566122676971645 STDMDDSGDEM 11 Unmodified _STDMDDSGDEM_ 0 0 0 REV__ENSG00000115464|ENST00000398571|USP34 REV__ENSG00000115464|ENST00000398571|USP34 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 601.697509765625 2 601.694826 1201.3751 NaN NaN NaN NaN NaN NaN NaN 48.146 1 48.146 47.646 48.646 0 0 0 0 1.0059 1 22047 22047 2.9952 0 1 + 31514 11367 20105 20167 35462 35462 -0.21753440474481067 STDMDDSGDEM 11 Unmodified _STDMDDSGDEM_ 0 0 0 REV__ENSG00000115464|ENST00000398571|USP34 REV__ENSG00000115464|ENST00000398571|USP34 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 601.6978759765625 2 601.694826 1201.3751 3.8801 0.0023346 0.89134 0.00053631 4.7714 0.0028709 601.6955531635083 48.061 0.28398 48.323 48.2 48.484 0.26209 19 10 3 0 0 0 0.75723 1 21979 21979 8.7454 6.9012 1 341620 + 31515 11367 20105 20167 35463 35463 -0.21753440474481067 STDNDELEDEP 11 Unmodified _STDNDELEDEP_ 0 0 0 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1;ENSG00000126804|ENST00000683701|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.83428955078125 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 1.2501 1 1.2501 0.75011 1.7501 0 0 0 0 1.0082 1 573 573 0 0 1 31516 2465 20106 20168 35464 35464 -0.14210493770769972 STDNDELEDEP 11 Unmodified _STDNDELEDEP_ 0 0 0 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1;ENSG00000126804|ENST00000683701|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.83489990234375 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 2.0479 1 2.4343 1.9343 2.9343 0.38641 0 0 0 1.0082 1 931 931 0 0 1 31517 2465 20106 20168 35465 35465 -0.14210493770769972 STDNDELEDEP 11 Unmodified _STDNDELEDEP_ 0 0 0 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1;ENSG00000126804|ENST00000683701|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.8353576660156 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 2.1549 1 2.5413 2.0413 3.0413 0.38641 0 0 0 1.0082 1 980 980 0 0 1 31518 2465 20106 20168 35466 35466 -0.14210493770769972 STDNDELEDEP 11 Unmodified _STDNDELEDEP_ 0 0 0 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1;ENSG00000126804|ENST00000683701|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.8348693847656 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 2.6814 1 3.0678 2.5678 3.5678 0.38641 0 0 0 1.0082 1 1218 1218 0 0 1 31519 2465 20106 20168 35467 35467 -0.14210493770769972 STDNDELEDEP 11 Unmodified _STDNDELEDEP_ 0 0 0 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1;ENSG00000126804|ENST00000683701|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.83502197265625 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 4.1105 1 4.4755 3.9755 4.9755 0.36497 0 0 0 1.0082 1 1865 1865 0 0 1 31520 2465 20106 20168 35468 35468 -0.14210493770769972 STDNDELEDEP 11 Unmodified _STDNDELEDEP_ 0 0 0 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1;ENSG00000126804|ENST00000683701|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.83404541015625 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 7.4708 1 7.7966 7.2966 8.2966 0.32587 0 0 0 1.0082 1 3360 3360 0 0 1 31521 2465 20106 20168 35469 35469 -0.14210493770769972 STDNDELEDEP 11 Unmodified _STDNDELEDEP_ 0 0 0 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1;ENSG00000126804|ENST00000683701|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.8341064453125 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 7.5713 1 7.8972 7.3972 8.3972 0.32587 0 0 0 1.0082 1 3404 3404 0 0 1 31522 2465 20106 20168 35470 35470 -0.14210493770769972 STDNDELEDEP 11 Unmodified _STDNDELEDEP_ 0 0 0 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1;ENSG00000126804|ENST00000683701|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.8343811035156 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 7.6673 1 7.9932 7.4932 8.4932 0.32587 0 0 0 1.0082 1 3448 3448 0 0 1 31523 2465 20106 20168 35471 35471 -0.14210493770769972 STDNDELEDEP 11 Unmodified _STDNDELEDEP_ 0 0 0 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1;ENSG00000126804|ENST00000683701|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.8348388671875 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 7.8338 1 8.1596 7.6596 8.6596 0.32587 0 0 0 1.0082 1 3523 3523 0 0 1 31524 2465 20106 20168 35472 35472 -0.14210493770769972 STDNDELEDEP 11 Unmodified _STDNDELEDEP_ 0 0 0 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1;ENSG00000126804|ENST00000683701|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.83441162109375 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 8.014 1 8.3399 7.8399 8.8399 0.32587 0 0 0 1.0082 1 3603 3603 0 0 1 31525 2465 20106 20168 35473 35473 -0.14210493770769972 STDNDELEDEP 11 Unmodified _STDNDELEDEP_ 0 0 0 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1;ENSG00000126804|ENST00000683701|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.83404541015625 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 8.2232 1 8.5491 8.0491 9.0491 0.32587 0 0 0 1.0082 1 3698 3698 0 0 1 31526 2465 20106 20168 35474 35474 -0.14210493770769972 STDNDELEDEP 11 Unmodified _STDNDELEDEP_ 0 0 0 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1;ENSG00000126804|ENST00000683701|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.834228515625 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 5.1678 1 5.4724 4.9724 5.9724 0.30465 0 0 0 1.0082 1 2346 2346 0 0 1 31527 2465 20106 20168 35475 35475 -0.14210493770769972 STDNDELEDEP 11 Unmodified _STDNDELEDEP_ 0 0 0 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1;ENSG00000126804|ENST00000683701|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.8343200683594 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 5.3548 1 5.66 5.16 6.16 0.30519 0 0 0 1.0082 1 2433 2433 0 0 1 31528 2465 20106 20168 35476 35476 -0.14210493770769972 STDNDELEDEP 11 Unmodified _STDNDELEDEP_ 0 0 0 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1;ENSG00000126804|ENST00000683701|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 nc|ENSG00000126804|Q9Y2K1-2|ZBTB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.8349609375 3 421.833488 1262.47864 NaN NaN NaN NaN NaN NaN NaN 6.7332 1 7.039 6.539 7.539 0.30573 0 0 0 1.0082 1 3055 3055 0 0 1 31529 2465 20106 20168 35477 35477 -0.14210493770769972 STDVEPAVIVP 11 Unmodified _STDVEPAVIVP_ 0 0 0 REV__KIF13B|p.P1191Qfs*10|1|0.22|ENSG00000197892|chr8:29118956-29118956|G/-|frameshift_variant REV__KIF13B|p.P1191Qfs*10|1|0.22|ENSG00000197892|chr8:29118956-29118956|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.7297973632812 2 563.803154 1125.59175 3.8914 0.002194 0.97234 0.00054821 4.8637 0.0027422 563.8037144022716 30.275 0.26488 30.533 30.437 30.702 0.25804 22 13 2 0 0 0 0.64057 1 13774 13774 13.906 3.0821 1 708360 + 31530 14304 20107 20169 35478 35478 0.0339827120371865 STEHTTSF 8 Unmodified _STEHTTSF_ 0 0 0 REV__nc|ENSG00000164796|Q7Z407-5|CSMD3 REV__nc|ENSG00000164796|Q7Z407-5|CSMD3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 455.20257568359375 2 455.201064 908.387576 2.5246 0.0011492 1.1139 0.00050706 3.6385 0.0016562 455.20181427120247 53.757 0.19791 54.561 54.456 54.654 0.80351 12 8 2 0 0 0 0.14282 1 24565 24565 2.3027 0 1 143930 + 31531 13114 20108 20170 35479 35479 -0.07028248166932372 STEVSVRQQP 10 Unmodified _STEVSVRQQP_ 0 0 0 REV__ENSG00000188152|ENST00000372322|NUTM2G REV__ENSG00000188152|ENST00000372322|NUTM2G MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 565.4286499023438 2 565.793652 1129.57275 NaN NaN NaN NaN NaN NaN NaN 29.386 1 30.176 29.676 30.676 0.78921 0 0 0 0.96627 1 13245 13245 10.824 2.9138 1 + 31532 11839 20109 20171 35480 35480 0.013147346326604747 STHAHPGS 8 Unmodified _STHAHPGS_ 0 0 0 REV__ENST00000527085.1_1_11:1319633-1319792:-|nuORF REV__ENST00000527085.1_1_11:1319633-1319792:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.1837158203125 2 397.183009 792.351465 NaN NaN NaN NaN NaN NaN NaN 73.459 1 73.718 73.218 74.218 0.25876 0 0 0 0.99035 1 33741 33741 2.3027 0 1 + 31533 17100 20110 20172 35481 35481 -0.0530166055312975 STHDDKLPMQ 10 Unmodified _STHDDKLPMQ_ 0 0 0 REV__ENSG00000163161|ENST00000285398|ERCC3 REV__ENSG00000163161|ENST00000285398|ERCC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.274658203125 2 586.274238 1170.53392 3.4746 0.002037 0.051756 3.0343E-05 3.5263 0.0020674 586.2741062462098 28.608 0.40082 29.227 28.985 29.386 0.61947 41 20 3 0 0 0 0.92007 1 13056 13056 2.7352 0.43246 1 367920 + 31534 12982 20111 20173 35482 35482 -0.04452313993374446 STHEPSPG 8 Unmodified _STHEPSPG_ 0 0 0 REV__ENSG00000154781|ENST00000383794|CCDC174 REV__ENSG00000154781|ENST00000383794|CCDC174 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 406.1835021972656 2 406.182675 810.350796 2.4113 0.00097943 0.26473 0.00010753 2.676 0.001087 406.18276167248865 13.378 0.20501 13.621 13.496 13.701 0.24346 29 16 2 0 0 0 0.59268 1 5841 5841 14.582 4.3983 1 427480 + 31535 12722 20112 20174 35483 35483 -0.06196499992847748 STIRPNRV 8 Unmodified _STIRPNRV_ 0 0 0 REV__ENST00000513432.5_1_18:13030586-13057756:+|nuORF REV__ENST00000513432.5_1_18:13030586-13057756:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 314.7126770019531 3 314.854164 941.540663 2.1045 0.0006626 0.0021709 6.8351E-07 2.1066 0.00066329 314.85397785780293 17.374 0.1998 17.575 17.474 17.674 0.20057 29 18 3 0 0 0 0.14244 1 7673 7673 3.5965 3.2459 1 247140 + 31536 10906 20113 20175 35484 35484 0.06755411740186901 STKESEEGH 9 Unmodified _STKESEEGH_ 0 0 0 PHF20|p.Q369H|1|0.25|ENSG00000025293|chr20:35871654-35871654|G/T|missense_variant PHF20|p.Q369H|1|0.25|ENSG00000025293|chr20:35871654-35871654|G/T|missense_variant PHF20|p.Q369H|1|0.25|ENSG00000025293|chr20:35871654-35871654|G/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.14892578125 3 335.149082 1002.42542 NaN NaN NaN NaN NaN NaN NaN 85.269 1 85.517 85.017 86.017 0.24857 0 0 0 0.91099 1 39240 39240 0.86438 0 1 31537 9907 20114 20176 35485 35485 -0.07569781972131295 STKEVKIAL 9 Unmodified _STKEVKIAL_ 0 0 0 LTR7B_dup81|chr2:34736773-34737161:+|2.883411903852937|0.2968767232142372|3.28|529.0|2|1|sense LTR7B_dup81|chr2:34736773-34737161:+|2.883411903852937|0.2968767232142372|3.28|529.0|2|1|sense LTR7B_dup81|chr2:34736773-34737161:+|2.883411903852937|0.2968767232142372|3.28|529.0|2|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.2059631347656 3 330.206092 987.596446 2.1844 0.00072131 -0.23521 -7.7668E-05 1.9492 0.00064364 330.2058032429254 34.161 0.27504 34.782 34.709 34.984 0.62031 21 12 3 0 0 0 0.78763 1 15666 15666 7.609 1.4171 1 1187000 31538 9507 20115 20177 35486 35486 0.10215200137122338 STKKKVKTKK 10 Unmodified _STKKKVKTKK_ 0 0 0 REV__ENSG00000155903|ENST00000286364|RASA2 REV__ENSG00000155903|ENST00000286364|RASA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.223388671875 2 588.395348 1174.77614 NaN NaN NaN NaN NaN NaN NaN 80.947 1 81.115 80.615 81.615 0.16862 0 0 0 1.002 1 39726 39726 0 0 1 + 31539 12756 20116 20178 35487 35487 0.19574504144907223 STLIRHQQI 9 Unmodified _STLIRHQQI_ 0 0 0 ENSG00000267041|ENST00000591344|ZNF850 ENSG00000267041|ENST00000591344|ZNF850 ENSG00000267041|ENST00000591344|ZNF850 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.8808898925781 3 365.88049 1094.61964 2.4198 0.00088535 -1.0916 -0.00039938 1.3282 0.00048597 365.8800475346114 14.999 0.46822 15.305 15.085 15.553 0.3069 69 47 2 0 0 0 1.0601 1 6808 6808 2.9952 0 1 209310 31540 6325 20117 20179 35488 35488 0.07611638974458401 STRALLFALFL 11 Unmodified _STRALLFALFL_ 0 0 0 ENSG00000172640|ENST00000310248|OR10AD1 ENSG00000172640|ENST00000310248|OR10AD1 ENSG00000172640|ENST00000310248|OR10AD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 314.1971740722656 4 313.69195 1250.73869 2.4612 0.00077205 1.9738 0.00061916 4.435 0.0013912 313.6921709928694 40.773 0.37313 41.042 40.836 41.21 0.26904 62 25 4 0 0 0 0.91168 1 18466 18466 1.0136 0.23704 1 6308900 31541 4881 20118 20180 35489 35489 0.123354128793153 STRERYKWLR 10 Unmodified _STRERYKWLR_ 0 0 0 nc|ENSG00000172824|Q5XG92-5|CES4A;nc|ENSG00000172824|Q5XG92-8|CES4A;nc|ENSG00000172824|Q5XG92-2|CES4A;ENSG00000172824|ENST00000648724|CES4A;nc|ENSG00000172824|Q5XG92-7|CES4A;nc|ENSG00000172824|Q5XG92-6|CES4A;ENST00000543561.1_1_16:67034544-67038818:+|nuORF nc|ENSG00000172824|Q5XG92-5|CES4A nc|ENSG00000172824|Q5XG92-5|CES4A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 697.8843383789062 2 697.88621 1393.75787 NaN NaN NaN NaN NaN NaN NaN 57.985 1 58.247 57.747 58.747 0.26227 0 0 0 1.0001 1 26548 26548 1.6526 0.17072 1 31542 4894 20119 20181 35490 35490 0.07673762222930236 STRGGAAL 8 Unmodified _STRGGAAL_ 0 0 0 ENST00000536178.3_1_7:101944355-101950044:+|nuORF ENST00000536178.3_1_7:101944355-101950044:+|nuORF ENST00000536178.3_1_7:101944355-101950044:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.7040100097656 2 366.703577 731.392602 NaN NaN NaN NaN NaN NaN NaN 86.504 1 86.753 86.253 87.253 0.24974 0 0 0 0.99035 1 39812 39812 2.3027 0 1 31543 8769 20120 20182 35491 35491 0.016161004863079143 STRGGAAL 8 Unmodified _STRGGAAL_ 0 0 0 ENST00000536178.3_1_7:101944355-101950044:+|nuORF ENST00000536178.3_1_7:101944355-101950044:+|nuORF ENST00000536178.3_1_7:101944355-101950044:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.7044677734375 2 366.703577 731.392602 NaN NaN NaN NaN NaN NaN NaN 74.58 1 75.244 74.744 75.744 0.6644 0 0 0 0.99035 1 34334 34334 2.3027 0 1 31544 8769 20120 20182 35492 35492 0.016161004863079143 STRLQKDL 8 Unmodified _STRLQKDL_ 0 0 0 ENSG00000184661|ENST00000330560|CDCA2 ENSG00000184661|ENST00000330560|CDCA2 ENSG00000184661|ENST00000330560|CDCA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 320.854736328125 3 320.853941 959.539994 2.1511 0.00069018 0.48101 0.00015433 2.6321 0.00084451 320.8540201179334 15.875 0.98688 15.875 15.377 16.363 0 301 119 3 0 0 0 0.65723 1 6976 6976 6.7232 1.8262 1 430910 31545 5456 20121 20183 35493 35493 0.058605723004689025 STRSVSSSSYR 11 Acetyl (Protein N-term) _(Acetyl (Protein N-term))STRSVSSSSYR_ 1 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 629.8071899414062 2 629.804748 1257.59494 3.7825 0.0023823 -0.23472 -0.00014783 3.5478 0.0022344 629.8045917874675 14.366 0.20967 14.366 14.265 14.474 0 36 12 4 0 0 0 0.0026618 1 6309 6309 74.094 47.825 1 3569500 31546 483 20122 20184 35494 35494 -0.023550856895553807 STRSVSSSSYR 11 Acetyl (Protein N-term) _(Acetyl (Protein N-term))STRSVSSSSYR_ 1 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 629.806884765625 2 629.804748 1257.59494 NaN NaN NaN NaN NaN NaN NaN 14.084 1 14.391 13.891 14.891 0.3069 0 0 0 0.098145 1 6370 6370 45.603 20.612 1 31547 483 20122 20184 35495 35495 -0.023550856895553807 STTRFIVIFS 10 Unmodified _STTRFIVIFS_ 0 0 0 REV__ENST00000392474.6_1_12:121677959-121678241:-|nuORF REV__ENST00000392474.6_1_12:121677959-121678241:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.8901672363281 3 390.888763 1169.64446 2.8854 0.0011279 0.94654 0.00036999 3.8319 0.0014978 390.88910201908595 56.529 0.79317 57.198 56.592 57.385 0.66829 89 46 3 0 0 0 0.91298 1 25868 25868 3.0723 1.48 1 2644800 + 31548 15930 20123 20185 35496 35496 0.06642274057185205 STWLRDFQM 9 Unmodified _STWLRDFQM_ 0 0 0 nc|nan|Q8TB03-2|CXorf38;ENSG00000185753|ENST00000327877|CXorf38 nc|nan|Q8TB03-2|CXorf38 nc|nan|Q8TB03-2|CXorf38 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.2842407226562 2 592.281866 1182.54918 NaN NaN NaN NaN NaN NaN NaN 69.395 1 69.649 69.149 70.149 0.25443 0 0 0 0.21588 1 31780 31780 38.615 20.468 1 31549 5530 20124 20186 35497 35497 -0.034794024055372574 STWLRDFQM 9 Unmodified _STWLRDFQM_ 0 0 0 nc|nan|Q8TB03-2|CXorf38;ENSG00000185753|ENST00000327877|CXorf38 nc|nan|Q8TB03-2|CXorf38 nc|nan|Q8TB03-2|CXorf38 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.2835693359375 2 592.281866 1182.54918 NaN NaN NaN NaN NaN NaN NaN 68.861 1 69.521 69.021 70.021 0.65924 0 0 0 0.29737 1 31566 31566 34.932 16.786 1 31550 5530 20124 20186 35498 35498 -0.034794024055372574 STWRKRRRRQ 10 Unmodified _STWRKRRRRQ_ 0 0 0 REV__ENST00000222307.8_2_19:18668656-18672912:+|nuORF REV__ENST00000222307.8_2_19:18668656-18672912:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 715.4190063476562 2 715.421617 1428.82868 NaN NaN NaN NaN NaN NaN NaN 60.193 1 60.942 60.442 61.442 0.74927 0 0 0 0.99464 1 27718 27718 6.2058 2.0163 1 + 31551 14826 20125 20187 35499 35499 0.13141900051118682 SVANIQAT 8 Unmodified _SVANIQAT_ 0 0 0 ENSG00000218823|ENST00000404991|PAPOLB ENSG00000218823|ENST00000404991|PAPOLB ENSG00000218823|ENST00000404991|PAPOLB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 402.2169189453125 2 402.216517 802.418482 NaN NaN NaN NaN NaN NaN NaN 93.225 1 93.856 93.356 94.356 0.63115 0 0 0 0.99035 1 42887 42887 4.3292 0 1 31552 6143 20126 20188 35500 35500 0.009369499379317858 SVDDLTLLL 9 Unmodified _SVDDLTLLL_ 0 0 0 REV__ENSG00000133055|ENST00000255416|MYBPH REV__ENSG00000133055|ENST00000255416|MYBPH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 330.1795349121094 3 330.190219 987.548827 NaN NaN NaN NaN NaN NaN NaN 27.194 1 27.973 27.473 28.473 0.7787 0 0 0 0.84134 1 12223 12223 4.897 0 1 + 31553 11920 20127 20189 35501 35501 0.054555011462980474 SVDENYEWDS 10 Unmodified _SVDENYEWDS_ 0 0 0 ENST00000496645.5_1_1:159897137-159899822:-|nuORF;nc|ENSG00000085552|Q9P2J2-2|IGSF9;ENSG00000085552|ENST00000368094|IGSF9;ENST00000493195.5_1_1:159897137-159898861:-|nuORF ENST00000496645.5_1_1:159897137-159899822:-|nuORF ENST00000496645.5_1_1:159897137-159899822:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1243.4755859375 1 1243.47495 1242.46768 3.156 0.0039244 -3.853 -0.0047911 -0.69698 -0.00086668 1243.4739477062567 41.166 0.13187 41.166 41.044 41.176 0 14 9 2 0 0 0 0.93628 1 18658 18658 1.6526 0 1 2719100 31554 970 20128 20190 35502 35502 -0.1438585135442736 SVDEPYFKARF 11 Unmodified _SVDEPYFKARF_ 0 0 0 REV__ENSG00000147065|ENST00000360270|MSN REV__ENSG00000147065|ENST00000360270|MSN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 453.5615539550781 3 453.562827 1357.66665 NaN NaN NaN NaN NaN NaN NaN 77.002 1 77.626 77.126 78.126 0.62397 0 0 0 1.0079 1 37335 37335 0.50596 0.051438 1 + 31555 12492 20129 20191 35503 35503 0.002124537349345701 SVDPVLSIL 9 Unmodified _SVDPVLSIL_ 0 0 0 nc|ENSG00000197771|Q9BTE3-3|MCMBP;ENSG00000197771|ENST00000369077|MCMBP;nc|ENSG00000197771|Q9BTE3|MCMBP;ENST00000495407.1_1_10:121602688-121616909:-|nuORF nc|ENSG00000197771|Q9BTE3-3|MCMBP nc|ENSG00000197771|Q9BTE3-3|MCMBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.7802734375 2 471.778951 941.543348 2.9116 0.0013736 0.58583 0.00027638 3.4974 0.00165 471.77913127311245 84.155 0.36137 84.403 84.154 84.515 0.24758 37 19 3 0 0 0 0.086747 1 38766 38766 36.044 0 1 749890 31556 5841 20130 20192 35504 35504 0.070238223544834 SVDPVLSIL 9 Unmodified _SVDPVLSIL_ 0 0 0 nc|ENSG00000197771|Q9BTE3-3|MCMBP;ENSG00000197771|ENST00000369077|MCMBP;nc|ENSG00000197771|Q9BTE3|MCMBP;ENST00000495407.1_1_10:121602688-121616909:-|nuORF nc|ENSG00000197771|Q9BTE3-3|MCMBP nc|ENSG00000197771|Q9BTE3-3|MCMBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.77996826171875 2 471.778951 941.543348 3.1067 0.0014657 0.28913 0.00013641 3.3959 0.0016021 471.7789531649067 83.637 0.3597 84.299 84.107 84.466 0.66219 40 23 3 0 0 0 0.12301 1 38567 38567 28.487 0 1 754440 31557 5841 20130 20192 35505 35505 0.070238223544834 SVEDALTAL 9 Unmodified _SVEDALTAL_ 0 0 0 REV__nc|ENSG00000186868|P10636-3|MAPT REV__nc|ENSG00000186868|P10636-3|MAPT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 918.4812622070312 1 918.477854 917.470577 3.8593 0.0035447 0.77922 0.00071569 4.6385 0.0042604 918.4781582120207 49.957 0.19665 50.615 50.532 50.729 0.65735 10 6 2 0 0 0 0.079031 1 22857 22857 37.974 3.8716 1 241320 + 31558 14076 20131 20193 35506 35506 0.008540685610341825 SVEHPLML 8 Unmodified _SVEHPLML_ 0 0 0 ENST00000560816.5_1_15:76578028-76578774:-|nuORF ENST00000560816.5_1_15:76578028-76578774:-|nuORF ENST00000560816.5_1_15:76578028-76578774:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.2458801269531 2 463.244221 924.473888 2.7075 0.0012543 0.57297 0.00026542 3.2805 0.0015197 463.24443072957183 49.826 0.31765 49.826 49.618 49.935 0 24 14 2 0 0 0 0.52517 1 22819 22819 19.439 0 1 596010 31559 8976 20132 20194 35507 35507 0.00863040134061066 SVFLRKKRLLK 11 Unmodified _SVFLRKKRLLK_ 0 0 0 L1PB1_dup998|chr2:34715538-34720489:-|4.098121381973527|0.252296353110605|4.02|532.0|118|3|sense L1PB1_dup998|chr2:34715538-34720489:-|4.098121381973527|0.252296353110605|4.02|532.0|118|3|sense L1PB1_dup998|chr2:34715538-34720489:-|4.098121381973527|0.252296353110605|4.02|532.0|118|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 694.4686889648438 2 694.466638 1386.91872 NaN NaN NaN NaN NaN NaN NaN 72.536 1 72.536 72.036 73.036 0 0 0 0 1.008 1 35287 35287 0.30703 0 1 31560 9482 20133 20195 35508 35508 0.2407413660698694 SVGAKGVG 8 Unmodified _SVGAKGVG_ 0 0 0 ENST00000257552.6_1_12:120779899-120780196:-|nuORF ENST00000257552.6_1_12:120779899-120780196:-|nuORF ENST00000257552.6_1_12:120779899-120780196:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.69708251953125 2 337.695221 673.375889 NaN NaN NaN NaN NaN NaN NaN 41.146 1 41.415 40.915 41.915 0.26904 0 0 0 0.99035 1 18735 18735 0 0 1 31561 6530 20134 20196 35509 35509 0.02613599600397265 SVGLRPRWPKK 11 Unmodified _SVGLRPRWPKK_ 0 0 0 REV__ENST00000495270.1_1_9:130699195-130699321:-|nuORF REV__ENST00000495270.1_1_9:130699195-130699321:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 662.6210327148438 2 662.404038 1322.79352 NaN NaN NaN NaN NaN NaN NaN 78.684 1 78.684 78.184 79.184 0 0 0 0 1.0044 1 38734 38734 4.897 1.6157 1 + 31562 16837 20135 20197 35510 35510 0.14503844470573313 SVHCCCCCFW 10 Unmodified _SVHCCCCCFW_ 0 0 0 ENST00000316660.6_1_18:57570359-57570470:+|nuORF ENST00000316660.6_1_18:57570359-57570470:+|nuORF ENST00000316660.6_1_18:57570359-57570470:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 595.6892700195312 2 595.689061 1189.36357 NaN NaN NaN NaN NaN NaN NaN 69.152 1 69.854 69.354 70.354 0.70218 0 0 0 1.0015 1 33065 33065 0.40072 0.40072 1 31563 6907 20136 20198 35511 35511 -0.22353910784136133 SVKIKTKL 8 Unmodified _SVKIKTKL_ 0 0 0 THOC2|p.K1449Tfs*6|1|0.35|ENSG00000125676|chrX:123614155-123614156|-/TGGACAGTGG|frameshift_variant;ENSG00000125676|ENST00000245838|THOC2 THOC2|p.K1449Tfs*6|1|0.35|ENSG00000125676|chrX:123614155-123614156|-/TGGACAGTGG|frameshift_variant THOC2|p.K1449Tfs*6|1|0.35|ENSG00000125676|chrX:123614155-123614156|-/TGGACAGTGG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 306.2117614746094 3 306.211177 915.611703 1.9349 0.0005925 0.50469 0.00015454 2.4396 0.00074704 306.21121080890686 14.112 0.1122 14.112 14.038 14.151 0 9 6 2 0 0 0 0.40815 1 6218 6218 27.629 6.0918 1 346880 31564 2413 20137 20199 35512 35512 0.150521117249923 SVKIKTKL 8 Unmodified _SVKIKTKL_ 0 0 0 THOC2|p.K1449Tfs*6|1|0.35|ENSG00000125676|chrX:123614155-123614156|-/TGGACAGTGG|frameshift_variant;ENSG00000125676|ENST00000245838|THOC2 THOC2|p.K1449Tfs*6|1|0.35|ENSG00000125676|chrX:123614155-123614156|-/TGGACAGTGG|frameshift_variant THOC2|p.K1449Tfs*6|1|0.35|ENSG00000125676|chrX:123614155-123614156|-/TGGACAGTGG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 306.21197509765625 3 306.211177 915.611703 2.3473 0.00071876 0.89352 0.00027361 3.2408 0.00099236 306.2112796876498 12.924 0.16592 13.567 13.48 13.646 0.64272 10 4 3 0 0 0 0.40815 1 5818 5818 27.629 11.48 1 394230 31565 2413 20137 20199 35513 35513 0.150521117249923 SVKKLRHVKKL 11 Unmodified _SVKKLRHVKKL_ 0 0 0 Harlequin-int_dup274|chr7:135172831-135173811:+|1.6690129096142616|0.3270592348791503|2.35|542.0|19|2|sense Harlequin-int_dup274|chr7:135172831-135173811:+|1.6690129096142616|0.3270592348791503|2.35|542.0|19|2|sense Harlequin-int_dup274|chr7:135172831-135173811:+|1.6690129096142616|0.3270592348791503|2.35|542.0|19|2|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.47955322265625 4 334.729132 1334.88742 2.3621 0.00079066 1.3684 0.00045805 3.7305 0.0012487 334.7295358538723 37.444 0.75431 37.444 37.01 37.765 0 54 28 3 0 0 0 0.13295 1 17009 17009 0.45452 0.45452 1 979550 31566 9380 20138 20200 35514 35514 0.23337563572863473 SVKTKTKT 8 Unmodified _SVKTKTKT_ 0 0 0 REV__Harlequin-int_dup68|chr1:206053001-206053902:+|4.829576727494633|0.4316687424735471|3.48|537.0|36|1|anti-sense REV__Harlequin-int_dup68|chr1:206053001-206053902:+|4.829576727494633|0.4316687424735471|3.48|537.0|36|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 447.0357666015625 2 446.776742 891.538931 NaN NaN NaN NaN NaN NaN NaN 67.487 1 68.189 67.689 68.689 0.70218 0 0 0 0.99035 1 32098 32098 0.69038 0 1 + 31567 17725 20139 20201 35515 35515 0.08882357931565821 SVKVLHKIL 9 Unmodified _SVKVLHKIL_ 0 0 0 REV__ENSG00000165895|ENST00000298815|ARHGAP42 REV__ENSG00000165895|ENST00000298815|ARHGAP42 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.01416015625 2 518.847502 1035.68045 NaN NaN NaN NaN NaN NaN NaN 63.878 1 64.593 64.093 65.093 0.71521 0 0 0 0.89683 1 29985 29985 4.3292 0 1 + 31568 13195 20140 20202 35516 35516 0.16403776024685612 SVKVNLPI 8 Unmodified _SVKVNLPI_ 0 0 0 ENSG00000164199|ENST00000405460|ADGRV1;nc|ENSG00000164199|Q8WXG9-3|ADGRV1 ENSG00000164199|ENST00000405460|ADGRV1 ENSG00000164199|ENST00000405460|ADGRV1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 435.2777099609375 2 435.276378 868.538203 2.8002 0.0012189 1.1398 0.00049611 3.94 0.001715 435.27686030657077 36.709 0.35751 37.503 37.317 37.674 0.79342 28 16 2 0 0 0 0.62895 1 16661 16661 11.64 0 1 339920 31569 4295 20141 20203 35517 35517 0.09867563282523406 SVKVNLPI 8 Unmodified _SVKVNLPI_ 0 0 0 ENSG00000164199|ENST00000405460|ADGRV1;nc|ENSG00000164199|Q8WXG9-3|ADGRV1 ENSG00000164199|ENST00000405460|ADGRV1 ENSG00000164199|ENST00000405460|ADGRV1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.27801513671875 2 435.276378 868.538203 3.1236 0.0013596 1.9535 0.00085029 5.0771 0.0022099 435.277456084342 36.735 0.49018 37.365 37.191 37.681 0.62999 41 20 3 0 0 0 0.66653 1 16801 16801 8.5933 0 1 368190 31570 4295 20141 20203 35518 35518 0.09867563282523406 SVLLLLLLLRH 11 Unmodified _SVLLLLLLLRH_ 0 0 0 ENSG00000142552|ENST00000270645|RCN3 ENSG00000142552|ENST00000270645|RCN3 ENSG00000142552|ENST00000270645|RCN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.6649169921875 2 645.437015 1288.85948 NaN NaN NaN NaN NaN NaN NaN 64.01 1 64.725 64.225 65.225 0.71521 0 0 0 1.0072 1 30084 30084 1.3295 0 1 31571 3316 20142 20204 35519 35519 0.22660240592790615 SVLNKHKKI 9 Unmodified _SVLNKHKKI_ 0 0 0 ENSG00000269067|ENST00000594710|ZNF728 ENSG00000269067|ENST00000594710|ZNF728 ENSG00000269067|ENST00000594710|ZNF728 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 534.2351684570312 2 533.840208 1065.66586 3.0422 0.001624 -1.4123 -0.00075394 1.6299 0.00087009 533.8412401786567 45.236 0.08688 46.062 46.006 46.093 0.82621 6 5 2 0 0 0 0.10586 1 20586 20586 4.3292 0.73274 1 394150 31572 6327 20143 20205 35520 35520 0.13565703876543012 SVLNKHKKI 9 Unmodified _SVLNKHKKI_ 0 0 0 ENSG00000269067|ENST00000594710|ZNF728 ENSG00000269067|ENST00000594710|ZNF728 ENSG00000269067|ENST00000594710|ZNF728 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 533.840208 1065.66586 3.4574 0.0018457 0.19283 0.00010294 3.6502 0.0019486 533.840256065874 45.215 0.32137 45.866 45.721 46.042 0.65104 -0.16817 0.00024883 NaN 4.3292 23 12 3 NaN NaN NaN NaN 0 NaN NaN 0 956880 31573 6327 20143 20205 0.13565703876543012 SVLPRFVVLEM 11 Unmodified _SVLPRFVVLEM_ 0 0 0 ENSG00000155897|ENST00000286355|ADCY8 ENSG00000155897|ENST00000286355|ADCY8 ENSG00000155897|ENST00000286355|ADCY8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 645.3694458007812 2 645.367941 1288.72133 3.1283 0.0020189 0.76313 0.0004925 3.8914 0.0025114 645.3678782651069 75.887 0.41337 75.887 75.726 76.14 0 37 31 2 0 0 0 0.79438 1 37150 37150 7.1017 1.3699 1 1033800 31574 3883 20144 20206 35521 35521 0.08851749281984667 SVPATPPVL 9 Unmodified _SVPATPPVL_ 0 0 0 REV__nc|ENSG00000196115|Q6NVV9-7|ADAM5 REV__nc|ENSG00000196115|Q6NVV9-7|ADAM5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 440.7619934082031 2 440.760561 879.506569 2.786 0.001228 0.26545 0.000117 3.0515 0.001345 440.7606143166487 58.941 0.18927 58.941 58.768 58.957 0 25 13 3 0 0 0 0.018173 1 27193 27193 70.716 0 1 3204000 + 31575 18087 20145 20207 35522 35522 0.06199570528565346 SVPATPPVL 9 Unmodified _SVPATPPVL_ 0 0 0 REV__nc|ENSG00000196115|Q6NVV9-7|ADAM5 REV__nc|ENSG00000196115|Q6NVV9-7|ADAM5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 440.7615966796875 2 440.760561 879.506569 NaN NaN NaN NaN NaN NaN NaN 58.008 1 58.776 58.276 59.276 0.76861 0 0 0 0.016111 1 26592 26592 77.984 17.595 1 + 31576 18087 20145 20207 35523 35523 0.06199570528565346 SVPATPPVL 9 Unmodified _SVPATPPVL_ 0 0 0 REV__nc|ENSG00000196115|Q6NVV9-7|ADAM5 REV__nc|ENSG00000196115|Q6NVV9-7|ADAM5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 440.7616882324219 2 440.760561 879.506569 NaN NaN NaN NaN NaN NaN NaN 58.099 1 58.867 58.367 59.367 0.76861 0 0 0 0.021631 1 26635 26635 70.716 14.174 1 + 31577 18087 20145 20207 35524 35524 0.06199570528565346 SVPATPPVL 9 Unmodified _SVPATPPVL_ 0 0 0 REV__nc|ENSG00000196115|Q6NVV9-7|ADAM5 REV__nc|ENSG00000196115|Q6NVV9-7|ADAM5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 440.7620544433594 2 440.760561 879.506569 3.127 0.0013783 -0.79831 -0.00035187 2.3287 0.0010264 440.7601554668493 57.971 0.24374 58.639 58.413 58.657 0.66829 18 11 2 0 0 0 0.015468 1 26491 26491 74.423 23.568 1 3486800 + 31578 18087 20145 20207 35525 35525 0.06199570528565346 SVPATPPVL 9 Unmodified _SVPATPPVL_ 0 0 0 REV__nc|ENSG00000196115|Q6NVV9-7|ADAM5 REV__nc|ENSG00000196115|Q6NVV9-7|ADAM5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 440.760561 879.506569 2.786 0.001228 0.26545 0.000117 3.0515 0.001345 440.7606143166487 58.941 0.18927 58.941 58.768 58.957 0 0.15087 0.00050429 NaN 74.423 25 13 3 NaN NaN NaN NaN 0 NaN NaN 0 3204000 + 31579 18087 20145 20207 0.06199570528565346 SVPATPPVL 9 Unmodified _SVPATPPVL_ 0 0 0 REV__nc|ENSG00000196115|Q6NVV9-7|ADAM5 REV__nc|ENSG00000196115|Q6NVV9-7|ADAM5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 440.760561 879.506569 3.127 0.0013783 -0.79831 -0.00035187 2.3287 0.0010264 440.7601554668493 57.971 0.24374 58.639 58.413 58.657 0.66829 -0.15087 -0.00043344 NaN 74.423 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 3486800 + 31580 18087 20145 20207 0.06199570528565346 SVPRKKPLPW 10 Unmodified _SVPRKKPLPW_ 0 0 0 nc|ENSG00000004777|O14559-10|ARHGAP33;nc|ENSG00000004777|O14559-11|ARHGAP33;ENSG00000004777|ENST00000007510|ARHGAP33 nc|ENSG00000004777|O14559-10|ARHGAP33 nc|ENSG00000004777|O14559-10|ARHGAP33 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 604.3694458007812 2 604.369133 1206.72371 NaN NaN NaN NaN NaN NaN NaN 63.897 1 64.612 64.112 65.112 0.71521 0 0 0 0.99559 1 30000 30000 5.7319 0 1 31581 317 20146 20208 35526 35526 0.12861965801971564 SVPRQRRRRRR 11 Unmodified _SVPRQRRRRRR_ 0 0 0 ENSG00000171316|ENST00000423902|CHD7 ENSG00000171316|ENST00000423902|CHD7 ENSG00000171316|ENST00000423902|CHD7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 761.9729614257812 2 761.972339 1521.93013 NaN NaN NaN NaN NaN NaN NaN 62.097 1 62.757 62.257 63.257 0.66008 0 0 0 1.0082 1 28451 28451 0 0 1 31582 4798 20147 20209 35527 35527 0.19003771473671804 SVQFRLLF 8 Unmodified _SVQFRLLF_ 0 0 0 REV__ENST00000416543.5_1_4:106629178-106629382:-|nuORF REV__ENST00000416543.5_1_4:106629178-106629382:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 337.1998291015625 3 337.19916 1008.57565 NaN NaN NaN NaN NaN NaN NaN 24.819 1 25.556 25.056 26.056 0.73623 0 0 0 0.99035 1 11125 11125 1.4819 0 1 + 31583 16133 20148 20210 35528 35528 0.0717065454813337 SVQQIPHRL 9 Unmodified _SVQQIPHRL_ 0 0 0 REV__ENSG00000215915|ENST00000378785|ATAD3C REV__ENSG00000215915|ENST00000378785|ATAD3C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.3622436523438 2 539.311815 1076.60908 NaN NaN NaN NaN NaN NaN NaN 85.717 1 85.745 85.245 86.245 0.028603 0 0 0 0.8984 1 42969 42969 3.9444 0.3479 1 + 31584 14531 20149 20211 35529 35529 0.07383656320030241 SVRLFRFRILK 11 Unmodified _SVRLFRFRILK_ 0 0 0 REV__ENST00000397086.6_2_16:2303455-2303809:-|nuORF REV__ENST00000397086.6_2_16:2303455-2303809:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.24957275390625 3 478.973384 1433.89832 3.0756 0.0014731 3.117 0.001493 6.1926 0.0029661 479.3097949461311 59.542 0.11119 59.801 59.75 59.861 0.2593 7 5 2 0 0 0 0.13295 1 27292 27292 0.45452 0.087843 1 251100 + 31585 16011 20150 20212 35530 35530 0.19872965947160992 SVRLREFRLA 10 Unmodified _SVRLREFRLA_ 0 0 0 ENST00000403662.7_2_22:37334948-37335272:+|nuORF ENST00000403662.7_2_22:37334948-37335272:+|nuORF ENST00000403662.7_2_22:37334948-37335272:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 623.8731079101562 2 623.872571 1245.73059 NaN NaN NaN NaN NaN NaN NaN 45.281 1 45.281 44.781 45.781 0 0 0 0 1.0001 1 20712 20712 1.6526 0 1 31586 7621 20151 20213 35531 35531 0.11755278682562675 SVRRRGRG 8 Unmodified _SVRRRGRG_ 0 0 0 REV__ENSG00000175467|ENST00000312397|SART1 REV__ENSG00000175467|ENST00000312397|SART1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 314.71307373046875 3 315.193403 942.558379 2.1452 0.00067614 1.2553 0.00039565 3.4004 0.0010718 315.19353383927114 19.956 0.15401 19.956 19.884 20.038 0 14 11 2 0 0 0 0.1432 1 8897 8897 1.4819 0 1 215260 + 31587 13672 20152 20214 35532 35532 0.0848017178570899 SVRRRYQDFDW 11 Unmodified _SVRRRYQDFDW_ 0 0 0 ENSG00000148158|ENST00000374232|SNX30 ENSG00000148158|ENST00000374232|SNX30 ENSG00000148158|ENST00000374232|SNX30 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.9450378417969 3 509.919896 1526.73786 NaN NaN NaN NaN NaN NaN NaN 73.04 1 73.04 72.54 73.54 0 0 0 0 1.0064 1 35559 35559 2.4348 1.9803 1 31588 3591 20153 20215 35533 35533 -0.00444033507687891 SVRWRRQRPL 10 Unmodified _SVRWRRQRPL_ 0 0 0 ENST00000606082.5_1_2:54198066-54200871:+|nuORF ENST00000606082.5_1_2:54198066-54200871:+|nuORF ENST00000606082.5_1_2:54198066-54200871:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.9662170410156 3 451.937333 1352.79017 NaN NaN NaN NaN NaN NaN NaN 68.916 1 69.618 69.118 70.118 0.70218 0 0 0 1.0001 1 32899 32899 1.5923 0.26264 1 31589 9318 20154 20216 35534 35534 0.1278859441658824 SVSDSCCCCCR 11 Unmodified _SVSDSCCCCCR_ 0 0 0 REV__ENST00000308086.2_1_12:72057128-72057308:+|nuORF REV__ENST00000308086.2_1_12:72057128-72057308:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.5750732421875 2 583.181797 1164.34904 NaN NaN NaN NaN NaN NaN NaN 69.077 1 69.736 69.236 70.236 0.65924 0 0 0 1.0082 1 31665 31665 0.30703 0.30703 1 + 31590 15239 20155 20217 35535 35535 -0.22656027722950967 SVSKKKKKK 9 Unmodified _SVSKKKKKK_ 0 0 0 AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense;AluY_dup49344|chr8:133361464-133361769:+|1.030317764595114|0.0147538292618742|6.13|519.0|7|2|sense;AluSz6_dup29803|chr11:63572851-63572957:-|1.0054337000575218|0.2400240247261108|2.07|539.0|3|2|sense;AluSp_dup15995|chr5:178235991-178236344:-|2.46787698028414|0.1980803357196108|3.64|532.0|15|3|sense;AluSc5_dup2926|chr7:128469347-128469653:-|2.0398645452387387|0.2522616082610692|3.02|541.0|10|3|sense;AluSp_dup15305|chr5:139552676-139552981:-|1.0466684344505637|0.0913916671487778|3.52|522.0|7|2|sense;AluY_dup4373|chr1:100739515-100739826:-|1.3477491983240313|0.0541338290838351|4.64|533.0|10|3|sense;nc|ENSG00000170085|Q8NDZ2-2|SIMC1 AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense;AluSz6_dup29803|chr11:63572851-63572957:-|1.0054337000575218|0.2400240247261108|2.07|539.0|3|2|sense;nc|ENSG00000170085|Q8NDZ2-2|SIMC1 nc|ENSG00000170085|Q8NDZ2-2|SIMC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.8629150390625 2 530.863683 1059.71281 NaN NaN NaN NaN NaN NaN NaN 76.986 1 77.61 77.11 78.11 0.62397 0 0 0 0.91238 1 37328 37328 0.52476 0 1 31591 51;9751;43 20156 20218 35536 35536 0.18534563427692774 SVSKKKKKKR 10 Unmodified _SVSKKKKKKR_ 0 0 0 AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 608.915283203125 2 608.914239 1215.81392 NaN NaN NaN NaN NaN NaN NaN 62.675 1 63.397 62.897 63.897 0.72236 0 0 0 1.0015 1 29271 29271 0.40072 0 1 31592 43 20157 20219 35537 35537 0.21465015130388565 SVSSRKEH 8 Unmodified _SVSSRKEH_ 0 0 0 nc|ENSG00000166803|Q15004-2|PCLAF nc|ENSG00000166803|Q15004-2|PCLAF nc|ENSG00000166803|Q15004-2|PCLAF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.2454528808594 2 465.243598 928.472643 3.2329 0.0015041 -0.44253 -0.00020589 2.7903 0.0012982 465.2435944118497 31.231 0.25796 31.487 31.309 31.567 0.25614 25 20 2 0 0 0 0.60101 1 14229 14229 13.906 4.5229 1 276310 31593 9734 20158 20220 35538 35538 0.0055454208951459805 SVSSRKEH 8 Unmodified _SVSSRKEH_ 0 0 0 nc|ENSG00000166803|Q15004-2|PCLAF nc|ENSG00000166803|Q15004-2|PCLAF nc|ENSG00000166803|Q15004-2|PCLAF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.2449645996094 2 465.243598 928.472643 2.8142 0.0013093 0.27442 0.00012767 3.0886 0.001437 465.2436980571838 30.766 0.25057 31.383 31.234 31.485 0.61737 22 14 2 0 0 0 0.65679 1 14097 14097 9.3831 0.035688 1 354930 31594 9734 20158 20220 35539 35539 0.0055454208951459805 SVSSRKEH 8 Unmodified _SVSSRKEH_ 0 0 0 nc|ENSG00000166803|Q15004-2|PCLAF nc|ENSG00000166803|Q15004-2|PCLAF nc|ENSG00000166803|Q15004-2|PCLAF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 465.243598 928.472643 2.9297 0.001363 0.16925 7.8742E-05 3.099 0.0014418 465.24381656556346 31.387 0.12337 31.387 31.308 31.432 0 -0.032339 0.00016906 NaN 13.906 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 227820 31595 9734 20158 20220 0.0055454208951459805 SVTRNRFIHWK 11 Unmodified _SVTRNRFIHWK_ 0 0 0 nc|ENSG00000030066|Q12769-2|NUP160;NUP160|p.M687Wfs*11|1|0.33|ENSG00000030066|chr11:47812323-47812323|T/-|frameshift_variant;ENSG00000030066|ENST00000378460|NUP160;nc|ENSG00000030066|Q12769|NUP160 nc|ENSG00000030066|Q12769-2|NUP160 nc|ENSG00000030066|Q12769-2|NUP160 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 722.7730102539062 2 722.402027 1442.7895 NaN NaN NaN NaN NaN NaN NaN 90.791 1 90.867 90.367 91.367 0.075279 0 0 0 1.0063 1 46873 46873 2.4985 0 1 31596 492 20159 20221 35540 35540 0.08581754976876255 SVVKKYKKKL 10 Unmodified _SVVKKYKKKL_ 0 0 0 REV__nc|ENSG00000139697|A3KN83-3|SBNO1 REV__nc|ENSG00000139697|A3KN83-3|SBNO1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1220.4786376953125 1 1220.80891 1219.80163 3.3625 0.004105 -1.7212 -0.0021012 1.6413 0.0020038 1221.8104673655228 40.776 0.11418 41.045 40.947 41.061 0.26904 11 7 2 0 0 0 0.12676 1 18516 18516 0.40072 0.050084 1 1719700 + 31597 12216 20160 20222 35541 35541 0.20051978667356707 SVVKQDRLLG 10 Unmodified _SVVKQDRLLG_ 0 0 0 ENSG00000164951|ENST00000297598|PDP1;nc|ENSG00000164951|Q9P0J1-2|PDP1 ENSG00000164951|ENST00000297598|PDP1 ENSG00000164951|ENST00000297598|PDP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.8326416015625 2 557.83258 1113.65061 3.7354 0.0020837 -2.3604 -0.0013167 1.375 0.00076703 557.8307387385116 96.997 0.32092 97.599 97.444 97.765 0.6019 29 14 3 0 0 0 0.9146 1 44579 44579 2.9952 0.69251 1 1401700 31598 4360 20161 20223 35542 35542 0.09832792288693781 SVVMKLHKII 10 Unmodified _SVVMKLHKII_ 0 0 0 REV__CCDC7|p.R194Ifs*11|1|0.11|ENSG00000216937|chr10:32726823-32726824|-/TCTCTATATTT|frameshift_variant REV__CCDC7|p.R194Ifs*11|1|0.11|ENSG00000216937|chr10:32726823-32726824|-/TCTCTATATTT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 389.91455078125 3 389.914255 1166.72094 2.6698 0.001041 -0.91276 -0.0003559 1.757 0.00068509 389.9135835919542 35.615 0.33372 36.407 36.233 36.567 0.79131 25 16 3 0 0 0 0.90196 1 16177 16177 1.7423 0.67081 1 366420 + 31599 9993 20162 20224 35543 35543 0.14424374352824998 SVVMKLHKII 10 Unmodified _SVVMKLHKII_ 0 0 0 REV__CCDC7|p.R194Ifs*11|1|0.11|ENSG00000216937|chr10:32726823-32726824|-/TCTCTATATTT|frameshift_variant REV__CCDC7|p.R194Ifs*11|1|0.11|ENSG00000216937|chr10:32726823-32726824|-/TCTCTATATTT|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 389.914255 1166.72094 2.6698 0.001041 -0.91276 -0.0003559 1.757 0.00068509 389.9135835919542 35.615 0.33372 36.407 36.233 36.567 0.79131 -0.073525 0.000729 NaN 1.7423 25 16 3 NaN NaN NaN NaN 0 NaN NaN 0 366420 + 31600 9993 20162 20224 0.14424374352824998 SVWALLRWEPV 11 Unmodified _SVWALLRWEPV_ 0 0 0 ENST00000587010.5_1_17:76783725-76794501:-|nuORF;ENST00000542802.7_1_17:76793816-76794501:-|nuORF;ENST00000592231.5_1_17:76793816-76794505:-|nuORF;ENST00000589225.5_1_17:76793816-76794065:-|nuORF ENST00000587010.5_1_17:76783725-76794501:-|nuORF ENST00000587010.5_1_17:76783725-76794501:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 678.3788452148438 2 678.377155 1354.73976 NaN NaN NaN NaN NaN NaN NaN 88.189 1 88.242 87.742 88.742 0.052155 0 0 0 1.0065 1 44853 44853 2.2828 0.80087 1 31601 8821 20163 20225 35544 35544 0.07657627248204335 SVYVKLME 8 Unmodified _SVYVKLME_ 0 0 0 REV__ENST00000435962.6_1_14:92280167-92333840:-|nuORF REV__ENST00000435962.6_1_14:92280167-92333840:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.761962890625 2 484.759704 967.504854 3.1261 0.0015154 0.93203 0.00045181 4.0581 0.0019672 484.7602890915752 49.615 0.25238 49.877 49.727 49.98 0.26146 24 10 3 0 0 0 0.51067 1 22710 22710 20.454 1.0146 1 658490 + 31602 16304 20164 20226 35545 35545 0.019801934483098194 SWCHDCSA 8 Unmodified _SWCHDCSA_ 0 0 0 REV__ENST00000545247.6_1_11:18505612-18548363:-|nuORF REV__ENST00000545247.6_1_11:18505612-18548363:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.4391174316406 3 303.439034 907.295272 NaN NaN NaN NaN NaN NaN NaN 59.307 1 59.974 59.474 60.474 0.66703 0 0 0 0.99035 1 27150 27150 0 0 1 + 31603 17245 20165 20227 35546 35546 -0.16208372776486613 SWDGCDDADD 10 Unmodified _SWDGCDDADD_ 0 0 0 REV__LRP2|p.N4549Kfs*8|1|0.33|ENSG00000081479|chr2:169132655-169132655|A/-|frameshift_variant REV__LRP2|p.N4549Kfs*8|1|0.33|ENSG00000081479|chr2:169132655-169132655|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.670654296875 2 549.669468 1097.32438 NaN NaN NaN NaN NaN NaN NaN 100.1 1 100.69 100.19 101.19 0.59717 0 0 0 1.0015 1 46321 46321 0.40072 0.050084 1 + 31604 10609 20166 20228 35547 35547 -0.22038601737176577 SWDSDSDCDQD 11 Unmodified _SWDSDSDCDQD_ 0 0 0 ENST00000589022.1_1_19:11464267-11465550:+|nuORF;nc|ENSG00000183401|P0C7I6-7|CCDC159;ENSG00000183401|ENST00000458408|CCDC159 ENST00000589022.1_1_19:11464267-11465550:+|nuORF ENST00000589022.1_1_19:11464267-11465550:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 424.8034362792969 3 424.803423 1271.38844 NaN NaN NaN NaN NaN NaN NaN 60.647 1 61.386 60.886 61.886 0.7396 0 0 0 1.0082 1 28020 28020 0 0 1 31605 5378 20167 20229 35548 35548 -0.23639866370876916 SWEIITVEEA 10 Unmodified _SWEIITVEEA_ 0 0 0 nc|ENSG00000111912|Q8NI08-7|NCOA7;nc|ENSG00000111912|Q8NI08-2|NCOA7;ENSG00000111912|ENST00000392477|NCOA7 nc|ENSG00000111912|Q8NI08-7|NCOA7 nc|ENSG00000111912|Q8NI08-7|NCOA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 392.7098693847656 3 392.864283 1175.57102 NaN NaN NaN NaN NaN NaN NaN 73.028 1 73.692 73.192 74.192 0.66398 0 0 0 0.99812 1 33540 33540 1.5923 0.13716 1 31606 1786 20168 20230 35549 35549 -0.009743191759525871 SWELLFRDS 9 Unmodified _SWELLFRDS_ 0 0 0 REV__ENST00000280663.12_1_12:1909109-1909277:-|nuORF REV__ENST00000280663.12_1_12:1909109-1909277:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 576.7853393554688 2 576.787838 1151.56112 NaN NaN NaN NaN NaN NaN NaN 47.994 1 48.824 48.324 49.324 0.82915 0 0 0 0.90699 1 21865 21865 1.8442 0.19162 1 + 31607 15086 20169 20231 35550 35550 -0.008594623906674315 SWETTQVL 8 Unmodified _SWETTQVL_ 0 0 0 REV__nc|ENSG00000118523|P29279-2|CCN2 REV__nc|ENSG00000118523|P29279-2|CCN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.2433166503906 2 482.242732 962.470912 NaN NaN NaN NaN NaN NaN NaN 68.548 1 68.8 68.3 69.3 0.25227 0 0 0 0.99035 1 31403 31403 5.7604 0 1 + 31608 11475 20170 20232 35551 35551 -0.011825117191051504 SWHKMWREWWM 11 Unmodified _SWHKMWREWWM_ 0 0 0 REV__ENST00000301180.9_1_12:51133363-51135252:+|nuORF REV__ENST00000301180.9_1_12:51133363-51135252:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.9189453125 3 554.920074 1661.73839 NaN NaN NaN NaN NaN NaN NaN 33.009 1 33.009 32.509 33.509 0 0 0 0 1.0082 1 14951 14951 0 0 1 + 31609 15189 20171 20233 35552 35552 -0.06600653383861754 SWHKMWREWWM 11 Unmodified _SWHKMWREWWM_ 0 0 0 REV__ENST00000301180.9_1_12:51133363-51135252:+|nuORF REV__ENST00000301180.9_1_12:51133363-51135252:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.921142578125 3 554.920074 1661.73839 NaN NaN NaN NaN NaN NaN NaN 88.162 1 88.413 87.913 88.913 0.25064 0 0 0 1.0082 1 40568 40568 0 0 1 + 31610 15189 20171 20233 35553 35553 -0.06600653383861754 SWIIMNKPVYI 11 Unmodified _SWIIMNKPVYI_ 0 0 0 nc|ENSG00000154975|Q9NS85-2|CA10;ENSG00000154975|ENST00000451037|CA10 nc|ENSG00000154975|Q9NS85-2|CA10 nc|ENSG00000154975|Q9NS85-2|CA10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 455.2545471191406 3 455.252936 1362.73698 2.6609 0.0012114 2.273 0.0010348 4.9339 0.0022462 455.2534863644028 43.337 0.2295 44.152 44.107 44.336 0.81444 20 12 2 0 0 0 0.71079 1 19760 19760 5.8681 0 1 384250 31611 3847 20172 20234 35554 35554 0.07012035799061778 SWIKWLRWWRQ 11 Unmodified _SWIKWLRWWRQ_ 0 0 0 REV__VCL|p.K139Nfs*28|1|0.16|ENSG00000035403|chr10:74071001-74071007|AGGAATT/-|frameshift_variant REV__VCL|p.K139Nfs*28|1|0.16|ENSG00000035403|chr10:74071001-74071007|AGGAATT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 822.9525146484375 2 822.949144 1643.88374 NaN NaN NaN NaN NaN NaN NaN 62.283 1 63.014 62.514 63.514 0.73077 0 0 0 1.008 1 29011 29011 0.26902 0 1 + 31612 18247 20173 20235 35555 35555 0.08754893799005004 SWKLLKAH 8 Unmodified _SWKLLKAH_ 0 0 0 REV__nc|ENSG00000150760|Q14185|DOCK1 REV__nc|ENSG00000150760|Q14185|DOCK1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.20037841796875 3 328.199272 981.575986 2.3359 0.00076663 1.1697 0.0003839 3.5056 0.0011505 328.1997164163208 45.774 0.47676 46.039 45.891 46.368 0.26564 32 20 2 0 0 0 0.14244 1 20987 20987 3.5965 0.31518 1 489660 + 31613 12594 20174 20236 35556 35556 0.08446074267999393 SWKLLKAH 8 Unmodified _SWKLLKAH_ 0 0 0 REV__nc|ENSG00000150760|Q14185|DOCK1 REV__nc|ENSG00000150760|Q14185|DOCK1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 328.199272 981.575986 2.0909 0.00068625 0.92946 0.00030505 3.0204 0.0009913 328.19955414330116 45.968 0.27224 45.968 45.772 46.044 0 0.066981 -0.00022593 NaN 3.5965 19 14 2 NaN NaN NaN NaN 0 NaN NaN 0 687260 + 31614 12594 20174 20236 0.08446074267999393 SWKLRSKMT 9 Unmodified _SWKLRSKMT_ 0 0 0 REV__THE1B-int_dup2461|chr9:39963661-39965204:+|1.814289323776622|0.4033997191753589|2.17|537.0|15|2|sense REV__THE1B-int_dup2461|chr9:39963661-39965204:+|1.814289323776622|0.4033997191753589|2.17|537.0|15|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.54736328125 3 379.546343 1135.6172 NaN NaN NaN NaN NaN NaN NaN 15.469 1 15.469 14.969 15.969 0 0 0 0 0.91099 1 6837 6837 0.86438 0.46366 1 + 31615 18230 20175 20237 35557 35557 0.054814672451584556 SWKPLRSPLL 10 Unmodified _SWKPLRSPLL_ 0 0 0 REV__ENSG00000125810|ENST00000246006|CD93 REV__ENSG00000125810|ENST00000246006|CD93 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.91253662109375 3 399.576519 1195.70773 3.1343 0.0012524 0.71501 0.0002857 3.8493 0.0015381 399.5769669911174 48.677 0.27174 48.939 48.816 49.088 0.26209 16 10 2 0 0 0 0.87461 1 22278 22278 2.6312 1.5215 1 710940 + 31616 11694 20176 20238 35558 35558 0.11770259565082597 SWKPLRSPLL 10 Unmodified _SWKPLRSPLL_ 0 0 0 REV__ENSG00000125810|ENST00000246006|CD93 REV__ENSG00000125810|ENST00000246006|CD93 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 399.576519 1195.70773 2.6217 0.0010476 1.2718 0.00050818 3.8935 0.0015557 399.5770539964043 49.198 0.16361 49.198 49.134 49.297 0 0.25087 0.00027973 NaN 2.6312 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 568850 + 31617 11694 20176 20238 0.11770259565082597 SWKPLRSPLL 10 Unmodified _SWKPLRSPLL_ 0 0 0 REV__ENSG00000125810|ENST00000246006|CD93 REV__ENSG00000125810|ENST00000246006|CD93 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 399.576519 1195.70773 3.1343 0.0012524 0.71501 0.0002857 3.8493 0.0015381 399.5769669911174 48.677 0.27174 48.939 48.816 49.088 0.26209 -0.0079197 -0.00038772 NaN 2.6312 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 710940 + 31618 11694 20176 20238 0.11770259565082597 SWKPLRSPLL 10 Unmodified _SWKPLRSPLL_ 0 0 0 REV__ENSG00000125810|ENST00000246006|CD93 REV__ENSG00000125810|ENST00000246006|CD93 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 399.576519 1195.70773 3.018 0.0012059 1.0949 0.0004375 4.1129 0.0016434 399.5768448406871 48.05 0.2999 48.704 48.619 48.919 0.65356 -0.24295 6.7679E-05 NaN 2.6312 18 10 2 NaN NaN NaN NaN 0 NaN NaN 0 261770 + 31619 11694 20176 20238 0.11770259565082597 SWLLFRWWRRR 11 Unmodified _SWLLFRWWRRR_ 0 0 0 ENST00000463462.5_1_7:148982563-148988696:+|nuORF;ENST00000426347.5_1_7:148982610-148985528:+|nuORF;ENST00000481817.5_1_7:148984700-148990670:+|nuORF ENST00000463462.5_1_7:148982563-148988696:+|nuORF ENST00000463462.5_1_7:148982563-148988696:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 831.4675903320312 2 831.468035 1660.92152 NaN NaN NaN NaN NaN NaN NaN 91.037 1 91.037 90.537 91.537 0 0 0 0 1.0082 1 47981 47981 0 0 1 31620 8104 20177 20239 35559 35559 0.11749404784450235 SWLLRMPM 8 Unmodified _SWLLRMPM_ 0 0 0 ENST00000425226.1_1_2:203705376-203705544:-|nuORF ENST00000425226.1_1_2:203705376-203705544:-|nuORF ENST00000425226.1_1_2:203705376-203705544:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.18438720703125 3 345.182236 1032.52488 2.4837 0.00085732 1.2111 0.00041806 3.6948 0.0012754 345.1826499377719 14.243 0.0501 14.891 14.869 14.919 0.6482 9 6 2 0 0 0 0.49219 1 6408 6408 17.113 2.7075 1 1801500 31621 7793 20178 20240 35560 35560 0.009916659072587208 SWNAGPSG 8 Unmodified _SWNAGPSG_ 0 0 0 REV__ENST00000423354.1_1_2:43459915-43460462:+|nuORF REV__ENST00000423354.1_1_2:43459915-43460462:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 388.2460632324219 2 388.17211 774.329667 NaN NaN NaN NaN NaN NaN NaN 73.256 1 73.955 73.455 74.455 0.69881 0 0 0 0.99035 1 35306 35306 2.5775 0.51773 1 + 31622 16189 20179 20241 35561 35561 -0.06652465301704069 SWPDWALPRL 10 Unmodified _SWPDWALPRL_ 0 0 0 ENSG00000152137|ENST00000281938|HSPB8 ENSG00000152137|ENST00000281938|HSPB8 ENSG00000152137|ENST00000281938|HSPB8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 620.829345703125 2 620.827298 1239.64004 3.8086 0.0023645 0.58857 0.0003654 4.3972 0.0027299 620.8276074509777 86.731 0.31045 86.98 86.928 87.239 0.24974 22 14 2 0 0 0 0.33929 2 39943 39943;40008 24.991 11.085 1 619330 31623 3740 20180 20242 35562;35563 35562 0.029808096342549106 SWRMRKRRRRR 11 Unmodified _SWRMRKRRRRR_ 0 0 0 ENST00000487093.5_1_3:51575631-51661706:+|nuORF ENST00000487093.5_1_3:51575631-51661706:+|nuORF ENST00000487093.5_1_3:51575631-51661706:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 822.4918212890625 2 822.489842 1642.96513 NaN NaN NaN NaN NaN NaN NaN 99.699 1 99.761 99.261 100.26 0.062241 0 0 0 1.0082 1 53951 53951 0 0 1 31624 8342 20181 20243 35564 35564 0.1693669100995976 SWRMRKRRRRR 11 Unmodified _SWRMRKRRRRR_ 0 0 0 ENST00000487093.5_1_3:51575631-51661706:+|nuORF ENST00000487093.5_1_3:51575631-51661706:+|nuORF ENST00000487093.5_1_3:51575631-51661706:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 822.4874267578125 2 822.489842 1642.96513 NaN NaN NaN NaN NaN NaN NaN 89.575 1 90.253 89.753 90.753 0.67818 0 0 0 1.0082 1 41241 41241 0 0 1 31625 8342 20181 20243 35565 35565 0.1693669100995976 SWRRRRWKRKR 11 Unmodified _SWRRRRWKRKR_ 0 0 0 ENST00000557821.5_1_15:40588574-40589003:-|nuORF;ENST00000260402.7_1_15:40588574-40589003:-|nuORF ENST00000557821.5_1_15:40588574-40589003:-|nuORF ENST00000557821.5_1_15:40588574-40589003:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 836.005859375 2 836.006182 1669.99781 NaN NaN NaN NaN NaN NaN NaN 68.214 1 68.873 68.373 69.373 0.65924 0 0 0 1.0082 1 31269 31269 0 0 1 31626 6544 20182 20244 35566 35566 0.18961221404470052 SWRRRRWKRKR 11 Unmodified _SWRRRRWKRKR_ 0 0 0 ENST00000557821.5_1_15:40588574-40589003:-|nuORF;ENST00000260402.7_1_15:40588574-40589003:-|nuORF ENST00000557821.5_1_15:40588574-40589003:-|nuORF ENST00000557821.5_1_15:40588574-40589003:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 836.003173828125 2 836.006182 1669.99781 NaN NaN NaN NaN NaN NaN NaN 106.19 1 106.79 106.29 107.29 0.59969 0 0 0 1.0082 1 49031 49031 0 0 1 31627 6544 20182 20244 35567 35567 0.18961221404470052 SWSLRWVNELK 11 Unmodified _SWSLRWVNELK_ 0 0 0 nc|ENSG00000168439|P31948-2|STIP1 nc|ENSG00000168439|P31948-2|STIP1 nc|ENSG00000168439|P31948-2|STIP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.2852478027344 3 473.257738 1416.75138 3.0225 0.0014304 -0.11359 -5.3758E-05 2.9089 0.0013767 473.25784818181785 35.576 0.068981 36.368 36.315 36.384 0.79132 6 4 2 0 0 0 0.13295 1 16115 16115 5.8681 1.7515 1 233410 31628 9746 20183 20245 35568 35568 0.0596782427155631 SWVIIGLLPSR 11 Unmodified _SWVIIGLLPSR_ 0 0 0 ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 414.5870361328125 3 414.251924 1239.73394 2.598 0.0010762 0.60693 0.00025142 3.2049 0.0013277 414.25207300684104 47.764 0.31713 47.764 47.694 48.011 0 39 18 3 0 0 0 0.84422 2 21877 21877;21937 2.2527 1.2905 1 2446300 31629 9341 20184 20246 35569;35570 35569 0.12366528736561122 SWVIIGLLPSR 11 Unmodified _SWVIIGLLPSR_ 0 0 0 ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 414.2538146972656 3 414.251924 1239.73394 2.9463 0.0012205 1.3557 0.0005616 4.302 0.0017821 414.2524672760069 50.868 0.6203 50.868 50.51 51.131 0 48 33 2 0 0 0 0.84422 1 23337 23337 2.2527 0.34635 1 1018200 31630 9341 20184 20246 35571 35571 0.12366528736561122 SWVIIGLLPSR 11 Unmodified _SWVIIGLLPSR_ 0 0 0 ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 414.2535705566406 3 414.251924 1239.73394 2.5607 0.0010608 1.3455 0.00055737 3.9062 0.0016182 414.2522098199041 47.088 0.19241 47.917 47.821 48.013 0.82915 28 12 3 0 0 0 0.89844 1 21464 21464 1.0136 0.051299 1 718210 31631 9341 20184 20246 35572 35572 0.12366528736561122 SWVIIGLLPSR 11 Unmodified _SWVIIGLLPSR_ 0 0 0 ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.253173828125 3 414.251924 1239.73394 3.1572 0.0013079 0.6974 0.0002889 3.8546 0.0015968 414.25214487032133 47.56 0.39182 47.823 47.466 47.858 0.26363 40 17 3 0 0 0 0.84422 2 21683 21631;21683 2.2527 0.051299 1 1759900 31632 9341 20184 20246 35573;35574 35574 0.12366528736561122 SWVIIGLLPSR 11 Unmodified _SWVIIGLLPSR_ 0 0 0 ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 620.876708984375 2 620.874248 1239.73394 3.8429 0.002386 0.83466 0.00051822 4.6776 0.0029042 620.8745893332504 47.42 0.25208 47.684 47.52 47.772 0.26363 17 9 2 0 0 0 0.89844 1 21648 21648 2.4985 0 1 483630 31633 9341 20184 20246 35575 35575 0.12366528736561122 SWVIIGLLPSR 11 Unmodified _SWVIIGLLPSR_ 0 0 0 ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.2535400390625 3 414.251924 1239.73394 3.1553 0.0013071 1.2111 0.00050169 4.3663 0.0018088 414.5867685021823 47.87 0.41896 48.134 47.986 48.405 0.26363 45 17 3 0 0 0 0.84422 3 21924 21880;21924;21978 2.2527 1.6259 1 1393400 31634 9341 20184 20246 35576;35577;35578 35577 0.12366528736561122 SWVIIGLLPSR 11 Unmodified _SWVIIGLLPSR_ 0 0 0 ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.253662109375 3 414.251924 1239.73394 3.0341 0.0012569 1.1385 0.00047161 4.1725 0.0017285 414.2522413019744 46.857 0.42838 47.509 47.167 47.596 0.65219 26 14 3 0 0 0 0.89844 2 21422 21422;21484 1.0136 0.38675 1 1224200 31635 9341 20184 20246 35579;35580 35579 0.12366528736561122 SWVIIGLLPSR 11 Unmodified _SWVIIGLLPSR_ 0 0 0 ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.2535705566406 3 414.251924 1239.73394 NaN NaN NaN NaN NaN NaN NaN 47.304 1 47.957 47.457 48.457 0.65268 0 0 0 1.0063 1 21661 21661 1.0136 0 1 31636 9341 20184 20246 35581 35581 0.12366528736561122 SWVIIGLLPSR 11 Unmodified _SWVIIGLLPSR_ 0 0 0 ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 414.251924 1239.73394 2.5891 0.0010725 0.79349 0.00032871 3.3826 0.0014012 414.25214620034996 46.665 0.31026 47.494 47.448 47.758 0.82915 -0.095105 -8.0441E-05 NaN 2.2527 28 15 2 NaN NaN NaN NaN 0 NaN NaN 0 1150500 31637 9341 20184 20246 0.12366528736561122 SWVIIGLLPSR 11 Unmodified _SWVIIGLLPSR_ 0 0 0 ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 414.251924 1239.73394 2.578 0.001068 0.21717 8.9961E-05 2.7952 0.0011579 414.2519839742088 47.299 0.20135 48.129 47.977 48.179 0.82915 -0.0025589 -0.00093071 NaN 2.2527 24 10 3 NaN NaN NaN NaN 0 NaN NaN 0 681160 31638 9341 20184 20246 0.12366528736561122 SWVIIGLLPSR 11 Unmodified _SWVIIGLLPSR_ 0 0 0 ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 414.251924 1239.73394 2.7535 0.0011407 1.0093 0.00041812 3.7629 0.0015588 414.2522104729572 50.199 0.43788 51.022 50.727 51.165 0.82285 0.10418 -0.00029182 NaN 2.2527 29 20 2 NaN NaN NaN NaN 0 NaN NaN 0 482290 31639 9341 20184 20246 0.12366528736561122 SWVIIGLLPSR 11 Unmodified _SWVIIGLLPSR_ 0 0 0 ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 414.251924 1239.73394 2.8587 0.0011842 1.4591 0.00060442 4.3178 0.0017886 414.2523882674413 50.616 0.34289 50.877 50.777 51.119 0.26146 -0.040753 0.00026707 NaN 2.2527 23 15 2 NaN NaN NaN NaN 0 NaN NaN 0 525260 31640 9341 20184 20246 0.12366528736561122 SWVIIGLLPSR 11 Unmodified _SWVIIGLLPSR_ 0 0 0 ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF ENST00000608317.1_1_7:154795649-154795937:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 414.251924 1239.73394 2.9174 0.0012085 1.258 0.00052112 4.1753 0.0017296 414.2523090257857 50.247 0.40295 50.905 50.698 51.101 0.65735 -0.013474 1.7173E-05 NaN 2.2527 20 16 2 NaN NaN NaN NaN 0 NaN NaN 0 236830 31641 9341 20184 20246 0.12366528736561122 SWVRVIYEL 9 Unmodified _SWVRVIYEL_ 0 0 0 REV__nc|ENSG00000117013|P56696-2|KCNQ4 REV__nc|ENSG00000117013|P56696-2|KCNQ4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 388.8863220214844 3 388.885241 1163.63389 2.4417 0.00094953 0.3991 0.00015521 2.8408 0.0011047 388.8854321371454 44.233 0.21782 45.054 44.912 45.129 0.82074 18 11 2 0 0 0 0.87132 1 20139 20139 6.1918 3.1966 1 244310 + 31642 11430 20185 20247 35582 35582 0.05862291402763731 SWVRVIYEL 9 Unmodified _SWVRVIYEL_ 0 0 0 REV__nc|ENSG00000117013|P56696-2|KCNQ4 REV__nc|ENSG00000117013|P56696-2|KCNQ4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 388.885241 1163.63389 2.5842 0.001005 -0.16968 -6.5985E-05 2.4145 0.00093897 388.8853346845416 45.364 0.1606 45.364 45.308 45.468 0 0.15507 -0.0003986 NaN 6.1918 9 7 2 NaN NaN NaN NaN 0 NaN NaN 0 337080 + 31643 11430 20185 20247 0.05862291402763731 SWVRVIYEL 9 Unmodified _SWVRVIYEL_ 0 0 0 REV__nc|ENSG00000117013|P56696-2|KCNQ4 REV__nc|ENSG00000117013|P56696-2|KCNQ4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 388.885241 1163.63389 2.4417 0.00094953 0.3991 0.00015521 2.8408 0.0011047 388.8854321371454 44.233 0.21782 45.054 44.912 45.129 0.82074 -0.15507 0.00026497 NaN 6.1918 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 244310 + 31644 11430 20185 20247 0.05862291402763731 SYADQMFLL 9 Oxidation (M) _SYADQM(Oxidation (M))FLL_ SYADQM(1)FLL SYADQM(44)FLL 0 0 1 ENSG00000100991|ENST00000252015|TRPC4AP;nc|ENSG00000100991|Q8TEL6-3|TRPC4AP ENSG00000100991|ENST00000252015|TRPC4AP ENSG00000100991|ENST00000252015|TRPC4AP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.2625732421875 2 552.257525 1102.5005 NaN NaN NaN NaN NaN NaN NaN 75.483 1 75.483 74.983 75.983 0 0 0 0 0.088432 1 36987 36987 43.858 25.723 1 31645 1255 20186 20248 35583 35583 11 -0.04665315765282685 SYADQMFLL 9 Unmodified _SYADQMFLL_ 0 0 0 ENSG00000100991|ENST00000252015|TRPC4AP;nc|ENSG00000100991|Q8TEL6-3|TRPC4AP ENSG00000100991|ENST00000252015|TRPC4AP ENSG00000100991|ENST00000252015|TRPC4AP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.031005859375 2 544.260068 1086.50558 NaN NaN NaN NaN NaN NaN NaN 89.809 1 89.873 89.373 90.373 0.064346 0 0 0 0.11997 1 46110 46110 37.974 14.826 1 31646 1255 20186 20249 35584 35584 -0.034210119026511165 SYADQMFLL 9 Unmodified _SYADQMFLL_ 0 0 0 ENSG00000100991|ENST00000252015|TRPC4AP;nc|ENSG00000100991|Q8TEL6-3|TRPC4AP ENSG00000100991|ENST00000252015|TRPC4AP ENSG00000100991|ENST00000252015|TRPC4AP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.2620239257812 2 544.260068 1086.50558 3.8597 0.0021007 0.29606 0.00016114 4.1557 0.0022618 544.2603486957022 90.29 0.34506 90.541 90.37 90.715 0.25137 31 16 3 0 0 0 0.027384 2 41511 41511;41570 58.679 35.53 1 1201500 31647 1255 20186 20249 35585;35586 35585 -0.034210119026511165 SYADQMFLL 9 Unmodified _SYADQMFLL_ 0 0 0 ENSG00000100991|ENST00000252015|TRPC4AP;nc|ENSG00000100991|Q8TEL6-3|TRPC4AP ENSG00000100991|ENST00000252015|TRPC4AP ENSG00000100991|ENST00000252015|TRPC4AP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.2617797851562 2 544.260068 1086.50558 3.655 0.0019893 0.32556 0.00017719 3.9806 0.0021665 544.2602533831423 89.728 0.32423 90.406 90.216 90.54 0.67818 35 15 3 0 0 0 0.020151 2 41329 41275;41329 68.081 49.946 1 1369300 31648 1255 20186 20249 35587;35588 35588 -0.034210119026511165 SYASLQQNKW 10 Unmodified _SYASLQQNKW_ 0 0 0 ENSG00000104133|ENST00000261866|SPG11;nc|ENSG00000104133|Q96JI7-3|SPG11;nc|ENSG00000104133|Q96JI7-2|SPG11 ENSG00000104133|ENST00000261866|SPG11 ENSG00000104133|ENST00000261866|SPG11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 612.8076171875 2 612.80402 1223.59349 3.3326 0.0020422 1.0634 0.00065168 4.396 0.0026939 612.8046847720229 39.458 0.22659 40.258 40.127 40.353 0.80014 18 10 2 0 0 0 0.03281 1 17863 17863 66.457 47.095 1 275600 31649 1427 20187 20250 35589 35589 -0.009366749876789981 SYAYTLMVL 9 Unmodified _SYAYTLMVL_ 0 0 0 nc|ENSG00000083223|Q5VYS8-4|TUT7;ENSG00000083223|ENST00000375963|TUT7 nc|ENSG00000083223|Q5VYS8-4|TUT7 nc|ENSG00000083223|Q5VYS8-4|TUT7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.07666015625 2 530.772811 1059.53107 NaN NaN NaN NaN NaN NaN NaN 79.985 1 79.985 79.485 80.485 0 0 0 0 0.52667 1 39604 39604 18.135 5.6034 1 31650 937 20188 20251 35590 35590 0.0036846261978098482 SYCARPTTHC 10 Unmodified _SYCARPTTHC_ 0 0 0 ENSG00000180872|ENST00000651554|DEFB112;nc|ENSG00000180872|Q30KQ8|DEFB112 ENSG00000180872|ENST00000651554|DEFB112 ENSG00000180872|ENST00000651554|DEFB112 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 380.1646423339844 3 380.163792 1137.46955 2.8444 0.0010814 -1.3252 -0.00050378 1.5193 0.00057758 380.1634960576556 13.216 0.25365 13.216 13.079 13.333 0 48 17 4 0 0 0 0.86398 1 5750 5750 5.4027 0.87384 1 813250 31651 5265 20189 20252 35591 35591 -0.09368792351142474 SYDHVELTF 9 Unmodified _SYDHVELTF_ 0 0 0 ENST00000592802.1_1_17:73847561-73851408:-|nuORF;ENST00000589834.1_1_17:73845679-73851408:-|nuORF;ENST00000590450.5_1_17:73845072-73851378:-|nuORF;ENST00000589241.5_1_17:73844624-73851319:-|nuORF;ENST00000587642.5_1_17:73844624-73847864:-|nuORF;nc|ENSG00000132471|Q969T9-2|WBP2;ENST00000416574.6_1_17:73843478-73851408:-|nuORF;ENSG00000132471|ENST00000254806|WBP2 ENST00000592802.1_1_17:73847561-73851408:-|nuORF ENST00000592802.1_1_17:73847561-73851408:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.7613525390625 2 555.758746 1109.50294 3.5238 0.0019584 0.12888 7.1626E-05 3.6526 0.00203 555.7587438700183 59.498 0.2435 60.163 60.031 60.274 0.66503 14 9 2 0 0 0 0.028312 1 27241 27241 57.471 28.39 1 411060 31652 2706 20190 20253 35592 35592 -0.04743144035955993 SYDHVELTF 9 Unmodified _SYDHVELTF_ 0 0 0 ENST00000592802.1_1_17:73847561-73851408:-|nuORF;ENST00000589834.1_1_17:73845679-73851408:-|nuORF;ENST00000590450.5_1_17:73845072-73851378:-|nuORF;ENST00000589241.5_1_17:73844624-73851319:-|nuORF;ENST00000587642.5_1_17:73844624-73847864:-|nuORF;nc|ENSG00000132471|Q969T9-2|WBP2;ENST00000416574.6_1_17:73843478-73851408:-|nuORF;ENSG00000132471|ENST00000254806|WBP2 ENST00000592802.1_1_17:73847561-73851408:-|nuORF ENST00000592802.1_1_17:73847561-73851408:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 555.758746 1109.50294 2.9792 0.0016557 0.72058 0.00040047 3.6998 0.0020562 555.7587226592165 59.092 0.12773 59.851 59.768 59.895 0.75894 -0.15597 0.00041886 NaN 57.471 14 9 2 NaN NaN NaN NaN 0 NaN NaN 0 455500 31653 2706 20190 20253 -0.04743144035955993 SYDPDFNQL 9 Unmodified _SYDPDFNQL_ 0 0 0 ENST00000467954.5_1_X:48339852-48341236:+|nuORF;ENST00000490202.5_1_X:48339880-48341236:+|nuORF;ENSG00000068438|ENST00000348411|FTSJ1 ENST00000467954.5_1_X:48339852-48341236:+|nuORF ENST00000467954.5_1_X:48339852-48341236:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.7421875 2 549.740554 1097.46655 3.4632 0.0019038 0.05412 2.9752E-05 3.5173 0.0019336 549.7405267474096 59.428 0.32708 59.428 59.277 59.604 0 71 27 3 0 0 0 1.3867E-08 3 27481 27433;27481;27538 152.41 100.14 1 5578300 31654 735 20191 20254 35593;35594;35595 35594 -0.0782802093265218 SYDPDFNQL 9 Unmodified _SYDPDFNQL_ 0 0 0 ENST00000467954.5_1_X:48339852-48341236:+|nuORF;ENST00000490202.5_1_X:48339880-48341236:+|nuORF;ENSG00000068438|ENST00000348411|FTSJ1 ENST00000467954.5_1_X:48339852-48341236:+|nuORF ENST00000467954.5_1_X:48339852-48341236:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1098.48193359375 1 1098.47383 1097.46655 3.0249 0.0033227 0.53781 0.00059077 3.5627 0.0039135 1098.4744125817026 59.458 0.19677 59.458 59.343 59.54 0 28 15 2 0 0 0 0.0024241 2 27452 27452;27506 99.799 53.778 1 1601700 31655 735 20191 20254 35596;35597 35596 -0.0782802093265218 SYDPDFNQL 9 Unmodified _SYDPDFNQL_ 0 0 0 ENST00000467954.5_1_X:48339852-48341236:+|nuORF;ENST00000490202.5_1_X:48339880-48341236:+|nuORF;ENSG00000068438|ENST00000348411|FTSJ1 ENST00000467954.5_1_X:48339852-48341236:+|nuORF ENST00000467954.5_1_X:48339852-48341236:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.7418212890625 2 549.740554 1097.46655 2.941 0.0016168 0.25173 0.00013839 3.1927 0.0017552 549.7407282493273 58.422 0.30773 59.18 59.029 59.336 0.75894 77 24 4 0 0 0 1.3867E-08 3 26795 26746;26795;26850 152.41 100.14 1 4859700 31656 735 20191 20254 35598;35599;35600 35599 -0.0782802093265218 SYDPDFNQL 9 Unmodified _SYDPDFNQL_ 0 0 0 ENST00000467954.5_1_X:48339852-48341236:+|nuORF;ENST00000490202.5_1_X:48339880-48341236:+|nuORF;ENSG00000068438|ENST00000348411|FTSJ1 ENST00000467954.5_1_X:48339852-48341236:+|nuORF ENST00000467954.5_1_X:48339852-48341236:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1098.4776611328125 1 1098.47383 1097.46655 3.2287 0.0035466 0.1989 0.00021849 3.4276 0.0037651 1098.4741970888379 58.457 0.17912 59.216 59.101 59.28 0.75894 29 16 2 0 0 0 0.0014219 2 26816 26770;26816 111.29 67.429 1 1737900 31657 735 20191 20254 35601;35602 35602 -0.0782802093265218 SYDPDFNQL 9 Unmodified _SYDPDFNQL_ 0 0 0 ENST00000467954.5_1_X:48339852-48341236:+|nuORF;ENST00000490202.5_1_X:48339880-48341236:+|nuORF;ENSG00000068438|ENST00000348411|FTSJ1 ENST00000467954.5_1_X:48339852-48341236:+|nuORF ENST00000467954.5_1_X:48339852-48341236:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.742431640625 2 549.740554 1097.46655 3.5655 0.0019601 -0.27639 -0.00015194 3.2891 0.0018082 549.7403957383734 59.213 0.38749 59.473 59.233 59.62 0.2593 43 17 3 0 0 0 3.3938E-05 3 27099 27054;27099;27155 139.14 95.28 1 1723000 31658 735 20191 20254 35603;35604;35605 35604 -0.0782802093265218 SYDPDFNQL 9 Unmodified _SYDPDFNQL_ 0 0 0 ENST00000467954.5_1_X:48339852-48341236:+|nuORF;ENST00000490202.5_1_X:48339880-48341236:+|nuORF;ENSG00000068438|ENST00000348411|FTSJ1 ENST00000467954.5_1_X:48339852-48341236:+|nuORF ENST00000467954.5_1_X:48339852-48341236:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1098.475830078125 1 1098.47383 1097.46655 3.1842 0.0034977 0.93266 0.0010245 4.1168 0.0045222 1098.475185873678 59.173 0.17989 59.432 59.316 59.496 0.2593 12 8 2 0 0 0 0.19064 1 27083 27083 24.021 5.8742 1 396330 31659 735 20191 20254 35606 35606 -0.0782802093265218 SYDPDFNQL 9 Unmodified _SYDPDFNQL_ 0 0 0 ENST00000467954.5_1_X:48339852-48341236:+|nuORF;ENST00000490202.5_1_X:48339880-48341236:+|nuORF;ENSG00000068438|ENST00000348411|FTSJ1 ENST00000467954.5_1_X:48339852-48341236:+|nuORF ENST00000467954.5_1_X:48339852-48341236:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.7423095703125 2 549.740554 1097.46655 3.5525 0.001953 -0.016578 -9.1136E-06 3.536 0.0019439 549.7405603812899 58.597 0.35728 59.264 59.108 59.465 0.66703 30 12 3 0 0 0 0.0013204 2 26813 26813;26872 118.89 82.768 1 2084400 31660 735 20191 20254 35607;35608 35607 -0.0782802093265218 SYDPDFNQL 9 Unmodified _SYDPDFNQL_ 0 0 0 ENST00000467954.5_1_X:48339852-48341236:+|nuORF;ENST00000490202.5_1_X:48339880-48341236:+|nuORF;ENSG00000068438|ENST00000348411|FTSJ1 ENST00000467954.5_1_X:48339852-48341236:+|nuORF ENST00000467954.5_1_X:48339852-48341236:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1098.4759521484375 1 1098.47383 1097.46655 3.3756 0.003708 0.93828 0.0010307 4.3139 0.0047387 1098.474670742474 58.626 0.28397 59.293 59.153 59.437 0.66703 14 9 2 0 0 0 0.017293 1 26842 26842 71.922 33.948 1 750040 31661 735 20191 20254 35609 35609 -0.0782802093265218 SYDPTIENTF 10 Unmodified _SYDPTIENTF_ 0 0 0 ENSG00000106615|ENST00000262187|RHEB ENSG00000106615|ENST00000262187|RHEB ENSG00000106615|ENST00000262187|RHEB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 593.7697143554688 2 593.766768 1185.51898 3.1887 0.0018933 0.22108 0.00013127 3.4097 0.0020246 593.7670535562659 59.765 0.16985 60.514 60.363 60.532 0.74927 18 11 2 0 0 0 0.021807 2 27433 27433;27447 69.105 51.992 1 1203700 31662 1577 20192 20255 35610;35611 35610 -0.06635482589740604 SYDPTIENTF 10 Unmodified _SYDPTIENTF_ 0 0 0 ENSG00000106615|ENST00000262187|RHEB ENSG00000106615|ENST00000262187|RHEB ENSG00000106615|ENST00000262187|RHEB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 593.7703247070312 2 593.766768 1185.51898 NaN NaN NaN NaN NaN NaN NaN 60.414 1 60.67 60.17 61.17 0.25578 0 0 0 0.03845 1 27662 27662 74.929 54.475 1 31663 1577 20192 20255 35612 35612 -0.06635482589740604 SYDPTIENTF 10 Unmodified _SYDPTIENTF_ 0 0 0 ENSG00000106615|ENST00000262187|RHEB ENSG00000106615|ENST00000262187|RHEB ENSG00000106615|ENST00000262187|RHEB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 593.7688598632812 2 593.766768 1185.51898 3.902 0.0023169 -0.27088 -0.00016084 3.6311 0.0021561 593.7664104924968 59.942 0.1505 60.607 60.478 60.628 0.66503 14 7 2 0 0 0 0.021807 1 27428 27428 69.105 51.992 1 789730 31664 1577 20192 20255 35613 35613 -0.06635482589740604 SYEEESSD 8 Unmodified _SYEEESSD_ 0 0 0 REV__ENSG00000145331|ENST00000394876|TRMT10A REV__ENSG00000145331|ENST00000394876|TRMT10A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.16925048828125 2 473.169627 944.324701 NaN NaN NaN NaN NaN NaN NaN 17.136 1 17.337 16.837 17.837 0.20057 0 0 0 0.99035 1 7578 7578 5.2307 0 1 + 31665 12437 20193 20256 35614 35614 -0.14968858745646685 SYESMCECSSC 11 Unmodified _SYESMCECSSC_ 0 0 0 ENST00000498611.5_1_22:50657800-50659866:-|nuORF ENST00000498611.5_1_22:50657800-50659866:-|nuORF ENST00000498611.5_1_22:50657800-50659866:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 614.2929077148438 2 614.684892 1227.35523 NaN NaN NaN NaN NaN NaN NaN 94.476 1 95.093 94.593 95.593 0.61736 0 0 0 1.0082 1 43450 43450 0 0 1 31666 8463 20194 20257 35615 35615 -0.2493523101043138 SYFPKILTF 9 Unmodified _SYFPKILTF_ 0 0 0 nc|ENSG00000138821|Q9C0K1-2|SLC39A8;nc|ENSG00000138821|Q9C0K1-3|SLC39A8;ENSG00000138821|ENST00000356736|SLC39A8 nc|ENSG00000138821|Q9C0K1-2|SLC39A8 nc|ENSG00000138821|Q9C0K1-2|SLC39A8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.312255859375 2 558.310418 1114.60628 NaN NaN NaN NaN NaN NaN NaN 81.08 1 81.74 81.24 82.24 0.65998 0 0 0 0.66577 1 37356 37356 19.257 9.1831 1 31667 3122 20195 20258 35616 35616 0.05356388142513424 SYFSFWWWWWK 11 Unmodified _SYFSFWWWWWK_ 0 0 0 ENST00000300134.7_1_12:57504946-57505147:-|nuORF ENST00000300134.7_1_12:57504946-57505147:-|nuORF ENST00000300134.7_1_12:57504946-57505147:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 854.8870849609375 2 854.890429 1707.76631 NaN NaN NaN NaN NaN NaN NaN 78.703 1 79.365 78.865 79.865 0.66198 0 0 0 1.0082 1 36268 36268 0 0 1 31668 6793 20196 20259 35617 35617 -0.0592668386045716 SYFSGSHMF 9 Unmodified _SYFSGSHMF_ 0 0 0 ENST00000377503.6_1_5:159680387-159681146:-|nuORF;ENSG00000135083|ENST00000257536|CCNJL;nc|ENSG00000135083|Q8IV13|CCNJL ENST00000377503.6_1_5:159680387-159681146:-|nuORF ENST00000377503.6_1_5:159680387-159681146:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.3223266601562 2 531.72111 1061.42767 3.3394 0.0017756 1.4987 0.00079688 4.838 0.0025725 531.721190411199 54.582 0.041786 54.582 54.554 54.596 0 5 4 2 0 0 0 0.092818 1 25049 25049 15.847 3.3156 1 399390 31669 2847 20197 20260 35618 35618 -0.10059024768020208 SYGDILHVI 9 Unmodified _SYGDILHVI_ 0 0 0 ENST00000466140.5_1_X:69698992-69715274:+|nuORF;nc|ENSG00000082458|Q92796-3|DLG3;nc|ENSG00000082458|Q92796-2|DLG3;ENSG00000082458|ENST00000374360|DLG3 ENST00000466140.5_1_X:69698992-69715274:+|nuORF ENST00000466140.5_1_X:69698992-69715274:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.7419738769531 2 508.7742 1015.53385 NaN NaN NaN NaN NaN NaN NaN 71.488 1 72.191 71.691 72.691 0.70386 0 0 0 0.69911 1 34335 34335 12.532 1.7076 1 31670 929 20198 20261 35619 35619 0.02670054068948957 SYGDILHVI 9 Unmodified _SYGDILHVI_ 0 0 0 ENST00000466140.5_1_X:69698992-69715274:+|nuORF;nc|ENSG00000082458|Q92796-3|DLG3;nc|ENSG00000082458|Q92796-2|DLG3;ENSG00000082458|ENST00000374360|DLG3 ENST00000466140.5_1_X:69698992-69715274:+|nuORF ENST00000466140.5_1_X:69698992-69715274:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.7763977050781 2 508.7742 1015.53385 3.0453 0.0015493 -0.15737 -8.0064E-05 2.8879 0.0014693 508.7740260350752 71.947 0.18399 72.204 72.115 72.299 0.25786 23 16 2 0 0 0 0.11001 1 33056 33056 30.225 12.09 1 967590 31671 929 20198 20261 35620 35620 0.02670054068948957 SYGDILHVI 9 Unmodified _SYGDILHVI_ 0 0 0 ENST00000466140.5_1_X:69698992-69715274:+|nuORF;nc|ENSG00000082458|Q92796-3|DLG3;nc|ENSG00000082458|Q92796-2|DLG3;ENSG00000082458|ENST00000374360|DLG3 ENST00000466140.5_1_X:69698992-69715274:+|nuORF ENST00000466140.5_1_X:69698992-69715274:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 508.7742 1015.53385 2.5024 0.0012731 -0.13141 -6.6858E-05 2.371 0.0012063 508.77437336855724 72.334 0.16859 72.334 72.288 72.456 0 0.073074 -0.00035726 NaN 30.225 31 18 2 NaN NaN NaN NaN 0 NaN NaN 0 1268700 31672 929 20198 20261 0.02670054068948957 SYGDILHVI 9 Unmodified _SYGDILHVI_ 0 0 0 ENST00000466140.5_1_X:69698992-69715274:+|nuORF;nc|ENSG00000082458|Q92796-3|DLG3;nc|ENSG00000082458|Q92796-2|DLG3;ENSG00000082458|ENST00000374360|DLG3 ENST00000466140.5_1_X:69698992-69715274:+|nuORF ENST00000466140.5_1_X:69698992-69715274:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 508.7742 1015.53385 2.675 0.001361 0.87904 0.00044724 3.5541 0.0018082 508.77506021294823 71.582 0.23492 72.245 72.112 72.347 0.66324 -0.016263 0.00067093 NaN 30.225 25 14 2 NaN NaN NaN NaN 0 NaN NaN 0 655070 31673 929 20198 20261 0.02670054068948957 SYGKINILL 9 Unmodified _SYGKINILL_ 0 0 0 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.80999755859375 2 510.808042 1019.60153 3.4754 0.0017753 -0.69255 -0.00035376 2.7828 0.0014215 510.80772858524625 65.562 0.25694 65.81 65.699 65.956 0.24848 21 13 2 0 0 0 0.019364 1 30066 30066 69.105 17.475 1 806570 31674 1798 20199 20262 35621 35621 0.09251503999746546 SYGKINILL 9 Unmodified _SYGKINILL_ 0 0 0 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.80950927734375 2 510.808042 1019.60153 3.4415 0.001758 -0.50052 -0.00025567 2.941 0.0015023 510.80766670179196 64.936 0.23647 65.593 65.468 65.705 0.65672 29 16 2 0 0 0 0.02631 1 29788 29788 60.074 8.4441 1 864750 31675 1798 20199 20262 35622 35622 0.09251503999746546 SYGKINILL 9 Unmodified _SYGKINILL_ 0 0 0 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 510.808042 1019.60153 2.6021 0.0013292 -0.7949 -0.00040604 1.8072 0.00092313 510.80790266857855 65.862 0.22107 65.862 65.668 65.889 0 0.17374 -0.00021226 NaN 69.105 34 28 2 NaN NaN NaN NaN 0 NaN NaN 0 1692300 31676 1798 20199 20262 0.09251503999746546 SYGKINILL 9 Unmodified _SYGKINILL_ 0 0 0 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 ENSG00000112249|ENST00000369162|ASCC3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 510.808042 1019.60153 2.5736 0.0013146 0.27871 0.00014237 2.8524 0.001457 510.8079019815641 64.772 0.06282 65.488 65.464 65.527 0.71521 -0.2005 0.00088455 NaN 69.105 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 729710 31677 1798 20199 20262 0.09251503999746546 SYGKVTAEF 9 Unmodified _SYGKVTAEF_ 0 0 0 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.2524108886719 2 501.250557 1000.48656 3.0862 0.001547 0.55072 0.00027605 3.6369 0.001823 501.25074741152457 38.597 0.49839 38.597 38.491 38.989 0 42 22 3 0 0 0 0.0057865 2 17540 17497;17540 90.135 28.777 1 793160 31678 5936 20200 20263 35623;35624 35624 -0.013662252020594678 SYGKVTAEF 9 Unmodified _SYGKVTAEF_ 0 0 0 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.25250244140625 2 501.250557 1000.48656 3.0579 0.0015328 -0.054881 -2.7509E-05 3.0031 0.0015053 501.2512492708403 37.555 0.55436 38.351 38.004 38.558 0.79552 49 26 3 0 0 0 0.026853 1 17010 17010 59.368 19.411 1 723890 31679 5936 20200 20263 35625 35625 -0.013662252020594678 SYGKVTAEF 9 Unmodified _SYGKVTAEF_ 0 0 0 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.2533874511719 2 501.250557 1000.48656 3.0126 0.0015101 -0.012843 -6.4377E-06 2.9998 0.0015036 501.2506398252801 38.532 0.22255 38.796 38.656 38.879 0.26408 11 7 2 0 0 0 0.02631 1 17542 17542 60.074 11.728 1 665940 31680 5936 20200 20263 35626 35626 -0.013662252020594678 SYGKVTAEF 9 Unmodified _SYGKVTAEF_ 0 0 0 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 ENSG00000198796|ENST00000361673|ALPK2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 501.250557 1000.48656 3.0747 0.0015412 0.46673 0.00023395 3.5414 0.0017751 501.2506558321253 38.075 0.32291 38.709 38.499 38.822 0.63389 0.096147 7.4869E-05 NaN 90.135 16 12 2 NaN NaN NaN NaN 0 NaN NaN 0 362860 31681 5936 20200 20263 -0.013662252020594678 SYHLIRGHM 9 Unmodified _SYHLIRGHM_ 0 0 0 REV__ENSG00000198691|ENST00000370225|ABCA4 REV__ENSG00000198691|ENST00000370225|ABCA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.2848510742188 2 557.284743 1112.55493 NaN NaN NaN NaN NaN NaN NaN 63.032 1 63.282 62.782 63.782 0.24965 0 0 0 0.90611 1 28866 28866 2.0598 0 1 + 31682 14348 20201 20264 35627 35627 0.003157408968263553 SYHTCHLCDK 10 Unmodified _SYHTCHLCDK_ 0 0 0 nc|ENSG00000158163|Q8IYY4-2|DZIP1L;ENSG00000158163|ENST00000327532|DZIP1L nc|ENSG00000158163|Q8IYY4-2|DZIP1L nc|ENSG00000158163|Q8IYY4-2|DZIP1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 603.7559204101562 2 603.755158 1205.49576 NaN NaN NaN NaN NaN NaN NaN 44.123 1 44.123 43.623 44.623 0 0 0 0 0.99812 1 20142 20142 3.2813 0 1 31683 3978 20202 20265 35628 35628 -0.09876523179673313 SYIAHLRQL 9 Unmodified _SYIAHLRQL_ 0 0 0 ENSG00000178860|ENST00000325509|MSC ENSG00000178860|ENST00000325509|MSC ENSG00000178860|ENST00000325509|MSC MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.7867431640625 2 550.81419 1099.61383 3.5831 0.0019736 -0.65264 -0.00035949 2.9305 0.0016142 550.8139024421815 39.677 0.24974 39.944 39.821 40.071 0.26696 12 8 2 0 0 0 0.067591 1 18037 18037 25.399 0 1 141310 31684 5183 20203 20266 35629 35629 0.06800540462791105 SYIALPLTL 9 Unmodified _SYIALPLTL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2;ENST00000573635.1_1_16:16381587-16388153:+|nuORF;ENST00000566823.1_1_16:14982940-14989499:+|nuORF ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.7988586425781 2 495.797143 989.579734 4.0556 0.0020108 -0.2545 -0.00012618 3.8011 0.0018846 495.7969138048301 97.085 0.34073 97.363 97.174 97.515 0.27779 37 17 3 0 0 0 0.0019388 2 44572 44572;44620 104.8 47.328 1 1606800 31685 1384 20204 20267 35630;35631 35630 0.0845269925117691 SYIALPLTL 9 Unmodified _SYIALPLTL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2;ENST00000573635.1_1_16:16381587-16388153:+|nuORF;ENST00000566823.1_1_16:14982940-14989499:+|nuORF ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 990.591796875 1 990.58701 989.579734 4.3927 0.0043514 -1.1203 -0.0011097 3.2725 0.0032417 990.5857815393291 97.096 0.2496 97.374 97.214 97.464 0.27778 19 12 2 0 0 0 0.0023685 1 44619 44619 100.37 36.135 1 1882700 31686 1384 20204 20267 35632 35632 0.0845269925117691 SYIALPLTL 9 Unmodified _SYIALPLTL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2;ENST00000573635.1_1_16:16381587-16388153:+|nuORF;ENST00000566823.1_1_16:14982940-14989499:+|nuORF ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.7994079589844 2 495.797143 989.579734 3.4212 0.0016962 -1.2174 -0.00060358 2.2038 0.0010927 495.7970990594339 96.516 0.47827 97.118 96.816 97.294 0.6019 42 21 3 0 0 0 0.0014044 1 44368 44368 112.59 68.186 1 1233200 31687 1384 20204 20267 35633 35633 0.0845269925117691 SYIALPLTL 9 Unmodified _SYIALPLTL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2;ENST00000573635.1_1_16:16381587-16388153:+|nuORF;ENST00000566823.1_1_16:14982940-14989499:+|nuORF ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 990.590576171875 1 990.58701 989.579734 3.9143 0.0038774 0.13691 0.00013562 4.0512 0.004013 990.58806962362 96.529 0.25636 97.131 96.938 97.195 0.6019 20 11 2 0 0 0 0.0023685 1 44393 44393 100.37 36.135 1 1565600 31688 1384 20204 20267 35634 35634 0.0845269925117691 SYIDVLPEF 9 Unmodified _SYIDVLPEF_ 0 0 0 nc|ENSG00000105976|P08581-3|MET;ENSG00000105976|ENST00000397752|MET;nc|ENSG00000105976|P08581-2|MET nc|ENSG00000105976|P08581-3|MET nc|ENSG00000105976|P08581-3|MET MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.7760009765625 2 541.773865 1081.53318 3.8213 0.0020703 0.16477 8.9265E-05 3.9861 0.0021596 541.7736512098714 92.086 0.34631 92.338 92.146 92.492 0.25253 43 16 3 0 0 0 0.0023685 3 42335 42287;42335;42380 100.37 52.026 1 816820 31689 1545 20205 20268 35635;35636;35637 35636 -0.004327853707536633 SYIDVLPEF 9 Unmodified _SYIDVLPEF_ 0 0 0 nc|ENSG00000105976|P08581-3|MET;ENSG00000105976|ENST00000397752|MET;nc|ENSG00000105976|P08581-2|MET nc|ENSG00000105976|P08581-3|MET nc|ENSG00000105976|P08581-3|MET MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1082.544677734375 1 1082.54045 1081.53318 3.697 0.0040022 0.37654 0.00040762 4.0736 0.0044098 1082.5411742115923 92.12 0.36525 92.373 92.146 92.511 0.25253 28 17 2 0 0 0 0.023109 2 42362 42306;42362 64.236 30.134 1 817980 31690 1545 20205 20268 35638;35639 35639 -0.004327853707536633 SYIDVLPEF 9 Unmodified _SYIDVLPEF_ 0 0 0 nc|ENSG00000105976|P08581-3|MET;ENSG00000105976|ENST00000397752|MET;nc|ENSG00000105976|P08581-2|MET nc|ENSG00000105976|P08581-3|MET nc|ENSG00000105976|P08581-3|MET MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.7759399414062 2 541.773865 1081.53318 3.5845 0.001942 0.31307 0.00016961 3.8976 0.0021116 541.7739653933568 91.549 0.33803 92.211 92.024 92.362 0.66197 36 16 3 0 0 0 0.0044949 2 42117 42117;42180 92.822 41.967 1 859490 31691 1545 20205 20268 35640;35641 35640 -0.004327853707536633 SYIDVLPEF 9 Unmodified _SYIDVLPEF_ 0 0 0 nc|ENSG00000105976|P08581-3|MET;ENSG00000105976|ENST00000397752|MET;nc|ENSG00000105976|P08581-2|MET nc|ENSG00000105976|P08581-3|MET nc|ENSG00000105976|P08581-3|MET MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1082.5443115234375 1 1082.54045 1081.53318 3.5851 0.003881 -0.22081 -0.00023903 3.3643 0.003642 1082.540186058717 91.543 0.2776 92.205 92.084 92.362 0.66198 23 13 2 0 0 0 0.032303 2 42123 42123;42169 54.774 19.137 1 1279600 31692 1545 20205 20268 35642;35643 35642 -0.004327853707536633 SYIEHIFEI 9 Unmodified _SYIEHIFEI_ 0 0 0 ENSG00000162734|ENST00000360472|PEA15;nc|ENSG00000162734|Q15121-2|PEA15 ENSG00000162734|ENST00000360472|PEA15 ENSG00000162734|ENST00000360472|PEA15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.7948608398438 2 575.792589 1149.57063 3.0671 0.001766 -0.30307 -0.00017451 2.764 0.0015915 575.7924253030131 77.33 0.53793 77.33 77.138 77.676 0 136 39 5 0 0 0 1.2253E-06 4 37859 37859;37919;37975;38027 149.99 85.758 1 221600000 31693 4162 20206 20269 35644;35645;35646;35647 35644 0.0018230589485028759 SYIEHIFEI 9 Unmodified _SYIEHIFEI_ 0 0 0 ENSG00000162734|ENST00000360472|PEA15;nc|ENSG00000162734|Q15121-2|PEA15 ENSG00000162734|ENST00000360472|PEA15 ENSG00000162734|ENST00000360472|PEA15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1151.583984375 1 1150.5779 1149.57063 2.5989 0.0029903 0.23594 0.00027147 2.8349 0.0032618 1150.5778295028308 77.331 0.1741 77.331 77.245 77.419 0 23 13 2 0 0 0 0.052704 2 37911 37911;37970 46.021 22.873 1 4448200 31694 4162 20206 20269 35648;35649 35648 0.0018230589485028759 SYIEHIFEI 9 Unmodified _SYIEHIFEI_ 0 0 0 ENSG00000162734|ENST00000360472|PEA15;nc|ENSG00000162734|Q15121-2|PEA15 ENSG00000162734|ENST00000360472|PEA15 ENSG00000162734|ENST00000360472|PEA15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.7940673828125 2 575.792589 1149.57063 2.9191 0.0016808 -0.23364 -0.00013453 2.6855 0.0015463 575.7925204942296 76.227 0.54784 76.851 76.691 77.239 0.62398 124 37 5 0 0 0 1.2253E-06 4 36991 36890;36942;36991;37046 149.99 85.758 1 199890000 31695 4162 20206 20269 35650;35651;35652;35653 35652 0.0018230589485028759 SYIEHIFEI 9 Unmodified _SYIEHIFEI_ 0 0 0 ENSG00000162734|ENST00000360472|PEA15;nc|ENSG00000162734|Q15121-2|PEA15 ENSG00000162734|ENST00000360472|PEA15 ENSG00000162734|ENST00000360472|PEA15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1150.582275390625 1 1150.5779 1149.57063 2.9606 0.0034064 -0.4874 -0.00056079 2.4732 0.0028456 1150.577838076113 76.231 0.17613 76.855 76.793 76.969 0.62397 20 12 2 0 0 0 0.0014044 2 36973 36922;36973 112.59 78.191 1 2254900 31696 4162 20206 20269 35654;35655 35655 0.0018230589485028759 SYIEHIFEI 9 Unmodified _SYIEHIFEI_ 0 0 0 ENSG00000162734|ENST00000360472|PEA15;nc|ENSG00000162734|Q15121-2|PEA15 ENSG00000162734|ENST00000360472|PEA15 ENSG00000162734|ENST00000360472|PEA15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.794677734375 2 575.792589 1149.57063 3.1843 0.0018335 -0.0026638 -1.5338E-06 3.1816 0.0018319 575.7926803655737 77.155 0.59492 77.41 77.168 77.762 0.25533 177 46 5 0 0 0 8.6202E-14 5 35544 35454;35497;35544;35587;35633 164.52 100.28 1 95413000 31697 4162 20206 20269 35656;35657;35658;35659;35660 35658 0.0018230589485028759 SYIEHIFEI 9 Unmodified _SYIEHIFEI_ 0 0 0 ENSG00000162734|ENST00000360472|PEA15;nc|ENSG00000162734|Q15121-2|PEA15 ENSG00000162734|ENST00000360472|PEA15 ENSG00000162734|ENST00000360472|PEA15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1150.584716796875 1 1150.5779 1149.57063 3.0297 0.0034859 -0.93189 -0.0010722 2.0978 0.0024137 1150.577586677111 77.177 0.25104 77.432 77.299 77.55 0.25533 35 19 3 0 0 0 0.038142 2 35514 35514;35559 52.268 29.12 1 1225300 31698 4162 20206 20269 35661;35662 35661 0.0018230589485028759 SYIEHIFEI 9 Unmodified _SYIEHIFEI_ 0 0 0 ENSG00000162734|ENST00000360472|PEA15;nc|ENSG00000162734|Q15121-2|PEA15 ENSG00000162734|ENST00000360472|PEA15 ENSG00000162734|ENST00000360472|PEA15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.79443359375 2 575.792589 1149.57063 3.3997 0.0019575 -0.33688 -0.00019397 3.0628 0.0017636 575.7924380768756 76.678 0.48961 77.342 77.13 77.62 0.66387 149 40 5 0 0 0 1.2253E-06 4 35356 35252;35306;35356;35402 149.99 85.758 1 86519000 31699 4162 20206 20269 35663;35664;35665;35666 35665 0.0018230589485028759 SYIEHIFEI 9 Unmodified _SYIEHIFEI_ 0 0 0 ENSG00000162734|ENST00000360472|PEA15;nc|ENSG00000162734|Q15121-2|PEA15 ENSG00000162734|ENST00000360472|PEA15 ENSG00000162734|ENST00000360472|PEA15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1150.5828857421875 1 1150.5779 1149.57063 3.0426 0.0035008 -1.2065 -0.0013882 1.8361 0.0021126 1150.5773149405761 76.661 0.17241 77.325 77.231 77.403 0.66387 18 11 2 0 0 0 0.043585 1 35355 35355 49.933 26.785 1 1284900 31700 4162 20206 20269 35667 35667 0.0018230589485028759 SYIEHIFEI 9 Unmodified _SYIEHIFEI_ 0 0 0 ENSG00000162734|ENST00000360472|PEA15;nc|ENSG00000162734|Q15121-2|PEA15 ENSG00000162734|ENST00000360472|PEA15 ENSG00000162734|ENST00000360472|PEA15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.7935791015625 2 575.792589 1149.57063 NaN NaN NaN NaN NaN NaN NaN 76.964 1 77.627 77.127 78.127 0.66303 0 0 0 0.33854 1 35466 35466 25.399 12.868 1 31701 4162 20206 20269 35668 35668 0.0018230589485028759 SYIHYVFRL 9 Unmodified _SYIHYVFRL_ 0 0 0 nc|ENSG00000116641|Q96N67-4|DOCK7;nc|ENSG00000116641|Q96N67-3|DOCK7;nc|ENSG00000116641|Q96N67-5|DOCK7;nc|ENSG00000116641|Q96N67-2|DOCK7;nc|ENSG00000116641|Q96N67-6|DOCK7;ENSG00000116641|ENST00000635253|DOCK7;DOCK7|p.E1876Lfs*12|1|0.03|ENSG00000116641|chr1:62476133-62476134|-/GTGCAATTTTGTTTGAGAAAGA|frameshift_variant nc|ENSG00000116641|Q96N67-4|DOCK7 nc|ENSG00000116641|Q96N67-4|DOCK7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 599.3245239257812 2 599.324391 1196.63423 NaN NaN NaN NaN NaN NaN NaN 60.94 1 61.603 61.103 62.103 0.66261 0 0 0 0.21088 1 27902 27902 30.637 15.798 1 31702 2035 20207 20270 35669 35669 0.0437771112262908 SYILRPVAF 9 Unmodified _SYILRPVAF_ 0 0 0 ENSG00000156222|ENST00000394573|SLC28A1 ENSG00000156222|ENST00000394573|SLC28A1 ENSG00000156222|ENST00000394573|SLC28A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.3094482421875 2 533.30821 1064.60187 3.3434 0.0017831 -1.0118 -0.00053962 2.3315 0.0012434 533.3075069308152 65.671 0.25008 66.328 66.177 66.427 0.65672 20 13 2 0 0 0 0.053453 1 30115 30115 45.7 15.063 1 694380 31703 3900 20208 20271 35670 35670 0.07214923719607214 SYILRPVAF 9 Unmodified _SYILRPVAF_ 0 0 0 ENSG00000156222|ENST00000394573|SLC28A1 ENSG00000156222|ENST00000394573|SLC28A1 ENSG00000156222|ENST00000394573|SLC28A1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 533.30821 1064.60187 2.518 0.0013429 0.68822 0.00036703 3.2062 0.0017099 533.3082147048981 66.555 0.062828 66.555 66.532 66.595 0 0.16206 0.00072572 NaN 45.7 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 1925800 31704 3900 20208 20271 0.07214923719607214 SYILRPVAF 9 Unmodified _SYILRPVAF_ 0 0 0 ENSG00000156222|ENST00000394573|SLC28A1 ENSG00000156222|ENST00000394573|SLC28A1 ENSG00000156222|ENST00000394573|SLC28A1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 533.30821 1064.60187 2.4728 0.0013188 1.6922 0.00090249 4.1651 0.0022213 533.3081217154131 65.455 0.15373 66.164 66.105 66.259 0.70891 -0.22981 0.0017966 NaN 45.7 35 16 3 NaN NaN NaN NaN 0 NaN NaN 0 2108800 31705 3900 20208 20271 0.07214923719607214 SYILRPVAF 9 Unmodified _SYILRPVAF_ 0 0 0 ENSG00000156222|ENST00000394573|SLC28A1 ENSG00000156222|ENST00000394573|SLC28A1 ENSG00000156222|ENST00000394573|SLC28A1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 533.30821 1064.60187 3.2299 0.0017225 0.12361 6.5922E-05 3.3535 0.0017884 533.3082056665717 66.279 0.2461 66.527 66.404 66.65 0.24848 0.13361 0.0001235 NaN 45.7 20 13 2 NaN NaN NaN NaN 0 NaN NaN 0 667480 31706 3900 20208 20271 0.07214923719607214 SYIQRLVQI 9 Unmodified _SYIQRLVQI_ 0 0 0 SAMHD1|p.Y155Mfs*15|1|0.24|ENSG00000101347|chr20:36935075-36935075|A/-|frameshift_variant;nc|ENSG00000101347|Q9Y3Z3-3|SAMHD1;nc|ENSG00000101347|Q9Y3Z3-4|SAMHD1;ENSG00000101347|ENST00000646673|SAMHD1 SAMHD1|p.Y155Mfs*15|1|0.24|ENSG00000101347|chr20:36935075-36935075|A/-|frameshift_variant SAMHD1|p.Y155Mfs*15|1|0.24|ENSG00000101347|chr20:36935075-36935075|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.33203125 2 560.329673 1118.64479 3.4362 0.0019254 -0.074122 -4.1533E-05 3.3621 0.0018839 560.3295719992196 63.178 0.25866 63.836 63.676 63.935 0.65808 23 14 2 0 0 0 0.016529 1 28937 28937 72.968 36.841 1 908510 31707 1286 20209 20272 35671 35671 0.09021693777026485 SYIRPEDIVNF 11 Unmodified _SYIRPEDIVNF_ 0 0 0 ENST00000463015.1_1_1:202977868-202984294:+|nuORF;nc|ENSG00000163444|Q8IXX5-2|TMEM183A;nc|ENSG00000224831|Q1AE95|TMEM183BP;ENSG00000163444|ENST00000367242|TMEM183A ENST00000463015.1_1_1:202977868-202984294:+|nuORF ENST00000463015.1_1_1:202977868-202984294:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 676.8505859375 2 676.845884 1351.67722 4.0441 0.0027372 0.18249 0.00012352 4.2266 0.0028607 677.3470769230731 68.982 0.10865 69.237 69.176 69.284 0.25443 13 7 2 0 0 0 0.54298 2 31608 31573;31608 17.443 8.6735 1 341410 31708 4209 20210 20273 35672;35673 35673 0.015444363893493573 SYIRPEDIVNF 11 Unmodified _SYIRPEDIVNF_ 0 0 0 ENST00000463015.1_1_1:202977868-202984294:+|nuORF;nc|ENSG00000163444|Q8IXX5-2|TMEM183A;nc|ENSG00000224831|Q1AE95|TMEM183BP;ENSG00000163444|ENST00000367242|TMEM183A ENST00000463015.1_1_1:202977868-202984294:+|nuORF ENST00000463015.1_1_1:202977868-202984294:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 676.8480224609375 2 676.845884 1351.67722 NaN NaN NaN NaN NaN NaN NaN 68.522 1 69.182 68.682 69.682 0.65924 0 0 0 0.88712 1 31409 31409 17.443 6.6431 1 31709 4209 20210 20273 35674 35674 0.015444363893493573 SYIRPEDIVNF 11 Unmodified _SYIRPEDIVNF_ 0 0 0 ENST00000463015.1_1_1:202977868-202984294:+|nuORF;nc|ENSG00000163444|Q8IXX5-2|TMEM183A;nc|ENSG00000224831|Q1AE95|TMEM183BP;ENSG00000163444|ENST00000367242|TMEM183A ENST00000463015.1_1_1:202977868-202984294:+|nuORF ENST00000463015.1_1_1:202977868-202984294:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 676.845884 1351.67722 3.7901 0.0025653 -0.15456 -0.00010461 3.6356 0.0024607 676.8453818743941 68.454 0.13615 69.113 69.043 69.179 0.65924 -0.061758 -0.00021243 NaN 17.443 13 7 2 NaN NaN NaN NaN 0 NaN NaN 0 295990 31710 4209 20210 20273 0.015444363893493573 SYISRTNQL 9 Unmodified _SYISRTNQL_ 0 0 0 AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant;ENSG00000153207|ENST00000648844|AHCTF1;nc|ENSG00000153207|Q8WYP5-3|AHCTF1;nc|ENSG00000153207|Q8WYP5-2|AHCTF1 AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.287353515625 2 541.285463 1080.55637 3.5586 0.0019262 0.081631 4.4186E-05 3.6402 0.0019704 541.2856108330893 30.687 0.28776 30.687 30.533 30.821 0 57 25 3 0 0 0 0.0013832 2 13869 13825;13869 114.19 60.782 1 2973800 31711 18 20211 20274 35675;35676 35676 0.01931653466544958 SYISRTNQL 9 Unmodified _SYISRTNQL_ 0 0 0 AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant;ENSG00000153207|ENST00000648844|AHCTF1;nc|ENSG00000153207|Q8WYP5-3|AHCTF1;nc|ENSG00000153207|Q8WYP5-2|AHCTF1 AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.28759765625 2 541.285463 1080.55637 3.2087 0.0017368 0.35308 0.00019112 3.5617 0.0019279 541.2854762408274 29.7 0.20684 30.489 30.374 30.581 0.78921 47 21 3 0 0 0 0.0017155 2 13368 13368;13412 107.1 54.831 1 3537500 31712 18 20211 20274 35677;35678 35677 0.01931653466544958 SYISRTNQL 9 Unmodified _SYISRTNQL_ 0 0 0 AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant;ENSG00000153207|ENST00000648844|AHCTF1;nc|ENSG00000153207|Q8WYP5-3|AHCTF1;nc|ENSG00000153207|Q8WYP5-2|AHCTF1 AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.2874755859375 2 541.285463 1080.55637 3.6461 0.0019736 0.43791 0.00023704 4.084 0.0022106 541.2856823844556 30.491 0.37497 30.747 30.544 30.919 0.25614 53 20 3 0 0 0 0.002702 3 13880 13829;13880;13924 96.936 49.341 1 1302400 31713 18 20211 20274 35679;35680;35681 35680 0.01931653466544958 SYISRTNQL 9 Unmodified _SYISRTNQL_ 0 0 0 AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant;ENSG00000153207|ENST00000648844|AHCTF1;nc|ENSG00000153207|Q8WYP5-3|AHCTF1;nc|ENSG00000153207|Q8WYP5-2|AHCTF1 AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant AHCTF1|p.N2173Tfs*12|1|0.3|ENSG00000153207|chr1:246843829-246843829|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.2869873046875 2 541.285463 1080.55637 3.4144 0.0018481 0.41995 0.00022731 3.8343 0.0020755 541.285581768639 30.19 0.27901 30.808 30.673 30.952 0.61737 35 14 4 0 0 0 0.0043297 2 13835 13835;13885 93.166 49.308 1 1590600 31714 18 20211 20274 35682;35683 35682 0.01931653466544958 SYITKPEKW 9 Unmodified _SYITKPEKW_ 0 0 0 ENSG00000172469|ENST00000358812|MANEA ENSG00000172469|ENST00000358812|MANEA ENSG00000172469|ENST00000358812|MANEA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 576.31103515625 2 576.308406 1150.60226 NaN NaN NaN NaN NaN NaN NaN 32.948 1 32.948 32.448 33.448 0 0 0 0 0.73102 1 14923 14923 11.495 2.1116 1 31715 4873 20212 20275 35684 35684 0.03298298648792297 SYITKPEKW 9 Unmodified _SYITKPEKW_ 0 0 0 ENSG00000172469|ENST00000358812|MANEA ENSG00000172469|ENST00000358812|MANEA ENSG00000172469|ENST00000358812|MANEA MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 384.58294677734375 3 384.541363 1150.60226 2.4693 0.00094955 0.5146 0.00019789 2.9839 0.0011474 384.54148250417273 31.681 0.16923 32.469 32.351 32.52 0.78879 19 12 2 0 0 0 0.10173 1 14328 14328 12.873 6.6808 1 742290 31716 4873 20212 20275 35685 35685 0.03298298648792297 SYKERDKERKW 11 Unmodified _SYKERDKERKW_ 0 0 0 REV__ENSG00000126653|ENST00000247026|NSRP1 REV__ENSG00000126653|ENST00000247026|NSRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 763.2416381835938 2 762.899514 1523.78447 NaN NaN NaN NaN NaN NaN NaN 50.455 1 51.278 50.778 51.778 0.82285 0 0 0 1.0072 1 22982 22982 1.3295 0.9789 1 + 31717 11715 20213 20276 35686 35686 0.043534063235711074 SYKERDKERKW 11 Unmodified _SYKERDKERKW_ 0 0 0 REV__ENSG00000126653|ENST00000247026|NSRP1 REV__ENSG00000126653|ENST00000247026|NSRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 762.90478515625 2 762.899514 1523.78447 NaN NaN NaN NaN NaN NaN NaN 50.514 1 51.332 50.832 51.832 0.81804 0 0 0 1.0061 1 23008 23008 2.7352 1.5419 1 + 31718 11715 20213 20276 35687 35687 0.043534063235711074 SYKKVLNKI 9 Unmodified _SYKKVLNKI_ 0 0 0 REV__ENSG00000166598|ENST00000299767|HSP90B1 REV__ENSG00000166598|ENST00000299767|HSP90B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.8984069824219 3 364.89737 1091.67028 2.6433 0.00096454 0.87942 0.0003209 3.5227 0.0012854 364.8976318233868 15.084 0.70514 15.738 15.455 16.16 0.65356 232 79 4 0 0 0 0.38625 1 6878 6878 14.405 0.79051 1 788850 + 31719 13251 20214 20277 35688 35688 0.12811168299458586 SYKNGFLNL 9 Unmodified _SYKNGFLNL_ 0 0 0 ENSG00000130985|ENST00000335972|UBA1;nc|ENSG00000130985|P22314-2|UBA1 ENSG00000130985|ENST00000335972|UBA1 ENSG00000130985|ENST00000335972|UBA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.2815551757812 2 528.279649 1054.54475 2.8651 0.0015136 0.065397 3.4548E-05 2.9305 0.0015481 528.2796889119069 58.868 0.21378 59.627 59.498 59.712 0.75894 32 23 2 0 0 0 0.00143 1 27035 27035 110.67 50.285 1 3423900 31720 2632 20215 20278 35689 35689 0.0196545644323578 SYKNGFLNL 9 Unmodified _SYKNGFLNL_ 0 0 0 ENSG00000130985|ENST00000335972|UBA1;nc|ENSG00000130985|P22314-2|UBA1 ENSG00000130985|ENST00000335972|UBA1 ENSG00000130985|ENST00000335972|UBA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.2824096679688 2 528.279649 1054.54475 3.2864 0.0017361 -0.4743 -0.00025057 2.8121 0.0014856 528.279711807217 59.914 0.21544 60.173 60.063 60.279 0.2593 18 8 3 0 0 0 0.0081238 1 27428 27428 85.272 24.882 1 557820 31721 2632 20215 20278 35690 35690 0.0196545644323578 SYKNGFLNL 9 Unmodified _SYKNGFLNL_ 0 0 0 ENSG00000130985|ENST00000335972|UBA1;nc|ENSG00000130985|P22314-2|UBA1 ENSG00000130985|ENST00000335972|UBA1 ENSG00000130985|ENST00000335972|UBA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.2819213867188 2 528.279649 1054.54475 NaN NaN NaN NaN NaN NaN NaN 59.372 1 60.038 59.538 60.538 0.66503 0 0 0 0.10938 1 27180 27180 39.95 13.066 1 31722 2632 20215 20278 35691 35691 0.0196545644323578 SYKSSCTMD 9 Unmodified _SYKSSCTMD_ 0 0 0 ENSG00000147432|ENST00000289957|CHRNB3 ENSG00000147432|ENST00000289957|CHRNB3 ENSG00000147432|ENST00000289957|CHRNB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.1393737792969 3 341.13702 1020.38923 NaN NaN NaN NaN NaN NaN NaN 37.169 1 37.43 36.93 37.93 0.26083 0 0 0 0.90699 1 16930 16930 0.96228 0 1 31723 3565 20216 20279 35692 35692 -0.1201469846486134 SYLALAAFLLW 11 Unmodified _SYLALAAFLLW_ 0 0 0 REV__nc|ENSG00000074755|O43149-2|ZZEF1 REV__nc|ENSG00000074755|O43149-2|ZZEF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 634.360595703125 2 634.357899 1266.70125 3.9173 0.0024849 -0.99391 -0.00063049 2.9233 0.0018544 634.3576738329156 37.067 0.26623 37.697 37.573 37.839 0.62999 27 11 3 0 0 0 0.64057 1 17011 17011 13.906 0 1 344640 + 31724 10520 20217 20280 35693 35693 0.07856321613689943 SYLDKSMVL 9 Unmodified _SYLDKSMVL_ 0 0 0 ENSG00000145934|ENST00000518659|TENM2;nc|ENSG00000145934|Q9NT68-2|TENM2 ENSG00000145934|ENST00000518659|TENM2 ENSG00000145934|ENST00000518659|TENM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.2777709960938 2 528.275718 1054.53688 3.2592 0.0017217 -0.5475 -0.00028923 2.7117 0.0014325 528.7768392545759 57.042 0.22666 57.042 56.929 57.156 0 38 29 2 0 0 0 0.015631 1 26264 26264 74.2 16.478 1 1576000 31725 3497 20218 20281 35694 35694 0.011795611314482812 SYLDKSMVL 9 Unmodified _SYLDKSMVL_ 0 0 0 ENSG00000145934|ENST00000518659|TENM2;nc|ENSG00000145934|Q9NT68-2|TENM2 ENSG00000145934|ENST00000518659|TENM2 ENSG00000145934|ENST00000518659|TENM2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 528.275718 1054.53688 2.8967 0.0015303 0.28791 0.0001521 3.1847 0.0016824 528.2760062825461 56.142 0.25357 56.92 56.745 56.999 0.77786 -0.060871 0.00052607 NaN 74.2 33 20 3 NaN NaN NaN NaN 0 NaN NaN 0 1655200 31726 3497 20218 20281 0.011795611314482812 SYLDRTEQL 9 Unmodified _SYLDRTEQL_ 0 0 0 ENSG00000065268|ENST00000585809|WDR18 ENSG00000065268|ENST00000585809|WDR18 ENSG00000065268|ENST00000585809|WDR18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.7847900390625 2 562.782753 1123.55095 3.4273 0.0019288 0.86571 0.00048721 4.293 0.002416 562.7830311356746 40.926 0.22095 40.926 40.808 41.029 0 42 15 3 0 0 0 0.0013355 2 18607 18565;18607 117.76 66.345 1 2584300 31727 685 20219 20282 35695;35696 35696 -0.005880701158957891 SYLDRTEQL 9 Unmodified _SYLDRTEQL_ 0 0 0 ENSG00000065268|ENST00000585809|WDR18 ENSG00000065268|ENST00000585809|WDR18 ENSG00000065268|ENST00000585809|WDR18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.7840576171875 2 562.782753 1123.55095 3.3503 0.0018855 -0.4503 -0.00025342 2.9 0.0016321 562.7827686530136 40.004 0.2946 40.805 40.643 40.938 0.80014 34 18 2 0 0 0 0.0017155 2 18123 18077;18123 107.1 55.684 1 2021000 31728 685 20219 20282 35697;35698 35698 -0.005880701158957891 SYLDRTEQL 9 Unmodified _SYLDRTEQL_ 0 0 0 ENSG00000065268|ENST00000585809|WDR18 ENSG00000065268|ENST00000585809|WDR18 ENSG00000065268|ENST00000585809|WDR18 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.784423828125 2 562.782753 1123.55095 NaN NaN NaN NaN NaN NaN NaN 40.845 1 41.114 40.614 41.614 0.26904 0 0 0 0.0076802 1 18586 18586 87.258 39.51 1 31729 685 20219 20282 35699 35699 -0.005880701158957891 SYLDRTEQL 9 Unmodified _SYLDRTEQL_ 0 0 0 ENSG00000065268|ENST00000585809|WDR18 ENSG00000065268|ENST00000585809|WDR18 ENSG00000065268|ENST00000585809|WDR18 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.7841186523438 2 562.782753 1123.55095 NaN NaN NaN NaN NaN NaN NaN 40.419 1 41.06 40.56 41.56 0.64136 0 0 0 0.017165 1 18476 18476 76.825 38.851 1 31730 685 20219 20282 35700 35700 -0.005880701158957891 SYLDRVRSL 9 Unmodified _SYLDRVRSL_ 0 0 0 ENSG00000111057|ENST00000388835|KRT18;ENST00000510337.1_1_5:122971848-122972142:+|nuORF;ENST00000411618.1_1_9:30800375-30800732:-|nuORF;ENST00000402024.2_1_6:116779363-116779789:-|nuORF;ENST00000506277.1_1_5:36885388-36885895:+|nuORF;ENST00000549078.5_1_12:53342924-53344195:+|nuORF;ENST00000396959.2_1_3:12829511-12830132:-|nuORF;ENST00000577198.5_1_17:26603697-26633156:-|nuORF ENSG00000111057|ENST00000388835|KRT18 ENSG00000111057|ENST00000388835|KRT18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.8111572265625 2 554.809105 1107.60366 3.3557 0.0018618 0.4227 0.00023452 3.7784 0.0020963 554.8093827263849 46.585 0.15649 46.585 46.464 46.62 0 10 6 2 0 0 0 0.41574 1 21311 21311 13.906 5.1606 1 547120 31731 1741 20220 20283 35701 35701 0.0541593273756007 SYLDSIHFF 9 Unmodified _SYLDSIHFF_ 0 0 0 nc|ENSG00000005339|Q92793-2|CREBBP;ENSG00000005339|ENST00000262367|CREBBP nc|ENSG00000005339|Q92793-2|CREBBP nc|ENSG00000005339|Q92793-2|CREBBP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.3619384765625 2 564.771657 1127.52876 NaN NaN NaN NaN NaN NaN NaN 83.117 1 83.365 82.865 83.865 0.24722 0 0 0 0.42757 1 38261 38261 21.747 10.923 1 31732 327 20221 20284 35702 35702 -0.029902497936518557 SYLEKQVVTF 10 Unmodified _SYLEKQVVTF_ 0 0 0 ENSG00000018699|ENST00000317907|TTC27 ENSG00000018699|ENST00000317907|TTC27 ENSG00000018699|ENST00000317907|TTC27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 607.32763671875 2 607.326796 1212.63904 3.4137 0.0020733 -0.62411 -0.00037904 2.7896 0.0016942 607.326107069272 55.718 0.21024 55.718 55.642 55.853 0 27 17 2 0 0 0 0.010179 1 25675 25675 90.135 57.349 1 3392700 31733 447 20222 20285 35703 35703 0.04122550474698983 SYLEKQVVTF 10 Unmodified _SYLEKQVVTF_ 0 0 0 ENSG00000018699|ENST00000317907|TTC27 ENSG00000018699|ENST00000317907|TTC27 ENSG00000018699|ENST00000317907|TTC27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 607.3286743164062 2 607.326796 1212.63904 3.0044 0.0018246 -0.13006 -7.8988E-05 2.8743 0.0017456 607.3267864539143 54.694 0.29698 55.489 55.31 55.607 0.79552 38 18 3 0 0 0 3.5376E-05 2 24938 24938;24994 110.79 53.071 1 2329300 31734 447 20222 20285 35704;35705 35704 0.04122550474698983 SYLEKQVVTF 10 Unmodified _SYLEKQVVTF_ 0 0 0 ENSG00000018699|ENST00000317907|TTC27 ENSG00000018699|ENST00000317907|TTC27 ENSG00000018699|ENST00000317907|TTC27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 607.3292236328125 2 607.326796 1212.63904 3.4377 0.0020878 -0.063537 -3.8588E-05 3.3741 0.0020492 607.3268157962951 55.673 0.17584 55.938 55.865 56.041 0.26543 20 12 2 0 0 0 0.00049079 1 25448 25448 107.56 47.489 1 2071300 31735 447 20222 20285 35706 35706 0.04122550474698983 SYLEKQVVTF 10 Unmodified _SYLEKQVVTF_ 0 0 0 ENSG00000018699|ENST00000317907|TTC27 ENSG00000018699|ENST00000317907|TTC27 ENSG00000018699|ENST00000317907|TTC27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 607.329833984375 2 607.326796 1212.63904 3.655 0.0022198 -0.355 -0.0002156 3.3 0.0020042 607.3265460595287 54.899 0.29348 55.565 55.46 55.753 0.6665 31 12 3 0 0 0 2.7388E-05 2 25120 25120;25173 114.19 54.113 1 1587900 31736 447 20222 20285 35707;35708 35707 0.04122550474698983 SYLENVDHF 9 Unmodified _SYLENVDHF_ 0 0 0 ENST00000574951.5_1_17:4872053-4885503:-|nuORF;nc|ENSG00000108509|O94983-2|CAMTA2;nc|ENSG00000108509|O94983-3|CAMTA2;nc|ENSG00000108509|O94983-4|CAMTA2;ENSG00000108509|ENST00000348066|CAMTA2;nc|ENSG00000108509|O94983-5|CAMTA2;CAMTA2|p.V1054Pfs*43|1|0.05|ENSG00000108509|chr17:4969932-4969933|-/GGATGGC|frameshift_variant;nc|ENSG00000108509|O94983-6|CAMTA2;ENST00000576872.1_1_17:4872867-4875829:-|nuORF ENST00000574951.5_1_17:4872053-4885503:-|nuORF ENST00000574951.5_1_17:4872053-4885503:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.2583618164062 2 562.256371 1122.49819 NaN NaN NaN NaN NaN NaN NaN 53.763 1 53.763 53.263 54.263 0 0 0 0 0.13912 1 24647 24647 34.402 24.328 1 31737 1634 20223 20286 35709 35709 -0.058160281787195345 SYLENVDHF 9 Unmodified _SYLENVDHF_ 0 0 0 ENST00000574951.5_1_17:4872053-4885503:-|nuORF;nc|ENSG00000108509|O94983-2|CAMTA2;nc|ENSG00000108509|O94983-3|CAMTA2;nc|ENSG00000108509|O94983-4|CAMTA2;ENSG00000108509|ENST00000348066|CAMTA2;nc|ENSG00000108509|O94983-5|CAMTA2;CAMTA2|p.V1054Pfs*43|1|0.05|ENSG00000108509|chr17:4969932-4969933|-/GGATGGC|frameshift_variant;nc|ENSG00000108509|O94983-6|CAMTA2;ENST00000576872.1_1_17:4872867-4875829:-|nuORF ENST00000574951.5_1_17:4872053-4885503:-|nuORF ENST00000574951.5_1_17:4872053-4885503:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.259033203125 2 562.256371 1122.49819 NaN NaN NaN NaN NaN NaN NaN 52.621 1 53.431 52.931 53.931 0.81065 0 0 0 0.018888 1 23976 23976 74.929 49.53 1 31738 1634 20223 20286 35710 35710 -0.058160281787195345 SYLENVDHF 9 Unmodified _SYLENVDHF_ 0 0 0 ENST00000574951.5_1_17:4872053-4885503:-|nuORF;nc|ENSG00000108509|O94983-2|CAMTA2;nc|ENSG00000108509|O94983-3|CAMTA2;nc|ENSG00000108509|O94983-4|CAMTA2;ENSG00000108509|ENST00000348066|CAMTA2;nc|ENSG00000108509|O94983-5|CAMTA2;CAMTA2|p.V1054Pfs*43|1|0.05|ENSG00000108509|chr17:4969932-4969933|-/GGATGGC|frameshift_variant;nc|ENSG00000108509|O94983-6|CAMTA2;ENST00000576872.1_1_17:4872867-4875829:-|nuORF ENST00000574951.5_1_17:4872053-4885503:-|nuORF ENST00000574951.5_1_17:4872053-4885503:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.25830078125 2 562.256371 1122.49819 NaN NaN NaN NaN NaN NaN NaN 53.699 1 53.964 53.464 54.464 0.26462 0 0 0 0.37214 1 24559 24559 24.021 8.2524 1 31739 1634 20223 20286 35711 35711 -0.058160281787195345 SYLENVDHF 9 Unmodified _SYLENVDHF_ 0 0 0 ENST00000574951.5_1_17:4872053-4885503:-|nuORF;nc|ENSG00000108509|O94983-2|CAMTA2;nc|ENSG00000108509|O94983-3|CAMTA2;nc|ENSG00000108509|O94983-4|CAMTA2;ENSG00000108509|ENST00000348066|CAMTA2;nc|ENSG00000108509|O94983-5|CAMTA2;CAMTA2|p.V1054Pfs*43|1|0.05|ENSG00000108509|chr17:4969932-4969933|-/GGATGGC|frameshift_variant;nc|ENSG00000108509|O94983-6|CAMTA2;ENST00000576872.1_1_17:4872867-4875829:-|nuORF ENST00000574951.5_1_17:4872053-4885503:-|nuORF ENST00000574951.5_1_17:4872053-4885503:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.9192504882812 2 562.256371 1122.49819 3.379 0.0018999 -0.41927 -0.00023574 2.9597 0.0016641 562.7577247390153 53.098 0.13448 53.762 53.731 53.865 0.6644 7 5 2 0 0 0 0.018631 1 24310 24310 47.749 33.843 1 742880 31740 1634 20223 20286 35712 35712 -0.058160281787195345 SYLERHGLINF 11 Unmodified _SYLERHGLINF_ 0 0 0 ENST00000481879.1_1_1:23376923-23381674:+|nuORF;nc|ENSG00000004487|O60341|KDM1A;ENSG00000004487|ENST00000400181|KDM1A ENST00000481879.1_1_1:23376923-23381674:+|nuORF ENST00000481879.1_1_1:23376923-23381674:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 674.8567504882812 2 674.854044 1347.69353 3.3799 0.0022809 0.43808 0.00029564 3.818 0.0025766 674.8543394570275 54.111 0.21809 54.907 54.817 55.035 0.79552 22 12 2 0 0 0 0.11122 1 24693 24693 41.347 34.058 1 536280 31741 314 20224 20287 35713 35713 0.033595623461451396 SYLERHGLINF 11 Unmodified _SYLERHGLINF_ 0 0 0 ENST00000481879.1_1_1:23376923-23381674:+|nuORF;nc|ENSG00000004487|O60341|KDM1A;ENSG00000004487|ENST00000400181|KDM1A ENST00000481879.1_1_1:23376923-23381674:+|nuORF ENST00000481879.1_1_1:23376923-23381674:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.5743408203125 3 450.238455 1347.69353 2.4705 0.0011123 0.279 0.00012561 2.7495 0.0012379 450.2384849303467 54.156 0.33021 54.951 54.751 55.081 0.79552 50 18 4 0 0 0 0.58463 1 24710 24710 16.137 12.545 1 891660 31742 314 20224 20287 35714 35714 0.033595623461451396 SYLESFYHM 9 Unmodified _SYLESFYHM_ 0 0 0 ENSG00000164308|ENST00000437043|ERAP2;nc|ENSG00000164308|Q6P179-3|ERAP2;ENST00000513084.5_1_5:96237218-96245469:+|nuORF;ENST00000515387.1_1_5:96239260-96245469:+|nuORF ENSG00000164308|ENST00000437043|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.7587280273438 2 588.755149 1175.49575 3.7186 0.0021893 0.85528 0.00050355 4.5739 0.0026929 588.755771602596 66.298 0.27554 66.546 66.434 66.71 0.24848 35 15 3 0 0 0 0.021401 2 30365 30365;30421 85.357 52.571 1 1549700 31743 4305 20225 20288 35715;35716 35715 -0.08498199908035531 SYLESFYHM 9 Unmodified _SYLESFYHM_ 0 0 0 ENSG00000164308|ENST00000437043|ERAP2;nc|ENSG00000164308|Q6P179-3|ERAP2;ENST00000513084.5_1_5:96237218-96245469:+|nuORF;ENST00000515387.1_1_5:96239260-96245469:+|nuORF ENSG00000164308|ENST00000437043|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.7589721679688 2 588.755149 1175.49575 3.7296 0.0021958 0.79961 0.00047077 4.5292 0.0026666 588.7558751051317 65.713 0.23801 66.37 66.256 66.494 0.65672 31 12 3 0 0 0 0.021401 2 30106 30106;30159 85.357 58.727 1 1737800 31744 4305 20225 20288 35717;35718 35717 -0.08498199908035531 SYLESFYHM 9 Oxidation (M) _SYLESFYHM(Oxidation (M))_ SYLESFYHM(1) SYLESFYHM(60) 0 0 1 ENSG00000164308|ENST00000437043|ERAP2;nc|ENSG00000164308|Q6P179-3|ERAP2;ENST00000513084.5_1_5:96237218-96245469:+|nuORF;ENST00000515387.1_1_5:96239260-96245469:+|nuORF ENSG00000164308|ENST00000437043|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 596.7521362304688 2 596.752607 1191.49066 NaN NaN NaN NaN NaN NaN NaN 54.55 1 55.216 54.716 55.716 0.6665 0 0 0 0.027384 1 24957 24957 60.39 29.121 1 31745 4305 20225 20289 35719 35719 62 -0.09742503770667099 SYLHEPAVL 9 Unmodified _SYLHEPAVL_ 0 0 0 MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant;ENSG00000128833|ENST00000261839|MYO5C;ENST00000541028.5_1_15:52553308-52587917:-|nuORF;nc|ENSG00000128833|Q9NQX4-2|MYO5C;ENSG00000167306|ENST00000285039|MYO5B;nc|ENSG00000197535|Q9Y4I1-2|MYO5A;nc|ENSG00000197535|Q9Y4I1|MYO5A;ENSG00000197535|ENST00000399233|MYO5A MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant;ENSG00000167306|ENST00000285039|MYO5B;nc|ENSG00000197535|Q9Y4I1-2|MYO5A ENSG00000167306|ENST00000285039|MYO5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.77685546875 2 514.7742 1027.53385 3.3098 0.0017038 -0.10242 -5.2723E-05 3.2074 0.0016511 514.774442606501 50.582 0.20037 50.582 50.461 50.661 0 17 9 2 0 0 0 0.047285 1 23176 23176 48.346 19.859 1 1085900 31746 2529;4543;5823 20226 20290 35720 35720 0.021180540689329064 SYLHEPAVL 9 Unmodified _SYLHEPAVL_ 0 0 0 MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant;ENSG00000128833|ENST00000261839|MYO5C;ENST00000541028.5_1_15:52553308-52587917:-|nuORF;nc|ENSG00000128833|Q9NQX4-2|MYO5C;ENSG00000167306|ENST00000285039|MYO5B;nc|ENSG00000197535|Q9Y4I1-2|MYO5A;nc|ENSG00000197535|Q9Y4I1|MYO5A;ENSG00000197535|ENST00000399233|MYO5A MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant;ENSG00000167306|ENST00000285039|MYO5B;nc|ENSG00000197535|Q9Y4I1-2|MYO5A ENSG00000167306|ENST00000285039|MYO5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.7750854492188 2 514.7742 1027.53385 3.3694 0.0017345 -0.24356 -0.00012538 3.1258 0.0016091 514.7740074647965 49.628 0.27523 50.451 50.302 50.577 0.82285 28 16 2 0 0 0 0.047285 1 22610 22610 48.346 27.892 1 623950 31747 2529;4543;5823 20226 20290 35721 35721 0.021180540689329064 SYLHEPAVL 9 Unmodified _SYLHEPAVL_ 0 0 0 MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant;ENSG00000128833|ENST00000261839|MYO5C;ENST00000541028.5_1_15:52553308-52587917:-|nuORF;nc|ENSG00000128833|Q9NQX4-2|MYO5C;ENSG00000167306|ENST00000285039|MYO5B;nc|ENSG00000197535|Q9Y4I1-2|MYO5A;nc|ENSG00000197535|Q9Y4I1|MYO5A;ENSG00000197535|ENST00000399233|MYO5A MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant;ENSG00000167306|ENST00000285039|MYO5B;nc|ENSG00000197535|Q9Y4I1-2|MYO5A ENSG00000167306|ENST00000285039|MYO5B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 514.7742 1027.53385 3.3609 0.0017301 -0.66108 -0.00034031 2.6999 0.0013898 514.7740739553067 50.366 0.19944 50.627 50.497 50.697 0.26146 0.11456 -0.00016007 NaN 48.346 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 575020 31748 2529;4543;5823 20226 20290 0.021180540689329064 SYLHEPAVL 9 Unmodified _SYLHEPAVL_ 0 0 0 MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant;ENSG00000128833|ENST00000261839|MYO5C;ENST00000541028.5_1_15:52553308-52587917:-|nuORF;nc|ENSG00000128833|Q9NQX4-2|MYO5C;ENSG00000167306|ENST00000285039|MYO5B;nc|ENSG00000197535|Q9Y4I1-2|MYO5A;nc|ENSG00000197535|Q9Y4I1|MYO5A;ENSG00000197535|ENST00000399233|MYO5A MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant;ENSG00000167306|ENST00000285039|MYO5B;nc|ENSG00000197535|Q9Y4I1-2|MYO5A ENSG00000167306|ENST00000285039|MYO5B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 514.7742 1027.53385 3.4378 0.0017697 -0.79407 -0.00040877 2.6437 0.0013609 514.7739657730076 49.733 0.23877 50.39 50.222 50.461 0.65735 -0.12216 -0.00029699 NaN 48.346 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 715400 31749 2529;4543;5823 20226 20290 0.021180540689329064 SYLITSVEL 9 Unmodified _SYLITSVEL_ 0 0 0 ENSG00000068366|ENST00000672401|ACSL4;nc|ENSG00000068366|O60488|ACSL4 ENSG00000068366|ENST00000672401|ACSL4 ENSG00000068366|ENST00000672401|ACSL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.451416015625 2 512.78169 1023.54883 NaN NaN NaN NaN NaN NaN NaN 80.968 1 81.216 80.716 81.716 0.24803 0 0 0 0.56337 1 37279 37279 16.942 6.7589 1 31750 733 20227 20291 35722 35722 0.0379950114629537 SYLKQLPHF 9 Unmodified _SYLKQLPHF_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.2936401367188 2 566.811116 1131.60768 3.5112 0.0019902 0.61299 0.00034745 4.1242 0.0023377 566.8116318408647 51.543 0.42364 51.543 51.287 51.71 0 42 23 2 0 0 0 0.016783 1 23538 23538 56.177 40.929 1 421080 31751 3406 20228 20292 35723 35723 0.04714022231269155 SYLKQLPHF 9 Unmodified _SYLKQLPHF_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 378.2113342285156 3 378.209836 1131.60768 2.3009 0.00087023 -1.776 -0.00067169 0.52496 0.00019855 378.21004525508283 50.624 0.40961 51.442 51.217 51.627 0.81738 59 19 4 0 0 0 0.041436 2 23049 23049;23092 53.833 21.795 1 1277500 31752 3406 20228 20292 35724;35725 35724 0.04714022231269155 SYLKQLPHF 9 Unmodified _SYLKQLPHF_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.2947387695312 2 566.811116 1131.60768 3.3277 0.0018862 0.4137 0.00023449 3.7414 0.0021207 566.8114200294528 50.584 0.31858 51.401 51.239 51.557 0.81738 25 15 2 0 0 0 0.079031 1 23069 23069 37.974 25.733 1 517360 31753 3406 20228 20292 35726 35726 0.04714022231269155 SYLKQLPHF 9 Unmodified _SYLKQLPHF_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.5634460449219 3 378.209836 1131.60768 2.5512 0.00096491 -0.10681 -4.0397E-05 2.4444 0.00092451 378.20968980152355 50.838 0.24403 51.497 51.34 51.584 0.65956 19 14 2 0 0 0 0.084747 1 23237 23237 20.415 14.631 1 983420 31754 3406 20228 20292 35727 35727 0.04714022231269155 SYLKQLPHF 9 Unmodified _SYLKQLPHF_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 378.209836 1131.60768 2.8765 0.0010879 -2.7374 -0.0010353 0.1392 5.2645E-05 378.2099166177936 51.598 0.5627 51.598 51.23 51.792 0 0.085398 -0.0020811 NaN 53.833 80 31 4 NaN NaN NaN NaN 0 NaN NaN 0 861350 31755 3406 20228 20292 0.04714022231269155 SYLNSVQRL 9 Unmodified _SYLNSVQRL_ 0 0 0 nc|ENSG00000136243|O15504-2|NUP42;ENSG00000136243|ENST00000258742|NUP42 nc|ENSG00000136243|O15504-2|NUP42 nc|ENSG00000136243|O15504-2|NUP42 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.2974853515625 2 540.29583 1078.57711 3.1208 0.0016862 -1.6461 -0.00088936 1.4747 0.0007968 540.2950882735846 46.607 0.22581 46.607 46.479 46.704 0 16 8 3 0 0 0 0.010018 1 21352 21352 81.89 38.032 1 940630 31756 2937 20229 20293 35728 35728 0.04096243846242942 SYLNSVQRL 9 Unmodified _SYLNSVQRL_ 0 0 0 nc|ENSG00000136243|O15504-2|NUP42;ENSG00000136243|ENST00000258742|NUP42 nc|ENSG00000136243|O15504-2|NUP42 nc|ENSG00000136243|O15504-2|NUP42 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.2933959960938 2 540.29583 1078.57711 3.0607 0.0016537 -2.164 -0.0011692 0.89665 0.00048446 540.2942768828053 45.56 0.21744 46.386 46.256 46.474 0.82621 20 12 2 0 0 0 0.034495 1 20734 20734 53.833 13.883 1 682160 31757 2937 20229 20293 35729 35729 0.04096243846242942 SYLNSVQRL 9 Unmodified _SYLNSVQRL_ 0 0 0 nc|ENSG00000136243|O15504-2|NUP42;ENSG00000136243|ENST00000258742|NUP42 nc|ENSG00000136243|O15504-2|NUP42 nc|ENSG00000136243|O15504-2|NUP42 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.2970581054688 2 540.29583 1078.57711 3.377 0.0018246 -0.86106 -0.00046523 2.5159 0.0013593 540.2949096114746 46.542 0.16888 46.808 46.703 46.872 0.26561 7 5 2 0 0 0 0.024388 1 21282 21282 62.573 26.446 1 381760 31758 2937 20229 20293 35730 35730 0.04096243846242942 SYLNSVQRL 9 Unmodified _SYLNSVQRL_ 0 0 0 nc|ENSG00000136243|O15504-2|NUP42;ENSG00000136243|ENST00000258742|NUP42 nc|ENSG00000136243|O15504-2|NUP42 nc|ENSG00000136243|O15504-2|NUP42 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.2975463867188 2 540.29583 1078.57711 3.6744 0.0019853 -2.178 -0.0011768 1.4964 0.00080851 540.2949283335729 45.991 0.2356 46.643 46.534 46.77 0.65104 12 6 3 0 0 0 0.078225 1 21082 21082 38.176 16.429 1 336680 31759 2937 20229 20293 35731 35731 0.04096243846242942 SYLPFTEAF 9 Unmodified _SYLPFTEAF_ 0 0 0 nc|ENSG00000162430|Q9NZV5-2|SELENON;ENSG00000162430|ENST00000361547|SELENON nc|ENSG00000162430|Q9NZV5-2|SELENON nc|ENSG00000162430|Q9NZV5-2|SELENON MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.2617797851562 2 537.760758 1073.50696 3.4342 0.0018468 -0.88234 -0.00047449 2.5519 0.0013723 537.7611935775924 89.746 0.55881 89.997 89.607 90.166 0.25137 58 27 4 0 0 0 0.086747 2 41231 41199;41231 36.044 12.896 1 1274700 31760 4137 20230 20294 35732;35733 35733 -0.026850545422576033 SYLPFTEAF 9 Unmodified _SYLPFTEAF_ 0 0 0 nc|ENSG00000162430|Q9NZV5-2|SELENON;ENSG00000162430|ENST00000361547|SELENON nc|ENSG00000162430|Q9NZV5-2|SELENON nc|ENSG00000162430|Q9NZV5-2|SELENON MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.2613525390625 2 537.760758 1073.50696 3.444 0.001852 -0.10731 -5.7708E-05 3.3367 0.0017943 537.7610818833996 89.146 0.38062 89.824 89.582 89.962 0.67818 37 15 3 0 0 0 0.12301 1 41007 41007 28.487 16.847 1 1133500 31761 4137 20230 20294 35734 35734 -0.026850545422576033 SYLPLAHMF 9 Unmodified _SYLPLAHMF_ 0 0 0 ACSL5|p.V586Ffs*30|1|0.03|ENSG00000197142|chr10:112426275-112426276|-/TTCTTTTCTCACCATATATTTTCAACACCCATGGAACT|frameshift_variant;nc|ENSG00000197142|Q9ULC5-4|ACSL5;ENSG00000197142|ENST00000354655|ACSL5;nc|ENSG00000197142|Q9ULC5-3|ACSL5;nc|ENSG00000164398|Q9UKU0-2|ACSL6;nc|ENSG00000164398|Q9UKU0-3|ACSL6;nc|ENSG00000164398|Q9UKU0-8|ACSL6 ACSL5|p.V586Ffs*30|1|0.03|ENSG00000197142|chr10:112426275-112426276|-/TTCTTTTCTCACCATATATTTTCAACACCCATGGAACT|frameshift_variant ACSL5|p.V586Ffs*30|1|0.03|ENSG00000197142|chr10:112426275-112426276|-/TTCTTTTCTCACCATATATTTTCAACACCCATGGAACT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.7742919921875 2 539.773145 1077.53174 3.0555 0.0016493 0.13731 7.4118E-05 3.1929 0.0017234 539.7732110162974 77.944 0.33185 78.198 78.037 78.369 0.25335 40 17 3 0 0 0 0.069137 2 35878 35878;35930 40.449 31.101 1 899620 31762 8 20231 20295 35735;35736 35735 -0.003926979405150632 SYLPLAHMF 9 Unmodified _SYLPLAHMF_ 0 0 0 ACSL5|p.V586Ffs*30|1|0.03|ENSG00000197142|chr10:112426275-112426276|-/TTCTTTTCTCACCATATATTTTCAACACCCATGGAACT|frameshift_variant;nc|ENSG00000197142|Q9ULC5-4|ACSL5;ENSG00000197142|ENST00000354655|ACSL5;nc|ENSG00000197142|Q9ULC5-3|ACSL5;nc|ENSG00000164398|Q9UKU0-2|ACSL6;nc|ENSG00000164398|Q9UKU0-3|ACSL6;nc|ENSG00000164398|Q9UKU0-8|ACSL6 ACSL5|p.V586Ffs*30|1|0.03|ENSG00000197142|chr10:112426275-112426276|-/TTCTTTTCTCACCATATATTTTCAACACCCATGGAACT|frameshift_variant ACSL5|p.V586Ffs*30|1|0.03|ENSG00000197142|chr10:112426275-112426276|-/TTCTTTTCTCACCATATATTTTCAACACCCATGGAACT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.775390625 2 539.773145 1077.53174 3.1568 0.0017039 0.3384 0.00018266 3.4952 0.0018866 539.7732429734997 77.465 0.28604 78.128 78.013 78.299 0.66303 30 17 2 0 0 0 0.069137 2 35701 35701;35754 40.449 25.2 1 789830 31763 8 20231 20295 35737;35738 35737 -0.003926979405150632 SYLQAANAL 9 Unmodified _SYLQAANAL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-3|COL6A3;nc|ENSG00000163359|P12111-5|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 475.7519836425781 2 475.750724 949.486896 2.9777 0.0014167 0.32295 0.00015364 3.3007 0.0015703 475.750857890678 56.651 0.44259 56.651 56.341 56.784 0 59 34 3 0 0 0 0.02631 1 26053 26053 60.074 20.117 1 1920500 31764 4204 20232 20296 35739 35739 0.010131945177818125 SYLQAANAL 9 Unmodified _SYLQAANAL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-3|COL6A3;nc|ENSG00000163359|P12111-5|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 475.7516174316406 2 475.750724 949.486896 2.6584 0.0012647 -0.69035 -0.00032843 1.9681 0.0009363 475.75050726143695 55.807 0.32088 56.594 56.375 56.696 0.78711 44 25 2 0 0 0 0.0079462 2 25459 25459;25511 85.642 25.247 1 1647700 31765 4204 20232 20296 35740;35741 35740 0.010131945177818125 SYLQAANAL 9 Unmodified _SYLQAANAL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-3|COL6A3;nc|ENSG00000163359|P12111-5|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.7523498535156 2 475.750724 949.486896 3.1051 0.0014772 -1.0018 -0.00047663 2.1032 0.0010006 475.75059571342246 55.865 0.33686 56.533 56.345 56.682 0.66798 20 12 2 0 0 0 0.029308 1 25555 25555 56.177 27.095 1 687050 31766 4204 20232 20296 35742 35742 0.010131945177818125 SYLQAANAL 9 Unmodified _SYLQAANAL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-3|COL6A3;nc|ENSG00000163359|P12111-5|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 475.750724 949.486896 2.9727 0.0014143 -0.17016 -8.0954E-05 2.8025 0.0013333 475.7506828407073 56.585 0.20105 56.85 56.681 56.882 0.26543 0.19321 8.8924E-05 NaN 85.642 20 13 2 NaN NaN NaN NaN 0 NaN NaN 0 610520 31767 4204 20232 20296 0.010131945177818125 SYLRNRGRF 9 Unmodified _SYLRNRGRF_ 0 0 0 ENSG00000183943|ENST00000262848|PRKX ENSG00000183943|ENST00000262848|PRKX ENSG00000183943|ENST00000262848|PRKX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.82080078125 2 584.820338 1167.62612 NaN NaN NaN NaN NaN NaN NaN 26.74 1 27.519 27.019 28.019 0.7787 0 0 0 0.90699 1 12013 12013 1.8442 0 1 31768 5413 20233 20297 35743 35743 0.04901576925840345 SYLSSILRF 9 Unmodified _SYLSSILRF_ 0 0 0 ENSG00000175115|ENST00000320580|PACS1;nc|ENSG00000175115|Q6VY07-2|PACS1;ENST00000529795.1_1_11:66001292-66002875:+|nuORF ENSG00000175115|ENST00000320580|PACS1 ENSG00000175115|ENST00000320580|PACS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.3048706054688 2 543.303124 1084.5917 3.5757 0.0019427 -0.1869 -0.00010154 3.3888 0.0018412 543.3029903780359 82.48 0.33314 83.14 82.941 83.274 0.66019 38 20 2 0 0 0 0.053453 2 38002 37952;38002 45.7 12.914 1 600120 31769 5015 20234 20298 35744;35745 35745 0.05278315994382865 SYLSSILRF 9 Unmodified _SYLSSILRF_ 0 0 0 ENSG00000175115|ENST00000320580|PACS1;nc|ENSG00000175115|Q6VY07-2|PACS1;ENST00000529795.1_1_11:66001292-66002875:+|nuORF ENSG00000175115|ENST00000320580|PACS1 ENSG00000175115|ENST00000320580|PACS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 543.303124 1084.5917 3.3278 0.001808 0.21947 0.00011924 3.5473 0.0019273 543.3032129153578 83.039 0.28319 83.286 83.134 83.417 0.24722 0.073099 0.00029656 NaN 45.7 30 14 3 NaN NaN NaN NaN 0 NaN NaN 0 1185300 31770 5015 20234 20298 0.05278315994382865 SYLTFLLL 8 Unmodified _SYLTFLLL_ 0 0 0 ENST00000508189.1_1_4:162300107-162300218:+|nuORF ENST00000508189.1_1_4:162300107-162300218:+|nuORF ENST00000508189.1_1_4:162300107-162300218:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.28802490234375 2 485.286411 968.55827 NaN NaN NaN NaN NaN NaN NaN 57.35 1 57.35 56.85 57.85 0 0 0 0 0.99035 1 26431 26431 6.3541 0 1 31771 8528 20235 20299 35746 35746 0.07273314222470617 SYLTSASSL 9 Unmodified _SYLTSASSL_ 0 0 0 nc|ENSG00000104517|O95071-2|UBR5;ENSG00000104517|ENST00000520539|UBR5 nc|ENSG00000104517|O95071-2|UBR5 nc|ENSG00000104517|O95071-2|UBR5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.736083984375 2 464.73474 927.454927 NaN NaN NaN NaN NaN NaN NaN 52.638 1 53.449 52.949 53.949 0.81065 0 0 0 0.59707 1 23984 23984 15.847 3.3156 1 31772 1442 20236 20300 35747 35747 -0.011702179559961223 SYLTSASSL 9 Unmodified _SYLTSASSL_ 0 0 0 nc|ENSG00000104517|O95071-2|UBR5;ENSG00000104517|ENST00000520539|UBR5 nc|ENSG00000104517|O95071-2|UBR5 nc|ENSG00000104517|O95071-2|UBR5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.73590087890625 2 464.73474 927.454927 NaN NaN NaN NaN NaN NaN NaN 53.628 1 53.893 53.393 54.393 0.26462 0 0 0 0.59707 1 24527 24527 15.847 7.2539 1 31773 1442 20236 20300 35748 35748 -0.011702179559961223 SYLVKFVEYFG 11 Unmodified _SYLVKFVEYFG_ 0 0 0 REV__ENST00000547908.1_1_12:98989476-98991822:+|nuORF REV__ENST00000547908.1_1_12:98989476-98991822:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.236083984375 3 451.23594 1350.68599 2.3523 0.0010614 -0.93926 -0.00042383 1.413 0.0006376 451.235584038419 52.173 0.23861 52.984 52.846 53.084 0.81066 34 15 3 0 0 0 0.85532 1 23763 23763 4.4062 1.9714 1 451440 + 31774 10527 20237 20301 35749 35749 0.02467410025838035 SYMDRQPNL 9 Unmodified _SYMDRQPNL_ 0 0 0 nc|ENSG00000204267|Q03519-2|TAP2;ENSG00000204267|ENST00000374897|TAP2 nc|ENSG00000204267|Q03519-2|TAP2 nc|ENSG00000204267|Q03519-2|TAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.265380859375 2 562.263673 1122.51279 NaN NaN NaN NaN NaN NaN NaN 35.324 1 35.58 35.08 36.08 0.25524 0 0 0 0.6155 1 16095 16095 15.248 8.5253 1 31775 5996 20238 20302 35750 35750 -0.04356279302214716 SYMFVDENTF 10 Unmodified _SYMFVDENTF_ 0 0 0 ENST00000522309.1_1_X:134185341-134186138:-|nuORF;ENSG00000212747|ENST00000391440|RTL8B;ENSG00000203950|ENST00000370775|RTL8A;ENST00000520964.1_1_X:134185341-134186186:-|nuORF;ENST00000464369.1_1_X:134166413-134167211:+|nuORF;ENSG00000134590|ENST00000257013|RTL8C;ENST00000495563.5_1_X:134166413-134167211:+|nuORF ENST00000522309.1_1_X:134185341-134186138:-|nuORF ENST00000522309.1_1_X:134185341-134186138:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 627.26416015625 2 626.763171 1251.51179 3.2201 0.0020182 -0.66384 -0.00041607 2.5563 0.0016022 626.7628759079795 76.792 0.32463 76.792 76.619 76.943 0 55 23 3 0 0 0 0.66557 2 37665 37606;37665 14.838 10.509 1 3677800 31776 5982 20239 20303 35751;35752 35752 -0.10390538461774668 SYMFVDENTF 10 Unmodified _SYMFVDENTF_ 0 0 0 ENST00000522309.1_1_X:134185341-134186138:-|nuORF;ENSG00000212747|ENST00000391440|RTL8B;ENSG00000203950|ENST00000370775|RTL8A;ENST00000520964.1_1_X:134185341-134186186:-|nuORF;ENST00000464369.1_1_X:134166413-134167211:+|nuORF;ENSG00000134590|ENST00000257013|RTL8C;ENST00000495563.5_1_X:134166413-134167211:+|nuORF ENST00000522309.1_1_X:134185341-134186138:-|nuORF ENST00000522309.1_1_X:134185341-134186138:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 626.7667846679688 2 626.763171 1251.51179 2.9203 0.0018303 0.30528 0.00019134 3.2256 0.0020217 626.7632300350099 75.834 0.35429 76.497 76.355 76.709 0.66349 63 28 3 0 0 0 0.55057 2 36707 36707;36754 19.257 14.728 1 3693500 31777 5982 20239 20303 35753;35754 35753 -0.10390538461774668 SYMFVDENTF 10 Unmodified _SYMFVDENTF_ 0 0 0 ENST00000522309.1_1_X:134185341-134186138:-|nuORF;ENSG00000212747|ENST00000391440|RTL8B;ENSG00000203950|ENST00000370775|RTL8A;ENST00000520964.1_1_X:134185341-134186186:-|nuORF;ENST00000464369.1_1_X:134166413-134167211:+|nuORF;ENSG00000134590|ENST00000257013|RTL8C;ENST00000495563.5_1_X:134166413-134167211:+|nuORF ENST00000522309.1_1_X:134185341-134186138:-|nuORF ENST00000522309.1_1_X:134185341-134186138:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 627.2642822265625 2 626.763171 1251.51179 3.4988 0.0021929 0.15964 0.00010005 3.6584 0.0022929 626.7633647028989 76.462 0.27766 76.717 76.565 76.842 0.25533 36 21 2 0 0 0 0.55057 1 35171 35171 19.257 10.281 1 1099900 31778 5982 20239 20303 35755 35755 -0.10390538461774668 SYMFVDENTF 10 Unmodified _SYMFVDENTF_ 0 0 0 ENST00000522309.1_1_X:134185341-134186138:-|nuORF;ENSG00000212747|ENST00000391440|RTL8B;ENSG00000203950|ENST00000370775|RTL8A;ENST00000520964.1_1_X:134185341-134186186:-|nuORF;ENST00000464369.1_1_X:134166413-134167211:+|nuORF;ENSG00000134590|ENST00000257013|RTL8C;ENST00000495563.5_1_X:134166413-134167211:+|nuORF ENST00000522309.1_1_X:134185341-134186138:-|nuORF ENST00000522309.1_1_X:134185341-134186138:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 626.7665405273438 2 626.763171 1251.51179 3.4125 0.0021388 0.20475 0.00012833 3.6173 0.0022672 626.7633503050757 76.018 0.35389 76.682 76.499 76.853 0.66387 56 27 3 0 0 0 0.55057 2 34991 34991;35035 19.257 13.525 1 1133800 31779 5982 20239 20303 35756;35757 35756 -0.10390538461774668 SYMGHFDLL 9 Oxidation (M) _SYM(Oxidation (M))GHFDLL_ SYM(1)GHFDLL SYM(78)GHFDLL 0 0 1 ENSG00000169976|ENST00000367569|SF3B5 ENSG00000169976|ENST00000367569|SF3B5 ENSG00000169976|ENST00000367569|SF3B5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.751220703125 2 549.749867 1097.48518 3.3772 0.0018566 -0.66722 -0.00036681 2.71 0.0014898 549.7494559650214 60.598 0.21939 60.598 60.526 60.745 0 54 28 3 0 0 0 0.012748 1 28201 28201 78.149 47.925 1 15034000 31780 4724 20240 20304 35758 35758 66 -0.059661825624516496 SYMGHFDLL 9 Oxidation (M) _SYM(Oxidation (M))GHFDLL_ SYM(1)GHFDLL SYM(110)GHFDLL 0 0 1 ENSG00000169976|ENST00000367569|SF3B5 ENSG00000169976|ENST00000367569|SF3B5 ENSG00000169976|ENST00000367569|SF3B5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.7517700195312 2 549.749867 1097.48518 2.9026 0.0015957 -0.047729 -2.6239E-05 2.8548 0.0015694 549.7499838774679 59.518 0.37574 60.267 60.044 60.42 0.74927 82 26 4 0 0 0 0.0014044 3 27334 27289;27334;27378 112.59 76.549 1 6913800 31781 4724 20240 20304 35759;35760;35761 35760 66 -0.059661825624516496 SYMGHFDLL 9 Oxidation (M) _SYM(Oxidation (M))GHFDLL_ SYM(1)GHFDLL SYM(110)GHFDLL 0 0 1 ENSG00000169976|ENST00000367569|SF3B5 ENSG00000169976|ENST00000367569|SF3B5 ENSG00000169976|ENST00000367569|SF3B5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.75146484375 2 549.749867 1097.48518 3.5842 0.0019704 -0.31254 -0.00017182 3.2717 0.0017986 549.7496918789277 60.537 0.36358 60.792 60.602 60.966 0.25578 50 35 2 0 0 0 0.0016284 2 27755 27709;27755 108 71.953 1 7534500 31782 4724 20240 20304 35762;35763 35763 66 -0.059661825624516496 SYMGHFDLL 9 Oxidation (M) _SYM(Oxidation (M))GHFDLL_ SYM(1)GHFDLL SYM(89)GHFDLL 0 0 1 ENSG00000169976|ENST00000367569|SF3B5 ENSG00000169976|ENST00000367569|SF3B5 ENSG00000169976|ENST00000367569|SF3B5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.7514038085938 2 549.749867 1097.48518 3.5456 0.0019492 -0.13508 -7.4258E-05 3.4105 0.0018749 549.7499367321187 59.948 0.37218 60.613 60.344 60.716 0.66503 54 27 4 0 0 0 0.0063783 2 27404 27404;27455 88.904 58.679 1 5763600 31783 4724 20240 20304 35764;35765 35764 66 -0.059661825624516496 SYMGHFDLL 9 Unmodified _SYMGHFDLL_ 0 0 0 ENSG00000169976|ENST00000367569|SF3B5 ENSG00000169976|ENST00000367569|SF3B5 ENSG00000169976|ENST00000367569|SF3B5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.75390625 2 541.75241 1081.49027 2.7535 0.0014917 -0.13171 -7.1353E-05 2.6218 0.0014203 541.7524654717254 70.161 0.30881 70.161 69.986 70.295 0 113 36 4 0 0 0 0.00033079 3 33998 33935;33998;34058 133.7 87.681 1 42320000 31784 4724 20240 20305 35766;35767;35768 35767 -0.047218786998428186 SYMGHFDLL 9 Unmodified _SYMGHFDLL_ 0 0 0 ENSG00000169976|ENST00000367569|SF3B5 ENSG00000169976|ENST00000367569|SF3B5 ENSG00000169976|ENST00000367569|SF3B5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.754150390625 2 541.75241 1081.49027 2.5285 0.0013698 0.12935 7.0077E-05 2.6578 0.0014399 541.7526741513268 69.134 0.32272 69.836 69.649 69.971 0.70218 116 43 4 0 0 0 0.0016284 2 33084 33009;33084 108 61.976 1 31364000 31785 4724 20240 20305 35769;35770 35770 -0.047218786998428186 SYMGHFDLL 9 Unmodified _SYMGHFDLL_ 0 0 0 ENSG00000169976|ENST00000367569|SF3B5 ENSG00000169976|ENST00000367569|SF3B5 ENSG00000169976|ENST00000367569|SF3B5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.7546997070312 2 541.75241 1081.49027 3.2917 0.0017833 -0.10236 -5.5455E-05 3.1893 0.0017278 541.7525089485288 70.036 0.4045 70.293 70.11 70.515 0.25642 99 27 5 0 0 0 0.00081333 3 32074 32025;32074;32123 128.37 94.263 1 15827000 31786 4724 20240 20305 35771;35772;35773 35772 -0.047218786998428186 SYMGHFDLL 9 Unmodified _SYMGHFDLL_ 0 0 0 ENSG00000169976|ENST00000367569|SF3B5 ENSG00000169976|ENST00000367569|SF3B5 ENSG00000169976|ENST00000367569|SF3B5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.75439453125 2 541.75241 1081.49027 3.1012 0.0016801 -0.07424 -4.0219E-05 3.0269 0.0016398 541.7524972681082 69.507 0.39548 70.168 69.984 70.38 0.66072 96 29 4 0 0 0 0.00033079 4 31907 31807;31859;31907;31958 133.7 101.59 1 15334000 31787 4724 20240 20305 35774;35775;35776;35777 35776 -0.047218786998428186 SYMLVNENRF 10 Oxidation (M) _SYM(Oxidation (M))LVNENRF_ SYM(1)LVNENRF SYM(69)LVNENRF 0 0 1 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.803955078125 2 644.803162 1287.59177 3.5578 0.0022941 -0.98969 -0.00063816 2.5682 0.001656 644.8024732686537 46.387 0.18306 46.387 46.281 46.464 0 17 9 3 0 0 0 0.020838 2 21243 21225;21243 69.338 48.924 1 1132200 31788 5318 20241 20306 35778;35779 35779 69 -0.040520520679592664 SYMLVNENRF 10 Oxidation (M) _SYM(Oxidation (M))LVNENRF_ SYM(1)LVNENRF SYM(42)LVNENRF 0 0 1 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.80517578125 2 644.803162 1287.59177 3.5383 0.0022815 0.34606 0.00022314 3.8844 0.0025047 644.8034657940425 46.674 0.15288 46.674 46.585 46.738 0 9 5 3 0 0 0 0.17471 1 21379 21379 42.312 27.064 1 524380 31789 5318 20241 20306 35780 35780 69 -0.040520520679592664 SYMLVNENRF 10 Oxidation (M) _SYM(Oxidation (M))LVNENRF_ 0 0 1 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 644.803162 1287.59177 3.5742 0.0023046 0.3511 0.00022639 3.9253 0.002531 644.8034306249132 45.623 0.2052 46.45 46.332 46.538 0.82621 0.038927 0.00036355 NaN 69.338 17 11 2 NaN NaN NaN NaN 0 NaN NaN 0 507790 31790 5318 20241 20306 69 -0.040520520679592664 SYMLVNENRF 10 Oxidation (M) _SYM(Oxidation (M))LVNENRF_ 0 0 1 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 644.803162 1287.59177 3.8684 0.0024944 0.35276 0.00022746 4.2212 0.0027218 644.8034612685925 46.313 0.20558 46.578 46.469 46.675 0.26561 -0.060668 0.00056388 NaN 42.312 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 303480 31791 5318 20241 20306 69 -0.040520520679592664 SYMLVNENRF 10 Unmodified _SYMLVNENRF_ 0 0 0 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 636.8078002929688 2 636.805705 1271.59686 4.18 0.0026619 -0.35167 -0.00022394 3.8284 0.0024379 636.8054558299071 53.958 0.34319 53.958 53.763 54.106 0 102 24 6 0 0 0 4.4188E-20 3 24698 24698;24744;24806 171.09 134.96 1 9074000 31792 5318 20241 20307 35781;35782;35783 35781 -0.028077482053504355 SYMLVNENRF 10 Unmodified _SYMLVNENRF_ 0 0 0 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 636.807373046875 2 636.805705 1271.59686 3.3417 0.002128 -0.39071 -0.00024881 2.951 0.0018792 636.8053273485793 52.857 0.32292 53.661 53.494 53.816 0.8035 84 22 5 0 0 0 3.0782E-29 3 24098 24044;24098;24142 189.73 145.96 1 8818600 31793 5318 20241 20307 35784;35785;35786 35785 -0.028077482053504355 SYMLVNENRF 10 Unmodified _SYMLVNENRF_ 0 0 0 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 636.8087768554688 2 636.805705 1271.59686 3.7385 0.0023807 0.67673 0.00043095 4.4153 0.0028117 636.8057234373015 53.815 0.30998 54.08 53.907 54.217 0.26462 33 11 4 0 0 0 5.6128E-09 1 24592 24592 145.13 97.381 1 2704200 31794 5318 20241 20307 35787 35787 -0.028077482053504355 SYMLVNENRF 10 Unmodified _SYMLVNENRF_ 0 0 0 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 636.8072509765625 2 636.805705 1271.59686 3.7516 0.002389 -0.3139 -0.0001999 3.4377 0.0021891 636.8055865608917 53.303 0.31847 53.968 53.813 54.132 0.6644 35 12 4 0 0 0 1.4479E-13 2 24353 24353;24408 157.8 117.85 1 2624400 31795 5318 20241 20307 35788;35789 35788 -0.028077482053504355 SYMPTVSHL 9 Unmodified _SYMPTVSHL_ 0 0 0 nc|ENSG00000168000|Q96G97-3|BSCL2;nc|ENSG00000168000|Q96G97|BSCL2;ENSG00000168000|ENST00000360796|BSCL2 nc|ENSG00000168000|Q96G97-3|BSCL2 nc|ENSG00000168000|Q96G97-3|BSCL2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.3206787109375 2 517.75241 1033.49027 3.225 0.0016697 0.59897 0.00031012 3.8239 0.0019799 517.7528664675045 49.415 0.20307 49.415 49.297 49.5 0 14 8 2 0 0 0 0.076365 1 22665 22665 21.747 11.673 1 444270 31796 4591 20242 20308 35790 35790 -0.025138786998240903 SYNDIFDLF 9 Unmodified _SYNDIFDLF_ 0 0 0 nc|ENSG00000241119|O60656-2|UGT1A9;ENSG00000241119|ENST00000354728|UGT1A9 nc|ENSG00000241119|O60656-2|UGT1A9 nc|ENSG00000241119|O60656-2|UGT1A9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.26220703125 2 567.261122 1132.50769 3.0418 0.0017255 -0.87889 -0.00049856 2.1629 0.001227 567.2606303577401 100.09 0.098618 100.09 100.03 100.13 0 13 6 3 0 0 0 0.010018 1 55182 55182 81.89 57.87 1 7632100 31797 6222 20243 20309 35791 35791 -0.05326259893217866 SYNDIFDLF 9 Unmodified _SYNDIFDLF_ 0 0 0 nc|ENSG00000241119|O60656-2|UGT1A9;ENSG00000241119|ENST00000354728|UGT1A9 nc|ENSG00000241119|O60656-2|UGT1A9 nc|ENSG00000241119|O60656-2|UGT1A9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.2622680664062 2 567.261122 1132.50769 2.2116 0.0012546 -0.27456 -0.00015575 1.937 0.0010988 567.2609672485494 100.05 0.062363 100.11 100.07 100.13 0.062241 10 5 2 0 0 0 0.0020408 1 54213 54213 103.75 57.727 1 4732100 31798 6222 20243 20309 35792 35792 -0.05326259893217866 SYNDIFDLF 9 Unmodified _SYNDIFDLF_ 0 0 0 nc|ENSG00000241119|O60656-2|UGT1A9;ENSG00000241119|ENST00000354728|UGT1A9 nc|ENSG00000241119|O60656-2|UGT1A9 nc|ENSG00000241119|O60656-2|UGT1A9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.2630615234375 2 567.261122 1132.50769 4.3837 0.0024867 -1.3615 -0.00077233 3.0222 0.0017144 567.2605622333472 99.968 0.083153 100.28 100.22 100.3 0.30835 6 3 2 0 0 0 0.020151 1 46233 46233 68.081 47.627 1 3194000 31799 6222 20243 20309 35793 35793 -0.05326259893217866 SYNDIFDLF 9 Unmodified _SYNDIFDLF_ 0 0 0 nc|ENSG00000241119|O60656-2|UGT1A9;ENSG00000241119|ENST00000354728|UGT1A9 nc|ENSG00000241119|O60656-2|UGT1A9 nc|ENSG00000241119|O60656-2|UGT1A9 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 567.261122 1132.50769 3.8015 0.0021565 0.23291 0.00013212 4.0344 0.0022886 567.7625491440735 99.865 0.077942 100.46 100.42 100.5 0.59717 0.22753 0.0009691 NaN 103.75 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 2077900 31800 6222 20243 20309 -0.05326259893217866 SYNEHWNYL 9 Unmodified _SYNEHWNYL_ 0 0 0 ENSG00000111321|ENST00000228918|LTBR;nc|ENSG00000111321|P36941-2|LTBR;ENST00000535739.5_1_12:6493425-6494510:+|nuORF ENSG00000111321|ENST00000228918|LTBR ENSG00000111321|ENST00000228918|LTBR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.2692260742188 2 613.26727 1224.51999 3.89 0.0023856 -0.40937 -0.00025106 3.4807 0.0021346 613.2671272894023 53.256 0.24905 53.256 53.112 53.361 0 26 15 2 0 0 0 0.0027913 1 24400 24400 96.367 62.264 1 1633300 31801 1755 20244 20310 35794 35794 -0.08329223430155253 SYNEHWNYL 9 Unmodified _SYNEHWNYL_ 0 0 0 ENSG00000111321|ENST00000228918|LTBR;nc|ENSG00000111321|P36941-2|LTBR;ENST00000535739.5_1_12:6493425-6494510:+|nuORF ENSG00000111321|ENST00000228918|LTBR ENSG00000111321|ENST00000228918|LTBR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.2686157226562 2 613.26727 1224.51999 2.8735 0.0017622 -0.014902 -9.1388E-06 2.8586 0.0017531 613.2670471512146 52.049 0.28614 52.859 52.711 52.997 0.81066 38 18 3 0 0 0 0.0063542 1 23699 23699 88.954 63.555 1 1258700 31802 1755 20244 20310 35795 35795 -0.08329223430155253 SYNEHWNYL 9 Unmodified _SYNEHWNYL_ 0 0 0 ENSG00000111321|ENST00000228918|LTBR;nc|ENSG00000111321|P36941-2|LTBR;ENST00000535739.5_1_12:6493425-6494510:+|nuORF ENSG00000111321|ENST00000228918|LTBR ENSG00000111321|ENST00000228918|LTBR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.2695922851562 2 613.26727 1224.51999 3.677 0.002255 0.090169 5.5298E-05 3.7672 0.0023103 613.2673527970525 53.249 0.25311 53.512 53.421 53.674 0.26345 29 17 2 0 0 0 0.078225 1 24401 24401 38.176 18.919 1 634350 31803 1755 20244 20310 35796 35796 -0.08329223430155253 SYNEHWNYL 9 Unmodified _SYNEHWNYL_ 0 0 0 ENSG00000111321|ENST00000228918|LTBR;nc|ENSG00000111321|P36941-2|LTBR;ENST00000535739.5_1_12:6493425-6494510:+|nuORF ENSG00000111321|ENST00000228918|LTBR ENSG00000111321|ENST00000228918|LTBR MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 613.26727 1224.51999 3.3524 0.0020559 0.78921 0.000484 4.1416 0.0025399 613.2674832756035 52.767 0.17078 53.429 53.368 53.539 0.66198 -0.041688 0.000421 NaN 38.176 16 11 2 NaN NaN NaN NaN 0 NaN NaN 0 1347400 31804 1755 20244 20310 -0.08329223430155253 SYNNFFRMF 9 Oxidation (M) _SYNNFFRM(Oxidation (M))F_ SYNNFFRM(1)F SYNNFFRM(48)F 0 0 1 ENSG00000221914|ENST00000380737|PPP2R2A;nc|ENSG00000221914|P63151-2|PPP2R2A;ENST00000517754.1_1_8:26221160-26227926:+|nuORF;ENST00000490777.2_10:133754324-133769464:+|nuORF;nc|ENSG00000156475|Q00005-6|PPP2R2B;ENSG00000156475|ENST00000394411|PPP2R2B;nc|ENSG00000156475|Q00005-2|PPP2R2B;nc|ENSG00000156475|Q00005-3|PPP2R2B;ENSG00000175470|ENST00000455566|PPP2R2D;nc|ENSG00000156475|Q00005-4|PPP2R2B;nc|ENSG00000156475|Q00005-5|PPP2R2B;nc|ENSG00000156475|Q00005-7|PPP2R2B ENSG00000221914|ENST00000380737|PPP2R2A;nc|ENSG00000156475|Q00005-4|PPP2R2B ENSG00000221914|ENST00000380737|PPP2R2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.2769775390625 2 621.274041 1240.53353 2.7599 0.0017147 0.42568 0.00026447 3.1856 0.0019791 621.2740083215151 65.862 0.16064 66.571 66.492 66.652 0.70891 22 18 2 0 0 0 0.048676 1 31154 31154 47.749 36.231 1 1376700 31805 6151;9702 20245 20311 35797 35797 82 -0.07711688922563553 SYNNFFRMF 9 Oxidation (M) _SYNNFFRM(Oxidation (M))F_ SYNNFFRM(1)F SYNNFFRM(60)F 0 0 1 ENSG00000221914|ENST00000380737|PPP2R2A;nc|ENSG00000221914|P63151-2|PPP2R2A;ENST00000517754.1_1_8:26221160-26227926:+|nuORF;ENST00000490777.2_10:133754324-133769464:+|nuORF;nc|ENSG00000156475|Q00005-6|PPP2R2B;ENSG00000156475|ENST00000394411|PPP2R2B;nc|ENSG00000156475|Q00005-2|PPP2R2B;nc|ENSG00000156475|Q00005-3|PPP2R2B;ENSG00000175470|ENST00000455566|PPP2R2D;nc|ENSG00000156475|Q00005-4|PPP2R2B;nc|ENSG00000156475|Q00005-5|PPP2R2B;nc|ENSG00000156475|Q00005-7|PPP2R2B ENSG00000221914|ENST00000380737|PPP2R2A;nc|ENSG00000156475|Q00005-4|PPP2R2B ENSG00000221914|ENST00000380737|PPP2R2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 621.273681640625 2 621.274041 1240.53353 3.8547 0.0023948 -0.03531 -2.1937E-05 3.8194 0.0023729 621.274049268286 67.176 0.27296 67.426 67.288 67.561 0.25011 27 16 2 0 0 0 0.02631 2 30767 30756;30767 60.074 44.659 1 566730 31806 6151;9702 20245 20311 35798;35799 35799 82 -0.07711688922563553 SYNNFFRMF 9 Oxidation (M) _SYNNFFRM(Oxidation (M))F_ SYNNFFRM(1)F SYNNFFRM(48)F 0 0 1 ENSG00000221914|ENST00000380737|PPP2R2A;nc|ENSG00000221914|P63151-2|PPP2R2A;ENST00000517754.1_1_8:26221160-26227926:+|nuORF;ENST00000490777.2_10:133754324-133769464:+|nuORF;nc|ENSG00000156475|Q00005-6|PPP2R2B;ENSG00000156475|ENST00000394411|PPP2R2B;nc|ENSG00000156475|Q00005-2|PPP2R2B;nc|ENSG00000156475|Q00005-3|PPP2R2B;ENSG00000175470|ENST00000455566|PPP2R2D;nc|ENSG00000156475|Q00005-4|PPP2R2B;nc|ENSG00000156475|Q00005-5|PPP2R2B;nc|ENSG00000156475|Q00005-7|PPP2R2B ENSG00000221914|ENST00000380737|PPP2R2A;nc|ENSG00000156475|Q00005-4|PPP2R2B ENSG00000221914|ENST00000380737|PPP2R2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 621.2752685546875 2 621.274041 1240.53353 3.7251 0.0023143 -0.73611 -0.00045733 2.989 0.001857 621.273626865437 66.532 0.27727 67.188 67.04 67.317 0.65672 30 15 3 0 0 0 0.048676 1 30487 30487 47.749 32.91 1 574680 31807 6151;9702 20245 20311 35800 35800 82 -0.07711688922563553 SYNNFFRMF 9 Unmodified _SYNNFFRMF_ 0 0 0 ENSG00000221914|ENST00000380737|PPP2R2A;nc|ENSG00000221914|P63151-2|PPP2R2A;ENST00000517754.1_1_8:26221160-26227926:+|nuORF;ENST00000490777.2_10:133754324-133769464:+|nuORF;nc|ENSG00000156475|Q00005-6|PPP2R2B;ENSG00000156475|ENST00000394411|PPP2R2B;nc|ENSG00000156475|Q00005-2|PPP2R2B;nc|ENSG00000156475|Q00005-3|PPP2R2B;ENSG00000175470|ENST00000455566|PPP2R2D;nc|ENSG00000156475|Q00005-4|PPP2R2B;nc|ENSG00000156475|Q00005-5|PPP2R2B;nc|ENSG00000156475|Q00005-7|PPP2R2B ENSG00000221914|ENST00000380737|PPP2R2A;nc|ENSG00000156475|Q00005-4|PPP2R2B ENSG00000221914|ENST00000380737|PPP2R2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.27880859375 2 613.276583 1224.53861 3.3335 0.0020444 0.024841 1.5235E-05 3.3584 0.0020596 613.2769944027245 80.114 0.29391 80.363 80.218 80.512 0.24947 44 18 3 0 0 0 0.0063542 2 36876 36876;36931 88.954 67.417 1 711550 31808 6151;9702 20245 20312 35801;35802 35801 -0.06467385059931985 SYNNFFRMF 9 Unmodified _SYNNFFRMF_ 0 0 0 ENSG00000221914|ENST00000380737|PPP2R2A;nc|ENSG00000221914|P63151-2|PPP2R2A;ENST00000517754.1_1_8:26221160-26227926:+|nuORF;ENST00000490777.2_10:133754324-133769464:+|nuORF;nc|ENSG00000156475|Q00005-6|PPP2R2B;ENSG00000156475|ENST00000394411|PPP2R2B;nc|ENSG00000156475|Q00005-2|PPP2R2B;nc|ENSG00000156475|Q00005-3|PPP2R2B;ENSG00000175470|ENST00000455566|PPP2R2D;nc|ENSG00000156475|Q00005-4|PPP2R2B;nc|ENSG00000156475|Q00005-5|PPP2R2B;nc|ENSG00000156475|Q00005-7|PPP2R2B ENSG00000221914|ENST00000380737|PPP2R2A;nc|ENSG00000156475|Q00005-4|PPP2R2B ENSG00000221914|ENST00000380737|PPP2R2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 613.2794799804688 2 613.276583 1224.53861 3.5783 0.0021945 -0.2686 -0.00016473 3.3097 0.0020297 613.2765691688835 79.578 0.30899 80.238 80.047 80.356 0.66083 42 21 3 0 0 0 0.019364 2 36621 36621;36682 69.105 61.816 1 709620 31809 6151;9702 20245 20312 35803;35804 35803 -0.06467385059931985 SYNPITHQL 9 Unmodified _SYNPITHQL_ 0 0 0 nc|ENSG00000163913|Q9HBG6-11|IFT122;ENST00000506507.5_1_3:129168750-129233481:+|nuORF;nc|ENSG00000163913|Q9HBG6-3|IFT122;nc|ENSG00000163913|Q9HBG6-6|IFT122;ENSG00000163913|ENST00000348417|IFT122;nc|ENSG00000163913|Q9HBG6-5|IFT122 nc|ENSG00000163913|Q9HBG6-11|IFT122 nc|ENSG00000163913|Q9HBG6-11|IFT122 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.7763671875 2 536.774731 1071.53491 3.0752 0.0016507 -0.1711 -9.1843E-05 2.9041 0.0015589 536.774572886002 40.751 0.1933 40.751 40.669 40.862 0 16 9 2 0 0 0 0.0017071 1 18508 18508 107.19 63.329 1 1175200 31810 4261 20246 20313 35805 35805 0.0020026843783398363 SYNPITHQL 9 Unmodified _SYNPITHQL_ 0 0 0 nc|ENSG00000163913|Q9HBG6-11|IFT122;ENST00000506507.5_1_3:129168750-129233481:+|nuORF;nc|ENSG00000163913|Q9HBG6-3|IFT122;nc|ENSG00000163913|Q9HBG6-6|IFT122;ENSG00000163913|ENST00000348417|IFT122;nc|ENSG00000163913|Q9HBG6-5|IFT122 nc|ENSG00000163913|Q9HBG6-11|IFT122 nc|ENSG00000163913|Q9HBG6-11|IFT122 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 536.774731 1071.53491 3.0848 0.0016558 -0.23463 -0.00012594 2.8502 0.0015299 536.7744979880871 39.844 0.23515 40.644 40.493 40.729 0.80014 -0.053041 -3.094E-05 NaN 107.19 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 632620 31811 4261 20246 20313 0.0020026843783398363 SYNPLWLRI 9 Unmodified _SYNPLWLRI_ 0 0 0 ENSG00000066279|ENST00000367409|ASPM;nc|ENSG00000066279|Q8IZT6-2|ASPM ENSG00000066279|ENST00000367409|ASPM ENSG00000066279|ENST00000367409|ASPM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.8280639648438 2 581.324391 1160.63423 2.7156 0.0015786 0.40128 0.00023328 3.1169 0.0018119 581.3239450513828 76.778 0.24286 77.402 77.239 77.482 0.62397 28 16 2 0 0 0 0.027384 3 37211 37161;37211;37236 58.679 38.264 1 1142700 31812 703 20247 20314 35806;35807;35808 35807 0.06033711122586283 SYNPLWLRI 9 Unmodified _SYNPLWLRI_ 0 0 0 ENSG00000066279|ENST00000367409|ASPM;nc|ENSG00000066279|Q8IZT6-2|ASPM ENSG00000066279|ENST00000367409|ASPM ENSG00000066279|ENST00000367409|ASPM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.3265380859375 2 581.324391 1160.63423 3.2787 0.001906 0.45067 0.00026198 3.7294 0.002168 581.3245077360053 77.659 0.19908 77.912 77.809 78.008 0.25334 19 12 2 0 0 0 0.043585 1 35779 35779 49.933 29.518 1 763060 31813 703 20247 20314 35809 35809 0.06033711122586283 SYNPLWLRI 9 Unmodified _SYNPLWLRI_ 0 0 0 ENSG00000066279|ENST00000367409|ASPM;nc|ENSG00000066279|Q8IZT6-2|ASPM ENSG00000066279|ENST00000367409|ASPM ENSG00000066279|ENST00000367409|ASPM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.3242797851562 2 581.324391 1160.63423 3.3787 0.0019641 -0.11619 -6.7542E-05 3.2625 0.0018966 581.3244193009256 77.18 0.18379 77.843 77.737 77.921 0.66303 22 14 2 0 0 0 0.027384 1 35548 35548 58.679 43.43 1 505760 31814 703 20247 20314 35810 35810 0.06033711122586283 SYNPLWLRI 9 Unmodified _SYNPLWLRI_ 0 0 0 ENSG00000066279|ENST00000367409|ASPM;nc|ENSG00000066279|Q8IZT6-2|ASPM ENSG00000066279|ENST00000367409|ASPM ENSG00000066279|ENST00000367409|ASPM MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 581.324391 1160.63423 3.0404 0.0017675 -0.21757 -0.00012648 2.8229 0.001641 581.3239247548673 77.965 0.18031 77.965 77.811 77.991 0 0.058242 -0.00021747 NaN 58.679 18 15 2 NaN NaN NaN NaN 0 NaN NaN 0 1413500 31815 703 20247 20314 0.06033711122586283 SYNTLKEF 8 Unmodified _SYNTLKEF_ 0 0 0 REV__ENSG00000111537|ENST00000229135|IFNG REV__ENSG00000111537|ENST00000229135|IFNG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.25286865234375 2 501.250557 1000.48656 3.0579 0.0015328 -0.054881 -2.7509E-05 3.0031 0.0015053 501.2512492708403 37.555 0.55436 38.351 38.004 38.558 0.79552 49 26 3 0 0 0 0.56084 1 17060 17060 16.942 2.104 1 723890 + 31816 11238 20248 20315 35811 35811 -0.013662252020480992 SYNTLKEF 8 Unmodified _SYNTLKEF_ 0 0 0 REV__ENSG00000111537|ENST00000229135|IFNG REV__ENSG00000111537|ENST00000229135|IFNG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.25225830078125 2 501.250557 1000.48656 3.0747 0.0015412 0.46673 0.00023395 3.5414 0.0017751 501.2506558321253 38.075 0.32291 38.709 38.499 38.822 0.63389 16 12 2 0 0 0 0.31901 1 17404 17404 34.102 3.4659 1 362860 + 31817 11238 20248 20315 35812 35812 -0.013662252020480992 SYPDLLPTF 9 Unmodified _SYPDLLPTF_ 0 0 0 nc|ENSG00000143486|P41214-2|EIF2D;ENSG00000143486|ENST00000271764|EIF2D nc|ENSG00000143486|P41214-2|EIF2D nc|ENSG00000143486|P41214-2|EIF2D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.7708740234375 2 526.768583 1051.52261 3.7257 0.0019626 -0.020187 -1.0634E-05 3.7055 0.001952 526.7687198894857 90.637 0.34406 90.889 90.737 91.081 0.25163 24 15 2 0 0 0 0.028312 1 41679 41679 57.471 19.32 1 592370 31818 3372 20249 20316 35813 35813 -0.0010876802521124773 SYPDLLPTF 9 Unmodified _SYPDLLPTF_ 0 0 0 nc|ENSG00000143486|P41214-2|EIF2D;ENSG00000143486|ENST00000271764|EIF2D nc|ENSG00000143486|P41214-2|EIF2D nc|ENSG00000143486|P41214-2|EIF2D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.7703857421875 2 526.768583 1051.52261 3.4626 0.001824 0.37756 0.00019889 3.8401 0.0020228 526.7688364649507 90.074 0.34937 90.747 90.608 90.957 0.67271 19 15 2 0 0 0 0.22507 1 41502 41502 21.747 8.2388 1 363320 31819 3372 20249 20316 35814 35814 -0.0010876802521124773 SYPDNFLHI 9 Unmodified _SYPDNFLHI_ 0 0 0 nc|ENSG00000057663|Q9H1Y0-2|ATG5;ENSG00000057663|ENST00000369076|ATG5 nc|ENSG00000057663|Q9H1Y0-2|ATG5 nc|ENSG00000057663|Q9H1Y0-2|ATG5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.272216796875 2 553.269281 1104.52401 2.6355 0.0014581 0.47401 0.00026225 3.1095 0.0017204 553.2697994201501 66.98 0.21975 67.685 67.551 67.771 0.7047 40 28 2 0 0 0 0.19413 1 31773 31773 32.305 9.1571 1 1951100 31820 624 20250 20317 35815 35815 -0.02407133936435457 SYPDNFLHI 9 Unmodified _SYPDNFLHI_ 0 0 0 nc|ENSG00000057663|Q9H1Y0-2|ATG5;ENSG00000057663|ENST00000369076|ATG5 nc|ENSG00000057663|Q9H1Y0-2|ATG5 nc|ENSG00000057663|Q9H1Y0-2|ATG5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.2703247070312 2 553.269281 1104.52401 3.8048 0.0021051 -0.54873 -0.0003036 3.2561 0.0018015 553.2691133544008 67.863 0.29086 68.116 67.954 68.245 0.25227 38 17 3 0 0 0 0.057945 2 31122 31071;31122 57.471 34.323 1 1146800 31821 624 20250 20317 35816;35817 35817 -0.02407133936435457 SYPDNFLHI 9 Unmodified _SYPDNFLHI_ 0 0 0 nc|ENSG00000057663|Q9H1Y0-2|ATG5;ENSG00000057663|ENST00000369076|ATG5 nc|ENSG00000057663|Q9H1Y0-2|ATG5 nc|ENSG00000057663|Q9H1Y0-2|ATG5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.2710571289062 2 553.269281 1104.52401 3.503 0.0019381 -0.73142 -0.00040467 2.7716 0.0015335 553.2690903725612 67.269 0.3567 67.927 67.779 68.135 0.65777 41 20 3 0 0 0 0.19413 2 30875 30875;30924 32.305 15.363 1 982560 31822 624 20250 20317 35818;35819 35818 -0.02407133936435457 SYPDNFLHI 9 Unmodified _SYPDNFLHI_ 0 0 0 nc|ENSG00000057663|Q9H1Y0-2|ATG5;ENSG00000057663|ENST00000369076|ATG5 nc|ENSG00000057663|Q9H1Y0-2|ATG5 nc|ENSG00000057663|Q9H1Y0-2|ATG5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 553.269281 1104.52401 2.9597 0.0016375 -0.65491 -0.00036234 2.3048 0.0012752 553.2694636135723 68.052 0.15477 68.052 67.924 68.079 0 0.10711 -0.00038313 NaN 57.471 27 19 2 NaN NaN NaN NaN 0 NaN NaN 0 2325000 31823 624 20250 20317 -0.02407133936435457 SYPRRFSTL 9 Unmodified _SYPRRFSTL_ 0 0 0 ENST00000403825.7_1_7:112090541-112090697:+|nuORF ENST00000403825.7_1_7:112090541-112090697:+|nuORF ENST00000403825.7_1_7:112090541-112090697:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.2061462402344 3 376.204974 1125.59309 3.0035 0.0011299 -0.35868 -0.00013494 2.6448 0.00099498 376.204982774918 30.522 0.27459 30.522 30.366 30.641 0 47 21 3 0 0 0 0.026853 2 13797 13754;13797 48.073 23.082 1 2003600 31824 7623 20251 20318 35820;35821 35821 0.03531950083151969 SYPRRFSTL 9 Unmodified _SYPRRFSTL_ 0 0 0 ENST00000403825.7_1_7:112090541-112090697:+|nuORF ENST00000403825.7_1_7:112090541-112090697:+|nuORF ENST00000403825.7_1_7:112090541-112090697:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.8060302734375 2 563.803823 1125.59309 3.6315 0.0020474 -0.032131 -1.8116E-05 3.5993 0.0020293 563.8038124152907 30.506 0.25071 30.506 30.366 30.617 0 31 18 2 0 0 0 0.26277 1 13784 13784 19.257 4.4187 1 1226000 31825 7623 20251 20318 35822 35822 0.03531950083151969 SYPRRFSTL 9 Unmodified _SYPRRFSTL_ 0 0 0 ENST00000403825.7_1_7:112090541-112090697:+|nuORF ENST00000403825.7_1_7:112090541-112090697:+|nuORF ENST00000403825.7_1_7:112090541-112090697:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.2054138183594 3 376.204974 1125.59309 2.5355 0.00095386 -0.29441 -0.00011076 2.2411 0.0008431 376.2049002654187 29.487 0.20959 30.276 30.145 30.355 0.78921 28 18 2 0 0 0 0.049036 2 13269 13269;13321 37.771 23.438 1 1828900 31826 7623 20251 20318 35823;35824 35823 0.03531950083151969 SYPRRFSTL 9 Unmodified _SYPRRFSTL_ 0 0 0 ENST00000403825.7_1_7:112090541-112090697:+|nuORF ENST00000403825.7_1_7:112090541-112090697:+|nuORF ENST00000403825.7_1_7:112090541-112090697:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.2062072753906 3 376.204974 1125.59309 3.0778 0.0011579 -0.14632 -5.5045E-05 2.9315 0.0011028 376.2050379731847 30.291 0.28305 30.549 30.419 30.702 0.25804 34 14 3 0 0 0 0.078225 2 13769 13769;13822 42.312 31.414 1 1473800 31827 7623 20251 20318 35825;35826 35825 0.03531950083151969 SYPRRFSTL 9 Unmodified _SYPRRFSTL_ 0 0 0 ENST00000403825.7_1_7:112090541-112090697:+|nuORF ENST00000403825.7_1_7:112090541-112090697:+|nuORF ENST00000403825.7_1_7:112090541-112090697:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.8054809570312 2 563.803823 1125.59309 3.8914 0.002194 -0.21371 -0.00012049 3.6776 0.0020735 563.8037144022716 30.275 0.26488 30.533 30.437 30.702 0.25804 22 13 2 0 0 0 0.98132 1 13777 13777 4.3292 0.73274 1 708360 31828 7623 20251 20318 35827 35827 0.03531950083151969 SYPRRFSTL 9 Unmodified _SYPRRFSTL_ 0 0 0 ENST00000403825.7_1_7:112090541-112090697:+|nuORF ENST00000403825.7_1_7:112090541-112090697:+|nuORF ENST00000403825.7_1_7:112090541-112090697:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.8063354492188 2 563.803823 1125.59309 3.5879 0.0020229 -0.63639 -0.0003588 2.9515 0.0016641 563.8034119245709 30.034 0.19665 30.651 30.537 30.733 0.61737 29 22 2 0 0 0 0.59776 1 13767 13767 10.824 5.0921 1 920520 31829 7623 20251 20318 35828 35828 0.03531950083151969 SYPRRFSTL 9 Unmodified _SYPRRFSTL_ 0 0 0 ENST00000403825.7_1_7:112090541-112090697:+|nuORF ENST00000403825.7_1_7:112090541-112090697:+|nuORF ENST00000403825.7_1_7:112090541-112090697:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.2056579589844 3 376.204974 1125.59309 NaN NaN NaN NaN NaN NaN NaN 30.075 1 30.693 30.193 31.193 0.61737 0 0 0 0.49214 1 13797 13797 23.79 8.5413 1 31830 7623 20251 20318 35829 35829 0.03531950083151969 SYPRRFSTL 9 Unmodified _SYPRRFSTL_ 0 0 0 ENST00000403825.7_1_7:112090541-112090697:+|nuORF ENST00000403825.7_1_7:112090541-112090697:+|nuORF ENST00000403825.7_1_7:112090541-112090697:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 563.803823 1125.59309 3.4953 0.0019707 -0.33724 -0.00019014 3.1581 0.0017805 563.803622938758 29.477 0.12663 30.266 30.18 30.307 0.78921 -0.22302 -9.3141E-05 NaN 19.257 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 1569100 31831 7623 20251 20318 0.03531950083151969 SYPSAFSKL 9 Unmodified _SYPSAFSKL_ 0 0 0 nc|ENSG00000166783|Q9Y4F3-3|MARF1;nc|ENSG00000166783|Q9Y4F3-4|MARF1;nc|ENSG00000166783|Q9Y4F3-5|MARF1;ENSG00000166783|ENST00000396368|MARF1 nc|ENSG00000166783|Q9Y4F3-3|MARF1 nc|ENSG00000166783|Q9Y4F3-3|MARF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.98785400390625 2 500.260925 998.507297 2.9912 0.0014964 0.66385 0.0003321 3.655 0.0018285 500.2612775379542 49.931 0.36904 49.931 49.722 50.091 0 29 17 2 0 0 0 0.19413 1 22837 22837 23.79 2.0431 1 336790 31832 4506 20252 20319 35830 35830 0.007983651776157785 SYPSAFSKL 9 Unmodified _SYPSAFSKL_ 0 0 0 nc|ENSG00000166783|Q9Y4F3-3|MARF1;nc|ENSG00000166783|Q9Y4F3-4|MARF1;nc|ENSG00000166783|Q9Y4F3-5|MARF1;ENSG00000166783|ENST00000396368|MARF1 nc|ENSG00000166783|Q9Y4F3-3|MARF1 nc|ENSG00000166783|Q9Y4F3-3|MARF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.26214599609375 2 500.260925 998.507297 3.0844 0.001543 0.3905 0.00019535 3.4749 0.0017384 500.26062612549845 48.776 0.33067 49.603 49.476 49.807 0.82705 32 19 2 0 0 0 0.27615 1 22240 22240 18.373 2.5259 1 303790 31833 4506 20252 20319 35831 35831 0.007983651776157785 SYPTPISFY 9 Unmodified _SYPTPISFY_ 0 0 0 REV__ENST00000529783.1_1_2:74375310-74375499:+|nuORF REV__ENST00000529783.1_1_2:74375310-74375499:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.7628173828125 2 537.760758 1073.50696 3.444 0.001852 -0.10731 -5.7708E-05 3.3367 0.0017943 537.7610818833996 89.146 0.38062 89.824 89.582 89.962 0.67818 37 15 3 0 0 0 0.09451 1 41059 41059 34.102 5.6156 1 1133500 + 31834 17129 20253 20320 35832 35832 -0.02685054542234866 SYPWRRRQRWR 11 Unmodified _SYPWRRRQRWR_ 0 0 0 ENST00000372724.5_1_10:76586363-76598485:+|nuORF ENST00000372724.5_1_10:76586363-76598485:+|nuORF ENST00000372724.5_1_10:76586363-76598485:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.407958984375 3 549.634424 1645.88144 NaN NaN NaN NaN NaN NaN NaN 66.354 1 66.354 65.854 66.854 0 0 0 0 1.0082 1 31703 31703 0 0 1 31835 7342 20254 20321 35833 35833 0.08433858113903625 SYQKVIELF 9 Unmodified _SYQKVIELF_ 0 0 0 ENSG00000168078|ENST00000301905|PBK;nc|ENSG00000168078|Q96KB5-2|PBK ENSG00000168078|ENST00000301905|PBK ENSG00000168078|ENST00000301905|PBK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.3147583007812 2 563.810782 1125.60701 2.8183 0.001589 -0.48746 -0.00027484 2.3308 0.0013141 563.8107455183153 68.154 0.25278 68.154 68.049 68.302 0 75 40 2 0 0 0 0.010904 1 32794 32794 80.676 30.743 1 9667900 31836 4603 20255 20322 35834 35834 0.04923182791549152 SYQKVIELF 9 Unmodified _SYQKVIELF_ 0 0 0 ENSG00000168078|ENST00000301905|PBK;nc|ENSG00000168078|Q96KB5-2|PBK ENSG00000168078|ENST00000301905|PBK ENSG00000168078|ENST00000301905|PBK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.8129272460938 2 563.810782 1125.60701 2.764 0.0015584 -0.8277 -0.00046667 1.9363 0.0010917 563.8107772284079 67.129 0.27765 67.831 67.682 67.96 0.70217 76 36 3 0 0 0 0.010904 2 31835 31835;31884 80.676 38.836 1 8883400 31837 4603 20255 20322 35835;35836 35835 0.04923182791549152 SYQKVIELF 9 Unmodified _SYQKVIELF_ 0 0 0 ENSG00000168078|ENST00000301905|PBK;nc|ENSG00000168078|Q96KB5-2|PBK ENSG00000168078|ENST00000301905|PBK ENSG00000168078|ENST00000301905|PBK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.81298828125 2 563.810782 1125.60701 3.8321 0.0021606 -0.20741 -0.00011694 3.6247 0.0020436 563.8107185288388 68.035 0.36037 68.287 68.103 68.464 0.25227 81 28 4 0 0 0 0.0023958 3 31165 31120;31165;31209 100.09 46.258 1 5418600 31838 4603 20255 20322 35837;35838;35839 35838 0.04923182791549152 SYQKVIELF 9 Unmodified _SYQKVIELF_ 0 0 0 ENSG00000168078|ENST00000301905|PBK;nc|ENSG00000168078|Q96KB5-2|PBK ENSG00000168078|ENST00000301905|PBK ENSG00000168078|ENST00000301905|PBK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.8129272460938 2 563.810782 1125.60701 3.5305 0.0019905 -0.05625 -3.1715E-05 3.4742 0.0019588 563.8108570134739 67.491 0.4147 68.149 67.918 68.332 0.65777 74 27 4 0 0 0 0.0057865 3 30953 30867;30912;30953 90.135 36.302 1 4334100 31839 4603 20255 20322 35840;35841;35842 35842 0.04923182791549152 SYQKVMALW 9 Unmodified _SYQKVMALW_ 0 0 0 nc|ENSG00000127603|Q9UPN3-4|MACF1;nc|ENSG00000127603|Q9UPN3-3|MACF1;nc|ENSG00000127603|Q9UPN3-2|MACF1;nc|ENSG00000127603|Q9UPN3|MACF1;ENSG00000127603|ENST00000564288|MACF1;ENST00000476350.1_1_1:39768622-39838291:+|nuORF nc|ENSG00000127603|Q9UPN3-4|MACF1 nc|ENSG00000127603|Q9UPN3-4|MACF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.2926635742188 2 563.291702 1124.56885 NaN NaN NaN NaN NaN NaN NaN 64.058 1 64.715 64.215 65.215 0.65672 0 0 0 0.050529 1 29359 29359 53.404 36.462 1 31840 2487 20256 20323 35843 35843 0.011549736052529624 SYQRAFNEF 9 Unmodified _SYQRAFNEF_ 0 0 0 ENSG00000185215|ENST00000560869|TNFAIP2 ENSG00000185215|ENST00000560869|TNFAIP2 ENSG00000185215|ENST00000560869|TNFAIP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.271484375 2 581.269813 1160.52507 3.5506 0.0020639 -0.086936 -5.0533E-05 3.4637 0.0020134 581.2695582018864 44.824 0.25102 44.824 44.671 44.922 0 24 13 2 0 0 0 0.0039585 1 20490 20490 93.938 71.202 1 999210 31841 5495 20257 20324 35844 35844 -0.04876919567527693 SYQRAFNEF 9 Unmodified _SYQRAFNEF_ 0 0 0 ENSG00000185215|ENST00000560869|TNFAIP2 ENSG00000185215|ENST00000560869|TNFAIP2 ENSG00000185215|ENST00000560869|TNFAIP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.2711791992188 2 581.269813 1160.52507 3.1694 0.0018423 0.55466 0.00032241 3.7241 0.0021647 581.2700081048889 43.554 0.32217 44.368 44.196 44.518 0.81444 26 14 2 0 0 0 0.035495 2 19831 19831;19887 53.404 38.156 1 1059400 31842 5495 20257 20324 35845;35846 35845 -0.04876919567527693 SYQRAFNEF 9 Unmodified _SYQRAFNEF_ 0 0 0 ENSG00000185215|ENST00000560869|TNFAIP2 ENSG00000185215|ENST00000560869|TNFAIP2 ENSG00000185215|ENST00000560869|TNFAIP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.271240234375 2 581.269813 1160.52507 3.24 0.0018833 0.023436 1.3623E-05 3.2635 0.0018969 581.2698442599451 44.879 0.29529 45.147 45.023 45.318 0.26768 28 15 2 0 0 0 0.015631 2 20491 20491;20538 74.2 70.332 1 1236400 31843 5495 20257 20324 35847;35848 35847 -0.04876919567527693 SYQRAFNEF 9 Unmodified _SYQRAFNEF_ 0 0 0 ENSG00000185215|ENST00000560869|TNFAIP2 ENSG00000185215|ENST00000560869|TNFAIP2 ENSG00000185215|ENST00000560869|TNFAIP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.2714233398438 2 581.269813 1160.52507 3.7605 0.0021858 -0.090408 -5.2551E-05 3.6701 0.0021333 581.2694860804959 44.274 0.32117 44.924 44.828 45.149 0.64998 25 14 2 0 0 0 0.0039585 2 20293 20293;20374 93.938 93.938 1 1207000 31844 5495 20257 20324 35849;35850 35849 -0.04876919567527693 SYREDPIVY 9 Unmodified _SYREDPIVY_ 0 0 0 nc|ENSG00000105976|P08581-3|MET;ENSG00000105976|ENST00000397752|MET;nc|ENSG00000105976|P08581-2|MET nc|ENSG00000105976|P08581-3|MET nc|ENSG00000105976|P08581-3|MET MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.28173828125 2 571.279846 1140.54514 NaN NaN NaN NaN NaN NaN NaN 41.001 1 41.001 40.501 41.501 0 0 0 0 0.37777 1 18621 18621 23.79 12.149 1 31845 1545 20258 20325 35851 35851 -0.019511686275791362 SYREDPIVY 9 Unmodified _SYREDPIVY_ 0 0 0 nc|ENSG00000105976|P08581-3|MET;ENSG00000105976|ENST00000397752|MET;nc|ENSG00000105976|P08581-2|MET nc|ENSG00000105976|P08581-3|MET nc|ENSG00000105976|P08581-3|MET MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.2833251953125 2 571.279846 1140.54514 NaN NaN NaN NaN NaN NaN NaN 40.877 1 41.146 40.646 41.646 0.26904 0 0 0 0.37777 1 18601 18601 23.79 12.149 1 31846 1545 20258 20325 35852 35852 -0.019511686275791362 SYSCSAPE 8 Unmodified _SYSCSAPE_ 0 0 0 ENST00000368366.5_1_1:155217575-155221373:-|nuORF;nc|ENSG00000160767|P81408-2|ENTREP3;nc|ENSG00000160767|P81408-3|ENTREP3;ENSG00000160767|ENST00000361361|ENTREP3;nc|ENSG00000160767|P81408-4|ENTREP3 ENST00000368366.5_1_1:155217575-155221373:-|nuORF ENST00000368366.5_1_1:155217575-155221373:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 843.3231811523438 1 843.31891 842.311634 4.1581 0.0035066 -0.2617 -0.0002207 3.8964 0.0032859 843.3185777892656 103.3 0.071747 103.9 103.87 103.94 0.59821 5 4 2 0 0 0 0.7471 1 47796 47796 0.69038 0 1 253360 31847 4078 20259 20326 35853 35853 -0.11582968338734645 SYSCSAPE 8 Unmodified _SYSCSAPE_ 0 0 0 ENST00000368366.5_1_1:155217575-155221373:-|nuORF;nc|ENSG00000160767|P81408-2|ENTREP3;nc|ENSG00000160767|P81408-3|ENTREP3;ENSG00000160767|ENST00000361361|ENTREP3;nc|ENSG00000160767|P81408-4|ENTREP3 ENST00000368366.5_1_1:155217575-155221373:-|nuORF ENST00000368366.5_1_1:155217575-155221373:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 843.31891 842.311634 4.7268 0.0039862 3.372 0.0028437 8.0987 0.0068298 843.3212346208702 103.34 0.054047 103.66 103.63 103.69 0.31863 -0.11889 0.0024855 NaN 0.69038 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 192690 31848 4078 20259 20326 -0.11582968338734645 SYSDPPLKF 9 Unmodified _SYSDPPLKF_ 0 0 0 ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.2699584960938 2 527.266207 1052.51786 NaN NaN NaN NaN NaN NaN NaN 53.589 1 53.589 53.089 54.089 0 0 0 0 0.1585 1 24559 24559 32.786 21.145 1 31849 4714 20260 20327 35854 35854 -0.006296521679587386 SYSDPPLKF 9 Unmodified _SYSDPPLKF_ 0 0 0 ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.267578125 2 527.266207 1052.51786 2.8961 0.001527 0.6363 0.0003355 3.5325 0.0018625 527.266776248319 52.519 0.29161 53.329 53.19 53.482 0.81065 31 17 3 0 0 0 0.02631 1 23920 23920 60.074 45.236 1 989110 31850 4714 20260 20327 35855 35855 -0.006296521679587386 SYSDPPLKF 9 Unmodified _SYSDPPLKF_ 0 0 0 ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.26806640625 2 527.266207 1052.51786 3.3669 0.0017752 0.72082 0.00038006 4.0877 0.0021553 527.2668308965233 53.377 0.25105 53.64 53.523 53.774 0.26345 25 13 3 0 0 0 0.093314 1 24398 24398 34.402 25.019 1 687670 31851 4714 20260 20327 35856 35856 -0.006296521679587386 SYSDPPLKF 9 Unmodified _SYSDPPLKF_ 0 0 0 ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF ENSG00000169813|ENST00000682386|HNRNPF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.26904296875 2 527.266207 1052.51786 NaN NaN NaN NaN NaN NaN NaN 52.899 1 53.563 53.063 54.063 0.6644 0 0 0 0.069424 1 24191 24191 47.749 28.31 1 31852 4714 20260 20327 35857 35857 -0.006296521679587386 SYSFYVKF 8 Unmodified _SYSFYVKF_ 0 0 0 REV__ENST00000360537.6_1_6:144262428-144262560:-|nuORF REV__ENST00000360537.6_1_6:144262428-144262560:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.7591552734375 2 520.758018 1039.50148 3.3048 0.001721 -1.2186 -0.00063459 2.0862 0.0010864 520.7575006535379 67.707 0.33954 68.365 68.214 68.554 0.65777 44 20 3 0 0 0 0.65723 1 31109 31109 9.3474 1.4373 1 1301300 + 31853 15610 20261 20328 35858 35858 -0.016687333340541954 SYSMIVNNL 9 Unmodified _SYSMIVNNL_ 0 0 0 ENST00000469173.1_1_1:174976108-174977843:+|nuORF;nc|ENSG00000116161|Q9HB71-3|CACYBP;CACYBP|p.E177Rfs*15|1|0.26|ENSG00000116161|chr1:175008700-175008700|A/-|frameshift_variant;ENSG00000116161|ENST00000367679|CACYBP;ENST00000473925.1_1_1:174969094-174977843:+|nuORF ENST00000469173.1_1_1:174976108-174977843:+|nuORF ENST00000469173.1_1_1:174976108-174977843:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.7582397460938 2 520.757692 1039.50083 NaN NaN NaN NaN NaN NaN NaN 68.512 1 68.512 68.012 69.012 0 0 0 0 0.067429 1 32993 32993 48.346 31.404 1 31854 96 20262 20329 35859 35859 -0.017338960454253538 SYSMIVNNL 9 Unmodified _SYSMIVNNL_ 0 0 0 ENST00000469173.1_1_1:174976108-174977843:+|nuORF;nc|ENSG00000116161|Q9HB71-3|CACYBP;CACYBP|p.E177Rfs*15|1|0.26|ENSG00000116161|chr1:175008700-175008700|A/-|frameshift_variant;ENSG00000116161|ENST00000367679|CACYBP;ENST00000473925.1_1_1:174969094-174977843:+|nuORF ENST00000469173.1_1_1:174976108-174977843:+|nuORF ENST00000469173.1_1_1:174976108-174977843:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.7594604492188 2 520.757692 1039.50083 3.6635 0.0019078 -0.93677 -0.00048783 2.7268 0.00142 520.7574408898682 68.215 0.31451 68.467 68.328 68.643 0.25226 49 19 3 0 0 0 0.0016284 3 31270 31220;31270;31321 108 79.51 1 1400500 31855 96 20262 20329 35860;35861;35862 35861 -0.017338960454253538 SYSMIVNNL 9 Unmodified _SYSMIVNNL_ 0 0 0 ENST00000469173.1_1_1:174976108-174977843:+|nuORF;nc|ENSG00000116161|Q9HB71-3|CACYBP;CACYBP|p.E177Rfs*15|1|0.26|ENSG00000116161|chr1:175008700-175008700|A/-|frameshift_variant;ENSG00000116161|ENST00000367679|CACYBP;ENST00000473925.1_1_1:174969094-174977843:+|nuORF ENST00000469173.1_1_1:174976108-174977843:+|nuORF ENST00000469173.1_1_1:174976108-174977843:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.759765625 2 520.757692 1039.50083 3.3048 0.001721 -0.59265 -0.00030863 2.7122 0.0014124 520.7575006535379 67.707 0.33954 68.365 68.214 68.554 0.65777 44 20 3 0 0 0 0.0080831 2 31058 31007;31058 85.357 66.1 1 1301300 31856 96 20262 20329 35863;35864 35864 -0.017338960454253538 SYSQAGALSSG 11 Unmodified _SYSQAGALSSG_ 0 0 0 REV__ENSG00000150750|ENST00000280325|POU2AF2 REV__ENSG00000150750|ENST00000280325|POU2AF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.740478515625 2 514.238178 1026.4618 3.566 0.0018338 2.4129 0.0012408 5.979 0.0030746 514.7391933867224 40.292 0.20972 40.559 40.432 40.642 0.26696 14 6 3 0 0 0 0.3022 1 18356 18356 24.991 11.085 1 784300 + 31857 12593 20263 20330 35865 35865 -0.050369050754397904 SYSSTFHSL 9 Unmodified _SYSSTFHSL_ 0 0 0 ENSG00000273136|ENST00000620612|NBPF26;ENSG00000162825|ENST00000698833|NBPF20;ENST00000491285.1_1:146215077-146250826:-|nuORF;ENSG00000271383|ENST00000651566|NBPF19;ENSG00000263956|ENST00000682118|NBPF11;nc|ENSG00000270231|Q3BBV2|NBPF8;nc|ENSG00000273136|B4DH59|NBPF26;nc|ENSG00000270629|Q5TI25|NBPF14;nc|ENSG00000269713|P0DPF3-2|NBPF9;ENSG00000269713|ENST00000698832|NBPF9;ENSG00000271425|ENST00000583866|NBPF10;ENSG00000270629|ENST00000619423|NBPF14;ENSG00000268043|ENST00000698835|NBPF12;ENSG00000266338|ENST00000581897|NBPF15 ENSG00000273136|ENST00000620612|NBPF26 ENSG00000273136|ENST00000620612|NBPF26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.7381591796875 2 514.737814 1027.46108 3.2579 0.001677 -0.5455 -0.00028079 2.7124 0.0013962 514.7375322117338 40.287 0.23005 40.287 40.14 40.37 0 12 7 2 0 0 0 0.0023685 1 18281 18281 100.37 69.103 1 945400 31858 6336 20264 20331 35866 35866 -0.05155699724468832 SYSSYSGYIMM 11 Unmodified _SYSSYSGYIMM_ 0 0 0 nc|ENSG00000138795|Q9UJU2-7|LEF1;nc|ENSG00000138795|Q9UJU2-2|LEF1;nc|ENSG00000138795|Q9UJU2-5|LEF1;nc|ENSG00000138795|Q9UJU2-6|LEF1;ENSG00000138795|ENST00000265165|LEF1 nc|ENSG00000138795|Q9UJU2-7|LEF1 nc|ENSG00000138795|Q9UJU2-7|LEF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.977294921875 2 644.764857 1287.51516 NaN NaN NaN NaN NaN NaN NaN 78.906 1 78.906 78.406 79.406 0 0 0 0 1.0059 1 38896 38896 2.9952 0 1 31859 3120 20265 20332 35867 35867 -0.11709611679452792 SYTMTVIAI 9 Unmodified _SYTMTVIAI_ 0 0 0 ENSG00000180245|ENST00000317735|RRH ENSG00000180245|ENST00000317735|RRH ENSG00000180245|ENST00000317735|RRH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.7677307128906 2 499.764986 997.515419 2.755 0.0013769 -0.098626 -4.929E-05 2.6564 0.0013276 499.7650649050141 74.472 0.38865 75.136 74.996 75.385 0.6644 49 42 2 0 0 0 0.3144 1 34292 34292 15.847 0 1 663500 31860 5245 20266 20333 35868 35868 0.01656176102721929 SYTRLFSNF 9 Unmodified _SYTRLFSNF_ 0 0 0 ENST00000490112.1_1_3:33438535-33441732:-|nuORF;ENST00000486388.5_1_3:33438291-33450199:-|nuORF;nc|ENSG00000153560|Q9NZI7-4|UBP1;ENSG00000153560|ENST00000283629|UBP1 ENST00000490112.1_1_3:33438535-33441732:-|nuORF ENST00000490112.1_1_3:33438535-33441732:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.7844848632812 2 567.782556 1133.55056 3.5358 0.0020076 1.1043 0.000627 4.6401 0.0026346 567.7830938743796 63.393 0.097069 64.051 64.015 64.112 0.65808 9 7 2 0 0 0 0.030603 1 29073 29073 55.503 31.482 1 325480 31861 3789 20267 20334 35869 35869 -0.010874450451183293 SYTRLFSNF 9 Unmodified _SYTRLFSNF_ 0 0 0 ENST00000490112.1_1_3:33438535-33441732:-|nuORF;ENST00000486388.5_1_3:33438291-33450199:-|nuORF;nc|ENSG00000153560|Q9NZI7-4|UBP1;ENSG00000153560|ENST00000283629|UBP1 ENST00000490112.1_1_3:33438535-33441732:-|nuORF ENST00000490112.1_1_3:33438535-33441732:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 567.782556 1133.55056 3.3709 0.0019139 1.0128 0.00057508 4.3837 0.002489 567.7822072008069 63.958 0.1017 64.206 64.185 64.286 0.24802 0.077326 -8.2515E-05 NaN 55.503 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 266500 31862 3789 20267 20334 -0.010874450451183293 SYVEMQRCF 9 Unmodified _SYVEMQRCF_ 0 0 0 nc|ENSG00000185482|Q96MF2-2|STAC3;ENSG00000185482|ENST00000332782|STAC3 nc|ENSG00000185482|Q96MF2-2|STAC3 nc|ENSG00000185482|Q96MF2-2|STAC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 388.18634033203125 3 388.172177 1161.4947 NaN NaN NaN NaN NaN NaN NaN 50.366 1 51.024 50.524 51.524 0.65735 0 0 0 0.89683 1 23032 23032 2.4985 0.59211 1 31863 5509 20268 20335 35870 35870 -0.0795873754857439 SYVQVTSNF 9 Unmodified _SYVQVTSNF_ 0 0 0 ENSG00000072364|ENST00000265343|AFF4 ENSG00000072364|ENST00000265343|AFF4 ENSG00000072364|ENST00000265343|AFF4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.7548217773438 2 522.753464 1043.49238 3.0454 0.001592 0.023818 1.2451E-05 3.0692 0.0016045 522.7536314822233 55.898 0.24239 55.898 55.793 56.035 0 28 18 2 0 0 0 0.079031 1 25704 25704 37.974 24.068 1 860940 31864 790 20269 20336 35871 35871 -0.027631266903881624 SYVQVTSNF 9 Unmodified _SYVQVTSNF_ 0 0 0 ENSG00000072364|ENST00000265343|AFF4 ENSG00000072364|ENST00000265343|AFF4 ENSG00000072364|ENST00000265343|AFF4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 522.753464 1043.49238 3.3262 0.0017388 0.46142 0.00024121 3.7876 0.00198 522.7539433340044 55.171 0.25016 55.839 55.698 55.948 0.66798 -0.029685 7.8597E-05 NaN 37.974 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 243830 31865 790 20269 20336 -0.027631266903881624 SYVRSLPFF 9 Unmodified _SYVRSLPFF_ 0 0 0 ENSG00000170043|ENST00000303731|TRAPPC1 ENSG00000170043|ENST00000303731|TRAPPC1 ENSG00000170043|ENST00000303731|TRAPPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.3006591796875 2 558.297842 1114.58113 2.8428 0.0015871 0.53339 0.00029779 3.3762 0.0018849 558.297951281755 73.825 0.25334 74.512 74.377 74.63 0.68662 41 26 2 0 0 0 0.053359 1 35632 35632 45.74 21.719 1 3742300 31866 4729 20270 20337 35872 35872 0.028423333399587136 SYVRSLPFF 9 Unmodified _SYVRSLPFF_ 0 0 0 ENSG00000170043|ENST00000303731|TRAPPC1 ENSG00000170043|ENST00000303731|TRAPPC1 ENSG00000170043|ENST00000303731|TRAPPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.2998046875 2 558.297842 1114.58113 3.2386 0.0018081 -1.4686 -0.00081992 1.7701 0.00098822 558.2968335777842 74.669 0.32398 74.927 74.728 75.052 0.25831 49 33 2 0 0 0 0.035495 2 34377 34320;34377 53.404 28.005 1 1651300 31867 4729 20270 20337 35873;35874 35874 0.028423333399587136 SYVRSLPFF 9 Unmodified _SYVRSLPFF_ 0 0 0 ENSG00000170043|ENST00000303731|TRAPPC1 ENSG00000170043|ENST00000303731|TRAPPC1 ENSG00000170043|ENST00000303731|TRAPPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.2987060546875 2 558.297842 1114.58113 3.0224 0.0016874 -0.18705 -0.00010443 2.8353 0.001583 558.2976337522939 74.087 0.32448 74.751 74.59 74.914 0.6644 63 38 2 0 0 0 0.025135 2 34111 34062;34111 61.602 36.203 1 1012800 31868 4729 20270 20337 35875;35876 35876 0.028423333399587136 SYWILKFGSIL 11 Unmodified _SYWILKFGSIL_ 0 0 0 REV__Harlequin-int_dup446|chr19:20426579-20429510:-|1.2092047156725605|0.0242048410209908|5.64|525.0|139|1|anti-sense REV__Harlequin-int_dup446|chr19:20426579-20429510:-|1.2092047156725605|0.0242048410209908|5.64|525.0|139|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 663.8756713867188 2 663.876456 1325.73836 NaN NaN NaN NaN NaN NaN NaN 56.452 1 56.452 55.952 56.952 0 0 0 0 1.0073 1 25976 25976 1.1933 0.12188 1 + 31869 17719 20271 20338 35877 35877 0.08851993159487392 SYWWRRKQ 8 Unmodified _SYWWRRKQ_ 0 0 0 nc|ENSG00000164078|Q04912-7|MST1R;nc|ENSG00000164078|Q04912-2|MST1R;ENSG00000164078|ENST00000296474|MST1R nc|ENSG00000164078|Q04912-7|MST1R nc|ENSG00000164078|Q04912-7|MST1R MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.2159423828125 3 403.880713 1208.62031 2.6924 0.0010874 -1.1982 -0.00048393 1.4942 0.00060349 404.21424581616117 16.186 0.42107 16.186 16.001 16.422 0 76 52 2 0 0 0 0.7471 1 7223 7223 1.6526 1.6526 1 55838 31870 4282 20272 20339 35878 35878 0.024344784141703713 SYYEMMYIHWL 11 Unmodified _SYYEMMYIHWL_ 0 0 0 REV__L1PB1_dup5905|chr7:93807211-93809400:+|3.627191007074611|0.2056128638309657|4.14|521.0|47|2|sense REV__L1PB1_dup5905|chr7:93807211-93809400:+|3.627191007074611|0.2056128638309657|4.14|521.0|47|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.1443481445312 3 512.561441 1534.66249 NaN NaN NaN NaN NaN NaN NaN 72.484 1 72.743 72.243 73.243 0.25876 0 0 0 1.008 1 33275 33275 0.094841 0 1 + 31871 17808 20273 20340 35879 35879 -0.08345095074628262 SYYFKVLS 8 Unmodified _SYYFKVLS_ 0 0 0 REV__ENSG00000089902|ENST00000262241|RCOR1 REV__ENSG00000089902|ENST00000262241|RCOR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 336.19207763671875 3 336.179654 1005.51713 NaN NaN NaN NaN NaN NaN NaN 37.003 1 37.003 36.503 37.503 0 0 0 0 0.99035 1 16793 16793 1.6526 0 1 + 31872 10705 20274 20341 35880 35880 0.014595531830082109 SYYMIGEQKF 10 Unmodified _SYYMIGEQKF_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.3001708984375 2 633.297181 1264.57981 3.6755 0.0023277 0.046681 2.9563E-05 3.7222 0.0023572 633.2971877897825 56.147 0.31755 56.147 55.943 56.26 0 60 23 3 0 0 0 5.6128E-09 1 25850 25850 145.13 116.64 1 4329900 31873 4502 20275 20342 35881 35881 -0.04189668811136471 SYYMIGEQKF 10 Unmodified _SYYMIGEQKF_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.2988891601562 2 633.297181 1264.57981 3.1445 0.0019914 0.07143 4.5236E-05 3.216 0.0020367 633.2970839955733 55.034 0.36735 55.821 55.666 56.034 0.78711 64 24 3 0 0 0 2.6159E-13 2 25118 25118;25173 152.89 124.4 1 4378700 31874 4502 20275 20342 35882;35883 35882 -0.04189668811136471 SYYMIGEQKF 10 Unmodified _SYYMIGEQKF_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.2998657226562 2 633.297181 1264.57981 3.6932 0.0023389 -0.30288 -0.00019181 3.3903 0.0021471 633.296916802244 56.147 0.28022 56.412 56.262 56.542 0.26543 26 10 3 0 0 0 0.0012812 1 25712 25712 103.42 79.399 1 3883700 31875 4502 20275 20342 35884 35884 -0.04189668811136471 SYYMIGEQKF 10 Unmodified _SYYMIGEQKF_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3004150390625 2 633.297181 1264.57981 3.9119 0.0024774 -0.34115 -0.00021605 3.5707 0.0022613 633.2971274741134 55.4 0.34735 56.068 55.89 56.238 0.66798 38 14 3 0 0 0 5.6128E-09 1 25314 25314 145.13 128.02 1 3490200 31876 4502 20275 20342 35885 35885 -0.04189668811136471 TAAALRRAA 9 Unmodified _TAAALRRAA_ 0 0 0 ENSG00000179913|ENST00000318683|B3GNT3 ENSG00000179913|ENST00000318683|B3GNT3 ENSG00000179913|ENST00000318683|B3GNT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.7712707519531 2 450.772326 899.530098 NaN NaN NaN NaN NaN NaN NaN 46.641 1 46.907 46.407 47.407 0.26561 0 0 0 0.59707 1 21316 21316 15.847 3.3156 1 31877 5234 20276 20343 35886 35886 0.07631429085733998 TAADDHQAL 9 Unmodified _TAADDHQAL_ 0 0 0 nc|ENSG00000136485|P61962-2|DCAF7;ENSG00000136485|ENST00000614556|DCAF7 nc|ENSG00000136485|P61962-2|DCAF7 nc|ENSG00000136485|P61962-2|DCAF7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 471.22125244140625 2 471.219788 940.425024 2.8643 0.0013497 0.48185 0.00022706 3.3461 0.0015768 471.2200124149056 14.978 0.33398 14.978 14.835 15.169 0 68 39 2 0 0 0 0.21008 2 6624 6575;6624 22.736 4.5899 1 195380 31878 2952 20277 20344 35887;35888 35888 -0.047571569013484805 TAADDHQAL 9 Unmodified _TAADDHQAL_ 0 0 0 nc|ENSG00000136485|P61962-2|DCAF7;ENSG00000136485|ENST00000614556|DCAF7 nc|ENSG00000136485|P61962-2|DCAF7 nc|ENSG00000136485|P61962-2|DCAF7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 471.2209777832031 2 471.219788 940.425024 2.8687 0.0013518 -0.62952 -0.00029664 2.2392 0.0010552 471.21942465018395 14.562 0.22858 14.788 14.664 14.893 0.22622 29 17 2 0 0 0 0.15661 1 6398 6398 26.268 8.1218 1 342680 31879 2952 20277 20344 35889 35889 -0.047571569013484805 TAADDSSVKL 10 Unmodified _TAADDSSVKL_ 0 0 0 ENST00000539960.1_1_11:60665249-60666641:-|nuORF;ENSG00000110107|ENST00000227524|PRPF19 ENST00000539960.1_1_11:60665249-60666641:-|nuORF ENST00000539960.1_1_11:60665249-60666641:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 503.7582702636719 2 503.756204 1005.49785 3.3116 0.0016682 0.46866 0.00023609 3.7802 0.0019043 503.7562489963655 27.888 0.31164 27.888 27.728 28.039 0 65 25 3 0 0 0 0.0012041 2 12576 12531;12576 103.82 61.984 1 2102500 31880 1701 20278 20345 35890;35891 35891 -0.004674478985634778 TAADDSSVKL 10 Unmodified _TAADDSSVKL_ 0 0 0 ENST00000539960.1_1_11:60665249-60666641:-|nuORF;ENSG00000110107|ENST00000227524|PRPF19 ENST00000539960.1_1_11:60665249-60666641:-|nuORF ENST00000539960.1_1_11:60665249-60666641:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.75799560546875 2 503.756204 1005.49785 3.129 0.0015762 0.15895 8.0071E-05 3.2879 0.0016563 503.7561756360061 26.977 0.2699 27.756 27.627 27.897 0.7787 48 19 3 0 0 0 0.018875 2 12139 12093;12139 81.915 52.834 1 2250000 31881 1701 20278 20345 35892;35893 35893 -0.004674478985634778 TAADDSSVKL 10 Unmodified _TAADDSSVKL_ 0 0 0 ENST00000539960.1_1_11:60665249-60666641:-|nuORF;ENSG00000110107|ENST00000227524|PRPF19 ENST00000539960.1_1_11:60665249-60666641:-|nuORF ENST00000539960.1_1_11:60665249-60666641:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.75799560546875 2 503.756204 1005.49785 3.1275 0.0015755 0.72819 0.00036683 3.8557 0.0019423 503.75640566099423 27.639 0.26378 27.901 27.769 28.033 0.26245 45 18 3 0 0 0 0.20089 1 12597 12597 39.213 18.759 1 1948700 31882 1701 20278 20345 35894 35894 -0.004674478985634778 TAADDSSVKL 10 Unmodified _TAADDSSVKL_ 0 0 0 ENST00000539960.1_1_11:60665249-60666641:-|nuORF;ENSG00000110107|ENST00000227524|PRPF19 ENST00000539960.1_1_11:60665249-60666641:-|nuORF ENST00000539960.1_1_11:60665249-60666641:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.75787353515625 2 503.756204 1005.49785 3.1436 0.0015836 0.89107 0.00044888 4.0347 0.0020325 503.75641900059964 27.231 0.33336 27.852 27.677 28.011 0.62179 45 19 3 0 0 0 0.18812 1 12508 12508 40.725 17.989 1 1871800 31883 1701 20278 20345 35895 35895 -0.004674478985634778 TAAIRARLLL 10 Unmodified _TAAIRARLLL_ 0 0 0 REV__ENST00000413911.1_1_2:191745560-191746172:-|nuORF REV__ENST00000413911.1_1_2:191745560-191746172:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.3854370117188 2 549.361308 1096.70806 NaN NaN NaN NaN NaN NaN NaN 59.92 1 59.92 59.42 60.42 0 0 0 0 0.99225 1 27733 27733 6.7232 3.1267 1 + 31884 16116 20279 20346 35896 35896 0.16357679284942606 TAAWGPST 8 Unmodified _TAAWGPST_ 0 0 0 ENSG00000140450|ENST00000268042|ARRDC4 ENSG00000140450|ENST00000268042|ARRDC4 ENSG00000140450|ENST00000268042|ARRDC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.69189453125 2 395.690136 789.365718 NaN NaN NaN NaN NaN NaN NaN 86.3 1 86.55 86.05 87.05 0.24974 0 0 0 0.99035 1 39719 39719 2.5775 0 1 31885 3199 20280 20347 35897 35897 -0.03739008124875909 TADDPSLSL 9 Unmodified _TADDPSLSL_ 0 0 0 nc|ENSG00000244038|P39656-3|DDOST;ENSG00000244038|ENST00000602624|DDOST;nc|ENSG00000244038|P39656|DDOST;ENST00000477229.1_1_1:20987242-20987843:-|nuORF nc|ENSG00000244038|P39656-3|DDOST nc|ENSG00000244038|P39656-3|DDOST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 918.4457397460938 1 918.441468 917.434192 4.1345 0.0037973 0.041072 3.7722E-05 4.1756 0.003835 918.4413156913487 53.702 0.28998 53.702 53.605 53.895 0 32 19 2 0 0 0 0.0012997 2 24651 24596;24651 120.45 53.107 1 2930400 31886 6246 20281 20348 35898;35899 35899 -0.027828083356666866 TADDPSLSL 9 Unmodified _TADDPSLSL_ 0 0 0 nc|ENSG00000244038|P39656-3|DDOST;ENSG00000244038|ENST00000602624|DDOST;nc|ENSG00000244038|P39656|DDOST;ENST00000477229.1_1_1:20987242-20987843:-|nuORF nc|ENSG00000244038|P39656-3|DDOST nc|ENSG00000244038|P39656-3|DDOST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 918.4415283203125 1 918.441468 917.434192 3.3787 0.0031032 -0.4701 -0.00043176 2.9086 0.0026714 918.4409279514748 52.818 0.30849 53.621 53.458 53.767 0.80351 39 21 2 0 0 0 0.0012997 2 24035 24035;24082 120.45 49.317 1 2651700 31887 6246 20281 20348 35900;35901 35900 -0.027828083356666866 TADEIQNTL 9 Unmodified _TADEIQNTL_ 0 0 0 ENSG00000130706|ENST00000253003|ADRM1 ENSG00000130706|ENST00000253003|ADRM1 ENSG00000130706|ENST00000253003|ADRM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.7508544921875 2 502.748379 1003.4822 3.383 0.0017008 1.294 0.00065056 4.677 0.0023513 502.74885546398923 43.223 0.21172 43.872 43.81 44.022 0.64872 10 8 2 0 0 0 0.19064 1 19831 19831 24.021 12.38 1 357610 31888 2610 20282 20349 35902 35902 -0.019397344156004692 TADFREQIL 9 Unmodified _TADFREQIL_ 0 0 0 ENST00000546724.1_1_12:79187410-79187629:-|nuORF;RALA|p.Y153Ifs*27|1|0.13|ENSG00000006451|chr7:39696817-39696818|-/ATTATAAGGATAGCACAGAAAGT|frameshift_variant;ENSG00000006451|ENST00000005257|RALA ENST00000546724.1_1_12:79187410-79187629:-|nuORF ENST00000546724.1_1_12:79187410-79187629:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.7896728515625 2 546.787838 1091.56112 3.8337 0.0020962 -0.27348 -0.00014953 3.5602 0.0019467 546.7877457499071 51.43 0.33129 51.43 51.266 51.598 0 40 16 3 0 0 0 0.017449 2 23568 23510;23568 71.708 43.213 1 1765400 31889 347 20283 20350 35903;35904 35904 0.019005376093446102 TADFREQIL 9 Unmodified _TADFREQIL_ 0 0 0 ENST00000546724.1_1_12:79187410-79187629:-|nuORF;RALA|p.Y153Ifs*27|1|0.13|ENSG00000006451|chr7:39696817-39696818|-/ATTATAAGGATAGCACAGAAAGT|frameshift_variant;ENSG00000006451|ENST00000005257|RALA ENST00000546724.1_1_12:79187410-79187629:-|nuORF ENST00000546724.1_1_12:79187410-79187629:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.7901000976562 2 546.787838 1091.56112 3.0768 0.0016824 0.13699 7.4903E-05 3.2138 0.0017573 546.7880107556008 50.558 0.28193 51.375 51.217 51.499 0.81738 25 13 3 0 0 0 0.0023958 2 23003 23003;23047 100.09 50.158 1 1368300 31890 347 20283 20350 35905;35906 35905 0.019005376093446102 TADFREQIL 9 Unmodified _TADFREQIL_ 0 0 0 ENST00000546724.1_1_12:79187410-79187629:-|nuORF;RALA|p.Y153Ifs*27|1|0.13|ENSG00000006451|chr7:39696817-39696818|-/ATTATAAGGATAGCACAGAAAGT|frameshift_variant;ENSG00000006451|ENST00000005257|RALA ENST00000546724.1_1_12:79187410-79187629:-|nuORF ENST00000546724.1_1_12:79187410-79187629:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.78955078125 2 546.787838 1091.56112 3.4135 0.0018665 -0.39277 -0.00021476 3.0207 0.0016517 546.7877849864053 51.359 0.25257 51.621 51.47 51.722 0.26227 24 11 3 0 0 0 0.010904 2 23443 23443;23498 80.676 45.744 1 3327500 31891 347 20283 20350 35907;35908 35907 0.019005376093446102 TADFREQIL 9 Unmodified _TADFREQIL_ 0 0 0 ENST00000546724.1_1_12:79187410-79187629:-|nuORF;RALA|p.Y153Ifs*27|1|0.13|ENSG00000006451|chr7:39696817-39696818|-/ATTATAAGGATAGCACAGAAAGT|frameshift_variant;ENSG00000006451|ENST00000005257|RALA ENST00000546724.1_1_12:79187410-79187629:-|nuORF ENST00000546724.1_1_12:79187410-79187629:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.7894287109375 2 546.787838 1091.56112 3.397 0.0018574 0.3334 0.0001823 3.7304 0.0020397 546.7879329897133 50.748 0.32134 51.407 51.205 51.526 0.65956 40 17 3 0 0 0 0.0014317 2 23204 23149;23204 110.55 60.62 1 3439700 31892 347 20283 20350 35909;35910 35910 0.019005376093446102 TADGAHFEL 9 Unmodified _TADGAHFEL_ 0 0 0 ENST00000546538.1_1_19:16643407-16652813:-|nuORF;ENSG00000085872|ENST00000546361|CHERP ENST00000546538.1_1_19:16643407-16652813:-|nuORF ENST00000546538.1_1_19:16643407-16652813:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.72601318359375 2 480.724707 959.43486 2.9808 0.0014329 0.01468 7.0571E-06 2.9955 0.00144 480.724652004695 44.484 0.35005 45.305 45.103 45.453 0.82075 47 17 4 0 0 0 0.0013631 2 20261 20204;20261 115.69 71.834 1 1625000 31893 976 20284 20351 35911;35912 35912 -0.0464796889596073 TADGAHFEL 9 Unmodified _TADGAHFEL_ 0 0 0 ENST00000546538.1_1_19:16643407-16652813:-|nuORF;ENSG00000085872|ENST00000546361|CHERP ENST00000546538.1_1_19:16643407-16652813:-|nuORF ENST00000546538.1_1_19:16643407-16652813:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 480.724707 959.43486 3.0089 0.0014465 -0.1769 -8.5038E-05 2.832 0.0013614 480.7246479413342 45.573 0.35646 45.573 45.377 45.734 0 0.010586 -1.5964E-05 NaN 115.69 37 15 3 NaN NaN NaN NaN 0 NaN NaN 0 2226100 31894 976 20284 20351 -0.0464796889596073 TADGAHFEL 9 Unmodified _TADGAHFEL_ 0 0 0 ENST00000546538.1_1_19:16643407-16652813:-|nuORF;ENSG00000085872|ENST00000546361|CHERP ENST00000546538.1_1_19:16643407-16652813:-|nuORF ENST00000546538.1_1_19:16643407-16652813:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 480.724707 959.43486 2.9674 0.0014265 -0.21943 -0.00010548 2.7479 0.001321 480.72468728734754 45.545 0.28049 45.813 45.649 45.93 0.26768 0.25077 -5.6858E-05 NaN 115.69 19 9 3 NaN NaN NaN NaN 0 NaN NaN 0 1901500 31895 976 20284 20351 -0.0464796889596073 TADGAHFEL 9 Unmodified _TADGAHFEL_ 0 0 0 ENST00000546538.1_1_19:16643407-16652813:-|nuORF;ENSG00000085872|ENST00000546361|CHERP ENST00000546538.1_1_19:16643407-16652813:-|nuORF ENST00000546538.1_1_19:16643407-16652813:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 480.724707 959.43486 3.3187 0.0015954 -0.31309 -0.00015051 3.0056 0.0014449 480.724658216681 44.908 0.31838 45.558 45.371 45.69 0.64999 -0.0044482 -0.00014691 NaN 115.69 23 11 3 NaN NaN NaN NaN 0 NaN NaN 0 1647000 31896 976 20284 20351 -0.0464796889596073 TADPLDYRL 9 Unmodified _TADPLDYRL_ 0 0 0 nc|ENSG00000110713|P52948-6|NUP98;ENSG00000110713|ENST00000324932|NUP98;nc|ENSG00000110713|P52948|NUP98 nc|ENSG00000110713|P52948-6|NUP98 nc|ENSG00000110713|P52948-6|NUP98 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.2771606445312 2 532.274564 1062.53457 3.2097 0.0017085 0.1852 9.8575E-05 3.3949 0.001807 532.2746594019522 57.017 0.37814 57.017 56.804 57.182 0 111 42 3 0 0 0 0.00068611 3 26297 26207;26251;26297 129.77 57.85 1 12716000 31897 1726 20285 20352 35913;35914;35915 35915 0.0058084871798200766 TADPLDYRL 9 Unmodified _TADPLDYRL_ 0 0 0 nc|ENSG00000110713|P52948-6|NUP98;ENSG00000110713|ENST00000324932|NUP98;nc|ENSG00000110713|P52948|NUP98 nc|ENSG00000110713|P52948-6|NUP98 nc|ENSG00000110713|P52948-6|NUP98 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 532.2762451171875 2 532.274564 1062.53457 2.8161 0.0014989 0.045883 2.4422E-05 2.862 0.0015233 532.2745332396634 56.041 0.39833 56.819 56.615 57.014 0.77786 89 31 4 0 0 0 1.0706E-08 3 25580 25532;25580;25633 155.03 89.791 1 13532000 31898 1726 20285 20352 35916;35917;35918 35917 0.0058084871798200766 TADPLDYRL 9 Unmodified _TADPLDYRL_ 0 0 0 nc|ENSG00000110713|P52948-6|NUP98;ENSG00000110713|ENST00000324932|NUP98;nc|ENSG00000110713|P52948|NUP98 nc|ENSG00000110713|P52948-6|NUP98 nc|ENSG00000110713|P52948-6|NUP98 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 532.2763061523438 2 532.274564 1062.53457 3.048 0.0016224 0.1777 9.4586E-05 3.2257 0.001717 532.2745553342725 56.907 0.37125 57.171 56.964 57.336 0.26444 49 15 4 0 0 0 1.0071E-05 3 26040 25991;26040;26093 147.06 81.824 1 13005000 31899 1726 20285 20352 35919;35920;35921 35920 0.0058084871798200766 TADPLDYRL 9 Unmodified _TADPLDYRL_ 0 0 0 nc|ENSG00000110713|P52948-6|NUP98;ENSG00000110713|ENST00000324932|NUP98;nc|ENSG00000110713|P52948|NUP98 nc|ENSG00000110713|P52948-6|NUP98 nc|ENSG00000110713|P52948-6|NUP98 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.2759399414062 2 532.274564 1062.53457 3.2948 0.0017538 0.077532 4.1268E-05 3.3724 0.001795 532.274466149173 56.223 0.55475 56.891 56.61 57.165 0.66829 120 34 5 0 0 0 2.5075E-05 4 25696 25655;25696;25740;25792 142.08 79.507 1 13561000 31900 1726 20285 20352 35922;35923;35924;35925 35923 0.0058084871798200766 TADYLVLPP 9 Unmodified _TADYLVLPP_ 0 0 0 REV__ENSG00000059691|ENST00000263985|GATB REV__ENSG00000059691|ENST00000263985|GATB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.77276611328125 2 494.771126 987.527698 3.5462 0.0017545 -0.063759 -3.1546E-05 3.4824 0.001723 494.7710281253161 12.495 0.11782 13.138 13.092 13.21 0.64272 9 3 4 0 0 0 0.98132 1 5619 5619 4.3292 0 1 12140000 + 31901 10388 20286 20353 35926 35926 0.033435358374163116 TAEDWGLIL 9 Unmodified _TAEDWGLIL_ 0 0 0 nc|ENSG00000136738|Q92783-2|STAM;ENSG00000136738|ENST00000377524|STAM nc|ENSG00000136738|Q92783-2|STAM nc|ENSG00000136738|Q92783-2|STAM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.2661437988281 2 509.266207 1016.51786 NaN NaN NaN NaN NaN NaN NaN 31.62 1 31.875 31.375 32.375 0.25452 0 0 0 0.45908 1 14396 14396 20.454 2.3186 1 31902 2969 20287 20354 35927 35927 0.010263478320553077 TAEIIHEAL 9 Unmodified _TAEIIHEAL_ 0 0 0 REV__nc|ENSG00000171735|Q9Y6Y1-2|CAMTA1 REV__nc|ENSG00000171735|Q9Y6Y1-2|CAMTA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.48309326171875 2 498.771657 995.528761 2.935 0.0014639 -0.051511 -2.5692E-05 2.8835 0.0014382 498.7716275935095 46.814 0.33765 47.644 47.456 47.793 0.82915 32 16 3 0 0 0 0.11001 2 21253 21253;21365 30.225 2.596 1 921150 + 31903 18048 20288 20355 35928;35929 35928 0.030817502063200664 TAEKDFVL 8 Unmodified _TAEKDFVL_ 0 0 0 nc|ENSG00000120915|P34913-3|EPHX2;nc|ENSG00000120915|P34913-2|EPHX2;ENSG00000120915|ENST00000521400|EPHX2 nc|ENSG00000120915|P34913-3|EPHX2 nc|ENSG00000120915|P34913-3|EPHX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 461.7490539550781 2 461.74765 921.480748 2.8132 0.001299 1.1388 0.00052584 3.952 0.0018248 461.7479382877417 46.241 0.29803 46.506 46.405 46.703 0.26561 16 11 2 0 0 0 0.36624 1 21165 21165 30.637 8.8899 1 289540 31904 2218 20289 20356 35930 35930 0.01686676286283273 TAELALWM 8 Unmodified _TAELALWM_ 0 0 0 nc|ENSG00000151458|Q9ULJ7-2|ANKRD50;ENSG00000151458|ENST00000504087|ANKRD50 nc|ENSG00000151458|Q9ULJ7-2|ANKRD50 nc|ENSG00000151458|Q9ULJ7-2|ANKRD50 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 934.405029296875 1 934.470266 933.462989 3.2996 0.0030834 -1.9215 -0.0017956 1.3781 0.0012878 934.4699843039821 93.115 0.33687 93.115 93.073 93.41 0 75 43 2 0 0 0 0.13672 1 49805 49805 13.508 0 1 41285000 31905 3708 20290 20357 35931 35931 -0.006403622402217479 TAESSTDDEEE 11 Unmodified _TAESSTDDEEE_ 0 0 0 REV__ENSG00000164841|ENST00000297459|TMEM74 REV__ENSG00000164841|ENST00000297459|TMEM74 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.70068359375 2 606.722952 1211.43135 NaN NaN NaN NaN NaN NaN NaN 97.475 1 97.546 97.046 98.046 0.070648 0 0 0 1.0059 1 52129 52129 2.9952 0.93549 1 + 31906 13116 20291 20358 35932 35932 -0.16590773041798457 TAFALLQAQL 10 Unmodified _TAFALLQAQL_ 0 0 0 ENSG00000270170|ENST00000602845|NCBP2AS2 ENSG00000270170|ENST00000602845|NCBP2AS2 ENSG00000270170|ENST00000602845|NCBP2AS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.209716796875 3 359.209725 1074.60735 NaN NaN NaN NaN NaN NaN NaN 12.567 1 12.874 12.374 13.374 0.30727 0 0 0 0.99284 1 5668 5668 6.6304 0.42459 1 31907 6331 20292 20359 35933 35933 0.0730260251141317 TAFKRNLSL 9 Unmodified _TAFKRNLSL_ 0 0 0 ENSG00000114405|ENST00000462069|C3orf14;ENST00000491323.5_1_3:62306146-62307782:+|nuORF;ENST00000486169.5_1_3:62306146-62309682:+|nuORF ENSG00000114405|ENST00000462069|C3orf14 ENSG00000114405|ENST00000462069|C3orf14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.3104248046875 2 525.308741 1048.60293 NaN NaN NaN NaN NaN NaN NaN 31.602 1 32.219 31.719 32.719 0.61736 0 0 0 0.70806 1 14489 14489 12.241 3.6474 1 31908 1903 20293 20360 35934 35934 0.08057138088520333 TAGAKLLFHL 10 Unmodified _TAGAKLLFHL_ 0 0 0 nc|ENSG00000170581|P52630-4|STAT2;ENSG00000170581|ENST00000314128|STAT2;ENST00000557156.1_1_12:56745011-56748252:-|nuORF;STAT2|p.L282Sfs*8|1|0.1|ENSG00000170581|chr12:56351393-56351394|-/ACTTCCT|frameshift_variant nc|ENSG00000170581|P52630-4|STAT2 nc|ENSG00000170581|P52630-4|STAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.5516357421875 3 357.550082 1069.62842 2.5404 0.00090834 0.87027 0.00031117 3.4107 0.0012195 357.55039372446197 49.856 0.9424 49.856 49.394 50.336 0 74 43 2 0 0 0 0.93372 1 22847 22847 2.086 0.89267 1 1095000 31909 4759 20294 20361 35935 35935 0.09638612610956443 TAGAKLLFHL 10 Unmodified _TAGAKLLFHL_ 0 0 0 nc|ENSG00000170581|P52630-4|STAT2;ENSG00000170581|ENST00000314128|STAT2;ENST00000557156.1_1_12:56745011-56748252:-|nuORF;STAT2|p.L282Sfs*8|1|0.1|ENSG00000170581|chr12:56351393-56351394|-/ACTTCCT|frameshift_variant nc|ENSG00000170581|P52630-4|STAT2 nc|ENSG00000170581|P52630-4|STAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.551513671875 3 357.550082 1069.62842 2.5823 0.00092331 0.80144 0.00028655 3.3838 0.0012099 357.5504666235687 52.432 0.70988 52.696 52.301 53.011 0.26345 70 32 3 0 0 0 0.93372 1 23962 23962 2.086 0.75648 1 1327200 31910 4759 20294 20361 35936 35936 0.09638612610956443 TAGLFGFIRF 10 Unmodified _TAGLFGFIRF_ 0 0 0 REV__ENST00000372685.7_1_X:102509542-102510044:-|nuORF REV__ENST00000372685.7_1_X:102509542-102510044:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.5442810058594 3 376.878198 1127.61277 NaN NaN NaN NaN NaN NaN NaN 19.767 1 20.059 19.559 20.559 0.29239 0 0 0 0.99774 1 8995 8995 1.7423 0.54893 1 + 31911 15757 20295 20362 35937 35937 0.0540632609390741 TAHEQENL 8 Unmodified _TAHEQENL_ 0 0 0 REV__nc|ENSG00000095397|Q9P202-3|WHRN REV__nc|ENSG00000095397|Q9P202-3|WHRN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 471.2217712402344 2 471.219788 940.425024 2.8643 0.0013497 0.48185 0.00022706 3.3461 0.0015768 471.2200124149056 14.978 0.33398 14.978 14.835 15.169 0 68 39 2 0 0 0 0.62895 1 6671 6671 11.64 1.5664 1 195380 + 31912 10763 20296 20363 35938 35938 -0.04757156901325743 TAHNKVAL 8 Unmodified _TAHNKVAL_ 0 0 0 ENST00000572021.5_1_17:54969063-54989474:-|nuORF;ENSG00000121060|ENST00000316881|TRIM25 ENST00000572021.5_1_17:54969063-54989474:-|nuORF ENST00000572021.5_1_17:54969063-54989474:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 427.2494812011719 2 427.248152 852.481751 3.3474 0.0014302 0.042122 1.7997E-05 3.3895 0.0014482 427.24820645447556 12.585 0.095084 13.228 13.149 13.244 0.64272 4 2 2 0 0 0 0.029216 1 5656 5656 78.728 42.601 1 1780600 31913 2223 20297 20364 35939 35939 0.049609354458425514 TAHNKVAL 8 Unmodified _TAHNKVAL_ 0 0 0 ENST00000572021.5_1_17:54969063-54989474:-|nuORF;ENSG00000121060|ENST00000316881|TRIM25 ENST00000572021.5_1_17:54969063-54989474:-|nuORF ENST00000572021.5_1_17:54969063-54989474:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 427.248152 852.481751 2.2024 0.00094099 0.54551 0.00023307 2.7479 0.0011741 427.2483196880987 12.645 0.11411 12.952 12.882 12.996 0.30727 -0.13759 0.00034382 NaN 78.728 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1784000 31914 2223 20297 20364 0.049609354458425514 TAHPGEVTA 9 Unmodified _TAHPGEVTA_ 0 0 0 nc|ENSG00000006118|Q24JP5-4|TMEM132A;ENSG00000006118|ENST00000453848|TMEM132A;nc|ENSG00000006118|Q24JP5-2|TMEM132A nc|ENSG00000006118|Q24JP5-4|TMEM132A nc|ENSG00000006118|Q24JP5-4|TMEM132A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.720458984375 2 441.719424 881.424296 3.0007 0.0013255 0.049032 2.1658E-05 3.0497 0.0013471 441.719386160053 12.873 0.11133 12.873 12.806 12.917 0 6 3 2 0 0 0 0.14729 1 5627 5627 26.884 9.9414 1 420060 31915 342 20298 20365 35940 35940 -0.021159515503882176 TAHSFEQVL 9 Unmodified _TAHSFEQVL_ 0 0 0 nc|ENSG00000077279|O43602-2|DCX;nc|ENSG00000077279|O43602|DCX;ENSG00000077279|ENST00000636035|DCX;nc|ENSG00000170390|Q8N568-2|DCLK2;ENSG00000170390|ENST00000296550|DCLK2;nc|ENSG00000170390|Q8N568-3|DCLK2;nc|ENSG00000133083|O15075-2|DCLK1;ENSG00000133083|ENST00000360631|DCLK1 nc|ENSG00000077279|O43602-2|DCX;nc|ENSG00000133083|O15075-2|DCLK1 nc|ENSG00000133083|O15075-2|DCLK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.2635498046875 2 516.261456 1030.50836 3.6235 0.0018707 0.29118 0.00015032 3.9147 0.002021 516.2614742517657 45.027 0.21404 45.677 45.566 45.78 0.64998 11 7 2 0 0 0 0.017868 1 20627 20627 71.134 38.828 1 571970 31916 2747;860 20299 20366 35941 35941 -0.005674204534670935 TAHWCKSR 8 Unmodified _TAHWCKSR_ 0 0 0 ENST00000424388.1_1_3:50607184-50608690:+|nuORF ENST00000424388.1_1_3:50607184-50608690:+|nuORF ENST00000424388.1_1_3:50607184-50608690:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.2660217285156 2 494.742711 987.470869 3.2193 0.0015927 -0.45103 -0.00022314 2.7682 0.0013696 494.7421583618831 26.545 0.14602 26.81 26.721 26.867 0.26489 13 10 2 0 0 0 0.14146 1 12056 12056 5.2307 0.90143 1 137340 31917 7784 20300 20367 35942 35942 -0.023367902000813956 TAIIKEIF 8 Unmodified _TAIIKEIF_ 0 0 0 ENSG00000140471|ENST00000314742|LINS1;nc|ENSG00000140471|Q8NG48-3|LINS1;ENST00000559149.5_1_15:101113500-101121059:-|nuORF;nc|ENSG00000140471|Q8NG48-2|LINS1 ENSG00000140471|ENST00000314742|LINS1 ENSG00000140471|ENST00000314742|LINS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.7835998535156 2 467.784036 933.553519 NaN NaN NaN NaN NaN NaN NaN 13.317 1 13.96 13.46 14.46 0.64272 0 0 0 0.99035 1 5980 5980 2.8892 0.58649 1 31918 3202 20301 20368 35943 35943 0.08408430079714435 TAIMEKHSM 9 Unmodified _TAIMEKHSM_ 0 0 0 nc|ENSG00000133121|Q9Y3M8-3|STARD13;nc|ENSG00000133121|Q9Y3M8-4|STARD13;nc|ENSG00000133121|Q9Y3M8-2|STARD13;ENSG00000133121|ENST00000336934|STARD13;nc|ENSG00000133121|Q9Y3M8-5|STARD13 nc|ENSG00000133121|Q9Y3M8-3|STARD13 nc|ENSG00000133121|Q9Y3M8-3|STARD13 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 349.53485107421875 3 349.836905 1046.48889 2.2937 0.00080242 -0.87921 -0.00030758 1.4145 0.00049485 349.83596362585627 14.254 0.084858 14.561 14.527 14.612 0.3069 6 4 2 0 0 0 0.05668 1 6457 6457 32.037 25.846 1 893250 31919 2752 20302 20369 35944 35944 -0.03249836060240341 TAIRHHVL 8 Unmodified _TAIRHHVL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 316.1915283203125 3 316.190888 945.550834 2.2256 0.00070371 -0.091222 -2.8844E-05 2.1344 0.00067486 316.1908590661908 12.446 0.089696 12.446 12.418 12.508 0 23 10 3 0 0 0 0.03983 1 5404 5404 69.105 38.468 1 20163000 31920 1384 20303 20370 35945 35945 0.07588019465413254 TAIRHHVL 8 Unmodified _TAIRHHVL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.7843322753906 2 473.782693 945.550834 3.0535 0.0014467 0.2401 0.00011375 3.2936 0.0015605 473.7828217502132 12.445 0.043758 12.445 12.423 12.467 0 13 6 3 0 0 0 0.0089809 1 5407 5407 115.69 58.221 1 5184200 31921 1384 20303 20370 35946 35946 0.07588019465413254 TAIRHHVL 8 Unmodified _TAIRHHVL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 316.1912841796875 3 316.190888 945.550834 1.7399 0.00055013 -0.17201 -5.4389E-05 1.5678 0.00049574 316.1908139809687 12.36 0.046206 12.621 12.599 12.646 0.26154 13 5 3 0 0 0 0.029216 1 5327 5327 78.728 48.092 1 22681000 31922 1384 20303 20370 35947 35947 0.07588019465413254 TAIRHHVL 8 Unmodified _TAIRHHVL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.783447265625 2 473.782693 945.550834 2.3853 0.0011301 0.052365 2.481E-05 2.4377 0.0011549 473.782506164912 12.36 0.038373 12.621 12.599 12.638 0.26154 8 4 2 0 0 0 0.025316 1 5331 5331 96.285 50.264 1 8561900 31923 1384 20303 20370 35948 35948 0.07588019465413254 TAIRHHVL 8 Unmodified _TAIRHHVL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 316.1915283203125 3 316.190888 945.550834 1.4921 0.0004718 0.036519 1.1547E-05 1.5287 0.00048335 316.1908995944431 12.359 0.09374 12.667 12.64 12.733 0.30727 20 8 4 0 0 0 0.03983 1 5551 5551 69.105 38.468 1 59789000 31924 1384 20303 20370 35949 35949 0.07588019465413254 TAIRHHVL 8 Unmodified _TAIRHHVL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.7833557128906 2 473.782693 945.550834 2.1749 0.0010304 0.34677 0.00016429 2.5217 0.0011947 473.7827178415493 12.351 0.051534 12.658 12.64 12.691 0.30727 11 5 3 0 0 0 0.009934 1 5558 5558 115.69 58.221 1 11122000 31925 1384 20303 20370 35950 35950 0.07588019465413254 TAIRHHVL 8 Unmodified _TAIRHHVL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 316.1915588378906 3 316.190888 945.550834 2.5101 0.00079368 -0.082071 -2.595E-05 2.4281 0.00076773 316.1908617438001 12.343 0.053151 12.98 12.961 13.014 0.63746 11 4 3 0 0 0 0.029216 1 5515 5515 78.728 40.754 1 48429000 31926 1384 20303 20370 35951 35951 0.07588019465413254 TAIRHHVL 8 Unmodified _TAIRHHVL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.78387451171875 2 473.782693 945.550834 3.4054 0.0016134 -0.26118 -0.00012374 3.1442 0.0014897 473.7824919341587 12.343 0.053151 12.98 12.961 13.014 0.63746 10 4 3 0 0 0 0.017884 1 5516 5516 103.75 63.509 1 23069000 31927 1384 20303 20370 35952 35952 0.07588019465413254 TAISLFYEL 9 Unmodified _TAISLFYEL_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.78564453125 2 528.784233 1055.55391 3.9901 0.0021099 0.58964 0.00031179 4.5798 0.0024217 528.784162415913 95.959 0.43704 96.226 96.017 96.454 0.2675 48 22 3 0 0 0 0.015468 3 44098 44049;44098;44148 74.423 38.379 1 1444700 31928 4569 20304 20371 35953;35954;35955 35954 0.0283580500890821 TAISLFYEL 9 Unmodified _TAISLFYEL_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1056.5665283203125 1 1056.56119 1055.55391 4.0541 0.0042834 0.50702 0.0005357 4.5611 0.0048191 1056.5624190034462 95.925 0.13367 96.193 96.115 96.248 0.2675 11 7 2 0 0 0 0.22507 1 44080 44080 21.747 6.9084 1 371910 31929 4569 20304 20371 35956 35956 0.0283580500890821 TAISLFYEL 9 Unmodified _TAISLFYEL_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1056.9644775390625 1 1056.56119 1055.55391 3.6926 0.0039015 1.5512 0.001639 5.2439 0.0055405 1056.562320783658 95.299 0.24133 95.916 95.793 96.035 0.61736 18 11 2 0 0 0 0.14729 2 43773 43773;43810 26.884 11.036 1 516090 31930 4569 20304 20371 35957;35958 35957 0.0283580500890821 TAISLFYEL 9 Unmodified _TAISLFYEL_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.7862548828125 2 528.784233 1055.55391 3.4789 0.0018396 0.60414 0.00031946 4.0831 0.0021591 528.7842290321671 95.316 0.60346 95.934 95.729 96.332 0.61736 55 31 3 0 0 0 0.015468 2 43828 43828;43891 74.423 38.379 1 1135500 31931 4569 20304 20371 35959;35960 35959 0.0283580500890821 TAITRAQSL 9 Unmodified _TAITRAQSL_ 0 0 0 nc|ENSG00000198265|P42694-2|HELZ;ENSG00000198265|ENST00000358691|HELZ nc|ENSG00000198265|P42694-2|HELZ nc|ENSG00000198265|P42694-2|HELZ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.7791748046875 2 480.777274 959.539994 NaN NaN NaN NaN NaN NaN NaN 25.543 1 25.811 25.311 26.311 0.26777 0 0 0 0.043516 1 11594 11594 55.503 11.73 1 31932 5879 20305 20372 35961 35961 0.058605723004689025 TAKEKLLL 8 Unmodified _TAKEKLLL_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.8683776855469 3 305.867299 914.580068 2.5328 0.00077471 0.069251 2.1182E-05 2.6021 0.00079589 305.8673177357017 30.323 0.24093 30.581 30.461 30.702 0.25804 22 12 2 0 0 0 0.14092 1 13791 13791 4.5289 0.93237 1 598470 31933 5155 20306 20373 35962 35962 0.1193611897106166 TAKFKIQV 8 Unmodified _TAKFKIQV_ 0 0 0 ENSG00000184575|ENST00000332707|XPOT ENSG00000184575|ENST00000332707|XPOT ENSG00000184575|ENST00000332707|XPOT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 467.7911071777344 2 467.789653 933.564752 2.7538 0.0012882 0.56047 0.00026218 3.3143 0.0015504 467.7899816815533 35.432 0.23969 35.687 35.537 35.777 0.25524 13 7 2 0 0 0 0.03983 1 16143 16143 69.105 32.978 1 307220 31934 5451 20307 20374 35963 35963 0.09531252173860594 TAKFKIQV 8 Unmodified _TAKFKIQV_ 0 0 0 ENSG00000184575|ENST00000332707|XPOT ENSG00000184575|ENST00000332707|XPOT ENSG00000184575|ENST00000332707|XPOT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.7913818359375 2 467.789653 933.564752 NaN NaN NaN NaN NaN NaN NaN 35.081 1 35.704 35.204 36.204 0.62294 0 0 0 0.27034 1 16076 16076 37.974 19.839 1 31935 5451 20307 20374 35964 35964 0.09531252173860594 TAKGKPVL 8 Unmodified _TAKGKPVL_ 0 0 0 nc|ENSG00000149313|Q9NRN7-2|AASDHPPT;ENSG00000149313|ENST00000278618|AASDHPPT nc|ENSG00000149313|Q9NRN7-2|AASDHPPT nc|ENSG00000149313|Q9NRN7-2|AASDHPPT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.2641296386719 2 407.263271 812.511988 2.1979 0.0008951 0.0097687 3.9784E-06 2.2076 0.00089908 407.26335641152525 12.433 0.065393 12.74 12.705 12.77 0.30727 6 3 2 0 0 0 0.11358 1 5614 5614 52.268 27.594 1 1989000 31936 3640 20308 20375 35965 35965 0.09823294111038194 TAKGKPVL 8 Unmodified _TAKGKPVL_ 0 0 0 nc|ENSG00000149313|Q9NRN7-2|AASDHPPT;ENSG00000149313|ENST00000278618|AASDHPPT nc|ENSG00000149313|Q9NRN7-2|AASDHPPT nc|ENSG00000149313|Q9NRN7-2|AASDHPPT MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 407.263271 812.511988 2.8377 0.0011557 0.5151 0.00020978 3.3528 0.0013655 407.2635714189851 12.574 0.052283 12.574 12.542 12.594 0 -0.21517 0.00022895 NaN 52.268 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 637370 31937 3640 20308 20375 0.09823294111038194 TAKGKPVL 8 Unmodified _TAKGKPVL_ 0 0 0 nc|ENSG00000149313|Q9NRN7-2|AASDHPPT;ENSG00000149313|ENST00000278618|AASDHPPT nc|ENSG00000149313|Q9NRN7-2|AASDHPPT nc|ENSG00000149313|Q9NRN7-2|AASDHPPT MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 407.263271 812.511988 3.3161 0.0013505 0.0084843 3.4554E-06 3.3246 0.001354 407.26324203658186 12.411 0.072753 13.054 13.02 13.092 0.64272 0.26436 -0.0001837 NaN 52.268 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 3986600 31938 3640 20308 20375 0.09823294111038194 TAKIRPFAV 9 Unmodified _TAKIRPFAV_ 0 0 0 nc|ENSG00000116120|Q9NSD9-2|FARSB;ENSG00000116120|ENST00000281828|FARSB nc|ENSG00000116120|Q9NSD9-2|FARSB nc|ENSG00000116120|Q9NSD9-2|FARSB MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.2256164550781 2 501.808377 1001.6022 3.3022 0.0016571 -0.27128 -0.00013613 3.0309 0.0015209 501.80864700477207 35.366 0.12693 35.992 35.938 36.065 0.62631 6 3 2 0 0 0 0.092818 1 16207 16207 10.824 6.4947 1 127050 31939 2013 20309 20376 35966 35966 0.10146343439464545 TAKKKVLF 8 Unmodified _TAKKKVLF_ 0 0 0 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 312.20867919921875 3 312.207656 933.601138 1.8851 0.00058855 0.26894 8.3964E-05 2.1541 0.00067252 312.2077395985325 13.699 0.11893 14.007 13.952 14.07 0.30727 13 11 2 0 0 0 0.72385 1 6196 6196 3.9444 0.3479 1 642530 31940 2211 20310 20377 35967 35967 0.13168129070561463 TAKKKVLF 8 Unmodified _TAKKKVLF_ 0 0 0 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 ENSG00000120725|ENST00000394817|SIL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.80938720703125 2 467.807845 933.601138 NaN NaN NaN NaN NaN NaN NaN 13.304 1 13.947 13.447 14.447 0.64272 0 0 0 0.87555 1 5974 5974 12.532 3.9383 1 31941 2211 20310 20377 35968 35968 0.13168129070561463 TAKRFEEPTA 10 Unmodified _TAKRFEEPTA_ 0 0 0 REV__ENSG00000266826|ENST00000583666|IGBP1C REV__ENSG00000266826|ENST00000583666|IGBP1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.3004150390625 2 575.29857 1148.58259 3.4489 0.0019842 -0.35644 -0.00020506 3.0925 0.0017791 575.298408279549 36.992 0.26142 37.25 37.152 37.413 0.25768 11 7 2 0 0 0 0.83621 1 16879 16879 6.7232 0 1 231540 + 31942 14710 20311 20378 35969 35969 0.014239226380595937 TAKRFEEPTA 10 Unmodified _TAKRFEEPTA_ 0 0 0 REV__ENSG00000266826|ENST00000583666|IGBP1C REV__ENSG00000266826|ENST00000583666|IGBP1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.3005981445312 2 575.29857 1148.58259 3.8065 0.0021899 -1.3502 -0.00077676 2.4563 0.0014131 575.29796558566 36.283 0.25331 36.909 36.82 37.073 0.62631 12 7 2 0 0 0 0.83621 1 16677 16677 6.7232 0 1 298190 + 31943 14710 20311 20378 35970 35970 0.014239226380595937 TAKRFEEPTA 10 Unmodified _TAKRFEEPTA_ 0 0 0 REV__ENSG00000266826|ENST00000583666|IGBP1C REV__ENSG00000266826|ENST00000583666|IGBP1C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 575.29857 1148.58259 3.4489 0.0019842 -0.35644 -0.00020506 3.0925 0.0017791 575.298408279549 36.992 0.26142 37.25 37.152 37.413 0.25768 0.17043 0.00077295 NaN 6.7232 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 231540 + 31944 14710 20311 20378 0.014239226380595937 TAKRFEEPTA 10 Unmodified _TAKRFEEPTA_ 0 0 0 REV__ENSG00000266826|ENST00000583666|IGBP1C REV__ENSG00000266826|ENST00000583666|IGBP1C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 575.29857 1148.58259 3.8065 0.0021899 -1.3502 -0.00077676 2.4563 0.0014131 575.29796558566 36.283 0.25331 36.909 36.82 37.073 0.62631 -0.17043 -0.00037045 NaN 6.7232 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 298190 + 31945 14710 20311 20378 0.014239226380595937 TAKRKKKG 8 Unmodified _TAKRKKKG_ 0 0 0 TIMELESS|p.E974Kfs*31|1|0.04|ENSG00000111602|chr12:56421083-56421084|-/ATTTCCTTAGGCTT|frameshift_variant TIMELESS|p.E974Kfs*31|1|0.04|ENSG00000111602|chr12:56421083-56421084|-/ATTTCCTTAGGCTT|frameshift_variant TIMELESS|p.E974Kfs*31|1|0.04|ENSG00000111602|chr12:56421083-56421084|-/ATTTCCTTAGGCTT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 306.199951171875 3 306.206538 915.597784 NaN NaN NaN NaN NaN NaN NaN 41.649 1 41.919 41.419 42.419 0.27021 0 0 0 0.99035 1 18976 18976 0 0 1 31946 18276 20312 20379 35971 35971 0.1366087901657238 TAKRKRMK 8 Unmodified _TAKRKRMK_ 0 0 0 ENSG00000177138|ENST00000327220|FAM9B ENSG00000177138|ENST00000327220|FAM9B ENSG00000177138|ENST00000327220|FAM9B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 340.2214660644531 3 340.214927 1017.62295 NaN NaN NaN NaN NaN NaN NaN 60.788 1 61.45 60.95 61.95 0.66261 0 0 0 0.99035 1 27833 27833 1.4819 0 1 31947 5106 20313 20380 35972 35972 0.11484610547483953 TAKTRALVL 9 Unmodified _TAKTRALVL_ 0 0 0 TBC1D9B|p.S776Afs*2|1|0.22|ENSG00000197226|chr5:179872981-179872981|T/-|frameshift_variant;TBC1D9B|p.E1063Rfs*146|1|0.53|ENSG00000197226|chr5:179864015-179864015|T/-|frameshift_variant;ENSG00000197226|ENST00000355235|TBC1D9B;nc|ENSG00000197226|Q66K14|TBC1D9B TBC1D9B|p.S776Afs*2|1|0.22|ENSG00000197226|chr5:179872981-179872981|T/-|frameshift_variant TBC1D9B|p.S776Afs*2|1|0.22|ENSG00000197226|chr5:179872981-179872981|T/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.8665771484375 3 324.878198 971.612765 2.0999 0.00068221 -0.63162 -0.0002052 1.4683 0.00047701 324.87775306225444 26.421 0.15236 27.046 26.959 27.111 0.62505 13 8 2 0 0 0 0.11335 1 12093 12093 2.086 0.89267 1 123750 31948 5801 20314 20381 35973 35973 0.12582326093888696 TALFVEHVL 9 Unmodified _TALFVEHVL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559603.1_1_17:78337492-78338684:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.7946166992188 2 514.792392 1027.57023 3.6234 0.0018653 -0.24123 -0.00012418 3.3822 0.0017411 514.7922065304098 66.707 0.36343 66.957 66.785 67.148 0.25011 58 18 4 0 0 0 9.3403E-09 3 30582 30527;30582;30627 156.16 63.334 1 7356600 31949 4953 20315 20382 35974;35975;35976 35975 0.057549309656678815 TALFVEHVL 9 Unmodified _TALFVEHVL_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559603.1_1_17:78337492-78338684:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.7938232421875 2 514.792392 1027.57023 3.5052 0.0018045 -0.0019235 -9.9018E-07 3.5033 0.0018035 514.7923415634993 66.087 0.38412 66.744 66.564 66.948 0.65672 75 23 4 0 0 0 0.00033079 3 30293 30245;30293;30342 133.7 76.231 1 8493000 31950 4953 20315 20382 35977;35978;35979 35978 0.057549309656678815 TALGWKRR 8 Unmodified _TALGWKRR_ 0 0 0 REV__ENST00000506004.5_1_5:141349137-141349176:+|nuORF REV__ENST00000506004.5_1_5:141349137-141349176:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.7657775878906 2 494.295968 986.577383 3.1303 0.0015473 -0.94582 -0.00046751 2.1845 0.0010798 494.2954933219776 28.524 0.22042 28.784 28.654 28.874 0.2602 20 13 2 0 0 0 0.14267 1 13013 13013 2.5775 0 1 466840 + 31951 16928 20316 20383 35980 35980 0.08355708356748437 TALHSKPEI 9 Unmodified _TALHSKPEI_ 0 0 0 nc|ENSG00000142731|O00444-2|PLK4;nc|ENSG00000142731|O00444-3|PLK4;ENSG00000142731|ENST00000270861|PLK4 nc|ENSG00000142731|O00444-2|PLK4 nc|ENSG00000142731|O00444-2|PLK4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.76824951171875 2 498.279649 994.544745 3.3011 0.0016449 1.1027 0.00054944 4.4038 0.0021943 498.27973780951953 46.682 0.21141 47.334 47.258 47.469 0.65219 9 6 2 0 0 0 0.096132 1 21358 21358 14.838 0 1 228280 31952 9675 20317 20384 35981 35981 0.04725456443236453 TALHSKPEI 9 Unmodified _TALHSKPEI_ 0 0 0 nc|ENSG00000142731|O00444-2|PLK4;nc|ENSG00000142731|O00444-3|PLK4;ENSG00000142731|ENST00000270861|PLK4 nc|ENSG00000142731|O00444-2|PLK4 nc|ENSG00000142731|O00444-2|PLK4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 498.279649 994.544745 2.976 0.0014829 0.79682 0.00039704 3.7728 0.0018799 498.2799899800824 46.479 0.1095 47.308 47.22 47.33 0.82915 -0.012891 -8.9555E-05 NaN 14.838 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 612130 31953 9675 20317 20384 0.04725456443236453 TALKKLKSL 9 Unmodified _TALKKLKSL_ 0 0 0 nc|ENSG00000110422|Q9H422-2|HIPK3;ENSG00000110422|ENST00000303296|HIPK3 nc|ENSG00000110422|Q9H422-2|HIPK3 nc|ENSG00000110422|Q9H422-2|HIPK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.5627136230469 3 334.562099 1000.66447 NaN NaN NaN NaN NaN NaN NaN 18.358 1 18.358 17.858 18.858 0 0 0 0 0.57496 1 8156 8156 16.566 9.4642 1 31954 1713 20318 20385 35982 35982 0.1641606978779464 TALKKLKSL 9 Unmodified _TALKKLKSL_ 0 0 0 nc|ENSG00000110422|Q9H422-2|HIPK3;ENSG00000110422|ENST00000303296|HIPK3 nc|ENSG00000110422|Q9H422-2|HIPK3 nc|ENSG00000110422|Q9H422-2|HIPK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.56268310546875 3 334.562099 1000.66447 2.2045 0.00073755 0.41018 0.00013723 2.6147 0.00087478 334.5622265859202 15.735 0.96622 16.041 15.691 16.657 0.306 178 115 2 0 0 0 1.0081 1 7206 7206 3.8763 1.97 1 91757 31955 1713 20318 20385 35983 35983 0.1641606978779464 TALKKYVL 8 Unmodified _TALKKYVL_ 0 0 0 nc|ENSG00000127483|Q5SSJ5-3|HP1BP3;nc|ENSG00000127483|Q5SSJ5-2|HP1BP3;ENSG00000127483|ENST00000438032|HP1BP3 nc|ENSG00000127483|Q5SSJ5-3|HP1BP3 nc|ENSG00000127483|Q5SSJ5-3|HP1BP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.3010559082031 2 468.299853 934.585153 3.1627 0.0014811 0.76009 0.00035595 3.9228 0.0018371 468.3000975621022 30.438 0.32495 30.695 30.534 30.859 0.25743 32 16 3 0 0 0 0.051348 2 13826 13826;13871 65.235 38.351 1 713130 31956 2482 20319 20386 35984;35985 35984 0.11524422833656445 TALKKYVL 8 Unmodified _TALKKYVL_ 0 0 0 nc|ENSG00000127483|Q5SSJ5-3|HP1BP3;nc|ENSG00000127483|Q5SSJ5-2|HP1BP3;ENSG00000127483|ENST00000438032|HP1BP3 nc|ENSG00000127483|Q5SSJ5-3|HP1BP3 nc|ENSG00000127483|Q5SSJ5-3|HP1BP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 468.3009948730469 2 468.299853 934.585153 2.9071 0.0013614 0.59859 0.00028032 3.5057 0.0016417 468.30009963311323 30.115 0.21277 30.732 30.638 30.851 0.61737 27 14 2 0 0 0 0.078308 2 13798 13798;13855 56.177 29.293 1 834790 31957 2482 20319 20386 35986;35987 35986 0.11524422833656445 TALKRARG 8 Unmodified _TALKRARG_ 0 0 0 REV__nc|ENSG00000085276|Q03112-8|MECOM REV__nc|ENSG00000085276|Q03112-8|MECOM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 436.7761535644531 2 436.774868 871.535184 3.2126 0.0014032 -0.18692 -8.1643E-05 3.0256 0.0013215 436.77479870886816 85.464 0.60432 86.13 85.839 86.443 0.66566 108 28 5 0 0 0 0.7471 1 39369 39369 0.69038 0 1 61758000 + 31958 10644 20320 20387 35988 35988 0.09427732948370249 TALPLLRQS 9 Unmodified _TALPLLRQS_ 0 0 0 REV__nc|ENSG00000264522|Q6GQQ9-2|OTUD7B REV__nc|ENSG00000264522|Q6GQQ9-2|OTUD7B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.79595947265625 2 499.803291 997.59203 3.533 0.0017658 -0.40414 -0.00020199 3.1289 0.0015638 499.8030928306428 12.618 0.13484 13.261 13.176 13.311 0.64272 5 3 2 0 0 0 0.46674 1 5657 5657 13.042 0.80181 1 1973800 + 31959 14703 20321 20388 35989 35989 0.09313735714238192 TALPLLRQS 9 Unmodified _TALPLLRQS_ 0 0 0 REV__nc|ENSG00000264522|Q6GQQ9-2|OTUD7B REV__nc|ENSG00000264522|Q6GQQ9-2|OTUD7B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 499.803291 997.59203 2.5386 0.0012688 0.21867 0.00010929 2.7572 0.0013781 499.80361918854254 12.733 0.15566 13.04 12.936 13.091 0.30727 -0.11008 0.0001387 NaN 13.042 8 4 2 NaN NaN NaN NaN 0 NaN NaN 0 737470 + 31960 14703 20321 20388 0.09313735714238192 TALPLLRQS 9 Unmodified _TALPLLRQS_ 0 0 0 REV__nc|ENSG00000264522|Q6GQQ9-2|OTUD7B REV__nc|ENSG00000264522|Q6GQQ9-2|OTUD7B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 499.803291 997.59203 3.533 0.0017658 -0.40414 -0.00020199 3.1289 0.0015638 499.8030928306428 12.618 0.13484 13.261 13.176 13.311 0.64272 0.11008 -0.00048387 NaN 13.042 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1973800 + 31961 14703 20321 20388 0.09313735714238192 TALPRIFSL 9 Unmodified _TALPRIFSL_ 0 0 0 ENSG00000168394|ENST00000354258|TAP1;nc|ENSG00000168394|Q03518-2|TAP1 ENSG00000168394|ENST00000354258|TAP1 ENSG00000168394|ENST00000354258|TAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.3102111816406 2 509.30821 1016.60187 3.1476 0.0016031 -0.36131 -0.00018402 2.7863 0.0014191 509.30809630113936 76.956 0.46927 77.211 76.932 77.402 0.25533 90 38 3 0 0 0 0.012813 4 35440 35345;35398;35440;35489 78.06 25.792 1 2617100 31962 4624 20322 20389 35990;35991;35992;35993 35992 0.09422923719591836 TALPRIFSL 9 Unmodified _TALPRIFSL_ 0 0 0 ENSG00000168394|ENST00000354258|TAP1;nc|ENSG00000168394|Q03518-2|TAP1 ENSG00000168394|ENST00000354258|TAP1 ENSG00000168394|ENST00000354258|TAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.309326171875 2 509.30821 1016.60187 3.0056 0.0015308 -0.81158 -0.00041334 2.194 0.0011174 509.30795654748755 76.494 0.48047 77.158 76.853 77.334 0.66387 83 34 3 0 0 0 0.012813 3 35258 35172;35217;35258 78.06 25.792 1 2219000 31963 4624 20322 20389 35994;35995;35996 35996 0.09422923719591836 TALRKVLSL 9 Unmodified _TALRKVLSL_ 0 0 0 ENSG00000076928|ENST00000354532|ARHGEF1;nc|ENSG00000076928|Q92888-3|ARHGEF1;ENST00000600274.5_1_19:42396347-42410935:+|nuORF;nc|ENSG00000076928|Q92888-2|ARHGEF1 ENSG00000076928|ENST00000354532|ARHGEF1 ENSG00000076928|ENST00000354532|ARHGEF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.831298828125 2 500.829309 999.644065 3.1543 0.0015798 0.0061674 3.0888E-06 3.1605 0.0015829 500.82943922818725 43.402 0.20568 43.672 43.615 43.821 0.27021 13 8 2 0 0 0 0.15661 1 19828 19828 26.268 11.43 1 319740 31964 852 20323 20390 35997 35997 0.1442289912798742 TALWITRIP 9 Unmodified _TALWITRIP_ 0 0 0 nc|ENSG00000104972|Q8NHL6-5|LILRB1;nc|ENSG00000104972|Q8NHL6|LILRB1;nc|ENSG00000104972|Q8NHL6-4|LILRB1;nc|ENSG00000104972|Q8NHL6-2|LILRB1;nc|ENSG00000104972|Q8NHL6-3|LILRB1 nc|ENSG00000104972|Q8NHL6-5|LILRB1 nc|ENSG00000104972|Q8NHL6-5|LILRB1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.2153625488281 3 357.550082 1069.62842 2.6529 0.00094855 1.0175 0.00036381 3.6704 0.0013124 357.5505529221393 50.558 0.29604 50.558 50.312 50.608 0 22 12 2 0 0 0 0.11293 1 23156 23156 2.4985 0.90621 1 403060 31965 9584 20324 20391 35998 35998 0.09638612610933706 TAMCVCCPCCT 11 Unmodified _TAMCVCCPCCT_ 0 0 0 nc|ENSG00000155890|Q8IWZ5-2|TRIM42;ENSG00000155890|ENST00000286349|TRIM42 nc|ENSG00000155890|Q8IWZ5-2|TRIM42 nc|ENSG00000155890|Q8IWZ5-2|TRIM42 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.20166015625 2 567.682587 1133.35062 3.0064 0.0017067 -0.78381 -0.00044495 2.2226 0.0012617 568.1823294025721 62.647 0.033073 63.378 63.358 63.391 0.73077 6 4 2 0 0 0 0.13295 1 29238 29238 0.26902 0 1 4546600 31966 3881 20325 20392 35999 35999 -0.21072109958549845 TAMDVVYAL 9 Unmodified _TAMDVVYAL_ 0 0 0 ENSG00000278705|ENST00000377745|H4C2;ENSG00000278637|ENST00000617569|H4C1;ENSG00000277157|ENST00000614247|H4C4;ENSG00000276966|ENST00000615164|H4C5;ENSG00000276180|ENST00000615353|H4C9;ENSG00000275126|ENST00000618305|H4C13;ENSG00000274618|ENST00000244537|H4C6;ENSG00000273542|ENST00000611927|H4C12;ENSG00000270882|ENST00000578186|H4C14;ENSG00000270276|ENST00000579512|H4C15;ENSG00000197837|ENST00000539745|H4C16;ENSG00000197238|ENST00000355057|H4C11;ENSG00000197061|ENST00000377803|H4C3;ENSG00000158406|ENST00000377727|H4C8 ENSG00000278705|ENST00000377745|H4C2 ENSG00000278705|ENST00000377745|H4C2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.7502136230469 2 491.749336 981.484119 2.5424 0.0012502 -0.25094 -0.0001234 2.2915 0.0011268 491.7494411599576 77.631 0.3731 77.631 77.408 77.781 0 60 26 3 0 0 0 0.018173 3 38106 38031;38056;38106 70.716 30.758 1 2135700 31967 3984 20326 20393 36000;36001;36002 36002 -0.007363969313587404 TAMDVVYAL 9 Unmodified _TAMDVVYAL_ 0 0 0 ENSG00000278705|ENST00000377745|H4C2;ENSG00000278637|ENST00000617569|H4C1;ENSG00000277157|ENST00000614247|H4C4;ENSG00000276966|ENST00000615164|H4C5;ENSG00000276180|ENST00000615353|H4C9;ENSG00000275126|ENST00000618305|H4C13;ENSG00000274618|ENST00000244537|H4C6;ENSG00000273542|ENST00000611927|H4C12;ENSG00000270882|ENST00000578186|H4C14;ENSG00000270276|ENST00000579512|H4C15;ENSG00000197837|ENST00000539745|H4C16;ENSG00000197238|ENST00000355057|H4C11;ENSG00000197061|ENST00000377803|H4C3;ENSG00000158406|ENST00000377727|H4C8 ENSG00000278705|ENST00000377745|H4C2 ENSG00000278705|ENST00000377745|H4C2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.7508239746094 2 491.749336 981.484119 2.6205 0.0012886 0.068198 3.3536E-05 2.6887 0.0013222 491.7493228394614 76.695 0.41797 77.319 77.132 77.55 0.62398 46 26 2 0 0 0 0.012869 2 37159 37159;37207 77.984 38.027 1 1525500 31968 3984 20326 20393 36003;36004 36003 -0.007363969313587404 TAMDVVYAL 9 Unmodified _TAMDVVYAL_ 0 0 0 ENSG00000278705|ENST00000377745|H4C2;ENSG00000278637|ENST00000617569|H4C1;ENSG00000277157|ENST00000614247|H4C4;ENSG00000276966|ENST00000615164|H4C5;ENSG00000276180|ENST00000615353|H4C9;ENSG00000275126|ENST00000618305|H4C13;ENSG00000274618|ENST00000244537|H4C6;ENSG00000273542|ENST00000611927|H4C12;ENSG00000270882|ENST00000578186|H4C14;ENSG00000270276|ENST00000579512|H4C15;ENSG00000197837|ENST00000539745|H4C16;ENSG00000197238|ENST00000355057|H4C11;ENSG00000197061|ENST00000377803|H4C3;ENSG00000158406|ENST00000377727|H4C8 ENSG00000278705|ENST00000377745|H4C2 ENSG00000278705|ENST00000377745|H4C2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.75091552734375 2 491.749336 981.484119 3.032 0.001491 -0.19415 -9.5474E-05 2.8379 0.0013955 491.74941289019523 77.222 0.39693 77.478 77.313 77.71 0.25533 72 28 3 0 0 0 0.012869 3 35572 35523;35572;35635 77.984 38.027 1 2815700 31969 3984 20326 20393 36005;36006;36007 36006 -0.007363969313587404 TAMDVVYAL 9 Unmodified _TAMDVVYAL_ 0 0 0 ENSG00000278705|ENST00000377745|H4C2;ENSG00000278637|ENST00000617569|H4C1;ENSG00000277157|ENST00000614247|H4C4;ENSG00000276966|ENST00000615164|H4C5;ENSG00000276180|ENST00000615353|H4C9;ENSG00000275126|ENST00000618305|H4C13;ENSG00000274618|ENST00000244537|H4C6;ENSG00000273542|ENST00000611927|H4C12;ENSG00000270882|ENST00000578186|H4C14;ENSG00000270276|ENST00000579512|H4C15;ENSG00000197837|ENST00000539745|H4C16;ENSG00000197238|ENST00000355057|H4C11;ENSG00000197061|ENST00000377803|H4C3;ENSG00000158406|ENST00000377727|H4C8 ENSG00000278705|ENST00000377745|H4C2 ENSG00000278705|ENST00000377745|H4C2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 982.4947509765625 1 982.491395 981.484119 3.4482 0.0033879 -0.053218 -5.2286E-05 3.395 0.0033356 982.4907268190515 77.232 0.23472 77.487 77.402 77.636 0.25533 27 17 2 0 0 0 0.015468 2 35547 35547;35595 74.423 30.016 1 823570 31970 3984 20326 20393 36008;36009 36008 -0.007363969313587404 TAMDVVYAL 9 Unmodified _TAMDVVYAL_ 0 0 0 ENSG00000278705|ENST00000377745|H4C2;ENSG00000278637|ENST00000617569|H4C1;ENSG00000277157|ENST00000614247|H4C4;ENSG00000276966|ENST00000615164|H4C5;ENSG00000276180|ENST00000615353|H4C9;ENSG00000275126|ENST00000618305|H4C13;ENSG00000274618|ENST00000244537|H4C6;ENSG00000273542|ENST00000611927|H4C12;ENSG00000270882|ENST00000578186|H4C14;ENSG00000270276|ENST00000579512|H4C15;ENSG00000197837|ENST00000539745|H4C16;ENSG00000197238|ENST00000355057|H4C11;ENSG00000197061|ENST00000377803|H4C3;ENSG00000158406|ENST00000377727|H4C8 ENSG00000278705|ENST00000377745|H4C2 ENSG00000278705|ENST00000377745|H4C2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 982.4935913085938 1 982.491395 981.484119 3.4535 0.003393 -0.019175 -1.8839E-05 3.4343 0.0033742 982.491187927715 76.808 0.297 77.471 77.302 77.599 0.66303 44 24 2 0 0 0 0.041436 4 35357 35330;35357;35401;35451 50.855 20.577 1 862240 31971 3984 20326 20393 36010;36011;36012;36013 36011 -0.007363969313587404 TAMDVVYAL 9 Unmodified _TAMDVVYAL_ 0 0 0 ENSG00000278705|ENST00000377745|H4C2;ENSG00000278637|ENST00000617569|H4C1;ENSG00000277157|ENST00000614247|H4C4;ENSG00000276966|ENST00000615164|H4C5;ENSG00000276180|ENST00000615353|H4C9;ENSG00000275126|ENST00000618305|H4C13;ENSG00000274618|ENST00000244537|H4C6;ENSG00000273542|ENST00000611927|H4C12;ENSG00000270882|ENST00000578186|H4C14;ENSG00000270276|ENST00000579512|H4C15;ENSG00000197837|ENST00000539745|H4C16;ENSG00000197238|ENST00000355057|H4C11;ENSG00000197061|ENST00000377803|H4C3;ENSG00000158406|ENST00000377727|H4C8 ENSG00000278705|ENST00000377745|H4C2 ENSG00000278705|ENST00000377745|H4C2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7503662109375 2 491.749336 981.484119 2.929 0.0014403 -0.10759 -5.2908E-05 2.8214 0.0013874 491.7492618459738 76.788 0.3755 77.451 77.272 77.647 0.66303 72 30 3 0 0 0 0.020718 2 35364 35364;35415 67.344 27.387 1 2436700 31972 3984 20326 20393 36014;36015 36014 -0.007363969313587404 TAMFRRKAF 9 Unmodified _TAMFRRKAF_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;ENSG00000261456|ENST00000568584|TUBB8;ENSG00000173213|ENST00000308911|TUBB8B;ENST00000518096.1_1_8:30210219-30210855:+|nuORF;ENST00000290377.9_1_9:141071128-141071713:+|nuORF;ENST00000415481.1_1_1:809210-809726:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.5438232421875 3 376.542933 1126.60697 2.8438 0.0010708 -0.056419 -2.1244E-05 2.7874 0.0010496 376.54282974786526 19.444 0.1453 20.103 20.02 20.165 0.6583 18 9 3 0 0 0 0.086747 1 8815 8815 26.268 10.73 1 335090 31973 5660;6301;1452 20327 20394 36016 36016 0.04872904310582271 TAMKKGETL 9 Unmodified _TAMKKGETL_ 0 0 0 ENSG00000165732|ENST00000354185|DDX21 ENSG00000165732|ENST00000354185|DDX21 ENSG00000165732|ENST00000354185|DDX21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 326.84832763671875 3 326.847799 977.521567 1.5872 0.00051878 -0.079185 -2.5881E-05 1.508 0.0004929 326.8477365728642 12.413 0.10261 12.72 12.691 12.794 0.30727 12 5 3 0 0 0 0.086415 1 5593 5593 27.223 8.8501 1 4520700 31974 4420 20328 20395 36017 36017 0.03190694334261934 TAMKKGETL 9 Unmodified _TAMKKGETL_ 0 0 0 ENSG00000165732|ENST00000354185|DDX21 ENSG00000165732|ENST00000354185|DDX21 ENSG00000165732|ENST00000354185|DDX21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.7686767578125 2 489.76806 977.521567 2.369 0.0011603 -1.0217 -0.00050039 1.3473 0.00065986 489.7675916005266 12.407 0.042206 12.715 12.691 12.733 0.30727 6 2 3 0 0 0 0.002702 1 5595 5595 96.936 43.103 1 3831200 31975 4420 20328 20395 36018 36018 0.03190694334261934 TAMKKGETL 9 Unmodified _TAMKKGETL_ 0 0 0 ENSG00000165732|ENST00000354185|DDX21 ENSG00000165732|ENST00000354185|DDX21 ENSG00000165732|ENST00000354185|DDX21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.7697448730469 2 489.76806 977.521567 3.5689 0.0017479 0.35997 0.0001763 3.9288 0.0019242 489.76804245429844 12.397 0.058697 13.035 13.003 13.062 0.63746 8 3 3 0 0 0 0.11155 1 5563 5563 29.841 7.1043 1 5950000 31976 4420 20328 20395 36019 36019 0.03190694334261934 TAMTKALAL 9 Unmodified _TAMTKALAL_ 0 0 0 ENSG00000087076|ENST00000263278|HSD17B14 ENSG00000087076|ENST00000263278|HSD17B14 ENSG00000087076|ENST00000263278|HSD17B14 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 460.6973571777344 2 460.267696 918.520839 2.9584 0.0013617 1.3453 0.00061922 4.3038 0.0019809 460.26862450069103 46.719 0.21574 47.371 47.287 47.503 0.65219 9 6 2 0 0 0 0.072475 1 21394 21394 13.042 0 1 208600 31977 993 20329 20396 36020 36020 0.0583189968519946 TANLEAQAL 9 Unmodified _TANLEAQAL_ 0 0 0 ENST00000586720.5_1_17:76967660-76975958:-|nuORF;ENST00000587251.5_1_17:76967660-76972124:-|nuORF;ENSG00000108679|ENST00000262776|LGALS3BP ENST00000586720.5_1_17:76967660-76975958:-|nuORF ENST00000586720.5_1_17:76967660-76975958:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.7496032714844 2 465.748182 929.481811 2.5787 0.001201 0.38378 0.00017875 2.9624 0.0013798 465.7485080270663 44.955 0.26852 45.223 45.12 45.389 0.26768 18 13 2 0 0 0 0.043585 1 20554 20554 49.933 15.831 1 470110 31978 1645 20330 20397 36021 36021 0.014248906551870277 TANNDHTVL 9 Unmodified _TANNDHTVL_ 0 0 0 nc|ENSG00000132466|O75179-5|ANKRD17;nc|ENSG00000132466|O75179-3|ANKRD17;nc|ENSG00000132466|O75179-4|ANKRD17;nc|ENSG00000132466|O75179-6|ANKRD17;nc|ENSG00000132466|O75179-7|ANKRD17;nc|ENSG00000132466|O75179-2|ANKRD17;ENSG00000132466|ENST00000358602|ANKRD17;ENST00000514252.1_1_4:73978989-74017230:-|nuORF nc|ENSG00000132466|O75179-5|ANKRD17 nc|ENSG00000132466|O75179-5|ANKRD17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.7428283691406 2 492.740888 983.467223 3.1897 0.0015717 0.52141 0.00025692 3.7111 0.0018286 492.7411077253237 20.549 0.32139 20.549 20.378 20.7 0 80 33 3 0 0 0 0.0029142 3 9185 9136;9185;9227 96.111 46.178 1 784960 31979 2703 20331 20398 36022;36023;36024 36023 -0.025171814929535685 TANNDHTVL 9 Unmodified _TANNDHTVL_ 0 0 0 nc|ENSG00000132466|O75179-5|ANKRD17;nc|ENSG00000132466|O75179-3|ANKRD17;nc|ENSG00000132466|O75179-4|ANKRD17;nc|ENSG00000132466|O75179-6|ANKRD17;nc|ENSG00000132466|O75179-7|ANKRD17;nc|ENSG00000132466|O75179-2|ANKRD17;ENSG00000132466|ENST00000358602|ANKRD17;ENST00000514252.1_1_4:73978989-74017230:-|nuORF nc|ENSG00000132466|O75179-5|ANKRD17 nc|ENSG00000132466|O75179-5|ANKRD17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.74273681640625 2 492.740888 983.467223 3.3759 0.0016634 0.13104 6.4567E-05 3.5069 0.001728 492.74097128789606 19.65 0.29438 20.308 20.165 20.46 0.6583 54 20 3 0 0 0 0.0017071 2 8934 8886;8934 107.19 25.297 1 1243500 31980 2703 20331 20398 36025;36026 36026 -0.025171814929535685 TANQDGRVIL 10 Unmodified _TANQDGRVIL_ 0 0 0 ENST00000539049.5_1_12:31242373-31253526:+|nuORF;ENST00000435753.6_1_12:31242373-31254792:+|nuORF;ENST00000536265.5_1_12:31242773-31256767:+|nuORF;nc|ENSG00000013573|Q96FC9-4|DDX11;nc|ENSG00000013573|Q96FC9-3|DDX11;ENSG00000013573|ENST00000542838|DDX11;nc|ENSG00000214826|Q92771|DDX12P;nc|ENSG00000013573|Q96FC9|DDX11;ENST00000542661.1_1_12:31249848-31255462:+|nuORF;ENST00000539757.1_1_12:9440801-9462940:+|nuORF;nc|ENSG00000256263|A8MPP1|DDX11L8 ENST00000539049.5_1_12:31242373-31253526:+|nuORF ENST00000539049.5_1_12:31242373-31253526:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.8013916015625 2 543.798737 1085.58292 NaN NaN NaN NaN NaN NaN NaN 33.218 1 33.839 33.339 34.339 0.62031 0 0 0 0.50917 1 15225 15225 29.841 11.694 1 31981 432 20332 20399 36027 36027 0.043553423578941874 TAPKAERLL 9 Unmodified _TAPKAERLL_ 0 0 0 ENSG00000120071|ENST00000432791|KANSL1;nc|ENSG00000120071|Q7Z3B3-2|KANSL1;ENST00000572218.5_2_17:44108844-44117263:-|nuORF ENSG00000120071|ENST00000432791|KANSL1 ENSG00000120071|ENST00000432791|KANSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.8059387207031 2 499.803291 997.59203 NaN NaN NaN NaN NaN NaN NaN 13.298 1 13.298 12.798 13.798 0 0 0 0 0.68339 1 5811 5811 13.042 1.4022 1 31982 2179 20333 20400 36028 36028 0.09313735714226823 TAPKPQAL 8 Unmodified _TAPKPQAL_ 0 0 0 ENST00000455784.6_1_22:19710257-19710719:+|nuORF ENST00000455784.6_1_22:19710257-19710719:+|nuORF ENST00000455784.6_1_22:19710257-19710719:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.24609375 2 413.245078 824.475603 2.794 0.0011546 0.44872 0.00018543 3.2427 0.00134 413.2451665360126 19.652 0.18392 19.944 19.85 20.033 0.29239 23 12 2 0 0 0 0.23254 1 8939 8939 40.449 0 1 351610 31983 8044 20334 20401 36029 36029 0.056344172143212745 TAPRIHFL 8 Unmodified _TAPRIHFL_ 0 0 0 REV__ENSG00000182871|ENST00000651438|COL18A1 REV__ENSG00000182871|ENST00000651438|COL18A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 477.7818603515625 2 477.779619 953.544686 3.3042 0.0015787 1.4309 0.00068365 4.7351 0.0022623 477.78018817747255 41.578 0.27314 41.848 41.716 41.989 0.27021 22 13 2 0 0 0 0.74071 2 18939 18939;18997 2.5775 0.27475 1 1028500 + 31984 13909 20335 20402 36030;36031 36030 0.06605501233900668 TAPVVVFH 8 Unmodified _TAPVVVFH_ 0 0 0 ENSG00000142185|ENST00000397928|TRPM2;nc|ENSG00000142185|O94759-2|TRPM2;nc|ENSG00000142185|O94759-3|TRPM2 ENSG00000142185|ENST00000397928|TRPM2 ENSG00000142185|ENST00000397928|TRPM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 435.24798583984375 2 435.247621 868.480688 2.7687 0.0012051 -0.73408 -0.00031951 2.0346 0.00088557 435.24722891460107 55.855 0.20598 55.855 55.793 55.999 0 23 15 2 0 0 0 0.73686 1 25729 25729 2.8892 0.58649 1 731890 31985 3298 20336 20403 36032 36032 0.0411872107695217 TAQGHVKL 8 Unmodified _TAQGHVKL_ 0 0 0 REV__ENSG00000011376|ENST00000645846|LARS2 REV__ENSG00000011376|ENST00000645846|LARS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 427.2491149902344 2 427.248152 852.481751 2.2024 0.00094099 0.54551 0.00023307 2.7479 0.0011741 427.2483196880987 12.645 0.11411 12.952 12.882 12.996 0.30727 5 3 2 0 0 0 0.70146 1 5722 5722 5.7604 0 1 1784000 + 31986 10236 20337 20404 36033 36033 0.04960935445865289 TAQREEWKM 9 Unmodified _TAQREEWKM_ 0 0 0 nc|ENSG00000138668|Q14103-3|HNRNPD;ENSG00000138668|ENST00000313899|HNRNPD nc|ENSG00000138668|Q14103-3|HNRNPD nc|ENSG00000138668|Q14103-3|HNRNPD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 393.5268859863281 3 393.525607 1177.55499 NaN NaN NaN NaN NaN NaN NaN 22.592 1 23.18 22.68 23.68 0.58739 0 0 0 0.40345 1 10052 10052 27.223 9.3601 1 31987 3110 20338 20405 36034 36034 -0.026683038938472237 TARKKKKK 8 Unmodified _TARKKKKK_ 0 0 0 ENST00000567998.5_1_16:28621482-28621938:-|nuORF ENST00000567998.5_1_16:28621482-28621938:-|nuORF ENST00000567998.5_1_16:28621482-28621938:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.344970703125 2 494.342918 986.671283 NaN NaN NaN NaN NaN NaN NaN 103.26 1 103.85 103.35 104.35 0.59821 0 0 0 0.99035 1 47770 47770 0 0 1 31988 9063 20339 20406 36035 36035 0.1774142745903191 TARKKKKKKK 10 Unmodified _TARKKKKKKK_ 0 0 0 ENST00000567998.5_1_16:28621482-28621938:-|nuORF ENST00000567998.5_1_16:28621482-28621938:-|nuORF ENST00000567998.5_1_16:28621482-28621938:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 622.4393920898438 2 622.437881 1242.86121 NaN NaN NaN NaN NaN NaN NaN 50.615 1 50.615 50.115 51.115 0 0 0 0 1.002 1 23172 23172 0 0 1 31989 9063 20340 20407 36036 36036 0.24949294401403677 TARKKSTG 8 Unmodified _TARKKSTG_ 0 0 0 REV__ENST00000554879.5_1_14:71374480-71476401:+|nuORF;REV__nc|ENSG00000100731|Q96RV3-4|PCNX1 REV__nc|ENSG00000100731|Q96RV3-4|PCNX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 424.7510986328125 2 424.751059 847.487565 3.0812 0.0013087 -0.75904 -0.0003224 2.3221 0.00098633 424.75060121679024 32.937 0.28584 33.191 33.032 33.318 0.25389 25 11 3 0 0 0 0.7441 2 14968 14968;15029 2.3027 0 1 915840 + 31990 17315;10845 20341 20408 36037;36038 36037 0.057720339575212165 TARKKSTG 8 Unmodified _TARKKSTG_ 0 0 0 REV__ENST00000554879.5_1_14:71374480-71476401:+|nuORF;REV__nc|ENSG00000100731|Q96RV3-4|PCNX1 REV__nc|ENSG00000100731|Q96RV3-4|PCNX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 424.7522277832031 2 424.751059 847.487565 2.976 0.001264 -1.0855 -0.00046105 1.8905 0.00080299 424.75043767531054 28.45 0.27068 29.07 28.948 29.219 0.61947 23 15 2 0 0 0 0.7471 1 13031 13031 0.6015 0 1 169670 + 31991 17315;10845 20341 20408 36039 36039 0.057720339575212165 TARKKSTG 8 Unmodified _TARKKSTG_ 0 0 0 REV__ENST00000554879.5_1_14:71374480-71476401:+|nuORF;REV__nc|ENSG00000100731|Q96RV3-4|PCNX1 REV__nc|ENSG00000100731|Q96RV3-4|PCNX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 424.751708984375 2 424.751059 847.487565 2.958 0.0012564 -1.04 -0.00044174 1.918 0.00081468 424.7506074536662 32.379 0.30639 32.998 32.82 33.126 0.61831 39 16 3 0 0 0 0.7441 2 14814 14814;14864 2.3027 0 1 907040 + 31992 17315;10845 20341 20408 36040;36041 36040 0.057720339575212165 TARKKSTG 8 Unmodified _TARKKSTG_ 0 0 0 REV__ENST00000554879.5_1_14:71374480-71476401:+|nuORF;REV__nc|ENSG00000100731|Q96RV3-4|PCNX1 REV__nc|ENSG00000100731|Q96RV3-4|PCNX1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 424.751059 847.487565 3.0812 0.0013087 -0.75904 -0.0003224 2.3221 0.00098633 424.75060121679024 32.937 0.28584 33.191 33.032 33.318 0.25389 0.096499 0.0001499 NaN 2.3027 25 11 3 NaN NaN NaN NaN 0 NaN NaN 0 915840 + 31993 17315;10845 20341 20408 0.057720339575212165 TARKKSTG 8 Unmodified _TARKKSTG_ 0 0 0 REV__ENST00000554879.5_1_14:71374480-71476401:+|nuORF;REV__nc|ENSG00000100731|Q96RV3-4|PCNX1 REV__nc|ENSG00000100731|Q96RV3-4|PCNX1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 424.751059 847.487565 2.958 0.0012564 -1.04 -0.00044174 1.918 0.00081468 424.7506074536662 32.379 0.30639 32.998 32.82 33.126 0.61831 -0.096499 -8.877E-05 NaN 2.3027 39 16 3 NaN NaN NaN NaN 0 NaN NaN 0 907040 + 31994 17315;10845 20341 20408 0.057720339575212165 TARRIKVI 8 Unmodified _TARRIKVI_ 0 0 0 REV__CASP8AP2|p.Q1780Pfs*8|1|0.04|ENSG00000118412|chr6:89868628-89868629|-/CT|frameshift_variant REV__CASP8AP2|p.Q1780Pfs*8|1|0.04|ENSG00000118412|chr6:89868628-89868629|-/CT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.24615478515625 2 478.821818 955.629084 NaN NaN NaN NaN NaN NaN NaN 59.393 1 60.058 59.558 60.558 0.66503 0 0 0 0.99035 1 27190 27190 5.2307 0 1 + 31995 9987 20342 20409 36042 36042 0.14949452050655054 TARRRQQQQLL 11 Unmodified _TARRRQQQQLL_ 0 0 0 ENSG00000111052|ENST00000552864|LIN7A ENSG00000111052|ENST00000552864|LIN7A ENSG00000111052|ENST00000552864|LIN7A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.94342041015625 3 466.607652 1396.80113 3.0323 0.0014149 0.99697 0.0004652 4.0293 0.0018801 466.6080187663361 93.783 0.51923 94.415 94.124 94.644 0.63115 42 23 2 0 0 0 0.91359 1 43193 43193 0.40827 0.26837 1 452440 31996 1740 20343 20410 36043 36043 0.11859952000236262 TARRWMRRRTS 11 Unmodified _TARRWMRRRTS_ 0 0 0 REV__nc|ENSG00000122778|Q9HCM3-2|KIAA1549 REV__nc|ENSG00000122778|Q9HCM3-2|KIAA1549 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 738.9075317382812 2 738.907485 1475.80042 NaN NaN NaN NaN NaN NaN NaN 73.915 1 74.173 73.673 74.673 0.25876 0 0 0 1.008 1 33962 33962 0.35063 0 1 + 31997 11593 20344 20411 36044 36044 0.08154834079505235 TARTLRILKII 11 Unmodified _TARTLRILKII_ 0 0 0 SCN7A|p.R1640Lfs*12|1|0.04|ENSG00000136546|chr2:166405712-166405713|-/AATAAAAGAAAAGTAGAGA|frameshift_variant;ENSG00000136546|ENST00000643258|SCN7A SCN7A|p.R1640Lfs*12|1|0.04|ENSG00000136546|chr2:166405712-166405713|-/AATAAAAGAAAAGTAGAGA|frameshift_variant SCN7A|p.R1640Lfs*12|1|0.04|ENSG00000136546|chr2:166405712-166405713|-/AATAAAAGAAAAGTAGAGA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 649.6548461914062 2 649.437547 1296.86054 NaN NaN NaN NaN NaN NaN NaN 96.798 1 96.875 96.375 97.375 0.076538 0 0 0 1.0072 1 51544 51544 1.3295 0.87119 1 31998 2960 20345 20412 36045 36045 0.2239845496169437 TASARLVVVKR 11 Unmodified _TASARLVVVKR_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 600.3818969726562 2 600.382771 1198.75099 NaN NaN NaN NaN NaN NaN NaN 70.075 1 70.735 70.235 71.235 0.66071 0 0 0 1.0075 1 32130 32130 0.96228 0.43751 1 + 31999 12747 20346 20413 36046 36046 0.15956449342365886 TASIVEQSL 9 Unmodified _TASIVEQSL_ 0 0 0 ENSG00000165169|ENST00000378578|DYNLT3 ENSG00000165169|ENST00000378578|DYNLT3 ENSG00000165169|ENST00000378578|DYNLT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.2587890625 2 474.25584 946.497126 3.17 0.0015034 0.37401 0.00017738 3.544 0.0016808 474.25606295088596 51.013 0.25955 51.013 50.854 51.113 0 22 12 2 0 0 0 0.22507 1 23384 23384 21.747 6.9084 1 714110 32000 4378 20347 20414 36047 36047 0.021737574523854164 TASIVEQSL 9 Unmodified _TASIVEQSL_ 0 0 0 ENSG00000165169|ENST00000378578|DYNLT3 ENSG00000165169|ENST00000378578|DYNLT3 ENSG00000165169|ENST00000378578|DYNLT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.2574768066406 2 474.25584 946.497126 2.8773 0.0013646 0.40154 0.00019043 3.2788 0.001555 474.2558681822572 50.877 0.36881 51.139 50.964 51.333 0.26146 35 17 3 0 0 0 0.028312 1 23275 23275 57.471 30.588 1 864320 32001 4378 20347 20414 36048 36048 0.021737574523854164 TASIVEQSL 9 Unmodified _TASIVEQSL_ 0 0 0 ENSG00000165169|ENST00000378578|DYNLT3 ENSG00000165169|ENST00000378578|DYNLT3 ENSG00000165169|ENST00000378578|DYNLT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 947.5098876953125 1 947.504403 946.497126 3.6155 0.0034257 0.03408 3.2291E-05 3.6496 0.003458 947.5045032342935 50.957 0.29139 51.219 51.041 51.333 0.26146 17 13 2 0 0 0 0.023109 1 23286 23286 64.236 15.89 1 433880 32002 4378 20347 20414 36049 36049 0.021737574523854164 TASIVEQSL 9 Unmodified _TASIVEQSL_ 0 0 0 ENSG00000165169|ENST00000378578|DYNLT3 ENSG00000165169|ENST00000378578|DYNLT3 ENSG00000165169|ENST00000378578|DYNLT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 947.5071411132812 1 947.504403 946.497126 3.7576 0.0035603 0.82712 0.0007837 4.5847 0.004344 947.5045681955469 50.287 0.25576 50.944 50.812 51.067 0.65735 15 10 2 0 0 0 0.023109 1 23004 23004 64.236 15.89 1 384910 32003 4378 20347 20414 36050 36050 0.021737574523854164 TASIVEQSL 9 Unmodified _TASIVEQSL_ 0 0 0 ENSG00000165169|ENST00000378578|DYNLT3 ENSG00000165169|ENST00000378578|DYNLT3 ENSG00000165169|ENST00000378578|DYNLT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.2574768066406 2 474.25584 946.497126 2.9633 0.0014053 0.096736 4.5878E-05 3.06 0.0014512 474.2558315981293 50.267 0.34261 50.924 50.758 51.101 0.65735 34 14 3 0 0 0 0.020718 1 23015 23015 67.344 38.857 1 1046700 32004 4378 20347 20414 36051 36051 0.021737574523854164 TASIVEQSL 9 Unmodified _TASIVEQSL_ 0 0 0 ENSG00000165169|ENST00000378578|DYNLT3 ENSG00000165169|ENST00000378578|DYNLT3 ENSG00000165169|ENST00000378578|DYNLT3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 474.25584 946.497126 2.9788 0.0014127 -0.80734 -0.00038288 2.1715 0.0010298 474.255377213463 50.196 0.2797 51.019 50.885 51.165 0.82285 -0.0048643 -0.00081149 NaN 67.344 24 14 2 NaN NaN NaN NaN 0 NaN NaN 0 457790 32005 4378 20347 20414 0.021737574523854164 TASKTRELA 9 Unmodified _TASKTRELA_ 0 0 0 ENST00000419165.5_1_X:103173538-103173796:+|nuORF ENST00000419165.5_1_X:103173538-103173796:+|nuORF ENST00000419165.5_1_X:103173538-103173796:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 488.7728576660156 2 488.774731 975.534909 NaN NaN NaN NaN NaN NaN NaN 36.278 1 36.278 35.778 36.778 0 0 0 0 0.77475 1 16465 16465 10.074 2.1638 1 32006 7737 20348 20415 36052 36052 0.046162684378600716 TASWPDWAL 9 Unmodified _TASWPDWAL_ 0 0 0 ENSG00000152137|ENST00000281938|HSPB8 ENSG00000152137|ENST00000281938|HSPB8 ENSG00000152137|ENST00000281938|HSPB8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.2537231445312 2 523.750724 1045.4869 3.6024 0.0018868 -0.0002839 -1.487E-07 3.6022 0.0018866 523.7506188373175 87.899 0.41869 88.15 87.99 88.408 0.25065 37 17 3 0 0 0 0.041436 3 40434 40434;40492;40541 50.855 31.416 1 871250 32007 3740 20349 20416 36053;36054;36055 36053 -0.03402805482187432 TASWPDWAL 9 Unmodified _TASWPDWAL_ 0 0 0 ENSG00000152137|ENST00000281938|HSPB8 ENSG00000152137|ENST00000281938|HSPB8 ENSG00000152137|ENST00000281938|HSPB8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1046.5018310546875 1 1046.49417 1045.4869 3.5782 0.0037446 0.61768 0.0006464 4.1959 0.004391 1046.494941382012 87.965 0.36733 88.216 87.99 88.357 0.25064 23 14 2 0 0 0 0.12301 1 40457 40457 28.487 5.3384 1 815540 32008 3740 20349 20416 36056 36056 -0.03402805482187432 TASWPDWAL 9 Unmodified _TASWPDWAL_ 0 0 0 ENSG00000152137|ENST00000281938|HSPB8 ENSG00000152137|ENST00000281938|HSPB8 ENSG00000152137|ENST00000281938|HSPB8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.7525634765625 2 523.750724 1045.4869 3.4823 0.0018238 0.28349 0.00014848 3.7658 0.0019723 523.7506170697739 87.362 0.44063 88.038 87.846 88.286 0.67555 40 19 3 0 0 0 0.026068 2 40254 40206;40254 60.39 37.241 1 1044300 32009 3740 20349 20416 36057;36058 36058 -0.03402805482187432 TASWPDWAL 9 Unmodified _TASWPDWAL_ 0 0 0 ENSG00000152137|ENST00000281938|HSPB8 ENSG00000152137|ENST00000281938|HSPB8 ENSG00000152137|ENST00000281938|HSPB8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1046.4984130859375 1 1046.49417 1045.4869 3.6774 0.0038484 1.0182 0.0010655 4.6956 0.0049139 1046.4950744130015 87.356 0.37743 88.031 87.846 88.223 0.67555 27 16 2 0 0 0 0.12301 2 40220 40220;40277 28.487 6.7402 1 862240 32010 3740 20349 20416 36059;36060 36059 -0.03402805482187432 TATATNHVL 9 Unmodified _TATATNHVL_ 0 0 0 ENSG00000004700|ENST00000444129|RECQL ENSG00000004700|ENST00000444129|RECQL ENSG00000004700|ENST00000444129|RECQL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.2499694824219 2 464.248349 926.482145 2.8544 0.0013251 -0.81031 -0.00037619 2.0441 0.00094896 464.24767642714363 21.528 0.31306 21.528 21.37 21.683 0 84 34 3 0 0 0 0.0013631 2 9623 9596;9623 115.69 58.221 1 1591500 32011 315 20350 20417 36061;36062 36062 0.015963103750550545 TATATNHVL 9 Unmodified _TATATNHVL_ 0 0 0 ENSG00000004700|ENST00000444129|RECQL ENSG00000004700|ENST00000444129|RECQL ENSG00000004700|ENST00000444129|RECQL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.2494201660156 2 464.248349 926.482145 NaN NaN NaN NaN NaN NaN NaN 20.589 1 20.855 20.355 21.355 0.26616 0 0 0 2.1018E-10 1 9142 9142 128.37 61.022 1 32012 315 20350 20417 36063 36063 0.015963103750550545 TATATNHVL 9 Unmodified _TATATNHVL_ 0 0 0 ENSG00000004700|ENST00000444129|RECQL ENSG00000004700|ENST00000444129|RECQL ENSG00000004700|ENST00000444129|RECQL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.25006103515625 2 464.248349 926.482145 2.9478 0.0013685 0.54924 0.00025498 3.4971 0.0016235 464.24856578827286 20.589 0.35744 21.243 21.038 21.395 0.65346 85 31 3 0 0 0 1.8233E-05 3 9357 9314;9357;9401 144.35 77.006 1 2167200 32013 315 20350 20417 36064;36065;36066 36065 0.015963103750550545 TATKIEITM 9 Unmodified _TATKIEITM_ 0 0 0 nc|ENSG00000110172|Q9UHD1-2|CHORDC1;ENSG00000110172|ENST00000320585|CHORDC1 nc|ENSG00000110172|Q9UHD1-2|CHORDC1 nc|ENSG00000110172|Q9UHD1-2|CHORDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.2780456542969 2 504.275718 1006.53688 2.8994 0.0014621 0.64978 0.00032767 3.5491 0.0017897 504.2761271871831 46.598 0.42414 46.598 46.39 46.814 0 41 17 3 0 0 0 0.0017155 2 21361 21307;21361 107.1 57.545 1 3561000 32014 1703 20351 20418 36067;36068 36068 0.03387561131444272 TATKIEITM 9 Unmodified _TATKIEITM_ 0 0 0 nc|ENSG00000110172|Q9UHD1-2|CHORDC1;ENSG00000110172|ENST00000320585|CHORDC1 nc|ENSG00000110172|Q9UHD1-2|CHORDC1 nc|ENSG00000110172|Q9UHD1-2|CHORDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.2767639160156 2 504.275718 1006.53688 3.0501 0.0015381 -0.68304 -0.00034444 2.3671 0.0011937 504.27539568242366 45.674 0.38235 46.5 46.276 46.658 0.82621 42 20 3 0 0 0 0.002702 2 20811 20757;20811 96.936 39.333 1 1836400 32015 1703 20351 20418 36069;36070 36070 0.03387561131444272 TATKIEITM 9 Unmodified _TATKIEITM_ 0 0 0 nc|ENSG00000110172|Q9UHD1-2|CHORDC1;ENSG00000110172|ENST00000320585|CHORDC1 nc|ENSG00000110172|Q9UHD1-2|CHORDC1 nc|ENSG00000110172|Q9UHD1-2|CHORDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.27764892578125 2 504.275718 1006.53688 3.3585 0.0016936 0.074316 3.7476E-05 3.4328 0.0017311 504.2759475342643 46.458 0.44758 46.724 46.424 46.872 0.26561 37 16 3 0 0 0 0.002702 2 21199 21199;21259 96.936 45.306 1 1981100 32016 1703 20351 20418 36071;36072 36071 0.03387561131444272 TATKIEITM 9 Unmodified _TATKIEITM_ 0 0 0 nc|ENSG00000110172|Q9UHD1-2|CHORDC1;ENSG00000110172|ENST00000320585|CHORDC1 nc|ENSG00000110172|Q9UHD1-2|CHORDC1 nc|ENSG00000110172|Q9UHD1-2|CHORDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.2774658203125 2 504.275718 1006.53688 3.5442 0.0017872 0.53901 0.00027181 4.0832 0.002059 504.27623403792614 45.855 0.52337 46.506 46.214 46.737 0.65104 40 16 4 0 0 0 0.002702 2 21017 20954;21017 96.936 32.499 1 1486400 32017 1703 20351 20418 36073;36074 36074 0.03387561131444272 TATKIEITM 9 Oxidation (M) _TATKIEITM(Oxidation (M))_ TATKIEITM(1) TATKIEITM(50) 0 0 1 nc|ENSG00000110172|Q9UHD1-2|CHORDC1;ENSG00000110172|ENST00000320585|CHORDC1 nc|ENSG00000110172|Q9UHD1-2|CHORDC1 nc|ENSG00000110172|Q9UHD1-2|CHORDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.2752075195312 2 512.273175 1022.5318 3.2913 0.001686 1.1653 0.00059694 4.4566 0.002283 512.2737214460401 27.699 0.22449 28.318 28.163 28.387 0.61947 16 12 2 0 0 0 0.043585 1 12660 12660 49.933 17.628 1 367320 32018 1703 20351 20419 36075 36075 16 0.021432572688240725 TAVIWEPVL 9 Unmodified _TAVIWEPVL_ 0 0 0 ENST00000575531.5_1_16:4407102-4412712:-|nuORF;nc|ENSG00000262246|P57737-2|CORO7;nc|ENSG00000262246|P57737-4|CORO7;ENSG00000262246|ENST00000251166|CORO7;nc|ENSG00000262246|P57737-3|CORO7;ENST00000574849.1_1_16:4407825-4408472:-|nuORF;ENST00000572274.1_1_16:4391391-4409335:-|nuORF;ENST00000575714.5_1_16:4407825-4408182:-|nuORF ENST00000575531.5_1_16:4407102-4412712:-|nuORF ENST00000575531.5_1_16:4407102-4412712:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.2968139648438 2 514.294768 1026.57498 3.7657 0.0019367 0.26627 0.00013694 4.032 0.0020736 514.2948600196368 89.51 0.24113 89.762 89.607 89.848 0.25124 16 12 2 0 0 0 0.24524 1 41179 41179 28.487 5.3384 1 233370 32019 6313 20352 20420 36076 36076 0.0627581510843811 TAVKNDYEM 9 Unmodified _TAVKNDYEM_ 0 0 0 ENSG00000132383|ENST00000254719|RPA1 ENSG00000132383|ENST00000254719|RPA1 ENSG00000132383|ENST00000254719|RPA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 535.746337890625 2 535.744782 1069.47501 2.6063 0.0013963 0.42083 0.00022546 3.0271 0.0016218 535.7449253445382 22.729 0.24853 23.317 23.176 23.425 0.58739 66 36 2 0 0 0 0.00076206 3 10122 10077;10122;10164 128.93 60.852 1 2025700 32020 2697 20353 20421 36077;36078;36079 36078 -0.056947902877027445 TAVKNDYEM 9 Unmodified _TAVKNDYEM_ 0 0 0 ENSG00000132383|ENST00000254719|RPA1 ENSG00000132383|ENST00000254719|RPA1 ENSG00000132383|ENST00000254719|RPA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.74658203125 2 535.744782 1069.47501 3.1931 0.0017107 0.23471 0.00012574 3.4278 0.0018364 535.7448303961568 22.975 0.2341 23.616 23.496 23.73 0.64051 64 35 2 0 0 0 0.00076206 2 10486 10441;10486 128.93 60.852 1 2521000 32021 2697 20353 20421 36080;36081 36081 -0.056947902877027445 TAVLILGPK 9 Unmodified _TAVLILGPK_ 0 0 0 ENSG00000125999|ENST00000253354|BPIFB1 ENSG00000125999|ENST00000253354|BPIFB1 ENSG00000125999|ENST00000253354|BPIFB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 304.53717041015625 3 304.535661 910.585153 NaN NaN NaN NaN NaN NaN NaN 16.163 1 16.163 15.663 16.663 0 0 0 0 0.90611 1 7156 7156 1.0715 0 1 32022 2440 20354 20422 36082 36082 0.1262842283365444 TAVQFKGLDRL 11 Unmodified _TAVQFKGLDRL_ 0 0 0 REV__nc|ENSG00000137497|Q14980-5|NUMA1 REV__nc|ENSG00000137497|Q14980-5|NUMA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 624.3580932617188 2 624.358962 1246.70337 NaN NaN NaN NaN NaN NaN NaN 18.528 1 18.742 18.242 19.242 0.21445 0 0 0 0.97845 1 8234 8234 8.7454 1.4562 1 + 32023 12114 20355 20423 36083 36083 0.08988750351522867 TAVVSASI 8 Unmodified _TAVVSASI_ 0 0 0 ENST00000444220.2_1_22:24056424-24059433:-|nuORF ENST00000444220.2_1_22:24056424-24059433:-|nuORF ENST00000444220.2_1_22:24056424-24059433:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.2161865234375 2 374.215986 746.417419 NaN NaN NaN NaN NaN NaN NaN 12.495 1 12.803 12.303 13.303 0.30727 0 0 0 0.99035 1 5633 5633 5.7604 0 1 32024 7958 20356 20424 36084 36084 0.03406735569058128 TAWKAALPLI 10 Unmodified _TAWKAALPLI_ 0 0 0 nc|ENSG00000215811|A8MVZ5|BTNL10P nc|ENSG00000215811|A8MVZ5|BTNL10P nc|ENSG00000215811|A8MVZ5|BTNL10P MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.3336181640625 2 542.331685 1082.64882 NaN NaN NaN NaN NaN NaN NaN 45.577 1 45.845 45.345 46.345 0.26768 0 0 0 0.98866 1 20835 20835 7.2892 0.56607 1 32025 9831 20357 20425 36085 36085 0.11079783270747612 TCCFCWCCC 9 Unmodified _TCCFCWCCC_ 0 0 0 ENSG00000091844|ENST00000206262|RGS17 ENSG00000091844|ENST00000206262|RGS17 ENSG00000091844|ENST00000206262|RGS17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.14013671875 2 536.137815 1070.26108 NaN NaN NaN NaN NaN NaN NaN 89.809 1 89.809 89.309 90.309 0 0 0 0 0.91452 1 47014 47014 0 0 1 32026 1084 20358 20426 36086 36086 -0.2712431984725754 TCCTFCDGP 9 Unmodified _TCCTFCDGP_ 0 0 0 REV__ENSG00000186860|ENST00000334202|KRTAP17-1 REV__ENSG00000186860|ENST00000334202|KRTAP17-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 316.09747314453125 3 316.108296 945.30306 NaN NaN NaN NaN NaN NaN NaN 46.658 1 47.31 46.81 47.81 0.65219 0 0 0 0.91014 1 21370 21370 1.0715 0.67075 1 + 32027 14074 20359 20427 36087 36087 -0.1717798157121706 TCCTFCDGP 9 Unmodified _TCCTFCDGP_ 0 0 0 REV__ENSG00000186860|ENST00000334202|KRTAP17-1 REV__ENSG00000186860|ENST00000334202|KRTAP17-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 316.0971984863281 3 316.108296 945.30306 NaN NaN NaN NaN NaN NaN NaN 64.727 1 65.384 64.884 65.884 0.65672 0 0 0 0.91014 1 29672 29672 1.0715 0.67075 1 + 32028 14074 20359 20427 36088 36088 -0.1717798157121706 TCCYCCCCLC 10 Unmodified _TCCYCCCCLC_ 0 0 0 nc|ENSG00000101152|Q9H3Z4-2|DNAJC5;ENSG00000101152|ENST00000360864|DNAJC5 nc|ENSG00000101152|Q9H3Z4-2|DNAJC5 nc|ENSG00000101152|Q9H3Z4-2|DNAJC5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.0990295410156 3 373.097252 1116.26993 NaN NaN NaN NaN NaN NaN NaN 56.903 1 57.167 56.667 57.667 0.26444 0 0 0 1.002 1 26037 26037 0 0 1 32029 1264 20360 20428 36089 36089 -0.2835571427310697 TCCYCCCCLCC 11 Unmodified _TCCYCCCCLCC_ 0 0 0 nc|ENSG00000101152|Q9H3Z4-2|DNAJC5;ENSG00000101152|ENST00000360864|DNAJC5 nc|ENSG00000101152|Q9H3Z4-2|DNAJC5 nc|ENSG00000101152|Q9H3Z4-2|DNAJC5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 610.6468505859375 2 610.646832 1219.27911 NaN NaN NaN NaN NaN NaN NaN 61.744 1 62.475 61.975 62.975 0.73077 0 0 0 1.0082 1 28678 28678 0 0 1 32030 1264 20361 20429 36090 36090 -0.32175688979077677 TCGCGACLC 9 Unmodified _TCGCGACLC_ 0 0 0 ENST00000521325.1_1_8:141565925-141566322:-|nuORF ENST00000521325.1_1_8:141565925-141566322:-|nuORF ENST00000521325.1_1_8:141565925-141566322:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 830.270263671875 1 830.266363 829.259086 3.0979 0.0025721 -0.3034 -0.00025191 2.7945 0.0023202 830.268390485206 3.4904 0.47584 3.8668 3.6286 4.1044 0.37632 82 54 2 0 0 0 1.2459 4 1504 1504;1559;1616;1645 0 0 1 41697 32031 8640 20362 20430 36091;36092;36093;36094 36091 -0.16237289269213306 TCGCGACLC 9 Unmodified _TCGCGACLC_ 0 0 0 ENST00000521325.1_1_8:141565925-141566322:-|nuORF ENST00000521325.1_1_8:141565925-141566322:-|nuORF ENST00000521325.1_1_8:141565925-141566322:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 830.2714233398438 1 830.266363 829.259086 3.098 0.0025721 -0.37194 -0.00030881 2.726 0.0022633 830.2681483173241 6.1467 0.2671 6.4995 6.3565 6.6236 0.35278 63 34 2 0 0 0 1.2459 2 2770 2770;2824 0 0 1 37332 32032 8640 20362 20430 36095;36096 36095 -0.16237289269213306 TCGCGACLC 9 Unmodified _TCGCGACLC_ 0 0 0 ENST00000521325.1_1_8:141565925-141566322:-|nuORF ENST00000521325.1_1_8:141565925-141566322:-|nuORF ENST00000521325.1_1_8:141565925-141566322:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 830.2706298828125 1 830.266363 829.259086 3.0981 0.0025723 -0.40113 -0.00033305 2.697 0.0022392 830.2681309179978 9.0597 0.45747 9.3708 8.937 9.3945 0.31115 94 54 2 0 0 0 1.2459 4 3892 3892;3935;4025;4063 0 0 1 59290 32033 8640 20362 20430 36097;36098;36099;36100 36097 -0.16237289269213306 TCGDSITG 8 Unmodified _TCGDSITG_ 0 0 0 REV__ENSG00000172081|ENST00000357066|MOB3A REV__ENSG00000172081|ENST00000357066|MOB3A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 377.1603088378906 2 377.157811 752.301069 NaN NaN NaN NaN NaN NaN NaN 79.14 1 79.391 78.891 79.891 0.25127 0 0 0 0.99035 1 36444 36444 2.3027 0 1 + 32034 13537 20363 20431 36101 36101 -0.0849895099315745 TCGDSITG 8 Unmodified _TCGDSITG_ 0 0 0 REV__ENSG00000172081|ENST00000357066|MOB3A REV__ENSG00000172081|ENST00000357066|MOB3A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.1592102050781 2 377.157811 752.301069 NaN NaN NaN NaN NaN NaN NaN 77.209 1 77.872 77.372 78.372 0.66303 0 0 0 0.99035 1 35580 35580 5.2307 0 1 + 32035 13537 20363 20431 36102 36102 -0.0849895099315745 TCGESDCC 8 Unmodified _TCGESDCC_ 0 0 0 REV__ENSG00000164512|ENST00000341048|ANKRD55 REV__ENSG00000164512|ENST00000341048|ANKRD55 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 817.212158203125 1 817.216101 816.208825 3.067 0.0025064 -3.6947 -0.0030194 -0.62774 -0.000513 817.214309385728 1.8014 0.13321 2.1055 2.0044 2.1376 0.30411 13 9 2 0 0 0 0.7471 1 777 777 0 0 1 32430 + 32036 13096 20364 20432 36103 36103 -0.20663120393362533 TCGESDCC 8 Unmodified _TCGESDCC_ 0 0 0 REV__ENSG00000164512|ENST00000341048|ANKRD55 REV__ENSG00000164512|ENST00000341048|ANKRD55 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 817.2177124023438 1 817.216101 816.208825 3.0672 0.0025066 -2.6099 -0.0021328 0.45736 0.00037376 817.2151184351943 6.658 0.091918 6.9637 6.9149 7.0068 0.30573 10 7 2 0 0 0 0.7471 1 3030 3030 0 0 1 24969 + 32037 13096 20364 20432 36104 36104 -0.20663120393362533 TCGESDCC 8 Unmodified _TCGESDCC_ 0 0 0 REV__ENSG00000164512|ENST00000341048|ANKRD55 REV__ENSG00000164512|ENST00000341048|ANKRD55 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 817.216101 816.208825 3.067 0.0025064 -3.6947 -0.0030194 -0.62774 -0.000513 817.214309385728 1.8014 0.13321 2.1055 2.0044 2.1376 0.30411 0 0 NaN 0 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 32430 + 32038 13096 20364 20432 -0.20663120393362533 TCHDVLPE 8 Unmodified _TCHDVLPE_ 0 0 0 nc|ENSG00000164251|P55085|F2RL1;ENSG00000164251|ENST00000296677|F2RL1 nc|ENSG00000164251|P55085|F2RL1 nc|ENSG00000164251|P55085|F2RL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 457.1506042480469 2 457.207835 912.401117 NaN NaN NaN NaN NaN NaN NaN 64.53 1 65.245 64.745 65.745 0.71521 0 0 0 0.99035 1 30406 30406 4.756 2.1785 1 32039 4299 20365 20433 36105 36105 -0.05858713659347359 TCHMDVFH 8 Unmodified _TCHMDVFH_ 0 0 0 ENSG00000103522|ENST00000337929|IL21R ENSG00000103522|ENST00000337929|IL21R ENSG00000103522|ENST00000337929|IL21R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 330.47210693359375 3 330.470445 988.389507 NaN NaN NaN NaN NaN NaN NaN 39.939 1 39.939 39.439 40.439 0 0 0 0 0.99035 1 18127 18127 0.45834 0 1 32040 1403 20366 20434 36106 36106 -0.1051523395433378 TCKAIFRIFP 10 Unmodified _TCKAIFRIFP_ 0 0 0 REV__ENST00000361549.2_1_12:108912031-108913249:+|nuORF REV__ENST00000361549.2_1_12:108912031-108913249:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.3359375 2 598.336444 1194.65834 NaN NaN NaN NaN NaN NaN NaN 91.788 1 92.04 91.54 92.54 0.25253 0 0 0 1.0001 1 42202 42202 3.2813 1.7994 1 + 32041 14370 20367 20435 36107 36107 0.0687922828462888 TCMCCMFM 8 Unmodified _TCMCCMFM_ 0 0 0 nc|ENSG00000183826|Q96Q07-3|BTBD9;nc|ENSG00000183826|Q96Q07-2|BTBD9;ENSG00000183826|ENST00000481247|BTBD9 nc|ENSG00000183826|Q96Q07-3|BTBD9 nc|ENSG00000183826|Q96Q07-3|BTBD9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.4156188964844 2 485.145109 968.275664 NaN NaN NaN NaN NaN NaN NaN 80.387 1 81.047 80.547 81.547 0.65998 0 0 0 0.99035 1 37043 37043 0.79363 0.79363 1 32042 5407 20368 20436 36108 36108 -0.20974247699098214 TCNEEDSGDPC 11 Unmodified _TCNEEDSGDPC_ 0 0 0 REV__ENST00000532490.1_1_11:36022639-36250762:+|nuORF REV__ENST00000532490.1_1_11:36022639-36250762:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.1895751953125 2 585.18971 1168.36487 NaN NaN NaN NaN NaN NaN NaN 2.4682 1 2.8546 2.3546 3.3546 0.38641 0 0 0 1.0082 1 1122 1122 0 0 1 + 32043 13790 20369 20437 36109 36109 -0.2125800340902515 TCNSHSLPS 9 Unmodified _TCNSHSLPS_ 0 0 0 ENST00000220562.8_1_8:28608908-28609217:+|nuORF ENST00000220562.8_1_8:28608908-28609217:+|nuORF ENST00000220562.8_1_8:28608908-28609217:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 315.6224365234375 3 315.808003 944.40218 NaN NaN NaN NaN NaN NaN NaN 61.984 1 62.237 61.737 62.737 0.25245 0 0 0 0.90431 1 28378 28378 2.4985 0.84587 1 32044 6419 20370 20438 36110 36110 -0.072244992904416 TCSDTSSI 8 Unmodified _TCSDTSSI_ 0 0 0 UBR5|p.A620T|1|0.26|ENSG00000104517|chr8:102314780-102314780|C/T|missense_variant UBR5|p.A620T|1|0.26|ENSG00000104517|chr8:102314780-102314780|C/T|missense_variant UBR5|p.A620T|1|0.26|ENSG00000104517|chr8:102314780-102314780|C/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.1694641113281 2 407.168376 812.322198 NaN NaN NaN NaN NaN NaN NaN 79.974 1 80.224 79.724 80.724 0.24947 0 0 0 0.99035 1 36823 36823 2.5775 0 1 32045 18284 20371 20439 36111 36111 -0.09146985684287756 TCTEQSSN 8 Unmodified _TCTEQSSN_ 0 0 0 REV__nc|ENSG00000172890|Q6IA69-2|NADSYN1 REV__nc|ENSG00000172890|Q6IA69-2|NADSYN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.1689758300781 2 435.168907 868.323261 NaN NaN NaN NaN NaN NaN NaN 71.771 1 72.435 71.935 72.935 0.66324 0 0 0 0.99035 1 32897 32897 4.756 0 1 + 32046 13569 20372 20440 36112 36112 -0.11616771315391361 TCWRCCCCCCA 11 Unmodified _TCWRCCCCCCA_ 0 0 0 REV__ENST00000519715.1_1_5:140012405-140013200:-|nuORF REV__ENST00000519715.1_1_5:140012405-140013200:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 627.6785278320312 2 627.677313 1253.34007 NaN NaN NaN NaN NaN NaN NaN 75.589 1 76.252 75.752 76.752 0.6635 0 0 0 1.008 1 36603 36603 0.35063 0.35063 1 + 32047 17039 20373 20441 36113 36113 -0.27646415884601083 TCYDFGCG 8 Unmodified _TCYDFGCG_ 0 0 0 REV__nc|ENSG00000112029|Q9UKT4-2|FBXO5 REV__nc|ENSG00000112029|Q9UKT4-2|FBXO5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 433.1490783691406 2 433.146389 864.278225 NaN NaN NaN NaN NaN NaN NaN 22.834 1 23.475 22.975 23.975 0.64051 0 0 0 0.99035 1 10406 10406 0.79363 0.10326 1 + 32048 11256 20374 20442 36114 36114 -0.1593429338228134 TDCECYQGYI 10 Unmodified _TDCECYQGYI_ 0 0 0 REV__ENSG00000160255|ENST00000652462|ITGB2 REV__ENSG00000160255|ENST00000652462|ITGB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 597.7376098632812 2 597.725732 1193.43691 NaN NaN NaN NaN NaN NaN NaN 105.88 1 105.88 105.38 106.38 0 0 0 0 1.0003 1 58176 58176 1.4819 0.15237 1 + 32049 12870 20375 20443 36115 36115 -0.15207044264661818 TDDDGDDDD 9 Unmodified _TDDDGDDDD_ 0 0 0 nc|ENSG00000106278|P23471-2|PTPRZ1;ENSG00000106278|ENST00000393386|PTPRZ1 nc|ENSG00000106278|P23471-2|PTPRZ1 nc|ENSG00000106278|P23471-2|PTPRZ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.64013671875 2 491.641431 981.268308 NaN NaN NaN NaN NaN NaN NaN 19.826 1 20.118 19.618 20.618 0.29239 0 0 0 0.91452 1 9024 9024 0 0 1 32050 1561 20376 20444 36116 36116 -0.22307531372985068 TDECMDYTGC 10 Unmodified _TDECMDYTGC_ 0 0 0 ENSG00000130940|ENST00000377022|CASZ1 ENSG00000130940|ENST00000377022|CASZ1 ENSG00000130940|ENST00000377022|CASZ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.1801147460938 2 569.1803 1136.34605 NaN NaN NaN NaN NaN NaN NaN 16.742 1 17.4 16.9 17.9 0.65798 0 0 0 1.002 1 7547 7547 0 0 1 32051 2630 20377 20445 36117 36117 -0.21667256304453986 TDEDDLEA 8 Unmodified _TDEDDLEA_ 0 0 0 nc|ENSG00000132024|Q6P1N0-2|CC2D1A;ENSG00000132024|ENST00000318003|CC2D1A nc|ENSG00000132024|Q6P1N0-2|CC2D1A nc|ENSG00000132024|Q6P1N0-2|CC2D1A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.70501708984375 3 303.122422 906.345436 2.1741 0.00065903 -0.18035 -5.4669E-05 1.9938 0.00060436 303.12259067894576 56.168 0.15067 56.837 56.79 56.941 0.66829 10 9 2 0 0 0 0.14346 1 25705 25705 0.45834 0 1 322680 32052 2681 20378 20446 36118 36118 -0.11148268366002867 TDEPRFTI 8 Unmodified _TDEPRFTI_ 0 0 0 nc|ENSG00000147421|Q6NT76-2|HMBOX1;nc|ENSG00000147421|Q6NT76-3|HMBOX1;ENSG00000147421|ENST00000287701|HMBOX1;nc|ENSG00000147421|Q6NT76-5|HMBOX1;ENST00000560357.5_1_8:28821384-28828064:+|nuORF;nc|ENSG00000147421|Q6NT76-4|HMBOX1 nc|ENSG00000147421|Q6NT76-2|HMBOX1 nc|ENSG00000147421|Q6NT76-2|HMBOX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.7469482421875 2 489.748182 977.481811 NaN NaN NaN NaN NaN NaN NaN 38.155 1 38.789 38.289 39.289 0.63388 0 0 0 0.86524 1 17451 17451 14.582 5.2343 1 32053 3564 20379 20447 36119 36119 -0.007831093447975945 TDHGGCPG 8 Unmodified _TDHGGCPG_ 0 0 0 ENST00000221671.7_1_19:16628048-16628135:+|nuORF ENST00000221671.7_1_19:16628048-16628135:+|nuORF ENST00000221671.7_1_19:16628048-16628135:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 372.144775390625 2 372.142495 742.270438 NaN NaN NaN NaN NaN NaN NaN 62.483 1 63.213 62.713 63.713 0.73077 0 0 0 0.99035 1 29134 29134 2.5775 2.5775 1 32054 6422 20380 20448 36120 36120 -0.11100684587540854 TDILQIIRKK 10 Unmodified _TDILQIIRKK_ 0 0 0 L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|15|1|sense L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|15|1|sense L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|15|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.1068115234375 2 614.392805 1226.77106 NaN NaN NaN NaN NaN NaN NaN 93.053 1 93.053 92.553 93.553 0 0 0 0 1.0001 1 49596 49596 1.6526 0 1 32055 9458 20381 20449 36121 36121 0.16674200282318452 TDIYRHRYRWM 11 Unmodified _TDIYRHRYRWM_ 0 0 0 REV__ENST00000437043.7_1_5:96253823-96253934:+|nuORF REV__ENST00000437043.7_1_5:96253823-96253934:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.5396728515625 3 532.93326 1595.77795 2.4929 0.0013286 1.5307 0.00081579 4.0237 0.0021443 532.933684324029 68.029 0.039528 68.029 68.016 68.055 0 5 4 2 0 0 0 0.13295 1 32707 32707 0.40827 0.31342 1 1134600 + 32056 16313 20382 20450 36122 36122 0.0038918989123430947 TDKIWKRYHVV 11 Unmodified _TDKIWKRYHVV_ 0 0 0 REV__ENST00000595050.1_1_19:51380257-51381812:+|nuORF REV__ENST00000595050.1_1_19:51380257-51381812:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 722.8110961914062 2 722.906611 1443.79867 NaN NaN NaN NaN NaN NaN NaN 102.44 1 102.5 102 103 0.057198 0 0 0 1.0061 1 55613 55613 2.7352 0 1 + 32057 12329 20383 20451 36123 36123 0.09452103542548684 TDKPLSHLLF 10 Unmodified _TDKPLSHLLF_ 0 0 0 REV__nc|ENSG00000163913|Q9HBG6-11|IFT122 REV__nc|ENSG00000163913|Q9HBG6-11|IFT122 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 390.8898010253906 3 390.888763 1169.64446 2.3135 0.00090434 0.8122 0.00031748 3.1257 0.0012218 390.88906272412373 56.597 0.27086 57.375 57.24 57.511 0.77786 50 28 2 0 0 0 0.93503 1 25905 25905 1.9064 0 1 1484000 + 32058 13040 20384 20452 36124 36124 0.06642274057185205 TDLFDIVI 8 Unmodified _TDLFDIVI_ 0 0 0 nc|ENSG00000178425|Q5TFE4-2|NT5DC1;ENSG00000178425|ENST00000319550|NT5DC1 nc|ENSG00000178425|Q5TFE4-2|NT5DC1 nc|ENSG00000178425|Q5TFE4-2|NT5DC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.2596740722656 2 468.257851 934.501149 3.5793 0.0016761 -0.35142 -0.00016455 3.2279 0.0015115 468.25763018078646 96.139 0.3072 96.417 96.259 96.566 0.27779 27 14 3 0 0 0 0.13778 1 44192 44192 49.669 0 1 824140 32059 5167 20385 20453 36125 36125 0.031278469460858105 TDLFDIVI 8 Unmodified _TDLFDIVI_ 0 0 0 nc|ENSG00000178425|Q5TFE4-2|NT5DC1;ENSG00000178425|ENST00000319550|NT5DC1 nc|ENSG00000178425|Q5TFE4-2|NT5DC1 nc|ENSG00000178425|Q5TFE4-2|NT5DC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 468.2595520019531 2 468.257851 934.501149 3.0886 0.0014463 0.72391 0.00033898 3.8125 0.0017852 468.2581966576859 95.489 0.32657 96.096 95.934 96.261 0.60768 37 16 3 0 0 0 0.31786 1 43946 43946 34.187 0 1 676780 32060 5167 20385 20453 36126 36126 0.031278469460858105 TDLKYFIAF 9 Unmodified _TDLKYFIAF_ 0 0 0 ENST00000558202.1_1_15:35240356-35256599:-|nuORF ENST00000558202.1_1_15:35240356-35256599:-|nuORF ENST00000558202.1_1_15:35240356-35256599:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.3031616210938 2 559.30005 1116.58555 NaN NaN NaN NaN NaN NaN NaN 79.47 1 80.13 79.63 80.63 0.66082 0 0 0 0.87786 1 36617 36617 6.7232 0 1 32061 8949 20386 20454 36127 36127 0.03191797762860915 TDLQKFSEKL 10 Unmodified _TDLQKFSEKL_ 0 0 0 REV__nc|ENSG00000160293|P52735-3|VAV2 REV__nc|ENSG00000160293|P52735-3|VAV2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 604.8291015625 2 604.829703 1207.64485 NaN NaN NaN NaN NaN NaN NaN 36.264 1 36.891 36.391 37.391 0.62631 0 0 0 0.99572 1 16606 16606 5.2969 0 1 + 32062 12871 20387 20455 36128 36128 0.04933648986366279 TDLYIYSHFTF 11 Unmodified _TDLYIYSHFTF_ 0 0 0 L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|71|3|sense L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|71|3|sense L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|71|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 703.8329467773438 2 703.834985 1405.65542 NaN NaN NaN NaN NaN NaN NaN 77.528 1 77.781 77.281 78.281 0.25335 0 0 0 0.97175 1 35704 35704 9.3831 3.6513 1 32063 9440 20388 20456 36129 36129 -0.03118368359218948 TDNLRVEY 8 Unmodified _TDNLRVEY_ 0 0 0 REV__nc|ENSG00000276043|Q96T88-2|UHRF1 REV__nc|ENSG00000276043|Q96T88-2|UHRF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.253662109375 2 505.251089 1008.48762 3.1587 0.0015959 0.23104 0.00011673 3.3897 0.0017127 505.25132209878694 26.117 0.27494 26.742 26.593 26.868 0.62505 28 18 2 0 0 0 0.63902 1 12017 12017 10.824 3.5347 1 425280 + 32064 14740 20389 20457 36130 36130 -0.016280108331443444 TDQEKIEFL 9 Unmodified _TDQEKIEFL_ 0 0 0 ENSG00000047936|ENST00000368507|ROS1;nc|ENSG00000047936|P08922|ROS1 ENSG00000047936|ENST00000368507|ROS1 ENSG00000047936|ENST00000368507|ROS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.86199951171875 3 374.860761 1121.56045 2.3927 0.00089695 0.80597 0.00030212 3.1987 0.0011991 374.86088895226095 15.235 0.50202 15.446 15.272 15.774 0.21108 155 71 3 0 0 0 0.92418 1 6730 6730 5.2969 0 1 237060 32065 564 20390 20458 36131 36131 0.004536981696446674 TDQEKIEFL 9 Unmodified _TDQEKIEFL_ 0 0 0 ENSG00000047936|ENST00000368507|ROS1;nc|ENSG00000047936|P08922|ROS1 ENSG00000047936|ENST00000368507|ROS1 ENSG00000047936|ENST00000368507|ROS1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 374.860761 1121.56045 2.3927 0.00089695 0.80597 0.00030212 3.1987 0.0011991 374.86088895226095 15.235 0.50202 15.446 15.272 15.774 0.21108 0 0 NaN 5.2969 155 71 3 NaN NaN NaN NaN 0 NaN NaN 0 237060 32066 564 20390 20458 0.004536981696446674 TDSFGDACDNC 11 Unmodified _TDSFGDACDNC_ 0 0 0 nc|ENSG00000169231|P49746-2|THBS3;ENSG00000169231|ENST00000368378|THBS3 nc|ENSG00000169231|P49746-2|THBS3 nc|ENSG00000169231|P49746-2|THBS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.1870727539062 2 574.186971 1146.35939 NaN NaN NaN NaN NaN NaN NaN 10.734 1 10.734 10.234 11.234 0 0 0 0 1.0082 1 4735 4735 0 0 1 32067 4677 20391 20459 36132 36132 -0.20793682200837793 TDVGDVTNTEE 11 Unmodified _TDVGDVTNTEE_ 0 0 0 ENSG00000123219|ENST00000396679|CENPK ENSG00000123219|ENST00000396679|CENPK ENSG00000123219|ENST00000396679|CENPK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.8400573730469 3 393.838574 1178.49389 NaN NaN NaN NaN NaN NaN NaN 8.0287 1 8.0287 7.5287 8.5287 0 0 0 0 1.0082 1 3622 3622 0 0 1 32068 2301 20392 20460 36133 36133 -0.08821582182895327 TDVGDVTNTEE 11 Unmodified _TDVGDVTNTEE_ 0 0 0 ENSG00000123219|ENST00000396679|CENPK ENSG00000123219|ENST00000396679|CENPK ENSG00000123219|ENST00000396679|CENPK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 393.8398132324219 3 393.838574 1178.49389 NaN NaN NaN NaN NaN NaN NaN 3.6718 1 4.0481 3.5481 4.5481 0.37632 0 0 0 1.0082 1 1667 1667 0 0 1 32069 2301 20392 20460 36134 36134 -0.08821582182895327 TDVGDVTNTEE 11 Unmodified _TDVGDVTNTEE_ 0 0 0 ENSG00000123219|ENST00000396679|CENPK ENSG00000123219|ENST00000396679|CENPK ENSG00000123219|ENST00000396679|CENPK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 393.8396911621094 3 393.838574 1178.49389 NaN NaN NaN NaN NaN NaN NaN 6.1488 1 6.5016 6.0016 7.0016 0.35278 0 0 0 1.0082 1 2783 2783 0 0 1 32070 2301 20392 20460 36135 36135 -0.08821582182895327 TDVGDVTNTEE 11 Unmodified _TDVGDVTNTEE_ 0 0 0 ENSG00000123219|ENST00000396679|CENPK ENSG00000123219|ENST00000396679|CENPK ENSG00000123219|ENST00000396679|CENPK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 393.8393249511719 3 393.838574 1178.49389 NaN NaN NaN NaN NaN NaN NaN 6.2417 1 6.5945 6.0945 7.0945 0.35278 0 0 0 1.0082 1 2825 2825 0 0 1 32071 2301 20392 20460 36136 36136 -0.08821582182895327 TDWALRRRV 9 Unmodified _TDWALRRRV_ 0 0 0 REV__nc|ENSG00000111554|Q8TC05-4|MDM1 REV__nc|ENSG00000111554|Q8TC05-4|MDM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.8369140625 2 586.835988 1171.65742 3.7283 0.0021879 -3.0868 -0.0018114 0.64156 0.00037649 586.8337159067233 103 0.12104 103.6 103.53 103.65 0.59821 6 3 2 0 0 0 1.1154 1 47675 47675 2.0598 0 1 419560 + 32072 11239 20393 20461 36137 36137 0.07846149959914328 TEARRPPGT 9 Unmodified _TEARRPPGT_ 0 0 0 REV__nc|ENSG00000104880|Q6ZSZ5-2|ARHGEF18 REV__nc|ENSG00000104880|Q6ZSZ5-2|ARHGEF18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.76531982421875 2 492.764697 983.514842 NaN NaN NaN NaN NaN NaN NaN 94.828 1 94.828 94.328 95.328 0 0 0 0 0.68339 1 50957 50957 13.042 2.2185 1 + 32073 11005 20394 20462 36138 36138 0.022425174979161966 TEATFCCCCCC 11 Unmodified _TEATFCCCCCC_ 0 0 0 REV__ENST00000318348.8_1_12:110289098-110289272:-|nuORF REV__ENST00000318348.8_1_12:110289098-110289272:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 593.6609497070312 2 593.661851 1185.30915 NaN NaN NaN NaN NaN NaN NaN 27.938 1 28.201 27.701 28.701 0.26245 0 0 0 1.0082 1 12704 12704 0 0 1 + 32074 15301 20395 20463 36139 36139 -0.2760929071787359 TEEAIRQQEVE 11 Unmodified _TEEAIRQQEVE_ 0 0 0 ENST00000504946.5_1_3:123400948-123419770:-|nuORF;MYLK|p.L1152Sfs*20|1|0.31|ENSG00000065534|chr3:123692847-123692847|T/-|frameshift_variant;nc|ENSG00000065534|Q15746-4|MYLK;nc|ENSG00000065534|Q15746-5|MYLK;nc|ENSG00000065534|Q15746-2|MYLK;nc|ENSG00000065534|Q15746-3|MYLK;nc|ENSG00000065534|Q15746-6|MYLK;ENSG00000065534|ENST00000360304|MYLK ENST00000504946.5_1_3:123400948-123419770:-|nuORF ENST00000504946.5_1_3:123400948-123419770:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 666.3232421875 2 666.325513 1330.63647 NaN NaN NaN NaN NaN NaN NaN 73.598 1 73.857 73.357 74.357 0.25876 0 0 0 1.0038 1 33808 33808 5.7319 1.4026 1 32075 693 20396 20464 36140 36140 -0.015619497208945177 TEEARRKLKAE 11 Unmodified _TEEARRKLKAE_ 0 0 0 ENST00000435830.6_1_3:37354991-37360805:+|nuORF;nc|ENSG00000144674|Q13439-3|GOLGA4;nc|ENSG00000144674|Q13439-4|GOLGA4;ENSG00000144674|ENST00000361924|GOLGA4;nc|ENSG00000144674|Q13439-5|GOLGA4 ENST00000435830.6_1_3:37354991-37360805:+|nuORF ENST00000435830.6_1_3:37354991-37360805:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 666.1338500976562 2 665.875508 1329.73646 NaN NaN NaN NaN NaN NaN NaN 75.052 1 75.716 75.216 76.216 0.6644 0 0 0 1.0038 1 34566 34566 5.7319 0 1 32076 3439 20397 20465 36141 36141 0.08478332403569766 TEEDGEYDAI 10 Unmodified _TEEDGEYDAI_ 0 0 0 REV__nc|ENSG00000107957|Q5TCZ1-2|SH3PXD2A REV__nc|ENSG00000107957|Q5TCZ1-2|SH3PXD2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.15692138671875 3 381.155903 1140.44588 2.8301 0.0010787 0.013403 5.1086E-06 2.8435 0.0010838 381.15591120895766 19.29 0.1657 19.29 19.227 19.392 0 41 30 2 0 0 0 0.83621 1 8559 8559 3.5871 0 1 7645400 + 32077 11130 20398 20466 36142 36142 -0.11872656102991641 TEEDGEYDAI 10 Unmodified _TEEDGEYDAI_ 0 0 0 REV__nc|ENSG00000107957|Q5TCZ1-2|SH3PXD2A REV__nc|ENSG00000107957|Q5TCZ1-2|SH3PXD2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.2319946289062 2 571.230216 1140.44588 3.2578 0.0018609 0.79414 0.00045364 4.0519 0.0023146 571.2305964048425 18.067 0.38815 18.368 18.178 18.567 0.30159 82 39 3 0 0 0 0.64255 1 8185 8185 15.847 1.0089 1 731150 + 32078 11130 20398 20466 36143 36143 -0.11872656102991641 TEEDGEYDAI 10 Unmodified _TEEDGEYDAI_ 0 0 0 REV__nc|ENSG00000107957|Q5TCZ1-2|SH3PXD2A REV__nc|ENSG00000107957|Q5TCZ1-2|SH3PXD2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.1571044921875 3 381.155903 1140.44588 2.7635 0.0010533 0.40637 0.00015489 3.1698 0.0012082 381.1560270349958 17.833 0.35863 18.493 18.341 18.7 0.66072 126 49 3 0 0 0 0.82431 1 7995 7995 6.6304 3.3107 1 7898400 + 32079 11130 20398 20466 36144 36144 -0.11872656102991641 TEEDQDYLE 9 Unmodified _TEEDQDYLE_ 0 0 0 ENSG00000120696|ENST00000379483|KBTBD7;ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000120696|ENST00000379483|KBTBD7;ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000165572|ENST00000379485|KBTBD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.1569519042969 3 381.155903 1140.44588 2.621 0.00099901 0.62917 0.00023981 3.2502 0.0012388 381.1560959076474 18.081 0.59875 18.383 18.065 18.663 0.30159 182 61 4 0 0 0 0.3144 1 8184 8184 10.8 0 1 5140600 32080 2207;4409 20399 20467 36145 36145 -0.11872656103014378 TEEDQDYLE 9 Unmodified _TEEDQDYLE_ 0 0 0 ENSG00000120696|ENST00000379483|KBTBD7;ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000120696|ENST00000379483|KBTBD7;ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000165572|ENST00000379485|KBTBD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.15704345703125 3 381.155903 1140.44588 2.7635 0.0010533 0.40637 0.00015489 3.1698 0.0012082 381.1560270349958 17.833 0.35863 18.493 18.341 18.7 0.66072 126 49 3 0 0 0 0.59776 1 8044 8044 7.1017 0 1 7898400 32081 2207;4409 20399 20467 36146 36146 -0.11872656103014378 TEEGDWISRPL 11 Unmodified _TEEGDWISRPL_ 0 0 0 REV__ENSG00000170577|ENST00000303077|SIX2 REV__ENSG00000170577|ENST00000303077|SIX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.8825378417969 3 434.882337 1301.62518 NaN NaN NaN NaN NaN NaN NaN 71.354 1 72.018 71.518 72.518 0.66324 0 0 0 1.0074 1 32702 32702 1.1098 0.038292 1 + 32082 13441 20400 20468 36147 36147 -0.013567270243811436 TEELNREVATN 11 Unmodified _TEELNREVATN_ 0 0 0 ENST00000399211.7_1_17:16744211-16749072:-|nuORF;ENSG00000128422|ENST00000311208|KRT17;CON__Q04695;CON__Q9QWL7;CON__Q6IFX2;ENSG00000186847|ENST00000167586|KRT14;CON__P02533 ENST00000399211.7_1_17:16744211-16749072:-|nuORF ENST00000399211.7_1_17:16744211-16749072:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 638.3136596679688 2 638.312406 1274.61026 3.8404 0.0024514 0.89118 0.00056885 4.7316 0.0030202 638.3130071587211 20.129 0.056782 20.129 20.085 20.142 0 9 6 2 0 0 0 0.43362 1 8976 8976 20.871 12.716 1 116810 + 32083 213 20401 20469 36148 36148 -0.01606218892356992 TEEQGPGP 8 Unmodified _TEEQGPGP_ 0 0 0 ENSG00000124587|ENST00000304611|PEX6;nc|ENSG00000124587|Q13608-3|PEX6;nc|ENSG00000124587|Q13608-2|PEX6 ENSG00000124587|ENST00000304611|PEX6 ENSG00000124587|ENST00000304611|PEX6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 407.6837463378906 2 407.682507 813.350462 2.9899 0.0012189 0.42334 0.00017259 3.4133 0.0013915 407.68266200693296 16.53 0.17697 17.188 17.041 17.218 0.65798 23 15 2 0 0 0 0.7471 1 7430 7430 0.79363 0 1 60339 32084 2369 20402 20470 36149 36149 -0.06367919712693038 TEGSGHYL 8 Unmodified _TEGSGHYL_ 0 0 0 ENST00000515773.5_1_6:43152048-43164205:+|nuORF ENST00000515773.5_1_6:43152048-43164205:+|nuORF ENST00000515773.5_1_6:43152048-43164205:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 432.19976806640625 2 432.198325 862.382096 3.1873 0.0013776 -0.071165 -3.0757E-05 3.1161 0.0013468 432.19828359492004 29.35 0.76515 29.35 28.764 29.529 0 149 64 3 0 0 0 0.59268 1 13293 13293 14.582 1.0738 1 1884000 32085 8599 20403 20471 36150 36150 -0.054599269587583876 TEKLRPEM 8 Unmodified _TEKLRPEM_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000515433.1_1_5:135381935-135382190:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.1806640625 3 335.179548 1002.51682 NaN NaN NaN NaN NaN NaN NaN 17.791 1 18.452 17.952 18.952 0.66072 0 0 0 0.62726 1 8036 8036 25.399 10.561 1 32086 2210 20404 20472 36151 36151 0.015658101914937106 TEKLRPEM 8 Unmodified _TEKLRPEM_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000515433.1_1_5:135381935-135382190:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.2676696777344 2 502.265684 1002.51682 NaN NaN NaN NaN NaN NaN NaN 17.815 1 18.475 17.975 18.975 0.66072 0 0 0 0.69067 1 8047 8047 22.736 7.898 1 32087 2210 20404 20472 36152 36152 0.015658101914937106 TEKRRRKRQVW 11 Unmodified _TEKRRRKRQVW_ 0 0 0 REV__ENSG00000203942|ENST00000370640|C10orf62 REV__ENSG00000203942|ENST00000370640|C10orf62 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.976318359375 3 514.974447 1541.90151 NaN NaN NaN NaN NaN NaN NaN 94.286 1 94.903 94.403 95.403 0.61736 0 0 0 1.008 1 43364 43364 0.40827 0.31342 1 + 32088 14396 20405 20473 36153 36153 0.15223609053873588 TEPDKLID 8 Unmodified _TEPDKLID_ 0 0 0 REV__ENST00000428210.5_1_2:61705957-61719950:-|nuORF REV__ENST00000428210.5_1_2:61705957-61719950:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.7446594238281 2 465.742565 929.470577 2.8766 0.0013398 -0.070001 -3.2602E-05 2.8066 0.0013072 465.74224000908276 21.479 0.23381 21.479 21.358 21.592 0 53 25 3 0 0 0 0.51067 1 9590 9590 20.454 0 1 432730 + 32089 10621 20406 20474 36154 36154 0.0030206856106360647 TEPDKLID 8 Unmodified _TEPDKLID_ 0 0 0 REV__ENST00000428210.5_1_2:61705957-61719950:-|nuORF REV__ENST00000428210.5_1_2:61705957-61719950:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.7431335449219 2 465.742565 929.470577 2.9554 0.0013765 -0.018738 -8.7269E-06 2.9367 0.0013677 465.74231054125266 20.529 0.28834 21.182 21.02 21.308 0.65346 60 25 3 0 0 0 0.4188 1 9280 9280 26.884 0 1 594430 + 32090 10621 20406 20474 36155 36155 0.0030206856106360647 TEPDKLID 8 Unmodified _TEPDKLID_ 0 0 0 REV__ENST00000428210.5_1_2:61705957-61719950:-|nuORF REV__ENST00000428210.5_1_2:61705957-61719950:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 465.742565 929.470577 2.8766 0.0013398 -0.070001 -3.2602E-05 2.8066 0.0013072 465.74224000908276 21.479 0.23381 21.479 21.358 21.592 0 0.14835 -2.9998E-05 NaN 26.884 53 25 3 NaN NaN NaN NaN 0 NaN NaN 0 432730 + 32091 10621 20406 20474 0.0030206856106360647 TEPDKLID 8 Unmodified _TEPDKLID_ 0 0 0 REV__ENST00000428210.5_1_2:61705957-61719950:-|nuORF REV__ENST00000428210.5_1_2:61705957-61719950:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 465.742565 929.470577 2.9554 0.0013765 -0.018738 -8.7269E-06 2.9367 0.0013677 465.74231054125266 20.529 0.28834 21.182 21.02 21.308 0.65346 -0.14835 1.7753E-05 NaN 26.884 60 25 3 NaN NaN NaN NaN 0 NaN NaN 0 594430 + 32092 10621 20406 20474 0.0030206856106360647 TEREKWRRLQE 11 Unmodified _TEREKWRRLQE_ 0 0 0 REV__nc|ENSG00000178217|Q5SQS7-2|SH2D4B REV__nc|ENSG00000178217|Q5SQS7-2|SH2D4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.7320556640625 3 510.942701 1529.80627 NaN NaN NaN NaN NaN NaN NaN 89.701 1 89.701 89.201 90.201 0 0 0 0 1.0068 1 46928 46928 1.9275 0.59786 1 + 32093 13756 20407 20475 36156 36156 0.06256211072150109 TERELRKRKKR 11 Unmodified _TERELRKRKKR_ 0 0 0 nc|ENSG00000177614|Q8N414-2|PGBD5;ENSG00000177614|ENST00000391860|PGBD5 nc|ENSG00000177614|Q8N414-2|PGBD5 nc|ENSG00000177614|Q8N414-2|PGBD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 750.4649047851562 2 750.46569 1498.91683 NaN NaN NaN NaN NaN NaN NaN 61.55 1 61.802 61.302 62.302 0.25245 0 0 0 1.0082 1 28187 28187 0 0 1 32094 5127 20408 20476 36157 36157 0.18732475851038544 TERIARFIFIY 11 Unmodified _TERIARFIFIY_ 0 0 0 REV__ENSG00000122375|ENST00000241891|OPN4 REV__ENSG00000122375|ENST00000241891|OPN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 715.3892211914062 2 714.903537 1427.79252 NaN NaN NaN NaN NaN NaN NaN 65.974 1 66.222 65.722 66.722 0.24848 0 0 0 1.0072 1 30223 30223 1.3295 0.87119 1 + 32095 11583 20409 20477 36158 36158 0.09573585311045463 TERKKYPKWIR 11 Unmodified _TERKKYPKWIR_ 0 0 0 REV__ENSG00000049247|ENST00000361696|UTS2 REV__ENSG00000049247|ENST00000361696|UTS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.2977294921875 3 502.296415 1503.86742 2.9571 0.0014854 -0.40887 -0.00020537 2.5483 0.00128 502.29615671241737 45.551 0.35119 45.551 45.36 45.711 0 48 15 4 0 0 0 0.85532 1 20820 20820 4.4062 2.3222 1 2397100 + 32096 10344 20410 20478 36159 36159 0.1356376784224267 TERKKYPKWIR 11 Unmodified _TERKKYPKWIR_ 0 0 0 REV__ENSG00000049247|ENST00000361696|UTS2 REV__ENSG00000049247|ENST00000361696|UTS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 502.6322326660156 3 502.296415 1503.86742 2.9795 0.0014966 -0.62424 -0.00031356 2.3553 0.0011831 502.6305359949539 44.529 0.33535 45.35 45.169 45.505 0.82075 46 16 4 0 0 0 0.89988 1 20298 20298 2.4348 0 1 2948900 + 32097 10344 20410 20478 36160 36160 0.1356376784224267 TERKKYPKWIR 11 Unmodified _TERKKYPKWIR_ 0 0 0 REV__ENSG00000049247|ENST00000361696|UTS2 REV__ENSG00000049247|ENST00000361696|UTS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.29754638671875 3 502.296415 1503.86742 3.4127 0.0017142 -0.98438 -0.00049445 2.4284 0.0012198 502.2959087226335 44.704 0.34081 45.354 45.174 45.515 0.64999 37 12 4 0 0 0 0.89544 1 20470 20470 2.6312 1.3016 1 3671500 + 32098 10344 20410 20478 36161 36161 0.1356376784224267 TERRKRLF 8 Unmodified _TERRKRLF_ 0 0 0 REV__ENSG00000123684|ENST00000366997|LPGAT1 REV__ENSG00000123684|ENST00000366997|LPGAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.3349609375 2 553.333082 1104.65161 4.0649 0.0022492 -1.1229 -0.00062133 2.942 0.0016279 553.3323549519359 91.982 0.8366 92.234 91.988 92.825 0.25254 111 41 4 0 0 0 0.7471 1 42508 42508 0.79363 0 1 3503500 + 32099 11623 20411 20479 36162 36162 0.10347051448275124 TESYLKNVALK 11 Unmodified _TESYLKNVALK_ 0 0 0 ENSG00000147536|ENST00000276533|GINS4 ENSG00000147536|ENST00000276533|GINS4 ENSG00000147536|ENST00000276533|GINS4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.5757751464844 3 422.574844 1264.7027 2.6841 0.0011343 -0.33276 -0.00014062 2.3514 0.00099364 422.5747953342447 40.525 0.18491 41.326 41.21 41.395 0.80014 23 13 2 0 0 0 0.30328 1 18346 18346 24.957 0.99293 1 2036700 32100 3571 20412 20480 36163 36163 0.08093910911816238 TESYLKNVALK 11 Unmodified _TESYLKNVALK_ 0 0 0 ENSG00000147536|ENST00000276533|GINS4 ENSG00000147536|ENST00000276533|GINS4 ENSG00000147536|ENST00000276533|GINS4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5758361816406 3 422.574844 1264.7027 3.1626 0.0013364 -0.61102 -0.0002582 2.5516 0.0010782 422.5746053071115 41.265 0.16637 41.534 41.444 41.611 0.26904 24 14 2 0 0 0 0.11339 2 18769 18769;18822 39.923 33.299 1 2728100 32101 3571 20412 20480 36164;36165 36164 0.08093910911816238 TESYLKNVALK 11 Unmodified _TESYLKNVALK_ 0 0 0 ENSG00000147536|ENST00000276533|GINS4 ENSG00000147536|ENST00000276533|GINS4 ENSG00000147536|ENST00000276533|GINS4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.36083984375 2 633.358628 1264.7027 NaN NaN NaN NaN NaN NaN NaN 41.265 1 41.534 41.034 42.034 0.26904 0 0 0 0.10489 1 18792 18792 47.594 15.289 1 32102 3571 20412 20480 36166 36166 0.08093910911816238 TESYLKNVALK 11 Unmodified _TESYLKNVALK_ 0 0 0 ENSG00000147536|ENST00000276533|GINS4 ENSG00000147536|ENST00000276533|GINS4 ENSG00000147536|ENST00000276533|GINS4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.362060546875 2 633.358628 1264.7027 4.1056 0.0026003 0.054527 3.4535E-05 4.1602 0.0026349 633.3587784212541 40.625 0.24583 41.266 41.165 41.41 0.64136 30 17 2 0 0 0 0.048444 2 18558 18558;18604 55.503 25.662 1 1094300 32103 3571 20412 20480 36167;36168 36167 0.08093910911816238 TESYLKNVALK 11 Unmodified _TESYLKNVALK_ 0 0 0 ENSG00000147536|ENST00000276533|GINS4 ENSG00000147536|ENST00000276533|GINS4 ENSG00000147536|ENST00000276533|GINS4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.5758361816406 3 422.574844 1264.7027 3.2249 0.0013627 0.37026 0.00015646 3.5951 0.0015192 422.9093616985626 40.633 0.27993 41.275 41.148 41.428 0.64135 36 20 2 0 0 0 0.11339 2 18562 18562;18617 39.923 27.695 1 1133700 32104 3571 20412 20480 36169;36170 36169 0.08093910911816238 TETFFFYI 8 Unmodified _TETFFFYI_ 0 0 0 REV__ENSG00000135622|ENST00000357877|SEMA4F REV__ENSG00000135622|ENST00000357877|SEMA4F MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 534.259033203125 2 534.257851 1066.50115 NaN NaN NaN NaN NaN NaN NaN 63.923 1 64.58 64.08 65.08 0.65672 0 0 0 0.79116 1 29296 29296 19.439 4.6007 1 + 32105 12029 20413 20481 36171 36171 -0.02944153053908849 TETHRPWPR 9 Unmodified _TETHRPWPR_ 0 0 0 REV__ENST00000263269.3_1_19:48947279-48947732:+|nuORF REV__ENST00000263269.3_1_19:48947279-48947732:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8727722167969 3 393.872106 1178.59449 2.9222 0.001151 -0.3759 -0.00014806 2.5463 0.0010029 393.8718647202667 15.487 0.55182 16.141 15.86 16.412 0.65356 127 76 3 0 0 0 1.0246 1 6992 6992 2.086 1.0724 1 108030 + 32106 14998 20414 20482 36172 36172 0.012335841718822849 TETKWLLVTVY 11 Unmodified _TETKWLLVTVY_ 0 0 0 REV__ENST00000515144.5_1_5:14488550-14489156:+|nuORF REV__ENST00000515144.5_1_5:14488550-14489156:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 676.8779907226562 2 676.876653 1351.73875 NaN NaN NaN NaN NaN NaN NaN 103.91 1 104.23 103.73 104.73 0.31863 0 0 0 1.0072 1 48023 48023 1.3295 0.72803 1 + 32107 17013 20415 20483 36173 36173 0.07695368088684518 TETLERSLEMN 11 Unmodified _TETLERSLEMN_ 0 0 0 nc|ENSG00000038532|Q2KHT3-2|CLEC16A;ENSG00000038532|ENST00000409790|CLEC16A nc|ENSG00000038532|Q2KHT3-2|CLEC16A nc|ENSG00000038532|Q2KHT3-2|CLEC16A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 661.8193969726562 2 661.816467 1321.61838 4.0472 0.0026785 -0.31313 -0.00020724 3.7341 0.0024713 661.8166374097581 18.788 0.17571 19.448 19.353 19.528 0.66072 23 12 3 0 0 0 0.69508 1 8506 8506 11.495 2.7493 1 810300 32108 522 20416 20484 36174 36174 -0.02956407967258201 TEWPPRKL 8 Unmodified _TEWPPRKL_ 0 0 0 ENSG00000139549|ENST00000649637|DHH ENSG00000139549|ENST00000649637|DHH ENSG00000139549|ENST00000649637|DHH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.7926635742188 2 513.790184 1025.56581 3.2428 0.0016661 2.0027 0.001029 5.2455 0.0026951 513.7907758823166 39.934 0.29361 39.934 39.772 40.066 0 32 12 3 0 0 0 0.70799 1 18159 18159 5.2307 0 1 870430 32109 3152 20417 20485 36175 36175 0.05405466542742943 TFAEPDIFI 9 Unmodified _TFAEPDIFI_ 0 0 0 REV__nc|ENSG00000196811|P07510-2|CHRNG REV__nc|ENSG00000196811|P07510-2|CHRNG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.7704467773438 2 526.768583 1051.52261 3.4707 0.0018282 -0.28714 -0.00015126 3.1835 0.001677 527.269648879109 91.387 0.41026 92.049 91.915 92.325 0.66198 30 18 2 0 0 0 0.27976 1 42056 42056 18.135 1.1927 1 365810 + 32110 14241 20418 20486 36176 36176 -0.0010876802521124773 TFAEPDIFI 9 Unmodified _TFAEPDIFI_ 0 0 0 REV__nc|ENSG00000196811|P07510-2|CHRNG REV__nc|ENSG00000196811|P07510-2|CHRNG MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 526.768583 1051.52261 3.7945 0.0019988 0.0051379 2.7065E-06 3.7996 0.0020015 526.7688139128454 91.782 0.17526 92.034 91.89 92.065 0.25253 -0.007435 0.00027357 NaN 18.135 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 159620 + 32111 14241 20418 20486 -0.0010876802521124773 TFAEPDIFI 9 Unmodified _TFAEPDIFI_ 0 0 0 REV__nc|ENSG00000196811|P07510-2|CHRNG REV__nc|ENSG00000196811|P07510-2|CHRNG MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 526.768583 1051.52261 3.4707 0.0018282 -0.28714 -0.00015126 3.1835 0.001677 527.269648879109 91.387 0.41026 92.049 91.915 92.325 0.66198 0.007435 -3.4361E-05 NaN 18.135 30 18 2 NaN NaN NaN NaN 0 NaN NaN 0 365810 + 32112 14241 20418 20486 -0.0010876802521124773 TFCDEDDGC 9 Unmodified _TFCDEDDGC_ 0 0 0 REV__ENSG00000177202|ENST00000321762|SPACA4 REV__ENSG00000177202|ENST00000321762|SPACA4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.65203857421875 2 502.652232 1003.28991 NaN NaN NaN NaN NaN NaN NaN 101.4 1 101.4 100.9 101.9 0 0 0 0 0.91342 1 56018 56018 0 0 1 + 32113 13729 20419 20487 36177 36177 -0.21160141149607625 TFCFRLKWYFL 11 Unmodified _TFCFRLKWYFL_ 0 0 0 REV__GRIN2A|p.S1341Afs*56|1|0.34|ENSG00000183454|chr16:9763523-9763523|T/-|frameshift_variant REV__GRIN2A|p.S1341Afs*56|1|0.34|ENSG00000183454|chr16:9763523-9763523|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.580810546875 3 508.600447 1522.77951 NaN NaN NaN NaN NaN NaN NaN 78.215 1 78.215 77.715 78.715 0 0 0 0 1.0071 1 38411 38411 1.4551 0.12547 1 + 32114 13933 20420 20488 36178 36178 0.03903430927266527 TFDASRTTF 9 Unmodified _TFDASRTTF_ 0 0 0 ENST00000553997.5_1_14:73748216-73753941:-|nuORF;ENST00000554315.5_1_14:73753704-73876743:-|nuORF;nc|ENSG00000133961|P49757-8|NUMB;nc|ENSG00000133961|P49757-7|NUMB;nc|ENSG00000133961|P49757-6|NUMB;nc|ENSG00000133961|P49757-5|NUMB;nc|ENSG00000133961|P49757-4|NUMB;nc|ENSG00000133961|P49757-2|NUMB;nc|ENSG00000133961|P49757-3|NUMB;ENSG00000133961|ENST00000555238|NUMB ENST00000553997.5_1_14:73748216-73753941:-|nuORF ENST00000553997.5_1_14:73748216-73753941:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.2525634765625 2 523.251089 1044.48762 NaN NaN NaN NaN NaN NaN NaN 38.095 1 38.729 38.229 39.229 0.63388 0 0 0 0.37777 1 17424 17424 23.79 6.6769 1 32115 2778 20421 20489 36179 36179 -0.032840108331583906 TFDVAPSRL 9 Unmodified _TFDVAPSRL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 503.2746887207031 2 503.271824 1004.5291 3.0754 0.0015477 0.2269 0.00011419 3.3023 0.0016619 503.271850825215 49.023 0.27418 49.023 48.896 49.171 0 26 14 2 0 0 0 0.018453 2 22437 22437;22488 70.332 32.156 1 2029400 32116 1384 20422 20490 36180;36181 36180 0.027011699261947797 TFDVAPSRL 9 Unmodified _TFDVAPSRL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.2733459472656 2 503.271824 1004.5291 3.029 0.0015244 0.92251 0.00046427 3.9515 0.0019887 503.2721147178567 48.002 0.38381 48.832 48.619 49.003 0.82915 42 17 3 0 0 0 0.02812 1 21873 21873 57.722 12.022 1 1821400 32117 1384 20422 20490 36182 36182 0.027011699261947797 TFDVAPSRL 9 Unmodified _TFDVAPSRL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.2740478515625 2 503.271824 1004.5291 3.3521 0.001687 0.65524 0.00032976 4.0074 0.0020168 503.2721715420604 48.813 0.36591 49.075 48.902 49.268 0.26209 24 14 2 0 0 0 0.0076144 1 22326 22326 86.332 30.155 1 3231700 32118 1384 20422 20490 36183 36183 0.027011699261947797 TFDVAPSRL 9 Unmodified _TFDVAPSRL_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.2738342285156 2 503.271824 1004.5291 3.3639 0.001693 0.87922 0.00044249 4.2432 0.0021355 503.272278188948 48.264 0.40114 48.917 48.729 49.13 0.65356 29 15 2 0 0 0 0.013715 2 22126 22074;22126 76.825 30.382 1 2105600 32119 1384 20422 20490 36184;36185 36185 0.027011699261947797 TFDVAPSRLDF 11 Unmodified _TFDVAPSRLDF_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 634.3236083984375 2 634.319502 1266.62445 3.9704 0.0025185 -0.12747 -8.0857E-05 3.843 0.0024377 634.3193282885136 67.032 0.28424 67.282 67.101 67.385 0.25011 35 17 3 0 0 0 0.082202 2 30681 30681;30731 55.235 38.122 1 759070 32120 1384 20423 20491 36186;36187 36186 0.0018047832656975515 TFDVAPSRLDF 11 Unmodified _TFDVAPSRLDF_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2;nc|ENSG00000185164|Q5JPE7-3|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 634.3218383789062 2 634.319502 1266.62445 3.9705 0.0025186 0.14273 9.0537E-05 4.1132 0.0026091 634.3196435991412 66.398 0.2523 67.054 66.928 67.18 0.65672 25 12 3 0 0 0 0.00016283 1 30433 30433 100.71 71.627 1 779520 32121 1384 20423 20491 36188 36188 0.0018047832656975515 TFDVSLLTI 9 Unmodified _TFDVSLLTI_ 0 0 0 ENST00000442006.2_1_1:39174637-39175513:+|nuORF;ENSG00000044574|ENST00000324460|HSPA5 ENST00000442006.2_1_1:39174637-39175513:+|nuORF;ENSG00000044574|ENST00000324460|HSPA5 ENST00000442006.2_1_1:39174637-39175513:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.78582763671875 2 504.784233 1007.55391 3.9828 0.0020105 -0.35963 -0.00018154 3.6232 0.0018289 504.7840148019039 95.876 0.26501 96.143 96.028 96.293 0.26751 16 13 2 0 0 0 0.29781 1 44057 44057 16.942 0 1 197280 32122 7940;550 20424 20492 36189 36189 0.050438050089155695 TFHQRGIAL 9 Unmodified _TFHQRGIAL_ 0 0 0 ENST00000463026.5_1_7:2404000-2406084:+|nuORF;ENSG00000106263|ENST00000360876|EIF3B;nc|ENSG00000106263|P55884-2|EIF3B ENST00000463026.5_1_7:2404000-2406084:+|nuORF ENST00000463026.5_1_7:2404000-2406084:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.1991271972656 3 348.197931 1041.57196 2.9111 0.0010136 0.30702 0.0001069 3.2181 0.0011205 348.19804372775207 30.623 0.32369 30.879 30.675 30.999 0.25614 50 21 3 0 0 0 0.26277 3 13937 13894;13937;13983 15.248 8.318 1 518630 32123 1559 20425 20493 36190;36191;36192 36191 0.05283984774268902 TFHQRGIAL 9 Unmodified _TFHQRGIAL_ 0 0 0 ENST00000463026.5_1_7:2404000-2406084:+|nuORF;ENSG00000106263|ENST00000360876|EIF3B;nc|ENSG00000106263|P55884-2|EIF3B ENST00000463026.5_1_7:2404000-2406084:+|nuORF ENST00000463026.5_1_7:2404000-2406084:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.7962646484375 2 521.793258 1041.57196 NaN NaN NaN NaN NaN NaN NaN 30.567 1 30.823 30.323 31.323 0.25614 0 0 0 0.33854 1 13910 13910 25.399 8.457 1 32124 1559 20425 20493 36193 36193 0.05283984774268902 TFHQRGIAL 9 Unmodified _TFHQRGIAL_ 0 0 0 ENST00000463026.5_1_7:2404000-2406084:+|nuORF;ENSG00000106263|ENST00000360876|EIF3B;nc|ENSG00000106263|P55884-2|EIF3B ENST00000463026.5_1_7:2404000-2406084:+|nuORF ENST00000463026.5_1_7:2404000-2406084:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.7955322265625 2 521.793258 1041.57196 NaN NaN NaN NaN NaN NaN NaN 30.667 1 30.923 30.423 31.423 0.25614 0 0 0 0.59707 1 13956 13956 15.847 3.3156 1 32125 1559 20425 20493 36194 36194 0.05283984774268902 TFHQRGIAL 9 Unmodified _TFHQRGIAL_ 0 0 0 ENST00000463026.5_1_7:2404000-2406084:+|nuORF;ENSG00000106263|ENST00000360876|EIF3B;nc|ENSG00000106263|P55884-2|EIF3B ENST00000463026.5_1_7:2404000-2406084:+|nuORF ENST00000463026.5_1_7:2404000-2406084:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.1988220214844 3 348.197931 1041.57196 2.4442 0.00085106 0.40968 0.00014265 2.8539 0.00099371 348.1980832666689 30.253 0.21605 30.871 30.777 30.993 0.61737 13 9 2 0 0 0 0.3144 1 13891 13891 20.415 8.1739 1 470460 32126 1559 20425 20493 36195 36195 0.05283984774268902 TFHQRGIAL 9 Unmodified _TFHQRGIAL_ 0 0 0 ENST00000463026.5_1_7:2404000-2406084:+|nuORF;ENSG00000106263|ENST00000360876|EIF3B;nc|ENSG00000106263|P55884-2|EIF3B ENST00000463026.5_1_7:2404000-2406084:+|nuORF ENST00000463026.5_1_7:2404000-2406084:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.7949829101562 2 521.793258 1041.57196 3.3753 0.0017612 0.85025 0.00044365 4.2256 0.0022049 521.7932758605086 30.273 0.12169 30.891 30.831 30.952 0.61737 6 4 2 0 0 0 0.099775 1 13905 13905 32.786 23.403 1 270200 32127 1559 20425 20493 36196 36196 0.05283984774268902 TFKEKVTSL 9 Unmodified _TFKEKVTSL_ 0 0 0 nc|ENSG00000196712|P21359-2|NF1;nc|ENSG00000196712|P21359-6|NF1;ENSG00000196712|ENST00000358273|NF1;nc|ENSG00000196712|P21359-3|NF1;nc|ENSG00000196712|P21359-5|NF1;ENST00000495910.6_1_17:29490228-29576996:+|nuORF;NF1|p.R1534Hfs*40|1|0.38|ENSG00000196712|chr17:31261734-31261734|G/-|frameshift_variant;nc|ENSG00000196712|P21359-4|NF1 nc|ENSG00000196712|P21359-2|NF1 nc|ENSG00000196712|P21359-2|NF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.802978515625 2 526.802957 1051.59136 NaN NaN NaN NaN NaN NaN NaN 27.859 1 28.121 27.621 28.621 0.26245 0 0 0 0.31736 1 12668 12668 26.268 8.1218 1 32128 5773 20426 20494 36197 36197 0.06762896274517516 TFKEKVTSL 9 Unmodified _TFKEKVTSL_ 0 0 0 nc|ENSG00000196712|P21359-2|NF1;nc|ENSG00000196712|P21359-6|NF1;ENSG00000196712|ENST00000358273|NF1;nc|ENSG00000196712|P21359-3|NF1;nc|ENSG00000196712|P21359-5|NF1;ENST00000495910.6_1_17:29490228-29576996:+|nuORF;NF1|p.R1534Hfs*40|1|0.38|ENSG00000196712|chr17:31261734-31261734|G/-|frameshift_variant;nc|ENSG00000196712|P21359-4|NF1 nc|ENSG00000196712|P21359-2|NF1 nc|ENSG00000196712|P21359-2|NF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.8043212890625 2 526.802957 1051.59136 3.1957 0.0016835 0.56879 0.00029964 3.7645 0.0019831 526.8034803093173 27.443 0.13554 28.064 28.011 28.146 0.62179 16 10 2 0 0 0 0.24524 1 12590 12590 20.415 8.1739 1 218780 32129 5773 20426 20494 36198 36198 0.06762896274517516 TFKKSSYTF 9 Unmodified _TFKKSSYTF_ 0 0 0 nc|ENSG00000171208|Q8NC67-2|NETO2;nc|ENSG00000171208|Q8NC67-3|NETO2;ENSG00000171208|ENST00000562435|NETO2 nc|ENSG00000171208|Q8NC67-2|NETO2 nc|ENSG00000171208|Q8NC67-2|NETO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.7896118164062 2 554.787307 1107.56006 NaN NaN NaN NaN NaN NaN NaN 26.492 1 27.117 26.617 27.617 0.62505 0 0 0 0.68339 1 12145 12145 13.042 2.2185 1 32130 4795 20427 20495 36199 36199 0.010583232404314913 TFLPCFFIL 9 Unmodified _TFLPCFFIL_ 0 0 0 REV__MER21A_dup1924|chr21:42596367-42597211:-|1.1454877344273586|0.0472559580865997|4.6|530.0|9|2|sense REV__MER21A_dup1924|chr21:42596367-42597211:-|1.1454877344273586|0.0472559580865997|4.6|530.0|9|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.7963256835938 2 550.796089 1099.57763 NaN NaN NaN NaN NaN NaN NaN 28.541 1 28.801 28.301 29.301 0.2602 0 0 0 0.90611 1 12982 12982 2.0598 0.57785 1 + 32131 17827 20428 20496 36200 36200 0.03181947241728267 TFLRSPRGR 9 Unmodified _TFLRSPRGR_ 0 0 0 REV__ENST00000592895.5_1_19:1985822-1986326:-|nuORF REV__ENST00000592895.5_1_19:1985822-1986326:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3189086914062 2 545.317432 1088.62031 3.4792 0.0018973 -0.81329 -0.0004435 2.6659 0.0014538 545.3169124440693 83.541 1.7312 83.788 83.088 84.819 0.24722 279 102 3 0 0 0 1.0041 1 38664 38664 3.9444 1.3669 1 2574300 + 32132 17596 20429 20497 36201 36201 0.07954478414194455 TFLRSPRGR 9 Unmodified _TFLRSPRGR_ 0 0 0 REV__ENST00000592895.5_1_19:1985822-1986326:-|nuORF REV__ENST00000592895.5_1_19:1985822-1986326:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.318359375 2 545.317432 1088.62031 3.6481 0.0019894 -1.0829 -0.00059054 2.5652 0.0013988 545.3167571998881 83.226 1.6957 83.886 83.094 84.79 0.66019 259 100 4 0 0 0 0.98132 2 38420 38420;38468 4.3292 1.7518 1 2968300 + 32133 17596 20429 20497 36202;36203 36202 0.07954478414194455 TFLSELVPFE 10 Unmodified _TFLSELVPFE_ 0 0 0 nc|ENSG00000187741|O15360-3|FANCA;ENSG00000187741|ENST00000389301|FANCA nc|ENSG00000187741|O15360-3|FANCA nc|ENSG00000187741|O15360-3|FANCA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.175048828125 2 591.308072 1180.60159 NaN NaN NaN NaN NaN NaN NaN 42.606 1 42.606 42.106 43.106 0 0 0 0 0.99464 1 19398 19398 6.2058 0 1 32134 5632 20430 20498 36204 36204 0.018514592090923543 TFRCYFLIHA 10 Unmodified _TFRCYFLIHA_ 0 0 0 REV__ENST00000247270.3_1_17:29648586-29648760:-|nuORF REV__ENST00000247270.3_1_17:29648586-29648760:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 635.7796020507812 2 635.823701 1269.63285 NaN NaN NaN NaN NaN NaN NaN 85.981 1 86.652 86.152 87.152 0.67061 0 0 0 0.99733 1 39593 39593 3.9444 0.3479 1 + 32135 14899 20431 20499 36205 36205 0.008817537622007876 TFRPHYWEWWL 11 Unmodified _TFRPHYWEWWL_ 0 0 0 REV__nc|ENSG00000184908|P51801-2|CLCNKB REV__nc|ENSG00000184908|P51801-2|CLCNKB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 810.8932495117188 2 810.890961 1619.76737 NaN NaN NaN NaN NaN NaN NaN 52.015 1 52.677 52.177 53.177 0.66198 0 0 0 1.008 1 23786 23786 0.35063 0.35063 1 + 32136 13992 20432 20500 36206 36206 -0.017724694915386863 TFRQRFRQFRY 11 Unmodified _TFRQRFRQFRY_ 0 0 0 ENSG00000171222|ENST00000305978|SCAND1 ENSG00000171222|ENST00000305978|SCAND1 ENSG00000171222|ENST00000305978|SCAND1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 802.6293334960938 2 802.931483 1603.84841 NaN NaN NaN NaN NaN NaN NaN 100.75 1 100.81 100.31 101.31 0.059723 0 0 0 1.008 1 54690 54690 0.30703 0.03801 1 32137 4796 20433 20501 36207 36207 0.07064231271215249 TFRRWHRKRRK 11 Unmodified _TFRRWHRKRRK_ 0 0 0 ENST00000416673.6_1_2:114369763-114384446:-|nuORF ENST00000416673.6_1_2:114369763-114384446:-|nuORF ENST00000416673.6_1_2:114369763-114384446:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.2877807617188 3 542.994064 1625.96036 NaN NaN NaN NaN NaN NaN NaN 74.2 1 74.2 73.7 74.7 0 0 0 0 1.0082 1 36225 36225 0 0 1 32138 7716 20434 20502 36208 36208 0.17242130138811262 TFRRWHRKRRK 11 Unmodified _TFRRWHRKRRK_ 0 0 0 ENST00000416673.6_1_2:114369763-114384446:-|nuORF ENST00000416673.6_1_2:114369763-114384446:-|nuORF ENST00000416673.6_1_2:114369763-114384446:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 813.7989501953125 2 813.987458 1625.96036 NaN NaN NaN NaN NaN NaN NaN 94.836 1 94.918 94.418 95.418 0.082001 0 0 0 1.0082 1 49993 49993 0 0 1 32139 7716 20434 20502 36209 36209 0.17242130138811262 TFRRWHRKRRK 11 Unmodified _TFRRWHRKRRK_ 0 0 0 ENST00000416673.6_1_2:114369763-114384446:-|nuORF ENST00000416673.6_1_2:114369763-114384446:-|nuORF ENST00000416673.6_1_2:114369763-114384446:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 813.9857177734375 2 813.987458 1625.96036 NaN NaN NaN NaN NaN NaN NaN 77.657 1 77.91 77.41 78.41 0.25335 0 0 0 1.0082 1 35764 35764 0 0 1 32140 7716 20434 20502 36210 36210 0.17242130138811262 TFRRWHRKRRK 11 Unmodified _TFRRWHRKRRK_ 0 0 0 ENST00000416673.6_1_2:114369763-114384446:-|nuORF ENST00000416673.6_1_2:114369763-114384446:-|nuORF ENST00000416673.6_1_2:114369763-114384446:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 813.985107421875 2 813.987458 1625.96036 NaN NaN NaN NaN NaN NaN NaN 92.92 1 93.567 93.067 94.067 0.64714 0 0 0 1.0082 1 42749 42749 0 0 1 32141 7716 20434 20502 36211 36211 0.17242130138811262 TFTFSHATF 9 Unmodified _TFTFSHATF_ 0 0 0 ENSG00000204713|ENST00000377199|TRIM27 ENSG00000204713|ENST00000377199|TRIM27 ENSG00000204713|ENST00000377199|TRIM27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.753173828125 2 529.750724 1057.4869 2.8603 0.0015153 -0.039979 -2.1179E-05 2.8204 0.0014941 529.750568968773 57.125 0.20107 57.903 57.862 58.064 0.77786 37 21 2 0 0 0 0.025323 1 26169 26169 61.357 34.474 1 1853800 32142 6030 20435 20503 36212 36212 -0.03954805482203483 TFTFSHATF 9 Unmodified _TFTFSHATF_ 0 0 0 ENSG00000204713|ENST00000377199|TRIM27 ENSG00000204713|ENST00000377199|TRIM27 ENSG00000204713|ENST00000377199|TRIM27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.751953125 2 529.750724 1057.4869 3.1576 0.0016728 -0.18345 -9.7185E-05 2.9742 0.0015756 529.7506458442389 58.17 0.21863 58.432 58.227 58.446 0.26227 24 11 3 0 0 0 0.012748 1 26596 26596 78.149 44.047 1 2600900 32143 6030 20435 20503 36213 36213 -0.03954805482203483 TFTFSHATF 9 Unmodified _TFTFSHATF_ 0 0 0 ENSG00000204713|ENST00000377199|TRIM27 ENSG00000204713|ENST00000377199|TRIM27 ENSG00000204713|ENST00000377199|TRIM27 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 529.750724 1057.4869 3.1107 0.0016479 0.44104 0.00023364 3.5517 0.0018815 529.751312512025 58.211 0.074585 58.211 58.146 58.22 0 0.04521 0.0008772 NaN 78.149 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 803750 32144 6030 20435 20503 -0.03954805482203483 TFTFSHATF 9 Unmodified _TFTFSHATF_ 0 0 0 ENSG00000204713|ENST00000377199|TRIM27 ENSG00000204713|ENST00000377199|TRIM27 ENSG00000204713|ENST00000377199|TRIM27 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 529.750724 1057.4869 3.3263 0.0017621 -0.83366 -0.00044163 2.4926 0.0013205 529.7502351245321 57.449 0.28735 58.118 58.041 58.328 0.66829 -0.048379 -0.00047335 NaN 78.149 32 17 2 NaN NaN NaN NaN 0 NaN NaN 0 1003500 32145 6030 20435 20503 -0.03954805482203483 TGDGPDPQL 9 Unmodified _TGDGPDPQL_ 0 0 0 REV__nc|ENSG00000168763|Q8NE01-2|CNNM3 REV__nc|ENSG00000168763|Q8NE01-2|CNNM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.2104187011719 2 450.208889 898.403226 2.8844 0.0012986 0.29317 0.00013199 3.1775 0.0014306 450.2090878074696 37.81 0.37515 37.81 37.585 37.96 0 32 14 3 0 0 0 0.0024283 1 17176 17176 99.755 0 1 1420100 + 32146 13365 20436 20504 36214 36214 -0.050039616499134354 TGDGPDPQL 9 Unmodified _TGDGPDPQL_ 0 0 0 REV__nc|ENSG00000168763|Q8NE01-2|CNNM3 REV__nc|ENSG00000168763|Q8NE01-2|CNNM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.2104797363281 2 450.208889 898.403226 2.771 0.0012475 0.03885 1.749E-05 2.8098 0.001265 450.20889474196963 37.043 0.39893 37.837 37.586 37.985 0.79342 38 17 3 0 0 0 0.020151 1 16736 16736 68.081 0 1 1430300 + 32147 13365 20436 20504 36215 36215 -0.050039616499134354 TGDGPDPQL 9 Unmodified _TGDGPDPQL_ 0 0 0 REV__nc|ENSG00000168763|Q8NE01-2|CNNM3 REV__nc|ENSG00000168763|Q8NE01-2|CNNM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.210205078125 2 450.208889 898.403226 2.9549 0.0013303 0.3393 0.00015275 3.2942 0.0014831 450.20908814005037 37.5 0.44159 37.761 37.51 37.951 0.26083 33 13 3 0 0 0 0.012748 1 17036 17036 78.149 0 1 1563900 + 32148 13365 20436 20504 36216 36216 -0.050039616499134354 TGDGPDPQL 9 Unmodified _TGDGPDPQL_ 0 0 0 REV__nc|ENSG00000168763|Q8NE01-2|CNNM3 REV__nc|ENSG00000168763|Q8NE01-2|CNNM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.21002197265625 2 450.208889 898.403226 3.1022 0.0013967 0.041926 1.8876E-05 3.1442 0.0014155 450.2089008699576 36.977 0.46194 37.607 37.377 37.839 0.62999 42 19 3 0 0 0 0.017868 2 16976 16867;16976 71.134 0 1 1365100 + 32149 13365 20436 20504 36217;36218 36218 -0.050039616499134354 TGDQKNVL 8 Unmodified _TGDQKNVL_ 0 0 0 REV__nc|ENSG00000152910|Q9C0A0-2|CNTNAP4 REV__nc|ENSG00000152910|Q9C0A0-2|CNTNAP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.7502746582031 2 437.735074 873.455596 3.2117 0.0014059 0.049464 2.1652E-05 3.2612 0.0014275 437.7352062573932 20.441 0.19252 21.095 20.988 21.18 0.65346 16 14 2 0 0 0 0.66653 1 9250 9250 8.5933 0 1 94341 + 32150 12662 20437 20505 36219 36219 0.01380621483701816 TGDSTLLVGN 10 Unmodified _TGDSTLLVGN_ 0 0 0 ENSG00000185823|ENST00000329468|NPAP1 ENSG00000185823|ENST00000329468|NPAP1 ENSG00000185823|ENST00000329468|NPAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.7524108886719 2 488.750921 975.48729 3.0013 0.0014669 0.59253 0.0002896 3.5939 0.0017565 488.75104687823995 54.177 0.27249 54.441 54.312 54.584 0.26462 19 13 2 0 0 0 0.55057 1 24789 24789 19.257 2.3147 1 438570 32151 5534 20438 20506 36220 36220 -0.0014343055298695617 TGEAWPRVIKI 11 Unmodified _TGEAWPRVIKI_ 0 0 0 REV__nc|ENSG00000135506|Q13438-8|OS9 REV__nc|ENSG00000135506|Q13438-8|OS9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 635.369140625 2 635.36933 1268.72411 NaN NaN NaN NaN NaN NaN NaN 57.99 1 58.659 58.159 59.159 0.66829 0 0 0 0.97175 1 26539 26539 9.3831 0 1 + 32152 12022 20439 20507 36221 36221 0.10049340731166012 TGELIQPRISR 11 Unmodified _TGELIQPRISR_ 0 0 0 REV__ENST00000285850.11_1_14:23284527-23284629:-|nuORF REV__ENST00000285850.11_1_14:23284527-23284629:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 635.3707275390625 2 635.367318 1268.72008 NaN NaN NaN NaN NaN NaN NaN 58.795 1 58.795 58.295 59.295 0 0 0 0 0.87973 1 27152 27152 18.146 0 1 + 32153 15110 20440 20508 36222 36222 0.09647251237447563 TGGGEGIEVL 10 Unmodified _TGGGEGIEVL_ 0 0 0 ENST00000471825.1_1_22:28306950-28315179:-|nuORF;ENST00000460566.5_1_22:28293057-28315179:-|nuORF;PITPNB|p.Q189Rfs*8|1|0.29|ENSG00000180957|chr22:27860211-27860211|G/-|frameshift_variant;ENSG00000180957|ENST00000335272|PITPNB;nc|ENSG00000180957|P48739-2|PITPNB;nc|ENSG00000180957|P48739-3|PITPNB ENST00000471825.1_1_22:28306950-28315179:-|nuORF ENST00000471825.1_1_22:28306950-28315179:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.2402648925781 2 466.24019 930.465826 2.6592 0.0012398 -0.16305 -7.602E-05 2.4961 0.0011638 466.24023691522325 25.91 0.19275 26.673 26.586 26.779 0.76356 14 12 2 0 0 0 0.66557 1 11653 11653 14.838 0 1 186920 32154 5271 20441 20509 36223 36223 -0.0021881558170662174 TGGGEGIEVL 10 Unmodified _TGGGEGIEVL_ 0 0 0 ENST00000471825.1_1_22:28306950-28315179:-|nuORF;ENST00000460566.5_1_22:28293057-28315179:-|nuORF;PITPNB|p.Q189Rfs*8|1|0.29|ENSG00000180957|chr22:27860211-27860211|G/-|frameshift_variant;ENSG00000180957|ENST00000335272|PITPNB;nc|ENSG00000180957|P48739-2|PITPNB;nc|ENSG00000180957|P48739-3|PITPNB ENST00000471825.1_1_22:28306950-28315179:-|nuORF ENST00000471825.1_1_22:28306950-28315179:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 466.24019 930.465826 2.7508 0.0012825 1.0462 0.00048777 3.797 0.0017703 466.2407822819099 26.524 0.15909 26.789 26.721 26.88 0.26489 0.05783 0.0005605 NaN 14.838 14 11 2 NaN NaN NaN NaN 0 NaN NaN 0 125110 32155 5271 20441 20509 -0.0021881558170662174 TGKKKCKK 8 Unmodified _TGKKKCKK_ 0 0 0 REV__L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|61|2|sense REV__L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|61|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 460.6834411621094 2 460.78913 919.563706 NaN NaN NaN NaN NaN NaN NaN 74.859 1 75.524 75.024 76.024 0.6644 0 0 0 0.99035 1 34475 34475 0.69038 0 1 + 32156 17794 20442 20510 36224 36224 0.10070714533298997 TGKLKLKRPE 10 Unmodified _TGKLKLKRPE_ 0 0 0 nc|ENSG00000168781|Q6PFW1-6|PPIP5K1;ENST00000488768.5_1_15:43865553-43876720:-|nuORF;nc|ENSG00000168781|Q6PFW1-5|PPIP5K1;nc|ENSG00000168781|Q6PFW1-7|PPIP5K1;nc|ENSG00000168781|Q6PFW1-4|PPIP5K1;nc|ENSG00000168781|Q6PFW1-3|PPIP5K1;nc|ENSG00000168781|Q6PFW1-2|PPIP5K1;nc|ENSG00000168781|Q6PFW1|PPIP5K1;ENSG00000168781|ENST00000420765|PPIP5K1 nc|ENSG00000168781|Q6PFW1-6|PPIP5K1 nc|ENSG00000168781|Q6PFW1-6|PPIP5K1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.3775634765625 2 585.371872 1168.72919 NaN NaN NaN NaN NaN NaN NaN 20.835 1 21.489 20.989 21.989 0.65346 0 0 0 1.0013 1 9457 9457 0.35063 0 1 32157 4650 20443 20511 36225 36225 0.15157644593773512 TGLIEPMEGI 10 Unmodified _TGLIEPMEGI_ 0 0 0 REV__ENST00000242848.8_2_13:46559740-46559809:-|nuORF REV__ENST00000242848.8_2_13:46559740-46559809:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.2755126953125 2 530.273175 1058.5318 3.2374 0.0017167 0.64695 0.00034306 3.8843 0.0020598 530.273493874576 78.654 0.25569 79.316 79.199 79.454 0.66198 23 15 2 0 0 0 0.84709 1 36293 36293 6.2058 0 1 656040 + 32158 14883 20444 20512 36226 36226 0.004872572688327637 TGLKVKHLL 9 Unmodified _TGLKVKHLL_ 0 0 0 ENSG00000152104|ENST00000366956|PTPN14 ENSG00000152104|ENST00000366956|PTPN14 ENSG00000152104|ENST00000366956|PTPN14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 336.8912353515625 3 336.890327 1007.64915 2.4556 0.00082727 0.13091 4.4102E-05 2.5865 0.00087137 336.8903694018672 26.534 0.17831 26.534 26.38 26.558 0 25 18 2 0 0 0 0.044468 1 11923 11923 49.554 14.622 1 639080 32159 3738 20445 20513 36227 36227 0.14563202990609625 TGLKVKHLL 9 Unmodified _TGLKVKHLL_ 0 0 0 ENSG00000152104|ENST00000366956|PTPN14 ENSG00000152104|ENST00000366956|PTPN14 ENSG00000152104|ENST00000366956|PTPN14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 336.8915710449219 3 336.890327 1007.64915 2.1645 0.00072919 0.48098 0.00016204 2.6454 0.00089123 336.89047651259744 25.503 0.22327 26.266 26.176 26.399 0.76356 38 19 3 0 0 0 0.099775 2 11437 11437;11490 32.786 12.371 1 516630 32160 3738 20445 20513 36228;36229 36228 0.14563202990609625 TGLKVKHLL 9 Unmodified _TGLKVKHLL_ 0 0 0 ENSG00000152104|ENST00000366956|PTPN14 ENSG00000152104|ENST00000366956|PTPN14 ENSG00000152104|ENST00000366956|PTPN14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.89111328125 3 336.890327 1007.64915 2.4907 0.00083911 0.14007 4.7189E-05 2.6308 0.00088629 336.8902659044002 26.115 0.31935 26.38 26.21 26.529 0.26489 69 29 3 0 0 0 0.044468 3 11857 11815;11857;11905 49.554 23.358 1 1732000 32161 3738 20445 20513 36230;36231;36232 36231 0.14563202990609625 TGLKVKHLL 9 Unmodified _TGLKVKHLL_ 0 0 0 ENSG00000152104|ENST00000366956|PTPN14 ENSG00000152104|ENST00000366956|PTPN14 ENSG00000152104|ENST00000366956|PTPN14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.89129638671875 3 336.890327 1007.64915 2.2301 0.0007513 0.74327 0.0002504 2.9734 0.0010017 336.8904849581839 25.789 0.25072 26.415 26.267 26.517 0.62505 55 24 3 0 0 0 0.02812 2 11818 11774;11818 57.722 22.79 1 1911400 32162 3738 20445 20513 36233;36234 36234 0.14563202990609625 TGLKVKHLL 9 Unmodified _TGLKVKHLL_ 0 0 0 ENSG00000152104|ENST00000366956|PTPN14 ENSG00000152104|ENST00000366956|PTPN14 ENSG00000152104|ENST00000366956|PTPN14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.8321838378906 2 504.831852 1007.64915 3.1627 0.0015966 0.31013 0.00015656 3.4728 0.0017532 504.83193190244543 25.779 0.13442 26.404 26.312 26.446 0.62505 18 14 2 0 0 0 0.097139 1 11822 11822 29.082 14.243 1 271400 32163 3738 20445 20513 36235 36235 0.14563202990609625 TGLQKVQSL 9 Unmodified _TGLQKVQSL_ 0 0 0 ENST00000524852.1_1_11:6340395-6340857:-|nuORF;ENST00000532354.1_1_11:6340395-6341123:-|nuORF;ENSG00000170955|ENST00000303927|CAVIN3 ENST00000524852.1_1_11:6340395-6340857:-|nuORF ENST00000524852.1_1_11:6340395-6340857:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.2894287109375 2 487.287474 972.560395 3.2133 0.0015658 0.014896 7.2586E-06 3.2282 0.0015731 487.2874360784127 32.571 0.27248 32.571 32.455 32.727 0 29 18 2 0 0 0 0.0013791 1 14761 14761 114.5 35.769 1 540390 32164 4779 20446 20514 36236 36236 0.07301742960294177 TGLQKVQSL 9 Unmodified _TGLQKVQSL_ 0 0 0 ENST00000524852.1_1_11:6340395-6340857:-|nuORF;ENST00000532354.1_1_11:6340395-6341123:-|nuORF;ENSG00000170955|ENST00000303927|CAVIN3 ENST00000524852.1_1_11:6340395-6340857:-|nuORF ENST00000524852.1_1_11:6340395-6340857:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.2896423339844 2 487.287474 972.560395 NaN NaN NaN NaN NaN NaN NaN 31.655 1 32.443 31.943 32.943 0.78879 0 0 0 2.0669E-10 1 14299 14299 128.58 42.247 1 32165 4779 20446 20514 36237 36237 0.07301742960294177 TGLQKVQSL 9 Unmodified _TGLQKVQSL_ 0 0 0 ENST00000524852.1_1_11:6340395-6340857:-|nuORF;ENST00000532354.1_1_11:6340395-6341123:-|nuORF;ENSG00000170955|ENST00000303927|CAVIN3 ENST00000524852.1_1_11:6340395-6340857:-|nuORF ENST00000524852.1_1_11:6340395-6340857:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2890625 2 487.287474 972.560395 3.3853 0.0016496 0.07948 3.873E-05 3.4648 0.0016883 487.28727772423105 32.461 0.26335 32.715 32.564 32.827 0.25452 33 15 3 0 0 0 2.0165E-54 2 14792 14743;14792 228.37 106.19 1 2639200 32166 4779 20446 20514 36238;36239 36239 0.07301742960294177 TGLQKVQSL 9 Unmodified _TGLQKVQSL_ 0 0 0 ENST00000524852.1_1_11:6340395-6340857:-|nuORF;ENST00000532354.1_1_11:6340395-6341123:-|nuORF;ENSG00000170955|ENST00000303927|CAVIN3 ENST00000524852.1_1_11:6340395-6340857:-|nuORF ENST00000524852.1_1_11:6340395-6340857:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2890930175781 2 487.287474 972.560395 NaN NaN NaN NaN NaN NaN NaN 32.602 1 32.856 32.356 33.356 0.25452 0 0 0 0.796 1 14847 14847 9.3831 3.6227 1 32167 4779 20446 20514 36240 36240 0.07301742960294177 TGLQKVQSL 9 Unmodified _TGLQKVQSL_ 0 0 0 ENST00000524852.1_1_11:6340395-6340857:-|nuORF;ENST00000532354.1_1_11:6340395-6341123:-|nuORF;ENSG00000170955|ENST00000303927|CAVIN3 ENST00000524852.1_1_11:6340395-6340857:-|nuORF ENST00000524852.1_1_11:6340395-6340857:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.28900146484375 2 487.287474 972.560395 3.1742 0.0015467 0.27301 0.00013304 3.4472 0.0016798 487.2874644902133 31.848 0.33241 32.465 32.334 32.667 0.61737 43 18 4 0 0 0 2.8728E-41 3 14619 14573;14619;14675 211.85 89.676 1 2091700 32168 4779 20446 20514 36241;36242;36243 36242 0.07301742960294177 TGPESDSECCM 11 Unmodified _TGPESDSECCM_ 0 0 0 REV__ENSG00000174945|ENST00000683327|AMZ1 REV__ENSG00000174945|ENST00000683327|AMZ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 579.6937255859375 2 579.691032 1157.36751 NaN NaN NaN NaN NaN NaN NaN 6.3831 1 6.6883 6.1883 7.1883 0.30519 0 0 0 1.008 1 2898 2898 0.35063 0.35063 1 + 32169 13650 20447 20515 36244 36244 -0.20487871275736325 TGRALMGKP 9 Unmodified _TGRALMGKP_ 0 0 0 REV__ENSG00000111348|ENST00000228945|ARHGDIB REV__ENSG00000111348|ENST00000228945|ARHGDIB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.7626037597656 2 465.763112 929.511671 2.21 0.0010293 -1.633 -0.00076061 0.57692 0.00026871 465.7621492950652 71.44 0.28214 72.103 71.897 72.179 0.66324 32 20 2 0 0 0 0.8705 1 32725 32725 6.2058 0.97511 1 617830 + 32170 11229 20448 20516 36245 36245 0.044095511195450854 TGRLGRVP 8 Unmodified _TGRLGRVP_ 0 0 0 REV__ENST00000467099.6_1_17:18003545-18010551:+|nuORF REV__ENST00000467099.6_1_17:18003545-18010551:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 428.2622375488281 2 428.261594 854.508634 2.3849 0.0010213 0.10936 4.6833E-05 2.4942 0.0010682 428.26152451246304 86.398 0.33612 86.398 86.247 86.583 0 99 43 3 0 0 0 0.72385 1 44270 44270 3.9444 0 1 35401000 + 32171 16550 20449 20517 36246 36246 0.0755604405703707 TGRLGRVP 8 Unmodified _TGRLGRVP_ 0 0 0 REV__ENST00000467099.6_1_17:18003545-18010551:+|nuORF REV__ENST00000467099.6_1_17:18003545-18010551:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 428.26263427734375 2 428.261594 854.508634 3.2473 0.0013907 -0.36175 -0.00015492 2.8855 0.0012358 428.2614965750361 96.838 0.53049 97.44 97.267 97.798 0.6019 50 24 3 0 0 0 0.73203 1 44586 44586 3.2813 0 1 981360 + 32172 16550 20449 20517 36247 36247 0.0755604405703707 TGRNNADT 8 Unmodified _TGRNNADT_ 0 0 0 nc|ENSG00000163635|O15265-2|ATXN7 nc|ENSG00000163635|O15265-2|ATXN7 nc|ENSG00000163635|O15265-2|ATXN7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 848.389404296875 1 848.385685 847.378408 4.7302 0.0040131 -0.47985 -0.0004071 4.2504 0.003606 848.3852985472888 103.65 0.059311 103.97 103.93 103.99 0.31863 11 5 3 0 0 0 0.7471 1 47908 47908 0 0 1 1091900 32173 9716 20450 20518 36248 36248 -0.051385967326268656 TGRNNADT 8 Unmodified _TGRNNADT_ 0 0 0 nc|ENSG00000163635|O15265-2|ATXN7 nc|ENSG00000163635|O15265-2|ATXN7 nc|ENSG00000163635|O15265-2|ATXN7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 848.3890991210938 1 848.385685 847.378408 4.1579 0.0035275 -0.29762 -0.00025249 3.8603 0.003275 848.3853444363826 103.59 0.050049 104.19 104.16 104.21 0.59822 8 4 2 0 0 0 0.7471 1 47915 47915 0 0 1 763980 32174 9716 20450 20518 36249 36249 -0.051385967326268656 TGTRLAPW 8 Unmodified _TGTRLAPW_ 0 0 0 nc|ENSG00000151376|Q16798-2|ME3;ME3|p.V396Sfs*8|1|0.05|ENSG00000151376|chr11:86448202-86448202|T/-|frameshift_variant;ENSG00000151376|ENST00000524826|ME3 nc|ENSG00000151376|Q16798-2|ME3 nc|ENSG00000151376|Q16798-2|ME3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.2500305175781 2 451.248152 900.481751 3.0527 0.0013775 1.3231 0.00059706 4.3759 0.0019746 451.24881544030444 67.165 0.32487 67.823 67.662 67.987 0.65777 34 18 2 0 0 0 0.63902 1 30790 30790 10.824 4.1008 1 1187000 32175 3706 20451 20519 36250 36250 0.02752935445857929 TGVLRRKRRRP 11 Unmodified _TGVLRRKRRRP_ 0 0 0 REV__ENST00000286827.7_1_21:32711646-32711721:-|nuORF REV__ENST00000286827.7_1_21:32711646-32711721:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 697.9480590820312 2 697.95001 1393.88547 NaN NaN NaN NaN NaN NaN NaN 81.18 1 81.18 80.68 81.68 0 0 0 0 1.0063 1 40420 40420 2.4985 0 1 + 32176 15111 20452 20520 36251 36251 0.2042794760761808 TGVPKKRKKMH 11 Unmodified _TGVPKKRKKMH_ 0 0 0 REV__chr9:87773644-87774140|382|12.9|0.18|6.19|+|1|CTSL3P,CTSL3P|1 REV__chr9:87773644-87774140|382|12.9|0.18|6.19|+|1|CTSL3P,CTSL3P|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2680358886719 3 437.267691 1308.78124 3.049 0.0013333 -0.58471 -0.00025568 2.4643 0.0010776 437.2671652819365 48.377 0.41255 48.639 48.403 48.816 0.26209 72 25 3 0 0 0 0.86798 1 22161 22161 3.8459 1.4111 1 2674700 + 32177 10059 20453 20521 36252 36252 0.13920484735899663 TGVPKKRKKMH 11 Unmodified _TGVPKKRKKMH_ 0 0 0 REV__chr9:87773644-87774140|382|12.9|0.18|6.19|+|1|CTSL3P,CTSL3P|1 REV__chr9:87773644-87774140|382|12.9|0.18|6.19|+|1|CTSL3P,CTSL3P|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.26934814453125 3 437.267691 1308.78124 2.9858 0.0013056 0.63608 0.00027814 3.6218 0.0015837 437.2678601822451 48.913 1.0703 49.175 48.816 49.886 0.26209 142 40 4 0 0 0 0.86798 1 22365 22365 3.8459 3.8459 1 8824200 + 32178 10059 20453 20521 36253 36253 0.13920484735899663 TGVPKKRKKMH 11 Unmodified _TGVPKKRKKMH_ 0 0 0 REV__chr9:87773644-87774140|382|12.9|0.18|6.19|+|1|CTSL3P,CTSL3P|1 REV__chr9:87773644-87774140|382|12.9|0.18|6.19|+|1|CTSL3P,CTSL3P|1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 437.267691 1308.78124 2.7146 0.001187 0.21939 9.593E-05 2.934 0.0012829 437.6021810472272 47.767 0.43864 48.596 48.39 48.829 0.82915 -0.10479 0.00054888 NaN 3.8459 45 19 3 NaN NaN NaN NaN 0 NaN NaN 0 984910 + 32179 10059 20453 20521 0.13920484735899663 TGYLGSTLL 9 Unmodified _TGYLGSTLL_ 0 0 0 ENST00000529299.2_1_1:110170417-110171118:+|nuORF ENST00000529299.2_1_1:110170417-110171118:+|nuORF ENST00000529299.2_1_1:110170417-110171118:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.7572021484375 2 462.755475 923.496398 2.5481 0.0011791 2.0795 0.00096231 4.6276 0.0021414 462.756010109492 38.387 0.22266 38.651 38.536 38.758 0.26408 10 6 2 0 0 0 0.29781 1 17511 17511 16.942 0 1 291950 32180 8697 20454 20522 36254 36254 0.03158962803343002 TGYLGSTLL 9 Unmodified _TGYLGSTLL_ 0 0 0 ENST00000529299.2_1_1:110170417-110171118:+|nuORF ENST00000529299.2_1_1:110170417-110171118:+|nuORF ENST00000529299.2_1_1:110170417-110171118:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 462.755475 923.496398 2.7176 0.0012576 2.5109 0.0011619 5.2285 0.0024195 462.7563841591658 37.816 0.3409 38.45 38.304 38.645 0.63388 -0.10062 0.00018013 NaN 16.942 17 11 2 NaN NaN NaN NaN 0 NaN NaN 0 235470 32181 8697 20454 20522 0.03158962803343002 TGYLKGYTL 9 Unmodified _TGYLKGYTL_ 0 0 0 ENSG00000265241|ENST00000583313|RBM8A;nc|ENSG00000265241|Q9Y5S9-2|RBM8A ENSG00000265241|ENST00000583313|RBM8A ENSG00000265241|ENST00000583313|RBM8A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.27825927734375 2 508.276575 1014.5386 3.3527 0.0017041 -0.56517 -0.00028726 2.7875 0.0014168 508.2763558734492 49.393 0.41217 49.655 49.427 49.839 0.26146 30 14 3 0 0 0 8.7541E-05 2 22559 22559;22621 136.39 29.452 1 2595600 32182 6318 20455 20523 36255;36256 36255 0.03190938211707817 TGYLKGYTL 9 Unmodified _TGYLKGYTL_ 0 0 0 ENSG00000265241|ENST00000583313|RBM8A;nc|ENSG00000265241|Q9Y5S9-2|RBM8A ENSG00000265241|ENST00000583313|RBM8A ENSG00000265241|ENST00000583313|RBM8A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.2783203125 2 508.276575 1014.5386 3.4205 0.0017386 -0.55503 -0.00028211 2.8655 0.0014565 508.27626156532165 48.911 0.39009 49.566 49.401 49.791 0.65524 33 14 3 0 0 0 8.7541E-05 2 22359 22359;22419 136.39 18.324 1 2086900 32183 6318 20455 20523 36257;36258 36257 0.03190938211707817 THHLDELAHL 10 Unmodified _THHLDELAHL_ 0 0 0 REV__ENSG00000150750|ENST00000280325|POU2AF2 REV__ENSG00000150750|ENST00000280325|POU2AF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 395.8739318847656 3 395.871883 1184.59382 NaN NaN NaN NaN NaN NaN NaN 33.813 1 34.601 34.101 35.101 0.78795 0 0 0 0.97102 1 15308 15308 5.7834 1.6668 1 + 32184 12593 20456 20524 36259 36259 0.008907447321689688 THINEMMVF 9 Unmodified _THINEMMVF_ 0 0 0 ENSG00000171505|ENST00000304880|OR1N1 ENSG00000171505|ENST00000304880|OR1N1 ENSG00000171505|ENST00000304880|OR1N1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.2611083984375 2 561.259545 1120.50454 3.4042 0.0019106 -1.1577 -0.00064976 2.2465 0.0012609 561.2587489613985 49.701 0.55936 49.701 49.394 49.953 0 41 23 2 0 0 0 0.19064 1 22758 22758 24.021 3.1494 1 416460 32185 4809 20457 20525 36260 36260 -0.05089549543185967 THLFDHVL 8 Unmodified _THLFDHVL_ 0 0 0 REV__nc|ENSG00000048707|Q5THJ4-2|VPS13D REV__nc|ENSG00000048707|Q5THJ4-2|VPS13D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 327.8431701660156 3 327.843265 980.507966 NaN NaN NaN NaN NaN NaN NaN 26.949 1 27.571 27.071 28.071 0.62179 0 0 0 0.99035 1 12355 12355 3.9444 0.3479 1 + 32186 10342 20458 20526 36261 36261 0.01693204617322408 THNSGSGPG 9 Unmodified _THNSGSGPG_ 0 0 0 ENST00000283365.13_1_18:32073289-32073373:+|nuORF ENST00000283365.13_1_18:32073289-32073373:+|nuORF ENST00000283365.13_1_18:32073289-32073373:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 814.4401245117188 1 813.348571 812.341294 4.1599 0.0033834 0.21301 0.00017325 4.3729 0.0035567 813.349933790575 103.6 0.036804 104.2 104.17 104.21 0.59821 4 2 2 0 0 0 1.2459 1 47921 47921 0 0 1 137730 32187 6705 20459 20527 36262 36262 -0.07238268278354099 THRLGAALSL 10 Unmodified _THRLGAALSL_ 0 0 0 SCG2|p.W8R|1|0.22|ENSG00000171951|chr2:223599261-223599261|A/G|missense_variant SCG2|p.W8R|1|0.22|ENSG00000171951|chr2:223599261-223599261|A/G|missense_variant SCG2|p.W8R|1|0.22|ENSG00000171951|chr2:223599261-223599261|A/G|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 346.8742980957031 3 346.873336 1037.59818 2.6816 0.00093018 -0.42555 -0.00014761 2.2561 0.00078257 346.87322998221157 29.646 0.36669 29.904 29.702 30.068 0.25804 57 27 3 0 0 0 0.48762 1 13471 13471 21.59 1.1756 1 901550 32188 18256 20460 20528 36263 36263 0.08088253945743418 THRRRRLVRK 10 Unmodified _THRRRRLVRK_ 0 0 0 nc|ENSG00000138119|Q9NZM1-2|MYOF;nc|ENSG00000138119|Q9NZM1-6|MYOF;nc|ENSG00000138119|Q9NZM1-3|MYOF;ENSG00000138119|ENST00000359263|MYOF;nc|ENSG00000138119|Q9NZM1-5|MYOF nc|ENSG00000138119|Q9NZM1-2|MYOF nc|ENSG00000138119|Q9NZM1-2|MYOF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 689.4452514648438 2 689.442352 1376.87015 NaN NaN NaN NaN NaN NaN NaN 83.763 1 83.763 83.263 84.263 0 0 0 0 1.0004 1 42255 42255 1.3295 0.92882 1 32189 3073 20461 20529 36264 36264 0.1967908081041969 THVGKVNIF 9 Unmodified _THVGKVNIF_ 0 0 0 ENSG00000140395|ENST00000267973|SKIC8 ENSG00000140395|ENST00000267973|SKIC8 ENSG00000140395|ENST00000267973|SKIC8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.7925720214844 2 507.790184 1013.56581 3.2874 0.0016693 0.27557 0.00013993 3.563 0.0018092 507.7907340864308 37.18 0.23576 37.81 37.653 37.889 0.62999 17 10 2 0 0 0 0.41574 1 17015 17015 13.906 6.6168 1 119940 32190 3196 20462 20530 36265 36265 0.059574665427589935 THVGKVNIF 9 Unmodified _THVGKVNIF_ 0 0 0 ENSG00000140395|ENST00000267973|SKIC8 ENSG00000140395|ENST00000267973|SKIC8 ENSG00000140395|ENST00000267973|SKIC8 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 507.790184 1013.56581 3.1526 0.0016009 -0.40257 -0.00020442 2.7501 0.0013965 507.79035312641264 37.957 0.23563 37.957 37.86 38.096 0 0.13751 -8.328E-05 NaN 13.906 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 373980 32191 3196 20462 20530 0.059574665427589935 THVGKVNIF 9 Unmodified _THVGKVNIF_ 0 0 0 ENSG00000140395|ENST00000267973|SKIC8 ENSG00000140395|ENST00000267973|SKIC8 ENSG00000140395|ENST00000267973|SKIC8 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 507.790184 1013.56581 3.1234 0.001586 -0.85723 -0.0004353 2.2662 0.0011507 507.7898490865054 36.897 0.21891 37.691 37.562 37.781 0.79342 -0.12856 -0.00054502 NaN 13.906 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 178840 32192 3196 20462 20530 0.059574665427589935 TIAEEAEDG 9 Unmodified _TIAEEAEDG_ 0 0 0 ENST00000490764.5_1_2:234327938-234366271:+|nuORF;nc|ENSG00000077044|Q16760-2|DGKD;ENSG00000077044|ENST00000264057|DGKD ENST00000490764.5_1_2:234327938-234366271:+|nuORF ENST00000490764.5_1_2:234327938-234366271:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 934.3424682617188 1 934.399997 933.392721 3.305 0.0030882 1.7769 0.0016604 5.0819 0.0047485 934.4033610945569 93.66 0.28046 93.66 93.607 93.888 0 55 36 2 0 0 0 0.10586 1 50138 50138 4.3292 0.38484 1 13563000 32193 8392 20463 20531 36266 36266 -0.07663989094999124 TIARLRLKKIF 11 Unmodified _TIARLRLKKIF_ 0 0 0 nc|ENSG00000146223|Q6DKI1-2|RPL7L1;ENST00000462348.1_1_6:42848614-42854030:+|nuORF;ENST00000397415.7_1_6:42848808-42854199:+|nuORF;ENSG00000146223|ENST00000493763|RPL7L1 nc|ENSG00000146223|Q6DKI1-2|RPL7L1 nc|ENSG00000146223|Q6DKI1-2|RPL7L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 679.5368041992188 2 679.953364 1357.89217 NaN NaN NaN NaN NaN NaN NaN 98.544 1 98.544 98.044 99.044 0 0 0 0 1.0072 1 53969 53969 1.3295 0 1 32194 3507 20464 20532 36267 36267 0.22754447715624337 TICNDPGTVI 10 Unmodified _TICNDPGTVI_ 0 0 0 REV__ENSG00000160345|ENST00000429260|PIERCE1 REV__ENSG00000160345|ENST00000429260|PIERCE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.7557373046875 2 516.755149 1031.49575 3.4268 0.0017708 -0.71579 -0.00036989 2.711 0.0014009 516.7548028935712 49.403 0.82471 50.227 49.933 50.757 0.82396 99 42 3 0 0 0 0.58053 1 22672 22672 18.146 1.0335 1 1232200 + 32195 12878 20465 20533 36268 36268 -0.018741999080248206 TIEFKAHQL 9 Unmodified _TIEFKAHQL_ 0 0 0 REV__ENSG00000177103|ENST00000651296|DSCAML1 REV__ENSG00000177103|ENST00000651296|DSCAML1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.8829040527344 3 362.869591 1085.58694 2.3696 0.00085986 0.94889 0.00034432 3.3185 0.0012042 362.8698617086119 40.052 0.3437 40.852 40.531 40.875 0.80014 26 18 2 0 0 0 0.54955 1 18104 18104 7.609 0.97858 1 707890 + 32196 13727 20466 20534 36269 36269 0.04757431851612637 TIEFKAHQL 9 Unmodified _TIEFKAHQL_ 0 0 0 REV__ENSG00000177103|ENST00000651296|DSCAML1 REV__ENSG00000177103|ENST00000651296|DSCAML1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.8828430175781 3 362.869591 1085.58694 2.7912 0.0010128 0.88744 0.00032203 3.6786 0.0013349 362.8698820109774 40.524 0.36157 40.793 40.644 41.006 0.26904 25 15 2 0 0 0 0.54955 1 18523 18523 7.609 0.50723 1 611030 + 32197 13727 20466 20534 36270 36270 0.04757431851612637 TIELSADFYL 10 Unmodified _TIELSADFYL_ 0 0 0 REV__ENSG00000196074|ENST00000357552|SYCP2 REV__ENSG00000196074|ENST00000357552|SYCP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.78369140625 2 586.297704 1170.58086 NaN NaN NaN NaN NaN NaN NaN 97.15 1 97.15 96.65 97.65 0 0 0 0 0.99225 1 52796 52796 6.7232 0 1 + 32198 14187 20467 20535 36271 36271 0.002388688294331587 TIGLLFWF 8 Unmodified _TIGLLFWF_ 0 0 0 nc|ENSG00000055955|Q14624-4|ITIH4 nc|ENSG00000055955|Q14624-4|ITIH4 nc|ENSG00000055955|Q14624-4|ITIH4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.78424072265625 2 498.781296 995.54804 3.4355 0.0017135 2.1239 0.0010593 5.5593 0.0027729 498.782241618695 101.46 0.15303 102.05 101.96 102.12 0.59717 11 5 3 0 0 0 0.70146 1 46987 46987 5.7604 0 1 297230 32199 9548 20468 20536 36272 36272 0.05008751287903124 TIHFRKHQTLH 11 Unmodified _TIHFRKHQTLH_ 0 0 0 REV__ZNF100|p.Y383Tfs*67|1|0.48|ENSG00000197020|chr19:21727165-21727165|A/-|frameshift_variant REV__ZNF100|p.Y383Tfs*67|1|0.48|ENSG00000197020|chr19:21727165-21727165|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 709.3959350585938 2 709.394202 1416.77385 NaN NaN NaN NaN NaN NaN NaN 89.387 1 89.452 88.952 89.952 0.064346 0 0 0 0.99038 1 45806 45806 7.609 1.8771 1 + 32200 14254 20469 20537 36273 36273 0.08213468459848627 TIHLKVFAK 9 Unmodified _TIHLKVFAK_ 0 0 0 nc|ENSG00000149294|P13591-6|NCAM1;nc|ENSG00000149294|P13591-5|NCAM1;nc|ENSG00000149294|P13591-4|NCAM1;nc|ENSG00000149294|P13591-3|NCAM1;nc|ENSG00000149294|P13591-1|NCAM1;ENSG00000149294|ENST00000316851|NCAM1 nc|ENSG00000149294|P13591-6|NCAM1 nc|ENSG00000149294|P13591-6|NCAM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.8902282714844 3 352.890327 1055.64915 NaN NaN NaN NaN NaN NaN NaN 12.454 1 13.097 12.597 13.597 0.64272 0 0 0 0.73102 1 5582 5582 11.495 3.3392 1 32201 3638 20470 20538 36274 36274 0.12355202990579528 TIHRLESELKK 11 Unmodified _TIHRLESELKK_ 0 0 0 nc|ENSG00000100629|Q6ZU80-1|CEP128;ENSG00000100629|ENST00000555265|CEP128 nc|ENSG00000100629|Q6ZU80-1|CEP128 nc|ENSG00000100629|Q6ZU80-1|CEP128 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 677.3989868164062 2 677.396076 1352.7776 4.1544 0.0028142 -0.95641 -0.00064787 3.198 0.0021663 677.395353917968 94.916 1.4515 95.533 94.852 96.304 0.61736 201 78 3 0 0 0 0.91359 1 43528 43528 0.26902 0 1 4206500 32202 1233 20471 20539 36275 36275 0.1153209344302013 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.4827880859375 4 359.482989 1433.90285 2.6855 0.00096538 -0.067784 -2.4367E-05 2.6177 0.00094102 359.48286851576177 37.533 0.44064 37.533 37.196 37.637 0 69 16 5 0 0 0 0.94443 1 16910 16910 0 0 1 6357000 32203 9552 20472 20540 36276 36276 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.4839782714844 4 359.482989 1433.90285 2.6562 0.00095486 0.0031708 1.1399E-06 2.6594 0.000956 359.4829012505675 39.779 0.86102 39.779 39.255 40.116 0 156 36 5 0 0 0 0.9427 1 17928 17928 0.12286 0.12286 1 10408000 32204 9552 20472 20540 36277 36277 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.48370361328125 4 359.482989 1433.90285 2.6614 0.00095674 -0.38656 -0.00013896 2.2749 0.00081778 359.4827178668126 40.382 0.40042 40.382 40.093 40.493 0 51 13 5 0 0 0 0.94443 2 18252 18252;18331 0 0 1 6071300 32205 9552 20472 20540 36278;36279 36278 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.4835205078125 4 359.482989 1433.90285 2.5545 0.0009183 -0.075765 -2.7236E-05 2.4787 0.00089106 359.4829903093204 42.599 0.45177 42.599 42.376 42.828 0 40 29 2 0 0 0 0.94443 1 19489 19489 0 0 1 1359500 32206 9552 20472 20540 36280 36280 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.4839172363281 4 359.482989 1433.90285 2.5433 0.00091427 -0.26429 -9.5009E-05 2.279 0.00081926 359.73364653156585 45.156 0.47488 45.156 44.993 45.468 0 45 25 3 0 0 0 0.94443 1 20768 20768 0 0 1 1533600 32207 9552 20472 20540 36281 36281 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.4833984375 4 359.482989 1433.90285 2.5501 0.00091671 -0.25489 -9.1627E-05 2.2952 0.00082509 359.4828611065959 42.072 0.30096 42.072 41.861 42.162 0 29 18 2 0 0 0 0.12676 1 19052 19052 0 0 1 1973500 32208 9552 20472 20540 36282 36282 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 359.73480224609375 4 359.482989 1433.90285 2.3953 0.00086105 -0.30022 -0.00010792 2.095 0.00075313 359.4826538888305 39.239 0.56734 40.037 39.799 40.366 0.79762 74 27 4 0 0 0 0.94443 2 17694 17694;17749 0 0 1 2370300 32209 9552 20472 20540 36283;36284 36283 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 359.4840393066406 4 359.482989 1433.90285 2.3016 0.00082739 -0.15748 -5.661E-05 2.1441 0.00077078 359.4829299474289 41.142 0.18152 41.945 41.926 42.108 0.80351 16 12 2 0 0 0 0.12676 1 18705 18705 0 0 1 848690 32210 9552 20472 20540 36285 36285 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 718.4712524414062 2 717.958701 1433.90285 3.9186 0.0028134 -0.031383 -2.2532E-05 3.8872 0.0027908 717.9585035386393 37.096 0.60656 37.357 36.994 37.6 0.26083 33 19 3 0 0 0 0.94443 2 16825 16825;16897 0 0 1 657010 32211 9552 20472 20540 36286;36287 36286 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.4837951660156 4 359.482989 1433.90285 2.4192 0.00086965 0.071092 2.5556E-05 2.4903 0.00089521 359.4829079440855 38.707 0.50314 38.971 38.69 39.193 0.26408 74 19 5 0 0 0 0.9427 1 17604 17604 0.12286 0.12286 1 7539200 32212 9552 20472 20540 36288 36288 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.97625732421875 3 478.974893 1433.90285 2.9841 0.0014293 -0.11878 -5.6893E-05 2.8653 0.0013724 478.97471594442504 39.164 0.7061 39.429 39.144 39.851 0.26408 49 28 2 0 0 0 0.9427 1 17803 17803 0.12286 0.12286 1 1331900 32213 9552 20472 20540 36289 36289 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.7348937988281 4 359.482989 1433.90285 2.8524 0.0010254 -0.33846 -0.00012167 2.5139 0.00090372 359.48285472396276 41.423 0.49395 41.693 41.58 42.074 0.27021 63 29 3 0 0 0 0.94443 1 18964 18964 0 0 1 1605200 32214 9552 20472 20540 36290 36290 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.48382568359375 4 359.482989 1433.90285 2.6678 0.00095902 -0.23135 -8.3166E-05 2.4364 0.00087586 359.4827720056289 42.743 0.41073 43.013 42.633 43.044 0.27021 48 18 3 0 0 0 0.94443 1 19464 19464 0 0 1 4987700 32215 9552 20472 20540 36291 36291 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.97625732421875 3 478.974893 1433.90285 3.2275 0.0015459 -0.17819 -8.5351E-05 3.0493 0.0014605 478.97465996464433 36.16 0.73256 36.786 36.567 37.299 0.62631 60 25 3 0 0 0 0.94443 1 16588 16588 0 0 1 660570 32216 9552 20472 20540 36292 36292 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.4841613769531 4 359.482989 1433.90285 2.5233 0.00090708 0.30475 0.00010955 2.828 0.0010166 359.48298229262326 38.984 1.1087 39.622 38.808 39.917 0.63778 157 42 4 0 0 0 0.9427 2 17611 17611;17654 0.12286 0.12286 1 6128000 32217 9552 20472 20540 36293;36294 36293 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.4839782714844 4 359.482989 1433.90285 2.7705 0.00099593 -0.31068 -0.00011168 2.4598 0.00088425 359.48273268162194 40.217 0.38506 40.859 40.489 40.874 0.64135 23 16 2 0 0 0 0.94443 1 18324 18324 0 0 1 1779500 32218 9552 20472 20540 36295 36295 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.48394775390625 4 359.482989 1433.90285 2.6892 0.00096671 -0.30436 -0.00010941 2.3848 0.0008573 359.48289262253047 41.589 0.53031 42.234 41.749 42.279 0.64451 43 28 2 0 0 0 0.94443 2 18844 18844;18971 0 0 1 2422000 32219 9552 20472 20540 36296;36297 36296 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 478.974893 1433.90285 3.1081 0.0014887 0.0034258 1.6409E-06 3.1115 0.0014903 478.97487472020936 36.091 0.65358 36.883 36.683 37.336 0.79131 0.048337 0.00017731 NaN 0 35 27 3 NaN NaN NaN NaN 0 NaN NaN 0 520100 32220 9552 20472 20540 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 359.482989 1433.90285 2.2927 0.0008242 0.35174 0.00012644 2.6445 0.00095064 359.733953115111 44.574 0.52512 45.395 45.029 45.555 0.82075 0.11792 0.0003945 NaN 0 31 26 2 NaN NaN NaN NaN 0 NaN NaN 0 889510 32221 9552 20472 20540 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 359.482989 1433.90285 2.747 0.0009875 0.078099 2.8075E-05 2.8251 0.0010156 359.73382893517277 42.202 0.22782 42.472 42.405 42.633 0.27021 0.037217 0.00018079 NaN 0 29 16 2 NaN NaN NaN NaN 0 NaN NaN 0 776590 32222 9552 20472 20540 0.20325287933292202 TIHRRKRRRR 10 Unmodified _TIHRRKRRRR_ 0 0 0 nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL nc|ENSG00000062650|Q7Z5K2-2|WAPL MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 359.482989 1433.90285 2.6905 0.0009672 0.17791 6.3956E-05 2.8684 0.0010312 359.483075198095 44.586 0.34359 45.236 44.976 45.319 0.64998 -0.041061 0.00014455 NaN 0 30 13 3 NaN NaN NaN NaN 0 NaN NaN 0 646970 32223 9552 20472 20540 0.20325287933292202 TIILPTTRRSL 11 Unmodified _TIILPTTRRSL_ 0 0 0 REV__ENST00000246662.8_1_17:39726462-39727664:-|nuORF REV__ENST00000246662.8_1_17:39726462-39727664:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 424.26751708984375 3 424.266233 1269.77687 3.0316 0.0012862 -0.40343 -0.00017116 2.6281 0.001115 424.265903899155 29.674 0.3181 30.292 30.117 30.435 0.61789 35 18 3 0 0 0 0.67851 1 13614 13614 12.228 2.9838 1 330660 + 32224 14897 20473 20541 36298 36298 0.15277298793989758 TIILSKRKKA 10 Unmodified _TIILSKRKKA_ 0 0 0 REV__ENST00000463422.5_1_2:85981774-86000028:+|nuORF REV__ENST00000463422.5_1_2:85981774-86000028:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.3467407226562 2 579.390065 1156.76558 NaN NaN NaN NaN NaN NaN NaN 69.781 1 69.781 69.281 70.281 0 0 0 0 0.99774 1 33764 33764 3.5965 0.31518 1 + 32225 16511 20474 20542 36299 36299 0.19346521490524538 TIIPPIYP 8 Unmodified _TIIPPIYP_ 0 0 0 REV__nc|ENSG00000168743|Q6UXI9-2|NPNT REV__nc|ENSG00000168743|Q6UXI9-2|NPNT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 305.18475341796875 3 305.184628 912.532055 2.4143 0.0007368 -0.96021 -0.00029304 1.4541 0.00044376 305.18429504033213 46.23 0.50139 46.882 46.502 47.003 0.65171 38 17 3 0 0 0 0.7471 1 21098 21098 0.45834 0 1 1925800 + 32226 13363 20475 20543 36300 36300 0.07229045050985405 TIIPPIYP 8 Unmodified _TIIPPIYP_ 0 0 0 REV__nc|ENSG00000168743|Q6UXI9-2|NPNT REV__nc|ENSG00000168743|Q6UXI9-2|NPNT MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 305.184628 912.532055 1.7053 0.00052044 -0.55828 -0.00017038 1.1471 0.00035006 305.184454986644 47.147 0.21465 47.147 47.037 47.252 0 0.084994 0.00033109 NaN 0.45834 28 11 3 NaN NaN NaN NaN 0 NaN NaN 0 1136800 + 32227 13363 20475 20543 0.07229045050985405 TIIPPIYP 8 Unmodified _TIIPPIYP_ 0 0 0 REV__nc|ENSG00000168743|Q6UXI9-2|NPNT REV__nc|ENSG00000168743|Q6UXI9-2|NPNT MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 305.184628 912.532055 2.1861 0.00066716 -0.91863 -0.00028035 1.2675 0.00038681 305.18432579258365 46.307 0.37218 47.136 46.887 47.259 0.82915 0.074224 1.17E-06 NaN 0.45834 43 19 3 NaN NaN NaN NaN 0 NaN NaN 0 1639800 + 32228 13363 20475 20543 0.07229045050985405 TIIPPIYP 8 Unmodified _TIIPPIYP_ 0 0 0 REV__nc|ENSG00000168743|Q6UXI9-2|NPNT REV__nc|ENSG00000168743|Q6UXI9-2|NPNT MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 305.184628 912.532055 2.4049 0.00073394 -1.2961 -0.00039556 1.1088 0.00033838 305.184177398215 46.817 0.46468 47.082 46.785 47.249 0.26561 0.020584 -0.00034446 NaN 0.45834 32 15 3 NaN NaN NaN NaN 0 NaN NaN 0 2476200 + 32229 13363 20475 20543 0.07229045050985405 TIKEKQYIL 9 Unmodified _TIKEKQYIL_ 0 0 0 ENSG00000102897|ENST00000567954|LYRM1 ENSG00000102897|ENST00000567954|LYRM1 ENSG00000102897|ENST00000567954|LYRM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.3419799804688 2 568.339707 1134.66486 3.8907 0.0022113 0.37396 0.00021253 4.2647 0.0024238 568.3395714543896 31.96 0.27928 32.214 32.1 32.379 0.25452 26 16 3 0 0 0 0.51799 1 14574 14574 12.241 5.5175 1 210520 32230 1359 20476 20544 36301 36301 0.10291444716995102 TIKEKQYIL 9 Unmodified _TIKEKQYIL_ 0 0 0 ENSG00000102897|ENST00000567954|LYRM1 ENSG00000102897|ENST00000567954|LYRM1 ENSG00000102897|ENST00000567954|LYRM1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 568.339707 1134.66486 3.5434 0.0020139 1.3609 0.00077344 4.9043 0.0027873 568.8425085250702 32.036 0.13996 32.036 31.953 32.093 0 -0.059788 0.0009199 NaN 12.241 18 13 2 NaN NaN NaN NaN 0 NaN NaN 0 254160 32231 1359 20476 20544 0.10291444716995102 TIKEKQYIL 9 Unmodified _TIKEKQYIL_ 0 0 0 ENSG00000102897|ENST00000567954|LYRM1 ENSG00000102897|ENST00000567954|LYRM1 ENSG00000102897|ENST00000567954|LYRM1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 568.339707 1134.66486 3.5944 0.0020429 0.48887 0.00027784 4.0833 0.0023207 568.3401562534116 31.419 0.24056 32.037 31.91 32.151 0.61736 -0.058921 -7.129E-05 NaN 12.241 25 15 2 NaN NaN NaN NaN 0 NaN NaN 0 315000 32232 1359 20476 20544 0.10291444716995102 TIKIKALLKKV 11 Unmodified _TIKIKALLKKV_ 0 0 0 nc|ENSG00000179915|Q9ULB1|NRXN1;nc|ENSG00000179915|Q9ULB1-2|NRXN1;ENSG00000179915|ENST00000401669|NRXN1;nc|ENSG00000179915|Q9ULB1-3|NRXN1 nc|ENSG00000179915|Q9ULB1|NRXN1 nc|ENSG00000179915|Q9ULB1|NRXN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 627.8983764648438 2 627.947216 1253.87988 NaN NaN NaN NaN NaN NaN NaN 72.926 1 73.625 73.125 74.125 0.69881 0 0 0 1.0072 1 35136 35136 1.3295 0.13619 1 32233 5235 20477 20545 36302 36302 0.26309411252555037 TIKKRFKVL 9 Unmodified _TIKKRFKVL_ 0 0 0 ENST00000557912.1_1_15:34634171-34635317:-|nuORF;ENSG00000182117|ENST00000328848|NOP10 ENST00000557912.1_1_15:34634171-34635317:-|nuORF ENST00000557912.1_1_15:34634171-34635317:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 378.2581481933594 3 378.257009 1131.7492 2.7818 0.0010522 0.11945 4.5183E-05 2.9013 0.0010974 378.25709041654255 14.908 1.1159 14.908 14.607 15.723 0 425 130 5 0 0 0 0.0095519 8 6553 6468;6509;6553;6597;6643;6686;6771;6816 83.429 33.874 1 5564300 32234 5312 20478 20546 36303;36304;36305;36306;36307;36308;36309;36310 36305 0.18859440324399657 TIKKRFKVL 9 Unmodified _TIKKRFKVL_ 0 0 0 ENST00000557912.1_1_15:34634171-34635317:-|nuORF;ENSG00000182117|ENST00000328848|NOP10 ENST00000557912.1_1_15:34634171-34635317:-|nuORF ENST00000557912.1_1_15:34634171-34635317:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.88427734375 2 566.881876 1131.7492 3.3994 0.0019271 0.2081 0.00011797 3.6075 0.002045 566.8819017229945 14.862 0.49478 14.862 14.686 15.18 0 102 55 2 0 0 0 0.19064 3 6603 6506;6555;6603 24.021 18.407 1 245540 32235 5312 20478 20546 36311;36312;36313 36313 0.18859440324399657 TIKKRFKVL 9 Unmodified _TIKKRFKVL_ 0 0 0 ENST00000557912.1_1_15:34634171-34635317:-|nuORF;ENSG00000182117|ENST00000328848|NOP10 ENST00000557912.1_1_15:34634171-34635317:-|nuORF ENST00000557912.1_1_15:34634171-34635317:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 378.25775146484375 3 378.257009 1131.7492 2.4675 0.00093336 -0.17563 -6.6433E-05 2.2919 0.00086693 378.25696576136386 14.547 0.51344 14.774 14.517 15.03 0.22622 132 37 5 0 0 0 0.019364 4 6368 6320;6368;6411;6454 61.602 15.622 1 10834000 32236 5312 20478 20546 36314;36315;36316;36317 36315 0.18859440324399657 TIKKRFKVL 9 Unmodified _TIKKRFKVL_ 0 0 0 ENST00000557912.1_1_15:34634171-34635317:-|nuORF;ENSG00000182117|ENST00000328848|NOP10 ENST00000557912.1_1_15:34634171-34635317:-|nuORF ENST00000557912.1_1_15:34634171-34635317:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.8839721679688 2 566.881876 1131.7492 3.4876 0.001977 -0.709 -0.00040192 2.7786 0.0015751 566.8815523873499 14.564 0.32102 14.79 14.629 14.95 0.22622 49 23 3 0 0 0 0.11458 2 6361 6361;6404 29.082 18.258 1 501970 32237 5312 20478 20546 36318;36319 36318 0.18859440324399657 TIKKRFKVL 9 Unmodified _TIKKRFKVL_ 0 0 0 ENST00000557912.1_1_15:34634171-34635317:-|nuORF;ENSG00000182117|ENST00000328848|NOP10 ENST00000557912.1_1_15:34634171-34635317:-|nuORF ENST00000557912.1_1_15:34634171-34635317:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 378.2572021484375 3 378.257009 1131.7492 2.5436 0.00096214 -0.55535 -0.00021007 1.9883 0.00075207 378.25679880478697 14.165 0.14925 14.472 14.411 14.56 0.3069 51 16 4 0 0 0 0.024388 2 6392 6392;6438 49.527 19.687 1 46327000 32238 5312 20478 20546 36320;36321 36320 0.18859440324399657 TIKKRFKVL 9 Unmodified _TIKKRFKVL_ 0 0 0 ENST00000557912.1_1_15:34634171-34635317:-|nuORF;ENSG00000182117|ENST00000328848|NOP10 ENST00000557912.1_1_15:34634171-34635317:-|nuORF ENST00000557912.1_1_15:34634171-34635317:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 566.8829345703125 2 566.881876 1131.7492 NaN NaN NaN NaN NaN NaN NaN 14.171 1 14.478 13.978 14.978 0.3069 0 0 0 0.025394 1 6411 6411 63.961 38.561 1 32239 5312 20478 20546 36322 36322 0.18859440324399657 TIKKRFKVL 9 Unmodified _TIKKRFKVL_ 0 0 0 ENST00000557912.1_1_15:34634171-34635317:-|nuORF;ENSG00000182117|ENST00000328848|NOP10 ENST00000557912.1_1_15:34634171-34635317:-|nuORF ENST00000557912.1_1_15:34634171-34635317:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.2582092285156 3 378.257009 1131.7492 2.8059 0.0010613 -0.33372 -0.00012623 2.4721 0.0009351 378.25688765293637 13.881 0.24448 14.529 14.361 14.605 0.6482 78 33 3 0 0 0 0.017293 3 6228 6183;6228;6268 57.249 27.409 1 10426000 32240 5312 20478 20546 36323;36324;36325 36324 0.18859440324399657 TIKKRFKVL 9 Unmodified _TIKKRFKVL_ 0 0 0 ENST00000557912.1_1_15:34634171-34635317:-|nuORF;ENSG00000182117|ENST00000328848|NOP10 ENST00000557912.1_1_15:34634171-34635317:-|nuORF ENST00000557912.1_1_15:34634171-34635317:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.25799560546875 3 378.257009 1131.7492 2.8018 0.0010598 -0.50475 -0.00019093 2.297 0.00086886 378.2568618914726 14.096 0.23015 14.744 14.599 14.829 0.6482 112 44 3 0 0 0 0.012748 2 6304 6304;6346 61.602 28.157 1 15406000 32241 5312 20478 20546 36326;36327 36326 0.18859440324399657 TIKKRFKVL 9 Unmodified _TIKKRFKVL_ 0 0 0 ENST00000557912.1_1_15:34634171-34635317:-|nuORF;ENSG00000182117|ENST00000328848|NOP10 ENST00000557912.1_1_15:34634171-34635317:-|nuORF ENST00000557912.1_1_15:34634171-34635317:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.8829956054688 2 566.881876 1131.7492 NaN NaN NaN NaN NaN NaN NaN 14.099 1 14.747 14.247 15.247 0.6482 0 0 0 0.069424 1 6339 6339 47.749 20.865 1 32242 5312 20478 20546 36328 36328 0.18859440324399657 TIKLYWWRFLS 11 Unmodified _TIKLYWWRFLS_ 0 0 0 ENSG00000145428|ENST00000347063|RNF175 ENSG00000145428|ENST00000347063|RNF175 ENSG00000145428|ENST00000347063|RNF175 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 756.9216918945312 2 756.921729 1511.82891 NaN NaN NaN NaN NaN NaN NaN 107.16 1 107.76 107.26 108.26 0.60074 0 0 0 1.0072 1 49465 49465 1.3295 0 1 32243 3468 20479 20547 36329 36329 0.09346462207736295 TIKMKETWKT 10 Unmodified _TIKMKETWKT_ 0 0 0 ENST00000372628.5_1_X:102863555-102864059:+|nuORF;ENST00000243286.7_1_X:102862967-102864059:+|nuORF ENST00000372628.5_1_X:102863555-102864059:+|nuORF ENST00000372628.5_1_X:102863555-102864059:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 316.8682556152344 4 317.178512 1264.68494 2.2915 0.00072681 0.29786 9.4475E-05 2.5894 0.00082129 317.1787439993824 34.449 0.55901 34.703 34.443 35.002 0.25389 51 25 3 0 0 0 0.12676 1 15749 15749 5.4027 0.35519 1 819110 32244 6473 20480 20548 36330 36330 0.06318872385281793 TIKMKETWKT 10 Unmodified _TIKMKETWKT_ 0 0 0 ENST00000372628.5_1_X:102863555-102864059:+|nuORF;ENST00000243286.7_1_X:102862967-102864059:+|nuORF ENST00000372628.5_1_X:102863555-102864059:+|nuORF ENST00000372628.5_1_X:102863555-102864059:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 317.178512 1264.68494 1.777 0.00056362 1.2752 0.00040446 3.0522 0.00096808 317.1791234065358 34.299 0.51807 34.299 34.166 34.684 0 -0.11868 0.00039497 NaN 5.4027 56 28 3 NaN NaN NaN NaN 0 NaN NaN 0 1078300 32245 6473 20480 20548 0.06318872385281793 TIKMKETWKT 10 Unmodified _TIKMKETWKT_ 0 0 0 ENST00000372628.5_1_X:102863555-102864059:+|nuORF;ENST00000243286.7_1_X:102862967-102864059:+|nuORF ENST00000372628.5_1_X:102863555-102864059:+|nuORF ENST00000372628.5_1_X:102863555-102864059:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 317.178512 1264.68494 1.8985 0.00060217 0.83434 0.00026463 2.7329 0.0008668 317.4294814931747 33.55 0.45475 34.338 34.005 34.46 0.78795 -0.079688 -0.00016435 NaN 5.4027 43 28 2 NaN NaN NaN NaN 0 NaN NaN 0 659350 32246 6473 20480 20548 0.06318872385281793 TIKMKETWKT 10 Unmodified _TIKMKETWKT_ 0 0 0 ENST00000372628.5_1_X:102863555-102864059:+|nuORF;ENST00000243286.7_1_X:102862967-102864059:+|nuORF ENST00000372628.5_1_X:102863555-102864059:+|nuORF ENST00000372628.5_1_X:102863555-102864059:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 317.178512 1264.68494 2.0006 0.00063456 1.4638 0.00046429 3.4644 0.0010988 317.1789523848467 33.71 0.58456 34.331 33.914 34.499 0.62031 -0.087066 0.00063426 NaN 5.4027 40 25 2 NaN NaN NaN NaN 0 NaN NaN 0 579920 32247 6473 20480 20548 0.06318872385281793 TIKNVKGTSK 10 Unmodified _TIKNVKGTSK_ 0 0 0 REV__ENSG00000204390|ENST00000375654|HSPA1L REV__ENSG00000204390|ENST00000375654|HSPA1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.3292236328125 2 538.327131 1074.63971 2.7904 0.0015021 0.90923 0.00048946 3.6996 0.0019916 538.3272395526105 97.871 0.18353 97.871 97.754 97.938 0 31 15 3 0 0 0 0.92226 1 53420 53420 2.4985 1.0166 1 15936000 + 32248 14413 20481 20549 36331 36331 0.10537389914406958 TIKPKRLRRYI 11 Unmodified _TIKPKRLRRYI_ 0 0 0 REV__nc|ENSG00000122224|Q9HBG7-2|LY9 REV__nc|ENSG00000122224|Q9HBG7-2|LY9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 722.4671630859375 2 722.46717 1442.91979 NaN NaN NaN NaN NaN NaN NaN 102.02 1 102.08 101.58 102.58 0.057198 0 0 0 1.0072 1 55394 55394 1.3295 0.92882 1 + 32249 11578 20482 20550 36332 36332 0.21604350975894704 TIKSVRQAF 9 Unmodified _TIKSVRQAF_ 0 0 0 ENSG00000183208|ENST00000329600|GDPGP1 ENSG00000183208|ENST00000329600|GDPGP1 ENSG00000183208|ENST00000329600|GDPGP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.2266235351562 2 525.308741 1048.60293 NaN NaN NaN NaN NaN NaN NaN 31.497 1 32.114 31.614 32.614 0.61736 0 0 0 0.82031 1 14441 14441 8.5933 1.304 1 32250 5370 20483 20551 36333 36333 0.08057138088520333 TIKTESTLKT 10 Unmodified _TIKTESTLKT_ 0 0 0 ENSG00000164687|ENST00000297258|FABP5;ENST00000435729.1_1_2:152042805-152043093:+|nuORF;nc|ENSG00000293165|A8MUU1|FABP5P3;ENST00000477993.1_1_7:152139729-152140032:+|nuORF ENSG00000164687|ENST00000297258|FABP5 ENSG00000164687|ENST00000297258|FABP5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.1943054199219 3 374.551928 1120.63395 2.1162 0.00079262 0.6552 0.0002454 2.7714 0.001038 374.55215965485235 12.907 0.11926 13.214 13.159 13.279 0.30727 5 3 2 0 0 0 0.12676 1 5837 5837 0.62683 0.21856 1 83802 32251 4334 20484 20552 36334 36334 0.07846246612098184 TIKTKRTIQF 10 Unmodified _TIKTKRTIQF_ 0 0 0 ENSG00000167552|ENST00000301071|TUBA1A;ENSG00000075886|ENST00000321253|TUBA3D;ENSG00000152086|ENST00000312988|TUBA3E;ENSG00000198033|ENST00000400113|TUBA3C;ENSG00000167553|ENST00000301072|TUBA1C;nc|ENSG00000198033|P0DPH7-2|TUBA3C;nc|ENSG00000167552|Q71U36-2|TUBA1A ENSG00000167552|ENST00000301071|TUBA1A ENSG00000167552|ENST00000301071|TUBA1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.5884704589844 3 412.587195 1234.73976 3.1535 0.0013011 -0.26269 -0.00010838 2.8908 0.0011927 412.5871884012978 19.848 0.33159 20.506 20.383 20.714 0.65829 71 28 3 0 0 0 0.64548 3 9038 8994;9038;9081 15.739 9.1152 1 524200 32252 839 20485 20553 36335;36336;36337 36336 0.1317762724820568 TIKYKPKQL 9 Unmodified _TIKYKPKQL_ 0 0 0 SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant;nc|ENSG00000135317|Q9Y5W7-3|SNX14;nc|ENSG00000135317|Q9Y5W7-4|SNX14;ENSG00000135317|ENST00000314673|SNX14;ENST00000508980.5_1_6:86270935-86284080:-|nuORF;SNX14|p.L337*|1|0.35|ENSG00000135317|chr6:85547210-85547210|A/-|frameshift_variant;nc|ENSG00000135317|Q9Y5W7-2|SNX14 SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 373.5704040527344 3 373.569253 1117.68593 2.8122 0.0010505 -0.46986 -0.00017553 2.3423 0.00087501 373.56891799165123 14.223 0.1234 14.223 14.127 14.25 0 17 11 2 0 0 0 0.04013 1 6249 6249 51.415 17.97 1 1173900 32253 2863 20486 20554 36338 36338 0.1317945481650895 TIKYKPKQL 9 Unmodified _TIKYKPKQL_ 0 0 0 SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant;nc|ENSG00000135317|Q9Y5W7-3|SNX14;nc|ENSG00000135317|Q9Y5W7-4|SNX14;ENSG00000135317|ENST00000314673|SNX14;ENST00000508980.5_1_6:86270935-86284080:-|nuORF;SNX14|p.L337*|1|0.35|ENSG00000135317|chr6:85547210-85547210|A/-|frameshift_variant;nc|ENSG00000135317|Q9Y5W7-2|SNX14 SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 373.57012939453125 3 373.569253 1117.68593 2.2337 0.00083446 0.11008 4.1121E-05 2.3438 0.00087558 373.56927756888354 13.675 0.1129 13.918 13.824 13.937 0.24346 12 9 2 0 0 0 0.015631 1 5978 5978 74.2 50.399 1 1032100 32254 2863 20486 20554 36339 36339 0.1317945481650895 TIKYKPKQL 9 Unmodified _TIKYKPKQL_ 0 0 0 SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant;nc|ENSG00000135317|Q9Y5W7-3|SNX14;nc|ENSG00000135317|Q9Y5W7-4|SNX14;ENSG00000135317|ENST00000314673|SNX14;ENST00000508980.5_1_6:86270935-86284080:-|nuORF;SNX14|p.L337*|1|0.35|ENSG00000135317|chr6:85547210-85547210|A/-|frameshift_variant;nc|ENSG00000135317|Q9Y5W7-2|SNX14 SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant SNX14|p.K868Sfs*12|1|0.46|ENSG00000135317|chr6:85513850-85513850|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 373.5702819824219 3 373.569253 1117.68593 2.8261 0.0010557 -0.44315 -0.00016555 2.3829 0.00089018 373.5690978153897 13.114 0.37322 13.756 13.514 13.887 0.64272 32 20 2 0 0 0 0.03963 1 5863 5863 51.63 34.517 1 1832800 32255 2863 20486 20554 36340 36340 0.1317945481650895 TILIIRRIKL 10 Unmodified _TILIIRRIKL_ 0 0 0 ENST00000491832.6_1_6:56955645-56989586:+|nuORF ENST00000491832.6_1_6:56955645-56989586:+|nuORF ENST00000491832.6_1_6:56955645-56989586:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.9828491210938 2 619.937183 1237.85981 NaN NaN NaN NaN NaN NaN NaN 87.872 1 87.912 87.412 88.412 0.039955 0 0 0 1.0015 1 44609 44609 0.40072 0 1 32256 8399 20487 20555 36341 36341 0.2503966031265463 TILIIRRIKL 10 Unmodified _TILIIRRIKL_ 0 0 0 ENST00000491832.6_1_6:56955645-56989586:+|nuORF ENST00000491832.6_1_6:56955645-56989586:+|nuORF ENST00000491832.6_1_6:56955645-56989586:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.9393920898438 2 619.937183 1237.85981 NaN NaN NaN NaN NaN NaN NaN 99.595 1 100.19 99.693 100.69 0.59748 0 0 0 1.0015 1 46063 46063 0.40072 0 1 32257 8399 20487 20555 36342 36342 0.2503966031265463 TILIPETHK 9 Unmodified _TILIPETHK_ 0 0 0 nc|ENSG00000185842|Q0VDD8-4|DNAH14;ENSG00000185842|ENST00000682510|DNAH14 nc|ENSG00000185842|Q0VDD8-4|DNAH14 nc|ENSG00000185842|Q0VDD8-4|DNAH14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.3124389648438 2 526.310949 1050.60735 3.1872 0.0016774 0.73541 0.00038705 3.9226 0.0020645 526.3113749561633 26.72 0.13737 27.341 27.275 27.412 0.62178 15 10 2 0 0 0 0.83994 1 12276 12276 6.7232 0.51738 1 254620 32258 5536 20488 20556 36343 36343 0.08406602511422534 TILMKKIFR 9 Unmodified _TILMKKIFR_ 0 0 0 ENST00000298281.8_1_11:82880888-82881005:+|nuORF ENST00000298281.8_1_11:82880888-82881005:+|nuORF ENST00000298281.8_1_11:82880888-82881005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 383.91119384765625 3 383.910733 1148.71037 2.1986 0.00084408 -0.82697 -0.00031748 1.3717 0.0005266 383.91011288895726 71.11 0.63353 71.772 71.404 72.037 0.66208 94 44 3 0 0 0 1.1849 1 32572 32572 0.96228 0.96228 1 1146000 32259 6778 20489 20557 36344 36344 0.14196391698396837 TILPRQLW 8 Unmodified _TILPRQLW_ 0 0 0 REV__ENST00000558282.5_1_15:85734698-85737265:+|nuORF REV__ENST00000558282.5_1_15:85734698-85737265:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.810546875 2 513.808377 1025.6022 3.31 0.0017007 1.0476 0.00053826 4.3576 0.002239 513.808889446881 45.442 0.24113 45.71 45.562 45.803 0.26768 18 7 3 0 0 0 0.71384 2 20811 20758;20811 4.756 0.73274 1 1709500 + 32260 17344 20490 20558 36345;36346 36346 0.09042343439477918 TILPRQLW 8 Unmodified _TILPRQLW_ 0 0 0 REV__ENST00000558282.5_1_15:85734698-85737265:+|nuORF REV__ENST00000558282.5_1_15:85734698-85737265:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8099365234375 2 513.808377 1025.6022 3.6129 0.0018564 -0.14756 -7.5817E-05 3.4654 0.0017805 513.8080591667076 45.089 0.34486 45.739 45.592 45.937 0.64998 20 11 2 0 0 0 0.64827 1 20679 20679 10.074 0.72649 1 1736000 + 32261 17344 20490 20558 36347 36347 0.09042343439477918 TILSIRSLP 9 Unmodified _TILSIRSLP_ 0 0 0 ENST00000372584.5_1_1:42384203-42384338:-|nuORF ENST00000372584.5_1_1:42384203-42384338:-|nuORF ENST00000372584.5_1_1:42384203-42384338:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 333.879150390625 3 333.878087 998.612431 NaN NaN NaN NaN NaN NaN NaN 57.678 1 57.678 57.178 58.178 0 0 0 0 0.87786 1 26593 26593 4.1895 0 1 32262 7338 20491 20559 36348 36348 0.11306906374034043 TILVALRRL 9 Unmodified _TILVALRRL_ 0 0 0 ENSG00000106128|ENST00000326139|GHRHR ENSG00000106128|ENST00000326139|GHRHR ENSG00000106128|ENST00000326139|GHRHR MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.8710632324219 3 352.241359 1053.70225 2.3144 0.00081521 -0.48152 -0.00016961 1.8328 0.0006456 352.57577640753385 14.477 0.16667 14.784 14.683 14.849 0.3069 11 7 2 0 0 0 0.11065 1 6558 6558 2.4985 1.5362 1 251330 32263 1554 20492 20560 36349 36349 0.177545807732713 TILVGKKILHF 11 Unmodified _TILVGKKILHF_ 0 0 0 REV__ENSG00000188050|ENST00000340112|RNF133 REV__ENSG00000188050|ENST00000340112|RNF133 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 317.9586181640625 4 317.957684 1267.80163 2.1999 0.00069947 1.2323 0.00039181 3.4321 0.0010913 317.9580643813335 34.739 0.20624 35.528 35.435 35.642 0.78921 23 15 2 0 0 0 0.91328 1 15739 15739 0.50596 0.50596 1 777950 + 32264 14130 20493 20561 36350 36350 0.17843978667360716 TILYLFSLKDF 11 Unmodified _TILYLFSLKDF_ 0 0 0 REV__COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant REV__COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 680.3798828125 2 680.381571 1358.74859 NaN NaN NaN NaN NaN NaN NaN 95.715 1 95.715 95.215 96.215 0 0 0 0 1.0038 1 51617 51617 5.7319 0 1 + 32265 10110 20494 20562 36351 36351 0.08356556094031475 TIMTWKVCITL 11 Unmodified _TIMTWKVCITL_ 0 0 0 ENSG00000221933|ENST00000641663|OR2A25 ENSG00000221933|ENST00000641663|OR2A25 ENSG00000221933|ENST00000641663|OR2A25 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.24273681640625 3 436.90666 1307.69815 2.6581 0.0011613 -0.03701 -1.617E-05 2.6211 0.0011452 436.906546487025 15.047 0.43611 15.354 15.163 15.599 0.3069 75 45 3 0 0 0 0.88075 1 6821 6821 1.3296 0 1 105100 32266 6152 20495 20563 36352 36352 0.05660987173018839 TIMTWKVCITL 11 Unmodified _TIMTWKVCITL_ 0 0 0 ENSG00000221933|ENST00000641663|OR2A25 ENSG00000221933|ENST00000641663|OR2A25 ENSG00000221933|ENST00000641663|OR2A25 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2420654296875 3 436.90666 1307.69815 3.1358 0.00137 -0.049192 -2.1492E-05 3.0866 0.0013485 436.906736811414 15.054 0.40027 15.708 15.555 15.955 0.65356 64 39 2 0 0 0 0.88075 1 6799 6799 1.3296 0 1 136150 32267 6152 20495 20563 36353 36353 0.05660987173018839 TINPHNRF 8 Unmodified _TINPHNRF_ 0 0 0 REV__nc|ENSG00000088812|O75882-3|ATRN REV__nc|ENSG00000088812|O75882-3|ATRN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.7623291015625 2 499.761958 997.509363 NaN NaN NaN NaN NaN NaN NaN 39.594 1 39.861 39.361 40.361 0.26696 0 0 0 0.97647 1 18015 18015 7.2892 0.56607 1 + 32268 10683 20496 20564 36354 36354 0.010508387060895075 TINRSLPC 8 Unmodified _TINRSLPC_ 0 0 0 REV__nc|ENSG00000111783|Q33E94-3|RFX4 REV__nc|ENSG00000111783|Q33E94-3|RFX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 452.24053955078125 2 452.23947 902.464386 NaN NaN NaN NaN NaN NaN NaN 54.354 1 55.021 54.521 55.521 0.6665 0 0 0 0.9851 1 24862 24862 6.7232 0.96273 1 + 32269 17895 20497 20565 36355 36355 0.009252718485299738 TIPDWLQAIQ 10 Unmodified _TIPDWLQAIQ_ 0 0 0 ENST00000271776.4_1_1:213124028-213139666:+|nuORF;nc|ENSG00000143494|Q86V25-4|VASH2;nc|ENSG00000143494|Q86V25-6|VASH2;nc|ENSG00000143494|Q86V25-2|VASH2;nc|ENSG00000143494|Q86V25-5|VASH2;ENSG00000143494|ENST00000517399|VASH2 ENST00000271776.4_1_1:213124028-213139666:+|nuORF ENST00000271776.4_1_1:213124028-213139666:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.54949951171875 3 395.548518 1183.62372 3.006 0.001189 0.028045 1.1093E-05 3.0341 0.0012001 395.5484267734367 26.261 0.34877 26.526 26.372 26.721 0.26489 82 29 4 0 0 0 0.83621 1 12010 12010 3.5871 0.85186 1 1417300 32270 3374 20498 20566 36356 36356 0.039256836774939075 TIPFIRNPI 9 Unmodified _TIPFIRNPI_ 0 0 0 REV__ENSG00000127954|ENST00000380079|STEAP4 REV__ENSG00000127954|ENST00000380079|STEAP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.5513610839844 3 357.550082 1069.62842 2.7042 0.0009669 1.2867 0.00046007 3.991 0.001427 357.5503510582059 48.878 0.77207 49.14 48.816 49.588 0.26209 61 29 3 0 0 0 1.0894 1 22442 22442 2.4985 1.427 1 1026800 + 32271 11753 20499 20567 36357 36357 0.09638612610956443 TIPFIRNPI 9 Unmodified _TIPFIRNPI_ 0 0 0 REV__ENSG00000127954|ENST00000380079|STEAP4 REV__ENSG00000127954|ENST00000380079|STEAP4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 357.550082 1069.62842 2.3399 0.00083662 2.1519 0.0007694 4.4917 0.001606 357.55033329554163 48.171 0.89699 49 48.364 49.261 0.82915 -0.069883 0.00058775 NaN 2.4985 84 42 3 NaN NaN NaN NaN 0 NaN NaN 0 447170 + 32272 11753 20499 20567 0.09638612610956443 TIPKLLEL 8 Unmodified _TIPKLLEL_ 0 0 0 REV__nc|ENSG00000165694|Q6ZUT3-2|FRMD7 REV__nc|ENSG00000165694|Q6ZUT3-2|FRMD7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.8021545410156 2 463.799686 925.584819 NaN NaN NaN NaN NaN NaN NaN 39.834 1 40.101 39.601 40.601 0.26696 0 0 0 0.99035 1 18122 18122 2.3027 0 1 + 32273 13182 20500 20568 36358 36358 0.11905003113804469 TIPRFYYRL 9 Unmodified _TIPRFYYRL_ 0 0 0 ENST00000556254.1_1_14:35579616-35591165:-|nuORF;ENST00000557773.5_1_14:35568434-35591165:-|nuORF;ENSG00000092020|ENST00000261475|PPP2R3C ENST00000556254.1_1_14:35579616-35591165:-|nuORF ENST00000556254.1_1_14:35579616-35591165:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.8460083007812 2 614.84549 1227.67643 NaN NaN NaN NaN NaN NaN NaN 30.45 1 30.45 29.95 30.95 0 0 0 0 0.90777 1 13755 13755 1.6526 0.17072 1 32274 1089 20501 20569 36359 36359 0.07169686530983199 TIPVIKRLLLL 11 Unmodified _TIPVIKRLLLL_ 0 0 0 nc|ENSG00000146378|Q9P1P5-2|TAAR2;ENSG00000146378|ENST00000367931|TAAR2 nc|ENSG00000146378|Q9P1P5-2|TAAR2 nc|ENSG00000146378|Q9P1P5-2|TAAR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 640.189697265625 2 639.947216 1277.87988 NaN NaN NaN NaN NaN NaN NaN 99.784 1 100.38 99.881 100.88 0.59717 0 0 0 1.008 1 46166 46166 0.30703 0 1 32275 3514 20502 20570 36360 36360 0.25205411252613885 TIPVRFLPGA 10 Unmodified _TIPVRFLPGA_ 0 0 0 REV__nc|ENSG00000134900|P29144|TPP2 REV__nc|ENSG00000134900|P29144|TPP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.2154541015625 3 357.550082 1069.62842 2.4742 0.00088463 1.0261 0.0003669 3.5003 0.0012515 357.5504939142885 50.913 0.56475 51.174 50.793 51.358 0.26146 35 25 2 0 0 0 0.12676 1 23206 23206 1.7423 0.67081 1 244250 + 32276 11989 20503 20571 36361 36361 0.09638612610956443 TIPVRFLPGA 10 Unmodified _TIPVRFLPGA_ 0 0 0 REV__nc|ENSG00000134900|P29144|TPP2 REV__nc|ENSG00000134900|P29144|TPP2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 357.550082 1069.62842 2.3843 0.00085249 1.376 0.00049197 3.7602 0.0013445 357.550762237052 50.584 0.38145 51.241 51.067 51.449 0.65735 0.033337 0.00021568 NaN 1.7423 22 19 2 NaN NaN NaN NaN 0 NaN NaN 0 270090 + 32277 11989 20503 20571 0.09638612610956443 TIQKVIFL 8 Unmodified _TIQKVIFL_ 0 0 0 ENSG00000174776|ENST00000682715|WDR49 ENSG00000174776|ENST00000682715|WDR49 ENSG00000174776|ENST00000682715|WDR49 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 321.20770263671875 3 321.207544 960.600803 2.3237 0.00074638 -0.14385 -4.6206E-05 2.1798 0.00070017 321.2075130891627 41.317 0.2338 41.962 41.793 42.026 0.64451 19 11 2 0 0 0 0.5584 2 18873 18873;18927 17.113 4.8722 1 1642600 32278 4994 20504 20572 36362;36363 36362 0.1189270935069544 TIQQLLEW 8 Unmodified _TIQQLLEW_ 0 0 0 nc|ENSG00000083799|Q9NQC7-2|CYLD;ENSG00000083799|ENST00000427738|CYLD nc|ENSG00000083799|Q9NQC7-2|CYLD nc|ENSG00000083799|Q9NQC7-2|CYLD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.7714233398438 2 515.782025 1029.5495 NaN NaN NaN NaN NaN NaN NaN 65.883 1 66.592 66.092 67.092 0.70891 0 0 0 0.86133 1 31192 31192 14.838 2.3067 1 32279 943 20505 20573 36364 36364 0.035903405860153725 TIREEMQRYRS 11 Unmodified _TIREEMQRYRS_ 0 0 0 REV__ENST00000470373.1_1_1:1564879-1565907:+|nuORF REV__ENST00000470373.1_1_1:1564879-1565907:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 734.871337890625 2 734.869899 1467.72525 NaN NaN NaN NaN NaN NaN NaN 102 1 102.05 101.55 102.55 0.057198 0 0 0 1.0007 1 55382 55382 6.6304 3.6351 1 + 32280 14284 20506 20574 36365 36365 0.01009187037789161 TIRFLVMAYRK 11 Unmodified _TIRFLVMAYRK_ 0 0 0 REV__ENSG00000188394|ENST00000616002|GPR21 REV__ENSG00000188394|ENST00000616002|GPR21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.6096496582031 3 466.607713 1396.80131 3.4053 0.0015889 0.97423 0.00045458 4.3795 0.0020435 466.60806622908734 94.245 0.56345 94.505 94.247 94.81 0.25974 43 28 2 0 0 0 0.91345 1 43370 43370 0.45452 0.35968 1 405010 + 32281 14148 20507 20575 36366 36366 0.11878235675840187 TIRNNHLFL 9 Unmodified _TIRNNHLFL_ 0 0 0 REV__nc|ENSG00000130508|Q92626-2|PXDN REV__nc|ENSG00000130508|Q92626-2|PXDN MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.21478271484375 3 376.548852 1126.62473 2.5986 0.00097849 -1.6447 -0.00061932 0.95383 0.00035916 376.54816061606056 54.528 0.19996 55.194 55.131 55.331 0.6665 23 18 2 0 0 0 0.1077 1 24997 24997 4.5289 2.2461 1 2434600 + 32282 11820 20508 20576 36367 36367 0.06647942837071241 TIRNNHLFL 9 Unmodified _TIRNNHLFL_ 0 0 0 REV__nc|ENSG00000130508|Q92626-2|PXDN REV__nc|ENSG00000130508|Q92626-2|PXDN MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 376.548852 1126.62473 2.5112 0.00094557 -1.9081 -0.0007185 0.60302 0.00022707 376.5480308562335 54.646 0.20512 54.911 54.724 54.929 0.26543 -0.14162 -0.00017758 NaN 4.5289 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 999770 + 32283 11820 20508 20576 0.06647942837071241 TIRNQINAL 9 Unmodified _TIRNQINAL_ 0 0 0 nc|ENSG00000005381|P05164-2|MPO;ENSG00000005381|ENST00000225275|MPO;nc|ENSG00000005381|P05164-3|MPO nc|ENSG00000005381|P05164-2|MPO nc|ENSG00000005381|P05164-2|MPO MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.20574951171875 3 348.204974 1041.59309 NaN NaN NaN NaN NaN NaN NaN 25.776 1 26.044 25.544 26.544 0.26777 0 0 0 0.72654 1 11702 11702 7.609 0 1 32284 328 20509 20577 36368 36368 0.073959500831279 TIRPLIRYQFF 11 Unmodified _TIRPLIRYQFF_ 0 0 0 REV__ENST00000436040.6_2_9:32973622-32974496:-|nuORF REV__ENST00000436040.6_2_9:32973622-32974496:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.28692626953125 3 485.281995 1452.82415 3.2303 0.0015676 2.0311 0.00098566 5.2614 0.0025533 485.2837047264546 55.85 0.4397 56.518 56.267 56.707 0.66798 34 16 3 0 0 0 0.89844 2 25526 25526;25582 1.2148 0.20126 1 711080 + 32285 16305 20510 20578 36369;36370 36369 0.11585578064978108 TIRPLIRYQFF 11 Unmodified _TIRPLIRYQFF_ 0 0 0 REV__ENST00000436040.6_2_9:32973622-32974496:-|nuORF REV__ENST00000436040.6_2_9:32973622-32974496:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.4654846191406 4 364.213315 1452.82415 2.6233 0.00095543 -0.37176 -0.0001354 2.2515 0.00082003 364.2129981704733 56.364 0.922 57.032 56.802 57.724 0.66829 78 51 2 0 0 0 0.91149 1 25837 25837 0.36667 0.36667 1 1878100 + 32286 16305 20510 20578 36371 36371 0.11585578064978108 TIRTRLMEL 9 Unmodified _TIRTRLMEL_ 0 0 0 nc|ENSG00000197694|Q13813-3|SPTAN1;nc|ENSG00000197694|Q13813|SPTAN1;ENSG00000197694|ENST00000372739|SPTAN1;SPTAN1|p.W2169Cfs*90|1|0.11|ENSG00000197694|chr9:128626632-128626632|G/-|frameshift_variant nc|ENSG00000197694|Q13813-3|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 378.5794372558594 3 378.221748 1131.64341 2.6244 0.0009926 0.63452 0.00023999 3.2589 0.0012326 378.2218669102512 45.025 0.1792 45.293 45.139 45.318 0.26768 13 8 2 0 0 0 0.10291 1 20562 20562 8.4443 0 1 391140 32287 5834 20511 20579 36372 36372 0.08285736416632972 TISFQYVL 8 Unmodified _TISFQYVL_ 0 0 0 ENST00000311275.11_1_20:45838157-45838328:-|nuORF ENST00000311275.11_1_20:45838157-45838328:-|nuORF ENST00000311275.11_1_20:45838157-45838328:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.7678527832031 2 485.765843 969.517133 2.354 0.0011435 1.098 0.00053336 3.4519 0.0016768 485.76639267018084 12.524 0.11149 12.831 12.77 12.882 0.30727 5 3 2 0 0 0 0.70146 1 5669 5669 5.7604 0 1 2127300 32288 6870 20512 20580 36373 36373 0.031155531829995198 TISHMHWNEEE 11 Unmodified _TISHMHWNEEE_ 0 0 0 REV__ENST00000302763.11_1_5:138160414-138163228:+|nuORF REV__ENST00000302763.11_1_5:138160414-138163228:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 706.9315795898438 2 706.798608 1411.58266 2.5161 0.0017784 0.12544 8.8664E-05 2.6416 0.0018671 707.3018129739196 96.409 0.033531 96.486 96.463 96.497 0.076538 6 4 2 0 0 0 0.13295 1 51213 51213 3.2813 0 1 9492600 + 32289 15205 20513 20581 36374 36374 -0.10666445424226367 TISRPLIC 8 Unmodified _TISRPLIC_ 0 0 0 ENSG00000140092|ENST00000342058|FBLN5 ENSG00000140092|ENST00000342058|FBLN5 ENSG00000140092|ENST00000342058|FBLN5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 301.5098571777344 3 301.509117 901.505523 NaN NaN NaN NaN NaN NaN NaN 99.593 1 99.901 99.401 100.4 0.30835 0 0 0 0.99035 1 46031 46031 0.45834 0 1 32290 3181 20514 20582 36375 36375 0.050830328880238085 TISTCMGG 8 Unmodified _TISTCMGG_ 0 0 0 nc|ENSG00000134249|Q9UKF2-2|ADAM30;ENSG00000134249|ENST00000369400|ADAM30 nc|ENSG00000134249|Q9UKF2-2|ADAM30 nc|ENSG00000134249|Q9UKF2-2|ADAM30 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 385.1537170410156 2 385.164582 768.314611 NaN NaN NaN NaN NaN NaN NaN 67.312 1 67.97 67.47 68.47 0.65777 0 0 0 0.99035 1 30855 30855 0.79363 0 1 32291 2790 20515 20583 36376 36376 -0.07881416485554382 TISVPKGRA 9 Unmodified _TISVPKGRA_ 0 0 0 ENSG00000112139|ENST00000434837|MDGA1;nc|ENSG00000112139|Q8NFP4-2|MDGA1;ENST00000478143.2_1_6:37617732-37622777:-|nuORF ENSG00000112139|ENST00000434837|MDGA1 ENSG00000112139|ENST00000434837|MDGA1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 309.85699462890625 3 310.190665 927.550165 1.9532 0.00060585 -0.61228 -0.00018992 1.3409 0.00041593 310.19040472265857 58.249 0.2105 58.249 58.052 58.262 0 38 23 2 0 0 0 0.11293 1 26823 26823 2.4985 0.84587 1 3613600 32292 1794 20516 20584 36377 36377 0.08349180025709302 TITGKTFSSR 10 Unmodified _TITGKTFSSR_ 0 0 0 ENST00000487321.1_1_2:219114510-219118635:+|nuORF;ENSG00000163466|ENST00000315717|ARPC2 ENST00000487321.1_1_2:219114510-219118635:+|nuORF ENST00000487321.1_1_2:219114510-219118635:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.2252502441406 3 366.536501 1096.58767 2.4158 0.00088546 0.28012 0.00010268 2.6959 0.00098814 366.5363653826379 14.482 0.18396 14.708 14.611 14.795 0.22622 30 15 3 0 0 0 0.12676 1 6364 6364 11.631 9.3486 1 177160 32293 4212 20517 20585 36378 36378 0.04324226500671102 TITGKTFSSR 10 Unmodified _TITGKTFSSR_ 0 0 0 ENST00000487321.1_1_2:219114510-219118635:+|nuORF;ENSG00000163466|ENST00000315717|ARPC2 ENST00000487321.1_1_2:219114510-219118635:+|nuORF ENST00000487321.1_1_2:219114510-219118635:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 366.536501 1096.58767 2.7198 0.0009969 0.098099 3.5957E-05 2.8179 0.0010329 366.5365809195312 14.84 0.29334 14.84 14.693 14.986 0 0.065897 -7.9653E-05 NaN 11.631 48 28 2 NaN NaN NaN NaN 0 NaN NaN 0 150830 32294 4212 20517 20585 0.04324226500671102 TITLRGTYVF 10 Unmodified _TITLRGTYVF_ 0 0 0 REV__ENSG00000168427|ENST00000409223|KLHL30 REV__ENSG00000168427|ENST00000409223|KLHL30 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 390.8905334472656 3 390.888763 1169.64446 2.3773 0.00092928 0.69644 0.00027223 3.0738 0.0012015 391.22330987402756 60.996 0.54821 60.996 60.845 61.393 0 92 57 2 0 0 0 0.93584 1 28488 28488 1.7423 0.14999 1 2284700 + 32295 13349 20518 20586 36379 36379 0.06642274057185205 TITLRGTYVF 10 Unmodified _TITLRGTYVF_ 0 0 0 REV__ENSG00000168427|ENST00000409223|KLHL30 REV__ENSG00000168427|ENST00000409223|KLHL30 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 391.2249450683594 3 390.888763 1169.64446 2.3049 0.00090097 1.1239 0.00043931 3.4288 0.0013403 390.88918013265277 56.349 0.3192 57.126 56.929 57.248 0.77786 59 31 2 0 0 0 0.86398 1 25789 25789 5.4027 2.0831 1 1098600 + 32296 13349 20518 20586 36380 36380 0.06642274057185205 TITLRGTYVF 10 Unmodified _TITLRGTYVF_ 0 0 0 REV__ENSG00000168427|ENST00000409223|KLHL30 REV__ENSG00000168427|ENST00000409223|KLHL30 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.8900146484375 3 390.888763 1169.64446 2.8854 0.0011279 0.94654 0.00036999 3.8319 0.0014978 390.88910201908595 56.529 0.79317 57.198 56.592 57.385 0.66829 89 46 3 0 0 0 0.91298 1 25656 25656 3.0723 0.57378 1 2644800 + 32297 13349 20518 20586 36381 36381 0.06642274057185205 TITPFQRLYR 10 Unmodified _TITPFQRLYR_ 0 0 0 ENSG00000039537|ENST00000337836|C6 ENSG00000039537|ENST00000337836|C6 ENSG00000039537|ENST00000337836|C6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 647.7459716796875 2 647.866954 1293.71936 NaN NaN NaN NaN NaN NaN NaN 96.068 1 96.145 95.645 96.645 0.076538 0 0 0 0.97102 1 50943 50943 10.074 1.3285 1 32298 528 20519 20587 36382 36382 0.08424456588431894 TITRAHDAL 9 Unmodified _TITRAHDAL_ 0 0 0 REV__ENSG00000090861|ENST00000261772|AARS1 REV__ENSG00000090861|ENST00000261772|AARS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.2744140625 2 499.274898 996.535243 NaN NaN NaN NaN NaN NaN NaN 47.568 1 47.832 47.332 48.332 0.26363 0 0 0 0.69911 1 21738 21738 12.532 0 1 + 32299 10718 20520 20588 36383 36383 0.03683688157695997 TIVFWCARWW 10 Unmodified _TIVFWCARWW_ 0 0 0 REV__ENSG00000268104|ENST00000598581|SLC6A14 REV__ENSG00000268104|ENST00000598581|SLC6A14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 684.3404541015625 2 684.339518 1366.66448 NaN NaN NaN NaN NaN NaN NaN 100.99 1 101.05 100.55 101.55 0.059723 0 0 0 0.99225 1 54837 54837 6.7232 0.99131 1 + 32300 14712 20521 20589 36384 36384 -0.004182534838491847 TIVGNPRRKGP 11 Unmodified _TIVGNPRRKGP_ 0 0 0 REV__nc|ENSG00000122068|Q96QD9-4|FYTTD1 REV__nc|ENSG00000122068|Q96QD9-4|FYTTD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.8582763671875 2 597.856921 1193.69929 3.9924 0.0023869 -0.84278 -0.00050386 3.1496 0.001883 597.8562840729154 88.049 1.5851 88.3 87.389 88.974 0.25064 150 71 3 0 0 0 0.91149 1 40231 40231 1.0715 0.61312 1 2539600 + 32301 11571 20522 20590 36385 36385 0.11018705648439209 TIVKKRVFK 9 Unmodified _TIVKKRVFK_ 0 0 0 REV__ENSG00000163563|ENST00000368141|MNDA REV__ENSG00000163563|ENST00000368141|MNDA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.8741455078125 2 559.874051 1117.73355 NaN NaN NaN NaN NaN NaN NaN 97.941 1 98.23 97.73 98.73 0.28923 0 0 0 0.90611 1 45046 45046 2.0598 0 1 + 32302 13004 20523 20591 36386 36386 0.17939153807378716 TIVPDGTLSID 11 Unmodified _TIVPDGTLSID_ 0 0 0 REV__nc|ENSG00000087237|P11597-2|CETP REV__nc|ENSG00000087237|P11597-2|CETP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.802978515625 2 565.800611 1129.58667 3.6727 0.002078 0.52142 0.00029502 4.1942 0.0023731 565.8007766225383 28.182 0.23114 28.182 28.067 28.298 0 45 17 3 0 0 0 0.020488 1 12691 12691 72.968 5.8872 1 3148500 + 32303 10666 20524 20592 36387 36387 0.027059673411031326 TIVTFSNN 8 Unmodified _TIVTFSNN_ 0 0 0 REV__nc|ENSG00000077044|Q16760-2|DGKD REV__nc|ENSG00000077044|Q16760-2|DGKD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.2312927246094 2 448.229625 894.444697 3.3029 0.0014804 0.54215 0.00024301 3.845 0.0017235 448.22984449494635 93.278 0.64317 93.909 93.63 94.273 0.63115 64 30 3 0 0 0 0.70799 1 42884 42884 5.2307 0.90143 1 939650 + 32304 10549 20525 20593 36388 36388 -0.006747808905743113 TIWIHILRKRR 11 Unmodified _TIWIHILRKRR_ 0 0 0 nc|ENSG00000148358|Q5VW38-3|GPR107;ENSG00000148358|ENST00000347136|GPR107;nc|ENSG00000148358|Q5VW38|GPR107;ENST00000493417.5_1_9:132839594-132891041:+|nuORF nc|ENSG00000148358|Q5VW38-3|GPR107 nc|ENSG00000148358|Q5VW38-3|GPR107 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 497.5160217285156 3 497.984283 1490.93102 2.4945 0.0012422 2.0579 0.0010248 4.5524 0.002267 497.9847696542944 65.147 0.01963 65.147 65.13 65.149 0 4 2 2 0 0 0 0.13295 1 30973 30973 0.08335 0 1 5603400 32305 3602 20526 20594 36389 36389 0.20519173069988028 TKAKGVPI 8 Unmodified _TKAKGVPI_ 0 0 0 REV__KIF14|p.E866K|1|0.19|ENSG00000118193|chr1:200593723-200593723|C/T|missense_variant REV__KIF14|p.E866K|1|0.19|ENSG00000118193|chr1:200593723-200593723|C/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 407.26593017578125 2 407.263271 812.511988 NaN NaN NaN NaN NaN NaN NaN 34.887 1 35.51 35.01 36.01 0.62294 0 0 0 0.99035 1 15986 15986 5.2307 0 1 + 32306 17751 20527 20595 36390 36390 0.09823294111038194 TKAKVAIK 8 Unmodified _TKAKVAIK_ 0 0 0 ENST00000485363.1_1_11:116775672-116969011:-|nuORF;nc|ENSG00000160584|Q9Y2K2-7|SIK3;nc|ENSG00000160584|Q9Y2K2-8|SIK3;nc|ENSG00000160584|Q9Y2K2|SIK3;ENSG00000160584|ENST00000445177|SIK3 ENST00000485363.1_1_11:116775672-116969011:-|nuORF ENST00000485363.1_1_11:116775672-116969011:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 429.7906188964844 2 429.792195 857.569838 NaN NaN NaN NaN NaN NaN NaN 62.834 1 62.834 62.334 63.334 0 0 0 0 0.99035 1 29480 29480 3.5965 0 1 32307 4065 20528 20596 36391 36391 0.1353555603645873 TKAPKKKKKKK 11 Unmodified _TKAPKKKKKKK_ 0 0 0 REV__ENST00000368679.8_1_10:127702855-127703017:-|nuORF REV__ENST00000368679.8_1_10:127702855-127703017:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 438.30902099609375 3 438.309885 1311.90782 NaN NaN NaN NaN NaN NaN NaN 61.356 1 61.356 60.856 61.856 0 0 0 0 1.008 1 28609 28609 0.073264 0.073264 1 + 32308 15690 20529 20597 36392 36392 0.2643473423265732 TKAPLPLG 8 Unmodified _TKAPLPLG_ 0 0 0 FAM186A|p.E1748Rfs*31|1|0.34|ENSG00000185958|chr12:50351591-50351591|A/-|frameshift_variant FAM186A|p.E1748Rfs*31|1|0.34|ENSG00000185958|chr12:50351591-50351591|A/-|frameshift_variant FAM186A|p.E1748Rfs*31|1|0.34|ENSG00000185958|chr12:50351591-50351591|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 398.75250244140625 2 398.749996 795.485439 2.8606 0.0011407 3.1594 0.0012598 6.02 0.0024005 398.75202650558424 27.876 0.17077 27.876 27.781 27.952 0 20 13 2 0 0 0 0.70799 1 12578 12578 5.2307 0 1 254330 32309 9357 20530 20598 36393 36393 0.07951605219727753 TKARKGEK 8 Unmodified _TKARKGEK_ 0 0 0 nc|ENSG00000085224|P46100-2|ATRX;nc|ENSG00000085224|P46100-5|ATRX;nc|ENSG00000085224|P46100-3|ATRX;nc|ENSG00000085224|P46100-4|ATRX;ENSG00000085224|ENST00000373344|ATRX;ATRX|p.N1318Ifs*28|1|0.32|ENSG00000085224|chrX:77663549-77663549|T/-|frameshift_variant;nc|ENSG00000085224|P46100-6|ATRX nc|ENSG00000085224|P46100-2|ATRX nc|ENSG00000085224|P46100-2|ATRX MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 459.2811279296875 2 459.279983 916.545414 NaN NaN NaN NaN NaN NaN NaN 77.471 1 77.727 77.227 78.227 0.25528 0 0 0 0.99035 1 35678 35678 5.2307 0 1 32310 965 20531 20599 36394 36394 0.08380295882955124 TKAVTKYTSSK 11 Unmodified _TKAVTKYTSSK_ 0 0 0 ENSG00000196890|ENST00000693095|H2BC26;ENST00000436555.1_1_1:228651916-228652012:-|nuORF;nc|ENSG00000285480|A0A2R8Y619|H2BK1;ENSG00000276410|ENST00000615966|H2BC3;ENSG00000274641|ENST00000616182|H2BC17;ENSG00000184678|ENST00000369155|H2BC21;ENSG00000146047|ENST00000274764|H2BC1;nc|ENSG00000203814|Q5QNW6-2|H2BC18;ENSG00000273703|ENST00000621112|H2BC14;ENSG00000158373|ENST00000377777|H2BC5;ENSG00000278588|ENST00000377733|H2BC10;ENSG00000277224|ENST00000356530|H2BC7;ENSG00000275713|ENST00000619466|H2BC9;ENSG00000273802|ENST00000541790|H2BC8;ENSG00000233822|ENST00000612898|H2BC15;ENSG00000203814|ENST00000369167|H2BC18;ENSG00000185130|ENST00000377401|H2BC13;ENSG00000180596|ENST00000396984|H2BC4;ENSG00000274290|ENST00000614097|H2BC6 ENSG00000196890|ENST00000693095|H2BC26;nc|ENSG00000203814|Q5QNW6-2|H2BC18 nc|ENSG00000203814|Q5QNW6-2|H2BC18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.56646728515625 3 405.231077 1212.6714 2.1359 0.00086555 0.89052 0.00036087 3.0265 0.0012264 405.2314215488424 11.336 0.6439 11.615 11.305 11.949 0.2792 275 133 3 0 0 0 0.46182 6 4942 4869;4907;4942;4979;5015;5048 20.878 16.472 1 146260 32311 5781;3983 20532 20600 36395;36396;36397;36398;36399;36400 36397 0.07357337877715509 TKAVTKYTSSK 11 Unmodified _TKAVTKYTSSK_ 0 0 0 ENSG00000196890|ENST00000693095|H2BC26;ENST00000436555.1_1_1:228651916-228652012:-|nuORF;nc|ENSG00000285480|A0A2R8Y619|H2BK1;ENSG00000276410|ENST00000615966|H2BC3;ENSG00000274641|ENST00000616182|H2BC17;ENSG00000184678|ENST00000369155|H2BC21;ENSG00000146047|ENST00000274764|H2BC1;nc|ENSG00000203814|Q5QNW6-2|H2BC18;ENSG00000273703|ENST00000621112|H2BC14;ENSG00000158373|ENST00000377777|H2BC5;ENSG00000278588|ENST00000377733|H2BC10;ENSG00000277224|ENST00000356530|H2BC7;ENSG00000275713|ENST00000619466|H2BC9;ENSG00000273802|ENST00000541790|H2BC8;ENSG00000233822|ENST00000612898|H2BC15;ENSG00000203814|ENST00000369167|H2BC18;ENSG00000185130|ENST00000377401|H2BC13;ENSG00000180596|ENST00000396984|H2BC4;ENSG00000274290|ENST00000614097|H2BC6 ENSG00000196890|ENST00000693095|H2BC26;nc|ENSG00000203814|Q5QNW6-2|H2BC18 nc|ENSG00000203814|Q5QNW6-2|H2BC18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 607.345703125 2 607.342978 1212.6714 NaN NaN NaN NaN NaN NaN NaN 87.974 1 88.014 87.514 88.514 0.039955 0 0 0 0.8777 1 44691 44691 18.34 7.5158 1 32312 5781;3983 20532 20600 36401 36401 0.07357337877715509 TKDLRGPRL 9 Unmodified _TKDLRGPRL_ 0 0 0 REV__ENST00000489194.5_1_1:224418997-224455817:-|nuORF REV__ENST00000489194.5_1_1:224418997-224455817:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.5511779785156 3 352.548852 1054.62473 2.3635 0.00083325 3.9639 0.0013975 6.3274 0.0022307 352.5498722400099 38.42 0.18908 38.684 38.569 38.758 0.26408 9 5 2 0 0 0 0.80651 1 17509 17509 7.609 3.4923 1 257950 + 32313 12377 20533 20601 36402 36402 0.09959942837076596 TKEEGFIWELM 11 Unmodified _TKEEGFIWELM_ 0 0 0 REV__ENST00000589189.5_1_18:33269201-33269237:+|nuORF REV__ENST00000589189.5_1_18:33269201-33269237:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 691.83447265625 2 691.836671 1381.65879 NaN NaN NaN NaN NaN NaN NaN 67.318 1 67.568 67.068 68.068 0.2501 0 0 0 0.94174 1 30838 30838 12.241 3.4953 1 + 32314 17567 20534 20602 36403 36403 -0.016774415768168183 TKEEVKII 8 Unmodified _TKEEVKII_ 0 0 0 nc|ENSG00000153093|Q9NUZ1-2|ACOXL;nc|ENSG00000153093|Q9NUZ1|ACOXL;ENSG00000153093|ENST00000439055|ACOXL nc|ENSG00000153093|Q9NUZ1-2|ACOXL nc|ENSG00000153093|Q9NUZ1-2|ACOXL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 320.53131103515625 3 320.530576 958.569897 2.2582 0.00072383 0.48759 0.00015629 2.7458 0.00088012 320.5306865170514 13.595 0.27549 14.243 14.085 14.361 0.6482 54 18 4 0 0 0 0.62155 1 6144 6144 12.241 0 1 1036400 32315 3771 20535 20603 36404 36404 0.08895511245816579 TKEKLIDL 8 Unmodified _TKEKLIDL_ 0 0 0 REV__CEP290|p.K1324Nfs*2|1|0.19|ENSG00000198707|chr12:88089089-88089089|T/-|frameshift_variant REV__CEP290|p.K1324Nfs*2|1|0.19|ENSG00000198707|chr12:88089089-88089089|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 320.5312805175781 3 320.530576 958.569897 2.1227 0.0006804 0.59203 0.00018976 2.7147 0.00087016 320.53068613666443 14.425 0.21156 14.425 14.314 14.525 0 24 13 3 0 0 0 0.5584 1 6365 6365 17.113 0 1 499140 + 32316 10001 20536 20604 36405 36405 0.08895511245816579 TKERESPAPE 10 Unmodified _TKERESPAPE_ 0 0 0 ENSG00000168676|ENST00000304372|KCTD19 ENSG00000168676|ENST00000304372|KCTD19 ENSG00000168676|ENST00000304372|KCTD19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.8598327636719 3 381.859532 1142.55677 NaN NaN NaN NaN NaN NaN NaN 11.093 1 11.372 10.872 11.872 0.2792 0 0 0 1.0004 1 4814 4814 0.56317 0.29415 1 32317 4643 20537 20605 36406 36406 -0.008809716042605942 TKESRMKEGQP 11 Unmodified _TKESRMKEGQP_ 0 0 0 ENSG00000247746|ENST00000500968|USP51 ENSG00000247746|ENST00000500968|USP51 ENSG00000247746|ENST00000500968|USP51 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.888427734375 3 430.887205 1289.63978 NaN NaN NaN NaN NaN NaN NaN 14.307 1 14.614 14.114 15.114 0.3069 0 0 0 1.0046 1 6475 6475 4.7159 1.8726 1 32318 6256 20538 20606 36407 36407 0.006550218521169882 TKETPLNNMDY 11 Unmodified _TKETPLNNMDY_ 0 0 0 ENST00000577406.1_1_18:25032813-25033479:-|nuORF ENST00000577406.1_1_18:25032813-25033479:-|nuORF ENST00000577406.1_1_18:25032813-25033479:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 663.3067626953125 2 663.305735 1324.59692 NaN NaN NaN NaN NaN NaN NaN 52.258 1 53.069 52.569 53.569 0.81065 0 0 0 1.0061 1 23808 23808 2.7352 1.4057 1 32319 9130 20539 20607 36408 36408 -0.05239792995985226 TKFFHSEYPYK 11 Unmodified _TKFFHSEYPYK_ 0 0 0 DCHS2|p.F2297Lfs*40|1|0.22|ENSG00000197410|chr4:154236396-154236396|A/-|frameshift_variant;ENSG00000197410|ENST00000357232|DCHS2 DCHS2|p.F2297Lfs*40|1|0.22|ENSG00000197410|chr4:154236396-154236396|A/-|frameshift_variant DCHS2|p.F2297Lfs*40|1|0.22|ENSG00000197410|chr4:154236396-154236396|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 724.2774658203125 2 723.856252 1445.69795 NaN NaN NaN NaN NaN NaN NaN 97.171 1 97.171 96.671 97.671 0 0 0 0 1.0047 1 52816 52816 4.5289 1.5336 1 32320 256 20540 20608 36409 36409 -0.007069732309673782 TKFGAPPPPRA 11 Unmodified _TKFGAPPPPRA_ 0 0 0 ENST00000370641.3_1_1:84967597-84971964:-|nuORF ENST00000370641.3_1_1:84967597-84971964:-|nuORF ENST00000370641.3_1_1:84967597-84971964:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.2184753417969 3 380.217102 1137.62948 NaN NaN NaN NaN NaN NaN NaN 38.208 1 38.472 37.972 38.972 0.26408 0 0 0 1.0074 1 17398 17398 1.1098 0.038292 1 32321 7306 20541 20609 36410 36410 0.06616826979848156 TKGIGKIG 8 Unmodified _TKGIGKIG_ 0 0 0 REV__nc|ENSG00000171634|Q12830-4|BPTF REV__nc|ENSG00000171634|Q12830-4|BPTF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.7057189941406 2 387.247621 772.480688 2.7058 0.0010478 0.69531 0.00026926 3.4011 0.0013171 387.2490829221841 63.957 0.059074 64.205 64.185 64.244 0.24803 5 3 2 0 0 0 0.14282 1 29289 29289 2.3027 0 1 276360 + 32322 9981 20542 20610 36411 36411 0.0853472107695552 TKGLLPLLRS 10 Unmodified _TKGLLPLLRS_ 0 0 0 ENSG00000176387|ENST00000326152|HSD11B2 ENSG00000176387|ENST00000326152|HSD11B2 ENSG00000176387|ENST00000326152|HSD11B2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.2381286621094 3 366.572886 1096.69683 2.5945 0.00095106 -0.92897 -0.00034054 1.6655 0.00061052 366.5725670044571 45.861 0.59684 45.861 45.403 45.999 0 36 28 2 0 0 0 0.12676 1 20927 20927 3.0723 1.33 1 866140 32323 5075 20543 20611 36412 36412 0.15234857190785078 TKGLLPLLRS 10 Unmodified _TKGLLPLLRS_ 0 0 0 ENSG00000176387|ENST00000326152|HSD11B2 ENSG00000176387|ENST00000326152|HSD11B2 ENSG00000176387|ENST00000326152|HSD11B2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.2365417480469 3 366.572886 1096.69683 2.317 0.00084936 -0.49334 -0.00018084 1.8237 0.00066852 366.5727676362727 44.652 0.34473 45.473 45.385 45.729 0.82075 24 17 2 0 0 0 0.12676 1 20308 20308 3.0723 0 1 730410 32324 5075 20543 20611 36413 36413 0.15234857190785078 TKGLLPLLRS 10 Unmodified _TKGLLPLLRS_ 0 0 0 ENSG00000176387|ENST00000326152|HSD11B2 ENSG00000176387|ENST00000326152|HSD11B2 ENSG00000176387|ENST00000326152|HSD11B2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.2379150390625 3 366.572886 1096.69683 2.5237 0.00092512 -0.82611 -0.00030283 1.6976 0.00062229 366.5725932954082 45.288 0.63041 45.555 45.172 45.803 0.26768 37 26 2 0 0 0 0.12676 1 20669 20669 5.4027 1.2132 1 1233100 32325 5075 20543 20611 36414 36414 0.15234857190785078 TKGLLPLLRS 10 Unmodified _TKGLLPLLRS_ 0 0 0 ENSG00000176387|ENST00000326152|HSD11B2 ENSG00000176387|ENST00000326152|HSD11B2 ENSG00000176387|ENST00000326152|HSD11B2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.2393798828125 3 366.572886 1096.69683 2.7523 0.0010089 -0.82071 -0.00030085 1.9316 0.00070807 366.57255090016724 44.53 0.36474 45.18 44.955 45.319 0.64998 25 14 2 0 0 0 0.12676 1 20394 20394 3.0723 2.4454 1 530240 32326 5075 20543 20611 36415 36415 0.15234857190785078 TKGLLPLLRS 10 Unmodified _TKGLLPLLRS_ 0 0 0 ENSG00000176387|ENST00000326152|HSD11B2 ENSG00000176387|ENST00000326152|HSD11B2 ENSG00000176387|ENST00000326152|HSD11B2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.23858642578125 3 366.572886 1096.69683 2.7399 0.0010044 -0.78787 -0.00028881 1.952 0.00071555 366.572557287769 44.229 0.17981 44.879 44.775 44.955 0.64998 14 10 2 0 0 0 0.12676 1 20253 20253 5.4027 2.9042 1 981640 32327 5075 20543 20611 36416 36416 0.15234857190785078 TKGLLPLLRS 10 Unmodified _TKGLLPLLRS_ 0 0 0 ENSG00000176387|ENST00000326152|HSD11B2 ENSG00000176387|ENST00000326152|HSD11B2 ENSG00000176387|ENST00000326152|HSD11B2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.2390441894531 3 366.572886 1096.69683 2.7282 0.0010001 -1.0581 -0.00038786 1.6701 0.00061223 366.57237163509814 43.975 0.11959 44.624 44.541 44.661 0.64872 7 4 2 0 0 0 0.12676 1 20167 20167 1.4551 1.2193 1 571100 32328 5075 20543 20611 36417 36417 0.15234857190785078 TKGLLPLLRS 10 Unmodified _TKGLLPLLRS_ 0 0 0 ENSG00000176387|ENST00000326152|HSD11B2 ENSG00000176387|ENST00000326152|HSD11B2 ENSG00000176387|ENST00000326152|HSD11B2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 366.572886 1096.69683 2.7704 0.0010155 -1.8859 -0.00069133 0.88444 0.00032421 366.5719997266412 44.906 0.16463 45.556 45.401 45.566 0.64998 -0.055613 -0.0011487 NaN 3.0723 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 154240 32329 5075 20543 20611 0.15234857190785078 TKGLQILLVWP 11 Unmodified _TKGLQILLVWP_ 0 0 0 REV__chr5:1337982-1338266|337|22.65|0.39|5.88|-|1|CLPTM1L,None|1 REV__chr5:1337982-1338266|337|22.65|0.39|5.88|-|1|CLPTM1L,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.3922119140625 2 634.392273 1266.76999 NaN NaN NaN NaN NaN NaN NaN 64.904 1 64.904 64.404 65.404 0 0 0 0 1.0038 1 30838 30838 5.7319 0.83484 1 + 32330 10046 20544 20612 36418 36418 0.14727985913418706 TKGNRLEVAP 10 Unmodified _TKGNRLEVAP_ 0 0 0 REV__nc|ENSG00000140455|Q9Y6I4-2|USP3 REV__nc|ENSG00000140455|Q9Y6I4-2|USP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.8111572265625 2 542.809105 1083.60366 NaN NaN NaN NaN NaN NaN NaN 94.041 1 94.041 93.541 94.541 0 0 0 0 0.94858 1 50337 50337 13.615 2.8154 1 + 32331 12249 20545 20613 36419 36419 0.06519932737546696 TKGVGAGG 8 Unmodified _TKGVGAGG_ 0 0 0 REV__ENSG00000110955|ENST00000262030|ATP5F1B REV__ENSG00000110955|ENST00000262030|ATP5F1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.68145751953125 2 323.679571 645.344589 3.1799 0.0010293 2.93 0.00094839 6.11 0.0019777 323.6806929372218 101.83 0.30701 102.14 101.98 102.29 0.31737 13 10 2 0 0 0 0.7471 1 47127 47127 0.6015 0 1 2385500 + 32332 11219 20546 20614 36420 36420 0.007730265662985403 TKHHWWWKLHF 11 Unmodified _TKHHWWWKLHF_ 0 0 0 ENSG00000168282|ENST00000305386|MGAT2 ENSG00000168282|ENST00000305386|MGAT2 ENSG00000168282|ENST00000305386|MGAT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 803.414794921875 2 803.414937 1604.81532 NaN NaN NaN NaN NaN NaN NaN 76.318 1 76.942 76.442 77.442 0.62397 0 0 0 1.0082 1 36982 36982 0 0 1 32333 4617 20547 20615 36421 36421 0.03710649219146944 TKHHWWWKLHF 11 Unmodified _TKHHWWWKLHF_ 0 0 0 ENSG00000168282|ENST00000305386|MGAT2 ENSG00000168282|ENST00000305386|MGAT2 ENSG00000168282|ENST00000305386|MGAT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 803.4151000976562 2 803.414937 1604.81532 NaN NaN NaN NaN NaN NaN NaN 77.567 1 77.82 77.32 78.32 0.25335 0 0 0 1.0082 1 35723 35723 0 0 1 32334 4617 20547 20615 36422 36422 0.03710649219146944 TKIFINNEWHE 11 Unmodified _TKIFINNEWHE_ 0 0 0 ENST00000560555.1_1_15:101420112-101432306:+|nuORF;ENSG00000184254|ENST00000329841|ALDH1A3 ENST00000560555.1_1_15:101420112-101432306:+|nuORF ENST00000560555.1_1_15:101420112-101432306:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 715.8546142578125 2 715.856783 1429.69901 NaN NaN NaN NaN NaN NaN NaN 67.15 1 67.852 67.352 68.352 0.70218 0 0 0 1.0063 1 31878 31878 2.4985 1.0166 1 32335 5430 20548 20616 36423 36423 0.001352411379230034 TKIHLRQKERK 11 Unmodified _TKIHLRQKERK_ 0 0 0 nc|ENSG00000122877|P11161-2|EGR2;ENSG00000122877|ENST00000242480|EGR2 nc|ENSG00000122877|P11161-2|EGR2 nc|ENSG00000122877|P11161-2|EGR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 718.9456176757812 2 718.944059 1435.87356 NaN NaN NaN NaN NaN NaN NaN 69.408 1 69.408 68.908 69.908 0 0 0 0 0.94933 1 33513 33513 11.518 3.3624 1 32336 2286 20549 20617 36424 36424 0.17306286073790034 TKIKNRRKKQF 11 Unmodified _TKIKNRRKKQF_ 0 0 0 REV__ENSG00000120210|ENST00000381641|INSL6 REV__ENSG00000120210|ENST00000381641|INSL6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 724.0134887695312 2 723.954427 1445.8943 NaN NaN NaN NaN NaN NaN NaN 89.183 1 89.434 88.934 89.934 0.25118 0 0 0 1.0072 1 41019 41019 1.3295 0 1 + 32337 11532 20550 20618 36425 36425 0.18918876453426492 TKILHAYHYDE 11 Unmodified _TKILHAYHYDE_ 0 0 0 REV__nc|ENSG00000150760|Q14185|DOCK1 REV__nc|ENSG00000150760|Q14185|DOCK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.33270263671875 3 463.898098 1388.67246 NaN NaN NaN NaN NaN NaN NaN 73.194 1 73.194 72.694 73.694 0 0 0 0 1.0063 1 35652 35652 1.0136 0.50762 1 + 32338 12594 20551 20619 36426 36426 -0.0063244775340081105 TKILSKKYK 9 Unmodified _TKILSKKYK_ 0 0 0 nc|ENSG00000108312|P17480-2|UBTF;ENSG00000108312|ENST00000436088|UBTF;UBTF|p.D239Tfs*5|1|0.25|ENSG00000108312|chr17:44212400-44212400|C/-|frameshift_variant;nc|ENSG00000228970|P0CB48|UBTFL6 nc|ENSG00000108312|P17480-2|UBTF;nc|ENSG00000228970|P0CB48|UBTFL6 nc|ENSG00000108312|P17480-2|UBTF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 370.2140197753906 3 370.241137 1107.70158 2.5201 0.00093303 -0.57551 -0.00021308 1.9445 0.00071995 370.2409319256362 35.692 0.34906 36.484 36.172 36.521 0.79131 33 17 2 0 0 0 0.10489 1 16067 16067 3.8763 0 1 600780 32339 9590;9838 20552 20620 36427 36427 0.15203741333539256 TKKARKVLRKK 11 Unmodified _TKKARKVLRKK_ 0 0 0 REV__ENST00000573090.1_1_17:79213668-79214813:+|nuORF REV__ENST00000573090.1_1_17:79213668-79214813:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 452.648193359375 3 452.6489 1354.92487 NaN NaN NaN NaN NaN NaN NaN 72.945 1 73.644 73.144 74.144 0.69881 0 0 0 1.0063 1 35146 35146 1.0136 0.60531 1 + 32340 17458 20553 20621 36428 36428 0.26160654838463415 TKKARNRIK 9 Unmodified _TKKARNRIK_ 0 0 0 REV__ENST00000312438.7_1_11:67134982-67141182:-|nuORF REV__ENST00000312438.7_1_11:67134982-67141182:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.8607177734375 2 557.862006 1113.70946 NaN NaN NaN NaN NaN NaN NaN 64.291 1 64.948 64.448 65.448 0.65672 0 0 0 0.89683 1 29473 29473 4.3292 0 1 + 32341 15272 20554 20622 36429 36429 0.157153133736756 TKKDSIALL 9 Unmodified _TKKDSIALL_ 0 0 0 ENST00000503755.5_1_5:87516463-87524344:-|nuORF ENST00000503755.5_1_5:87516463-87524344:-|nuORF ENST00000503755.5_1_5:87516463-87524344:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.20635986328125 3 330.206092 987.596446 2.373 0.00078357 0.083455 2.7557E-05 2.4564 0.00081113 330.2060042680162 34.616 0.23543 34.87 34.728 34.963 0.25389 21 9 3 0 0 0 0.27615 1 15765 15765 18.373 3.1246 1 1299300 32342 8493 20555 20623 36430 36430 0.10215200137122338 TKKFFPIRKGH 11 Unmodified _TKKFFPIRKGH_ 0 0 0 REV__nc|ENSG00000067191|Q02641-2|CACNB1 REV__nc|ENSG00000067191|Q02641-2|CACNB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 453.6839904785156 3 453.606701 1357.79827 NaN NaN NaN NaN NaN NaN NaN 68.853 1 68.853 68.353 69.353 0 0 0 0 1.0064 1 33182 33182 2.4348 0.35082 1 + 32343 17864 20556 20624 36431 36431 0.13368728613318126 TKKGRRNRFKW 11 Unmodified _TKKGRRNRFKW_ 0 0 0 nc|ENSG00000135100|P20823-5|HNF1A;nc|ENSG00000135100|P20823-6|HNF1A;nc|ENSG00000135100|P20823-3|HNF1A;nc|ENSG00000135100|P20823-2|HNF1A;nc|ENSG00000135100|P20823|HNF1A;ENSG00000135100|ENST00000257555|HNF1A;nc|ENSG00000135100|P20823-7|HNF1A nc|ENSG00000135100|P20823-5|HNF1A nc|ENSG00000135100|P20823-5|HNF1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.7705993652344 3 492.960138 1475.85858 NaN NaN NaN NaN NaN NaN NaN 60.629 1 61.368 60.868 61.868 0.7396 0 0 0 1.0068 1 28010 28010 1.9275 0.71267 1 32344 2849 20557 20625 36432 36432 0.13968838996424893 TKKILRFIKRK 11 Unmodified _TKKILRFIKRK_ 0 0 0 REV__ENST00000392859.7_1_11:118471445-118471652:+|nuORF REV__ENST00000392859.7_1_11:118471445-118471652:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 715.6638793945312 2 715.987738 1429.96092 NaN NaN NaN NaN NaN NaN NaN 99.733 1 100.04 99.542 100.54 0.30835 0 0 0 1.008 1 46098 46098 0.26902 0.26902 1 + 32345 15938 20558 20626 36433 36433 0.2631411201532501 TKKKELLKL 9 Unmodified _TKKKELLKL_ 0 0 0 REV__nc|ENSG00000182149|P53990-2|IST1 REV__nc|ENSG00000182149|P53990-2|IST1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.7315673828125 2 550.873717 1099.73288 NaN NaN NaN NaN NaN NaN NaN 48.785 1 48.785 48.285 49.285 0 0 0 0 0.91206 1 22342 22342 0.6015 0 1 + 32346 13874 20559 20627 36434 36434 0.18700314367652027 TKKKFLSA 8 Unmodified _TKKKFLSA_ 0 0 0 REV__ENST00000471660.5_1_3:87276594-87294874:+|nuORF REV__ENST00000471660.5_1_3:87276594-87294874:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.19671630859375 3 308.195527 921.564752 NaN NaN NaN NaN NaN NaN NaN 22.945 1 23.586 23.086 24.086 0.64051 0 0 0 0.99035 1 10460 10460 1.6526 0 1 + 32347 10633 20560 20628 36435 36435 0.10083252173842538 TKKKKKAKK 9 Unmodified _TKKKKKAKK_ 0 0 0 ENSG00000157895|ENST00000288757|C12orf43 ENSG00000157895|ENST00000288757|C12orf43 ENSG00000157895|ENST00000288757|C12orf43 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.3885498046875 2 544.387326 1086.7601 3.6961 0.0020121 -0.59766 -0.00032536 3.0984 0.0016867 544.386506831248 103.56 0.14521 104.16 104.1 104.25 0.59821 34 21 2 0 0 0 0.11443 1 47927 47927 0 0 1 907410 32348 3968 20561 20629 36436 36436 0.22018842698685148 TKKKKKGK 8 Unmodified _TKKKKKGK_ 0 0 0 nc|ENSG00000085224|P46100-2|ATRX;nc|ENSG00000085224|P46100-5|ATRX;nc|ENSG00000085224|P46100-3|ATRX;nc|ENSG00000085224|P46100-4|ATRX;ENSG00000085224|ENST00000373344|ATRX nc|ENSG00000085224|P46100-2|ATRX nc|ENSG00000085224|P46100-2|ATRX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.98779296875 2 473.332019 944.649485 NaN NaN NaN NaN NaN NaN NaN 64.078 1 64.793 64.293 65.293 0.71521 0 0 0 0.99035 1 30136 30136 2.3027 0 1 32349 965 20562 20630 36437 36437 0.17494622710466956 TKKKKKKEKKR 11 Unmodified _TKKKKKKEKKR_ 0 0 0 ENST00000406913.1_1_6:122001334-122001505:-|nuORF ENST00000406913.1_1_6:122001334-122001505:-|nuORF ENST00000406913.1_1_6:122001334-122001505:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 715.3579711914062 2 715.488102 1428.96165 NaN NaN NaN NaN NaN NaN NaN 100.27 1 100.27 99.769 100.77 0 0 0 0 1.0082 1 55309 55309 0 0 1 32350 7647 20563 20631 36438 36438 0.2643290666437679 TKKKKKKEKKR 11 Unmodified _TKKKKKKEKKR_ 0 0 0 ENST00000406913.1_1_6:122001334-122001505:-|nuORF ENST00000406913.1_1_6:122001334-122001505:-|nuORF ENST00000406913.1_1_6:122001334-122001505:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 715.6423950195312 2 715.488102 1428.96165 NaN NaN NaN NaN NaN NaN NaN 95.633 1 95.715 95.215 96.215 0.082001 0 0 0 1.0082 1 50597 50597 0 0 1 32351 7647 20563 20631 36439 36439 0.2643290666437679 TKKKKKKKG 9 Unmodified _TKKKKKKKG_ 0 0 0 REV__ENST00000297857.3_1_8:124261964-124262105:-|nuORF REV__ENST00000297857.3_1_8:124261964-124262105:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.380615234375 2 537.3795 1072.74445 3.8783 0.0020841 -0.77954 -0.00041891 3.0987 0.0016652 537.3787934071161 105.54 0.1489 105.86 105.75 105.9 0.31782 13 5 3 0 0 0 1.2459 1 48714 48714 0 0 1 2420200 + 32352 15168 20564 20632 36440 36440 0.2109855618164147 TKKKKKKKG 9 Unmodified _TKKKKKKKG_ 0 0 0 REV__ENST00000297857.3_1_8:124261964-124262105:-|nuORF REV__ENST00000297857.3_1_8:124261964-124262105:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.3807373046875 2 537.3795 1072.74445 3.4727 0.0018662 -0.51613 -0.00027736 2.9566 0.0015888 537.3788646487449 105.44 0.10194 106.04 105.99 106.1 0.59969 7 4 2 0 0 0 1.2459 1 48711 48711 0 0 1 1025300 + 32353 15168 20564 20632 36441 36441 0.2109855618164147 TKKKKKKKG 9 Unmodified _TKKKKKKKG_ 0 0 0 REV__ENST00000297857.3_1_8:124261964-124262105:-|nuORF REV__ENST00000297857.3_1_8:124261964-124262105:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 537.3795 1072.74445 3.8783 0.0020841 -0.77954 -0.00041891 3.0987 0.0016652 537.3787934071161 105.54 0.1489 105.86 105.75 105.9 0.31782 -0.089367 -9.9125E-05 NaN 0 13 5 3 NaN NaN NaN NaN 0 NaN NaN 0 2420200 + 32354 15168 20564 20632 0.2109855618164147 TKKKKKKKG 9 Unmodified _TKKKKKKKG_ 0 0 0 REV__ENST00000297857.3_1_8:124261964-124262105:-|nuORF REV__ENST00000297857.3_1_8:124261964-124262105:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 537.3795 1072.74445 3.4727 0.0018662 -0.51613 -0.00027736 2.9566 0.0015888 537.3788646487449 105.44 0.10194 106.04 105.99 106.1 0.59969 0.089367 0.00018398 NaN 0 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1025300 + 32355 15168 20564 20632 0.2109855618164147 TKKKKKKKK 9 Unmodified _TKKKKKKKK_ 0 0 0 ENSG00000204962|ENST00000531613|PCDHA8;ENSG00000204970|ENST00000504120|PCDHA1;nc|ENSG00000081842|Q9UN73-2|PCDHA6;nc|ENSG00000204970|Q9Y5I3-2|PCDHA1;ENSG00000204969|ENST00000526136|PCDHA2;ENSG00000250120|ENST00000307360|PCDHA10;ENSG00000249158|ENST00000398640|PCDHA11;ENSG00000081842|ENST00000529310|PCDHA6;ENSG00000204961|ENST00000532602|PCDHA9;nc|ENSG00000250120|Q9Y5I2-2|PCDHA10;ENSG00000239389|ENST00000289272|PCDHA13;ENSG00000248383|ENST00000253807|PCDHAC1;ENST00000367558.5_1_1:182569199-182569457:-|nuORF;ENSG00000204963|ENST00000525929|PCDHA7;ENSG00000251664|ENST00000398631|PCDHA12;ENSG00000204965|ENST00000529859|PCDHA5;ENSG00000255408|ENST00000522353|PCDHA3;ENSG00000204967|ENST00000530339|PCDHA4;ENSG00000243232|ENST00000289269|PCDHAC2;ENST00000340726.7_1_8:72274331-72274436:-|nuORF;ENSG00000130826|ENST00000369550|DKC1 ENSG00000204962|ENST00000531613|PCDHA8;ENSG00000204963|ENST00000525929|PCDHA7;ENSG00000204967|ENST00000530339|PCDHA4;ENSG00000243232|ENST00000289269|PCDHAC2;ENST00000340726.7_1_8:72274331-72274436:-|nuORF;ENSG00000130826|ENST00000369550|DKC1;REV__L1PB1_dup3131|chr4:69117282-69117596:+|1.59905624223008|0.0293046000434249|5.77|526.0|1|1|sense;REV__ENST00000373344.9_1_X:76762287-76762440:-|nuORF ENSG00000204962|ENST00000531613|PCDHA8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 572.9136962890625 2 572.91625 1143.81795 NaN NaN NaN NaN NaN NaN NaN 58.108 1 58.776 58.276 59.276 0.66829 0 0 0 0.91452 1 26592 26592 0 0 1 32356 6037;6038;6039;7067;6235;2625;17804;15766 20565 20633 36442 36442 0.2517910462411237 TKKKKKKKKA 10 Unmodified _TKKKKKKKKA_ 0 0 0 ENSG00000130826|ENST00000369550|DKC1 ENSG00000130826|ENST00000369550|DKC1 ENSG00000130826|ENST00000369550|DKC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 608.0883178710938 2 608.434807 1214.85506 NaN NaN NaN NaN NaN NaN NaN 72.568 1 72.568 72.068 73.068 0 0 0 0 1.002 1 35305 35305 0 0 1 32357 2625 20566 20634 36443 36443 0.2562277616987103 TKKKKKKKKK 10 Unmodified _TKKKKKKKKK_ 0 0 0 REV__ENST00000373344.9_1_X:76762287-76762440:-|nuORF REV__ENST00000373344.9_1_X:76762287-76762440:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 636.9614868164062 2 636.963732 1271.91291 NaN NaN NaN NaN NaN NaN NaN 108.85 1 109.16 108.66 109.66 0.31168 0 0 0 1.002 1 50189 50189 0 0 1 + 32358 15766 20567 20635 36444 36444 0.28783038095275515 TKKKKKKKKKK 11 Unmodified _TKKKKKKKKKK_ 0 0 0 REV__ENST00000373344.9_1_X:76762287-76762440:-|nuORF REV__ENST00000373344.9_1_X:76762287-76762440:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 701.00927734375 2 701.011213 1400.00787 NaN NaN NaN NaN NaN NaN NaN 84.513 1 84.541 84.041 85.041 0.028603 0 0 0 1.0082 1 42178 42178 0 0 1 + 32359 15766 20568 20636 36445 36445 0.323869715664614 TKKKKKKKKKK 11 Unmodified _TKKKKKKKKKK_ 0 0 0 REV__ENST00000373344.9_1_X:76762287-76762440:-|nuORF REV__ENST00000373344.9_1_X:76762287-76762440:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 701.0114135742188 2 701.011213 1400.00787 NaN NaN NaN NaN NaN NaN NaN 56.705 1 57.373 56.873 57.873 0.66829 0 0 0 1.0082 1 25942 25942 0 0 1 + 32360 15766 20568 20636 36446 36446 0.323869715664614 TKKKKKRKRK 10 Unmodified _TKKKKKRKRK_ 0 0 0 ENST00000437916.2_1_2:45148822-45149500:-|nuORF ENST00000437916.2_1_2:45148822-45149500:-|nuORF ENST00000437916.2_1_2:45148822-45149500:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 664.96923828125 2 664.96988 1327.92521 NaN NaN NaN NaN NaN NaN NaN 14.991 1 14.991 14.491 15.491 0 0 0 0 1.002 1 6617 6617 0 0 1 32361 7911 20569 20637 36447 36447 0.27436074558340806 TKKLISQKRK 10 Unmodified _TKKLISQKRK_ 0 0 0 REV__nc|ENSG00000173040|Q86UK5-2|EVC2 REV__nc|ENSG00000173040|Q86UK5-2|EVC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 615.70458984375 2 615.406247 1228.79794 NaN NaN NaN NaN NaN NaN NaN 86.121 1 86.121 85.621 86.621 0 0 0 0 1.0006 1 44060 44060 1.1933 0.12188 1 + 32362 13580 20570 20638 36448 36448 0.19269308893490233 TKKLKGRLLI 10 Unmodified _TKKLKGRLLI_ 0 0 0 REV__nc|ENSG00000119703|Q53FD0-2|ZC2HC1C REV__nc|ENSG00000119703|Q53FD0-2|ZC2HC1C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.0501098632812 2 585.408258 1168.80196 NaN NaN NaN NaN NaN NaN NaN 71.041 1 71.745 71.245 72.245 0.70386 0 0 0 1.0003 1 34092 34092 1.4819 0 1 + 32363 11511 20571 20639 36449 36449 0.22431398387220725 TKKLKKVLSK 10 Unmodified _TKKLKKVLSK_ 0 0 0 REV__ENSG00000166949|ENST00000327367|SMAD3 REV__ENSG00000166949|ENST00000327367|SMAD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.908935546875 2 586.908091 1171.80163 NaN NaN NaN NaN NaN NaN NaN 87.669 1 87.669 87.169 88.169 0 0 0 0 0.99877 1 45277 45277 2.7352 1.2533 1 + 32364 13272 20572 20640 36450 36450 0.22259978667352698 TKKLKLDRHVV 11 Unmodified _TKKLKLDRHVV_ 0 0 0 REV__nc|ENSG00000074590|O60285-2|NUAK1 REV__nc|ENSG00000074590|O60285-2|NUAK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.9232788085938 2 668.924803 1335.83505 NaN NaN NaN NaN NaN NaN NaN 70.556 1 71.26 70.76 71.76 0.70386 0 0 0 1.0063 1 33819 33819 2.4985 0 1 + 32365 17870 20573 20641 36451 36451 0.1805698043922348 TKKLLLFLKWI 11 Unmodified _TKKLLLFLKWI_ 0 0 0 REV__ENST00000262288.7_1_17:55083728-55083794:+|nuORF REV__ENST00000262288.7_1_17:55083728-55083794:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 701.9623413085938 2 701.962866 1401.91118 NaN NaN NaN NaN NaN NaN NaN 52.449 1 52.712 52.212 53.212 0.26345 0 0 0 1.0082 1 23978 23978 0 0 1 + 32366 14979 20574 20642 36452 36452 0.22629984286686522 TKKLNKIV 8 Unmodified _TKKLNKIV_ 0 0 0 REV__nc|ENSG00000138119|Q9NZM1-2|MYOF REV__nc|ENSG00000138119|Q9NZM1-2|MYOF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 315.20501708984375 3 315.21481 942.622602 NaN NaN NaN NaN NaN NaN NaN 28.311 1 28.311 27.811 28.811 0 0 0 0 0.99035 1 12763 12763 1.4819 0 1 + 32367 12150 20575 20643 36453 36453 0.14899514099272437 TKKPPSGKRP 10 Unmodified _TKKPPSGKRP_ 0 0 0 ENSG00000106624|ENST00000223357|AEBP1 ENSG00000106624|ENST00000223357|AEBP1 ENSG00000106624|ENST00000223357|AEBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.9340209960938 2 548.33529 1094.65603 NaN NaN NaN NaN NaN NaN NaN 85.722 1 85.722 85.222 86.222 0 0 0 0 0.96201 1 43729 43729 11.495 3.5846 1 32368 1579 20576 20644 36454 36454 0.11248515871170639 TKKRKRRRNL 10 Unmodified _TKKRKRRRNL_ 0 0 0 ENSG00000152217|ENST00000649279|SETBP1 ENSG00000152217|ENST00000649279|SETBP1 ENSG00000152217|ENST00000649279|SETBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 678.44482421875 2 678.44456 1354.87457 NaN NaN NaN NaN NaN NaN NaN 104.18 1 104.18 103.68 104.68 0 0 0 0 1.002 1 57350 57350 0 0 1 32369 3742 20577 20645 36455 36455 0.21132545233376732 TKKRKRRRRRS 11 Unmodified _TKKRKRRRRRS_ 0 0 0 ENST00000467963.5_3_5:889215-891867:-|nuORF;nc|ENSG00000028310|Q9H8M2-6|BRD9 ENST00000467963.5_3_5:889215-891867:-|nuORF ENST00000467963.5_3_5:889215-891867:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.0010681152344 3 510.001219 1526.98183 NaN NaN NaN NaN NaN NaN NaN 73.8 1 74.486 73.986 74.986 0.68662 0 0 0 1.0082 1 35617 35617 0.073264 0.073264 1 32370 8152 20578 20646 36456 36456 0.23941515167575744 TKKRRRKKKKK 11 Unmodified _TKKRRRKKKKK_ 0 0 0 REV__ENST00000428417.5_1_1:15546837-15546969:+|nuORF REV__ENST00000428417.5_1_1:15546837-15546969:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 743.0236206054688 2 743.020435 1484.02632 NaN NaN NaN NaN NaN NaN NaN 93.323 1 93.323 92.823 93.823 0 0 0 0 1.0082 1 49824 49824 0 0 1 + 32371 16235 20579 20647 36457 36457 0.30366526261036597 TKKSIEIKQRR 11 Unmodified _TKKSIEIKQRR_ 0 0 0 REV__ENST00000368655.4_1_1:153782348-153782624:-|nuORF REV__ENST00000368655.4_1_1:153782348-153782624:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 693.9302978515625 2 693.930617 1385.84668 NaN NaN NaN NaN NaN NaN NaN 31.992 1 32.609 32.109 33.109 0.61736 0 0 0 1.0082 1 14670 14670 0 0 1 + 32372 15688 20580 20648 36458 36458 0.16919177462568769 TKKSKKKKKK 10 Unmodified _TKKSKKKKKK_ 0 0 0 REV__ENST00000265340.11_1_5:134364111-134364312:-|nuORF REV__ENST00000265340.11_1_5:134364111-134364312:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 616.269775390625 2 616.432264 1230.84998 NaN NaN NaN NaN NaN NaN NaN 102.25 1 102.85 102.35 103.35 0.59759 0 0 0 1.002 1 47333 47333 0 0 1 + 32373 15034 20581 20649 36459 36459 0.243784723072622 TKKTKVLKL 9 Unmodified _TKKTKVLKL_ 0 0 0 REV__ENSG00000103528|ENST00000355377|SYT17 REV__ENSG00000103528|ENST00000355377|SYT17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.8681030273438 2 529.868434 1057.72232 NaN NaN NaN NaN NaN NaN NaN 53.328 1 53.328 52.828 53.828 0 0 0 0 0.91206 1 24427 24427 0.6015 0 1 + 32374 10969 20582 20650 36460 36460 0.19576331713210493 TKLAKSDLR 9 Unmodified _TKLAKSDLR_ 0 0 0 REV__nc|ENSG00000158528|Q9ULJ8|PPP1R9A REV__nc|ENSG00000158528|Q9ULJ8|PPP1R9A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.3157348632812 2 516.314023 1030.61349 2.8573 0.0014753 -0.02583 -1.3336E-05 2.8315 0.0014619 516.3138962518577 96.278 0.31638 96.278 96.15 96.467 0 95 38 3 0 0 0 1.0246 1 51998 51998 3.5965 0 1 34899000 + 32375 12825 20583 20651 36461 36461 0.09941120742928433 TKLETINRY 9 Unmodified _TKLETINRY_ 0 0 0 REV__nc|ENSG00000111445|P40937-2|RFC5 REV__nc|ENSG00000111445|P40937-2|RFC5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.4810180664062 2 569.316763 1136.61897 NaN NaN NaN NaN NaN NaN NaN 73.86 1 73.86 73.36 74.36 0 0 0 0 0.75166 1 36035 36035 10.824 0.75 1 + 32376 11234 20584 20652 36462 36462 0.05612799534765145 TKLGSIKRE 9 Unmodified _TKLGSIKRE_ 0 0 0 REV__ENSG00000186184|ENST00000302979|POLR1D REV__ENSG00000186184|ENST00000302979|POLR1D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.3148803710938 2 516.314023 1030.61349 2.8573 0.0014753 -0.02583 -1.3336E-05 2.8315 0.0014619 516.3138962518577 96.278 0.31638 96.278 96.15 96.467 0 95 38 3 0 0 0 0.89849 1 52136 52136 5.7319 1.4026 1 34899000 + 32377 14047 20585 20653 36463 36463 0.0994112074295117 TKLGSIKRE 9 Unmodified _TKLGSIKRE_ 0 0 0 REV__ENSG00000186184|ENST00000302979|POLR1D REV__ENSG00000186184|ENST00000302979|POLR1D MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 516.314023 1030.61349 2.8573 0.0014753 -0.02583 -1.3336E-05 2.8315 0.0014619 516.3138962518577 96.278 0.31638 96.278 96.15 96.467 0 0 0 NaN 5.7319 95 38 3 NaN NaN NaN NaN 0 NaN NaN 0 34899000 + 32378 14047 20585 20653 0.0994112074295117 TKLLFRTL 8 Unmodified _TKLLFRTL_ 0 0 0 ENSG00000232125|ENST00000452335|DYTN ENSG00000232125|ENST00000452335|DYTN ENSG00000232125|ENST00000452335|DYTN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.2158203125 3 331.21481 990.622602 NaN NaN NaN NaN NaN NaN NaN 12.305 1 12.943 12.443 13.443 0.63746 0 0 0 0.99035 1 5490 5490 3.5965 0 1 32379 6188 20586 20654 36464 36464 0.12691514099276446 TKLLIQPKTRR 11 Unmodified _TKLLIQPKTRR_ 0 0 0 ENST00000484913.5_1_7:92116773-92148321:-|nuORF;ENSG00000127980|ENST00000248633|PEX1 ENST00000484913.5_1_7:92116773-92148321:-|nuORF ENST00000484913.5_1_7:92116773-92148321:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.4373168945312 2 677.438078 1352.8616 NaN NaN NaN NaN NaN NaN NaN 65.521 1 66.23 65.73 66.73 0.70891 0 0 0 1.0073 1 30999 30999 1.1933 0 1 32380 2495 20587 20655 36465 36465 0.19928669330579396 TKLNKLKKVKV 11 Unmodified _TKLNKLKKVKV_ 0 0 0 REV__ENSG00000174839|ENST00000311128|DENND6A REV__ENSG00000174839|ENST00000311128|DENND6A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 649.9476318359375 2 649.947747 1297.88094 NaN NaN NaN NaN NaN NaN NaN 30.75 1 31.538 31.038 32.038 0.78879 0 0 0 1.008 1 13889 13889 0.30703 0 1 + 32381 13647 20588 20656 36466 36466 0.24391625621478852 TKLWKFIR 8 Unmodified _TKLWKFIR_ 0 0 0 ENSG00000128242|ENST00000406361|GAL3ST1 ENSG00000128242|ENST00000406361|GAL3ST1 ENSG00000128242|ENST00000406361|GAL3ST1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.3421630859375 2 546.339844 1090.66514 NaN NaN NaN NaN NaN NaN NaN 79.314 1 79.634 79.134 80.134 0.31998 0 0 0 0.99035 1 38739 38739 4.756 0.81161 1 32382 2502 20589 20657 36467 36467 0.12342909227504606 TKMIMKVK 8 Unmodified _TKMIMKVK_ 0 0 0 REV__nc|ENSG00000105426|Q13332-7|PTPRS REV__nc|ENSG00000105426|Q13332-7|PTPRS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 978.587646484375 1 978.583856 977.576579 4.4418 0.0043467 -0.38435 -0.00037612 4.0575 0.0039706 978.5833000363502 103.31 0.040504 103.63 103.59 103.63 0.31863 6 2 3 0 0 0 0.7471 1 47765 47765 0 0 1 420040 + 32383 11033 20590 20658 36468 36468 0.08689409601174702 TKMIMKVK 8 Unmodified _TKMIMKVK_ 0 0 0 REV__nc|ENSG00000105426|Q13332-7|PTPRS REV__nc|ENSG00000105426|Q13332-7|PTPRS MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 978.583856 977.576579 4.4418 0.0043467 -0.38435 -0.00037612 4.0575 0.0039706 978.5833000363502 103.31 0.040504 103.63 103.59 103.63 0.31863 -0.11263 -0.00012074 NaN 0 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 420040 + 32384 11033 20590 20658 0.08689409601174702 TKMKLLPI 8 Unmodified _TKMKLLPI_ 0 0 0 REV__ENST00000396526.7_1_14:35074841-35077276:-|nuORF REV__ENST00000396526.7_1_14:35074841-35077276:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 315.2049560546875 3 315.205146 942.59361 NaN NaN NaN NaN NaN NaN NaN 21.336 1 21.984 21.484 22.484 0.64714 0 0 0 0.99035 1 9680 9680 1.4819 1.0236 1 + 32385 16006 20591 20659 36469 36469 0.12001653478637309 TKNHVLVL 8 Unmodified _TKNHVLVL_ 0 0 0 ENSG00000173198|ENST00000373304|CYSLTR1 ENSG00000173198|ENST00000373304|CYSLTR1 ENSG00000173198|ENST00000373304|CYSLTR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.2887878417969 2 462.287277 922.560001 2.8668 0.0013253 0.41496 0.00019183 3.2818 0.0015171 462.2873719553382 48.704 0.39851 48.966 48.745 49.143 0.26209 44 16 3 0 0 0 0.57648 1 22340 22340 15.847 0 1 3957300 32386 4918 20592 20660 36470 36470 0.09562368031083679 TKNKPKLRDR 10 Unmodified _TKNKPKLRDR_ 0 0 0 nc|ENSG00000147202|O60879-3|DIAPH2 nc|ENSG00000147202|O60879-3|DIAPH2 nc|ENSG00000147202|O60879-3|DIAPH2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 628.3840942382812 2 628.383303 1254.75205 3.4352 0.0021586 -0.96642 -0.00060728 2.4688 0.0015513 628.3827052164638 104.46 0.37273 104.46 104.32 104.69 0 57 27 3 0 0 0 0.93713 1 57474 57474 1.4819 0 1 581850 32387 9683 20593 20661 36471 36471 0.13486663711250912 TKNKPKLRDR 10 Unmodified _TKNKPKLRDR_ 0 0 0 nc|ENSG00000147202|O60879-3|DIAPH2 nc|ENSG00000147202|O60879-3|DIAPH2 nc|ENSG00000147202|O60879-3|DIAPH2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 628.383303 1254.75205 4.5516 0.0028602 -1.7569 -0.001104 2.7947 0.0017562 628.3821504291313 103.94 0.20714 104.26 104.21 104.42 0.31863 -0.13391 -0.00041216 NaN 1.4819 60 40 2 NaN NaN NaN NaN 0 NaN NaN 0 927880 32388 9683 20593 20661 0.13486663711250912 TKNKPKLRDR 10 Unmodified _TKNKPKLRDR_ 0 0 0 nc|ENSG00000147202|O60879-3|DIAPH2 nc|ENSG00000147202|O60879-3|DIAPH2 nc|ENSG00000147202|O60879-3|DIAPH2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 628.383303 1254.75205 4.0199 0.002526 -1.6278 -0.0010229 2.3921 0.0015032 628.3819952614042 103.86 0.14343 104.46 104.37 104.51 0.59822 0.065929 -0.00024991 NaN 1.4819 42 25 3 NaN NaN NaN NaN 0 NaN NaN 0 579010 32389 9683 20593 20661 0.13486663711250912 TKNPSKRL 8 Unmodified _TKNPSKRL_ 0 0 0 nc|ENSG00000125388|P32298-3|GRK4;nc|ENSG00000125388|P32298-4|GRK4;nc|ENSG00000125388|P32298-2|GRK4;ENSG00000125388|ENST00000398052|GRK4 nc|ENSG00000125388|P32298-3|GRK4 nc|ENSG00000125388|P32298-3|GRK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.2891845703125 2 472.287808 942.561064 1.8837 0.00088965 0.65271 0.00030827 2.5364 0.0011979 472.288095146516 91.099 0.35159 91.174 91.016 91.367 0.075279 123 51 3 0 0 0 0.71211 1 47261 47261 6.7232 0 1 33726000 32390 2396 20594 20662 36472 36472 0.08748582399982752 TKNWRLEN 8 Unmodified _TKNWRLEN_ 0 0 0 ENST00000469825.1_1_3:169621639-169621999:-|nuORF ENST00000469825.1_1_3:169621639-169621999:-|nuORF ENST00000469825.1_1_3:169621639-169621999:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.7801513671875 2 530.780348 1059.54614 NaN NaN NaN NaN NaN NaN NaN 38.984 1 39.621 39.121 40.121 0.63778 0 0 0 0.99035 1 17821 17821 2.3027 0 1 32391 8167 20595 20663 36473 36473 0.018750905319848243 TKPGKERRTLP 11 Unmodified _TKPGKERRTLP_ 0 0 0 ENST00000234091.8_1_2:8819035-8819278:+|nuORF ENST00000234091.8_1_2:8819035-8819278:+|nuORF ENST00000234091.8_1_2:8819035-8819278:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.8857421875 2 641.883136 1281.75172 4.2699 0.0027408 -1.0168 -0.00065269 3.2531 0.0020881 641.8823463323495 91.922 1.25 92.174 91.475 92.725 0.25253 214 60 4 0 0 0 0.89844 1 42347 42347 2.4985 1.3051 1 2749900 32392 6453 20596 20664 36474 36474 0.12211243991418996 TKPLLWVLLW 10 Unmodified _TKPLLWVLLW_ 0 0 0 ENST00000465984.5_1_2:219247091-219251606:+|nuORF ENST00000465984.5_1_2:219247091-219251606:+|nuORF ENST00000465984.5_1_2:219247091-219251606:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.5987854003906 3 423.597032 1267.76927 3.7604 0.0015929 0.68859 0.00029168 4.449 0.0018846 423.5972849413749 100.29 0.13364 100.6 100.52 100.65 0.30835 12 4 3 0 0 0 0.93713 1 46389 46389 1.7423 1.7423 1 8030900 32393 8131 20597 20665 36475 36475 0.14609191264366927 TKPLLWVLLW 10 Unmodified _TKPLLWVLLW_ 0 0 0 ENST00000465984.5_1_2:219247091-219251606:+|nuORF ENST00000465984.5_1_2:219247091-219251606:+|nuORF ENST00000465984.5_1_2:219247091-219251606:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 634.8945922851562 2 634.891909 1267.76927 4.6048 0.0029235 0.29115 0.00018485 4.8959 0.0031084 634.8921682193098 100.29 0.13364 100.6 100.52 100.65 0.30835 12 4 3 0 0 0 0.93713 1 46391 46391 1.4819 0.28856 1 6821200 32394 8131 20597 20665 36476 36476 0.14609191264366927 TKPLTQLAKK 10 Unmodified _TKPLTQLAKK_ 0 0 0 nc|ENSG00000184634|Q93074-3|MED12;ENSG00000184634|ENST00000374080|MED12;nc|ENSG00000184634|Q93074-2|MED12 nc|ENSG00000184634|Q93074-3|MED12 nc|ENSG00000184634|Q93074-3|MED12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.5293579101562 2 564.360973 1126.70739 NaN NaN NaN NaN NaN NaN NaN 77.379 1 77.379 76.879 77.879 0 0 0 0 0.96642 1 37950 37950 10.8 0.72558 1 32395 5454 20598 20666 36477 36477 0.14910839845219925 TKPMLKKPEKI 11 Unmodified _TKPMLKKPEKI_ 0 0 0 REV__nc|ENSG00000214193|A4FU49-4|SH3D21 REV__nc|ENSG00000214193|A4FU49-4|SH3D21 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 438.2742004394531 3 438.272219 1311.79483 3.7159 0.0016286 1.0183 0.0004463 4.7342 0.0020749 438.27257853403296 100.54 0.12202 100.85 100.79 100.91 0.31412 12 4 4 0 0 0 0.91104 1 46522 46522 1.2148 0 1 4614300 + 32396 14508 20599 20667 36478 36478 0.15140297724474294 TKPMLKKPEKI 11 Unmodified _TKPMLKKPEKI_ 0 0 0 REV__nc|ENSG00000214193|A4FU49-4|SH3D21 REV__nc|ENSG00000214193|A4FU49-4|SH3D21 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 438.272219 1311.79483 3.2847 0.0014396 1.3561 0.00059436 4.6408 0.0020339 438.2727549353771 100.44 0.1299 101.04 100.98 101.11 0.59717 0.17312 0.00025788 NaN 1.2148 11 4 3 NaN NaN NaN NaN 0 NaN NaN 0 12352000 + 32397 14508 20599 20667 0.15140297724474294 TKPNFAKHIV 10 Unmodified _TKPNFAKHIV_ 0 0 0 ENSG00000188177|ENST00000409871|ZC3H6 ENSG00000188177|ENST00000409871|ZC3H6 ENSG00000188177|ENST00000409871|ZC3H6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 577.6450805664062 2 577.837665 1153.66078 NaN NaN NaN NaN NaN NaN NaN 68.321 1 68.321 67.821 68.821 0 0 0 0 0.98317 1 32889 32889 8.1555 1.4324 1 32398 5657 20600 20668 36479 36479 0.09009400013928826 TKPSFNAS 8 Unmodified _TKPSFNAS_ 0 0 0 REV__ENST00000472298.1_1_13:32981593-33002081:-|nuORF REV__ENST00000472298.1_1_13:32981593-33002081:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 426.2187805175781 2 426.216517 850.418482 3.198 0.001363 0.86483 0.00036861 4.0628 0.0017316 426.216897224612 89.914 0.54002 90.586 90.295 90.835 0.67271 39 24 2 0 0 0 0.71911 1 41408 41408 4.3292 1.7518 1 635670 + 32399 16616 20601 20669 36480 36480 -0.012710500620528364 TKPVRLRRVVL 11 Unmodified _TKPVRLRRVVL_ 0 0 0 REV__nc|ENSG00000032444|Q8IY17-5|PNPLA6 REV__nc|ENSG00000032444|Q8IY17-5|PNPLA6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 668.9480590820312 2 668.948613 1335.88267 NaN NaN NaN NaN NaN NaN NaN 71.816 1 72.074 71.574 72.574 0.25786 0 0 0 1.0063 1 32940 32940 2.4985 0.84587 1 + 32400 10293 20602 20670 36481 36481 0.22816679430115983 TKQPVKVKAKK 11 Unmodified _TKQPVKVKAKK_ 0 0 0 REV__nc|ENSG00000162086|Q96N20|ZNF75A REV__nc|ENSG00000162086|Q96N20|ZNF75A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 627.4922485351562 2 627.916447 1253.81834 2.7246 0.0017108 -1.4375 -0.00090261 1.2871 0.00080819 627.916332670302 82.571 0.046852 82.616 82.576 82.623 0.045006 5 3 2 0 0 0 0.13251 1 40772 40772 6.6304 2.4409 1 1258400 + 32401 12924 20603 20671 36482 36482 0.20158479553310826 TKRHSRSR 8 Unmodified _TKRHSRSR_ 0 0 0 ENSG00000100813|ENST00000605057|ACIN1;nc|ENSG00000100813|Q9UKV3-5|ACIN1;nc|ENSG00000100813|Q9UKV3|ACIN1;nc|ENSG00000100813|Q9UKV3-3|ACIN1;nc|ENSG00000100813|Q9UKV3-2|ACIN1 ENSG00000100813|ENST00000605057|ACIN1 ENSG00000100813|ENST00000605057|ACIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 343.8702087402344 3 343.200446 1026.57951 2.4532 0.00084194 -0.70535 -0.00024208 1.7478 0.00059986 343.534841065818 35.539 0.5497 36.331 36.056 36.606 0.79131 87 29 4 0 0 0 0.7441 2 16003 16003;16149 3.5965 2.1146 1 2213800 32402 1242 20604 20672 36483;36484 36483 0.06728137094546582 TKRKAGKG 8 Unmodified _TKRKAGKG_ 0 0 0 REV__ENST00000463129.5_1_2:239096889-239102991:-|nuORF REV__ENST00000463129.5_1_2:239096889-239102991:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 423.2689514160156 2 423.269419 844.524284 NaN NaN NaN NaN NaN NaN NaN 60.815 1 61.555 61.055 62.055 0.7396 0 0 0 0.99035 1 28124 28124 5.2307 0 1 + 32403 11884 20605 20673 36485 36485 0.09580330574090112 TKRKAKEKARA 11 Unmodified _TKRKAKEKARA_ 0 0 0 ENSG00000102174|ENST00000379374|PHEX ENSG00000102174|ENST00000379374|PHEX ENSG00000102174|ENST00000379374|PHEX MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 429.23675537109375 3 429.60536 1285.79425 3.1314 0.0013453 0.78453 0.00033704 3.916 0.0016823 429.9399881169923 64.838 0.71048 65.495 65.21 65.92 0.65672 72 41 2 0 0 0 0.13295 1 29675 29675 1.1098 0 1 1412800 32404 1335 20606 20674 36486 36486 0.16278639119650506 TKRKAKEKARA 11 Unmodified _TKRKAKEKARA_ 0 0 0 ENSG00000102174|ENST00000379374|PHEX ENSG00000102174|ENST00000379374|PHEX ENSG00000102174|ENST00000379374|PHEX MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 429.60536 1285.79425 2.3307 0.0010013 1.4159 0.00060829 3.7466 0.0016096 429.9405443005936 65.696 0.044235 65.696 65.656 65.7 0 0.10034 0.00074634 NaN 1.1098 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 1066100 32405 1335 20606 20674 0.16278639119650506 TKRKIKKAPVR 11 Unmodified _TKRKIKKAPVR_ 0 0 0 REV__ENST00000406170.1_1_6:111751648-111751957:+|nuORF REV__ENST00000406170.1_1_6:111751648-111751957:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 442.303466796875 3 442.301501 1323.88267 NaN NaN NaN NaN NaN NaN NaN 101.67 1 101.98 101.48 102.48 0.31737 0 0 0 1.0082 1 47041 47041 0.094841 0 1 + 32406 16068 20607 20675 36487 36487 0.23368679430086559 TKRPQTLLQH 10 Unmodified _TKRPQTLLQH_ 0 0 0 REV__ENSG00000131126|ENST00000598265|TEX101 REV__ENSG00000131126|ENST00000598265|TEX101 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.3605346679688 2 611.356754 1220.69895 3.7786 0.0023101 -0.82284 -0.00050305 2.9558 0.001807 611.3562635632172 87.727 1.3442 87.978 87.314 88.658 0.25064 109 59 3 0 0 0 0.90196 4 40184 40184;40241;40296;40467 3.5965 0.60125 1 1826700 + 32407 11845 20608 20676 36488;36489;36490;36491 36488 0.09743285928607293 TKRPQTLLQH 10 Unmodified _TKRPQTLLQH_ 0 0 0 REV__ENSG00000131126|ENST00000598265|TEX101 REV__ENSG00000131126|ENST00000598265|TEX101 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.3593139648438 2 611.356754 1220.69895 3.8321 0.0023428 -0.33351 -0.00020389 3.4986 0.0021389 611.3567573465588 88.719 0.87858 88.97 88.494 89.373 0.25118 55 36 3 0 0 0 0.90196 1 40804 40804 3.5965 0.60125 1 514300 + 32408 11845 20608 20676 36492 36492 0.09743285928607293 TKRPQTLLQH 10 Unmodified _TKRPQTLLQH_ 0 0 0 REV__ENSG00000131126|ENST00000598265|TEX101 REV__ENSG00000131126|ENST00000598265|TEX101 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.3587036132812 2 611.356754 1220.69895 3.9302 0.0024028 -0.74464 -0.00045524 3.1856 0.0019475 611.3560789814101 90.033 2.3692 90.285 89.498 91.868 0.25136 339 114 4 0 0 0 0.90196 7 41137 41137;41190;41448;41568;41677;41752;41957 3.5965 0.60125 1 4331900 + 32409 11845 20608 20676 36493;36494;36495;36496;36497;36498;36499 36493 0.09743285928607293 TKRPQTLLQH 10 Unmodified _TKRPQTLLQH_ 0 0 0 REV__ENSG00000131126|ENST00000598265|TEX101 REV__ENSG00000131126|ENST00000598265|TEX101 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.3573608398438 2 611.356754 1220.69895 3.7109 0.0022687 -0.98101 -0.00059975 2.7298 0.0016689 611.3559359689682 87.416 0.7215 88.092 87.808 88.529 0.67555 74 34 3 0 0 0 0.90196 3 40217 40217;40267;40411 3.5965 0.60125 1 1111100 + 32410 11845 20608 20676 36500;36501;36502 36500 0.09743285928607293 TKRPQTLLQH 10 Unmodified _TKRPQTLLQH_ 0 0 0 REV__ENSG00000131126|ENST00000598265|TEX101 REV__ENSG00000131126|ENST00000598265|TEX101 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.359619140625 2 611.356754 1220.69895 3.7239 0.0022766 0.032724 2.0006E-05 3.7566 0.0022966 611.356715750604 88.051 0.83628 88.73 88.546 89.382 0.67818 59 36 2 0 0 0 0.90196 3 40588 40588;40649;40704 3.5965 0.60125 1 685950 + 32411 11845 20608 20676 36503;36504;36505 36503 0.09743285928607293 TKRPQTLLQH 10 Unmodified _TKRPQTLLQH_ 0 0 0 REV__ENSG00000131126|ENST00000598265|TEX101 REV__ENSG00000131126|ENST00000598265|TEX101 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.3594970703125 2 611.356754 1220.69895 3.7249 0.0022773 -0.35511 -0.0002171 3.3698 0.0020602 611.3563796151667 89.549 1.5947 90.227 89.501 91.096 0.67818 190 72 4 0 0 0 0.90196 7 40965 40965;41074;41122;41227;41273;41377;41546 3.5965 0.60125 1 4220300 + 32412 11845 20608 20676 36506;36507;36508;36509;36510;36511;36512 36506 0.09743285928607293 TKRRKRKQ 8 Unmodified _TKRRKRKQ_ 0 0 0 REV__ENSG00000112118|ENST00000596288|MCM3 REV__ENSG00000112118|ENST00000596288|MCM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.8585205078125 2 550.859798 1099.70504 NaN NaN NaN NaN NaN NaN NaN 27.999 1 28.785 28.285 29.285 0.78627 0 0 0 0.99035 1 12600 12600 0.69038 0 1 + 32413 11260 20609 20677 36513 36513 0.15917848950789448 TKRVLKKRIVK 11 Unmodified _TKRVLKKRIVK_ 0 0 0 REV__ENSG00000166598|ENST00000299767|HSP90B1 REV__ENSG00000166598|ENST00000299767|HSP90B1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 684.9785766601562 2 684.979913 1367.94527 NaN NaN NaN NaN NaN NaN NaN 70.558 1 71.262 70.762 71.762 0.70386 0 0 0 1.0073 1 33820 33820 1.1933 0.88631 1 + 32414 13251 20610 20678 36514 36514 0.2760182549827732 TKRVVFRVM 9 Unmodified _TKRVVFRVM_ 0 0 0 REV__nc|ENSG00000182050|Q9UBM8-2|MGAT4C REV__nc|ENSG00000182050|Q9UBM8-2|MGAT4C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.3404541015625 2 568.342061 1134.66957 NaN NaN NaN NaN NaN NaN NaN 17.111 1 17.111 16.611 17.611 0 0 0 0 0.89983 1 7596 7596 3.5965 0 1 + 32415 18065 20611 20679 36515 36515 0.10762050378752974 TKSILTLTRS 10 Unmodified _TKSILTLTRS_ 0 0 0 REV__nc|ENSG00000185989|Q14644-2|RASA3 REV__nc|ENSG00000185989|Q14644-2|RASA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.3383178710938 2 560.340238 1118.66592 4.3986 0.0024647 -3.6966 -0.0020713 0.70205 0.00039339 560.3373222854183 100.27 0.19984 100.58 100.42 100.62 0.30835 9 7 2 0 0 0 0.9146 1 46384 46384 2.9952 0.49676 1 453220 + 32416 14039 20612 20680 36516 36516 0.11133659085885483 TKSLFLGQ 8 Unmodified _TKSLFLGQ_ 0 0 0 ENST00000512507.5_1_5:134695871-134696306:-|nuORF;ENST00000513210.5_1_5:134695623-134724711:-|nuORF;ENST00000360597.8_1_5:134681666-134724783:-|nuORF;nc|ENSG00000113648|O75367|MACROH2A1;nc|ENSG00000113648|O75367-3|MACROH2A1;ENSG00000113648|ENST00000511689|MACROH2A1 ENST00000512507.5_1_5:134695871-134696306:-|nuORF ENST00000512507.5_1_5:134695871-134696306:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 447.2593688964844 2 447.258185 892.501818 NaN NaN NaN NaN NaN NaN NaN 56.554 1 57.332 56.832 57.832 0.77786 0 0 0 0.93399 1 25859 25859 10.074 2.1638 1 32417 1867 20613 20681 36517 36517 0.05126686385813173 TKSLLLIILFK 11 Unmodified _TKSLLLIILFK_ 0 0 0 REV__ENST00000423082.1_1_1:111550392-111550686:-|nuORF REV__ENST00000423082.1_1_1:111550392-111550686:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1288.8614501953125 1 1288.86027 1287.853 2.9339 0.0037814 -0.13048 -0.00016816 2.8034 0.0036132 1289.8606291398148 34.919 0.062645 34.919 34.892 34.955 0 5 4 2 0 0 0 0.91489 1 15842 15842 0 0 1 2383700 + 32418 16188 20614 20682 36518 36518 0.22058302641403316 TKSMKCLAR 9 Unmodified _TKSMKCLAR_ 0 0 0 ATAD5|p.N1545K|1|0.12|ENSG00000176208|chr17:30893488-30893488|T/A|missense_variant ATAD5|p.N1545K|1|0.12|ENSG00000176208|chr17:30893488-30893488|T/A|missense_variant ATAD5|p.N1545K|1|0.12|ENSG00000176208|chr17:30893488-30893488|T/A|missense_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.800537109375 2 519.283354 1036.55216 3.5591 0.0018482 1.959 0.0010173 5.5182 0.0028655 519.2842287014852 19.658 0.23339 20.316 20.226 20.46 0.65829 27 16 2 0 0 0 0.11159 1 8985 8985 3.5965 1.019 1 260420 32419 72 20615 20683 36519 36519 0.03534149447636992 TKSRKLFRETY 11 Unmodified _TKSRKLFRETY_ 0 0 0 nc|ENSG00000114353|P04899-4|GNAI2 nc|ENSG00000114353|P04899-4|GNAI2 nc|ENSG00000114353|P04899-4|GNAI2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 714.904052734375 2 714.901525 1427.7885 NaN NaN NaN NaN NaN NaN NaN 53.49 1 54.293 53.793 54.793 0.80351 0 0 0 1.0063 1 24401 24401 2.4985 1.3051 1 32420 9602 20616 20684 36520 36520 0.09171495817349751 TKSRMFEE 8 Unmodified _TKSRMFEE_ 0 0 0 REV__ENST00000525971.6_1_12:85431954-85518298:+|nuORF REV__ENST00000525971.6_1_12:85431954-85518298:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.5509033203125 3 343.16742 1026.48043 1.7494 0.00060034 0.39819 0.00013665 2.1476 0.00073699 343.167428451447 12.558 0.22927 12.865 12.794 13.023 0.30727 12 7 2 0 0 0 0.14161 1 5681 5681 1.1933 0 1 4811000 + 32421 11939 20617 20685 36521 36521 -0.03175066705193785 TKSTKKSA 8 Unmodified _TKSTKKSA_ 0 0 0 REV__nc|ENSG00000147010|Q96B97-3|SH3KBP1 REV__nc|ENSG00000147010|Q96B97-3|SH3KBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 425.7538146972656 2 425.753267 849.491981 2.8421 0.00121 -1.1294 -0.00048086 1.7127 0.00072917 425.7526997467482 83.013 0.32938 83.26 83.088 83.417 0.24722 35 17 3 0 0 0 0.7471 1 38189 38189 0 0 1 3029200 + 32422 12491 20618 20686 36522 36522 0.06121498380412049 TKSTKKSA 8 Unmodified _TKSTKKSA_ 0 0 0 REV__nc|ENSG00000147010|Q96B97-3|SH3KBP1 REV__nc|ENSG00000147010|Q96B97-3|SH3KBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 425.7545471191406 2 425.753267 849.491981 3.2209 0.0013713 -0.73628 -0.00031347 2.4846 0.0010578 425.75282780429717 93.853 0.29447 94.484 94.349 94.644 0.63115 21 14 2 0 0 0 0.7471 1 43191 43191 0 0 1 183390 + 32423 12491 20618 20686 36523 36523 0.06121498380412049 TKSVIPVKP 9 Unmodified _TKSVIPVKP_ 0 0 0 ENSG00000135749|ENST00000258229|PCNX2 ENSG00000135749|ENST00000258229|PCNX2 ENSG00000135749|ENST00000258229|PCNX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.63885498046875 2 484.810585 967.606617 NaN NaN NaN NaN NaN NaN NaN 74.969 1 74.969 74.469 75.469 0 0 0 0 0.70806 1 36720 36720 12.241 1.4167 1 32424 2895 20619 20687 36524 36524 0.12151807862369424 TKTAVLKKK 9 Unmodified _TKTAVLKKK_ 0 0 0 REV__ENSG00000196422|ENST00000356818|PPP1R26 REV__ENSG00000196422|ENST00000356818|PPP1R26 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.8435974121094 2 508.844959 1015.67537 NaN NaN NaN NaN NaN NaN NaN 90.189 1 90.189 89.689 90.689 0 0 0 0 0.90909 1 47327 47327 1.3295 0.63916 1 + 32425 14214 20620 20688 36525 36525 0.1681547216207946 TKTELSTMKYT 11 Unmodified _TKTELSTMKYT_ 0 0 0 REV__nc|ENSG00000148773|P46013-2|MKI67 REV__nc|ENSG00000148773|P46013-2|MKI67 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.56024169921875 3 434.891844 1301.6537 NaN NaN NaN NaN NaN NaN NaN 104.03 1 104.63 104.13 105.13 0.59821 0 0 0 1.008 1 48110 48110 0.073264 0 1 + 32426 12549 20621 20689 36526 36526 0.014942545605435953 TKTWRRWHRRV 11 Unmodified _TKTWRRWHRRV_ 0 0 0 ENST00000566624.5_1_15:66794944-66797161:-|nuORF;ENST00000564439.5_1_15:66793756-66797161:-|nuORF;ENST00000566622.5_1_15:66794044-66797161:-|nuORF;ENST00000566039.5_1_15:66793707-66797161:-|nuORF;ENST00000422486.1_1_3:185135660-185136437:-|nuORF;ENSG00000174444|ENST00000307961|RPL4 ENST00000566624.5_1_15:66794944-66797161:-|nuORF ENST00000566624.5_1_15:66794944-66797161:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 791.4537353515625 2 791.452917 1580.89128 NaN NaN NaN NaN NaN NaN NaN 70.276 1 70.979 70.479 71.479 0.70302 0 0 0 1.008 1 33666 33666 0.26902 0.26902 1 32427 4978 20622 20690 36527 36527 0.12407046119278675 TKVKLSKKLK 10 Unmodified _TKVKLSKKLK_ 0 0 0 REV__nc|ENSG00000022976|A8K0R7|ZNF839 REV__nc|ENSG00000022976|A8K0R7|ZNF839 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.9102783203125 2 586.908091 1171.80163 3.7321 0.0021904 0.17411 0.00010219 3.9062 0.0022926 586.9079637156688 104.85 0.11761 105.45 105.4 105.51 0.59885 13 11 2 0 0 0 0.94443 1 48439 48439 0 0 1 329950 + 32428 10268 20623 20691 36528 36528 0.22259978667375435 TKVQKYSLNL 10 Unmodified _TKVQKYSLNL_ 0 0 0 REV__nc|ENSG00000176654|Q8N7R0|NANOGP1 REV__nc|ENSG00000176654|Q8N7R0|NANOGP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.998291015625 3 398.567801 1192.68157 2.9363 0.0011703 0.50468 0.00020115 3.441 0.0013715 398.5682159917208 50.266 0.30508 50.528 50.342 50.647 0.26146 21 10 3 0 0 0 0.12676 1 22993 22993 5.4027 0 1 1033800 + 32429 11248 20624 20692 36529 36529 0.09293945602939857 TKVQKYSLNL 10 Unmodified _TKVQKYSLNL_ 0 0 0 REV__nc|ENSG00000176654|Q8N7R0|NANOGP1 REV__nc|ENSG00000176654|Q8N7R0|NANOGP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 398.567801 1192.68157 2.6126 0.0010413 1.9495 0.00077702 4.5621 0.0018183 398.56846912724205 50.382 0.19249 50.382 50.268 50.461 0 0.058076 0.0011786 NaN 5.4027 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 347150 + 32430 11248 20624 20692 0.09293945602939857 TKVQKYSLNL 10 Unmodified _TKVQKYSLNL_ 0 0 0 REV__nc|ENSG00000176654|Q8N7R0|NANOGP1 REV__nc|ENSG00000176654|Q8N7R0|NANOGP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 398.567801 1192.68157 2.6918 0.0010729 1.0003 0.00039869 3.6921 0.0014716 398.5680794214838 49.258 0.22055 50.085 49.951 50.172 0.82705 -0.23915 4.3614E-05 NaN 5.4027 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 216310 + 32431 11248 20624 20692 0.09293945602939857 TKVVMKLRR 9 Unmodified _TKVVMKLRR_ 0 0 0 REV__nc|ENSG00000083642|Q9NTI5-2|PDS5B REV__nc|ENSG00000083642|Q9NTI5-2|PDS5B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 565.4232788085938 2 565.86316 1129.71177 NaN NaN NaN NaN NaN NaN NaN 70.729 1 71.433 70.933 71.933 0.70386 0 0 0 0.8984 1 33915 33915 3.9444 0.3479 1 + 32432 10630 20625 20693 36530 36530 0.15210025787155246 TKWIHTLK 8 Unmodified _TKWIHTLK_ 0 0 0 ENST00000344138.8_1_22:40297169-40297247:+|nuORF ENST00000344138.8_1_22:40297169-40297247:+|nuORF ENST00000344138.8_1_22:40297169-40297247:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.8097534179688 2 513.808377 1025.6022 3.12 0.0016031 1.1 0.00056519 4.22 0.0021683 513.8085864265968 45.265 0.36547 45.265 45.129 45.494 0 47 19 3 0 0 0 0.71911 1 20748 20748 4.3292 0.38484 1 1700100 32433 7098 20626 20694 36531 36531 0.0904234343945518 TKWIHTLK 8 Unmodified _TKWIHTLK_ 0 0 0 ENST00000344138.8_1_22:40297169-40297247:+|nuORF ENST00000344138.8_1_22:40297169-40297247:+|nuORF ENST00000344138.8_1_22:40297169-40297247:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.8107299804688 2 513.808377 1025.6022 3.617 0.0018584 0.74012 0.00038028 4.3571 0.0022387 513.8086311769249 46.955 0.33242 47.219 47.009 47.342 0.26363 29 10 4 0 0 0 0.71911 1 21485 21485 4.3292 1.7518 1 2060300 32434 7098 20626 20694 36532 36532 0.0904234343945518 TKWLAKHVE 9 Unmodified _TKWLAKHVE_ 0 0 0 REV__ENSG00000065328|ENST00000378714|MCM10 REV__ENSG00000065328|ENST00000378714|MCM10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 371.2159729003906 3 371.213469 1110.61858 NaN NaN NaN NaN NaN NaN NaN 77.15 1 77.15 76.65 77.65 0 0 0 0 0.90228 1 37824 37824 1.7423 0.54893 1 + 32435 10429 20627 20695 36533 36533 0.0676942460556802 TKWLVETQVKA 11 Unmodified _TKWLVETQVKA_ 0 0 0 ENST00000511723.2_1_4:26875429-26875720:-|nuORF;ENST00000573385.1_1_17:6350773-6352728:+|nuORF;ENSG00000129195|ENST00000572447|PIMREG;nc|ENSG00000129195|Q9BSJ6|PIMREG ENST00000511723.2_1_4:26875429-26875720:-|nuORF ENST00000511723.2_1_4:26875429-26875720:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 651.938232421875 2 651.874445 1301.73434 NaN NaN NaN NaN NaN NaN NaN 27.483 1 27.483 26.983 27.983 0 0 0 0 1.0044 1 12376 12376 4.897 0 1 32436 2542 20628 20696 36534 36534 0.09553903665732832 TKWPPVAR 8 Unmodified _TKWPPVAR_ 0 0 0 REV__ENST00000497691.5_1_6:3273291-3410459:-|nuORF REV__ENST00000497691.5_1_6:3273291-3410459:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 318.85675048828125 3 318.855505 953.544686 2.5727 0.00082032 1.0533 0.00033585 3.626 0.0011562 318.85591666871113 41.606 0.31777 41.876 41.726 42.044 0.27021 26 14 2 0 0 0 0.71384 1 18962 18962 3.2813 1.6287 1 1297200 + 32437 16861 20629 20697 36535 36535 0.066055012338893 TKWPPVAR 8 Unmodified _TKWPPVAR_ 0 0 0 REV__ENST00000497691.5_1_6:3273291-3410459:-|nuORF REV__ENST00000497691.5_1_6:3273291-3410459:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 318.855505 953.544686 2.0413 0.00065088 0.93349 0.00029765 2.9748 0.00094853 318.85589656512155 41.809 0.21339 41.809 41.703 41.917 0 -0.033565 -5.7613E-05 NaN 3.2813 30 22 2 NaN NaN NaN NaN 0 NaN NaN 0 1638500 + 32438 16861 20629 20697 0.066055012338893 TKWPPVAR 8 Unmodified _TKWPPVAR_ 0 0 0 REV__ENST00000497691.5_1_6:3273291-3410459:-|nuORF REV__ENST00000497691.5_1_6:3273291-3410459:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 318.855505 953.544686 2.5727 0.00082032 1.0533 0.00033585 3.626 0.0011562 318.85591666871113 41.606 0.31777 41.876 41.726 42.044 0.27021 0.033565 5.7004E-05 NaN 3.2813 26 14 2 NaN NaN NaN NaN 0 NaN NaN 0 1297200 + 32439 16861 20629 20697 0.066055012338893 TKWWKSEPPYQ 11 Unmodified _TKWWKSEPPYQ_ 0 0 0 REV__nc|ENSG00000131373|Q9UJ83-3|HACL1 REV__nc|ENSG00000131373|Q9UJ83-3|HACL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.91192626953125 3 483.910227 1448.70885 NaN NaN NaN NaN NaN NaN NaN 65.804 1 66.512 66.012 67.012 0.70891 0 0 0 1.0073 1 31148 31148 0.40827 0 1 + 32440 11854 20630 20698 36536 36536 0.002444291433221224 TLAETMSYTST 11 Unmodified _TLAETMSYTST_ 0 0 0 ENST00000475187.5_1_22:29940492-29945087:-|nuORF ENST00000475187.5_1_22:29940492-29945087:-|nuORF ENST00000475187.5_1_22:29940492-29945087:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 602.96044921875 2 602.773736 1203.53292 NaN NaN NaN NaN NaN NaN NaN 96.413 1 96.413 95.913 96.913 0 0 0 0 0.97175 1 52170 52170 9.3831 0 1 32441 8219 20631 20699 36537 36537 -0.06070573152919678 TLAHYKIPEG 10 Unmodified _TLAHYKIPEG_ 0 0 0 nc|ENSG00000004399|Q9Y4D7-2|PLXND1;ENSG00000004399|ENST00000324093|PLXND1 nc|ENSG00000004399|Q9Y4D7-2|PLXND1 nc|ENSG00000004399|Q9Y4D7-2|PLXND1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.8068237304688 2 564.806031 1127.59751 NaN NaN NaN NaN NaN NaN NaN 94.53 1 94.616 94.116 95.116 0.086212 0 0 0 0.9754 1 49756 49756 9.3831 2.0939 1 32442 312 20632 20700 36538 36538 0.03881414506031433 TLAKLAPA 8 Unmodified _TLAKLAPA_ 0 0 0 REV__ENST00000297350.8_1_8:119964236-119964404:-|nuORF REV__ENST00000297350.8_1_8:119964236-119964404:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 392.7500305175781 2 392.749996 783.485439 NaN NaN NaN NaN NaN NaN NaN 91.467 1 92.129 91.629 92.629 0.66198 0 0 0 0.99035 1 42093 42093 0.79363 0 1 + 32443 15166 20633 20701 36539 36539 0.0850360521968696 TLALIKPDAI 10 Unmodified _TLALIKPDAI_ 0 0 0 ENST00000469474.5_1_1:169271551-169293633:-|nuORF;ENST00000527460.1_1_1:169272381-169336948:-|nuORF;ENST00000524967.5_1_1:169256457-169336948:-|nuORF;nc|ENSG00000143156|Q9Y5B8-2|NME7;ENSG00000143156|ENST00000367811|NME7 ENST00000469474.5_1_1:169271551-169293633:-|nuORF ENST00000469474.5_1_1:169271551-169293633:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.9577026367188 2 527.828975 1053.6434 NaN NaN NaN NaN NaN NaN NaN 97.135 1 97.135 96.635 97.635 0 0 0 0 0.97797 1 52782 52782 14.838 1.7958 1 32444 3347 20634 20702 36540 36540 0.11872059688289482 TLAQRVKEV 9 Unmodified _TLAQRVKEV_ 0 0 0 ENST00000462297.1_1_2:74754523-74754670:-|nuORF;ENST00000486234.1_1_2:74754275-74754965:-|nuORF;ENST00000466894.5_1_2:74754206-74756164:-|nuORF;ENST00000463900.5_1_2:74753929-74756164:-|nuORF;nc|ENSG00000115307|Q9Y679-3|AUP1;ENSG00000115307|ENST00000377526|AUP1 ENST00000462297.1_1_2:74754523-74754670:-|nuORF ENST00000462297.1_1_2:74754523-74754670:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.31640625 2 522.314023 1042.61349 3.5029 0.0018296 -0.013072 -6.8276E-06 3.4899 0.0018228 522.314043257851 19.474 0.15552 20.132 20.055 20.211 0.6583 16 9 2 0 0 0 0.11316 2 8827 8827;8847 29.437 11.064 1 303230 32445 1961 20635 20703 36541;36542 36541 0.0938912074293512 TLAYFIFYHIH 11 Unmodified _TLAYFIFYHIH_ 0 0 0 ENSG00000188050|ENST00000340112|RNF133 ENSG00000188050|ENST00000340112|RNF133 ENSG00000188050|ENST00000340112|RNF133 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 712.8771362304688 2 712.871705 1423.72886 NaN NaN NaN NaN NaN NaN NaN 99.402 1 100 99.5 100.5 0.59748 0 0 0 1.0038 1 45964 45964 5.7319 0.43497 1 32446 5651 20636 20704 36543 36543 0.03394224873932217 TLDPVEKAL 9 Unmodified _TLDPVEKAL_ 0 0 0 ENST00000527983.5_1_11:122930124-122932032:-|nuORF;nc|ENSG00000109971|P11142-2|HSPA8;ENSG00000109971|ENST00000534624|HSPA8;ENST00000425843.1_1_X:120337800-120338163:-|nuORF;ENST00000532091.1_1_11:122929724-122930952:-|nuORF;ENST00000419827.2_1_7:10491071-10492091:+|nuORF ENST00000527983.5_1_11:122930124-122932032:-|nuORF ENST00000527983.5_1_11:122930124-122932032:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.2832946777344 2 493.281857 984.549162 3.2118 0.0015843 0.34758 0.00017145 3.5594 0.0017558 493.2818508618969 46.032 0.32538 46.298 46.123 46.449 0.26561 27 14 3 0 0 0 0.024388 1 21052 21052 62.573 10.304 1 969990 32447 1694 20637 20705 36544 36544 0.05626920866131968 TLDPVEKAL 9 Unmodified _TLDPVEKAL_ 0 0 0 ENST00000527983.5_1_11:122930124-122932032:-|nuORF;nc|ENSG00000109971|P11142-2|HSPA8;ENSG00000109971|ENST00000534624|HSPA8;ENST00000425843.1_1_X:120337800-120338163:-|nuORF;ENST00000532091.1_1_11:122929724-122930952:-|nuORF;ENST00000419827.2_1_7:10491071-10492091:+|nuORF ENST00000527983.5_1_11:122930124-122932032:-|nuORF ENST00000527983.5_1_11:122930124-122932032:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.283447265625 2 493.281857 984.549162 3.4508 0.0017022 0.33072 0.00016314 3.7815 0.0018653 493.2819338229861 45.428 0.33022 46.079 45.883 46.214 0.65104 40 15 3 0 0 0 0.024388 2 20833 20781;20833 62.573 16.552 1 658680 32448 1694 20637 20705 36545;36546 36546 0.05626920866131968 TLDPVEKAL 9 Unmodified _TLDPVEKAL_ 0 0 0 ENST00000527983.5_1_11:122930124-122932032:-|nuORF;nc|ENSG00000109971|P11142-2|HSPA8;ENSG00000109971|ENST00000534624|HSPA8;ENST00000425843.1_1_X:120337800-120338163:-|nuORF;ENST00000532091.1_1_11:122929724-122930952:-|nuORF;ENST00000419827.2_1_7:10491071-10492091:+|nuORF ENST00000527983.5_1_11:122930124-122932032:-|nuORF ENST00000527983.5_1_11:122930124-122932032:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 493.281857 984.549162 2.9273 0.001444 -0.11302 -5.5749E-05 2.8143 0.0013882 493.2819477397352 46.343 0.23795 46.343 46.169 46.407 0 0.10883 -0.00062668 NaN 62.573 18 12 2 NaN NaN NaN NaN 0 NaN NaN 0 983930 32449 1694 20637 20705 0.05626920866131968 TLDPVEKAL 9 Unmodified _TLDPVEKAL_ 0 0 0 ENST00000527983.5_1_11:122930124-122932032:-|nuORF;nc|ENSG00000109971|P11142-2|HSPA8;ENSG00000109971|ENST00000534624|HSPA8;ENST00000425843.1_1_X:120337800-120338163:-|nuORF;ENST00000532091.1_1_11:122929724-122930952:-|nuORF;ENST00000419827.2_1_7:10491071-10492091:+|nuORF ENST00000527983.5_1_11:122930124-122932032:-|nuORF ENST00000527983.5_1_11:122930124-122932032:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 493.281857 984.549162 3.1037 0.001531 1.1453 0.00056494 4.249 0.0020959 493.28224963125086 45.391 0.25562 46.218 46.057 46.313 0.82621 -0.01683 0.00061469 NaN 62.573 21 14 2 NaN NaN NaN NaN 0 NaN NaN 0 576190 32450 1694 20637 20705 0.05626920866131968 TLEGWFLAL 9 Unmodified _TLEGWFLAL_ 0 0 0 ENSG00000142207|ENST00000382751|URB1 ENSG00000142207|ENST00000382751|URB1 ENSG00000142207|ENST00000382751|URB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.2866821289062 2 525.286943 1048.55933 3.4925 0.0018345 -1.2915 -0.0006784 2.201 0.0011561 525.2863760091577 48.507 0.36018 48.77 48.639 48.999 0.2621 48 18 4 0 0 0 0.086747 1 22261 22261 36.044 7.5574 1 3025700 32451 3302 20638 20706 36547 36547 0.036995285913462794 TLEGWFLAL 9 Unmodified _TLEGWFLAL_ 0 0 0 ENSG00000142207|ENST00000382751|URB1 ENSG00000142207|ENST00000382751|URB1 ENSG00000142207|ENST00000382751|URB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.2884521484375 2 525.286943 1048.55933 3.3732 0.0017719 -1.1627 -0.00061076 2.2105 0.0011612 525.2865470319125 47.901 0.49929 48.554 48.398 48.897 0.65356 51 19 4 0 0 0 0.020718 2 21991 21991;22059 67.344 4.7712 1 2613100 32452 3302 20638 20706 36548;36549 36548 0.036995285913462794 TLEKVKKRKKL 11 Unmodified _TLEKVKKRKKL_ 0 0 0 ENST00000438248.1_1_10:89603626-89603959:+|nuORF ENST00000438248.1_1_10:89603626-89603959:+|nuORF ENST00000438248.1_1_10:89603626-89603959:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 686.2423095703125 2 685.963929 1369.9133 NaN NaN NaN NaN NaN NaN NaN 107.7 1 107.7 107.2 108.2 0 0 0 0 1.0057 1 59051 59051 3.2813 1.9518 1 32453 7916 20639 20707 36550 36550 0.2431441302451276 TLEPLLIK 8 Unmodified _TLEPLLIK_ 0 0 0 REV__ENST00000491554.6_1_15:40716399-40727929:+|nuORF REV__ENST00000491554.6_1_15:40716399-40727929:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 309.5370178222656 3 309.535549 925.584819 NaN NaN NaN NaN NaN NaN NaN 40.974 1 40.974 40.474 41.474 0 0 0 0 0.99035 1 18608 18608 0.40072 0 1 + 32454 16700 20640 20708 36551 36551 0.11905003113815837 TLESEAWGSSR 11 Unmodified _TLESEAWGSSR_ 0 0 0 ENSG00000167608|ENST00000619895|TMC4;nc|ENSG00000167608|Q7Z404-1|TMC4;nc|ENSG00000167608|Q7Z404|TMC4 ENSG00000167608|ENST00000619895|TMC4 ENSG00000167608|ENST00000619895|TMC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.746826171875 2 611.788566 1221.56258 NaN NaN NaN NaN NaN NaN NaN 95.404 1 95.404 94.904 95.904 0 0 0 0 1.0041 1 51361 51361 5.2969 0 1 32455 4563 20641 20709 36552 36552 -0.03933873092591966 TLFRQKEMNW 10 Unmodified _TLFRQKEMNW_ 0 0 0 REV__TRHDE|p.F993Sfs*26|1|0.04|ENSG00000072657|chr12:72663096-72663096|T/-|frameshift_variant REV__TRHDE|p.F993Sfs*26|1|0.04|ENSG00000072657|chr12:72663096-72663096|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 676.8505859375 2 676.842622 1351.67069 NaN NaN NaN NaN NaN NaN NaN 54.845 1 54.845 54.345 55.345 0 0 0 0 0.99812 1 25178 25178 3.2813 0.28607 1 + 32456 10494 20642 20710 36553 36553 0.008922199570179146 TLFYSCFYHY 10 Unmodified _TLFYSCFYHY_ 0 0 0 ENSG00000151445|ENST00000557658|VIPAS39;nc|ENSG00000151445|Q9H9C1-2|VIPAS39;ENST00000553576.5_1_14:77901517-77909492:-|nuORF ENSG00000151445|ENST00000557658|VIPAS39 ENSG00000151445|ENST00000557658|VIPAS39 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 671.8402709960938 2 672.291899 1342.56925 NaN NaN NaN NaN NaN NaN NaN 59.944 1 59.944 59.444 60.444 0 0 0 0 1.0001 1 27748 27748 1.6526 0 1 32457 3707 20643 20711 36554 36554 -0.08833651465556613 TLGRLKIIL 9 Unmodified _TLGRLKIIL_ 0 0 0 ENST00000586362.1_1_17:43714735-43723402:+|nuORF ENST00000586362.1_1_17:43714735-43723402:+|nuORF ENST00000586362.1_1_17:43714735-43723402:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.8540649414062 2 513.855327 1025.6961 NaN NaN NaN NaN NaN NaN NaN 97.225 1 97.295 96.795 97.795 0.070648 0 0 0 0.8984 1 51913 51913 3.9444 0 1 32458 9183 20644 20712 36555 36555 0.18428062541738655 TLIDLPTRQRP 11 Unmodified _TLIDLPTRQRP_ 0 0 0 REV__ENSG00000142700|ENST00000404795|DMRTA2 REV__ENSG00000142700|ENST00000404795|DMRTA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.3854370117188 2 655.382968 1308.75138 4.2599 0.0027919 -0.78569 -0.00051493 3.4743 0.002277 655.3822629521279 91.668 1.0125 91.92 91.423 92.436 0.25164 115 47 3 0 0 0 0.91328 1 42148 42148 0 0 1 1574000 + 32459 12344 20645 20713 36556 36556 0.10935824271518868 TLIELRIEM 9 Unmodified _TLIELRIEM_ 0 0 0 REV__nc|ENSG00000197603|Q9H799-5|CPLANE1 REV__nc|ENSG00000197603|Q9H799-5|CPLANE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.3203125 2 559.317917 1116.62128 3.3374 0.0018667 -0.41747 -0.0002335 2.9199 0.0016332 559.3178921677406 38.73 0.3203 39.527 39.379 39.699 0.79762 32 14 3 0 0 0 0.10169 1 17537 17537 32.305 1.0371 1 534050 + 32460 14290 20646 20714 36557 36557 0.06763511948201995 TLIELRIEM 9 Unmodified _TLIELRIEM_ 0 0 0 REV__nc|ENSG00000197603|Q9H799-5|CPLANE1 REV__nc|ENSG00000197603|Q9H799-5|CPLANE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.2152099609375 3 373.21437 1116.62128 2.7324 0.0010198 -0.36813 -0.00013739 2.3643 0.00088237 373.2143002932422 39.61 0.37092 39.877 39.666 40.037 0.26696 35 14 3 0 0 0 0.10837 1 18009 18009 22.658 1.0679 1 2788800 + 32461 14290 20646 20714 36558 36558 0.06763511948201995 TLIELRIEM 9 Unmodified _TLIELRIEM_ 0 0 0 REV__nc|ENSG00000197603|Q9H799-5|CPLANE1 REV__nc|ENSG00000197603|Q9H799-5|CPLANE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 373.2154235839844 3 373.21437 1116.62128 2.7327 0.0010199 0.0035152 1.3119E-06 2.7362 0.0010212 373.21442014208964 39.222 0.48777 39.86 39.649 40.137 0.63778 43 17 4 0 0 0 0.29781 1 17909 17909 11.495 0.6952 1 2956600 + 32462 14290 20646 20714 36559 36559 0.06763511948201995 TLIELRIEM 9 Unmodified _TLIELRIEM_ 0 0 0 REV__nc|ENSG00000197603|Q9H799-5|CPLANE1 REV__nc|ENSG00000197603|Q9H799-5|CPLANE1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 373.21437 1116.62128 2.8444 0.0010616 0.098202 3.6651E-05 2.9426 0.0010982 373.21466152349444 39.861 0.24807 39.861 39.709 39.957 0 0.079287 0.00037556 NaN 22.658 22 11 3 NaN NaN NaN NaN 0 NaN NaN 0 922720 + 32463 14290 20646 20714 0.06763511948201995 TLIELRIEM 9 Unmodified _TLIELRIEM_ 0 0 0 REV__nc|ENSG00000197603|Q9H799-5|CPLANE1 REV__nc|ENSG00000197603|Q9H799-5|CPLANE1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 373.21437 1116.62128 2.4284 0.0009063 -1.5525 -0.00057942 0.87584 0.00032688 373.2133757488544 38.73 0.5835 39.527 39.398 39.981 0.79762 -0.25381 -0.0014726 NaN 22.658 47 27 4 NaN NaN NaN NaN 0 NaN NaN 0 782630 + 32464 14290 20646 20714 0.06763511948201995 TLIENVLIWS 10 Unmodified _TLIENVLIWS_ 0 0 0 REV__ENST00000585223.1_1_17:62500698-62502378:-|nuORF REV__ENST00000585223.1_1_17:62500698-62502378:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 594.337890625 2 594.337164 1186.65977 NaN NaN NaN NaN NaN NaN NaN 96.98 1 97.05 96.55 97.55 0.070648 0 0 0 0.99225 1 51704 51704 6.7232 0 1 + 32465 17533 20647 20715 36560 36560 0.07391140854383593 TLIGAKWGL 9 Unmodified _TLIGAKWGL_ 0 0 0 REV__nc|ENSG00000115705|P07202-7|TPO REV__nc|ENSG00000115705|P07202-7|TPO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 320.1965026855469 3 320.195527 957.564752 2.3207 0.00074307 0.52195 0.00016713 2.8426 0.0009102 320.1956529968748 19.99 0.48237 20.648 20.399 20.882 0.6583 106 41 3 0 0 0 0.33646 1 9104 9104 15.248 1.3424 1 903700 + 32466 17903 20648 20716 36561 36561 0.0842725217385123 TLIHKPVSL 9 Unmodified _TLIHKPVSL_ 0 0 0 ENSG00000103194|ENST00000219473|USP10;nc|ENSG00000103194|Q14694-3|USP10;nc|ENSG00000103194|Q14694-2|USP10 ENSG00000103194|ENST00000219473|USP10 ENSG00000103194|ENST00000219473|USP10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.3180847167969 2 504.316035 1006.61752 NaN NaN NaN NaN NaN NaN NaN 34.671 1 34.925 34.425 35.425 0.25389 0 0 0 0.043516 1 15792 15792 55.503 9.8031 1 32467 1381 20649 20717 36562 36562 0.11447210236656247 TLIHKPVSL 9 Unmodified _TLIHKPVSL_ 0 0 0 ENSG00000103194|ENST00000219473|USP10;nc|ENSG00000103194|Q14694-3|USP10;nc|ENSG00000103194|Q14694-2|USP10 ENSG00000103194|ENST00000219473|USP10 ENSG00000103194|ENST00000219473|USP10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.3179626464844 2 504.316035 1006.61752 3.1859 0.0016067 0.31564 0.00015918 3.5015 0.0017659 504.316110192077 34.267 0.3599 34.89 34.755 35.115 0.62294 21 13 3 0 0 0 0.069974 1 15701 15701 40.239 8.9709 1 468540 32468 1381 20649 20717 36563 36563 0.11447210236656247 TLIICLLIIRL 11 Unmodified _TLIICLLIIRL_ 0 0 0 REV__ENSG00000127362|ENST00000247879|TAS2R3 REV__ENSG00000127362|ENST00000247879|TAS2R3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 642.1055908203125 2 642.427802 1282.84105 NaN NaN NaN NaN NaN NaN NaN 98.902 1 99.5 99 100 0.59748 0 0 0 1.0059 1 45666 45666 2.9952 1.3426 1 + 32469 11737 20650 20718 36564 36564 0.2109436262660438 TLIKIIDP 8 Unmodified _TLIKIIDP_ 0 0 0 nc|ENSG00000173681|A2AJT9-3|BCLAF3;nc|ENSG00000173681|A2AJT9-2|BCLAF3;ENSG00000173681|ENST00000379682|BCLAF3 nc|ENSG00000173681|A2AJT9-3|BCLAF3 nc|ENSG00000173681|A2AJT9-3|BCLAF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.794189453125 2 456.791861 911.569169 NaN NaN NaN NaN NaN NaN NaN 31.274 1 31.892 31.392 32.392 0.61737 0 0 0 0.99035 1 14342 14342 5.2307 0 1 32470 4946 20651 20719 36565 36565 0.10984716596760791 TLIKLWRRKVI 11 Unmodified _TLIKLWRRKVI_ 0 0 0 ENSG00000170683|ENST00000642047|OR10A3 ENSG00000170683|ENST00000642047|OR10A3 ENSG00000170683|ENST00000642047|OR10A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 712.9896850585938 2 713.474463 1424.93437 NaN NaN NaN NaN NaN NaN NaN 93.521 1 93.607 93.107 94.107 0.086212 0 0 0 1.0072 1 49012 49012 1.3295 1.0225 1 32471 4764 20652 20720 36566 36566 0.23890423124021254 TLIRFLPRPI 10 Unmodified _TLIRFLPRPI_ 0 0 0 nc|ENSG00000077235|Q12789-3|GTF3C1;ENSG00000077235|ENST00000356183|GTF3C1;GTF3C1|p.Q1078Afs*25|1|0.3|ENSG00000077235|chr16:27489664-27489665|-/T|frameshift_variant nc|ENSG00000077235|Q12789-3|GTF3C1 nc|ENSG00000077235|Q12789-3|GTF3C1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.3936767578125 2 613.392608 1224.77066 NaN NaN NaN NaN NaN NaN NaN 55.054 1 55.054 54.554 55.554 0 0 0 0 1.0003 1 25280 25280 1.4819 0.95714 1 32472 858 20653 20721 36567 36567 0.167268253531347 TLIVMRHI 8 Unmodified _TLIVMRHI_ 0 0 0 REV__ENSG00000120440|ENST00000239587|TTLL2 REV__ENSG00000120440|ENST00000239587|TTLL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.79742431640625 2 491.796955 981.579357 3.076 0.0015128 0.28525 0.00014029 3.3613 0.0016531 491.7960465584074 50.663 0.37469 50.924 50.745 51.119 0.26146 27 17 2 0 0 0 0.74071 1 23200 23200 2.5775 0 1 428990 + 32473 11537 20654 20722 36568 36568 0.08783001050358052 TLIVMRHI 8 Unmodified _TLIVMRHI_ 0 0 0 REV__ENSG00000120440|ENST00000239587|TTLL2 REV__ENSG00000120440|ENST00000239587|TTLL2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 491.796955 981.579357 3.3201 0.0016328 0.6178 0.00030383 3.9379 0.0019366 491.7961102448078 50.821 0.57589 50.821 50.691 51.266 0 -0.14358 0.00025752 NaN 2.5775 37 29 2 NaN NaN NaN NaN 0 NaN NaN 0 538770 + 32474 11537 20654 20722 0.08783001050358052 TLIVMRHI 8 Unmodified _TLIVMRHI_ 0 0 0 REV__ENSG00000120440|ENST00000239587|TTLL2 REV__ENSG00000120440|ENST00000239587|TTLL2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 491.796955 981.579357 3.1144 0.0015316 0.16211 7.9725E-05 3.2765 0.0016114 491.79608738696464 50.491 0.7905 51.148 50.461 51.251 0.65735 0.18395 -0.0001907 NaN 2.5775 48 34 2 NaN NaN NaN NaN 0 NaN NaN 0 473590 + 32475 11537 20654 20722 0.08783001050358052 TLKAKVGQL 9 Unmodified _TLKAKVGQL_ 0 0 0 nc|ENSG00000149131|P05155-2|SERPING1;ENSG00000149131|ENST00000278407|SERPING1;nc|ENSG00000149131|P05155-3|SERPING1 nc|ENSG00000149131|P05155-2|SERPING1 nc|ENSG00000149131|P05155-2|SERPING1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.3091125488281 2 479.30821 956.601866 NaN NaN NaN NaN NaN NaN NaN 22.513 1 23.154 22.654 23.654 0.64051 0 0 0 0.0049413 1 10251 10251 100.09 45.317 1 32476 3628 20655 20723 36569 36569 0.12182923719615246 TLKALWII 8 Unmodified _TLKALWII_ 0 0 0 ENST00000244043.4_1_20:48124084-48124444:-|nuORF ENST00000244043.4_1_20:48124084-48124444:-|nuORF ENST00000244043.4_1_20:48124084-48124444:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 319.8760070800781 3 319.875906 956.605889 NaN NaN NaN NaN NaN NaN NaN 22.554 1 23.194 22.694 23.694 0.64051 0 0 0 0.86133 1 10269 10269 14.838 8.6325 1 32477 6478 20656 20724 36570 36570 0.12585013213322327 TLKDRNFQI 9 Unmodified _TLKDRNFQI_ 0 0 0 ENST00000532463.5_1_11:57529529-57561533:+|nuORF;ENST00000529986.5_1_11:57529333-57561533:+|nuORF ENST00000532463.5_1_11:57529529-57561533:+|nuORF ENST00000532463.5_1_11:57529529-57561533:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 378.8815612792969 3 378.880379 1133.61931 2.1604 0.00081854 0.67657 0.00025634 2.837 0.0010749 378.8804770608078 33.825 0.14656 34.612 34.582 34.729 0.78795 13 10 2 0 0 0 0.33646 1 15328 15328 15.248 5.7045 1 535350 32478 8706 20657 20725 36571 36571 0.05784219254610434 TLKEIPQKTK 10 Unmodified _TLKEIPQKTK_ 0 0 0 ENSG00000255393|ENST00000642343|OOSP4B ENSG00000255393|ENST00000642343|OOSP4B ENSG00000255393|ENST00000642343|OOSP4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.9322509765625 2 593.363713 1184.71287 NaN NaN NaN NaN NaN NaN NaN 93.551 1 93.638 93.138 94.138 0.086212 0 0 0 0.99812 1 49037 49037 3.2813 0.28607 1 32479 6284 20658 20726 36572 36572 0.1279051863702989 TLKEVSSSEGI 11 Unmodified _TLKEVSSSEGI_ 0 0 0 ENSG00000134317|ENST00000324907|GRHL1;nc|ENSG00000134317|Q9NZI5-2|GRHL1;nc|ENSG00000134317|Q9NZI5-3|GRHL1;ENST00000497403.5_1_2:10101229-10104576:+|nuORF ENSG00000134317|ENST00000324907|GRHL1 ENSG00000134317|ENST00000324907|GRHL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.3055419921875 2 575.303518 1148.59248 3.8609 0.0022212 0.5416 0.00031158 4.4025 0.0025328 575.3037084726375 19.858 0.23087 20.516 20.435 20.666 0.6583 34 20 2 0 0 0 0.69508 1 9021 9021 11.495 2.1116 1 166460 32480 2800 20659 20727 36573 36573 0.024130658527838023 TLKGVITS 8 Unmodified _TLKGVITS_ 0 0 0 ENST00000555638.5_1_14:67940311-67953837:-|nuORF ENST00000555638.5_1_14:67940311-67953837:-|nuORF ENST00000555638.5_1_14:67940311-67953837:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 409.7509460449219 2 409.752736 817.490919 NaN NaN NaN NaN NaN NaN NaN 103.25 1 103.3 102.8 103.8 0.055092 0 0 0 0.99035 1 55993 55993 0.69038 0 1 32481 8918 20660 20728 36574 36574 0.0748728401150629 TLKIKALKN 9 Unmodified _TLKIKALKN_ 0 0 0 ENST00000544029.1_1_12:4655560-4657287:+|nuORF ENST00000544029.1_1_12:4655560-4657287:+|nuORF ENST00000544029.1_1_12:4655560-4657287:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.9356689453125 2 514.844959 1027.67537 NaN NaN NaN NaN NaN NaN NaN 89.594 1 89.659 89.159 90.159 0.064346 0 0 0 0.90699 1 45952 45952 1.8442 0 1 32482 8829 20661 20729 36575 36575 0.16263472162063408 TLKIPPVT 8 Unmodified _TLKIPPVT_ 0 0 0 ENSG00000140450|ENST00000268042|ARRDC4 ENSG00000140450|ENST00000268042|ARRDC4 ENSG00000140450|ENST00000268042|ARRDC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.7821044921875 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 55.378 1 55.643 55.143 56.143 0.26543 0 0 0 0.99035 1 25324 25324 2.3027 0 1 32483 3199 20662 20730 36576 36576 0.10388447425293634 TLKKILALAK 10 Unmodified _TLKKILALAK_ 0 0 0 nc|ENSG00000054654|Q8WXH0|SYNE2;ENSG00000054654|ENST00000555002|SYNE2;ENST00000557005.1_1_14:64490935-64514966:+|nuORF nc|ENSG00000054654|Q8WXH0|SYNE2 nc|ENSG00000054654|Q8WXH0|SYNE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.8863525390625 2 549.884084 1097.75362 NaN NaN NaN NaN NaN NaN NaN 95.628 1 95.71 95.21 96.21 0.082001 0 0 0 1.0001 1 50592 50592 1.6526 1.0511 1 32484 610 20663 20731 36577 36577 0.20864904747304536 TLKKKKKEKR 10 Unmodified _TLKKKKKEKR_ 0 0 0 ENST00000446401.1_1_2:114589148-114600928:-|nuORF ENST00000446401.1_1_2:114589148-114600928:-|nuORF ENST00000446401.1_1_2:114589148-114600928:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 643.9378662109375 2 643.935171 1285.85579 NaN NaN NaN NaN NaN NaN NaN 96.12 1 96.197 95.697 96.697 0.076538 0 0 0 1.0001 1 50988 50988 1.6526 0.32309 1 32485 7974 20664 20732 36578 36578 0.22429570818917455 TLKLKKVVKIS 11 Unmodified _TLKLKKVVKIS_ 0 0 0 REV__ENST00000443754.1_1_9:67328347-67334199:-|nuORF REV__ENST00000443754.1_1_9:67328347-67334199:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 628.9369506835938 2 628.936848 1255.85914 NaN NaN NaN NaN NaN NaN NaN 45.133 1 45.133 44.633 45.633 0 0 0 0 1.0082 1 20640 20640 0 0 1 + 32486 16364 20665 20733 36579 36579 0.24144820872948003 TLKLWIIQL 9 Unmodified _TLKLWIIQL_ 0 0 0 REV__UTRN|p.K1847Ffs*66|1|0.06|ENSG00000152818|chr6:144516945-144516946|-/TTTAA|frameshift_variant REV__UTRN|p.K1847Ffs*66|1|0.06|ENSG00000152818|chr6:144516945-144516946|-/TTTAA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.363525390625 2 564.362985 1126.71142 NaN NaN NaN NaN NaN NaN NaN 90.578 1 90.578 90.078 91.078 0 0 0 0 0.90611 1 47644 47644 2.0598 0 1 + 32487 18246 20666 20734 36580 36580 0.15312929338961112 TLKNKFVEF 9 Unmodified _TLKNKFVEF_ 0 0 0 nc|ENSG00000169756|P48059-5|LIMS1;ENST00000469300.6_1_2:128396858-128397856:-|nuORF;nc|ENSG00000072163|Q7Z4I7-4|LIMS2;ENST00000484252.5_1_2:128396858-128398238:-|nuORF;nc|ENSG00000169756|P48059|LIMS1;nc|ENSG00000169756|P48059-4|LIMS1;nc|ENSG00000072163|Q7Z4I7-3|LIMS2;ENSG00000169756|ENST00000544547|LIMS1;ENSG00000072163|ENST00000355119|LIMS2;nc|ENSG00000072163|Q7Z4I7-5|LIMS2;nc|ENSG00000072163|Q7Z4I7-2|LIMS2;nc|ENSG00000169756|P48059-3|LIMS1 nc|ENSG00000169756|P48059-5|LIMS1 nc|ENSG00000169756|P48059-5|LIMS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.3203125 2 563.318774 1124.623 NaN NaN NaN NaN NaN NaN NaN 43.691 1 43.961 43.461 44.461 0.2694 0 0 0 0.40345 1 19955 19955 22.736 3.4793 1 32488 9749 20667 20735 36581 36581 0.06566889028476908 TLKNQLREM 9 Unmodified _TLKNQLREM_ 0 0 0 ENSG00000011454|ENST00000373647|RABGAP1 ENSG00000011454|ENST00000373647|RABGAP1 ENSG00000011454|ENST00000373647|RABGAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.7633056640625 2 566.81079 1131.60703 NaN NaN NaN NaN NaN NaN NaN 50.852 1 50.852 50.352 51.352 0 0 0 0 0.84134 1 23284 23284 7.9102 1.7044 1 32489 417 20668 20736 36582 36582 0.046488595198979965 TLKNREASL 9 Unmodified _TLKNREASL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.2975463867188 2 516.29583 1030.57711 2.9071 0.0015009 0.13802 7.126E-05 3.0452 0.0015722 516.2958842883493 13.19 0.22128 13.497 13.372 13.594 0.30727 31 14 3 0 0 0 0.049036 1 5940 5940 47.594 11.467 1 587380 32490 1960 20669 20737 36583 36583 0.06304243846238933 TLKNREASL 9 Unmodified _TLKNREASL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.2977294921875 2 516.29583 1030.57711 3.6435 0.0018811 -0.24881 -0.00012846 3.3947 0.0017527 516.2956405689143 12.9 0.33929 13.542 13.413 13.752 0.64272 24 11 3 0 0 0 0.023885 1 5802 5802 63.227 11.598 1 1170700 32491 1960 20669 20737 36584 36584 0.06304243846238933 TLKQKLVNM 9 Unmodified _TLKQKLVNM_ 0 0 0 ENSG00000172716|ENST00000685675|SLFN11;nc|ENSG00000154760|Q68D06-2|SLFN13;ENSG00000154760|ENST00000285013|SLFN13 ENSG00000172716|ENST00000685675|SLFN11 ENSG00000172716|ENST00000685675|SLFN11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.8228149414062 2 537.820627 1073.6267 2.9363 0.0015792 0.56989 0.0003065 3.5062 0.0018857 537.8210003636655 28.292 0.31905 28.553 28.395 28.714 0.26029 37 23 2 0 0 0 0.021401 2 12838 12838;12905 66.457 39.573 1 593650 32492 4885 20670 20738 36585;36586 36585 0.09283235530665479 TLKQKLVNM 9 Unmodified _TLKQKLVNM_ 0 0 0 ENSG00000172716|ENST00000685675|SLFN11;nc|ENSG00000154760|Q68D06-2|SLFN13;ENSG00000154760|ENST00000285013|SLFN13 ENSG00000172716|ENST00000685675|SLFN11 ENSG00000172716|ENST00000685675|SLFN11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.8229370117188 2 537.820627 1073.6267 3.2056 0.001724 -0.091428 -4.9172E-05 3.1141 0.0016749 537.8208877647224 27.822 0.27437 28.442 28.358 28.632 0.61947 46 19 3 0 0 0 0.0043297 2 12750 12750;12802 93.166 55.192 1 875930 32493 4885 20670 20738 36587;36588 36587 0.09283235530665479 TLKRKRKKK 9 Unmodified _TLKRKRKKK_ 0 0 0 REV__ENST00000437916.2_1_2:45148822-45149500:-|nuORF REV__ENST00000437916.2_1_2:45148822-45149500:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.4169311523438 2 593.416949 1184.81934 NaN NaN NaN NaN NaN NaN NaN 91.671 1 91.671 91.171 92.171 0 0 0 0 0.91452 1 48496 48496 0 0 1 + 32494 16319 20671 20739 36589 36589 0.23432738712858736 TLKRKRKKK 9 Unmodified _TLKRKRKKK_ 0 0 0 REV__ENST00000437916.2_1_2:45148822-45149500:-|nuORF REV__ENST00000437916.2_1_2:45148822-45149500:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 593.5259399414062 2 593.416949 1184.81934 NaN NaN NaN NaN NaN NaN NaN 94.103 1 94.189 93.689 94.689 0.086212 0 0 0 0.91238 1 49430 49430 0.52476 0 1 + 32495 16319 20671 20739 36590 36590 0.23432738712858736 TLKRKRKKKK 10 Unmodified _TLKRKRKKKK_ 0 0 0 REV__ENST00000437916.2_1_2:45148822-45149500:-|nuORF REV__ENST00000437916.2_1_2:45148822-45149500:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 657.4629516601562 2 657.46443 1312.91431 NaN NaN NaN NaN NaN NaN NaN 81.643 1 81.891 81.391 82.391 0.24803 0 0 0 1.002 1 37588 37588 0 0 1 + 32496 16319 20672 20740 36591 36591 0.2703667218404462 TLKRTIEAL 9 Unmodified _TLKRTIEAL_ 0 0 0 ENSG00000243927|ENST00000399312|MRPS6;MRPS6|p.Y69Mfs*18|1|0.27|ENSG00000243927|chr21:34142423-34142423|T/-|frameshift_variant;ENST00000362077.4_1_21:35445925-35635139:+|nuORF ENSG00000243927|ENST00000399312|MRPS6 ENSG00000243927|ENST00000399312|MRPS6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.826416015625 2 522.824224 1043.63389 3.7506 0.0019609 0.616 0.00032206 4.3666 0.002283 522.8244241018248 31.932 0.36545 32.186 32.014 32.379 0.25452 42 22 3 0 0 0 0.035698 2 14549 14549;14600 53.317 3.7895 1 703070 32497 6242 20673 20741 36592;36593 36592 0.11382291402765077 TLKRTIEAL 9 Unmodified _TLKRTIEAL_ 0 0 0 ENSG00000243927|ENST00000399312|MRPS6;MRPS6|p.Y69Mfs*18|1|0.27|ENSG00000243927|chr21:34142423-34142423|T/-|frameshift_variant;ENST00000362077.4_1_21:35445925-35635139:+|nuORF ENSG00000243927|ENST00000399312|MRPS6 ENSG00000243927|ENST00000399312|MRPS6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.8260498046875 2 522.824224 1043.63389 3.3337 0.0017429 0.69855 0.00036522 4.0323 0.0021082 522.8245294488196 31.374 0.32862 31.992 31.809 32.137 0.61737 31 20 2 0 0 0 0.0527 2 14413 14363;14413 46.022 7.4076 1 725290 32498 6242 20673 20741 36594;36595 36595 0.11382291402765077 TLKRTIEAL 9 Unmodified _TLKRTIEAL_ 0 0 0 ENSG00000243927|ENST00000399312|MRPS6;MRPS6|p.Y69Mfs*18|1|0.27|ENSG00000243927|chr21:34142423-34142423|T/-|frameshift_variant;ENST00000362077.4_1_21:35445925-35635139:+|nuORF ENSG00000243927|ENST00000399312|MRPS6 ENSG00000243927|ENST00000399312|MRPS6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 522.824224 1043.63389 3.3208 0.0017362 0.69015 0.00036083 4.011 0.002097 522.8247471566184 31.951 0.2015 31.951 31.864 32.065 0 -0.092014 3.0664E-05 NaN 53.317 28 19 2 NaN NaN NaN NaN 0 NaN NaN 0 292570 32499 6242 20673 20741 0.11382291402765077 TLKSLKKKIK 10 Unmodified _TLKSLKKKIK_ 0 0 0 ENST00000399586.2_1_X:74960734-74966719:-|nuORF ENST00000399586.2_1_X:74960734-74966719:-|nuORF ENST00000399586.2_1_X:74960734-74966719:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.9169921875 2 593.915916 1185.81728 NaN NaN NaN NaN NaN NaN NaN 92.304 1 92.304 91.804 92.804 0 0 0 0 1.0016 1 49014 49014 0.35063 0 1 32500 7600 20674 20742 36596 36596 0.23180265184396376 TLKVRRRH 8 Unmodified _TLKVRRRH_ 0 0 0 ENST00000592895.5_1_19:1987398-1987842:-|nuORF ENST00000592895.5_1_19:1987398-1987842:-|nuORF ENST00000592895.5_1_19:1987398-1987842:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.3423461914062 2 533.341241 1064.66793 2.6951 0.0014374 -0.89567 -0.0004777 1.7994 0.00095969 533.3407076402248 96.305 0.28632 96.305 96.172 96.459 0 46 34 2 0 0 0 0.7471 1 52036 52036 0.69038 0 1 13707000 32501 9250 20675 20743 36597 36597 0.1381817740502811 TLKVRRRH 8 Unmodified _TLKVRRRH_ 0 0 0 ENST00000592895.5_1_19:1987398-1987842:-|nuORF ENST00000592895.5_1_19:1987398-1987842:-|nuORF ENST00000592895.5_1_19:1987398-1987842:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 533.341241 1064.66793 2.6951 0.0014374 -0.89567 -0.0004777 1.7994 0.00095969 533.3407076402248 96.305 0.28632 96.305 96.172 96.459 0 0 0 NaN 0.69038 46 34 2 NaN NaN NaN NaN 0 NaN NaN 0 13707000 32502 9250 20675 20743 0.1381817740502811 TLKVVYIRSF 10 Unmodified _TLKVVYIRSF_ 0 0 0 REV__ENST00000368895.2_1_10:124648046-124657367:+|nuORF REV__ENST00000368895.2_1_10:124648046-124657367:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.2489318847656 3 409.248291 1224.72304 NaN NaN NaN NaN NaN NaN NaN 14.861 1 15.515 15.015 16.015 0.65356 0 0 0 0.99846 1 6691 6691 1.4551 0 1 + 32503 15696 20676 20744 36598 36598 0.11967126362242198 TLKWSLPVPR 10 Unmodified _TLKWSLPVPR_ 0 0 0 REV__ENST00000468303.5_1_1:24742482-24742845:-|nuORF REV__ENST00000468303.5_1_1:24742482-24742845:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.249267578125 3 399.576519 1195.70773 2.6126 0.001044 1.0102 0.00040364 3.6228 0.0014476 399.5768882721752 50.331 0.32528 51.154 51.021 51.346 0.82285 24 15 2 0 0 0 0.12676 1 22976 22976 6.2344 2.1177 1 511860 + 32504 16562 20677 20745 36599 36599 0.11770259565082597 TLKWSLPVPR 10 Unmodified _TLKWSLPVPR_ 0 0 0 REV__ENST00000468303.5_1_1:24742482-24742845:-|nuORF REV__ENST00000468303.5_1_1:24742482-24742845:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 399.576519 1195.70773 2.8869 0.0011535 1.2371 0.0004943 4.1239 0.0016478 399.5769925285921 51.044 0.3557 51.044 50.854 51.21 0 0.014922 0.00020175 NaN 6.2344 32 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1116700 + 32505 16562 20677 20745 0.11770259565082597 TLKWSLPVPR 10 Unmodified _TLKWSLPVPR_ 0 0 0 REV__ENST00000468303.5_1_1:24742482-24742845:-|nuORF REV__ENST00000468303.5_1_1:24742482-24742845:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 399.576519 1195.70773 2.9087 0.0011622 0.98512 0.00039363 3.8938 0.0015559 399.5769965849509 50.628 0.54887 50.889 50.587 51.136 0.26146 -0.13964 -0.00010024 NaN 6.2344 45 27 2 NaN NaN NaN NaN 0 NaN NaN 0 563430 + 32506 16562 20677 20745 0.11770259565082597 TLKWTRKMKRR 11 Unmodified _TLKWTRKMKRR_ 0 0 0 REV__ENST00000486943.1_3_X:49065690-49065852:-|nuORF REV__ENST00000486943.1_3_X:49065690-49065852:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 752.4545288085938 2 752.456279 1502.89801 NaN NaN NaN NaN NaN NaN NaN 100.62 1 101.22 100.72 101.72 0.59717 0 0 0 1.0072 1 46583 46583 1.3295 1.0225 1 + 32507 16759 20678 20746 36600 36600 0.1666722295560703 TLLCLEESM 9 Unmodified _TLLCLEESM_ 0 0 0 ENST00000586637.5_1_19:44989347-45004442:-|nuORF;ENST00000585514.5_1_19:44983681-45004353:-|nuORF;nc|ENSG00000167384|Q9UJW8-3|ZNF180;nc|ENSG00000167384|Q9UJW8-4|ZNF180;nc|ENSG00000167384|Q9UJW8|ZNF180 ENST00000586637.5_1_19:44989347-45004442:-|nuORF ENST00000586637.5_1_19:44989347-45004442:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.1914672851562 2 519.745936 1037.47732 NaN NaN NaN NaN NaN NaN NaN 94 1 94 93.5 94.5 0 0 0 0 0.86044 1 50299 50299 7.2892 2.5332 1 32508 9177 20679 20747 36601 36601 -0.03992077874249844 TLLCPDPEL 9 Carbamidomethyl (C) _TLLC(Carbamidomethyl (C))PDPEL_ TLLC(1)PDPEL TLLC(48)PDPEL 0 1 0 ENST00000220509.9_1_15:41192311-41192374:+|nuORF ENST00000220509.9_1_15:41192311-41192374:+|nuORF ENST00000220509.9_1_15:41192311-41192374:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.2666625976562 2 529.26535 1056.51615 3.0534 0.0016161 -0.15294 -8.0943E-05 2.9005 0.0015351 529.2650509946525 47.634 0.78929 48.463 48.179 48.968 0.82915 100 41 3 0 0 0 0.047285 1 21661 21661 48.346 13.944 1 1368200 32509 6416 20680 20748 36602 36602 103 -0.009850292482269651 TLLEPKVL 8 Unmodified _TLLEPKVL_ 0 0 0 nc|ENSG00000171502|Q17RW2-2|COL24A1;ENSG00000171502|ENST00000370571|COL24A1 nc|ENSG00000171502|Q17RW2-2|COL24A1 nc|ENSG00000171502|Q17RW2-2|COL24A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.7944641113281 2 456.791861 911.569169 NaN NaN NaN NaN NaN NaN NaN 31.159 1 31.159 30.659 31.659 0 0 0 0 0.99035 1 14092 14092 0.69038 0 1 32510 4808 20681 20749 36603 36603 0.10984716596760791 TLLFLLINWIK 11 Unmodified _TLLFLLINWIK_ 0 0 0 REV__ENSG00000170961|ENST00000303924|HAS2 REV__ENSG00000170961|ENST00000303924|HAS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 687.1029052734375 2 687.431399 1372.84824 NaN NaN NaN NaN NaN NaN NaN 104.71 1 105.31 104.81 105.81 0.59885 0 0 0 1.0082 1 48366 48366 0 0 1 + 32511 13466 20682 20750 36604 36604 0.17673418498679894 TLLFLLINWIK 11 Unmodified _TLLFLLINWIK_ 0 0 0 REV__ENSG00000170961|ENST00000303924|HAS2 REV__ENSG00000170961|ENST00000303924|HAS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 687.4346313476562 2 687.431399 1372.84824 NaN NaN NaN NaN NaN NaN NaN 104.74 1 105.34 104.84 105.84 0.59885 0 0 0 1.0082 1 48383 48383 0 0 1 + 32512 13466 20682 20750 36605 36605 0.17673418498679894 TLLGDPKRRM 10 Unmodified _TLLGDPKRRM_ 0 0 0 ENSG00000177272|ENST00000369769|KCNA3 ENSG00000177272|ENST00000369769|KCNA3 ENSG00000177272|ENST00000369769|KCNA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 593.9655151367188 2 593.839882 1185.66521 NaN NaN NaN NaN NaN NaN NaN 94.042 1 94.128 93.628 94.628 0.086212 0 0 0 0.99572 1 49390 49390 5.2969 0.76802 1 32513 5110 20683 20751 36606 36606 0.07980541165193245 TLLKKYQEYAW 11 Unmodified _TLLKKYQEYAW_ 0 0 0 REV__nc|ENSG00000085491|Q6NUK1-2|SLC25A24 REV__nc|ENSG00000085491|Q6NUK1-2|SLC25A24 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 721.78759765625 2 721.887552 1441.76055 NaN NaN NaN NaN NaN NaN NaN 66.725 1 67.429 66.929 67.929 0.7047 0 0 0 1.0041 1 31648 31648 5.2969 0.76802 1 + 32514 10646 20684 20752 36607 36607 0.05734172837242113 TLLKNITL 8 Unmodified _TLLKNITL_ 0 0 0 ENSG00000165813|ENST00000369287|CCDC186 ENSG00000165813|ENST00000369287|CCDC186 ENSG00000165813|ENST00000369287|CCDC186 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 305.8683166503906 3 305.867299 914.580068 NaN NaN NaN NaN NaN NaN NaN 29.946 1 30.564 30.064 31.064 0.61737 0 0 0 0.87555 1 13736 13736 13.906 0 1 32515 4426 20685 20753 36608 36608 0.11936118971038923 TLLKRKHK 8 Unmodified _TLLKRKHK_ 0 0 0 REV__ENST00000332687.10_1_X:73808967-73809075:-|nuORF REV__ENST00000332687.10_1_X:73808967-73809075:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 341.7289123535156 3 341.897704 1022.67128 2.4326 0.00083169 3.6404 0.0012447 6.073 0.0020763 342.2326141395348 39.192 0.20543 39.83 39.682 39.887 0.63778 10 7 2 0 0 0 0.14348 1 17876 17876 0.40072 0 1 208130 + 32516 15389 20686 20754 36609 36609 0.16085427459040602 TLLKRKHK 8 Unmodified _TLLKRKHK_ 0 0 0 REV__ENST00000332687.10_1_X:73808967-73809075:-|nuORF REV__ENST00000332687.10_1_X:73808967-73809075:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 341.897704 1022.67128 2.4292 0.00083053 3.7811 0.0012928 6.2103 0.0021233 341.89959714462293 39.369 0.68962 39.636 39.347 40.037 0.26696 -0.097316 2.9123E-05 NaN 0.40072 32 26 2 NaN NaN NaN NaN 0 NaN NaN 0 217470 + 32517 15389 20686 20754 0.16085427459040602 TLLKRPKG 8 Unmodified _TLLKRPKG_ 0 0 0 REV__ENST00000456494.1_3_X:148730977-148731121:-|nuORF REV__ENST00000456494.1_3_X:148730977-148731121:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.8027038574219 2 456.803094 911.591636 NaN NaN NaN NaN NaN NaN NaN 55.107 1 55.894 55.394 56.394 0.78711 0 0 0 0.99035 1 25155 25155 4.756 0 1 + 32518 16453 20687 20755 36610 36610 0.1323036078504174 TLLKSLIF 8 Unmodified _TLLKSLIF_ 0 0 0 ROS1|p.T616Ffs*14|1|0.1|ENSG00000047936|chr6:117387948-117387949|-/TTAAA|frameshift_variant ROS1|p.T616Ffs*14|1|0.1|ENSG00000047936|chr6:117387948-117387949|-/TTAAA|frameshift_variant ROS1|p.T616Ffs*14|1|0.1|ENSG00000047936|chr6:117387948-117387949|-/TTAAA|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 934.3424682617188 1 934.597181 933.589904 3.3048 0.0030886 3.9399 0.0036822 7.2446 0.0067708 934.6025755466881 93.797 0.073792 93.797 93.736 93.81 0 13 9 2 0 0 0 0.14111 1 50138 50138 2.5775 0 1 11534000 32519 18252 20688 20756 36611 36611 0.12045306976438042 TLLLHIILRL 10 Unmodified _TLLLHIILRL_ 0 0 0 REV__chr2:69789926-69790680|323|10.1|0.0|19.95|-|1|TE_info:LTR25-int,LTR25-int_dup24,ERV1,LTR,donor,-,69790680,69792971|SMANTIS,None|42 REV__chr2:69789926-69790680|323|10.1|0.0|19.95|-|1|TE_info:LTR25-int,LTR25-int_dup24,ERV1,LTR,donor,-,69790680,69792971|SMANTIS,None|42 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 603.2642211914062 2 602.910633 1203.80671 NaN NaN NaN NaN NaN NaN NaN 99.995 1 100.3 99.804 100.8 0.30835 0 0 0 1.0015 1 46236 46236 0.40072 0 1 + 32520 10041 20689 20757 36612 36612 0.21296282529988275 TLLLLHRALRW 11 Unmodified _TLLLLHRALRW_ 0 0 0 ENSG00000182327|ENST00000331264|GLTPD2 ENSG00000182327|ENST00000331264|GLTPD2 ENSG00000182327|ENST00000331264|GLTPD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 696.4373779296875 2 696.435338 1390.85612 NaN NaN NaN NaN NaN NaN NaN 79.549 1 79.549 79.049 80.049 0 0 0 0 1.008 1 39322 39322 0.35063 0 1 32521 5329 20690 20758 36613 36613 0.1763299053877745 TLLLLLLLL 9 Unmodified _TLLLLLLLL_ 0 0 0 ENSG00000161610|ENST00000293330|HCRT;ENST00000536100.1_1_12:133182714-133186967:-|nuORF;ENSG00000204583|ENST00000376608|LRCOL1 REV__ENSG00000135077|ENST00000307851|HAVCR2;ENST00000536100.1_1_12:133182714-133186967:-|nuORF;REV__ENSG00000125810|ENST00000246006|CD93 ENST00000536100.1_1_12:133182714-133186967:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.61181640625 2 512.872654 1023.73076 NaN NaN NaN NaN NaN NaN NaN 68.229 1 68.932 68.432 69.432 0.70218 0 0 0 0.91238 1 32520 32520 0.52476 0 1 32522 6022;11997;11694 20691 20759 36614 36614 0.21983885629867927 TLLLLLLLLL 10 Unmodified _TLLLLLLLLL_ 0 0 0 ENST00000536100.1_1_12:133182714-133186967:-|nuORF;ENSG00000204583|ENST00000376608|LRCOL1 ENST00000536100.1_1_12:133182714-133186967:-|nuORF;REV__ENSG00000125810|ENST00000246006|CD93 ENST00000536100.1_1_12:133182714-133186967:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.4154052734375 2 569.414686 1136.81482 NaN NaN NaN NaN NaN NaN NaN 26.256 1 26.521 26.021 27.021 0.26489 0 0 0 1.002 1 11927 11927 0 0 1 32523 6022;11694 20692 20760 36615 36615 0.2518841672676899 TLLLLLLLLLL 11 Unmodified _TLLLLLLLLLL_ 0 0 0 ENST00000536100.1_1_12:133182714-133186967:-|nuORF;ENSG00000204583|ENST00000376608|LRCOL1 ENST00000536100.1_1_12:133182714-133186967:-|nuORF ENST00000536100.1_1_12:133182714-133186967:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 626.3818359375 2 625.956718 1249.89888 NaN NaN NaN NaN NaN NaN NaN 78.525 1 78.525 78.025 79.025 0 0 0 0 1.0082 1 38614 38614 0 0 1 32524 6022 20693 20761 36616 36616 0.28392947823681425 TLLLLLLLLLL 11 Unmodified _TLLLLLLLLLL_ 0 0 0 ENST00000536100.1_1_12:133182714-133186967:-|nuORF;ENSG00000204583|ENST00000376608|LRCOL1 ENST00000536100.1_1_12:133182714-133186967:-|nuORF ENST00000536100.1_1_12:133182714-133186967:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 417.640625 3 417.640237 1249.89888 NaN NaN NaN NaN NaN NaN NaN 63.564 1 64.286 63.786 64.786 0.72236 0 0 0 1.0082 1 29788 29788 0 0 1 32525 6022 20693 20761 36617 36617 0.28392947823681425 TLLLRLRKWR 10 Unmodified _TLLLRLRKWR_ 0 0 0 REV__ENSG00000167548|ENST00000301067|KMT2D REV__ENSG00000167548|ENST00000301067|KMT2D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.7118530273438 2 677.943331 1353.87211 NaN NaN NaN NaN NaN NaN NaN 98.425 1 98.491 97.991 98.991 0.066025 0 0 0 1.0001 1 52914 52914 1.6526 0 1 + 32526 13292 20694 20762 36618 36618 0.20932696775662407 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.3071594238281 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 92.581 1 92.833 92.333 93.333 0.25253 0 0 0 0.99035 1 42557 42557 0.69038 0 1 + 32527 14199 20695 20763 36619 36619 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.3076477050781 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 92.933 1 93.188 92.688 93.688 0.25497 0 0 0 0.99035 1 42716 42716 0.69038 0 1 + 32528 14199 20695 20763 36620 36620 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.30780029296875 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 93.053 1 93.308 92.808 93.808 0.25497 0 0 0 0.99035 1 42771 42771 0.69038 0 1 + 32529 14199 20695 20763 36621 36621 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.3075256347656 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 94.204 1 94.464 93.964 94.964 0.25975 0 0 0 0.99035 1 43291 43291 0.69038 0 1 + 32530 14199 20695 20763 36622 36622 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.30767822265625 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 94.531 1 94.791 94.291 95.291 0.25975 0 0 0 0.99035 1 43439 43439 0.69038 0 1 + 32531 14199 20695 20763 36623 36623 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.3085021972656 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 94.729 1 94.988 94.488 95.488 0.25975 0 0 0 0.99035 1 43528 43528 0.69038 0 1 + 32532 14199 20695 20763 36624 36624 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.3077087402344 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 95.101 1 95.368 94.868 95.868 0.2675 0 0 0 0.99035 1 43698 43698 0.69038 0 1 + 32533 14199 20695 20763 36625 36625 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.30682373046875 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 95.25 1 95.517 95.017 96.017 0.2675 0 0 0 0.99035 1 43765 43765 0.69038 0 1 + 32534 14199 20695 20763 36626 36626 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.3075866699219 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 95.347 1 95.615 95.115 96.115 0.2675 0 0 0 0.99035 1 43810 43810 0.69038 0 1 + 32535 14199 20695 20763 36627 36627 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.3081359863281 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 95.477 1 95.744 95.244 96.244 0.2675 0 0 0 0.99035 1 43869 43869 0.69038 0 1 + 32536 14199 20695 20763 36628 36628 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.30718994140625 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 96.98 1 97.258 96.758 97.758 0.27778 0 0 0 0.99035 1 44555 44555 0.69038 0 1 + 32537 14199 20695 20763 36629 36629 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.30755615234375 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 91.853 1 92.515 92.015 93.015 0.66198 0 0 0 0.99035 1 42267 42267 0.69038 0 1 + 32538 14199 20695 20763 36630 36630 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.3065185546875 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 92.204 1 92.852 92.352 93.352 0.64714 0 0 0 0.99035 1 42424 42424 0.69038 0 1 + 32539 14199 20695 20763 36631 36631 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.30828857421875 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 92.497 1 93.144 92.644 93.644 0.64714 0 0 0 0.99035 1 42556 42556 0.69038 0 1 + 32540 14199 20695 20763 36632 36632 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.3076477050781 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 93.222 1 93.854 93.354 94.354 0.63115 0 0 0 0.99035 1 42886 42886 0.69038 0 1 + 32541 14199 20695 20763 36633 36633 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.30657958984375 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 93.803 1 94.434 93.934 94.934 0.63115 0 0 0 0.99035 1 43146 43146 0.69038 0 1 + 32542 14199 20695 20763 36634 36634 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.30731201171875 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 93.945 1 94.576 94.076 95.076 0.63115 0 0 0 0.99035 1 43210 43210 0.69038 0 1 + 32543 14199 20695 20763 36635 36635 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.3081359863281 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 94.114 1 94.745 94.245 95.245 0.63115 0 0 0 0.99035 1 43286 43286 0.69038 0 1 + 32544 14199 20695 20763 36636 36636 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.3078918457031 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 94.254 1 94.871 94.371 95.371 0.61736 0 0 0 0.99035 1 43350 43350 0.69038 0 1 + 32545 14199 20695 20763 36637 36637 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.3076171875 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 94.436 1 95.053 94.553 95.553 0.61736 0 0 0 0.99035 1 43432 43432 0.69038 0 1 + 32546 14199 20695 20763 36638 36638 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.3077087402344 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 94.661 1 95.279 94.779 95.779 0.61736 0 0 0 0.99035 1 43534 43534 0.69038 0 1 + 32547 14199 20695 20763 36639 36639 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.30755615234375 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 94.798 1 95.416 94.916 95.916 0.61736 0 0 0 0.99035 1 43596 43596 0.69038 0 1 + 32548 14199 20695 20763 36640 36640 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.3076171875 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 95.021 1 95.639 95.139 96.139 0.61736 0 0 0 0.99035 1 43699 43699 0.69038 0 1 + 32549 14199 20695 20763 36641 36641 0.1546649498179704 TLLLVLPL 8 Unmodified _TLLLVLPL_ 0 0 0 REV__ENSG00000196260|ENST00000359086|SFTA2 REV__ENSG00000196260|ENST00000359086|SFTA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.306884765625 2 441.307147 880.599741 NaN NaN NaN NaN NaN NaN NaN 96.61 1 97.212 96.712 97.712 0.6019 0 0 0 0.99035 1 44419 44419 0.69038 0 1 + 32550 14199 20695 20763 36642 36642 0.1546649498179704 TLLMHGQRQKR 11 Unmodified _TLLMHGQRQKR_ 0 0 0 REV__ENST00000485832.1_1_7:128446807-128447827:+|nuORF REV__ENST00000485832.1_1_7:128446807-128447827:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 684.3853759765625 2 684.388062 1366.76157 NaN NaN NaN NaN NaN NaN NaN 96.957 1 97.027 96.527 97.527 0.070648 0 0 0 1.0041 1 51683 51683 5.2969 0 1 + 32551 16748 20696 20764 36643 36643 0.0928610872513218 TLLQLQKRK 9 Unmodified _TLLQLQKRK_ 0 0 0 REV__ENST00000456674.1_1_2:11448506-11449064:+|nuORF REV__ENST00000456674.1_1_2:11448506-11449064:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.3278198242188 2 564.36659 1126.71863 3.8216 0.0021568 -4.1394 -0.0023361 -0.31778 -0.00017935 564.3632330011408 67.805 0.13154 68.058 68.01 68.142 0.25227 11 8 2 0 0 0 0.11288 1 31073 31073 2.0598 0.21551 1 278360 + 32552 16454 20697 20765 36644 36644 0.16033661939354715 TLLRKWEPVLR 11 Unmodified _TLLRKWEPVLR_ 0 0 0 nc|ENSG00000162946|Q9NRI5-10|DISC1;nc|ENSG00000162946|Q9NRI5-4|DISC1;ENST00000468399.2_1_1:231765255-231837778:+|nuORF;nc|ENSG00000162946|Q9NRI5-7|DISC1;nc|ENSG00000162946|Q9NRI5-6|DISC1;nc|ENSG00000162946|Q9NRI5-9|DISC1;nc|ENSG00000162946|Q9NRI5-3|DISC1;nc|ENSG00000162946|Q9NRI5-8|DISC1;nc|ENSG00000162946|Q9NRI5-5|DISC1;ENST00000422590.6_1_1:231829618-232144897:+|nuORF;nc|ENSG00000162946|Q9NRI5-2|DISC1;ENSG00000162946|ENST00000439617|DISC1 nc|ENSG00000162946|Q9NRI5-10|DISC1 nc|ENSG00000162946|Q9NRI5-10|DISC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 705.93212890625 2 705.932628 1409.8507 NaN NaN NaN NaN NaN NaN NaN 104.83 1 104.88 104.38 105.38 0.050888 0 0 0 1.0057 1 56725 56725 3.2813 0 1 32553 4182 20698 20766 36645 36645 0.1621726695630059 TLLRLRGRLLL 11 Unmodified _TLLRLRGRLLL_ 0 0 0 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1;nc|ENSG00000086758|Q7Z6Z7-3|HUWE1;ENSG00000086758|ENST00000262854|HUWE1 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1 nc|ENSG00000086758|Q7Z6Z7-2|HUWE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 662.1784057617188 2 662.450988 1322.88742 NaN NaN NaN NaN NaN NaN NaN 54.922 1 54.922 54.422 55.422 0 0 0 0 1.0072 1 25216 25216 1.3295 0 1 32554 987 20699 20767 36646 36646 0.23889563572902262 TLLSRIPEHL 10 Unmodified _TLLSRIPEHL_ 0 0 0 ENSG00000144218|ENST00000672756|AFF3;nc|ENSG00000144218|P51826-2|AFF3 ENSG00000144218|ENST00000672756|AFF3 ENSG00000144218|ENST00000672756|AFF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.5685729980469 3 393.567912 1177.68191 2.7115 0.0010672 -0.24017 -9.4525E-05 2.4714 0.00097264 393.5678943637994 13.354 0.13262 13.354 13.283 13.415 0 23 13 2 0 0 0 0.48762 1 5832 5832 21.59 0 1 281820 32555 3411 20700 20768 36647 36647 0.10017365322801197 TLLTVVLQVGL 11 Unmodified _TLLTVVLQVGL_ 0 0 0 REV__ENST00000586357.1_1_19:19243937-19249261:-|nuORF REV__ENST00000586357.1_1_19:19243937-19249261:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.3759155273438 2 578.371007 1154.72746 NaN NaN NaN NaN NaN NaN NaN 48.078 1 48.078 47.578 48.578 0 0 0 0 1.0041 1 22017 22017 5.2969 0 1 + 32556 10412 20701 20769 36648 36648 0.1562859078519523 TLLVKEPV 8 Unmodified _TLLVKEPV_ 0 0 0 ENST00000513079.5_1_5:73981085-74001232:+|nuORF;ENSG00000049860|ENST00000261416|HEXB ENST00000513079.5_1_5:73981085-74001232:+|nuORF ENST00000513079.5_1_5:73981085-74001232:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 449.7869567871094 2 449.784036 897.553519 NaN NaN NaN NaN NaN NaN NaN 43.3 1 43.948 43.448 44.448 0.64872 0 0 0 0.99035 1 19842 19842 2.8892 0 1 32557 579 20702 20770 36649 36649 0.10064430079717113 TLMERTVSL 9 Unmodified _TLMERTVSL_ 0 0 0 ENSG00000197712|ENST00000358869|FAM114A1;nc|ENSG00000197712|Q8IWE2-2|FAM114A1 ENSG00000197712|ENST00000358869|FAM114A1 ENSG00000197712|ENST00000358869|FAM114A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.2882690429688 2 525.286617 1048.55868 3.4925 0.0018345 -0.67094 -0.00035244 2.8215 0.0014821 525.2863760091577 48.507 0.36018 48.77 48.639 48.999 0.2621 48 18 4 0 0 0 0.012813 1 22193 22193 78.06 26.431 1 3025700 32558 5836 20703 20771 36650 36650 0.03634365880020596 TLMERTVSL 9 Unmodified _TLMERTVSL_ 0 0 0 ENSG00000197712|ENST00000358869|FAM114A1;nc|ENSG00000197712|Q8IWE2-2|FAM114A1 ENSG00000197712|ENST00000358869|FAM114A1 ENSG00000197712|ENST00000358869|FAM114A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.2886352539062 2 525.286617 1048.55868 3.3732 0.0017719 -0.54218 -0.0002848 2.8311 0.0014871 525.2865470319125 47.901 0.49929 48.554 48.398 48.897 0.65356 51 19 4 0 0 0 0.002702 1 21935 21935 96.936 42.162 1 2613100 32559 5836 20703 20771 36651 36651 0.03634365880020596 TLMIIKKKFGT 11 Unmodified _TLMIIKKKFGT_ 0 0 0 REV__ENST00000325875.7_1_9:86615947-86616031:+|nuORF REV__ENST00000325875.7_1_9:86615947-86616031:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1279.791259765625 1 1279.78064 1278.77336 3.5004 0.0044798 -2.0093 -0.0025714 1.4912 0.0019084 1279.7781078621158 53.667 0.52583 53.667 53.404 53.93 0 65 36 2 0 0 0 0.90332 1 24495 24495 2.2828 2.2828 1 2374100 + 32560 15350 20704 20772 36652 36652 0.14512912695749947 TLNEKLTAL 9 Unmodified _TLNEKLTAL_ 0 0 0 ENSG00000254999|ENST00000530758|BRK1;nc|ENSG00000254999|Q8WUW1-2|BRK1 ENSG00000254999|ENST00000530758|BRK1 ENSG00000254999|ENST00000530758|BRK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.7964782714844 2 501.795132 1001.57571 2.8823 0.0014463 0.90037 0.0004518 3.7827 0.0018981 501.7955474739785 46.63 0.2859 46.63 46.502 46.787 0 15 10 2 0 0 0 0.025135 1 21375 21375 61.602 7.7691 1 652090 32561 6280 20705 20773 36653 36653 0.07498609757453778 TLNEKLTAL 9 Unmodified _TLNEKLTAL_ 0 0 0 ENSG00000254999|ENST00000530758|BRK1;nc|ENSG00000254999|Q8WUW1-2|BRK1 ENSG00000254999|ENST00000530758|BRK1 ENSG00000254999|ENST00000530758|BRK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.7962646484375 2 501.795132 1001.57571 NaN NaN NaN NaN NaN NaN NaN 45.696 1 46.523 46.023 47.023 0.82621 0 0 0 0.078346 1 20808 20808 45.74 7.5643 1 32562 6280 20705 20773 36654 36654 0.07498609757453778 TLNEKLTAL 9 Unmodified _TLNEKLTAL_ 0 0 0 ENSG00000254999|ENST00000530758|BRK1;nc|ENSG00000254999|Q8WUW1-2|BRK1 ENSG00000254999|ENST00000530758|BRK1 ENSG00000254999|ENST00000530758|BRK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.7969665527344 2 501.795132 1001.57571 3.3768 0.0016945 0.12537 6.2912E-05 3.5022 0.0017574 501.7950869224017 46.522 0.27943 46.788 46.62 46.899 0.26561 21 9 3 0 0 0 0.0016705 2 21238 21238;21299 107.56 17.428 1 1550600 32563 6280 20705 20773 36655;36656 36655 0.07498609757453778 TLNEKLTAL 9 Unmodified _TLNEKLTAL_ 0 0 0 ENSG00000254999|ENST00000530758|BRK1;nc|ENSG00000254999|Q8WUW1-2|BRK1 ENSG00000254999|ENST00000530758|BRK1 ENSG00000254999|ENST00000530758|BRK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.7973327636719 2 501.795132 1001.57571 3.5418 0.0017773 0.55585 0.00027892 4.0977 0.0020562 501.7953535326668 45.899 0.37718 46.55 46.36 46.737 0.65104 24 11 3 0 0 0 0.0023358 2 21066 21004;21066 100.71 15.324 1 1344300 32564 6280 20705 20773 36657;36658 36658 0.07498609757453778 TLNLAQKR 8 Unmodified _TLNLAQKR_ 0 0 0 ENST00000281513.9_1_2:15534384-15534450:-|nuORF ENST00000281513.9_1_2:15534384-15534450:-|nuORF ENST00000281513.9_1_2:15534384-15534450:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.28887939453125 2 472.287808 942.561064 1.8837 0.00088965 0.65271 0.00030827 2.5364 0.0011979 472.288095146516 91.099 0.35159 91.174 91.016 91.367 0.075279 123 51 3 0 0 0 0.69597 1 47268 47268 4.756 2.6963 1 33726000 32565 6693 20706 20774 36659 36659 0.0874858239999412 TLNLAQKR 8 Unmodified _TLNLAQKR_ 0 0 0 ENST00000281513.9_1_2:15534384-15534450:-|nuORF ENST00000281513.9_1_2:15534384-15534450:-|nuORF ENST00000281513.9_1_2:15534384-15534450:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 472.287808 942.561064 3.1614 0.0014931 0.93178 0.00044007 4.0932 0.0019332 472.2883788229537 90.557 0.61958 91.229 90.957 91.577 0.67271 0.029961 0.000123 NaN 4.756 109 32 5 NaN NaN NaN NaN 0 NaN NaN 0 78875000 32566 6693 20706 20774 0.0874858239999412 TLPFHLIR 8 Unmodified _TLPFHLIR_ 0 0 0 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 996.6024169921875 1 996.598912 995.591636 3.5371 0.003525 1.0248 0.0010213 4.5618 0.0045463 996.5997413291583 51.84 0.33364 51.84 51.692 52.026 0 47 25 2 0 0 0 0.71384 1 23743 23743 4.756 0 1 1995600 32567 5171 20707 20775 36660 36660 0.09366360785043071 TLPFHLIR 8 Unmodified _TLPFHLIR_ 0 0 0 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 996.6035766601562 1 996.598912 995.591636 3.38 0.0033685 1.8019 0.0017958 5.1819 0.0051642 996.600531593019 51.46 0.27472 51.723 51.585 51.86 0.26228 31 12 3 0 0 0 0.71384 1 23539 23539 4.756 0 1 4363400 32568 5171 20707 20775 36661 36661 0.09366360785043071 TLPFHLIR 8 Unmodified _TLPFHLIR_ 0 0 0 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 996.598912 995.591636 3.4242 0.0034126 1.5275 0.0015223 4.9517 0.0049349 996.6003087546318 51.742 0.44052 52.004 51.86 52.3 0.26227 0.083467 0.00018668 NaN 4.756 97 35 3 NaN NaN NaN NaN 0 NaN NaN 0 4312900 32569 5171 20707 20775 0.09366360785043071 TLPFHLIR 8 Unmodified _TLPFHLIR_ 0 0 0 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 996.598912 995.591636 3.5063 0.0034944 1.4109 0.0014061 4.9172 0.0049004 996.6003809427407 51.259 0.10098 51.918 51.888 51.989 0.65956 -0.0023193 7.0405E-05 NaN 4.756 11 8 2 NaN NaN NaN NaN 0 NaN NaN 0 2122500 32570 5171 20707 20775 0.09366360785043071 TLPKNRQIL 9 Unmodified _TLPKNRQIL_ 0 0 0 ENSG00000110367|ENST00000534980|DDX6 ENSG00000110367|ENST00000534980|DDX6 ENSG00000110367|ENST00000534980|DDX6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 361.5616149902344 3 361.560869 1081.66078 2.3615 0.00085382 -0.93098 -0.00033661 1.4305 0.00051722 361.5606502747038 14.085 0.056217 14.391 14.365 14.421 0.3069 7 5 2 0 0 0 0.076469 1 6378 6378 38.615 1.5401 1 3249500 32571 1711 20708 20776 36662 36662 0.12321400013956918 TLPKNRQIL 9 Unmodified _TLPKNRQIL_ 0 0 0 ENSG00000110367|ENST00000534980|DDX6 ENSG00000110367|ENST00000534980|DDX6 ENSG00000110367|ENST00000534980|DDX6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 361.560869 1081.66078 2.6507 0.00095839 -0.33769 -0.00012209 2.313 0.0008363 361.56070060670544 14.45 0.18114 14.45 14.331 14.512 0 0.029185 0.00044675 NaN 38.615 28 11 3 NaN NaN NaN NaN 0 NaN NaN 0 526010 32572 1711 20708 20776 0.12321400013956918 TLPLPKSGL 9 Unmodified _TLPLPKSGL_ 0 0 0 ENST00000480137.1_1_7:128446747-128451900:+|nuORF;nc|ENSG00000128596|Q96JN2-2|CCDC136;ENSG00000128596|ENST00000297788|CCDC136;nc|ENSG00000128596|Q96JN2-4|CCDC136 ENST00000480137.1_1_7:128446747-128451900:+|nuORF ENST00000480137.1_1_7:128446747-128451900:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 309.1962585449219 3 309.195416 924.564418 NaN NaN NaN NaN NaN NaN NaN 18.489 1 19.15 18.65 19.65 0.66072 0 0 0 0.13912 1 8373 8373 26.021 0 1 32573 2519 20709 20777 36663 36663 0.09911832453997249 TLPRHSTL 8 Unmodified _TLPRHSTL_ 0 0 0 nc|ENSG00000052126|Q9HAU0-8|PLEKHA5;nc|ENSG00000052126|Q9HAU0-4|PLEKHA5;ENSG00000052126|ENST00000429027|PLEKHA5;ENST00000510738.2_1_12:19413894-19459437:+|nuORF;nc|ENSG00000052126|Q9HAU0-3|PLEKHA5;nc|ENSG00000052126|Q9HAU0-5|PLEKHA5;nc|ENSG00000052126|Q9HAU0|PLEKHA5;nc|ENSG00000052126|Q9HAU0-2|PLEKHA5 nc|ENSG00000052126|Q9HAU0-8|PLEKHA5 nc|ENSG00000052126|Q9HAU0-8|PLEKHA5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 462.7682189941406 2 462.766709 923.518865 3.0488 0.0014109 0.55013 0.00025458 3.5989 0.0016655 462.76685641827055 12.984 0.18528 13.627 13.514 13.699 0.64272 11 5 3 0 0 0 0.13884 1 5834 5834 41.84 3.8656 1 498220 32574 591 20710 20778 36664 36664 0.054046069916125816 TLPTKQSK 8 Unmodified _TLPTKQSK_ 0 0 0 ENST00000609928.5_3_1:179834685-179834817:-|nuORF ENST00000609928.5_3_1:179834685-179834817:-|nuORF ENST00000609928.5_3_1:179834685-179834817:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.7693786621094 2 451.768917 901.523281 NaN NaN NaN NaN NaN NaN NaN 31.752 1 32.37 31.87 32.87 0.61737 0 0 0 0.64864 1 14561 14561 24.021 0 1 32575 9354 20711 20779 36665 36665 0.06858071414512779 TLPVLLLLLG 10 Unmodified _TLPVLLLLLG_ 0 0 0 ENST00000082468.11_1_6:26405791-26410201:+|nuORF;nc|ENSG00000026950|O00481-2|BTN3A1;nc|ENSG00000026950|O00481-3|BTN3A1;BTN3A1|p.E427Pfs*12|1|0.03|ENSG00000026950|chr6:26413428-26413429|-/CCCA|frameshift_variant;nc|ENSG00000026950|O00481-4|BTN3A1;ENSG00000026950|ENST00000289361|BTN3A1 ENST00000082468.11_1_6:26405791-26410201:+|nuORF ENST00000082468.11_1_6:26405791-26410201:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.3630981445312 2 526.359911 1050.70527 NaN NaN NaN NaN NaN NaN NaN 27.38 1 27.38 26.88 27.88 0 0 0 0 1.0015 1 12328 12328 0.40072 0 1 32576 92 20712 20780 36666 36666 0.18194411107424457 TLPVLLLLLG 10 Unmodified _TLPVLLLLLG_ 0 0 0 ENST00000082468.11_1_6:26405791-26410201:+|nuORF;nc|ENSG00000026950|O00481-2|BTN3A1;nc|ENSG00000026950|O00481-3|BTN3A1;BTN3A1|p.E427Pfs*12|1|0.03|ENSG00000026950|chr6:26413428-26413429|-/CCCA|frameshift_variant;nc|ENSG00000026950|O00481-4|BTN3A1;ENSG00000026950|ENST00000289361|BTN3A1 ENST00000082468.11_1_6:26405791-26410201:+|nuORF ENST00000082468.11_1_6:26405791-26410201:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.3633422851562 2 526.359911 1050.70527 NaN NaN NaN NaN NaN NaN NaN 29.268 1 29.886 29.386 30.386 0.61789 0 0 0 1.0015 1 13422 13422 0.40072 0 1 32577 92 20712 20780 36667 36667 0.18194411107424457 TLQELKFSL 9 Unmodified _TLQELKFSL_ 0 0 0 REV__ENST00000570269.2_3_3:114040545-114040689:-|nuORF REV__ENST00000570269.2_3_3:114040545-114040689:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.5076904296875 2 539.810782 1077.60701 2.8448 0.0015357 -0.94257 -0.00050881 1.9022 0.0010268 540.3121849318542 93.301 0.018814 93.301 93.295 93.314 0 4 2 2 0 0 0 0.10586 1 49813 49813 8.7454 1.4562 1 3045400 + 32578 17445 20713 20781 36668 36668 0.07131182791590618 TLQLLFGWL 9 Unmodified _TLQLLFGWL_ 0 0 0 REV__ENST00000560489.2_1_15:49658263-49658881:-|nuORF REV__ENST00000560489.2_1_15:49658263-49658881:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.8203735351562 2 545.81841 1089.62227 NaN NaN NaN NaN NaN NaN NaN 84.099 1 84.761 84.261 85.261 0.66219 0 0 0 0.90699 1 38739 38739 1.8442 0 1 + 32579 17365 20714 20782 36669 36669 0.08104094379427806 TLQRSLLFY 9 Unmodified _TLQRSLLFY_ 0 0 0 ENSG00000196663|ENST00000359520|TECPR2;nc|ENSG00000196663|O15040-2|TECPR2;ENST00000561228.1_1_14:102843052-102891354:+|nuORF ENSG00000196663|ENST00000359520|TECPR2 ENSG00000196663|ENST00000359520|TECPR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 380.8868408203125 3 380.885241 1139.63389 2.2846 0.00087016 0.76393 0.00029097 3.0485 0.0011611 381.2197781108016 63.69 0.25469 63.69 63.534 63.789 0 76 43 3 0 0 0 0.94779 1 29952 29952 3.0723 0.78949 1 8939600 32580 5766 20715 20783 36670 36670 0.06966291402773095 TLREVRQPKRI 11 Unmodified _TLREVRQPKRI_ 0 0 0 ENSG00000279169|ENST00000625019|PRAMEF13;ENSG00000204481|ENST00000334600|PRAMEF14;ENSG00000116721|ENST00000332296|PRAMEF1;ENSG00000237700|ENST00000437300|PRAMEF33;ENSG00000204479|ENST00000376098|PRAMEF17;ENSG00000187545|ENST00000235347|PRAMEF10 ENSG00000279169|ENST00000625019|PRAMEF13 ENSG00000279169|ENST00000625019|PRAMEF13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 698.2208251953125 2 698.430784 1394.84702 NaN NaN NaN NaN NaN NaN NaN 105.03 1 105.08 104.58 105.58 0.050888 0 0 0 1.0061 1 56824 56824 2.7352 0 1 32581 2045 20716 20784 36671 36671 0.1653859718246622 TLRFRVQRRQR 11 Unmodified _TLRFRVQRRQR_ 0 0 0 REV__ENST00000491407.1_1_7:100033387-100034048:-|nuORF REV__ENST00000491407.1_1_7:100033387-100034048:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.97711181640625 3 505.974558 1514.90185 4.0729 0.0020608 -0.0045039 -2.2789E-06 4.0684 0.0020585 505.9744724651225 101.35 0.098526 101.67 101.6 101.7 0.31412 15 3 5 0 0 0 0.91391 1 46901 46901 0.08335 0.08335 1 13271000 + 32582 12895 20717 20785 36672 36672 0.16499028773728242 TLRFRVQRRQR 11 Unmodified _TLRFRVQRRQR_ 0 0 0 REV__ENST00000491407.1_1_7:100033387-100034048:-|nuORF REV__ENST00000491407.1_1_7:100033387-100034048:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 505.974558 1514.90185 2.7262 0.0013794 -0.27984 -0.00014159 2.4464 0.0012378 505.97431617066485 101.45 0.081924 101.45 101.4 101.48 0 -0.22432 -0.00029814 NaN 0.08335 12 3 4 NaN NaN NaN NaN 0 NaN NaN 0 6188800 + 32583 12895 20717 20785 0.16499028773728242 TLRFRVQRRQR 11 Unmodified _TLRFRVQRRQR_ 0 0 0 REV__ENST00000491407.1_1_7:100033387-100034048:-|nuORF REV__ENST00000491407.1_1_7:100033387-100034048:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 505.974558 1514.90185 4.0729 0.0020608 -0.0045039 -2.2789E-06 4.0684 0.0020585 505.9744724651225 101.35 0.098526 101.67 101.6 101.7 0.31412 -0.0061342 0.0001198 NaN 0.08335 15 3 5 NaN NaN NaN NaN 0 NaN NaN 0 13271000 + 32584 12895 20717 20785 0.16499028773728242 TLRGLHGA 8 Unmodified _TLRGLHGA_ 0 0 0 ENST00000216294.4_1_14:62229123-62233722:+|nuORF ENST00000216294.4_1_14:62229123-62233722:+|nuORF ENST00000216294.4_1_14:62229123-62233722:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 824.5897827148438 1 824.473712 823.466435 3.3642 0.0027737 -1.8098 -0.0014921 1.5544 0.0012816 824.4731734902952 96.999 0.16852 96.999 96.889 97.058 0 24 20 2 0 0 0 0.14111 1 52680 52680 2.5775 0 1 22464000 32585 6406 20718 20786 36673 36673 0.047640686486602135 TLRGLHGA 8 Unmodified _TLRGLHGA_ 0 0 0 ENST00000216294.4_1_14:62229123-62233722:+|nuORF ENST00000216294.4_1_14:62229123-62233722:+|nuORF ENST00000216294.4_1_14:62229123-62233722:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 824.5362548828125 1 824.473712 823.466435 3.3438 0.0027569 -2.1635 -0.0017837 1.1803 0.00097315 824.4730132961926 94.808 0.22876 94.808 94.713 94.941 0 43 31 2 0 0 0 0.14111 1 50937 50937 5.7604 0 1 21584000 32586 6406 20718 20786 36674 36674 0.047640686486602135 TLRGLHGA 8 Unmodified _TLRGLHGA_ 0 0 0 ENST00000216294.4_1_14:62229123-62233722:+|nuORF ENST00000216294.4_1_14:62229123-62233722:+|nuORF ENST00000216294.4_1_14:62229123-62233722:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 825.533447265625 1 824.473712 823.466435 2.546 0.0020991 -1.7903 -0.0014761 0.75569 0.00062304 824.4732447413173 93.962 0.22297 94.048 93.897 94.12 0.086212 35 28 2 0 0 0 0.65723 1 49338 49338 9.3474 0 1 14207000 32587 6406 20718 20786 36675 36675 0.047640686486602135 TLRKKDVL 8 Unmodified _TLRKKDVL_ 0 0 0 ENST00000542747.5_1_6:149997344-150023094:-|nuORF;ENST00000441107.5_1_6:149982867-150018260:-|nuORF;ENSG00000131023|ENST00000543571|LATS1;ENSG00000150457|ENST00000382592|LATS2 ENST00000542747.5_1_6:149997344-150023094:-|nuORF ENST00000542747.5_1_6:149997344-150023094:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.8785095214844 3 324.878198 971.612765 2.5818 0.00083876 -0.91261 -0.00029649 1.6692 0.00054227 324.8777522088465 12.339 0.028219 12.976 12.961 12.989 0.63746 4 2 2 0 0 0 0.44584 1 5519 5519 24.991 2.3329 1 3528100 32588 2636 20719 20787 36676 36676 0.12582326093888696 TLRKKLIL 8 Unmodified _TLRKKLIL_ 0 0 0 nc|ENSG00000003402|O15519-4|CFLAR;nc|ENSG00000003402|O15519-15|CFLAR;nc|ENSG00000003402|O15519-8|CFLAR;ENSG00000003402|ENST00000309955|CFLAR nc|ENSG00000003402|O15519-4|CFLAR nc|ENSG00000003402|O15519-4|CFLAR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.9032897949219 3 328.902455 983.685536 NaN NaN NaN NaN NaN NaN NaN 21.642 1 22.047 21.547 22.547 0.40533 0 0 0 0.23597 1 9609 9609 71.922 19.654 1 32589 308 20720 20788 36677 36677 0.19304079887331227 TLRKKLIL 8 Unmodified _TLRKKLIL_ 0 0 0 nc|ENSG00000003402|O15519-4|CFLAR;nc|ENSG00000003402|O15519-15|CFLAR;nc|ENSG00000003402|O15519-8|CFLAR;ENSG00000003402|ENST00000309955|CFLAR nc|ENSG00000003402|O15519-4|CFLAR nc|ENSG00000003402|O15519-4|CFLAR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.9034729003906 3 328.902455 983.685536 2.3035 0.00075764 -0.43156 -0.00014194 1.872 0.0006157 328.9023705810978 21.711 0.1397 22.359 22.26 22.4 0.64714 38 28 2 0 0 0 0.062161 1 9869 9869 61.602 11.669 1 6631900 32590 308 20720 20788 36678 36678 0.19304079887331227 TLRLKEKR 8 Unmodified _TLRLKEKR_ 0 0 0 REV__ENST00000322313.8_1_2:128458880-128459129:-|nuORF REV__ENST00000322313.8_1_2:128458880-128459129:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.3399047851562 2 522.337833 1042.66111 NaN NaN NaN NaN NaN NaN NaN 103.8 1 104.12 103.62 104.62 0.31863 0 0 0 0.99035 1 47980 47980 0.79363 0 1 + 32591 15327 20721 20789 36679 36679 0.14148819733782148 TLRLKVEEL 9 Unmodified _TLRLKVEEL_ 0 0 0 nc|ENSG00000002822|Q9Y6D9-3|MAD1L1;nc|ENSG00000002822|Q9Y6D9-4|MAD1L1;ENSG00000002822|ENST00000265854|MAD1L1 nc|ENSG00000002822|Q9Y6D9-3|MAD1L1 nc|ENSG00000002822|Q9Y6D9-3|MAD1L1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.7454223632812 2 550.837331 1099.66011 3.7369 0.0020584 0.16532 9.1063E-05 3.9022 0.0021495 550.8374245655248 45.113 0.18989 45.763 45.72 45.91 0.64998 12 6 2 0 0 0 0.068676 1 20668 20668 20.415 3.3016 1 573450 32592 305 20722 20790 36680 36680 0.11426560574227551 TLRLLIIPI 9 Unmodified _TLRLLIIPI_ 0 0 0 ENST00000483914.5_1_2:99770795-99771306:-|nuORF ENST00000483914.5_1_2:99770795-99771306:-|nuORF ENST00000483914.5_1_2:99770795-99771306:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.3641357421875 2 526.365527 1050.7165 NaN NaN NaN NaN NaN NaN NaN 27.199 1 27.461 26.961 27.961 0.26245 0 0 0 0.89509 1 12361 12361 4.756 2.6963 1 32593 8320 20723 20791 36681 36681 0.19317233201559247 TLRLLLLLPLL 11 Unmodified _TLRLLLLLPLL_ 0 0 0 REV__ENSG00000127578|ENST00000319070|WFIKKN1 REV__ENSG00000127578|ENST00000319070|WFIKKN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 426.87957763671875 3 426.635486 1276.88463 NaN NaN NaN NaN NaN NaN NaN 72.633 1 73.297 72.797 73.797 0.66398 0 0 0 1.0082 1 33329 33329 0.094841 0 1 + 32594 11743 20724 20792 36682 36682 0.25726295395361376 TLRLQQLKQFQ 11 Unmodified _TLRLQQLKQFQ_ 0 0 0 REV__ENST00000560927.1_1_15:91083228-91137023:+|nuORF REV__ENST00000560927.1_1_15:91083228-91137023:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 702.2667236328125 2 701.911893 1401.80923 NaN NaN NaN NaN NaN NaN NaN 99.37 1 99.37 98.87 99.87 0 0 0 0 1.0059 1 54631 54631 2.9952 0 1 + 32595 12259 20725 20793 36683 36683 0.12440086196966149 TLRLVARRVL 10 Unmodified _TLRLVARRVL_ 0 0 0 REV__nc|ENSG00000221883|Q8N7S6|ARIH2OS REV__nc|ENSG00000221883|Q8N7S6|ARIH2OS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 598.8779907226562 2 598.901131 1195.78771 NaN NaN NaN NaN NaN NaN NaN 80.547 1 80.715 80.215 81.215 0.16862 0 0 0 1.0001 1 39484 39484 1.6526 0 1 + 32596 18135 20726 20794 36684 36684 0.19764745958923413 TLRNKEMKI 9 Unmodified _TLRNKEMKI_ 0 0 0 ENSG00000176230|ENST00000641386|OR4K17 ENSG00000176230|ENST00000641386|OR4K17 ENSG00000176230|ENST00000641386|OR4K17 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.5792236328125 3 378.221748 1131.64341 2.8612 0.0010822 -0.30374 -0.00011488 2.5574 0.00096727 378.22177011205275 44.269 0.16 44.919 44.88 45.04 0.64998 11 7 2 0 0 0 0.11228 1 20337 20337 3.5871 0 1 336310 32597 5069 20727 20795 36685 36685 0.08285736416632972 TLRNKEVK 8 Unmodified _TLRNKEVK_ 0 0 0 nc|ENSG00000196383|P0C623|OR4Q2;ENSG00000280236|ENST00000642051|OR12D2;ENSG00000196184|ENST00000423932|OR10J1;nc|ENSG00000196248|Q8NGN2|OR10S1;ENSG00000256574|ENST00000553795|OR13A1;ENSG00000169488|ENST00000305051|OR4K15;ENSG00000196248|ENST00000641123|OR10S1;nc|ENSG00000196184|P30954|OR10J1;nc|ENSG00000251608|P0DN82|OR12D1;ENSG00000176299|ENST00000641200|OR4M1;ENSG00000274102|ENST00000614722|OR4M2;ENSG00000124657|ENST00000244623|OR2B6;ENSG00000182974|ENST00000332663|OR4M2B;ENSG00000197309|ENST00000641351|OR10D3;ENSG00000182634|ENST00000641585|OR10G7;ENSG00000236981|ENST00000375024|OR10G9;ENSG00000254737|ENST00000641722|OR10G4;ENSG00000168131|ENST00000303324|OR2B2;ENSG00000234560|ENST00000641224|OR10G8 nc|ENSG00000196383|P0C623|OR4Q2;ENSG00000234560|ENST00000641224|OR10G8 ENSG00000234560|ENST00000641224|OR10G8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.3023681640625 2 494.300916 986.587279 2.0609 0.0010187 0.69121 0.00034167 2.7521 0.0013604 494.3011090171645 93.51 0.35022 93.596 93.46 93.81 0.086212 123 45 4 0 0 0 0.7471 1 48923 48923 1.8442 0 1 45980000 32598 9797;6196 20728 20796 36686 36686 0.09344851571472645 TLRNRRTRNRR 11 Unmodified _TLRNRRTRNRR_ 0 0 0 REV__nc|ENSG00000204851|Q9ULN7-1|PNMA8B REV__nc|ENSG00000204851|Q9ULN7-1|PNMA8B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 750.402587890625 2 749.94853 1497.88251 NaN NaN NaN NaN NaN NaN NaN 100.41 1 100.47 99.972 100.97 0.059723 0 0 0 1.0072 1 54475 54475 1.3295 0 1 + 32599 14441 20729 20797 36687 36687 0.15348072482811403 TLRNSNTLL 9 Unmodified _TLRNSNTLL_ 0 0 0 REV__ENSG00000196911|ENST00000368564|KPNA5 REV__ENSG00000196911|ENST00000368564|KPNA5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 344.53399658203125 3 344.532979 1030.57711 2.0476 0.00070547 0.31406 0.0001082 2.3617 0.00081368 344.5329623070654 13.215 0.24534 13.458 13.373 13.618 0.24346 27 17 2 0 0 0 0.54955 1 5788 5788 7.609 0 1 379590 + 32600 14245 20730 20798 36688 36688 0.06304243846238933 TLRNSQMSL 9 Unmodified _TLRNSQMSL_ 0 0 0 REV__nc|ENSG00000115685|Q15435-5|PPP1R7 REV__nc|ENSG00000115685|Q15435-5|PPP1R7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.27783203125 2 525.274041 1048.53353 NaN NaN NaN NaN NaN NaN NaN 70.848 1 71.51 71.01 72.01 0.66209 0 0 0 0.86044 1 32470 32470 7.2892 1.5288 1 + 32601 11381 20731 20799 36689 36689 0.011203110774658853 TLRPHRGLTRT 11 Unmodified _TLRPHRGLTRT_ 0 0 0 REV__ENST00000518357.1_1_5:169758569-169760446:+|nuORF REV__ENST00000518357.1_1_5:169758569-169760446:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 654.3875122070312 2 654.386377 1306.7582 NaN NaN NaN NaN NaN NaN NaN 83.921 1 83.95 83.45 84.45 0.028603 0 0 0 1.0007 1 41752 41752 6.6304 0.42459 1 + 32602 17028 20732 20800 36690 36690 0.11709181942774194 TLRPLLNCL 9 Unmodified _TLRPLLNCL_ 0 0 0 ENST00000257860.8_1_12:49692132-49692414:+|nuORF ENST00000257860.8_1_12:49692132-49692414:+|nuORF ENST00000257860.8_1_12:49692132-49692414:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.8086547851562 2 521.807519 1041.60049 3.5144 0.0018339 -1.1862 -0.00061897 2.3282 0.0012149 521.8068646847873 41.604 0.22 42.249 42.059 42.279 0.64451 13 11 2 0 0 0 0.96953 1 19042 19042 3.9444 0 1 874090 32603 6535 20733 20801 36691 36691 0.08134966359216378 TLRQVFDGL 9 Unmodified _TLRQVFDGL_ 0 0 0 ENST00000534047.5_1_11:10503676-10517278:+|nuORF;nc|ENSG00000133805|Q01432-6|AMPD3;nc|ENSG00000133805|Q01432-3|AMPD3;ENSG00000133805|ENST00000396553|AMPD3;nc|ENSG00000133805|Q01432-5|AMPD3;nc|ENSG00000133805|Q01432-4|AMPD3 ENST00000534047.5_1_11:10503676-10517278:+|nuORF ENST00000534047.5_1_11:10503676-10517278:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.20745849609375 3 350.197708 1047.57129 NaN NaN NaN NaN NaN NaN NaN 38.957 1 39.754 39.254 40.254 0.79762 0 0 0 0.90519 1 17639 17639 2.2828 0 1 32604 2770 20734 20802 36692 36692 0.049411453345555856 TLRQWRKKML 10 Unmodified _TLRQWRKKML_ 0 0 0 REV__ENST00000510515.5_1_4:77936087-77936168:+|nuORF REV__ENST00000510515.5_1_4:77936087-77936168:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 680.4032592773438 2 680.405724 1358.79689 NaN NaN NaN NaN NaN NaN NaN 108.86 1 108.91 108.41 109.41 0.04248 0 0 0 0.99812 1 58755 58755 3.2813 0.54611 1 + 32605 16970 20735 20803 36693 36693 0.13184771252940664 TLRRRRFKMRR 11 Unmodified _TLRRRRFKMRR_ 0 0 0 ENSG00000023171|ENST00000635736|GRAMD1B ENSG00000023171|ENST00000635736|GRAMD1B ENSG00000023171|ENST00000635736|GRAMD1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 788.4842529296875 2 788.483694 1574.95283 NaN NaN NaN NaN NaN NaN NaN 96.623 1 96.7 96.2 97.2 0.076538 0 0 0 1.008 1 51406 51406 0.30703 0.30703 1 32606 467 20736 20804 36694 36694 0.18835654546910519 TLRRRRKVKRM 11 Unmodified _TLRRRRKVKRM_ 0 0 0 nc|ENSG00000092978|Q9NW75-2|GPATCH2;ENSG00000092978|ENST00000366935|GPATCH2 nc|ENSG00000092978|Q9NW75-2|GPATCH2 nc|ENSG00000092978|Q9NW75-2|GPATCH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 750.4777221679688 2 750.48062 1498.94669 NaN NaN NaN NaN NaN NaN NaN 94.172 1 94.172 93.672 94.672 0 0 0 0 1.008 1 50438 50438 0.30703 0.30703 1 32607 1104 20737 20805 36695 36695 0.21717136315373864 TLRWQRWQRRR 11 Unmodified _TLRWQRWQRRR_ 0 0 0 ENSG00000167895|ENST00000318430|TMC8 ENSG00000167895|ENST00000318430|TMC8 ENSG00000167895|ENST00000318430|TMC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 821.468017578125 2 821.469098 1640.92364 NaN NaN NaN NaN NaN NaN NaN 18.363 1 18.665 18.165 19.165 0.30158 0 0 0 1.0082 1 8325 8325 0 0 1 32608 4586 20738 20806 36696 36696 0.1288183352228316 TLRWSIIRE 9 Unmodified _TLRWSIIRE_ 0 0 0 ENST00000335643.12_1_6:149959574-149959643:-|nuORF ENST00000335643.12_1_6:149959574-149959643:-|nuORF ENST00000335643.12_1_6:149959574-149959643:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.6320190429688 2 587.340572 1172.66659 NaN NaN NaN NaN NaN NaN NaN 93.769 1 93.855 93.355 94.355 0.086212 0 0 0 0.8984 1 49201 49201 3.9444 0.3479 1 32609 7023 20739 20807 36697 36697 0.08716498525609495 TLRWSPSLGL 10 Unmodified _TLRWSPSLGL_ 0 0 0 REV__ENSG00000179918|ENST00000478753|SEPHS2 REV__ENSG00000179918|ENST00000478753|SEPHS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 377.2186584472656 3 377.216991 1128.62914 2.0287 0.00076526 3.0813 0.0011623 5.11 0.0019276 377.21792089266364 12.558 0.15844 12.865 12.751 12.909 0.30727 8 5 2 0 0 0 0.89607 1 5683 5683 3.8763 0 1 7680100 + 32610 13812 20740 20808 36698 36698 0.0699740725999618 TLRYLQYEV 9 Unmodified _TLRYLQYEV_ 0 0 0 REV__ENSG00000214029|ENST00000537226|ZNF891 REV__ENSG00000214029|ENST00000537226|ZNF891 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.5494079589844 3 395.548518 1183.62372 3.006 0.001189 0.028045 1.1093E-05 3.0341 0.0012001 395.5484267734367 26.261 0.34877 26.526 26.372 26.721 0.26489 82 29 4 0 0 0 0.95612 1 11873 11873 2.7352 0.82882 1 1417300 + 32611 14507 20741 20809 36699 36699 0.039256836774939075 TLSEIRLPLKA 11 Unmodified _TLSEIRLPLKA_ 0 0 0 nc|ENSG00000011426|Q9NQW6-2|ANLN;ENSG00000011426|ENST00000265748|ANLN nc|ENSG00000011426|Q9NQW6-2|ANLN nc|ENSG00000011426|Q9NQW6-2|ANLN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 620.8837890625 2 620.884813 1239.75507 NaN NaN NaN NaN NaN NaN NaN 81.096 1 81.265 80.765 81.765 0.16862 0 0 0 1.0041 1 39808 39808 5.2969 2.0156 1 32612 415 20742 20810 36700 36700 0.1447849404542012 TLSGAIFGWG 10 Unmodified _TLSGAIFGWG_ 0 0 0 nc|ENSG00000148634|Q5GLZ8-6|HERC4;nc|ENSG00000148634|Q5GLZ8-3|HERC4;ENSG00000148634|ENST00000373700|HERC4;nc|ENSG00000148634|Q5GLZ8|HERC4;ENST00000473533.6_1_10:69785383-69797913:-|nuORF nc|ENSG00000148634|Q5GLZ8-6|HERC4 nc|ENSG00000148634|Q5GLZ8-6|HERC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.3499755859375 2 504.761092 1007.50763 3.0842 0.0015568 -0.31047 -0.00015672 2.7737 0.0014001 504.76094450118853 28.208 0.28144 28.471 28.335 28.616 0.26245 31 21 2 0 0 0 0.51828 1 12859 12859 20.454 1.0917 1 599030 32613 3611 20743 20811 36701 36701 0.004177848974791232 TLSMRNTSV 9 Unmodified _TLSMRNTSV_ 0 0 0 ENSG00000176171|ENST00000368636|BNIP3;ENST00000550043.1_1_14:28734103-28734340:+|nuORF ENSG00000176171|ENST00000368636|BNIP3 ENSG00000176171|ENST00000368636|BNIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.7624206542969 2 504.760766 1007.50698 3.0842 0.0015568 0.3353 0.00016925 3.4195 0.001726 504.76094450118853 28.208 0.28144 28.471 28.335 28.616 0.26245 31 21 2 0 0 0 0.1081 2 12814 12814;12870 30.703 10.289 1 599030 32614 5066 20744 20812 36702;36703 36702 0.003526221861193335 TLSMRNTSV 9 Unmodified _TLSMRNTSV_ 0 0 0 ENSG00000176171|ENST00000368636|BNIP3;ENST00000550043.1_1_14:28734103-28734340:+|nuORF ENSG00000176171|ENST00000368636|BNIP3 ENSG00000176171|ENST00000368636|BNIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.3493347167969 2 504.760766 1007.50698 3.1746 0.0016024 0.20738 0.00010468 3.382 0.0017071 504.7608210948128 27.79 0.26315 28.41 28.302 28.565 0.61947 27 18 2 0 0 0 0.057456 3 12749 12735;12749;12789 43.982 11.196 1 724130 32615 5066 20744 20812 36704;36705;36706 36705 0.003526221861193335 TLSNHFIEL 9 Unmodified _TLSNHFIEL_ 0 0 0 ENSG00000103227|ENST00000262301|LMF1;nc|ENSG00000103227|Q96S06-2|LMF1 ENSG00000103227|ENST00000262301|LMF1 ENSG00000103227|ENST00000262301|LMF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.2841796875 2 537.284931 1072.55531 NaN NaN NaN NaN NaN NaN NaN 14.451 1 14.758 14.258 15.258 0.3069 0 0 0 0.89509 1 6539 6539 4.756 0 1 32616 1385 20745 20813 36707 36707 0.021934390976412033 TLSNLRGQL 9 Unmodified _TLSNLRGQL_ 0 0 0 REV__ENSG00000115423|ENST00000389394|DNAH6 REV__ENSG00000115423|ENST00000389394|DNAH6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.3289489746094 2 501.290548 1000.56654 3.2879 0.0016482 1.6781 0.00084123 4.966 0.0024894 501.29130447847064 79.862 0.61581 80.523 80.306 80.922 0.66082 54 37 2 0 0 0 0.1111 1 36952 36952 1.6526 0 1 468820 + 32617 11365 20746 20814 36708 36708 0.06628261191815454 TLSPSVFEK 9 Unmodified _TLSPSVFEK_ 0 0 0 REV__nc|ENSG00000105176|O94763-2|URI1 REV__nc|ENSG00000105176|O94763-2|URI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.349609375 2 504.274032 1006.53351 NaN NaN NaN NaN NaN NaN NaN 28.324 1 28.324 27.824 28.824 0 0 0 0 0.89683 1 12769 12769 4.3292 0 1 + 32618 11018 20747 20815 36709 36709 0.03050634349096981 TLSWWFERRWN 11 Unmodified _TLSWWFERRWN_ 0 0 0 REV__nc|ENSG00000133816|O94851|MICAL2 REV__nc|ENSG00000133816|O94851|MICAL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 791.2176513671875 2 790.891492 1579.76843 NaN NaN NaN NaN NaN NaN NaN 96.006 1 96.082 95.582 96.582 0.076538 0 0 0 1.0072 1 50907 50907 1.3295 0.9789 1 + 32619 17947 20748 20816 36710 36710 0.0017374487736105948 TLTSFFLIFHF 11 Unmodified _TLTSFFLIFHF_ 0 0 0 ENST00000396821.7_1_22:38880236-38880329:-|nuORF ENST00000396821.7_1_22:38880236-38880329:-|nuORF ENST00000396821.7_1_22:38880236-38880329:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 686.8594970703125 2 686.868631 1371.72271 NaN NaN NaN NaN NaN NaN NaN 108.74 1 108.78 108.28 109.28 0.04248 0 0 0 0.97175 1 58695 58695 9.3831 3.1773 1 32620 7571 20749 20817 36711 36711 0.05171706642408935 TLTSSVRH 8 Unmodified _TLTSSVRH_ 0 0 0 REV__ENST00000563018.1_1_9:139000589-139001218:-|nuORF REV__ENST00000563018.1_1_9:139000589-139001218:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.74981689453125 2 450.748516 899.482479 2.2834 0.0010293 1.6126 0.00072688 3.896 0.0017561 450.74888638240185 13.188 0.14615 13.495 13.408 13.554 0.30727 13 8 2 0 0 0 0.66653 1 5945 5945 8.5933 0 1 116160 + 32621 17388 20750 20818 36712 36712 0.02871730094909708 TLVDEVNL 8 Unmodified _TLVDEVNL_ 0 0 0 REV__ENSG00000143919|ENST00000378494|CAMKMT REV__ENSG00000143919|ENST00000378494|CAMKMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.7471923828125 2 451.745108 901.475663 3.1712 0.0014326 0.95068 0.00042946 4.1219 0.001862 451.7455317915377 48.256 0.37708 48.909 48.729 49.106 0.65356 23 14 2 0 0 0 0.66653 1 22082 22082 8.5933 0 1 329720 + 32622 12383 20751 20819 36713 36713 0.02098372423665751 TLVDLHQQE 9 Unmodified _TLVDLHQQE_ 0 0 0 REV__ENSG00000114656|ENST00000645291|CFAP92 REV__ENSG00000114656|ENST00000645291|CFAP92 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.77685546875 2 541.77747 1081.54039 NaN NaN NaN NaN NaN NaN NaN 94.655 1 94.655 94.155 95.155 0 0 0 0 0.89683 1 50829 50829 4.3292 0 1 + 32623 11329 20752 20820 36714 36714 0.0028794722968541464 TLVDLHQQE 9 Unmodified _TLVDLHQQE_ 0 0 0 REV__ENSG00000114656|ENST00000645291|CFAP92 REV__ENSG00000114656|ENST00000645291|CFAP92 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.5460205078125 2 541.77747 1081.54039 NaN NaN NaN NaN NaN NaN NaN 95.156 1 95.238 94.738 95.738 0.082001 0 0 0 0.84134 1 50238 50238 7.9102 0 1 + 32624 11329 20752 20820 36715 36715 0.0028794722968541464 TLVMLKKKQY 10 Unmodified _TLVMLKKKQY_ 0 0 0 nc|ENSG00000142192|P05067-10|APP;nc|ENSG00000142192|P05067-3|APP;nc|ENSG00000142192|P05067-4|APP;nc|ENSG00000142192|P05067-5|APP;nc|ENSG00000142192|P05067-6|APP;nc|ENSG00000142192|P05067-7|APP;nc|ENSG00000142192|P05067-11|APP;nc|ENSG00000142192|P05067-8|APP;nc|ENSG00000142192|P05067-9|APP;ENSG00000142192|ENST00000346798|APP nc|ENSG00000142192|P05067-10|APP nc|ENSG00000142192|P05067-10|APP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 313.6930236816406 4 313.692793 1250.74206 2.2768 0.00071421 -0.19439 -6.0979E-05 2.0824 0.00065323 313.69231436414384 39.104 0.89393 39.901 39.301 40.195 0.79762 155 42 5 0 0 0 0.93584 2 17645 17606;17645 1.7423 0.52744 1 3869100 32625 3300 20753 20821 36716;36717 36717 0.1267233966166259 TLVMLKKKQY 10 Unmodified _TLVMLKKKQY_ 0 0 0 nc|ENSG00000142192|P05067-10|APP;nc|ENSG00000142192|P05067-3|APP;nc|ENSG00000142192|P05067-4|APP;nc|ENSG00000142192|P05067-5|APP;nc|ENSG00000142192|P05067-6|APP;nc|ENSG00000142192|P05067-7|APP;nc|ENSG00000142192|P05067-11|APP;nc|ENSG00000142192|P05067-8|APP;nc|ENSG00000142192|P05067-9|APP;ENSG00000142192|ENST00000346798|APP nc|ENSG00000142192|P05067-10|APP nc|ENSG00000142192|P05067-10|APP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 313.9436950683594 4 313.692793 1250.74206 2.3043 0.00072285 -0.26772 -8.3981E-05 2.0366 0.00063887 313.69235544528976 39.805 0.677 40.072 39.578 40.255 0.26696 78 24 4 0 0 0 0.94099 2 17993 17993;18056 0.69767 0.07084 1 5143400 32626 3300 20753 20821 36718;36719 36718 0.1267233966166259 TLVMLKKKQY 10 Unmodified _TLVMLKKKQY_ 0 0 0 nc|ENSG00000142192|P05067-10|APP;nc|ENSG00000142192|P05067-3|APP;nc|ENSG00000142192|P05067-4|APP;nc|ENSG00000142192|P05067-5|APP;nc|ENSG00000142192|P05067-6|APP;nc|ENSG00000142192|P05067-7|APP;nc|ENSG00000142192|P05067-11|APP;nc|ENSG00000142192|P05067-8|APP;nc|ENSG00000142192|P05067-9|APP;ENSG00000142192|ENST00000346798|APP nc|ENSG00000142192|P05067-10|APP nc|ENSG00000142192|P05067-10|APP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 313.6929626464844 4 313.692793 1250.74206 2.4113 0.00075639 -0.1099 -3.4475E-05 2.3014 0.00072192 313.6924105520158 40.455 0.5796 40.724 40.257 40.836 0.26904 92 22 5 0 0 0 0.90778 1 18336 18336 3.3196 3.3196 1 10049000 32627 3300 20753 20821 36720 36720 0.1267233966166259 TLVMLKKKQY 10 Unmodified _TLVMLKKKQY_ 0 0 0 nc|ENSG00000142192|P05067-10|APP;nc|ENSG00000142192|P05067-3|APP;nc|ENSG00000142192|P05067-4|APP;nc|ENSG00000142192|P05067-5|APP;nc|ENSG00000142192|P05067-6|APP;nc|ENSG00000142192|P05067-7|APP;nc|ENSG00000142192|P05067-11|APP;nc|ENSG00000142192|P05067-8|APP;nc|ENSG00000142192|P05067-9|APP;ENSG00000142192|ENST00000346798|APP nc|ENSG00000142192|P05067-10|APP nc|ENSG00000142192|P05067-10|APP MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 313.692793 1250.74206 2.2596 0.00070883 -0.46515 -0.00014591 1.7945 0.00056292 313.6923433349895 39.606 0.49499 40.407 40.148 40.643 0.80014 -0.15793 -6.6565E-05 NaN 3.3196 97 24 5 NaN NaN NaN NaN 0 NaN NaN 0 2579200 32628 3300 20753 20821 0.1267233966166259 TLVMLKKKQY 10 Unmodified _TLVMLKKKQY_ 0 0 0 nc|ENSG00000142192|P05067-10|APP;nc|ENSG00000142192|P05067-3|APP;nc|ENSG00000142192|P05067-4|APP;nc|ENSG00000142192|P05067-5|APP;nc|ENSG00000142192|P05067-6|APP;nc|ENSG00000142192|P05067-7|APP;nc|ENSG00000142192|P05067-11|APP;nc|ENSG00000142192|P05067-8|APP;nc|ENSG00000142192|P05067-9|APP;ENSG00000142192|ENST00000346798|APP nc|ENSG00000142192|P05067-10|APP nc|ENSG00000142192|P05067-10|APP MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 313.692793 1250.74206 2.4113 0.00075639 -0.1099 -3.4475E-05 2.3014 0.00072192 313.6924105520158 40.455 0.5796 40.724 40.257 40.836 0.26904 0.15906 0.00037919 NaN 3.3196 92 22 5 NaN NaN NaN NaN 0 NaN NaN 0 10049000 32629 3300 20753 20821 0.1267233966166259 TLVSQRQIV 9 Unmodified _TLVSQRQIV_ 0 0 0 REV__ENSG00000047936|ENST00000368507|ROS1 REV__ENSG00000047936|ENST00000368507|ROS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.5466613769531 3 348.545108 1042.61349 2.5822 0.0009 -0.009958 -3.4708E-06 2.5722 0.00089653 348.5452588668976 19.462 0.1661 20.12 20.045 20.211 0.65829 20 10 3 0 0 0 0.24465 1 8824 8824 24.991 7.5483 1 335760 + 32630 10340 20754 20822 36721 36721 0.0938912074293512 TLWVTSPM 8 Unmodified _TLWVTSPM_ 0 0 0 REV__nc|ENSG00000007174|Q9NYC9-2|DNAH9 REV__nc|ENSG00000007174|Q9NYC9-2|DNAH9 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 934.4136962890625 1 934.470266 933.462989 2.5198 0.0023547 -0.94013 -0.00087852 1.5797 0.0014762 934.4711027091765 93.417 0.17252 93.503 93.418 93.59 0.086212 33 24 2 0 0 0 0.13853 1 48887 48887 5.7604 0 1 30055000 + 32631 10198 20755 20823 36722 36722 -0.006403622402217479 TLYNRIKRDPA 11 Unmodified _TLYNRIKRDPA_ 0 0 0 ENSG00000100994|ENST00000216962|PYGB ENSG00000100994|ENST00000216962|PYGB ENSG00000100994|ENST00000216962|PYGB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 449.9456481933594 3 449.589487 1345.74663 NaN NaN NaN NaN NaN NaN NaN 77.477 1 78.038 77.538 78.538 0.56091 0 0 0 1.0073 1 37582 37582 1.2148 0.10508 1 32632 1256 20756 20824 36723 36723 0.08758940128814174 TLYRPEEGY 9 Unmodified _TLYRPEEGY_ 0 0 0 ENSG00000099992|ENST00000215790|TBC1D10A;nc|ENSG00000099992|Q9BXI6-2|TBC1D10A;ENST00000462073.5_1_22:30689736-30691829:-|nuORF ENSG00000099992|ENST00000215790|TBC1D10A ENSG00000099992|ENST00000215790|TBC1D10A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.2706298828125 2 564.272021 1126.52949 NaN NaN NaN NaN NaN NaN NaN 93.355 1 93.355 92.855 93.855 0 0 0 0 0.86044 1 49844 49844 7.2892 1.5574 1 32633 1164 20757 20825 36724 36724 -0.02871455144600077 TLYVHLILEPK 11 Unmodified _TLYVHLILEPK_ 0 0 0 ENST00000509165.1_2_4:103424539-103424602:+|nuORF ENST00000509165.1_2_4:103424539-103424602:+|nuORF ENST00000509165.1_2_4:103424539-103424602:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.3983764648438 2 663.395013 1324.77547 NaN NaN NaN NaN NaN NaN NaN 46.033 1 46.299 45.799 46.799 0.26561 0 0 0 1.0044 1 21042 21042 4.897 0.36815 1 32634 8536 20758 20826 36725 36725 0.12607664705205934 TLYYEHSSEYD 11 Unmodified _TLYYEHSSEYD_ 0 0 0 REV__ENSG00000083857|ENST00000441802|FAT1 REV__ENSG00000083857|ENST00000441802|FAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 703.4312744140625 2 703.790972 1405.56739 NaN NaN NaN NaN NaN NaN NaN 104.98 1 104.98 104.48 105.48 0 0 0 0 1.0072 1 57718 57718 1.3295 0 1 + 32635 10632 20759 20827 36726 36726 -0.11917033740451188 TLYYSHWRKL 10 Unmodified _TLYYSHWRKL_ 0 0 0 ENST00000483767.5_1_1:880076-882054:-|nuORF;ENST00000477976.5_1_1:880076-889593:-|nuORF;ENSG00000188976|ENST00000327044|NOC2L ENST00000483767.5_1_1:880076-882054:-|nuORF ENST00000483767.5_1_1:880076-882054:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 684.16259765625 2 683.866954 1365.71936 NaN NaN NaN NaN NaN NaN NaN 94.218 1 94.218 93.718 94.718 0 0 0 0 0.99774 1 50475 50475 3.5965 0.60125 1 32636 5692 20760 20828 36727 36727 0.05112456588403802 TMDPVPKEL 9 Unmodified _TMDPVPKEL_ 0 0 0 REV__ENSG00000171316|ENST00000423902|CHD7 REV__ENSG00000171316|ENST00000423902|CHD7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.26953125 2 515.267893 1028.52123 3.3418 0.0017219 0.29185 0.00015038 3.6337 0.0018723 515.2675644937211 36.546 0.29036 37.34 37.149 37.44 0.79342 23 14 3 0 0 0 0.46674 1 16572 16572 13.042 0 1 273600 + 32637 13488 20761 20829 36728 36728 0.00811274614420654 TMFLLYFVFLI 11 Unmodified _TMFLLYFVFLI_ 0 0 0 nc|ENSG00000074621|O60721-3|SLC24A1;nc|ENSG00000074621|O60721-2|SLC24A1;ENSG00000074621|ENST00000261892|SLC24A1 nc|ENSG00000074621|O60721-3|SLC24A1 nc|ENSG00000074621|O60721-3|SLC24A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.59967041015625 3 469.597932 1405.77197 2.8263 0.0013272 -0.1436 -6.7436E-05 2.6827 0.0012598 469.9319909110842 38.388 0.45622 39.186 38.984 39.441 0.79762 28 20 2 0 0 0 0.83518 1 17424 17424 2.4348 0 1 613640 32638 820 20762 20830 36729 36729 0.08531278607006243 TMGRAHMA 8 Unmodified _TMGRAHMA_ 0 0 0 ENSG00000072840|ENST00000264956|EVC ENSG00000072840|ENST00000264956|EVC ENSG00000072840|ENST00000264956|EVC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 874.4052734375 1 874.402203 873.394927 4.7487 0.0041523 -0.91389 -0.00079911 3.8348 0.0033532 874.4012010466005 103.63 0.066734 103.95 103.92 103.99 0.31863 13 6 4 0 0 0 0.7471 1 47907 47907 0.79363 0 1 3496800 32639 797 20763 20831 36730 36730 -0.046835103718763094 TMGRAHMA 8 Unmodified _TMGRAHMA_ 0 0 0 ENSG00000072840|ENST00000264956|EVC ENSG00000072840|ENST00000264956|EVC ENSG00000072840|ENST00000264956|EVC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 874.4048461914062 1 874.402203 873.394927 4.1581 0.0036358 -0.96951 -0.00084775 3.1886 0.0027881 874.4011078541881 103.58 0.050049 104.18 104.16 104.21 0.59821 12 4 4 0 0 0 0.7471 1 47913 47913 0.79363 0 1 3877300 32640 797 20763 20831 36731 36731 -0.046835103718763094 TMIGKIWLTIL 11 Unmodified _TMIGKIWLTIL_ 0 0 0 nc|ENSG00000131233|P57773-2|GJA9;ENSG00000131233|ENST00000357771|GJA9 nc|ENSG00000131233|P57773-2|GJA9 nc|ENSG00000131233|P57773-2|GJA9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 644.8887329101562 2 644.888509 1287.76247 NaN NaN NaN NaN NaN NaN NaN 34.424 1 34.678 34.178 35.178 0.25389 0 0 0 1.0072 1 15680 15680 1.3295 0 1 32641 2647 20764 20832 36732 36732 0.1300951032148987 TMLGKFYHF 9 Unmodified _TMLGKFYHF_ 0 0 0 nc|ENSG00000163913|Q9HBG6-11|IFT122;ENST00000506507.5_1_3:129168750-129233481:+|nuORF;nc|ENSG00000163913|Q9HBG6-3|IFT122;nc|ENSG00000163913|Q9HBG6-6|IFT122;ENSG00000163913|ENST00000348417|IFT122;nc|ENSG00000163913|Q9HBG6-5|IFT122;nc|ENSG00000163913|Q9HBG6-7|IFT122;nc|ENSG00000163913|Q9HBG6-10|IFT122;nc|ENSG00000163913|Q9HBG6-8|IFT122;nc|ENSG00000163913|Q9HBG6-9|IFT122;nc|ENSG00000163913|Q9HBG6-4|IFT122 nc|ENSG00000163913|Q9HBG6-11|IFT122 nc|ENSG00000163913|Q9HBG6-11|IFT122 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.8608703613281 3 381.860039 1142.55829 2.6229 0.0010016 0.14472 5.5265E-05 2.7677 0.0010569 381.86001070254366 56.04 0.29121 56.04 55.891 56.182 0 55 19 4 0 0 0 0.12301 2 25754 25754;25800 26.268 20.034 1 1571500 32642 4261 20765 20833 36733;36734 36733 -0.007290090491778756 TMLGKFYHF 9 Unmodified _TMLGKFYHF_ 0 0 0 nc|ENSG00000163913|Q9HBG6-11|IFT122;ENST00000506507.5_1_3:129168750-129233481:+|nuORF;nc|ENSG00000163913|Q9HBG6-3|IFT122;nc|ENSG00000163913|Q9HBG6-6|IFT122;ENSG00000163913|ENST00000348417|IFT122;nc|ENSG00000163913|Q9HBG6-5|IFT122;nc|ENSG00000163913|Q9HBG6-7|IFT122;nc|ENSG00000163913|Q9HBG6-10|IFT122;nc|ENSG00000163913|Q9HBG6-8|IFT122;nc|ENSG00000163913|Q9HBG6-9|IFT122;nc|ENSG00000163913|Q9HBG6-4|IFT122 nc|ENSG00000163913|Q9HBG6-11|IFT122 nc|ENSG00000163913|Q9HBG6-11|IFT122 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 572.2874145507812 2 572.28642 1142.55829 3.4252 0.0019602 -0.087172 -4.9888E-05 3.338 0.0019103 572.2863349855074 56.049 0.24665 56.049 55.891 56.138 0 34 16 3 0 0 0 0.027384 1 25795 25795 58.679 42.53 1 726010 32643 4261 20765 20833 36735 36735 -0.007290090491778756 TMLGKFYHF 9 Unmodified _TMLGKFYHF_ 0 0 0 nc|ENSG00000163913|Q9HBG6-11|IFT122;ENST00000506507.5_1_3:129168750-129233481:+|nuORF;nc|ENSG00000163913|Q9HBG6-3|IFT122;nc|ENSG00000163913|Q9HBG6-6|IFT122;ENSG00000163913|ENST00000348417|IFT122;nc|ENSG00000163913|Q9HBG6-5|IFT122;nc|ENSG00000163913|Q9HBG6-7|IFT122;nc|ENSG00000163913|Q9HBG6-10|IFT122;nc|ENSG00000163913|Q9HBG6-8|IFT122;nc|ENSG00000163913|Q9HBG6-9|IFT122;nc|ENSG00000163913|Q9HBG6-4|IFT122 nc|ENSG00000163913|Q9HBG6-11|IFT122 nc|ENSG00000163913|Q9HBG6-11|IFT122 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.8609619140625 3 381.860039 1142.55829 2.1049 0.00080376 0.16838 6.4299E-05 2.2732 0.00086806 381.8601318497768 54.888 0.30944 55.683 55.538 55.848 0.79552 37 20 3 0 0 0 0.22507 2 25036 25036;25089 20.415 17.679 1 1425800 32644 4261 20765 20833 36736;36737 36736 -0.007290090491778756 TMLGKFYHF 9 Unmodified _TMLGKFYHF_ 0 0 0 nc|ENSG00000163913|Q9HBG6-11|IFT122;ENST00000506507.5_1_3:129168750-129233481:+|nuORF;nc|ENSG00000163913|Q9HBG6-3|IFT122;nc|ENSG00000163913|Q9HBG6-6|IFT122;ENSG00000163913|ENST00000348417|IFT122;nc|ENSG00000163913|Q9HBG6-5|IFT122;nc|ENSG00000163913|Q9HBG6-7|IFT122;nc|ENSG00000163913|Q9HBG6-10|IFT122;nc|ENSG00000163913|Q9HBG6-8|IFT122;nc|ENSG00000163913|Q9HBG6-9|IFT122;nc|ENSG00000163913|Q9HBG6-4|IFT122 nc|ENSG00000163913|Q9HBG6-11|IFT122 nc|ENSG00000163913|Q9HBG6-11|IFT122 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 381.860039 1142.55829 2.7494 0.0010499 0.02371 9.054E-06 2.7731 0.0010589 382.19441985664315 55.342 0.16906 56.01 55.89 56.059 0.66798 0.099 -0.0001129 NaN 26.268 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 521770 32645 4261 20765 20833 -0.007290090491778756 TMLVRHGV 8 Unmodified _TMLVRHGV_ 0 0 0 ENSG00000115423|ENST00000389394|DNAH6;DNAH6|p.R2893Pfs*33|1|0.06|ENSG00000115423|chr2:84705697-84705698|-/CTTATCATATTCTAAAA|frameshift_variant;nc|ENSG00000115423|Q9C0G6-4|DNAH6 ENSG00000115423|ENST00000389394|DNAH6 ENSG00000115423|ENST00000389394|DNAH6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 304.5372009277344 3 304.840979 911.501106 1.9714 0.00060096 2.8956 0.00088269 4.867 0.0014837 304.84208619972617 38.044 0.26281 38.678 38.466 38.729 0.63388 10 8 2 0 0 0 0.14313 1 17421 17421 1.6526 0 1 92913 32646 271 20766 20834 36738 36738 0.04181568465116925 TMNEKLKKF 9 Unmodified _TMNEKLKKF_ 0 0 0 ENSG00000137563|ENST00000260118|GGH ENSG00000137563|ENST00000260118|GGH ENSG00000137563|ENST00000260118|GGH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.81982421875 2 569.818084 1137.62162 3.8984 0.0022214 -0.32423 -0.00018475 3.5742 0.0020366 569.8179935597342 45.747 0.2546 46.398 46.214 46.468 0.65104 12 8 2 0 0 0 1.0041 1 20979 20979 3.9444 0 1 247230 32647 3025 20767 20835 36739 36739 0.0583093166803792 TMQPIERKRQG 11 Unmodified _TMQPIERKRQG_ 0 0 0 nc|ENSG00000198399|Q9NZM3-3|ITSN2;ITSN2|p.G1340Efs*9|1|0.18|ENSG00000198399|chr2:24212720-24212720|C/-|frameshift_variant;nc|ENSG00000198399|Q9NZM3-2|ITSN2;ENSG00000198399|ENST00000355123|ITSN2 nc|ENSG00000198399|Q9NZM3-3|ITSN2 nc|ENSG00000198399|Q9NZM3-3|ITSN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 672.3635864257812 2 672.364253 1342.71395 NaN NaN NaN NaN NaN NaN NaN 87.732 1 88.41 87.91 88.91 0.67818 0 0 0 1.0075 1 40409 40409 0.96228 0 1 32648 5888 20768 20836 36740 36740 0.05630409734294517 TMREAGQSGLQ 11 Unmodified _TMREAGQSGLQ_ 0 0 0 ENST00000484285.2_1_9:38622091-38622535:+|nuORF ENST00000484285.2_1_9:38622091-38622535:+|nuORF ENST00000484285.2_1_9:38622091-38622535:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.2844848632812 2 589.285137 1176.55572 NaN NaN NaN NaN NaN NaN NaN 68.829 1 69.084 68.584 69.584 0.25443 0 0 0 1.0063 1 31530 31530 2.4985 0.65425 1 32649 8323 20769 20837 36741 36741 -0.02549509244795445 TMRLYKLTRNK 11 Unmodified _TMRLYKLTRNK_ 0 0 0 REV__ENST00000520726.1_1_3:169521807-169526495:-|nuORF REV__ENST00000520726.1_1_3:169521807-169526495:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 356.9623107910156 4 356.710511 1422.81294 2.535 0.00090427 0.23101 8.2404E-05 2.766 0.00098668 356.7105155844958 62.287 0.92123 62.536 61.884 62.805 0.24965 195 99 3 0 0 0 0.91104 2 28332 28332;28440 1.2148 0.588 1 96393000 + 32650 13512 20770 20838 36742;36743 36742 0.11844432699172103 TMRLYKLTRNK 11 Unmodified _TMRLYKLTRNK_ 0 0 0 REV__ENST00000520726.1_1_3:169521807-169526495:-|nuORF REV__ENST00000520726.1_1_3:169521807-169526495:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.2798156738281 3 475.278256 1422.81294 2.9589 0.0014063 0.42576 0.00020235 3.3846 0.0016086 475.6128185910362 61.648 0.57549 62.308 61.8 62.376 0.66008 73 42 2 0 0 0 0.89544 2 28127 28127;28188 2.6312 0.20126 1 21955000 + 32651 13512 20770 20838 36744;36745 36744 0.11844432699172103 TMRPYIQEQ 9 Unmodified _TMRPYIQEQ_ 0 0 0 nc|ENSG00000114841|Q9P2D7-6|DNAH1;ENST00000486752.5_1_3:52350520-52422757:+|nuORF;nc|ENSG00000114841|Q9P2D7-8|DNAH1;ENSG00000114841|ENST00000420323|DNAH1 nc|ENSG00000114841|Q9P2D7-6|DNAH1 nc|ENSG00000114841|Q9P2D7-6|DNAH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.20166015625 3 389.193858 1164.55974 NaN NaN NaN NaN NaN NaN NaN 103.07 1 103.07 102.57 103.57 0 0 0 0 0.91059 1 56845 56845 0.96228 0 1 32652 1925 20771 20839 36746 36746 -0.015954197510609447 TMRRKRRRKMW 11 Unmodified _TMRRKRRRKMW_ 0 0 0 REV__ENST00000456150.5_1_3:47618647-47618728:-|nuORF REV__ENST00000456150.5_1_3:47618647-47618728:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 803.0225219726562 2 802.96428 1603.91401 NaN NaN NaN NaN NaN NaN NaN 55.686 1 55.686 55.186 56.186 0 0 0 0 1.0082 1 25606 25606 0 0 1 + 32653 16451 20772 20840 36747 36747 0.13620605920891649 TMSGVTTCLRF 11 Carbamidomethyl (C) _TMSGVTTC(Carbamidomethyl (C))LRF_ TMSGVTTC(1)LRF TMSGVTTC(73)LRF 0 1 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;ENSG00000261456|ENST00000568584|TUBB8;ENSG00000173213|ENST00000308911|TUBB8B;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 636.8087158203125 2 636.80739 1271.60023 3.9708 0.0025286 -0.11774 -7.4978E-05 3.8531 0.0024537 636.8071871097787 57.665 0.24768 58.333 58.225 58.473 0.66829 30 15 2 0 0 0 0.002913 2 26371 26371;26425 73.196 44.661 1 856800 32654 5660;1452 20773 20841 36748;36749 36748 35 -0.024708214230031444 TMSGVTTCLRF 11 Carbamidomethyl (C) _TMSGVTTC(Carbamidomethyl (C))LRF_ 0 1 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;ENSG00000261456|ENST00000568584|TUBB8;ENSG00000173213|ENST00000308911|TUBB8B;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 636.80739 1271.60023 3.6946 0.0023527 0.20787 0.00013238 3.9024 0.0024851 636.8078280796135 58.564 0.16987 58.564 58.454 58.624 0 0.11546 0.00022456 NaN 73.196 22 14 2 NaN NaN NaN NaN 0 NaN NaN 0 744920 32655 5660;1452 20773 20841 35 -0.024708214230031444 TMTFNGIMI 9 Unmodified _TMTFNGIMI_ 0 0 0 ENST00000457130.2_1_X:143922607-143922673:+|nuORF ENST00000457130.2_1_X:143922607-143922673:+|nuORF ENST00000457130.2_1_X:143922607-143922673:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.2515258789062 2 514.251188 1026.48782 3.2568 0.0016748 -1.7001 -0.00087428 1.5567 0.00080052 514.2498129469283 81.722 0.21743 81.97 81.759 81.976 0.24803 14 9 2 0 0 0 0.29781 1 37584 37584 16.942 0 1 309280 32656 8057 20774 20842 36750 36750 -0.024360504291507823 TMTKARKR 8 Unmodified _TMTKARKR_ 0 0 0 nc|ENSG00000105549|Q9P2T0-2|SPMAP2;THEG|p.W321Cfs*55|1|0.07|ENSG00000105549|chr19:362380-362381|-/TAAACAC|frameshift_variant;ENSG00000105549|ENST00000342640|THEG nc|ENSG00000105549|Q9P2T0-2|SPMAP2 nc|ENSG00000105549|Q9P2T0-2|SPMAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.2001953125 3 331.199166 990.575668 2.4879 0.00082398 1.6667 0.000552 4.1545 0.001376 331.19918057772287 29.22 0.55455 29.48 29.255 29.809 0.2602 85 33 4 0 0 0 0.7441 1 13243 13243 1.4819 1.4819 1 863950 32657 1505 20775 20843 36751 36751 0.08000331276491579 TMTKKWYLI 9 Unmodified _TMTKKWYLI_ 0 0 0 REV__ENST00000369536.9_1_6:88273858-88273927:-|nuORF REV__ENST00000369536.9_1_6:88273858-88273927:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 395.2236633300781 3 395.222977 1182.6471 NaN NaN NaN NaN NaN NaN NaN 32.076 1 32.864 32.364 33.364 0.78795 0 0 0 0.91059 1 14500 14500 0.96228 0 1 + 32658 15706 20776 20844 36752 36752 0.06308406190487403 TMTSGRFLKIL 11 Unmodified _TMTSGRFLKIL_ 0 0 0 ENST00000360060.7_1_3:145791117-145794654:-|nuORF ENST00000360060.7_1_3:145791117-145794654:-|nuORF ENST00000360060.7_1_3:145791117-145794654:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.8682861328125 2 633.865566 1265.71658 3.4479 0.0021855 1.2039 0.00076314 4.6519 0.0029487 633.8665371265464 34.257 0.088928 34.257 34.225 34.314 0 7 4 2 0 0 0 0.82535 1 15546 15546 5.7319 0.83484 1 395690 32659 7208 20777 20845 36753 36753 0.0943486513924654 TMTSGRFLKIL 11 Unmodified _TMTSGRFLKIL_ 0 0 0 ENST00000360060.7_1_3:145791117-145794654:-|nuORF ENST00000360060.7_1_3:145791117-145794654:-|nuORF ENST00000360060.7_1_3:145791117-145794654:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.86962890625 2 633.865566 1265.71658 3.1454 0.0019938 1.3272 0.00084129 4.4726 0.0028351 633.8670839526071 33.306 0.19006 34.094 33.996 34.186 0.78795 30 12 3 0 0 0 0.26146 1 15063 15063 26.268 6.9062 1 536600 32660 7208 20777 20845 36754 36754 0.0943486513924654 TMTSGRFLKIL 11 Unmodified _TMTSGRFLKIL_ 0 0 0 ENST00000360060.7_1_3:145791117-145794654:-|nuORF ENST00000360060.7_1_3:145791117-145794654:-|nuORF ENST00000360060.7_1_3:145791117-145794654:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.8681030273438 2 633.865566 1265.71658 3.7618 0.0023845 0.14578 9.2406E-05 3.9075 0.0024769 633.8657004159246 33.582 0.22556 34.202 34.079 34.304 0.62031 17 7 3 0 0 0 0.58424 1 15385 15385 16.149 4.6544 1 435570 32661 7208 20777 20845 36755 36755 0.0943486513924654 TMVEKRVL 8 Unmodified _TMVEKRVL_ 0 0 0 ENST00000284384.6_1_17:64637544-64770230:+|nuORF;nc|ENSG00000065675|Q04759-3|PRKCQ;nc|ENSG00000065675|Q04759-2|PRKCQ;nc|ENSG00000166501|P05771|PRKCB;ENSG00000154229|ENST00000413366|PRKCA;ENSG00000166501|ENST00000643927|PRKCB;ENSG00000163932|ENST00000330452|PRKCD;ENSG00000065675|ENST00000263125|PRKCQ;nc|ENSG00000163932|Q05655-2|PRKCD ENST00000284384.6_1_17:64637544-64770230:+|nuORF ENST00000284384.6_1_17:64637544-64770230:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.2882995605469 2 488.28642 974.558287 NaN NaN NaN NaN NaN NaN NaN 20.534 1 21.187 20.687 21.687 0.65346 0 0 0 0.92256 1 9325 9325 10.824 2.2306 1 32662 696 20778 20846 36756 36756 0.06998990950819461 TMWKRWLAL 9 Unmodified _TMWKRWLAL_ 0 0 0 ENST00000485968.5_1_3:120142908-120169791:-|nuORF;ENST00000467994.1_1_3:120160167-120169791:-|nuORF;ENST00000464690.5_1_3:120129559-120169830:-|nuORF ENST00000485968.5_1_3:120142908-120169791:-|nuORF ENST00000485968.5_1_3:120142908-120169791:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 602.838134765625 2 602.836611 1203.65867 3.8428 0.0023166 -0.51881 -0.00031276 3.324 0.0020038 602.8359634483224 66.415 0.1587 66.664 66.542 66.701 0.24848 11 7 2 0 0 0 0.1776 1 30431 30431 26.268 16.194 1 345560 32663 8118 20779 20847 36757 36757 0.06498648004503593 TMWKRWLAL 9 Unmodified _TMWKRWLAL_ 0 0 0 ENST00000485968.5_1_3:120142908-120169791:-|nuORF;ENST00000467994.1_1_3:120160167-120169791:-|nuORF;ENST00000464690.5_1_3:120129559-120169830:-|nuORF ENST00000485968.5_1_3:120142908-120169791:-|nuORF ENST00000485968.5_1_3:120142908-120169791:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 602.836611 1203.65867 3.9588 0.0023865 0.23928 0.00014425 4.1981 0.0025307 603.337666671994 65.749 0.12982 66.405 66.328 66.458 0.65672 -0.12926 0.00067359 NaN 26.268 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 484080 32664 8118 20779 20847 0.06498648004503593 TNEEREGEDYM 11 Unmodified _TNEEREGEDYM_ 0 0 0 REV__SMCHD1|p.E1080_I1081insENT|1|0.06|ENSG00000101596|chr18:2732455-2732456|-/AGAAAACAC|inframe_insertion REV__SMCHD1|p.E1080_I1081insENT|1|0.06|ENSG00000101596|chr18:2732455-2732456|-/AGAAAACAC|inframe_insertion MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 686.7716674804688 2 686.769713 1371.52487 NaN NaN NaN NaN NaN NaN NaN 9.1044 1 9.1044 8.6044 9.6044 0 0 0 0 1.0082 1 4109 4109 0 0 1 + 32665 18214 20780 20848 36758 36758 -0.14602752140331177 TNGGAEPR 8 Unmodified _TNGGAEPR_ 0 0 0 ENSG00000108239|ENST00000225235|TBC1D12 ENSG00000108239|ENST00000225235|TBC1D12 ENSG00000108239|ENST00000225235|TBC1D12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 401.19696044921875 2 401.196116 800.37768 NaN NaN NaN NaN NaN NaN NaN 32.375 1 32.375 31.875 32.875 0 0 0 0 0.99035 1 14661 14661 4.756 0 1 32666 1625 20781 20849 36759 36759 -0.030493913816712848 TNIPMLLPKPK 11 Unmodified _TNIPMLLPKPK_ 0 0 0 REV__ENSG00000276231|ENST00000619866|PIK3R6 REV__ENSG00000276231|ENST00000619866|PIK3R6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 417.9228515625 3 417.921298 1250.74206 3.7775 0.0015787 0.69516 0.00029052 4.4726 0.0018692 417.9215800975659 109.68 1.4478 109.99 108.85 110.3 0.31015 70 58 2 0 0 0 0.91459 1 50462 50462 0.094841 0.094841 1 122710 + 32667 14741 20782 20850 36760 36760 0.12672339661639853 TNIVDQRVAL 10 Unmodified _TNIVDQRVAL_ 0 0 0 REV__ENSG00000095564|ENST00000265990|BTAF1 REV__ENSG00000095564|ENST00000265990|BTAF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.8230590820312 2 564.822212 1127.62987 4.4095 0.0024906 -3.2455 -0.0018331 1.164 0.00065748 564.8204442670701 102.78 0.16348 103.1 103 103.16 0.31863 12 7 2 0 0 0 0.9146 1 47524 47524 2.9952 0.69251 1 980080 + 32668 10765 20783 20851 36761 36761 0.07116201909047959 TNIVKWIMKQ 10 Unmodified _TNIVKWIMKQ_ 0 0 0 nc|ENSG00000126838|P20742-2|PZP;ENSG00000126838|ENST00000261336|PZP nc|ENSG00000126838|P20742-2|PZP nc|ENSG00000126838|P20742-2|PZP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 630.8622436523438 2 630.860283 1259.70601 3.424 0.00216 -0.086639 -5.4657E-05 3.3373 0.0021054 630.8601997926933 104.48 0.30894 104.48 104.33 104.64 0 28 21 2 0 0 0 0.93628 1 57480 57480 1.6526 0 1 477920 32669 2467 20784 20852 36762 36762 0.08654882484825066 TNIVKWIMKQ 10 Unmodified _TNIVKWIMKQ_ 0 0 0 nc|ENSG00000126838|P20742-2|PZP;ENSG00000126838|ENST00000261336|PZP nc|ENSG00000126838|P20742-2|PZP nc|ENSG00000126838|P20742-2|PZP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 630.863037109375 2 630.860283 1259.70601 4.0598 0.0025612 0.33114 0.0002089 4.3909 0.0027701 630.8602381217045 103.97 0.054337 104.57 104.53 104.58 0.59821 16 11 2 0 0 0 0.93628 1 48073 48073 1.6526 0.32309 1 631200 32670 2467 20784 20852 36763 36763 0.08654882484825066 TNKIWPYVYAF 11 Unmodified _TNKIWPYVYAF_ 0 0 0 ENSG00000147853|ENST00000381809|AK3;nc|ENSG00000147853|Q9UIJ7-2|AK3;nc|ENSG00000147853|Q9UIJ7-3|AK3 ENSG00000147853|ENST00000381809|AK3 ENSG00000147853|ENST00000381809|AK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 701.36572265625 2 701.363713 1400.71287 4.6336 0.0032499 1.7037 0.0011949 6.3374 0.0044448 701.3647020213563 104.61 0.13123 104.93 104.88 105.01 0.31863 36 27 2 0 0 0 0.9102 1 48282 48282 1.4819 0.15237 1 667440 32671 3583 20785 20853 36764 36764 0.028545186370593 TNKKPVIL 8 Unmodified _TNKKPVIL_ 0 0 0 L1MD2_dup3931|chr7:382708-385046:+|1.236162871048498|0.3102442397353085|1.99|537.0|81|3|sense L1MD2_dup3931|chr7:382708-385046:+|1.236162871048498|0.3102442397353085|1.99|537.0|81|3|sense L1MD2_dup3931|chr7:382708-385046:+|1.236162871048498|0.3102442397353085|1.99|537.0|81|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.8682556152344 3 304.867411 911.580402 1.9731 0.00060153 0.65731 0.00020039 2.6304 0.00080192 304.8676459581628 14.421 0.14989 14.728 14.683 14.833 0.3069 11 6 2 0 0 0 0.52777 1 6540 6540 20.415 1.1575 1 395610 32672 9447 20786 20854 36765 36765 0.1210753869090695 TNKKTKPKS 9 Unmodified _TNKKTKPKS_ 0 0 0 ENSG00000163602|ENST00000477973|RYBP;nc|ENSG00000163602|Q8N488|RYBP ENSG00000163602|ENST00000477973|RYBP ENSG00000163602|ENST00000477973|RYBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 344.54583740234375 3 344.545108 1030.61349 2.5933 0.0008935 0.17178 5.9187E-05 2.7651 0.00095269 344.54505664954195 95.204 0.35043 95.822 95.618 95.968 0.61736 40 17 3 0 0 0 1.129 1 43801 43801 0.96228 0 1 1462600 32673 4228 20787 20855 36766 36766 0.0994112074295117 TNKVHAIPL 9 Unmodified _TNKVHAIPL_ 0 0 0 nc|ENSG00000111664|P16520-2|GNB3;nc|ENSG00000078369|P62873-2|GNB1;ENSG00000172354|ENST00000303210|GNB2;ENSG00000111664|ENST00000229264|GNB3;ENSG00000078369|ENST00000378609|GNB1 nc|ENSG00000111664|P16520-2|GNB3 nc|ENSG00000111664|P16520-2|GNB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.8711242675781 3 331.534431 991.581465 2.4 0.0007957 0.52764 0.00017493 2.9277 0.00097063 331.5344287476918 28.72 0.21638 29.509 29.411 29.627 0.78921 27 17 2 0 0 0 0.98958 1 12952 12952 4.1895 0.24511 1 158970 32674 877 20788 20856 36767 36767 0.08533753059816718 TNKVHAIPL 9 Unmodified _TNKVHAIPL_ 0 0 0 nc|ENSG00000111664|P16520-2|GNB3;nc|ENSG00000078369|P62873-2|GNB1;ENSG00000172354|ENST00000303210|GNB2;ENSG00000111664|ENST00000229264|GNB3;ENSG00000078369|ENST00000378609|GNB1 nc|ENSG00000111664|P16520-2|GNB3 nc|ENSG00000111664|P16520-2|GNB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.8004150390625 2 496.798009 991.581465 3.3186 0.0016487 1.1319 0.0005623 4.4504 0.002211 496.79841856051985 29.282 0.43942 29.542 29.37 29.809 0.2602 43 26 2 0 0 0 0.068032 1 13346 13346 51.63 26.23 1 537850 32675 877 20788 20856 36768 36768 0.08533753059816718 TNKVHAIPL 9 Unmodified _TNKVHAIPL_ 0 0 0 nc|ENSG00000111664|P16520-2|GNB3;nc|ENSG00000078369|P62873-2|GNB1;ENSG00000172354|ENST00000303210|GNB2;ENSG00000111664|ENST00000229264|GNB3;ENSG00000078369|ENST00000378609|GNB1 nc|ENSG00000111664|P16520-2|GNB3 nc|ENSG00000111664|P16520-2|GNB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.800048828125 2 496.798009 991.581465 3.1931 0.0015863 0.99728 0.00049545 4.1904 0.0020818 496.79812557402 28.946 0.25851 29.564 29.486 29.744 0.61789 38 21 3 0 0 0 0.026853 1 13265 13265 56.177 23.872 1 841850 32676 877 20788 20856 36769 36769 0.08533753059816718 TNKVHAIPL 9 Unmodified _TNKVHAIPL_ 0 0 0 nc|ENSG00000111664|P16520-2|GNB3;nc|ENSG00000078369|P62873-2|GNB1;ENSG00000172354|ENST00000303210|GNB2;ENSG00000111664|ENST00000229264|GNB3;ENSG00000078369|ENST00000378609|GNB1 nc|ENSG00000111664|P16520-2|GNB3 nc|ENSG00000111664|P16520-2|GNB3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 496.798009 991.581465 3.2826 0.0016308 1.266 0.00062893 4.5486 0.0022597 496.7982016011068 29.8 0.097511 29.8 29.758 29.856 0 0.18984 6.944E-05 NaN 56.177 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 151430 32677 877 20788 20856 0.08533753059816718 TNKVHAIPL 9 Unmodified _TNKVHAIPL_ 0 0 0 nc|ENSG00000111664|P16520-2|GNB3;nc|ENSG00000078369|P62873-2|GNB1;ENSG00000172354|ENST00000303210|GNB2;ENSG00000111664|ENST00000229264|GNB3;ENSG00000078369|ENST00000378609|GNB1 nc|ENSG00000111664|P16520-2|GNB3 nc|ENSG00000111664|P16520-2|GNB3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 496.798009 991.581465 3.1805 0.00158 2.0008 0.00099398 5.1812 0.002574 496.7983841314992 28.746 0.20116 29.535 29.444 29.646 0.78921 -0.074945 0.00079954 NaN 56.177 26 16 2 NaN NaN NaN NaN 0 NaN NaN 0 140000 32678 877 20788 20856 0.08533753059816718 TNLRFYKV 8 Unmodified _TNLRFYKV_ 0 0 0 REV__nc|ENSG00000074603|Q6V1X1-6|DPP8 REV__nc|ENSG00000074603|Q6V1X1-6|DPP8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.53594970703125 3 347.534431 1039.58147 2.719 0.00094496 0.88538 0.0003077 3.6044 0.0012527 347.53478620476534 47.588 1.0115 47.851 47.124 48.136 0.26363 131 51 3 0 0 0 0.7471 1 21671 21671 1.1933 0.23107 1 5903100 + 32679 10516 20789 20857 36770 36770 0.06325753059786621 TNLRSGTWMMT 11 Unmodified _TNLRSGTWMMT_ 0 0 0 nc|ENSG00000215041|Q96JN8-2|NEURL4;ENSG00000215041|ENST00000399464|NEURL4 nc|ENSG00000215041|Q96JN8-2|NEURL4 nc|ENSG00000215041|Q96JN8-2|NEURL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 433.2054138183594 3 433.205769 1296.59548 NaN NaN NaN NaN NaN NaN NaN 79.213 1 79.874 79.374 80.374 0.66082 0 0 0 1.0075 1 36500 36500 1.0136 0.38675 1 32680 6126 20790 20858 36771 36771 -0.040957055657599994 TNNTFVTFLV 10 Unmodified _TNNTFVTFLV_ 0 0 0 REV__ENST00000417788.5_1_22:22024636-22041216:+|nuORF REV__ENST00000417788.5_1_22:22024636-22041216:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.307373046875 2 578.305864 1154.59717 4.1836 0.0024194 -0.50143 -0.00028998 3.6822 0.0021294 578.3050949484063 102.37 0.11131 102.69 102.64 102.75 0.31737 5 3 2 0 0 0 0.93628 1 47369 47369 1.6526 0 1 173420 + 32681 10798 20791 20859 36772 36772 0.026059947861767796 TNNTFVTFLV 10 Unmodified _TNNTFVTFLV_ 0 0 0 REV__ENST00000417788.5_1_22:22024636-22041216:+|nuORF REV__ENST00000417788.5_1_22:22024636-22041216:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 578.305864 1154.59717 4.1836 0.0024194 -0.50143 -0.00028998 3.6822 0.0021294 578.3050949484063 102.37 0.11131 102.69 102.64 102.75 0.31737 -0.11527 -0.00014746 NaN 1.6526 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 173420 + 32682 10798 20791 20859 0.026059947861767796 TNNTFVTFLV 10 Unmodified _TNNTFVTFLV_ 0 0 0 REV__ENST00000417788.5_1_22:22024636-22041216:+|nuORF REV__ENST00000417788.5_1_22:22024636-22041216:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 578.305864 1154.59717 3.8744 0.0022406 0.47611 0.00027534 4.3505 0.0025159 578.808462443835 102.32 0.084335 102.92 102.89 102.97 0.59759 0.11527 0.00098317 NaN 1.6526 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 203140 + 32683 10798 20791 20859 0.026059947861767796 TNQFSKLLL 9 Unmodified _TNQFSKLLL_ 0 0 0 REV__nc|ENSG00000033122|Q96NW7-2|LRRC7 REV__nc|ENSG00000033122|Q96NW7-2|LRRC7 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.7918090820312 2 532.310949 1062.60735 2.9117 0.0015499 0.97546 0.00051925 3.8871 0.0020692 532.3117659584095 46.748 0.29071 46.748 46.585 46.876 0 22 10 3 0 0 0 0.085001 1 21351 21351 19.257 0 1 855370 + 32684 10296 20792 20860 36773 36773 0.0785460251142922 TNQFSKLLL 9 Unmodified _TNQFSKLLL_ 0 0 0 REV__nc|ENSG00000033122|Q96NW7-2|LRRC7 REV__nc|ENSG00000033122|Q96NW7-2|LRRC7 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.792724609375 2 532.310949 1062.60735 3.5648 0.0018976 -0.21332 -0.00011355 3.3514 0.001784 532.3110445770398 46.012 0.2356 46.663 46.534 46.77 0.65104 12 6 2 0 0 0 0.067591 1 21059 21059 25.399 0 1 498380 + 32685 10296 20792 20860 36774 36774 0.0785460251142922 TNQIYTNEI 9 Unmodified _TNQIYTNEI_ 0 0 0 ENST00000374791.7_1_11:132205045-132205564:+|nuORF ENST00000374791.7_1_11:132205045-132205564:+|nuORF ENST00000374791.7_1_11:132205045-132205564:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.6678466796875 2 548.269478 1094.5244 3.0886 0.0016934 0.33102 0.00018149 3.4197 0.0018749 548.269684817286 47.247 0.40284 48.076 47.857 48.26 0.82915 67 24 4 0 0 0 0.071101 1 21445 21445 39.957 3.4511 1 6177000 32686 7386 20793 20861 36775 36775 -0.019077590072356543 TNRRRVKP 8 Unmodified _TNRRRVKP_ 0 0 0 REV__CDKAL1|p.M405Nfs*39|1|0.1|ENSG00000145996|chr6:21065205-21065206|-/ACAATACCTTACAAGAAAAAGATCTTACCACTTGTGC|frameshift_variant REV__CDKAL1|p.M405Nfs*39|1|0.1|ENSG00000145996|chr6:21065205-21065206|-/ACAATACCTTACAAGAAAAAGATCTTACCACTTGTGC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8191528320312 2 513.817599 1025.62064 NaN NaN NaN NaN NaN NaN NaN 4.1572 1 4.7798 4.2798 5.2798 0.62252 0 0 0 0.99035 1 1887 1887 0.79363 0 1 + 32687 9999 20794 20862 36776 36776 0.10885898134029048 TNSELSYTF 9 Unmodified _TNSELSYTF_ 0 0 0 ENSG00000120328|ENST00000239450|PCDHB12 ENSG00000120328|ENST00000239450|PCDHB12 ENSG00000120328|ENST00000239450|PCDHB12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.2439575195312 2 531.242929 1060.47131 3.1891 0.0016942 0.19749 0.00010492 3.3866 0.0017991 531.2429769280074 28.959 0.37905 29.748 29.575 29.954 0.78921 67 29 3 0 0 0 0.36069 1 13051 13051 14.838 0.93222 1 574440 32688 2189 20795 20863 36777 36777 -0.056511367899020115 TNSELSYTF 9 Unmodified _TNSELSYTF_ 0 0 0 ENSG00000120328|ENST00000239450|PCDHB12 ENSG00000120328|ENST00000239450|PCDHB12 ENSG00000120328|ENST00000239450|PCDHB12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.244384765625 2 531.242929 1060.47131 3.2525 0.0017279 0.091582 4.8653E-05 3.3441 0.0017765 531.2429306493223 29.329 0.37914 29.947 29.769 30.148 0.61789 62 26 3 0 0 0 0.30982 1 13442 13442 16.149 1.3108 1 838140 32689 2189 20795 20863 36778 36778 -0.056511367899020115 TNSWNGGPCSC 11 Unmodified _TNSWNGGPCSC_ 0 0 0 REV__nc|ENSG00000223806|Q6XXX2|LINC00114 REV__nc|ENSG00000223806|Q6XXX2|LINC00114 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.2105712890625 2 563.208041 1124.40153 3.54 0.0019937 -1.415 -0.00079694 2.125 0.0011968 563.2071481150911 52.21 0.1835 52.472 52.426 52.609 0.26227 21 12 2 0 0 0 0.89309 1 23880 23880 2.7352 0.43246 1 937990 + 32690 18136 20796 20864 36779 36779 -0.15569662001803408 TNTLRILAL 9 Unmodified _TNTLRILAL_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.82061767578125 2 507.818941 1013.62333 3.571 0.0018134 -0.022896 -1.1627E-05 3.5481 0.0018018 507.8188167996705 68.653 0.31056 68.905 68.741 69.052 0.25227 49 21 3 0 0 0 4.2125E-14 2 31426 31426;31475 171.09 82.132 1 2414000 32691 5704 20797 20865 36780;36781 36780 0.1170630874833023 TNTLRILAL 9 Unmodified _TNTLRILAL_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.8204040527344 2 507.818941 1013.62333 3.1885 0.0016192 0.41496 0.00021072 3.6034 0.0018299 507.8190714743137 68.066 0.33086 68.726 68.555 68.886 0.65924 53 22 3 0 0 0 1.5885E-05 2 31214 31163;31214 145.13 59.858 1 2451300 32692 5704 20797 20865 36782;36783 36783 0.1170630874833023 TNTLSKLK 8 Unmodified _TNTLSKLK_ 0 0 0 CON__ENSEMBL:ENSBTAP00000037665 CON__ENSEMBL:ENSBTAP00000037665 CON__ENSEMBL:ENSBTAP00000037665 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 302.19757080078125 3 302.18692 903.538931 NaN NaN NaN NaN NaN NaN NaN 59.215 1 59.474 58.974 59.974 0.2593 0 0 0 0.99035 1 27116 27116 0.45834 0 1 + 32693 210 20798 20866 36784 36784 0.08330357931572507 TNVFPLVTK 9 Unmodified _TNVFPLVTK_ 0 0 0 REV__ENSG00000160255|ENST00000652462|ITGB2 REV__ENSG00000160255|ENST00000652462|ITGB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 340.2038879394531 3 340.20257 1017.58588 NaN NaN NaN NaN NaN NaN NaN 57.045 1 57.823 57.323 58.323 0.77786 0 0 0 0.8974 1 26097 26097 4.1895 0.59301 1 + 32694 12870 20799 20867 36785 36785 0.07779217482720924 TNVKKPRG 8 Unmodified _TNVKKPRG_ 0 0 0 REV__ZBTB24|p.V199Cfs*3|1|0.29|ENSG00000112365|chr6:109481432-109481433|-/A|frameshift_variant REV__ZBTB24|p.V199Cfs*3|1|0.29|ENSG00000112365|chr6:109481432-109481433|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.2759704589844 2 450.274701 898.534849 2.3708 0.0010675 0.26678 0.00012013 2.6376 0.0011876 450.2747576375502 89.089 0.40902 89.089 88.882 89.291 0 127 60 3 0 0 0 0.70799 1 46546 46546 5.2307 0 1 41634000 + 32695 11272 20800 20868 36786 36786 0.08152313228526964 TPAESDFQL 9 Unmodified _TPAESDFQL_ 0 0 0 nc|ENSG00000152767|Q9Y4F1-2|FARP1;ENSG00000152767|ENST00000319562|FARP1 nc|ENSG00000152767|Q9Y4F1-2|FARP1 nc|ENSG00000152767|Q9Y4F1-2|FARP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.23895263671875 2 504.237647 1006.46074 3.2964 0.0016621 -0.053069 -2.6759E-05 3.2433 0.0016354 504.2376397831888 57.911 0.22999 58.579 58.4 58.63 0.66829 19 11 2 0 0 0 0.038142 1 26498 26498 52.268 6.2474 1 948600 32696 9693 20801 20869 36787 36787 -0.042231194443274944 TPAESDFQL 9 Unmodified _TPAESDFQL_ 0 0 0 nc|ENSG00000152767|Q9Y4F1-2|FARP1;ENSG00000152767|ENST00000319562|FARP1 nc|ENSG00000152767|Q9Y4F1-2|FARP1 nc|ENSG00000152767|Q9Y4F1-2|FARP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 504.237647 1006.46074 2.9995 0.0015125 -0.19556 -9.8608E-05 2.8039 0.0014139 504.2375817517517 58.695 0.30959 58.695 58.514 58.824 0 0.057824 -9.5761E-05 NaN 52.268 35 27 2 NaN NaN NaN NaN 0 NaN NaN 0 797360 32697 9693 20801 20869 -0.042231194443274944 TPAGDIMEL 9 Unmodified _TPAGDIMEL_ 0 0 0 ENST00000576921.1_1_16:3072866-3073436:-|nuORF;nc|ENSG00000103145|Q9NWW0-2|HCFC1R1;ENSG00000103145|ENST00000248089|HCFC1R1 ENST00000576921.1_1_16:3072866-3073436:-|nuORF ENST00000576921.1_1_16:3072866-3073436:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 946.4580688476562 1 946.45501 945.447733 3.8537 0.0036474 -0.68357 -0.00064697 3.1702 0.0030004 946.4545915062821 66.768 0.24732 67.424 67.335 67.583 0.65672 19 13 2 0 0 0 0.0063783 1 30624 30624 88.904 46.809 1 419950 32698 1378 20802 20870 36788 36788 -0.02717273828056932 TPAKLANFPE 10 Unmodified _TPAKLANFPE_ 0 0 0 nc|ENSG00000132768|Q9BQC3-3|DPH2;ENSG00000132768|ENST00000255108|DPH2 nc|ENSG00000132768|Q9BQC3-3|DPH2 nc|ENSG00000132768|Q9BQC3-3|DPH2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.296142578125 2 544.292756 1086.57096 3.6526 0.0019881 0.2244 0.00012214 3.877 0.0021102 544.2927976320457 47.709 0.5457 47.972 47.913 48.459 0.26363 36 25 2 0 0 0 0.81759 1 21980 21980 7.609 0.50723 1 889100 32699 9643 20803 20871 36789 36789 0.031137256147076187 TPALDKLEILR 11 Unmodified _TPALDKLEILR_ 0 0 0 nc|ENSG00000133640|Q96JM4-2|LRRIQ1;ENSG00000133640|ENST00000393217|LRRIQ1;ENST00000525971.6_1_12:85431954-85518298:+|nuORF nc|ENSG00000133640|Q96JM4-2|LRRIQ1 nc|ENSG00000133640|Q96JM4-2|LRRIQ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 634.8817138671875 2 634.88227 1267.74999 NaN NaN NaN NaN NaN NaN NaN 47.289 1 47.552 47.052 48.052 0.26363 0 0 0 1.0059 1 21610 21610 2.9952 0.49676 1 32700 2766 20804 20872 36790 36790 0.1268219018279524 TPAPASRI 8 Unmodified _TPAPASRI_ 0 0 0 REV__ENST00000442977.6_1_8:107460190-107460223:+|nuORF REV__ENST00000442977.6_1_8:107460190-107460223:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.7370910644531 2 406.734877 811.455202 2.278 0.00092652 2.7514 0.0011191 5.0293 0.0020456 406.7361095599325 12.698 0.20967 13.005 12.848 13.058 0.30727 12 6 3 0 0 0 0.47217 1 5739 5739 23.148 2.2772 1 843910 + 32701 16358 20805 20873 36791 36791 0.04193246554507368 TPASPDPLL 9 Unmodified _TPASPDPLL_ 0 0 0 REV__nc|ENSG00000090534|P40225-3|THPO REV__nc|ENSG00000090534|P40225-3|THPO MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 455.74957275390625 2 455.74765 909.480748 NaN NaN NaN NaN NaN NaN NaN 33.156 1 33.41 32.91 33.91 0.25389 0 0 0 0.82031 1 15097 15097 8.5933 0 1 + 32702 10712 20806 20874 36792 36792 0.02238676286287955 TPDDCRRLN 9 Unmodified _TPDDCRRLN_ 0 0 0 nc|ENSG00000171320|Q56NI9-2|ESCO2 nc|ENSG00000171320|Q56NI9-2|ESCO2 nc|ENSG00000171320|Q56NI9-2|ESCO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.2597045898438 2 545.258922 1088.50329 NaN NaN NaN NaN NaN NaN NaN 27.438 1 27.701 27.201 28.201 0.26245 0 0 0 0.86621 1 12474 12474 6.7232 0.51738 1 32703 9753 20807 20875 36793 36793 -0.03742047587752495 TPDDDDDDD 9 Unmodified _TPDDDDDDD_ 0 0 0 REV__ENSG00000143061|ENST00000369486|IGSF3 REV__ENSG00000143061|ENST00000369486|IGSF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.6580810546875 2 511.657081 1021.29961 NaN NaN NaN NaN NaN NaN NaN 85.091 1 85.091 84.591 85.591 0 0 0 0 0.90611 1 43230 43230 2.0598 0 1 + 32704 12353 20808 20876 36794 36794 -0.21018958338891025 TPDDDDDDDE 10 Unmodified _TPDDDDDDDE_ 0 0 0 REV__ENSG00000143061|ENST00000369486|IGSF3 REV__ENSG00000143061|ENST00000369486|IGSF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.0303955078125 2 576.178377 1150.3422 NaN NaN NaN NaN NaN NaN NaN 101.75 1 102.07 101.57 102.57 0.31737 0 0 0 1.0001 1 47079 47079 1.6526 0 1 + 32705 12353 20809 20877 36795 36795 -0.2269560800129966 TPDEIDHVF 9 Unmodified _TPDEIDHVF_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;PARP14|p.F753Sfs*5|1|0.07|ENSG00000173193|chr3:122700811-122700812|-/C|frameshift_variant;PARP14|p.P265Lfs*7|1|0.33|ENSG00000173193|chr3:122695616-122695616|T/-|frameshift_variant nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.7523803710938 2 536.750921 1071.48729 2.9492 0.001583 0.28135 0.00015101 3.2305 0.001734 536.7510238442911 52.377 0.29878 52.377 52.229 52.527 0 65 22 4 0 0 0 4.452E-21 3 23977 23934;23977;24025 180.01 136.15 1 7122800 32706 4917 20810 20878 36796;36797;36798 36797 -0.04559430552990307 TPDEIDHVF 9 Unmodified _TPDEIDHVF_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;PARP14|p.F753Sfs*5|1|0.07|ENSG00000173193|chr3:122700811-122700812|-/C|frameshift_variant;PARP14|p.P265Lfs*7|1|0.33|ENSG00000173193|chr3:122695616-122695616|T/-|frameshift_variant nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.7522583007812 2 536.750921 1071.48729 2.5625 0.0013754 0.1432 7.686E-05 2.7056 0.0014523 536.751045180636 51.406 0.3647 52.224 52.06 52.425 0.81738 79 24 4 0 0 0 2.7959000000000002E-30 3 23418 23375;23418;23466 196.65 149.05 1 8993900 32707 4917 20810 20878 36799;36800;36801 36800 -0.04559430552990307 TPDEIDHVF 9 Unmodified _TPDEIDHVF_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;PARP14|p.F753Sfs*5|1|0.07|ENSG00000173193|chr3:122700811-122700812|-/C|frameshift_variant;PARP14|p.P265Lfs*7|1|0.33|ENSG00000173193|chr3:122695616-122695616|T/-|frameshift_variant nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.7526245117188 2 536.750921 1071.48729 2.9789 0.0015989 0.40318 0.00021641 3.382 0.0018153 536.7511382612405 52.227 0.47553 52.49 52.279 52.754 0.26227 91 25 5 0 0 0 1.1871000000000001E-68 4 23903 23811;23856;23903;23957 234.68 186.34 1 39476000 32708 4917 20810 20878 36802;36803;36804;36805 36804 -0.04559430552990307 TPDEIDHVF 9 Unmodified _TPDEIDHVF_ 0 0 0 nc|ENSG00000173193|Q460N5-4|PARP14;nc|ENSG00000173193|Q460N5-1|PARP14;ENSG00000173193|ENST00000474629|PARP14;PARP14|p.F753Sfs*5|1|0.07|ENSG00000173193|chr3:122700811-122700812|-/C|frameshift_variant;PARP14|p.P265Lfs*7|1|0.33|ENSG00000173193|chr3:122695616-122695616|T/-|frameshift_variant nc|ENSG00000173193|Q460N5-4|PARP14 nc|ENSG00000173193|Q460N5-4|PARP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.7527465820312 2 536.750921 1071.48729 3.0677 0.0016466 0.36375 0.00019524 3.4314 0.0018418 536.751152689333 51.684 0.58049 52.345 52.08 52.66 0.66189 109 33 5 0 0 0 1.1871000000000001E-68 5 23595 23540;23595;23646;23693;23748 234.68 186.34 1 25536000 32709 4917 20810 20878 36806;36807;36808;36809;36810 36807 -0.04559430552990307 TPDFALPI 8 Unmodified _TPDFALPI_ 0 0 0 REV__nc|ENSG00000196498|Q9Y618-5|NCOR2 REV__nc|ENSG00000196498|Q9Y618-5|NCOR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.7418518066406 2 437.239461 872.46437 2.6452 0.0011566 0.20255 8.8561E-05 2.8478 0.0012452 437.2394733641813 80.315 0.82278 80.564 80.206 81.029 0.24947 122 52 3 0 0 0 0.65723 1 37157 37157 9.3474 0 1 2027600 + 32710 14222 20811 20879 36811 36811 0.023035951202018623 TPDGSINWIPN 11 Unmodified _TPDGSINWIPN_ 0 0 0 REV__nc|ENSG00000173482|P28827|PTPRM REV__nc|ENSG00000173482|P28827|PTPRM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 607.2958984375 2 607.296027 1212.5775 NaN NaN NaN NaN NaN NaN NaN 82.369 1 82.369 81.869 82.869 0 0 0 0 1.0007 1 41213 41213 8.1555 1.9497 1 + 32711 13600 20812 20880 36812 36812 -0.020283812245679655 TPDGTEKGDFL 11 Unmodified _TPDGTEKGDFL_ 0 0 0 ENST00000447818.2_1_X:79828255-79829731:-|nuORF;ENSG00000159399|ENST00000290573|HK2 ENST00000447818.2_1_X:79828255-79829731:-|nuORF ENST00000447818.2_1_X:79828255-79829731:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.2820434570312 2 590.280043 1178.54553 3.4992 0.0020655 0.23995 0.00014164 3.7391 0.0022071 590.2800920960524 40.069 0.48805 40.069 39.823 40.311 0 56 18 4 0 0 0 6.7622E-33 3 18190 18144;18190;18239 168.9 119.35 1 3500100 32712 4021 20813 20881 36813;36814;36815 36814 -0.03659793698375324 TPDGTEKGDFL 11 Unmodified _TPDGTEKGDFL_ 0 0 0 ENST00000447818.2_1_X:79828255-79829731:-|nuORF;ENSG00000159399|ENST00000290573|HK2 ENST00000447818.2_1_X:79828255-79829731:-|nuORF ENST00000447818.2_1_X:79828255-79829731:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.2819213867188 2 590.280043 1178.54553 3.437 0.0020288 0.055082 3.2514E-05 3.4921 0.0020613 590.280054283977 38.983 0.53012 39.78 39.488 40.018 0.79762 78 25 4 0 0 0 6.7622E-33 4 17672 17576;17622;17672;17731 168.9 122.88 1 2754500 32713 4021 20813 20881 36816;36817;36818;36819 36818 -0.03659793698375324 TPDGTEKGDFL 11 Unmodified _TPDGTEKGDFL_ 0 0 0 ENST00000447818.2_1_X:79828255-79829731:-|nuORF;ENSG00000159399|ENST00000290573|HK2 ENST00000447818.2_1_X:79828255-79829731:-|nuORF ENST00000447818.2_1_X:79828255-79829731:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 590.2818603515625 2 590.280043 1178.54553 3.6772 0.0021706 -0.22471 -0.00013264 3.4525 0.0020379 590.2799479863377 39.965 0.52391 40.232 39.934 40.458 0.26696 53 20 4 0 0 0 4.0781E-82 3 18188 18134;18188;18235 218.93 161.21 1 6502300 32714 4021 20813 20881 36820;36821;36822 36821 -0.03659793698375324 TPDGTEKGDFL 11 Unmodified _TPDGTEKGDFL_ 0 0 0 ENST00000447818.2_1_X:79828255-79829731:-|nuORF;ENSG00000159399|ENST00000290573|HK2 ENST00000447818.2_1_X:79828255-79829731:-|nuORF ENST00000447818.2_1_X:79828255-79829731:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.2823486328125 2 590.280043 1178.54553 3.8507 0.002273 -0.28242 -0.0001667 3.5683 0.0021063 590.2798440864642 39.523 0.49022 40.16 39.861 40.352 0.63778 57 21 3 0 0 0 1.2393999999999999E-66 3 18046 17988;18046;18096 205.73 156.18 1 5651100 32715 4021 20813 20881 36823;36824;36825 36824 -0.03659793698375324 TPDGTSSEYDS 11 Unmodified _TPDGTSSEYDS_ 0 0 0 ENSG00000196576|ENST00000359337|PLXNB2 ENSG00000196576|ENST00000359337|PLXNB2 ENSG00000196576|ENST00000359337|PLXNB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.724365234375 2 579.725298 1157.43604 NaN NaN NaN NaN NaN NaN NaN 87.246 1 87.246 86.746 87.746 0 0 0 0 1.0041 1 44934 44934 5.2969 0.54088 1 32716 5758 20814 20882 36826 36826 -0.13637844108347963 TPDHLEPRL 9 Unmodified _TPDHLEPRL_ 0 0 0 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.8619689941406 3 359.861096 1076.56146 2.7348 0.00098413 -0.1428 -5.139E-05 2.592 0.00093274 359.8611215444921 32.117 0.38974 32.117 31.864 32.254 0 91 40 3 0 0 0 0.016363 3 14518 14476;14518;14564 73.196 47.199 1 2048200 32717 3293 20815 20883 36827;36828;36829 36828 0.026239573292059504 TPDHLEPRL 9 Unmodified _TPDHLEPRL_ 0 0 0 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.2899780273438 2 539.288005 1076.56146 3.3313 0.0017966 0.50622 0.000273 3.8376 0.0020695 539.2881220414437 32.125 0.27844 32.125 31.899 32.178 0 37 26 2 0 0 0 0.031195 1 14515 14515 59.368 44.53 1 551720 32718 3293 20815 20883 36830 36830 0.026239573292059504 TPDHLEPRL 9 Unmodified _TPDHLEPRL_ 0 0 0 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 359.8622131347656 3 359.861096 1076.56146 2.4468 0.00088051 0.11997 4.3173E-05 2.5668 0.00092368 359.8611825791489 31.186 0.34849 31.975 31.758 32.106 0.78879 72 26 3 0 0 0 0.020921 3 14070 14033;14070;14117 67.081 35.445 1 2122400 32719 3293 20815 20883 36831;36832;36833 36832 0.026239573292059504 TPDHLEPRL 9 Unmodified _TPDHLEPRL_ 0 0 0 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.2901000976562 2 539.288005 1076.56146 3.1647 0.0017067 0.71105 0.00038346 3.8758 0.0020902 539.2882654683776 31.167 0.33694 31.955 31.795 32.132 0.78879 41 25 2 0 0 0 0.018018 2 14095 14056;14095 67.838 47.385 1 333620 32720 3293 20815 20883 36834;36835 36835 0.026239573292059504 TPDHLEPRL 9 Unmodified _TPDHLEPRL_ 0 0 0 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.8623046875 3 359.861096 1076.56146 2.9793 0.0010722 -0.04992 -1.7964E-05 2.9294 0.0010542 359.8611719598745 31.942 0.42095 32.196 31.985 32.406 0.25452 64 27 3 0 0 0 0.027096 3 14573 14522;14573;14620 59.052 33.055 1 1703200 32721 3293 20815 20883 36836;36837;36838 36837 0.026239573292059504 TPDHLEPRL 9 Unmodified _TPDHLEPRL_ 0 0 0 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.2890625 2 539.288005 1076.56146 3.5298 0.0019036 0.78858 0.00042527 4.3184 0.0023288 539.28841899728 31.964 0.28167 32.218 32.071 32.353 0.25452 28 16 2 0 0 0 0.085344 1 14575 14575 38.615 23.776 1 391240 32722 3293 20815 20883 36839 36839 0.026239573292059504 TPDHLEPRL 9 Unmodified _TPDHLEPRL_ 0 0 0 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.86236572265625 3 359.861096 1076.56146 2.5243 0.00090841 0.051934 1.8689E-05 2.5763 0.0009271 359.8612430468942 31.383 0.35282 32 31.785 32.137 0.61736 55 22 3 0 0 0 0.027096 2 14397 14350;14397 59.052 33.055 1 1911600 32723 3293 20815 20883 36840;36841 36841 0.026239573292059504 TPDHLEPRL 9 Unmodified _TPDHLEPRL_ 0 0 0 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 ENSG00000142156|ENST00000361866|COL6A1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 539.288005 1076.56146 3.3166 0.0017886 0.58917 0.00031773 3.9058 0.0021063 539.2882982773145 31.374 0.27358 31.991 31.836 32.11 0.61737 -0.081238 -6.6643E-05 NaN 67.838 28 16 2 NaN NaN NaN NaN 0 NaN NaN 0 342070 32724 3293 20815 20883 0.026239573292059504 TPDKNDYEF 9 Unmodified _TPDKNDYEF_ 0 0 0 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.7483520507812 2 564.745836 1127.47712 3.1231 0.0017637 0.34099 0.00019257 3.4641 0.0019563 564.7462212816185 34.184 0.43985 34.184 33.914 34.354 0 50 26 3 0 0 0 3.9104E-05 2 15504 15443;15504 137.42 82.65 1 2332500 32725 821 20816 20884 36842;36843 36843 -0.0815203827824007 TPDKNDYEF 9 Unmodified _TPDKNDYEF_ 0 0 0 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.7478637695312 2 564.745836 1127.47712 3.0951 0.0017479 0.79759 0.00045044 3.8927 0.0021984 564.7462031799655 33.075 0.54423 33.863 33.616 34.16 0.78795 87 34 3 0 0 0 0.0017155 4 14947 14896;14947;14995;15043 107.1 61.079 1 1697100 32726 821 20816 20884 36844;36845;36846;36847 36845 -0.0815203827824007 TPDKNDYEF 9 Unmodified _TPDKNDYEF_ 0 0 0 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.7481689453125 2 564.745836 1127.47712 3.5801 0.0020218 -0.098196 -5.5456E-05 3.4819 0.0019664 564.7458421905203 34.149 0.46795 34.403 34.14 34.608 0.25389 36 21 2 0 0 0 0.0043297 3 15550 15485;15550;15603 93.166 51.21 1 1846300 32727 821 20816 20884 36848;36849;36850 36849 -0.0815203827824007 TPDKNDYEF 9 Unmodified _TPDKNDYEF_ 0 0 0 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 ENSG00000074695|ENST00000251047|LMAN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.7476806640625 2 564.745836 1127.47712 3.4341 0.0019394 0.31057 0.00017539 3.7447 0.0021148 564.7459203916301 33.686 0.56491 34.306 33.992 34.557 0.62031 53 24 3 0 0 0 2.9434E-05 3 15406 15348;15406;15462 140.63 85.86 1 1006600 32728 821 20816 20884 36851;36852;36853 36852 -0.0815203827824007 TPDLPDQVL 9 Unmodified _TPDLPDQVL_ 0 0 0 nc|ENSG00000109756|Q9Y4G8|RAPGEF2;ENSG00000109756|ENST00000691494|RAPGEF2 nc|ENSG00000109756|Q9Y4G8|RAPGEF2 nc|ENSG00000109756|Q9Y4G8|RAPGEF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.2657470703125 2 499.263665 996.512776 NaN NaN NaN NaN NaN NaN NaN 65.002 1 65.659 65.159 66.159 0.65672 0 0 0 0.30236 1 29800 29800 26.884 11.036 1 32729 1684 20817 20885 36854 36854 0.014380439694264169 TPDPDANGL 9 Unmodified _TPDPDANGL_ 0 0 0 nc|ENSG00000038427|P13611-5|VCAN;ENSG00000038427|ENST00000265077|VCAN;ENST00000513016.5_1_5:82832752-82876250:+|nuORF;nc|ENSG00000038427|P13611-2|VCAN nc|ENSG00000038427|P13611-5|VCAN nc|ENSG00000038427|P13611-5|VCAN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.20989990234375 2 450.208889 898.403226 2.568 0.0011561 0.13398 6.032E-05 2.702 0.0012165 450.2090503340044 32.511 0.25102 33.299 33.142 33.393 0.78795 23 17 2 0 0 0 0.22507 1 14699 14699 21.747 6.9084 1 332240 32730 521 20818 20886 36855 36855 -0.050039616499134354 TPDPDANGL 9 Unmodified _TPDPDANGL_ 0 0 0 nc|ENSG00000038427|P13611-5|VCAN;ENSG00000038427|ENST00000265077|VCAN;ENST00000513016.5_1_5:82832752-82876250:+|nuORF;nc|ENSG00000038427|P13611-2|VCAN nc|ENSG00000038427|P13611-5|VCAN nc|ENSG00000038427|P13611-5|VCAN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.210693359375 2 450.208889 898.403226 2.9921 0.0013471 -0.36272 -0.0001633 2.6293 0.0011838 450.2091517774474 32.627 0.221 33.246 33.155 33.376 0.61831 19 10 2 0 0 0 0.22507 1 14971 14971 21.747 10.632 1 124450 32731 521 20818 20886 36856 36856 -0.050039616499134354 TPDPSANISL 10 Unmodified _TPDPSANISL_ 0 0 0 ENSG00000143799|ENST00000366794|PARP1;ENST00000491816.1_1_1:226549163-226549875:-|nuORF;ENST00000468608.1_1_1:226549491-226550854:-|nuORF;ENST00000490921.5_1_1:226549163-226553858:-|nuORF ENSG00000143799|ENST00000366794|PARP1 ENSG00000143799|ENST00000366794|PARP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.76104736328125 2 507.758746 1013.50294 2.8428 0.0014435 0.5152 0.0002616 3.358 0.0017051 507.759015499627 53.964 0.30693 54.76 54.587 54.894 0.79552 29 14 3 0 0 0 0.018878 1 24625 24625 81.89 31.035 1 486410 32732 3393 20819 20887 36857 36857 -0.003271440359412736 TPDPSANISL 10 Unmodified _TPDPSANISL_ 0 0 0 ENSG00000143799|ENST00000366794|PARP1;ENST00000491816.1_1_1:226549163-226549875:-|nuORF;ENST00000468608.1_1_1:226549491-226550854:-|nuORF;ENST00000490921.5_1_1:226549163-226553858:-|nuORF ENSG00000143799|ENST00000366794|PARP1 ENSG00000143799|ENST00000366794|PARP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.7602844238281 2 507.758746 1013.50294 3.1512 0.0016001 -0.35024 -0.00017784 2.801 0.0014222 507.7585646721311 54.119 0.1964 54.785 54.663 54.859 0.6665 19 10 2 0 0 0 0.075518 1 24770 24770 56.177 10.156 1 812890 32733 3393 20819 20887 36858 36858 -0.003271440359412736 TPDPSRSVF 9 Unmodified _TPDPSRSVF_ 0 0 0 ENST00000581645.5_1_17:45915212-45916069:-|nuORF;nc|ENSG00000141295|Q96FV2-2|SCRN2;ENSG00000141295|ENST00000290216|SCRN2 ENST00000581645.5_1_17:45915212-45916069:-|nuORF ENST00000581645.5_1_17:45915212-45916069:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 503.256103515625 2 503.253631 1004.49271 3.0847 0.0015524 1.6155 0.00081301 4.7002 0.0023654 503.25406840015074 36.972 0.45606 36.972 36.712 37.168 0 35 18 3 0 0 0 0.057945 1 16769 16769 43.772 3.8151 1 507800 32734 3243 20820 20888 36859 36859 -0.009357069705174581 TPDPSRSVF 9 Unmodified _TPDPSRSVF_ 0 0 0 ENST00000581645.5_1_17:45915212-45916069:-|nuORF;nc|ENSG00000141295|Q96FV2-2|SCRN2;ENSG00000141295|ENST00000290216|SCRN2 ENST00000581645.5_1_17:45915212-45916069:-|nuORF ENST00000581645.5_1_17:45915212-45916069:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.2555847167969 2 503.253631 1004.49271 NaN NaN NaN NaN NaN NaN NaN 36.792 1 37.05 36.55 37.55 0.25768 0 0 0 0.37777 1 16758 16758 23.79 4.3508 1 32735 3243 20820 20888 36860 36860 -0.009357069705174581 TPDPSRSVF 9 Unmodified _TPDPSRSVF_ 0 0 0 ENST00000581645.5_1_17:45915212-45916069:-|nuORF;nc|ENSG00000141295|Q96FV2-2|SCRN2;ENSG00000141295|ENST00000290216|SCRN2 ENST00000581645.5_1_17:45915212-45916069:-|nuORF ENST00000581645.5_1_17:45915212-45916069:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.2558898925781 2 503.253631 1004.49271 NaN NaN NaN NaN NaN NaN NaN 36.917 1 37.174 36.674 37.674 0.25768 0 0 0 0.31736 1 16814 16814 26.268 0.86883 1 32736 3243 20820 20888 36861 36861 -0.009357069705174581 TPDPSRSVF 9 Unmodified _TPDPSRSVF_ 0 0 0 ENST00000581645.5_1_17:45915212-45916069:-|nuORF;nc|ENSG00000141295|Q96FV2-2|SCRN2;ENSG00000141295|ENST00000290216|SCRN2 ENST00000581645.5_1_17:45915212-45916069:-|nuORF ENST00000581645.5_1_17:45915212-45916069:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.2551574707031 2 503.253631 1004.49271 3.3635 0.0016927 0.52197 0.00026268 3.8855 0.0019554 503.25411731789393 36.224 0.31503 36.851 36.695 37.01 0.62631 14 9 2 0 0 0 0.15661 1 16598 16598 26.268 0.86883 1 296060 32737 3243 20820 20888 36862 36862 -0.009357069705174581 TPDPSRSVF 9 Unmodified _TPDPSRSVF_ 0 0 0 ENST00000581645.5_1_17:45915212-45916069:-|nuORF;nc|ENSG00000141295|Q96FV2-2|SCRN2;ENSG00000141295|ENST00000290216|SCRN2 ENST00000581645.5_1_17:45915212-45916069:-|nuORF ENST00000581645.5_1_17:45915212-45916069:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 503.253631 1004.49271 3.1617 0.0015912 0.59046 0.00029715 3.7522 0.0018883 503.2535942273194 35.982 0.26078 36.773 36.637 36.898 0.79131 -0.092241 -0.00033283 NaN 43.772 21 9 3 NaN NaN NaN NaN 0 NaN NaN 0 633400 32738 3243 20820 20888 -0.009357069705174581 TPDPSTPSRL 10 Unmodified _TPDPSTPSRL_ 0 0 0 ENST00000471162.5_1_3:49044864-49051550:+|nuORF;ENST00000420783.7_1_3:49044839-49051550:+|nuORF;ENSG00000178252|ENST00000608424|WDR6 ENST00000471162.5_1_3:49044864-49051550:+|nuORF ENST00000471162.5_1_3:49044864-49051550:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 535.7779541015625 2 535.77747 1069.54039 3.0482 0.0016332 0.89899 0.00048166 3.9472 0.0021148 535.7780359258111 26.309 0.26047 27.087 26.926 27.186 0.7787 30 22 2 0 0 0 0.69129 1 11800 11800 13.615 5.4593 1 147030 32739 5159 20821 20889 36863 36863 0.008399472296559907 TPDRIRWRRWR 11 Unmodified _TPDRIRWRRWR_ 0 0 0 ENST00000256858.10_2_18:59854532-59854781:+|nuORF ENST00000256858.10_2_18:59854532-59854781:+|nuORF ENST00000256858.10_2_18:59854532-59854781:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 799.45263671875 2 799.450374 1596.8862 NaN NaN NaN NaN NaN NaN NaN 95.955 1 95.955 95.455 96.455 0 0 0 0 1.008 1 51816 51816 0.35063 0.043601 1 32740 6525 20822 20890 36864 36864 0.11162742256669844 TPDSSHQNR 9 Unmodified _TPDSSHQNR_ 0 0 0 ENSG00000164603|ENST00000297145|BMT2 ENSG00000164603|ENST00000297145|BMT2 ENSG00000164603|ENST00000297145|BMT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.4280395507812 2 521.239044 1040.46353 NaN NaN NaN NaN NaN NaN NaN 102.73 1 103.33 102.83 103.83 0.59759 0 0 0 0.90611 1 47544 47544 2.0598 0 1 32741 4327 20823 20891 36865 36865 -0.055078512667932955 TPDWAERQL 9 Unmodified _TPDWAERQL_ 0 0 0 nc|ENSG00000179583|P33076-2|CIITA;ENST00000573309.5_1_16:10971115-11002148:+|nuORF;nc|ENSG00000179583|P33076-4|CIITA;ENST00000570546.5_1_16:10971115-11002148:+|nuORF;nc|ENSG00000179583|P33076|CIITA;ENSG00000179583|ENST00000324288|CIITA nc|ENSG00000179583|P33076-2|CIITA nc|ENSG00000179583|P33076-2|CIITA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.2794189453125 2 558.277638 1114.54072 3.3715 0.0018822 -0.16259 -9.0771E-05 3.2089 0.0017915 558.2775730717667 44.58 0.4806 44.849 44.606 45.087 0.2694 61 20 4 0 0 0 3.8284000000000004E-41 3 20375 20321;20375;20434 209.87 149.8 1 5878700 32742 5222 20824 20892 36866;36867;36868 36867 -0.01196633050494711 TPDWAERQL 9 Unmodified _TPDWAERQL_ 0 0 0 nc|ENSG00000179583|P33076-2|CIITA;ENST00000573309.5_1_16:10971115-11002148:+|nuORF;nc|ENSG00000179583|P33076-4|CIITA;ENST00000570546.5_1_16:10971115-11002148:+|nuORF;nc|ENSG00000179583|P33076|CIITA;ENSG00000179583|ENST00000324288|CIITA nc|ENSG00000179583|P33076-2|CIITA nc|ENSG00000179583|P33076-2|CIITA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.2792358398438 2 558.277638 1114.54072 NaN NaN NaN NaN NaN NaN NaN 44.821 1 45.089 44.589 45.589 0.26768 0 0 0 0.26309 1 20486 20486 28.495 9.2375 1 32743 5222 20824 20892 36869 36869 -0.01196633050494711 TPDWAERQL 9 Unmodified _TPDWAERQL_ 0 0 0 nc|ENSG00000179583|P33076-2|CIITA;ENST00000573309.5_1_16:10971115-11002148:+|nuORF;nc|ENSG00000179583|P33076-4|CIITA;ENST00000570546.5_1_16:10971115-11002148:+|nuORF;nc|ENSG00000179583|P33076|CIITA;ENSG00000179583|ENST00000324288|CIITA nc|ENSG00000179583|P33076-2|CIITA nc|ENSG00000179583|P33076-2|CIITA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.2796020507812 2 558.277638 1114.54072 3.6706 0.0020492 -0.1053 -5.8784E-05 3.5653 0.0019904 558.2776184991885 44.03 0.36906 44.679 44.524 44.893 0.64875 49 17 4 0 0 0 4.5073E-69 3 20197 20144;20197;20241 240.95 180.88 1 9126200 32744 5222 20824 20892 36870;36871;36872 36871 -0.01196633050494711 TPDYEDVFH 9 Unmodified _TPDYEDVFH_ 0 0 0 REV__nc|ENSG00000174775|P01112-2|HRAS REV__nc|ENSG00000174775|P01112-2|HRAS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.8301696777344 3 374.829461 1121.46655 3.0129 0.0011293 -1.0796 -0.00040468 1.9332 0.00072462 374.8293444705339 27.579 0.36156 27.579 27.334 27.696 0 76 29 4 0 0 0 0.95612 1 12460 12460 2.7352 1.6254 1 4604200 + 32745 11941 20825 20893 36873 36873 -0.08932020932661544 TPEELLHL 8 Unmodified _TPEELLHL_ 0 0 0 REV__nc|ENSG00000178104|Q5VU43-6|PDE4DIP REV__nc|ENSG00000178104|Q5VU43-6|PDE4DIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.84368896484375 3 317.843042 950.507297 2.0858 0.00066297 0.47052 0.00014955 2.5563 0.00081252 317.843107066125 15.609 0.77356 15.915 15.575 16.349 0.306 150 86 2 0 0 0 0.7471 1 7137 7137 1.8442 0 1 137590 + 32746 13753 20826 20894 36874 36874 0.03006365177634507 TPEEPEPEL 9 Unmodified _TPEEPEPEL_ 0 0 0 nc|ENSG00000140939|O60936|NOL3;nc|ENSG00000140939|O60936-3|NOL3 nc|ENSG00000140939|O60936|NOL3 nc|ENSG00000140939|O60936|NOL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.7457275390625 2 520.742762 1039.47097 3.1346 0.0016323 1.3633 0.00070995 4.498 0.0023423 521.2450791361327 45.189 0.35975 45.189 44.97 45.33 0 31 19 2 0 0 0 0.052704 1 20648 20648 46.021 6.0636 1 1608000 32747 9672 20827 20895 36875 36875 -0.04718556509737937 TPEEPEPEL 9 Unmodified _TPEEPEPEL_ 0 0 0 nc|ENSG00000140939|O60936|NOL3;nc|ENSG00000140939|O60936-3|NOL3 nc|ENSG00000140939|O60936|NOL3 nc|ENSG00000140939|O60936|NOL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.744384765625 2 520.742762 1039.47097 3.3266 0.0017323 0.033002 1.7186E-05 3.3596 0.0017495 520.7426482991681 44.156 0.33346 44.977 44.859 45.192 0.82074 47 18 3 0 0 0 3.2716E-05 1 20125 20125 139.54 65.121 1 898440 32748 9672 20827 20895 36876 36876 -0.04718556509737937 TPEEPEPEL 9 Unmodified _TPEEPEPEL_ 0 0 0 nc|ENSG00000140939|O60936|NOL3;nc|ENSG00000140939|O60936-3|NOL3 nc|ENSG00000140939|O60936|NOL3 nc|ENSG00000140939|O60936|NOL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.744384765625 2 520.742762 1039.47097 3.2448 0.0016897 -0.070077 -3.6492E-05 3.1747 0.0016532 520.7426413995075 45.013 0.41282 45.281 45.052 45.465 0.26768 36 20 2 0 0 0 3.2716E-05 3 20577 20523;20577;20626 139.54 61.388 1 1565100 32749 9672 20827 20895 36877;36878;36879 36878 -0.04718556509737937 TPEEPEPEL 9 Unmodified _TPEEPEPEL_ 0 0 0 nc|ENSG00000140939|O60936|NOL3;nc|ENSG00000140939|O60936-3|NOL3 nc|ENSG00000140939|O60936|NOL3 nc|ENSG00000140939|O60936|NOL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.7445068359375 2 520.742762 1039.47097 3.5288 0.0018376 0.16532 8.6087E-05 3.6941 0.0019237 520.7427558581247 44.476 0.37761 45.126 44.913 45.291 0.64998 38 15 3 0 0 0 0.0010612 2 20407 20336;20407 125.62 51.202 1 1301200 32750 9672 20827 20895 36880;36881 36881 -0.04718556509737937 TPEEPEPEL 9 Unmodified _TPEEPEPEL_ 0 0 0 nc|ENSG00000140939|O60936|NOL3;nc|ENSG00000140939|O60936-3|NOL3 nc|ENSG00000140939|O60936|NOL3 nc|ENSG00000140939|O60936|NOL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1040.4111328125 1 1040.47825 1039.47097 3.7033 0.0038532 0.54511 0.00056718 4.2485 0.0044204 1040.4779648865585 44.476 0.20805 45.126 45.014 45.223 0.64998 10 7 2 0 0 0 0.0063783 1 20367 20367 88.904 17.77 1 198540 32751 9672 20827 20895 36882 36882 -0.04718556509737937 TPEEVLKKYL 10 Unmodified _TPEEVLKKYL_ 0 0 0 nc|ENSG00000110042|Q9Y2E6-2|DTX4;ENSG00000110042|ENST00000227451|DTX4 nc|ENSG00000110042|Q9Y2E6-2|DTX4 nc|ENSG00000110042|Q9Y2E6-2|DTX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 407.2376708984375 3 407.23594 1218.68599 NaN NaN NaN NaN NaN NaN NaN 28.204 1 28.824 28.324 29.324 0.61947 0 0 0 0.99776 1 12933 12933 3.5871 0 1 32752 1695 20828 20896 36883 36883 0.08539410025855432 TPEPMPMSM 9 Unmodified _TPEPMPMSM_ 0 0 0 ENSG00000187498|ENST00000375820|COL4A1;ENST00000467182.1_1_13:110813537-110815831:-|nuORF;ENSG00000188153|ENST00000328300|COL4A5;nc|ENSG00000188153|P29400|COL4A5 ENSG00000187498|ENST00000375820|COL4A1;ENSG00000188153|ENST00000328300|COL4A5 ENSG00000188153|ENST00000328300|COL4A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.7151794433594 2 510.713581 1019.41261 NaN NaN NaN NaN NaN NaN NaN 58.655 1 58.655 58.155 59.155 0 0 0 0 2.7258E-05 1 27077 27077 112.59 78.406 1 32753 5616;5654 20829 20897 36884 36884 -0.09631975951867844 TPEPMPMSM 9 Unmodified _TPEPMPMSM_ 0 0 0 ENSG00000187498|ENST00000375820|COL4A1;ENST00000467182.1_1_13:110813537-110815831:-|nuORF;ENSG00000188153|ENST00000328300|COL4A5;nc|ENSG00000188153|P29400|COL4A5 ENSG00000187498|ENST00000375820|COL4A1;ENSG00000188153|ENST00000328300|COL4A5 ENSG00000188153|ENST00000328300|COL4A5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.7148742675781 2 510.713581 1019.41261 3.4005 0.0017367 -0.81706 -0.00041728 2.5834 0.0013194 510.71339379035857 57.785 0.31813 58.453 58.312 58.63 0.66829 43 18 3 0 0 0 0.0044949 1 26459 26459 92.822 66.481 1 1352100 32754 5616;5654 20829 20897 36885 36885 -0.09631975951867844 TPEPMPMSM 9 Unmodified _TPEPMPMSM_ 0 0 0 ENSG00000187498|ENST00000375820|COL4A1;ENST00000467182.1_1_13:110813537-110815831:-|nuORF;ENSG00000188153|ENST00000328300|COL4A5;nc|ENSG00000188153|P29400|COL4A5 ENSG00000187498|ENST00000375820|COL4A1;ENSG00000188153|ENST00000328300|COL4A5 ENSG00000188153|ENST00000328300|COL4A5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 510.713581 1019.41261 2.882 0.0014719 -0.57873 -0.00029556 2.3033 0.0011763 510.713817453198 57.73 0.16859 58.499 58.365 58.534 0.76861 0.022629 0.00020897 NaN 92.822 20 13 2 NaN NaN NaN NaN 0 NaN NaN 0 1083600 32755 5616;5654 20829 20897 -0.09631975951867844 TPEQFVDYA 9 Unmodified _TPEQFVDYA_ 0 0 0 ENSG00000178662|ENST00000651982|CSRNP3 ENSG00000178662|ENST00000651982|CSRNP3 ENSG00000178662|ENST00000651982|CSRNP3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.7452392578125 2 535.245472 1068.47639 3.093 0.0016555 0.01959 1.0485E-05 3.1126 0.001666 535.2462435488397 38.732 0.7322 38.732 38.424 39.156 0 74 31 3 0 0 0 0.10694 1 17745 17745 7.2892 7.2892 1 1206900 32756 5175 20830 20898 36886 36886 -0.05510832927279807 TPEQQAAIL 9 Unmodified _TPEQQAAIL_ 0 0 0 IRF9|p.S391P|1|0.21|ENSG00000213928|chr14:24166185-24166185|T/C|missense_variant;ENST00000560311.1_1_14:24634973-24635402:+|nuORF;ENST00000557894.5_1_14:24634074-24635402:+|nuORF;ENST00000561415.1_1_14:24633725-24635402:+|nuORF;ENSG00000213928|ENST00000396864|IRF9 IRF9|p.S391P|1|0.21|ENSG00000213928|chr14:24166185-24166185|T/C|missense_variant IRF9|p.S391P|1|0.21|ENSG00000213928|chr14:24166185-24166185|T/C|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.7662048339844 2 485.763832 969.513111 3.0882 0.0015001 -0.46856 -0.00022761 2.6196 0.0012725 485.76410466994065 46.388 0.28788 47.217 47.042 47.33 0.82915 37 15 3 0 0 0 0.034495 2 21099 21099;21154 53.833 6.0841 1 1962300 32757 6103 20831 20899 36887;36888 36887 0.027134636892810704 TPEQQAAIL 9 Unmodified _TPEQQAAIL_ 0 0 0 IRF9|p.S391P|1|0.21|ENSG00000213928|chr14:24166185-24166185|T/C|missense_variant;ENST00000560311.1_1_14:24634973-24635402:+|nuORF;ENST00000557894.5_1_14:24634074-24635402:+|nuORF;ENST00000561415.1_1_14:24633725-24635402:+|nuORF;ENSG00000213928|ENST00000396864|IRF9 IRF9|p.S391P|1|0.21|ENSG00000213928|chr14:24166185-24166185|T/C|missense_variant IRF9|p.S391P|1|0.21|ENSG00000213928|chr14:24166185-24166185|T/C|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.765869140625 2 485.763832 969.513111 3.3047 0.0016053 0.079064 3.8406E-05 3.3837 0.0016437 485.7638352640776 47.141 0.45998 47.404 47.182 47.642 0.26363 53 17 4 0 0 0 0.0020408 1 21498 21498 103.75 11.257 1 4781300 32758 6103 20831 20899 36889 36889 0.027134636892810704 TPEQQAAIL 9 Unmodified _TPEQQAAIL_ 0 0 0 IRF9|p.S391P|1|0.21|ENSG00000213928|chr14:24166185-24166185|T/C|missense_variant;ENST00000560311.1_1_14:24634973-24635402:+|nuORF;ENST00000557894.5_1_14:24634074-24635402:+|nuORF;ENST00000561415.1_1_14:24633725-24635402:+|nuORF;ENSG00000213928|ENST00000396864|IRF9 IRF9|p.S391P|1|0.21|ENSG00000213928|chr14:24166185-24166185|T/C|missense_variant IRF9|p.S391P|1|0.21|ENSG00000213928|chr14:24166185-24166185|T/C|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 970.5232543945312 1 970.520387 969.513111 3.8406 0.0037274 -0.18221 -0.00017684 3.6584 0.0035505 970.5203147962393 47.143 0.30903 47.407 47.247 47.556 0.26363 20 12 2 0 0 0 0.0024241 2 21576 21511;21576 99.799 49.004 1 577460 32759 6103 20831 20899 36890;36891 36891 0.027134636892810704 TPEQQAAIL 9 Unmodified _TPEQQAAIL_ 0 0 0 IRF9|p.S391P|1|0.21|ENSG00000213928|chr14:24166185-24166185|T/C|missense_variant;ENST00000560311.1_1_14:24634973-24635402:+|nuORF;ENST00000557894.5_1_14:24634074-24635402:+|nuORF;ENST00000561415.1_1_14:24633725-24635402:+|nuORF;ENSG00000213928|ENST00000396864|IRF9 IRF9|p.S391P|1|0.21|ENSG00000213928|chr14:24166185-24166185|T/C|missense_variant IRF9|p.S391P|1|0.21|ENSG00000213928|chr14:24166185-24166185|T/C|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.76531982421875 2 485.763832 969.513111 3.3186 0.0016121 -0.1607 -7.8062E-05 3.1579 0.001534 485.76370712864883 46.635 0.39708 47.287 47.072 47.469 0.65219 36 13 3 0 0 0 0.0046538 2 21356 21356;21421 92.491 5.0002 1 4986100 32760 6103 20831 20899 36892;36893 36892 0.027134636892810704 TPEQQAAIL 9 Unmodified _TPEQQAAIL_ 0 0 0 IRF9|p.S391P|1|0.21|ENSG00000213928|chr14:24166185-24166185|T/C|missense_variant;ENST00000560311.1_1_14:24634973-24635402:+|nuORF;ENST00000557894.5_1_14:24634074-24635402:+|nuORF;ENST00000561415.1_1_14:24633725-24635402:+|nuORF;ENSG00000213928|ENST00000396864|IRF9 IRF9|p.S391P|1|0.21|ENSG00000213928|chr14:24166185-24166185|T/C|missense_variant IRF9|p.S391P|1|0.21|ENSG00000213928|chr14:24166185-24166185|T/C|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 970.5247192382812 1 970.520387 969.513111 3.8832 0.0037687 0.37981 0.00036862 4.263 0.0041373 970.5205097183369 46.62 0.29036 47.272 47.113 47.403 0.65219 13 9 2 0 0 0 0.22824 1 21392 21392 21.537 5.6898 1 434780 32761 6103 20831 20899 36894 36894 0.027134636892810704 TPFHEIMSL 9 Unmodified _TPFHEIMSL_ 0 0 0 nc|ENSG00000156970|O60566-3|BUB1B;ENSG00000156970|ENST00000287598|BUB1B nc|ENSG00000156970|O60566-3|BUB1B nc|ENSG00000156970|O60566-3|BUB1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.7699584960938 2 537.76806 1073.52157 3.2195 0.0017314 1.3513 0.00072669 4.5708 0.002458 537.7683863747311 66.112 0.29412 66.361 66.191 66.485 0.24848 28 16 2 0 0 0 0.023109 1 30265 30265 64.236 13.381 1 868840 32762 3933 20832 20900 36895 36895 -0.012253056657300476 TPFHEIMSL 9 Unmodified _TPFHEIMSL_ 0 0 0 nc|ENSG00000156970|O60566-3|BUB1B;ENSG00000156970|ENST00000287598|BUB1B nc|ENSG00000156970|O60566-3|BUB1B nc|ENSG00000156970|O60566-3|BUB1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.768798828125 2 537.76806 1073.52157 3.3725 0.0018136 0.80631 0.00043361 4.1788 0.0022472 537.7678307862708 65.464 0.35518 66.121 65.935 66.29 0.65672 33 19 2 0 0 0 0.023109 1 29988 29988 64.236 6.765 1 711650 32763 3933 20832 20900 36896 36896 -0.012253056657300476 TPFIIALLRVQ 11 Unmodified _TPFIIALLRVQ_ 0 0 0 ENST00000591625.5_3_17:76993904-77001537:-|nuORF;ENST00000592033.5_1_17:76993706-77001537:-|nuORF;ENST00000588611.5_1_17:76993706-77001537:-|nuORF ENST00000591625.5_3_17:76993904-77001537:-|nuORF ENST00000591625.5_3_17:76993904-77001537:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 635.8953247070312 2 635.897723 1269.78089 NaN NaN NaN NaN NaN NaN NaN 18.452 1 18.452 17.952 18.952 0 0 0 0 1.0038 1 8198 8198 5.7319 2.4505 1 32764 9206 20833 20901 36897 36897 0.1567938828768547 TPFIRPVM 8 Unmodified _TPFIRPVM_ 0 0 0 ENSG00000205339|ENST00000379719|IPO7;ENST00000451446.1_1_13:24697062-24697869:-|nuORF ENSG00000205339|ENST00000379719|IPO7 ENSG00000205339|ENST00000379719|IPO7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.7721252441406 2 480.770406 959.526258 3.2249 0.0015504 0.28696 0.00013796 3.5119 0.0016884 480.77062650072486 55.002 0.1194 55.002 54.906 55.025 0 20 11 2 0 0 0 0.19187 1 25243 25243 43.858 20.71 1 677930 32765 6046 20834 20902 36898 36898 0.04487623267687013 TPFIRPVM 8 Unmodified _TPFIRPVM_ 0 0 0 ENSG00000205339|ENST00000379719|IPO7;ENST00000451446.1_1_13:24697062-24697869:-|nuORF ENSG00000205339|ENST00000379719|IPO7 ENSG00000205339|ENST00000379719|IPO7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.7715148925781 2 480.770406 959.526258 2.8258 0.0013585 0.13289 6.3888E-05 2.9587 0.0014224 480.77012691976205 53.748 0.27017 54.551 54.456 54.727 0.80351 22 11 3 0 0 0 0.29142 2 24521 24521;24585 36.127 13.164 1 729530 32766 6046 20834 20902 36899;36900 36899 0.04487623267687013 TPFIRPVM 8 Unmodified _TPFIRPVM_ 0 0 0 ENSG00000205339|ENST00000379719|IPO7;ENST00000451446.1_1_13:24697062-24697869:-|nuORF ENSG00000205339|ENST00000379719|IPO7 ENSG00000205339|ENST00000379719|IPO7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.7720642089844 2 480.770406 959.526258 2.7893 0.001341 -0.072097 -3.4662E-05 2.7172 0.0013063 480.77047730914654 54.691 0.30442 54.957 54.778 55.082 0.26543 62 29 3 0 0 0 0.029809 2 25008 24967;25008 78.149 46.032 1 5517900 32767 6046 20834 20902 36901;36902 36902 0.04487623267687013 TPFIRPVM 8 Unmodified _TPFIRPVM_ 0 0 0 ENSG00000205339|ENST00000379719|IPO7;ENST00000451446.1_1_13:24697062-24697869:-|nuORF ENSG00000205339|ENST00000379719|IPO7 ENSG00000205339|ENST00000379719|IPO7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.77166748046875 2 480.770406 959.526258 2.986 0.0014356 -0.39251 -0.00018871 2.5935 0.0012469 480.7701681657468 53.969 0.1829 54.635 54.555 54.738 0.6665 33 20 2 0 0 0 0.025972 2 24668 24668;24725 81.89 49.773 1 6514600 32768 6046 20834 20902 36903;36904 36903 0.04487623267687013 TPFPLLLLL 9 Unmodified _TPFPLLLLL_ 0 0 0 REV__ENST00000419525.5_1_2:27015485-27016144:+|nuORF REV__ENST00000419525.5_1_2:27015485-27016144:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 342.8750915527344 3 342.891445 1025.6525 2.4953 0.00085563 -2.7349 -0.00093779 -0.2396 -8.2155E-05 342.8907466226127 46.026 0.12019 46.292 46.232 46.352 0.26561 6 5 2 0 0 0 0.11293 1 21066 21066 2.4985 0 1 167130 + 32769 16158 20835 20903 36905 36905 0.14070453044632814 TPFPLLLLL 9 Unmodified _TPFPLLLLL_ 0 0 0 REV__ENST00000419525.5_1_2:27015485-27016144:+|nuORF REV__ENST00000419525.5_1_2:27015485-27016144:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 342.87530517578125 3 342.891445 1025.6525 2.6169 0.00089731 -3.2051 -0.001099 -0.58818 -0.00020168 342.89037886594707 45.421 0.11446 46.072 45.983 46.097 0.65104 8 5 2 0 0 0 0.10683 1 20807 20807 2.4985 0 1 133640 + 32770 16158 20835 20903 36906 36906 0.14070453044632814 TPHDFIEHF 9 Unmodified _TPHDFIEHF_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.51458740234375 3 381.513696 1141.51926 2.5704 0.00098062 0.12557 4.7905E-05 2.6959 0.0010285 381.5137429450045 46.607 0.36132 46.607 46.426 46.787 0 38 14 3 0 0 0 0.0043297 3 21332 21278;21332;21388 93.166 64.671 1 5272700 32771 1700 20836 20904 36907;36908;36909 36908 -0.045840180791856255 TPHDFIEHF 9 Unmodified _TPHDFIEHF_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.7695922851562 2 571.766906 1141.51926 3.3483 0.0019145 0.43324 0.00024771 3.7816 0.0021622 571.7674603929884 46.585 0.3373 46.585 46.426 46.763 0 23 13 2 0 0 0 7.8118E-14 3 21322 21308;21322;21392 205.38 154.53 1 2213600 32772 1700 20836 20904 36910;36911;36912 36911 -0.045840180791856255 TPHDFIEHF 9 Unmodified _TPHDFIEHF_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.5147705078125 3 381.513696 1141.51926 2.4409 0.00093123 0.20487 7.8161E-05 2.6458 0.0010094 381.5137470764991 45.567 0.3835 46.394 46.133 46.517 0.82621 67 20 4 0 0 0 0.0023958 3 20726 20685;20726;20777 100.09 70.25 1 3391300 32773 1700 20836 20904 36913;36914;36915 36914 -0.045840180791856255 TPHDFIEHF 9 Unmodified _TPHDFIEHF_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.7706909179688 2 571.766906 1141.51926 3.5562 0.0020333 1.3633 0.00077947 4.9195 0.0028128 571.7674374585348 45.526 0.30416 46.352 46.17 46.474 0.82621 34 16 3 0 0 0 0.049036 2 20756 20710;20756 52.268 31.815 1 1284000 32774 1700 20836 20904 36916;36917 36917 -0.045840180791856255 TPHDFIEHF 9 Unmodified _TPHDFIEHF_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.5146179199219 3 381.513696 1141.51926 2.9911 0.0011412 -0.64925 -0.0002477 2.3419 0.00089346 381.51342411524445 46.624 0.36733 46.89 46.644 47.011 0.26561 30 12 3 0 0 0 0.02812 1 21262 21262 57.722 38.36 1 2797600 32775 1700 20836 20904 36918 36918 -0.045840180791856255 TPHDFIEHF 9 Unmodified _TPHDFIEHF_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.7686767578125 2 571.766906 1141.51926 3.6134 0.002066 0.98855 0.00056522 4.6019 0.0026312 572.2691193372146 46.656 0.33653 46.922 46.644 46.98 0.26561 20 11 3 0 0 0 0.0023958 1 21304 21304 111.29 88.139 1 918310 32776 1700 20836 20904 36919 36919 -0.045840180791856255 TPHDFIEHF 9 Unmodified _TPHDFIEHF_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.5146179199219 3 381.513696 1141.51926 3.0545 0.0011653 -0.21491 -8.1989E-05 2.8396 0.0010834 381.51359887393784 45.994 0.41681 46.645 46.412 46.829 0.65104 33 12 4 0 0 0 0.011692 2 21044 21044;21105 79.596 55.807 1 2552700 32777 1700 20836 20904 36920;36921 36920 -0.045840180791856255 TPHDFIEHF 9 Unmodified _TPHDFIEHF_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.7676391601562 2 571.766906 1141.51926 3.9608 0.0022647 -0.45939 -0.00026267 3.5014 0.002002 572.2681628640439 46.013 0.33091 46.664 46.468 46.799 0.65104 22 9 4 0 0 0 0.0014317 2 21052 21052;21112 136.33 106.11 1 1190400 32778 1700 20836 20904 36922;36923 36922 -0.045840180791856255 TPHLEKRYKIQ 11 Unmodified _TPHLEKRYKIQ_ 0 0 0 ENSG00000070061|ENST00000374647|ELP1 ENSG00000070061|ENST00000374647|ELP1 ENSG00000070061|ENST00000374647|ELP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 706.9022827148438 2 706.904068 1411.79358 NaN NaN NaN NaN NaN NaN NaN 75.738 1 75.996 75.496 76.496 0.25704 0 0 0 1.0074 1 34861 34861 1.0715 0.72083 1 32779 759 20837 20905 36924 36924 0.10415799679935844 TPHLHSIL 8 Unmodified _TPHLHSIL_ 0 0 0 ENST00000555371.1_1_14:35871898-35872434:-|nuORF;ENST00000557100.5_1_14:35871861-35873850:-|nuORF;ENST00000557459.1_1_14:35872311-35873850:-|nuORF;ENSG00000100906|ENST00000216797|NFKBIA ENST00000555371.1_1_14:35871898-35872434:-|nuORF ENST00000555371.1_1_14:35871898-35872434:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 459.2649841308594 2 459.263802 916.513051 2.8663 0.0013164 0.47487 0.00021809 3.3412 0.0015345 459.2639247822742 34.445 0.304 35.068 34.919 35.223 0.62294 19 10 2 0 0 0 0.16336 1 15801 15801 46.921 6.4723 1 816290 32780 1248 20838 20906 36925 36925 0.05145508479961336 TPHLHSIL 8 Unmodified _TPHLHSIL_ 0 0 0 ENST00000555371.1_1_14:35871898-35872434:-|nuORF;ENST00000557100.5_1_14:35871861-35873850:-|nuORF;ENST00000557459.1_1_14:35872311-35873850:-|nuORF;ENSG00000100906|ENST00000216797|NFKBIA ENST00000555371.1_1_14:35871898-35872434:-|nuORF ENST00000555371.1_1_14:35871898-35872434:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 459.263802 916.513051 2.5501 0.0011712 0.5265 0.0002418 3.0766 0.001413 459.2640819563961 34.188 0.27622 34.977 34.831 35.108 0.78921 -0.045425 2.5909E-05 NaN 46.921 30 15 3 NaN NaN NaN NaN 0 NaN NaN 0 381400 32781 1248 20838 20906 0.05145508479961336 TPHPCPWHP 9 Unmodified _TPHPCPWHP_ 0 0 0 REV__ENST00000474229.1_1_14:105174633-105175035:+|nuORF REV__ENST00000474229.1_1_14:105174633-105175035:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.7452392578125 2 536.245086 1070.47562 3.3124 0.0017763 -0.47977 -0.00025728 2.8326 0.001519 536.2450001518854 39.315 0.31677 39.953 39.712 40.029 0.63778 15 11 2 0 0 0 0.10461 1 17955 17955 8.5933 2.8329 1 195610 + 32782 16632 20839 20907 36926 36926 -0.056799060573212046 TPHPFCPPL 9 Unmodified _TPHPFCPPL_ 0 0 0 REV__ENST00000601464.5_1_19:41120174-41122801:+|nuORF REV__ENST00000601464.5_1_19:41120174-41122801:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.754150390625 2 504.752213 1007.48987 3.1617 0.0015959 0.72383 0.00036535 3.8855 0.0019612 504.7525776863812 50.388 0.23253 51.045 50.943 51.175 0.65735 15 10 2 0 0 0 0.27976 1 23047 23047 18.135 3.5533 1 262870 + 32783 15303 20840 20908 36927 36927 -0.013572536290325843 TPHYGSQTPL 10 Unmodified _TPHYGSQTPL_ 0 0 0 nc|ENSG00000196235|O00267-2|SUPT5H;ENSG00000196235|ENST00000432763|SUPT5H;ENST00000599335.5_1_19:39959399-39965382:+|nuORF nc|ENSG00000196235|O00267-2|SUPT5H nc|ENSG00000196235|O00267-2|SUPT5H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.7742309570312 2 550.772188 1099.52982 3.5725 0.0019676 0.14544 8.0106E-05 3.7179 0.0020477 550.772234963462 37.819 0.38829 38.08 37.889 38.278 0.26083 31 12 3 0 0 0 0.019222 2 17212 17212;17281 78.728 2.9672 1 2134300 32784 5728 20841 20909 36928;36929 36928 -0.015960354247454234 TPILHVRR 8 Unmodified _TPILHVRR_ 0 0 0 ENSG00000181544|ENST00000650831|FANCB ENSG00000181544|ENST00000650831|FANCB ENSG00000181544|ENST00000650831|FANCB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.20989990234375 3 331.210171 990.608683 NaN NaN NaN NaN NaN NaN NaN 82.068 1 82.068 81.568 82.568 0 0 0 0 0.99035 1 40972 40972 0.45834 0 1 32785 5291 20842 20910 36930 36930 0.11300281390833788 TPISNEVEM 9 Unmodified _TPISNEVEM_ 0 0 0 nc|ENSG00000005483|Q8IZD2-3|KMT2E;nc|ENSG00000005483|Q8IZD2-4|KMT2E;KMT2E|p.K996Ffs*4|1|0.08|ENSG00000005483|chr7:105107442-105107443|-/TTCTGTATAT|frameshift_variant;nc|ENSG00000005483|Q8IZD2-8|KMT2E;KMT2E|p.S1340Nfs*22|1|0.04|ENSG00000005483|chr7:105110817-105110818|-/AACCAACTTTTTATAAAGGC|frameshift_variant;nc|ENSG00000005483|Q8IZD2-6|KMT2E;nc|ENSG00000005483|Q8IZD2-5|KMT2E;nc|ENSG00000005483|Q8IZD2-7|KMT2E;ENSG00000005483|ENST00000311117|KMT2E nc|ENSG00000005483|Q8IZD2-3|KMT2E nc|ENSG00000005483|Q8IZD2-3|KMT2E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.2378845214844 2 510.239332 1018.46411 3.5661 0.0018195 -1.5161 -0.00077355 2.05 0.001046 510.23803353348393 46.33 0.1329 46.983 46.939 47.072 0.65219 7 5 2 0 0 0 0.21008 1 21236 21236 22.736 7.898 1 307010 32786 331 20843 20911 36931 36931 -0.04438192661973517 TPISNEVEM 9 Unmodified _TPISNEVEM_ 0 0 0 nc|ENSG00000005483|Q8IZD2-3|KMT2E;nc|ENSG00000005483|Q8IZD2-4|KMT2E;KMT2E|p.K996Ffs*4|1|0.08|ENSG00000005483|chr7:105107442-105107443|-/TTCTGTATAT|frameshift_variant;nc|ENSG00000005483|Q8IZD2-8|KMT2E;KMT2E|p.S1340Nfs*22|1|0.04|ENSG00000005483|chr7:105110817-105110818|-/AACCAACTTTTTATAAAGGC|frameshift_variant;nc|ENSG00000005483|Q8IZD2-6|KMT2E;nc|ENSG00000005483|Q8IZD2-5|KMT2E;nc|ENSG00000005483|Q8IZD2-7|KMT2E;ENSG00000005483|ENST00000311117|KMT2E nc|ENSG00000005483|Q8IZD2-3|KMT2E nc|ENSG00000005483|Q8IZD2-3|KMT2E MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 510.239332 1018.46411 3.0891 0.0015762 -1.8169 -0.00092704 1.2722 0.00064914 510.23835245305884 46.103 0.20222 46.933 46.815 47.018 0.82915 -0.087925 -0.00025941 NaN 22.736 11 8 2 NaN NaN NaN NaN 0 NaN NaN 0 532300 32787 331 20843 20911 -0.04438192661973517 TPISNEVEM 9 Unmodified _TPISNEVEM_ 0 0 0 nc|ENSG00000005483|Q8IZD2-3|KMT2E;nc|ENSG00000005483|Q8IZD2-4|KMT2E;KMT2E|p.K996Ffs*4|1|0.08|ENSG00000005483|chr7:105107442-105107443|-/TTCTGTATAT|frameshift_variant;nc|ENSG00000005483|Q8IZD2-8|KMT2E;KMT2E|p.S1340Nfs*22|1|0.04|ENSG00000005483|chr7:105110817-105110818|-/AACCAACTTTTTATAAAGGC|frameshift_variant;nc|ENSG00000005483|Q8IZD2-6|KMT2E;nc|ENSG00000005483|Q8IZD2-5|KMT2E;nc|ENSG00000005483|Q8IZD2-7|KMT2E;ENSG00000005483|ENST00000311117|KMT2E nc|ENSG00000005483|Q8IZD2-3|KMT2E nc|ENSG00000005483|Q8IZD2-3|KMT2E MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 510.239332 1018.46411 3.5314 0.0018019 -1.3724 -0.00070026 2.159 0.0011016 510.23810973041907 46.883 0.3025 47.146 47.009 47.312 0.26363 0.12588 0.00019416 NaN 22.736 11 9 2 NaN NaN NaN NaN 0 NaN NaN 0 256810 32788 331 20843 20911 -0.04438192661973517 TPISRLVAL 9 Unmodified _TPISRLVAL_ 0 0 0 ENSG00000177981|ENST00000317697|ASB8 ENSG00000177981|ENST00000317697|ASB8 ENSG00000177981|ENST00000317697|ASB8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.3101501464844 2 485.30821 968.601866 NaN NaN NaN NaN NaN NaN NaN 62.161 1 62.413 61.913 62.913 0.25245 0 0 0 0.11654 1 28458 28458 38.615 13.215 1 32789 5144 20844 20912 36932 36932 0.11630923719621933 TPKDEDILVVA 11 Unmodified _TPKDEDILVVA_ 0 0 0 ENSG00000167291|ENST00000310924|TBC1D16 ENSG00000167291|ENST00000310924|TBC1D16 ENSG00000167291|ENST00000310924|TBC1D16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 400.55694580078125 3 400.555449 1198.64452 2.8192 0.0011293 0.56341 0.00022568 3.3826 0.0013549 400.5554771298449 26.862 0.33098 27.484 27.314 27.645 0.62178 27 24 2 0 0 0 0.89065 1 12356 12356 2.8433 0.10809 1 334500 32790 4541 20845 20913 36933 36933 0.05314229266514303 TPKELRIKRQ 10 Unmodified _TPKELRIKRQ_ 0 0 0 nc|ENSG00000134369|Q8NEY1-5|NAV1;nc|ENSG00000134369|Q8NEY1-7|NAV1;nc|ENSG00000134369|Q8NEY1-4|NAV1;nc|ENSG00000134369|Q8NEY1-2|NAV1;nc|ENSG00000134369|Q8NEY1-3|NAV1;nc|ENSG00000134369|Q8NEY1|NAV1;ENSG00000134369|ENST00000685211|NAV1 nc|ENSG00000134369|Q8NEY1-5|NAV1 nc|ENSG00000134369|Q8NEY1-5|NAV1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 634.89453125 2 634.893503 1267.77245 4.1321 0.0026235 -1.0688 -0.0006786 3.0633 0.0019449 634.8927249301627 100.17 0.2383 100.77 100.62 100.86 0.59716 18 8 4 0 0 0 0.8662 1 46347 46347 5.2969 2.3016 1 9686900 32791 2806 20846 20914 36934 36934 0.14927834371087556 TPKELRIKRQ 10 Unmodified _TPKELRIKRQ_ 0 0 0 nc|ENSG00000134369|Q8NEY1-5|NAV1;nc|ENSG00000134369|Q8NEY1-7|NAV1;nc|ENSG00000134369|Q8NEY1-4|NAV1;nc|ENSG00000134369|Q8NEY1-2|NAV1;nc|ENSG00000134369|Q8NEY1-3|NAV1;nc|ENSG00000134369|Q8NEY1|NAV1;ENSG00000134369|ENST00000685211|NAV1 nc|ENSG00000134369|Q8NEY1-5|NAV1 nc|ENSG00000134369|Q8NEY1-5|NAV1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 634.893503 1267.77245 2.2553 0.0014319 -0.67322 -0.00042742 1.5821 0.0010045 635.3942644729107 100.31 0.089478 100.37 100.34 100.43 0.059723 -0.16651 0.0013156 NaN 5.2969 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 7076700 32792 2806 20846 20914 0.14927834371087556 TPKKAKPIERQ 11 Unmodified _TPKKAKPIERQ_ 0 0 0 REV__nc|ENSG00000187742|Q96T21-2|SECISBP2 REV__nc|ENSG00000187742|Q96T21-2|SECISBP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.5981140136719 3 432.597983 1294.77212 1.4979 0.00064798 -0.73442 -0.00031771 0.76347 0.00033027 432.597548902954 100.57 0.070236 100.63 100.59 100.66 0.059723 9 3 3 0 0 0 0.91168 1 54592 54592 1.0136 0.38675 1 13820000 + 32793 14109 20847 20915 36935 36935 0.13652414651210165 TPKKAKPIERQ 11 Unmodified _TPKKAKPIERQ_ 0 0 0 REV__nc|ENSG00000187742|Q96T21-2|SECISBP2 REV__nc|ENSG00000187742|Q96T21-2|SECISBP2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 432.597983 1294.77212 2.5512 0.0011037 -1.2755 -0.00055177 1.2757 0.00055188 432.5973643220168 100.69 0.088432 100.69 100.65 100.73 0 0.032743 -0.00048989 NaN 1.0136 11 5 3 NaN NaN NaN NaN 0 NaN NaN 0 10090000 + 32794 14109 20847 20915 0.13652414651210165 TPKKAKPIERQ 11 Unmodified _TPKKAKPIERQ_ 0 0 0 REV__nc|ENSG00000187742|Q96T21-2|SECISBP2 REV__nc|ENSG00000187742|Q96T21-2|SECISBP2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 432.597983 1294.77212 1.4979 0.00064798 -0.73442 -0.00031771 0.76347 0.00033027 432.597548902954 100.57 0.070236 100.63 100.59 100.66 0.059723 -0.032743 0.0002123 NaN 1.0136 9 3 3 NaN NaN NaN NaN 0 NaN NaN 0 13820000 + 32795 14109 20847 20915 0.13652414651210165 TPKKKKKRFSF 11 Unmodified _TPKKKKKRFSF_ 0 0 0 ENSG00000277443|ENST00000612661|MARCKS ENSG00000277443|ENST00000612661|MARCKS ENSG00000277443|ENST00000612661|MARCKS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 697.93212890625 2 697.935171 1393.85579 NaN NaN NaN NaN NaN NaN NaN 64.401 1 64.401 63.901 64.901 0 0 0 0 1.0065 1 30500 30500 2.2828 0.80087 1 32796 6353 20848 20916 36936 36936 0.1746157081893216 TPKKNKHKR 9 Unmodified _TPKKNKHKR_ 0 0 0 ENST00000478196.6_1_2:55459960-55462152:+|nuORF;ENSG00000143947|ENST00000272317|RPS27A ENST00000478196.6_1_2:55459960-55462152:+|nuORF ENST00000478196.6_1_2:55459960-55462152:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.8553466796875 2 568.854181 1135.69381 3.821 0.0021736 -1.1849 -0.00067403 2.6361 0.0014995 568.8532709842368 98.079 0.19517 98.678 98.591 98.786 0.59885 53 20 3 0 0 0 1.0041 1 45151 45151 3.9444 2.1002 1 30704000 32797 3402 20849 20917 36937 36937 0.13139026856629243 TPKKNKHKR 9 Unmodified _TPKKNKHKR_ 0 0 0 ENST00000478196.6_1_2:55459960-55462152:+|nuORF;ENSG00000143947|ENST00000272317|RPS27A ENST00000478196.6_1_2:55459960-55462152:+|nuORF ENST00000478196.6_1_2:55459960-55462152:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.8556518554688 2 568.854181 1135.69381 3.8205 0.0021733 -1.59 -0.00090447 2.2305 0.0012688 568.8531842846843 98.338 0.23189 98.937 98.807 99.039 0.59885 38 19 3 0 0 0 1.0246 1 45310 45310 3.5965 1.7523 1 5207900 32798 3402 20849 20917 36938 36938 0.13139026856629243 TPKKRKAR 8 Unmodified _TPKKRKAR_ 0 0 0 ENSG00000108256|ENST00000225388|NUFIP2 ENSG00000108256|ENST00000225388|NUFIP2 ENSG00000108256|ENST00000225388|NUFIP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.9493103027344 3 328.885687 983.635232 2.3104 0.00075986 -3.4427 -0.0011323 -1.1323 -0.00037241 328.88391424157606 39.212 0.22002 39.477 39.388 39.608 0.26542 9 7 2 0 0 0 0.14244 1 17901 17901 0.35063 0 1 111300 32799 1626 20850 20918 36939 36939 0.14275970282164963 TPKLKKKKKPK 11 Unmodified _TPKLKKKKKPK_ 0 0 0 ENSG00000111642|ENST00000544040|CHD4;nc|ENSG00000111642|Q14839-2|CHD4 ENSG00000111642|ENST00000544040|CHD4 ENSG00000111642|ENST00000544040|CHD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 662.3786010742188 2 662.463564 1322.91258 NaN NaN NaN NaN NaN NaN NaN 85.162 1 85.162 84.662 85.662 0 0 0 0 1.0073 1 43283 43283 1.1933 0 1 32800 1767 20851 20919 36940 36940 0.26403618375434235 TPKLKKKKKPK 11 Unmodified _TPKLKKKKKPK_ 0 0 0 ENSG00000111642|ENST00000544040|CHD4;nc|ENSG00000111642|Q14839-2|CHD4 ENSG00000111642|ENST00000544040|CHD4 ENSG00000111642|ENST00000544040|CHD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 662.4378051757812 2 662.463564 1322.91258 NaN NaN NaN NaN NaN NaN NaN 87.084 1 87.084 86.584 87.584 0 0 0 0 1.0073 1 44803 44803 1.1933 0 1 32801 1767 20851 20919 36941 36941 0.26403618375434235 TPKLRSTRLR 10 Unmodified _TPKLRSTRLR_ 0 0 0 nc|ENSG00000080603|Q6ZRS2-3|SRCAP;nc|ENSG00000080603|Q6ZRS2-2|SRCAP;ENSG00000080603|ENST00000262518|SRCAP nc|ENSG00000080603|Q6ZRS2-3|SRCAP nc|ENSG00000080603|Q6ZRS2-3|SRCAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 614.3882446289062 2 614.385845 1226.75714 3.7606 0.0023104 -0.52543 -0.00032282 3.2351 0.0019876 614.3856394263446 95.408 0.45428 96.016 95.825 96.28 0.60769 50 23 3 0 0 0 0.93713 1 43840 43840 1.4819 0 1 1154600 32802 909 20852 20920 36942 36942 0.15282967573875794 TPKPQKNSSK 10 Unmodified _TPKPQKNSSK_ 0 0 0 REV__ENSG00000121871|ENST00000475390|SLITRK3 REV__ENSG00000121871|ENST00000475390|SLITRK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.8143310546875 2 557.814387 1113.61422 NaN NaN NaN NaN NaN NaN NaN 89.878 1 89.942 89.442 90.442 0.064346 0 0 0 0.94858 1 46164 46164 13.615 0.5724 1 + 32803 11565 20853 20921 36943 36943 0.061959153919815435 TPKQRIDLLH 10 Unmodified _TPKQRIDLLH_ 0 0 0 ENSG00000173402|ENST00000308775|DAG1 ENSG00000173402|ENST00000308775|DAG1 ENSG00000173402|ENST00000308775|DAG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 610.8589477539062 2 610.859129 1219.70371 NaN NaN NaN NaN NaN NaN NaN 87.621 1 87.872 87.372 88.372 0.25064 0 0 0 0.9952 1 40324 40324 5.7319 0.50118 1 32804 4932 20854 20922 36944 36944 0.10264170071354783 TPKRIKALKT 10 Unmodified _TPKRIKALKT_ 0 0 0 REV__ENST00000533802.5_2_11:43855633-43876795:+|nuORF REV__ENST00000533802.5_2_11:43855633-43876795:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.3827514648438 2 578.38224 1154.74993 NaN NaN NaN NaN NaN NaN NaN 84.748 1 84.748 84.248 85.248 0 0 0 0 0.99812 1 42977 42977 3.2813 0 1 + 32805 12556 20855 20923 36945 36945 0.1787423497344207 TPKRTRSPKTK 11 Unmodified _TPKRTRSPKTK_ 0 0 0 nc|ENSG00000279847|E5RJ46|LINC02906 nc|ENSG00000279847|E5RJ46|LINC02906 nc|ENSG00000279847|E5RJ46|LINC02906 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 650.3978271484375 2 650.39641 1298.77827 4.1142 0.0026759 -0.51135 -0.00033258 3.6028 0.0023433 650.3961305130782 91.482 1.3216 92.144 91.534 92.856 0.66198 132 63 3 0 0 0 0.91359 2 42079 42079;42173 1.1933 0 1 2244600 32806 9867 20856 20924 36946;36947 36946 0.14082932882729438 TPKSKKYYL 9 Unmodified _TPKSKKYYL_ 0 0 0 ENSG00000054118|ENST00000354618|THRAP3 ENSG00000054118|ENST00000354618|THRAP3 ENSG00000054118|ENST00000354618|THRAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.55499267578125 3 376.553492 1126.63865 2.2158 0.00083436 0.31759 0.00011959 2.5334 0.00095395 376.553546947428 13.135 0.20433 13.442 13.34 13.545 0.30727 22 11 3 0 0 0 0.76984 1 5930 5930 12.241 9.3974 1 195400 32807 602 20857 20925 36948 36948 0.08039175545513899 TPKVKNQL 8 Unmodified _TPKVKNQL_ 0 0 0 ENST00000473649.1_1_7:142961996-142965927:+|nuORF;nc|ENSG00000197448|Q9Y2Q3-4|GSTK1;nc|ENSG00000197448|Q9Y2Q3-3|GSTK1;ENSG00000197448|ENST00000358406|GSTK1;nc|ENSG00000197448|Q9Y2Q3-2|GSTK1 ENST00000473649.1_1_7:142961996-142965927:+|nuORF ENST00000473649.1_1_7:142961996-142965927:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.2854309082031 2 464.284734 926.554916 2.8802 0.0013372 0.45484 0.00021117 3.335 0.0015484 464.28465970009086 12.781 0.10352 12.781 12.729 12.833 0 7 4 2 0 0 0 0.042878 1 5586 5586 68.081 25.986 1 717300 32808 5820 20858 20926 36949 36949 0.08870064168456793 TPLATLEFP 9 Unmodified _TPLATLEFP_ 0 0 0 nc|ENSG00000105426|Q13332-6|PTPRS;nc|ENSG00000105426|Q13332-3|PTPRS;nc|ENSG00000105426|Q13332-4|PTPRS;nc|ENSG00000105426|Q13332-2|PTPRS;ENSG00000105426|ENST00000262963|PTPRS nc|ENSG00000105426|Q13332-6|PTPRS nc|ENSG00000105426|Q13332-6|PTPRS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.1838073730469 3 330.183176 987.527698 2.5977 0.00085773 -0.74217 -0.00024505 1.8556 0.00061268 330.1829467898562 12.495 0.10922 13.138 13.067 13.176 0.64272 7 3 3 0 0 0 0.98132 1 5617 5617 2.4985 0 1 22502000 32809 1496 20859 20927 36950 36950 0.033435358374163116 TPLHEIAL 8 Unmodified _TPLHEIAL_ 0 0 0 ENSG00000135829|ENST00000367549|DHX9;ENST00000485081.5_1_1:182847108-182856566:+|nuORF ENSG00000135829|ENST00000367549|DHX9 ENSG00000135829|ENST00000367549|DHX9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 447.2596435546875 2 447.258185 892.501818 3.0956 0.0013845 -0.12555 -5.6155E-05 2.97 0.0013284 447.2581373199373 50.938 0.30527 50.938 50.767 51.072 0 33 13 3 0 0 0 0.009759 2 23340 23293;23340 101.72 45.181 1 2791600 32810 2900 20860 20928 36951;36952 36952 0.05126686385801804 TPLHEIAL 8 Unmodified _TPLHEIAL_ 0 0 0 ENSG00000135829|ENST00000367549|DHX9;ENST00000485081.5_1_1:182847108-182856566:+|nuORF ENSG00000135829|ENST00000367549|DHX9 ENSG00000135829|ENST00000367549|DHX9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 447.2593078613281 2 447.258185 892.501818 2.8711 0.0012841 -0.12817 -5.7326E-05 2.743 0.0012268 447.25805532722245 50.022 0.3473 50.845 50.674 51.021 0.82285 37 14 3 0 0 0 0.013019 1 22788 22788 93.883 26.848 1 2159700 32811 2900 20860 20928 36953 36953 0.05126686385801804 TPLHEIAL 8 Unmodified _TPLHEIAL_ 0 0 0 ENSG00000135829|ENST00000367549|DHX9;ENST00000485081.5_1_1:182847108-182856566:+|nuORF ENSG00000135829|ENST00000367549|DHX9 ENSG00000135829|ENST00000367549|DHX9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 447.2593688964844 2 447.258185 892.501818 2.7456 0.001228 0.25018 0.00011189 2.9957 0.0013399 447.2582434693239 50.809 0.38168 51.07 50.852 51.234 0.26146 42 17 3 0 0 0 0.013019 2 23229 23185;23229 93.883 37.342 1 2351500 32812 2900 20860 20928 36954;36955 36955 0.05126686385801804 TPLHEIAL 8 Unmodified _TPLHEIAL_ 0 0 0 ENSG00000135829|ENST00000367549|DHX9;ENST00000485081.5_1_1:182847108-182856566:+|nuORF ENSG00000135829|ENST00000367549|DHX9 ENSG00000135829|ENST00000367549|DHX9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 447.2597351074219 2 447.258185 892.501818 3.0684 0.0013724 -0.20033 -8.9598E-05 2.8681 0.0012828 447.2581172135911 50.087 0.41041 50.744 50.532 50.943 0.65735 40 15 4 0 0 0 0.013019 1 22896 22896 93.883 37.342 1 2157500 32813 2900 20860 20928 36956 36956 0.05126686385801804 TPLKKFLL 8 Unmodified _TPLKKFLL_ 0 0 0 ACSL5|p.V586Ffs*30|1|0.03|ENSG00000197142|chr10:112426275-112426276|-/TTCTTTTCTCACCATATATTTTCAACACCCATGGAACT|frameshift_variant;nc|ENSG00000197142|Q9ULC5-4|ACSL5;ENSG00000197142|ENST00000354655|ACSL5;nc|ENSG00000197142|Q9ULC5-3|ACSL5 ACSL5|p.V586Ffs*30|1|0.03|ENSG00000197142|chr10:112426275-112426276|-/TTCTTTTCTCACCATATATTTTCAACACCCATGGAACT|frameshift_variant ACSL5|p.V586Ffs*30|1|0.03|ENSG00000197142|chr10:112426275-112426276|-/TTCTTTTCTCACCATATATTTTCAACACCCATGGAACT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.3197326660156 2 480.318046 958.621539 3.2053 0.0015396 -0.0093153 -4.4743E-06 3.196 0.0015351 480.31808618619993 48.608 0.2547 48.87 48.725 48.979 0.26209 15 10 2 0 0 0 0.11952 1 22233 22233 51.63 21.405 1 622390 32814 8 20861 20929 36957 36957 0.14057299730382056 TPLKKFLL 8 Unmodified _TPLKKFLL_ 0 0 0 ACSL5|p.V586Ffs*30|1|0.03|ENSG00000197142|chr10:112426275-112426276|-/TTCTTTTCTCACCATATATTTTCAACACCCATGGAACT|frameshift_variant;nc|ENSG00000197142|Q9ULC5-4|ACSL5;ENSG00000197142|ENST00000354655|ACSL5;nc|ENSG00000197142|Q9ULC5-3|ACSL5 ACSL5|p.V586Ffs*30|1|0.03|ENSG00000197142|chr10:112426275-112426276|-/TTCTTTTCTCACCATATATTTTCAACACCCATGGAACT|frameshift_variant ACSL5|p.V586Ffs*30|1|0.03|ENSG00000197142|chr10:112426275-112426276|-/TTCTTTTCTCACCATATATTTTCAACACCCATGGAACT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.31988525390625 2 480.318046 958.621539 3.2024 0.0015382 0.1152 5.5333E-05 3.3176 0.0015935 480.3180304506771 47.962 0.32675 48.616 48.458 48.785 0.65356 23 12 2 0 0 0 0.13532 1 21966 21966 49.933 21.446 1 478260 32815 8 20861 20929 36958 36958 0.14057299730382056 TPLKKVIL 8 Unmodified _TPLKKVIL_ 0 0 0 ENSG00000164934|ENST00000612750|DCAF13;ENST00000495256.1_1_7:105766226-105766550:+|nuORF ENSG00000164934|ENST00000612750|DCAF13 ENSG00000164934|ENST00000612750|DCAF13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.3191833496094 2 456.318046 910.621539 2.5439 0.0011608 0.37581 0.00017149 2.9197 0.0013323 456.3181465695534 32.556 0.21769 33.344 33.239 33.456 0.78795 23 14 2 0 0 0 0.3435 1 14718 14718 32.305 5.4218 1 416200 32816 4357 20862 20930 36959 36959 0.16265299730378047 TPLKKVIL 8 Unmodified _TPLKKVIL_ 0 0 0 ENSG00000164934|ENST00000612750|DCAF13;ENST00000495256.1_1_7:105766226-105766550:+|nuORF ENSG00000164934|ENST00000612750|DCAF13 ENSG00000164934|ENST00000612750|DCAF13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.3197326660156 2 456.318046 910.621539 2.8706 0.0013099 0.92408 0.00042167 3.7947 0.0017316 456.3184323538841 33.233 0.28112 33.486 33.318 33.599 0.25389 22 12 2 0 0 0 0.099011 2 15118 15118;15174 53.833 11.738 1 514690 32817 4357 20862 20930 36960;36961 36960 0.16265299730378047 TPLKKVIL 8 Unmodified _TPLKKVIL_ 0 0 0 ENSG00000164934|ENST00000612750|DCAF13;ENST00000495256.1_1_7:105766226-105766550:+|nuORF ENSG00000164934|ENST00000612750|DCAF13 ENSG00000164934|ENST00000612750|DCAF13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.3195495605469 2 456.318046 910.621539 2.8761 0.0013124 0.85989 0.00039238 3.736 0.0017048 456.31850349110636 32.673 0.33152 33.291 33.126 33.458 0.61831 30 14 3 0 0 0 0.13532 2 14972 14972;15027 49.933 13.889 1 380760 32818 4357 20862 20930 36962;36963 36962 0.16265299730378047 TPLKKVIL 8 Unmodified _TPLKKVIL_ 0 0 0 ENSG00000164934|ENST00000612750|DCAF13;ENST00000495256.1_1_7:105766226-105766550:+|nuORF ENSG00000164934|ENST00000612750|DCAF13 ENSG00000164934|ENST00000612750|DCAF13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 304.548828125 3 304.547789 910.621539 2.0424 0.00062202 0.24415 7.4355E-05 2.2866 0.00069637 304.54790411955753 32.722 0.3248 33.341 33.155 33.48 0.61832 29 14 3 0 0 0 0.7471 1 15042 15042 0.40072 0 1 396630 32819 4357 20862 20930 36964 36964 0.16265299730378047 TPLLQASLPPF 11 Unmodified _TPLLQASLPPF_ 0 0 0 nc|ENSG00000134824|O95864-2|FADS2 nc|ENSG00000134824|O95864-2|FADS2 nc|ENSG00000134824|O95864-2|FADS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 592.1834106445312 2 592.339707 1182.66486 NaN NaN NaN NaN NaN NaN NaN 89.905 1 89.905 89.405 90.405 0 0 0 0 1.0047 1 47092 47092 4.5289 0.93237 1 32820 9653 20863 20931 36965 36965 0.08083444716976373 TPLNKTKT 8 Unmodified _TPLNKTKT_ 0 0 0 nc|ENSG00000103222|P33527-5|ABCC1;nc|ENSG00000103222|P33527-2|ABCC1;nc|ENSG00000103222|P33527-3|ABCC1;ENSG00000103222|ENST00000399410|ABCC1;nc|ENSG00000103222|P33527-9|ABCC1;nc|ENSG00000103222|P33527-8|ABCC1;nc|ENSG00000103222|P33527-6|ABCC1;nc|ENSG00000103222|P33527-7|ABCC1;nc|ENSG00000103222|P33527-4|ABCC1 nc|ENSG00000103222|P33527-5|ABCC1 nc|ENSG00000103222|P33527-5|ABCC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.7691955566406 2 451.768917 901.523281 NaN NaN NaN NaN NaN NaN NaN 31.846 1 32.463 31.963 32.963 0.61736 0 0 0 0.86133 1 14605 14605 14.838 2.3067 1 32821 1383 20864 20932 36966 36966 0.06858071414524147 TPLPKKEL 8 Unmodified _TPLPKKEL_ 0 0 0 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 309.5303649902344 3 309.195416 924.564418 NaN NaN NaN NaN NaN NaN NaN 18.904 1 19.201 18.701 19.701 0.29753 0 0 0 0.4321 1 8585 8585 31.268 8.6103 1 32822 1057 20865 20933 36967 36967 0.09911832453997249 TPLPKKEL 8 Unmodified _TPLPKKEL_ 0 0 0 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 ENSG00000090339|ENST00000264832|ICAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.2904052734375 2 463.289485 924.564418 2.9129 0.0013495 -0.39854 -0.00018464 2.5143 0.0011649 463.2891966097556 18.488 0.10717 19.148 19.102 19.209 0.66072 20 15 2 0 0 0 0.035125 1 8380 8380 72.968 19.135 1 1778800 32823 1057 20865 20933 36968 36968 0.09911832453997249 TPLWLSVFC 9 Unmodified _TPLWLSVFC_ 0 0 0 REV__ENSG00000188089|ENST00000696112|PLA2G4E REV__ENSG00000188089|ENST00000696112|PLA2G4E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.2764892578125 2 533.275521 1064.53649 3.3994 0.0018128 -1.037 -0.00055299 2.3624 0.0012598 533.2747297890414 44.404 0.37112 45.054 44.894 45.265 0.64998 38 15 4 0 0 0 0.12301 1 20396 20396 28.487 28.487 1 1379900 + 32824 14131 20866 20934 36969 36969 0.006801862022484784 TPMFREYSL 9 Unmodified _TPMFREYSL_ 0 0 0 ENST00000554467.5_1_12:57627324-57627898:+|nuORF;ENST00000557433.5_1_12:57625333-57628141:+|nuORF;ENST00000553837.5_1_12:57625333-57628141:+|nuORF;ENST00000555774.5_1_12:57624752-57628141:+|nuORF;nc|ENSG00000182199|P34897-3|SHMT2;nc|ENSG00000182199|P34897-2|SHMT2;ENSG00000182199|ENST00000328923|SHMT2;ENST00000556825.5_1_12:57623475-57628141:+|nuORF;ENST00000557348.5_1_12:57623887-57628141:+|nuORF ENST00000554467.5_1_12:57627324-57627898:+|nuORF ENST00000554467.5_1_12:57627324-57627898:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 572.280517578125 2 572.278792 1142.54303 3.6893 0.0021113 -0.77104 -0.00044125 2.9183 0.0016701 572.2785935472957 56.049 0.28202 56.717 56.531 56.813 0.66827 24 14 2 0 0 0 0.057456 1 25641 25641 43.982 25.847 1 890670 32825 5320 20867 20935 36970 36970 -0.02253920637031115 TPNEERNVM 9 Unmodified _TPNEERNVM_ 0 0 0 nc|ENSG00000184432|P35606-2|COPB2;ENSG00000184432|ENST00000333188|COPB2 nc|ENSG00000184432|P35606-2|COPB2 nc|ENSG00000184432|P35606-2|COPB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.2553100585938 2 545.253305 1088.49206 3.3223 0.0018115 0.30633 0.00016703 3.6286 0.0019785 545.2537260413485 17.717 0.38855 18.019 17.856 18.245 0.30158 73 31 3 0 0 0 0.049036 3 8041 7994;8041;8080 47.594 28.232 1 385390 32826 5440 20868 20936 36971;36972;36973 36972 -0.04864869681887285 TPNEERNVM 9 Unmodified _TPNEERNVM_ 0 0 0 nc|ENSG00000184432|P35606-2|COPB2;ENSG00000184432|ENST00000333188|COPB2 nc|ENSG00000184432|P35606-2|COPB2 nc|ENSG00000184432|P35606-2|COPB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.7570190429688 2 545.253305 1088.49206 3.5205 0.0019196 0.091241 4.975E-05 3.6117 0.0019693 545.2534089094522 17.592 0.21711 18.252 18.081 18.298 0.66072 42 25 2 0 0 0 0.057945 1 7909 7909 43.772 24.41 1 916750 32827 5440 20868 20936 36974 36974 -0.04864869681887285 TPNHVEHTL 9 Unmodified _TPNHVEHTL_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 349.84600830078125 3 349.845446 1046.51451 2.5952 0.00090793 -0.29849 -0.00010443 2.2968 0.00080351 349.84537577019455 13.143 0.27354 13.143 13.021 13.295 0 57 16 5 0 0 0 0.0014317 2 5709 5709;5753 92.201 61.498 1 13361000 32828 892 20869 20937 36975;36976 36975 -0.006889022219411345 TPNHVEHTL 9 Unmodified _TPNHVEHTL_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.2661743164062 2 524.26453 1046.51451 3.2762 0.0017176 -0.10623 -5.5694E-05 3.1699 0.0016619 524.264442006665 13.143 0.21326 13.143 13.036 13.25 0 34 12 3 0 0 0 6.4275E-06 2 5762 5719;5762 148.27 86.911 1 3981100 32829 892 20869 20937 36977;36978 36978 -0.006889022219411345 TPNHVEHTL 9 Unmodified _TPNHVEHTL_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 349.8460998535156 3 349.845446 1046.51451 1.9275 0.00067434 0.34641 0.00012119 2.2739 0.00079553 349.8455427072932 12.737 0.12685 12.998 12.938 13.065 0.26154 33 10 4 0 0 0 0.0023958 1 5527 5527 83.278 33.75 1 30590000 32830 892 20869 20937 36979 36979 -0.006889022219411345 TPNHVEHTL 9 Unmodified _TPNHVEHTL_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.265869140625 2 524.26453 1046.51451 2.8794 0.0015096 -0.025531 -1.3385E-05 2.8539 0.0014962 524.2644479267019 12.737 0.11162 12.998 12.938 13.05 0.26154 21 9 3 0 0 0 1.4597999999999999E-21 1 5530 5530 187.3 114.33 1 10233000 32831 892 20869 20937 36980 36980 -0.006889022219411345 TPNHVEHTL 9 Unmodified _TPNHVEHTL_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 349.8462829589844 3 349.845446 1046.51451 1.8388 0.00064329 0.44599 0.00015603 2.2848 0.00079932 349.84567260660367 12.698 0.18243 13.005 12.909 13.091 0.30727 22 5 6 0 0 0 0.0027913 1 5731 5731 79.427 35.445 1 22554000 32832 892 20869 20937 36981 36981 -0.006889022219411345 TPNHVEHTL 9 Unmodified _TPNHVEHTL_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.2660522460938 2 524.26453 1046.51451 2.6615 0.0013953 0.27979 0.00014669 2.9413 0.001542 524.2647126124541 12.698 0.15566 13.005 12.936 13.091 0.30727 14 4 4 0 0 0 2.5366E-31 1 5733 5733 203.64 144.96 1 5743500 32833 892 20869 20937 36982 36982 -0.006889022219411345 TPNHVEHTL 9 Unmodified _TPNHVEHTL_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 349.846435546875 3 349.845446 1046.51451 2.7447 0.00096022 -0.28594 -0.00010004 2.4587 0.00086018 349.84537193850105 12.618 0.23657 13.261 13.176 13.413 0.64272 14 6 4 0 0 0 0.0014317 1 5666 5666 92.201 44.469 1 19326000 32834 892 20869 20937 36983 36983 -0.006889022219411345 TPNHVEHTL 9 Unmodified _TPNHVEHTL_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.2669677734375 2 524.26453 1046.51451 3.6254 0.0019006 -0.3642 -0.00019094 3.2612 0.0017097 524.2644371298812 12.618 0.13484 13.261 13.176 13.311 0.64272 9 3 4 0 0 0 4.5982E-22 1 5672 5672 189.73 118.6 1 10450000 32835 892 20869 20937 36984 36984 -0.006889022219411345 TPPASDRACAP 11 Unmodified _TPPASDRACAP_ 0 0 0 ENST00000577582.5_1_17:37341097-37343504:-|nuORF ENST00000577582.5_1_17:37341097-37343504:-|nuORF ENST00000577582.5_1_17:37341097-37343504:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.5457763671875 2 543.255848 1084.49714 3.4719 0.0018861 0.27282 0.00014821 3.7447 0.0020343 543.2562286858315 17.214 1.0081 17.874 17.228 18.236 0.66072 320 85 5 0 0 0 0.89844 1 7772 7772 2.4985 0.43874 1 11199000 32836 9131 20870 20938 36985 36985 -0.041725658192717674 TPPCRVRFSER 11 Unmodified _TPPCRVRFSER_ 0 0 0 ENST00000415050.2_2_14:93651434-93651656:+|nuORF ENST00000415050.2_2_14:93651434-93651656:+|nuORF ENST00000415050.2_2_14:93651434-93651656:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 674.414306640625 2 674.351145 1346.68774 NaN NaN NaN NaN NaN NaN NaN 107.49 1 108.09 107.59 108.59 0.6019 0 0 0 1.0074 1 49609 49609 1.0715 0.20709 1 32837 7700 20871 20939 36986 36986 0.02826140562820001 TPPEHLSDL 9 Unmodified _TPPEHLSDL_ 0 0 0 ENSG00000146918|ENST00000356309|NCAPG2;nc|ENSG00000146918|Q86XI2-2|NCAPG2;ENST00000432615.5_1_7:158424360-158447416:-|nuORF;ENST00000467785.5_1_7:158424360-158447992:-|nuORF ENSG00000146918|ENST00000356309|NCAPG2 ENSG00000146918|ENST00000356309|NCAPG2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.8263244628906 2 504.753464 1007.49238 3.3126 0.0016721 -1.6899 -0.000853 1.6227 0.00081906 504.75256321891675 51.134 0.21351 51.134 51.016 51.23 0 15 10 2 0 0 0 0.062228 1 23413 23413 26.884 2.2098 1 291860 32838 3538 20872 20940 36987 36987 -0.011071266903741162 TPPIVITKSSK 11 Unmodified _TPPIVITKSSK_ 0 0 0 nc|ENSG00000156920|Q8IZF6-2|ADGRG4;nc|ENSG00000156920|Q8IZF6-3|ADGRG4;ENSG00000156920|ENST00000394143|ADGRG4;ADGRG4|p.K2380Nfs*2|1|0.45|ENSG00000156920|chrX:136359446-136359446|A/-|frameshift_variant nc|ENSG00000156920|Q8IZF6-2|ADGRG4 nc|ENSG00000156920|Q8IZF6-2|ADGRG4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 585.8596801757812 2 585.858264 1169.70197 NaN NaN NaN NaN NaN NaN NaN 85.563 1 85.591 85.091 86.091 0.028603 0 0 0 1.0034 1 42861 42861 6.1918 0.46 1 32839 3930 20873 20941 36988 36988 0.12391116262733703 TPPLLLQLL 9 Unmodified _TPPLLLQLL_ 0 0 0 REV__ENST00000467576.1_1_6:31743192-31744939:-|nuORF REV__ENST00000467576.1_1_6:31743192-31744939:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 336.5560607910156 3 336.554833 1006.64267 2.4115 0.00081161 1.8112 0.00060956 4.2227 0.0014212 336.55576666389175 49.798 0.2031 50.621 50.577 50.78 0.82285 13 8 2 0 0 0 1.2289 1 22724 22724 0.26902 0 1 226920 + 32840 14414 20874 20942 36989 36989 0.13961265039233695 TPPLLLQLL 9 Unmodified _TPPLLLQLL_ 0 0 0 REV__ENST00000467576.1_1_6:31743192-31744939:-|nuORF REV__ENST00000467576.1_1_6:31743192-31744939:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 336.554833 1006.64267 2.3865 0.0008032 0.35805 0.0001205 2.7446 0.00092371 336.55569662891236 50.558 0.19125 50.558 50.396 50.588 0 -0.031604 -0.0011895 NaN 0.26902 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 285520 + 32841 14414 20874 20942 0.13961265039233695 TPPLLLQLL 9 Unmodified _TPPLLLQLL_ 0 0 0 REV__ENST00000467576.1_1_6:31743192-31744939:-|nuORF REV__ENST00000467576.1_1_6:31743192-31744939:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 336.554833 1006.64267 2.4115 0.00081161 1.8112 0.00060956 4.2227 0.0014212 336.55576666389175 49.798 0.2031 50.621 50.577 50.78 0.82285 0.031604 0.00027762 NaN 0.26902 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 226920 + 32842 14414 20874 20942 0.13961265039233695 TPPPLTQALAK 11 Unmodified _TPPPLTQALAK_ 0 0 0 REV__nc|ENSG00000177302|Q13472-3|TOP3A REV__nc|ENSG00000177302|Q13472-3|TOP3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.5612487792969 3 379.560646 1135.66011 2.9798 0.001131 -0.05491 -2.0842E-05 2.9249 0.0011102 379.56060560243236 30.4 0.28002 30.4 30.253 30.533 0 41 18 3 0 0 0 0.52957 2 13705 13705;13757 17.863 0.81459 1 3024500 + 32843 13733 20875 20943 36990;36991 36990 0.09770560574224874 TPPPLTQALAK 11 Unmodified _TPPPLTQALAK_ 0 0 0 REV__nc|ENSG00000177302|Q13472-3|TOP3A REV__nc|ENSG00000177302|Q13472-3|TOP3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.561767578125 3 379.560646 1135.66011 2.7428 0.0010411 -0.39315 -0.00014923 2.3496 0.00089183 379.56048834333717 29.858 0.30861 30.476 30.287 30.595 0.61789 60 25 3 0 0 0 0.7342 1 13744 13744 9.7643 0 1 2069300 + 32844 13733 20875 20943 36992 36992 0.09770560574224874 TPPPSLSS 8 Unmodified _TPPPSLSS_ 0 0 0 nc|ENSG00000055917|Q8TB72-4|PUM2;ENSG00000055917|ENST00000361078|PUM2;nc|ENSG00000055917|Q8TB72|PUM2;nc|ENSG00000134644|Q14671-4|PUM1;nc|ENSG00000134644|Q14671-2|PUM1;nc|ENSG00000134644|Q14671|PUM1;ENSG00000134644|ENST00000426105|PUM1 nc|ENSG00000055917|Q8TB72-4|PUM2;nc|ENSG00000134644|Q14671-4|PUM1 nc|ENSG00000134644|Q14671-4|PUM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.2086486816406 2 393.205618 784.396684 NaN NaN NaN NaN NaN NaN NaN 34.679 1 34.679 34.179 35.179 0 0 0 0 0.99035 1 15722 15722 2.5775 0 1 32845 2820;617 20876 20944 36993 36993 -0.004138548105970585 TPPTKLFEPV 10 Unmodified _TPPTKLFEPV_ 0 0 0 REV__nc|ENSG00000186260|Q9ULH7-2|MRTFB REV__nc|ENSG00000186260|Q9ULH7-2|MRTFB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.74169921875 2 564.818607 1127.62266 NaN NaN NaN NaN NaN NaN NaN 88.092 1 88.092 87.592 88.592 0 0 0 0 0.94673 1 45620 45620 13.906 1.7313 1 + 32846 14050 20877 20945 36994 36994 0.06395469308586144 TPPYADPSL 9 Unmodified _TPPYADPSL_ 0 0 0 nc|ENSG00000173039|Q04206-2|RELA;nc|ENSG00000173039|Q04206-3|RELA;nc|ENSG00000173039|Q04206-4|RELA;ENST00000531484.5_1_11:65421851-65429483:-|nuORF;ENSG00000173039|ENST00000406246|RELA nc|ENSG00000173039|Q04206-2|RELA nc|ENSG00000173039|Q04206-2|RELA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.739501953125 2 480.737283 959.460012 NaN NaN NaN NaN NaN NaN NaN 50.216 1 50.477 49.977 50.977 0.26146 0 0 0 0.10934 1 22949 22949 39.957 11.47 1 32847 4912 20878 20946 36995 36995 -0.021339140933832823 TPQCSSHQCCS 11 Unmodified _TPQCSSHQCCS_ 0 0 0 REV__ENSG00000241123|ENST00000400372|KRTAP10-5 REV__ENSG00000241123|ENST00000400372|KRTAP10-5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.7120361328125 2 590.712633 1179.41071 NaN NaN NaN NaN NaN NaN NaN 95.079 1 95.079 94.579 95.579 0 0 0 0 1.0061 1 51114 51114 2.7352 0.43246 1 + 32848 14609 20879 20947 36996 36996 -0.17181636707800862 TPQDHEVAL 9 Unmodified _TPQDHEVAL_ 0 0 0 ENSG00000129204|ENST00000574788|USP6;nc|ENSG00000129204|P35125-2|USP6;ENST00000575709.5_1_17:5042349-5076270:+|nuORF;ENST00000444558.5_1_17:16701792-16703686:+|nuORF;ENST00000448331.7_2_17:16701792-16704365:+|nuORF;ENSG00000170832|ENST00000300896|USP32 ENSG00000129204|ENST00000574788|USP6;ENSG00000170832|ENST00000300896|USP32 ENSG00000129204|ENST00000574788|USP6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.25286865234375 2 505.251089 1008.48762 3.3661 0.0017007 0.2852 0.0001441 3.6513 0.0018448 505.251002231648 29.157 0.28324 29.157 29.02 29.303 0 46 21 3 0 0 0 0.044468 2 13177 13130;13177 49.554 21.925 1 586050 32849 2543;4769 20880 20948 36997;36998 36998 -0.016280108331443444 TPQDHEVAL 9 Unmodified _TPQDHEVAL_ 0 0 0 ENSG00000129204|ENST00000574788|USP6;nc|ENSG00000129204|P35125-2|USP6;ENST00000575709.5_1_17:5042349-5076270:+|nuORF;ENST00000444558.5_1_17:16701792-16703686:+|nuORF;ENST00000448331.7_2_17:16701792-16704365:+|nuORF;ENSG00000170832|ENST00000300896|USP32 ENSG00000129204|ENST00000574788|USP6;ENSG00000170832|ENST00000300896|USP32 ENSG00000129204|ENST00000574788|USP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.2532653808594 2 505.251089 1008.48762 NaN NaN NaN NaN NaN NaN NaN 28.292 1 29.079 28.579 29.579 0.78627 0 0 0 0.036101 1 12738 12738 57.722 21.678 1 32850 2543;4769 20880 20948 36999 36999 -0.016280108331443444 TPQDHEVAL 9 Unmodified _TPQDHEVAL_ 0 0 0 ENSG00000129204|ENST00000574788|USP6;nc|ENSG00000129204|P35125-2|USP6;ENST00000575709.5_1_17:5042349-5076270:+|nuORF;ENST00000444558.5_1_17:16701792-16703686:+|nuORF;ENST00000448331.7_2_17:16701792-16704365:+|nuORF;ENSG00000170832|ENST00000300896|USP32 ENSG00000129204|ENST00000574788|USP6;ENSG00000170832|ENST00000300896|USP32 ENSG00000129204|ENST00000574788|USP6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.2531433105469 2 505.251089 1008.48762 3.2411 0.0016376 -0.058018 -2.9314E-05 3.1831 0.0016083 505.2509823385899 28.917 0.24499 29.177 29.054 29.299 0.2602 31 18 2 0 0 0 0.014491 2 13177 13129;13177 75.761 25.828 1 1068700 32851 2543;4769 20880 20948 37000;37001 37001 -0.016280108331443444 TPQDHEVAL 9 Unmodified _TPQDHEVAL_ 0 0 0 ENSG00000129204|ENST00000574788|USP6;nc|ENSG00000129204|P35125-2|USP6;ENST00000575709.5_1_17:5042349-5076270:+|nuORF;ENST00000444558.5_1_17:16701792-16703686:+|nuORF;ENST00000448331.7_2_17:16701792-16704365:+|nuORF;ENSG00000170832|ENST00000300896|USP32 ENSG00000129204|ENST00000574788|USP6;ENSG00000170832|ENST00000300896|USP32 ENSG00000129204|ENST00000574788|USP6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.2526550292969 2 505.251089 1008.48762 3.2163 0.0016251 0.1144 5.7802E-05 3.3307 0.0016829 505.2511250548732 28.596 0.35468 29.215 29.003 29.358 0.61947 41 18 3 0 0 0 0.021401 2 13129 13077;13129 66.457 24.617 1 642250 32852 2543;4769 20880 20948 37002;37003 37003 -0.016280108331443444 TPQDHQRAL 9 Unmodified _TPQDHQRAL_ 0 0 0 ENST00000429480.2_1_1:6298805-6299333:+|nuORF ENST00000429480.2_1_1:6298805-6299333:+|nuORF ENST00000429480.2_1_1:6298805-6299333:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.2763671875 2 533.275429 1064.53631 2.9148 0.0015544 -0.28131 -0.00015002 2.6335 0.0014044 533.2747930204547 45.007 0.31784 45.274 45.12 45.438 0.26768 39 15 3 0 0 0 0.079031 1 20537 20537 37.974 37.974 1 1481800 32853 7835 20881 20949 37004 37004 0.006619025266218159 TPQEQVDSL 9 Unmodified _TPQEQVDSL_ 0 0 0 nc|ENSG00000131165|Q9HD42-2|CHMP1A;ENST00000547687.1_1_16:89712476-89713182:-|nuORF;ENSG00000131165|ENST00000397901|CHMP1A nc|ENSG00000131165|Q9HD42-2|CHMP1A nc|ENSG00000131165|Q9HD42-2|CHMP1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.7496032714844 2 508.748379 1015.4822 NaN NaN NaN NaN NaN NaN NaN 37.613 1 38.247 37.747 38.747 0.63388 0 0 0 0.81563 1 17211 17211 8.7454 0.83525 1 32854 2642 20882 20950 37005 37005 -0.024917344156278887 TPQFPDMIL 9 Oxidation (M) _TPQFPDM(Oxidation (M))IL_ TPQFPDM(1)IL TPQFPDM(89)IL 0 0 1 ENST00000503170.1_1_5:180669321-180670896:-|nuORF;ENST00000514318.1_1_5:180670199-180670896:-|nuORF;ENST00000513060.5_1_5:180669121-180670896:-|nuORF;ENST00000508963.1_1_5:180668485-180670896:-|nuORF;ENST00000505461.5_1_5:180668319-180670896:-|nuORF;ENSG00000204628|ENST00000512805|RACK1 ENST00000503170.1_1_5:180669321-180670896:-|nuORF ENST00000503170.1_1_5:180669321-180670896:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.270751953125 2 539.267893 1076.52123 2.6501 0.0014291 0.30308 0.00016344 2.9532 0.0015926 539.2680152075085 76.049 0.92911 76.049 75.428 76.357 0 203 74 4 0 0 0 0.0063542 7 37030 37030;37143;37194;37246;37289;37334;37383 88.954 60.467 1 4895300 32855 6026 20883 20951 37006;37007;37008;37009;37010;37011;37012 37006 81 -0.013967253856208117 TPQFPDMIL 9 Oxidation (M) _TPQFPDM(Oxidation (M))IL_ TPQFPDM(1)IL TPQFPDM(83)IL 0 0 1 ENST00000503170.1_1_5:180669321-180670896:-|nuORF;ENST00000514318.1_1_5:180670199-180670896:-|nuORF;ENST00000513060.5_1_5:180669121-180670896:-|nuORF;ENST00000508963.1_1_5:180668485-180670896:-|nuORF;ENST00000505461.5_1_5:180668319-180670896:-|nuORF;ENSG00000204628|ENST00000512805|RACK1 ENST00000503170.1_1_5:180669321-180670896:-|nuORF ENST00000503170.1_1_5:180669321-180670896:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.269775390625 2 539.267893 1076.52123 2.5884 0.0013959 -0.4422 -0.00023847 2.1462 0.0011574 539.267801556778 75.152 0.64262 75.816 75.542 76.185 0.66349 99 48 3 0 0 0 0.0095519 4 36427 36298;36363;36427;36480 82.529 48.427 1 5935400 32856 6026 20883 20951 37013;37014;37015;37016 37015 81 -0.013967253856208117 TPQFPDMIL 9 Oxidation (M) _TPQFPDM(Oxidation (M))IL_ TPQFPDM(1)IL TPQFPDM(79)IL 0 0 1 ENST00000503170.1_1_5:180669321-180670896:-|nuORF;ENST00000514318.1_1_5:180670199-180670896:-|nuORF;ENST00000513060.5_1_5:180669121-180670896:-|nuORF;ENST00000508963.1_1_5:180668485-180670896:-|nuORF;ENST00000505461.5_1_5:180668319-180670896:-|nuORF;ENSG00000204628|ENST00000512805|RACK1 ENST00000503170.1_1_5:180669321-180670896:-|nuORF ENST00000503170.1_1_5:180669321-180670896:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.2683715820312 2 539.267893 1076.52123 2.9048 0.0015665 -0.2227 -0.0001201 2.6821 0.0014464 539.2676499282843 75.755 0.9422 76.012 75.464 76.406 0.25704 175 77 3 0 0 0 0.012326 6 34795 34704;34795;34846;34896;34943;34990 78.728 50.241 1 3705400 32857 6026 20883 20951 37017;37018;37019;37020;37021;37022 37018 81 -0.013967253856208117 TPQFPDMIL 9 Oxidation (M) _TPQFPDM(Oxidation (M))IL_ TPQFPDM(1)IL TPQFPDM(73)IL 0 0 1 ENST00000503170.1_1_5:180669321-180670896:-|nuORF;ENST00000514318.1_1_5:180670199-180670896:-|nuORF;ENST00000513060.5_1_5:180669121-180670896:-|nuORF;ENST00000508963.1_1_5:180668485-180670896:-|nuORF;ENST00000505461.5_1_5:180668319-180670896:-|nuORF;ENSG00000204628|ENST00000512805|RACK1 ENST00000503170.1_1_5:180669321-180670896:-|nuORF ENST00000503170.1_1_5:180669321-180670896:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.2689208984375 2 539.267893 1076.52123 2.9067 0.0015675 -0.55949 -0.00030171 2.3473 0.0012658 539.2675483704946 75.309 0.94124 75.974 75.367 76.309 0.6644 163 79 3 0 0 0 0.016529 8 34667 34462;34512;34572;34618;34667;34710;34760;34814 72.968 44.481 1 3338500 32858 6026 20883 20951 37023;37024;37025;37026;37027;37028;37029;37030 37027 81 -0.013967253856208117 TPQFPDMIL 9 Unmodified _TPQFPDMIL_ 0 0 0 ENST00000503170.1_1_5:180669321-180670896:-|nuORF;ENST00000514318.1_1_5:180670199-180670896:-|nuORF;ENST00000513060.5_1_5:180669121-180670896:-|nuORF;ENST00000508963.1_1_5:180668485-180670896:-|nuORF;ENST00000505461.5_1_5:180668319-180670896:-|nuORF;ENSG00000204628|ENST00000512805|RACK1 ENST00000503170.1_1_5:180669321-180670896:-|nuORF ENST00000503170.1_1_5:180669321-180670896:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.2724609375 2 531.270435 1060.52632 3.4064 0.0018097 0.28449 0.00015114 3.6908 0.0019608 531.2706981116436 88.32 0.6738 88.571 88.3 88.974 0.25064 78 32 3 0 0 0 0.010018 4 40610 40556;40610;40655;40720 81.89 48.774 1 1461400 32859 6026 20883 20952 37031;37032;37033;37034 37032 -0.0015242152298924339 TPQFPDMIL 9 Unmodified _TPQFPDMIL_ 0 0 0 ENST00000503170.1_1_5:180669321-180670896:-|nuORF;ENST00000514318.1_1_5:180670199-180670896:-|nuORF;ENST00000513060.5_1_5:180669121-180670896:-|nuORF;ENST00000508963.1_1_5:180668485-180670896:-|nuORF;ENST00000505461.5_1_5:180668319-180670896:-|nuORF;ENSG00000204628|ENST00000512805|RACK1 ENST00000503170.1_1_5:180669321-180670896:-|nuORF ENST00000503170.1_1_5:180669321-180670896:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.2721557617188 2 531.270435 1060.52632 3.4148 0.0018142 0.044963 2.3887E-05 3.4598 0.0018381 531.2706952440375 87.878 0.51139 88.556 88.212 88.723 0.67818 57 26 3 0 0 0 0.024388 3 40431 40364;40431;40476 62.573 20.133 1 1463800 32860 6026 20883 20952 37035;37036;37037 37036 -0.0015242152298924339 TPQFPPLRV 9 Unmodified _TPQFPPLRV_ 0 0 0 ENST00000550292.1_1_12:30948620-30949103:+|nuORF ENST00000550292.1_1_12:30948620-30949103:+|nuORF ENST00000550292.1_1_12:30948620-30949103:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.2078857421875 3 352.206315 1053.59712 2.2773 0.00080209 1.3546 0.00047711 3.632 0.0012792 352.2068469102139 52.74 0.31808 53.402 53.274 53.592 0.66198 30 21 2 0 0 0 1.1022 1 24179 24179 2.2828 0.19677 1 1776500 32861 8867 20884 20953 37038 37038 0.07246039576853036 TPQFPPLRV 9 Unmodified _TPQFPPLRV_ 0 0 0 ENST00000550292.1_1_12:30948620-30949103:+|nuORF ENST00000550292.1_1_12:30948620-30949103:+|nuORF ENST00000550292.1_1_12:30948620-30949103:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 352.206315 1053.59712 2.87 0.0010108 0.97104 0.00034201 3.841 0.0013528 352.2066339510489 53.675 0.2598 53.675 53.521 53.781 0 0.15024 -0.00026872 NaN 2.2828 28 18 2 NaN NaN NaN NaN 0 NaN NaN 0 991960 32862 8867 20884 20953 0.07246039576853036 TPQFPPLRV 9 Unmodified _TPQFPPLRV_ 0 0 0 ENST00000550292.1_1_12:30948620-30949103:+|nuORF ENST00000550292.1_1_12:30948620-30949103:+|nuORF ENST00000550292.1_1_12:30948620-30949103:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 352.206315 1053.59712 2.0914 0.00073659 1.4329 0.00050469 3.5243 0.0012413 352.2067806079953 52.681 0.28496 53.491 53.295 53.58 0.81065 -0.033896 0.00021933 NaN 2.2828 31 17 2 NaN NaN NaN NaN 0 NaN NaN 0 967350 32863 8867 20884 20953 0.07246039576853036 TPQFPPLRV 9 Unmodified _TPQFPPLRV_ 0 0 0 ENST00000550292.1_1_12:30948620-30949103:+|nuORF ENST00000550292.1_1_12:30948620-30949103:+|nuORF ENST00000550292.1_1_12:30948620-30949103:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 352.206315 1053.59712 2.6699 0.00094036 1.2547 0.00044191 3.9246 0.0013823 352.2067122926272 53.269 0.38831 53.532 53.309 53.697 0.26345 0.0072594 3.0985E-05 NaN 2.2828 50 28 2 NaN NaN NaN NaN 0 NaN NaN 0 1376200 32864 8867 20884 20953 0.07246039576853036 TPRGKPPL 8 Unmodified _TPRGKPPL_ 0 0 0 ENSG00000100292|ENST00000216117|HMOX1 ENSG00000100292|ENST00000216117|HMOX1 ENSG00000100292|ENST00000216117|HMOX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 433.2673645019531 2 433.266345 864.518136 3.0277 0.0013118 -0.011743 -5.0878E-06 3.0159 0.0013067 433.2662987342044 12.898 0.34816 12.898 12.806 13.154 0 34 16 3 0 0 0 0.029809 1 5637 5637 78.149 7.4339 1 2137400 32865 1201 20885 20954 37039 37039 0.08045812342561476 TPRGKPPL 8 Unmodified _TPRGKPPL_ 0 0 0 ENSG00000100292|ENST00000216117|HMOX1 ENSG00000100292|ENST00000216117|HMOX1 ENSG00000100292|ENST00000216117|HMOX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 433.2670593261719 2 433.266345 864.518136 2.303 0.00099782 0.076569 3.3175E-05 2.3796 0.001031 433.266376051426 12.596 0.090235 12.857 12.811 12.901 0.26154 19 10 2 0 0 0 0.029809 1 5462 5462 78.149 17.76 1 4806500 32866 1201 20885 20954 37040 37040 0.08045812342561476 TPRGKPPL 8 Unmodified _TPRGKPPL_ 0 0 0 ENSG00000100292|ENST00000216117|HMOX1 ENSG00000100292|ENST00000216117|HMOX1 ENSG00000100292|ENST00000216117|HMOX1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 432.9060363769531 2 433.266345 864.518136 3.3902 0.0014689 -0.57375 -0.00024859 2.8164 0.0012203 433.2660366463801 12.495 0.17692 13.138 13.067 13.244 0.64272 10 5 3 0 0 0 1.225E-08 1 5601 5601 89.427 38.572 1 5598700 32867 1201 20885 20954 37041 37041 0.08045812342561476 TPRKFRLA 8 Unmodified _TPRKFRLA_ 0 0 0 TET3|p.N1450Kfs*21|1|0.29|ENSG00000187605|chr2:74101135-74101136|-/A|frameshift_variant;nc|ENSG00000187605|O43151-2|TET3;ENSG00000187605|ENST00000409262|TET3 TET3|p.N1450Kfs*21|1|0.29|ENSG00000187605|chr2:74101135-74101136|-/A|frameshift_variant TET3|p.N1450Kfs*21|1|0.29|ENSG00000187605|chr2:74101135-74101136|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.80792236328125 2 494.806168 987.597784 3.1303 0.0015489 -1.8126 -0.00089688 1.3177 0.00065203 494.8053539526243 34.167 0.25965 34.787 34.677 34.937 0.62031 20 12 2 0 0 0 0.66653 1 15715 15715 8.5933 0.68312 1 935370 32868 5623 20886 20955 37042 37042 0.10348879016544288 TPRLFWSCLEW 11 Unmodified _TPRLFWSCLEW_ 0 0 0 chr14:77074598-77076105|519|10.73|0.03|8.61|-|2|LINC02289,LINC02289|1 chr14:77074598-77076105|519|10.73|0.03|8.61|-|2|LINC02289,LINC02289|1 chr14:77074598-77076105|519|10.73|0.03|8.61|-|2|LINC02289,LINC02289|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.99176025390625 3 479.904307 1436.69109 NaN NaN NaN NaN NaN NaN NaN 55.933 1 56.72 56.22 57.22 0.78711 0 0 0 1.0073 1 25553 25553 0.40827 0 1 32869 152 20887 20956 37043 37043 -0.009786093831962717 TPRLRAGR 8 Unmodified _TPRLRAGR_ 0 0 0 REV__ENST00000519868.1_1_5:169502602-169506159:+|nuORF REV__ENST00000519868.1_1_5:169502602-169506159:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 309.5374450683594 3 309.52627 925.556982 NaN NaN NaN NaN NaN NaN NaN 36.183 1 36.441 35.941 36.941 0.25768 0 0 0 0.99035 1 16482 16482 1.4819 0 1 + 32870 17040 20888 20957 37044 37044 0.0912253769694189 TPRLSAPIEPV 11 Unmodified _TPRLSAPIEPV_ 0 0 0 REV__ENST00000545361.5_3_11:61126900-61129304:-|nuORF REV__ENST00000545361.5_3_11:61126900-61129304:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.3387451171875 2 590.340238 1178.66592 NaN NaN NaN NaN NaN NaN NaN 96.085 1 96.085 95.585 96.585 0 0 0 0 1.0047 1 51908 51908 4.5289 0.58447 1 + 32871 15136 20889 20958 37045 37045 0.08373659085873442 TPRPKFSV 8 Unmodified _TPRPKFSV_ 0 0 0 ENST00000478340.2_1_6:35437033-35438524:+|nuORF;ENSG00000198755|ENST00000322203|RPL10A;ENST00000464112.5_1_6:35436546-35438524:+|nuORF;RPL10A|p.H84Wfs*6|1|0.3|ENSG00000198755|chr6:35469467-35469470|CCCA/-|frameshift_variant ENST00000478340.2_1_6:35437033-35438524:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 466.2725830078125 2 466.271627 930.528701 NaN NaN NaN NaN NaN NaN NaN 26.075 1 26.343 25.843 26.843 0.26777 0 0 0 0.32671 1 11844 11844 34.402 11.253 1 32872 5930 20890 20959 37046 37046 0.06065794996993645 TPRPKFSV 8 Unmodified _TPRPKFSV_ 0 0 0 ENST00000478340.2_1_6:35437033-35438524:+|nuORF;ENSG00000198755|ENST00000322203|RPL10A;ENST00000464112.5_1_6:35436546-35438524:+|nuORF;RPL10A|p.H84Wfs*6|1|0.3|ENSG00000198755|chr6:35469467-35469470|CCCA/-|frameshift_variant ENST00000478340.2_1_6:35437033-35438524:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.2741394042969 2 466.271627 930.528701 2.7419 0.0012785 1.3316 0.00062089 4.0735 0.0018994 466.272210486856 25.745 0.21299 26.37 26.233 26.446 0.62505 29 23 2 0 0 0 0.36624 1 11785 11785 30.637 3.7529 1 342780 32873 5930 20890 20959 37047 37047 0.06065794996993645 TPRPKFSV 8 Unmodified _TPRPKFSV_ 0 0 0 ENST00000478340.2_1_6:35437033-35438524:+|nuORF;ENSG00000198755|ENST00000322203|RPL10A;ENST00000464112.5_1_6:35436546-35438524:+|nuORF;RPL10A|p.H84Wfs*6|1|0.3|ENSG00000198755|chr6:35469467-35469470|CCCA/-|frameshift_variant ENST00000478340.2_1_6:35437033-35438524:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 466.271627 930.528701 2.5717 0.0011991 0.26673 0.00012437 2.8384 0.0013235 466.2716467687891 25.328 0.14981 26.092 25.988 26.138 0.76357 -0.1389 -0.0005565 NaN 30.637 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 341650 32874 5930 20890 20959 0.06065794996993645 TPRPRIKKW 9 Unmodified _TPRPRIKKW_ 0 0 0 REV__ENST00000571676.5_1_16:11858892-11864657:-|nuORF REV__ENST00000571676.5_1_16:11858892-11864657:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 591.3677978515625 2 591.366924 1180.7193 NaN NaN NaN NaN NaN NaN NaN 89.182 1 89.182 88.682 89.682 0 0 0 0 0.8984 1 46508 46508 3.9444 0.66309 1 + 32875 11581 20891 20960 37048 37048 0.1361650137905599 TPRPRPRPRRR 11 Unmodified _TPRPRPRPRRR_ 0 0 0 REV__ENST00000341948.6_1_5:140595634-140595910:+|nuORF REV__ENST00000341948.6_1_5:140595634-140595910:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.3007507324219 3 482.299265 1443.87596 3.3683 0.0016245 -0.10155 -4.898E-05 3.2668 0.0015756 482.29919660558926 101.04 0.12482 101.64 101.59 101.71 0.59717 15 5 4 0 0 0 0.91459 1 46785 46785 0.094841 0 1 5962300 + 32876 15468 20892 20961 37049 37049 0.17178179322081633 TPRRLKRRRRQ 11 Unmodified _TPRRLKRRRRQ_ 0 0 0 ENST00000321448.12_1_11:74648098-74660104:-|nuORF;ENST00000530562.5_1_11:74648079-74660104:-|nuORF ENST00000321448.12_1_11:74648098-74660104:-|nuORF ENST00000321448.12_1_11:74648098-74660104:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.3280334472656 3 508.325702 1521.95528 4.1245 0.0020966 -0.46787 -0.00023783 3.6567 0.0018588 508.32535498629574 105.87 0.1307 106.19 106.11 106.24 0.31782 17 5 4 0 0 0 0.91489 1 48875 48875 0 0 1 798390 32877 6929 20893 20962 37050 37050 0.21517826276226515 TPRRLKRRRRQ 11 Unmodified _TPRRLKRRRRQ_ 0 0 0 ENST00000321448.12_1_11:74648098-74660104:-|nuORF;ENST00000530562.5_1_11:74648079-74660104:-|nuORF ENST00000321448.12_1_11:74648098-74660104:-|nuORF ENST00000321448.12_1_11:74648098-74660104:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.3274230957031 3 508.325702 1521.95528 3.5189 0.0017887 -0.43818 -0.00022274 3.0807 0.001566 508.3255743988552 105.85 0.18919 106.45 106.36 106.55 0.59969 14 6 4 0 0 0 0.91489 1 48893 48893 0 0 1 1151700 32878 6929 20893 20962 37051 37051 0.21517826276226515 TPRRLKRRRRQ 11 Unmodified _TPRRLKRRRRQ_ 0 0 0 ENST00000321448.12_1_11:74648098-74660104:-|nuORF;ENST00000530562.5_1_11:74648079-74660104:-|nuORF ENST00000321448.12_1_11:74648098-74660104:-|nuORF ENST00000321448.12_1_11:74648098-74660104:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 305.185302734375 5 305.398332 1521.95528 2.3059 0.00070422 -0.60296 -0.00018414 1.703 0.00052008 305.5988611508458 44.856 0.21916 45.506 45.346 45.566 0.64999 10 7 2 0 0 0 0.13295 1 20501 20501 0 0 1 478320 32879 6929 20893 20962 37052 37052 0.21517826276226515 TPRWQYKIVRW 11 Unmodified _TPRWQYKIVRW_ 0 0 0 REV__ENST00000523916.5_1_4:185550589-185552262:-|nuORF REV__ENST00000523916.5_1_4:185550589-185552262:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 767.1868896484375 2 766.927877 1531.8412 NaN NaN NaN NaN NaN NaN NaN 83.717 1 83.745 83.245 84.245 0.028603 0 0 0 1.0072 1 41613 41613 1.3295 0.36726 1 + 32880 17070 20894 20963 37053 37053 0.09655498670758789 TPSHAHRL 8 Unmodified _TPSHAHRL_ 0 0 0 REV__ENST00000529360.1_1_11:6232738-6236214:-|nuORF REV__ENST00000529360.1_1_11:6232738-6236214:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 459.71722412109375 2 459.74885 917.483148 2.8211 0.001297 -1.8583 -0.00085433 0.96281 0.00044265 459.7471334222902 36.289 0.51385 37.083 36.874 37.388 0.79342 31 23 2 0 0 0 0.13397 1 16364 16364 9.3474 7.2877 1 428610 + 32881 10350 20895 20964 37054 37054 0.0211056953461366 TPSIDLQRA 9 Unmodified _TPSIDLQRA_ 0 0 0 DENND4A|p.E1652Kfs*2|1|0.33|ENSG00000174485|chr15:65667603-65667604|TC/-|frameshift_variant;nc|ENSG00000174485|Q7Z401|DENND4A;nc|ENSG00000174485|Q7Z401-2|DENND4A;ENSG00000174485|ENST00000443035|DENND4A DENND4A|p.E1652Kfs*2|1|0.33|ENSG00000174485|chr15:65667603-65667604|TC/-|frameshift_variant DENND4A|p.E1652Kfs*2|1|0.33|ENSG00000174485|chr15:65667603-65667604|TC/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.5423278808594 3 334.185579 999.534909 2.3029 0.0007696 -0.29035 -9.7032E-05 2.0126 0.00067257 334.18552749195754 14.98 0.38509 15.206 14.963 15.348 0.22622 50 38 2 0 0 0 0.10683 1 6556 6556 4.897 0 1 99216 32882 262 20896 20965 37055 37055 0.03512268437839339 TPSPPSVF 8 Unmodified _TPSPPSVF_ 0 0 0 nc|ENSG00000138443|Q9NYB9-3|ABI2;ENST00000441061.5_2_2:204231693-204292072:+|nuORF;nc|ENSG00000138443|Q9NYB9-2|ABI2;nc|ENSG00000138443|Q9NYB9-4|ABI2;nc|ENSG00000138443|Q9NYB9|ABI2;ENSG00000138443|ENST00000261018|ABI2 nc|ENSG00000138443|Q9NYB9-3|ABI2 nc|ENSG00000138443|Q9NYB9-3|ABI2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 416.2170104980469 2 416.215986 830.417419 2.8152 0.0011717 -0.21658 -9.0144E-05 2.5986 0.0010816 416.2155332058241 63.012 0.31902 63.262 63.081 63.4 0.24965 28 17 2 0 0 0 0.14267 1 28836 28836 2.5775 0 1 1613900 32883 3093 20897 20966 37056 37056 -0.004572644309519092 TPSPPSVF 8 Unmodified _TPSPPSVF_ 0 0 0 nc|ENSG00000138443|Q9NYB9-3|ABI2;ENST00000441061.5_2_2:204231693-204292072:+|nuORF;nc|ENSG00000138443|Q9NYB9-2|ABI2;nc|ENSG00000138443|Q9NYB9-4|ABI2;nc|ENSG00000138443|Q9NYB9|ABI2;ENSG00000138443|ENST00000261018|ABI2 nc|ENSG00000138443|Q9NYB9-3|ABI2 nc|ENSG00000138443|Q9NYB9-3|ABI2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 416.215986 830.417419 2.7894 0.001161 0.19755 8.2224E-05 2.9869 0.0012432 416.215644883594 62.544 0.41673 63.204 62.998 63.415 0.66008 -0.029001 9.6584E-05 NaN 2.5775 57 26 3 NaN NaN NaN NaN 0 NaN NaN 0 2668800 32884 3093 20897 20966 -0.004572644309519092 TPSPSADLL 9 Unmodified _TPSPSADLL_ 0 0 0 ENSG00000196961|ENST00000354293|AP2A1;nc|ENSG00000196961|O95782|AP2A1;ENSG00000183020|ENST00000448903|AP2A2;nc|ENSG00000183020|O94973-2|AP2A2;ENST00000600466.1_1_19:50304984-50305399:+|nuORF;ENST00000597774.5_1_19:50303271-50309027:+|nuORF ENSG00000196961|ENST00000354293|AP2A1 ENSG00000196961|ENST00000354293|AP2A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 900.4696655273438 1 900.467289 899.460012 3.2461 0.002923 -0.33255 -0.00029945 2.9135 0.0026235 900.4668299489455 54.503 0.25311 55.298 55.159 55.412 0.79552 24 16 2 0 0 0 0.0028306 2 24877 24835;24877 96.285 32.048 1 500250 32885 5789 20898 20967 37057;37058 37058 0.006260859066173907 TPSPSADLL 9 Unmodified _TPSPSADLL_ 0 0 0 ENSG00000196961|ENST00000354293|AP2A1;nc|ENSG00000196961|O95782|AP2A1;ENSG00000183020|ENST00000448903|AP2A2;nc|ENSG00000183020|O94973-2|AP2A2;ENST00000600466.1_1_19:50304984-50305399:+|nuORF;ENST00000597774.5_1_19:50303271-50309027:+|nuORF ENSG00000196961|ENST00000354293|AP2A1 ENSG00000196961|ENST00000354293|AP2A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.7388916015625 2 450.737283 899.460012 2.4186 0.0010901 0.54193 0.00024427 2.9605 0.0013344 450.7373806837273 54.503 0.2771 55.298 55.113 55.39 0.79552 29 18 2 0 0 0 0.028312 1 24847 24847 57.471 13.064 1 598480 32886 5789 20898 20967 37059 37059 0.006260859066173907 TPSPSADLL 9 Unmodified _TPSPSADLL_ 0 0 0 ENSG00000196961|ENST00000354293|AP2A1;nc|ENSG00000196961|O95782|AP2A1;ENSG00000183020|ENST00000448903|AP2A2;nc|ENSG00000183020|O94973-2|AP2A2;ENST00000600466.1_1_19:50304984-50305399:+|nuORF;ENST00000597774.5_1_19:50303271-50309027:+|nuORF ENSG00000196961|ENST00000354293|AP2A1 ENSG00000196961|ENST00000354293|AP2A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.739013671875 2 450.737283 899.460012 NaN NaN NaN NaN NaN NaN NaN 55.326 1 55.592 55.092 56.092 0.26543 0 0 0 0.02351 1 25300 25300 67.344 16.489 1 32887 5789 20898 20967 37060 37060 0.006260859066173907 TPSPSAFIV 9 Unmodified _TPSPSAFIV_ 0 0 0 REV__ENST00000506184.6_1_5:56471512-56471593:+|nuORF REV__ENST00000506184.6_1_5:56471512-56471593:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 459.71722412109375 2 459.750193 917.485833 3.0195 0.0013882 -3.9703 -0.0018253 -0.95075 -0.00043711 459.7480037135445 36.257 0.21622 36.883 36.762 36.978 0.62631 10 6 2 0 0 0 0.056326 1 16558 16558 21.747 4.8044 1 228950 + 32888 16931 20899 20968 37061 37061 0.023789801488987905 TPSTKNARL 9 Unmodified _TPSTKNARL_ 0 0 0 REV__nc|ENSG00000138834|Q9UPT6|MAPK8IP3 REV__nc|ENSG00000138834|Q9UPT6|MAPK8IP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.28546142578125 2 494.282723 986.550893 3.2615 0.0016121 3.6309 0.0017947 6.8923 0.0034068 494.2842197169742 35.295 0.15395 35.918 35.839 35.993 0.62294 7 4 2 0 0 0 0.29781 1 16190 16190 16.942 2.104 1 257590 + 32889 12198 20900 20969 37062 37062 0.057079746747604077 TPSVHEPVL 9 Unmodified _TPSVHEPVL_ 0 0 0 ENSG00000128731|ENST00000261609|HERC2;ENST00000570209.1_1_15:31108772-31126588:+|nuORF ENSG00000128731|ENST00000261609|HERC2 ENSG00000128731|ENST00000261609|HERC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.7674255371094 2 489.766374 977.518196 3.1668 0.001551 -0.75874 -0.00037161 2.4081 0.0011794 489.7661504942796 40.732 0.23436 40.732 40.628 40.862 0 17 11 2 0 0 0 1.1387E-08 1 18501 18501 154.46 98.286 1 1916000 32890 2525 20901 20970 37063 37063 0.028537675519032746 TPSVHEPVL 9 Unmodified _TPSVHEPVL_ 0 0 0 ENSG00000128731|ENST00000261609|HERC2;ENST00000570209.1_1_15:31108772-31126588:+|nuORF ENSG00000128731|ENST00000261609|HERC2 ENSG00000128731|ENST00000261609|HERC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.2688903808594 2 489.766374 977.518196 3.2006 0.0015675 -0.044209 -2.1652E-05 3.1564 0.0015459 489.7662366844745 39.836 0.29364 40.636 40.477 40.77 0.80014 30 13 3 0 0 0 0.0063783 2 18032 18032;18086 88.904 48.946 1 1179100 32891 2525 20901 20970 37064;37065 37064 0.028537675519032746 TPSVHEPVL 9 Unmodified _TPSVHEPVL_ 0 0 0 ENSG00000128731|ENST00000261609|HERC2;ENST00000570209.1_1_15:31108772-31126588:+|nuORF ENSG00000128731|ENST00000261609|HERC2 ENSG00000128731|ENST00000261609|HERC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.7680969238281 2 489.766374 977.518196 3.3117 0.0016219 -0.049647 -2.4316E-05 3.262 0.0015976 489.76631898515967 40.511 0.24685 40.78 40.644 40.891 0.26904 21 8 3 0 0 0 0.0019388 2 18408 18408;18467 104.8 56.453 1 1720900 32892 2525 20901 20970 37066;37067 37066 0.028537675519032746 TPSVHEPVL 9 Unmodified _TPSVHEPVL_ 0 0 0 ENSG00000128731|ENST00000261609|HERC2;ENST00000570209.1_1_15:31108772-31126588:+|nuORF ENSG00000128731|ENST00000261609|HERC2 ENSG00000128731|ENST00000261609|HERC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.7675476074219 2 489.766374 977.518196 3.4561 0.0016927 -0.26766 -0.00013109 3.1884 0.0015616 489.7661939638827 40.065 0.20346 40.707 40.569 40.772 0.64135 15 6 3 0 0 0 0.0012997 1 18296 18296 120.45 72.105 1 1437600 32893 2525 20901 20970 37068 37068 0.028537675519032746 TPTHRRRLWAA 11 Unmodified _TPTHRRRLWAA_ 0 0 0 ENST00000268695.9_1_16:88907439-88909137:-|nuORF ENST00000268695.9_1_16:88907439-88909137:-|nuORF ENST00000268695.9_1_16:88907439-88909137:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 682.883544921875 2 682.886544 1363.75853 NaN NaN NaN NaN NaN NaN NaN 82.578 1 82.578 82.078 83.078 0 0 0 0 1.0057 1 41391 41391 3.2813 0.28607 1 32894 6635 20902 20971 37069 37069 0.09120601662652916 TPTRASPQL 9 Unmodified _TPTRASPQL_ 0 0 0 nc|ENSG00000163359|P12111-2|COL6A3;ENSG00000163359|ENST00000295550|COL6A3;COL6A3|p.L2541Cfs*84|1|0.26|ENSG00000163359|chr2:237344398-237344398|G/-|frameshift_variant;nc|ENSG00000163359|P12111-4|COL6A3;ENST00000491769.1_1_2:238252944-238263658:-|nuORF nc|ENSG00000163359|P12111-2|COL6A3 nc|ENSG00000163359|P12111-2|COL6A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.7712707519531 2 485.769448 969.524344 3.339 0.001622 0.1419 6.8929E-05 3.4809 0.0016909 485.7694866081749 21.84 0.31752 21.84 21.67 21.987 0 59 26 3 0 0 0 0.026853 1 9784 9784 59.368 17.413 1 363050 32895 4204 20903 20972 37070 37070 0.03836285783427229 TPTRKKKKKK 10 Unmodified _TPTRKKKKKK_ 0 0 0 ENST00000308713.9_3_16:29910378-29910510:-|nuORF ENST00000308713.9_3_16:29910378-29910510:-|nuORF ENST00000308713.9_3_16:29910378-29910510:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 621.4857788085938 2 621.922064 1241.82957 NaN NaN NaN NaN NaN NaN NaN 89.499 1 89.499 88.999 89.999 0 0 0 0 1.0004 1 46759 46759 1.3295 0 1 32896 6858 20904 20973 37071 37071 0.2183330164743893 TPTSVLDYF 9 Unmodified _TPTSVLDYF_ 0 0 0 ENST00000504849.5_1_4:39324953-39367861:-|nuORF;ENSG00000035928|ENST00000349703|RFC1;nc|ENSG00000035928|P35251|RFC1 ENST00000504849.5_1_4:39324953-39367861:-|nuORF ENST00000504849.5_1_4:39324953-39367861:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.7599487304688 2 521.758215 1041.50188 NaN NaN NaN NaN NaN NaN NaN 85.513 1 85.762 85.262 86.262 0.24857 0 0 0 0.14073 1 39350 39350 34.102 18.255 1 32897 512 20905 20974 37072 37072 -0.017213584048704433 TPVEKETV 8 Unmodified _TPVEKETV_ 0 0 0 nc|ENSG00000213079|Q9UPN6-2|SCAF8;ENSG00000213079|ENST00000367178|SCAF8;ENST00000479234.1_1_6:155143366-155146055:+|nuORF nc|ENSG00000213079|Q9UPN6-2|SCAF8 nc|ENSG00000213079|Q9UPN6-2|SCAF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.24859619140625 2 451.745108 901.475663 2.9406 0.0013284 1.4778 0.00066759 4.4184 0.001996 451.7457445939292 48.837 0.31506 49.099 48.932 49.247 0.26209 17 12 2 0 0 0 0.58952 1 22324 22324 14.838 0 1 482020 32898 6082 20906 20975 37073 37073 0.020983724236771195 TPVFIFERL 9 Unmodified _TPVFIFERL_ 0 0 0 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;UBR4|p.Q4684Hfs*5|1|0.26|ENSG00000127481|chr1:19093351-19093372|TGCATTCTGGGTGATCCCCTTC/-|frameshift_variant nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.3242797851562 2 561.321317 1120.62808 3.3582 0.001885 0.80449 0.00045158 4.1627 0.0023366 561.3216187720554 79.592 0.2047 79.843 79.719 79.924 0.25127 16 11 2 0 0 0 0.082627 1 36660 36660 37.075 11.675 1 429680 32899 2481 20907 20976 37074 37074 0.07259192891069688 TPVFIFERL 9 Unmodified _TPVFIFERL_ 0 0 0 nc|ENSG00000127481|Q5T4S7-3|UBR4;nc|ENSG00000127481|Q5T4S7-4|UBR4;ENSG00000127481|ENST00000375254|UBR4;nc|ENSG00000127481|Q5T4S7-2|UBR4;UBR4|p.Q4684Hfs*5|1|0.26|ENSG00000127481|chr1:19093351-19093372|TGCATTCTGGGTGATCCCCTTC/-|frameshift_variant nc|ENSG00000127481|Q5T4S7-3|UBR4 nc|ENSG00000127481|Q5T4S7-3|UBR4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.8246459960938 2 561.321317 1120.62808 3.562 0.0019994 -0.94668 -0.00053139 2.6153 0.001468 561.3205850970932 78.99 0.24646 79.651 79.512 79.758 0.66082 28 15 2 0 0 0 0.082627 1 36394 36394 37.075 14.338 1 386650 32900 2481 20907 20976 37075 37075 0.07259192891069688 TPVGSSYGDLL 11 Unmodified _TPVGSSYGDLL_ 0 0 0 ENSG00000150347|ENST00000279873|ARID5B;nc|ENSG00000150347|Q14865-2|ARID5B ENSG00000150347|ENST00000279873|ARID5B ENSG00000150347|ENST00000279873|ARID5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.781005859375 2 554.779679 1107.5448 3.6936 0.0020491 -0.75949 -0.00042135 2.9341 0.0016278 554.7792850397552 65.755 0.26965 66.003 65.84 66.109 0.24848 26 15 2 0 0 0 0.0021951 1 30133 30133 75.761 46.679 1 861780 32901 3665 20908 20977 37076 37076 -0.00466588347421748 TPVGSSYGDLL 11 Unmodified _TPVGSSYGDLL_ 0 0 0 ENSG00000150347|ENST00000279873|ARID5B;nc|ENSG00000150347|Q14865-2|ARID5B ENSG00000150347|ENST00000279873|ARID5B ENSG00000150347|ENST00000279873|ARID5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.7806396484375 2 554.779679 1107.5448 3.61 0.0020028 -0.81146 -0.00045018 2.7986 0.0015526 554.7795283091439 65.157 0.27035 65.813 65.692 65.962 0.65672 29 17 2 0 0 0 0.0087339 1 29895 29895 66.457 38.828 1 615600 32902 3665 20908 20977 37077 37077 -0.00466588347421748 TPVRYGLRLNM 11 Unmodified _TPVRYGLRLNM_ 0 0 0 ENSG00000129204|ENST00000574788|USP6;nc|ENSG00000129204|P35125-3|USP6;nc|ENSG00000129204|P35125-2|USP6;ENST00000575709.5_1_17:5042349-5076270:+|nuORF;ENST00000585720.1_1_17:58285392-58286144:-|nuORF;ENST00000602493.5_1_17:60360056-60363323:-|nuORF;ENSG00000170832|ENST00000300896|USP32 ENSG00000129204|ENST00000574788|USP6;ENSG00000170832|ENST00000300896|USP32 ENSG00000129204|ENST00000574788|USP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 660.5223999023438 2 660.366264 1318.71798 NaN NaN NaN NaN NaN NaN NaN 94.29 1 94.29 93.79 94.79 0 0 0 0 1.0044 1 50536 50536 4.897 0.36815 1 32903 2543;4769 20909 20978 37078 37078 0.07136499227999593 TPVVKSAL 8 Unmodified _TPVVKSAL_ 0 0 0 nc|ENSG00000110330|Q13490-2|BIRC2;ENSG00000110330|ENST00000227758|BIRC2 nc|ENSG00000110330|Q13490-2|BIRC2 nc|ENSG00000110330|Q13490-2|BIRC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 407.75604248046875 2 407.755278 813.496004 NaN NaN NaN NaN NaN NaN NaN 29.259 1 29.259 28.759 29.759 0 0 0 0 0.81088 1 13203 13203 18.146 3.3081 1 32904 1709 20910 20979 37079 37079 0.08179587874133176 TPVVKSAL 8 Unmodified _TPVVKSAL_ 0 0 0 nc|ENSG00000110330|Q13490-2|BIRC2;ENSG00000110330|ENST00000227758|BIRC2 nc|ENSG00000110330|Q13490-2|BIRC2 nc|ENSG00000110330|Q13490-2|BIRC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 407.75628662109375 2 407.755278 813.496004 2.9113 0.0011871 -0.11166 -4.5531E-05 2.7996 0.0011416 407.75515713617636 28.492 0.19956 29.111 29.003 29.203 0.61947 17 10 2 0 0 0 0.45971 1 13067 13067 24.021 9.1823 1 213440 32905 1709 20910 20979 37080 37080 0.08179587874133176 TPWKQMWGTYY 11 Unmodified _TPWKQMWGTYY_ 0 0 0 REV__nc|ENSG00000132781|Q9UIF7-3|MUTYH REV__nc|ENSG00000132781|Q9UIF7-3|MUTYH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 730.9480590820312 2 730.837005 1459.65946 NaN NaN NaN NaN NaN NaN NaN 105.41 1 105.41 104.91 105.91 0 0 0 0 1.0061 1 57925 57925 2.7352 0 1 + 32906 17944 20911 20980 37081 37081 -0.05198602137124908 TQHSRVLSL 9 Unmodified _TQHSRVLSL_ 0 0 0 nc|ENSG00000092969|P61812-2|TGFB2;ENSG00000092969|ENST00000366930|TGFB2;ENST00000479322.1_1_1:218607587-218614701:+|nuORF nc|ENSG00000092969|P61812-2|TGFB2 nc|ENSG00000092969|P61812-2|TGFB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.53411865234375 3 347.533091 1039.57744 2.4987 0.00086839 0.54033 0.00018778 3.0391 0.0010562 347.533205376703 26.82 0.31791 27.085 26.898 27.216 0.26489 48 20 3 0 0 0 0.30982 2 12192 12147;12192 11.518 0 1 731680 32907 1103 20912 20981 37082;37083 37083 0.05923663566090909 TQHSRVLSL 9 Unmodified _TQHSRVLSL_ 0 0 0 nc|ENSG00000092969|P61812-2|TGFB2;ENSG00000092969|ENST00000366930|TGFB2;ENST00000479322.1_1_1:218607587-218614701:+|nuORF nc|ENSG00000092969|P61812-2|TGFB2 nc|ENSG00000092969|P61812-2|TGFB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.7987060546875 2 520.795998 1039.57744 3.3786 0.0017596 1.0406 0.00054196 4.4193 0.0023015 520.796385141114 26.817 0.2391 27.082 26.924 27.163 0.26489 25 14 2 0 0 0 0.088474 1 12168 12168 35.612 20.364 1 313000 32908 1103 20912 20981 37084 37084 0.05923663566090909 TQHSRVLSL 9 Unmodified _TQHSRVLSL_ 0 0 0 nc|ENSG00000092969|P61812-2|TGFB2;ENSG00000092969|ENST00000366930|TGFB2;ENST00000479322.1_1_1:218607587-218614701:+|nuORF nc|ENSG00000092969|P61812-2|TGFB2 nc|ENSG00000092969|P61812-2|TGFB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.5340576171875 3 347.533091 1039.57744 2.3168 0.00080518 0.65572 0.00022789 2.9726 0.0010331 347.533223865806 26.343 0.31994 26.968 26.832 27.152 0.62505 39 16 3 0 0 0 0.10584 1 12088 12088 23.801 5.6547 1 875970 32909 1103 20912 20981 37085 37085 0.05923663566090909 TQHSRVLSL 9 Unmodified _TQHSRVLSL_ 0 0 0 nc|ENSG00000092969|P61812-2|TGFB2;ENSG00000092969|ENST00000366930|TGFB2;ENST00000479322.1_1_1:218607587-218614701:+|nuORF nc|ENSG00000092969|P61812-2|TGFB2 nc|ENSG00000092969|P61812-2|TGFB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.7976684570312 2 520.795998 1039.57744 3.2668 0.0017013 0.59155 0.00030808 3.8583 0.0020094 520.7962777965272 26.367 0.24282 26.992 26.868 27.111 0.62505 23 12 2 0 0 0 0.10277 1 12111 12111 32.037 8.0169 1 359560 32910 1103 20912 20981 37086 37086 0.05923663566090909 TQHWFHGRISR 11 Unmodified _TQHWFHGRISR_ 0 0 0 nc|ENSG00000106070|Q13322-3|GRB10;nc|ENSG00000106070|Q13322-2|GRB10;nc|ENSG00000106070|Q13322-4|GRB10;ENSG00000106070|ENST00000401949|GRB10 nc|ENSG00000106070|Q13322-3|GRB10 nc|ENSG00000106070|Q13322-3|GRB10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 712.8711547851562 2 712.868351 1423.72215 NaN NaN NaN NaN NaN NaN NaN 73.489 1 74.188 73.688 74.688 0.69881 0 0 0 1.0044 1 35448 35448 4.897 0.36815 1 32911 1551 20913 20982 37087 37087 0.027237247659286368 TQICVNHFI 9 Unmodified _TQICVNHFI_ 0 0 0 Tigger1_dup3125|chr4:68946744-68948416:-|1.16044740011086|0.0637849449006259|4.19|511.0|16|1|sense Tigger1_dup3125|chr4:68946744-68948416:-|1.16044740011086|0.0637849449006259|4.19|511.0|16|1|sense Tigger1_dup3125|chr4:68946744-68948416:-|1.16044740011086|0.0637849449006259|4.19|511.0|16|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.7717895507812 2 537.773677 1073.5328 2.8277 0.0015207 2.4985 0.0013436 5.3262 0.0028643 537.7758091082914 80.386 0.4883 80.635 80.322 80.81 0.24947 70 28 3 0 0 0 0.10169 1 36932 36932 32.305 0 1 1525800 32912 18270 20914 20983 37088 37088 -0.0010248357161799504 TQIKSGRR 8 Unmodified _TQIKSGRR_ 0 0 0 REV__nc|ENSG00000138768|O60763-2|USO1 REV__nc|ENSG00000138768|O60763-2|USO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.2847900390625 2 473.283057 944.551562 2.9633 0.0014025 0.90914 0.00043028 3.8725 0.0018328 473.2831257077574 78.48 0.3464 79.142 78.958 79.305 0.66198 55 22 3 0 0 0 0.71911 1 36179 36179 4.3292 0 1 1738700 + 32913 17962 20915 20984 37089 37089 0.07706814114476401 TQIKSGRR 8 Unmodified _TQIKSGRR_ 0 0 0 REV__nc|ENSG00000138768|O60763-2|USO1 REV__nc|ENSG00000138768|O60763-2|USO1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 473.283057 944.551562 2.9633 0.0014025 0.90914 0.00043028 3.8725 0.0018328 473.2831257077574 78.48 0.3464 79.142 78.958 79.305 0.66198 -0.005135 0.00029323 NaN 4.3292 55 22 3 NaN NaN NaN NaN 0 NaN NaN 0 1738700 + 32914 17962 20915 20984 0.07706814114476401 TQILPPFL 8 Unmodified _TQILPPFL_ 0 0 0 REV__ENST00000531673.5_1_11:112099351-112106686:+|nuORF REV__ENST00000531673.5_1_11:112099351-112106686:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 310.1970520019531 3 310.188261 927.542954 NaN NaN NaN NaN NaN NaN NaN 28.496 1 29.285 28.785 29.785 0.78921 0 0 0 0.99035 1 12835 12835 4.3292 0.13973 1 + 32915 17142 20916 20985 37090 37090 0.07628447425270224 TQKDWKFF 8 Unmodified _TQKDWKFF_ 0 0 0 ENSG00000165807|ENST00000298705|PPP1R36 ENSG00000165807|ENST00000298705|PPP1R36 ENSG00000165807|ENST00000298705|PPP1R36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.2839965820312 2 550.282192 1098.54983 3.3587 0.0018482 0.18201 0.00010016 3.5407 0.0019484 550.2821528050248 63.894 0.37298 64.142 63.897 64.27 0.24803 31 23 2 0 0 0 0.5438 1 29250 29250 18.135 1.9859 1 823260 32916 4424 20917 20986 37091 37091 0.004497603058325694 TQKDWKFF 8 Unmodified _TQKDWKFF_ 0 0 0 ENSG00000165807|ENST00000298705|PPP1R36 ENSG00000165807|ENST00000298705|PPP1R36 ENSG00000165807|ENST00000298705|PPP1R36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.283935546875 2 550.282192 1098.54983 3.4353 0.0018904 0.53387 0.00029378 3.9691 0.0021841 550.2824338040427 63.185 0.31224 63.843 63.728 64.04 0.65808 27 18 2 0 0 0 0.5438 2 28987 28939;28987 18.135 2.4576 1 777230 32917 4424 20917 20986 37092;37093 37093 0.004497603058325694 TQKSIYYIT 9 Unmodified _TQKSIYYIT_ 0 0 0 ENSG00000096384|ENST00000371646|HSP90AB1 ENSG00000096384|ENST00000371646|HSP90AB1 ENSG00000096384|ENST00000371646|HSP90AB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.7665405273438 2 558.800414 1115.58628 NaN NaN NaN NaN NaN NaN NaN 87.948 1 87.948 87.448 88.448 0 0 0 0 0.65681 1 45502 45502 13.906 1.7313 1 32918 1127 20918 20987 37094 37094 0.033105924118899566 TQNPNYYNL 9 Unmodified _TQNPNYYNL_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.7628784179688 2 563.76182 1125.50909 3.2709 0.001844 -0.71654 -0.00040396 2.5544 0.0014401 563.7617157700107 47.262 0.32589 48.091 47.889 48.215 0.82915 27 18 2 0 0 0 0.035495 1 21519 21519 68.081 55.549 1 455280 32919 3406 20919 20988 37095 37095 -0.04864625804430034 TQPGAPSAL 9 Unmodified _TQPGAPSAL_ 0 0 0 ENSG00000175985|ENST00000322564|PLEKHD1 ENSG00000175985|ENST00000322564|PLEKHD1 ENSG00000175985|ENST00000322564|PLEKHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 841.4437866210938 1 841.441409 840.434132 3.5001 0.0029451 0.30596 0.00025744 3.8061 0.0032026 841.4416190213798 47.246 0.29989 48.076 47.915 48.215 0.82915 27 16 2 0 0 0 0.03963 1 21491 21491 51.63 1.6968 1 937800 32920 5058 20920 20989 37096 37096 0.0075323645500020575 TQPGAPSAL 9 Unmodified _TQPGAPSAL_ 0 0 0 ENSG00000175985|ENST00000322564|PLEKHD1 ENSG00000175985|ENST00000322564|PLEKHD1 ENSG00000175985|ENST00000322564|PLEKHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.2255859375 2 421.224342 840.434132 2.6034 0.0010966 1.0481 0.00044147 3.6514 0.0015381 421.22473935260626 47.263 0.36971 48.092 47.878 48.248 0.82915 46 21 3 0 0 0 0.10169 1 21496 21496 32.305 1.6689 1 1560400 32921 5058 20920 20989 37097 37097 0.0075323645500020575 TQPGAPSAL 9 Unmodified _TQPGAPSAL_ 0 0 0 ENSG00000175985|ENST00000322564|PLEKHD1 ENSG00000175985|ENST00000322564|PLEKHD1 ENSG00000175985|ENST00000322564|PLEKHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 841.4456787109375 1 841.441409 840.434132 4.0858 0.0034379 1.1855 0.00099756 5.2713 0.0044355 841.4425894034637 48.014 0.32315 48.276 48.134 48.457 0.26209 21 12 2 0 0 0 0.048676 1 22000 22000 47.749 11.622 1 885840 32922 5058 20920 20989 37098 37098 0.0075323645500020575 TQPGGKFAFF 10 Unmodified _TQPGGKFAFF_ 0 0 0 ENSG00000185164|ENST00000622306|NOMO2;ENSG00000103512|ENST00000287667|NOMO1;ENSG00000103226|ENST00000399336|NOMO3;nc|ENSG00000185164|Q5JPE7|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 ENSG00000185164|ENST00000622306|NOMO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.7860107421875 2 550.282192 1098.54983 3.3587 0.0018482 0.18201 0.00010016 3.5407 0.0019484 550.2821528050248 63.894 0.37298 64.142 63.897 64.27 0.24803 31 23 2 0 0 0 0.68517 1 29202 29202 13.906 1.3745 1 823260 32923 1384 20921 20990 37099 37099 0.004497603058325694 TQRHGRRRRHR 11 Unmodified _TQRHGRRRRHR_ 0 0 0 nc|ENSG00000145103|Q86SU0-2|ILDR1;nc|ENSG00000145103|Q86SU0-6|ILDR1;ENSG00000145103|ENST00000344209|ILDR1;nc|ENSG00000145103|Q86SU0-5|ILDR1 nc|ENSG00000145103|Q86SU0-2|ILDR1 nc|ENSG00000145103|Q86SU0-2|ILDR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.9634094238281 3 505.961535 1514.86277 NaN NaN NaN NaN NaN NaN NaN 30.137 1 30.926 30.426 31.426 0.78921 0 0 0 1.008 1 13604 13604 0.073264 0 1 32924 3456 20922 20991 37100 37100 0.12593741262708136 TQRWFRRRRNQ 11 Unmodified _TQRWFRRRRNQ_ 0 0 0 ENST00000557925.1_1_19:8315741-8320784:+|nuORF;ENST00000558501.5_1_19:8275630-8321979:+|nuORF;ENSG00000090661|ENST00000251363|CERS4 ENST00000557925.1_1_19:8315741-8320784:+|nuORF ENST00000557925.1_1_19:8315741-8320784:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 802.4422607421875 2 802.44308 1602.87161 NaN NaN NaN NaN NaN NaN NaN 57.433 1 58.201 57.701 58.701 0.76861 0 0 0 1.008 1 26298 26298 0.30703 0.30703 1 32925 8945 20923 20992 37101 37101 0.0942867010851387 TQVAIVRHFG 10 Unmodified _TQVAIVRHFG_ 0 0 0 ENSG00000124571|ENST00000265351|XPO5 ENSG00000124571|ENST00000265351|XPO5 ENSG00000124571|ENST00000265351|XPO5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.21484375 3 376.548852 1126.62473 2.7233 0.0010254 -1.6124 -0.00060716 1.1108 0.00041828 376.54838449782955 62.243 0.24965 62.492 62.254 62.503 0.24965 17 10 2 0 0 0 0.12676 1 28485 28485 1.5923 0 1 1045300 32926 2366 20924 20993 37102 37102 0.06647942837048504 TRAKKEVWCG 10 Unmodified _TRAKKEVWCG_ 0 0 0 REV__chrX:153673078-153674274|438|58.7|0.58|6.66|-|0|PNCK,PNCK|1 REV__chrX:153673078-153674274|438|58.7|0.58|6.66|-|0|PNCK,PNCK|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.21185302734375 3 393.209731 1176.60736 NaN NaN NaN NaN NaN NaN NaN 75.717 1 75.717 75.217 76.217 0 0 0 0 0.99774 1 37108 37108 1.7423 0.14999 1 + 32927 10060 20925 20994 37103 37103 0.026122792397700323 TRAKSRRRPSR 11 Unmodified _TRAKSRRRPSR_ 0 0 0 ENST00000376004.4_1_13:103450841-103451195:-|nuORF ENST00000376004.4_1_13:103450841-103451195:-|nuORF ENST00000376004.4_1_13:103450841-103451195:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 457.6095275878906 3 457.611508 1369.8127 NaN NaN NaN NaN NaN NaN NaN 105.86 1 105.86 105.36 106.36 0 0 0 0 1.0073 1 58164 58164 1.2148 0 1 32928 7394 20926 20995 37104 37104 0.14258193814225706 TRARAPGK 8 Unmodified _TRARAPGK_ 0 0 0 REV__ENSG00000164099|ENST00000296498|PRSS12 REV__ENSG00000164099|ENST00000296498|PRSS12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 428.76068115234375 2 428.759218 855.503883 3.5881 0.0015385 -0.2808 -0.0001204 3.3073 0.0014181 428.7590447463973 94.663 0.40395 94.923 94.709 95.113 0.25975 58 23 3 0 0 0 0.74709 1 43565 43565 2.0598 1.3694 1 1246300 + 32929 13060 20927 20996 37105 37105 0.0703515991427821 TRARKLKGLPK 11 Unmodified _TRARKLKGLPK_ 0 0 0 REV__nc|ENSG00000152457|Q96SD1-2|DCLRE1C REV__nc|ENSG00000152457|Q96SD1-2|DCLRE1C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 634.7589111328125 2 634.419688 1266.82482 NaN NaN NaN NaN NaN NaN NaN 38.711 1 38.975 38.475 39.475 0.26408 0 0 0 1.0075 1 17619 17619 0.96228 0.56156 1 + 32930 12651 20928 20997 37106 37106 0.20208417504704812 TRARSLWR 8 Unmodified _TRARSLWR_ 0 0 0 RYR3|p.T4618Pfs*43|1|0.02|ENSG00000198838|chr15:33854439-33854440|-/TCCAGGTGCAG|frameshift_variant;nc|ENSG00000198838|Q15413-2|RYR3;ENSG00000198838|ENST00000634891|RYR3;nc|ENSG00000198838|Q15413-3|RYR3 RYR3|p.T4618Pfs*43|1|0.02|ENSG00000198838|chr15:33854439-33854440|-/TCCAGGTGCAG|frameshift_variant RYR3|p.T4618Pfs*43|1|0.02|ENSG00000198838|chr15:33854439-33854440|-/TCCAGGTGCAG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.3052978515625 2 523.304324 1044.5941 3.1871 0.0016678 -0.69548 -0.00036395 2.4916 0.0013039 523.3038944277339 78.776 0.97421 79.027 78.657 79.631 0.25127 105 65 2 0 0 0 0.7471 1 36269 36269 1.8442 0 1 425110 32931 5947 20929 20998 37107 37107 0.07358209242693192 TRATRPLPRV 10 Unmodified _TRATRPLPRV_ 0 0 0 REV__ENST00000495916.1_1_7:97361495-97362128:+|nuORF REV__ENST00000495916.1_1_7:97361495-97362128:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.25494384765625 3 389.575401 1165.70437 2.8242 0.0011002 1.4981 0.00058361 4.3222 0.0016838 389.5762335706196 39.196 0.1041 39.46 39.406 39.51 0.26408 6 3 2 0 0 0 0.12676 1 17838 17838 3.3196 0.24738 1 147340 + 32932 16846 20930 20999 37108 37108 0.12815009511041353 TRDPAAAR 8 Unmodified _TRDPAAAR_ 0 0 0 REV__ENSG00000165868|ENST00000369209|HSPA12A REV__ENSG00000165868|ENST00000369209|HSPA12A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 429.2360534667969 2 429.233033 856.451513 NaN NaN NaN NaN NaN NaN NaN 64.399 1 65.114 64.614 65.614 0.71521 0 0 0 0.99035 1 30339 30339 5.2307 0 1 + 32933 13193 20931 21000 37109 37109 0.01754576780649586 TREKKFLD 8 Unmodified _TREKKFLD_ 0 0 0 ENSG00000175931|ENST00000319380|UBE2O ENSG00000175931|ENST00000319380|UBE2O ENSG00000175931|ENST00000319380|UBE2O MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.1985168457031 3 346.197708 1035.57129 2.7193 0.00094143 0.068535 2.3727E-05 2.7879 0.00096515 346.19772445328636 46 0.38698 46.651 46.412 46.799 0.65104 26 11 3 0 0 0 0.13978 1 21093 21093 9.3831 0 1 2292800 32934 5055 20932 21001 37110 37110 0.05493145334571636 TRERFSETV 9 Unmodified _TRERFSETV_ 0 0 0 REV__nc|ENSG00000099954|Q9BXF3-2|CECR2 REV__nc|ENSG00000099954|Q9BXF3-2|CECR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.5287780761719 3 375.528005 1123.56219 2.8491 0.0010699 -1.0923 -0.00041018 1.7568 0.00065974 375.8618116881488 40.009 0.29769 40.276 40.135 40.432 0.26696 21 12 2 0 0 0 1.0041 1 18218 18218 2.2828 0 1 1226500 + 32935 10794 20933 21002 37111 37111 0.005347519782162635 TRFLLRLHI 9 Unmodified _TRFLLRLHI_ 0 0 0 ENST00000510676.6_2_5:71622555-71630918:+|nuORF ENST00000510676.6_2_5:71622555-71630918:+|nuORF ENST00000510676.6_2_5:71622555-71630918:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 390.25006103515625 3 390.248625 1167.72405 2.981 0.0011633 -0.25854 -0.0001009 2.7225 0.0010625 390.24861500731816 28.681 0.22267 28.681 28.531 28.753 0 30 18 2 0 0 0 1.0246 1 12953 12953 4.1895 0.60244 1 392230 32936 8557 20934 21003 37112 37112 0.1468938552184227 TRFWFLGRGK 10 Unmodified _TRFWFLGRGK_ 0 0 0 REV__ENST00000284292.10_1_11:124616777-124616888:+|nuORF REV__ENST00000284292.10_1_11:124616777-124616888:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 423.24127197265625 3 423.24013 1266.69856 2.7462 0.0011623 1.4717 0.00062287 4.2179 0.0017852 423.2407752462094 36.803 0.2496 37.596 37.481 37.73 0.79342 29 10 4 0 0 0 0.76575 1 16672 16672 5.7834 1.5939 1 997460 + 32937 15102 20935 21004 37113 37113 0.07587910999404812 TRFWRRRLRRP 11 Unmodified _TRFWRRRLRRP_ 0 0 0 REV__ENST00000574110.5_1_19:30433210-30433438:+|nuORF REV__ENST00000574110.5_1_19:30433210-30433438:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.5691528320312 3 533.990431 1598.94946 NaN NaN NaN NaN NaN NaN NaN 88.699 1 88.751 88.251 89.251 0.052155 0 0 0 1.0082 1 45267 45267 0.08335 0 1 + 32938 17463 20936 21005 37114 37114 0.173947277645766 TRGPVVRL 8 Unmodified _TRGPVVRL_ 0 0 0 nc|ENSG00000113161|P04035-2|HMGCR;ENSG00000113161|ENST00000287936|HMGCR;nc|ENSG00000113161|P04035-3|HMGCR nc|ENSG00000113161|P04035-2|HMGCR nc|ENSG00000113161|P04035-2|HMGCR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 449.28619384765625 2 449.285069 896.555585 2.9602 0.00133 -0.26514 -0.00011912 2.6951 0.0012109 449.28482206888594 26.69 0.11823 26.69 26.631 26.749 0 10 7 2 0 0 0 0.47805 1 12027 12027 22.736 6.8891 1 333100 32939 1837 20937 21006 37115 37115 0.10316903608190842 TRGPVVRL 8 Unmodified _TRGPVVRL_ 0 0 0 nc|ENSG00000113161|P04035-2|HMGCR;ENSG00000113161|ENST00000287936|HMGCR;nc|ENSG00000113161|P04035-3|HMGCR nc|ENSG00000113161|P04035-2|HMGCR nc|ENSG00000113161|P04035-2|HMGCR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 449.2855224609375 2 449.285069 896.555585 2.6457 0.0011887 0.016923 7.6031E-06 2.6626 0.0011963 449.2851350801307 25.739 0.20475 26.503 26.382 26.586 0.76356 17 11 2 0 0 0 0.64827 1 11567 11567 10.074 2.1638 1 255320 32940 1837 20937 21006 37116 37116 0.10316903608190842 TRGTAKGPRV 10 Unmodified _TRGTAKGPRV_ 0 0 0 REV__ENST00000579226.5_1_18:3247490-3247568:+|nuORF REV__ENST00000579226.5_1_18:3247490-3247568:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 348.2078857421875 3 348.208718 1041.60433 NaN NaN NaN NaN NaN NaN NaN 43.524 1 43.524 43.024 44.024 0 0 0 0 0.99572 1 19844 19844 2.8433 0 1 + 32941 17497 20938 21007 37117 37117 0.0851877217726269 TRIQLRLSL 9 Unmodified _TRIQLRLSL_ 0 0 0 REV__ENST00000575312.1_1_17:79669809-79669983:-|nuORF REV__ENST00000575312.1_1_17:79669809-79669983:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 367.249267578125 3 367.236385 1098.68733 NaN NaN NaN NaN NaN NaN NaN 38.432 1 39.066 38.566 39.566 0.63388 0 0 0 0.64145 1 17576 17576 14.405 3.6059 1 + 32942 17472 20939 21008 37118 37118 0.14193088905290097 TRIQLSWLLP 10 Unmodified _TRIQLSWLLP_ 0 0 0 nc|ENSG00000142949|P10586-2|PTPRF;ENSG00000142949|ENST00000359947|PTPRF nc|ENSG00000142949|P10586-2|PTPRF nc|ENSG00000142949|P10586-2|PTPRF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.5816955566406 3 409.580041 1225.71829 3.1752 0.0013005 0.57457 0.00023533 3.7497 0.0015358 409.5801577610879 98.656 0.15056 99.254 99.216 99.366 0.59748 18 9 3 0 0 0 0.81051 1 45521 45521 7.9454 1.3219 1 4023900 32943 3336 20940 21009 37119 37119 0.11446242219517444 TRIQLSWLLP 10 Unmodified _TRIQLSWLLP_ 0 0 0 nc|ENSG00000142949|P10586-2|PTPRF;ENSG00000142949|ENST00000359947|PTPRF nc|ENSG00000142949|P10586-2|PTPRF nc|ENSG00000142949|P10586-2|PTPRF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 409.580041 1225.71829 3.8035 0.0015579 -0.42272 -0.00017314 3.3808 0.0013847 409.579754565779 98.887 0.063828 99.187 99.145 99.209 0.29987 -0.033547 -0.00085851 NaN 7.9454 7 3 3 NaN NaN NaN NaN 0 NaN NaN 0 4531700 32944 3336 20940 21009 0.11446242219517444 TRKIRLLSL 9 Unmodified _TRKIRLLSL_ 0 0 0 ENSG00000090686|ENST00000308271|USP48;nc|ENSG00000090686|Q86UV5-8|USP48;nc|ENSG00000090686|Q86UV5-2|USP48;nc|ENSG00000090686|Q86UV5-3|USP48;nc|ENSG00000090686|Q86UV5-7|USP48;nc|ENSG00000090686|Q86UV5-4|USP48 ENSG00000090686|ENST00000308271|USP48 ENSG00000090686|ENST00000308271|USP48 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 367.2498779296875 3 367.248514 1098.72371 2.5307 0.00092938 0.076082 2.7941E-05 2.6067 0.00095732 367.248479951652 38.919 0.43472 39.183 38.952 39.386 0.26408 36 17 3 0 0 0 0.035342 2 17693 17693;17743 53.47 19.248 1 2399800 32945 1066 20941 21010 37120;37121 37120 0.17829965801979597 TRKIRLLSL 9 Unmodified _TRKIRLLSL_ 0 0 0 ENSG00000090686|ENST00000308271|USP48;nc|ENSG00000090686|Q86UV5-8|USP48;nc|ENSG00000090686|Q86UV5-2|USP48;nc|ENSG00000090686|Q86UV5-3|USP48;nc|ENSG00000090686|Q86UV5-7|USP48;nc|ENSG00000090686|Q86UV5-4|USP48 ENSG00000090686|ENST00000308271|USP48 ENSG00000090686|ENST00000308271|USP48 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 367.249267578125 3 367.248514 1098.72371 2.5051 0.00092001 0.34329 0.00012607 2.8484 0.0010461 367.24861218330904 38.464 0.47954 39.098 38.857 39.336 0.63388 46 18 3 0 0 0 0.014505 1 17576 17576 55.249 24.545 1 1571600 32946 1066 20941 21010 37122 37122 0.17829965801979597 TRKIRLLSL 9 Unmodified _TRKIRLLSL_ 0 0 0 ENSG00000090686|ENST00000308271|USP48;nc|ENSG00000090686|Q86UV5-8|USP48;nc|ENSG00000090686|Q86UV5-2|USP48;nc|ENSG00000090686|Q86UV5-3|USP48;nc|ENSG00000090686|Q86UV5-7|USP48;nc|ENSG00000090686|Q86UV5-4|USP48 ENSG00000090686|ENST00000308271|USP48 ENSG00000090686|ENST00000308271|USP48 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 367.248514 1098.72371 2.7496 0.0010098 -0.34774 -0.00012771 2.4019 0.00088208 367.2484436567845 39.287 0.31565 39.287 39.177 39.492 0 0.097796 -0.00049654 NaN 55.249 21 11 2 NaN NaN NaN NaN 0 NaN NaN 0 908340 32947 1066 20941 21010 0.17829965801979597 TRKKAISSL 9 Unmodified _TRKKAISSL_ 0 0 0 REV__nc|ENSG00000158201|Q8WU67-2|ABHD3 REV__nc|ENSG00000158201|Q8WU67-2|ABHD3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.436767578125 3 335.213469 1002.61858 2.3238 0.00077899 -0.9424 -0.0003159 1.3815 0.00046308 335.213063955226 60.35 0.42545 61.015 60.817 61.242 0.66503 32 21 2 0 0 0 0.11402 1 27710 27710 0.96228 0 1 403760 + 32948 17993 20942 21011 37123 37123 0.11737424605553315 TRKKAISSL 9 Unmodified _TRKKAISSL_ 0 0 0 REV__nc|ENSG00000158201|Q8WU67-2|ABHD3 REV__nc|ENSG00000158201|Q8WU67-2|ABHD3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.436767578125 3 335.213469 1002.61858 2.2879 0.00076694 -1.2362 -0.00041438 1.0518 0.00035256 335.54739425042635 60.778 0.57959 61.44 61.132 61.712 0.66261 42 27 2 0 0 0 0.11402 1 27710 27710 0.96228 0 1 1112600 + 32949 17993 20942 21011 37124 37124 0.11737424605553315 TRKKARRKV 9 Unmodified _TRKKARRKV_ 0 0 0 ENST00000563592.5_1_15:73075466-73075571:+|nuORF ENST00000563592.5_1_15:73075466-73075571:+|nuORF ENST00000563592.5_1_15:73075466-73075571:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.88330078125 2 571.883273 1141.75199 NaN NaN NaN NaN NaN NaN NaN 54.163 1 54.83 54.33 55.33 0.6665 0 0 0 0.90699 1 24774 24774 1.8442 0.19162 1 32950 9014 20943 21012 37125 37125 0.18678708501920482 TRKKRKAHVKR 11 Unmodified _TRKKRKAHVKR_ 0 0 0 ENSG00000125485|ENST00000372159|DDX31;nc|ENSG00000125485|Q9H8H2-2|DDX31;nc|ENSG00000125485|Q9H8H2|DDX31 ENSG00000125485|ENST00000372159|DDX31 ENSG00000125485|ENST00000372159|DDX31 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 704.4618530273438 2 704.46021 1406.90587 NaN NaN NaN NaN NaN NaN NaN 108.08 1 108.4 107.9 108.9 0.31421 0 0 0 1.008 1 49850 49850 0.30703 0.30703 1 32951 2402 20944 21013 37126 37126 0.21869118267431986 TRKKTRKRRRR 11 Unmodified _TRKKTRKRRRR_ 0 0 0 ENST00000361675.6_2_7:134618055-134618145:+|nuORF ENST00000361675.6_2_7:134618055-134618145:+|nuORF ENST00000361675.6_2_7:134618055-134618145:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 771.5088500976562 2 771.506015 1540.99748 NaN NaN NaN NaN NaN NaN NaN 65.425 1 65.425 64.925 65.925 0 0 0 0 1.008 1 31175 31175 0.26902 0.26902 1 32952 7226 20945 21014 37127 37127 0.24861801684573948 TRKLKKKK 8 Unmodified _TRKLKKKK_ 0 0 0 ENSG00000163064|ENST00000295206|EN1 ENSG00000163064|ENST00000295206|EN1 ENSG00000163064|ENST00000295206|EN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.7525634765625 2 515.366393 1028.71823 4.2819 0.0022068 -1.2354 -0.0006367 3.0465 0.0015701 515.3657535879375 105.58 0.147 105.9 105.81 105.96 0.31781 11 5 3 0 0 0 0.7471 1 48729 48729 0 0 1 1719700 32953 4188 20946 21015 37128 37128 0.20502287010162945 TRKLKRLKKKR 11 Unmodified _TRKLKRLKKKR_ 0 0 0 ENST00000398637.9_1_12:46581311-46581524:-|nuORF ENST00000398637.9_1_12:46581311-46581524:-|nuORF ENST00000398637.9_1_12:46581311-46581524:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 728.0086669921875 2 728.009536 1454.00452 NaN NaN NaN NaN NaN NaN NaN 59.317 1 59.576 59.076 60.076 0.2593 0 0 0 1.0082 1 27162 27162 0 0 1 32954 7594 20947 21016 37129 37129 0.2956772151244422 TRKQWKQFLKI 11 Unmodified _TRKQWKQFLKI_ 0 0 0 ENST00000466974.5_1_20:5922633-5923195:-|nuORF ENST00000466974.5_1_20:5922633-5923195:-|nuORF ENST00000466974.5_1_20:5922633-5923195:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 738.4505004882812 2 738.445903 1474.87725 NaN NaN NaN NaN NaN NaN NaN 95.938 1 96.546 96.046 97.046 0.60769 0 0 0 1.008 1 44115 44115 0.26902 0.26902 1 32955 8142 20948 21017 37130 37130 0.1588095584763778 TRKRIRYRFRR 11 Unmodified _TRKRIRYRFRR_ 0 0 0 ENSG00000096968|ENST00000381652|JAK2 ENSG00000096968|ENST00000381652|JAK2 ENSG00000096968|ENST00000381652|JAK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 804.4977416992188 2 804.495116 1606.97568 NaN NaN NaN NaN NaN NaN NaN 72.21 1 72.21 71.71 72.71 0 0 0 0 1.0082 1 35116 35116 0 0 1 32956 1131 20949 21018 37131 37131 0.1964699693601233 TRKRRRWRYSL 11 Unmodified _TRKRRRWRYSL_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.6485595703125 3 526.646442 1576.9175 3.2268 0.0016994 0.80311 0.00042296 4.0299 0.0021223 526.6468986639829 37.356 0.2509 38.152 38.022 38.273 0.79552 23 11 3 0 0 0 0.91489 2 16919 16919;16960 0 0 1 678010 32957 7869 20950 21019 37132;37133 37132 0.15211315290775929 TRKRRRWRYSL 11 Unmodified _TRKRRRWRYSL_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.648681640625 3 526.646442 1576.9175 3.1736 0.0016714 0.68615 0.00036136 3.8598 0.0020327 526.6470477709993 38.27 0.16544 38.534 38.437 38.603 0.26408 11 4 3 0 0 0 0.91359 1 17438 17438 0.40827 0.40827 1 952970 32958 7869 20950 21019 37134 37134 0.15211315290775929 TRKRRRWRYSL 11 Unmodified _TRKRRRWRYSL_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.2287902832031 4 395.23665 1576.9175 2.7837 0.0011002 1.3223 0.00052263 4.106 0.0016228 395.4877010515879 37.684 0.29682 38.318 38.118 38.415 0.63388 20 9 4 0 0 0 0.13295 1 17271 17271 0 0 1 358350 32959 7869 20950 21019 37135 37135 0.15211315290775929 TRKRRRWRYSL 11 Unmodified _TRKRRRWRYSL_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 526.646442 1576.9175 3.1963 0.0016833 1.6454 0.00086655 4.8417 0.0025499 526.9816966874396 38.387 0.24471 38.387 38.265 38.509 0 0.049759 0.0007792 NaN 0.40827 19 10 3 NaN NaN NaN NaN 0 NaN NaN 0 1069200 32960 7869 20950 21019 0.15211315290775929 TRKRRRWRYSL 11 Unmodified _TRKRRRWRYSL_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 395.23665 1576.9175 2.6533 0.0010487 1.1437 0.00045205 3.7971 0.0015007 395.23716199359257 38.372 0.18166 38.372 38.289 38.47 0 0.019732 0.0004764 NaN 0.094841 13 7 2 NaN NaN NaN NaN 0 NaN NaN 0 411660 32961 7869 20950 21019 0.15211315290775929 TRKRRRWRYSL 11 Unmodified _TRKRRRWRYSL_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 395.23665 1576.9175 2.5978 0.0010268 0.49504 0.00019566 3.0929 0.0012224 395.2369696118416 37.372 0.18781 38.167 38.044 38.232 0.79552 -0.18541 -0.00054916 NaN 0.094841 14 8 3 NaN NaN NaN NaN 0 NaN NaN 0 354250 32962 7869 20950 21019 0.15211315290775929 TRKRRRWRYSL 11 Unmodified _TRKRRRWRYSL_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 395.23665 1576.9175 2.8307 0.0011188 0.45441 0.0001796 3.2851 0.0012984 395.48756358540214 38.289 0.19944 38.553 38.403 38.603 0.26408 0.20021 -0.0006134 NaN 0.094841 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 764970 32963 7869 20950 21019 0.15211315290775929 TRKRRRWRYSL 11 Unmodified _TRKRRRWRYSL_ 0 0 0 ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF ENST00000433071.2_1_21:32931573-32932426:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 526.646442 1576.9175 3.1966 0.0016835 1.4897 0.00078455 4.6863 0.002468 526.6472220830977 37.642 0.27079 38.276 38.118 38.389 0.63389 -0.061294 0.00053318 NaN 0.40827 25 8 4 NaN NaN NaN NaN 0 NaN NaN 0 728300 32964 7869 20950 21019 0.15211315290775929 TRKVVAAP 8 Unmodified _TRKVVAAP_ 0 0 0 REV__ENST00000505447.5_1_4:7765494-7780765:-|nuORF REV__ENST00000505447.5_1_4:7765494-7780765:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 420.9017333984375 2 421.266345 840.518136 NaN NaN NaN NaN NaN NaN NaN 39.927 1 40.194 39.694 40.694 0.26696 0 0 0 0.72306 1 18164 18164 21.747 9.2151 1 + 32965 14226 20951 21020 37136 37136 0.09149812342548103 TRLPLLKI 8 Unmodified _TRLPLLKI_ 0 0 0 REV__nc|ENSG00000168356|Q9UI33-2|SCN11A REV__nc|ENSG00000168356|Q9UI33-2|SCN11A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 318.5557861328125 3 318.555055 952.643337 2.1181 0.00067473 0.63735 0.00020303 2.7554 0.00087776 318.55516399166544 17.993 0.48195 18.295 18.019 18.501 0.30158 64 49 2 0 0 0 0.67495 2 8118 8118;8212 5.7319 0 1 229100 + 32966 13345 20952 21021 37137;37138 37137 0.16512104478943002 TRLQVLRWEKV 11 Unmodified _TRLQVLRWEKV_ 0 0 0 ENST00000409997.1_1_2:99224863-99224977:-|nuORF ENST00000409997.1_1_2:99224863-99224977:-|nuORF ENST00000409997.1_1_2:99224863-99224977:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 714.4281616210938 2 714.42771 1426.84087 NaN NaN NaN NaN NaN NaN NaN 43.882 1 43.882 43.382 44.382 0 0 0 0 1.0075 1 20019 20019 0.96228 0.56156 1 32967 7668 20953 21022 37139 37139 0.1445207895094427 TRLRLRQRRRR 11 Unmodified _TRLRLRQRRRR_ 0 0 0 ENSG00000124302|ENST00000650847|CHST8 ENSG00000124302|ENST00000650847|CHST8 ENSG00000124302|ENST00000650847|CHST8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.8564453125 3 523.004852 1565.99273 NaN NaN NaN NaN NaN NaN NaN 63.503 1 63.503 63.003 64.003 0 0 0 0 1.0079 1 29882 29882 0.40827 0.31342 1 32968 2355 20954 21023 37140 37140 0.2323691754183983 TRLRLRQRRRR 11 Unmodified _TRLRLRQRRRR_ 0 0 0 ENSG00000124302|ENST00000650847|CHST8 ENSG00000124302|ENST00000650847|CHST8 ENSG00000124302|ENST00000650847|CHST8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.1323852539062 3 523.004852 1565.99273 NaN NaN NaN NaN NaN NaN NaN 69.68 1 69.68 69.18 70.18 0 0 0 0 1.0082 1 33689 33689 0 0 1 32969 2355 20954 21023 37141 37141 0.2323691754183983 TRLRPWKKWEI 11 Unmodified _TRLRPWKKWEI_ 0 0 0 REV__nc|ENSG00000147255|Q8N6C5-2|IGSF1 REV__nc|ENSG00000147255|Q8N6C5-2|IGSF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.6063537597656 3 504.964777 1511.8725 NaN NaN NaN NaN NaN NaN NaN 77.886 1 77.886 77.386 78.386 0 0 0 0 1.0063 1 38221 38221 1.0136 0.6469 1 + 32970 12500 20955 21024 37142 37142 0.13704071704864873 TRLRRRRRPRR 11 Unmodified _TRLRRRRRPRR_ 0 0 0 ENST00000295206.6_1_2:119600812-119604160:-|nuORF ENST00000295206.6_1_2:119600812-119604160:-|nuORF ENST00000295206.6_1_2:119600812-119604160:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 790.2727661132812 2 790.009256 1578.00396 NaN NaN NaN NaN NaN NaN NaN 77.691 1 78.252 77.752 78.752 0.56091 0 0 0 1.0082 1 37704 37704 0 0 1 32971 6756 20956 21025 37143 37143 0.23807739635981306 TRLRRRRRPRR 11 Unmodified _TRLRRRRRPRR_ 0 0 0 ENST00000295206.6_1_2:119600812-119604160:-|nuORF ENST00000295206.6_1_2:119600812-119604160:-|nuORF ENST00000295206.6_1_2:119600812-119604160:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.1596069335938 3 527.008596 1578.00396 NaN NaN NaN NaN NaN NaN NaN 73.714 1 74.379 73.879 74.879 0.6644 0 0 0 1.0082 1 33897 33897 0 0 1 32972 6756 20956 21025 37144 37144 0.23807739635981306 TRLRWRQSARP 11 Unmodified _TRLRWRQSARP_ 0 0 0 REV__ENST00000324685.10_1_16:30787072-30787168:+|nuORF REV__ENST00000324685.10_1_16:30787072-30787168:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 714.4180297851562 2 713.91055 1425.80655 4.1625 0.0029716 0.30783 0.00021976 4.4703 0.0031914 713.9106420302254 104.07 0.094391 104.67 104.59 104.69 0.59885 35 21 2 0 0 0 0.91403 1 48126 48126 0.26902 0 1 418740 + 32973 15344 20957 21026 37145 37145 0.11067675582694392 TRLSGTWPL 9 Unmodified _TRLSGTWPL_ 0 0 0 REV__ENST00000528287.5_1_1:54640294-54656520:-|nuORF REV__ENST00000528287.5_1_1:54640294-54656520:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.6669921875 2 515.787641 1029.56073 3.541 0.0018264 0.62176 0.00032069 4.1627 0.0021471 515.7879076243929 36.945 0.33014 37.203 37.05 37.38 0.25768 18 10 3 0 0 0 0.92418 1 16774 16774 4.756 0.42677 1 405950 + 32974 17114 20958 21027 37146 37146 0.047131626801501625 TRLTLYKFK 9 Unmodified _TRLTLYKFK_ 0 0 0 REV__nc|ENSG00000171530|O75347-2|TBCA REV__nc|ENSG00000171530|O75347-2|TBCA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.57354736328125 3 390.572886 1168.69683 2.1873 0.0008543 1.4567 0.00056894 3.644 0.0014232 390.5733694528676 72.137 0.2072 72.8 72.695 72.902 0.66325 32 20 2 0 0 0 1.0894 1 33065 33065 2.4985 0.59211 1 1036900 + 32975 18047 20959 21028 37147 37147 0.11922857190779723 TRMGLPKPL 9 Unmodified _TRMGLPKPL_ 0 0 0 ENST00000565666.5_1_16:66643374-66643920:+|nuORF;ENST00000566756.5_1_16:66643374-66646537:+|nuORF ENST00000565666.5_1_16:66643374-66643920:+|nuORF ENST00000565666.5_1_16:66643374-66643920:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 338.2041015625 3 338.203917 1011.58992 2.2376 0.00075678 -1.4527 -0.00049132 0.7849 0.00026546 338.20353003339636 45.681 0.4183 45.681 45.494 45.912 0 34 19 3 0 0 0 1.1849 1 20876 20876 0.96228 0.96228 1 600870 32976 9047 20960 21029 37148 37148 0.08458983704770162 TRMGLPKPL 9 Unmodified _TRMGLPKPL_ 0 0 0 ENST00000565666.5_1_16:66643374-66643920:+|nuORF;ENST00000566756.5_1_16:66643374-66646537:+|nuORF ENST00000565666.5_1_16:66643374-66643920:+|nuORF ENST00000565666.5_1_16:66643374-66643920:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 338.2042236328125 3 338.203917 1011.58992 2.1935 0.00074185 -0.71682 -0.00024243 1.4767 0.00049942 338.2037975200096 46.941 0.26537 47.77 47.613 47.878 0.82915 22 11 2 0 0 0 1.0894 1 21385 21385 2.4985 0.84587 1 388340 32977 9047 20960 21029 37149 37149 0.08458983704770162 TRMGLPKPL 9 Unmodified _TRMGLPKPL_ 0 0 0 ENST00000565666.5_1_16:66643374-66643920:+|nuORF;ENST00000566756.5_1_16:66643374-66646537:+|nuORF ENST00000565666.5_1_16:66643374-66643920:+|nuORF ENST00000565666.5_1_16:66643374-66643920:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.5383605957031 3 338.203917 1011.58992 2.2895 0.00077432 -0.75034 -0.00025377 1.5392 0.00052055 338.2036716275116 47.167 0.38419 47.819 47.677 48.061 0.65219 38 19 3 0 0 0 1.1849 1 21643 21643 0.96228 0.26461 1 625070 32978 9047 20960 21029 37150 37150 0.08458983704770162 TRMGLPKPL 9 Unmodified _TRMGLPKPL_ 0 0 0 ENST00000565666.5_1_16:66643374-66643920:+|nuORF;ENST00000566756.5_1_16:66643374-66646537:+|nuORF ENST00000565666.5_1_16:66643374-66643920:+|nuORF ENST00000565666.5_1_16:66643374-66643920:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 338.203917 1011.58992 2.2599 0.00076431 -1.3198 -0.00044637 0.94009 0.00031794 338.2035951857387 48.049 0.44839 48.049 47.773 48.222 0 0.20477 -0.00031111 NaN 2.4985 43 20 3 NaN NaN NaN NaN 0 NaN NaN 0 898560 32979 9047 20960 21029 0.08458983704770162 TRMGLPKPL 9 Unmodified _TRMGLPKPL_ 0 0 0 ENST00000565666.5_1_16:66643374-66643920:+|nuORF;ENST00000566756.5_1_16:66643374-66646537:+|nuORF ENST00000565666.5_1_16:66643374-66643920:+|nuORF ENST00000565666.5_1_16:66643374-66643920:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 338.203917 1011.58992 2.6527 0.00089715 -2.0233 -0.00068427 0.62944 0.00021288 338.5372291530586 47.476 0.23833 47.74 47.556 47.795 0.26363 -0.10504 -0.0010248 NaN 2.4985 16 8 3 NaN NaN NaN NaN 0 NaN NaN 0 1026600 32980 9047 20960 21029 0.08458983704770162 TRMNKKKLYR 10 Unmodified _TRMNKKKLYR_ 0 0 0 REV__ENST00000487659.1_1_1:1342042-1342597:-|nuORF REV__ENST00000487659.1_1_1:1342042-1342597:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 335.2019348144531 4 335.201316 1336.77616 1.961 0.00065732 0.78807 0.00026416 2.749 0.00092148 335.2015946396094 54.681 1.3353 55.477 54.782 56.117 0.79552 126 86 2 0 0 0 0.94134 2 24858 24858;24914 0.62683 0 1 1092000 + 32981 14621 20961 21030 37151;37152 37151 0.12124180873274781 TRMRIGIFRK 10 Unmodified _TRMRIGIFRK_ 0 0 0 REV__ENSG00000170801|ENST00000307358|HTRA3 REV__ENSG00000170801|ENST00000307358|HTRA3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 320.1023864746094 4 320.196034 1276.75503 2.3281 0.00074544 -1.44 -0.00046109 0.88806 0.00028435 320.1950729061811 53.333 0.19185 53.333 53.149 53.341 0 13 11 2 0 0 0 0.12676 1 24364 24364 0.62683 0 1 527980 + 32982 13455 20962 21031 37153 37153 0.12772215564427825 TRMRIGIFRK 10 Unmodified _TRMRIGIFRK_ 0 0 0 REV__ENSG00000170801|ENST00000307358|HTRA3 REV__ENSG00000170801|ENST00000307358|HTRA3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 320.196034 1276.75503 2.4339 0.00077933 0.49614 0.00015886 2.9301 0.00093819 320.19599934741024 53.235 0.48097 53.499 53.315 53.796 0.26344 0.082852 0.00039955 NaN 0.62683 52 32 2 NaN NaN NaN NaN 0 NaN NaN 0 1108600 + 32983 13455 20962 21031 0.12772215564427825 TRMRYVSCRDE 11 Unmodified _TRMRYVSCRDE_ 0 0 0 ENST00000482490.5_1_3:64536549-64672246:-|nuORF;nc|ENSG00000163638|Q9P2N4-1|ADAMTS9;nc|ENSG00000163638|Q9P2N4-4|ADAMTS9;ENSG00000163638|ENST00000498707|ADAMTS9 ENST00000482490.5_1_3:64536549-64672246:-|nuORF ENST00000482490.5_1_3:64536549-64672246:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 708.3295288085938 2 708.329553 1414.64455 NaN NaN NaN NaN NaN NaN NaN 51.825 1 52.487 51.987 52.987 0.66198 0 0 0 1.0075 1 23699 23699 0.96228 0.61164 1 32984 4236 20963 21032 37154 37154 -0.046184172767652854 TRNDYVMMY 9 Unmodified _TRNDYVMMY_ 0 0 0 nc|ENSG00000169180|Q96QU8-2|XPO6;ENSG00000169180|ENST00000304658|XPO6 nc|ENSG00000169180|Q96QU8-2|XPO6 nc|ENSG00000169180|Q96QU8-2|XPO6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.7656860351562 2 596.759909 1191.50526 3.2717 0.0019524 0.65023 0.00038803 3.9219 0.0023404 596.7608701527473 48.001 0.29169 48.001 47.876 48.168 0 25 12 3 0 0 0 0.24524 1 21999 21999 20.415 12.504 1 712280 32985 4673 20964 21033 37155 37155 -0.08282754894139543 TRNDYVMMY 9 Unmodified _TRNDYVMMY_ 0 0 0 nc|ENSG00000169180|Q96QU8-2|XPO6;ENSG00000169180|ENST00000304658|XPO6 nc|ENSG00000169180|Q96QU8-2|XPO6 nc|ENSG00000169180|Q96QU8-2|XPO6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 596.7622680664062 2 596.759909 1191.50526 3.3864 0.0020209 0.17643 0.00010529 3.5629 0.0021262 596.7604516336653 46.852 0.25822 47.681 47.562 47.821 0.82915 22 9 3 0 0 0 0.24524 1 21341 21341 20.415 13.691 1 584860 32986 4673 20964 21033 37156 37156 -0.08282754894139543 TRNDYVMMY 9 Unmodified _TRNDYVMMY_ 0 0 0 nc|ENSG00000169180|Q96QU8-2|XPO6;ENSG00000169180|ENST00000304658|XPO6 nc|ENSG00000169180|Q96QU8-2|XPO6 nc|ENSG00000169180|Q96QU8-2|XPO6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 596.7628173828125 2 596.759909 1191.50526 3.9482 0.0023561 -0.43585 -0.0002601 3.5123 0.002096 596.7600669887734 48.046 0.27594 48.309 48.181 48.457 0.26209 31 10 4 0 0 0 0.33646 2 21953 21953;22016 15.248 8.5253 1 745350 32987 4673 20964 21033 37157;37158 37157 -0.08282754894139543 TRNDYVMMY 9 Unmodified _TRNDYVMMY_ 0 0 0 nc|ENSG00000169180|Q96QU8-2|XPO6;ENSG00000169180|ENST00000304658|XPO6 nc|ENSG00000169180|Q96QU8-2|XPO6 nc|ENSG00000169180|Q96QU8-2|XPO6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 596.7630004882812 2 596.759909 1191.50526 4.0423 0.0024123 -0.83565 -0.00049868 3.2067 0.0019136 596.7600000092755 47.527 0.30962 48.18 47.988 48.297 0.65356 35 12 4 0 0 0 0.24524 2 21772 21718;21772 20.415 9.5906 1 629010 32988 4673 20964 21033 37159;37160 37160 -0.08282754894139543 TRPFRIFIKTK 11 Unmodified _TRPFRIFIKTK_ 0 0 0 REV__nc|ENSG00000174527|Q8N1T3-3|MYO1H REV__nc|ENSG00000174527|Q8N1T3-3|MYO1H MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 703.9345703125 2 703.935171 1405.85579 NaN NaN NaN NaN NaN NaN NaN 102.89 1 103.21 102.71 103.71 0.31863 0 0 0 1.0082 1 47584 47584 0 0 1 + 32989 13636 20965 21034 37161 37161 0.1690957081889337 TRPGGGGG 8 Unmodified _TRPGGGGG_ 0 0 0 REV__nc|ENSG00000138439|Q6P1L5-2|FAM117B REV__nc|ENSG00000138439|Q6P1L5-2|FAM117B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 329.6672668457031 2 329.666995 657.319437 2.0635 0.00068028 -1.1069 -0.00036492 0.95661 0.00031536 329.6665099670242 68.669 0.28677 69.329 69.165 69.452 0.65924 33 21 2 0 0 0 0.7441 1 31473 31473 2.3027 0 1 366640 + 32990 12168 20966 21035 37162 37162 -0.022930282362835896 TRPRAPAA 8 Unmodified _TRPRAPAA_ 0 0 0 REV__ENSG00000228672|ENST00000434752|PROB1 REV__ENSG00000228672|ENST00000434752|PROB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 420.24688720703125 2 420.245944 838.477334 3.201 0.0013452 -0.12292 -5.1655E-05 3.0781 0.0012936 420.2457521545168 94.2 0.35776 94.831 94.66 95.018 0.63115 35 20 2 0 0 0 0.7471 1 43338 43338 0.69038 0 1 691650 + 32991 14566 20967 21036 37163 37163 0.051634710229222947 TRPTIIFILYS 11 Unmodified _TRPTIIFILYS_ 0 0 0 REV__ENST00000230914.4_1_5:44817254-44817353:+|nuORF REV__ENST00000230914.4_1_5:44817254-44817353:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.6982727050781 4 331.697232 1322.75982 2.2424 0.00074379 1.0389 0.00034461 3.2813 0.0010884 331.69747449660264 49.484 0.39743 49.484 49.324 49.722 0 47 16 4 0 0 0 0.91328 1 22716 22716 0.50596 0 1 1687100 + 32992 14857 20968 21037 37164 37164 0.1113537818819168 TRQDHMMFN 9 Unmodified _TRQDHMMFN_ 0 0 0 REV__nc|ENSG00000167780|O75908-3|SOAT2 REV__nc|ENSG00000167780|O75908-3|SOAT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8389892578125 3 393.839309 1178.4961 NaN NaN NaN NaN NaN NaN NaN 7.32 1 7.9448 7.4448 8.4448 0.62473 0 0 0 0.91342 1 3312 3312 0.26902 0 1 + 32993 13310 20969 21038 37165 37165 -0.0860110345981866 TRQIVIALFLH 11 Unmodified _TRQIVIALFLH_ 0 0 0 REV__ENST00000316059.6_1_11:58352348-58378460:+|nuORF REV__ENST00000316059.6_1_11:58352348-58378460:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.9037475585938 2 655.900797 1309.78704 3.6301 0.002381 -0.64068 -0.00042022 2.9894 0.0019608 655.900836772856 51.611 0.20831 51.874 51.761 51.969 0.26228 15 10 2 0 0 0 0.89844 1 23622 23622 2.4985 0.84587 1 491170 + 32994 15292 20970 21039 37166 37166 0.14453906519202064 TRQIVIALFLH 11 Unmodified _TRQIVIALFLH_ 0 0 0 REV__ENST00000316059.6_1_11:58352348-58378460:+|nuORF REV__ENST00000316059.6_1_11:58352348-58378460:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.204345703125 4 328.454037 1309.78704 2.1872 0.0007184 -0.94897 -0.00031169 1.2382 0.0004067 328.4536372540541 54.552 0.64018 54.818 54.271 54.911 0.26543 40 29 2 0 0 0 0.13295 1 24933 24933 1.2148 0.4383 1 583050 + 32995 15292 20970 21039 37167 37167 0.14453906519202064 TRQIVIALFLH 11 Unmodified _TRQIVIALFLH_ 0 0 0 REV__ENST00000316059.6_1_11:58352348-58378460:+|nuORF REV__ENST00000316059.6_1_11:58352348-58378460:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.20391845703125 4 328.454037 1309.78704 2.3751 0.0007801 -1.1493 -0.00037749 1.2258 0.0004026 328.4536026986602 53.602 0.43849 53.867 53.831 54.27 0.26462 26 17 2 0 0 0 0.13295 1 24597 24597 0.50596 0 1 806270 + 32996 15292 20970 21039 37168 37168 0.14453906519202064 TRRERKWRPVR 11 Unmodified _TRRERKWRPVR_ 0 0 0 REV__ENST00000591270.1_1_17:49270805-49337516:-|nuORF REV__ENST00000591270.1_1_17:49270805-49337516:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 770.7997436523438 2 770.458199 1538.90185 NaN NaN NaN NaN NaN NaN NaN 39.51 1 40.148 39.648 40.648 0.63778 0 0 0 1.005 1 18056 18056 4.1895 2.9962 1 + 32997 17583 20971 21040 37169 37169 0.1539502877369614 TRRKSLAYVQ 10 Unmodified _TRRKSLAYVQ_ 0 0 0 ENST00000544396.5_2_5:125759302-125807964:+|nuORF ENST00000544396.5_2_5:125759302-125807964:+|nuORF ENST00000544396.5_2_5:125759302-125807964:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.35791015625 2 611.356754 1220.69895 4.3788 0.002677 -1.4822 -0.00090616 2.8966 0.0017708 611.3556200932401 103.93 0.11598 104.25 104.16 104.28 0.31863 19 14 2 0 0 0 0.94246 1 48030 48030 0.40072 0 1 497180 32998 8834 20972 21041 37170 37170 0.09743285928584555 TRRRQPRT 8 Unmodified _TRRRQPRT_ 0 0 0 REV__ENST00000582608.5_1_17:80403674-80404562:-|nuORF REV__ENST00000582608.5_1_17:80403674-80404562:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.8203125 2 535.81813 1069.62171 3.7206 0.0019936 0.1348 7.2229E-05 3.8554 0.0020658 535.8180206167417 95.691 0.43321 95.959 95.728 96.161 0.26751 50 23 3 0 0 0 0.7441 1 43974 43974 2.3027 0.24298 1 1542900 + 32999 17515 20973 21042 37171 37171 0.08968112502930126 TRRRRRFF 8 Unmodified _TRRRRRFF_ 0 0 0 REV__ENST00000394833.6_1_4:103265936-103266233:-|nuORF REV__ENST00000394833.6_1_4:103265936-103266233:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.8599853515625 2 597.85759 1193.70063 4.2365 0.0025328 -0.93253 -0.00055752 3.304 0.0019753 597.8569694374177 103.33 0.17172 103.92 103.86 104.03 0.59822 18 11 3 0 0 0 0.7471 1 47811 47811 0.69038 0.16561 1 230680 + 33000 15975 20974 21043 37172 37172 0.11152384527872528 TRRRRRHWWDW 11 Unmodified _TRRRRRHWWDW_ 0 0 0 REV__ENST00000583780.1_2_17:18263786-18266854:-|nuORF REV__ENST00000583780.1_2_17:18263786-18266854:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 855.951904296875 2 855.951072 1709.88759 NaN NaN NaN NaN NaN NaN NaN 73.716 1 73.975 73.475 74.475 0.25876 0 0 0 1.0082 1 33866 33866 0 0 1 + 33001 17524 20975 21044 37173 37173 0.06104376345433593 TRRRRRRPLFF 11 Unmodified _TRRRRRRPLFF_ 0 0 0 REV__ENST00000317613.10_1_9:116303752-116304061:+|nuORF REV__ENST00000317613.10_1_9:116303752-116304061:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 390.88934326171875 4 390.991918 1559.93856 2.2873 0.00089431 -3.1968 -0.0012499 -0.90946 -0.00035559 390.99094248512534 57.547 0.081478 58.315 58.284 58.365 0.76861 6 5 2 0 0 0 0.13295 1 26373 26373 0.094841 0 1 724140 + 33002 15300 20976 21045 37174 37174 0.1809932539026704 TRRRRRRPLFF 11 Unmodified _TRRRRRRPLFF_ 0 0 0 REV__ENST00000317613.10_1_9:116303752-116304061:+|nuORF REV__ENST00000317613.10_1_9:116303752-116304061:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 780.9734497070312 2 780.976559 1559.93856 NaN NaN NaN NaN NaN NaN NaN 71.621 1 71.878 71.378 72.378 0.25786 0 0 0 1.008 1 32826 32826 0.35063 0 1 + 33003 15300 20976 21045 37175 37175 0.1809932539026704 TRRRRRRPLFF 11 Unmodified _TRRRRRRPLFF_ 0 0 0 REV__ENST00000317613.10_1_9:116303752-116304061:+|nuORF REV__ENST00000317613.10_1_9:116303752-116304061:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 390.991918 1559.93856 2.6562 0.0010385 -2.5127 -0.00098244 0.1435 5.6107E-05 391.24179193504415 58.11 0.33705 58.11 57.873 58.21 0 -0.10261 8.1688E-05 NaN 0.094841 83 33 4 NaN NaN NaN NaN 0 NaN NaN 0 2248800 + 33004 15300 20976 21045 0.1809932539026704 TRRRRRRRRPG 11 Unmodified _TRRRRRRRRPG_ 0 0 0 REV__ENST00000379757.8_1_6:7899909-7910954:-|nuORF REV__ENST00000379757.8_1_6:7899909-7910954:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 305.1849670410156 5 305.395548 1521.94136 2.2233 0.000679 3.4375 0.0010498 5.6608 0.0017288 305.39628131469937 49.062 0.28573 49.718 49.664 49.95 0.65524 10 9 2 0 0 0 0.13295 1 22528 22528 0.45452 0.45452 1 236660 + 33005 15874 20977 21046 37176 37176 0.20126593567783857 TRRRRRRRRPP 11 Unmodified _TRRRRRRRRPP_ 0 0 0 REV__ENST00000276602.10_1_8:73921164-73926156:+|nuORF REV__ENST00000276602.10_1_8:73921164-73926156:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 781.9962768554688 2 781.993606 1561.97266 NaN NaN NaN NaN NaN NaN NaN 95.11 1 95.377 94.877 95.877 0.2675 0 0 0 1.0082 1 43702 43702 0 0 1 + 33006 15078 20978 21047 37177 37177 0.214151666018779 TRRRRRRRRRQ 11 Unmodified _TRRRRRRRRRQ_ 0 0 0 ENST00000444772.3_1_10:21805118-21806168:-|nuORF ENST00000444772.3_1_10:21805118-21806168:-|nuORF ENST00000444772.3_1_10:21805118-21806168:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 827.0213623046875 2 827.020686 1652.02682 NaN NaN NaN NaN NaN NaN NaN 48.645 1 48.645 48.145 49.145 0 0 0 0 1.0082 1 22278 22278 0 0 1 33007 7962 20979 21048 37178 37178 0.2268875875345202 TRRRRRRRRRQ 11 Unmodified _TRRRRRRRRRQ_ 0 0 0 ENST00000444772.3_1_10:21805118-21806168:-|nuORF ENST00000444772.3_1_10:21805118-21806168:-|nuORF ENST00000444772.3_1_10:21805118-21806168:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 827.01806640625 2 827.020686 1652.02682 NaN NaN NaN NaN NaN NaN NaN 77.437 1 77.693 77.193 78.193 0.25533 0 0 0 1.0082 1 35662 35662 0 0 1 33008 7962 20979 21048 37179 37179 0.2268875875345202 TRRRRSRRRRN 11 Unmodified _TRRRRSRRRRN_ 0 0 0 REV__ENST00000476672.1_1_3:180675662-180688154:+|nuORF REV__ENST00000476672.1_1_3:180675662-180688154:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.98828125 3 523.987972 1568.94209 NaN NaN NaN NaN NaN NaN NaN 72.4 1 73.064 72.564 73.564 0.66324 0 0 0 1.0079 1 33206 33206 0.40827 0 1 + 33009 11321 20980 21049 37180 37180 0.18037388216862382 TRRTKFTL 8 Unmodified _TRRTKFTL_ 0 0 0 ENSG00000101883|ENST00000217999|RHOXF1 ENSG00000101883|ENST00000217999|RHOXF1 ENSG00000101883|ENST00000217999|RHOXF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 341.54278564453125 3 341.541697 1021.60326 2.0063 0.00068522 0.51841 0.00017706 2.5247 0.00086228 341.54176868554015 13.401 0.17907 13.708 13.627 13.806 0.30727 28 12 3 0 0 0 0.7471 1 6053 6053 1.6526 0 1 231560 33010 1318 20981 21050 37181 37181 0.09332557808374986 TRRTRPQMN 9 Unmodified _TRRTRPQMN_ 0 0 0 REV__ENSG00000101883|ENST00000217999|RHOXF1 REV__ENSG00000101883|ENST00000217999|RHOXF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 580.3109130859375 2 580.309281 1158.60401 2.0394 0.0011835 0.48526 0.0002816 2.5247 0.0014651 580.3093220622617 102.89 0.18205 102.95 102.87 103.05 0.055092 11 6 3 0 0 0 1.2126 1 55853 55853 0.52476 0 1 766060 + 33011 10911 20982 21051 37182 37182 0.031050291857809498 TRRWKRWFKFR 11 Unmodified _TRRWKRWFKFR_ 0 0 0 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 833.56201171875 2 833.98131 1665.94807 NaN NaN NaN NaN NaN NaN NaN 82.485 1 82.485 81.985 82.985 0 0 0 0 1.0082 1 41315 41315 0 0 1 33012 9726 20983 21052 37183 37183 0.14173093675776727 TRRWKRWFKFR 11 Unmodified _TRRWKRWFKFR_ 0 0 0 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 833.9803466796875 2 833.98131 1665.94807 NaN NaN NaN NaN NaN NaN NaN 17.455 1 17.656 17.156 18.156 0.20057 0 0 0 1.0082 1 7724 7724 0 0 1 33013 9726 20983 21052 37184 37184 0.14173093675776727 TRRWKRWFKFR 11 Unmodified _TRRWKRWFKFR_ 0 0 0 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 417.495361328125 4 417.494293 1665.94807 3.1612 0.0013198 -0.0079624 -3.3243E-06 3.1533 0.0013165 417.49433074941436 41.26 0.16909 41.905 41.793 41.962 0.64451 15 8 3 0 0 0 0.91489 1 18874 18874 0 0 1 890240 33014 9726 20983 21052 37185 37185 0.14173093675776727 TRRWKRWFKFR 11 Unmodified _TRRWKRWFKFR_ 0 0 0 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 417.494293 1665.94807 2.6365 0.0011007 0.48223 0.00020133 3.1187 0.001302 417.7452841826518 41.105 0.16986 41.909 41.863 42.033 0.8035 0.0020398 0.00030752 NaN 0 27 12 3 NaN NaN NaN NaN 0 NaN NaN 0 1778100 33015 9726 20983 21052 0.14173093675776727 TRSGGVKIP 9 Unmodified _TRSGGVKIP_ 0 0 0 ENST00000430166.5_1_3:14989684-14989858:-|nuORF ENST00000430166.5_1_3:14989684-14989858:-|nuORF ENST00000430166.5_1_3:14989684-14989858:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.5191955566406 3 305.518781 913.534515 NaN NaN NaN NaN NaN NaN NaN 45.487 1 45.755 45.255 46.255 0.26768 0 0 0 0.90699 1 20794 20794 0.96228 0 1 33016 7843 20984 21053 37186 37186 0.07428893508654255 TRSGRLTRPRP 11 Unmodified _TRSGRLTRPRP_ 0 0 0 REV__ENST00000530490.1_1_11:17035717-17073753:+|nuORF REV__ENST00000530490.1_1_11:17035717-17073753:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.88525390625 2 648.884001 1295.75345 NaN NaN NaN NaN NaN NaN NaN 6.0283 1 6.381 5.881 6.881 0.35278 0 0 0 1.0082 1 2729 2729 0 0 1 + 33017 17134 20985 21054 37187 37187 0.11740297799997279 TRSNNTSS 8 Unmodified _TRSNNTSS_ 0 0 0 REV__nc|ENSG00000087460|P84996|GNAS REV__nc|ENSG00000087460|P84996|GNAS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 866.397705078125 1 866.396249 865.388973 4.7418 0.0041083 -0.62219 -0.00053906 4.1196 0.0035692 866.3955226955201 103.65 0.076729 103.97 103.91 103.99 0.31863 11 8 2 0 0 0 0.7471 1 47903 47903 0 0 1 819290 + 33018 17873 20986 21055 37188 37188 -0.04910614078198705 TRSRRRRRRRR 11 Unmodified _TRSRRRRRRRR_ 0 0 0 REV__ENST00000586027.5_1_19:14602515-14606910:-|nuORF REV__ENST00000586027.5_1_19:14602515-14606910:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 806.505859375 2 806.507412 1611.00027 NaN NaN NaN NaN NaN NaN NaN 81.408 1 81.656 81.156 82.156 0.24803 0 0 0 1.0082 1 37482 37482 0 0 1 + 33019 17538 20987 21056 37189 37189 0.2192106986210547 TRTIFAILLAF 11 Unmodified _TRTIFAILLAF_ 0 0 0 ENSG00000180720|ENST00000682254|CHRM4 ENSG00000180720|ENST00000682254|CHRM4 ENSG00000180720|ENST00000682254|CHRM4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.38671875 2 633.384448 1264.75434 3.8003 0.0024071 1.4093 0.00089263 5.2096 0.0032997 633.3851305339762 52.493 0.46262 52.756 52.635 53.097 0.26345 36 18 3 0 0 0 0.88075 1 23997 23997 3.2813 0.54611 1 665820 33020 5260 20988 21057 37190 37190 0.13255699396381715 TRTKKKKKK 9 Unmodified _TRTKKKKKK_ 0 0 0 REV__ENST00000427154.1_1_1:23346896-23414436:-|nuORF REV__ENST00000427154.1_1_1:23346896-23414436:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 573.0216674804688 2 573.395682 1144.77681 NaN NaN NaN NaN NaN NaN NaN 82.426 1 82.674 82.174 83.174 0.24722 0 0 0 0.91452 1 37942 37942 0 0 1 + 33021 16225 20989 21058 37191 37191 0.21021343584629903 TRTLLRKILS 10 Unmodified _TRTLLRKILS_ 0 0 0 MYCBP2|p.K2432Nfs*23|1|0.23|ENSG00000005810|chr13:77140155-77140155|T/-|frameshift_variant;MYCBP2|p.E3042Vfs*11|1|0.09|ENSG00000005810|chr13:77097915-77097916|-/GGGAAGA|frameshift_variant;nc|ENSG00000005810|O75592-2|MYCBP2;ENSG00000005810|ENST00000544440|MYCBP2 MYCBP2|p.K2432Nfs*23|1|0.23|ENSG00000005810|chr13:77140155-77140155|T/-|frameshift_variant MYCBP2|p.K2432Nfs*23|1|0.23|ENSG00000005810|chr13:77140155-77140155|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 401.1549987792969 3 400.931073 1199.77139 2.6228 0.0010516 0.17969 7.2045E-05 2.8025 0.0011236 400.93120770379556 58.235 0.28126 58.235 57.966 58.247 0 38 27 2 0 0 0 0.93584 1 26750 26750 1.7423 0 1 5646100 33022 334 20990 21059 37192 37192 0.17949620002195843 TRVDTILEF 9 Unmodified _TRVDTILEF_ 0 0 0 ENSG00000082898|ENST00000401558|XPO1;XPO1|p.F287Lfs*3|1|0.34|ENSG00000082898|chr2:61496906-61496906|A/-|frameshift_variant;ENST00000476585.5_1_2:61729332-61753650:-|nuORF ENSG00000082898|ENST00000401558|XPO1 ENSG00000082898|ENST00000401558|XPO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.3006591796875 2 547.298039 1092.58152 3.7946 0.0020768 -0.0085638 -4.6869E-06 3.786 0.0020721 547.2981192556431 67.616 0.28043 67.866 67.728 68.008 0.2501 24 14 2 0 0 0 0.084899 1 30969 30969 36.506 8.8774 1 850470 33023 934 20991 21060 37193 37193 0.0389370826915183 TRVDTILEF 9 Unmodified _TRVDTILEF_ 0 0 0 ENSG00000082898|ENST00000401558|XPO1;XPO1|p.F287Lfs*3|1|0.34|ENSG00000082898|chr2:61496906-61496906|A/-|frameshift_variant;ENST00000476585.5_1_2:61729332-61753650:-|nuORF ENSG00000082898|ENST00000401558|XPO1 ENSG00000082898|ENST00000401558|XPO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.2999877929688 2 547.298039 1092.58152 3.5387 0.0019367 -0.29607 -0.00016204 3.2426 0.0017747 547.298111585627 67.034 0.29527 67.692 67.558 67.853 0.65777 27 16 2 0 0 0 0.11155 1 30740 30740 29.841 2.2118 1 678190 33024 934 20991 21060 37194 37194 0.0389370826915183 TRVFQLLPP 9 Unmodified _TRVFQLLPP_ 0 0 0 ENST00000479590.1_1_3:186271391-186272251:-|nuORF;nc|ENSG00000113838|Q9NVR7-2|TBCCD1;ENSG00000113838|ENST00000338733|TBCCD1 ENST00000479590.1_1_3:186271391-186272251:-|nuORF ENST00000479590.1_1_3:186271391-186272251:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 357.5514221191406 3 357.550082 1069.62842 2.4143 0.00086324 0.75909 0.00027141 3.1734 0.0011346 357.5503693370485 48.539 1.1089 49.366 49.115 50.224 0.82705 108 59 2 0 0 0 1.178 1 22106 22106 1.0715 0 1 782440 33025 1878 20992 21061 37195 37195 0.09638612610956443 TRVKAVRIL 9 Unmodified _TRVKAVRIL_ 0 0 0 ENSG00000265972|ENST00000582401|TXNIP;TXNIP|p.E37G|1|0.35|ENSG00000265972|chr1:145996157-145996157|T/C|missense_variant ENSG00000265972|ENST00000582401|TXNIP ENSG00000265972|ENST00000582401|TXNIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.57330322265625 3 352.573109 1054.6975 2.5041 0.00088289 -0.90674 -0.00031969 1.5974 0.0005632 352.57285646839864 22.069 0.20607 22.35 22.267 22.473 0.28085 58 42 2 0 0 0 0.003492 2 9956 9956;9994 94.909 60.493 1 2967400 33026 6321 20993 21062 37196;37197 37196 0.17233696630501072 TRVKAVRIL 9 Unmodified _TRVKAVRIL_ 0 0 0 ENSG00000265972|ENST00000582401|TXNIP;TXNIP|p.E37G|1|0.35|ENSG00000265972|chr1:145996157-145996157|T/C|missense_variant ENSG00000265972|ENST00000582401|TXNIP ENSG00000265972|ENST00000582401|TXNIP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.57421875 3 352.573109 1054.6975 NaN NaN NaN NaN NaN NaN NaN 21.729 1 22.376 21.876 22.876 0.64714 0 0 0 0.003447 1 9868 9868 94.909 62.123 1 33027 6321 20993 21062 37198 37198 0.17233696630501072 TRWFHTRRHWW 11 Unmodified _TRWFHTRRHWW_ 0 0 0 REV__ENST00000322893.11_1_14:63483627-63512140:-|nuORF REV__ENST00000322893.11_1_14:63483627-63512140:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 834.9244384765625 2 834.923992 1667.83343 NaN NaN NaN NaN NaN NaN NaN 56.803 1 57.581 57.081 58.081 0.77786 0 0 0 1.0082 1 25982 25982 0 0 1 + 33028 15330 20994 21063 37199 37199 0.026227841938862184 TSADKETYF 9 Unmodified _TSADKETYF_ 0 0 0 REV__CAMK1D|p.I213Nfs*11|1|0.18|ENSG00000183049|chr10:12791228-12791229|-/A|frameshift_variant REV__CAMK1D|p.I213Nfs*11|1|0.18|ENSG00000183049|chr10:12791228-12791229|-/A|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.2454833984375 2 531.242929 1060.47131 3.3555 0.0017826 0.18089 9.6096E-05 3.5364 0.0018787 531.2429187485044 29.918 0.25909 29.918 29.772 30.031 0 35 20 2 0 0 0 0.27958 1 13512 13512 18.146 2.8979 1 791620 + 33029 9985 20995 21064 37200 37200 -0.056511367899020115 TSAIIQNKL 9 Unmodified _TSAIIQNKL_ 0 0 0 REV__ENSG00000204897|ENST00000312150|KRT25 REV__ENSG00000204897|ENST00000312150|KRT25 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.2945861816406 2 494.295299 986.576045 3.0821 0.0015235 -3.8115 -0.001884 -0.72931 -0.00036049 494.2951608424555 37.848 0.70714 38.482 37.97 38.677 0.63388 64 23 4 0 0 0 0.83994 1 17233 17233 6.7232 0.96273 1 1172100 + + 33030 10101 20996 21065 37201 37201 0.08222029477337855 TSDPNAVVM 9 Unmodified _TSDPNAVVM_ 0 0 0 nc|ENSG00000167220|Q9H0R4-2|HDHD2;ENST00000588183.5_1_18:44635055-44662674:-|nuORF;ENSG00000167220|ENST00000300605|HDHD2 nc|ENSG00000167220|Q9H0R4-2|HDHD2 nc|ENSG00000167220|Q9H0R4-2|HDHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 467.2218017578125 2 467.220943 932.427332 2.7639 0.0012914 0.17629 8.2369E-05 2.9402 0.0013737 467.22080832803744 37.535 0.23621 38.33 38.182 38.419 0.79552 18 10 2 0 0 0 0.3144 1 17021 17021 15.847 0 1 260240 33031 4538 20997 21066 37202 37202 -0.04158444487870838 TSDPNAVVM 9 Unmodified _TSDPNAVVM_ 0 0 0 nc|ENSG00000167220|Q9H0R4-2|HDHD2;ENST00000588183.5_1_18:44635055-44662674:-|nuORF;ENSG00000167220|ENST00000300605|HDHD2 nc|ENSG00000167220|Q9H0R4-2|HDHD2 nc|ENSG00000167220|Q9H0R4-2|HDHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 467.2232666015625 2 467.220943 932.427332 2.6904 0.001257 0.63528 0.00029681 3.3256 0.0015538 467.2212809892586 38.116 0.25503 38.38 38.215 38.47 0.26354 10 7 2 0 0 0 0.68285 1 17387 17387 9.3831 2.0939 1 270310 33032 4538 20997 21066 37203 37203 -0.04158444487870838 TSDPNAVVM 9 Unmodified _TSDPNAVVM_ 0 0 0 nc|ENSG00000167220|Q9H0R4-2|HDHD2;ENST00000588183.5_1_18:44635055-44662674:-|nuORF;ENSG00000167220|ENST00000300605|HDHD2 nc|ENSG00000167220|Q9H0R4-2|HDHD2 nc|ENSG00000167220|Q9H0R4-2|HDHD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.22222900390625 2 467.220943 932.427332 NaN NaN NaN NaN NaN NaN NaN 37.586 1 38.22 37.72 38.72 0.63388 0 0 0 0.75166 1 17199 17199 10.824 1.4765 1 33033 4538 20997 21066 37204 37204 -0.04158444487870838 TSDRIIGKH 9 Unmodified _TSDRIIGKH_ 0 0 0 REV__ENSG00000205038|ENST00000378402|PKHD1L1 REV__ENSG00000205038|ENST00000378402|PKHD1L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.8631896972656 3 342.861207 1025.56179 NaN NaN NaN NaN NaN NaN NaN 40.672 1 41.476 40.976 41.976 0.80351 0 0 0 0.88916 1 18428 18428 3.8763 0 1 + 33034 14450 20998 21067 37205 37205 0.05003377049047231 TSEEFFHRWT 10 Unmodified _TSEEFFHRWT_ 0 0 0 nc|ENSG00000188089|Q3MJ16-2|PLA2G4E;ENSG00000188089|ENST00000696112|PLA2G4E;nc|ENSG00000188089|Q3MJ16|PLA2G4E nc|ENSG00000188089|Q3MJ16-2|PLA2G4E nc|ENSG00000188089|Q3MJ16-2|PLA2G4E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.3109741210938 2 670.306926 1338.5993 3.5788 0.0023989 -1.0088 -0.00067618 2.57 0.0017227 670.3061365884586 16.599 0.34659 16.799 16.486 16.833 0.20057 58 49 2 0 0 0 0.94217 1 7344 7344 0.45834 0.057624 1 100900 33035 5653 20999 21068 37206 37206 -0.05645576476013048 TSEIRLYYE 9 Unmodified _TSEIRLYYE_ 0 0 0 REV__ENSG00000146530|ENST00000275358|VWDE REV__ENSG00000146530|ENST00000275358|VWDE MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.7984619140625 2 587.292953 1172.57135 3.7921 0.0022271 0.95197 0.00055908 4.744 0.0027861 587.2928378872804 68.355 0.31705 68.608 68.424 68.741 0.25227 59 20 4 0 0 0 0.22824 1 31266 31266 21.537 2.28 1 4422400 + 33036 12476 21000 21069 37207 37207 -0.008028994561072977 TSGRLSFTVR 10 Unmodified _TSGRLSFTVR_ 0 0 0 ENSG00000136327|ENST00000258829|NKX2-8 ENSG00000136327|ENST00000258829|NKX2-8 ENSG00000136327|ENST00000258829|NKX2-8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 375.22637939453125 3 375.212128 1122.61456 NaN NaN NaN NaN NaN NaN NaN 21.731 1 21.731 21.231 22.231 0 0 0 0 0.99846 1 9735 9735 1.4551 0 1 33037 2944 21001 21070 37208 37208 0.05815335111856257 TSKGKKDW 8 Unmodified _TSKGKKDW_ 0 0 0 REV__ENST00000341469.6_1_9:100848248-100848425:-|nuORF REV__ENST00000341469.6_1_9:100848248-100848425:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.17547607421875 3 317.174903 948.50288 NaN NaN NaN NaN NaN NaN NaN 70.76 1 71.017 70.517 71.517 0.25642 0 0 0 0.99035 1 32406 32406 1.4819 0 1 + 33038 15466 21002 21071 37209 37209 0.026569007546981993 TSKRHFEL 8 Unmodified _TSKRHFEL_ 0 0 0 ENSG00000165030|ENST00000297689|NFIL3 ENSG00000165030|ENST00000297689|NFIL3 ENSG00000165030|ENST00000297689|NFIL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.8549499511719 3 339.854053 1016.54033 2.2257 0.00075641 0.83956 0.00028533 3.0652 0.0010417 339.8544746802538 14.434 0.27625 14.741 14.632 14.908 0.3069 18 13 2 0 0 0 0.17174 1 6535 6535 38.176 15.439 1 890450 33039 4365 21003 21072 37210 37210 0.032719920203248876 TSKRHFEL 8 Unmodified _TSKRHFEL_ 0 0 0 ENSG00000165030|ENST00000297689|NFIL3 ENSG00000165030|ENST00000297689|NFIL3 ENSG00000165030|ENST00000297689|NFIL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.8547058105469 3 339.854053 1016.54033 NaN NaN NaN NaN NaN NaN NaN 14.362 1 15.01 14.51 15.51 0.6482 0 0 0 0.33143 1 6464 6464 27.629 4.8925 1 33040 4365 21003 21072 37211 37211 0.032719920203248876 TSLEKPEVVE 10 Unmodified _TSLEKPEVVE_ 0 0 0 REV__ENSG00000166535|ENST00000299698|A2ML1 REV__ENSG00000166535|ENST00000299698|A2ML1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.8030395507812 2 565.800611 1129.58667 3.6727 0.002078 0.52142 0.00029502 4.1942 0.0023731 565.8007766225383 28.182 0.23114 28.182 28.067 28.298 0 45 17 3 0 0 0 0.17678 1 12734 12734 55.235 27.606 1 3148500 + 33041 13246 21004 21073 37212 37212 0.027059673411031326 TSLEKPEVVE 10 Unmodified _TSLEKPEVVE_ 0 0 0 REV__ENSG00000166535|ENST00000299698|A2ML1 REV__ENSG00000166535|ENST00000299698|A2ML1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 565.8021850585938 2 565.800611 1129.58667 3.525 0.0019945 -0.22709 -0.00012849 3.2979 0.001866 565.8003734513519 27.299 0.30029 28.085 27.918 28.218 0.78627 63 23 4 0 0 0 0.019057 1 12274 12274 81.915 22.547 1 2233400 + 33042 13246 21004 21073 37213 37213 0.027059673411031326 TSLEKPEVVE 10 Unmodified _TSLEKPEVVE_ 0 0 0 REV__ENSG00000166535|ENST00000299698|A2ML1 REV__ENSG00000166535|ENST00000299698|A2ML1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 565.8026123046875 2 565.800611 1129.58667 3.4568 0.0019559 0.21633 0.0001224 3.6731 0.0020783 565.8007023824491 27.845 0.30444 28.108 27.95 28.255 0.26245 48 18 3 0 0 0 0.016643 2 12676 12625;12676 87.258 6.5822 1 2950600 + 33043 13246 21004 21073 37214;37215 37215 0.027059673411031326 TSLEKPEVVE 10 Unmodified _TSLEKPEVVE_ 0 0 0 REV__ENSG00000166535|ENST00000299698|A2ML1 REV__ENSG00000166535|ENST00000299698|A2ML1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 565.8027954101562 2 565.800611 1129.58667 3.4805 0.0019693 0.48037 0.00027179 3.9609 0.0022411 565.8008322926559 27.461 0.31247 28.083 27.908 28.221 0.62179 57 21 3 0 0 0 0.019473 2 12604 12560;12604 87.258 18.915 1 3167500 + 33044 13246 21004 21073 37216;37217 37217 0.027059673411031326 TSLEKPEVVE 10 Unmodified _TSLEKPEVVE_ 0 0 0 REV__ENSG00000166535|ENST00000299698|A2ML1 REV__ENSG00000166535|ENST00000299698|A2ML1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 565.800611 1129.58667 3.6727 0.002078 0.52142 0.00029502 4.1942 0.0023731 565.8007766225383 28.182 0.23114 28.182 28.067 28.298 0 0.067691 0.00030968 NaN 87.258 45 17 3 NaN NaN NaN NaN 0 NaN NaN 0 3148500 + 33045 13246 21004 21073 0.027059673411031326 TSLEKPEVVE 10 Unmodified _TSLEKPEVVE_ 0 0 0 REV__ENSG00000166535|ENST00000299698|A2ML1 REV__ENSG00000166535|ENST00000299698|A2ML1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 565.800611 1129.58667 3.525 0.0019945 -0.22709 -0.00012849 3.2979 0.001866 565.8003734513519 27.299 0.30029 28.085 27.918 28.218 0.78627 -0.029164 -0.00053734 NaN 87.258 63 23 4 NaN NaN NaN NaN 0 NaN NaN 0 2233400 + 33046 13246 21004 21073 0.027059673411031326 TSLEKPEVVE 10 Unmodified _TSLEKPEVVE_ 0 0 0 REV__ENSG00000166535|ENST00000299698|A2ML1 REV__ENSG00000166535|ENST00000299698|A2ML1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 565.800611 1129.58667 3.4568 0.0019559 0.21633 0.0001224 3.6731 0.0020783 565.8007023824491 27.845 0.30444 28.108 27.95 28.255 0.26245 -0.0067357 -3.5567E-05 NaN 87.258 48 18 3 NaN NaN NaN NaN 0 NaN NaN 0 2950600 + 33047 13246 21004 21073 0.027059673411031326 TSLEKPEVVE 10 Unmodified _TSLEKPEVVE_ 0 0 0 REV__ENSG00000166535|ENST00000299698|A2ML1 REV__ENSG00000166535|ENST00000299698|A2ML1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 565.800611 1129.58667 3.4805 0.0019693 0.48037 0.00027179 3.9609 0.0022411 565.8008322926559 27.461 0.31247 28.083 27.908 28.221 0.62179 -0.031791 0.00026322 NaN 87.258 57 21 3 NaN NaN NaN NaN 0 NaN NaN 0 3167500 + 33048 13246 21004 21073 0.027059673411031326 TSLLIYILSL 10 Unmodified _TSLLIYILSL_ 0 0 0 REV__ENST00000430825.3_1_7:156461725-156469144:-|nuORF REV__ENST00000430825.3_1_7:156461725-156469144:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.2499084472656 3 379.237281 1134.69001 NaN NaN NaN NaN NaN NaN NaN 76.85 1 77.105 76.605 77.605 0.25533 0 0 0 0.99995 1 35388 35388 1.7423 0 1 + 33049 16260 21005 21074 37218 37218 0.1280549951957255 TSLLQVILQVV 11 Unmodified _TSLLQVILQVV_ 0 0 0 ENSG00000155897|ENST00000286355|ADCY8 ENSG00000155897|ENST00000286355|ADCY8 ENSG00000155897|ENST00000286355|ADCY8 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.5897216796875 3 404.923585 1211.74892 2.4083 0.00097516 -0.1051 -4.2558E-05 2.3032 0.0009326 404.9234669145716 33.974 0.38572 34.763 34.634 35.02 0.78921 32 23 2 0 0 0 0.13295 1 15368 15368 1.0136 0 1 321000 33050 3883 21006 21075 37219 37219 0.15151975813864738 TSLVPLVLS 9 Unmodified _TSLVPLVLS_ 0 0 0 ENST00000274311.2_1_5:52096140-52096299:+|nuORF ENST00000274311.2_1_5:52096140-52096299:+|nuORF ENST00000274311.2_1_5:52096140-52096299:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.79168701171875 2 464.789318 927.564084 NaN NaN NaN NaN NaN NaN NaN 25.598 1 25.866 25.366 26.366 0.26777 0 0 0 0.90699 1 11620 11620 1.8442 0 1 33051 6666 21007 21076 37220 37220 0.09740412734140591 TSLVPLVLS 9 Unmodified _TSLVPLVLS_ 0 0 0 ENST00000274311.2_1_5:52096140-52096299:+|nuORF ENST00000274311.2_1_5:52096140-52096299:+|nuORF ENST00000274311.2_1_5:52096140-52096299:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.79278564453125 2 464.789318 927.564084 NaN NaN NaN NaN NaN NaN NaN 25.698 1 25.966 25.466 26.466 0.26777 0 0 0 0.90699 1 11666 11666 1.8442 0 1 33052 6666 21007 21076 37221 37221 0.09740412734140591 TSQDTFSRD 9 Unmodified _TSQDTFSRD_ 0 0 0 REV__nc|ENSG00000060656|Q92729-3|PTPRU REV__nc|ENSG00000060656|Q92729-3|PTPRU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.8256530761719 3 352.824599 1055.45197 2.5972 0.00091635 -0.2438 -8.6018E-05 2.3534 0.00083034 352.8246102593826 83.501 1.1645 84.164 83.327 84.492 0.66219 91 70 2 0 0 0 0.26277 1 38470 38470 13.615 4.0709 1 690300 + 33053 10397 21008 21077 37222 37222 -0.07354093080789426 TSRPLPKILLT 11 Unmodified _TSRPLPKILLT_ 0 0 0 ENSG00000169439|ENST00000302190|SDC2 ENSG00000169439|ENST00000302190|SDC2 ENSG00000169439|ENST00000302190|SDC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 620.144775390625 2 619.89518 1237.77581 NaN NaN NaN NaN NaN NaN NaN 97.794 1 97.794 97.294 98.294 0 0 0 0 1.0072 1 53359 53359 1.3295 0 1 33054 4692 21009 21078 37223 37223 0.1664308442507263 TSRRGRRKKGK 11 Unmodified _TSRRGRRKKGK_ 0 0 0 REV__ENSG00000219481|ENST00000430580|NBPF1 REV__ENSG00000219481|ENST00000430580|NBPF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 665.4192504882812 2 665.418543 1328.82253 4.1592 0.0027676 0.066145 4.4014E-05 4.2253 0.0028116 665.4185724506758 104.04 0.17455 104.64 104.58 104.75 0.59821 60 34 2 0 0 0 0.91489 1 48150 48150 0 0 1 719140 + 33055 14536 21010 21079 37224 37224 0.17127381819591392 TSRSSSNNK 9 Unmodified _TSRSSSNNK_ 0 0 0 REV__ENSG00000059728|ENST00000264444|MXD1 REV__ENSG00000059728|ENST00000264444|MXD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.7412109375 2 490.741419 979.468286 NaN NaN NaN NaN NaN NaN NaN 89.381 1 89.381 88.881 89.881 0 0 0 0 0.796 1 46661 46661 9.3831 3.6513 1 + 33056 10389 21011 21080 37225 37225 -0.022269671240451316 TSRWAAWAWWR 11 Unmodified _TSRWAAWAWWR_ 0 0 0 ENST00000465806.6_1_X:48935109-48935457:-|nuORF ENST00000465806.6_1_X:48935109-48935457:-|nuORF ENST00000465806.6_1_X:48935109-48935457:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 738.86474609375 2 738.86782 1475.72109 NaN NaN NaN NaN NaN NaN NaN 32.557 1 33.345 32.845 33.845 0.78795 0 0 0 1.0072 1 14727 14727 1.3295 0 1 33057 8126 21012 21081 37226 37226 0.0022551039701284026 TSSLKKVL 8 Unmodified _TSSLKKVL_ 0 0 0 REV__nc|ENSG00000198604|Q9NRL2-2|BAZ1A REV__nc|ENSG00000198604|Q9NRL2-2|BAZ1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 438.28106689453125 2 438.28166 874.548768 NaN NaN NaN NaN NaN NaN NaN 77.863 1 78.526 78.026 79.026 0.66303 0 0 0 0.99035 1 35882 35882 0.69038 0 1 + 33058 14343 21013 21082 37227 37227 0.10647545936933511 TSTLKKRKKRR 11 Unmodified _TSTLKKRKKRR_ 0 0 0 TTF1|p.D483Rfs*5|1|0.06|ENSG00000125482|chr9:132400183-132400184|-/ACCA|frameshift_variant;ENSG00000125482|ENST00000334270|TTF1 TTF1|p.D483Rfs*5|1|0.06|ENSG00000125482|chr9:132400183-132400184|-/ACCA|frameshift_variant TTF1|p.D483Rfs*5|1|0.06|ENSG00000125482|chr9:132400183-132400184|-/ACCA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 701.4592895507812 2 701.459876 1400.9052 NaN NaN NaN NaN NaN NaN NaN 83.612 1 84.274 83.774 84.774 0.66219 0 0 0 1.0082 1 38511 38511 0 0 1 33059 2401 21014 21083 37228 37228 0.22078278827711983 TSTSCGDSNSI 11 Unmodified _TSTSCGDSNSI_ 0 0 0 ENSG00000153574|ENST00000283646|RPIA ENSG00000153574|ENST00000283646|RPIA ENSG00000153574|ENST00000283646|RPIA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.2178344726562 2 536.216585 1070.41862 3.3593 0.0018013 -1.0469 -0.00056138 2.3124 0.0012399 536.2158262549441 83.498 0.45016 84.16 83.93 84.38 0.66219 53 29 2 0 0 0 0.83518 1 38493 38493 5.2969 0.066215 1 2895700 33060 3791 21015 21084 37229 37229 -0.11377462915015712 TSVCYYHI 8 Unmodified _TSVCYYHI_ 0 0 0 REV__nc|ENSG00000138468|Q9BQF6-4|SENP7 REV__nc|ENSG00000138468|Q9BQF6-4|SENP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.22662353515625 2 493.226028 984.437503 3.3768 0.0016655 -0.36384 -0.00017946 3.013 0.0014861 493.22581866687136 66.756 0.89696 67.006 66.561 67.458 0.25011 87 51 2 0 0 0 0.74071 1 30661 30661 2.5775 0 1 843450 + 33061 12169 21016 21085 37230 37230 -0.055338367626632134 TSVCYYHI 8 Unmodified _TSVCYYHI_ 0 0 0 REV__nc|ENSG00000138468|Q9BQF6-4|SENP7 REV__nc|ENSG00000138468|Q9BQF6-4|SENP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.2268981933594 2 493.226028 984.437503 3.4318 0.0016926 -0.397 -0.00019581 3.0348 0.0014968 493.22588120146816 67.627 0.42404 67.877 67.728 68.152 0.2501 53 24 3 0 0 0 0.74071 1 31056 31056 2.5775 0 1 1678200 + 33062 12169 21016 21085 37231 37231 -0.055338367626632134 TSVLLFAF 8 Unmodified _TSVLLFAF_ 0 0 0 PIGV|p.F235Lfs*3|1|0.22|ENSG00000060642|chr1:26794737-26794737|T/-|frameshift_variant;ENSG00000060642|ENST00000674202|PIGV PIGV|p.F235Lfs*3|1|0.22|ENSG00000060642|chr1:26794737-26794737|T/-|frameshift_variant PIGV|p.F235Lfs*3|1|0.22|ENSG00000060642|chr1:26794737-26794737|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 449.2565612792969 2 449.257654 896.500755 NaN NaN NaN NaN NaN NaN NaN 45.193 1 45.193 44.693 45.693 0 0 0 0 0.94507 1 20670 20670 9.3474 3.587 1 33063 642 21017 21086 37232 37232 0.04836472016893367 TSYHYVRRTR 10 Unmodified _TSYHYVRRTR_ 0 0 0 ENSG00000179292|ENST00000327259|TMEM151A ENSG00000179292|ENST00000327259|TMEM151A ENSG00000179292|ENST00000327259|TMEM151A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 669.8526611328125 2 669.854909 1337.69527 NaN NaN NaN NaN NaN NaN NaN 30.811 1 31.599 31.099 32.099 0.78879 0 0 0 1.0001 1 13917 13917 1.6526 0.32309 1 33064 5209 21018 21087 37233 37233 0.039926161547327865 TSYIRHQI 8 Unmodified _TSYIRHQI_ 0 0 0 REV__ENST00000467613.5_1_3:33451049-33453171:-|nuORF REV__ENST00000467613.5_1_3:33451049-33453171:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.85479736328125 3 339.854053 1016.54033 2.3939 0.00081358 -0.23053 -7.8347E-05 2.1634 0.00073524 339.854052273058 15.763 0.59713 15.763 15.448 16.045 0 139 72 3 0 0 0 0.73686 1 6964 6964 1.8442 0 1 124230 + 33065 16558 21019 21088 37234 37234 0.032719920203248876 TTAHAILRRV 10 Unmodified _TTAHAILRRV_ 0 0 0 nc|ENSG00000135951|Q9BZW7-2|TSGA10;ENST00000478090.5_1_2:99689501-99743552:-|nuORF;ENSG00000135951|ENST00000393483|TSGA10 nc|ENSG00000135951|Q9BZW7-2|TSGA10 nc|ENSG00000135951|Q9BZW7-2|TSGA10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.2454833984375 2 569.346189 1136.67783 NaN NaN NaN NaN NaN NaN NaN 25.672 1 26.436 25.936 26.936 0.76356 0 0 0 0.99774 1 11525 11525 3.5965 0.60125 1 33066 2915 21020 21089 37235 37235 0.11495320619746963 TTDFLYLEQDI 11 Unmodified _TTDFLYLEQDI_ 0 0 0 REV__ENSG00000149256|ENST00000278550|TENM4 REV__ENSG00000149256|ENST00000278550|TENM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 679.3300170898438 2 679.329733 1356.64491 NaN NaN NaN NaN NaN NaN NaN 60.499 1 60.755 60.255 61.255 0.25578 0 0 0 1.0061 1 27703 27703 2.7352 0.89096 1 + 33067 12562 21021 21090 37236 37236 -0.019143958043059683 TTDHDSGLSCC 11 Unmodified _TTDHDSGLSCC_ 0 0 0 ENST00000371586.6_2_1:52818596-52818848:-|nuORF ENST00000371586.6_2_1:52818596-52818848:-|nuORF ENST00000371586.6_2_1:52818596-52818848:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.7107543945312 2 569.710613 1137.40667 NaN NaN NaN NaN NaN NaN NaN 16.532 1 17.19 16.69 17.69 0.65798 0 0 0 1.0082 1 7449 7449 0 0 1 33068 7321 21022 21091 37237 37237 -0.15653402929820004 TTDWHPCLQC 10 Unmodified _TTDWHPCLQC_ 0 0 0 REV__ENST00000545363.6_1_12:9809213-9809664:+|nuORF REV__ENST00000545363.6_1_12:9809213-9809664:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.2461547851562 2 602.249708 1202.48486 2.9018 0.0017476 -2.6601 -0.001602 0.24177 0.0001456 602.2480653264774 76.236 0.2573 76.86 76.74 76.998 0.62397 26 17 2 0 0 0 0.83621 1 36933 36933 6.7232 0 1 1781500 + 33069 17246 21023 21092 37238 37238 -0.10827925553962814 TTDWHPCLQC 10 Unmodified _TTDWHPCLQC_ 0 0 0 REV__ENST00000545363.6_1_12:9809213-9809664:+|nuORF REV__ENST00000545363.6_1_12:9809213-9809664:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 602.2511596679688 2 602.249708 1202.48486 3.5803 0.0021562 -2.203 -0.0013268 1.3773 0.00082947 602.7500802969093 76.685 0.23028 77.349 77.219 77.45 0.66387 33 16 3 0 0 0 0.83621 1 35301 35301 6.7232 0 1 1323500 + 33070 17246 21023 21092 37239 37239 -0.10827925553962814 TTEFYHGF 8 Unmodified _TTEFYHGF_ 0 0 0 REV__ENSG00000137720|ENST00000260276|CFAP68 REV__ENSG00000137720|ENST00000260276|CFAP68 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.7646789550781 2 501.2218 1000.42905 NaN NaN NaN NaN NaN NaN NaN 37.803 1 38.599 38.099 39.099 0.79552 0 0 0 0.99035 1 17127 17127 5.7604 1.4312 1 + 33071 12123 21024 21093 37240 37240 -0.07115067407619335 TTEKSLSRIQ 10 Unmodified _TTEKSLSRIQ_ 0 0 0 REV__ENST00000527691.5_1_1:156567604-156567955:-|nuORF REV__ENST00000527691.5_1_1:156567604-156567955:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.82373046875 2 581.824952 1161.63535 NaN NaN NaN NaN NaN NaN NaN 45.659 1 46.311 45.811 46.811 0.65104 0 0 0 0.99733 1 20921 20921 3.9444 0 1 + 33072 12896 21025 21094 37241 37241 0.060998807008672884 TTGAFSFG 8 Unmodified _TTGAFSFG_ 0 0 0 nc|ENSG00000272391|A8CG34|POM121C;ENSG00000196313|ENST00000434423|POM121;ENST00000411631.2_7:72711017-72715158:+|nuORF;nc|ENSG00000205578|A6NF01|POM121B;nc|ENSG00000196313|Q96HA1-2|POM121;ENSG00000272391|ENST00000615331|POM121C;nc|ENSG00000196313|Q96HA1-3|POM121 nc|ENSG00000272391|A8CG34|POM121C nc|ENSG00000272391|A8CG34|POM121C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.6680908203125 2 394.184686 786.354819 NaN NaN NaN NaN NaN NaN NaN 86.007 1 86.677 86.177 87.177 0.67061 0 0 0 0.99035 1 39606 39606 2.5775 0 1 33073 5732 21026 21095 37242 37242 -0.046904104991313034 TTGKKKKKKK 10 Unmodified _TTGKKKKKKK_ 0 0 0 ENST00000263464.7_1_11:102193472-102193544:+|nuORF ENST00000263464.7_1_11:102193472-102193544:+|nuORF ENST00000263464.7_1_11:102193472-102193544:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 588.2598876953125 2 587.90334 1173.79213 NaN NaN NaN NaN NaN NaN NaN 91.426 1 91.426 90.926 91.926 0 0 0 0 1.002 1 48297 48297 0 0 1 33074 6592 21027 21096 37243 37243 0.2121821038183498 TTGVEPRLM 9 Unmodified _TTGVEPRLM_ 0 0 0 REV__ENST00000578557.1_1_18:9562972-9570431:-|nuORF REV__ENST00000578557.1_1_18:9562972-9570431:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.1805419921875 3 335.179548 1002.51682 NaN NaN NaN NaN NaN NaN NaN 17.924 1 18.226 17.726 18.726 0.30158 0 0 0 0.72654 1 8119 8119 7.609 0.88579 1 + 33075 12727 21028 21097 37244 37244 0.015658101915050793 TTGYPQTEGL 10 Unmodified _TTGYPQTEGL_ 0 0 0 nc|ENSG00000140600|Q99963-2|SH3GL3;nc|ENSG00000140600|Q99963-4|SH3GL3;ENSG00000140600|ENST00000427482|SH3GL3;nc|ENSG00000140600|Q99963-3|SH3GL3 nc|ENSG00000140600|Q99963-2|SH3GL3 nc|ENSG00000140600|Q99963-2|SH3GL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.7595825195312 2 533.756204 1065.49785 NaN NaN NaN NaN NaN NaN NaN 14.252 1 14.9 14.4 15.4 0.6482 0 0 0 0.27706 1 6412 6412 39.95 1.7741 1 33076 3212 21029 21098 37245 37245 -0.03227447898552782 TTHLFYPPRF 10 Unmodified _TTHLFYPPRF_ 0 0 0 ENST00000585170.1_1_17:56603775-56604489:-|nuORF ENST00000585170.1_1_17:56603775-56604489:-|nuORF ENST00000585170.1_1_17:56603775-56604489:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 426.8934020996094 3 426.892507 1277.65569 2.9798 0.001272 0.10648 4.5454E-05 3.0862 0.0013175 426.89232801609404 36.854 0.28991 37.112 36.896 37.186 0.25768 14 9 2 0 0 0 0.93372 1 16794 16794 2.086 0.17963 1 352680 33077 9176 21030 21099 37246 37246 0.02797096151311962 TTIFLNFTILW 11 Unmodified _TTIFLNFTILW_ 0 0 0 REV__ENST00000374994.8_2_9:101915172-101915277:+|nuORF REV__ENST00000374994.8_2_9:101915172-101915277:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.92498779296875 3 456.923585 1367.74892 2.6416 0.001207 0.072413 3.3087E-05 2.714 0.0012401 457.25797531739005 38.904 0.25161 39.168 39.028 39.279 0.26408 16 9 2 0 0 0 0.84832 1 17696 17696 4.7159 3.3863 1 693180 + 33078 15798 21031 21100 37247 37247 0.07975975813906189 TTIFLNFTILW 11 Unmodified _TTIFLNFTILW_ 0 0 0 REV__ENST00000374994.8_2_9:101915172-101915277:+|nuORF REV__ENST00000374994.8_2_9:101915172-101915277:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.9246520996094 3 456.923585 1367.74892 2.8786 0.0013153 -1.4743 -0.00067362 1.4043 0.00064167 456.92369986826543 38.503 0.39388 39.137 38.943 39.336 0.63389 32 14 3 0 0 0 0.89544 1 17593 17593 2.6312 1.1761 1 306050 + 33079 15798 21031 21100 37248 37248 0.07975975813906189 TTIFLNFTILW 11 Unmodified _TTIFLNFTILW_ 0 0 0 REV__ENST00000374994.8_2_9:101915172-101915277:+|nuORF REV__ENST00000374994.8_2_9:101915172-101915277:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 456.923585 1367.74892 2.6416 0.001207 0.072413 3.3087E-05 2.714 0.0012401 457.25797531739005 38.904 0.25161 39.168 39.028 39.279 0.26408 0.11314 0.0010083 NaN 4.7159 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 693180 + 33080 15798 21031 21100 0.07975975813906189 TTIFLNFTILW 11 Unmodified _TTIFLNFTILW_ 0 0 0 REV__ENST00000374994.8_2_9:101915172-101915277:+|nuORF REV__ENST00000374994.8_2_9:101915172-101915277:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 456.923585 1367.74892 2.8786 0.0013153 -1.4743 -0.00067362 1.4043 0.00064167 456.92369986826543 38.503 0.39388 39.137 38.943 39.336 0.63389 0.082211 -0.0011118 NaN 4.7159 32 14 3 NaN NaN NaN NaN 0 NaN NaN 0 306050 + 33081 15798 21031 21100 0.07975975813906189 TTILYSSC 8 Unmodified _TTILYSSC_ 0 0 0 REV__ENST00000585652.5_1_19:2109741-2111012:-|nuORF REV__ENST00000585652.5_1_19:2109741-2111012:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 887.4180297851562 1 887.417896 886.410619 3.9069 0.0034671 -0.00027192 -2.4131E-07 3.9067 0.0034668 887.4180311557075 83.96 0.34552 84.207 84.047 84.392 0.24722 33 19 2 0 0 0 0.37185 1 38660 38660 30.225 5.5509 1 1298300 + 33082 10423 21032 21101 37249 37249 -0.037129453738202756 TTKIKPRL 8 Unmodified _TTKIKPRL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 319.5472412109375 3 319.54656 955.617851 2.2541 0.00072029 -0.0066465 -2.1239E-06 2.2475 0.00071817 319.5464979102091 12.601 0.087625 12.601 12.542 12.63 0 15 7 3 0 0 0 0.035125 1 5491 5491 72.968 0 1 4388200 33083 2385 21033 21102 37250 37250 0.13826629956508896 TTKIKPRL 8 Unmodified _TTKIKPRL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 319.5469665527344 3 319.54656 955.617851 1.7722 0.0005663 -0.46527 -0.00014867 1.3069 0.00041762 319.546421120364 12.449 0.062756 12.71 12.674 12.737 0.26154 6 4 2 0 0 0 0.066709 1 5390 5390 60.074 0 1 5050900 33084 2385 21033 21102 37251 37251 0.13826629956508896 TTKIKPRL 8 Unmodified _TTKIKPRL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 319.54693603515625 3 319.54656 955.617851 1.5392 0.00049183 -0.2957 -9.449E-05 1.2435 0.00039734 319.5465011573294 12.433 0.065393 12.74 12.705 12.77 0.30727 9 3 3 0 0 0 0.025316 1 5604 5604 82.529 0 1 16376000 33085 2385 21033 21102 37252 37252 0.13826629956508896 TTKIKPRL 8 Unmodified _TTKIKPRL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 319.54742431640625 3 319.54656 955.617851 2.5069 0.00080108 0.24028 7.678E-05 2.7472 0.00087786 319.54659908390244 12.411 0.058697 13.054 13.008 13.067 0.64272 7 3 3 0 0 0 0.066709 1 5565 5565 60.074 0 1 18460000 33086 2385 21033 21102 37253 37253 0.13826629956508896 TTKKKKKKKK 10 Unmodified _TTKKKKKKKK_ 0 0 0 ENSG00000130826|ENST00000369550|DKC1 ENSG00000130826|ENST00000369550|DKC1 ENSG00000130826|ENST00000369550|DKC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 623.4409790039062 2 623.440089 1244.86563 NaN NaN NaN NaN NaN NaN NaN 44.683 1 45.333 44.833 45.833 0.64998 0 0 0 1.002 1 20480 20480 0 0 1 33087 2625 21034 21103 37254 37254 0.2529875882428314 TTKLLTPLIP 10 Unmodified _TTKLLTPLIP_ 0 0 0 REV__ENST00000596604.5_1_19:58388396-58400219:-|nuORF REV__ENST00000596604.5_1_19:58388396-58400219:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.8555908203125 2 548.85245 1095.69035 3.3712 0.0018503 2.4182 0.0013272 5.7894 0.0031775 548.8537829984278 44.644 0.16179 44.914 44.8 44.962 0.26939 9 5 2 0 0 0 0.90859 1 20397 20397 3.2813 0 1 252790 + 33088 17615 21035 21104 37255 37255 0.14632919239420517 TTKLYKDRVI 10 Unmodified _TTKLYKDRVI_ 0 0 0 REV__ENST00000493787.5_1_10:75056784-75072389:-|nuORF REV__ENST00000493787.5_1_10:75056784-75072389:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 412.9166564941406 3 412.915201 1235.72377 2.7334 0.0011287 0.14677 6.0605E-05 2.8802 0.0011893 412.91516628052926 26.892 0.16549 27.671 27.604 27.769 0.7787 27 11 3 0 0 0 0.70333 1 12113 12113 7.9454 2.8979 1 1019300 + 33089 12761 21036 21105 37256 37256 0.115339210113234 TTKLYKDRVI 10 Unmodified _TTKLYKDRVI_ 0 0 0 REV__ENST00000493787.5_1_10:75056784-75072389:-|nuORF REV__ENST00000493787.5_1_10:75056784-75072389:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 413.25152587890625 3 412.915201 1235.72377 2.8726 0.0011861 0.21616 8.9254E-05 3.0888 0.0012754 412.9152167988642 27.234 0.32029 27.856 27.69 28.011 0.62179 43 18 3 0 0 0 0.93713 1 12550 12550 0.62683 0.17231 1 718220 + 33090 12761 21036 21105 37257 37257 0.115339210113234 TTLKLILII 9 Unmodified _TTLKLILII_ 0 0 0 REV__L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|73|2|sense REV__L1PA6_dup1506|chr4:68935331-68940692:+|1.1500603906558335|0.2790784098741498|2.04|521.0|73|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.3618774414062 2 514.359911 1026.70527 NaN NaN NaN NaN NaN NaN NaN 109.13 1 109.74 109.24 110.24 0.60264 0 0 0 0.91452 1 50339 50339 0 0 1 + 33091 17795 21037 21106 37258 37258 0.19298411107433822 TTMYVTATL 9 Oxidation (M) _TTM(Oxidation (M))YVTATL_ TTM(1)YVTATL TTM(44)YVTATL 0 0 1 ENST00000409080.5_3_2:173351772-173351811:+|nuORF ENST00000409080.5_3_2:173351772-173351811:+|nuORF ENST00000409080.5_3_2:173351772-173351811:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.7532958984375 2 508.752075 1015.4896 3.1537 0.0016045 -0.61545 -0.00031311 2.5383 0.0012914 508.75177899786445 77.211 0.43297 77.466 77.258 77.691 0.25533 84 34 3 0 0 0 0.056465 3 35505 35505;35551;35601 44.407 15.92 1 3029200 33092 7653 21038 21107 37259;37260;37261 37259 86 -0.017527181395280422 TTMYVTATL 9 Oxidation (M) _TTM(Oxidation (M))YVTATL_ TTM(1)YVTATL TTM(44)YVTATL 0 0 1 ENST00000409080.5_3_2:173351772-173351811:+|nuORF ENST00000409080.5_3_2:173351772-173351811:+|nuORF ENST00000409080.5_3_2:173351772-173351811:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.7535095214844 2 508.752075 1015.4896 3.1094 0.0015819 0.12065 6.1382E-05 3.2301 0.0016433 508.7520844121912 79.24 0.55645 79.491 79.163 79.719 0.25127 87 36 3 0 0 0 0.056465 3 36402 36402;36449;36496 44.407 15.92 1 1908200 33093 7653 21038 21107 37262;37263;37264 37262 86 -0.017527181395280422 TTMYVTATL 9 Oxidation (M) _TTM(Oxidation (M))YVTATL_ TTM(1)YVTATL TTM(44)YVTATL 0 0 1 ENST00000409080.5_3_2:173351772-173351811:+|nuORF ENST00000409080.5_3_2:173351772-173351811:+|nuORF ENST00000409080.5_3_2:173351772-173351811:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.7528076171875 2 508.752075 1015.4896 3.0332 0.0015431 -0.49372 -0.00025118 2.5395 0.001292 508.7519980392764 76.749 0.43204 77.413 77.201 77.633 0.66387 82 35 3 0 0 0 0.056465 2 35336 35336;35380 44.407 15.92 1 3610300 33094 7653 21038 21107 37265;37266 37265 86 -0.017527181395280422 TTMYVTATL 9 Oxidation (M) _TTM(Oxidation (M))YVTATL_ TTM(1)YVTATL TTM(44)YVTATL 0 0 1 ENST00000409080.5_3_2:173351772-173351811:+|nuORF ENST00000409080.5_3_2:173351772-173351811:+|nuORF ENST00000409080.5_3_2:173351772-173351811:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.7541809082031 2 508.752075 1015.4896 3.2918 0.0016747 -0.16434 -8.3607E-05 3.1275 0.0015911 508.75210523306606 78.699 0.56218 79.361 79.064 79.627 0.66198 89 38 3 0 0 0 0.056465 2 36245 36245;36299 44.407 15.92 1 2294000 33095 7653 21038 21107 37267;37268 37267 86 -0.017527181395280422 TTMYVTATL 9 Oxidation (M) _TTM(Oxidation (M))YVTATL_ 0 0 1 ENST00000409080.5_3_2:173351772-173351811:+|nuORF ENST00000409080.5_3_2:173351772-173351811:+|nuORF ENST00000409080.5_3_2:173351772-173351811:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 508.752075 1015.4896 2.5737 0.0013094 -0.73612 -0.0003745 1.8376 0.0009349 508.75182524898247 76.544 0.36162 77.168 77.053 77.415 0.62398 -0.21842 -0.00019619 NaN 44.407 47 23 3 NaN NaN NaN NaN 0 NaN NaN 0 1720800 33096 7653 21038 21107 86 -0.017527181395280422 TTPIHKIIVN 10 Unmodified _TTPIHKIIVN_ 0 0 0 OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant;OTOGL|p.M2037Kfs*21|1|0.04|ENSG00000165899|chr12:80358721-80358722|-/AAACAAT|frameshift_variant;ENSG00000165899|ENST00000547103|OTOGL OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.3474731445312 2 568.345323 1134.67609 NaN NaN NaN NaN NaN NaN NaN 26.688 1 26.688 26.188 27.188 0 0 0 0 0.99774 1 12018 12018 3.5965 0 1 33097 4433 21039 21108 37269 37269 0.11414266811129892 TTPIHKIIVN 10 Unmodified _TTPIHKIIVN_ 0 0 0 OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant;OTOGL|p.M2037Kfs*21|1|0.04|ENSG00000165899|chr12:80358721-80358722|-/AAACAAT|frameshift_variant;ENSG00000165899|ENST00000547103|OTOGL OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.3475952148438 2 568.345323 1134.67609 3.3712 0.001916 0.35515 0.00020185 3.7263 0.0021178 568.3456983486267 25.675 0.20237 26.439 26.348 26.551 0.76356 13 11 2 0 0 0 0.83621 1 11532 11532 6.7232 0 1 251140 33098 4433 21039 21108 37270 37270 0.11414266811129892 TTPIHKIIVN 10 Unmodified _TTPIHKIIVN_ 0 0 0 OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant;OTOGL|p.M2037Kfs*21|1|0.04|ENSG00000165899|chr12:80358721-80358722|-/AAACAAT|frameshift_variant;ENSG00000165899|ENST00000547103|OTOGL OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.3475952148438 2 568.345323 1134.67609 3.5427 0.0020135 0.13614 7.7376E-05 3.6788 0.0020908 568.3454009895329 26.418 0.22807 26.683 26.565 26.793 0.26489 24 17 2 0 0 0 0.83621 1 11989 11989 6.7232 0 1 212100 33099 4433 21039 21108 37271 37271 0.11414266811129892 TTPIHKIIVN 10 Unmodified _TTPIHKIIVN_ 0 0 0 OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant;OTOGL|p.M2037Kfs*21|1|0.04|ENSG00000165899|chr12:80358721-80358722|-/AAACAAT|frameshift_variant;ENSG00000165899|ENST00000547103|OTOGL OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.3475952148438 2 568.345323 1134.67609 3.5068 0.001993 0.20342 0.00011561 3.7102 0.0021087 568.345385586318 26.062 0.20566 26.687 26.593 26.799 0.62505 24 14 2 0 0 0 0.74998 1 11938 11938 10.824 0 1 370100 33100 4433 21039 21108 37272 37272 0.11414266811129892 TTPIHKIIVN 10 Unmodified _TTPIHKIIVN_ 0 0 0 OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant;OTOGL|p.M2037Kfs*21|1|0.04|ENSG00000165899|chr12:80358721-80358722|-/AAACAAT|frameshift_variant;ENSG00000165899|ENST00000547103|OTOGL OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant OTOGL|p.N2038Tfs*20|1|0.02|ENSG00000165899|chr12:80358723-80358724|-/ACATATA|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 568.345323 1134.67609 3.5466 0.0020157 0.48503 0.00027566 4.0317 0.0022914 568.3454919163361 26.611 0.12101 26.611 26.558 26.679 0 0.0063376 0.00025594 NaN 10.824 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 348310 33101 4433 21039 21108 0.11414266811129892 TTQALAKYLK 10 Unmodified _TTQALAKYLK_ 0 0 0 ENSG00000125817|ENST00000379751|CENPB ENSG00000125817|ENST00000379751|CENPB ENSG00000125817|ENST00000379751|CENPB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.8413696289062 2 568.837331 1135.66011 3.7914 0.0021567 0.070148 3.9903E-05 3.8615 0.0021966 568.8373159473113 30.119 0.2978 30.377 30.268 30.566 0.25804 63 25 3 0 0 0 0.73539 1 13778 13778 18.146 2.8979 1 2227400 33102 2424 21040 21109 37273 37273 0.09770560574202136 TTRKAKKKKRR 11 Unmodified _TTRKAKKKKRR_ 0 0 0 REV__ENST00000530731.5_1_11:124495676-124501136:+|nuORF REV__ENST00000530731.5_1_11:124495676-124501136:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 700.9677734375 2 700.967868 1399.92118 NaN NaN NaN NaN NaN NaN NaN 50.685 1 51.503 51.003 52.003 0.81738 0 0 0 1.0082 1 23086 23086 0 0 1 + 33103 17136 21041 21110 37274 37274 0.23721985064617002 TTRLFVQL 8 Unmodified _TTRLFVQL_ 0 0 0 REV__ENSG00000096433|ENST00000605930|ITPR3 REV__ENSG00000096433|ENST00000605930|ITPR3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 327.0089111328125 3 326.530798 976.570566 2.1095 0.00068882 0.76323 0.00024922 2.8727 0.00093804 326.5309394582718 27.023 0.23788 27.645 27.525 27.763 0.62179 26 17 2 0 0 0 0.14304 1 12340 12340 0.45834 0 1 260280 + 33104 10775 21042 21111 37275 37275 0.0813435068552053 TTRLIIQV 8 Unmodified _TTRLIIQV_ 0 0 0 ENST00000448022.1_1_7:114563557-114563668:+|nuORF ENST00000448022.1_1_7:114563557-114563668:+|nuORF ENST00000448022.1_1_7:114563557-114563668:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 315.12347412109375 3 315.202682 942.586216 NaN NaN NaN NaN NaN NaN NaN 41.825 1 42.096 41.596 42.596 0.27021 0 0 0 0.99035 1 19056 19056 1.4819 0 1 33105 7991 21043 21112 37276 37276 0.11262637202571568 TTRLSGLAQS 10 Unmodified _TTRLSGLAQS_ 0 0 0 REV__ENSG00000120440|ENST00000239587|TTLL2 REV__ENSG00000120440|ENST00000239587|TTLL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 517.2865600585938 2 517.285463 1032.55637 2.7288 0.0014116 0.67893 0.0003512 3.4077 0.0017628 517.2855470696818 79.454 0.57773 79.774 79.632 80.209 0.31998 69 41 3 0 0 0 0.66307 2 38810 38810;38841 8.1555 8.1555 1 2014100 + 33106 11537 21044 21113 37277;37278 37277 0.04139653466540949 TTRRWKRWFKF 11 Unmodified _TTRRWKRWFKF_ 0 0 0 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 806.1563110351562 2 806.454594 1610.89463 NaN NaN NaN NaN NaN NaN NaN 95.349 1 95.431 94.931 95.931 0.082001 0 0 0 1.0082 1 50379 50379 0 0 1 33107 9726 21045 21114 37279 37279 0.11362296173274444 TTRRWKRWFKF 11 Unmodified _TTRRWKRWFKF_ 0 0 0 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 806.4547119140625 2 806.454594 1610.89463 NaN NaN NaN NaN NaN NaN NaN 94.826 1 95.443 94.943 95.943 0.61736 0 0 0 1.0082 1 43609 43609 0 0 1 33108 9726 21045 21114 37280 37280 0.11362296173274444 TTSLPGVL 8 Unmodified _TTSLPGVL_ 0 0 0 REV__OR2A4|p.I213T|1|0.22|ENSG00000180658|chr6:131700764-131700764|A/G|missense_variant REV__OR2A4|p.I213T|1|0.22|ENSG00000180658|chr6:131700764-131700764|A/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.2336730957031 2 394.231636 786.448719 NaN NaN NaN NaN NaN NaN NaN 45.424 1 46.25 45.75 46.75 0.82621 0 0 0 0.99035 1 20688 20688 2.5775 0 1 + 33109 18192 21046 21115 37281 37281 0.046953086031635394 TTSLSQGNELE 11 Unmodified _TTSLSQGNELE_ 0 0 0 SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant;nc|ENSG00000157106|Q96Q15-2|SMG1;ENSG00000157106|ENST00000446231|SMG1;nc|ENSG00000157106|Q96Q15-3|SMG1;ENST00000523028.5_1_16:21892164-21910369:-|nuORF;ENST00000309865.11_1_16:22482951-22501641:+|nuORF;ENST00000565246.6_2_16:70263639-70265228:-|nuORF;ENST00000566127.1_1_16:29540393-29548932:-|nuORF;ENST00000529428.5_1_16:30280378-30291878:-|nuORF SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.781005859375 2 589.780407 1177.54626 NaN NaN NaN NaN NaN NaN NaN 26.097 1 26.722 26.222 27.222 0.62505 0 0 0 0.91016 1 11966 11966 15.248 2.206 1 33110 3939 21047 21116 37282 37282 -0.035409990493235455 TTTDTTEY 8 Unmodified _TTTDTTEY_ 0 0 0 REV__ENST00000519769.5_1_8:21777281-21827143:+|nuORF REV__ENST00000519769.5_1_8:21777281-21827143:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 311.1351318359375 3 311.13455 930.381822 NaN NaN NaN NaN NaN NaN NaN 56.429 1 57.207 56.707 57.707 0.77786 0 0 0 0.99035 1 25799 25799 0.45834 0 1 + 33111 11807 21048 21117 37283 37283 -0.08615391469277256 TTTDTTEY 8 Unmodified _TTTDTTEY_ 0 0 0 REV__ENST00000519769.5_1_8:21777281-21827143:+|nuORF REV__ENST00000519769.5_1_8:21777281-21827143:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 311.13531494140625 3 311.13455 930.381822 NaN NaN NaN NaN NaN NaN NaN 56.948 1 57.726 57.226 58.226 0.77786 0 0 0 0.99035 1 26051 26051 0.45834 0 1 + 33112 11807 21048 21117 37284 37284 -0.08615391469277256 TTTIRLGYLVT 11 Unmodified _TTTIRLGYLVT_ 0 0 0 REV__GABRB1|p.K304Sfs*3|1|0.2|ENSG00000163288|chr4:47406756-47406757|AA/-|frameshift_variant REV__GABRB1|p.K304Sfs*3|1|0.2|ENSG00000163288|chr4:47406756-47406757|AA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.3633422851562 2 619.36117 1236.70779 3.6355 0.0022517 0.17797 0.00011023 3.8134 0.0023619 619.3611055261636 31.545 0.25343 32.162 32.021 32.274 0.61737 48 19 3 0 0 0 0.19044 1 14480 14480 28.495 3.5035 1 1303900 + 33113 12458 21049 21118 37285 37285 0.09890214774395645 TTTRLGIYTVL 11 Unmodified _TTTRLGIYTVL_ 0 0 0 nc|ENSG00000108528|Q02978-2|SLC25A11;ENSG00000108528|ENST00000225665|SLC25A11;ENST00000574710.1_1_17:4841038-4842521:-|nuORF nc|ENSG00000108528|Q02978-2|SLC25A11 nc|ENSG00000108528|Q02978-2|SLC25A11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.3636474609375 2 619.36117 1236.70779 3.8888 0.0024086 -0.052461 -3.2492E-05 3.8364 0.0023761 619.3611452499556 32.307 0.24333 32.307 32.227 32.47 0 43 20 3 0 0 0 0.14087 1 14637 14637 34.932 2.8946 1 1013600 33114 1636 21050 21119 37286 37286 0.09890214774418382 TTTRLGIYTVL 11 Unmodified _TTTRLGIYTVL_ 0 0 0 nc|ENSG00000108528|Q02978-2|SLC25A11;ENSG00000108528|ENST00000225665|SLC25A11;ENST00000574710.1_1_17:4841038-4842521:-|nuORF nc|ENSG00000108528|Q02978-2|SLC25A11 nc|ENSG00000108528|Q02978-2|SLC25A11 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 619.36117 1236.70779 3.9568 0.0024507 -0.004313 -2.6713E-06 3.9525 0.002448 619.8623302550359 32.213 0.22296 32.468 32.267 32.489 0.25452 0.18988 -0.00010056 NaN 34.932 33 15 3 NaN NaN NaN NaN 0 NaN NaN 0 1088100 33115 1636 21050 21119 0.09890214774418382 TTTRLGIYTVL 11 Unmodified _TTTRLGIYTVL_ 0 0 0 nc|ENSG00000108528|Q02978-2|SLC25A11;ENSG00000108528|ENST00000225665|SLC25A11;ENST00000574710.1_1_17:4841038-4842521:-|nuORF nc|ENSG00000108528|Q02978-2|SLC25A11 nc|ENSG00000108528|Q02978-2|SLC25A11 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 619.36117 1236.70779 3.6355 0.0022517 0.17797 0.00011023 3.8134 0.0023619 619.3611055261636 31.545 0.25343 32.162 32.021 32.274 0.61737 -0.11561 0.00012523 NaN 34.932 48 19 3 NaN NaN NaN NaN 0 NaN NaN 0 1303900 33116 1636 21050 21119 0.09890214774418382 TTTYQKLA 8 Unmodified _TTTYQKLA_ 0 0 0 REV__ENST00000510626.5_1_4:3131970-3189635:+|nuORF REV__ENST00000510626.5_1_4:3131970-3189635:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 309.1823425292969 3 309.171159 924.491647 NaN NaN NaN NaN NaN NaN NaN 51.045 1 51.862 51.362 52.362 0.81738 0 0 0 0.99035 1 23251 23251 1.6526 0 1 + 33117 14275 21051 21120 37287 37287 0.02638078660561405 TTVKLGNFK 9 Unmodified _TTVKLGNFK_ 0 0 0 ENST00000529511.2_1_11:84256393-84256642:-|nuORF ENST00000529511.2_1_11:84256393-84256642:-|nuORF ENST00000529511.2_1_11:84256393-84256642:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.299560546875 2 504.297842 1006.58113 3.0518 0.001539 0.57474 0.00028984 3.6265 0.0018288 504.29803856176324 38.739 0.23603 39.003 38.879 39.115 0.26408 14 9 2 0 0 0 0.54955 1 17657 17657 11.64 2.2929 1 438560 33118 8699 21052 21121 37288 37288 0.07810333339955378 TTVKLGNFK 9 Unmodified _TTVKLGNFK_ 0 0 0 ENST00000529511.2_1_11:84256393-84256642:-|nuORF ENST00000529511.2_1_11:84256393-84256642:-|nuORF ENST00000529511.2_1_11:84256393-84256642:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.2998352050781 2 504.297842 1006.58113 3.1175 0.0015721 0.52156 0.00026302 3.639 0.0018352 504.29819660564436 38.28 0.28492 38.914 38.787 39.072 0.63388 20 12 2 0 0 0 0.54955 1 17531 17531 11.64 2.2929 1 244300 33119 8699 21052 21121 37289 37289 0.07810333339955378 TTVTALVRKF 10 Unmodified _TTVTALVRKF_ 0 0 0 nc|ENSG00000166311|P17405-3|SMPD1;nc|ENSG00000166311|P17405-2|SMPD1;nc|ENSG00000166311|P17405-4|SMPD1;ENSG00000166311|ENST00000342245|SMPD1 nc|ENSG00000166311|P17405-3|SMPD1 nc|ENSG00000166311|P17405-3|SMPD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.3477783203125 2 568.345323 1134.67609 3.5068 0.001993 0.20342 0.00011561 3.7102 0.0021087 568.345385586318 26.062 0.20566 26.687 26.593 26.799 0.62505 24 14 2 0 0 0 0.93628 1 11989 11989 1.6526 0 1 370100 33120 4470 21053 21122 37290 37290 0.11414266811129892 TVCEHCDPCTK 11 Unmodified _TVCEHCDPCTK_ 0 0 0 nc|ENSG00000026103|P25445-6|FAS;ENSG00000026103|ENST00000652046|FAS;nc|ENSG00000026103|P25445-7|FAS;ENST00000371857.7_1_10:90751224-90770455:+|nuORF nc|ENSG00000026103|P25445-6|FAS nc|ENSG00000026103|P25445-6|FAS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 412.2500915527344 3 412.499964 1234.47806 NaN NaN NaN NaN NaN NaN NaN 9.3518 1 9.6629 9.1629 10.163 0.31115 0 0 0 1.0074 1 4183 4183 0.36667 0 1 33121 484 21054 21123 37291 37291 -0.1297960649687866 TVDSHEPRL 9 Unmodified _TVDSHEPRL_ 0 0 0 nc|ENSG00000206053|Q9H910-2|JPT2;ENSG00000206053|ENST00000248098|JPT2;nc|ENSG00000206053|Q9H910-3|JPT2 nc|ENSG00000206053|Q9H910-2|JPT2 nc|ENSG00000206053|Q9H910-2|JPT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.8498840332031 3 351.848967 1052.52507 2.6147 0.00091996 0.27151 9.5531E-05 2.8862 0.0010155 351.84904079637306 19.704 0.22315 19.704 19.624 19.848 0 33 19 2 0 0 0 0.049036 2 8787 8787;8854 37.771 22.523 1 1662200 33122 6066 21055 21124 37292;37293 37292 0.0009108043248033937 TVDSHEPRL 9 Unmodified _TVDSHEPRL_ 0 0 0 nc|ENSG00000206053|Q9H910-2|JPT2;ENSG00000206053|ENST00000248098|JPT2;nc|ENSG00000206053|Q9H910-3|JPT2 nc|ENSG00000206053|Q9H910-2|JPT2 nc|ENSG00000206053|Q9H910-2|JPT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.84979248046875 3 351.848967 1052.52507 2.3689 0.00083348 0.21823 7.6784E-05 2.5871 0.00091027 351.84897737658 19.246 0.28594 19.543 19.431 19.717 0.29753 63 29 3 0 0 0 0.0095519 3 8766 8725;8766;8814 67.081 47.719 1 2045400 33123 6066 21055 21124 37294;37295;37296 37295 0.0009108043248033937 TVDSHEPRL 9 Unmodified _TVDSHEPRL_ 0 0 0 nc|ENSG00000206053|Q9H910-2|JPT2;ENSG00000206053|ENST00000248098|JPT2;nc|ENSG00000206053|Q9H910-3|JPT2 nc|ENSG00000206053|Q9H910-2|JPT2 nc|ENSG00000206053|Q9H910-2|JPT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.27197265625 2 527.269813 1052.52507 3.1143 0.0016421 0.15561 8.205E-05 3.2699 0.0017241 527.2699104350125 19.289 0.21897 19.586 19.475 19.694 0.29753 34 22 2 0 0 0 0.069974 2 8749 8749;8800 40.239 16.219 1 648550 33124 6066 21055 21124 37297;37298 37297 0.0009108043248033937 TVDSHEPRL 9 Unmodified _TVDSHEPRL_ 0 0 0 nc|ENSG00000206053|Q9H910-2|JPT2;ENSG00000206053|ENST00000248098|JPT2;nc|ENSG00000206053|Q9H910-3|JPT2 nc|ENSG00000206053|Q9H910-2|JPT2 nc|ENSG00000206053|Q9H910-2|JPT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.8501281738281 3 351.848967 1052.52507 2.5621 0.00090149 0.5035 0.00017715 3.0656 0.0010786 351.8490466783071 18.833 0.31861 19.494 19.353 19.671 0.66072 57 24 3 0 0 0 0.084899 3 8543 8497;8543;8589 28.234 13.387 1 1552800 33125 6066 21055 21124 37299;37300;37301 37300 0.0009108043248033937 TVDSHEPRL 9 Unmodified _TVDSHEPRL_ 0 0 0 nc|ENSG00000206053|Q9H910-2|JPT2;ENSG00000206053|ENST00000248098|JPT2;nc|ENSG00000206053|Q9H910-3|JPT2 nc|ENSG00000206053|Q9H910-2|JPT2 nc|ENSG00000206053|Q9H910-2|JPT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.2717895507812 2 527.269813 1052.52507 3.3918 0.0017884 0.21178 0.00011167 3.6036 0.0019001 527.2698001440131 18.841 0.27719 19.502 19.369 19.646 0.66072 36 21 2 0 0 0 0.025135 1 8548 8548 61.602 27.2 1 753810 33126 6066 21055 21124 37302 37302 0.0009108043248033937 TVDSHEPRL 9 Unmodified _TVDSHEPRL_ 0 0 0 nc|ENSG00000206053|Q9H910-2|JPT2;ENSG00000206053|ENST00000248098|JPT2;nc|ENSG00000206053|Q9H910-3|JPT2 nc|ENSG00000206053|Q9H910-2|JPT2 nc|ENSG00000206053|Q9H910-2|JPT2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 527.269813 1052.52507 3.2426 0.0017097 0.20769 0.00010951 3.4503 0.0018192 527.2695868399323 19.675 0.089191 19.675 19.652 19.742 0 0.087263 1.3116E-05 NaN 61.602 14 8 2 NaN NaN NaN NaN 0 NaN NaN 0 637920 33127 6066 21055 21124 0.0009108043248033937 TVDSLLHHQ 9 Unmodified _TVDSLLHHQ_ 0 0 0 REV__nc|ENSG00000105778|Q8NBF6-2|AVL9 REV__nc|ENSG00000105778|Q8NBF6-2|AVL9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.9784545898438 2 525.272355 1048.53016 NaN NaN NaN NaN NaN NaN NaN 72.222 1 72.926 72.426 73.426 0.70386 0 0 0 0.87786 1 34750 34750 6.7232 0.51738 1 + 33128 11054 21056 21125 37303 37303 0.00783384295095857 TVEESFCC 8 Unmodified _TVEESFCC_ 0 0 0 REV__ENSG00000101493|ENST00000443185|ZNF516 REV__ENSG00000101493|ENST00000443185|ZNF516 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 459.1728820800781 2 459.172604 916.330655 NaN NaN NaN NaN NaN NaN NaN 71.38 1 71.38 70.88 71.88 0 0 0 0 0.99035 1 34697 34697 2.3027 1.5091 1 + 33129 10899 21057 21126 37304 37304 -0.1308575503933298 TVEESFCC 8 Unmodified _TVEESFCC_ 0 0 0 REV__ENSG00000101493|ENST00000443185|ZNF516 REV__ENSG00000101493|ENST00000443185|ZNF516 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 459.1729736328125 2 459.172604 916.330655 NaN NaN NaN NaN NaN NaN NaN 74.016 1 74.275 73.775 74.775 0.25876 0 0 0 0.99035 1 34015 34015 2.3027 1.5091 1 + 33130 10899 21057 21126 37305 37305 -0.1308575503933298 TVEFSRSRRKR 11 Unmodified _TVEFSRSRRKR_ 0 0 0 REV__ENSG00000196169|ENST00000389916|KIF19 REV__ENSG00000196169|ENST00000389916|KIF19 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 711.40673828125 2 711.40784 1420.80113 NaN NaN NaN NaN NaN NaN NaN 71.109 1 71.367 70.867 71.867 0.25786 0 0 0 1.0038 1 32571 32571 5.7319 0 1 + 33131 14192 21058 21127 37306 37306 0.10755952000204161 TVEKPPRK 8 Unmodified _TVEKPPRK_ 0 0 0 nc|ENSG00000173611|Q8N9R8-2|SCAI;ENST00000468569.1_1_9:127904910-127905758:-|nuORF;ENSG00000173611|ENST00000336505|SCAI nc|ENSG00000173611|Q8N9R8-2|SCAI nc|ENSG00000173611|Q8N9R8-2|SCAI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 318.8636169433594 3 318.862548 953.565815 2.3084 0.00073607 1.0963 0.00034958 3.4048 0.0010857 318.86285952577555 26.656 0.2342 26.921 26.793 27.027 0.26489 25 16 2 0 0 0 0.72385 1 12128 12128 3.9444 0 1 300730 33132 9755 21059 21128 37307 37307 0.08717466542748298 TVEKPPRK 8 Unmodified _TVEKPPRK_ 0 0 0 nc|ENSG00000173611|Q8N9R8-2|SCAI;ENST00000468569.1_1_9:127904910-127905758:-|nuORF;ENSG00000173611|ENST00000336505|SCAI nc|ENSG00000173611|Q8N9R8-2|SCAI nc|ENSG00000173611|Q8N9R8-2|SCAI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 318.86444091796875 3 318.862548 953.565815 2.0404 0.00065061 2.4612 0.00078478 4.5016 0.0014354 318.86323378845833 26.24 0.24051 26.865 26.752 26.992 0.62505 20 13 2 0 0 0 0.72385 1 12036 12036 3.9444 1.2092 1 161870 33133 9755 21059 21128 37308 37308 0.08717466542748298 TVEKPPRK 8 Unmodified _TVEKPPRK_ 0 0 0 nc|ENSG00000173611|Q8N9R8-2|SCAI;ENST00000468569.1_1_9:127904910-127905758:-|nuORF;ENSG00000173611|ENST00000336505|SCAI nc|ENSG00000173611|Q8N9R8-2|SCAI nc|ENSG00000173611|Q8N9R8-2|SCAI MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 318.862548 953.565815 2.3084 0.00073607 1.0963 0.00034958 3.4048 0.0010857 318.86285952577555 26.656 0.2342 26.921 26.793 27.027 0.26489 0.027856 -0.00049236 NaN 3.9444 25 16 2 NaN NaN NaN NaN 0 NaN NaN 0 300730 33134 9755 21059 21128 0.08717466542748298 TVFAKVQPPVL 11 Unmodified _TVFAKVQPPVL_ 0 0 0 REV__ENST00000495533.1_1_22:31501645-31501693:-|nuORF REV__ENST00000495533.1_1_22:31501645-31501693:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 599.9187622070312 2 599.863349 1197.71214 NaN NaN NaN NaN NaN NaN NaN 80.769 1 80.938 80.438 81.438 0.16862 0 0 0 0.91016 1 39604 39604 15.248 2.206 1 + 33135 16842 21060 21129 37309 37309 0.12119723987984798 TVFKLKRFL 9 Unmodified _TVFKLKRFL_ 0 0 0 ENST00000367097.7_1_6:158931717-158931981:+|nuORF ENST00000367097.7_1_6:158931717-158931981:+|nuORF ENST00000367097.7_1_6:158931717-158931981:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 576.8722534179688 2 576.368601 1150.72265 3.6837 0.0021232 0.66807 0.00038505 4.3517 0.0025082 576.369158725562 40.076 0.52692 40.076 39.672 40.199 0 29 22 2 0 0 0 1.2126 1 18154 18154 0.52476 0 1 315600 33136 7249 21061 21130 37310 37310 0.15331751433086538 TVFKLKRFL 9 Unmodified _TVFKLKRFL_ 0 0 0 ENST00000367097.7_1_6:158931717-158931981:+|nuORF ENST00000367097.7_1_6:158931717-158931981:+|nuORF ENST00000367097.7_1_6:158931717-158931981:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 576.368601 1150.72265 3.6837 0.0021232 0.66807 0.00038505 4.3517 0.0025082 576.369158725562 40.076 0.52692 40.076 39.672 40.199 0 0 0 NaN 0.52476 29 22 2 NaN NaN NaN NaN 0 NaN NaN 0 315600 33137 7249 21061 21130 0.15331751433086538 TVFRKLMM 8 Unmodified _TVFRKLMM_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6;ENST00000550040.1_1_12:50153009-50155568:+|nuORF nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1025.2357177734375 1 1025.56345 1024.55618 3.5238 0.0036139 -1.0441 -0.0010708 2.4797 0.0025431 1025.5632095271408 24.34 0.065983 24.974 24.933 24.999 0.63441 14 13 2 0 0 0 0.14267 1 11128 11128 2.5775 0 1 21699000 33138 3158 21062 21131 37311 37311 0.04488238941371492 TVFRKLMM 8 Unmodified _TVFRKLMM_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6;ENST00000550040.1_1_12:50153009-50155568:+|nuORF nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 1025.56345 1024.55618 3.499 0.0035885 1.4325 0.0014692 4.9316 0.0050576 1025.5656375510919 24.648 0.017132 24.919 24.906 24.923 0.27129 -0.027419 0.0019967 NaN 2.5775 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 2820000 33139 3158 21062 21131 0.04488238941371492 TVGLLFYCRR 10 Unmodified _TVGLLFYCRR_ 0 0 0 ENSG00000086570|ENST00000261800|FAT2 ENSG00000086570|ENST00000261800|FAT2 ENSG00000086570|ENST00000261800|FAT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.3357543945312 2 614.336975 1226.6594 NaN NaN NaN NaN NaN NaN NaN 73.696 1 73.696 73.196 74.196 0 0 0 0 0.99464 1 35953 35953 6.2058 0.9089 1 33140 984 21063 21132 37312 37312 0.055134426535232706 TVGMGYSMYRE 11 Unmodified _TVGMGYSMYRE_ 0 0 0 ENST00000470543.1_1_3:42826765-42845976:-|nuORF;ENSG00000181061|ENST00000321331|HIGD1A;nc|ENSG00000181061|Q9Y241-2|HIGD1A ENST00000470543.1_1_3:42826765-42845976:-|nuORF ENST00000470543.1_1_3:42826765-42845976:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.2859497070312 2 647.283748 1292.55294 NaN NaN NaN NaN NaN NaN NaN 53.852 1 53.852 53.352 54.352 0 0 0 0 1.0059 1 24689 24689 2.9952 0.26005 1 33141 5280 21064 21133 37313 37313 -0.08163100693946035 TVGVTQPYL 9 Unmodified _TVGVTQPYL_ 0 0 0 ENSG00000160161|ENST00000291495|CILP2 ENSG00000160161|ENST00000291495|CILP2 ENSG00000160161|ENST00000291495|CILP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.2711181640625 2 489.26875 976.522947 3.5855 0.0017543 -0.019248 -9.4176E-06 3.5662 0.0017448 489.26867678959553 31.674 0.52255 31.929 31.648 32.171 0.25452 131 40 4 0 0 0 0.16976 1 14507 14507 25.399 1.3787 1 6148400 33142 4043 21065 21134 37314 37314 0.033746516946507654 TVHKLLRRLHL 11 Unmodified _TVHKLLRRLHL_ 0 0 0 nc|ENSG00000144452|Q86UK0-2|ABCA12;ENSG00000144452|ENST00000272895|ABCA12 nc|ENSG00000144452|Q86UK0-2|ABCA12 nc|ENSG00000144452|Q86UK0-2|ABCA12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 693.4480590820312 2 693.446237 1384.87792 NaN NaN NaN NaN NaN NaN NaN 97.973 1 98.044 97.544 98.544 0.070648 0 0 0 1.0072 1 52536 52536 1.3295 0 1 33143 3426 21066 21135 37315 37315 0.200877952873725 TVHLPHQPQE 10 Unmodified _TVHLPHQPQE_ 0 0 0 REV__ENSG00000089220|ENST00000261313|PEBP1 REV__ENSG00000089220|ENST00000261313|PEBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 593.303466796875 2 593.304187 1184.59382 NaN NaN NaN NaN NaN NaN NaN 109.2 1 109.24 108.74 109.74 0.041008 0 0 0 1.0001 1 58913 58913 1.6526 0 1 + 33144 10694 21067 21136 37316 37316 0.008907447321689688 TVHTKTTL 8 Unmodified _TVHTKTTL_ 0 0 0 ENST00000469704.1_1_20:17934783-17949290:-|nuORF;ENSG00000089006|ENST00000377759|SNX5;ENST00000547000.1_1_12:101460529-101460730:+|nuORF;ENST00000474883.5_1_20:17934783-17949378:-|nuORF;ENST00000490175.5_1_20:17923003-17949420:-|nuORF ENST00000469704.1_1_20:17934783-17949290:-|nuORF ENST00000469704.1_1_20:17934783-17949290:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.7619934082031 2 450.761092 899.507631 NaN NaN NaN NaN NaN NaN NaN 12.379 1 13.017 12.517 13.517 0.63746 0 0 0 0.12638 1 5539 5539 89.401 32.859 1 33145 8165 21068 21137 37317 37317 0.053857848974644185 TVHVRHVT 8 Unmodified _TVHVRHVT_ 0 0 0 REV__ENST00000528236.5_1_11:45947679-45949381:+|nuORF REV__ENST00000528236.5_1_11:45947679-45949381:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 316.8509521484375 3 316.850643 947.530098 2.0916 0.00066273 -0.9165 -0.00029039 1.1751 0.00037234 316.85032025352297 16.741 0.94591 17.046 16.49 17.435 0.30438 199 92 3 0 0 0 0.7471 1 7424 7424 1.4819 0 1 203120 + 33146 13197 21069 21138 37318 37318 0.05423429085760745 TVHWAWTRRRD 11 Unmodified _TVHWAWTRRRD_ 0 0 0 ENST00000477724.6_2_14:105954580-105958516:+|nuORF ENST00000477724.6_2_14:105954580-105958516:+|nuORF ENST00000477724.6_2_14:105954580-105958516:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 742.3873901367188 2 742.386908 1482.75926 NaN NaN NaN NaN NaN NaN NaN 70.139 1 70.396 69.896 70.896 0.25642 0 0 0 1.008 1 32120 32120 0.35063 0 1 33147 8246 21070 21139 37319 37319 0.03719396311657874 TVIFARGR 8 Unmodified _TVIFARGR_ 0 0 0 ENST00000546500.5_1_12:54674031-54674238:+|nuORF ENST00000546500.5_1_12:54674031-54674238:+|nuORF ENST00000546500.5_1_12:54674031-54674238:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 307.1888732910156 3 307.187255 918.539935 NaN NaN NaN NaN NaN NaN NaN 29.084 1 29.873 29.373 30.373 0.78921 0 0 0 0.99035 1 13106 13106 0.40072 0 1 33148 8845 21071 21140 37320 37320 0.07740617091133117 TVIFFSFFVPI 11 Unmodified _TVIFFSFFVPI_ 0 0 0 REV__ENST00000469702.5_1_2:114462911-114480749:-|nuORF REV__ENST00000469702.5_1_2:114462911-114480749:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 658.6282958984375 2 658.8681 1315.72165 NaN NaN NaN NaN NaN NaN NaN 58.698 1 59.456 58.956 59.956 0.75894 0 0 0 1.0059 1 26946 26946 2.9952 0 1 + 33149 11341 21072 21141 37321 37321 0.07641492273523909 TVIKRWLDWR 10 Unmodified _TVIKRWLDWR_ 0 0 0 REV__ENSG00000127989|ENST00000351870|MTERF1 REV__ENSG00000127989|ENST00000351870|MTERF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 686.7762451171875 2 686.896046 1371.77754 NaN NaN NaN NaN NaN NaN NaN 107.45 1 107.45 106.95 107.95 0 0 0 0 0.99812 1 58934 58934 3.2813 0.28607 1 + 33150 11754 21073 21142 37322 37322 0.10652138233695041 TVILIILIIIF 11 Unmodified _TVILIILIIIF_ 0 0 0 ENSG00000185158|ENST00000543378|LRRC37B;nc|ENSG00000185158|Q96QE4-2|LRRC37B;nc|ENSG00000185158|Q96QE4|LRRC37B;ENST00000579766.1_1_17:30376071-30377294:+|nuORF;ENST00000417404.2_1_17:28960066-28961284:+|nuORF;ENST00000579094.1_1_17:30374694-30380344:+|nuORF ENSG00000185158|ENST00000543378|LRRC37B ENSG00000185158|ENST00000543378|LRRC37B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 635.9402465820312 2 635.941068 1269.86758 NaN NaN NaN NaN NaN NaN NaN 71.98 1 72.684 72.184 73.184 0.70386 0 0 0 1.0072 1 34608 34608 1.3295 0 1 33151 5493 21074 21143 37323 37323 0.24344374789552603 TVIVDVKLDKE 11 Unmodified _TVIVDVKLDKE_ 0 0 0 REV__ENSG00000196511|ENST00000360057|TPK1 REV__ENSG00000196511|ENST00000360057|TPK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 630.0352783203125 2 629.866285 1257.71802 NaN NaN NaN NaN NaN NaN NaN 81.276 1 81.444 80.944 81.944 0.16862 0 0 0 1.0041 1 39931 39931 5.2969 0.39987 1 + 33152 14225 21075 21144 37324 37324 0.09946777709001253 TVKKAARVI 9 Unmodified _TVKKAARVI_ 0 0 0 ENST00000559273.1_1_15:83208730-83209179:-|nuORF;ENST00000560639.1_1_15:83207600-83209179:-|nuORF;ENSG00000182774|ENST00000647841|RPS17 ENST00000559273.1_1_15:83208730-83209179:-|nuORF ENST00000559273.1_1_15:83208730-83209179:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.2158203125 2 493.329476 984.6444 3.5237 0.0017384 0.37451 0.00018476 3.8982 0.0019231 493.3295421766937 12.585 0.095084 13.228 13.149 13.244 0.64272 4 2 2 0 0 0 0.30982 1 5645 5645 23.148 3.7094 1 915130 33153 5349 21076 21145 37325 37325 0.15146318847837392 TVKKAARVI 9 Unmodified _TVKKAARVI_ 0 0 0 ENST00000559273.1_1_15:83208730-83209179:-|nuORF;ENST00000560639.1_1_15:83207600-83209179:-|nuORF;ENSG00000182774|ENST00000647841|RPS17 ENST00000559273.1_1_15:83208730-83209179:-|nuORF ENST00000559273.1_1_15:83208730-83209179:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 493.329476 984.6444 2.4837 0.0012253 -0.16356 -8.0687E-05 2.3202 0.0011446 493.3295947497053 12.645 0.11411 12.952 12.882 12.996 0.30727 -0.10926 -0.00059806 NaN 23.148 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1224700 33154 5349 21076 21145 0.15146318847837392 TVKLHWWRFLV 11 Unmodified _TVKLHWWRFLV_ 0 0 0 ENST00000526903.1_1_11:71671811-71693962:+|nuORF;ENST00000528683.5_1_11:71640101-71701796:+|nuORF;nc|ENSG00000137522|Q9H920-2|RNF121;ENST00000526549.5_1_11:71673326-71707358:+|nuORF;ENSG00000137522|ENST00000361756|RNF121 ENST00000526903.1_1_11:71671811-71693962:+|nuORF ENST00000526903.1_1_11:71671811-71693962:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 742.9302978515625 2 742.929889 1483.84522 NaN NaN NaN NaN NaN NaN NaN 22.678 1 22.958 22.458 23.458 0.28085 0 0 0 1.008 1 10236 10236 0.35063 0 1 33155 3023 21077 21146 37326 37326 0.12265588164473229 TVKLRAEEL 9 Unmodified _TVKLRAEEL_ 0 0 0 nc|ENSG00000123444|Q9NVX7-1|KBTBD4;ENSG00000123444|ENST00000430070|KBTBD4;nc|ENSG00000123444|Q9NVX7-3|KBTBD4 nc|ENSG00000123444|Q9NVX7-1|KBTBD4 nc|ENSG00000123444|Q9NVX7-1|KBTBD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.816650390625 2 529.813856 1057.61316 NaN NaN NaN NaN NaN NaN NaN 28.932 1 29.192 28.692 29.692 0.2602 0 0 0 0.13263 1 13165 13165 24.991 6.8446 1 33156 2313 21078 21147 37327 37327 0.0866570102307378 TVKLRLLVK 9 Unmodified _TVKLRLLVK_ 0 0 0 ENSG00000115415|ENST00000361099|STAT1;nc|ENSG00000115415|P42224-2|STAT1 ENSG00000115415|ENST00000361099|STAT1 ENSG00000115415|ENST00000361099|STAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.5032348632812 2 535.376426 1068.7383 NaN NaN NaN NaN NaN NaN NaN 67.817 1 67.817 67.317 68.317 0 0 0 0 0.90611 1 32584 32584 2.0598 0 1 33157 1969 21079 21148 37328 37328 0.20668037950122198 TVKPKPQL 8 Unmodified _TVKPKPQL_ 0 0 0 ENSG00000122257|ENST00000319715|RBBP6;nc|ENSG00000122257|Q7Z6E9-2|RBBP6;nc|ENSG00000122257|Q7Z6E9-4|RBBP6 ENSG00000122257|ENST00000319715|RBBP6 ENSG00000122257|ENST00000319715|RBBP6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.19610595703125 3 304.195527 909.564752 1.6796 0.00051094 0.22405 6.8154E-05 1.9037 0.00057909 304.1955840611742 13.195 0.38925 13.502 13.34 13.729 0.30727 41 26 2 0 0 0 0.59268 1 5960 5960 10.824 4.1008 1 110860 33158 2263 21080 21149 37329 37329 0.1063525217384722 TVKPKPQL 8 Unmodified _TVKPKPQL_ 0 0 0 ENSG00000122257|ENST00000319715|RBBP6;nc|ENSG00000122257|Q7Z6E9-2|RBBP6;nc|ENSG00000122257|Q7Z6E9-4|RBBP6 ENSG00000122257|ENST00000319715|RBBP6 ENSG00000122257|ENST00000319715|RBBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 455.7916259765625 2 455.789653 909.564752 NaN NaN NaN NaN NaN NaN NaN 13.218 1 13.525 13.025 14.025 0.30727 0 0 0 0.95658 1 5961 5961 8.5933 0 1 33159 2263 21080 21149 37330 37330 0.1063525217384722 TVKQKYLSF 9 Unmodified _TVKQKYLSF_ 0 0 0 ENST00000556425.2_1_15:21937379-21938108:-|nuORF;ENSG00000180370|ENST00000327134|PAK2 ENST00000556425.2_1_15:21937379-21938108:-|nuORF ENST00000556425.2_1_15:21937379-21938108:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.3206176757812 2 557.318774 1112.623 NaN NaN NaN NaN NaN NaN NaN 36.788 1 37.045 36.545 37.545 0.25768 0 0 0 0.46004 1 16756 16756 20.415 2.2682 1 33160 5250 21081 21150 37331 37331 0.07118889028447484 TVKTKTTKTR 10 Unmodified _TVKTKTTKTR_ 0 0 0 ENST00000396020.7_1_14:50043976-50044102:-|nuORF ENST00000396020.7_1_14:50043976-50044102:-|nuORF ENST00000396020.7_1_14:50043976-50044102:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.3588256835938 2 582.358962 1162.70337 NaN NaN NaN NaN NaN NaN NaN 4.0626 1 4.3668 3.8668 4.8668 0.3042 0 0 0 1.002 1 1845 1845 0 0 1 33161 7563 21082 21151 37332 37332 0.12852750351498798 TVKVFLIKERI 11 Unmodified _TVKVFLIKERI_ 0 0 0 ENST00000430379.5_1_3:48894685-48894901:-|nuORF ENST00000430379.5_1_3:48894685-48894901:-|nuORF ENST00000430379.5_1_3:48894685-48894901:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 673.3494873046875 2 673.43193 1344.84931 NaN NaN NaN NaN NaN NaN NaN 48.912 1 49.174 48.674 49.674 0.26209 0 0 0 1.0061 1 22359 22359 2.7352 1.0826 1 33162 7848 21083 21152 37333 37333 0.1906763286754085 TVKVHVVAL 9 Unmodified _TVKVHVVAL_ 0 0 0 ENSG00000123395|ENST00000336854|ATG101 ENSG00000123395|ENST00000336854|ATG101 ENSG00000123395|ENST00000336854|ATG101 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.3132629394531 2 483.310752 964.606951 3.1192 0.0015076 0.34574 0.0001671 3.465 0.0016747 483.31147797510374 37.47 0.13565 38.265 38.205 38.341 0.79552 8 5 2 0 0 0 0.11458 1 16992 16992 29.082 13.234 1 268520 33163 2311 21084 21153 37334 37334 0.12323227582214713 TVKVHVVAL 9 Unmodified _TVKVHVVAL_ 0 0 0 ENSG00000123395|ENST00000336854|ATG101 ENSG00000123395|ENST00000336854|ATG101 ENSG00000123395|ENST00000336854|ATG101 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.3118591308594 2 483.310752 964.606951 2.9855 0.0014429 -1.2915 -0.00062421 1.6939 0.00081869 483.31070735411356 38.142 0.47773 38.406 38.246 38.724 0.26408 28 14 4 0 0 0 0.0029142 1 17360 17360 96.111 59.984 1 1733700 33164 2311 21084 21153 37335 37335 0.12323227582214713 TVKVHVVAL 9 Unmodified _TVKVHVVAL_ 0 0 0 ENSG00000123395|ENST00000336854|ATG101 ENSG00000123395|ENST00000336854|ATG101 ENSG00000123395|ENST00000336854|ATG101 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.31182861328125 2 483.310752 964.606951 3.1027 0.0014996 -0.43948 -0.0002124 2.6633 0.0012872 483.3107725003804 37.487 0.39344 38.119 37.968 38.361 0.63222 28 12 4 0 0 0 0.004576 2 17152 17152;17207 92.653 56.526 1 1810900 33165 2311 21084 21153 37336;37337 37336 0.12323227582214713 TVKVHVVAL 9 Unmodified _TVKVHVVAL_ 0 0 0 ENSG00000123395|ENST00000336854|ATG101 ENSG00000123395|ENST00000336854|ATG101 ENSG00000123395|ENST00000336854|ATG101 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 483.310752 964.606951 3.2335 0.0015628 -0.64941 -0.00031387 2.5841 0.0012489 483.31128698680357 38.424 0.17352 38.424 38.356 38.529 0 0.12068 -0.0001304 NaN 96.111 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 281970 33166 2311 21084 21153 0.12323227582214713 TVKVKNVSF 9 Unmodified _TVKVKNVSF_ 0 0 0 PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant;ENSG00000119938|ENST00000238994|PPP1R3C PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 341.206787109375 3 341.206203 1020.59678 NaN NaN NaN NaN NaN NaN NaN 28.166 1 28.952 28.452 29.452 0.78627 0 0 0 0.59707 1 12679 12679 10.8 4.1691 1 33167 2174 21085 21154 37338 37338 0.08730619856999056 TVKVKNVSF 9 Unmodified _TVKVKNVSF_ 0 0 0 PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant;ENSG00000119938|ENST00000238994|PPP1R3C PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 511.3070373535156 2 511.305667 1020.59678 3.3542 0.001715 -0.26658 -0.0001363 3.0876 0.0015787 511.3056024975806 28.818 0.17574 29.078 29.002 29.178 0.2602 21 14 2 0 0 0 0.048715 1 13119 13119 47.732 14.946 1 527530 33168 2174 21085 21154 37339 37339 0.08730619856999056 TVKVKNVSF 9 Unmodified _TVKVKNVSF_ 0 0 0 PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant;ENSG00000119938|ENST00000238994|PPP1R3C PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 511.305667 1020.59678 3.4609 0.0017696 -0.027519 -1.4071E-05 3.4334 0.0017555 511.3056029213527 29.005 0.21423 29.005 28.9 29.114 0 -0.051327 -0.0001871 NaN 47.732 24 16 2 NaN NaN NaN NaN 0 NaN NaN 0 209860 33169 2174 21085 21154 0.08730619856999056 TVKVKNVSF 9 Unmodified _TVKVKNVSF_ 0 0 0 PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant;ENSG00000119938|ENST00000238994|PPP1R3C PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant PPP1R3C|p.N248Kfs*39|1|0.24|ENSG00000119938|chr10:91630137-91630137|G/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 511.305667 1020.59678 3.3165 0.0016957 0.38928 0.00019904 3.7057 0.0018948 511.3060146304855 28.467 0.3306 29.086 28.948 29.279 0.61947 0.029997 0.00023912 NaN 47.732 44 18 3 NaN NaN NaN NaN 0 NaN NaN 0 534000 33170 2174 21085 21154 0.08730619856999056 TVKVTLPCS 9 Unmodified _TVKVTLPCS_ 0 0 0 REV__nc|ENSG00000148219|O75129-2|ASTN2 REV__nc|ENSG00000148219|O75129-2|ASTN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.2681579589844 2 474.265153 946.515753 NaN NaN NaN NaN NaN NaN NaN 67.905 1 67.905 67.405 68.405 0 0 0 0 0.77475 1 32636 32636 10.074 1.4806 1 + 33171 12526 21086 21155 37340 37340 0.04035595822585947 TVLEDIAVF 9 Unmodified _TVLEDIAVF_ 0 0 0 ENSG00000205038|ENST00000378402|PKHD1L1 ENSG00000205038|ENST00000378402|PKHD1L1 ENSG00000205038|ENST00000378402|PKHD1L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.77813720703125 2 503.776408 1005.53826 3.108 0.0015658 0.43202 0.00021764 3.5401 0.0017834 503.77645665313196 82.361 0.50497 82.608 82.46 82.965 0.24722 53 26 3 0 0 0 0.056465 1 37892 37892 44.407 2.3125 1 1944200 33172 6042 21087 21156 37341 37341 0.03571518491844472 TVLIKKKLI 9 Unmodified _TVLIKKKLI_ 0 0 0 REV__nc|ENSG00000174776|Q8IV35-2|CFAP337 REV__nc|ENSG00000174776|Q8IV35-2|CFAP337 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1056.7509765625 1 1055.75508 1054.7478 3.3337 0.0035196 -4.2797 -0.0045184 -0.94606 -0.00099881 1055.7544110381384 36.877 0.10085 36.877 36.785 36.886 0 5 4 2 0 0 0 1.2126 1 16740 16740 0.52476 0 1 269440 + 33173 13645 21088 21157 37342 37342 0.22261806235655968 TVLIKKKLI 9 Unmodified _TVLIKKKLI_ 0 0 0 REV__nc|ENSG00000174776|Q8IV35-2|CFAP337 REV__nc|ENSG00000174776|Q8IV35-2|CFAP337 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 1055.75508 1054.7478 3.3337 0.0035196 -4.2797 -0.0045184 -0.94606 -0.00099881 1055.7544110381384 36.877 0.10085 36.877 36.785 36.886 0 0 0 NaN 0.52476 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 269440 + 33174 13645 21088 21157 0.22261806235655968 TVLKRAVEL 9 Unmodified _TVLKRAVEL_ 0 0 0 ENSG00000158411|ENST00000289359|MITD1 ENSG00000158411|ENST00000289359|MITD1 ENSG00000158411|ENST00000289359|MITD1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.7926635742188 2 514.826766 1027.63898 3.9625 0.00204 0.71464 0.00036792 4.6771 0.0024079 514.8269773157722 31.248 0.19537 31.505 31.393 31.588 0.25614 16 13 2 0 0 0 0.06495 1 14220 14220 13.042 2.9685 1 149510 33175 3985 21089 21158 37343 37343 0.12626595265373908 TVLKRHRRKKE 11 Unmodified _TVLKRHRRKKE_ 0 0 0 REV__ENST00000416824.1_1_7:44079705-44080035:+|nuORF REV__ENST00000416824.1_1_7:44079705-44080035:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 725.9590454101562 2 725.957501 1449.90045 NaN NaN NaN NaN NaN NaN NaN 74.228 1 74.228 73.728 74.728 0 0 0 0 1.0079 1 36245 36245 1.3295 0.9789 1 + 33176 16137 21090 21159 37344 37344 0.19349394684968502 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.79638671875 2 491.795269 981.575986 3.0046 0.0014776 1.2275 0.00060367 4.2321 0.0020813 491.7959455230696 45.766 0.62452 45.766 45.288 45.912 0 43 29 2 0 0 0 0.71384 1 20801 20801 4.756 0 1 729150 + 33177 9967 21091 21160 37345 37345 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.7976989746094 2 491.795269 981.575986 3.1038 0.0015264 1.4886 0.00073209 4.5924 0.0022585 491.7957567298064 55.326 0.16249 55.326 55.261 55.424 0 25 12 3 0 0 0 0.71384 1 25413 25413 4.756 0 1 4184600 + 33178 9967 21091 21160 37346 37346 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.20037841796875 3 328.199272 981.575986 2.0243 0.00066437 1.6097 0.00052831 3.634 0.0011927 328.1995979262712 47.036 0.5622 47.036 46.585 47.147 0 40 24 2 0 0 0 0.1432 1 21458 21458 1.4819 0 1 853780 + 33179 9967 21091 21160 37347 37347 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.3022766113281 2 491.795269 981.575986 2.931 0.0014415 1.8505 0.00091008 4.7815 0.0023515 491.79605146455685 56.652 0.33081 57.43 57.24 57.571 0.77786 49 34 2 0 0 0 0.66653 1 25902 25902 8.5933 0 1 995240 + 33180 9967 21091 21160 37348 37348 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.9061584472656 2 491.795269 981.575986 2.8365 0.001395 1.8272 0.00089859 4.6636 0.0022936 491.79596123023106 59.734 0.4319 60.484 60.09 60.522 0.74927 37 31 2 0 0 0 0.71384 1 27363 27363 4.756 0 1 561940 + 33181 9967 21091 21160 37349 37349 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 982.5880126953125 1 982.583262 981.575986 3.5503 0.0034885 1.2027 0.0011818 4.753 0.0046703 982.5843164796817 43.218 0.28001 43.488 43.422 43.702 0.27021 44 26 2 0 0 0 0.71384 2 19738 19738;19782 4.756 0 1 1517700 + 33182 9967 21091 21160 37350;37351 37350 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7975158691406 2 491.795269 981.575986 3.0546 0.0015022 1.1289 0.0005552 4.1835 0.0020574 491.79579094563087 45.426 0.72413 45.694 45.205 45.93 0.26768 49 29 2 0 0 0 0.66653 3 20696 20645;20696;20847 8.5933 0 1 1692200 + 33183 9967 21091 21160 37352;37353;37354 37353 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7972717285156 2 491.795269 981.575986 3.2921 0.001619 1.0381 0.00051055 4.3303 0.0021296 491.7957215533566 46.393 0.50193 46.659 46.449 46.951 0.26561 39 18 3 0 0 0 0.71384 1 21186 21186 4.756 0 1 1332700 + 33184 9967 21091 21160 37355 37355 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.2008972167969 3 328.199272 981.575986 2.4061 0.00078969 1.6599 0.00054477 4.066 0.0013345 328.19976593187016 59.704 0.33527 59.963 59.768 60.103 0.2593 28 21 2 0 0 0 0.7441 1 27254 27254 1.4819 0 1 1105900 + 33185 9967 21091 21160 37356 37356 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.79693603515625 2 491.795269 981.575986 2.9434 0.0014475 1.0957 0.00053888 4.0391 0.0019864 491.7958519339908 71.099 0.43425 71.356 71.138 71.573 0.25786 60 40 2 0 0 0 0.74071 1 32478 32478 2.5775 0 1 816700 + 33186 9967 21091 21160 37357 37357 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7973937988281 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 48.978 1 49.24 48.74 49.74 0.26209 0 0 0 0.967 1 22389 22389 7.9102 0 1 + 33187 9967 21091 21160 37358 37358 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7970886230469 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 67.181 1 67.431 66.931 67.931 0.2501 0 0 0 0.99035 1 30775 30775 4.756 0 1 + 33188 9967 21091 21160 37359 37359 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7987976074219 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 68.649 1 68.901 68.401 69.401 0.25227 0 0 0 0.99035 1 31449 31449 4.756 2.1785 1 + 33189 9967 21091 21160 37360 37360 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7977600097656 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 68.758 1 69.012 68.512 69.512 0.25443 0 0 0 0.99035 1 31498 31498 5.7604 0.52976 1 + 33190 9967 21091 21160 37361 37361 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.76275634765625 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 69.094 1 69.348 68.848 69.848 0.25443 0 0 0 0.95658 1 31651 31651 8.5933 0 1 + 33191 9967 21091 21160 37362 37362 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7969055175781 2 491.795269 981.575986 3.353 0.001649 1.021 0.00050214 4.374 0.0021511 491.79567608462355 42.608 0.6832 43.255 42.888 43.571 0.64693 103 56 2 0 0 0 0.66653 3 19498 19385;19498;19547 8.5933 0 1 4064700 + 33192 9967 21091 21160 37363;37364;37365 37364 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.797607421875 2 491.795269 981.575986 3.0585 0.0015041 1.8514 0.00091053 4.9099 0.0024147 491.79602354294104 54.088 0.21949 54.755 54.64 54.859 0.6665 25 13 2 0 0 0 0.71384 1 24779 24779 4.756 0 1 2046200 + 33193 9967 21091 21160 37366 37366 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7979431152344 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 46.884 1 47.536 47.036 48.036 0.65219 0 0 0 0.99035 1 21472 21472 5.7604 0 1 + 33194 9967 21091 21160 37367 37367 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7979431152344 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 52.73 1 53.392 52.892 53.892 0.66198 0 0 0 0.99035 1 24109 24109 4.756 0 1 + 33195 9967 21091 21160 37368 37368 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7978820800781 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 62.212 1 62.872 62.372 63.372 0.66008 0 0 0 0.99035 1 28507 28507 4.756 0 1 + 33196 9967 21091 21160 37369 37369 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7973327636719 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 64.401 1 65.058 64.558 65.558 0.65672 0 0 0 0.99035 1 29523 29523 2.5775 0 1 + 33197 9967 21091 21160 37370 37370 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7970275878906 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 68.16 1 68.819 68.319 69.319 0.65924 0 0 0 0.99035 1 31244 31244 4.756 0 1 + 33198 9967 21091 21160 37371 37371 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 491.795269 981.575986 3.0556 0.0015027 1.2683 0.00062376 4.3239 0.0021265 491.79580030034094 43.629 0.32328 43.629 43.529 43.852 0 0.11111 9.8143E-06 NaN 8.5933 43 31 2 NaN NaN NaN NaN 0 NaN NaN 0 6540700 + 33199 9967 21091 21160 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 491.795269 981.575986 3.2103 0.0015788 1.5385 0.00075662 4.7488 0.0023354 491.79592992097787 57.256 0.22212 57.256 57.156 57.378 0 0.092476 -0.00021833 NaN 8.5933 31 20 2 NaN NaN NaN NaN 0 NaN NaN 0 2414400 + 33200 9967 21091 21160 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 491.795269 981.575986 3.0768 0.0015132 2.5467 0.0012524 5.6235 0.0027656 491.7965642367352 42.912 0.075558 43.726 43.672 43.748 0.81444 0.20813 0.0012672 NaN 8.5933 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 2259100 + 33201 9967 21091 21160 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 328.199272 981.575986 2.2557 0.00074032 1.4288 0.00046894 3.6845 0.0012093 328.19972931653854 45.977 0.372 46.804 46.692 47.064 0.82621 -0.18861 -0.00012984 NaN 1.4819 35 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1220900 + 33202 9967 21091 21160 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 982.583262 981.575986 3.5503 0.0034885 1.2027 0.0011818 4.753 0.0046703 982.5843164796817 43.218 0.28001 43.488 43.422 43.702 0.27021 0.17154 -3.9247E-05 NaN 4.756 44 26 2 NaN NaN NaN NaN 0 NaN NaN 0 1517700 + 33203 9967 21091 21160 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 491.795269 981.575986 3.1387 0.0015436 1.3208 0.00064957 4.4595 0.0021932 491.7957743701428 43.191 0.40491 43.461 43.355 43.759 0.27021 -0.056686 6.144E-05 NaN 8.5933 93 38 3 NaN NaN NaN NaN 0 NaN NaN 0 7150100 + 33204 9967 21091 21160 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 328.199272 981.575986 2.5775 0.00084594 1.9957 0.00065499 4.5732 0.0015009 328.20001422131463 46.873 0.3591 47.137 47.039 47.398 0.26363 0.14442 0.0004283 NaN 1.4819 14 11 2 NaN NaN NaN NaN 0 NaN NaN 0 576500 + 33205 9967 21091 21160 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 982.583262 981.575986 3.8789 0.0038113 1.5558 0.0015287 5.4347 0.00534 982.5841174862753 42.498 0.065102 43.145 43.103 43.168 0.64693 -0.17154 0.00030771 NaN 4.756 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 734070 + 33206 9967 21091 21160 0.08446074267999393 TVLPRFHL 8 Unmodified _TVLPRFHL_ 0 0 0 REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant REV__ARHGAP21|p.L1853Rfs*14|1|0.05|ENSG00000107863|chr10:24584731-24584732|-/AATAAAC|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 491.795269 981.575986 3.2577 0.0016021 1.8009 0.00088565 5.0586 0.0024878 491.7958542611343 56.326 0.967 56.995 56.707 57.674 0.66829 -0.1691 3.9721E-05 NaN 8.5933 87 56 2 NaN NaN NaN NaN 0 NaN NaN 0 1819100 + 33207 9967 21091 21160 0.08446074267999393 TVLSRANSL 9 Unmodified _TVLSRANSL_ 0 0 0 ENST00000513139.1_1_4:177241188-177248429:+|nuORF;ENSG00000129128|ENST00000503362|SPCS3;ENST00000507678.5_1_4:177241188-177241371:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.78021240234375 2 480.777274 959.539994 3.4942 0.00168 1.6293 0.00078334 5.1236 0.0024633 480.7784515358964 31.72 0.27463 31.974 31.839 32.114 0.25452 42 23 2 0 0 0 0.057456 2 14468 14422;14468 43.982 7.4756 1 444730 33208 2540 21092 21161 37372;37373 37373 0.058605723004689025 TVLSRANSL 9 Unmodified _TVLSRANSL_ 0 0 0 ENST00000513139.1_1_4:177241188-177248429:+|nuORF;ENSG00000129128|ENST00000503362|SPCS3;ENST00000507678.5_1_4:177241188-177241371:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.7803039550781 2 480.777274 959.539994 3.1355 0.0015075 1.5022 0.00072224 4.6378 0.0022297 480.77837670398765 31.192 0.27887 31.809 31.679 31.958 0.61737 33 18 3 0 0 0 0.099775 1 14334 14334 32.786 3.7041 1 482100 33209 2540 21092 21161 37374 37374 0.058605723004689025 TVLSRANSL 9 Unmodified _TVLSRANSL_ 0 0 0 ENST00000513139.1_1_4:177241188-177248429:+|nuORF;ENSG00000129128|ENST00000503362|SPCS3;ENST00000507678.5_1_4:177241188-177241371:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF ENST00000513139.1_1_4:177241188-177248429:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 480.777274 959.539994 3.1355 0.0015075 1.5022 0.00072224 4.6378 0.0022297 480.77837670398765 31.192 0.27887 31.809 31.679 31.958 0.61737 -0.082528 -7.1823E-05 NaN 43.982 33 18 3 NaN NaN NaN NaN 0 NaN NaN 0 482100 33210 2540 21092 21161 0.058605723004689025 TVLVWRFKM 9 Unmodified _TVLVWRFKM_ 0 0 0 REV__ENST00000526757.5_1_11:8715264-8715453:-|nuORF REV__ENST00000526757.5_1_11:8715264-8715453:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.8419189453125 2 590.338987 1178.66342 3.9482 0.0023308 2.9258 0.0017272 6.874 0.004058 590.3410397007705 40.096 0.16108 40.737 40.664 40.826 0.64135 7 5 2 0 0 0 0.11288 1 18338 18338 2.0598 0.40713 1 456960 + 33211 17097 21093 21162 37375 37375 0.08123532147237711 TVLWHRWFRQR 11 Unmodified _TVLWHRWFRQR_ 0 0 0 REV__ENSG00000134020|ENST00000256404|PEBP4 REV__ENSG00000134020|ENST00000256404|PEBP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 792.9392700195312 2 792.936568 1583.85858 NaN NaN NaN NaN NaN NaN NaN 81.194 1 81.363 80.863 81.863 0.16862 0 0 0 1.0079 1 39876 39876 1.3295 0.9789 1 + 33212 11950 21094 21163 37376 37376 0.09000838996439597 TVMGRIATL 9 Unmodified _TVMGRIATL_ 0 0 0 ENST00000485672.2_1_19:42488766-42489464:-|nuORF;nc|ENSG00000163399|P05023-2|ATP1A1;ENST00000472488.5_1_1:160085570-160106822:+|nuORF;nc|ENSG00000163399|P05023-3|ATP1A1;ENSG00000105409|ENST00000648268|ATP1A3;ENSG00000018625|ENST00000361216|ATP1A2;nc|ENSG00000163399|P05023-4|ATP1A1;ENSG00000163399|ENST00000295598|ATP1A1;nc|ENSG00000105409|P13637-2|ATP1A3;nc|ENSG00000105409|P13637-3|ATP1A3 ENST00000485672.2_1_19:42488766-42489464:-|nuORF ENST00000485672.2_1_19:42488766-42489464:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.2799377441406 2 481.278595 960.542637 2.9801 0.0014342 -0.32217 -0.00015505 2.6579 0.0012792 481.27852046719846 50.524 0.24344 50.786 50.72 50.964 0.26146 18 11 2 0 0 0 0.097139 1 23105 23105 33.445 4.3633 1 449370 33213 446 21095 21164 37377 37377 0.060787044337757834 TVMGRIATL 9 Unmodified _TVMGRIATL_ 0 0 0 ENST00000485672.2_1_19:42488766-42489464:-|nuORF;nc|ENSG00000163399|P05023-2|ATP1A1;ENST00000472488.5_1_1:160085570-160106822:+|nuORF;nc|ENSG00000163399|P05023-3|ATP1A1;ENSG00000105409|ENST00000648268|ATP1A3;ENSG00000018625|ENST00000361216|ATP1A2;nc|ENSG00000163399|P05023-4|ATP1A1;ENSG00000163399|ENST00000295598|ATP1A1;nc|ENSG00000105409|P13637-2|ATP1A3;nc|ENSG00000105409|P13637-3|ATP1A3 ENST00000485672.2_1_19:42488766-42489464:-|nuORF ENST00000485672.2_1_19:42488766-42489464:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.2798767089844 2 481.278595 960.542637 3.1376 0.0015101 -0.25211 -0.00012133 2.8855 0.0013887 481.2784782711722 49.835 0.19947 50.493 50.419 50.618 0.65735 14 8 2 0 0 0 0.084899 1 22813 22813 36.506 0.37917 1 496340 33214 446 21095 21164 37378 37378 0.060787044337757834 TVNDVRFYRNV 11 Unmodified _TVNDVRFYRNV_ 0 0 0 ENST00000495790.1_1_10:32573515-32573971:-|nuORF ENST00000495790.1_1_10:32573515-32573971:-|nuORF ENST00000495790.1_1_10:32573515-32573971:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 691.8633422851562 2 691.8624 1381.71025 NaN NaN NaN NaN NaN NaN NaN 79.842 1 80.162 79.662 80.662 0.31998 0 0 0 1.0038 1 39011 39011 5.7319 0.43497 1 33215 8437 21096 21165 37379 37379 0.03466063232076522 TVNKPGRK 8 Unmodified _TVNKPGRK_ 0 0 0 REV__Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|21|1|sense REV__Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|21|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.2749328613281 2 450.274701 898.534849 3.265 0.0014701 -0.35654 -0.00016054 2.9085 0.0013096 450.27428915506164 90.943 0.37996 91.194 91.022 91.402 0.25163 32 21 2 0 0 0 0.74071 1 41829 41829 2.5775 0 1 486510 + 33216 17714 21097 21166 37380 37380 0.08152313228515595 TVNKPGRK 8 Unmodified _TVNKPGRK_ 0 0 0 REV__Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|21|1|sense REV__Harlequin-int_dup415|chr13:22885843-22889378:+|1.674768406020891|0.2933300422967718|2.51|521.0|21|1|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 450.274701 898.534849 3.265 0.0014701 -0.35654 -0.00016054 2.9085 0.0013096 450.27428915506164 90.943 0.37996 91.194 91.022 91.402 0.25163 -0.010185 2.3024E-05 NaN 2.5775 32 21 2 NaN NaN NaN NaN 0 NaN NaN 0 486510 + 33217 17714 21097 21166 0.08152313228515595 TVNLIEMVL 9 Unmodified _TVNLIEMVL_ 0 0 0 REV__ENST00000600463.1_1_19:18285864-18288180:+|nuORF REV__ENST00000600463.1_1_19:18285864-18288180:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.2955322265625 2 516.293911 1030.57327 3.401 0.0017559 -0.81903 -0.00042286 2.5819 0.001333 516.2939063048434 49.037 0.41156 49.864 49.675 50.087 0.82705 71 21 5 0 0 0 0.093314 1 22394 22394 34.402 7.5181 1 2119500 + 33218 14532 21098 21167 37381 37381 0.05920438028147146 TVPKISRSL 9 Unmodified _TVPKISRSL_ 0 0 0 REV__nc|ENSG00000136696|Q9NZH7-2|IL36B REV__nc|ENSG00000136696|Q9NZH7-2|IL36B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.2107238769531 3 334.209836 999.60768 2.2185 0.00074143 0.95591 0.00031947 3.1744 0.0010609 334.2101780202047 17.067 0.63186 17.371 16.981 17.613 0.30438 121 53 3 0 0 0 1.0894 1 7688 7688 2.4985 2.4985 1 222980 + 33219 12076 21099 21168 37382 37382 0.10786022231263814 TVPNRLISL 9 Unmodified _TVPNRLISL_ 0 0 0 REV__SNRPA1|p.H130Lfs*6|1|0.04|ENSG00000131876|chr15:101286978-101286978|T/-|frameshift_variant REV__SNRPA1|p.H130Lfs*6|1|0.04|ENSG00000131876|chr15:101286978-101286978|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.813232421875 2 506.811116 1011.60768 3.1254 0.001584 0.21377 0.00010834 3.3392 0.0016923 506.811168350646 39.209 0.37346 40.007 39.84 40.213 0.79762 33 17 3 0 0 0 0.099775 1 17720 17720 32.786 0 1 524760 + 33220 11869 21100 21169 37383 37383 0.10234022231293238 TVPRLRRLLS 10 Unmodified _TVPRLRRLLS_ 0 0 0 REV__ENSG00000130158|ENST00000294618|DOCK6 REV__ENSG00000130158|ENST00000294618|DOCK6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 404.2515563964844 3 404.262935 1209.76697 NaN NaN NaN NaN NaN NaN NaN 95.381 1 95.989 95.489 96.489 0.60769 0 0 0 1.0019 1 43864 43864 0.12286 0 1 + 33221 11801 21101 21170 37384 37384 0.1704815557927759 TVPTQLHVL 9 Unmodified _TVPTQLHVL_ 0 0 0 REV__nc|ENSG00000188086|Q7RTY3-2|PRSS45P REV__nc|ENSG00000188086|Q7RTY3-2|PRSS45P MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.30047607421875 2 504.297842 1006.58113 3.1064 0.0015666 -0.051399 -2.5921E-05 3.055 0.0015406 504.29787751363915 31.359 0.51825 32.148 31.91 32.428 0.78879 133 44 4 0 0 0 0.14729 1 14086 14086 26.884 4.1474 1 9436000 + 33222 18085 21102 21171 37385 37385 0.0781033333993264 TVQKKKKREKK 11 Unmodified _TVQKKKKREKK_ 0 0 0 REV__nc|ENSG00000271699|Q8IUI4|SNX29P2 REV__nc|ENSG00000271699|Q8IUI4|SNX29P2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 700.9545288085938 2 700.956635 1399.89872 NaN NaN NaN NaN NaN NaN NaN 69.571 1 70.274 69.774 70.774 0.70302 0 0 0 1.0072 1 33304 33304 1.3295 0 1 + 33223 17654 21103 21172 37386 37386 0.21476340876347422 TVQRLLTWWLP 11 Unmodified _TVQRLLTWWLP_ 0 0 0 DCST1|p.G29W|1|0.22|ENSG00000163357|chr1:155034458-155034458|G/T|missense_variant DCST1|p.G29W|1|0.22|ENSG00000163357|chr1:155034458-155034458|G/T|missense_variant DCST1|p.G29W|1|0.22|ENSG00000163357|chr1:155034458-155034458|G/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 706.9061279296875 2 706.906079 1411.79761 NaN NaN NaN NaN NaN NaN NaN 72.559 1 73.263 72.763 73.763 0.70386 0 0 0 1.0041 1 34938 34938 5.2969 2.5617 1 33224 257 21104 21173 37387 37387 0.10817889173631556 TVQYSVAQY 9 Unmodified _TVQYSVAQY_ 0 0 0 REV__ENST00000413474.5_1_3:195711124-195712546:-|nuORF REV__ENST00000413474.5_1_3:195711124-195712546:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.7630004882812 2 529.761289 1057.50803 3.1707 0.0016797 -0.20526 -0.00010874 2.9654 0.001571 529.761143654844 38.059 0.37855 38.059 37.886 38.265 0 27 13 3 0 0 0 0.057744 1 17265 17265 43.858 16.229 1 802510 + 33225 16114 21105 21174 37388 37388 -0.018428401733444844 TVQYSVAQY 9 Unmodified _TVQYSVAQY_ 0 0 0 REV__ENST00000413474.5_1_3:195711124-195712546:-|nuORF REV__ENST00000413474.5_1_3:195711124-195712546:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.7633666992188 2 529.761289 1057.50803 3.1178 0.0016517 -0.69174 -0.00036646 2.426 0.0012852 529.7607876447279 37.126 0.42185 37.919 37.781 38.203 0.79342 31 20 2 0 0 0 0.057744 1 16812 16812 43.858 16.229 1 805050 + 33226 16114 21105 21174 37389 37389 -0.018428401733444844 TVQYSVAQY 9 Unmodified _TVQYSVAQY_ 0 0 0 REV__ENST00000413474.5_1_3:195711124-195712546:-|nuORF REV__ENST00000413474.5_1_3:195711124-195712546:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.763427734375 2 529.761289 1057.50803 3.1388 0.0016628 -0.94765 -0.00050203 2.1911 0.0011608 529.760764160498 38.022 0.40622 38.283 38.093 38.5 0.26083 22 12 3 0 0 0 0.10169 1 17298 17298 32.305 7.6316 1 533640 + 33227 16114 21105 21174 37390 37390 -0.018428401733444844 TVREEFIIFNR 11 Unmodified _TVREEFIIFNR_ 0 0 0 nc|ENSG00000152953|Q9NY57-2|STK32B;ENSG00000152953|ENST00000282908|STK32B nc|ENSG00000152953|Q9NY57-2|STK32B nc|ENSG00000152953|Q9NY57-2|STK32B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 712.0394287109375 2 712.388251 1422.76195 NaN NaN NaN NaN NaN NaN NaN 109.99 1 110.29 109.79 110.79 0.3023 0 0 0 1.0061 1 50693 50693 2.7352 1.0826 1 33228 3766 21106 21175 37391 37391 0.06747806925977784 TVRETLAFI 9 Unmodified _TVRETLAFI_ 0 0 0 nc|ENSG00000143921|Q9H221-2|ABCG8;ENSG00000143921|ENST00000272286|ABCG8 nc|ENSG00000143921|Q9H221-2|ABCG8 nc|ENSG00000143921|Q9H221-2|ABCG8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.5389404296875 3 350.537842 1048.5917 2.6653 0.0009343 0.55258 0.0001937 3.2179 0.001128 350.5380839319679 12.922 0.16592 13.565 13.48 13.646 0.64272 7 4 2 0 0 0 0.92418 1 5825 5825 5.2969 2.3016 1 129000 33229 3400 21107 21176 37392 37392 0.06934315994362805 TVRFKNEL 8 Unmodified _TVRFKNEL_ 0 0 0 nc|ENSG00000180574|Q2VIR3-2|EIF2S3B;ENSG00000180574|ENST00000538173|EIF2S3B;ENSG00000130741|ENST00000253039|EIF2S3 nc|ENSG00000180574|Q2VIR3-2|EIF2S3B nc|ENSG00000180574|Q2VIR3-2|EIF2S3B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.1946716308594 3 336.194186 1005.56073 NaN NaN NaN NaN NaN NaN NaN 25.652 1 26.277 25.777 26.777 0.62505 0 0 0 0.99035 1 11759 11759 5.7319 0.83484 1 33230 2615 21108 21177 37393 37393 0.058171626801254206 TVRPIHFL 8 Unmodified _TVRPIHFL_ 0 0 0 REV__nc|ENSG00000155066|Q8N271-3|PROM2 REV__nc|ENSG00000155066|Q8N271-3|PROM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.7962341308594 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 51.466 1 52.284 51.784 52.784 0.81738 0 0 0 0.99035 1 23444 23444 4.756 2.1785 1 + 33231 12732 21109 21178 37394 37394 0.08446074267976655 TVRPIHFL 8 Unmodified _TVRPIHFL_ 0 0 0 REV__nc|ENSG00000155066|Q8N271-3|PROM2 REV__nc|ENSG00000155066|Q8N271-3|PROM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7972412109375 2 491.795269 981.575986 2.9434 0.0014475 1.0957 0.00053888 4.0391 0.0019864 491.7958519339908 71.099 0.43425 71.356 71.138 71.573 0.25786 60 40 2 0 0 0 0.71384 1 32611 32611 4.756 0.42677 1 816700 + 33232 12732 21109 21178 37395 37395 0.08446074267976655 TVRPIHFL 8 Unmodified _TVRPIHFL_ 0 0 0 REV__nc|ENSG00000155066|Q8N271-3|PROM2 REV__nc|ENSG00000155066|Q8N271-3|PROM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.79791259765625 2 491.795269 981.575986 3.2172 0.0015822 1.4403 0.00070832 4.6575 0.0022905 491.79603342402265 59.031 0.6944 59.698 59.245 59.939 0.66703 50 32 2 0 0 0 0.60592 1 26983 26983 13.508 7.3021 1 755990 + 33233 12732 21109 21178 37396 37396 0.08446074267976655 TVRPLHFV 8 Unmodified _TVRPLHFV_ 0 0 0 REV__ENST00000604566.1_1_1:3644156-3648116:+|nuORF REV__ENST00000604566.1_1_1:3644156-3648116:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.78985595703125 2 484.787444 967.560336 3.2549 0.0015779 -1.0534 -0.00051066 2.2015 0.0010673 484.78806166197353 40.814 0.19092 40.814 40.713 40.904 0 12 10 2 0 0 0 0.68261 1 18551 18551 7.2892 1.0834 1 619900 + 33234 17655 21110 21179 37397 37397 0.07525787750932977 TVRPLHFV 8 Unmodified _TVRPLHFV_ 0 0 0 REV__ENST00000604566.1_1_1:3644156-3648116:+|nuORF REV__ENST00000604566.1_1_1:3644156-3648116:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.7892761230469 2 484.787444 967.560336 3.2314 0.0015666 0.93284 0.00045223 4.1643 0.0020188 484.78804015418507 35.983 0.67582 36.774 36.66 37.336 0.79131 45 28 4 0 0 0 0.71911 1 16288 16288 4.3292 1.7518 1 1911900 + 33235 17655 21110 21179 37398 37398 0.07525787750932977 TVRPLHFV 8 Unmodified _TVRPLHFV_ 0 0 0 REV__ENST00000604566.1_1_1:3644156-3648116:+|nuORF REV__ENST00000604566.1_1_1:3644156-3648116:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 484.787444 967.560336 3.2549 0.0015779 -1.0534 -0.00051066 2.2015 0.0010673 484.78806166197353 40.814 0.19092 40.814 40.713 40.904 0 0.049586 -0.00035766 NaN 7.2892 12 10 2 NaN NaN NaN NaN 0 NaN NaN 0 619900 + 33236 17655 21110 21179 0.07525787750932977 TVRPLHFV 8 Unmodified _TVRPLHFV_ 0 0 0 REV__ENST00000604566.1_1_1:3644156-3648116:+|nuORF REV__ENST00000604566.1_1_1:3644156-3648116:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 484.787444 967.560336 3.4358 0.0016656 -0.51342 -0.0002489 2.9224 0.0014167 484.78820284507833 40.074 0.36133 40.715 40.411 40.772 0.64136 -0.049586 0.00016587 NaN 7.2892 18 14 2 NaN NaN NaN NaN 0 NaN NaN 0 509560 + 33237 17655 21110 21179 0.07525787750932977 TVRQKIASL 9 Unmodified _TVRQKIASL_ 0 0 0 ENSG00000101413|ENST00000373433|RPRD1B ENSG00000101413|ENST00000373433|RPRD1B ENSG00000101413|ENST00000373433|RPRD1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.21417236328125 3 339.213469 1014.61858 2.3771 0.00080636 -0.047381 -1.6072E-05 2.3298 0.00079029 339.2134646895645 28.519 0.32568 28.779 28.583 28.908 0.2602 31 20 2 0 0 0 0.023321 1 12960 12960 63.961 12.545 1 919170 33238 1293 21111 21180 37399 37399 0.11185424605560002 TVRRTWRRRRR 11 Unmodified _TVRRTWRRRRR_ 0 0 0 REV__ENST00000281708.8_1_4:153271275-153332654:-|nuORF REV__ENST00000281708.8_1_4:153271275-153332654:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 799.9857788085938 2 799.987989 1597.96143 NaN NaN NaN NaN NaN NaN NaN 95.235 1 95.235 94.735 95.735 0 0 0 0 1.0082 1 51237 51237 0 0 1 + 33239 15091 21112 21181 37400 37400 0.18636344507740432 TVRRTWRRRRR 11 Unmodified _TVRRTWRRRRR_ 0 0 0 REV__ENST00000281708.8_1_4:153271275-153332654:-|nuORF REV__ENST00000281708.8_1_4:153271275-153332654:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 800.363037109375 2 799.987989 1597.96143 NaN NaN NaN NaN NaN NaN NaN 83.965 1 84.628 84.128 85.128 0.66219 0 0 0 1.0082 1 38675 38675 0 0 1 + 33240 15091 21112 21181 37401 37401 0.18636344507740432 TVRRWGRRRR 10 Unmodified _TVRRWGRRRR_ 0 0 0 REV__ENSG00000109685|ENST00000508803|NSD2 REV__ENSG00000109685|ENST00000508803|NSD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 699.92431640625 2 699.924326 1397.8341 NaN NaN NaN NaN NaN NaN NaN 95.967 1 96.234 95.734 96.734 0.2675 0 0 0 1.0004 1 44095 44095 1.3295 0.13619 1 + 33241 11175 21113 21182 37402 37402 0.15109623633566116 TVRYIIQRQR 10 Unmodified _TVRYIIQRQR_ 0 0 0 REV__ENSG00000135749|ENST00000258229|PCNX2 REV__ENSG00000135749|ENST00000258229|PCNX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 666.8985595703125 2 666.896577 1331.7786 NaN NaN NaN NaN NaN NaN NaN 42.732 1 43.54 43.04 44.04 0.80855 0 0 0 1.0015 1 19423 19423 0.40072 0.050084 1 + 33242 12035 21114 21183 37403 37403 0.12598352602594787 TVSEESNVL 9 Unmodified _TVSEESNVL_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 977.484375 1 977.478582 976.471305 3.6098 0.0035285 1.0821 0.0010578 4.6919 0.0045862 977.4797017262537 38.705 0.24367 38.705 38.563 38.807 0 22 11 2 0 0 0 0.025323 1 17563 17563 61.357 6.5839 1 451190 33243 4569 21115 21184 37404 37404 -0.017871367898919743 TVSEESNVL 9 Unmodified _TVSEESNVL_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 977.482421875 1 977.478582 976.471305 3.5746 0.0034941 0.73133 0.00071486 4.3059 0.0042089 977.479453491467 37.759 0.21867 38.555 38.419 38.637 0.79552 14 9 2 0 0 0 0.025323 1 17082 17082 61.357 9.0891 1 423270 33244 4569 21115 21184 37405 37405 -0.017871367898919743 TVSEESNVL 9 Unmodified _TVSEESNVL_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 489.2445983886719 2 489.242929 976.471305 3.227 0.0015788 0.54735 0.00026779 3.7744 0.0018466 489.2430281707453 37.763 0.25706 38.559 38.406 38.663 0.79552 23 11 3 0 0 0 0.0063783 1 17105 17105 88.904 34.13 1 986850 33245 4569 21115 21184 37406 37406 -0.017871367898919743 TVSEESNVL 9 Unmodified _TVSEESNVL_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 977.4829711914062 1 977.478582 976.471305 3.5864 0.0035057 0.35065 0.00034275 3.9371 0.0038484 977.479011848533 38.007 0.33281 38.641 38.438 38.771 0.63388 18 11 2 0 0 0 0.10837 1 17352 17352 30.637 0 1 482470 33246 4569 21115 21184 37407 37407 -0.017871367898919743 TVSEESNVL 9 Unmodified _TVSEESNVL_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 489.242929 976.471305 3.1931 0.0015622 1.6286 0.00079676 4.8217 0.002359 489.2442877433974 38.682 0.38734 38.682 38.529 38.916 0 0.013555 0.00094554 NaN 88.904 32 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1047800 33247 4569 21115 21184 -0.017871367898919743 TVSEESNVL 9 Unmodified _TVSEESNVL_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 489.242929 976.471305 3.0418 0.0014882 0.53423 0.00026137 3.576 0.0017495 489.2433650856853 38.031 0.40375 38.665 38.438 38.841 0.63388 -0.0035296 -0.00012525 NaN 88.904 26 15 3 NaN NaN NaN NaN 0 NaN NaN 0 979720 33248 4569 21115 21184 -0.017871367898919743 TVTLLSIM 8 Unmodified _TVTLLSIM_ 0 0 0 REV__ENST00000337288.9_2_2:96850629-96850716:-|nuORF REV__ENST00000337288.9_2_2:96850629-96850716:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 439.008544921875 2 439.256797 876.499041 NaN NaN NaN NaN NaN NaN NaN 56.389 1 56.389 55.889 56.889 0 0 0 0 0.99035 1 25945 25945 2.3027 0 1 + 33249 15427 21116 21185 37408 37408 0.055850949366458735 TVTRMRKHALI 11 Unmodified _TVTRMRKHALI_ 0 0 0 REV__nc|ENSG00000115353|P25103-3|TACR1 REV__nc|ENSG00000115353|P25103-3|TACR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 442.6005554199219 3 442.599329 1324.77616 2.7187 0.0012033 0.66726 0.00029533 3.386 0.0014986 442.5994608099235 46.363 1.3255 46.363 45.711 47.037 0 165 62 3 0 0 0 0.89309 4 21083 21083;21131;21238;21349 1.1098 1.1098 1 2490300 + 33250 11358 21117 21186 37409;37410;37411;37412 37409 0.12676180873290832 TVTRMRKHALI 11 Unmodified _TVTRMRKHALI_ 0 0 0 REV__nc|ENSG00000115353|P25103-3|TACR1 REV__nc|ENSG00000115353|P25103-3|TACR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 332.20233154296875 4 332.201316 1324.77616 2.1126 0.00070181 0.83214 0.00027644 2.9447 0.00097825 332.20147249621493 46.391 1.551 46.391 45.659 47.21 0 246 74 4 0 0 0 0.89309 1 21323 21323 1.1098 1.1098 1 4924700 + 33251 11358 21117 21186 37413 37413 0.12676180873290832 TVTRMRKHALI 11 Unmodified _TVTRMRKHALI_ 0 0 0 REV__nc|ENSG00000115353|P25103-3|TACR1 REV__nc|ENSG00000115353|P25103-3|TACR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 332.2022705078125 4 332.201316 1324.77616 2.2587 0.00075036 0.62544 0.00020777 2.8842 0.00095813 332.2014026852753 45.405 1.0472 46.231 45.51 46.558 0.82621 179 56 4 0 0 0 0.89309 3 20670 20670;20755;20805 1.1098 1.1098 1 2565600 + 33252 11358 21117 21186 37414;37415;37416 37414 0.12676180873290832 TVTRMRKHALI 11 Unmodified _TVTRMRKHALI_ 0 0 0 REV__nc|ENSG00000115353|P25103-3|TACR1 REV__nc|ENSG00000115353|P25103-3|TACR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 442.6007995605469 3 442.599329 1324.77616 2.8233 0.0012496 0.66596 0.00029475 3.4892 0.0015443 442.5995918265809 45.572 1.2865 45.84 45.587 46.874 0.26768 118 50 3 0 0 0 0.89309 2 20882 20882;20944 1.1098 1.1098 1 3819200 + 33253 11358 21117 21186 37417;37418 37417 0.12676180873290832 TVTRMRKHALI 11 Unmodified _TVTRMRKHALI_ 0 0 0 REV__nc|ENSG00000115353|P25103-3|TACR1 REV__nc|ENSG00000115353|P25103-3|TACR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 332.2020568847656 4 332.201316 1324.77616 2.3721 0.00078802 0.8132 0.00027015 3.1853 0.0010582 332.201514358242 45.554 1.4753 45.821 45.507 46.982 0.26768 164 58 4 0 0 0 0.89309 2 21023 21023;21065 1.1098 1.1098 1 7435100 + 33254 11358 21117 21186 37419;37420 37419 0.12676180873290832 TVTRMRKHALI 11 Unmodified _TVTRMRKHALI_ 0 0 0 REV__nc|ENSG00000115353|P25103-3|TACR1 REV__nc|ENSG00000115353|P25103-3|TACR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.6009216308594 3 442.599329 1324.77616 3.305 0.0014628 0.50896 0.00022526 3.8139 0.001688 442.5994221264095 44.977 1.4106 45.627 45.291 46.702 0.64998 117 53 3 0 0 0 0.83518 1 20548 20548 2.4348 1.1051 1 2286400 + 33255 11358 21117 21186 37421 37421 0.12676180873290832 TVTVDYELK 9 Unmodified _TVTVDYELK_ 0 0 0 REV__nc|ENSG00000052126|Q9HAU0-5|PLEKHA5 REV__nc|ENSG00000052126|Q9HAU0-5|PLEKHA5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 534.285888671875 2 534.284597 1066.55464 NaN NaN NaN NaN NaN NaN NaN 31.411 1 31.667 31.167 32.167 0.25614 0 0 0 0.89683 1 14300 14300 4.3292 0 1 + 33256 10354 21118 21187 37422 37422 0.02402599657943938 TVVAALAAAA 10 Unmodified _TVVAALAAAA_ 0 0 0 REV__ENSG00000133124|ENST00000372129|IRS4 REV__ENSG00000133124|ENST00000372129|IRS4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 857.51171875 1 857.509094 856.501818 4.7355 0.0040608 -1.5448 -0.0013247 3.1907 0.0027361 857.5075044101858 103.3 0.08577 103.62 103.58 103.66 0.31863 8 5 2 0 0 0 0.94443 1 47760 47760 0 0 1 139550 + 33257 11924 21119 21188 37423 37423 0.06782686385770376 TVVPDVVVRN 10 Unmodified _TVVPDVVVRN_ 0 0 0 REV__ENST00000479165.1_1_6:79650412-79665440:-|nuORF REV__ENST00000479165.1_1_6:79650412-79665440:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.320556640625 2 549.319306 1096.62406 3.7415 0.0020553 -1.7854 -0.00098074 1.9561 0.0010745 549.3180335689182 96.993 0.26948 97.595 97.424 97.694 0.6019 31 12 3 0 0 0 0.90859 1 44611 44611 3.2813 0 1 1875000 + 33258 12467 21120 21189 37424 37424 0.0796110339738334 TVVQPIRSL 9 Unmodified _TVVQPIRSL_ 0 0 0 REV__ENSG00000197147|ENST00000330947|LRRC8B REV__ENSG00000197147|ENST00000330947|LRRC8B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.8125 2 506.811116 1011.60768 3.1267 0.0015846 0.47813 0.00024232 3.6048 0.001827 506.81138758114207 40.318 0.29407 40.318 40.14 40.434 0 23 9 3 0 0 0 0.071132 1 18338 18338 39.95 1.9757 1 1071100 + 33259 14261 21121 21190 37425 37425 0.10234022231270501 TVVVSPNDTL 10 Unmodified _TVVVSPNDTL_ 0 0 0 REV__nc|ENSG00000150893|Q5SZK8-2|FREM2 REV__nc|ENSG00000150893|Q5SZK8-2|FREM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.85809326171875 3 348.85724 1043.54989 2.319 0.000809 1.271 0.00044341 3.59 0.0012524 348.85773337481766 27.139 0.27188 27.76 27.655 27.927 0.62179 19 15 2 0 0 0 0.68517 1 12436 12436 8.4443 1.4072 1 231150 + 33260 12597 21122 21191 37426 37426 0.029857155152058112 TVWRFLKKLKI 11 Unmodified _TVWRFLKKLKI_ 0 0 0 L1MA4_dup3583|chr6:111280046-111281058:-|1.4875210951429825|0.0665886712262598|4.48|528.0|17|2|sense L1MA4_dup3583|chr6:111280046-111281058:-|1.4875210951429825|0.0665886712262598|4.48|528.0|17|2|sense L1MA4_dup3583|chr6:111280046-111281058:-|1.4875210951429825|0.0665886712262598|4.48|528.0|17|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 716.4654541015625 2 716.463564 1430.91258 NaN NaN NaN NaN NaN NaN NaN 80.746 1 80.914 80.414 81.414 0.16862 0 0 0 1.0057 1 39589 39589 3.2813 2.9307 1 33261 9432 21123 21192 37427 37427 0.2143561837544894 TVWRIRQLLRR 11 Unmodified _TVWRIRQLLRR_ 0 0 0 nc|ENSG00000167612|Q7Z3H0-1|ANKRD33;ENSG00000167612|ENST00000301190|ANKRD33 nc|ENSG00000167612|Q7Z3H0-1|ANKRD33 nc|ENSG00000167612|Q7Z3H0-1|ANKRD33 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 748.9674682617188 2 748.967868 1495.92118 NaN NaN NaN NaN NaN NaN NaN 71.11 1 71.772 71.272 72.272 0.66209 0 0 0 1.0082 1 32589 32589 0 0 1 33262 9738 21124 21193 37428 37428 0.19305985064602282 TVWRWTPKQLR 11 Unmodified _TVWRWTPKQLR_ 0 0 0 REV__ENST00000453426.1_1_6:32811873-32813517:+|nuORF REV__ENST00000453426.1_1_6:32811873-32813517:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.1964111328125 3 490.949127 1469.82555 NaN NaN NaN NaN NaN NaN NaN 73.082 1 73.34 72.84 73.84 0.25876 0 0 0 1.0079 1 33560 33560 0.50596 0 1 + 33263 16427 21125 21194 37429 37429 0.10943212153733839 TVYDRTTVL 9 Unmodified _TVYDRTTVL_ 0 0 0 ENSG00000188786|ENST00000373036|MTF1 ENSG00000188786|ENST00000373036|MTF1 ENSG00000188786|ENST00000373036|MTF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.2910766601562 2 534.290214 1066.56587 3.1205 0.0016672 0.71851 0.00038389 3.839 0.0020511 534.2907146740874 48.543 0.37356 48.543 48.411 48.785 0 34 22 2 0 0 0 0.093314 1 22230 22230 34.402 8.1336 1 948080 33264 5683 21126 21195 37430 37430 0.03525421752101465 TVYDRTTVL 9 Unmodified _TVYDRTTVL_ 0 0 0 ENSG00000188786|ENST00000373036|MTF1 ENSG00000188786|ENST00000373036|MTF1 ENSG00000188786|ENST00000373036|MTF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 534.292236328125 2 534.290214 1066.56587 3.004 0.001605 1.0064 0.00053773 4.0104 0.0021427 534.2906242070017 47.538 0.313 48.367 48.231 48.544 0.82915 42 19 3 0 0 0 0.063575 1 21633 21633 41.84 9.0539 1 1041100 33265 5683 21126 21195 37431 37431 0.03525421752101465 TWDETDHERI 10 Unmodified _TWDETDHERI_ 0 0 0 ENSG00000089048|ENST00000617257|ESF1 ENSG00000089048|ENST00000617257|ESF1 ENSG00000089048|ENST00000617257|ESF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.5311279296875 3 434.530074 1300.56839 2.5051 0.0010885 -0.17565 -7.6326E-05 2.3295 0.0010122 434.8643053573382 33.962 0.25981 34.752 34.62 34.88 0.78921 29 16 2 0 0 0 0.87145 2 15358 15358;15408 5.0475 1.101 1 661410 33266 1027 21127 21196 37432;37433 37432 -0.06986774580900601 TWDETDHERI 10 Unmodified _TWDETDHERI_ 0 0 0 ENSG00000089048|ENST00000617257|ESF1 ENSG00000089048|ENST00000617257|ESF1 ENSG00000089048|ENST00000617257|ESF1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7810363769531 3 434.530074 1300.56839 3.0203 0.0013124 -0.35996 -0.00015642 2.6604 0.001156 434.86422981316014 34.502 0.309 35.125 34.962 35.271 0.62294 20 10 3 0 0 0 0.12676 1 15803 15803 1.5923 0 1 442730 33267 1027 21127 21196 37434 37434 -0.06986774580900601 TWDMRWWQFCR 11 Unmodified _TWDMRWWQFCR_ 0 0 0 REV__ENST00000430334.7_1_17:43555485-43568071:-|nuORF REV__ENST00000430334.7_1_17:43555485-43568071:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.571533203125 2 807.85828 1613.70201 NaN NaN NaN NaN NaN NaN NaN 89.352 1 89.352 88.852 89.852 0 0 0 0 1.0082 1 46637 46637 0 0 1 + 33268 16253 21128 21197 37435 37435 -0.08029530280555264 TWFNQPARKI 10 Unmodified _TWFNQPARKI_ 0 0 0 ENST00000484610.5_1_16:89627367-89627911:+|nuORF;ENST00000565571.5_1_16:89627367-89628201:+|nuORF;nc|ENSG00000167526|P26373-2|RPL13;ENSG00000167526|ENST00000311528|RPL13;ENST00000491523.5_1_16:89627367-89627472:+|nuORF ENST00000484610.5_1_16:89627367-89627911:+|nuORF ENST00000484610.5_1_16:89627367-89627911:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 420.90081787109375 3 420.899773 1259.67749 2.8401 0.0011954 0.2886 0.00012147 3.1287 0.0013169 420.89986098010917 39.863 0.35642 39.863 39.709 40.066 0 36 15 3 0 0 0 0.11978 2 18116 18066;18116 42.312 37.415 1 997830 33269 4559 21129 21198 37436;37437 37437 0.0580390089987759 TWFNQPARKI 10 Unmodified _TWFNQPARKI_ 0 0 0 ENST00000484610.5_1_16:89627367-89627911:+|nuORF;ENST00000565571.5_1_16:89627367-89628201:+|nuORF;nc|ENSG00000167526|P26373-2|RPL13;ENSG00000167526|ENST00000311528|RPL13;ENST00000491523.5_1_16:89627367-89627472:+|nuORF ENST00000484610.5_1_16:89627367-89627911:+|nuORF ENST00000484610.5_1_16:89627367-89627911:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 420.90081787109375 3 420.899773 1259.67749 2.736 0.0011516 -0.20919 -8.8048E-05 2.5269 0.0010636 420.8997372653744 38.603 0.40903 39.401 39.244 39.653 0.79762 46 19 3 0 0 0 0.13545 3 17513 17455;17513;17566 40.725 33.248 1 723670 33270 4559 21129 21198 37438;37439;37440 37439 0.0580390089987759 TWFTFRWLQRE 11 Unmodified _TWFTFRWLQRE_ 0 0 0 nc|ENSG00000197122|P12931-3|SRC nc|ENSG00000197122|P12931-3|SRC nc|ENSG00000197122|P12931-3|SRC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 785.4012451171875 2 785.401692 1568.78883 NaN NaN NaN NaN NaN NaN NaN 57.189 1 57.958 57.458 58.458 0.76861 0 0 0 1.0072 1 26171 26171 1.3295 0.13619 1 33271 9801 21130 21199 37441 37441 0.027189155371615925 TWKLPILPR 9 Unmodified _TWKLPILPR_ 0 0 0 nc|ENSG00000133106|Q96J88-3|EPSTI1;nc|ENSG00000133106|Q96J88|EPSTI1 nc|ENSG00000133106|Q96J88-3|EPSTI1 nc|ENSG00000133106|Q96J88-3|EPSTI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.35498046875 2 562.352951 1122.69135 NaN NaN NaN NaN NaN NaN NaN 57.088 1 57.088 56.588 57.588 0 0 0 0 0.90519 1 26301 26301 3.9444 2.1002 1 33272 9645 21131 21200 37442 37442 0.13491178398976444 TWKLQQEQR 9 Unmodified _TWKLQQEQR_ 0 0 0 nc|ENSG00000141052|Q8IZQ8-2|MYOCD;nc|ENSG00000141052|Q8IZQ8|MYOCD;ENSG00000141052|ENST00000425538|MYOCD nc|ENSG00000141052|Q8IZQ8-2|MYOCD nc|ENSG00000141052|Q8IZQ8-2|MYOCD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.22064208984375 3 406.219283 1215.63602 NaN NaN NaN NaN NaN NaN NaN 72.97 1 73.229 72.729 73.729 0.25876 0 0 0 0.89986 1 33505 33505 3.5871 0.26742 1 33273 3234 21132 21201 37443 37443 0.036827201405458254 TWKLRALK 8 Unmodified _TWKLRALK_ 0 0 0 ENSG00000160712|ENST00000368485|IL6R ENSG00000160712|ENST00000368485|IL6R ENSG00000160712|ENST00000368485|IL6R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 339.208251953125 3 339.218555 1014.63383 NaN NaN NaN NaN NaN NaN NaN 49.233 1 50.06 49.56 50.56 0.82705 0 0 0 0.99035 1 22429 22429 2.4985 1.0166 1 33274 4073 21133 21202 37444 37444 0.1271033619341324 TWLVNSAAHLF 11 Unmodified _TWLVNSAAHLF_ 0 0 0 ENSG00000099194|ENST00000370355|SCD ENSG00000099194|ENST00000370355|SCD ENSG00000099194|ENST00000370355|SCD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 629.7228393554688 2 629.83258 1257.65061 NaN NaN NaN NaN NaN NaN NaN 78.781 1 79.032 78.532 79.532 0.25127 0 0 0 0.92731 1 36278 36278 13.615 2.8154 1 33275 1135 21134 21203 37445 37445 0.03208792288683071 TWNRLWRWRHQ 11 Unmodified _TWNRLWRWRHQ_ 0 0 0 nc|ENSG00000198089|A8K8P3-2|SFI1;ENSG00000198089|ENST00000400288|SFI1;nc|ENSG00000198089|A8K8P3-4|SFI1;nc|ENSG00000198089|A8K8P3-10|SFI1;nc|ENSG00000198089|A8K8P3-3|SFI1;nc|ENSG00000198089|A8K8P3-9|SFI1;ENST00000382162.7_1_22:31904270-32000328:+|nuORF;nc|ENSG00000198089|A8K8P3-5|SFI1 nc|ENSG00000198089|A8K8P3-2|SFI1 nc|ENSG00000198089|A8K8P3-2|SFI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 820.27587890625 2 819.929274 1637.844 NaN NaN NaN NaN NaN NaN NaN 26.686 1 27.465 26.965 27.965 0.7787 0 0 0 1.0082 1 11989 11989 0 0 1 33276 5867 21135 21204 37446 37446 0.050587668482876325 TWNRLWRWRHQ 11 Unmodified _TWNRLWRWRHQ_ 0 0 0 nc|ENSG00000198089|A8K8P3-2|SFI1;ENSG00000198089|ENST00000400288|SFI1;nc|ENSG00000198089|A8K8P3-4|SFI1;nc|ENSG00000198089|A8K8P3-10|SFI1;nc|ENSG00000198089|A8K8P3-3|SFI1;nc|ENSG00000198089|A8K8P3-9|SFI1;ENST00000382162.7_1_22:31904270-32000328:+|nuORF;nc|ENSG00000198089|A8K8P3-5|SFI1 nc|ENSG00000198089|A8K8P3-2|SFI1 nc|ENSG00000198089|A8K8P3-2|SFI1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.953125 3 546.955275 1637.844 4.394 0.0024033 -2.2086 -0.001208 2.1853 0.0011953 546.9535818020761 109.77 0.48666 110.08 109.82 110.3 0.31015 32 18 2 0 0 0 0.91489 1 50616 50616 0 0 1 186290 33277 5867 21135 21204 37447 37447 0.050587668482876325 TYADLDMVHL 10 Unmodified _TYADLDMVHL_ 0 0 0 ENST00000448467.1_1_22:30939341-30940067:+|nuORF;nc|ENSG00000198053|P78324-4|SIRPA;ENSG00000198053|ENST00000358771|SIRPA;nc|ENSG00000198053|P78324-2|SIRPA ENST00000448467.1_1_22:30939341-30940067:+|nuORF ENST00000448467.1_1_22:30939341-30940067:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.2835083007812 2 589.281531 1176.54851 3.7828 0.0022291 0.078003 4.5966E-05 3.8608 0.0022751 589.2818024965202 69.144 0.24036 69.399 69.284 69.525 0.25443 25 13 3 0 0 0 0.075518 1 31666 31666 56.177 32.156 1 764250 33278 5862 21136 21205 37448 37448 -0.032702418452117854 TYADLDMVHL 10 Unmodified _TYADLDMVHL_ 0 0 0 ENST00000448467.1_1_22:30939341-30940067:+|nuORF;nc|ENSG00000198053|P78324-4|SIRPA;ENSG00000198053|ENST00000358771|SIRPA;nc|ENSG00000198053|P78324-2|SIRPA ENST00000448467.1_1_22:30939341-30940067:+|nuORF ENST00000448467.1_1_22:30939341-30940067:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.2832641601562 2 589.281531 1176.54851 3.4699 0.0020447 0.070991 4.1834E-05 3.5409 0.0020866 589.281369859195 68.622 0.22905 69.281 69.179 69.408 0.65925 38 17 3 0 0 0 0.037885 2 31433 31433;31480 65.235 45.978 1 653340 33279 5862 21136 21205 37449;37450 37449 -0.032702418452117854 TYADLDMVHL 10 Unmodified _TYADLDMVHL_ 0 0 0 ENST00000448467.1_1_22:30939341-30940067:+|nuORF;nc|ENSG00000198053|P78324-4|SIRPA;ENSG00000198053|ENST00000358771|SIRPA;nc|ENSG00000198053|P78324-2|SIRPA ENST00000448467.1_1_22:30939341-30940067:+|nuORF ENST00000448467.1_1_22:30939341-30940067:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 589.281531 1176.54851 2.7812 0.0016389 0.555 0.00032705 3.3362 0.001966 589.2813686812121 68.403 0.1468 69.105 69.031 69.178 0.70218 -0.15677 0.00045183 NaN 65.235 15 13 2 NaN NaN NaN NaN 0 NaN NaN 0 919160 33280 5862 21136 21205 -0.032702418452117854 TYADTLNHL 9 Unmodified _TYADTLNHL_ 0 0 0 ENSG00000151779|ENST00000281513|NBAS;nc|ENSG00000151779|A2RRP1-2|NBAS ENSG00000151779|ENST00000281513|NBAS ENSG00000151779|ENST00000281513|NBAS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.2609252929688 2 524.258914 1046.50327 3.4266 0.0017964 -1.6476 -0.00086379 1.779 0.00093265 524.7588885478698 46.224 0.50273 46.49 46.307 46.809 0.26561 31 21 3 0 0 0 0.063575 1 21116 21116 41.84 5.7126 1 381870 33281 3728 21137 21206 37451 37451 -0.018117243160986618 TYADTLNHL 9 Unmodified _TYADTLNHL_ 0 0 0 ENSG00000151779|ENST00000281513|NBAS;nc|ENSG00000151779|A2RRP1-2|NBAS ENSG00000151779|ENST00000281513|NBAS ENSG00000151779|ENST00000281513|NBAS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.7612915039062 2 524.258914 1046.50327 3.5931 0.0018837 -1.4708 -0.00077106 2.1223 0.0011127 524.2586302219332 45.682 0.57359 46.333 46.061 46.634 0.65104 34 21 3 0 0 0 0.26277 1 20893 20893 19.257 8.1425 1 508830 33282 3728 21137 21206 37452 37452 -0.018117243160986618 TYADTLNHL 9 Unmodified _TYADTLNHL_ 0 0 0 ENSG00000151779|ENST00000281513|NBAS;nc|ENSG00000151779|A2RRP1-2|NBAS ENSG00000151779|ENST00000281513|NBAS ENSG00000151779|ENST00000281513|NBAS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 524.258914 1046.50327 3.2511 0.0017044 -0.98979 -0.0005189 2.2613 0.0011855 524.7599224369347 45.229 0.26949 46.055 45.926 46.195 0.82621 -0.24099 0.00055255 NaN 41.84 37 16 3 NaN NaN NaN NaN 0 NaN NaN 0 655740 33283 3728 21137 21206 -0.018117243160986618 TYAEKLHRL 9 Unmodified _TYAEKLHRL_ 0 0 0 nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-14|DST;DST|p.I5232Sfs*5|1|0.18|ENSG00000151914|chr6:56470139-56470139|T/-|frameshift_variant;ENSG00000151914|ENST00000680361|DST;DST|p.L2377Sfs*24|1|0.05|ENSG00000151914|chr6:56568573-56568574|-/TATCTCAAGAAATTACAAG|frameshift_variant;nc|ENSG00000151914|Q03001-8|DST;DST|p.V3868Mfs*36|1|0.21|ENSG00000151914|chr6:56515641-56515653|AGTTCTTCAGTAC/-|frameshift_variant;nc|ENSG00000151914|Q03001-9|DST;ENST00000523967.5_1_6:56504020-56716372:-|nuORF;DST|p.L898Pfs*11|1|0.03|ENSG00000151914|chr6:56634936-56634937|-/CAAATTGAGGT|frameshift_variant;DST|p.L1332Qfs*9|1|0.18|ENSG00000151914|chr6:56628119-56628129|GTAGTACTTCA/-|frameshift_variant;nc|ENSG00000151914|Q03001-3|DST;nc|ENSG00000151914|Q03001-13|DST;ENST00000521104.1_1_6:56504020-56557947:-|nuORF nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-13|DST nc|ENSG00000151914|Q03001|DST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 377.5496520996094 3 377.548741 1129.62439 2.8714 0.0010841 -0.30111 -0.00011368 2.5703 0.0009704 377.54858481598814 19.818 0.26744 19.818 19.703 19.97 0 60 18 4 0 0 0 0.044531 2 8865 8819;8865 49.527 28.946 1 3555100 33284 9690;8639 21138 21207 37453;37454 37454 0.06476523117225952 TYAEKLHRL 9 Unmodified _TYAEKLHRL_ 0 0 0 nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-14|DST;DST|p.I5232Sfs*5|1|0.18|ENSG00000151914|chr6:56470139-56470139|T/-|frameshift_variant;ENSG00000151914|ENST00000680361|DST;DST|p.L2377Sfs*24|1|0.05|ENSG00000151914|chr6:56568573-56568574|-/TATCTCAAGAAATTACAAG|frameshift_variant;nc|ENSG00000151914|Q03001-8|DST;DST|p.V3868Mfs*36|1|0.21|ENSG00000151914|chr6:56515641-56515653|AGTTCTTCAGTAC/-|frameshift_variant;nc|ENSG00000151914|Q03001-9|DST;ENST00000523967.5_1_6:56504020-56716372:-|nuORF;DST|p.L898Pfs*11|1|0.03|ENSG00000151914|chr6:56634936-56634937|-/CAAATTGAGGT|frameshift_variant;DST|p.L1332Qfs*9|1|0.18|ENSG00000151914|chr6:56628119-56628129|GTAGTACTTCA/-|frameshift_variant;nc|ENSG00000151914|Q03001-3|DST;nc|ENSG00000151914|Q03001-13|DST;ENST00000521104.1_1_6:56504020-56557947:-|nuORF nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-13|DST nc|ENSG00000151914|Q03001|DST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 377.5498962402344 3 377.548741 1129.62439 2.2048 0.00083244 0.30208 0.00011405 2.5069 0.00094649 377.54903338299175 18.719 0.079771 18.933 18.878 18.957 0.21445 20 9 3 0 0 0 0.028483 1 8329 8329 57.249 25.212 1 6819900 33285 9690;8639 21138 21207 37455 37455 0.06476523117225952 TYAEKLHRL 9 Unmodified _TYAEKLHRL_ 0 0 0 nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-14|DST;DST|p.I5232Sfs*5|1|0.18|ENSG00000151914|chr6:56470139-56470139|T/-|frameshift_variant;ENSG00000151914|ENST00000680361|DST;DST|p.L2377Sfs*24|1|0.05|ENSG00000151914|chr6:56568573-56568574|-/TATCTCAAGAAATTACAAG|frameshift_variant;nc|ENSG00000151914|Q03001-8|DST;DST|p.V3868Mfs*36|1|0.21|ENSG00000151914|chr6:56515641-56515653|AGTTCTTCAGTAC/-|frameshift_variant;nc|ENSG00000151914|Q03001-9|DST;ENST00000523967.5_1_6:56504020-56716372:-|nuORF;DST|p.L898Pfs*11|1|0.03|ENSG00000151914|chr6:56634936-56634937|-/CAAATTGAGGT|frameshift_variant;DST|p.L1332Qfs*9|1|0.18|ENSG00000151914|chr6:56628119-56628129|GTAGTACTTCA/-|frameshift_variant;nc|ENSG00000151914|Q03001-3|DST;nc|ENSG00000151914|Q03001-13|DST;ENST00000521104.1_1_6:56504020-56557947:-|nuORF nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-13|DST nc|ENSG00000151914|Q03001|DST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 377.5499572753906 3 377.548741 1129.62439 2.6008 0.00098191 -0.010331 -3.9006E-06 2.5904 0.00097801 377.5488065440639 19.433 0.36211 19.731 19.475 19.838 0.29753 74 36 4 0 0 0 0.057456 4 8831 8729;8778;8831;8842 43.982 31.807 1 867830 33286 9690;8639 21138 21207 37456;37457;37458;37459 37458 0.06476523117225952 TYAEKLHRL 9 Unmodified _TYAEKLHRL_ 0 0 0 nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-14|DST;DST|p.I5232Sfs*5|1|0.18|ENSG00000151914|chr6:56470139-56470139|T/-|frameshift_variant;ENSG00000151914|ENST00000680361|DST;DST|p.L2377Sfs*24|1|0.05|ENSG00000151914|chr6:56568573-56568574|-/TATCTCAAGAAATTACAAG|frameshift_variant;nc|ENSG00000151914|Q03001-8|DST;DST|p.V3868Mfs*36|1|0.21|ENSG00000151914|chr6:56515641-56515653|AGTTCTTCAGTAC/-|frameshift_variant;nc|ENSG00000151914|Q03001-9|DST;ENST00000523967.5_1_6:56504020-56716372:-|nuORF;DST|p.L898Pfs*11|1|0.03|ENSG00000151914|chr6:56634936-56634937|-/CAAATTGAGGT|frameshift_variant;DST|p.L1332Qfs*9|1|0.18|ENSG00000151914|chr6:56628119-56628129|GTAGTACTTCA/-|frameshift_variant;nc|ENSG00000151914|Q03001-3|DST;nc|ENSG00000151914|Q03001-13|DST;ENST00000521104.1_1_6:56504020-56557947:-|nuORF nc|ENSG00000151914|Q03001|DST;nc|ENSG00000151914|Q03001-13|DST nc|ENSG00000151914|Q03001|DST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.5497741699219 3 377.548741 1129.62439 2.7838 0.001051 -0.40906 -0.00015444 2.3747 0.00089658 377.5486618136124 18.562 0.21064 19.223 19.13 19.341 0.66072 30 26 2 0 0 0 0.028483 2 8375 8375;8421 57.249 36.668 1 1900500 33287 9690;8639 21138 21207 37460;37461 37460 0.06476523117225952 TYAMSFEHLF 10 Unmodified _TYAMSFEHLF_ 0 0 0 REV__nc|ENSG00000166783|Q9Y4F3-3|MARF1 REV__nc|ENSG00000166783|Q9Y4F3-3|MARF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 623.28564453125 2 623.284074 1244.5536 NaN NaN NaN NaN NaN NaN NaN 52.249 1 52.249 51.749 52.749 0 0 0 0 0.98866 1 23924 23924 7.2892 1.0834 1 + 33288 13258 21139 21208 37462 37462 -0.05889937982601623 TYAPAIHQI 9 Unmodified _TYAPAIHQI_ 0 0 0 ARID2|p.G1274Efs*21|1|0.55|ENSG00000189079|chr12:45851943-45851943|G/-|frameshift_variant;ARID2|p.Q1044Pfs*6|1|0.19|ENSG00000189079|chr12:45851254-45851273|AGTCGAATGCAGGAGTTGGT/-|frameshift_variant;ARID2|p.S1466Rfs*2|1|0.05|ENSG00000189079|chr12:45852521-45852521|T/-|frameshift_variant;nc|ENSG00000189079|Q68CP9-3|ARID2;ENSG00000189079|ENST00000334344|ARID2 ARID2|p.G1274Efs*21|1|0.55|ENSG00000189079|chr12:45851943-45851943|G/-|frameshift_variant ARID2|p.G1274Efs*21|1|0.55|ENSG00000189079|chr12:45851943-45851943|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.2754211425781 2 507.274367 1012.53418 3.0987 0.0015719 0.043083 2.1855E-05 3.1417 0.0015937 507.2743228093086 40.898 0.15195 40.898 40.826 40.978 0 14 10 2 0 0 0 0.025323 1 18575 18575 61.357 32.871 1 1012900 33289 67 21140 21209 37463 37463 0.028414737887942465 TYDETYQRYRP 11 Unmodified _TYDETYQRYRP_ 0 0 0 nc|ENSG00000058272|O14974-4|PPP1R12A;nc|ENSG00000058272|O14974-3|PPP1R12A;nc|ENSG00000058272|O14974-2|PPP1R12A;ENSG00000058272|ENST00000450142|PPP1R12A;nc|ENSG00000058272|O14974-5|PPP1R12A nc|ENSG00000058272|O14974-4|PPP1R12A nc|ENSG00000058272|O14974-4|PPP1R12A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 746.34912109375 2 746.34678 1490.67901 3.6991 0.0027608 -0.95773 -0.0007148 2.7414 0.002046 746.3462611242388 43.768 0.30731 44.037 43.787 44.094 0.2694 26 16 3 0 0 0 0.61022 1 19948 19948 15.248 3.0078 1 3423000 33290 631 21141 21210 37464 37464 -0.04670554592667031 TYDKGYQF 8 Unmodified _TYDKGYQF_ 0 0 0 nc|ENSG00000139197|P50542-2|PEX5;nc|ENSG00000139197|P50542-3|PEX5;ENSG00000139197|ENST00000675855|PEX5;nc|ENSG00000139197|P50542-4|PEX5 nc|ENSG00000139197|P50542-2|PEX5 nc|ENSG00000139197|P50542-2|PEX5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 511.2355041503906 2 511.234907 1020.45526 2.7942 0.0014285 0.99885 0.00051065 3.7931 0.0019392 511.73686633225486 33.515 0.23607 34.303 34.139 34.375 0.78795 26 14 2 0 0 0 0.08596 2 15144 15144;15190 63.961 45.814 1 921180 33291 3137 21142 21211 37465;37466 37465 -0.05414798236131446 TYDKGYQF 8 Unmodified _TYDKGYQF_ 0 0 0 nc|ENSG00000139197|P50542-2|PEX5;nc|ENSG00000139197|P50542-3|PEX5;ENSG00000139197|ENST00000675855|PEX5;nc|ENSG00000139197|P50542-4|PEX5 nc|ENSG00000139197|P50542-2|PEX5 nc|ENSG00000139197|P50542-2|PEX5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 511.23651123046875 2 511.234907 1020.45526 3.3385 0.0017068 -0.078811 -4.0291E-05 3.2597 0.0016665 511.23468924791393 34.542 0.3173 34.796 34.646 34.963 0.25389 20 12 2 0 0 0 0.068809 1 15752 15752 69.105 47.358 1 803370 33292 3137 21142 21211 37467 37467 -0.05414798236131446 TYDKGYQF 8 Unmodified _TYDKGYQF_ 0 0 0 nc|ENSG00000139197|P50542-2|PEX5;nc|ENSG00000139197|P50542-3|PEX5;ENSG00000139197|ENST00000675855|PEX5;nc|ENSG00000139197|P50542-4|PEX5 nc|ENSG00000139197|P50542-2|PEX5 nc|ENSG00000139197|P50542-2|PEX5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 511.2375793457031 2 511.234907 1020.45526 3.2773 0.0016755 -0.18517 -9.4666E-05 3.0921 0.0015808 511.2349588139953 34.155 0.27929 34.776 34.612 34.892 0.62031 19 13 2 0 0 0 0.068809 1 15631 15631 69.105 47.358 1 966580 33293 3137 21142 21211 37468 37468 -0.05414798236131446 TYDKGYQF 8 Unmodified _TYDKGYQF_ 0 0 0 nc|ENSG00000139197|P50542-2|PEX5;nc|ENSG00000139197|P50542-3|PEX5;ENSG00000139197|ENST00000675855|PEX5;nc|ENSG00000139197|P50542-4|PEX5 nc|ENSG00000139197|P50542-2|PEX5 nc|ENSG00000139197|P50542-2|PEX5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 511.234907 1020.45526 2.8639 0.0014641 0.42414 0.00021683 3.2881 0.001681 511.2349164249952 34.482 0.2818 34.482 34.331 34.613 0 0.08919 -0.00032049 NaN 63.961 28 15 3 NaN NaN NaN NaN 0 NaN NaN 0 1285100 33294 3137 21142 21211 -0.05414798236131446 TYDLMSSAY 9 Unmodified _TYDLMSSAY_ 0 0 0 ENSG00000147872|ENST00000276914|PLIN2;ENST00000475923.1_1_9:19126103-19126313:-|nuORF;ENST00000472715.1_1_9:19126103-19127487:-|nuORF ENSG00000147872|ENST00000276914|PLIN2 ENSG00000147872|ENST00000276914|PLIN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.7702026367188 2 525.726058 1049.43756 NaN NaN NaN NaN NaN NaN NaN 59.818 1 60.483 59.983 60.983 0.66503 0 0 0 0.69911 1 27381 27381 12.532 4.6214 1 33295 3585 21143 21212 37469 37469 -0.08517881553302686 TYDPWIGKL 9 Unmodified _TYDPWIGKL_ 0 0 0 ENSG00000130066|ENST00000379270|SAT1;ENST00000462639.1_1_X:23803380-23803605:+|nuORF;ENST00000474223.1_1_X:23803122-23803970:+|nuORF ENSG00000130066|ENST00000379270|SAT1 ENSG00000130066|ENST00000379270|SAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.791259765625 2 546.78985 1091.56515 NaN NaN NaN NaN NaN NaN NaN 64.118 1 64.366 63.866 64.866 0.24803 0 0 0 0.24879 1 29366 29366 29.082 15.176 1 33296 2572 21144 21213 37470 37470 0.023026271030403223 TYDPWIGKL 9 Unmodified _TYDPWIGKL_ 0 0 0 ENSG00000130066|ENST00000379270|SAT1;ENST00000462639.1_1_X:23803380-23803605:+|nuORF;ENST00000474223.1_1_X:23803122-23803970:+|nuORF ENSG00000130066|ENST00000379270|SAT1 ENSG00000130066|ENST00000379270|SAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.7908935546875 2 546.78985 1091.56515 NaN NaN NaN NaN NaN NaN NaN 63.513 1 64.171 63.671 64.671 0.65808 0 0 0 0.24879 1 29105 29105 29.082 15.574 1 33297 2572 21144 21213 37471 37471 0.023026271030403223 TYDSVTDKF 9 Unmodified _TYDSVTDKF_ 0 0 0 nc|ENSG00000115464|Q70CQ2-2|USP34;ENSG00000115464|ENST00000398571|USP34;nc|ENSG00000115464|Q70CQ2-3|USP34;ENST00000463046.5_1_2:61463458-61483580:-|nuORF nc|ENSG00000115464|Q70CQ2-2|USP34 nc|ENSG00000115464|Q70CQ2-2|USP34 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.2518310546875 2 538.250754 1074.48696 3.193 0.0017186 -0.61707 -0.00033214 2.5759 0.0013865 538.2502652153086 39.496 0.27512 39.496 39.276 39.551 0 19 9 3 0 0 0 0.013715 1 17899 17899 76.825 55.288 1 1054400 33298 1972 21145 21214 37472 37472 -0.047308502728583335 TYDSVTDKF 9 Unmodified _TYDSVTDKF_ 0 0 0 nc|ENSG00000115464|Q70CQ2-2|USP34;ENSG00000115464|ENST00000398571|USP34;nc|ENSG00000115464|Q70CQ2-3|USP34;ENST00000463046.5_1_2:61463458-61483580:-|nuORF nc|ENSG00000115464|Q70CQ2-2|USP34 nc|ENSG00000115464|Q70CQ2-2|USP34 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.2518310546875 2 538.250754 1074.48696 3.1074 0.0016726 -0.76125 -0.00040974 2.3462 0.0012628 538.2501824825398 38.315 0.47632 39.11 38.722 39.198 0.79552 31 17 4 0 0 0 0.020338 1 17356 17356 67.838 40.209 1 851220 33299 1972 21145 21214 37473 37473 -0.047308502728583335 TYDSVTDKF 9 Unmodified _TYDSVTDKF_ 0 0 0 nc|ENSG00000115464|Q70CQ2-2|USP34;ENSG00000115464|ENST00000398571|USP34;nc|ENSG00000115464|Q70CQ2-3|USP34;ENST00000463046.5_1_2:61463458-61483580:-|nuORF nc|ENSG00000115464|Q70CQ2-2|USP34 nc|ENSG00000115464|Q70CQ2-2|USP34 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.2528686523438 2 538.250754 1074.48696 3.0583 0.0016461 -0.050072 -2.6951E-05 3.0082 0.0016192 538.2507098901839 39.42 0.4481 39.687 39.431 39.879 0.26696 26 16 2 0 0 0 0.053359 2 17903 17903;17950 45.74 24.203 1 547710 33300 1972 21145 21214 37474;37475 37474 -0.047308502728583335 TYDSVTDKF 9 Unmodified _TYDSVTDKF_ 0 0 0 nc|ENSG00000115464|Q70CQ2-2|USP34;ENSG00000115464|ENST00000398571|USP34;nc|ENSG00000115464|Q70CQ2-3|USP34;ENST00000463046.5_1_2:61463458-61483580:-|nuORF nc|ENSG00000115464|Q70CQ2-2|USP34 nc|ENSG00000115464|Q70CQ2-2|USP34 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.2520751953125 2 538.250754 1074.48696 3.3264 0.0017904 -1.1015 -0.00059286 2.2249 0.0011976 538.2498895529263 39.049 0.43251 39.687 39.455 39.887 0.63778 22 15 2 0 0 0 0.076469 2 17835 17835;17897 38.615 21.672 1 466920 33301 1972 21145 21214 37476;37477 37476 -0.047308502728583335 TYDTSENNYY 10 Unmodified _TYDTSENNYY_ 0 0 0 nc|ENSG00000211816|A0A0B4J264|TRAV38-1 nc|ENSG00000211816|A0A0B4J264|TRAV38-1 nc|ENSG00000211816|A0A0B4J264|TRAV38-1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 423.8363037109375 3 423.835052 1268.48333 2.9316 0.0012425 -0.41006 -0.0001738 2.5215 0.0010687 423.83464752242645 21.259 0.2062 21.259 21.164 21.37 0 28 18 2 0 0 0 0.93584 1 9511 9511 1.7423 1.0446 1 232310 33302 9825 21146 21215 37478 37478 -0.14017564837354257 TYDTSENNYY 10 Unmodified _TYDTSENNYY_ 0 0 0 nc|ENSG00000211816|A0A0B4J264|TRAV38-1 nc|ENSG00000211816|A0A0B4J264|TRAV38-1 nc|ENSG00000211816|A0A0B4J264|TRAV38-1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 423.835052 1268.48333 3.1625 0.0013404 1.2986 0.0005504 4.4612 0.0018908 424.17057345699277 20.389 0.1467 21.043 20.967 21.114 0.65346 -0.10827 0.0015942 NaN 1.7423 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 76103 33303 9825 21146 21215 -0.14017564837354257 TYDYNFHSF 9 Unmodified _TYDYNFHSF_ 0 0 0 nc|ENSG00000116539|Q9NR48|ASH1L;ENSG00000116539|ENST00000392403|ASH1L nc|ENSG00000116539|Q9NR48|ASH1L nc|ENSG00000116539|Q9NR48|ASH1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.250244140625 2 597.248546 1192.48254 3.4483 0.0020595 0.22362 0.00013356 3.672 0.0021931 597.7501383360969 54.894 0.19046 55.16 55.093 55.283 0.26543 19 11 2 0 0 0 0.0079462 1 25111 25111 85.642 56.56 1 1460700 33304 2031 21147 21216 37479 37479 -0.10600314695761881 TYDYNFHSF 9 Unmodified _TYDYNFHSF_ 0 0 0 nc|ENSG00000116539|Q9NR48|ASH1L;ENSG00000116539|ENST00000392403|ASH1L nc|ENSG00000116539|Q9NR48|ASH1L nc|ENSG00000116539|Q9NR48|ASH1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.2523803710938 2 597.248546 1192.48254 3.9072 0.0023336 -0.14723 -8.7933E-05 3.76 0.0022456 597.2487341495303 54.18 0.26549 54.846 54.738 55.003 0.6665 28 13 3 0 0 0 0.0079462 2 24758 24758;24817 85.642 62.905 1 1211700 33305 2031 21147 21216 37480;37481 37480 -0.10600314695761881 TYDYNFHSF 9 Unmodified _TYDYNFHSF_ 0 0 0 nc|ENSG00000116539|Q9NR48|ASH1L;ENSG00000116539|ENST00000392403|ASH1L nc|ENSG00000116539|Q9NR48|ASH1L nc|ENSG00000116539|Q9NR48|ASH1L MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 597.248546 1192.48254 3.4956 0.0020877 0.13196 7.881E-05 3.6275 0.0021665 597.2485863940144 54.849 0.22033 54.849 54.749 54.969 0 -0.10253 0.00012117 NaN 85.642 38 21 3 NaN NaN NaN NaN 0 NaN NaN 0 1508700 33306 2031 21147 21216 -0.10600314695761881 TYEGIFKTL 9 Unmodified _TYEGIFKTL_ 0 0 0 nc|ENSG00000168488|Q8WWM7-6|ATXN2L;ENST00000563314.5_1_16:28834580-28846939:+|nuORF;nc|ENSG00000168488|Q8WWM7-8|ATXN2L;nc|ENSG00000168488|Q8WWM7-5|ATXN2L;nc|ENSG00000168488|Q8WWM7-4|ATXN2L;ATXN2L|p.V1010Cfs*42|1|0.18|ENSG00000168488|chr16:28836062-28836062|G/-|frameshift_variant;nc|ENSG00000168488|Q8WWM7-9|ATXN2L;nc|ENSG00000168488|Q8WWM7-2|ATXN2L;ENSG00000168488|ENST00000336783|ATXN2L;nc|ENSG00000168488|Q8WWM7-3|ATXN2L;ENST00000561539.1_1_16:28836974-28837213:+|nuORF;ENST00000566080.1_1_16:28837054-28837213:+|nuORF;ENST00000562867.5_1_16:28834808-28837752:+|nuORF;ENST00000432006.1_1_7:16625648-16626215:-|nuORF;nc|ENSG00000168488|Q8WWM7-7|ATXN2L nc|ENSG00000168488|Q8WWM7-6|ATXN2L nc|ENSG00000168488|Q8WWM7-6|ATXN2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.2931518554688 2 536.289682 1070.56481 2.8045 0.001504 0.85703 0.00045962 3.6616 0.0019637 536.2905920644189 63.954 0.20333 64.202 64.083 64.286 0.24803 18 12 2 0 0 0 0.057945 1 29288 29288 43.772 21.036 1 606460 33307 82 21148 21217 37482 37482 0.0323520738318166 TYEGIFKTL 9 Unmodified _TYEGIFKTL_ 0 0 0 nc|ENSG00000168488|Q8WWM7-6|ATXN2L;ENST00000563314.5_1_16:28834580-28846939:+|nuORF;nc|ENSG00000168488|Q8WWM7-8|ATXN2L;nc|ENSG00000168488|Q8WWM7-5|ATXN2L;nc|ENSG00000168488|Q8WWM7-4|ATXN2L;ATXN2L|p.V1010Cfs*42|1|0.18|ENSG00000168488|chr16:28836062-28836062|G/-|frameshift_variant;nc|ENSG00000168488|Q8WWM7-9|ATXN2L;nc|ENSG00000168488|Q8WWM7-2|ATXN2L;ENSG00000168488|ENST00000336783|ATXN2L;nc|ENSG00000168488|Q8WWM7-3|ATXN2L;ENST00000561539.1_1_16:28836974-28837213:+|nuORF;ENST00000566080.1_1_16:28837054-28837213:+|nuORF;ENST00000562867.5_1_16:28834808-28837752:+|nuORF;ENST00000432006.1_1_7:16625648-16626215:-|nuORF;nc|ENSG00000168488|Q8WWM7-7|ATXN2L nc|ENSG00000168488|Q8WWM7-6|ATXN2L nc|ENSG00000168488|Q8WWM7-6|ATXN2L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.2930297851562 2 536.289682 1070.56481 NaN NaN NaN NaN NaN NaN NaN 63.322 1 63.98 63.48 64.48 0.65808 0 0 0 0.036101 1 29017 29017 57.722 38.465 1 33308 82 21148 21217 37483 37483 0.0323520738318166 TYEKILAKK 9 Unmodified _TYEKILAKK_ 0 0 0 REV__ENSG00000138160|ENST00000260731|KIF11 REV__ENSG00000138160|ENST00000260731|KIF11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.95068359375 2 547.334424 1092.6543 NaN NaN NaN NaN NaN NaN NaN 70.65 1 70.907 70.407 71.407 0.25642 0 0 0 0.90611 1 32356 32356 2.0598 0 1 + 33309 12151 21149 21218 37484 37484 0.11167462062553568 TYEREKRL 8 Unmodified _TYEREKRL_ 0 0 0 nc|ENSG00000146463|Q5VZL5-2|ZMYM4;nc|ENSG00000146463|Q5VZL5-4|ZMYM4;ENSG00000146463|ENST00000314607|ZMYM4 nc|ENSG00000146463|Q5VZL5-2|ZMYM4 nc|ENSG00000146463|Q5VZL5-2|ZMYM4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.8629455566406 3 365.536612 1093.58801 1.9474 0.00071184 0.17986 6.5744E-05 2.1272 0.00077758 365.53670282671993 12.675 0.17566 12.983 12.882 13.058 0.30727 14 5 4 0 0 0 0.73686 1 5697 5697 1.8442 0.6509 1 3007000 33310 3521 21150 21219 37485 37485 0.044956462205163916 TYFDKNYNL 9 Unmodified _TYFDKNYNL_ 0 0 0 nc|ENSG00000116641|Q96N67-4|DOCK7;nc|ENSG00000116641|Q96N67-3|DOCK7;nc|ENSG00000116641|Q96N67-5|DOCK7;nc|ENSG00000116641|Q96N67-2|DOCK7;nc|ENSG00000116641|Q96N67-6|DOCK7;ENSG00000116641|ENST00000635253|DOCK7;ENST00000467758.1_1_1:62941350-62941566:-|nuORF nc|ENSG00000116641|Q96N67-4|DOCK7 nc|ENSG00000116641|Q96N67-4|DOCK7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.2818603515625 2 589.279846 1176.54514 3.5277 0.0020788 0.054099 3.188E-05 3.5818 0.0021107 589.2799019342118 48.548 0.43595 48.548 48.349 48.785 0 86 28 4 0 0 0 9.5847E-09 3 22268 22168;22218;22268 155.95 102.12 1 6853600 33311 2035 21151 21220 37486;37487;37488 37488 -0.03607168627581814 TYFDKNYNL 9 Unmodified _TYFDKNYNL_ 0 0 0 nc|ENSG00000116641|Q96N67-4|DOCK7;nc|ENSG00000116641|Q96N67-3|DOCK7;nc|ENSG00000116641|Q96N67-5|DOCK7;nc|ENSG00000116641|Q96N67-2|DOCK7;nc|ENSG00000116641|Q96N67-6|DOCK7;ENSG00000116641|ENST00000635253|DOCK7;ENST00000467758.1_1_1:62941350-62941566:-|nuORF nc|ENSG00000116641|Q96N67-4|DOCK7 nc|ENSG00000116641|Q96N67-4|DOCK7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.2817993164062 2 589.279846 1176.54514 3.2754 0.0019301 -0.24106 -0.00014205 3.0343 0.0017881 589.2798465097268 47.319 0.43274 48.148 47.957 48.39 0.82915 80 26 4 0 0 0 6.4275E-06 3 21568 21518;21568;21614 148.27 94.435 1 7138700 33312 2035 21151 21220 37489;37490;37491 37490 -0.03607168627581814 TYFDKNYNL 9 Unmodified _TYFDKNYNL_ 0 0 0 nc|ENSG00000116641|Q96N67-4|DOCK7;nc|ENSG00000116641|Q96N67-3|DOCK7;nc|ENSG00000116641|Q96N67-5|DOCK7;nc|ENSG00000116641|Q96N67-2|DOCK7;nc|ENSG00000116641|Q96N67-6|DOCK7;ENSG00000116641|ENST00000635253|DOCK7;ENST00000467758.1_1_1:62941350-62941566:-|nuORF nc|ENSG00000116641|Q96N67-4|DOCK7 nc|ENSG00000116641|Q96N67-4|DOCK7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.2820434570312 2 589.279846 1176.54514 3.7133 0.0021882 -0.39104 -0.00023043 3.3223 0.0019577 589.2796028808099 48.568 0.29015 48.83 48.665 48.955 0.26209 35 13 3 0 0 0 0.00038954 2 22229 22177;22229 133.05 91.213 1 3441400 33313 2035 21151 21220 37492;37493 37493 -0.03607168627581814 TYFDKNYNL 9 Unmodified _TYFDKNYNL_ 0 0 0 nc|ENSG00000116641|Q96N67-4|DOCK7;nc|ENSG00000116641|Q96N67-3|DOCK7;nc|ENSG00000116641|Q96N67-5|DOCK7;nc|ENSG00000116641|Q96N67-2|DOCK7;nc|ENSG00000116641|Q96N67-6|DOCK7;ENSG00000116641|ENST00000635253|DOCK7;ENST00000467758.1_1_1:62941350-62941566:-|nuORF nc|ENSG00000116641|Q96N67-4|DOCK7 nc|ENSG00000116641|Q96N67-4|DOCK7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.2820434570312 2 589.279846 1176.54514 3.7444 0.0022065 -0.24506 -0.00014441 3.4994 0.0020621 589.2797022025937 48.048 0.41051 48.702 48.508 48.919 0.65356 45 15 4 0 0 0 7.3583E-09 3 22022 21967;22022;22075 157.8 107.86 1 1919900 33314 2035 21151 21220 37494;37495;37496 37495 -0.03607168627581814 TYFFKSDLE 9 Unmodified _TYFFKSDLE_ 0 0 0 nc|ENSG00000162398|Q3ZCV2-2|CIMAP2;ENSG00000162398|ENST00000371273|LEXM nc|ENSG00000162398|Q3ZCV2-2|CIMAP2 nc|ENSG00000162398|Q3ZCV2-2|CIMAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1149.552001953125 1 1149.54627 1148.53899 3.026 0.0034785 0.47674 0.00054803 3.5027 0.0040266 1149.5463896516558 73.454 0.17386 74.153 74.115 74.289 0.69881 23 15 2 0 0 0 0.29781 1 35490 35490 16.942 0 1 2462300 33315 4133 21152 21221 37497 37497 -0.029336868590689846 TYFPQNIL 8 Unmodified _TYFPQNIL_ 0 0 0 nc|ENSG00000162594|Q5VWK5-7|IL23R;nc|ENSG00000162594|Q5VWK5-5|IL23R;nc|ENSG00000162594|Q5VWK5-6|IL23R;nc|ENSG00000162594|Q5VWK5-2|IL23R;ENSG00000162594|ENST00000347310|IL23R nc|ENSG00000162594|Q5VWK5-7|IL23R nc|ENSG00000162594|Q5VWK5-7|IL23R MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.2655029296875 2 498.263468 994.512382 3.2724 0.0016305 0.70277 0.00035016 3.9752 0.0019807 498.2637945662765 84.955 0.12898 85.203 85.131 85.26 0.24757 9 6 2 0 0 0 0.64692 1 39112 39112 10.183 0.83596 1 283490 33316 4145 21153 21222 37498 37498 0.014906690402312961 TYFRFQEEI 9 Unmodified _TYFRFQEEI_ 0 0 0 ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 616.8020629882812 2 616.800946 1231.58734 3.4795 0.0021462 -0.26278 -0.00016208 3.2167 0.0019841 616.8009190750734 61.383 0.27311 61.383 61.254 61.527 0 61 28 3 0 0 0 0.0057865 2 28647 28589;28647 90.135 50.185 1 5311500 33317 2245 21154 21223 37499;37500 37500 -0.019191932191688466 TYFRFQEEI 9 Unmodified _TYFRFQEEI_ 0 0 0 ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.8031005859375 2 616.800946 1231.58734 2.9853 0.0018414 -0.45924 -0.00028326 2.5261 0.0015581 616.8008706259578 60.365 0.18198 61.114 61.037 61.219 0.74927 34 20 2 0 0 0 0.061685 1 27861 27861 42.312 14.684 1 5598600 33318 2245 21154 21223 37501 37501 -0.019191932191688466 TYFRFQEEI 9 Unmodified _TYFRFQEEI_ 0 0 0 ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 616.8035278320312 2 616.800946 1231.58734 3.6068 0.0022247 -0.05066 -3.1247E-05 3.5561 0.0021934 616.8008613024709 61.521 0.35815 61.773 61.606 61.964 0.25245 40 15 4 0 0 0 1.3294E-08 3 28191 28135;28191;28243 152.89 83.781 1 3203900 33319 2245 21154 21223 37502;37503;37504 37503 -0.019191932191688466 TYFRFQEEI 9 Unmodified _TYFRFQEEI_ 0 0 0 ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 616.803466796875 2 616.800946 1231.58734 3.5653 0.0021991 -0.064124 -3.9552E-05 3.5012 0.0021596 616.800923287092 60.913 0.40413 61.576 61.398 61.803 0.66261 42 17 3 0 0 0 9.5847E-09 3 27896 27842;27896;27943 155.95 84.031 1 3664100 33320 2245 21154 21223 37505;37506;37507 37506 -0.019191932191688466 TYFSTPLLL 9 Unmodified _TYFSTPLLL_ 0 0 0 ENST00000424167.2_1_7:75689738-75694307:+|nuORF;nc|ENSG00000146701|P40926-2|MDH2;ENSG00000146701|ENST00000315758|MDH2 ENST00000424167.2_1_7:75689738-75694307:+|nuORF ENST00000424167.2_1_7:75689738-75694307:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.7957763671875 2 527.794601 1053.57465 3.9453 0.0020823 -0.58441 -0.00030845 3.3609 0.0017739 527.794492389371 94.668 0.28193 94.927 94.743 95.025 0.25975 25 15 2 0 0 0 0.5141 2 43519 43519;43529 18.135 9.5417 1 358200 33321 3528 21155 21224 37508;37509 37508 0.05000395388583456 TYFSTPLLL 9 Unmodified _TYFSTPLLL_ 0 0 0 ENST00000424167.2_1_7:75689738-75694307:+|nuORF;nc|ENSG00000146701|P40926-2|MDH2;ENSG00000146701|ENST00000315758|MDH2 ENST00000424167.2_1_7:75689738-75694307:+|nuORF ENST00000424167.2_1_7:75689738-75694307:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.7979125976562 2 527.794601 1053.57465 3.4785 0.0018359 -0.79975 -0.0004221 2.6787 0.0014138 527.7947331180178 94.01 0.32436 94.641 94.445 94.769 0.63115 29 17 2 0 0 0 0.5141 3 43207 43207;43211;43278 18.135 7.7475 1 342290 33322 3528 21155 21224 37510;37511;37512 37510 0.05000395388583456 TYFSTSMPSE 10 Unmodified _TYFSTSMPSE_ 0 0 0 REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|54|3|anti-sense REV__SVA_F_dup735|chr14:33983789-33985094:-|1.263640136805012|0.1893590021110305|2.74|532.0|54|3|anti-sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.7449340820312 2 575.242072 1148.46959 3.173 0.0018253 -0.015752 -9.0613E-06 3.1573 0.0018162 575.2417452723981 63.923 0.27239 64.171 64.035 64.307 0.24802 30 16 2 0 0 0 0.83621 1 29303 29303 6.7232 1.9672 1 1047800 + 33323 18226 21156 21225 37513 37513 -0.09870513870146169 TYGDLNHLV 9 Unmodified _TYGDLNHLV_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;ENSG00000261456|ENST00000568584|TUBB8;ENSG00000173213|ENST00000308911|TUBB8B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENSG00000101162|ENST00000217133|TUBB1;CON__ENSEMBL:ENSBTAP00000025008;ENST00000450755.1_1_X:122696050-122696458:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.2633666992188 2 516.261456 1030.50836 3.2443 0.0016749 -0.072937 -3.7655E-05 3.1713 0.0016372 516.2612524306734 51.896 0.27481 51.896 51.826 52.101 0 35 20 2 0 0 0 0.03963 2 23762 23762;23812 51.63 24.001 1 1028400 33324 5660;6301;1452 21157 21226 37514;37515 37514 -0.005674204534898308 TYGDLNHLV 9 Unmodified _TYGDLNHLV_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;ENSG00000261456|ENST00000568584|TUBB8;ENSG00000173213|ENST00000308911|TUBB8B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENSG00000101162|ENST00000217133|TUBB1;CON__ENSEMBL:ENSBTAP00000025008;ENST00000450755.1_1_X:122696050-122696458:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.2633666992188 2 516.261456 1030.50836 2.9953 0.0015463 -0.51728 -0.00026705 2.478 0.0012793 516.2610115833074 50.985 0.2668 51.803 51.684 51.95 0.81738 22 15 2 0 0 0 0.02631 1 23227 23227 60.074 27.288 1 919360 33325 5660;6301;1452 21157 21226 37516 37516 -0.005674204534898308 TYGDLNHLV 9 Unmodified _TYGDLNHLV_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;ENSG00000261456|ENST00000568584|TUBB8;ENSG00000173213|ENST00000308911|TUBB8B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENSG00000101162|ENST00000217133|TUBB1;CON__ENSEMBL:ENSBTAP00000025008;ENST00000450755.1_1_X:122696050-122696458:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 516.261456 1030.50836 3.3323 0.0017203 0.0037984 1.961E-06 3.3361 0.0017223 516.2612605830751 51.78 0.34738 52.042 51.877 52.225 0.26228 0.13325 5.0428E-05 NaN 60.074 51 29 2 NaN NaN NaN NaN 0 NaN NaN 0 2027700 33326 5660;6301;1452 21157 21226 -0.005674204534898308 TYGDLNHLV 9 Unmodified _TYGDLNHLV_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;ENSG00000261456|ENST00000568584|TUBB8;ENSG00000173213|ENST00000308911|TUBB8B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENSG00000101162|ENST00000217133|TUBB1;CON__ENSEMBL:ENSBTAP00000025008;ENST00000450755.1_1_X:122696050-122696458:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 516.261456 1030.50836 3.2512 0.0016785 0.16984 8.7683E-05 3.421 0.0017661 516.2613723904255 51.235 0.32516 51.895 51.714 52.039 0.65956 -0.013969 0.00022187 NaN 60.074 50 24 3 NaN NaN NaN NaN 0 NaN NaN 0 1905900 33327 5660;6301;1452 21157 21226 -0.005674204534898308 TYGEIFEKF 9 Unmodified _TYGEIFEKF_ 0 0 0 nc|ENSG00000151366|O95298-2|NDUFC2;ENSG00000151366|ENST00000281031|NDUFC2 nc|ENSG00000151366|O95298-2|NDUFC2 nc|ENSG00000151366|O95298-2|NDUFC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.2806396484375 2 567.279315 1132.54408 2.864 0.0016247 0.28398 0.0001611 3.148 0.0017858 567.2792554771422 64.769 0.2289 64.769 64.626 64.855 0 72 31 3 0 0 0 0.0012852 2 30748 30686;30748 121.53 90.898 1 31708000 33328 3705 21158 21227 37517;37518 37518 -0.016893829964601537 TYGEIFEKF 9 Unmodified _TYGEIFEKF_ 0 0 0 nc|ENSG00000151366|O95298-2|NDUFC2;ENSG00000151366|ENST00000281031|NDUFC2 nc|ENSG00000151366|O95298-2|NDUFC2 nc|ENSG00000151366|O95298-2|NDUFC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.2801513671875 2 567.279315 1132.54408 2.9527 0.001675 -0.7343 -0.00041655 2.2184 0.0012585 567.2788072554733 63.565 0.2907 64.287 64.141 64.432 0.72236 93 37 3 0 0 0 0.0076144 2 29782 29732;29782 86.332 61.341 1 20544000 33329 3705 21158 21227 37519;37520 37520 -0.016893829964601537 TYGEIFEKF 9 Unmodified _TYGEIFEKF_ 0 0 0 nc|ENSG00000151366|O95298-2|NDUFC2;ENSG00000151366|ENST00000281031|NDUFC2 nc|ENSG00000151366|O95298-2|NDUFC2 nc|ENSG00000151366|O95298-2|NDUFC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.2809448242188 2 567.279315 1132.54408 3.5251 0.0019997 -0.31336 -0.00017776 3.2118 0.001822 567.2791633848001 64.708 0.47678 64.956 64.804 65.281 0.24802 126 40 4 0 0 0 7.8118E-14 4 29639 29595;29639;29686;29730 165.72 121.86 1 20850000 33330 3705 21158 21227 37521;37522;37523;37524 37522 -0.016893829964601537 TYGEIFEKF 9 Unmodified _TYGEIFEKF_ 0 0 0 nc|ENSG00000151366|O95298-2|NDUFC2;ENSG00000151366|ENST00000281031|NDUFC2 nc|ENSG00000151366|O95298-2|NDUFC2 nc|ENSG00000151366|O95298-2|NDUFC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.2811889648438 2 567.279315 1132.54408 3.6627 0.0020778 -0.30378 -0.00017233 3.359 0.0019055 567.2791430746732 64.165 0.51035 64.822 64.561 65.072 0.65672 138 47 4 0 0 0 7.3583E-09 4 29381 29337;29381;29424;29470 157.8 123.39 1 32138000 33331 3705 21158 21227 37525;37526;37527;37528 37526 -0.016893829964601537 TYGERFCYL 9 Carbamidomethyl (C) _TYGERFC(Carbamidomethyl (C))YL_ TYGERFC(1)YL TYGERFC(65)YL 0 1 0 ENSG00000156162|ENST00000414645|DPY19L4 ENSG00000156162|ENST00000414645|DPY19L4 ENSG00000156162|ENST00000414645|DPY19L4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.7755126953125 2 604.773874 1207.53319 3.6127 0.0021849 -0.39981 -0.00024179 3.2129 0.0019431 604.7737372698266 53.071 0.30915 53.071 52.857 53.167 0 34 16 3 0 0 0 0.022157 1 24300 24300 65.474 40.074 1 924000 33332 3897 21159 21228 37529 37529 70 -0.062271086424289024 TYGERFCYL 9 Carbamidomethyl (C) _TYGERFC(Carbamidomethyl (C))YL_ TYGERFC(1)YL TYGERFC(42)YL 0 1 0 ENSG00000156162|ENST00000414645|DPY19L4 ENSG00000156162|ENST00000414645|DPY19L4 ENSG00000156162|ENST00000414645|DPY19L4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 604.7756958007812 2 604.773874 1207.53319 3.6086 0.0021824 -0.89925 -0.00054384 2.7094 0.0016386 604.7731664647383 52.474 0.20692 53.136 53.026 53.233 0.66198 13 7 2 0 0 0 0.061685 1 24005 24005 42.312 27.064 1 483600 33333 3897 21159 21228 37530 37530 70 -0.062271086424289024 TYGGSWKF 8 Unmodified _TYGGSWKF_ 0 0 0 nc|ENSG00000146416|Q9NVV5-6|AIG1;nc|ENSG00000146416|Q9NVV5-5|AIG1;nc|ENSG00000146416|Q9NVV5-3|AIG1;nc|ENSG00000146416|Q9NVV5-4|AIG1;ENSG00000146416|ENST00000357847|AIG1;nc|ENSG00000146416|Q9NVV5-1|AIG1 nc|ENSG00000146416|Q9NVV5-6|AIG1 nc|ENSG00000146416|Q9NVV5-6|AIG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.2283630371094 2 473.226885 944.439217 3.0735 0.0014544 0.37117 0.00017565 3.4446 0.0016301 473.2269859676328 50.827 0.2723 50.827 50.691 50.963 0 26 12 3 0 0 0 0.31493 1 23290 23290 34.402 18.555 1 1248900 33334 3517 21160 21229 37531 37531 -0.035224596823809406 TYGGSWKF 8 Unmodified _TYGGSWKF_ 0 0 0 nc|ENSG00000146416|Q9NVV5-6|AIG1;nc|ENSG00000146416|Q9NVV5-5|AIG1;nc|ENSG00000146416|Q9NVV5-3|AIG1;nc|ENSG00000146416|Q9NVV5-4|AIG1;ENSG00000146416|ENST00000357847|AIG1;nc|ENSG00000146416|Q9NVV5-1|AIG1 nc|ENSG00000146416|Q9NVV5-6|AIG1 nc|ENSG00000146416|Q9NVV5-6|AIG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.22784423828125 2 473.226885 944.439217 2.9866 0.0014133 -0.033205 -1.5714E-05 2.9533 0.0013976 473.2266875618717 49.648 0.31052 50.47 50.302 50.612 0.82285 41 18 3 0 0 0 0.26626 1 22589 22589 37.974 25.442 1 1165200 33335 3517 21160 21229 37532 37532 -0.035224596823809406 TYGGSWKF 8 Unmodified _TYGGSWKF_ 0 0 0 nc|ENSG00000146416|Q9NVV5-6|AIG1;nc|ENSG00000146416|Q9NVV5-5|AIG1;nc|ENSG00000146416|Q9NVV5-3|AIG1;nc|ENSG00000146416|Q9NVV5-4|AIG1;ENSG00000146416|ENST00000357847|AIG1;nc|ENSG00000146416|Q9NVV5-1|AIG1 nc|ENSG00000146416|Q9NVV5-6|AIG1 nc|ENSG00000146416|Q9NVV5-6|AIG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.2284240722656 2 473.226885 944.439217 NaN NaN NaN NaN NaN NaN NaN 50.373 1 51.031 50.531 51.531 0.65735 0 0 0 0.64864 1 23035 23035 24.021 5.8856 1 33336 3517 21160 21229 37533 37533 -0.035224596823809406 TYGIKHMKF 9 Unmodified _TYGIKHMKF_ 0 0 0 ENSG00000142892|ENST00000370812|PIGK;nc|ENSG00000142892|Q92643-2|PIGK ENSG00000142892|ENST00000370812|PIGK ENSG00000142892|ENST00000370812|PIGK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 375.53680419921875 3 375.535555 1123.58484 3.0987 0.0011637 -0.36039 -0.00013534 2.7383 0.0010283 375.53549673981746 28.453 0.21503 28.453 28.358 28.573 0 21 15 2 0 0 0 0.26118 1 12833 12833 19.362 11.753 1 413300 33337 3333 21161 21230 37534 37534 0.027986798421579806 TYGIKHMKF 9 Unmodified _TYGIKHMKF_ 0 0 0 ENSG00000142892|ENST00000370812|PIGK;nc|ENSG00000142892|Q92643-2|PIGK ENSG00000142892|ENST00000370812|PIGK ENSG00000142892|ENST00000370812|PIGK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 375.53662109375 3 375.535555 1123.58484 2.5067 0.00094137 0.3638 0.00013662 2.8705 0.001078 375.87010501151366 27.399 0.18777 28.185 28.048 28.236 0.78627 26 16 2 0 0 0 0.33646 1 12290 12290 15.248 7.6395 1 774390 33338 3333 21161 21230 37535 37535 0.027986798421579806 TYHKHSEMAKH 11 Unmodified _TYHKHSEMAKH_ 0 0 0 REV__RYR2|p.M4809Qfs*5|1|0.04|ENSG00000198626|chr1:237809025-237809026|-/CCAGGTAT|frameshift_variant REV__RYR2|p.M4809Qfs*5|1|0.04|ENSG00000198626|chr1:237809025-237809026|-/CCAGGTAT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.8860778808594 3 456.887428 1367.64045 NaN NaN NaN NaN NaN NaN NaN 39.674 1 39.674 39.174 40.174 0 0 0 0 1.0048 1 18005 18005 4.4062 1.5629 1 + 33339 14344 21162 21231 37536 37536 -0.028661387081683642 TYHPGVPVF 9 Unmodified _TYHPGVPVF_ 0 0 0 nc|ENSG00000110172|Q9UHD1-2|CHORDC1;ENSG00000110172|ENST00000320585|CHORDC1;ENST00000533739.1_1_11:89951170-89956122:-|nuORF;ENST00000533724.5_1_11:89947115-89956122:-|nuORF;ENST00000581139.1_1_18:2946096-2946618:-|nuORF nc|ENSG00000110172|Q9UHD1-2|CHORDC1 nc|ENSG00000110172|Q9UHD1-2|CHORDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.7655944824219 2 508.763635 1015.51272 NaN NaN NaN NaN NaN NaN NaN 54.649 1 54.914 54.414 55.414 0.26543 0 0 0 0.14073 1 24979 24979 34.102 9.8925 1 33340 1703 21163 21232 37537 37537 0.0055808876010132735 TYHRRYLRTWF 11 Unmodified _TYHRRYLRTWF_ 0 0 0 REV__nc|ENSG00000163444|Q8IXX5-2|TMEM183A REV__nc|ENSG00000163444|Q8IXX5-2|TMEM183A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 799.7684936523438 2 799.920584 1597.82661 NaN NaN NaN NaN NaN NaN NaN 97.533 1 97.533 97.033 98.033 0 0 0 0 1.0082 1 53116 53116 0 0 1 + 33341 12988 21164 21233 37538 37538 0.05161426522636248 TYIESASEL 9 Unmodified _TYIESASEL_ 0 0 0 ENST00000486564.5_1_2:31133891-31178528:-|nuORF;GALNT14|p.K297Nfs*27|1|0.28|ENSG00000158089|chr2:30942244-30942244|C/-|frameshift_variant;chr2:30958464-30992838|511|13.05|0.31|5.42|-|ENST00000430167|GALNT14,GALNT14;nc|ENSG00000158089|Q96FL9-2|GALNT14;nc|ENSG00000158089|Q96FL9-4|GALNT14;ENSG00000158089|ENST00000349752|GALNT14;nc|ENSG00000158089|Q96FL9-3|GALNT14 ENST00000486564.5_1_2:31133891-31178528:-|nuORF ENST00000486564.5_1_2:31133891-31178528:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 506.7470703125 2 506.745305 1011.47606 3.2498 0.0016468 0.13718 6.9515E-05 3.387 0.0017163 506.7453379751903 51.401 0.42715 51.401 51.187 51.614 0 59 21 4 0 0 0 0.0063783 3 23530 23481;23530;23580 88.904 46.809 1 2777000 33342 164 21165 21234 37539;37540;37541 37540 -0.029222526471244237 TYIESASEL 9 Unmodified _TYIESASEL_ 0 0 0 ENST00000486564.5_1_2:31133891-31178528:-|nuORF;GALNT14|p.K297Nfs*27|1|0.28|ENSG00000158089|chr2:30942244-30942244|C/-|frameshift_variant;chr2:30958464-30992838|511|13.05|0.31|5.42|-|ENST00000430167|GALNT14,GALNT14;nc|ENSG00000158089|Q96FL9-2|GALNT14;nc|ENSG00000158089|Q96FL9-4|GALNT14;ENSG00000158089|ENST00000349752|GALNT14;nc|ENSG00000158089|Q96FL9-3|GALNT14 ENST00000486564.5_1_2:31133891-31178528:-|nuORF ENST00000486564.5_1_2:31133891-31178528:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.7471618652344 2 506.745305 1011.47606 2.9817 0.0015109 -0.13793 -6.9895E-05 2.8437 0.001441 506.74524199071453 50.559 0.36238 51.376 51.217 51.58 0.81738 46 17 3 0 0 0 0.047285 2 23045 23000;23045 48.346 6.2513 1 3568500 33343 164 21165 21234 37542;37543 37543 -0.029222526471244237 TYIESASEL 9 Unmodified _TYIESASEL_ 0 0 0 ENST00000486564.5_1_2:31133891-31178528:-|nuORF;GALNT14|p.K297Nfs*27|1|0.28|ENSG00000158089|chr2:30942244-30942244|C/-|frameshift_variant;chr2:30958464-30992838|511|13.05|0.31|5.42|-|ENST00000430167|GALNT14,GALNT14;nc|ENSG00000158089|Q96FL9-2|GALNT14;nc|ENSG00000158089|Q96FL9-4|GALNT14;ENSG00000158089|ENST00000349752|GALNT14;nc|ENSG00000158089|Q96FL9-3|GALNT14 ENST00000486564.5_1_2:31133891-31178528:-|nuORF ENST00000486564.5_1_2:31133891-31178528:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.7464294433594 2 506.745305 1011.47606 3.1084 0.0015752 -0.16088 -8.1525E-05 2.9476 0.0014937 506.74512378045137 51.358 0.29368 51.62 51.45 51.744 0.26227 30 13 3 0 0 0 0.023109 2 23491 23435;23491 64.236 30.134 1 3770500 33344 164 21165 21234 37544;37545 37545 -0.029222526471244237 TYIESASEL 9 Unmodified _TYIESASEL_ 0 0 0 ENST00000486564.5_1_2:31133891-31178528:-|nuORF;GALNT14|p.K297Nfs*27|1|0.28|ENSG00000158089|chr2:30942244-30942244|C/-|frameshift_variant;chr2:30958464-30992838|511|13.05|0.31|5.42|-|ENST00000430167|GALNT14,GALNT14;nc|ENSG00000158089|Q96FL9-2|GALNT14;nc|ENSG00000158089|Q96FL9-4|GALNT14;ENSG00000158089|ENST00000349752|GALNT14;nc|ENSG00000158089|Q96FL9-3|GALNT14 ENST00000486564.5_1_2:31133891-31178528:-|nuORF ENST00000486564.5_1_2:31133891-31178528:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1012.4864501953125 1 1012.48333 1011.47606 3.326 0.0033675 0.38929 0.00039415 3.7153 0.0037616 1012.4828608176899 51.362 0.19874 51.624 51.49 51.688 0.26227 13 8 2 0 0 0 0.09451 1 23449 23449 34.102 0 1 1237200 33345 164 21165 21234 37546 37546 -0.029222526471244237 TYIESASEL 9 Unmodified _TYIESASEL_ 0 0 0 ENST00000486564.5_1_2:31133891-31178528:-|nuORF;GALNT14|p.K297Nfs*27|1|0.28|ENSG00000158089|chr2:30942244-30942244|C/-|frameshift_variant;chr2:30958464-30992838|511|13.05|0.31|5.42|-|ENST00000430167|GALNT14,GALNT14;nc|ENSG00000158089|Q96FL9-2|GALNT14;nc|ENSG00000158089|Q96FL9-4|GALNT14;ENSG00000158089|ENST00000349752|GALNT14;nc|ENSG00000158089|Q96FL9-3|GALNT14 ENST00000486564.5_1_2:31133891-31178528:-|nuORF ENST00000486564.5_1_2:31133891-31178528:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.7465515136719 2 506.745305 1011.47606 3.1249 0.0015835 0.072701 3.6841E-05 3.1976 0.0016204 506.7453381391719 50.801 0.36981 51.461 51.295 51.665 0.65956 52 20 3 0 0 0 0.010221 2 23251 23206;23251 81.613 39.519 1 4059400 33346 164 21165 21234 37547;37548 37548 -0.029222526471244237 TYIESASEL 9 Unmodified _TYIESASEL_ 0 0 0 ENST00000486564.5_1_2:31133891-31178528:-|nuORF;GALNT14|p.K297Nfs*27|1|0.28|ENSG00000158089|chr2:30942244-30942244|C/-|frameshift_variant;chr2:30958464-30992838|511|13.05|0.31|5.42|-|ENST00000430167|GALNT14,GALNT14;nc|ENSG00000158089|Q96FL9-2|GALNT14;nc|ENSG00000158089|Q96FL9-4|GALNT14;ENSG00000158089|ENST00000349752|GALNT14;nc|ENSG00000158089|Q96FL9-3|GALNT14 ENST00000486564.5_1_2:31133891-31178528:-|nuORF ENST00000486564.5_1_2:31133891-31178528:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1012.4880981445312 1 1012.48333 1011.47606 3.4784 0.0035218 0.45832 0.00046404 3.9367 0.0039859 1012.4839042692162 50.797 0.26889 51.456 51.315 51.584 0.65956 23 15 2 0 0 0 0.047285 1 23236 23236 48.346 14.243 1 1302800 33347 164 21165 21234 37549 37549 -0.029222526471244237 TYIKLYTSKS 10 Unmodified _TYIKLYTSKS_ 0 0 0 ENST00000520248.1_1_8:79672379-79672541:-|nuORF;ENSG00000137492|ENST00000260045|THAP12 ENST00000520248.1_1_8:79672379-79672541:-|nuORF ENST00000520248.1_1_8:79672379-79672541:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.5545043945312 2 602.334621 1202.65469 NaN NaN NaN NaN NaN NaN NaN 89.298 1 89.362 88.862 89.862 0.064346 0 0 0 0.98985 1 45730 45730 7.1017 0.89594 1 33348 3021 21166 21235 37550 37550 0.06146836991752025 TYIKSPPFF 9 Unmodified _TYIKSPPFF_ 0 0 0 ENSG00000122729|ENST00000309951|ACO1 ENSG00000122729|ENST00000309951|ACO1 ENSG00000122729|ENST00000309951|ACO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.2969970703125 2 550.294768 1098.57498 3.6997 0.0020359 1.6849 0.00092716 5.3846 0.0029631 550.295736341201 65.79 0.3765 66.038 65.84 66.216 0.24847 48 20 3 0 0 0 0.011692 3 30107 30092;30107;30159 79.596 52.713 1 1074400 33349 2281 21167 21236 37551;37552;37553 37552 0.029638151084100173 TYIKSPPFF 9 Unmodified _TYIKSPPFF_ 0 0 0 ENSG00000122729|ENST00000309951|ACO1 ENSG00000122729|ENST00000309951|ACO1 ENSG00000122729|ENST00000309951|ACO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.2966918945312 2 550.294768 1098.57498 3.6223 0.0019933 1.7369 0.00095579 5.3592 0.0029491 550.2957822938664 65.105 0.45966 65.762 65.616 66.076 0.65672 53 28 2 0 0 0 0.0043297 2 29870 29821;29870 93.166 66.282 1 873290 33350 2281 21167 21236 37554;37555 37555 0.029638151084100173 TYILWNQGK 9 Unmodified _TYILWNQGK_ 0 0 0 REV__nc|ENSG00000112984|O95235-2|KIF20A REV__nc|ENSG00000112984|O95235-2|KIF20A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.7396545410156 3 374.869591 1121.58694 2.7361 0.0010257 -0.64278 -0.00024096 2.0933 0.00078472 374.86947712446727 36.4 0.32088 36.658 36.476 36.797 0.25768 27 12 3 0 0 0 0.11267 1 16622 16622 1.0715 0.10919 1 473750 + 33351 11285 21168 21237 37556 37556 0.031014318516099593 TYINHVVSV 9 Unmodified _TYINHVVSV_ 0 0 0 ENSG00000101160|ENST00000217131|CTSZ ENSG00000101160|ENST00000217131|CTSZ ENSG00000101160|ENST00000217131|CTSZ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.281494140625 2 516.279649 1030.54475 NaN NaN NaN NaN NaN NaN NaN 43.06 1 43.33 42.83 43.83 0.27021 0 0 0 0.024856 1 19657 19657 70.332 35.93 1 33352 1265 21169 21238 37557 37557 0.030694564432451443 TYINHVVSV 9 Unmodified _TYINHVVSV_ 0 0 0 ENSG00000101160|ENST00000217131|CTSZ ENSG00000101160|ENST00000217131|CTSZ ENSG00000101160|ENST00000217131|CTSZ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.2815551757812 2 516.279649 1030.54475 3.5793 0.0018479 -0.025243 -1.3032E-05 3.5541 0.0018349 516.2793663695375 42.498 0.22527 43.145 42.965 43.191 0.64693 23 13 2 0 0 0 0.094033 3 19427 19427;19432;19478 43.772 29.841 1 590030 33353 1265 21169 21238 37558;37559;37560 37558 0.030694564432451443 TYINPFVSF 9 Unmodified _TYINPFVSF_ 0 0 0 nc|ENSG00000113615|O95486-2|SEC24A;ENSG00000113615|ENST00000398844|SEC24A;nc|ENSG00000138802|O95487-2|SEC24B;ENSG00000138802|ENST00000265175|SEC24B;nc|ENSG00000138802|O95487-3|SEC24B nc|ENSG00000113615|O95486-2|SEC24A nc|ENSG00000113615|O95486-2|SEC24A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.2786254882812 2 544.276575 1086.5386 3.9581 0.0021543 -0.11205 -6.0984E-05 3.846 0.0020933 544.2765566133585 91.867 0.2892 92.119 91.908 92.197 0.25254 32 13 3 0 0 0 0.048676 1 42207 42207 47.749 33.843 1 568240 33354 1863 21170 21239 37561 37561 -0.0012106178828616976 TYINPFVSF 9 Unmodified _TYINPFVSF_ 0 0 0 nc|ENSG00000113615|O95486-2|SEC24A;ENSG00000113615|ENST00000398844|SEC24A;nc|ENSG00000138802|O95487-2|SEC24B;ENSG00000138802|ENST00000265175|SEC24B;nc|ENSG00000138802|O95487-3|SEC24B nc|ENSG00000113615|O95486-2|SEC24A nc|ENSG00000113615|O95486-2|SEC24A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.2777099609375 2 544.276575 1086.5386 NaN NaN NaN NaN NaN NaN NaN 91.946 1 92.198 91.698 92.698 0.25253 0 0 0 0.75166 1 42273 42273 10.824 2.9138 1 33355 1863 21170 21239 37562 37562 -0.0012106178828616976 TYINPFVSF 9 Unmodified _TYINPFVSF_ 0 0 0 nc|ENSG00000113615|O95486-2|SEC24A;ENSG00000113615|ENST00000398844|SEC24A;nc|ENSG00000138802|O95487-2|SEC24B;ENSG00000138802|ENST00000265175|SEC24B;nc|ENSG00000138802|O95487-3|SEC24B nc|ENSG00000113615|O95486-2|SEC24A nc|ENSG00000113615|O95486-2|SEC24A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.2780151367188 2 544.276575 1086.5386 3.6634 0.0019939 0.046426 2.5269E-05 3.7098 0.0020192 544.2762441940674 91.303 0.18832 91.965 91.896 92.084 0.66198 13 7 3 0 0 0 0.048676 1 42030 42030 47.749 35.217 1 467750 33356 1863 21170 21239 37563 37563 -0.0012106178828616976 TYIPVPAKI 9 Unmodified _TYIPVPAKI_ 0 0 0 ENSG00000008513|ENST00000522652|ST3GAL1 ENSG00000008513|ENST00000522652|ST3GAL1 ENSG00000008513|ENST00000522652|ST3GAL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.30657958984375 2 501.305136 1000.59572 3.1819 0.0015951 0.50851 0.00025492 3.6904 0.00185 501.30537166414797 57.772 0.17267 58.036 57.942 58.115 0.26444 11 9 2 0 0 0 0.19413 1 26464 26464 25.399 17.489 1 425500 33357 379 21171 21240 37564 37564 0.09544405488077246 TYIPVPAKI 9 Unmodified _TYIPVPAKI_ 0 0 0 ENSG00000008513|ENST00000522652|ST3GAL1 ENSG00000008513|ENST00000522652|ST3GAL1 ENSG00000008513|ENST00000522652|ST3GAL1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 501.305136 1000.59572 3.3038 0.0016562 0.842 0.0004221 4.1458 0.0020783 501.305858490717 57.224 0.13974 57.893 57.759 57.899 0.66829 -0.071762 0.00022085 NaN 25.399 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 423250 33358 379 21171 21240 0.09544405488077246 TYIQDAFQL 9 Unmodified _TYIQDAFQL_ 0 0 0 ENSG00000197712|ENST00000358869|FAM114A1;nc|ENSG00000197712|Q8IWE2-2|FAM114A1;ENST00000508737.1_1_4:38930819-38945175:+|nuORF ENSG00000197712|ENST00000358869|FAM114A1 ENSG00000197712|ENST00000358869|FAM114A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.7799682617188 2 549.776939 1097.53933 3.3719 0.0018538 0.28894 0.00015885 3.6608 0.0020126 549.7772338681266 79.077 0.18891 79.328 79.222 79.411 0.25127 22 13 2 0 0 0 0.26277 1 36395 36395 19.257 8.4331 1 303110 33359 5836 21172 21241 37565 37565 -0.005542671392504417 TYIQDAFQL 9 Unmodified _TYIQDAFQL_ 0 0 0 ENSG00000197712|ENST00000358869|FAM114A1;nc|ENSG00000197712|Q8IWE2-2|FAM114A1;ENST00000508737.1_1_4:38930819-38945175:+|nuORF ENSG00000197712|ENST00000358869|FAM114A1 ENSG00000197712|ENST00000358869|FAM114A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.7799072265625 2 549.776939 1097.53933 3.485 0.001916 0.17459 9.5985E-05 3.6596 0.002012 549.7775027502798 78.529 0.17761 79.191 79.101 79.279 0.66198 19 12 2 0 0 0 0.086415 1 36180 36180 36.127 20.28 1 482320 33360 5836 21172 21241 37566 37566 -0.005542671392504417 TYIQKIFRM 9 Unmodified _TYIQKIFRM_ 0 0 0 ENSG00000087008|ENST00000356406|ACOX3;nc|ENSG00000087008|O15254-2|ACOX3;ENST00000510365.5_1_4:8376552-8417570:-|nuORF ENSG00000087008|ENST00000356406|ACOX3 ENSG00000087008|ENST00000356406|ACOX3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 400.55975341796875 3 400.55836 1198.65325 2.4852 0.00099547 0.43277 0.00017335 2.918 0.0011688 400.5585642255329 55.889 0.25542 55.889 55.793 56.048 0 43 19 3 0 0 0 0.025323 1 25705 25705 47.594 42.697 1 2188100 33361 991 21173 21242 37567 37567 0.06186924421990625 TYIQKIFRM 9 Unmodified _TYIQKIFRM_ 0 0 0 ENSG00000087008|ENST00000356406|ACOX3;nc|ENSG00000087008|O15254-2|ACOX3;ENST00000510365.5_1_4:8376552-8417570:-|nuORF ENSG00000087008|ENST00000356406|ACOX3 ENSG00000087008|ENST00000356406|ACOX3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 600.3366088867188 2 600.333901 1198.65325 3.2481 0.0019499 -1.01 -0.00060637 2.238 0.0013436 600.3338835790804 55.895 0.23266 55.895 55.802 56.035 0 33 17 3 0 0 0 0.011692 1 25732 25732 79.596 51.109 1 1016600 33362 991 21173 21242 37568 37568 0.06186924421990625 TYIQKIFRM 9 Unmodified _TYIQKIFRM_ 0 0 0 ENSG00000087008|ENST00000356406|ACOX3;nc|ENSG00000087008|O15254-2|ACOX3;ENST00000510365.5_1_4:8376552-8417570:-|nuORF ENSG00000087008|ENST00000356406|ACOX3 ENSG00000087008|ENST00000356406|ACOX3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 600.33642578125 2 600.333901 1198.65325 3.0799 0.001849 0.39957 0.00023988 3.4795 0.0020888 600.3346050628855 54.752 0.14798 55.548 55.44 55.588 0.79552 10 8 2 0 0 0 0.023321 1 24995 24995 63.961 35.474 1 976380 33363 991 21173 21242 37569 37569 0.06186924421990625 TYIQKIFRM 9 Unmodified _TYIQKIFRM_ 0 0 0 ENSG00000087008|ENST00000356406|ACOX3;nc|ENSG00000087008|O15254-2|ACOX3;ENST00000510365.5_1_4:8376552-8417570:-|nuORF ENSG00000087008|ENST00000356406|ACOX3 ENSG00000087008|ENST00000356406|ACOX3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 400.5591125488281 3 400.55836 1198.65325 2.2559 0.00090362 -0.24567 -9.8405E-05 2.0102 0.00080521 400.5583137821026 54.768 0.28492 55.564 55.39 55.675 0.79552 39 16 3 0 0 0 0.038142 1 25004 25004 47.594 36.795 1 2088800 33364 991 21173 21242 37570 37570 0.06186924421990625 TYIQKIFRM 9 Unmodified _TYIQKIFRM_ 0 0 0 ENSG00000087008|ENST00000356406|ACOX3;nc|ENSG00000087008|O15254-2|ACOX3;ENST00000510365.5_1_4:8376552-8417570:-|nuORF ENSG00000087008|ENST00000356406|ACOX3 ENSG00000087008|ENST00000356406|ACOX3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 600.33544921875 2 600.333901 1198.65325 3.9254 0.0023566 -0.33141 -0.00019896 3.594 0.0021576 600.3337367185394 55.151 0.26344 55.819 55.659 55.922 0.66798 14 9 2 0 0 0 0.063575 1 25230 25230 41.84 29.308 1 353100 33365 991 21173 21242 37571 37571 0.06186924421990625 TYIRQLESK 9 Unmodified _TYIRQLESK_ 0 0 0 ENSG00000205476|ENST00000380243|CCDC85C ENSG00000205476|ENST00000380243|CCDC85C ENSG00000205476|ENST00000380243|CCDC85C MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.5665283203125 3 379.880267 1136.61897 2.5774 0.00097911 0.12244 4.6513E-05 2.6999 0.0010256 379.8801160590568 30.41 0.21471 31.199 31.07 31.284 0.78921 31 17 2 0 0 0 0.1077 1 13725 13725 7.609 2.7119 1 181620 33366 6050 21174 21243 37572 37572 0.056127995347424076 TYISWKEEL 9 Unmodified _TYISWKEEL_ 0 0 0 nc|ENSG00000129003|Q709C8-4|VPS13C;nc|ENSG00000129003|Q709C8-2|VPS13C;nc|ENSG00000129003|Q709C8-3|VPS13C;ENSG00000129003|ENST00000644861|VPS13C nc|ENSG00000129003|Q709C8-4|VPS13C nc|ENSG00000129003|Q709C8-4|VPS13C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.8013305664062 2 584.797872 1167.58119 NaN NaN NaN NaN NaN NaN NaN 58.927 1 58.927 58.427 59.427 0 0 0 0 0.063391 1 27217 27217 49.554 25.765 1 33367 2535 21175 21244 37573 37573 0.004102885493011854 TYISWKEEL 9 Unmodified _TYISWKEEL_ 0 0 0 nc|ENSG00000129003|Q709C8-4|VPS13C;nc|ENSG00000129003|Q709C8-2|VPS13C;nc|ENSG00000129003|Q709C8-3|VPS13C;ENSG00000129003|ENST00000644861|VPS13C nc|ENSG00000129003|Q709C8-4|VPS13C nc|ENSG00000129003|Q709C8-4|VPS13C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.799560546875 2 584.797872 1167.58119 NaN NaN NaN NaN NaN NaN NaN 59.03 1 59.03 58.53 59.53 0 0 0 0 0.0044088 1 27274 27274 93.166 25.085 1 33368 2535 21175 21244 37574 37574 0.004102885493011854 TYISWKEEL 9 Unmodified _TYISWKEEL_ 0 0 0 nc|ENSG00000129003|Q709C8-4|VPS13C;nc|ENSG00000129003|Q709C8-2|VPS13C;nc|ENSG00000129003|Q709C8-3|VPS13C;ENSG00000129003|ENST00000644861|VPS13C nc|ENSG00000129003|Q709C8-4|VPS13C nc|ENSG00000129003|Q709C8-4|VPS13C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.7993774414062 2 584.797872 1167.58119 3.4551 0.0020205 0.059408 3.4742E-05 3.5145 0.0020553 584.7977096242792 58.76 0.2789 59.023 58.937 59.216 0.26227 42 19 3 0 0 0 0.0023958 2 26907 26907;26955 100.09 68.822 1 3154300 33369 2535 21175 21244 37575;37576 37575 0.004102885493011854 TYISWKEEL 9 Unmodified _TYISWKEEL_ 0 0 0 nc|ENSG00000129003|Q709C8-4|VPS13C;nc|ENSG00000129003|Q709C8-2|VPS13C;nc|ENSG00000129003|Q709C8-3|VPS13C;ENSG00000129003|ENST00000644861|VPS13C nc|ENSG00000129003|Q709C8-4|VPS13C nc|ENSG00000129003|Q709C8-4|VPS13C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.79931640625 2 584.797872 1167.58119 NaN NaN NaN NaN NaN NaN NaN 58.278 1 58.945 58.445 59.445 0.66703 0 0 0 0.00016887 1 26676 26676 103.42 35.339 1 33370 2535 21175 21244 37577 37577 0.004102885493011854 TYITSVSRL 9 Unmodified _TYITSVSRL_ 0 0 0 nc|ENSG00000164823|Q9Y236|OSGIN2;ENSG00000164823|ENST00000451899|OSGIN2 nc|ENSG00000164823|Q9Y236|OSGIN2 nc|ENSG00000164823|Q9Y236|OSGIN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.2951049804688 2 520.292756 1038.57096 2.9749 0.0015478 0.62411 0.00032472 3.599 0.0018726 520.2931736910497 47.478 0.22087 47.478 47.351 47.572 0 22 12 2 0 0 0 0.035495 1 21749 21749 53.404 20.618 1 1281300 33371 4347 21176 21245 37578 37578 0.053217256147036096 TYITSVSRL 9 Unmodified _TYITSVSRL_ 0 0 0 nc|ENSG00000164823|Q9Y236|OSGIN2;ENSG00000164823|ENST00000451899|OSGIN2 nc|ENSG00000164823|Q9Y236|OSGIN2 nc|ENSG00000164823|Q9Y236|OSGIN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.2962646484375 2 520.292756 1038.57096 3.3696 0.0017532 0.38886 0.00020232 3.7584 0.0019555 520.2934308307564 46.35 0.31104 47.179 46.99 47.301 0.82915 26 16 2 0 0 0 0.057456 1 21100 21100 43.982 21.246 1 1314000 33372 4347 21176 21245 37579 37579 0.053217256147036096 TYITSVSRL 9 Unmodified _TYITSVSRL_ 0 0 0 nc|ENSG00000164823|Q9Y236|OSGIN2;ENSG00000164823|ENST00000451899|OSGIN2 nc|ENSG00000164823|Q9Y236|OSGIN2 nc|ENSG00000164823|Q9Y236|OSGIN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.2946166992188 2 520.292756 1038.57096 NaN NaN NaN NaN NaN NaN NaN 47.311 1 47.574 47.074 48.074 0.26363 0 0 0 0.06994 1 21620 21620 47.594 15.289 1 33373 4347 21176 21245 37580 37580 0.053217256147036096 TYITSVSRL 9 Unmodified _TYITSVSRL_ 0 0 0 nc|ENSG00000164823|Q9Y236|OSGIN2;ENSG00000164823|ENST00000451899|OSGIN2 nc|ENSG00000164823|Q9Y236|OSGIN2 nc|ENSG00000164823|Q9Y236|OSGIN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.2953491210938 2 520.292756 1038.57096 3.4426 0.0017912 3.0661 0.0015953 6.5087 0.0033864 520.2931915793122 46.727 0.3112 47.379 47.226 47.537 0.65219 23 9 3 0 0 0 0.049036 1 21424 21424 47.594 15.289 1 678620 33374 4347 21176 21245 37581 37581 0.053217256147036096 TYIWIILK 8 Unmodified _TYIWIILK_ 0 0 0 ENSG00000183185|ENST00000472788|GABRR3 ENSG00000183185|ENST00000472788|GABRR3 ENSG00000183185|ENST00000472788|GABRR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.3248901367188 2 525.323328 1048.6321 3.5126 0.0018452 -0.54048 -0.00028393 2.9721 0.0015613 525.3236748972112 32.865 0.21347 33.119 33.018 33.232 0.25389 14 8 2 0 0 0 0.51067 1 14981 14981 19.439 0 1 232500 33375 5368 21177 21246 37582 37582 0.10973282384793492 TYIWIILK 8 Unmodified _TYIWIILK_ 0 0 0 ENSG00000183185|ENST00000472788|GABRR3 ENSG00000183185|ENST00000472788|GABRR3 ENSG00000183185|ENST00000472788|GABRR3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.0557250976562 2 525.323328 1048.6321 3.2465 0.0017055 -2.2618 -0.0011882 0.9847 0.00051729 525.3225471012512 32.329 0.2215 32.947 32.77 32.991 0.61831 17 12 2 0 0 0 0.12327 1 14836 14836 19.439 5.9311 1 257870 33376 5368 21177 21246 37583 37583 0.10973282384793492 TYKDYVDLF 9 Unmodified _TYKDYVDLF_ 0 0 0 nc|ENSG00000253729|P78527-2|PRKDC;ENSG00000253729|ENST00000314191|PRKDC nc|ENSG00000253729|P78527-2|PRKDC nc|ENSG00000253729|P78527-2|PRKDC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.797119140625 2 582.284597 1162.55464 NaN NaN NaN NaN NaN NaN NaN 68.798 1 69.053 68.553 69.553 0.25443 0 0 0 0.87786 1 31516 31516 6.7232 1.4925 1 33377 6272 21178 21247 37584 37584 -0.02013400342048044 TYKEPNLL 8 Unmodified _TYKEPNLL_ 0 0 0 REV__ENSG00000162607|ENST00000339950|USP1 REV__ENSG00000162607|ENST00000339950|USP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.2690124511719 2 489.26875 976.522947 3.3067 0.0016179 -0.77231 -0.00037787 2.5344 0.00124 489.26841978737707 31.746 0.23576 31.746 31.615 31.851 0 38 21 3 0 0 0 0.47217 1 14352 14352 23.148 1.4018 1 554030 + 33378 12946 21179 21248 37585 37585 0.03374651694673503 TYKEPNLL 8 Unmodified _TYKEPNLL_ 0 0 0 REV__ENSG00000162607|ENST00000339950|USP1 REV__ENSG00000162607|ENST00000339950|USP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.27020263671875 2 489.26875 976.522947 3.5855 0.0017543 -0.019248 -9.4176E-06 3.5662 0.0017448 489.26867678959553 31.674 0.52255 31.929 31.648 32.171 0.25452 131 40 4 0 0 0 0.05432 1 14461 14461 64.236 8.0593 1 6148400 + 33379 12946 21179 21248 37586 37586 0.03374651694673503 TYKNFFYLI 9 Unmodified _TYKNFFYLI_ 0 0 0 ENSG00000011405|ENST00000691414|PIK3C2A ENSG00000011405|ENST00000691414|PIK3C2A ENSG00000011405|ENST00000691414|PIK3C2A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 605.29296875 2 604.82115 1207.62775 3.6475 0.0022061 0.20296 0.00012276 3.8505 0.0023289 605.3228351161752 84.314 0.31095 84.561 84.416 84.727 0.24758 35 17 3 0 0 0 0.026234 1 38793 38793 43.772 17.504 1 511240 33380 414 21180 21249 37587 37587 0.032237731712484674 TYKNFFYLI 9 Unmodified _TYKNFFYLI_ 0 0 0 ENSG00000011405|ENST00000691414|PIK3C2A ENSG00000011405|ENST00000691414|PIK3C2A ENSG00000011405|ENST00000691414|PIK3C2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 604.8244018554688 2 604.82115 1207.62775 3.9236 0.0023731 -0.61538 -0.0003722 3.3082 0.0020009 604.8206454286259 83.765 0.24709 84.428 84.328 84.575 0.66219 25 16 2 0 0 0 0.023321 1 38589 38589 63.961 24.011 1 749030 33381 414 21180 21249 37588 37588 0.032237731712484674 TYKRRRLRAPA 11 Unmodified _TYKRRRLRAPA_ 0 0 0 CON__P19013 CON__P19013 CON__P19013 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.2869873046875 3 463.284621 1386.83203 3.0364 0.0014067 -0.32034 -0.00014841 2.7161 0.0012583 463.28472184307657 94.94 1.0148 95.558 94.852 95.867 0.61737 86 55 3 0 0 0 0.91378 1 43547 43547 0.094841 0 1 872540 + 33382 220 21181 21250 37589 37589 0.15409150105119807 TYKVISNEF 9 Unmodified _TYKVISNEF_ 0 0 0 nc|ENSG00000114062|Q05086-2|UBE3A;ENSG00000114062|ENST00000648336|UBE3A;nc|ENSG00000114062|Q05086|UBE3A;ENST00000429033.1_1_21:32434669-32435362:-|nuORF nc|ENSG00000114062|Q05086-2|UBE3A nc|ENSG00000114062|Q05086-2|UBE3A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.7465209960938 2 550.784764 1099.55498 3.4738 0.0019133 1.0012 0.00055144 4.475 0.0024648 551.2864583188027 45.924 0.22149 45.924 45.79 46.012 0 23 11 3 0 0 0 0.073073 1 20969 20969 19.362 10.769 1 1084300 33383 1888 21182 21251 37590 37590 0.009180193778092871 TYKVISNEF 9 Unmodified _TYKVISNEF_ 0 0 0 nc|ENSG00000114062|Q05086-2|UBE3A;ENSG00000114062|ENST00000648336|UBE3A;nc|ENSG00000114062|Q05086|UBE3A;ENST00000429033.1_1_21:32434669-32435362:-|nuORF nc|ENSG00000114062|Q05086-2|UBE3A nc|ENSG00000114062|Q05086-2|UBE3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.7866821289062 2 550.784764 1099.55498 3.183 0.0017531 -0.011813 -6.5067E-06 3.1711 0.0017466 550.7851527370492 44.791 0.34241 45.611 45.467 45.809 0.82074 41 15 4 0 0 0 0.013715 2 20392 20392;20448 76.825 49.196 1 1026500 33384 1888 21182 21251 37591;37592 37591 0.009180193778092871 TYKVISNEF 9 Unmodified _TYKVISNEF_ 0 0 0 nc|ENSG00000114062|Q05086-2|UBE3A;ENSG00000114062|ENST00000648336|UBE3A;nc|ENSG00000114062|Q05086|UBE3A;ENST00000429033.1_1_21:32434669-32435362:-|nuORF nc|ENSG00000114062|Q05086-2|UBE3A nc|ENSG00000114062|Q05086-2|UBE3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.7857666015625 2 550.784764 1099.55498 3.4964 0.0019258 -0.48426 -0.00026672 3.0121 0.001659 550.7844851995113 45.79 0.32216 46.056 45.91 46.232 0.26561 23 12 3 0 0 0 0.04013 2 20909 20909;20966 51.415 38.373 1 1213100 33385 1888 21182 21251 37593;37594 37593 0.009180193778092871 TYKVISNEF 9 Unmodified _TYKVISNEF_ 0 0 0 nc|ENSG00000114062|Q05086-2|UBE3A;ENSG00000114062|ENST00000648336|UBE3A;nc|ENSG00000114062|Q05086|UBE3A;ENST00000429033.1_1_21:32434669-32435362:-|nuORF nc|ENSG00000114062|Q05086-2|UBE3A nc|ENSG00000114062|Q05086-2|UBE3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.7866821289062 2 550.784764 1099.55498 3.7394 0.0020596 0.012362 6.8087E-06 3.7517 0.0020664 550.7846799302725 45.172 0.3638 45.823 45.661 46.025 0.65104 27 13 3 0 0 0 0.044468 2 20683 20683;20738 49.554 29.101 1 781330 33386 1888 21182 21251 37595;37596 37595 0.009180193778092871 TYKWNTRIET 10 Unmodified _TYKWNTRIET_ 0 0 0 ENSG00000221855|ENST00000408916|TAS2R41 ENSG00000221855|ENST00000408916|TAS2R41 ENSG00000221855|ENST00000408916|TAS2R41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.8961181640625 3 437.894577 1310.6619 2.863 0.0012537 0.065723 2.878E-05 2.9287 0.0012825 437.8948276435752 36.246 0.30386 36.504 36.37 36.673 0.25768 32 11 4 0 0 0 0.82036 2 16519 16519;16580 7.4771 0.12547 1 369300 33387 6148 21183 21252 37597;37598 37597 0.018995695921830702 TYKWNTRIET 10 Unmodified _TYKWNTRIET_ 0 0 0 ENSG00000221855|ENST00000408916|TAS2R41 ENSG00000221855|ENST00000408916|TAS2R41 ENSG00000221855|ENST00000408916|TAS2R41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 438.2292785644531 3 437.894577 1310.6619 3.1615 0.0013844 -0.0048724 -2.1336E-06 3.1566 0.0013822 437.894843189904 35.762 0.23659 36.388 36.255 36.491 0.62631 22 9 3 0 0 0 0.78321 1 16372 16372 9.2438 0.79947 1 560700 33388 6148 21183 21252 37599 37599 0.018995695921830702 TYKWNTRIET 10 Unmodified _TYKWNTRIET_ 0 0 0 ENSG00000221855|ENST00000408916|TAS2R41 ENSG00000221855|ENST00000408916|TAS2R41 ENSG00000221855|ENST00000408916|TAS2R41 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 437.894577 1310.6619 2.8436 0.0012452 0.47297 0.00020711 3.3166 0.0014523 437.89499005452495 36.267 0.23014 36.267 36.117 36.347 0 -0.013235 0.00027792 NaN 9.2438 23 9 4 NaN NaN NaN NaN 0 NaN NaN 0 613410 33389 6148 21183 21252 0.018995695921830702 TYKWNTRIET 10 Unmodified _TYKWNTRIET_ 0 0 0 ENSG00000221855|ENST00000408916|TAS2R41 ENSG00000221855|ENST00000408916|TAS2R41 ENSG00000221855|ENST00000408916|TAS2R41 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 437.894577 1310.6619 2.8136 0.001232 0.29205 0.00012789 3.1056 0.0013599 437.8946776948128 35.171 0.27194 35.963 35.784 36.056 0.79131 -0.3178 4.0247E-05 NaN 9.2438 23 15 2 NaN NaN NaN NaN 0 NaN NaN 0 502970 33390 6148 21183 21252 0.018995695921830702 TYKWNTRIET 10 Unmodified _TYKWNTRIET_ 0 0 0 ENSG00000221855|ENST00000408916|TAS2R41 ENSG00000221855|ENST00000408916|TAS2R41 ENSG00000221855|ENST00000408916|TAS2R41 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 437.894577 1310.6619 3.1615 0.0013844 -0.0048724 -2.1336E-06 3.1566 0.0013822 437.894843189904 35.762 0.23659 36.388 36.255 36.491 0.62631 0.10774 -0.00034982 NaN 9.2438 22 9 3 NaN NaN NaN NaN 0 NaN NaN 0 560700 33391 6148 21183 21252 0.018995695921830702 TYLDKVENI 9 Unmodified _TYLDKVENI_ 0 0 0 ENSG00000185745|ENST00000371804|IFIT1;nc|ENSG00000185745|P09914-2|IFIT1;IFIT1|p.D345Cfs*2|1|0.12|ENSG00000185745|chr10:89403304-89403305|-/TTGTG|frameshift_variant ENSG00000185745|ENST00000371804|IFIT1 ENSG00000185745|ENST00000371804|IFIT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.7923583984375 2 547.790047 1093.56554 3.5483 0.0019437 -0.0045708 -2.5038E-06 3.5437 0.0019412 547.7900788510649 49.898 0.22606 50.16 50.051 50.277 0.26146 12 7 2 0 0 0 0.0076144 1 22809 22809 86.332 32.499 1 438810 33392 5529 21184 21253 37600 37600 0.022500020322468117 TYLDKVENI 9 Unmodified _TYLDKVENI_ 0 0 0 ENSG00000185745|ENST00000371804|IFIT1;nc|ENSG00000185745|P09914-2|IFIT1;IFIT1|p.D345Cfs*2|1|0.12|ENSG00000185745|chr10:89403304-89403305|-/TTGTG|frameshift_variant ENSG00000185745|ENST00000371804|IFIT1 ENSG00000185745|ENST00000371804|IFIT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.79150390625 2 547.790047 1093.56554 3.5956 0.0019696 0.032712 1.7919E-05 3.6283 0.0019875 547.789645619508 49.395 0.1931 50.05 49.915 50.109 0.65524 12 6 2 0 0 0 0.0020727 1 22577 22577 103.42 43.346 1 516710 33393 5529 21184 21253 37601 37601 0.022500020322468117 TYLDKVENI 9 Unmodified _TYLDKVENI_ 0 0 0 ENSG00000185745|ENST00000371804|IFIT1;nc|ENSG00000185745|P09914-2|IFIT1;IFIT1|p.D345Cfs*2|1|0.12|ENSG00000185745|chr10:89403304-89403305|-/TTGTG|frameshift_variant ENSG00000185745|ENST00000371804|IFIT1 ENSG00000185745|ENST00000371804|IFIT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 547.790047 1093.56554 3.6051 0.0019749 -0.31484 -0.00017247 3.2903 0.0018024 547.7900377785551 49.997 0.24185 49.997 49.849 50.091 0 0.0020426 -0.00027709 NaN 103.42 19 11 2 NaN NaN NaN NaN 0 NaN NaN 0 534930 33394 5529 21184 21253 0.022500020322468117 TYLDKVENI 9 Unmodified _TYLDKVENI_ 0 0 0 ENSG00000185745|ENST00000371804|IFIT1;nc|ENSG00000185745|P09914-2|IFIT1;IFIT1|p.D345Cfs*2|1|0.12|ENSG00000185745|chr10:89403304-89403305|-/TTGTG|frameshift_variant ENSG00000185745|ENST00000371804|IFIT1 ENSG00000185745|ENST00000371804|IFIT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 547.790047 1093.56554 3.2576 0.0017845 -0.14528 -7.9581E-05 3.1124 0.0017049 547.7899255872978 48.947 0.23095 49.774 49.662 49.893 0.82705 -0.2214 -9.1318E-05 NaN 103.42 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 328600 33395 5529 21184 21253 0.022500020322468117 TYLEAHRIVKM 11 Unmodified _TYLEAHRIVKM_ 0 0 0 ENSG00000166508|ENST00000303887|MCM7;nc|ENSG00000166508|P33993-2|MCM7;nc|ENSG00000166508|P33993-3|MCM7 ENSG00000166508|ENST00000303887|MCM7 ENSG00000166508|ENST00000303887|MCM7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.5875549316406 3 454.251707 1359.73329 2.8207 0.0012813 -0.012479 -5.6687E-06 2.8082 0.0012757 454.58592390341875 31.228 0.17933 32.017 31.927 32.106 0.78879 20 14 2 0 0 0 0.64896 1 14112 14112 13.535 10.215 1 299890 33396 4491 21185 21254 37602 37602 0.06781366025188618 TYLEAHRIVKM 11 Unmodified _TYLEAHRIVKM_ 0 0 0 ENSG00000166508|ENST00000303887|MCM7;nc|ENSG00000166508|P33993-2|MCM7;nc|ENSG00000166508|P33993-3|MCM7 ENSG00000166508|ENST00000303887|MCM7 ENSG00000166508|ENST00000303887|MCM7 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 454.251707 1359.73329 3.1515 0.0014316 1.1717 0.00053223 4.3232 0.0019638 454.2519606782229 32.044 0.15362 32.299 32.21 32.364 0.25452 0.14089 0.00097532 NaN 13.535 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 135870 33397 4491 21185 21254 0.06781366025188618 TYLEDRPMF 9 Unmodified _TYLEDRPMF_ 0 0 0 ENSG00000134013|ENST00000389131|LOXL2 ENSG00000134013|ENST00000389131|LOXL2 ENSG00000134013|ENST00000389131|LOXL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 586.2804565429688 2 586.276249 1170.53795 2.943 0.0017254 0.17936 0.00010516 3.1223 0.0018305 586.2763310219183 55.37 0.29365 56.157 55.939 56.233 0.78711 42 24 2 0 0 0 0.02812 1 25236 25236 57.722 42.474 1 871650 33398 2781 21186 21255 37603 37603 -0.040502244996559966 TYLEDRPMF 9 Unmodified _TYLEDRPMF_ 0 0 0 ENSG00000134013|ENST00000389131|LOXL2 ENSG00000134013|ENST00000389131|LOXL2 ENSG00000134013|ENST00000389131|LOXL2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 586.276249 1170.53795 3.4856 0.0020435 -0.55754 -0.00032687 2.9281 0.0017167 586.2760364419426 56.328 0.18461 56.328 56.248 56.432 0 0.0063217 -0.00077335 NaN 57.722 25 15 2 NaN NaN NaN NaN 0 NaN NaN 0 1182900 33399 2781 21186 21255 -0.040502244996559966 TYLEDRPMF 9 Unmodified _TYLEDRPMF_ 0 0 0 ENSG00000134013|ENST00000389131|LOXL2 ENSG00000134013|ENST00000389131|LOXL2 ENSG00000134013|ENST00000389131|LOXL2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 586.276249 1170.53795 3.4303 0.0020111 0.47992 0.00028136 3.9102 0.0022925 586.2767047234787 56.215 0.13696 56.48 56.431 56.568 0.26543 0.15843 0.00044312 NaN 57.722 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 308100 33400 2781 21186 21255 -0.040502244996559966 TYLEGECLELL 11 Carbamidomethyl (C) _TYLEGEC(Carbamidomethyl (C))LELL_ TYLEGEC(1)LELL TYLEGEC(54)LELL 0 1 0 nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;ENST00000484704.5_1_6:29691969-29693843:+|nuORF;nc|ENSG00000204642|P30511-2|HLA-F nc|ENSG00000204642|P30511|HLA-F nc|ENSG00000204642|P30511|HLA-F MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 670.3312377929688 2 670.326136 1338.63772 3.7798 0.0025337 0.38467 0.00025785 4.1645 0.0027916 670.3259023480302 84.22 0.20085 84.468 84.333 84.534 0.24758 12 9 2 0 0 0 0.037117 1 38754 38754 53.833 17.327 1 417670 33401 6028 21187 21256 37604 37604 99 -0.01805451676341363 TYLEKAIKI 9 Unmodified _TYLEKAIKI_ 0 0 0 ENST00000565455.5_1_16:8987857-9023250:-|nuORF;nc|ENSG00000187555|Q93009-3|USP7;ENSG00000187555|ENST00000344836|USP7 ENST00000565455.5_1_16:8987857-9023250:-|nuORF ENST00000565455.5_1_16:8987857-9023250:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.8306884765625 2 539.828975 1077.6434 3.1855 0.0017196 0.071968 3.885E-05 3.2574 0.0017585 539.8290178912652 45.157 0.3364 45.157 44.993 45.33 0 48 18 3 0 0 0 0.0014285 2 20617 20617;20666 110.79 28.263 1 9228900 33402 5622 21188 21257 37605;37606 37605 0.10768059688280118 TYLEKAIKI 9 Unmodified _TYLEKAIKI_ 0 0 0 ENST00000565455.5_1_16:8987857-9023250:-|nuORF;nc|ENSG00000187555|Q93009-3|USP7;ENSG00000187555|ENST00000344836|USP7 ENST00000565455.5_1_16:8987857-9023250:-|nuORF ENST00000565455.5_1_16:8987857-9023250:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 360.22265625 3 360.221742 1077.6434 2.5555 0.00092056 0.11161 4.0206E-05 2.6671 0.00096076 360.2217827611737 45.133 0.35975 45.133 44.97 45.33 0 63 19 4 0 0 0 0.093314 1 20684 20684 32.037 11.457 1 10220000 33403 5622 21188 21257 37607 37607 0.10768059688280118 TYLEKAIKI 9 Unmodified _TYLEKAIKI_ 0 0 0 ENST00000565455.5_1_16:8987857-9023250:-|nuORF;nc|ENSG00000187555|Q93009-3|USP7;ENSG00000187555|ENST00000344836|USP7 ENST00000565455.5_1_16:8987857-9023250:-|nuORF ENST00000565455.5_1_16:8987857-9023250:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.8302001953125 2 539.828975 1077.6434 2.9886 0.0016133 -0.10256 -5.5363E-05 2.886 0.001558 539.8288974693959 43.95 0.3796 44.771 44.635 45.015 0.82075 77 25 4 0 0 0 0.0012877 3 19976 19976;20033;20081 121.35 42.618 1 10435000 33404 5622 21188 21257 37608;37609;37610 37608 0.10768059688280118 TYLEKAIKI 9 Unmodified _TYLEKAIKI_ 0 0 0 ENST00000565455.5_1_16:8987857-9023250:-|nuORF;nc|ENSG00000187555|Q93009-3|USP7;ENSG00000187555|ENST00000344836|USP7 ENST00000565455.5_1_16:8987857-9023250:-|nuORF ENST00000565455.5_1_16:8987857-9023250:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 360.22271728515625 3 360.221742 1077.6434 2.2706 0.00081791 0.16876 6.0789E-05 2.4393 0.00087869 360.221775589287 43.975 0.41881 44.796 44.596 45.015 0.82075 92 28 4 0 0 0 0.093314 2 19990 19990;20039 45.74 25.159 1 15420000 33405 5622 21188 21257 37611;37612 37611 0.10768059688280118 TYLEKAIKI 9 Unmodified _TYLEKAIKI_ 0 0 0 ENST00000565455.5_1_16:8987857-9023250:-|nuORF;nc|ENSG00000187555|Q93009-3|USP7;ENSG00000187555|ENST00000344836|USP7 ENST00000565455.5_1_16:8987857-9023250:-|nuORF ENST00000565455.5_1_16:8987857-9023250:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.8309936523438 2 539.828975 1077.6434 3.0491 0.001646 0.02459 1.3274E-05 3.0737 0.0016593 539.8290740002487 45.022 0.36361 45.289 45.101 45.465 0.26768 54 17 4 0 0 0 0.0020335 2 20604 20559;20604 103.82 49.079 1 3786900 33406 5622 21188 21257 37613;37614 37614 0.10768059688280118 TYLEKAIKI 9 Unmodified _TYLEKAIKI_ 0 0 0 ENST00000565455.5_1_16:8987857-9023250:-|nuORF;nc|ENSG00000187555|Q93009-3|USP7;ENSG00000187555|ENST00000344836|USP7 ENST00000565455.5_1_16:8987857-9023250:-|nuORF ENST00000565455.5_1_16:8987857-9023250:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.5025634765625 3 360.221742 1077.6434 2.4564 0.00088486 0.66304 0.00023884 3.1195 0.0011237 360.2220100056079 45.013 0.38002 45.281 45.085 45.465 0.26768 57 18 4 0 0 0 0.076365 1 20643 20643 10.8 5.9025 1 5623800 33407 5622 21188 21257 37615 37615 0.10768059688280118 TYLEKAIKI 9 Unmodified _TYLEKAIKI_ 0 0 0 ENST00000565455.5_1_16:8987857-9023250:-|nuORF;nc|ENSG00000187555|Q93009-3|USP7;ENSG00000187555|ENST00000344836|USP7 ENST00000565455.5_1_16:8987857-9023250:-|nuORF ENST00000565455.5_1_16:8987857-9023250:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.8302612304688 2 539.828975 1077.6434 3.4997 0.0018892 -0.20541 -0.00011089 3.2943 0.0017784 539.8289246607235 44.337 0.41752 44.987 44.805 45.223 0.64998 50 19 4 0 0 0 0.0017155 2 20286 20286;20346 107.1 55.47 1 3389900 33408 5622 21188 21257 37616;37617 37616 0.10768059688280118 TYLEKAIKI 9 Unmodified _TYLEKAIKI_ 0 0 0 ENST00000565455.5_1_16:8987857-9023250:-|nuORF;nc|ENSG00000187555|Q93009-3|USP7;ENSG00000187555|ENST00000344836|USP7 ENST00000565455.5_1_16:8987857-9023250:-|nuORF ENST00000565455.5_1_16:8987857-9023250:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.5025939941406 3 360.221742 1077.6434 2.6893 0.00096875 1.0153 0.00036575 3.7047 0.0013345 360.22231452239896 44.328 0.39148 44.978 44.805 45.197 0.64998 49 18 4 0 0 0 0.10218 1 20382 20382 4.1895 0.60244 1 4204100 33409 5622 21188 21257 37618 37618 0.10768059688280118 TYLEKFQNL 9 Unmodified _TYLEKFQNL_ 0 0 0 ENSG00000103351|ENST00000576634|CLUAP1;nc|ENSG00000103351|Q96AJ1-2|CLUAP1;ENST00000572632.1_1_16:3569992-3580585:+|nuORF ENSG00000103351|ENST00000576634|CLUAP1 ENSG00000103351|ENST00000576634|CLUAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.3092651367188 2 578.305864 1154.59717 3.4967 0.0020222 0.98327 0.00056863 4.48 0.0025908 578.3067045313185 55.833 0.2108 55.833 55.749 55.96 0 29 16 2 0 0 0 2.9434E-05 1 25677 25677 140.63 70.301 1 2768000 33410 1392 21189 21258 37619 37619 0.026059947862222543 TYLEKFQNL 9 Unmodified _TYLEKFQNL_ 0 0 0 ENSG00000103351|ENST00000576634|CLUAP1;nc|ENSG00000103351|Q96AJ1-2|CLUAP1;ENST00000572632.1_1_16:3569992-3580585:+|nuORF ENSG00000103351|ENST00000576634|CLUAP1 ENSG00000103351|ENST00000576634|CLUAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.3070068359375 2 578.305864 1154.59717 2.9923 0.0017305 -0.29572 -0.00017101 2.6966 0.0015595 578.3058494807292 54.724 0.29198 55.52 55.36 55.652 0.79552 33 17 3 0 0 0 1.3294E-08 1 24965 24965 152.89 86.429 1 1926600 33411 1392 21189 21258 37620 37620 0.026059947862222543 TYLEKFQNL 9 Unmodified _TYLEKFQNL_ 0 0 0 ENSG00000103351|ENST00000576634|CLUAP1;nc|ENSG00000103351|Q96AJ1-2|CLUAP1;ENST00000572632.1_1_16:3569992-3580585:+|nuORF ENSG00000103351|ENST00000576634|CLUAP1 ENSG00000103351|ENST00000576634|CLUAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.3067016601562 2 578.305864 1154.59717 3.2209 0.0018627 -0.11512 -6.6572E-05 3.1058 0.0017961 578.3058452581429 55.853 0.24802 56.118 55.999 56.247 0.26543 15 9 2 0 0 0 1.3294E-08 2 25538 25538;25591 152.89 82.554 1 1770700 33412 1392 21189 21258 37621;37622 37621 0.026059947862222543 TYLEKFQNL 9 Unmodified _TYLEKFQNL_ 0 0 0 ENSG00000103351|ENST00000576634|CLUAP1;nc|ENSG00000103351|Q96AJ1-2|CLUAP1;ENST00000572632.1_1_16:3569992-3580585:+|nuORF ENSG00000103351|ENST00000576634|CLUAP1 ENSG00000103351|ENST00000576634|CLUAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.3086547851562 2 578.305864 1154.59717 3.6397 0.0021049 0.82156 0.00047511 4.4613 0.00258 578.3063386921921 55.102 0.3391 55.77 55.609 55.948 0.66798 30 13 3 0 0 0 4.0686E-09 2 25192 25192;25252 160.52 88.594 1 1541000 33413 1392 21189 21258 37623;37624 37623 0.026059947862222543 TYLEKSMVL 9 Unmodified _TYLEKSMVL_ 0 0 0 ENSG00000149256|ENST00000278550|TENM4;ENSG00000218336|ENST00000511685|TENM3 ENSG00000149256|ENST00000278550|TENM4 ENSG00000149256|ENST00000278550|TENM4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.2928466796875 2 542.291368 1082.56818 2.7735 0.0015041 0.17528 9.5051E-05 2.9488 0.0015991 542.2914790542015 52.4 0.17247 53.21 53.123 53.295 0.81065 20 11 2 0 0 0 0.030603 1 23897 23897 55.503 18.997 1 572070 33414 3634 21190 21259 37625 37625 0.030201341655583747 TYLEKSMVL 9 Unmodified _TYLEKSMVL_ 0 0 0 ENSG00000149256|ENST00000278550|TENM4;ENSG00000218336|ENST00000511685|TENM3 ENSG00000149256|ENST00000278550|TENM4 ENSG00000149256|ENST00000278550|TENM4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 542.291368 1082.56818 3.6876 0.0019998 -1.8745 -0.0010165 1.8131 0.00098321 542.2899397691375 53.493 0.14532 53.493 53.417 53.562 0 0.14112 -0.0016113 NaN 55.503 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 1074400 33415 3634 21190 21259 0.030201341655583747 TYLMKHMSK 9 Unmodified _TYLMKHMSK_ 0 0 0 ENSG00000160094|ENST00000539719|ZNF362 ENSG00000160094|ENST00000539719|ZNF362 ENSG00000160094|ENST00000539719|ZNF362 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.3258666992188 2 569.791012 1137.56747 NaN NaN NaN NaN NaN NaN NaN 90.116 1 90.116 89.616 90.616 0 0 0 0 0.84134 1 47267 47267 7.9102 0 1 33416 4041 21191 21260 37626 37626 0.004190162448594492 TYLPAGQSVLL 11 Unmodified _TYLPAGQSVLL_ 0 0 0 nc|ENSG00000167085|P35232-2|PHB1;ENSG00000167085|ENST00000300408|PHB1 nc|ENSG00000167085|P35232-2|PHB1 nc|ENSG00000167085|P35232-2|PHB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.3318481445312 2 581.329339 1160.64412 3.0215 0.0017565 -0.30629 -0.00017806 2.7152 0.0015784 581.3293039018708 76.067 0.46002 76.067 75.831 76.291 0 74 34 3 0 0 0 0.065996 2 37307 37256;37307 59.368 19.419 1 1756400 33417 4528 21192 21261 37627;37628 37628 0.07022854337355966 TYLPAGQSVLL 11 Unmodified _TYLPAGQSVLL_ 0 0 0 nc|ENSG00000167085|P35232-2|PHB1;ENSG00000167085|ENST00000300408|PHB1 nc|ENSG00000167085|P35232-2|PHB1 nc|ENSG00000167085|P35232-2|PHB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.3289184570312 2 581.329339 1160.64412 2.7631 0.0016062 0.41697 0.0002424 3.18 0.0018486 581.3294001012705 75.252 0.21063 75.916 75.807 76.017 0.6635 21 13 2 0 0 0 0.67851 1 36474 36474 20.415 10.341 1 2130700 33418 4528 21192 21261 37629 37629 0.07022854337355966 TYLPAGQSVLL 11 Unmodified _TYLPAGQSVLL_ 0 0 0 nc|ENSG00000167085|P35232-2|PHB1;ENSG00000167085|ENST00000300408|PHB1 nc|ENSG00000167085|P35232-2|PHB1 nc|ENSG00000167085|P35232-2|PHB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.8316040039062 2 581.329339 1160.64412 3.1584 0.0018361 -0.83355 -0.00048457 2.3249 0.0013515 581.3290965616948 75.762 0.29125 76.019 75.928 76.219 0.25704 41 22 3 0 0 0 0.15998 1 34889 34889 38.615 7.3464 1 906590 33419 4528 21192 21261 37630 37630 0.07022854337355966 TYLPAGQSVLL 11 Unmodified _TYLPAGQSVLL_ 0 0 0 nc|ENSG00000167085|P35232-2|PHB1;ENSG00000167085|ENST00000300408|PHB1 nc|ENSG00000167085|P35232-2|PHB1 nc|ENSG00000167085|P35232-2|PHB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.331787109375 2 581.329339 1160.64412 3.1887 0.0018537 -0.43397 -0.00025228 2.7547 0.0016014 581.3293551442705 75.319 0.21841 75.984 75.854 76.072 0.6644 30 17 2 0 0 0 0.43362 2 34693 34693;34713 26.268 12.362 1 759100 33420 4528 21192 21261 37631;37632 37631 0.07022854337355966 TYLPAPEGLKF 11 Unmodified _TYLPAPEGLKF_ 0 0 0 nc|ENSG00000041982|P24821-6|TNC;nc|ENSG00000041982|P24821-5|TNC;nc|ENSG00000041982|P24821-2|TNC;nc|ENSG00000041982|P24821-3|TNC;nc|ENSG00000041982|P24821-4|TNC;ENSG00000041982|ENST00000350763|TNC nc|ENSG00000041982|P24821-6|TNC nc|ENSG00000041982|P24821-6|TNC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 618.33935546875 2 618.337164 1234.65977 3.469 0.002145 0.09745 6.0257E-05 3.5664 0.0022053 618.3370922607055 68.421 0.29253 69.08 68.941 69.233 0.65924 39 18 3 0 0 0 0.16415 1 31352 31352 30.703 14.554 1 1069100 33421 540 21193 21262 37633 37633 0.05183140854364865 TYLPAPEGLKF 11 Unmodified _TYLPAPEGLKF_ 0 0 0 nc|ENSG00000041982|P24821-6|TNC;nc|ENSG00000041982|P24821-5|TNC;nc|ENSG00000041982|P24821-2|TNC;nc|ENSG00000041982|P24821-3|TNC;nc|ENSG00000041982|P24821-4|TNC;ENSG00000041982|ENST00000350763|TNC nc|ENSG00000041982|P24821-6|TNC nc|ENSG00000041982|P24821-6|TNC MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 618.337164 1234.65977 3.8818 0.0024003 0.40913 0.00025298 4.2909 0.0026532 618.3373849266272 68.961 0.30746 69.216 69.054 69.361 0.25443 0.067966 0.00021007 NaN 30.703 40 20 3 NaN NaN NaN NaN 0 NaN NaN 0 1116800 33422 540 21193 21262 0.05183140854364865 TYLPTSPLL 9 Unmodified _TYLPTSPLL_ 0 0 0 nc|ENSG00000078618|O43847-2|NRDC;ENSG00000078618|ENST00000352171|NRDC nc|ENSG00000078618|O43847-2|NRDC nc|ENSG00000078618|O43847-2|NRDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.7879943847656 2 502.786776 1003.559 2.5152 0.0012646 -0.24779 -0.00012459 2.2674 0.00114 502.78665949836983 79.843 0.19424 79.843 79.79 79.984 0 24 14 2 0 0 0 0.023321 1 39533 39533 81.613 14.269 1 2543600 33423 880 21194 21263 37634 37634 0.057361088715197184 TYLPTSPLL 9 Unmodified _TYLPTSPLL_ 0 0 0 nc|ENSG00000078618|O43847-2|NRDC;ENSG00000078618|ENST00000352171|NRDC nc|ENSG00000078618|O43847-2|NRDC nc|ENSG00000078618|O43847-2|NRDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1004.5708618164062 1 1004.56627 1003.559 3.3 0.003315 -0.31991 -0.00032137 2.9801 0.0029937 1004.5663936271452 79.422 0.3309 79.674 79.54 79.871 0.25127 26 17 2 0 0 0 0.078225 2 36555 36555;36608 50.855 12.302 1 997180 33424 880 21194 21263 37635;37636 37635 0.057361088715197184 TYLPTSPLL 9 Unmodified _TYLPTSPLL_ 0 0 0 nc|ENSG00000078618|O43847-2|NRDC;ENSG00000078618|ENST00000352171|NRDC nc|ENSG00000078618|O43847-2|NRDC nc|ENSG00000078618|O43847-2|NRDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.7886657714844 2 502.786776 1003.559 3.0225 0.0015197 0.51607 0.00025947 3.5386 0.0017792 502.7870553971705 79.44 0.34392 79.691 79.54 79.884 0.25127 45 18 3 0 0 0 0.0095519 2 36609 36558;36609 104.8 26.815 1 2234500 33425 880 21194 21263 37637;37638 37638 0.057361088715197184 TYLPTSPLL 9 Unmodified _TYLPTSPLL_ 0 0 0 nc|ENSG00000078618|O43847-2|NRDC;ENSG00000078618|ENST00000352171|NRDC nc|ENSG00000078618|O43847-2|NRDC nc|ENSG00000078618|O43847-2|NRDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1004.5701293945312 1 1004.56627 1003.559 3.6637 0.0036804 0.40759 0.00040945 4.0713 0.0040899 1004.5666842996143 78.925 0.27179 79.587 79.422 79.694 0.66198 44 18 3 0 0 0 0.02812 2 36361 36312;36361 74.423 23.568 1 1026500 33426 880 21194 21263 37639;37640 37640 0.057361088715197184 TYLPTSPLL 9 Unmodified _TYLPTSPLL_ 0 0 0 nc|ENSG00000078618|O43847-2|NRDC;ENSG00000078618|ENST00000352171|NRDC nc|ENSG00000078618|O43847-2|NRDC nc|ENSG00000078618|O43847-2|NRDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.7886047363281 2 502.786776 1003.559 3.2513 0.0016347 0.55732 0.00028021 3.8086 0.0019149 502.7870186426984 78.932 0.37478 79.594 79.384 79.759 0.66198 66 25 3 0 0 0 0.016529 3 36408 36316;36362;36408 92.822 25.478 1 1860000 33427 880 21194 21263 37641;37642;37643 37643 0.057361088715197184 TYLRKIPRF 9 Unmodified _TYLRKIPRF_ 0 0 0 ENST00000485727.5_1_3:123675165-123675318:-|nuORF;ENST00000438440.2_1_3:123674869-123680035:-|nuORF;nc|ENSG00000175455|Q49A88-5|CCDC14;ENSG00000175455|ENST00000409697|CCDC14;nc|ENSG00000175455|Q49A88-6|CCDC14;nc|ENSG00000175455|Q49A88|CCDC14 ENST00000485727.5_1_3:123675165-123675318:-|nuORF ENST00000485727.5_1_3:123675165-123675318:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 398.9122619628906 3 398.576631 1192.70806 2.5049 0.00099839 0.19513 7.7773E-05 2.7 0.0010762 398.57659429057895 35.872 0.41481 35.872 35.584 35.999 0 39 22 2 0 0 0 0.069974 1 16239 16239 40.239 28.744 1 561750 33428 5032 21195 21264 37644 37644 0.11941679284927886 TYLRKIPRF 9 Unmodified _TYLRKIPRF_ 0 0 0 ENST00000485727.5_1_3:123675165-123675318:-|nuORF;ENST00000438440.2_1_3:123674869-123680035:-|nuORF;nc|ENSG00000175455|Q49A88-5|CCDC14;ENSG00000175455|ENST00000409697|CCDC14;nc|ENSG00000175455|Q49A88-6|CCDC14;nc|ENSG00000175455|Q49A88|CCDC14 ENST00000485727.5_1_3:123675165-123675318:-|nuORF ENST00000485727.5_1_3:123675165-123675318:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.5783996582031 3 398.576631 1192.70806 2.5709 0.0010247 0.0036303 1.447E-06 2.5745 0.0010262 398.5766046041824 34.775 0.34682 35.565 35.456 35.803 0.78921 40 25 2 0 0 0 0.049036 2 15761 15761;15810 47.594 36.1 1 946650 33429 5032 21195 21264 37645;37646 37645 0.11941679284927886 TYLRKIPRF 9 Unmodified _TYLRKIPRF_ 0 0 0 ENST00000485727.5_1_3:123675165-123675318:-|nuORF;ENST00000438440.2_1_3:123674869-123680035:-|nuORF;nc|ENSG00000175455|Q49A88-5|CCDC14;ENSG00000175455|ENST00000409697|CCDC14;nc|ENSG00000175455|Q49A88-6|CCDC14;nc|ENSG00000175455|Q49A88|CCDC14 ENST00000485727.5_1_3:123675165-123675318:-|nuORF ENST00000485727.5_1_3:123675165-123675318:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 398.576631 1192.70806 2.9686 0.0011832 -0.55434 -0.00022095 2.4143 0.00096228 398.9108418217276 35.624 0.67509 35.879 35.566 36.241 0.25524 0.061114 -0.00067599 NaN 47.594 40 24 2 NaN NaN NaN NaN 0 NaN NaN 0 468360 33430 5032 21195 21264 0.11941679284927886 TYLRKIPRF 9 Unmodified _TYLRKIPRF_ 0 0 0 ENST00000485727.5_1_3:123675165-123675318:-|nuORF;ENST00000438440.2_1_3:123674869-123680035:-|nuORF;nc|ENSG00000175455|Q49A88-5|CCDC14;ENSG00000175455|ENST00000409697|CCDC14;nc|ENSG00000175455|Q49A88-6|CCDC14;nc|ENSG00000175455|Q49A88|CCDC14 ENST00000485727.5_1_3:123675165-123675318:-|nuORF ENST00000485727.5_1_3:123675165-123675318:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 398.576631 1192.70806 2.9686 0.0011832 0.20945 8.3483E-05 3.1781 0.0012667 398.57664811637596 35.33 0.44425 35.957 35.722 36.167 0.62631 0.13864 0.0002373 NaN 47.594 27 14 2 NaN NaN NaN NaN 0 NaN NaN 0 373130 33431 5032 21195 21264 0.11941679284927886 TYLYWIYN 8 Unmodified _TYLYWIYN_ 0 0 0 REV__ENST00000549537.6_2_12:112371794-112450827:-|nuORF REV__ENST00000549537.6_2_12:112371794-112450827:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.3785400390625 2 568.276575 1134.5386 NaN NaN NaN NaN NaN NaN NaN 86.262 1 86.293 85.793 86.793 0.030289 0 0 0 0.99035 1 43357 43357 5.2307 1.6342 1 + 33432 14331 21196 21265 37647 37647 -0.023290617882821607 TYMEYETL 8 Unmodified _TYMEYETL_ 0 0 0 ENSG00000109861|ENST00000227266|CTSC ENSG00000109861|ENST00000227266|CTSC ENSG00000109861|ENST00000227266|CTSC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.227783203125 2 525.228433 1048.44231 NaN NaN NaN NaN NaN NaN NaN 36.903 1 37.161 36.661 37.661 0.25768 0 0 0 0.99035 1 16808 16808 2.5775 0.51773 1 33433 1690 21197 21266 37648 37648 -0.07996997410532458 TYMEYQINF 9 Unmodified _TYMEYQINF_ 0 0 0 REV__ENSG00000104613|ENST00000397977|INTS10 REV__ENSG00000104613|ENST00000397977|INTS10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 606.2352905273438 2 604.768257 1207.52196 3.812 0.0023054 0.065233 3.9451E-05 3.8772 0.0023448 604.7683876601052 58.59 0.44418 59.257 59.021 59.465 0.66703 40 18 3 0 0 0 0.95612 1 26740 26740 4.756 0 1 2090600 + 33434 10995 21198 21267 37649 37649 -0.07349930736540955 TYMGHTGAVW 10 Unmodified _TYMGHTGAVW_ 0 0 0 ENSG00000084623|ENST00000677711|EIF3I;ENST00000474371.1_1_1:32688150-32694122:+|nuORF;ENST00000489353.5_1_1:32688042-32691823:+|nuORF ENSG00000084623|ENST00000677711|EIF3I ENSG00000084623|ENST00000677711|EIF3I MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.7567138671875 2 561.755484 1121.49641 3.2436 0.0018221 -0.34324 -0.00019282 2.9003 0.0016293 561.755209116601 43.298 0.27036 44.113 44.046 44.317 0.81444 43 20 3 0 0 0 3.4213E-05 2 19705 19705;19759 111.29 81.062 1 2907400 33435 957 21199 21268 37650;37651 37650 -0.059473604683034864 TYMGHTGAVW 10 Unmodified _TYMGHTGAVW_ 0 0 0 ENSG00000084623|ENST00000677711|EIF3I;ENST00000474371.1_1_1:32688150-32694122:+|nuORF;ENST00000489353.5_1_1:32688042-32691823:+|nuORF ENSG00000084623|ENST00000677711|EIF3I ENSG00000084623|ENST00000677711|EIF3I MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.757080078125 2 561.755484 1121.49641 3.3726 0.0018946 -0.33627 -0.0001889 3.0363 0.0017056 561.7553860924172 44.551 0.35584 44.821 44.606 44.962 0.2694 32 11 4 0 0 0 3.4213E-05 2 20379 20320;20379 111.29 86.613 1 1511800 33436 957 21199 21268 37652;37653 37653 -0.059473604683034864 TYMGHTGAVW 10 Unmodified _TYMGHTGAVW_ 0 0 0 ENSG00000084623|ENST00000677711|EIF3I;ENST00000474371.1_1_1:32688150-32694122:+|nuORF;ENST00000489353.5_1_1:32688042-32691823:+|nuORF ENSG00000084623|ENST00000677711|EIF3I ENSG00000084623|ENST00000677711|EIF3I MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.2584228515625 2 561.755484 1121.49641 3.6897 0.0020727 0.057377 3.2232E-05 3.7471 0.002105 561.7555878621637 43.991 0.24991 44.64 44.524 44.774 0.64872 24 9 4 0 0 0 0.0073569 2 20138 20138;20205 92.491 67.818 1 1479800 33437 957 21199 21268 37654;37655 37654 -0.059473604683034864 TYMKDLYQL 9 Unmodified _TYMKDLYQL_ 0 0 0 nc|ENSG00000146376|Q8N392-2|ARHGAP18;ENSG00000146376|ENST00000368149|ARHGAP18 nc|ENSG00000146376|Q8N392-2|ARHGAP18 nc|ENSG00000146376|Q8N392-2|ARHGAP18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.7966918945312 2 587.794275 1173.574 3.4112 0.0020051 -0.52282 -0.00030731 2.8884 0.0016978 587.7943522145251 58.841 0.2312 58.841 58.708 58.94 0 52 17 4 0 0 0 0.0012852 2 27190 27133;27190 121.53 58.961 1 7081500 33438 3513 21200 21269 37656;37657 37657 -0.005847673228117856 TYMKDLYQL 9 Unmodified _TYMKDLYQL_ 0 0 0 nc|ENSG00000146376|Q8N392-2|ARHGAP18;ENSG00000146376|ENST00000368149|ARHGAP18 nc|ENSG00000146376|Q8N392-2|ARHGAP18 nc|ENSG00000146376|Q8N392-2|ARHGAP18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.7965698242188 2 587.794275 1173.574 3.061 0.0017993 -0.75033 -0.00044104 2.3107 0.0013582 587.7940114111731 57.663 0.26264 58.432 58.284 58.547 0.76861 53 20 3 0 0 0 0.0012852 2 26389 26389;26439 121.53 61.46 1 8859700 33439 3513 21200 21269 37658;37659 37658 -0.005847673228117856 TYMKDLYQL 9 Unmodified _TYMKDLYQL_ 0 0 0 nc|ENSG00000146376|Q8N392-2|ARHGAP18;ENSG00000146376|ENST00000368149|ARHGAP18 nc|ENSG00000146376|Q8N392-2|ARHGAP18 nc|ENSG00000146376|Q8N392-2|ARHGAP18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.7960205078125 2 587.794275 1173.574 3.5079 0.0020619 0.12812 7.5308E-05 3.636 0.0021372 587.7942296839706 58.662 0.17175 58.925 58.855 59.027 0.26228 45 25 2 0 0 0 0.0012852 2 26849 26849;26896 121.53 62.855 1 3958200 33440 3513 21200 21269 37660;37661 37660 -0.005847673228117856 TYMKDLYQL 9 Unmodified _TYMKDLYQL_ 0 0 0 nc|ENSG00000146376|Q8N392-2|ARHGAP18;ENSG00000146376|ENST00000368149|ARHGAP18 nc|ENSG00000146376|Q8N392-2|ARHGAP18 nc|ENSG00000146376|Q8N392-2|ARHGAP18 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 587.794275 1173.574 3.4915 0.0020523 -0.99096 -0.00058248 2.5005 0.0014698 587.7957714404496 58.199 0.04361 58.199 58.167 58.21 0 -0.11636 -0.00027721 NaN 121.53 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 479170 33441 3513 21200 21269 -0.005847673228117856 TYNKVLHFF 9 Unmodified _TYNKVLHFF_ 0 0 0 ENSG00000150961|ENST00000280551|SEC24D;nc|ENSG00000150961|O94855-2|SEC24D ENSG00000150961|ENST00000280551|SEC24D ENSG00000150961|ENST00000280551|SEC24D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.1290283203125 2 584.811116 1167.60768 3.4575 0.002022 -0.16839 -9.8476E-05 3.2891 0.0019235 584.8108550154467 56.135 0.19191 56.135 56.013 56.205 0 19 13 2 0 0 0 0.012326 1 25808 25808 78.728 57.138 1 736560 33442 3683 21201 21270 37662 37662 0.030580222312892147 TYNKVLHFF 9 Unmodified _TYNKVLHFF_ 0 0 0 ENSG00000150961|ENST00000280551|SEC24D;nc|ENSG00000150961|O94855-2|SEC24D ENSG00000150961|ENST00000280551|SEC24D ENSG00000150961|ENST00000280551|SEC24D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 390.21099853515625 3 390.209836 1167.60768 2.569 0.0010025 0.22671 8.8466E-05 2.7957 0.0010909 390.2099472480845 56.124 0.34741 56.124 55.925 56.272 0 49 26 3 0 0 0 0.10245 1 25813 25813 29.082 20.105 1 981890 33443 3683 21201 21270 37663 37663 0.030580222312892147 TYNKVLHFF 9 Unmodified _TYNKVLHFF_ 0 0 0 ENSG00000150961|ENST00000280551|SEC24D;nc|ENSG00000150961|O94855-2|SEC24D ENSG00000150961|ENST00000280551|SEC24D ENSG00000150961|ENST00000280551|SEC24D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.8133544921875 2 584.811116 1167.60768 2.8678 0.0016771 1.7884 0.0010459 4.6562 0.002723 584.811234670604 55.051 0.28108 55.838 55.686 55.967 0.78711 27 18 2 0 0 0 0.26277 1 25170 25170 19.257 14.026 1 450950 33444 3683 21201 21270 37664 37664 0.030580222312892147 TYNKVLHFF 9 Unmodified _TYNKVLHFF_ 0 0 0 ENSG00000150961|ENST00000280551|SEC24D;nc|ENSG00000150961|O94855-2|SEC24D ENSG00000150961|ENST00000280551|SEC24D ENSG00000150961|ENST00000280551|SEC24D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.3141479492188 2 584.811116 1167.60768 3.5489 0.0020754 -0.94432 -0.00055225 2.6046 0.0015232 585.3113742265298 55.364 0.21313 56.032 55.922 56.135 0.66798 11 9 2 0 0 0 0.057744 1 25331 25331 43.858 35.703 1 707780 33445 3683 21201 21270 37665 37665 0.030580222312892147 TYNKVLHFF 9 Unmodified _TYNKVLHFF_ 0 0 0 ENSG00000150961|ENST00000280551|SEC24D;nc|ENSG00000150961|O94855-2|SEC24D ENSG00000150961|ENST00000280551|SEC24D ENSG00000150961|ENST00000280551|SEC24D MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 390.209836 1167.60768 2.1863 0.00085313 0.32673 0.00012749 2.5131 0.00098062 390.2099095281522 55.03 0.37875 55.818 55.643 56.022 0.78711 -0.25731 -3.6589E-05 NaN 29.082 56 24 3 NaN NaN NaN NaN 0 NaN NaN 0 1152600 33446 3683 21201 21270 0.030580222312892147 TYNKVLHFF 9 Unmodified _TYNKVLHFF_ 0 0 0 ENSG00000150961|ENST00000280551|SEC24D;nc|ENSG00000150961|O94855-2|SEC24D ENSG00000150961|ENST00000280551|SEC24D ENSG00000150961|ENST00000280551|SEC24D MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 584.811116 1167.60768 3.3809 0.0019772 -0.40599 -0.00023743 2.9749 0.0017398 584.8110073552325 56.08 0.19482 56.345 56.262 56.456 0.26543 0.25777 -0.00017784 NaN 78.728 9 7 2 NaN NaN NaN NaN 0 NaN NaN 0 563910 33447 3683 21201 21270 0.030580222312892147 TYNKVLHFF 9 Unmodified _TYNKVLHFF_ 0 0 0 ENSG00000150961|ENST00000280551|SEC24D;nc|ENSG00000150961|O94855-2|SEC24D ENSG00000150961|ENST00000280551|SEC24D ENSG00000150961|ENST00000280551|SEC24D MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 390.209836 1167.60768 2.8224 0.0011013 0.4322 0.00016865 3.2546 0.00127 390.21007040257854 56.089 0.33786 56.354 56.177 56.515 0.26543 0.27941 8.6871E-05 NaN 29.082 18 13 2 NaN NaN NaN NaN 0 NaN NaN 0 864170 33448 3683 21201 21270 0.030580222312892147 TYNKVLHFF 9 Unmodified _TYNKVLHFF_ 0 0 0 ENSG00000150961|ENST00000280551|SEC24D;nc|ENSG00000150961|O94855-2|SEC24D ENSG00000150961|ENST00000280551|SEC24D ENSG00000150961|ENST00000280551|SEC24D MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 390.209836 1167.60768 2.8343 0.001106 0.62745 0.00024484 3.4617 0.0013508 390.2102072915803 55.336 0.37563 56.004 55.803 56.179 0.66798 -0.071216 0.00031544 NaN 29.082 24 15 2 NaN NaN NaN NaN 0 NaN NaN 0 946320 33449 3683 21201 21270 0.030580222312892147 TYNMVLNLL 9 Unmodified _TYNMVLNLL_ 0 0 0 ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.296142578125 2 540.791535 1079.56852 3.577 0.0019344 0.57523 0.00031108 4.1522 0.0022455 540.7916845734937 95.618 0.34242 96.225 96.053 96.396 0.60768 29 19 2 0 0 0 0.093314 2 43966 43966;43977 34.402 20.894 1 278770 33450 524 21202 21271 37666;37667 37666 0.03191553885403664 TYNMVLNLL 9 Unmodified _TYNMVLNLL_ 0 0 0 ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 540.791535 1079.56852 4.0248 0.0021766 -0.39181 -0.00021189 3.633 0.0019647 540.7913052731329 96.258 0.24753 96.536 96.421 96.669 0.27778 0.15535 -0.00051862 NaN 34.402 20 13 2 NaN NaN NaN NaN 0 NaN NaN 0 540720 33451 524 21202 21271 0.03191553885403664 TYNPAFSRL 9 Unmodified _TYNPAFSRL_ 0 0 0 ENSG00000146433|ENST00000684151|TMEM181;nc|ENSG00000146433|Q9P2C4-1|TMEM181 ENSG00000146433|ENST00000684151|TMEM181 ENSG00000146433|ENST00000684151|TMEM181 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.7788696289062 2 534.777274 1067.53999 2.8753 0.0015376 0.32052 0.00017141 3.1958 0.001709 534.7771520227058 46.86 0.22878 46.86 46.738 46.967 0 13 7 2 0 0 0 0.097139 1 21446 21446 33.445 16.503 1 915110 33452 3520 21203 21272 37668 37668 0.008925723004722386 TYNPAFSRL 9 Unmodified _TYNPAFSRL_ 0 0 0 ENSG00000146433|ENST00000684151|TMEM181;nc|ENSG00000146433|Q9P2C4-1|TMEM181 ENSG00000146433|ENST00000684151|TMEM181 ENSG00000146433|ENST00000684151|TMEM181 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 534.7789916992188 2 534.777274 1067.53999 3.2119 0.0017177 0.28837 0.00015421 3.5003 0.0018719 534.7769592492359 46.798 0.20287 47.064 46.951 47.153 0.26561 10 6 2 0 0 0 0.21127 1 21407 21407 22.658 12.584 1 542680 33453 3520 21203 21272 37669 37669 0.008925723004722386 TYNQKHSLF 9 Unmodified _TYNQKHSLF_ 0 0 0 ENSG00000165175|ENST00000614558|MID1IP1 ENSG00000165175|ENST00000614558|MID1IP1 ENSG00000165175|ENST00000614558|MID1IP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.287841796875 2 569.288005 1136.56146 3.5855 0.0020412 -0.72499 -0.00041273 2.8605 0.0016285 569.287198472348 26.765 0.27454 26.765 26.642 26.916 0 37 18 3 0 0 0 0.0043297 2 12054 12054;12098 93.166 60.38 1 1027600 33454 4379 21204 21273 37670;37671 37670 -0.001360426708288287 TYNQKHSLF 9 Unmodified _TYNQKHSLF_ 0 0 0 ENSG00000165175|ENST00000614558|MID1IP1 ENSG00000165175|ENST00000614558|MID1IP1 ENSG00000165175|ENST00000614558|MID1IP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.87451171875 3 379.861096 1136.56146 2.8896 0.0010976 -0.22813 -8.6658E-05 2.6615 0.001011 379.86102716268914 26.773 0.38396 26.773 26.569 26.953 0 69 27 4 0 0 0 0.0041389 1 12033 12033 43.982 30.367 1 2535000 33455 4379 21204 21273 37672 37672 -0.001360426708288287 TYNQKHSLF 9 Unmodified _TYNQKHSLF_ 0 0 0 ENSG00000165175|ENST00000614558|MID1IP1 ENSG00000165175|ENST00000614558|MID1IP1 ENSG00000165175|ENST00000614558|MID1IP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.2892456054688 2 569.288005 1136.56146 3.4139 0.0019435 -0.67652 -0.00038513 2.7374 0.0015584 569.2876863381946 25.819 0.24527 26.582 26.447 26.692 0.76356 33 13 3 0 0 0 0.02631 2 11557 11557;11611 60.074 38.327 1 812620 33456 4379 21204 21273 37673;37674 37673 -0.001360426708288287 TYNQKHSLF 9 Unmodified _TYNQKHSLF_ 0 0 0 ENSG00000165175|ENST00000614558|MID1IP1 ENSG00000165175|ENST00000614558|MID1IP1 ENSG00000165175|ENST00000614558|MID1IP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 380.1964416503906 3 379.861096 1136.56146 2.3488 0.00089222 0.16858 6.4038E-05 2.5174 0.00095626 379.86110662021576 25.787 0.32437 26.551 26.382 26.706 0.76356 56 18 4 0 0 0 0.16976 1 11558 11558 29.841 21.895 1 2703400 33457 4379 21204 21273 37675 37675 -0.001360426708288287 TYNQKHSLF 9 Unmodified _TYNQKHSLF_ 0 0 0 ENSG00000165175|ENST00000614558|MID1IP1 ENSG00000165175|ENST00000614558|MID1IP1 ENSG00000165175|ENST00000614558|MID1IP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.2909545898438 2 569.288005 1136.56146 3.4852 0.0019841 -0.33225 -0.00018915 3.1529 0.0017949 569.2874604090522 26.762 0.26777 27.027 26.851 27.119 0.26489 37 16 3 0 0 0 0.099775 2 12123 12123;12179 32.786 17.947 1 435180 33458 4379 21204 21273 37676;37677 37676 -0.001360426708288287 TYNQKHSLF 9 Unmodified _TYNQKHSLF_ 0 0 0 ENSG00000165175|ENST00000614558|MID1IP1 ENSG00000165175|ENST00000614558|MID1IP1 ENSG00000165175|ENST00000614558|MID1IP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.8623962402344 3 379.861096 1136.56146 2.7879 0.001059 0.13499 5.1277E-05 2.9229 0.0011103 379.8611789371907 26.757 0.36263 27.022 26.813 27.176 0.26489 60 23 4 0 0 0 0.026234 1 12167 12167 29.841 19.041 1 1110800 33459 4379 21204 21273 37678 37678 -0.001360426708288287 TYNQKHSLF 9 Unmodified _TYNQKHSLF_ 0 0 0 ENSG00000165175|ENST00000614558|MID1IP1 ENSG00000165175|ENST00000614558|MID1IP1 ENSG00000165175|ENST00000614558|MID1IP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.2899169921875 2 569.288005 1136.56146 3.5148 0.0020009 -0.42124 -0.00023981 3.0936 0.0017611 569.2875904397597 26.345 0.2986 26.97 26.832 27.131 0.62505 35 15 3 0 0 0 0.030603 3 12054 12033;12054;12099 55.503 35.049 1 539450 33460 4379 21204 21273 37679;37680;37681 37680 -0.001360426708288287 TYNQKHSLF 9 Unmodified _TYNQKHSLF_ 0 0 0 ENSG00000165175|ENST00000614558|MID1IP1 ENSG00000165175|ENST00000614558|MID1IP1 ENSG00000165175|ENST00000614558|MID1IP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.8627014160156 3 379.861096 1136.56146 2.6241 0.0009968 0.073216 2.7812E-05 2.6973 0.0010246 379.8611585011647 26.332 0.31402 26.957 26.817 27.131 0.62505 43 16 4 0 0 0 0.013782 1 12052 12052 43.772 31.532 1 1044900 33461 4379 21204 21273 37682 37682 -0.001360426708288287 TYNYCRRDI 9 Unmodified _TYNYCRRDI_ 0 0 0 REV__ENSG00000117151|ENST00000370630|CTBS REV__ENSG00000117151|ENST00000370630|CTBS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 602.280029296875 2 602.282397 1202.55024 NaN NaN NaN NaN NaN NaN NaN 56.143 1 56.408 55.908 56.908 0.26543 0 0 0 0.58778 1 25678 25678 16.149 3.1066 1 + 33462 11434 21205 21274 37683 37683 -0.04293188036604079 TYNYPVHYF 9 Unmodified _TYNYPVHYF_ 0 0 0 nc|ENSG00000112697|Q9NV96-3|TMEM30A;nc|ENSG00000112697|Q9NV96-2|TMEM30A;ENSG00000112697|ENST00000230461|TMEM30A nc|ENSG00000112697|Q9NV96-3|TMEM30A nc|ENSG00000112697|Q9NV96-3|TMEM30A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 602.2787475585938 2 602.277106 1202.53966 3.31 0.0019935 0.29422 0.0001772 3.6042 0.0021707 602.27726582605 55.956 0.31745 55.956 55.82 56.138 0 49 22 3 0 0 0 0.015468 2 25768 25715;25768 74.423 43.786 1 1557500 33463 1817 21206 21275 37684;37685 37685 -0.053508474193904476 TYNYPVHYF 9 Unmodified _TYNYPVHYF_ 0 0 0 nc|ENSG00000112697|Q9NV96-3|TMEM30A;nc|ENSG00000112697|Q9NV96-2|TMEM30A;ENSG00000112697|ENST00000230461|TMEM30A nc|ENSG00000112697|Q9NV96-3|TMEM30A nc|ENSG00000112697|Q9NV96-3|TMEM30A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.27978515625 2 602.277106 1202.53966 3.0652 0.0018461 -0.3682 -0.00022176 2.697 0.0016243 602.276725851862 54.88 0.37109 55.676 55.477 55.848 0.79552 44 24 2 0 0 0 0.020718 3 25016 25016;25078;25108 67.344 43.323 1 1396300 33464 1817 21206 21275 37686;37687;37688 37686 -0.053508474193904476 TYNYPVHYF 9 Unmodified _TYNYPVHYF_ 0 0 0 nc|ENSG00000112697|Q9NV96-3|TMEM30A;nc|ENSG00000112697|Q9NV96-2|TMEM30A;ENSG00000112697|ENST00000230461|TMEM30A nc|ENSG00000112697|Q9NV96-3|TMEM30A nc|ENSG00000112697|Q9NV96-3|TMEM30A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 602.2786865234375 2 602.277106 1202.53966 3.5827 0.0021578 0.072444 4.3631E-05 3.6551 0.0022014 602.2771909670507 56.009 0.28441 56.275 56.101 56.386 0.26543 21 11 2 0 0 0 0.020718 1 25603 25603 67.344 36.707 1 918990 33465 1817 21206 21275 37689 37689 -0.053508474193904476 TYNYPVHYF 9 Unmodified _TYNYPVHYF_ 0 0 0 nc|ENSG00000112697|Q9NV96-3|TMEM30A;nc|ENSG00000112697|Q9NV96-2|TMEM30A;ENSG00000112697|ENST00000230461|TMEM30A nc|ENSG00000112697|Q9NV96-3|TMEM30A nc|ENSG00000112697|Q9NV96-3|TMEM30A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 602.2752075195312 2 602.277106 1202.53966 3.8774 0.0023353 -0.58463 -0.00035211 3.2928 0.0019832 602.2763378686648 55.281 0.3515 55.949 55.755 56.106 0.66798 24 13 2 0 0 0 0.026068 2 25256 25256;25315 60.39 45.551 1 914430 33466 1817 21206 21275 37690;37691 37690 -0.053508474193904476 TYPAELNNI 9 Unmodified _TYPAELNNI_ 0 0 0 ENSG00000106546|ENST00000242057|AHR ENSG00000106546|ENST00000242057|AHR ENSG00000106546|ENST00000242057|AHR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 517.7617797851562 2 517.761289 1033.50803 3.1021 0.0016062 -0.7925 -0.00041033 2.3096 0.0011958 517.7608787679596 56.035 0.24281 56.815 56.688 56.931 0.77979 44 19 3 0 0 0 0.071101 1 25593 25593 39.957 15.283 1 1697800 33467 1576 21207 21276 37692 37692 -0.007388401733351202 TYPAELNNI 9 Unmodified _TYPAELNNI_ 0 0 0 ENSG00000106546|ENST00000242057|AHR ENSG00000106546|ENST00000242057|AHR ENSG00000106546|ENST00000242057|AHR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.7626342773438 2 517.761289 1033.50803 3.3754 0.0017476 0.73495 0.00038053 4.1103 0.0021282 517.7612916835159 56.742 0.19722 57.006 56.941 57.138 0.26444 11 7 2 0 0 0 0.028312 1 25970 25970 57.471 21.427 1 1015000 33468 1576 21207 21276 37693 37693 -0.007388401733351202 TYPAELNNI 9 Unmodified _TYPAELNNI_ 0 0 0 ENSG00000106546|ENST00000242057|AHR ENSG00000106546|ENST00000242057|AHR ENSG00000106546|ENST00000242057|AHR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.7628173828125 2 517.761289 1033.50803 3.4519 0.0017872 -0.37509 -0.00019421 3.0768 0.001593 517.7609203453023 56.123 0.34845 56.791 56.61 56.959 0.66829 35 20 2 0 0 0 0.10169 2 25664 25664;25717 32.305 11.852 1 1124300 33469 1576 21207 21276 37694;37695 37694 -0.007388401733351202 TYPAELNNI 9 Unmodified _TYPAELNNI_ 0 0 0 ENSG00000106546|ENST00000242057|AHR ENSG00000106546|ENST00000242057|AHR ENSG00000106546|ENST00000242057|AHR MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 517.761289 1033.50803 3.3316 0.001725 -0.1536 -7.9527E-05 3.178 0.0016455 517.7611585668122 56.908 0.21746 56.908 56.767 56.984 0 0.027953 0.00019248 NaN 57.471 36 20 3 NaN NaN NaN NaN 0 NaN NaN 0 1652200 33470 1576 21207 21276 -0.007388401733351202 TYPDVNNSI 9 Unmodified _TYPDVNNSI_ 0 0 0 nc|ENSG00000122958|O75436-2|VPS26A;ENSG00000122958|ENST00000263559|VPS26A nc|ENSG00000122958|O75436-2|VPS26A nc|ENSG00000122958|O75436-2|VPS26A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.74444580078125 2 511.743096 1021.47164 3.1226 0.0015979 -0.10206 -5.2231E-05 3.0205 0.0015457 511.7430322341853 44.619 0.39693 44.619 44.525 44.922 0 56 28 3 0 0 0 0.0013204 3 20447 20396;20447;20500 118.89 66.626 1 4575900 33471 2287 21208 21277 37696;37697;37698 37697 -0.03823717070042676 TYPDVNNSI 9 Unmodified _TYPDVNNSI_ 0 0 0 nc|ENSG00000122958|O75436-2|VPS26A;ENSG00000122958|ENST00000263559|VPS26A nc|ENSG00000122958|O75436-2|VPS26A nc|ENSG00000122958|O75436-2|VPS26A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1022.4847412109375 1 1022.47892 1021.47164 3.3848 0.0034609 1.0865 0.0011109 4.4713 0.0045719 1022.4798401543117 44.622 0.24623 44.622 44.593 44.839 0 24 14 2 0 0 0 0.020151 1 20428 20428 68.081 11.904 1 1465200 33472 2287 21208 21277 37699 37699 -0.03823717070042676 TYPDVNNSI 9 Unmodified _TYPDVNNSI_ 0 0 0 nc|ENSG00000122958|O75436-2|VPS26A;ENSG00000122958|ENST00000263559|VPS26A nc|ENSG00000122958|O75436-2|VPS26A nc|ENSG00000122958|O75436-2|VPS26A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 511.7446594238281 2 511.743096 1021.47164 3.0856 0.0015791 0.25037 0.00012812 3.336 0.0017072 511.7431397291815 43.647 0.65668 44.462 44.196 44.852 0.81444 101 38 4 0 0 0 0.00027711 4 19899 19801;19852;19899;19942 134.3 69.061 1 2963500 33473 2287 21208 21277 37700;37701;37702;37703 37702 -0.03823717070042676 TYPDVNNSI 9 Unmodified _TYPDVNNSI_ 0 0 0 nc|ENSG00000122958|O75436-2|VPS26A;ENSG00000122958|ENST00000263559|VPS26A nc|ENSG00000122958|O75436-2|VPS26A nc|ENSG00000122958|O75436-2|VPS26A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1022.4849853515625 1 1022.47892 1021.47164 3.2358 0.0033085 0.38817 0.00039689 3.6239 0.0037054 1022.4796964467122 44.529 0.35584 44.799 44.606 44.962 0.2694 21 11 2 0 0 0 0.027384 2 20316 20316;20374 58.679 25.893 1 526770 33474 2287 21208 21277 37704;37705 37704 -0.03823717070042676 TYPDVNNSI 9 Unmodified _TYPDVNNSI_ 0 0 0 nc|ENSG00000122958|O75436-2|VPS26A;ENSG00000122958|ENST00000263559|VPS26A nc|ENSG00000122958|O75436-2|VPS26A nc|ENSG00000122958|O75436-2|VPS26A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 511.74481201171875 2 511.743096 1021.47164 3.1733 0.0016239 0.010783 5.5183E-06 3.184 0.0016294 511.74320042415724 44.534 0.49259 44.803 44.546 45.039 0.26939 51 20 4 0 0 0 0.0024241 2 20317 20317;20376 99.799 55.941 1 2441900 33475 2287 21208 21277 37706;37707 37706 -0.03823717070042676 TYPDVNNSI 9 Unmodified _TYPDVNNSI_ 0 0 0 nc|ENSG00000122958|O75436-2|VPS26A;ENSG00000122958|ENST00000263559|VPS26A nc|ENSG00000122958|O75436-2|VPS26A nc|ENSG00000122958|O75436-2|VPS26A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 511.74481201171875 2 511.743096 1021.47164 3.5135 0.001798 -0.087627 -4.4843E-05 3.4258 0.0017531 511.74302995987574 44.05 0.48965 44.7 44.524 45.014 0.64951 44 23 3 0 0 0 0.0063542 2 20154 20154;20207 88.954 55.007 1 2518900 33476 2287 21208 21277 37708;37709 37708 -0.03823717070042676 TYPDVNNSI 9 Unmodified _TYPDVNNSI_ 0 0 0 nc|ENSG00000122958|O75436-2|VPS26A;ENSG00000122958|ENST00000263559|VPS26A nc|ENSG00000122958|O75436-2|VPS26A nc|ENSG00000122958|O75436-2|VPS26A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1022.4833374023438 1 1022.47892 1021.47164 3.7429 0.0038271 1.5078 0.0015417 5.2508 0.0053688 1022.479983533807 44.033 0.30511 44.682 44.574 44.879 0.64888 18 13 3 0 0 0 0.024388 1 20196 20196 62.573 22.623 1 1453000 33477 2287 21208 21277 37710 37710 -0.03823717070042676 TYPEKGRTID 10 Unmodified _TYPEKGRTID_ 0 0 0 REV__nc|ENSG00000123607|Q7Z4L5-2|TTC21B REV__nc|ENSG00000123607|Q7Z4L5-2|TTC21B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.8341064453125 2 590.303852 1178.59315 NaN NaN NaN NaN NaN NaN NaN 15.597 1 16.251 15.751 16.751 0.65356 0 0 0 0.99812 1 7025 7025 3.2813 0 1 + 33478 11621 21209 21278 37711 37711 0.010999052924944408 TYPENWRAF 9 Unmodified _TYPENWRAF_ 0 0 0 ENSG00000254772|ENST00000329251|EEF1G;nc|ENSG00000254772|P26641-2|EEF1G;ENST00000526409.5_1_11:62327153-62342310:-|nuORF ENSG00000254772|ENST00000329251|EEF1G ENSG00000254772|ENST00000329251|EEF1G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.2823486328125 2 592.28018 1182.54581 3.2395 0.0019187 0.18802 0.00011136 3.4275 0.00203 592.2805906861696 53.659 0.51238 54.463 54.436 54.948 0.80351 53 25 3 0 0 0 0.14214 2 24583 24531;24583 36.127 15.176 1 1425600 33479 6279 21210 21279 37712;37713 37713 -0.03816329187861811 TYPGARDFSQL 11 Unmodified _TYPGARDFSQL_ 0 0 0 ENST00000465147.1_1_3:122662281-122667506:-|nuORF;chr3:122912234-122912843|501|15.29|0.24|6.01|-|ENST00000195173|SEMA5B,SEMA5B;nc|ENSG00000082684|Q9P283-2|SEMA5B;chr3:122913424-122913537|482|10.41|0.17|5.91|-|ENST00000648990|SEMA5B,SEMA5B;nc|ENSG00000082684|Q9P283-3|SEMA5B;ENSG00000082684|ENST00000357599|SEMA5B;nc|ENSG00000082684|Q9P283-4|SEMA5B ENST00000465147.1_1_3:122662281-122667506:-|nuORF ENST00000465147.1_1_3:122662281-122667506:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 627.8110961914062 2 627.809302 1253.60405 3.7711 0.0023676 -1.7555 -0.0011021 2.0156 0.0012654 628.3089646911791 49.386 0.22855 49.386 49.357 49.586 0 15 8 2 0 0 0 0.26146 1 22668 22668 26.268 8.1218 1 535200 33480 167 21211 21280 37714 37714 -0.01260692333244151 TYPKIWVKV 9 Unmodified _TYPKIWVKV_ 0 0 0 nc|ENSG00000243649|P00751-2|CFB;ENSG00000243649|ENST00000425368|CFB nc|ENSG00000243649|P00751-2|CFB nc|ENSG00000243649|P00751-2|CFB MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.2936401367188 2 567.33951 1132.66447 3.5211 0.0019977 -0.51481 -0.00029207 3.0063 0.0017056 567.3393642297189 51.577 0.45084 51.577 51.21 51.66 0 32 24 2 0 0 0 0.10218 1 23538 23538 10.824 2.9138 1 239740 33481 6237 21212 21281 37715 37715 0.10344069787788612 TYPKIWVKV 9 Unmodified _TYPKIWVKV_ 0 0 0 nc|ENSG00000243649|P00751-2|CFB;ENSG00000243649|ENST00000425368|CFB nc|ENSG00000243649|P00751-2|CFB nc|ENSG00000243649|P00751-2|CFB MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 378.2113342285156 3 378.562099 1132.66447 2.3021 0.00087149 0.10992 4.1611E-05 2.412 0.0009131 378.56213803730657 50.58 0.44102 51.397 51.202 51.643 0.81738 33 21 2 0 0 0 0.092818 1 23049 23049 10.8 9.728 1 859950 33482 6237 21212 21281 37716 37716 0.10344069787788612 TYPKIWVKV 9 Unmodified _TYPKIWVKV_ 0 0 0 nc|ENSG00000243649|P00751-2|CFB;ENSG00000243649|ENST00000425368|CFB nc|ENSG00000243649|P00751-2|CFB nc|ENSG00000243649|P00751-2|CFB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3399047851562 2 567.33951 1132.66447 3.394 0.0019256 -0.16488 -9.3541E-05 3.2291 0.001832 567.3392491954595 51.396 0.36363 51.659 51.45 51.813 0.26228 39 17 3 0 0 0 0.049036 3 23479 23419;23479;23527 47.594 38.176 1 1259100 33483 6237 21212 21281 37717;37718;37719 37718 0.10344069787788612 TYPKIWVKV 9 Unmodified _TYPKIWVKV_ 0 0 0 nc|ENSG00000243649|P00751-2|CFB;ENSG00000243649|ENST00000425368|CFB nc|ENSG00000243649|P00751-2|CFB nc|ENSG00000243649|P00751-2|CFB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 378.56317138671875 3 378.562099 1132.66447 2.6341 0.00099718 -0.060924 -2.3063E-05 2.5732 0.00097411 378.5621583901633 51.415 0.57953 51.677 51.28 51.86 0.26227 42 26 2 0 0 0 0.071101 3 23460 23460;23513;23542 36.506 28.897 1 2937200 33484 6237 21212 21281 37720;37721;37722 37720 0.10344069787788612 TYPKIWVKV 9 Unmodified _TYPKIWVKV_ 0 0 0 nc|ENSG00000243649|P00751-2|CFB;ENSG00000243649|ENST00000425368|CFB nc|ENSG00000243649|P00751-2|CFB nc|ENSG00000243649|P00751-2|CFB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.340087890625 2 567.33951 1132.66447 3.4547 0.00196 0.22397 0.00012707 3.6787 0.0020871 567.3394784855425 50.764 0.5734 51.424 51.033 51.606 0.65956 70 32 3 0 0 0 0.078225 4 23246 23142;23199;23246;23252 38.176 30.02 1 1067900 33485 6237 21212 21281 37723;37724;37725;37726 37725 0.10344069787788612 TYPKIWVKV 9 Unmodified _TYPKIWVKV_ 0 0 0 nc|ENSG00000243649|P00751-2|CFB;ENSG00000243649|ENST00000425368|CFB nc|ENSG00000243649|P00751-2|CFB nc|ENSG00000243649|P00751-2|CFB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.5634460449219 3 378.562099 1132.66447 2.5706 0.00097313 0.17471 6.6139E-05 2.7453 0.0010393 378.5622040944594 50.772 0.66715 51.431 50.973 51.64 0.65956 69 36 2 0 0 0 0.36069 1 23237 23237 14.405 11.67 1 2179800 33486 6237 21212 21281 37727 37727 0.10344069787788612 TYPKIWVKV 9 Unmodified _TYPKIWVKV_ 0 0 0 nc|ENSG00000243649|P00751-2|CFB;ENSG00000243649|ENST00000425368|CFB nc|ENSG00000243649|P00751-2|CFB nc|ENSG00000243649|P00751-2|CFB MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 378.562099 1132.66447 2.9 0.0010978 -0.45596 -0.00017261 2.4441 0.00092523 378.5618180926326 51.525 0.54476 51.525 51.187 51.732 0 0.016949 -0.00045165 NaN 36.506 55 29 2 NaN NaN NaN NaN 0 NaN NaN 0 455090 33487 6237 21212 21281 0.10344069787788612 TYQDIQNTI 9 Unmodified _TYQDIQNTI_ 0 0 0 nc|ENSG00000181222|P24928|POLR2A;ENSG00000181222|ENST00000674977|POLR2A nc|ENSG00000181222|P24928|POLR2A nc|ENSG00000181222|P24928|POLR2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.2711181640625 2 548.269478 1094.5244 3.6138 0.0019813 -0.14632 -8.0225E-05 3.4675 0.0019011 548.2693994504629 48.133 0.41104 48.133 47.978 48.389 0 56 22 4 0 0 0 2.5075E-05 3 21998 21998;22053;22103 142.08 66.319 1 6941000 33488 5284 21213 21282 37728;37729;37730 37728 -0.019077590072356543 TYQDIQNTI 9 Unmodified _TYQDIQNTI_ 0 0 0 nc|ENSG00000181222|P24928|POLR2A;ENSG00000181222|ENST00000674977|POLR2A nc|ENSG00000181222|P24928|POLR2A nc|ENSG00000181222|P24928|POLR2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1095.535888671875 1 1095.53168 1094.5244 3.1564 0.0034579 0.15681 0.00017179 3.3132 0.0036297 1095.5321895311606 48.164 0.22364 48.164 48.025 48.248 0 15 8 2 0 0 0 0.27958 1 22089 22089 18.146 4.2403 1 474210 33489 5284 21213 21282 37731 37731 -0.019077590072356543 TYQDIQNTI 9 Unmodified _TYQDIQNTI_ 0 0 0 nc|ENSG00000181222|P24928|POLR2A;ENSG00000181222|ENST00000674977|POLR2A nc|ENSG00000181222|P24928|POLR2A nc|ENSG00000181222|P24928|POLR2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.2713012695312 2 548.269478 1094.5244 3.0886 0.0016934 0.33102 0.00018149 3.4197 0.0018749 548.269684817286 47.247 0.40284 48.076 47.857 48.26 0.82915 67 24 4 0 0 0 1.0706E-08 4 21511 21457;21511;21561;21588 155.03 42.534 1 6177000 33490 5284 21213 21282 37732;37733;37734;37735 37733 -0.019077590072356543 TYQDIQNTI 9 Unmodified _TYQDIQNTI_ 0 0 0 nc|ENSG00000181222|P24928|POLR2A;ENSG00000181222|ENST00000674977|POLR2A nc|ENSG00000181222|P24928|POLR2A nc|ENSG00000181222|P24928|POLR2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.271484375 2 548.269478 1094.5244 3.7435 0.0020525 0.15676 8.5949E-05 3.9003 0.0021384 548.2695344782959 48.15 0.42474 48.412 48.181 48.606 0.26209 49 18 4 0 0 0 2.5075E-05 3 22010 21952;22010;22060 142.08 38.726 1 6738800 33491 5284 21213 21282 37736;37737;37738 37737 -0.019077590072356543 TYQDIQNTI 9 Unmodified _TYQDIQNTI_ 0 0 0 nc|ENSG00000181222|P24928|POLR2A;ENSG00000181222|ENST00000674977|POLR2A nc|ENSG00000181222|P24928|POLR2A nc|ENSG00000181222|P24928|POLR2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.2715454101562 2 548.269478 1094.5244 3.5576 0.0019505 0.2227 0.0001221 3.7803 0.0020726 548.2696185233847 47.608 0.47111 48.262 48.063 48.534 0.65356 60 20 4 0 0 0 2.5075E-05 3 21795 21743;21795;21844 142.08 27.431 1 5797000 33492 5284 21213 21282 37739;37740;37741 37740 -0.019077590072356543 TYQRWQFTL 9 Unmodified _TYQRWQFTL_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 621.8194580078125 2 621.81693 1241.61931 3.2266 0.0020063 -0.91266 -0.00056751 2.3139 0.0014388 621.8162857422551 67.785 0.19136 67.785 67.673 67.864 0 40 21 3 0 0 0 0.0023358 1 32556 32556 100.71 60.751 1 2636300 33493 4968 21214 21283 37742 37742 0.008162192546024016 TYQRWQFTL 9 Unmodified _TYQRWQFTL_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 622.3199462890625 2 621.81693 1241.61931 2.7598 0.0017161 -0.072504 -4.5084E-05 2.6873 0.001671 622.3182329360794 66.573 0.25073 67.278 67.167 67.418 0.7047 51 29 2 0 0 0 0.0017155 3 31557 31532;31557;31615 107.1 59.351 1 3203200 33494 4968 21214 21283 37743;37744;37745 37744 0.008162192546024016 TYQRWQFTL 9 Unmodified _TYQRWQFTL_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 621.8197631835938 2 621.81693 1241.61931 3.8966 0.002423 0.51009 0.00031718 4.4067 0.0027402 621.816992253722 67.78 0.25753 68.032 67.896 68.154 0.25227 35 16 3 0 0 0 0.0017155 2 31038 31038;31096 107.1 61.4 1 1008500 33495 4968 21214 21283 37746;37747 37746 0.008162192546024016 TYQRWQFTL 9 Unmodified _TYQRWQFTL_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 621.81693 1241.61931 3.6841 0.0022908 0.54079 0.00033627 4.2249 0.0026271 621.8176983220368 67.163 0.28705 67.821 67.699 67.987 0.65777 -0.058461 0.00058198 NaN 107.1 31 15 3 NaN NaN NaN NaN 0 NaN NaN 0 946240 33496 4968 21214 21283 0.008162192546024016 TYQVLAVTF 9 Unmodified _TYQVLAVTF_ 0 0 0 ENST00000474025.1_1_1:31744094-31762265:-|nuORF;ENST00000489853.1_1_1:31732921-31754364:-|nuORF;ENSG00000060688|ENST00000263694|SNRNP40;nc|ENSG00000060688|Q96DI7-2|SNRNP40 ENST00000474025.1_1_1:31744094-31762265:-|nuORF ENST00000474025.1_1_1:31744094-31762265:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.2864990234375 2 521.2844 1040.55425 3.3144 0.0017278 0.86853 0.00045275 4.183 0.0021805 521.2849908823475 83.061 0.22729 83.308 83.175 83.403 0.24722 17 11 2 0 0 0 0.071132 1 38245 38245 39.95 12.321 1 655480 33497 643 21215 21284 37748 37748 0.035592247287468126 TYQVLAVTF 9 Unmodified _TYQVLAVTF_ 0 0 0 ENST00000474025.1_1_1:31744094-31762265:-|nuORF;ENST00000489853.1_1_1:31732921-31754364:-|nuORF;ENSG00000060688|ENST00000263694|SNRNP40;nc|ENSG00000060688|Q96DI7-2|SNRNP40 ENST00000474025.1_1_1:31744094-31762265:-|nuORF ENST00000474025.1_1_1:31744094-31762265:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.2850341796875 2 521.2844 1040.55425 3.4869 0.0018176 0.50346 0.00026245 3.9903 0.0020801 521.2845132553655 82.464 0.32652 83.124 83.014 83.341 0.66019 28 21 2 0 0 0 0.136 1 38019 38019 27.629 10.687 1 266700 33498 643 21215 21284 37749 37749 0.035592247287468126 TYRLFAVVY 9 Unmodified _TYRLFAVVY_ 0 0 0 ENSG00000103194|ENST00000219473|USP10;nc|ENSG00000103194|Q14694-3|USP10;nc|ENSG00000103194|Q14694-2|USP10;ENST00000548656.2_1_14:19411434-19411701:-|nuORF ENSG00000103194|ENST00000219473|USP10 ENSG00000103194|ENST00000219473|USP10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.31689453125 2 566.313492 1130.61243 2.9793 0.0016872 0.0026864 1.5214E-06 2.982 0.0016887 566.313357075515 71.362 0.16805 72.025 71.897 72.065 0.66324 20 13 2 0 0 0 0.33646 1 32691 32691 15.248 8.5253 1 393460 33499 1381 21216 21285 37750 37750 0.052349063740621204 TYRNVMEQF 9 Unmodified _TYRNVMEQF_ 0 0 0 ENST00000462558.5_1_7:97937677-98030347:-|nuORF;ENSG00000006453|ENST00000005260|BAIAP2L1 ENST00000462558.5_1_7:97937677-98030347:-|nuORF ENST00000462558.5_1_7:97937677-98030347:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 594.2819213867188 2 594.279323 1186.54409 3.4134 0.0020285 -0.26285 -0.00015621 3.1506 0.0018723 594.2795558958435 48.994 0.31259 48.994 48.842 49.154 0 37 16 3 0 0 0 0.035495 2 22410 22410;22457 53.404 28.005 1 1531800 33500 348 21217 21286 37751;37752 37751 -0.041717062681300376 TYRNVMEQF 9 Unmodified _TYRNVMEQF_ 0 0 0 ENST00000462558.5_1_7:97937677-98030347:-|nuORF;ENSG00000006453|ENST00000005260|BAIAP2L1 ENST00000462558.5_1_7:97937677-98030347:-|nuORF ENST00000462558.5_1_7:97937677-98030347:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 594.2808227539062 2 594.279323 1186.54409 3.4622 0.0020575 -1.0776 -0.00064039 2.3846 0.0014171 594.2790079431649 47.7 0.35033 48.529 48.364 48.715 0.82915 42 16 4 0 0 0 0.013715 2 21717 21717;21781 76.825 40.698 1 1215600 33501 348 21217 21286 37753;37754 37753 -0.041717062681300376 TYRNVMEQF 9 Unmodified _TYRNVMEQF_ 0 0 0 ENST00000462558.5_1_7:97937677-98030347:-|nuORF;ENSG00000006453|ENST00000005260|BAIAP2L1 ENST00000462558.5_1_7:97937677-98030347:-|nuORF ENST00000462558.5_1_7:97937677-98030347:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 594.279323 1186.54409 3.8017 0.0022593 -0.30801 -0.00018304 3.4937 0.0020762 594.2790304839633 49.064 0.3256 49.325 49.143 49.468 0.26146 0.13052 0.00015118 NaN 53.404 23 12 3 NaN NaN NaN NaN 0 NaN NaN 0 822880 33502 348 21217 21286 -0.041717062681300376 TYRNVMEQF 9 Unmodified _TYRNVMEQF_ 0 0 0 ENST00000462558.5_1_7:97937677-98030347:-|nuORF;ENSG00000006453|ENST00000005260|BAIAP2L1 ENST00000462558.5_1_7:97937677-98030347:-|nuORF ENST00000462558.5_1_7:97937677-98030347:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 594.279323 1186.54409 4.0699 0.0024187 -0.73088 -0.00043435 3.339 0.0019843 594.2791813809505 48.61 0.31624 49.265 49.085 49.401 0.65524 0.070502 -0.00035142 NaN 53.404 21 11 3 NaN NaN NaN NaN 0 NaN NaN 0 640320 33503 348 21217 21286 -0.041717062681300376 TYRRCRRRGR 10 Unmodified _TYRRCRRRGR_ 0 0 0 ENST00000542643.6_1_1:21923469-21929393:-|nuORF;ENST00000374763.6_2_1:21923469-21929399:-|nuORF ENST00000542643.6_1_1:21923469-21929393:-|nuORF ENST00000542643.6_1_1:21923469-21929393:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 690.2674560546875 2 690.38672 1378.75889 NaN NaN NaN NaN NaN NaN NaN 52.342 1 53.152 52.652 53.652 0.81065 0 0 0 1.0015 1 23847 23847 0.45834 0 1 33504 7385 21218 21287 37755 37755 0.08465698110830999 TYRRYHVQG 9 Unmodified _TYRRYHVQG_ 0 0 0 REV__nc|ENSG00000070610|Q9HCG7-3|GBA2 REV__nc|ENSG00000070610|Q9HCG7-3|GBA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.3059692382812 2 590.304521 1178.59449 NaN NaN NaN NaN NaN NaN NaN 15.504 1 16.158 15.658 16.658 0.65356 0 0 0 0.90611 1 6983 6983 2.0598 0 1 + 33505 10479 21219 21288 37756 37756 0.012335841718822849 TYRRYHVQG 9 Unmodified _TYRRYHVQG_ 0 0 0 REV__nc|ENSG00000070610|Q9HCG7-3|GBA2 REV__nc|ENSG00000070610|Q9HCG7-3|GBA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.3052978515625 2 590.304521 1178.59449 NaN NaN NaN NaN NaN NaN NaN 15.707 1 16.365 15.865 16.865 0.65798 0 0 0 0.90611 1 7076 7076 2.0598 0 1 + 33506 10479 21219 21288 37757 37757 0.012335841718822849 TYRRYHVQG 9 Unmodified _TYRRYHVQG_ 0 0 0 REV__nc|ENSG00000070610|Q9HCG7-3|GBA2 REV__nc|ENSG00000070610|Q9HCG7-3|GBA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.3063354492188 2 590.304521 1178.59449 NaN NaN NaN NaN NaN NaN NaN 15.93 1 16.588 16.088 17.088 0.65798 0 0 0 0.90611 1 7179 7179 2.0598 0 1 + 33507 10479 21219 21288 37758 37758 0.012335841718822849 TYSDQYDQL 9 Unmodified _TYSDQYDQL_ 0 0 0 REV__ENST00000390288.6_1_12:56865273-56865705:-|nuORF REV__ENST00000390288.6_1_12:56865273-56865705:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.8416748046875 2 566.743293 1131.47203 NaN NaN NaN NaN NaN NaN NaN 58.988 1 59.747 59.247 60.247 0.75894 0 0 0 0.69911 1 27107 27107 12.532 2.3482 1 + 33508 12016 21220 21289 37759 37759 -0.08844342140855588 TYSHGNYLF 9 Unmodified _TYSHGNYLF_ 0 0 0 ENSG00000124333|ENST00000286448|VAMP7;nc|ENSG00000292366|P51809-2|VAMP7 ENSG00000124333|ENST00000286448|VAMP7 ENSG00000124333|ENST00000286448|VAMP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.2539672851562 2 551.253631 1100.49271 3.594 0.0019812 -0.39986 -0.00022042 3.1942 0.0017608 551.2531650385037 49.221 0.20679 49.221 49.118 49.324 0 12 8 2 0 0 0 0.032303 1 22553 22553 54.774 30.1 1 548440 33509 2357 21221 21290 37760 37760 -0.053517069705321774 TYSHGNYLF 9 Unmodified _TYSHGNYLF_ 0 0 0 ENSG00000124333|ENST00000286448|VAMP7;nc|ENSG00000292366|P51809-2|VAMP7 ENSG00000124333|ENST00000286448|VAMP7 ENSG00000124333|ENST00000286448|VAMP7 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 551.253631 1100.49271 3.6625 0.002019 -0.19736 -0.00010879 3.4651 0.0019102 551.2534676882148 48.749 0.15131 49.404 49.281 49.432 0.65525 0.091462 7.7229E-05 NaN 54.774 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 255640 33510 2357 21221 21290 -0.053517069705321774 TYSPALNKMF 10 Unmodified _TYSPALNKMF_ 0 0 0 TP53|p.H178Qfs*3|1|0.17|ENSG00000141510|chr17:7675078-7675079|-/T|frameshift_variant;ENST00000505014.5_1_17:7578140-7579834:-|nuORF;nc|ENSG00000141510|P04637-5|TP53;nc|ENSG00000141510|P04637-6|TP53;nc|ENSG00000141510|P04637-2|TP53;nc|ENSG00000141510|P04637-3|TP53;nc|ENSG00000141510|P04637-4|TP53;ENSG00000141510|ENST00000269305|TP53 TP53|p.H178Qfs*3|1|0.17|ENSG00000141510|chr17:7675078-7675079|-/T|frameshift_variant TP53|p.H178Qfs*3|1|0.17|ENSG00000141510|chr17:7675078-7675079|-/T|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.2955322265625 2 586.294442 1170.57433 3.5091 0.0020574 -0.36902 -0.00021635 3.1401 0.001841 586.2942322764643 58.269 0.26806 58.269 58.073 58.341 0 51 29 2 0 0 0 2.9921E-06 3 26870 26790;26818;26870 129.77 87.933 1 9608400 33511 3263 21222 21291 37761;37762;37763 37763 -0.004133476029210215 TYSPALNKMF 10 Unmodified _TYSPALNKMF_ 0 0 0 TP53|p.H178Qfs*3|1|0.17|ENSG00000141510|chr17:7675078-7675079|-/T|frameshift_variant;ENST00000505014.5_1_17:7578140-7579834:-|nuORF;nc|ENSG00000141510|P04637-5|TP53;nc|ENSG00000141510|P04637-6|TP53;nc|ENSG00000141510|P04637-2|TP53;nc|ENSG00000141510|P04637-3|TP53;nc|ENSG00000141510|P04637-4|TP53;ENSG00000141510|ENST00000269305|TP53 TP53|p.H178Qfs*3|1|0.17|ENSG00000141510|chr17:7675078-7675079|-/T|frameshift_variant TP53|p.H178Qfs*3|1|0.17|ENSG00000141510|chr17:7675078-7675079|-/T|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 586.296142578125 2 586.294442 1170.57433 3.0268 0.0017746 -0.50697 -0.00029723 2.5198 0.0014774 586.2942437344775 57.176 0.26471 57.945 57.812 58.077 0.76861 76 26 4 0 0 0 2.5181999999999998E-28 2 26178 26133;26178 181.69 137.83 1 5992800 33512 3263 21222 21291 37764;37765 37765 -0.004133476029210215 TYSPALNKMF 10 Unmodified _TYSPALNKMF_ 0 0 0 TP53|p.H178Qfs*3|1|0.17|ENSG00000141510|chr17:7675078-7675079|-/T|frameshift_variant;ENST00000505014.5_1_17:7578140-7579834:-|nuORF;nc|ENSG00000141510|P04637-5|TP53;nc|ENSG00000141510|P04637-6|TP53;nc|ENSG00000141510|P04637-2|TP53;nc|ENSG00000141510|P04637-3|TP53;nc|ENSG00000141510|P04637-4|TP53;ENSG00000141510|ENST00000269305|TP53 TP53|p.H178Qfs*3|1|0.17|ENSG00000141510|chr17:7675078-7675079|-/T|frameshift_variant TP53|p.H178Qfs*3|1|0.17|ENSG00000141510|chr17:7675078-7675079|-/T|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.2962036132812 2 586.294442 1170.57433 3.4554 0.0020259 -0.13322 -7.8105E-05 3.3222 0.0019478 586.7961610210956 58.114 0.31779 58.376 58.133 58.451 0.26227 56 19 4 0 0 0 1.825E-05 3 26584 26536;26584;26630 118.07 80.094 1 5189400 33513 3263 21222 21291 37766;37767;37768 37767 -0.004133476029210215 TYSPALNKMF 10 Unmodified _TYSPALNKMF_ 0 0 0 TP53|p.H178Qfs*3|1|0.17|ENSG00000141510|chr17:7675078-7675079|-/T|frameshift_variant;ENST00000505014.5_1_17:7578140-7579834:-|nuORF;nc|ENSG00000141510|P04637-5|TP53;nc|ENSG00000141510|P04637-6|TP53;nc|ENSG00000141510|P04637-2|TP53;nc|ENSG00000141510|P04637-3|TP53;nc|ENSG00000141510|P04637-4|TP53;ENSG00000141510|ENST00000269305|TP53 TP53|p.H178Qfs*3|1|0.17|ENSG00000141510|chr17:7675078-7675079|-/T|frameshift_variant TP53|p.H178Qfs*3|1|0.17|ENSG00000141510|chr17:7675078-7675079|-/T|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.2963256835938 2 586.294442 1170.57433 3.5781 0.0020978 -1.0132 -0.00059404 2.5649 0.0015038 586.2939215185928 57.391 0.28225 58.059 57.972 58.254 0.66829 56 21 4 0 0 0 2.6299E-05 2 26300 26248;26300 114.65 87.02 1 4110800 33514 3263 21222 21291 37769;37770 37770 -0.004133476029210215 TYSYTCDDD 9 Unmodified _TYSYTCDDD_ 0 0 0 REV__ENSG00000132470|ENST00000200181|ITGB4 REV__ENSG00000132470|ENST00000200181|ITGB4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.46826171875 2 541.684587 1081.35462 NaN NaN NaN NaN NaN NaN NaN 63.56 1 64.282 63.782 64.782 0.72236 0 0 0 0.90611 1 29786 29786 2.0598 0.40713 1 + 33515 11893 21223 21292 37771 37771 -0.1828024307196756 TYTDRVFFL 9 Unmodified _TYTDRVFFL_ 0 0 0 ENSG00000196576|ENST00000359337|PLXNB2;ENST00000479701.5_1_22:50714135-50720918:-|nuORF ENSG00000196576|ENST00000359337|PLXNB2 ENSG00000196576|ENST00000359337|PLXNB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.3015747070312 2 581.300581 1160.58661 2.7961 0.0016254 0.41092 0.00023887 3.207 0.0018643 581.3006052055688 73.545 0.27496 74.244 74.14 74.415 0.69881 66 24 3 0 0 0 0.0020727 2 35467 35467;35515 103.42 61.464 1 9384400 33516 5758 21224 21293 37772;37773 37772 0.012740121317847297 TYTDRVFFL 9 Unmodified _TYTDRVFFL_ 0 0 0 ENSG00000196576|ENST00000359337|PLXNB2;ENST00000479701.5_1_22:50714135-50720918:-|nuORF ENSG00000196576|ENST00000359337|PLXNB2 ENSG00000196576|ENST00000359337|PLXNB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.3023071289062 2 581.300581 1160.58661 3.089 0.0017956 -0.16943 -9.8493E-05 2.9195 0.0016971 581.3005505563625 74.4 0.3292 74.658 74.499 74.829 0.25831 100 39 3 0 0 0 0.0076144 2 34168 34168;34234 86.332 41.589 1 7223700 33517 5758 21224 21293 37774;37775 37774 0.012740121317847297 TYTDRVFFL 9 Unmodified _TYTDRVFFL_ 0 0 0 ENSG00000196576|ENST00000359337|PLXNB2;ENST00000479701.5_1_22:50714135-50720918:-|nuORF ENSG00000196576|ENST00000359337|PLXNB2 ENSG00000196576|ENST00000359337|PLXNB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.3019409179688 2 581.300581 1160.58661 3.0838 0.0017926 -0.57407 -0.00033371 2.5098 0.0014589 581.3000350464071 73.853 0.27644 74.518 74.365 74.641 0.6644 77 32 3 0 0 0 0.0027913 2 33985 33936;33985 96.367 46.434 1 5856100 33518 5758 21224 21293 37776;37777 37777 0.012740121317847297 TYTDRVFFL 9 Unmodified _TYTDRVFFL_ 0 0 0 ENSG00000196576|ENST00000359337|PLXNB2;ENST00000479701.5_1_22:50714135-50720918:-|nuORF ENSG00000196576|ENST00000359337|PLXNB2 ENSG00000196576|ENST00000359337|PLXNB2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 581.300581 1160.58661 3.0095 0.0017494 -0.61205 -0.00035579 2.3974 0.0013936 581.3003715447068 74.622 0.27106 74.622 74.448 74.719 0 0.11145 -0.00067395 NaN 103.42 36 24 2 NaN NaN NaN NaN 0 NaN NaN 0 8625800 33519 5758 21224 21293 0.012740121317847297 TYTDVTPRQF 10 Unmodified _TYTDVTPRQF_ 0 0 0 ENST00000462501.1_1_2:96858901-96861247:-|nuORF;ENSG00000084090|ENST00000337288|STARD7 ENST00000462501.1_1_2:96858901-96861247:-|nuORF ENST00000462501.1_1_2:96858901-96861247:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 614.3073120117188 2 614.303852 1226.59315 NaN NaN NaN NaN NaN NaN NaN 40.717 1 41.359 40.859 41.859 0.64136 0 0 0 0.93639 1 18614 18614 22.658 13.913 1 33520 950 21225 21294 37778 37778 -0.011080947075242875 TYTDVTPRQFF 11 Unmodified _TYTDVTPRQFF_ 0 0 0 ENST00000462501.1_1_2:96858901-96861247:-|nuORF;ENSG00000084090|ENST00000337288|STARD7 ENST00000462501.1_1_2:96858901-96861247:-|nuORF ENST00000462501.1_1_2:96858901-96861247:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 687.840576171875 2 687.838059 1373.66157 3.7691 0.0025925 0.10163 6.9907E-05 3.8707 0.0026624 687.8391815718651 62.052 0.25388 62.304 62.155 62.409 0.25245 16 12 2 0 0 0 0.15681 1 28399 28399 32.037 21.887 1 477880 33521 950 21226 21295 37779 37779 -0.010318501276969982 TYTDVTPRQFF 11 Unmodified _TYTDVTPRQFF_ 0 0 0 ENST00000462501.1_1_2:96858901-96861247:-|nuORF;ENSG00000084090|ENST00000337288|STARD7 ENST00000462501.1_1_2:96858901-96861247:-|nuORF ENST00000462501.1_1_2:96858901-96861247:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 688.3421630859375 2 687.838059 1373.66157 3.8682 0.0026607 -1.0747 -0.00073922 2.7935 0.0019215 687.8371788807506 61.424 0.2097 62.087 61.956 62.166 0.66261 20 13 2 0 0 0 0.16415 1 28118 28118 30.703 18.463 1 709550 33522 950 21226 21295 37780 37780 -0.010318501276969982 TYTEFVPQI 9 Unmodified _TYTEFVPQI_ 0 0 0 nc|ENSG00000242265|Q86TG7|PEG10;ENSG00000242265|ENST00000612748|PEG10;nc|ENSG00000242265|Q86TG7-4|PEG10;ENST00000482108.1_2_7:94293788-94294991:+|nuORF nc|ENSG00000242265|Q86TG7|PEG10 nc|ENSG00000242265|Q86TG7|PEG10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.28076171875 2 549.279315 1096.54408 3.0526 0.0016767 -0.055441 -3.0452E-05 2.9971 0.0016463 549.2791496274887 76.236 0.30858 76.236 76.025 76.334 0 56 24 3 0 0 0 0.0044949 2 37367 37301;37367 92.822 68.802 1 1268700 33523 6230 21227 21296 37781;37782 37782 -0.0003338299648021348 TYTEFVPQI 9 Unmodified _TYTEFVPQI_ 0 0 0 nc|ENSG00000242265|Q86TG7|PEG10;ENSG00000242265|ENST00000612748|PEG10;nc|ENSG00000242265|Q86TG7-4|PEG10;ENST00000482108.1_2_7:94293788-94294991:+|nuORF nc|ENSG00000242265|Q86TG7|PEG10 nc|ENSG00000242265|Q86TG7|PEG10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.2808227539062 2 549.279315 1096.54408 2.7115 0.0014893 -0.24213 -0.000133 2.4693 0.0013564 549.2792360473786 75.284 0.24651 75.947 75.85 76.097 0.6635 28 15 2 0 0 0 0.0044949 1 36460 36460 92.822 67.423 1 1543800 33524 6230 21227 21296 37783 37783 -0.0003338299648021348 TYTEFVPQI 9 Unmodified _TYTEFVPQI_ 0 0 0 nc|ENSG00000242265|Q86TG7|PEG10;ENSG00000242265|ENST00000612748|PEG10;nc|ENSG00000242265|Q86TG7-4|PEG10;ENST00000482108.1_2_7:94293788-94294991:+|nuORF nc|ENSG00000242265|Q86TG7|PEG10 nc|ENSG00000242265|Q86TG7|PEG10 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 549.279315 1096.54408 3.1234 0.0017156 -0.29319 -0.00016104 2.8303 0.0015546 549.2791378107393 75.485 0.12666 76.15 76.048 76.174 0.6644 0.038564 -0.00014034 NaN 92.822 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 449030 33525 6230 21227 21296 -0.0003338299648021348 TYTFSLEGSG 10 Unmodified _TYTFSLEGSG_ 0 0 0 ENSG00000132669|ENST00000255006|RIN2;nc|ENSG00000132669|Q8WYP3-2|RIN2 ENSG00000132669|ENST00000255006|RIN2 ENSG00000132669|ENST00000255006|RIN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.2449340820312 2 531.242929 1060.47131 3.313 0.00176 0.098821 5.2498E-05 3.4118 0.0018125 531.2428777218548 29.612 0.36197 29.87 29.721 30.082 0.25804 56 27 3 0 0 0 0.68517 1 13515 13515 13.906 3.0821 1 684450 33526 2718 21228 21297 37784 37784 -0.056511367899020115 TYTLISRRRKW 11 Unmodified _TYTLISRRRKW_ 0 0 0 REV__nc|ENSG00000134343|Q9BYT9-2|ANO3 REV__nc|ENSG00000134343|Q9BYT9-2|ANO3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.95751953125 3 493.956282 1478.84702 NaN NaN NaN NaN NaN NaN NaN 86.002 1 86.032 85.532 86.532 0.030289 0 0 0 1.0072 1 43164 43164 0.45452 0 1 + 33527 11962 21229 21298 37785 37785 0.12674597182422076 TYTSGIVRL 9 Unmodified _TYTSGIVRL_ 0 0 0 ENSG00000168038|ENST00000301831|ULK4 ENSG00000168038|ENST00000301831|ULK4 ENSG00000168038|ENST00000301831|ULK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.288818359375 2 505.287474 1008.5604 3.0172 0.0015245 0.80506 0.00040679 3.8222 0.0019313 505.2878118436969 49.961 0.26847 49.961 49.822 50.091 0 30 12 3 0 0 0 0.019364 1 22896 22896 69.105 20.759 1 775850 33528 4598 21230 21299 37786 37786 0.056457429602915 TYTSGIVRL 9 Unmodified _TYTSGIVRL_ 0 0 0 ENSG00000168038|ENST00000301831|ULK4 ENSG00000168038|ENST00000301831|ULK4 ENSG00000168038|ENST00000301831|ULK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.79083251953125 2 505.287474 1008.5604 3.1478 0.0015905 -0.36988 -0.0001869 2.7779 0.0014036 505.28732919785824 48.933 0.31466 49.76 49.621 49.936 0.82705 37 16 3 0 0 0 0.02631 3 22312 22275;22312;22321 60.074 20.117 1 587000 33529 4598 21230 21299 37787;37788;37789 37788 0.056457429602915 TYTSNLVRL 9 Unmodified _TYTSNLVRL_ 0 0 0 nc|ENSG00000116138|Q9Y2G8-2|DNAJC16;ENSG00000116138|ENST00000375847|DNAJC16;ENST00000475133.5_1_1:15892828-15894669:+|nuORF nc|ENSG00000116138|Q9Y2G8-2|DNAJC16 nc|ENSG00000116138|Q9Y2G8-2|DNAJC16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.802001953125 2 533.798206 1065.58186 3.2607 0.0017405 1.0853 0.00057933 4.346 0.0023199 533.7990553857187 51.318 0.23083 51.318 51.187 51.418 0 18 11 2 0 0 0 0.03963 1 23508 23508 51.63 24.746 1 452340 33530 2015 21231 21300 37790 37790 0.051691279890064834 TYTSNLVRL 9 Unmodified _TYTSNLVRL_ 0 0 0 nc|ENSG00000116138|Q9Y2G8-2|DNAJC16;ENSG00000116138|ENST00000375847|DNAJC16;ENST00000475133.5_1_1:15892828-15894669:+|nuORF nc|ENSG00000116138|Q9Y2G8-2|DNAJC16 nc|ENSG00000116138|Q9Y2G8-2|DNAJC16 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 533.798206 1065.58186 3.0485 0.0016273 0.46763 0.00024962 3.5162 0.0018769 533.7990912267339 50.397 0.10843 51.22 51.165 51.273 0.82285 -0.048866 -0.00044023 NaN 51.63 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 449720 33531 2015 21231 21300 0.051691279890064834 TYVALTVV 8 Unmodified _TYVALTVV_ 0 0 0 REV__nc|ENSG00000127325|Q8N1M1-1|BEST3 REV__nc|ENSG00000127325|Q8N1M1-1|BEST3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 433.256591796875 2 433.255111 864.49567 3.1641 0.0013709 -0.24181 -0.00010477 2.9223 0.0012661 433.2549017633532 51.107 0.30906 51.107 50.938 51.247 0 35 16 3 0 0 0 0.60592 1 23426 23426 13.508 0 1 1656000 + 33532 11735 21232 21301 37791 37791 0.058001681542691585 TYVDSSHTI 9 Unmodified _TYVDSSHTI_ 0 0 0 nc|ENSG00000038427|P13611-5|VCAN;ENSG00000038427|ENST00000265077|VCAN;nc|ENSG00000038427|P13611-3|VCAN nc|ENSG00000038427|P13611-5|VCAN nc|ENSG00000038427|P13611-5|VCAN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.7453308105469 2 511.743096 1021.47164 3.4153 0.0017478 0.42197 0.00021594 3.8373 0.0019637 511.7431697061934 27.874 0.26441 27.874 27.739 28.004 0 46 21 3 0 0 0 0.0028306 1 12546 12546 96.285 68.656 1 2134700 33533 521 21233 21302 37792 37792 -0.03823717070042676 TYVDSSHTI 9 Unmodified _TYVDSSHTI_ 0 0 0 nc|ENSG00000038427|P13611-5|VCAN;ENSG00000038427|ENST00000265077|VCAN;nc|ENSG00000038427|P13611-3|VCAN nc|ENSG00000038427|P13611-5|VCAN nc|ENSG00000038427|P13611-5|VCAN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 511.7450256347656 2 511.743096 1021.47164 3.2358 0.0016559 -0.043175 -2.2094E-05 3.1926 0.0016338 511.7431710520088 26.908 0.25535 27.687 27.559 27.814 0.7787 37 18 3 0 0 0 0.0063783 2 12075 12075;12121 88.904 63.504 1 1789600 33534 521 21233 21302 37793;37794 37793 -0.03823717070042676 TYVDSSHTI 9 Unmodified _TYVDSSHTI_ 0 0 0 nc|ENSG00000038427|P13611-5|VCAN;ENSG00000038427|ENST00000265077|VCAN;nc|ENSG00000038427|P13611-3|VCAN nc|ENSG00000038427|P13611-5|VCAN nc|ENSG00000038427|P13611-5|VCAN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 511.7450866699219 2 511.743096 1021.47164 3.2608 0.0016687 0.86257 0.00044141 4.1233 0.0021101 511.74355000055743 27.704 0.19091 27.967 27.861 28.052 0.26245 20 11 2 0 0 0 0.052704 1 12602 12602 46.021 30.253 1 383970 33535 521 21233 21302 37795 37795 -0.03823717070042676 TYVDSSHTI 9 Unmodified _TYVDSSHTI_ 0 0 0 nc|ENSG00000038427|P13611-5|VCAN;ENSG00000038427|ENST00000265077|VCAN;nc|ENSG00000038427|P13611-3|VCAN nc|ENSG00000038427|P13611-5|VCAN nc|ENSG00000038427|P13611-5|VCAN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 511.7454528808594 2 511.743096 1021.47164 3.2665 0.0016716 0.83791 0.0004288 4.1045 0.0021004 511.7436270808747 27.303 0.28143 27.925 27.763 28.044 0.62179 30 17 2 0 0 0 0.020151 1 12511 12511 68.081 48.642 1 373910 33536 521 21233 21302 37796 37796 -0.03823717070042676 TYVFFVNTL 9 Unmodified _TYVFFVNTL_ 0 0 0 ENSG00000169402|ENST00000404077|RSPH10B2 ENSG00000169402|ENST00000404077|RSPH10B2 ENSG00000169402|ENST00000404077|RSPH10B2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.7962646484375 2 552.292225 1102.5699 3.2768 0.0018098 0.27732 0.00015316 3.5541 0.0019629 552.7938309043801 72.958 0.20908 73.217 73.139 73.348 0.25876 41 23 2 0 0 0 0.12301 1 33504 33504 28.487 1.6032 1 1188900 33537 4689 21234 21303 37797 37797 0.02271511245817237 TYVFQVFI 8 Unmodified _TYVFQVFI_ 0 0 0 CSMD3|p.G3594V|1|0.24|ENSG00000164796|chr8:112231592-112231592|C/A|missense_variant CSMD3|p.G3594V|1|0.24|ENSG00000164796|chr8:112231592-112231592|C/A|missense_variant CSMD3|p.G3594V|1|0.24|ENSG00000164796|chr8:112231592-112231592|C/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1016.5469970703125 1 1016.54515 1015.53787 4.0949 0.0041627 0.14024 0.00014256 4.2351 0.0043052 1016.5445328072277 94.077 0.22092 94.337 94.247 94.468 0.25975 15 9 2 0 0 0 0.26384 1 43225 43225 38.151 11.81 1 482940 33538 248 21235 21304 37798 37798 0.030721435626674065 TYVFQVFI 8 Unmodified _TYVFQVFI_ 0 0 0 CSMD3|p.G3594V|1|0.24|ENSG00000164796|chr8:112231592-112231592|C/A|missense_variant CSMD3|p.G3594V|1|0.24|ENSG00000164796|chr8:112231592-112231592|C/A|missense_variant CSMD3|p.G3594V|1|0.24|ENSG00000164796|chr8:112231592-112231592|C/A|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1016.55029296875 1 1016.54515 1015.53787 3.8116 0.0038747 0.5729 0.00058238 4.3845 0.0044571 1016.545159911559 93.441 0.24763 94.072 93.992 94.24 0.63115 16 10 2 0 0 0 0.16336 1 42994 42994 46.921 12.734 1 524000 33539 248 21235 21304 37799 37799 0.030721435626674065 TYVKEIEVW 9 Unmodified _TYVKEIEVW_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF;nc|ENSG00000173821|Q63HN8-5|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.3104858398438 2 583.808239 1165.60193 3.5673 0.0020826 -1.0016 -0.00058476 2.5657 0.0014979 583.8079474727746 59.307 0.45523 59.974 59.748 60.203 0.66703 34 20 2 0 0 0 0.020338 3 27116 27088;27116;27187 67.838 42.424 1 2873100 33540 4953 21236 21305 37800;37801;37802 37801 0.025748789289536944 TYVKEIEVW 9 Unmodified _TYVKEIEVW_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF;nc|ENSG00000173821|Q63HN8-5|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 583.808239 1165.60193 3.4873 0.0020359 -0.50014 -0.00029199 2.9872 0.0017439 583.8085890012802 59.832 0.44791 60.092 59.955 60.403 0.2593 0.058933 0.00028138 NaN 67.838 50 25 4 NaN NaN NaN NaN 0 NaN NaN 0 1524300 33541 4953 21236 21305 0.025748789289536944 TYVSGTLRF 9 Unmodified _TYVSGTLRF_ 0 0 0 ENSG00000134255|ENST00000357172|CEPT1 ENSG00000134255|ENST00000357172|CEPT1 ENSG00000134255|ENST00000357172|CEPT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.2839965820312 2 522.279649 1042.54475 2.8806 0.0015045 1.2495 0.00065261 4.1301 0.0021571 522.2805702078778 51.924 0.31166 52.735 52.604 52.916 0.81066 36 21 2 0 0 0 0.099327 2 23647 23647;23686 41.956 3.9816 1 829310 33542 2792 21237 21306 37803;37804 37803 0.02517456443251831 TYVTEVREL 9 Unmodified _TYVTEVREL_ 0 0 0 nc|ENSG00000126777|Q86UP2-2|KTN1;nc|ENSG00000126777|Q86UP2-3|KTN1;nc|ENSG00000126777|Q86UP2-4|KTN1;ENSG00000126777|ENST00000395314|KTN1 nc|ENSG00000126777|Q86UP2-2|KTN1 nc|ENSG00000126777|Q86UP2-2|KTN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.2976684570312 2 555.295496 1108.57644 3.7454 0.0020798 0.2042 0.00011339 3.9496 0.0021932 555.2952626651535 45.337 0.27183 45.988 45.807 46.078 0.65104 16 11 2 0 0 0 0.55815 1 20789 20789 11.495 2.7493 1 197640 33543 2464 21238 21307 37805 37805 0.026494044065202615 TYVTEVREL 9 Unmodified _TYVTEVREL_ 0 0 0 nc|ENSG00000126777|Q86UP2-2|KTN1;nc|ENSG00000126777|Q86UP2-3|KTN1;nc|ENSG00000126777|Q86UP2-4|KTN1;ENSG00000126777|ENST00000395314|KTN1 nc|ENSG00000126777|Q86UP2-2|KTN1 nc|ENSG00000126777|Q86UP2-2|KTN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 555.295496 1108.57644 3.3809 0.0018774 -0.59127 -0.00032833 2.7897 0.0015491 555.2950322761848 46.059 0.17874 46.059 45.953 46.132 0 0.12077 -0.00048938 NaN 11.495 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 490240 33544 2464 21238 21307 0.026494044065202615 TYVTEVREL 9 Unmodified _TYVTEVREL_ 0 0 0 nc|ENSG00000126777|Q86UP2-2|KTN1;nc|ENSG00000126777|Q86UP2-3|KTN1;nc|ENSG00000126777|Q86UP2-4|KTN1;ENSG00000126777|ENST00000395314|KTN1 nc|ENSG00000126777|Q86UP2-2|KTN1 nc|ENSG00000126777|Q86UP2-2|KTN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 555.295496 1108.57644 3.2234 0.0017899 -0.76982 -0.00042747 2.4535 0.0013624 555.7960591098554 44.948 0.22104 45.769 45.633 45.854 0.82075 -0.17005 -0.00068767 NaN 11.495 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 489360 33545 2464 21238 21307 0.026494044065202615 TYVTILPEL 9 Unmodified _TYVTILPEL_ 0 0 0 ENSG00000114127|ENST00000392981|XRN1;nc|ENSG00000114127|Q8IZH2|XRN1;ENST00000472697.5_1_3:142095319-142144369:-|nuORF;nc|ENSG00000114127|Q8IZH2-3|XRN1 ENSG00000114127|ENST00000392981|XRN1 ENSG00000114127|ENST00000392981|XRN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.8012084960938 2 524.799883 1047.58521 3.7583 0.0019724 0.12599 6.6122E-05 3.8843 0.0020385 524.7998299112076 90.561 0.30795 90.812 90.649 90.957 0.25136 28 14 3 0 0 0 0.0044949 2 41668 41621;41668 92.822 44.476 1 631230 33546 1891 21239 21308 37806;37807 37807 0.06332378042998243 TYVTILPEL 9 Unmodified _TYVTILPEL_ 0 0 0 ENSG00000114127|ENST00000392981|XRN1;nc|ENSG00000114127|Q8IZH2|XRN1;ENST00000472697.5_1_3:142095319-142144369:-|nuORF;nc|ENSG00000114127|Q8IZH2-3|XRN1 ENSG00000114127|ENST00000392981|XRN1 ENSG00000114127|ENST00000392981|XRN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.8032836914062 2 524.799883 1047.58521 3.4832 0.001828 1.1015 0.00057805 4.5846 0.002406 524.8001556899886 89.972 0.31972 90.644 90.516 90.835 0.67271 26 14 3 0 0 0 0.0044949 1 41411 41411 92.822 44.476 1 379740 33547 1891 21239 21308 37808 37808 0.06332378042998243 TYVWKIFS 8 Unmodified _TYVWKIFS_ 0 0 0 nc|ENSG00000116005|Q9UHG3-2|PCYOX1;ENSG00000116005|ENST00000433351|PCYOX1 nc|ENSG00000116005|Q9UHG3-2|PCYOX1 nc|ENSG00000116005|Q9UHG3-2|PCYOX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.2813110351562 2 522.28166 1042.54877 3.3106 0.001729 -1.6636 -0.00086889 1.6469 0.00086016 522.2810460486121 53.058 0.2342 53.058 52.895 53.129 0 27 12 3 0 0 0 0.26351 2 24281 24281;24327 46.021 24.274 1 1175700 33548 2006 21240 21309 37809;37810 37809 0.029195459369248056 TYVWKIFS 8 Unmodified _TYVWKIFS_ 0 0 0 nc|ENSG00000116005|Q9UHG3-2|PCYOX1;ENSG00000116005|ENST00000433351|PCYOX1 nc|ENSG00000116005|Q9UHG3-2|PCYOX1 nc|ENSG00000116005|Q9UHG3-2|PCYOX1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.812255859375 2 522.28166 1042.54877 3.4469 0.0018002 -1.6732 -0.00087389 1.7736 0.00092634 522.2807137957091 52.835 0.20301 53.099 52.915 53.118 0.26345 15 8 2 0 0 0 0.095832 1 24113 24113 32.305 1.6689 1 561430 33549 2006 21240 21309 37811 37811 0.029195459369248056 TYVWKIFS 8 Unmodified _TYVWKIFS_ 0 0 0 nc|ENSG00000116005|Q9UHG3-2|PCYOX1;ENSG00000116005|ENST00000433351|PCYOX1 nc|ENSG00000116005|Q9UHG3-2|PCYOX1 nc|ENSG00000116005|Q9UHG3-2|PCYOX1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.8126831054688 2 522.28166 1042.54877 3.1647 0.0016529 0.14322 7.48E-05 3.3079 0.0017277 522.2819131346934 52.4 0.2695 53.062 52.877 53.146 0.66198 14 11 2 0 0 0 0.073935 1 23939 23939 32.305 10.559 1 350110 33550 2006 21240 21309 37812 37812 0.029195459369248056 TYVYFTNEL 9 Unmodified _TYVYFTNEL_ 0 0 0 ENSG00000121858|ENST00000241261|TNFSF10;ENST00000466777.1_1_3:172236192-172241222:-|nuORF;nc|ENSG00000121858|P50591-2|TNFSF10;ENST00000472804.1_1_3:172229350-172241222:-|nuORF;ENST00000494851.5_1_3:172226989-172241222:-|nuORF ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1150.2156982421875 1 1149.54627 1148.53899 2.5714 0.0029559 0.081585 9.3786E-05 2.653 0.0030497 1149.5459279840945 74.427 0.24742 74.427 74.287 74.534 0 32 22 2 0 0 0 0.063575 2 36301 36301;36398 41.84 8.7487 1 3564700 33551 2245 21241 21310 37813;37814 37813 -0.02933686859091722 TYVYFTNEL 9 Unmodified _TYVYFTNEL_ 0 0 0 ENSG00000121858|ENST00000241261|TNFSF10;ENST00000466777.1_1_3:172236192-172241222:-|nuORF;nc|ENSG00000121858|P50591-2|TNFSF10;ENST00000472804.1_1_3:172229350-172241222:-|nuORF;ENST00000494851.5_1_3:172226989-172241222:-|nuORF ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.2782592773438 2 575.276772 1148.53899 3.0222 0.0017386 0.3713 0.0002136 3.3935 0.0019522 575.2767953640358 74.426 0.32858 74.426 74.226 74.555 0 75 30 3 0 0 0 0.052704 1 36309 36309 46.021 19.753 1 14484000 33552 2245 21241 21310 37815 37815 -0.02933686859091722 TYVYFTNEL 9 Unmodified _TYVYFTNEL_ 0 0 0 ENSG00000121858|ENST00000241261|TNFSF10;ENST00000466777.1_1_3:172236192-172241222:-|nuORF;nc|ENSG00000121858|P50591-2|TNFSF10;ENST00000472804.1_1_3:172229350-172241222:-|nuORF;ENST00000494851.5_1_3:172226989-172241222:-|nuORF ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.2786254882812 2 575.276772 1148.53899 3.0034 0.0017278 0.36809 0.00021175 3.3714 0.0019395 575.2768548710222 73.444 0.37323 74.142 74.016 74.389 0.69881 81 36 3 0 0 0 0.0046538 3 35473 35416;35473;35530 92.491 48.719 1 14667000 33553 2245 21241 21310 37816;37817;37818 37817 -0.02933686859091722 TYVYFTNEL 9 Unmodified _TYVYFTNEL_ 0 0 0 ENSG00000121858|ENST00000241261|TNFSF10;ENST00000466777.1_1_3:172236192-172241222:-|nuORF;nc|ENSG00000121858|P50591-2|TNFSF10;ENST00000472804.1_1_3:172229350-172241222:-|nuORF;ENST00000494851.5_1_3:172226989-172241222:-|nuORF ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1149.5518798828125 1 1149.54627 1148.53899 2.8688 0.0032979 -0.12671 -0.00014566 2.7421 0.0031522 1149.5460873730628 74.155 0.27393 74.413 74.298 74.572 0.25876 77 32 3 0 0 0 0.29781 1 34047 34047 16.942 0.79319 1 3499900 33554 2245 21241 21310 37819 37819 -0.02933686859091722 TYVYFTNEL 9 Unmodified _TYVYFTNEL_ 0 0 0 ENSG00000121858|ENST00000241261|TNFSF10;ENST00000466777.1_1_3:172236192-172241222:-|nuORF;nc|ENSG00000121858|P50591-2|TNFSF10;ENST00000472804.1_1_3:172229350-172241222:-|nuORF;ENST00000494851.5_1_3:172226989-172241222:-|nuORF ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.2787475585938 2 575.276772 1148.53899 3.0369 0.0017471 0.133 7.651E-05 3.1699 0.0018236 575.2767574339999 74.162 0.39349 74.421 74.249 74.643 0.25876 129 48 4 0 0 0 0.029308 2 34048 34048;34146 56.177 24.909 1 11032000 33555 2245 21241 21310 37820;37821 37820 -0.02933686859091722 TYVYFTNEL 9 Unmodified _TYVYFTNEL_ 0 0 0 ENSG00000121858|ENST00000241261|TNFSF10;ENST00000466777.1_1_3:172236192-172241222:-|nuORF;nc|ENSG00000121858|P50591-2|TNFSF10;ENST00000472804.1_1_3:172229350-172241222:-|nuORF;ENST00000494851.5_1_3:172226989-172241222:-|nuORF ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 575.2783813476562 2 575.276772 1148.53899 3.1525 0.0018136 -0.30129 -0.00017332 2.8512 0.0016403 575.276428852209 73.661 0.34328 74.325 74.186 74.529 0.6644 110 40 4 0 0 0 0.10837 2 33887 33833;33887 30.637 7.253 1 11829000 33556 2245 21241 21310 37822;37823 37823 -0.02933686859091722 TYVYFTNEL 9 Unmodified _TYVYFTNEL_ 0 0 0 ENSG00000121858|ENST00000241261|TNFSF10;ENST00000466777.1_1_3:172236192-172241222:-|nuORF;nc|ENSG00000121858|P50591-2|TNFSF10;ENST00000472804.1_1_3:172229350-172241222:-|nuORF;ENST00000494851.5_1_3:172226989-172241222:-|nuORF ENSG00000121858|ENST00000241261|TNFSF10 ENSG00000121858|ENST00000241261|TNFSF10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1149.548583984375 1 1149.54627 1148.53899 2.8018 0.0032208 -0.056027 -6.4405E-05 2.7458 0.0031564 1149.5456946984596 73.66 0.23547 74.325 74.218 74.453 0.6644 60 28 3 0 0 0 0.052704 1 33883 33883 46.021 24.484 1 3254200 33557 2245 21241 21310 37824 37824 -0.02933686859091722 TYWAGRTVSF 10 Unmodified _TYWAGRTVSF_ 0 0 0 ENST00000496131.1_1_1:44442124-44442513:+|nuORF ENST00000496131.1_1_1:44442124-44442513:+|nuORF ENST00000496131.1_1_1:44442124-44442513:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 594.294921875 2 594.29583 1186.57711 NaN NaN NaN NaN NaN NaN NaN 41.835 1 42.105 41.605 42.605 0.27021 0 0 0 0.9754 1 19060 19060 9.3831 0 1 33558 8441 21242 21311 37825 37825 -0.008717561537878282 TYYRGFLTL 9 Unmodified _TYYRGFLTL_ 0 0 0 ENST00000554761.5_1_14:90397883-90418750:-|nuORF;ENST00000553871.5_1_14:90263589-90418750:-|nuORF;nc|ENSG00000140025|Q9BUY7-6|EFCAB11;nc|ENSG00000140025|Q9BUY7-3|EFCAB11;ENST00000556639.5_1_14:90302986-90416480:-|nuORF;nc|ENSG00000140025|Q9BUY7-2|EFCAB11;nc|ENSG00000140025|Q9BUY7-5|EFCAB11;ENSG00000140025|ENST00000316738|EFCAB11 ENST00000554761.5_1_14:90397883-90418750:-|nuORF ENST00000554761.5_1_14:90397883-90418750:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3047485351562 2 567.303124 1132.5917 3.7787 0.0021437 0.010816 6.1357E-06 3.7895 0.0021498 567.3032114739303 69.122 0.19896 69.376 69.237 69.436 0.25443 20 12 2 0 0 0 0.057945 1 31649 31649 43.772 23.319 1 384210 33559 3178 21243 21312 37826 37826 0.030703159943641367 TYYRGFLTL 9 Unmodified _TYYRGFLTL_ 0 0 0 ENST00000554761.5_1_14:90397883-90418750:-|nuORF;ENST00000553871.5_1_14:90263589-90418750:-|nuORF;nc|ENSG00000140025|Q9BUY7-6|EFCAB11;nc|ENSG00000140025|Q9BUY7-3|EFCAB11;ENST00000556639.5_1_14:90302986-90416480:-|nuORF;nc|ENSG00000140025|Q9BUY7-2|EFCAB11;nc|ENSG00000140025|Q9BUY7-5|EFCAB11;ENSG00000140025|ENST00000316738|EFCAB11 ENST00000554761.5_1_14:90397883-90418750:-|nuORF ENST00000554761.5_1_14:90397883-90418750:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.305908203125 2 567.303124 1132.5917 3.4196 0.0019399 -0.16613 -9.4245E-05 3.2534 0.0018457 567.3032204252837 68.5 0.20914 69.159 69.062 69.271 0.65924 24 13 2 0 0 0 0.099775 1 31420 31420 32.786 0.4802 1 447560 33560 3178 21243 21312 37827 37827 0.030703159943641367 VAAAESHPL 9 Unmodified _VAAAESHPL_ 0 0 0 ENST00000489392.1_1_9:136216448-136216496:+|nuORF;ENST00000416120.1_1_6:64259201-64259360:-|nuORF ENST00000489392.1_1_9:136216448-136216496:+|nuORF ENST00000489392.1_1_9:136216448-136216496:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 447.7391052246094 2 447.737617 893.460681 2.94 0.0013164 0.064822 2.9023E-05 3.0048 0.0013454 447.7376031719678 20.007 0.23336 20.007 19.909 20.142 0 56 22 3 0 0 0 0.026068 2 8922 8922;8969 60.39 37.241 1 1500900 33561 7709 21244 21313 37828;37829 37828 0.009689253463307068 VAAAESHPL 9 Unmodified _VAAAESHPL_ 0 0 0 ENST00000489392.1_1_9:136216448-136216496:+|nuORF;ENST00000416120.1_1_6:64259201-64259360:-|nuORF ENST00000489392.1_1_9:136216448-136216496:+|nuORF ENST00000489392.1_1_9:136216448-136216496:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 447.7390441894531 2 447.737617 893.460681 2.6798 0.0011998 0.66814 0.00029915 3.3479 0.001499 447.7378419091668 19.553 0.21488 19.845 19.747 19.962 0.29239 46 18 3 0 0 0 0.041436 2 8864 8864;8916 50.855 27.707 1 1384900 33562 7709 21244 21313 37830;37831 37830 0.009689253463307068 VAAAESHPL 9 Unmodified _VAAAESHPL_ 0 0 0 ENST00000489392.1_1_9:136216448-136216496:+|nuORF;ENST00000416120.1_1_6:64259201-64259360:-|nuORF ENST00000489392.1_1_9:136216448-136216496:+|nuORF ENST00000489392.1_1_9:136216448-136216496:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 447.7391662597656 2 447.737617 893.460681 3.2465 0.0014536 -0.1754 -7.8532E-05 3.0711 0.0013751 447.7374319133184 19.199 0.23733 19.857 19.748 19.986 0.65829 41 16 4 0 0 0 0.026068 2 8696 8696;8743 60.39 37.241 1 1520600 33563 7709 21244 21313 37832;37833 37832 0.009689253463307068 VAAALKNV 8 Unmodified _VAAALKNV_ 0 0 0 REV__CON__Q95121 REV__CON__Q95121 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.2477722167969 2 393.247621 784.480688 NaN NaN NaN NaN NaN NaN NaN 88.905 1 89.156 88.656 89.656 0.25118 0 0 0 0.99035 1 40896 40896 0.79363 0 1 + + 33564 10103 21245 21314 37834 37834 0.0798272107693947 VAAALSRH 8 Unmodified _VAAALSRH_ 0 0 0 ENST00000463762.1_1_3:52739903-52740029:-|nuORF ENST00000463762.1_1_3:52739903-52740029:-|nuORF ENST00000463762.1_1_3:52739903-52740029:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 824.47607421875 1 824.473712 823.466435 3.3424 0.0027557 -2.904 -0.0023943 0.43842 0.00036147 824.4729810247196 94.661 0.12318 94.661 94.615 94.738 0 26 18 2 0 0 0 0.14069 1 50819 50819 2.8892 0 1 22664000 33565 8107 21246 21315 37835 37835 0.047640686486602135 VAAAVRRARRR 11 Unmodified _VAAAVRRARRR_ 0 0 0 ENST00000369002.8_1_6:108279187-108279283:-|nuORF ENST00000369002.8_1_6:108279187-108279283:-|nuORF ENST00000369002.8_1_6:108279187-108279283:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.8618774414062 2 641.407978 1280.8014 3.2981 0.0021154 -2.9291 -0.0018787 0.369 0.00023668 641.9080553966146 91.828 0.018829 91.828 91.819 91.838 0 4 2 2 0 0 0 0.7272 1 48619 48619 10.074 6.4774 1 6890900 33566 7288 21247 21316 37836 37836 0.17223416510728384 VAAGSYQRF 9 Unmodified _VAAGSYQRF_ 0 0 0 nc|ENSG00000160783|Q6P1K2-4|PMF1;ENSG00000160783|ENST00000368277|PMF1;nc|ENSG00000160783|Q6P1K2-3|PMF1;nc|ENSG00000160783|Q6P1K2-6|PMF1;nc|ENSG00000160783|Q6P1K2-5|PMF1 nc|ENSG00000160783|Q6P1K2-4|PMF1 nc|ENSG00000160783|Q6P1K2-4|PMF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.7581787109375 2 499.756341 997.498129 3.3119 0.0016552 0.64485 0.00032227 3.9568 0.0019774 499.7565665545397 28.12 0.20056 28.12 28.016 28.216 0 31 17 2 0 0 0 0.071132 2 12662 12662;12711 39.95 7.6442 1 446310 33567 4079 21248 21317 37837;37838 37837 -0.0007198338804528248 VAAGSYQRF 9 Unmodified _VAAGSYQRF_ 0 0 0 nc|ENSG00000160783|Q6P1K2-4|PMF1;ENSG00000160783|ENST00000368277|PMF1;nc|ENSG00000160783|Q6P1K2-3|PMF1;nc|ENSG00000160783|Q6P1K2-6|PMF1;nc|ENSG00000160783|Q6P1K2-5|PMF1 nc|ENSG00000160783|Q6P1K2-4|PMF1 nc|ENSG00000160783|Q6P1K2-4|PMF1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 499.756341 997.498129 3.11 0.0015542 0.46603 0.0002329 3.576 0.0017871 499.75659298059367 27.096 0.21153 27.875 27.782 27.993 0.7787 -0.12275 -0.00012401 NaN 39.95 30 16 3 NaN NaN NaN NaN 0 NaN NaN 0 330480 33568 4079 21248 21317 -0.0007198338804528248 VAAKKSPV 8 Unmodified _VAAKKSPV_ 0 0 0 NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant;nc|ENSG00000104722|P07197-2|NEFM;ENSG00000104722|ENST00000221166|NEFM NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.2564392089844 2 400.255446 798.496338 NaN NaN NaN NaN NaN NaN NaN 67.293 1 67.543 67.043 68.043 0.2501 0 0 0 0.99035 1 30827 30827 2.3027 0 1 33569 9895 21249 21318 37839 37839 0.08903007593994516 VAALITRSRR 10 Unmodified _VAALITRSRR_ 0 0 0 REV__ENST00000586027.5_1_19:14602515-14606910:-|nuORF REV__ENST00000586027.5_1_19:14602515-14606910:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.9009399414062 2 571.859464 1141.70437 NaN NaN NaN NaN NaN NaN NaN 96.269 1 96.269 95.769 96.769 0 0 0 0 0.99225 1 52056 52056 6.7232 2.3939 1 + 33570 17538 21250 21319 37840 37840 0.13919009511073455 VAALRKQHGEL 11 Unmodified _VAALRKQHGEL_ 0 0 0 nc|ENSG00000007202|Q14667-2|BLTP2;ENSG00000007202|ENST00000528896|BLTP2 nc|ENSG00000007202|Q14667-2|BLTP2 nc|ENSG00000007202|Q14667-2|BLTP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.357666015625 2 611.356754 1220.69895 NaN NaN NaN NaN NaN NaN NaN 100.28 1 100.59 100.09 101.09 0.30835 0 0 0 1.0055 1 46382 46382 3.5965 0 1 33571 362 21251 21320 37841 37841 0.09743285928607293 VAAMLLRKRR 10 Unmodified _VAAMLLRKRR_ 0 0 0 ENST00000606615.1_1_5:114598537-114598636:+|nuORF ENST00000606615.1_1_5:114598537-114598636:+|nuORF ENST00000606615.1_1_5:114598537-114598636:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 607.4810180664062 2 607.387334 1212.76011 NaN NaN NaN NaN NaN NaN NaN 95.56 1 95.56 95.06 96.06 0 0 0 0 0.99687 1 51484 51484 4.3292 2.485 1 33572 9324 21252 21321 37842 37842 0.16224519427032646 VAANHAGE 8 Unmodified _VAANHAGE_ 0 0 0 ENSG00000042781|ENST00000307340|USH2A;nc|ENSG00000042781|O75445-3|USH2A ENSG00000042781|ENST00000307340|USH2A ENSG00000042781|ENST00000307340|USH2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 769.0926513671875 1 768.363493 767.356216 4.6795 0.0035955 4.1929 0.0032217 8.8724 0.0068172 768.3654051309682 99.738 0.11284 100.05 100 100.11 0.30835 6 5 2 0 0 0 0.69414 1 46108 46108 6.3541 0 1 956810 33573 544 21253 21322 37843 37843 -0.03676776410372895 VAANSILIPTW 11 Unmodified _VAANSILIPTW_ 0 0 0 REV__nc|ENSG00000156650|Q8WYB5-3|KAT6B REV__nc|ENSG00000156650|Q8WYB5-3|KAT6B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.8391723632812 2 592.837331 1183.66011 NaN NaN NaN NaN NaN NaN NaN 97.902 1 97.972 97.472 98.472 0.070648 0 0 0 1.0041 1 52479 52479 5.2969 1.3525 1 + 33574 12779 21254 21323 37844 37844 0.07562560574228883 VAARALHS 8 Unmodified _VAARALHS_ 0 0 0 ENST00000557431.5_1_14:78227018-78227249:+|nuORF ENST00000557431.5_1_14:78227018-78227249:+|nuORF ENST00000557431.5_1_14:78227018-78227249:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 824.6527099609375 1 824.473712 823.466435 4.1591 0.0034291 -1.5111 -0.0012458 2.6481 0.0021833 824.4738569688135 98.503 0.085976 99.102 99.049 99.135 0.59885 12 8 2 0 0 0 0.13057 1 45420 45420 0 0 1 14934000 33575 8937 21255 21324 37845 37845 0.047640686486602135 VAARFRRRSRS 11 Unmodified _VAARFRRRSRS_ 0 0 0 REV__ENST00000532710.5_1_11:4116045-4116234:+|nuORF REV__ENST00000532710.5_1_11:4116045-4116234:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 681.4056396484375 2 681.402892 1360.79123 NaN NaN NaN NaN NaN NaN NaN 100.8 1 101.4 100.9 101.9 0.59717 0 0 0 1.0073 1 46668 46668 1.1933 0.12188 1 + 33576 17153 21256 21325 37846 37846 0.12526808785491994 VAARKGPC 8 Unmodified _VAARKGPC_ 0 0 0 REV__ENST00000366582.7_1_1:236719535-236721710:-|nuORF REV__ENST00000366582.7_1_1:236719535-236721710:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 401.22491455078125 2 401.223623 800.432692 3.0152 0.0012098 0.0077265 3.1E-06 3.023 0.0012129 401.22360120336856 14.424 0.12694 15.072 15.005 15.131 0.64819 14 9 2 0 0 0 0.65723 1 6495 6495 9.3474 9.3474 1 1412800 + 33577 15640 21257 21326 37847 37847 0.02449323885252852 VAARKGPC 8 Unmodified _VAARKGPC_ 0 0 0 REV__ENST00000366582.7_1_1:236719535-236721710:-|nuORF REV__ENST00000366582.7_1_1:236719535-236721710:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 401.223623 800.432692 2.76 0.0011074 -0.21043 -8.4429E-05 2.5496 0.001023 401.22356265423554 14.463 0.18463 14.77 14.683 14.867 0.3069 -0.15097 -8.1401E-05 NaN 9.3474 17 8 3 NaN NaN NaN NaN 0 NaN NaN 0 1021500 + 33578 15640 21257 21326 0.02449323885252852 VAARKGPC 8 Unmodified _VAARKGPC_ 0 0 0 REV__ENST00000366582.7_1_1:236719535-236721710:-|nuORF REV__ENST00000366582.7_1_1:236719535-236721710:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 401.223623 800.432692 3.0152 0.0012098 0.0077265 3.1E-06 3.023 0.0012129 401.22360120336856 14.424 0.12694 15.072 15.005 15.131 0.64819 0.15097 9.3657E-05 NaN 9.3474 14 9 2 NaN NaN NaN NaN 0 NaN NaN 0 1412800 + 33579 15640 21257 21326 0.02449323885252852 VAAYLQKNNDF 11 Unmodified _VAAYLQKNNDF_ 0 0 0 ENST00000418251.6_1_2:113943320-113958989:+|nuORF;ENST00000409656.5_1_2:113943320-113958989:+|nuORF;nc|ENSG00000125637|Q8NDX1-2|PSD4;ENSG00000125637|ENST00000245796|PSD4 ENST00000418251.6_1_2:113943320-113958989:+|nuORF ENST00000418251.6_1_2:113943320-113958989:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.6989135742188 2 641.824952 1281.63535 NaN NaN NaN NaN NaN NaN NaN 97.371 1 97.442 96.942 97.942 0.070648 0 0 0 0.97175 1 52033 52033 9.3831 2.0939 1 33580 2410 21258 21327 37848 37848 0.0057988070086594234 VAAYQWLLVP 10 Unmodified _VAAYQWLLVP_ 0 0 0 REV__ENSG00000154143|ENST00000284288|PANX3 REV__ENSG00000154143|ENST00000284288|PANX3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 580.376708984375 2 580.329142 1158.64373 NaN NaN NaN NaN NaN NaN NaN 97.171 1 97.242 96.742 97.742 0.070648 0 0 0 0.98473 1 51866 51866 7.9102 0 1 + 33581 12695 21259 21328 37849 37849 0.07075479408126739 VACGVLHL 8 Unmodified _VACGVLHL_ 0 0 0 nc|ENSG00000181409|Q6ZMQ8-3|AATK;ENSG00000181409|ENST00000326724|AATK nc|ENSG00000181409|Q6ZMQ8-3|AATK nc|ENSG00000181409|Q6ZMQ8-3|AATK MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.2160034179688 1 811.449471 810.442194 3.2678 0.0026517 1.0116 0.00082087 4.2794 0.0034725 811.4516249841273 87.408 0.19996 87.408 87.253 87.453 0 39 28 2 0 0 0 0.14069 1 45055 45055 6.3541 0 1 31910000 33582 5288 21260 21329 37850 37850 0.029390921707886264 VADEYGRYYYD 11 Unmodified _VADEYGRYYYD_ 0 0 0 REV__nc|ENSG00000180316|Q8N8W4|PNPLA1 REV__nc|ENSG00000180316|Q8N8W4|PNPLA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 707.5795288085938 2 707.301507 1412.58846 NaN NaN NaN NaN NaN NaN NaN 90.677 1 90.677 90.177 91.177 0 0 0 0 1.0071 1 47723 47723 1.4819 0 1 + 33583 13822 21261 21330 37851 37851 -0.10133023640946703 VADIKVLKKLL 11 Unmodified _VADIKVLKKLL_ 0 0 0 REV__ENST00000520864.5_1_5:170395310-170632776:+|nuORF REV__ENST00000520864.5_1_5:170395310-170632776:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 620.4251098632812 2 620.423574 1238.83259 NaN NaN NaN NaN NaN NaN NaN 103.19 1 103.19 102.69 103.69 0 0 0 0 1.008 1 56896 56896 0.35063 0.35063 1 + 33584 14439 21262 21331 37852 37852 0.22273131981614824 VADPVEAVL 9 Unmodified _VADPVEAVL_ 0 0 0 nc|ENSG00000137497|Q14980-4|NUMA1;nc|ENSG00000137497|Q14980-3|NUMA1;nc|ENSG00000137497|Q14980-2|NUMA1;ENSG00000137497|ENST00000393695|NUMA1;ENST00000537905.5_1_11:71735188-71747007:-|nuORF;ENST00000534987.5_1_11:71728600-71747007:-|nuORF;nc|ENSG00000137497|Q14980-5|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 912.5062866210938 1 912.503674 911.496398 3.1438 0.0028687 -0.19702 -0.00017979 2.9468 0.0026889 912.5032618957142 69.879 0.22213 69.879 69.804 70.026 0 42 25 2 0 0 0 0.015468 2 33862 33809;33862 74.423 23.568 1 3333900 33585 3022 21263 21332 37853;37854 37854 0.037109628033249464 VADPVEAVL 9 Unmodified _VADPVEAVL_ 0 0 0 nc|ENSG00000137497|Q14980-4|NUMA1;nc|ENSG00000137497|Q14980-3|NUMA1;nc|ENSG00000137497|Q14980-2|NUMA1;ENSG00000137497|ENST00000393695|NUMA1;ENST00000537905.5_1_11:71735188-71747007:-|nuORF;ENST00000534987.5_1_11:71728600-71747007:-|nuORF;nc|ENSG00000137497|Q14980-5|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.75592041015625 2 456.755475 911.496398 2.157 0.00098523 0.03736 1.7065E-05 2.1944 0.0010023 456.75554117731144 69.924 0.26538 69.924 69.79 70.055 0 46 31 2 0 0 0 0.028312 2 33812 33812;33867 57.471 13.064 1 1931000 33586 3022 21263 21332 37855;37856 37855 0.037109628033249464 VADPVEAVL 9 Unmodified _VADPVEAVL_ 0 0 0 nc|ENSG00000137497|Q14980-4|NUMA1;nc|ENSG00000137497|Q14980-3|NUMA1;nc|ENSG00000137497|Q14980-2|NUMA1;ENSG00000137497|ENST00000393695|NUMA1;ENST00000537905.5_1_11:71735188-71747007:-|nuORF;ENST00000534987.5_1_11:71728600-71747007:-|nuORF;nc|ENSG00000137497|Q14980-5|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.756103515625 2 456.755475 911.496398 NaN NaN NaN NaN NaN NaN NaN 68.959 1 69.661 69.161 70.161 0.70218 0 0 0 0.10934 1 32922 32922 39.957 11.47 1 33587 3022 21263 21332 37857 37857 0.037109628033249464 VADPVEAVL 9 Unmodified _VADPVEAVL_ 0 0 0 nc|ENSG00000137497|Q14980-4|NUMA1;nc|ENSG00000137497|Q14980-3|NUMA1;nc|ENSG00000137497|Q14980-2|NUMA1;ENSG00000137497|ENST00000393695|NUMA1;ENST00000537905.5_1_11:71735188-71747007:-|nuORF;ENST00000534987.5_1_11:71728600-71747007:-|nuORF;nc|ENSG00000137497|Q14980-5|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 912.5078735351562 1 912.503674 911.496398 3.9975 0.0036477 0.5178 0.0004725 4.5153 0.0041202 912.5040768777044 69.488 0.44943 69.743 69.494 69.943 0.25443 70 29 3 0 0 0 0.023109 4 31798 31748;31798;31843;31888 64.236 15.89 1 2273100 33588 3022 21263 21332 37858;37859;37860;37861 37859 0.037109628033249464 VADPVEAVL 9 Unmodified _VADPVEAVL_ 0 0 0 nc|ENSG00000137497|Q14980-4|NUMA1;nc|ENSG00000137497|Q14980-3|NUMA1;nc|ENSG00000137497|Q14980-2|NUMA1;ENSG00000137497|ENST00000393695|NUMA1;ENST00000537905.5_1_11:71735188-71747007:-|nuORF;ENST00000534987.5_1_11:71728600-71747007:-|nuORF;nc|ENSG00000137497|Q14980-5|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.7571716308594 2 456.755475 911.496398 2.9019 0.0013255 0.4312 0.00019695 3.3331 0.0015224 456.75574252005123 69.513 0.47438 69.768 69.494 69.968 0.25443 81 31 3 0 0 0 0.028312 4 31799 31750;31799;31844;31889 57.471 13.064 1 2279800 33589 3022 21263 21332 37862;37863;37864;37865 37863 0.037109628033249464 VADPVEAVL 9 Unmodified _VADPVEAVL_ 0 0 0 nc|ENSG00000137497|Q14980-4|NUMA1;nc|ENSG00000137497|Q14980-3|NUMA1;nc|ENSG00000137497|Q14980-2|NUMA1;ENSG00000137497|ENST00000393695|NUMA1;ENST00000537905.5_1_11:71735188-71747007:-|nuORF;ENST00000534987.5_1_11:71728600-71747007:-|nuORF;nc|ENSG00000137497|Q14980-5|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.75689697265625 2 456.755475 911.496398 2.7253 0.0012448 0.32434 0.00014814 3.0496 0.0013929 456.75561973183426 68.973 0.56376 69.633 69.322 69.886 0.65924 90 40 3 0 0 0 0.028312 4 31587 31540;31587;31635;31683 57.471 13.064 1 2069300 33590 3022 21263 21332 37866;37867;37868;37869 37867 0.037109628033249464 VADPVEAVL 9 Unmodified _VADPVEAVL_ 0 0 0 nc|ENSG00000137497|Q14980-4|NUMA1;nc|ENSG00000137497|Q14980-3|NUMA1;nc|ENSG00000137497|Q14980-2|NUMA1;ENSG00000137497|ENST00000393695|NUMA1;ENST00000537905.5_1_11:71735188-71747007:-|nuORF;ENST00000534987.5_1_11:71728600-71747007:-|nuORF;nc|ENSG00000137497|Q14980-5|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 nc|ENSG00000137497|Q14980-4|NUMA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 912.5068359375 1 912.503674 911.496398 3.6642 0.0033436 -0.10047 -9.1682E-05 3.5637 0.0032519 912.5034651335712 68.961 0.52357 69.62 69.362 69.886 0.65924 90 37 3 0 0 0 0.015468 4 31660 31572;31618;31660;31705 74.423 20.279 1 2684800 33591 3022 21263 21332 37870;37871;37872;37873 37872 0.037109628033249464 VADPYVVIM 9 Unmodified _VADPYVVIM_ 0 0 0 ENSG00000071894|ENST00000616140|CPSF1 ENSG00000071894|ENST00000616140|CPSF1 ENSG00000071894|ENST00000616140|CPSF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 503.7689514160156 2 503.767529 1005.5205 2.4887 0.0012537 0.14906 7.5092E-05 2.6378 0.0013288 503.7675700554265 76.503 0.32521 76.503 76.368 76.693 0 37 21 2 0 0 0 0.17594 1 37493 37493 34.102 7.7612 1 1553000 33592 782 21264 21333 37874 37874 0.01796479965355502 VADPYVVIM 9 Unmodified _VADPYVVIM_ 0 0 0 ENSG00000071894|ENST00000616140|CPSF1 ENSG00000071894|ENST00000616140|CPSF1 ENSG00000071894|ENST00000616140|CPSF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.7682189941406 2 503.767529 1005.5205 2.5554 0.0012873 -0.80737 -0.00040673 1.748 0.00088058 503.7671877585554 75.609 0.34296 76.273 76.077 76.42 0.6635 53 27 3 0 0 0 0.10584 1 36594 36594 42.095 20.348 1 1797400 33593 782 21264 21333 37875 37875 0.01796479965355502 VADPYVVIM 9 Unmodified _VADPYVVIM_ 0 0 0 ENSG00000071894|ENST00000616140|CPSF1 ENSG00000071894|ENST00000616140|CPSF1 ENSG00000071894|ENST00000616140|CPSF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.7690124511719 2 503.767529 1005.5205 3.0048 0.0015137 -0.025575 -1.2884E-05 2.9792 0.0015008 503.76753382673724 76.206 0.32382 76.463 76.272 76.596 0.25704 43 22 2 0 0 0 0.24524 1 35040 35040 28.487 13.905 1 1366800 33594 782 21264 21333 37876 37876 0.01796479965355502 VADPYVVIM 9 Unmodified _VADPYVVIM_ 0 0 0 ENSG00000071894|ENST00000616140|CPSF1 ENSG00000071894|ENST00000616140|CPSF1 ENSG00000071894|ENST00000616140|CPSF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1006.5321044921875 1 1006.52778 1005.5205 3.2744 0.0032958 0.40634 0.00040899 3.6808 0.0037048 1006.5284614014435 76.209 0.23972 76.466 76.327 76.566 0.25704 25 17 2 0 0 0 0.26118 2 35060 35060;35111 26.884 2.3186 1 874700 33595 782 21264 21333 37877;37878 37877 0.01796479965355502 VADPYVVIM 9 Unmodified _VADPYVVIM_ 0 0 0 ENSG00000071894|ENST00000616140|CPSF1 ENSG00000071894|ENST00000616140|CPSF1 ENSG00000071894|ENST00000616140|CPSF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1006.5313720703125 1 1006.52778 1005.5205 3.2606 0.0032819 -0.27406 -0.00027585 2.9865 0.003006 1006.5274487665602 75.695 0.24247 76.359 76.215 76.458 0.66387 31 21 2 0 0 0 0.26118 2 34839 34839;34883 26.884 2.2098 1 862940 33596 782 21264 21333 37879;37880 37879 0.01796479965355502 VADPYVVIM 9 Unmodified _VADPYVVIM_ 0 0 0 ENSG00000071894|ENST00000616140|CPSF1 ENSG00000071894|ENST00000616140|CPSF1 ENSG00000071894|ENST00000616140|CPSF1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 1006.52778 1005.5205 2.9073 0.0029263 -2.2126 -0.0022271 0.69474 0.00069928 1007.5271869456845 76.544 0.17453 76.544 76.432 76.607 0 0.087609 -0.0019912 NaN 26.884 17 10 2 NaN NaN NaN NaN 0 NaN NaN 0 1888200 33597 782 21264 21333 0.01796479965355502 VAEARRRPG 9 Unmodified _VAEARRRPG_ 0 0 0 ENST00000282308.3_1_19:58455414-58458942:-|nuORF;ENST00000598928.1_1_19:58452294-58458975:-|nuORF ENST00000282308.3_1_19:58455414-58458942:-|nuORF ENST00000282308.3_1_19:58455414-58458942:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.2940979003906 2 506.293956 1010.57336 NaN NaN NaN NaN NaN NaN NaN 85.22 1 85.248 84.748 85.748 0.028603 0 0 0 0.89683 1 42627 42627 4.3292 0 1 33598 6699 21265 21334 37881 37881 0.06849618863031992 VAEEECWNEVP 11 Unmodified _VAEEECWNEVP_ 0 0 0 REV__ENST00000342085.8_1_16:2652316-2652400:+|nuORF REV__ENST00000342085.8_1_16:2652316-2652400:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 652.9625244140625 2 652.77681 1303.53907 NaN NaN NaN NaN NaN NaN NaN 94.655 1 94.655 94.155 95.155 0 0 0 0 1.0055 1 50828 50828 3.5965 0.31518 1 + 33599 15470 21266 21335 37882 37882 -0.10056054921415125 VAEKVKGLL 9 Unmodified _VAEKVKGLL_ 0 0 0 REV__nc|ENSG00000227471|C9JRZ8|AKR1B15 REV__nc|ENSG00000227471|C9JRZ8|AKR1B15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 319.5437316894531 3 319.542816 955.606617 2.4251 0.00077492 0.24494 7.8268E-05 2.67 0.00085319 319.5428376353058 25.248 0.14278 25.516 25.461 25.604 0.26777 15 13 2 0 0 0 0.59921 1 11458 11458 10.8 2.3552 1 324380 + 33600 14565 21267 21336 37883 37883 0.12703807862385474 VAERWWRWRR 10 Unmodified _VAERWWRWRR_ 0 0 0 REV__ENST00000420484.2_1_9:130950179-130953656:-|nuORF REV__ENST00000420484.2_1_9:130950179-130953656:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 750.904541015625 2 750.907811 1499.80107 NaN NaN NaN NaN NaN NaN NaN 91.481 1 91.564 91.064 92.064 0.082848 0 0 0 1.0015 1 47423 47423 0.45834 0.10771 1 + 33601 16168 21268 21337 37884 37884 0.07115996790844292 VAESVSQQILR 11 Unmodified _VAESVSQQILR_ 0 0 0 ENST00000488602.1_1_22:39925499-39925935:-|nuORF;ENSG00000187051|ENST00000334678|RPS19BP1 ENST00000488602.1_1_22:39925499-39925935:-|nuORF ENST00000488602.1_1_22:39925499-39925935:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 615.3900756835938 2 615.346052 1228.67755 NaN NaN NaN NaN NaN NaN NaN 86.773 1 86.803 86.303 87.303 0.030289 0 0 0 0.94174 1 43753 43753 12.241 1.4167 1 33602 5599 21269 21338 37885 37885 0.0723585610921873 VAFAWKYRHKR 11 Unmodified _VAFAWKYRHKR_ 0 0 0 nc|ENSG00000139364|Q14DG7|TMEM132B;ENSG00000139364|ENST00000682704|TMEM132B;nc|ENSG00000139364|Q14DG7-3|TMEM132B nc|ENSG00000139364|Q14DG7|TMEM132B nc|ENSG00000139364|Q14DG7|TMEM132B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 731.2730102539062 2 731.414937 1460.81532 NaN NaN NaN NaN NaN NaN NaN 96.031 1 96.108 95.608 96.608 0.076538 0 0 0 1.0071 1 50928 50928 1.4819 0 1 33603 3144 21270 21339 37886 37886 0.10334649219134917 VAFGMLVSYLW 11 Unmodified _VAFGMLVSYLW_ 0 0 0 REV__PI4KA|p.S1815*|1|0.23|ENSG00000241973|chr22:20714476-20714477|-/A|frameshift_variant REV__PI4KA|p.S1815*|1|0.23|ENSG00000241973|chr22:20714476-20714477|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 643.2435302734375 2 643.33611 1284.65767 NaN NaN NaN NaN NaN NaN NaN 97.942 1 98.231 97.731 98.731 0.28923 0 0 0 0.99968 1 45047 45047 6.7232 0.09279 1 + 33604 14615 21271 21340 37887 37887 0.026723888449168953 VAFIRKRDKRV 11 Unmodified _VAFIRKRDKRV_ 0 0 0 ENSG00000168724|ENST00000648817|DNAJC21;nc|ENSG00000168724|Q5F1R6-3|DNAJC21;nc|ENSG00000168724|Q5F1R6-2|DNAJC21 ENSG00000168724|ENST00000648817|DNAJC21 ENSG00000168724|ENST00000648817|DNAJC21 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 694.4354248046875 2 694.43587 1386.85719 NaN NaN NaN NaN NaN NaN NaN 85.778 1 85.807 85.307 86.307 0.028603 0 0 0 1.008 1 43013 43013 0.35063 0 1 33605 4649 21272 21341 37888 37888 0.1792320490765178 VAFKLLILLL 10 Unmodified _VAFKLLILLL_ 0 0 0 ENSG00000162738|ENST00000368061|VANGL2 ENSG00000162738|ENST00000368061|VANGL2 ENSG00000162738|ENST00000368061|VANGL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.9910278320312 2 571.899203 1141.78385 NaN NaN NaN NaN NaN NaN NaN 84.896 1 84.896 84.396 85.396 0 0 0 0 1.0015 1 43094 43094 0.45834 0 1 33606 4163 21273 21342 37889 37889 0.21863263412524248 VAFMVLLIPL 10 Unmodified _VAFMVLLIPL_ 0 0 0 ENST00000502426.5_1_17:48736553-48755440:+|nuORF;nc|ENSG00000108846|O15438-2|ABCC3;ENSG00000108846|ENST00000285238|ABCC3;nc|ENSG00000108846|O15438-4|ABCC3;nc|ENSG00000108846|O15438-5|ABCC3 ENST00000502426.5_1_17:48736553-48755440:+|nuORF ENST00000502426.5_1_17:48736553-48755440:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.3502807617188 2 558.348489 1114.68242 NaN NaN NaN NaN NaN NaN NaN 101.27 1 101.27 100.77 101.77 0 0 0 0 0.99687 1 55951 55951 4.3292 0.38484 1 33607 1656 21274 21343 37890 37890 0.12967068718307928 VAFRIKVLDLP 11 Unmodified _VAFRIKVLDLP_ 0 0 0 REV__ENSG00000164933|ENST00000297578|SLC25A32 REV__ENSG00000164933|ENST00000297578|SLC25A32 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 635.4581298828125 2 635.897723 1269.78089 NaN NaN NaN NaN NaN NaN NaN 88.288 1 88.34 87.84 88.84 0.052155 0 0 0 1.0034 1 44925 44925 6.2058 0 1 + 33608 13122 21275 21344 37891 37891 0.15679388287708207 VAFRLPRVRVR 11 Unmodified _VAFRLPRVRVR_ 0 0 0 ENST00000575714.5_1_16:4408319-4455566:-|nuORF ENST00000575714.5_1_16:4408319-4455566:-|nuORF ENST00000575714.5_1_16:4408319-4455566:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 684.6918334960938 2 684.93858 1367.86261 NaN NaN NaN NaN NaN NaN NaN 84.339 1 84.339 83.839 84.839 0 0 0 0 1.0071 1 42682 42682 1.4819 0 1 33609 9121 21276 21345 37892 37892 0.19338928490128637 VAGGRRPAPI 10 Unmodified _VAGGRRPAPI_ 0 0 0 REV__ENST00000527113.1_1_11:558894-559837:+|nuORF REV__ENST00000527113.1_1_11:558894-559837:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 497.30023193359375 2 497.30125 992.587947 NaN NaN NaN NaN NaN NaN NaN 46.394 1 47.223 46.723 47.723 0.82915 0 0 0 0.99687 1 21131 21131 4.3292 1.44 1 + 33610 17101 21277 21346 37893 37893 0.09135691011169911 VAGPDQLL 8 Unmodified _VAGPDQLL_ 0 0 0 ENST00000311172.11_1_11:72548710-72548962:-|nuORF ENST00000311172.11_1_11:72548710-72548962:-|nuORF ENST00000311172.11_1_11:72548710-72548962:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 812.1544799804688 1 812.451245 811.443968 2.7152 0.0022059 1.7046 0.0013849 4.4197 0.0035908 812.4547628981392 88.559 0.023285 88.611 88.597 88.62 0.052155 4 2 2 0 0 0 0.14069 1 45128 45128 2.8892 0 1 14829000 33611 6868 21278 21347 37894 37894 0.03070424460383947 VAGRLLPV 8 Unmodified _VAGRLLPV_ 0 0 0 ENSG00000059588|ENST00000040877|TARBP1 ENSG00000059588|ENST00000040877|TARBP1 ENSG00000059588|ENST00000040877|TARBP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 824.8241577148438 1 824.535249 823.527973 2.5343 0.0020896 -1.5458 -0.0012746 0.98845 0.00081501 824.5349324844906 94.344 0.094727 94.43 94.355 94.45 0.086212 15 12 2 0 0 0 0.13779 1 49554 49554 6.3541 0 1 25914000 33612 636 21279 21348 37895 37895 0.10915000347949899 VAGRLLPV 8 Unmodified _VAGRLLPV_ 0 0 0 ENSG00000059588|ENST00000040877|TARBP1 ENSG00000059588|ENST00000040877|TARBP1 ENSG00000059588|ENST00000040877|TARBP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 824.535249 823.527973 3.338 0.0027523 -4.2393 -0.0034955 -0.90134 -0.00074318 824.5321286968309 94.277 0.17262 94.277 94.185 94.357 0 -0.076762 -0.00095209 NaN 6.3541 34 26 2 NaN NaN NaN NaN 0 NaN NaN 0 60821000 33613 636 21279 21348 0.10915000347949899 VAGSGRHK 8 Unmodified _VAGSGRHK_ 0 0 0 REV__ENSG00000060709|ENST00000690449|RIMBP2 REV__ENSG00000060709|ENST00000690449|RIMBP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.2176513671875 1 811.453311 810.446034 3.3084 0.0026846 -1.2267 -0.00099543 2.0817 0.0016892 811.454008918685 91.577 0.063095 91.577 91.544 91.607 0 13 9 2 0 0 0 0.14069 1 48392 48392 2.8892 0 1 11986000 + 33614 10398 21280 21349 37896 37896 0.03322897988846307 VAGSGRHK 8 Unmodified _VAGSGRHK_ 0 0 0 REV__ENSG00000060709|ENST00000690449|RIMBP2 REV__ENSG00000060709|ENST00000690449|RIMBP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.1011962890625 1 811.453311 810.446034 3.2668 0.0026508 0.80982 0.00065713 4.0766 0.003308 811.4580215287621 87.244 0.080154 87.244 87.208 87.288 0 15 11 2 0 0 0 0.14111 1 44917 44917 2.5775 0 1 23088000 + 33615 10398 21280 21349 37897 37897 0.03322897988846307 VAGSGRHK 8 Unmodified _VAGSGRHK_ 0 0 0 REV__ENSG00000060709|ENST00000690449|RIMBP2 REV__ENSG00000060709|ENST00000690449|RIMBP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.3942260742188 1 811.453311 810.446034 3.2869 0.0026671 -1.2274 -0.000996 2.0594 0.0016711 811.4536186313501 89.401 0.048424 89.401 89.374 89.423 0 9 6 2 0 0 0 0.13057 1 46664 46664 5.7604 0 1 21327000 + 33616 10398 21280 21349 37898 37898 0.03322897988846307 VAGSKHKS 8 Unmodified _VAGSKHKS_ 0 0 0 REV__nc|ENSG00000171604|Q7LFL8-2|CXXC5 REV__nc|ENSG00000171604|Q7LFL8-2|CXXC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 813.4622802734375 1 813.457727 812.450451 3.2951 0.0026804 -2.7243 -0.0022161 0.57075 0.00046428 813.4590898288565 90.101 0.016579 90.101 90.09 90.107 0 4 2 2 0 0 0 0.59268 1 47259 47259 14.582 6.6715 1 8618900 + 33617 13505 21281 21350 37899 37899 0.03672362411748509 VAGSKHKS 8 Unmodified _VAGSKHKS_ 0 0 0 REV__nc|ENSG00000171604|Q7LFL8-2|CXXC5 REV__nc|ENSG00000171604|Q7LFL8-2|CXXC5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 813.457727 812.450451 3.2951 0.0026804 -2.7243 -0.0022161 0.57075 0.00046428 813.4590898288565 90.101 0.016579 90.101 90.09 90.107 0 0 0 NaN 14.582 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 8618900 + 33618 13505 21281 21350 0.03672362411748509 VAGVVPNL 8 Unmodified _VAGVVPNL_ 0 0 0 REV__nc|ENSG00000078328|Q9NWB1-3|RBFOX1 REV__nc|ENSG00000078328|Q9NWB1-3|RBFOX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 384.7368469238281 2 384.734346 767.454139 NaN NaN NaN NaN NaN NaN NaN 55.343 1 55.343 54.843 55.843 0 0 0 0 0.99035 1 25427 25427 2.5775 0 1 + 33619 10570 21282 21351 37900 37900 0.06111032185606291 VAGYEKRAW 9 Unmodified _VAGYEKRAW_ 0 0 0 REV__nc|ENSG00000069702|Q03167-2|TGFBR3 REV__nc|ENSG00000069702|Q03167-2|TGFBR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.2860717773438 2 540.285266 1078.55598 NaN NaN NaN NaN NaN NaN NaN 12.743 1 13.386 12.886 13.886 0.64272 0 0 0 0.59707 1 5721 5721 15.847 0 1 + 33620 10471 21283 21352 37901 37901 0.01984278537361206 VAHFIRRLWAY 11 Unmodified _VAHFIRRLWAY_ 0 0 0 ENSG00000102313|ENST00000218436|ITIH6 ENSG00000102313|ENST00000218436|ITIH6 ENSG00000102313|ENST00000218436|ITIH6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 716.4048461914062 2 716.404038 1430.79352 NaN NaN NaN NaN NaN NaN NaN 85.926 1 85.926 85.426 86.426 0 0 0 0 1.0057 1 43895 43895 3.2813 0.54611 1 33621 1339 21284 21353 37902 37902 0.09535844470633492 VAHNALYKSKH 11 Unmodified _VAHNALYKSKH_ 0 0 0 REV__ENST00000338366.5_1_1:109606819-109606927:-|nuORF REV__ENST00000338366.5_1_1:109606819-109606927:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.5010375976562 2 634.348929 1266.6833 NaN NaN NaN NaN NaN NaN NaN 86.253 1 86.253 85.753 86.753 0 0 0 0 1.0038 1 44174 44174 5.7319 1.4026 1 + 33622 15435 21285 21354 37903 37903 0.060629994115288355 VAHTSYTRL 9 Unmodified _VAHTSYTRL_ 0 0 0 REV__ENSG00000083857|ENST00000441802|FAT1 REV__ENSG00000083857|ENST00000441802|FAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.74267578125 2 524.282723 1046.55089 NaN NaN NaN NaN NaN NaN NaN 85.644 1 85.644 85.144 86.144 0 0 0 0 0.89509 1 43673 43673 4.756 2.1785 1 + 33623 10632 21286 21355 37904 37904 0.029479746747256286 VAIAHFIH 8 Unmodified _VAIAHFIH_ 0 0 0 REV__nc|ENSG00000118816|Q14094-2|CCNI REV__nc|ENSG00000118816|Q14094-2|CCNI MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.26068115234375 2 454.261062 906.507572 NaN NaN NaN NaN NaN NaN NaN 29.638 1 29.896 29.396 30.396 0.25804 0 0 0 0.99035 1 13488 13488 6.3541 0 1 + 33624 11482 21287 21356 37905 37905 0.050578296881212736 VAIHILELLI 10 Unmodified _VAIHILELLI_ 0 0 0 ENST00000547670.5_1_12:49494396-49503620:-|nuORF;nc|ENSG00000139636|Q6UX01-5|LMBR1L;ENST00000550867.5_1_12:49494935-49504419:-|nuORF;nc|ENSG00000139636|Q6UX01-3|LMBR1L;nc|ENSG00000139636|Q6UX01-4|LMBR1L;nc|ENSG00000139636|Q6UX01-2|LMBR1L;ENSG00000139636|ENST00000267102|LMBR1L;ENST00000552879.5_1_12:49494935-49496886:-|nuORF ENST00000547670.5_1_12:49494396-49503620:-|nuORF ENST00000547670.5_1_12:49494396-49503620:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.5796203613281 3 378.58127 1132.72198 NaN NaN NaN NaN NaN NaN NaN 43.767 1 44.416 43.916 44.916 0.64872 0 0 0 1.0011 1 20060 20060 0.77653 0 1 33625 3156 21288 21357 37906 37906 0.16092911993382586 VAIIIWKKRRA 11 Unmodified _VAIIIWKKRRA_ 0 0 0 REV__ENSG00000111450|ENST00000392373|STX2 REV__ENSG00000111450|ENST00000392373|STX2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 339.210693359375 4 339.226491 1352.87686 2.2882 0.00077623 -1.3627 -0.00046226 0.92555 0.00031397 339.2259755939614 50.495 0.46971 51.317 50.969 51.439 0.82217 36 23 2 0 0 0 0.13295 1 23041 23041 0.073264 0.073264 1 1387000 + 33626 11235 21289 21358 37907 37907 0.21453580918432635 VAIIIWKKRRA 11 Unmodified _VAIIIWKKRRA_ 0 0 0 REV__ENSG00000111450|ENST00000392373|STX2 REV__ENSG00000111450|ENST00000392373|STX2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 339.226491 1352.87686 2.3536 0.00079841 -0.69517 -0.00023582 1.6584 0.00056259 339.47704978135397 50.783 0.53226 51.045 50.684 51.216 0.26146 -0.13626 0.00035365 NaN 0.073264 58 27 3 NaN NaN NaN NaN 0 NaN NaN 0 1998100 + 33627 11235 21289 21358 0.21453580918432635 VAIILLLLLII 11 Unmodified _VAIILLLLLII_ 0 0 0 nc|ENSG00000204580|Q08345-2|DDR1;nc|ENSG00000204580|Q08345-6|DDR1;ENSG00000204580|ENST00000376568|DDR1;nc|ENSG00000204580|Q08345-5|DDR1 nc|ENSG00000204580|Q08345-2|DDR1 nc|ENSG00000204580|Q08345-2|DDR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 603.9452514648438 2 603.943611 1205.87267 NaN NaN NaN NaN NaN NaN NaN 81.073 1 81.073 80.573 81.573 0 0 0 0 1.008 1 40354 40354 0.35063 0 1 33628 6021 21290 21359 37908 37908 0.277966786522029 VAIKIISKRKF 11 Unmodified _VAIKIISKRKF_ 0 0 0 ENST00000439346.5_1_22:29095780-29107983:-|nuORF;nc|ENSG00000183765|O96017-8|CHEK2;nc|ENSG00000183765|O96017-13|CHEK2;nc|ENSG00000183765|O96017-7|CHEK2;nc|ENSG00000183765|O96017-4|CHEK2;nc|ENSG00000183765|O96017-12|CHEK2;ENSG00000183765|ENST00000404276|CHEK2;nc|ENSG00000183765|O96017-9|CHEK2 ENST00000439346.5_1_22:29095780-29107983:-|nuORF ENST00000439346.5_1_22:29095780-29107983:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 651.93310546875 2 651.93464 1301.85473 NaN NaN NaN NaN NaN NaN NaN 98.227 1 98.516 98.016 99.016 0.28923 0 0 0 1.0071 1 45215 45215 1.4819 0.28856 1 33629 5404 21291 21360 37909 37909 0.21587356450027073 VAIKMLYNYFE 11 Unmodified _VAIKMLYNYFE_ 0 0 0 nc|ENSG00000142731|O00444-2|PLK4 nc|ENSG00000142731|O00444-2|PLK4 nc|ENSG00000142731|O00444-2|PLK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 695.86083984375 2 695.857406 1389.70026 NaN NaN NaN NaN NaN NaN NaN 93.344 1 93.43 92.93 93.93 0.086212 0 0 0 1.0038 1 48874 48874 5.7319 2.1354 1 33630 9675 21292 21361 37910 37910 0.02099739182472149 VAIKPPKC 8 Unmodified _VAIKPPKC_ 0 0 0 ENSG00000198785|ENST00000361820|GRIN3A ENSG00000198785|ENST00000361820|GRIN3A ENSG00000198785|ENST00000361820|GRIN3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 855.5197143554688 1 855.512071 854.504795 4.6454 0.0039742 2.1823 0.001867 6.8277 0.0058412 855.5132572762396 95.709 0.18687 95.977 95.865 96.052 0.2675 11 9 2 0 0 0 0.7471 1 44005 44005 0.79363 0 1 549820 33631 5934 21293 21362 37911 37911 0.0717223823896802 VAKCLEDSQDQ 11 Unmodified _VAKCLEDSQDQ_ 0 0 0 REV__ENSG00000042781|ENST00000307340|USH2A REV__ENSG00000042781|ENST00000307340|USH2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.5242004394531 3 412.523932 1234.54997 NaN NaN NaN NaN NaN NaN NaN 39.552 1 40.19 39.69 40.69 0.63778 0 0 0 1.0072 1 18076 18076 0.45452 0.046251 1 + 33632 10324 21294 21363 37912 37912 -0.057926525471202694 VAKGRKSWLI 10 Unmodified _VAKGRKSWLI_ 0 0 0 ENST00000332431.4_1_X:102585185-102585869:+|nuORF ENST00000332431.4_1_X:102585185-102585869:+|nuORF ENST00000332431.4_1_X:102585185-102585869:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.3606567382812 2 579.361308 1156.70806 NaN NaN NaN NaN NaN NaN NaN 82.925 1 82.925 82.425 83.425 0 0 0 0 0.9754 1 41654 41654 9.3831 1.2276 1 33633 7001 21295 21364 37913 37913 0.13597679284930564 VAKIHLLE 8 Unmodified _VAKIHLLE_ 0 0 0 REV__ENST00000479866.5_1_12:48143124-48152369:-|nuORF;REV__nc|ENSG00000079337|O95398-2|RAPGEF3 REV__ENST00000479866.5_1_12:48143124-48152369:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 308.197021484375 3 308.195527 921.564752 NaN NaN NaN NaN NaN NaN NaN 27.344 1 27.606 27.106 28.106 0.26245 0 0 0 0.99035 1 12429 12429 1.6526 0 1 + 33634 16682;10579 21296 21365 37914 37914 0.10083252173865276 VAKIHLLE 8 Unmodified _VAKIHLLE_ 0 0 0 REV__ENST00000479866.5_1_12:48143124-48152369:-|nuORF;REV__nc|ENSG00000079337|O95398-2|RAPGEF3 REV__ENST00000479866.5_1_12:48143124-48152369:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.1971130371094 3 308.195527 921.564752 NaN NaN NaN NaN NaN NaN NaN 20.519 1 21.173 20.673 21.673 0.65346 0 0 0 0.99035 1 9318 9318 1.6526 0 1 + 33635 16682;10579 21296 21365 37915 37915 0.10083252173865276 VAKIHLLE 8 Unmodified _VAKIHLLE_ 0 0 0 REV__ENST00000479866.5_1_12:48143124-48152369:-|nuORF;REV__nc|ENSG00000079337|O95398-2|RAPGEF3 REV__ENST00000479866.5_1_12:48143124-48152369:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.1972351074219 3 308.195527 921.564752 NaN NaN NaN NaN NaN NaN NaN 20.622 1 21.276 20.776 21.776 0.65346 0 0 0 0.99035 1 9366 9366 1.6526 0 1 + 33636 16682;10579 21296 21365 37916 37916 0.10083252173865276 VAKKKSKKEKD 11 Unmodified _VAKKKSKKEKD_ 0 0 0 ENSG00000143799|ENST00000366794|PARP1 ENSG00000143799|ENST00000366794|PARP1 ENSG00000143799|ENST00000366794|PARP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.1609497070312 2 644.900994 1287.78744 NaN NaN NaN NaN NaN NaN NaN 89.783 1 89.847 89.347 90.347 0.064346 0 0 0 1.0059 1 46088 46088 2.9952 0.26005 1 33637 3393 21297 21366 37917 37917 0.1550528144839518 VAKKLLQLK 9 Unmodified _VAKKLLQLK_ 0 0 0 ENSG00000152689|ENST00000403687|RASGRP3;nc|ENSG00000152689|Q8IV61-2|RASGRP3 ENSG00000152689|ENST00000403687|RASGRP3 ENSG00000152689|ENST00000403687|RASGRP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.3037109375 2 520.863152 1039.71175 NaN NaN NaN NaN NaN NaN NaN 46.259 1 47.088 46.588 47.588 0.82915 0 0 0 0.90611 1 21069 21069 2.0598 0.21551 1 33638 3760 21298 21367 37918 37918 0.19348349058782333 VAKKSGKM 8 Unmodified _VAKKSGKM_ 0 0 0 ENSG00000122735|ENST00000242317|DNAI1 ENSG00000122735|ENST00000242317|DNAI1 ENSG00000122735|ENST00000242317|DNAI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 424.75653076171875 2 424.754756 847.494958 NaN NaN NaN NaN NaN NaN NaN 27.447 1 28.233 27.733 28.733 0.78627 0 0 0 0.99035 1 12341 12341 0 0 1 33639 2282 21299 21368 37919 37919 0.06511050233598326 VAKKSGKM 8 Unmodified _VAKKSGKM_ 0 0 0 ENSG00000122735|ENST00000242317|DNAI1 ENSG00000122735|ENST00000242317|DNAI1 ENSG00000122735|ENST00000242317|DNAI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 424.75653076171875 2 424.754756 847.494958 NaN NaN NaN NaN NaN NaN NaN 27.547 1 28.334 27.834 28.834 0.78627 0 0 0 0.99035 1 12389 12389 0 0 1 33640 2282 21299 21368 37920 37920 0.06511050233598326 VAKKSGKM 8 Unmodified _VAKKSGKM_ 0 0 0 ENSG00000122735|ENST00000242317|DNAI1 ENSG00000122735|ENST00000242317|DNAI1 ENSG00000122735|ENST00000242317|DNAI1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 424.7566833496094 2 424.754756 847.494958 2.9434 0.0012502 1.1718 0.00049774 4.1152 0.001748 424.75533887183565 27.779 0.28494 28.398 28.253 28.538 0.61947 27 19 2 0 0 0 0.7471 1 12773 12773 0 0 1 530090 33641 2282 21299 21368 37921 37921 0.06511050233598326 VAKLLILLKLK 11 Unmodified _VAKLLILLKLK_ 0 0 0 REV__ENST00000509538.5_1_4:185578328-185578478:+|nuORF REV__ENST00000509538.5_1_4:185578328-185578478:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 626.901123046875 2 626.459959 1250.90537 NaN NaN NaN NaN NaN NaN NaN 90.704 1 90.956 90.456 91.456 0.25163 0 0 0 1.0082 1 41708 41708 0 0 1 + 33642 16906 21300 21369 37922 37922 0.2899488577500051 VAKLLRKLQR 10 Unmodified _VAKLLRKLQR_ 0 0 0 REV__nc|ENSG00000015532|Q9H1B5-2|XYLT2 REV__nc|ENSG00000015532|Q9H1B5-2|XYLT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.0772705078125 2 612.916781 1223.81901 NaN NaN NaN NaN NaN NaN NaN 89.942 1 89.942 89.442 90.442 0 0 0 0 0.99983 1 47124 47124 1.8442 0 1 + 33643 10256 21301 21370 37923 37923 0.2160531899301077 VAKNKIDVP 9 Unmodified _VAKNKIDVP_ 0 0 0 REV__ENST00000560489.2_1_15:49658263-49658881:-|nuORF REV__ENST00000560489.2_1_15:49658263-49658881:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.2021789550781 3 328.53432 982.581131 1.9455 0.00063916 -0.072119 -2.3693E-05 1.8734 0.00061546 328.5342866296483 51.069 0.63604 51.886 51.519 52.155 0.81738 80 41 2 0 0 0 0.10694 1 23128 23128 4.5289 4.5289 1 5892400 + 33644 17365 21302 21371 37924 37924 0.08914333339942004 VAKNKIDVP 9 Unmodified _VAKNKIDVP_ 0 0 0 REV__ENST00000560489.2_1_15:49658263-49658881:-|nuORF REV__ENST00000560489.2_1_15:49658263-49658881:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 328.53432 982.581131 2.2197 0.00072926 -0.026737 -8.7841E-06 2.193 0.00072047 328.53431094917744 51.981 0.71249 51.981 51.598 52.31 0 0.10686 8.8277E-05 NaN 4.5289 102 52 2 NaN NaN NaN NaN 0 NaN NaN 0 6059700 + 33645 17365 21302 21371 0.08914333339942004 VAKNKIDVP 9 Unmodified _VAKNKIDVP_ 0 0 0 REV__ENST00000560489.2_1_15:49658263-49658881:-|nuORF REV__ENST00000560489.2_1_15:49658263-49658881:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 328.53432 982.581131 2.2386 0.00073547 -0.24499 -8.0486E-05 1.9936 0.00065498 328.53422986136843 51.493 0.7129 51.755 51.566 52.279 0.26227 -0.11887 -0.00012683 NaN 4.5289 88 48 2 NaN NaN NaN NaN 0 NaN NaN 0 10305000 + 33646 17365 21302 21371 0.08914333339942004 VAKRQHKKRL 10 Unmodified _VAKRQHKKRL_ 0 0 0 REV__nc|ENSG00000149782|Q01970-2|PLCB3 REV__nc|ENSG00000149782|Q01970-2|PLCB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 632.4121704101562 2 632.409655 1262.80476 NaN NaN NaN NaN NaN NaN NaN 59.069 1 59.736 59.236 60.236 0.66703 0 0 0 1.0015 1 27041 27041 0.40072 0 1 + 33647 12580 21303 21372 37925 37925 0.18386666564742882 VAKTKKKKK 9 Unmodified _VAKTKKKKK_ 0 0 0 ENST00000340726.7_1_8:72274331-72274436:-|nuORF ENST00000340726.7_1_8:72274331-72274436:-|nuORF ENST00000340726.7_1_8:72274331-72274436:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.1441650390625 2 529.874051 1057.73355 NaN NaN NaN NaN NaN NaN NaN 86.1 1 86.1 85.6 86.6 0 0 0 0 0.91206 1 44041 44041 0.6015 0.076735 1 33648 7067 21304 21373 37926 37926 0.20699153807345283 VAKTKKKKKKK 11 Unmodified _VAKTKKKKKKK_ 0 0 0 ENST00000340726.7_1_8:72274331-72274436:-|nuORF ENST00000340726.7_1_8:72274331-72274436:-|nuORF ENST00000340726.7_1_8:72274331-72274436:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 657.9680786132812 2 657.969014 1313.92348 NaN NaN NaN NaN NaN NaN NaN 64.039 1 64.039 63.539 64.539 0 0 0 0 1.0082 1 30245 30245 0 0 1 33649 7067 21305 21374 37927 37927 0.2790702074969431 VAKTSMGIM 9 Unmodified _VAKTSMGIM_ 0 0 0 REV__ENSG00000049656|ENST00000320895|CLPTM1L REV__ENSG00000049656|ENST00000320895|CLPTM1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 469.2474670410156 2 469.245906 936.477259 NaN NaN NaN NaN NaN NaN NaN 105.61 1 105.93 105.43 106.43 0.31782 0 0 0 0.89683 1 48750 48750 4.3292 0 1 + 33650 10346 21306 21375 37928 37928 0.0064796691642641235 VAKWFDKAE 9 Unmodified _VAKWFDKAE_ 0 0 0 REV__ENSG00000169251|ENST00000351193|NMD3 REV__ENSG00000169251|ENST00000351193|NMD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.56524658203125 3 365.194075 1092.5604 NaN NaN NaN NaN NaN NaN NaN 60.847 1 61.103 60.603 61.603 0.25578 0 0 0 0.8984 1 27866 27866 2.2828 0.19677 1 + 33651 13386 21307 21376 37929 37929 0.01781742960270094 VAKWFDKAE 9 Unmodified _VAKWFDKAE_ 0 0 0 REV__ENSG00000169251|ENST00000351193|NMD3 REV__ENSG00000169251|ENST00000351193|NMD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.1965026855469 3 365.194075 1092.5604 NaN NaN NaN NaN NaN NaN NaN 79.173 1 79.424 78.924 79.924 0.25127 0 0 0 0.8984 1 36459 36459 2.2828 0.19677 1 + 33652 13386 21307 21376 37930 37930 0.01781742960270094 VAKWFDKAE 9 Unmodified _VAKWFDKAE_ 0 0 0 REV__ENSG00000169251|ENST00000351193|NMD3 REV__ENSG00000169251|ENST00000351193|NMD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.1965026855469 3 365.194075 1092.5604 NaN NaN NaN NaN NaN NaN NaN 79.806 1 80.056 79.556 80.556 0.24947 0 0 0 0.8984 1 36747 36747 2.2828 0.19677 1 + 33653 13386 21307 21376 37931 37931 0.01781742960270094 VAKWFDKAE 9 Unmodified _VAKWFDKAE_ 0 0 0 REV__ENSG00000169251|ENST00000351193|NMD3 REV__ENSG00000169251|ENST00000351193|NMD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.196044921875 3 365.194075 1092.5604 NaN NaN NaN NaN NaN NaN NaN 77.493 1 78.156 77.656 78.656 0.66303 0 0 0 0.89983 1 35712 35712 2.086 0 1 + 33654 13386 21307 21376 37932 37932 0.01781742960270094 VAKWFDKAE 9 Unmodified _VAKWFDKAE_ 0 0 0 REV__ENSG00000169251|ENST00000351193|NMD3 REV__ENSG00000169251|ENST00000351193|NMD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.19647216796875 3 365.194075 1092.5604 NaN NaN NaN NaN NaN NaN NaN 88.218 1 88.896 88.396 89.396 0.67818 0 0 0 0.89983 1 40633 40633 2.086 0.49373 1 + 33655 13386 21307 21376 37933 37933 0.01781742960270094 VAKWLTKIEVP 11 Unmodified _VAKWLTKIEVP_ 0 0 0 ENSG00000047617|ENST00000682330|ANO2;nc|ENSG00000047617|Q9NQ90-2|ANO2;nc|ENSG00000047617|Q9NQ90|ANO2 ENSG00000047617|ENST00000682330|ANO2 ENSG00000047617|ENST00000682330|ANO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 642.4059448242188 2 642.389731 1282.76491 NaN NaN NaN NaN NaN NaN NaN 93.732 1 93.818 93.318 94.318 0.086212 0 0 0 1.0055 1 49172 49172 3.5965 0 1 33656 560 21308 21377 37934 37934 0.134836820507644 VALGPKWLG 9 Unmodified _VALGPKWLG_ 0 0 0 ENST00000276416.10_1_8:22478274-22478553:-|nuORF ENST00000276416.10_1_8:22478274-22478553:-|nuORF ENST00000276416.10_1_8:22478274-22478553:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.7850341796875 2 470.78437 939.554188 2.8622 0.0013475 -0.61654 -0.00029026 2.2456 0.0010572 470.78402180082765 39.23 0.37346 40.028 39.84 40.213 0.79762 45 17 3 0 0 0 0.086747 1 17771 17771 36.044 0 1 1881500 33657 6674 21309 21378 37935 37935 0.08199269519423069 VALGPKWLG 9 Unmodified _VALGPKWLG_ 0 0 0 ENST00000276416.10_1_8:22478274-22478553:-|nuORF ENST00000276416.10_1_8:22478274-22478553:-|nuORF ENST00000276416.10_1_8:22478274-22478553:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 470.78437 939.554188 2.9857 0.0014056 -0.64627 -0.00030425 2.3394 0.0011014 470.7839682148911 39.989 0.44447 40.256 40.071 40.515 0.26696 0.057844 -5.1747E-05 NaN 36.044 45 17 3 NaN NaN NaN NaN 0 NaN NaN 0 13056000 33658 6674 21309 21378 0.08199269519423069 VALHAGML 8 Unmodified _VALHAGML_ 0 0 0 REV__ENSG00000076826|ENST00000160298|CAMSAP3 REV__ENSG00000076826|ENST00000160298|CAMSAP3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.2760620117188 1 811.449471 810.442194 3.2701 0.0026535 0.62384 0.00050621 3.8939 0.0031597 811.4521449462762 87.595 0.08902 87.595 87.565 87.654 0 19 13 2 0 0 0 0.14249 1 45261 45261 0.79363 0 1 44575000 + 33659 10546 21310 21379 37936 37936 0.029390921707886264 VALILLILLVP 11 Unmodified _VALILLILLVP_ 0 0 0 nc|ENSG00000182557|Q6ZMD2-2|SPNS3;ENSG00000182557|ENST00000355530|SPNS3 nc|ENSG00000182557|Q6ZMD2-2|SPNS3 nc|ENSG00000182557|Q6ZMD2-2|SPNS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.0380859375 2 588.920135 1175.82572 NaN NaN NaN NaN NaN NaN NaN 93.128 1 93.214 92.714 93.714 0.086212 0 0 0 0.99968 1 48715 48715 6.7232 3.1267 1 33660 5338 21311 21380 37937 37937 0.24483819101033077 VALKFLALPVP 11 Unmodified _VALKFLALPVP_ 0 0 0 ENST00000519278.5_1_8:134267532-134267673:-|nuORF ENST00000519278.5_1_8:134267532-134267673:-|nuORF ENST00000519278.5_1_8:134267532-134267673:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.3804321289062 2 584.378635 1166.74272 NaN NaN NaN NaN NaN NaN NaN 96.617 1 96.617 96.117 97.117 0 0 0 0 0.99968 1 52336 52336 6.7232 0 1 33661 8621 21312 21381 37938 37938 0.1660150237300968 VALKKSRRTF 10 Unmodified _VALKKSRRTF_ 0 0 0 REV__ENSG00000160294|ENST00000291688|MCM3AP REV__ENSG00000160294|ENST00000291688|MCM3AP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 603.0765991210938 2 603.377489 1204.74043 NaN NaN NaN NaN NaN NaN NaN 95.89 1 96.497 95.997 96.997 0.60769 0 0 0 0.99983 1 44093 44093 1.8442 0 1 + 33662 12872 21313 21382 37939 37939 0.146244666879511 VALKNRQE 8 Unmodified _VALKNRQE_ 0 0 0 ENSG00000115392|ENST00000233741|FANCL;nc|ENSG00000115392|Q9NW38-2|FANCL ENSG00000115392|ENST00000233741|FANCL ENSG00000115392|ENST00000233741|FANCL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.2790222167969 2 479.277441 956.540328 3.3011 0.0015821 0.15389 7.3757E-05 3.455 0.0016559 479.2774601578249 91.874 0.48079 92.536 92.342 92.823 0.66197 63 23 4 0 0 0 0.7471 1 42312 42312 0.69038 0 1 1951000 33663 1967 21314 21383 37940 37940 0.060319920203255606 VALKVKRKKHK 11 Unmodified _VALKVKRKKHK_ 0 0 0 REV__ENST00000447672.1_1_9:75356163-75356322:-|nuORF REV__ENST00000447672.1_1_9:75356163-75356322:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 667.9583740234375 2 667.958981 1333.90341 NaN NaN NaN NaN NaN NaN NaN 109.39 1 109.43 108.93 109.93 0.041008 0 0 0 1.008 1 59004 59004 0.35063 0 1 + 33664 16389 21315 21384 37941 37941 0.24981269809768492 VALLADIRFN 10 Unmodified _VALLADIRFN_ 0 0 0 REV__ENSG00000130675|ENST00000252971|MNX1 REV__ENSG00000130675|ENST00000252971|MNX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.2805786132812 2 566.329673 1130.64479 NaN NaN NaN NaN NaN NaN NaN 105.72 1 105.72 105.22 106.22 0 0 0 0 0.99774 1 58095 58095 3.5965 0 1 + 33665 11827 21316 21385 37942 37942 0.08469693777055909 VALLARVLVKR 11 Unmodified _VALLARVLVKR_ 0 0 0 ENST00000564988.5_1_15:83776528-83788831:+|nuORF;nc|ENSG00000136404|Q9BZW5-2|TM6SF1;ENSG00000136404|ENST00000322019|TM6SF1 ENST00000564988.5_1_15:83776528-83788831:+|nuORF ENST00000564988.5_1_15:83776528-83788831:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.4251098632812 2 619.426982 1236.83941 NaN NaN NaN NaN NaN NaN NaN 82.384 1 82.384 81.884 82.884 0 0 0 0 1.0071 1 41227 41227 1.4819 0 1 33666 2949 21317 21386 37943 37943 0.23046489652847413 VALLIHRPT 9 Unmodified _VALLIHRPT_ 0 0 0 REV__ENST00000360597.8_1_5:134681666-134724783:-|nuORF REV__ENST00000360597.8_1_5:134681666-134724783:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.32147216796875 2 510.321651 1018.62875 NaN NaN NaN NaN NaN NaN NaN 97.285 1 97.285 96.785 97.785 0 0 0 0 0.84134 1 52913 52913 7.9102 0 1 + 33667 15614 21318 21387 37944 37944 0.12018032330797723 VALLPPVLKKV 11 Unmodified _VALLPPVLKKV_ 0 0 0 ENSG00000079691|ENST00000329474|CARMIL1;nc|ENSG00000079691|Q5VZK9-2|CARMIL1 ENSG00000079691|ENST00000329474|CARMIL1 ENSG00000079691|ENST00000329474|CARMIL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.9078979492188 2 588.907559 1175.80057 NaN NaN NaN NaN NaN NaN NaN 96.124 1 96.201 95.701 96.701 0.076538 0 0 0 1.0071 1 50990 50990 1.4819 1.0812 1 33668 897 21319 21388 37945 37945 0.21969764298432892 VALLVLALA 9 Unmodified _VALLVLALA_ 0 0 0 REV__ENSG00000121898|ENST00000241305|CPXM2 REV__ENSG00000121898|ENST00000241305|CPXM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 882.6048583984375 1 882.602266 881.59499 4.7521 0.0041942 -1.6989 -0.0014994 3.0532 0.0026947 882.6007046448152 103.26 0.13509 103.58 103.52 103.65 0.31863 17 11 2 0 0 0 1.2459 2 47731 47731;47744 0 0 1 194770 + 33669 11568 21320 21389 37946;37947 37946 0.14945610839015444 VALLVLALA 9 Unmodified _VALLVLALA_ 0 0 0 REV__ENSG00000121898|ENST00000241305|CPXM2 REV__ENSG00000121898|ENST00000241305|CPXM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 882.6071166992188 1 882.602266 881.59499 4.1567 0.0036687 -1.819 -0.0016055 2.3376 0.0020632 882.6003960944767 103.19 0.13936 103.79 103.75 103.89 0.59821 16 10 2 0 0 0 1.2459 1 47745 47745 0 0 1 223990 + 33670 11568 21320 21389 37948 37948 0.14945610839015444 VALLVLALA 9 Unmodified _VALLVLALA_ 0 0 0 REV__ENSG00000121898|ENST00000241305|CPXM2 REV__ENSG00000121898|ENST00000241305|CPXM2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 882.3941040039062 1 882.602266 881.59499 4.1567 0.0036687 -1.819 -0.0016055 2.3376 0.0020632 882.6003960944767 103.19 0.13936 103.79 103.75 103.89 0.59821 16 10 2 0 0 0 0.11443 1 47752 47752 0 0 1 223990 + 33671 11568 21320 21389 37949 37949 0.14945610839015444 VALLVLALA 9 Unmodified _VALLVLALA_ 0 0 0 REV__ENSG00000121898|ENST00000241305|CPXM2 REV__ENSG00000121898|ENST00000241305|CPXM2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 882.602266 881.59499 4.7521 0.0041942 -1.6989 -0.0014994 3.0532 0.0026947 882.6007046448152 103.26 0.13509 103.58 103.52 103.65 0.31863 -0.10853 2.9446E-05 NaN 0 17 11 2 NaN NaN NaN NaN 0 NaN NaN 0 194770 + 33672 11568 21320 21389 0.14945610839015444 VALQQLVHLEQ 11 Unmodified _VALQQLVHLEQ_ 0 0 0 ENSG00000010292|ENST00000315579|NCAPD2 ENSG00000010292|ENST00000315579|NCAPD2 ENSG00000010292|ENST00000315579|NCAPD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 639.3262329101562 2 639.364244 1276.71394 NaN NaN NaN NaN NaN NaN NaN 92.262 1 92.345 91.845 92.845 0.082848 0 0 0 0.93332 1 48032 48032 13.042 2.9685 1 33673 397 21321 21390 37950 37950 0.08664733005934977 VALRKLLAKLL 11 Unmodified _VALRKLLAKLL_ 0 0 0 nc|ENSG00000174970|Q8NH19|OR10AG1;ENSG00000174970|ENST00000641071|OR10AG1 nc|ENSG00000174970|Q8NH19|OR10AG1 nc|ENSG00000174970|Q8NH19|OR10AG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.6984252929688 2 619.439558 1236.86456 NaN NaN NaN NaN NaN NaN NaN 96.936 1 97.01 96.51 97.51 0.073906 0 0 0 1.0071 1 51663 51663 1.4819 0 1 33674 5006 21322 21391 37951 37951 0.2556054445542486 VALRNLHF 8 Unmodified _VALRNLHF_ 0 0 0 PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant;PRKD3|p.L812Sfs*13|1|0.05|ENSG00000115825|chr2:37254269-37254270|-/A|frameshift_variant;ENSG00000115825|ENST00000234179|PRKD3 PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant PRKD3|p.N811Tfs*8|1|0.05|ENSG00000115825|chr2:37254271-37254272|-/AATAAAAG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2872619628906 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 64.485 1 65.142 64.642 65.642 0.65672 0 0 0 0.88162 1 29562 29562 13.508 1.8676 1 33675 1992 21323 21392 37952 37952 0.07004903608174118 VALTLILIRIL 11 Unmodified _VALTLILIRIL_ 0 0 0 REV__ENST00000283632.4_1_2:86968118-86979052:+|nuORF REV__ENST00000283632.4_1_2:86968118-86979052:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.5531616210938 2 619.433941 1236.85333 NaN NaN NaN NaN NaN NaN NaN 90.635 1 90.635 90.135 91.135 0 0 0 0 1.008 1 47690 47690 0.35063 0 1 + 33676 15098 21324 21393 37953 37953 0.24437722361267333 VALTLILIRIL 11 Unmodified _VALTLILIRIL_ 0 0 0 REV__ENST00000283632.4_1_2:86968118-86979052:+|nuORF REV__ENST00000283632.4_1_2:86968118-86979052:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.394775390625 2 619.433941 1236.85333 NaN NaN NaN NaN NaN NaN NaN 95.502 1 95.502 95.002 96.002 0 0 0 0 1.0055 1 51437 51437 3.5965 0 1 + 33677 15098 21324 21393 37954 37954 0.24437722361267333 VALVLYIRKK 10 Unmodified _VALVLYIRKK_ 0 0 0 ENSG00000088543|ENST00000357203|C3orf18 ENSG00000088543|ENST00000357203|C3orf18 ENSG00000088543|ENST00000357203|C3orf18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.3274536132812 2 601.902808 1201.79106 NaN NaN NaN NaN NaN NaN NaN 55.781 1 56.568 56.068 57.068 0.78711 0 0 0 1.0015 1 25476 25476 0.45834 0 1 33678 1016 21325 21394 37955 37955 0.19823996012928546 VALVRLKEKLK 11 Unmodified _VALVRLKEKLK_ 0 0 0 CON__Q3KUS7 CON__Q3KUS7 CON__Q3KUS7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 648.908447265625 2 648.939922 1295.86529 NaN NaN NaN NaN NaN NaN NaN 85.615 1 85.615 85.115 86.115 0 0 0 0 1.0071 1 43646 43646 1.4819 0 1 + 33679 234 21326 21395 37956 37956 0.2291933910444186 VALWLQSVAL 10 Unmodified _VALWLQSVAL_ 0 0 0 REV__ENSG00000232070|ENST00000556585|TMEM253 REV__ENSG00000232070|ENST00000556585|TMEM253 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.3311767578125 2 550.329142 1098.64373 3.5309 0.0019432 0.13679 7.5278E-05 3.6677 0.0020184 550.3290818142663 63.765 0.21257 64.422 64.311 64.524 0.65672 28 15 2 0 0 0 0.4567 1 29204 29204 22.736 2.2827 1 933390 + 33680 14580 21327 21396 37957 37957 0.09835479408138781 VALWSRRVRVP 11 Unmodified _VALWSRRVRVP_ 0 0 0 REV__ENSG00000185775|ENST00000332857|SPATA31A6 REV__ENSG00000185775|ENST00000332857|SPATA31A6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 669.9542846679688 2 669.909488 1337.80442 NaN NaN NaN NaN NaN NaN NaN 93.574 1 93.574 93.074 94.074 0 0 0 0 0.99968 1 49980 49980 6.7232 1.8262 1 + 33681 14029 21328 21397 37958 37958 0.149032468448695 VALWSRRVRVP 11 Unmodified _VALWSRRVRVP_ 0 0 0 REV__ENSG00000185775|ENST00000332857|SPATA31A6 REV__ENSG00000185775|ENST00000332857|SPATA31A6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.225341796875 2 669.909488 1337.80442 NaN NaN NaN NaN NaN NaN NaN 91.556 1 91.639 91.139 92.139 0.082848 0 0 0 0.99968 1 47481 47481 6.7232 0.99131 1 + 33682 14029 21328 21397 37959 37959 0.149032468448695 VALYILSLKDQ 11 Unmodified _VALYILSLKDQ_ 0 0 0 ENSG00000166268|ENST00000552032|MYRFL ENSG00000166268|ENST00000552032|MYRFL ENSG00000166268|ENST00000552032|MYRFL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 631.9060668945312 2 631.871371 1261.72819 NaN NaN NaN NaN NaN NaN NaN 94.287 1 94.287 93.787 94.787 0 0 0 0 1.0038 1 50534 50534 5.7319 1.203 1 33683 4468 21329 21398 37960 37960 0.10779385434261712 VAMICRRRRRR 11 Unmodified _VAMICRRRRRR_ 0 0 0 nc|ENSG00000254402|Q50LG9|LRRC24 nc|ENSG00000254402|Q50LG9|LRRC24 nc|ENSG00000254402|Q50LG9|LRRC24 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 736.7461547851562 2 736.935522 1471.85649 NaN NaN NaN NaN NaN NaN NaN 102.79 1 102.84 102.34 103.34 0.055092 0 0 0 1.0071 1 55783 55783 1.4819 1.1313 1 33684 9854 21330 21399 37961 37961 0.13943763715315072 VAMILARH 8 Unmodified _VAMILARH_ 0 0 0 ENST00000508252.1_1_5:137463382-137465094:-|nuORF;ENSG00000112981|ENST00000265191|NME5 ENST00000508252.1_1_5:137463382-137465094:-|nuORF ENST00000508252.1_1_5:137463382-137465094:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.193603515625 3 304.181224 909.521842 2.1203 0.00064496 1.1668 0.00035491 3.2871 0.00099987 304.18175811002163 43.546 0.17414 43.816 43.677 43.851 0.27021 9 5 2 0 0 0 0.14346 1 19876 19876 0.45834 0 1 125210 33685 1827 21331 21400 37962 37962 0.06346158844769434 VAMLPWLL 8 Unmodified _VAMLPWLL_ 0 0 0 REV__ENSG00000188897|ENST00000696174|unknown REV__ENSG00000188897|ENST00000696174|unknown MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.77862548828125 2 471.777699 941.540846 2.6886 0.0012684 0.05464 2.5778E-05 2.7432 0.0012942 471.7777292044752 14.975 0.41842 15.282 15.115 15.534 0.3069 104 42 3 0 0 0 0.73686 1 6870 6870 2.8892 0 1 343060 + 33686 14164 21332 21401 37963 37963 0.067736954158363 VAMQRQVL 8 Unmodified _VAMQRQVL_ 0 0 0 nc|ENSG00000140859|Q9BVG8-4|KIFC3;nc|ENSG00000140859|Q9BVG8-5|KIFC3;ENSG00000140859|ENST00000445690|KIFC3;nc|ENSG00000140859|Q9BVG8|KIFC3;nc|ENSG00000140859|Q9BVG8-6|KIFC3 nc|ENSG00000140859|Q9BVG8-4|KIFC3 nc|ENSG00000140859|Q9BVG8-4|KIFC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.2740173339844 2 472.770937 943.527321 3.4029 0.0016088 -0.087499 -4.1367E-05 3.3154 0.0015674 472.77068413601995 30.917 0.15184 31.173 31.125 31.277 0.25614 23 16 2 0 0 0 0.37185 1 14076 14076 30.225 5.5509 1 240960 33687 3222 21333 21402 37964 37964 0.05329837636600132 VANGWGLFFF 10 Unmodified _VANGWGLFFF_ 0 0 0 REV__ENST00000367921.7_1_1:162602314-162602419:+|nuORF REV__ENST00000367921.7_1_1:162602314-162602419:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.3861694335938 2 579.292559 1156.57057 NaN NaN NaN NaN NaN NaN NaN 55.528 1 55.528 55.028 56.028 0 0 0 0 0.99687 1 25527 25527 4.3292 0.38484 1 + 33688 15674 21334 21403 37965 37965 -0.0014564931448148855 VANHWNFHWIY 11 Unmodified _VANHWNFHWIY_ 0 0 0 ENSG00000103375|ENST00000219660|AQP8 ENSG00000103375|ENST00000219660|AQP8 ENSG00000103375|ENST00000219660|AQP8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 743.85498046875 2 743.854378 1485.6942 NaN NaN NaN NaN NaN NaN NaN 93.518 1 93.518 93.018 94.018 0 0 0 0 1.0071 1 49939 49939 1.4819 0 1 33689 1394 21335 21404 37966 37966 -0.029215982141522545 VANKAELHLR 10 Unmodified _VANKAELHLR_ 0 0 0 ENST00000404802.7_1_22:37419824-37419929:+|nuORF ENST00000404802.7_1_22:37419824-37419929:+|nuORF ENST00000404802.7_1_22:37419824-37419929:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 384.2289123535156 3 384.22789 1149.66184 NaN NaN NaN NaN NaN NaN NaN 12.476 1 13.119 12.619 13.619 0.64272 0 0 0 0.99704 1 5596 5596 4.1895 1.1943 1 33690 7630 21336 21405 37967 37967 0.09299614382825894 VANLRGESL 9 Unmodified _VANLRGESL_ 0 0 0 ENSG00000113369|ENST00000265138|ARRDC3 ENSG00000113369|ENST00000265138|ARRDC3 ENSG00000113369|ENST00000265138|ARRDC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.77099609375 2 479.769448 957.524344 3.4543 0.0016573 0.010148 4.8687E-06 3.4645 0.0016622 479.76943116528804 30.63 0.4921 30.886 30.564 31.056 0.25614 70 31 3 0 0 0 0.00068611 3 13951 13906;13951;13996 129.77 36.538 1 1494700 33691 1850 21337 21406 37968;37969;37970 37969 0.04388285783431911 VANLRGESL 9 Unmodified _VANLRGESL_ 0 0 0 ENSG00000113369|ENST00000265138|ARRDC3 ENSG00000113369|ENST00000265138|ARRDC3 ENSG00000113369|ENST00000265138|ARRDC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.7709655761719 2 479.769448 957.524344 3.1434 0.0015081 0.18606 8.9268E-05 3.3294 0.0015974 479.7695294010541 30.312 0.30059 30.93 30.754 31.054 0.61736 35 16 3 0 0 0 0.0012766 2 13924 13869;13924 122.18 33.225 1 1636600 33692 1850 21337 21406 37971;37972 37972 0.04388285783431911 VANLRGESL 9 Unmodified _VANLRGESL_ 0 0 0 ENSG00000113369|ENST00000265138|ARRDC3 ENSG00000113369|ENST00000265138|ARRDC3 ENSG00000113369|ENST00000265138|ARRDC3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 479.769448 957.524344 3.1532 0.0015128 -0.37879 -0.00018173 2.7744 0.0013311 479.76930651784033 29.843 0.18346 30.632 30.561 30.744 0.78921 -0.18394 -0.00038588 NaN 129.77 21 16 2 NaN NaN NaN NaN 0 NaN NaN 0 843580 33693 1850 21337 21406 0.04388285783431911 VAPAVWREAM 10 Unmodified _VAPAVWREAM_ 0 0 0 REV__nc|ENSG00000254772|P26641-2|EEF1G REV__nc|ENSG00000254772|P26641-2|EEF1G MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 565.293701171875 2 565.294776 1128.575 NaN NaN NaN NaN NaN NaN NaN 97.299 1 97.369 96.869 97.869 0.070648 0 0 0 0.96109 1 51974 51974 11.64 5.4345 1 + 33694 17091 21338 21407 37973 37973 0.015854918367494975 VAPFECYFHY 10 Unmodified _VAPFECYFHY_ 0 0 0 REV__ENSG00000244623|ENST00000316368|OR2AE1 REV__ENSG00000244623|ENST00000316368|OR2AE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 638.2788696289062 2 638.278792 1274.54303 NaN NaN NaN NaN NaN NaN NaN 96.683 1 96.683 96.183 97.183 0 0 0 0 0.99687 1 52389 52389 4.3292 0.73274 1 + 33695 14640 21339 21408 37974 37974 -0.08325920637025774 VAPGRVLI 8 Unmodified _VAPGRVLI_ 0 0 0 ENSG00000085998|ENST00000371984|POMGNT1;nc|ENSG00000085998|Q8WZA1-2|POMGNT1;ENST00000489985.1_1_1:46661446-46663526:-|nuORF ENSG00000085998|ENST00000371984|POMGNT1 ENSG00000085998|ENST00000371984|POMGNT1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 824.7108764648438 1 824.535249 823.527973 3.3275 0.0027436 -4.2352 -0.003492 -0.90767 -0.0007484 824.5343007993349 93.121 0.2368 93.121 92.986 93.223 0 47 32 2 0 0 0 0.14069 1 49656 49656 2.8892 0 1 57646000 33696 978 21340 21409 37975 37975 0.1091500034793853 VAPIRMITVM 10 Unmodified _VAPIRMITVM_ 0 0 0 REV__ENSG00000167972|ENST00000301732|ABCA3 REV__ENSG00000167972|ENST00000301732|ABCA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 565.8259887695312 2 565.824855 1129.63516 3.3961 0.0019216 -2.3943 -0.0013548 1.0017 0.00056681 565.8232038933576 51.502 0.1981 52.162 52.022 52.221 0.65956 17 10 2 0 0 0 0.90196 1 23571 23571 3.5965 0.31518 1 194470 + 33697 13318 21341 21410 37976 37976 0.07552466175638983 VAPIWQPI 8 Unmodified _VAPIWQPI_ 0 0 0 REV__CEACAM4|p.A93Rfs*39|1|0.23|ENSG00000105352|chr19:41625748-41625749|CC/-|frameshift_variant REV__CEACAM4|p.A93Rfs*39|1|0.23|ENSG00000105352|chr19:41625748-41625749|CC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.27252197265625 2 462.271096 922.527639 2.8281 0.0013074 -0.70068 -0.0003239 2.1275 0.00098347 462.2706994964125 39.985 0.30139 40.252 40.103 40.404 0.26696 21 12 2 0 0 0 0.45037 1 18199 18199 24.674 24.674 1 1405800 + 33698 10000 21342 21411 37977 37977 0.06327580628078522 VAPIWQPI 8 Unmodified _VAPIWQPI_ 0 0 0 REV__CEACAM4|p.A93Rfs*39|1|0.23|ENSG00000105352|chr19:41625748-41625749|CC/-|frameshift_variant REV__CEACAM4|p.A93Rfs*39|1|0.23|ENSG00000105352|chr19:41625748-41625749|CC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 462.2723693847656 2 462.271096 922.527639 NaN NaN NaN NaN NaN NaN NaN 39.547 1 40.185 39.685 40.685 0.63778 0 0 0 0.38365 1 18074 18074 32.117 1.4804 1 + 33699 10000 21342 21411 37978 37978 0.06327580628078522 VAPLLRLHFL 10 Unmodified _VAPLLRLHFL_ 0 0 0 REV__ENST00000470752.5_1_2:175490576-175494437:-|nuORF REV__ENST00000470752.5_1_2:175490576-175494437:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.5862121582031 3 393.585126 1177.73355 NaN NaN NaN NaN NaN NaN NaN 41.893 1 41.893 41.393 42.393 0 0 0 0 1.0012 1 19064 19064 0.69767 0 1 + 33700 16594 21343 21412 37979 37979 0.15179153807343937 VAPLVLRRV 9 Unmodified _VAPLVLRRV_ 0 0 0 REV__nc|ENSG00000124006|O75147-2|OBSL1 REV__nc|ENSG00000124006|O75147-2|OBSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 511.84381103515625 2 511.845294 1021.67603 NaN NaN NaN NaN NaN NaN NaN 91.342 1 91.417 90.917 91.917 0.075279 0 0 0 0.90511 1 47312 47312 2.3027 0 1 + 33701 11628 21344 21413 37980 37980 0.16606311601788093 VAPMIRLLN 9 Unmodified _VAPMIRLLN_ 0 0 0 REV__ENST00000417497.5_1_22:28393691-28395609:+|nuORF REV__ENST00000417497.5_1_22:28393691-28395609:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.810791015625 2 513.810062 1025.60557 2.9751 0.0015287 -1.6259 -0.00083543 1.3492 0.00069323 513.8089763635783 47.369 0.29338 47.369 47.147 47.441 0 32 15 3 0 0 0 1.1154 1 21636 21636 2.0598 0 1 1277400 + 33702 16141 21345 21414 37981 37981 0.09379270221825209 VAPRLDRKKR 10 Unmodified _VAPRLDRKKR_ 0 0 0 nc|ENSG00000153827|Q14669|TRIP12;nc|ENSG00000153827|Q14669-2|TRIP12;nc|ENSG00000153827|Q14669-3|TRIP12;ENSG00000153827|ENST00000675903|TRIP12;nc|ENSG00000153827|Q14669-4|TRIP12 nc|ENSG00000153827|Q14669|TRIP12 nc|ENSG00000153827|Q14669|TRIP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.8932495117188 2 619.893838 1237.77312 NaN NaN NaN NaN NaN NaN NaN 77.786 1 78.039 77.539 78.539 0.25335 0 0 0 1.0015 1 35823 35823 0.45834 0 1 33703 3792 21346 21415 37982 37982 0.16374673810764762 VAPVFKKRRT 10 Unmodified _VAPVFKKRRT_ 0 0 0 nc|ENSG00000120688|O75554-2|WBP4;ENSG00000120688|ENST00000379487|WBP4 nc|ENSG00000120688|O75554-2|WBP4 nc|ENSG00000120688|O75554-2|WBP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.5104370117188 2 601.380032 1200.74551 NaN NaN NaN NaN NaN NaN NaN 58.912 1 59.671 59.171 60.171 0.75894 0 0 0 0.99983 1 27065 27065 1.8442 0 1 33704 2204 21347 21416 37983 37983 0.1531677055054388 VAQKKIYKYKK 11 Unmodified _VAQKKIYKYKK_ 0 0 0 nc|ENSG00000153815|Q8IY22-3|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 698.9845581054688 2 698.937379 1395.86021 NaN NaN NaN NaN NaN NaN NaN 97.608 1 97.897 97.397 98.397 0.28923 0 0 0 1.0071 1 44852 44852 1.4819 0 1 33705 9694 21348 21417 37984 37984 0.17811035241811624 VAQKNYFNI 9 Unmodified _VAQKNYFNI_ 0 0 0 nc|ENSG00000147364|Q8TCJ0-3|FBXO25;ENSG00000147364|ENST00000350302|FBXO25;nc|ENSG00000147364|Q8TCJ0|FBXO25 nc|ENSG00000147364|Q8TCJ0-3|FBXO25 nc|ENSG00000147364|Q8TCJ0-3|FBXO25 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.79443359375 2 548.792924 1095.57129 3.6139 0.0019833 -1.0098 -0.00055419 2.6041 0.0014291 548.7925989392639 49.572 0.28423 49.572 49.419 49.703 0 20 10 3 0 0 0 0.071101 1 22718 22718 39.957 21.811 1 436870 33706 3560 21349 21418 37985 37985 0.027331453345595946 VAQKNYFNI 9 Unmodified _VAQKNYFNI_ 0 0 0 nc|ENSG00000147364|Q8TCJ0-3|FBXO25;ENSG00000147364|ENST00000350302|FBXO25;nc|ENSG00000147364|Q8TCJ0|FBXO25 nc|ENSG00000147364|Q8TCJ0-3|FBXO25 nc|ENSG00000147364|Q8TCJ0-3|FBXO25 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.7933959960938 2 548.792924 1095.57129 3.2233 0.0017689 -0.76656 -0.00042068 2.4568 0.0013483 548.7927381561892 48.409 0.18668 49.236 49.186 49.373 0.82705 14 9 2 0 0 0 0.12301 1 22067 22067 28.487 9.2299 1 323100 33707 3560 21349 21418 37986 37986 0.027331453345595946 VAQKQREREER 11 Unmodified _VAQKQREREER_ 0 0 0 ENSG00000162191|ENST00000301935|UBXN1;nc|ENSG00000162191|Q04323-2|UBXN1;ENST00000532904.5_1_11:62445243-62446247:-|nuORF;ENST00000533908.5_1_11:62445382-62446470:-|nuORF;ENST00000525717.5_1_11:62445243-62446470:-|nuORF;ENST00000524762.5_1_11:62445008-62446470:-|nuORF ENSG00000162191|ENST00000301935|UBXN1 ENSG00000162191|ENST00000301935|UBXN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 714.8902587890625 2 714.886938 1427.75932 NaN NaN NaN NaN NaN NaN NaN 92.195 1 92.278 91.778 92.778 0.082848 0 0 0 1.0072 1 47984 47984 1.3295 0.13619 1 33708 4123 21350 21419 37987 37987 0.06255351521053854 VAQLVPIV 8 Unmodified _VAQLVPIV_ 0 0 0 nc|ENSG00000184507|Q86Y26-2|NUTM1;nc|ENSG00000184507|Q86Y26|NUTM1;nc|ENSG00000184507|Q86Y26-3|NUTM1;ENSG00000184507|ENST00000537011|NUTM1 nc|ENSG00000184507|Q86Y26-2|NUTM1 nc|ENSG00000184507|Q86Y26-2|NUTM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 419.7724914550781 2 419.773471 837.53239 NaN NaN NaN NaN NaN NaN NaN 60.079 1 60.334 59.834 60.834 0.25578 0 0 0 0.99035 1 27511 27511 0.69038 0 1 33709 5446 21351 21420 37988 37988 0.1071246477083605 VAQVRFQRAR 10 Unmodified _VAQVRFQRAR_ 0 0 0 REV__nc|ENSG00000176055|Q68D91-2|MBLAC2 REV__nc|ENSG00000176055|Q68D91-2|MBLAC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 615.860595703125 2 615.862538 1229.71052 NaN NaN NaN NaN NaN NaN NaN 99.831 1 100.43 99.928 100.93 0.59717 0 0 0 0.99774 1 46189 46189 3.5965 0 1 + 33710 18051 21352 21421 37989 37989 0.10485527742594059 VARDICRYLKS 11 Unmodified _VARDICRYLKS_ 0 0 0 REV__ENST00000465942.1_1_13:46065604-46085992:+|nuORF REV__ENST00000465942.1_1_13:46065604-46085992:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 662.3654174804688 2 662.363721 1322.71289 NaN NaN NaN NaN NaN NaN NaN 88.167 1 88.219 87.719 88.719 0.052155 0 0 0 0.98464 1 44837 44837 8.1555 2.4237 1 + 33711 12064 21353 21422 37990 37990 0.06444195365361338 VAREWQCWTW 10 Unmodified _VAREWQCWTW_ 0 0 0 REV__ENST00000304987.3_1_11:111596525-111596654:+|nuORF REV__ENST00000304987.3_1_11:111596525-111596654:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 682.5713500976562 2 682.813864 1363.61318 NaN NaN NaN NaN NaN NaN NaN 102.41 1 102.41 101.91 102.91 0 0 0 0 1.0015 1 56538 56538 0.45834 0 1 + 33712 15223 21354 21423 37991 37991 -0.054086222485693725 VARHGRRRQRR 11 Unmodified _VARHGRRRQRR_ 0 0 0 REV__ENST00000533263.1_2_11:57282631-57283146:-|nuORF REV__ENST00000533263.1_2_11:57282631-57283146:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.3132629394531 3 483.294514 1446.86171 3.1174 0.0015066 1.3947 0.00067403 4.5121 0.0021807 483.2951609410733 37.671 0.41785 38.467 38.273 38.691 0.79552 29 18 2 0 0 0 0.13295 1 16992 16992 1.3296 0.87513 1 1032500 + 33713 17158 21355 21424 37992 37992 0.15615526893816423 VARIHRKE 8 Unmodified _VARIHRKE_ 0 0 0 ENSG00000198934|ENST00000361470|MAGEE1 ENSG00000198934|ENST00000361470|MAGEE1 ENSG00000198934|ENST00000361470|MAGEE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.87493896484375 3 336.873559 1007.59885 NaN NaN NaN NaN NaN NaN NaN 10.454 1 11.087 10.587 11.587 0.63304 0 0 0 0.99035 1 4708 4708 0.45834 0 1 33714 5966 21356 21425 37993 37993 0.09535093385466098 VARKFLYLWIR 11 Unmodified _VARKFLYLWIR_ 0 0 0 nc|ENSG00000198089|A8K8P3-2|SFI1;ENSG00000198089|ENST00000400288|SFI1;ENST00000382162.7_1_22:31904270-32000328:+|nuORF;ENST00000486708.1_1_22:31924838-31946432:+|nuORF;SFI1|p.A112Pfs*45|1|0.24|ENSG00000198089|chr22:31531122-31531122|A/-|frameshift_variant nc|ENSG00000198089|A8K8P3-2|SFI1 nc|ENSG00000198089|A8K8P3-2|SFI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 732.9517822265625 2 732.945539 1463.87652 NaN NaN NaN NaN NaN NaN NaN 96.884 1 96.961 96.461 97.461 0.076538 0 0 0 1.0071 1 51617 51617 1.4819 0 1 33715 5867 21357 21426 37994 37994 0.16314161198579313 VARKKRRMVKR 11 Unmodified _VARKKRRMVKR_ 0 0 0 REV__ENST00000376769.6_1_6:30036436-30037012:+|nuORF REV__ENST00000376769.6_1_6:30036436-30037012:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 714.4668579101562 2 714.464439 1426.91432 NaN NaN NaN NaN NaN NaN NaN 68.75 1 69.452 68.952 69.952 0.70218 0 0 0 1.0071 1 32806 32806 1.4819 0.28856 1 + 33716 15826 21358 21427 37995 37995 0.2179434891238543 VARKKRRMVKR 11 Unmodified _VARKKRRMVKR_ 0 0 0 REV__ENST00000376769.6_1_6:30036436-30037012:+|nuORF REV__ENST00000376769.6_1_6:30036436-30037012:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 714.4638061523438 2 714.464439 1426.91432 NaN NaN NaN NaN NaN NaN NaN 96.753 1 97.355 96.855 97.855 0.6019 0 0 0 1.008 1 44483 44483 0.35063 0.081612 1 + 33717 15826 21358 21427 37996 37996 0.2179434891238543 VARKVVRM 8 Unmodified _VARKVVRM_ 0 0 0 nc|ENSG00000080603|Q6ZRS2-3|SRCAP;nc|ENSG00000080603|Q6ZRS2-2|SRCAP;ENSG00000080603|ENST00000262518|SRCAP nc|ENSG00000080603|Q6ZRS2-3|SRCAP nc|ENSG00000080603|Q6ZRS2-3|SRCAP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 320.2041931152344 3 320.20414 957.59059 NaN NaN NaN NaN NaN NaN NaN 76.141 1 76.141 75.641 76.641 0 0 0 0 0.99035 1 37313 37313 0.45834 0 1 33718 909 21359 21428 37997 37997 0.11009823144490838 VARLHLLD 8 Unmodified _VARLHLLD_ 0 0 0 ENST00000487975.5_1_6:36973566-36978850:+|nuORF;ENST00000459781.5_1_6:36973566-36979631:+|nuORF;ENST00000464083.5_1_6:36973566-36981682:+|nuORF;ENSG00000146192|ENST00000274963|FGD2 ENST00000487975.5_1_6:36973566-36978850:+|nuORF ENST00000487975.5_1_6:36973566-36978850:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 468.7861633300781 2 468.784902 935.55525 2.9778 0.001396 0.41959 0.0001967 3.3974 0.0015927 468.78501618990646 9.8059 0.086195 9.8059 9.7345 9.8207 0 27 17 2 0 0 0 0.73686 1 4399 4399 2.8892 0 1 89847 33719 3504 21360 21429 37998 37998 0.08489483888331506 VARLLAQVAED 11 Unmodified _VARLLAQVAED_ 0 0 0 REV__ENSG00000082516|ENST00000285873|GEMIN5 REV__ENSG00000082516|ENST00000285873|GEMIN5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.56329345703125 3 395.559305 1183.65609 NaN NaN NaN NaN NaN NaN NaN 65.841 1 66.089 65.589 66.589 0.24848 0 0 0 1.0044 1 30163 30163 2.2527 0.66045 1 + 33720 10618 21361 21430 37999 37999 0.07160471080487696 VARLLLLLLLP 11 Unmodified _VARLLLLLLLP_ 0 0 0 REV__ENSG00000104805|ENST00000405315|NUCB1 REV__ENSG00000104805|ENST00000405315|NUCB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.3811645507812 2 617.436484 1232.85842 NaN NaN NaN NaN NaN NaN NaN 103.44 1 103.44 102.94 103.94 0 0 0 0 1.008 1 57011 57011 0.35063 0 1 + 33721 11001 21362 21431 38000 38000 0.2513002622388285 VARLLQRL 8 Unmodified _VARLLQRL_ 0 0 0 ENST00000246117.8_1_19:3209233-3209482:+|nuORF ENST00000246117.8_1_19:3209233-3209482:+|nuORF ENST00000246117.8_1_19:3209233-3209482:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.8247985839844 2 484.821818 967.629084 NaN NaN NaN NaN NaN NaN NaN 30.941 1 31.73 31.23 32.23 0.78879 0 0 0 0.99035 1 13977 13977 2.5775 0 1 33722 6490 21363 21432 38001 38001 0.14397452050650372 VARPPAMCSH 10 Unmodified _VARPPAMCSH_ 0 0 0 ENSG00000131127|ENST00000240499|ZNF141 ENSG00000131127|ENST00000240499|ZNF141 ENSG00000131127|ENST00000240499|ZNF141 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.2200927734375 2 534.757504 1067.50045 NaN NaN NaN NaN NaN NaN NaN 90.463 1 90.463 89.963 90.963 0 0 0 0 0.98866 1 47556 47556 7.2892 0 1 33723 2640 21364 21433 38002 38002 -0.030595942462468884 VARRLIRRLVL 11 Unmodified _VARRLIRRLVL_ 0 0 0 REV__ENSG00000124608|ENST00000244571|AARS2 REV__ENSG00000124608|ENST00000244571|AARS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 682.88037109375 2 682.96988 1363.92521 NaN NaN NaN NaN NaN NaN NaN 88.892 1 88.892 88.392 89.392 0 0 0 0 1.0071 1 46263 46263 1.4819 1.1749 1 + 33724 11663 21365 21434 38003 38003 0.25780074558360866 VARRLLFRR 9 Unmodified _VARRLLFRR_ 0 0 0 REV__ENSG00000139915|ENST00000399232|MDGA2 REV__ENSG00000139915|ENST00000399232|MDGA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 594.246337890625 2 593.885816 1185.75708 NaN NaN NaN NaN NaN NaN NaN 89.39 1 89.39 88.89 89.89 0 0 0 0 0.90511 1 46667 46667 2.3027 0.4585 1 + 33725 12224 21366 21435 38004 38004 0.1716301236454001 VARTASLPVRN 11 Unmodified _VARTASLPVRN_ 0 0 0 nc|ENSG00000145247|Q56VL3-2|OCIAD2 nc|ENSG00000145247|Q56VL3-2|OCIAD2 nc|ENSG00000145247|Q56VL3-2|OCIAD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.2389831542969 3 395.235045 1182.6833 NaN NaN NaN NaN NaN NaN NaN 82.484 1 83.144 82.644 83.644 0.66019 0 0 0 1.005 1 38004 38004 1.9275 0 1 33726 9680 21367 21436 38005 38005 0.09926999411572979 VASEHFYFWLN 11 Unmodified _VASEHFYFWLN_ 0 0 0 ENST00000461212.5_1_1:212125793-212148678:-|nuORF;nc|ENSG00000143493|Q9NVH2-4|INTS7;nc|ENSG00000143493|Q9NVH2-3|INTS7;nc|ENSG00000143493|Q9NVH2-2|INTS7;ENSG00000143493|ENST00000366994|INTS7 ENST00000461212.5_1_1:212125793-212148678:-|nuORF ENST00000461212.5_1_1:212125793-212148678:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 471.8479309082031 3 471.559305 1411.65609 NaN NaN NaN NaN NaN NaN NaN 13.841 1 14.085 13.585 14.585 0.24346 0 0 0 1.0057 1 6067 6067 1.3296 0 1 33727 3373 21368 21437 38006 38006 -0.03327528919476208 VASIAHHKAR 10 Unmodified _VASIAHHKAR_ 0 0 0 REV__ENSG00000153132|ENST00000325617|CLGN REV__ENSG00000153132|ENST00000325617|CLGN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.3186645507812 2 545.317432 1088.62031 3.5647 0.0019439 -0.89863 -0.00049004 2.6661 0.0014538 545.316860063632 84.788 0.81857 85.036 84.763 85.582 0.24757 91 48 3 0 0 0 0.93713 1 38924 38924 1.4819 0.15237 1 769400 + 33728 12669 21369 21438 38007 38007 0.07954478414171717 VASILVRRH 9 Unmodified _VASILVRRH_ 0 0 0 REV__ENST00000560141.2_1_15:45023732-45023795:+|nuORF REV__ENST00000560141.2_1_15:45023732-45023795:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.8542785644531 3 350.889209 1049.6458 2.108 0.00073968 0.41725 0.00014641 2.5253 0.00088609 350.8894642581107 13.543 0.091839 13.85 13.776 13.868 0.30727 9 6 2 0 0 0 0.11267 1 6111 6111 2.7352 0 1 107860 + 33729 17361 21370 21439 38008 38008 0.1229595293661987 VASKKEVFE 9 Unmodified _VASKKEVFE_ 0 0 0 ENSG00000105339|ENST00000519811|DENND3;nc|ENSG00000105339|A2RUS2-2|DENND3;nc|ENSG00000105339|A2RUS2|DENND3 ENSG00000105339|ENST00000519811|DENND3 ENSG00000105339|ENST00000519811|DENND3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 346.5549011230469 3 346.193963 1035.56006 2.5695 0.00088953 0.16302 5.6437E-05 2.7325 0.00094597 346.19412836957326 12.925 0.13264 12.925 12.833 12.965 0 15 5 3 0 0 0 0.094207 1 5628 5628 12.873 0 1 1348800 33730 1485 21371 21440 38009 38009 0.04370323240414109 VASLRGRKRP 10 Unmodified _VASLRGRKRP_ 0 0 0 REV__ENST00000358738.3_1_14:64971326-64971620:+|nuORF REV__ENST00000358738.3_1_14:64971326-64971620:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 570.363525390625 2 570.359631 1138.70471 3.9765 0.0022681 -1.04 -0.00059319 2.9365 0.0016749 570.3590048340975 91.953 0.54172 92.206 92.033 92.575 0.25253 57 27 3 0 0 0 0.93628 1 42260 42260 1.6526 0 1 789970 + 33731 15584 21372 21441 38010 38010 0.14090429230918744 VASLRGRKRP 10 Unmodified _VASLRGRKRP_ 0 0 0 REV__ENST00000358738.3_1_14:64971326-64971620:+|nuORF REV__ENST00000358738.3_1_14:64971326-64971620:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 570.359631 1138.70471 3.9765 0.0022681 -1.04 -0.00059319 2.9365 0.0016749 570.3590048340975 91.953 0.54172 92.206 92.033 92.575 0.25253 0.0016733 -4.6683E-05 NaN 1.6526 57 27 3 NaN NaN NaN NaN 0 NaN NaN 0 789970 + 33732 15584 21372 21441 0.14090429230918744 VATIKLKKL 9 Unmodified _VATIKLKKL_ 0 0 0 REV__ENST00000512857.5_1_4:99182716-99308609:+|nuORF REV__ENST00000512857.5_1_4:99182716-99308609:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.37310791015625 2 507.357702 1012.70085 NaN NaN NaN NaN NaN NaN NaN 96.571 1 96.647 96.147 97.147 0.076538 0 0 0 0.91206 1 51363 51363 0.6015 0 1 + 33733 12184 21373 21442 38011 38011 0.19500946684513565 VATLFRPA 8 Unmodified _VATLFRPA_ 0 0 0 REV__ENST00000262878.4_1_20:35579996-35580110:-|nuORF REV__ENST00000262878.4_1_20:35579996-35580110:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 438.09698486328125 2 437.760895 873.507237 3.0433 0.0013322 -0.47273 -0.00020694 2.5706 0.0011253 437.7608622232936 66.217 0.17935 66.465 66.362 66.542 0.24847 17 11 2 0 0 0 0.58952 1 30315 30315 14.838 2.3067 1 289080 + 33734 14992 21374 21443 38012 38012 0.06542409968267293 VATQLRMFRKW 11 Unmodified _VATQLRMFRKW_ 0 0 0 REV__ENST00000421587.6_2_X:41469209-41485910:-|nuORF REV__ENST00000421587.6_2_X:41469209-41485910:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 718.5089111328125 2 718.403181 1434.79181 NaN NaN NaN NaN NaN NaN NaN 94.073 1 94.073 93.573 94.573 0 0 0 0 1.008 1 50363 50363 0.35063 0 1 + 33735 16178 21375 21444 38013 38013 0.09180467390342528 VAVAFVYYK 9 Unmodified _VAVAFVYYK_ 0 0 0 ENSG00000162618|ENST00000370742|ADGRL4 ENSG00000162618|ENST00000370742|ADGRL4 ENSG00000162618|ENST00000370742|ADGRL4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.1815185546875 2 530.29731 1058.58007 2.6391 0.0013995 -1.0416 -0.00055234 1.5976 0.00084719 530.7979307270606 86.99 0.027809 86.99 86.972 87 0 5 4 2 0 0 0 0.080368 1 44718 44718 4.756 0 1 13280000 33736 4149 21376 21445 38014 38014 0.053121189710282124 VAVDEICKYRP 11 Unmodified _VAVDEICKYRP_ 0 0 0 ENSG00000136943|ENST00000259470|CTSV ENSG00000136943|ENST00000259470|CTSV ENSG00000136943|ENST00000259470|CTSV MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 646.9456787109375 2 646.837005 1291.65946 NaN NaN NaN NaN NaN NaN NaN 93.424 1 93.424 92.924 93.924 0 0 0 0 1.0034 1 49877 49877 6.2058 1.8765 1 33737 2992 21377 21446 38015 38015 0.025293978628496916 VAVERLKEYS 10 Unmodified _VAVERLKEYS_ 0 0 0 nc|ENSG00000103222|P33527-5|ABCC1;nc|ENSG00000103222|P33527-2|ABCC1;nc|ENSG00000103222|P33527-3|ABCC1;ENSG00000103222|ENST00000399410|ABCC1;nc|ENSG00000103222|P33527-9|ABCC1;nc|ENSG00000103222|P33527-8|ABCC1;nc|ENSG00000103222|P33527-6|ABCC1;nc|ENSG00000103222|P33527-7|ABCC1;nc|ENSG00000103222|P33527-4|ABCC1 nc|ENSG00000103222|P33527-5|ABCC1 nc|ENSG00000103222|P33527-5|ABCC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.5573425292969 3 398.555672 1192.64519 NaN NaN NaN NaN NaN NaN NaN 12.649 1 13.292 12.792 13.792 0.64272 0 0 0 1.0011 1 5678 5678 0.77653 0.50751 1 33738 1383 21378 21447 38016 38016 0.056570687062503566 VAVGDWVL 8 Unmodified _VAVGDWVL_ 0 0 0 ENST00000463411.1_1_5:176919279-176923513:-|nuORF;nc|ENSG00000196923|Q9NR12-3|PDLIM7;nc|ENSG00000196923|Q9NR12-5|PDLIM7;nc|ENSG00000196923|Q9NR12-6|PDLIM7;nc|ENSG00000196923|Q9NR12-4|PDLIM7;nc|ENSG00000196923|Q9NR12-2|PDLIM7;ENSG00000196923|ENST00000355841|PDLIM7 ENST00000463411.1_1_5:176919279-176923513:-|nuORF ENST00000463411.1_1_5:176919279-176923513:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 858.4747314453125 1 858.47198 857.464704 3.8726 0.0033245 -0.79186 -0.00067979 3.0807 0.0026447 858.4710715923417 83.757 0.28365 84.004 83.851 84.135 0.24722 27 17 2 0 0 0 0.056828 1 38548 38548 63.394 16.473 1 675810 33739 5784 21379 21448 38017 38017 0.030270148400518337 VAVGDWVL 8 Unmodified _VAVGDWVL_ 0 0 0 ENST00000463411.1_1_5:176919279-176923513:-|nuORF;nc|ENSG00000196923|Q9NR12-3|PDLIM7;nc|ENSG00000196923|Q9NR12-5|PDLIM7;nc|ENSG00000196923|Q9NR12-6|PDLIM7;nc|ENSG00000196923|Q9NR12-4|PDLIM7;nc|ENSG00000196923|Q9NR12-2|PDLIM7;ENSG00000196923|ENST00000355841|PDLIM7 ENST00000463411.1_1_5:176919279-176923513:-|nuORF ENST00000463411.1_1_5:176919279-176923513:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 858.4751586914062 1 858.47198 857.464704 4.0771 0.0035 0.96458 0.00082806 5.0416 0.0043281 858.4724319725453 83.23 0.30944 83.89 83.713 84.022 0.66019 27 17 2 0 0 0 0.056828 2 38349 38297;38349 63.394 12.743 1 707350 33740 5784 21379 21448 38018;38019 38019 0.030270148400518337 VAVGILLLILR 11 Unmodified _VAVGILLLILR_ 0 0 0 ENST00000479054.5_1_3:52526660-52527062:+|nuORF ENST00000479054.5_1_3:52526660-52527062:+|nuORF ENST00000479054.5_1_3:52526660-52527062:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.4149780273438 2 590.413009 1178.81146 NaN NaN NaN NaN NaN NaN NaN 93.451 1 93.537 93.037 94.037 0.086212 0 0 0 1.0071 1 48955 48955 1.4819 0 1 33741 8260 21380 21449 38020 38020 0.2292116667274513 VAVLVRKVVK 10 Unmodified _VAVLVRKVVK_ 0 0 0 REV__nc|ENSG00000168016|O15050|TRANK1 REV__nc|ENSG00000168016|O15050|TRANK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.8872680664062 2 555.889701 1109.76485 NaN NaN NaN NaN NaN NaN NaN 83.142 1 83.142 82.642 83.642 0 0 0 0 0.99983 1 41814 41814 1.8442 0 1 + 33742 13323 21381 21450 38021 38021 0.21435726841446012 VAVRPAGRRVV 11 Unmodified _VAVRPAGRRVV_ 0 0 0 REV__ENST00000544456.5_2_12:7342308-7342639:+|nuORF REV__ENST00000544456.5_2_12:7342308-7342639:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.3753662109375 2 590.375281 1178.73601 NaN NaN NaN NaN NaN NaN NaN 92.771 1 92.857 92.357 93.357 0.086212 0 0 0 1.0034 1 48444 48444 6.2058 2.2614 1 + 33743 17238 21382 21451 38022 38022 0.15379002265035524 VAVRPRKLPIV 11 Unmodified _VAVRPRKLPIV_ 0 0 0 REV__nc|ENSG00000184672|Q86SE5-2|RALYL REV__nc|ENSG00000184672|Q86SE5-2|RALYL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 624.4212036132812 2 624.419157 1246.82376 NaN NaN NaN NaN NaN NaN NaN 82.9 1 82.9 82.4 83.4 0 0 0 0 1.0071 1 41634 41634 1.4819 0 1 + 33744 13986 21383 21452 38023 38023 0.21022203135771633 VAVRRGKDLLQ 11 Unmodified _VAVRRGKDLLQ_ 0 0 0 REV__ENST00000413379.7_1_19:47712635-47712935:+|nuORF REV__ENST00000413379.7_1_19:47712635-47712935:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 627.8878173828125 2 627.885678 1253.7568 4.0117 0.0025189 -0.082304 -5.1677E-05 3.9294 0.0024672 627.8853020479776 96.837 0.45332 97.439 97.267 97.72 0.60191 40 20 4 0 0 0 0.84832 1 44505 44505 1.1933 0 1 2089300 + 33745 16113 21384 21453 38024 38024 0.14007547854043878 VAVVGPLS 8 Unmodified _VAVVGPLS_ 0 0 0 REV__nc|ENSG00000145703|Q13576-2|IQGAP2 REV__nc|ENSG00000145703|Q13576-2|IQGAP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 371.1016540527344 2 371.228897 740.44324 2.1768 0.00080809 2.5862 0.00096006 4.763 0.0017681 371.2299809202307 68.35 0.10234 68.35 68.291 68.393 0 18 14 2 0 0 0 0.14333 1 32906 32906 0.79363 0 1 725820 + 33746 17972 21385 21454 38025 38025 0.06263629811337523 VAVVGPLS 8 Unmodified _VAVVGPLS_ 0 0 0 REV__nc|ENSG00000145703|Q13576-2|IQGAP2 REV__nc|ENSG00000145703|Q13576-2|IQGAP2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 371.228897 740.44324 2.9499 0.0010951 2.497 0.00092697 5.4469 0.0020221 371.22981125140785 67.825 0.24102 68.078 67.913 68.154 0.25227 -0.10076 8.6357E-05 NaN 0.79363 27 15 2 NaN NaN NaN NaN 0 NaN NaN 0 565030 + 33747 17972 21385 21454 0.06263629811337523 VAVVGPLS 8 Unmodified _VAVVGPLS_ 0 0 0 REV__nc|ENSG00000145703|Q13576-2|IQGAP2 REV__nc|ENSG00000145703|Q13576-2|IQGAP2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 371.228897 740.44324 2.6074 0.00096796 2.1691 0.00080523 4.7765 0.0017732 371.2295196500263 67.45 0.34125 68.108 67.918 68.259 0.65777 -0.070742 -0.00015711 NaN 0.79363 41 22 2 NaN NaN NaN NaN 0 NaN NaN 0 552040 + 33748 17972 21385 21454 0.06263629811337523 VAVVLRAKRKK 11 Unmodified _VAVVLRAKRKK_ 0 0 0 REV__nc|ENSG00000173218|Q8TAA9-2|VANGL1 REV__nc|ENSG00000173218|Q8TAA9-2|VANGL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 634.4374389648438 2 634.437881 1266.86121 NaN NaN NaN NaN NaN NaN NaN 69.059 1 69.719 69.219 70.219 0.65924 0 0 0 1.008 1 31657 31657 0.35063 0 1 + 33749 13589 21386 21455 38026 38026 0.23845294401371575 VAVWGALP 8 Unmodified _VAVWGALP_ 0 0 0 ENST00000298564.14_1_5:176084095-176084419:+|nuORF ENST00000298564.14_1_5:176084095-176084419:+|nuORF ENST00000298564.14_1_5:176084095-176084419:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.7378845214844 2 406.736889 811.459225 NaN NaN NaN NaN NaN NaN NaN 12.668 1 13.311 12.811 13.811 0.64272 0 0 0 0.99035 1 5687 5687 6.3541 0 1 33750 6780 21387 21456 38027 38027 0.04595336048237186 VAWAVRKQ 8 Unmodified _VAWAVRKQ_ 0 0 0 REV__ENST00000537142.5_1_1:16273579-16302558:-|nuORF REV__ENST00000537142.5_1_1:16273579-16302558:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 319.86029052734375 3 319.859138 956.555585 2.4198 0.00077401 1.233 0.00039438 3.6528 0.0011684 319.85945196136845 49.008 0.50285 49.27 49.113 49.616 0.26209 33 18 2 0 0 0 0.7471 1 22426 22426 1.8442 0 1 1193300 + 33751 15811 21388 21457 38028 38028 0.075569036081788 VAWKQKRRR 9 Unmodified _VAWKQKRRR_ 0 0 0 REV__ENSG00000254093|ENST00000314787|PINX1;REV__nc|ENSG00000171056|Q9BT81-2|SOX7 REV__nc|ENSG00000171056|Q9BT81-2|SOX7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.3792724609375 2 614.380897 1226.74724 NaN NaN NaN NaN NaN NaN NaN 101.97 1 101.97 101.47 102.47 0 0 0 0 0.90511 1 56324 56324 2.3027 0.4585 1 + 33752 14665;18044 21389 21458 38029 38029 0.14293824359151586 VAWPHPTPLL 10 Unmodified _VAWPHPTPLL_ 0 0 0 ENST00000243776.10_1_2:220403755-220404097:-|nuORF ENST00000243776.10_1_2:220403755-220404097:-|nuORF ENST00000243776.10_1_2:220403755-220404097:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 565.8257446289062 2 565.821484 1129.62842 2.8843 0.001632 2.3418 0.0013251 5.2261 0.0029571 565.8231789208564 51.442 0.18635 52.26 52.198 52.384 0.81738 20 13 2 0 0 0 0.69129 1 23468 23468 6.7232 0 1 424680 33753 6474 21390 21459 38030 38030 0.06878612610944401 VAWQSRTWRRR 11 Unmodified _VAWQSRTWRRR_ 0 0 0 REV__ENST00000554052.2_2_14:35515721-35519263:+|nuORF REV__ENST00000554052.2_2_14:35515721-35519263:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 751.5135498046875 2 751.416 1500.81745 NaN NaN NaN NaN NaN NaN NaN 90.967 1 91.042 90.542 91.542 0.075279 0 0 0 1.0073 1 47010 47010 1.1933 0.84271 1 + 33754 15088 21391 21460 38031 38031 0.08707077956933063 VAYHLIIDNRR 11 Unmodified _VAYHLIIDNRR_ 0 0 0 ENSG00000162409|ENST00000371244|PRKAA2;ENSG00000132356|ENST00000397128|PRKAA1;nc|ENSG00000132356|Q13131-2|PRKAA1 ENSG00000162409|ENST00000371244|PRKAA2 ENSG00000162409|ENST00000371244|PRKAA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.3935546875 2 685.388585 1368.76262 NaN NaN NaN NaN NaN NaN NaN 67.372 1 68.03 67.53 68.53 0.65777 0 0 0 1.0072 1 30883 30883 1.3295 0.13619 1 33755 2693 21392 21461 38032 38032 0.09298646365687091 VAYRRRLWKWW 11 Unmodified _VAYRRRLWKWW_ 0 0 0 ENST00000461642.2_1_20:25470551-25477423:-|nuORF ENST00000461642.2_1_20:25470551-25477423:-|nuORF ENST00000461642.2_1_20:25470551-25477423:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 810.453857421875 2 810.457136 1618.89972 NaN NaN NaN NaN NaN NaN NaN 94.649 1 94.649 94.149 95.149 0 0 0 0 1.0071 1 50823 50823 1.4819 1.4819 1 33756 8087 21393 21462 38033 38033 0.11502600035896648 VAYRRRLWKWW 11 Unmodified _VAYRRRLWKWW_ 0 0 0 ENST00000461642.2_1_20:25470551-25477423:-|nuORF ENST00000461642.2_1_20:25470551-25477423:-|nuORF ENST00000461642.2_1_20:25470551-25477423:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 810.4585571289062 2 810.457136 1618.89972 NaN NaN NaN NaN NaN NaN NaN 94.887 1 94.887 94.387 95.387 0 0 0 0 1.008 1 50992 50992 0.35063 0.35063 1 33757 8087 21393 21462 38034 38034 0.11502600035896648 VAYRRRLWKWW 11 Unmodified _VAYRRRLWKWW_ 0 0 0 ENST00000461642.2_1_20:25470551-25477423:-|nuORF ENST00000461642.2_1_20:25470551-25477423:-|nuORF ENST00000461642.2_1_20:25470551-25477423:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 810.3963623046875 2 810.457136 1618.89972 NaN NaN NaN NaN NaN NaN NaN 91.998 1 92.081 91.581 92.581 0.082848 0 0 0 1.008 1 47825 47825 0.35063 0.35063 1 33758 8087 21393 21462 38035 38035 0.11502600035896648 VAYRRRLWKWW 11 Unmodified _VAYRRRLWKWW_ 0 0 0 ENST00000461642.2_1_20:25470551-25477423:-|nuORF ENST00000461642.2_1_20:25470551-25477423:-|nuORF ENST00000461642.2_1_20:25470551-25477423:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 810.3348999023438 2 810.457136 1618.89972 NaN NaN NaN NaN NaN NaN NaN 95.763 1 95.845 95.345 96.345 0.082001 0 0 0 1.008 1 50707 50707 0.35063 0.35063 1 33759 8087 21393 21462 38036 38036 0.11502600035896648 VCAVQQQRGRA 11 Unmodified _VCAVQQQRGRA_ 0 0 0 REV__ENST00000470984.5_1_7:44323776-44365599:-|nuORF REV__ENST00000470984.5_1_7:44323776-44365599:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.8857116699219 3 405.884017 1214.63022 2.1611 0.00087715 0.59831 0.00024284 2.7594 0.00112 405.88410226271674 72.363 0.205 73.067 72.94 73.145 0.70387 42 21 3 0 0 0 0.88721 1 34827 34827 1.2148 0.10508 1 1099800 + 33760 16596 21394 21463 38037 38037 0.031492983572661615 VCAVQQQRGRA 11 Unmodified _VCAVQQQRGRA_ 0 0 0 REV__ENST00000470984.5_1_7:44323776-44365599:-|nuORF REV__ENST00000470984.5_1_7:44323776-44365599:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.8851013183594 3 405.884017 1214.63022 2.7044 0.0010977 0.82326 0.00033415 3.5276 0.0014318 405.88415011981533 72.779 0.29987 73.037 72.923 73.223 0.25876 63 26 3 0 0 0 0.83518 1 33421 33421 2.4348 0.69251 1 1299900 + 33761 16596 21394 21463 38038 38038 0.031492983572661615 VCAVQQQRGRA 11 Unmodified _VCAVQQQRGRA_ 0 0 0 REV__ENST00000470984.5_1_7:44323776-44365599:-|nuORF REV__ENST00000470984.5_1_7:44323776-44365599:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.8856506347656 3 405.884017 1214.63022 2.304 0.00093514 0.89895 0.00036487 3.2029 0.0013 405.88417911873387 72.123 0.76781 72.786 72.195 72.962 0.66324 109 59 3 0 0 0 0.89309 1 33036 33036 1.1098 0 1 2213400 + 33762 16596 21394 21463 38039 38039 0.031492983572661615 VCAVQQQRGRA 11 Unmodified _VCAVQQQRGRA_ 0 0 0 REV__ENST00000470984.5_1_7:44323776-44365599:-|nuORF REV__ENST00000470984.5_1_7:44323776-44365599:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.8849182128906 3 405.884017 1214.63022 2.3239 0.00094322 0.31097 0.00012622 2.6348 0.0010694 405.8840967275908 72.346 0.22523 73.009 72.948 73.173 0.66325 55 29 2 0 0 0 0.88721 2 33187 33187;33243 1.2148 0.10508 1 1829100 + 33763 16596 21394 21463 38040;38041 38040 0.031492983572661615 VCAVQQQRGRA 11 Unmodified _VCAVQQQRGRA_ 0 0 0 REV__ENST00000470984.5_1_7:44323776-44365599:-|nuORF REV__ENST00000470984.5_1_7:44323776-44365599:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.884765625 3 405.884017 1214.63022 NaN NaN NaN NaN NaN NaN NaN 71.957 1 72.62 72.12 73.12 0.66324 0 0 0 1.0059 1 32982 32982 1.2148 0.10508 1 + 33764 16596 21394 21463 38042 38042 0.031492983572661615 VCCCCSSSK 9 Unmodified _VCCCCSSSK_ 0 0 0 ENSG00000181773|ENST00000374024|GPR3 ENSG00000181773|ENST00000374024|GPR3 ENSG00000181773|ENST00000374024|GPR3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 919.111083984375 1 919.314041 918.306765 3.2934 0.0030277 -2.7124 -0.0024935 0.581 0.00053413 919.3094959878349 87.389 0.078171 87.389 87.342 87.42 0 15 11 2 0 0 0 0.10355 1 45046 45046 1.3295 0.5359 1 29526000 33765 5299 21395 21464 38043 38043 -0.15565635069003747 VCCHAHDT 8 Unmodified _VCCHAHDT_ 0 0 0 REV__ENSG00000164742|ENST00000297323|ADCY1 REV__ENSG00000164742|ENST00000297323|ADCY1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 443.1725769042969 2 443.17073 884.326907 2.5175 0.0011157 0.60166 0.00026664 3.1192 0.0013823 443.1714935242084 104.19 0.058578 104.19 104.15 104.21 0 6 2 3 0 0 0 0.7471 1 57363 57363 0.79363 0.10326 1 1721900 + 33766 13110 21396 21465 38044 38044 -0.11988380022535239 VCCHAHDT 8 Unmodified _VCCHAHDT_ 0 0 0 REV__ENSG00000164742|ENST00000297323|ADCY1 REV__ENSG00000164742|ENST00000297323|ADCY1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 443.17073 884.326907 2.5175 0.0011157 0.60166 0.00026664 3.1192 0.0013823 443.1714935242084 104.19 0.058578 104.19 104.15 104.21 0 0.0049485 -0.001297 NaN 0.79363 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 1721900 + 33767 13110 21396 21465 -0.11988380022535239 VCCHAHDT 8 Unmodified _VCCHAHDT_ 0 0 0 REV__ENSG00000164742|ENST00000297323|ADCY1 REV__ENSG00000164742|ENST00000297323|ADCY1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 443.17073 884.326907 1.5089 0.0006687 2.3012 0.0010198 3.8101 0.0016885 443.17183823731585 104.13 0.058723 104.18 104.16 104.21 0.052994 -0.0049485 0.00020943 NaN 0.79363 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 801760 + 33768 13110 21396 21465 -0.11988380022535239 VCCPCLCCNDC 11 Unmodified _VCCPCLCCNDC_ 0 0 0 REV__ENST00000322177.5_1_15:75247948-75248191:-|nuORF REV__ENST00000322177.5_1_15:75247948-75248191:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 392.541748046875 3 392.454204 1174.34078 NaN NaN NaN NaN NaN NaN NaN 46.776 1 47.042 46.542 47.542 0.26561 0 0 0 1.0082 1 21379 21379 0 0 1 + 33769 15326 21397 21466 38045 38045 -0.2394129796391553 VCDHDNDCQD 10 Unmodified _VCDHDNDCQD_ 0 0 0 ENSG00000081479|ENST00000649046|LRP2;LRP2|p.N4549Kfs*8|1|0.33|ENSG00000081479|chr2:169132655-169132655|A/-|frameshift_variant;LRP2|p.G259Ifs*6|1|0.04|ENSG00000081479|chr2:169290993-169290994|-/GAAAATA|frameshift_variant ENSG00000081479|ENST00000649046|LRP2 ENSG00000081479|ENST00000649046|LRP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.1917724609375 2 582.190045 1162.36554 NaN NaN NaN NaN NaN NaN NaN 0.94004 1 1.3336 0.83361 1.8336 0.39356 0 0 0 1.002 1 430 430 0 0 1 33770 920 21398 21467 38046 38046 -0.2091516396935731 VCIQKLTRLLK 11 Unmodified _VCIQKLTRLLK_ 0 0 0 REV__ENST00000583907.1_1_17:26743951-26744507:+|nuORF REV__ENST00000583907.1_1_17:26743951-26744507:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 329.4981994628906 4 329.462704 1313.82171 2.2122 0.00072883 -0.78799 -0.00025961 1.4242 0.00046921 329.46241490768006 50.3 0.59671 50.3 49.991 50.588 0 44 28 2 0 0 0 0.91104 1 22958 22958 1.2148 0 1 455620 + 33771 17525 21399 21468 38047 38047 0.17735406335646076 VCIQKLTRLLK 11 Unmodified _VCIQKLTRLLK_ 0 0 0 REV__ENST00000583907.1_1_17:26743951-26744507:+|nuORF REV__ENST00000583907.1_1_17:26743951-26744507:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 329.462704 1313.82171 2.2122 0.00072883 -0.78799 -0.00025961 1.4242 0.00046921 329.46241490768006 50.3 0.59671 50.3 49.991 50.588 0 0.039305 0.00015312 NaN 1.2148 44 28 2 NaN NaN NaN NaN 0 NaN NaN 0 455620 + 33772 17525 21399 21468 0.17735406335646076 VCIQKLTRLLK 11 Unmodified _VCIQKLTRLLK_ 0 0 0 REV__ENST00000583907.1_1_17:26743951-26744507:+|nuORF REV__ENST00000583907.1_1_17:26743951-26744507:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 329.462704 1313.82171 2.4032 0.00079175 -1.1121 -0.00036638 1.2911 0.00042537 329.46237197364036 49.749 0.57811 50.011 49.645 50.223 0.26146 -0.24966 -0.00027394 NaN 1.2148 37 22 2 NaN NaN NaN NaN 0 NaN NaN 0 549280 + 33773 17525 21399 21468 0.17735406335646076 VCIQKLTRLLK 11 Unmodified _VCIQKLTRLLK_ 0 0 0 REV__ENST00000583907.1_1_17:26743951-26744507:+|nuORF REV__ENST00000583907.1_1_17:26743951-26744507:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 329.462704 1313.82171 2.2503 0.00074139 -0.85157 -0.00028056 1.3987 0.00046083 329.4624509564033 49.813 0.11152 50.471 50.451 50.563 0.65735 0.21036 6.9335E-05 NaN 1.2148 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 419850 + 33774 17525 21399 21468 0.17735406335646076 VCLQSHLLRRL 11 Unmodified _VCLQSHLLRRL_ 0 0 0 AluJo_dup26670|chr7:765700-765992:-|1.779023674019775|0.262438413584597|2.76|542.0|9|3|sense AluJo_dup26670|chr7:765700-765992:-|1.779023674019775|0.262438413584597|2.76|542.0|9|3|sense AluJo_dup26670|chr7:765700-765992:-|1.779023674019775|0.262438413584597|2.76|542.0|9|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.202392578125 4 335.201316 1336.77616 2.2335 0.00074868 0.78445 0.00026295 3.018 0.0010116 335.20153655726983 55.559 0.28291 55.825 55.616 55.899 0.26543 28 14 4 0 0 0 0.91345 1 25386 25386 0.45452 0.45452 1 2110100 33775 29 21400 21469 38048 38048 0.12124180873274781 VCLQSHLLRRL 11 Unmodified _VCLQSHLLRRL_ 0 0 0 AluJo_dup26670|chr7:765700-765992:-|1.779023674019775|0.262438413584597|2.76|542.0|9|3|sense AluJo_dup26670|chr7:765700-765992:-|1.779023674019775|0.262438413584597|2.76|542.0|9|3|sense AluJo_dup26670|chr7:765700-765992:-|1.779023674019775|0.262438413584597|2.76|542.0|9|3|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 335.201316 1336.77616 2.1648 0.00072565 0.40678 0.00013635 2.5716 0.00086201 335.2014610073503 55.773 0.35971 55.773 55.63 55.99 0 0.072773 -0.00041569 NaN 0.45452 56 27 3 NaN NaN NaN NaN 0 NaN NaN 0 2183800 33776 29 21400 21469 0.12124180873274781 VCLQSHLLRRL 11 Unmodified _VCLQSHLLRRL_ 0 0 0 AluJo_dup26670|chr7:765700-765992:-|1.779023674019775|0.262438413584597|2.76|542.0|9|3|sense AluJo_dup26670|chr7:765700-765992:-|1.779023674019775|0.262438413584597|2.76|542.0|9|3|sense AluJo_dup26670|chr7:765700-765992:-|1.779023674019775|0.262438413584597|2.76|542.0|9|3|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 335.201316 1336.77616 2.2335 0.00074868 0.78445 0.00026295 3.018 0.0010116 335.20153655726983 55.559 0.28291 55.825 55.616 55.899 0.26543 0.12414 9.0686E-05 NaN 0.45452 28 14 4 NaN NaN NaN NaN 0 NaN NaN 0 2110100 33777 29 21400 21469 0.12124180873274781 VCLQSHLLRRL 11 Unmodified _VCLQSHLLRRL_ 0 0 0 AluJo_dup26670|chr7:765700-765992:-|1.779023674019775|0.262438413584597|2.76|542.0|9|3|sense AluJo_dup26670|chr7:765700-765992:-|1.779023674019775|0.262438413584597|2.76|542.0|9|3|sense AluJo_dup26670|chr7:765700-765992:-|1.779023674019775|0.262438413584597|2.76|542.0|9|3|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 335.201316 1336.77616 2.272 0.00076157 1.0555 0.00035379 3.3274 0.0011154 335.2016622491966 55.059 0.37254 55.727 55.483 55.856 0.66797 0.026888 0.00045406 NaN 0.45452 22 15 2 NaN NaN NaN NaN 0 NaN NaN 0 436890 33778 29 21400 21469 0.12124180873274781 VCPRIPIP 8 Unmodified _VCPRIPIP_ 0 0 0 REV__nc|ENSG00000196367|Q9Y4A5-2|TRRAP REV__nc|ENSG00000196367|Q9Y4A5-2|TRRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 447.7672424316406 2 447.765123 893.515694 3.2554 0.0014576 0.94203 0.00042181 4.1974 0.0018795 447.7656019786828 85.455 0.59849 86.12 85.729 86.327 0.66566 88 27 5 0 0 0 0.7471 1 39444 39444 0.69038 0 1 3895300 + 33779 14208 21401 21470 38049 38049 0.06467640613254844 VCPRKALLE 9 Unmodified _VCPRKALLE_ 0 0 0 REV__ENSG00000172123|ENST00000304905|SLFN12 REV__ENSG00000172123|ENST00000304905|SLFN12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.53594970703125 3 343.535555 1027.58484 2.3962 0.00082317 -1.3407 -0.00046057 1.0555 0.00036261 343.53483310482267 34.927 0.26095 35.549 35.48 35.741 0.62294 47 21 3 0 0 0 0.80651 1 15972 15972 4.5289 0 1 3086200 + 33780 13538 21402 21471 38050 38050 0.07214679842149962 VCRRRRMRRLL 11 Unmodified _VCRRRRMRRLL_ 0 0 0 ENST00000428254.5_1_20:25604798-25612818:+|nuORF ENST00000428254.5_1_20:25604798-25612818:+|nuORF ENST00000428254.5_1_20:25604798-25612818:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 757.9595947265625 2 757.958997 1513.90344 NaN NaN NaN NaN NaN NaN NaN 93.284 1 93.539 93.039 94.039 0.25497 0 0 0 1.0082 1 42875 42875 0 0 1 33781 7823 21403 21472 38051 38051 0.1670462326649158 VCTCTDMED 9 Unmodified _VCTCTDMED_ 0 0 0 ENSG00000110799|ENST00000261405|VWF ENSG00000110799|ENST00000261405|VWF ENSG00000110799|ENST00000261405|VWF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.6721496582031 2 508.672111 1015.32967 NaN NaN NaN NaN NaN NaN NaN 60.19 1 60.446 59.946 60.946 0.25578 0 0 0 0.8984 1 27561 27561 3.9444 1.6417 1 33782 1729 21404 21473 38052 38052 -0.17738337470552779 VCVLLPGC 8 Unmodified _VCVLLPGC_ 0 0 0 ENST00000235345.5_1_1:67467438-67467552:-|nuORF ENST00000235345.5_1_1:67467438-67467552:-|nuORF ENST00000235345.5_1_1:67467438-67467552:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 402.2123718261719 2 402.211335 802.408117 NaN NaN NaN NaN NaN NaN NaN 76.213 1 76.213 75.713 76.713 0 0 0 0 0.99035 1 37348 37348 2.8892 0 1 33783 6461 21405 21474 38053 38053 -0.0009907231249144388 VCVSPTLSPIR 11 Unmodified _VCVSPTLSPIR_ 0 0 0 REV__ENST00000349703.6_1_4:39289509-39289731:-|nuORF REV__ENST00000349703.6_1_4:39289509-39289731:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 391.22412109375 3 391.221636 1170.64308 NaN NaN NaN NaN NaN NaN NaN 57.761 1 58.529 58.029 59.029 0.76861 0 0 0 0.98464 1 26470 26470 6.6235 3.3038 1 + 33784 15521 21406 21475 38054 38054 0.06458316696762267 VDEFTVCSQV 10 Unmodified _VDEFTVCSQV_ 0 0 0 REV__ENSG00000131845|ENST00000282286|ZNF304 REV__ENSG00000131845|ENST00000282286|ZNF304 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.1974182128906 3 376.174352 1125.50123 NaN NaN NaN NaN NaN NaN NaN 27.188 1 27.967 27.467 28.467 0.7787 0 0 0 0.99733 1 12220 12220 1.9064 0 1 + 33785 11867 21407 21476 38055 38055 -0.05650521116217533 VDEHNQME 8 Unmodified _VDEHNQME_ 0 0 0 REV__ENSG00000133302|ENST00000265140|SLF1 REV__ENSG00000133302|ENST00000265140|SLF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1001.5634155273438 1 1001.39929 1000.39201 3.1471 0.0031515 0.071741 7.1841E-05 3.2188 0.0032233 1002.4026761765109 13.722 0.026018 14.029 14.012 14.038 0.30727 4 2 2 0 0 0 0.7471 1 6195 6195 0.79363 0 1 413070 + 33786 11931 21408 21477 38056 38056 -0.10817107015691363 VDEHNQME 8 Unmodified _VDEHNQME_ 0 0 0 REV__ENSG00000133302|ENST00000265140|SLF1 REV__ENSG00000133302|ENST00000265140|SLF1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 1001.39929 1000.39201 3.1471 0.0031515 0.071741 7.1841E-05 3.2188 0.0032233 1002.4026761765109 13.722 0.026018 14.029 14.012 14.038 0.30727 -0.02593 0.0001193 NaN 0.79363 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 413070 + 33787 11931 21408 21477 -0.10817107015691363 VDFKIIDV 8 Unmodified _VDFKIIDV_ 0 0 0 REV__ENSG00000183090|ENST00000329798|FREM3 REV__ENSG00000183090|ENST00000329798|FREM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 948.5501098632812 1 948.54006 947.532783 4.2953 0.0040742 1.0652 0.0010104 5.3605 0.0050847 948.5413600312789 92.961 0.18356 93.216 93.146 93.33 0.25497 16 10 2 0 0 0 0.60101 1 42733 42733 18.135 0 1 421800 + 33788 13917 21409 21478 38057 38057 0.05691839700057244 VDFYDMDQ 8 Unmodified _VDFYDMDQ_ 0 0 0 ENSG00000152503|ENST00000513154|TRIM36;nc|ENSG00000152503|Q9NQ86|TRIM36 ENSG00000152503|ENST00000513154|TRIM36 ENSG00000152503|ENST00000513154|TRIM36 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1032.7373046875 1 1032.39789 1031.39061 3.3067 0.0034138 -4.2369 -0.0043742 -0.93024 -0.00096037 1032.3963403930204 47.984 0.15839 47.984 47.903 48.061 0 10 7 2 0 0 0 0.14111 1 21966 21966 5.7604 0.52976 1 513370 33789 3752 21410 21479 38058 38058 -0.12382741104465822 VDGNDYSEQ 9 Unmodified _VDGNDYSEQ_ 0 0 0 nc|ENSG00000147421|Q6NT76-2|HMBOX1;nc|ENSG00000147421|Q6NT76-3|HMBOX1;ENSG00000147421|ENST00000287701|HMBOX1;nc|ENSG00000147421|Q6NT76-5|HMBOX1 nc|ENSG00000147421|Q6NT76-2|HMBOX1 nc|ENSG00000147421|Q6NT76-2|HMBOX1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1026.7308349609375 1 1026.40106 1025.39378 3.3697 0.0034587 -1.4087 -0.0014459 1.961 0.0020128 1027.4032465055225 44.008 0.077751 44.008 43.975 44.053 0 10 7 2 0 0 0 0.10586 1 20063 20063 7.9102 0.62092 1 7926600 33790 3564 21411 21480 38059 38059 -0.11789774726094038 VDKRKPPWVIW 11 Unmodified _VDKRKPPWVIW_ 0 0 0 nc|ENSG00000168356|Q9UI33-2|SCN11A;nc|ENSG00000168356|Q9UI33-3|SCN11A;ENSG00000168356|ENST00000302328|SCN11A nc|ENSG00000168356|Q9UI33-2|SCN11A nc|ENSG00000168356|Q9UI33-2|SCN11A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.2799377441406 3 475.278473 1422.81359 2.9766 0.0014147 -0.56424 -0.00026817 2.4124 0.0011466 475.2779767908451 62.29 0.5868 62.539 61.976 62.563 0.24965 60 37 2 0 0 0 0.90781 1 28360 28360 2.084 0.86914 1 26245000 33791 4621 21412 21481 38060 38060 0.11909595410565998 VDLLGPSVPR 10 Unmodified _VDLLGPSVPR_ 0 0 0 REV__ENST00000540093.2_2_12:2851859-2881072:-|nuORF REV__ENST00000540093.2_2_12:2851859-2881072:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.84979248046875 3 351.541475 1051.60259 2.3664 0.00083187 0.059275 2.0837E-05 2.4256 0.00085271 351.54148218422847 19.296 0.14112 19.594 19.541 19.682 0.29753 24 14 2 0 0 0 0.12676 1 8766 8766 10.315 2.7063 1 429890 + 33792 17208 21413 21482 38061 38061 0.07885718368675043 VDLLRLDG 8 Unmodified _VDLLRLDG_ 0 0 0 REV__ENSG00000198712|ENST00000361739|MT-CO2 REV__ENSG00000198712|ENST00000361739|MT-CO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.76275634765625 2 450.761092 899.507631 NaN NaN NaN NaN NaN NaN NaN 26.368 1 27.147 26.647 27.647 0.7787 0 0 0 0.97647 1 11843 11843 7.2892 0 1 + 33793 14350 21414 21483 38062 38062 0.05385784897475787 VDLLRLDG 8 Unmodified _VDLLRLDG_ 0 0 0 REV__ENSG00000198712|ENST00000361739|MT-CO2 REV__ENSG00000198712|ENST00000361739|MT-CO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.7627868652344 2 450.761092 899.507631 NaN NaN NaN NaN NaN NaN NaN 26.494 1 27.119 26.619 27.619 0.62505 0 0 0 0.88872 1 12146 12146 13.042 0.51092 1 + 33794 14350 21414 21483 38063 38063 0.05385784897475787 VDLLSRAAL 9 Unmodified _VDLLSRAAL_ 0 0 0 REV__ENSG00000008300|ENST00000164024|CELSR3 REV__ENSG00000008300|ENST00000164024|CELSR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.29150390625 2 479.290017 956.565481 3.2222 0.0015444 0.86651 0.00041531 4.0887 0.0019597 479.29012030530333 18.857 0.37258 19.518 19.299 19.671 0.66072 50 29 2 0 0 0 0.14729 1 8556 8556 26.884 3.7352 1 758080 + 33795 10208 21415 21484 38064 38064 0.0854604682289164 VDMMCYNSL 9 Carbamidomethyl (C),2 Oxidation (M) _VDM(Oxidation (M))M(Oxidation (M))C(Carbamidomethyl (C))YNSL_ VDMMC(1)YNSL VDM(1)M(1)CYNSL VDMMC(46)YNSL VDM(46)M(46)CYNSL 0 1 2 REV__ENST00000552353.2_1_12:93397587-93397737:+|nuORF REV__ENST00000552353.2_1_12:93397587-93397737:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.7241821289062 2 582.722135 1163.42972 3.5223 0.0020525 -1.021 -0.00059497 2.5013 0.0014575 582.7221483954736 63.435 0.35394 64.093 63.918 64.272 0.65808 76 22 4 0 0 0 0.052704 1 29085 29085 46.021 13.715 1 4855900 + 33796 17294 21416 21485 38065 38065 113 100;101 -0.14546100136749374 VDMMCYNSL 9 Carbamidomethyl (C),2 Oxidation (M) _VDM(Oxidation (M))M(Oxidation (M))C(Carbamidomethyl (C))YNSL_ 0 1 2 REV__ENST00000552353.2_1_12:93397587-93397737:+|nuORF REV__ENST00000552353.2_1_12:93397587-93397737:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 582.722135 1163.42972 3.0821 0.001796 3.4767 0.002026 6.5588 0.0038219 583.2266449563222 64.214 0.035217 64.214 64.195 64.231 0 0.092433 0.0047263 NaN 46.021 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 6980900 + 33797 17294 21416 21485 113 100;101 -0.14546100136749374 VDMMCYNSL 9 Carbamidomethyl (C),2 Oxidation (M) _VDM(Oxidation (M))M(Oxidation (M))C(Carbamidomethyl (C))YNSL_ 0 1 2 REV__ENST00000552353.2_1_12:93397587-93397737:+|nuORF REV__ENST00000552353.2_1_12:93397587-93397737:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 582.722135 1163.42972 2.7141 0.0015816 -0.16395 -9.5536E-05 2.5502 0.001486 582.7216888566945 63.278 0.28717 64 63.776 64.063 0.72235 -0.12128 0.00048332 NaN 46.021 54 32 2 NaN NaN NaN NaN 0 NaN NaN 0 9801900 + 33798 17294 21416 21485 113 100;101 -0.14546100136749374 VDMMCYNSL 9 Carbamidomethyl (C),2 Oxidation (M) _VDM(Oxidation (M))M(Oxidation (M))C(Carbamidomethyl (C))YNSL_ 0 1 2 REV__ENST00000552353.2_1_12:93397587-93397737:+|nuORF REV__ENST00000552353.2_1_12:93397587-93397737:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 582.722135 1163.42972 3.2534 0.0018958 -0.59328 -0.00034572 2.6601 0.0015501 582.722296932953 63.931 0.3887 64.179 63.99 64.379 0.24802 0.057206 -1.7044E-05 NaN 46.021 66 24 4 NaN NaN NaN NaN 0 NaN NaN 0 5721300 + 33799 17294 21416 21485 113 100;101 -0.14546100136749374 VDMMCYNSL 9 Carbamidomethyl (C),2 Oxidation (M) _VDM(Oxidation (M))M(Oxidation (M))C(Carbamidomethyl (C))YNSL_ 0 1 2 REV__ENST00000552353.2_1_12:93397587-93397737:+|nuORF REV__ENST00000552353.2_1_12:93397587-93397737:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 582.722135 1163.42972 3.5223 0.0020525 -1.021 -0.00059497 2.5013 0.0014575 582.7221483954736 63.435 0.35394 64.093 63.918 64.272 0.65808 -0.028355 -0.00051555 NaN 46.021 76 22 4 NaN NaN NaN NaN 0 NaN NaN 0 4855900 + 33800 17294 21416 21485 113 100;101 -0.14546100136749374 VDNQPPEV 8 Unmodified _VDNQPPEV_ 0 0 0 ENSG00000183090|ENST00000329798|FREM3 ENSG00000183090|ENST00000329798|FREM3 ENSG00000183090|ENST00000329798|FREM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 449.22039794921875 2 449.219257 896.423961 3.0542 0.001372 0.14855 6.673E-05 3.2027 0.0014387 449.2192927505868 28.547 0.34146 29.167 29.016 29.358 0.61947 30 17 2 0 0 0 0.56084 1 13055 13055 16.942 0 1 192470 33801 5362 21417 21486 38066 38066 -0.02839371270238189 VDREELSVM 9 Unmodified _VDREELSVM_ 0 0 0 nc|ENSG00000073417|O60658-4|PDE8A;nc|ENSG00000073417|O60658-3|PDE8A;nc|ENSG00000073417|O60658-5|PDE8A;nc|ENSG00000073417|O60658-6|PDE8A;nc|ENSG00000073417|O60658-2|PDE8A;ENSG00000073417|ENST00000394553|PDE8A nc|ENSG00000073417|O60658-4|PDE8A nc|ENSG00000073417|O60658-4|PDE8A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.1176147460938 2 539.265881 1076.51721 NaN NaN NaN NaN NaN NaN NaN 57.772 1 57.772 57.272 58.272 0 0 0 0 0.82031 1 26639 26639 8.5933 1.304 1 33802 808 21418 21487 38067 38067 -0.017988148793165237 VDSKSPNL 8 Unmodified _VDSKSPNL_ 0 0 0 ENSG00000139117|ENST00000331366|CPNE8 ENSG00000139117|ENST00000331366|CPNE8 ENSG00000139117|ENST00000331366|CPNE8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 430.23089599609375 2 430.229625 858.444697 2.7763 0.0011944 0.013933 5.9942E-06 2.7902 0.0012004 430.22961809148404 14.498 0.21577 14.724 14.573 14.788 0.22622 28 17 2 0 0 0 0.5584 1 6349 6349 17.113 0.1706 1 514530 33803 3127 21419 21488 38068 38068 0.009812191094397349 VDSKSPNL 8 Unmodified _VDSKSPNL_ 0 0 0 ENSG00000139117|ENST00000331366|CPNE8 ENSG00000139117|ENST00000331366|CPNE8 ENSG00000139117|ENST00000331366|CPNE8 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 430.229625 858.444697 2.8946 0.0012454 0.2733 0.00011758 3.1679 0.0013629 430.22967888245364 14.863 0.37404 14.863 14.675 15.049 0 0.069575 9.8299E-05 NaN 17.113 66 38 3 NaN NaN NaN NaN 0 NaN NaN 0 252090 33804 3127 21419 21488 0.009812191094397349 VDSMEDEVQR 10 Unmodified _VDSMEDEVQR_ 0 0 0 ENST00000592662.5_1_19:13039347-13044510:-|nuORF;nc|ENSG00000179115|Q9Y285-2|FARSA;ENSG00000179115|ENST00000314606|FARSA ENST00000592662.5_1_19:13039347-13044510:-|nuORF ENST00000592662.5_1_19:13039347-13044510:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 402.72772216796875 3 403.180165 1206.51867 NaN NaN NaN NaN NaN NaN NaN 12.923 1 13.23 12.73 13.73 0.30727 0 0 0 1.0001 1 5829 5829 0.69767 0 1 33805 5199 21420 21489 38069 38069 -0.07633225581207626 VDSPNPTP 8 Unmodified _VDSPNPTP_ 0 0 0 ENST00000513432.5_1_18:13059017-13124766:+|nuORF;nc|ENSG00000101639|Q8TEP8-2|CEP192;nc|ENSG00000101639|Q8TEP8-1|CEP192;ENSG00000101639|ENST00000506447|CEP192 ENST00000513432.5_1_18:13059017-13124766:+|nuORF ENST00000513432.5_1_18:13059017-13124766:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 413.7018737792969 2 413.7007 825.386848 2.3793 0.00098433 -0.2698 -0.00011162 2.1095 0.00087272 413.7006736113523 59.109 0.24035 59.868 59.773 60.013 0.75894 22 17 2 0 0 0 0.21011 1 27189 27189 42.095 18.946 1 539440 33806 1307 21421 21490 38070 38070 -0.032830428159968505 VDSPNPTP 8 Unmodified _VDSPNPTP_ 0 0 0 ENST00000513432.5_1_18:13059017-13124766:+|nuORF;nc|ENSG00000101639|Q8TEP8-2|CEP192;nc|ENSG00000101639|Q8TEP8-1|CEP192;ENSG00000101639|ENST00000506447|CEP192 ENST00000513432.5_1_18:13059017-13124766:+|nuORF ENST00000513432.5_1_18:13059017-13124766:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 826.399169921875 1 826.394124 825.386848 3.9549 0.0032683 0.33862 0.00027984 4.2935 0.0035482 826.3937594686438 59.181 0.25149 59.848 59.688 59.939 0.66703 17 12 2 0 0 0 0.05432 1 27069 27069 64.236 3.8468 1 724540 33807 1307 21421 21490 38071 38071 -0.032830428159968505 VDSPNPTP 8 Unmodified _VDSPNPTP_ 0 0 0 ENST00000513432.5_1_18:13059017-13124766:+|nuORF;nc|ENSG00000101639|Q8TEP8-2|CEP192;nc|ENSG00000101639|Q8TEP8-1|CEP192;ENSG00000101639|ENST00000506447|CEP192 ENST00000513432.5_1_18:13059017-13124766:+|nuORF ENST00000513432.5_1_18:13059017-13124766:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 413.7007 825.386848 2.9858 0.0012352 -0.24622 -0.00010186 2.7396 0.0011334 413.70057812567285 59.15 0.16103 59.817 59.732 59.894 0.66703 -0.025662 1.3052E-05 NaN 42.095 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 637830 33808 1307 21421 21490 -0.032830428159968505 VDSPQLATL 9 Unmodified _VDSPQLATL_ 0 0 0 nc|ENSG00000186868|P10636-3|MAPT;ENST00000576518.1_1_17:44055640-44101534:+|nuORF;nc|ENSG00000186868|P10636-2|MAPT;nc|ENSG00000186868|P10636-4|MAPT;nc|ENSG00000186868|P10636-6|MAPT;nc|ENSG00000186868|P10636-5|MAPT;nc|ENSG00000186868|P10636-7|MAPT;nc|ENSG00000186868|P10636-8|MAPT;nc|ENSG00000186868|P10636|MAPT;nc|ENSG00000186868|P10636-9|MAPT;ENSG00000186868|ENST00000262410|MAPT nc|ENSG00000186868|P10636-3|MAPT nc|ENSG00000186868|P10636-3|MAPT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.2593994140625 2 472.258382 942.502212 2.8355 0.0013391 0.31842 0.00015038 3.154 0.0014895 472.25832348718893 45.936 0.29532 46.762 46.692 46.987 0.82621 20 14 2 0 0 0 0.26277 1 20980 20980 19.257 0 1 706390 33809 5592 21422 21491 38072 38072 0.028660613150123027 VDTSCCSI 8 Unmodified _VDTSCCSI_ 0 0 0 THOC1|p.S313Tfs*32|1|0.19|ENSG00000079134|chr18:226879-226882|TCAC/-|frameshift_variant THOC1|p.S313Tfs*32|1|0.19|ENSG00000079134|chr18:226879-226882|TCAC/-|frameshift_variant THOC1|p.S313Tfs*32|1|0.19|ENSG00000079134|chr18:226879-226882|TCAC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 827.3302612304688 1 827.327366 826.32009 3.3956 0.0028093 -1.9493 -0.0016127 1.4463 0.0011965 827.3256116206916 103.4 0.075806 103.4 103.37 103.44 0 9 4 4 0 0 0 0.74071 1 56994 56994 2.5775 0 1 2585200 33810 18269 21423 21492 38073 38073 -0.10001737693767154 VDTSCCSI 8 Unmodified _VDTSCCSI_ 0 0 0 THOC1|p.S313Tfs*32|1|0.19|ENSG00000079134|chr18:226879-226882|TCAC/-|frameshift_variant THOC1|p.S313Tfs*32|1|0.19|ENSG00000079134|chr18:226879-226882|TCAC/-|frameshift_variant THOC1|p.S313Tfs*32|1|0.19|ENSG00000079134|chr18:226879-226882|TCAC/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 827.327366 826.32009 2.3592 0.0019518 -0.3704 -0.00030644 1.9888 0.0016454 827.3260049098008 103.45 0.057938 103.5 103.46 103.52 0.055099 0.053666 0.00097992 NaN 2.5775 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 363470 33811 18269 21423 21492 -0.10001737693767154 VDVGRRRFD 9 Unmodified _VDVGRRRFD_ 0 0 0 REV__ENSG00000138030|ENST00000260598|KHK REV__ENSG00000138030|ENST00000260598|KHK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.303466796875 2 560.304521 1118.59449 NaN NaN NaN NaN NaN NaN NaN 40.166 1 40.808 40.308 41.308 0.64136 0 0 0 0.8984 1 18353 18353 3.9444 0 1 + 33812 12141 21424 21493 38074 38074 0.039935841718943266 VDWQNNMTFA 10 Unmodified _VDWQNNMTFA_ 0 0 0 ENSG00000092377|ENST00000383032|TBL1Y ENSG00000092377|ENST00000383032|TBL1Y ENSG00000092377|ENST00000383032|TBL1Y MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.26708984375 2 613.268955 1224.52336 NaN NaN NaN NaN NaN NaN NaN 35.169 1 35.961 35.461 36.461 0.79131 0 0 0 0.9952 1 15937 15937 5.7319 3.2334 1 33813 1097 21425 21494 38075 38075 -0.07992296647785224 VDYDEITVM 9 Unmodified _VDYDEITVM_ 0 0 0 REV__SRGAP1|p.Q812Kfs*22|1|0.18|ENSG00000196935|chr12:64127617-64127617|C/-|frameshift_variant REV__SRGAP1|p.Q812Kfs*22|1|0.18|ENSG00000196935|chr12:64127617-64127617|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.7494506835938 2 542.74699 1083.47943 3.4991 0.0018991 0.97759 0.00053059 4.4767 0.0024297 542.747682348197 38.159 0.37159 38.159 37.96 38.332 0 54 13 5 0 0 0 0.55815 1 17375 17375 11.64 0 1 22796000 + 33814 14247 21426 21495 38076 38076 -0.058973258647938565 VDYFFISI 8 Unmodified _VDYFFISI_ 0 0 0 REV__ENSG00000198601|ENST00000641836|OR2M2 REV__ENSG00000198601|ENST00000641836|OR2M2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.2610778808594 2 502.260394 1002.50623 2.6178 0.0013148 -0.076939 -3.8643E-05 2.5409 0.0012762 502.2603680048049 71.459 0.39285 72.122 71.976 72.369 0.66324 52 26 3 0 0 0 0.23254 1 32738 32738 40.449 0 1 1209700 + 33815 14342 21427 21496 38077 38077 0.005081508087073416 VDYKKRAERRR 11 Unmodified _VDYKKRAERRR_ 0 0 0 nc|ENSG00000104859|Q8N2M8-3|CLASRP;nc|ENSG00000104859|Q8N2M8-4|CLASRP;ENSG00000104859|ENST00000221455|CLASRP;ENST00000588247.5_1_19:45543470-45543635:+|nuORF;ENST00000592056.5_1_19:45543470-45556151:+|nuORF nc|ENSG00000104859|Q8N2M8-3|CLASRP nc|ENSG00000104859|Q8N2M8-3|CLASRP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.9549865722656 3 492.955052 1475.84333 NaN NaN NaN NaN NaN NaN NaN 26.696 1 27.475 26.975 27.975 0.7787 0 0 0 1.0082 1 11993 11993 0 0 1 33816 1455 21428 21497 38078 38078 0.12443927408571653 VEAACALT 8 Unmodified _VEAACALT_ 0 0 0 nc|ENSG00000143390|P48382-2|RFX5;ENSG00000143390|ENST00000452671|RFX5 nc|ENSG00000143390|P48382-2|RFX5 nc|ENSG00000143390|P48382-2|RFX5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.19482421875 2 389.194196 776.37384 NaN NaN NaN NaN NaN NaN NaN 90.999 1 91.251 90.751 91.751 0.25163 0 0 0 0.99035 1 41844 41844 2.5775 0 1 33817 3364 21429 21498 38079 38079 -0.023291971997650762 VEALTRLRS 9 Unmodified _VEALTRLRS_ 0 0 0 REV__nc|ENSG00000263528|Q14164-2|IKBKE REV__nc|ENSG00000263528|Q14164-2|IKBKE MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.8130493164062 2 522.811648 1043.60874 3.4174 0.0017867 0.96054 0.00050218 4.378 0.0022888 522.812270230113 14.699 0.28088 15.352 15.23 15.511 0.65356 42 24 2 0 0 0 1.0041 1 6640 6640 3.9444 0.3479 1 620700 + 33818 14701 21430 21499 38080 38080 0.08868236600164892 VEAQRKKL 8 Unmodified _VEAQRKKL_ 0 0 0 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 ENSG00000175073|ENST00000310421|VCPIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.8667907714844 2 486.303458 970.592364 3.1272 0.0015208 0.0037954 1.8457E-06 3.131 0.0015226 486.3034604804743 40.566 0.15963 41.369 41.271 41.431 0.80351 18 11 2 0 0 0 0.70146 1 18333 18333 5.7604 0 1 1265300 33819 5011 21431 21500 38081 38081 0.10589155434081476 VEATTGHPRA 10 Unmodified _VEATTGHPRA_ 0 0 0 ENST00000444637.6_2_19:36249067-36250693:+|nuORF;ENST00000545674.5_2_19:36250210-36250693:+|nuORF ENST00000444637.6_2_19:36249067-36250693:+|nuORF ENST00000444637.6_2_19:36249067-36250693:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 519.2813110351562 2 519.76998 1037.52541 3.5354 0.0018376 0.45622 0.00023713 3.9916 0.0020747 519.7698134613962 65.562 0.20375 65.811 65.699 65.902 0.24847 15 10 2 0 0 0 0.11995 1 30065 30065 13.906 3.0821 1 805890 33820 7960 21432 21501 38082 38082 0.008145001523189421 VEDNQMVEI 9 Unmodified _VEDNQMVEI_ 0 0 0 ENST00000488952.1_1_2:96809564-96810280:-|nuORF;ENSG00000158050|ENST00000288943|DUSP2 ENST00000488952.1_1_2:96809564-96810280:-|nuORF ENST00000488952.1_1_2:96809564-96810280:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.7529296875 2 538.750064 1075.48558 NaN NaN NaN NaN NaN NaN NaN 27.722 1 28.508 28.008 29.008 0.78627 0 0 0 0.68339 1 12471 12471 13.042 1.4022 1 33821 3972 21433 21502 38083 38083 -0.04914807633258533 VEDNQMVEI 9 Unmodified _VEDNQMVEI_ 0 0 0 ENST00000488952.1_1_2:96809564-96810280:-|nuORF;ENSG00000158050|ENST00000288943|DUSP2 ENST00000488952.1_1_2:96809564-96810280:-|nuORF ENST00000488952.1_1_2:96809564-96810280:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.751708984375 2 538.750064 1075.48558 NaN NaN NaN NaN NaN NaN NaN 28.403 1 28.663 28.163 29.163 0.2602 0 0 0 0.37214 1 12919 12919 24.021 0 1 33822 3972 21433 21502 38084 38084 -0.04914807633258533 VEEDELEALT 10 Unmodified _VEEDELEALT_ 0 0 0 nc|ENSG00000134444|Q9P260|RELCH;ENSG00000134444|ENST00000644646|RELCH;nc|ENSG00000134444|Q9P260-2|RELCH nc|ENSG00000134444|Q9P260|RELCH nc|ENSG00000134444|Q9P260|RELCH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 574.2748413085938 2 574.271884 1146.52921 3.8302 0.0021996 0.86238 0.00049524 4.6926 0.0026948 574.2726593503696 20.142 0.44692 20.795 20.645 21.092 0.65346 73 36 3 0 0 0 0.79369 2 9159 9115;9159 8.7454 0 1 303130 33823 2810 21434 21503 38085;38086 38086 -0.038189196551456916 VEEELDVVQ 9 Unmodified _VEEELDVVQ_ 0 0 0 REV__ENST00000482720.1_1_22:29194993-29196512:-|nuORF REV__ENST00000482720.1_1_22:29194993-29196512:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.74658203125 2 530.263862 1058.51317 NaN NaN NaN NaN NaN NaN NaN 37.879 1 38.674 38.174 39.174 0.79552 0 0 0 0.89683 1 17161 17161 4.3292 0 1 + 33824 16714 21435 21504 38087 38087 -0.013745811013677667 VEEPVSPML 9 Unmodified _VEEPVSPML_ 0 0 0 nc|ENSG00000084093|Q13127-4|REST;ENSG00000084093|ENST00000309042|REST nc|ENSG00000084093|Q13127-4|REST nc|ENSG00000084093|Q13127-4|REST MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.7562255859375 2 500.754618 999.494683 3.2115 0.0016082 -0.060069 -3.008E-05 3.1515 0.0015781 500.7548339498247 83.976 0.41942 84.223 84.033 84.452 0.24722 57 23 3 0 0 0 0.29781 1 38603 38603 16.942 2.104 1 1922800 33825 952 21436 21505 38088 38088 -0.005084142769192113 VEFYYRHLYL 10 Unmodified _VEFYYRHLYL_ 0 0 0 REV__nc|ENSG00000291110|Q309B1|TRIM16L REV__nc|ENSG00000291110|Q309B1|TRIM16L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 701.640869140625 2 701.861338 1401.70812 NaN NaN NaN NaN NaN NaN NaN 49.097 1 49.924 49.424 50.424 0.82705 0 0 0 1.0015 1 22367 22367 0.40072 0 1 + 33826 14542 21437 21506 38089 38089 0.02333634494289072 VEFYYRHLYL 10 Unmodified _VEFYYRHLYL_ 0 0 0 REV__nc|ENSG00000291110|Q309B1|TRIM16L REV__nc|ENSG00000291110|Q309B1|TRIM16L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 701.862548828125 2 701.861338 1401.70812 NaN NaN NaN NaN NaN NaN NaN 71.162 1 71.42 70.92 71.92 0.25786 0 0 0 1.0001 1 32596 32596 1.6526 0.32309 1 + 33827 14542 21437 21506 38090 38090 0.02333634494289072 VEHKLRHM 8 Unmodified _VEHKLRHM_ 0 0 0 REV__nc|ENSG00000196323|Q8NCP5-3|ZBTB44 REV__nc|ENSG00000196323|Q8NCP5-3|ZBTB44 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.52825927734375 3 350.527282 1048.56002 2.8307 0.00099224 1.0901 0.0003821 3.9208 0.0013743 350.5275706394929 6.8848 0.79163 7.5084 7.0973 7.8889 0.62357 103 71 3 0 0 0 0.7471 2 3105 3105;3145 0.45834 0 1 84999 + 33828 18088 21438 21507 38091;38092 38091 0.037680447594539146 VEITKIKVK 9 Unmodified _VEITKIKVK_ 0 0 0 REV__ENST00000322723.8_1_2:232321811-232322410:-|nuORF REV__ENST00000322723.8_1_2:232321811-232322410:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.35498046875 2 529.352617 1056.69068 3.3308 0.0017632 0.73736 0.00039032 4.0682 0.0021535 529.3529342310335 15.367 0.71823 16.021 15.785 16.503 0.65356 145 94 2 0 0 0 1.129 1 7037 7037 1.8442 0 1 94181 + 33829 15329 21439 21508 38093 38093 0.16460338959268483 VEKAAQLR 8 Unmodified _VEKAAQLR_ 0 0 0 ENST00000459797.1_1_1:47148918-47150223:-|nuORF;ENST00000487741.6_1_1:47144135-47150814:-|nuORF;ENST00000481623.1_1_1:47144135-47152569:-|nuORF;ENSG00000159658|ENST00000371933|EFCAB14 ENST00000459797.1_1_1:47148918-47150223:-|nuORF ENST00000459797.1_1_1:47148918-47150223:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 305.5192565917969 3 305.518781 913.534515 2.0265 0.00061913 0.39709 0.00012132 2.4236 0.00074045 305.51892943566537 21.84 0.25604 21.84 21.713 21.969 0 31 22 2 0 0 0 0.70146 1 9806 9806 3.9444 0 1 142800 33830 4030 21440 21509 38094 38094 0.07428893508665624 VEKAAQLR 8 Unmodified _VEKAAQLR_ 0 0 0 ENST00000459797.1_1_1:47148918-47150223:-|nuORF;ENST00000487741.6_1_1:47144135-47150814:-|nuORF;ENST00000481623.1_1_1:47144135-47152569:-|nuORF;ENSG00000159658|ENST00000371933|EFCAB14 ENST00000459797.1_1_1:47148918-47150223:-|nuORF ENST00000459797.1_1_1:47148918-47150223:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 305.51959228515625 3 305.518781 913.534515 2.2425 0.00068512 0.56826 0.00017361 2.8107 0.00085873 305.51885816430377 20.886 0.24289 21.54 21.377 21.62 0.65346 35 16 3 0 0 0 0.59268 1 9462 9462 10.824 0 1 262880 33831 4030 21440 21509 38095 38095 0.07428893508665624 VEKENFVI 8 Unmodified _VEKENFVI_ 0 0 0 ENSG00000166578|ENST00000416617|IQCD ENSG00000166578|ENST00000416617|IQCD ENSG00000166578|ENST00000416617|IQCD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 489.26885986328125 2 489.26875 976.522947 3.3404 0.0016344 -0.9043 -0.00044244 2.4361 0.0011919 489.2680954141434 30.865 0.25125 31.653 31.52 31.771 0.78879 32 19 2 0 0 0 0.61796 2 13958 13915;13958 12.532 3.047 1 578510 33832 4494 21441 21510 38096;38097 38097 0.03374651694673503 VEKENFVI 8 Unmodified _VEKENFVI_ 0 0 0 ENSG00000166578|ENST00000416617|IQCD ENSG00000166578|ENST00000416617|IQCD ENSG00000166578|ENST00000416617|IQCD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.2709045410156 2 489.26875 976.522947 3.5855 0.0017543 -0.019248 -9.4176E-06 3.5662 0.0017448 489.26867678959553 31.674 0.52255 31.929 31.648 32.171 0.25452 131 40 4 0 0 0 0.60592 1 14323 14323 13.508 0 1 6148400 33833 4494 21441 21510 38098 38098 0.03374651694673503 VEKENFVI 8 Unmodified _VEKENFVI_ 0 0 0 ENSG00000166578|ENST00000416617|IQCD ENSG00000166578|ENST00000416617|IQCD ENSG00000166578|ENST00000416617|IQCD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.2705383300781 2 489.26875 976.522947 3.2019 0.0015666 0.10425 5.1006E-05 3.3061 0.0016176 489.26878881320016 31.193 0.44665 31.81 31.558 32.005 0.61737 94 29 4 0 0 0 0.070862 2 14361 14232;14361 58.679 3.9053 1 7795800 33834 4494 21441 21510 38099;38100 38100 0.03374651694673503 VEKIDKSLL 9 Unmodified _VEKIDKSLL_ 0 0 0 REV__nc|ENSG00000182253|O15061-2|SYNM REV__nc|ENSG00000182253|O15061-2|SYNM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.8204956054688 2 522.818607 1043.62266 3.5181 0.0018393 -0.6343 -0.00033162 2.8838 0.0015077 522.8185411164624 48.568 0.15765 48.83 48.745 48.902 0.26209 10 6 2 0 0 0 0.093314 1 22223 22223 34.402 0 1 503560 + 33835 13882 21442 21511 38101 38101 0.10259469308630287 VEKIWFRNKHR 11 Unmodified _VEKIWFRNKHR_ 0 0 0 REV__ENST00000303329.8_1_15:80888135-80888297:+|nuORF REV__ENST00000303329.8_1_15:80888135-80888297:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1512.8604736328125 1 1512.85463 1511.84735 3.2392 0.0049004 -4.106 -0.0062118 -0.8668 -0.0013113 1513.8485220574316 24.26 0.071846 24.531 24.49 24.562 0.27129 20 13 2 0 0 0 0.91068 1 10980 10980 1.3295 0 1 26445000 + 33836 15209 21443 21512 38102 38102 0.11190016902310163 VEKIWFRNKHR 11 Unmodified _VEKIWFRNKHR_ 0 0 0 REV__ENST00000303329.8_1_15:80888135-80888297:+|nuORF REV__ENST00000303329.8_1_15:80888135-80888297:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 1512.85463 1511.84735 3.2856 0.0049706 -3.5223 -0.0053288 -0.23673 -0.00035813 1513.8544288478809 24.709 0.028706 24.709 24.696 24.725 0 0.089067 0.00032584 NaN 1.3295 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 4215200 + 33837 15209 21443 21512 0.11190016902310163 VEKIWFRNKHR 11 Unmodified _VEKIWFRNKHR_ 0 0 0 REV__ENST00000303329.8_1_15:80888135-80888297:+|nuORF REV__ENST00000303329.8_1_15:80888135-80888297:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 1512.85463 1511.84735 3.2392 0.0049004 -4.106 -0.0062118 -0.8668 -0.0013113 1513.8485220574316 24.26 0.071846 24.531 24.49 24.562 0.27129 -0.089067 -0.00055715 NaN 1.3295 20 13 2 NaN NaN NaN NaN 0 NaN NaN 0 26445000 + 33838 15209 21443 21512 0.11190016902310163 VEKKKETS 8 Unmodified _VEKKKETS_ 0 0 0 REV__ENSG00000174720|ENST00000344442|LARP7 REV__ENSG00000174720|ENST00000344442|LARP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 316.8507995605469 3 316.850197 947.528761 2.0916 0.00066273 0.49047 0.00015541 2.5821 0.00081814 316.85032025352297 16.741 0.94591 17.046 16.49 17.435 0.30438 199 92 3 0 0 0 0.7471 1 7377 7377 0.45834 0 1 203120 + 33839 13643 21444 21513 38103 38103 0.05289750206338795 VEKKRKSRKRK 11 Unmodified _VEKKRKSRKRK_ 0 0 0 REV__ENSG00000163421|ENST00000295619|PROK2 REV__ENSG00000163421|ENST00000295619|PROK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 721.9718017578125 2 721.973151 1441.93175 NaN NaN NaN NaN NaN NaN NaN 65.026 1 65.026 64.526 65.526 0 0 0 0 1.0072 1 30908 30908 1.3295 0.13619 1 + 33840 12987 21445 21514 38104 38104 0.22845967719058535 VEKKRKSRKRK 11 Unmodified _VEKKRKSRKRK_ 0 0 0 REV__ENSG00000163421|ENST00000295619|PROK2 REV__ENSG00000163421|ENST00000295619|PROK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 721.9723510742188 2 721.973151 1441.93175 NaN NaN NaN NaN NaN NaN NaN 97.321 1 97.923 97.423 98.423 0.6019 0 0 0 1.0072 1 44748 44748 1.3295 1.0225 1 + 33841 12987 21445 21514 38105 38105 0.22845967719058535 VEKKYFMK 8 Unmodified _VEKKYFMK_ 0 0 0 REV__ENSG00000163939|ENST00000707071|PBRM1 REV__ENSG00000163939|ENST00000707071|PBRM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1072.592041015625 1 1072.58596 1071.57869 3.2099 0.0034429 1.794 0.0019242 5.0039 0.0053671 1072.5869330940704 26.867 0.090912 27.132 27.085 27.176 0.26489 6 5 2 0 0 0 0.7471 1 12218 12218 0.79363 0 1 168790 + 33842 13042 21446 21515 38106 38106 0.04576161610634699 VEKLHIGKI 9 Unmodified _VEKLHIGKI_ 0 0 0 REV__ENSG00000154262|ENST00000284425|ABCA6 REV__ENSG00000154262|ENST00000284425|ABCA6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.22357177734375 3 346.221965 1035.64407 NaN NaN NaN NaN NaN NaN NaN 18.238 1 18.899 18.399 19.399 0.66072 0 0 0 0.86044 1 8252 8252 7.609 4.8738 1 + 33843 12703 21447 21516 38107 38107 0.1276689912801885 VEKLQGKA 8 Unmodified _VEKLQGKA_ 0 0 0 ENST00000556170.5_1_14:75573136-75593624:-|nuORF;ENSG00000119638|ENST00000238616|NEK9 ENST00000556170.5_1_14:75573136-75593624:-|nuORF ENST00000556170.5_1_14:75573136-75593624:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 436.76483154296875 2 436.763635 871.512717 3.1999 0.0013976 0.24873 0.00010864 3.4486 0.0015062 436.76367520246106 29.166 0.34147 29.166 28.995 29.336 0 57 26 3 0 0 0 0.39589 1 13120 13120 28.487 0 1 598070 33844 2154 21448 21517 38108 38108 0.071820887600893 VEKLWKKL 8 Unmodified _VEKLWKKL_ 0 0 0 REV__ENSG00000248483|ENST00000606183|POU5F2 REV__ENSG00000248483|ENST00000606183|POU5F2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.5583190917969 3 348.558577 1042.6539 NaN NaN NaN NaN NaN NaN NaN 30.918 1 31.536 31.036 32.036 0.61737 0 0 0 0.9851 1 14185 14185 6.7232 2.7788 1 + 33845 14641 21449 21518 38109 38109 0.13428087133388544 VEKNPKPQ 8 Unmodified _VEKNPKPQ_ 0 0 0 nc|ENSG00000164509|Q8NI17-8|IL31RA nc|ENSG00000164509|Q8NI17-8|IL31RA nc|ENSG00000164509|Q8NI17-8|IL31RA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.2687683105469 2 470.266542 938.51853 2.6653 0.0012534 0.78311 0.00036827 3.4484 0.0016217 470.26691375705263 16.731 0.8725 17.035 16.587 17.459 0.30438 129 82 3 0 0 0 0.74071 1 7428 7428 2.5775 0 1 216880 33846 9724 21450 21519 38110 38110 0.0468118727176261 VEKRLQQL 8 Unmodified _VEKRLQQL_ 0 0 0 POLI|p.G322Dfs*33|1|0.28|ENSG00000101751|chr18:54283004-54283004|G/-|frameshift_variant;ENSG00000101751|ENST00000579534|POLI POLI|p.G322Dfs*33|1|0.28|ENSG00000101751|chr18:54283004-54283004|G/-|frameshift_variant POLI|p.G322Dfs*33|1|0.28|ENSG00000101751|chr18:54283004-54283004|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.3101501464844 2 507.308741 1012.60293 3.1787 0.0016126 0.12593 6.3885E-05 3.3046 0.0016765 507.30880321335144 32.995 0.24645 33.613 33.435 33.682 0.61831 18 10 2 0 0 0 0.52517 1 15144 15144 19.439 0 1 353300 33847 1312 21451 21520 38111 38111 0.0971313808852301 VEKSKLLLIPG 11 Unmodified _VEKSKLLLIPG_ 0 0 0 ENST00000413506.5_2_X:100912690-100913461:-|nuORF;ENST00000431597.5_2_X:100912693-100914433:-|nuORF ENST00000413506.5_2_X:100912690-100913461:-|nuORF ENST00000413506.5_2_X:100912690-100913461:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.2582092285156 3 399.591946 1195.75401 2.6719 0.0010677 -0.55627 -0.00022228 2.1157 0.0008454 399.5917910081243 37.223 0.35594 37.223 37.106 37.462 0 15 12 2 0 0 0 0.91328 1 16952 16952 0.50596 0 1 740900 33848 7691 21452 21521 38112 38112 0.16396279676519043 VEKTRLDL 8 Unmodified _VEKTRLDL_ 0 0 0 REV__ENSG00000105738|ENST00000222345|SIPA1L3 REV__ENSG00000105738|ENST00000222345|SIPA1L3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.28948974609375 2 487.287474 972.560395 3.1349 0.0015276 -0.24933 -0.0001215 2.8856 0.0014061 487.28735388098113 28.047 0.24078 28.666 28.565 28.806 0.61947 23 14 2 0 0 0 0.63902 1 12896 12896 10.824 0 1 202570 + 33849 11052 21453 21522 38113 38113 0.0730174296027144 VEKVGQPTL 9 Unmodified _VEKVGQPTL_ 0 0 0 REV__ENSG00000171060|ENST00000304519|C8orf74 REV__ENSG00000171060|ENST00000304519|C8orf74 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.7835998535156 2 485.782025 969.549496 NaN NaN NaN NaN NaN NaN NaN 40.518 1 40.518 40.018 41.018 0 0 0 0 0.77475 1 18390 18390 10.074 1.4806 1 + 33850 13469 21454 21523 38114 38114 0.06350340586004677 VEKVGQPTL 9 Unmodified _VEKVGQPTL_ 0 0 0 REV__ENSG00000171060|ENST00000304519|C8orf74 REV__ENSG00000171060|ENST00000304519|C8orf74 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.7831726074219 2 485.782025 969.549496 3.2438 0.0015758 -0.062596 -3.0408E-05 3.1812 0.0015454 485.78190532644436 40.323 0.37739 40.592 40.382 40.759 0.26889 31 12 3 0 0 0 0.048676 1 18392 18392 47.749 2.0491 1 4921200 + 33851 13469 21454 21523 38115 38115 0.06350340586004677 VEKVGQPTL 9 Unmodified _VEKVGQPTL_ 0 0 0 REV__ENSG00000171060|ENST00000304519|C8orf74 REV__ENSG00000171060|ENST00000304519|C8orf74 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 485.782025 969.549496 3.2438 0.0015758 -0.062596 -3.0408E-05 3.1812 0.0015454 485.78190532644436 40.323 0.37739 40.592 40.382 40.759 0.26889 0.046011 3.4116E-05 NaN 47.749 31 12 3 NaN NaN NaN NaN 0 NaN NaN 0 4921200 + 33852 13469 21454 21523 0.06350340586004677 VEKVQLHS 8 Unmodified _VEKVQLHS_ 0 0 0 ENSG00000219626|ENST00000615575|FAM228B ENSG00000219626|ENST00000615575|FAM228B ENSG00000219626|ENST00000615575|FAM228B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.26849365234375 2 470.266542 938.51853 2.9621 0.001393 0.73654 0.00034637 3.6987 0.0017394 470.2669122676977 16.783 0.90907 17.444 16.914 17.824 0.66072 182 84 3 0 0 0 0.71384 1 7357 7357 4.756 0 1 451120 33853 6145 21455 21524 38116 38116 0.0468118727176261 VEKVSKLK 8 Unmodified _VEKVSKLK_ 0 0 0 REV__ENSG00000126215|ENST00000555055|XRCC3 REV__ENSG00000126215|ENST00000555055|XRCC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.8048400878906 2 465.80276 929.590967 2.8454 0.0013254 0.78655 0.00036638 3.6319 0.0016918 465.80307836744106 16.816 0.777 17.477 16.947 17.724 0.66072 111 72 2 0 0 0 0.68261 3 7525 7458;7525;7657 7.2892 0 1 159430 + 33854 11705 21456 21525 38117;38118;38119 38118 0.1233552134533511 VEKVSVNK 8 Unmodified _VEKVSVNK_ 0 0 0 REV__ENST00000547505.2_1_12:44054314-44054545:+|nuORF REV__ENST00000547505.2_1_12:44054314-44054545:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.77081298828125 2 451.768917 901.523281 2.8487 0.0012869 0.35942 0.00016238 3.2081 0.0014493 451.7689801907373 16.039 0.72918 16.039 15.677 16.406 0 113 88 2 0 0 0 0.67495 1 7101 7101 7.9102 0 1 68256 + 33855 17257 21457 21526 38120 38120 0.06858071414524147 VEKVSVNK 8 Unmodified _VEKVSVNK_ 0 0 0 REV__ENST00000547505.2_1_12:44054314-44054545:+|nuORF REV__ENST00000547505.2_1_12:44054314-44054545:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.7705078125 2 451.768917 901.523281 2.7661 0.0012496 0.14539 6.5682E-05 2.9115 0.0013153 451.7690097919147 14.85 0.24543 15.076 14.932 15.177 0.22622 28 18 2 0 0 0 0.57648 1 6557 6557 15.847 0 1 234440 + 33856 17257 21457 21526 38121 38121 0.06858071414524147 VELDMAEL 8 Unmodified _VELDMAEL_ 0 0 0 REV__nc|ENSG00000151948|Q96MS3-2|GLT1D1 REV__nc|ENSG00000151948|Q96MS3-2|GLT1D1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 307.15435791015625 3 307.152888 918.436834 NaN NaN NaN NaN NaN NaN NaN 74.091 1 74.35 73.85 74.85 0.25876 0 0 0 0.9851 1 34056 34056 6.7232 0 1 + 33857 12636 21458 21527 38122 38122 -0.02564676202348437 VELEKVVL 8 Unmodified _VELEKVVL_ 0 0 0 nc|ENSG00000103051|Q9H9E3-3|COG4;nc|ENSG00000103051|Q9H9E3|COG4;ENSG00000103051|ENST00000323786|COG4 nc|ENSG00000103051|Q9H9E3-3|COG4 nc|ENSG00000103051|Q9H9E3-3|COG4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.7895812988281 2 464.789318 927.564084 2.903 0.0013493 -1.3102 -0.00060898 1.5927 0.00074028 464.7893941138976 66.692 0.29944 66.942 66.785 67.084 0.25011 37 14 4 0 0 0 0.029216 1 30551 30551 78.728 0 1 1045600 33858 1371 21459 21528 38123 38123 0.09740412734140591 VELFHWLV 8 Unmodified _VELFHWLV_ 0 0 0 ENST00000448177.1_1_3:25832680-25833374:+|nuORF ENST00000448177.1_1_3:25832680-25833374:+|nuORF ENST00000448177.1_1_3:25832680-25833374:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1042.9140625 1 1042.57203 1041.56475 3.6368 0.0037916 -1.0117 -0.0010548 2.6251 0.0027368 1042.574978825348 28.603 0.060368 29.393 29.364 29.424 0.78921 7 5 2 0 0 0 0.14333 1 12882 12882 0.79363 0 1 305500 33859 7993 21460 21529 38124 38124 0.04563252173829824 VELFLRRLRLW 11 Unmodified _VELFLRRLRLW_ 0 0 0 nc|ENSG00000008710|P98161-2|PKD1;nc|ENSG00000008710|P98161-3|PKD1;ENSG00000008710|ENST00000262304|PKD1 nc|ENSG00000008710|P98161-2|PKD1 nc|ENSG00000008710|P98161-2|PKD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 750.9632568359375 2 750.96172 1499.90889 NaN NaN NaN NaN NaN NaN NaN 87.925 1 87.965 87.465 88.465 0.039955 0 0 0 1.008 1 44656 44656 0.35063 0 1 33860 382 21461 21530 38125 38125 0.17892948601593162 VELFRPAVL 9 Unmodified _VELFRPAVL_ 0 0 0 REV__ENST00000587992.1_1_19:10445574-10446063:-|nuORF REV__ENST00000587992.1_1_19:10445574-10446063:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.3159790039062 2 522.316035 1042.61752 NaN NaN NaN NaN NaN NaN NaN 32.529 1 32.529 32.029 33.029 0 0 0 0 0.65681 1 14731 14731 13.906 0 1 + 33861 10544 21462 21531 38126 38126 0.09791210236653569 VELIKVLREP 10 Unmodified _VELIKVLREP_ 0 0 0 REV__nc|ENSG00000186517|Q7Z6I6-4|ARHGAP30 REV__nc|ENSG00000186517|Q7Z6I6-4|ARHGAP30 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.7709045410156 3 399.251813 1194.73361 NaN NaN NaN NaN NaN NaN NaN 29.473 1 29.731 29.231 30.231 0.25804 0 0 0 1.0014 1 13412 13412 0.50596 0.10524 1 + 33862 9968 21463 21532 38127 38127 0.14403109016711824 VELILIQVFHL 11 Unmodified _VELILIQVFHL_ 0 0 0 REV__nc|ENSG00000274150|A8MWK0|FADS2B REV__nc|ENSG00000274150|A8MWK0|FADS2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.9418640136719 3 441.939346 1322.79621 2.9012 0.0012821 0.93781 0.00041445 3.839 0.0016966 441.93970859960757 53.573 0.79893 53.838 53.513 54.312 0.26462 67 37 2 0 0 0 0.89309 2 24451 24451;24509 2.4348 1.5704 1 1556200 + 33863 18158 21464 21533 38128;38129 38128 0.14772255084903918 VELILIQVFHL 11 Unmodified _VELILIQVFHL_ 0 0 0 REV__nc|ENSG00000274150|A8MWK0|FADS2B REV__nc|ENSG00000274150|A8MWK0|FADS2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.9578857421875 4 331.706329 1322.79621 2.3461 0.00077822 0.97322 0.00032282 3.3193 0.001101 331.7065772566095 56.411 0.30901 56.677 56.592 56.901 0.26543 59 21 3 0 0 0 0.91068 1 25822 25822 2.8433 1.5136 1 2220200 + 33864 18158 21464 21533 38130 38130 0.14772255084903918 VELIPIKG 8 Unmodified _VELIPIKG_ 0 0 0 REV__ENST00000514774.1_1_4:95225018-95255708:-|nuORF REV__ENST00000514774.1_1_4:95225018-95255708:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 868.5553588867188 1 868.550231 867.542954 4.1644 0.003617 2.6967 0.0023422 6.861 0.0059591 868.5520476663064 30.02 0.056234 30.279 30.229 30.285 0.25804 7 5 2 0 0 0 0.7471 1 13656 13656 0.79363 0 1 954620 + 33865 12977 21465 21534 38131 38131 0.10388447425293634 VELKAAVRP 9 Unmodified _VELKAAVRP_ 0 0 0 REV__ENST00000561092.1_1_15:76580145-76584849:-|nuORF REV__ENST00000561092.1_1_15:76580145-76584849:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.8076171875 2 491.805834 981.597115 3.208 0.0015777 0.58409 0.00028726 3.7921 0.001865 491.8061965146714 20.215 0.17101 20.215 20.142 20.313 0 20 15 2 0 0 0 0.64206 1 9042 9042 10.074 2.1638 1 141640 + 33866 12242 21466 21535 38132 38132 0.10558039576835654 VELKAAVRP 9 Unmodified _VELKAAVRP_ 0 0 0 REV__ENST00000561092.1_1_15:76580145-76584849:-|nuORF REV__ENST00000561092.1_1_15:76580145-76584849:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.8075256347656 2 491.805834 981.597115 3.009 0.0014798 0.80548 0.00039614 3.8144 0.001876 491.8061719654381 19.582 0.17342 19.875 19.771 19.944 0.29239 23 14 2 0 0 0 0.64206 1 8893 8893 10.074 1.4806 1 210970 + 33867 12242 21466 21535 38133 38133 0.10558039576835654 VELKKVFE 8 Unmodified _VELKKVFE_ 0 0 0 ENSG00000158417|ENST00000289371|EIF5B ENSG00000158417|ENST00000289371|EIF5B ENSG00000158417|ENST00000289371|EIF5B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.2961120605469 2 496.294768 990.574983 3.2992 0.0016374 -0.16369 -8.1236E-05 3.1356 0.0015562 496.2946974450346 48.047 0.3117 48.7 48.586 48.897 0.65356 17 10 2 0 0 0 0.45971 1 22002 22002 24.021 0 1 459160 33868 3986 21467 21536 38134 38134 0.07931815108429419 VELKTVRSN 9 Unmodified _VELKTVRSN_ 0 0 0 ENST00000434304.2_1_22:17154630-17158220:-|nuORF;nc|ENSG00000181626|A6NC57-2|ANKRD62;ENST00000418274.2_1_18:12102771-12127935:+|nuORF;ENSG00000181626|ENST00000587848|ANKRD62 ENST00000434304.2_1_22:17154630-17158220:-|nuORF ENST00000434304.2_1_22:17154630-17158220:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.306884765625 2 523.303655 1044.59276 3.2863 0.0017197 1.0581 0.00055373 4.3444 0.0022734 523.3041180473004 78.488 0.97118 79.15 78.761 79.732 0.66198 84 63 2 0 0 0 1.0041 1 36331 36331 3.9444 0 1 593950 33869 5293 21468 21537 38135 38135 0.07224530363305348 VELLEAIHAI 10 Unmodified _VELLEAIHAI_ 0 0 0 REV__ENSG00000008853|ENST00000251822|RHOBTB2 REV__ENSG00000008853|ENST00000251822|RHOBTB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.699462890625 2 554.324057 1106.63356 NaN NaN NaN NaN NaN NaN NaN 56.236 1 57.014 56.514 57.514 0.77786 0 0 0 0.99464 1 25703 25703 6.2058 0 1 + 33870 10212 21469 21538 38136 38136 0.08450871682885008 VELLRKEW 8 Unmodified _VELLRKEW_ 0 0 0 REV__ENST00000472063.5_1_3:197712648-197723234:+|nuORF REV__ENST00000472063.5_1_3:197712648-197723234:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 358.21026611328125 3 358.209836 1071.60768 2.3762 0.00085119 1.0376 0.00037167 3.4138 0.0012229 358.2100940873195 37.319 0.51443 38.115 37.904 38.419 0.79552 40 24 2 0 0 0 0.70799 1 16872 16872 3.5965 0.8613 1 461500 + 33871 16612 21470 21539 38137 38137 0.07474022231258459 VELLRKEW 8 Unmodified _VELLRKEW_ 0 0 0 REV__ENST00000472063.5_1_3:197712648-197723234:+|nuORF REV__ENST00000472063.5_1_3:197712648-197723234:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 358.209836 1071.60768 2.6575 0.00095195 1.3086 0.00046874 3.9661 0.0014207 358.2101231537356 37.891 0.40218 37.891 37.694 38.096 0 -0.1122 0.00020016 NaN 3.5965 26 15 2 NaN NaN NaN NaN 0 NaN NaN 0 382340 + 33872 16612 21470 21539 0.07474022231258459 VELLRSPVA 9 Unmodified _VELLRSPVA_ 0 0 0 nc|ENSG00000101353|Q9H579-2|MROH8;ENSG00000101353|ENST00000343811|MROH8 nc|ENSG00000101353|Q9H579-2|MROH8 nc|ENSG00000101353|Q9H579-2|MROH8 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.6985778808594 3 328.53432 982.581131 2.4091 0.00079148 0.44175 0.00014513 2.8509 0.00093661 328.534276796407 39.559 0.51999 40.196 39.887 40.407 0.63778 27 22 2 0 0 0 0.10355 1 18013 18013 3.8763 0.88109 1 624140 33873 1288 21471 21540 38138 38138 0.08914333339942004 VELPEIKR 8 Unmodified _VELPEIKR_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.29901123046875 2 492.297842 982.581131 3.1794 0.0015652 1.0731 0.0005283 4.2525 0.0020935 492.29825246956335 39.348 0.5266 40.145 39.86 40.387 0.79762 28 25 2 0 0 0 0.58952 1 17876 17876 14.838 0 1 165480 + 33874 12747 21472 21541 38139 38139 0.08914333339953373 VELPKKLL 8 Unmodified _VELPKKLL_ 0 0 0 REV__ENSG00000113248|ENST00000231173|PCDHB15 REV__ENSG00000113248|ENST00000231173|PCDHB15 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.0440979003906 2 470.315503 938.616454 2.9099 0.0013685 -0.071745 -3.3743E-05 2.8381 0.0013348 470.31551166257003 52.93 0.37588 52.93 52.722 53.097 0 38 21 2 0 0 0 0.12371 1 24279 24279 14.838 0 1 384670 + 33875 11292 21473 21542 38140 38140 0.14468995867753165 VELPKKLL 8 Unmodified _VELPKKLL_ 0 0 0 REV__ENSG00000113248|ENST00000231173|PCDHB15 REV__ENSG00000113248|ENST00000231173|PCDHB15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.3168640136719 2 470.315503 938.616454 NaN NaN NaN NaN NaN NaN NaN 51.967 1 52.778 52.278 53.278 0.81065 0 0 0 0.84594 1 23674 23674 15.847 0 1 + 33876 11292 21473 21542 38141 38141 0.14468995867753165 VELPKKLL 8 Unmodified _VELPKKLL_ 0 0 0 REV__ENSG00000113248|ENST00000231173|PCDHB15 REV__ENSG00000113248|ENST00000231173|PCDHB15 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.0444030761719 2 470.315503 938.616454 2.8787 0.0013539 -0.51748 -0.00024338 2.3612 0.0011105 470.3151294885632 52.482 0.30986 52.746 52.575 52.885 0.26345 22 12 2 0 0 0 0.095832 1 23968 23968 25.399 0 1 869930 + 33877 11292 21473 21542 38142 38142 0.14468995867753165 VELPKKLL 8 Unmodified _VELPKKLL_ 0 0 0 REV__ENSG00000113248|ENST00000231173|PCDHB15 REV__ENSG00000113248|ENST00000231173|PCDHB15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.3171081542969 2 470.315503 938.616454 2.7522 0.0012944 0.38827 0.00018261 3.1404 0.001477 470.315670833975 51.965 0.49167 52.627 52.334 52.826 0.66198 43 26 2 0 0 0 0.4188 1 23808 23808 26.884 0 1 623150 + 33878 11292 21473 21542 38143 38143 0.14468995867753165 VELPKKLL 8 Unmodified _VELPKKLL_ 0 0 0 REV__ENSG00000113248|ENST00000231173|PCDHB15 REV__ENSG00000113248|ENST00000231173|PCDHB15 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.04473876953125 2 470.315503 938.616454 2.7522 0.0012944 0.38827 0.00018261 3.1404 0.001477 470.315670833975 51.965 0.49167 52.627 52.334 52.826 0.66198 43 26 2 0 0 0 0.1128 1 23833 23833 19.257 0 1 623150 + 33879 11292 21473 21542 38144 38144 0.14468995867753165 VELPRIRPRGR 11 Unmodified _VELPRIRPRGR_ 0 0 0 REV__PRR12|p.N831Mfs*8|1|0.28|ENSG00000126464|chr19:49614937-49614937|A/-|frameshift_variant REV__PRR12|p.N831Mfs*8|1|0.28|ENSG00000126464|chr19:49614937-49614937|A/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 338.20391845703125 4 337.96256 1347.82114 2.2624 0.00076461 3.0835 0.0010421 5.3459 0.0018067 338.2145887894268 48.026 0.06588 48.026 47.978 48.044 0 5 3 2 0 0 0 0.13295 1 21972 21972 0.40827 0.31342 1 150260 + 33880 11711 21474 21543 38145 38145 0.16113747730810246 VELQQREL 8 Unmodified _VELQQREL_ 0 0 0 nc|ENSG00000002822|Q9Y6D9-3|MAD1L1;nc|ENSG00000002822|Q9Y6D9-4|MAD1L1;ENSG00000002822|ENST00000265854|MAD1L1;ENST00000459731.1_1_7:2188238-2252863:-|nuORF nc|ENSG00000002822|Q9Y6D9-3|MAD1L1 nc|ENSG00000002822|Q9Y6D9-3|MAD1L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.0745849609375 2 507.782556 1013.55056 3.2302 0.0016402 0.27712 0.00014071 3.5073 0.001781 507.78263849755075 30.556 0.27722 31.345 31.188 31.466 0.78921 36 21 2 0 0 0 0.67495 1 13728 13728 7.9102 0 1 319190 33881 305 21475 21544 38146 38146 0.04432554954905754 VELRVCHLLL 10 Unmodified _VELRVCHLLL_ 0 0 0 ENST00000524965.5_1_8:145540219-145541001:-|nuORF ENST00000524965.5_1_8:145540219-145541001:-|nuORF ENST00000524965.5_1_8:145540219-145541001:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.8583374023438 2 597.855001 1193.69545 NaN NaN NaN NaN NaN NaN NaN 84.425 1 84.672 84.172 85.172 0.24757 0 0 0 0.99687 1 38856 38856 4.3292 1.334 1 33882 8667 21476 21545 38147 38147 0.10634899830392897 VELSPGRR 8 Unmodified _VELSPGRR_ 0 0 0 nc|ENSG00000130396|P55196-6|AFDN;nc|ENSG00000130396|P55196|AFDN;ENSG00000130396|ENST00000683244|AFDN;nc|ENSG00000130396|P55196-5|AFDN nc|ENSG00000130396|P55196-6|AFDN nc|ENSG00000130396|P55196-6|AFDN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.26611328125 2 457.264333 912.514114 3.1348 0.0014335 0.37551 0.00017171 3.5103 0.0016052 457.26442028878307 89.833 0.37317 90.084 89.848 90.221 0.25137 40 16 3 0 0 0 0.74709 1 41369 41369 2.0598 0 1 2189600 33883 2593 21477 21546 38148 38148 0.05435722848858404 VELVRKDGQ 9 Unmodified _VELVRKDGQ_ 0 0 0 nc|ENSG00000132849|Q8NI35|PATJ;ENSG00000132849|ENST00000642238|PATJ;nc|ENSG00000132849|Q8NI35-4|PATJ;ENST00000459752.5_1_1:62228564-62579919:+|nuORF;nc|ENSG00000132849|Q8NI35-3|PATJ;ENST00000484562.5_1_1:62228564-62579919:+|nuORF;nc|ENSG00000132849|Q8NI35-2|PATJ nc|ENSG00000132849|Q8NI35|PATJ nc|ENSG00000132849|Q8NI35|PATJ MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.8777770996094 3 348.532979 1042.57711 2.2905 0.00079832 0.40632 0.00014162 2.6968 0.00093994 348.53325428604387 14.762 0.28053 15.069 14.965 15.246 0.3069 31 23 2 0 0 0 0.1077 1 6649 6649 7.609 4.0125 1 83495 33884 2731 21478 21547 38149 38149 0.057522438462456194 VELVRKDGQ 9 Unmodified _VELVRKDGQ_ 0 0 0 nc|ENSG00000132849|Q8NI35|PATJ;ENSG00000132849|ENST00000642238|PATJ;nc|ENSG00000132849|Q8NI35-4|PATJ;ENST00000459752.5_1_1:62228564-62579919:+|nuORF;nc|ENSG00000132849|Q8NI35-3|PATJ;ENST00000484562.5_1_1:62228564-62579919:+|nuORF;nc|ENSG00000132849|Q8NI35-2|PATJ nc|ENSG00000132849|Q8NI35|PATJ nc|ENSG00000132849|Q8NI35|PATJ MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 348.532979 1042.57711 2.4918 0.00086848 0.29045 0.00010123 2.7823 0.00096971 348.5330390561949 14.963 0.34488 14.963 14.835 15.18 0 0.029906 0.00025725 NaN 7.609 58 40 2 NaN NaN NaN NaN 0 NaN NaN 0 86263 33885 2731 21478 21547 0.057522438462456194 VELVRKDGQ 9 Unmodified _VELVRKDGQ_ 0 0 0 nc|ENSG00000132849|Q8NI35|PATJ;ENSG00000132849|ENST00000642238|PATJ;nc|ENSG00000132849|Q8NI35-4|PATJ;ENST00000459752.5_1_1:62228564-62579919:+|nuORF;nc|ENSG00000132849|Q8NI35-3|PATJ;ENST00000484562.5_1_1:62228564-62579919:+|nuORF;nc|ENSG00000132849|Q8NI35-2|PATJ nc|ENSG00000132849|Q8NI35|PATJ nc|ENSG00000132849|Q8NI35|PATJ MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 348.532979 1042.57711 2.3645 0.00082411 -0.34718 -0.000121 2.0173 0.00070311 348.5328326939849 14.541 0.18221 14.767 14.686 14.868 0.22622 -0.16564 -0.00040946 NaN 7.609 21 13 2 NaN NaN NaN NaN 0 NaN NaN 0 203200 33886 2731 21478 21547 0.057522438462456194 VELYLYPAP 9 Unmodified _VELYLYPAP_ 0 0 0 REV__ENSG00000179921|ENST00000519574|GPBAR1 REV__ENSG00000179921|ENST00000519574|GPBAR1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1064.7259521484375 1 1064.56627 1063.559 3.0419 0.0032383 2.0412 0.002173 5.0831 0.0054113 1065.5693751188053 44.276 0.066582 44.545 44.515 44.581 0.2694 5 3 2 0 0 0 0.10908 1 20232 20232 5.2307 0.47466 1 699910 + 33887 13813 21479 21548 38150 38150 0.02976108871530414 VELYLYPAP 9 Unmodified _VELYLYPAP_ 0 0 0 REV__ENSG00000179921|ENST00000519574|GPBAR1 REV__ENSG00000179921|ENST00000519574|GPBAR1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 1064.56627 1063.559 3.5985 0.0038309 -1.5603 -0.0016611 2.0382 0.0021698 1065.568190710284 43.888 0.088646 44.536 44.512 44.6 0.64872 -0.0044362 -0.0017304 NaN 5.2307 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 2299200 + 33888 13813 21479 21548 0.02976108871530414 VEMPDQPL 8 Unmodified _VEMPDQPL_ 0 0 0 ENST00000339094.5_1_15:85081807-85112930:-|nuORF ENST00000339094.5_1_15:85081807-85112930:-|nuORF ENST00000339094.5_1_15:85081807-85112930:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.7271423339844 2 464.725861 927.437169 2.4765 0.0011509 0.19357 8.9956E-05 2.6701 0.0012409 464.7258538594204 71.116 0.77367 71.374 70.979 71.753 0.25786 101 65 2 0 0 0 0.56084 1 32608 32608 16.942 0 1 1094500 33889 7054 21480 21549 38151 38151 -0.02945256482496461 VEMPDQPL 8 Unmodified _VEMPDQPL_ 0 0 0 ENST00000339094.5_1_15:85081807-85112930:-|nuORF ENST00000339094.5_1_15:85081807-85112930:-|nuORF ENST00000339094.5_1_15:85081807-85112930:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.72705078125 2 464.725861 927.437169 2.3288 0.0010822 0.5014 0.00023301 2.8302 0.0013153 464.7260296982611 70.601 0.92236 71.263 70.853 71.775 0.66209 123 55 3 0 0 0 0.47217 2 32276 32276;32364 23.148 0 1 1194200 33890 7054 21480 21549 38152;38153 38152 -0.02945256482496461 VEMPDQPL 8 Unmodified _VEMPDQPL_ 0 0 0 ENST00000339094.5_1_15:85081807-85112930:-|nuORF ENST00000339094.5_1_15:85081807-85112930:-|nuORF ENST00000339094.5_1_15:85081807-85112930:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.72711181640625 2 464.725861 927.437169 2.1487 0.00099855 0.22659 0.0001053 2.3753 0.0011038 464.72602078051756 71.799 0.51749 72.462 72.217 72.734 0.66324 75 35 3 0 0 0 0.37185 1 32895 32895 30.225 0 1 1853600 33891 7054 21480 21549 38154 38154 -0.02945256482496461 VEMPDQPL 8 Unmodified _VEMPDQPL_ 0 0 0 ENST00000339094.5_1_15:85081807-85112930:-|nuORF ENST00000339094.5_1_15:85081807-85112930:-|nuORF ENST00000339094.5_1_15:85081807-85112930:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 464.725861 927.437169 2.2404 0.0010412 0.16774 7.7951E-05 2.4081 0.0011191 464.725845968959 71.818 0.3035 72.522 72.445 72.749 0.70386 -0.0075878 -2.6475E-05 NaN 30.225 59 31 2 NaN NaN NaN NaN 0 NaN NaN 0 2093100 33892 7054 21480 21549 -0.02945256482496461 VEPFVLRVP 9 Unmodified _VEPFVLRVP_ 0 0 0 REV__ENST00000476701.5_1_7:4169443-4308379:+|nuORF REV__ENST00000476701.5_1_7:4169443-4308379:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.54742431640625 3 352.546449 1054.61752 2.5491 0.00089866 -0.71184 -0.00025096 1.8372 0.0006477 352.5461544135041 34.261 0.45156 34.515 34.34 34.791 0.25389 63 19 4 0 0 0 1.0755 1 15715 15715 2.7352 0.45242 1 23584000 + 33893 12477 21481 21550 38155 38155 0.09239210236660256 VEPLFIPI 8 Unmodified _VEPLFIPI_ 0 0 0 REV__ENSG00000130414|ENST00000252711|NDUFA10 REV__ENSG00000130414|ENST00000252711|NDUFA10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 309.8567810058594 3 309.856512 926.547705 1.9994 0.00061953 -0.51192 -0.00015862 1.4875 0.00046091 309.8562661268755 55.286 0.33525 55.551 55.401 55.736 0.26543 69 20 5 0 0 0 0.7471 1 25266 25266 1.6526 0 1 15581000 + 33894 11816 21482 21551 38156 38156 0.08149331568040452 VEPLFIPI 8 Unmodified _VEPLFIPI_ 0 0 0 REV__ENSG00000130414|ENST00000252711|NDUFA10 REV__ENSG00000130414|ENST00000252711|NDUFA10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.28228759765625 2 464.281129 926.547705 2.8842 0.0013391 -0.90514 -0.00042024 1.979 0.00091883 464.2804881922898 57.127 0.42708 57.795 57.491 57.918 0.66829 51 21 3 0 0 0 0.7471 1 26038 26038 0.69038 0 1 1593900 + 33895 11816 21482 21551 38157 38157 0.08149331568040452 VEPLFIPI 8 Unmodified _VEPLFIPI_ 0 0 0 REV__ENSG00000130414|ENST00000252711|NDUFA10 REV__ENSG00000130414|ENST00000252711|NDUFA10 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 309.856512 926.547705 1.8421 0.00057078 -0.90148 -0.00027933 0.94061 0.00029145 309.85618326753547 55.694 0.30737 55.694 55.525 55.833 0 0.11528 -7.8278E-05 NaN 1.6526 66 23 4 NaN NaN NaN NaN 0 NaN NaN 0 11643000 + 33896 11816 21482 21551 0.08149331568040452 VEPLFIPI 8 Unmodified _VEPLFIPI_ 0 0 0 REV__ENSG00000130414|ENST00000252711|NDUFA10 REV__ENSG00000130414|ENST00000252711|NDUFA10 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 309.856512 926.547705 1.8716 0.00057994 -0.94946 -0.0002942 0.92217 0.00028574 309.8561516776424 54.822 0.45749 55.617 55.372 55.83 0.79552 0.038356 -0.00012288 NaN 1.6526 72 28 3 NaN NaN NaN NaN 0 NaN NaN 0 10166000 + 33897 11816 21482 21551 0.08149331568040452 VEPLFIPI 8 Unmodified _VEPLFIPI_ 0 0 0 REV__ENSG00000130414|ENST00000252711|NDUFA10 REV__ENSG00000130414|ENST00000252711|NDUFA10 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 309.856512 926.547705 2.0652 0.0006399 -0.90436 -0.00028022 1.1608 0.00035968 309.8561888907336 54.786 0.27664 55.453 55.331 55.607 0.6665 -0.12623 -8.0953E-05 NaN 1.6526 48 17 4 NaN NaN NaN NaN 0 NaN NaN 0 4666700 + 33898 11816 21482 21551 0.08149331568040452 VEPSWLAL 8 Unmodified _VEPSWLAL_ 0 0 0 REV__nc|ENSG00000132849|Q8NI35-5|PATJ REV__nc|ENSG00000132849|Q8NI35-5|PATJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 457.7535705566406 2 457.752736 913.490919 2.0931 0.00095812 0.76606 0.00035067 2.8592 0.0013088 457.75301875654486 80.404 0.21988 80.573 80.531 80.751 0.16862 27 17 2 0 0 0 0.47217 1 39474 39474 23.148 0 1 2390300 + 33899 11914 21483 21552 38158 38158 0.030712840115029394 VEPSWLAL 8 Unmodified _VEPSWLAL_ 0 0 0 REV__nc|ENSG00000132849|Q8NI35-5|PATJ REV__nc|ENSG00000132849|Q8NI35-5|PATJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.75390625 2 457.752736 913.490919 2.5596 0.0011717 0.089401 4.0923E-05 2.649 0.0012126 457.7525894188697 81.022 0.42476 81.27 81.027 81.452 0.24803 53 25 3 0 0 0 0.47217 1 37259 37259 23.148 0.41214 1 1497900 + 33900 11914 21483 21552 38159 38159 0.030712840115029394 VEPSWLAL 8 Unmodified _VEPSWLAL_ 0 0 0 REV__nc|ENSG00000132849|Q8NI35-5|PATJ REV__nc|ENSG00000132849|Q8NI35-5|PATJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.7541198730469 2 457.752736 913.490919 3.004 0.0013751 -0.20468 -9.3695E-05 2.7993 0.0012814 457.75252690152274 80.41 0.39323 81.07 80.884 81.277 0.65998 54 24 3 0 0 0 0.37185 1 37018 37018 30.225 7.4885 1 1583000 + 33901 11914 21483 21552 38160 38160 0.030712840115029394 VEPTVPVL 8 Unmodified _VEPTVPVL_ 0 0 0 REV__ENSG00000198157|ENST00000358130|HMGN5 REV__ENSG00000198157|ENST00000358130|HMGN5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 427.2564697265625 2 427.255111 852.49567 NaN NaN NaN NaN NaN NaN NaN 82.425 1 83.085 82.585 83.585 0.66019 0 0 0 0.99035 1 37977 37977 2.5775 0 1 + 33902 14322 21484 21553 38161 38161 0.0635216815427384 VEPVVVRRKW 10 Unmodified _VEPVVVRRKW_ 0 0 0 REV__nc|ENSG00000185658|Q9NSI6-3|BRWD1 REV__nc|ENSG00000185658|Q9NSI6-3|BRWD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 634.3515625 2 634.385314 1266.75608 NaN NaN NaN NaN NaN NaN NaN 78.585 1 79.049 78.549 79.549 0.4642 0 0 0 0.99225 1 38222 38222 6.7232 3.1267 1 + 33903 14027 21485 21554 38162 38162 0.13336753204976048 VEQKKQTLQVF 11 Unmodified _VEQKKQTLQVF_ 0 0 0 REV__nc|ENSG00000138311|Q70YC5-2|ZNF365 REV__nc|ENSG00000138311|Q70YC5-2|ZNF365 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 674.4767456054688 2 674.385177 1346.7558 NaN NaN NaN NaN NaN NaN NaN 80.446 1 80.446 79.946 80.946 0 0 0 0 0.99038 1 39942 39942 7.609 0.50723 1 + 33904 12155 21486 21555 38163 38163 0.09629288694463867 VEQRTGPTRRS 11 Unmodified _VEQRTGPTRRS_ 0 0 0 REV__ENST00000494911.5_1_11:32459438-32459636:+|nuORF REV__ENST00000494911.5_1_11:32459438-32459636:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 644.0234985351562 2 643.849824 1285.6851 NaN NaN NaN NaN NaN NaN NaN 80.661 1 80.661 80.161 81.161 0 0 0 0 0.96369 1 40097 40097 10.151 0 1 + 33905 16832 21487 21556 38164 38164 0.05368008429513793 VERCDLPEM 9 Unmodified _VERCDLPEM_ 0 0 0 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 ENSG00000115758|ENST00000234111|ODC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.2486572265625 2 546.246634 1090.47872 3.7777 0.0020635 -1.259 -0.00068775 2.5186 0.0013758 546.2459232321377 67.213 0.90144 67.463 67.224 68.125 0.2501 91 54 2 0 0 0 0.11458 6 30805 30704;30752;30805;30859;30924;31013 29.082 11.969 1 655700 33906 1989 21488 21557 38165;38166;38167;38168;38169;38170 38167 -0.06290443785496791 VERGGCCI 8 Unmodified _VERGGCCI_ 0 0 0 REV__DNMT3A|p.E616Dfs*35|1|0.15|ENSG00000119772|chr2:25244158-25244158|T/-|frameshift_variant REV__DNMT3A|p.E616Dfs*35|1|0.15|ENSG00000119772|chr2:25244158-25244158|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 836.4989624023438 1 836.37532 835.368043 2.3557 0.0019702 -2.7635 -0.0023113 -0.40777 -0.00034105 836.3754760368344 109.93 0.095825 109.97 109.91 110.01 0.041016 5 3 2 0 0 0 0.70146 1 59247 59247 5.7604 0 1 491000 + 33907 10134 21489 21558 38171 38171 -0.056226189830681506 VERHVKRRRLL 11 Unmodified _VERHVKRRRLL_ 0 0 0 REV__nc|nan|Q5JPI3-2|C3orf38 REV__nc|nan|Q5JPI3-2|C3orf38 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.2390441894531 4 366.236385 1460.91643 2.7417 0.0010041 0.43543 0.00015947 3.1772 0.0011636 366.23737929138093 44.207 1.0954 44.857 44.525 45.62 0.64998 84 46 3 0 0 0 0.91489 2 20167 20167;20394 0 0 1 2022600 + 33908 13779 21490 21559 38172;38173 38172 0.20441100921880206 VERKKQEK 8 Unmodified _VERKKQEK_ 0 0 0 ENSG00000128408|ENST00000614167|RIBC2 ENSG00000128408|ENST00000614167|RIBC2 ENSG00000128408|ENST00000614167|RIBC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.8147583007812 2 522.811648 1043.60874 3.1387 0.001641 0.63719 0.00033313 3.7759 0.0019741 522.8120311645323 14.632 0.23981 14.939 14.833 15.072 0.3069 42 19 3 0 0 0 0.7441 1 6651 6651 2.3027 0 1 355050 33909 2511 21491 21560 38174 38174 0.08868236600187629 VERKNMGP 8 Unmodified _VERKNMGP_ 0 0 0 REV__ENSG00000000938|ENST00000374005|FGR REV__ENSG00000000938|ENST00000374005|FGR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 930.4854736328125 1 930.482562 929.475285 4.6336 0.0043114 0.85473 0.00079531 5.4883 0.0051068 930.4839762196643 100.58 0.1489 100.9 100.85 101 0.31412 6 4 2 0 0 0 0.73686 1 46552 46552 2.8892 0 1 1101400 + 33910 10150 21492 21561 38175 38175 0.007726742228328476 VERKSQRRKKK 11 Unmodified _VERKSQRRKKK_ 0 0 0 REV__ENST00000422574.1_1_20:16839027-16839995:-|nuORF REV__ENST00000422574.1_1_20:16839027-16839995:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 721.9531860351562 2 721.954958 1441.89536 NaN NaN NaN NaN NaN NaN NaN 97.413 1 97.703 97.203 98.203 0.28923 0 0 0 1.0079 1 44746 44746 0.35063 0 1 + 33911 16183 21493 21562 38176 38176 0.1920909082232356 VERLIRML 8 Unmodified _VERLIRML_ 0 0 0 REV__ENSG00000279804|ENST00000624297|PRAMEF18 REV__ENSG00000279804|ENST00000624297|PRAMEF18 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.318603515625 2 515.315512 1028.61647 NaN NaN NaN NaN NaN NaN NaN 38.889 1 39.153 38.653 39.653 0.26408 0 0 0 0.99035 1 17698 17698 2.8892 0 1 + 33912 14420 21494 21563 38177 38177 0.1033067259611471 VERLKLKLK 9 Unmodified _VERLKLKLK_ 0 0 0 nc|ENSG00000168386|Q4L180-6|FILIP1L;nc|ENSG00000168386|Q4L180-5|FILIP1L;nc|ENSG00000168386|Q4L180-3|FILIP1L;nc|ENSG00000168386|Q4L180-7|FILIP1L;nc|ENSG00000168386|Q4L180-2|FILIP1L;nc|ENSG00000168386|Q4L180|FILIP1L;ENSG00000168386|ENST00000477258|FILIP1L nc|ENSG00000168386|Q4L180-6|FILIP1L nc|ENSG00000168386|Q4L180-6|FILIP1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.940185546875 2 563.887158 1125.75976 NaN NaN NaN NaN NaN NaN NaN 54.756 1 54.756 54.256 55.256 0 0 0 0 0.91206 1 25135 25135 0.6015 0 1 33913 4622 21495 21564 38178 38178 0.20191422978814444 VERRAQQLLRR 11 Unmodified _VERRAQQLLRR_ 0 0 0 REV__ENST00000605744.1_1_11:76922372-76925738:+|nuORF REV__ENST00000605744.1_1_11:76922372-76925738:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 712.9320068359375 2 712.931483 1423.84841 NaN NaN NaN NaN NaN NaN NaN 87.615 1 87.655 87.155 88.155 0.039955 0 0 0 1.008 1 44406 44406 0.35063 0 1 + 33914 17660 21496 21565 38179 38179 0.153442312712059 VERRRHRRRRR 11 Unmodified _VERRRHRRRRR_ 0 0 0 ENST00000419807.5_3_2:44395715-44396385:+|nuORF ENST00000419807.5_3_2:44395715-44396385:+|nuORF ENST00000419807.5_3_2:44395715-44396385:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 817.0023193359375 2 817.001962 1631.98937 NaN NaN NaN NaN NaN NaN NaN 106.34 1 106.66 106.16 107.16 0.31628 0 0 0 1.0082 1 49075 49075 0 0 1 33915 7747 21497 21566 38180 38180 0.1986566748785208 VERRWWRRRLW 11 Unmodified _VERRWWRRRLW_ 0 0 0 ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 849.9850463867188 2 849.981841 1697.94913 NaN NaN NaN NaN NaN NaN NaN 89.763 1 89.827 89.327 90.327 0.064346 0 0 0 1.0082 1 46072 46072 0 0 1 33916 6713 21498 21567 38181 38181 0.12807308044716592 VERRWWRRRLW 11 Unmodified _VERRWWRRRLW_ 0 0 0 ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF ENST00000284971.7_1_21:27102007-27107256:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 849.9814453125 2 849.981841 1697.94913 NaN NaN NaN NaN NaN NaN NaN 100.48 1 100.8 100.3 101.3 0.31412 0 0 0 1.0082 1 46485 46485 0.30703 0.30703 1 33917 6713 21498 21567 38182 38182 0.12807308044716592 VERVKPRIKKK 11 Unmodified _VERVKPRIKKK_ 0 0 0 nc|ENSG00000124214|O95793-2|STAU1;nc|ENSG00000124214|O95793-3|STAU1;ENSG00000124214|ENST00000371856|STAU1 nc|ENSG00000124214|O95793-2|STAU1 nc|ENSG00000124214|O95793-2|STAU1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1381.3262939453125 1 1380.91616 1379.90889 3.5974 0.0049677 -0.58124 -0.00080264 3.0161 0.004165 1380.9171691052677 28.752 0.079544 29.541 29.513 29.593 0.78921 6 5 2 0 0 0 0.91489 1 12944 12944 0 0 1 213310 33918 2351 21499 21568 38183 38183 0.2341294860157177 VERWYRHQWRR 11 Unmodified _VERWYRHQWRR_ 0 0 0 REV__ENST00000570069.5_1_16:1826945-1827407:+|nuORF REV__ENST00000570069.5_1_16:1826945-1827407:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 836.471435546875 2 836.440006 1670.86546 NaN NaN NaN NaN NaN NaN NaN 100.75 1 100.75 100.25 101.25 0 0 0 0 1.0072 1 55655 55655 1.3295 1.3295 1 + 33919 17377 21500 21569 38184 38184 0.0568615187701198 VERYKLLRRL 10 Unmodified _VERYKLLRRL_ 0 0 0 MYO19|p.S685Kfs*29|1|0.18|ENSG00000278259|chr17:36503108-36503123|TTGGCAGGATATGGGC/-|frameshift_variant;nc|ENSG00000278259|Q96H55-4|MYO19;ENSG00000278259|ENST00000614623|MYO19 MYO19|p.S685Kfs*29|1|0.18|ENSG00000278259|chr17:36503108-36503123|TTGGCAGGATATGGGC/-|frameshift_variant MYO19|p.S685Kfs*29|1|0.18|ENSG00000278259|chr17:36503108-36503123|TTGGCAGGATATGGGC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 673.2529907226562 2 673.424971 1344.83539 NaN NaN NaN NaN NaN NaN NaN 99.784 1 99.846 99.346 100.35 0.062241 0 0 0 1.0001 1 54011 54011 1.6526 0 1 33920 6358 21501 21570 38185 38185 0.1767640015912093 VESMESSF 8 Unmodified _VESMESSF_ 0 0 0 REV__ENST00000504009.1_1_4:113446427-113467942:+|nuORF REV__ENST00000504009.1_1_4:113446427-113467942:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 915.3794555664062 1 915.376425 914.369149 2.3251 0.0021283 1.371 0.0012549 3.696 0.0033833 915.3780630378901 103.37 0.050583 103.43 103.41 103.46 0.055092 6 5 2 0 0 0 0.74071 1 56056 56056 2.5775 0 1 2040600 + 33921 16909 21502 21571 38186 38186 -0.09146126133146026 VESMESSF 8 Unmodified _VESMESSF_ 0 0 0 REV__ENST00000504009.1_1_4:113446427-113467942:+|nuORF REV__ENST00000504009.1_1_4:113446427-113467942:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 915.376425 914.369149 2.3251 0.0021283 1.371 0.0012549 3.696 0.0033833 915.3780630378901 103.37 0.050583 103.43 103.41 103.46 0.055092 0.0042169 -0.00022583 NaN 2.5775 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 2040600 + 33922 16909 21502 21571 -0.09146126133146026 VESRPLLLLE 10 Unmodified _VESRPLLLLE_ 0 0 0 ENST00000483330.1_1_7:43908587-43908701:-|nuORF ENST00000483330.1_1_7:43908587-43908701:-|nuORF ENST00000483330.1_1_7:43908587-43908701:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.8502807617188 2 584.850438 1167.68632 NaN NaN NaN NaN NaN NaN NaN 1.4256 1 1.8192 1.3192 2.3192 0.39356 0 0 0 1.002 1 649 649 0 0 1 33923 8309 21503 21572 38187 38187 0.10918829745742187 VETGDVYYVD 10 Unmodified _VETGDVYYVD_ 0 0 0 REV__ENST00000411772.5_2_15:43699583-43738985:-|nuORF REV__ENST00000411772.5_2_15:43699583-43738985:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.1787414550781 3 387.176638 1158.50808 NaN NaN NaN NaN NaN NaN NaN 82.419 1 82.667 82.167 83.167 0.24722 0 0 0 0.99774 1 37939 37939 1.7423 0.52744 1 + 33924 10453 21504 21573 38188 38188 -0.06482884963998004 VETKILPL 8 Unmodified _VETKILPL_ 0 0 0 ENST00000594099.5_2_19:14638565-14640206:-|nuORF ENST00000594099.5_2_19:14638565-14640206:-|nuORF ENST00000594099.5_2_19:14638565-14640206:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.7930908203125 2 456.791861 911.569169 3.0633 0.0013993 1.492 0.00068152 4.5552 0.0020808 456.7924202706283 32.329 0.23357 32.584 32.511 32.744 0.25452 26 15 2 0 0 0 0.7441 1 14704 14704 2.3027 0 1 1031400 33925 9261 21505 21574 38189 38189 0.10984716596760791 VETKILPL 8 Unmodified _VETKILPL_ 0 0 0 ENST00000594099.5_2_19:14638565-14640206:-|nuORF ENST00000594099.5_2_19:14638565-14640206:-|nuORF ENST00000594099.5_2_19:14638565-14640206:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 456.791861 911.569169 2.7983 0.0012783 2.6402 0.001206 5.4385 0.0024843 456.792997913374 32.628 0.2464 32.628 32.455 32.701 0 0.021887 0.00038283 NaN 2.3027 27 16 2 NaN NaN NaN NaN 0 NaN NaN 0 232160 33926 9261 21505 21574 0.10984716596760791 VETLRRFRG 9 Unmodified _VETLRRFRG_ 0 0 0 ENST00000602308.1_1_1:228584351-228584825:-|nuORF;nc|ENSG00000154370|Q96F44-2|TRIM11;nc|ENSG00000154370|Q96F44-3|TRIM11;ENSG00000154370|ENST00000284551|TRIM11 ENST00000602308.1_1_1:228584351-228584825:-|nuORF ENST00000602308.1_1_1:228584351-228584825:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 378.5566711425781 3 378.556118 1132.64652 3.6185 0.0013698 -0.98975 -0.00037468 2.6288 0.00099514 378.5555691758977 103.05 0.16711 103.37 103.26 103.42 0.31863 12 5 3 0 0 0 1.129 1 47674 47674 2.4985 1.6341 1 769540 33927 3822 21506 21575 38190 38190 0.08550747585650242 VETLVKKKI 9 Unmodified _VETLVKKKI_ 0 0 0 nc|ENSG00000130377|Q5FVE4-2|ACSBG2;ENSG00000130377|ENST00000588485|ACSBG2;nc|ENSG00000130377|Q5FVE4-4|ACSBG2;nc|ENSG00000130377|Q5FVE4-3|ACSBG2;ENST00000591741.5_1_19:6161567-6190665:+|nuORF nc|ENSG00000130377|Q5FVE4-2|ACSBG2 nc|ENSG00000130377|Q5FVE4-2|ACSBG2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.354248046875 2 529.352617 1056.69068 3.3308 0.0017632 0.73736 0.00039032 4.0682 0.0021535 529.3529342310335 15.367 0.71823 16.021 15.785 16.503 0.65356 145 94 2 0 0 0 0.95612 1 6843 6843 4.756 0 1 94181 33928 2591 21507 21576 38191 38191 0.16460338959268483 VEVKAKKL 8 Unmodified _VEVKAKKL_ 0 0 0 REV__ENSG00000086967|ENST00000357701|MYBPC2 REV__ENSG00000086967|ENST00000357701|MYBPC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.5399169921875 3 305.539294 913.596052 2.0077 0.00061343 0.88786 0.00027128 2.8956 0.00088471 305.53953190351996 17.17 0.64401 17.474 17.114 17.758 0.30438 133 51 3 0 0 0 0.73686 1 7631 7631 1.8442 0 1 900110 + 33929 10658 21508 21577 38192 38192 0.1357982520794394 VEVKKRRHRLK 11 Unmodified _VEVKKRRHRLK_ 0 0 0 ENST00000427755.2_1_11:33037501-33047701:+|nuORF;ENST00000532078.1_1_11:33037501-33049388:+|nuORF;nc|ENSG00000121690|Q96QD5-2|DEPDC7;ENSG00000121690|ENST00000241051|DEPDC7 ENST00000427755.2_1_11:33037501-33047701:+|nuORF ENST00000427755.2_1_11:33037501-33047701:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.9878845214844 4 362.987572 1447.92118 2.7312 0.00099139 -1.2822 -0.00046542 1.449 0.00052597 362.98673959124164 49.013 0.38132 49.275 49.088 49.469 0.26209 36 14 3 0 0 0 0.91359 1 22414 22414 0.40827 0.31342 1 1241400 33930 2237 21509 21578 38193 38193 0.2151398506462101 VEVLKQLL 8 Unmodified _VEVLKQLL_ 0 0 0 ENSG00000203485|ENST00000392634|INF2;nc|ENSG00000203485|Q27J81-2|INF2 ENSG00000203485|ENST00000392634|INF2 ENSG00000203485|ENST00000392634|INF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.4474182128906 2 471.305136 940.595718 NaN NaN NaN NaN NaN NaN NaN 80.631 1 81.291 80.791 81.791 0.65998 0 0 0 0.99035 1 37154 37154 2.5775 0 1 33931 5972 21510 21579 38194 38194 0.12304405488100656 VEVVLLLQ 8 Unmodified _VEVVLLLQ_ 0 0 0 REV__ENST00000507310.1_2_5:102482311-102483895:+|nuORF REV__ENST00000507310.1_2_5:102482311-102483895:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.7941589355469 2 456.791861 911.569169 NaN NaN NaN NaN NaN NaN NaN 31.579 1 32.368 31.868 32.868 0.78879 0 0 0 0.99035 1 14264 14264 0.79363 0 1 + 33932 16938 21511 21580 38195 38195 0.10984716596760791 VEWIPKYAGVS 11 Unmodified _VEWIPKYAGVS_ 0 0 0 ENSG00000154734|ENST00000284984|ADAMTS1;ENST00000464589.1_1_21:28211878-28212356:-|nuORF ENSG00000154734|ENST00000284984|ADAMTS1 ENSG00000154734|ENST00000284984|ADAMTS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 624.99853515625 2 624.834788 1247.65502 NaN NaN NaN NaN NaN NaN NaN 67.569 1 68.227 67.727 68.727 0.65777 0 0 0 1.0074 1 30973 30973 1.0715 0.10919 1 33933 3837 21512 21581 38196 38196 0.04110256711601323 VEWLLRQV 8 Unmodified _VEWLLRQV_ 0 0 0 REV__ENST00000514829.5_1_4:187065816-187079198:+|nuORF REV__ENST00000514829.5_1_4:187065816-187079198:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.8051147460938 2 521.805834 1041.59712 NaN NaN NaN NaN NaN NaN NaN 30.306 1 30.564 30.064 31.064 0.25804 0 0 0 0.9101 1 13793 13793 11.64 0.81637 1 + 33934 11180 21513 21582 38197 38197 0.0779803957684635 VEWRDQFKVFE 11 Unmodified _VEWRDQFKVFE_ 0 0 0 REV__nc|ENSG00000180113|O60522-2|TDRD6 REV__nc|ENSG00000180113|O60522-2|TDRD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 741.8709106445312 2 741.872434 1481.73031 NaN NaN NaN NaN NaN NaN NaN 55.168 1 55.168 54.668 55.668 0 0 0 0 1.0073 1 25334 25334 1.1933 0.12188 1 + 33935 13818 21514 21583 38198 38198 0.0087181417204647 VEWRLFSLR 9 Unmodified _VEWRLFSLR_ 0 0 0 ENSG00000168038|ENST00000301831|ULK4 ENSG00000168038|ENST00000301831|ULK4 ENSG00000168038|ENST00000301831|ULK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1206.2918701171875 1 1205.67895 1204.67168 3.2304 0.0038948 -0.09165 -0.0001105 3.1388 0.0037843 1207.685364339141 26.674 0.063047 27.296 27.251 27.314 0.62179 8 5 3 0 0 0 1.2078 1 12224 12224 0.6015 0 1 1202100 33936 4598 21515 21584 38199 38199 0.07752802388222335 VEYHEYED 8 Unmodified _VEYHEYED_ 0 0 0 REV__ENST00000469387.1_1_1:100889822-100908582:+|nuORF REV__ENST00000469387.1_1_1:100889822-100908582:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1082.93310546875 1 1083.42655 1082.41927 3.1631 0.003427 -0.86519 -0.00093737 2.2979 0.0024896 1083.4276844022033 26.842 0.11091 27.107 27.008 27.119 0.26489 6 5 2 0 0 0 0.14333 1 12156 12156 0.79363 0 1 172970 + 33937 16577 21516 21585 38200 38200 -0.11864300203660605 VEYRKQLKLLL 11 Unmodified _VEYRKQLKLLL_ 0 0 0 ENSG00000184575|ENST00000332707|XPOT;ENST00000542958.5_1_12:64816967-64819028:+|nuORF;ENST00000449426.1_1_7:56356827-56358135:+|nuORF ENSG00000184575|ENST00000332707|XPOT ENSG00000184575|ENST00000332707|XPOT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 701.944091796875 2 701.942662 1401.87077 NaN NaN NaN NaN NaN NaN NaN 78.622 1 79.087 78.587 79.587 0.4642 0 0 0 1.008 1 38252 38252 0.35063 0 1 33938 5451 21517 21586 38201 38201 0.18591017896278572 VFAFKIIIKR 10 Unmodified _VFAFKIIIKR_ 0 0 0 ENST00000467530.5_1_1:85959978-85960173:-|nuORF ENST00000467530.5_1_1:85959978-85960173:-|nuORF ENST00000467530.5_1_1:85959978-85960173:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 309.5370178222656 4 309.456314 1233.79615 2.2576 0.00069863 2.1248 0.00065752 4.3824 0.0013561 309.4561879569823 37.378 0.23965 38.173 38.101 38.341 0.79552 17 10 3 0 0 0 0.12676 1 16949 16949 0.15932 0 1 213140 33939 8146 21518 21587 38202 38202 0.18860299875541386 VFCLILWKWKK 11 Unmodified _VFCLILWKWKK_ 0 0 0 nc|ENSG00000114013|P42081-2|CD86;nc|ENSG00000114013|P42081-5|CD86;nc|ENSG00000114013|P42081-6|CD86;nc|ENSG00000114013|P42081-3|CD86;ENSG00000114013|ENST00000330540|CD86 nc|ENSG00000114013|P42081-2|CD86 nc|ENSG00000114013|P42081-2|CD86 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 732.9124145507812 2 732.433418 1462.85228 NaN NaN NaN NaN NaN NaN NaN 49.63 1 49.891 49.391 50.391 0.26146 0 0 0 1.0082 1 22684 22684 0 0 1 33940 1885 21519 21588 38203 38203 0.13937184720680307 VFCVQRPDR 9 Unmodified _VFCVQRPDR_ 0 0 0 ENST00000494720.5_1_2:219129258-219130297:-|nuORF;ENST00000475678.5_1_2:219129258-219130549:-|nuORF;ENSG00000127837|ENST00000248450|AAMP ENST00000494720.5_1_2:219129258-219130297:-|nuORF ENST00000494720.5_1_2:219129258-219130297:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 373.528564453125 3 373.862442 1118.5655 2.935 0.0010973 -1.5128 -0.00056559 1.4222 0.00053171 373.86190323137424 12.817 0.14646 12.817 12.77 12.917 0 7 5 2 0 0 0 0.091317 1 5604 5604 18.373 2.6345 1 509000 33941 2490 21520 21589 38204 38204 0.010957235512478292 VFCWDVSI 8 Carbamidomethyl (C) _VFC(Carbamidomethyl (C))WDVSI_ VFC(1)WDVSI VFC(78)WDVSI 0 1 0 REV__nc|ENSG00000265241|Q9Y5S9-2|RBM8A REV__nc|ENSG00000265241|Q9Y5S9-2|RBM8A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.2401733398438 2 513.241678 1024.4688 NaN NaN NaN NaN NaN NaN NaN 58.587 1 58.849 58.349 59.349 0.26227 0 0 0 0.22246 1 26830 26830 78.445 28.776 1 + 33942 14704 21521 21590 38205 38205 112 -0.04245263728569171 VFDAYVLPK 9 Unmodified _VFDAYVLPK_ 0 0 0 ENSG00000197728|ENST00000646449|RPS26;ENST00000444468.1_1_X:128542382-128542532:+|nuORF;ENST00000447425.1_1_7:22813267-22813561:-|nuORF;nc|ENSG00000196933|Q5JNZ5|RPS26P11 ENSG00000197728|ENST00000646449|RPS26 ENSG00000197728|ENST00000646449|RPS26 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.0452270507812 2 526.294768 1050.57498 NaN NaN NaN NaN NaN NaN NaN 31.814 1 32.069 31.569 32.569 0.25452 0 0 0 0.8984 1 14487 14487 3.9444 0 1 33943 5838 21522 21591 38206 38206 0.05171815108406008 VFDEAIRAV 9 Unmodified _VFDEAIRAV_ 0 0 0 ENST00000488373.5_1_7:6415539-6442074:+|nuORF;ENSG00000169750|ENST00000306897|RAC3;ENSG00000136238|ENST00000348035|RAC1;nc|ENSG00000136238|P63000-2|RAC1;ENST00000419413.1_1_X:136523419-136523611:-|nuORF;ENSG00000128340|ENST00000249071|RAC2 ENST00000488373.5_1_7:6415539-6442074:+|nuORF ENST00000488373.5_1_7:6415539-6442074:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.28143310546875 2 510.279649 1018.54475 3.4134 0.0017418 -0.24027 -0.00012261 3.1731 0.0016192 510.279557957366 51.014 0.30193 51.014 50.829 51.131 0 26 14 3 0 0 0 0.057945 1 23358 23358 43.772 9.67 1 1148800 33944 2935 21523 21592 38207 38207 0.03621456443227089 VFDEAIRAV 9 Unmodified _VFDEAIRAV_ 0 0 0 ENST00000488373.5_1_7:6415539-6442074:+|nuORF;ENSG00000169750|ENST00000306897|RAC3;ENSG00000136238|ENST00000348035|RAC1;nc|ENSG00000136238|P63000-2|RAC1;ENST00000419413.1_1_X:136523419-136523611:-|nuORF;ENSG00000128340|ENST00000249071|RAC2 ENST00000488373.5_1_7:6415539-6442074:+|nuORF ENST00000488373.5_1_7:6415539-6442074:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.28070068359375 2 510.279649 1018.54475 3.2861 0.0016768 -0.31503 -0.00016076 2.971 0.001516 510.27932262363225 50.175 0.3027 50.832 50.668 50.971 0.65735 26 11 3 0 0 0 0.03963 2 22935 22935;22992 51.63 13.479 1 801820 33945 2935 21523 21592 38208;38209 38208 0.03621456443227089 VFDEAIRAV 9 Unmodified _VFDEAIRAV_ 0 0 0 ENST00000488373.5_1_7:6415539-6442074:+|nuORF;ENSG00000169750|ENST00000306897|RAC3;ENSG00000136238|ENST00000348035|RAC1;nc|ENSG00000136238|P63000-2|RAC1;ENST00000419413.1_1_X:136523419-136523611:-|nuORF;ENSG00000128340|ENST00000249071|RAC2 ENST00000488373.5_1_7:6415539-6442074:+|nuORF ENST00000488373.5_1_7:6415539-6442074:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 510.279649 1018.54475 3.2062 0.001636 -0.21945 -0.00011198 2.9867 0.0015241 510.2792866998143 50.156 0.2673 50.978 50.858 51.125 0.82285 -0.018656 7.8779E-05 NaN 51.63 21 13 2 NaN NaN NaN NaN 0 NaN NaN 0 549990 33946 2935 21523 21592 0.03621456443227089 VFDEAIRAV 9 Unmodified _VFDEAIRAV_ 0 0 0 ENST00000488373.5_1_7:6415539-6442074:+|nuORF;ENSG00000169750|ENST00000306897|RAC3;ENSG00000136238|ENST00000348035|RAC1;nc|ENSG00000136238|P63000-2|RAC1;ENST00000419413.1_1_X:136523419-136523611:-|nuORF;ENSG00000128340|ENST00000249071|RAC2 ENST00000488373.5_1_7:6415539-6442074:+|nuORF ENST00000488373.5_1_7:6415539-6442074:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 510.279649 1018.54475 3.2239 0.0016451 -0.33247 -0.00016965 2.8915 0.0014755 510.2794461189416 50.903 0.31563 51.164 50.964 51.279 0.26146 0.16694 -3.6566E-05 NaN 51.63 31 15 3 NaN NaN NaN NaN 0 NaN NaN 0 815000 33947 2935 21523 21592 0.03621456443227089 VFDEAIRAVL 10 Unmodified _VFDEAIRAVL_ 0 0 0 ENST00000488373.5_1_7:6415539-6442074:+|nuORF;ENSG00000169750|ENST00000306897|RAC3;ENSG00000136238|ENST00000348035|RAC1;nc|ENSG00000136238|P63000-2|RAC1;ENST00000419413.1_1_X:136523419-136523611:-|nuORF;ENSG00000128340|ENST00000249071|RAC2 ENST00000488373.5_1_7:6415539-6442074:+|nuORF ENST00000488373.5_1_7:6415539-6442074:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 566.8231201171875 2 566.821681 1131.62881 3.3184 0.0018809 -0.03692 -2.0927E-05 3.2815 0.00186 566.8215966173185 71.493 0.19195 71.751 71.596 71.788 0.25786 26 14 2 0 0 0 0.020118 2 32763 32717;32763 71.708 48.972 1 1882200 33948 2935 21524 21593 38210;38211 38211 0.06825987540128153 VFDEAIRAVL 10 Unmodified _VFDEAIRAVL_ 0 0 0 ENST00000488373.5_1_7:6415539-6442074:+|nuORF;ENSG00000169750|ENST00000306897|RAC3;ENSG00000136238|ENST00000348035|RAC1;nc|ENSG00000136238|P63000-2|RAC1;ENST00000419413.1_1_X:136523419-136523611:-|nuORF;ENSG00000128340|ENST00000249071|RAC2 ENST00000488373.5_1_7:6415539-6442074:+|nuORF ENST00000488373.5_1_7:6415539-6442074:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.8236083984375 2 566.821681 1131.62881 3.0478 0.0017275 0.63078 0.00035754 3.6786 0.0020851 566.8219789785944 70.96 0.29713 71.622 71.478 71.775 0.66208 43 18 3 0 0 0 0.019703 2 32534 32483;32534 84.522 51.737 1 2058900 33949 2935 21524 21593 38212;38213 38213 0.06825987540128153 VFDEAIRAVL 10 Unmodified _VFDEAIRAVL_ 0 0 0 ENST00000488373.5_1_7:6415539-6442074:+|nuORF;ENSG00000169750|ENST00000306897|RAC3;ENSG00000136238|ENST00000348035|RAC1;nc|ENSG00000136238|P63000-2|RAC1;ENST00000419413.1_1_X:136523419-136523611:-|nuORF;ENSG00000128340|ENST00000249071|RAC2 ENST00000488373.5_1_7:6415539-6442074:+|nuORF ENST00000488373.5_1_7:6415539-6442074:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 566.821681 1131.62881 2.766 0.0015678 1.5166 0.00085966 4.2826 0.0024275 566.8227021142487 71.677 0.1683 71.677 71.614 71.782 0 -0.006137 0.0011264 NaN 84.522 21 15 2 NaN NaN NaN NaN 0 NaN NaN 0 634090 33950 2935 21524 21593 0.06825987540128153 VFDERCEPRI 10 Unmodified _VFDERCEPRI_ 0 0 0 REV__nc|ENSG00000141905|P08651-4|NFIC REV__nc|ENSG00000141905|P08651-4|NFIC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.95166015625 3 421.876529 1262.60776 2.9664 0.0012514 0.78102 0.0003295 3.7474 0.0015809 421.8766705333378 49.548 0.29226 49.81 49.671 49.963 0.26146 19 11 2 0 0 0 0.83621 1 22699 22699 3.5871 2.2574 1 245680 + 33951 12307 21525 21594 38214 38214 -0.013043458310221467 VFDERYEQRID 11 Unmodified _VFDERYEQRID_ 0 0 0 REV__nc|ENSG00000147862|O00712-2|NFIB REV__nc|ENSG00000147862|O00712-2|NFIB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.90765380859375 3 490.572162 1468.69466 3.1948 0.0015673 -0.10613 -5.2066E-05 3.0886 0.0015152 490.57238373289715 17.738 0.17651 17.738 17.677 17.853 0 20 9 3 0 0 0 0.91345 1 7903 7903 0.45452 0 1 192740 + 33952 12517 21526 21595 38215 38215 -0.02094268075643413 VFDERYEQRID 11 Unmodified _VFDERYEQRID_ 0 0 0 REV__nc|ENSG00000147862|O00712-2|NFIB REV__nc|ENSG00000147862|O00712-2|NFIB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 490.57269287109375 3 490.572162 1468.69466 2.9301 0.0014374 0.4328 0.00021232 3.3629 0.0016497 490.90654558376207 14.62 0.18383 14.927 14.849 15.033 0.3069 32 15 3 0 0 0 0.91068 1 6612 6612 1.3296 0.11481 1 226070 + 33953 12517 21526 21595 38216 38216 -0.02094268075643413 VFDERYEQRID 11 Unmodified _VFDERYEQRID_ 0 0 0 REV__nc|ENSG00000147862|O00712-2|NFIB REV__nc|ENSG00000147862|O00712-2|NFIB MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 490.572162 1468.69466 3.1948 0.0015673 -0.10613 -5.2066E-05 3.0886 0.0015152 490.57238373289715 17.738 0.17651 17.738 17.677 17.853 0 0 0 NaN 0.45452 20 9 3 NaN NaN NaN NaN 0 NaN NaN 0 192740 + 33954 12517 21526 21595 -0.02094268075643413 VFDFFFDNE 9 Unmodified _VFDFFFDNE_ 0 0 0 REV__nc|ENSG00000137474|Q13402-5|MYO7A;REV__ENST00000481328.7_1_11:76905078-76923312:+|nuORF REV__nc|ENSG00000137474|Q13402-5|MYO7A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.83984375 3 393.837957 1178.49204 NaN NaN NaN NaN NaN NaN NaN 7.052 1 7.6768 7.1768 8.1768 0.62473 0 0 0 0.91342 1 3192 3192 0.26902 0 1 + 33955 12113;16701 21527 21596 38217 38217 -0.09006546410205374 VFDIHVIDF 9 Unmodified _VFDIHVIDF_ 0 0 0 nc|ENSG00000122642|O95302-2|FKBP9;ENSG00000122642|ENST00000242209|FKBP9;nc|ENSG00000122642|O95302-3|FKBP9 nc|ENSG00000122642|O95302-2|FKBP9 nc|ENSG00000122642|O95302-2|FKBP9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.7918090820312 2 552.78985 1103.56515 3.5437 0.0019589 0.28707 0.00015869 3.8308 0.0021176 552.7899683872215 83.984 0.31235 84.231 84.08 84.392 0.24722 41 17 3 0 0 0 0.0012997 1 38679 38679 120.45 84.406 1 2203100 33956 2273 21528 21597 38218 38218 0.017506271030242715 VFDIHVIDF 9 Unmodified _VFDIHVIDF_ 0 0 0 nc|ENSG00000122642|O95302-2|FKBP9;ENSG00000122642|ENST00000242209|FKBP9;nc|ENSG00000122642|O95302-3|FKBP9 nc|ENSG00000122642|O95302-2|FKBP9 nc|ENSG00000122642|O95302-2|FKBP9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.791748046875 2 552.78985 1103.56515 3.6535 0.0020196 0.13471 7.4466E-05 3.7882 0.0020941 552.7898963818176 83.522 0.31748 84.184 83.994 84.312 0.66219 52 20 3 0 0 0 0.0013631 2 38498 38448;38498 115.69 79.648 1 1679100 33957 2273 21528 21597 38219;38220 38220 0.017506271030242715 VFDKTLAEL 9 Unmodified _VFDKTLAEL_ 0 0 0 ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant;nc|ENSG00000171681|Q6VMQ6-5|ATF7IP;ENSG00000171681|ENST00000261168|ATF7IP;nc|ENSG00000171681|Q6VMQ6-4|ATF7IP;ENST00000539659.5_1_12:14576849-14613468:+|nuORF;ENST00000541654.1_1_12:14538317-14613468:+|nuORF;ATF7IP|p.S888Lfs*22|1|0.46|ENSG00000171681|chr12:14460997-14460997|T/-|frameshift_variant;ENST00000537653.5_1_12:14576849-14628955:+|nuORF;nc|ENSG00000171681|Q6VMQ6-2|ATF7IP ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 518.2919311523438 2 518.289682 1034.56481 3.3808 0.0017522 0.41626 0.00021574 3.7971 0.001968 518.2898693011601 57.885 0.31349 58.147 57.978 58.291 0.26227 43 17 3 0 0 0 0.0023958 1 26513 26513 100.09 41.412 1 1044300 33958 73 21529 21598 38221 38221 0.04891207383184337 VFDKTLAEL 9 Unmodified _VFDKTLAEL_ 0 0 0 ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant;nc|ENSG00000171681|Q6VMQ6-5|ATF7IP;ENSG00000171681|ENST00000261168|ATF7IP;nc|ENSG00000171681|Q6VMQ6-4|ATF7IP;ENST00000539659.5_1_12:14576849-14613468:+|nuORF;ENST00000541654.1_1_12:14538317-14613468:+|nuORF;ATF7IP|p.S888Lfs*22|1|0.46|ENSG00000171681|chr12:14460997-14460997|T/-|frameshift_variant;ENST00000537653.5_1_12:14576849-14628955:+|nuORF;nc|ENSG00000171681|Q6VMQ6-2|ATF7IP ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.2914428710938 2 518.289682 1034.56481 3.4659 0.0017963 0.17274 8.9528E-05 3.6386 0.0018858 518.2896611745103 57.324 0.047874 57.992 57.957 58.005 0.66829 5 4 2 0 0 0 0.0071692 1 26230 26230 87.258 34.99 1 3613000 33959 73 21529 21598 38222 38222 0.04891207383184337 VFDKTLAEL 9 Unmodified _VFDKTLAEL_ 0 0 0 ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant;nc|ENSG00000171681|Q6VMQ6-5|ATF7IP;ENSG00000171681|ENST00000261168|ATF7IP;nc|ENSG00000171681|Q6VMQ6-4|ATF7IP;ENST00000539659.5_1_12:14576849-14613468:+|nuORF;ENST00000541654.1_1_12:14538317-14613468:+|nuORF;ATF7IP|p.S888Lfs*22|1|0.46|ENSG00000171681|chr12:14460997-14460997|T/-|frameshift_variant;ENST00000537653.5_1_12:14576849-14628955:+|nuORF;nc|ENSG00000171681|Q6VMQ6-2|ATF7IP ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 518.289682 1034.56481 3.2283 0.0016732 -0.056787 -2.9432E-05 3.1715 0.0016437 518.2894532840818 58.151 0.17792 58.151 58.042 58.22 0 0.11984 -0.00024162 NaN 100.09 31 18 2 NaN NaN NaN NaN 0 NaN NaN 0 912150 33960 73 21529 21598 0.04891207383184337 VFDKTLAEL 9 Unmodified _VFDKTLAEL_ 0 0 0 ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant;nc|ENSG00000171681|Q6VMQ6-5|ATF7IP;ENSG00000171681|ENST00000261168|ATF7IP;nc|ENSG00000171681|Q6VMQ6-4|ATF7IP;ENST00000539659.5_1_12:14576849-14613468:+|nuORF;ENST00000541654.1_1_12:14538317-14613468:+|nuORF;ATF7IP|p.S888Lfs*22|1|0.46|ENSG00000171681|chr12:14460997-14460997|T/-|frameshift_variant;ENST00000537653.5_1_12:14576849-14628955:+|nuORF;nc|ENSG00000171681|Q6VMQ6-2|ATF7IP ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 518.289682 1034.56481 3.1308 0.0016227 -0.64078 -0.00033211 2.49 0.0012905 518.2892728980011 57.147 0.19233 57.915 57.862 58.054 0.76861 -0.11572 -0.00084698 NaN 100.09 30 20 2 NaN NaN NaN NaN 0 NaN NaN 0 1204100 33961 73 21529 21598 0.04891207383184337 VFDKTLAEL 9 Unmodified _VFDKTLAEL_ 0 0 0 ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant;nc|ENSG00000171681|Q6VMQ6-5|ATF7IP;ENSG00000171681|ENST00000261168|ATF7IP;nc|ENSG00000171681|Q6VMQ6-4|ATF7IP;ENST00000539659.5_1_12:14576849-14613468:+|nuORF;ENST00000541654.1_1_12:14538317-14613468:+|nuORF;ATF7IP|p.S888Lfs*22|1|0.46|ENSG00000171681|chr12:14460997-14460997|T/-|frameshift_variant;ENST00000537653.5_1_12:14576849-14628955:+|nuORF;nc|ENSG00000171681|Q6VMQ6-2|ATF7IP ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 518.289682 1034.56481 3.4681 0.0017975 0.22878 0.00011857 3.6969 0.001916 518.2897400097455 57.242 0.11085 57.911 57.807 57.918 0.66829 -0.12045 5.4391E-05 NaN 100.09 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 1704100 33962 73 21529 21598 0.04891207383184337 VFDPKVFTF 9 Unmodified _VFDPKVFTF_ 0 0 0 nc|ENSG00000112297|Q9Y4K1-1|CRYBG1;ENSG00000112297|ENST00000633556|CRYBG1 nc|ENSG00000112297|Q9Y4K1-1|CRYBG1 nc|ENSG00000112297|Q9Y4K1-1|CRYBG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.2974853515625 2 550.294768 1098.57498 3.0368 0.0016711 0.33858 0.00018632 3.3754 0.0018574 550.2950952641311 76.549 0.26553 76.549 76.393 76.659 0 29 16 2 0 0 0 0.0057865 1 37494 37494 90.135 67.399 1 1637700 33963 1802 21530 21599 38223 38223 0.029638151084100173 VFDPKVFTF 9 Unmodified _VFDPKVFTF_ 0 0 0 nc|ENSG00000112297|Q9Y4K1-1|CRYBG1;ENSG00000112297|ENST00000633556|CRYBG1 nc|ENSG00000112297|Q9Y4K1-1|CRYBG1 nc|ENSG00000112297|Q9Y4K1-1|CRYBG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.2955322265625 2 550.294768 1098.57498 2.7214 0.0014976 -0.23021 -0.00012668 2.4912 0.0013709 550.2946051184305 75.499 0.22787 76.162 76.032 76.26 0.6635 28 16 2 0 0 0 0.002702 1 36546 36546 96.936 66.299 1 1772900 33964 1802 21530 21599 38224 38224 0.029638151084100173 VFDPKVFTF 9 Unmodified _VFDPKVFTF_ 0 0 0 nc|ENSG00000112297|Q9Y4K1-1|CRYBG1;ENSG00000112297|ENST00000633556|CRYBG1 nc|ENSG00000112297|Q9Y4K1-1|CRYBG1 nc|ENSG00000112297|Q9Y4K1-1|CRYBG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.2966918945312 2 550.294768 1098.57498 3.3446 0.0018405 1.1675 0.00064249 4.5122 0.002483 550.2949253662049 76.269 0.25912 76.526 76.406 76.665 0.25705 39 17 3 0 0 0 0.0057865 2 35112 35112;35157 90.135 50.178 1 1810000 33965 1802 21530 21599 38225;38226 38225 0.029638151084100173 VFDPKVFTF 9 Unmodified _VFDPKVFTF_ 0 0 0 nc|ENSG00000112297|Q9Y4K1-1|CRYBG1;ENSG00000112297|ENST00000633556|CRYBG1 nc|ENSG00000112297|Q9Y4K1-1|CRYBG1 nc|ENSG00000112297|Q9Y4K1-1|CRYBG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.2950439453125 2 550.294768 1098.57498 3.144 0.0017301 -0.065837 -3.623E-05 3.0782 0.0016939 550.2946836575147 75.769 0.26569 76.433 76.321 76.587 0.66387 51 22 3 0 0 0 0.002702 1 34906 34906 96.936 66.299 1 1151500 33966 1802 21530 21599 38227 38227 0.029638151084100173 VFDTSIAQL 9 Unmodified _VFDTSIAQL_ 0 0 0 nc|ENSG00000196470|Q8IUQ4-2|SIAH1;ENSG00000196470|ENST00000394725|SIAH1 nc|ENSG00000196470|Q8IUQ4-2|SIAH1 nc|ENSG00000196470|Q8IUQ4-2|SIAH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.267578125 2 497.266207 992.517862 2.982 0.0014829 0.25352 0.00012607 3.2355 0.0016089 497.26656735142427 71.456 0.20602 71.713 71.562 71.768 0.25786 26 16 2 0 0 0 0.041436 1 32725 32725 50.855 22.368 1 352390 33967 9798 21531 21600 38228 38228 0.021303478320305658 VFDTSIAQL 9 Unmodified _VFDTSIAQL_ 0 0 0 nc|ENSG00000196470|Q8IUQ4-2|SIAH1;ENSG00000196470|ENST00000394725|SIAH1 nc|ENSG00000196470|Q8IUQ4-2|SIAH1 nc|ENSG00000196470|Q8IUQ4-2|SIAH1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 497.266207 992.517862 2.6884 0.0013368 0.37846 0.0001882 3.0668 0.001525 497.2665768877663 70.935 0.21796 71.597 71.424 71.642 0.66208 -0.058006 5.5673E-05 NaN 50.855 22 13 2 NaN NaN NaN NaN 0 NaN NaN 0 347110 33968 9798 21531 21600 0.021303478320305658 VFDVSHNAV 9 Unmodified _VFDVSHNAV_ 0 0 0 nc|ENSG00000113615|O95486-2|SEC24A;ENSG00000113615|ENST00000398844|SEC24A nc|ENSG00000113615|O95486-2|SEC24A nc|ENSG00000113615|O95486-2|SEC24A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.2507019042969 2 494.248349 986.482145 3.2617 0.0016121 0.74876 0.00037007 4.0105 0.0019822 494.2486574226056 36.82 0.27023 37.45 37.303 37.573 0.62999 22 10 3 0 0 0 0.084899 1 16872 16872 36.506 9.6225 1 321010 33969 1863 21532 21601 38229 38229 -0.011636896249569872 VFDVSHNAV 9 Unmodified _VFDVSHNAV_ 0 0 0 nc|ENSG00000113615|O95486-2|SEC24A;ENSG00000113615|ENST00000398844|SEC24A nc|ENSG00000113615|O95486-2|SEC24A nc|ENSG00000113615|O95486-2|SEC24A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 494.248349 986.482145 3.3482 0.0016548 0.54066 0.00026722 3.8888 0.0019221 494.2485737367125 37.462 0.28439 37.723 37.572 37.856 0.26083 0.13641 -6.9886E-05 NaN 36.506 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 401040 33970 1863 21532 21601 -0.011636896249569872 VFEKDEKDI 9 Unmodified _VFEKDEKDI_ 0 0 0 REV__ENSG00000181333|ENST00000315765|HEPHL1 REV__ENSG00000181333|ENST00000315765|HEPHL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.8616638183594 3 374.860761 1121.56045 2.8463 0.001067 -0.52991 -0.00019864 2.3164 0.00086834 374.86047431205543 16.951 0.31149 16.951 16.75 17.061 0 55 32 2 0 0 0 1.0894 1 7555 7555 2.4985 0.90621 1 238630 + 33971 13851 21533 21602 38230 38230 0.0045369816962193 VFEKDEKDI 9 Unmodified _VFEKDEKDI_ 0 0 0 REV__ENSG00000181333|ENST00000315765|HEPHL1 REV__ENSG00000181333|ENST00000315765|HEPHL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.8614196777344 3 374.860761 1121.56045 2.3927 0.00089695 0.80597 0.00030212 3.1987 0.0011991 374.86088895226095 15.235 0.50202 15.446 15.272 15.774 0.21108 155 71 3 0 0 0 1.0894 1 6687 6687 2.4985 0.41248 1 237060 + 33972 13851 21533 21602 38231 38231 0.0045369816962193 VFFFQRLPSRL 11 Unmodified _VFFFQRLPSRL_ 0 0 0 REV__ENST00000393357.6_1_1:114301402-114301543:-|nuORF REV__ENST00000393357.6_1_1:114301402-114301543:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 353.2073669433594 4 353.206762 1408.79794 2.4583 0.00086827 0.68424 0.00024168 3.1425 0.00111 353.4575334795389 60.73 1.0793 61.393 60.788 61.868 0.66261 106 53 3 0 0 0 0.91111 1 27764 27764 0.40827 0 1 1227000 + 33973 15950 21534 21603 38232 38232 0.1098930889352232 VFFKELIQEF 10 Unmodified _VFFKELIQEF_ 0 0 0 ENST00000581642.1_1_17:80193878-80194172:+|nuORF;ENST00000584781.5_1_17:80193878-80195055:+|nuORF;ENST00000579572.1_1_17:80193878-80195110:+|nuORF;ENSG00000141526|ENST00000582743|SLC16A3 ENST00000581642.1_1_17:80193878-80194172:+|nuORF ENST00000581642.1_1_17:80193878-80194172:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 650.9830932617188 2 650.352814 1298.69108 2.8687 0.0018657 1.4925 0.00097067 4.3613 0.0028364 650.3532675525798 84.349 0.10595 84.378 84.333 84.439 0.02861 15 12 2 0 0 0 0.60841 1 42089 42089 17.113 10.011 1 8802800 33974 3265 21535 21604 38233 38233 0.05367713888472281 VFFKELIQEF 10 Unmodified _VFFKELIQEF_ 0 0 0 ENST00000581642.1_1_17:80193878-80194172:+|nuORF;ENST00000584781.5_1_17:80193878-80195055:+|nuORF;ENST00000579572.1_1_17:80193878-80195110:+|nuORF;ENSG00000141526|ENST00000582743|SLC16A3 ENST00000581642.1_1_17:80193878-80194172:+|nuORF ENST00000581642.1_1_17:80193878-80194172:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 650.3556518554688 2 650.352814 1298.69108 3.8507 0.0025043 -0.4228 -0.00027497 3.4279 0.0022293 650.352499796921 85.397 0.35326 85.646 85.444 85.797 0.24857 46 19 3 0 0 0 7.6551E-09 2 39294 39245;39294 143.21 89.38 1 2004100 33975 3265 21535 21604 38234;38235 38235 0.05367713888472281 VFFKELIQEF 10 Unmodified _VFFKELIQEF_ 0 0 0 ENST00000581642.1_1_17:80193878-80194172:+|nuORF;ENST00000584781.5_1_17:80193878-80195055:+|nuORF;ENST00000579572.1_1_17:80193878-80195110:+|nuORF;ENSG00000141526|ENST00000582743|SLC16A3 ENST00000581642.1_1_17:80193878-80194172:+|nuORF ENST00000581642.1_1_17:80193878-80194172:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 650.8570556640625 2 650.352814 1298.69108 4.0737 0.0026494 0.13974 9.0882E-05 4.2135 0.0027402 650.3530324296354 84.758 0.27937 85.424 85.245 85.525 0.66566 40 16 3 0 0 0 3.5941E-05 2 39034 38991;39034 110.55 64.532 1 944170 33976 3265 21535 21604 38236;38237 38237 0.05367713888472281 VFFKRSPAM 9 Unmodified _VFFKRSPAM_ 0 0 0 REV__ENSG00000111669|ENST00000396705|TPI1 REV__ENSG00000111669|ENST00000396705|TPI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.794677734375 2 541.794412 1081.57427 NaN NaN NaN NaN NaN NaN NaN 71.193 1 71.193 70.693 71.693 0 0 0 0 0.84134 1 34598 34598 7.9102 0.62092 1 + 33977 11244 21536 21605 38238 38238 0.03674697187739184 VFFPFFFRWWL 11 Unmodified _VFFPFFFRWWL_ 0 0 0 nc|ENSG00000006576|Q8N3S3-7|PHTF2;nc|ENSG00000006576|Q8N3S3-4|PHTF2;nc|ENSG00000006576|Q8N3S3-3|PHTF2;nc|ENSG00000006576|Q8N3S3-2|PHTF2;ENSG00000006576|ENST00000416283|PHTF2;nc|ENSG00000006576|Q8N3S3-6|PHTF2;nc|ENSG00000006576|Q8N3S3-5|PHTF2 nc|ENSG00000006576|Q8N3S3-7|PHTF2 nc|ENSG00000006576|Q8N3S3-7|PHTF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 796.4165649414062 2 796.416083 1590.81761 NaN NaN NaN NaN NaN NaN NaN 90.242 1 90.242 89.742 90.742 0 0 0 0 1.0082 1 47368 47368 0 0 1 33978 352 21537 21606 38239 38239 0.04583684904287111 VFFRRQEL 8 Unmodified _VFFRRQEL_ 0 0 0 nc|ENSG00000175054|Q13535-2|ATR;nc|ENSG00000175054|Q13535-3|ATR;ENSG00000175054|ENST00000350721|ATR;ATR|p.Y1107Ifs*12|1|0.29|ENSG00000175054|chr3:142547763-142547763|A/-|frameshift_variant nc|ENSG00000175054|Q13535-2|ATR nc|ENSG00000175054|Q13535-2|ATR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.543212890625 3 365.541697 1093.60326 3.1586 0.0011546 -0.25292 -9.2452E-05 2.9057 0.0010622 365.54165872038317 31.262 0.5154 31.518 31.263 31.778 0.25614 59 38 2 0 0 0 0.67192 1 14272 14272 8.1555 3.2585 1 412100 33979 5010 21538 21607 38240 38240 0.06020557808369631 VFFRRQEL 8 Unmodified _VFFRRQEL_ 0 0 0 nc|ENSG00000175054|Q13535-2|ATR;nc|ENSG00000175054|Q13535-3|ATR;ENSG00000175054|ENST00000350721|ATR;ATR|p.Y1107Ifs*12|1|0.29|ENSG00000175054|chr3:142547763-142547763|A/-|frameshift_variant nc|ENSG00000175054|Q13535-2|ATR nc|ENSG00000175054|Q13535-2|ATR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.5425109863281 3 365.541697 1093.60326 2.5905 0.00094695 0.074437 2.721E-05 2.665 0.00097416 365.5418210114931 30.7 0.45493 31.317 31.17 31.625 0.61737 40 26 2 0 0 0 0.62155 1 14094 14094 12.241 2.6967 1 556690 33980 5010 21538 21607 38241 38241 0.06020557808369631 VFGLPLAI 8 Unmodified _VFGLPLAI_ 0 0 0 REV__ENST00000403729.6_1_4:80992740-80994184:-|nuORF REV__ENST00000403729.6_1_4:80992740-80994184:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 415.2625427246094 2 415.262739 828.510926 3.1967 0.0013275 -2.0487 -0.00085077 1.1479 0.0004767 415.2616186636527 97.97 0.12061 98.569 98.495 98.616 0.59885 11 8 2 0 0 0 0.7471 1 45092 45092 0.79363 0 1 1602200 + 33981 16057 21539 21608 38242 38242 0.08981079742113707 VFGLPLAI 8 Unmodified _VFGLPLAI_ 0 0 0 REV__ENST00000403729.6_1_4:80992740-80994184:-|nuORF REV__ENST00000403729.6_1_4:80992740-80994184:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 415.262739 828.510926 3.7859 0.0015721 -1.7756 -0.00073736 2.0102 0.00083477 415.2620411043513 98.306 0.14302 98.606 98.514 98.657 0.29987 0.018465 6.8816E-05 NaN 0.79363 22 13 2 NaN NaN NaN NaN 0 NaN NaN 0 2614000 + 33982 16057 21539 21608 0.08981079742113707 VFGLPLAI 8 Unmodified _VFGLPLAI_ 0 0 0 REV__ENST00000403729.6_1_4:80992740-80994184:-|nuORF REV__ENST00000403729.6_1_4:80992740-80994184:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 415.262739 828.510926 3.1967 0.0013275 -2.0487 -0.00085077 1.1479 0.0004767 415.2616186636527 97.97 0.12061 98.569 98.495 98.616 0.59885 -0.018465 -0.00015801 NaN 0.79363 11 8 2 NaN NaN NaN NaN 0 NaN NaN 0 1602200 + 33983 16057 21539 21608 0.08981079742113707 VFHLLLVLLVP 11 Unmodified _VFHLLLVLLVP_ 0 0 0 ENST00000331569.5_1_8:37554703-37555105:+|nuORF ENST00000331569.5_1_8:37554703-37555105:+|nuORF ENST00000331569.5_1_8:37554703-37555105:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 631.9281616210938 2 631.915384 1261.81622 NaN NaN NaN NaN NaN NaN NaN 79.266 1 79.586 79.086 80.086 0.31998 0 0 0 1.0071 1 38709 38709 1.4819 0 1 33984 6992 21540 21609 38243 38243 0.19578050815493953 VFHPRQELI 9 Unmodified _VFHPRQELI_ 0 0 0 COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant;ENSG00000122218|ENST00000241704|COPA;nc|ENSG00000122218|P53621-2|COPA COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 380.5527038574219 3 380.217102 1137.62948 2.6417 0.0010044 0.58012 0.00022057 3.2218 0.001225 380.2173346942418 35.818 0.29726 35.818 35.658 35.955 0 36 15 3 0 0 0 0.19413 1 16230 16230 23.79 15.634 1 1414800 33985 242 21541 21610 38244 38244 0.06616826979848156 VFHPRQELI 9 Unmodified _VFHPRQELI_ 0 0 0 COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant;ENSG00000122218|ENST00000241704|COPA;nc|ENSG00000122218|P53621-2|COPA COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 380.2180480957031 3 380.217102 1137.62948 2.4209 0.00092045 0.40924 0.0001556 2.8301 0.001076 380.2172749356406 34.834 0.26092 35.623 35.496 35.757 0.78921 46 19 3 0 0 0 0.19413 2 15766 15766;15809 23.79 15.634 1 1696800 33986 242 21541 21610 38245;38246 38245 0.06616826979848156 VFHPRQELI 9 Unmodified _VFHPRQELI_ 0 0 0 COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant;ENSG00000122218|ENST00000241704|COPA;nc|ENSG00000122218|P53621-2|COPA COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.2181091308594 3 380.217102 1137.62948 2.7687 0.0010527 0.29643 0.00011271 3.0651 0.0011654 380.21731276549434 35.591 0.36894 35.846 35.651 36.02 0.25524 31 12 3 0 0 0 0.084747 1 16231 16231 20.415 12.259 1 698550 33987 242 21541 21610 38247 38247 0.06616826979848156 VFHPRQELI 9 Unmodified _VFHPRQELI_ 0 0 0 COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant;ENSG00000122218|ENST00000241704|COPA;nc|ENSG00000122218|P53621-2|COPA COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.2183532714844 3 380.217102 1137.62948 2.7697 0.0010531 0.61716 0.00023466 3.3869 0.0012878 380.2174131777351 35.206 0.25307 35.829 35.681 35.934 0.62294 22 9 3 0 0 0 0.33646 1 16161 16161 15.248 8.6181 1 826000 33988 242 21541 21610 38248 38248 0.06616826979848156 VFHPRQELI 9 Unmodified _VFHPRQELI_ 0 0 0 COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant;ENSG00000122218|ENST00000241704|COPA;nc|ENSG00000122218|P53621-2|COPA COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant COPA|p.R726Hfs*13|1|0.2|ENSG00000122218|chr1:160297423-160297430|TCCTTTCT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.8241577148438 2 569.822015 1137.62948 NaN NaN NaN NaN NaN NaN NaN 35.311 1 35.936 35.436 36.436 0.6246 0 0 0 0.90431 1 16179 16179 1.8442 0.19162 1 33989 242 21541 21610 38249 38249 0.06616826979848156 VFHSPSSFQT 10 Unmodified _VFHSPSSFQT_ 0 0 0 ENST00000430298.6_1_19:12222347-12224207:+|nuORF ENST00000430298.6_1_19:12222347-12224207:+|nuORF ENST00000430298.6_1_19:12222347-12224207:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.77392578125 2 568.772188 1135.52982 3.4278 0.0019496 0.092663 5.2704E-05 3.5204 0.0020023 568.7720600890858 50.467 0.40638 50.729 50.557 50.964 0.26146 32 19 2 0 0 0 0.78028 1 23088 23088 9.3831 2.2814 1 1113400 33990 7844 21542 21611 38250 38250 -0.03252035424748101 VFHSPSSFQT 10 Unmodified _VFHSPSSFQT_ 0 0 0 ENST00000430298.6_1_19:12222347-12224207:+|nuORF ENST00000430298.6_1_19:12222347-12224207:+|nuORF ENST00000430298.6_1_19:12222347-12224207:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.7747192382812 2 568.772188 1135.52982 3.6044 0.0020501 0.035697 2.0303E-05 3.6401 0.0020704 568.7720203522613 49.856 0.35806 50.513 50.34 50.698 0.65735 27 14 3 0 0 0 0.78028 1 22848 22848 9.3831 2.2814 1 843940 33991 7844 21542 21611 38251 38251 -0.03252035424748101 VFIDHPVHL 9 Unmodified _VFIDHPVHL_ 0 0 0 ENSG00000149256|ENST00000278550|TENM4;TENM4|p.I1369Cfs*22|1|0.07|ENSG00000149256|chr11:78708465-78708466|-/AAGCCTTTAAAGAGCA|frameshift_variant ENSG00000149256|ENST00000278550|TENM4 ENSG00000149256|ENST00000278550|TENM4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 359.53521728515625 3 359.534431 1075.58147 2.3036 0.00082823 -0.42397 -0.00015243 1.8797 0.0006758 359.5340423672376 46.363 0.20934 47.192 47.067 47.276 0.82915 20 12 2 0 0 0 0.136 2 21105 21105;21115 27.629 13.223 1 635690 33992 3634 21543 21612 38252;38253 38252 0.046697530598066805 VFIDHPVHL 9 Unmodified _VFIDHPVHL_ 0 0 0 ENSG00000149256|ENST00000278550|TENM4;TENM4|p.I1369Cfs*22|1|0.07|ENSG00000149256|chr11:78708465-78708466|-/AAGCCTTTAAAGAGCA|frameshift_variant ENSG00000149256|ENST00000278550|TENM4 ENSG00000149256|ENST00000278550|TENM4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 359.534431 1075.58147 2.3862 0.0008579 -0.55414 -0.00019923 1.832 0.00065867 359.5342943249534 47.399 0.20165 47.399 47.294 47.495 0 0.15547 -6.2739E-05 NaN 27.629 22 11 3 NaN NaN NaN NaN 0 NaN NaN 0 737490 33993 3634 21543 21612 0.046697530598066805 VFIDHPVHL 9 Unmodified _VFIDHPVHL_ 0 0 0 ENSG00000149256|ENST00000278550|TENM4;TENM4|p.I1369Cfs*22|1|0.07|ENSG00000149256|chr11:78708465-78708466|-/AAGCCTTTAAAGAGCA|frameshift_variant ENSG00000149256|ENST00000278550|TENM4 ENSG00000149256|ENST00000278550|TENM4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 359.534431 1075.58147 2.7073 0.00097336 -0.44727 -0.00016081 2.26 0.00081255 359.5343244759213 46.487 0.11994 47.139 47.047 47.167 0.65219 -0.10409 5.2525E-05 NaN 27.629 12 4 3 NaN NaN NaN NaN 0 NaN NaN 0 245200 33994 3634 21543 21612 0.046697530598066805 VFIDKQTNL 9 Unmodified _VFIDKQTNL_ 0 0 0 nc|ENSG00000149187|Q92879-5|CELF1;nc|ENSG00000149187|Q92879-2|CELF1;nc|ENSG00000149187|Q92879-3|CELF1;nc|ENSG00000149187|Q92879-6|CELF1;nc|ENSG00000149187|Q92879|CELF1;nc|ENSG00000048740|O95319-5|CELF2;nc|ENSG00000048740|O95319-2|CELF2;nc|ENSG00000048740|O95319|CELF2;nc|ENSG00000048740|O95319-4|CELF2;nc|ENSG00000149187|Q92879-4|CELF1;ENSG00000149187|ENST00000687097|CELF1;nc|ENSG00000048740|O95319-3|CELF2;ENSG00000048740|ENST00000633077|CELF2 nc|ENSG00000149187|Q92879-5|CELF1 nc|ENSG00000149187|Q92879-5|CELF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.3021850585938 2 539.300581 1076.58661 3.1661 0.0017075 0.4233 0.00022829 3.5894 0.0019358 539.3007637178516 41.906 0.26859 41.906 41.786 42.055 0 59 20 4 0 0 0 1.4597999999999999E-21 2 19037 19037;19088 187.3 101.94 1 10008000 33995 571 21544 21613 38254;38255 38254 0.05138012131760661 VFIDKQTNL 9 Unmodified _VFIDKQTNL_ 0 0 0 nc|ENSG00000149187|Q92879-5|CELF1;nc|ENSG00000149187|Q92879-2|CELF1;nc|ENSG00000149187|Q92879-3|CELF1;nc|ENSG00000149187|Q92879-6|CELF1;nc|ENSG00000149187|Q92879|CELF1;nc|ENSG00000048740|O95319-5|CELF2;nc|ENSG00000048740|O95319-2|CELF2;nc|ENSG00000048740|O95319|CELF2;nc|ENSG00000048740|O95319-4|CELF2;nc|ENSG00000149187|Q92879-4|CELF1;ENSG00000149187|ENST00000687097|CELF1;nc|ENSG00000048740|O95319-3|CELF2;ENSG00000048740|ENST00000633077|CELF2 nc|ENSG00000149187|Q92879-5|CELF1 nc|ENSG00000149187|Q92879-5|CELF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.3027954101562 2 539.300581 1076.58661 3.032 0.0016352 0.32395 0.00017471 3.356 0.0018099 539.3005767901715 41.006 0.24845 41.81 41.678 41.926 0.80351 65 26 3 0 0 0 1.4597999999999999E-21 3 18596 18550;18596;18644 187.3 101.94 1 14553000 33996 571 21544 21613 38256;38257;38258 38257 0.05138012131760661 VFIDKQTNL 9 Unmodified _VFIDKQTNL_ 0 0 0 nc|ENSG00000149187|Q92879-5|CELF1;nc|ENSG00000149187|Q92879-2|CELF1;nc|ENSG00000149187|Q92879-3|CELF1;nc|ENSG00000149187|Q92879-6|CELF1;nc|ENSG00000149187|Q92879|CELF1;nc|ENSG00000048740|O95319-5|CELF2;nc|ENSG00000048740|O95319-2|CELF2;nc|ENSG00000048740|O95319|CELF2;nc|ENSG00000048740|O95319-4|CELF2;nc|ENSG00000149187|Q92879-4|CELF1;ENSG00000149187|ENST00000687097|CELF1;nc|ENSG00000048740|O95319-3|CELF2;ENSG00000048740|ENST00000633077|CELF2 nc|ENSG00000149187|Q92879-5|CELF1 nc|ENSG00000149187|Q92879-5|CELF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.302490234375 2 539.300581 1076.58661 3.4194 0.0018441 0.32792 0.00017685 3.7473 0.0020209 539.3006942181036 41.65 0.306 41.92 41.768 42.074 0.27021 40 12 4 0 0 0 3.8587E-09 2 18992 18941;18992 160.69 75.333 1 4939100 33997 571 21544 21613 38259;38260 38260 0.05138012131760661 VFIDKQTNL 9 Unmodified _VFIDKQTNL_ 0 0 0 nc|ENSG00000149187|Q92879-5|CELF1;nc|ENSG00000149187|Q92879-2|CELF1;nc|ENSG00000149187|Q92879-3|CELF1;nc|ENSG00000149187|Q92879-6|CELF1;nc|ENSG00000149187|Q92879|CELF1;nc|ENSG00000048740|O95319-5|CELF2;nc|ENSG00000048740|O95319-2|CELF2;nc|ENSG00000048740|O95319|CELF2;nc|ENSG00000048740|O95319-4|CELF2;nc|ENSG00000149187|Q92879-4|CELF1;ENSG00000149187|ENST00000687097|CELF1;nc|ENSG00000048740|O95319-3|CELF2;ENSG00000048740|ENST00000633077|CELF2 nc|ENSG00000149187|Q92879-5|CELF1 nc|ENSG00000149187|Q92879-5|CELF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.8035888671875 2 539.300581 1076.58661 3.5117 0.0018939 -0.16009 -8.6336E-05 3.3516 0.0018075 539.8018049573702 41.049 0.15131 41.694 41.641 41.793 0.64451 25 16 3 0 0 0 2.4683E-14 1 18773 18773 173.69 88.33 1 8651300 33998 571 21544 21613 38261 38261 0.05138012131760661 VFIEGADAETF 11 Unmodified _VFIEGADAETF_ 0 0 0 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 599.7870483398438 2 599.784961 1197.55537 3.9617 0.0023761 -0.38428 -0.00023048 3.5774 0.0021457 599.7847943820711 67.73 0.20976 67.983 67.84 68.049 0.25227 17 11 2 0 0 0 0.64057 1 31031 31031 13.906 5.3128 1 380970 33999 2962 21545 21614 38262 38262 -0.03550605692998943 VFIEGADAETF 11 Unmodified _VFIEGADAETF_ 0 0 0 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 600.03955078125 2 599.784961 1197.55537 3.9535 0.0023713 0.70288 0.00042158 4.6564 0.0027929 599.7852485971473 67.161 0.23608 67.818 67.737 67.973 0.65778 18 12 2 0 0 0 0.17308 2 30782 30782;30849 29.082 10.947 1 334450 34000 2962 21545 21614 38263;38264 38263 -0.03550605692998943 VFIRGGEEF 9 Unmodified _VFIRGGEEF_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF;nc|ENSG00000173821|Q63HN8-5|RNF213;ENST00000573548.1_1_17:78263625-78265730:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.2733154296875 2 527.271824 1052.5291 3.4027 0.0017942 -0.89272 -0.0004707 2.51 0.0013235 527.2716612897518 46.406 0.40287 46.672 46.469 46.872 0.26561 41 14 5 0 0 0 0.004576 2 21205 21205;21257 92.653 52.704 1 3076900 34001 4953 21546 21615 38265;38266 38265 0.0049316992619878874 VFIRGGEEF 9 Unmodified _VFIRGGEEF_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF;nc|ENSG00000173821|Q63HN8-5|RNF213;ENST00000573548.1_1_17:78263625-78265730:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.2743530273438 2 527.271824 1052.5291 3.577 0.001886 -0.43588 -0.00022983 3.1411 0.0016562 527.2719004031607 45.823 0.33162 46.474 46.269 46.6 0.65104 32 10 4 0 0 0 0.0020791 2 20974 20974;21031 103.35 61.259 1 2515100 34002 4953 21546 21615 38267;38268 38267 0.0049316992619878874 VFKFKHSL 8 Unmodified _VFKFKHSL_ 0 0 0 ZFAT|p.A1128Pfs*2|1|0.14|ENSG00000066827|chr8:134509729-134509729|C/-|frameshift_variant;nc|ENSG00000066827|Q9P243-4|ZFAT;nc|ENSG00000066827|Q9P243-2|ZFAT;ENSG00000066827|ENST00000377838|ZFAT;nc|ENSG00000066827|Q9P243-3|ZFAT ZFAT|p.A1128Pfs*2|1|0.14|ENSG00000066827|chr8:134509729-134509729|C/-|frameshift_variant ZFAT|p.A1128Pfs*2|1|0.14|ENSG00000066827|chr8:134509729-134509729|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.86865234375 3 335.867522 1004.58074 NaN NaN NaN NaN NaN NaN NaN 26.808 1 27.073 26.573 27.573 0.26489 0 0 0 0.99035 1 12182 12182 3.9444 0.3479 1 34003 715 21547 21616 38269 38269 0.07862958410760257 VFKIVKMI 8 Unmodified _VFKIVKMI_ 0 0 0 ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX ENSG00000039123|ENST00000230640|MTREX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.3155517578125 2 489.314449 976.614345 3.5834 0.0017534 -0.41333 -0.00020225 3.17 0.0015511 489.3142037342608 90.965 0.54002 91.217 90.934 91.474 0.25163 90 28 4 0 0 0 0.7471 1 41849 41849 0.79363 0.79363 1 16533000 34004 524 21548 21617 38270 38270 0.1251024385829851 VFKKWKWLFRR 11 Unmodified _VFKKWKWLFRR_ 0 0 0 REV__ENST00000429378.5_3_16:242971-256079:-|nuORF REV__ENST00000429378.5_3_16:242971-256079:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.9564819335938 3 531.989146 1592.94561 NaN NaN NaN NaN NaN NaN NaN 88.927 1 88.927 88.427 89.427 0 0 0 0 1.0082 1 46292 46292 0.08335 0.08335 1 + 34005 16240 21549 21618 38271 38271 0.1728524521813597 VFKNKRIL 8 Unmodified _VFKNKRIL_ 0 0 0 ENSG00000108298|ENST00000225430|RPL19;ENST00000498753.1_1_3:141762467-141763034:-|nuORF ENSG00000108298|ENST00000225430|RPL19 ENSG00000108298|ENST00000225430|RPL19 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.85479736328125 3 339.890438 1016.64948 2.394 0.0008137 -0.17843 -6.0645E-05 2.2156 0.00075306 339.89047075905 15.743 0.80305 15.743 15.386 16.189 0 173 95 2 0 0 0 0.13619 1 6964 6964 14.838 4.0143 1 113200 34006 1627 21550 21619 38272 38272 0.141826227104616 VFKNKRIL 8 Unmodified _VFKNKRIL_ 0 0 0 ENSG00000108298|ENST00000225430|RPL19;ENST00000498753.1_1_3:141762467-141763034:-|nuORF ENSG00000108298|ENST00000225430|RPL19 ENSG00000108298|ENST00000225430|RPL19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.8915100097656 3 339.890438 1016.64948 2.2245 0.0007561 0.41492 0.00014103 2.6395 0.00089713 339.8904381847225 14.286 0.084858 14.592 14.527 14.612 0.3069 10 4 3 0 0 0 0.26384 1 6462 6462 30.637 11.38 1 998140 34007 1627 21550 21619 38273 38273 0.141826227104616 VFKNKRIL 8 Unmodified _VFKNKRIL_ 0 0 0 ENSG00000108298|ENST00000225430|RPL19;ENST00000498753.1_1_3:141762467-141763034:-|nuORF ENSG00000108298|ENST00000225430|RPL19 ENSG00000108298|ENST00000225430|RPL19 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.8914794921875 3 339.890438 1016.64948 NaN NaN NaN NaN NaN NaN NaN 14.212 1 14.86 14.36 15.36 0.6482 0 0 0 0.26755 1 6393 6393 30.637 11.38 1 34008 1627 21550 21619 38274 38274 0.141826227104616 VFKNKRIL 8 Unmodified _VFKNKRIL_ 0 0 0 ENSG00000108298|ENST00000225430|RPL19;ENST00000498753.1_1_3:141762467-141763034:-|nuORF ENSG00000108298|ENST00000225430|RPL19 ENSG00000108298|ENST00000225430|RPL19 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 339.890438 1016.64948 2.3289 0.00079158 0.0079312 2.6957E-06 2.3369 0.00079428 339.89048619619484 14.761 0.24074 14.987 14.868 15.109 0.22622 0.1975 -0.00012803 NaN 30.637 26 15 2 NaN NaN NaN NaN 0 NaN NaN 0 350990 34009 1627 21550 21619 0.141826227104616 VFKTTLNEF 9 Unmodified _VFKTTLNEF_ 0 0 0 nc|ENSG00000101782|O14730-2|RIOK3;ENSG00000101782|ENST00000339486|RIOK3;ENST00000581302.5_1_18:21033283-21057068:+|nuORF nc|ENSG00000101782|O14730-2|RIOK3 nc|ENSG00000101782|O14730-2|RIOK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.798095703125 2 549.795132 1097.57571 3.3464 0.0018398 0.81671 0.00044902 4.1631 0.0022889 549.7956620802007 52.42 0.21323 53.082 52.958 53.171 0.66198 13 9 2 0 0 0 0.10169 1 23976 23976 32.305 3.8186 1 294860 34010 1313 21551 21620 38275 38275 0.03082609757461796 VFKTTLNEF 9 Unmodified _VFKTTLNEF_ 0 0 0 nc|ENSG00000101782|O14730-2|RIOK3;ENSG00000101782|ENST00000339486|RIOK3;ENST00000581302.5_1_18:21033283-21057068:+|nuORF nc|ENSG00000101782|O14730-2|RIOK3 nc|ENSG00000101782|O14730-2|RIOK3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 549.795132 1097.57571 3.7612 0.0020679 3.0065 0.001653 6.7677 0.0037208 549.7956618938467 53.095 0.19589 53.095 52.987 53.183 0 0.006633 0.0021272 NaN 32.305 13 10 2 NaN NaN NaN NaN 0 NaN NaN 0 408270 34011 1313 21551 21620 0.03082609757461796 VFKWMYFYFRY 11 Unmodified _VFKWMYFYFRY_ 0 0 0 REV__ENSG00000197106|ENST00000331565|SLC6A17 REV__ENSG00000197106|ENST00000331565|SLC6A17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 825.4030151367188 2 825.402315 1648.79008 NaN NaN NaN NaN NaN NaN NaN 68.545 1 69.247 68.747 69.747 0.70218 0 0 0 1.0082 1 32685 32685 0 0 1 + 34012 14257 21552 21621 38276 38276 -0.00836586418290608 VFLFLRSL 8 Unmodified _VFLFLRSL_ 0 0 0 REV__nc|ENSG00000138942|Q96GF1-2|RNF185 REV__nc|ENSG00000138942|Q96GF1-2|RNF185 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.8752746582031 3 332.207656 993.601138 NaN NaN NaN NaN NaN NaN NaN 12.475 1 12.475 11.975 12.975 0 0 0 0 0.11842 1 5424 5424 49.933 13.806 1 + 34013 12200 21553 21622 38277 38277 0.10408129070549421 VFLKAGASF 9 Unmodified _VFLKAGASF_ 0 0 0 ENST00000368875.6_2_1:151298654-151299818:-|nuORF ENST00000368875.6_2_1:151298654-151299818:-|nuORF ENST00000368875.6_2_1:151298654-151299818:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.2698974609375 2 470.268553 938.522553 3.0696 0.0014435 0.11929 5.61E-05 3.1889 0.0014996 470.2685541265008 51.17 0.25998 51.17 51.048 51.308 0 23 12 2 0 0 0 0.02234 2 23404 23404;23455 65.235 31.048 1 1373100 34014 7286 21554 21623 38278;38279 38278 0.05083276765469691 VFLKAGASF 9 Unmodified _VFLKAGASF_ 0 0 0 ENST00000368875.6_2_1:151298654-151299818:-|nuORF ENST00000368875.6_2_1:151298654-151299818:-|nuORF ENST00000368875.6_2_1:151298654-151299818:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.2699890136719 2 470.268553 938.522553 2.8438 0.0013374 0.44595 0.00020972 3.2898 0.0015471 470.2687294355337 50.275 0.25525 51.098 50.989 51.244 0.82285 36 13 3 0 0 0 0.024388 2 22938 22887;22938 62.573 26.528 1 808460 34015 7286 21554 21623 38280;38281 38281 0.05083276765469691 VFLKAGASF 9 Unmodified _VFLKAGASF_ 0 0 0 ENST00000368875.6_2_1:151298654-151299818:-|nuORF ENST00000368875.6_2_1:151298654-151299818:-|nuORF ENST00000368875.6_2_1:151298654-151299818:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.269775390625 2 470.268553 938.522553 2.7397 0.0012884 0.048492 2.2804E-05 2.7882 0.0013112 470.26844172672287 51.11 0.19645 51.371 51.234 51.43 0.26146 12 7 2 0 0 0 0.19064 1 23375 23375 24.021 4.5816 1 364170 34016 7286 21554 21623 38282 38282 0.05083276765469691 VFLKAGASF 9 Unmodified _VFLKAGASF_ 0 0 0 ENST00000368875.6_2_1:151298654-151299818:-|nuORF ENST00000368875.6_2_1:151298654-151299818:-|nuORF ENST00000368875.6_2_1:151298654-151299818:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.2700500488281 2 470.268553 938.522553 2.8449 0.0013379 0.4749 0.00022333 3.3198 0.0015612 470.26868845146055 50.412 0.28065 51.07 50.895 51.175 0.65735 21 12 2 0 0 0 0.093314 1 23022 23022 34.402 9.7278 1 364830 34017 7286 21554 21623 38283 38283 0.05083276765469691 VFLKAGASF 9 Unmodified _VFLKAGASF_ 0 0 0 ENST00000368875.6_2_1:151298654-151299818:-|nuORF ENST00000368875.6_2_1:151298654-151299818:-|nuORF ENST00000368875.6_2_1:151298654-151299818:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 470.268553 938.522553 2.7397 0.0012884 0.048492 2.2804E-05 2.7882 0.0013112 470.26844172672287 51.11 0.19645 51.371 51.234 51.43 0.26146 0.194 -0.00020809 NaN 65.235 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 364170 34018 7286 21554 21623 0.05083276765469691 VFLLLILLFLL 11 Unmodified _VFLLLILLFLL_ 0 0 0 REV__nc|ENSG00000138119|Q9NZM1-2|MYOF REV__nc|ENSG00000138119|Q9NZM1-2|MYOF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 658.9524536132812 2 658.951436 1315.88832 NaN NaN NaN NaN NaN NaN NaN 33.19 1 33.19 32.69 33.69 0 0 0 0 1.0082 1 15033 15033 0 0 1 + 34019 12150 21555 21624 38284 38284 0.24300965169231858 VFLLLYRL 8 Unmodified _VFLLLYRL_ 0 0 0 nc|ENSG00000147036|Q6ZV70-2|LANCL3;ENSG00000147036|ENST00000378619|LANCL3 nc|ENSG00000147036|Q6ZV70-2|LANCL3 nc|ENSG00000147036|Q6ZV70-2|LANCL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 346.2230529785156 3 346.223306 1035.64809 2.3227 0.00080418 2.3664 0.00081929 4.6891 0.0016235 346.2223807679465 18.655 0.24791 18.953 18.751 18.999 0.29753 95 33 4 0 0 0 0.73686 2 8415 8415;8457 1.8442 0 1 6552900 34020 3541 21556 21625 38285;38286 38285 0.1316898862171456 VFLLNFILMSI 11 Unmodified _VFLLNFILMSI_ 0 0 0 REV__ENSG00000144820|ENST00000273352|ADGRG7 REV__ENSG00000144820|ENST00000273352|ADGRG7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 655.3856201171875 2 655.38306 1308.75157 4.2599 0.0027919 -0.92524 -0.00060639 3.3347 0.0021855 655.3822629521279 91.668 1.0125 91.92 91.423 92.436 0.25164 115 47 3 0 0 0 0.91345 2 41996 41996;42249 0.30703 0.03801 1 1574000 + 34021 12415 21557 21626 38287;38288 38287 0.10954107947213743 VFLLNFILMSI 11 Unmodified _VFLLNFILMSI_ 0 0 0 REV__ENSG00000144820|ENST00000273352|ADGRG7 REV__ENSG00000144820|ENST00000273352|ADGRG7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 655.3856201171875 2 655.38306 1308.75157 4.1189 0.0026995 -0.79008 -0.0005178 3.3288 0.0021817 655.3822800861057 91.255 1.3304 91.917 91.214 92.545 0.66198 143 67 3 0 0 0 0.91345 2 41849 41849;41898 0.30703 0 1 1736400 + 34022 12415 21557 21626 38289;38290 38289 0.10954107947213743 VFLLNFILMSI 11 Unmodified _VFLLNFILMSI_ 0 0 0 REV__ENSG00000144820|ENST00000273352|ADGRG7 REV__ENSG00000144820|ENST00000273352|ADGRG7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 655.3856201171875 2 655.38306 1308.75157 4.1317 0.0027078 -1.1013 -0.0007218 3.0303 0.001986 655.3821735584208 93.374 1.2711 94.005 93.31 94.581 0.63115 139 63 4 0 0 0 0.91345 1 42692 42692 0.30703 0 1 4289700 + 34023 12415 21557 21626 38291 38291 0.10954107947213743 VFLTKQKK 8 Unmodified _VFLTKQKK_ 0 0 0 REV__ENST00000399799.2_1_18:18619516-18622115:-|nuORF REV__ENST00000399799.2_1_18:18619516-18622115:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.31744384765625 2 496.318577 990.622602 NaN NaN NaN NaN NaN NaN NaN 95.538 1 95.538 95.038 96.038 0 0 0 0 0.99035 1 51468 51468 4.756 0.42677 1 + 34024 16036 21558 21627 38292 38292 0.12691514099276446 VFLVASRRI 9 Unmodified _VFLVASRRI_ 0 0 0 REV__nc|ENSG00000101353|Q9H579-2|MROH8 REV__nc|ENSG00000101353|Q9H579-2|MROH8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.7990112304688 2 530.834926 1059.6553 NaN NaN NaN NaN NaN NaN NaN 88.499 1 88.552 88.052 89.052 0.052155 0 0 0 0.89315 1 45090 45090 5.2307 0 1 + 34025 10890 21559 21628 38293 38293 0.12785721222144275 VFNDVRLLL 9 Unmodified _VFNDVRLLL_ 0 0 0 ENST00000485542.5_1_1:113162466-113192092:+|nuORF;ENST00000476936.5_1_1:113162466-113209756:+|nuORF;ENST00000464669.1_1_7:116502674-116546397:+|nuORF;nc|ENSG00000198898|P47755-2|CAPZA2;ENSG00000198898|ENST00000361183|CAPZA2;ENSG00000116489|ENST00000263168|CAPZA1 ENST00000485542.5_1_1:113162466-113192092:+|nuORF ENST00000485542.5_1_1:113162466-113192092:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.8280639648438 2 544.826766 1087.63898 3.008 0.0016388 0.17186 9.3635E-05 3.1798 0.0017325 544.8267445390067 77.624 0.23128 77.624 77.518 77.749 0 30 17 2 0 0 0 0.049036 1 38096 38096 47.594 19.108 1 1115000 34026 2030 21560 21629 38294 38294 0.09866595265384603 VFNDVRLLL 9 Unmodified _VFNDVRLLL_ 0 0 0 ENST00000485542.5_1_1:113162466-113192092:+|nuORF;ENST00000476936.5_1_1:113162466-113209756:+|nuORF;ENST00000464669.1_1_7:116502674-116546397:+|nuORF;nc|ENSG00000198898|P47755-2|CAPZA2;ENSG00000198898|ENST00000361183|CAPZA2;ENSG00000116489|ENST00000263168|CAPZA1 ENST00000485542.5_1_1:113162466-113192092:+|nuORF ENST00000485542.5_1_1:113162466-113192092:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.8285522460938 2 544.826766 1087.63898 2.6063 0.00142 1.4349 0.00078178 4.0412 0.0022018 545.3289373723157 76.557 0.23984 77.181 77.086 77.326 0.62398 22 13 2 0 0 0 0.022157 1 37128 37128 65.474 14.619 1 2005900 34027 2030 21560 21629 38295 38295 0.09866595265384603 VFNDVRLLL 9 Unmodified _VFNDVRLLL_ 0 0 0 ENST00000485542.5_1_1:113162466-113192092:+|nuORF;ENST00000476936.5_1_1:113162466-113209756:+|nuORF;ENST00000464669.1_1_7:116502674-116546397:+|nuORF;nc|ENSG00000198898|P47755-2|CAPZA2;ENSG00000198898|ENST00000361183|CAPZA2;ENSG00000116489|ENST00000263168|CAPZA1 ENST00000485542.5_1_1:113162466-113192092:+|nuORF ENST00000485542.5_1_1:113162466-113192092:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.82958984375 2 544.826766 1087.63898 3.3547 0.0018277 0.12665 6.9005E-05 3.4814 0.0018967 544.8267626942998 77.352 0.26907 77.607 77.464 77.733 0.25533 36 18 3 0 0 0 0.030603 2 35603 35603;35652 55.503 18.997 1 659120 34028 2030 21560 21629 38296;38297 38296 0.09866595265384603 VFNDVRLLL 9 Unmodified _VFNDVRLLL_ 0 0 0 ENST00000485542.5_1_1:113162466-113192092:+|nuORF;ENST00000476936.5_1_1:113162466-113209756:+|nuORF;ENST00000464669.1_1_7:116502674-116546397:+|nuORF;nc|ENSG00000198898|P47755-2|CAPZA2;ENSG00000198898|ENST00000361183|CAPZA2;ENSG00000116489|ENST00000263168|CAPZA1 ENST00000485542.5_1_1:113162466-113192092:+|nuORF ENST00000485542.5_1_1:113162466-113192092:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 544.826766 1087.63898 3.2303 0.0017599 0.30186 0.00016446 3.5321 0.0019244 545.3290746366126 76.812 0.22955 77.475 77.389 77.619 0.66303 -0.093751 0.00012037 NaN 55.503 32 20 2 NaN NaN NaN NaN 0 NaN NaN 0 720000 34029 2030 21560 21629 0.09866595265384603 VFNKKHLL 8 Unmodified _VFNKKHLL_ 0 0 0 ENSG00000083844|ENST00000263095|ZNF264 ENSG00000083844|ENST00000263095|ZNF264 ENSG00000083844|ENST00000263095|ZNF264 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 333.5440673828125 3 333.543038 997.607286 2.2171 0.0007395 0.45118 0.00015049 2.6683 0.00088999 333.54321077534286 17.441 0.36682 17.743 17.571 17.938 0.30159 35 25 2 0 0 0 0.62895 1 7911 7911 11.64 3.7301 1 169500 34030 944 21561 21630 38298 38298 0.10838647302091431 VFNKKHLL 8 Unmodified _VFNKKHLL_ 0 0 0 ENSG00000083844|ENST00000263095|ZNF264 ENSG00000083844|ENST00000263095|ZNF264 ENSG00000083844|ENST00000263095|ZNF264 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 333.54400634765625 3 333.543038 997.607286 2.2994 0.00076695 0.35502 0.00011841 2.6544 0.00088537 333.5431477827643 17.448 0.2739 18.109 17.917 18.19 0.66072 33 20 2 0 0 0 0.63902 1 7846 7846 10.824 6.4947 1 316000 34031 944 21561 21630 38299 38299 0.10838647302091431 VFPDKGYSF 9 Unmodified _VFPDKGYSF_ 0 0 0 ENST00000477415.5_1_2:70443338-70451751:-|nuORF;ENST00000482876.5_1_2:70442329-70444102:-|nuORF;nc|ENSG00000116001|P31483-2|TIA1;ENSG00000116001|ENST00000433529|TIA1 ENST00000477415.5_1_2:70443338-70451751:-|nuORF ENST00000477415.5_1_2:70443338-70451751:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.2623901367188 2 530.260925 1058.5073 3.3163 0.0017585 -0.64456 -0.00034178 2.6717 0.0014167 530.2603183245171 51.057 1.1033 51.057 50.68 51.783 0 160 59 3 0 0 0 0.029308 6 23469 23371;23418;23469;23514;23570;23617 56.177 32.156 1 2153800 34032 2005 21562 21631 38300;38301;38302;38303;38304;38305 38302 -0.019616348223962632 VFPDKGYSF 9 Unmodified _VFPDKGYSF_ 0 0 0 ENST00000477415.5_1_2:70443338-70451751:-|nuORF;ENST00000482876.5_1_2:70442329-70444102:-|nuORF;nc|ENSG00000116001|P31483-2|TIA1;ENSG00000116001|ENST00000433529|TIA1 ENST00000477415.5_1_2:70443338-70451751:-|nuORF ENST00000477415.5_1_2:70443338-70451751:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.2615356445312 2 530.260925 1058.5073 3.1037 0.0016458 -1.6396 -0.00086941 1.4641 0.00077637 530.259815689717 50.456 1.1631 51.279 50.526 51.689 0.82285 142 57 3 0 0 0 0.063575 9 22763 22708;22763;22822;22871;22921;22974;23017;23068;23119 41.84 18.691 1 1701000 34033 2005 21562 21631 38306;38307;38308;38309;38310;38311;38312;38313;38314 38307 -0.019616348223962632 VFPDKGYSF 9 Unmodified _VFPDKGYSF_ 0 0 0 ENST00000477415.5_1_2:70443338-70451751:-|nuORF;ENST00000482876.5_1_2:70442329-70444102:-|nuORF;nc|ENSG00000116001|P31483-2|TIA1;ENSG00000116001|ENST00000433529|TIA1 ENST00000477415.5_1_2:70443338-70451751:-|nuORF ENST00000477415.5_1_2:70443338-70451751:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.26220703125 2 530.260925 1058.5073 3.0358 0.0016098 0.069518 3.6863E-05 3.1054 0.0016466 530.2607830863723 51.319 0.75454 51.581 51.196 51.95 0.26228 65 35 2 0 0 0 0.093314 6 23477 23336;23400;23477;23534;23553;23592 34.402 11.253 1 1459900 34034 2005 21562 21631 38315;38316;38317;38318;38319;38320 38317 -0.019616348223962632 VFPDKGYSF 9 Unmodified _VFPDKGYSF_ 0 0 0 ENST00000477415.5_1_2:70443338-70451751:-|nuORF;ENST00000482876.5_1_2:70442329-70444102:-|nuORF;nc|ENSG00000116001|P31483-2|TIA1;ENSG00000116001|ENST00000433529|TIA1 ENST00000477415.5_1_2:70443338-70451751:-|nuORF ENST00000477415.5_1_2:70443338-70451751:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.2615356445312 2 530.260925 1058.5073 3.1362 0.001663 0.1963 0.00010409 3.3325 0.0017671 530.2609735580129 50.736 0.94329 51.395 50.835 51.778 0.65956 112 48 3 0 0 0 0.063575 6 23063 23063;23113;23160;23217;23258;23311 41.84 20.093 1 1473700 34035 2005 21562 21631 38321;38322;38323;38324;38325;38326 38321 -0.019616348223962632 VFPEKGYSF 9 Unmodified _VFPEKGYSF_ 0 0 0 ENST00000497671.5_1_10:121335179-121339984:-|nuORF;ENSG00000151923|ENST00000436547|TIAL1;nc|ENSG00000151923|Q01085-2|TIAL1;ENST00000489822.5_1_10:121336540-121356247:-|nuORF ENST00000497671.5_1_10:121335179-121339984:-|nuORF ENST00000497671.5_1_10:121335179-121339984:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.2702026367188 2 537.26875 1072.52295 3.1118 0.0016719 0.56882 0.00030561 3.6806 0.0019775 537.2690064515413 50.595 1.942 50.595 49.324 51.266 0 279 95 4 0 0 0 0.043585 6 22913 22752;22807;22913;23129;23180;23291 49.933 14.431 1 5080000 34036 3732 21563 21632 38327;38328;38329;38330;38331;38332 38329 -0.010413483053298478 VFPEKGYSF 9 Unmodified _VFPEKGYSF_ 0 0 0 ENST00000497671.5_1_10:121335179-121339984:-|nuORF;ENSG00000151923|ENST00000436547|TIAL1;nc|ENSG00000151923|Q01085-2|TIAL1;ENST00000489822.5_1_10:121336540-121356247:-|nuORF ENST00000497671.5_1_10:121335179-121339984:-|nuORF ENST00000497671.5_1_10:121335179-121339984:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.2696533203125 2 537.26875 1072.52295 NaN NaN NaN NaN NaN NaN NaN 51.182 1 51.182 50.682 51.682 0 0 0 0 0.65681 1 23435 23435 13.906 2.2658 1 34037 3732 21563 21632 38333 38333 -0.010413483053298478 VFPEKGYSF 9 Unmodified _VFPEKGYSF_ 0 0 0 ENST00000497671.5_1_10:121335179-121339984:-|nuORF;ENSG00000151923|ENST00000436547|TIAL1;nc|ENSG00000151923|Q01085-2|TIAL1;ENST00000489822.5_1_10:121336540-121356247:-|nuORF ENST00000497671.5_1_10:121335179-121339984:-|nuORF ENST00000497671.5_1_10:121335179-121339984:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.2706298828125 2 537.26875 1072.52295 3.1573 0.0016963 0.27478 0.00014763 3.4321 0.001844 537.2687623798614 49.111 1.8441 49.938 49.089 50.933 0.82705 309 95 4 0 0 0 0.027384 7 22378 22235;22280;22378;22477;22539;22686;22743 58.679 12.655 1 3693200 34038 3732 21563 21632 38334;38335;38336;38337;38338;38339;38340 38336 -0.010413483053298478 VFPEKGYSF 9 Unmodified _VFPEKGYSF_ 0 0 0 ENST00000497671.5_1_10:121335179-121339984:-|nuORF;ENSG00000151923|ENST00000436547|TIAL1;nc|ENSG00000151923|Q01085-2|TIAL1;ENST00000489822.5_1_10:121336540-121356247:-|nuORF ENST00000497671.5_1_10:121335179-121339984:-|nuORF ENST00000497671.5_1_10:121335179-121339984:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.271484375 2 537.26875 1072.52295 2.984 0.0016032 0.8447 0.00045383 3.8287 0.002057 537.2691086268063 50.079 1.8338 50.34 49.615 51.449 0.26146 214 79 3 0 0 0 0.048676 7 23044 22658;22709;22884;23044;23093;23158;23256 47.749 13.353 1 3161600 34039 3732 21563 21632 38341;38342;38343;38344;38345;38346;38347 38344 -0.010413483053298478 VFPEKGYSF 9 Unmodified _VFPEKGYSF_ 0 0 0 ENST00000497671.5_1_10:121335179-121339984:-|nuORF;ENSG00000151923|ENST00000436547|TIAL1;nc|ENSG00000151923|Q01085-2|TIAL1;ENST00000489822.5_1_10:121336540-121356247:-|nuORF ENST00000497671.5_1_10:121335179-121339984:-|nuORF ENST00000497671.5_1_10:121335179-121339984:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.2703857421875 2 537.26875 1072.52295 3.2837 0.0017642 0.7736 0.00041563 4.0573 0.0021799 537.2690530927385 49.693 1.8375 50.35 49.5 51.338 0.65735 198 74 4 0 0 0 0.027384 9 22573 22462;22520;22573;22631;22734;22837;22897;22955;23126 58.679 22.635 1 3588700 34040 3732 21563 21632 38348;38349;38350;38351;38352;38353;38354;38355;38356 38350 -0.010413483053298478 VFPIMPPL 8 Unmodified _VFPIMPPL_ 0 0 0 REV__ENST00000381072.5_1_10:3176693-3177972:+|nuORF REV__ENST00000381072.5_1_10:3176693-3177972:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 457.265869140625 2 457.264425 912.514297 3.1348 0.0014335 0.17549 8.0245E-05 3.3103 0.0015137 457.26442028878307 89.833 0.37317 90.084 89.848 90.221 0.25137 40 16 3 0 0 0 0.73686 1 41314 41314 2.8892 0.82947 1 2189600 + 34041 15891 21564 21633 38357 38357 0.054540065244850666 VFPLALLP 8 Unmodified _VFPLALLP_ 0 0 0 ENST00000527591.5_1_14:61453838-61514994:+|nuORF;ENSG00000139974|ENST00000267488|SLC38A6;ENST00000529345.6_1_14:61448346-61550389:+|nuORF;nc|ENSG00000139974|Q8IZM9-2|SLC38A6 ENST00000527591.5_1_14:61453838-61514994:+|nuORF ENST00000527591.5_1_14:61453838-61514994:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 435.2802429199219 2 435.278389 868.542226 NaN NaN NaN NaN NaN NaN NaN 71.748 1 71.748 71.248 72.248 0 0 0 0 0.99035 1 34880 34880 2.8892 0 1 34042 3173 21565 21634 38358 38358 0.10269652776241855 VFPTRTARF 9 Unmodified _VFPTRTARF_ 0 0 0 ENSG00000213339|ENST00000250237|QTRT1 ENSG00000213339|ENST00000250237|QTRT1 ENSG00000213339|ENST00000250237|QTRT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 365.5426025390625 3 365.541697 1093.60326 2.865 0.0010473 0.083934 3.0682E-05 2.9489 0.0010779 365.5417718423499 31.357 0.29548 31.357 31.209 31.504 0 43 27 2 0 0 0 0.67336 2 14154 14154;14209 9.544 1.3884 1 496980 34043 6088 21566 21635 38359;38360 38359 0.060205578083468936 VFPTRTARF 9 Unmodified _VFPTRTARF_ 0 0 0 ENSG00000213339|ENST00000250237|QTRT1 ENSG00000213339|ENST00000250237|QTRT1 ENSG00000213339|ENST00000250237|QTRT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 365.87701416015625 3 365.541697 1093.60326 2.506 0.00091603 -0.057032 -2.0847E-05 2.4489 0.00089519 365.5416344531156 30.431 0.53016 31.22 30.942 31.472 0.78921 76 44 2 0 0 0 0.30351 1 13797 13797 16.566 1.3174 1 277460 34044 6088 21566 21635 38361 38361 0.060205578083468936 VFPTRTARF 9 Unmodified _VFPTRTARF_ 0 0 0 ENSG00000213339|ENST00000250237|QTRT1 ENSG00000213339|ENST00000250237|QTRT1 ENSG00000213339|ENST00000250237|QTRT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.5431823730469 3 365.541697 1093.60326 3.1586 0.0011546 -0.25292 -9.2452E-05 2.9057 0.0010622 365.54165872038317 31.262 0.5154 31.518 31.263 31.778 0.25614 59 38 2 0 0 0 0.70688 1 14198 14198 8.9762 0 1 412100 34045 6088 21566 21635 38362 38362 0.060205578083468936 VFPTRTARF 9 Unmodified _VFPTRTARF_ 0 0 0 ENSG00000213339|ENST00000250237|QTRT1 ENSG00000213339|ENST00000250237|QTRT1 ENSG00000213339|ENST00000250237|QTRT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.54315185546875 3 365.541697 1093.60326 2.5905 0.00094695 0.074437 2.721E-05 2.665 0.00097416 365.5418210114931 30.7 0.45493 31.317 31.17 31.625 0.61737 40 26 2 0 0 0 0.7383 1 14148 14148 8.4443 0.28878 1 556690 34046 6088 21566 21635 38363 38363 0.060205578083468936 VFQALQRL 8 Unmodified _VFQALQRL_ 0 0 0 nc|ENSG00000131652|Q86W42-3|THOC6;ENSG00000131652|ENST00000326266|THOC6;ENST00000574957.1_1_16:3074279-3075849:+|nuORF;ENST00000576143.5_1_16:3074279-3076060:+|nuORF;ENST00000571046.1_1_16:3074279-3076290:+|nuORF;ENST00000574498.5_1_16:3074279-3076221:+|nuORF nc|ENSG00000131652|Q86W42-3|THOC6 nc|ENSG00000131652|Q86W42-3|THOC6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 325.53118896484375 3 325.53091 973.5709 2.0099 0.00065429 -0.16488 -5.3674E-05 1.845 0.00060062 325.5308397575439 24.614 0.24505 25.35 25.269 25.514 0.73623 47 34 2 0 0 0 0.26384 1 11023 11023 30.637 0 1 1664700 34047 2668 21567 21636 38364 38364 0.08305770405377189 VFQQKTARR 9 Unmodified _VFQQKTARR_ 0 0 0 nc|ENSG00000153064|Q8NDB2-4|BANK1;nc|ENSG00000153064|Q8NDB2-3|BANK1;nc|ENSG00000153064|Q8NDB2-2|BANK1;ENSG00000153064|ENST00000322953|BANK1 nc|ENSG00000153064|Q8NDB2-4|BANK1 nc|ENSG00000153064|Q8NDB2-4|BANK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.3325805664062 2 567.330539 1132.64652 3.7225 0.0021119 -1.3295 -0.00075429 2.393 0.0013576 567.32965142827 83.203 1.0842 83.864 83.341 84.425 0.66019 144 64 3 0 0 0 1.1154 1 38208 38208 2.0598 0 1 955650 34048 3769 21568 21637 38365 38365 0.08550747585650242 VFREATTEF 9 Unmodified _VFREATTEF_ 0 0 0 ENSG00000196924|ENST00000369850|FLNA;nc|ENSG00000196924|P21333-2|FLNA ENSG00000196924|ENST00000369850|FLNA ENSG00000196924|ENST00000369850|FLNA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.2770385742188 2 550.274564 1098.53457 NaN NaN NaN NaN NaN NaN NaN 39.245 1 40.043 39.543 40.543 0.79762 0 0 0 0.19548 1 17769 17769 31.268 17.362 1 34049 5785 21569 21638 38366 38366 -0.010751512820206699 VFREATTEF 9 Unmodified _VFREATTEF_ 0 0 0 ENSG00000196924|ENST00000369850|FLNA;nc|ENSG00000196924|P21333-2|FLNA ENSG00000196924|ENST00000369850|FLNA ENSG00000196924|ENST00000369850|FLNA MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.3001708984375 2 550.274564 1098.53457 3.7282 0.0020516 0.16605 9.1372E-05 3.8943 0.0021429 550.7764417864081 39.756 0.21228 40.398 40.277 40.489 0.64136 13 8 2 0 0 0 0.0089518 1 18180 18180 55.503 33.756 1 380370 34050 5785 21569 21638 38367 38367 -0.010751512820206699 VFRFFLARKQ 10 Unmodified _VFRFFLARKQ_ 0 0 0 REV__nc|ENSG00000196367|Q9Y4A5-2|TRRAP REV__nc|ENSG00000196367|Q9Y4A5-2|TRRAP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.8595886230469 4 328.697567 1310.76116 2.2441 0.00073762 0.10744 3.5316E-05 2.3515 0.00077294 328.94835397126496 40.678 0.40072 40.678 40.493 40.894 0 33 24 2 0 0 0 0.12676 1 18529 18529 3.5871 0 1 2221800 + 34051 14208 21570 21639 38368 38368 0.11821057067595575 VFRFFLARKQ 10 Unmodified _VFRFFLARKQ_ 0 0 0 REV__nc|ENSG00000196367|Q9Y4A5-2|TRRAP REV__nc|ENSG00000196367|Q9Y4A5-2|TRRAP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.8600769042969 4 328.697567 1310.76116 2.2854 0.00075121 0.14283 4.6947E-05 2.4282 0.00079816 328.69760274085473 39.961 0.52171 40.761 40.353 40.875 0.80014 39 28 2 0 0 0 0.12676 1 18043 18043 3.5871 3.5871 1 1355600 + 34052 14208 21570 21639 38369 38369 0.11821057067595575 VFRFFLARKQ 10 Unmodified _VFRFFLARKQ_ 0 0 0 REV__nc|ENSG00000196367|Q9Y4A5-2|TRRAP REV__nc|ENSG00000196367|Q9Y4A5-2|TRRAP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.8601379394531 4 328.697567 1310.76116 2.5249 0.00082992 0.14653 4.8165E-05 2.6714 0.00087809 328.6975234318764 40.378 0.48174 40.647 40.382 40.863 0.26904 29 16 2 0 0 0 0.12676 1 18431 18431 6.1918 2.3155 1 1271800 + 34053 14208 21570 21639 38370 38370 0.11821057067595575 VFRKKIILN 9 Unmodified _VFRKKIILN_ 0 0 0 REV__ENSG00000172775|ENST00000309137|PSME3IP1 REV__ENSG00000172775|ENST00000309137|PSME3IP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.3761596679688 2 565.874051 1129.73355 2.489 0.0014085 0.46389 0.0002625 2.9529 0.001671 566.3761802183205 89.943 0.038055 90.007 89.988 90.026 0.064346 5 4 2 0 0 0 1.1154 1 46225 46225 2.0598 0 1 12851000 + 34054 13561 21571 21640 38371 38371 0.17387153807385403 VFRLQFDEF 9 Unmodified _VFRLQFDEF_ 0 0 0 nc|ENSG00000072803|Q9UKB1-2|FBXW11;nc|ENSG00000072803|Q9UKB1-3|FBXW11;nc|ENSG00000072803|Q9UKB1|FBXW11;ENSG00000072803|ENST00000517395|FBXW11;nc|ENSG00000166167|Q9Y297-2|BTRC;ENSG00000166167|ENST00000370187|BTRC nc|ENSG00000072803|Q9UKB1-2|FBXW11 nc|ENSG00000072803|Q9UKB1-2|FBXW11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 600.809814453125 2 600.806031 1199.59751 3.5467 0.0021309 0.059116 3.5517E-05 3.6058 0.0021664 600.806015510639 77.031 0.23409 77.287 77.168 77.402 0.25533 33 20 2 0 0 0 0.0017071 1 35499 35499 107.19 107.19 1 877010 34055 796 21572 21641 38372 38372 0.005694145060488154 VFRLQFDEF 9 Unmodified _VFRLQFDEF_ 0 0 0 nc|ENSG00000072803|Q9UKB1-2|FBXW11;nc|ENSG00000072803|Q9UKB1-3|FBXW11;nc|ENSG00000072803|Q9UKB1|FBXW11;ENSG00000072803|ENST00000517395|FBXW11;nc|ENSG00000166167|Q9Y297-2|BTRC;ENSG00000166167|ENST00000370187|BTRC nc|ENSG00000072803|Q9UKB1-2|FBXW11 nc|ENSG00000072803|Q9UKB1-2|FBXW11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 600.8072509765625 2 600.806031 1199.59751 3.6129 0.0021707 0.46349 0.00027847 4.0764 0.0024491 600.8060190489343 76.567 0.18472 77.231 77.104 77.289 0.66387 33 14 3 0 0 0 0.0029142 1 35259 35259 96.111 65.474 1 940960 34056 796 21572 21641 38373 38373 0.005694145060488154 VFRNESVHPF 10 Unmodified _VFRNESVHPF_ 0 0 0 ENSG00000144619|ENST00000418658|CNTN4;nc|ENSG00000144619|Q8IWV2-2|CNTN4;ENST00000484686.1_1_3:3081693-3097901:+|nuORF;nc|ENSG00000144619|Q8IWV2-3|CNTN4;nc|ENSG00000144619|Q8IWV2-4|CNTN4 ENSG00000144619|ENST00000418658|CNTN4 ENSG00000144619|ENST00000418658|CNTN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 616.31396484375 2 616.314554 1230.61456 NaN NaN NaN NaN NaN NaN NaN 60.371 1 61.036 60.536 61.536 0.66503 0 0 0 0.94673 1 27641 27641 13.906 1.3745 1 34057 3437 21573 21642 38374 38374 0.008473351118254868 VFRPEQDP 8 Unmodified _VFRPEQDP_ 0 0 0 nc|ENSG00000116698|Q92540-2|SMG7;nc|ENSG00000116698|Q92540|SMG7;nc|ENSG00000116698|Q92540-5|SMG7;nc|ENSG00000116698|Q92540-4|SMG7;ENSG00000116698|ENST00000688051|SMG7 nc|ENSG00000116698|Q92540-2|SMG7 nc|ENSG00000116698|Q92540-2|SMG7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.24993896484375 2 494.248349 986.482145 3.3482 0.0016548 0.54066 0.00026722 3.8888 0.0019221 494.2485737367125 37.462 0.28439 37.723 37.572 37.856 0.26083 13 8 2 0 0 0 0.61796 1 17094 17094 12.532 1.7076 1 401040 34058 2043 21574 21643 38375 38375 -0.011636896249569872 VFRRRRGPR 9 Unmodified _VFRRRRGPR_ 0 0 0 REV__ENST00000502486.5_2_4:42153705-42154329:-|nuORF REV__ENST00000502486.5_2_4:42153705-42154329:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 600.3687744140625 2 600.370864 1198.72718 NaN NaN NaN NaN NaN NaN NaN 63.443 1 63.691 63.191 64.191 0.24803 0 0 0 0.90611 1 29055 29055 2.0598 0 1 + 34059 16890 21575 21644 38376 38376 0.13576073419221757 VFRVVRLFGLV 11 Unmodified _VFRVVRLFGLV_ 0 0 0 REV__ENSG00000131398|ENST00000477616|KCNC3 REV__ENSG00000131398|ENST00000477616|KCNC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 435.6111145019531 3 435.611564 1303.81286 NaN NaN NaN NaN NaN NaN NaN 69.244 1 69.947 69.447 70.447 0.70218 0 0 0 1.0071 1 33126 33126 1.4551 0.75745 1 + 34060 11858 21576 21645 38377 38377 0.17310800761492828 VFSEQFDTT 9 Unmodified _VFSEQFDTT_ 0 0 0 REV__nc|ENSG00000141905|P08651-4|NFIC REV__nc|ENSG00000141905|P08651-4|NFIC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.2449340820312 2 537.242929 1072.47131 NaN NaN NaN NaN NaN NaN NaN 66.813 1 67.469 66.969 67.969 0.65672 0 0 0 0.82031 1 30629 30629 8.5933 0.68312 1 + 34061 12307 21577 21646 38378 38378 -0.06203136789895325 VFSKKKVPSK 10 Unmodified _VFSKKKVPSK_ 0 0 0 REV__ENSG00000134115|ENST00000446702|CNTN6 REV__ENSG00000134115|ENST00000446702|CNTN6 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 574.7255249023438 2 574.363516 1146.71248 2.6769 0.0015375 -2.3185 -0.0013317 0.35842 0.00020586 574.3625892577918 86.045 0.050461 86.075 86.037 86.088 0.030289 8 6 2 0 0 0 0.12676 1 43180 43180 1.3295 0.13619 1 13858000 + 34062 11953 21578 21647 38379 38379 0.14499143707848816 VFTEVANLF 9 Unmodified _VFTEVANLF_ 0 0 0 ENSG00000127511|ENST00000248054|SIN3B;nc|ENSG00000127511|O75182|SIN3B;nc|ENSG00000127511|O75182-3|SIN3B;SIN3B|p.P553Rfs*19|1|0.19|ENSG00000127511|chr19:16865585-16865585|C/-|frameshift_variant ENSG00000127511|ENST00000248054|SIN3B ENSG00000127511|ENST00000248054|SIN3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.2792358398438 2 520.276575 1038.5386 3.5268 0.0018349 0.15005 7.8066E-05 3.6769 0.001913 520.7778815634986 86.88 0.267 87.556 87.428 87.695 0.67555 16 10 2 0 0 0 0.15661 1 40053 40053 36.044 17.909 1 796670 34063 2483 21579 21648 38380 38380 0.020869382116870838 VFTEVANLF 9 Unmodified _VFTEVANLF_ 0 0 0 ENSG00000127511|ENST00000248054|SIN3B;nc|ENSG00000127511|O75182|SIN3B;nc|ENSG00000127511|O75182-3|SIN3B;SIN3B|p.P553Rfs*19|1|0.19|ENSG00000127511|chr19:16865585-16865585|C/-|frameshift_variant ENSG00000127511|ENST00000248054|SIN3B ENSG00000127511|ENST00000248054|SIN3B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 520.276575 1038.5386 3.6093 0.0018778 -0.34858 -0.00018136 3.2607 0.0016965 520.2763548142538 87.47 0.26427 87.72 87.533 87.797 0.25064 0.082205 -0.00010878 NaN 36.044 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 396810 34064 2483 21579 21648 0.020869382116870838 VFTLKPLEF 9 Unmodified _VFTLKPLEF_ 0 0 0 ENST00000477541.1_1_6:32916643-32917850:-|nuORF;nc|ENSG00000204257|P28067|HLA-DMA;ENSG00000204257|ENST00000374843|HLA-DMA ENST00000477541.1_1_6:32916643-32917850:-|nuORF ENST00000477541.1_1_6:32916643-32917850:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.3190307617188 2 547.318243 1092.62193 3.4174 0.0018704 -0.43129 -0.00023605 2.9861 0.0016344 547.3175875078874 78.063 0.24386 78.316 78.2 78.443 0.25335 24 14 2 0 0 0 0.0079462 1 35943 35943 85.642 41.783 1 768200 34065 5995 21580 21649 38381 38381 0.07932674659582517 VFTLKPLEF 9 Unmodified _VFTLKPLEF_ 0 0 0 ENST00000477541.1_1_6:32916643-32917850:-|nuORF;nc|ENSG00000204257|P28067|HLA-DMA;ENSG00000204257|ENST00000374843|HLA-DMA ENST00000477541.1_1_6:32916643-32917850:-|nuORF ENST00000477541.1_1_6:32916643-32917850:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.3184204101562 2 547.318243 1092.62193 3.3698 0.0018444 -0.079832 -4.3693E-05 3.29 0.0018007 547.3177372657443 77.612 0.24847 78.275 78.155 78.403 0.66302 26 14 2 0 0 0 0.014491 2 35759 35750;35759 75.761 39.634 1 700140 34066 5995 21580 21649 38382;38383 38383 0.07932674659582517 VFTPVVQRI 9 Unmodified _VFTPVVQRI_ 0 0 0 nc|ENSG00000153815|Q8IY22-3|CMIP;nc|ENSG00000153815|Q8IY22-2|CMIP;ENSG00000153815|ENST00000537098|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.8233032226562 2 529.821484 1057.62842 3.552 0.0018819 -0.30684 -0.00016257 3.2451 0.0017193 529.8214656568442 53.873 0.25294 53.873 53.781 54.034 0 29 17 2 0 0 0 0.02234 1 24705 24705 65.235 25.278 1 1462100 34067 9694 21581 21650 38384 38384 0.10190612610949756 VFTPVVQRI 9 Unmodified _VFTPVVQRI_ 0 0 0 nc|ENSG00000153815|Q8IY22-3|CMIP;nc|ENSG00000153815|Q8IY22-2|CMIP;ENSG00000153815|ENST00000537098|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.822998046875 2 529.821484 1057.62842 2.9387 0.001557 -0.64332 -0.00034084 2.2954 0.0012162 529.8212946521588 52.951 0.22336 53.754 53.617 53.841 0.80351 27 14 2 0 0 0 0.015098 1 24109 24109 74.929 33.089 1 1142000 34068 9694 21581 21650 38385 38385 0.10190612610949756 VFTPVVQRI 9 Unmodified _VFTPVVQRI_ 0 0 0 nc|ENSG00000153815|Q8IY22-3|CMIP;nc|ENSG00000153815|Q8IY22-2|CMIP;ENSG00000153815|ENST00000537098|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.8223876953125 2 529.821484 1057.62842 3.226 0.0017092 -0.42437 -0.00022484 2.8016 0.0014843 529.820939564063 53.588 0.18091 53.852 53.752 53.932 0.26462 14 8 2 0 0 0 0.02234 1 24500 24500 65.235 23.395 1 1414200 34069 9694 21581 21650 38386 38386 0.10190612610949756 VFTPVVQRI 9 Unmodified _VFTPVVQRI_ 0 0 0 nc|ENSG00000153815|Q8IY22-3|CMIP;nc|ENSG00000153815|Q8IY22-2|CMIP;ENSG00000153815|ENST00000537098|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP nc|ENSG00000153815|Q8IY22-3|CMIP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.324951171875 2 529.821484 1057.62842 3.0927 0.0016386 -0.16374 -8.6755E-05 2.929 0.0015518 529.8213961184479 53.07 0.17272 53.734 53.641 53.813 0.6644 12 7 2 0 0 0 0.093314 1 24293 24293 34.402 7.5181 1 1633400 34070 9694 21581 21650 38387 38387 0.10190612610949756 VFTYVGALF 9 Unmodified _VFTYVGALF_ 0 0 0 nc|ENSG00000115310|Q9NQC3-4|RTN4;ENSG00000115310|ENST00000337526|RTN4;nc|ENSG00000115310|Q9NQC3-2|RTN4;nc|ENSG00000115310|Q9NQC3-5|RTN4;nc|ENSG00000115310|Q9NQC3-6|RTN4;nc|ENSG00000115310|Q9NQC3-3|RTN4 nc|ENSG00000115310|Q9NQC3-4|RTN4 nc|ENSG00000115310|Q9NQC3-4|RTN4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.7778625488281 2 508.776211 1015.53787 3.9377 0.0020034 -0.27388 -0.00013934 3.6638 0.0018641 508.776329048593 94.05 0.31933 94.31 94.171 94.49 0.25975 26 14 2 0 0 0 0.10245 2 43266 43206;43266 32.117 4.8573 1 510120 34071 1962 21582 21651 38388;38389 38389 0.030721435626787752 VFTYVGALF 9 Unmodified _VFTYVGALF_ 0 0 0 nc|ENSG00000115310|Q9NQC3-4|RTN4;ENSG00000115310|ENST00000337526|RTN4;nc|ENSG00000115310|Q9NQC3-2|RTN4;nc|ENSG00000115310|Q9NQC3-5|RTN4;nc|ENSG00000115310|Q9NQC3-6|RTN4;nc|ENSG00000115310|Q9NQC3-3|RTN4 nc|ENSG00000115310|Q9NQC3-4|RTN4 nc|ENSG00000115310|Q9NQC3-4|RTN4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.7781982421875 2 508.776211 1015.53787 3.5076 0.0017846 -0.49864 -0.0002537 3.0089 0.0015309 508.7762153834728 93.425 0.30402 94.056 93.936 94.24 0.63115 24 14 2 0 0 0 0.18075 1 42965 42965 24.674 11.166 1 396120 34072 1962 21582 21651 38390 38390 0.030721435626787752 VFVFLYLKAL 10 Unmodified _VFVFLYLKAL_ 0 0 0 ENST00000264930.9_2_5:1051864-1052263:-|nuORF ENST00000264930.9_2_5:1051864-1052263:-|nuORF ENST00000264930.9_2_5:1051864-1052263:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.8727416992188 2 606.873185 1211.73182 NaN NaN NaN NaN NaN NaN NaN 104.19 1 104.24 103.74 104.74 0.052994 0 0 0 1.0001 1 56428 56428 1.6526 0.32309 1 34073 6613 21583 21652 38391 38391 0.13442099998746926 VFVFVGIC 8 Unmodified _VFVFVGIC_ 0 0 0 ENST00000255977.6_2_7:140153158-140153341:-|nuORF ENST00000255977.6_2_7:140153158-140153341:-|nuORF ENST00000255977.6_2_7:140153158-140153341:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.2418518066406 2 442.24095 882.467346 3.2504 0.0014375 0.051202 2.2644E-05 3.3016 0.0014601 442.24086386424335 88.277 0.44981 88.956 88.703 89.153 0.67818 46 18 3 0 0 0 0.7471 1 40724 40724 0.79363 0 1 2861100 34074 6519 21584 21653 38392 38392 0.021411469733493504 VFVGKGITF 9 Unmodified _VFVGKGITF_ 0 0 0 ENST00000503467.1_1_4:17587853-17609209:+|nuORF;nc|ENSG00000002549|P28838-2|LAP3;ENSG00000002549|ENST00000226299|LAP3 ENST00000503467.1_1_4:17587853-17609209:+|nuORF ENST00000503467.1_1_4:17587853-17609209:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.2861328125 2 484.284203 966.553853 NaN NaN NaN NaN NaN NaN NaN 59.039 1 59.298 58.798 59.798 0.2593 0 0 0 0.1585 1 27037 27037 32.786 0.33204 1 34075 300 21585 21654 38393 38393 0.06923849799568416 VFVGKGITF 9 Unmodified _VFVGKGITF_ 0 0 0 ENST00000503467.1_1_4:17587853-17609209:+|nuORF;nc|ENSG00000002549|P28838-2|LAP3;ENSG00000002549|ENST00000226299|LAP3 ENST00000503467.1_1_4:17587853-17609209:+|nuORF ENST00000503467.1_1_4:17587853-17609209:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.28564453125 2 484.284203 966.553853 3.2173 0.0015581 0.57327 0.00027763 3.7906 0.0018357 484.28400051682297 58.419 0.19579 59.086 59.021 59.217 0.66703 20 9 3 0 0 0 0.099775 2 26761 26753;26761 32.786 9.6373 1 766820 34076 300 21585 21654 38394;38395 38395 0.06923849799568416 VFVKRDKL 8 Unmodified _VFVKRDKL_ 0 0 0 REV__ENST00000575131.5_1_17:4619273-4620589:+|nuORF REV__ENST00000575131.5_1_17:4619273-4620589:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.54766845703125 3 335.54656 1003.61785 2.2255 0.00074675 0.71457 0.00023977 2.9401 0.00098652 335.5467582329026 16.907 0.57841 17.211 16.923 17.501 0.30438 101 52 3 0 0 0 0.73686 1 7597 7597 1.8442 0.6509 1 174230 + 34077 12292 21586 21655 38396 38396 0.11618629956512905 VFVLLPKML 9 Unmodified _VFVLLPKML_ 0 0 0 REV__nc|ENSG00000149091|Q13574-1|DGKZ;REV__ENSG00000157680|ENST00000614521|DGKI REV__nc|ENSG00000149091|Q13574-1|DGKZ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.29931640625 2 530.335381 1058.65621 NaN NaN NaN NaN NaN NaN NaN 87.878 1 87.878 87.378 88.378 0 0 0 0 0.89509 1 45451 45451 4.756 0 1 + 34078 17978;12808 21587 21656 38397 38397 0.12922799546822716 VFVRNRRGKWW 11 Unmodified _VFVRNRRGKWW_ 0 0 0 REV__ENST00000355947.6_1_7:99489387-99489726:-|nuORF REV__ENST00000355947.6_1_7:99489387-99489726:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.9544677734375 3 501.952983 1502.83712 NaN NaN NaN NaN NaN NaN NaN 95.773 1 96.38 95.88 96.88 0.60769 0 0 0 1.0079 1 44040 44040 0.45452 0.35968 1 + 34079 15549 21588 21657 38398 38398 0.10581453967756715 VFVTTFMYNCY 11 Unmodified _VFVTTFMYNCY_ 0 0 0 REV__nc|ENSG00000100346|Q9P0X4-3|CACNA1I REV__nc|ENSG00000100346|Q9P0X4-3|CACNA1I MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 694.307373046875 2 694.306692 1386.59883 NaN NaN NaN NaN NaN NaN NaN 46.214 1 47.043 46.543 47.543 0.82915 0 0 0 1.0072 1 21049 21049 1.3295 0 1 + 34080 10823 21589 21658 38399 38399 -0.07900455511685323 VFYEFLEREQW 11 Unmodified _VFYEFLEREQW_ 0 0 0 REV__nc|ENSG00000166444|P78524-3|DENND2B REV__nc|ENSG00000166444|P78524-3|DENND2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 773.372314453125 2 773.372266 1544.72998 NaN NaN NaN NaN NaN NaN NaN 89.48 1 89.48 88.98 89.98 0 0 0 0 1.0082 1 46743 46743 0 0 1 + 34081 13239 21590 21659 38400 38400 -0.020596055477881237 VFYPLTATI 9 Unmodified _VFYPLTATI_ 0 0 0 REV__nc|ENSG00000103546|P23975-3|SLC6A2 REV__nc|ENSG00000103546|P23975-3|SLC6A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 512.7900390625 2 512.789318 1023.56408 2.8923 0.0014831 -2.3466 -0.0012033 0.54573 0.00027985 512.7879188515974 54.339 0.17337 55.135 55.035 55.209 0.79552 12 9 2 0 0 0 0.76984 1 24794 24794 7.9102 0 1 144870 + 34082 10972 21591 21660 38401 38401 0.05324412734148609 VFYPYPQYF 9 Unmodified _VFYPYPQYF_ 0 0 0 ENSG00000103160|ENST00000219439|HSDL1 ENSG00000103160|ENST00000219439|HSDL1 ENSG00000103160|ENST00000219439|HSDL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 612.2943115234375 2 612.292225 1222.5699 3.5245 0.002158 0.2643 0.00016183 3.7888 0.0023199 612.2923655871904 83.741 0.36599 83.988 83.769 84.135 0.24722 58 22 3 0 0 0 0.010037 3 38527 38482;38527;38593 81.864 54.504 1 1065300 34083 1379 21592 21661 38402;38403;38404 38403 -0.032484887542068464 VFYPYPQYF 9 Unmodified _VFYPYPQYF_ 0 0 0 ENSG00000103160|ENST00000219439|HSDL1 ENSG00000103160|ENST00000219439|HSDL1 ENSG00000103160|ENST00000219439|HSDL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 612.2939453125 2 612.292225 1222.5699 3.6572 0.0022393 0.0067013 4.1032E-06 3.6639 0.0022434 612.2921445983234 83.234 0.37537 83.894 83.674 84.05 0.66019 52 22 3 0 0 0 0.010037 2 38302 38302;38352 81.864 60.117 1 1061000 34084 1379 21592 21661 38405;38406 38405 -0.032484887542068464 VGAALIALP 9 Unmodified _VGAALIALP_ 0 0 0 REV__ENST00000476438.1_1_16:632096-633032:+|nuORF REV__ENST00000476438.1_1_16:632096-633032:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 412.7669982910156 2 412.765646 823.516739 NaN NaN NaN NaN NaN NaN NaN 36.059 1 36.85 36.35 37.35 0.79131 0 0 0 0.90511 1 16343 16343 2.3027 1.5091 1 + 34085 16654 21593 21662 38407 38407 0.09792178253792372 VGAANMYSHH 10 Unmodified _VGAANMYSHH_ 0 0 0 REV__ENSG00000083168|ENST00000265713|KAT6A REV__ENSG00000083168|ENST00000265713|KAT6A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.7406005859375 2 543.742908 1085.47126 NaN NaN NaN NaN NaN NaN NaN 18.464 1 18.762 18.262 19.262 0.29753 0 0 0 1.0001 1 8372 8372 1.6526 0.85899 1 + 34086 10624 21594 21663 38408 38408 -0.06805415270878257 VGAARFQG 8 Unmodified _VGAARFQG_ 0 0 0 REV__nc|ENSG00000171444|P23508|MCC REV__nc|ENSG00000171444|P23508|MCC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.2206726074219 2 403.219395 804.424236 2.8701 0.0011573 0.79019 0.00031862 3.6603 0.0014759 403.2193719035899 28.225 0.80165 28.488 28.156 28.957 0.26245 75 57 2 0 0 0 0.7471 2 12895 12895;12941 0.79363 0 1 564820 + 34087 13492 21595 21664 38409;38410 38409 0.014200932402900435 VGAARFQG 8 Unmodified _VGAARFQG_ 0 0 0 REV__nc|ENSG00000171444|P23508|MCC REV__nc|ENSG00000171444|P23508|MCC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 403.2210693359375 2 403.219395 804.424236 2.8652 0.0011553 0.77224 0.00031138 3.6375 0.0014667 403.21945372729465 27.799 0.83295 28.418 28.126 28.959 0.61947 90 55 2 0 0 0 0.7471 1 12821 12821 0.79363 0 1 736260 + 34088 13492 21595 21664 38411 38411 0.014200932402900435 VGACAQIF 8 Unmodified _VGACAQIF_ 0 0 0 REV__ENST00000510151.5_1_5:175490727-175501730:+|nuORF REV__ENST00000510151.5_1_5:175490727-175501730:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.7081298828125 2 404.704731 807.39491 NaN NaN NaN NaN NaN NaN NaN 18.026 1 18.328 17.828 18.828 0.30158 0 0 0 0.86524 1 8166 8166 14.582 0 1 + 34089 16968 21596 21665 38412 38412 -0.01649187100213112 VGACPTLTVL 10 Unmodified _VGACPTLTVL_ 0 0 0 REV__MCTP2|p.N603Ifs*5|1|0.36|ENSG00000140563|chr15:94398979-94398979|A/-|frameshift_variant REV__MCTP2|p.N603Ifs*5|1|0.36|ENSG00000140563|chr15:94398979-94398979|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2750244140625 2 487.272978 972.531403 3.955 0.0019272 1.1899 0.00057981 5.1449 0.002507 487.27332102444944 100.58 0.12138 100.9 100.85 100.98 0.31412 5 3 2 0 0 0 0.88655 1 46555 46555 4.3292 1.44 1 1083000 + 34090 12258 21597 21666 38413 38413 0.044038823396363114 VGADLKKFKFL 11 Unmodified _VGADLKKFKFL_ 0 0 0 nc|ENSG00000141449|Q9C091-3|GREB1L;ENSG00000141449|ENST00000424526|GREB1L nc|ENSG00000141449|Q9C091-3|GREB1L nc|ENSG00000141449|Q9C091-3|GREB1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.3850708007812 2 633.384448 1264.75434 NaN NaN NaN NaN NaN NaN NaN 47.082 1 47.346 46.846 47.846 0.26363 0 0 0 1.0071 1 21517 21517 1.4819 0 1 34091 3255 21598 21667 38414 38414 0.13255699396381715 VGAEDVVP 8 Unmodified _VGAEDVVP_ 0 0 0 REV__ENST00000462349.5_1_21:44473992-44479496:-|nuORF REV__ENST00000462349.5_1_21:44473992-44479496:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.2084045410156 2 393.205618 784.396684 NaN NaN NaN NaN NaN NaN NaN 36.287 1 36.545 36.045 37.045 0.25768 0 0 0 0.99035 1 16530 16530 2.5775 0 1 + 34092 12865 21599 21668 38415 38415 -0.004138548106084272 VGAFGRRRRRR 11 Unmodified _VGAFGRRRRRR_ 0 0 0 ENST00000083182.7_1_17:58603276-58603570:-|nuORF ENST00000083182.7_1_17:58603276-58603570:-|nuORF ENST00000083182.7_1_17:58603276-58603570:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 693.9247436523438 2 693.924326 1385.8341 NaN NaN NaN NaN NaN NaN NaN 40.738 1 41.379 40.879 41.879 0.64136 0 0 0 1.0082 1 18624 18624 0.35063 0.35063 1 34093 6382 21600 21669 38416 38416 0.1566162363355943 VGAGAYAY 8 Unmodified _VGAGAYAY_ 0 0 0 ENSG00000156709|ENST00000287295|AIFM1;nc|ENSG00000156709|O95831-4|AIFM1 ENSG00000156709|ENST00000287295|AIFM1 ENSG00000156709|ENST00000287295|AIFM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 773.3658447265625 1 771.367181 770.359904 3.2879 0.0025362 -1.6815 -0.001297 1.6064 0.0012391 771.3666205539357 71.826 0.37715 72.49 72.306 72.683 0.66325 56 24 3 0 0 0 0.73686 1 32936 32936 2.8892 0 1 2461000 34094 3922 21601 21670 38417 38417 -0.03446106636533841 VGAGAYAY 8 Unmodified _VGAGAYAY_ 0 0 0 ENSG00000156709|ENST00000287295|AIFM1;nc|ENSG00000156709|O95831-4|AIFM1 ENSG00000156709|ENST00000287295|AIFM1 ENSG00000156709|ENST00000287295|AIFM1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 771.367181 770.359904 3.5859 0.0027661 -1.4792 -0.001141 2.1067 0.001625 771.3666316085119 72.211 0.38901 72.47 72.315 72.704 0.25876 -0.009952 4.2525E-05 NaN 2.8892 73 35 3 NaN NaN NaN NaN 0 NaN NaN 0 2387500 34095 3922 21601 21670 -0.03446106636533841 VGAGHLHP 8 Unmodified _VGAGHLHP_ 0 0 0 REV__ENST00000442496.1_1_22:37880295-37880663:-|nuORF REV__ENST00000442496.1_1_22:37880295-37880663:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 393.9144592285156 2 394.214112 786.413671 2.5968 0.0010237 2.066 0.00081445 4.6628 0.0018381 394.21431588976156 38.059 0.2085 38.854 38.752 38.961 0.79552 12 6 3 0 0 0 0.14069 1 17287 17287 2.8892 0.31174 1 276400 + 34096 16354 21602 21671 38418 38418 0.011921105858505143 VGAGHLHP 8 Unmodified _VGAGHLHP_ 0 0 0 REV__ENST00000442496.1_1_22:37880295-37880663:-|nuORF REV__ENST00000442496.1_1_22:37880295-37880663:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 394.214112 786.413671 2.8032 0.0011051 2.9682 0.0011701 5.7714 0.0022752 394.21475463551644 38.57 0.26151 39.204 39.042 39.303 0.63447 0.24881 0.00066794 NaN 2.8892 18 9 3 NaN NaN NaN NaN 0 NaN NaN 0 244630 + 34097 16354 21602 21671 0.011921105858505143 VGAGPMKRE 9 Unmodified _VGAGPMKRE_ 0 0 0 nc|ENSG00000140287|P19113-2|HDC;ENSG00000140287|ENST00000267845|HDC;ENST00000559816.1_1_15:50534459-50545113:-|nuORF nc|ENSG00000140287|P19113-2|HDC nc|ENSG00000140287|P19113-2|HDC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.7542724609375 2 472.752744 943.490935 NaN NaN NaN NaN NaN NaN NaN 13.175 1 13.483 12.983 13.983 0.30727 0 0 0 0.89683 1 5942 5942 4.3292 0 1 34098 3189 21603 21672 38419 38419 0.016929607398765256 VGAGPQPV 8 Unmodified _VGAGPQPV_ 0 0 0 REV__nc|ENSG00000049540|P15502-8|ELN REV__nc|ENSG00000049540|P15502-8|ELN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 724.3997802734375 1 724.398815 723.391539 3.1126 0.0022548 -2.2378 -0.001621 0.87487 0.00063375 724.3970824786354 76.559 0.52936 77.183 76.998 77.527 0.62398 43 35 2 0 0 0 0.73686 1 37120 37120 2.8892 0 1 2543500 + 34099 10345 21604 21673 38420 38420 0.018778861174268968 VGAGPQPV 8 Unmodified _VGAGPQPV_ 0 0 0 REV__nc|ENSG00000049540|P15502-8|ELN REV__nc|ENSG00000049540|P15502-8|ELN MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 724.398815 723.391539 3.1393 0.0022741 -3.1909 -0.0023115 -0.051606 -3.7383E-05 724.3965558483105 77.109 0.39405 77.109 76.905 77.299 0 -0.037176 -0.00041071 NaN 2.8892 37 26 2 NaN NaN NaN NaN 0 NaN NaN 0 3119100 + 34100 10345 21604 21673 0.018778861174268968 VGAGPQPV 8 Unmodified _VGAGPQPV_ 0 0 0 REV__nc|ENSG00000049540|P15502-8|ELN REV__nc|ENSG00000049540|P15502-8|ELN MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 724.398815 723.391539 3.1126 0.0022548 -2.2378 -0.001621 0.87487 0.00063375 724.3970824786354 76.559 0.52936 77.183 76.998 77.527 0.62398 0.037176 0.00027972 NaN 2.8892 43 35 2 NaN NaN NaN NaN 0 NaN NaN 0 2543500 + 34101 10345 21604 21673 0.018778861174268968 VGAHVHGI 8 Unmodified _VGAHVHGI_ 0 0 0 ENST00000584342.5_1_17:27052953-27062286:+|nuORF ENST00000584342.5_1_17:27052953-27062286:+|nuORF ENST00000584342.5_1_17:27052953-27062286:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 395.2237548828125 2 395.221937 788.429321 NaN NaN NaN NaN NaN NaN NaN 30.653 1 31.441 30.941 31.941 0.78879 0 0 0 0.99035 1 13844 13844 0.79363 0 1 34102 9165 21605 21674 38421 38421 0.02664397102910243 VGAILLMDAID 11 Unmodified _VGAILLMDAID_ 0 0 0 REV__nc|ENSG00000166839|Q495B1-2|ANKDD1A REV__nc|ENSG00000166839|Q495B1-2|ANKDD1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 565.8075561523438 2 565.809925 1129.6053 NaN NaN NaN NaN NaN NaN NaN 15.103 1 15.33 14.83 15.83 0.22622 0 0 0 1.0071 1 6653 6653 1.4819 0.8804 1 + 34103 13263 21606 21675 38422 38422 0.04567805711303663 VGAIMVPLGR 10 Unmodified _VGAIMVPLGR_ 0 0 0 ENST00000373036.4_1_1:38323346-38325272:-|nuORF ENST00000373036.4_1_1:38323346-38325272:-|nuORF ENST00000373036.4_1_1:38323346-38325272:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.2044982910156 3 338.203917 1011.58992 2.3602 0.00079824 -0.81998 -0.00027732 1.5403 0.00052092 338.2036993872204 43.61 0.43614 43.88 43.578 44.014 0.2694 45 17 3 0 0 0 0.93503 1 19803 19803 1.9064 0 1 1214600 34104 7350 21607 21676 38423 38423 0.08458983704770162 VGAIMVPLGR 10 Unmodified _VGAIMVPLGR_ 0 0 0 ENST00000373036.4_1_1:38323346-38325272:-|nuORF ENST00000373036.4_1_1:38323346-38325272:-|nuORF ENST00000373036.4_1_1:38323346-38325272:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 338.203917 1011.58992 2.2946 0.00077603 -2.0903 -0.00070696 0.20425 6.9078E-05 338.2029705906853 43.869 0.078739 43.869 43.826 43.905 0 -0.005397 -0.001171 NaN 1.9064 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 373680 34105 7350 21607 21676 0.08458983704770162 VGAIYIRRRPR 11 Unmodified _VGAIYIRRRPR_ 0 0 0 ENST00000480655.5_1_20:34262894-34263203:-|nuORF;nc|ENSG00000244005|Q9Y697-2|NFS1;nc|ENSG00000244005|Q9Y697-3|NFS1;ENSG00000244005|ENST00000374092|NFS1 ENST00000480655.5_1_20:34262894-34263203:-|nuORF ENST00000480655.5_1_20:34262894-34263203:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1356.8397216796875 1 1356.8335 1355.82622 4.0136 0.0054458 -2.6724 -0.003626 1.3412 0.0018198 1356.8306200517118 100.78 0.1172 101.1 101.03 101.15 0.31412 7 3 3 0 0 0 0.91459 1 46635 46635 0.35063 0.35063 1 4434300 34106 6245 21608 21677 38424 38424 0.1625405159343245 VGAKQKKW 8 Unmodified _VGAKQKKW_ 0 0 0 ENSG00000158292|ENST00000377893|GPR153 ENSG00000158292|ENST00000377893|GPR153 ENSG00000158292|ENST00000377893|GPR153 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.7864685058594 2 472.787444 943.560336 2.8896 0.0013662 0.40771 0.00019276 3.2973 0.0015589 472.7876054968521 15.112 0.56798 15.112 14.87 15.438 0 92 66 2 0 0 0 0.74071 1 6676 6676 2.5775 0.73324 1 90753 34107 3980 21609 21678 38425 38425 0.08629787750930973 VGALYHEQLAL 11 Unmodified _VGALYHEQLAL_ 0 0 0 ENSG00000120800|ENST00000261637|UTP20;UTP20|p.F1622Lfs*17|1|0.09|ENSG00000120800|chr12:101346566-101346567|-/TTTAGTATCGTATTCTC|frameshift_variant ENSG00000120800|ENST00000261637|UTP20 ENSG00000120800|ENST00000261637|UTP20 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 607.3299560546875 2 607.332413 1212.65027 NaN NaN NaN NaN NaN NaN NaN 22.391 1 22.978 22.478 23.478 0.58739 0 0 0 1.0071 1 9960 9960 1.4819 0.8804 1 34108 2213 21610 21679 38426 38426 0.0524537256885651 VGAMMYHTI 9 Unmodified _VGAMMYHTI_ 0 0 0 nc|ENSG00000175029|P56545|CTBP2;nc|ENSG00000175029|P56545-3|CTBP2;ENSG00000175029|ENST00000309035|CTBP2;ENST00000486955.2_1_10:126686512-126691658:-|nuORF nc|ENSG00000175029|P56545|CTBP2 nc|ENSG00000175029|P56545|CTBP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 511.744873046875 2 511.743531 1021.47251 3.0856 0.0015791 -0.5981 -0.00030608 2.4875 0.001273 511.7431397291815 43.647 0.65668 44.462 44.196 44.852 0.81444 101 38 4 0 0 0 0.026068 1 19991 19991 60.39 36.369 1 2963500 34109 5009 21611 21680 38427 38427 -0.03736917226353853 VGAPLLRKKL 10 Unmodified _VGAPLLRKKL_ 0 0 0 REV__ENST00000520096.5_1_8:94359025-94433012:-|nuORF REV__ENST00000520096.5_1_8:94359025-94433012:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.8740234375 2 547.874051 1093.73355 NaN NaN NaN NaN NaN NaN NaN 35.574 1 35.574 35.074 36.074 0 0 0 0 0.99983 1 16141 16141 1.8442 1.0506 1 + 34110 17042 21612 21681 38428 38428 0.19043153807365343 VGAPYYFERK 10 Unmodified _VGAPYYFERK_ 0 0 0 ENST00000505306.5_1_17:48133647-48154208:+|nuORF;ENSG00000005884|ENST00000320031|ITGA3;nc|ENSG00000005884|P26006-1|ITGA3;ENST00000506401.6_1_17:48148218-48152910:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF ENST00000505306.5_1_17:48133647-48154208:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 615.3189086914062 2 615.319306 1228.62406 NaN NaN NaN NaN NaN NaN NaN 47.943 1 48.596 48.096 49.096 0.65356 0 0 0 1.0015 1 21945 21945 0.45834 0 1 34111 335 21613 21682 38429 38429 0.01889103397343206 VGARERVFQ 9 Unmodified _VGARERVFQ_ 0 0 0 ENST00000367112.1_2_6:158500311-158517393:+|nuORF;nc|ENSG00000078269|O15056-3|SYNJ2;nc|ENSG00000078269|O15056-2|SYNJ2;ENSG00000078269|ENST00000355585|SYNJ2 ENST00000367112.1_2_6:158500311-158517393:+|nuORF ENST00000367112.1_2_6:158500311-158517393:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.2039794921875 2 531.296165 1060.57778 NaN NaN NaN NaN NaN NaN NaN 103.41 1 103.41 102.91 103.91 0 0 0 0 0.90699 1 56997 56997 1.8442 0.51471 1 34112 874 21614 21683 38430 38430 0.04991083285949571 VGARIYHTI 9 Unmodified _VGARIYHTI_ 0 0 0 ENSG00000008394|ENST00000396210|MGST1;ENST00000539708.5_1_12:16513351-16516972:+|nuORF ENSG00000008394|ENST00000396210|MGST1 ENSG00000008394|ENST00000396210|MGST1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.296630859375 2 515.295633 1028.57671 3.3523 0.0017274 -1.6045E-05 -8.268E-09 3.3523 0.0017274 515.2956702598981 26.119 0.19122 26.119 25.997 26.188 0 42 23 2 0 0 0 0.001383 1 11725 11725 128.37 83.958 1 4042400 34113 378 21615 21684 38431 38431 0.06356868917032443 VGARIYHTI 9 Unmodified _VGARIYHTI_ 0 0 0 ENSG00000008394|ENST00000396210|MGST1;ENST00000539708.5_1_12:16513351-16516972:+|nuORF ENSG00000008394|ENST00000396210|MGST1 ENSG00000008394|ENST00000396210|MGST1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.2974853515625 2 515.295633 1028.57671 3.0969 0.0015958 0.62707 0.00032312 3.724 0.001919 515.2958242921826 25.163 0.21893 25.927 25.829 26.048 0.76357 48 19 3 0 0 0 0.002702 2 11300 11254;11300 107.19 58.841 1 2254400 34114 378 21615 21684 38432;38433 38433 0.06356868917032443 VGARIYHTI 9 Unmodified _VGARIYHTI_ 0 0 0 ENSG00000008394|ENST00000396210|MGST1;ENST00000539708.5_1_12:16513351-16516972:+|nuORF ENSG00000008394|ENST00000396210|MGST1 ENSG00000008394|ENST00000396210|MGST1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.2973022460938 2 515.295633 1028.57671 3.5222 0.001815 0.22208 0.00011444 3.7443 0.0019294 515.2954998843927 25.87 0.25392 26.138 26.009 26.263 0.26777 66 24 3 0 0 0 0.010904 2 11759 11709;11759 99.799 59.842 1 1722000 34115 378 21615 21684 38434;38435 38435 0.06356868917032443 VGARIYHTI 9 Unmodified _VGARIYHTI_ 0 0 0 ENSG00000008394|ENST00000396210|MGST1;ENST00000539708.5_1_12:16513351-16516972:+|nuORF ENSG00000008394|ENST00000396210|MGST1 ENSG00000008394|ENST00000396210|MGST1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.29736328125 2 515.295633 1028.57671 3.3453 0.0017238 0.63489 0.00032715 3.9802 0.002051 515.295746172905 25.557 0.22273 26.182 26.063 26.286 0.62505 61 24 3 0 0 0 0.0023958 3 11713 11672;11713;11757 111.29 53.816 1 2040100 34116 378 21615 21684 38436;38437;38438 38437 0.06356868917032443 VGARPSSLSAV 11 Unmodified _VGARPSSLSAV_ 0 0 0 REV__nc|ENSG00000006015|Q96EN9-2|REX1BD REV__nc|ENSG00000006015|Q96EN9-2|REX1BD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.53411865234375 3 348.532979 1042.57711 2.318 0.00080789 0.31179 0.00010867 2.6297 0.00091655 348.53315371403795 17.071 0.49876 17.376 17.075 17.574 0.30438 64 39 2 0 0 0 0.88075 1 7785 7785 1.3296 0 1 149210 + 34117 17621 21616 21685 38439 38439 0.057522438462456194 VGASASQS 8 Unmodified _VGASASQS_ 0 0 0 ENST00000495156.5_1_X:129473893-129498660:+|nuORF;ENST00000464184.5_1_X:129473893-129492795:+|nuORF ENST00000495156.5_1_X:129473893-129498660:+|nuORF ENST00000495156.5_1_X:129473893-129498660:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 706.3402099609375 1 706.336609 705.329333 3.7172 0.0026256 1.3606 0.00096106 5.0779 0.0035867 706.3388255259572 28.485 0.1206 28.745 28.654 28.774 0.2602 9 6 2 0 0 0 0.73686 1 12947 12947 2.8892 0 1 169640 34118 8112 21617 21686 38440 38440 -0.03511885021555372 VGASLRPR 8 Unmodified _VGASLRPR_ 0 0 0 REV__ENST00000471654.1_1_2:23914526-23929531:+|nuORF REV__ENST00000471654.1_1_2:23914526-23929531:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 428.26220703125 2 428.261594 854.508634 1.9165 0.00082075 0.1592 6.8177E-05 2.0757 0.00088893 428.2615861215599 85.789 0.4025 85.818 85.626 86.029 0.028603 105 47 3 0 0 0 0.70146 1 43045 43045 5.7604 0 1 27055000 + 34119 11515 21618 21687 38441 38441 0.0755604405703707 VGASQLHT 8 Unmodified _VGASQLHT_ 0 0 0 REV__ENST00000388752.7_1_6:43027369-43027471:-|nuORF REV__ENST00000388752.7_1_6:43027369-43027471:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.7178649902344 2 406.716685 811.418816 NaN NaN NaN NaN NaN NaN NaN 45.035 1 45.303 44.803 45.803 0.26768 0 0 0 0.99035 1 20585 20585 0.79363 0 1 + 34120 15901 21619 21688 38442 38442 0.005563696577951305 VGASRIRNLF 10 Unmodified _VGASRIRNLF_ 0 0 0 nc|ENSG00000136758|Q96TA2-3|YME1L1;ENSG00000136758|ENST00000376016|YME1L1;nc|ENSG00000136758|Q96TA2|YME1L1 nc|ENSG00000136758|Q96TA2-3|YME1L1 nc|ENSG00000136758|Q96TA2-3|YME1L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.6942749023438 2 566.832914 1131.65128 NaN NaN NaN NaN NaN NaN NaN 15.427 1 15.639 15.139 16.139 0.21108 0 0 0 1.0001 1 6803 6803 1.6526 0.32309 1 34121 2972 21620 21689 38443 38443 0.0907163172842047 VGASRRRGRRR 11 Unmodified _VGASRRRGRRR_ 0 0 0 ENST00000542103.5_2_22:19435325-19435376:-|nuORF ENST00000542103.5_2_22:19435325-19435376:-|nuORF ENST00000542103.5_2_22:19435325-19435376:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.9054565429688 2 663.906134 1325.79771 NaN NaN NaN NaN NaN NaN NaN 65.943 1 66.6 66.1 67.1 0.65672 0 0 0 1.008 1 30234 30234 0.35063 0 1 34122 8814 21621 21690 38444 38444 0.14784746736859233 VGASRVVRKAP 11 Unmodified _VGASRVVRKAP_ 0 0 0 nc|ENSG00000288701|Q5JSZ5-5|PRRC2B;nc|ENSG00000288701|Q5JSZ5|PRRC2B nc|ENSG00000288701|Q5JSZ5-5|PRRC2B nc|ENSG00000288701|Q5JSZ5-5|PRRC2B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 570.354736328125 2 570.354014 1138.69348 NaN NaN NaN NaN NaN NaN NaN 101.74 1 102.06 101.56 102.56 0.31737 0 0 0 1.0073 1 47075 47075 1.1933 0.66858 1 34123 9878 21622 21691 38445 38445 0.12967607136806691 VGATPEIL 8 Unmodified _VGATPEIL_ 0 0 0 REV__ENSG00000167720|ENST00000344595|SRR REV__ENSG00000167720|ENST00000344595|SRR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.2402038574219 2 400.231636 798.448719 NaN NaN NaN NaN NaN NaN NaN 101.34 1 101.65 101.15 102.15 0.31412 0 0 0 0.99035 1 46893 46893 5.7604 0 1 + 34124 13303 21623 21692 38446 38446 0.0414330860313612 VGATRIQIALK 11 Unmodified _VGATRIQIALK_ 0 0 0 ENSG00000113645|ENST00000265293|WWC1;nc|ENSG00000113645|Q8IX03-2|WWC1 ENSG00000113645|ENST00000265293|WWC1 ENSG00000113645|ENST00000265293|WWC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 585.3057861328125 2 585.371872 1168.72919 NaN NaN NaN NaN NaN NaN NaN 33.111 1 33.111 32.611 33.611 0 0 0 0 1.0079 1 14997 14997 1.1933 0.79263 1 34125 1866 21624 21693 38447 38447 0.15157644593773512 VGATTVMLKE 10 Unmodified _VGATTVMLKE_ 0 0 0 ENSG00000149428|ENST00000617285|HYOU1 ENSG00000149428|ENST00000617285|HYOU1 ENSG00000149428|ENST00000617285|HYOU1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.1951599121094 3 350.195087 1047.56343 2.5009 0.00087581 -0.79293 -0.00027768 1.708 0.00059813 350.194658821857 15.444 1.0111 16.098 15.735 16.746 0.65356 357 131 4 0 0 0 0.93372 1 6882 6882 2.086 2.086 1 364320 34126 3643 21625 21694 38448 38448 0.04155250022790824 VGAVRKLTSS 10 Unmodified _VGAVRKLTSS_ 0 0 0 REV__ENSG00000188050|ENST00000340112|RNF133 REV__ENSG00000188050|ENST00000340112|RNF133 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.30706787109375 2 509.306198 1016.59784 3.4808 0.0017728 0.20534 0.00010458 3.6861 0.0018774 509.3062983877125 87.164 0.83107 87.84 87.713 88.544 0.67555 65 40 3 0 0 0 0.93534 1 40215 40215 1.8442 1.2427 1 2225500 + 34127 14130 21626 21695 38449 38449 0.09020834225896124 VGAVRRGP 8 Unmodified _VGAVRRGP_ 0 0 0 REV__ENST00000382252.5_1_7:6694764-6695430:+|nuORF REV__ENST00000382252.5_1_7:6694764-6695430:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 406.248291015625 2 406.248486 810.48242 2.1711 0.000882 0.26127 0.00010614 2.4324 0.00098814 406.2485077274661 83.631 0.32046 83.631 83.468 83.789 0 78 37 3 0 0 0 0.65723 1 42083 42083 9.3474 0 1 29743000 + 34128 15896 21627 21696 38450 38450 0.06959774885558545 VGAVRRGP 8 Unmodified _VGAVRRGP_ 0 0 0 REV__ENST00000382252.5_1_7:6694764-6695430:+|nuORF REV__ENST00000382252.5_1_7:6694764-6695430:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 406.2490539550781 2 406.248486 810.48242 1.9211 0.00078044 0.44731 0.00018172 2.3684 0.00096216 406.24857574559866 82.938 0.38264 82.983 82.796 83.179 0.045006 107 44 3 0 0 0 0.65723 1 41136 41136 9.3474 0 1 27010000 + 34129 15896 21627 21696 38451 38451 0.06959774885558545 VGAWWVGF 8 Unmodified _VGAWWVGF_ 0 0 0 nc|ENSG00000101187|Q96BD0-3|SLCO4A1;nc|ENSG00000101187|Q96BD0-4|SLCO4A1;ENSG00000101187|ENST00000217159|SLCO4A1 nc|ENSG00000101187|Q96BD0-3|SLCO4A1 nc|ENSG00000101187|Q96BD0-3|SLCO4A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 921.4633178710938 1 921.46175 920.454474 2.3229 0.0021405 0.53317 0.0004913 2.8561 0.0026318 921.4619123755524 104.16 0.04686 104.21 104.18 104.23 0.052994 6 3 2 0 0 0 0.7471 1 56418 56418 0.79363 0 1 597020 34130 1269 21628 21697 38452 38452 -0.008935480945183372 VGAYRRWRWR 10 Unmodified _VGAYRRWRWR_ 0 0 0 REV__ENST00000507209.5_1_4:187125362-187125452:+|nuORF REV__ENST00000507209.5_1_4:187125362-187125452:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 703.3863525390625 2 703.389254 1404.76395 NaN NaN NaN NaN NaN NaN NaN 37.989 1 38.623 38.123 39.123 0.63388 0 0 0 1.0015 1 17376 17376 0.45834 0.10771 1 + 34131 16937 21629 21698 38453 38453 0.07776325245117732 VGAYRRWRWRK 11 Unmodified _VGAYRRWRWRK_ 0 0 0 REV__ENST00000507209.5_1_4:187125362-187125452:+|nuORF REV__ENST00000507209.5_1_4:187125362-187125452:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 767.03515625 2 767.436735 1532.85892 NaN NaN NaN NaN NaN NaN NaN 92.677 1 92.677 92.177 93.177 0 0 0 0 1.008 1 49306 49306 0.35063 0 1 + 34132 16937 21630 21699 38454 38454 0.11380258716280878 VGAYVFITYD 10 Unmodified _VGAYVFITYD_ 0 0 0 ENST00000558394.5_1_15:77348162-77363449:-|nuORF;ENST00000560514.1_1_15:77348372-77363449:-|nuORF;nc|ENSG00000140391|O60637-2|TSPAN3;ENSG00000140391|ENST00000267970|TSPAN3 ENST00000558394.5_1_15:77348162-77363449:-|nuORF ENST00000558394.5_1_15:77348162-77363449:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.2881469726562 2 574.28714 1146.55973 NaN NaN NaN NaN NaN NaN NaN 61.711 1 61.963 61.463 62.463 0.25245 0 0 0 0.99983 1 28261 28261 1.8442 0.19162 1 34133 3195 21631 21700 38455 38455 -0.00769096479439213 VGCDLRRLWRW 11 Unmodified _VGCDLRRLWRW_ 0 0 0 REV__ENST00000339526.8_1_1:182360314-182360662:-|nuORF REV__ENST00000339526.8_1_1:182360314-182360662:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 730.3886108398438 2 730.390605 1458.76666 NaN NaN NaN NaN NaN NaN NaN 19.596 1 19.596 19.096 20.096 0 0 0 0 1.008 1 8744 8744 0.35063 0.043601 1 + 34134 15448 21632 21701 38456 38456 0.05562412587732979 VGCEQQWLM 9 Unmodified _VGCEQQWLM_ 0 0 0 REV__nc|ENSG00000137571|Q9H2Y9-2|SLCO5A1 REV__nc|ENSG00000137571|Q9H2Y9-2|SLCO5A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.2418212890625 2 547.243895 1092.47324 NaN NaN NaN NaN NaN NaN NaN 67.993 1 68.245 67.745 68.745 0.25227 0 0 0 0.90511 1 31146 31146 2.3027 0.24298 1 + 34135 12117 21633 21702 38457 38457 -0.0693012257729606 VGCERRRRR 9 Unmodified _VGCERRRRR_ 0 0 0 REV__ENST00000541765.5_2_12:30904039-30907854:-|nuORF REV__ENST00000541765.5_2_12:30904039-30907854:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 396.56036376953125 3 396.559868 1186.65778 NaN NaN NaN NaN NaN NaN NaN 12.955 1 13.262 12.762 13.762 0.30727 0 0 0 0.90611 1 5843 5843 1.0715 0.20709 1 + 34136 17224 21634 21703 38458 38458 0.07191246408137886 VGCGKSVHRR 10 Unmodified _VGCGKSVHRR_ 0 0 0 ENST00000374481.7_1_2:204600867-204600957:+|nuORF ENST00000374481.7_1_2:204600867-204600957:+|nuORF ENST00000374481.7_1_2:204600867-204600957:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.8031616210938 2 549.801091 1097.58763 3.36 0.0018473 2.0128 0.0011066 5.3728 0.002954 549.8016628351774 53.272 0.23335 53.937 53.813 54.047 0.6644 12 9 2 0 0 0 0.84709 1 24392 24392 6.2058 3.6283 1 257360 34137 7380 21635 21704 38459 38459 0.04273948019681484 VGCGMHSL 8 Unmodified _VGCGMHSL_ 0 0 0 ENST00000549857.1_1_17:6918973-6919195:+|nuORF ENST00000549857.1_1_17:6918973-6919195:+|nuORF ENST00000549857.1_1_17:6918973-6919195:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 401.881103515625 2 402.180566 802.346579 NaN NaN NaN NaN NaN NaN NaN 12.76 1 13.067 12.567 13.567 0.30727 0 0 0 0.99035 1 5757 5757 2.8892 0 1 34138 8862 21636 21705 38460 38460 -0.06250004011769761 VGCMVDMNEHT 11 Unmodified _VGCMVDMNEHT_ 0 0 0 RYR2|p.M4809Qfs*5|1|0.04|ENSG00000198626|chr1:237809025-237809026|-/CCAGGTAT|frameshift_variant;ENSG00000198626|ENST00000366574|RYR2;nc|ENSG00000198626|Q92736-2|RYR2 RYR2|p.M4809Qfs*5|1|0.04|ENSG00000198626|chr1:237809025-237809026|-/CCAGGTAT|frameshift_variant RYR2|p.M4809Qfs*5|1|0.04|ENSG00000198626|chr1:237809025-237809026|-/CCAGGTAT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 412.5013732910156 3 412.499964 1234.47806 NaN NaN NaN NaN NaN NaN NaN 11.051 1 11.33 10.83 11.83 0.2792 0 0 0 1.008 1 4796 4796 0.094841 0 1 34139 5908 21637 21706 38461 38461 -0.12979606496855922 VGCMVDMNEHT 11 Unmodified _VGCMVDMNEHT_ 0 0 0 RYR2|p.M4809Qfs*5|1|0.04|ENSG00000198626|chr1:237809025-237809026|-/CCAGGTAT|frameshift_variant;ENSG00000198626|ENST00000366574|RYR2;nc|ENSG00000198626|Q92736-2|RYR2 RYR2|p.M4809Qfs*5|1|0.04|ENSG00000198626|chr1:237809025-237809026|-/CCAGGTAT|frameshift_variant RYR2|p.M4809Qfs*5|1|0.04|ENSG00000198626|chr1:237809025-237809026|-/CCAGGTAT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 412.50030517578125 3 412.499964 1234.47806 NaN NaN NaN NaN NaN NaN NaN 11.225 1 11.504 11.004 12.004 0.2792 0 0 0 1.008 1 4872 4872 0.094841 0 1 34140 5908 21637 21706 38462 38462 -0.12979606496855922 VGCRFHRQVR 10 Unmodified _VGCRFHRQVR_ 0 0 0 REV__nc|ENSG00000197362|Q8N393-2|ZNF786 REV__nc|ENSG00000197362|Q8N393-2|ZNF786 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 629.3411254882812 2 629.340915 1256.66728 NaN NaN NaN NaN NaN NaN NaN 21.986 1 21.986 21.486 22.486 0 0 0 0 1.0015 1 9851 9851 0.45834 0 1 + 34141 14273 21638 21707 38463 38463 0.0492101469365025 VGCSSDED 8 Unmodified _VGCSSDED_ 0 0 0 ENSG00000185483|ENST00000371079|ROR1;nc|ENSG00000185483|Q01973-2|ROR1 ENSG00000185483|ENST00000371079|ROR1 ENSG00000185483|ENST00000371079|ROR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.2772827148438 1 811.277439 810.270163 2.7147 0.0022024 -3.8323 -0.0031091 -1.1176 -0.00090668 811.2741208174166 88.579 0.065742 88.631 88.586 88.652 0.052155 14 8 2 0 0 0 0.7471 1 45167 45167 0.79363 0 1 57087000 34142 5510 21639 21708 38464 38464 -0.14256149098071091 VGCTTAFCSA 10 Unmodified _VGCTTAFCSA_ 0 0 0 REV__ENST00000494126.6_1_5:177641847-177659033:-|nuORF REV__ENST00000494126.6_1_5:177641847-177659033:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.2024841308594 2 480.201696 958.388838 NaN NaN NaN NaN NaN NaN NaN 58.784 1 58.784 58.284 59.284 0 0 0 0 0.99983 1 27145 27145 1.8442 1.0506 1 + 34143 16823 21640 21709 38465 38465 -0.09202073394055788 VGCWRHACR 9 Unmodified _VGCWRHACR_ 0 0 0 ENST00000589786.5_1_19:34303872-34304274:+|nuORF ENST00000589786.5_1_19:34303872-34304274:+|nuORF ENST00000589786.5_1_19:34303872-34304274:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.2554931640625 2 544.255462 1086.49637 NaN NaN NaN NaN NaN NaN NaN 16.398 1 16.398 15.898 16.898 0 0 0 0 0.91206 1 7263 7263 0.6015 0 1 34144 9217 21641 21710 38466 38466 -0.04341638949335902 VGDELLSQFKV 11 Unmodified _VGDELLSQFKV_ 0 0 0 nc|ENSG00000153922|O14646-2|CHD1;ENSG00000153922|ENST00000614616|CHD1 nc|ENSG00000153922|O14646-2|CHD1 nc|ENSG00000153922|O14646-2|CHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 617.8372192382812 2 617.837528 1233.6605 NaN NaN NaN NaN NaN NaN NaN 27.683 1 28.469 27.969 28.969 0.78627 0 0 0 1.0072 1 12452 12452 1.3295 0.13619 1 34145 3795 21642 21711 38467 38467 0.05301935503439381 VGDFPEED 8 Unmodified _VGDFPEED_ 0 0 0 nc|ENSG00000105254|Q99426-2|TBCB;ENSG00000105254|ENST00000221855|TBCB nc|ENSG00000105254|Q99426-2|TBCB nc|ENSG00000105254|Q99426-2|TBCB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.1337585449219 2 454.187623 906.360692 NaN NaN NaN NaN NaN NaN NaN 15.799 1 16.01 15.51 16.51 0.21108 0 0 0 0.99035 1 6973 6973 0.79363 0 1 34146 1480 21643 21712 38468 38468 -0.0962335677812689 VGDFWIRWYQQ 11 Unmodified _VGDFWIRWYQQ_ 0 0 0 nc|ENSG00000211643|A0A0A0MRZ9|IGLV5-52 nc|ENSG00000211643|A0A0A0MRZ9|IGLV5-52 nc|ENSG00000211643|A0A0A0MRZ9|IGLV5-52 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 748.9615478515625 2 749.367318 1496.72008 NaN NaN NaN NaN NaN NaN NaN 85.547 1 85.576 85.076 86.076 0.028603 0 0 0 1.008 1 42848 42848 0.35063 0 1 34147 9819 21644 21713 38469 38469 -0.008407487624936039 VGDGHCCC 8 Unmodified _VGDGHCCC_ 0 0 0 ENST00000572681.6_2_19:42791821-42793046:+|nuORF ENST00000572681.6_2_19:42791821-42793046:+|nuORF ENST00000572681.6_2_19:42791821-42793046:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 397.127197265625 2 397.124934 792.235314 NaN NaN NaN NaN NaN NaN NaN 73.632 1 74.296 73.796 74.796 0.6644 0 0 0 0.99035 1 33852 33852 0.79363 0.79363 1 34148 9101 21645 21714 38470 38470 -0.1691138671136514 VGDHTEHM 8 Unmodified _VGDHTEHM_ 0 0 0 REV__ENST00000428210.5_1_2:61705957-61719950:-|nuORF REV__ENST00000428210.5_1_2:61705957-61719950:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.19720458984375 2 463.195259 924.375965 NaN NaN NaN NaN NaN NaN NaN 92.775 1 93.027 92.527 93.527 0.25253 0 0 0 0.99035 1 42644 42644 0.79363 0 1 + 34149 10621 21646 21715 38471 38471 -0.0892476846191812 VGDKLLKQKVA 11 Unmodified _VGDKLLKQKVA_ 0 0 0 ENSG00000142698|ENST00000488417|C1orf94 ENSG00000142698|ENST00000488417|C1orf94 ENSG00000142698|ENST00000488417|C1orf94 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 400.25469970703125 3 400.255446 1197.74451 NaN NaN NaN NaN NaN NaN NaN 67.797 1 67.797 67.297 68.297 0 0 0 0 1.0062 1 32574 32574 2.6312 0 1 34150 3328 21647 21716 38472 38472 0.15354511391001324 VGDKRPPR 8 Unmodified _VGDKRPPR_ 0 0 0 REV__ENST00000435434.1_1_10:106113264-106113327:-|nuORF REV__ENST00000435434.1_1_10:106113264-106113327:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.8509216308594 3 308.850643 923.530098 2.2941 0.00070853 -0.81879 -0.00025288 1.4753 0.00045565 308.85053745361665 13.119 0.24112 13.761 13.646 13.887 0.64272 35 16 3 0 0 0 0.7471 1 5946 5946 1.6526 0.45928 1 1874700 + 34151 16297 21648 21717 38473 38473 0.0652742908575874 VGDKWWRL 8 Unmodified _VGDKWWRL_ 0 0 0 REV__nc|ENSG00000148357|Q8NDA2-4|HMCN2 REV__nc|ENSG00000148357|Q8NDA2-4|HMCN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.29052734375 2 530.290351 1058.56615 NaN NaN NaN NaN NaN NaN NaN 15.863 1 15.863 15.363 16.363 0 0 0 0 0.99035 1 7019 7019 0.79363 0 1 + 34152 17975 21649 21718 38474 38474 0.03920886262608292 VGDLLLVHL 9 Unmodified _VGDLLLVHL_ 0 0 0 ENST00000357992.8_1_1:205583594-205583885:-|nuORF ENST00000357992.8_1_1:205583594-205583885:-|nuORF ENST00000357992.8_1_1:205583594-205583885:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 326.87158203125 3 326.870932 977.590967 1.9002 0.00062113 0.14339 4.6869E-05 2.0436 0.000668 326.87098594932314 12.857 0.13113 13.119 13.05 13.181 0.26154 29 10 3 0 0 0 0.43926 1 5622 5622 8.7454 0 1 5620100 34153 7184 21650 21719 38475 38475 0.1012752134532775 VGDLTLSKRG 10 Unmodified _VGDLTLSKRG_ 0 0 0 ENST00000260318.6_1_11:107375936-107422548:-|nuORF;ENSG00000137760|ENST00000428149|ALKBH8;nc|ENSG00000137760|Q96BT7-4|ALKBH8 ENST00000260318.6_1_11:107375936-107422548:-|nuORF ENST00000260318.6_1_11:107375936-107422548:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.3073120117188 2 523.303655 1044.59276 3.4122 0.0017856 0.43544 0.00022787 3.8477 0.0020135 523.3038839446587 80.776 1.6208 81.436 80.742 82.363 0.65998 229 108 3 0 0 0 0.93628 1 37600 37600 1.6526 0 1 1677500 34154 3036 21651 21720 38476 38476 0.07224530363282611 VGDPETRKAI 10 Unmodified _VGDPETRKAI_ 0 0 0 nc|ENSG00000156103|P51512-2|MMP16;ENSG00000156103|ENST00000286614|MMP16 nc|ENSG00000156103|P51512-2|MMP16 nc|ENSG00000156103|P51512-2|MMP16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.7429809570312 2 543.301113 1084.58767 NaN NaN NaN NaN NaN NaN NaN 68.287 1 68.54 68.04 69.04 0.25227 0 0 0 0.99687 1 31282 31282 4.3292 0.38484 1 34155 3895 21652 21721 38477 38477 0.04876226500641678 VGDRLRQQ 8 Unmodified _VGDRLRQQ_ 0 0 0 REV__ENSG00000232838|ENST00000432901|PET117 REV__ENSG00000232838|ENST00000432901|PET117 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.45025634765625 2 486.27269 970.530826 NaN NaN NaN NaN NaN NaN NaN 16.521 1 16.825 16.325 17.325 0.30438 0 0 0 0.99035 1 7478 7478 0.79363 0 1 + 34156 14582 21653 21722 38478 38478 0.04438223734814528 VGDRVRSL 8 Unmodified _VGDRVRSL_ 0 0 0 ENST00000429927.6_2_4:76555473-76555581:-|nuORF ENST00000429927.6_2_4:76555473-76555581:-|nuORF ENST00000429927.6_2_4:76555473-76555581:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.26495361328125 2 451.264333 900.514114 2.9272 0.001321 0.15839 7.1474E-05 3.0856 0.0013924 451.26439340226426 21.859 0.28257 21.859 21.72 22.002 0 59 23 3 0 0 0 0.7471 1 9857 9857 0.79363 0 1 761910 34157 7838 21654 21723 38479 38479 0.05987722848863086 VGDSFMSILL 10 Unmodified _VGDSFMSILL_ 0 0 0 REV__nc|ENSG00000133958|Q9P2D8-2|UNC79 REV__nc|ENSG00000133958|Q9P2D8-2|UNC79 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.28369140625 2 541.283543 1080.55253 3.5431 0.0019178 -3.389 -0.0018344 0.15413 8.343E-05 541.2826970093764 87.699 0.10672 88.377 88.332 88.439 0.67818 6 4 2 0 0 0 0.88655 1 40408 40408 4.3292 0 1 210590 + 34158 11948 21655 21724 38480 38480 0.015478476485213832 VGDSVNKPSI 10 Unmodified _VGDSVNKPSI_ 0 0 0 REV__nc|ENSG00000141219|Q9BSJ5-2|MTNAP1;REV__nc|ENSG00000141219|Q9BSJ5-3|MTNAP1 REV__nc|ENSG00000141219|Q9BSJ5-2|MTNAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.27667236328125 2 508.274564 1014.53457 3.211 0.0016321 0.52959 0.00026918 3.7406 0.0019013 508.274859701063 20.846 0.28245 20.846 20.7 20.982 0 35 20 2 0 0 0 0.89464 1 9295 9295 3.9444 0 1 348980 + 34159 12278;17967 21656 21725 38481 38481 0.027888487180121047 VGDTFCYF 8 Unmodified _VGDTFCYF_ 0 0 0 nc|ENSG00000172269|Q9H3H5-2|DPAGT1;ENSG00000172269|ENST00000354202|DPAGT1;nc|ENSG00000172269|Q9H3H5-3|DPAGT1;ENST00000392834.7_1_11:118967710-118972378:-|nuORF;ENST00000461999.1_1_11:118968563-118968800:-|nuORF nc|ENSG00000172269|Q9H3H5-2|DPAGT1 nc|ENSG00000172269|Q9H3H5-2|DPAGT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 476.07000732421875 2 476.199479 950.384405 NaN NaN NaN NaN NaN NaN NaN 40.773 1 41.042 40.542 41.542 0.26904 0 0 0 0.99035 1 18552 18552 0.79363 0 1 34160 4864 21657 21726 38482 38482 -0.09277214545318202 VGDVVLQVQEV 11 Unmodified _VGDVVLQVQEV_ 0 0 0 REV__ENSG00000104879|ENST00000221476|CKM REV__ENSG00000104879|ENST00000221476|CKM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.8284912109375 2 592.829703 1183.64485 NaN NaN NaN NaN NaN NaN NaN 89.401 1 90.08 89.58 90.58 0.67818 0 0 0 1.0072 1 41162 41162 1.3295 0 1 + 34161 11004 21658 21727 38483 38483 0.06037648986375643 VGDYDDELKQF 11 Unmodified _VGDYDDELKQF_ 0 0 0 ENST00000509162.1_1_3:133368499-133368748:-|nuORF;ENSG00000163781|ENST00000260810|TOPBP1 ENST00000509162.1_1_3:133368499-133368748:-|nuORF ENST00000509162.1_1_3:133368499-133368748:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 664.8013916015625 2 664.803882 1327.59321 NaN NaN NaN NaN NaN NaN NaN 41.036 1 41.839 41.339 42.339 0.80351 0 0 0 1.0059 1 18611 18611 2.9952 0.93549 1 34162 4247 21659 21728 38484 38484 -0.057481394982232814 VGEAEHMEND 10 Unmodified _VGEAEHMEND_ 0 0 0 ENSG00000169851|ENST00000695919|PCDH7 ENSG00000169851|ENST00000695919|PCDH7 ENSG00000169851|ENST00000695919|PCDH7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.7235107421875 2 565.724578 1129.4346 NaN NaN NaN NaN NaN NaN NaN 32.494 1 32.494 31.994 32.994 0 0 0 0 1.0001 1 14715 14715 1.6526 0.32309 1 34163 4716 21660 21729 38485 38485 -0.12493756678099999 VGEAYVQIL 9 Unmodified _VGEAYVQIL_ 0 0 0 REV__ENSG00000153317|ENST00000518721|ASAP1 REV__ENSG00000153317|ENST00000518721|ASAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.2771911621094 2 496.276575 990.538597 3.2654 0.0016206 -0.83833 -0.00041604 2.4271 0.0012045 496.27624656349025 64.971 0.34327 65.219 65.072 65.416 0.24803 22 15 2 0 0 0 0.041436 1 29780 29780 50.855 8.7605 1 662310 + 34164 12676 21661 21730 38486 38486 0.04294938211717181 VGECHYAEYE 10 Unmodified _VGECHYAEYE_ 0 0 0 REV__ENSG00000156466|ENST00000287020|GDF6 REV__ENSG00000156466|ENST00000287020|GDF6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 600.2387084960938 2 600.237321 1198.46009 NaN NaN NaN NaN NaN NaN NaN 58.743 1 59.005 58.505 59.505 0.26227 0 0 0 1.0015 1 26903 26903 0.45834 0 1 + 34165 12774 21662 21731 38487 38487 -0.13120282155682617 VGECPHEM 8 Unmodified _VGECPHEM_ 0 0 0 REV__nc|ENSG00000011523|Q76N32-2|CEP68 REV__nc|ENSG00000011523|Q76N32-2|CEP68 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.1816101074219 2 451.180763 900.346973 NaN NaN NaN NaN NaN NaN NaN 29.556 1 29.814 29.314 30.314 0.25804 0 0 0 0.99035 1 13450 13450 2.8892 0.31174 1 + 34166 10240 21663 21732 38488 38488 -0.1071862908257799 VGEDINVQQLL 11 Unmodified _VGEDINVQQLL_ 0 0 0 ENST00000479576.5_1_3:42787372-42794186:-|nuORF;ENSG00000244607|ENST00000310232|CCDC13 ENST00000479576.5_1_3:42787372-42794186:-|nuORF ENST00000479576.5_1_3:42787372-42794186:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 409.8919372558594 3 409.890832 1226.65067 2.7762 0.0011379 0.71092 0.0002914 3.4871 0.0014293 410.22546390530977 18.128 0.23305 18.128 18.024 18.257 0 27 16 2 0 0 0 0.84832 1 8040 8040 4.7159 0.52642 1 499860 34167 6253 21664 21733 38489 38489 0.04640747498069686 VGEEDEED 8 Unmodified _VGEEDEED_ 0 0 0 ENSG00000183615|ENST00000373582|FAM167B ENSG00000183615|ENST00000373582|FAM167B ENSG00000183615|ENST00000373582|FAM167B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 460.79803466796875 2 461.169627 920.324701 NaN NaN NaN NaN NaN NaN NaN 76.428 1 77.092 76.592 77.592 0.66387 0 0 0 0.99035 1 35208 35208 0.79363 0 1 34168 5390 21665 21734 38490 38490 -0.1386485874564869 VGEEDEED 8 Unmodified _VGEEDEED_ 0 0 0 ENSG00000183615|ENST00000373582|FAM167B ENSG00000183615|ENST00000373582|FAM167B ENSG00000183615|ENST00000373582|FAM167B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 461.1709289550781 2 461.169627 920.324701 NaN NaN NaN NaN NaN NaN NaN 95.673 1 96.281 95.781 96.781 0.60769 0 0 0 0.99035 1 43995 43995 0.79363 0 1 34169 5390 21665 21734 38491 38491 -0.1386485874564869 VGEEGQIGDL 10 Unmodified _VGEEGQIGDL_ 0 0 0 REV__ENST00000264036.5_1_11:119182288-119182354:-|nuORF REV__ENST00000264036.5_1_11:119182288-119182354:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.75048828125 2 508.748379 1015.4822 NaN NaN NaN NaN NaN NaN NaN 35.976 1 36.768 36.268 37.268 0.79131 0 0 0 0.99464 1 16306 16306 6.2058 0 1 + 34170 15009 21666 21735 38492 38492 -0.024917344156278887 VGEEWSSQPV 10 Unmodified _VGEEWSSQPV_ 0 0 0 REV__ENSG00000204839|ENST00000398882|MROH6 REV__ENSG00000204839|ENST00000398882|MROH6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.2628173828125 2 559.261653 1116.50875 NaN NaN NaN NaN NaN NaN NaN 28.521 1 29.311 28.811 29.811 0.78921 0 0 0 1.0001 1 12846 12846 1.6526 0 1 + 34171 14440 21667 21736 38493 38493 -0.0448404552428201 VGEFEFRSL 9 Unmodified _VGEFEFRSL_ 0 0 0 REV__nc|ENSG00000150995|Q14643-4|ITPR1 REV__nc|ENSG00000150995|Q14643-4|ITPR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.2786254882812 2 542.277106 1082.53966 3.3334 0.0018076 0.58701 0.00031832 3.9204 0.0021259 542.2775819887196 59.094 0.40459 59.353 59.137 59.542 0.2593 32 19 2 0 0 0 0.086415 2 27018 27018;27070 36.127 5.4905 1 458020 + 34172 12600 21668 21737 38494;38495 38494 0.0016915258061089844 VGEFEFRSL 9 Unmodified _VGEFEFRSL_ 0 0 0 REV__nc|ENSG00000150995|Q14643-4|ITPR1 REV__nc|ENSG00000150995|Q14643-4|ITPR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.279296875 2 542.277106 1082.53966 3.4484 0.00187 0.028224 1.5305E-05 3.4766 0.0018853 542.2774313979328 58.36 0.30943 59.027 58.98 59.289 0.66703 24 16 2 0 0 0 0.11458 2 26729 26729;26791 29.082 9.8246 1 713060 + 34173 12600 21668 21737 38496;38497 38496 0.0016915258061089844 VGEFEFRSL 9 Unmodified _VGEFEFRSL_ 0 0 0 REV__nc|ENSG00000150995|Q14643-4|ITPR1 REV__nc|ENSG00000150995|Q14643-4|ITPR1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 542.277106 1082.53966 3.3334 0.0018076 0.58701 0.00031832 3.9204 0.0021259 542.2775819887196 59.094 0.40459 59.353 59.137 59.542 0.2593 0.16303 0.00024216 NaN 36.127 32 19 2 NaN NaN NaN NaN 0 NaN NaN 0 458020 + 34174 12600 21668 21737 0.0016915258061089844 VGEGGPED 8 Unmodified _VGEGGPED_ 0 0 0 ENST00000461352.5_1_2:73172212-73286292:-|nuORF;ENST00000474528.5_1_2:73172153-73286292:-|nuORF ENST00000461352.5_1_2:73172212-73286292:-|nuORF ENST00000461352.5_1_2:73172212-73286292:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.16265869140625 2 380.161408 758.308263 NaN NaN NaN NaN NaN NaN NaN 15.013 1 15.666 15.166 16.166 0.65356 0 0 0 0.99035 1 6760 6760 0.79363 0 1 34175 8083 21669 21738 38498 38498 -0.08055895121094636 VGEHLAKR 8 Unmodified _VGEHLAKR_ 0 0 0 REV__ENSG00000058085|ENST00000264144|LAMC2 REV__ENSG00000058085|ENST00000264144|LAMC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 455.2650146484375 2 455.266876 908.519199 NaN NaN NaN NaN NaN NaN NaN 34.067 1 34.321 33.821 34.821 0.25389 0 0 0 0.99035 1 15513 15513 5.7604 0.52976 1 + 34176 10379 21670 21739 38499 38499 0.06128026711462553 VGEINVVRI 9 Unmodified _VGEINVVRI_ 0 0 0 REV__nc|ENSG00000266967|Q9BTE6-2|AARSD1 REV__nc|ENSG00000266967|Q9BTE6-2|AARSD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 333.53875732421875 3 333.537953 997.59203 NaN NaN NaN NaN NaN NaN NaN 12.661 1 13.304 12.804 13.804 0.64272 0 0 0 0.82031 1 5684 5684 5.2969 1.4206 1 + 34177 18156 21671 21740 38500 38500 0.09313735714226823 VGEKTKHFQ 9 Unmodified _VGEKTKHFQ_ 0 0 0 nc|ENSG00000148357|Q8NDA2-4|HMCN2;nc|ENSG00000148357|Q8NDA2-1|HMCN2;ENSG00000148357|ENST00000683500|HMCN2 nc|ENSG00000148357|Q8NDA2-4|HMCN2 nc|ENSG00000148357|Q8NDA2-4|HMCN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.2891235351562 2 537.290548 1072.56654 NaN NaN NaN NaN NaN NaN NaN 106.2 1 106.2 105.7 106.7 0 0 0 0 0.90611 1 58324 58324 2.0598 0 1 34178 3601 21672 21741 38501 38501 0.033162611917987306 VGELIVIIEL 10 Unmodified _VGELIVIIEL_ 0 0 0 REV__nc|ENSG00000187486|Q14654-2|KCNJ11 REV__nc|ENSG00000187486|Q14654-2|KCNJ11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.5625305175781 3 366.565397 1096.67436 NaN NaN NaN NaN NaN NaN NaN 14.737 1 14.963 14.463 15.463 0.22622 0 0 0 0.96627 1 6482 6482 13.615 0.74226 1 + 34179 14098 21673 21742 38502 38502 0.12989213002515498 VGEMLRRRKLR 11 Unmodified _VGEMLRRRKLR_ 0 0 0 ENST00000263073.10_1_17:2203445-2203508:-|nuORF ENST00000263073.10_1_17:2203445-2203508:-|nuORF ENST00000263073.10_1_17:2203445-2203508:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 707.4319458007812 2 707.432804 1412.85106 NaN NaN NaN NaN NaN NaN NaN 49.295 1 49.95 49.45 50.45 0.65524 0 0 0 1.008 1 22550 22550 0.35063 0.043601 1 34180 6582 21674 21743 38503 38503 0.16114363404517462 VGENFRFW 8 Unmodified _VGENFRFW_ 0 0 0 REV__nc|ENSG00000127586|Q8WVB6-3|CHTF18 REV__nc|ENSG00000127586|Q8WVB6-3|CHTF18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.1955871582031 3 352.175015 1053.50321 NaN NaN NaN NaN NaN NaN NaN 21.672 1 21.672 21.172 22.172 0 0 0 0 0.99035 1 9708 9708 4.3292 2.485 1 + 34181 11744 21675 21744 38504 38504 -0.02139679525430438 VGENWWYRG 9 Unmodified _VGENWWYRG_ 0 0 0 ENSG00000081148|ENST00000193391|IMPG2 ENSG00000081148|ENST00000193391|IMPG2 ENSG00000081148|ENST00000193391|IMPG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 583.7733764648438 2 583.772522 1165.53049 NaN NaN NaN NaN NaN NaN NaN 35.346 1 36.137 35.637 36.637 0.79131 0 0 0 0.91206 1 16019 16019 0.6015 0 1 34182 918 21676 21745 38505 38505 -0.04565195985082937 VGERLCARV 9 Unmodified _VGERLCARV_ 0 0 0 REV__ENST00000536374.1_1_9:80851152-80851524:+|nuORF REV__ENST00000536374.1_1_9:80851152-80851524:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.7801818847656 2 501.779293 1001.54403 NaN NaN NaN NaN NaN NaN NaN 47.071 1 47.9 47.4 48.4 0.82915 0 0 0 0.91014 1 21443 21443 2.0598 0 1 + 34183 12520 21677 21746 38506 38506 0.04332338522533519 VGERLGRL 8 Unmodified _VGERLGRL_ 0 0 0 REV__ENST00000483405.5_2_16:29911714-29911888:+|nuORF REV__ENST00000483405.5_2_16:29911714-29911888:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.2762145996094 2 450.274701 898.534849 2.3708 0.0010675 0.26678 0.00012013 2.6376 0.0011876 450.2747576375502 89.089 0.40902 89.089 88.882 89.291 0 127 60 3 0 0 0 0.7471 1 46401 46401 0.79363 0 1 41634000 + 34184 16719 21678 21747 38507 38507 0.08152313228526964 VGERLGRL 8 Unmodified _VGERLGRL_ 0 0 0 REV__ENST00000483405.5_2_16:29911714-29911888:+|nuORF REV__ENST00000483405.5_2_16:29911714-29911888:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 450.2753601074219 2 450.274701 898.534849 1.8534 0.00083455 0.26539 0.0001195 2.1188 0.00095405 450.27469641160707 88.561 0.34267 88.613 88.406 88.749 0.052147 100 46 3 0 0 0 0.7471 1 45109 45109 0.79363 0 1 37735000 + 34185 16719 21678 21747 38508 38508 0.08152313228526964 VGERLGRL 8 Unmodified _VGERLGRL_ 0 0 0 REV__ENST00000483405.5_2_16:29911714-29911888:+|nuORF REV__ENST00000483405.5_2_16:29911714-29911888:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 899.5474853515625 1 899.542126 898.534849 4.1983 0.0037765 0.5637 0.00050707 4.762 0.0042836 899.5425195700883 88.458 0.33607 88.709 88.514 88.85 0.25118 20 15 2 0 0 0 0.7471 1 40673 40673 0.79363 0 1 809370 + 34186 16719 21678 21747 38509 38509 0.08152313228526964 VGERLGRL 8 Unmodified _VGERLGRL_ 0 0 0 REV__ENST00000483405.5_2_16:29911714-29911888:+|nuORF REV__ENST00000483405.5_2_16:29911714-29911888:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 899.5467529296875 1 899.542126 898.534849 4.0789 0.0036691 1.057 0.00095084 5.1359 0.00462 899.5424712155217 88.055 0.25813 88.733 88.62 88.878 0.67818 21 11 3 0 0 0 0.7471 1 40559 40559 0.79363 0 1 932160 + 34187 16719 21678 21747 38510 38510 0.08152313228526964 VGERLGRL 8 Unmodified _VGERLGRL_ 0 0 0 REV__ENST00000483405.5_2_16:29911714-29911888:+|nuORF REV__ENST00000483405.5_2_16:29911714-29911888:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 899.542126 898.534849 4.1983 0.0037765 0.5637 0.00050707 4.762 0.0042836 899.5425195700883 88.458 0.33607 88.709 88.514 88.85 0.25118 -0.01223 -0.00022454 NaN 0.79363 20 15 2 NaN NaN NaN NaN 0 NaN NaN 0 809370 + 34188 16719 21678 21747 0.08152313228526964 VGERLGRL 8 Unmodified _VGERLGRL_ 0 0 0 REV__ENST00000483405.5_2_16:29911714-29911888:+|nuORF REV__ENST00000483405.5_2_16:29911714-29911888:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 899.542126 898.534849 4.0789 0.0036691 1.057 0.00095084 5.1359 0.00462 899.5424712155217 88.055 0.25813 88.733 88.62 88.878 0.67818 0.01223 0.00021923 NaN 0.79363 21 11 3 NaN NaN NaN NaN 0 NaN NaN 0 932160 + 34189 16719 21678 21747 0.08152313228526964 VGERLPLLS 9 Unmodified _VGERLPLLS_ 0 0 0 REV__ENST00000447795.3_1_1:151252674-151254135:-|nuORF REV__ENST00000447795.3_1_1:151252674-151254135:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.29986572265625 2 492.297842 982.581131 NaN NaN NaN NaN NaN NaN NaN 36.686 1 36.944 36.444 37.444 0.25768 0 0 0 0.90611 1 16710 16710 2.0598 0 1 + 34190 16390 21679 21748 38511 38511 0.08914333339953373 VGERNDFYF 9 Unmodified _VGERNDFYF_ 0 0 0 REV__ENSG00000136449|ENST00000323776|MYCBPAP REV__ENSG00000136449|ENST00000323776|MYCBPAP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 573.7628784179688 2 573.764363 1145.51417 NaN NaN NaN NaN NaN NaN NaN 44.869 1 45.519 45.019 46.019 0.64998 0 0 0 0.89683 1 20563 20563 4.3292 1.7518 1 + 34191 12070 21680 21749 38512 38512 -0.052763219418238805 VGERRQLI 8 Unmodified _VGERRQLI_ 0 0 0 ENSG00000141756|ENST00000321562|FKBP10;ENST00000464180.1_1_17:39977184-39978657:+|nuORF;nc|ENSG00000141756|Q96AY3-2|FKBP10 ENSG00000141756|ENST00000321562|FKBP10 ENSG00000141756|ENST00000321562|FKBP10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.1991271972656 3 324.197931 969.571963 2.2233 0.0007208 1.1294 0.00036615 3.3527 0.001087 324.19838135073843 16.643 0.85959 17.301 16.755 17.614 0.65798 148 90 2 0 0 0 0.73686 2 7334 7334;7379 1.8442 0 1 122590 34192 3285 21681 21750 38513;38514 38513 0.08595984774274257 VGERYLRRR 9 Unmodified _VGERYLRRR_ 0 0 0 REV__ENST00000548759.1_1_12:113495266-113495848:+|nuORF REV__ENST00000548759.1_1_12:113495266-113495848:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 602.8563842773438 2 602.854712 1203.69487 NaN NaN NaN NaN NaN NaN NaN 30.209 1 30.467 29.967 30.967 0.25804 0 0 0 0.91206 1 13749 13749 0.6015 0 1 + 34193 17262 21682 21751 38515 38515 0.10117241225543694 VGESELFDKR 10 Unmodified _VGESELFDKR_ 0 0 0 REV__nc|ENSG00000165181|Q5VXU9-3|SHOC1 REV__nc|ENSG00000165181|Q5VXU9-3|SHOC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8728942871094 3 393.87166 1178.59315 2.9222 0.001151 0.75594 0.00029774 3.6782 0.0014487 393.8718647202667 15.487 0.55182 16.141 15.86 16.412 0.65356 127 76 3 0 0 0 0.90196 1 6905 6905 1.7423 0.52744 1 108030 + 34194 18022 21683 21752 38516 38516 0.010999052924717034 VGESGRRP 8 Unmodified _VGESGRRP_ 0 0 0 REV__ENST00000409854.5_1_2:222428974-222429013:-|nuORF REV__ENST00000409854.5_1_2:222428974-222429013:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 429.2345275878906 2 429.233033 856.451513 NaN NaN NaN NaN NaN NaN NaN 64.31 1 65.025 64.525 65.525 0.71521 0 0 0 0.95658 1 30291 30291 8.5933 2.8329 1 + 34195 16103 21684 21753 38517 38517 0.01754576780649586 VGETFRLRDRE 11 Unmodified _VGETFRLRDRE_ 0 0 0 REV__ENSG00000213780|ENST00000259895|GTF2H4 REV__ENSG00000213780|ENST00000259895|GTF2H4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 689.3634643554688 2 689.365307 1376.71606 NaN NaN NaN NaN NaN NaN NaN 47.648 1 48.477 47.977 48.977 0.82915 0 0 0 1.0072 1 21709 21709 1.3295 0.87119 1 + 34196 14501 21685 21754 38518 38518 0.042771617437665554 VGEYKRRMQ 9 Unmodified _VGEYKRRMQ_ 0 0 0 HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|111|2|anti-sense HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|111|2|anti-sense HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|111|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 583.6697998046875 2 583.808582 1165.60261 NaN NaN NaN NaN NaN NaN NaN 16.377 1 16.578 16.078 17.078 0.20057 0 0 0 0.91206 1 7233 7233 0.6015 0 1 34197 9398 21686 21755 38519 38519 0.02643395097015855 VGFADKLRL 9 Unmodified _VGFADKLRL_ 0 0 0 nc|ENSG00000243710|Q96MR6-2|CFAP57;ENSG00000243710|ENST00000372492|CFAP57 nc|ENSG00000243710|Q96MR6-2|CFAP57 nc|ENSG00000243710|Q96MR6-2|CFAP57 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.8061828613281 2 509.805834 1017.59712 NaN NaN NaN NaN NaN NaN NaN 80.159 1 80.408 79.908 80.908 0.24947 0 0 0 0.90511 1 36909 36909 2.3027 0 1 34198 6240 21687 21756 38520 38520 0.08902039576821608 VGFAGGYT 8 Unmodified _VGFAGGYT_ 0 0 0 nc|ENSG00000175806|Q9UJ68-2|MSRA;ENST00000523637.2_1_8:9953486-10177544:+|nuORF;nc|ENSG00000175806|Q9UJ68-3|MSRA;nc|ENSG00000175806|Q9UJ68-5|MSRA;ENSG00000175806|ENST00000317173|MSRA nc|ENSG00000175806|Q9UJ68-2|MSRA nc|ENSG00000175806|Q9UJ68-2|MSRA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 771.368896484375 1 771.367181 770.359904 3.1066 0.0023963 -0.36532 -0.0002818 2.7413 0.0021145 771.3667590547907 71.924 0.28218 71.924 71.777 72.059 0 46 27 2 0 0 0 0.7471 1 34965 34965 0.79363 0 1 3390200 34199 5046 21688 21757 38521 38521 -0.0344610663654521 VGFCPEGP 8 Unmodified _VGFCPEGP_ 0 0 0 ENST00000484112.5_1_7:99037182-99048419:+|nuORF;ENSG00000187959|ENST00000344935|CPSF4L;ENST00000471455.1_1_7:99042440-99051625:+|nuORF;nc|ENSG00000160917|O95639-3|CPSF4;nc|ENSG00000160917|O95639-2|CPSF4;ENSG00000160917|ENST00000292476|CPSF4 ENST00000484112.5_1_7:99037182-99048419:+|nuORF ENST00000484112.5_1_7:99037182-99048419:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 403.181640625 2 403.181089 804.347625 NaN NaN NaN NaN NaN NaN NaN 21.988 1 21.988 21.488 22.488 0 0 0 0 0.99035 1 9852 9852 0.79363 0 1 34200 4086 21689 21758 38522 38522 -0.062374663712148504 VGFDDDEEEED 11 Unmodified _VGFDDDEEEED_ 0 0 0 REV__ENSG00000080603|ENST00000262518|SRCAP REV__ENSG00000080603|ENST00000262518|SRCAP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 649.876220703125 2 649.730777 1297.447 NaN NaN NaN NaN NaN NaN NaN 92.45 1 93.098 92.598 93.598 0.64714 0 0 0 1.0072 1 42535 42535 1.3295 0.9789 1 + 34201 10597 21690 21759 38523 38523 -0.18982486524737396 VGFEGATC 8 Unmodified _VGFEGATC_ 0 0 0 ENSG00000130702|ENST00000252999|LAMA5 ENSG00000130702|ENST00000252999|LAMA5 ENSG00000130702|ENST00000252999|LAMA5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 784.2905883789062 1 783.334166 782.32689 3.3407 0.0026169 -0.32308 -0.00025308 3.0177 0.0023638 783.3342742654605 96.066 0.058563 96.066 96.027 96.085 0 8 6 2 0 0 0 0.7471 1 51889 51889 0.79363 0 1 14967000 34202 2608 21691 21760 38524 38524 -0.07298056750892101 VGFFLLLLLIK 11 Unmodified _VGFFLLLLLIK_ 0 0 0 REV__nc|ENSG00000130055|Q9HCC8-2|GDPD2 REV__nc|ENSG00000130055|Q9HCC8-2|GDPD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 638.4247436523438 2 638.425585 1274.83662 NaN NaN NaN NaN NaN NaN NaN 26.444 1 26.709 26.209 27.209 0.26489 0 0 0 1.008 1 12015 12015 0.35063 0 1 + 34203 11800 21692 21761 38525 38525 0.21019221475330596 VGFHHMLYALD 11 Unmodified _VGFHHMLYALD_ 0 0 0 REV__ENST00000490922.1_1_22:24936902-24943992:-|nuORF REV__ENST00000490922.1_1_22:24936902-24943992:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.8834533691406 3 434.881502 1301.62268 NaN NaN NaN NaN NaN NaN NaN 15.037 1 15.344 14.844 15.844 0.3069 0 0 0 1.0079 1 6797 6797 0.45452 0.29519 1 + 34204 12199 21693 21762 38526 38526 -0.016068539630396117 VGFHIVLKKLI 11 Unmodified _VGFHIVLKKLI_ 0 0 0 REV__nc|ENSG00000106771|Q9H330-4|TMEM245 REV__nc|ENSG00000106771|Q9H330-4|TMEM245 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.920166015625 2 633.918458 1265.82236 NaN NaN NaN NaN NaN NaN NaN 32.698 1 32.698 32.198 33.198 0 0 0 0 1.008 1 14809 14809 0.35063 0.35063 1 + 34205 11095 21694 21763 38527 38527 0.20008569047035962 VGFHRMEFL 9 Unmodified _VGFHRMEFL_ 0 0 0 REV__ENST00000261712.7_1_17:30808180-30808330:+|nuORF REV__ENST00000261712.7_1_17:30808180-30808330:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 568.518798828125 2 568.289494 1134.56443 NaN NaN NaN NaN NaN NaN NaN 91.658 1 91.909 91.409 92.409 0.25163 0 0 0 0.91206 1 42144 42144 0.6015 0 1 + 34206 14969 21695 21764 38528 38528 0.002535091823347102 VGFKELLRRLK 11 Unmodified _VGFKELLRRLK_ 0 0 0 ENST00000508604.5_1_4:77039101-77051958:-|nuORF;nc|ENSG00000138750|Q7Z3B4-2|NUP54;nc|ENSG00000138750|Q7Z3B4-3|NUP54;ENSG00000138750|ENST00000264883|NUP54 ENST00000508604.5_1_4:77039101-77051958:-|nuORF ENST00000508604.5_1_4:77039101-77051958:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 679.9349975585938 2 679.935171 1357.85579 NaN NaN NaN NaN NaN NaN NaN 56.621 1 56.886 56.386 57.386 0.26543 0 0 0 1.008 1 25905 25905 0.35063 0 1 34207 3113 21696 21765 38529 38529 0.19117570818934837 VGFLKPKFK 9 Unmodified _VGFLKPKFK_ 0 0 0 nc|ENSG00000150687|O95084-2|PRSS23;ENSG00000150687|ENST00000280258|PRSS23 nc|ENSG00000150687|O95084-2|PRSS23 nc|ENSG00000150687|O95084-2|PRSS23 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 532.3358764648438 2 532.33677 1062.65899 NaN NaN NaN NaN NaN NaN NaN 102.2 1 102.52 102.02 103.02 0.31737 0 0 0 0.91206 1 47277 47277 0.6015 0 1 34208 3674 21697 21766 38530 38530 0.1301639099597196 VGFLLIILILL 11 Unmodified _VGFLLIILILL_ 0 0 0 ENSG00000277481|ENST00000620267|PKD1L3 ENSG00000277481|ENST00000620267|PKD1L3 ENSG00000277481|ENST00000620267|PKD1L3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.9288940429688 2 613.927961 1225.84137 NaN NaN NaN NaN NaN NaN NaN 30.322 1 30.322 29.822 30.822 0 0 0 0 1.008 1 13697 13697 0.35063 0.35063 1 34209 6354 21698 21767 38531 38531 0.23748105618096815 VGFLLIILILL 11 Unmodified _VGFLLIILILL_ 0 0 0 ENSG00000277481|ENST00000620267|PKD1L3 ENSG00000277481|ENST00000620267|PKD1L3 ENSG00000277481|ENST00000620267|PKD1L3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.9281616210938 2 613.927961 1225.84137 NaN NaN NaN NaN NaN NaN NaN 101.51 1 101.57 101.07 102.07 0.057198 0 0 0 1.008 1 55121 55121 0.35063 0 1 34210 6354 21698 21767 38532 38532 0.23748105618096815 VGFLLLKYRA 10 Unmodified _VGFLLLKYRA_ 0 0 0 ENSG00000198681|ENST00000356661|MAGEA1 ENSG00000198681|ENST00000356661|MAGEA1 ENSG00000198681|ENST00000356661|MAGEA1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.89105224609375 3 393.913131 1178.71756 2.8149 0.0011088 1.8421 0.00072562 4.657 0.0018344 393.9130726552721 38.22 0.47773 38.484 38.246 38.724 0.26408 34 14 3 0 0 0 0.12676 1 17392 17392 4.1895 3.4918 1 621180 34211 5913 21699 21768 38533 38533 0.13535447570461656 VGFNMRKVT 9 Unmodified _VGFNMRKVT_ 0 0 0 ENST00000444332.1_1_3:5164021-5212295:+|nuORF;nc|ENSG00000134108|Q9NVJ2-2|ARL8B;ENSG00000134108|ENST00000256496|ARL8B ENST00000444332.1_1_3:5164021-5212295:+|nuORF ENST00000444332.1_1_3:5164021-5212295:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.1977844238281 3 351.195421 1050.56443 NaN NaN NaN NaN NaN NaN NaN 25.18 1 25.448 24.948 25.948 0.26777 0 0 0 0.90611 1 11425 11425 1.0715 0.10919 1 34212 2785 21700 21769 38534 38534 0.04117509182333379 VGFQLLASLPE 11 Unmodified _VGFQLLASLPE_ 0 0 0 REV__nc|ENSG00000099968|Q9BXK5-2|BCL2L13 REV__nc|ENSG00000099968|Q9BXK5-2|BCL2L13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.3325805664062 2 587.329339 1172.64412 3.4761 0.0020416 0.92159 0.00054128 4.3977 0.0025829 587.3296169153609 35.539 0.28331 35.794 35.683 35.966 0.25524 16 9 2 0 0 0 0.84422 1 16197 16197 4.897 1.3005 1 379200 + 34213 10796 21701 21770 38535 38535 0.06470854337317178 VGFRKRDV 8 Unmodified _VGFRKRDV_ 0 0 0 ENSG00000180902|ENST00000321264|D2HGDH ENSG00000180902|ENST00000321264|D2HGDH ENSG00000180902|ENST00000321264|D2HGDH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 488.7895812988281 2 488.787976 975.561398 NaN NaN NaN NaN NaN NaN NaN 39.926 1 39.926 39.426 40.426 0 0 0 0 0.99035 1 18121 18121 5.7604 1.0044 1 34214 5270 21702 21771 38536 38536 0.07264002119848101 VGFRRRKKLI 10 Unmodified _VGFRRRKKLI_ 0 0 0 ENST00000395954.3_1_20:52773958-52774087:-|nuORF ENST00000395954.3_1_20:52773958-52774087:-|nuORF ENST00000395954.3_1_20:52773958-52774087:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 636.924560546875 2 636.922398 1271.83024 NaN NaN NaN NaN NaN NaN NaN 61.549 1 62.288 61.788 62.788 0.7396 0 0 0 1.0015 1 28560 28560 0.45834 0.057624 1 34215 7562 21703 21772 38537 38537 0.20520141087172306 VGFVFKNYL 9 Unmodified _VGFVFKNYL_ 0 0 0 ENST00000348225.6_1_7:136912667-136912763:-|nuORF ENST00000348225.6_1_7:136912667-136912763:-|nuORF ENST00000348225.6_1_7:136912667-136912763:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.2543029785156 3 362.870932 1085.59097 2.764 0.001003 0.26337 9.557E-05 3.0273 0.0010985 362.87107377844796 20.742 0.215 20.742 20.596 20.811 0 31 19 2 0 0 0 0.11383 1 9285 9285 1.1933 0 1 120940 34216 7125 21704 21773 38538 38538 0.05159521345331086 VGFVFRHEIK 10 Unmodified _VGFVFRHEIK_ 0 0 0 ENSG00000000003|ENST00000373020|TSPAN6 ENSG00000000003|ENST00000373020|TSPAN6 ENSG00000000003|ENST00000373020|TSPAN6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.3495483398438 2 616.35094 1230.68733 NaN NaN NaN NaN NaN NaN NaN 58.501 1 59.26 58.76 59.76 0.75894 0 0 0 1.0003 1 26833 26833 1.4819 0.15237 1 34217 294 21705 21774 38539 38539 0.08121088905249962 VGFWMYHFH 9 Unmodified _VGFWMYHFH_ 0 0 0 HERV16-int_dup506|chr4:121323106-121323560:-|1.69984759830497|0.0170332101147509|6.64|516.0|27|2|anti-sense HERV16-int_dup506|chr4:121323106-121323560:-|1.69984759830497|0.0170332101147509|6.64|516.0|27|2|anti-sense HERV16-int_dup506|chr4:121323106-121323560:-|1.69984759830497|0.0170332101147509|6.64|516.0|27|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 612.2754516601562 2 612.276386 1222.53822 NaN NaN NaN NaN NaN NaN NaN 20.547 1 21.201 20.701 21.701 0.65346 0 0 0 0.91206 1 9331 9331 0.6015 0 1 34218 9396 21706 21775 38540 38540 -0.06414759989138474 VGFYNCYNVDF 11 Unmodified _VGFYNCYNVDF_ 0 0 0 REV__Tigger1_dup9926|chr14:33917986-33920131:+|2.144223155159988|0.1272725466014813|4.07|536.0|29|2|sense REV__Tigger1_dup9926|chr14:33917986-33920131:+|2.144223155159988|0.1272725466014813|4.07|536.0|29|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.7869873046875 2 670.784438 1339.55432 NaN NaN NaN NaN NaN NaN NaN 104.32 1 104.38 103.88 104.88 0.052994 0 0 0 1.008 1 56491 56491 0.35063 0 1 + 34219 18233 21707 21776 38541 38541 -0.10187143333587301 VGGCGGGC 8 Unmodified _VGGCGGGC_ 0 0 0 REV__nc|ENSG00000284704|A0A286YF60|SCYGR3 REV__nc|ENSG00000284704|A0A286YF60|SCYGR3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 608.75830078125 1 609.211943 608.204666 2.5462 0.0015512 -0.92656 -0.00056447 1.6196 0.00098669 609.2130850901144 85.198 0.055092 85.227 85.206 85.261 0.028603 6 4 2 0 0 0 0.14333 1 42634 42634 0.79363 0 1 1172100 + 34220 18164 21708 21777 38542 38542 -0.11510797034100051 VGGEIVTIAHL 11 Unmodified _VGGEIVTIAHL_ 0 0 0 nc|ENSG00000184432|P35606-2|COPB2;ENSG00000184432|ENST00000333188|COPB2 nc|ENSG00000184432|P35606-2|COPB2 nc|ENSG00000184432|P35606-2|COPB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.9005126953125 2 554.821681 1107.62881 NaN NaN NaN NaN NaN NaN NaN 28.122 1 28.122 27.622 28.622 0 0 0 0 1.0072 1 12675 12675 1.3295 0.5359 1 34221 5440 21709 21778 38543 38543 0.0792998754011478 VGGGKKPKYP 10 Unmodified _VGGGKKPKYP_ 0 0 0 ENST00000574828.1_1_17:80584850-80606216:-|nuORF;WDR45B|p.S282Pfs*56|1|0.29|ENSG00000141580|chr17:82616608-82616608|A/-|frameshift_variant;ENSG00000141580|ENST00000392325|WDR45B ENST00000574828.1_1_17:80584850-80606216:-|nuORF ENST00000574828.1_1_17:80584850-80606216:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.2077941894531 3 344.206315 1029.59712 NaN NaN NaN NaN NaN NaN NaN 28.246 1 28.508 28.008 29.008 0.26245 0 0 0 0.99954 1 12846 12846 2.086 0.89267 1 34222 3274 21710 21779 38544 38544 0.08350039576839663 VGGHHPEPLEV 11 Unmodified _VGGHHPEPLEV_ 0 0 0 ENST00000600795.1_1_11:77884868-77885513:+|nuORF ENST00000600795.1_1_11:77884868-77885513:+|nuORF ENST00000600795.1_1_11:77884868-77885513:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.7979125976562 2 585.798737 1169.58292 NaN NaN NaN NaN NaN NaN NaN 86.671 1 87.347 86.847 87.847 0.67555 0 0 0 1.0072 1 39927 39927 1.3295 0 1 34223 9298 21711 21780 38545 38545 0.004913423578727816 VGGHYLYNEKE 11 Unmodified _VGGHYLYNEKE_ 0 0 0 ENSG00000169084|ENST00000334651|DHRSX ENSG00000169084|ENST00000334651|DHRSX ENSG00000169084|ENST00000334651|DHRSX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 436.8959655761719 3 436.878815 1307.61462 NaN NaN NaN NaN NaN NaN NaN 11.786 1 11.786 11.286 12.286 0 0 0 0 1.008 1 5124 5124 0.094841 0 1 34224 4669 21712 21781 38546 38546 -0.026887096788186682 VGGHYLYNEKE 11 Unmodified _VGGHYLYNEKE_ 0 0 0 ENSG00000169084|ENST00000334651|DHRSX ENSG00000169084|ENST00000334651|DHRSX ENSG00000169084|ENST00000334651|DHRSX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.55316162109375 3 436.878815 1307.61462 NaN NaN NaN NaN NaN NaN NaN 15.588 1 15.799 15.299 16.299 0.21108 0 0 0 1.008 1 6877 6877 0.094841 0 1 34225 4669 21712 21781 38547 38547 -0.026887096788186682 VGGHYLYNEKE 11 Unmodified _VGGHYLYNEKE_ 0 0 0 ENSG00000169084|ENST00000334651|DHRSX ENSG00000169084|ENST00000334651|DHRSX ENSG00000169084|ENST00000334651|DHRSX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.8805236816406 3 436.878815 1307.61462 NaN NaN NaN NaN NaN NaN NaN 15.998 1 16.21 15.71 16.71 0.21108 0 0 0 1.008 1 7065 7065 0.094841 0 1 34226 4669 21712 21781 38548 38548 -0.026887096788186682 VGGIIDVPVQL 11 Unmodified _VGGIIDVPVQL_ 0 0 0 nc|ENSG00000134955|Q8TED4-3|SLC37A2;ENST00000526405.5_1_11:124933263-124955028:+|nuORF nc|ENSG00000134955|Q8TED4-3|SLC37A2 nc|ENSG00000134955|Q8TED4-3|SLC37A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.332763671875 2 555.331882 1108.64921 NaN NaN NaN NaN NaN NaN NaN 103.31 1 103.31 102.81 103.81 0 0 0 0 1.0072 1 56952 56952 1.3295 0.5359 1 34227 8675 21713 21782 38549 38549 0.09923158199944737 VGGIKALF 8 Unmodified _VGGIKALF_ 0 0 0 REV__ENST00000491936.5_1_1:25664838-25679420:+|nuORF REV__ENST00000491936.5_1_1:25664838-25679420:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 402.7528991699219 2 402.752539 803.490525 NaN NaN NaN NaN NaN NaN NaN 69.737 1 70.44 69.94 70.94 0.70302 0 0 0 0.99035 1 33387 33387 2.5775 0 1 + 34228 15784 21714 21783 38550 38550 0.0809190908232722 VGGILSLFKP 10 Unmodified _VGGILSLFKP_ 0 0 0 REV__ENST00000389201.7_1_19:51052051-51071289:-|nuORF REV__ENST00000389201.7_1_19:51052051-51071289:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.2157287597656 3 344.214699 1029.62227 2.5998 0.00089489 0.45895 0.00015798 3.0588 0.0010529 344.2151650793266 37.085 0.42527 37.346 37.022 37.447 0.26083 26 13 3 0 0 0 0.74998 1 16912 16912 9.544 0.56773 1 449970 + 34229 15908 21715 21784 38551 38551 0.10864094379417111 VGGINVLLKPN 11 Unmodified _VGGINVLLKPN_ 0 0 0 ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN ENSG00000169710|ENST00000306749|FASN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.3453979492188 2 562.345323 1122.67609 NaN NaN NaN NaN NaN NaN NaN 83.089 1 83.336 82.836 83.836 0.24722 0 0 0 1.0071 1 38247 38247 1.4819 0.95714 1 34230 4706 21716 21785 38552 38552 0.11966266811123205 VGGKAPRLPQ 10 Unmodified _VGGKAPRLPQ_ 0 0 0 ENST00000565298.5_1_16:1576517-1634259:-|nuORF ENST00000565298.5_1_16:1576517-1634259:-|nuORF ENST00000565298.5_1_16:1576517-1634259:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 341.2173767089844 3 341.541697 1021.60326 2.5848 0.00088282 2.0363 0.00069548 4.6211 0.0015783 341.542564724172 12.92 0.13159 13.563 13.48 13.612 0.64272 8 3 3 0 0 0 0.12676 1 5781 5781 0.77653 0.31819 1 384760 34231 9041 21717 21786 38553 38553 0.09332557808374986 VGGKMTDLGRL 11 Unmodified _VGGKMTDLGRL_ 0 0 0 nc|ENSG00000079841|Q86UR5-12|RIMS1;nc|ENSG00000079841|Q86UR5-5|RIMS1;nc|ENSG00000079841|Q86UR5-3|RIMS1;nc|ENSG00000079841|Q86UR5-4|RIMS1;ENSG00000079841|ENST00000521978|RIMS1;ENST00000524197.1_1_6:72926891-72975792:+|nuORF;nc|ENSG00000079841|Q86UR5-10|RIMS1;nc|ENSG00000079841|Q86UR5-13|RIMS1;nc|ENSG00000079841|Q86UR5-9|RIMS1;nc|ENSG00000079841|Q86UR5-2|RIMS1;nc|ENSG00000079841|Q86UR5-8|RIMS1;nc|ENSG00000079841|Q86UR5-7|RIMS1;nc|ENSG00000079841|Q86UR5-6|RIMS1 nc|ENSG00000079841|Q86UR5-12|RIMS1 nc|ENSG00000079841|Q86UR5-12|RIMS1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 573.326416015625 2 573.818615 1145.62268 4.2201 0.0024216 0.96751 0.00055518 5.1877 0.0029768 573.8207679375669 101.99 0.13423 102.31 102.24 102.37 0.31736 6 4 2 0 0 0 0.13295 1 47187 47187 5.2969 0.96765 1 183470 34232 900 21718 21787 38554 38554 0.05569146036987149 VGGLFLPIPF 10 Unmodified _VGGLFLPIPF_ 0 0 0 ENST00000290776.12_1_16:57181576-57181753:+|nuORF ENST00000290776.12_1_16:57181576-57181753:+|nuORF ENST00000290776.12_1_16:57181576-57181753:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.3167724609375 2 530.315503 1058.61645 NaN NaN NaN NaN NaN NaN NaN 6.7112 1 6.7112 6.2112 7.2112 0 0 0 0 0.99983 1 3038 3038 1.8442 0 1 34233 6734 21719 21788 38555 38555 0.0894899586774045 VGGLGWCFMVF 11 Unmodified _VGGLGWCFMVF_ 0 0 0 ENSG00000238227|ENST00000418388|TMEM250 ENSG00000238227|ENST00000418388|TMEM250 ENSG00000238227|ENST00000418388|TMEM250 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.8619384765625 3 405.861162 1214.56166 2.9649 0.0012033 -0.1952 -7.9224E-05 2.7697 0.0011241 405.8611639115699 17.236 0.41504 17.897 17.687 18.102 0.66072 63 29 3 0 0 0 0.87362 1 7694 7694 1.4551 0 1 491390 34234 6207 21720 21789 38556 38556 -0.0370408226683594 VGGLKVNI 8 Unmodified _VGGLKVNI_ 0 0 0 REV__nc|ENSG00000123908|Q9UKV8-2|AGO2 REV__nc|ENSG00000123908|Q9UKV8-2|AGO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 400.2554016113281 2 400.255446 798.496338 NaN NaN NaN NaN NaN NaN NaN 67.027 1 67.732 67.232 68.232 0.7047 0 0 0 0.99035 1 31811 31811 2.5775 0 1 + 34235 11627 21721 21790 38557 38557 0.08903007593983148 VGGLRLSKVG 10 Unmodified _VGGLRLSKVG_ 0 0 0 ENSG00000198547|ENST00000608990|C20orf203 ENSG00000198547|ENST00000608990|C20orf203 ENSG00000198547|ENST00000608990|C20orf203 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.3108825683594 2 493.311284 984.608014 NaN NaN NaN NaN NaN NaN NaN 32.544 1 33.163 32.663 33.663 0.61831 0 0 0 0.94673 1 14922 14922 13.906 0.39817 1 34236 5899 21722 21791 38558 38558 0.11509441951125154 VGGLTRNPAS 10 Unmodified _VGGLTRNPAS_ 0 0 0 ENST00000487761.5_1_6:32160296-32160455:-|nuORF ENST00000487761.5_1_6:32160296-32160455:-|nuORF ENST00000487761.5_1_6:32160296-32160455:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.2683410644531 2 486.267073 970.519593 3.3921 0.0016495 -0.089821 -4.3677E-05 3.3023 0.0016058 486.26688209225944 93.336 0.44106 93.967 93.745 94.186 0.63115 67 22 4 0 0 0 0.93534 1 42978 42978 1.8442 0.36234 1 3090100 34237 8355 21723 21792 38559 38559 0.03315401640657001 VGGLWPWVL 9 Unmodified _VGGLWPWVL_ 0 0 0 ENSG00000188886|ENST00000342380|ASTL ENSG00000188886|ENST00000342380|ASTL ENSG00000188886|ENST00000342380|ASTL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.7929077148438 2 513.792195 1025.56984 3.5142 0.0018056 -1.9521 -0.001003 1.5621 0.0008026 513.7908592696135 39.337 0.32259 39.975 39.785 40.107 0.63778 26 11 3 0 0 0 0.89849 1 17965 17965 9.3474 4.1168 1 798730 34238 5688 21724 21793 38560 38560 0.05807556036438655 VGGNNSFN 8 Unmodified _VGGNNSFN_ 0 0 0 ENST00000437364.2_1_1:47357320-47357608:+|nuORF ENST00000437364.2_1_1:47357320-47357608:+|nuORF ENST00000437364.2_1_1:47357320-47357608:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.682373046875 2 404.682842 807.351131 NaN NaN NaN NaN NaN NaN NaN 17.167 1 17.367 16.867 17.867 0.20057 0 0 0 0.99035 1 7591 7591 0.79363 0.79363 1 34239 7906 21725 21794 38561 38561 -0.06025080273002459 VGGQCCLSPCL 11 Unmodified _VGGQCCLSPCL_ 0 0 0 ENST00000429422.5_2_3:47893728-47893833:-|nuORF ENST00000429422.5_2_3:47893728-47893833:-|nuORF ENST00000429422.5_2_3:47893728-47893833:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 360.4964294433594 3 360.494262 1078.46096 NaN NaN NaN NaN NaN NaN NaN 27.075 1 27.853 27.353 28.353 0.7787 0 0 0 1.0072 1 12168 12168 0.45452 0.053801 1 34240 7834 21726 21795 38562 38562 -0.07513482312015185 VGGRISPQTV 10 Unmodified _VGGRISPQTV_ 0 0 0 nc|ENSG00000118482|Q92576-2|PHF3;PHF3|p.K1984Vfs*4|1|0.04|ENSG00000118482|chr6:63713536-63713537|-/TGTGAATCACT|frameshift_variant;PHF3|p.K1984Vfs*10|1|0.06|ENSG00000118482|chr6:63713536-63713537|-/TGTGAATCACTAT|frameshift_variant;ENSG00000118482|ENST00000262043|PHF3 nc|ENSG00000118482|Q92576-2|PHF3 nc|ENSG00000118482|Q92576-2|PHF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.2917175292969 2 507.290548 1012.56654 3.287 0.0016675 -0.19881 -0.00010086 3.0882 0.0015666 507.29018554247693 33.807 0.4479 34.061 33.829 34.277 0.25389 32 25 2 0 0 0 0.76575 2 15465 15324;15465 10.074 0 1 342110 34241 2115 21727 21796 38563;38564 38564 0.06076261191810772 VGGRKARPRQF 11 Unmodified _VGGRKARPRQF_ 0 0 0 ENSG00000172232|ENST00000233997|AZU1 ENSG00000172232|ENST00000233997|AZU1 ENSG00000172232|ENST00000233997|AZU1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 636.3659057617188 2 636.375812 1270.73707 NaN NaN NaN NaN NaN NaN NaN 61.538 1 61.79 61.29 62.29 0.25245 0 0 0 1.0072 1 28182 28182 1.3295 0.13619 1 34242 4862 21728 21797 38565 38565 0.11253216633917873 VGGRKRLS 8 Unmodified _VGGRKRLS_ 0 0 0 ENST00000534751.2_1_11:45235120-45235297:+|nuORF ENST00000534751.2_1_11:45235120-45235297:+|nuORF ENST00000534751.2_1_11:45235120-45235297:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 872.5459594726562 1 872.54246 871.535184 4.0168 0.0035048 0.16863 0.00014713 4.1854 0.0036519 872.542569824754 85.834 0.34247 86.083 85.877 86.22 0.24857 25 15 2 0 0 0 0.7471 1 39477 39477 0.79363 0 1 3812700 34243 8758 21729 21798 38566 38566 0.09427732948381617 VGGRKRLS 8 Unmodified _VGGRKRLS_ 0 0 0 ENST00000534751.2_1_11:45235120-45235297:+|nuORF ENST00000534751.2_1_11:45235120-45235297:+|nuORF ENST00000534751.2_1_11:45235120-45235297:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 436.7769775390625 2 436.774868 871.535184 3.7189 0.0016243 0.0050739 2.2161E-06 3.724 0.0016265 436.77484139407653 97.1 0.50665 97.378 97.142 97.649 0.27779 44 24 3 0 0 0 0.7471 1 44561 44561 0.79363 0 1 753170 34244 8758 21729 21798 38567 38567 0.09427732948381617 VGGRKRLS 8 Unmodified _VGGRKRLS_ 0 0 0 ENST00000534751.2_1_11:45235120-45235297:+|nuORF ENST00000534751.2_1_11:45235120-45235297:+|nuORF ENST00000534751.2_1_11:45235120-45235297:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 872.54246 871.535184 4.0908 0.0035694 -0.051606 -4.5028E-05 4.0392 0.0035244 872.5422391228832 85.452 0.40474 86.118 85.922 86.327 0.66566 0.017425 -4.4294E-05 NaN 0.79363 40 18 3 NaN NaN NaN NaN 0 NaN NaN 0 2940400 34245 8758 21729 21798 0.09427732948381617 VGGRNKLKKIL 11 Unmodified _VGGRNKLKKIL_ 0 0 0 nc|ENSG00000109756|Q9Y4G8|RAPGEF2;ENSG00000109756|ENST00000691494|RAPGEF2 nc|ENSG00000109756|Q9Y4G8|RAPGEF2 nc|ENSG00000109756|Q9Y4G8|RAPGEF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.4100952148438 2 613.408789 1224.80303 NaN NaN NaN NaN NaN NaN NaN 15.159 1 15.37 14.87 15.87 0.21108 0 0 0 1.008 1 6678 6678 0.35063 0 1 34246 1684 21730 21799 38568 38568 0.19961612756151226 VGGRQRGI 8 Unmodified _VGGRQRGI_ 0 0 0 REV__ENST00000557815.1_1_15:70350845-70351103:-|nuORF REV__ENST00000557815.1_1_15:70350845-70351103:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.7521667480469 2 421.751393 841.488233 3.1465 0.001327 0.12518 5.2796E-05 3.2717 0.0013798 421.75137799306503 84.077 0.384 84.739 84.549 84.933 0.66219 42 19 3 0 0 0 0.7471 1 38680 38680 0.79363 0 1 3115500 + 34247 17339 21731 21800 38569 38569 0.06114873397245901 VGGRQRGI 8 Unmodified _VGGRQRGI_ 0 0 0 REV__ENST00000557815.1_1_15:70350845-70351103:-|nuORF REV__ENST00000557815.1_1_15:70350845-70351103:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 421.751393 841.488233 2.9467 0.0012428 0.13972 5.8925E-05 3.0864 0.0013017 421.7514085742062 84.453 0.42581 84.701 84.474 84.9 0.24758 -0.019158 6.0273E-06 NaN 0.79363 63 25 3 NaN NaN NaN NaN 0 NaN NaN 0 2639400 + 34248 17339 21731 21800 0.06114873397245901 VGGVLAKA 8 Unmodified _VGGVLAKA_ 0 0 0 REV__ENST00000317122.2_1_1:16161889-16162045:-|nuORF REV__ENST00000317122.2_1_1:16161889-16162045:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.73065185546875 2 357.729064 713.443575 NaN NaN NaN NaN NaN NaN NaN 71.483 1 72.146 71.646 72.646 0.66324 0 0 0 0.99035 1 32765 32765 0.79363 0 1 + 34249 15297 21732 21801 38570 38570 0.07539049531180808 VGGVNYYFNVK 11 Unmodified _VGGVNYYFNVK_ 0 0 0 ENSG00000170367|ENST00000304710|CST5 ENSG00000170367|ENST00000304710|CST5 ENSG00000170367|ENST00000304710|CST5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 630.3255004882812 2 630.324588 1258.63462 NaN NaN NaN NaN NaN NaN NaN 107.98 1 108.29 107.79 108.79 0.31421 0 0 0 1.0072 1 49803 49803 1.3295 0.13619 1 34250 4744 21733 21802 38571 38571 0.015650860518007903 VGGVRVGQAV 10 Unmodified _VGGVRVGQAV_ 0 0 0 REV__ENSG00000087884|ENST00000393427|AAMDC REV__ENSG00000087884|ENST00000393427|AAMDC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.7375793457031 2 471.279983 940.545414 NaN NaN NaN NaN NaN NaN NaN 77.932 1 78.594 78.094 79.094 0.66198 0 0 0 0.99774 1 35914 35914 3.5965 0.70727 1 + 34251 10671 21734 21803 38572 38572 0.07276295882957129 VGGYGLAL 8 Unmodified _VGGYGLAL_ 0 0 0 REV__ENST00000589029.1_3_19:38893832-38894179:+|nuORF REV__ENST00000589029.1_3_19:38893832-38894179:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 375.21356201171875 2 375.213246 748.41194 NaN NaN NaN NaN NaN NaN NaN 12.908 1 13.157 12.657 13.657 0.24974 0 0 0 0.99035 1 5619 5619 2.8892 0 1 + 34252 11808 21735 21804 38573 38573 0.027670567772247523 VGGYNNQA 8 Unmodified _VGGYNNQA_ 0 0 0 nc|ENSG00000115183|Q9C0D5-2|TANC1;TANC1|p.S1845Vfs*14|1|0.11|ENSG00000115183|chr2:159230958-159230959|-/GT|frameshift_variant;ENSG00000115183|ENST00000263635|TANC1;ENST00000470074.1_1_2:160076105-160087520:+|nuORF nc|ENSG00000115183|Q9C0D5-2|TANC1 nc|ENSG00000115183|Q9C0D5-2|TANC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 822.5067138671875 1 822.374057 821.366781 3.3931 0.0027904 -3.362 -0.0027648 0.03112 2.5592E-05 822.3705033410234 103.57 0.11829 103.57 103.46 103.58 0 10 6 2 0 0 0 0.7471 2 57026 57026;57059 0.79363 0 1 2423400 34253 1949 21736 21805 38574;38575 38574 -0.05104793755958781 VGGYNNQA 8 Unmodified _VGGYNNQA_ 0 0 0 nc|ENSG00000115183|Q9C0D5-2|TANC1;TANC1|p.S1845Vfs*14|1|0.11|ENSG00000115183|chr2:159230958-159230959|-/GT|frameshift_variant;ENSG00000115183|ENST00000263635|TANC1;ENST00000470074.1_1_2:160076105-160087520:+|nuORF nc|ENSG00000115183|Q9C0D5-2|TANC1 nc|ENSG00000115183|Q9C0D5-2|TANC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 822.37255859375 1 822.374057 821.366781 2.3613 0.0019419 -3.5535 -0.0029223 -1.1922 -0.00098042 822.370340746803 103.51 0.060127 103.57 103.54 103.6 0.055092 9 5 3 0 0 0 0.7471 1 56116 56116 0.79363 0 1 1703000 34254 1949 21736 21805 38576 38576 -0.05104793755958781 VGGYNNQA 8 Unmodified _VGGYNNQA_ 0 0 0 nc|ENSG00000115183|Q9C0D5-2|TANC1;TANC1|p.S1845Vfs*14|1|0.11|ENSG00000115183|chr2:159230958-159230959|-/GT|frameshift_variant;ENSG00000115183|ENST00000263635|TANC1;ENST00000470074.1_1_2:160076105-160087520:+|nuORF nc|ENSG00000115183|Q9C0D5-2|TANC1 nc|ENSG00000115183|Q9C0D5-2|TANC1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 822.374057 821.366781 4.7134 0.0038762 -5.1567 -0.0042408 -0.44331 -0.00036457 822.3698377549813 103.46 0.051041 103.78 103.77 103.82 0.31863 0.14254 -0.00054579 NaN 0.79363 12 6 2 NaN NaN NaN NaN 0 NaN NaN 0 2217700 34255 1949 21736 21805 -0.05104793755958781 VGHAPRRISRS 11 Unmodified _VGHAPRRISRS_ 0 0 0 REV__ENST00000345365.10_1_17:33427984-33428322:-|nuORF REV__ENST00000345365.10_1_17:33427984-33428322:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 618.3551025390625 2 618.357619 1234.70069 NaN NaN NaN NaN NaN NaN NaN 56.225 1 56.893 56.393 57.393 0.66829 0 0 0 1.0073 1 25720 25720 1.1933 0.66858 1 + 34256 15506 21737 21806 38577 38577 0.0927233973723105 VGHDPWVTYH 10 Unmodified _VGHDPWVTYH_ 0 0 0 REV__nc|ENSG00000127329|P23467-4|PTPRB REV__nc|ENSG00000127329|P23467-4|PTPRB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 605.7842407226562 2 605.78563 1209.55671 NaN NaN NaN NaN NaN NaN NaN 46.212 1 46.212 45.712 46.712 0 0 0 0 0.99774 1 21147 21147 3.5965 1.9439 1 + 34257 11736 21738 21807 38578 38578 -0.039689268135816747 VGHERKVQLVT 11 Unmodified _VGHERKVQLVT_ 0 0 0 ENST00000484115.5_1_3:49028265-49040202:+|nuORF;nc|ENSG00000178467|Q9NXG6-2|P4HTM;ENSG00000178467|ENST00000383729|P4HTM;ENST00000472301.5_1_3:49027419-49042675:+|nuORF;nc|ENSG00000178467|Q9NXG6-3|P4HTM;ENST00000609406.1_1_3:49028265-49028403:+|nuORF ENST00000484115.5_1_3:49028265-49040202:+|nuORF ENST00000484115.5_1_3:49028265-49040202:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.5828552246094 3 422.582333 1264.72517 NaN NaN NaN NaN NaN NaN NaN 91.407 1 91.659 91.159 92.159 0.25163 0 0 0 1.0072 1 42032 42032 0.45452 0 1 34258 5170 21739 21808 38579 38579 0.1033955510006308 VGHEVFENYFP 11 Unmodified _VGHEVFENYFP_ 0 0 0 ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENSG00000165102|ENST00000379644|HGSNAT;nc|ENSG00000165102|Q68CP4|HGSNAT ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENSG00000165102|ENST00000379644|HGSNAT ENST00000519705.1_1_8:43052051-43054709:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 669.314453125 2 669.311677 1336.6088 NaN NaN NaN NaN NaN NaN NaN 39.232 1 39.87 39.37 40.37 0.63778 0 0 0 1.0072 1 17932 17932 1.3295 0.87119 1 34259 8625;4371 21740 21809 38580 38580 -0.04603808190495329 VGHEYLPDHYE 11 Unmodified _VGHEYLPDHYE_ 0 0 0 REV__ENST00000489830.5_1_3:185782080-185797655:-|nuORF REV__ENST00000489830.5_1_3:185782080-185797655:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 679.8045043945312 2 679.804217 1357.59388 NaN NaN NaN NaN NaN NaN NaN 103.88 1 103.94 103.44 104.44 0.052994 0 0 0 1.008 1 56284 56284 0.35063 0 1 + 34260 14636 21741 21810 38581 38581 -0.07061300058489905 VGHFNFLFY 9 Unmodified _VGHFNFLFY_ 0 0 0 REV__ENST00000227756.4_1_11:11292512-11292662:-|nuORF REV__ENST00000227756.4_1_11:11292512-11292662:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.8606262207031 3 381.858915 1142.55492 NaN NaN NaN NaN NaN NaN NaN 10.9 1 11.179 10.679 11.679 0.2792 0 0 0 0.91206 1 4733 4733 0.26902 0.033176 1 + 34261 14840 21742 21811 38582 38582 -0.01065935831547904 VGHKNRRKDR 10 Unmodified _VGHKNRRKDR_ 0 0 0 ENST00000491313.5_1_10:99116853-99127090:-|nuORF;ENST00000479481.5_1_10:99116853-99131081:-|nuORF;nc|ENSG00000052749|Q5JTH9-2|RRP12;nc|ENSG00000052749|Q5JTH9-3|RRP12;ENSG00000052749|ENST00000370992|RRP12 ENST00000491313.5_1_10:99116853-99127090:-|nuORF ENST00000491313.5_1_10:99116853-99127090:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.371337890625 2 633.368518 1264.72248 4.1316 0.0026168 1.0957 0.00069396 5.2272 0.0033108 633.3690522411799 89.672 1.7163 89.923 89.418 91.134 0.25137 145 83 3 0 0 0 0.93713 1 41124 41124 0.45834 0 1 1444700 34262 592 21743 21812 38583 38583 0.1007114448577795 VGHKREKE 8 Unmodified _VGHKREKE_ 0 0 0 REV__ENST00000344423.9_1_8:28206100-28206229:-|nuORF REV__ENST00000344423.9_1_8:28206100-28206229:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7767333984375 2 491.775065 981.535577 3.2744 0.0016103 1.0187 0.00050096 4.2931 0.0021112 491.77548194449366 15.005 0.27988 15.659 15.551 15.831 0.65356 39 25 2 0 0 0 0.7471 2 6734 6734;6784 0.79363 0.19213 1 80460 + 34263 15493 21744 21813 38584;38585 38584 0.04407107877557337 VGHLIGQK 8 Unmodified _VGHLIGQK_ 0 0 0 ENST00000348161.8_2_17:52978226-52982863:+|nuORF ENST00000348161.8_2_17:52978226-52982863:+|nuORF ENST00000348161.8_2_17:52978226-52982863:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 426.25994873046875 2 426.25852 850.502486 2.6965 0.0011494 0.12548 5.3486E-05 2.822 0.0012029 426.258643025563 15.736 0.76536 16.042 15.485 16.25 0.306 124 83 2 0 0 0 0.7471 1 7103 7103 0.79363 0 1 58997 34264 7123 21745 21814 38586 38586 0.07125525825529166 VGHLIGQK 8 Unmodified _VGHLIGQK_ 0 0 0 ENST00000348161.8_2_17:52978226-52982863:+|nuORF ENST00000348161.8_2_17:52978226-52982863:+|nuORF ENST00000348161.8_2_17:52978226-52982863:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 426.2608337402344 2 426.25852 850.502486 3.0825 0.0013139 0.74658 0.00031824 3.8291 0.0016322 426.2588751431989 15.638 0.63356 16.292 15.955 16.589 0.65356 137 85 2 0 0 0 0.7471 1 7082 7082 0.79363 0 1 52195 34265 7123 21745 21814 38587 38587 0.07125525825529166 VGHLIGQK 8 Unmodified _VGHLIGQK_ 0 0 0 ENST00000348161.8_2_17:52978226-52982863:+|nuORF ENST00000348161.8_2_17:52978226-52982863:+|nuORF ENST00000348161.8_2_17:52978226-52982863:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 426.26068115234375 2 426.25852 850.502486 NaN NaN NaN NaN NaN NaN NaN 4.2979 1 4.9205 4.4205 5.4205 0.62252 0 0 0 0.99035 1 1950 1950 0.79363 0 1 34266 7123 21745 21814 38588 38588 0.07125525825529166 VGHLRGVN 8 Unmodified _VGHLRGVN_ 0 0 0 REV__nc|ENSG00000165115|Q86VH2-3|KIF27 REV__nc|ENSG00000165115|Q86VH2-3|KIF27 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 426.2466125488281 2 426.245944 850.477334 2.7859 0.0011875 0.16465 7.0182E-05 2.9506 0.0012577 426.2458740580522 77.819 0.25501 78.072 77.973 78.228 0.25335 16 13 2 0 0 0 0.74071 1 35890 35890 2.5775 0 1 517770 + 34267 13137 21746 21815 38589 38589 0.046114710229517186 VGHLRGVN 8 Unmodified _VGHLRGVN_ 0 0 0 REV__nc|ENSG00000165115|Q86VH2-3|KIF27 REV__nc|ENSG00000165115|Q86VH2-3|KIF27 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 426.245944 850.477334 2.8457 0.001213 0.68173 0.00029058 3.5275 0.0015036 426.2462113591972 77.471 0.28102 78.134 78.035 78.316 0.66303 0.030731 0.00021828 NaN 2.5775 25 16 2 NaN NaN NaN NaN 0 NaN NaN 0 449560 + 34268 13137 21746 21815 0.046114710229517186 VGHLRNRKF 9 Unmodified _VGHLRNRKF_ 0 0 0 REV__ENST00000552197.5_1_12:46601388-46602853:-|nuORF REV__ENST00000552197.5_1_12:46601388-46602853:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.8339233398438 2 563.833249 1125.65194 NaN NaN NaN NaN NaN NaN NaN 12.408 1 13.05 12.55 13.55 0.64159 0 0 0 0.90611 1 5558 5558 2.0598 0.21551 1 + 34269 17292 21747 21816 38590 38590 0.0941447116811105 VGHLRVRRF 9 Unmodified _VGHLRVRRF_ 0 0 0 ENST00000441423.1_1:144301300-144301480:-|nuORF ENST00000441423.1_1:144301300-144301480:-|nuORF ENST00000441423.1_1:144301300-144301480:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 570.3506469726562 2 570.349066 1138.68358 NaN NaN NaN NaN NaN NaN NaN 30.718 1 30.718 30.218 31.218 0 0 0 0 0.91206 1 13881 13881 0.6015 0.076735 1 34270 7935 21748 21817 38591 38591 0.11978463922059746 VGHLRVRRFWS 11 Unmodified _VGHLRVRRFWS_ 0 0 0 ENST00000441423.1_1:144301300-144301480:-|nuORF ENST00000441423.1_1:144301300-144301480:-|nuORF ENST00000441423.1_1:144301300-144301480:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 471.6072998046875 3 471.605583 1411.79492 NaN NaN NaN NaN NaN NaN NaN 17.705 1 17.705 17.205 18.205 0 0 0 0 1.008 1 7868 7868 0.094841 0.011491 1 34271 7935 21749 21818 38592 38592 0.10549478559346426 VGHPVKLR 8 Unmodified _VGHPVKLR_ 0 0 0 ENSG00000188984|ENST00000359318|AADACL3 ENSG00000188984|ENST00000359318|AADACL3 ENSG00000188984|ENST00000359318|AADACL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.2869567871094 2 453.287611 904.56067 NaN NaN NaN NaN NaN NaN NaN 82.718 1 82.965 82.465 83.465 0.24722 0 0 0 0.99035 1 38074 38074 0.79363 0 1 34272 5693 21750 21819 38593 38593 0.10457207470801677 VGHRATAL 8 Unmodified _VGHRATAL_ 0 0 0 ENSG00000185634|ENST00000332408|SHC4 ENSG00000185634|ENST00000332408|SHC4 ENSG00000185634|ENST00000332408|SHC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 412.7418518066406 2 412.740494 823.466435 2.8376 0.0011712 -0.10609 -4.3788E-05 2.7315 0.0011274 412.7404492680646 21.312 0.21353 21.312 21.224 21.438 0 35 20 2 0 0 0 0.70146 1 9572 9572 5.7604 0 1 397710 34273 5520 21751 21820 38594 38594 0.04764068648637476 VGHRHQHRLLP 11 Unmodified _VGHRHQHRLLP_ 0 0 0 REV__ENSG00000179922|ENST00000325351|ZNF784 REV__ENSG00000179922|ENST00000325351|ZNF784 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.5945129394531 3 450.593566 1348.75887 NaN NaN NaN NaN NaN NaN NaN 13.688 1 13.995 13.495 14.495 0.30727 0 0 0 1.0072 1 6177 6177 1.3296 0.63198 1 + 34274 13814 21752 21821 38595 38595 0.09844021382514256 VGHRKAVTVV 10 Unmodified _VGHRKAVTVV_ 0 0 0 nc|ENSG00000100084|P54198-2|HIRA;ENST00000509549.5_1_22:19341546-19435194:-|nuORF;ENSG00000100084|ENST00000263208|HIRA nc|ENSG00000100084|P54198-2|HIRA nc|ENSG00000100084|P54198-2|HIRA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.7869873046875 2 533.330008 1064.64546 NaN NaN NaN NaN NaN NaN NaN 103.45 1 103.45 102.95 103.95 0 0 0 0 0.99983 1 57015 57015 1.8442 0 1 34275 1174 21753 21822 38596 38596 0.11572533216735792 VGHVKMTDY 9 Unmodified _VGHVKMTDY_ 0 0 0 ENST00000462503.1_1_8:34180515-34180734:-|nuORF ENST00000462503.1_1_8:34180515-34180734:-|nuORF ENST00000462503.1_1_8:34180515-34180734:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 525.2597045898438 2 525.257859 1048.50117 3.165 0.0016624 0.16135 8.475E-05 3.3263 0.0017472 525.2579148492185 43.798 0.27086 44.612 44.381 44.652 0.81444 19 14 2 0 0 0 0.95612 1 19938 19938 4.756 1.1595 1 149130 34276 8094 21754 21823 38597 38597 -0.021144763255506405 VGHVRRAD 8 Unmodified _VGHVRRAD_ 0 0 0 nc|ENSG00000123453|Q9UL12-2|SARDH;ENSG00000123453|ENST00000439388|SARDH nc|ENSG00000123453|Q9UL12-2|SARDH nc|ENSG00000123453|Q9UL12-2|SARDH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 455.2536315917969 2 455.2543 908.494047 NaN NaN NaN NaN NaN NaN NaN 15.783 1 15.783 15.283 16.283 0 0 0 0 0.99035 1 6982 6982 0.79363 0 1 34277 2314 21755 21824 38598 38598 0.03613971908885105 VGHWDGNM 8 Unmodified _VGHWDGNM_ 0 0 0 ENSG00000092470|ENST00000263795|WDR76 ENSG00000092470|ENST00000263795|WDR76 ENSG00000092470|ENST00000263795|WDR76 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 915.3807373046875 1 915.377762 914.370486 3.4259 0.003136 0.65415 0.00059879 4.0801 0.0037348 915.3777501379745 103.42 0.053101 103.42 103.39 103.44 0 6 2 3 0 0 0 0.7471 1 57012 57012 0.79363 0 1 1211400 34278 1099 21756 21825 38599 38599 -0.09012447253735445 VGHWYQRIPVT 11 Unmodified _VGHWYQRIPVT_ 0 0 0 ENSG00000198780|ENST00000687041|FAM169A ENSG00000198780|ENST00000687041|FAM169A ENSG00000198780|ENST00000687041|FAM169A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.9945678710938 2 678.364579 1354.7146 NaN NaN NaN NaN NaN NaN NaN 91.598 1 91.85 91.35 92.35 0.25163 0 0 0 1.008 1 42117 42117 0.35063 0 1 34279 5933 21757 21826 38600 38600 0.05143572445626887 VGHYQYQY 8 Unmodified _VGHYQYQY_ 0 0 0 REV__ENST00000493764.1_1_7:96651510-96653935:-|nuORF REV__ENST00000493764.1_1_7:96651510-96653935:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.241455078125 2 529.240524 1056.46649 NaN NaN NaN NaN NaN NaN NaN 16.702 1 17.36 16.86 17.86 0.65798 0 0 0 0.99035 1 7529 7529 0.79363 0.19213 1 + 34280 11065 21758 21827 38601 38601 -0.059479761420107025 VGHYRKLPEG 10 Unmodified _VGHYRKLPEG_ 0 0 0 TMEM245|p.V396Sfs*43|1|0.14|ENSG00000106771|chr9:109087308-109087309|-/A|frameshift_variant TMEM245|p.V396Sfs*43|1|0.14|ENSG00000106771|chr9:109087308-109087309|-/A|frameshift_variant TMEM245|p.V396Sfs*43|1|0.14|ENSG00000106771|chr9:109087308-109087309|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.5125732421875 2 578.317097 1154.61964 NaN NaN NaN NaN NaN NaN NaN 93.652 1 93.652 93.152 94.152 0 0 0 0 0.99464 1 50042 50042 6.2058 0 1 34281 18277 21759 21828 38602 38602 0.04851638974469097 VGHYTQVVWYS 11 Unmodified _VGHYTQVVWYS_ 0 0 0 nc|ENSG00000096006|P54108|CRISP3;ENSG00000096006|ENST00000263045|CRISP3;nc|ENSG00000096006|P54108-3|CRISP3 nc|ENSG00000096006|P54108|CRISP3 nc|ENSG00000096006|P54108|CRISP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 669.8253784179688 2 669.827495 1337.64044 NaN NaN NaN NaN NaN NaN NaN 27.385 1 27.385 26.885 27.885 0 0 0 0 1.0073 1 12330 12330 1.1933 0.735 1 34282 1124 21760 21829 38603 38603 -0.014878154365078444 VGHYYYHLIWQ 11 Unmodified _VGHYYYHLIWQ_ 0 0 0 REV__ENST00000472697.5_1_3:142095319-142144369:-|nuORF REV__ENST00000472697.5_1_3:142095319-142144369:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 739.8645629882812 2 739.864412 1477.71427 NaN NaN NaN NaN NaN NaN NaN 75.843 1 76.507 76.007 77.007 0.66387 0 0 0 1.008 1 34948 34948 0.35063 0 1 + 34283 11318 21761 21830 38604 38604 -0.0054784727419701085 VGIAEILV 8 Unmodified _VGIAEILV_ 0 0 0 REV__ENSG00000142319|ENST00000270349|SLC6A3 REV__ENSG00000142319|ENST00000270349|SLC6A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 407.2447509765625 2 407.257654 812.500755 NaN NaN NaN NaN NaN NaN NaN 69.421 1 70.124 69.624 70.624 0.70302 0 0 0 0.99035 1 33223 33223 5.7604 0 1 + 34284 12322 21762 21831 38605 38605 0.08700472016903404 VGIAEQRR 8 Unmodified _VGIAEQRR_ 0 0 0 ENST00000456948.5_1_7:26242171-26246069:+|nuORF ENST00000456948.5_1_7:26242171-26246069:+|nuORF ENST00000456948.5_1_7:26242171-26246069:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.7713928222656 2 464.769783 927.525013 2.5331 0.0011773 0.59588 0.00027695 3.129 0.0014542 464.77005327199805 78.874 0.33563 79.126 78.969 79.305 0.25127 61 26 3 0 0 0 0.70146 1 36344 36344 5.7604 0 1 1227900 34285 8055 21763 21832 38606 38606 0.05835125223131854 VGIAFQLID 9 Unmodified _VGIAFQLID_ 0 0 0 ENST00000470978.1_1_10:27023607-27035399:+|nuORF;ENST00000422953.1_1_9:5085001-5085526:-|nuORF;nc|ENSG00000148459|Q5T2R2-3|PDSS1;ENSG00000148459|ENST00000376215|PDSS1 ENST00000470978.1_1_10:27023607-27035399:+|nuORF ENST00000470978.1_1_10:27023607-27035399:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 488.5071716308594 2 488.279118 974.543683 NaN NaN NaN NaN NaN NaN NaN 31.485 1 32.274 31.774 32.774 0.78879 0 0 0 0.89683 1 14220 14220 4.3292 0 1 34286 3607 21764 21833 38607 38607 0.055392420743373805 VGIAIKKKRV 10 Unmodified _VGIAIKKKRV_ 0 0 0 REV__nc|ENSG00000217128|Q8TF40-2|FNIP1 REV__nc|ENSG00000217128|Q8TF40-2|FNIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.3862915039062 2 556.387326 1110.7601 NaN NaN NaN NaN NaN NaN NaN 94.172 1 94.803 94.303 95.303 0.63115 0 0 0 1.0015 1 43313 43313 0.45834 0 1 + 34287 14533 21765 21834 38608 38608 0.20914842698675784 VGIALLSVP 9 Unmodified _VGIALLSVP_ 0 0 0 REV__nc|ENSG00000186334|Q495N2-2|SLC36A3 REV__nc|ENSG00000186334|Q495N2-2|SLC36A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.7818908691406 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 41.672 1 41.672 41.172 42.172 0 0 0 0 0.89509 1 18957 18957 4.756 2.4533 1 + 34288 14052 21766 21835 38609 38609 0.10388447425282266 VGIALRKM 8 Unmodified _VGIALRKM_ 0 0 0 ENSG00000164687|ENST00000297258|FABP5 ENSG00000164687|ENST00000297258|FABP5 ENSG00000164687|ENST00000297258|FABP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 444.2322998046875 2 444.278398 886.542243 NaN NaN NaN NaN NaN NaN NaN 73.545 1 73.545 73.045 74.045 0 0 0 0 0.99035 1 35872 35872 2.5775 0.51773 1 34289 4334 21767 21836 38610 38610 0.09443329504574649 VGIALRKM 8 Unmodified _VGIALRKM_ 0 0 0 ENSG00000164687|ENST00000297258|FABP5 ENSG00000164687|ENST00000297258|FABP5 ENSG00000164687|ENST00000297258|FABP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 444.6277160644531 2 444.278398 886.542243 NaN NaN NaN NaN NaN NaN NaN 72.768 1 73.432 72.932 73.932 0.66398 0 0 0 0.99035 1 33407 33407 2.5775 0.27475 1 34290 4334 21767 21836 38611 38611 0.09443329504574649 VGIEWWEFKF 10 Unmodified _VGIEWWEFKF_ 0 0 0 ENST00000240185.7_1_1:11082714-11082762:+|nuORF ENST00000240185.7_1_1:11082714-11082762:+|nuORF ENST00000240185.7_1_1:11082714-11082762:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 670.83740234375 2 670.837331 1339.66011 NaN NaN NaN NaN NaN NaN NaN 70.218 1 70.474 69.974 70.974 0.25642 0 0 0 1.0015 1 32157 32157 0.45834 0 1 34291 6467 21768 21837 38612 38612 0.0038656057420212164 VGIFLFLIAL 10 Unmodified _VGIFLFLIAL_ 0 0 0 ENSG00000106537|ENST00000262067|TSPAN13 ENSG00000106537|ENST00000262067|TSPAN13 ENSG00000106537|ENST00000262067|TSPAN13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.9505615234375 2 553.354628 1104.6947 3.32 0.0018371 -0.59644 -0.00033005 2.7235 0.0015071 553.8567681236251 48.863 0.085781 49.69 49.621 49.707 0.82705 6 4 2 0 0 0 0.93534 1 22259 22259 1.8442 0 1 412990 34292 1575 21769 21838 38613 38613 0.14654428452968205 VGIFTGMR 8 Unmodified _VGIFTGMR_ 0 0 0 REV__ENSG00000113504|ENST00000264930|SLC12A7 REV__ENSG00000113504|ENST00000264930|SLC12A7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 440.79925537109375 2 440.739105 879.463658 NaN NaN NaN NaN NaN NaN NaN 27.006 1 27.006 26.506 27.506 0 0 0 0 0.99035 1 12159 12159 0.79363 0 1 + 34293 11300 21770 21839 38614 38614 0.019104771995102965 VGIGVLILLVR 11 Unmodified _VGIGVLILLVR_ 0 0 0 ENSG00000069206|ENST00000175238|ADAM7 ENSG00000069206|ENST00000175238|ADAM7 ENSG00000069206|ENST00000175238|ADAM7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.3967895507812 2 576.397359 1150.78016 NaN NaN NaN NaN NaN NaN NaN 95.459 1 95.726 95.226 96.226 0.2675 0 0 0 1.0071 1 43861 43861 1.4819 0.8804 1 34294 747 21771 21840 38615 38615 0.21080593638657774 VGIGVLILLVR 11 Unmodified _VGIGVLILLVR_ 0 0 0 ENSG00000069206|ENST00000175238|ADAM7 ENSG00000069206|ENST00000175238|ADAM7 ENSG00000069206|ENST00000175238|ADAM7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.2489624023438 2 576.397359 1150.78016 NaN NaN NaN NaN NaN NaN NaN 96.92 1 97.198 96.698 97.698 0.27778 0 0 0 1.0071 1 44528 44528 1.4819 0.28856 1 34295 747 21771 21840 38616 38616 0.21080593638657774 VGIGVLILLVR 11 Unmodified _VGIGVLILLVR_ 0 0 0 ENSG00000069206|ENST00000175238|ADAM7 ENSG00000069206|ENST00000175238|ADAM7 ENSG00000069206|ENST00000175238|ADAM7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 576.3988647460938 2 576.397359 1150.78016 NaN NaN NaN NaN NaN NaN NaN 94.999 1 95.616 95.116 96.116 0.61736 0 0 0 1.0071 1 43689 43689 1.4819 0.95714 1 34296 747 21771 21840 38617 38617 0.21080593638657774 VGIGVSAILI 10 Unmodified _VGIGVSAILI_ 0 0 0 REV__nc|ENSG00000185920|Q13635-3|PTCH1 REV__nc|ENSG00000185920|Q13635-3|PTCH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.78045654296875 2 471.305136 940.595718 NaN NaN NaN NaN NaN NaN NaN 84.27 1 84.517 84.017 85.017 0.24757 0 0 0 0.98473 1 38786 38786 7.9102 0 1 + 34297 14034 21772 21841 38618 38618 0.12304405488100656 VGIHLLKV 8 Unmodified _VGIHLLKV_ 0 0 0 ENST00000573175.1_1_17:4451225-4453465:-|nuORF ENST00000573175.1_1_17:4451225-4453465:-|nuORF ENST00000573175.1_1_17:4451225-4453465:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 439.7952880859375 2 439.794738 877.574923 NaN NaN NaN NaN NaN NaN NaN 78.983 1 78.983 78.483 79.483 0 0 0 0 0.99035 1 38943 38943 0.79363 0 1 34298 9106 21773 21842 38619 38619 0.13123859899098989 VGIHSSYFDLH 11 Unmodified _VGIHSSYFDLH_ 0 0 0 ENSG00000198837|ENST00000361217|DENND4B;ENST00000485359.1_1_1:153912533-153913115:-|nuORF ENSG00000198837|ENST00000361217|DENND4B ENSG00000198837|ENST00000361217|DENND4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 425.5441589355469 3 425.543655 1273.60914 NaN NaN NaN NaN NaN NaN NaN 16.118 1 16.118 15.618 16.618 0 0 0 0 1.0072 1 7136 7136 0.45452 0 1 34299 5946 21774 21843 38620 38620 -0.016723884706152603 VGIHVKEILT 10 Unmodified _VGIHVKEILT_ 0 0 0 REV__nc|ENSG00000108582|O75976-2|CPD REV__nc|ENSG00000108582|O75976-2|CPD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.8385009765625 2 554.839874 1107.66519 NaN NaN NaN NaN NaN NaN NaN 84.741 1 84.77 84.27 85.27 0.028603 0 0 0 0.99733 1 42341 42341 3.9444 0 1 + 34300 11149 21775 21844 38621 38621 0.11566864436849755 VGIILSLALLK 11 Unmodified _VGIILSLALLK_ 0 0 0 REV__ENSG00000130876|ENST00000253188|SLC7A10 REV__ENSG00000130876|ENST00000253188|SLC7A10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 570.3941040039062 2 570.391742 1138.76893 NaN NaN NaN NaN NaN NaN NaN 103.26 1 103.32 102.82 103.82 0.055092 0 0 0 1.008 1 55999 55999 0.35063 0.35063 1 + 34301 11836 21776 21845 38622 38622 0.2050977154449356 VGIKTRRQW 9 Unmodified _VGIKTRRQW_ 0 0 0 nc|ENSG00000073150|Q96RD6-2|PANX2;nc|ENSG00000073150|Q96RD6-1|PANX2;ENSG00000073150|ENST00000395842|PANX2 nc|ENSG00000073150|Q96RD6-2|PANX2 nc|ENSG00000073150|Q96RD6-2|PANX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.8976135253906 3 381.896363 1142.66726 NaN NaN NaN NaN NaN NaN NaN 7.9827 1 7.9827 7.4827 8.4827 0 0 0 0 0.91206 1 3601 3601 0.26902 0.033176 1 34302 804 21777 21846 38623 38623 0.10163337965332175 VGIKTRRQW 9 Unmodified _VGIKTRRQW_ 0 0 0 nc|ENSG00000073150|Q96RD6-2|PANX2;nc|ENSG00000073150|Q96RD6-1|PANX2;ENSG00000073150|ENST00000395842|PANX2 nc|ENSG00000073150|Q96RD6-2|PANX2 nc|ENSG00000073150|Q96RD6-2|PANX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.8976135253906 3 381.896363 1142.66726 NaN NaN NaN NaN NaN NaN NaN 8.0744 1 8.0744 7.5744 8.5744 0 0 0 0 0.91206 1 3643 3643 0.26902 0.033176 1 34303 804 21777 21846 38624 38624 0.10163337965332175 VGIKTRRQW 9 Unmodified _VGIKTRRQW_ 0 0 0 nc|ENSG00000073150|Q96RD6-2|PANX2;nc|ENSG00000073150|Q96RD6-1|PANX2;ENSG00000073150|ENST00000395842|PANX2 nc|ENSG00000073150|Q96RD6-2|PANX2 nc|ENSG00000073150|Q96RD6-2|PANX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.8975830078125 3 381.896363 1142.66726 NaN NaN NaN NaN NaN NaN NaN 8.1877 1 8.1877 7.6877 8.6877 0 0 0 0 0.91206 1 3693 3693 0.26902 0.033176 1 34304 804 21777 21846 38625 38625 0.10163337965332175 VGIKTRRQW 9 Unmodified _VGIKTRRQW_ 0 0 0 nc|ENSG00000073150|Q96RD6-2|PANX2;nc|ENSG00000073150|Q96RD6-1|PANX2;ENSG00000073150|ENST00000395842|PANX2 nc|ENSG00000073150|Q96RD6-2|PANX2 nc|ENSG00000073150|Q96RD6-2|PANX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.8992004394531 3 381.896363 1142.66726 NaN NaN NaN NaN NaN NaN NaN 8.3254 1 8.3254 7.8254 8.8254 0 0 0 0 0.91206 1 3755 3755 0.26902 0.033176 1 34305 804 21777 21846 38626 38626 0.10163337965332175 VGIKTRRQW 9 Unmodified _VGIKTRRQW_ 0 0 0 nc|ENSG00000073150|Q96RD6-2|PANX2;nc|ENSG00000073150|Q96RD6-1|PANX2;ENSG00000073150|ENST00000395842|PANX2 nc|ENSG00000073150|Q96RD6-2|PANX2 nc|ENSG00000073150|Q96RD6-2|PANX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.89776611328125 3 381.896363 1142.66726 NaN NaN NaN NaN NaN NaN NaN 8.715 1 8.715 8.215 9.215 0 0 0 0 0.91206 1 3931 3931 0.26902 0.033176 1 34306 804 21777 21846 38627 38627 0.10163337965332175 VGIKTRRQW 9 Unmodified _VGIKTRRQW_ 0 0 0 nc|ENSG00000073150|Q96RD6-2|PANX2;nc|ENSG00000073150|Q96RD6-1|PANX2;ENSG00000073150|ENST00000395842|PANX2 nc|ENSG00000073150|Q96RD6-2|PANX2 nc|ENSG00000073150|Q96RD6-2|PANX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.89697265625 3 381.896363 1142.66726 NaN NaN NaN NaN NaN NaN NaN 6.5347 1 6.8745 6.3745 7.3745 0.33974 0 0 0 0.91206 1 2951 2951 0.26902 0.033176 1 34307 804 21777 21846 38628 38628 0.10163337965332175 VGIKTRRQW 9 Unmodified _VGIKTRRQW_ 0 0 0 nc|ENSG00000073150|Q96RD6-2|PANX2;nc|ENSG00000073150|Q96RD6-1|PANX2;ENSG00000073150|ENST00000395842|PANX2 nc|ENSG00000073150|Q96RD6-2|PANX2 nc|ENSG00000073150|Q96RD6-2|PANX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.8977355957031 3 381.896363 1142.66726 3.1306 0.0011956 0.94569 0.00036115 4.0762 0.0015567 381.8966720250114 6.1415 0.83727 6.765 6.5415 7.3788 0.62357 172 73 4 0 0 0 1.2078 1 2708 2708 0.26902 0.033176 1 309220 34308 804 21777 21846 38629 38629 0.10163337965332175 VGILLILRPQ 10 Unmodified _VGILLILRPQ_ 0 0 0 nc|ENSG00000137726|Q9H0Q3-2|FXYD6 nc|ENSG00000137726|Q9H0Q3-2|FXYD6 nc|ENSG00000137726|Q9H0Q3-2|FXYD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.6871948242188 2 561.373884 1120.73321 NaN NaN NaN NaN NaN NaN NaN 107.8 1 108.4 107.9 108.9 0.6019 0 0 0 1.0015 1 49749 49749 0.45834 0 1 34309 9661 21778 21847 38630 38630 0.17767734087487952 VGILQLLII 9 Unmodified _VGILQLLII_ 0 0 0 ENST00000545024.1_5:69806308-69808341:+|nuORF ENST00000545024.1_5:69806308-69808341:+|nuORF ENST00000545024.1_5:69806308-69808341:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 490.8690185546875 2 491.338978 980.663404 NaN NaN NaN NaN NaN NaN NaN 80.605 1 81.265 80.765 81.765 0.65998 0 0 0 0.91206 1 37142 37142 0.6015 0.076735 1 34310 8840 21779 21848 38631 38631 0.17229855418895568 VGILRRILR 9 Unmodified _VGILRRILR_ 0 0 0 ENSG00000156381|ENST00000286918|ANKRD9 ENSG00000156381|ENST00000286918|ANKRD9 ENSG00000156381|ENST00000286918|ANKRD9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.3762817382812 2 548.377292 1094.74003 NaN NaN NaN NaN NaN NaN NaN 26.356 1 26.621 26.121 27.121 0.26489 0 0 0 0.91342 1 11974 11974 0.6015 0.6015 1 34311 3908 21780 21849 38632 38632 0.19645091758729905 VGILRVIY 8 Unmodified _VGILRVIY_ 0 0 0 REV__ENST00000495754.1_1_2:98351695-98354405:+|nuORF REV__ENST00000495754.1_1_2:98351695-98354405:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.7999267578125 2 466.80002 931.585488 NaN NaN NaN NaN NaN NaN NaN 78.89 1 79.552 79.052 80.052 0.66198 0 0 0 0.99035 1 36353 36353 0.79363 0 1 + 34312 11342 21781 21850 38633 38633 0.11695842553501734 VGIMFVWFL 9 Unmodified _VGIMFVWFL_ 0 0 0 REV__nc|ENSG00000137968|Q8NCS7-5|SLC44A5 REV__nc|ENSG00000137968|Q8NCS7-5|SLC44A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.3048706054688 2 556.304081 1110.59361 NaN NaN NaN NaN NaN NaN NaN 16.131 1 16.131 15.631 16.631 0 0 0 0 0.91206 1 7141 7141 0.6015 0 1 + 34313 12138 21782 21851 38634 38634 0.042736534786399716 VGINNQKKI 9 Unmodified _VGINNQKKI_ 0 0 0 ENSG00000117475|ENST00000367808|BLZF1 ENSG00000117475|ENST00000367808|BLZF1 ENSG00000117475|ENST00000367808|BLZF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.5428771972656 3 338.541586 1012.60293 NaN NaN NaN NaN NaN NaN NaN 16.915 1 17.22 16.72 17.72 0.30438 0 0 0 0.89509 1 7660 7660 2.7352 0 1 34314 2074 21783 21852 38635 38635 0.0971313808852301 VGINNQKKI 9 Unmodified _VGINNQKKI_ 0 0 0 ENSG00000117475|ENST00000367808|BLZF1 ENSG00000117475|ENST00000367808|BLZF1 ENSG00000117475|ENST00000367808|BLZF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.5430603027344 3 338.541586 1012.60293 NaN NaN NaN NaN NaN NaN NaN 16.775 1 17.436 16.936 17.936 0.6601 0 0 0 0.89509 1 7562 7562 2.7352 0 1 34315 2074 21783 21852 38636 38636 0.0971313808852301 VGINRWRFLL 10 Unmodified _VGINRWRFLL_ 0 0 0 ENSG00000121671|ENST00000616080|CRY2;ENSG00000008405|ENST00000008527|CRY1 ENSG00000121671|ENST00000616080|CRY2 ENSG00000121671|ENST00000616080|CRY2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 637.3801879882812 2 637.380032 1272.74551 NaN NaN NaN NaN NaN NaN NaN 29.092 1 29.352 28.852 29.852 0.2602 0 0 0 1.0015 1 13239 13239 0.45834 0 1 34316 2235 21784 21853 38637 38637 0.12004770550561261 VGIPLPKVLNI 11 Unmodified _VGIPLPKVLNI_ 0 0 0 ENSG00000186190|ENST00000375494|BPIFB3 ENSG00000186190|ENST00000375494|BPIFB3 ENSG00000186190|ENST00000375494|BPIFB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.8839721679688 2 581.881542 1161.74853 NaN NaN NaN NaN NaN NaN NaN 88.507 1 88.758 88.258 89.258 0.25118 0 0 0 1.0082 1 40724 40724 0.35063 0.35063 1 34317 5559 21785 21854 38638 38638 0.1741260088472245 VGIPVFRVS 9 Unmodified _VGIPVFRVS_ 0 0 0 ENST00000460072.5_1_2:39984490-39995716:-|nuORF;nc|ENSG00000138050|Q9BTF0-2|THUMPD2;ENSG00000138050|ENST00000505747|THUMPD2 ENST00000460072.5_1_2:39984490-39995716:-|nuORF ENST00000460072.5_1_2:39984490-39995716:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 487.2964782714844 2 487.295102 972.575651 NaN NaN NaN NaN NaN NaN NaN 17.097 1 17.297 16.797 17.797 0.20057 0 0 0 0.90699 1 7561 7561 1.8442 1.0506 1 34318 3065 21786 21855 38639 38639 0.08826654548136048 VGIQQLYTKI 10 Unmodified _VGIQQLYTKI_ 0 0 0 REV__ENSG00000197056|ENST00000359858|ZMYM1 REV__ENSG00000197056|ENST00000359858|ZMYM1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.876708984375 3 388.23253 1161.67576 2.6555 0.001031 0.59319 0.00023029 3.2487 0.0012612 388.2327318314748 14.759 0.22368 15.066 14.95 15.174 0.3069 28 17 2 0 0 0 0.12676 1 6693 6693 1.5923 0 1 103280 + 34319 14255 21787 21856 38640 38640 0.10138847091275238 VGIRGTHST 9 Unmodified _VGIRGTHST_ 0 0 0 REV__ENSG00000160410|ENST00000291842|SHKBP1 REV__ENSG00000160410|ENST00000291842|SHKBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.2558898925781 2 464.253966 926.493378 3.1734 0.0014733 0.44 0.00020427 3.6134 0.0016775 464.2540993711806 91.273 0.4247 91.524 91.328 91.752 0.25163 44 17 4 0 0 0 1.1154 1 42051 42051 2.0598 0 1 3301800 + 34320 12879 21788 21857 38641 38641 0.027191324691784757 VGIRHANN 8 Unmodified _VGIRHANN_ 0 0 0 REV__nc|ENSG00000166596|Q8N1V2-3|CFAP52 REV__nc|ENSG00000166596|Q8N1V2-3|CFAP52 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 440.6903076171875 2 440.741025 879.467498 NaN NaN NaN NaN NaN NaN NaN 68.639 1 69.341 68.841 69.841 0.70218 0 0 0 0.99035 1 32746 32746 2.5775 0.27475 1 + 34321 13250 21789 21858 38642 38642 0.022942830175566087 VGIRTKESGV 10 Unmodified _VGIRTKESGV_ 0 0 0 REV__nc|ENSG00000187955|Q05707-3|COL14A1 REV__nc|ENSG00000187955|Q05707-3|COL14A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.3048095703125 2 523.303655 1044.59276 3.1871 0.0016678 0.58237 0.00030475 3.7695 0.0019726 523.3038944277339 78.776 0.97421 79.027 78.657 79.631 0.25127 105 65 2 0 0 0 0.93628 1 36180 36180 1.6526 0 1 425110 + 34322 18084 21790 21859 38643 38643 0.07224530363305348 VGIRTKESGV 10 Unmodified _VGIRTKESGV_ 0 0 0 REV__nc|ENSG00000187955|Q05707-3|COL14A1 REV__nc|ENSG00000187955|Q05707-3|COL14A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.3063354492188 2 523.303655 1044.59276 3.1749 0.0016614 0.49552 0.00025931 3.6704 0.0019207 523.3038771301912 81.305 1.8213 81.553 80.719 82.541 0.24803 235 115 3 0 0 0 0.93628 2 37115 37115;37215 1.6526 1.6526 1 2183000 + 34323 18084 21790 21859 38644;38645 38644 0.07224530363305348 VGIRTRGPWW 10 Unmodified _VGIRTRGPWW_ 0 0 0 REV__chr1:23418001-23424565|148|46.3|0.73|5.98|-|1|None,TCEA3|1 REV__chr1:23418001-23424565|148|46.3|0.73|5.98|-|1|None,TCEA3|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.341552734375 2 614.340907 1226.66726 NaN NaN NaN NaN NaN NaN NaN 14.826 1 14.826 14.326 15.326 0 0 0 0 1.0015 1 6540 6540 0.45834 0 1 + 34324 10011 21791 21860 38646 38646 0.06299337965333507 VGIRTTQLLQ 10 Unmodified _VGIRTTQLLQ_ 0 0 0 REV__ENST00000374602.2_1_1:23735155-23745710:-|nuORF REV__ENST00000374602.2_1_1:23735155-23745710:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.8389892578125 2 564.840405 1127.66626 NaN NaN NaN NaN NaN NaN NaN 86.527 1 86.527 86.027 87.027 0 0 0 0 0.9952 1 44381 44381 5.7319 0.50118 1 + 34325 14405 21792 21861 38647 38647 0.10753078805760197 VGIRVQIH 8 Unmodified _VGIRVQIH_ 0 0 0 nc|ENSG00000213199|Q9UHC3-4|ASIC3;ENSG00000213199|ENST00000349064|ASIC3;nc|ENSG00000213199|Q9UHC3-2|ASIC3;nc|ENSG00000213199|Q9UHC3-3|ASIC3;ENST00000474135.1_1_7:150747249-150747845:+|nuORF nc|ENSG00000213199|Q9UHC3-4|ASIC3 nc|ENSG00000213199|Q9UHC3-4|ASIC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 461.2870788574219 2 461.285069 920.555585 NaN NaN NaN NaN NaN NaN NaN 53.517 1 54.321 53.821 54.821 0.80351 0 0 0 0.99035 1 24414 24414 0.79363 0 1 34326 6085 21793 21862 38648 38648 0.09212903608181477 VGIRVQIH 8 Unmodified _VGIRVQIH_ 0 0 0 nc|ENSG00000213199|Q9UHC3-4|ASIC3;ENSG00000213199|ENST00000349064|ASIC3;nc|ENSG00000213199|Q9UHC3-2|ASIC3;nc|ENSG00000213199|Q9UHC3-3|ASIC3;ENST00000474135.1_1_7:150747249-150747845:+|nuORF nc|ENSG00000213199|Q9UHC3-4|ASIC3 nc|ENSG00000213199|Q9UHC3-4|ASIC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 461.28509521484375 2 461.285069 920.555585 NaN NaN NaN NaN NaN NaN NaN 101.2 1 101.79 101.29 102.29 0.59717 0 0 0 0.99035 1 46853 46853 0.79363 0 1 34327 6085 21793 21862 38649 38649 0.09212903608181477 VGISLLLLL 9 Unmodified _VGISLLLLL_ 0 0 0 ENSG00000175857|ENST00000502276|GAPT ENSG00000175857|ENST00000502276|GAPT ENSG00000175857|ENST00000502276|GAPT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.9133605957031 2 470.825704 939.636855 NaN NaN NaN NaN NaN NaN NaN 61.647 1 61.647 61.147 62.147 0 0 0 0 0.90611 1 28779 28779 2.0598 0 1 34328 5049 21794 21863 38650 38650 0.16462166527560385 VGISLLPLT 9 Unmodified _VGISLLPLT_ 0 0 0 ENST00000323013.6_1_22:42908285-42908810:-|nuORF ENST00000323013.6_1_22:42908285-42908810:-|nuORF ENST00000323013.6_1_22:42908285-42908810:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.79486083984375 2 456.791861 911.569169 NaN NaN NaN NaN NaN NaN NaN 29.969 1 30.758 30.258 31.258 0.78921 0 0 0 0.90611 1 13525 13525 2.0598 1.4583 1 34329 6944 21795 21864 38651 38651 0.10984716596738053 VGISVATLSL 10 Unmodified _VGISVATLSL_ 0 0 0 nc|ENSG00000164037|Q4ZJI4-2|SLC9B1;ENST00000504216.5_1_4:103822276-103853306:-|nuORF;nc|ENSG00000164037|Q4ZJI4-3|SLC9B1;ENSG00000164037|ENST00000296422|SLC9B1 nc|ENSG00000164037|Q4ZJI4-2|SLC9B1 nc|ENSG00000164037|Q4ZJI4-2|SLC9B1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.7479248046875 2 480.292225 958.569897 3.2953 0.0015827 -0.17312 -8.315E-05 3.1222 0.0014996 480.2921471644904 41.802 0.18101 42.072 41.92 42.101 0.27021 10 6 2 0 0 0 0.12533 1 19013 19013 26.884 7.6267 1 1875300 34330 4273 21796 21865 38652 38652 0.08895511245816579 VGITKLSK 8 Unmodified _VGITKLSK_ 0 0 0 REV__SORT1|p.F296L|1|0.28|ENSG00000134243|chr1:109345828-109345828|A/G|missense_variant REV__SORT1|p.F296L|1|0.28|ENSG00000134243|chr1:109345828-109345828|A/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 423.2748107910156 2 423.276378 844.538203 NaN NaN NaN NaN NaN NaN NaN 82.96 1 83.005 82.505 83.505 0.045006 0 0 0 0.967 1 41051 41051 7.9102 2.6795 1 + 34331 18215 21797 21866 38653 38653 0.10971563282510033 VGIVGVGE 8 Unmodified _VGIVGVGE_ 0 0 0 REV__nc|ENSG00000133131|Q8TE76-2|MORC4 REV__nc|ENSG00000133131|Q8TE76-2|MORC4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.2128601074219 2 365.210704 728.406855 NaN NaN NaN NaN NaN NaN NaN 34.661 1 35.284 34.784 35.784 0.62294 0 0 0 0.99035 1 15877 15877 2.8892 0 1 + 34332 11925 21798 21867 38654 38654 0.03178752914618599 VGIVIRPRQWI 11 Unmodified _VGIVIRPRQWI_ 0 0 0 ENST00000257245.8_1_11:57297613-57298180:-|nuORF ENST00000257245.8_1_11:57297613-57298180:-|nuORF ENST00000257245.8_1_11:57297613-57298180:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.9151611328125 2 668.914239 1335.81392 NaN NaN NaN NaN NaN NaN NaN 38.733 1 39.53 39.03 40.03 0.79762 0 0 0 1.008 1 17546 17546 0.35063 0 1 34333 6527 21799 21868 38655 38655 0.15945015130409956 VGIVNIPLEVM 11 Unmodified _VGIVNIPLEVM_ 0 0 0 nc|ENSG00000114487|Q86VD1-2|MORC1;ENSG00000114487|ENST00000232603|MORC1 nc|ENSG00000114487|Q86VD1-2|MORC1 nc|ENSG00000114487|Q86VD1-2|MORC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.6592407226562 2 592.341392 1182.66823 NaN NaN NaN NaN NaN NaN NaN 94.721 1 94.807 94.307 95.307 0.086212 0 0 0 1.0055 1 49904 49904 3.5965 0.31518 1 34334 1907 21800 21869 38656 38656 0.08420371499346402 VGKARGFFKKG 11 Unmodified _VGKARGFFKKG_ 0 0 0 nc|ENSG00000067225|P14618-2|PKM;ENSG00000067225|ENST00000335181|PKM;ENST00000565143.1_1_15:72491993-72493046:-|nuORF;nc|ENSG00000067225|P14618-3|PKM nc|ENSG00000067225|P14618-2|PKM nc|ENSG00000067225|P14618-2|PKM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.8584594726562 2 597.858932 1193.70331 NaN NaN NaN NaN NaN NaN NaN 89.196 1 89.874 89.374 90.374 0.67818 0 0 0 1.0072 1 41069 41069 1.3295 0.80477 1 34335 721 21801 21870 38657 38657 0.11420795142180395 VGKDKHKH 8 Unmodified _VGKDKHKH_ 0 0 0 ENSG00000187510|ENST00000344636|PLEKHG7 ENSG00000187510|ENST00000344636|PLEKHG7 ENSG00000187510|ENST00000344636|PLEKHG7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 316.8507385253906 3 316.850643 947.530098 2.084 0.00066032 -1.3423 -0.0004253 0.74174 0.00023502 316.85005816983784 16.157 0.069462 16.463 16.422 16.491 0.306 13 10 2 0 0 0 0.7471 1 7311 7311 0.45834 0 1 47306 34336 5617 21802 21871 38658 38658 0.05423429085749376 VGKDRPRG 8 Unmodified _VGKDRPRG_ 0 0 0 REV__ENSG00000182450|ENST00000422670|KCNK4 REV__ENSG00000182450|ENST00000422670|KCNK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.7575378417969 2 442.756675 883.498798 2.6953 0.0011934 0.51009 0.00022584 3.2054 0.0014192 442.75666395321906 75.615 0.30727 76.28 76.119 76.427 0.6644 62 28 3 0 0 0 0.74071 1 34796 34796 2.5775 0.51773 1 1743200 + 34337 13892 21803 21872 38659 38659 0.05238856051653329 VGKEASKAL 9 Unmodified _VGKEASKAL_ 0 0 0 nc|ENSG00000139405|Q96K30-2|RITA1;ENSG00000139405|ENST00000548278|RITA1;nc|ENSG00000139405|Q96K30-3|RITA1 nc|ENSG00000139405|Q96K30-2|RITA1 nc|ENSG00000139405|Q96K30-2|RITA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.7706298828125 2 451.768917 901.523281 3.1136 0.0014066 0.5784 0.0002613 3.692 0.0016679 451.76915878701345 15.229 0.341 15.883 15.707 16.048 0.65356 61 37 2 0 0 0 0.76984 1 6871 6871 7.9102 0 1 79950 34338 3147 21804 21873 38660 38660 0.0685807141450141 VGKEKYLKTL 10 Unmodified _VGKEKYLKTL_ 0 0 0 REV__nc|ENSG00000175054|Q13535-2|ATR REV__nc|ENSG00000175054|Q13535-2|ATR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.861572265625 2 589.860806 1177.70706 NaN NaN NaN NaN NaN NaN NaN 57.234 1 58.002 57.502 58.502 0.76861 0 0 0 1.0015 1 26194 26194 0.45834 0 1 + 34339 13656 21805 21874 38661 38661 0.12531420125378645 VGKELLLP 8 Unmodified _VGKELLLP_ 0 0 0 REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 868.5567626953125 1 868.550231 867.542954 3.9919 0.0034671 2.1986 0.0019096 6.1904 0.0053767 868.5511810509564 30.226 0.046206 30.226 30.207 30.253 0 4 2 2 0 0 0 0.7471 1 13662 13662 0.79363 0 1 411060 + 34340 15462 21806 21875 38662 38662 0.10388447425293634 VGKELLLP 8 Unmodified _VGKELLLP_ 0 0 0 REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.7810363769531 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 35.092 1 35.092 34.592 35.592 0 0 0 0 0.99035 1 15916 15916 0.79363 0 1 + 34341 15462 21806 21875 38663 38663 0.10388447425293634 VGKELLLP 8 Unmodified _VGKELLLP_ 0 0 0 REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.7811279296875 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 73.264 1 73.264 72.764 73.764 0 0 0 0 0.99035 1 35692 35692 0.79363 0 1 + 34342 15462 21806 21875 38664 38664 0.10388447425293634 VGKELLLP 8 Unmodified _VGKELLLP_ 0 0 0 REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.7813415527344 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 35.614 1 36.405 35.905 36.905 0.79131 0 0 0 0.99035 1 16142 16142 0.79363 0 1 + 34343 15462 21806 21875 38665 38665 0.10388447425293634 VGKELLLP 8 Unmodified _VGKELLLP_ 0 0 0 REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.78143310546875 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 35.735 1 36.526 36.026 37.026 0.79131 0 0 0 0.99035 1 16196 16196 0.79363 0 1 + 34344 15462 21806 21875 38666 38666 0.10388447425293634 VGKELLLP 8 Unmodified _VGKELLLP_ 0 0 0 REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.7820129394531 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 37.177 1 37.97 37.47 38.47 0.79342 0 0 0 0.99035 1 16845 16845 0.79363 0 1 + 34345 15462 21806 21875 38667 38667 0.10388447425293634 VGKELLLP 8 Unmodified _VGKELLLP_ 0 0 0 REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.7816467285156 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 37.498 1 38.293 37.793 38.793 0.79552 0 0 0 0.99035 1 16990 16990 0.79363 0 1 + 34346 15462 21806 21875 38668 38668 0.10388447425293634 VGKELLLP 8 Unmodified _VGKELLLP_ 0 0 0 REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.7814025878906 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 33.195 1 33.449 32.949 33.949 0.25389 0 0 0 0.99035 1 15115 15115 0.79363 0 1 + 34347 15462 21806 21875 38669 38669 0.10388447425293634 VGKELLLP 8 Unmodified _VGKELLLP_ 0 0 0 REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.78155517578125 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 39.371 1 39.637 39.137 40.137 0.26696 0 0 0 0.99035 1 17914 17914 0.79363 0 1 + 34348 15462 21806 21875 38670 38670 0.10388447425293634 VGKELLLP 8 Unmodified _VGKELLLP_ 0 0 0 REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.43951416015625 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 40.669 1 40.938 40.438 41.438 0.26904 0 0 0 0.99035 1 18504 18504 0.79363 0 1 + 34349 15462 21806 21875 38671 38671 0.10388447425293634 VGKELLLP 8 Unmodified _VGKELLLP_ 0 0 0 REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.78167724609375 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 42.288 1 42.558 42.058 43.058 0.27021 0 0 0 0.99035 1 19285 19285 0.79363 0 1 + 34350 15462 21806 21875 38672 38672 0.10388447425293634 VGKELLLP 8 Unmodified _VGKELLLP_ 0 0 0 REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.7809753417969 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 44.311 1 44.58 44.08 45.08 0.2694 0 0 0 0.99035 1 20254 20254 0.79363 0 1 + 34351 15462 21806 21875 38673 38673 0.10388447425293634 VGKELLLP 8 Unmodified _VGKELLLP_ 0 0 0 REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7810363769531 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 34.497 1 35.12 34.62 35.62 0.62294 0 0 0 0.99035 1 15803 15803 0.79363 0 1 + 34352 15462 21806 21875 38674 38674 0.10388447425293634 VGKELLLP 8 Unmodified _VGKELLLP_ 0 0 0 REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7814636230469 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 35.03 1 35.653 35.153 36.153 0.62294 0 0 0 0.99035 1 16053 16053 0.79363 0 1 + 34353 15462 21806 21875 38675 38675 0.10388447425293634 VGKELLLP 8 Unmodified _VGKELLLP_ 0 0 0 REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7815856933594 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 35.164 1 35.787 35.287 36.287 0.62294 0 0 0 0.99035 1 16114 16114 0.79363 0 1 + 34354 15462 21806 21875 38676 38676 0.10388447425293634 VGKELLLP 8 Unmodified _VGKELLLP_ 0 0 0 REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 868.550231 867.542954 3.9919 0.0034671 2.1986 0.0019096 6.1904 0.0053767 868.5511810509564 30.226 0.046206 30.226 30.207 30.253 0 -0.026025 -0.00039343 NaN 0.79363 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 411060 + 34355 15462 21806 21875 0.10388447425293634 VGKELLLP 8 Unmodified _VGKELLLP_ 0 0 0 REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF REV__ENST00000341259.6_1_12:111886343-111886586:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 868.550231 867.542954 4.1644 0.003617 2.6967 0.0023422 6.861 0.0059591 868.5520476663064 30.02 0.056234 30.279 30.229 30.285 0.25804 0.026025 3.9176E-05 NaN 0.79363 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 954620 + 34356 15462 21806 21875 0.10388447425293634 VGKFQFLRPLL 11 Unmodified _VGKFQFLRPLL_ 0 0 0 REV__ENST00000356388.8_1_2:65540259-65540475:-|nuORF REV__ENST00000356388.8_1_2:65540259-65540475:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 659.4058837890625 2 659.405715 1316.79688 NaN NaN NaN NaN NaN NaN NaN 37.674 1 37.935 37.435 38.435 0.26083 0 0 0 1.008 1 17157 17157 0.35063 0 1 + 34357 15557 21807 21876 38677 38677 0.15115094524617234 VGKFRFLNEL 10 Unmodified _VGKFRFLNEL_ 0 0 0 nc|ENSG00000100083|Q9UJY5-4|GGA1;nc|ENSG00000100083|Q9UJY5-3|GGA1;ENSG00000100083|ENST00000343632|GGA1;nc|ENSG00000125447|Q9NZ52-4|GGA3;nc|ENSG00000100083|Q9UJY5-6|GGA1;ENSG00000125447|ENST00000537686|GGA3 nc|ENSG00000100083|Q9UJY5-4|GGA1 nc|ENSG00000100083|Q9UJY5-4|GGA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.85302734375 2 611.850773 1221.68699 NaN NaN NaN NaN NaN NaN NaN 91.987 1 92.649 92.149 93.149 0.66198 0 0 0 1.0003 1 42327 42327 1.4819 0.28856 1 34358 1173 21808 21877 38678 38678 0.08501669185420724 VGKGCGLR 8 Unmodified _VGKGCGLR_ 0 0 0 REV__nc|ENSG00000189056|P78509-3|RELN REV__nc|ENSG00000189056|P78509-3|RELN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 395.22332763671875 2 395.223623 788.432692 NaN NaN NaN NaN NaN NaN NaN 33.85 1 34.638 34.138 35.138 0.78795 0 0 0 0.99035 1 15325 15325 2.5775 0.27475 1 + 34359 14170 21809 21878 38679 38679 0.030013238852347968 VGKGRDISL 9 Unmodified _VGKGRDISL_ 0 0 0 ENST00000541700.5_1_12:2062443-2113597:-|nuORF;ENST00000537725.1_1_12:2070525-2113588:-|nuORF;ENSG00000151065|ENST00000280665|DCP1B ENST00000541700.5_1_12:2062443-2113597:-|nuORF ENST00000541700.5_1_12:2062443-2113597:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.78131103515625 2 472.779816 943.545079 3.1521 0.0014902 0.39797 0.00018815 3.55 0.0016784 472.7797903695469 20.253 0.29574 20.907 20.757 21.053 0.65346 53 23 3 0 0 0 0.063112 2 9205 9160;9205 41.956 3.78 1 411090 34360 3688 21810 21879 38680;38681 38681 0.07104876163089102 VGKHIRMHRRL 11 Unmodified _VGKHIRMHRRL_ 0 0 0 REV__nc|ENSG00000085274|Q9NPC7-3|MYNN REV__nc|ENSG00000085274|Q9NPC7-3|MYNN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 701.91796875 2 701.919864 1401.82517 NaN NaN NaN NaN NaN NaN NaN 70.234 1 70.896 70.396 71.396 0.66209 0 0 0 1.0072 1 32203 32203 1.3295 0.9789 1 + 34361 10643 21811 21880 38682 38682 0.1403351395288155 VGKIIGPL 8 Unmodified _VGKIIGPL_ 0 0 0 REV__ENSG00000197565|ENST00000334504|COL4A6 REV__ENSG00000197565|ENST00000334504|COL4A6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.770751953125 2 398.768189 795.521825 NaN NaN NaN NaN NaN NaN NaN 27.961 1 28.223 27.723 28.723 0.26245 0 0 0 0.99035 1 12714 12714 6.3541 3.4649 1 + 34362 14288 21812 21881 38683 38683 0.11588482116405885 VGKIKREM 8 Unmodified _VGKIKREM_ 0 0 0 nc|ENSG00000171804|Q6ZQQ6|WDR87;nc|ENSG00000171804|Q6ZQQ6-2|WDR87;ENSG00000171804|ENST00000447313|WDR87 nc|ENSG00000171804|Q6ZQQ6|WDR87 nc|ENSG00000171804|Q6ZQQ6|WDR87 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.7878112792969 2 480.786587 959.558621 NaN NaN NaN NaN NaN NaN NaN 15.257 1 15.257 14.757 15.757 0 0 0 0 0.99035 1 6739 6739 0.79363 0 1 34363 4834 21813 21882 38684 38684 0.07722410670669433 VGKILKKINK 10 Unmodified _VGKILKKINK_ 0 0 0 ENSG00000135919|ENST00000409304|SERPINE2;nc|ENSG00000135919|P07093|SERPINE2;nc|ENSG00000135919|P07093-3|SERPINE2 ENSG00000135919|ENST00000409304|SERPINE2 ENSG00000135919|ENST00000409304|SERPINE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.89697265625 2 570.894983 1139.77541 NaN NaN NaN NaN NaN NaN NaN 107.46 1 108.06 107.56 108.56 0.6019 0 0 0 1.0015 1 49597 49597 0.45834 0.057624 1 34364 2911 21814 21883 38685 38685 0.2111170949588086 VGKIQKVKFLW 11 Unmodified _VGKIQKVKFLW_ 0 0 0 nc|ENSG00000266200|P54317|PNLIPRP2 nc|ENSG00000266200|P54317|PNLIPRP2 nc|ENSG00000266200|P54317|PNLIPRP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 673.4207763671875 2 673.421365 1344.82818 NaN NaN NaN NaN NaN NaN NaN 85.291 1 85.957 85.457 86.457 0.66566 0 0 0 1.008 1 39277 39277 0.35063 0 1 34365 9861 21815 21884 38686 38686 0.1695566755870459 VGKISPPV 8 Unmodified _VGKISPPV_ 0 0 0 nc|ENSG00000123572|Q7Z2Y5-2|NRK;ENSG00000123572|ENST00000243300|NRK nc|ENSG00000123572|Q7Z2Y5-2|NRK nc|ENSG00000123572|Q7Z2Y5-2|NRK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.75189208984375 2 398.749996 795.485439 2.8036 0.0011179 3.4194 0.0013635 6.2231 0.0024814 398.7520456115748 26.962 0.22095 27.584 27.456 27.677 0.62179 26 17 2 0 0 0 0.74071 1 12363 12363 2.5775 0.27475 1 307610 34366 2320 21816 21885 38687 38687 0.07951605219705016 VGKISPPV 8 Unmodified _VGKISPPV_ 0 0 0 nc|ENSG00000123572|Q7Z2Y5-2|NRK;ENSG00000123572|ENST00000243300|NRK nc|ENSG00000123572|Q7Z2Y5-2|NRK nc|ENSG00000123572|Q7Z2Y5-2|NRK MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 398.749996 795.485439 2.9247 0.0011662 3.6648 0.0014614 6.5895 0.0026276 398.7522510357928 27.413 0.14297 27.675 27.603 27.746 0.26245 0.045656 0.00010125 NaN 2.5775 21 15 2 NaN NaN NaN NaN 0 NaN NaN 0 282380 34367 2320 21816 21885 0.07951605219705016 VGKIVLTRY 9 Unmodified _VGKIVLTRY_ 0 0 0 REV__nc|ENSG00000175040|Q9Y4C5-2|CHST2 REV__nc|ENSG00000175040|Q9Y4C5-2|CHST2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.8291625976562 2 524.829309 1047.64407 NaN NaN NaN NaN NaN NaN NaN 102.03 1 102.35 101.85 102.85 0.31737 0 0 0 0.91206 1 47202 47202 0.6015 0 1 + 34368 13654 21817 21886 38688 38688 0.12214899127957324 VGKKARNSSKF 11 Unmodified _VGKKARNSSKF_ 0 0 0 ENST00000565598.2_1_16:53404185-53404910:-|nuORF;ENST00000565421.1_1_16:53404024-53404910:-|nuORF ENST00000565598.2_1_16:53404185-53404910:-|nuORF ENST00000565598.2_1_16:53404185-53404910:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.8583984375 2 611.356754 1220.69895 3.9302 0.0024028 -0.74464 -0.00045524 3.1856 0.0019475 611.3560789814101 90.033 2.3692 90.285 89.498 91.868 0.25136 339 114 4 0 0 0 0.91068 1 42080 42080 1.3295 0 1 4331900 34369 9044 21818 21887 38689 38689 0.09743285928584555 VGKKCRKRRK 10 Unmodified _VGKKCRKRRK_ 0 0 0 REV__ENST00000505450.5_1_4:16085656-16085833:-|nuORF REV__ENST00000505450.5_1_4:16085656-16085833:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 629.9014892578125 2 629.903682 1257.79281 NaN NaN NaN NaN NaN NaN NaN 61.605 1 62.265 61.765 62.765 0.66008 0 0 0 1.0015 1 28214 28214 0.45834 0.10771 1 + 34370 16921 21819 21888 38690 38690 0.17422726549875733 VGKKDCRWL 9 Unmodified _VGKKDCRWL_ 0 0 0 ENST00000381163.7_1_X:2799867-2799996:+|nuORF ENST00000381163.7_1_X:2799867-2799996:+|nuORF ENST00000381163.7_1_X:2799867-2799996:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.4812622070312 2 552.802768 1103.59098 3.6059 0.0019933 -3.4475 -0.0019058 0.15835 8.7535E-05 552.8004775747332 46.702 0.20948 47.354 47.226 47.435 0.65219 9 6 2 0 0 0 1.101 1 21349 21349 2.3027 0.4585 1 237740 34371 7480 21820 21889 38691 38691 0.0433319807366388 VGKKFVLSRRR 11 Unmodified _VGKKFVLSRRR_ 0 0 0 ENSG00000214866|ENST00000399143|DCDC2C ENSG00000214866|ENST00000399143|DCDC2C ENSG00000214866|ENST00000399143|DCDC2C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 673.4327392578125 2 673.430587 1344.84662 NaN NaN NaN NaN NaN NaN NaN 15.877 1 16.088 15.588 16.588 0.21108 0 0 0 1.0082 1 7009 7009 0.35063 0.35063 1 34372 6120 21821 21890 38692 38692 0.18799222253232983 VGKKIRIVS 9 Unmodified _VGKKIRIVS_ 0 0 0 REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A REV__nc|ENSG00000196876|Q9UQD0-4|SCN8A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.3387756347656 2 500.337301 998.66005 NaN NaN NaN NaN NaN NaN NaN 93.896 1 94.528 94.028 95.028 0.63115 0 0 0 0.90611 1 43188 43188 2.0598 1.4583 1 + 34373 14244 21822 21891 38693 38693 0.1606660536489244 VGKKKKDVI 9 Unmodified _VGKKKKDVI_ 0 0 0 ENSG00000109016|ENST00000395511|DHRS7B ENSG00000109016|ENST00000395511|DHRS7B ENSG00000109016|ENST00000395511|DHRS7B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.894775390625 3 338.893848 1013.65972 2.7249 0.00092345 0.74892 0.0002538 3.4738 0.0011773 338.8940824883093 3.7791 0.30233 4.4017 4.2618 4.5641 0.62252 42 22 3 0 0 0 1.2289 2 1691 1691;1734 0.26902 0.1097 1 72769 34374 1662 21823 21892 38694;38695 38694 0.153431856450311 VGKKKKKKKK 10 Unmodified _VGKKKKKKKK_ 0 0 0 REV__ENST00000406961.5_1_2:24991338-24991476:+|nuORF;REV__ENST00000565844.1_1_16:19721758-19726357:-|nuORF REV__ENST00000565844.1_1_16:19721758-19726357:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 600.3946533203125 2 600.43735 1198.86015 NaN NaN NaN NaN NaN NaN NaN 50.734 1 50.734 50.234 51.234 0 0 0 0 1.0015 1 23230 23230 0.45834 0.45834 1 + 34375 10973;16073 21824 21893 38696 38696 0.2686708003247986 VGKKKKKKKKA 11 Unmodified _VGKKKKKKKKA_ 0 0 0 REV__ENST00000406961.5_1_2:24991338-24991476:+|nuORF REV__ENST00000406961.5_1_2:24991338-24991476:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 424.307373046875 3 424.306363 1269.89726 NaN NaN NaN NaN NaN NaN NaN 22.441 1 22.441 21.941 22.941 0 0 0 0 1.0082 1 10061 10061 0.094841 0.094841 1 + 34376 16073 21825 21894 38697 38697 0.27310751578238524 VGKKKKKKKKA 11 Unmodified _VGKKKKKKKKA_ 0 0 0 REV__ENST00000406961.5_1_2:24991338-24991476:+|nuORF REV__ENST00000406961.5_1_2:24991338-24991476:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 424.30670166015625 3 424.306363 1269.89726 NaN NaN NaN NaN NaN NaN NaN 21.859 1 22.447 21.947 22.947 0.58739 0 0 0 1.0082 1 9712 9712 0.094841 0.094841 1 + 34377 16073 21825 21894 38698 38698 0.27310751578238524 VGKKKKKKKKA 11 Unmodified _VGKKKKKKKKA_ 0 0 0 REV__ENST00000406961.5_1_2:24991338-24991476:+|nuORF REV__ENST00000406961.5_1_2:24991338-24991476:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 424.30712890625 3 424.306363 1269.89726 NaN NaN NaN NaN NaN NaN NaN 29.531 1 29.789 29.289 30.289 0.25804 0 0 0 1.0082 1 13439 13439 0 0 1 + 34378 16073 21825 21894 38699 38699 0.27310751578238524 VGKKLKHF 8 Unmodified _VGKKLKHF_ 0 0 0 ENST00000302014.10_1_5:140012494-140012747:-|nuORF ENST00000302014.10_1_5:140012494-140012747:-|nuORF ENST00000302014.10_1_5:140012494-140012747:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 319.5292053222656 3 319.539517 955.596721 2.5101 0.00080207 1.5447 0.0004936 4.0548 0.0012957 319.5400274780003 32.804 0.27514 33.058 32.869 33.144 0.25389 22 12 3 0 0 0 0.14346 1 14892 14892 0 0 1 293750 34379 6807 21826 21895 38700 38700 0.11714664647661266 VGKKLLSLL 9 Unmodified _VGKKLLSLL_ 0 0 0 nc|ENSG00000166049|Q8IV76-2|PASD1;ENST00000464219.1_1_X:150770025-150841134:+|nuORF;ENSG00000166049|ENST00000370357|PASD1 nc|ENSG00000166049|Q8IV76-2|PASD1 nc|ENSG00000166049|Q8IV76-2|PASD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.83782958984375 2 485.836603 969.658653 NaN NaN NaN NaN NaN NaN NaN 25.384 1 26.013 25.513 26.513 0.62915 0 0 0 0.90511 1 11631 11631 2.3027 0 1 34380 4449 21827 21896 38701 38701 0.1726097127615276 VGKKQLVEI 9 Unmodified _VGKKQLVEI_ 0 0 0 nc|ENSG00000257017|P00738-2|HP;ENSG00000261701|ENST00000540303|HPR;nc|ENSG00000261701|P00739-2|HPR;ENSG00000257017|ENST00000355906|HP nc|ENSG00000257017|P00738-2|HP nc|ENSG00000257017|P00738-2|HP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.5509338378906 3 338.54997 1012.62808 2.3678 0.00080161 0.28902 9.7849E-05 2.6568 0.00089946 338.55001349646005 36.956 0.37514 37.586 37.377 37.752 0.62999 34 14 3 0 0 0 0.95612 1 16945 16945 2.7352 0 1 751360 34381 6293 21828 21897 38702 38702 0.12227192891100458 VGKKQPALDVL 11 Unmodified _VGKKQPALDVL_ 0 0 0 ENSG00000107581|ENST00000369144|EIF3A ENSG00000107581|ENST00000369144|EIF3A ENSG00000107581|ENST00000369144|EIF3A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.3591918945312 2 584.358431 1166.70231 NaN NaN NaN NaN NaN NaN NaN 86.038 1 86.287 85.787 86.787 0.24857 0 0 0 1.0072 1 39600 39600 1.3295 0.13619 1 34382 1600 21829 21898 38703 38703 0.12562535982578993 VGKKQQLLS 9 Unmodified _VGKKQQLLS_ 0 0 0 REV__ENST00000558211.2_1_15:89678864-89678927:-|nuORF REV__ENST00000558211.2_1_15:89678864-89678927:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.8135986328125 2 500.811116 999.60768 3.0218 0.0015133 0.73775 0.00036947 3.7595 0.0018828 500.81141004726936 17.107 0.47676 17.412 17.114 17.591 0.30438 57 36 2 0 0 0 1.178 1 7720 7720 2.0598 0 1 102060 + 34383 17342 21830 21899 38704 38704 0.10786022231286552 VGKKQRRLRMQ 11 Unmodified _VGKKQRRLRMQ_ 0 0 0 REV__ENSG00000159496|ENST00000290691|RGL4 REV__ENSG00000159496|ENST00000290691|RGL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 700.4254150390625 2 700.424979 1398.83541 NaN NaN NaN NaN NaN NaN NaN 43.195 1 44.009 43.509 44.509 0.81444 0 0 0 1.008 1 19660 19660 0.35063 0 1 + 34384 12855 21831 21900 38705 38705 0.15194076887451047 VGKKQRRLRMQ 11 Unmodified _VGKKQRRLRMQ_ 0 0 0 REV__ENSG00000159496|ENST00000290691|RGL4 REV__ENSG00000159496|ENST00000290691|RGL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 700.4263916015625 2 700.424979 1398.83541 NaN NaN NaN NaN NaN NaN NaN 57.567 1 57.831 57.331 58.331 0.26444 0 0 0 1.008 1 26354 26354 0.35063 0 1 + 34385 12855 21831 21900 38706 38706 0.15194076887451047 VGKKVKARLI 10 Unmodified _VGKKVKARLI_ 0 0 0 REV__ENSG00000181234|ENST00000435159|TMEM132C REV__ENSG00000181234|ENST00000435159|TMEM132C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.3885498046875 2 556.387326 1110.7601 NaN NaN NaN NaN NaN NaN NaN 101.8 1 101.8 101.3 102.3 0 0 0 0 1.0015 1 56235 56235 0.45834 0 1 + 34386 13848 21832 21901 38707 38707 0.20914842698698521 VGKLGPPG 8 Unmodified _VGKLGPPG_ 0 0 0 REV__ENSG00000084636|ENST00000373672|COL16A1 REV__ENSG00000084636|ENST00000373672|COL16A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.7207946777344 2 362.721239 723.427924 NaN NaN NaN NaN NaN NaN NaN 85.673 1 85.922 85.422 86.422 0.24857 0 0 0 0.99035 1 39423 39423 0.79363 0 1 + 34387 10635 21833 21902 38708 38708 0.055147630141391346 VGKLIEVVKKK 11 Unmodified _VGKLIEVVKKK_ 0 0 0 ENSG00000077097|ENST00000264331|TOP2B;nc|ENSG00000077097|Q02880-2|TOP2B ENSG00000077097|ENST00000264331|TOP2B ENSG00000077097|ENST00000264331|TOP2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 620.920166015625 2 620.921198 1239.82784 NaN NaN NaN NaN NaN NaN NaN 53.807 1 53.807 53.307 54.307 0 0 0 0 1.008 1 24668 24668 0.35063 0.35063 1 34388 855 21834 21903 38709 38709 0.2175224783882186 VGKLIIIIL 9 Unmodified _VGKLIIIIL_ 0 0 0 ENST00000394288.7_2_4:129029149-129029425:+|nuORF ENST00000394288.7_2_4:129029149-129029425:+|nuORF ENST00000394288.7_2_4:129029149-129029425:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.3558654785156 2 491.357171 980.699789 NaN NaN NaN NaN NaN NaN NaN 81.163 1 81.163 80.663 81.663 0 0 0 0 0.91206 1 40410 40410 0.6015 0.6015 1 34389 7540 21835 21904 38710 38710 0.20866732315619174 VGKLKNGHY 9 Unmodified _VGKLKNGHY_ 0 0 0 REV__ENSG00000135912|ENST00000392102|TTLL4 REV__ENSG00000135912|ENST00000392102|TTLL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 339.19415283203125 3 339.194298 1014.56106 NaN NaN NaN NaN NaN NaN NaN 7.545 1 7.8709 7.3709 8.3709 0.32587 0 0 0 0.90965 1 3392 3392 1.1933 0 1 + 34390 12044 21836 21905 38711 38711 0.054365823999773966 VGKLKTLS 8 Unmodified _VGKLKTLS_ 0 0 0 ENST00000419769.6_1_10:127430814-127452038:+|nuORF;ENST00000481600.5_1_10:127417653-127452038:+|nuORF;nc|ENSG00000107938|Q3B7T1-5|EDRF1;ENSG00000107938|ENST00000356792|EDRF1 ENST00000419769.6_1_10:127430814-127452038:+|nuORF ENST00000419769.6_1_10:127430814-127452038:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 423.2779235839844 2 423.276378 844.538203 NaN NaN NaN NaN NaN NaN NaN 35.579 1 36.206 35.706 36.706 0.62631 0 0 0 0.99035 1 16297 16297 2.5775 0 1 34391 1615 21837 21906 38712 38712 0.10971563282521402 VGKLLGRLLV 10 Unmodified _VGKLLGRLLV_ 0 0 0 ENST00000488516.1_1_2:170393692-170394610:-|nuORF ENST00000488516.1_1_2:170393692-170394610:-|nuORF ENST00000488516.1_1_2:170393692-170394610:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 534.3696899414062 2 534.368601 1066.72265 3.4448 0.0018408 -0.75038 -0.00040098 2.6944 0.0014398 534.3678942467794 104.98 0.16975 105.58 105.48 105.65 0.59885 15 12 2 0 0 0 0.94217 1 48485 48485 0.45834 0 1 448180 34392 8369 21838 21907 38713 38713 0.19195751433085206 VGKLLINNH 9 Unmodified _VGKLLINNH_ 0 0 0 ENST00000487863.5_1_19:53057832-53058279:+|nuORF ENST00000487863.5_1_19:53057832-53058279:+|nuORF ENST00000487863.5_1_19:53057832-53058279:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.3034973144531 2 504.303458 1006.59236 NaN NaN NaN NaN NaN NaN NaN 27.519 1 27.519 27.019 28.019 0 0 0 0 0.89683 1 12394 12394 4.3292 2.0265 1 34393 8356 21839 21908 38714 38714 0.08933155434078799 VGKLLVLLRR 10 Unmodified _VGKLLVLLRR_ 0 0 0 ENST00000495440.1_1_3:196439919-196444680:+|nuORF ENST00000495440.1_1_3:196439919-196444680:+|nuORF ENST00000495440.1_1_3:196439919-196444680:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 583.9072875976562 2 583.908425 1165.8023 NaN NaN NaN NaN NaN NaN NaN 45.862 1 45.862 45.362 46.362 0 0 0 0 1.0015 1 20980 20980 0.45834 0 1 34394 8431 21840 21909 38715 38715 0.22602818107066014 VGKLQVLVE 9 Unmodified _VGKLQVLVE_ 0 0 0 ENST00000564987.1_1_16:23535694-23546228:-|nuORF;ENSG00000103356|ENST00000449606|EARS2;nc|ENSG00000103356|Q5JPH6-2|EARS2 ENST00000564987.1_1_16:23535694-23546228:-|nuORF ENST00000564987.1_1_16:23535694-23546228:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.80633544921875 2 492.808042 983.601532 NaN NaN NaN NaN NaN NaN NaN 70.124 1 70.38 69.88 70.88 0.25642 0 0 0 0.8984 1 32113 32113 3.9444 0.66309 1 34395 1393 21841 21910 38716 38716 0.10907503999737855 VGKLRNQIKQ 10 Unmodified _VGKLRNQIKQ_ 0 0 0 nc|ENSG00000137831|Q9BZF9-2|UACA;ENSG00000137831|ENST00000322954|UACA nc|ENSG00000137831|Q9BZF9-2|UACA nc|ENSG00000137831|Q9BZF9-2|UACA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.2138061523438 2 592.367121 1182.71969 NaN NaN NaN NaN NaN NaN NaN 75.145 1 75.809 75.309 76.309 0.6635 0 0 0 1.0001 1 36376 36376 1.6526 0 1 34396 3045 21842 21911 38717 38717 0.1356387630826248 VGKLVVKKA 9 Unmodified _VGKLVVKKA_ 0 0 0 REV__ENST00000395315.2_1_2:54756482-54756872:+|nuORF REV__ENST00000395315.2_1_2:54756482-54756872:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.331298828125 2 471.328945 940.643337 NaN NaN NaN NaN NaN NaN NaN 8.0743 1 8.7009 8.2009 9.2009 0.62663 0 0 0 0.90965 1 3642 3642 0.6015 0 1 + 34397 15982 21843 21912 38718 38718 0.17064104478924946 VGKNHEWNW 9 Unmodified _VGKNHEWNW_ 0 0 0 ENSG00000115616|ENST00000233969|SLC9A2;ENSG00000180251|ENST00000295269|SLC9A4 ENSG00000115616|ENST00000233969|SLC9A2 ENSG00000115616|ENST00000233969|SLC9A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.2776489257812 2 585.277972 1168.54139 NaN NaN NaN NaN NaN NaN NaN 109.37 1 109.98 109.48 110.48 0.60264 0 0 0 0.91206 1 50445 50445 0.6015 0 1 34398 1980 21844 21913 38719 38719 -0.03613793610770699 VGKNLIHGS 9 Unmodified _VGKNLIHGS_ 0 0 0 ENSG00000103024|ENST00000219302|NME3 ENSG00000103024|ENST00000219302|NME3 ENSG00000103024|ENST00000219302|NME3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.76849365234375 2 462.766709 923.518865 2.6929 0.0012462 0.38091 0.00017627 3.0738 0.0014225 462.7670341934988 26.953 0.13919 27.217 27.153 27.293 0.26489 19 9 3 0 0 0 0.78763 1 12266 12266 7.2892 7.2892 1 241850 34399 1367 21845 21914 38720 38720 0.0540460699162395 VGKPLLAL 8 Unmodified _VGKPLLAL_ 0 0 0 nc|ENSG00000119977|Q6NUS6-3|TCTN3;nc|ENSG00000119977|Q6NUS6-2|TCTN3;nc|ENSG00000119977|Q6NUS6-5|TCTN3;ENSG00000119977|ENST00000371217|TCTN3 nc|ENSG00000119977|Q6NUS6-3|TCTN3 nc|ENSG00000119977|Q6NUS6-3|TCTN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.77569580078125 2 405.776014 809.537475 NaN NaN NaN NaN NaN NaN NaN 38.353 1 39.151 38.651 39.651 0.79762 0 0 0 0.99035 1 17372 17372 0.79363 0 1 34400 2177 21846 21915 38721 38721 0.12508768633449563 VGKPLRRR 8 Unmodified _VGKPLRRR_ 0 0 0 ENST00000366844.7_2_1:225755113-225840663:-|nuORF ENST00000366844.7_2_1:225755113-225840663:-|nuORF ENST00000366844.7_2_1:225755113-225840663:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.32464599609375 2 491.32506 980.635566 NaN NaN NaN NaN NaN NaN NaN 17.021 1 17.222 16.722 17.722 0.20057 0 0 0 0.99035 1 7534 7534 0.79363 0 1 34401 7241 21847 21916 38722 38722 0.1444739000202162 VGKPLRRR 8 Unmodified _VGKPLRRR_ 0 0 0 ENST00000366844.7_2_1:225755113-225840663:-|nuORF ENST00000366844.7_2_1:225755113-225840663:-|nuORF ENST00000366844.7_2_1:225755113-225840663:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.3243713378906 2 491.32506 980.635566 NaN NaN NaN NaN NaN NaN NaN 94.356 1 94.973 94.473 95.473 0.61736 0 0 0 0.99035 1 43395 43395 0.79363 0 1 34402 7241 21847 21916 38723 38723 0.1444739000202162 VGKQVPQKK 9 Unmodified _VGKQVPQKK_ 0 0 0 REV__ENSG00000166197|ENST00000605788|NOLC1 REV__ENSG00000166197|ENST00000605788|NOLC1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 337.856201171875 3 337.881831 1010.62366 2.4451 0.00082614 0.14526 4.9081E-05 2.5903 0.00087523 337.88189113480115 21.357 0.22305 21.357 21.253 21.476 0 30 21 2 0 0 0 0.11383 1 9523 9523 1.1933 0.12188 1 159020 + 34403 13218 21848 21917 38724 38724 0.11877728468175519 VGKRDSRI 8 Unmodified _VGKRDSRI_ 0 0 0 REV__nc|ENSG00000074370|Q93084-4|ATP2A3 REV__nc|ENSG00000074370|Q93084-4|ATP2A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.7787170410156 2 465.777608 929.540663 2.4192 0.0011268 -0.24167 -0.00011257 2.1775 0.0010142 465.77740471625646 101.77 0.23168 101.77 101.65 101.88 0 13 9 2 0 0 0 0.7471 1 56246 56246 0.79363 0 1 834160 + 34404 10515 21849 21918 38725 38725 0.07307411740168845 VGKRDSRI 8 Unmodified _VGKRDSRI_ 0 0 0 REV__nc|ENSG00000074370|Q93084-4|ATP2A3 REV__nc|ENSG00000074370|Q93084-4|ATP2A3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 465.777608 929.540663 2.4192 0.0011268 -0.24167 -0.00011257 2.1775 0.0010142 465.77740471625646 101.77 0.23168 101.77 101.65 101.88 0 0 0 NaN 0.79363 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 834160 + 34405 10515 21849 21918 0.07307411740168845 VGKRFRKKSW 10 Unmodified _VGKRFRKKSW_ 0 0 0 nc|ENSG00000168398|P30411-2|BDKRB2;ENSG00000168398|ENST00000554311|BDKRB2 nc|ENSG00000168398|P30411-2|BDKRB2 nc|ENSG00000168398|P30411-2|BDKRB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 646.390625 2 646.390931 1290.76731 NaN NaN NaN NaN NaN NaN NaN 94.182 1 94.442 93.942 94.942 0.25975 0 0 0 1.0015 1 43281 43281 0.45834 0.057624 1 34406 4625 21850 21919 38726 38726 0.13355575299124212 VGKRGVRG 8 Unmodified _VGKRGVRG_ 0 0 0 nc|ENSG00000155368|P07108-4|DBI;nc|ENSG00000155368|P07108-5|DBI;ENST00000460901.1_1_2:120124909-120125765:+|nuORF nc|ENSG00000155368|P07108-4|DBI nc|ENSG00000155368|P07108-4|DBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 414.76263427734375 2 414.761761 827.508969 1.9523 0.00080975 0.44502 0.00018458 2.3974 0.00099433 414.7619030961067 82.957 0.38953 83.002 82.803 83.193 0.045006 110 45 3 0 0 0 0.7471 2 41021 41021;41100 0.79363 0 1 24199000 34407 9698 21851 21920 38727;38728 38727 0.08831463776903092 VGKRGVRG 8 Unmodified _VGKRGVRG_ 0 0 0 nc|ENSG00000155368|P07108-4|DBI;nc|ENSG00000155368|P07108-5|DBI;ENST00000460901.1_1_2:120124909-120125765:+|nuORF nc|ENSG00000155368|P07108-4|DBI nc|ENSG00000155368|P07108-4|DBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 828.5192260742188 1 828.516245 827.508969 3.8064 0.0031536 0.66898 0.00055426 4.4753 0.0037079 828.5167154750843 83.011 0.34422 83.258 83.088 83.432 0.24722 44 18 3 0 0 0 0.7471 2 38178 38178;38224 0.79363 0 1 5122300 34408 9698 21851 21920 38729;38730 38729 0.08831463776903092 VGKRGVRG 8 Unmodified _VGKRGVRG_ 0 0 0 nc|ENSG00000155368|P07108-4|DBI;nc|ENSG00000155368|P07108-5|DBI;ENST00000460901.1_1_2:120124909-120125765:+|nuORF nc|ENSG00000155368|P07108-4|DBI nc|ENSG00000155368|P07108-4|DBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 828.5209350585938 1 828.516245 827.508969 4.0751 0.0033763 0.19415 0.00016085 4.2693 0.0035372 828.5162547895928 82.687 0.4278 83.347 83.085 83.513 0.66019 61 24 3 0 0 0 0.7471 4 38009 38009;38051;38099;38147 0.79363 0 1 6031700 34409 9698 21851 21920 38731;38732;38733;38734 38731 0.08831463776903092 VGKRKKRRKRD 11 Unmodified _VGKRKKRRKRD_ 0 0 0 ENSG00000176256|ENST00000681531|HMGB4 ENSG00000176256|ENST00000681531|HMGB4 ENSG00000176256|ENST00000681531|HMGB4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 713.963623046875 2 713.963117 1425.91168 NaN NaN NaN NaN NaN NaN NaN 103.38 1 103.43 102.93 103.93 0.055092 0 0 0 1.008 1 56051 56051 0.35063 0 1 34410 5071 21852 21921 38735 38735 0.21576216779089918 VGKRKKRRKRD 11 Unmodified _VGKRKKRRKRD_ 0 0 0 ENSG00000176256|ENST00000681531|HMGB4 ENSG00000176256|ENST00000681531|HMGB4 ENSG00000176256|ENST00000681531|HMGB4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 713.960693359375 2 713.963117 1425.91168 NaN NaN NaN NaN NaN NaN NaN 94.361 1 94.621 94.121 95.121 0.25975 0 0 0 1.008 1 43362 43362 0.35063 0.081612 1 34411 5071 21852 21921 38736 38736 0.21576216779089918 VGKRPVQW 8 Unmodified _VGKRPVQW_ 0 0 0 REV__nc|ENSG00000183347|Q6ZN66-2|GBP6 REV__nc|ENSG00000183347|Q6ZN66-2|GBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.2881164550781 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 50.344 1 50.344 49.844 50.844 0 0 0 0 0.99035 1 23049 23049 2.5775 0.27475 1 + 34412 13928 21853 21922 38737 38737 0.07004903608174118 VGKRPVQW 8 Unmodified _VGKRPVQW_ 0 0 0 REV__nc|ENSG00000183347|Q6ZN66-2|GBP6 REV__nc|ENSG00000183347|Q6ZN66-2|GBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.28887939453125 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 51.95 1 51.95 51.45 52.45 0 0 0 0 0.99035 1 23787 23787 2.5775 0.51773 1 + 34413 13928 21853 21922 38738 38738 0.07004903608174118 VGKRPVQW 8 Unmodified _VGKRPVQW_ 0 0 0 REV__nc|ENSG00000183347|Q6ZN66-2|GBP6 REV__nc|ENSG00000183347|Q6ZN66-2|GBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.8825988769531 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 59.678 1 59.678 59.178 60.178 0 0 0 0 0.99035 1 27598 27598 2.5775 0.27475 1 + 34414 13928 21853 21922 38739 38739 0.07004903608174118 VGKRPVQW 8 Unmodified _VGKRPVQW_ 0 0 0 REV__nc|ENSG00000183347|Q6ZN66-2|GBP6 REV__nc|ENSG00000183347|Q6ZN66-2|GBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2888488769531 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 45.54 1 45.808 45.308 46.308 0.26768 0 0 0 0.99035 1 20818 20818 2.5775 0 1 + 34415 13928 21853 21922 38740 38740 0.07004903608174118 VGKRPVQW 8 Unmodified _VGKRPVQW_ 0 0 0 REV__nc|ENSG00000183347|Q6ZN66-2|GBP6 REV__nc|ENSG00000183347|Q6ZN66-2|GBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2893371582031 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 44.918 1 45.568 45.068 46.068 0.64998 0 0 0 0.99035 1 20585 20585 2.5775 0.27475 1 + 34416 13928 21853 21922 38741 38741 0.07004903608174118 VGKRPVQW 8 Unmodified _VGKRPVQW_ 0 0 0 REV__nc|ENSG00000183347|Q6ZN66-2|GBP6 REV__nc|ENSG00000183347|Q6ZN66-2|GBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.28826904296875 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 46.212 1 46.863 46.363 47.363 0.65104 0 0 0 0.99035 1 21167 21167 2.5775 0.51773 1 + 34417 13928 21853 21922 38742 38742 0.07004903608174118 VGKRPVQW 8 Unmodified _VGKRPVQW_ 0 0 0 REV__nc|ENSG00000183347|Q6ZN66-2|GBP6 REV__nc|ENSG00000183347|Q6ZN66-2|GBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2892150878906 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 47.251 1 47.903 47.403 48.403 0.65219 0 0 0 0.99035 1 21637 21637 2.5775 0.51773 1 + 34418 13928 21853 21922 38743 38743 0.07004903608174118 VGKRRKCP 8 Unmodified _VGKRRKCP_ 0 0 0 REV__ENST00000502976.5_1_3:128889097-128889217:-|nuORF REV__ENST00000502976.5_1_3:128889097-128889217:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.28472900390625 2 472.284546 942.554539 NaN NaN NaN NaN NaN NaN NaN 105.97 1 105.97 105.47 106.47 0 0 0 0 0.99035 1 58218 58218 0.79363 0 1 + 34419 16899 21854 21923 38744 38744 0.08096365967617203 VGKRRKDLR 9 Unmodified _VGKRRKDLR_ 0 0 0 REV__nc|ENSG00000174844|Q6ZR08|DNAH12 REV__nc|ENSG00000174844|Q6ZR08|DNAH12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.4356079101562 2 564.359631 1126.70471 NaN NaN NaN NaN NaN NaN NaN 93.332 1 93.587 93.087 94.087 0.25497 0 0 0 0.91206 1 42897 42897 0.6015 0 1 + 34420 13648 21855 21924 38745 38745 0.14642429230934795 VGKRSFSS 8 Unmodified _VGKRSFSS_ 0 0 0 ENST00000570784.1_1_17:7836059-7836319:+|nuORF ENST00000570784.1_1_17:7836059-7836319:+|nuORF ENST00000570784.1_1_17:7836059-7836319:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.23907470703125 2 434.237784 866.461016 NaN NaN NaN NaN NaN NaN NaN 66.368 1 66.368 65.868 66.868 0 0 0 0 0.99035 1 31713 31713 5.2307 2.9279 1 34421 9087 21856 21925 38746 38746 0.02244345066196729 VGKRTPRPQLS 11 Unmodified _VGKRTPRPQLS_ 0 0 0 REV__ENST00000262958.3_1_19:3163029-3163218:+|nuORF REV__ENST00000262958.3_1_19:3163029-3163218:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.8720703125 2 619.870028 1237.7255 3.8115 0.0023626 -0.62363 -0.00038657 3.1878 0.001976 619.8694135185851 87.542 0.69191 88.218 87.808 88.5 0.67555 67 32 3 0 0 0 0.91328 1 40195 40195 0.35063 0.35063 1 1180300 + 34422 14994 21857 21926 38747 38747 0.11614974819917734 VGKRTVPL 8 Unmodified _VGKRTVPL_ 0 0 0 ENSG00000184984|ENST00000383263|CHRM5 ENSG00000184984|ENST00000383263|CHRM5 ENSG00000184984|ENST00000383263|CHRM5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 435.1141357421875 2 435.281995 868.549437 NaN NaN NaN NaN NaN NaN NaN 66.569 1 67.274 66.774 67.774 0.7047 0 0 0 0.99035 1 31565 31565 5.2307 0 1 34423 5473 21858 21927 38748 38748 0.10990385376646827 VGKRVPRN 8 Unmodified _VGKRVPRN_ 0 0 0 ENST00000262544.6_1_20:18488293-18488443:+|nuORF ENST00000262544.6_1_20:18488293-18488443:+|nuORF ENST00000262544.6_1_20:18488293-18488443:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.289794921875 2 463.288143 924.561733 NaN NaN NaN NaN NaN NaN NaN 79.385 1 79.636 79.136 80.136 0.25127 0 0 0 0.99035 1 36556 36556 2.5775 0 1 34424 6577 21859 21928 38749 38749 0.0964342183970075 VGKRVPRN 8 Unmodified _VGKRVPRN_ 0 0 0 ENST00000262544.6_1_20:18488293-18488443:+|nuORF ENST00000262544.6_1_20:18488293-18488443:+|nuORF ENST00000262544.6_1_20:18488293-18488443:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.2886657714844 2 463.288143 924.561733 NaN NaN NaN NaN NaN NaN NaN 79.592 1 79.843 79.343 80.343 0.25127 0 0 0 0.99035 1 36649 36649 2.5775 0 1 34425 6577 21859 21928 38750 38750 0.0964342183970075 VGKRVPRN 8 Unmodified _VGKRVPRN_ 0 0 0 ENST00000262544.6_1_20:18488293-18488443:+|nuORF ENST00000262544.6_1_20:18488293-18488443:+|nuORF ENST00000262544.6_1_20:18488293-18488443:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.2875061035156 2 463.288143 924.561733 NaN NaN NaN NaN NaN NaN NaN 93.955 1 94.215 93.715 94.715 0.25975 0 0 0 0.99035 1 43179 43179 2.5775 0 1 34426 6577 21859 21928 38751 38751 0.0964342183970075 VGKRYRERQRQ 11 Unmodified _VGKRYRERQRQ_ 0 0 0 ENST00000514900.5_1_3:129122974-129137267:-|nuORF;ENST00000503498.1_1_3:129120438-129130339:-|nuORF;ENSG00000172771|ENST00000505956|EFCAB12 ENST00000514900.5_1_3:129122974-129137267:-|nuORF ENST00000514900.5_1_3:129122974-129137267:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 738.41748046875 2 738.41874 1474.82293 NaN NaN NaN NaN NaN NaN NaN 34.7 1 35.489 34.989 35.989 0.78921 0 0 0 1.008 1 15721 15721 0.35063 0.043601 1 34427 4891 21860 21929 38752 38752 0.10450756748787171 VGKRYRERQRQ 11 Unmodified _VGKRYRERQRQ_ 0 0 0 ENST00000514900.5_1_3:129122974-129137267:-|nuORF;ENST00000503498.1_1_3:129120438-129130339:-|nuORF;ENSG00000172771|ENST00000505956|EFCAB12 ENST00000514900.5_1_3:129122974-129137267:-|nuORF ENST00000514900.5_1_3:129122974-129137267:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 738.4212646484375 2 738.41874 1474.82293 NaN NaN NaN NaN NaN NaN NaN 59.903 1 60.163 59.663 60.663 0.2593 0 0 0 1.008 1 27432 27432 0.35063 0.043601 1 34428 4891 21860 21929 38753 38753 0.10450756748787171 VGKSLAGKRL 10 Unmodified _VGKSLAGKRL_ 0 0 0 nc|ENSG00000182732|P49758-9|RGS6;ENSG00000182732|ENST00000553525|RGS6 nc|ENSG00000182732|P49758-9|RGS6 nc|ENSG00000182732|P49758-9|RGS6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.5588073730469 3 343.557348 1027.65021 2.7667 0.0009505 0.90221 0.00030996 3.6689 0.0012605 343.55766081659107 5.1796 0.43903 5.8025 5.6082 6.0473 0.62294 84 41 3 0 0 0 0.93534 2 2321 2321;2366 0.77653 0.31819 1 180110 34429 5347 21861 21930 38754;38755 38754 0.13749417359508698 VGKSLAGKRL 10 Unmodified _VGKSLAGKRL_ 0 0 0 nc|ENSG00000182732|P49758-9|RGS6;ENSG00000182732|ENST00000553525|RGS6 nc|ENSG00000182732|P49758-9|RGS6 nc|ENSG00000182732|P49758-9|RGS6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 343.557348 1027.65021 1.8088 0.00062144 0.84104 0.00028895 2.6499 0.00091039 343.5576762740857 5.1531 0.077813 5.5126 5.4655 5.5433 0.35949 -0.14496 -4.2452E-05 NaN 0.77653 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 23842 34430 5347 21861 21930 0.13749417359508698 VGKSPPLSRSR 11 Unmodified _VGKSPPLSRSR_ 0 0 0 ENST00000564068.1_1_15:75628478-75628964:+|nuORF ENST00000564068.1_1_15:75628478-75628964:+|nuORF ENST00000564068.1_1_15:75628478-75628964:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.2232666015625 3 395.235045 1182.6833 3.2448 0.0012825 -0.50266 -0.00019867 2.7422 0.0010838 395.23485706778564 32.318 0.36857 32.573 32.459 32.827 0.25452 35 26 2 0 0 0 0.88721 1 14822 14822 1.2148 0 1 1008300 34431 9023 21862 21931 38756 38756 0.09926999411527504 VGKTAPERN 9 Unmodified _VGKTAPERN_ 0 0 0 ENSG00000141431|ENST00000269197|ASXL3 ENSG00000141431|ENST00000269197|ASXL3 ENSG00000141431|ENST00000269197|ASXL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.268310546875 2 486.267073 970.519593 3.3921 0.0016495 -0.089821 -4.3677E-05 3.3023 0.0016058 486.26688209225944 93.336 0.44106 93.967 93.745 94.186 0.63115 67 22 4 0 0 0 1.1154 1 42922 42922 2.0598 0 1 3090100 34432 3250 21863 21932 38757 38757 0.03315401640657001 VGKTPPST 8 Unmodified _VGKTPPST_ 0 0 0 ENST00000468376.2_1_20:45867286-45947776:-|nuORF;nc|ENSG00000101040|Q9ULU4-2|ZMYND8;nc|ENSG00000101040|Q9ULU4-16|ZMYND8;ENSG00000101040|ENST00000471951|ZMYND8;nc|ENSG00000101040|Q9ULU4-11|ZMYND8;nc|ENSG00000101040|Q9ULU4-10|ZMYND8;nc|ENSG00000101040|Q9ULU4-13|ZMYND8;nc|ENSG00000101040|Q9ULU4-20|ZMYND8;nc|ENSG00000101040|Q9ULU4|ZMYND8;nc|ENSG00000101040|Q9ULU4-5|ZMYND8;nc|ENSG00000101040|Q9ULU4-9|ZMYND8;nc|ENSG00000101040|Q9ULU4-22|ZMYND8;nc|ENSG00000101040|Q9ULU4-4|ZMYND8;nc|ENSG00000101040|Q9ULU4-12|ZMYND8;nc|ENSG00000101040|Q9ULU4-14|ZMYND8;nc|ENSG00000101040|Q9ULU4-18|ZMYND8;nc|ENSG00000101040|Q9ULU4-21|ZMYND8;nc|ENSG00000101040|Q9ULU4-23|ZMYND8;nc|ENSG00000101040|Q9ULU4-15|ZMYND8;nc|ENSG00000101040|Q9ULU4-6|ZMYND8;nc|ENSG00000101040|Q9ULU4-3|ZMYND8;nc|ENSG00000101040|Q9ULU4-19|ZMYND8 ENST00000468376.2_1_20:45867286-45947776:-|nuORF ENST00000468376.2_1_20:45867286-45947776:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 393.7223815917969 2 393.721436 785.428318 2.5514 0.0010046 0.49019 0.000193 3.0416 0.0011976 393.72157664911316 34.854 0.2483 35.643 35.568 35.816 0.78921 25 17 2 0 0 0 0.66653 1 15793 15793 8.5933 0 1 264450 34433 8154 21864 21933 38758 38758 0.027021379433335824 VGKTPRSSL 9 Unmodified _VGKTPRSSL_ 0 0 0 ENST00000393791.7_1_12:57872476-57873010:-|nuORF ENST00000393791.7_1_12:57872476-57873010:-|nuORF ENST00000393791.7_1_12:57872476-57873010:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.78192138671875 2 472.779816 943.545079 2.9778 0.0014079 0.093406 4.416E-05 3.0712 0.001452 472.7801532816476 21.324 0.14193 21.324 21.237 21.379 0 20 12 2 0 0 0 0.27958 1 9529 9529 18.146 0 1 125710 34434 7536 21865 21934 38759 38759 0.07104876163089102 VGKTVFVGDTL 11 Unmodified _VGKTVFVGDTL_ 0 0 0 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.3241577148438 2 568.321514 1134.62847 3.5804 0.0020348 0.51722 0.00029395 4.0977 0.0023288 568.3218283872557 49.364 0.33628 50.191 50.005 50.342 0.82705 36 15 3 0 0 0 0.78292 1 22526 22526 7.609 0.88579 1 735610 34435 1540 21866 21935 38760 38760 0.06654567820282864 VGKVHAKK 8 Unmodified _VGKVHAKK_ 0 0 0 nc|ENSG00000166432|Q5H9K5|ZMAT1;ENSG00000166432|ENST00000651725|ZMAT1;ENST00000488347.5_1_X:101149758-101186981:-|nuORF;ENST00000458570.5_1_X:101149758-101187002:-|nuORF nc|ENSG00000166432|Q5H9K5|ZMAT1 nc|ENSG00000166432|Q5H9K5|ZMAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 866.5580444335938 1 866.557047 865.549771 3.7055 0.003211 -1.456 -0.0012617 2.2496 0.0019494 866.5554662578621 48.082 0.29164 48.082 47.978 48.269 0 21 12 2 0 0 0 0.7471 1 21994 21994 0.79363 0.10326 1 344860 34436 4482 21867 21936 38761 38761 0.11161805096503485 VGKVIYKQFK 10 Unmodified _VGKVIYKQFK_ 0 0 0 nc|ENSG00000160200|P35520-2|CBS;ENSG00000160200|ENST00000398165|CBS;ENST00000462349.5_1_21:44473992-44479496:-|nuORF nc|ENSG00000160200|P35520-2|CBS nc|ENSG00000160200|P35520-2|CBS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.2516784667969 3 403.916653 1208.72813 2.8801 0.0011633 1.2373 0.00049977 4.1174 0.0016631 403.91677749793155 38.291 0.74242 38.555 37.982 38.724 0.26408 44 23 3 0 0 0 0.93628 1 17380 17380 0.69767 0 1 822300 34437 4045 21868 21937 38762 38762 0.13211430224873766 VGKVIYKQFK 10 Unmodified _VGKVIYKQFK_ 0 0 0 nc|ENSG00000160200|P35520-2|CBS;ENSG00000160200|ENST00000398165|CBS;ENST00000462349.5_1_21:44473992-44479496:-|nuORF nc|ENSG00000160200|P35520-2|CBS nc|ENSG00000160200|P35520-2|CBS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 404.251708984375 3 403.916653 1208.72813 2.8741 0.0011609 0.9292 0.00037532 3.8033 0.0015362 403.9167831712651 37.394 0.74297 38.024 37.752 38.495 0.62999 65 27 3 0 0 0 0.94217 1 17312 17312 0.15932 0 1 641050 34438 4045 21868 21937 38763 38763 0.13211430224873766 VGKVKFASL 9 Unmodified _VGKVKFASL_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.7991638183594 2 474.797478 947.580402 2.6412 0.001254 0.95064 0.00045136 3.5918 0.0017054 474.79774655304186 33.824 0.1182 34.612 34.582 34.7 0.78795 14 8 2 0 0 0 0.028592 1 15323 15323 53.404 19.002 1 524110 34439 2480 21869 21938 38764 38764 0.10451538690892903 VGKVKFASL 9 Unmodified _VGKVKFASL_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.7984313964844 2 474.797478 947.580402 2.9883 0.0014188 0.51285 0.0002435 3.5011 0.0016623 474.7976106688062 34.602 0.23699 34.856 34.699 34.936 0.25389 17 9 2 0 0 0 0.0053299 2 15735 15735;15780 99.755 26.892 1 1218000 34440 2480 21869 21938 38765;38766 38765 0.10451538690892903 VGKVKFASL 9 Unmodified _VGKVKFASL_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 316.8682556152344 3 316.867411 947.580402 2.2808 0.00072271 -0.16675 -5.2836E-05 2.1141 0.00066988 316.8673808924825 34.604 0.33842 34.858 34.646 34.984 0.25389 27 13 3 0 0 0 0.29024 1 15749 15749 17.443 3.0373 1 1709500 34441 2480 21869 21938 38767 38767 0.10451538690892903 VGKVKFASL 9 Unmodified _VGKVKFASL_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.7990417480469 2 474.797478 947.580402 2.9678 0.0014091 0.13825 6.5639E-05 3.1061 0.0014748 474.7975101247666 34.156 0.27929 34.776 34.612 34.892 0.62031 21 13 2 0 0 0 0.0066378 1 15640 15640 86.332 21.097 1 1105200 34442 2480 21869 21938 38768 38768 0.10451538690892903 VGKVKFASL 9 Unmodified _VGKVKFASL_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 316.867411 947.580402 1.9669 0.00062325 0.018475 5.8542E-06 1.9854 0.00062911 316.8674309588468 33.803 0.19209 34.591 34.537 34.729 0.78795 -0.14882 0.0001209 NaN 17.443 23 16 2 NaN NaN NaN NaN 0 NaN NaN 0 856110 34443 2480 21869 21938 0.10451538690892903 VGKVKFASL 9 Unmodified _VGKVKFASL_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 316.867411 947.580402 2.0502 0.00064964 -0.17616 -5.5818E-05 1.874 0.00059382 316.86737525367596 34.15 0.32454 34.77 34.612 34.937 0.62032 0.030327 -6.4119E-05 NaN 17.443 24 15 2 NaN NaN NaN NaN 0 NaN NaN 0 1264400 34444 2480 21869 21938 0.10451538690892903 VGKVLKRRK 9 Unmodified _VGKVLKRRK_ 0 0 0 ENST00000452510.6_2_5:134102740-134109419:+|nuORF ENST00000452510.6_2_5:134102740-134109419:+|nuORF ENST00000452510.6_2_5:134102740-134109419:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.37744140625 2 542.377292 1082.74003 NaN NaN NaN NaN NaN NaN NaN 74.155 1 74.841 74.341 75.341 0.68662 0 0 0 0.91206 1 35830 35830 0.6015 0.076735 1 34445 8028 21870 21939 38769 38769 0.20197091758745955 VGKVLKRRKKT 11 Unmodified _VGKVLKRRKKT_ 0 0 0 ENST00000452510.6_2_5:134102740-134109419:+|nuORF ENST00000452510.6_2_5:134102740-134109419:+|nuORF ENST00000452510.6_2_5:134102740-134109419:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 656.9501953125 2 656.948613 1311.88267 NaN NaN NaN NaN NaN NaN NaN 52.741 1 53.545 53.045 54.045 0.80351 0 0 0 1.008 1 24032 24032 0.35063 0.35063 1 34446 8028 21871 21940 38770 38770 0.2392067943010261 VGKVMIAKH 9 Unmodified _VGKVMIAKH_ 0 0 0 REV__ENSG00000135046|ENST00000257497|ANXA1 REV__ENSG00000135046|ENST00000257497|ANXA1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.1087341308594 2 491.796955 981.579357 3.0405 0.0014953 -1.5512 -0.00076286 1.4893 0.00073244 491.7959087986483 51.218 0.43418 51.48 51.15 51.584 0.26146 35 19 2 0 0 0 0.11393 1 23277 23277 2.0598 0 1 1513900 + 34447 11994 21872 21941 38771 38771 0.08783001050335315 VGKVMIAKH 9 Unmodified _VGKVMIAKH_ 0 0 0 REV__ENSG00000135046|ENST00000257497|ANXA1 REV__ENSG00000135046|ENST00000257497|ANXA1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 491.796955 981.579357 3.2552 0.0016009 -0.34153 -0.00016797 2.9137 0.0014329 491.79624340801445 51.462 0.34784 51.462 51.266 51.614 0 -0.0089726 0.00087745 NaN 2.0598 31 17 2 NaN NaN NaN NaN 0 NaN NaN 0 814410 + 34448 11994 21872 21941 0.08783001050335315 VGKVPLCFV 9 Unmodified _VGKVPLCFV_ 0 0 0 nc|ENSG00000119684|Q9UHC1-2|MLH3;ENSG00000119684|ENST00000355774|MLH3 nc|ENSG00000119684|Q9UHC1-2|MLH3 nc|ENSG00000119684|Q9UHC1-2|MLH3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.28192138671875 2 481.280606 960.546659 NaN NaN NaN NaN NaN NaN NaN 37.269 1 37.899 37.399 38.399 0.62999 0 0 0 0.89315 1 17056 17056 5.2307 2.3415 1 34449 2156 21873 21942 38772 38772 0.06480793927494233 VGKWICFYVL 10 Unmodified _VGKWICFYVL_ 0 0 0 REV__ENSG00000157103|ENST00000287766|SLC6A1 REV__ENSG00000157103|ENST00000287766|SLC6A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.892578125 3 409.891339 1226.65219 3.0165 0.0012364 0.42249 0.00017317 3.439 0.0014096 409.89138985533566 15.743 1.0199 16.401 16.021 17.041 0.65798 303 137 3 0 0 0 0.9406 2 7167 7167;7211 0.77653 0 1 177450 + 34450 12795 21874 21943 38773;38774 38773 0.047927100530841926 VGKWVRPMVRV 11 Unmodified _VGKWVRPMVRV_ 0 0 0 REV__ENST00000430145.3_1_19:49166463-49183997:+|nuORF REV__ENST00000430145.3_1_19:49166463-49183997:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.8970336914062 2 663.894992 1325.77543 4.4046 0.0029242 0.84439 0.00056059 5.249 0.0034848 663.8956239197483 93.78 0.81502 94.035 93.791 94.606 0.25497 112 39 4 0 0 0 0.91328 1 43280 43280 0.35063 0.043601 1 2859300 + 34451 16247 21875 21944 38775 38775 0.12557386224216316 VGKYTMVF 8 Unmodified _VGKYTMVF_ 0 0 0 ENSG00000121578|ENST00000393765|B4GALT4 ENSG00000121578|ENST00000393765|B4GALT4 ENSG00000121578|ENST00000393765|B4GALT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.7481994628906 2 472.749139 943.483725 NaN NaN NaN NaN NaN NaN NaN 45.86 1 45.86 45.36 46.36 0 0 0 0 0.99035 1 20979 20979 2.8892 0 1 34452 2233 21876 21945 38776 38776 0.009722281394374477 VGLAFFIFL 9 Unmodified _VGLAFFIFL_ 0 0 0 ENST00000540272.1_1_11:60711109-60714230:-|nuORF;ENSG00000110446|ENST00000227880|SLC15A3 ENST00000540272.1_1_11:60711109-60714230:-|nuORF ENST00000540272.1_1_11:60711109-60714230:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8063354492188 2 513.804771 1025.59499 3.5953 0.0018473 -0.18351 -9.4289E-05 3.4118 0.001753 513.8045288793668 92.943 0.4111 93.59 93.368 93.779 0.64714 54 21 3 0 0 0 1.101 1 42826 42826 2.3027 0 1 4584200 34453 1718 21877 21946 38777 38777 0.08321610839016103 VGLAFMNSQM 10 Unmodified _VGLAFMNSQM_ 0 0 0 ENST00000397942.3_1_18:67993213-67993267:+|nuORF ENST00000397942.3_1_18:67993213-67993267:+|nuORF ENST00000397942.3_1_18:67993213-67993267:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.3209228515625 2 549.259545 1096.50454 NaN NaN NaN NaN NaN NaN NaN 97.128 1 97.73 97.23 98.23 0.6019 0 0 0 1.0003 1 44659 44659 1.4819 0 1 34454 7586 21878 21947 38778 38778 -0.039855495431993404 VGLALFIILLL 11 Unmodified _VGLALFIILLL_ 0 0 0 REV__ENSG00000131398|ENST00000477616|KCNC3 REV__ENSG00000131398|ENST00000477616|KCNC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.9058837890625 2 592.904485 1183.79442 NaN NaN NaN NaN NaN NaN NaN 46.527 1 47.18 46.68 47.68 0.65219 0 0 0 1.008 1 21311 21311 0.35063 0 1 + 34455 11858 21879 21948 38779 38779 0.20987246066943044 VGLALPSRPLP 11 Unmodified _VGLALPSRPLP_ 0 0 0 ENST00000503473.5_1_5:176730316-176737711:-|nuORF;ENST00000503782.1_1_5:176734591-176737711:-|nuORF ENST00000503473.5_1_5:176730316-176737711:-|nuORF ENST00000503473.5_1_5:176730316-176737711:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.8494873046875 2 560.347866 1118.68118 3.4816 0.0019509 -0.040564 -2.273E-05 3.4411 0.0019282 560.3477616198973 28.227 0.31171 28.846 28.674 28.985 0.61947 40 21 2 0 0 0 0.9102 1 13000 13000 1.4819 0 1 323790 34456 8489 21880 21949 38780 38780 0.12658570673738723 VGLAVPILS 9 Unmodified _VGLAVPILS_ 0 0 0 nc|ENSG00000154914|Q70EL4-4|USP43;ENSG00000154914|ENST00000285199|USP43 nc|ENSG00000154914|Q70EL4-4|USP43 nc|ENSG00000154914|Q70EL4-4|USP43 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.7817687988281 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 30.638 1 30.638 30.138 31.138 0 0 0 0 0.90611 1 13844 13844 2.0598 0 1 34457 3844 21881 21950 38781 38781 0.10388447425293634 VGLAVPILS 9 Unmodified _VGLAVPILS_ 0 0 0 nc|ENSG00000154914|Q70EL4-4|USP43;ENSG00000154914|ENST00000285199|USP43 nc|ENSG00000154914|Q70EL4-4|USP43 nc|ENSG00000154914|Q70EL4-4|USP43 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.78155517578125 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 34.296 1 34.296 33.796 34.796 0 0 0 0 0.90611 1 15545 15545 2.0598 0 1 34458 3844 21881 21950 38782 38782 0.10388447425293634 VGLAVPILS 9 Unmodified _VGLAVPILS_ 0 0 0 nc|ENSG00000154914|Q70EL4-4|USP43;ENSG00000154914|ENST00000285199|USP43 nc|ENSG00000154914|Q70EL4-4|USP43 nc|ENSG00000154914|Q70EL4-4|USP43 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.7813720703125 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 66.872 1 66.872 66.372 67.372 0 0 0 0 0.90511 1 31992 31992 2.3027 0 1 34459 3844 21881 21950 38783 38783 0.10388447425293634 VGLAVPILS 9 Unmodified _VGLAVPILS_ 0 0 0 nc|ENSG00000154914|Q70EL4-4|USP43;ENSG00000154914|ENST00000285199|USP43 nc|ENSG00000154914|Q70EL4-4|USP43 nc|ENSG00000154914|Q70EL4-4|USP43 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.6539306640625 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 73.179 1 73.179 72.679 73.679 0 0 0 0 0.90611 1 35643 35643 2.0598 0 1 34460 3844 21881 21950 38784 38784 0.10388447425293634 VGLAVPILS 9 Unmodified _VGLAVPILS_ 0 0 0 nc|ENSG00000154914|Q70EL4-4|USP43;ENSG00000154914|ENST00000285199|USP43 nc|ENSG00000154914|Q70EL4-4|USP43 nc|ENSG00000154914|Q70EL4-4|USP43 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.7806091308594 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 50.889 1 51.706 51.206 52.206 0.81738 0 0 0 0.90611 1 23179 23179 2.0598 0 1 34461 3844 21881 21950 38785 38785 0.10388447425293634 VGLAVPILS 9 Unmodified _VGLAVPILS_ 0 0 0 nc|ENSG00000154914|Q70EL4-4|USP43;ENSG00000154914|ENST00000285199|USP43 nc|ENSG00000154914|Q70EL4-4|USP43 nc|ENSG00000154914|Q70EL4-4|USP43 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.78045654296875 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 64.633 1 65.348 64.848 65.848 0.71521 0 0 0 0.90611 1 30459 30459 2.0598 0 1 34462 3844 21881 21950 38786 38786 0.10388447425293634 VGLAVPILS 9 Unmodified _VGLAVPILS_ 0 0 0 nc|ENSG00000154914|Q70EL4-4|USP43;ENSG00000154914|ENST00000285199|USP43 nc|ENSG00000154914|Q70EL4-4|USP43 nc|ENSG00000154914|Q70EL4-4|USP43 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.7818298339844 2 434.778754 867.542954 3.0125 0.0013098 0.19438 8.4511E-05 3.2069 0.0013943 434.78008068772994 37.286 1.129 37.547 36.994 38.123 0.26083 84 36 4 0 0 0 1.1154 1 16791 16791 2.0598 0 1 692050 34463 3844 21881 21950 38787 38787 0.10388447425293634 VGLAVPILS 9 Unmodified _VGLAVPILS_ 0 0 0 nc|ENSG00000154914|Q70EL4-4|USP43;ENSG00000154914|ENST00000285199|USP43 nc|ENSG00000154914|Q70EL4-4|USP43 nc|ENSG00000154914|Q70EL4-4|USP43 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.78106689453125 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 48.751 1 49.406 48.906 49.906 0.65524 0 0 0 0.90611 1 22306 22306 2.0598 0 1 34464 3844 21881 21950 38788 38788 0.10388447425293634 VGLCLFPIKYL 11 Unmodified _VGLCLFPIKYL_ 0 0 0 ENST00000309922.6_1_3:101284860-101285061:+|nuORF ENST00000309922.6_1_3:101284860-101285061:+|nuORF ENST00000309922.6_1_3:101284860-101285061:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.8726806640625 2 633.369952 1264.72535 4.1316 0.0026168 -1.1686 -0.00074017 2.9629 0.0018766 633.3690522411799 89.672 1.7163 89.923 89.418 91.134 0.25137 145 83 3 0 0 0 0.9102 1 41461 41461 1.4819 0.28856 1 1444700 34465 6861 21882 21951 38789 38789 0.1035783877571248 VGLCLFPIKYL 11 Unmodified _VGLCLFPIKYL_ 0 0 0 ENST00000309922.6_1_3:101284860-101285061:+|nuORF ENST00000309922.6_1_3:101284860-101285061:+|nuORF ENST00000309922.6_1_3:101284860-101285061:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.3720092773438 2 633.369952 1264.72535 NaN NaN NaN NaN NaN NaN NaN 90.472 1 90.723 90.223 91.223 0.25137 0 0 0 1.0071 1 41605 41605 1.4819 0 1 34466 6861 21882 21951 38790 38790 0.1035783877571248 VGLCLFPIKYL 11 Unmodified _VGLCLFPIKYL_ 0 0 0 ENST00000309922.6_1_3:101284860-101285061:+|nuORF ENST00000309922.6_1_3:101284860-101285061:+|nuORF ENST00000309922.6_1_3:101284860-101285061:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3714599609375 2 633.369952 1264.72535 4.0553 0.0025685 -0.9611 -0.00060873 3.0942 0.0019598 633.3690067448039 88.277 0.61278 88.955 88.663 89.276 0.67818 39 25 2 0 0 0 0.9102 1 40702 40702 1.4819 0.28856 1 440610 34467 6861 21882 21951 38791 38791 0.1035783877571248 VGLCLFPIKYL 11 Unmodified _VGLCLFPIKYL_ 0 0 0 ENST00000309922.6_1_3:101284860-101285061:+|nuORF ENST00000309922.6_1_3:101284860-101285061:+|nuORF ENST00000309922.6_1_3:101284860-101285061:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3740844726562 2 633.369952 1264.72535 4.0646 0.0025744 -0.85168 -0.00053943 3.2129 0.002035 633.369310370016 89.385 1.5481 90.063 89.107 90.655 0.67818 130 71 3 0 0 0 0.9102 3 40812 40812;40863;41314 1.4819 0.28856 1 1256400 34468 6861 21882 21951 38792;38793;38794 38792 0.1035783877571248 VGLCLFPIKYL 11 Unmodified _VGLCLFPIKYL_ 0 0 0 ENST00000309922.6_1_3:101284860-101285061:+|nuORF ENST00000309922.6_1_3:101284860-101285061:+|nuORF ENST00000309922.6_1_3:101284860-101285061:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.372802734375 2 633.369952 1264.72535 NaN NaN NaN NaN NaN NaN NaN 90.326 1 90.998 90.498 91.498 0.67271 0 0 0 1.0071 1 41576 41576 1.4819 0 1 34469 6861 21882 21951 38795 38795 0.1035783877571248 VGLCLFPIKYL 11 Unmodified _VGLCLFPIKYL_ 0 0 0 ENST00000309922.6_1_3:101284860-101285061:+|nuORF ENST00000309922.6_1_3:101284860-101285061:+|nuORF ENST00000309922.6_1_3:101284860-101285061:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 633.369952 1264.72535 4.0585 0.0025705 -1.1959 -0.00075746 2.8626 0.0018131 633.3689003896008 88.697 0.75892 88.948 88.659 89.417 0.25118 -0.0036372 -0.00016226 NaN 1.4819 55 30 3 NaN NaN NaN NaN 0 NaN NaN 0 1070400 34470 6861 21882 21951 0.1035783877571248 VGLDGALLSL 10 Unmodified _VGLDGALLSL_ 0 0 0 REV__nc|ENSG00000167741|Q6P531-2|GGT6 REV__nc|ENSG00000167741|Q6P531-2|GGT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.2845458984375 2 479.2844 956.554247 3.4311 0.0016445 -0.52209 -0.00025023 2.909 0.0013942 479.2840062795644 46.069 0.32764 46.72 46.501 46.829 0.65104 15 9 2 0 0 0 0.16248 1 21077 21077 52.268 14.294 1 677380 + 34471 13307 21883 21952 38796 38796 0.07423224728779587 VGLEWWWENG 10 Unmodified _VGLEWWWENG_ 0 0 0 ENST00000511915.1_1_12:112130513-112130759:+|nuORF ENST00000511915.1_1_12:112130513-112130759:+|nuORF ENST00000511915.1_1_12:112130513-112130759:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 638.1841430664062 2 638.293288 1274.57202 NaN NaN NaN NaN NaN NaN NaN 107.31 1 107.62 107.12 108.12 0.31421 0 0 0 1.0015 1 49504 49504 0.45834 0 1 34472 8567 21884 21953 38797 38797 -0.05428060016379277 VGLFRVYF 8 Unmodified _VGLFRVYF_ 0 0 0 REV__ENST00000310924.6_1_17:77913861-77913975:-|nuORF REV__ENST00000310924.6_1_17:77913861-77913975:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.785400390625 2 500.78437 999.554188 3.2863 0.0016457 0.091434 4.5789E-05 3.3778 0.0016915 500.78447898530436 15.539 1.8154 16.192 15.751 17.566 0.65356 592 218 4 0 0 0 0.7471 1 7609 7609 0.79363 0 1 526190 + 34473 15264 21885 21954 38798 38798 0.05439269519422396 VGLFVMPI 8 Unmodified _VGLFVMPI_ 0 0 0 HTR2B|p.T305Sfs*16|1|0.16|ENSG00000135914|chr2:231109031-231109049|TTTTTCCCAATTGTGGATG/-|frameshift_variant;ENSG00000135914|ENST00000258400|HTR2B HTR2B|p.T305Sfs*16|1|0.16|ENSG00000135914|chr2:231109031-231109049|TTTTTCCCAATTGTGGATG/-|frameshift_variant HTR2B|p.T305Sfs*16|1|0.16|ENSG00000135914|chr2:231109031-231109049|TTTTTCCCAATTGTGGATG/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 438.25701904296875 2 438.2566 874.498647 NaN NaN NaN NaN NaN NaN NaN 15.272 1 15.925 15.425 16.425 0.65356 0 0 0 0.99035 1 6876 6876 2.8892 0 1 34474 2908 21886 21955 38799 38799 0.05637720007439384 VGLFVSILILS 11 Unmodified _VGLFVSILILS_ 0 0 0 nc|ENSG00000204624|Q9P2K9-2|DISP3;ENSG00000204624|ENST00000294484|DISP3 nc|ENSG00000204624|Q9P2K9-2|DISP3 nc|ENSG00000204624|Q9P2K9-2|DISP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 580.869384765625 2 580.8681 1159.72165 NaN NaN NaN NaN NaN NaN NaN 70.615 1 71.277 70.777 71.777 0.66209 0 0 0 1.0071 1 32366 32366 1.4819 0 1 34475 6025 21887 21956 38800 38800 0.1481749227355067 VGLGPLLLT 9 Unmodified _VGLGPLLLT_ 0 0 0 REV__nc|ENSG00000178607|O75460-2|ERN1 REV__nc|ENSG00000178607|O75460-2|ERN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.7875061035156 2 441.786579 881.558604 NaN NaN NaN NaN NaN NaN NaN 42.707 1 42.977 42.477 43.477 0.27021 0 0 0 0.90511 1 19478 19478 2.3027 1.6124 1 + 34476 18059 21888 21957 38801 38801 0.11308733942325944 VGLGRAVEVRR 11 Unmodified _VGLGRAVEVRR_ 0 0 0 ENST00000497918.5_1_2:220029863-220033027:-|nuORF ENST00000497918.5_1_2:220029863-220033027:-|nuORF ENST00000497918.5_1_2:220029863-220033027:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 606.3739013671875 2 606.370195 1210.72584 NaN NaN NaN NaN NaN NaN NaN 88.125 1 88.376 87.876 88.876 0.25064 0 0 0 1.0071 1 40551 40551 1.4819 0 1 34477 8457 21889 21958 38802 38802 0.12890394539772387 VGLGRAVEVRR 11 Unmodified _VGLGRAVEVRR_ 0 0 0 ENST00000497918.5_1_2:220029863-220033027:-|nuORF ENST00000497918.5_1_2:220029863-220033027:-|nuORF ENST00000497918.5_1_2:220029863-220033027:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 606.3729248046875 2 606.370195 1210.72584 3.8939 0.0023612 -0.83857 -0.00050849 3.0554 0.0018527 606.3696906973938 87.539 0.72218 88.215 87.912 88.634 0.67555 61 35 2 0 0 0 0.9102 3 40249 40249;40296;40400 1.4819 0 1 1769000 34478 8457 21889 21958 38803;38804;38805 38803 0.12890394539772387 VGLGRKRS 8 Unmodified _VGLGRKRS_ 0 0 0 ENST00000353703.8_2_20:43514450-43530178:+|nuORF;ENST00000428262.1_3_20:43514450-43516249:+|nuORF;ENST00000372839.7_2_20:43514450-43530188:+|nuORF ENST00000353703.8_2_20:43514450-43530178:+|nuORF ENST00000353703.8_2_20:43514450-43530178:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.7762756347656 2 436.774868 871.535184 1.9484 0.00085102 0.18215 7.956E-05 2.1306 0.00093058 436.7749407544228 85.768 0.43036 85.797 85.626 86.057 0.02861 107 51 3 0 0 0 0.73686 2 42939 42939;43060 2.8892 2.8892 1 19183000 34479 7138 21890 21959 38806;38807 38806 0.09427732948370249 VGLGRRHNMLL 11 Unmodified _VGLGRRHNMLL_ 0 0 0 REV__nc|ENSG00000168309|O95990-2|FAM107A REV__nc|ENSG00000168309|O95990-2|FAM107A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.3718872070312 2 633.366598 1264.71864 NaN NaN NaN NaN NaN NaN NaN 90.583 1 90.835 90.335 91.335 0.25137 0 0 0 1.0071 1 41654 41654 1.4819 0.51963 1 + 34480 13342 21891 21960 38808 38808 0.09687338667731638 VGLGRRHNMLL 11 Unmodified _VGLGRRHNMLL_ 0 0 0 REV__nc|ENSG00000168309|O95990-2|FAM107A REV__nc|ENSG00000168309|O95990-2|FAM107A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.37109375 2 633.366598 1264.71864 NaN NaN NaN NaN NaN NaN NaN 90.601 1 90.853 90.353 91.353 0.25146 0 0 0 1.0071 1 41662 41662 1.4819 0 1 + 34481 13342 21891 21960 38809 38809 0.09687338667731638 VGLGRRHNMLL 11 Unmodified _VGLGRRHNMLL_ 0 0 0 REV__nc|ENSG00000168309|O95990-2|FAM107A REV__nc|ENSG00000168309|O95990-2|FAM107A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.3711547851562 2 633.366598 1264.71864 NaN NaN NaN NaN NaN NaN NaN 90.807 1 91.059 90.559 91.559 0.25163 0 0 0 1.0071 1 41754 41754 1.4819 0.8804 1 + 34482 13342 21891 21960 38810 38810 0.09687338667731638 VGLGRRHNMLL 11 Unmodified _VGLGRRHNMLL_ 0 0 0 REV__nc|ENSG00000168309|O95990-2|FAM107A REV__nc|ENSG00000168309|O95990-2|FAM107A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.3717651367188 2 633.366598 1264.71864 NaN NaN NaN NaN NaN NaN NaN 91.584 1 91.835 91.335 92.335 0.25163 0 0 0 1.0071 1 42111 42111 1.4819 0.8804 1 + 34483 13342 21891 21960 38811 38811 0.09687338667731638 VGLGVEWAWE 10 Unmodified _VGLGVEWAWE_ 0 0 0 REV__ENSG00000134817|ENST00000606794|APLNR REV__ENSG00000134817|ENST00000606794|APLNR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 573.2881469726562 2 573.284931 1144.55531 NaN NaN NaN NaN NaN NaN NaN 62.562 1 63.222 62.722 63.722 0.66008 0 0 0 0.99983 1 28671 28671 1.8442 0.36234 1 + 34484 11984 21892 21961 38812 38812 -0.011185609023414145 VGLGWVLA 8 Unmodified _VGLGWVLA_ 0 0 0 ENST00000582136.5_1_17:73110513-73110621:+|nuORF ENST00000582136.5_1_17:73110513-73110621:+|nuORF ENST00000582136.5_1_17:73110513-73110621:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.74560546875 2 407.744714 813.474875 3.0241 0.0012331 -0.02375 -9.684E-06 3.0004 0.0012234 407.74460683451696 26.1 0.45083 26.365 26.135 26.586 0.26489 53 41 2 0 0 0 0.73686 2 11805 11805;11852 2.8892 0 1 464840 34485 9155 21893 21962 38813;38814 38813 0.06067622565262809 VGLHLVRRVLL 11 Unmodified _VGLHLVRRVLL_ 0 0 0 REV__nc|ENSG00000204267|Q03519-2|TAP2 REV__nc|ENSG00000204267|Q03519-2|TAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 637.9265747070312 2 637.924606 1273.83466 NaN NaN NaN NaN NaN NaN NaN 75.856 1 76.113 75.613 76.613 0.25704 0 0 0 1.0055 1 34917 34917 3.5965 0 1 + 34486 14408 21894 21963 38815 38815 0.20869605510097244 VGLHLVRRVLL 11 Unmodified _VGLHLVRRVLL_ 0 0 0 REV__nc|ENSG00000204267|Q03519-2|TAP2 REV__nc|ENSG00000204267|Q03519-2|TAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 637.9246826171875 2 637.924606 1273.83466 NaN NaN NaN NaN NaN NaN NaN 20.987 1 21.64 21.14 22.14 0.65346 0 0 0 1.008 1 9525 9525 0.35063 0 1 + 34487 14408 21894 21963 38816 38816 0.20869605510097244 VGLHRWDQRI 10 Unmodified _VGLHRWDQRI_ 0 0 0 REV__nc|ENSG00000144401|Q8WXB1-2|METTL21A REV__nc|ENSG00000144401|Q8WXB1-2|METTL21A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 640.83349609375 2 640.354545 1278.69454 NaN NaN NaN NaN NaN NaN NaN 30.116 1 30.116 29.616 30.616 0 0 0 0 1.0015 1 13602 13602 0.45834 0 1 + 34488 12400 21895 21964 38817 38817 0.0663382150569305 VGLHVPRQR 9 Unmodified _VGLHVPRQR_ 0 0 0 REV__ENST00000340381.10_1_1:9671892-9673254:+|nuORF REV__ENST00000340381.10_1_1:9671892-9673254:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.3209228515625 2 531.319974 1060.6254 3.4249 0.0018197 -0.7121 -0.00037835 2.7128 0.0014413 531.319549854347 89.436 0.89019 90.115 89.865 90.755 0.67818 88 43 3 0 0 0 1.1154 1 41191 41191 2.0598 0 1 2426300 + 34489 15454 21896 21965 38818 38818 0.09750782276796599 VGLHWPPKLG 10 Unmodified _VGLHWPPKLG_ 0 0 0 REV__ENSG00000065060|ENST00000192788|BLTP3A REV__ENSG00000065060|ENST00000192788|BLTP3A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.3208618164062 2 552.321651 1102.62875 NaN NaN NaN NaN NaN NaN NaN 51.406 1 51.406 50.906 51.906 0 0 0 0 0.99983 1 23535 23535 1.8442 0 1 + 34490 10425 21897 21966 38819 38819 0.08154032330776317 VGLIEQLR 8 Unmodified _VGLIEQLR_ 0 0 0 REV__ENST00000515662.6_1_3:9413140-9413203:+|nuORF REV__ENST00000515662.6_1_3:9413140-9413203:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.2854919433594 2 464.284734 926.554916 NaN NaN NaN NaN NaN NaN NaN 32.024 1 32.024 31.524 32.524 0 0 0 0 0.99035 1 14495 14495 2.5775 0 1 + 34491 17021 21898 21967 38820 38820 0.08870064168468161 VGLIICVKRRK 11 Unmodified _VGLIICVKRRK_ 0 0 0 ENST00000463471.6_1_1:2491166-2493466:+|nuORF;nc|ENSG00000157873|Q92956-2|TNFRSF14;ENST00000463835.5_1_1:2492021-2494709:+|nuORF;ENST00000475523.5_1_1:2490981-2494709:+|nuORF;ENSG00000157873|ENST00000355716|TNFRSF14 ENST00000463471.6_1_1:2491166-2493466:+|nuORF;nc|ENSG00000157873|Q92956-2|TNFRSF14 nc|ENSG00000157873|Q92956-2|TNFRSF14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 642.9163818359375 2 642.918467 1283.82238 NaN NaN NaN NaN NaN NaN NaN 85.495 1 85.524 85.024 86.024 0.028603 0 0 0 1.0071 1 42813 42813 1.4819 0.15237 1 34492 8105;3965 21899 21968 38821 38821 0.19182245775368756 VGLIKGPL 8 Unmodified _VGLIKGPL_ 0 0 0 REV__ENST00000261799.8_1_5:149494938-149495100:-|nuORF REV__ENST00000261799.8_1_5:149494938-149495100:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.7706604003906 2 398.768189 795.521825 NaN NaN NaN NaN NaN NaN NaN 22.504 1 23.145 22.645 23.645 0.64051 0 0 0 0.99035 1 10246 10246 2.8892 0 1 + 34493 14971 21900 21969 38822 38822 0.11588482116405885 VGLIRNLAL 9 Unmodified _VGLIRNLAL_ 0 0 0 ENSG00000168036|ENST00000349496|CTNNB1 ENSG00000168036|ENST00000349496|CTNNB1 ENSG00000168036|ENST00000349496|CTNNB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.8179016113281 2 484.816202 967.617851 3.1666 0.0015352 0.28028 0.00013588 3.4469 0.0016711 484.81611985453674 65.143 0.30956 65.391 65.225 65.535 0.24803 26 14 3 0 0 0 0.030603 1 29835 29835 71.134 22.788 1 1879200 34494 4597 21901 21970 38823 38823 0.13274629956492845 VGLIRNLAL 9 Unmodified _VGLIRNLAL_ 0 0 0 ENSG00000168036|ENST00000349496|CTNNB1 ENSG00000168036|ENST00000349496|CTNNB1 ENSG00000168036|ENST00000349496|CTNNB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.8176574707031 2 484.816202 967.617851 3.2752 0.0015879 -0.18451 -8.9456E-05 3.0907 0.0014984 484.815925887507 64.545 0.25929 65.202 65.035 65.294 0.65672 22 10 3 0 0 0 0.016529 1 29618 29618 81.613 24.142 1 1582100 34495 4597 21901 21970 38824 38824 0.13274629956492845 VGLIRWWTFL 10 Unmodified _VGLIRWWTFL_ 0 0 0 REV__ENST00000392396.7_2_3:195796375-195798346:-|nuORF REV__ENST00000392396.7_2_3:195796375-195798346:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 645.8704833984375 2 645.871508 1289.72846 NaN NaN NaN NaN NaN NaN NaN 16.888 1 17.548 17.048 18.048 0.66072 0 0 0 1.0015 1 7614 7614 0.45834 0.057624 1 + 34496 15927 21902 21971 38825 38825 0.09518849944720387 VGLIVRLKPL 10 Unmodified _VGLIVRLKPL_ 0 0 0 REV__ENSG00000258223|ENST00000547058|PRSS58 REV__ENSG00000258223|ENST00000547058|PRSS58 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.41845703125 2 554.384251 1106.75395 NaN NaN NaN NaN NaN NaN NaN 44.505 1 45.326 44.826 45.826 0.82075 0 0 0 1.0015 1 20266 20266 0.45834 0 1 + 34497 14683 21903 21972 38826 38826 0.20484324467156512 VGLKRCAE 8 Unmodified _VGLKRCAE_ 0 0 0 REV__nc|ENSG00000136141|Q9Y2L9-2|LRCH1 REV__nc|ENSG00000136141|Q9Y2L9-2|LRCH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 438.2427062988281 2 438.242012 874.469472 NaN NaN NaN NaN NaN NaN NaN 69.633 1 70.336 69.836 70.836 0.70302 0 0 0 0.99035 1 33334 33334 2.5775 0 1 + 34498 12062 21904 21973 38827 38827 0.027215757111548555 VGLKRKRKL 9 Unmodified _VGLKRKRKL_ 0 0 0 REV__nc|ENSG00000160208|Q14684-2|RRP1B REV__nc|ENSG00000160208|Q14684-2|RRP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.5233154296875 2 549.385117 1096.75568 NaN NaN NaN NaN NaN NaN NaN 77.616 1 78.177 77.677 78.677 0.56091 0 0 0 0.91206 1 37648 37648 0.6015 0.076735 1 + 34499 12866 21905 21974 38828 38828 0.21117378275789633 VGLKRKRKLL 10 Unmodified _VGLKRKRKLL_ 0 0 0 REV__nc|ENSG00000160208|Q14684-2|RRP1B REV__nc|ENSG00000160208|Q14684-2|RRP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 605.9285278320312 2 605.927149 1209.83975 NaN NaN NaN NaN NaN NaN NaN 72.353 1 72.612 72.112 73.112 0.25876 0 0 0 1.0015 1 33213 33213 0.45834 0.057624 1 + 34500 12866 21906 21975 38829 38829 0.24321909372702066 VGLKWKFTLF 10 Unmodified _VGLKWKFTLF_ 0 0 0 REV__ENST00000477649.1_1_X:150565000-150565102:+|nuORF REV__ENST00000477649.1_1_X:150565000-150565102:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.7412109375 2 619.868434 1237.72232 NaN NaN NaN NaN NaN NaN NaN 88.348 1 88.599 88.099 89.099 0.25064 0 0 0 1.0015 1 40651 40651 0.45834 0 1 + 34501 16665 21907 21976 38830 38830 0.11296331713219843 VGLKWKFTLF 10 Unmodified _VGLKWKFTLF_ 0 0 0 REV__ENST00000477649.1_1_X:150565000-150565102:+|nuORF REV__ENST00000477649.1_1_X:150565000-150565102:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.8720092773438 2 619.868434 1237.72232 3.8241 0.0023704 1.248 0.0007736 5.0721 0.003144 619.8696079744037 89.535 1.3247 90.213 89.542 90.867 0.67818 146 60 3 0 0 0 0.93628 3 41192 41083;41192;41293 1.6526 0.17072 1 2591400 + 34502 16665 21907 21976 38831;38832;38833 38832 0.11296331713219843 VGLLERLPQ 9 Unmodified _VGLLERLPQ_ 0 0 0 ENST00000589085.5_1_19:5785216-5787684:-|nuORF;nc|ENSG00000141994|Q96G46-3|DUS3L;ENSG00000141994|ENST00000309061|DUS3L ENST00000589085.5_1_19:5785216-5787684:-|nuORF ENST00000589085.5_1_19:5785216-5787684:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.8129272460938 2 512.811116 1023.60768 NaN NaN NaN NaN NaN NaN NaN 75.853 1 75.853 75.353 76.353 0 0 0 0 0.89683 1 37176 37176 4.3292 0.38484 1 34503 3290 21908 21977 38834 38834 0.09682022231265819 VGLLIFFLK 9 Unmodified _VGLLIFFLK_ 0 0 0 nc|ENSG00000080031|Q9HD43-3|PTPRH;nc|ENSG00000080031|Q9HD43-2|PTPRH;ENSG00000080031|ENST00000376350|PTPRH nc|ENSG00000080031|Q9HD43-3|PTPRH nc|ENSG00000080031|Q9HD43-3|PTPRH MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.3427734375 2 525.341521 1048.66849 NaN NaN NaN NaN NaN NaN NaN 88.3 1 88.55 88.05 89.05 0.25064 0 0 0 0.91206 1 40629 40629 0.6015 0 1 34504 902 21909 21978 38835 38835 0.1461015928150573 VGLLLLLIIW 10 Unmodified _VGLLLLLIIW_ 0 0 0 ENSG00000182035|ENST00000537425|ADIG ENSG00000182035|ENST00000537425|ADIG ENSG00000182035|ENST00000537425|ADIG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 576.8973388671875 2 576.891378 1151.7682 NaN NaN NaN NaN NaN NaN NaN 27.437 1 27.437 26.937 27.937 0 0 0 0 1.0015 1 12354 12354 0.45834 0.45834 1 34505 5308 21910 21979 38836 38836 0.19838976895471205 VGLLLLLIIWL 11 Unmodified _VGLLLLLIIWL_ 0 0 0 ENSG00000182035|ENST00000537425|ADIG ENSG00000182035|ENST00000537425|ADIG ENSG00000182035|ENST00000537425|ADIG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.4352416992188 2 633.43341 1264.85227 NaN NaN NaN NaN NaN NaN NaN 30.554 1 31.344 30.844 31.844 0.78921 0 0 0 1.008 1 13798 13798 0.35063 0.35063 1 34506 5308 21911 21980 38837 38837 0.230435079923609 VGLLLLLLLL 10 Unmodified _VGLLLLLLLL_ 0 0 0 REV__ENSG00000173714|ENST00000311378|WFIKKN2 REV__ENSG00000173714|ENST00000311378|WFIKKN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.7754516601562 2 540.393754 1078.77295 NaN NaN NaN NaN NaN NaN NaN 54.633 1 55.429 54.929 55.929 0.79552 0 0 0 0.99983 1 24930 24930 1.8442 1.3859 1 + 34507 13610 21912 21981 38838 38838 0.2367186103822405 VGLLLLLLLLA 11 Unmodified _VGLLLLLLLLA_ 0 0 0 REV__ENSG00000173714|ENST00000311378|WFIKKN2 REV__ENSG00000173714|ENST00000311378|WFIKKN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.9154052734375 2 575.91231 1149.81007 NaN NaN NaN NaN NaN NaN NaN 24.955 1 25.691 25.191 26.191 0.73623 0 0 0 1.008 1 11190 11190 0.35063 0 1 + 34508 13610 21913 21982 38839 38839 0.2411553258400545 VGLLLLLLLLA 11 Unmodified _VGLLLLLLLLA_ 0 0 0 REV__ENSG00000173714|ENST00000311378|WFIKKN2 REV__ENSG00000173714|ENST00000311378|WFIKKN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.9146118164062 2 575.91231 1149.81007 NaN NaN NaN NaN NaN NaN NaN 47.432 1 48.261 47.761 48.761 0.82915 0 0 0 1.008 1 21610 21610 0.35063 0 1 + 34509 13610 21913 21982 38840 38840 0.2411553258400545 VGLLLLLWL 9 Unmodified _VGLLLLLWL_ 0 0 0 ENST00000400968.6_1_1:193028645-193038169:+|nuORF;ENST00000432079.5_1_1:193028645-193044961:+|nuORF ENST00000400968.6_1_1:193028645-193038169:+|nuORF ENST00000400968.6_1_1:193028645-193038169:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.2359619140625 3 347.235323 1038.68414 NaN NaN NaN NaN NaN NaN NaN 15.16 1 15.466 14.966 15.966 0.306 0 0 0 0.90965 1 6853 6853 1.1933 0.41681 1 34510 7612 21914 21983 38841 38841 0.16634445798558772 VGLLLPKLP 9 Unmodified _VGLLLPKLP_ 0 0 0 nc|ENSG00000182333|P07098-2|LIPF;nc|ENSG00000182333|P07098-4|LIPF;ENSG00000182333|ENST00000238983|LIPF;nc|ENSG00000182333|P07098-3|LIPF nc|ENSG00000182333|P07098-2|LIPF nc|ENSG00000182333|P07098-2|LIPF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 475.3264465332031 2 475.325871 948.637189 NaN NaN NaN NaN NaN NaN NaN 59.797 1 59.797 59.297 60.297 0 0 0 0 0.91206 1 27657 27657 0.6015 0.6015 1 34511 5331 21915 21984 38842 38842 0.1608158624742373 VGLLLPKLP 9 Unmodified _VGLLLPKLP_ 0 0 0 nc|ENSG00000182333|P07098-2|LIPF;nc|ENSG00000182333|P07098-4|LIPF;ENSG00000182333|ENST00000238983|LIPF;nc|ENSG00000182333|P07098-3|LIPF nc|ENSG00000182333|P07098-2|LIPF nc|ENSG00000182333|P07098-2|LIPF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.3268737792969 2 475.325871 948.637189 NaN NaN NaN NaN NaN NaN NaN 58.977 1 59.644 59.144 60.144 0.66703 0 0 0 0.91206 1 26998 26998 0.6015 0.076735 1 34512 5331 21915 21984 38843 38843 0.1608158624742373 VGLLLRALQLL 11 Unmodified _VGLLLRALQLL_ 0 0 0 nc|ENSG00000271447|Q9H239-2|MMP28;ENSG00000271447|ENST00000605424|MMP28 nc|ENSG00000271447|Q9H239-2|MMP28 nc|ENSG00000271447|Q9H239-2|MMP28 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 604.9072265625 2 604.908091 1207.80163 NaN NaN NaN NaN NaN NaN NaN 83.357 1 83.604 83.104 84.104 0.24722 0 0 0 1.008 1 38369 38369 0.35063 0 1 34513 6333 21916 21985 38844 38844 0.20603978667372758 VGLLQLRHL 9 Unmodified _VGLLQLRHL_ 0 0 0 REV__ENSG00000105219|ENST00000430325|CCNP REV__ENSG00000105219|ENST00000430325|CCNP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.8339233398438 2 524.834926 1047.6553 NaN NaN NaN NaN NaN NaN NaN 102.17 1 102.49 101.99 102.99 0.31737 0 0 0 0.91206 1 47264 47264 0.6015 0 1 + 34514 11020 21917 21986 38845 38845 0.1333772122211485 VGLLRFLIV 9 Unmodified _VGLLRFLIV_ 0 0 0 REV__ENSG00000204669|ENST00000651200|C9orf57 REV__ENSG00000204669|ENST00000651200|C9orf57 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.6803588867188 2 515.344595 1028.67464 NaN NaN NaN NaN NaN NaN NaN 90.307 1 90.98 90.48 91.48 0.67271 0 0 0 0.91206 1 41568 41568 0.6015 0 1 + 34515 14436 21918 21987 38846 38846 0.1614467751301163 VGLLRLHSL 9 Unmodified _VGLLRLHSL_ 0 0 0 nc|ENSG00000100129|Q9Y262-2|EIF3L;ENSG00000100129|ENST00000652021|EIF3L nc|ENSG00000100129|Q9Y262-2|EIF3L nc|ENSG00000100129|Q9Y262-2|EIF3L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.3224792480469 2 504.321651 1006.62875 NaN NaN NaN NaN NaN NaN NaN 49.682 1 50.339 49.839 50.839 0.65735 0 0 0 0.10783 1 22725 22725 40.239 18.493 1 34516 1179 21919 21988 38847 38847 0.12570032330802405 VGLLRLKRLTS 11 Unmodified _VGLLRLKRLTS_ 0 0 0 ENST00000489265.1_1_9:88169144-88193876:-|nuORF;nc|ENSG00000135049|Q9UPW5-2|AGTPBP1;ENSG00000135049|ENST00000357081|AGTPBP1;nc|ENSG00000135049|Q9UPW5-3|AGTPBP1 ENST00000489265.1_1_9:88169144-88193876:-|nuORF ENST00000489265.1_1_9:88169144-88193876:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 628.4149169921875 2 628.414072 1254.81359 NaN NaN NaN NaN NaN NaN NaN 57.859 1 57.859 57.359 58.359 0 0 0 0 1.008 1 26681 26681 0.35063 0 1 34517 2842 21920 21989 38848 38848 0.19637595410563335 VGLLTRRVP 9 Unmodified _VGLLTRRVP_ 0 0 0 REV__ENSG00000259494|ENST00000312475|MRPL46 REV__ENSG00000259494|ENST00000312475|MRPL46 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 337.55462646484375 3 337.553826 1009.63965 2.2593 0.00076265 0.26697 9.0117E-05 2.5263 0.00085277 337.55396507027325 32.468 0.50611 33.087 32.754 33.26 0.61831 41 26 2 0 0 0 1.0894 1 14934 14934 2.4985 0.84587 1 368470 + 34518 14686 21921 21990 38849 38849 0.13521434705080537 VGLLWLYRELV 11 Unmodified _VGLLWLYRELV_ 0 0 0 REV__ENSG00000147262|ENST00000682440|GPR119 REV__ENSG00000147262|ENST00000682440|GPR119 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 680.9053955078125 2 680.903005 1359.79146 NaN NaN NaN NaN NaN NaN NaN 39.527 1 39.527 39.027 40.027 0 0 0 0 1.008 1 17936 17936 0.35063 0 1 + 34519 12502 21922 21991 38850 38850 0.12595370942131012 VGLQNQIVFI 10 Unmodified _VGLQNQIVFI_ 0 0 0 REV__nc|ENSG00000063169|Q9NZM4-2|BICRA REV__nc|ENSG00000063169|Q9NZM4-2|BICRA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 377.5566101074219 3 377.557125 1129.64954 NaN NaN NaN NaN NaN NaN NaN 12.891 1 13.152 12.652 13.652 0.26154 0 0 0 0.99704 1 5611 5611 4.1895 0.59301 1 + 34520 10405 21923 21992 38851 38851 0.089905779198034 VGLRAAAGAF 10 Unmodified _VGLRAAAGAF_ 0 0 0 ENST00000483781.5_1_2:98330105-98349944:+|nuORF ENST00000483781.5_1_2:98330105-98349944:+|nuORF ENST00000483781.5_1_2:98330105-98349944:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.7695617675781 2 466.769252 931.52395 NaN NaN NaN NaN NaN NaN NaN 54.646 1 54.646 54.146 55.146 0 0 0 0 1.0001 1 25082 25082 1.6526 0.85899 1 34521 8318 21924 21993 38852 38852 0.05544910854223417 VGLRAAGRA 9 Unmodified _VGLRAAGRA_ 0 0 0 ENST00000377411.4_1_1:9171491-9189192:-|nuORF ENST00000377411.4_1_1:9171491-9189192:-|nuORF ENST00000377411.4_1_1:9171491-9189192:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.7679748535156 2 435.767043 869.519533 NaN NaN NaN NaN NaN NaN NaN 82.793 1 83.453 82.953 83.953 0.66019 0 0 0 0.89683 1 38148 38148 4.3292 1.44 1 34522 7414 21925 21994 38853 38853 0.07955446431321889 VGLRKAGW 8 Unmodified _VGLRKAGW_ 0 0 0 REV__ENSG00000176422|ENST00000338146|SPRYD4 REV__ENSG00000176422|ENST00000338146|SPRYD4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 443.7681884765625 2 443.766512 885.518471 2.8654 0.0012715 1.076 0.00047747 3.9413 0.001749 443.76698573411386 77.173 0.44938 77.836 77.544 77.994 0.66303 82 38 3 0 0 0 0.74071 2 35531 35531;35585 2.5775 0 1 1658700 + 34523 13704 21926 21995 38854;38855 38854 0.07113232062420138 VGLRKAGW 8 Unmodified _VGLRKAGW_ 0 0 0 REV__ENSG00000176422|ENST00000338146|SPRYD4 REV__ENSG00000176422|ENST00000338146|SPRYD4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 443.766512 885.518471 2.2113 0.00098129 1.9512 0.00086589 4.1625 0.0018472 443.7672531093095 77.051 0.39986 77.612 77.351 77.751 0.56091 -0.17523 0.00048513 NaN 2.5775 60 30 3 NaN NaN NaN NaN 0 NaN NaN 0 827320 + 34524 13704 21926 21995 0.07113232062420138 VGLRKAGW 8 Unmodified _VGLRKAGW_ 0 0 0 REV__ENSG00000176422|ENST00000338146|SPRYD4 REV__ENSG00000176422|ENST00000338146|SPRYD4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 443.766512 885.518471 2.7391 0.0012155 1.3425 0.00059574 4.0816 0.0018113 443.76706635071605 77.661 0.34509 77.914 77.731 78.077 0.25334 0.12638 -5.5192E-05 NaN 2.5775 56 22 3 NaN NaN NaN NaN 0 NaN NaN 0 1600600 + 34525 13704 21926 21995 0.07113232062420138 VGLRKAGW 8 Unmodified _VGLRKAGW_ 0 0 0 REV__ENSG00000176422|ENST00000338146|SPRYD4 REV__ENSG00000176422|ENST00000338146|SPRYD4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 443.766512 885.518471 2.8654 0.0012715 1.076 0.00047747 3.9413 0.001749 443.76698573411386 77.173 0.44938 77.836 77.544 77.994 0.66303 0.048844 -0.00029172 NaN 2.5775 82 38 3 NaN NaN NaN NaN 0 NaN NaN 0 1658700 + 34526 13704 21926 21995 0.07113232062420138 VGLRKKLRHP 10 Unmodified _VGLRKKLRHP_ 0 0 0 ENST00000380062.9_1_9:26956414-26962023:+|nuORF ENST00000380062.9_1_9:26956414-26962023:+|nuORF ENST00000380062.9_1_9:26956414-26962023:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 602.3934326171875 2 602.393474 1202.77239 NaN NaN NaN NaN NaN NaN NaN 61.039 1 61.701 61.201 62.201 0.66261 0 0 0 1.0015 1 27948 27948 0.45834 0 1 34527 7463 21927 21996 38856 38856 0.17911879161738398 VGLRLRGG 8 Unmodified _VGLRLRGG_ 0 0 0 ENST00000509462.5_1_5:68661579-68665127:-|nuORF;ENST00000503245.5_1_5:68661579-68665265:-|nuORF ENST00000509462.5_1_5:68661579-68665127:-|nuORF ENST00000509462.5_1_5:68661579-68665127:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 414.0476379394531 2 414.264136 826.51372 NaN NaN NaN NaN NaN NaN NaN 65.965 1 65.965 65.465 66.465 0 0 0 0 0.95658 1 31461 31461 8.5933 0.68312 1 34528 8485 21928 21997 38857 38857 0.09352347919661952 VGLRPRWP 8 Unmodified _VGLRPRWP_ 0 0 0 REV__ENST00000495270.1_1_9:130699195-130699321:-|nuORF REV__ENST00000495270.1_1_9:130699195-130699321:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7962951660156 2 490.793061 979.571569 2.56 0.0012564 -1.0757 -0.00052796 1.4842 0.00072844 490.79229664049905 71.607 0.37692 72.27 72.079 72.456 0.66324 62 22 4 0 0 0 0.74071 1 32779 32779 2.5775 0.27475 1 1283600 + 34529 16837 21929 21998 38858 38858 0.08096609845074454 VGLRRCRR 8 Unmodified _VGLRRCRR_ 0 0 0 REV__ENST00000359393.6_1_11:64645871-64646596:-|nuORF REV__ENST00000359393.6_1_11:64645871-64646596:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.4396667480469 2 508.306344 1014.59813 NaN NaN NaN NaN NaN NaN NaN 44.826 1 45.647 45.147 46.147 0.82075 0 0 0 0.99035 1 20414 20414 0.79363 0 1 + 34530 15596 21930 21999 38859 38859 0.09141975464763163 VGLRRCRRRE 10 Unmodified _VGLRRCRRRE_ 0 0 0 REV__ENST00000359393.6_1_11:64645871-64646596:-|nuORF REV__ENST00000359393.6_1_11:64645871-64646596:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 433.7736511230469 3 434.254556 1299.74184 NaN NaN NaN NaN NaN NaN NaN 75.485 1 76.149 75.649 76.649 0.6644 0 0 0 0.99774 1 34778 34778 3.5871 2.4773 1 + 34531 15596 21931 22000 38860 38860 0.10395777505027581 VGLRRLDE 8 Unmodified _VGLRRLDE_ 0 0 0 REV__nc|ENSG00000145242|P54756-3|EPHA5 REV__nc|ENSG00000145242|P54756-3|EPHA5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.7812805175781 2 479.277441 956.540328 2.8258 0.0013544 0.83586 0.00040061 3.6617 0.001755 479.27780026413797 76.187 1.0143 76.444 75.762 76.776 0.25704 117 81 2 0 0 0 0.74071 1 35020 35020 2.5775 0 1 772290 + 34532 12434 21932 22001 38861 38861 0.060319920203255606 VGLRTRAF 8 Unmodified _VGLRTRAF_ 0 0 0 REV__ENSG00000151475|ENST00000281154|SLC25A31 REV__ENSG00000151475|ENST00000281154|SLC25A31 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 307.1892395019531 3 307.187255 918.539935 NaN NaN NaN NaN NaN NaN NaN 28.735 1 29.524 29.024 30.024 0.78921 0 0 0 0.99035 1 12946 12946 0.45834 0 1 + 34533 12616 21933 22002 38862 38862 0.07740617091133117 VGLRTRAF 8 Unmodified _VGLRTRAF_ 0 0 0 REV__ENSG00000151475|ENST00000281154|SLC25A31 REV__ENSG00000151475|ENST00000281154|SLC25A31 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 307.1893005371094 3 307.187255 918.539935 NaN NaN NaN NaN NaN NaN NaN 34.04 1 34.661 34.161 35.161 0.62031 0 0 0 0.99035 1 15596 15596 0.45834 0 1 + 34534 12616 21933 22002 38863 38863 0.07740617091133117 VGLSCGRAR 9 Unmodified _VGLSCGRAR_ 0 0 0 REV__ENST00000437099.6_1_17:9814675-9814720:-|nuORF REV__ENST00000437099.6_1_17:9814675-9814720:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 459.7513427734375 2 459.750536 917.486519 NaN NaN NaN NaN NaN NaN NaN 54.719 1 54.719 54.219 55.219 0 0 0 0 0.89683 1 25118 25118 4.3292 0.38484 1 + 34535 16314 21934 22003 38864 38864 0.024474963169723196 VGLSKQLRK 9 Unmodified _VGLSKQLRK_ 0 0 0 REV__ENSG00000021776|ENST00000156471|AQR REV__ENSG00000021776|ENST00000156471|AQR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 343.55828857421875 3 343.557348 1027.65021 2.5761 0.00088505 0.020674 7.1028E-06 2.5968 0.00089215 343.55742728747396 6.4418 0.41237 6.4418 6.3003 6.7127 0 68 44 2 0 0 0 1.2078 3 2878 2878;2906;2947 0.26902 0 1 70077 + 34536 10266 21935 22004 38865;38866;38867 38865 0.13749417359508698 VGLSKQLRK 9 Unmodified _VGLSKQLRK_ 0 0 0 REV__ENSG00000021776|ENST00000156471|AQR REV__ENSG00000021776|ENST00000156471|AQR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 343.5585021972656 3 343.557348 1027.65021 1.8087 0.00062139 1.0673 0.00036668 2.876 0.00098807 343.55774263548517 5.0046 0.25372 5.3696 5.2073 5.461 0.36497 38 27 2 0 0 0 1.2078 2 2237 2237;2285 0.26902 0 1 47818 + 34537 10266 21935 22004 38868;38869 38868 0.13749417359508698 VGLSKQLRK 9 Unmodified _VGLSKQLRK_ 0 0 0 REV__ENSG00000021776|ENST00000156471|AQR REV__ENSG00000021776|ENST00000156471|AQR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.5585632324219 3 343.557348 1027.65021 2.7667 0.0009505 0.90221 0.00030996 3.6689 0.0012605 343.55766081659107 5.1796 0.43903 5.8025 5.6082 6.0473 0.62294 84 41 3 0 0 0 1.2078 1 2409 2409 0.26902 0 1 180110 + 34538 10266 21935 22004 38870 38870 0.13749417359508698 VGLSLLLLPVP 11 Unmodified _VGLSLLLLPVP_ 0 0 0 nc|ENSG00000088836|Q8NBS3-2|SLC4A11;nc|ENSG00000088836|Q8NBS3-5|SLC4A11;ENSG00000088836|ENST00000642402|SLC4A11;nc|ENSG00000088836|Q8NBS3-1|SLC4A11;nc|ENSG00000088836|Q8NBS3-4|SLC4A11 nc|ENSG00000088836|Q8NBS3-2|SLC4A11 nc|ENSG00000088836|Q8NBS3-2|SLC4A11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.8721313476562 2 560.870643 1119.72673 NaN NaN NaN NaN NaN NaN NaN 85.302 1 85.302 84.802 85.802 0 0 0 0 1.0071 1 43396 43396 1.4819 0 1 34539 1019 21936 22005 38871 38871 0.17165796136146128 VGLSRTQIL 9 Unmodified _VGLSRTQIL_ 0 0 0 REV__ENST00000579520.5_1_17:79976819-79976981:-|nuORF REV__ENST00000579520.5_1_17:79976819-79976981:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 329.5385437011719 3 329.537953 985.59203 1.9325 0.00063684 0.29602 9.7551E-05 2.2285 0.00073439 329.53804100981756 13.457 0.29498 13.764 13.582 13.877 0.30727 68 22 4 0 0 0 1.0601 1 6118 6118 2.9952 2.9952 1 3025100 + 34540 17501 21937 22006 38872 38872 0.09865735714254242 VGLSSSRKAL 10 Unmodified _VGLSSSRKAL_ 0 0 0 REV__ENST00000539237.6_1_14:24836754-24836850:+|nuORF REV__ENST00000539237.6_1_14:24836754-24836850:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.3084411621094 2 509.306198 1016.59784 3.533 0.0017994 0.063292 3.2235E-05 3.5962 0.0018316 509.3060528360534 87.605 0.82383 87.856 87.533 88.357 0.25065 63 34 3 0 0 0 0.88655 1 40260 40260 4.3292 4.3292 1 1797500 + 34541 17198 21938 22007 38873 38873 0.09020834225896124 VGLSSSRKAL 10 Unmodified _VGLSSSRKAL_ 0 0 0 REV__ENST00000539237.6_1_14:24836754-24836850:+|nuORF REV__ENST00000539237.6_1_14:24836754-24836850:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 509.306198 1016.59784 3.533 0.0017994 0.063292 3.2235E-05 3.5962 0.0018316 509.3060528360534 87.605 0.82383 87.856 87.533 88.357 0.25065 0.0081008 -6.4521E-05 NaN 4.3292 63 34 3 NaN NaN NaN NaN 0 NaN NaN 0 1797500 + 34542 17198 21938 22007 0.09020834225896124 VGLSSSRKAL 10 Unmodified _VGLSSSRKAL_ 0 0 0 REV__ENST00000539237.6_1_14:24836754-24836850:+|nuORF REV__ENST00000539237.6_1_14:24836754-24836850:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 509.306198 1016.59784 3.4808 0.0017728 0.20534 0.00010458 3.6861 0.0018774 509.3062983877125 87.164 0.83107 87.84 87.713 88.544 0.67555 -0.0081008 8.0169E-05 NaN 4.3292 65 40 3 NaN NaN NaN NaN 0 NaN NaN 0 2225500 + 34543 17198 21938 22007 0.09020834225896124 VGLTAFKPF 9 Unmodified _VGLTAFKPF_ 0 0 0 nc|ENSG00000166535|A8K2U0-2|A2ML1;ENSG00000166535|ENST00000299698|A2ML1 nc|ENSG00000166535|A8K2U0-2|A2ML1 nc|ENSG00000166535|A8K2U0-2|A2ML1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.2867736816406 2 490.284203 978.553853 NaN NaN NaN NaN NaN NaN NaN 69.807 1 70.51 70.01 71.01 0.70302 0 0 0 0.72654 1 33423 33423 11.64 1.4569 1 34544 4492 21939 22008 38874 38874 0.06371849799563734 VGLTPQRK 8 Unmodified _VGLTPQRK_ 0 0 0 REV__ENST00000269195.5_1_18:33283561-33283600:+|nuORF REV__ENST00000269195.5_1_18:33283561-33283600:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 449.77862548828125 2 449.777077 897.5396 NaN NaN NaN NaN NaN NaN NaN 74.722 1 75.408 74.908 75.908 0.68662 0 0 0 0.99035 1 36120 36120 5.2307 0 1 + 34545 15052 21940 22009 38875 38875 0.08673197371274455 VGLTPRRRK 9 Unmodified _VGLTPRRRK_ 0 0 0 REV__ENSG00000100296|ENST00000490103|THOC5 REV__ENSG00000100296|ENST00000490103|THOC5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.8472290039062 2 541.848899 1081.68324 NaN NaN NaN NaN NaN NaN NaN 16.427 1 16.628 16.128 17.128 0.20057 0 0 0 0.91206 1 7255 7255 0.6015 0 1 + 34546 10818 21941 22010 38876 38876 0.14567044202226498 VGLTPRRRKT 10 Unmodified _VGLTPRRRKT_ 0 0 0 REV__ENSG00000100296|ENST00000490103|THOC5 REV__ENSG00000100296|ENST00000490103|THOC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 592.374755859375 2 592.372738 1182.73092 4.0103 0.0023756 -0.41139 -0.0002437 3.5989 0.0021319 592.3719853754915 93.579 0.51921 94.211 94.101 94.62 0.63115 49 23 3 0 0 0 0.89464 1 43068 43068 3.9444 2.1002 1 1153000 + 34547 10818 21942 22011 38877 38877 0.1468669840239727 VGLTPRRRKT 10 Unmodified _VGLTPRRRKT_ 0 0 0 REV__ENSG00000100296|ENST00000490103|THOC5 REV__ENSG00000100296|ENST00000490103|THOC5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 592.372738 1182.73092 4.0103 0.0023756 -0.41139 -0.0002437 3.5989 0.0021319 592.3719853754915 93.579 0.51921 94.211 94.101 94.62 0.63115 -0.079038 0.00050009 NaN 3.9444 49 23 3 NaN NaN NaN NaN 0 NaN NaN 0 1153000 + 34548 10818 21942 22011 0.1468669840239727 VGLTVPLLG 9 Unmodified _VGLTVPLLG_ 0 0 0 ENST00000507419.5_1_5:133984116-133984272:-|nuORF ENST00000507419.5_1_5:133984116-133984272:-|nuORF ENST00000507419.5_1_5:133984116-133984272:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.78155517578125 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 34.444 1 34.444 33.944 34.944 0 0 0 0 0.89509 1 15614 15614 4.756 2.4533 1 34549 8522 21943 22012 38878 38878 0.10388447425282266 VGLVGIIIGT 10 Unmodified _VGLVGIIIGT_ 0 0 0 ENSG00000204287|ENST00000395388|HLA-DRA ENSG00000204287|ENST00000395388|HLA-DRA ENSG00000204287|ENST00000395388|HLA-DRA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.3078918457031 2 471.305136 940.595718 NaN NaN NaN NaN NaN NaN NaN 83.005 1 83.252 82.752 83.752 0.24722 0 0 0 0.99983 1 38208 38208 1.8442 0 1 34550 5997 21944 22013 38879 38879 0.12304405488100656 VGLVGPALMEL 11 Unmodified _VGLVGPALMEL_ 0 0 0 ENST00000478085.5_1_22:40805026-40805658:+|nuORF ENST00000478085.5_1_22:40805026-40805658:+|nuORF ENST00000478085.5_1_22:40805026-40805658:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.8815002441406 3 366.879099 1097.61547 NaN NaN NaN NaN NaN NaN NaN 16.762 1 17.067 16.567 17.567 0.30438 0 0 0 1.0071 1 7589 7589 0.50596 0 1 34551 8249 21945 22014 38880 38880 0.07056413436544062 VGLVHFPNLED 11 Unmodified _VGLVHFPNLED_ 0 0 0 REV__ENSG00000135392|ENST00000678005|DNAJC14 REV__ENSG00000135392|ENST00000678005|DNAJC14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 413.8841857910156 3 413.883789 1238.62954 NaN NaN NaN NaN NaN NaN NaN 72.838 1 73.502 73.002 74.002 0.66398 0 0 0 1.0071 1 33444 33444 0.50596 0 1 + 34552 12014 21946 22015 38881 38881 0.01976782189194637 VGLVHRYH 8 Unmodified _VGLVHRYH_ 0 0 0 REV__ENSG00000163581|ENST00000314251|SLC2A2 REV__ENSG00000163581|ENST00000314251|SLC2A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.77557373046875 2 490.774868 979.535184 NaN NaN NaN NaN NaN NaN NaN 15.533 1 15.533 15.033 16.033 0 0 0 0 0.99035 1 6867 6867 0.79363 0 1 + 34553 13007 21947 22016 38882 38882 0.04459732948362216 VGLVKNLA 8 Unmodified _VGLVKNLA_ 0 0 0 ENSG00000047315|ENST00000314595|POLR2B ENSG00000047315|ENST00000314595|POLR2B ENSG00000047315|ENST00000314595|POLR2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 407.26593017578125 2 407.263271 812.511988 NaN NaN NaN NaN NaN NaN NaN 32.939 1 33.727 33.227 34.227 0.78795 0 0 0 0.99035 1 14902 14902 2.5775 0 1 34554 555 21948 22017 38883 38883 0.09823294111026826 VGLVLLKHALG 11 Unmodified _VGLVLLKHALG_ 0 0 0 ENSG00000099992|ENST00000215790|TBC1D10A;nc|ENSG00000099992|Q9BXI6-2|TBC1D10A;ENST00000466666.5_1_22:30689582-30690835:-|nuORF;ENST00000462073.5_1_22:30688366-30689945:-|nuORF ENSG00000099992|ENST00000215790|TBC1D10A ENSG00000099992|ENST00000215790|TBC1D10A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.365234375 2 560.366059 1118.71756 NaN NaN NaN NaN NaN NaN NaN 104.43 1 104.43 103.93 104.93 0 0 0 0 1.0072 1 57467 57467 1.3295 0.72803 1 34555 1164 21949 22018 38884 38884 0.1629544757045096 VGLVLMRFIF 10 Unmodified _VGLVLMRFIF_ 0 0 0 REV__nc|ENSG00000131233|P57773-2|GJA9 REV__nc|ENSG00000131233|P57773-2|GJA9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.861572265625 2 597.857012 1193.69947 3.8429 0.0022975 -1.6286 -0.00097368 2.2142 0.0013238 598.357504049557 85.788 0.65379 86.037 85.444 86.098 0.24857 48 32 2 0 0 0 0.93534 1 39232 39232 1.8442 1.2427 1 1395300 + 34556 11850 21950 22019 38885 38885 0.11036989324088609 VGLVWILKHFV 11 Unmodified _VGLVWILKHFV_ 0 0 0 REV__ENST00000344096.3_1_12:68052792-68052999:+|nuORF REV__ENST00000344096.3_1_12:68052792-68052999:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.6047668457031 3 437.604298 1309.79106 NaN NaN NaN NaN NaN NaN NaN 74.209 1 74.209 73.709 74.709 0 0 0 0 1.0055 1 36233 36233 1.4551 0 1 + 34557 15491 21951 22020 38886 38886 0.14855996012920514 VGLWAMFS 8 Unmodified _VGLWAMFS_ 0 0 0 ENSG00000100170|ENST00000266088|SLC5A1 ENSG00000100170|ENST00000266088|SLC5A1 ENSG00000100170|ENST00000266088|SLC5A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 455.72747802734375 2 455.728206 909.44186 NaN NaN NaN NaN NaN NaN NaN 87.597 1 88.273 87.773 88.773 0.67555 0 0 0 0.99035 1 40347 40347 2.5775 0 1 34558 1184 21952 22021 38887 38887 -0.01648327549082751 VGLWLRTWRRC 11 Unmodified _VGLWLRTWRRC_ 0 0 0 ENST00000428471.1_1_2:240323503-240323937:+|nuORF;ENST00000413029.1_1_2:240323586-240323937:+|nuORF ENST00000428471.1_1_2:240323503-240323937:+|nuORF ENST00000428471.1_1_2:240323503-240323937:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 723.4041748046875 2 723.400973 1444.78739 NaN NaN NaN NaN NaN NaN NaN 70.987 1 71.245 70.745 71.745 0.25786 0 0 0 1.0082 1 32512 32512 0.35063 0.35063 1 34559 7687 21953 22022 38888 38888 0.08279002967424276 VGLWRKRKFAK 11 Unmodified _VGLWRKRKFAK_ 0 0 0 ENST00000455089.5_1_7:55087016-55210125:+|nuORF ENST00000455089.5_1_7:55087016-55210125:+|nuORF ENST00000455089.5_1_7:55087016-55210125:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 694.96044921875 2 694.935506 1387.85646 NaN NaN NaN NaN NaN NaN NaN 109.78 1 110.09 109.59 110.59 0.31015 0 0 0 1.008 1 50599 50599 0.35063 0.081612 1 34560 8042 21954 22023 38889 38889 0.17804410258622738 VGLWRPHRPR 10 Unmodified _VGLWRPHRPR_ 0 0 0 ENSG00000177989|ENST00000329363|ODF3B ENSG00000177989|ENST00000329363|ODF3B ENSG00000177989|ENST00000329363|ODF3B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 637.3716430664062 2 637.373072 1272.73159 NaN NaN NaN NaN NaN NaN NaN 49.409 1 50.064 49.564 50.564 0.65524 0 0 0 1.0015 1 22602 22602 0.45834 0 1 34561 5145 21955 22024 38890 38890 0.10613537842118603 VGMAHPYESWF 11 Unmodified _VGMAHPYESWF_ 0 0 0 nc|ENSG00000164651|Q8IXZ3-2|SP8;nc|ENSG00000164651|Q8IXZ3-1|SP8;nc|ENSG00000164651|Q8IXZ3|SP8;ENSG00000164651|ENST00000418710|SP8 nc|ENSG00000164651|Q8IXZ3-2|SP8 nc|ENSG00000164651|Q8IXZ3-2|SP8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 662.29638671875 2 662.294973 1322.57539 2.4405 0.0016163 -0.20216 -0.00013389 2.2383 0.0014824 662.2950472282477 104.28 0.39981 104.34 104.18 104.58 0.052994 75 42 3 0 0 0 0.91378 1 56490 56490 0.35063 0 1 800540 34562 4332 21956 22025 38891 38891 -0.07299133234050714 VGMEWRMKRYL 11 Unmodified _VGMEWRMKRYL_ 0 0 0 ENST00000356584.7_1_19:57985735-57987048:-|nuORF;ENST00000427512.6_2_19:57985735-57988680:-|nuORF;ENST00000343280.8_1_19:57985735-57986427:-|nuORF ENST00000356584.7_1_19:57985735-57987048:-|nuORF ENST00000356584.7_1_19:57985735-57987048:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 734.7752685546875 2 734.881224 1467.7479 NaN NaN NaN NaN NaN NaN NaN 90.529 1 90.529 90.029 91.029 0 0 0 0 1.0072 1 47606 47606 1.3295 0 1 34563 7091 21957 22026 38892 38892 0.03273114901685403 VGMFCHRF 8 Unmodified _VGMFCHRF_ 0 0 0 REV__ENSG00000273079|ENST00000609686|GRIN2B REV__ENSG00000273079|ENST00000609686|GRIN2B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.73089599609375 2 498.730758 995.446962 NaN NaN NaN NaN NaN NaN NaN 78.949 1 79.201 78.701 79.701 0.25127 0 0 0 0.99035 1 36356 36356 0.79363 0 1 + 34564 14722 21958 22027 38893 38893 -0.05094346958105689 VGMFIFILT 9 Unmodified _VGMFIFILT_ 0 0 0 REV__ENSG00000180251|ENST00000295269|SLC9A4 REV__ENSG00000180251|ENST00000295269|SLC9A4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 347.54901123046875 3 347.533152 1039.57763 2.2757 0.00079087 0.26585 9.2393E-05 2.5415 0.00088327 347.53334521567973 26.102 0.27496 26.865 26.735 27.01 0.76356 38 18 3 0 0 0 0.11383 1 11774 11774 1.1933 1.1933 1 352750 + 34565 11378 21959 22028 38894 38894 0.05941947241717571 VGMIKVHL 8 Unmodified _VGMIKVHL_ 0 0 0 nc|ENSG00000009694|Q9UKZ4-2|TENM1;ENSG00000009694|ENST00000371130|TENM1;TENM1|p.I1404Ffs*16|1|0.26|ENSG00000009694|chrX:124422513-124422513|G/-|frameshift_variant nc|ENSG00000009694|Q9UKZ4-2|TENM1 nc|ENSG00000009694|Q9UKZ4-2|TENM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.5108337402344 2 448.772948 895.531344 NaN NaN NaN NaN NaN NaN NaN 74.926 1 75.591 75.091 76.091 0.6644 0 0 0 0.99035 1 34507 34507 0.79363 0 1 34566 389 21960 22029 38895 38895 0.07939927130291835 VGMIMLIQ 8 Unmodified _VGMIMLIQ_ 0 0 0 ENSG00000172377|ENST00000641439|OR9I1 ENSG00000172377|ENST00000641439|OR9I1 ENSG00000172377|ENST00000641439|OR9I1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 452.7531433105469 2 452.753367 903.492181 NaN NaN NaN NaN NaN NaN NaN 16.578 1 16.779 16.279 17.279 0.20057 0 0 0 0.99035 1 7323 7323 0.79363 0 1 34567 4868 21961 22030 38896 38896 0.036574587844143025 VGMKPPVP 8 Unmodified _VGMKPPVP_ 0 0 0 nc|ENSG00000095110|Q8N323-2|NXPE1;ENSG00000095110|ENST00000534921|NXPE1 nc|ENSG00000095110|Q8N323-2|NXPE1 nc|ENSG00000095110|Q8N323-2|NXPE1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 824.652099609375 1 824.469872 823.462595 3.3241 0.0027406 2.4097 0.0019868 5.7338 0.0047274 824.4732980443837 92.772 0.12672 92.772 92.742 92.868 0 24 17 2 0 0 0 0.14249 1 49353 49353 2.8892 0.31174 1 27549000 34568 1116 21962 22031 38897 38897 0.04380262830579795 VGMKPPVP 8 Unmodified _VGMKPPVP_ 0 0 0 nc|ENSG00000095110|Q8N323-2|NXPE1;ENSG00000095110|ENST00000534921|NXPE1 nc|ENSG00000095110|Q8N323-2|NXPE1 nc|ENSG00000095110|Q8N323-2|NXPE1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 824.469872 823.462595 2.5816 0.0021285 4 0.0032979 6.5817 0.0054264 824.4739368549228 92.827 0.13724 92.913 92.78 92.917 0.086205 0.07056 0.00064512 NaN 2.8892 31 23 2 NaN NaN NaN NaN 0 NaN NaN 0 24065000 34569 1116 21962 22031 0.04380262830579795 VGMRVGAE 8 Unmodified _VGMRVGAE_ 0 0 0 nc|ENSG00000117625|Q9P2K3-2|RCOR3;nc|ENSG00000117625|Q9P2K3-4|RCOR3;ENSG00000117625|ENST00000419091|RCOR3;ENST00000472734.1_1_1:211433019-211434404:+|nuORF;ENST00000528408.5_1_1:211432902-211444674:+|nuORF nc|ENSG00000117625|Q9P2K3-2|RCOR3 nc|ENSG00000117625|Q9P2K3-2|RCOR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.7142333984375 2 409.713088 817.411622 NaN NaN NaN NaN NaN NaN NaN 15.957 1 16.263 15.763 16.763 0.306 0 0 0 0.99035 1 7219 7219 5.2307 0.47466 1 34570 2086 21963 22032 38898 38898 -0.004386862142609971 VGMVKKRVKTQ 11 Unmodified _VGMVKKRVKTQ_ 0 0 0 REV__ENSG00000128641|ENST00000392318|MYO1B REV__ENSG00000128641|ENST00000392318|MYO1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 637.3935546875 2 637.392282 1272.77001 NaN NaN NaN NaN NaN NaN NaN 32.035 1 32.035 31.535 32.535 0 0 0 0 1.008 1 14501 14501 0.35063 0 1 + 34571 11767 21964 22033 38899 38899 0.14453662641744813 VGMWRCWDQLM 11 Unmodified _VGMWRCWDQLM_ 0 0 0 REV__ENSG00000235961|ENST00000421798|PNMA6A REV__ENSG00000235961|ENST00000421798|PNMA6A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 713.0892944335938 2 712.817235 1423.61992 NaN NaN NaN NaN NaN NaN NaN 20.132 1 20.785 20.285 21.285 0.65346 0 0 0 1.008 1 9140 9140 0.35063 0 1 + 34572 14591 21965 22034 38900 38900 -0.07494768683841357 VGNECRHG 8 Unmodified _VGNECRHG_ 0 0 0 REV__nc|ENSG00000125386|P78312-3|FAM193A REV__nc|ENSG00000125386|P78312-3|FAM193A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.50146484375 2 436.195593 870.376634 NaN NaN NaN NaN NaN NaN NaN 14.86 1 15.086 14.586 15.586 0.22622 0 0 0 0.99035 1 6538 6538 5.2307 0 1 + 34573 11678 21966 22035 38901 38901 -0.06373929022208813 VGNHYTYPY 9 Unmodified _VGNHYTYPY_ 0 0 0 REV__nc|ENSG00000152430|Q8N9W6-5|BOLL REV__nc|ENSG00000152430|Q8N9W6-5|BOLL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.2566528320312 2 557.253631 1112.49271 3.4025 0.0018961 -0.76159 -0.0004244 2.6409 0.0014717 557.2534295915783 28.95 0.3611 29.739 29.593 29.954 0.78921 65 27 3 0 0 0 1.1154 1 13002 13002 2.0598 0 1 503070 + 34574 12649 21967 22036 38902 38902 -0.05903706970525491 VGNIALLLV 9 Unmodified _VGNIALLLV_ 0 0 0 REV__ENSG00000163933|ENST00000296292|RFT1 REV__ENSG00000163933|ENST00000296292|RFT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.30047607421875 2 456.299853 910.585153 NaN NaN NaN NaN NaN NaN NaN 15.86 1 15.86 15.36 16.36 0 0 0 0 0.91206 1 7018 7018 0.6015 0 1 + 34575 13041 21968 22037 38903 38903 0.1262842283366581 VGNKAKKFL 9 Unmodified _VGNKAKKFL_ 0 0 0 REV__ENSG00000096070|ENST00000357641|BRPF3 REV__ENSG00000096070|ENST00000357641|BRPF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.54718017578125 3 335.54656 1003.61785 2.2255 0.00074675 0.71457 0.00023977 2.9401 0.00098652 335.5467582329026 16.907 0.57841 17.211 16.923 17.501 0.30438 101 52 3 0 0 0 1.101 1 7554 7554 1.1933 0 1 174230 + 34576 10773 21969 22038 38904 38904 0.11618629956512905 VGNKAKKFL 9 Unmodified _VGNKAKKFL_ 0 0 0 REV__ENSG00000096070|ENST00000357641|BRPF3 REV__ENSG00000096070|ENST00000357641|BRPF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.5472717285156 3 335.54656 1003.61785 2.3354 0.00078363 1.0165 0.00034107 3.3518 0.0011247 335.5468163106837 16.809 0.63602 17.47 17.058 17.694 0.66072 121 59 3 0 0 0 1.101 2 7461 7461;7656 1.1933 0 1 209960 + 34577 10773 21969 22038 38905;38906 38905 0.11618629956512905 VGNKRLWP 8 Unmodified _VGNKRLWP_ 0 0 0 REV__ENSG00000118507|ENST00000431975|AKAP7 REV__ENSG00000118507|ENST00000431975|AKAP7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.28533935546875 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 66.153 1 66.401 65.901 66.901 0.24848 0 0 0 0.99035 1 30307 30307 2.5775 0.27475 1 + 34578 11473 21970 22039 38907 38907 0.07004903608162749 VGNKRWTI 8 Unmodified _VGNKRWTI_ 0 0 0 REV__ENSG00000174498|ENST00000327987|IGDCC3 REV__ENSG00000174498|ENST00000327987|IGDCC3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.8006896972656 2 487.282526 972.550499 3.2407 0.0015791 -0.99704 -0.00048584 2.2437 0.0010933 487.2819367150849 48.898 0.25033 49.16 49.018 49.268 0.26209 13 9 2 0 0 0 0.092309 1 22308 22308 32.117 0 1 583420 + 34579 13634 21971 22040 38908 38908 0.06312599745569969 VGNKRWTI 8 Unmodified _VGNKRWTI_ 0 0 0 REV__ENSG00000174498|ENST00000327987|IGDCC3 REV__ENSG00000174498|ENST00000327987|IGDCC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.2838134765625 2 487.282526 972.550499 NaN NaN NaN NaN NaN NaN NaN 48.431 1 49.086 48.586 49.586 0.65524 0 0 0 0.81105 1 22162 22162 18.135 2.2878 1 + 34580 13634 21971 22040 38909 38909 0.06312599745569969 VGNKVQQLSS 10 Unmodified _VGNKVQQLSS_ 0 0 0 ENSG00000250423|ENST00000691062|KIAA1210;nc|ENSG00000250423|Q9ULL0|KIAA1210 ENSG00000250423|ENST00000691062|KIAA1210 ENSG00000250423|ENST00000691062|KIAA1210 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.2943115234375 2 530.293288 1058.57202 3.4751 0.0018428 -0.40451 -0.00021451 3.0706 0.0016283 530.2928716948237 97.323 0.33512 97.925 97.78 98.115 0.6019 36 17 3 0 0 0 0.93628 1 44716 44716 1.6526 0.32309 1 2098300 34581 6264 21972 22041 38910 38910 0.04507939983614051 VGNLGLITLFG 11 Unmodified _VGNLGLITLFG_ 0 0 0 nc|ENSG00000284680|Q96RD0|OR8B2 nc|ENSG00000284680|Q96RD0|OR8B2 nc|ENSG00000284680|Q96RD0|OR8B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.5211791992188 2 552.326599 1102.63865 NaN NaN NaN NaN NaN NaN NaN 78.844 1 79.095 78.595 79.595 0.25127 0 0 0 1.0073 1 36307 36307 1.1933 0.39971 1 34582 9872 21973 22042 38911 38911 0.09143175545500526 VGNLHTLTKLR 11 Unmodified _VGNLHTLTKLR_ 0 0 0 REV__nc|ENSG00000131951|Q6ZRR7-2|LRRC9 REV__nc|ENSG00000131951|Q6ZRR7-2|LRRC9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 626.3816528320312 2 626.380229 1250.7459 4.5342 0.0028401 -1.389 -0.00087003 3.1452 0.0019701 626.3787639042589 100.29 0.16344 100.6 100.49 100.65 0.30835 15 5 4 0 0 0 0.91111 1 46387 46387 1.1933 0 1 11249000 + 34583 11870 21974 22043 38912 38912 0.1305614547973164 VGNLHTLTKLR 11 Unmodified _VGNLHTLTKLR_ 0 0 0 REV__nc|ENSG00000131951|Q6ZRR7-2|LRRC9 REV__nc|ENSG00000131951|Q6ZRR7-2|LRRC9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 626.3787231445312 2 626.380229 1250.7459 NaN NaN NaN NaN NaN NaN NaN 71.097 1 71.355 70.855 71.855 0.25786 0 0 0 1.0059 1 32565 32565 2.9952 0 1 + 34584 11870 21974 22043 38913 38913 0.1305614547973164 VGNLKAHL 8 Unmodified _VGNLKAHL_ 0 0 0 ENST00000472658.1_1_1:16270204-16270420:-|nuORF;ENST00000487785.1_1_1:16270204-16270866:-|nuORF;nc|ENSG00000116809|Q13105-3|ZBTB17;ENSG00000116809|ENST00000375743|ZBTB17;nc|ENSG00000116809|Q13105-2|ZBTB17 ENST00000472658.1_1_1:16270204-16270420:-|nuORF ENST00000472658.1_1_1:16270204-16270420:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 426.2603759765625 2 426.25852 850.502486 2.6965 0.0011494 0.12548 5.3486E-05 2.822 0.0012029 426.258643025563 15.736 0.76536 16.042 15.485 16.25 0.306 124 83 2 0 0 0 0.70146 1 6999 6999 5.7604 3.1829 1 58997 34585 2052 21975 22044 38914 38914 0.07125525825506429 VGNLKGRW 8 Unmodified _VGNLKGRW_ 0 0 0 ENSG00000174429|ENST00000311955|ABRA ENSG00000174429|ENST00000311955|ABRA ENSG00000174429|ENST00000311955|ABRA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.27093505859375 2 465.269419 928.524284 NaN NaN NaN NaN NaN NaN NaN 99.409 1 100.01 99.507 100.51 0.59748 0 0 0 0.99035 1 45967 45967 2.5775 0.27475 1 34586 4975 21976 22045 38915 38915 0.05716330574091444 VGNLVLPG 8 Unmodified _VGNLVLPG_ 0 0 0 ENST00000549114.5_1_16:779452-779698:+|nuORF ENST00000549114.5_1_16:779452-779698:+|nuORF ENST00000549114.5_1_16:779452-779698:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 385.15362548828125 2 384.734346 767.454139 2.4315 0.0009355 2.9585 0.0011382 5.3901 0.0020737 384.73557679766515 61.109 0.10214 61.109 61.064 61.166 0 11 7 2 0 0 0 0.14333 1 28463 28463 0.79363 0 1 463610 34587 8860 21977 22046 38916 38916 0.0611103218561766 VGNLVLPG 8 Unmodified _VGNLVLPG_ 0 0 0 ENST00000549114.5_1_16:779452-779698:+|nuORF ENST00000549114.5_1_16:779452-779698:+|nuORF ENST00000549114.5_1_16:779452-779698:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 384.734346 767.454139 2.8706 0.0011044 2.05 0.00078872 4.9207 0.0018931 384.7353948994664 60.661 0.45711 60.916 60.869 61.326 0.25578 -0.096267 -0.00022317 NaN 0.79363 36 22 2 NaN NaN NaN NaN 0 NaN NaN 0 403880 34588 8860 21977 22046 0.0611103218561766 VGNNYTLLNVT 11 Unmodified _VGNNYTLLNVT_ 0 0 0 ENSG00000042781|ENST00000307340|USH2A;nc|ENSG00000042781|O75445-3|USH2A;USH2A|p.T2648Yfs*13|1|0.13|ENSG00000042781|chr1:215888708-215888709|-/G|frameshift_variant;USH2A|p.D2872Rfs*17|1|0.23|ENSG00000042781|chr1:215877825-215877826|-/T|frameshift_variant ENSG00000042781|ENST00000307340|USH2A ENSG00000042781|ENST00000307340|USH2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 604.318359375 2 604.319502 1206.62445 NaN NaN NaN NaN NaN NaN NaN 81.604 1 82.264 81.764 82.764 0.65998 0 0 0 1.0072 1 37601 37601 1.3295 0 1 34589 544 21978 22047 38917 38917 0.029404783265590595 VGNQDFTNY 9 Unmodified _VGNQDFTNY_ 0 0 0 REV__ENST00000532590.1_1_11:126146908-126147581:+|nuORF REV__ENST00000532590.1_1_11:126146908-126147581:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.2357177734375 2 529.232896 1056.45124 NaN NaN NaN NaN NaN NaN NaN 21.356 1 21.356 20.856 21.856 0 0 0 0 0.89683 1 9560 9560 4.3292 0.73274 1 + 34590 11194 21979 22048 38918 38918 -0.07472887729863942 VGNRQIQI 8 Unmodified _VGNRQIQI_ 0 0 0 ENST00000313565.10_1_16:71898855-71918020:-|nuORF;ENST00000565516.5_1_16:71898855-71913932:-|nuORF;ENST00000563827.5_1_16:71901919-71917343:-|nuORF;ENST00000565601.5_2_16:71901919-71917197:-|nuORF;ENST00000568322.5_1_16:71901919-71918589:-|nuORF;ENST00000562985.5_1_16:71901919-71918510:-|nuORF;ENST00000568961.5_1_16:71901919-71917908:-|nuORF ENST00000313565.10_1_16:71898855-71918020:-|nuORF ENST00000313565.10_1_16:71898855-71918020:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.8359069824219 2 464.272158 926.529764 NaN NaN NaN NaN NaN NaN NaN 17.318 1 17.318 16.818 17.818 0 0 0 0 0.99035 1 7692 7692 0.79363 0 1 34591 6886 21980 22049 38919 38919 0.06356009365902082 VGNRTTATLR 10 Unmodified _VGNRTTATLR_ 0 0 0 ENSG00000164199|ENST00000405460|ADGRV1;nc|ENSG00000164199|Q8WXG9-3|ADGRV1;ENST00000504142.2_2_5:89924394-89949789:+|nuORF;nc|ENSG00000164199|Q8WXG9-4|ADGRV1;ADGRV1|p.S1667Ffs*22|1|0.26|ENSG00000164199|chr5:90674120-90674121|-/T|frameshift_variant;ADGRV1|p.S1982Ffs*2|1|0.14|ENSG00000164199|chr5:90683859-90683860|-/T|frameshift_variant ENSG00000164199|ENST00000405460|ADGRV1 ENSG00000164199|ENST00000405460|ADGRV1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.8117065429688 2 544.812179 1087.60981 NaN NaN NaN NaN NaN NaN NaN 95.243 1 95.243 94.743 95.743 0 0 0 0 0.99774 1 51243 51243 3.5965 0 1 34592 4295 21981 22050 38920 38920 0.06950450969065969 VGNSLREYKL 10 Unmodified _VGNSLREYKL_ 0 0 0 REV__nc|ENSG00000006715|P49754-2|VPS41 REV__nc|ENSG00000006715|P49754-2|VPS41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.5564880371094 3 393.555784 1177.64552 2.689 0.0010583 0.37892 0.00014913 3.0679 0.0012074 393.5558572755078 17.566 0.22939 17.566 17.447 17.677 0 27 14 2 0 0 0 0.68517 1 7784 7784 8.4443 0 1 308680 + 34593 10195 21982 22051 38921 38921 0.0638048842608896 VGPAAEARMPS 11 Unmodified _VGPAAEARMPS_ 0 0 0 ENST00000480281.5_1_7:65670445-65751520:+|nuORF;ENST00000442120.1_1_7:65670391-65670878:+|nuORF;ENST00000304842.5_1_7:65670295-65705388:+|nuORF ENST00000480281.5_1_7:65670445-65751520:+|nuORF ENST00000480281.5_1_7:65670445-65751520:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.2780151367188 2 543.274041 1084.53353 3.7916 0.0020599 1.2288 0.00066759 5.0205 0.0027275 543.2760679358805 30.584 0.23997 30.84 30.743 30.983 0.25614 38 17 3 0 0 0 0.88075 2 13908 13908;13954 3.2813 0.39209 1 288730 34594 6830 21983 22052 38922;38923 38922 -0.005356889225595296 VGPAAEARMPS 11 Unmodified _VGPAAEARMPS_ 0 0 0 ENST00000480281.5_1_7:65670445-65751520:+|nuORF;ENST00000442120.1_1_7:65670391-65670878:+|nuORF;ENST00000304842.5_1_7:65670295-65705388:+|nuORF ENST00000480281.5_1_7:65670445-65751520:+|nuORF ENST00000480281.5_1_7:65670445-65751520:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.2783813476562 2 543.274041 1084.53353 3.4701 0.0018852 0.080683 4.3833E-05 3.5507 0.001929 543.276050643625 30.272 0.23068 30.89 30.799 31.029 0.61736 15 11 2 0 0 0 0.81464 1 13912 13912 6.2058 2.2614 1 293900 34595 6830 21983 22052 38924 38924 -0.005356889225595296 VGPAHGPVL 9 Unmodified _VGPAHGPVL_ 0 0 0 ENST00000474481.1_1_1:1420233-1421362:+|nuORF;ENST00000485748.5_1_1:1420203-1425183:+|nuORF ENST00000474481.1_1_1:1420233-1421362:+|nuORF ENST00000474481.1_1_1:1420233-1421362:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.746826171875 2 423.745245 845.475937 NaN NaN NaN NaN NaN NaN NaN 27.064 1 27.329 26.829 27.829 0.26489 0 0 0 0.89315 1 12299 12299 5.2307 0 1 34596 8210 21984 22053 38925 38925 0.04701836934191306 VGPAKGRF 8 Unmodified _VGPAKGRF_ 0 0 0 REV__ENST00000522060.1_1_8:144090549-144099792:-|nuORF REV__ENST00000522060.1_1_8:144090549-144099792:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 416.2464294433594 2 416.245412 830.476272 2.7792 0.0011568 0.28585 0.00011898 3.0651 0.0012758 416.2454954238314 15.146 0.5913 15.146 14.902 15.494 0 96 68 2 0 0 0 0.7471 1 6720 6720 0.79363 0 1 87037 + 34597 17055 21985 22054 38926 38926 0.05425256654052646 VGPARRLS 8 Unmodified _VGPARRLS_ 0 0 0 ENST00000288014.6_1_14:24025414-24025621:+|nuORF ENST00000288014.6_1_14:24025414-24025621:+|nuORF ENST00000288014.6_1_14:24025414-24025621:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 855.5217895507812 1 855.515911 854.508634 4.1355 0.0035379 0.028902 2.4726E-05 4.1644 0.0035627 855.5158707945575 92.949 0.28576 93.596 93.428 93.714 0.64714 18 13 2 0 0 0 0.73686 1 42751 42751 2.8892 0 1 634390 34598 6728 21986 22055 38927 38927 0.07556044057048439 VGPARRLS 8 Unmodified _VGPARRLS_ 0 0 0 ENST00000288014.6_1_14:24025414-24025621:+|nuORF ENST00000288014.6_1_14:24025414-24025621:+|nuORF ENST00000288014.6_1_14:24025414-24025621:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 855.515911 854.508634 4.4935 0.0038443 -1.4568 -0.0012464 3.0367 0.0025979 855.5148204509642 93.373 0.24873 93.628 93.506 93.755 0.25497 0.016031 -0.00051595 NaN 2.8892 11 9 2 NaN NaN NaN NaN 0 NaN NaN 0 526420 34599 6728 21986 22055 0.07556044057048439 VGPCCCPCCSC 11 Unmodified _VGPCCCPCCSC_ 0 0 0 ENST00000608825.1_3_7:99954396-99956429:+|nuORF;ENST00000609309.2_3_7:99955758-99956429:+|nuORF;ENST00000452089.5_3_7:99950889-99956429:+|nuORF ENST00000608825.1_3_7:99954396-99956429:+|nuORF ENST00000608825.1_3_7:99954396-99956429:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.6527709960938 2 537.653829 1073.29311 NaN NaN NaN NaN NaN NaN NaN 89.979 1 90.652 90.152 91.152 0.67271 0 0 0 1.008 1 41424 41424 0.35063 0.35063 1 34600 8026 21987 22056 38928 38928 -0.2406095216410904 VGPDVIVVV 9 Unmodified _VGPDVIVVV_ 0 0 0 REV__ENST00000478105.5_1_21:47981571-47987532:+|nuORF REV__ENST00000478105.5_1_21:47981571-47987532:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 448.7795715332031 2 448.776211 895.537869 NaN NaN NaN NaN NaN NaN NaN 33.193 1 33.193 32.693 33.693 0 0 0 0 0.91206 1 15034 15034 0.6015 0 1 + 34601 12874 21988 22057 38929 38929 0.08592143562680121 VGPERWRRHHR 11 Unmodified _VGPERWRRHHR_ 0 0 0 REV__ENSG00000132716|ENST00000368074|DCAF8 REV__ENSG00000132716|ENST00000368074|DCAF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.94122314453125 3 495.939736 1484.79738 NaN NaN NaN NaN NaN NaN NaN 63.292 1 63.292 62.792 63.792 0 0 0 0 1.0071 1 29763 29763 0.50596 0.051438 1 + 34602 11909 21989 22058 38930 38930 0.0743732701700992 VGPERWRRHHR 11 Unmodified _VGPERWRRHHR_ 0 0 0 REV__ENSG00000132716|ENST00000368074|DCAF8 REV__ENSG00000132716|ENST00000368074|DCAF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 743.4077758789062 2 743.405966 1484.79738 NaN NaN NaN NaN NaN NaN NaN 67.879 1 68.537 68.037 69.037 0.65777 0 0 0 1.008 1 31115 31115 0.35063 0 1 + 34603 11909 21989 22058 38931 38931 0.0743732701700992 VGPFRQLE 8 Unmodified _VGPFRQLE_ 0 0 0 REV__ENST00000527315.5_1_15:69323805-69349033:+|nuORF REV__ENST00000527315.5_1_15:69323805-69349033:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 473.6462097167969 2 473.261259 944.507966 NaN NaN NaN NaN NaN NaN NaN 75.177 1 75.177 74.677 75.677 0 0 0 0 0.99035 1 36833 36833 5.7604 1.0044 1 + 34604 14671 21990 22059 38932 38932 0.03349204617336454 VGPFVLFK 8 Unmodified _VGPFVLFK_ 0 0 0 REV__Harlequin-int_dup17|chr1:46326040-46329561:-|10.003084288088008|0.3399966488246573|4.88|534.0|139|1|anti-sense REV__Harlequin-int_dup17|chr1:46326040-46329561:-|10.003084288088008|0.3399966488246573|4.88|534.0|139|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 453.7989807128906 2 453.776014 905.537475 NaN NaN NaN NaN NaN NaN NaN 60.365 1 61.114 60.614 61.614 0.74927 0 0 0 0.99035 1 27837 27837 5.7604 3.4577 1 + 34605 17700 21991 22060 38933 38933 0.0809276863346895 VGPGPDPDHA 10 Unmodified _VGPGPDPDHA_ 0 0 0 REV__ENST00000587818.1_1_19:45668074-45681461:-|nuORF REV__ENST00000587818.1_1_19:45668074-45681461:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 481.1885070800781 2 481.222331 960.430109 NaN NaN NaN NaN NaN NaN NaN 63.011 1 63.733 63.233 64.233 0.72236 0 0 0 0.96109 1 29472 29472 11.64 0 1 + 34606 17553 21992 22061 38934 38934 -0.0516885303871959 VGPHLQFESP 10 Unmodified _VGPHLQFESP_ 0 0 0 REV__ENST00000434735.6_1_12:109973723-109974035:+|nuORF REV__ENST00000434735.6_1_12:109973723-109974035:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1111.5631103515625 1 1110.55784 1109.55056 3.4093 0.0037862 -1.5631 -0.001736 1.8462 0.0020503 1111.5585333723245 87.752 0.072762 88.003 87.968 88.041 0.25064 4 2 2 0 0 0 0.89464 1 40397 40397 3.9444 0 1 1201000 + 34607 16294 21993 22062 38935 38935 0.00016554954913772235 VGPHRKIQR 9 Unmodified _VGPHRKIQR_ 0 0 0 REV__chr12:57236910-57237029|481|71.89|0.65|6.78|-|0|None,NDUFA4L2|1 REV__chr12:57236910-57237029|481|71.89|0.65|6.78|-|0|None,NDUFA4L2|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.0700073242188 2 545.833249 1089.65194 NaN NaN NaN NaN NaN NaN NaN 16.061 1 16.272 15.772 16.772 0.21108 0 0 0 0.91342 1 7093 7093 0.6015 0 1 + 34608 10029 21994 22063 38936 38936 0.11070471168113727 VGPHRKIQR 9 Unmodified _VGPHRKIQR_ 0 0 0 REV__chr12:57236910-57237029|481|71.89|0.65|6.78|-|0|None,NDUFA4L2|1 REV__chr12:57236910-57237029|481|71.89|0.65|6.78|-|0|None,NDUFA4L2|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.3084106445312 2 545.833249 1089.65194 NaN NaN NaN NaN NaN NaN NaN 94.979 1 95.597 95.097 96.097 0.61736 0 0 0 0.91342 1 43680 43680 0.6015 0 1 + 34609 10029 21994 22063 38937 38937 0.11070471168113727 VGPHSLDVVI 10 Unmodified _VGPHSLDVVI_ 0 0 0 REV__nc|ENSG00000109814|O60701-3|UGDH REV__nc|ENSG00000109814|O60701-3|UGDH MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.2525634765625 2 518.295299 1034.57605 3.3826 0.0017532 -0.86598 -0.00044883 2.5166 0.0013044 518.2953343625495 51.46 0.33129 51.46 51.266 51.598 0 35 16 3 0 0 0 0.12645 1 23503 23503 14.838 4.7643 1 997590 + 34610 11182 21995 22064 38938 38938 0.060140294773418645 VGPHSLDVVI 10 Unmodified _VGPHSLDVVI_ 0 0 0 REV__nc|ENSG00000109814|O60701-3|UGDH REV__nc|ENSG00000109814|O60701-3|UGDH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.2968139648438 2 518.295299 1034.57605 3.2834 0.0017018 -0.7176 -0.00037193 2.5658 0.0013298 518.2951708511722 50.559 0.21088 51.376 51.239 51.45 0.81738 19 9 3 0 0 0 0.51828 1 23021 23021 20.454 0.039092 1 1069000 + 34611 11182 21995 22064 38939 38939 0.060140294773418645 VGPIKIRELR 10 Unmodified _VGPIKIRELR_ 0 0 0 REV__nc|ENSG00000100298|Q6NTF7|APOBEC3H REV__nc|ENSG00000100298|Q6NTF7|APOBEC3H MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.8797607421875 2 590.879865 1179.74518 NaN NaN NaN NaN NaN NaN NaN 52.14 1 52.14 51.64 52.64 0 0 0 0 1.0015 1 23875 23875 0.45834 0 1 + 34612 17881 21996 22065 38940 38940 0.16249350830685216 VGPILGSPV 9 Unmodified _VGPILGSPV_ 0 0 0 nc|ENSG00000113569|O75694-2|NUP155;ENSG00000113569|ENST00000231498|NUP155 nc|ENSG00000113569|O75694-2|NUP155 nc|ENSG00000113569|O75694-2|NUP155 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 419.7568664550781 2 419.755278 837.496004 NaN NaN NaN NaN NaN NaN NaN 65.363 1 65.363 64.863 65.863 0 0 0 0 0.84134 1 31134 31134 7.9102 0 1 34613 1860 21997 22066 38941 38941 0.07075587874135181 VGPIRILKP 9 Unmodified _VGPIRILKP_ 0 0 0 ENSG00000171199|ENST00000399575|OPRPN ENSG00000171199|ENST00000399575|OPRPN ENSG00000171199|ENST00000399575|OPRPN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 497.3179016113281 2 496.834394 991.654236 NaN NaN NaN NaN NaN NaN NaN 28.028 1 28.815 28.315 29.315 0.78627 0 0 0 0.91206 1 12614 12614 0.6015 0.6015 1 34614 4793 21998 22067 38942 38942 0.15807506853218456 VGPIRILKP 9 Unmodified _VGPIRILKP_ 0 0 0 ENSG00000171199|ENST00000399575|OPRPN ENSG00000171199|ENST00000399575|OPRPN ENSG00000171199|ENST00000399575|OPRPN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.8370361328125 2 496.834394 991.654236 NaN NaN NaN NaN NaN NaN NaN 93.413 1 93.668 93.168 94.168 0.25497 0 0 0 0.91206 1 42934 42934 0.6015 0.076735 1 34615 4793 21998 22067 38943 38943 0.15807506853218456 VGPIRRGG 8 Unmodified _VGPIRRGG_ 0 0 0 ENST00000285605.7_1_10:99474680-99474815:+|nuORF ENST00000285605.7_1_10:99474680-99474815:+|nuORF ENST00000285605.7_1_10:99474680-99474815:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 811.49365234375 1 811.489696 810.48242 4.3091 0.0034968 0.21622 0.00017546 4.5253 0.0036722 811.4899264666655 90.982 0.308 91.234 91.042 91.35 0.25163 31 17 2 0 0 0 0.7471 2 41783 41783;41836 0.79363 0 1 555110 34616 6717 21999 22068 38944;38945 38944 0.06959774885569914 VGPIRRGG 8 Unmodified _VGPIRRGG_ 0 0 0 ENST00000285605.7_1_10:99474680-99474815:+|nuORF ENST00000285605.7_1_10:99474680-99474815:+|nuORF ENST00000285605.7_1_10:99474680-99474815:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 811.4937744140625 1 811.489696 810.48242 4.1508 0.0033683 0.18522 0.0001503 4.336 0.0035186 811.489661953213 95.151 0.26035 95.769 95.642 95.903 0.61737 23 13 2 0 0 0 0.7471 2 43726 43726;43783 0.79363 0 1 745990 34617 6717 21999 22068 38946;38947 38946 0.06959774885569914 VGPIRRGG 8 Unmodified _VGPIRRGG_ 0 0 0 ENST00000285605.7_1_10:99474680-99474815:+|nuORF ENST00000285605.7_1_10:99474680-99474815:+|nuORF ENST00000285605.7_1_10:99474680-99474815:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 811.489696 810.48242 4.1228 0.0033456 -0.25444 -0.00020647 3.8684 0.0031392 811.4890028864489 90.554 0.34335 91.227 91.036 91.379 0.67271 -0.0033173 -0.00019498 NaN 0.79363 23 15 2 NaN NaN NaN NaN 0 NaN NaN 0 793840 34618 6717 21999 22068 0.06959774885569914 VGPKRPVHGE 10 Unmodified _VGPKRPVHGE_ 0 0 0 REV__ENST00000519685.5_1_8:22873179-22874852:+|nuORF REV__ENST00000519685.5_1_8:22873179-22874852:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.3017578125 2 538.30399 1074.59343 NaN NaN NaN NaN NaN NaN NaN 60.741 1 61.404 60.904 61.904 0.66261 0 0 0 0.99774 1 27811 27811 3.5965 1.2938 1 + 34619 17038 22000 22069 38948 38948 0.05911369802993249 VGPLAQSHL 9 Unmodified _VGPLAQSHL_ 0 0 0 REV__ENSG00000188897|ENST00000696174|unknown REV__ENSG00000188897|ENST00000696174|unknown MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 307.84417724609375 3 307.843265 920.507966 2.0142 0.00062007 0.38889 0.00011972 2.4031 0.00073979 307.84342855894226 16.818 0.92547 17.123 16.49 17.415 0.30438 135 90 2 0 0 0 0.92418 1 7630 7630 5.2969 1.3525 1 125210 + 34620 14164 22001 22070 38949 38949 0.04453204617323081 VGPLAQSHL 9 Unmodified _VGPLAQSHL_ 0 0 0 REV__ENSG00000188897|ENST00000696174|unknown REV__ENSG00000188897|ENST00000696174|unknown MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 307.8443603515625 3 307.843265 920.507966 2.1545 0.00066325 0.80088 0.00024654 2.9554 0.00090979 307.84356803473105 16.812 0.53368 17.473 17.235 17.769 0.66072 85 48 2 0 0 0 1.0755 1 7552 7552 2.7352 1.0826 1 140180 + 34621 14164 22001 22070 38950 38950 0.04453204617323081 VGPLPIPK 8 Unmodified _VGPLPIPK_ 0 0 0 REV__ENSG00000242732|ENST00000609883|RTL5 REV__ENSG00000242732|ENST00000609883|RTL5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 410.7684326171875 2 410.768189 819.521825 NaN NaN NaN NaN NaN NaN NaN 75.493 1 76.158 75.658 76.658 0.6644 0 0 0 0.99035 1 34782 34782 0.79363 0 1 + 34622 14623 22002 22071 38951 38951 0.10484482116419258 VGPLSRVIRN 10 Unmodified _VGPLSRVIRN_ 0 0 0 ENST00000293217.9_3_17:73942028-73942409:-|nuORF ENST00000293217.9_3_17:73942028-73942409:-|nuORF ENST00000293217.9_3_17:73942028-73942409:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.8407592773438 2 555.840739 1109.66693 NaN NaN NaN NaN NaN NaN NaN 102.35 1 102.35 101.85 102.85 0 0 0 0 0.99983 1 56510 56510 1.8442 0 1 34623 6741 22003 22072 38952 38952 0.11647918245466826 VGPLVCCFGPN 11 Unmodified _VGPLVCCFGPN_ 0 0 0 REV__ENST00000566159.1_1_16:1364579-1364975:+|nuORF REV__ENST00000566159.1_1_16:1364579-1364975:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.2625732421875 2 553.262087 1104.50962 NaN NaN NaN NaN NaN NaN NaN 39.44 1 40.24 39.74 40.74 0.79972 0 0 0 1.0071 1 17856 17856 1.4819 0.68827 1 + 34624 17420 22004 22073 38953 38953 -0.03845245680577136 VGPNEYWFRDG 11 Unmodified _VGPNEYWFRDG_ 0 0 0 REV__nc|ENSG00000147485|A1KZ92-3|PXDNL REV__nc|ENSG00000147485|A1KZ92-3|PXDNL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 670.3600463867188 2 670.306926 1338.5993 NaN NaN NaN NaN NaN NaN NaN 15.771 1 15.982 15.482 16.482 0.21108 0 0 0 1.008 1 6961 6961 0.35063 0 1 + 34625 12509 22005 22074 38954 38954 -0.05645576476035785 VGPPFSFLF 9 Unmodified _VGPPFSFLF_ 0 0 0 REV__ENST00000484094.1_1_2:103414244-103431261:+|nuORF REV__ENST00000484094.1_1_2:103414244-103431261:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.7730712890625 2 505.770929 1009.5273 3.4509 0.0017454 0.79338 0.00040127 4.2443 0.0021467 505.7711824232991 93.341 0.30893 93.972 93.816 94.124 0.63115 22 15 2 0 0 0 0.98132 1 42939 42939 4.3292 2.0265 1 422050 + 34626 16731 22006 22075 38955 38955 0.02292160908234564 VGPQECEN 8 Unmodified _VGPQECEN_ 0 0 0 REV__ENSG00000119681|ENST00000261978|LTBP2 REV__ENSG00000119681|ENST00000261978|LTBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 438.18316650390625 2 438.181817 874.349082 NaN NaN NaN NaN NaN NaN NaN 75.967 1 76.631 76.131 77.131 0.66387 0 0 0 0.99035 1 34997 34997 0.79363 0 1 + 34627 11508 22007 22076 38956 38956 -0.09311877073128016 VGPQLLLFP 9 Unmodified _VGPQLLLFP_ 0 0 0 REV__ENST00000369014.9_1_1:150595095-150595323:-|nuORF REV__ENST00000369014.9_1_1:150595095-150595323:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.2992248535156 2 492.299853 982.585153 NaN NaN NaN NaN NaN NaN NaN 39.699 1 39.699 39.199 40.199 0 0 0 0 0.90511 1 18016 18016 2.3027 0.4585 1 + 34628 15699 22008 22077 38957 38957 0.09316422833671822 VGPQVWRGRRR 11 Unmodified _VGPQVWRGRRR_ 0 0 0 REV__ENST00000505061.5_1_15:42111671-42117631:+|nuORF REV__ENST00000505061.5_1_15:42111671-42117631:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 683.90283203125 2 683.899986 1365.78542 NaN NaN NaN NaN NaN NaN NaN 16.874 1 17.179 16.679 17.679 0.30438 0 0 0 1.008 1 7641 7641 0.35063 0 1 + 34629 12127 22009 22078 38958 38958 0.11715710273824698 VGPRNREAC 9 Unmodified _VGPRNREAC_ 0 0 0 REV__ENST00000575164.1_1_16:2903096-2905944:-|nuORF REV__ENST00000575164.1_1_16:2903096-2905944:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.2521057128906 2 501.2509 1000.48725 NaN NaN NaN NaN NaN NaN NaN 89.964 1 90.028 89.528 90.528 0.064346 0 0 0 0.86044 1 46240 46240 7.2892 1.0834 1 + 34630 10172 22010 22079 38959 38959 -0.012977090339973074 VGPRTLLLV 9 Unmodified _VGPRTLLLV_ 0 0 0 ENST00000442496.1_1_22:37880295-37880663:-|nuORF ENST00000442496.1_1_22:37880295-37880663:-|nuORF ENST00000442496.1_1_22:37880295-37880663:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.2156677246094 3 323.21481 966.622602 2.3443 0.00075773 0.55468 0.00017928 2.899 0.00093701 323.2148732052192 44.507 0.33644 45.157 44.955 45.291 0.64999 26 13 3 0 0 0 0.097457 1 20421 20421 10.8 0 1 559340 34631 7944 22011 22080 38960 38960 0.1379551409928581 VGPRTLLLV 9 Unmodified _VGPRTLLLV_ 0 0 0 ENST00000442496.1_1_22:37880295-37880663:-|nuORF ENST00000442496.1_1_22:37880295-37880663:-|nuORF ENST00000442496.1_1_22:37880295-37880663:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 323.21481 966.622602 2.1871 0.00070689 0.29093 9.4032E-05 2.478 0.00080092 323.2146406691555 44.256 0.29305 45.076 44.899 45.192 0.82075 -0.14852 -0.00022199 NaN 10.8 22 15 2 NaN NaN NaN NaN 0 NaN NaN 0 184300 34632 7944 22011 22080 0.1379551409928581 VGPRTLLLV 9 Unmodified _VGPRTLLLV_ 0 0 0 ENST00000442496.1_1_22:37880295-37880663:-|nuORF ENST00000442496.1_1_22:37880295-37880663:-|nuORF ENST00000442496.1_1_22:37880295-37880663:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 323.21481 966.622602 2.2097 0.0007142 0.66942 0.00021637 2.8791 0.00093057 323.2149248186283 45.174 0.26851 45.441 45.293 45.562 0.26768 0.21629 0.00014501 NaN 10.8 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 662610 34633 7944 22011 22080 0.1379551409928581 VGPSAALPI 9 Unmodified _VGPSAALPI_ 0 0 0 REV__ENST00000011653.8_1_12:6928491-6928674:+|nuORF REV__ENST00000011653.8_1_12:6928491-6928674:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 412.7474060058594 2 412.747453 823.480354 NaN NaN NaN NaN NaN NaN NaN 15.688 1 15.899 15.399 16.399 0.21108 0 0 0 0.90511 1 6924 6924 2.3027 1.5091 1 + 34634 14774 22012 22081 38961 38961 0.06155301357091503 VGPSILGIL 9 Unmodified _VGPSILGIL_ 0 0 0 ENST00000552957.5_1_14:29247336-29247399:+|nuORF ENST00000552957.5_1_14:29247336-29247399:+|nuORF ENST00000552957.5_1_14:29247336-29247399:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.7808837890625 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 47.567 1 47.567 47.067 48.067 0 0 0 0 0.90611 1 21778 21778 2.0598 0 1 34635 8893 22013 22082 38962 38962 0.10388447425293634 VGPSILGIL 9 Unmodified _VGPSILGIL_ 0 0 0 ENST00000552957.5_1_14:29247336-29247399:+|nuORF ENST00000552957.5_1_14:29247336-29247399:+|nuORF ENST00000552957.5_1_14:29247336-29247399:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.7812194824219 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 31.858 1 32.646 32.146 33.146 0.78795 0 0 0 0.90611 1 14396 14396 2.0598 0 1 34636 8893 22013 22082 38963 38963 0.10388447425293634 VGPSILGIL 9 Unmodified _VGPSILGIL_ 0 0 0 ENST00000552957.5_1_14:29247336-29247399:+|nuORF ENST00000552957.5_1_14:29247336-29247399:+|nuORF ENST00000552957.5_1_14:29247336-29247399:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.78155517578125 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 31.956 1 32.744 32.244 33.244 0.78795 0 0 0 0.90611 1 14443 14443 2.0598 0 1 34637 8893 22013 22082 38964 38964 0.10388447425293634 VGPSILGIL 9 Unmodified _VGPSILGIL_ 0 0 0 ENST00000552957.5_1_14:29247336-29247399:+|nuORF ENST00000552957.5_1_14:29247336-29247399:+|nuORF ENST00000552957.5_1_14:29247336-29247399:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.7815246582031 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 32.074 1 32.862 32.362 33.362 0.78795 0 0 0 0.90611 1 14499 14499 2.0598 0 1 34638 8893 22013 22082 38965 38965 0.10388447425293634 VGPSILGIL 9 Unmodified _VGPSILGIL_ 0 0 0 ENST00000552957.5_1_14:29247336-29247399:+|nuORF ENST00000552957.5_1_14:29247336-29247399:+|nuORF ENST00000552957.5_1_14:29247336-29247399:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7804870605469 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 34.325 1 34.948 34.448 35.448 0.62294 0 0 0 0.90611 1 15726 15726 2.0598 0 1 34639 8893 22013 22082 38966 38966 0.10388447425293634 VGPSILGIL 9 Unmodified _VGPSILGIL_ 0 0 0 ENST00000552957.5_1_14:29247336-29247399:+|nuORF ENST00000552957.5_1_14:29247336-29247399:+|nuORF ENST00000552957.5_1_14:29247336-29247399:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7813415527344 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 34.682 1 35.305 34.805 35.805 0.62294 0 0 0 0.89509 1 15887 15887 4.756 0 1 34640 8893 22013 22082 38967 38967 0.10388447425293634 VGPSLPLPQ 9 Unmodified _VGPSLPLPQ_ 0 0 0 REV__ENST00000393544.2_1_11:113661515-113661644:+|nuORF REV__ENST00000393544.2_1_11:113661515-113661644:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.26751708984375 2 454.26601 906.517468 NaN NaN NaN NaN NaN NaN NaN 15.77 1 16.076 15.576 16.576 0.306 0 0 0 0.90699 1 7133 7133 1.8442 0 1 + 34641 10535 22014 22083 38968 38968 0.06046972902856851 VGPSPRGR 8 Unmodified _VGPSPRGR_ 0 0 0 REV__ENSG00000105376|ENST00000221980|ICAM5 REV__ENSG00000105376|ENST00000221980|ICAM5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.239013671875 2 413.238119 824.461684 3.7491 0.0015493 -0.54502 -0.00022522 3.2041 0.001324 413.23778895377785 96.435 0.58827 96.713 96.452 97.04 0.27778 70 30 3 0 0 0 0.74071 1 44403 44403 2.5775 0 1 1573900 + 34642 11028 22015 22084 38969 38969 0.04243184505901354 VGPTGKPGPR 10 Unmodified _VGPTGKPGPR_ 0 0 0 REV__ENSG00000092758|ENST00000649368|COL9A3 REV__ENSG00000092758|ENST00000649368|COL9A3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.26190185546875 2 483.279983 964.545414 3.1887 0.0015411 0.14861 7.1818E-05 3.3373 0.0016129 483.27994305415064 17.138 0.23774 17.799 17.608 17.846 0.66072 27 17 2 0 0 0 0.12676 1 7650 7650 6.2058 2.6093 1 87126 + 34643 10745 22016 22085 38970 38970 0.06172295882936396 VGPTLGSV 8 Unmodified _VGPTLGSV_ 0 0 0 REV__nc|ENSG00000115414|P02751-12|FN1 REV__nc|ENSG00000115414|P02751-12|FN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 365.21295166015625 2 365.210704 728.406855 NaN NaN NaN NaN NaN NaN NaN 35.167 1 35.167 34.667 35.667 0 0 0 0 0.99035 1 15951 15951 2.5775 0 1 + 34644 11362 22017 22086 38971 38971 0.03178752914618599 VGPVALLLLL 10 Unmodified _VGPVALLLLL_ 0 0 0 REV__ENSG00000116176|ENST00000234798|TPSG1 REV__ENSG00000116176|ENST00000234798|TPSG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.3503723144531 2 504.346803 1006.67905 3.3697 0.0016995 3.2631 0.0016457 6.6328 0.0033452 504.34847571882597 28.442 0.14983 28.442 28.358 28.508 0 13 9 2 0 0 0 0.94217 1 12851 12851 0.45834 0 1 366120 + 34645 11397 22018 22087 38972 38972 0.175981419359573 VGPVALLLLL 10 Unmodified _VGPVALLLLL_ 0 0 0 REV__ENSG00000116176|ENST00000234798|TPSG1 REV__ENSG00000116176|ENST00000234798|TPSG1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 504.346803 1006.67905 3.3697 0.0016995 3.2631 0.0016457 6.6328 0.0033452 504.34847571882597 28.442 0.14983 28.442 28.358 28.508 0 0.066304 0.00014505 NaN 0.45834 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 366120 + 34646 11397 22018 22087 0.175981419359573 VGPVALLLLL 10 Unmodified _VGPVALLLLL_ 0 0 0 REV__ENSG00000116176|ENST00000234798|TPSG1 REV__ENSG00000116176|ENST00000234798|TPSG1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 504.346803 1006.67905 3.0811 0.001554 3.0684 0.0015475 6.1495 0.0031015 504.3483200276799 28.074 0.20635 28.337 28.279 28.486 0.26245 -0.038711 -5.1386E-05 NaN 0.45834 25 16 2 NaN NaN NaN NaN 0 NaN NaN 0 1977100 + 34647 11397 22018 22087 0.175981419359573 VGPVALLLLL 10 Unmodified _VGPVALLLLL_ 0 0 0 REV__ENSG00000116176|ENST00000234798|TPSG1 REV__ENSG00000116176|ENST00000234798|TPSG1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 504.346803 1006.67905 3.1678 0.0015977 3.199 0.0016134 6.3668 0.0032111 504.3482250605069 27.728 0.23413 28.348 28.179 28.414 0.61947 -0.027592 8.0357E-05 NaN 0.45834 23 13 3 NaN NaN NaN NaN 0 NaN NaN 0 1554600 + 34648 11397 22018 22087 0.175981419359573 VGPVGPEDIL 10 Unmodified _VGPVGPEDIL_ 0 0 0 REV__ENST00000527285.1_1_11:18728401-18728901:+|nuORF REV__ENST00000527285.1_1_11:18728401-18728901:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.1365966796875 2 498.274032 994.533512 NaN NaN NaN NaN NaN NaN NaN 26.607 1 27.385 26.885 27.885 0.7787 0 0 0 0.99774 1 11952 11952 3.5965 0 1 + 34649 17103 22019 22088 38973 38973 0.036026343490902946 VGPVGTIGFHD 11 Unmodified _VGPVGTIGFHD_ 0 0 0 ENST00000489611.5_1_6:70926602-70990065:-|nuORF ENST00000489611.5_1_6:70926602-70990065:-|nuORF ENST00000489611.5_1_6:70926602-70990065:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.7852783203125 2 549.782556 1097.55056 4.3926 0.002415 -0.42475 -0.00023352 3.9679 0.0021815 549.782242756873 102.04 0.17672 102.36 102.26 102.44 0.31737 9 5 2 0 0 0 0.9102 1 47217 47217 1.4819 0.68827 1 600320 34650 8380 22020 22089 38974 38974 0.005685549549070856 VGPVPPGFFQ 10 Unmodified _VGPVPPGFFQ_ 0 0 0 nc|ENSG00000145687|P81877-3|SSBP2;nc|ENSG00000145687|P81877|SSBP2;ENSG00000145687|ENST00000615665|SSBP2 nc|ENSG00000145687|P81877-3|SSBP2 nc|ENSG00000145687|P81877-3|SSBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.7803955078125 2 522.779285 1043.54402 NaN NaN NaN NaN NaN NaN NaN 88.18 1 88.858 88.358 89.358 0.67818 0 0 0 0.99983 1 40616 40616 1.8442 0.19162 1 34651 3479 22021 22090 38975 38975 0.023986617941773147 VGPVSLLAI 9 Unmodified _VGPVSLLAI_ 0 0 0 nc|ENSG00000186334|Q495N2-2|SLC36A3;ENSG00000186334|ENST00000335230|SLC36A3;nc|ENSG00000186334|Q495N2-3|SLC36A3 nc|ENSG00000186334|Q495N2-2|SLC36A3 nc|ENSG00000186334|Q495N2-2|SLC36A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.74908447265625 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 27.164 1 27.429 26.929 27.929 0.26489 0 0 0 0.89315 1 12345 12345 5.2307 0 1 34652 5563 22022 22091 38976 38976 0.10388447425270897 VGPVTQLV 8 Unmodified _VGPVTQLV_ 0 0 0 REV__GON4L|p.R1117Qfs*40|1|0.04|ENSG00000116580|chr1:155766107-155766123|TCTCTTTGAGGGTCTCC/-|frameshift_variant;REV__nc|ENSG00000116580|Q3T8J9-3|GON4L REV__nc|ENSG00000116580|Q3T8J9-3|GON4L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 812.4881591796875 1 812.48763 811.480354 4.1279 0.0033538 -2.9097 -0.0023641 1.2182 0.00098975 812.4851690381513 91.47 0.34071 92.132 91.915 92.256 0.66197 19 14 2 0 0 0 0.7471 1 42069 42069 0.79363 0 1 646440 + 34653 17692;11407 22023 22092 38977 38977 0.06707301357073447 VGPWLVGPPV 10 Unmodified _VGPWLVGPPV_ 0 0 0 ENST00000256442.9_1_5:68462964-68463831:+|nuORF ENST00000256442.9_1_5:68462964-68463831:+|nuORF ENST00000256442.9_1_5:68462964-68463831:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 511.213623046875 2 510.797478 1019.5804 NaN NaN NaN NaN NaN NaN NaN 93.218 1 93.218 92.718 93.718 0 0 0 0 0.98473 1 49746 49746 7.9102 0 1 34654 6523 22024 22093 38978 38978 0.07139538690898917 VGPWRNWRWWQ 11 Unmodified _VGPWRNWRWWQ_ 0 0 0 REV__ENST00000510393.5_1_1:16083148-16084686:+|nuORF REV__ENST00000510393.5_1_1:16083148-16084686:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 785.8935546875 2 785.894369 1569.77419 NaN NaN NaN NaN NaN NaN NaN 81.477 1 81.477 80.977 81.977 0 0 0 0 1.008 1 40589 40589 0.35063 0.081612 1 + 34655 16969 22025 22094 38979 38979 0.012088881796671558 VGPWRNWRWWQ 11 Unmodified _VGPWRNWRWWQ_ 0 0 0 REV__ENST00000510393.5_1_1:16083148-16084686:+|nuORF REV__ENST00000510393.5_1_1:16083148-16084686:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 785.8947143554688 2 785.894369 1569.77419 NaN NaN NaN NaN NaN NaN NaN 80.821 1 81.481 80.981 81.981 0.65998 0 0 0 1.008 1 37240 37240 0.35063 0.043601 1 + 34656 16969 22025 22094 38980 38980 0.012088881796671558 VGPWRTFM 8 Unmodified _VGPWRTFM_ 0 0 0 LTR12C_dup692|chr4:69114298-69115807:-|5.576688884045835|0.1619943684727404|5.11|537.0|29|3|sense LTR12C_dup692|chr4:69114298-69115807:-|5.576688884045835|0.1619943684727404|5.11|537.0|29|3|sense LTR12C_dup692|chr4:69114298-69115807:-|5.576688884045835|0.1619943684727404|5.11|537.0|29|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.25262451171875 2 497.25238 992.490207 NaN NaN NaN NaN NaN NaN NaN 12.478 1 13.121 12.621 13.621 0.64272 0 0 0 0.99035 1 5597 5597 2.8892 0.31174 1 34657 9491 22026 22095 38981 38981 -0.006338339091712442 VGPWWRSG 8 Unmodified _VGPWWRSG_ 0 0 0 REV__ENST00000311534.6_1_9:88889144-88896972:-|nuORF REV__ENST00000311534.6_1_9:88889144-88896972:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.7403869628906 2 472.740494 943.466435 NaN NaN NaN NaN NaN NaN NaN 13.332 1 13.639 13.139 14.139 0.30727 0 0 0 0.99035 1 6014 6014 0.79363 0 1 + 34658 15270 22027 22096 38982 38982 -0.007559313513411325 VGQCAVKEFL 10 Unmodified _VGQCAVKEFL_ 0 0 0 REV__ENSG00000165323|ENST00000525166|FAT3 REV__ENSG00000165323|ENST00000525166|FAT3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 547.2882690429688 2 547.289159 1092.56377 NaN NaN NaN NaN NaN NaN NaN 51.099 1 51.099 50.599 51.599 0 0 0 0 0.99733 1 23397 23397 3.9444 0 1 + 34659 13153 22028 22097 38983 38983 0.021186697426401224 VGQCCTSSYA 10 Unmodified _VGQCCTSSYA_ 0 0 0 ENSG00000081051|ENST00000395792|AFP ENSG00000081051|ENST00000395792|AFP ENSG00000081051|ENST00000395792|AFP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 340.1371154785156 3 340.137132 1017.38957 NaN NaN NaN NaN NaN NaN NaN 19.691 1 20.349 19.849 20.849 0.6583 0 0 0 1.0011 1 8937 8937 0.77653 0.31819 1 34660 917 22029 22098 38984 38984 -0.1184327874501605 VGQELYRFLV 10 Unmodified _VGQELYRFLV_ 0 0 0 ENST00000591756.1_1_17:76115376-76116864:-|nuORF;ENST00000589553.5_1_17:76116732-76116969:-|nuORF;ENST00000588087.5_1_17:76116732-76122925:-|nuORF;ENSG00000141524|ENST00000590602|TMC6 ENST00000591756.1_1_17:76115376-76116864:-|nuORF ENST00000591756.1_1_17:76115376-76116864:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 612.3458251953125 2 612.342781 1222.67101 2.0649 0.0012644 0.63001 0.00038578 2.6949 0.0016502 612.3452274009106 100.64 0.56 100.7 100.59 101.15 0.059715 81 29 6 0 0 0 0.90196 1 54621 54621 3.5965 1.9439 1 7948500 34661 3264 22030 22099 38985 38985 0.06857962948492968 VGQGCWPG 8 Unmodified _VGQGCWPG_ 0 0 0 ENST00000402119.8_1_19:16045502-16045571:-|nuORF ENST00000402119.8_1_19:16045502-16045571:-|nuORF ENST00000402119.8_1_19:16045502-16045571:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 402.18072509765625 2 402.178881 802.343209 NaN NaN NaN NaN NaN NaN NaN 16.993 1 17.193 16.693 17.693 0.20057 0 0 0 0.99035 1 7520 7520 2.5775 1.7838 1 34662 7614 22031 22100 38986 38986 -0.0658693079412842 VGQHSFHRRH 10 Unmodified _VGQHSFHRRH_ 0 0 0 REV__ENST00000380152.7_1_13:32972494-32972584:+|nuORF REV__ENST00000380152.7_1_13:32972494-32972584:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1261.6505126953125 1 1260.6457 1259.63842 2.2355 0.0028182 -0.053771 -6.7786E-05 2.1817 0.0027504 1261.6469534259684 104.12 0.04818 104.17 104.16 104.2 0.052994 6 3 2 0 0 0 0.94217 1 56404 56404 0.45834 0 1 1181600 + 34663 15880 22032 22101 38987 38987 0.018986133888802215 VGQHSFHRRH 10 Unmodified _VGQHSFHRRH_ 0 0 0 REV__ENST00000380152.7_1_13:32972494-32972584:+|nuORF REV__ENST00000380152.7_1_13:32972494-32972584:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 1260.6457 1259.63842 2.816 0.00355 2.6777 0.0033756 5.4937 0.0069256 1260.6469246275774 104.19 0.093407 104.19 104.15 104.24 0 -0.085192 0.0025135 NaN 0.45834 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1264600 + 34664 15880 22032 22101 0.018986133888802215 VGQHSFHRRH 10 Unmodified _VGQHSFHRRH_ 0 0 0 REV__ENST00000380152.7_1_13:32972494-32972584:+|nuORF REV__ENST00000380152.7_1_13:32972494-32972584:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 1260.6457 1259.63842 2.2355 0.0028182 -0.053771 -6.7786E-05 2.1817 0.0027504 1261.6469534259684 104.12 0.04818 104.17 104.16 104.2 0.052994 -0.10375 -0.00092992 NaN 0.45834 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1181600 + 34665 15880 22032 22101 0.018986133888802215 VGQHSFHRRH 10 Unmodified _VGQHSFHRRH_ 0 0 0 REV__ENST00000380152.7_1_13:32972494-32972584:+|nuORF REV__ENST00000380152.7_1_13:32972494-32972584:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 1260.6457 1259.63842 4.0129 0.0050589 0.30181 0.00038047 4.3148 0.0054394 1260.6453018110521 104.15 0.043839 104.47 104.45 104.49 0.31863 0.18894 -0.00048166 NaN 0.45834 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1922800 + 34666 15880 22032 22101 0.018986133888802215 VGQIGFHR 8 Unmodified _VGQIGFHR_ 0 0 0 ENST00000519299.1_1_8:27605547-27606050:-|nuORF;nc|ENSG00000147419|Q86WR0-2|CCDC25;ENSG00000147419|ENST00000356537|CCDC25 ENST00000519299.1_1_8:27605547-27606050:-|nuORF ENST00000519299.1_1_8:27605547-27606050:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 914.626708984375 1 913.500261 912.492984 3.0719 0.0028062 3.2656 0.0029832 6.3375 0.0057893 913.5019598409477 12.367 0.067368 12.674 12.653 12.72 0.30727 6 5 2 0 0 0 0.74071 1 5570 5570 2.5775 0 1 2804900 34667 3563 22033 22102 38988 38988 0.03323757539988037 VGQILWFRL 9 Unmodified _VGQILWFRL_ 0 0 0 REV__ENSG00000177291|ENST00000321660|GJD4 REV__ENSG00000177291|ENST00000321660|GJD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 566.44482421875 2 566.337301 1130.66005 NaN NaN NaN NaN NaN NaN NaN 17.135 1 17.439 16.939 17.939 0.30438 0 0 0 0.91206 1 7759 7759 0.6015 0 1 + 34668 13731 22034 22103 38989 38989 0.09994605364886411 VGQIRYGLII 10 Unmodified _VGQIRYGLII_ 0 0 0 REV__nc|ENSG00000122778|Q9HCM3-2|KIAA1549 REV__nc|ENSG00000122778|Q9HCM3-2|KIAA1549 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.34765625 2 566.347866 1130.68118 NaN NaN NaN NaN NaN NaN NaN 41.984 1 41.984 41.484 42.484 0 0 0 0 0.99983 1 19106 19106 1.8442 0 1 + 34669 11593 22035 22104 38990 38990 0.12106570673768147 VGQISFDLPR 10 Unmodified _VGQISFDLPR_ 0 0 0 ENSG00000141385|ENST00000269143|AFG3L2 ENSG00000141385|ENST00000269143|AFG3L2 ENSG00000141385|ENST00000269143|AFG3L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 566.3104858398438 2 566.31148 1130.60841 NaN NaN NaN NaN NaN NaN NaN 35.47 1 35.725 35.225 36.225 0.25524 0 0 0 1.0003 1 16159 16159 1.4819 0 1 34670 3248 22036 22105 38991 38991 0.04832816880320934 VGQKLKKW 8 Unmodified _VGQKLKKW_ 0 0 0 REV__ENSG00000121743|ENST00000241125|GJA3 REV__ENSG00000121743|ENST00000241125|GJA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 329.3247985839844 3 329.543038 985.607286 NaN NaN NaN NaN NaN NaN NaN 0.45413 1 0.84917 0.34917 1.3492 0.39503 0 0 0 0.99035 1 210 210 0.45834 0.057624 1 + 34671 11562 22037 22106 38992 38992 0.11390647302073376 VGQLHRLF 8 Unmodified _VGQLHRLF_ 0 0 0 REV__GSAP|p.N794Kfs*6|1|0.07|ENSG00000186088|chr7:77311932-77311933|-/GTAGACCC|frameshift_variant REV__GSAP|p.N794Kfs*6|1|0.07|ENSG00000186088|chr7:77311932-77311933|-/GTAGACCC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.29022216796875 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 51.215 1 52.032 51.532 52.532 0.81738 0 0 0 0.99035 1 23330 23330 2.8892 0.31174 1 + 34672 14042 22038 22107 38993 38993 0.07004903608174118 VGQLHRLF 8 Unmodified _VGQLHRLF_ 0 0 0 REV__GSAP|p.N794Kfs*6|1|0.07|ENSG00000186088|chr7:77311932-77311933|-/GTAGACCC|frameshift_variant REV__GSAP|p.N794Kfs*6|1|0.07|ENSG00000186088|chr7:77311932-77311933|-/GTAGACCC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.7359313964844 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 55.156 1 55.943 55.443 56.443 0.78711 0 0 0 0.99035 1 25177 25177 2.8892 0.58649 1 + 34673 14042 22038 22107 38994 38994 0.07004903608174118 VGQLHVRQIQ 10 Unmodified _VGQLHVRQIQ_ 0 0 0 REV__ENST00000521369.2_1_8:107284074-107284197:+|nuORF REV__ENST00000521369.2_1_8:107284074-107284197:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.3424682617188 2 589.343646 1176.67274 3.6569 0.0021552 -1.0526 -0.00062034 2.6043 0.0015348 589.3428007781714 85.853 1.1674 86.102 85.297 86.464 0.24857 90 61 2 0 0 0 0.93628 1 39279 39279 1.6526 0.17072 1 2003500 + 34674 17050 22039 22108 38995 38995 0.09147016757151505 VGQLRQEI 8 Unmodified _VGQLRQEI_ 0 0 0 REV__nc|ENSG00000175054|Q13535-2|ATR REV__nc|ENSG00000175054|Q13535-2|ATR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 314.8516845703125 3 314.85042 941.529429 NaN NaN NaN NaN NaN NaN NaN 14.315 1 14.963 14.463 15.463 0.6482 0 0 0 0.967 1 6442 6442 7.9102 1.7044 1 + 34675 13656 22040 22109 38996 38996 0.056325896460293734 VGQMRQFCL 9 Unmodified _VGQMRQFCL_ 0 0 0 REV__ENST00000464491.5_1_2:172180771-172182690:-|nuORF REV__ENST00000464491.5_1_2:172180771-172182690:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.2709350585938 2 541.267704 1080.52086 3.5994 0.0019482 1.892 0.0010241 5.4914 0.0029723 541.2686759926876 102.01 0.19219 102.61 102.51 102.7 0.59759 16 7 3 0 0 0 1.101 1 47221 47221 2.3027 1.5091 1 1215100 + 34676 16531 22041 22110 38997 38997 -0.01618423586432982 VGQPTSVHSKV 11 Unmodified _VGQPTSVHSKV_ 0 0 0 ENST00000425497.5_1_20:48892267-48894933:+|nuORF;ENST00000445003.5_1_20:48884168-48894933:+|nuORF;ENST00000422459.1_1_20:48892889-48894933:+|nuORF ENST00000425497.5_1_20:48892267-48894933:+|nuORF ENST00000425497.5_1_20:48892267-48894933:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.816650390625 2 569.814387 1137.61422 NaN NaN NaN NaN NaN NaN NaN 14.69 1 14.917 14.417 15.417 0.22622 0 0 0 1.0073 1 6461 6461 1.1933 0.59184 1 34677 7768 22042 22111 38998 38998 0.050919153919721793 VGQQNWVLH 9 Unmodified _VGQQNWVLH_ 0 0 0 REV__ENST00000596271.1_1_19:39875882-39875993:+|nuORF REV__ENST00000596271.1_1_19:39875882-39875993:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.7808837890625 2 540.78289 1079.55123 NaN NaN NaN NaN NaN NaN NaN 80.067 1 80.387 79.887 80.887 0.31998 0 0 0 0.90511 1 39138 39138 2.3027 0 1 + 34678 17612 22043 22112 38999 38999 0.014633943946137151 VGQQPLIA 8 Unmodified _VGQQPLIA_ 0 0 0 ENSG00000213699|ENST00000344420|SLC35F6 ENSG00000213699|ENST00000344420|SLC35F6 ENSG00000213699|ENST00000344420|SLC35F6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 413.24554443359375 2 413.245078 824.475603 2.8364 0.0011721 0.25903 0.00010704 3.0955 0.0012792 413.2450685445736 20.143 0.19427 20.143 20.051 20.245 0 35 21 2 0 0 0 0.64692 1 9006 9006 10.183 0 1 199180 34679 6095 22044 22113 39000 39000 0.05634417214332643 VGQRRWRRVQK 11 Unmodified _VGQRRWRRVQK_ 0 0 0 REV__ENSG00000169710|ENST00000306749|FASN REV__ENSG00000169710|ENST00000306749|FASN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 734.9405517578125 2 734.939642 1467.86473 NaN NaN NaN NaN NaN NaN NaN 42.882 1 43.529 43.029 44.029 0.64693 0 0 0 1.008 1 19651 19651 0.35063 0 1 + 34680 13399 22045 22114 39001 39001 0.14951357227960216 VGQRVKKQHH 10 Unmodified _VGQRVKKQHH_ 0 0 0 REV__ENST00000467785.5_1_7:158448006-158486027:-|nuORF REV__ENST00000467785.5_1_7:158448006-158486027:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1216.70556640625 1 1216.70215 1215.69487 3.1201 0.0037962 -0.47907 -0.00058288 2.641 0.0032134 1216.7004539218833 44.192 0.023403 44.192 44.185 44.208 0 5 3 2 0 0 0 0.94217 1 20181 20181 0.45834 0 1 6361900 + 34681 12488 22046 22115 39002 39002 0.0956524122555038 VGQSPAQQPF 10 Unmodified _VGQSPAQQPF_ 0 0 0 ENST00000490697.1_1_2:242208264-242208402:-|nuORF ENST00000490697.1_1_2:242208264-242208402:-|nuORF ENST00000490697.1_1_2:242208264-242208402:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.767578125 2 529.766906 1057.51926 NaN NaN NaN NaN NaN NaN NaN 46.61 1 47.262 46.762 47.762 0.65219 0 0 0 0.99225 1 21348 21348 6.7232 0.96273 1 34682 8391 22047 22116 39003 39003 -0.00720018079186957 VGQTLRYTV 9 Unmodified _VGQTLRYTV_ 0 0 0 REV__nc|ENSG00000144744|Q8TBC4-2|UBA3 REV__nc|ENSG00000144744|Q8TBC4-2|UBA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.794921875 2 518.792924 1035.57129 3.7081 0.0019237 -0.18989 -9.8514E-05 3.5182 0.0018252 518.7927997273351 45.998 0.36074 46.649 46.468 46.829 0.65104 29 10 4 0 0 0 0.95612 1 21152 21152 4.756 0 1 2761800 + 34683 12413 22048 22117 39004 39004 0.05493145334548899 VGQVRHVI 8 Unmodified _VGQVRHVI_ 0 0 0 REV__ENST00000579878.1_1_17:30219240-30228646:-|nuORF REV__ENST00000579878.1_1_17:30219240-30228646:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.2787170410156 2 454.277244 906.539935 NaN NaN NaN NaN NaN NaN NaN 69.012 1 69.267 68.767 69.767 0.25443 0 0 0 0.99035 1 31614 31614 6.3541 0 1 + 34684 11153 22049 22118 39005 39005 0.08292617091126431 VGQWHDPMYH 10 Unmodified _VGQWHDPMYH_ 0 0 0 REV__nc|ENSG00000198925|Q7Z3C6-3|ATG9A REV__nc|ENSG00000198925|Q7Z3C6-3|ATG9A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 635.2796020507812 2 635.277115 1268.53968 NaN NaN NaN NaN NaN NaN NaN 16.762 1 17.42 16.92 17.92 0.65798 0 0 0 1.0015 1 7556 7556 0.45834 0 1 + 34685 18104 22050 22119 39006 39006 -0.08385170691053645 VGQYLKKFRL 10 Unmodified _VGQYLKKFRL_ 0 0 0 ENSG00000184924|ENST00000328379|PTRHD1 ENSG00000184924|ENST00000328379|PTRHD1 ENSG00000184924|ENST00000328379|PTRHD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 625.947265625 2 626.38224 1250.74993 NaN NaN NaN NaN NaN NaN NaN 44.994 1 45.262 44.762 45.762 0.26768 0 0 0 1.0015 1 20566 20566 0.45834 0 1 34686 5469 22051 22120 39007 39007 0.1345823497345009 VGQYLVELMWF 11 Unmodified _VGQYLVELMWF_ 0 0 0 REV__nc|ENSG00000102181|Q8TCZ2-4|CD99L2 REV__nc|ENSG00000102181|Q8TCZ2-4|CD99L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 692.85498046875 2 692.852124 1383.68969 NaN NaN NaN NaN NaN NaN NaN 104.76 1 105.36 104.86 105.86 0.59885 0 0 0 1.0071 1 48392 48392 1.4819 0.28856 1 + 34687 17883 22052 22121 39008 39008 0.013197565280279377 VGQYRTIRDQ 10 Unmodified _VGQYRTIRDQ_ 0 0 0 REV__nc|ENSG00000070756|P11940-2|PABPC1 REV__nc|ENSG00000070756|P11940-2|PABPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1235.817138671875 1 1235.64911 1234.64183 3.5618 0.0044012 -0.37626 -0.00046492 3.1856 0.0039363 1235.6535194844048 40.406 0.050316 41.047 41.027 41.077 0.64135 5 4 2 0 0 0 0.89464 1 18482 18482 3.9444 0 1 1704000 + 34688 10481 22053 22122 39009 39009 0.03389818652226495 VGRARRRVH 9 Unmodified _VGRARRRVH_ 0 0 0 nc|ENSG00000148357|Q8NDA2-4|HMCN2;nc|ENSG00000148357|Q8NDA2-1|HMCN2;ENSG00000148357|ENST00000683500|HMCN2 nc|ENSG00000148357|Q8NDA2-4|HMCN2 nc|ENSG00000148357|Q8NDA2-4|HMCN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.841796875 2 553.841939 1105.66933 NaN NaN NaN NaN NaN NaN NaN 31.128 1 31.128 30.628 31.628 0 0 0 0 0.91206 1 14077 14077 0.6015 0 1 34689 3601 22054 22123 39010 39010 0.12071811493774476 VGRATPPVPLI 11 Unmodified _VGRATPPVPLI_ 0 0 0 ENST00000509688.5_1_4:113236981-113303765:+|nuORF ENST00000509688.5_1_4:113236981-113303765:+|nuORF ENST00000509688.5_1_4:113236981-113303765:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.3455810546875 2 560.347866 1118.68118 NaN NaN NaN NaN NaN NaN NaN 82.422 1 82.669 82.169 83.169 0.24722 0 0 0 1.0073 1 37940 37940 1.1933 0.59184 1 34690 8546 22055 22124 39011 39011 0.12658570673738723 VGRATRRP 8 Unmodified _VGRATRRP_ 0 0 0 ENST00000539783.5_2_2:172290890-172291124:+|nuORF ENST00000539783.5_2_2:172290890-172291124:+|nuORF ENST00000539783.5_2_2:172290890-172291124:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 304.864501953125 3 304.854387 911.541332 NaN NaN NaN NaN NaN NaN NaN 38.474 1 38.474 37.974 38.974 0 0 0 0 0.99035 1 17462 17462 1.1933 0 1 34691 8796 22056 22125 39012 39012 0.08202251179875475 VGRCWWKIYTE 11 Unmodified _VGRCWWKIYTE_ 0 0 0 REV__ENSG00000178789|ENST00000392621|CD300LB REV__ENSG00000178789|ENST00000392621|CD300LB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 720.8563232421875 2 720.858272 1439.70199 NaN NaN NaN NaN NaN NaN NaN 94.65 1 95.268 94.768 95.768 0.61736 0 0 0 1.008 1 43529 43529 0.35063 0 1 + 34692 13771 22057 22126 39013 39013 -0.0002720700890677108 VGRDLLRI 8 Unmodified _VGRDLLRI_ 0 0 0 ENST00000251269.9_1_19:44471378-44471552:+|nuORF ENST00000251269.9_1_19:44471378-44471552:+|nuORF ENST00000251269.9_1_19:44471378-44471552:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 471.2989807128906 2 471.298176 940.581799 2.9596 0.0013949 -0.1698 -8.0025E-05 2.7898 0.0013149 471.2981267533219 21.871 0.24239 21.871 21.745 21.987 0 34 20 2 0 0 0 0.73686 1 9791 9791 2.8892 0 1 141500 34693 6503 22058 22127 39014 39014 0.1091317277964663 VGRDLLRI 8 Unmodified _VGRDLLRI_ 0 0 0 ENST00000251269.9_1_19:44471378-44471552:+|nuORF ENST00000251269.9_1_19:44471378-44471552:+|nuORF ENST00000251269.9_1_19:44471378-44471552:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 471.298176 940.581799 3.0738 0.0014487 0.068465 3.2267E-05 3.1422 0.0014809 471.29821663622215 20.83 0.23532 21.483 21.34 21.576 0.65346 -0.19364 9.5901E-05 NaN 2.8892 31 17 2 NaN NaN NaN NaN 0 NaN NaN 0 324710 34694 6503 22058 22127 0.1091317277964663 VGRDRRRDA 9 Unmodified _VGRDRRRDA_ 0 0 0 REV__ENST00000223357.7_1_7:44144296-44144407:+|nuORF REV__ENST00000223357.7_1_7:44144296-44144407:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.8046264648438 2 550.80522 1099.59589 NaN NaN NaN NaN NaN NaN NaN 46.975 1 47.804 47.304 48.304 0.82915 0 0 0 0.91206 1 21399 21399 0.6015 0 1 + 34695 14833 22059 22128 39015 39015 0.05007218260652735 VGREALFLKL 10 Unmodified _VGREALFLKL_ 0 0 0 nc|nan|Q8NAV2-2|C8orf58;ENSG00000241852|ENST00000289989|C8orf58 nc|nan|Q8NAV2-2|C8orf58 nc|nan|Q8NAV2-2|C8orf58 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.3555297851562 2 573.355691 1144.69683 NaN NaN NaN NaN NaN NaN NaN 15.824 1 16.035 15.535 16.535 0.21108 0 0 0 1.0015 1 6985 6985 0.45834 0 1 34696 6227 22060 22129 39016 39016 0.1302685719076635 VGREELHRIL 10 Unmodified _VGREELHRIL_ 0 0 0 REV__ENSG00000102886|ENST00000406256|GDPD3 REV__ENSG00000102886|ENST00000406256|GDPD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.3597412109375 2 611.356754 1220.69895 3.7387 0.0022857 -0.87132 -0.00053269 2.8674 0.001753 611.3561401813841 90.557 0.7998 91.229 91.062 91.862 0.67271 80 41 2 0 0 0 0.94217 1 41938 41938 0.45834 0 1 2189400 + 34697 10947 22061 22130 39017 39017 0.09743285928584555 VGREHRFRNF 10 Unmodified _VGREHRFRNF_ 0 0 0 ENSG00000102452|ENST00000251127|NALCN ENSG00000102452|ENST00000251127|NALCN ENSG00000102452|ENST00000251127|NALCN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 659.3494873046875 2 659.349794 1316.68504 NaN NaN NaN NaN NaN NaN NaN 91.703 1 91.955 91.455 92.455 0.25242 0 0 0 1.0015 1 42164 42164 0.45834 0 1 34698 1345 22062 22131 39018 39018 0.03936053220172653 VGREIRWKVMR 11 Unmodified _VGREIRWKVMR_ 0 0 0 REV__ENSG00000138411|ENST00000644978|HECW2 REV__ENSG00000138411|ENST00000644978|HECW2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 715.4127197265625 2 715.41408 1428.81361 NaN NaN NaN NaN NaN NaN NaN 94.16 1 94.16 93.66 94.66 0 0 0 0 1.0073 1 50431 50431 1.1933 0.23107 1 + 34699 12166 22063 22132 39019 39019 0.11635272138869368 VGREKWLQ 8 Unmodified _VGREKWLQ_ 0 0 0 REV__ENST00000477288.5_1_6:30882610-30884901:+|nuORF REV__ENST00000477288.5_1_6:30882610-30884901:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1015.9104614257812 1 1015.56834 1014.56106 3.5693 0.0036249 -2.9519 -0.0029979 0.61744 0.00062705 1016.5662384512201 38.73 0.1165 39.527 39.418 39.534 0.79762 5 4 2 0 0 0 0.14333 1 17499 17499 0.79363 0 1 167710 + 34700 12111 22064 22133 39020 39020 0.054365823999773966 VGREPKRLGR 10 Unmodified _VGREPKRLGR_ 0 0 0 REV__nc|ENSG00000174547|Q9Y3B7-2|MRPL11 REV__nc|ENSG00000174547|Q9Y3B7-2|MRPL11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 584.3607177734375 2 584.357088 1166.69962 NaN NaN NaN NaN NaN NaN NaN 86.911 1 87.161 86.661 87.661 0.24974 0 0 0 1.0015 1 40006 40006 0.45834 0 1 + 34701 18050 22065 22134 39021 39021 0.122941253683166 VGREPKRLGR 10 Unmodified _VGREPKRLGR_ 0 0 0 REV__nc|ENSG00000174547|Q9Y3B7-2|MRPL11 REV__nc|ENSG00000174547|Q9Y3B7-2|MRPL11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.3576049804688 2 584.357088 1166.69962 3.6914 0.0021571 -0.88943 -0.00051975 2.8019 0.0016373 584.356510902898 85.392 1.0548 86.057 85.471 86.526 0.66566 91 50 2 0 0 0 0.93628 1 39296 39296 1.6526 0.17072 1 1243800 + 34702 18050 22065 22134 39022 39022 0.122941253683166 VGREPLRFRHM 11 Unmodified _VGREPLRFRHM_ 0 0 0 REV__ENST00000378026.4_3_12:106631868-106632117:-|nuORF REV__ENST00000378026.4_3_12:106631868-106632117:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.5908508300781 3 466.590945 1396.75101 NaN NaN NaN NaN NaN NaN NaN 53.074 1 53.877 53.377 54.377 0.80351 0 0 0 1.0072 1 24189 24189 0.45452 0 1 + 34703 15843 22066 22135 39023 39023 0.06850126070708029 VGREQGHVRE 10 Unmodified _VGREQGHVRE_ 0 0 0 ENST00000367595.3_1_1:180471306-180471588:-|nuORF ENST00000367595.3_1_1:180471306-180471588:-|nuORF ENST00000367595.3_1_1:180471306-180471588:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.8056640625 2 583.804885 1165.59522 3.704 0.0021624 -2.2429 -0.0013094 1.4611 0.00085299 583.8034887410779 19.37 0.30656 20.028 19.829 20.136 0.65829 31 21 2 0 0 0 0.93584 1 8770 8770 1.4819 0.79152 1 305590 34704 7268 22067 22136 39024 39024 0.01904378820927377 VGREQGHVRE 10 Unmodified _VGREQGHVRE_ 0 0 0 ENST00000367595.3_1_1:180471306-180471588:-|nuORF ENST00000367595.3_1_1:180471306-180471588:-|nuORF ENST00000367595.3_1_1:180471306-180471588:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 583.804885 1165.59522 3.2852 0.0019179 -2.1574 -0.0012595 1.1278 0.00065839 583.8033794598259 19.728 0.14339 20.02 19.914 20.057 0.29239 -0.0038574 7.0973E-05 NaN 1.4819 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 217080 34705 7268 22067 22136 0.01904378820927377 VGREQGHVRE 10 Unmodified _VGREQGHVRE_ 0 0 0 ENST00000367595.3_1_1:180471306-180471588:-|nuORF ENST00000367595.3_1_1:180471306-180471588:-|nuORF ENST00000367595.3_1_1:180471306-180471588:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 583.804885 1165.59522 3.704 0.0021624 -2.2429 -0.0013094 1.4611 0.00085299 583.8034887410779 19.37 0.30656 20.028 19.829 20.136 0.65829 0.0038574 -2.882E-05 NaN 1.4819 31 21 2 NaN NaN NaN NaN 0 NaN NaN 0 305590 34706 7268 22067 22136 0.01904378820927377 VGRESDRMYH 10 Unmodified _VGRESDRMYH_ 0 0 0 REV__ENSG00000039123|ENST00000230640|MTREX REV__ENSG00000039123|ENST00000230640|MTREX MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 625.1489868164062 2 625.290753 1248.56695 NaN NaN NaN NaN NaN NaN NaN 85.151 1 85.816 85.316 86.316 0.66566 0 0 0 0.99774 1 39214 39214 3.5965 0.60125 1 + 34707 10310 22068 22137 39025 39025 -0.047386871506432726 VGRGIVDKPDY 11 Unmodified _VGRGIVDKPDY_ 0 0 0 REV__ENST00000483578.1_1_16:30759640-30762664:+|nuORF REV__ENST00000483578.1_1_16:30759640-30762664:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 609.4815673828125 2 609.827495 1217.64044 NaN NaN NaN NaN NaN NaN NaN 85.283 1 85.948 85.448 86.448 0.66566 0 0 0 1.0072 1 39273 39273 1.3295 0.13619 1 + 34708 12786 22069 22138 39026 39026 0.04032184563470764 VGRGRKKE 8 Unmodified _VGRGRKKE_ 0 0 0 ENST00000566936.5_2_16:57513624-57513690:-|nuORF ENST00000566936.5_2_16:57513624-57513690:-|nuORF ENST00000566936.5_2_16:57513624-57513690:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.2868957519531 2 465.2856 928.556647 2.7124 0.0012621 0.54056 0.00025152 3.253 0.0015136 465.2858130744275 84.186 0.33363 84.434 84.25 84.584 0.24757 29 17 2 0 0 0 0.74071 2 38703 38703;38768 2.5775 0.51773 1 760310 34709 9057 22070 22139 39027;39028 39027 0.08951117977073864 VGRGRKKE 8 Unmodified _VGRGRKKE_ 0 0 0 ENST00000566936.5_2_16:57513624-57513690:-|nuORF ENST00000566936.5_2_16:57513624-57513690:-|nuORF ENST00000566936.5_2_16:57513624-57513690:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.28631591796875 2 465.2856 928.556647 2.941 0.0013684 -0.10729 -4.9923E-05 2.8337 0.0013185 465.28549489981765 83.85 0.31788 84.512 84.328 84.646 0.66219 32 20 3 0 0 0 0.74071 2 38577 38577;38674 2.5775 0.27475 1 1190500 34710 9057 22070 22139 39029;39030 39029 0.08951117977073864 VGRGRRWA 8 Unmodified _VGRGRRWA_ 0 0 0 REV__ENST00000374980.2_1_20:32700034-32700091:-|nuORF REV__ENST00000374980.2_1_20:32700034-32700091:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.2789306640625 2 479.278109 956.541666 3.3263 0.0015942 -0.51714 -0.00024785 2.8091 0.0013464 479.2779027838842 101.45 0.24586 102.04 101.92 102.17 0.59717 16 9 2 0 0 0 0.7471 1 46972 46972 0.79363 0 1 1407700 + 34711 15796 22071 22140 39031 39031 0.06165670899736142 VGRGRTWLR 9 Unmodified _VGRGRTWLR_ 0 0 0 ENST00000604430.1_1_16:29367173-29380937:+|nuORF ENST00000604430.1_1_16:29367173-29380937:+|nuORF ENST00000604430.1_1_16:29367173-29380937:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.2821044921875 2 550.825424 1099.63629 NaN NaN NaN NaN NaN NaN NaN 79.747 1 80.407 79.907 80.907 0.66082 0 0 0 0.89683 1 36745 36745 4.3292 0 1 34712 9309 22072 22141 39032 39032 0.09046184651060685 VGRGWRRQ 8 Unmodified _VGRGWRRQ_ 0 0 0 REV__L1PA4_dup1628|chr2:208784257-208790424:+|1.0623077957396911|0.1813551409053674|2.55|524.0|130|3|sense REV__L1PA4_dup1628|chr2:208784257-208790424:+|1.0623077957396911|0.1813551409053674|2.55|524.0|130|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1015.4052124023438 1 1014.57041 1013.56313 3.5731 0.0036251 -0.15551 -0.00015777 3.4176 0.0034674 1014.570521206702 39.105 0.12614 39.903 39.818 39.944 0.79762 6 5 2 0 0 0 0.7471 1 17702 17702 0.79363 0 1 189860 + 34713 17786 22073 22142 39033 39033 0.05689055928462494 VGRHLQRQL 9 Unmodified _VGRHLQRQL_ 0 0 0 ENST00000483405.5_2_16:29911714-29911888:+|nuORF ENST00000483405.5_2_16:29911714-29911888:+|nuORF ENST00000483405.5_2_16:29911714-29911888:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.8321533203125 2 553.830706 1105.64686 3.599 0.0019932 -1.0111 -0.00055996 2.5879 0.0014333 553.8300848557977 84.721 0.55695 84.968 84.806 85.363 0.24757 45 28 2 0 0 0 1.2078 1 38975 38975 0.6015 0 1 674960 34714 8310 22074 22143 39034 39034 0.09826167305504896 VGRHLQRQL 9 Unmodified _VGRHLQRQL_ 0 0 0 ENST00000483405.5_2_16:29911714-29911888:+|nuORF ENST00000483405.5_2_16:29911714-29911888:+|nuORF ENST00000483405.5_2_16:29911714-29911888:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.8325805664062 2 553.830706 1105.64686 NaN NaN NaN NaN NaN NaN NaN 85.271 1 85.52 85.02 86.02 0.24857 0 0 0 0.91206 1 39241 39241 0.6015 0 1 34715 8310 22074 22143 39035 39035 0.09826167305504896 VGRHLWYRSRF 11 Unmodified _VGRHLWYRSRF_ 0 0 0 REV__L1ME3A_dup1407|chr2:34736108-34736263:-|1.5285646076903014|0.1479222107584751|3.37|525.0|2|1|sense REV__L1ME3A_dup1407|chr2:34736108-34736263:-|1.5285646076903014|0.1479222107584751|3.37|525.0|2|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 739.1060180664062 2 738.902194 1475.78984 NaN NaN NaN NaN NaN NaN NaN 103.99 1 104.04 103.54 104.54 0.052994 0 0 0 1.008 1 56332 56332 0.35063 0.043601 1 + 34716 17767 22075 22144 39036 39036 0.07097174696718866 VGRHQRGR 8 Unmodified _VGRHQRGR_ 0 0 0 nc|ENSG00000107282|Q02410-2|APBA1;ENSG00000107282|ENST00000265381|APBA1 nc|ENSG00000107282|Q02410-2|APBA1 nc|ENSG00000107282|Q02410-2|APBA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.27996826171875 2 483.278641 964.542729 3.5212 0.0017017 0.38705 0.00018706 3.9082 0.0018888 483.2785879962439 90.965 0.77222 91.217 90.837 91.61 0.25163 83 38 3 0 0 0 0.7471 1 41763 41763 0.79363 0 1 3251300 34717 1595 22076 22145 39037 39037 0.059038852686512655 VGRIHPIL 8 Unmodified _VGRIHPIL_ 0 0 0 ENST00000372564.7_1_9:131770823-131770958:-|nuORF ENST00000372564.7_1_9:131770823-131770958:-|nuORF ENST00000372564.7_1_9:131770823-131770958:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.7892761230469 2 452.789987 903.565421 NaN NaN NaN NaN NaN NaN NaN 78.029 1 78.282 77.782 78.782 0.25335 0 0 0 0.99035 1 35935 35935 0.79363 0 1 34718 7337 22077 22146 39038 39038 0.10978091613560537 VGRIHRHL 8 Unmodified _VGRIHRHL_ 0 0 0 ENSG00000164032|ENST00000296417|H2AZ1;ENSG00000105968|ENST00000308153|H2AZ2;ENST00000511319.5_1_4:100869621-100871200:-|nuORF;nc|ENSG00000105968|Q71UI9-5|H2AZ2;nc|ENSG00000105968|Q71UI9-4|H2AZ2;nc|ENSG00000105968|Q71UI9-2|H2AZ2;ENST00000511348.1_1_4:100870420-100870579:-|nuORF;ENST00000511203.1_1_4:100869836-100870579:-|nuORF ENSG00000164032|ENST00000296417|H2AZ1 ENSG00000164032|ENST00000296417|H2AZ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.302490234375 2 494.301585 986.588616 2.0609 0.0010187 -0.66161 -0.00032703 1.3993 0.00069168 494.3011090171645 93.51 0.35022 93.596 93.46 93.81 0.086212 123 45 4 0 0 0 0.7471 1 48996 48996 0.79363 0.79363 1 45980000 34719 1543 22078 22147 39039 39039 0.09478530450871858 VGRIHRHL 8 Unmodified _VGRIHRHL_ 0 0 0 ENSG00000164032|ENST00000296417|H2AZ1;ENSG00000105968|ENST00000308153|H2AZ2;ENST00000511319.5_1_4:100869621-100871200:-|nuORF;nc|ENSG00000105968|Q71UI9-5|H2AZ2;nc|ENSG00000105968|Q71UI9-4|H2AZ2;nc|ENSG00000105968|Q71UI9-2|H2AZ2;ENST00000511348.1_1_4:100870420-100870579:-|nuORF;ENST00000511203.1_1_4:100869836-100870579:-|nuORF ENSG00000164032|ENST00000296417|H2AZ1 ENSG00000164032|ENST00000296417|H2AZ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.3027038574219 2 494.301585 986.588616 3.8018 0.0018792 -1.0906 -0.00053906 2.7113 0.0013402 494.3010465180928 93.365 0.67335 93.62 93.308 93.981 0.25497 116 32 5 0 0 0 0.73686 1 42824 42824 2.8892 0.31174 1 63202000 34720 1543 22078 22147 39040 39040 0.09478530450871858 VGRILLVVLML 11 Unmodified _VGRILLVVLML_ 0 0 0 REV__nc|ENSG00000010379|Q9NSD5-2|SLC6A13 REV__nc|ENSG00000010379|Q9NSD5-2|SLC6A13 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 613.4067993164062 2 613.406869 1224.79919 NaN NaN NaN NaN NaN NaN NaN 109.91 1 110.51 110.01 111.01 0.60264 0 0 0 1.008 1 50683 50683 0.35063 0 1 + 34721 10226 22079 22148 39041 39041 0.1957780693805944 VGRIPLQRLKL 11 Unmodified _VGRIPLQRLKL_ 0 0 0 nc|ENSG00000293552|Q9H3R0-3|KDM4C;nc|ENSG00000293552|Q9H3R0-4|KDM4C;nc|ENSG00000293552|Q9H3R0-2|KDM4C;ENSG00000107077|ENST00000381309|KDM4C nc|ENSG00000293552|Q9H3R0-3|KDM4C nc|ENSG00000293552|Q9H3R0-3|KDM4C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 646.9295654296875 2 646.929889 1291.84522 NaN NaN NaN NaN NaN NaN NaN 61.592 1 61.844 61.344 62.344 0.25245 0 0 0 1.008 1 28206 28206 0.35063 0 1 34722 1588 22080 22149 39042 39042 0.2109758816447993 VGRIREQQL 9 Unmodified _VGRIREQQL_ 0 0 0 ENSG00000102359|ENST00000373004|SRPX2 ENSG00000102359|ENST00000373004|SRPX2 ENSG00000102359|ENST00000373004|SRPX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.8211669921875 2 549.822547 1097.63054 NaN NaN NaN NaN NaN NaN NaN 18.012 1 18.213 17.713 18.713 0.20057 0 0 0 0.91206 1 7993 7993 0.6015 0 1 34723 1343 22081 22150 39043 39043 0.08563041348747902 VGRITKWK 8 Unmodified _VGRITKWK_ 0 0 0 ERN1|p.I849*|1|0.28|ENSG00000178607|chr17:64045467-64045467|T/-|frameshift_variant;ENSG00000178607|ENST00000433197|ERN1 ERN1|p.I849*|1|0.28|ENSG00000178607|chr17:64045467-64045467|T/-|frameshift_variant ERN1|p.I849*|1|0.28|ENSG00000178607|chr17:64045467-64045467|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 494.3070373535156 2 494.308544 986.602535 NaN NaN NaN NaN NaN NaN NaN 102.04 1 102.64 102.14 103.14 0.59759 0 0 0 0.99035 1 47240 47240 0.79363 0 1 34724 5174 22082 22151 39044 39044 0.10869763159314516 VGRKIICKL 9 Unmodified _VGRKIICKL_ 0 0 0 nc|ENSG00000197658|Q8N4F4-1|SLC22A24;nc|ENSG00000197658|Q8N4F4-3|SLC22A24;ENSG00000197658|ENST00000612278|SLC22A24 nc|ENSG00000197658|Q8N4F4-1|SLC22A24 nc|ENSG00000197658|Q8N4F4-1|SLC22A24 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 343.8919677734375 3 343.891562 1028.65286 NaN NaN NaN NaN NaN NaN NaN 6.6125 1 6.6125 6.1125 7.1125 0 0 0 0 0.91342 1 2994 2994 0.26902 0 1 34725 5833 22083 22152 39045 39045 0.13967549492826947 VGRKIPNQ 8 Unmodified _VGRKIPNQ_ 0 0 0 ENST00000533486.5_1_11:82745302-82782798:-|nuORF;ENST00000533276.6_1_11:82745803-82782798:-|nuORF;ENST00000534141.5_1_11:82708357-82782843:-|nuORF ENST00000533486.5_1_11:82745302-82782798:-|nuORF ENST00000533486.5_1_11:82745302-82782798:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.275390625 2 456.274701 910.534849 2.8038 0.0012793 0.61072 0.00027866 3.4145 0.0015579 456.2750747987906 14.89 0.40531 14.89 14.755 15.161 0 66 46 2 0 0 0 0.74071 1 6633 6633 2.5775 0 1 141110 34726 8743 22084 22153 39046 39046 0.07600313228510913 VGRKISQR 8 Unmodified _VGRKISQR_ 0 0 0 ENSG00000122033|ENST00000381120|MTIF3 ENSG00000122033|ENST00000381120|MTIF3 ENSG00000122033|ENST00000381120|MTIF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.2938232421875 2 472.293425 942.572297 NaN NaN NaN NaN NaN NaN NaN 102.03 1 102.03 101.53 102.53 0 0 0 0 0.99035 1 56357 56357 0.79363 0 1 34727 2253 22085 22154 39047 39047 0.09871404494140279 VGRKIWHRT 9 Unmodified _VGRKIWHRT_ 0 0 0 REV__nc|ENSG00000174844|Q6ZR08|DNAH12 REV__nc|ENSG00000174844|Q6ZR08|DNAH12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 576.8406372070312 2 576.841074 1151.66759 NaN NaN NaN NaN NaN NaN NaN 28.905 1 29.523 29.023 30.023 0.61789 0 0 0 0.91206 1 13253 13253 0.6015 0.076735 1 + 34728 13648 22086 22155 39048 39048 0.09782757685161414 VGRKKKLQ 8 Unmodified _VGRKKKLQ_ 0 0 0 REV__ENST00000476985.5_1_12:3921210-3931106:-|nuORF REV__ENST00000476985.5_1_12:3921210-3931106:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.8262634277344 2 478.821818 955.629084 NaN NaN NaN NaN NaN NaN NaN 12.721 1 13.028 12.528 13.528 0.30727 0 0 0 0.99035 1 5740 5740 0.79363 0 1 + 34729 11223 22087 22156 39049 39049 0.14949452050655054 VGRKKKLQ 8 Unmodified _VGRKKKLQ_ 0 0 0 REV__ENST00000476985.5_1_12:3921210-3931106:-|nuORF REV__ENST00000476985.5_1_12:3921210-3931106:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.824462890625 2 478.821818 955.629084 NaN NaN NaN NaN NaN NaN NaN 92.448 1 93.095 92.595 93.595 0.64714 0 0 0 0.99035 1 42534 42534 0.79363 0 1 + 34730 11223 22087 22156 39050 39050 0.14949452050655054 VGRKKKLQ 8 Unmodified _VGRKKKLQ_ 0 0 0 REV__ENST00000476985.5_1_12:3921210-3931106:-|nuORF REV__ENST00000476985.5_1_12:3921210-3931106:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.8236389160156 2 478.821818 955.629084 NaN NaN NaN NaN NaN NaN NaN 101.83 1 102.43 101.93 102.93 0.59717 0 0 0 0.99035 1 47146 47146 0.79363 0 1 + 34731 11223 22087 22156 39051 39051 0.14949452050655054 VGRKKKWLQ 9 Unmodified _VGRKKKWLQ_ 0 0 0 REV__ENSG00000181649|ENST00000314222|PHLDA2 REV__ENSG00000181649|ENST00000314222|PHLDA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.9736328125 2 571.861475 1141.7084 NaN NaN NaN NaN NaN NaN NaN 15.667 1 15.878 15.378 16.378 0.21108 0 0 0 0.91206 1 6914 6914 0.6015 0.14316 1 + 34732 13861 22088 22157 39052 39052 0.14321099004791904 VGRKKKWLQF 10 Unmodified _VGRKKKWLQF_ 0 0 0 REV__ENSG00000181649|ENST00000314222|PHLDA2 REV__ENSG00000181649|ENST00000314222|PHLDA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 645.3968505859375 2 645.395682 1288.77681 NaN NaN NaN NaN NaN NaN NaN 59.511 1 60.176 59.676 60.676 0.66503 0 0 0 1.0015 1 27243 27243 0.45834 0 1 + 34733 13861 22089 22158 39053 39053 0.1439734358464193 VGRKKWKSSFQ 11 Unmodified _VGRKKWKSSFQ_ 0 0 0 ENSG00000136696|ENST00000259213|IL36B ENSG00000136696|ENST00000259213|IL36B ENSG00000136696|ENST00000259213|IL36B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 676.1907348632812 2 675.885678 1349.7568 NaN NaN NaN NaN NaN NaN NaN 20.327 1 20.98 20.48 21.48 0.65346 0 0 0 1.008 1 9230 9230 0.35063 0 1 34734 2964 22090 22159 39054 39054 0.09591547854029159 VGRKNKSK 8 Unmodified _VGRKNKSK_ 0 0 0 REV__ENST00000526955.1_1_11:125281302-125301285:+|nuORF REV__ENST00000526955.1_1_11:125281302-125301285:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 458.78924560546875 2 458.787976 915.561398 2.3206 0.0010647 0.28341 0.00013003 2.604 0.0011947 458.788001591379 89.094 0.38483 89.094 88.882 89.267 0 120 57 3 0 0 0 0.7471 2 46314 46314;46463 0.79363 0 1 33836000 + 34735 13163 22091 22160 39055;39056 39055 0.10024002119848774 VGRKNKSK 8 Unmodified _VGRKNKSK_ 0 0 0 REV__ENST00000526955.1_1_11:125281302-125301285:+|nuORF REV__ENST00000526955.1_1_11:125281302-125301285:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 916.575439453125 1 916.568675 915.561398 4.1295 0.003785 0.54014 0.00049507 4.6697 0.0042801 916.5688253573519 88.42 0.30502 88.672 88.56 88.865 0.25118 30 14 3 0 0 0 0.7471 2 40664 40664;40718 0.79363 0 1 1838800 + 34736 13163 22091 22160 39057;39058 39057 0.10024002119848774 VGRKNKSK 8 Unmodified _VGRKNKSK_ 0 0 0 REV__ENST00000526955.1_1_11:125281302-125301285:+|nuORF REV__ENST00000526955.1_1_11:125281302-125301285:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 916.5709228515625 1 916.568675 915.561398 4.0464 0.0037088 0.21693 0.00019883 4.2633 0.0039076 916.5687074458122 88.04 0.27526 88.719 88.603 88.878 0.67818 22 12 2 0 0 0 0.7471 2 40549 40549;40595 0.79363 0 1 1460900 + 34737 13163 22091 22160 39059;39060 39059 0.10024002119848774 VGRKNKSK 8 Unmodified _VGRKNKSK_ 0 0 0 REV__ENST00000526955.1_1_11:125281302-125301285:+|nuORF REV__ENST00000526955.1_1_11:125281302-125301285:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 916.568675 915.561398 4.1295 0.003785 0.54014 0.00049507 4.6697 0.0042801 916.5688253573519 88.42 0.30502 88.672 88.56 88.865 0.25118 -0.023459 0.00018276 NaN 0.79363 30 14 3 NaN NaN NaN NaN 0 NaN NaN 0 1838800 + 34738 13163 22091 22160 0.10024002119848774 VGRKNKSK 8 Unmodified _VGRKNKSK_ 0 0 0 REV__ENST00000526955.1_1_11:125281302-125301285:+|nuORF REV__ENST00000526955.1_1_11:125281302-125301285:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 916.568675 915.561398 4.0464 0.0037088 0.21693 0.00019883 4.2633 0.0039076 916.5687074458122 88.04 0.27526 88.719 88.603 88.878 0.67818 0.023459 -0.00011349 NaN 0.79363 22 12 2 NaN NaN NaN NaN 0 NaN NaN 0 1460900 + 34739 13163 22091 22160 0.10024002119848774 VGRKQLLQ 8 Unmodified _VGRKQLLQ_ 0 0 0 REV__nc|nan|Q6P387-2|C16orf46 REV__nc|nan|Q6P387-2|C16orf46 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.2998046875 2 471.298176 940.581799 3.0738 0.0014487 0.068465 3.2267E-05 3.1422 0.0014809 471.29821663622215 20.83 0.23532 21.483 21.34 21.576 0.65346 31 17 2 0 0 0 0.73686 1 9474 9474 2.8892 0 1 324710 + 34740 13243 22092 22161 39061 39061 0.10913172779669367 VGRKQRRPL 9 Unmodified _VGRKQRRPL_ 0 0 0 REV__ENSG00000178093|ENST00000585580|TSSK6 REV__ENSG00000178093|ENST00000585580|TSSK6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.3563232421875 2 555.354348 1108.69414 3.7255 0.002069 1.3299 0.00073855 5.0554 0.0028076 555.3549733826185 102.32 0.16961 102.92 102.87 103.04 0.59759 11 6 3 0 0 0 1.2078 1 47373 47373 0.6015 0 1 248150 + 34741 13752 22093 22162 39062 39062 0.14414446576506634 VGRKRKRK 8 Unmodified _VGRKRKRK_ 0 0 0 REV__ENSG00000096401|ENST00000371477|CDC5L REV__ENSG00000096401|ENST00000371477|CDC5L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.9641723632812 2 514.351609 1026.68866 NaN NaN NaN NaN NaN NaN NaN 59.864 1 59.864 59.364 60.364 0 0 0 0 0.99035 1 27694 27694 0.79363 0.10326 1 + 34742 10774 22094 22163 39063 39063 0.17638767784683296 VGRKRKRKKQ 10 Unmodified _VGRKRKRKKQ_ 0 0 0 REV__ENSG00000096401|ENST00000371477|CDC5L REV__ENSG00000096401|ENST00000371477|CDC5L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 642.0261840820312 2 642.428379 1282.8422 NaN NaN NaN NaN NaN NaN NaN 95.225 1 95.492 94.992 95.992 0.2675 0 0 0 1.0015 1 43754 43754 0.45834 0 1 + 34743 10774 22095 22164 39064 39064 0.21209757830342824 VGRKRKRKKQI 11 Unmodified _VGRKRKRKKQI_ 0 0 0 REV__ENSG00000096401|ENST00000371477|CDC5L REV__ENSG00000096401|ENST00000371477|CDC5L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 698.9674072265625 2 698.970411 1395.92627 NaN NaN NaN NaN NaN NaN NaN 42.772 1 42.772 42.272 43.272 0 0 0 0 1.008 1 19473 19473 0.35063 0.35063 1 + 34744 10774 22096 22165 39065 39065 0.24414288927255257 VGRKRKRPRKL 11 Unmodified _VGRKRKRPRKL_ 0 0 0 REV__ENST00000604872.5_1_4:153456099-153456309:-|nuORF REV__ENST00000604872.5_1_4:153456099-153456309:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 697.4715576171875 2 697.470578 1392.9266 NaN NaN NaN NaN NaN NaN NaN 60.25 1 60.506 60.006 61.006 0.25578 0 0 0 1.008 1 27588 27588 0.35063 0.35063 1 + 34745 17657 22097 22166 39066 39066 0.24585708647100546 VGRKRKRPRKL 11 Unmodified _VGRKRKRPRKL_ 0 0 0 REV__ENST00000604872.5_1_4:153456099-153456309:-|nuORF REV__ENST00000604872.5_1_4:153456099-153456309:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 697.4714965820312 2 697.470578 1392.9266 NaN NaN NaN NaN NaN NaN NaN 71.341 1 71.599 71.099 72.099 0.25786 0 0 0 1.008 1 32680 32680 0.35063 0.35063 1 + 34746 17657 22097 22166 39067 39067 0.24585708647100546 VGRKRRHRL 9 Unmodified _VGRKRRHRL_ 0 0 0 nc|ENSG00000286105|A0A494BZU4|TMEM217B;ENST00000356757.6_1_6:37180235-37180745:-|nuORF nc|ENSG00000286105|A0A494BZU4|TMEM217B nc|ENSG00000286105|A0A494BZU4|TMEM217B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.3797607421875 2 589.378689 1176.74283 NaN NaN NaN NaN NaN NaN NaN 29.971 1 30.76 30.26 31.26 0.78921 0 0 0 0.91206 1 13526 13526 0.6015 0.20078 1 34747 7162 22098 22167 39068 39068 0.16152359936245375 VGRKSISR 8 Unmodified _VGRKSISR_ 0 0 0 REV__ENST00000527623.1_1_19:46891683-46893600:+|nuORF REV__ENST00000527623.1_1_19:46891683-46893600:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.78155517578125 2 451.780151 901.545748 2.5847 0.0011677 0.27674 0.00012503 2.8615 0.0012928 451.7802100508775 80.023 0.43088 80.272 80.129 80.56 0.24947 41 27 2 0 0 0 0.7441 2 36848 36848;36912 2.3027 1.5091 1 474980 + 34748 10239 22099 22168 39069;39070 39069 0.09103715602805096 VGRKSISR 8 Unmodified _VGRKSISR_ 0 0 0 REV__ENST00000527623.1_1_19:46891683-46893600:+|nuORF REV__ENST00000527623.1_1_19:46891683-46893600:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.7815246582031 2 451.780151 901.545748 3.0952 0.0013983 0.023709 1.0711E-05 3.1189 0.0014091 451.7801472747426 79.71 0.65362 80.371 80.149 80.802 0.66082 45 39 2 0 0 0 0.7441 2 36722 36722;36785 2.3027 0.4585 1 475110 + 34749 10239 22099 22168 39071;39072 39071 0.09103715602805096 VGRKSISR 8 Unmodified _VGRKSISR_ 0 0 0 REV__ENST00000527623.1_1_19:46891683-46893600:+|nuORF REV__ENST00000527623.1_1_19:46891683-46893600:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 451.780151 901.545748 2.5847 0.0011677 0.27674 0.00012503 2.8615 0.0012928 451.7802100508775 80.023 0.43088 80.272 80.129 80.56 0.24947 -0.049536 0.00010718 NaN 2.3027 41 27 2 NaN NaN NaN NaN 0 NaN NaN 0 474980 + 34750 10239 22099 22168 0.09103715602805096 VGRKSISR 8 Unmodified _VGRKSISR_ 0 0 0 REV__ENST00000527623.1_1_19:46891683-46893600:+|nuORF REV__ENST00000527623.1_1_19:46891683-46893600:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 451.780151 901.545748 3.0952 0.0013983 0.023709 1.0711E-05 3.1189 0.0014091 451.7801472747426 79.71 0.65362 80.371 80.149 80.802 0.66082 0.049536 -0.00012145 NaN 2.3027 45 39 2 NaN NaN NaN NaN 0 NaN NaN 0 475110 + 34751 10239 22099 22168 0.09103715602805096 VGRKTIFIL 9 Unmodified _VGRKTIFIL_ 0 0 0 ENST00000401000.8_1_1:150446088-150446325:+|nuORF ENST00000401000.8_1_1:150446088-150446325:+|nuORF ENST00000401000.8_1_1:150446088-150446325:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.8418579101562 2 523.839677 1045.6648 NaN NaN NaN NaN NaN NaN NaN 85.875 1 86.545 86.045 87.045 0.67061 0 0 0 0.91206 1 39543 39543 0.6015 0 1 34752 7613 22100 22169 39073 39073 0.14379489507655308 VGRKTIFILP 10 Unmodified _VGRKTIFILP_ 0 0 0 ENST00000401000.8_1_1:150446088-150446325:+|nuORF ENST00000401000.8_1_1:150446088-150446325:+|nuORF ENST00000401000.8_1_1:150446088-150446325:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 572.3628540039062 2 572.366059 1142.71756 NaN NaN NaN NaN NaN NaN NaN 103.48 1 103.48 102.98 103.98 0 0 0 0 1.0015 1 57031 57031 0.45834 0 1 34753 7613 22101 22170 39074 39074 0.15191447570464334 VGRKTKKHR 9 Unmodified _VGRKTKKHR_ 0 0 0 REV__ENSG00000277481|ENST00000620267|PKD1L3 REV__ENSG00000277481|ENST00000620267|PKD1L3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.3557739257812 2 555.354348 1108.69414 4.3898 0.0024379 -1.4342 -0.00079648 2.9556 0.0016414 555.353478458574 102.36 0.094826 102.68 102.62 102.71 0.31736 8 3 3 0 0 0 1.2078 1 47359 47359 0.6015 0 1 700210 + 34754 14745 22102 22171 39075 39075 0.14414446576483897 VGRKTKKHR 9 Unmodified _VGRKTKKHR_ 0 0 0 REV__ENSG00000277481|ENST00000620267|PKD1L3 REV__ENSG00000277481|ENST00000620267|PKD1L3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.3561401367188 2 555.354348 1108.69414 NaN NaN NaN NaN NaN NaN NaN 107.41 1 107.72 107.22 108.22 0.31421 0 0 0 0.91206 1 49549 49549 0.6015 0 1 + 34755 14745 22102 22171 39076 39076 0.14414446576483897 VGRKTKKHR 9 Unmodified _VGRKTKKHR_ 0 0 0 REV__ENSG00000277481|ENST00000620267|PKD1L3 REV__ENSG00000277481|ENST00000620267|PKD1L3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 555.354348 1108.69414 4.3898 0.0024379 -1.4342 -0.00079648 2.9556 0.0016414 555.353478458574 102.36 0.094826 102.68 102.62 102.71 0.31736 -0.11903 -0.00076482 NaN 0.6015 8 3 3 NaN NaN NaN NaN 0 NaN NaN 0 700210 + 34756 14745 22102 22171 0.14414446576483897 VGRKTKKHR 9 Unmodified _VGRKTKKHR_ 0 0 0 REV__ENSG00000277481|ENST00000620267|PKD1L3 REV__ENSG00000277481|ENST00000620267|PKD1L3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 555.354348 1108.69414 3.7255 0.002069 1.3299 0.00073855 5.0554 0.0028076 555.3549733826185 102.32 0.16961 102.92 102.87 103.04 0.59759 0.11903 0.0023052 NaN 0.6015 11 6 3 NaN NaN NaN NaN 0 NaN NaN 0 248150 + 34757 14745 22102 22171 0.14414446576483897 VGRLALQR 8 Unmodified _VGRLALQR_ 0 0 0 ENSG00000118193|ENST00000367350|KIF14 ENSG00000118193|ENST00000367350|KIF14 ENSG00000118193|ENST00000367350|KIF14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.79364013671875 2 456.790518 911.566484 NaN NaN NaN NaN NaN NaN NaN 31.713 1 32.331 31.831 32.831 0.61736 0 0 0 0.99035 1 14543 14543 2.5775 0 1 34758 2105 22103 22172 39077 39077 0.10716305982464291 VGRLFLDY 8 Unmodified _VGRLFLDY_ 0 0 0 REV__ENST00000266673.9_1_12:72080587-72083430:+|nuORF REV__ENST00000266673.9_1_12:72080587-72083430:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7713317871094 2 491.77146 981.528367 NaN NaN NaN NaN NaN NaN NaN 38.473 1 39.107 38.607 39.607 0.63388 0 0 0 0.99035 1 17594 17594 0.79363 0 1 + 34759 15041 22104 22173 39078 39078 0.03686375277118259 VGRLHHMR 8 Unmodified _VGRLHHMR_ 0 0 0 REV__ENSG00000142449|ENST00000600128|FBN3 REV__ENSG00000142449|ENST00000600128|FBN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 335.85693359375 3 335.855622 1004.54504 1.789 0.00060084 0.26901 9.0349E-05 2.058 0.00069119 335.85580531485647 4.5275 0.3744 4.8924 4.7604 5.1348 0.36497 55 39 2 0 0 0 0.7471 1 2074 2074 0.45834 0 1 45178 + 34760 12324 22105 22174 39079 39079 0.04294597682087442 VGRLKHDITQV 11 Unmodified _VGRLKHDITQV_ 0 0 0 ENSG00000197343|ENST00000252713|ZNF655;nc|ENSG00000197343|Q8N720-3|ZNF655 ENSG00000197343|ENST00000252713|ZNF655 ENSG00000197343|ENST00000252713|ZNF655 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3722534179688 2 633.369861 1264.72517 4.0646 0.0025744 -0.70728 -0.00044797 3.3573 0.0021264 633.369310370016 89.385 1.5481 90.063 89.107 90.655 0.67818 130 71 3 0 0 0 0.91068 1 41267 41267 1.3295 0.13619 1 1256400 34761 5809 22106 22175 39080 39080 0.10339555100040343 VGRLLELL 8 Unmodified _VGRLLELL_ 0 0 0 nc|ENSG00000172936|Q99836-4|MYD88;ENST00000460295.1_1_3:38180152-38181542:+|nuORF;nc|ENSG00000172936|Q99836-3|MYD88;ENST00000416282.2_1_3:38180152-38182096:+|nuORF;nc|ENSG00000172936|Q99836-2|MYD88;nc|ENSG00000172936|Q99836-5|MYD88;ENSG00000172936|ENST00000650905|MYD88;nc|ENSG00000172936|Q99836-6|MYD88 nc|ENSG00000172936|Q99836-4|MYD88 nc|ENSG00000172936|Q99836-4|MYD88 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.795166015625 2 456.797478 911.580402 NaN NaN NaN NaN NaN NaN NaN 15.394 1 15.605 15.105 16.105 0.21108 0 0 0 0.99035 1 6789 6789 2.3027 0 1 34762 4906 22107 22176 39081 39081 0.12107538690884212 VGRLLKILFVI 11 Unmodified _VGRLLKILFVI_ 0 0 0 ENSG00000227877|ENST00000414264|MRLN ENSG00000227877|ENST00000414264|MRLN ENSG00000227877|ENST00000414264|MRLN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 635.9365234375 2 635.934109 1269.85366 NaN NaN NaN NaN NaN NaN NaN 50.097 1 50.097 49.597 50.597 0 0 0 0 1.008 1 22935 22935 0.35063 0.043601 1 34763 6173 22108 22177 39082 39082 0.22953142081109945 VGRLLRRVRL 10 Unmodified _VGRLLRRVRL_ 0 0 0 REV__ENST00000444040.6_1_3:72897384-72897555:-|nuORF REV__ENST00000444040.6_1_3:72897384-72897555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.354736328125 2 619.420023 1236.82549 NaN NaN NaN NaN NaN NaN NaN 95.832 1 96.099 95.599 96.599 0.2675 0 0 0 1.0015 1 44034 44034 0.45834 0.057624 1 + 34764 16365 22109 22178 39083 39083 0.21655256944404755 VGRLLRRVRL 10 Unmodified _VGRLLRRVRL_ 0 0 0 REV__ENST00000444040.6_1_3:72897384-72897555:-|nuORF REV__ENST00000444040.6_1_3:72897384-72897555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.1900024414062 2 619.420023 1236.82549 NaN NaN NaN NaN NaN NaN NaN 85.991 1 86.662 86.162 87.162 0.67061 0 0 0 1.0015 1 39598 39598 0.45834 0.10771 1 + 34765 16365 22109 22178 39084 39084 0.21655256944404755 VGRLLRRVRLG 11 Unmodified _VGRLLRRVRLG_ 0 0 0 REV__ENST00000444040.6_1_3:72897384-72897555:-|nuORF REV__ENST00000444040.6_1_3:72897384-72897555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 647.806884765625 2 647.930754 1293.84696 NaN NaN NaN NaN NaN NaN NaN 17.583 1 17.885 17.385 18.385 0.30158 0 0 0 1.008 1 7963 7963 0.35063 0.35063 1 + 34766 16365 22110 22179 39085 39085 0.21178641973119738 VGRLNLGC 8 Unmodified _VGRLNLGC_ 0 0 0 REV__ENST00000431616.5_1_X:102024102-102024183:+|nuORF REV__ENST00000431616.5_1_X:102024102-102024183:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 416.2289123535156 2 416.228905 830.443257 NaN NaN NaN NaN NaN NaN NaN 72.355 1 72.614 72.114 73.114 0.25876 0 0 0 0.99035 1 33214 33214 2.5775 0 1 + 34767 16267 22111 22180 39086 39086 0.02125306539687699 VGRLQSAGTI 10 Unmodified _VGRLQSAGTI_ 0 0 0 REV__ENST00000255174.2_1_20:42835636-42839372:-|nuORF REV__ENST00000255174.2_1_20:42835636-42839372:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.2923889160156 2 501.290548 1000.56654 3.0512 0.0015295 0.63904 0.00032035 3.6902 0.0018499 501.2907932816766 78.748 1.673 78.999 78.211 79.884 0.25127 201 105 2 0 0 0 0.89464 1 36222 36222 3.9444 0 1 1159000 + 34768 14930 22112 22181 39087 39087 0.06628261191792717 VGRLRCRRVAR 11 Unmodified _VGRLRCRRVAR_ 0 0 0 ENST00000299424.8_1_11:6632959-6633197:-|nuORF ENST00000299424.8_1_11:6632959-6633197:-|nuORF ENST00000299424.8_1_11:6632959-6633197:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 671.4110107421875 2 671.409663 1340.80477 NaN NaN NaN NaN NaN NaN NaN 47.108 1 47.76 47.26 48.26 0.65219 0 0 0 1.008 1 21577 21577 0.35063 0 1 34769 6787 22113 22182 39088 39088 0.14800343293063634 VGRLRLAD 8 Unmodified _VGRLRLAD_ 0 0 0 REV__ENST00000528878.1_1_7:64465346-64465520:-|nuORF REV__ENST00000528878.1_1_7:64465346-64465520:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 899.5455322265625 1 899.542126 898.534849 4.1216 0.0037076 -0.33839 -0.0003044 3.7832 0.0034032 899.5416414522165 95.179 0.19044 95.797 95.693 95.884 0.61736 14 9 2 0 0 0 0.7471 1 43803 43803 0.79363 0 1 471040 + 34770 17122 22114 22183 39089 39089 0.08152313228492858 VGRLRLQKLPY 11 Unmodified _VGRLRLQKLPY_ 0 0 0 nc|ENSG00000187144|Q7Z572-2|SPATA21;ENSG00000187144|ENST00000335496|SPATA21 nc|ENSG00000187144|Q7Z572-2|SPATA21 nc|ENSG00000187144|Q7Z572-2|SPATA21 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 672.4097900390625 2 671.919521 1341.82449 NaN NaN NaN NaN NaN NaN NaN 54.902 1 55.697 55.197 56.197 0.79552 0 0 0 1.0071 1 25057 25057 1.4819 0 1 34771 5603 22115 22184 39090 39090 0.1672499778483143 VGRLRRIM 8 Unmodified _VGRLRRIM_ 0 0 0 REV__nc|ENSG00000125510|P41146-2|OPRL1 REV__nc|ENSG00000125510|P41146-2|OPRL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.983154296875 2 500.81347 999.612388 NaN NaN NaN NaN NaN NaN NaN 76.797 1 77.053 76.553 77.553 0.25533 0 0 0 0.99035 1 35363 35363 2.5775 0.27475 1 + 34772 11685 22116 22185 39091 39091 0.11256627893055793 VGRLRRLLP 9 Unmodified _VGRLRRLLP_ 0 0 0 ENST00000569187.5_1_16:81015453-81040468:-|nuORF ENST00000569187.5_1_16:81015453-81040468:-|nuORF ENST00000569187.5_1_16:81015453-81040468:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.3610229492188 2 540.361642 1078.70873 NaN NaN NaN NaN NaN NaN NaN 30.128 1 30.386 29.886 30.886 0.25804 0 0 0 0.91206 1 13713 13713 0.6015 0 1 34773 9074 22117 22186 39092 39092 0.17252518724649235 VGRLRRLLP 9 Unmodified _VGRLRRLLP_ 0 0 0 ENST00000569187.5_1_16:81015453-81040468:-|nuORF ENST00000569187.5_1_16:81015453-81040468:-|nuORF ENST00000569187.5_1_16:81015453-81040468:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.0305786132812 2 540.361642 1078.70873 NaN NaN NaN NaN NaN NaN NaN 39.223 1 39.86 39.36 40.36 0.63778 0 0 0 0.91206 1 17928 17928 0.6015 0 1 34774 9074 22117 22186 39093 39093 0.17252518724649235 VGRLRWGP 8 Unmodified _VGRLRWGP_ 0 0 0 ENSG00000205978|ENST00000382554|NYNRIN ENSG00000205978|ENST00000382554|NYNRIN ENSG00000205978|ENST00000382554|NYNRIN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.77545166015625 2 470.777411 939.540269 NaN NaN NaN NaN NaN NaN NaN 78.297 1 78.55 78.05 79.05 0.25335 0 0 0 0.99035 1 36057 36057 5.2307 0.47466 1 34775 6064 22118 22187 39094 39094 0.06808036810980411 VGRLRWGPA 9 Unmodified _VGRLRWGPA_ 0 0 0 ENSG00000205978|ENST00000382554|NYNRIN ENSG00000205978|ENST00000382554|NYNRIN ENSG00000205978|ENST00000382554|NYNRIN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.29583740234375 2 506.295968 1010.57738 NaN NaN NaN NaN NaN NaN NaN 101.59 1 101.91 101.41 102.41 0.31737 0 0 0 0.90611 1 47008 47008 2.0598 0 1 34776 6064 22119 22188 39095 39095 0.07251708356739073 VGRLVIILA 9 Unmodified _VGRLVIILA_ 0 0 0 ENST00000423344.6_1_10:97667724-97671081:+|nuORF ENST00000423344.6_1_10:97667724-97671081:+|nuORF ENST00000423344.6_1_10:97667724-97671081:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.3269348144531 2 477.328945 952.643337 NaN NaN NaN NaN NaN NaN NaN 42.038 1 42.038 41.538 42.538 0 0 0 0 0.90611 1 19126 19126 2.0598 0 1 34777 7780 22120 22189 39096 39096 0.16512104478931633 VGRLVRLVPF 10 Unmodified _VGRLVRLVPF_ 0 0 0 ENST00000541657.5_3_12:122239775-122239856:-|nuORF ENST00000541657.5_3_12:122239775-122239856:-|nuORF ENST00000541657.5_3_12:122239775-122239856:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.041748046875 2 578.371675 1154.7288 NaN NaN NaN NaN NaN NaN NaN 45.134 1 45.784 45.284 46.284 0.65064 0 0 0 0.99733 1 20684 20684 3.9444 2.2918 1 34778 8811 22121 22190 39097 39097 0.1576226966460581 VGRLYTRKKL 10 Unmodified _VGRLYTRKKL_ 0 0 0 REV__ENST00000330198.8_2_3:197770265-197770433:+|nuORF REV__ENST00000330198.8_2_3:197770265-197770433:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 617.3930053710938 2 617.393139 1232.77173 NaN NaN NaN NaN NaN NaN NaN 81.431 1 82.091 81.591 82.591 0.65998 0 0 0 1.0015 1 37519 37519 0.45834 0 1 + 34779 15369 22122 22191 39098 39098 0.16465039722015717 VGRNLHIFW 9 Unmodified _VGRNLHIFW_ 0 0 0 MER21A_dup1924|chr21:42596367-42597211:-|1.1454877344273586|0.0472559580865997|4.6|530.0|6|1|sense MER21A_dup1924|chr21:42596367-42597211:-|1.1454877344273586|0.0472559580865997|4.6|530.0|6|1|sense MER21A_dup1924|chr21:42596367-42597211:-|1.1454877344273586|0.0472559580865997|4.6|530.0|6|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.3626098632812 2 571.3169 1140.61925 NaN NaN NaN NaN NaN NaN NaN 15.208 1 15.419 14.919 15.919 0.21108 0 0 0 0.91206 1 6702 6702 0.6015 0 1 34780 9515 22123 22192 39099 39099 0.05456264045255921 VGRPAFFWER 10 Unmodified _VGRPAFFWER_ 0 0 0 nc|nan|Q2M2W7-2|C17orf58 nc|nan|Q2M2W7-2|C17orf58 nc|nan|Q2M2W7-2|C17orf58 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 632.8330078125 2 632.832914 1263.65128 NaN NaN NaN NaN NaN NaN NaN 52.301 1 52.963 52.463 53.463 0.66198 0 0 0 1.0001 1 23913 23913 1.6526 0 1 34781 9891 22124 22193 39100 39100 0.029996317284030738 VGRPLVCEET 10 Unmodified _VGRPLVCEET_ 0 0 0 REV__ENSG00000172578|ENST00000341319|KLHL6 REV__ENSG00000172578|ENST00000341319|KLHL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.7831420898438 2 551.781699 1101.54884 3.6387 0.0020078 0.28564 0.00015761 3.9243 0.0021654 551.7817746511049 17.493 0.19575 17.493 17.369 17.565 0 16 10 2 0 0 0 0.9146 1 7783 7783 2.9952 0.26005 1 173780 + 34782 13556 22125 22194 39101 39101 0.002131778746161217 VGRPRRKRFA 10 Unmodified _VGRPRRKRFA_ 0 0 0 REV__nc|ENSG00000141568|Q01167-2|FOXK2 REV__nc|ENSG00000141568|Q01167-2|FOXK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.88525390625 2 621.886347 1241.75814 NaN NaN NaN NaN NaN NaN NaN 38.843 1 39.64 39.14 40.14 0.79762 0 0 0 1.0015 1 17595 17595 0.45834 0 1 + 34783 12300 22126 22195 39102 39102 0.1469322673347051 VGRPTPVHVRP 11 Unmodified _VGRPTPVHVRP_ 0 0 0 REV__ENST00000564969.5_1_16:89805773-89806175:-|nuORF REV__ENST00000564969.5_1_16:89805773-89806175:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 607.8604736328125 2 607.859464 1213.70437 NaN NaN NaN NaN NaN NaN NaN 91.423 1 91.423 90.923 91.923 0 0 0 0 0.99571 1 48295 48295 7.1017 1.3699 1 + 34784 17383 22127 22196 39103 39103 0.106070095110681 VGRPVLRFP 9 Unmodified _VGRPVLRFP_ 0 0 0 ENST00000418210.2_1_8:91657672-91657804:-|nuORF ENST00000418210.2_1_8:91657672-91657804:-|nuORF ENST00000418210.2_1_8:91657672-91657804:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.55133056640625 3 347.550304 1039.62908 2.4893 0.00086515 -0.39752 -0.00013816 2.0918 0.00072699 347.5501702685211 14.877 0.32809 15.531 15.392 15.72 0.65356 43 28 2 0 0 0 1.2289 1 6768 6768 0.26902 0 1 203910 34785 7726 22128 22197 39104 39104 0.11085452050656386 VGRQGRPR 8 Unmodified _VGRQGRPR_ 0 0 0 REV__ENST00000372774.7_2_X:101395704-101395815:-|nuORF REV__ENST00000372774.7_2_X:101395704-101395815:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 309.1861572265625 3 309.186137 924.53658 NaN NaN NaN NaN NaN NaN NaN 34.143 1 34.763 34.263 35.263 0.62031 0 0 0 0.99035 1 15644 15644 3.5965 1.098 1 + 34786 15760 22129 22198 39105 39105 0.0712936703713467 VGRQIEKQ 8 Unmodified _VGRQIEKQ_ 0 0 0 REV__nc|ENSG00000163738|Q9H903-5|MTHFD2L REV__nc|ENSG00000163738|Q9H903-5|MTHFD2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.2796936035156 2 479.277441 956.540328 3.8894 0.0018641 -0.4198 -0.0002012 3.4696 0.0016629 479.2771579007428 101.46 0.21405 101.78 101.66 101.87 0.31412 19 8 3 0 0 0 0.7471 1 46953 46953 0.79363 0 1 1274300 + 34787 13022 22130 22199 39106 39106 0.06031992020314192 VGRQIEKQ 8 Unmodified _VGRQIEKQ_ 0 0 0 REV__nc|ENSG00000163738|Q9H903-5|MTHFD2L REV__nc|ENSG00000163738|Q9H903-5|MTHFD2L MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 479.277441 956.540328 3.8894 0.0018641 -0.4198 -0.0002012 3.4696 0.0016629 479.2771579007428 101.46 0.21405 101.78 101.66 101.87 0.31412 -0.13215 -0.00054801 NaN 0.79363 19 8 3 NaN NaN NaN NaN 0 NaN NaN 0 1274300 + 34788 13022 22130 22199 0.06031992020314192 VGRQIEKQ 8 Unmodified _VGRQIEKQ_ 0 0 0 REV__nc|ENSG00000163738|Q9H903-5|MTHFD2L REV__nc|ENSG00000163738|Q9H903-5|MTHFD2L MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 479.277441 956.540328 3.3263 0.0015942 0.87809 0.00042085 4.2044 0.0020151 479.2779027838842 101.45 0.24586 102.04 101.92 102.17 0.59717 0.13215 0.00069609 NaN 0.79363 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 1407700 + 34789 13022 22130 22199 0.06031992020314192 VGRQPRLILPY 11 Unmodified _VGRQPRLILPY_ 0 0 0 REV__ENSG00000116711|ENST00000367466|PLA2G4A REV__ENSG00000116711|ENST00000367466|PLA2G4A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 656.2086181640625 2 656.398422 1310.78229 NaN NaN NaN NaN NaN NaN NaN 52.111 1 52.111 51.611 52.611 0 0 0 0 1.0071 1 23861 23861 1.4819 1.0236 1 + 34790 11414 22131 22200 39107 39107 0.1393302237647731 VGRQRRERP 9 Unmodified _VGRQRRERP_ 0 0 0 ENSG00000165886|ENST00000370664|UBTD1 ENSG00000165886|ENST00000370664|UBTD1 ENSG00000165886|ENST00000370664|UBTD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.3363037109375 2 577.336687 1152.65882 NaN NaN NaN NaN NaN NaN NaN 31.655 1 31.909 31.409 32.409 0.25452 0 0 0 0.91206 1 14412 14412 0.6015 0 1 34791 4430 22132 22201 39108 39108 0.08859784048695474 VGRQRRKR 8 Unmodified _VGRQRRKR_ 0 0 0 REV__nc|ENSG00000164916|P85037-2|FOXK1 REV__nc|ENSG00000164916|P85037-2|FOXK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.3388671875 2 528.33649 1054.65843 NaN NaN NaN NaN NaN NaN NaN 103.41 1 103.41 102.91 103.91 0 0 0 0 0.99035 1 56999 56999 0.79363 0 1 + 34792 13121 22133 22202 39109 39109 0.13328409119503704 VGRRALPLLR 10 Unmodified _VGRRALPLLR_ 0 0 0 REV__ENST00000449175.1_1_9:125876951-125877479:-|nuORF REV__ENST00000449175.1_1_9:125876951-125877479:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 576.3068237304688 2 575.880199 1149.74584 NaN NaN NaN NaN NaN NaN NaN 32.343 1 33.131 32.631 33.631 0.78795 0 0 0 1.0015 1 14628 14628 0.45834 0 1 + 34793 16400 22134 22203 39110 39110 0.1769619027038516 VGRRFVKK 8 Unmodified _VGRRFVKK_ 0 0 0 ENST00000518780.1_1_8:1704216-1707628:+|nuORF ENST00000518780.1_1_8:1704216-1707628:+|nuORF ENST00000518780.1_1_8:1704216-1707628:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.3215637207031 2 495.321986 988.629418 NaN NaN NaN NaN NaN NaN NaN 65.056 1 65.304 64.804 65.804 0.24803 0 0 0 0.99035 1 29804 29804 0.79363 0 1 34794 8609 22135 22204 39111 39111 0.13464871770509035 VGRRFVQQRRQ 11 Unmodified _VGRRFVQQRRQ_ 0 0 0 REV__ENSG00000081923|ENST00000648908|ATP8B1 REV__ENSG00000081923|ENST00000648908|ATP8B1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 715.4199829101562 2 715.416 1428.81745 NaN NaN NaN NaN NaN NaN NaN 46.022 1 46.022 45.522 46.522 0 0 0 0 1.0059 1 21058 21058 2.9952 0.26005 1 + 34795 10613 22136 22205 39112 39112 0.12019077956961155 VGRRGFNKPI 10 Unmodified _VGRRGFNKPI_ 0 0 0 ENST00000574510.1_1_17:7919510-7919845:+|nuORF;ENSG00000132518|ENST00000254854|GUCY2D ENST00000574510.1_1_17:7919510-7919845:+|nuORF ENST00000574510.1_1_17:7919510-7919845:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 381.89764404296875 3 381.896363 1142.66726 3.1306 0.0011956 0.94569 0.00036115 4.0762 0.0015567 381.8966720250114 6.1415 0.83727 6.765 6.5415 7.3788 0.62357 172 73 4 0 0 0 0.93534 1 2938 2938 2.086 1.6277 1 309220 34796 2709 22137 22206 39113 39113 0.10163337965332175 VGRRGKNS 8 Unmodified _VGRRGKNS_ 0 0 0 nc|ENSG00000130024|Q8WUB8-3|PHF10;nc|ENSG00000130024|Q8WUB8-2|PHF10;ENSG00000130024|ENST00000339209|PHF10 nc|ENSG00000130024|Q8WUB8-3|PHF10 nc|ENSG00000130024|Q8WUB8-3|PHF10 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 436.77606201171875 2 437.2543 872.494047 3.2148 0.0014057 1.0939 0.00047833 4.3087 0.001884 437.25466763678253 85.567 0.38817 86.238 86.06 86.448 0.67061 43 18 3 0 0 0 0.14267 1 39470 39470 0.69038 0 1 1802900 34797 2570 22138 22207 39114 39114 0.052699719088991515 VGRRGKNS 8 Unmodified _VGRRGKNS_ 0 0 0 nc|ENSG00000130024|Q8WUB8-3|PHF10;nc|ENSG00000130024|Q8WUB8-2|PHF10;ENSG00000130024|ENST00000339209|PHF10 nc|ENSG00000130024|Q8WUB8-3|PHF10 nc|ENSG00000130024|Q8WUB8-3|PHF10 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 437.2543 872.494047 2.9955 0.0013098 1.044 0.00045649 4.0395 0.0017663 437.2548138637212 85.896 0.28053 86.144 86.038 86.319 0.24857 -0.046723 -3.0986E-05 NaN 0.69038 19 14 2 NaN NaN NaN NaN 0 NaN NaN 0 2042200 34798 2570 22138 22207 0.052699719088991515 VGRRGNGP 8 Unmodified _VGRRGNGP_ 0 0 0 nc|ENSG00000038295|O43897-2|TLL1;ENSG00000038295|ENST00000061240|TLL1 nc|ENSG00000038295|O43897-2|TLL1 nc|ENSG00000038295|O43897-2|TLL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 812.45458984375 1 812.44856 811.441283 4.0746 0.0033104 0.48836 0.00039677 4.5629 0.0037072 812.4484644335508 82.645 0.38856 83.305 83.05 83.439 0.66019 38 23 2 0 0 0 0.7471 1 38011 38011 0.79363 0.79363 1 1122800 34799 520 22139 22208 39115 39115 0.028020138460874477 VGRRGPRRRRR 11 Unmodified _VGRRGPRRRRR_ 0 0 0 ENST00000406310.5_1_11:64073071-64074640:+|nuORF;ENST00000539594.5_1_11:64073071-64081459:+|nuORF ENST00000406310.5_1_11:64073071-64074640:+|nuORF ENST00000406310.5_1_11:64073071-64074640:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 711.4500122070312 2 711.4485 1420.88245 NaN NaN NaN NaN NaN NaN NaN 106.94 1 107.25 106.75 107.75 0.31628 0 0 0 1.008 1 49341 49341 0.35063 0 1 34800 7643 22140 22209 39116 39116 0.18884117273478296 VGRRGRLLR 9 Unmodified _VGRRGRLLR_ 0 0 0 ENST00000567143.1_1_16:58438532-58438703:+|nuORF ENST00000567143.1_1_16:58438532-58438703:+|nuORF ENST00000567143.1_1_16:58438532-58438703:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.7899169921875 2 541.854516 1081.69448 NaN NaN NaN NaN NaN NaN NaN 65.523 1 66.18 65.68 66.68 0.65672 0 0 0 0.90611 1 30039 30039 2.0598 0 1 34801 9059 22141 22210 39117 39117 0.15689866296361288 VGRRHRLPGL 10 Unmodified _VGRRHRLPGL_ 0 0 0 REV__ENST00000398882.7_2_8:144648386-144648569:-|nuORF REV__ENST00000398882.7_2_8:144648386-144648569:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 580.8604736328125 2 580.859798 1159.70504 NaN NaN NaN NaN NaN NaN NaN 46.219 1 47.048 46.548 47.548 0.82915 0 0 0 1.0001 1 21051 21051 1.6526 0.17072 1 + 34802 16029 22142 22211 39118 39118 0.13157848950777407 VGRRKGRGRR 10 Unmodified _VGRRKGRGRR_ 0 0 0 REV__ENST00000514254.2_1_12:124412777-124412945:-|nuORF REV__ENST00000514254.2_1_12:124412777-124412945:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 599.384033203125 2 599.37922 1196.74389 4.5637 0.0027354 0.36287 0.0002175 4.9266 0.0029529 599.3794268515737 108.19 1.5056 108.5 108.01 109.51 0.31168 94 66 2 0 0 0 0.94364 3 49864 49864;50200;50324 0.45834 0.45834 1 183060 + 34803 17003 22143 22212 39119;39120;39121 39119 0.15338574305155817 VGRRKKGRRHL 11 Unmodified _VGRRKKGRRHL_ 0 0 0 ENST00000470487.5_1_3:167813142-167813508:-|nuORF ENST00000470487.5_1_3:167813142-167813508:-|nuORF ENST00000470487.5_1_3:167813142-167813508:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 681.9375 2 681.936902 1361.85925 NaN NaN NaN NaN NaN NaN NaN 88.955 1 89.206 88.706 89.706 0.25118 0 0 0 1.008 1 40919 40919 0.35063 0.043601 1 34804 8175 22144 22213 39122 39122 0.1927967843616898 VGRRKRFHLR 10 Unmodified _VGRRKRFHLR_ 0 0 0 REV__ENST00000368218.8_2_1:156698377-156698662:+|nuORF REV__ENST00000368218.8_2_1:156698377-156698662:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 662.9133911132812 2 662.912896 1323.81124 NaN NaN NaN NaN NaN NaN NaN 62.876 1 63.534 63.034 64.034 0.65808 0 0 0 1.0015 1 28813 28813 0.45834 0.057624 1 + 34805 15680 22145 22214 39123 39123 0.16228604516095402 VGRRKSPRRA 10 Unmodified _VGRRKSPRRA_ 0 0 0 ENST00000522301.5_3_17:4853490-4853673:+|nuORF ENST00000522301.5_3_17:4853490-4853673:+|nuORF ENST00000522301.5_3_17:4853490-4853673:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 591.8672485351562 2 591.868154 1181.72176 NaN NaN NaN NaN NaN NaN NaN 16.633 1 17.291 16.791 17.791 0.65798 0 0 0 1.0015 1 7497 7497 0.45834 0 1 34806 8649 22146 22215 39124 39124 0.13816349836747577 VGRRLLEQ 8 Unmodified _VGRRLLEQ_ 0 0 0 ENSG00000169122|ENST00000519262|FAM110B ENSG00000169122|ENST00000519262|FAM110B ENSG00000169122|ENST00000519262|FAM110B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.796142578125 2 485.793258 969.571963 NaN NaN NaN NaN NaN NaN NaN 16.784 1 17.088 16.588 17.588 0.30438 0 0 0 0.99035 1 7599 7599 0.79363 0 1 34807 4672 22147 22216 39125 39125 0.08595984774285625 VGRRLLEQ 8 Unmodified _VGRRLLEQ_ 0 0 0 ENSG00000169122|ENST00000519262|FAM110B ENSG00000169122|ENST00000519262|FAM110B ENSG00000169122|ENST00000519262|FAM110B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.7950744628906 2 485.793258 969.571963 NaN NaN NaN NaN NaN NaN NaN 16.902 1 17.206 16.706 17.706 0.30438 0 0 0 0.99035 1 7654 7654 0.79363 0 1 34808 4672 22147 22216 39126 39126 0.08595984774285625 VGRRLLIRVI 10 Unmodified _VGRRLLIRVI_ 0 0 0 REV__ENSG00000183421|ENST00000332512|RIPK4 REV__ENSG00000183421|ENST00000332512|RIPK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.9130859375 2 597.911499 1193.80845 NaN NaN NaN NaN NaN NaN NaN 83.386 1 84.048 83.548 84.548 0.66219 0 0 0 1.0015 1 38407 38407 0.45834 0 1 + 34809 13931 22148 22217 39127 39127 0.21929336338621397 VGRRLLIRVIN 11 Unmodified _VGRRLLIRVIN_ 0 0 0 REV__ENSG00000183421|ENST00000332512|RIPK4 REV__ENSG00000183421|ENST00000332512|RIPK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 654.853759765625 2 654.932963 1307.85137 NaN NaN NaN NaN NaN NaN NaN 102.18 1 102.5 102 103 0.31737 0 0 0 1.008 1 47269 47269 0.35063 0.35063 1 + 34810 13931 22149 22218 39128 39128 0.20976106396051364 VGRRLRRSEL 10 Unmodified _VGRRLRRSEL_ 0 0 0 ENST00000405661.8_1_12:56547702-56549525:+|nuORF ENST00000405661.8_1_12:56547702-56549525:+|nuORF ENST00000405661.8_1_12:56547702-56549525:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 621.3810424804688 2 621.381094 1240.74764 NaN NaN NaN NaN NaN NaN NaN 18.09 1 18.392 17.892 18.892 0.30158 0 0 0 1.0015 1 8197 8197 0.45834 0 1 34811 7637 22150 22219 39129 39129 0.136891992883875 VGRRPARP 8 Unmodified _VGRRPARP_ 0 0 0 ENST00000433688.2_2_11:63531028-63531832:-|nuORF ENST00000433688.2_2_11:63531028-63531832:-|nuORF ENST00000433688.2_2_11:63531028-63531832:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.7811279296875 2 454.780485 907.546417 2.8174 0.0012813 -0.91567 -0.00041643 1.9017 0.00086486 454.78012190766344 31.278 0.26451 32.067 31.867 32.132 0.78879 29 20 2 0 0 0 0.7471 1 14135 14135 0.79363 0 1 277350 34812 7875 22151 22220 39130 39130 0.08894555042502361 VGRRPARP 8 Unmodified _VGRRPARP_ 0 0 0 ENST00000433688.2_2_11:63531028-63531832:-|nuORF ENST00000433688.2_2_11:63531028-63531832:-|nuORF ENST00000433688.2_2_11:63531028-63531832:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.7809143066406 2 454.780485 907.546417 2.5775 0.0011722 -0.80256 -0.00036499 1.775 0.00080723 454.7800904619988 32.408 0.22707 33.196 33.116 33.343 0.78795 27 16 2 0 0 0 0.7471 1 14651 14651 0.79363 0 1 350540 34813 7875 22151 22220 39131 39131 0.08894555042502361 VGRRPARP 8 Unmodified _VGRRPARP_ 0 0 0 ENST00000433688.2_2_11:63531028-63531832:-|nuORF ENST00000433688.2_2_11:63531028-63531832:-|nuORF ENST00000433688.2_2_11:63531028-63531832:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.78173828125 2 454.780485 907.546417 3.1318 0.0014243 -0.59771 -0.00027183 2.5341 0.0011525 454.78018399647453 32.146 0.26756 32.4 32.191 32.459 0.25452 20 15 2 0 0 0 0.7471 1 14641 14641 0.79363 0 1 294610 34814 7875 22151 22220 39132 39132 0.08894555042502361 VGRRPARP 8 Unmodified _VGRRPARP_ 0 0 0 ENST00000433688.2_2_11:63531028-63531832:-|nuORF ENST00000433688.2_2_11:63531028-63531832:-|nuORF ENST00000433688.2_2_11:63531028-63531832:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 454.7814636230469 2 454.780485 907.546417 2.983 0.0013566 -1.0813 -0.00049175 1.9017 0.00086486 454.77995485735437 31.518 0.33526 32.135 31.926 32.261 0.61737 32 23 2 0 0 0 0.7471 1 14457 14457 0.79363 0 1 276860 34815 7875 22151 22220 39133 39133 0.08894555042502361 VGRRPARP 8 Unmodified _VGRRPARP_ 0 0 0 ENST00000433688.2_2_11:63531028-63531832:-|nuORF ENST00000433688.2_2_11:63531028-63531832:-|nuORF ENST00000433688.2_2_11:63531028-63531832:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 455.2388916015625 2 454.780485 907.546417 2.8915 0.001315 -0.72552 -0.00032995 2.166 0.00098506 454.7801679883748 32.866 0.23644 33.484 33.376 33.613 0.61831 16 9 2 0 0 0 0.14333 1 15092 15092 0.79363 0 1 325090 34816 7875 22151 22220 39134 39134 0.08894555042502361 VGRRPARP 8 Unmodified _VGRRPARP_ 0 0 0 ENST00000433688.2_2_11:63531028-63531832:-|nuORF ENST00000433688.2_2_11:63531028-63531832:-|nuORF ENST00000433688.2_2_11:63531028-63531832:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 454.780485 907.546417 2.5775 0.0011722 -0.80256 -0.00036499 1.775 0.00080723 454.7800904619988 32.408 0.22707 33.196 33.116 33.343 0.78795 -0.14411 -2.9753E-05 NaN 0.79363 27 16 2 NaN NaN NaN NaN 0 NaN NaN 0 350540 34817 7875 22151 22220 0.08894555042502361 VGRRPARP 8 Unmodified _VGRRPARP_ 0 0 0 ENST00000433688.2_2_11:63531028-63531832:-|nuORF ENST00000433688.2_2_11:63531028-63531832:-|nuORF ENST00000433688.2_2_11:63531028-63531832:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 454.780485 907.546417 3.1318 0.0014243 -0.59771 -0.00027183 2.5341 0.0011525 454.78018399647453 32.146 0.26756 32.4 32.191 32.459 0.25452 0.19961 0.00030899 NaN 0.79363 20 15 2 NaN NaN NaN NaN 0 NaN NaN 0 294610 34818 7875 22151 22220 0.08894555042502361 VGRRPARP 8 Unmodified _VGRRPARP_ 0 0 0 ENST00000433688.2_2_11:63531028-63531832:-|nuORF ENST00000433688.2_2_11:63531028-63531832:-|nuORF ENST00000433688.2_2_11:63531028-63531832:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 454.780485 907.546417 2.983 0.0013566 -1.0813 -0.00049175 1.9017 0.00086486 454.77995485735437 31.518 0.33526 32.135 31.926 32.261 0.61737 -0.065419 -0.00013086 NaN 0.79363 32 23 2 NaN NaN NaN NaN 0 NaN NaN 0 276860 34819 7875 22151 22220 0.08894555042502361 VGRRQTVF 8 Unmodified _VGRRQTVF_ 0 0 0 ENST00000324348.8_2_17:7818490-7818643:-|nuORF ENST00000324348.8_2_17:7818490-7818643:-|nuORF ENST00000324348.8_2_17:7818490-7818643:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.7815856933594 2 481.780151 961.545748 3.1782 0.0015312 0.75661 0.00036452 3.9348 0.0018957 481.7804808982403 16.589 0.56395 17.247 16.994 17.558 0.65798 70 52 2 0 0 0 0.7471 1 7551 7551 0.79363 0 1 145410 34820 6949 22152 22221 39135 39135 0.06343715602793054 VGRRRARIVP 10 Unmodified _VGRRRARIVP_ 0 0 0 ENST00000256413.7_2_18:46386315-46386504:+|nuORF ENST00000256413.7_2_18:46386315-46386504:+|nuORF ENST00000256413.7_2_18:46386315-46386504:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.3792114257812 2 590.380897 1178.74724 NaN NaN NaN NaN NaN NaN NaN 48.822 1 49.477 48.977 49.977 0.65524 0 0 0 1.0015 1 22338 22338 0.45834 0 1 34821 6522 22153 22222 39136 39136 0.16501824359147577 VGRRRKRALI 10 Unmodified _VGRRRKRALI_ 0 0 0 REV__ENST00000523531.1_1_8:80679417-80679997:-|nuORF REV__ENST00000523531.1_1_8:80679417-80679997:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 612.9107055664062 2 612.909822 1223.80509 NaN NaN NaN NaN NaN NaN NaN 32.84 1 33.628 33.128 34.128 0.78795 0 0 0 1.0015 1 14858 14858 0.45834 0.10771 1 + 34822 17065 22154 22223 39137 39137 0.2021408628459085 VGRRRKRER 9 Unmodified _VGRRRKRER_ 0 0 0 ENST00000328969.5_1_20:62340221-62340320:+|nuORF ENST00000328969.5_1_20:62340221-62340320:+|nuORF ENST00000328969.5_1_20:62340221-62340320:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 606.8804931640625 2 606.879053 1211.74355 NaN NaN NaN NaN NaN NaN NaN 12.591 1 13.234 12.734 13.734 0.64272 0 0 0 0.91206 1 5652 5652 0.6015 0 1 34823 6977 22155 22224 39138 39138 0.14615154585294476 VGRRRPGGRR 10 Unmodified _VGRRRPGGRR_ 0 0 0 ENST00000509340.1_1_4:89199774-89205164:-|nuORF ENST00000509340.1_1_4:89199774-89205164:-|nuORF ENST00000509340.1_1_4:89199774-89205164:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.8615112304688 2 583.858121 1165.70169 4.0937 0.0023901 1.1475 0.00066996 5.2412 0.0030601 583.8586512834531 94.126 0.77798 94.386 94.114 94.892 0.25975 87 39 3 0 0 0 0.94217 2 43187 43187;43350 0.45834 0 1 2074200 34824 8540 22156 22225 39139;39140 39139 0.1254659889677896 VGRRRRFAL 9 Unmodified _VGRRRRFAL_ 0 0 0 ENST00000430328.6_1_2:152266682-152266823:+|nuORF ENST00000430328.6_1_2:152266682-152266823:+|nuORF ENST00000430328.6_1_2:152266682-152266823:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 565.8545532226562 2 565.854516 1129.69448 NaN NaN NaN NaN NaN NaN NaN 88.847 1 89.525 89.025 90.025 0.67818 0 0 0 0.91206 1 40913 40913 0.6015 0 1 34825 7846 22157 22226 39141 39141 0.13481866296365297 VGRRRRRKRKL 11 Unmodified _VGRRRRRKRKL_ 0 0 0 REV__ENST00000592937.1_1_19:2477739-2477868:+|nuORF REV__ENST00000592937.1_1_19:2477739-2477868:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 740.9985961914062 2 740.997826 1479.9811 NaN NaN NaN NaN NaN NaN NaN 89.702 1 89.766 89.266 90.266 0.064346 0 0 0 1.008 1 46027 46027 0.35063 0.35063 1 + 34826 17597 22158 22227 39142 39142 0.26030720518519956 VGRRRRRRP 9 Unmodified _VGRRRRRRP_ 0 0 0 ENST00000480955.1_1_3:132379321-132379543:+|nuORF;ENST00000464101.2_1_3:132379321-132384968:+|nuORF ENST00000480955.1_1_3:132379321-132379543:+|nuORF ENST00000480955.1_1_3:132379321-132379543:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 604.8888549804688 2 604.887213 1207.75987 NaN NaN NaN NaN NaN NaN NaN 103.26 1 103.31 102.81 103.81 0.055092 0 0 0 0.91206 1 55998 55998 0.6015 0.14316 1 34827 8110 22159 22228 39143 39143 0.1643028054206752 VGRRRRRRP 9 Unmodified _VGRRRRRRP_ 0 0 0 ENST00000480955.1_1_3:132379321-132379543:+|nuORF;ENST00000464101.2_1_3:132379321-132384968:+|nuORF ENST00000480955.1_1_3:132379321-132379543:+|nuORF ENST00000480955.1_1_3:132379321-132379543:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 604.8856201171875 2 604.887213 1207.75987 NaN NaN NaN NaN NaN NaN NaN 65.104 1 65.76 65.26 66.26 0.65672 0 0 0 0.91206 1 29847 29847 0.6015 0.076735 1 34828 8110 22159 22228 39144 39144 0.1643028054206752 VGRRRSFS 8 Unmodified _VGRRRSFS_ 0 0 0 nc|ENSG00000159140|P18583-2|SON;nc|ENSG00000159140|P18583-7|SON;ENSG00000159140|ENST00000356577|SON;nc|ENSG00000159140|P18583-5|SON;nc|ENSG00000159140|P18583-9|SON;nc|ENSG00000159140|P18583-6|SON;nc|ENSG00000159140|P18583-10|SON;nc|ENSG00000159140|P18583-3|SON;nc|ENSG00000159140|P18583-4|SON nc|ENSG00000159140|P18583-2|SON nc|ENSG00000159140|P18583-2|SON MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.1869812011719 3 322.186025 963.536246 NaN NaN NaN NaN NaN NaN NaN 15.658 1 15.964 15.464 16.464 0.306 0 0 0 0.99035 1 7081 7081 0.45834 0 1 34829 4010 22160 22229 39145 39145 0.05301947317275335 VGRRRSFS 8 Unmodified _VGRRRSFS_ 0 0 0 nc|ENSG00000159140|P18583-2|SON;nc|ENSG00000159140|P18583-7|SON;ENSG00000159140|ENST00000356577|SON;nc|ENSG00000159140|P18583-5|SON;nc|ENSG00000159140|P18583-9|SON;nc|ENSG00000159140|P18583-6|SON;nc|ENSG00000159140|P18583-10|SON;nc|ENSG00000159140|P18583-3|SON;nc|ENSG00000159140|P18583-4|SON nc|ENSG00000159140|P18583-2|SON nc|ENSG00000159140|P18583-2|SON MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.18670654296875 3 322.186025 963.536246 NaN NaN NaN NaN NaN NaN NaN 15.754 1 16.06 15.56 16.56 0.306 0 0 0 0.99035 1 7126 7126 0.45834 0 1 34830 4010 22160 22229 39146 39146 0.05301947317275335 VGRRRTSR 8 Unmodified _VGRRRTSR_ 0 0 0 ENST00000479747.1_1_9:130678457-130678682:-|nuORF ENST00000479747.1_1_9:130678457-130678682:-|nuORF ENST00000479747.1_1_9:130678457-130678682:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.7818298339844 2 494.299573 986.584593 3.8307 0.0018935 1.5895 0.0007857 5.4203 0.0026792 494.30076221858576 93.777 0.2737 94.032 93.968 94.242 0.25497 22 13 2 0 0 0 0.14333 1 43114 43114 0 0 1 273520 34831 8268 22161 22230 39147 39147 0.09076440957187515 VGRRRVLQRLT 11 Unmodified _VGRRRVLQRLT_ 0 0 0 ENST00000496700.5_1_14:105954422-105954593:+|nuORF ENST00000496700.5_1_14:105954422-105954593:+|nuORF ENST00000496700.5_1_14:105954422-105954593:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 677.4317626953125 2 677.431119 1352.84768 NaN NaN NaN NaN NaN NaN NaN 48.634 1 48.634 48.134 49.134 0 0 0 0 1.008 1 22273 22273 0.35063 0 1 34832 8449 22162 22231 39148 39148 0.18537436622159476 VGRRRVLQRLT 11 Unmodified _VGRRRVLQRLT_ 0 0 0 ENST00000496700.5_1_14:105954422-105954593:+|nuORF ENST00000496700.5_1_14:105954422-105954593:+|nuORF ENST00000496700.5_1_14:105954422-105954593:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.9010009765625 2 677.431119 1352.84768 NaN NaN NaN NaN NaN NaN NaN 94.554 1 94.814 94.314 95.314 0.25975 0 0 0 1.008 1 43449 43449 0.35063 0 1 34833 8449 22162 22231 39149 39149 0.18537436622159476 VGRRRVRDVI 10 Unmodified _VGRRRVRDVI_ 0 0 0 ENST00000590669.5_1_19:10362732-10362900:+|nuORF;ENST00000592514.5_3_19:10362578-10362897:+|nuORF ENST00000590669.5_1_19:10362732-10362900:+|nuORF ENST00000590669.5_1_19:10362732-10362900:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.3814086914062 2 613.383637 1224.75272 NaN NaN NaN NaN NaN NaN NaN 106.66 1 106.97 106.47 107.47 0.31628 0 0 0 1.0015 1 49215 49215 0.45834 0 1 34834 9229 22163 22232 39150 39150 0.1493350315099633 VGRRRWVVR 9 Unmodified _VGRRRWVVR_ 0 0 0 REV__ENST00000360311.4_1_3:32023272-32030257:+|nuORF;REV__ENST00000489408.1_1_3:32023272-32027845:+|nuORF REV__ENST00000489408.1_1_3:32023272-32027845:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.3685913085938 2 592.36779 1182.72103 NaN NaN NaN NaN NaN NaN NaN 101.73 1 102.05 101.55 102.55 0.31737 0 0 0 0.91206 1 47070 47070 0.6015 0.076735 1 + 34835 16792;15605 22164 22233 39151 39151 0.1369755518767306 VGRRSPPRRPG 11 Unmodified _VGRRSPPRRPG_ 0 0 0 ENST00000511689.5_1_5:134724614-134734957:-|nuORF ENST00000511689.5_1_5:134724614-134734957:-|nuORF ENST00000511689.5_1_5:134724614-134734957:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 309.1859436035156 4 309.436444 1233.71667 1.6531 0.00051152 0.32546 0.00010071 1.9785 0.00061222 309.43667669154587 34.287 0.40241 34.287 34.183 34.586 0 32 22 2 0 0 0 0.13295 1 15621 15621 2.6312 0.72486 1 967970 34836 8566 22165 22234 39152 39152 0.10916045974113331 VGRRTTFRL 9 Unmodified _VGRRTTFRL_ 0 0 0 nc|ENSG00000064225|Q9Y274-2|ST3GAL6;ENSG00000064225|ENST00000483910|ST3GAL6 nc|ENSG00000064225|Q9Y274-2|ST3GAL6 nc|ENSG00000064225|Q9Y274-2|ST3GAL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.3345947265625 2 553.333082 1104.65161 4.0649 0.0022492 -1.1229 -0.00062133 2.942 0.0016279 553.3323549519359 91.982 0.8366 92.234 91.988 92.825 0.25254 111 41 4 0 0 0 1.2078 2 42394 42394;42447 0.6015 0 1 3503500 34837 667 22166 22235 39153;39154 39153 0.10347051448275124 VGRRTTFRL 9 Unmodified _VGRRTTFRL_ 0 0 0 nc|ENSG00000064225|Q9Y274-2|ST3GAL6;ENSG00000064225|ENST00000483910|ST3GAL6 nc|ENSG00000064225|Q9Y274-2|ST3GAL6 nc|ENSG00000064225|Q9Y274-2|ST3GAL6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.3344116210938 2 553.333082 1104.65161 3.7014 0.0020481 -1.0256 -0.00056748 2.6759 0.0014806 553.3324941925989 91.565 0.87646 92.226 91.995 92.871 0.66198 122 43 4 0 0 0 1.2078 3 42170 42170;42216;42268 0.6015 0 1 4138000 34838 667 22166 22235 39155;39156;39157 39155 0.10347051448275124 VGRRVEAP 8 Unmodified _VGRRVEAP_ 0 0 0 ENST00000327483.9_1_16:88947150-88949114:-|nuORF ENST00000327483.9_1_16:88947150-88949114:-|nuORF ENST00000327483.9_1_16:88947150-88949114:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.2607421875 2 442.259051 882.503549 3.2995 0.0014592 -0.036755 -1.6255E-05 3.2627 0.001443 442.25889563284636 96.833 0.32633 97.435 97.238 97.564 0.6019 23 13 2 0 0 0 0.74071 2 44506 44506;44570 2.5775 0 1 723640 34839 6965 22167 22236 39158;39159 39158 0.057597401944121884 VGRRVKEM 8 Unmodified _VGRRVKEM_ 0 0 0 ENST00000437374.5_1_10:1068715-1089667:+|nuORF;ENST00000428780.2_1_10:1068608-1089667:+|nuORF ENST00000437374.5_1_10:1068715-1089667:+|nuORF ENST00000437374.5_1_10:1068715-1089667:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2931213378906 2 487.781836 973.549119 3.8605 0.0018831 2.1057 0.0010271 5.9662 0.0029102 487.7823595266399 95.504 0.23253 95.772 95.668 95.901 0.2675 16 13 2 0 0 0 0.14267 1 43863 43863 2.5775 0.27475 1 206190 34840 7828 22168 22237 39160 39160 0.061286423851584004 VGRRVKPYI 9 Unmodified _VGRRVKPYI_ 0 0 0 ENSG00000163877|ENST00000296215|SNIP1 ENSG00000163877|ENST00000296215|SNIP1 ENSG00000163877|ENST00000296215|SNIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.3400268554688 2 544.340375 1086.6662 NaN NaN NaN NaN NaN NaN NaN 69.329 1 69.989 69.489 70.489 0.66071 0 0 0 0.90611 1 31780 31780 2.0598 0 1 34841 4259 22169 22238 39161 39161 0.12633123596401674 VGRRVLTRLL 10 Unmodified _VGRRVLTRLL_ 0 0 0 REV__ENSG00000164236|ENST00000296657|ANKRD33B REV__ENSG00000164236|ENST00000296657|ANKRD33B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.81298828125 2 591.893306 1181.77206 NaN NaN NaN NaN NaN NaN NaN 73.943 1 74.201 73.701 74.701 0.25876 0 0 0 0.97944 1 33977 33977 8.7454 1.4562 1 + 34842 13077 22170 22239 39162 39162 0.18844459441879735 VGRRVREWKQE 11 Unmodified _VGRRVREWKQE_ 0 0 0 REV__ENST00000493195.5_1_1:159898873-159900045:-|nuORF REV__ENST00000493195.5_1_1:159898873-159900045:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 721.5826416015625 2 721.902391 1441.79023 NaN NaN NaN NaN NaN NaN NaN 55.707 1 55.707 55.207 56.207 0 0 0 0 1.0034 1 25617 25617 6.2058 0 1 + 34843 16816 22171 22240 39163 39163 0.08700549625928033 VGRRVVDRPP 10 Unmodified _VGRRVVDRPP_ 0 0 0 REV__ENST00000495259.1_1_1:214776833-214776908:+|nuORF REV__ENST00000495259.1_1_1:214776833-214776908:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.1583862304688 2 575.843813 1149.67307 NaN NaN NaN NaN NaN NaN NaN 87.289 1 87.539 87.039 88.039 0.24974 0 0 0 0.99774 1 40176 40176 3.5965 0.31518 1 + 34844 16836 22172 22241 39164 39164 0.10422436476983421 VGRRWFFL 8 Unmodified _VGRRWFFL_ 0 0 0 REV__ENST00000483466.5_1_3:66023948-66024068:-|nuORF REV__ENST00000483466.5_1_3:66023948-66024068:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.8078002929688 2 540.808711 1079.60287 NaN NaN NaN NaN NaN NaN NaN 15.871 1 15.871 15.371 16.371 0 0 0 0 0.99035 1 7023 7023 0.79363 0.10326 1 + 34845 16721 22173 22242 39165 39165 0.06625182879179192 VGRSFHWET 9 Unmodified _VGRSFHWET_ 0 0 0 REV__ENST00000466609.1_1_3:98378565-98379411:+|nuORF REV__ENST00000466609.1_1_3:98378565-98379411:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.8148193359375 2 559.772522 1117.53049 NaN NaN NaN NaN NaN NaN NaN 37.077 1 37.871 37.371 38.371 0.79342 0 0 0 0.91206 1 16800 16800 0.6015 0 1 + 34846 16546 22174 22243 39166 39166 -0.023571959850414714 VGRSHIKNALL 11 Unmodified _VGRSHIKNALL_ 0 0 0 ENST00000462825.5_1_X:154011696-154028031:-|nuORF;nc|ENSG00000130830|Q00013-2|MPP1;nc|ENSG00000130830|Q00013-3|MPP1;ENSG00000130830|ENST00000369534|MPP1 ENST00000462825.5_1_X:154011696-154028031:-|nuORF ENST00000462825.5_1_X:154011696-154028031:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.3674926757812 2 604.367121 1206.71969 3.1341 0.0018941 -1.9538 -0.0011808 1.1803 0.00071331 604.3659179036425 100.06 0.11736 100.06 99.984 100.1 0 23 8 4 0 0 0 0.91359 1 55143 55143 1.1933 0 1 19360000 34847 2626 22175 22244 39167 39167 0.12459876308253115 VGRSSKQL 8 Unmodified _VGRSSKQL_ 0 0 0 ENSG00000116260|ENST00000367602|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 ENSG00000116260|ENST00000367602|QSOX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.7597351074219 2 437.758884 873.503215 NaN NaN NaN NaN NaN NaN NaN 10.814 1 11.093 10.593 11.593 0.2792 0 0 0 0.99035 1 4697 4697 0.79363 0 1 34848 2023 22176 22245 39168 39168 0.06140320474571581 VGRTAANKI 9 Unmodified _VGRTAANKI_ 0 0 0 nc|ENSG00000197321|O95425-2|SVIL;SVIL|p.L2113Dfs*17|1|0.07|ENSG00000197321|chr10:29462341-29462342|AG/-|frameshift_variant;nc|ENSG00000197321|O95425-4|SVIL;nc|ENSG00000197321|O95425-3|SVIL;ENSG00000197321|ENST00000355867|SVIL nc|ENSG00000197321|O95425-2|SVIL nc|ENSG00000197321|O95425-2|SVIL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.28131103515625 2 465.279983 928.545414 2.6228 0.0012203 1.0699 0.0004978 3.6926 0.0017181 465.28028250970317 82.731 0.50254 82.978 82.756 83.259 0.24722 43 24 3 0 0 0 1.129 1 38139 38139 1.8442 1.0506 1 903020 34849 5806 22177 22246 39169 39169 0.07828295882939074 VGRTAIRQ 8 Unmodified _VGRTAIRQ_ 0 0 0 REV__RRP15|p.I248Ffs*15|1|0.16|ENSG00000067533|chr1:218330983-218330996|GATCCTACGTGATG/-|frameshift_variant REV__RRP15|p.I248Ffs*15|1|0.16|ENSG00000067533|chr1:218330983-218330996|GATCCTACGTGATG/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.7736511230469 2 450.772326 899.530098 NaN NaN NaN NaN NaN NaN NaN 97.265 1 97.554 97.054 98.054 0.28923 0 0 0 0.99035 1 44676 44676 2.3027 0 1 + 34850 10455 22178 22247 39170 39170 0.07631429085745367 VGRTAPFLL 9 Unmodified _VGRTAPFLL_ 0 0 0 REV__ENSG00000173334|ENST00000311922|TRIB1 REV__ENSG00000173334|ENST00000311922|TRIB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2962646484375 2 487.295102 972.575651 NaN NaN NaN NaN NaN NaN NaN 95.738 1 96.005 95.505 96.505 0.2675 0 0 0 0.90699 1 43990 43990 1.8442 1.0506 1 + 34851 13596 22179 22248 39171 39171 0.08826654548136048 VGRTDRPR 8 Unmodified _VGRTDRPR_ 0 0 0 REV__ENST00000552544.5_1_12:52463840-52464035:+|nuORF REV__ENST00000552544.5_1_12:52463840-52464035:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 956.379638671875 1 956.538437 955.531161 3.7429 0.0035803 1.1463 0.0010965 4.8892 0.0046767 956.5389830236455 19.96 0.06147 19.96 19.921 19.982 0 5 3 2 0 0 0 0.7471 1 8913 8913 0.79363 0 1 180220 + 34852 15424 22180 22249 39172 39172 0.05161643454653131 VGRTRRRRRFF 11 Unmodified _VGRTRRRRRFF_ 0 0 0 REV__ENST00000394833.6_1_4:103265936-103266233:-|nuORF REV__ENST00000394833.6_1_4:103265936-103266233:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 753.9559326171875 2 753.953084 1505.89161 NaN NaN NaN NaN NaN NaN NaN 49.65 1 49.65 49.15 50.15 0 0 0 0 1.008 1 22733 22733 0.35063 0.35063 1 + 34853 15975 22181 22250 39173 39173 0.15890465839106582 VGRVGPRA 8 Unmodified _VGRVGPRA_ 0 0 0 REV__ENST00000433688.2_2_11:63531028-63531832:-|nuORF REV__ENST00000433688.2_2_11:63531028-63531832:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 811.4935913085938 1 811.489696 810.48242 4.4643 0.0036228 -0.08571 -6.9553E-05 4.3786 0.0035532 811.489518588355 93.359 0.32127 93.614 93.446 93.767 0.25497 21 13 2 0 0 0 0.7471 1 42946 42946 0.79363 0 1 889600 + 34854 16287 22182 22251 39174 39174 0.06959774885547176 VGRVGPRA 8 Unmodified _VGRVGPRA_ 0 0 0 REV__ENST00000433688.2_2_11:63531028-63531832:-|nuORF REV__ENST00000433688.2_2_11:63531028-63531832:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 811.4928588867188 1 811.489696 810.48242 4.0757 0.0033074 -0.08395 -6.8125E-05 3.9917 0.0032392 811.4895637558939 82.672 0.39653 83.333 83.094 83.491 0.66019 51 22 3 0 0 0 0.7471 3 38053 38053;38101;38153 0.79363 0 1 2444900 + 34855 16287 22182 22251 39175;39176;39177 39175 0.06959774885547176 VGRVGPRA 8 Unmodified _VGRVGPRA_ 0 0 0 REV__ENST00000433688.2_2_11:63531028-63531832:-|nuORF REV__ENST00000433688.2_2_11:63531028-63531832:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 811.4940185546875 1 811.489696 810.48242 4.1228 0.0033456 -0.25444 -0.00020647 3.8684 0.0031392 811.4890028864489 90.554 0.34335 91.227 91.036 91.379 0.67271 23 15 2 0 0 0 0.7471 1 41663 41663 0.79363 0 1 793840 + 34856 16287 22182 22251 39178 39178 0.06959774885547176 VGRVGPRA 8 Unmodified _VGRVGPRA_ 0 0 0 REV__ENST00000433688.2_2_11:63531028-63531832:-|nuORF REV__ENST00000433688.2_2_11:63531028-63531832:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 811.489696 810.48242 4.4643 0.0036228 -0.08571 -6.9553E-05 4.3786 0.0035532 811.489518588355 93.359 0.32127 93.614 93.446 93.767 0.25497 0.018379 0.00031666 NaN 0.79363 21 13 2 NaN NaN NaN NaN 0 NaN NaN 0 889600 + 34857 16287 22182 22251 0.06959774885547176 VGRVGPRA 8 Unmodified _VGRVGPRA_ 0 0 0 REV__ENST00000433688.2_2_11:63531028-63531832:-|nuORF REV__ENST00000433688.2_2_11:63531028-63531832:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 811.489696 810.48242 4.1373 0.0033574 -0.76607 -0.00062166 3.3712 0.0027357 811.4892007354275 92.93 0.29886 93.577 93.415 93.714 0.64715 -0.018379 -0.00023545 NaN 0.79363 23 14 2 NaN NaN NaN NaN 0 NaN NaN 0 843620 + 34858 16287 22182 22251 0.06959774885547176 VGRVHRLLR 9 Unmodified _VGRVHRLLR_ 0 0 0 nc|ENSG00000246705|Q9BTM1-2|H2AJ;ENSG00000274997|ENST00000377459|H2AC12;ENSG00000188486|ENST00000530167|H2AX;ENSG00000180573|ENST00000377791|H2AC6;ENSG00000181218|ENST00000689584|H2AC25;ENSG00000196747|ENST00000358739|H2AC13;ENSG00000196787|ENST00000359193|H2AC11;ENSG00000196866|ENST00000341023|H2AC7;ENSG00000276903|ENST00000613174|H2AC16;ENSG00000277075|ENST00000303910|H2AC8;ENSG00000278463|ENST00000615868|H2AC4;ENSG00000278677|ENST00000359611|H2AC17;nc|ENSG00000288859|Q6FI13|H2AC18;ENSG00000184260|ENST00000331380|H2AC20;ENSG00000246705|ENST00000544848|H2AJ;ENSG00000276368|ENST00000333151|H2AC14;ENSG00000184270|ENST00000331128|H2AC21 nc|ENSG00000246705|Q9BTM1-2|H2AJ nc|ENSG00000246705|Q9BTM1-2|H2AJ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.35546875 2 553.356891 1104.69923 NaN NaN NaN NaN NaN NaN NaN 15.653 1 15.653 15.153 16.153 0 0 0 0 0.91206 1 6922 6922 0.6015 0.14316 1 34859 5255 22183 22252 39179 39179 0.15106750439099415 VGRVKLRKI 9 Unmodified _VGRVKLRKI_ 0 0 0 ENSG00000233436|ENST00000422652|BTBD18 ENSG00000233436|ENST00000422652|BTBD18 ENSG00000233436|ENST00000422652|BTBD18 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.0660400390625 2 534.871843 1067.72913 NaN NaN NaN NaN NaN NaN NaN 100.98 1 101.3 100.8 101.8 0.31412 0 0 0 0.91206 1 46731 46731 0.6015 0 1 34860 6192 22184 22253 39180 39180 0.19797689384449768 VGRVRGYA 8 Unmodified _VGRVRGYA_ 0 0 0 REV__ENSG00000169992|ENST00000302926|NLGN2 REV__ENSG00000169992|ENST00000302926|NLGN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 438.7868347167969 2 439.253769 876.492984 NaN NaN NaN NaN NaN NaN NaN 78.073 1 78.326 77.826 78.826 0.25335 0 0 0 0.99035 1 35955 35955 2.5775 0.51773 1 + 34861 13415 22185 22254 39181 39181 0.049797575399907146 VGRVRQPKKKK 11 Unmodified _VGRVRQPKKKK_ 0 0 0 REV__ENSG00000087365|ENST00000322535|SF3B2 REV__ENSG00000087365|ENST00000322535|SF3B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 662.4400024414062 2 662.438412 1322.86227 NaN NaN NaN NaN NaN NaN NaN 21.446 1 21.446 20.946 21.946 0 0 0 0 1.0072 1 9602 9602 1.3295 0.13619 1 + 34862 10670 22186 22255 39182 39182 0.2137550877027934 VGRVRQPKKKK 11 Unmodified _VGRVRQPKKKK_ 0 0 0 REV__ENSG00000087365|ENST00000322535|SF3B2 REV__ENSG00000087365|ENST00000322535|SF3B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 662.438720703125 2 662.438412 1322.86227 NaN NaN NaN NaN NaN NaN NaN 16.005 1 16.216 15.716 16.716 0.21108 0 0 0 1.008 1 7068 7068 0.35063 0.35063 1 + 34863 10670 22186 22255 39183 39183 0.2137550877027934 VGRVRRRRRGR 11 Unmodified _VGRVRRRRRGR_ 0 0 0 ENST00000453080.5_1_15:43882136-43882349:-|nuORF ENST00000453080.5_1_15:43882136-43882349:-|nuORF ENST00000453080.5_1_15:43882136-43882349:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 712.4548950195312 2 712.456325 1422.8981 NaN NaN NaN NaN NaN NaN NaN 65.654 1 66.311 65.811 66.811 0.65672 0 0 0 1.008 1 30099 30099 0.35063 0 1 34864 8030 22187 22256 39184 39184 0.20356403790515287 VGRVRYLLEQ 10 Unmodified _VGRVRYLLEQ_ 0 0 0 ENST00000479280.5_1_3:127391883-127395444:+|nuORF;ENSG00000114626|ENST00000232744|ABTB1;ENST00000493365.5_1_3:127391868-127394958:+|nuORF ENST00000479280.5_1_3:127391883-127395444:+|nuORF ENST00000479280.5_1_3:127391883-127395444:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.864990234375 2 616.859129 1231.70371 NaN NaN NaN NaN NaN NaN NaN 32.021 1 32.809 32.309 33.309 0.78795 0 0 0 1.0001 1 14473 14473 1.6526 0.17072 1 34865 1914 22188 22257 39185 39185 0.09712170071384207 VGRVTRRHRE 10 Unmodified _VGRVTRRHRE_ 0 0 0 ENST00000528796.5_1_11:3400300-3400357:-|nuORF ENST00000528796.5_1_11:3400300-3400357:-|nuORF ENST00000528796.5_1_11:3400300-3400357:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.37158203125 2 633.368518 1264.72248 4.1316 0.0026168 1.0957 0.00069396 5.2272 0.0033108 633.3690522411799 89.672 1.7163 89.923 89.418 91.134 0.25137 145 83 3 0 0 0 0.94217 3 41173 41173;41271;41389 0.45834 0 1 1444700 34866 8693 22189 22258 39186;39187;39188 39186 0.1007114448577795 VGRVTRRHRE 10 Unmodified _VGRVTRRHRE_ 0 0 0 ENST00000528796.5_1_11:3400300-3400357:-|nuORF ENST00000528796.5_1_11:3400300-3400357:-|nuORF ENST00000528796.5_1_11:3400300-3400357:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3719482421875 2 633.368518 1264.72248 4.0832 0.0025862 1.0278 0.00065096 5.111 0.0032371 633.3691838395806 92.5 1.1702 93.147 92.609 93.779 0.64714 142 59 3 0 0 0 0.93713 1 42335 42335 1.4819 0.28856 1 1329200 34867 8693 22189 22258 39189 39189 0.1007114448577795 VGRVTRRHRE 10 Unmodified _VGRVTRRHRE_ 0 0 0 ENST00000528796.5_1_11:3400300-3400357:-|nuORF ENST00000528796.5_1_11:3400300-3400357:-|nuORF ENST00000528796.5_1_11:3400300-3400357:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3728637695312 2 633.368518 1264.72248 NaN NaN NaN NaN NaN NaN NaN 104.76 1 105.36 104.86 105.86 0.59885 0 0 0 1.0015 1 48394 48394 0.45834 0 1 34868 8693 22189 22258 39190 39190 0.1007114448577795 VGRVVRAGAFI 11 Unmodified _VGRVVRAGAFI_ 0 0 0 REV__ENSG00000101752|ENST00000261537|MIB1 REV__ENSG00000101752|ENST00000261537|MIB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 382.2371826171875 3 382.236497 1143.68766 2.8956 0.0011068 -0.42792 -0.00016357 2.4677 0.00094325 382.23630784452087 8.4469 0.45046 8.4469 8.1219 8.5723 0 81 46 2 0 0 0 0.91068 1 3758 3758 1.3296 0.25818 1 65646 + 34869 10909 22190 22259 39191 39191 0.12156508625139395 VGRYKQHYY 9 Unmodified _VGRYKQHYY_ 0 0 0 REV__ENSG00000127951|ENST00000248598|FGL2 REV__ENSG00000127951|ENST00000248598|FGL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 607.3115844726562 2 607.309272 1212.60399 3.2003 0.0019435 -0.1343 -8.1562E-05 3.066 0.001862 607.3095785371039 103.41 0.16226 103.41 103.36 103.52 0 17 10 2 0 0 0 1.2078 1 56993 56993 0.6015 0.14316 1 476950 + 34870 11752 22191 22260 39192 39192 0.006193524574200637 VGRYKQHYY 9 Unmodified _VGRYKQHYY_ 0 0 0 REV__ENSG00000127951|ENST00000248598|FGL2 REV__ENSG00000127951|ENST00000248598|FGL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 607.3106689453125 2 607.309272 1212.60399 2.1178 0.0012862 0.32477 0.00019724 2.4426 0.0014834 607.309554975659 103.55 0.37252 103.61 103.45 103.82 0.055092 40 27 2 0 0 0 1.2078 1 56150 56150 0.6015 0.076735 1 443720 + 34871 11752 22191 22260 39193 39193 0.006193524574200637 VGRYKQHYY 9 Unmodified _VGRYKQHYY_ 0 0 0 REV__ENSG00000127951|ENST00000248598|FGL2 REV__ENSG00000127951|ENST00000248598|FGL2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 607.5989379882812 2 607.309272 1212.60399 2.1178 0.0012862 0.32477 0.00019724 2.4426 0.0014834 607.309554975659 103.55 0.37252 103.61 103.45 103.82 0.055092 40 27 2 0 0 0 0.11408 1 56214 56214 0.6015 0 1 443720 + 34872 11752 22191 22260 39194 39194 0.006193524574200637 VGRYLKIIQLF 11 Unmodified _VGRYLKIIQLF_ 0 0 0 REV__ENST00000381604.8_1_10:300365-300500:+|nuORF REV__ENST00000381604.8_1_10:300365-300500:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 675.4194946289062 2 675.418823 1348.82309 NaN NaN NaN NaN NaN NaN NaN 39.646 1 40.446 39.946 40.946 0.80014 0 0 0 1.008 1 17949 17949 0.35063 0.35063 1 + 34873 15894 22192 22261 39195 39195 0.16263363696066335 VGRYRWWPAE 10 Unmodified _VGRYRWWPAE_ 0 0 0 nc|ENSG00000165671|Q96L73-2|NSD1;nc|ENSG00000165671|Q96L73-3|NSD1;ENSG00000165671|ENST00000439151|NSD1 nc|ENSG00000165671|Q96L73-2|NSD1 nc|ENSG00000165671|Q96L73-2|NSD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 440.5606994628906 3 440.55964 1318.65709 NaN NaN NaN NaN NaN NaN NaN 16.616 1 16.616 16.116 17.116 0 0 0 0 1.0018 1 7364 7364 0.15932 0 1 34874 4414 22193 22262 39196 39196 0.010507302400810659 VGRYYEEF 8 Unmodified _VGRYYEEF_ 0 0 0 ENST00000568613.5_1_16:88880849-88909575:-|nuORF;ENSG00000141012|ENST00000268695|GALNS ENST00000568613.5_1_16:88880849-88909575:-|nuORF ENST00000568613.5_1_16:88880849-88909575:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.2499389648438 2 531.748182 1061.48181 3.0002 0.0015953 0.42632 0.0002267 3.4265 0.001822 531.7483847710157 55.98 0.60267 55.98 55.853 56.455 0 92 46 3 0 0 0 0.47217 1 25930 25930 23.148 6.2061 1 1099100 34875 9068 22194 22263 39197 39197 -0.046471093448190004 VGSCRPCTCSS 11 Unmodified _VGSCRPCTCSS_ 0 0 0 REV__ENST00000227638.7_1_11:93911559-93911631:+|nuORF REV__ENST00000227638.7_1_11:93911559-93911631:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.2177124023438 2 550.220094 1098.42563 NaN NaN NaN NaN NaN NaN NaN 93.197 1 93.452 92.952 93.952 0.25497 0 0 0 1.0073 1 42836 42836 1.1933 0 1 + 34876 14838 22195 22264 39198 39198 -0.11964144839794244 VGSEREIKK 9 Unmodified _VGSEREIKK_ 0 0 0 ENST00000563642.6_1_16:1495237-1495390:-|nuORF ENST00000563642.6_1_16:1495237-1495390:-|nuORF ENST00000563642.6_1_16:1495237-1495390:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.3052978515625 2 523.303655 1044.59276 4.1806 0.0021877 0.20786 0.00010877 4.3885 0.0022965 523.3035438864764 96.805 0.31404 97.083 96.925 97.239 0.27779 35 18 2 0 0 0 1.2078 1 44453 44453 0.6015 0 1 1592200 34877 9016 22196 22265 39199 39199 0.07224530363282611 VGSFRQRQNRQ 11 Unmodified _VGSFRQRQNRQ_ 0 0 0 ENSG00000170255|ENST00000526914|MRGPRX1;ENSG00000179826|ENST00000621697|MRGPRX3;ENSG00000179817|ENST00000314254|MRGPRX4 ENSG00000170255|ENST00000526914|MRGPRX1 ENSG00000170255|ENST00000526914|MRGPRX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 688.3108520507812 2 688.368715 1374.72288 NaN NaN NaN NaN NaN NaN NaN 26.674 1 26.674 26.174 27.174 0 0 0 0 1.0072 1 12012 12012 1.3295 0.92882 1 34878 4735 22197 22266 39200 39200 0.050505194149764066 VGSGGSYG 8 Unmodified _VGSGGSYG_ 0 0 0 ENST00000592505.1_1_19:11038324-11039086:-|nuORF;ENSG00000130733|ENST00000586748|YIPF2 ENST00000592505.1_1_19:11038324-11039086:-|nuORF ENST00000592505.1_1_19:11038324-11039086:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 683.302490234375 1 683.299495 682.292219 3.6681 0.0025064 -0.28841 -0.00019707 3.3797 0.0023094 683.299311572016 14.263 0.13889 14.49 14.42 14.558 0.22622 17 11 2 0 0 0 0.7471 1 6280 6280 0.79363 0 1 384920 34879 2614 22198 22267 39201 39201 -0.06163556567332762 VGSGKLRR 8 Unmodified _VGSGKLRR_ 0 0 0 REV__nc|ENSG00000072042|Q8TC12-2|RDH11 REV__nc|ENSG00000072042|Q8TC12-2|RDH11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 872.5457153320312 1 872.54246 871.535184 4.0908 0.0035694 -0.051606 -4.5028E-05 4.0392 0.0035244 872.5422391228832 85.452 0.40474 86.118 85.922 86.327 0.66566 40 18 3 0 0 0 0.7471 3 39303 39303;39356;39402 0.79363 0 1 2940400 + 34880 10487 22199 22268 39202;39203;39204 39202 0.0942773294835888 VGSGKLRR 8 Unmodified _VGSGKLRR_ 0 0 0 REV__nc|ENSG00000072042|Q8TC12-2|RDH11 REV__nc|ENSG00000072042|Q8TC12-2|RDH11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 872.5458374023438 1 872.54246 871.535184 4.135 0.003608 -0.97565 -0.0008513 3.1593 0.0027567 872.5412113091679 92.916 0.21432 93.563 93.446 93.66 0.64715 13 10 2 0 0 0 0.7471 1 42781 42781 0.79363 0 1 406610 + 34881 10487 22199 22268 39205 39205 0.0942773294835888 VGSGLLWLAL 10 Unmodified _VGSGLLWLAL_ 0 0 0 nc|ENSG00000169347|P55259-4|GP2;nc|ENSG00000169347|P55259-2|GP2;ENSG00000169347|ENST00000302555|GP2;nc|ENSG00000169347|P55259|GP2 nc|ENSG00000169347|P55259-4|GP2 nc|ENSG00000169347|P55259-4|GP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.8091430664062 2 514.810585 1027.60662 NaN NaN NaN NaN NaN NaN NaN 18.116 1 18.417 17.917 18.917 0.30158 0 0 0 0.96627 1 8209 8209 10.824 0 1 34882 4685 22200 22269 39206 39206 0.09391807862357382 VGSGTYGD 8 Unmodified _VGSGTYGD_ 0 0 0 ENSG00000012983|ENST00000682126|MAP4K5 ENSG00000012983|ENST00000682126|MAP4K5 ENSG00000012983|ENST00000682126|MAP4K5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 756.4820556640625 1 755.320625 754.313348 2.387 0.0018029 -1.2296 -0.00092873 1.1574 0.00087421 755.3157882137687 105.5 0.051064 105.55 105.52 105.58 0.050888 5 3 2 0 0 0 0.74071 1 57078 57078 2.5775 0 1 1157200 34883 427 22201 22270 39207 39207 -0.07363591258479119 VGSHRRVRL 9 Unmodified _VGSHRRVRL_ 0 0 0 ENSG00000234186|ENST00000505035|C16orf82;nc|nan|Q7Z2V1|C16orf82 ENSG00000234186|ENST00000505035|C16orf82 ENSG00000234186|ENST00000505035|C16orf82 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.3323974609375 2 540.330873 1078.64719 3.5638 0.0019256 -1.091 -0.00058948 2.4728 0.0013361 540.3301507931077 96.384 0.26756 96.992 96.822 97.089 0.60769 19 11 2 0 0 0 1.2078 1 44294 44294 0.6015 0 1 720650 34884 6195 22202 22271 39208 39208 0.1110158702535955 VGSILAIKR 9 Unmodified _VGSILAIKR_ 0 0 0 ENST00000419314.5_1_7:64498910-64527388:+|nuORF ENST00000419314.5_1_7:64498910-64527388:+|nuORF ENST00000419314.5_1_7:64498910-64527388:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.81817626953125 2 478.816202 955.617851 NaN NaN NaN NaN NaN NaN NaN 12.44 1 13.083 12.583 13.583 0.64272 0 0 0 0.90335 1 5575 5575 4.756 0 1 34885 7739 22203 22272 39209 39209 0.13826629956508896 VGSIRCDWSRH 11 Unmodified _VGSIRCDWSRH_ 0 0 0 REV__ENSG00000205108|ENST00000378788|FAM205A REV__ENSG00000205108|ENST00000378788|FAM205A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 658.3184204101562 2 658.319845 1314.62514 NaN NaN NaN NaN NaN NaN NaN 39.227 1 40.025 39.525 40.525 0.79762 0 0 0 1.0072 1 17761 17761 1.3295 0.36726 1 + 34886 14453 22204 22273 39210 39210 -0.019590055053868127 VGSITETL 8 Unmodified _VGSITETL_ 0 0 0 nc|ENSG00000126500|Q9NZU1-1|FLRT1;ENSG00000126500|ENST00000682287|FLRT1 nc|ENSG00000126500|Q9NZU1-1|FLRT1 nc|ENSG00000126500|Q9NZU1-1|FLRT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 410.2268371582031 2 410.226551 818.438549 NaN NaN NaN NaN NaN NaN NaN 16.05 1 16.356 15.856 16.856 0.306 0 0 0 0.99035 1 7262 7262 2.8892 0 1 34887 2456 22205 22274 39211 39211 0.022067008779117714 VGSKRLRD 8 Unmodified _VGSKRLRD_ 0 0 0 REV__PABPC5|p.P300Ifs*14|1|0.06|ENSG00000174740|chrX:91436475-91436490|CCAGGGGTGCCTATCT/-|frameshift_variant REV__PABPC5|p.P300Ifs*14|1|0.06|ENSG00000174740|chrX:91436475-91436490|CCAGGGGTGCCTATCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.7794189453125 2 465.777608 929.540663 3.0955 0.0014418 0.12917 6.0164E-05 3.2247 0.001502 465.7775874744987 89.8 0.41331 90.051 89.863 90.277 0.25137 41 17 3 0 0 0 0.7441 1 41263 41263 2.3027 0 1 2380600 + 34888 13644 22206 22275 39212 39212 0.07307411740180214 VGSKRLRD 8 Unmodified _VGSKRLRD_ 0 0 0 REV__PABPC5|p.P300Ifs*14|1|0.06|ENSG00000174740|chrX:91436475-91436490|CCAGGGGTGCCTATCT/-|frameshift_variant REV__PABPC5|p.P300Ifs*14|1|0.06|ENSG00000174740|chrX:91436475-91436490|CCAGGGGTGCCTATCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.7796630859375 2 465.777608 929.540663 2.9803 0.0013881 0.89626 0.00041746 3.8765 0.0018056 465.7778912861039 88.558 0.40601 89.236 89.038 89.444 0.67818 24 17 2 0 0 0 0.7441 1 40793 40793 2.3027 0 1 340860 + 34889 13644 22206 22275 39213 39213 0.07307411740180214 VGSKRLVA 8 Unmodified _VGSKRLVA_ 0 0 0 REV__ENST00000357179.9_1_22:22330132-22337130:-|nuORF REV__ENST00000357179.9_1_22:22330132-22337130:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.8677062988281 2 415.266345 828.518136 3.1114 0.001292 1.7312 0.0007189 4.8425 0.0020109 415.2670501621078 66.196 0.13605 66.444 66.376 66.512 0.24848 9 8 2 0 0 0 0.14146 1 30313 30313 2.3027 0 1 517190 + 34890 15562 22207 22276 39214 39214 0.09701812342564153 VGSKRQVG 8 Unmodified _VGSKRQVG_ 0 0 0 nc|ENSG00000126822|A1L390-3|PLEKHG3;ENSG00000126822|ENST00000247226|PLEKHG3;nc|ENSG00000126822|A1L390-2|PLEKHG3 nc|ENSG00000126822|A1L390-3|PLEKHG3 nc|ENSG00000126822|A1L390-3|PLEKHG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 415.7458801269531 2 415.745776 829.477 NaN NaN NaN NaN NaN NaN NaN 60.642 1 60.642 60.142 61.142 0 0 0 0 0.99035 1 28207 28207 2.3027 0 1 34891 2466 22208 22277 39215 39215 0.05544051303093056 VGSKRRRW 8 Unmodified _VGSKRRRW_ 0 0 0 REV__nc|ENSG00000163518|Q96PJ5-2|FCRL4 REV__nc|ENSG00000163518|Q96PJ5-2|FCRL4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.8134155273438 2 522.812316 1043.61008 3.8561 0.002016 -1.1656 -0.00060939 2.6905 0.0014066 522.8115278912679 91.691 0.25978 91.943 91.805 92.065 0.25197 23 13 2 0 0 0 0.7471 1 42123 42123 0.79363 0 1 547220 + 34892 12994 22209 22278 39216 39216 0.0900191547959821 VGSKTTMR 8 Unmodified _VGSKTTMR_ 0 0 0 nc|ENSG00000110080|Q11206-7|ST3GAL4;nc|ENSG00000110080|Q11206-3|ST3GAL4;nc|ENSG00000110080|Q11206-6|ST3GAL4;nc|ENSG00000110080|Q11206-5|ST3GAL4;nc|ENSG00000110080|Q11206-2|ST3GAL4;ENSG00000110080|ENST00000444328|ST3GAL4;nc|ENSG00000110080|Q11206-4|ST3GAL4 nc|ENSG00000110080|Q11206-7|ST3GAL4 nc|ENSG00000110080|Q11206-7|ST3GAL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 440.2392578125 2 440.23947 878.464386 NaN NaN NaN NaN NaN NaN NaN 77.559 1 77.812 77.312 78.312 0.25335 0 0 0 0.99035 1 35719 35719 2.5775 0 1 34893 1699 22210 22279 39217 39217 0.02029271848539338 VGSLKLKPL 9 Unmodified _VGSLKLKPL_ 0 0 0 REV__nc|ENSG00000080823|Q9UQ07-6|MOK REV__nc|ENSG00000080823|Q9UQ07-6|MOK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.82421875 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 37.358 1 38.154 37.654 38.654 0.79552 0 0 0 0.90511 1 16928 16928 2.3027 0.4585 1 + 34894 10600 22211 22280 39218 39218 0.14868398242026615 VGSLKLKPL 9 Unmodified _VGSLKLKPL_ 0 0 0 REV__nc|ENSG00000080823|Q9UQ07-6|MOK REV__nc|ENSG00000080823|Q9UQ07-6|MOK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.82403564453125 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 37.489 1 38.121 37.621 38.621 0.63242 0 0 0 0.90511 1 17155 17155 2.3027 0.4585 1 + 34895 10600 22211 22280 39219 39219 0.14868398242026615 VGSLRLGLY 9 Unmodified _VGSLRLGLY_ 0 0 0 REV__ENST00000471477.1_1_9:101706343-101748400:+|nuORF REV__ENST00000471477.1_1_9:101706343-101748400:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.29302978515625 2 489.292559 976.570566 NaN NaN NaN NaN NaN NaN NaN 46.81 1 47.076 46.576 47.576 0.26561 0 0 0 0.89683 1 21394 21394 4.3292 0 1 + 34896 14409 22212 22281 39220 39220 0.08134350685509162 VGSLWPRN 8 Unmodified _VGSLWPRN_ 0 0 0 REV__nc|ENSG00000185973|Q9NVH6-3|TMLHE REV__nc|ENSG00000185973|Q9NVH6-3|TMLHE MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.7528381347656 2 464.753601 927.49265 NaN NaN NaN NaN NaN NaN NaN 83.833 1 84.08 83.58 84.58 0.24722 0 0 0 0.99035 1 38587 38587 2.5775 0 1 + 34897 18080 22213 22282 39221 39221 0.026003378201380656 VGSPEQDEKDE 11 Unmodified _VGSPEQDEKDE_ 0 0 0 REV__MYT1L|p.I952Sfs*39|1|0.23|ENSG00000186487|chr2:1840765-1840765|G/-|frameshift_variant REV__MYT1L|p.I952Sfs*39|1|0.23|ENSG00000186487|chr2:1840765-1840765|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 616.6575317382812 2 616.767497 1231.52044 NaN NaN NaN NaN NaN NaN NaN 93.64 1 93.895 93.395 94.395 0.25497 0 0 0 1.0072 1 43038 43038 1.3295 0.13619 1 + 34898 17847 22214 22283 39222 39222 -0.08605893291587563 VGSPRTSDLQ 10 Unmodified _VGSPRTSDLQ_ 0 0 0 nc|ENSG00000174516|Q8N2H9-4|PELI3;nc|ENSG00000174516|Q8N2H9-3|PELI3;nc|ENSG00000174516|Q8N2H9-2|PELI3;ENSG00000174516|ENST00000320740|PELI3 nc|ENSG00000174516|Q8N2H9-4|PELI3 nc|ENSG00000174516|Q8N2H9-4|PELI3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.2625732421875 2 530.275095 1058.53564 3.224 0.0017096 -1.506 -0.0007986 1.718 0.00091102 530.2744224074736 50.096 0.59472 50.753 50.436 51.031 0.65735 56 23 3 0 0 0 0.68517 1 23017 23017 13.906 0.86358 1 1144900 34899 4984 22215 22284 39223 39223 0.008710630869245506 VGSQLRSLT 9 Unmodified _VGSQLRSLT_ 0 0 0 nc|ENSG00000162692|P19320-2|VCAM1;nc|ENSG00000162692|P19320-3|VCAM1;ENSG00000162692|ENST00000294728|VCAM1;chr1:100724890-100732418|492|13.31|0.53|4.66|+|ENST00000370115|VCAM1,VCAM1 nc|ENSG00000162692|P19320-2|VCAM1 nc|ENSG00000162692|P19320-2|VCAM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.781005859375 2 480.777274 959.539994 3.1402 0.0015098 -0.15745 -7.5699E-05 2.9828 0.0014341 480.77711781343686 15.886 0.8739 15.886 15.438 16.312 0 261 108 3 0 0 0 1.0246 2 6873 6873;7175 3.5965 0 1 333280 34900 4158 22216 22285 39224;39225 39224 0.058605723004689025 VGSRKAAEQ 9 Unmodified _VGSRKAAEQ_ 0 0 0 nc|ENSG00000127946|O00291-3|HIP1;nc|ENSG00000127946|O00291-4|HIP1;ENSG00000127946|ENST00000336926|HIP1 nc|ENSG00000127946|O00291-3|HIP1 nc|ENSG00000127946|O00291-3|HIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.680908203125 2 473.259248 944.503943 NaN NaN NaN NaN NaN NaN NaN 79.422 1 80.083 79.583 80.583 0.66082 0 0 0 0.89683 1 36595 36595 4.3292 0 1 34901 2493 22217 22286 39226 39226 0.029471151236066362 VGSRKRSR 8 Unmodified _VGSRKRSR_ 0 0 0 nc|ENSG00000182196|Q66PJ3-5|ARL6IP4;nc|ENSG00000182196|Q66PJ3-10|ARL6IP4;nc|ENSG00000182196|Q66PJ3-9|ARL6IP4;nc|ENSG00000182196|Q66PJ3-7|ARL6IP4;ENSG00000182196|ENST00000315580|ARL6IP4;nc|ENSG00000182196|Q66PJ3-4|ARL6IP4;nc|ENSG00000182196|Q66PJ3-3|ARL6IP4;nc|ENSG00000182196|Q66PJ3-2|ARL6IP4;nc|ENSG00000182196|Q66PJ3-1|ARL6IP4;ENST00000540708.5_1_12:123465352-123465956:+|nuORF;ENST00000539576.5_1_12:123465267-123465956:+|nuORF;ENST00000392433.3_1_12:123465485-123465956:+|nuORF;nc|ENSG00000182196|Q66PJ3-6|ARL6IP4 nc|ENSG00000182196|Q66PJ3-5|ARL6IP4 nc|ENSG00000182196|Q66PJ3-5|ARL6IP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.28875732421875 2 473.288674 944.562795 NaN NaN NaN NaN NaN NaN NaN 82.16 1 82.82 82.32 83.32 0.65998 0 0 0 0.99035 1 37857 37857 2.3027 0 1 34902 5319 22218 22287 39227 39227 0.08829636208611191 VGSRRTAL 8 Unmodified _VGSRRTAL_ 0 0 0 ENST00000498075.1_1_6:99860605-99862533:-|nuORF ENST00000498075.1_1_6:99860605-99862533:-|nuORF ENST00000498075.1_1_6:99860605-99862533:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 859.3778076171875 1 859.510826 858.503549 2.3581 0.0020268 -2.9435 -0.0025299 -0.58537 -0.00050313 859.5096410244797 99.667 0.14952 99.73 99.662 99.811 0.062248 16 13 2 0 0 0 0.14111 1 53877 53877 5.7604 0 1 48044000 34903 8460 22219 22288 39228 39228 0.06863740194398815 VGSRTLSK 8 Unmodified _VGSRTLSK_ 0 0 0 ENST00000517557.5_1_8:97274268-97299434:+|nuORF;ENSG00000156471|ENST00000517309|PTDSS1 ENST00000517557.5_1_8:97274268-97299434:+|nuORF ENST00000517557.5_1_8:97274268-97299434:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 424.254638671875 2 424.253434 846.492316 NaN NaN NaN NaN NaN NaN NaN 14.97 1 14.97 14.47 15.47 0 0 0 0 0.99035 1 6607 6607 0.79363 0 1 34904 3912 22220 22289 39229 39229 0.06292918100291445 VGSSKNVE 8 Unmodified _VGSSKNVE_ 0 0 0 REV__ENSG00000283439|ENST00000636696|SPEM3 REV__ENSG00000283439|ENST00000636696|SPEM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 410.2281188964844 2 410.213975 818.413397 NaN NaN NaN NaN NaN NaN NaN 15.575 1 16.229 15.729 16.729 0.65356 0 0 0 0.99035 1 7015 7015 4.756 0 1 + 34905 14766 22221 22290 39230 39230 -0.0030735392466567646 VGSSLIPSTL 10 Unmodified _VGSSLIPSTL_ 0 0 0 REV__ENST00000607252.5_1_6:43275164-43275533:-|nuORF REV__ENST00000607252.5_1_6:43275164-43275533:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2832336425781 2 487.281857 972.549162 3.2407 0.0015791 0.37527 0.00018286 3.616 0.001762 487.2819367150849 48.898 0.25033 49.16 49.018 49.268 0.26209 13 9 2 0 0 0 0.085053 1 22356 22356 54.774 6.4277 1 583420 + 34906 17672 22222 22291 39231 39231 0.06178920866148019 VGSSNKWIVLS 11 Unmodified _VGSSNKWIVLS_ 0 0 0 REV__nc|ENSG00000142166|P17181-2|IFNAR1 REV__nc|ENSG00000142166|P17181-2|IFNAR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 595.3341064453125 2 595.332413 1188.65027 4.5551 0.0027118 -1.1335 -0.0006748 3.4216 0.002037 595.3316536030651 102.35 0.094826 102.67 102.62 102.71 0.31737 7 3 3 0 0 0 0.91068 1 47361 47361 1.3295 0 1 458020 + 34907 12313 22223 22292 39232 39232 0.06349372568843137 VGSSNKWIVLS 11 Unmodified _VGSSNKWIVLS_ 0 0 0 REV__nc|ENSG00000142166|P17181-2|IFNAR1 REV__nc|ENSG00000142166|P17181-2|IFNAR1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 595.332413 1188.65027 4.5551 0.0027118 -1.1335 -0.0006748 3.4216 0.002037 595.3316536030651 102.35 0.094826 102.67 102.62 102.71 0.31737 -0.13672 -2.8093E-05 NaN 1.3295 7 3 3 NaN NaN NaN NaN 0 NaN NaN 0 458020 + 34908 12313 22223 22292 0.06349372568843137 VGSSNKWIVLS 11 Unmodified _VGSSNKWIVLS_ 0 0 0 REV__nc|ENSG00000142166|P17181-2|IFNAR1 REV__nc|ENSG00000142166|P17181-2|IFNAR1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 595.332413 1188.65027 4.1741 0.002485 -0.8064 -0.00048008 3.3677 0.0020049 595.3309393917195 102.35 0.12568 102.94 102.85 102.97 0.59758 0.13672 0.00036136 NaN 1.3295 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 119580 + 34909 12313 22223 22292 0.06349372568843137 VGSSRVNWL 9 Unmodified _VGSSRVNWL_ 0 0 0 REV__ENSG00000153230|ENST00000283225|OR14K1 REV__ENSG00000153230|ENST00000283225|OR14K1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.8543701171875 3 339.854053 1016.54033 2.3939 0.00081358 -0.23053 -7.8347E-05 2.1634 0.00073524 339.854052273058 15.763 0.59713 15.763 15.448 16.045 0 139 72 3 0 0 0 1.101 1 7067 7067 1.1933 0 1 124230 + 34910 12674 22224 22293 39233 39233 0.032719920203248876 VGSTGKEEPGL 11 Unmodified _VGSTGKEEPGL_ 0 0 0 REV__ENSG00000198894|ENST00000361786|CIPC REV__ENSG00000198894|ENST00000361786|CIPC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.2897338867188 2 537.277303 1072.54005 3.4488 0.0018529 1.3353 0.0007174 4.784 0.0025703 537.2778283891741 13.041 0.14535 13.684 13.58 13.725 0.64272 10 4 3 0 0 0 0.87362 1 5838 5838 3.5965 0.31518 1 496090 + 34911 14377 22225 22294 39234 39234 0.006685275098107013 VGSTIFLAGI 10 Unmodified _VGSTIFLAGI_ 0 0 0 nc|ENSG00000123146|P48960-2|ADGRE5;nc|ENSG00000123146|P48960-3|ADGRE5;ENSG00000123146|ENST00000242786|ADGRE5 nc|ENSG00000123146|P48960-2|ADGRE5 nc|ENSG00000123146|P48960-2|ADGRE5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 326.52801513671875 3 326.527054 976.559333 2.2861 0.00074648 0.33043 0.00010789 2.6165 0.00085437 326.5272967481431 50.442 0.097939 50.703 50.647 50.745 0.26146 10 6 2 0 0 0 0.82431 1 23073 23073 3.8763 0.27984 1 636620 34912 2296 22226 22295 39235 39235 0.07011528591374372 VGSTWRFRVQ 10 Unmodified _VGSTWRFRVQ_ 0 0 0 ENSG00000147854|ENST00000276893|UHRF2;ENST00000431339.1_1_X:73326627-73327404:+|nuORF;ENST00000484159.5_1_9:6434093-6493966:+|nuORF;nc|ENSG00000147854|Q96PU4-2|UHRF2 ENSG00000147854|ENST00000276893|UHRF2 ENSG00000147854|ENST00000276893|UHRF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 618.3355102539062 2 618.335821 1234.65709 NaN NaN NaN NaN NaN NaN NaN 25.96 1 25.96 25.46 26.46 0 0 0 0 1.0001 1 11667 11667 1.6526 0.32309 1 34913 3584 22227 22296 39236 39236 0.049147302400797344 VGSVETLPYD 10 Unmodified _VGSVETLPYD_ 0 0 0 REV__ENST00000245543.5_1_17:73125491-73125692:+|nuORF REV__ENST00000245543.5_1_17:73125491-73125692:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.2662353515625 2 540.266404 1078.51826 NaN NaN NaN NaN NaN NaN NaN 94.72 1 94.98 94.48 95.48 0.25975 0 0 0 1.0001 1 43524 43524 1.6526 0 1 + 34914 14892 22228 22297 39237 39237 -0.017862772387616133 VGSVPSLA 8 Unmodified _VGSVPSLA_ 0 0 0 ENST00000480194.5_1_6:10748006-10756748:+|nuORF ENST00000480194.5_1_6:10748006-10756748:+|nuORF ENST00000480194.5_1_6:10748006-10756748:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.2130432128906 2 365.210704 728.406855 2.6784 0.00097817 1.3419 0.00049006 4.0202 0.0014682 365.2108186573859 36.626 0.43223 36.883 36.719 37.152 0.25768 28 15 3 0 0 0 0.13917 1 16704 16704 9.3474 3.587 1 1154300 34915 8274 22229 22298 39238 39238 0.0317875291460723 VGSVPSLA 8 Unmodified _VGSVPSLA_ 0 0 0 ENST00000480194.5_1_6:10748006-10756748:+|nuORF ENST00000480194.5_1_6:10748006-10756748:+|nuORF ENST00000480194.5_1_6:10748006-10756748:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 365.210704 728.406855 2.6844 0.00098037 2.5489 0.00093088 5.2333 0.0019112 365.2114653373342 36.677 0.35705 36.677 36.461 36.818 0 -0.14355 -0.00011503 NaN 9.3474 32 16 3 NaN NaN NaN NaN 0 NaN NaN 0 1144300 34916 8274 22229 22298 0.0317875291460723 VGSVPSLA 8 Unmodified _VGSVPSLA_ 0 0 0 ENST00000480194.5_1_6:10748006-10756748:+|nuORF ENST00000480194.5_1_6:10748006-10756748:+|nuORF ENST00000480194.5_1_6:10748006-10756748:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 365.210704 728.406855 2.4559 0.00089694 3.6823 0.0013448 6.1382 0.0022418 365.21206437648493 36.252 0.35845 37.045 36.874 37.233 0.79342 0.224 0.00071284 NaN 9.3474 37 15 3 NaN NaN NaN NaN 0 NaN NaN 0 583320 34917 8274 22229 22298 0.0317875291460723 VGSVSSSALAL 11 Unmodified _VGSVSSSALAL_ 0 0 0 nc|ENSG00000186334|Q495N2-2|SLC36A3;ENSG00000186334|ENST00000335230|SLC36A3;nc|ENSG00000186334|Q495N2-3|SLC36A3;ENSG00000123643|ENST00000243389|SLC36A1 nc|ENSG00000186334|Q495N2-2|SLC36A3 nc|ENSG00000186334|Q495N2-2|SLC36A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 330.85467529296875 3 330.853718 989.539325 2.2639 0.000749 0.60306 0.00019952 2.8669 0.00094853 330.85393632318187 14.846 0.47362 14.846 14.647 15.121 0 140 52 4 0 0 0 0.17308 3 6554 6510;6554;6601 17.863 5.2419 1 1320200 34918 5563 22230 22299 39239;39240;39241 39240 0.04413732860757591 VGSVSSSALAL 11 Unmodified _VGSVSSSALAL_ 0 0 0 nc|ENSG00000186334|Q495N2-2|SLC36A3;ENSG00000186334|ENST00000335230|SLC36A3;nc|ENSG00000186334|Q495N2-3|SLC36A3;ENSG00000123643|ENST00000243389|SLC36A1 nc|ENSG00000186334|Q495N2-2|SLC36A3 nc|ENSG00000186334|Q495N2-2|SLC36A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 330.8541564941406 3 330.853718 989.539325 2.3242 0.00076896 -0.099401 -3.2887E-05 2.2248 0.00073607 330.8537065804224 14.479 0.2291 14.705 14.573 14.802 0.22622 58 19 4 0 0 0 0.33315 2 6337 6337;6382 18.721 5.8486 1 2301700 34919 5563 22230 22299 39242;39243 39242 0.04413732860757591 VGSVSSSALAL 11 Unmodified _VGSVSSSALAL_ 0 0 0 nc|ENSG00000186334|Q495N2-2|SLC36A3;ENSG00000186334|ENST00000335230|SLC36A3;nc|ENSG00000186334|Q495N2-3|SLC36A3;ENSG00000123643|ENST00000243389|SLC36A1 nc|ENSG00000186334|Q495N2-2|SLC36A3 nc|ENSG00000186334|Q495N2-2|SLC36A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 330.8544616699219 3 330.853718 989.539325 2.357 0.00077983 0.11629 3.8474E-05 2.4733 0.0008183 330.85372581240046 14.122 0.15265 14.77 14.686 14.839 0.64819 49 24 3 0 0 0 0.33315 1 6366 6366 18.721 0 1 11488000 34920 5563 22230 22299 39244 39244 0.04413732860757591 VGSWSRQDY 9 Unmodified _VGSWSRQDY_ 0 0 0 ENST00000311086.8_1_5:173036374-173040193:-|nuORF;ENST00000477985.1_1_5:173036377-173043310:-|nuORF ENST00000311086.8_1_5:173036374-173040193:-|nuORF ENST00000311086.8_1_5:173036374-173040193:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.78369140625 2 549.254163 1096.49377 3.7599 0.0020651 0.55817 0.00030658 4.318 0.0023717 549.2545822400349 47.26 0.18794 47.523 47.368 47.556 0.26363 10 8 2 0 0 0 0.10986 1 21570 21570 4.756 0 1 251110 34921 6867 22231 22300 39245 39245 -0.05061492601635109 VGTARYMA 8 Unmodified _VGTARYMA_ 0 0 0 ENSG00000163513|ENST00000295754|TGFBR2;nc|ENSG00000163513|P37173-2|TGFBR2 ENSG00000163513|ENST00000295754|TGFBR2 ENSG00000163513|ENST00000295754|TGFBR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.24200439453125 2 434.720913 867.427273 NaN NaN NaN NaN NaN NaN NaN 64.635 1 64.635 64.135 65.135 0 0 0 0 0.99035 1 30662 30662 2.3027 0 1 34922 4214 22232 22301 39246 39246 -0.011743996972313653 VGTASVGTSEM 11 Unmodified _VGTASVGTSEM_ 0 0 0 REV__ENSG00000089847|ENST00000318934|ANKRD24 REV__ENSG00000089847|ENST00000318934|ANKRD24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 519.7447509765625 2 519.742239 1037.46993 3.2713 0.0017002 1.1803 0.00061347 4.4516 0.0023137 519.7427382441099 63.016 0.26906 63.266 63.149 63.418 0.24965 27 15 2 0 0 0 0.75723 1 28906 28906 8.7454 0.83525 1 806230 + 34923 10704 22233 22302 39247 39247 -0.04731094150292847 VGTDVLLRA 9 Unmodified _VGTDVLLRA_ 0 0 0 REV__Harlequin-int_dup434|chr17:80408952-80412448:+|1.933741223792221|0.062102870221105|4.96|534.0|192|2|anti-sense REV__Harlequin-int_dup434|chr17:80408952-80412448:+|1.933741223792221|0.062102870221105|4.96|534.0|192|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.2854309082031 2 472.282192 942.549831 NaN NaN NaN NaN NaN NaN NaN 94.301 1 94.919 94.419 95.419 0.61736 0 0 0 0.90611 1 43371 43371 2.0598 0.21551 1 + 34924 17717 22234 22303 39248 39248 0.0762576030585933 VGTFGWEK 8 Unmodified _VGTFGWEK_ 0 0 0 REV__nc|ENSG00000137098|Q99932-2|SPAG8 REV__nc|ENSG00000137098|Q99932-2|SPAG8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 462.2685546875 2 462.23471 922.454868 NaN NaN NaN NaN NaN NaN NaN 49.253 1 50.08 49.58 50.58 0.82705 0 0 0 0.99035 1 22438 22438 4.756 0 1 + 34925 17954 22235 22304 39249 39249 -0.009461731653459537 VGTGLTLLQR 10 Unmodified _VGTGLTLLQR_ 0 0 0 ENST00000345016.9_1_19:2101205-2101811:-|nuORF ENST00000345016.9_1_19:2101205-2101811:-|nuORF ENST00000345016.9_1_19:2101205-2101811:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.3238525390625 2 529.321848 1056.62914 NaN NaN NaN NaN NaN NaN NaN 92.049 1 92.302 91.802 92.802 0.25253 0 0 0 1.0001 1 42319 42319 1.6526 0.96225 1 34926 7107 22236 22305 39250 39250 0.10309407260001535 VGTGMSKS 8 Unmodified _VGTGMSKS_ 0 0 0 ENSG00000275342|ENST00000615670|PRAG1 ENSG00000275342|ENST00000615670|PRAG1 ENSG00000275342|ENST00000615670|PRAG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 767.5389404296875 1 766.376365 765.369089 3.302 0.0025306 -1.5302 -0.0011727 1.7718 0.0013579 766.3729029487068 92.548 0.037834 92.548 92.518 92.556 0 6 5 2 0 0 0 0.7441 1 49207 49207 2.3027 0 1 6640000 34927 6346 22237 22306 39251 39251 -0.022980813424965163 VGTGMSKS 8 Unmodified _VGTGMSKS_ 0 0 0 ENSG00000275342|ENST00000615670|PRAG1 ENSG00000275342|ENST00000615670|PRAG1 ENSG00000275342|ENST00000615670|PRAG1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 766.376365 765.369089 2.609 0.0019994 -2.9308 -0.0022461 -0.32184 -0.00024665 766.3747588652247 92.621 0.041832 92.707 92.674 92.716 0.086212 0.079755 -0.00029185 NaN 2.3027 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 9541500 34928 6346 22237 22306 -0.022980813424965163 VGTGPEVEII 10 Unmodified _VGTGPEVEII_ 0 0 0 REV__nc|ENSG00000008226|Q9Y238-3|DLEC1 REV__nc|ENSG00000008226|Q9Y238-3|DLEC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.2811279296875 2 507.279315 1012.54408 2.9311 0.0014869 0.21255 0.00010782 3.1437 0.0015947 507.279391304143 69.749 0.95627 70.409 70.129 71.085 0.66071 157 65 3 0 0 0 0.83621 1 32253 32253 6.7232 0.51738 1 3146800 + 34929 10206 22238 22307 39252 39252 0.03830617003529824 VGTGTFGRVHL 11 Unmodified _VGTGTFGRVHL_ 0 0 0 ENSG00000183943|ENST00000262848|PRKX ENSG00000183943|ENST00000262848|PRKX ENSG00000183943|ENST00000262848|PRKX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.88134765625 3 381.88049 1142.61964 NaN NaN NaN NaN NaN NaN NaN 14.076 1 14.076 13.576 14.576 0 0 0 0 1.0059 1 6193 6193 1.2148 0.021489 1 34930 5413 22239 22308 39253 39253 0.054036389744851476 VGTHVGKHVI 10 Unmodified _VGTHVGKHVI_ 0 0 0 REV__nc|ENSG00000090612|Q14587-2|ZNF268 REV__nc|ENSG00000090612|Q14587-2|ZNF268 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.8106079101562 2 523.808908 1045.60326 NaN NaN NaN NaN NaN NaN NaN 36.408 1 36.408 35.908 36.908 0 0 0 0 0.99733 1 16525 16525 3.9444 0.3479 1 + 34931 10714 22240 22309 39254 39254 0.08228557808365622 VGTIEKGRK 9 Unmodified _VGTIEKGRK_ 0 0 0 REV__nc|ENSG00000138592|P40818-2|USP8 REV__nc|ENSG00000138592|P40818-2|USP8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 494.30218505859375 2 494.300916 986.587279 2.6471 0.0013085 0.25638 0.00012673 2.9035 0.0014352 494.30092211000726 93.971 0.38692 93.971 93.758 94.145 0 130 51 3 0 0 0 1.2078 1 50241 50241 0.6015 0 1 35575000 + 34932 12170 22241 22310 39255 39255 0.09344851571484014 VGTIKKKC 8 Unmodified _VGTIKKKC_ 0 0 0 REV__ENST00000393551.5_1_5:176914951-176916539:-|nuORF REV__ENST00000393551.5_1_5:176914951-176916539:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 876.5347900390625 1 876.533535 875.526258 3.4113 0.0029901 -1.9018 -0.001667 1.5095 0.0013231 876.5311077161497 104.25 0.071243 104.25 104.21 104.28 0 5 3 2 0 0 0 0.7471 1 57393 57393 0.79363 0 1 534370 + 34933 15954 22242 22311 39256 39256 0.08351623267674313 VGTIKKKC 8 Unmodified _VGTIKKKC_ 0 0 0 REV__ENST00000393551.5_1_5:176914951-176916539:-|nuORF REV__ENST00000393551.5_1_5:176914951-176916539:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 876.533535 875.526258 3.4113 0.0029901 -1.9018 -0.001667 1.5095 0.0013231 876.5311077161497 104.25 0.071243 104.25 104.21 104.28 0 -0.14689 0.00085162 NaN 0.79363 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 534370 + 34934 15954 22242 22311 0.08351623267674313 VGTIKLKVFL 10 Unmodified _VGTIKLKVFL_ 0 0 0 ENSG00000129354|ENST00000250244|AP1M2;nc|ENSG00000129354|Q9Y6Q5-2|AP1M2 ENSG00000129354|ENST00000250244|AP1M2 ENSG00000129354|ENST00000250244|AP1M2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.820068359375 2 559.37081 1116.72707 NaN NaN NaN NaN NaN NaN NaN 93.804 1 94.059 93.559 94.559 0.25497 0 0 0 1.0015 1 43111 43111 0.45834 0 1 34935 2549 22243 22312 39257 39257 0.1733721585596868 VGTITKRR 8 Unmodified _VGTITKRR_ 0 0 0 REV__ENSG00000135540|ENST00000343505|NHSL1 REV__ENSG00000135540|ENST00000343505|NHSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.79693603515625 2 465.795801 929.577048 NaN NaN NaN NaN NaN NaN NaN 94.508 1 94.767 94.267 95.267 0.25975 0 0 0 0.99035 1 43428 43428 0.79363 0 1 + 34936 12025 22244 22313 39258 39258 0.10944288636892452 VGTKGKPIL 9 Unmodified _VGTKGKPIL_ 0 0 0 REV__ENSG00000233050|ENST00000437818|DEFB130B REV__ENSG00000233050|ENST00000437818|DEFB130B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 304.8677978515625 3 304.867411 911.580402 NaN NaN NaN NaN NaN NaN NaN 17.362 1 17.362 16.862 17.862 0 0 0 0 0.84134 1 7712 7712 4.897 0.95262 1 + 34937 14583 22245 22314 39259 39259 0.12107538690884212 VGTKIDPTL 9 Unmodified _VGTKIDPTL_ 0 0 0 nc|ENSG00000180574|Q2VIR3-2|EIF2S3B;ENSG00000180574|ENST00000538173|EIF2S3B;ENSG00000130741|ENST00000253039|EIF2S3 nc|ENSG00000180574|Q2VIR3-2|EIF2S3B nc|ENSG00000180574|Q2VIR3-2|EIF2S3B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 315.1881103515625 3 315.186809 942.538597 NaN NaN NaN NaN NaN NaN NaN 12.537 1 12.844 12.344 13.344 0.30727 0 0 0 0.75166 1 5654 5654 7.1017 0.90987 1 34938 2615 22246 22315 39260 39260 0.06502938211713172 VGTKLIRV 8 Unmodified _VGTKLIRV_ 0 0 0 nc|ENSG00000196159|Q6V0I7-2|FAT4;FAT4|p.I3381Kfs*8|1|0.06|ENSG00000196159|chr4:125451157-125451158|-/AACACTTCTCCAACAATAG|frameshift_variant;nc|ENSG00000196159|Q6V0I7-3|FAT4;nc|ENSG00000196159|Q6V0I7|FAT4;ENSG00000196159|ENST00000394329|FAT4 nc|ENSG00000196159|Q6V0I7-2|FAT4 nc|ENSG00000196159|Q6V0I7-2|FAT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 443.2978515625 2 443.297645 884.580737 NaN NaN NaN NaN NaN NaN NaN 74.988 1 75.652 75.152 76.152 0.6635 0 0 0 0.99035 1 36288 36288 0.79363 0 1 34939 9794 22247 22316 39261 39261 0.13382958410761603 VGTKLKIAQL 10 Unmodified _VGTKLKIAQL_ 0 0 0 ENSG00000159131|ENST00000381815|GART;ENST00000424203.5_1_21:34876433-34900844:-|nuORF ENSG00000159131|ENST00000381815|GART ENSG00000159131|ENST00000381815|GART MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.5706787109375 3 357.569253 1069.68593 2.7164 0.00097132 0.89498 0.00032002 3.6114 0.0012913 357.5695651211249 40.653 0.19916 41.294 41.229 41.428 0.64135 18 13 2 0 0 0 0.9406 1 18574 18574 0.77653 0 1 645470 34940 4009 22248 22317 39262 39262 0.15387454816504942 VGTKSLKRL 9 Unmodified _VGTKSLKRL_ 0 0 0 REV__ENSG00000163161|ENST00000285398|ERCC3 REV__ENSG00000163161|ENST00000285398|ERCC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.3294372558594 2 501.326934 1000.63931 NaN NaN NaN NaN NaN NaN NaN 79.844 1 80.094 79.594 80.594 0.24947 0 0 0 0.91206 1 36764 36764 0.6015 0 1 + 34941 12982 22249 22318 39263 39263 0.1390201498523993 VGTKSNPRV 9 Unmodified _VGTKSNPRV_ 0 0 0 REV__nc|ENSG00000165359|Q5JSJ4|INTS6L REV__nc|ENSG00000165359|Q5JSJ4|INTS6L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.27923583984375 2 479.277441 956.540328 3.3011 0.0015821 0.15389 7.3757E-05 3.455 0.0016559 479.2774601578249 91.874 0.48079 92.536 92.342 92.823 0.66197 63 23 4 0 0 0 1.1154 1 42265 42265 2.0598 1.2661 1 1951000 + 34942 13155 22250 22319 39264 39264 0.060319920203255606 VGTLDKAAAR 10 Unmodified _VGTLDKAAAR_ 0 0 0 REV__ENSG00000140743|ENST00000268383|CDR2 REV__ENSG00000140743|ENST00000268383|CDR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.29254150390625 2 501.290548 1000.56654 3.0512 0.0015295 0.63904 0.00032035 3.6902 0.0018499 501.2907932816766 78.748 1.673 78.999 78.211 79.884 0.25127 201 105 2 0 0 0 0.90859 1 36359 36359 3.2813 0.97858 1 1159000 + 34943 12264 22251 22320 39265 39265 0.06628261191792717 VGTLDKAAAR 10 Unmodified _VGTLDKAAAR_ 0 0 0 REV__ENSG00000140743|ENST00000268383|CDR2 REV__ENSG00000140743|ENST00000268383|CDR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.29229736328125 2 501.290548 1000.56654 3.1802 0.0015942 0.52714 0.00026425 3.7073 0.0018584 501.2907464807802 78.42 2.0239 79.082 78.283 80.307 0.66198 237 131 2 0 0 0 0.90859 1 36089 36089 3.2813 0.78282 1 1407600 + 34944 12264 22251 22320 39266 39266 0.06628261191792717 VGTLIYSQL 9 Unmodified _VGTLIYSQL_ 0 0 0 MER21A_dup1924|chr21:42596367-42597211:-|1.1454877344273586|0.0472559580865997|4.6|530.0|19|3|sense MER21A_dup1924|chr21:42596367-42597211:-|1.1454877344273586|0.0472559580865997|4.6|530.0|19|3|sense MER21A_dup1924|chr21:42596367-42597211:-|1.1454877344273586|0.0472559580865997|4.6|530.0|19|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.8595275878906 3 331.858692 992.554247 2.3292 0.00077296 0.76817 0.00025492 3.0974 0.0010279 331.85883014109424 27.39 0.21629 27.653 27.53 27.746 0.26245 33 21 2 0 0 0 0.27976 1 12435 12435 12.241 2.6967 1 863480 34945 9514 22252 22321 39267 39267 0.05767224728754172 VGTLNRPR 8 Unmodified _VGTLNRPR_ 0 0 0 nc|ENSG00000065361|P21860-4|ERBB3;ENSG00000065361|ENST00000267101|ERBB3;nc|ENSG00000065361|P21860-5|ERBB3 nc|ENSG00000065361|P21860-4|ERBB3 nc|ENSG00000065361|P21860-4|ERBB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.7735290527344 2 456.772326 911.530098 3.0894 0.0014112 0.050175 2.2918E-05 3.1396 0.0014341 456.77221093474145 83.855 0.38664 84.518 84.288 84.675 0.66219 62 24 4 0 0 0 0.74071 1 38571 38571 2.5775 0.27475 1 3334500 34946 688 22253 22322 39268 39268 0.07079429085740685 VGTLSPLII 9 Unmodified _VGTLSPLII_ 0 0 0 REV__ENST00000456291.1_3_9:123638279-123638699:-|nuORF REV__ENST00000456291.1_3_9:123638279-123638699:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.7950134277344 2 456.791861 911.569169 NaN NaN NaN NaN NaN NaN NaN 31.048 1 31.048 30.548 31.548 0 0 0 0 0.91206 1 14040 14040 0.6015 0 1 + 34947 16452 22254 22323 39269 39269 0.10984716596760791 VGTLSPLII 9 Unmodified _VGTLSPLII_ 0 0 0 REV__ENST00000456291.1_3_9:123638279-123638699:-|nuORF REV__ENST00000456291.1_3_9:123638279-123638699:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 912.5826416015625 1 912.576445 911.569169 3.8088 0.0034758 2.0135 0.0018374 5.8223 0.0053133 912.5778148370151 27.642 0.063915 28.264 28.221 28.285 0.62179 6 3 2 0 0 0 1.2078 1 12677 12677 0.6015 0 1 389200 + 34948 16452 22254 22323 39270 39270 0.10984716596760791 VGTLTKDRK 9 Unmodified _VGTLTKDRK_ 0 0 0 REV__ENSG00000161551|ENST00000638348|ZNF577 REV__ENSG00000161551|ENST00000638348|ZNF577 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.3084716796875 2 509.306198 1016.59784 3.533 0.0017994 0.063292 3.2235E-05 3.5962 0.0018316 509.3060528360534 87.605 0.82383 87.856 87.533 88.357 0.25065 63 34 3 0 0 0 1.1154 1 40312 40312 2.0598 0.21551 1 1797500 + 34949 12914 22255 22324 39271 39271 0.09020834225896124 VGTLTKDRK 9 Unmodified _VGTLTKDRK_ 0 0 0 REV__ENSG00000161551|ENST00000638348|ZNF577 REV__ENSG00000161551|ENST00000638348|ZNF577 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.3076477050781 2 509.306198 1016.59784 3.4808 0.0017728 0.20534 0.00010458 3.6861 0.0018774 509.3062983877125 87.164 0.83107 87.84 87.713 88.544 0.67555 65 40 3 0 0 0 1.1154 1 40155 40155 2.0598 0.21551 1 2225500 + 34950 12914 22255 22324 39272 39272 0.09020834225896124 VGTLVRRE 8 Unmodified _VGTLVRRE_ 0 0 0 nc|ENSG00000131067|Q9UJ14-5|GGT7 nc|ENSG00000131067|Q9UJ14-5|GGT7 nc|ENSG00000131067|Q9UJ14-5|GGT7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.28131103515625 2 465.279983 928.545414 2.6228 0.0012203 1.0699 0.0004978 3.6926 0.0017181 465.28028250970317 82.731 0.50254 82.978 82.756 83.259 0.24722 43 24 3 0 0 0 0.74071 1 38079 38079 2.5775 0 1 903020 34951 9641 22256 22325 39273 39273 0.07828295882939074 VGTLVRRES 9 Unmodified _VGTLVRRES_ 0 0 0 nc|ENSG00000131067|Q9UJ14-5|GGT7 nc|ENSG00000131067|Q9UJ14-5|GGT7 nc|ENSG00000131067|Q9UJ14-5|GGT7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.79791259765625 2 508.795998 1015.57744 3.3028 0.0016804 -0.14461 -7.3577E-05 3.1581 0.0016069 508.7958932295534 84.232 0.32028 84.48 84.3 84.62 0.24758 34 16 3 0 0 0 1.129 1 38774 38774 1.8442 1.8442 1 962930 34952 9641 22257 22326 39274 39274 0.07027663566088904 VGTPDEGL 8 Unmodified _VGTPDEGL_ 0 0 0 REV__nc|ENSG00000278570|Q9Y5X4-2|NR2E3 REV__nc|ENSG00000278570|Q9Y5X4-2|NR2E3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.19610595703125 2 394.195251 786.375948 NaN NaN NaN NaN NaN NaN NaN 13.534 1 13.842 13.342 14.342 0.30727 0 0 0 0.99035 1 6106 6106 2.8892 0 1 + 34953 14752 22258 22327 39275 39275 -0.025784451902836736 VGTPGPPEDG 10 Unmodified _VGTPGPPEDG_ 0 0 0 nc|ENSG00000020181|Q96PE1-2|ADGRA2;ENSG00000020181|ENST00000412232|ADGRA2 nc|ENSG00000020181|Q96PE1-2|ADGRA2 nc|ENSG00000020181|Q96PE1-2|ADGRA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.2161560058594 2 463.216714 924.418876 NaN NaN NaN NaN NaN NaN NaN 50.965 1 51.783 51.283 52.283 0.81738 0 0 0 1.0001 1 23214 23214 1.6526 0.85899 1 34954 452 22259 22328 39276 39276 -0.04635675132851702 VGTQLSILKR 10 Unmodified _VGTQLSILKR_ 0 0 0 REV__ENST00000533637.5_1_11:59556413-59568372:+|nuORF REV__ENST00000533637.5_1_11:59556413-59568372:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.85400390625 2 557.850773 1113.68699 3.493 0.0019486 0.043891 2.4485E-05 3.5369 0.0019731 557.8507766433557 15.56 0.71423 15.56 15.229 15.943 0 194 85 3 0 0 0 0.94217 2 6751 6751;7028 0.45834 0 1 232260 + 34955 17161 22260 22329 39277;39278 39277 0.13469669185428756 VGTQLSILKR 10 Unmodified _VGTQLSILKR_ 0 0 0 REV__ENST00000533637.5_1_11:59556413-59568372:+|nuORF REV__ENST00000533637.5_1_11:59556413-59568372:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.354248046875 2 557.850773 1113.68699 3.3658 0.0018776 0.58231 0.00032484 3.9481 0.0022025 558.3525530675165 17.864 0.24212 18.166 18.029 18.271 0.30158 34 21 2 0 0 0 0.94217 1 8106 8106 0.45834 0 1 137320 + 34956 17161 22260 22329 39279 39279 0.13469669185428756 VGTQLSILKR 10 Unmodified _VGTQLSILKR_ 0 0 0 REV__ENST00000533637.5_1_11:59556413-59568372:+|nuORF REV__ENST00000533637.5_1_11:59556413-59568372:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 557.850773 1113.68699 3.3658 0.0018776 0.58231 0.00032484 3.9481 0.0022025 558.3525530675165 17.864 0.24212 18.166 18.029 18.271 0.30158 -0.093516 9.9664E-05 NaN 0.45834 34 21 2 NaN NaN NaN NaN 0 NaN NaN 0 137320 + 34957 17161 22260 22329 0.13469669185428756 VGTQLSILKR 10 Unmodified _VGTQLSILKR_ 0 0 0 REV__ENST00000533637.5_1_11:59556413-59568372:+|nuORF REV__ENST00000533637.5_1_11:59556413-59568372:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 557.850773 1113.68699 3.5402 0.0019749 0.0091268 5.0914E-06 3.5493 0.00198 557.8506686943922 17.692 0.15396 18.353 18.307 18.461 0.66072 0.093516 -0.00053983 NaN 0.45834 25 19 2 NaN NaN NaN NaN 0 NaN NaN 0 603510 + 34958 17161 22260 22329 0.13469669185428756 VGTRPRDI 8 Unmodified _VGTRPRDI_ 0 0 0 ENST00000470945.1_1_2:179330657-179343310:-|nuORF ENST00000470945.1_1_2:179330657-179343310:-|nuORF ENST00000470945.1_1_2:179330657-179343310:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 457.26739501953125 2 457.264333 912.514114 3.1057 0.0014201 -1.5791 -0.00072207 1.5265 0.00069803 457.2647681423416 88.561 0.40601 89.239 89.038 89.444 0.67818 44 17 4 0 0 0 0.7471 1 40810 40810 0.79363 0 1 499250 34959 8178 22261 22330 39280 39280 0.054357228488470355 VGTRPRDI 8 Unmodified _VGTRPRDI_ 0 0 0 ENST00000470945.1_1_2:179330657-179343310:-|nuORF ENST00000470945.1_1_2:179330657-179343310:-|nuORF ENST00000470945.1_1_2:179330657-179343310:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 457.264333 912.514114 3.08 0.0014084 -0.0013349 -6.1041E-07 3.0787 0.0014078 457.26418066188245 88.927 0.36724 89.178 89.032 89.399 0.25118 -0.03064 0.00040598 NaN 0.79363 18 12 2 NaN NaN NaN NaN 0 NaN NaN 0 419590 34960 8178 22261 22330 0.054357228488470355 VGTRRCGC 8 Unmodified _VGTRRCGC_ 0 0 0 REV__ENST00000305747.10_2_2:169312905-169312971:+|nuORF REV__ENST00000305747.10_2_2:169312905-169312971:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 851.400634765625 1 851.397452 850.390176 3.4035 0.0028978 0.16627 0.00014157 3.5698 0.0030393 851.3974864320105 104.19 0.058578 104.19 104.15 104.21 0 6 2 3 0 0 0 0.7471 1 57360 57360 0.79363 0 1 12832000 + 34961 15228 22262 22331 39281 39281 -0.04100394514625805 VGTRRCGC 8 Unmodified _VGTRRCGC_ 0 0 0 REV__ENST00000305747.10_2_2:169312905-169312971:+|nuORF REV__ENST00000305747.10_2_2:169312905-169312971:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 851.0182495117188 1 851.397452 850.390176 2.3502 0.002001 1.0413 0.0008866 3.3916 0.0028876 851.3979666058377 104.13 0.062622 104.19 104.15 104.21 0.052994 16 5 4 0 0 0 0.7471 2 56389 56389;56402 0.79363 0 1 11164000 + 34962 15228 22262 22331 39282;39283 39282 -0.04100394514625805 VGTRRCGC 8 Unmodified _VGTRRCGC_ 0 0 0 REV__ENST00000305747.10_2_2:169312905-169312971:+|nuORF REV__ENST00000305747.10_2_2:169312905-169312971:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 851.0182495117188 1 851.397452 850.390176 2.3502 0.002001 1.0413 0.0008866 3.3916 0.0028876 851.3979666058377 104.13 0.062622 104.19 104.15 104.21 0.052994 16 5 4 0 0 0 0.14333 1 56389 56389 0.79363 0 1 11164000 + 34963 15228 22262 22331 39284 39284 -0.04100394514625805 VGTRRCGC 8 Unmodified _VGTRRCGC_ 0 0 0 REV__ENST00000305747.10_2_2:169312905-169312971:+|nuORF REV__ENST00000305747.10_2_2:169312905-169312971:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 851.397452 850.390176 3.4035 0.0028978 0.16627 0.00014157 3.5698 0.0030393 851.3974864320105 104.19 0.058578 104.19 104.15 104.21 0 0.0041005 -0.00020777 NaN 0.79363 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 12832000 + 34964 15228 22262 22331 -0.04100394514625805 VGTRRKKPP 9 Unmodified _VGTRRKKPP_ 0 0 0 REV__RPUSD2|p.P324Nfs*23|1|0.11|ENSG00000166133|chr15:40573592-40573593|-/AATT|frameshift_variant REV__RPUSD2|p.P324Nfs*23|1|0.11|ENSG00000166133|chr15:40573592-40573593|-/AATT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.8318481445312 2 519.830175 1037.6458 NaN NaN NaN NaN NaN NaN NaN 109.04 1 109.04 108.54 109.54 0 0 0 0 0.91206 1 59664 59664 0.6015 0 1 + 34965 13212 22263 22332 39285 39285 0.12847952936613183 VGTRRYFYQH 10 Unmodified _VGTRRYFYQH_ 0 0 0 REV__ENSG00000175073|ENST00000310421|VCPIP1 REV__ENSG00000175073|ENST00000310421|VCPIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.8388061523438 2 663.838728 1325.6629 NaN NaN NaN NaN NaN NaN NaN 77.047 1 77.303 76.803 77.803 0.25533 0 0 0 1.0015 1 35480 35480 0.45834 0 1 + 34966 13658 22264 22333 39286 39286 0.013098287517550489 VGTRVLPRR 9 Unmodified _VGTRVLPRR_ 0 0 0 REV__ENSG00000186326|ENST00000334176|RGS9BP REV__ENSG00000186326|ENST00000334176|RGS9BP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.3359985351562 2 527.335624 1052.6567 NaN NaN NaN NaN NaN NaN NaN 25.352 1 26.115 25.615 26.615 0.76356 0 0 0 0.91206 1 11377 11377 0.6015 0 1 + 34967 14051 22265 22334 39287 39287 0.13247355310886633 VGTRVLPRR 9 Unmodified _VGTRVLPRR_ 0 0 0 REV__ENSG00000186326|ENST00000334176|RGS9BP REV__ENSG00000186326|ENST00000334176|RGS9BP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.3348999023438 2 527.335624 1052.6567 NaN NaN NaN NaN NaN NaN NaN 80.211 1 80.531 80.031 81.031 0.31998 0 0 0 0.86044 1 39243 39243 7.2892 0.56607 1 + 34968 14051 22265 22334 39288 39288 0.13247355310886633 VGTRVSLSTI 10 Unmodified _VGTRVSLSTI_ 0 0 0 VN1R1|p.S199Ifs*32|1|0.04|ENSG00000178201|chr19:57455891-57455891|C/-|frameshift_variant;ENSG00000178201|ENST00000321039|VN1R1 VN1R1|p.S199Ifs*32|1|0.04|ENSG00000178201|chr19:57455891-57455891|C/-|frameshift_variant VN1R1|p.S199Ifs*32|1|0.04|ENSG00000178201|chr19:57455891-57455891|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 344.8744812011719 3 344.873113 1031.59751 2.4644 0.00084991 1.1143 0.0003843 3.5787 0.0012342 344.8733863864311 16.191 0.71934 16.191 15.783 16.502 0 159 87 2 0 0 0 0.9406 1 6993 6993 0.77653 0 1 116800 34969 5154 22266 22335 39289 39289 0.08297414506046152 VGTTTKKL 8 Unmodified _VGTTTKKL_ 0 0 0 REV__nc|ENSG00000197647|Q8N7K0-2|ZNF433 REV__nc|ENSG00000197647|Q8N7K0-2|ZNF433 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 424.2650146484375 2 424.26601 846.517468 NaN NaN NaN NaN NaN NaN NaN 11.627 1 11.907 11.407 12.407 0.2792 0 0 0 0.99035 1 5037 5037 0.79363 0.79363 1 + 34970 14296 22267 22336 39290 39290 0.08806972902857524 VGTTYPINL 9 Unmodified _VGTTYPINL_ 0 0 0 ENSG00000011677|ENST00000370314|GABRA3 ENSG00000011677|ENST00000370314|GABRA3 ENSG00000011677|ENST00000370314|GABRA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.2705078125 2 489.26875 976.522947 3.5855 0.0017543 -0.019248 -9.4176E-06 3.5662 0.0017448 489.26867678959553 31.674 0.52255 31.929 31.648 32.171 0.25452 131 40 4 0 0 0 0.041436 1 14416 14416 50.855 0 1 6148400 34971 420 22268 22337 39291 39291 0.033746516946507654 VGTTYPINL 9 Unmodified _VGTTYPINL_ 0 0 0 ENSG00000011677|ENST00000370314|GABRA3 ENSG00000011677|ENST00000370314|GABRA3 ENSG00000011677|ENST00000370314|GABRA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.2705078125 2 489.26875 976.522947 3.2019 0.0015666 0.10425 5.1006E-05 3.3061 0.0016176 489.26878881320016 31.193 0.44665 31.81 31.558 32.005 0.61737 94 29 4 0 0 0 0.020718 1 14276 14276 67.344 3.1075 1 7795800 34972 420 22268 22337 39292 39292 0.033746516946507654 VGTVQDVLIR 10 Unmodified _VGTVQDVLIR_ 0 0 0 REV__ENST00000474675.1_1_1:50659508-50663140:+|nuORF REV__ENST00000474675.1_1_1:50659508-50663140:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.327392578125 2 550.327131 1098.63971 NaN NaN NaN NaN NaN NaN NaN 66.756 1 67.413 66.913 67.913 0.65672 0 0 0 1.0003 1 30603 30603 1.4819 0 1 + 34973 12929 22269 22338 39293 39293 0.09433389914420331 VGTVRQIW 8 Unmodified _VGTVRQIW_ 0 0 0 REV__nc|ENSG00000127241|P48740|MASP1 REV__nc|ENSG00000127241|P48740|MASP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 320.19622802734375 3 320.187143 957.5396 NaN NaN NaN NaN NaN NaN NaN 19.961 1 20.62 20.12 21.12 0.6583 0 0 0 0.87555 1 9061 9061 13.906 1.6654 1 + 34974 17924 22270 22339 39294 39294 0.05913197371273782 VGTVRWRRL 9 Unmodified _VGTVRWRRL_ 0 0 0 REV__ENST00000467199.5_1_7:2279160-2279214:-|nuORF REV__ENST00000467199.5_1_7:2279160-2279214:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.15704345703125 3 381.568358 1141.68324 2.6249 0.0010016 -1.4097 -0.00053791 1.2151 0.00046366 381.5677495481507 18.164 0.20742 18.465 18.372 18.58 0.30159 35 22 2 0 0 0 0.10586 1 8225 8225 5.2969 0 1 245080 + 34975 16551 22271 22340 39295 39295 0.11807044202214456 VGTVVRTVV 9 Unmodified _VGTVVRTVV_ 0 0 0 REV__nc|ENSG00000185024|Q92994-6|BRF1 REV__nc|ENSG00000185024|Q92994-6|BRF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.2938232421875 2 465.292559 928.570566 NaN NaN NaN NaN NaN NaN NaN 25.561 1 26.324 25.824 26.824 0.76356 0 0 0 0.90611 1 11475 11475 2.0598 0 1 + 34976 18076 22272 22341 39296 39296 0.10342350685516521 VGVAGLWL 8 Unmodified _VGVAGLWL_ 0 0 0 REV__ENST00000478771.2_1_7:150037434-150037698:-|nuORF REV__ENST00000478771.2_1_7:150037434-150037698:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 407.74615478515625 2 407.744714 813.474875 2.8659 0.0011685 0.16167 6.5921E-05 3.0275 0.0012345 407.7446527235911 25.793 0.32236 26.418 26.218 26.54 0.62505 38 32 2 0 0 0 0.73686 1 11879 11879 2.8892 0 1 490040 + 34977 11086 22273 22342 39297 39297 0.06067622565274178 VGVAGTVHR 9 Unmodified _VGVAGTVHR_ 0 0 0 nc|nan|Q5JPI3-2|C3orf38;ENSG00000179021|ENST00000318887|C3orf38 nc|nan|Q5JPI3-2|C3orf38 nc|nan|Q5JPI3-2|C3orf38 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.26019287109375 2 448.259051 894.503549 3.2451 0.0014546 -0.27116 -0.00012155 2.9739 0.0013331 448.25879506902527 83.847 0.42058 84.509 84.254 84.675 0.66219 56 26 3 0 0 0 1.101 1 38658 38658 2.3027 0 1 2753500 34978 5193 22274 22343 39298 39298 0.05207740194418875 VGVAVTVE 8 Unmodified _VGVAVTVE_ 0 0 0 ENSG00000166948|ENST00000202625|TGM6 ENSG00000166948|ENST00000202625|TGM6 ENSG00000166948|ENST00000202625|TGM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 387.2244873046875 2 387.223811 772.433069 2.7161 0.0010517 2.5965 0.0010054 5.3125 0.0020571 387.22412094947487 38.971 0.29306 38.971 38.807 39.1 0 22 10 3 0 0 0 0.73686 1 17680 17680 2.8892 0 1 719110 34979 4520 22275 22344 39299 39299 0.03775022086097124 VGVAVTVE 8 Unmodified _VGVAVTVE_ 0 0 0 ENSG00000166948|ENST00000202625|TGM6 ENSG00000166948|ENST00000202625|TGM6 ENSG00000166948|ENST00000202625|TGM6 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 387.223811 772.433069 2.5345 0.00098142 3.3995 0.0013164 5.9341 0.0022978 387.2248967506516 37.844 0.24515 38.64 38.507 38.752 0.79552 -0.23961 0.00023113 NaN 2.8892 17 8 3 NaN NaN NaN NaN 0 NaN NaN 0 555700 34980 4520 22275 22344 0.03775022086097124 VGVAVTVE 8 Unmodified _VGVAVTVE_ 0 0 0 ENSG00000166948|ENST00000202625|TGM6 ENSG00000166948|ENST00000202625|TGM6 ENSG00000166948|ENST00000202625|TGM6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 387.223811 772.433069 2.7048 0.0010474 3.3031 0.001279 6.0079 0.0023264 387.2249109309841 38.724 0.32781 38.988 38.865 39.193 0.26408 0.10871 0.00015645 NaN 2.8892 21 13 2 NaN NaN NaN NaN 0 NaN NaN 0 903160 34981 4520 22275 22344 0.03775022086097124 VGVAVTVE 8 Unmodified _VGVAVTVE_ 0 0 0 ENSG00000166948|ENST00000202625|TGM6 ENSG00000166948|ENST00000202625|TGM6 ENSG00000166948|ENST00000202625|TGM6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 387.223811 772.433069 2.6625 0.001031 2.2057 0.00085412 4.8682 0.0018851 387.22414247343806 38.286 0.39509 38.92 38.703 39.098 0.63388 0.039925 -0.00069341 NaN 2.8892 30 17 2 NaN NaN NaN NaN 0 NaN NaN 0 570300 34982 4520 22275 22344 0.03775022086097124 VGVAVVNGL 9 Unmodified _VGVAVVNGL_ 0 0 0 ENST00000461084.5_1_3:47324437-47378284:+|nuORF;nc|ENSG00000114648|O94889-2|KLHL18;ENSG00000114648|ENST00000232766|KLHL18 ENST00000461084.5_1_3:47324437-47378284:+|nuORF ENST00000461084.5_1_3:47324437-47378284:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.25311279296875 2 414.252903 826.491253 NaN NaN NaN NaN NaN NaN NaN 47.586 1 47.85 47.35 48.35 0.26363 0 0 0 0.89683 1 21746 21746 4.3292 1.7518 1 34983 1916 22276 22345 39300 39300 0.07106703731381003 VGVCLLGVLA 10 Unmodified _VGVCLLGVLA_ 0 0 0 nc|ENSG00000136295|Q9C0H2-4|TTYH3;ENSG00000136295|ENST00000258796|TTYH3;nc|ENSG00000136295|Q9C0H2-3|TTYH3 nc|ENSG00000136295|Q9C0H2-4|TTYH3 nc|ENSG00000136295|Q9C0H2-4|TTYH3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.2896423339844 2 472.285889 942.557224 NaN NaN NaN NaN NaN NaN NaN 93.41 1 93.665 93.165 94.165 0.25497 0 0 0 0.99983 1 42933 42933 1.8442 1.2427 1 34984 2943 22277 22346 39301 39301 0.08364776581902333 VGVEEEPF 8 Unmodified _VGVEEEPF_ 0 0 0 ENSG00000171992|ENST00000307662|SYNPO;nc|ENSG00000171992|Q8N3V7-3|SYNPO;nc|ENSG00000171992|Q8N3V7|SYNPO ENSG00000171992|ENST00000307662|SYNPO ENSG00000171992|ENST00000307662|SYNPO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 453.21832275390625 2 453.216183 904.417813 3.5948 0.0016292 0.15844 7.1807E-05 3.7533 0.001701 453.2162896218789 96.433 0.40938 96.711 96.499 96.909 0.27778 45 19 3 0 0 0 0.7471 2 44322 44322;44374 0.79363 0 1 654390 34985 4850 22278 22347 39302;39303 39302 -0.038218895017621435 VGVEEEPF 8 Unmodified _VGVEEEPF_ 0 0 0 ENSG00000171992|ENST00000307662|SYNPO;nc|ENSG00000171992|Q8N3V7-3|SYNPO;nc|ENSG00000171992|Q8N3V7|SYNPO ENSG00000171992|ENST00000307662|SYNPO ENSG00000171992|ENST00000307662|SYNPO MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 453.2186279296875 2 453.216183 904.417813 3.232 0.0014648 0.10131 4.5913E-05 3.3333 0.0015107 453.21624712320977 96.281 0.547 96.888 96.653 97.2 0.60769 39 26 2 0 0 0 0.7471 2 44266 44266;44319 0.79363 0 1 657160 34986 4850 22278 22347 39304;39305 39304 -0.038218895017621435 VGVEEEPF 8 Unmodified _VGVEEEPF_ 0 0 0 ENSG00000171992|ENST00000307662|SYNPO;nc|ENSG00000171992|Q8N3V7-3|SYNPO;nc|ENSG00000171992|Q8N3V7|SYNPO ENSG00000171992|ENST00000307662|SYNPO ENSG00000171992|ENST00000307662|SYNPO MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 453.216183 904.417813 3.232 0.0014648 0.10131 4.5913E-05 3.3333 0.0015107 453.21624712320977 96.281 0.547 96.888 96.653 97.2 0.60769 0.08866 -3.1923E-05 NaN 0.79363 39 26 2 NaN NaN NaN NaN 0 NaN NaN 0 657160 34987 4850 22278 22347 -0.038218895017621435 VGVEKLRI 8 Unmodified _VGVEKLRI_ 0 0 0 nc|ENSG00000133119|P40938-2|RFC3;ENSG00000133119|ENST00000380071|RFC3 nc|ENSG00000133119|P40938-2|RFC3 nc|ENSG00000133119|P40938-2|RFC3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.7959289550781 2 457.295102 912.575651 3.1812 0.0014548 -0.19149 -8.7565E-05 2.9897 0.0013672 457.2949098806929 30.731 0.14146 30.987 30.857 30.999 0.25614 16 11 2 0 0 0 0.14346 1 13961 13961 0 0 1 464640 34988 2751 22279 22348 39306 39306 0.11586654548113984 VGVENVLL 8 Unmodified _VGVENVLL_ 0 0 0 ENST00000595560.1_1_19:58067392-58071050:-|nuORF ENST00000595560.1_1_19:58067392-58071050:-|nuORF ENST00000595560.1_1_19:58067392-58071050:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.75543212890625 2 421.752736 841.490919 NaN NaN NaN NaN NaN NaN NaN 35.547 1 35.547 35.047 36.047 0 0 0 0 0.99035 1 16129 16129 0.79363 0 1 34989 9271 22280 22349 39307 39307 0.06383284011531032 VGVEPIWVT 9 Unmodified _VGVEPIWVT_ 0 0 0 REV__ENSG00000103657|ENST00000443617|HERC1 REV__ENSG00000103657|ENST00000443617|HERC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.2806701660156 2 500.279118 998.543683 NaN NaN NaN NaN NaN NaN NaN 29.794 1 30.583 30.083 31.083 0.78921 0 0 0 0.90611 1 13441 13441 2.0598 0 1 + 34990 10975 22281 22350 39308 39308 0.04435242074339385 VGVFIILML 9 Unmodified _VGVFIILML_ 0 0 0 nc|ENSG00000143469|Q8NB59-2|SYT14;nc|ENSG00000143469|Q8NB59|SYT14;ENSG00000143469|ENST00000367019|SYT14;nc|ENSG00000143469|Q8NB59-5|SYT14;nc|ENSG00000143469|Q8NB59-7|SYT14 nc|ENSG00000143469|Q8NB59-2|SYT14 nc|ENSG00000143469|Q8NB59-2|SYT14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1004.6242065429688 1 1004.62129 1003.61401 3.847 0.0038648 -1.3036 -0.0013096 2.5434 0.0025552 1004.6213502686192 92.912 0.109 93.559 93.516 93.625 0.64714 6 4 2 0 0 0 1.2078 1 42764 42764 0.6015 0 1 738660 34991 3370 22282 22351 39309 39309 0.11234824138443855 VGVFKRYW 8 Unmodified _VGVFKRYW_ 0 0 0 REV__nc|ENSG00000164694|Q4ZHG4-2|FNDC1 REV__nc|ENSG00000164694|Q4ZHG4-2|FNDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.7944946289062 2 527.795269 1053.57599 NaN NaN NaN NaN NaN NaN NaN 14.943 1 15.597 15.097 16.097 0.65356 0 0 0 0.99035 1 6729 6729 0.79363 0 1 + 34992 13108 22283 22352 39310 39310 0.051340742679713 VGVFKRYWTR 10 Unmodified _VGVFKRYWTR_ 0 0 0 REV__nc|ENSG00000164694|Q4ZHG4-2|FNDC1 REV__nc|ENSG00000164694|Q4ZHG4-2|FNDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 656.370849609375 2 656.369664 1310.72478 NaN NaN NaN NaN NaN NaN NaN 14.066 1 14.066 13.566 14.566 0 0 0 0 1.0015 1 6188 6188 0.45834 0.057624 1 + 34993 13108 22284 22353 39311 39311 0.081841801708606 VGVFRVAR 8 Unmodified _VGVFRVAR_ 0 0 0 REV__nc|ENSG00000117600|Q7Z2D5-2|PLPPR4 REV__nc|ENSG00000117600|Q7Z2D5-2|PLPPR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.27935791015625 2 452.279786 902.54502 NaN NaN NaN NaN NaN NaN NaN 87.327 1 87.577 87.077 88.077 0.25005 0 0 0 0.99035 1 40193 40193 2.5775 0.51773 1 + 34994 11449 22285 22354 39312 39312 0.08984920953753317 VGVFVVRV 8 Unmodified _VGVFVVRV_ 0 0 0 ENST00000405260.5_1_2:242082421-242089560:-|nuORF ENST00000405260.5_1_2:242082421-242089560:-|nuORF ENST00000405260.5_1_2:242082421-242089560:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.7814025878906 2 437.779088 873.543623 NaN NaN NaN NaN NaN NaN NaN 70.211 1 70.872 70.372 71.372 0.66071 0 0 0 0.99035 1 32192 32192 6.3541 0 1 34995 7633 22286 22355 39313 39313 0.101792868649909 VGVFWMVK 8 Unmodified _VGVFWMVK_ 0 0 0 ENST00000368633.1_1_1:153925084-153925747:-|nuORF ENST00000368633.1_1_1:153925084-153925747:-|nuORF ENST00000368633.1_1_1:153925084-153925747:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 322.5150451660156 3 322.514091 964.520445 2.5589 0.00082527 0.77329 0.0002494 3.3322 0.0010747 322.5143253889057 0.79875 0.50033 1.4202 1.142 1.6424 0.62142 114 45 3 0 0 0 0.7471 1 314 314 0.45834 0 1 365330 34996 7283 22287 22356 39314 39314 0.03676524756008348 VGVGAKAW 8 Unmodified _VGVGAKAW_ 0 0 0 REV__ENST00000487002.1_1_1:155279413-155279551:+|nuORF REV__ENST00000487002.1_1_1:155279413-155279551:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.8921813964844 2 394.226688 786.438824 NaN NaN NaN NaN NaN NaN NaN 14.719 1 15.026 14.526 15.526 0.3069 0 0 0 0.99035 1 6654 6654 0.79363 0 1 + 34997 16761 22288 22357 39315 39315 0.037061653884165935 VGVGGSRT 8 Unmodified _VGVGGSRT_ 0 0 0 REV__ENSG00000080603|ENST00000262518|SRCAP REV__ENSG00000080603|ENST00000262518|SRCAP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.7039794921875 2 366.703577 731.392602 NaN NaN NaN NaN NaN NaN NaN 86.286 1 86.535 86.035 87.035 0.24974 0 0 0 0.99035 1 39713 39713 2.3027 0 1 + 34998 10597 22289 22358 39316 39316 0.016161004863306516 VGVGLLEEDS 10 Unmodified _VGVGLLEEDS_ 0 0 0 REV__nc|ENSG00000142459|Q96CN4|EVI5L REV__nc|ENSG00000142459|Q96CN4|EVI5L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.2584228515625 2 509.258579 1016.50261 NaN NaN NaN NaN NaN NaN NaN 67.671 1 68.329 67.829 68.829 0.65777 0 0 0 0.99983 1 31020 31020 1.8442 0.36234 1 + 34999 12325 22290 22359 39317 39317 -0.00498563755820669 VGVGQRRA 8 Unmodified _VGVGQRRA_ 0 0 0 REV__ENST00000586353.5_1_19:37464260-37464449:+|nuORF REV__ENST00000586353.5_1_19:37464260-37464449:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.75274658203125 2 421.751393 841.488233 3.2207 0.0013583 -0.14174 -5.9779E-05 3.0789 0.0012985 421.75122804578456 96.253 0.64359 96.861 96.6 97.244 0.60769 80 31 4 0 0 0 0.7471 3 44197 44197;44357;44422 0.79363 0 1 2438600 + 35000 17540 22291 22360 39318;39319;39320 39318 0.06114873397223164 VGVIFPLP 8 Unmodified _VGVIFPLP_ 0 0 0 REV__DENND4C|p.Y474Ffs*30|1|0.33|ENSG00000137145|chr9:19305461-19305461|A/-|frameshift_variant REV__DENND4C|p.Y474Ffs*30|1|0.33|ENSG00000137145|chr9:19305461-19305461|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.26251220703125 2 421.262739 840.510926 NaN NaN NaN NaN NaN NaN NaN 38.993 1 39.631 39.131 40.131 0.63778 0 0 0 0.99035 1 17825 17825 0.79363 0 1 + 35001 10125 22292 22361 39321 39321 0.08429079742120393 VGVIGVIE 8 Unmodified _VGVIGVIE_ 0 0 0 nc|ENSG00000133131|Q8TE76-2|MORC4;nc|ENSG00000133131|Q8TE76-3|MORC4;ENSG00000133131|ENST00000355610|MORC4 nc|ENSG00000133131|Q8TE76-2|MORC4 nc|ENSG00000133131|Q8TE76-2|MORC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.2438659667969 2 393.242004 784.469455 2.2194 0.00087277 2.6285 0.0010336 4.8479 0.0019064 393.2434483049432 72.204 0.11585 72.867 72.82 72.936 0.66325 10 9 2 0 0 0 0.73686 1 33127 33127 2.8892 0 1 408280 35002 2753 22293 22362 39322 39322 0.0685989898280468 VGVIGVIE 8 Unmodified _VGVIGVIE_ 0 0 0 nc|ENSG00000133131|Q8TE76-2|MORC4;nc|ENSG00000133131|Q8TE76-3|MORC4;ENSG00000133131|ENST00000355610|MORC4 nc|ENSG00000133131|Q8TE76-2|MORC4 nc|ENSG00000133131|Q8TE76-2|MORC4 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 393.242004 784.469455 2.6825 0.0010549 3.1981 0.0012576 5.8806 0.0023125 393.2433456726553 72.239 0.41888 72.498 72.171 72.59 0.25875 -0.18483 2.031E-05 NaN 2.8892 75 39 3 NaN NaN NaN NaN 0 NaN NaN 0 620720 35003 2753 22293 22362 0.0685989898280468 VGVIHLWLL 9 Unmodified _VGVIHLWLL_ 0 0 0 REV__chr5:39394421-39418177|178|11.08|0.0|20.08|-|2|DAB2,None|1 REV__chr5:39394421-39418177|178|11.08|0.0|20.08|-|2|DAB2,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.22344970703125 3 350.555055 1048.64334 NaN NaN NaN NaN NaN NaN NaN 28.564 1 28.564 28.064 29.064 0 0 0 0 0.90228 1 12881 12881 2.9952 0.26005 1 + 35004 10049 22294 22363 39323 39323 0.1209610447895102 VGVIKRRKFR 10 Unmodified _VGVIKRRKFR_ 0 0 0 ENST00000537182.5_1_12:69218193-69222566:+|nuORF ENST00000537182.5_1_12:69218193-69222566:+|nuORF ENST00000537182.5_1_12:69218193-69222566:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 629.9139404296875 2 629.914573 1257.81459 NaN NaN NaN NaN NaN NaN NaN 69.366 1 70.027 69.527 70.527 0.66071 0 0 0 1.0015 1 31798 31798 0.45834 0.10771 1 35005 8775 22295 22364 39324 39324 0.19599854570083153 VGVILLVRL 9 Unmodified _VGVILLVRL_ 0 0 0 REV__ENSG00000007216|ENST00000314669|SLC13A2 REV__ENSG00000007216|ENST00000314669|SLC13A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.3462219238281 2 491.344595 980.674637 NaN NaN NaN NaN NaN NaN NaN 84.586 1 84.615 84.115 85.115 0.028603 0 0 0 0.91206 1 42229 42229 0.6015 0 1 + 35006 10200 22296 22365 39325 39325 0.18352677513041726 VGVIPNLI 8 Unmodified _VGVIPNLI_ 0 0 0 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 412.76812744140625 2 412.765646 823.516739 2.8807 0.001189 1.0496 0.00043322 3.9302 0.0016223 412.7669317532171 31.712 0.46913 31.712 31.567 32.036 0 65 43 2 0 0 0 0.7471 1 14315 14315 0.79363 0 1 1217600 35007 2780 22297 22366 39326 39326 0.09792178253815109 VGVIPNLI 8 Unmodified _VGVIPNLI_ 0 0 0 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 412.76849365234375 2 412.765646 823.516739 2.7734 0.0011448 2.432 0.0010038 5.2053 0.0021486 412.7670610481879 40.258 0.35614 40.258 39.985 40.341 0 18 12 2 0 0 0 0.7471 1 18297 18297 0.79363 0 1 268820 35008 2780 22297 22366 39327 39327 0.09792178253815109 VGVIPNLI 8 Unmodified _VGVIPNLI_ 0 0 0 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 412.7681579589844 2 412.765646 823.516739 NaN NaN NaN NaN NaN NaN NaN 36.88 1 36.88 36.38 37.38 0 0 0 0 0.99035 1 16738 16738 0.79363 0 1 35009 2780 22297 22366 39328 39328 0.09792178253815109 VGVIPNLI 8 Unmodified _VGVIPNLI_ 0 0 0 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 412.7676696777344 2 412.765646 823.516739 NaN NaN NaN NaN NaN NaN NaN 35.67 1 36.462 35.962 36.962 0.79131 0 0 0 0.99035 1 16167 16167 0.79363 0 1 35010 2780 22297 22366 39329 39329 0.09792178253815109 VGVIPNLI 8 Unmodified _VGVIPNLI_ 0 0 0 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.7686767578125 2 412.765646 823.516739 NaN NaN NaN NaN NaN NaN NaN 36.19 1 36.448 35.948 36.948 0.25768 0 0 0 0.99035 1 16485 16485 0.79363 0 1 35011 2780 22297 22366 39330 39330 0.09792178253815109 VGVIPNLI 8 Unmodified _VGVIPNLI_ 0 0 0 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.7682189941406 2 412.765646 823.516739 NaN NaN NaN NaN NaN NaN NaN 36.312 1 36.57 36.07 37.07 0.25768 0 0 0 0.99035 1 16541 16541 0.79363 0 1 35012 2780 22297 22366 39331 39331 0.09792178253815109 VGVIPNLI 8 Unmodified _VGVIPNLI_ 0 0 0 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 412.7682800292969 2 412.765646 823.516739 NaN NaN NaN NaN NaN NaN NaN 37.365 1 37.995 37.495 38.495 0.62999 0 0 0 0.99035 1 17099 17099 0.79363 0 1 35013 2780 22297 22366 39332 39332 0.09792178253815109 VGVIPNLI 8 Unmodified _VGVIPNLI_ 0 0 0 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 412.765646 823.516739 2.7028 0.0011156 2.3116 0.00095415 5.0144 0.0020698 412.7672888563401 39.397 0.31005 40.194 40.056 40.366 0.79762 -0.014522 -0.00063074 NaN 0.79363 19 14 2 NaN NaN NaN NaN 0 NaN NaN 0 130900 35014 2780 22297 22366 0.09792178253815109 VGVIPNLI 8 Unmodified _VGVIPNLI_ 0 0 0 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 ENSG00000134007|ENST00000256389|ADAM20 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 412.765646 823.516739 3.0197 0.0012464 3.7073 0.0015302 6.727 0.0027767 412.76734148320605 39.907 0.40743 40.174 39.821 40.228 0.26696 -0.034385 0.00052146 NaN 0.79363 17 13 2 NaN NaN NaN NaN 0 NaN NaN 0 361210 35015 2780 22297 22366 0.09792178253815109 VGVIWTLR 8 Unmodified _VGVIWTLR_ 0 0 0 REV__ENSG00000113504|ENST00000264930|SLC12A7 REV__ENSG00000113504|ENST00000264930|SLC12A7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.2886962890625 2 472.28982 942.565087 NaN NaN NaN NaN NaN NaN NaN 19.611 1 19.903 19.403 20.403 0.29239 0 0 0 0.99035 1 8923 8923 0.79363 0 1 + 35016 11300 22298 22367 39333 39333 0.09150671893689832 VGVKFAYDRI 10 Unmodified _VGVKFAYDRI_ 0 0 0 REV__ENST00000461445.5_1_3:38051483-38071030:-|nuORF REV__ENST00000461445.5_1_3:38051483-38071030:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.88958740234375 3 389.888874 1166.64479 2.9267 0.0011411 0.13357 5.2078E-05 3.0603 0.0011932 389.8889296283336 26.394 0.35238 26.659 26.461 26.813 0.26489 49 27 2 0 0 0 0.85597 1 11999 11999 5.7834 0.38072 1 246610 + 35017 16493 22299 22368 39334 39334 0.06813693777030494 VGVKKPRQQR 10 Unmodified _VGVKKPRQQR_ 0 0 0 REV__ENST00000479255.1_1_1:38032458-38033975:-|nuORF REV__ENST00000479255.1_1_1:38032458-38033975:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.8914794921875 3 399.250918 1194.73092 NaN NaN NaN NaN NaN NaN NaN 12.755 1 13.062 12.562 13.562 0.30727 0 0 0 1.0018 1 5755 5755 0.15932 0 1 + 35018 11977 22300 22369 39335 39335 0.14134698402403956 VGVKKPRQQR 10 Unmodified _VGVKKPRQQR_ 0 0 0 REV__ENST00000479255.1_1_1:38032458-38033975:-|nuORF REV__ENST00000479255.1_1_1:38032458-38033975:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.372802734375 2 598.372738 1194.73092 NaN NaN NaN NaN NaN NaN NaN 107.86 1 108.18 107.68 108.68 0.31421 0 0 0 1.0018 1 49752 49752 0.45834 0 1 + 35019 11977 22300 22369 39336 39336 0.14134698402403956 VGVKLVAV 8 Unmodified _VGVKLVAV_ 0 0 0 REV__ENST00000388966.4_1_12:8169981-8170332:-|nuORF REV__ENST00000388966.4_1_12:8169981-8170332:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 392.77056884765625 2 392.768189 783.521825 NaN NaN NaN NaN NaN NaN NaN 27.149 1 27.414 26.914 27.914 0.26489 0 0 0 0.99035 1 12338 12338 2.8892 0 1 + 35020 15904 22301 22370 39337 39337 0.12140482116421936 VGVKLVPLS 9 Unmodified _VGVKLVPLS_ 0 0 0 REV__ENSG00000156886|ENST00000389202|ITGAD REV__ENSG00000156886|ENST00000389202|ITGAD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 456.3030700683594 2 456.299853 910.585153 NaN NaN NaN NaN NaN NaN NaN 14.249 1 14.249 13.749 14.749 0 0 0 0 0.90611 1 6273 6273 2.0598 1.3694 1 + 35021 12787 22302 22371 39338 39338 0.1262842283365444 VGVKLVPLS 9 Unmodified _VGVKLVPLS_ 0 0 0 REV__ENSG00000156886|ENST00000389202|ITGAD REV__ENSG00000156886|ENST00000389202|ITGAD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.30206298828125 2 456.299853 910.585153 NaN NaN NaN NaN NaN NaN NaN 14.055 1 14.281 13.781 14.781 0.22622 0 0 0 0.90611 1 6168 6168 2.0598 0 1 + 35022 12787 22302 22371 39339 39339 0.1262842283365444 VGVKRPPNR 9 Unmodified _VGVKRPPNR_ 0 0 0 LTR7_dup579|chr3:187466299-187466711:-|1.43419870329177|0.0504993796162977|4.83|512.0|29|3|anti-sense LTR7_dup579|chr3:187466299-187466711:-|1.43419870329177|0.0504993796162977|4.83|512.0|29|3|anti-sense LTR7_dup579|chr3:187466299-187466711:-|1.43419870329177|0.0504993796162977|4.83|512.0|29|3|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 511.8141784667969 2 511.814525 1021.6145 NaN NaN NaN NaN NaN NaN NaN 102.16 1 102.21 101.71 102.71 0.057198 0 0 0 0.90611 1 55468 55468 2.0598 0 1 35023 9505 22303 22372 39340 39340 0.10455379902509776 VGVKSRHF 8 Unmodified _VGVKSRHF_ 0 0 0 REV__nc|ENSG00000095110|Q8N323-2|NXPE1 REV__nc|ENSG00000095110|Q8N323-2|NXPE1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.7569580078125 2 465.269419 928.524284 NaN NaN NaN NaN NaN NaN NaN 36.851 1 37.109 36.609 37.609 0.25768 0 0 0 0.99035 1 16785 16785 2.8892 0.31174 1 + 35024 10758 22304 22373 39341 39341 0.05716330574091444 VGVLDLID 8 Unmodified _VGVLDLID_ 0 0 0 REV__ENST00000546226.5_1_11:118963098-118963308:+|nuORF REV__ENST00000546226.5_1_11:118963098-118963308:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.246337890625 2 422.244744 842.474934 NaN NaN NaN NaN NaN NaN NaN 29.468 1 29.726 29.226 30.226 0.25804 0 0 0 0.99035 1 13410 13410 5.2307 0 1 + 35025 14675 22305 22374 39342 39342 0.04739577774614645 VGVLGCRTETD 11 Unmodified _VGVLGCRTETD_ 0 0 0 ENST00000475841.2_1_12:132611152-132611335:+|nuORF ENST00000475841.2_1_12:132611152-132611335:+|nuORF ENST00000475841.2_1_12:132611152-132611335:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.2823486328125 2 575.282063 1148.54957 NaN NaN NaN NaN NaN NaN NaN 63.577 1 63.825 63.325 64.325 0.24803 0 0 0 1.0057 1 29117 29117 3.2813 0 1 35026 8225 22306 22375 39343 39343 -0.01876027476305353 VGVLGTAIGP 10 Unmodified _VGVLGTAIGP_ 0 0 0 ENSG00000188021|ENST00000338222|UBQLN2 ENSG00000188021|ENST00000338222|UBQLN2 ENSG00000188021|ENST00000338222|UBQLN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.7981262207031 2 442.26601 882.517468 NaN NaN NaN NaN NaN NaN NaN 74.512 1 75.177 74.677 75.677 0.6644 0 0 0 0.98866 1 34301 34301 7.2892 0 1 35027 5647 22307 22376 39344 39344 0.07150972902843478 VGVLKKRLF 9 Unmodified _VGVLKKRLF_ 0 0 0 REV__ENST00000370500.9_1_1:89323107-89325618:-|nuORF REV__ENST00000370500.9_1_1:89323107-89325618:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.40869140625 2 530.355494 1058.69644 NaN NaN NaN NaN NaN NaN NaN 102.61 1 102.61 102.11 103.11 0 0 0 0 0.91206 1 56633 56633 0.6015 0.6015 1 + 35028 15727 22308 22377 39345 39345 0.16943482261581266 VGVLKKRLF 9 Unmodified _VGVLKKRLF_ 0 0 0 REV__ENST00000370500.9_1_1:89323107-89325618:-|nuORF REV__ENST00000370500.9_1_1:89323107-89325618:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.3568115234375 2 530.355494 1058.69644 NaN NaN NaN NaN NaN NaN NaN 102.27 1 102.58 102.08 103.08 0.31737 0 0 0 0.91206 1 47308 47308 0.6015 0 1 + 35029 15727 22308 22377 39346 39346 0.16943482261581266 VGVLKKRLF 9 Unmodified _VGVLKKRLF_ 0 0 0 REV__ENST00000370500.9_1_1:89323107-89325618:-|nuORF REV__ENST00000370500.9_1_1:89323107-89325618:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.3554077148438 2 530.355494 1058.69644 NaN NaN NaN NaN NaN NaN NaN 102.25 1 102.85 102.35 103.35 0.59759 0 0 0 0.91206 1 47331 47331 0.6015 0.6015 1 + 35030 15727 22308 22377 39347 39347 0.16943482261581266 VGVLLFSKLVL 11 Unmodified _VGVLLFSKLVL_ 0 0 0 ENST00000372870.5_1_9:131105414-131117691:+|nuORF;ENSG00000167114|ENST00000300456|SLC27A4 ENST00000372870.5_1_9:131105414-131117691:+|nuORF ENST00000372870.5_1_9:131105414-131117691:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 594.3916015625 2 594.391742 1186.76893 NaN NaN NaN NaN NaN NaN NaN 69.793 1 70.047 69.547 70.547 0.25443 0 0 0 1.008 1 31959 31959 0.35063 0 1 35031 4531 22309 22378 39348 39348 0.18301771544520307 VGVLLLVLILL 11 Unmodified _VGVLLLVLILL_ 0 0 0 ENST00000589083.5_1_19:13255226-13255319:-|nuORF;ENST00000591843.1_1_19:13255226-13260604:-|nuORF;nc|ENSG00000104915|O60499-2|STX10;ENSG00000104915|ENST00000587230|STX10 ENST00000589083.5_1_19:13255226-13255319:-|nuORF ENST00000589083.5_1_19:13255226-13255319:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 582.9181518554688 2 582.920135 1163.82572 NaN NaN NaN NaN NaN NaN NaN 55.084 1 55.084 54.584 55.584 0 0 0 0 1.008 1 25295 25295 0.35063 0 1 35032 1462 22310 22379 39349 39349 0.2503581910104913 VGVLLRQLQ 9 Unmodified _VGVLLRQLQ_ 0 0 0 MCU|p.F111L|1|0.28|ENSG00000156026|chr10:72859289-72859289|T/G|missense_variant MCU|p.F111L|1|0.28|ENSG00000156026|chr10:72859289-72859289|T/G|missense_variant MCU|p.F111L|1|0.28|ENSG00000156026|chr10:72859289-72859289|T/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.5765991210938 2 513.326934 1024.63931 NaN NaN NaN NaN NaN NaN NaN 102.15 1 102.46 101.96 102.96 0.31737 0 0 0 0.91206 1 47254 47254 0.6015 0 1 35033 9510 22311 22380 39350 39350 0.12798014985219197 VGVLVIRINLP 11 Unmodified _VGVLVIRINLP_ 0 0 0 REV__ENSG00000148848|ENST00000448723|ADAM12 REV__ENSG00000148848|ENST00000448723|ADAM12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 596.889892578125 2 596.892441 1191.77033 NaN NaN NaN NaN NaN NaN NaN 56.4 1 57.068 56.568 57.568 0.66829 0 0 0 1.008 1 25800 25800 0.35063 0 1 + 35034 12553 22312 22381 39351 39351 0.18211405633246613 VGVMLLWK 8 Unmodified _VGVMLLWK_ 0 0 0 REV__ENST00000361055.8_1_3:69127007-69129269:-|nuORF REV__ENST00000361055.8_1_3:69127007-69129269:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.2845458984375 2 473.283149 944.551745 2.7781 0.0013148 0.04441 2.1019E-05 2.8226 0.0013359 473.28311514900025 78.901 0.38638 79.152 78.937 79.324 0.25127 53 30 2 0 0 0 0.74071 2 36336 36336;36391 2.5775 2.5775 1 1417000 + 35035 15619 22313 22382 39352;39353 39352 0.07725097790114432 VGVMLLWK 8 Unmodified _VGVMLLWK_ 0 0 0 REV__ENST00000361055.8_1_3:69127007-69129269:-|nuORF REV__ENST00000361055.8_1_3:69127007-69129269:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.2848815917969 2 473.283149 944.551745 2.9633 0.0014025 0.71589 0.00033882 3.6792 0.0017413 473.2831257077574 78.48 0.3464 79.142 78.958 79.305 0.66198 55 22 3 0 0 0 0.74071 1 36129 36129 2.5775 0.73324 1 1738700 + 35036 15619 22313 22382 39354 39354 0.07725097790114432 VGVNLVRLYE 10 Unmodified _VGVNLVRLYE_ 0 0 0 REV__nc|ENSG00000180316|Q8N8W4|PNPLA1 REV__nc|ENSG00000180316|Q8N8W4|PNPLA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.3347778320312 2 581.334956 1160.65536 NaN NaN NaN NaN NaN NaN NaN 68.172 1 68.424 67.924 68.924 0.25227 0 0 0 1.0001 1 31229 31229 1.6526 0.45928 1 + 35037 13822 22314 22383 39355 39355 0.08145676431445281 VGVNPLLVVII 11 Unmodified _VGVNPLLVVII_ 0 0 0 L1M4_dup15956|chr14:38251186-38251949:+|1.3414867679333575|0.4615435800340082|1.54|541.0|11|2|sense L1M4_dup15956|chr14:38251186-38251949:+|1.3414867679333575|0.4615435800340082|1.54|541.0|11|2|sense L1M4_dup15956|chr14:38251186-38251949:+|1.3414867679333575|0.4615435800340082|1.54|541.0|11|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.3798828125 2 568.376092 1134.73763 NaN NaN NaN NaN NaN NaN NaN 84.174 1 84.174 83.674 84.674 0 0 0 0 1.0072 1 42557 42557 1.3295 0 1 35038 9428 22315 22384 39356 39356 0.17565198510442315 VGVNRNRIKVT 11 Unmodified _VGVNRNRIKVT_ 0 0 0 ACOT1|p.L296*|1|0.14|ENSG00000184227|chr14:73543274-73543274|C/-|frameshift_variant;nc|ENSG00000119673|P49753-2|ACOT2;ENSG00000184227|ENST00000311148|ACOT1;ENSG00000119673|ENST00000238651|ACOT2 ACOT1|p.L296*|1|0.14|ENSG00000184227|chr14:73543274-73543274|C/-|frameshift_variant ACOT1|p.L296*|1|0.14|ENSG00000184227|chr14:73543274-73543274|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 628.384765625 2 628.383303 1254.75205 3.4352 0.0021586 -0.96642 -0.00060728 2.4688 0.0015513 628.3827052164638 104.46 0.37273 104.46 104.32 104.69 0 57 27 3 0 0 0 0.91378 1 57579 57579 0.35063 0 1 581850 35039 7 22316 22385 39357 39357 0.13486663711228175 VGVNSRTN 8 Unmodified _VGVNSRTN_ 0 0 0 ENST00000369936.2_1_1:109730792-109745631:+|nuORF;ENST00000369938.5_1_1:109730226-109745631:+|nuORF;nc|ENSG00000116299|Q6UXG2-3|ELAPOR1;ENST00000527996.5_1_1:109656894-109745573:+|nuORF;nc|ENSG00000116299|Q6UXG2-2|ELAPOR1;nc|ENSG00000116299|Q6UXG2-4|ELAPOR1;ENSG00000116299|ENST00000369939|ELAPOR1 ENST00000369936.2_1_1:109730792-109745631:+|nuORF ENST00000369936.2_1_1:109730792-109745631:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 846.4466552734375 1 846.442806 845.435529 2.3516 0.0019905 2.1594 0.0018278 4.511 0.0038183 846.4443596813246 103.85 0.041443 103.9 103.88 103.92 0.052994 4 2 2 0 0 0 0.7471 1 56272 56272 0.79363 0 1 906620 35040 2025 22317 22386 39358 39358 0.006628705437606186 VGVPIEPI 8 Unmodified _VGVPIEPI_ 0 0 0 ENSG00000182271|ENST00000328886|TMIGD1 ENSG00000182271|ENST00000328886|TMIGD1 ENSG00000182271|ENST00000328886|TMIGD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 412.2501220703125 2 412.249829 822.485105 NaN NaN NaN NaN NaN NaN NaN 10.936 1 11.215 10.715 11.715 0.2792 0 0 0 0.99035 1 4746 4746 0.79363 0 1 35041 5326 22318 22387 39359 39359 0.06676185499861731 VGVPIEPI 8 Unmodified _VGVPIEPI_ 0 0 0 ENSG00000182271|ENST00000328886|TMIGD1 ENSG00000182271|ENST00000328886|TMIGD1 ENSG00000182271|ENST00000328886|TMIGD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 412.2499694824219 2 412.249829 822.485105 NaN NaN NaN NaN NaN NaN NaN 11.591 1 11.87 11.37 12.37 0.2792 0 0 0 0.99035 1 5022 5022 0.79363 0 1 35042 5326 22318 22387 39360 39360 0.06676185499861731 VGVPSLPVL 9 Unmodified _VGVPSLPVL_ 0 0 0 Harlequin-int_dup65|chr1:171600924-171601846:+|1.3325358597716204|0.0155944728126253|6.42|519.0|36|3|sense Harlequin-int_dup65|chr1:171600924-171601846:+|1.3325358597716204|0.0155944728126253|6.42|519.0|36|3|sense Harlequin-int_dup65|chr1:171600924-171601846:+|1.3325358597716204|0.0155944728126253|6.42|519.0|36|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 440.7813720703125 2 440.778754 879.542954 NaN NaN NaN NaN NaN NaN NaN 50.013 1 50.274 49.774 50.774 0.26146 0 0 0 0.89683 1 22856 22856 4.3292 2.2695 1 35043 9392 22319 22388 39361 39361 0.09836447425266215 VGVPTLLGLH 10 Unmodified _VGVPTLLGLH_ 0 0 0 REV__nc|ENSG00000132466|O75179-2|ANKRD17;REV__nc|ENSG00000132466|O75179-4|ANKRD17 REV__nc|ENSG00000132466|O75179-4|ANKRD17 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.3083801269531 2 503.30821 1004.60187 NaN NaN NaN NaN NaN NaN NaN 95.711 1 95.978 95.478 96.478 0.2675 0 0 0 1.0001 1 43978 43978 1.6526 0 1 + 35044 11892;17942 22320 22389 39362 39362 0.09974923719596518 VGVPTRAR 8 Unmodified _VGVPTRAR_ 0 0 0 ENST00000436072.6_1_7:37955747-37956332:-|nuORF ENST00000436072.6_1_7:37955747-37956332:-|nuORF ENST00000436072.6_1_7:37955747-37956332:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 855.5189208984375 1 855.515911 854.508634 4.0906 0.0034996 -0.22891 -0.00019583 3.8617 0.0033038 855.5155253314126 85.465 0.35812 86.131 85.943 86.301 0.66566 27 16 2 0 0 0 0.7471 1 39379 39379 0.79363 0 1 1446000 35045 7895 22321 22390 39363 39363 0.07556044057025701 VGVPTRAR 8 Unmodified _VGVPTRAR_ 0 0 0 ENST00000436072.6_1_7:37955747-37956332:-|nuORF ENST00000436072.6_1_7:37955747-37956332:-|nuORF ENST00000436072.6_1_7:37955747-37956332:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 855.5142822265625 1 855.515911 854.508634 4.1494 0.0035499 -0.16277 -0.00013925 3.9866 0.0034106 855.5152418966746 95.176 0.26262 95.794 95.662 95.925 0.61736 22 13 2 0 0 0 0.7471 2 43730 43730;43800 0.79363 0 1 611000 35046 7895 22321 22390 39364;39365 39364 0.07556044057025701 VGVQTPPRHD 10 Unmodified _VGVQTPPRHD_ 0 0 0 ENST00000377298.8_1_1:9790409-9790562:-|nuORF ENST00000377298.8_1_1:9790409-9790562:-|nuORF ENST00000377298.8_1_1:9790409-9790562:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.2901000976562 2 553.291079 1104.56761 NaN NaN NaN NaN NaN NaN NaN 35.887 1 36.143 35.643 36.643 0.25524 0 0 0 1.0003 1 16345 16345 1.4819 0.15237 1 35047 7412 22322 22391 39366 39366 0.019504755607158586 VGVQVVLLK 9 Unmodified _VGVQVVLLK_ 0 0 0 REV__ENST00000476995.5_1_2:233600648-233600732:+|nuORF REV__ENST00000476995.5_1_2:233600648-233600732:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.82427978515625 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 27.589 1 27.589 27.089 28.089 0 0 0 0 0.91206 1 12427 12427 0.6015 0 1 + 35048 16661 22323 22392 39367 39367 0.14868398242037983 VGVQVVLLK 9 Unmodified _VGVQVVLLK_ 0 0 0 REV__ENST00000476995.5_1_2:233600648-233600732:+|nuORF REV__ENST00000476995.5_1_2:233600648-233600732:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.8241271972656 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 54.586 1 54.586 54.086 55.086 0 0 0 0 0.91206 1 25052 25052 0.6015 0 1 + 35049 16661 22323 22392 39368 39368 0.14868398242037983 VGVQVVLLK 9 Unmodified _VGVQVVLLK_ 0 0 0 REV__ENST00000476995.5_1_2:233600648-233600732:+|nuORF REV__ENST00000476995.5_1_2:233600648-233600732:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.1531677246094 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 28.124 1 28.91 28.41 29.41 0.78627 0 0 0 0.91206 1 12659 12659 0.6015 0 1 + 35050 16661 22323 22392 39369 39369 0.14868398242037983 VGVQVVLLK 9 Unmodified _VGVQVVLLK_ 0 0 0 REV__ENST00000476995.5_1_2:233600648-233600732:+|nuORF REV__ENST00000476995.5_1_2:233600648-233600732:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.82415771484375 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 47.023 1 47.852 47.352 48.352 0.82915 0 0 0 0.91206 1 21421 21421 0.6015 0 1 + 35051 16661 22323 22392 39370 39370 0.14868398242037983 VGVQVVLLK 9 Unmodified _VGVQVVLLK_ 0 0 0 REV__ENST00000476995.5_1_2:233600648-233600732:+|nuORF REV__ENST00000476995.5_1_2:233600648-233600732:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.82452392578125 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 49.345 1 50.172 49.672 50.672 0.82705 0 0 0 0.91206 1 22480 22480 0.6015 0 1 + 35052 16661 22323 22392 39371 39371 0.14868398242037983 VGVQVVLLK 9 Unmodified _VGVQVVLLK_ 0 0 0 REV__ENST00000476995.5_1_2:233600648-233600732:+|nuORF REV__ENST00000476995.5_1_2:233600648-233600732:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.82403564453125 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 53.398 1 54.201 53.701 54.701 0.80351 0 0 0 0.91206 1 24358 24358 0.6015 0 1 + 35053 16661 22323 22392 39372 39372 0.14868398242037983 VGVRFYQRH 9 Unmodified _VGVRFYQRH_ 0 0 0 REV__ENST00000554295.1_1_12:98849015-98849897:-|nuORF REV__ENST00000554295.1_1_12:98849015-98849897:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1162.47265625 1 1161.62759 1160.62031 2.9863 0.003469 -0.23441 -0.0002723 2.7519 0.0031967 1162.6301840298129 12.395 0.028509 12.656 12.646 12.674 0.26154 5 3 2 0 0 0 1.2078 1 5353 5353 0.6015 0.076735 1 10219000 + 35054 17307 22324 22393 39373 39373 0.046424784141890996 VGVRFYQRH 9 Unmodified _VGVRFYQRH_ 0 0 0 REV__ENST00000554295.1_1_12:98849015-98849897:-|nuORF REV__ENST00000554295.1_1_12:98849015-98849897:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 1161.62759 1160.62031 3.3285 0.0038665 -0.49608 -0.00057626 2.8324 0.0032902 1162.6286895194587 12.453 0.077905 12.453 12.418 12.496 0 -0.10169 -0.00016033 NaN 0.6015 14 9 2 NaN NaN NaN NaN 0 NaN NaN 0 4340900 + 35055 17307 22324 22393 0.046424784141890996 VGVRFYQRH 9 Unmodified _VGVRFYQRH_ 0 0 0 REV__ENST00000554295.1_1_12:98849015-98849897:-|nuORF REV__ENST00000554295.1_1_12:98849015-98849897:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 1161.62759 1160.62031 2.9863 0.003469 -0.23441 -0.0002723 2.7519 0.0031967 1162.6301840298129 12.395 0.028509 12.656 12.646 12.674 0.26154 0.10169 0.00014363 NaN 0.6015 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 10219000 + 35056 17307 22324 22393 0.046424784141890996 VGVRGPLRR 9 Unmodified _VGVRGPLRR_ 0 0 0 REV__ENST00000580188.1_2_17:62503129-62515542:+|nuORF REV__ENST00000580188.1_2_17:62503129-62515542:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 337.2176513671875 3 337.217437 1008.63048 NaN NaN NaN NaN NaN NaN NaN 25.703 1 26.467 25.967 26.967 0.76356 0 0 0 0.91342 1 11539 11539 0.26902 0 1 + 35057 17504 22325 22394 39374 39374 0.12651086139408108 VGVRKRKT 8 Unmodified _VGVRKRKT_ 0 0 0 REV__ENST00000257177.8_1_1:52889499-52889643:-|nuORF REV__ENST00000257177.8_1_1:52889499-52889643:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.3122863769531 2 472.311618 942.608683 NaN NaN NaN NaN NaN NaN NaN 53.297 1 53.561 53.061 54.061 0.26345 0 0 0 0.99035 1 24373 24373 0.79363 0 1 + 35058 14938 22326 22395 39375 39375 0.13508281390852517 VGVRRKMR 8 Unmodified _VGVRRKMR_ 0 0 0 REV__ENSG00000268738|ENST00000598963|HSFX2 REV__ENSG00000268738|ENST00000598963|HSFX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.3116149902344 2 501.311095 1000.60764 NaN NaN NaN NaN NaN NaN NaN 25.32 1 25.949 25.449 26.449 0.62915 0 0 0 0.99035 1 11600 11600 0.79363 0 1 + 35059 13474 22327 22396 39376 39376 0.10735743750296933 VGVRRKSA 8 Unmodified _VGVRRKSA_ 0 0 0 ENST00000296525.7_1_4:177190179-177190299:-|nuORF ENST00000296525.7_1_4:177190179-177190299:-|nuORF ENST00000296525.7_1_4:177190179-177190299:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 436.7763977050781 2 436.774868 871.535184 2.9911 0.0013064 -0.099055 -4.3265E-05 2.8921 0.0012632 436.7747565944543 85.822 0.54066 86.07 85.797 86.338 0.24857 84 25 5 0 0 0 0.7471 1 39404 39404 0.69038 0 1 39852000 35060 6769 22328 22397 39377 39377 0.09427732948370249 VGVRRKSA 8 Unmodified _VGVRRKSA_ 0 0 0 ENST00000296525.7_1_4:177190179-177190299:-|nuORF ENST00000296525.7_1_4:177190179-177190299:-|nuORF ENST00000296525.7_1_4:177190179-177190299:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 436.776611328125 2 436.774868 871.535184 3.7189 0.0016243 0.0050739 2.2161E-06 3.724 0.0016265 436.77484139407653 97.1 0.50665 97.378 97.142 97.649 0.27779 44 24 3 0 0 0 0.74071 2 44600 44600;44645 2.5775 1.7838 1 753170 35061 6769 22328 22397 39378;39379 39378 0.09427732948370249 VGVRRKSA 8 Unmodified _VGVRRKSA_ 0 0 0 ENST00000296525.7_1_4:177190179-177190299:-|nuORF ENST00000296525.7_1_4:177190179-177190299:-|nuORF ENST00000296525.7_1_4:177190179-177190299:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2780456542969 2 436.774868 871.535184 3.2126 0.0014032 -0.18692 -8.1643E-05 3.0256 0.0013215 436.77479870886816 85.464 0.60432 86.13 85.839 86.443 0.66566 108 28 5 0 0 0 0.7471 1 39263 39263 0.69038 0 1 61758000 35062 6769 22328 22397 39380 39380 0.09427732948370249 VGVRRKSA 8 Unmodified _VGVRRKSA_ 0 0 0 ENST00000296525.7_1_4:177190179-177190299:-|nuORF ENST00000296525.7_1_4:177190179-177190299:-|nuORF ENST00000296525.7_1_4:177190179-177190299:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 436.7763671875 2 436.774868 871.535184 3.2788 0.0014321 -0.27218 -0.00011888 3.0066 0.0013132 436.77472225343325 96.97 0.49235 97.572 97.332 97.824 0.6019 38 23 2 0 0 0 0.74071 1 44598 44598 2.5775 1.7838 1 573060 35063 6769 22328 22397 39381 39381 0.09427732948370249 VGVRRLCRRR 10 Unmodified _VGVRRLCRRR_ 0 0 0 ENSG00000105509|ENST00000540069|HAS1;nc|ENSG00000105509|Q92839|HAS1 ENSG00000105509|ENST00000540069|HAS1 ENSG00000105509|ENST00000540069|HAS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 424.5155944824219 3 424.263163 1269.76766 NaN NaN NaN NaN NaN NaN NaN 11.971 1 11.971 11.471 12.471 0 0 0 0 1.0015 1 5196 5196 0.15932 0 1 35064 1502 22329 22398 39382 39382 0.14356671747304972 VGVRRLCRRR 10 Unmodified _VGVRRLCRRR_ 0 0 0 ENSG00000105509|ENST00000540069|HAS1;nc|ENSG00000105509|Q92839|HAS1 ENSG00000105509|ENST00000540069|HAS1 ENSG00000105509|ENST00000540069|HAS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 424.2627258300781 3 424.263163 1269.76766 NaN NaN NaN NaN NaN NaN NaN 68.795 1 69.497 68.997 69.997 0.70218 0 0 0 1.0001 1 32829 32829 0.69767 0.07084 1 35065 1502 22329 22398 39383 39383 0.14356671747304972 VGVRRLCRRR 10 Unmodified _VGVRRLCRRR_ 0 0 0 ENSG00000105509|ENST00000540069|HAS1;nc|ENSG00000105509|Q92839|HAS1 ENSG00000105509|ENST00000540069|HAS1 ENSG00000105509|ENST00000540069|HAS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 424.2652893066406 3 424.263163 1269.76766 NaN NaN NaN NaN NaN NaN NaN 11.51 1 11.817 11.317 12.317 0.30727 0 0 0 1.0015 1 5207 5207 0.15932 0 1 35066 1502 22329 22398 39384 39384 0.14356671747304972 VGVRRLCRRR 10 Unmodified _VGVRRLCRRR_ 0 0 0 ENSG00000105509|ENST00000540069|HAS1;nc|ENSG00000105509|Q92839|HAS1 ENSG00000105509|ENST00000540069|HAS1 ENSG00000105509|ENST00000540069|HAS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 424.2662048339844 3 424.263163 1269.76766 NaN NaN NaN NaN NaN NaN NaN 10.278 1 10.911 10.411 11.411 0.63304 0 0 0 1.0015 1 4629 4629 0.15932 0 1 35067 1502 22329 22398 39385 39385 0.14356671747304972 VGVRRQRRA 9 Unmodified _VGVRRQRRA_ 0 0 0 REV__ENST00000433814.5_1_4:718925-724848:+|nuORF REV__ENST00000433814.5_1_4:718925-724848:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.0196533203125 2 549.341772 1096.66899 NaN NaN NaN NaN NaN NaN NaN 57.121 1 57.79 57.29 58.29 0.66829 0 0 0 0.90611 1 26137 26137 2.0598 0 1 + 35068 16288 22330 22399 39386 39386 0.124523917739225 VGVRRRNNH 9 Unmodified _VGVRRRNNH_ 0 0 0 REV__ENST00000296701.10_1_5:147763547-147774317:+|nuORF REV__ENST00000296701.10_1_5:147763547-147774317:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.31591796875 2 554.315755 1106.61696 NaN NaN NaN NaN NaN NaN NaN 15.498 1 16.152 15.652 16.652 0.65356 0 0 0 0.91206 1 6980 6980 0.6015 0 1 + 35069 15158 22331 22400 39387 39387 0.06791228360179957 VGVRRRPA 8 Unmodified _VGVRRRPA_ 0 0 0 ENSG00000139718|ENST00000604567|SETD1B;nc|ENSG00000139718|Q9UPS6-2|SETD1B;ENST00000580188.1_2_17:62503129-62515542:+|nuORF ENSG00000139718|ENST00000604567|SETD1B ENSG00000139718|ENST00000604567|SETD1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 455.7864685058594 2 455.78831 909.562067 NaN NaN NaN NaN NaN NaN NaN 42.168 1 42.168 41.668 42.668 0 0 0 0 0.99035 1 19187 19187 5.2307 4.5403 1 35070 3162 22332 22401 39388 39388 0.10366841559550721 VGVRRRPAR 9 Unmodified _VGVRRRPAR_ 0 0 0 ENSG00000139718|ENST00000604567|SETD1B;nc|ENSG00000139718|Q9UPS6-2|SETD1B ENSG00000139718|ENST00000604567|SETD1B ENSG00000139718|ENST00000604567|SETD1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 356.2282409667969 3 356.228336 1065.66318 NaN NaN NaN NaN NaN NaN NaN 59.786 1 60.536 60.036 61.036 0.74927 0 0 0 0.91059 1 27472 27472 0.96228 0 1 35071 3162 22333 22402 39389 39389 0.1329729326225788 VGVRRTDK 8 Unmodified _VGVRRTDK_ 0 0 0 ENSG00000184292|ENST00000371225|TACSTD2 ENSG00000184292|ENST00000371225|TACSTD2 ENSG00000184292|ENST00000371225|TACSTD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.7793884277344 2 465.777608 929.540663 3.0955 0.0014418 0.12917 6.0164E-05 3.2247 0.001502 465.7775874744987 89.8 0.41331 90.051 89.863 90.277 0.25137 41 17 3 0 0 0 0.74071 1 41368 41368 2.5775 0.27475 1 2380600 35072 5431 22334 22403 39390 39390 0.07307411740180214 VGVRRTDK 8 Unmodified _VGVRRTDK_ 0 0 0 ENSG00000184292|ENST00000371225|TACSTD2 ENSG00000184292|ENST00000371225|TACSTD2 ENSG00000184292|ENST00000371225|TACSTD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.77972412109375 2 465.777608 929.540663 2.9888 0.0013921 0.57364 0.00026719 3.5624 0.0016593 465.7778214132926 89.461 0.42361 90.139 89.89 90.314 0.67818 51 21 3 0 0 0 0.74071 1 41129 41129 2.5775 0.73324 1 2346500 35073 5431 22334 22403 39391 39391 0.07307411740180214 VGVRRVPPTR 10 Unmodified _VGVRRVPPTR_ 0 0 0 ENST00000368039.2_1_1:160771789-160771924:+|nuORF ENST00000368039.2_1_1:160771789-160771924:+|nuORF ENST00000368039.2_1_1:160771789-160771924:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.8541870117188 2 568.854181 1135.69381 NaN NaN NaN NaN NaN NaN NaN 31.062 1 31.062 30.562 31.562 0 0 0 0 1.0001 1 14046 14046 1.6526 1.1279 1 35074 7272 22335 22404 39392 39392 0.13139026856629243 VGVRSLPADF 10 Unmodified _VGVRSLPADF_ 0 0 0 ENSG00000100697|ENST00000343455|DICER1;nc|ENSG00000100697|Q9UPY3-2|DICER1;ENST00000556045.5_1_14:95570385-95572406:-|nuORF ENSG00000100697|ENST00000343455|DICER1 ENSG00000100697|ENST00000343455|DICER1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.7913208007812 2 530.792924 1059.57129 NaN NaN NaN NaN NaN NaN NaN 47.081 1 47.081 46.581 47.581 0 0 0 0 0.99733 1 21552 21552 3.9444 1.0552 1 35075 1237 22336 22405 39393 39393 0.04389145334562272 VGVRSLRVI 9 Unmodified _VGVRSLRVI_ 0 0 0 ENST00000492030.2_1_7:107340545-107353003:+|nuORF;nc|ENSG00000091137|O43511-2|SLC26A4;ENSG00000091137|ENST00000644269|SLC26A4 ENST00000492030.2_1_7:107340545-107353003:+|nuORF ENST00000492030.2_1_7:107340545-107353003:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.8283996582031 2 499.827101 997.639649 NaN NaN NaN NaN NaN NaN NaN 12.474 1 13.117 12.617 13.617 0.64272 0 0 0 0.90699 1 5595 5595 1.8442 1.1539 1 35076 1074 22337 22406 39394 39394 0.14073434705096588 VGVRWRQQR 9 Unmodified _VGVRWRQQR_ 0 0 0 ENST00000546514.1_1_12:50561052-50561130:-|nuORF ENST00000546514.1_1_12:50561052-50561130:-|nuORF ENST00000546514.1_1_12:50561052-50561130:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.4782104492188 2 592.841605 1183.66866 NaN NaN NaN NaN NaN NaN NaN 64.303 1 64.551 64.051 65.051 0.24803 0 0 0 0.91206 1 29450 29450 0.6015 0 1 35077 8846 22338 22407 39395 39395 0.08416972054055805 VGVSGSTI 8 Unmodified _VGVSGSTI_ 0 0 0 REV__ENSG00000136011|ENST00000388887|STAB2 REV__ENSG00000136011|ENST00000388887|STAB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.20281982421875 2 360.200336 718.386119 NaN NaN NaN NaN NaN NaN NaN 27.254 1 27.875 27.375 28.375 0.62179 0 0 0 0.99035 1 12494 12494 2.8892 0 1 + 35078 12055 22339 22408 39396 39396 0.015661625349594033 VGVSIPLIW 9 Unmodified _VGVSIPLIW_ 0 0 0 REV__ENST00000449739.6_1_4:73923833-73935428:-|nuORF REV__ENST00000449739.6_1_4:73923833-73935428:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.93603515625 2 492.299853 982.585153 NaN NaN NaN NaN NaN NaN NaN 56.357 1 57.135 56.635 57.635 0.77786 0 0 0 0.90511 1 25764 25764 2.3027 0.4585 1 + 35079 16404 22340 22409 39397 39397 0.09316422833660454 VGVSPGSI 8 Unmodified _VGVSPGSI_ 0 0 0 REV__ENST00000422734.1_1_10:24446874-24447108:+|nuORF REV__ENST00000422734.1_1_10:24446874-24447108:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 715.0402221679688 1 715.398481 714.391205 3.5742 0.002557 3.6771 0.0026306 7.2513 0.0051875 715.3986667738122 80.544 0.063782 80.793 80.765 80.829 0.24947 4 2 2 0 0 0 0.7471 1 37081 37081 0.79363 0 1 279680 + 35080 12971 22341 22410 39398 39398 0.022584663975862895 VGVTDLQVL 9 Unmodified _VGVTDLQVL_ 0 0 0 ENSG00000128536|ENST00000317716|CDHR3 ENSG00000128536|ENST00000317716|CDHR3 ENSG00000128536|ENST00000317716|CDHR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.2784118652344 2 472.276575 942.538597 NaN NaN NaN NaN NaN NaN NaN 100.89 1 100.89 100.39 101.39 0 0 0 0 0.89683 1 55750 55750 4.3292 0 1 35081 2514 22342 22411 39399 39399 0.06502938211713172 VGVTHDSLQY 10 Unmodified _VGVTHDSLQY_ 0 0 0 REV__ENSG00000145632|ENST00000274289|PLK2 REV__ENSG00000145632|ENST00000274289|PLK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.779296875 2 559.77747 1117.54039 3.5117 0.0019658 0.33853 0.0001895 3.8502 0.0021553 559.7779423279934 17.717 0.23713 17.717 17.579 17.816 0 19 15 2 0 0 0 0.93534 1 7888 7888 1.8442 0 1 152620 + 35082 12448 22343 22412 39400 39400 -0.013680527703172629 VGVTHDSLQY 10 Unmodified _VGVTHDSLQY_ 0 0 0 REV__ENSG00000145632|ENST00000274289|PLK2 REV__ENSG00000145632|ENST00000274289|PLK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.7798461914062 2 559.77747 1117.54039 3.6003 0.0020154 0.34702 0.00019425 3.9474 0.0022096 559.7775619140642 15.176 0.39444 15.829 15.664 16.058 0.65356 75 44 2 0 0 0 0.93534 2 6789 6789;6874 1.8442 0 1 122450 + 35083 12448 22343 22412 39401;39402 39401 -0.013680527703172629 VGVVARRR 8 Unmodified _VGVVARRR_ 0 0 0 REV__ENST00000444165.1_1_1:148853888-148854101:-|nuORF REV__ENST00000444165.1_1_1:148853888-148854101:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.7942810058594 2 456.796135 911.577717 NaN NaN NaN NaN NaN NaN NaN 28.183 1 28.97 28.47 29.47 0.78627 0 0 0 0.99035 1 12687 12687 0.79363 0 1 + 35084 16367 22344 22413 39403 39403 0.11839128076599081 VGVVARRR 8 Unmodified _VGVVARRR_ 0 0 0 REV__ENST00000444165.1_1_1:148853888-148854101:-|nuORF REV__ENST00000444165.1_1_1:148853888-148854101:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.794677734375 2 456.796135 911.577717 NaN NaN NaN NaN NaN NaN NaN 28.796 1 29.056 28.556 29.556 0.2602 0 0 0 0.99035 1 13102 13102 0.79363 0 1 + 35085 16367 22344 22413 39404 39404 0.11839128076599081 VGVVARRR 8 Unmodified _VGVVARRR_ 0 0 0 REV__ENST00000444165.1_1_1:148853888-148854101:-|nuORF REV__ENST00000444165.1_1_1:148853888-148854101:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.7950134277344 2 456.796135 911.577717 NaN NaN NaN NaN NaN NaN NaN 30.986 1 31.243 30.743 31.743 0.25614 0 0 0 0.99035 1 14103 14103 0.79363 0 1 + 35086 16367 22344 22413 39405 39405 0.11839128076599081 VGVVATVI 8 Unmodified _VGVVATVI_ 0 0 0 REV__ENST00000260585.11_1_2:26569100-26611935:+|nuORF REV__ENST00000260585.11_1_2:26569100-26611935:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.2442321777344 2 379.244547 756.47454 NaN NaN NaN NaN NaN NaN NaN 17.462 1 17.663 17.163 18.163 0.20057 0 0 0 0.99035 1 7727 7727 2.8892 0 1 + 35087 12140 22345 22414 39406 39406 0.08656202845418193 VGVVLLLKPG 10 Unmodified _VGVVLLLKPG_ 0 0 0 REV__nc|ENSG00000101307|O00241-2|SIRPB1 REV__nc|ENSG00000101307|O00241-2|SIRPB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 497.9798278808594 2 497.836603 993.658653 NaN NaN NaN NaN NaN NaN NaN 107.44 1 107.44 106.94 107.94 0 0 0 0 1.0015 1 58928 58928 0.45834 0 1 + 35088 10884 22346 22415 39407 39407 0.16156971276120657 VGVVLRPQ 8 Unmodified _VGVVLRPQ_ 0 0 0 ENST00000413029.1_1_2:240323503-240323653:+|nuORF ENST00000413029.1_1_2:240323503-240323653:+|nuORF ENST00000413029.1_1_2:240323503-240323653:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.2740783691406 2 434.27417 866.533787 NaN NaN NaN NaN NaN NaN NaN 71.375 1 71.375 70.875 71.875 0 0 0 0 0.99035 1 34694 34694 5.2307 0.47466 1 35089 7686 22347 22416 39408 39408 0.09518098859598467 VGVVRFHL 8 Unmodified _VGVVRFHL_ 0 0 0 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.7844543457031 2 463.782162 925.549771 2.9617 0.0013736 1.573 0.00072954 4.5347 0.0021031 463.78266220428236 30.545 0.13234 30.545 30.469 30.601 0 15 11 2 0 0 0 0.7471 1 13799 13799 0.79363 0 1 764580 + 35090 12335 22348 22417 39409 39409 0.08401805096514181 VGVVRFHL 8 Unmodified _VGVVRFHL_ 0 0 0 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.7842712402344 2 463.782162 925.549771 NaN NaN NaN NaN NaN NaN NaN 29.739 1 30.528 30.028 31.028 0.78921 0 0 0 0.99035 1 13415 13415 0.79363 0 1 + 35091 12335 22348 22417 39410 39410 0.08401805096514181 VGVVRFHL 8 Unmodified _VGVVRFHL_ 0 0 0 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.7841491699219 2 463.782162 925.549771 NaN NaN NaN NaN NaN NaN NaN 34.171 1 34.96 34.46 35.46 0.78921 0 0 0 0.99035 1 15473 15473 0.79363 0 1 + 35092 12335 22348 22417 39411 39411 0.08401805096514181 VGVVRFHL 8 Unmodified _VGVVRFHL_ 0 0 0 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.7839660644531 2 463.782162 925.549771 2.8514 0.0013224 1.8709 0.0008677 4.7223 0.0021901 463.7828117399766 30.12 0.19381 30.737 30.657 30.851 0.61736 17 12 2 0 0 0 0.7471 1 13818 13818 0.79363 0 1 527230 + 35093 12335 22348 22417 39412 39412 0.08401805096514181 VGVVRFHL 8 Unmodified _VGVVRFHL_ 0 0 0 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.7843933105469 2 463.782162 925.549771 NaN NaN NaN NaN NaN NaN NaN 29.928 1 30.545 30.045 31.045 0.61737 0 0 0 0.99035 1 13727 13727 0.79363 0 1 + 35094 12335 22348 22417 39413 39413 0.08401805096514181 VGVVRFHL 8 Unmodified _VGVVRFHL_ 0 0 0 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 463.782162 925.549771 2.9617 0.0013736 1.573 0.00072954 4.5347 0.0021031 463.78266220428236 30.545 0.13234 30.545 30.469 30.601 0 -0.033267 -0.00024312 NaN 0.79363 15 11 2 NaN NaN NaN NaN 0 NaN NaN 0 764580 + 35095 12335 22348 22417 0.08401805096514181 VGVVRFHL 8 Unmodified _VGVVRFHL_ 0 0 0 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 463.782162 925.549771 3.0403 0.00141 1.9441 0.00090164 4.9844 0.0023117 463.78297255015474 30.194 0.42873 30.452 30.366 30.795 0.25804 -0.12616 0.00010108 NaN 0.79363 42 25 2 NaN NaN NaN NaN 0 NaN NaN 0 689450 + 35096 12335 22348 22417 0.08401805096514181 VGVVRFHL 8 Unmodified _VGVVRFHL_ 0 0 0 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 REV__nc|ENSG00000142609|Q9C0B2|CFAP74 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 463.782162 925.549771 2.8514 0.0013224 1.8709 0.0008677 4.7223 0.0021901 463.7828117399766 30.12 0.19381 30.737 30.657 30.851 0.61736 0.15943 3.3194E-05 NaN 0.79363 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 527230 + 35097 12335 22348 22417 0.08401805096514181 VGVVTIKNN 9 Unmodified _VGVVTIKNN_ 0 0 0 REV__ENST00000544151.1_1_12:21807353-21810687:-|nuORF REV__ENST00000544151.1_1_12:21807353-21810687:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.2846984863281 2 472.282192 942.549831 NaN NaN NaN NaN NaN NaN NaN 96.358 1 96.965 96.465 97.465 0.60769 0 0 0 0.89683 1 44306 44306 4.3292 1.44 1 + 35098 11249 22349 22418 39414 39414 0.07625760305847962 VGVWLVPRT 9 Unmodified _VGVWLVPRT_ 0 0 0 REV__ENSG00000140678|ENST00000268296|ITGAX REV__ENSG00000140678|ENST00000268296|ITGAX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.8107299804688 2 513.808377 1025.6022 3.1332 0.0016099 1.0484 0.00053867 4.1816 0.0021485 513.8088025516861 50.12 0.21822 50.12 50.009 50.227 0 22 11 2 0 0 0 0.76984 1 22939 22939 7.9102 3.5809 1 639690 + 35099 12261 22350 22419 39415 39415 0.0904234343945518 VGVWLVPRT 9 Unmodified _VGVWLVPRT_ 0 0 0 REV__ENSG00000140678|ENST00000268296|ITGAX REV__ENSG00000140678|ENST00000268296|ITGAX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.311767578125 2 513.808377 1025.6022 3.1675 0.0016275 1.5438 0.00079323 4.7113 0.0024207 513.8090657075102 46.532 0.17617 47.361 47.198 47.374 0.82915 15 10 2 0 0 0 0.98132 1 21165 21165 4.3292 0.73274 1 1871000 + 35100 12261 22350 22419 39416 39416 0.0904234343945518 VGVWLVPRT 9 Unmodified _VGVWLVPRT_ 0 0 0 REV__ENSG00000140678|ENST00000268296|ITGAX REV__ENSG00000140678|ENST00000268296|ITGAX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8109130859375 2 513.808377 1025.6022 3.5289 0.0018132 0.88466 0.00045454 4.4135 0.0022677 513.8085480004565 46.62 0.68027 47.272 46.857 47.537 0.65219 45 25 3 0 0 0 0.76984 2 21345 21345;21391 7.9102 3.5809 1 2522300 + 35101 12261 22350 22419 39417;39418 39417 0.0904234343945518 VGVWLVPRT 9 Unmodified _VGVWLVPRT_ 0 0 0 REV__ENSG00000140678|ENST00000268296|ITGAX REV__ENSG00000140678|ENST00000268296|ITGAX MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 513.808377 1025.6022 3.1332 0.0016099 1.0484 0.00053867 4.1816 0.0021485 513.8088025516861 50.12 0.21822 50.12 50.009 50.227 0 0.056594 8.7529E-06 NaN 7.9102 22 11 2 NaN NaN NaN NaN 0 NaN NaN 0 639690 + 35102 12261 22350 22419 0.0904234343945518 VGVWLVPRT 9 Unmodified _VGVWLVPRT_ 0 0 0 REV__ENSG00000140678|ENST00000268296|ITGAX REV__ENSG00000140678|ENST00000268296|ITGAX MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 513.808377 1025.6022 3.005 0.001544 1.5353 0.00078887 4.5404 0.0023329 513.8091081776171 47.645 0.46227 47.645 47.441 47.903 0 0.19874 0.00029782 NaN 7.9102 61 33 2 NaN NaN NaN NaN 0 NaN NaN 0 5146800 + 35103 12261 22350 22419 0.0904234343945518 VGVWLVPRT 9 Unmodified _VGVWLVPRT_ 0 0 0 REV__ENSG00000140678|ENST00000268296|ITGAX REV__ENSG00000140678|ENST00000268296|ITGAX MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 513.808377 1025.6022 3.3183 0.001705 1.701 0.000874 5.0193 0.002579 513.8098750213537 49.166 0.17243 49.993 49.871 50.043 0.82705 -0.0708 0.00067941 NaN 7.9102 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 298090 + 35104 12261 22350 22419 0.0904234343945518 VGVWLVPRT 9 Unmodified _VGVWLVPRT_ 0 0 0 REV__ENSG00000140678|ENST00000268296|ITGAX REV__ENSG00000140678|ENST00000268296|ITGAX MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 513.808377 1025.6022 3.1675 0.0016275 1.5438 0.00079323 4.7113 0.0024207 513.8090657075102 46.532 0.17617 47.361 47.198 47.374 0.82915 -0.084897 0.00030653 NaN 7.9102 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 1871000 + 35105 12261 22350 22419 0.0904234343945518 VGVWLVPRT 9 Unmodified _VGVWLVPRT_ 0 0 0 REV__ENSG00000140678|ENST00000268296|ITGAX REV__ENSG00000140678|ENST00000268296|ITGAX MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 513.808377 1025.6022 3.6184 0.0018592 1.2324 0.00063322 4.8508 0.0024924 513.8088584820543 47.242 0.52271 47.505 47.312 47.834 0.26363 0.059553 -1.3492E-05 NaN 7.9102 64 21 4 NaN NaN NaN NaN 0 NaN NaN 0 3777500 + 35106 12261 22350 22419 0.0904234343945518 VGVWPVLGR 9 Unmodified _VGVWPVLGR_ 0 0 0 REV__MLT1H1_dup140|chr1:144208113-144208543:-|1.8817215611230005|0.286716771863292|2.71|520.0|16|1|anti-sense REV__MLT1H1_dup140|chr1:144208113-144208543:-|1.8817215611230005|0.286716771863292|2.71|520.0|16|1|anti-sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.79852294921875 2 491.795269 981.575986 3.2552 0.0016009 3.0855 0.0015174 6.3407 0.0031183 491.79624340801445 51.462 0.34784 51.462 51.266 51.614 0 31 17 2 0 0 0 0.95612 2 23560 23560;23611 4.756 2.4533 1 814410 + 35107 17839 22351 22420 39419;39420 39419 0.08446074267999393 VGVWPVLGR 9 Unmodified _VGVWPVLGR_ 0 0 0 REV__MLT1H1_dup140|chr1:144208113-144208543:-|1.8817215611230005|0.286716771863292|2.71|520.0|16|1|anti-sense REV__MLT1H1_dup140|chr1:144208113-144208543:-|1.8817215611230005|0.286716771863292|2.71|520.0|16|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.7975769042969 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 50.609 1 51.427 50.927 51.927 0.81738 0 0 0 0.89509 1 23051 23051 4.756 2.1785 1 + 35108 17839 22351 22420 39421 39421 0.08446074267999393 VGVYLLPGR 9 Unmodified _VGVYLLPGR_ 0 0 0 nc|ENSG00000167770|Q96FW1-2|OTUB1 nc|ENSG00000167770|Q96FW1-2|OTUB1 nc|ENSG00000167770|Q96FW1-2|OTUB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2970886230469 2 487.295102 972.575651 NaN NaN NaN NaN NaN NaN NaN 96.578 1 96.855 96.355 97.355 0.27778 0 0 0 0.82031 1 44372 44372 8.5933 0.68312 1 35109 9740 22352 22421 39422 39422 0.08826654548136048 VGWAWTPPWW 10 Unmodified _VGWAWTPPWW_ 0 0 0 ENST00000355415.6_1_19:3544204-3544516:-|nuORF ENST00000355415.6_1_19:3544204-3544516:-|nuORF ENST00000355415.6_1_19:3544204-3544516:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.3129272460938 2 643.311284 1284.60801 NaN NaN NaN NaN NaN NaN NaN 53.153 1 53.153 52.653 53.653 0 0 0 0 0.99983 1 24344 24344 1.8442 0.51471 1 35110 7149 22353 22422 39423 39423 -0.022905580488895794 VGWCLQCYLA 10 Unmodified _VGWCLQCYLA_ 0 0 0 REV__ENST00000532085.1_1_11:118895622-118896243:-|nuORF REV__ENST00000532085.1_1_11:118895622-118896243:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.2725219726562 2 578.269912 1154.52527 3.54 0.0020471 -0.28315 -0.00016374 3.2569 0.0018833 578.2699316362914 38.28 0.2934 38.914 38.804 39.098 0.63388 17 12 2 0 0 0 0.64255 1 17534 17534 15.847 1.9411 1 206100 + 35111 17148 22354 22423 39424 39424 -0.04580959163536136 VGWFSLEF 8 Unmodified _VGWFSLEF_ 0 0 0 ENSG00000026559|ENST00000371571|KCNG1 ENSG00000026559|ENST00000371571|KCNG1 ENSG00000026559|ENST00000371571|KCNG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.74346923828125 2 492.744911 983.475269 NaN NaN NaN NaN NaN NaN NaN 102.29 1 102.89 102.39 103.39 0.59759 0 0 0 0.99035 1 47351 47351 2.8892 1.045 1 35112 485 22355 22424 39425 39425 -0.01713002505539407 VGWGLPAL 8 Unmodified _VGWGLPAL_ 0 0 0 ENSG00000182885|ENST00000333493|ADGRG3 ENSG00000182885|ENST00000333493|ADGRG3 ENSG00000182885|ENST00000333493|ADGRG3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 406.7373962402344 2 406.736889 811.459225 2.7933 0.0011361 -1.2536 -0.00050989 1.5397 0.00062624 406.7363020129461 13.025 0.13489 13.025 12.944 13.079 0 19 7 3 0 0 0 0.457 1 5688 5688 24.21 0 1 1022600 35113 5355 22356 22425 39426 39426 0.04595336048214449 VGWGLPAL 8 Unmodified _VGWGLPAL_ 0 0 0 ENSG00000182885|ENST00000333493|ADGRG3 ENSG00000182885|ENST00000333493|ADGRG3 ENSG00000182885|ENST00000333493|ADGRG3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 406.736889 811.459225 2.2779 0.00092652 -2.1938 -0.00089229 0.084174 3.4237E-05 406.7361095599325 12.698 0.20967 13.005 12.848 13.058 0.30727 -0.064645 -0.00076652 NaN 24.21 12 6 3 NaN NaN NaN NaN 0 NaN NaN 0 843910 35114 5355 22356 22425 0.04595336048214449 VGWGLPAL 8 Unmodified _VGWGLPAL_ 0 0 0 ENSG00000182885|ENST00000333493|ADGRG3 ENSG00000182885|ENST00000333493|ADGRG3 ENSG00000182885|ENST00000333493|ADGRG3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 406.736889 811.459225 3.2603 0.0013261 -1.6737 -0.00068077 1.5866 0.00064531 406.73620363133506 12.618 0.10123 13.261 13.176 13.278 0.64272 0.19046 -0.00034348 NaN 24.21 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 1209800 35115 5355 22356 22425 0.04595336048214449 VGWHTHREEPG 11 Unmodified _VGWHTHREEPG_ 0 0 0 REV__ENST00000415259.5_2_3:51705304-51705712:+|nuORF REV__ENST00000415259.5_2_3:51705304-51705712:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 652.8073120117188 2 652.810168 1303.60578 NaN NaN NaN NaN NaN NaN NaN 47.83 1 47.83 47.33 48.33 0 0 0 0 1.0073 1 21904 21904 1.1933 0.59184 1 + 35116 16129 22357 22426 39427 39427 -0.03387638524623071 VGWKFLLLILL 11 Unmodified _VGWKFLLLILL_ 0 0 0 MLT1H1_dup140|chr1:144208113-144208543:-|1.8817215611230005|0.286716771863292|2.71|520.0|5|2|sense MLT1H1_dup140|chr1:144208113-144208543:-|1.8817215611230005|0.286716771863292|2.71|520.0|5|2|sense MLT1H1_dup140|chr1:144208113-144208543:-|1.8817215611230005|0.286716771863292|2.71|520.0|5|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 657.9322509765625 2 657.931035 1313.84752 NaN NaN NaN NaN NaN NaN NaN 28.38 1 28.38 27.88 28.88 0 0 0 0 1.008 1 12794 12794 0.35063 0.043601 1 35117 9521 22358 22427 39428 39428 0.2031462384961742 VGWKRKHIK 9 Unmodified _VGWKRKHIK_ 0 0 0 ENST00000496524.5_1_2:110883202-110883253:-|nuORF ENST00000496524.5_1_2:110883202-110883253:-|nuORF ENST00000496524.5_1_2:110883202-110883253:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.36083984375 2 576.361642 1150.70873 NaN NaN NaN NaN NaN NaN NaN 102.34 1 102.65 102.15 103.15 0.31737 0 0 0 0.91206 1 47339 47339 0.6015 0.14316 1 35118 8445 22359 22428 39429 39429 0.13940518724621143 VGWLHPGPL 9 Unmodified _VGWLHPGPL_ 0 0 0 REV__ENST00000520427.1_1_5:139931625-139936746:-|nuORF REV__ENST00000520427.1_1_5:139931625-139936746:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 488.27215576171875 2 488.27417 974.533787 NaN NaN NaN NaN NaN NaN NaN 37.452 1 37.452 36.952 37.952 0 0 0 0 0.7971 1 16995 16995 9.3474 2.9933 1 + 35119 17045 22360 22429 39430 39430 0.04550098859601803 VGWLKLLVHV 10 Unmodified _VGWLKLLVHV_ 0 0 0 REV__ENST00000319331.3_1_3:3886186-3886303:+|nuORF REV__ENST00000319331.3_1_3:3886186-3886303:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.3700561523438 2 582.368601 1162.72265 NaN NaN NaN NaN NaN NaN NaN 67.304 1 67.962 67.462 68.462 0.65777 0 0 0 1.0018 1 30851 30851 0.45834 0.45834 1 + 35120 15308 22361 22430 39431 39431 0.14779751433070487 VGWLPKWRFLL 11 Unmodified _VGWLPKWRFLL_ 0 0 0 REV__nc|ENSG00000159363|Q9NQ11-2|ATP13A2 REV__nc|ENSG00000159363|Q9NQ11-2|ATP13A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.2854919433594 3 472.283447 1413.82851 1.6114 0.00076103 1.6489 0.00077877 3.2603 0.0015398 472.2844010580088 106.04 0.11821 106.09 106.04 106.16 0.04837 9 4 3 0 0 0 0.91459 1 57401 57401 0.094841 0 1 1068200 + 35121 12848 22362 22431 39432 39432 0.13815087278544524 VGWLPKWRFLL 11 Unmodified _VGWLPKWRFLL_ 0 0 0 REV__nc|ENSG00000159363|Q9NQ11-2|ATP13A2 REV__nc|ENSG00000159363|Q9NQ11-2|ATP13A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 707.92333984375 2 707.921532 1413.82851 4.5077 0.0031911 -0.08578 -6.0726E-05 4.422 0.0031304 707.9211412970639 95.097 0.68578 95.365 94.922 95.608 0.2675 60 41 3 0 0 0 0.91459 1 43530 43530 0.35063 0 1 712340 + 35122 12848 22362 22431 39433 39433 0.13815087278544524 VGWLWTYFKC 10 Unmodified _VGWLWTYFKC_ 0 0 0 REV__ENSG00000099194|ENST00000370355|SCD REV__ENSG00000099194|ENST00000370355|SCD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.8833312988281 3 434.882843 1301.6267 NaN NaN NaN NaN NaN NaN NaN 17.167 1 17.471 16.971 17.971 0.30438 0 0 0 1.0018 1 7774 7774 0.15932 0 1 + 35123 10780 22363 22432 39434 39434 -0.012047644693438997 VGWLWTYFKCT 11 Unmodified _VGWLWTYFKCT_ 0 0 0 REV__ENSG00000099194|ENST00000370355|SCD REV__ENSG00000099194|ENST00000370355|SCD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 702.34619140625 2 702.344466 1402.67438 NaN NaN NaN NaN NaN NaN NaN 104.49 1 104.49 103.99 104.99 0 0 0 0 1.008 1 57495 57495 0.35063 0 1 + 35124 10780 22364 22433 39435 39435 -0.010851102691503911 VGWPRNWRQ 9 Unmodified _VGWPRNWRQ_ 0 0 0 nc|ENSG00000124140|Q9H2X9|SLC12A5;ENSG00000124140|ENST00000243964|SLC12A5 nc|ENSG00000124140|Q9H2X9|SLC12A5 nc|ENSG00000124140|Q9H2X9|SLC12A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 599.8156127929688 2 599.815056 1197.61556 NaN NaN NaN NaN NaN NaN NaN 102.7 1 103.3 102.8 103.8 0.59759 0 0 0 0.91206 1 47530 47530 0.6015 0 1 35125 2339 22365 22434 39436 39436 0.024655942713934564 VGWRVDYTLS 10 Unmodified _VGWRVDYTLS_ 0 0 0 ENST00000566843.1_1_15:75631960-75632245:+|nuORF;ENST00000565834.1_1_15:75631960-75632343:+|nuORF;ENSG00000140365|ENST00000267935|COMMD4 ENST00000566843.1_1_15:75631960-75632245:+|nuORF ENST00000566843.1_1_15:75631960-75632245:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 598.3115844726562 2 598.308938 1194.60332 NaN NaN NaN NaN NaN NaN NaN 105.01 1 105.01 104.51 105.51 0 0 0 0 1.0001 1 57734 57734 1.6526 0.17072 1 35126 3193 22366 22435 39437 39437 0.013805130177161118 VGWVQRHRKML 11 Unmodified _VGWVQRHRKML_ 0 0 0 ENSG00000108702|ENST00000225842|CCL1 ENSG00000108702|ENST00000225842|CCL1 ENSG00000108702|ENST00000225842|CCL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 705.3992919921875 2 705.400973 1408.78739 NaN NaN NaN NaN NaN NaN NaN 69.474 1 69.728 69.228 70.228 0.25443 0 0 0 1.008 1 31815 31815 0.35063 0.043601 1 35127 1646 22367 22436 39438 39438 0.09935002967404216 VGWWDWKF 8 Unmodified _VGWWDWKF_ 0 0 0 REV__ENST00000308488.10_1_11:77374192-77374351:-|nuORF REV__ENST00000308488.10_1_11:77374192-77374351:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.274658203125 2 562.271627 1122.5287 NaN NaN NaN NaN NaN NaN NaN 29.52 1 30.138 29.638 30.638 0.61789 0 0 0 0.99035 1 13539 13539 0.79363 0.10326 1 + 35128 15243 22368 22437 39439 39439 -0.02766205003013056 VGWYPLFRTL 10 Unmodified _VGWYPLFRTL_ 0 0 0 REV__ENST00000432829.6_1_9:464391-464448:+|nuORF REV__ENST00000432829.6_1_9:464391-464448:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 626.3477172851562 2 626.347866 1250.68118 NaN NaN NaN NaN NaN NaN NaN 58.272 1 59.031 58.531 59.531 0.75894 0 0 0 1.0003 1 26723 26723 1.4819 0 1 + 35129 16276 22369 22438 39440 39440 0.065865706737668 VGYAVLWVGLF 11 Unmodified _VGYAVLWVGLF_ 0 0 0 REV__nc|ENSG00000130529|Q8TD43-2|TRPM4 REV__nc|ENSG00000130529|Q8TD43-2|TRPM4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 612.346435546875 2 612.344792 1222.67503 3.7356 0.0022875 -0.68093 -0.00041696 3.0546 0.0018705 612.3444775257008 100.5 0.7064 101.1 101 101.71 0.59717 42 25 2 0 0 0 0.9102 1 46641 46641 1.4819 0.41044 1 7731700 + 35130 11822 22370 22439 39441 39441 0.07260052442234155 VGYAVLWVGLF 11 Unmodified _VGYAVLWVGLF_ 0 0 0 REV__nc|ENSG00000130529|Q8TD43-2|TRPM4 REV__nc|ENSG00000130529|Q8TD43-2|TRPM4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 612.344792 1222.67503 3.3177 0.0020316 -0.79468 -0.00048662 2.523 0.001545 612.344299671954 100.77 0.53903 100.77 100.72 101.26 0 -0.16343 -9.0726E-05 NaN 1.4819 46 27 2 NaN NaN NaN NaN 0 NaN NaN 0 3705000 + 35131 11822 22370 22439 0.07260052442234155 VGYEHYAE 8 Unmodified _VGYEHYAE_ 0 0 0 ENSG00000177854|ENST00000369982|TMEM187 ENSG00000177854|ENST00000369982|TMEM187 ENSG00000177854|ENST00000369982|TMEM187 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 484.2107238769531 2 484.211432 966.408311 NaN NaN NaN NaN NaN NaN NaN 92.243 1 92.496 91.996 92.996 0.25253 0 0 0 0.99035 1 42406 42406 0.79363 0 1 35132 5138 22371 22440 39442 39442 -0.07623657787280536 VGYEKEVK 8 Unmodified _VGYEKEVK_ 0 0 0 REV__nc|ENSG00000150760|Q14185|DOCK1;REV__ENSG00000134516|ENST00000520908|DOCK2;REV__ENST00000519868.1_1_5:169502602-169506159:+|nuORF REV__nc|ENSG00000150760|Q14185|DOCK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.84356689453125 3 317.843042 950.507297 2.0858 0.00066297 0.47052 0.00014955 2.5563 0.00081252 317.843107066125 15.609 0.77356 15.915 15.575 16.349 0.306 150 86 2 0 0 0 0.7471 1 7177 7177 1.8442 0 1 137590 + 35133 12594;11966;17040 22372 22441 39443 39443 0.03006365177623138 VGYFFLRL 8 Unmodified _VGYFFLRL_ 0 0 0 REV__SLC35G2|p.T290Yfs*59|1|0.04|ENSG00000168917|chr3:136855324-136855325|-/T|frameshift_variant REV__SLC35G2|p.T290Yfs*59|1|0.04|ENSG00000168917|chr3:136855324-136855325|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 338.53179931640625 3 338.863889 1013.56984 NaN NaN NaN NaN NaN NaN NaN 16.466 1 16.666 16.166 17.166 0.20057 0 0 0 0.99035 1 7273 7273 1.8442 0.77278 1 + 35134 18211 22373 22442 39444 39444 0.06359556036477443 VGYKEEETPT 10 Unmodified _VGYKEEETPT_ 0 0 0 REV__DOCK3|p.N1302Rfs*23|1|0.22|ENSG00000088538|chr3:51341374-51341378|AACAA/-|frameshift_variant REV__DOCK3|p.N1302Rfs*23|1|0.22|ENSG00000088538|chr3:51341374-51341378|AACAA/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 576.9566040039062 2 576.774593 1151.53463 3.4377 0.0019828 -0.16556 -9.5492E-05 3.2722 0.0018873 576.7742698226087 37.505 0.62642 38.3 37.962 38.588 0.79552 43 29 2 0 0 0 0.12676 1 16854 16854 1.4819 0.68827 1 539870 + 35135 10135 22374 22443 39445 39445 -0.03507196072678198 VGYKKLEETFK 11 Unmodified _VGYKKLEETFK_ 0 0 0 REV__ENST00000590314.1_1_17:40685554-40685683:+|nuORF REV__ENST00000590314.1_1_17:40685554-40685683:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 448.14581298828125 3 447.918611 1340.734 NaN NaN NaN NaN NaN NaN NaN 69.962 1 70.665 70.165 71.165 0.70302 0 0 0 1.0057 1 33502 33502 1.3296 0.11481 1 + 35136 13953 22375 22444 39446 39446 0.07726483945884866 VGYKKRLKQRH 11 Unmodified _VGYKKRLKQRH_ 0 0 0 REV__nc|ENSG00000160796|Q6ZNJ1-2|NBEAL2 REV__nc|ENSG00000160796|Q6ZNJ1-2|NBEAL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 706.9342041015625 2 706.933494 1411.85244 NaN NaN NaN NaN NaN NaN NaN 12.729 1 12.99 12.49 13.49 0.26154 0 0 0 1.008 1 5535 5535 0.35063 0 1 + 35137 12893 22376 22445 39447 39447 0.16298320764917662 VGYKLVFIILL 11 Unmodified _VGYKLVFIILL_ 0 0 0 ENST00000273258.3_1_3:69154230-69154353:+|nuORF ENST00000273258.3_1_3:69154230-69154353:+|nuORF ENST00000273258.3_1_3:69154230-69154353:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 639.4161987304688 2 639.415217 1276.81588 NaN NaN NaN NaN NaN NaN NaN 62.032 1 62.284 61.784 62.784 0.25245 0 0 0 1.008 1 28400 28400 0.35063 0 1 35138 6662 22377 22446 39448 39448 0.18854631095678087 VGYKRERLRS 10 Unmodified _VGYKRERLRS_ 0 0 0 REV__ENSG00000078237|ENST00000179259|TIGAR REV__ENSG00000078237|ENST00000179259|TIGAR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 632.3668823242188 2 632.367653 1262.72075 NaN NaN NaN NaN NaN NaN NaN 62.574 1 62.574 62.074 63.074 0 0 0 0 1.0015 1 29332 29332 0.45834 0 1 + 35139 10568 22378 22447 39449 39449 0.09990090677183616 VGYNRPLQ 8 Unmodified _VGYNRPLQ_ 0 0 0 ENST00000586487.2_1_18:45396854-45396920:-|nuORF ENST00000586487.2_1_18:45396854-45396920:-|nuORF ENST00000586487.2_1_18:45396854-45396920:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 316.1763610839844 3 316.175015 945.503215 NaN NaN NaN NaN NaN NaN NaN 14.779 1 15.086 14.586 15.586 0.3069 0 0 0 0.99035 1 6681 6681 0.45834 0 1 35140 9185 22379 22448 39450 39450 0.028283204745775947 VGYPRRGYRQ 10 Unmodified _VGYPRRGYRQ_ 0 0 0 REV__ENSG00000129084|ENST00000396394|PSMA1 REV__ENSG00000129084|ENST00000396394|PSMA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 626.3382568359375 2 626.338895 1250.66324 NaN NaN NaN NaN NaN NaN NaN 42.147 1 42.956 42.456 43.456 0.80855 0 0 0 1.0001 1 19136 19136 1.6526 0.17072 1 + 35141 11778 22380 22449 39451 39451 0.04793248471605693 VGYRQRYR 8 Unmodified _VGYRQRYR_ 0 0 0 REV__ENSG00000139620|ENST00000420613|KANSL2 REV__ENSG00000139620|ENST00000420613|KANSL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.3012084960938 2 549.301781 1096.58901 NaN NaN NaN NaN NaN NaN NaN 35.461 1 35.461 34.961 35.961 0 0 0 0 0.99035 1 16090 16090 0.79363 0.10326 1 + 35142 12215 22381 22450 39452 39452 0.04457905380081684 VGYRQRYRRLC 11 Unmodified _VGYRQRYRRLC_ 0 0 0 REV__ENSG00000139620|ENST00000420613|KANSL2 REV__ENSG00000139620|ENST00000420613|KANSL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 735.3977661132812 2 735.398961 1468.78337 NaN NaN NaN NaN NaN NaN NaN 78.857 1 79.108 78.608 79.608 0.25127 0 0 0 1.008 1 36313 36313 0.35063 0.043601 1 + 35143 12215 22382 22451 39453 39453 0.067729134737192 VGYRYNPRPR 10 Unmodified _VGYRYNPRPR_ 0 0 0 nc|ENSG00000198825|Q9Y2H2-2|INPP5F;ENSG00000198825|ENST00000650623|INPP5F nc|ENSG00000198825|Q9Y2H2-2|INPP5F nc|ENSG00000198825|Q9Y2H2-2|INPP5F MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 639.34716796875 2 639.34672 1276.67889 NaN NaN NaN NaN NaN NaN NaN 29.828 1 30.086 29.586 30.586 0.25804 0 0 0 1.0015 1 13577 13577 0.45834 0 1 35144 5942 22383 22452 39454 39454 0.051615349886333206 VGYTEAAKL 9 Unmodified _VGYTEAAKL_ 0 0 0 REV__ENSG00000144834|ENST00000478951|TAGLN3 REV__ENSG00000144834|ENST00000478951|TAGLN3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.8436279296875 3 317.843042 950.507297 2.0858 0.00066297 0.47052 0.00014955 2.5563 0.00081252 317.843107066125 15.609 0.77356 15.915 15.575 16.349 0.306 150 86 2 0 0 0 1.0601 2 7004 7004;7050 2.9952 0 1 137590 + 35145 12417 22384 22453 39455;39456 39455 0.030063651776117695 VGYTLKRFFFK 11 Unmodified _VGYTLKRFFFK_ 0 0 0 REV__ENSG00000184544|ENST00000571134|DHRS7C REV__ENSG00000184544|ENST00000571134|DHRS7C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 703.40283203125 2 703.403173 1404.79179 NaN NaN NaN NaN NaN NaN NaN 55.451 1 56.238 55.738 56.738 0.78711 0 0 0 1.0072 1 25317 25317 1.3295 0.87119 1 + 35146 13978 22385 22454 39457 39457 0.1055879066198031 VGYVEPRRRR 10 Unmodified _VGYVEPRRRR_ 0 0 0 REV__ENST00000604849.1_2_X:53123411-53171229:+|nuORF REV__ENST00000604849.1_2_X:53123411-53171229:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 644.263427734375 2 644.373269 1286.73199 NaN NaN NaN NaN NaN NaN NaN 52.634 1 53.444 52.944 53.944 0.81065 0 0 0 1.0015 1 23982 23982 0.45834 0 1 + 35147 17656 22386 22455 39458 39458 0.10008912771309042 VGYVVPNR 8 Unmodified _VGYVVPNR_ 0 0 0 REV__ENSG00000153993|ENST00000284136|SEMA3D REV__ENSG00000153993|ENST00000284136|SEMA3D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.2568359375 2 452.255977 902.497401 NaN NaN NaN NaN NaN NaN NaN 73.33 1 73.589 73.089 74.089 0.25876 0 0 0 0.99035 1 33680 33680 2.5775 0.27475 1 + 35148 12692 22387 22456 39459 39459 0.04225221962906289 VGYWQDTEKW 10 Unmodified _VGYWQDTEKW_ 0 0 0 REV__ENST00000514032.5_1_5:179150767-179151683:+|nuORF REV__ENST00000514032.5_1_5:179150767-179151683:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 656.304931640625 2 656.303852 1310.59315 NaN NaN NaN NaN NaN NaN NaN 16.698 1 17.356 16.856 17.856 0.65798 0 0 0 1.0015 1 7527 7527 0.45834 0 1 + 35149 16999 22388 22457 39460 39460 -0.04972094707522956 VGYYLQKNRM 10 Unmodified _VGYYLQKNRM_ 0 0 0 ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 636.3323974609375 2 636.33189 1270.64923 NaN NaN NaN NaN NaN NaN NaN 23.307 1 23.992 23.492 24.492 0.68536 0 0 0 1.0001 1 10393 10393 1.6526 0.17072 1 35150 4647 22389 22458 39461 39461 0.024728349282668205 VGYYSFASA 9 Unmodified _VGYYSFASA_ 0 0 0 REV__ENSG00000148842|ENST00000369878|CNNM2 REV__ENSG00000148842|ENST00000369878|CNNM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.7236022949219 2 482.724175 963.433798 NaN NaN NaN NaN NaN NaN NaN 43.739 1 44.554 44.054 45.054 0.81444 0 0 0 0.90511 1 19910 19910 2.3027 0.65011 1 + 35151 12551 22390 22459 39462 39462 -0.049381832648577983 VHADRNTFHRF 11 Unmodified _VHADRNTFHRF_ 0 0 0 nc|ENSG00000116337|Q01433-4|AMPD2;ENST00000526301.5_1_1:110162158-110172443:+|nuORF;nc|ENSG00000116337|Q01433-5|AMPD2;nc|ENSG00000116337|Q01433-2|AMPD2;ENSG00000116337|ENST00000528667|AMPD2 nc|ENSG00000116337|Q01433-4|AMPD2 nc|ENSG00000116337|Q01433-4|AMPD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.6806640625 4 350.679905 1398.69051 2.2439 0.00078688 0.22793 7.9929E-05 2.4718 0.00086681 350.930882310391 13.912 0.070292 14.156 14.116 14.186 0.24346 10 7 2 0 0 0 0.26616 1 6101 6101 26.121 20.253 1 382130 35152 9611 22391 22460 39463 39463 0.00711732011973254 VHADRNTFHRF 11 Unmodified _VHADRNTFHRF_ 0 0 0 nc|ENSG00000116337|Q01433-4|AMPD2;ENST00000526301.5_1_1:110162158-110172443:+|nuORF;nc|ENSG00000116337|Q01433-5|AMPD2;nc|ENSG00000116337|Q01433-2|AMPD2;ENSG00000116337|ENST00000528667|AMPD2 nc|ENSG00000116337|Q01433-4|AMPD2 nc|ENSG00000116337|Q01433-4|AMPD2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 350.679905 1398.69051 2.5112 0.00088063 0.16268 5.7049E-05 2.6739 0.00093768 350.93080334617883 14.513 0.2013 14.513 14.374 14.576 0 0.17874 -3.3541E-05 NaN 26.121 23 15 2 NaN NaN NaN NaN 0 NaN NaN 0 245210 35153 9611 22391 22460 0.00711732011973254 VHCKKKAI 8 Unmodified _VHCKKKAI_ 0 0 0 REV__nc|ENSG00000155886|Q9UI40-2|SLC24A2 REV__nc|ENSG00000155886|Q9UI40-2|SLC24A2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.78497314453125 2 463.783847 925.553142 2.5015 0.0011601 -1.2004 -0.00055672 1.3011 0.00060342 463.7832164896049 32.733 0.21238 33.521 33.437 33.65 0.78795 24 16 2 0 0 0 0.73686 1 14803 14803 2.8892 0 1 342680 + 35154 12754 22392 22461 39464 39464 0.08738731878850103 VHCKKKAI 8 Unmodified _VHCKKKAI_ 0 0 0 REV__nc|ENSG00000155886|Q9UI40-2|SLC24A2 REV__nc|ENSG00000155886|Q9UI40-2|SLC24A2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 463.783847 925.553142 2.7141 0.0012587 -2.0304 -0.00094165 0.68372 0.0003171 463.78288249929545 33.056 0.26523 33.675 33.503 33.768 0.61831 0.076768 -0.00040152 NaN 2.8892 25 13 2 NaN NaN NaN NaN 0 NaN NaN 0 633000 + 35155 12754 22392 22461 0.08738731878850103 VHDGWVDGCL 10 Unmodified _VHDGWVDGCL_ 0 0 0 ENST00000539267.5_1_1:205554025-205568301:+|nuORF;ENST00000475956.5_1_1:205554022-205568281:+|nuORF ENST00000539267.5_1_1:205554025-205568301:+|nuORF ENST00000539267.5_1_1:205554025-205568301:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 367.4991149902344 3 367.49917 1099.47568 1.975 0.00072582 -0.23268 -8.5508E-05 1.7424 0.00064032 367.4990708134773 21.636 0.19522 22.042 21.976 22.171 0.40533 44 32 2 0 0 0 0.22696 2 9583 9583;9634 24.882 14.808 1 3537600 35156 8226 22393 22462 39465;39466 39465 -0.07007950847992106 VHDGWVDGCL 10 Unmodified _VHDGWVDGCL_ 0 0 0 ENST00000539267.5_1_1:205554025-205568301:+|nuORF;ENST00000475956.5_1_1:205554022-205568281:+|nuORF ENST00000539267.5_1_1:205554025-205568301:+|nuORF ENST00000539267.5_1_1:205554025-205568301:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 367.4996643066406 3 367.49917 1099.47568 NaN NaN NaN NaN NaN NaN NaN 22.109 1 22.39 21.89 22.89 0.28085 0 0 0 0.22288 1 9997 9997 30.703 7.9672 1 35157 8226 22393 22462 39467 39467 -0.07007950847992106 VHDGWVDGCL 10 Unmodified _VHDGWVDGCL_ 0 0 0 ENST00000539267.5_1_1:205554025-205568301:+|nuORF;ENST00000475956.5_1_1:205554022-205568281:+|nuORF ENST00000539267.5_1_1:205554025-205568301:+|nuORF ENST00000539267.5_1_1:205554025-205568301:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 367.49917 1099.47568 2.6176 0.00096195 -0.16501 -6.064E-05 2.4525 0.00090131 367.49899801414983 22.063 0.045517 22.344 22.31 22.355 0.28085 0.15116 5.7369E-05 NaN 24.882 11 9 2 NaN NaN NaN NaN 0 NaN NaN 0 2036400 35158 8226 22393 22462 -0.07007950847992106 VHDNQFFNS 9 Unmodified _VHDNQFFNS_ 0 0 0 REV__ENST00000523850.5_1_8:85618206-85717007:+|nuORF REV__ENST00000523850.5_1_8:85618206-85717007:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.7506713867188 2 554.246338 1106.47812 3.9089 0.0021665 0.20552 0.00011391 4.1144 0.0022804 554.2463947754892 32.099 0.21525 32.353 32.191 32.406 0.25452 20 12 2 0 0 0 0.95612 1 14611 14611 4.756 0 1 172360 + 35159 17069 22394 22463 39468 39468 -0.07085779118665414 VHDNQFFNS 9 Unmodified _VHDNQFFNS_ 0 0 0 REV__ENST00000523850.5_1_8:85618206-85717007:+|nuORF REV__ENST00000523850.5_1_8:85618206-85717007:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 369.8343811035156 3 369.833317 1106.47812 2.6752 0.00098938 -0.034735 -1.2846E-05 2.6405 0.00097653 369.83326147031477 43.132 0.36068 43.403 43.202 43.563 0.27021 76 37 3 0 0 0 0.54955 1 19635 19635 7.609 1.8255 1 14793000 + 35160 17069 22394 22463 39469 39469 -0.07085779118665414 VHDNQFFNS 9 Unmodified _VHDNQFFNS_ 0 0 0 REV__ENST00000523850.5_1_8:85618206-85717007:+|nuORF REV__ENST00000523850.5_1_8:85618206-85717007:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.2483520507812 2 554.246338 1106.47812 3.6666 0.0020322 -0.36603 -0.00020287 3.3006 0.0018293 554.2459912780456 42.567 0.47992 43.214 42.868 43.348 0.64693 92 39 3 0 0 0 0.24465 2 19439 19439;19537 20.454 1.1966 1 4872500 + 35161 17069 22394 22463 39470;39471 39470 -0.07085779118665414 VHDNQFFNS 9 Unmodified _VHDNQFFNS_ 0 0 0 REV__ENST00000523850.5_1_8:85618206-85717007:+|nuORF REV__ENST00000523850.5_1_8:85618206-85717007:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 554.246338 1106.47812 3.9089 0.0021665 0.20552 0.00011391 4.1144 0.0022804 554.2463947754892 32.099 0.21525 32.353 32.191 32.406 0.25452 0.13463 0.00024199 NaN 4.756 20 12 2 NaN NaN NaN NaN 0 NaN NaN 0 172360 + 35162 17069 22394 22463 -0.07085779118665414 VHDNQFFNS 9 Unmodified _VHDNQFFNS_ 0 0 0 REV__ENST00000523850.5_1_8:85618206-85717007:+|nuORF REV__ENST00000523850.5_1_8:85618206-85717007:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 554.246338 1106.47812 3.5084 0.0019445 -0.69425 -0.00038478 2.8142 0.0015598 554.2454977721629 31.467 0.24593 32.084 31.958 32.204 0.61737 -0.13463 -0.0007554 NaN 4.756 27 16 2 NaN NaN NaN NaN 0 NaN NaN 0 225340 + 35163 17069 22394 22463 -0.07085779118665414 VHEVGVFIL 9 Unmodified _VHEVGVFIL_ 0 0 0 REV__ZNF280B|p.N318Mfs*5|1|0.08|ENSG00000275004|chr22:22488446-22488446|T/-|frameshift_variant REV__ZNF280B|p.N318Mfs*5|1|0.08|ENSG00000275004|chr22:22488446-22488446|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.5545959472656 3 338.199049 1011.57532 2.6077 0.00088193 -3.132 -0.0010593 -0.5243 -0.00017732 338.1980644844757 12.719 0.13535 13.362 13.278 13.413 0.64272 5 3 2 0 0 0 0.1555 1 5702 5702 18.146 2.4077 1 551050 + 35164 14731 22395 22464 39472 39472 0.06999234828288081 VHEVGVFIL 9 Unmodified _VHEVGVFIL_ 0 0 0 REV__ZNF280B|p.N318Mfs*5|1|0.08|ENSG00000275004|chr22:22488446-22488446|T/-|frameshift_variant REV__ZNF280B|p.N318Mfs*5|1|0.08|ENSG00000275004|chr22:22488446-22488446|T/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 338.199049 1011.57532 1.9588 0.00066246 -4.3578 -0.0014738 -2.399 -0.00081135 338.197646314234 12.955 0.13061 13.198 13.149 13.279 0.24346 -0.052449 -0.000374 NaN 18.146 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 483750 + 35165 14731 22395 22464 0.06999234828288081 VHEVGVFIL 9 Unmodified _VHEVGVFIL_ 0 0 0 REV__ZNF280B|p.N318Mfs*5|1|0.08|ENSG00000275004|chr22:22488446-22488446|T/-|frameshift_variant REV__ZNF280B|p.N318Mfs*5|1|0.08|ENSG00000275004|chr22:22488446-22488446|T/-|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 338.199049 1011.57532 2.6077 0.00088193 -3.132 -0.0010593 -0.5243 -0.00017732 338.1980644844757 12.719 0.13535 13.362 13.278 13.413 0.64272 0.11144 0.00086966 NaN 18.146 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 551050 + 35166 14731 22395 22464 0.06999234828288081 VHFCALFLM 9 Unmodified _VHFCALFLM_ 0 0 0 REV__ENST00000557665.5_1_14:20801167-20801251:-|nuORF REV__ENST00000557665.5_1_14:20801167-20801251:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.777099609375 2 540.772091 1079.52963 NaN NaN NaN NaN NaN NaN NaN 53.096 1 53.9 53.4 54.4 0.80351 0 0 0 0.89315 1 24201 24201 5.2307 0.47466 1 + 35167 17336 22396 22465 39473 39473 -0.006954499499897793 VHGPDWHL 8 Unmodified _VHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 480.7393798828125 2 480.737951 959.46135 2.9205 0.001404 -0.45561 -0.00021903 2.4649 0.0011849 480.73776821100563 47.668 0.30428 47.668 47.548 47.852 0 37 25 2 0 0 0 0.0093032 2 21853 21805;21853 106.85 93.883 1 4493400 35168 2385 22397 22466 39474;39475 39475 -0.020002352139613322 VHGPDWHL 8 Unmodified _VHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.7391662597656 2 480.737951 959.46135 2.9713 0.0014284 -0.3268 -0.0001571 2.6445 0.0012713 480.7379045795467 46.558 0.32587 47.387 47.259 47.585 0.82915 48 28 2 0 0 0 0.013019 2 21195 21195;21240 93.883 73.012 1 4579900 35169 2385 22397 22466 39476;39477 39476 -0.020002352139613322 VHGPDWHL 8 Unmodified _VHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.7406005859375 2 480.737951 959.46135 3.2677 0.0015709 0.0059898 2.8795E-06 3.2736 0.0015738 480.73801338964773 47.588 0.41615 47.852 47.667 48.083 0.26363 45 28 2 0 0 0 0.025999 1 21730 21730 81.864 62.425 1 3954900 35170 2385 22397 22466 39478 39478 -0.020002352139613322 VHGPDWHL 8 Unmodified _VHGPDWHL_ 0 0 0 ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK ENSG00000124942|ENST00000378024|AHNAK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.73944091796875 2 480.737951 959.46135 3.1103 0.0014952 -0.0093423 -4.4912E-06 3.1009 0.0014907 480.73798785442483 46.939 0.40099 47.591 47.435 47.836 0.65219 42 26 2 0 0 0 0.025999 2 21499 21499;21556 81.864 62.425 1 5048100 35171 2385 22397 22466 39479;39480 39479 -0.020002352139613322 VHIVMRHL 8 Unmodified _VHIVMRHL_ 0 0 0 REV__ENSG00000183735|ENST00000331710|TBK1 REV__ENSG00000183735|ENST00000331710|TBK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.5328674316406 3 335.532256 1003.57494 NaN NaN NaN NaN NaN NaN NaN 12.393 1 13.03 12.53 13.53 0.63746 0 0 0 0.99035 1 5548 5548 4.3292 0 1 + 35172 13943 22398 22467 39481 39481 0.07329536627435118 VHKDSISLF 9 Unmodified _VHKDSISLF_ 0 0 0 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.2891845703125 2 523.287474 1044.5604 3.0844 0.001614 0.38807 0.00020307 3.4725 0.0018171 523.2874852822132 56.291 0.28207 57.069 56.916 57.198 0.77786 35 27 2 0 0 0 0.24524 1 25718 25718 28.487 6.7402 1 1000400 35173 1540 22399 22468 39482 39482 0.03989742960266085 VHKDSISLF 9 Unmodified _VHKDSISLF_ 0 0 0 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 523.287474 1044.5604 3.2913 0.0017223 0.3384 0.00017708 3.6297 0.0018994 523.2874213292095 57.265 0.20454 57.265 57.135 57.339 0 0.041592 0.00021982 NaN 28.487 31 18 2 NaN NaN NaN NaN 0 NaN NaN 0 1436500 35174 1540 22399 22468 0.03989742960266085 VHKDSISLF 9 Unmodified _VHKDSISLF_ 0 0 0 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 523.287474 1044.5604 3.3158 0.0017351 -0.20064 -0.00010499 3.1151 0.0016301 523.2872354980799 57.103 0.2484 57.367 57.272 57.52 0.26444 0.14371 -0.00034433 NaN 28.487 19 15 2 NaN NaN NaN NaN 0 NaN NaN 0 1673500 35175 1540 22399 22468 0.03989742960266085 VHKDSISLF 9 Unmodified _VHKDSISLF_ 0 0 0 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 ENSG00000105877|ENST00000409508|DNAH11 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 523.287474 1044.5604 3.3878 0.0017728 0.060617 3.172E-05 3.4484 0.0018045 523.2876235143603 56.525 0.3448 57.193 57.04 57.385 0.66829 -0.030585 -7.0898E-05 NaN 28.487 34 20 2 NaN NaN NaN NaN 0 NaN NaN 0 1034100 35176 1540 22399 22468 0.03989742960266085 VHKLHPFSI 9 Unmodified _VHKLHPFSI_ 0 0 0 ENST00000477973.3_2_3:72427117-72427282:-|nuORF ENST00000477973.3_2_3:72427117-72427282:-|nuORF ENST00000477973.3_2_3:72427117-72427282:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.3131713867188 2 539.313826 1076.6131 NaN NaN NaN NaN NaN NaN NaN 45.913 1 46.179 45.679 46.679 0.26561 0 0 0 0.66907 1 20992 20992 13.508 1.8676 1 35177 8247 22400 22469 39483 39483 0.0778574581374869 VHLRPQVRRQV 11 Unmodified _VHLRPQVRRQV_ 0 0 0 REV__ENSG00000186732|ENST00000443721|MPPED1 REV__ENSG00000186732|ENST00000443721|MPPED1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.2852783203125 3 463.284621 1386.83203 1.4912 0.00069084 -0.27075 -0.00012543 1.2204 0.0005654 463.28460058698306 105.94 0.11679 105.99 105.93 106.04 0.04837 14 6 3 0 0 0 0.91378 1 57343 57343 0.094841 0 1 1132000 + 35178 14069 22401 22470 39484 39484 0.1540915010509707 VHLRPQVRRQV 11 Unmodified _VHLRPQVRRQV_ 0 0 0 REV__ENSG00000186732|ENST00000443721|MPPED1 REV__ENSG00000186732|ENST00000443721|MPPED1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 463.284621 1386.83203 2.399 0.0011114 -1.076 -0.0004985 1.323 0.00061293 463.28418500340746 105.83 0.12077 105.83 105.76 105.88 0 -0.080081 -0.00026778 NaN 0.094841 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 699280 + 35179 14069 22401 22470 0.1540915010509707 VHLTASLISHL 11 Unmodified _VHLTASLISHL_ 0 0 0 REV__ENSG00000178397|ENST00000313324|FAM220A REV__ENSG00000178397|ENST00000313324|FAM220A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.32421875 2 595.84823 1189.68191 3.4809 0.0020741 -0.35514 -0.00021161 3.1258 0.0018625 595.8480167582101 22.128 0.19786 22.128 22.014 22.212 0 21 14 2 0 0 0 0.13295 1 9902 9902 13.906 4.5229 1 140530 + 35180 13762 22402 22471 39485 39485 0.09465365322807884 VHLTLKSSSYG 11 Unmodified _VHLTLKSSSYG_ 0 0 0 REV__ENSG00000116649|ENST00000376957|SRM REV__ENSG00000116649|ENST00000376957|SRM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.3236694335938 2 596.322045 1190.62954 3.4728 0.0020709 0.86879 0.00051808 4.3416 0.002589 596.3226209231889 22.072 0.23735 22.072 21.922 22.16 0 24 16 2 0 0 0 0.81399 1 9881 9881 11.495 0.67078 1 123630 + 35181 11410 22403 22472 39486 39486 0.04184782189190628 VHLTPGKAI 9 Unmodified _VHLTPGKAI_ 0 0 0 ENST00000370214.8_1_1:94983241-94983295:+|nuORF ENST00000370214.8_1_1:94983241-94983295:+|nuORF ENST00000370214.8_1_1:94983241-94983295:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 312.5282287597656 3 312.527277 934.560001 2.28 0.00071257 0.67476 0.00021088 2.9548 0.00092345 312.5274320479142 13.165 0.23067 13.808 13.699 13.93 0.64272 54 17 4 0 0 0 0.24465 1 5935 5935 14.405 0 1 4694800 35182 7299 22404 22473 39487 39487 0.09010368031078997 VHPKLRKL 8 Unmodified _VHPKLRKL_ 0 0 0 REV__nc|ENSG00000164347|Q969S9-5|GFM2 REV__nc|ENSG00000164347|Q969S9-5|GFM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.8355407714844 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 49.961 1 50.222 49.722 50.722 0.26146 0 0 0 0.99035 1 22833 22833 0.79363 0 1 + 35183 13089 22405 22474 39488 39488 0.15458042430316254 VHPKLRKL 8 Unmodified _VHPKLRKL_ 0 0 0 REV__nc|ENSG00000164347|Q969S9-5|GFM2 REV__nc|ENSG00000164347|Q969S9-5|GFM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.83563232421875 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 60.24 1 60.496 59.996 60.996 0.25578 0 0 0 0.99035 1 27584 27584 0.79363 0 1 + 35184 13089 22405 22474 39489 39489 0.15458042430316254 VHPLAQVR 8 Unmodified _VHPLAQVR_ 0 0 0 REV__ENST00000559160.1_2_15:59280061-59280109:+|nuORF REV__ENST00000559160.1_2_15:59280061-59280109:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 307.18927001953125 3 307.187255 918.539935 NaN NaN NaN NaN NaN NaN NaN 27.696 1 28.482 27.982 28.982 0.78627 0 0 0 0.99035 1 12459 12459 0.40072 0 1 + 35185 17353 22406 22475 39490 39490 0.07740617091133117 VHPPPTTTY 9 Unmodified _VHPPPTTTY_ 0 0 0 nc|ENSG00000124155|Q969N2-3|PIGT;nc|ENSG00000124155|Q969N2-2|PIGT;nc|ENSG00000124155|Q969N2-4|PIGT;nc|ENSG00000124155|Q969N2-6|PIGT;nc|ENSG00000124155|Q969N2-5|PIGT;ENSG00000124155|ENST00000279036|PIGT nc|ENSG00000124155|Q969N2-3|PIGT nc|ENSG00000124155|Q969N2-3|PIGT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.7599792480469 2 506.758549 1011.50255 2.6239 0.0013297 0.15827 8.0203E-05 2.7822 0.0014099 506.75860523948234 22.597 0.083542 23.184 23.154 23.238 0.58739 14 11 2 0 0 0 0.056465 1 10066 10066 44.407 8.3628 1 569490 35186 2341 22407 22476 39491 39491 -0.0027451896517050045 VHPPPTTTY 9 Unmodified _VHPPPTTTY_ 0 0 0 nc|ENSG00000124155|Q969N2-3|PIGT;nc|ENSG00000124155|Q969N2-2|PIGT;nc|ENSG00000124155|Q969N2-4|PIGT;nc|ENSG00000124155|Q969N2-6|PIGT;nc|ENSG00000124155|Q969N2-5|PIGT;ENSG00000124155|ENST00000279036|PIGT nc|ENSG00000124155|Q969N2-3|PIGT nc|ENSG00000124155|Q969N2-3|PIGT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.75970458984375 2 506.758549 1011.50255 NaN NaN NaN NaN NaN NaN NaN 22.791 1 23.379 22.879 23.879 0.58739 0 0 0 0.56337 1 10144 10144 16.942 0 1 35187 2341 22407 22476 39492 39492 -0.0027451896517050045 VHPPPTTTY 9 Unmodified _VHPPPTTTY_ 0 0 0 nc|ENSG00000124155|Q969N2-3|PIGT;nc|ENSG00000124155|Q969N2-2|PIGT;nc|ENSG00000124155|Q969N2-4|PIGT;nc|ENSG00000124155|Q969N2-6|PIGT;nc|ENSG00000124155|Q969N2-5|PIGT;ENSG00000124155|ENST00000279036|PIGT nc|ENSG00000124155|Q969N2-3|PIGT nc|ENSG00000124155|Q969N2-3|PIGT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.7599182128906 2 506.758549 1011.50255 NaN NaN NaN NaN NaN NaN NaN 22.664 1 23.305 22.805 23.805 0.64051 0 0 0 0.021631 1 10324 10324 70.716 34.671 1 35188 2341 22407 22476 39493 39493 -0.0027451896517050045 VHPPPTTTY 9 Unmodified _VHPPPTTTY_ 0 0 0 nc|ENSG00000124155|Q969N2-3|PIGT;nc|ENSG00000124155|Q969N2-2|PIGT;nc|ENSG00000124155|Q969N2-4|PIGT;nc|ENSG00000124155|Q969N2-6|PIGT;nc|ENSG00000124155|Q969N2-5|PIGT;ENSG00000124155|ENST00000279036|PIGT nc|ENSG00000124155|Q969N2-3|PIGT nc|ENSG00000124155|Q969N2-3|PIGT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.7606506347656 2 506.758549 1011.50255 NaN NaN NaN NaN NaN NaN NaN 22.856 1 23.496 22.996 23.996 0.64051 0 0 0 0.82031 1 10416 10416 8.5933 1.304 1 35189 2341 22407 22476 39494 39494 -0.0027451896517050045 VHPRLARR 8 Unmodified _VHPRLARR_ 0 0 0 REV__ENST00000487903.5_1_13:113537159-113537519:+|nuORF REV__ENST00000487903.5_1_13:113537159-113537519:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.81536865234375 2 502.814859 1003.61517 2.6516 0.0013333 -0.92442 -0.00046481 1.7272 0.00086847 502.8142179940185 93.964 0.40002 93.964 93.766 94.166 0 142 53 4 0 0 0 0.7471 1 50247 50247 0.79363 0 1 31138000 + 35190 16774 22408 22477 39495 39495 0.11350219342216405 VHSLRAKDL 9 Unmodified _VHSLRAKDL_ 0 0 0 ENSG00000206432|ENST00000383490|TMEM200C ENSG00000206432|ENST00000383490|TMEM200C ENSG00000206432|ENST00000383490|TMEM200C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 346.8744812011719 3 346.873336 1037.59818 2.6816 0.00093018 -0.42555 -0.00014761 2.2561 0.00078257 346.87322998221157 29.646 0.36669 29.904 29.702 30.068 0.25804 57 27 3 0 0 0 0.94779 1 13544 13544 4.897 0.70751 1 901550 35191 6071 22409 22478 39496 39496 0.08088253945743418 VHTWMVIK 8 Unmodified _VHTWMVIK_ 0 0 0 ENST00000474385.1_1_X:24195956-24197386:+|nuORF ENST00000474385.1_1_X:24195956-24197386:+|nuORF ENST00000474385.1_1_X:24195956-24197386:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.28662109375 2 507.28368 1012.55281 NaN NaN NaN NaN NaN NaN NaN 17.031 1 17.692 17.192 18.192 0.66072 0 0 0 0.99035 1 7680 7680 2.3027 0 1 35192 8209 22410 22479 39497 39497 0.04703312159017514 VHVAPDEVL 9 Unmodified _VHVAPDEVL_ 0 0 0 REV__ENST00000473262.5_1_3:124837626-124909342:-|nuORF REV__ENST00000473262.5_1_3:124837626-124909342:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.7676696777344 2 489.766374 977.518196 3.0235 0.0014808 -0.22362 -0.00010952 2.7999 0.0013713 489.76622258379007 51.767 0.80023 52.429 52.158 52.958 0.66198 120 40 4 0 0 0 0.37584 1 23601 23601 14.582 5.2343 1 9260200 + 35193 16625 22411 22480 39498 39498 0.028537675519032746 VHVGATTT 8 Unmodified _VHVGATTT_ 0 0 0 REV__ENSG00000086570|ENST00000261800|FAT2 REV__ENSG00000086570|ENST00000261800|FAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.2114562988281 2 393.211235 784.407917 2.6529 0.0010431 -1.2414 -0.00048815 1.4115 0.000555 393.2107130450582 75.294 0.3173 75.552 75.365 75.682 0.25739 29 25 2 0 0 0 0.74071 1 34639 34639 2.5775 0 1 654360 + 35194 10656 22412 22481 39499 39499 0.0070896728351499405 VHVGATTT 8 Unmodified _VHVGATTT_ 0 0 0 REV__ENSG00000086570|ENST00000261800|FAT2 REV__ENSG00000086570|ENST00000261800|FAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.2120361328125 2 393.211235 784.407917 2.4124 0.00094858 -1.1012 -0.00043299 1.3112 0.00051559 393.21081283542 74.914 0.25412 75.578 75.467 75.721 0.6644 35 20 2 0 0 0 0.74071 1 34547 34547 2.5775 0 1 570980 + 35195 10656 22412 22481 39500 39500 0.0070896728351499405 VHVGATTT 8 Unmodified _VHVGATTT_ 0 0 0 REV__ENSG00000086570|ENST00000261800|FAT2 REV__ENSG00000086570|ENST00000261800|FAT2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 393.211235 784.407917 2.6529 0.0010431 -1.2414 -0.00048815 1.4115 0.000555 393.2107130450582 75.294 0.3173 75.552 75.365 75.682 0.25739 -0.013158 -6.5309E-05 NaN 2.5775 29 25 2 NaN NaN NaN NaN 0 NaN NaN 0 654360 + 35196 10656 22412 22481 0.0070896728351499405 VHVVVLLLQL 10 Unmodified _VHVVVLLLQL_ 0 0 0 REV__nc|ENSG00000145107|Q96DZ7-2|TM4SF19 REV__nc|ENSG00000145107|Q96DZ7-2|TM4SF19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.8756103515625 2 566.876259 1131.73797 NaN NaN NaN NaN NaN NaN NaN 56.599 1 56.599 56.099 57.099 0 0 0 0 0.99983 1 26051 26051 1.8442 0.36234 1 + 35197 12427 22413 22482 39501 39501 0.17736618230287604 VHWIKKTMKR 10 Unmodified _VHWIKKTMKR_ 0 0 0 ENSG00000100453|ENST00000216341|GZMB ENSG00000100453|ENST00000216341|GZMB ENSG00000100453|ENST00000216341|GZMB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.8980102539062 2 663.894992 1325.77543 4.1369 0.0027464 -0.052097 -3.4587E-05 4.0848 0.0027119 663.8950744037554 92.938 0.46426 93.585 93.345 93.809 0.64714 59 24 3 0 0 0 0.94134 1 42811 42811 1.4819 1.0812 1 1705000 35198 1221 22414 22483 39502 39502 0.12557386224216316 VIAILLFKRKR 11 Unmodified _VIAILLFKRKR_ 0 0 0 nc|ENSG00000142949|P10586-2|PTPRF;ENSG00000142949|ENST00000359947|PTPRF nc|ENSG00000142949|P10586-2|PTPRF nc|ENSG00000142949|P10586-2|PTPRF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 678.9309692382812 2 678.963732 1355.91291 NaN NaN NaN NaN NaN NaN NaN 79.216 1 79.68 79.18 80.18 0.4642 0 0 0 1.008 1 38677 38677 0.35063 0 1 35199 3336 22415 22484 39503 39503 0.24919038095276846 VIALVPRRK 9 Unmodified _VIALVPRRK_ 0 0 0 REV__ENST00000367112.1_2_6:158500311-158517393:+|nuORF REV__ENST00000367112.1_2_6:158500311-158517393:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.2437438964844 3 351.241471 1050.70258 NaN NaN NaN NaN NaN NaN NaN 29.649 1 30.438 29.938 30.938 0.78921 0 0 0 0.91206 1 13371 13371 0.26902 0 1 + 35200 15649 22416 22485 39504 39504 0.1792600049311659 VIAPVEFA 8 Unmodified _VIAPVEFA_ 0 0 0 REV__ENSG00000250510|ENST00000311268|GPR162 REV__ENSG00000250510|ENST00000311268|GPR162 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 423.24200439453125 2 423.242004 844.469455 NaN NaN NaN NaN NaN NaN NaN 38.021 1 38.021 37.521 38.521 0 0 0 0 0.99035 1 17254 17254 6.3541 0 1 + 35201 14654 22417 22486 39505 39505 0.04099898982804007 VICKKGKL 8 Unmodified _VICKKGKL_ 0 0 0 REV__WNK3|p.F405Lfs*7|1|0.09|ENSG00000196632|chrX:54298358-54298358|A/-|frameshift_variant REV__WNK3|p.F405Lfs*7|1|0.09|ENSG00000196632|chrX:54298358-54298358|A/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 445.12017822265625 2 444.788598 887.562644 3.0616 0.0013618 -1.6566 -0.00073685 1.4049 0.00062491 444.7878301305013 46.861 0.59807 47.126 46.923 47.521 0.26455 34 21 2 0 0 0 0.14146 1 21362 21362 5.2307 4.437 1 737290 + 35202 14236 22418 22487 39506 39506 0.11436500164393237 VICKKGKL 8 Unmodified _VICKKGKL_ 0 0 0 REV__WNK3|p.F405Lfs*7|1|0.09|ENSG00000196632|chrX:54298358-54298358|A/-|frameshift_variant REV__WNK3|p.F405Lfs*7|1|0.09|ENSG00000196632|chrX:54298358-54298358|A/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 444.788598 887.562644 3.2615 0.0014507 -2.0116 -0.00089476 1.2498 0.00055591 444.7876977308334 46.47 0.49612 47.122 46.939 47.435 0.65219 -0.0017558 -0.00017533 NaN 5.2307 28 18 2 NaN NaN NaN NaN 0 NaN NaN 0 555850 + 35203 14236 22418 22487 0.11436500164393237 VICSDCYD 8 Unmodified _VICSDCYD_ 0 0 0 ENSG00000198799|ENST00000361127|LRIG2 ENSG00000198799|ENST00000361127|LRIG2 ENSG00000198799|ENST00000361127|LRIG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 459.173828125 2 459.172604 916.330655 NaN NaN NaN NaN NaN NaN NaN 47.234 1 47.234 46.734 47.734 0 0 0 0 0.99035 1 21622 21622 0.79363 0 1 35204 5937 22419 22488 39507 39507 -0.1308575503934435 VIEALQAP 8 Unmodified _VIEALQAP_ 0 0 0 nc|ENSG00000157873|Q92956-2|TNFRSF14;ENST00000463835.5_1_1:2492021-2494709:+|nuORF;ENST00000475523.5_1_1:2490981-2494709:+|nuORF;ENSG00000157873|ENST00000355716|TNFRSF14;ENST00000463471.6_1_1:2494574-2494709:+|nuORF;ENST00000480305.1_1_1:2493254-2494709:+|nuORF nc|ENSG00000157873|Q92956-2|TNFRSF14 nc|ENSG00000157873|Q92956-2|TNFRSF14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 420.74761962890625 2 420.744911 839.475269 NaN NaN NaN NaN NaN NaN NaN 64.081 1 64.329 63.829 64.829 0.24803 0 0 0 0.99035 1 29349 29349 2.3027 0 1 35205 3965 22420 22489 39508 39508 0.04910997494482672 VIFKKKKKKKK 11 Unmodified _VIFKKKKKKKK_ 0 0 0 Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|33|3|sense Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|33|3|sense Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|33|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 702.0040893554688 2 702.002857 1401.99116 NaN NaN NaN NaN NaN NaN NaN 54.498 1 55.293 54.793 55.793 0.79552 0 0 0 1.0082 1 24865 24865 0 0 1 35206 9369 22421 22490 39509 39509 0.3062447068052734 VIFYIASWM 9 Unmodified _VIFYIASWM_ 0 0 0 REV__nc|ENSG00000198216|Q15878-2|CACNA1E REV__nc|ENSG00000198216|Q15878-2|CACNA1E MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 565.2904663085938 2 565.291171 1128.56779 NaN NaN NaN NaN NaN NaN NaN 93.39 1 93.476 92.976 93.976 0.086212 0 0 0 0.89315 1 48911 48911 5.2307 0 1 + 35207 14328 22422 22491 39510 39510 0.008647592363331569 VIHLLALW 8 Unmodified _VIHLLALW_ 0 0 0 ENST00000495070.2_1_1:155955164-155959287:-|nuORF ENST00000495070.2_1_1:155955164-155959287:-|nuORF ENST00000495070.2_1_1:155955164-155959287:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 322.2127685546875 3 322.204134 963.590573 NaN NaN NaN NaN NaN NaN NaN 37.368 1 37.368 36.868 37.868 0 0 0 0 0.99035 1 16957 16957 0.45834 0 1 35208 8428 22423 22492 39511 39511 0.10732146416114574 VIHLLCKLRPR 11 Unmodified _VIHLLCKLRPR_ 0 0 0 REV__ENST00000479481.5_1_10:99116853-99131081:-|nuORF REV__ENST00000479481.5_1_10:99116853-99131081:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 674.4265747070312 2 674.423916 1346.83328 NaN NaN NaN NaN NaN NaN NaN 86.12 1 86.12 85.62 86.62 0 0 0 0 1.0057 1 44059 44059 3.2813 1.9518 1 + 35209 10356 22424 22493 39512 39512 0.17373648149646215 VIHPLGLR 8 Unmodified _VIHPLGLR_ 0 0 0 nc|ENSG00000004939|P02730-2|SLC4A1;ENSG00000004939|ENST00000262418|SLC4A1 nc|ENSG00000004939|P02730-2|SLC4A1 nc|ENSG00000004939|P02730-2|SLC4A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 302.19696044921875 3 302.19575 903.565421 NaN NaN NaN NaN NaN NaN NaN 18.979 1 18.979 18.479 19.479 0 0 0 0 0.99035 1 8432 8432 0.40072 0 1 35210 319 22425 22494 39513 39513 0.10978091613571905 VIHRLLLIW 9 Unmodified _VIHRLLLIW_ 0 0 0 ENST00000380588.4_1_21:41163939-41173276:+|nuORF ENST00000380588.4_1_21:41163939-41173276:+|nuORF ENST00000380588.4_1_21:41163939-41173276:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 388.2424621582031 3 388.253488 1161.73863 NaN NaN NaN NaN NaN NaN NaN 54.189 1 54.189 53.689 54.689 0 0 0 0 0.91356 1 24853 24853 0.23584 0 1 35211 7468 22426 22495 39514 39514 0.16423457669998243 VIHVFRRRV 9 Unmodified _VIHVFRRRV_ 0 0 0 nc|ENSG00000164823|Q9Y236|OSGIN2;ENSG00000164823|ENST00000451899|OSGIN2 nc|ENSG00000164823|Q9Y236|OSGIN2 nc|ENSG00000164823|Q9Y236|OSGIN2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.2335205078125 3 394.58412 1180.73053 3.1577 0.001246 2.0849 0.00082267 5.2426 0.0020686 394.58480844754257 46.87 0.1483 47.133 47.066 47.214 0.26389 11 4 3 0 0 0 0.11383 1 21406 21406 1.1933 0.12188 1 552030 35212 4347 22427 22496 39515 39515 0.14739323473213517 VIHVFRRRV 9 Unmodified _VIHVFRRRV_ 0 0 0 nc|ENSG00000164823|Q9Y236|OSGIN2;ENSG00000164823|ENST00000451899|OSGIN2 nc|ENSG00000164823|Q9Y236|OSGIN2 nc|ENSG00000164823|Q9Y236|OSGIN2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 394.58412 1180.73053 2.543 0.0010034 2.998 0.0011829 5.5409 0.0021864 394.5852940650197 46.066 0.26195 46.892 46.725 46.987 0.82621 -0.12436 1.133E-05 NaN 1.1933 15 11 2 NaN NaN NaN NaN 0 NaN NaN 0 665670 35213 4347 22427 22496 0.14739323473213517 VIIDSGRPINR 11 Unmodified _VIIDSGRPINR_ 0 0 0 REV__ENST00000464877.1_1_3:186289902-186295640:+|nuORF REV__ENST00000464877.1_1_3:186289902-186295640:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 620.36962890625 2 620.362036 1238.70952 NaN NaN NaN NaN NaN NaN NaN 103.84 1 104.44 103.94 104.94 0.59821 0 0 0 1.0059 1 48029 48029 2.9952 0 1 + 35214 10711 22428 22497 39516 39516 0.09971268583035453 VIIIGICILLF 11 Unmodified _VIIIGICILLF_ 0 0 0 REV__nc|ENSG00000165102|Q68CP4|HGSNAT REV__nc|ENSG00000165102|Q68CP4|HGSNAT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 608.892822265625 2 608.890521 1215.76649 NaN NaN NaN NaN NaN NaN NaN 91.251 1 91.913 91.413 92.413 0.66198 0 0 0 1.0071 1 41993 41993 1.4819 0.28856 1 + 35215 13135 22429 22498 39517 39517 0.167235998151682 VIIPLLRLRR 10 Unmodified _VIIPLLRLRR_ 0 0 0 OR5H1|p.N286Rfs*16|1|0.04|ENSG00000231192|chr3:98133553-98133554|-/GATTGCGAAGAGAACAAATGTATAAG|frameshift_variant OR5H1|p.N286Rfs*16|1|0.04|ENSG00000231192|chr3:98133553-98133554|-/GATTGCGAAGAGAACAAATGTATAAG|frameshift_variant OR5H1|p.N286Rfs*16|1|0.04|ENSG00000231192|chr3:98133553-98133554|-/GATTGCGAAGAGAACAAATGTATAAG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 624.9337768554688 2 624.934974 1247.8554 NaN NaN NaN NaN NaN NaN NaN 90.844 1 91.096 90.596 91.596 0.25163 0 0 0 1.002 1 41771 41771 0 0 1 35216 9901 22430 22499 39518 39518 0.24138195889713643 VIIRRLRKRVR 11 Unmodified _VIIRRLRKRVR_ 0 0 0 ENST00000564682.5_1_16:28565295-28592384:+|nuORF ENST00000564682.5_1_16:28565295-28592384:+|nuORF ENST00000564682.5_1_16:28565295-28592384:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 488.9737243652344 3 489.007311 1464.0001 NaN NaN NaN NaN NaN NaN NaN 62.225 1 62.956 62.456 63.456 0.73077 0 0 0 1.0082 1 28979 28979 0 0 1 35217 9035 22431 22500 39519 39519 0.2866625708954871 VIIRRLRKRVR 11 Unmodified _VIIRRLRKRVR_ 0 0 0 ENST00000564682.5_1_16:28565295-28592384:+|nuORF ENST00000564682.5_1_16:28565295-28592384:+|nuORF ENST00000564682.5_1_16:28565295-28592384:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 733.00537109375 2 733.007328 1464.0001 NaN NaN NaN NaN NaN NaN NaN 65.531 1 66.188 65.688 66.688 0.65672 0 0 0 1.0082 1 30043 30043 0 0 1 35218 9035 22431 22500 39520 39520 0.2866625708954871 VIITILNQ 8 Unmodified _VIITILNQ_ 0 0 0 ENST00000289371.10_1_2:100016435-100016543:+|nuORF ENST00000289371.10_1_2:100016435-100016543:+|nuORF ENST00000289371.10_1_2:100016435-100016543:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.1956481933594 3 305.195416 912.564418 NaN NaN NaN NaN NaN NaN NaN 77.245 1 77.501 77.001 78.001 0.25533 0 0 0 0.99035 1 35574 35574 0.45834 0 1 35219 6730 22432 22501 39521 39521 0.10463832453990562 VIITILNQ 8 Unmodified _VIITILNQ_ 0 0 0 ENST00000289371.10_1_2:100016435-100016543:+|nuORF ENST00000289371.10_1_2:100016435-100016543:+|nuORF ENST00000289371.10_1_2:100016435-100016543:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.1952819824219 3 305.195416 912.564418 NaN NaN NaN NaN NaN NaN NaN 77.38 1 77.635 77.135 78.135 0.25533 0 0 0 0.99035 1 35636 35636 0.45834 0 1 35220 6730 22432 22501 39522 39522 0.10463832453990562 VIITYLVSI 9 Unmodified _VIITYLVSI_ 0 0 0 REV__ENSG00000186440|ENST00000641540|OR6P1 REV__ENSG00000186440|ENST00000641540|OR6P1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 340.8824768066406 3 340.882838 1019.62668 NaN NaN NaN NaN NaN NaN NaN 13.13 1 13.438 12.938 13.938 0.30727 0 0 0 0.83378 1 5922 5922 8.1555 0 1 + 35221 14055 22433 22502 39523 39523 0.11765558802323994 VIKEKALTL 9 Unmodified _VIKEKALTL_ 0 0 0 ENSG00000124486|ENST00000378308|USP9X;ENSG00000114374|ENST00000338981|USP9Y;nc|ENSG00000124486|Q93008-3|USP9X;nc|ENSG00000114374|O00507-2|USP9Y;ENST00000426564.6_1_Y:14821380-14953057:+|nuORF ENSG00000124486|ENST00000378308|USP9X ENSG00000124486|ENST00000378308|USP9X MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.7328186035156 2 507.831517 1013.64848 3.4564 0.0017553 -0.37233 -0.00018908 3.0841 0.0015662 507.8313067815289 32.864 0.22993 33.117 32.974 33.204 0.25389 23 9 3 0 0 0 0.0046306 1 14966 14966 57.722 9.9733 1 552460 35222 1901 22434 22503 39524 39524 0.1422036355088494 VIKEKALTL 9 Unmodified _VIKEKALTL_ 0 0 0 ENSG00000124486|ENST00000378308|USP9X;ENSG00000114374|ENST00000338981|USP9Y;nc|ENSG00000124486|Q93008-3|USP9X;nc|ENSG00000114374|O00507-2|USP9Y;ENST00000426564.6_1_Y:14821380-14953057:+|nuORF ENSG00000124486|ENST00000378308|USP9X ENSG00000124486|ENST00000378308|USP9X MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.7334289550781 2 507.831517 1013.64848 3.2404 0.0016456 0.14382 7.3037E-05 3.3842 0.0017186 507.8314692537742 32.299 0.36617 32.917 32.731 33.097 0.61831 46 20 3 0 0 0 0.022573 1 14842 14842 45.7 9.5726 1 456430 35223 1901 22434 22503 39525 39525 0.1422036355088494 VIKFPINKIDK 11 Unmodified _VIKFPINKIDK_ 0 0 0 REV__ENST00000432228.1_1_2:222826463-222827672:+|nuORF REV__ENST00000432228.1_1_2:222826463-222827672:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 438.6403503417969 3 438.942979 1313.80711 NaN NaN NaN NaN NaN NaN NaN 75.222 1 75.886 75.386 76.386 0.6644 0 0 0 1.0072 1 34648 34648 1.3296 0.11481 1 + 35224 16271 22435 22504 39526 39526 0.16275657459163995 VIKRKNIGL 9 Unmodified _VIKRKNIGL_ 0 0 0 nc|ENSG00000144036|Q9Y2D4-2|EXOC6B;ENSG00000144036|ENST00000272427|EXOC6B nc|ENSG00000144036|Q9Y2D4-2|EXOC6B nc|ENSG00000144036|Q9Y2D4-2|EXOC6B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.570556640625 3 347.569476 1039.6866 2.6244 0.00091215 -0.24507 -8.518E-05 2.3793 0.00082697 347.5695646192596 12.986 0.18528 13.629 13.514 13.699 0.64272 12 5 3 0 0 0 0.29523 1 5847 5847 17.113 0 1 355770 35225 3408 22436 22505 39527 39527 0.16834294256204885 VIKTPVVK 8 Unmodified _VIKTPVVK_ 0 0 0 nc|ENSG00000133422|Q9Y6X9-2|MORC2;ENSG00000133422|ENST00000397641|MORC2 nc|ENSG00000133422|Q9Y6X9-2|MORC2 nc|ENSG00000133422|Q9Y6X9-2|MORC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.3023681640625 2 442.302396 882.590239 NaN NaN NaN NaN NaN NaN NaN 101.65 1 102.25 101.75 102.75 0.59717 0 0 0 0.99035 1 47065 47065 0.52476 0 1 35226 2762 22437 22506 39528 39528 0.14424726696267953 VIKTVPQL 8 Unmodified _VIKTVPQL_ 0 0 0 nc|ENSG00000135541|Q8N157-3|AHI1;nc|ENSG00000135541|Q8N157-2|AHI1;ENSG00000135541|ENST00000265602|AHI1 nc|ENSG00000135541|Q8N157-3|AHI1 nc|ENSG00000135541|Q8N157-3|AHI1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 449.29241943359375 2 449.292028 896.569503 2.7252 0.0012244 1.1219 0.00050405 3.8471 0.0017285 449.29255125346515 54.079 0.21048 54.343 54.27 54.48 0.26462 18 9 3 0 0 0 0.45971 1 24733 24733 24.021 3.5669 1 504430 35227 2880 22438 22507 39529 39529 0.11708136316599393 VILELQPA 8 Unmodified _VILELQPA_ 0 0 0 ENST00000482005.5_1_17:61936677-61937556:+|nuORF ENST00000482005.5_1_17:61936677-61937556:+|nuORF ENST00000482005.5_1_17:61936677-61937556:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.7713317871094 2 441.768386 881.522219 NaN NaN NaN NaN NaN NaN NaN 79.123 1 79.784 79.284 80.284 0.66082 0 0 0 0.99035 1 36459 36459 2.3027 0 1 35228 8299 22439 22508 39530 39530 0.07671857045613706 VILFKPMV 8 Unmodified _VILFKPMV_ 0 0 0 ENSG00000145725|ENST00000358359|PPIP5K2;nc|ENSG00000145725|O43314-2|PPIP5K2;ENST00000511724.1_1_5:102509577-102524329:+|nuORF ENSG00000145725|ENST00000358359|PPIP5K2 ENSG00000145725|ENST00000358359|PPIP5K2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.7939453125 2 473.793349 945.572146 2.8802 0.0013646 0.7267 0.0003443 3.6069 0.0017089 473.79358483620496 82.737 0.48438 82.985 82.734 83.218 0.24722 37 23 2 0 0 0 0.7471 2 38039 38039;38095 0.79363 0.79363 1 649760 35229 3483 22440 22509 39531;39532 39531 0.09718268449921652 VILFKPMV 8 Unmodified _VILFKPMV_ 0 0 0 ENSG00000145725|ENST00000358359|PPIP5K2;nc|ENSG00000145725|O43314-2|PPIP5K2;ENST00000511724.1_1_5:102509577-102524329:+|nuORF ENSG00000145725|ENST00000358359|PPIP5K2 ENSG00000145725|ENST00000358359|PPIP5K2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.794921875 2 473.793349 945.572146 3.1453 0.0014902 -0.24201 -0.00011466 2.9033 0.0013756 473.79328233936013 82.277 0.51887 82.937 82.707 83.226 0.66019 55 30 2 0 0 0 0.7471 2 37868 37868;37874 0.79363 0.79363 1 845930 35230 3483 22440 22509 39533;39534 39533 0.09718268449921652 VILKKKKKLLL 11 Unmodified _VILKKKKKLLL_ 0 0 0 NOS1AP|p.R207Gfs*32|1|0.46|ENSG00000198929|chr1:162355208-162355209|-/GG|frameshift_variant;ENSG00000198929|ENST00000361897|NOS1AP NOS1AP|p.R207Gfs*32|1|0.46|ENSG00000198929|chr1:162355208-162355209|-/GG|frameshift_variant NOS1AP|p.R207Gfs*32|1|0.46|ENSG00000198929|chr1:162355208-162355209|-/GG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 662.322021484375 2 662.494333 1322.97411 NaN NaN NaN NaN NaN NaN NaN 88.414 1 88.466 87.966 88.966 0.052155 0 0 0 1.0082 1 45026 45026 0 0 1 35231 5965 22441 22510 39535 39535 0.3255455007474666 VILKPQVF 8 Unmodified _VILKPQVF_ 0 0 0 ENST00000357430.7_1_2:223806358-223806715:+|nuORF ENST00000357430.7_1_2:223806358-223806715:+|nuORF ENST00000357430.7_1_2:223806358-223806715:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 315.2046203613281 3 315.204023 942.590239 NaN NaN NaN NaN NaN NaN NaN 20.727 1 21.014 20.514 21.514 0.28662 0 0 0 0.99035 1 9406 9406 0.45834 0 1 35232 7177 22442 22511 39536 39536 0.11664726696278649 VILKVPILLQL 11 Unmodified _VILKVPILLQL_ 0 0 0 REV__nc|ENSG00000006712|Q8N7H5-3|PAF1 REV__nc|ENSG00000006712|Q8N7H5-3|PAF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 624.9384155273438 2 624.936317 1247.85808 NaN NaN NaN NaN NaN NaN NaN 71.248 1 71.506 71.006 72.006 0.25786 0 0 0 1.0082 1 32636 32636 0 0 1 + 35233 17853 22443 22512 39537 39537 0.24406606504044248 VILLLALRLRR 11 Unmodified _VILLLALRLRR_ 0 0 0 nc|ENSG00000253159|O60330-2|PCDHGA12;ENSG00000253159|ENST00000252085|PCDHGA12 nc|ENSG00000253159|O60330-2|PCDHGA12 nc|ENSG00000253159|O60330-2|PCDHGA12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.4686279296875 2 668.469181 1334.92381 NaN NaN NaN NaN NaN NaN NaN 99.314 1 99.376 98.876 99.876 0.062241 0 0 0 1.0082 1 53656 53656 0 0 1 35234 6270 22444 22513 39538 39538 0.26974440469552974 VILLLIVHL 9 Unmodified _VILLLIVHL_ 0 0 0 REV__ENST00000540271.1_1_12:10467413-10467494:+|nuORF REV__ENST00000540271.1_1_12:10467413-10467494:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.1473999023438 2 516.862621 1031.71069 NaN NaN NaN NaN NaN NaN NaN 67.227 1 67.227 66.727 67.727 0 0 0 0 0.91206 1 32196 32196 0.6015 0.6015 1 + 35235 17210 22445 22514 39539 39539 0.19610134689878578 VILLTLFLHRR 11 Unmodified _VILLTLFLHRR_ 0 0 0 REV__ENST00000372059.6_1_X:109459854-109561030:-|nuORF REV__ENST00000372059.6_1_X:109459854-109561030:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.7261657714844 4 345.976408 1379.87652 2.3318 0.00080676 -1.3322 -0.00046093 0.9996 0.00034584 345.9759782646838 44.837 0.47523 45.105 44.73 45.205 0.26768 41 23 2 0 0 0 0.13295 1 20497 20497 1.3296 0.87513 1 2783700 + 35236 15746 22446 22515 39540 39540 0.20178161198555244 VILSARLLPRS 11 Unmodified _VILSARLLPRS_ 0 0 0 ENST00000573685.5_1_16:68573279-68591907:+|nuORF ENST00000573685.5_1_16:68573279-68591907:+|nuORF ENST00000573685.5_1_16:68573279-68591907:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 408.6826477050781 3 408.931073 1223.77139 NaN NaN NaN NaN NaN NaN NaN 67.677 1 67.929 67.429 68.429 0.25227 0 0 0 1.0073 1 31001 31001 1.2148 0 1 35237 9109 22447 22516 39541 39541 0.16845620002163741 VILSLDFILFC 11 Unmodified _VILSLDFILFC_ 0 0 0 ENSG00000142185|ENST00000397928|TRPM2;nc|ENSG00000142185|O94759-2|TRPM2 ENSG00000142185|ENST00000397928|TRPM2 ENSG00000142185|ENST00000397928|TRPM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.8247680664062 2 641.859418 1281.70428 NaN NaN NaN NaN NaN NaN NaN 84.045 1 84.074 83.574 84.574 0.028603 0 0 0 1.0034 1 41838 41838 6.2058 0.47393 1 35238 3298 22448 22517 39542 39542 0.07469828676198631 VILTHGGL 8 Unmodified _VILTHGGL_ 0 0 0 REV__ENSG00000233701|ENST00000413199|PRR23C REV__ENSG00000233701|ENST00000413199|PRR23C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.2496643066406 2 405.247621 808.480688 NaN NaN NaN NaN NaN NaN NaN 12.244 1 12.551 12.051 13.051 0.30727 0 0 0 0.99035 1 5495 5495 0.79363 0 1 + 35239 14584 22449 22518 39543 39543 0.06878721076964212 VIMKNSQIFK 10 Unmodified _VIMKNSQIFK_ 0 0 0 REV__ENST00000493134.1_1_3:44840780-44854740:+|nuORF REV__ENST00000493134.1_1_3:44840780-44854740:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 403.2211608886719 3 403.233765 1206.67946 NaN NaN NaN NaN NaN NaN NaN 28.648 1 29.437 28.937 29.937 0.78921 0 0 0 0.99774 1 12906 12906 3.5871 0.26742 1 + 35240 13029 22450 22519 39544 39544 0.08439193593471828 VINGKRHAL 9 Unmodified _VINGKRHAL_ 0 0 0 ENST00000425075.6_1_5:137289987-137295325:-|nuORF ENST00000425075.6_1_5:137289987-137295325:-|nuORF ENST00000425075.6_1_5:137289987-137295325:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 336.53460693359375 3 336.541809 1006.6036 NaN NaN NaN NaN NaN NaN NaN 12.797 1 13.059 12.559 13.559 0.26154 0 0 0 0.70806 1 5568 5568 12.241 1.4167 1 35241 7791 22451 22520 39545 39545 0.10055977528224957 VINKHRLRRH 10 Unmodified _VINKHRLRRH_ 0 0 0 REV__nc|ENSG00000142733|O95382-2|MAP3K6 REV__nc|ENSG00000142733|O95382-2|MAP3K6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 664.9096069335938 2 664.910353 1327.80615 NaN NaN NaN NaN NaN NaN NaN 92.765 1 93.018 92.518 93.518 0.25253 0 0 0 1.0015 1 42640 42640 0.45834 0 1 + 35242 12346 22452 22521 39546 39546 0.15536300653479884 VINQLRNRR 9 Unmodified _VINQLRNRR_ 0 0 0 ENSG00000183476|ENST00000328828|SH2D7 ENSG00000183476|ENST00000328828|SH2D7 ENSG00000183476|ENST00000328828|SH2D7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.6902465820312 2 584.854712 1167.69487 NaN NaN NaN NaN NaN NaN NaN 11.905 1 12.166 11.666 12.666 0.26154 0 0 0 0.91238 1 5134 5134 0.52476 0 1 35243 5383 22453 22522 39547 39547 0.11773241225546371 VINRFTRR 8 Unmodified _VINRFTRR_ 0 0 0 ENSG00000005249|ENST00000265717|PRKAR2B ENSG00000005249|ENST00000265717|PRKAR2B ENSG00000005249|ENST00000265717|PRKAR2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.3213500976562 2 531.319974 1060.6254 3.5016 0.0018605 -0.93177 -0.00049507 2.5699 0.0013654 531.3194126780111 89.787 0.63899 90.039 89.799 90.438 0.25137 71 28 4 0 0 0 0.7471 1 41361 41361 0.69038 0.088878 1 2543800 35244 326 22454 22523 39548 39548 0.09750782276796599 VIPKFISLL 9 Unmodified _VIPKFISLL_ 0 0 0 ENSG00000088451|ENST00000261296|TGDS ENSG00000088451|ENST00000261296|TGDS ENSG00000088451|ENST00000261296|TGDS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.2921142578125 2 515.338978 1028.6634 NaN NaN NaN NaN NaN NaN NaN 55.785 1 56.051 55.551 56.551 0.26543 0 0 0 0.89509 1 25514 25514 4.756 0 1 35245 1014 22455 22524 39549 39549 0.15021855418899577 VIPPLLFL 8 Unmodified _VIPPLLFL_ 0 0 0 REV__ENSG00000135740|ENST00000299798|SLC9A5 REV__ENSG00000135740|ENST00000299798|SLC9A5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 304.5372009277344 3 304.537002 910.589176 2.0249 0.00061664 -0.66254 -0.00020177 1.3623 0.00041487 304.53670994315814 26.643 0.49245 27.265 26.976 27.468 0.62179 85 32 3 0 0 0 0.7471 1 12259 12259 0.45834 0 1 997120 + 35246 12034 22456 22525 39550 39550 0.1303051232736152 VIPSAAAPRVP 11 Unmodified _VIPSAAAPRVP_ 0 0 0 REV__nc|ENSG00000173120|Q9Y2K7-5|KDM2A REV__nc|ENSG00000173120|Q9Y2K7-5|KDM2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.36181640625 2 539.324391 1076.63423 NaN NaN NaN NaN NaN NaN NaN 89.288 1 89.352 88.852 89.852 0.064346 0 0 0 0.98464 1 45723 45723 8.1555 1.0538 1 + 35247 13583 22457 22526 39551 39551 0.09897711122584951 VIPYIWHI 8 Unmodified _VIPYIWHI_ 0 0 0 REV__ENSG00000165164|ENST00000378653|CFAP47 REV__ENSG00000165164|ENST00000378653|CFAP47 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.8004760742188 2 520.80002 1039.58549 NaN NaN NaN NaN NaN NaN NaN 46.923 1 47.575 47.075 48.075 0.65219 0 0 0 0.99035 1 21489 21489 2.8892 0.58649 1 + 35248 13143 22458 22527 39552 39552 0.0672784255350507 VIQRAYRR 8 Unmodified _VIQRAYRR_ 0 0 0 nc|ENSG00000169432|Q15858-4|SCN9A;nc|ENSG00000169432|Q15858-3|SCN9A;nc|ENSG00000169432|Q15858-2|SCN9A;ENSG00000169432|ENST00000642356|SCN9A nc|ENSG00000169432|Q15858-4|SCN9A nc|ENSG00000169432|Q15858-4|SCN9A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.3214721679688 2 531.319974 1060.6254 3.5016 0.0018605 -0.93177 -0.00049507 2.5699 0.0013654 531.3194126780111 89.787 0.63899 90.039 89.799 90.438 0.25137 71 28 4 0 0 0 0.7471 1 41417 41417 0.69038 0 1 2543800 35249 4691 22459 22528 39553 39553 0.09750782276796599 VIRIRIKIRKL 11 Unmodified _VIRIRIKIRKL_ 0 0 0 ENST00000377705.5_1_1:6585202-6585712:-|nuORF ENST00000377705.5_1_1:6585202-6585712:-|nuORF ENST00000377705.5_1_1:6585202-6585712:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 704.5008544921875 2 704.503555 1406.99256 NaN NaN NaN NaN NaN NaN NaN 32.635 1 32.89 32.39 33.39 0.25452 0 0 0 1.0082 1 14863 14863 0 0 1 35250 7419 22460 22529 39554 39554 0.3053410476927638 VIRIRVIKRII 11 Unmodified _VIRIRVIKRII_ 0 0 0 REV__LTR13A_dup7|chr1:43138776-43139741:+|1.031771637262758|0.2457820778445239|2.07|491.0|1|1|sense REV__LTR13A_dup7|chr1:43138776-43139741:+|1.031771637262758|0.2457820778445239|2.07|491.0|1|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 689.9912719726562 2 689.990281 1377.96601 NaN NaN NaN NaN NaN NaN NaN 13.432 1 13.739 13.239 14.239 0.30727 0 0 0 1.0082 1 6059 6059 0 0 1 + 35251 17821 22461 22530 39555 39555 0.29214415877959254 VIRSKKKRRHP 11 Unmodified _VIRSKKKRRHP_ 0 0 0 ENST00000490671.1_1_15:99788499-99789692:-|nuORF ENST00000490671.1_1_15:99788499-99789692:-|nuORF ENST00000490671.1_1_15:99788499-99789692:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 703.458251953125 2 702.954761 1403.89497 3.5173 0.0024725 -1.6006 -0.0011251 1.9167 0.0013474 703.4550136346334 46.799 0.30575 46.799 46.603 46.909 0 16 10 2 0 0 0 0.91359 1 21384 21384 1.1933 1.1933 1 490530 35252 8388 22462 22531 39556 39556 0.20917715893165223 VIRSKKKRRHP 11 Unmodified _VIRSKKKRRHP_ 0 0 0 ENST00000490671.1_1_15:99788499-99789692:-|nuORF ENST00000490671.1_1_15:99788499-99789692:-|nuORF ENST00000490671.1_1_15:99788499-99789692:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 468.9725036621094 3 468.972266 1403.89497 2.7663 0.0012973 -1.3853 -0.00064966 1.381 0.00064765 468.971342675918 45.977 0.1002 46.804 46.712 46.812 0.82621 10 4 3 0 0 0 0.91359 1 20932 20932 0.40827 0.24894 1 907360 35253 8388 22462 22531 39557 39557 0.20917715893165223 VIRSKKKRRHP 11 Unmodified _VIRSKKKRRHP_ 0 0 0 ENST00000490671.1_1_15:99788499-99789692:-|nuORF ENST00000490671.1_1_15:99788499-99789692:-|nuORF ENST00000490671.1_1_15:99788499-99789692:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 468.9723205566406 3 468.972266 1403.89497 NaN NaN NaN NaN NaN NaN NaN 45.669 1 46.495 45.995 46.995 0.82621 0 0 0 1.0074 1 20795 20795 1.1098 0.65524 1 35254 8388 22462 22531 39558 39558 0.20917715893165223 VISAVTYII 9 Unmodified _VISAVTYII_ 0 0 0 ENSG00000138792|ENST00000265162|ENPEP ENSG00000138792|ENST00000265162|ENPEP ENSG00000138792|ENST00000265162|ENPEP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.3155517578125 2 489.797143 977.579734 3.5919 0.0017593 -0.29126 -0.00014266 3.3006 0.0016166 489.7969599405116 90.992 0.26759 91.243 91.134 91.402 0.25163 23 14 2 0 0 0 0.10586 1 41849 41849 7.9102 0 1 579120 35255 3119 22463 22532 39559 39559 0.09004699251181592 VISIVNRP 8 Unmodified _VISIVNRP_ 0 0 0 REV__ENSG00000154928|ENST00000398015|EPHB1 REV__ENSG00000154928|ENST00000398015|EPHB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 449.2818908691406 2 449.279452 896.544351 NaN NaN NaN NaN NaN NaN NaN 45.62 1 46.447 45.947 46.947 0.82621 0 0 0 0.99035 1 20772 20772 4.756 0.81161 1 + 35256 12730 22464 22533 39560 39560 0.09194081514033314 VISSHGNPIL 10 Unmodified _VISSHGNPIL_ 0 0 0 nc|ENSG00000135318|P21589-2|NT5E;ENSG00000135318|ENST00000257770|NT5E nc|ENSG00000135318|P21589-2|NT5E nc|ENSG00000135318|P21589-2|NT5E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 346.1983337402344 3 346.197708 1035.57129 2.4532 0.00084931 -0.67506 -0.0002337 1.7782 0.0006156 346.19719621781263 14.455 0.21156 14.455 14.314 14.525 0 19 13 2 0 0 0 0.78028 1 6371 6371 8.4443 0 1 181170 35257 2864 22465 22534 39561 39561 0.05493145334571636 VITLLNELKRR 11 Unmodified _VITLLNELKRR_ 0 0 0 ENST00000469559.5_1_3:38167054-38167382:-|nuORF;ENST00000469600.1_1_3:38164540-38167382:-|nuORF;ENST00000411549.5_1_3:38164540-38167863:-|nuORF;nc|ENSG00000060971|P09110-2|ACAA1;ENSG00000060971|ENST00000333167|ACAA1 ENST00000469559.5_1_3:38167054-38167382:-|nuORF ENST00000469559.5_1_3:38167054-38167382:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.9299926757812 2 677.930086 1353.84562 NaN NaN NaN NaN NaN NaN NaN 16.877 1 17.181 16.681 17.681 0.30438 0 0 0 1.0082 1 7642 7642 0 0 1 35258 646 22466 22535 39562 39562 0.1828496309365164 VIVILVLQR 9 Unmodified _VIVILVLQR_ 0 0 0 ENST00000409020.5_1_2:201754121-201754289:+|nuORF ENST00000409020.5_1_2:201754121-201754289:+|nuORF ENST00000409020.5_1_2:201754121-201754289:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.57867431640625 3 351.57786 1051.71175 NaN NaN NaN NaN NaN NaN NaN 31.755 1 31.755 31.255 32.255 0 0 0 0 0.91356 1 14370 14370 0.23584 0 1 35259 7652 22467 22536 39563 39563 0.1879634905878902 VIVIPNPV 8 Unmodified _VIVIPNPV_ 0 0 0 ENSG00000130943|ENST00000253255|PKDREJ ENSG00000130943|ENST00000253255|PKDREJ ENSG00000130943|ENST00000253255|PKDREJ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 425.77587890625 2 425.773471 849.53239 NaN NaN NaN NaN NaN NaN NaN 56.249 1 56.515 56.015 57.015 0.26543 0 0 0 0.99035 1 25729 25729 2.5775 0 1 35260 2631 22468 22537 39564 39564 0.10160464770854105 VIVIPNPV 8 Unmodified _VIVIPNPV_ 0 0 0 ENSG00000130943|ENST00000253255|PKDREJ ENSG00000130943|ENST00000253255|PKDREJ ENSG00000130943|ENST00000253255|PKDREJ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 425.7748718261719 2 425.773471 849.53239 NaN NaN NaN NaN NaN NaN NaN 70.97 1 71.228 70.728 71.728 0.25786 0 0 0 0.99035 1 32504 32504 0.79363 0 1 35261 2631 22468 22537 39565 39565 0.10160464770854105 VIVIPNPV 8 Unmodified _VIVIPNPV_ 0 0 0 ENSG00000130943|ENST00000253255|PKDREJ ENSG00000130943|ENST00000253255|PKDREJ ENSG00000130943|ENST00000253255|PKDREJ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 425.7737731933594 2 425.773471 849.53239 NaN NaN NaN NaN NaN NaN NaN 71.045 1 71.303 70.803 71.803 0.25786 0 0 0 0.99035 1 32540 32540 0.79363 0 1 35262 2631 22468 22537 39566 39566 0.10160464770854105 VIVKKKKKKKK 11 Unmodified _VIVKKKKKKKK_ 0 0 0 ENST00000393214.2_1_X:73596212-73596416:-|nuORF ENST00000393214.2_1_X:73596212-73596416:-|nuORF ENST00000393214.2_1_X:73596212-73596416:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 678.0092163085938 2 678.002857 1353.99116 NaN NaN NaN NaN NaN NaN NaN 82.05 1 82.05 81.55 82.55 0 0 0 0 1.0082 1 40958 40958 0 0 1 35263 7528 22469 22538 39567 39567 0.3283247068052333 VIVLLLLLLLH 11 Unmodified _VIVLLLLLLLH_ 0 0 0 REV__ENSG00000103522|ENST00000337929|IL21R REV__ENSG00000103522|ENST00000337929|IL21R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 629.9462890625 2 629.946685 1257.87882 NaN NaN NaN NaN NaN NaN NaN 68.173 1 68.173 67.673 68.673 0 0 0 0 1.0082 1 32795 32795 0 0 1 + 35264 10968 22470 22539 39568 39568 0.26019196883703444 VIVLLLLLLLH 11 Unmodified _VIVLLLLLLLH_ 0 0 0 REV__ENSG00000103522|ENST00000337929|IL21R REV__ENSG00000103522|ENST00000337929|IL21R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 629.9444580078125 2 629.946685 1257.87882 NaN NaN NaN NaN NaN NaN NaN 100.08 1 100.14 99.637 100.64 0.062241 0 0 0 1.0082 1 54222 54222 0 0 1 + 35265 10968 22470 22539 39569 39569 0.26019196883703444 VIVSMRRRV 9 Unmodified _VIVSMRRRV_ 0 0 0 REV__ENST00000460773.5_1_X:138814597-138879340:-|nuORF REV__ENST00000460773.5_1_X:138814597-138879340:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.34423828125 2 558.345135 1114.67572 NaN NaN NaN NaN NaN NaN NaN 9.7121 1 10.008 9.5077 10.508 0.2956 0 0 0 0.91238 1 4328 4328 0.52476 0 1 + 35266 10462 22471 22540 39570 39570 0.12296568610281611 VIWPRPLK 8 Unmodified _VIWPRPLK_ 0 0 0 REV__ENSG00000101752|ENST00000261537|MIB1 REV__ENSG00000101752|ENST00000261537|MIB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.8206787109375 2 504.821287 1007.62802 NaN NaN NaN NaN NaN NaN NaN 94.754 1 94.754 94.254 95.254 0 0 0 0 0.99035 1 50905 50905 6.3541 0.59368 1 + 35267 10909 22472 22541 39571 39571 0.12451237681739258 VKAARATR 8 Unmodified _VKAARATR_ 0 0 0 REV__ENST00000601772.1_1_19:19035054-19035967:+|nuORF REV__ENST00000601772.1_1_19:19035054-19035967:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 436.7756652832031 2 436.774868 871.535184 2.4254 0.0010593 0.080408 3.512E-05 2.5058 0.0010945 436.77483307879464 86.386 0.35329 86.386 86.247 86.601 0 101 45 3 0 0 0 0.7441 2 44208 44208;44359 2.3027 0 1 37946000 + 35268 17641 22473 22542 39572;39573 39572 0.09427732948370249 VKAARATR 8 Unmodified _VKAARATR_ 0 0 0 REV__ENST00000601772.1_1_19:19035054-19035967:+|nuORF REV__ENST00000601772.1_1_19:19035054-19035967:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 436.774868 871.535184 2.4254 0.0010593 0.080408 3.512E-05 2.5058 0.0010945 436.77483307879464 86.386 0.35329 86.386 86.247 86.601 0 -0.048555 5.0961E-06 NaN 2.3027 101 45 3 NaN NaN NaN NaN 0 NaN NaN 0 37946000 + 35269 17641 22473 22542 0.09427732948370249 VKAARATR 8 Unmodified _VKAARATR_ 0 0 0 REV__ENST00000601772.1_1_19:19035054-19035967:+|nuORF REV__ENST00000601772.1_1_19:19035054-19035967:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 436.774868 871.535184 3.2138 0.0014037 0.022847 9.979E-06 3.2366 0.0014137 436.7746283797269 85.812 0.082962 86.483 86.448 86.531 0.67061 0.048555 -4.5186E-05 NaN 2.3027 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 171140 + 35270 17641 22473 22542 0.09427732948370249 VKAKKLRKL 9 Unmodified _VKAKKLRKL_ 0 0 0 REV__ENSG00000086967|ENST00000357701|MYBPC2 REV__ENSG00000086967|ENST00000357701|MYBPC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.7083129882812 2 542.389868 1082.76518 NaN NaN NaN NaN NaN NaN NaN 76.795 1 77.05 76.55 77.55 0.25533 0 0 0 0.91452 1 35362 35362 0 0 1 + 35271 10658 22474 22543 39574 39574 0.22711146561323403 VKALPGGL 8 Unmodified _VKALPGGL_ 0 0 0 ENSG00000006071|ENST00000389817|ABCC8;nc|ENSG00000006071|Q09428-2|ABCC8 ENSG00000006071|ENST00000389817|ABCC8 ENSG00000006071|ENST00000389817|ABCC8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.74603271484375 2 377.744714 753.474875 2.8649 0.0010822 2.2501 0.00084996 5.115 0.0019322 377.7452980928827 88.549 0.81942 89.227 88.723 89.542 0.67818 55 35 2 0 0 0 0.7471 1 40792 40792 0 0 1 461570 35272 341 22475 22544 39575 39575 0.08827622565297588 VKALQKQL 8 Unmodified _VKALQKQL_ 0 0 0 ENST00000586562.5_1_17:43553294-43559850:-|nuORF REV__nc|ENSG00000071909|Q8WXR4-6|MYO3B;REV__ENST00000602629.1_1_2:171225816-171400468:+|nuORF REV__ENST00000602629.1_1_2:171225816-171400468:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.3017578125 2 464.302927 926.591301 NaN NaN NaN NaN NaN NaN NaN 40.382 1 40.651 40.151 41.151 0.26904 0 0 0 0.99035 1 18372 18372 2.3027 0 1 35273 10485;17645 22476 22545 39576 39576 0.125069410651804 VKAMGNLQI 9 Unmodified _VKAMGNLQI_ 0 0 0 nc|ENSG00000114353|P04899-4|GNAI2;nc|ENSG00000114353|P04899-6|GNAI2;ENST00000490122.5_1_3:50289817-50295119:+|nuORF;nc|ENSG00000114353|P04899-3|GNAI2;nc|ENSG00000114353|P04899-5|GNAI2;nc|ENSG00000114353|P04899-2|GNAI2;ENSG00000114353|ENST00000313601|GNAI2 nc|ENSG00000114353|P04899-4|GNAI2;nc|ENSG00000114353|P04899-6|GNAI2 nc|ENSG00000114353|P04899-6|GNAI2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.27862548828125 2 487.278595 972.542637 NaN NaN NaN NaN NaN NaN NaN 29.456 1 30.074 29.574 30.574 0.61789 0 0 0 0.90699 1 13510 13510 1.8442 0 1 35274 9602;1899 22477 22546 39577 39577 0.0552670443378247 VKANGPHL 8 Unmodified _VKANGPHL_ 0 0 0 nc|ENSG00000109118|Q96QT6-4|PHF12;ENST00000582655.5_1_17:27237828-27251299:-|nuORF;nc|ENSG00000109118|Q96QT6-2|PHF12;ENST00000582436.5_1_17:27237055-27251401:-|nuORF;nc|ENSG00000109118|Q96QT6-5|PHF12;nc|ENSG00000109118|Q96QT6-3|PHF12;ENSG00000109118|ENST00000332830|PHF12 nc|ENSG00000109118|Q96QT6-4|PHF12 nc|ENSG00000109118|Q96QT6-4|PHF12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 418.2591857910156 2 418.24287 834.471186 NaN NaN NaN NaN NaN NaN NaN 103.79 1 103.84 103.34 104.34 0.052994 0 0 0 0.99035 1 56241 56241 0.69038 0 1 35275 1669 22478 22547 39578 39578 0.047329527914257596 VKAPNRAAL 9 Unmodified _VKAPNRAAL_ 0 0 0 REV__ENSG00000095319|ENST00000372577|NUP188 REV__ENSG00000095319|ENST00000372577|NUP188 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.2919616699219 2 470.290351 938.566149 2.8564 0.0013434 0.41812 0.00019664 3.2746 0.00154 470.2906070187414 15.345 0.74762 15.345 15.009 15.757 0 127 90 2 0 0 0 0.76984 1 6741 6741 7.9102 0 1 87313 + 35276 10759 22479 22548 39579 39579 0.09440886262598269 VKCCLALVL 9 Unmodified _VKCCLALVL_ 0 0 0 REV__ENSG00000145740|ENST00000396591|SLC30A5 REV__ENSG00000145740|ENST00000396591|SLC30A5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 961.5603637695312 1 961.557307 960.55003 4.0087 0.0038546 -0.30318 -0.00029152 3.7055 0.0035631 961.5569229381847 103.25 0.047394 103.85 103.82 103.87 0.59821 4 2 2 0 0 0 1.2459 1 47775 47775 0 0 1 1143000 + 35277 12455 22480 22549 39580 39580 0.06817720709818786 VKDLLSGDS 9 Unmodified _VKDLLSGDS_ 0 0 0 nc|ENSG00000181827|Q2KHR2-1|RFX7;nc|ENSG00000181827|Q2KHR2-2|RFX7;ENSG00000181827|ENST00000559447|RFX7 nc|ENSG00000181827|Q2KHR2-1|RFX7 nc|ENSG00000181827|Q2KHR2-1|RFX7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.2519836425781 2 467.248015 932.481476 3.075 0.0014368 1.9632 0.00091729 5.0382 0.0023541 467.25012894444234 100.48 0.7064 101.08 101 101.71 0.59717 75 25 4 0 0 0 1.1154 1 46522 46522 2.0598 0 1 3460800 35278 5302 22481 22550 39581 39581 0.012534709353417384 VKEAVLTTV 9 Unmodified _VKEAVLTTV_ 0 0 0 ENST00000347869.7_1_3:50144979-50147044:+|nuORF ENST00000347869.7_1_3:50144979-50147044:+|nuORF ENST00000347869.7_1_3:50144979-50147044:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 320.1966552734375 3 320.530576 958.569897 2.2207 0.00071182 -1.4299 -0.00045832 0.79086 0.00025349 320.530157561083 21.254 0.14169 21.254 21.146 21.287 0 13 12 2 0 0 0 0.10847 1 9499 9499 4.1895 0 1 177420 35279 7122 22482 22551 39582 39582 0.0889551124580521 VKEKKLKRKIL 11 Unmodified _VKEKKLKRKIL_ 0 0 0 nc|ENSG00000032219|P29374-3|ARID4A;nc|ENSG00000032219|P29374-2|ARID4A;ENSG00000032219|ENST00000355431|ARID4A nc|ENSG00000032219|P29374-3|ARID4A nc|ENSG00000032219|P29374-3|ARID4A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 691.9818115234375 2 691.982121 1381.94969 NaN NaN NaN NaN NaN NaN NaN 69.352 1 70.055 69.555 70.555 0.70302 0 0 0 1.0072 1 33188 33188 1.3295 0 1 35280 497 22483 22552 39583 39583 0.27399289921231684 VKEKVVAL 8 Unmodified _VKEKVVAL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-7|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 443.2933654785156 2 443.292028 884.569503 2.8799 0.0012766 -0.33586 -0.00014888 2.5441 0.0011278 443.29184507707424 23.312 0.22663 23.588 23.468 23.695 0.27562 69 37 2 0 0 0 0.0063663 3 10526 10480;10526;10575 126.57 37.612 1 14594000 35281 381 22484 22553 39584;39585;39586 39585 0.12260136316615444 VKEKVVAL 8 Unmodified _VKEKVVAL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-7|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 443.29327392578125 2 443.292028 884.569503 3.0772 0.0013641 -0.20812 -9.226E-05 2.8691 0.0012718 443.29187427867197 22.772 0.29127 23.412 23.27 23.562 0.64051 97 38 4 0 0 0 0.00036904 3 10376 10332;10376;10426 139.14 39.34 1 16552000 35282 381 22484 22553 39587;39588;39589 39588 0.12260136316615444 VKEKVWALV 9 Unmodified _VKEKVWALV_ 0 0 0 REV__nc|ENSG00000008517|P24001-7|IL32 REV__nc|ENSG00000008517|P24001-7|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.89105224609375 3 357.890215 1070.64882 2.6411 0.00094522 -0.11943 -4.2743E-05 2.5217 0.00090248 357.8902153291598 40.325 0.40042 40.325 40.093 40.493 0 49 13 5 0 0 0 0.24272 2 18276 18276;18328 20.581 5.202 1 36224000 + 35283 10210 22485 22554 39590;39591 39590 0.11631783270740925 VKEKVWALV 9 Unmodified _VKEKVWALV_ 0 0 0 REV__nc|ENSG00000008517|P24001-7|IL32 REV__nc|ENSG00000008517|P24001-7|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 357.8912658691406 3 357.890215 1070.64882 2.3915 0.00085591 0.18989 6.7958E-05 2.5814 0.00092386 357.89036055898526 39.232 0.56858 40.03 39.818 40.387 0.79762 97 27 5 0 0 0 0.24272 1 17804 17804 20.581 0.1664 1 30192000 + 35284 10210 22485 22554 39592 39592 0.11631783270740925 VKEKVWALV 9 Unmodified _VKEKVWALV_ 0 0 0 REV__nc|ENSG00000008517|P24001-7|IL32 REV__nc|ENSG00000008517|P24001-7|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.8912658691406 3 357.890215 1070.64882 2.6879 0.00096198 -0.14269 -5.1068E-05 2.5452 0.00091091 357.89027677945154 39.999 0.72056 40.266 40.037 40.757 0.26696 93 26 5 0 0 0 0.47677 1 18255 18255 12.873 2.0731 1 194640000 + 35285 10210 22485 22554 39593 39593 0.11631783270740925 VKELPKVV 8 Unmodified _VKELPKVV_ 0 0 0 REV__ENST00000477777.1_1_X:153713880-153714433:-|nuORF REV__ENST00000477777.1_1_X:153713880-153714433:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 304.53741455078125 3 304.535661 910.585153 NaN NaN NaN NaN NaN NaN NaN 39.712 1 39.712 39.212 40.212 0 0 0 0 0.99035 1 18022 18022 0.35063 0 1 + 35286 10922 22486 22555 39594 39594 0.1262842283366581 VKFLVSLLKK 10 Unmodified _VKFLVSLLKK_ 0 0 0 ENST00000462503.1_1_8:34180515-34180734:-|nuORF ENST00000462503.1_1_8:34180515-34180734:-|nuORF ENST00000462503.1_1_8:34180515-34180734:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.8987426757812 2 587.899734 1173.78492 NaN NaN NaN NaN NaN NaN NaN 29.792 1 30.581 30.081 31.081 0.78921 0 0 0 1.0015 1 13440 13440 0.40072 0 1 35287 8094 22487 22556 39595 39595 0.204974777813959 VKFNKLRL 8 Unmodified _VKFNKLRL_ 0 0 0 REV__ENSG00000170927|ENST00000371117|PKHD1 REV__ENSG00000170927|ENST00000371117|PKHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 339.8914489746094 3 339.890438 1016.64948 2.394 0.0008137 -0.17843 -6.0645E-05 2.2156 0.00075306 339.89047075905 15.743 0.80305 15.743 15.386 16.189 0 173 95 2 0 0 0 0.66653 2 6969 6969;7042 10.074 0 1 113200 + 35288 13464 22488 22557 39596;39597 39596 0.14182622710438864 VKGAGAAR 8 Unmodified _VKGAGAAR_ 0 0 0 REV__ENST00000414667.1_1_Y:2863110-2863236:-|nuORF REV__ENST00000414667.1_1_Y:2863110-2863236:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 365.2128601074219 2 365.221937 728.429321 NaN NaN NaN NaN NaN NaN NaN 37.689 1 38.485 37.985 38.985 0.79552 0 0 0 0.99035 1 17076 17076 2.5775 0 1 + 35289 16125 22489 22558 39598 39598 0.054243971028995475 VKGCAPCP 8 Unmodified _VKGCAPCP_ 0 0 0 REV__ENSG00000119574|ENST00000594051|ZBTB45 REV__ENSG00000119574|ENST00000594051|ZBTB45 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.68682861328125 2 387.685484 773.356416 NaN NaN NaN NaN NaN NaN NaN 97.102 1 97.704 97.204 98.204 0.6019 0 0 0 0.99035 1 44647 44647 0.79363 0.79363 1 + 35290 11504 22490 22559 39599 39599 -0.03932816006397388 VKGKIHGI 8 Unmodified _VKGKIHGI_ 0 0 0 TBC1D9B|p.S776Afs*2|1|0.22|ENSG00000197226|chr5:179872981-179872981|T/-|frameshift_variant;TBC1D9B|p.E1063Rfs*146|1|0.53|ENSG00000197226|chr5:179864015-179864015|T/-|frameshift_variant;ENSG00000197226|ENST00000355235|TBC1D9B;nc|ENSG00000197226|Q66K14|TBC1D9B TBC1D9B|p.S776Afs*2|1|0.22|ENSG00000197226|chr5:179872981-179872981|T/-|frameshift_variant TBC1D9B|p.S776Afs*2|1|0.22|ENSG00000197226|chr5:179872981-179872981|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 426.2763671875 2 426.276712 850.538872 NaN NaN NaN NaN NaN NaN NaN 56.044 1 56.309 55.809 56.809 0.26543 0 0 0 0.99035 1 25632 25632 2.5775 0 1 35291 5801 22491 22560 39600 39600 0.10762402722230036 VKGLRVAIP 9 Unmodified _VKGLRVAIP_ 0 0 0 REV__ENST00000479183.6_1_1:53364812-53370512:-|nuORF REV__ENST00000479183.6_1_1:53364812-53370512:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.8808898925781 3 318.214922 951.622936 2.095 0.00066665 -0.01919 -6.1067E-06 2.0758 0.00066054 318.21490858850683 38.518 0.26622 38.782 38.63 38.896 0.26408 15 9 2 0 0 0 0.11393 1 17546 17546 1.0715 0.10919 1 1427500 + 35292 11553 22492 22561 39601 39601 0.14518933819135782 VKGLVARFQPR 11 Unmodified _VKGLVARFQPR_ 0 0 0 REV__ENST00000506566.1_1_4:130824308-130824734:+|nuORF REV__ENST00000506566.1_1_4:130824308-130824734:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 636.1278076171875 2 635.890764 1269.76697 NaN NaN NaN NaN NaN NaN NaN 59.997 1 59.997 59.497 60.497 0 0 0 0 1.0061 1 27788 27788 2.7352 0 1 + 35293 16935 22493 22562 39602 39602 0.1428815557926555 VKGLVLGP 8 Unmodified _VKGLVLGP_ 0 0 0 ENST00000537839.5_1_11:62649261-62650080:+|nuORF;ENST00000541649.1_1_11:62649366-62649600:+|nuORF;ENST00000546253.5_1_11:62649261-62650084:+|nuORF;SLC3A2|p.K300Rfs*31|1|0.36|ENSG00000168003|chr11:62882057-62882057|A/-|frameshift_variant;ENST00000457660.6_1_11:62649366-62653989:+|nuORF;ENSG00000168003|ENST00000338663|SLC3A2;nc|ENSG00000168003|P08195-3|SLC3A2;nc|ENSG00000168003|P08195|SLC3A2;nc|ENSG00000168003|P08195-5|SLC3A2;nc|ENSG00000168003|P08195-4|SLC3A2 ENST00000537839.5_1_11:62649261-62650080:+|nuORF ENST00000537839.5_1_11:62649261-62650080:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 391.76312255859375 2 391.760364 781.506175 NaN NaN NaN NaN NaN NaN NaN 30.715 1 30.715 30.215 31.215 0 0 0 0 0.99035 1 13880 13880 0.79363 0 1 35294 8779 22494 22563 39603 39603 0.10668195599384944 VKGLVLGP 8 Unmodified _VKGLVLGP_ 0 0 0 ENST00000537839.5_1_11:62649261-62650080:+|nuORF;ENST00000541649.1_1_11:62649366-62649600:+|nuORF;ENST00000546253.5_1_11:62649261-62650084:+|nuORF;SLC3A2|p.K300Rfs*31|1|0.36|ENSG00000168003|chr11:62882057-62882057|A/-|frameshift_variant;ENST00000457660.6_1_11:62649366-62653989:+|nuORF;ENSG00000168003|ENST00000338663|SLC3A2;nc|ENSG00000168003|P08195-3|SLC3A2;nc|ENSG00000168003|P08195|SLC3A2;nc|ENSG00000168003|P08195-5|SLC3A2;nc|ENSG00000168003|P08195-4|SLC3A2 ENST00000537839.5_1_11:62649261-62650080:+|nuORF ENST00000537839.5_1_11:62649261-62650080:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 391.7628173828125 2 391.760364 781.506175 NaN NaN NaN NaN NaN NaN NaN 26.512 1 27.291 26.791 27.791 0.7787 0 0 0 0.99035 1 11909 11909 0.79363 0 1 35295 8779 22494 22563 39604 39604 0.10668195599384944 VKGLVLGP 8 Unmodified _VKGLVLGP_ 0 0 0 ENST00000537839.5_1_11:62649261-62650080:+|nuORF;ENST00000541649.1_1_11:62649366-62649600:+|nuORF;ENST00000546253.5_1_11:62649261-62650084:+|nuORF;SLC3A2|p.K300Rfs*31|1|0.36|ENSG00000168003|chr11:62882057-62882057|A/-|frameshift_variant;ENST00000457660.6_1_11:62649366-62653989:+|nuORF;ENSG00000168003|ENST00000338663|SLC3A2;nc|ENSG00000168003|P08195-3|SLC3A2;nc|ENSG00000168003|P08195|SLC3A2;nc|ENSG00000168003|P08195-5|SLC3A2;nc|ENSG00000168003|P08195-4|SLC3A2 ENST00000537839.5_1_11:62649261-62650080:+|nuORF ENST00000537839.5_1_11:62649261-62650080:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 391.7629089355469 2 391.760364 781.506175 NaN NaN NaN NaN NaN NaN NaN 26.806 1 27.428 26.928 27.928 0.62179 0 0 0 0.99035 1 12289 12289 0.79363 0 1 35296 8779 22494 22563 39605 39605 0.10668195599384944 VKGMKHRK 8 Unmodified _VKGMKHRK_ 0 0 0 nc|ENSG00000197375|O76082-2|SLC22A5;ENST00000475308.1_1_5:131726319-131729961:+|nuORF;ENST00000461013.5_1_5:131719758-131729961:+|nuORF;ENSG00000197375|ENST00000245407|SLC22A5;nc|ENSG00000197375|O76082-3|SLC22A5 nc|ENSG00000197375|O76082-2|SLC22A5 nc|ENSG00000197375|O76082-2|SLC22A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.3004455566406 2 492.300196 982.585839 NaN NaN NaN NaN NaN NaN NaN 52.031 1 52.293 51.793 52.793 0.26227 0 0 0 0.99035 1 23785 23785 2.3027 0.4585 1 35297 5811 22495 22564 39606 39606 0.09384939001722614 VKGQNKLFE 9 Unmodified _VKGQNKLFE_ 0 0 0 REV__ENSG00000138002|ENST00000260570|IFT172 REV__ENSG00000138002|ENST00000260570|IFT172 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.3233642578125 2 531.800749 1061.58694 3.088 0.0016422 1.8142 0.00096477 4.9021 0.002607 531.8018752495818 53.401 0.48669 54.066 53.892 54.379 0.6644 38 24 3 0 0 0 0.062228 1 24497 24497 26.884 11.036 1 1989000 + 35298 12139 22496 22565 39607 39607 0.058614318515992636 VKHIAWLAE 9 Unmodified _VKHIAWLAE_ 0 0 0 ENSG00000168807|ENST00000336278|SNTB2 ENSG00000168807|ENST00000336278|SNTB2 ENSG00000168807|ENST00000336278|SNTB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 356.2076416015625 3 356.206315 1065.59712 NaN NaN NaN NaN NaN NaN NaN 42.233 1 42.88 42.38 43.38 0.64693 0 0 0 0.90611 1 19344 19344 1.0715 0 1 35299 4654 22497 22566 39608 39608 0.06694039576859723 VKHILRLRWKL 11 Unmodified _VKHILRLRWKL_ 0 0 0 ENSG00000150361|ENST00000377844|KLHL1 ENSG00000150361|ENST00000377844|KLHL1 ENSG00000150361|ENST00000377844|KLHL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 731.4794311523438 2 731.48008 1460.94561 NaN NaN NaN NaN NaN NaN NaN 67.362 1 68.064 67.564 68.564 0.70218 0 0 0 1.0082 1 32018 32018 0 0 1 35300 3666 22498 22567 39609 39609 0.2335724521813063 VKHKPTRLD 9 Unmodified _VKHKPTRLD_ 0 0 0 REV__nc|ENSG00000126890|O75638|CTAG2 REV__nc|ENSG00000126890|O75638|CTAG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 365.22381591796875 3 365.220735 1092.64038 NaN NaN NaN NaN NaN NaN NaN 19.659 1 19.659 19.159 20.159 0 0 0 0 0.8911 1 8774 8774 3.5871 0.85186 1 + 35301 17921 22499 22568 39610 39610 0.0977622935411091 VKHWVKSV 8 Unmodified _VKHWVKSV_ 0 0 0 REV__Harlequin-int_dup204|chr5:139526721-139527362:+|3.47385935140097|0.1073174503437065|5.02|522.0|15|2|sense REV__Harlequin-int_dup204|chr5:139526721-139527362:+|3.47385935140097|0.1073174503437065|5.02|522.0|15|2|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7978820800781 2 491.795269 981.575986 3.3767 0.0016606 0.67729 0.00033309 4.054 0.0019937 491.7952575347355 44.689 0.28337 45.339 45.174 45.458 0.64998 20 10 3 0 0 0 0.65723 1 20486 20486 9.3474 0 1 990500 + 35302 17703 22500 22569 39611 39611 0.08446074267999393 VKHWVKSV 8 Unmodified _VKHWVKSV_ 0 0 0 REV__Harlequin-int_dup204|chr5:139526721-139527362:+|3.47385935140097|0.1073174503437065|5.02|522.0|15|2|sense REV__Harlequin-int_dup204|chr5:139526721-139527362:+|3.47385935140097|0.1073174503437065|5.02|522.0|15|2|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 491.795269 981.575986 3.0046 0.0014776 1.2275 0.00060367 4.2321 0.0020813 491.7959455230696 45.766 0.62452 45.766 45.288 45.912 0 0.25621 0.00029383 NaN 9.3474 43 29 2 NaN NaN NaN NaN 0 NaN NaN 0 729150 + 35303 17703 22500 22569 0.08446074267999393 VKHWVKSV 8 Unmodified _VKHWVKSV_ 0 0 0 REV__Harlequin-int_dup204|chr5:139526721-139527362:+|3.47385935140097|0.1073174503437065|5.02|522.0|15|2|sense REV__Harlequin-int_dup204|chr5:139526721-139527362:+|3.47385935140097|0.1073174503437065|5.02|522.0|15|2|sense MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 491.795269 981.575986 3.3767 0.0016606 0.67729 0.00033309 4.054 0.0019937 491.7952575347355 44.689 0.28337 45.339 45.174 45.458 0.64998 -0.17051 -0.00024734 NaN 9.3474 20 10 3 NaN NaN NaN NaN 0 NaN NaN 0 990500 + 35304 17703 22500 22569 0.08446074267999393 VKIAKQARRP 10 Unmodified _VKIAKQARRP_ 0 0 0 ENST00000551739.5_1_12:56334450-56334738:+|nuORF ENST00000551739.5_1_12:56334450-56334738:+|nuORF ENST00000551739.5_1_12:56334450-56334738:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.2544250488281 3 389.58753 1165.74076 2.9593 0.0011529 1.7245 0.00067184 4.6838 0.0018247 389.58812565192204 44.029 0.2701 44.678 44.503 44.773 0.64872 15 11 2 0 0 0 0.12676 1 20202 20202 0.69767 0.46182 1 594430 35305 8883 22501 22570 39612 39612 0.16451886407776328 VKICQLMCL 9 Unmodified _VKICQLMCL_ 0 0 0 REV__ENST00000483122.1_1_10:114210316-114210400:+|nuORF REV__ENST00000483122.1_1_10:114210316-114210400:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.7806396484375 2 525.779059 1049.54356 3.0858 0.0016224 -1.6046 -0.00084365 1.4812 0.00077878 525.7782102158135 68.884 0.18335 69.543 69.397 69.58 0.65924 17 12 2 0 0 0 0.54955 1 31588 31588 11.64 0 1 344640 + 35306 16717 22502 22571 39613 39613 0.020774594868044005 VKIGHAIT 8 Unmodified _VKIGHAIT_ 0 0 0 ENST00000366787.7_1_6:169617590-169617689:-|nuORF ENST00000366787.7_1_6:169617590-169617689:-|nuORF ENST00000366787.7_1_6:169617590-169617689:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 838.5167846679688 1 838.514514 837.507237 4.7243 0.0039614 -2.3658 -0.0019837 2.3585 0.0019776 838.5120221121816 104.14 0.051468 104.46 104.44 104.49 0.31863 10 5 2 0 0 0 0.7471 1 48121 48121 0 0 1 1016600 35307 7238 22503 22572 39614 39614 0.08198409968247233 VKIGHAIT 8 Unmodified _VKIGHAIT_ 0 0 0 ENST00000366787.7_1_6:169617590-169617689:-|nuORF ENST00000366787.7_1_6:169617590-169617689:-|nuORF ENST00000366787.7_1_6:169617590-169617689:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 838.5151977539062 1 838.514514 837.507237 4.1585 0.003487 -2.055 -0.0017232 2.1035 0.0017638 838.5127138247805 104.1 0.051537 104.7 104.68 104.73 0.59885 12 7 2 0 0 0 0.7471 1 48135 48135 0 0 1 589750 35308 7238 22503 22572 39615 39615 0.08198409968247233 VKIHKIVA 8 Unmodified _VKIHKIVA_ 0 0 0 ENSG00000131127|ENST00000240499|ZNF141;ENST00000503699.1_1_4:331733-352211:+|nuORF ENSG00000131127|ENST00000240499|ZNF141 ENSG00000131127|ENST00000240499|ZNF141 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.1993713378906 3 303.207767 906.601472 NaN NaN NaN NaN NaN NaN NaN 43.399 1 44.213 43.713 44.713 0.81444 0 0 0 0.99035 1 19756 19756 0.40072 0 1 35309 2640 22504 22573 39616 39616 0.14443548790404748 VKILKKKKL 9 Unmodified _VKILKKKKL_ 0 0 0 ENST00000586358.5_1_19:1207098-1220516:+|nuORF;STK11|p.F255Sfs*32|1|0.08|ENSG00000118046|chr19:1221237-1221237|C/-|frameshift_variant;ENST00000589152.5_1_19:1206825-1221398:+|nuORF;nc|ENSG00000118046|Q15831-2|STK11;ENSG00000118046|ENST00000326873|STK11 ENST00000586358.5_1_19:1207098-1220516:+|nuORF ENST00000586358.5_1_19:1207098-1220516:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.5518798828125 2 549.410269 1096.80599 NaN NaN NaN NaN NaN NaN NaN 73.688 1 74.387 73.887 74.887 0.69881 0 0 0 0.91206 1 35553 35553 0.6015 0 1 35310 2102 22505 22574 39617 39617 0.2614548788092179 VKIRNKKCAIH 11 Unmodified _VKIRNKKCAIH_ 0 0 0 REV__nc|ENSG00000145362|Q01484-5|ANK2;REV__ENSG00000151150|ENST00000280772|ANK3 REV__nc|ENSG00000145362|Q01484-5|ANK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 437.2684631347656 3 437.267691 1308.78124 2.8283 0.0012367 0.24236 0.00010598 3.0706 0.0013427 437.26768406317467 48.763 0.49987 49.59 49.505 50.005 0.82705 51 27 2 0 0 0 0.91345 1 22345 22345 0.45452 0 1 1977200 + 35311 12438;12607 22506 22575 39618 39618 0.13920484735899663 VKKAKKKLKR 10 Unmodified _VKKAKKKLKR_ 0 0 0 REV__ENSG00000157895|ENST00000288757|C12orf43 REV__ENSG00000157895|ENST00000288757|C12orf43 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.94189453125 2 613.942799 1225.87105 NaN NaN NaN NaN NaN NaN NaN 0.72934 1 1.0334 0.53345 1.5334 0.30411 0 0 0 1.002 1 337 337 0 0 1 + 35312 12812 22507 22576 39619 39619 0.2671448240676 VKKCPHRKKVT 11 Unmodified _VKKCPHRKKVT_ 0 0 0 REV__ENSG00000204186|ENST00000374423|ZDBF2 REV__ENSG00000204186|ENST00000374423|ZDBF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.9583435058594 4 331.7065 1322.79689 2.2673 0.00075207 0.92961 0.00030836 3.1969 0.0010604 331.9575881218911 56.532 0.47645 56.532 56.272 56.749 0 84 39 3 0 0 0 0.91068 1 26023 26023 0.45452 0 1 3616400 + 35313 14403 22508 22577 39620 39620 0.14840771252920604 VKKCPHRKKVT 11 Unmodified _VKKCPHRKKVT_ 0 0 0 REV__ENSG00000204186|ENST00000374423|ZDBF2 REV__ENSG00000204186|ENST00000374423|ZDBF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 331.7076721191406 4 331.7065 1322.79689 2.3579 0.00078213 0.59227 0.00019646 2.9502 0.00097859 331.7066468848767 56.904 0.29328 56.904 56.72 57.014 0 53 28 3 0 0 0 0.91068 1 26192 26192 0.45452 0 1 1853500 + 35314 14403 22508 22577 39621 39621 0.14840771252920604 VKKCPHRKKVT 11 Unmodified _VKKCPHRKKVT_ 0 0 0 REV__ENSG00000204186|ENST00000374423|ZDBF2 REV__ENSG00000204186|ENST00000374423|ZDBF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.7076416015625 4 331.7065 1322.79689 2.0698 0.00068656 0.47579 0.00015782 2.5456 0.00084438 331.70648557901126 53.616 0.52607 54.419 54.333 54.86 0.80351 83 31 4 0 0 0 0.91068 1 24442 24442 1.3296 1.3296 1 4256300 + 35315 14403 22508 22577 39622 39622 0.14840771252920604 VKKCPHRKKVT 11 Unmodified _VKKCPHRKKVT_ 0 0 0 REV__ENSG00000204186|ENST00000374423|ZDBF2 REV__ENSG00000204186|ENST00000374423|ZDBF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.70703125 4 331.7065 1322.79689 2.008 0.00066606 0.33848 0.00011228 2.3465 0.00077834 331.7064829791462 55.799 0.38013 56.586 56.383 56.763 0.78711 64 29 3 0 0 0 0.91068 1 25501 25501 0.45452 0 1 1738800 + 35316 14403 22508 22577 39623 39623 0.14840771252920604 VKKCPHRKKVT 11 Unmodified _VKKCPHRKKVT_ 0 0 0 REV__ENSG00000204186|ENST00000374423|ZDBF2 REV__ENSG00000204186|ENST00000374423|ZDBF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.7073669433594 4 331.7065 1322.79689 2.3329 0.00077385 0.88029 0.000292 3.2132 0.0010658 331.7066386739058 56.151 0.34835 56.416 56.262 56.61 0.26543 36 13 3 0 0 0 0.91068 1 25724 25724 0.45452 0.046251 1 3697900 + 35317 14403 22508 22577 39624 39624 0.14840771252920604 VKKCPHRKKVT 11 Unmodified _VKKCPHRKKVT_ 0 0 0 REV__ENSG00000204186|ENST00000374423|ZDBF2 REV__ENSG00000204186|ENST00000374423|ZDBF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.70733642578125 4 331.7065 1322.79689 2.1171 0.00070225 1.149 0.00038112 3.266 0.0010834 331.7067682753332 53.736 0.39466 54.4 54.163 54.557 0.6644 74 22 4 0 0 0 0.91068 1 24563 24563 0.45452 0 1 3597400 + 35318 14403 22508 22577 39625 39625 0.14840771252920604 VKKEPLGRAER 11 Unmodified _VKKEPLGRAER_ 0 0 0 ENSG00000204103|ENST00000373313|MAFB ENSG00000204103|ENST00000373313|MAFB ENSG00000204103|ENST00000373313|MAFB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.8849487304688 2 641.883136 1281.75172 4.2699 0.0027408 -1.0168 -0.00065269 3.2531 0.0020881 641.8823463323495 91.922 1.25 92.174 91.475 92.725 0.25253 214 60 4 0 0 0 0.91111 1 42295 42295 1.1933 0 1 2749900 35319 5985 22509 22578 39626 39626 0.12211243991396259 VKKHKKKR 8 Unmodified _VKKHKKKR_ 0 0 0 ENST00000549307.5_1_12:58109828-58113249:+|nuORF;nc|ENSG00000135506|Q13438-8|OS9;nc|ENSG00000135506|Q13438-6|OS9;nc|ENSG00000135506|Q13438-5|OS9;nc|ENSG00000135506|Q13438-3|OS9;nc|ENSG00000135506|Q13438-2|OS9;nc|ENSG00000135506|Q13438-7|OS9;nc|ENSG00000135506|Q13438-4|OS9;ENSG00000135506|ENST00000315970|OS9 ENST00000549307.5_1_12:58109828-58113249:+|nuORF ENST00000549307.5_1_12:58109828-58113249:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.915283203125 3 351.245215 1050.71382 NaN NaN NaN NaN NaN NaN NaN 2.5578 1 2.5578 2.0578 3.0578 0 0 0 0 0.99035 1 1165 1165 0 0 1 35320 2876 22510 22579 39627 39627 0.1904882258725138 VKKHKKKR 8 Unmodified _VKKHKKKR_ 0 0 0 ENST00000549307.5_1_12:58109828-58113249:+|nuORF;nc|ENSG00000135506|Q13438-8|OS9;nc|ENSG00000135506|Q13438-6|OS9;nc|ENSG00000135506|Q13438-5|OS9;nc|ENSG00000135506|Q13438-3|OS9;nc|ENSG00000135506|Q13438-2|OS9;nc|ENSG00000135506|Q13438-7|OS9;nc|ENSG00000135506|Q13438-4|OS9;ENSG00000135506|ENST00000315970|OS9 ENST00000549307.5_1_12:58109828-58113249:+|nuORF ENST00000549307.5_1_12:58109828-58113249:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.9154968261719 3 351.245215 1050.71382 NaN NaN NaN NaN NaN NaN NaN 2.833 1 2.833 2.333 3.333 0 0 0 0 0.99035 1 1291 1291 0 0 1 35321 2876 22510 22579 39628 39628 0.1904882258725138 VKKHKKKR 8 Unmodified _VKKHKKKR_ 0 0 0 ENST00000549307.5_1_12:58109828-58113249:+|nuORF;nc|ENSG00000135506|Q13438-8|OS9;nc|ENSG00000135506|Q13438-6|OS9;nc|ENSG00000135506|Q13438-5|OS9;nc|ENSG00000135506|Q13438-3|OS9;nc|ENSG00000135506|Q13438-2|OS9;nc|ENSG00000135506|Q13438-7|OS9;nc|ENSG00000135506|Q13438-4|OS9;ENSG00000135506|ENST00000315970|OS9 ENST00000549307.5_1_12:58109828-58113249:+|nuORF ENST00000549307.5_1_12:58109828-58113249:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.9150085449219 3 351.245215 1050.71382 NaN NaN NaN NaN NaN NaN NaN 3.4151 1 3.4151 2.9151 3.9151 0 0 0 0 0.99035 1 1553 1553 0 0 1 35322 2876 22510 22579 39629 39629 0.1904882258725138 VKKHKKKR 8 Unmodified _VKKHKKKR_ 0 0 0 ENST00000549307.5_1_12:58109828-58113249:+|nuORF;nc|ENSG00000135506|Q13438-8|OS9;nc|ENSG00000135506|Q13438-6|OS9;nc|ENSG00000135506|Q13438-5|OS9;nc|ENSG00000135506|Q13438-3|OS9;nc|ENSG00000135506|Q13438-2|OS9;nc|ENSG00000135506|Q13438-7|OS9;nc|ENSG00000135506|Q13438-4|OS9;ENSG00000135506|ENST00000315970|OS9 ENST00000549307.5_1_12:58109828-58113249:+|nuORF ENST00000549307.5_1_12:58109828-58113249:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.2452392578125 3 351.245215 1050.71382 NaN NaN NaN NaN NaN NaN NaN 3.8355 1 3.8355 3.3355 4.3355 0 0 0 0 0.99035 1 1745 1745 0 0 1 35323 2876 22510 22579 39630 39630 0.1904882258725138 VKKHKKKR 8 Unmodified _VKKHKKKR_ 0 0 0 ENST00000549307.5_1_12:58109828-58113249:+|nuORF;nc|ENSG00000135506|Q13438-8|OS9;nc|ENSG00000135506|Q13438-6|OS9;nc|ENSG00000135506|Q13438-5|OS9;nc|ENSG00000135506|Q13438-3|OS9;nc|ENSG00000135506|Q13438-2|OS9;nc|ENSG00000135506|Q13438-7|OS9;nc|ENSG00000135506|Q13438-4|OS9;ENSG00000135506|ENST00000315970|OS9 ENST00000549307.5_1_12:58109828-58113249:+|nuORF ENST00000549307.5_1_12:58109828-58113249:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.2452087402344 3 351.245215 1050.71382 NaN NaN NaN NaN NaN NaN NaN 3.9766 1 3.9766 3.4766 4.4766 0 0 0 0 0.99035 1 1809 1809 0 0 1 35324 2876 22510 22579 39631 39631 0.1904882258725138 VKKHKKKR 8 Unmodified _VKKHKKKR_ 0 0 0 ENST00000549307.5_1_12:58109828-58113249:+|nuORF;nc|ENSG00000135506|Q13438-8|OS9;nc|ENSG00000135506|Q13438-6|OS9;nc|ENSG00000135506|Q13438-5|OS9;nc|ENSG00000135506|Q13438-3|OS9;nc|ENSG00000135506|Q13438-2|OS9;nc|ENSG00000135506|Q13438-7|OS9;nc|ENSG00000135506|Q13438-4|OS9;ENSG00000135506|ENST00000315970|OS9 ENST00000549307.5_1_12:58109828-58113249:+|nuORF ENST00000549307.5_1_12:58109828-58113249:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.2456970214844 3 351.245215 1050.71382 NaN NaN NaN NaN NaN NaN NaN 4.3975 1 4.3975 3.8975 4.8975 0 0 0 0 0.99035 1 1997 1997 0 0 1 35325 2876 22510 22579 39632 39632 0.1904882258725138 VKKHKKKR 8 Unmodified _VKKHKKKR_ 0 0 0 ENST00000549307.5_1_12:58109828-58113249:+|nuORF;nc|ENSG00000135506|Q13438-8|OS9;nc|ENSG00000135506|Q13438-6|OS9;nc|ENSG00000135506|Q13438-5|OS9;nc|ENSG00000135506|Q13438-3|OS9;nc|ENSG00000135506|Q13438-2|OS9;nc|ENSG00000135506|Q13438-7|OS9;nc|ENSG00000135506|Q13438-4|OS9;ENSG00000135506|ENST00000315970|OS9 ENST00000549307.5_1_12:58109828-58113249:+|nuORF ENST00000549307.5_1_12:58109828-58113249:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.2454833984375 3 351.245215 1050.71382 NaN NaN NaN NaN NaN NaN NaN 4.7881 1 4.7881 4.2881 5.2881 0 0 0 0 0.99035 1 2174 2174 0 0 1 35326 2876 22510 22579 39633 39633 0.1904882258725138 VKKHKKKR 8 Unmodified _VKKHKKKR_ 0 0 0 ENST00000549307.5_1_12:58109828-58113249:+|nuORF;nc|ENSG00000135506|Q13438-8|OS9;nc|ENSG00000135506|Q13438-6|OS9;nc|ENSG00000135506|Q13438-5|OS9;nc|ENSG00000135506|Q13438-3|OS9;nc|ENSG00000135506|Q13438-2|OS9;nc|ENSG00000135506|Q13438-7|OS9;nc|ENSG00000135506|Q13438-4|OS9;ENSG00000135506|ENST00000315970|OS9 ENST00000549307.5_1_12:58109828-58113249:+|nuORF ENST00000549307.5_1_12:58109828-58113249:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.9153137207031 3 351.245215 1050.71382 NaN NaN NaN NaN NaN NaN NaN 2.3862 1 2.7727 2.2727 3.2727 0.38641 0 0 0 0.99035 1 1085 1085 0 0 1 35327 2876 22510 22579 39634 39634 0.1904882258725138 VKKHKKKR 8 Unmodified _VKKHKKKR_ 0 0 0 ENST00000549307.5_1_12:58109828-58113249:+|nuORF;nc|ENSG00000135506|Q13438-8|OS9;nc|ENSG00000135506|Q13438-6|OS9;nc|ENSG00000135506|Q13438-5|OS9;nc|ENSG00000135506|Q13438-3|OS9;nc|ENSG00000135506|Q13438-2|OS9;nc|ENSG00000135506|Q13438-7|OS9;nc|ENSG00000135506|Q13438-4|OS9;ENSG00000135506|ENST00000315970|OS9 ENST00000549307.5_1_12:58109828-58113249:+|nuORF ENST00000549307.5_1_12:58109828-58113249:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.363037109375 2 526.364185 1050.71382 NaN NaN NaN NaN NaN NaN NaN 29.305 1 29.565 29.065 30.065 0.2602 0 0 0 0.99035 1 13335 13335 0 0 1 35328 2876 22510 22579 39635 39635 0.1904882258725138 VKKHKKKR 8 Unmodified _VKKHKKKR_ 0 0 0 ENST00000549307.5_1_12:58109828-58113249:+|nuORF;nc|ENSG00000135506|Q13438-8|OS9;nc|ENSG00000135506|Q13438-6|OS9;nc|ENSG00000135506|Q13438-5|OS9;nc|ENSG00000135506|Q13438-3|OS9;nc|ENSG00000135506|Q13438-2|OS9;nc|ENSG00000135506|Q13438-7|OS9;nc|ENSG00000135506|Q13438-4|OS9;ENSG00000135506|ENST00000315970|OS9 ENST00000549307.5_1_12:58109828-58113249:+|nuORF ENST00000549307.5_1_12:58109828-58113249:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.363037109375 2 526.364185 1050.71382 NaN NaN NaN NaN NaN NaN NaN 29.915 1 30.173 29.673 30.673 0.25804 0 0 0 0.99035 1 13619 13619 0 0 1 35329 2876 22510 22579 39636 39636 0.1904882258725138 VKKHKKKR 8 Unmodified _VKKHKKKR_ 0 0 0 ENST00000549307.5_1_12:58109828-58113249:+|nuORF;nc|ENSG00000135506|Q13438-8|OS9;nc|ENSG00000135506|Q13438-6|OS9;nc|ENSG00000135506|Q13438-5|OS9;nc|ENSG00000135506|Q13438-3|OS9;nc|ENSG00000135506|Q13438-2|OS9;nc|ENSG00000135506|Q13438-7|OS9;nc|ENSG00000135506|Q13438-4|OS9;ENSG00000135506|ENST00000315970|OS9 ENST00000549307.5_1_12:58109828-58113249:+|nuORF ENST00000549307.5_1_12:58109828-58113249:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.3629760742188 2 526.364185 1050.71382 NaN NaN NaN NaN NaN NaN NaN 32.529 1 32.783 32.283 33.283 0.25452 0 0 0 0.99035 1 14814 14814 0 0 1 35330 2876 22510 22579 39637 39637 0.1904882258725138 VKKHKKKR 8 Unmodified _VKKHKKKR_ 0 0 0 ENST00000549307.5_1_12:58109828-58113249:+|nuORF;nc|ENSG00000135506|Q13438-8|OS9;nc|ENSG00000135506|Q13438-6|OS9;nc|ENSG00000135506|Q13438-5|OS9;nc|ENSG00000135506|Q13438-3|OS9;nc|ENSG00000135506|Q13438-2|OS9;nc|ENSG00000135506|Q13438-7|OS9;nc|ENSG00000135506|Q13438-4|OS9;ENSG00000135506|ENST00000315970|OS9 ENST00000549307.5_1_12:58109828-58113249:+|nuORF ENST00000549307.5_1_12:58109828-58113249:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.3629150390625 2 526.364185 1050.71382 NaN NaN NaN NaN NaN NaN NaN 29.518 1 30.136 29.636 30.636 0.61789 0 0 0 0.99035 1 13538 13538 0 0 1 35331 2876 22510 22579 39638 39638 0.1904882258725138 VKKHKKKR 8 Unmodified _VKKHKKKR_ 0 0 0 ENST00000549307.5_1_12:58109828-58113249:+|nuORF;nc|ENSG00000135506|Q13438-8|OS9;nc|ENSG00000135506|Q13438-6|OS9;nc|ENSG00000135506|Q13438-5|OS9;nc|ENSG00000135506|Q13438-3|OS9;nc|ENSG00000135506|Q13438-2|OS9;nc|ENSG00000135506|Q13438-7|OS9;nc|ENSG00000135506|Q13438-4|OS9;ENSG00000135506|ENST00000315970|OS9 ENST00000549307.5_1_12:58109828-58113249:+|nuORF ENST00000549307.5_1_12:58109828-58113249:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.3629150390625 2 526.364185 1050.71382 NaN NaN NaN NaN NaN NaN NaN 29.665 1 30.283 29.783 30.783 0.61789 0 0 0 0.99035 1 13605 13605 0 0 1 35332 2876 22510 22579 39639 39639 0.1904882258725138 VKKHKKKR 8 Unmodified _VKKHKKKR_ 0 0 0 ENST00000549307.5_1_12:58109828-58113249:+|nuORF;nc|ENSG00000135506|Q13438-8|OS9;nc|ENSG00000135506|Q13438-6|OS9;nc|ENSG00000135506|Q13438-5|OS9;nc|ENSG00000135506|Q13438-3|OS9;nc|ENSG00000135506|Q13438-2|OS9;nc|ENSG00000135506|Q13438-7|OS9;nc|ENSG00000135506|Q13438-4|OS9;ENSG00000135506|ENST00000315970|OS9 ENST00000549307.5_1_12:58109828-58113249:+|nuORF ENST00000549307.5_1_12:58109828-58113249:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.3631591796875 2 526.364185 1050.71382 NaN NaN NaN NaN NaN NaN NaN 29.76 1 30.378 29.878 30.878 0.61789 0 0 0 0.99035 1 13647 13647 0 0 1 35333 2876 22510 22579 39640 39640 0.1904882258725138 VKKIFVLVLL 10 Unmodified _VKKIFVLVLL_ 0 0 0 REV__ENSG00000101017|ENST00000372285|CD40 REV__ENSG00000101017|ENST00000372285|CD40 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.3391723632812 2 586.412478 1170.8104 NaN NaN NaN NaN NaN NaN NaN 92.954 1 92.954 92.454 93.454 0 0 0 0 1.002 1 49517 49517 0 0 1 + 35334 10862 22511 22580 39641 39641 0.23182952303841375 VKKKKKEKK 9 Unmodified _VKKKKKEKK_ 0 0 0 REV__ENST00000337672.7_2_11:57471767-57471908:-|nuORF REV__ENST00000337672.7_2_11:57471767-57471908:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1143.7938232421875 1 1143.79359 1142.78631 2.8165 0.0032215 -2.4168 -0.0027643 0.3997 0.00045718 1143.7909329920753 104 0.043648 104 103.97 104.01 0 6 2 3 0 0 0 1.2459 1 57270 57270 0 0 1 2850000 + 35335 15432 22512 22581 39642 39642 0.22063111870147623 VKKKKKEKK 9 Unmodified _VKKKKKEKK_ 0 0 0 REV__ENST00000337672.7_2_11:57471767-57471908:-|nuORF REV__ENST00000337672.7_2_11:57471767-57471908:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1143.79638671875 1 1143.79359 1142.78631 2.2361 0.0025576 -3.0995 -0.0035452 -0.86345 -0.00098761 1143.7907831545317 103.94 0.035904 103.99 103.98 104.01 0.052994 6 3 2 0 0 0 1.2459 1 56310 56310 0 0 1 1054700 + 35336 15432 22512 22581 39643 39643 0.22063111870147623 VKKKKKEKK 9 Unmodified _VKKKKKEKK_ 0 0 0 REV__ENST00000337672.7_2_11:57471767-57471908:-|nuORF REV__ENST00000337672.7_2_11:57471767-57471908:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 1143.79359 1142.78631 2.8165 0.0032215 -2.4168 -0.0027643 0.3997 0.00045718 1143.7909329920753 104 0.043648 104 103.97 104.01 0 -0.092018 0.0008238 NaN 0 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 2850000 + 35337 15432 22512 22581 0.22063111870147623 VKKKKKEKK 9 Unmodified _VKKKKKEKK_ 0 0 0 REV__ENST00000337672.7_2_11:57471767-57471908:-|nuORF REV__ENST00000337672.7_2_11:57471767-57471908:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 1143.79359 1142.78631 2.2361 0.0025576 -3.0995 -0.0035452 -0.86345 -0.00098761 1143.7907831545317 103.94 0.035904 103.99 103.98 104.01 0.052994 -0.10134 4.2906E-05 NaN 0 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1054700 + 35338 15432 22512 22581 0.22063111870147623 VKKKKKEKK 9 Unmodified _VKKKKKEKK_ 0 0 0 REV__ENST00000337672.7_2_11:57471767-57471908:-|nuORF REV__ENST00000337672.7_2_11:57471767-57471908:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 1143.79359 1142.78631 4.0137 0.0045908 -3.2465 -0.0037134 0.76716 0.00087747 1143.7896439710205 103.97 0.047852 104.29 104.26 104.31 0.31863 0.19336 -0.00012524 NaN 0 25 9 3 NaN NaN NaN NaN 0 NaN NaN 0 7548400 + 35339 15432 22512 22581 0.22063111870147623 VKKKKKKKFL 10 Unmodified _VKKKKKKKFL_ 0 0 0 REV__ENST00000527958.5_1_11:117041336-117041564:+|nuORF REV__ENST00000527958.5_1_11:117041336-117041564:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 425.6396179199219 3 425.639342 1273.8962 NaN NaN NaN NaN NaN NaN NaN 9.7598 1 10.055 9.5554 10.555 0.2956 0 0 0 1.002 1 4348 4348 0 0 1 + 35340 17110 22513 22582 39644 39644 0.27020537209341455 VKKKKKKKHK 10 Unmodified _VKKKKKKKHK_ 0 0 0 RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant;ENSG00000187257|ENST00000334955|RSBN1L RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant RSBN1L|p.R379Gfs*9|1|0.31|ENSG00000187257|chr7:77749855-77749855|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 640.3548583984375 2 640.456074 1278.89759 NaN NaN NaN NaN NaN NaN NaN 40.181 1 40.181 39.681 40.681 0 0 0 0 1.0001 1 18235 18235 1.6526 0 1 35341 5611 22514 22583 39645 39645 0.269301712980905 VKKKKKKKK 9 Unmodified _VKKKKKKKK_ 0 0 0 ENST00000565844.1_1_16:19721758-19726357:-|nuORF;ENSG00000103550|ENST00000219837|KNOP1;ENST00000393214.2_1_X:73596212-73596416:-|nuORF;ENST00000263464.7_1_11:102193503-102193566:+|nuORF ENST00000565844.1_1_16:19721758-19726357:-|nuORF;ENST00000393214.2_1_X:73596212-73596416:-|nuORF;ENST00000263464.7_1_11:102193503-102193566:+|nuORF ENST00000565844.1_1_16:19721758-19726357:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.6937255859375 2 571.926618 1141.83868 NaN NaN NaN NaN NaN NaN NaN 14.195 1 14.421 13.921 14.921 0.22622 0 0 0 0.91452 1 6232 6232 0 0 1 35342 1409;7528;6593 22515 22584 39646 39646 0.2734369500376488 VKKKKKKKK 9 Unmodified _VKKKKKKKK_ 0 0 0 ENST00000565844.1_1_16:19721758-19726357:-|nuORF;ENSG00000103550|ENST00000219837|KNOP1;ENST00000393214.2_1_X:73596212-73596416:-|nuORF;ENST00000263464.7_1_11:102193503-102193566:+|nuORF ENST00000565844.1_1_16:19721758-19726357:-|nuORF;ENST00000393214.2_1_X:73596212-73596416:-|nuORF;ENST00000263464.7_1_11:102193503-102193566:+|nuORF ENST00000565844.1_1_16:19721758-19726357:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.7322387695312 2 571.926618 1141.83868 NaN NaN NaN NaN NaN NaN NaN 74.822 1 75.498 74.998 75.998 0.67557 0 0 0 0.91452 1 36175 36175 0 0 1 35343 1409;7528;6593 22515 22584 39647 39647 0.2734369500376488 VKKKKKRGKKK 11 Unmodified _VKKKKKRGKKK_ 0 0 0 ENSG00000055044|ENST00000264279|NOP58 ENSG00000055044|ENST00000264279|NOP58 ENSG00000055044|ENST00000264279|NOP58 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 678.4902954101562 2 678.487905 1354.96126 NaN NaN NaN NaN NaN NaN NaN 89.53 1 89.781 89.281 90.281 0.25137 0 0 0 1.0082 1 41177 41177 0 0 1 35344 613 22516 22585 39648 39648 0.29797531735175653 VKKKKKTKK 9 Unmodified _VKKKKKTKK_ 0 0 0 REV__ENSG00000135040|ENST00000361671|NAA35 REV__ENSG00000135040|ENST00000361671|NAA35 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 558.529296875 2 558.402976 1114.7914 NaN NaN NaN NaN NaN NaN NaN 86.437 1 86.467 85.967 86.967 0.030289 0 0 0 0.91452 1 43496 43496 0 0 1 + 35345 11993 22517 22586 39649 39649 0.23859415732772504 VKKKLFPLLKI 11 Unmodified _VKKKLFPLLKI_ 0 0 0 REV__nc|ENSG00000105792|A5D8W1-4|CFAP69 REV__nc|ENSG00000105792|A5D8W1-4|CFAP69 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.9655151367188 2 663.965409 1325.91626 NaN NaN NaN NaN NaN NaN NaN 54.044 1 54.308 53.808 54.808 0.26462 0 0 0 1.0082 1 24713 24713 0 0 1 + 35346 17888 22518 22587 39650 39650 0.26634288149307395 VKKLKLLLK 9 Unmodified _VKKLKLLLK_ 0 0 0 REV__nc|ENSG00000168026|Q8NDW8-6|TTC21A REV__nc|ENSG00000168026|Q8NDW8-6|TTC21A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.907958984375 2 541.90482 1081.79509 NaN NaN NaN NaN NaN NaN NaN 1.3498 1 1.3498 0.84983 1.8498 0 0 0 0 0.91452 1 618 618 0 0 1 + 35347 13324 22519 22588 39651 39651 0.2574608550664834 VKKLKLLLK 9 Unmodified _VKKLKLLLK_ 0 0 0 REV__nc|ENSG00000168026|Q8NDW8-6|TTC21A REV__nc|ENSG00000168026|Q8NDW8-6|TTC21A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.90771484375 2 541.90482 1081.79509 NaN NaN NaN NaN NaN NaN NaN 0.4808 1 0.87584 0.37584 1.3758 0.39503 0 0 0 0.91452 1 222 222 0 0 1 + 35348 13324 22519 22588 39652 39652 0.2574608550664834 VKKLLIKYK 9 Unmodified _VKKLLIKYK_ 0 0 0 REV__L1PB1_dup3131|chr4:69117282-69117596:+|1.59905624223008|0.0293046000434249|5.77|526.0|1|1|sense REV__L1PB1_dup3131|chr4:69117282-69117596:+|1.59905624223008|0.0293046000434249|5.77|526.0|1|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.8920288085938 2 566.894452 1131.77435 NaN NaN NaN NaN NaN NaN NaN 55.225 1 56.012 55.512 56.512 0.78711 0 0 0 0.91452 1 25209 25209 0 0 1 + 35349 17804 22520 22589 39653 39653 0.21373495126954367 VKKLRHVKKL 10 Unmodified _VKKLRHVKKL_ 0 0 0 Harlequin-int_dup274|chr7:135172831-135173811:+|1.6690129096142616|0.3270592348791503|2.35|542.0|19|2|sense Harlequin-int_dup274|chr7:135172831-135173811:+|1.6690129096142616|0.3270592348791503|2.35|542.0|19|2|sense Harlequin-int_dup274|chr7:135172831-135173811:+|1.6690129096142616|0.3270592348791503|2.35|542.0|19|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 624.8526611328125 2 624.934974 1247.8554 NaN NaN NaN NaN NaN NaN NaN 57.29 1 58.059 57.559 58.559 0.76861 0 0 0 1.0015 1 26222 26222 0.40072 0 1 35350 9380 22521 22590 39654 39654 0.2413819588973638 VKKLVPPLLAV 11 Unmodified _VKKLVPPLLAV_ 0 0 0 REV__ENSG00000079691|ENST00000329474|CARMIL1 REV__ENSG00000079691|ENST00000329474|CARMIL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.976318359375 2 588.907559 1175.80057 NaN NaN NaN NaN NaN NaN NaN 94.474 1 95.091 94.591 95.591 0.61736 0 0 0 1.0082 1 43449 43449 0 0 1 + 35351 10585 22522 22591 39655 39655 0.2196976429845563 VKKQTVVA 8 Unmodified _VKKQTVVA_ 0 0 0 nc|ENSG00000108370|O75916-3|RGS9;ENST00000581175.5_1_17:63133658-63206777:+|nuORF;nc|ENSG00000108370|O75916-5|RGS9 nc|ENSG00000108370|O75916-3|RGS9 nc|ENSG00000108370|O75916-3|RGS9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.7825927734375 2 436.781828 871.549102 2.4532 0.0010715 -0.9187 -0.00040127 1.5345 0.00067023 436.7814007074548 54.345 0.13236 55.14 55.061 55.193 0.79552 10 7 2 0 0 0 0.7441 1 24791 24791 2.3027 0 1 181400 35352 9150 22523 22592 39656 39656 0.10818965656801538 VKKQTVVA 8 Unmodified _VKKQTVVA_ 0 0 0 nc|ENSG00000108370|O75916-3|RGS9;ENST00000581175.5_1_17:63133658-63206777:+|nuORF;nc|ENSG00000108370|O75916-5|RGS9 nc|ENSG00000108370|O75916-3|RGS9 nc|ENSG00000108370|O75916-3|RGS9 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 436.781828 871.549102 2.6357 0.0011512 -0.61225 -0.00026742 2.0235 0.00088381 436.7813340779489 54.59 0.11248 54.855 54.798 54.911 0.26543 -0.14257 0.00010337 NaN 2.3027 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 234710 35353 9150 22523 22592 0.10818965656801538 VKKREKKRKKK 11 Unmodified _VKKREKKRKKK_ 0 0 0 REV__ENST00000535284.1_1_16:57095655-57095901:+|nuORF REV__ENST00000535284.1_1_16:57095655-57095901:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 728.498779296875 2 728.501544 1454.98853 NaN NaN NaN NaN NaN NaN NaN 75.44 1 76.104 75.604 76.604 0.6644 0 0 0 1.0082 1 34755 34755 0 0 1 + 35354 17173 22524 22593 39657 39657 0.2792401527556194 VKKRFVIFLVV 11 Unmodified _VKKRFVIFLVV_ 0 0 0 REV__ENSG00000165323|ENST00000525166|FAT3 REV__ENSG00000165323|ENST00000525166|FAT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 337.7281799316406 4 337.72733 1346.88021 2.2271 0.00075214 0.69772 0.00023564 2.9248 0.00098778 337.7275927167785 31.967 0.13533 32.755 32.679 32.815 0.78795 19 12 2 0 0 0 0.91459 1 14463 14463 0.094841 0.094841 1 1526800 + 35355 13153 22525 22594 39658 39658 0.22064830972431082 VKKRLLRKLN 10 Unmodified _VKKRLLRKLN_ 0 0 0 REV__ENST00000361908.7_1_3:193374935-193376676:+|nuORF REV__ENST00000361908.7_1_3:193374935-193376676:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.4383544921875 2 634.437881 1266.86121 NaN NaN NaN NaN NaN NaN NaN 103.28 1 103.28 102.78 103.78 0 0 0 0 1.002 1 56937 56937 0 0 1 + 35356 15633 22526 22595 39659 39659 0.2384529440141705 VKKRNKGRE 9 Unmodified _VKKRNKGRE_ 0 0 0 REV__ENSG00000182885|ENST00000333493|ADGRG3 REV__ENSG00000182885|ENST00000333493|ADGRG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 372.2205810546875 3 372.231634 1113.67307 NaN NaN NaN NaN NaN NaN NaN 45.56 1 45.56 45.06 46.06 0 0 0 0 0.8974 1 20842 20842 4.1895 0 1 + 35357 13910 22527 22596 39660 39660 0.12078436476963361 VKKRRKKKK 9 Unmodified _VKKRRKKKK_ 0 0 0 REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF REV__ENST00000475181.1_1_3:112359734-112359896:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.29144287109375 3 400.290936 1197.85098 NaN NaN NaN NaN NaN NaN NaN 76.908 1 77.164 76.664 77.664 0.25533 0 0 0 0.91452 1 35414 35414 0 0 1 + 35358 16641 22528 22597 39661 39661 0.2599673146680743 VKKRRRRKEKR 11 Unmodified _VKKRRRRKEKR_ 0 0 0 REV__ENST00000480732.2_1_1:78407858-78408185:+|nuORF REV__ENST00000480732.2_1_1:78407858-78408185:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.0093383789062 3 514.009603 1539.00698 NaN NaN NaN NaN NaN NaN NaN 33.12 1 33.12 32.62 33.62 0 0 0 0 1.0082 1 15001 15001 0 0 1 + 35359 16694 22529 22598 39662 39662 0.25903569970114404 VKKRWWRLKER 11 Unmodified _VKKRWWRLKER_ 0 0 0 ENST00000274376.10_1_5:86563790-86563910:+|nuORF ENST00000274376.10_1_5:86563790-86563910:+|nuORF ENST00000274376.10_1_5:86563790-86563910:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.9906616210938 3 528.991438 1583.95248 NaN NaN NaN NaN NaN NaN NaN 84.212 1 84.212 83.712 84.712 0 0 0 0 1.0082 1 42586 42586 0.08335 0.08335 1 35360 6667 22530 22599 39663 39663 0.18386558098677597 VKKRWWRLKER 11 Unmodified _VKKRWWRLKER_ 0 0 0 ENST00000274376.10_1_5:86563790-86563910:+|nuORF ENST00000274376.10_1_5:86563790-86563910:+|nuORF ENST00000274376.10_1_5:86563790-86563910:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.9923706054688 3 528.991438 1583.95248 NaN NaN NaN NaN NaN NaN NaN 92.832 1 92.832 92.332 93.332 0 0 0 0 1.0082 1 49424 49424 0.073264 0.073264 1 35361 6667 22530 22599 39664 39664 0.18386558098677597 VKKWLVNI 8 Unmodified _VKKWLVNI_ 0 0 0 nc|ENSG00000124749|Q96P44-3|COL21A1;ENSG00000124749|ENST00000244728|COL21A1 nc|ENSG00000124749|Q96P44-3|COL21A1 nc|ENSG00000124749|Q96P44-3|COL21A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.3199157714844 2 500.32112 998.627687 NaN NaN NaN NaN NaN NaN NaN 59.468 1 60.217 59.717 60.717 0.74927 0 0 0 0.99035 1 27324 27324 2.5775 0 1 35362 2376 22531 22600 39665 39665 0.1283181796189865 VKLALPVL 8 Unmodified _VKLALPVL_ 0 0 0 REV__ENST00000492084.5_1_6:31654991-31670409:-|nuORF REV__ENST00000492084.5_1_6:31654991-31670409:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 852.58984375 1 852.591702 851.584425 4.1578 0.0035449 -3.1996 -0.002728 0.95816 0.00081692 852.5886832063657 103.61 0.060638 104.21 104.17 104.23 0.59822 8 5 2 0 0 0 0.7471 1 47934 47934 0 0 1 250030 + 35363 14417 22532 22601 39666 39666 0.15269628184591966 VKLEPDLVL 9 Unmodified _VKLEPDLVL_ 0 0 0 nc|ENSG00000134668|Q6ZMY3-4|SPOCD1 nc|ENSG00000134668|Q6ZMY3-4|SPOCD1 nc|ENSG00000134668|Q6ZMY3-4|SPOCD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.5478210449219 3 342.546226 1024.61685 NaN NaN NaN NaN NaN NaN NaN 57.187 1 57.956 57.456 58.456 0.76861 0 0 0 0.906 1 26170 26170 2.086 0.43339 1 35364 9652 22533 22602 39667 39667 0.1055237079692688 VKLGPLVLLV 10 Unmodified _VKLGPLVLLV_ 0 0 0 REV__ENST00000225964.9_1_17:48265286-48266811:-|nuORF REV__ENST00000225964.9_1_17:48265286-48266811:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.9146728515625 3 350.914361 1049.72125 NaN NaN NaN NaN NaN NaN NaN 4.1568 1 4.1568 3.6568 4.6568 0 0 0 0 1.002 1 1890 1890 0 0 1 + 35365 14837 22534 22603 39668 39668 0.19838117344306738 VKLGPLVLLV 10 Unmodified _VKLGPLVLLV_ 0 0 0 REV__ENST00000225964.9_1_17:48265286-48266811:-|nuORF REV__ENST00000225964.9_1_17:48265286-48266811:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.9152526855469 3 350.914361 1049.72125 NaN NaN NaN NaN NaN NaN NaN 4.2581 1 4.2581 3.7581 4.7581 0 0 0 0 1.002 1 1936 1936 0 0 1 + 35366 14837 22534 22603 39669 39669 0.19838117344306738 VKLGPLVLLV 10 Unmodified _VKLGPLVLLV_ 0 0 0 REV__ENST00000225964.9_1_17:48265286-48266811:-|nuORF REV__ENST00000225964.9_1_17:48265286-48266811:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.9150390625 3 350.914361 1049.72125 NaN NaN NaN NaN NaN NaN NaN 4.5285 1 4.5285 4.0285 5.0285 0 0 0 0 1.002 1 2057 2057 0 0 1 + 35367 14837 22534 22603 39670 39670 0.19838117344306738 VKLGPLVLLV 10 Unmodified _VKLGPLVLLV_ 0 0 0 REV__ENST00000225964.9_1_17:48265286-48266811:-|nuORF REV__ENST00000225964.9_1_17:48265286-48266811:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.9151916503906 3 350.914361 1049.72125 NaN NaN NaN NaN NaN NaN NaN 5.2165 1 5.2165 4.7165 5.7165 0 0 0 0 1.002 1 2370 2370 0 0 1 + 35368 14837 22534 22603 39671 39671 0.19838117344306738 VKLIPAVLHL 10 Unmodified _VKLIPAVLHL_ 0 0 0 ENST00000486291.1_1_2:202262833-202263061:-|nuORF;ENST00000332624.7_1_2:202262293-202264107:-|nuORF ENST00000486291.1_1_2:202262833-202263061:-|nuORF ENST00000486291.1_1_2:202262833-202263061:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.9500122070312 2 551.870977 1101.7274 NaN NaN NaN NaN NaN NaN NaN 84.694 1 84.723 84.223 85.223 0.028603 0 0 0 0.99983 1 42309 42309 1.8442 0 1 35369 7005 22535 22604 39672 39672 0.18060635575852757 VKLIVIHLK 9 Unmodified _VKLIVIHLK_ 0 0 0 ENST00000584425.1_1_18:71740698-71749311:-|nuORF;ENST00000578399.5_1_18:71740698-71797950:-|nuORF;nc|ENSG00000141665|Q8NCQ5-2|FBXO15;ENSG00000141665|ENST00000419743|FBXO15 ENST00000584425.1_1_18:71740698-71749311:-|nuORF ENST00000584425.1_1_18:71740698-71749311:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.3756713867188 2 531.87352 1061.73249 2.6472 0.001408 -0.0096579 -5.1368E-06 2.6376 0.0014029 531.8742121340156 89.63 0.038406 89.63 89.602 89.64 0 6 5 2 0 0 0 0.11415 1 46873 46873 0 0 1 5942400 35370 3281 22536 22605 39673 39673 0.20408939438448215 VKLIYVKLFRT 11 Unmodified _VKLIYVKLFRT_ 0 0 0 REV__ENST00000302236.9_1_4:83826058-83827525:+|nuORF REV__ENST00000302236.9_1_4:83826058-83827525:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 690.445556640625 2 690.442298 1378.87004 3.6547 0.0025234 0.84853 0.00058586 4.5033 0.0031092 690.4432818901255 45.165 0.35629 45.432 45.205 45.562 0.26768 27 16 2 0 0 0 0.91328 1 20609 20609 0 0 1 724460 + 35371 15196 22537 22606 39674 39674 0.19576223247190683 VKLKLLHLL 9 Unmodified _VKLKLLHLL_ 0 0 0 REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1077.0877685546875 1 1076.75541 1075.74814 3.4732 0.0037398 1.271 0.0013686 4.7442 0.0051083 1077.7603892461398 32.476 0.077866 32.731 32.685 32.763 0.25452 5 3 2 0 0 0 1.2459 1 14775 14775 0 0 1 430040 + 35372 11619 22538 22607 39675 39675 0.2132922595551463 VKLKLLHLL 9 Unmodified _VKLKLLHLL_ 0 0 0 REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK REV__nc|ENSG00000123572|Q7Z2Y5-2|NRK MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 1076.75541 1075.74814 3.4732 0.0037398 1.271 0.0013686 4.7442 0.0051083 1077.7603892461398 32.476 0.077866 32.731 32.685 32.763 0.25452 0 0 NaN 0 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 430040 + 35373 11619 22538 22607 0.2132922595551463 VKLKQKNL 8 Unmodified _VKLKQKNL_ 0 0 0 nc|ENSG00000103534|Q6UXY8-2|TMC5;ENSG00000103534|ENST00000542583|TMC5;nc|ENSG00000103534|Q6UXY8-4|TMC5;ENST00000567478.5_1_16:19467998-19503571:+|nuORF;nc|ENSG00000103534|Q6UXY8-3|TMC5 nc|ENSG00000103534|Q6UXY8-2|TMC5 nc|ENSG00000103534|Q6UXY8-2|TMC5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 324.2275085449219 3 324.218443 969.633501 NaN NaN NaN NaN NaN NaN NaN 25.197 1 25.96 25.46 26.46 0.76356 0 0 0 0.92256 1 11305 11305 10.824 0 1 35374 1405 22539 22608 39676 39676 0.14746916473552574 VKLLLLLLL 9 Unmodified _VKLLLLLLL_ 0 0 0 REV__ENSG00000170775|ENST00000303921|GPR37 REV__ENSG00000170775|ENST00000303921|GPR37 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.3836059570312 2 519.388471 1036.76239 NaN NaN NaN NaN NaN NaN NaN 66.062 1 66.062 65.562 66.562 0 0 0 0 0.91238 1 31526 31526 0.52476 0 1 + 35375 13451 22540 22609 39677 39677 0.24547878383805255 VKLPFINF 8 Unmodified _VKLPFINF_ 0 0 0 ENSG00000164291|ENST00000380009|ARSK ENSG00000164291|ENST00000380009|ARSK ENSG00000164291|ENST00000380009|ARSK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.2951965332031 2 489.294571 976.574589 NaN NaN NaN NaN NaN NaN NaN 78.97 1 79.221 78.721 79.721 0.25127 0 0 0 0.99035 1 36366 36366 5.7604 0 1 35376 4300 22541 22610 39678 39678 0.08536440179216243 VKLPFWYL 8 Unmodified _VKLPFWYL_ 0 0 0 ENST00000550173.1_2_12:46633588-46662751:-|nuORF REV__ENSG00000223802|ENST00000623882|CERS1 REV__ENSG00000223802|ENST00000623882|CERS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 534.7054443359375 2 533.310221 1064.60589 3.0015 0.0016007 1.6539 0.00088205 4.6554 0.0024828 534.3118397212878 56.932 0.26012 57.196 57.051 57.311 0.26444 19 10 3 0 0 0 0.70146 1 26088 26088 5.7604 1.0044 1 914840 35377 14549 22542 22611 39679 39679 0.07617013213325663 VKLVGGLI 8 Unmodified _VKLVGGLI_ 0 0 0 REV__DOCK7|p.E1876Lfs*12|1|0.03|ENSG00000116641|chr1:62476133-62476134|-/GTGCAATTTTGTTTGAGAAAGA|frameshift_variant REV__DOCK7|p.E1876Lfs*12|1|0.03|ENSG00000116641|chr1:62476133-62476134|-/GTGCAATTTTGTTTGAGAAAGA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.7768859863281 2 399.776014 797.537475 NaN NaN NaN NaN NaN NaN NaN 36.765 1 37.023 36.523 37.523 0.25768 0 0 0 0.93233 1 16746 16746 10.183 0 1 + 35378 10136 22543 22612 39680 39680 0.13060768633476982 VKLVGPLD 8 Unmodified _VKLVGPLD_ 0 0 0 REV__nc|ENSG00000100162|Q9NSP4-3|CENPM REV__nc|ENSG00000100162|Q9NSP4-3|CENPM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 420.7657470703125 2 420.763104 839.511654 NaN NaN NaN NaN NaN NaN NaN 26.488 1 26.488 25.988 26.988 0 0 0 0 0.99035 1 11925 11925 2.0598 0 1 + 35379 17880 22544 22613 39681 39681 0.08547874391183541 VKLVHLLHRMK 11 Unmodified _VKLVHLLHRMK_ 0 0 0 REV__nc|ENSG00000042317|Q9P0W8-3|SPATA7 REV__nc|ENSG00000042317|Q9P0W8-3|SPATA7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 687.4341430664062 2 687.431741 1372.84893 NaN NaN NaN NaN NaN NaN NaN 104.73 1 105.05 104.55 105.55 0.31863 0 0 0 1.0082 1 48343 48343 0 0 1 + 35380 10321 22545 22614 39682 39682 0.17741934666673842 VKLVIFVIW 9 Unmodified _VKLVIFVIW_ 0 0 0 nc|ENSG00000121853|Q92847-2|GHSR;ENSG00000121853|ENST00000241256|GHSR nc|ENSG00000121853|Q92847-2|GHSR nc|ENSG00000121853|Q92847-2|GHSR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.8656005859375 2 558.862621 1115.71069 NaN NaN NaN NaN NaN NaN NaN 58.443 1 58.443 57.943 58.943 0 0 0 0 0.89509 1 26973 26973 4.756 2.6963 1 35381 2244 22546 22615 39683 39683 0.1574613468987991 VKMKFLPV 8 Unmodified _VKMKFLPV_ 0 0 0 nc|ENSG00000140287|P19113-2|HDC;ENSG00000140287|ENST00000267845|HDC;ENST00000559190.5_1_15:50545740-50555509:-|nuORF;ENST00000558761.5_1_15:50545740-50557820:-|nuORF;ENST00000558679.1_1_15:50546296-50557931:-|nuORF nc|ENSG00000140287|P19113-2|HDC nc|ENSG00000140287|P19113-2|HDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.3006896972656 2 481.298799 960.583045 3.3524 0.0016135 0.42672 0.00020538 3.7791 0.0018189 481.29889989274324 98.407 0.096191 99.006 98.931 99.027 0.59885 9 7 2 0 0 0 0.7471 1 45377 45377 0.79363 0.79363 1 1515300 35382 3189 22547 22616 39684 39684 0.10117670824195102 VKMLKKPKFEL 11 Unmodified _VKMLKKPKFEL_ 0 0 0 ENSG00000145425|ENST00000274065|RPS3A;ENST00000472161.1_1_18:57817108-57817555:+|nuORF;ENST00000488297.2_1_5:87678278-87678506:+|nuORF ENSG00000145425|ENST00000274065|RPS3A ENSG00000145425|ENST00000274065|RPS3A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 454.6199951171875 3 454.284348 1359.83121 3.2131 0.0014596 -1.135 -0.00051563 2.078 0.00094402 454.2836365842573 105.49 0.27024 106.09 105.99 106.26 0.59969 28 11 3 0 0 0 0.13295 1 48708 48708 0.094841 0 1 1949000 35383 3467 22548 22617 39685 39685 0.16569174621167804 VKNAQYQVI 9 Unmodified _VKNAQYQVI_ 0 0 0 REV__nc|ENSG00000156194|O14830-2|PPEF2 REV__nc|ENSG00000156194|O14830-2|PPEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.8045043945312 2 531.800749 1061.58694 3.088 0.0016422 1.8142 0.00096477 4.9021 0.002607 531.8018752495818 53.401 0.48669 54.066 53.892 54.379 0.6644 38 24 3 0 0 0 0.12301 1 24484 24484 28.487 1.6032 1 1989000 + 35384 12767 22549 22618 39686 39686 0.058614318515992636 VKNKERRRKRR 11 Unmodified _VKNKERRRKRR_ 0 0 0 REV__ENSG00000140044|ENST00000651602|JDP2 REV__ENSG00000140044|ENST00000651602|JDP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 763.4820556640625 2 763.484748 1524.95494 NaN NaN NaN NaN NaN NaN NaN 63.237 1 63.959 63.459 64.459 0.72236 0 0 0 1.0074 1 29601 29601 1.0715 0 1 + 35385 12228 22550 22619 39687 39687 0.21346406556358488 VKNKPIPALRV 11 Unmodified _VKNKPIPALRV_ 0 0 0 ENSG00000174720|ENST00000344442|LARP7;nc|ENSG00000174720|Q4G0J3-3|LARP7 ENSG00000174720|ENST00000344442|LARP7 ENSG00000174720|ENST00000344442|LARP7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.2733154296875 3 412.271319 1233.79213 NaN NaN NaN NaN NaN NaN NaN 40.19 1 40.457 39.957 40.957 0.26696 0 0 0 1.0048 1 18286 18286 4.4062 2.8139 1 35386 4993 22551 22620 39688 39688 0.184582103818002 VKNKPIPALRV 11 Unmodified _VKNKPIPALRV_ 0 0 0 ENSG00000174720|ENST00000344442|LARP7;nc|ENSG00000174720|Q4G0J3-3|LARP7 ENSG00000174720|ENST00000344442|LARP7 ENSG00000174720|ENST00000344442|LARP7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.2735290527344 3 412.271319 1233.79213 NaN NaN NaN NaN NaN NaN NaN 45.093 1 45.36 44.86 45.86 0.26768 0 0 0 1.0062 1 20611 20611 2.6312 1.3016 1 35387 4993 22551 22620 39689 39689 0.184582103818002 VKNKPRIPTL 10 Unmodified _VKNKPRIPTL_ 0 0 0 ENST00000296679.8_1_5:76785339-76785375:-|nuORF ENST00000296679.8_1_5:76785339-76785375:-|nuORF ENST00000296679.8_1_5:76785339-76785375:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 389.2547302246094 3 389.252036 1164.73428 NaN NaN NaN NaN NaN NaN NaN 41.348 1 42.152 41.652 42.652 0.80351 0 0 0 0.99602 1 18759 18759 5.0475 1.4605 1 35388 6772 22552 22621 39690 39690 0.15849948456411767 VKPALPLLI 9 Unmodified _VKPALPLLI_ 0 0 0 REV__ENST00000511909.5_1_4:122053805-122071269:-|nuORF REV__ENST00000511909.5_1_4:122053805-122071269:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.33563232421875 2 482.333696 962.652839 3.4614 0.0016695 2.9289 0.0014127 6.3903 0.0030822 482.33496077366647 31.939 0.096062 32.193 32.114 32.21 0.25452 7 5 2 0 0 0 1.2459 1 14544 14544 0 0 1 157510 + 35389 16979 22553 22622 39691 39691 0.17001872764478776 VKPEITQLKS 10 Unmodified _VKPEITQLKS_ 0 0 0 REV__ENSG00000115850|ENST00000264162|LCT REV__ENSG00000115850|ENST00000264162|LCT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 572.1543579101562 2 571.842613 1141.67067 NaN NaN NaN NaN NaN NaN NaN 90.992 1 90.992 90.492 91.492 0 0 0 0 0.98985 1 47939 47939 7.1017 0.47135 1 + 35390 11385 22554 22623 39692 39692 0.10550543228669085 VKPRRKHK 8 Unmodified _VKPRRKHK_ 0 0 0 REV__NKTR|p.S1045Dfs*8|1|0.23|ENSG00000114857|chr3:42638836-42638837|-/GA|frameshift_variant REV__NKTR|p.S1045Dfs*8|1|0.23|ENSG00000114857|chr3:42638836-42638837|-/GA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 350.7081298828125 3 350.233198 1047.67777 NaN NaN NaN NaN NaN NaN NaN 51.827 1 52.489 51.989 52.989 0.66198 0 0 0 0.99035 1 23700 23700 0.40072 0 1 + 35391 11335 22555 22624 39693 39693 0.15583365410407168 VKPTQTIAVKE 11 Unmodified _VKPTQTIAVKE_ 0 0 0 ENSG00000178691|ENST00000322652|SUZ12 ENSG00000178691|ENST00000322652|SUZ12 ENSG00000178691|ENST00000322652|SUZ12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.24566650390625 3 405.243206 1212.70779 NaN NaN NaN NaN NaN NaN NaN 80.401 1 80.65 80.15 81.15 0.24947 0 0 0 1.0073 1 37019 37019 1.2148 0.4383 1 35392 5177 22556 22625 39694 39694 0.10994214774405009 VKQKLLIKKK 10 Unmodified _VKQKLLIKKK_ 0 0 0 REV__ENAM|p.S143Yfs*135|1|0.16|ENSG00000132464|chr4:70634525-70634525|C/-|frameshift_variant REV__ENAM|p.S143Yfs*135|1|0.16|ENSG00000132464|chr4:70634525-70634525|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.6071166992188 2 613.439558 1224.86456 NaN NaN NaN NaN NaN NaN NaN 9.6611 1 9.6611 9.1611 10.161 0 0 0 0 1.0015 1 4340 4340 0.40072 0.40072 1 + 35393 10148 22557 22626 39695 39695 0.26112544455395437 VKQKLLIKKK 10 Unmodified _VKQKLLIKKK_ 0 0 0 REV__ENAM|p.S143Yfs*135|1|0.16|ENSG00000132464|chr4:70634525-70634525|C/-|frameshift_variant REV__ENAM|p.S143Yfs*135|1|0.16|ENSG00000132464|chr4:70634525-70634525|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.4408569335938 2 613.439558 1224.86456 NaN NaN NaN NaN NaN NaN NaN 9.5838 1 9.8932 9.3932 10.393 0.30934 0 0 0 1.0015 1 4272 4272 0.40072 0.40072 1 + 35394 10148 22557 22626 39696 39696 0.26112544455395437 VKQRYRLL 8 Unmodified _VKQRYRLL_ 0 0 0 nc|ENSG00000107614|O14717-3|TRDMT1;nc|ENSG00000107614|O14717-2|TRDMT1;ENSG00000107614|ENST00000377799|TRDMT1 nc|ENSG00000107614|O14717-3|TRDMT1 nc|ENSG00000107614|O14717-3|TRDMT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.3328857421875 2 538.340375 1074.6662 NaN NaN NaN NaN NaN NaN NaN 102.41 1 103.01 102.51 103.51 0.59759 0 0 0 0.99035 1 47402 47402 0.69038 0 1 35395 1602 22558 22627 39697 39697 0.13185123596394988 VKRGVHVS 8 Unmodified _VKRGVHVS_ 0 0 0 ENST00000498611.5_1_22:50657979-50682900:-|nuORF;TUBGCP6|p.R1116Gfs*208|1|0.25|ENSG00000128159|chr22:50221013-50221013|T/-|frameshift_variant;nc|ENSG00000128159|Q96RT7-2|TUBGCP6;nc|ENSG00000128159|Q96RT7-3|TUBGCP6;ENSG00000128159|ENST00000248846|TUBGCP6 ENST00000498611.5_1_22:50657979-50682900:-|nuORF ENST00000498611.5_1_22:50657979-50682900:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.27093505859375 2 441.269419 880.524284 NaN NaN NaN NaN NaN NaN NaN 84.09 1 84.338 83.838 84.838 0.24757 0 0 0 0.99035 1 38705 38705 2.3027 0 1 35396 8464 22559 22628 39698 39698 0.07924330574087435 VKRIFSSE 8 Unmodified _VKRIFSSE_ 0 0 0 nc|ENSG00000187627|P0DJD0|RGPD1;ENSG00000187627|ENST00000641458|RGPD1;ENSG00000185304|ENST00000398146|RGPD2;ENSG00000196862|ENST00000408999|RGPD4;ENSG00000153165|ENST00000409886|RGPD3;ENSG00000183054|ENST00000329516|RGPD6;ENSG00000169629|ENST00000302558|RGPD8;ENSG00000015568|ENST00000016946|RGPD5 nc|ENSG00000187627|P0DJD0|RGPD1 nc|ENSG00000187627|P0DJD0|RGPD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.509521484375 3 322.51867 964.53418 NaN NaN NaN NaN NaN NaN NaN 15.849 1 16.155 15.655 16.655 0.306 0 0 0 0.99035 1 7168 7168 1.6526 0.32309 1 35397 440 22560 22629 39699 39699 0.05049473788812975 VKRKKKKKKK 10 Unmodified _VKRKKKKKKK_ 0 0 0 REV__Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|19|1|sense REV__Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|19|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 650.3212890625 2 649.977173 1297.93979 NaN NaN NaN NaN NaN NaN NaN 89.732 1 89.796 89.296 90.296 0.064346 0 0 0 1.002 1 46049 46049 0 0 1 + 35398 17697 22561 22630 39700 39700 0.3027414670646067 VKRKLKLKRRR 11 Unmodified _VKRKLKLKRRR_ 0 0 0 ENST00000502782.5_1_5:34845647-34845701:+|nuORF ENST00000502782.5_1_5:34845647-34845701:+|nuORF ENST00000502782.5_1_5:34845647-34845701:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 741.0233764648438 2 741.022978 1480.0314 NaN NaN NaN NaN NaN NaN NaN 47.848 1 48.111 47.611 48.611 0.26363 0 0 0 1.0082 1 21872 21872 0 0 1 35399 8484 22562 22631 39701 39701 0.31058830123652115 VKRKLLLLLLH 11 Unmodified _VKRKLLLLLLH_ 0 0 0 ENST00000433301.5_1_12:110943436-110952922:+|nuORF ENST00000433301.5_1_12:110943436-110952922:+|nuORF ENST00000433301.5_1_12:110943436-110952922:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 673.2883911132812 2 673.473932 1344.93331 NaN NaN NaN NaN NaN NaN NaN 96.495 1 96.495 95.995 96.995 0 0 0 0 1.0082 1 52241 52241 0 0 1 35400 7871 22563 22632 39702 39702 0.2746420875514559 VKRKPKKRKRI 11 Unmodified _VKRKPKKRKRI_ 0 0 0 REV__ENST00000485756.1_1_13:27830412-27830463:+|nuORF REV__ENST00000485756.1_1_13:27830412-27830463:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 718.9248657226562 2 719.004254 1435.99395 NaN NaN NaN NaN NaN NaN NaN 68.348 1 69.05 68.55 69.55 0.70218 0 0 0 1.0082 1 32581 32581 0 0 1 + 35401 16745 22564 22633 39703 39703 0.293397388580388 VKRKPKKRKRI 11 Unmodified _VKRKPKKRKRI_ 0 0 0 REV__ENST00000485756.1_1_13:27830412-27830463:+|nuORF REV__ENST00000485756.1_1_13:27830412-27830463:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 719.0039672851562 2 719.004254 1435.99395 NaN NaN NaN NaN NaN NaN NaN 103.76 1 103.81 103.31 104.31 0.052994 0 0 0 1.0082 1 56228 56228 0 0 1 + 35402 16745 22564 22633 39704 39704 0.293397388580388 VKRKRIKARVK 11 Unmodified _VKRKRIKARVK_ 0 0 0 REV__ENSG00000196436|ENST00000692376|NPIPB15;REV__ENSG00000198064|ENST00000697092|NPIPB13 REV__ENSG00000196436|ENST00000692376|NPIPB15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 691.54150390625 2 691.483154 1380.95176 NaN NaN NaN NaN NaN NaN NaN 100.7 1 100.76 100.26 101.26 0.059723 0 0 0 1.0082 1 54662 54662 0 0 1 + 35403 14215;14318 22565 22634 39705 39705 0.2765176344964857 VKRKVRVGHKR 11 Unmodified _VKRKVRVGHKR_ 0 0 0 REV__nc|ENSG00000160746|Q9NW15-2|ANO10 REV__nc|ENSG00000160746|Q9NW15-2|ANO10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.9691467285156 3 454.968745 1361.8844 2.7182 0.0012367 -0.92634 -0.00042145 1.7919 0.00081526 454.96830478348505 38.277 0.58766 38.541 37.982 38.569 0.26408 30 18 2 0 0 0 0.91459 3 17254 17254;17321;17431 0.094841 0.094841 1 507990 + 35404 12890 22566 22635 39706;39707;39708 39706 0.2179373323872369 VKRKVRVGHKR 11 Unmodified _VKRKVRVGHKR_ 0 0 0 REV__nc|ENSG00000160746|Q9NW15-2|ANO10 REV__nc|ENSG00000160746|Q9NW15-2|ANO10 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 454.78289794921875 3 454.968745 1361.8844 2.7182 0.0012367 -0.92634 -0.00042145 1.7919 0.00081526 454.96830478348505 38.277 0.58766 38.541 37.982 38.569 0.26408 30 18 2 0 0 0 0.13295 1 17207 17207 0.094841 0 1 507990 + 35405 12890 22566 22635 39709 39709 0.2179373323872369 VKRKVRVGHKR 11 Unmodified _VKRKVRVGHKR_ 0 0 0 REV__nc|ENSG00000160746|Q9NW15-2|ANO10 REV__nc|ENSG00000160746|Q9NW15-2|ANO10 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 454.968745 1361.8844 2.83 0.0012876 -1.4593 -0.00066393 1.3707 0.00062365 454.96800112708087 38.705 0.39869 38.705 38.563 38.962 0 0.19792 -0.00037044 NaN 0.094841 29 17 2 NaN NaN NaN NaN 0 NaN NaN 0 380790 + 35406 12890 22566 22635 0.2179373323872369 VKRKVRVGHKR 11 Unmodified _VKRKVRVGHKR_ 0 0 0 REV__nc|ENSG00000160746|Q9NW15-2|ANO10 REV__nc|ENSG00000160746|Q9NW15-2|ANO10 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 454.968745 1361.8844 2.8991 0.001319 -0.89511 -0.00040725 2.004 0.00091174 454.9686216808491 37.641 0.1204 38.275 38.184 38.304 0.63388 -0.23211 0.00039962 NaN 0.094841 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 114120 + 35407 12890 22566 22635 0.2179373323872369 VKRLFKIQ 8 Unmodified _VKRLFKIQ_ 0 0 0 nc|ENSG00000159069|Q969U6-2|FBXW5;ENSG00000159069|ENST00000325285|FBXW5;ENST00000459905.5_1_9:139835382-139837220:-|nuORF;ENST00000483559.5_1_9:139835382-139837095:-|nuORF nc|ENSG00000159069|Q969U6-2|FBXW5 nc|ENSG00000159069|Q969U6-2|FBXW5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.3386840820312 2 516.339844 1030.66514 NaN NaN NaN NaN NaN NaN NaN 103.09 1 103.69 103.19 104.19 0.59821 0 0 0 0.99035 1 47702 47702 0.69038 0 1 35408 4007 22567 22636 39710 39710 0.1510290922749391 VKRLLKKQVVR 11 Unmodified _VKRLLKKQVVR_ 0 0 0 ENSG00000175931|ENST00000319380|UBE2O ENSG00000175931|ENST00000319380|UBE2O ENSG00000175931|ENST00000319380|UBE2O MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.3181457519531 3 456.317151 1365.92962 NaN NaN NaN NaN NaN NaN NaN 102.98 1 103.58 103.08 104.08 0.59821 0 0 0 1.0082 1 47655 47655 0 0 1 35409 5055 22568 22637 39711 39711 0.2612953898121759 VKRQKRRRRRR 11 Unmodified _VKRQKRRRRRR_ 0 0 0 REV__TSPYL2|p.D585Gfs*41|1|0.04|ENSG00000184205|chrX:53086145-53086146|-/GTTTC|frameshift_variant REV__TSPYL2|p.D585Gfs*41|1|0.04|ENSG00000184205|chrX:53086145-53086146|-/GTTTC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 798.0244140625 2 798.024906 1594.03526 NaN NaN NaN NaN NaN NaN NaN 74.977 1 75.641 75.141 76.141 0.6635 0 0 0 1.0082 1 36279 36279 0 0 1 + 35410 13961 22569 22638 39712 39712 0.26200312670061976 VKRQPKLLKPK 11 Unmodified _VKRQPKLLKPK_ 0 0 0 REV__ENSG00000165633|ENST00000332853|VSTM4 REV__ENSG00000165633|ENST00000332853|VSTM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 667.9542236328125 2 667.953364 1333.89217 NaN NaN NaN NaN NaN NaN NaN 30.927 1 30.927 30.427 31.427 0 0 0 0 1.0079 1 13981 13981 1.1933 1.1933 1 + 35411 13173 22570 22639 39713 39713 0.23858447715633702 VKRQPKLLKPK 11 Unmodified _VKRQPKLLKPK_ 0 0 0 REV__ENSG00000165633|ENST00000332853|VSTM4 REV__ENSG00000165633|ENST00000332853|VSTM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 667.9533081054688 2 667.953364 1333.89217 NaN NaN NaN NaN NaN NaN NaN 32.841 1 33.095 32.595 33.595 0.25389 0 0 0 1.0079 1 14956 14956 1.1933 1.1933 1 + 35412 13173 22570 22639 39714 39714 0.23858447715633702 VKRRLFRTKKV 11 Unmodified _VKRRLFRTKKV_ 0 0 0 REV__ENSG00000175756|ENST00000338338|AURKAIP1 REV__ENSG00000175756|ENST00000338338|AURKAIP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 715.7721557617188 2 715.975162 1429.93577 NaN NaN NaN NaN NaN NaN NaN 76.472 1 76.472 75.972 76.972 0 0 0 0 1.0072 1 37479 37479 1.3295 0 1 + 35413 13678 22571 22640 39715 39715 0.2380005721274756 VKRRMGPRIV 10 Unmodified _VKRRMGPRIV_ 0 0 0 REV__nc|ENSG00000132002|P25685-2|DNAJB1 REV__nc|ENSG00000132002|P25685-2|DNAJB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 303.6942443847656 4 303.693393 1210.74446 1.8374 0.000558 1.0896 0.00033091 2.927 0.00088891 303.69366025598435 33.161 0.56832 33.161 32.727 33.295 0 101 39 3 0 0 0 0.84738 3 14960 14960;15004;15065 6.1918 4.2855 1 2303100 + 35414 11873 22572 22641 39716;39717;39718 39716 0.14752232909995655 VKRRMGPRIV 10 Unmodified _VKRRMGPRIV_ 0 0 0 REV__nc|ENSG00000132002|P25685-2|DNAJB1 REV__nc|ENSG00000132002|P25685-2|DNAJB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.694091796875 4 303.693393 1210.74446 2.1716 0.00065949 0.43798 0.00013301 2.6095 0.0007925 303.6935110981411 31.787 0.46408 32.575 32.469 32.933 0.78795 100 50 3 0 0 0 0.90216 2 14414 14414;14462 3.5871 1.0886 1 2318300 + 35415 11873 22572 22641 39719;39720 39719 0.14752232909995655 VKRRMGPRIV 10 Unmodified _VKRRMGPRIV_ 0 0 0 REV__nc|ENSG00000132002|P25685-2|DNAJB1 REV__nc|ENSG00000132002|P25685-2|DNAJB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.6941223144531 4 303.693393 1210.74446 2.433 0.00073888 0.7362 0.00022358 3.1692 0.00096246 303.69356243256715 32.595 0.58846 32.849 32.668 33.256 0.25452 78 27 4 0 0 0 0.90216 1 14858 14858 3.5871 1.0886 1 3864400 + 35416 11873 22572 22641 39721 39721 0.14752232909995655 VKRRMGPRIV 10 Unmodified _VKRRMGPRIV_ 0 0 0 REV__nc|ENSG00000132002|P25685-2|DNAJB1 REV__nc|ENSG00000132002|P25685-2|DNAJB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.5898742675781 3 404.588765 1210.74446 3.2115 0.0012993 0.26871 0.00010872 3.4802 0.0014081 404.5887679947137 32.592 0.55131 32.847 32.593 33.145 0.25452 62 27 3 0 0 0 0.94134 1 14944 14944 0.62683 0.62683 1 2022100 + 35417 11873 22572 22641 39722 39722 0.14752232909995655 VKRRRRWYFRV 11 Unmodified _VKRRRRWYFRV_ 0 0 0 ENST00000181839.8_1_7:39989715-39990237:+|nuORF ENST00000181839.8_1_7:39989715-39990237:+|nuORF ENST00000181839.8_1_7:39989715-39990237:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 811.4869384765625 2 811.48676 1620.95897 NaN NaN NaN NaN NaN NaN NaN 83.306 1 83.553 83.053 84.053 0.24722 0 0 0 1.0082 1 38347 38347 0 0 1 35418 6385 22573 22642 39723 39723 0.17332496050084956 VKRRRRWYFRV 11 Unmodified _VKRRRRWYFRV_ 0 0 0 ENST00000181839.8_1_7:39989715-39990237:+|nuORF ENST00000181839.8_1_7:39989715-39990237:+|nuORF ENST00000181839.8_1_7:39989715-39990237:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 811.491943359375 2 811.48676 1620.95897 NaN NaN NaN NaN NaN NaN NaN 95.678 1 95.945 95.445 96.445 0.2675 0 0 0 1.0082 1 43962 43962 0 0 1 35419 6385 22573 22642 39724 39724 0.17332496050084956 VKRSLLHI 8 Unmodified _VKRSLLHI_ 0 0 0 nc|ENSG00000085382|Q8IYU2-4|HACE1;ENSG00000085382|ENST00000262903|HACE1 nc|ENSG00000085382|Q8IYU2-4|HACE1 nc|ENSG00000085382|Q8IYU2-4|HACE1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.1944580078125 3 322.546671 964.618185 2.2419 0.00072311 -0.18228 -5.8794E-05 2.0596 0.00066431 322.54670821359673 27.603 0.19533 27.866 27.775 27.97 0.26245 33 13 3 0 0 0 0.1432 1 12545 12545 0.35063 0 1 1009200 35420 966 22574 22643 39725 39725 0.13446049676360872 VKRSLLHI 8 Unmodified _VKRSLLHI_ 0 0 0 nc|ENSG00000085382|Q8IYU2-4|HACE1;ENSG00000085382|ENST00000262903|HACE1 nc|ENSG00000085382|Q8IYU2-4|HACE1 nc|ENSG00000085382|Q8IYU2-4|HACE1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 322.546671 964.618185 2.4057 0.00077596 0.24447 7.8853E-05 2.6502 0.00085481 322.5468012964049 28.049 0.2124 28.049 27.922 28.134 0 0.16513 0.00027126 NaN 0.35063 27 18 2 NaN NaN NaN NaN 0 NaN NaN 0 337340 35421 966 22574 22643 0.13446049676360872 VKRVRLVI 8 Unmodified _VKRVRLVI_ 0 0 0 REV__nc|ENSG00000164049|Q6X9E4-2|FBXW12 REV__nc|ENSG00000164049|Q6X9E4-2|FBXW12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 982.6939697265625 1 982.688396 981.681119 3.9401 0.0038719 -0.30338 -0.00029813 3.6367 0.0035738 982.6882602681947 103.7 0.14955 104.3 104.2 104.35 0.59821 38 23 2 0 0 0 0.7471 2 47937 47937;47972 0 0 1 520780 + 35422 13053 22575 22644 39726;39727 39726 0.1895461546439492 VKRVRLVI 8 Unmodified _VKRVRLVI_ 0 0 0 REV__nc|ENSG00000164049|Q6X9E4-2|FBXW12 REV__nc|ENSG00000164049|Q6X9E4-2|FBXW12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.8492431640625 2 491.847836 981.681119 3.4159 0.0016801 -0.10793 -5.3083E-05 3.3079 0.001627 491.8477102334893 103.69 0.17799 104.29 104.17 104.35 0.59822 48 25 2 0 0 0 0.7471 1 47941 47941 0 0 1 520380 + 35423 13053 22575 22644 39728 39728 0.1895461546439492 VKRWFLLLAL 10 Unmodified _VKRWFLLLAL_ 0 0 0 ENSG00000171517|ENST00000370611|LPAR3 ENSG00000171517|ENST00000370611|LPAR3 ENSG00000171517|ENST00000370611|LPAR3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 420.2747802734375 3 420.27266 1257.79615 3.7703 0.0015845 0.44244 0.00018594 4.2127 0.0017705 420.2728157472974 108.92 1.604 109.23 108.56 110.16 0.31168 127 67 2 0 0 0 0.94443 6 50133 50133;50183;50235;50351;50448;50534 0 0 1 195760 35424 4811 22576 22645 39729;39730;39731;39732;39733;39734 39729 0.17756299875577497 VKRWRLRWDPH 11 Unmodified _VKRWRLRWDPH_ 0 0 0 REV__ENST00000548477.5_1_12:113772796-113772928:-|nuORF REV__ENST00000548477.5_1_12:113772796-113772928:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 774.93798828125 2 774.936568 1547.85858 NaN NaN NaN NaN NaN NaN NaN 65.335 1 66.044 65.544 66.544 0.70891 0 0 0 1.008 1 30892 30892 0.30703 0 1 + 35425 17261 22577 22646 39735 39735 0.10656838996442275 VKSHRGQL 8 Unmodified _VKSHRGQL_ 0 0 0 REV__ENST00000473478.5_1_2:148779198-148811970:+|nuORF REV__ENST00000473478.5_1_2:148779198-148811970:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 308.8514404296875 3 308.850643 923.530098 1.9502 0.00060233 -0.20144 -6.2216E-05 1.7488 0.00054012 308.85065389142824 14.227 0.21978 14.227 14.094 14.314 0 36 17 3 0 0 0 0.64827 1 6256 6256 10.074 0 1 1901800 + 35426 16628 22578 22647 39736 39736 0.0652742908575874 VKSLLERV 8 Unmodified _VKSLLERV_ 0 0 0 REV__ENSG00000102794|ENST00000377462|ACOD1 REV__ENSG00000102794|ENST00000377462|ACOD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 315.2047119140625 3 315.202682 942.586216 NaN NaN NaN NaN NaN NaN NaN 25.114 1 25.114 24.614 25.614 0 0 0 0 0.99035 1 11276 11276 0.35063 0 1 + 35427 10941 22579 22648 39737 39737 0.11262637202571568 VKSPVQVI 8 Unmodified _VKSPVQVI_ 0 0 0 nc|ENSG00000188807|Q5SNT2-2|TMEM201;ENSG00000188807|ENST00000340381|TMEM201 nc|ENSG00000188807|Q5SNT2-2|TMEM201 nc|ENSG00000188807|Q5SNT2-2|TMEM201 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.27801513671875 2 435.276378 868.538203 3.1236 0.0013596 1.9535 0.00085029 5.0771 0.0022099 435.277456084342 36.735 0.49018 37.365 37.191 37.681 0.62999 41 20 3 0 0 0 0.60592 1 16864 16864 13.508 1.8676 1 368190 35428 5684 22580 22649 39738 39738 0.09867563282523406 VKSRIHALR 9 Unmodified _VKSRIHALR_ 0 0 0 nc|ENSG00000133121|Q9Y3M8-3|STARD13;nc|ENSG00000133121|Q9Y3M8-4|STARD13;nc|ENSG00000133121|Q9Y3M8-2|STARD13;ENSG00000133121|ENST00000336934|STARD13 nc|ENSG00000133121|Q9Y3M8-3|STARD13 nc|ENSG00000133121|Q9Y3M8-3|STARD13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 360.57623291015625 3 360.564725 1078.67235 NaN NaN NaN NaN NaN NaN NaN 36.41 1 36.41 35.91 36.91 0 0 0 0 0.90431 1 16526 16526 2.4985 0 1 35429 2752 22581 22650 39739 39739 0.13615641827891523 VKTKYGQIIFR 11 Unmodified _VKTKYGQIIFR_ 0 0 0 REV__nc|ENSG00000211778|A0A0B4J268|TRAV4 REV__nc|ENSG00000211778|A0A0B4J268|TRAV4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 676.90673828125 2 676.906079 1351.79761 NaN NaN NaN NaN NaN NaN NaN 85.785 1 86.455 85.955 86.955 0.67061 0 0 0 1.0072 1 39502 39502 1.3295 0 1 + 35430 18124 22582 22651 39740 39740 0.13577889173643598 VKTLRASKT 9 Unmodified _VKTLRASKT_ 0 0 0 ENST00000388833.7_1_16:67841261-67854833:+|nuORF ENST00000388833.7_1_16:67841261-67854833:+|nuORF ENST00000388833.7_1_16:67841261-67854833:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.1137390136719 3 335.213469 1002.61858 2.4371 0.00081694 -0.63318 -0.00021225 1.8039 0.00060469 335.54780827120516 61.277 0.8987 61.529 61.08 61.979 0.25245 56 41 2 0 0 0 0.11402 1 28190 28190 0.96228 0 1 826240 35431 7499 22583 22652 39741 39741 0.11737424605553315 VKTLRRAL 8 Unmodified _VKTLRRAL_ 0 0 0 REV__nc|ENSG00000138119|Q9NZM1-2|MYOF REV__nc|ENSG00000138119|Q9NZM1-2|MYOF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.8226623535156 2 478.821818 955.629084 3.8847 0.0018601 -0.014047 -6.726E-06 3.8707 0.0018534 478.82220532138473 103.01 0.2774 103.33 103.15 103.42 0.31863 14 10 2 0 0 0 0.7471 1 47638 47638 0 0 1 286060 + 35432 12150 22584 22653 39742 39742 0.14949452050632317 VKTLRRAL 8 Unmodified _VKTLRRAL_ 0 0 0 REV__nc|ENSG00000138119|Q9NZM1-2|MYOF REV__nc|ENSG00000138119|Q9NZM1-2|MYOF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 478.821818 955.629084 1.7618 0.00084359 1.4032 0.0006719 3.165 0.0015155 478.8226339620593 102.96 0.16194 103.02 102.97 103.13 0.055092 -0.15665 0.00025671 NaN 0 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 276960 + 35433 12150 22584 22653 0.14949452050632317 VKTLRRAL 8 Unmodified _VKTLRRAL_ 0 0 0 REV__nc|ENSG00000138119|Q9NZM1-2|MYOF REV__nc|ENSG00000138119|Q9NZM1-2|MYOF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 478.821818 955.629084 3.8847 0.0018601 -0.014047 -6.726E-06 3.8707 0.0018534 478.82220532138473 103.01 0.2774 103.33 103.15 103.42 0.31863 0.15665 -0.0011005 NaN 0 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 286060 + 35434 12150 22584 22653 0.14949452050632317 VKTQKVLPGK 10 Unmodified _VKTQKVLPGK_ 0 0 0 REV__nc|ENSG00000161681|Q9Y566-2|SHANK1 REV__nc|ENSG00000161681|Q9Y566-2|SHANK1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.2391052246094 3 366.572886 1096.69683 2.3025 0.00084405 -1.1845 -0.00043421 1.118 0.00040984 366.5724226801087 44.347 0.25903 45.168 45.065 45.324 0.82074 16 12 2 0 0 0 0.12676 1 20205 20205 1.7423 0.28716 1 174350 + 35435 12918 22585 22654 39743 39743 0.15234857190785078 VKVLHKILI 9 Unmodified _VKVLHKILI_ 0 0 0 REV__ENSG00000165895|ENST00000298815|ARHGAP42 REV__ENSG00000165895|ENST00000298815|ARHGAP42 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.8739624023438 2 531.87352 1061.73249 NaN NaN NaN NaN NaN NaN NaN 95.703 1 95.785 95.285 96.285 0.082001 0 0 0 0.91452 1 50654 50654 0 0 1 + 35436 13195 22586 22655 39744 39744 0.20408939438470952 VKVLPIKLRQK 11 Unmodified _VKVLPIKLRQK_ 0 0 0 REV__nc|ENSG00000148773|P46013-2|MKI67 REV__nc|ENSG00000148773|P46013-2|MKI67 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.3071594238281 3 441.306252 1320.89693 NaN NaN NaN NaN NaN NaN NaN 91.961 1 92.623 92.123 93.123 0.66198 0 0 0 1.0082 1 42315 42315 0.094841 0 1 + 35437 12549 22587 22656 39745 39745 0.24931331858374506 VKVRHAEG 8 Unmodified _VKVRHAEG_ 0 0 0 ENST00000595108.5_1_19:6733949-6737021:-|nuORF ENST00000595108.5_1_19:6733949-6737021:-|nuORF ENST00000595108.5_1_19:6733949-6737021:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 448.26116943359375 2 448.259051 894.503549 3.2451 0.0014546 -0.27116 -0.00012155 2.9739 0.0013331 448.25879506902527 83.847 0.42058 84.509 84.254 84.675 0.66219 56 26 3 0 0 0 0.7441 1 38564 38564 2.3027 0.24298 1 2753500 35438 9267 22588 22657 39746 39746 0.05207740194418875 VKVVALGL 8 Unmodified _VKVVALGL_ 0 0 0 nc|ENSG00000196557|O95180-2|CACNA1H;ENSG00000196557|ENST00000348261|CACNA1H nc|ENSG00000196557|O95180-2|CACNA1H nc|ENSG00000196557|O95180-2|CACNA1H MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.5929870605469 2 399.776014 797.537475 3.0354 0.0012135 -0.27179 -0.00010865 2.7636 0.0011048 399.77583803520287 36.086 0.18461 36.713 36.635 36.82 0.62631 8 5 2 0 0 0 0.14111 1 16532 16532 0.69038 0 1 229650 35439 9799 22589 22658 39747 39747 0.13060768633454245 VKYRQELLERR 11 Unmodified _VKYRQELLERR_ 0 0 0 ENSG00000153237|ENST00000283233|CCDC148 ENSG00000153237|ENST00000283233|CCDC148 ENSG00000153237|ENST00000283233|CCDC148 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 745.4308471679688 2 745.433524 1488.85249 NaN NaN NaN NaN NaN NaN NaN 12.615 1 12.615 12.115 13.115 0 0 0 0 1.0061 1 5497 5497 2.7352 1.5419 1 35440 3780 22590 22659 39748 39748 0.1276227597425077 VKYYRFYDREQ 11 Unmodified _VKYYRFYDREQ_ 0 0 0 REV__nc|ENSG00000086619|Q86YB8-2|ERO1B REV__nc|ENSG00000086619|Q86YB8-2|ERO1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 783.8875732421875 2 783.888615 1565.76268 NaN NaN NaN NaN NaN NaN NaN 85.018 1 85.046 84.546 85.546 0.028603 0 0 0 1.0073 1 42513 42513 1.1933 0.84271 1 + 35441 10657 22591 22660 39749 39749 0.0024260157504158997 VLAKKTSRFLL 11 Unmodified _VLAKKTSRFLL_ 0 0 0 ENST00000381278.3_1_22:43089799-43091637:-|nuORF ENST00000381278.3_1_22:43089799-43091637:-|nuORF ENST00000381278.3_1_22:43089799-43091637:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 638.4457397460938 2 638.410998 1274.80744 NaN NaN NaN NaN NaN NaN NaN 83.799 1 83.827 83.327 84.327 0.028603 0 0 0 1.0055 1 41666 41666 3.5965 0 1 35442 7482 22592 22661 39750 39750 0.18103077179057436 VLALEPKV 8 Unmodified _VLALEPKV_ 0 0 0 REV__ENST00000467785.5_1_7:158448006-158486027:-|nuORF REV__ENST00000467785.5_1_7:158448006-158486027:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.7810363769531 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 47.408 1 47.408 46.908 47.908 0 0 0 0 0.99035 1 21704 21704 0.69038 0 1 + 35443 12488 22593 22662 39751 39751 0.10388447425293634 VLALEPKV 8 Unmodified _VLALEPKV_ 0 0 0 REV__ENST00000467785.5_1_7:158448006-158486027:-|nuORF REV__ENST00000467785.5_1_7:158448006-158486027:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7811584472656 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 68.809 1 69.468 68.968 69.968 0.65924 0 0 0 0.99035 1 31542 31542 2.0598 0 1 + 35444 12488 22593 22662 39752 39752 0.10388447425293634 VLAVILIILI 10 Unmodified _VLAVILIILI_ 0 0 0 nc|ENSG00000142949|P10586-2|PTPRF;ENSG00000142949|ENST00000359947|PTPRF nc|ENSG00000142949|P10586-2|PTPRF nc|ENSG00000142949|P10586-2|PTPRF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.5997009277344 3 360.598261 1078.77295 NaN NaN NaN NaN NaN NaN NaN 65.131 1 65.379 64.879 65.879 0.24803 0 0 0 1.002 1 29838 29838 0 0 1 35445 3336 22594 22663 39753 39753 0.2367186103824679 VLDSMDPSI 9 Unmodified _VLDSMDPSI_ 0 0 0 REV__ENSG00000181143|ENST00000397910|MUC16 REV__ENSG00000181143|ENST00000397910|MUC16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.73834228515625 2 488.736425 975.458298 3.1299 0.0015297 -0.12082 -5.9047E-05 3.0091 0.0014707 488.7364853671558 61.889 0.39188 62.141 61.948 62.34 0.25245 30 22 2 0 0 0 0.29781 1 28409 28409 16.942 1.0951 1 1285100 + 35446 13844 22595 22664 39754 39754 -0.030412911736448223 VLEILQPEEIK 11 Unmodified _VLEILQPEEIK_ 0 0 0 nc|ENSG00000066248|Q8N5V2-2|NGEF;nc|ENSG00000066248|Q8N5V2-3|NGEF;ENSG00000066248|ENST00000264051|NGEF nc|ENSG00000066248|Q8N5V2-2|NGEF nc|ENSG00000066248|Q8N5V2-2|NGEF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2581787109375 3 437.590383 1309.74932 NaN NaN NaN NaN NaN NaN NaN 95.511 1 95.778 95.278 96.278 0.2675 0 0 0 1.0079 1 43884 43884 0.45452 0.12525 1 35447 702 22596 22665 39755 39755 0.10683350743079245 VLELLLVC 8 Unmodified _VLELLLVC_ 0 0 0 ENST00000508662.5_1_5:149618053-149669203:-|nuORF ENST00000508662.5_1_5:149618053-149669203:-|nuORF ENST00000508662.5_1_5:149618053-149669203:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.2770080566406 2 451.274989 900.535426 NaN NaN NaN NaN NaN NaN NaN 9.1208 1 9.4319 8.9319 9.9319 0.31115 0 0 0 0.99035 1 4099 4099 6.3541 0 1 35448 8533 22597 22666 39756 39756 0.08117971833360116 VLELPVTV 8 Unmodified _VLELPVTV_ 0 0 0 REV__ENST00000476834.6_1_10:135192804-135197470:+|nuORF REV__ENST00000476834.6_1_10:135192804-135197470:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 435.2720031738281 2 435.270761 868.52697 NaN NaN NaN NaN NaN NaN NaN 9.8876 1 10.183 9.6832 10.683 0.2956 0 0 0 0.99035 1 4388 4388 0.69038 0 1 + 35449 16658 22598 22667 39757 39757 0.08744741188388616 VLERDTLSI 9 Unmodified _VLERDTLSI_ 0 0 0 nc|ENSG00000064726|Q9H0C5-2|BTBD1;ENSG00000064726|ENST00000261721|BTBD1 nc|ENSG00000064726|Q9H0C5-2|BTBD1 nc|ENSG00000064726|Q9H0C5-2|BTBD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 349.20159912109375 3 349.201118 1044.58152 2.3409 0.00081744 0.087452 3.0538E-05 2.4283 0.00084798 349.5354361930486 18.493 0.25851 18.79 18.637 18.895 0.29753 45 27 2 0 0 0 0.80651 2 8358 8358;8407 4.5289 0 1 510290 35450 678 22599 22668 39758;39759 39758 0.06101708269147821 VLETMDNKKG 10 Unmodified _VLETMDNKKG_ 0 0 0 ENSG00000011021|ENST00000346436|CLCN6;nc|ENSG00000011021|P51797-5|CLCN6;nc|ENSG00000011021|P51797-4|CLCN6;nc|ENSG00000011021|P51797-2|CLCN6;nc|ENSG00000011021|P51797-3|CLCN6 ENSG00000011021|ENST00000346436|CLCN6 ENSG00000011021|ENST00000346436|CLCN6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.9236450195312 2 567.794806 1133.57506 NaN NaN NaN NaN NaN NaN NaN 95.591 1 95.591 95.091 96.091 0 0 0 0 0.99464 1 51513 51513 6.2058 0.97511 1 35451 405 22600 22669 39760 39760 0.013614470460879602 VLEVKVVP 8 Unmodified _VLEVKVVP_ 0 0 0 ENSG00000187764|ENST00000422704|SEMA4D ENSG00000187764|ENST00000422704|SEMA4D ENSG00000187764|ENST00000422704|SEMA4D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 441.78857421875 2 441.786579 881.558604 NaN NaN NaN NaN NaN NaN NaN 40.954 1 40.954 40.454 41.454 0 0 0 0 0.99035 1 18598 18598 2.5775 0 1 35452 5634 22601 22670 39761 39761 0.11308733942325944 VLEVVPVL 8 Unmodified _VLEVVPVL_ 0 0 0 REV__ENSG00000178188|ENST00000684370|SH2B1 REV__ENSG00000178188|ENST00000684370|SH2B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.27911376953125 2 434.281129 866.547705 3.2691 0.0014197 -3.7873 -0.0016447 -0.51812 -0.00022501 434.27915252414283 101.64 0.40698 102.23 102.08 102.49 0.59717 19 16 2 0 0 0 0.7471 1 47071 47071 0.69038 0 1 294860 + 35453 13755 22602 22671 39762 39762 0.10909331568029756 VLEWRVKYSKY 11 Unmodified _VLEWRVKYSKY_ 0 0 0 ENSG00000155621|ENST00000334731|C9orf85;ENST00000377027.1_1_9:74533369-74587755:+|nuORF;nc|nan|Q96MD7|C9orf85 ENSG00000155621|ENST00000334731|C9orf85 ENSG00000155621|ENST00000334731|C9orf85 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 735.9105834960938 2 735.908819 1469.80309 NaN NaN NaN NaN NaN NaN NaN 20.45 1 20.716 20.216 21.216 0.26616 0 0 0 1.0055 1 9083 9083 3.5965 2.1146 1 35454 3870 22603 22672 39763 39763 0.08697567965464259 VLFKLKLL 8 Unmodified _VLFKLKLL_ 0 0 0 REV__ENST00000435504.8_1_2:25964298-25964478:-|nuORF REV__ENST00000435504.8_1_2:25964298-25964478:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.3428955078125 2 487.344064 972.673574 NaN NaN NaN NaN NaN NaN NaN 43.984 1 43.984 43.484 44.484 0 0 0 0 0.99035 1 20068 20068 0.79363 0 1 + 35455 16298 22604 22673 39764 39764 0.18614463144115234 VLFSAEPLM 9 Unmodified _VLFSAEPLM_ 0 0 0 REV__NLRP14|p.L303F|1|0.07|ENSG00000158077|chr11:7042935-7042935|A/T|missense_variant REV__NLRP14|p.L303F|1|0.07|ENSG00000158077|chr11:7042935-7042935|A/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.7689208984375 2 503.767529 1005.5205 2.857 0.0014393 0.25472 0.00012832 3.1117 0.0015676 503.7675424948764 75.688 0.28416 76.352 76.174 76.458 0.66411 39 24 2 0 0 0 0.46674 1 34908 34908 19.439 0 1 964760 + 35456 18188 22605 22674 39765 39765 0.01796479965355502 VLGARLSG 8 Unmodified _VLGARLSG_ 0 0 0 ENSG00000100596|ENST00000216484|SPTLC2;ENSG00000172296|ENST00000399002|SPTLC3 ENSG00000100596|ENST00000216484|SPTLC2 ENSG00000100596|ENST00000216484|SPTLC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 386.7396545410156 2 386.73742 771.460287 NaN NaN NaN NaN NaN NaN NaN 102.93 1 103.25 102.75 103.75 0.31863 0 0 0 0.99035 1 47600 47600 0.79363 0 1 35457 1229 22606 22675 39766 39766 0.06541550417148301 VLGGRGHK 8 Unmodified _VLGGRGHK_ 0 0 0 ENST00000456760.1_1_9:125448634-125449186:+|nuORF ENST00000456760.1_1_9:125448634-125449186:+|nuORF ENST00000456760.1_1_9:125448634-125449186:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 412.2499694824219 2 412.248486 822.48242 NaN NaN NaN NaN NaN NaN NaN 9.9231 1 10.219 9.7187 10.719 0.2956 0 0 0 0.93233 1 4400 4400 10.183 7.2942 1 35458 8052 22607 22676 39767 39767 0.06407774885565232 VLGGRGHK 8 Unmodified _VLGGRGHK_ 0 0 0 ENST00000456760.1_1_9:125448634-125449186:+|nuORF ENST00000456760.1_1_9:125448634-125449186:+|nuORF ENST00000456760.1_1_9:125448634-125449186:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 412.249755859375 2 412.248486 822.48242 NaN NaN NaN NaN NaN NaN NaN 10.143 1 10.439 9.9388 10.939 0.2956 0 0 0 0.99035 1 4475 4475 5.7604 2.8712 1 35459 8052 22607 22676 39768 39768 0.06407774885565232 VLGGTRRP 8 Unmodified _VLGGTRRP_ 0 0 0 REV__ENST00000483941.1_1_13:37453875-37494793:-|nuORF REV__ENST00000483941.1_1_13:37453875-37494793:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 428.2630310058594 2 428.261594 854.508634 3.18 0.0013619 0.08362 3.5811E-05 3.2636 0.0013977 428.26165548952747 85.465 0.67668 86.13 85.865 86.541 0.66566 112 33 5 0 0 0 0.7471 1 39380 39380 0.79363 0 1 58125000 + 35460 15522 22608 22677 39769 39769 0.0755604405703707 VLGGVELA 8 Unmodified _VLGGVELA_ 0 0 0 REV__ENST00000532085.1_1_11:118897174-118897576:-|nuORF REV__ENST00000532085.1_1_11:118897174-118897576:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.22845458984375 2 379.226354 756.438155 NaN NaN NaN NaN NaN NaN NaN 55.112 1 55.78 55.28 56.28 0.66798 0 0 0 0.99035 1 25219 25219 2.5775 0 1 + 35461 12122 22609 22678 39770 39770 0.05019325948705955 VLGKGIGK 8 Unmodified _VLGKGIGK_ 0 0 0 REV__nc|ENSG00000129003|Q709C8-2|VPS13C REV__nc|ENSG00000129003|Q709C8-2|VPS13C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 386.2585754394531 2 386.257988 770.501424 2.0677 0.00079866 0.16704 6.4522E-05 2.2347 0.00086319 386.2579737453234 12.649 0.067601 12.911 12.871 12.938 0.26154 11 7 2 0 0 0 0.60592 1 5498 5498 13.508 0 1 1366600 + 35462 11776 22610 22679 39771 39771 0.10699311456619398 VLGKGIGK 8 Unmodified _VLGKGIGK_ 0 0 0 REV__nc|ENSG00000129003|Q709C8-2|VPS13C REV__nc|ENSG00000129003|Q709C8-2|VPS13C MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 386.257988 770.501424 2.8142 0.001087 0.15379 5.9404E-05 2.968 0.0011464 386.2580185615376 12.941 0.17765 12.941 12.833 13.01 0 0.01507 -2.6615E-06 NaN 13.508 14 8 2 NaN NaN NaN NaN 0 NaN NaN 0 474540 + 35463 11776 22610 22679 0.10699311456619398 VLGKGIGK 8 Unmodified _VLGKGIGK_ 0 0 0 REV__nc|ENSG00000129003|Q709C8-2|VPS13C REV__nc|ENSG00000129003|Q709C8-2|VPS13C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 386.257988 770.501424 2.0677 0.00079866 0.16704 6.4522E-05 2.2347 0.00086319 386.2579737453234 12.649 0.067601 12.911 12.871 12.938 0.26154 -0.01507 7.5746E-06 NaN 13.508 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 1366600 + 35464 11776 22610 22679 0.10699311456619398 VLGLKRLRV 9 Unmodified _VLGLKRLRV_ 0 0 0 ENST00000339656.7_1_19:58371426-58371873:+|nuORF ENST00000339656.7_1_19:58371426-58371873:+|nuORF ENST00000339656.7_1_19:58371426-58371873:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.21551513671875 3 351.913354 1052.71823 2.3091 0.00081259 0.84316 0.00029672 3.1522 0.0011093 351.91244754846986 37.934 0.1457 38.568 38.466 38.612 0.63389 6 4 2 0 0 0 0.11383 1 17334 17334 0.26902 0 1 77951 35465 7060 22611 22680 39772 39772 0.1939828701015358 VLGMKKAR 8 Unmodified _VLGMKKAR_ 0 0 0 REV__ENSG00000084754|ENST00000380649|HADHA REV__ENSG00000084754|ENST00000380649|HADHA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 452.0381774902344 2 451.783847 901.553142 NaN NaN NaN NaN NaN NaN NaN 60.587 1 61.249 60.749 61.749 0.66261 0 0 0 0.99035 1 27739 27739 0.69038 0 1 + 35466 10638 22612 22681 39773 39773 0.09842731878870836 VLGPVPRP 8 Unmodified _VLGPVPRP_ 0 0 0 ENSG00000198198|ENST00000634258|SZT2;nc|ENSG00000198198|Q5T011-5|SZT2 ENSG00000198198|ENST00000634258|SZT2 ENSG00000198198|ENST00000634258|SZT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 417.76507568359375 2 417.763438 833.512323 2.9284 0.0012234 0.63288 0.00026439 3.5613 0.0014878 417.7635951011704 37.486 0.26576 38.118 38.002 38.268 0.63211 15 8 3 0 0 0 0.64692 1 17168 17168 10.183 3.8293 1 371570 35467 5875 22613 22682 39774 39774 0.08890713830896857 VLGPVPRP 8 Unmodified _VLGPVPRP_ 0 0 0 ENSG00000198198|ENST00000634258|SZT2;nc|ENSG00000198198|Q5T011-5|SZT2 ENSG00000198198|ENST00000634258|SZT2 ENSG00000198198|ENST00000634258|SZT2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 417.763438 833.512323 2.8468 0.0011893 0.42841 0.00017897 3.2753 0.0013683 417.76383346390793 38.169 0.19116 38.433 38.312 38.503 0.26408 0.15762 -0.00010031 NaN 10.183 9 5 2 NaN NaN NaN NaN 0 NaN NaN 0 516490 35468 5875 22613 22682 0.08890713830896857 VLGQAECDC 9 Unmodified _VLGQAECDC_ 0 0 0 REV__ENSG00000147082|ENST00000376042|CCNB3 REV__ENSG00000147082|ENST00000376042|CCNB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 469.19140625 2 469.191328 936.368103 NaN NaN NaN NaN NaN NaN NaN 79.646 1 79.898 79.398 80.398 0.25127 0 0 0 0.90699 1 36674 36674 1.8442 1.0506 1 + 35469 12493 22614 22683 39775 39775 -0.1026266377372167 VLGQPIIRSIP 11 Unmodified _VLGQPIIRSIP_ 0 0 0 nc|ENSG00000102854|Q13421-4|MSLN;ENSG00000102854|ENST00000545450|MSLN;nc|ENSG00000102854|Q13421|MSLN;nc|ENSG00000102854|Q13421-2|MSLN nc|ENSG00000102854|Q13421-4|MSLN nc|ENSG00000102854|Q13421-4|MSLN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.2558898925781 3 398.251924 1191.73394 NaN NaN NaN NaN NaN NaN NaN 65.637 1 66.293 65.793 66.793 0.65672 0 0 0 1.0064 1 30091 30091 2.4348 0 1 35470 1355 22615 22684 39776 39776 0.14574528736557113 VLGRAAQR 8 Unmodified _VLGRAAQR_ 0 0 0 ENSG00000178445|ENST00000321612|GLDC;ENST00000510885.2_1_4:57459582-57460608:+|nuORF ENSG00000178445|ENST00000321612|GLDC ENSG00000178445|ENST00000321612|GLDC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.76800537109375 2 435.767043 869.519533 NaN NaN NaN NaN NaN NaN NaN 82.358 1 83.019 82.519 83.519 0.66019 0 0 0 0.99035 1 37946 37946 2.3027 0 1 35471 5168 22616 22685 39777 39777 0.07955446431321889 VLGRAAQR 8 Unmodified _VLGRAAQR_ 0 0 0 ENSG00000178445|ENST00000321612|GLDC;ENST00000510885.2_1_4:57459582-57460608:+|nuORF ENSG00000178445|ENST00000321612|GLDC ENSG00000178445|ENST00000321612|GLDC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.7683410644531 2 435.767043 869.519533 NaN NaN NaN NaN NaN NaN NaN 82.459 1 83.119 82.619 83.619 0.66019 0 0 0 0.99035 1 37993 37993 2.3027 0 1 35472 5168 22616 22685 39778 39778 0.07955446431321889 VLGRAAQR 8 Unmodified _VLGRAAQR_ 0 0 0 ENSG00000178445|ENST00000321612|GLDC;ENST00000510885.2_1_4:57459582-57460608:+|nuORF ENSG00000178445|ENST00000321612|GLDC ENSG00000178445|ENST00000321612|GLDC MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.7681884765625 2 435.767043 869.519533 NaN NaN NaN NaN NaN NaN NaN 82.561 1 83.221 82.721 83.721 0.66019 0 0 0 0.99035 1 38039 38039 2.3027 0 1 35473 5168 22616 22685 39779 39779 0.07955446431321889 VLGVQWLQR 9 Unmodified _VLGVQWLQR_ 0 0 0 ENST00000529437.1_1_10:102286710-102289623:-|nuORF;ENST00000466088.5_1_10:102286131-102289614:-|nuORF;nc|ENSG00000255339|O95169-2|NDUFB8;ENSG00000166136|ENST00000299166|NDUFB8 ENST00000529437.1_1_10:102286710-102289623:-|nuORF ENST00000529437.1_1_10:102286710-102289623:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.8255004882812 2 549.824558 1097.63456 NaN NaN NaN NaN NaN NaN NaN 97.369 1 97.369 96.869 97.869 0 0 0 0 0.84134 1 52984 52984 7.9102 0.62092 1 35474 4453 22617 22686 39780 39780 0.08965130842443614 VLHSPRLTNS 10 Unmodified _VLHSPRLTNS_ 0 0 0 nc|ENSG00000141527|Q9BXL6-2|CARD14;ENSG00000141527|ENST00000648509|CARD14 nc|ENSG00000141527|Q9BXL6-2|CARD14 nc|ENSG00000141527|Q9BXL6-2|CARD14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 375.2261962890625 3 375.212128 1122.61456 NaN NaN NaN NaN NaN NaN NaN 21.52 1 21.52 21.02 22.02 0 0 0 0 0.99774 1 9637 9637 1.7423 0 1 35475 3266 22618 22687 39781 39781 0.05815335111856257 VLHVKTESL 9 Unmodified _VLHVKTESL_ 0 0 0 ENSG00000213676|ENST00000375203|ATF6B;nc|ENSG00000213676|Q99941-2|ATF6B;ENST00000495579.5_1_6:32088425-32095984:-|nuORF ENSG00000213676|ENST00000375203|ATF6B;ENST00000495579.5_1_6:32088425-32095984:-|nuORF ENSG00000213676|ENST00000375203|ATF6B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.3055419921875 2 513.303124 1024.5917 3.3728 0.0017313 -0.088116 -4.523E-05 3.2847 0.001686 513.3029461021617 26.924 0.31756 27.189 27.008 27.326 0.26489 42 17 3 0 0 0 0.004576 2 12222 12222;12273 92.653 21.52 1 1033400 35476 6094;8434 22619 22688 39782;39783 39782 0.0803831599437217 VLHVKTESL 9 Unmodified _VLHVKTESL_ 0 0 0 ENSG00000213676|ENST00000375203|ATF6B;nc|ENSG00000213676|Q99941-2|ATF6B;ENST00000495579.5_1_6:32088425-32095984:-|nuORF ENSG00000213676|ENST00000375203|ATF6B;ENST00000495579.5_1_6:32088425-32095984:-|nuORF ENSG00000213676|ENST00000375203|ATF6B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.3045654296875 2 513.303124 1024.5917 3.2947 0.0016912 -0.14469 -7.427E-05 3.15 0.0016169 513.3029284111203 26.554 0.28717 27.179 27.016 27.303 0.62505 41 17 3 0 0 0 0.004576 2 12194 12149;12194 92.653 11.04 1 1345900 35477 6094;8434 22619 22688 39784;39785 39785 0.0803831599437217 VLIAYILYRKK 11 Unmodified _VLIAYILYRKK_ 0 0 0 ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENSG00000165102|ENST00000379644|HGSNAT;nc|ENSG00000165102|Q68CP4|HGSNAT ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENSG00000165102|ENST00000379644|HGSNAT ENST00000519705.1_1_8:43052051-43054709:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.725830078125 4 345.724787 1378.87004 2.3584 0.00081534 1.0184 0.0003521 3.3768 0.0011674 345.7251385276819 45.053 0.82317 45.321 44.764 45.587 0.26768 79 40 4 0 0 0 0.91345 1 20656 20656 0.45452 0.45452 1 3431500 35478 8625;4371 22620 22689 39786 39786 0.19576223247190683 VLIIVLIKL 9 Unmodified _VLIIVLIKL_ 0 0 0 REV__ENSG00000167080|ENST00000393354|B4GALNT2 REV__ENSG00000167080|ENST00000393354|B4GALNT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.3819580078125 2 512.380646 1022.74674 NaN NaN NaN NaN NaN NaN NaN 17.335 1 17.335 16.835 17.835 0 0 0 0 0.91452 1 7700 7700 0 0 1 + 35479 13275 22621 22690 39787 39787 0.2362759186673884 VLIIVLIKLL 10 Unmodified _VLIIVLIKLL_ 0 0 0 REV__ENSG00000167080|ENST00000393354|B4GALNT2 REV__ENSG00000167080|ENST00000393354|B4GALNT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.4029541015625 2 568.922678 1135.8308 NaN NaN NaN NaN NaN NaN NaN 97.158 1 97.436 96.936 97.936 0.27778 0 0 0 1.002 1 44627 44627 0 0 1 + 35480 13275 22622 22691 39788 39788 0.2683212296365127 VLILILCLKV 10 Unmodified _VLILILCLKV_ 0 0 0 ENST00000251527.9_1_7:158524237-158524429:-|nuORF ENST00000251527.9_1_7:158524237-158524429:-|nuORF ENST00000251527.9_1_7:158524237-158524429:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1126.767333984375 1 1126.7632 1125.75592 4.0133 0.0045221 -0.42146 -0.00047489 3.5919 0.0040472 1126.7630900510462 103.97 0.032211 104.29 104.27 104.3 0.31863 8 5 2 0 0 0 0.94443 1 48049 48049 0 0 1 3955900 35481 6505 22623 22692 39789 39789 0.19807617160745394 VLILLLIPLK 10 Unmodified _VLILLLIPLK_ 0 0 0 nc|ENSG00000139370|Q8N697-2|SLC15A4;SLC15A4|p.G462Wfs*65|1|0.36|ENSG00000139370|chr12:128800884-128800885|-/A|frameshift_variant;ENSG00000139370|ENST00000266771|SLC15A4 nc|ENSG00000139370|Q8N697-2|SLC15A4 nc|ENSG00000139370|Q8N697-2|SLC15A4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.8316040039062 2 567.914853 1133.81515 NaN NaN NaN NaN NaN NaN NaN 12.612 1 12.874 12.374 13.374 0.26154 0 0 0 1.002 1 5477 5477 0 0 1 35482 3145 22624 22693 39790 39790 0.25359836446591544 VLILRAVFRL 10 Unmodified _VLILRAVFRL_ 0 0 0 ENSG00000180974|ENST00000641726|OR52E4 ENSG00000180974|ENST00000641726|OR52E4 ENSG00000180974|ENST00000641726|OR52E4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 600.4007568359375 2 600.402976 1198.7914 NaN NaN NaN NaN NaN NaN NaN 49.748 1 50.571 50.071 51.071 0.82285 0 0 0 1.0015 1 22662 22662 0.40072 0 1 35483 5273 22625 22694 39791 39791 0.19995415732773836 VLIPRKRHRWR 11 Unmodified _VLIPRKRHRWR_ 0 0 0 ENST00000460670.5_1_19:37096371-37096590:+|nuORF ENST00000460670.5_1_19:37096371-37096590:+|nuORF ENST00000460670.5_1_19:37096371-37096590:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 758.9784545898438 2 758.976028 1515.9375 NaN NaN NaN NaN NaN NaN NaN 91.907 1 91.907 91.407 92.407 0 0 0 0 1.0082 1 48689 48689 0.30703 0.30703 1 35484 8074 22626 22695 39792 39792 0.20017111021365963 VLIPTIGTL 9 Unmodified _VLIPTIGTL_ 0 0 0 REV__ENST00000485978.1_1_9:136338979-136343630:-|nuORF REV__ENST00000485978.1_1_9:136338979-136343630:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 309.536865234375 3 309.535549 925.584819 NaN NaN NaN NaN NaN NaN NaN 40.644 1 41.447 40.947 41.947 0.80351 0 0 0 0.91452 1 18412 18412 0 0 1 + 35485 12877 22627 22696 39793 39793 0.11905003113827206 VLIQFLKSSRL 11 Unmodified _VLIQFLKSSRL_ 0 0 0 ENSG00000070778|ENST00000556564|PTPN21 ENSG00000070778|ENST00000556564|PTPN21 ENSG00000070778|ENST00000556564|PTPN21 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 652.7147827148438 2 652.408455 1302.80236 NaN NaN NaN NaN NaN NaN NaN 102.82 1 102.88 102.38 103.38 0.055092 0 0 0 1.0072 1 55797 55797 1.3295 0 1 35486 771 22628 22697 39794 39794 0.16306773316409817 VLIVMPRQKP 10 Unmodified _VLIVMPRQKP_ 0 0 0 ENST00000409514.5_2_2:233446641-233446863:+|nuORF ENST00000409514.5_2_2:233446641-233446863:+|nuORF ENST00000409514.5_2_2:233446641-233446863:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.910888671875 3 394.246005 1179.71618 NaN NaN NaN NaN NaN NaN NaN 72.81 1 73.474 72.974 73.974 0.66398 0 0 0 0.99774 1 33429 33429 3.5871 2.6248 1 35487 7662 22629 22698 39795 39795 0.1335149021003872 VLKALPSP 8 Unmodified _VLKALPSP_ 0 0 0 ENST00000492321.5_1_7:44118242-44122109:-|nuORF;nc|ENSG00000122678|Q9NP87-2|POLM;ENSG00000122678|ENST00000242248|POLM;nc|ENSG00000122678|Q9NP87-3|POLM ENST00000492321.5_1_7:44118242-44122109:-|nuORF ENST00000492321.5_1_7:44118242-44122109:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.9165344238281 2 412.765646 823.516739 2.8509 0.0011768 2.3931 0.0009878 5.2441 0.0021646 412.7670797321987 27.727 0.11882 27.989 27.914 28.033 0.26245 9 6 2 0 0 0 0.13397 1 12598 12598 9.3474 3.587 1 163750 35488 2276 22630 22699 39796 39796 0.09792178253792372 VLKDRIMIKLK 11 Unmodified _VLKDRIMIKLK_ 0 0 0 REV__ENSG00000203727|ENST00000367474|SAMD5 REV__ENSG00000203727|ENST00000367474|SAMD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 678.933837890625 2 678.941608 1355.86866 NaN NaN NaN NaN NaN NaN NaN 109.11 1 109.72 109.22 110.22 0.60264 0 0 0 1.0082 1 50330 50330 0 0 1 + 35489 14388 22631 22700 39797 39797 0.2049626588677711 VLKEKKKL 8 Unmodified _VLKEKKKL_ 0 0 0 REV__ENST00000592124.1_1_19:34756504-34790780:+|nuORF REV__ENST00000592124.1_1_19:34756504-34790780:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.3432312011719 2 493.342052 984.669552 NaN NaN NaN NaN NaN NaN NaN 17.553 1 17.855 17.355 18.355 0.30158 0 0 0 0.967 1 7950 7950 7.9102 0 1 + 35490 15176 22632 22701 39798 39798 0.1766037365041484 VLKEKRKLFIR 11 Unmodified _VLKEKRKLFIR_ 0 0 0 nc|ENSG00000137752|P29466-5|CASP1;ENST00000526511.5_1_11:104901858-104905840:-|nuORF;nc|ENSG00000137752|P29466-4|CASP1;nc|ENSG00000137752|P29466-3|CASP1;nc|ENSG00000137752|P29466-2|CASP1;ENSG00000137752|ENST00000533400|CASP1 nc|ENSG00000137752|P29466-5|CASP1 nc|ENSG00000137752|P29466-5|CASP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.3179016113281 3 477.317039 1428.92929 NaN NaN NaN NaN NaN NaN NaN 103.22 1 103.82 103.32 104.32 0.59821 0 0 0 1.0082 1 47755 47755 0.094841 0 1 35491 3034 22633 22702 39799 39799 0.23198119261383 VLKGKKLSL 9 Unmodified _VLKGKKLSL_ 0 0 0 ENSG00000136240|ENST00000258739|KDELR2;nc|ENSG00000105438|P24390-2|KDELR1;ENSG00000105438|ENST00000330720|KDELR1;ENSG00000100196|ENST00000216014|KDELR3 ENSG00000136240|ENST00000258739|KDELR2;ENSG00000100196|ENST00000216014|KDELR3 ENSG00000136240|ENST00000258739|KDELR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 329.23138427734375 3 329.23046 984.669552 2.1869 0.00072 0.52605 0.00017319 2.713 0.00089319 329.2306015877677 17.409 0.64089 17.711 17.315 17.956 0.30158 114 46 3 0 0 0 0.02631 3 7883 7843;7883;7932 47.732 12.295 1 1022400 35492 2936;1185 22634 22703 39800;39801;39802 39801 0.1766037365041484 VLKGKKLSL 9 Unmodified _VLKGKKLSL_ 0 0 0 ENSG00000136240|ENST00000258739|KDELR2;nc|ENSG00000105438|P24390-2|KDELR1;ENSG00000105438|ENST00000330720|KDELR1;ENSG00000100196|ENST00000216014|KDELR3 ENSG00000136240|ENST00000258739|KDELR2;ENSG00000100196|ENST00000216014|KDELR3 ENSG00000136240|ENST00000258739|KDELR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.34326171875 2 493.342052 984.669552 NaN NaN NaN NaN NaN NaN NaN 17.322 1 17.626 17.126 18.126 0.30438 0 0 0 0.43268 1 7845 7845 21.537 5.6898 1 35493 2936;1185 22634 22703 39803 39803 0.1766037365041484 VLKGKKLSL 9 Unmodified _VLKGKKLSL_ 0 0 0 ENSG00000136240|ENST00000258739|KDELR2;nc|ENSG00000105438|P24390-2|KDELR1;ENSG00000105438|ENST00000330720|KDELR1;ENSG00000100196|ENST00000216014|KDELR3 ENSG00000136240|ENST00000258739|KDELR2;ENSG00000100196|ENST00000216014|KDELR3 ENSG00000136240|ENST00000258739|KDELR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.3432922363281 2 493.342052 984.669552 NaN NaN NaN NaN NaN NaN NaN 17.438 1 17.74 17.24 18.24 0.30158 0 0 0 0.55812 1 7898 7898 17.113 6.289 1 35494 2936;1185 22634 22703 39804 39804 0.1766037365041484 VLKGKKLSL 9 Unmodified _VLKGKKLSL_ 0 0 0 ENSG00000136240|ENST00000258739|KDELR2;nc|ENSG00000105438|P24390-2|KDELR1;ENSG00000105438|ENST00000330720|KDELR1;ENSG00000100196|ENST00000216014|KDELR3 ENSG00000136240|ENST00000258739|KDELR2;ENSG00000100196|ENST00000216014|KDELR3 ENSG00000136240|ENST00000258739|KDELR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.3441162109375 2 493.342052 984.669552 3.2172 0.0015872 0.3697 0.00018239 3.5869 0.0017696 493.34226890385554 17.434 0.34081 18.095 17.895 18.236 0.66072 57 27 3 0 0 0 0.023321 3 7850 7804;7850;7894 63.961 20.102 1 894510 35495 2936;1185 22634 22703 39805;39806;39807 39806 0.1766037365041484 VLKGKKLSL 9 Unmodified _VLKGKKLSL_ 0 0 0 ENSG00000136240|ENST00000258739|KDELR2;nc|ENSG00000105438|P24390-2|KDELR1;ENSG00000105438|ENST00000330720|KDELR1;ENSG00000100196|ENST00000216014|KDELR3 ENSG00000136240|ENST00000258739|KDELR2;ENSG00000100196|ENST00000216014|KDELR3 ENSG00000136240|ENST00000258739|KDELR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 329.2313232421875 3 329.23046 984.669552 2.2616 0.00074459 0.62581 0.00020604 2.8874 0.00095062 329.23065591407055 17.46 0.34685 18.121 17.895 18.242 0.66072 70 28 3 0 0 0 0.053453 2 7881 7835;7881 35.612 5.7717 1 2107500 35496 2936;1185 22634 22703 39808;39809 39809 0.1766037365041484 VLKILLLHL 9 Unmodified _VLKILLLHL_ 0 0 0 REV__ENST00000256442.9_1_5:68473515-68473575:+|nuORF REV__ENST00000256442.9_1_5:68473515-68473575:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.6918334960938 2 531.375895 1060.73724 NaN NaN NaN NaN NaN NaN NaN 85.313 1 85.342 84.842 85.842 0.028603 0 0 0 0.91452 1 42684 42684 0 0 1 + 35497 14936 22635 22704 39810 39810 0.20929823581218443 VLKILLLHLL 10 Unmodified _VLKILLLHLL_ 0 0 0 REV__ENST00000256442.9_1_5:68473515-68473575:+|nuORF REV__ENST00000256442.9_1_5:68473515-68473575:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.9183959960938 2 587.917927 1173.8213 NaN NaN NaN NaN NaN NaN NaN 91.415 1 91.494 90.994 91.994 0.07888 0 0 0 1.0015 1 47370 47370 0.45834 0.45834 1 + 35498 14936 22636 22705 39811 39811 0.24134354678130876 VLKILLLHLL 10 Unmodified _VLKILLLHLL_ 0 0 0 REV__ENST00000256442.9_1_5:68473515-68473575:+|nuORF REV__ENST00000256442.9_1_5:68473515-68473575:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.4049682617188 2 587.917927 1173.8213 NaN NaN NaN NaN NaN NaN NaN 91.581 1 91.664 91.164 92.164 0.082848 0 0 0 0.99983 1 47502 47502 1.8442 1.8442 1 + 35499 14936 22636 22705 39812 39812 0.24134354678130876 VLKKRHLP 8 Unmodified _VLKKRHLP_ 0 0 0 REV__ENST00000524495.5_1_11:7669669-7672116:+|nuORF REV__ENST00000524495.5_1_11:7669669-7672116:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.22601318359375 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 29.116 1 29.734 29.234 30.234 0.61789 0 0 0 0.99035 1 13351 13351 0.79363 0 1 + 35500 13232 22637 22706 39813 39813 0.15458042430316254 VLKKRHLP 8 Unmodified _VLKKRHLP_ 0 0 0 REV__ENST00000524495.5_1_11:7669669-7672116:+|nuORF REV__ENST00000524495.5_1_11:7669669-7672116:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 495.83489990234375 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 83.877 1 84.54 84.04 85.04 0.66219 0 0 0 0.99035 1 38634 38634 0.79363 0 1 + 35501 13232 22637 22706 39814 39814 0.15458042430316254 VLKKVKVR 8 Unmodified _VLKKVKVR_ 0 0 0 ENST00000493374.5_1_2:242089910-242097991:+|nuORF;ENST00000498170.5_1_2:242089910-242097991:+|nuORF ENST00000493374.5_1_2:242089910-242097991:+|nuORF ENST00000493374.5_1_2:242089910-242097991:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.3486328125 2 485.350212 968.68587 NaN NaN NaN NaN NaN NaN NaN 93.118 1 93.204 92.704 93.704 0.086212 0 0 0 0.99035 1 48709 48709 0.79363 0 1 35502 8416 22638 22707 39815 39815 0.2002749960716983 VLKLLLLL 8 Unmodified _VLKLLLLL_ 0 0 0 ENSG00000108829|ENST00000225972|LRRC59 ENSG00000108829|ENST00000225972|LRRC59 ENSG00000108829|ENST00000225972|LRRC59 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 308.8477478027344 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 12.662 1 12.969 12.469 13.469 0.30727 0 0 0 0.99035 1 5713 5713 0.45834 0 1 35503 1653 22639 22708 39816 39816 0.21343347286892822 VLKLVRMLRF 10 Unmodified _VLKLVRMLRF_ 0 0 0 REV__nc|ENSG00000006283|O43497-34|CACNA1G REV__nc|ENSG00000006283|O43497-34|CACNA1G MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 637.5482788085938 2 637.91011 1273.80567 2.4341 0.0015527 4.3438 0.0027709 6.7779 0.0043237 637.9119586067394 95.022 0.023506 95.104 95.089 95.113 0.082001 4 2 2 0 0 0 0.12676 1 50134 50134 0.40072 0.050084 1 4248200 + 35504 17852 22640 22709 39817 39817 0.17971744889405272 VLKPAIAL 8 Unmodified _VLKPAIAL_ 0 0 0 ENSG00000151150|ENST00000280772|ANK3 ENSG00000151150|ENST00000280772|ANK3 ENSG00000151150|ENST00000280772|ANK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.785888671875 2 412.783839 823.553125 NaN NaN NaN NaN NaN NaN NaN 102.8 1 103.12 102.62 103.62 0.31863 0 0 0 0.99035 1 47544 47544 0 0 1 35505 3693 22641 22710 39818 39818 0.1342905515049324 VLKRIQIWK 9 Unmodified _VLKRIQIWK_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF;nc|ENSG00000166888|P42226-3|STAT6;nc|ENSG00000166888|P42226-2|STAT6 ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.002197265625 2 592.387326 1182.7601 NaN NaN NaN NaN NaN NaN NaN 103.43 1 103.75 103.25 104.25 0.31863 0 0 0 0.91238 1 47818 47818 0.52476 0 1 35506 4511 22642 22711 39819 39819 0.1760284269867043 VLKRKRLPKR 10 Unmodified _VLKRKRLPKR_ 0 0 0 nc|ENSG00000153827|Q14669|TRIP12;nc|ENSG00000153827|Q14669-2|TRIP12;nc|ENSG00000153827|Q14669-3|TRIP12;ENSG00000153827|ENST00000675903|TRIP12;TRIP12|p.I1368Yfs*4|1|0.34|ENSG00000153827|chr2:229791954-229791955|-/A|frameshift_variant;nc|ENSG00000153827|Q14669-4|TRIP12 nc|ENSG00000153827|Q14669|TRIP12 nc|ENSG00000153827|Q14669|TRIP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 647.4515380859375 2 647.451323 1292.88809 NaN NaN NaN NaN NaN NaN NaN 93.617 1 93.703 93.203 94.203 0.086212 0 0 0 1.0015 1 49087 49087 0.45834 0 1 35507 3792 22643 22712 39820 39820 0.2533640301255673 VLKRQVQSL 9 Unmodified _VLKRQVQSL_ 0 0 0 ENST00000469334.5_1_17:38788437-38802054:-|nuORF;nc|ENSG00000073584|Q969G3-6|SMARCE1;nc|ENSG00000073584|Q969G3-5|SMARCE1;chr17:40628975-40630714|539|37.17|0.3|6.96|-|ENST00000644527|SMARCE1,SMARCE1;nc|ENSG00000073584|Q969G3-3|SMARCE1;nc|ENSG00000073584|Q969G3-2|SMARCE1;nc|ENSG00000073584|Q969G3-4|SMARCE1;ENSG00000073584|ENST00000348513|SMARCE1 ENST00000469334.5_1_17:38788437-38802054:-|nuORF ENST00000469334.5_1_17:38788437-38802054:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.8395385742188 2 535.837665 1069.66078 2.7536 0.0014755 1.1676 0.00062565 3.9212 0.0021011 535.8382479513376 15.247 0.70695 15.553 15.265 15.972 0.306 167 74 3 0 0 0 0.078225 2 6851 6851;6908 20.454 4.6064 1 213360 35508 157 22644 22713 39821;39822 39821 0.1287340001395023 VLKRVLKELWK 11 Unmodified _VLKRVLKELWK_ 0 0 0 ENSG00000130477|ENST00000519716|UNC13A;ENSG00000137766|ENST00000260323|UNC13C ENSG00000130477|ENST00000519716|UNC13A ENSG00000130477|ENST00000519716|UNC13A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 706.6412963867188 2 706.461022 1410.90749 NaN NaN NaN NaN NaN NaN NaN 92.525 1 92.525 92.025 93.025 0 0 0 0 1.0073 1 49188 49188 1.1933 0 1 35509 2594 22645 22714 39823 39823 0.21847314512842786 VLKVLVRRLKL 11 Unmodified _VLKVLVRRLKL_ 0 0 0 ENST00000539111.6_1_17:62488863-62489078:-|nuORF ENST00000539111.6_1_17:62488863-62489078:-|nuORF ENST00000539111.6_1_17:62488863-62489078:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.9785766601562 2 668.979382 1335.94421 NaN NaN NaN NaN NaN NaN NaN 47.872 1 48.702 48.202 49.202 0.82915 0 0 0 1.0082 1 21809 21809 0 0 1 35510 8790 22646 22715 39824 39824 0.2896761112938293 VLKVLVRRLKL 11 Unmodified _VLKVLVRRLKL_ 0 0 0 ENST00000539111.6_1_17:62488863-62489078:-|nuORF ENST00000539111.6_1_17:62488863-62489078:-|nuORF ENST00000539111.6_1_17:62488863-62489078:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.9768676757812 2 668.979382 1335.94421 NaN NaN NaN NaN NaN NaN NaN 65.307 1 66.016 65.516 66.516 0.70891 0 0 0 1.0082 1 30874 30874 0 0 1 35511 8790 22646 22715 39825 39825 0.2896761112938293 VLLAVLRSIP 10 Unmodified _VLLAVLRSIP_ 0 0 0 REV__ENSG00000177981|ENST00000317697|ASB8 REV__ENSG00000177981|ENST00000317697|ASB8 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 360.5762939453125 3 360.909498 1079.70667 2.8567 0.001031 -0.30867 -0.0001114 2.548 0.0009196 360.9092947773907 30.443 0.1378 30.443 30.366 30.504 0 12 8 2 0 0 0 0.12676 1 13758 13758 3.0723 0 1 647300 + 35512 13747 22647 22716 39826 39826 0.17000045196164137 VLLHRKPK 8 Unmodified _VLLHRKPK_ 0 0 0 nc|ENSG00000133059|Q6XUX3-4|DSTYK;DSTYK|p.Y700*|1|0.28|ENSG00000133059|chr1:205160119-205160119|A/-|frameshift_variant;nc|ENSG00000133059|Q6XUX3-2|DSTYK;ENSG00000133059|ENST00000367162|DSTYK nc|ENSG00000133059|Q6XUX3-4|DSTYK nc|ENSG00000133059|Q6XUX3-4|DSTYK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.8350830078125 2 495.832186 989.649819 NaN NaN NaN NaN NaN NaN NaN 45.45 1 45.45 44.95 45.95 0 0 0 0 0.99035 1 20791 20791 0.79363 0 1 35513 280 22648 22717 39827 39827 0.15458042430316254 VLLHWDLLRW 10 Unmodified _VLLHWDLLRW_ 0 0 0 nc|ENSG00000179869|Q86UQ4-6|ABCA13;nc|ENSG00000179869|Q86UQ4-7|ABCA13;nc|ENSG00000179869|Q86UQ4-5|ABCA13;nc|ENSG00000179869|Q86UQ4-3|ABCA13;nc|ENSG00000179869|Q86UQ4|ABCA13;ENSG00000179869|ENST00000435803|ABCA13;nc|ENSG00000179869|Q86UQ4-4|ABCA13 nc|ENSG00000179869|Q86UQ4-6|ABCA13 nc|ENSG00000179869|Q86UQ4-6|ABCA13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 675.888427734375 2 675.88769 1349.76083 NaN NaN NaN NaN NaN NaN NaN 20.855 1 20.855 20.355 21.355 0 0 0 0 1.0015 1 9331 9331 0.45834 0.057624 1 35514 5232 22649 22718 39828 39828 0.09993637347724871 VLLIIRRPKKL 11 Unmodified _VLLIIRRPKKL_ 0 0 0 REV__nc|ENSG00000142657|P52209-2|PGD REV__nc|ENSG00000142657|P52209-2|PGD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 675.1206665039062 2 674.979382 1347.94421 NaN NaN NaN NaN NaN NaN NaN 57.548 1 57.548 57.048 58.048 0 0 0 0 1.0082 1 26529 26529 0 0 1 + 35515 12340 22650 22719 39829 39829 0.2841561112938962 VLLKKGGRGT 10 Unmodified _VLLKKGGRGT_ 0 0 0 ENST00000562804.5_1_16:57673380-57675539:+|nuORF ENST00000562804.5_1_16:57673380-57675539:+|nuORF ENST00000562804.5_1_16:57673380-57675539:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.9008483886719 3 343.557348 1027.65021 2.4646 0.00084672 1.4236 0.00048909 3.8882 0.0013358 343.55751118512717 18.541 0.12412 19.202 19.165 19.289 0.66072 25 16 2 0 0 0 0.4567 1 8394 8394 14.957 0 1 3025700 35516 9000 22651 22720 39830 39830 0.13749417359531435 VLLKLKKL 8 Unmodified _VLLKLKKL_ 0 0 0 REV__ENST00000231572.7_1_5:167920941-167921575:+|nuORF REV__ENST00000231572.7_1_5:167920941-167921575:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 318.908447265625 3 318.907318 953.700124 NaN NaN NaN NaN NaN NaN NaN 55.073 1 55.339 54.839 55.839 0.26543 0 0 0 0.99035 1 25178 25178 0 0 1 + 35517 14858 22652 22721 39831 39831 0.22142152035473828 VLLKMNVK 8 Unmodified _VLLKMNVK_ 0 0 0 REV__ENST00000564902.5_1_15:30917016-30927830:+|nuORF REV__ENST00000564902.5_1_15:30917016-30927830:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.80267333984375 2 472.801706 943.588859 2.6314 0.0012441 -0.71963 -0.00034024 1.9117 0.00090387 472.8012355980884 69.877 0.25983 70.538 70.452 70.712 0.66071 30 17 2 0 0 0 0.70799 1 32055 32055 5.2307 0 1 941380 + 35518 17407 22653 22722 39832 39832 0.1148076933586708 VLLLEDVK 8 Unmodified _VLLLEDVK_ 0 0 0 ENSG00000221843|ENST00000447166|C2orf16 ENSG00000221843|ENST00000447166|C2orf16 ENSG00000221843|ENST00000447166|C2orf16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.79278564453125 2 464.789318 927.564084 NaN NaN NaN NaN NaN NaN NaN 25.939 1 26.207 25.707 26.707 0.26777 0 0 0 0.99035 1 11780 11780 0.69038 0 1 35519 6147 22654 22723 39833 39833 0.09740412734140591 VLLLHYRP 8 Unmodified _VLLLHYRP_ 0 0 0 REV__ENSG00000183856|ENST00000361170|IQGAP3 REV__ENSG00000183856|ENST00000361170|IQGAP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.54229736328125 3 337.543038 1009.60729 NaN NaN NaN NaN NaN NaN NaN 11.425 1 11.732 11.232 12.232 0.30727 0 0 0 0.99035 1 5171 5171 0.45834 0.45834 1 + 35520 13950 22655 22724 39834 39834 0.1028664730207538 VLLLIIYL 8 Unmodified _VLLLIIYL_ 0 0 0 ENSG00000175077|ENST00000312295|RTP1 ENSG00000175077|ENST00000312295|RTP1 ENSG00000175077|ENST00000312295|RTP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.3296203613281 2 480.330622 958.646691 NaN NaN NaN NaN NaN NaN NaN 102.51 1 103.11 102.61 103.61 0.59759 0 0 0 0.99035 1 47446 47446 0 0 1 35521 5012 22656 22725 39835 39835 0.16571354532936766 VLLLILIK 8 Unmodified _VLLLILIK_ 0 0 0 REV__ENSG00000137392|ENST00000259938|CLPS REV__ENSG00000137392|ENST00000259938|CLPS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 308.90069580078125 3 308.900052 923.678326 NaN NaN NaN NaN NaN NaN NaN 11.363 1 11.642 11.142 12.142 0.2792 0 0 0 0.99035 1 4930 4930 0.45834 0 1 + 35522 12109 22657 22726 39836 39836 0.2134334728690419 VLLLKKKKKKK 11 Unmodified _VLLLKKKKKKK_ 0 0 0 ENST00000378289.8_1_10:14940166-14940367:-|nuORF ENST00000378289.8_1_10:14940166-14940367:-|nuORF ENST00000378289.8_1_10:14940166-14940367:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.3748779296875 2 677.505232 1352.99591 NaN NaN NaN NaN NaN NaN NaN 83.106 1 83.151 82.651 83.651 0.045006 0 0 0 1.0082 1 41164 41164 0 0 1 35523 7431 22658 22727 39837 39837 0.3335335482327082 VLLLKKKKKKK 11 Unmodified _VLLLKKKKKKK_ 0 0 0 ENST00000378289.8_1_10:14940166-14940367:-|nuORF ENST00000378289.8_1_10:14940166-14940367:-|nuORF ENST00000378289.8_1_10:14940166-14940367:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 677.5037231445312 2 677.505232 1352.99591 NaN NaN NaN NaN NaN NaN NaN 95.361 1 95.443 94.943 95.943 0.082001 0 0 0 1.0082 1 50386 50386 0 0 1 35524 7431 22658 22727 39838 39838 0.3335335482327082 VLLLKKLHK 9 Unmodified _VLLLKKLHK_ 0 0 0 REV__ENSG00000118322|ENST00000327245|ATP10B REV__ENSG00000118322|ENST00000327245|ATP10B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.3868408203125 2 546.386794 1090.75904 NaN NaN NaN NaN NaN NaN NaN 100.14 1 100.74 100.24 101.24 0.59717 0 0 0 0.91452 1 46342 46342 0 0 1 + 35525 11469 22659 22728 39839 39839 0.2172862832978808 VLLLKLRKRHR 11 Unmodified _VLLLKLRKRHR_ 0 0 0 ENSG00000090776|ENST00000204961|EFNB1 ENSG00000090776|ENST00000204961|EFNB1 ENSG00000090776|ENST00000204961|EFNB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 716.4906616210938 2 716.490979 1430.96741 NaN NaN NaN NaN NaN NaN NaN 41.699 1 42.508 42.008 43.008 0.80855 0 0 0 1.0082 1 18926 18926 0 0 1 35526 1067 22660 22729 39840 39840 0.2691604996668957 VLLLLLFIIVF 11 Unmodified _VLLLLLFIIVF_ 0 0 0 ENSG00000179363|ENST00000319560|TMEM31 ENSG00000179363|ENST00000319560|TMEM31 ENSG00000179363|ENST00000319560|TMEM31 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 651.9429931640625 2 651.943611 1301.87267 NaN NaN NaN NaN NaN NaN NaN 48.179 1 49.008 48.508 49.508 0.82915 0 0 0 1.0082 1 21948 21948 0 0 1 35527 5214 22661 22730 39841 39841 0.23380678652165443 VLLLLLFLK 9 Unmodified _VLLLLLFLK_ 0 0 0 nc|ENSG00000240935|Q15195|PLGLA;ENSG00000183281|ENST00000355705|PLGLB1;ENSG00000125551|ENST00000359481|PLGLB2;nc|ENSG00000290613|Q16609|LPAL2;PLG|p.Q740Ifs*14|1|0.04|ENSG00000122194|chr6:160752207-160752208|CA/-|frameshift_variant;ENSG00000122194|ENST00000308192|PLG;ENSG00000198670|ENST00000316300|LPA nc|ENSG00000240935|Q15195|PLGLA nc|ENSG00000240935|Q15195|PLGLA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.3795166015625 2 536.380646 1070.74674 NaN NaN NaN NaN NaN NaN NaN 93.687 1 93.773 93.273 94.273 0.086212 0 0 0 0.91452 1 49142 49142 0 0 1 35528 2260 22662 22731 39842 39842 0.2141959186674285 VLLLLLLLLL 10 Unmodified _VLLLLLLLLL_ 0 0 0 ENSG00000114554|ENST00000393409|PLXNA1;ENST00000413911.1_1_2:191745560-191746172:-|nuORF;ENST00000395811.9_1_17:17088208-17088493:+|nuORF;nc|ENSG00000213402|Q14761|PTPRCAP;nc|ENSG00000131042|Q8N423-4|LILRB2;nc|ENSG00000131042|Q8N423-3|LILRB2;ENSG00000131042|ENST00000314446|LILRB2;nc|ENSG00000131042|Q8N423-1|LILRB2;ENSG00000161921|ENST00000293778|CXCL16 ENSG00000114554|ENST00000393409|PLXNA1;ENSG00000161921|ENST00000293778|CXCL16;REV__ENSG00000142538|ENST00000270631|PTH2 ENSG00000114554|ENST00000393409|PLXNA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.4310913085938 2 568.425054 1134.83555 NaN NaN NaN NaN NaN NaN NaN 85.752 1 85.78 85.28 86.28 0.028603 0 0 0 1.002 1 42993 42993 0 0 1 35529 1912;4109;12330 22663 22732 39843 39843 0.273530071064215 VLLLLLLLLLL 11 Unmodified _VLLLLLLLLLL_ 0 0 0 ENSG00000114554|ENST00000393409|PLXNA1;ENST00000413911.1_1_2:191745560-191746172:-|nuORF;ENST00000395811.9_1_17:17088208-17088493:+|nuORF ENSG00000114554|ENST00000393409|PLXNA1 ENSG00000114554|ENST00000393409|PLXNA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 624.5224609375 2 624.967086 1247.91962 NaN NaN NaN NaN NaN NaN NaN 68.72 1 69.422 68.922 69.922 0.70218 0 0 0 1.0082 1 32789 32789 0 0 1 35530 1912 22664 22733 39844 39844 0.30557538203333934 VLLLLLLQPP 10 Unmodified _VLLLLLLQPP_ 0 0 0 ENSG00000277150|ENST00000622749|F8A3 ENSG00000277150|ENST00000622749|F8A3 ENSG00000277150|ENST00000622749|F8A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.882080078125 2 559.88101 1117.74747 NaN NaN NaN NaN NaN NaN NaN 97.084 1 97.361 96.861 97.861 0.27778 0 0 0 0.99733 1 44594 44594 3.9444 0 1 35531 6351 22665 22734 39845 39845 0.19330386515798637 VLLLLLLRRR 10 Unmodified _VLLLLLLRRR_ 0 0 0 REV__LMTK2|p.L262Cfs*5|1|0.17|ENSG00000164715|chr7:98171666-98171666|C/-|frameshift_variant REV__LMTK2|p.L262Cfs*5|1|0.17|ENSG00000164715|chr7:98171666-98171666|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 633.0299682617188 2 632.950624 1263.8867 NaN NaN NaN NaN NaN NaN NaN 98.386 1 98.686 98.186 99.186 0.29987 0 0 0 1.0015 1 45310 45310 0.45834 0 1 + 35532 13109 22666 22735 39846 39846 0.26530768923839787 VLLLLVRKKRK 11 Unmodified _VLLLLVRKKRK_ 0 0 0 ENST00000567674.1_1_16:68721613-68732300:+|nuORF;nc|ENSG00000062038|P22223-2|CDH3;ENST00000542274.5_1_16:68679206-68732300:+|nuORF;ENSG00000062038|ENST00000264012|CDH3 ENST00000567674.1_1_16:68721613-68732300:+|nuORF ENST00000567674.1_1_16:68721613-68732300:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 683.49169921875 2 683.492656 1364.97076 NaN NaN NaN NaN NaN NaN NaN 74.235 1 74.235 73.735 74.735 0 0 0 0 1.0082 1 36249 36249 0 0 1 35533 652 22667 22736 39847 39847 0.30287300020722796 VLLQLLLLVPL 11 Unmodified _VLLQLLLLVPL_ 0 0 0 REV__ENSG00000164399|ENST00000296870|IL3 REV__ENSG00000164399|ENST00000296870|IL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 617.4373779296875 2 617.430867 1232.84718 NaN NaN NaN NaN NaN NaN NaN 104.58 1 105.18 104.68 105.68 0.59885 0 0 0 1.0082 1 48311 48311 0 0 1 + 35534 13090 22668 22737 39848 39848 0.24007204129770798 VLLRIHLV 8 Unmodified _VLLRIHLV_ 0 0 0 REV__POLI|p.G322Dfs*33|1|0.28|ENSG00000101751|chr18:54283004-54283004|G/-|frameshift_variant REV__POLI|p.G322Dfs*33|1|0.28|ENSG00000101751|chr18:54283004-54283004|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 481.8299255371094 2 481.829112 961.643671 NaN NaN NaN NaN NaN NaN NaN 35.822 1 36.613 36.113 37.113 0.79131 0 0 0 0.99035 1 16236 16236 0.79363 0 1 + 35535 18202 22669 22738 39849 39849 0.16131524198806346 VLLRQGFH 8 Unmodified _VLLRQGFH_ 0 0 0 REV__DOCK7|p.E1876Lfs*12|1|0.03|ENSG00000116641|chr1:62476133-62476134|-/GTGCAATTTTGTTTGAGAAAGA|frameshift_variant REV__DOCK7|p.E1876Lfs*12|1|0.03|ENSG00000116641|chr1:62476133-62476134|-/GTGCAATTTTGTTTGAGAAAGA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2877502441406 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 62.217 1 62.877 62.377 63.377 0.66008 0 0 0 0.99035 1 28509 28509 2.8892 0 1 + 35536 10136 22670 22739 39850 39850 0.07004903608185487 VLLTALDP 8 Unmodified _VLLTALDP_ 0 0 0 nc|ENSG00000229921|Q9Y6Z4-2|KIF25-AS1 nc|ENSG00000229921|Q9Y6Z4-2|KIF25-AS1 nc|ENSG00000229921|Q9Y6Z4-2|KIF25-AS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.2565002441406 2 421.255111 840.49567 NaN NaN NaN NaN NaN NaN NaN 35.321 1 35.946 35.446 36.446 0.62554 0 0 0 0.99035 1 16183 16183 5.7604 0 1 35537 9839 22671 22740 39851 39851 0.06904168154278523 VLLTVVLP 8 Unmodified _VLLTVVLP_ 0 0 0 REV__nc|ENSG00000284922|Q8WZ04|TOMT REV__nc|ENSG00000284922|Q8WZ04|TOMT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 427.2920227050781 2 427.291497 852.568441 NaN NaN NaN NaN NaN NaN NaN 83.984 1 84.231 83.731 84.731 0.24722 0 0 0 0.99035 1 38656 38656 2.3027 0 1 + 35538 18166 22672 22741 39852 39852 0.13625921947698316 VLLVATPGV 9 Unmodified _VLLVATPGV_ 0 0 0 ENST00000335515.10_2_6:41749076-41749232:+|nuORF;ENST00000456057.5_2_6:41748514-41749232:+|nuORF ENST00000335515.10_2_6:41749076-41749232:+|nuORF ENST00000335515.10_2_6:41749076-41749232:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.7813720703125 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 54.246 1 54.511 54.011 55.011 0.26462 0 0 0 0.90699 1 24805 24805 1.8442 1.0506 1 35539 7021 22673 22742 39853 39853 0.10388447425293634 VLLVEKDR 8 Unmodified _VLLVEKDR_ 0 0 0 nc|ENSG00000173588|Q9Y592-2|CEP83;ENSG00000173588|ENST00000397809|CEP83 nc|ENSG00000173588|Q9Y592-2|CEP83 nc|ENSG00000173588|Q9Y592-2|CEP83 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.58673095703125 2 486.297842 970.581131 NaN NaN NaN NaN NaN NaN NaN 6.3425 1 6.6823 6.1823 7.1823 0.33974 0 0 0 0.99035 1 2868 2868 0.69038 0 1 35540 4943 22674 22743 39854 39854 0.09466333339946686 VLLVLKLGKL 10 Unmodified _VLLVLKLGKL_ 0 0 0 REV__ENSG00000177558|ENST00000324675|FAM187B REV__ENSG00000177558|ENST00000324675|FAM187B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.4271850585938 2 548.396828 1094.7791 NaN NaN NaN NaN NaN NaN NaN 63.236 1 63.236 62.736 63.736 0 0 0 0 1.002 1 29729 29729 0 0 1 + 35541 13739 22675 22744 39855 39855 0.2355037926975001 VLLVVKLLLL 10 Unmodified _VLLVVKLLLL_ 0 0 0 ENST00000555988.1_2_14:75356010-75360059:+|nuORF ENST00000555988.1_2_14:75356010-75360059:+|nuORF ENST00000555988.1_2_14:75356010-75360059:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.847412109375 2 561.914853 1121.81515 NaN NaN NaN NaN NaN NaN NaN 105.64 1 106.24 105.74 106.74 0.59969 0 0 0 1.002 1 48788 48788 0 0 1 35542 8921 22676 22745 39856 39856 0.2591183644663033 VLLVVKLLLLR 11 Unmodified _VLLVVKLLLLR_ 0 0 0 ENST00000555988.1_2_14:75356010-75360059:+|nuORF ENST00000555988.1_2_14:75356010-75360059:+|nuORF ENST00000555988.1_2_14:75356010-75360059:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 640.2406005859375 2 639.965409 1277.91626 NaN NaN NaN NaN NaN NaN NaN 94.764 1 94.764 94.264 95.264 0 0 0 0 1.008 1 50912 50912 0.35063 0 1 35543 8921 22677 22746 39857 39857 0.28842288149326123 VLLWKHNMRI 10 Unmodified _VLLWKHNMRI_ 0 0 0 ENSG00000198198|ENST00000634258|SZT2;nc|ENSG00000198198|Q5T011-5|SZT2;nc|ENSG00000198198|Q5T011-4|SZT2 ENSG00000198198|ENST00000634258|SZT2 ENSG00000198198|ENST00000634258|SZT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2588806152344 3 437.256904 1308.74888 3.559 0.0015562 0.33006 0.00014432 3.8891 0.0017005 437.2569287342316 94.44 0.9575 94.699 94.569 95.527 0.25975 86 55 2 0 0 0 0.94099 1 43414 43414 0.69767 0.24315 1 643350 35544 5875 22678 22747 39858 39858 0.10685697332905875 VLLYFKKAK 9 Unmodified _VLLYFKKAK_ 0 0 0 ENST00000373218.4_1_10:72182299-72182347:+|nuORF ENST00000373218.4_1_10:72182299-72182347:+|nuORF ENST00000373218.4_1_10:72182299-72182347:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.357666015625 2 555.357702 1108.70085 NaN NaN NaN NaN NaN NaN NaN 57.133 1 57.133 56.633 57.633 0 0 0 0 0.89683 1 26324 26324 4.3292 0 1 35545 7354 22679 22748 39859 39859 0.15084946684487477 VLMAQKEGKR 10 Unmodified _VLMAQKEGKR_ 0 0 0 ENSG00000170949|ENST00000683776|ZNF160 ENSG00000170949|ENST00000683776|ZNF160 ENSG00000170949|ENST00000683776|ZNF160 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 580.3368530273438 2 580.334433 1158.65431 3.3736 0.0019578 0.71442 0.0004146 4.088 0.0023724 580.3347855239552 61.975 0.33404 62.227 62.075 62.409 0.25245 48 18 4 0 0 0 0.24154 1 28403 28403 34.402 1.616 1 3799900 35546 4778 22680 22749 39860 39860 0.08133138790913108 VLMARRRLAR 10 Unmodified _VLMARRRLAR_ 0 0 0 ENST00000590064.1_1_19:3753732-3753969:-|nuORF;ENST00000588984.5_1_19:3751026-3754498:-|nuORF;ENSG00000011132|ENST00000316757|APBA3 ENST00000590064.1_1_19:3753732-3753969:-|nuORF ENST00000590064.1_1_19:3753732-3753969:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.5982971191406 3 414.596031 1240.76626 NaN NaN NaN NaN NaN NaN NaN 108.91 1 109.22 108.72 109.72 0.31168 0 0 0 1.0018 1 50217 50217 0.15932 0 1 35547 408 22681 22750 39861 39861 0.15551037658565292 VLMARRRLAR 10 Unmodified _VLMARRRLAR_ 0 0 0 ENST00000590064.1_1_19:3753732-3753969:-|nuORF;ENST00000588984.5_1_19:3751026-3754498:-|nuORF;ENSG00000011132|ENST00000316757|APBA3 ENST00000590064.1_1_19:3753732-3753969:-|nuORF ENST00000590064.1_1_19:3753732-3753969:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.5989074707031 3 414.596031 1240.76626 NaN NaN NaN NaN NaN NaN NaN 109.09 1 109.4 108.9 109.9 0.31168 0 0 0 1.0018 1 50296 50296 0.15932 0.036457 1 35548 408 22681 22750 39862 39862 0.15551037658565292 VLMARRRLAR 10 Unmodified _VLMARRRLAR_ 0 0 0 ENST00000590064.1_1_19:3753732-3753969:-|nuORF;ENST00000588984.5_1_19:3751026-3754498:-|nuORF;ENSG00000011132|ENST00000316757|APBA3 ENST00000590064.1_1_19:3753732-3753969:-|nuORF ENST00000590064.1_1_19:3753732-3753969:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.5985412597656 3 414.596031 1240.76626 NaN NaN NaN NaN NaN NaN NaN 109.22 1 109.53 109.03 110.03 0.31015 0 0 0 1.0018 1 50353 50353 0.15932 0 1 35549 408 22681 22750 39863 39863 0.15551037658565292 VLMIKALEL 9 Unmodified _VLMIKALEL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.3236694335938 2 515.322471 1028.63039 3.2847 0.0016927 -0.30606 -0.00015772 2.9787 0.001535 515.3225500575438 76.963 0.24742 77.219 77.087 77.335 0.25533 44 21 3 0 0 0 0.024388 2 35441 35441;35490 62.573 20.733 1 952320 35550 1207 22682 22751 39864;39865 39864 0.11721905304511893 VLMIKALEL 9 Unmodified _VLMIKALEL_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9 ENSG00000100345|ENST00000216181|MYH9 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.3241577148438 2 515.322471 1028.63039 3.117 0.0016063 -0.43478 -0.00022405 2.6822 0.0013822 515.3223617198792 76.509 0.2177 77.173 77.029 77.247 0.66387 28 16 2 0 0 0 0.057744 1 35231 35231 43.858 13.222 1 826450 35551 1207 22682 22751 39866 39866 0.11721905304511893 VLMIRMLR 8 Unmodified _VLMIRMLR_ 0 0 0 nc|ENSG00000164251|P55085|F2RL1;ENSG00000164251|ENST00000296677|F2RL1 nc|ENSG00000164251|P55085|F2RL1 nc|ENSG00000164251|P55085|F2RL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.54608154296875 3 344.545397 1030.61436 3.2374 0.0011154 -0.99066 -0.00034133 2.2467 0.00077409 344.54492009745377 95.665 0.37422 95.933 95.771 96.145 0.2675 48 20 3 0 0 0 0.7471 1 43982 43982 0.45834 0 1 953880 35552 4299 22683 22752 39867 39867 0.10027920586617256 VLMIRMLR 8 Unmodified _VLMIRMLR_ 0 0 0 nc|ENSG00000164251|P55085|F2RL1;ENSG00000164251|ENST00000296677|F2RL1 nc|ENSG00000164251|P55085|F2RL1 nc|ENSG00000164251|P55085|F2RL1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 344.545397 1030.61436 3.2374 0.0011154 -0.99066 -0.00034133 2.2467 0.00077409 344.54492009745377 95.665 0.37422 95.933 95.771 96.145 0.2675 0.055441 -0.00017061 NaN 0.45834 48 20 3 NaN NaN NaN NaN 0 NaN NaN 0 953880 35553 4299 22683 22752 0.10027920586617256 VLMIRMLR 8 Unmodified _VLMIRMLR_ 0 0 0 nc|ENSG00000164251|P55085|F2RL1;ENSG00000164251|ENST00000296677|F2RL1 nc|ENSG00000164251|P55085|F2RL1 nc|ENSG00000164251|P55085|F2RL1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 344.545397 1030.61436 2.5933 0.0008935 -0.66836 -0.00023028 1.9249 0.00066322 344.54505664954195 95.204 0.35043 95.822 95.618 95.968 0.61736 -0.055441 0.00016253 NaN 0.45834 40 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1462600 35554 4299 22683 22752 0.10027920586617256 VLMKGKPR 8 Unmodified _VLMKGKPR_ 0 0 0 ENSG00000094914|ENST00000209873|AAAS;ENST00000550033.5_1_12:53701834-53703447:-|nuORF;nc|ENSG00000094914|Q9NRG9-2|AAAS ENSG00000094914|ENST00000209873|AAAS ENSG00000094914|ENST00000209873|AAAS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 310.1965637207031 3 310.196874 927.568792 NaN NaN NaN NaN NaN NaN NaN 25.795 1 26.559 26.059 27.059 0.76356 0 0 0 0.99035 1 11581 11581 3.5965 2.1146 1 35555 1111 22684 22753 39868 39868 0.10211018395921201 VLMLPLLCTCG 11 Unmodified _VLMLPLLCTCG_ 0 0 0 REV__chr21:44865447-44871872|119|54.61|0.69|6.3|-|0|PTTG1IP,None|1 REV__chr21:44865447-44871872|119|54.61|0.69|6.3|-|0|PTTG1IP,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.1921997070312 2 581.805274 1161.59599 NaN NaN NaN NaN NaN NaN NaN 2.1217 1 2.7433 2.2433 3.2433 0.62157 0 0 0 1.0082 1 966 966 0 0 1 + 35556 10043 22685 22754 39869 39869 0.021659978297975613 VLMLPLLCTCG 11 Unmodified _VLMLPLLCTCG_ 0 0 0 REV__chr21:44865447-44871872|119|54.61|0.69|6.3|-|0|PTTG1IP,None|1 REV__chr21:44865447-44871872|119|54.61|0.69|6.3|-|0|PTTG1IP,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.0255126953125 2 581.805274 1161.59599 NaN NaN NaN NaN NaN NaN NaN 2.7841 1 3.4062 2.9062 3.9062 0.6221 0 0 0 1.0082 1 1266 1266 0 0 1 + 35557 10043 22685 22754 39870 39870 0.021659978297975613 VLMLPLLCTCG 11 Unmodified _VLMLPLLCTCG_ 0 0 0 REV__chr21:44865447-44871872|119|54.61|0.69|6.3|-|0|PTTG1IP,None|1 REV__chr21:44865447-44871872|119|54.61|0.69|6.3|-|0|PTTG1IP,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.1912841796875 2 581.805274 1161.59599 NaN NaN NaN NaN NaN NaN NaN 3.1345 1 3.7566 3.2566 4.2566 0.6221 0 0 0 1.0082 1 1425 1425 0 0 1 + 35558 10043 22685 22754 39871 39871 0.021659978297975613 VLMPSPRIW 9 Unmodified _VLMPSPRIW_ 0 0 0 nc|ENSG00000174370|Q8TAV5|KCNJ5-AS1 nc|ENSG00000174370|Q8TAV5|KCNJ5-AS1 nc|ENSG00000174370|Q8TAV5|KCNJ5-AS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.5292358398438 2 549.810062 1097.60557 NaN NaN NaN NaN NaN NaN NaN 96.79 1 96.79 96.29 97.29 0 0 0 0 0.72654 1 52480 52480 11.64 0.81637 1 35559 9756 22686 22755 39872 39872 0.06067270221819854 VLNKVPVKHRL 11 Unmodified _VLNKVPVKHRL_ 0 0 0 ENSG00000091009|ENST00000265271|RBM27 ENSG00000091009|ENST00000265271|RBM27 ENSG00000091009|ENST00000265271|RBM27 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 651.92431640625 2 651.922064 1301.82957 NaN NaN NaN NaN NaN NaN NaN 74.762 1 75.02 74.52 75.52 0.25831 0 0 0 1.0065 1 34396 34396 4.897 1.9018 1 35560 1070 22687 22756 39873 39873 0.19073301647449625 VLNVWVTKWTR 11 Unmodified _VLNVWVTKWTR_ 0 0 0 REV__ENST00000354386.10_1_14:58958922-58965549:+|nuORF REV__ENST00000354386.10_1_14:58958922-58965549:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 701.20263671875 2 701.403704 1400.79285 3.27 0.0022936 -2.4137 -0.001693 0.85636 0.00060066 701.9039564158047 91.581 0.029388 91.581 91.572 91.601 0 6 4 2 0 0 0 0.13295 1 48427 48427 3.2813 0.28607 1 10115000 + 35561 15532 22688 22757 39874 39874 0.10849005030877379 VLPARYFYI 9 Unmodified _VLPARYFYI_ 0 0 0 ENSG00000134901|ENST00000376004|POGLUT2;ENST00000460338.5_1_13:103443606-103451020:-|nuORF ENSG00000134901|ENST00000376004|POGLUT2 ENSG00000134901|ENST00000376004|POGLUT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.3258666992188 2 571.32386 1140.63317 3.0259 0.0017288 -1.0002 -0.00057146 2.0256 0.0011573 571.3235060951414 69.973 0.29476 70.676 70.527 70.822 0.70302 74 35 3 0 0 0 0.09451 1 33485 33485 34.102 13.688 1 3761900 35562 2837 22689 22758 39875 39875 0.06847496753721316 VLPARYFYI 9 Unmodified _VLPARYFYI_ 0 0 0 ENSG00000134901|ENST00000376004|POGLUT2;ENST00000460338.5_1_13:103443606-103451020:-|nuORF ENSG00000134901|ENST00000376004|POGLUT2 ENSG00000134901|ENST00000376004|POGLUT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.3258056640625 2 571.32386 1140.63317 3.2223 0.001841 0.034873 1.9924E-05 3.2571 0.0018609 571.3239098932784 70.848 0.31228 71.104 70.937 71.25 0.25642 56 23 3 0 0 0 0.032303 1 32459 32459 54.774 20.372 1 1731800 35563 2837 22689 22758 39876 39876 0.06847496753721316 VLPARYFYI 9 Unmodified _VLPARYFYI_ 0 0 0 ENSG00000134901|ENST00000376004|POGLUT2;ENST00000460338.5_1_13:103443606-103451020:-|nuORF ENSG00000134901|ENST00000376004|POGLUT2 ENSG00000134901|ENST00000376004|POGLUT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.325927734375 2 571.32386 1140.63317 3.2083 0.001833 0.2336 0.00013346 3.4419 0.0019665 571.3241016514445 70.31 0.33971 70.972 70.771 71.11 0.66208 45 19 3 0 0 0 0.025323 2 32233 32233;32277 61.357 33.729 1 2057500 35564 2837 22689 22758 39877;39878 39877 0.06847496753721316 VLPARYFYI 9 Unmodified _VLPARYFYI_ 0 0 0 ENSG00000134901|ENST00000376004|POGLUT2;ENST00000460338.5_1_13:103443606-103451020:-|nuORF ENSG00000134901|ENST00000376004|POGLUT2 ENSG00000134901|ENST00000376004|POGLUT2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 571.32386 1140.63317 2.8782 0.0016444 0.27503 0.00015713 3.1532 0.0018015 571.323804223587 70.954 0.2791 70.954 70.806 71.085 0 0.027371 0.00030179 NaN 61.357 76 29 3 NaN NaN NaN NaN 0 NaN NaN 0 3593100 35565 2837 22689 22758 0.06847496753721316 VLPEVLEDS 9 Unmodified _VLPEVLEDS_ 0 0 0 nc|ENSG00000116678|P48357-2|LEPR;nc|ENSG00000116678|P48357-4|LEPR;nc|ENSG00000116678|P48357-3|LEPR;ENSG00000116678|ENST00000349533|LEPR;nc|ENSG00000116678|P48357-5|LEPR nc|ENSG00000116678|P48357-2|LEPR nc|ENSG00000116678|P48357-2|LEPR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.76531982421875 2 500.763497 999.512442 NaN NaN NaN NaN NaN NaN NaN 96.471 1 96.548 96.048 97.048 0.076538 0 0 0 0.69911 1 51277 51277 12.532 3.1841 1 35566 2038 22690 22759 39879 39879 0.012666242495697588 VLPGHFNTF 9 Unmodified _VLPGHFNTF_ 0 0 0 ENSG00000176055|ENST00000316610|MBLAC2 ENSG00000176055|ENST00000316610|MBLAC2 ENSG00000176055|ENST00000316610|MBLAC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.2704467773438 2 516.269084 1030.52362 3.3462 0.0017275 -0.22616 -0.00011676 3.12 0.0016108 516.2690017630654 53.044 0.4447 53.044 52.779 53.224 0 50 24 3 0 0 0 0.063575 3 24280 24221;24280;24343 41.84 15.571 1 804850 35567 5061 22691 22760 39880;39881;39882 39881 0.009574911343634085 VLPGHFNTF 9 Unmodified _VLPGHFNTF_ 0 0 0 ENSG00000176055|ENST00000316610|MBLAC2 ENSG00000176055|ENST00000316610|MBLAC2 ENSG00000176055|ENST00000316610|MBLAC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.2694091796875 2 516.269084 1030.52362 2.8366 0.0014644 -1.0036 -0.00051815 1.8329 0.00094629 516.2684116387411 51.955 0.3955 52.766 52.557 52.952 0.81065 47 26 2 0 0 0 0.052704 4 23665 23618;23665;23726;23737 46.021 18.392 1 1077900 35568 5061 22691 22760 39883;39884;39885;39886 39884 0.009574911343634085 VLPGHFNTF 9 Unmodified _VLPGHFNTF_ 0 0 0 ENSG00000176055|ENST00000316610|MBLAC2 ENSG00000176055|ENST00000316610|MBLAC2 ENSG00000176055|ENST00000316610|MBLAC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.2705078125 2 516.269084 1030.52362 3.5061 0.0018101 -0.33135 -0.00017107 3.1747 0.001639 516.2689755682444 52.758 0.29361 53.022 52.824 53.118 0.26345 19 11 2 0 0 0 0.10837 1 24087 24087 30.637 14.487 1 343070 35569 5061 22691 22760 39887 39887 0.009574911343634085 VLPGHFNTF 9 Unmodified _VLPGHFNTF_ 0 0 0 ENSG00000176055|ENST00000316610|MBLAC2 ENSG00000176055|ENST00000316610|MBLAC2 ENSG00000176055|ENST00000316610|MBLAC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.270751953125 2 516.269084 1030.52362 3.2465 0.0016761 0.488 0.00025194 3.7345 0.001928 516.2691444016842 52.272 0.36837 52.934 52.778 53.146 0.66198 31 15 3 0 0 0 0.09451 2 23896 23896;23954 34.102 18.255 1 311990 35570 5061 22691 22760 39888;39889 39888 0.009574911343634085 VLPGKKKKKT 10 Unmodified _VLPGKKKKKT_ 0 0 0 ENSG00000150990|ENST00000308736|DHX37 ENSG00000150990|ENST00000308736|DHX37 ENSG00000150990|ENST00000308736|DHX37 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1126.7685546875 1 1126.76704 1125.75976 3.5458 0.0039953 -2.1612 -0.0024351 1.3847 0.0015602 1126.7637733390868 103.92 0.029221 104.52 104.5 104.53 0.59821 9 5 2 0 0 0 0.9427 1 48061 48061 0.35063 0.35063 1 4716100 35571 3684 22692 22761 39890 39890 0.20191422978814444 VLPIRVHTI 9 Unmodified _VLPIRVHTI_ 0 0 0 nc|ENSG00000168906|P31153-2|MAT2A;ENSG00000168906|ENST00000306434|MAT2A nc|ENSG00000168906|P31153-2|MAT2A nc|ENSG00000168906|P31153-2|MAT2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 349.89483642578125 3 349.89396 1046.66005 2.2442 0.00078522 0.36873 0.00012902 2.6129 0.00091423 349.89401756495226 43.986 0.24026 44.807 44.69 44.93 0.82075 21 17 2 0 0 0 0.091193 1 20015 20015 34.932 11.142 1 1036900 35572 4659 22693 22762 39891 39891 0.13858605364907817 VLPIRVHTI 9 Unmodified _VLPIRVHTI_ 0 0 0 nc|ENSG00000168906|P31153-2|MAT2A;ENSG00000168906|ENST00000306434|MAT2A nc|ENSG00000168906|P31153-2|MAT2A nc|ENSG00000168906|P31153-2|MAT2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 349.8951416015625 3 349.89396 1046.66005 2.3485 0.00082174 0.34244 0.00011982 2.691 0.00094155 349.8939893143018 44.698 0.2727 44.966 44.764 45.037 0.26768 19 12 2 0 0 0 0.21127 1 20437 20437 22.658 4.285 1 824390 35573 4659 22693 22762 39892 39892 0.13858605364907817 VLPIRVHTI 9 Unmodified _VLPIRVHTI_ 0 0 0 nc|ENSG00000168906|P31153-2|MAT2A;ENSG00000168906|ENST00000306434|MAT2A nc|ENSG00000168906|P31153-2|MAT2A nc|ENSG00000168906|P31153-2|MAT2A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 349.89396 1046.66005 2.5817 0.0009033 0.05937 2.0773E-05 2.641 0.00092408 349.8939313854502 44.063 0.17303 44.713 44.602 44.775 0.64998 -0.11559 -0.00024902 NaN 34.932 10 5 2 NaN NaN NaN NaN 0 NaN NaN 0 801570 35574 4659 22693 22762 0.13858605364907817 VLPKKGWLL 9 Unmodified _VLPKKGWLL_ 0 0 0 ENST00000461838.5_1_13:28014569-28024229:-|nuORF;ENST00000493719.5_1_13:28014569-28024213:-|nuORF;ENST00000381120.7_1_13:28014569-28024670:-|nuORF;ENST00000484342.2_1_13:28014569-28024692:-|nuORF;ENST00000464753.1_1_13:28014569-28024306:-|nuORF ENST00000461838.5_1_13:28014569-28024229:-|nuORF ENST00000461838.5_1_13:28014569-28024229:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.3465576171875 2 527.344595 1052.67464 3.257 0.0017176 0.59646 0.00031454 3.8534 0.0020321 527.3448427406729 51.545 0.45274 51.545 51.33 51.783 0 49 25 3 0 0 0 0.22824 2 23639 23590;23639 23.148 10.617 1 576930 35575 7479 22694 22763 39893;39894 39894 0.1504067751304774 VLPKKGWLL 9 Unmodified _VLPKKGWLL_ 0 0 0 ENST00000461838.5_1_13:28014569-28024229:-|nuORF;ENST00000493719.5_1_13:28014569-28024213:-|nuORF;ENST00000381120.7_1_13:28014569-28024670:-|nuORF;ENST00000484342.2_1_13:28014569-28024692:-|nuORF;ENST00000464753.1_1_13:28014569-28024306:-|nuORF ENST00000461838.5_1_13:28014569-28024229:-|nuORF ENST00000461838.5_1_13:28014569-28024229:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.89990234375 3 351.898822 1052.67464 2.6346 0.00092711 0.090868 3.1976E-05 2.7255 0.00095908 351.8989241139885 51.562 0.44212 51.562 51.33 51.772 0 56 24 3 0 0 0 0.78763 1 23619 23619 7.609 2.7119 1 705050 35576 7479 22694 22763 39895 39895 0.1504067751304774 VLPKKGWLL 9 Unmodified _VLPKKGWLL_ 0 0 0 ENST00000461838.5_1_13:28014569-28024229:-|nuORF;ENST00000493719.5_1_13:28014569-28024213:-|nuORF;ENST00000381120.7_1_13:28014569-28024670:-|nuORF;ENST00000484342.2_1_13:28014569-28024692:-|nuORF;ENST00000464753.1_1_13:28014569-28024306:-|nuORF ENST00000461838.5_1_13:28014569-28024229:-|nuORF ENST00000461838.5_1_13:28014569-28024229:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.8999938964844 3 351.898822 1052.67464 2.2223 0.00078202 0.11905 4.1895E-05 2.3413 0.00082391 351.8989652657337 50.564 0.40199 51.381 51.202 51.604 0.81738 32 19 2 0 0 0 0.30982 1 23043 23043 16.149 3.9084 1 827730 35577 7479 22694 22763 39896 39896 0.1504067751304774 VLPKKGWLL 9 Unmodified _VLPKKGWLL_ 0 0 0 ENST00000461838.5_1_13:28014569-28024229:-|nuORF;ENST00000493719.5_1_13:28014569-28024213:-|nuORF;ENST00000381120.7_1_13:28014569-28024670:-|nuORF;ENST00000484342.2_1_13:28014569-28024692:-|nuORF;ENST00000464753.1_1_13:28014569-28024306:-|nuORF ENST00000461838.5_1_13:28014569-28024229:-|nuORF ENST00000461838.5_1_13:28014569-28024229:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.3466186523438 2 527.344595 1052.67464 3.0604 0.0016139 -0.068177 -3.5953E-05 2.9922 0.0015779 527.3445692360775 50.573 0.3119 51.391 51.268 51.58 0.81738 26 15 2 0 0 0 0.22824 1 23070 23070 23.148 10.617 1 658120 35578 7479 22694 22763 39897 39897 0.1504067751304774 VLPKKGWLL 9 Unmodified _VLPKKGWLL_ 0 0 0 ENST00000461838.5_1_13:28014569-28024229:-|nuORF;ENST00000493719.5_1_13:28014569-28024213:-|nuORF;ENST00000381120.7_1_13:28014569-28024670:-|nuORF;ENST00000484342.2_1_13:28014569-28024692:-|nuORF;ENST00000464753.1_1_13:28014569-28024306:-|nuORF ENST00000461838.5_1_13:28014569-28024229:-|nuORF ENST00000461838.5_1_13:28014569-28024229:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.3474731445312 2 527.344595 1052.67464 3.1628 0.0016679 1.0635 0.00056082 4.2262 0.0022287 527.3451003195407 50.626 0.19061 51.285 51.178 51.368 0.65956 13 9 2 0 0 0 0.22824 1 23154 23154 23.148 9.6405 1 325970 35579 7479 22694 22763 39898 39898 0.1504067751304774 VLPKKGWLL 9 Unmodified _VLPKKGWLL_ 0 0 0 ENST00000461838.5_1_13:28014569-28024229:-|nuORF;ENST00000493719.5_1_13:28014569-28024213:-|nuORF;ENST00000381120.7_1_13:28014569-28024670:-|nuORF;ENST00000484342.2_1_13:28014569-28024692:-|nuORF;ENST00000464753.1_1_13:28014569-28024306:-|nuORF ENST00000461838.5_1_13:28014569-28024229:-|nuORF ENST00000461838.5_1_13:28014569-28024229:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 527.344595 1052.67464 3.1405 0.0016561 -0.46925 -0.00024746 2.6712 0.0014087 527.344288438954 51.343 0.093178 51.605 51.548 51.641 0.26228 0.14855 -0.00098577 NaN 23.148 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 420340 35580 7479 22694 22763 0.1504067751304774 VLPKKGWLL 9 Unmodified _VLPKKGWLL_ 0 0 0 ENST00000461838.5_1_13:28014569-28024229:-|nuORF;ENST00000493719.5_1_13:28014569-28024213:-|nuORF;ENST00000381120.7_1_13:28014569-28024670:-|nuORF;ENST00000484342.2_1_13:28014569-28024692:-|nuORF;ENST00000464753.1_1_13:28014569-28024306:-|nuORF ENST00000461838.5_1_13:28014569-28024229:-|nuORF ENST00000461838.5_1_13:28014569-28024229:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 351.898822 1052.67464 2.3279 0.00081918 -0.0057958 -2.0395E-06 2.3221 0.00081714 352.23301415347413 50.638 0.30823 51.297 51.126 51.435 0.65956 -0.11616 -8.4645E-05 NaN 16.149 24 15 2 NaN NaN NaN NaN 0 NaN NaN 0 445960 35581 7479 22694 22763 0.1504067751304774 VLPKKGWLLFF 11 Unmodified _VLPKKGWLLFF_ 0 0 0 ENST00000461838.5_1_13:28014569-28024229:-|nuORF;ENST00000493719.5_1_13:28014569-28024213:-|nuORF;ENST00000381120.7_1_13:28014569-28024670:-|nuORF;ENST00000484342.2_1_13:28014569-28024692:-|nuORF;ENST00000464753.1_1_13:28014569-28024306:-|nuORF ENST00000461838.5_1_13:28014569-28024229:-|nuORF ENST00000461838.5_1_13:28014569-28024229:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 449.9457702636719 3 449.944431 1346.81146 2.7807 0.0012512 1.5406 0.00069318 4.3213 0.0019444 449.9442609596608 83.457 0.22113 83.704 83.509 83.731 0.24722 17 11 3 0 0 0 0.87362 1 38426 38426 1.4551 0.94916 1 227580 35582 7479 22695 22764 39899 39899 0.15193166672725056 VLPKLYVKL 9 Unmodified _VLPKLYVKL_ 0 0 0 ENSG00000197728|ENST00000646449|RPS26;ENST00000444468.1_1_X:128542382-128542532:+|nuORF;nc|ENSG00000196933|Q5JNZ5|RPS26P11;ENST00000471178.2_1_19:35024355-35024547:-|nuORF;ENST00000465478.1_1_8:93156318-93156576:-|nuORF ENSG00000197728|ENST00000646449|RPS26 ENSG00000197728|ENST00000646449|RPS26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 358.2433166503906 3 358.242477 1071.7056 2.6161 0.00093719 -0.13871 -4.9692E-05 2.4774 0.0008875 358.242375371932 58.025 0.37379 58.025 57.825 58.199 0 112 36 4 0 0 0 0.038142 2 26730 26730;26772 40.239 19.825 1 7497400 35583 5838 22696 22765 39900;39901 39900 0.17261830827260383 VLPKLYVKL 9 Unmodified _VLPKLYVKL_ 0 0 0 ENSG00000197728|ENST00000646449|RPS26;ENST00000444468.1_1_X:128542382-128542532:+|nuORF;nc|ENSG00000196933|Q5JNZ5|RPS26P11;ENST00000471178.2_1_19:35024355-35024547:-|nuORF;ENST00000465478.1_1_8:93156318-93156576:-|nuORF ENSG00000197728|ENST00000646449|RPS26 ENSG00000197728|ENST00000646449|RPS26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.86181640625 2 536.860078 1071.7056 3.0845 0.0016559 0.025908 1.3909E-05 3.1104 0.0016698 536.8600778338157 58.008 0.29916 58.008 57.856 58.155 0 75 29 3 0 0 0 0.063575 1 26743 26743 41.84 3.8656 1 4041300 35584 5838 22696 22765 39902 39902 0.17261830827260383 VLPKLYVKL 9 Unmodified _VLPKLYVKL_ 0 0 0 ENSG00000197728|ENST00000646449|RPS26;ENST00000444468.1_1_X:128542382-128542532:+|nuORF;nc|ENSG00000196933|Q5JNZ5|RPS26P11;ENST00000471178.2_1_19:35024355-35024547:-|nuORF;ENST00000465478.1_1_8:93156318-93156576:-|nuORF ENSG00000197728|ENST00000646449|RPS26 ENSG00000197728|ENST00000646449|RPS26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 358.243408203125 3 358.242477 1071.7056 2.1183 0.00075886 -0.010745 -3.8492E-06 2.1075 0.00075501 358.2424099993821 57.065 0.3055 57.843 57.671 57.977 0.77786 70 27 3 0 0 0 0.038142 1 26108 26108 40.239 13.016 1 6576900 35585 5838 22696 22765 39903 39903 0.17261830827260383 VLPKLYVKL 9 Unmodified _VLPKLYVKL_ 0 0 0 ENSG00000197728|ENST00000646449|RPS26;ENST00000444468.1_1_X:128542382-128542532:+|nuORF;nc|ENSG00000196933|Q5JNZ5|RPS26P11;ENST00000471178.2_1_19:35024355-35024547:-|nuORF;ENST00000465478.1_1_8:93156318-93156576:-|nuORF ENSG00000197728|ENST00000646449|RPS26 ENSG00000197728|ENST00000646449|RPS26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.86181640625 2 536.860078 1071.7056 2.971 0.001595 -0.36481 -0.00019585 2.6062 0.0013992 536.8598405174896 57.601 0.33608 57.866 57.71 58.046 0.26444 45 20 3 0 0 0 0.027384 2 26331 26331;26375 58.679 20.705 1 2286400 35586 5838 22696 22765 39904;39905 39904 0.17261830827260383 VLPKLYVKL 9 Unmodified _VLPKLYVKL_ 0 0 0 ENSG00000197728|ENST00000646449|RPS26;ENST00000444468.1_1_X:128542382-128542532:+|nuORF;nc|ENSG00000196933|Q5JNZ5|RPS26P11;ENST00000471178.2_1_19:35024355-35024547:-|nuORF;ENST00000465478.1_1_8:93156318-93156576:-|nuORF ENSG00000197728|ENST00000646449|RPS26 ENSG00000197728|ENST00000646449|RPS26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 358.24334716796875 3 358.242477 1071.7056 2.5464 0.00091223 0.021158 7.5798E-06 2.5676 0.00091981 358.2424300159689 57.597 0.31485 57.861 57.71 58.025 0.26444 58 19 4 0 0 0 0.020718 2 26383 26337;26383 51.63 25.362 1 4410000 35587 5838 22696 22765 39906;39907 39907 0.17261830827260383 VLPKLYVKL 9 Unmodified _VLPKLYVKL_ 0 0 0 ENSG00000197728|ENST00000646449|RPS26;ENST00000444468.1_1_X:128542382-128542532:+|nuORF;nc|ENSG00000196933|Q5JNZ5|RPS26P11;ENST00000471178.2_1_19:35024355-35024547:-|nuORF;ENST00000465478.1_1_8:93156318-93156576:-|nuORF ENSG00000197728|ENST00000646449|RPS26 ENSG00000197728|ENST00000646449|RPS26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.86181640625 2 536.860078 1071.7056 3.3188 0.0017817 0.024982 1.3412E-05 3.3438 0.0017952 536.8600436566264 57.049 0.256 57.718 57.551 57.807 0.66829 31 11 3 0 0 0 0.010018 2 26081 26081;26133 81.89 33.544 1 2724800 35588 5838 22696 22765 39908;39909 39908 0.17261830827260383 VLPKLYVKL 9 Unmodified _VLPKLYVKL_ 0 0 0 ENSG00000197728|ENST00000646449|RPS26;ENST00000444468.1_1_X:128542382-128542532:+|nuORF;nc|ENSG00000196933|Q5JNZ5|RPS26P11;ENST00000471178.2_1_19:35024355-35024547:-|nuORF;ENST00000465478.1_1_8:93156318-93156576:-|nuORF ENSG00000197728|ENST00000646449|RPS26 ENSG00000197728|ENST00000646449|RPS26 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 536.860078 1071.7056 2.8388 0.001524 -0.49744 -0.00026706 2.3414 0.001257 536.8596591747781 57.081 0.23357 57.858 57.706 57.94 0.77786 -0.0039919 -0.00037108 NaN 81.89 36 20 2 NaN NaN NaN NaN 0 NaN NaN 0 4471600 35589 5838 22696 22765 0.17261830827260383 VLPKLYVKL 9 Unmodified _VLPKLYVKL_ 0 0 0 ENSG00000197728|ENST00000646449|RPS26;ENST00000444468.1_1_X:128542382-128542532:+|nuORF;nc|ENSG00000196933|Q5JNZ5|RPS26P11;ENST00000471178.2_1_19:35024355-35024547:-|nuORF;ENST00000465478.1_1_8:93156318-93156576:-|nuORF ENSG00000197728|ENST00000646449|RPS26 ENSG00000197728|ENST00000646449|RPS26 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 358.242477 1071.7056 2.5854 0.0009262 0.40382 0.00014467 2.9892 0.0010709 358.24258426347825 57.053 0.33384 57.721 57.532 57.866 0.66829 -0.14126 0.00038803 NaN 51.63 39 14 3 NaN NaN NaN NaN 0 NaN NaN 0 5642800 35590 5838 22696 22765 0.17261830827260383 VLPLKRLILKL 11 Unmodified _VLPLKRLILKL_ 0 0 0 nc|ENSG00000121440|Q9UPQ7-2|PDZRN3;nc|ENSG00000121440|Q9UPQ7-3|PDZRN3;ENSG00000121440|ENST00000263666|PDZRN3 nc|ENSG00000121440|Q9UPQ7-2|PDZRN3 nc|ENSG00000121440|Q9UPQ7-2|PDZRN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 653.4715576171875 2 653.470858 1304.92716 NaN NaN NaN NaN NaN NaN NaN 98.35 1 98.35 97.85 98.85 0 0 0 0 1.0082 1 53813 53813 0 0 1 35591 2229 22697 22766 39910 39910 0.2868969052358352 VLPLKRLILKL 11 Unmodified _VLPLKRLILKL_ 0 0 0 nc|ENSG00000121440|Q9UPQ7-2|PDZRN3;nc|ENSG00000121440|Q9UPQ7-3|PDZRN3;ENSG00000121440|ENST00000263666|PDZRN3 nc|ENSG00000121440|Q9UPQ7-2|PDZRN3 nc|ENSG00000121440|Q9UPQ7-2|PDZRN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 653.4696044921875 2 653.470858 1304.92716 NaN NaN NaN NaN NaN NaN NaN 76.311 1 76.568 76.068 77.068 0.25704 0 0 0 1.0082 1 35133 35133 0 0 1 35592 2229 22697 22766 39911 39911 0.2868969052358352 VLPLLKIIK 9 Unmodified _VLPLLKIIK_ 0 0 0 nc|ENSG00000187627|P0DJD0|RGPD1;ENSG00000187627|ENST00000641458|RGPD1;ENSG00000185304|ENST00000398146|RGPD2;ENSG00000196862|ENST00000408999|RGPD4;ENSG00000153165|ENST00000409886|RGPD3;ENSG00000183054|ENST00000329516|RGPD6;ENSG00000169629|ENST00000302558|RGPD8;ENSG00000015568|ENST00000016946|RGPD5;nc|ENSG00000183054|Q99666-2|RGPD5;ENSG00000153201|ENST00000283195|RANBP2;RANBP2|p.T2182Hfs*3|1|0.08|ENSG00000153201|chr2:108767080-108767080|A/-|frameshift_variant nc|ENSG00000187627|P0DJD0|RGPD1;ENSG00000153201|ENST00000283195|RANBP2 ENSG00000153201|ENST00000283195|RANBP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1037.9012451171875 1 1036.74926 1035.74199 3.673 0.003808 -1.584 -0.0016422 2.089 0.0021658 1037.7488479015274 35.56 0.086609 36.351 36.272 36.359 0.79131 5 4 2 0 0 0 1.2459 1 16110 16110 0 0 1 354650 35593 3777;440 22698 22767 39912 39912 0.22554707723975298 VLPNRPFGLF 10 Unmodified _VLPNRPFGLF_ 0 0 0 ENSG00000005187|ENST00000289416|ACSM3 ENSG00000005187|ENST00000289416|ACSM3 ENSG00000005187|ENST00000289416|ACSM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 580.3338623046875 2 580.334759 1158.65496 NaN NaN NaN NaN NaN NaN NaN 60.957 1 61.697 61.197 62.197 0.7396 0 0 0 0.62767 1 28204 28204 26.884 5.137 1 35594 322 22699 22768 39913 39913 0.08198301502261529 VLPNRPFGLF 10 Unmodified _VLPNRPFGLF_ 0 0 0 ENSG00000005187|ENST00000289416|ACSM3 ENSG00000005187|ENST00000289416|ACSM3 ENSG00000005187|ENST00000289416|ACSM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 580.3360595703125 2 580.334759 1158.65496 3.3736 0.0019578 0.15273 8.8637E-05 3.5263 0.0020465 580.3347855239552 61.975 0.33404 62.227 62.075 62.409 0.25245 48 18 4 0 0 0 0.25925 1 28348 28348 32.305 4.6767 1 3799900 35595 322 22699 22768 39914 39914 0.08198301502261529 VLPNRPFGLF 10 Unmodified _VLPNRPFGLF_ 0 0 0 ENSG00000005187|ENST00000289416|ACSM3 ENSG00000005187|ENST00000289416|ACSM3 ENSG00000005187|ENST00000289416|ACSM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 580.8374633789062 2 580.334759 1158.65496 3.5433 0.0020563 -0.47071 -0.00027317 3.0726 0.0017831 580.3343593335405 61.303 0.29324 61.966 61.843 62.136 0.66261 47 17 4 0 0 0 0.19461 2 28077 28077;28128 39.957 12.329 1 5279400 35596 322 22699 22768 39915;39916 39915 0.08198301502261529 VLPSVLNKF 9 Unmodified _VLPSVLNKF_ 0 0 0 nc|ENSG00000197771|Q9BTE3-3|MCMBP;ENSG00000197771|ENST00000369077|MCMBP;nc|ENSG00000197771|Q9BTE3|MCMBP nc|ENSG00000197771|Q9BTE3-3|MCMBP nc|ENSG00000197771|Q9BTE3-3|MCMBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.8120422363281 2 508.810585 1015.60662 3.1012 0.0015779 0.52189 0.00026554 3.623 0.0018434 508.81087176840737 63.872 0.25223 64.12 63.932 64.185 0.24803 25 15 2 0 0 0 0.0063783 2 29255 29210;29255 88.904 62.02 1 776830 35597 5841 22700 22769 39917;39918 39918 0.09943807862373433 VLPSVLNKF 9 Unmodified _VLPSVLNKF_ 0 0 0 nc|ENSG00000197771|Q9BTE3-3|MCMBP;ENSG00000197771|ENST00000369077|MCMBP;nc|ENSG00000197771|Q9BTE3|MCMBP nc|ENSG00000197771|Q9BTE3-3|MCMBP nc|ENSG00000197771|Q9BTE3-3|MCMBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.8121643066406 2 508.810585 1015.60662 3.2286 0.0016427 0.1877 9.5504E-05 3.4163 0.0017382 508.81066026218326 63.23 0.23612 63.888 63.746 63.982 0.65808 29 13 3 0 0 0 0.012748 1 28979 28979 78.149 44.047 1 1050600 35598 5841 22700 22769 39919 39919 0.09943807862373433 VLPSVLNKF 9 Unmodified _VLPSVLNKF_ 0 0 0 nc|ENSG00000197771|Q9BTE3-3|MCMBP;ENSG00000197771|ENST00000369077|MCMBP;nc|ENSG00000197771|Q9BTE3|MCMBP nc|ENSG00000197771|Q9BTE3-3|MCMBP nc|ENSG00000197771|Q9BTE3-3|MCMBP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 508.810585 1015.60662 2.5964 0.0013211 3.9604 0.0020151 6.5568 0.0033362 509.31345977053513 63.608 0.023998 64.331 64.309 64.333 0.72236 0.21787 0.0036507 NaN 88.904 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 4109900 35599 5841 22700 22769 0.09943807862373433 VLPSYDCR 8 Unmodified _VLPSYDCR_ 0 0 0 ENST00000586411.1_1_17:43628025-43635826:-|nuORF ENST00000586411.1_1_17:43628025-43635826:-|nuORF ENST00000586411.1_1_17:43628025-43635826:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 476.732666015625 2 476.731477 951.448402 3.3164 0.001581 -0.73892 -0.00035227 2.5774 0.0012287 476.7308098477582 88.455 0.4123 88.706 88.494 88.906 0.25118 61 19 5 0 0 0 0.7441 1 40701 40701 2.3027 0.24298 1 1975500 35600 9184 22701 22770 39920 39920 -0.029264343883710353 VLRAAGRM 8 Unmodified _VLRAAGRM_ 0 0 0 ENST00000470223.1_1_1:27661789-27661954:+|nuORF ENST00000470223.1_1_1:27661789-27661954:+|nuORF ENST00000470223.1_1_1:27661789-27661954:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.259033203125 2 437.257997 872.501441 NaN NaN NaN NaN NaN NaN NaN 105.38 1 105.7 105.2 106.2 0.31782 0 0 0 0.99035 1 48646 48646 2.3027 0 1 35601 8170 22702 22771 39921 39921 0.06008988184964892 VLRASQGKSV 10 Unmodified _VLRASQGKSV_ 0 0 0 ENSG00000143167|ENST00000367868|GPA33 ENSG00000143167|ENST00000367868|GPA33 ENSG00000143167|ENST00000367868|GPA33 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.8137817382812 2 522.811648 1043.60874 3.1387 0.001641 0.63719 0.00033313 3.7759 0.0019741 522.8120311645323 14.632 0.23981 14.939 14.833 15.072 0.3069 42 19 3 0 0 0 0.8662 1 6604 6604 5.2969 1.3525 1 355050 35602 3349 22703 22772 39922 39922 0.08868236600187629 VLRASQGKSV 10 Unmodified _VLRASQGKSV_ 0 0 0 ENSG00000143167|ENST00000367868|GPA33 ENSG00000143167|ENST00000367868|GPA33 ENSG00000143167|ENST00000367868|GPA33 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.8137817382812 2 522.811648 1043.60874 3.4174 0.0017867 0.96054 0.00050218 4.378 0.0022888 522.812270230113 14.699 0.28088 15.352 15.23 15.511 0.65356 42 24 2 0 0 0 0.84709 1 6593 6593 6.2058 0.97511 1 620700 35603 3349 22703 22772 39923 39923 0.08868236600187629 VLRAWVHF 8 Unmodified _VLRAWVHF_ 0 0 0 REV__nc|ENSG00000204872|Q9UHF3|NAT8B REV__nc|ENSG00000204872|Q9UHF3|NAT8B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 343.19976806640625 3 343.199383 1026.57632 NaN NaN NaN NaN NaN NaN NaN 33.484 1 33.484 32.984 33.984 0 0 0 0 0.99035 1 15176 15176 0.45834 0 1 + 35604 18110 22704 22773 39924 39924 0.06409493987825954 VLRKLAQKEE 10 Unmodified _VLRKLAQKEE_ 0 0 0 REV__ENSG00000149929|ENST00000279392|HIRIP3 REV__ENSG00000149929|ENST00000279392|HIRIP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 405.246826171875 3 405.24695 1212.71902 NaN NaN NaN NaN NaN NaN NaN 77.539 1 77.539 77.039 78.039 0 0 0 0 0.99995 1 38034 38034 1.7423 0 1 + 35605 12582 22705 22774 39925 39925 0.12117036868562536 VLRKLAQKEE 10 Unmodified _VLRKLAQKEE_ 0 0 0 REV__ENSG00000149929|ENST00000279392|HIRIP3 REV__ENSG00000149929|ENST00000279392|HIRIP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.24859619140625 3 405.24695 1212.71902 NaN NaN NaN NaN NaN NaN NaN 73.226 1 73.484 72.984 73.984 0.25876 0 0 0 0.99995 1 33628 33628 1.7423 0.28716 1 + 35606 12582 22705 22774 39926 39926 0.12117036868562536 VLRKLAQKEE 10 Unmodified _VLRKLAQKEE_ 0 0 0 REV__ENSG00000149929|ENST00000279392|HIRIP3 REV__ENSG00000149929|ENST00000279392|HIRIP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.2469177246094 3 405.24695 1212.71902 NaN NaN NaN NaN NaN NaN NaN 79.143 1 79.804 79.304 80.304 0.66082 0 0 0 0.99995 1 36468 36468 1.7423 0.14999 1 + 35607 12582 22705 22774 39927 39927 0.12117036868562536 VLRLIQDAV 9 Unmodified _VLRLIQDAV_ 0 0 0 ENST00000493136.1_1_3:52840081-52842694:+|nuORF;nc|ENSG00000162267|Q06033-2|ITIH3;ENSG00000162267|ENST00000449956|ITIH3 ENST00000493136.1_1_3:52840081-52842694:+|nuORF ENST00000493136.1_1_3:52840081-52842694:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8206176757812 2 513.818941 1025.62333 NaN NaN NaN NaN NaN NaN NaN 6.6 1 7.2236 6.7236 7.7236 0.62357 0 0 0 0.91265 1 2990 2990 0.45834 0 1 35608 4125 22706 22775 39928 39928 0.11154308748314179 VLRPTSPR 8 Unmodified _VLRPTSPR_ 0 0 0 HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|55|3|sense;ENST00000591299.1_2_22:17082945-17094937:+|nuORF;nc|ENSG00000265992|Q1W209|ESRG REV__ENSG00000164061|ENST00000296452|BSN REV__ENSG00000164061|ENST00000296452|BSN MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 309.537109375 3 309.190776 924.550499 2.1976 0.00067949 -1.4675 -0.00045375 0.7301 0.00022574 309.189237569493 39.45 0.39031 39.717 39.431 39.821 0.26696 19 14 2 0 0 0 0.14274 1 17991 17991 2.9952 0 1 133280 + 35609 13056 22707 22776 39929 39929 0.08520599745554591 VLRRKRRRPKL 11 Unmodified _VLRRKRRRPKL_ 0 0 0 REV__ENST00000286827.7_1_21:32711646-32711721:-|nuORF REV__ENST00000286827.7_1_21:32711646-32711721:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 739.5046997070312 2 739.504952 1476.99535 NaN NaN NaN NaN NaN NaN NaN 63.428 1 64.087 63.587 64.587 0.65809 0 0 0 1.0082 1 29067 29067 0 0 1 + 35610 15111 22708 22777 39930 39930 0.27593372946807904 VLRRLVLWFFL 11 Unmodified _VLRRLVLWFFL_ 0 0 0 REV__ENSG00000075790|ENST00000005259|BCAP29 REV__ENSG00000075790|ENST00000005259|BCAP29 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 487.97564697265625 3 487.974614 1460.90201 NaN NaN NaN NaN NaN NaN NaN 19.641 1 19.641 19.141 20.141 0 0 0 0 1.0082 1 8765 8765 0.094841 0 1 + 35611 10534 22709 22778 39931 39931 0.1899963572100205 VLRRLVLWFFL 11 Unmodified _VLRRLVLWFFL_ 0 0 0 REV__ENSG00000075790|ENST00000005259|BCAP29 REV__ENSG00000075790|ENST00000005259|BCAP29 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.9755554199219 3 487.974614 1460.90201 3.963 0.0019338 -0.076853 -3.7502E-05 3.8861 0.0018963 487.9744554916513 109.95 0.62789 110.26 109.67 110.3 0.31015 39 23 2 0 0 0 0.91459 1 50679 50679 0.094841 0.094841 1 152010 + 35612 10534 22709 22778 39932 39932 0.1899963572100205 VLRRPVAVPR 10 Unmodified _VLRRPVAVPR_ 0 0 0 REV__ENST00000446845.5_1_3:38207005-38207431:+|nuORF REV__ENST00000446845.5_1_3:38207005-38207431:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 388.24237060546875 3 388.255891 1161.74584 NaN NaN NaN NaN NaN NaN NaN 49.497 1 49.497 48.997 49.997 0 0 0 0 0.99976 1 22666 22666 1.9064 0.1641 1 + 35613 16385 22710 22779 39933 39933 0.17144190270391846 VLRRRKRRRIA 11 Unmodified _VLRRRKRRRIA_ 0 0 0 ENST00000496567.5_1_9:97782205-97782394:+|nuORF ENST00000496567.5_1_9:97782205-97782394:+|nuORF ENST00000496567.5_1_9:97782205-97782394:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 740.501220703125 2 740.500201 1478.98585 NaN NaN NaN NaN NaN NaN NaN 87.146 1 87.186 86.686 87.686 0.039955 0 0 0 1.0082 1 44038 44038 0 0 1 35614 8446 22711 22780 39934 39934 0.26551604661290185 VLRRRRKKLPF 11 Unmodified _VLRRRRKKLPF_ 0 0 0 ENSG00000121871|ENST00000475390|SLITRK3 ENSG00000121871|ENST00000475390|SLITRK3 ENSG00000121871|ENST00000475390|SLITRK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 735.0029296875 2 734.988604 1467.96265 NaN NaN NaN NaN NaN NaN NaN 91.591 1 91.591 91.091 92.091 0 0 0 0 1.0082 1 48429 48429 0 0 1 35615 2246 22712 22781 39935 39935 0.2473916582396214 VLRRRRRRRRR 11 Unmodified _VLRRRRRRRRR_ 0 0 0 ENST00000373930.3_1_9:123476433-123476640:-|nuORF ENST00000373930.3_1_9:123476433-123476640:-|nuORF ENST00000373930.3_1_9:123476433-123476640:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.0308837890625 3 546.031624 1635.07304 NaN NaN NaN NaN NaN NaN NaN 95.082 1 95.082 94.582 95.582 0 0 0 0 1.0082 1 51117 51117 0 0 1 35616 7371 22713 22782 39936 39936 0.2809082365554332 VLRRVFLGI 9 Unmodified _VLRRVFLGI_ 0 0 0 ENST00000393931.7_1_17:39911314-39911869:-|nuORF ENST00000393931.7_1_17:39911314-39911869:-|nuORF ENST00000393931.7_1_17:39911314-39911869:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 358.23809814453125 3 358.237838 1071.69168 NaN NaN NaN NaN NaN NaN NaN 59.451 1 59.451 58.951 59.951 0 0 0 0 0.90335 1 27483 27483 2.7352 0 1 35617 7538 22714 22783 39937 39937 0.15870598118840462 VLRRWALPRPR 11 Unmodified _VLRRWALPRPR_ 0 0 0 REV__nc|ENSG00000176753|Q8N910|PAK6-AS1 REV__nc|ENSG00000176753|Q8N910|PAK6-AS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 710.4448852539062 2 710.444029 1418.87351 NaN NaN NaN NaN NaN NaN NaN 58.876 1 59.138 58.638 59.638 0.26227 0 0 0 1.0073 1 26964 26964 1.1933 0.84271 1 + 35618 18054 22715 22784 39938 39938 0.18082330864422147 VLRTSLYAI 9 Unmodified _VLRTSLYAI_ 0 0 0 ENSG00000123569|ENST00000217926|H2BW1;nc|ENSG00000123569|Q7Z2G1|H2BW1;nc|ENSG00000123569|Q7Z2G1-1|H2BW1 ENSG00000123569|ENST00000217926|H2BW1 ENSG00000123569|ENST00000217926|H2BW1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.21441650390625 3 345.878087 1034.61243 2.6684 0.00092295 0.0675 2.3347E-05 2.7359 0.0009463 345.8772378821905 12.753 0.13525 13.396 13.311 13.446 0.64272 5 3 2 0 0 0 1.0601 1 5690 5690 2.9952 0 1 290780 35619 2318 22716 22785 39939 39939 0.09650906374031365 VLRVTHEL 8 Unmodified _VLRVTHEL_ 0 0 0 ENSG00000165916|ENST00000298852|PSMC3;ENST00000528362.1_1_11:47446139-47447800:-|nuORF;ENST00000531653.5_1_11:47445967-47447800:-|nuORF ENSG00000165916|ENST00000298852|PSMC3 ENSG00000165916|ENST00000298852|PSMC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 322.86334228515625 3 322.862548 965.565815 2.3066 0.00074473 -0.070369 -2.272E-05 2.2363 0.00072201 322.86252662130585 26.993 0.28695 26.993 26.853 27.14 0 34 17 3 0 0 0 0.15009 2 12134 12134;12181 39.95 11.455 1 1790100 35620 4434 22717 22786 39940;39941 39940 0.08165466542754984 VLRVTHEL 8 Unmodified _VLRVTHEL_ 0 0 0 ENSG00000165916|ENST00000298852|PSMC3;ENST00000528362.1_1_11:47446139-47447800:-|nuORF;ENST00000531653.5_1_11:47445967-47447800:-|nuORF ENSG00000165916|ENST00000298852|PSMC3 ENSG00000165916|ENST00000298852|PSMC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.2936096191406 2 483.790184 965.565815 3.3636 0.0016273 -0.48176 -0.00023307 2.8819 0.0013942 483.7899758116229 26.984 0.26752 26.984 26.864 27.131 0 27 15 2 0 0 0 0.23923 2 12137 12137;12183 39.957 14.558 1 720880 35621 4434 22717 22786 39942;39943 39942 0.08165466542754984 VLRVTHEL 8 Unmodified _VLRVTHEL_ 0 0 0 ENSG00000165916|ENST00000298852|PSMC3;ENST00000528362.1_1_11:47446139-47447800:-|nuORF;ENST00000531653.5_1_11:47445967-47447800:-|nuORF ENSG00000165916|ENST00000298852|PSMC3 ENSG00000165916|ENST00000298852|PSMC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.7913513183594 2 483.790184 965.565815 3.0545 0.0014778 -0.10274 -4.9703E-05 2.9518 0.0014281 483.7901612458449 26.13 0.24075 26.894 26.745 26.985 0.76356 35 15 3 0 0 0 0.11952 2 11749 11684;11749 51.63 24.001 1 446030 35622 4434 22717 22786 39944;39945 39945 0.08165466542754984 VLRVTHEL 8 Unmodified _VLRVTHEL_ 0 0 0 ENSG00000165916|ENST00000298852|PSMC3;ENST00000528362.1_1_11:47446139-47447800:-|nuORF;ENST00000531653.5_1_11:47445967-47447800:-|nuORF ENSG00000165916|ENST00000298852|PSMC3 ENSG00000165916|ENST00000298852|PSMC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 322.8632507324219 3 322.862548 965.565815 2.2134 0.00071462 -0.10036 -3.2404E-05 2.113 0.00068221 322.86253773918924 26.103 0.32008 26.866 26.706 27.026 0.76356 45 22 3 0 0 0 0.090253 2 11745 11695;11745 45.7 13.222 1 1146100 35623 4434 22717 22786 39946;39947 39947 0.08165466542754984 VLRVTHEL 8 Unmodified _VLRVTHEL_ 0 0 0 ENSG00000165916|ENST00000298852|PSMC3;ENST00000528362.1_1_11:47446139-47447800:-|nuORF;ENST00000531653.5_1_11:47445967-47447800:-|nuORF ENSG00000165916|ENST00000298852|PSMC3 ENSG00000165916|ENST00000298852|PSMC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.79205322265625 2 483.790184 965.565815 3.0743 0.0014873 0.28688 0.00013879 3.3611 0.0016261 483.79034234611163 26.763 0.30908 27.028 26.88 27.189 0.26489 50 19 4 0 0 0 0.0063663 2 12166 12121;12166 126.57 69.095 1 2527900 35624 4434 22717 22786 39948;39949 39949 0.08165466542754984 VLRVTHEL 8 Unmodified _VLRVTHEL_ 0 0 0 ENSG00000165916|ENST00000298852|PSMC3;ENST00000528362.1_1_11:47446139-47447800:-|nuORF;ENST00000531653.5_1_11:47445967-47447800:-|nuORF ENSG00000165916|ENST00000298852|PSMC3 ENSG00000165916|ENST00000298852|PSMC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.86358642578125 3 322.862548 965.565815 2.3254 0.00075078 1.2046 0.00038893 3.53 0.0011397 322.86269045546544 26.769 0.6467 27.034 26.851 27.498 0.26489 88 42 4 0 0 0 0.062889 2 12186 12138;12186 51.63 9.6743 1 4885200 35625 4434 22717 22786 39950;39951 39951 0.08165466542754984 VLRVTHEL 8 Unmodified _VLRVTHEL_ 0 0 0 ENSG00000165916|ENST00000298852|PSMC3;ENST00000528362.1_1_11:47446139-47447800:-|nuORF;ENST00000531653.5_1_11:47445967-47447800:-|nuORF ENSG00000165916|ENST00000298852|PSMC3 ENSG00000165916|ENST00000298852|PSMC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.7917175292969 2 483.790184 965.565815 3.0764 0.0014883 0.05478 2.6502E-05 3.1312 0.0015149 483.7902225169677 26.382 0.30453 27.007 26.848 27.152 0.62505 46 15 4 0 0 0 0.0063663 2 12121 12071;12121 126.57 69.095 1 2451300 35626 4434 22717 22786 39952;39953 39953 0.08165466542754984 VLRVTHEL 8 Unmodified _VLRVTHEL_ 0 0 0 ENSG00000165916|ENST00000298852|PSMC3;ENST00000528362.1_1_11:47446139-47447800:-|nuORF;ENST00000531653.5_1_11:47445967-47447800:-|nuORF ENSG00000165916|ENST00000298852|PSMC3 ENSG00000165916|ENST00000298852|PSMC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 322.863525390625 3 322.862548 965.565815 2.0768 0.00067052 0.30599 9.8794E-05 2.3828 0.00076931 322.86269975607337 26.398 0.34719 27.023 26.848 27.195 0.62505 50 17 4 0 0 0 0.062889 2 12128 12079;12128 51.63 16.698 1 4275000 35627 4434 22717 22786 39954;39955 39955 0.08165466542754984 VLRVVGSLW 9 Unmodified _VLRVVGSLW_ 0 0 0 REV__ENST00000348124.5_1_11:36523349-36531783:-|nuORF REV__ENST00000348124.5_1_11:36523349-36531783:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.5357360839844 3 343.54656 1027.61785 NaN NaN NaN NaN NaN NaN NaN 35.466 1 36.092 35.592 36.592 0.62631 0 0 0 0.89451 1 16247 16247 4.897 0 1 + 35628 15515 22718 22787 39956 39956 0.10514629956514909 VLRWLRSRRRR 11 Unmodified _VLRWLRSRRRR_ 0 0 0 ENSG00000179598|ENST00000321560|PLD6 ENSG00000179598|ENST00000321560|PLD6 ENSG00000179598|ENST00000321560|PLD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 777.4892578125 2 777.489834 1552.96511 NaN NaN NaN NaN NaN NaN NaN 59.823 1 60.488 59.988 60.988 0.66503 0 0 0 1.0082 1 27384 27384 0 0 1 35629 5224 22719 22788 39957 39957 0.21075014281609583 VLRWQQRL 8 Unmodified _VLRWQQRL_ 0 0 0 ENST00000467936.5_1_3:45542057-45579920:+|nuORF;ENSG00000011376|ENST00000645846|LARS2 ENST00000467936.5_1_3:45542057-45579920:+|nuORF ENST00000467936.5_1_3:45542057-45579920:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.828369140625 2 549.830175 1097.6458 NaN NaN NaN NaN NaN NaN NaN 96.157 1 96.157 95.657 96.657 0 0 0 0 0.99035 1 51964 51964 5.7604 0 1 35630 413 22720 22789 39958 39958 0.10087952936601141 VLSAKLDR 8 Unmodified _VLSAKLDR_ 0 0 0 REV__ENSG00000173572|ENST00000342929|NLRP13 REV__ENSG00000173572|ENST00000342929|NLRP13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 451.277099609375 2 451.276909 900.539266 NaN NaN NaN NaN NaN NaN NaN 11.347 1 11.347 10.847 11.847 0 0 0 0 0.99035 1 4956 4956 2.8892 0 1 + 35631 13604 22721 22790 39959 39959 0.08501777651406428 VLSPADKTNVK 11 Unmodified _VLSPADKTNVK_ 0 0 0 ENST00000472694.1_1_16:226715-226811:+|nuORF;ENST00000397797.1_1_16:226715-226977:+|nuORF;ENSG00000206172|ENST00000320868|HBA1;ENSG00000188536|ENST00000251595|HBA2 ENST00000472694.1_1_16:226715-226811:+|nuORF ENST00000472694.1_1_16:226715-226811:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 391.22821044921875 3 391.227556 1170.66084 2.6832 0.0010497 -0.44384 -0.00017364 2.2394 0.0008761 391.22754534864856 13.903 0.070776 13.903 13.865 13.935 0 10 5 3 0 0 0 3.3447E-06 1 6120 6120 80.24 63.965 1 868580 35632 5669 22722 22791 39960 39960 0.08233355223273975 VLSPRRLSGLW 11 Unmodified _VLSPRRLSGLW_ 0 0 0 REV__ENST00000487002.1_1_1:155279496-155279757:+|nuORF REV__ENST00000487002.1_1_1:155279496-155279757:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.8860473632812 2 642.382771 1282.75099 4.1123 0.0026416 1.4965 0.0009613 5.6087 0.0036029 642.3841071488621 92.711 0.27863 93.358 93.237 93.516 0.64714 20 15 2 0 0 0 0.13295 1 42644 42644 3.5965 0 1 368640 + 35633 12891 22723 22792 39961 39961 0.12092449342367217 VLSRLIARI 9 Unmodified _VLSRLIARI_ 0 0 0 REV__nc|ENSG00000196218|P21817-3|RYR1 REV__nc|ENSG00000196218|P21817-3|RYR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.5695495605469 3 347.569476 1039.6866 2.0637 0.00071727 -0.62385 -0.00021683 1.4398 0.00050044 347.5693122070033 13.479 0.23993 13.786 13.637 13.877 0.30727 29 17 2 0 0 0 0.59921 1 6052 6052 10.8 0 1 230280 + 35634 14198 22724 22793 39962 39962 0.16834294256227622 VLSTAKTK 8 Unmodified _VLSTAKTK_ 0 0 0 REV__ENSG00000097007|ENST00000318560|ABL1 REV__ENSG00000097007|ENST00000318560|ABL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 424.26495361328125 2 424.26601 846.517468 NaN NaN NaN NaN NaN NaN NaN 12.233 1 12.233 11.733 12.733 0 0 0 0 0.99035 1 5293 5293 0.79363 0 1 + 35635 10778 22725 22794 39963 39963 0.08806972902846155 VLTKGVRE 8 Unmodified _VLTKGVRE_ 0 0 0 ENST00000431297.1_1_21:15134673-15136650:+|nuORF;ENSG00000141965|ENST00000269856|FEM1A ENST00000431297.1_1_21:15134673-15136650:+|nuORF ENST00000431297.1_1_21:15134673-15136650:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.27783203125 2 451.276909 900.539266 NaN NaN NaN NaN NaN NaN NaN 3.0466 1 3.4229 2.9229 3.9229 0.37632 0 0 0 0.99035 1 1383 1383 2.3027 0 1 35636 3288 22726 22795 39964 39964 0.08501777651429165 VLTLDPTLHMK 11 Unmodified _VLTLDPTLHMK_ 0 0 0 ENSG00000051825|ENST00000606320|MPHOSPH9;nc|ENSG00000051825|Q99550-2|MPHOSPH9 ENSG00000051825|ENST00000606320|MPHOSPH9 ENSG00000051825|ENST00000606320|MPHOSPH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 423.24151611328125 3 423.240808 1266.70059 2.878 0.0012181 -0.18997 -8.0403E-05 2.688 0.0011377 423.2406759819001 37.894 0.2696 37.894 37.718 37.987 0 20 10 3 0 0 0 0.74281 1 17194 17194 4.7159 0 1 831180 35637 590 22727 22796 39965 39965 0.07791158902318784 VLTLHLKR 8 Unmodified _VLTLHLKR_ 0 0 0 nc|ENSG00000156256|Q9Y5T5-4|USP16;nc|ENSG00000156256|Q9Y5T5-3|USP16;nc|ENSG00000156256|Q9Y5T5-2|USP16;ENSG00000156256|ENST00000399976|USP16 nc|ENSG00000156256|Q9Y5T5-4|USP16 nc|ENSG00000156256|Q9Y5T5-4|USP16 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 490.3242492675781 2 490.324194 978.633835 NaN NaN NaN NaN NaN NaN NaN 61.047 1 61.302 60.802 61.802 0.25578 0 0 0 0.99035 1 27956 27956 0.79363 0 1 35638 3902 22728 22797 39966 39966 0.14366336193427287 VLTLKVRKWLI 11 Unmodified _VLTLKVRKWLI_ 0 0 0 REV__ENSG00000178997|ENST00000458580|EXD1 REV__ENSG00000178997|ENST00000458580|EXD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.0584716796875 2 684.958115 1367.90168 NaN NaN NaN NaN NaN NaN NaN 47.469 1 47.733 47.233 48.233 0.26363 0 0 0 1.0055 1 21691 21691 3.5965 2.1146 1 + 35639 13778 22729 22798 39967 39967 0.23244216001194218 VLTRKFVEFI 10 Unmodified _VLTRKFVEFI_ 0 0 0 ENSG00000124091|ENST00000243913|GCNT7;nc|ENSG00000124091|Q6ZNI0|GCNT7 ENSG00000124091|ENST00000243913|GCNT7 ENSG00000124091|ENST00000243913|GCNT7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 313.94354248046875 4 313.69195 1250.73869 2.3738 0.00074465 0.50645 0.00015887 2.8803 0.00090352 313.69203247566907 46.298 0.52612 46.95 46.67 47.196 0.65219 30 20 2 0 0 0 0.94099 1 21213 21213 0.69767 0.69767 1 751180 35640 2335 22730 22799 39968 39968 0.12335412879338037 VLTTLIPPIL 10 Unmodified _VLTTLIPPIL_ 0 0 0 REV__ENSG00000198786|ENST00000361567|MT-ND5 REV__ENSG00000198786|ENST00000361567|MT-ND5 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 360.5634460449219 3 360.574004 1078.70018 2.3588 0.00085053 2.0985 0.00075668 4.4574 0.0016072 360.5747123363151 34.072 0.23151 34.072 33.914 34.145 0 15 14 2 0 0 0 0.12676 1 15423 15423 0.15932 0 1 375270 + 35641 14358 22731 22800 39969 39969 0.16398107244822313 VLTTLIPPIL 10 Unmodified _VLTTLIPPIL_ 0 0 0 REV__ENSG00000198786|ENST00000361567|MT-ND5 REV__ENSG00000198786|ENST00000361567|MT-ND5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 360.575927734375 3 360.574004 1078.70018 NaN NaN NaN NaN NaN NaN NaN 31.827 1 32.444 31.944 32.944 0.61736 0 0 0 1.0015 1 14595 14595 0.13989 0 1 + 35642 14358 22731 22800 39970 39970 0.16398107244822313 VLTVLLIPV 9 Unmodified _VLTVLLIPV_ 0 0 0 REV__nc|ENSG00000073150|Q96RD6-1|PANX2 REV__nc|ENSG00000073150|Q96RD6-1|PANX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.83428955078125 2 483.833529 965.652505 NaN NaN NaN NaN NaN NaN NaN 93.999 1 94.085 93.585 94.585 0.086212 0 0 0 0.89315 1 49361 49361 5.2307 0 1 + 35643 10502 22732 22801 39971 39971 0.1683045304461075 VLVEILLALL 10 Unmodified _VLVEILLALL_ 0 0 0 ENSG00000132382|ENST00000254718|MYBBP1A;nc|ENSG00000132382|Q9BQG0-2|MYBBP1A ENSG00000132382|ENST00000254718|MYBBP1A ENSG00000132382|ENST00000254718|MYBBP1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.91943359375 3 365.917771 1094.73148 2.5272 0.00092475 2.3922 0.00087535 4.9194 0.0018001 365.91828478217855 32.313 0.1715 32.931 32.82 32.991 0.61832 12 9 2 0 0 0 0.94364 1 14820 14820 0.15932 0 1 123380 35644 2696 22733 22802 39972 39972 0.18790680278880245 VLVFFKRKP 9 Unmodified _VLVFFKRKP_ 0 0 0 REV__ENST00000468388.5_1_1:26799103-26800010:+|nuORF REV__ENST00000468388.5_1_1:26799103-26800010:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.3629760742188 2 567.363319 1132.71209 3.2829 0.0018626 1.0577 0.00060008 4.3405 0.0024627 567.3638103602839 45.712 0.17645 45.712 45.595 45.772 0 17 7 3 0 0 0 1.1154 1 20900 20900 2.0598 1.535 1 982830 + 35645 16564 22734 22803 39973 39973 0.1510376877863564 VLVFFKRKP 9 Unmodified _VLVFFKRKP_ 0 0 0 REV__ENST00000468388.5_1_1:26799103-26800010:+|nuORF REV__ENST00000468388.5_1_1:26799103-26800010:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 378.9134826660156 3 378.577972 1132.71209 2.3783 0.00090035 1.117 0.00042289 3.4953 0.0013232 378.5783236404979 44.708 0.48309 45.529 45.246 45.729 0.82075 54 23 4 0 0 0 0.11393 1 20339 20339 1.0715 1.0715 1 1952500 + 35646 16564 22734 22803 39974 39974 0.1510376877863564 VLVIVVICL 9 Unmodified _VLVIVVICL_ 0 0 0 ENSG00000146859|ENST00000275767|TMEM140 ENSG00000146859|ENST00000275767|TMEM140 ENSG00000146859|ENST00000275767|TMEM140 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 324.2174987792969 3 324.217163 969.629661 NaN NaN NaN NaN NaN NaN NaN 28.891 1 29.68 29.18 30.18 0.78921 0 0 0 0.91452 1 13019 13019 0 0 1 35647 3535 22735 22804 39975 39975 0.14363110655460787 VLVKKRKRK 9 Unmodified _VLVKKRKRK_ 0 0 0 REV__ENSG00000152127|ENST00000281923|MGAT5 REV__ENSG00000152127|ENST00000281923|MGAT5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.912841796875 2 577.914042 1153.81353 NaN NaN NaN NaN NaN NaN NaN 92.437 1 92.52 92.02 93.02 0.082848 0 0 0 0.91452 1 48171 48171 0 0 1 + 35648 12640 22736 22805 39976 39976 0.24277640201194117 VLVLLILTLRR 11 Unmodified _VLVLLILTLRR_ 0 0 0 ENSG00000149654|ENST00000537909|CDH22 ENSG00000149654|ENST00000537909|CDH22 ENSG00000149654|ENST00000537909|CDH22 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 654.9578247070312 2 654.958115 1307.90168 NaN NaN NaN NaN NaN NaN NaN 103.1 1 103.69 103.19 104.19 0.59821 0 0 0 1.0082 1 47704 47704 0 0 1 35649 3654 22737 22806 39977 39977 0.2600421600113805 VLVLLLRKPR 10 Unmodified _VLVLLLRKPR_ 0 0 0 REV__nc|ENSG00000269565|Q8NGA4|GPR32P1 REV__nc|ENSG00000269565|Q8NGA4|GPR32P1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 603.9215087890625 2 603.924075 1205.8336 NaN NaN NaN NaN NaN NaN NaN 70.008 1 70.668 70.168 71.168 0.66071 0 0 0 1.002 1 32099 32099 0 0 1 + 35650 12328 22738 22807 39978 39978 0.2389139114113732 VLVLLLRVLL 10 Unmodified _VLVLLLRVLL_ 0 0 0 ENST00000378944.9_1_19:36276198-36277438:+|nuORF ENST00000378944.9_1_19:36276198-36277438:+|nuORF ENST00000378944.9_1_19:36276198-36277438:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.9203491210938 2 575.917927 1149.8213 NaN NaN NaN NaN NaN NaN NaN 63.895 1 64.61 64.11 65.11 0.71521 0 0 0 1.0015 1 29998 29998 0.40072 0 1 35651 7441 22739 22808 39979 39979 0.252383546781175 VLVLLLRVLL 10 Unmodified _VLVLLLRVLL_ 0 0 0 ENST00000378944.9_1_19:36276198-36277438:+|nuORF ENST00000378944.9_1_19:36276198-36277438:+|nuORF ENST00000378944.9_1_19:36276198-36277438:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.9190673828125 2 575.917927 1149.8213 NaN NaN NaN NaN NaN NaN NaN 66.118 1 66.822 66.322 67.322 0.7047 0 0 0 1.0015 1 31320 31320 0.40072 0 1 35652 7441 22739 22808 39980 39980 0.252383546781175 VLVLLPLPIV 10 Unmodified _VLVLLPLPIV_ 0 0 0 chr7:123190613-123199848|339|11.15|0.66|4.08|-|ENST00000439260|SLC13A1,SLC13A1;ENSG00000081800|ENST00000194130|SLC13A1 chr7:123190613-123199848|339|11.15|0.66|4.08|-|ENST00000439260|SLC13A1,SLC13A1 chr7:123190613-123199848|339|11.15|0.66|4.08|-|ENST00000439260|SLC13A1,SLC13A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.378662109375 2 538.378103 1074.74165 NaN NaN NaN NaN NaN NaN NaN 66.06 1 66.765 66.265 67.265 0.7047 0 0 0 0.99983 1 31288 31288 1.8442 1.1539 1 35653 190 22740 22809 39981 39981 0.20727288004104594 VLVLRVLGLLL 11 Unmodified _VLVLRVLGLLL_ 0 0 0 REV__SLC5A11|p.D498V|1|0.47|ENSG00000158865|chr16:24908939-24908939|A/T|missense_variant REV__SLC5A11|p.D498V|1|0.47|ENSG00000158865|chr16:24908939-24908939|A/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 604.4273681640625 2 604.428659 1206.84277 NaN NaN NaN NaN NaN NaN NaN 82.382 1 83.042 82.542 83.542 0.66019 0 0 0 1.0082 1 37957 37957 0 0 1 + 35654 18212 22741 22810 39982 39982 0.24761739706832486 VLVLVLLVSP 10 Unmodified _VLVLVLLVSP_ 0 0 0 nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.24462890625 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 31.476 1 31.476 30.976 31.976 0 0 0 0 1.0015 1 14239 14239 0.13989 0 1 35655 9630 22742 22811 39983 39983 0.18194411107424457 VLVLVLLVSP 10 Unmodified _VLVLVLLVSP_ 0 0 0 nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.2443542480469 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 32.645 1 32.645 32.145 33.145 0 0 0 0 1.0015 1 14784 14784 0.13989 0 1 35656 9630 22742 22811 39984 39984 0.18194411107424457 VLVLVLLVSP 10 Unmodified _VLVLVLLVSP_ 0 0 0 nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.24371337890625 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 32.771 1 32.771 32.271 33.271 0 0 0 0 1.0015 1 14842 14842 0.13989 0 1 35657 9630 22742 22811 39985 39985 0.18194411107424457 VLVLVLLVSP 10 Unmodified _VLVLVLLVSP_ 0 0 0 nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.2441711425781 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 23.636 1 24.321 23.821 24.821 0.68536 0 0 0 1.0015 1 10559 10559 0.13989 0 1 35658 9630 22742 22811 39986 39986 0.18194411107424457 VLVLVLLVSP 10 Unmodified _VLVLVLLVSP_ 0 0 0 nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.24359130859375 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 23.72 1 24.405 23.905 24.905 0.68536 0 0 0 1.0015 1 10609 10609 0.13989 0 1 35659 9630 22742 22811 39987 39987 0.18194411107424457 VLVLVLLVSP 10 Unmodified _VLVLVLLVSP_ 0 0 0 nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.2444152832031 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 24.168 1 24.439 23.939 24.939 0.27129 0 0 0 1.0001 1 10941 10941 0.69767 0 1 35660 9630 22742 22811 39988 39988 0.18194411107424457 VLVLVLLVSP 10 Unmodified _VLVLVLLVSP_ 0 0 0 nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.244384765625 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 27.653 1 27.915 27.415 28.415 0.26245 0 0 0 1.0015 1 12574 12574 0.13989 0 1 35661 9630 22742 22811 39989 39989 0.18194411107424457 VLVLVLLVSP 10 Unmodified _VLVLVLLVSP_ 0 0 0 nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.2445373535156 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 30.958 1 31.214 30.714 31.714 0.25614 0 0 0 1.0015 1 14090 14090 0.13989 0 1 35662 9630 22742 22811 39990 39990 0.18194411107424457 VLVLVLLVSP 10 Unmodified _VLVLVLLVSP_ 0 0 0 nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.2441101074219 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 32.039 1 32.294 31.794 32.794 0.25452 0 0 0 1.0015 1 14589 14589 0.13989 0 1 35663 9630 22742 22811 39991 39991 0.18194411107424457 VLVLVLLVSP 10 Unmodified _VLVLVLLVSP_ 0 0 0 nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.244384765625 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 32.149 1 32.404 31.904 32.904 0.25452 0 0 0 1.0015 1 14639 14639 0.13989 0 1 35664 9630 22742 22811 39992 39992 0.18194411107424457 VLVLVLLVSP 10 Unmodified _VLVLVLLVSP_ 0 0 0 nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.2440185546875 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 32.244 1 32.499 31.999 32.999 0.25452 0 0 0 1.0015 1 14684 14684 0.13989 0 1 35665 9630 22742 22811 39993 39993 0.18194411107424457 VLVLVLLVSP 10 Unmodified _VLVLVLLVSP_ 0 0 0 nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD nc|ENSG00000127838|Q8N490-3|PNKD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.2445068359375 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 32.972 1 33.226 32.726 33.726 0.25389 0 0 0 1.0015 1 15015 15015 0.13989 0 1 35666 9630 22742 22811 39994 39994 0.18194411107424457 VLVSLRLLWP 10 Unmodified _VLVSLRLLWP_ 0 0 0 REV__ENSG00000221937|ENST00000408947|TAS2R40 REV__ENSG00000221937|ENST00000408947|TAS2R40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.2587890625 3 399.256898 1194.74886 3.014 0.0012033 0.91839 0.00036667 3.9324 0.00157 399.2573095614665 33.964 0.32744 34.218 34.063 34.391 0.25389 33 14 3 0 0 0 0.93658 1 15440 15440 1.5923 0.26264 1 3617800 + 35667 14543 22743 22812 39995 39995 0.15928020604565063 VLVSLRLLWP 10 Unmodified _VLVSLRLLWP_ 0 0 0 REV__ENSG00000221937|ENST00000408947|TAS2R40 REV__ENSG00000221937|ENST00000408947|TAS2R40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.3840942382812 2 598.381709 1194.74886 3.7579 0.0022487 1.3244 0.00079249 5.0823 0.0030412 598.3823481864666 33.964 0.21583 34.218 34.083 34.298 0.25389 18 9 3 0 0 0 0.93584 1 15447 15447 1.4819 0 1 953810 + 35668 14543 22743 22812 39996 39996 0.15928020604565063 VLVSLRLLWP 10 Unmodified _VLVSLRLLWP_ 0 0 0 REV__ENSG00000221937|ENST00000408947|TAS2R40 REV__ENSG00000221937|ENST00000408947|TAS2R40 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.2582702636719 3 399.256898 1194.74886 2.7812 0.0011104 1.1137 0.00044466 3.8949 0.0015551 399.2574314479083 33.416 0.3156 34.037 33.88 34.195 0.62031 32 12 3 0 0 0 0.93658 1 15296 15296 1.5923 0.89462 1 2585400 + 35669 14543 22743 22812 39997 39997 0.15928020604565063 VLVSRTLN 8 Unmodified _VLVSRTLN_ 0 0 0 ENST00000488053.1_1_1:173157636-173174659:-|nuORF ENST00000488053.1_1_1:173157636-173174659:-|nuORF ENST00000488053.1_1_1:173157636-173174659:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.2781066894531 2 451.276909 900.539266 NaN NaN NaN NaN NaN NaN NaN 3.0527 1 3.4291 2.9291 3.9291 0.37632 0 0 0 0.99035 1 1386 1386 0.79363 0 1 35670 8360 22744 22813 39998 39998 0.08501777651429165 VLVSRTLN 8 Unmodified _VLVSRTLN_ 0 0 0 ENST00000488053.1_1_1:173157636-173174659:-|nuORF ENST00000488053.1_1_1:173157636-173174659:-|nuORF ENST00000488053.1_1_1:173157636-173174659:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 451.27789306640625 2 451.276909 900.539266 NaN NaN NaN NaN NaN NaN NaN 10.6 1 10.896 10.396 11.396 0.2956 0 0 0 0.99035 1 4623 4623 0.79363 0 1 35671 8360 22744 22813 39999 39999 0.08501777651429165 VLVSRTLN 8 Unmodified _VLVSRTLN_ 0 0 0 ENST00000488053.1_1_1:173157636-173174659:-|nuORF ENST00000488053.1_1_1:173157636-173174659:-|nuORF ENST00000488053.1_1_1:173157636-173174659:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.5292053222656 2 451.276909 900.539266 NaN NaN NaN NaN NaN NaN NaN 4.6169 1 4.9216 4.4216 5.4216 0.30465 0 0 0 0.99035 1 2096 2096 0.79363 0 1 35672 8360 22744 22813 40000 40000 0.08501777651429165 VLVVLRVVVKV 11 Unmodified _VLVVLRVVVKV_ 0 0 0 REV__ENST00000592274.1_1_19:3611803-3612905:+|nuORF REV__ENST00000592274.1_1_19:3611803-3612905:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 408.7488098144531 3 408.291831 1221.85366 NaN NaN NaN NaN NaN NaN NaN 102.8 1 103.12 102.62 103.62 0.31863 0 0 0 1.0082 1 47543 47543 0.094841 0 1 + 35673 17590 22745 22814 40001 40001 0.25161142081105936 VLVVPIKL 8 Unmodified _VLVVPIKL_ 0 0 0 ENSG00000273274|ENST00000609129|ZBTB8B;nc|ENSG00000273274|Q8NAP8-2|ZBTB8B ENSG00000273274|ENST00000609129|ZBTB8B ENSG00000273274|ENST00000609129|ZBTB8B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 880.6194458007812 1 880.623002 879.615725 2.3384 0.0020592 -3.9351 -0.0034654 -1.5968 -0.0014062 880.6194021639826 104.18 0.080185 104.23 104.2 104.28 0.052994 7 5 2 0 0 0 0.7471 1 56432 56432 0 0 1 571790 35674 6337 22746 22815 40002 40002 0.1711020121869069 VLVWMLFEEM 10 Unmodified _VLVWMLFEEM_ 0 0 0 REV__nc|ENSG00000197520|A6PVY3-2|FAM177B REV__nc|ENSG00000197520|A6PVY3-2|FAM177B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 432.4201965332031 3 432.883744 1295.6294 NaN NaN NaN NaN NaN NaN NaN 66.036 1 66.741 66.241 67.241 0.7047 0 0 0 1.0011 1 31276 31276 0.77653 0 1 + 35675 18095 22747 22816 40003 40003 -0.0065867712667113665 VLWKKRIKPIV 11 Unmodified _VLWKKRIKPIV_ 0 0 0 nc|ENSG00000168685|P16871-2|IL7R;IL7R|p.Q331Cfs*3|1|0.09|ENSG00000168685|chr5:35876095-35876096|-/AT|frameshift_variant;ENSG00000168685|ENST00000303115|IL7R nc|ENSG00000168685|P16871-2|IL7R nc|ENSG00000168685|P16871-2|IL7R MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.2405090332031 4 345.736692 1378.91766 2.4582 0.00084989 -1.1409 -0.00039445 1.3173 0.00045543 345.73623126956994 35.069 0.24907 35.324 35.216 35.465 0.25524 18 13 2 0 0 0 0.13295 1 16017 16017 0.094841 0 1 1053300 35676 4645 22748 22817 40004 40004 0.24335922238060448 VLWPKGRA 8 Unmodified _VLWPKGRA_ 0 0 0 REV__ENST00000407115.2_1_6:150225512-150225668:+|nuORF REV__ENST00000407115.2_1_6:150225512-150225668:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 309.8592529296875 3 309.523867 925.549771 NaN NaN NaN NaN NaN NaN NaN 29.563 1 30.352 29.852 30.852 0.78921 0 0 0 0.99035 1 13330 13330 1.4819 0 1 + 35677 16076 22749 22818 40005 40005 0.08401805096514181 VLWPLIRPK 9 Unmodified _VLWPLIRPK_ 0 0 0 REV__nc|ENSG00000126456|Q14653-2|IRF3 REV__nc|ENSG00000126456|Q14653-2|IRF3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.6512451171875 2 561.363319 1120.71209 3.3779 0.0018962 1.7137 0.00096203 5.0917 0.0028583 561.3639814469286 43.048 0.26825 43.048 42.846 43.114 0 21 14 2 0 0 0 0.11383 1 19507 19507 2.3027 1.7012 1 2147600 + 35678 11709 22750 22819 40006 40006 0.1565576877865169 VLWRKTYKP 9 Unmodified _VLWRKTYKP_ 0 0 0 ENST00000591635.5_1_18:34124550-34298500:+|nuORF ENST00000591635.5_1_18:34124550-34298500:+|nuORF ENST00000591635.5_1_18:34124550-34298500:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 595.85888671875 2 595.855858 1189.69716 NaN NaN NaN NaN NaN NaN NaN 10.903 1 10.903 10.403 11.403 0 0 0 0 0.91356 1 4793 4793 0.52476 0 1 35679 9239 22751 22820 40007 40007 0.10990276910638386 VLWVFARLYP 10 Unmodified _VLWVFARLYP_ 0 0 0 ENSG00000169403|ENST00000373857|PTAFR ENSG00000169403|ENST00000373857|PTAFR ENSG00000169403|ENST00000373857|PTAFR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.9115295410156 3 421.913131 1262.71756 NaN NaN NaN NaN NaN NaN NaN 30.311 1 30.929 30.429 31.429 0.61737 0 0 0 1.0001 1 13904 13904 1.5923 0.13716 1 35680 4690 22752 22821 40008 40008 0.09671447570462988 VLWVRAVPV 9 Unmodified _VLWVRAVPV_ 0 0 0 REV__ENSG00000146678|ENST00000275525|IGFBP1 REV__ENSG00000146678|ENST00000275525|IGFBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 346.8876953125 3 346.886805 1037.63859 1.8589 0.00064484 0.76578 0.00026564 2.6247 0.00091048 346.8869243585926 73.018 0.44501 73.717 73.584 74.029 0.69881 112 42 3 0 0 0 1.1022 1 35173 35173 2.2828 1.0894 1 2596700 + 35681 12480 22753 22822 40009 40009 0.12127220336174105 VLWVRAVPV 9 Unmodified _VLWVRAVPV_ 0 0 0 REV__ENSG00000146678|ENST00000275525|IGFBP1 REV__ENSG00000146678|ENST00000275525|IGFBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.88720703125 3 346.886805 1037.63859 1.8337 0.0006361 0.66743 0.00023152 2.5012 0.00086762 346.88687971099887 73.002 0.46554 73.666 73.491 73.957 0.66398 131 49 3 0 0 0 0.96953 1 33537 33537 4.5289 0.93237 1 3112700 + 35682 12480 22753 22822 40010 40010 0.12127220336174105 VLYLRMDCKRF 11 Unmodified _VLYLRMDCKRF_ 0 0 0 REV__ENST00000465664.1_1_3:121555513-121555606:+|nuORF REV__ENST00000465664.1_1_3:121555513-121555606:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.26116943359375 3 481.924825 1442.75265 3.0884 0.0014884 -0.42764 -0.00020609 2.6607 0.0012823 481.92482988389406 32.362 0.27711 32.98 32.82 33.097 0.61831 35 15 3 0 0 0 0.904 1 14817 14817 2.2527 0.92309 1 602650 + 35683 16541 22754 22823 40011 40011 0.04897999044442258 VLYLRMDCKRF 11 Unmodified _VLYLRMDCKRF_ 0 0 0 REV__ENST00000465664.1_1_3:121555513-121555606:+|nuORF REV__ENST00000465664.1_1_3:121555513-121555606:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.26116943359375 3 481.924825 1442.75265 3.0884 0.0014884 -0.42764 -0.00020609 2.6607 0.0012823 481.92482988389406 32.362 0.27711 32.98 32.82 33.097 0.61831 35 15 3 0 0 0 0.13295 1 14817 14817 2.2527 2.2527 1 602650 + 35684 16541 22754 22823 40012 40012 0.04897999044442258 VLYQIKLF 8 Unmodified _VLYQIKLF_ 0 0 0 REV__ENST00000339486.7_1_18:21033428-21042976:+|nuORF REV__ENST00000339486.7_1_18:21033428-21042976:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.318603515625 2 512.315503 1022.61645 NaN NaN NaN NaN NaN NaN NaN 32.291 1 32.909 32.409 33.409 0.61831 0 0 0 0.99035 1 14807 14807 2.8892 0 1 + 35685 15445 22755 22824 40013 40013 0.10604995867743128 VMAAVCVM 8 Unmodified _VMAAVCVM_ 0 0 0 ENSG00000174844|ENST00000495027|DNAH12 ENSG00000174844|ENST00000495027|DNAH12 ENSG00000174844|ENST00000495027|DNAH12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 411.7298889160156 2 412.19737 822.380188 NaN NaN NaN NaN NaN NaN NaN 101.78 1 102.38 101.88 102.88 0.59717 0 0 0 0.99035 1 47124 47124 0.79363 0 1 35686 4999 22756 22825 40014 40014 -0.038107185642275 VMAPRALLL 9 Oxidation (M) _VM(Oxidation (M))APRALLL_ VM(1)APRALLL VM(48)APRALLL 0 0 1 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000484378.1_1_6:31239370-31239848:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.3059387207031 2 500.304613 998.594672 3.2211 0.0016115 0.074105 3.7075E-05 3.2952 0.0016486 500.3045338979055 58.982 0.44948 59.241 59 59.449 0.2593 47 24 2 0 0 0 0.047285 1 27050 27050 48.346 6.2513 1 703640 35687 6014 22757 22826 40015 40015 80 0.09531867847556441 VMAPRALLL 9 Oxidation (M) _VM(Oxidation (M))APRALLL_ VM(1)APRALLL VM(46)APRALLL 0 0 1 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000484378.1_1_6:31239370-31239848:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.3063049316406 2 500.304613 998.594672 3.2613 0.0016316 0.13544 6.7761E-05 3.3967 0.0016994 500.3046411810232 58.311 0.23213 58.978 58.952 59.184 0.66703 27 16 2 0 0 0 0.052704 1 26718 26718 46.021 11.919 1 3071700 35688 6014 22757 22826 40016 40016 80 0.09531867847556441 VMAPRALLL 9 Oxidation (M) _VM(Oxidation (M))APRALLL_ 0 0 1 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000484378.1_1_6:31239370-31239848:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 500.304613 998.594672 2.7514 0.0013765 -0.12551 -6.2793E-05 2.6259 0.0013138 500.80634689075697 58.406 0.25571 59.165 58.994 59.25 0.75894 0.037355 -0.00019591 NaN 48.346 30 22 2 NaN NaN NaN NaN 0 NaN NaN 0 638150 35689 6014 22757 22826 80 0.09531867847556441 VMAPRALLL 9 Unmodified _VMAPRALLL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000484378.1_1_6:31239370-31239848:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.3084716796875 2 492.307155 982.599758 3.1872 0.0015691 -0.14281 -7.0308E-05 3.0443 0.0014988 492.3071326697407 64.826 0.32578 65.074 64.923 65.249 0.24803 61 20 4 0 0 0 0.017868 3 29688 29640;29688;29740 71.134 20.279 1 7302300 35690 6014 22757 22827 40017;40018;40019 40018 0.10776171710165272 VMAPRALLL 9 Unmodified _VMAPRALLL_ 0 0 0 nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000484378.1_1_6:31239370-31239848:-|nuORF nc|ENSG00000204525|P10321-2|HLA-C nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.3092346191406 2 492.307155 982.599758 3.2838 0.0016167 -0.19929 -9.8114E-05 3.0845 0.0015185 492.3072053729583 64.208 0.26632 64.865 64.769 65.035 0.65672 62 26 3 0 0 0 0.0080831 2 29463 29411;29463 85.357 24.967 1 10957000 35691 6014 22757 22827 40020;40021 40021 0.10776171710165272 VMAPRTLLL 9 Unmodified _VMAPRTLLL_ 0 0 0 ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910330-29910808:+|nuORF;ENST00000463348.5_1_6:30227401-30227711:+|nuORF ENSG00000206503|ENST00000376809|HLA-A ENSG00000206503|ENST00000376809|HLA-A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.31378173828125 2 507.312438 1012.61032 3.2695 0.0016587 -0.22436 -0.00011382 3.0452 0.0015448 507.31255218579395 61.629 0.28381 61.881 61.718 62.002 0.25245 26 12 3 0 0 0 0.044031 2 28211 28211;28269 61.602 32.52 1 1487600 35692 6072 22758 22828 40022;40023 40022 0.10452154364600119 VMAPRTLLL 9 Unmodified _VMAPRTLLL_ 0 0 0 ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910330-29910808:+|nuORF;ENST00000463348.5_1_6:30227401-30227711:+|nuORF ENSG00000206503|ENST00000376809|HLA-A ENSG00000206503|ENST00000376809|HLA-A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.31439208984375 2 507.312438 1012.61032 3.2515 0.0016495 -0.21267 -0.00010789 3.0388 0.0015416 507.31243481898264 60.928 0.25612 61.59 61.477 61.733 0.66261 24 10 3 0 0 0 0.079841 1 27897 27897 47.594 18.513 1 1723100 35693 6072 22758 22828 40024 40024 0.10452154364600119 VMAPRTVLL 9 Unmodified _VMAPRTVLL_ 0 0 0 ENSG00000234745|ENST00000412585|HLA-B;ENST00000498007.1_1_6:31324459-31324935:-|nuORF;ENST00000434333.1_1_6:31324722-31324935:-|nuORF ENSG00000234745|ENST00000412585|HLA-B ENSG00000234745|ENST00000412585|HLA-B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.3061828613281 2 500.304613 998.594672 2.9148 0.0014583 -0.063607 -3.1823E-05 2.8512 0.0014265 500.3046171673983 55.725 0.29001 55.725 55.576 55.866 0 57 22 3 0 0 0 0.0061394 2 25645 25593;25645 89.401 35.568 1 10600000 35694 6198 22759 22829 40025;40026 40026 0.09531867847545072 VMAPRTVLL 9 Unmodified _VMAPRTVLL_ 0 0 0 ENSG00000234745|ENST00000412585|HLA-B;ENST00000498007.1_1_6:31324459-31324935:-|nuORF;ENST00000434333.1_1_6:31324722-31324935:-|nuORF ENSG00000234745|ENST00000412585|HLA-B ENSG00000234745|ENST00000412585|HLA-B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.30621337890625 2 500.304613 998.594672 3.1464 0.0015742 -0.30364 -0.00015191 2.8428 0.0014223 500.3045753057476 57.258 0.27148 57.258 57.135 57.406 0 66 25 4 0 0 0 0.02812 3 26404 26360;26404;26452 57.722 22.548 1 4960800 35695 6198 22759 22829 40027;40028;40029 40028 0.09531867847545072 VMAPRTVLL 9 Unmodified _VMAPRTVLL_ 0 0 0 ENSG00000234745|ENST00000412585|HLA-B;ENST00000498007.1_1_6:31324459-31324935:-|nuORF;ENST00000434333.1_1_6:31324722-31324935:-|nuORF ENSG00000234745|ENST00000412585|HLA-B ENSG00000234745|ENST00000412585|HLA-B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.30621337890625 2 500.304613 998.594672 2.6607 0.0013312 -0.10441 -5.2236E-05 2.5563 0.0012789 500.30458874252 54.75 0.31524 55.546 55.36 55.675 0.79552 54 18 4 0 0 0 0.011692 2 24988 24934;24988 79.596 33.897 1 8929100 35696 6198 22759 22829 40030;40031 40031 0.09531867847545072 VMAPRTVLL 9 Unmodified _VMAPRTVLL_ 0 0 0 ENSG00000234745|ENST00000412585|HLA-B;ENST00000498007.1_1_6:31324459-31324935:-|nuORF;ENST00000434333.1_1_6:31324722-31324935:-|nuORF ENSG00000234745|ENST00000412585|HLA-B ENSG00000234745|ENST00000412585|HLA-B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.3052673339844 2 500.304613 998.594672 2.7976 0.0013997 -0.42177 -0.00021101 2.3758 0.0011886 500.3045498941739 56.392 0.27658 57.17 57.036 57.312 0.77786 86 29 4 0 0 0 0.021401 3 25749 25749;25793;25839 66.457 24.617 1 4236300 35697 6198 22759 22829 40032;40033;40034 40032 0.09531867847545072 VMAPRTVLL 9 Unmodified _VMAPRTVLL_ 0 0 0 ENSG00000234745|ENST00000412585|HLA-B;ENST00000498007.1_1_6:31324459-31324935:-|nuORF;ENST00000434333.1_1_6:31324722-31324935:-|nuORF ENSG00000234745|ENST00000412585|HLA-B ENSG00000234745|ENST00000412585|HLA-B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.30670166015625 2 500.304613 998.594672 NaN NaN NaN NaN NaN NaN NaN 54.886 1 55.682 55.182 56.182 0.79552 0 0 0 0.34849 1 25049 25049 24.991 7.8781 1 35698 6198 22759 22829 40035 40035 0.09531867847545072 VMAPRTVLL 9 Unmodified _VMAPRTVLL_ 0 0 0 ENSG00000234745|ENST00000412585|HLA-B;ENST00000498007.1_1_6:31324459-31324935:-|nuORF;ENST00000434333.1_1_6:31324722-31324935:-|nuORF ENSG00000234745|ENST00000412585|HLA-B ENSG00000234745|ENST00000412585|HLA-B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.3060302734375 2 500.304613 998.594672 3.0192 0.0015105 -0.012489 -6.2482E-06 3.0068 0.0015043 500.30477500629877 55.479 0.31767 55.744 55.548 55.865 0.26543 49 15 5 0 0 0 0.0061394 2 25320 25320;25373 89.401 35.568 1 16894000 35699 6198 22759 22829 40036;40037 40036 0.09531867847545072 VMAPRTVLL 9 Unmodified _VMAPRTVLL_ 0 0 0 ENSG00000234745|ENST00000412585|HLA-B;ENST00000498007.1_1_6:31324459-31324935:-|nuORF;ENST00000434333.1_1_6:31324722-31324935:-|nuORF ENSG00000234745|ENST00000412585|HLA-B ENSG00000234745|ENST00000412585|HLA-B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.3050842285156 2 500.304613 998.594672 3.1737 0.0015878 -0.19245 -9.6283E-05 2.9813 0.0014915 500.3046353065815 56.999 0.36557 57.263 57.031 57.396 0.26444 38 15 4 0 0 0 0.014491 2 26050 26050;26103 75.761 24.617 1 11500000 35700 6198 22759 22829 40038;40039 40038 0.09531867847545072 VMAPRTVLL 9 Unmodified _VMAPRTVLL_ 0 0 0 ENSG00000234745|ENST00000412585|HLA-B;ENST00000498007.1_1_6:31324459-31324935:-|nuORF;ENST00000434333.1_1_6:31324722-31324935:-|nuORF ENSG00000234745|ENST00000412585|HLA-B ENSG00000234745|ENST00000412585|HLA-B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.3062744140625 2 500.304613 998.594672 3.1553 0.0015786 -0.22414 -0.00011214 2.9312 0.0014665 500.30459129575956 54.678 0.31622 55.345 55.189 55.505 0.6665 82 25 4 0 0 0 0.011692 3 24980 24980;25027;25073 79.596 25.764 1 23934000 35701 6198 22759 22829 40040;40041;40042 40040 0.09531867847545072 VMAPRTVLL 9 Unmodified _VMAPRTVLL_ 0 0 0 ENSG00000234745|ENST00000412585|HLA-B;ENST00000498007.1_1_6:31324459-31324935:-|nuORF;ENST00000434333.1_1_6:31324722-31324935:-|nuORF ENSG00000234745|ENST00000412585|HLA-B ENSG00000234745|ENST00000412585|HLA-B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.305908203125 2 500.304613 998.594672 3.2808 0.0016414 -0.14248 -7.1281E-05 3.1383 0.0015701 500.3047321567246 56.364 0.63394 57.032 56.531 57.165 0.66829 90 37 4 0 0 0 0.018453 3 25791 25698;25747;25791 70.332 24.617 1 10748000 35702 6198 22759 22829 40043;40044;40045 40045 0.09531867847545072 VMAPRTVLL 9 Oxidation (M) _VM(Oxidation (M))APRTVLL_ VM(1)APRTVLL VM(48)APRTVLL 0 0 1 ENSG00000234745|ENST00000412585|HLA-B;ENST00000498007.1_1_6:31324459-31324935:-|nuORF;ENST00000434333.1_1_6:31324722-31324935:-|nuORF ENSG00000234745|ENST00000412585|HLA-B ENSG00000234745|ENST00000412585|HLA-B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.3032531738281 2 508.30207 1014.58959 3.26 0.0016571 -0.30254 -0.00015378 2.9575 0.0015033 508.30197343469155 49.93 0.60743 50.192 49.98 50.587 0.26146 53 22 3 0 0 0 0.049036 2 22794 22794;22906 47.594 18.513 1 1372200 35703 6198 22759 22830 40046;40047 40046 83 0.08287563984924873 VMAPRTVLL 9 Oxidation (M) _VM(Oxidation (M))APRTVLL_ VM(1)APRTVLL VM(46)APRTVLL 0 0 1 ENSG00000234745|ENST00000412585|HLA-B;ENST00000498007.1_1_6:31324459-31324935:-|nuORF;ENST00000434333.1_1_6:31324722-31324935:-|nuORF ENSG00000234745|ENST00000412585|HLA-B ENSG00000234745|ENST00000412585|HLA-B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.3035583496094 2 508.30207 1014.58959 3.3658 0.0017108 -0.54342 -0.00027622 2.8224 0.0014346 508.30181641621505 49.38 0.51302 50.036 49.791 50.304 0.65524 45 17 3 0 0 0 0.053359 2 22546 22546;22597 45.74 17.503 1 1659500 35704 6198 22759 22830 40048;40049 40048 83 0.08287563984924873 VMDAIEEL 8 Unmodified _VMDAIEEL_ 0 0 0 REV__nc|ENSG00000144290|Q6U841-2|SLC4A10 REV__nc|ENSG00000144290|Q6U841-2|SLC4A10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 307.1540832519531 3 307.152888 918.436834 NaN NaN NaN NaN NaN NaN NaN 73.294 1 73.993 73.493 74.493 0.69881 0 0 0 0.99035 1 35323 35323 3.5965 0 1 + 35705 12397 22760 22831 40050 40050 -0.02564676202348437 VMDVYDIA 8 Unmodified _VMDVYDIA_ 0 0 0 ENSG00000188026|ENST00000376874|RILPL1 ENSG00000188026|ENST00000376874|RILPL1 ENSG00000188026|ENST00000376874|RILPL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 924.935302734375 1 925.433546 924.426269 3.9995 0.0037012 -0.105 -9.7175E-05 3.8944 0.0036041 925.4338167210298 69.295 0.18764 69.549 69.436 69.623 0.25443 16 11 2 0 0 0 0.14249 1 31691 31691 2.8892 0 1 243980 35706 5648 22761 22832 40051 40051 -0.038966588567973304 VMHLRRGH 8 Unmodified _VMHLRRGH_ 0 0 0 REV__ENSG00000138111|ENST00000238936|MFSD13A REV__ENSG00000138111|ENST00000238936|MFSD13A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.8565368652344 3 335.855622 1004.54504 1.6237 0.00054533 0.34565 0.00011609 1.9693 0.00066142 335.85581650772883 5.9978 0.50925 6.303 6.0843 6.5935 0.30519 69 48 2 0 0 0 0.7471 1 2734 2734 0.45834 0 1 58685 + 35707 12149 22762 22833 40052 40052 0.04294597682098811 VMKILQVLRTL 11 Unmodified _VMKILQVLRTL_ 0 0 0 GBF1|p.L133V|1|0.21|ENSG00000107862|chr10:102351357-102351357|C/G|missense_variant GBF1|p.L133V|1|0.21|ENSG00000107862|chr10:102351357-102351357|C/G|missense_variant GBF1|p.L133V|1|0.21|ENSG00000107862|chr10:102351357-102351357|C/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 438.6189270019531 3 438.616097 1312.82646 NaN NaN NaN NaN NaN NaN NaN 53.992 1 54.256 53.756 54.756 0.26462 0 0 0 1.0059 1 24689 24689 1.2148 0 1 35708 9362 22763 22834 40053 40053 0.18256290478416304 VMKLMRRKKRI 11 Unmodified _VMKLMRRKKRI_ 0 0 0 ENST00000278520.9_2_11:96116528-96117142:-|nuORF ENST00000278520.9_2_11:96116528-96117142:-|nuORF ENST00000278520.9_2_11:96116528-96117142:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 730.3807373046875 2 729.965425 1457.9163 NaN NaN NaN NaN NaN NaN NaN 109.04 1 109.35 108.85 109.85 0.31168 0 0 0 1.0082 1 50273 50273 0 0 1 35709 6685 22764 22835 40054 40054 0.20565641605981 VMKRKKKKKK 10 Unmodified _VMKRKKKKKK_ 0 0 0 REV__ENSG00000088205|ENST00000263239|DDX18 REV__ENSG00000088205|ENST00000263239|DDX18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 651.4521484375 2 651.449934 1300.88532 NaN NaN NaN NaN NaN NaN NaN 31.315 1 32.104 31.604 32.604 0.78879 0 0 0 1.002 1 14141 14141 0 0 1 + 35710 10676 22765 22836 40055 40055 0.24690811563391435 VMKRKKKKKKK 11 Unmodified _VMKRKKKKKKK_ 0 0 0 REV__ENSG00000088205|ENST00000263239|DDX18 REV__ENSG00000088205|ENST00000263239|DDX18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 715.6913452148438 2 715.497416 1428.98028 NaN NaN NaN NaN NaN NaN NaN 28.448 1 28.448 27.948 28.948 0 0 0 0 1.0082 1 12826 12826 0 0 1 + 35711 10676 22766 22837 40056 40056 0.2829474503457732 VMKVKAEL 8 Unmodified _VMKVKAEL_ 0 0 0 ENSG00000239900|ENST00000623063|ADSL;nc|ENSG00000239900|P30566-2|ADSL ENSG00000239900|ENST00000623063|ADSL ENSG00000239900|ENST00000623063|ADSL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 306.5220031738281 3 306.521134 916.541574 2.2463 0.00068854 0.15379 4.7141E-05 2.4001 0.00073569 306.5211424533866 26.293 0.19617 26.558 26.447 26.643 0.26489 27 15 2 0 0 0 0.69597 1 11960 11960 6.2058 2.2614 1 309920 35712 6214 22767 22838 40057 40057 0.07996490064851969 VMKVKAEL 8 Unmodified _VMKVKAEL_ 0 0 0 ENSG00000239900|ENST00000623063|ADSL;nc|ENSG00000239900|P30566-2|ADSL ENSG00000239900|ENST00000623063|ADSL ENSG00000239900|ENST00000623063|ADSL MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 306.521134 916.541574 2.0366 0.00062427 0.1473 4.5152E-05 2.1839 0.00066942 306.52116816637334 25.906 0.21783 26.531 26.457 26.675 0.62505 -0.013417 -2.8726E-06 NaN 6.2058 22 16 2 NaN NaN NaN NaN 0 NaN NaN 0 315490 35713 6214 22767 22838 0.07996490064851969 VMLKIGTS 8 Unmodified _VMLKIGTS_ 0 0 0 nc|ENSG00000150995|Q14643-4|ITPR1;nc|ENSG00000150995|Q14643-3|ITPR1;nc|ENSG00000150995|Q14643-8|ITPR1;nc|ENSG00000150995|Q14643-7|ITPR1;nc|ENSG00000150995|Q14643-5|ITPR1;nc|ENSG00000150995|Q14643-6|ITPR1;nc|ENSG00000150995|Q14643-2|ITPR1;ENSG00000150995|ENST00000649015|ITPR1;ITPR1|p.Y1487Sfs*6|1|0.36|ENSG00000150995|chr3:4699863-4699866|GTAT/-|frameshift_variant nc|ENSG00000150995|Q14643-4|ITPR1 nc|ENSG00000150995|Q14643-4|ITPR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 424.75238037109375 2 424.749139 847.483725 2.9193 0.00124 2.7596 0.0011722 5.6789 0.0024121 424.7503538483172 28.825 0.088188 29.085 29.054 29.142 0.2602 6 4 2 0 0 0 0.7471 1 13133 13133 0.69038 0 1 401340 35714 3685 22768 22839 40058 40058 0.05388228139452167 VMLKIGTS 8 Unmodified _VMLKIGTS_ 0 0 0 nc|ENSG00000150995|Q14643-4|ITPR1;nc|ENSG00000150995|Q14643-3|ITPR1;nc|ENSG00000150995|Q14643-8|ITPR1;nc|ENSG00000150995|Q14643-7|ITPR1;nc|ENSG00000150995|Q14643-5|ITPR1;nc|ENSG00000150995|Q14643-6|ITPR1;nc|ENSG00000150995|Q14643-2|ITPR1;ENSG00000150995|ENST00000649015|ITPR1;ITPR1|p.Y1487Sfs*6|1|0.36|ENSG00000150995|chr3:4699863-4699866|GTAT/-|frameshift_variant nc|ENSG00000150995|Q14643-4|ITPR1 nc|ENSG00000150995|Q14643-4|ITPR1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 424.749139 847.483725 3.1132 0.0013223 3.1843 0.0013525 6.2975 0.0026749 424.75041155128645 29.436 0.17422 29.436 29.323 29.497 0 0.23896 -8.7299E-05 NaN 0.69038 23 15 2 NaN NaN NaN NaN 0 NaN NaN 0 324680 35715 3685 22768 22839 0.05388228139452167 VMLKRKPG 8 Unmodified _VMLKRKPG_ 0 0 0 REV__ENST00000452510.6_2_5:134102740-134109419:+|nuORF REV__ENST00000452510.6_2_5:134102740-134109419:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 310.19647216796875 3 310.196874 927.568792 NaN NaN NaN NaN NaN NaN NaN 25.905 1 26.668 26.168 27.168 0.76356 0 0 0 0.99035 1 11630 11630 1.6526 0 1 + 35716 16419 22769 22840 40059 40059 0.10211018395921201 VMLLARPATG 10 Unmodified _VMLLARPATG_ 0 0 0 ENSG00000162771|ENST00000294829|GARIN4 ENSG00000162771|ENST00000294829|GARIN4 ENSG00000162771|ENST00000294829|GARIN4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.5355224609375 3 343.535555 1027.58484 2.3405 0.00080403 -1.0058 -0.00034552 1.3347 0.00045851 343.53487585658445 34.424 0.54674 35.047 34.755 35.301 0.62294 62 21 4 0 0 0 0.93534 1 15740 15740 0.77653 0 1 1901200 35717 4166 22770 22841 40060 40060 0.07214679842149962 VMLNSRVIP 9 Unmodified _VMLNSRVIP_ 0 0 0 REV__ENSG00000010292|ENST00000315579|NCAPD2 REV__ENSG00000010292|ENST00000315579|NCAPD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.8009643554688 2 514.799694 1027.58484 3.4001 0.0017503 -0.77828 -0.00040066 2.6218 0.0013497 514.7991255682759 35.297 0.48537 35.552 35.357 35.842 0.25524 38 18 3 0 0 0 1.129 1 16043 16043 1.8442 0 1 372670 + 35718 10223 22771 22842 40061 40061 0.07214679842149962 VMPKVVPTL 9 Unmodified _VMPKVVPTL_ 0 0 0 ENSG00000157741|ENST00000473989|UBN2;nc|ENSG00000157741|Q6ZU65-2|UBN2 ENSG00000157741|ENST00000473989|UBN2 ENSG00000157741|ENST00000473989|UBN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.3067932128906 2 492.301539 982.588524 NaN NaN NaN NaN NaN NaN NaN 65.007 1 65.255 64.755 65.755 0.24803 0 0 0 0.86044 1 29782 29782 7.2892 2.5332 1 35719 3960 22772 22843 40062 40062 0.09653349616019113 VMPLKLQYF 9 Unmodified _VMPLKLQYF_ 0 0 0 REV__ENSG00000140832|ENST00000268485|MARVELD3 REV__ENSG00000140832|ENST00000268485|MARVELD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.8192138671875 2 569.820095 1137.62564 NaN NaN NaN NaN NaN NaN NaN 59.023 1 59.69 59.19 60.19 0.66703 0 0 0 0.90611 1 27019 27019 2.0598 0.40713 1 + 35720 12266 22773 22844 40063 40063 0.06233021161756369 VMRRRWRRWRR 11 Unmodified _VMRRRWRRWRR_ 0 0 0 UNC80|p.G757Vfs*14|1|0.06|ENSG00000144406|chr2:209820617-209820618|-/TCAT|frameshift_variant UNC80|p.G757Vfs*14|1|0.06|ENSG00000144406|chr2:209820617-209820618|-/TCAT|frameshift_variant UNC80|p.G757Vfs*14|1|0.06|ENSG00000144406|chr2:209820617-209820618|-/TCAT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 857.5015869140625 2 857.50021 1712.98587 NaN NaN NaN NaN NaN NaN NaN 103.83 1 103.83 103.33 104.33 0 0 0 0 1.0082 1 57190 57190 0 0 1 35721 18286 22774 22845 40064 40064 0.15789281389606913 VMRRRWRRWRR 11 Unmodified _VMRRRWRRWRR_ 0 0 0 UNC80|p.G757Vfs*14|1|0.06|ENSG00000144406|chr2:209820617-209820618|-/TCAT|frameshift_variant UNC80|p.G757Vfs*14|1|0.06|ENSG00000144406|chr2:209820617-209820618|-/TCAT|frameshift_variant UNC80|p.G757Vfs*14|1|0.06|ENSG00000144406|chr2:209820617-209820618|-/TCAT|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 572.280517578125 3 572.002565 1712.98587 3.6851 0.0021079 -1.6924 -0.00096806 1.9927 0.0011398 572.3355371186152 55.937 0.29938 56.605 56.478 56.778 0.66797 25 13 3 0 0 0 0.13295 1 25641 25641 0 0 1 648840 35722 18286 22774 22845 40065 40065 0.15789281389606913 VMSATFAKF 9 Unmodified _VMSATFAKF_ 0 0 0 ENST00000435916.1_1_10:52025510-52026503:+|nuORF;ENST00000479806.1_1_2:172583261-172604396:+|nuORF;nc|ENSG00000077380|Q13409-6|DYNC1I2;nc|ENSG00000077380|Q13409-3|DYNC1I2;nc|ENSG00000077380|Q13409-7|DYNC1I2;nc|ENSG00000077380|Q13409-2|DYNC1I2;nc|ENSG00000077380|Q13409-5|DYNC1I2;ENSG00000077380|ENST00000397119|DYNC1I2 ENST00000435916.1_1_10:52025510-52026503:+|nuORF ENST00000435916.1_1_10:52025510-52026503:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.26129150390625 2 501.259871 1000.50519 3.4688 0.0017388 0.060432 3.0292E-05 3.5292 0.001769 501.2597111461853 54.058 0.23369 54.058 53.918 54.152 0 28 19 3 0 0 0 0.03963 2 24762 24762;24812 51.63 28.481 1 792210 35723 862 22775 22846 40066;40067 40066 0.004956131681524312 VMSATFAKF 9 Unmodified _VMSATFAKF_ 0 0 0 ENST00000435916.1_1_10:52025510-52026503:+|nuORF;ENST00000479806.1_1_2:172583261-172604396:+|nuORF;nc|ENSG00000077380|Q13409-6|DYNC1I2;nc|ENSG00000077380|Q13409-3|DYNC1I2;nc|ENSG00000077380|Q13409-7|DYNC1I2;nc|ENSG00000077380|Q13409-2|DYNC1I2;nc|ENSG00000077380|Q13409-5|DYNC1I2;ENSG00000077380|ENST00000397119|DYNC1I2 ENST00000435916.1_1_10:52025510-52026503:+|nuORF ENST00000435916.1_1_10:52025510-52026503:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.26287841796875 2 501.259871 1000.50519 3.168 0.001588 1.0384 0.00052052 4.2064 0.0021085 501.2605286740262 53.894 0.22434 54.159 54.045 54.27 0.26462 13 8 2 0 0 0 0.11155 1 24658 24658 29.841 15.002 1 269040 35724 862 22775 22846 40068 40068 0.004956131681524312 VMSATFAKF 9 Unmodified _VMSATFAKF_ 0 0 0 ENST00000435916.1_1_10:52025510-52026503:+|nuORF;ENST00000479806.1_1_2:172583261-172604396:+|nuORF;nc|ENSG00000077380|Q13409-6|DYNC1I2;nc|ENSG00000077380|Q13409-3|DYNC1I2;nc|ENSG00000077380|Q13409-7|DYNC1I2;nc|ENSG00000077380|Q13409-2|DYNC1I2;nc|ENSG00000077380|Q13409-5|DYNC1I2;ENSG00000077380|ENST00000397119|DYNC1I2 ENST00000435916.1_1_10:52025510-52026503:+|nuORF ENST00000435916.1_1_10:52025510-52026503:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 501.259871 1000.50519 2.8851 0.0014462 0.65542 0.00032854 3.5405 0.0017747 501.2602661179878 52.991 0.19791 53.794 53.675 53.873 0.80351 -0.2094 0.00010304 NaN 51.63 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 756450 35725 862 22775 22846 0.004956131681524312 VMSKGTSA 8 Unmodified _VMSKGTSA_ 0 0 0 REV__ENST00000261880.9_1_15:67528786-67528816:-|nuORF REV__ENST00000261880.9_1_15:67528786-67528816:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.6091613769531 2 390.699646 779.384739 NaN NaN NaN NaN NaN NaN NaN 68.149 1 68.402 67.902 68.902 0.25227 0 0 0 0.99035 1 31219 31219 2.3027 0 1 + 35726 14973 22776 22847 40069 40069 -0.01377794825464207 VMSSPTST 8 Unmodified _VMSSPTST_ 0 0 0 REV__ENSG00000154783|ENST00000285046|FGD5 REV__ENSG00000154783|ENST00000285046|FGD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.5203552246094 2 405.189111 808.363669 NaN NaN NaN NaN NaN NaN NaN 95.341 1 95.609 95.109 96.109 0.2675 0 0 0 0.99035 1 43807 43807 2.5775 0 1 + 35727 12723 22777 22848 40070 40070 -0.04817804924982738 VMSSPTST 8 Unmodified _VMSSPTST_ 0 0 0 REV__ENSG00000154783|ENST00000285046|FGD5 REV__ENSG00000154783|ENST00000285046|FGD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.18914794921875 2 405.189111 808.363669 NaN NaN NaN NaN NaN NaN NaN 84.688 1 85.353 84.853 85.853 0.66566 0 0 0 0.99035 1 39006 39006 2.5775 0 1 + 35728 12723 22777 22848 40071 40071 -0.04817804924982738 VNASDPIVL 9 Unmodified _VNASDPIVL_ 0 0 0 REV__ENSG00000143344|ENST00000360851|RGL1 REV__ENSG00000143344|ENST00000360851|RGL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.26251220703125 2 464.260925 926.507297 2.7361 0.0012703 0.23328 0.00010831 2.9694 0.0013786 464.2609546054856 34.919 0.37746 35.708 35.553 35.93 0.78921 60 24 3 0 0 0 0.048676 1 15839 15839 47.749 3.8904 1 1159900 + 35729 12363 22778 22849 40072 40072 0.04110365177609765 VNASDPIVL 9 Unmodified _VNASDPIVL_ 0 0 0 REV__ENSG00000143344|ENST00000360851|RGL1 REV__ENSG00000143344|ENST00000360851|RGL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.2621765136719 2 464.260925 926.507297 2.8631 0.0013292 0.42206 0.00019595 3.2852 0.0015252 464.2610732674592 35.206 0.38 35.829 35.681 36.061 0.62294 28 13 3 0 0 0 0.029308 2 16117 16117;16176 56.177 3.8227 1 1125900 + 35730 12363 22778 22849 40073;40074 40073 0.04110365177609765 VNCLEPHPYLP 11 Unmodified _VNCLEPHPYLP_ 0 0 0 ENSG00000226372|ENST00000441525|DCAF8L1 ENSG00000226372|ENST00000441525|DCAF8L1 ENSG00000226372|ENST00000441525|DCAF8L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 641.3187866210938 2 641.318448 1280.62234 NaN NaN NaN NaN NaN NaN NaN 57.378 1 58.147 57.647 58.647 0.76861 0 0 0 1.0071 1 26271 26271 1.4819 0 1 35731 6169 22779 22850 40075 40075 -0.006742736828982743 VNCMERVI 8 Oxidation (M) _VNCM(Oxidation (M))ERVI_ VNCM(1)ERVI VNCM(42)ERVI 0 0 1 REV__ENSG00000205476|ENST00000380243|CCDC85C REV__ENSG00000205476|ENST00000380243|CCDC85C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.2409362792969 2 490.238612 978.462672 2.8872 0.0014154 0.62376 0.00030579 3.511 0.0017212 490.23897346203705 59.117 0.27489 59.876 59.779 60.053 0.75894 28 19 2 0 0 0 0.21011 1 27152 27152 42.095 13.608 1 1041500 + 35732 14462 22780 22851 40076 40076 98 -0.027421052317095018 VNCMERVI 8 Oxidation (M) _VNCM(Oxidation (M))ERVI_ 0 0 1 REV__ENSG00000205476|ENST00000380243|CCDC85C REV__ENSG00000205476|ENST00000380243|CCDC85C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 490.238612 978.462672 2.8872 0.0014154 0.62376 0.00030579 3.511 0.0017212 490.23897346203705 59.117 0.27489 59.876 59.779 60.053 0.75894 -0.024662 -0.00010996 NaN 42.095 28 19 2 NaN NaN NaN NaN 0 NaN NaN 0 1041500 + 35733 14462 22780 22851 98 -0.027421052317095018 VNCMERVI 8 Oxidation (M) _VNCM(Oxidation (M))ERVI_ 0 0 1 REV__ENSG00000205476|ENST00000380243|CCDC85C REV__ENSG00000205476|ENST00000380243|CCDC85C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 490.238612 978.462672 3.1883 0.001563 1.0621 0.00052066 4.2504 0.0020837 490.2388254367464 59.724 0.32548 59.983 59.826 60.151 0.2593 0.082713 0.00031978 NaN 42.095 35 20 2 NaN NaN NaN NaN 0 NaN NaN 0 1147900 + 35734 14462 22780 22851 98 -0.027421052317095018 VNCMERVI 8 Oxidation (M) _VNCM(Oxidation (M))ERVI_ 0 0 1 REV__ENSG00000205476|ENST00000380243|CCDC85C REV__ENSG00000205476|ENST00000380243|CCDC85C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 490.238612 978.462672 3.2105 0.0015739 0.65282 0.00032004 3.8633 0.0018939 490.2389660594021 59.175 0.30409 59.842 59.675 59.979 0.66703 -0.058051 -8.1461E-05 NaN 42.095 24 15 2 NaN NaN NaN NaN 0 NaN NaN 0 1181900 + 35735 14462 22780 22851 98 -0.027421052317095018 VNDPDVNLV 9 Unmodified _VNDPDVNLV_ 0 0 0 REV__ENSG00000130222|ENST00000252506|GADD45G REV__ENSG00000130222|ENST00000252506|GADD45G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 984.5030517578125 1 984.499652 983.492375 3.7921 0.0037333 0.81935 0.00080665 4.6114 0.0045399 984.5007167445917 57.057 0.31623 57.725 57.491 57.807 0.66829 22 15 2 0 0 0 0.014491 1 26128 26128 75.761 9.3041 1 1407400 + 35736 11805 22781 22852 40077 40077 -3.1266903874893615E-05 VNDYHFDYKKW 11 Unmodified _VNDYHFDYKKW_ 0 0 0 REV__nc|ENSG00000148408|Q00975-2|CACNA1B REV__nc|ENSG00000148408|Q00975-2|CACNA1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 757.8573608398438 2 757.856783 1513.69901 NaN NaN NaN NaN NaN NaN NaN 95.687 1 95.687 95.187 96.187 0 0 0 0 1.008 1 51594 51594 0.35063 0 1 + 35737 12536 22782 22853 40078 40078 -0.03728758862075665 VNEAELLR 8 Unmodified _VNEAELLR_ 0 0 0 ENSG00000177469|ENST00000357037|CAVIN1 ENSG00000177469|ENST00000357037|CAVIN1 ENSG00000177469|ENST00000357037|CAVIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.26580810546875 2 472.263999 942.513445 3.1154 0.0014713 0.32115 0.00015167 3.4366 0.001623 472.2641952443915 13.272 0.12189 13.915 13.808 13.93 0.64272 15 8 2 0 0 0 0.59486 1 5939 5939 18.146 0 1 209660 35738 5119 22783 22854 40079 40079 0.039888834091470926 VNEEITYIN 9 Unmodified _VNEEITYIN_ 0 0 0 REV__ENSG00000135077|ENST00000307851|HAVCR2 REV__ENSG00000135077|ENST00000307851|HAVCR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.5182800292969 3 365.516995 1093.52915 NaN NaN NaN NaN NaN NaN NaN 21.301 1 21.587 21.087 22.087 0.28662 0 0 0 0.49214 1 9645 9645 13.615 2.8154 1 + 35739 11997 22784 22855 40080 40080 -0.013868748644881634 VNEKTLRK 8 Unmodified _VNEKTLRK_ 0 0 0 REV__THOC2|p.K1449Tfs*6|1|0.35|ENSG00000125676|chrX:123614155-123614156|-/TGGACAGTGG|frameshift_variant REV__THOC2|p.K1449Tfs*6|1|0.35|ENSG00000125676|chrX:123614155-123614156|-/TGGACAGTGG|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 494.3026123046875 2 494.300916 986.587279 3.8018 0.0018792 0.26227 0.00012964 4.0641 0.0020089 494.3010465180928 93.365 0.67335 93.62 93.308 93.981 0.25497 116 32 5 0 0 0 0.7471 1 42982 42982 0.69038 0 1 63202000 + 35740 11690 22785 22856 40081 40081 0.09344851571484014 VNENNLLK 8 Unmodified _VNENNLLK_ 0 0 0 REV__nc|ENSG00000177888|Q5SVQ8-2|ZBTB41 REV__nc|ENSG00000177888|Q5SVQ8-2|ZBTB41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.76708984375 2 472.263999 942.513445 2.8765 0.0013585 0.58642 0.00027695 3.463 0.0016354 472.26415599585505 14.14 0.09818 14.14 14.077 14.176 0 11 6 2 0 0 0 0.35763 1 6226 6226 37.974 1.847 1 414020 + 35741 13745 22786 22857 40082 40082 0.039888834091470926 VNENNLLK 8 Unmodified _VNENNLLK_ 0 0 0 REV__nc|ENSG00000177888|Q5SVQ8-2|ZBTB41 REV__nc|ENSG00000177888|Q5SVQ8-2|ZBTB41 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 472.263999 942.513445 2.8765 0.0013585 0.58642 0.00027695 3.463 0.0016354 472.26415599585505 14.14 0.09818 14.14 14.077 14.176 0 0.11262 0.0001337 NaN 37.974 11 6 2 NaN NaN NaN NaN 0 NaN NaN 0 414020 + 35742 13745 22786 22857 0.039888834091470926 VNENRFCN 8 Unmodified _VNENRFCN_ 0 0 0 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.9772644042969 2 498.221808 994.429063 2.7442 0.0013672 0.31813 0.0001585 3.0623 0.0015257 498.2219264076988 59.123 0.11301 59.882 59.852 59.965 0.75894 11 7 2 0 0 0 0.74071 1 27185 27185 2.5775 0 1 431790 35743 5318 22787 22858 40083 40083 -0.06837390679265809 VNENRFCN 8 Unmodified _VNENRFCN_ 0 0 0 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 498.221808 994.429063 2.7442 0.0013672 0.31813 0.0001585 3.0623 0.0015257 498.2219264076988 59.123 0.11301 59.882 59.852 59.965 0.75894 0.020519 0.00025367 NaN 2.5775 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 431790 35744 5318 22787 22858 -0.06837390679265809 VNENRFCN 8 Unmodified _VNENRFCN_ 0 0 0 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 ENSG00000182195|ENST00000370526|LDOC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 498.221808 994.429063 3.2276 0.001608 -0.12133 -6.045E-05 3.1062 0.0015476 498.22158547407486 59.174 0.27122 59.841 59.688 59.959 0.66703 -0.020519 -0.00018423 NaN 2.5775 15 13 2 NaN NaN NaN NaN 0 NaN NaN 0 755130 35745 5318 22787 22858 -0.06837390679265809 VNEWICMI 8 Unmodified _VNEWICMI_ 0 0 0 ENST00000511235.1_1_5:134303666-134331399:+|nuORF ENST00000511235.1_1_5:134303666-134331399:+|nuORF ENST00000511235.1_1_5:134303666-134331399:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.2385559082031 2 504.238081 1006.46161 3.2287 0.001628 0.13907 7.0124E-05 3.3678 0.0016981 504.2379974723818 49.908 0.3219 50.565 50.461 50.783 0.65735 19 11 2 0 0 0 0.70146 1 22875 22875 5.7604 0.52976 1 205290 35746 8563 22788 22859 40084 40084 -0.04136319600615934 VNEWICMI 8 Unmodified _VNEWICMI_ 0 0 0 ENST00000511235.1_1_5:134303666-134331399:+|nuORF ENST00000511235.1_1_5:134303666-134331399:+|nuORF ENST00000511235.1_1_5:134303666-134331399:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 504.238081 1006.46161 3.1923 0.0016097 0.29635 0.00014943 3.4886 0.0017591 504.23805177616657 50.654 0.33389 50.654 50.461 50.795 0 0.044252 9.2295E-05 NaN 5.7604 23 19 2 NaN NaN NaN NaN 0 NaN NaN 0 777720 35747 8563 22788 22859 -0.04136319600615934 VNFHLLLV 8 Unmodified _VNFHLLLV_ 0 0 0 REV__nc|ENSG00000165731|P07949-2|RET REV__nc|ENSG00000165731|P07949-2|RET MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 954.5817260742188 1 954.577114 953.569838 4.5375 0.0043314 0.67314 0.00064257 5.2107 0.004974 954.5774083933109 103.21 0.019745 103.53 103.52 103.54 0.31863 5 3 2 0 0 0 0.7471 1 47719 47719 0 0 1 208990 + 35748 13185 22789 22860 40085 40085 0.09119556036478116 VNFHLLLV 8 Unmodified _VNFHLLLV_ 0 0 0 REV__nc|ENSG00000165731|P07949-2|RET REV__nc|ENSG00000165731|P07949-2|RET MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 954.577114 953.569838 4.5375 0.0043314 0.67314 0.00064257 5.2107 0.004974 954.5774083933109 103.21 0.019745 103.53 103.52 103.54 0.31863 -0.11564 -0.00010505 NaN 0 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 208990 + 35749 13185 22789 22860 0.09119556036478116 VNFRLYKGRKR 11 Unmodified _VNFRLYKGRKR_ 0 0 0 REV__ENST00000460660.1_1_2:201677931-201678069:+|nuORF REV__ENST00000460660.1_1_2:201677931-201678069:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 718.6065063476562 2 718.933494 1435.85244 NaN NaN NaN NaN NaN NaN NaN 87.127 1 87.167 86.667 87.667 0.039955 0 0 0 1.008 1 44025 44025 0.35063 0 1 + 35750 16481 22790 22861 40086 40086 0.15194320764908298 VNFYQRMEQRR 11 Unmodified _VNFYQRMEQRR_ 0 0 0 REV__nc|ENSG00000134532|P35711-3|SOX5 REV__nc|ENSG00000134532|P35711-3|SOX5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 763.8847045898438 2 763.885884 1525.75721 NaN NaN NaN NaN NaN NaN NaN 57.388 1 57.388 56.888 57.888 0 0 0 0 1.008 1 26450 26450 0.35063 0 1 + 35751 11967 22791 22862 40087 40087 0.015365995115644182 VNFYQRMEQRR 11 Unmodified _VNFYQRMEQRR_ 0 0 0 REV__nc|ENSG00000134532|P35711-3|SOX5 REV__nc|ENSG00000134532|P35711-3|SOX5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 763.8858642578125 2 763.885884 1525.75721 NaN NaN NaN NaN NaN NaN NaN 73.542 1 74.241 73.741 74.741 0.69881 0 0 0 1.008 1 35477 35477 0.35063 0.043601 1 + 35752 11967 22791 22862 40088 40088 0.015365995115644182 VNGKSGRKFKG 11 Unmodified _VNGKSGRKFKG_ 0 0 0 ENSG00000125651|ENST00000394456|GTF2F1 ENSG00000125651|ENST00000394456|GTF2F1 ENSG00000125651|ENST00000394456|GTF2F1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.3431396484375 2 589.343646 1176.67274 NaN NaN NaN NaN NaN NaN NaN 85.475 1 85.475 84.975 85.975 0 0 0 0 1.0044 1 43530 43530 4.897 0 1 35753 2411 22792 22863 40089 40089 0.09147016757128767 VNIDLNNRHHF 11 Unmodified _VNIDLNNRHHF_ 0 0 0 REV__ENST00000524307.5_1_8:124089445-124141439:+|nuORF REV__ENST00000524307.5_1_8:124089445-124141439:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 689.85205078125 2 689.852367 1377.69018 NaN NaN NaN NaN NaN NaN NaN 33.606 1 34.394 33.894 34.894 0.78795 0 0 0 1.0041 1 15210 15210 5.2969 2.0156 1 + 35754 12784 22793 22864 40090 40090 0.016443122921145914 VNITRDLIRR 10 Unmodified _VNITRDLIRR_ 0 0 0 nc|ENSG00000142784|Q8N5D0-5|WDTC1;nc|ENSG00000142784|Q8N5D0-3|WDTC1;nc|ENSG00000142784|Q8N5D0-6|WDTC1;nc|ENSG00000142784|Q8N5D0-2|WDTC1;nc|ENSG00000142784|Q8N5D0-4|WDTC1;ENSG00000142784|ENST00000319394|WDTC1 nc|ENSG00000142784|Q8N5D0-5|WDTC1 nc|ENSG00000142784|Q8N5D0-5|WDTC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 628.384033203125 2 628.383303 1254.75205 4.1375 0.0025999 -0.9276 -0.00058289 3.2099 0.0020171 628.3824037816048 90.757 0.42258 91.009 90.764 91.187 0.25163 31 22 2 0 0 0 0.94246 1 41749 41749 0.40072 0 1 456190 35755 9676 22794 22865 40091 40091 0.13486663711250912 VNITRDLIRR 10 Unmodified _VNITRDLIRR_ 0 0 0 nc|ENSG00000142784|Q8N5D0-5|WDTC1;nc|ENSG00000142784|Q8N5D0-3|WDTC1;nc|ENSG00000142784|Q8N5D0-6|WDTC1;nc|ENSG00000142784|Q8N5D0-2|WDTC1;nc|ENSG00000142784|Q8N5D0-4|WDTC1;ENSG00000142784|ENST00000319394|WDTC1 nc|ENSG00000142784|Q8N5D0-5|WDTC1 nc|ENSG00000142784|Q8N5D0-5|WDTC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 628.3856201171875 2 628.383303 1254.75205 3.9645 0.0024912 -1.0919 -0.00068614 2.8726 0.0018051 628.382284433897 87.376 0.35681 88.052 87.866 88.223 0.67555 24 15 3 0 0 0 0.93788 1 40257 40257 1.3295 0.72803 1 572140 35756 9676 22794 22865 40092 40092 0.13486663711250912 VNITRDLIRR 10 Unmodified _VNITRDLIRR_ 0 0 0 nc|ENSG00000142784|Q8N5D0-5|WDTC1;nc|ENSG00000142784|Q8N5D0-3|WDTC1;nc|ENSG00000142784|Q8N5D0-6|WDTC1;nc|ENSG00000142784|Q8N5D0-2|WDTC1;nc|ENSG00000142784|Q8N5D0-4|WDTC1;ENSG00000142784|ENST00000319394|WDTC1 nc|ENSG00000142784|Q8N5D0-5|WDTC1 nc|ENSG00000142784|Q8N5D0-5|WDTC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 628.3858642578125 2 628.383303 1254.75205 3.9768 0.002499 -0.54715 -0.00034382 3.4297 0.0021552 628.3826694194654 89.612 0.90478 90.29 89.962 90.867 0.67818 86 42 3 0 0 0 0.94246 1 41249 41249 0.40072 0.40072 1 1544400 35757 9676 22794 22865 40093 40093 0.13486663711250912 VNIVPTLP 8 Unmodified _VNIVPTLP_ 0 0 0 REV__ENSG00000165730|ENST00000298596|STOX1 REV__ENSG00000165730|ENST00000298596|STOX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 426.7653503417969 2 426.763104 851.511654 NaN NaN NaN NaN NaN NaN NaN 67.235 1 67.485 66.985 67.985 0.2501 0 0 0 0.99035 1 30800 30800 4.756 0 1 + 35758 13184 22795 22866 40094 40094 0.07995874391190227 VNKAIMKPS 9 Unmodified _VNKAIMKPS_ 0 0 0 REV__ENSG00000143373|ENST00000336715|ZNF687 REV__ENSG00000143373|ENST00000336715|ZNF687 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.8849182128906 2 494.28642 986.558287 NaN NaN NaN NaN NaN NaN NaN 84.831 1 84.86 84.36 85.36 0.028603 0 0 0 0.86044 1 42401 42401 7.2892 1.9923 1 + 35759 12364 22796 22867 40095 40095 0.0644699095081478 VNKECFSFF 9 Unmodified _VNKECFSFF_ 0 0 0 REV__CFAP61|p.K1093Sfs*45|1|0.08|ENSG00000089101|chr20:20298241-20298242|-/GTAAT|frameshift_variant REV__CFAP61|p.K1093Sfs*45|1|0.08|ENSG00000089101|chr20:20298241-20298242|-/GTAAT|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.81787109375 2 560.760235 1119.50592 3.5452 0.001988 0.57637 0.00032321 4.1216 0.0023112 561.263725098694 60.443 0.66684 61.106 60.788 61.455 0.66261 53 35 2 0 0 0 0.092818 1 27617 27617 15.847 7.1018 1 1301200 + 35760 10003 22797 22868 40096 40096 -0.049055921827857674 VNKELYRVQRH 11 Unmodified _VNKELYRVQRH_ 0 0 0 REV__ENST00000523948.5_1_8:56686169-56737149:+|nuORF REV__ENST00000523948.5_1_8:56686169-56737149:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 721.2493896484375 2 721.404766 1440.79498 NaN NaN NaN NaN NaN NaN NaN 55.781 1 55.781 55.281 56.281 0 0 0 0 1.0044 1 25659 25659 4.897 0 1 + 35761 12118 22798 22869 40097 40097 0.09221433768675524 VNKIKEIAV 9 Unmodified _VNKIKEIAV_ 0 0 0 ENST00000461290.5_1_2:73461506-73471178:+|nuORF;nc|ENSG00000135624|Q99832-4|CCT7;nc|ENSG00000135624|Q99832-3|CCT7;ENSG00000135624|ENST00000258091|CCT7 ENST00000461290.5_1_2:73461506-73471178:+|nuORF ENST00000461290.5_1_2:73461506-73471178:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.3225402832031 2 507.321317 1012.62808 3.1761 0.0016113 0.59618 0.00030245 3.7723 0.0019138 507.32157522997613 27.049 0.12204 27.671 27.625 27.747 0.62179 11 8 2 0 0 0 0.30982 1 12412 12412 16.149 7.4037 1 263560 35762 2882 22799 22870 40098 40098 0.1222719289107772 VNKIKEIAV 9 Unmodified _VNKIKEIAV_ 0 0 0 ENST00000461290.5_1_2:73461506-73471178:+|nuORF;nc|ENSG00000135624|Q99832-4|CCT7;nc|ENSG00000135624|Q99832-3|CCT7;ENSG00000135624|ENST00000258091|CCT7 ENST00000461290.5_1_2:73461506-73471178:+|nuORF ENST00000461290.5_1_2:73461506-73471178:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 507.321317 1012.62808 3.1837 0.0016152 0.7199 0.00036522 3.9036 0.0019804 507.32150348783887 27.478 0.061728 27.741 27.684 27.746 0.26245 0.034895 7.9542E-05 NaN 16.149 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 230000 35763 2882 22799 22870 0.1222719289107772 VNKLALVFLAC 11 Unmodified _VNKLALVFLAC_ 0 0 0 ENSG00000113504|ENST00000264930|SLC12A7 ENSG00000113504|ENST00000264930|SLC12A7 ENSG00000113504|ENST00000264930|SLC12A7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 595.6896362304688 2 595.851927 1189.6893 NaN NaN NaN NaN NaN NaN NaN 8.9319 1 9.243 8.743 9.743 0.31115 0 0 0 1.008 1 4017 4017 0.35063 0 1 35764 1857 22800 22871 40099 40099 0.10204381598896362 VNKLFELR 8 Unmodified _VNKLFELR_ 0 0 0 REV__DST|p.L2377Sfs*24|1|0.05|ENSG00000151914|chr6:56568573-56568574|-/TATCTCAAGAAATTACAAG|frameshift_variant REV__DST|p.L2377Sfs*24|1|0.05|ENSG00000151914|chr6:56568573-56568574|-/TATCTCAAGAAATTACAAG|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.2357482910156 2 509.805834 1017.59712 3.2522 0.001658 0.16221 8.2697E-05 3.4144 0.0017407 509.80589457223647 38.07 0.24971 38.331 38.184 38.434 0.26083 10 7 2 0 0 0 0.10553 1 17365 17365 29.082 2.7403 1 363210 + 35765 10140 22801 22872 40100 40100 0.08902039576832976 VNKLKWNL 8 Unmodified _VNKLKWNL_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 338.8757019042969 3 338.874677 1013.6022 2.2891 0.00077573 0.14396 4.8783E-05 2.4331 0.00082451 338.87459241744693 42.001 0.29642 42.001 41.82 42.117 0 40 21 3 0 0 0 0.36624 2 19109 19056;19109 30.637 11.38 1 2420400 35766 1700 22802 22873 40101;40102 40102 0.09594343439448494 VNKLKWNL 8 Unmodified _VNKLKWNL_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.81024169921875 2 507.808377 1013.6022 3.0375 0.0015425 0.10197 5.1782E-05 3.1395 0.0015943 507.8084596568275 41.977 0.23966 41.977 41.828 42.068 0 35 17 3 0 0 0 0.00019857 1 19097 19097 154.46 100.89 1 2490600 35767 1700 22802 22873 40103 40103 0.09594343439448494 VNKLKWNL 8 Unmodified _VNKLKWNL_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.80938720703125 2 507.808377 1013.6022 3.0538 0.0015508 -0.10862 -5.5159E-05 2.9452 0.0014956 507.80822735713883 40.857 0.16191 41.66 41.586 41.748 0.80351 22 16 2 0 0 0 0.00019857 1 18527 18527 154.46 90.901 1 3011300 35768 1700 22802 22873 40104 40104 0.09594343439448494 VNKLKWNL 8 Unmodified _VNKLKWNL_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.809814453125 2 507.808377 1013.6022 3.4959 0.0017753 -0.24118 -0.00012247 3.2548 0.0016528 507.8082982605412 41.839 0.34669 42.109 41.867 42.213 0.27021 39 23 2 0 0 0 4.139E-37 2 19065 19014;19065 216.59 127.16 1 18921000 35769 1700 22802 22873 40105;40106 40106 0.09594343439448494 VNKLKWNL 8 Unmodified _VNKLKWNL_ 0 0 0 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 ENSG00000110092|ENST00000227507|CCND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.81011962890625 2 507.808377 1013.6022 3.4747 0.0017645 -0.02879 -1.462E-05 3.4459 0.0017499 507.80828033340066 41.138 0.31949 41.783 41.682 42.001 0.64451 50 21 4 0 0 0 1.6139E-26 3 18839 18790;18839;18900 216.59 127.16 1 11821000 35770 1700 22802 22873 40107;40108;40109 40108 0.09594343439448494 VNKPIKKKKR 10 Unmodified _VNKPIKKKKR_ 0 0 0 REV__ENST00000463783.1_1_3:196665854-196666076:-|nuORF REV__ENST00000463783.1_1_3:196665854-196666076:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.9260864257812 2 619.924606 1237.83466 NaN NaN NaN NaN NaN NaN NaN 71.119 1 71.781 71.281 72.281 0.66209 0 0 0 1.0015 1 32593 32593 0.45834 0.10771 1 + 35771 16519 22803 22874 40110 40110 0.22525605510077185 VNKVKIQAM 9 Unmodified _VNKVKIQAM_ 0 0 0 nc|ENSG00000078699|O43439-2|CBFA2T2;ENSG00000078699|ENST00000342704|CBFA2T2;nc|ENSG00000078699|O43439|CBFA2T2;nc|ENSG00000078699|O43439-4|CBFA2T2 nc|ENSG00000078699|O43439-2|CBFA2T2 nc|ENSG00000078699|O43439-2|CBFA2T2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 344.5496520996094 3 344.207438 1029.60049 NaN NaN NaN NaN NaN NaN NaN 12.447 1 13.09 12.59 13.59 0.64272 0 0 0 0.89451 1 5578 5578 4.897 1.3005 1 35772 883 22804 22875 40111 40111 0.08686966359209691 VNLKDIIWVRA 11 Unmodified _VNLKDIIWVRA_ 0 0 0 ENST00000262187.9_1_7:151163972-151164125:-|nuORF ENST00000262187.9_1_7:151163972-151164125:-|nuORF ENST00000262187.9_1_7:151163972-151164125:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.8998413085938 2 663.898254 1325.78196 NaN NaN NaN NaN NaN NaN NaN 90.477 1 90.728 90.228 91.228 0.25137 0 0 0 1.0073 1 41607 41607 1.1933 0 1 35773 6572 22805 22876 40112 40112 0.13209602656570496 VNLKKLIVKKF 11 Unmodified _VNLKKLIVKKF_ 0 0 0 ENSG00000112367|ENST00000230124|FIG4 ENSG00000112367|ENST00000230124|FIG4 ENSG00000112367|ENST00000230124|FIG4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 665.4519653320312 2 665.452665 1328.89078 NaN NaN NaN NaN NaN NaN NaN 56.81 1 57.075 56.575 57.575 0.26444 0 0 0 1.008 1 25995 25995 0.35063 0.043601 1 35774 1806 22806 22877 40113 40113 0.2394881362686192 VNLNVLREAVR 11 Unmodified _VNLNVLREAVR_ 0 0 0 ENST00000544349.5_1_12:122735394-122750988:-|nuORF;ENSG00000139719|ENST00000267199|VPS33A ENST00000544349.5_1_12:122735394-122750988:-|nuORF ENST00000544349.5_1_12:122735394-122750988:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 641.8261108398438 2 641.883136 1281.75172 4.0928 0.0026271 -0.61759 -0.00039642 3.4752 0.0022307 641.8823416332649 89.355 1.5909 90.034 89.276 90.867 0.67818 114 73 3 0 0 0 0.91111 1 40951 40951 1.1933 0 1 1115200 35775 3163 22807 22878 40114 40114 0.12211243991396259 VNLPPELRRQ 10 Unmodified _VNLPPELRRQ_ 0 0 0 ENST00000582931.5_1_17:16836228-16875389:-|nuORF;nc|ENSG00000240505|O14836-3|TNFRSF13B;ENST00000581616.2_1_17:16844708-16875389:-|nuORF;nc|ENSG00000240505|O14836-2|TNFRSF13B;ENSG00000240505|ENST00000261652|TNFRSF13B ENST00000582931.5_1_17:16836228-16875389:-|nuORF ENST00000582931.5_1_17:16836228-16875389:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.3594360351562 2 611.356754 1220.69895 3.7786 0.0023101 -0.82284 -0.00050305 2.9558 0.001807 611.3562635632172 87.727 1.3442 87.978 87.314 88.658 0.25064 109 59 3 0 0 0 0.93713 1 40574 40574 1.4819 0 1 1826700 35776 6217 22808 22879 40115 40115 0.09743285928584555 VNLPPELRRQ 10 Unmodified _VNLPPELRRQ_ 0 0 0 ENST00000582931.5_1_17:16836228-16875389:-|nuORF;nc|ENSG00000240505|O14836-3|TNFRSF13B;ENST00000581616.2_1_17:16844708-16875389:-|nuORF;nc|ENSG00000240505|O14836-2|TNFRSF13B;ENSG00000240505|ENST00000261652|TNFRSF13B ENST00000582931.5_1_17:16836228-16875389:-|nuORF ENST00000582931.5_1_17:16836228-16875389:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.3589477539062 2 611.356754 1220.69895 3.7249 0.0022773 -0.35511 -0.0002171 3.3698 0.0020602 611.3563796151667 89.549 1.5947 90.227 89.501 91.096 0.67818 190 72 4 0 0 0 0.93713 1 41601 41601 1.4819 0.15237 1 4220300 35777 6217 22808 22879 40116 40116 0.09743285928584555 VNLRPKKG 8 Unmodified _VNLRPKKG_ 0 0 0 REV__nc|ENSG00000163535|Q562F6-2|SGO2 REV__nc|ENSG00000163535|Q562F6-2|SGO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.29144287109375 2 456.292894 910.571235 NaN NaN NaN NaN NaN NaN NaN 81.335 1 81.583 81.083 82.083 0.24803 0 0 0 0.99035 1 37448 37448 2.5775 0 1 + 35778 13000 22809 22880 40117 40117 0.11237190125223151 VNMRRFILERN 11 Unmodified _VNMRRFILERN_ 0 0 0 nc|ENSG00000231205|Q6ZT77|ZNF826P;ENST00000502675.1_19:20577295-20577979:-|nuORF nc|ENSG00000231205|Q6ZT77|ZNF826P nc|ENSG00000231205|Q6ZT77|ZNF826P MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 724.3720703125 2 724.40117 1446.78779 NaN NaN NaN NaN NaN NaN NaN 84.354 1 84.383 83.883 84.883 0.028603 0 0 0 1.0073 1 42058 42058 1.1933 0 1 35779 8481 22810 22881 40118 40118 0.08226377896630765 VNPKKKLFLVY 11 Unmodified _VNPKKKLFLVY_ 0 0 0 nc|ENSG00000139697|A3KN83-3|SBNO1;nc|ENSG00000139697|A3KN83-2|SBNO1;ENSG00000139697|ENST00000602398|SBNO1 nc|ENSG00000139697|A3KN83-3|SBNO1 nc|ENSG00000139697|A3KN83-3|SBNO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 337.96539306640625 4 337.964237 1347.82784 2.3194 0.00078386 0.738 0.00024942 3.0574 0.0010333 337.9644400806843 55.33 0.34693 55.33 55.261 55.608 0 52 27 2 0 0 0 0.91104 1 25481 25481 1.2148 0.10508 1 5681600 35780 3161 22811 22882 40119 40119 0.16784247838836563 VNPKKKLFLVY 11 Unmodified _VNPKKKLFLVY_ 0 0 0 nc|ENSG00000139697|A3KN83-3|SBNO1;nc|ENSG00000139697|A3KN83-2|SBNO1;ENSG00000139697|ENST00000602398|SBNO1 nc|ENSG00000139697|A3KN83-3|SBNO1 nc|ENSG00000139697|A3KN83-3|SBNO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 337.9652099609375 4 337.964237 1347.82784 1.9495 0.00065887 0.61358 0.00020737 2.5631 0.00086624 337.96427137605815 54.621 0.516 55.417 55.159 55.675 0.79552 74 32 3 0 0 0 0.91104 1 24886 24886 1.2148 0.70888 1 3155800 35781 3161 22811 22882 40120 40120 0.16784247838836563 VNPKKKLFLVY 11 Unmodified _VNPKKKLFLVY_ 0 0 0 nc|ENSG00000139697|A3KN83-3|SBNO1;nc|ENSG00000139697|A3KN83-2|SBNO1;ENSG00000139697|ENST00000602398|SBNO1 nc|ENSG00000139697|A3KN83-3|SBNO1 nc|ENSG00000139697|A3KN83-3|SBNO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.2843322753906 3 450.283224 1347.82784 NaN NaN NaN NaN NaN NaN NaN 48.592 1 48.854 48.354 49.354 0.26209 0 0 0 1.0071 1 22213 22213 1.4551 0.94916 1 35782 3161 22811 22882 40121 40121 0.16784247838836563 VNPKKKLFLVY 11 Unmodified _VNPKKKLFLVY_ 0 0 0 nc|ENSG00000139697|A3KN83-3|SBNO1;nc|ENSG00000139697|A3KN83-2|SBNO1;ENSG00000139697|ENST00000602398|SBNO1 nc|ENSG00000139697|A3KN83-3|SBNO1 nc|ENSG00000139697|A3KN83-3|SBNO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 337.9658508300781 4 337.964237 1347.82784 2.1843 0.00073821 1.1106 0.00037535 3.2949 0.0011136 337.9645695087097 54.088 0.21025 54.755 54.649 54.859 0.6665 33 12 3 0 0 0 0.91104 2 24727 24727;24777 1.2148 0.51716 1 4418700 35783 3161 22811 22882 40122;40123 40122 0.16784247838836563 VNQQREDIERQ 11 Unmodified _VNQQREDIERQ_ 0 0 0 ENST00000478683.1_1_2:171902682-171910351:-|nuORF;ENST00000456760.1_1_9:125449379-125449940:+|nuORF;nc|ENSG00000198586|Q9UKI8-3|TLK1;nc|ENSG00000198586|Q9UKI8-4|TLK1;nc|ENSG00000198586|Q9UKI8-5|TLK1;ENSG00000198586|ENST00000431350|TLK1;nc|ENSG00000198586|Q9UKI8-2|TLK1 ENST00000478683.1_1_2:171902682-171910351:-|nuORF ENST00000478683.1_1_2:171902682-171910351:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.2415466308594 3 472.239294 1413.69605 3.015 0.0014238 -0.060644 -2.8638E-05 2.9543 0.0013952 472.2392275681977 12.606 0.10334 12.606 12.557 12.66 0 26 8 5 0 0 0 0.12059 1 5486 5486 26.121 9.8464 1 20831000 35784 5903 22812 22883 40124 40124 0.005753660131404104 VNQQREDIERQ 11 Unmodified _VNQQREDIERQ_ 0 0 0 ENST00000478683.1_1_2:171902682-171910351:-|nuORF;ENST00000456760.1_1_9:125449379-125449940:+|nuORF;nc|ENSG00000198586|Q9UKI8-3|TLK1;nc|ENSG00000198586|Q9UKI8-4|TLK1;nc|ENSG00000198586|Q9UKI8-5|TLK1;ENSG00000198586|ENST00000431350|TLK1;nc|ENSG00000198586|Q9UKI8-2|TLK1 ENST00000478683.1_1_2:171902682-171910351:-|nuORF ENST00000478683.1_1_2:171902682-171910351:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 472.2411193847656 3 472.239294 1413.69605 2.1496 0.0010151 -0.1503 -7.0976E-05 1.9993 0.00094414 472.2395849467738 12.433 0.045553 12.74 12.705 12.751 0.30727 6 2 3 0 0 0 0.57095 1 5605 5605 13.535 5.2485 1 9028200 35785 5903 22812 22883 40125 40125 0.005753660131404104 VNQQREDIERQ 11 Unmodified _VNQQREDIERQ_ 0 0 0 ENST00000478683.1_1_2:171902682-171910351:-|nuORF;ENST00000456760.1_1_9:125449379-125449940:+|nuORF;nc|ENSG00000198586|Q9UKI8-3|TLK1;nc|ENSG00000198586|Q9UKI8-4|TLK1;nc|ENSG00000198586|Q9UKI8-5|TLK1;ENSG00000198586|ENST00000431350|TLK1;nc|ENSG00000198586|Q9UKI8-2|TLK1 ENST00000478683.1_1_2:171902682-171910351:-|nuORF ENST00000478683.1_1_2:171902682-171910351:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 472.239294 1413.69605 3.3481 0.0015811 -0.28564 -0.00013489 3.0624 0.0014462 472.2390687933899 12.405 0.047505 13.046 13.017 13.065 0.64047 0.27258 -0.00026103 NaN 26.121 8 2 4 NaN NaN NaN NaN 0 NaN NaN 0 6879100 35786 5903 22812 22883 0.005753660131404104 VNQWTTNVVE 10 Unmodified _VNQWTTNVVE_ 0 0 0 ENSG00000146425|ENST00000367089|DYNLT1 ENSG00000146425|ENST00000367089|DYNLT1 ENSG00000146425|ENST00000367089|DYNLT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 595.2959594726562 2 595.296027 1188.5775 4.1349 0.0024615 -2.3393 -0.0013926 1.7956 0.0010689 595.2942662788856 19.681 0.16222 20.339 20.237 20.399 0.65829 19 12 2 0 0 0 0.73588 1 8930 8930 11.495 5.3029 1 125310 35787 3518 22813 22884 40126 40126 -0.009243812246040761 VNQYEVFL 8 Unmodified _VNQYEVFL_ 0 0 0 ENST00000510531.5_1_5:6644946-6645183:+|nuORF ENST00000510531.5_1_5:6644946-6645183:+|nuORF ENST00000510531.5_1_5:6644946-6645183:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.2627868652344 2 506.260925 1010.5073 3.081 0.0015598 0.22047 0.00011161 3.3015 0.0016714 506.26089646036945 62.394 0.29125 63.054 62.856 63.147 0.66008 35 20 2 0 0 0 0.49219 1 28613 28613 21.747 2.4897 1 823080 35788 8556 22814 22885 40127 40127 0.0024636517761109644 VNRKRKKKRK 10 Unmodified _VNRKRKKKRK_ 0 0 0 NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 671.2939453125 2 670.957304 1339.90005 NaN NaN NaN NaN NaN NaN NaN 79.451 1 79.451 78.951 79.951 0 0 0 0 1.0015 1 39260 39260 0.45834 0.10771 1 35789 9895 22815 22886 40128 40128 0.24370019755747307 VNRPLVRPQKR 11 Unmodified _VNRPLVRPQKR_ 0 0 0 ENSG00000130700|ENST00000252997|GATA5 ENSG00000130700|ENST00000252997|GATA5 ENSG00000130700|ENST00000252997|GATA5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 341.4788513183594 4 341.466473 1361.83679 2.2925 0.00078282 4.1503 0.0014172 6.4429 0.0022 341.46793266689656 37.494 0.30004 38.127 37.969 38.269 0.63307 10 9 2 0 0 0 0.91068 1 17215 17215 0.45452 0 1 161230 35790 2607 22816 22887 40129 40129 0.17034034247876662 VNRRKRQH 8 Unmodified _VNRRKRQH_ 0 0 0 REV__ENST00000240316.4_1_17:55027977-55028133:-|nuORF REV__ENST00000240316.4_1_17:55027977-55028133:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.5728759765625 2 547.326122 1092.63769 NaN NaN NaN NaN NaN NaN NaN 13.713 1 14.02 13.52 14.52 0.30727 0 0 0 0.99035 1 6189 6189 2.8892 0.58649 1 + 35791 14878 22817 22888 40130 40130 0.0950781873982578 VNRRKRQHN 9 Unmodified _VNRRKRQHN_ 0 0 0 REV__ENST00000240316.4_1_17:55027977-55028133:-|nuORF REV__ENST00000240316.4_1_17:55027977-55028133:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.3458251953125 2 604.347586 1206.68062 NaN NaN NaN NaN NaN NaN NaN 45.478 1 45.478 44.978 45.978 0 0 0 0 0.91206 1 20804 20804 0.6015 0 1 + 35792 14878 22818 22889 40131 40131 0.08554588797278484 VNRRPRKRKRR 11 Unmodified _VNRRPRKRKRR_ 0 0 0 nc|ENSG00000148120|Q8N6M6-4|AOPEP;nc|ENSG00000148120|Q8N6M6-2|AOPEP;ENSG00000148120|ENST00000375315|AOPEP;ENST00000496567.5_1_9:97767442-97781734:+|nuORF;ENST00000460573.5_1_9:97767442-97823116:+|nuORF;ENST00000463372.5_1_9:97767418-97844994:+|nuORF nc|ENSG00000148120|Q8N6M6-4|AOPEP nc|ENSG00000148120|Q8N6M6-4|AOPEP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 761.4915161132812 2 761.492908 1520.97126 NaN NaN NaN NaN NaN NaN NaN 108.15 1 108.75 108.25 109.25 0.6019 0 0 0 1.008 1 49902 49902 0.35063 0.35063 1 35793 3588 22819 22890 40132 40132 0.23161532513131533 VNRRRRKKRKP 11 Unmodified _VNRRRRKKRKP_ 0 0 0 REV__ENST00000590548.5_1_19:11597897-11616622:-|nuORF REV__ENST00000590548.5_1_19:11597897-11616622:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 747.4869995117188 2 747.489834 1492.96511 NaN NaN NaN NaN NaN NaN NaN 60.966 1 60.966 60.466 61.466 0 0 0 0 1.008 1 28401 28401 0.35063 0.043601 1 + 35794 17576 22820 22891 40133 40133 0.23835014281598887 VNRRRRKKRKP 11 Unmodified _VNRRRRKKRKP_ 0 0 0 REV__ENST00000590548.5_1_19:11597897-11616622:-|nuORF REV__ENST00000590548.5_1_19:11597897-11616622:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 747.4881591796875 2 747.489834 1492.96511 NaN NaN NaN NaN NaN NaN NaN 83.327 1 83.372 82.872 83.872 0.045006 0 0 0 1.008 1 41331 41331 0.35063 0.35063 1 + 35795 17576 22820 22891 40134 40134 0.23835014281598887 VNTIKLIH 8 Unmodified _VNTIKLIH_ 0 0 0 REV__ENST00000323981.6_1_11:93469454-93470302:-|nuORF REV__ENST00000323981.6_1_11:93469454-93470302:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.2958984375 2 469.295102 936.575651 NaN NaN NaN NaN NaN NaN NaN 53.61 1 54.414 53.914 54.914 0.80351 0 0 0 0.99035 1 24463 24463 6.3541 0 1 + 35796 15337 22821 22892 40135 40135 0.10482654548138726 VNTVLSKYVRT 11 Unmodified _VNTVLSKYVRT_ 0 0 0 REV__ENST00000475780.5_1_1:171285408-171306524:+|nuORF REV__ENST00000475780.5_1_1:171285408-171306524:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 639.9183959960938 2 640.372069 1278.72959 NaN NaN NaN NaN NaN NaN NaN 58.904 1 59.663 59.163 60.163 0.75894 0 0 0 1.0007 1 27061 27061 6.6304 1.3335 1 + 35797 10540 22822 22893 40136 40136 0.10137019522994706 VNVKKTIL 8 Unmodified _VNVKKTIL_ 0 0 0 ENSG00000166897|ENST00000402918|ELFN2 ENSG00000166897|ENST00000402918|ELFN2 ENSG00000166897|ENST00000402918|ELFN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.5398254394531 3 305.539294 913.596052 2.016 0.00061597 0.67798 0.00020715 2.694 0.00082312 305.5394867879119 17.852 0.40899 18.153 17.902 18.311 0.30159 85 34 3 0 0 0 0.73686 1 8011 8011 1.8442 0 1 600930 35798 4514 22823 22894 40137 40137 0.1357982520794394 VNVLKGVLI 9 Unmodified _VNVLKGVLI_ 0 0 0 ENSG00000272047|ENST00000607778|GTF2H5 ENSG00000272047|ENST00000607778|GTF2H5 ENSG00000272047|ENST00000607778|GTF2H5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.1622314453125 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 54.693 1 54.693 54.193 55.193 0 0 0 0 0.91206 1 25105 25105 0.6015 0 1 35799 6334 22824 22895 40138 40138 0.14868398242049352 VNVVRKQG 8 Unmodified _VNVVRKQG_ 0 0 0 REV__ENSG00000095564|ENST00000265990|BTAF1 REV__ENSG00000095564|ENST00000265990|BTAF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.2760314941406 2 450.274701 898.534849 3.1029 0.0013971 0.61592 0.00027733 3.7188 0.0016745 450.27494697879985 88.454 0.59751 88.705 88.409 89.006 0.25118 107 27 5 0 0 0 0.7471 1 40756 40756 0.69038 0 1 57646000 + 35800 10765 22825 22896 40139 40139 0.08152313228526964 VNVYYLKH 8 Unmodified _VNVYYLKH_ 0 0 0 nc|ENSG00000112053|Q96RN1-4|SLC26A8;nc|ENSG00000112053|Q96RN1-2|SLC26A8;ENSG00000112053|ENST00000490799|SLC26A8;nc|ENSG00000112053|Q96RN1-3|SLC26A8 nc|ENSG00000112053|Q96RN1-4|SLC26A8 nc|ENSG00000112053|Q96RN1-4|SLC26A8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.86053466796875 3 345.858915 1034.55492 2.7878 0.0009642 0.2397 8.2901E-05 3.0275 0.0010471 345.85895230705233 8.2161 0.65227 8.8427 8.4456 9.0978 0.62663 79 42 3 0 0 0 0.7471 2 3664 3664;3717 0.45834 0 1 86158 35801 1790 22826 22897 40140;40141 40140 0.03902064168482866 VNWLLFNWYNM 11 Unmodified _VNWLLFNWYNM_ 0 0 0 ENSG00000171316|ENST00000423902|CHD7;nc|ENSG00000171316|Q9P2D1-2|CHD7 ENSG00000171316|ENST00000423902|CHD7 ENSG00000171316|ENST00000423902|CHD7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.577392578125 3 500.57619 1498.70674 NaN NaN NaN NaN NaN NaN NaN 57.978 1 57.978 57.478 58.478 0 0 0 0 1.0072 1 26738 26738 0.45452 0.35968 1 35802 4798 22827 22898 40142 40142 -0.022663228661258472 VNYEWIMRWFD 11 Unmodified _VNYEWIMRWFD_ 0 0 0 REV__PTPN12|p.F450Lfs*7|1|0.28|ENSG00000127947|chr7:77627026-77627026|T/-|frameshift_variant REV__PTPN12|p.F450Lfs*7|1|0.28|ENSG00000127947|chr7:77627026-77627026|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 779.8623046875 2 779.861012 1557.70747 NaN NaN NaN NaN NaN NaN NaN 82.083 1 82.083 81.583 82.583 0 0 0 0 1.008 1 40982 40982 0.35063 0 1 + 35803 11750 22828 22899 40143 40143 -0.049075282171088475 VNYKIQQI 8 Unmodified _VNYKIQQI_ 0 0 0 REV__ENSG00000134827|ENST00000257264|TCN1 REV__ENSG00000134827|ENST00000257264|TCN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.86334228515625 3 335.862437 1004.56548 1.6814 0.00056473 1.6462 0.00055289 3.3276 0.0011176 335.8626249271551 12.5 0.16537 12.807 12.77 12.936 0.30727 6 5 2 0 0 0 0.72385 1 5659 5659 3.9444 1.2092 1 707270 + 35804 11985 22829 22900 40144 40144 0.06338046822895649 VNYKIQQI 8 Unmodified _VNYKIQQI_ 0 0 0 REV__ENSG00000134827|ENST00000257264|TCN1 REV__ENSG00000134827|ENST00000257264|TCN1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 335.862437 1004.56548 1.6814 0.00056473 1.6462 0.00055289 3.3276 0.0011176 335.8626249271551 12.5 0.16537 12.807 12.77 12.936 0.30727 0 0 NaN 3.9444 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 707270 + 35805 11985 22829 22900 0.06338046822895649 VNYRRTRRLKL 11 Unmodified _VNYRRTRRLKL_ 0 0 0 REV__ENSG00000152104|ENST00000366956|PTPN14 REV__ENSG00000152104|ENST00000366956|PTPN14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 737.9564819335938 2 737.957501 1473.90045 NaN NaN NaN NaN NaN NaN NaN 55.388 1 56.176 55.676 56.676 0.78711 0 0 0 1.008 1 25286 25286 0.35063 0 1 + 35806 12639 22830 22901 40145 40145 0.18245394684959138 VPAEELVEM 9 Unmodified _VPAEELVEM_ 0 0 0 nc|ENSG00000131016|Q02952-3|AKAP12;nc|ENSG00000131016|Q02952-2|AKAP12;ENSG00000131016|ENST00000402676|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1016.4988403320312 1 1016.49687 1015.4896 3.018 0.0030677 -0.21553 -0.00021909 2.8024 0.0028487 1016.4966580765054 63.277 0.22051 63.277 63.196 63.416 0 46 26 2 0 0 0 0.0026885 2 29776 29725;29776 97.075 42.301 1 5308900 35807 2634 22831 22902 40146;40147 40147 -0.017527181395507796 VPAEELVEM 9 Unmodified _VPAEELVEM_ 0 0 0 nc|ENSG00000131016|Q02952-3|AKAP12;nc|ENSG00000131016|Q02952-2|AKAP12;ENSG00000131016|ENST00000402676|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.7532653808594 2 508.752075 1015.4896 2.6877 0.0013674 0.11021 5.6068E-05 2.7979 0.0014234 508.752170064214 63.289 0.31511 63.289 63.148 63.463 0 77 36 3 0 0 0 0.028312 2 29748 29748;29824 57.471 30.588 1 9105300 35808 2634 22831 22902 40148;40149 40148 -0.017527181395507796 VPAEELVEM 9 Unmodified _VPAEELVEM_ 0 0 0 nc|ENSG00000131016|Q02952-3|AKAP12;nc|ENSG00000131016|Q02952-2|AKAP12;ENSG00000131016|ENST00000402676|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 508.754150390625 2 508.752075 1015.4896 NaN NaN NaN NaN NaN NaN NaN 62.419 1 63.15 62.65 63.65 0.73077 0 0 0 0.17021 1 29096 29096 32.305 11.852 1 35809 2634 22831 22902 40150 40150 -0.017527181395507796 VPAEELVEM 9 Unmodified _VPAEELVEM_ 0 0 0 nc|ENSG00000131016|Q02952-3|AKAP12;nc|ENSG00000131016|Q02952-2|AKAP12;ENSG00000131016|ENST00000402676|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.75390625 2 508.752075 1015.4896 3.1658 0.0016106 -0.37045 -0.00018847 2.7953 0.0014221 508.7519008884733 63.035 0.45589 63.285 63.081 63.537 0.24965 78 25 4 0 0 0 0.0061269 3 28860 28811;28860;28912 89.427 31.955 1 9843300 35810 2634 22831 22902 40151;40152;40153 40152 -0.017527181395507796 VPAEELVEM 9 Unmodified _VPAEELVEM_ 0 0 0 nc|ENSG00000131016|Q02952-3|AKAP12;nc|ENSG00000131016|Q02952-2|AKAP12;ENSG00000131016|ENST00000402676|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1016.4992065429688 1 1016.49687 1015.4896 3.3203 0.003375 -0.048911 -4.9718E-05 3.2714 0.0033253 1016.4969238577916 63.011 0.34513 63.26 63.11 63.455 0.24965 50 19 3 0 0 0 0.0080831 3 28838 28838;28884;28942 85.357 39.336 1 3101800 35811 2634 22831 22902 40154;40155;40156 40154 -0.017527181395507796 VPAEELVEM 9 Unmodified _VPAEELVEM_ 0 0 0 nc|ENSG00000131016|Q02952-3|AKAP12;nc|ENSG00000131016|Q02952-2|AKAP12;ENSG00000131016|ENST00000402676|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.75341796875 2 508.752075 1015.4896 3.1187 0.0015867 -0.35047 -0.0001783 2.7682 0.0014084 508.7519722941336 62.468 0.42832 63.128 62.901 63.33 0.66008 88 27 4 0 0 0 0.0061269 4 28601 28550;28601;28650;28701 89.427 41.081 1 9332800 35812 2634 22831 22902 40157;40158;40159;40160 40158 -0.017527181395507796 VPAEELVEM 9 Unmodified _VPAEELVEM_ 0 0 0 nc|ENSG00000131016|Q02952-3|AKAP12;nc|ENSG00000131016|Q02952-2|AKAP12;ENSG00000131016|ENST00000402676|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1016.50048828125 1 1016.49687 1015.4896 3.4202 0.0034766 -0.1365 -0.00013875 3.2837 0.0033379 1016.4968210613529 62.467 0.35426 63.127 62.936 63.291 0.66008 56 23 3 0 0 0 0.0061269 3 28618 28569;28618;28668 89.427 31.955 1 4059000 35813 2634 22831 22902 40161;40162;40163 40162 -0.017527181395507796 VPAEELVEM 9 Oxidation (M) _VPAEELVEM(Oxidation (M))_ VPAEELVEM(1) VPAEELVEM(64) 0 0 1 nc|ENSG00000131016|Q02952-3|AKAP12;nc|ENSG00000131016|Q02952-2|AKAP12;ENSG00000131016|ENST00000402676|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.7518920898438 2 516.749533 1031.48451 3.2402 0.0016743 0.093701 4.842E-05 3.3339 0.0017228 516.74959770845 43.256 0.10983 44.071 44.064 44.174 0.81444 18 10 2 0 0 0 0.023109 1 19695 19695 64.236 30.134 1 2322400 35814 2634 22831 22903 40164 40164 38 -0.029970220021596106 VPAEELVEM 9 Oxidation (M) _VPAEELVEM(Oxidation (M))_ VPAEELVEM(1) VPAEELVEM(74) 0 0 1 nc|ENSG00000131016|Q02952-3|AKAP12;nc|ENSG00000131016|Q02952-2|AKAP12;ENSG00000131016|ENST00000402676|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.7513427734375 2 516.749533 1031.48451 3.2428 0.0016757 -0.29155 -0.00015066 2.9512 0.001525 516.7496269127824 43.449 0.35114 44.263 44.107 44.458 0.81444 36 17 3 0 0 0 0.015468 1 19800 19800 74.423 40.32 1 1107700 35815 2634 22831 22903 40165 40165 38 -0.029970220021596106 VPAEELVEM 9 Oxidation (M) _VPAEELVEM(Oxidation (M))_ VPAEELVEM(1) VPAEELVEM(85) 0 0 1 nc|ENSG00000131016|Q02952-3|AKAP12;nc|ENSG00000131016|Q02952-2|AKAP12;ENSG00000131016|ENST00000402676|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.7506713867188 2 516.749533 1031.48451 NaN NaN NaN NaN NaN NaN NaN 44.102 1 44.371 43.871 44.871 0.2694 0 0 0 0.0094088 1 20152 20152 85.357 45.399 1 35816 2634 22831 22903 40166 40166 38 -0.029970220021596106 VPAEELVEM 9 Oxidation (M) _VPAEELVEM(Oxidation (M))_ VPAEELVEM(1) VPAEELVEM(57) 0 0 1 nc|ENSG00000131016|Q02952-3|AKAP12;nc|ENSG00000131016|Q02952-2|AKAP12;ENSG00000131016|ENST00000402676|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.7511596679688 2 516.749533 1031.48451 3.5606 0.0018399 0.35627 0.0001841 3.9169 0.002024 516.7496318389498 43.484 0.27495 44.133 43.919 44.194 0.64872 24 15 2 0 0 0 0.028312 1 19901 19901 57.471 28.985 1 2529800 35817 2634 22831 22903 40167 40167 38 -0.029970220021596106 VPAEELVEM 9 Oxidation (M) _VPAEELVEM(Oxidation (M))_ VPAEELVEM(1) VPAEELVEM(64) 0 0 1 nc|ENSG00000131016|Q02952-3|AKAP12;nc|ENSG00000131016|Q02952-2|AKAP12;ENSG00000131016|ENST00000402676|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.7508544921875 2 516.749533 1031.48451 3.5574 0.0018383 -0.36652 -0.0001894 3.1908 0.0016489 516.7493898403113 43.694 0.19312 44.342 44.204 44.397 0.64872 21 11 3 0 0 0 0.023109 1 20013 20013 64.236 35.749 1 1769100 35818 2634 22831 22903 40168 40168 38 -0.029970220021596106 VPAEIQVL 8 Unmodified _VPAEIQVL_ 0 0 0 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1;ENSG00000086232|ENST00000199389|EIF2AK1;EIF2AK1|p.K51E|1|0.23|ENSG00000086232|chr7:6054672-6054672|T/C|missense_variant;ENST00000461493.1_1_7:6089476-6098783:-|nuORF nc|ENSG00000086232|Q9BQI3-2|EIF2AK1 nc|ENSG00000086232|Q9BQI3-2|EIF2AK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 435.2629089355469 2 434.760561 867.506569 2.7207 0.0011829 0.7755 0.00033716 3.4962 0.00152 434.76077599443755 78.742 0.47179 78.993 78.678 79.15 0.25127 47 31 2 0 0 0 0.45037 1 36226 36226 24.674 3.8027 1 345570 35819 981 22832 22904 40169 40169 0.06751570528570028 VPAIRFLSL 9 Unmodified _VPAIRFLSL_ 0 0 0 ENST00000343110.2_1_1:203456044-203456392:+|nuORF ENST00000343110.2_1_1:203456044-203456392:+|nuORF ENST00000343110.2_1_1:203456044-203456392:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.2020568847656 3 339.21481 1014.6226 NaN NaN NaN NaN NaN NaN NaN 12.63 1 12.938 12.438 13.438 0.30727 0 0 0 0.89509 1 5699 5699 2.7352 0 1 35820 7090 22833 22905 40170 40170 0.11587514099278451 VPAMKLKVEPR 11 Unmodified _VPAMKLKVEPR_ 0 0 0 REV__nc|ENSG00000029363|Q9NYF8-4|BCLAF1 REV__nc|ENSG00000029363|Q9NYF8-4|BCLAF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.38330078125 2 634.381383 1266.74821 NaN NaN NaN NaN NaN NaN NaN 67.983 1 67.983 67.483 68.483 0 0 0 0 1.0063 1 32681 32681 2.4985 1.0166 1 + 35821 10285 22834 22906 40171 40171 0.12550857893165812 VPAPAAAAL 9 Unmodified _VPAPAAAAL_ 0 0 0 REV__ENST00000603791.1_1_6:3751383-3751677:+|nuORF REV__ENST00000603791.1_1_6:3751383-3751677:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.73388671875 2 390.734346 779.454139 NaN NaN NaN NaN NaN NaN NaN 78.423 1 79.085 78.585 79.585 0.66198 0 0 0 0.91452 1 36138 36138 0 0 1 + 35822 17649 22835 22907 40172 40172 0.0555903218559024 VPAPEEESF 9 Unmodified _VPAPEEESF_ 0 0 0 ENSG00000240694|ENST00000522362|PNMA2 ENSG00000240694|ENST00000522362|PNMA2 ENSG00000240694|ENST00000522362|PNMA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.73516845703125 2 502.732197 1003.44984 NaN NaN NaN NaN NaN NaN NaN 44.522 1 44.791 44.291 45.291 0.2694 0 0 0 0.42757 1 20349 20349 21.747 8.2388 1 35823 6219 22836 22908 40173 40173 -0.05174521818616995 VPAPEEESF 9 Unmodified _VPAPEEESF_ 0 0 0 ENSG00000240694|ENST00000522362|PNMA2 ENSG00000240694|ENST00000522362|PNMA2 ENSG00000240694|ENST00000522362|PNMA2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.7760009765625 2 502.732197 1003.44984 3.3826 0.0017006 1.4563 0.00073215 4.839 0.0024327 502.732905298725 44.029 0.15362 44.678 44.541 44.695 0.64872 8 5 2 0 0 0 0.089124 1 20172 20172 16.942 1.0951 1 495240 35824 6219 22836 22908 40174 40174 -0.05174521818616995 VPAPRQHL 8 Unmodified _VPAPRQHL_ 0 0 0 ENST00000426635.6_1_6:72128415-72130440:-|nuORF ENST00000426635.6_1_6:72128415-72130440:-|nuORF ENST00000426635.6_1_6:72128415-72130440:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 306.5157470703125 3 306.515371 916.524284 1.636 0.00050146 3.3487 0.0010264 4.9847 0.0015279 306.51638965228284 13.059 0.32035 13.367 13.216 13.536 0.30727 35 15 3 0 0 0 0.74071 1 5929 5929 1.6526 0.32309 1 381530 35825 7810 22837 22909 40175 40175 0.06268330574084757 VPARRRRRRE 10 Unmodified _VPARRRRRRE_ 0 0 0 ENST00000223145.9_1_7:8008821-8009403:+|nuORF ENST00000223145.9_1_7:8008821-8009403:+|nuORF ENST00000223145.9_1_7:8008821-8009403:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 676.1156616210938 2 676.416334 1350.81812 NaN NaN NaN NaN NaN NaN NaN 101.14 1 101.74 101.24 102.24 0.59717 0 0 0 1.0015 1 46830 46830 0.45834 0 1 35826 6425 22838 22910 40176 40176 0.15673917396702564 VPATITDIF 9 Unmodified _VPATITDIF_ 0 0 0 ENSG00000138061|ENST00000610745|CYP1B1 ENSG00000138061|ENST00000610745|CYP1B1 ENSG00000138061|ENST00000610745|CYP1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.7727355957031 2 488.771126 975.527698 3.057 0.0014942 0.33589 0.00016417 3.3929 0.0016584 488.77133104699345 82.915 0.32256 83.162 82.995 83.317 0.24722 29 16 3 0 0 0 0.0039848 1 38154 38154 93.883 46.963 1 1339600 35827 3066 22839 22911 40177 40177 0.03895535837432362 VPATITDIF 9 Unmodified _VPATITDIF_ 0 0 0 ENSG00000138061|ENST00000610745|CYP1B1 ENSG00000138061|ENST00000610745|CYP1B1 ENSG00000138061|ENST00000610745|CYP1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 488.77239990234375 2 488.771126 975.527698 3.3267 0.001626 -0.073909 -3.6125E-05 3.2528 0.0015899 488.77102963275394 82.314 0.38284 82.975 82.781 83.164 0.66019 49 22 3 0 0 0 0.018173 3 37901 37885;37901;37950 70.716 34.671 1 984930 35828 3066 22839 22911 40178;40179;40180 40179 0.03895535837432362 VPATITDIF 9 Unmodified _VPATITDIF_ 0 0 0 ENSG00000138061|ENST00000610745|CYP1B1 ENSG00000138061|ENST00000610745|CYP1B1 ENSG00000138061|ENST00000610745|CYP1B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 976.5393676757812 1 976.534975 975.527698 3.8734 0.0037825 0.25776 0.00025171 4.1311 0.0040342 976.5347771090717 82.292 0.2233 82.952 82.862 83.085 0.66019 15 12 2 0 0 0 0.078322 1 37917 37917 38.151 7.9264 1 450390 35829 3066 22839 22911 40181 40181 0.03895535837432362 VPATPGEGP 9 Unmodified _VPATPGEGP_ 0 0 0 ENSG00000198934|ENST00000361470|MAGEE1 ENSG00000198934|ENST00000361470|MAGEE1 ENSG00000198934|ENST00000361470|MAGEE1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 824.7108764648438 1 824.414859 823.407583 3.3275 0.0027432 -1.6791 -0.0013843 1.6484 0.001359 824.4132335091468 93.124 0.098656 93.124 93.103 93.201 0 18 11 2 0 0 0 0.10461 1 49656 49656 4.756 0 1 42259000 35830 5966 22840 22912 40182 40182 -0.011184524363329729 VPATPSVPPVL 11 Unmodified _VPATPSVPPVL_ 0 0 0 REV__ENST00000417856.5_1_11:66034501-66034906:+|nuORF REV__ENST00000417856.5_1_11:66034501-66034906:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.9357299804688 2 538.82115 1075.62775 NaN NaN NaN NaN NaN NaN NaN 80.402 1 81.062 80.562 81.562 0.65998 0 0 0 0.9645 1 37050 37050 10.074 0.72649 1 + 35831 16145 22841 22913 40183 40183 0.0929577317122039 VPAWDHTL 8 Unmodified _VPAWDHTL_ 0 0 0 ENSG00000126107|ENST00000372172|HECTD3;nc|ENSG00000126107|Q5T447-2|HECTD3 ENSG00000126107|ENST00000372172|HECTD3 ENSG00000126107|ENST00000372172|HECTD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 469.74102783203125 2 469.74016 937.465767 2.9628 0.0013917 -1.3336 -0.00062645 1.6292 0.00076529 469.7395930092692 48.977 0.3014 49.239 49.06 49.362 0.26209 13 10 2 0 0 0 0.03366 1 22398 22398 74.396 48.997 1 487550 35832 2444 22842 22914 40184 40184 -0.005467707910497666 VPAWDHTL 8 Unmodified _VPAWDHTL_ 0 0 0 ENSG00000126107|ENST00000372172|HECTD3;nc|ENSG00000126107|Q5T447-2|HECTD3 ENSG00000126107|ENST00000372172|HECTD3 ENSG00000126107|ENST00000372172|HECTD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 469.7409362792969 2 469.74016 937.465767 3.0663 0.0014404 -0.42256 -0.0001985 2.6438 0.0012419 469.73991394439196 48.489 0.31625 49.144 48.965 49.281 0.65524 16 12 2 0 0 0 0.045989 1 22160 22160 67.035 67.035 1 357510 35833 2444 22842 22914 40185 40185 -0.005467707910497666 VPCDHVVL 8 Unmodified _VPCDHVVL_ 0 0 0 REV__ENST00000504949.1_1_5:95067575-95091515:+|nuORF REV__ENST00000504949.1_1_5:95067575-95091515:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 440.9235534667969 2 441.231113 880.447674 3.1923 0.0014086 -0.50227 -0.00022162 2.6901 0.0011869 441.23109740350606 49.018 0.26497 49.673 49.498 49.763 0.65524 12 9 2 0 0 0 0.12327 1 22360 22360 13.508 0 1 281360 + 35834 13081 22843 22915 40186 40186 0.0026677096258254096 VPCDHVVL 8 Unmodified _VPCDHVVL_ 0 0 0 REV__ENST00000504949.1_1_5:95067575-95091515:+|nuORF REV__ENST00000504949.1_1_5:95067575-95091515:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 441.231113 880.447674 2.8425 0.0012542 0.10931 4.823E-05 2.9518 0.0013024 441.2312300903544 49.697 0.38559 49.697 49.526 49.912 0 0.01907 7.8489E-05 NaN 19.439 26 16 2 NaN NaN NaN NaN 0 NaN NaN 0 403720 + 35835 13081 22843 22915 0.0026677096258254096 VPCDHVVL 8 Unmodified _VPCDHVVL_ 0 0 0 REV__ENST00000504949.1_1_5:95067575-95091515:+|nuORF REV__ENST00000504949.1_1_5:95067575-95091515:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 441.231113 880.447674 2.8096 0.0012397 0.041972 1.852E-05 2.8516 0.0012582 441.2310944000287 48.689 0.33384 49.516 49.373 49.707 0.82705 -0.16106 1.9068E-05 NaN 19.439 25 18 2 NaN NaN NaN NaN 0 NaN NaN 0 411960 + 35836 13081 22843 22915 0.0026677096258254096 VPCDHVVL 8 Unmodified _VPCDHVVL_ 0 0 0 REV__ENST00000504949.1_1_5:95067575-95091515:+|nuORF REV__ENST00000504949.1_1_5:95067575-95091515:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 441.231113 880.447674 2.9096 0.0012838 0.10517 4.6406E-05 3.0147 0.0013302 441.2311485652143 49.562 0.36204 49.824 49.645 50.007 0.26146 0.14609 7.4842E-05 NaN 19.439 24 14 2 NaN NaN NaN NaN 0 NaN NaN 0 302430 + 35837 13081 22843 22915 0.0026677096258254096 VPCKVEPGL 9 Carbamidomethyl (C) _VPC(Carbamidomethyl (C))KVEPGL_ VPC(1)KVEPGL VPC(130)KVEPGL 0 1 0 ENSG00000196924|ENST00000369850|FLNA;nc|ENSG00000196924|P21333-2|FLNA ENSG00000196924|ENST00000369850|FLNA ENSG00000196924|ENST00000369850|FLNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.7723693847656 2 499.770603 997.526652 2.9529 0.0014758 -0.14125 -7.0594E-05 2.8117 0.0014052 499.77067922694323 33.111 0.95241 33.111 32.636 33.588 0 234 81 5 0 0 0 0.00027711 8 14887 14839;14887;14933;14979;15031;15076;15129;15175 134.3 66.215 1 11946000 35838 5785 22844 22916 40187;40188;40189;40190;40191;40192;40193;40194 40188 95 0.027789981968794564 VPCKVEPGL 9 Carbamidomethyl (C) _VPC(Carbamidomethyl (C))KVEPGL_ VPC(1)KVEPGL VPC(120)KVEPGL 0 1 0 ENSG00000196924|ENST00000369850|FLNA;nc|ENSG00000196924|P21333-2|FLNA ENSG00000196924|ENST00000369850|FLNA ENSG00000196924|ENST00000369850|FLNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.772216796875 2 499.770603 997.526652 2.9174 0.0014581 -0.042199 -2.109E-05 2.8752 0.001437 499.7707001299218 32.044 1.0396 32.832 32.562 33.601 0.78795 303 99 4 0 0 0 0.0012766 9 14432 14389;14432;14475;14518;14563;14611;14656;14708;14762 122.18 58.505 1 19846000 35839 5785 22844 22916 40195;40196;40197;40198;40199;40200;40201;40202;40203 40196 95 0.027789981968794564 VPCKVEPGL 9 Carbamidomethyl (C) _VPC(Carbamidomethyl (C))KVEPGL_ VPC(1)KVEPGL VPC(120)KVEPGL 0 1 0 ENSG00000196924|ENST00000369850|FLNA;nc|ENSG00000196924|P21333-2|FLNA ENSG00000196924|ENST00000369850|FLNA ENSG00000196924|ENST00000369850|FLNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.77203369140625 2 499.770603 997.526652 3.4126 0.0017055 -0.36251 -0.00018117 3.0501 0.0015244 499.7706115964203 32.712 1.151 32.966 32.667 33.818 0.25389 186 54 5 0 0 0 0.0012766 7 14906 14805;14856;14906;14954;15013;15065;15111 122.18 58.505 1 20499000 35840 5785 22844 22916 40204;40205;40206;40207;40208;40209;40210 40206 95 0.027789981968794564 VPCKVEPGL 9 Carbamidomethyl (C) _VPC(Carbamidomethyl (C))KVEPGL_ VPC(1)KVEPGL VPC(120)KVEPGL 0 1 0 ENSG00000196924|ENST00000369850|FLNA;nc|ENSG00000196924|P21333-2|FLNA ENSG00000196924|ENST00000369850|FLNA ENSG00000196924|ENST00000369850|FLNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.7723693847656 2 499.770603 997.526652 3.1746 0.0015866 -0.036129 -1.8056E-05 3.1385 0.0015685 499.770793742893 32.175 1.2355 32.793 32.446 33.682 0.61831 223 61 5 0 0 0 0.0012766 9 14828 14632;14681;14732;14781;14828;14875;14926;14969;15028 122.18 54.835 1 16045000 35841 5785 22844 22916 40211;40212;40213;40214;40215;40216;40217;40218;40219 40215 95 0.027789981968794564 VPDDAVEAL 9 Unmodified _VPDDAVEAL_ 0 0 0 ENST00000513666.5_1_5:96073558-96090478:+|nuORF;nc|ENSG00000153113|P20810-3|CAST;nc|ENSG00000153113|P20810-4|CAST;nc|ENSG00000153113|P20810-8|CAST;nc|ENSG00000153113|P20810-2|CAST;nc|ENSG00000153113|P20810|CAST;nc|ENSG00000153113|P20810-9|CAST;nc|ENSG00000153113|P20810-5|CAST;nc|ENSG00000153113|P20810-10|CAST;nc|ENSG00000153113|P20810-7|CAST;ENSG00000153113|ENST00000675179|CAST ENST00000513666.5_1_5:96073558-96090478:+|nuORF ENST00000513666.5_1_5:96073558-96090478:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.73565673828125 2 464.73474 927.454927 2.7849 0.0012943 -0.20082 -9.3326E-05 2.5841 0.0012009 464.7346352166385 52.789 0.38369 52.789 52.629 53.013 0 51 24 3 0 0 0 0.062556 3 24189 24144;24189;24242 42.095 13.608 1 793550 35842 3773 22845 22917 40220;40221;40222 40221 -0.011702179559961223 VPDDAVEAL 9 Unmodified _VPDDAVEAL_ 0 0 0 ENST00000513666.5_1_5:96073558-96090478:+|nuORF;nc|ENSG00000153113|P20810-3|CAST;nc|ENSG00000153113|P20810-4|CAST;nc|ENSG00000153113|P20810-8|CAST;nc|ENSG00000153113|P20810-2|CAST;nc|ENSG00000153113|P20810|CAST;nc|ENSG00000153113|P20810-9|CAST;nc|ENSG00000153113|P20810-5|CAST;nc|ENSG00000153113|P20810-10|CAST;nc|ENSG00000153113|P20810-7|CAST;ENSG00000153113|ENST00000675179|CAST ENST00000513666.5_1_5:96073558-96090478:+|nuORF ENST00000513666.5_1_5:96073558-96090478:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 928.4644165039062 1 928.462204 927.454927 3.7688 0.0034992 0.28849 0.00026786 4.0573 0.003767 928.4625544923149 52.746 0.40675 52.746 52.649 53.056 0 37 24 2 0 0 0 0.052704 2 24195 24195;24248 46.021 13.074 1 575930 35843 3773 22845 22917 40223;40224 40223 -0.011702179559961223 VPDDAVEAL 9 Unmodified _VPDDAVEAL_ 0 0 0 ENST00000513666.5_1_5:96073558-96090478:+|nuORF;nc|ENSG00000153113|P20810-3|CAST;nc|ENSG00000153113|P20810-4|CAST;nc|ENSG00000153113|P20810-8|CAST;nc|ENSG00000153113|P20810-2|CAST;nc|ENSG00000153113|P20810|CAST;nc|ENSG00000153113|P20810-9|CAST;nc|ENSG00000153113|P20810-5|CAST;nc|ENSG00000153113|P20810-10|CAST;nc|ENSG00000153113|P20810-7|CAST;ENSG00000153113|ENST00000675179|CAST ENST00000513666.5_1_5:96073558-96090478:+|nuORF ENST00000513666.5_1_5:96073558-96090478:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 928.4615478515625 1 928.462204 927.454927 3.0914 0.0028702 -0.099179 -9.2084E-05 2.9922 0.0027781 928.4620658149764 51.916 0.412 52.727 52.54 52.952 0.81065 37 27 2 0 0 0 0.028312 3 23610 23610;23663;23712 57.471 21.427 1 586860 35844 3773 22845 22917 40225;40226;40227 40225 -0.011702179559961223 VPDDAVEAL 9 Unmodified _VPDDAVEAL_ 0 0 0 ENST00000513666.5_1_5:96073558-96090478:+|nuORF;nc|ENSG00000153113|P20810-3|CAST;nc|ENSG00000153113|P20810-4|CAST;nc|ENSG00000153113|P20810-8|CAST;nc|ENSG00000153113|P20810-2|CAST;nc|ENSG00000153113|P20810|CAST;nc|ENSG00000153113|P20810-9|CAST;nc|ENSG00000153113|P20810-5|CAST;nc|ENSG00000153113|P20810-10|CAST;nc|ENSG00000153113|P20810-7|CAST;ENSG00000153113|ENST00000675179|CAST ENST00000513666.5_1_5:96073558-96090478:+|nuORF ENST00000513666.5_1_5:96073558-96090478:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 464.7351379394531 2 464.73474 927.454927 2.2628 0.0010516 -1.0446 -0.00048544 1.2182 0.00056616 464.7341389546846 51.923 0.412 52.733 52.54 52.952 0.81065 45 27 2 0 0 0 0.09451 2 23658 23658;23704 34.102 7.2188 1 959720 35845 3773 22845 22917 40228;40229 40228 -0.011702179559961223 VPDDAVEAL 9 Unmodified _VPDDAVEAL_ 0 0 0 ENST00000513666.5_1_5:96073558-96090478:+|nuORF;nc|ENSG00000153113|P20810-3|CAST;nc|ENSG00000153113|P20810-4|CAST;nc|ENSG00000153113|P20810-8|CAST;nc|ENSG00000153113|P20810-2|CAST;nc|ENSG00000153113|P20810|CAST;nc|ENSG00000153113|P20810-9|CAST;nc|ENSG00000153113|P20810-5|CAST;nc|ENSG00000153113|P20810-10|CAST;nc|ENSG00000153113|P20810-7|CAST;ENSG00000153113|ENST00000675179|CAST ENST00000513666.5_1_5:96073558-96090478:+|nuORF ENST00000513666.5_1_5:96073558-96090478:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 928.4656982421875 1 928.462204 927.454927 3.8314 0.0035573 0.98671 0.00091612 4.8181 0.0044735 928.4633787257067 52.529 0.32298 52.793 52.651 52.974 0.26345 24 11 3 0 0 0 0.017868 2 24051 23994;24051 71.134 29.039 1 889590 35846 3773 22845 22917 40230;40231 40231 -0.011702179559961223 VPDDAVEAL 9 Unmodified _VPDDAVEAL_ 0 0 0 ENST00000513666.5_1_5:96073558-96090478:+|nuORF;nc|ENSG00000153113|P20810-3|CAST;nc|ENSG00000153113|P20810-4|CAST;nc|ENSG00000153113|P20810-8|CAST;nc|ENSG00000153113|P20810-2|CAST;nc|ENSG00000153113|P20810|CAST;nc|ENSG00000153113|P20810-9|CAST;nc|ENSG00000153113|P20810-5|CAST;nc|ENSG00000153113|P20810-10|CAST;nc|ENSG00000153113|P20810-7|CAST;ENSG00000153113|ENST00000675179|CAST ENST00000513666.5_1_5:96073558-96090478:+|nuORF ENST00000513666.5_1_5:96073558-96090478:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.73626708984375 2 464.73474 927.454927 2.7373 0.0012721 0.17607 8.1824E-05 2.9134 0.001354 464.7347599351739 52.533 0.37677 52.796 52.635 53.011 0.26345 32 14 3 0 0 0 0.041436 2 24037 24037;24107 50.855 14.811 1 1107000 35847 3773 22845 22917 40232;40233 40232 -0.011702179559961223 VPDDAVEAL 9 Unmodified _VPDDAVEAL_ 0 0 0 ENST00000513666.5_1_5:96073558-96090478:+|nuORF;nc|ENSG00000153113|P20810-3|CAST;nc|ENSG00000153113|P20810-4|CAST;nc|ENSG00000153113|P20810-8|CAST;nc|ENSG00000153113|P20810-2|CAST;nc|ENSG00000153113|P20810|CAST;nc|ENSG00000153113|P20810-9|CAST;nc|ENSG00000153113|P20810-5|CAST;nc|ENSG00000153113|P20810-10|CAST;nc|ENSG00000153113|P20810-7|CAST;ENSG00000153113|ENST00000675179|CAST ENST00000513666.5_1_5:96073558-96090478:+|nuORF ENST00000513666.5_1_5:96073558-96090478:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 928.4661865234375 1 928.462204 927.454927 3.6832 0.0034197 -0.11468 -0.00010647 3.5685 0.0033132 928.4620108594324 52.135 0.43379 52.797 52.553 52.987 0.66198 36 20 2 0 0 0 0.023109 4 23859 23759;23803;23859;23917 64.236 22.142 1 651370 35848 3773 22845 22917 40234;40235;40236;40237 40236 -0.011702179559961223 VPDDAVEAL 9 Unmodified _VPDDAVEAL_ 0 0 0 ENST00000513666.5_1_5:96073558-96090478:+|nuORF;nc|ENSG00000153113|P20810-3|CAST;nc|ENSG00000153113|P20810-4|CAST;nc|ENSG00000153113|P20810-8|CAST;nc|ENSG00000153113|P20810-2|CAST;nc|ENSG00000153113|P20810|CAST;nc|ENSG00000153113|P20810-9|CAST;nc|ENSG00000153113|P20810-5|CAST;nc|ENSG00000153113|P20810-10|CAST;nc|ENSG00000153113|P20810-7|CAST;ENSG00000153113|ENST00000675179|CAST ENST00000513666.5_1_5:96073558-96090478:+|nuORF ENST00000513666.5_1_5:96073558-96090478:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.736083984375 2 464.73474 927.454927 2.6279 0.0012213 0.089339 4.1519E-05 2.7172 0.0012628 464.73480743405213 52.117 0.52879 52.779 52.52 53.049 0.66198 43 25 2 0 0 0 0.12301 2 23806 23806;23862 28.487 6.7402 1 763530 35849 3773 22845 22917 40238;40239 40238 -0.011702179559961223 VPDDFETML 9 Unmodified _VPDDFETML_ 0 0 0 ENSG00000175390|ENST00000651655|EIF3F ENSG00000175390|ENST00000651655|EIF3F ENSG00000175390|ENST00000651655|EIF3F MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.7429809570312 2 533.741708 1065.46886 2.8689 0.0015313 0.66007 0.00035231 3.529 0.0018836 533.7419773040513 76.707 0.32223 76.963 76.827 77.149 0.25533 31 22 2 0 0 0 0.22507 1 35299 35299 21.747 4.8044 1 469310 35850 5030 22846 22918 40240 40240 -0.06125308519222017 VPDDFETML 9 Unmodified _VPDDFETML_ 0 0 0 ENSG00000175390|ENST00000651655|EIF3F ENSG00000175390|ENST00000651655|EIF3F ENSG00000175390|ENST00000651655|EIF3F MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 533.741708 1065.46886 2.889 0.001542 0.26343 0.0001406 3.1524 0.0016826 533.7418662862455 76.244 0.25276 76.908 76.765 77.017 0.66387 -0.027414 -0.00030149 NaN 21.747 19 15 2 NaN NaN NaN NaN 0 NaN NaN 0 387000 35851 5030 22846 22918 -0.06125308519222017 VPDEDRGF 8 Unmodified _VPDEDRGF_ 0 0 0 REV__ENSG00000140830|ENST00000268483|TXNL4B REV__ENSG00000140830|ENST00000268483|TXNL4B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.7190856933594 2 467.716882 933.41921 2.9061 0.0013592 0.012207 5.7095E-06 2.9183 0.0013649 467.71689255212823 22.014 0.63405 22.014 21.782 22.416 0 67 51 2 0 0 0 0.67495 1 9871 9871 7.9102 0 1 154890 + 35852 12265 22847 22919 40241 40241 -0.05016255412999726 VPDEETIFHAL 11 Unmodified _VPDEETIFHAL_ 0 0 0 ENSG00000150361|ENST00000377844|KLHL1;KLHL4|p.S586Qfs*37|1|0.73|ENSG00000102271|chrX:87635606-87635606|T/-|frameshift_variant;ENSG00000102271|ENST00000373119|KLHL4;nc|ENSG00000102271|Q9C0H6-2|KLHL4 ENSG00000150361|ENST00000377844|KLHL1 ENSG00000150361|ENST00000377844|KLHL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 635.488037109375 2 635.819335 1269.62412 3.4433 0.0021893 0.0045228 2.8757E-06 3.4478 0.0021922 636.3206821347802 70.622 0.20641 71.284 71.11 71.317 0.66209 17 12 2 0 0 0 0.26146 1 32374 32374 26.268 20.062 1 387100 35853 3666 22848 22920 40242 40242 9.05860672446579E-05 VPDEHFSTL 9 Unmodified _VPDEHFSTL_ 0 0 0 ENSG00000146540|ENST00000397098|C7orf50 ENSG00000146540|ENST00000397098|C7orf50 ENSG00000146540|ENST00000397098|C7orf50 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.7554931640625 2 522.753464 1043.49238 NaN NaN NaN NaN NaN NaN NaN 43.634 1 43.634 43.134 44.134 0 0 0 0 0.00016379 1 19898 19898 103.75 61.654 1 35854 3524 22849 22921 40243 40243 -0.027631266903881624 VPDEHFSTL 9 Unmodified _VPDEHFSTL_ 0 0 0 ENSG00000146540|ENST00000397098|C7orf50 ENSG00000146540|ENST00000397098|C7orf50 ENSG00000146540|ENST00000397098|C7orf50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.7554931640625 2 522.753464 1043.49238 3.3166 0.0017338 0.20738 0.00010841 3.524 0.0018422 522.7535839421148 43.262 0.5463 43.533 43.437 43.984 0.27021 53 33 2 0 0 0 0.0016284 3 19780 19730;19780;19836 108 57.142 1 1949700 35855 3524 22849 22921 40244;40245;40246 40245 -0.027631266903881624 VPDEHFSTL 9 Unmodified _VPDEHFSTL_ 0 0 0 ENSG00000146540|ENST00000397098|C7orf50 ENSG00000146540|ENST00000397098|C7orf50 ENSG00000146540|ENST00000397098|C7orf50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.7550659179688 2 522.753464 1043.49238 3.4872 0.001823 0.1127 5.8914E-05 3.5999 0.0018819 522.7535145341868 42.712 0.68113 43.359 43.112 43.793 0.64693 73 53 2 0 0 0 0.0016284 2 19603 19556;19603 108 71.87 1 1718000 35856 3524 22849 22921 40247;40248 40248 -0.027631266903881624 VPDEHFSTL 9 Unmodified _VPDEHFSTL_ 0 0 0 ENSG00000146540|ENST00000397098|C7orf50 ENSG00000146540|ENST00000397098|C7orf50 ENSG00000146540|ENST00000397098|C7orf50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.7559814453125 2 522.753464 1043.49238 3.4813 0.0018199 -0.51711 -0.00027032 2.9642 0.0015495 522.7532658396171 43.234 0.24725 43.883 43.824 44.071 0.64872 13 9 2 0 0 0 0.80651 1 19847 19847 7.2892 2.0586 1 247210 35857 3524 22849 22921 40249 40249 -0.027631266903881624 VPDEHFSTL 9 Unmodified _VPDEHFSTL_ 0 0 0 ENSG00000146540|ENST00000397098|C7orf50 ENSG00000146540|ENST00000397098|C7orf50 ENSG00000146540|ENST00000397098|C7orf50 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 522.753464 1043.49238 3.4813 0.0018199 -0.51711 -0.00027032 2.9642 0.0015495 522.7532658396171 43.234 0.24725 43.883 43.824 44.071 0.64872 0.17512 -0.000621 NaN 108 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 247210 35858 3524 22849 22921 -0.027631266903881624 VPDHILQL 8 Unmodified _VPDHILQL_ 0 0 0 REV__nc|ENSG00000173120|Q9Y2K7-5|KDM2A REV__nc|ENSG00000173120|Q9Y2K7-5|KDM2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 467.7718811035156 2 467.77146 933.528367 NaN NaN NaN NaN NaN NaN NaN 64.64 1 65.297 64.797 65.797 0.65672 0 0 0 0.88162 1 29632 29632 13.508 0.97634 1 + 35859 13583 22850 22922 40250 40250 0.05894375277148356 VPDHVITRL 9 Unmodified _VPDHVITRL_ 0 0 0 ENSG00000162433|ENST00000327299|AK4 ENSG00000162433|ENST00000327299|AK4 ENSG00000162433|ENST00000327299|AK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 525.3104248046875 2 525.308741 1048.60293 2.9003 0.0015235 1.0064 0.00052868 3.9067 0.0020522 525.3089376221362 34.682 0.31657 34.682 34.479 34.796 0 25 19 2 0 0 0 0.04013 1 15709 15709 51.415 20.147 1 593270 35860 4138 22851 22923 40251 40251 0.08057138088497595 VPDHVITRL 9 Unmodified _VPDHVITRL_ 0 0 0 ENSG00000162433|ENST00000327299|AK4 ENSG00000162433|ENST00000327299|AK4 ENSG00000162433|ENST00000327299|AK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 350.54205322265625 3 350.541586 1048.60293 2.2423 0.00078602 0.28889 0.00010127 2.5312 0.00088729 350.5416635409247 34.691 0.39802 34.691 34.494 34.892 0 52 24 3 0 0 0 0.011692 1 15761 15761 64.927 34.223 1 1946800 35861 4138 22851 22923 40252 40252 0.08057138088497595 VPDHVITRL 9 Unmodified _VPDHVITRL_ 0 0 0 ENSG00000162433|ENST00000327299|AK4 ENSG00000162433|ENST00000327299|AK4 ENSG00000162433|ENST00000327299|AK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.5419921875 3 350.541586 1048.60293 2.0641 0.00072357 -0.28073 -9.8408E-05 1.7834 0.00062516 350.54146669012215 33.826 0.45226 34.613 34.519 34.971 0.78795 69 32 3 0 0 0 0.069974 1 15296 15296 31.636 6.7542 1 1880600 35862 4138 22851 22923 40253 40253 0.08057138088497595 VPDHVITRL 9 Unmodified _VPDHVITRL_ 0 0 0 ENSG00000162433|ENST00000327299|AK4 ENSG00000162433|ENST00000327299|AK4 ENSG00000162433|ENST00000327299|AK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.5423278808594 3 350.541586 1048.60293 2.5204 0.00088349 0.13652 4.7857E-05 2.6569 0.00093135 350.5415869635384 34.539 0.35519 34.793 34.608 34.963 0.25389 32 14 3 0 0 0 0.19413 1 15739 15739 22.775 4.4019 1 1305000 35863 4138 22851 22923 40254 40254 0.08057138088497595 VPDHVITRL 9 Unmodified _VPDHVITRL_ 0 0 0 ENSG00000162433|ENST00000327299|AK4 ENSG00000162433|ENST00000327299|AK4 ENSG00000162433|ENST00000327299|AK4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 525.308741 1048.60293 2.9791 0.0015649 0.37029 0.00019452 3.3494 0.0017595 525.3091918505664 33.853 0.25352 34.641 34.562 34.815 0.78795 -0.020614 -0.00037185 NaN 51.415 26 18 2 NaN NaN NaN NaN 0 NaN NaN 0 683490 35864 4138 22851 22923 0.08057138088497595 VPDHVITRL 9 Unmodified _VPDHVITRL_ 0 0 0 ENSG00000162433|ENST00000327299|AK4 ENSG00000162433|ENST00000327299|AK4 ENSG00000162433|ENST00000327299|AK4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 350.541586 1048.60293 2.3593 0.00082704 -0.40319 -0.00014134 1.9561 0.0006857 350.54143701104204 34.137 0.42706 34.758 34.557 34.984 0.62031 0.044027 -0.00038031 NaN 64.927 26 20 2 NaN NaN NaN NaN 0 NaN NaN 0 1236700 35865 4138 22851 22923 0.08057138088497595 VPDHVVWSL 9 Unmodified _VPDHVVWSL_ 0 0 0 ENST00000505282.1_1_4:66959972-66960239:+|nuORF;ENSG00000185885|ENST00000408968|IFITM1;ENSG00000185201|ENST00000616316|IFITM2;ENSG00000142089|ENST00000399808|IFITM3 ENST00000505282.1_1_4:66959972-66960239:+|nuORF ENST00000505282.1_1_4:66959972-66960239:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 526.2822875976562 2 526.282192 1050.54983 2.6186 0.0013781 -0.79579 -0.00041881 1.8228 0.00095932 526.2816781712639 65.31 0.26659 65.31 65.285 65.552 0 45 35 2 0 0 0 0.025323 3 31101 31101;31123;31196 61.357 32.276 1 5873000 35866 3292 22852 22924 40255;40256;40257 40255 0.026577603058512977 VPDHVVWSL 9 Unmodified _VPDHVVWSL_ 0 0 0 ENST00000505282.1_1_4:66959972-66960239:+|nuORF;ENSG00000185885|ENST00000408968|IFITM1;ENSG00000185201|ENST00000616316|IFITM2;ENSG00000142089|ENST00000399808|IFITM3 ENST00000505282.1_1_4:66959972-66960239:+|nuORF ENST00000505282.1_1_4:66959972-66960239:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 525.98681640625 2 526.282192 1050.54983 NaN NaN NaN NaN NaN NaN NaN 65.24 1 65.24 64.74 65.74 0 0 0 0 0.07684 1 31047 31047 46.021 17.534 1 35867 3292 22852 22924 40258 40258 0.026577603058512977 VPDHVVWSL 9 Unmodified _VPDHVVWSL_ 0 0 0 ENST00000505282.1_1_4:66959972-66960239:+|nuORF;ENSG00000185885|ENST00000408968|IFITM1;ENSG00000185201|ENST00000616316|IFITM2;ENSG00000142089|ENST00000399808|IFITM3 ENST00000505282.1_1_4:66959972-66960239:+|nuORF ENST00000505282.1_1_4:66959972-66960239:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.2178344726562 2 526.282192 1050.54983 2.6804 0.0014107 -0.86634 -0.00045594 1.8141 0.00095473 526.2816550618795 64.126 0.33565 64.841 64.785 65.12 0.71521 72 44 2 0 0 0 0.0097731 1 30297 30297 36.127 8.4982 1 9996900 35868 3292 22852 22924 40259 40259 0.026577603058512977 VPDHVVWSL 9 Unmodified _VPDHVVWSL_ 0 0 0 ENST00000505282.1_1_4:66959972-66960239:+|nuORF;ENSG00000185885|ENST00000408968|IFITM1;ENSG00000185201|ENST00000616316|IFITM2;ENSG00000142089|ENST00000399808|IFITM3 ENST00000505282.1_1_4:66959972-66960239:+|nuORF ENST00000505282.1_1_4:66959972-66960239:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.2835693359375 2 526.282192 1050.54983 3.3963 0.0017874 -0.029099 -1.5314E-05 3.3672 0.0017721 526.2821062975028 65.137 0.75146 65.385 65.072 65.824 0.24803 114 36 4 0 0 0 0.0013377 6 29895 29744;29802;29850;29895;29956;30027 117.6 69.85 1 13140000 35869 3292 22852 22924 40260;40261;40262;40263;40264;40265 40263 0.026577603058512977 VPDHVVWSL 9 Unmodified _VPDHVVWSL_ 0 0 0 ENST00000505282.1_1_4:66959972-66960239:+|nuORF;ENSG00000185885|ENST00000408968|IFITM1;ENSG00000185201|ENST00000616316|IFITM2;ENSG00000142089|ENST00000399808|IFITM3 ENST00000505282.1_1_4:66959972-66960239:+|nuORF ENST00000505282.1_1_4:66959972-66960239:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.2838134765625 2 526.282192 1050.54983 3.3792 0.0017784 -0.031506 -1.6581E-05 3.3477 0.0017618 526.2821065432953 64.506 0.76385 65.163 64.913 65.676 0.65672 112 40 4 0 0 0 3.2716E-05 6 29534 29484;29534;29600;29649;29697;29748 139.54 83.367 1 11785000 35870 3292 22852 22924 40266;40267;40268;40269;40270;40271 40267 0.026577603058512977 VPDIDLSDCE 10 Unmodified _VPDIDLSDCE_ 0 0 0 nc|ENSG00000166024|Q7Z5L2-3|R3HCC1L;nc|ENSG00000166024|Q7Z5L2-2|R3HCC1L;ENSG00000166024|ENST00000298999|R3HCC1L;nc|ENSG00000166024|Q7Z5L2|R3HCC1L nc|ENSG00000166024|Q7Z5L2-3|R3HCC1L nc|ENSG00000166024|Q7Z5L2-3|R3HCC1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.2388916015625 2 553.239529 1104.46451 NaN NaN NaN NaN NaN NaN NaN 80.112 1 80.432 79.932 80.932 0.31998 0 0 0 0.99225 1 39162 39162 6.7232 0 1 35871 4447 22853 22925 40272 40272 -0.08354817732788433 VPDPNSPSI 9 Unmodified _VPDPNSPSI_ 0 0 0 ENSG00000122870|ENST00000373886|BICC1;nc|ENSG00000122870|Q9H694-2|BICC1 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 463.2362976074219 2 463.234907 924.455261 2.7788 0.0012872 0.89036 0.00041245 3.6692 0.0016997 463.23532717523096 39.103 0.57261 39.103 38.807 39.379 0 34 21 3 0 0 0 0.027384 2 17708 17708;17782 58.679 18.23 1 440660 35872 2285 22854 22926 40273;40274 40273 -0.00998798236150833 VPDPNSPSI 9 Unmodified _VPDPNSPSI_ 0 0 0 ENSG00000122870|ENST00000373886|BICC1;nc|ENSG00000122870|Q9H694-2|BICC1 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.2354736328125 2 463.234907 924.455261 2.7682 0.0012823 0.45525 0.00021089 3.2234 0.0014932 463.23527206817386 38.145 0.68597 38.941 38.691 39.377 0.79552 37 27 2 0 0 0 0.027384 2 17252 17252;17319 58.679 20.705 1 401520 35873 2285 22854 22926 40275;40276 40275 -0.00998798236150833 VPDPNSPSI 9 Unmodified _VPDPNSPSI_ 0 0 0 ENSG00000122870|ENST00000373886|BICC1;nc|ENSG00000122870|Q9H694-2|BICC1 ENSG00000122870|ENST00000373886|BICC1 ENSG00000122870|ENST00000373886|BICC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.23626708984375 2 463.234907 924.455261 2.7238 0.0012618 0.69455 0.00032174 3.4184 0.0015835 463.23513242606134 38.339 0.58237 38.973 38.754 39.336 0.63388 51 24 3 0 0 0 0.038142 2 17507 17507;17563 52.268 19.963 1 420400 35874 2285 22854 22926 40277;40278 40277 -0.00998798236150833 VPDPNVIKL 9 Unmodified _VPDPNVIKL_ 0 0 0 ENSG00000168872|ENST00000302243|DDX19A;ENSG00000157349|ENST00000288071|DDX19B;ENST00000569319.5_1_16:70399881-70405886:+|nuORF;ENST00000569771.5_1_16:70395504-70405886:+|nuORF;ENST00000562140.2_1_16:70398455-70404584:+|nuORF;nc|ENSG00000260537|Q9UMR2-3|DDX19B;nc|ENSG00000168872|Q9NUU7-2|DDX19A;nc|ENSG00000260537|Q9UMR2-2|DDX19B;nc|ENSG00000260537|Q9UMR2-4|DDX19B ENSG00000168872|ENST00000302243|DDX19A ENSG00000168872|ENST00000302243|DDX19A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 497.8018493652344 2 497.800217 993.585882 2.9108 0.001449 0.73814 0.00036745 3.6489 0.0018164 497.8006128667203 55.93 0.58913 55.93 55.768 56.358 0 90 47 3 0 0 0 0.060129 1 25724 25724 53.404 32.533 1 1660300 35875 3947 22855 22927 40279 40279 0.0888321748270755 VPDPNVIKL 9 Unmodified _VPDPNVIKL_ 0 0 0 ENSG00000168872|ENST00000302243|DDX19A;ENSG00000157349|ENST00000288071|DDX19B;ENST00000569319.5_1_16:70399881-70405886:+|nuORF;ENST00000569771.5_1_16:70395504-70405886:+|nuORF;ENST00000562140.2_1_16:70398455-70404584:+|nuORF;nc|ENSG00000260537|Q9UMR2-3|DDX19B;nc|ENSG00000168872|Q9NUU7-2|DDX19A;nc|ENSG00000260537|Q9UMR2-2|DDX19B;nc|ENSG00000260537|Q9UMR2-4|DDX19B ENSG00000168872|ENST00000302243|DDX19A ENSG00000168872|ENST00000302243|DDX19A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 497.8014831542969 2 497.800217 993.585882 2.7088 0.0013484 0.19862 9.8872E-05 2.9074 0.0014473 497.80010013146506 55.053 0.53072 55.84 55.666 56.197 0.78711 90 39 3 0 0 0 0.022577 2 25096 25096;25162 79.596 50.515 1 1500900 35876 3947 22855 22927 40280;40281 40280 0.0888321748270755 VPDPNVIKL 9 Unmodified _VPDPNVIKL_ 0 0 0 ENSG00000168872|ENST00000302243|DDX19A;ENSG00000157349|ENST00000288071|DDX19B;ENST00000569319.5_1_16:70399881-70405886:+|nuORF;ENST00000569771.5_1_16:70395504-70405886:+|nuORF;ENST00000562140.2_1_16:70398455-70404584:+|nuORF;nc|ENSG00000260537|Q9UMR2-3|DDX19B;nc|ENSG00000168872|Q9NUU7-2|DDX19A;nc|ENSG00000260537|Q9UMR2-2|DDX19B;nc|ENSG00000260537|Q9UMR2-4|DDX19B ENSG00000168872|ENST00000302243|DDX19A ENSG00000168872|ENST00000302243|DDX19A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.8017272949219 2 497.800217 993.585882 3.0886 0.0015375 0.069434 3.4564E-05 3.1581 0.0015721 497.80017131541376 55.841 0.47824 56.107 55.907 56.386 0.26543 57 22 3 0 0 0 0.0090824 2 25547 25482;25547 100.09 67.305 1 2083400 35877 3947 22855 22927 40282;40283 40283 0.0888321748270755 VPDPNVIKL 9 Unmodified _VPDPNVIKL_ 0 0 0 ENSG00000168872|ENST00000302243|DDX19A;ENSG00000157349|ENST00000288071|DDX19B;ENST00000569319.5_1_16:70399881-70405886:+|nuORF;ENST00000569771.5_1_16:70395504-70405886:+|nuORF;ENST00000562140.2_1_16:70398455-70404584:+|nuORF;nc|ENSG00000260537|Q9UMR2-3|DDX19B;nc|ENSG00000168872|Q9NUU7-2|DDX19A;nc|ENSG00000260537|Q9UMR2-2|DDX19B;nc|ENSG00000260537|Q9UMR2-4|DDX19B ENSG00000168872|ENST00000302243|DDX19A ENSG00000168872|ENST00000302243|DDX19A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.8019714355469 2 497.800217 993.585882 3.1903 0.0015881 0.41588 0.00020703 3.6062 0.0017952 497.80041747365493 55.019 0.59832 55.687 55.461 56.059 0.66798 59 23 3 0 0 0 0.015213 2 25170 25122;25170 90.135 40.202 1 2192700 35878 3947 22855 22927 40284;40285 40285 0.0888321748270755 VPDPTVSCL 9 Unmodified _VPDPTVSCL_ 0 0 0 nc|ENSG00000076108|Q9UIF9-3|BAZ2A;ENSG00000076108|ENST00000549884|BAZ2A;nc|ENSG00000076108|Q9UIF9|BAZ2A;nc|ENSG00000076108|Q9UIF9-2|BAZ2A nc|ENSG00000076108|Q9UIF9-3|BAZ2A nc|ENSG00000076108|Q9UIF9-3|BAZ2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.7362365722656 2 465.733686 929.452819 2.4153 0.0011249 0.39227 0.00018269 2.8075 0.0013076 465.73385341422664 74.9 0.48853 75.158 74.935 75.424 0.2583 74 45 2 0 0 0 0.49692 1 34405 34405 12.532 3.1841 1 1081000 35879 842 22856 22928 40286 40286 -0.014729699654594697 VPDPTVSCL 9 Unmodified _VPDPTVSCL_ 0 0 0 nc|ENSG00000076108|Q9UIF9-3|BAZ2A;ENSG00000076108|ENST00000549884|BAZ2A;nc|ENSG00000076108|Q9UIF9|BAZ2A;nc|ENSG00000076108|Q9UIF9-2|BAZ2A nc|ENSG00000076108|Q9UIF9-3|BAZ2A nc|ENSG00000076108|Q9UIF9-3|BAZ2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.7359924316406 2 465.733686 929.452819 2.3345 0.0010872 -0.0061725 -2.8747E-06 2.3283 0.0010844 465.7336992647447 74.35 0.42976 75.015 74.854 75.284 0.6644 83 47 2 0 0 0 0.49692 1 34179 34179 12.532 0 1 1205600 35880 842 22856 22928 40287 40287 -0.014729699654594697 VPDSPENEL 9 Unmodified _VPDSPENEL_ 0 0 0 nc|ENSG00000132849|Q8NI35|PATJ;ENSG00000132849|ENST00000642238|PATJ;nc|ENSG00000132849|Q8NI35-4|PATJ;ENST00000459752.5_1_1:62228564-62579919:+|nuORF;nc|ENSG00000132849|Q8NI35-3|PATJ;ENST00000484562.5_1_1:62228564-62579919:+|nuORF;nc|ENSG00000132849|Q8NI35-2|PATJ nc|ENSG00000132849|Q8NI35|PATJ nc|ENSG00000132849|Q8NI35|PATJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.2365417480469 2 500.235104 998.455655 3.0505 0.001526 0.13414 6.7102E-05 3.1846 0.0015931 500.23503038419534 40.861 0.44005 40.861 40.713 41.153 0 62 29 3 0 0 0 0.00081333 4 18604 18517;18562;18604;18662 128.37 65.793 1 2907900 35881 2731 22857 22929 40288;40289;40290;40291 40290 -0.043634233069496986 VPDSPENEL 9 Unmodified _VPDSPENEL_ 0 0 0 nc|ENSG00000132849|Q8NI35|PATJ;ENSG00000132849|ENST00000642238|PATJ;nc|ENSG00000132849|Q8NI35-4|PATJ;ENST00000459752.5_1_1:62228564-62579919:+|nuORF;nc|ENSG00000132849|Q8NI35-3|PATJ;ENST00000484562.5_1_1:62228564-62579919:+|nuORF;nc|ENSG00000132849|Q8NI35-2|PATJ nc|ENSG00000132849|Q8NI35|PATJ nc|ENSG00000132849|Q8NI35|PATJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.23638916015625 2 500.235104 998.455655 3.0172 0.0015093 -0.1463 -7.3185E-05 2.8709 0.0014361 500.23493914409426 40.151 0.54074 40.951 40.602 41.142 0.80014 71 37 2 0 0 0 0.00081333 6 18187 18096;18144;18187;18232;18236;18255 128.37 73.592 1 4251700 35882 2731 22857 22929 40292;40293;40294;40295;40296;40297 40294 -0.043634233069496986 VPDSPENEL 9 Unmodified _VPDSPENEL_ 0 0 0 nc|ENSG00000132849|Q8NI35|PATJ;ENSG00000132849|ENST00000642238|PATJ;nc|ENSG00000132849|Q8NI35-4|PATJ;ENST00000459752.5_1_1:62228564-62579919:+|nuORF;nc|ENSG00000132849|Q8NI35-3|PATJ;ENST00000484562.5_1_1:62228564-62579919:+|nuORF;nc|ENSG00000132849|Q8NI35-2|PATJ nc|ENSG00000132849|Q8NI35|PATJ nc|ENSG00000132849|Q8NI35|PATJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.2352600097656 2 500.235104 998.455655 3.408 0.0017048 -0.13122 -6.5642E-05 3.2768 0.0016392 500.23482104799103 40.772 0.41386 41.041 40.759 41.173 0.26904 52 24 3 0 0 0 0.0010612 3 18491 18491;18540;18583 125.62 63.052 1 1992500 35883 2731 22857 22929 40298;40299;40300 40298 -0.043634233069496986 VPDSPENEL 9 Unmodified _VPDSPENEL_ 0 0 0 nc|ENSG00000132849|Q8NI35|PATJ;ENSG00000132849|ENST00000642238|PATJ;nc|ENSG00000132849|Q8NI35-4|PATJ;ENST00000459752.5_1_1:62228564-62579919:+|nuORF;nc|ENSG00000132849|Q8NI35-3|PATJ;ENST00000484562.5_1_1:62228564-62579919:+|nuORF;nc|ENSG00000132849|Q8NI35-2|PATJ nc|ENSG00000132849|Q8NI35|PATJ nc|ENSG00000132849|Q8NI35|PATJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.2366943359375 2 500.235104 998.455655 3.4713 0.0017365 -0.25619 -0.00012816 3.2151 0.0016083 500.23486753432445 40.25 0.18126 40.891 40.716 40.898 0.64136 14 10 2 0 0 0 0.0044949 1 18380 18380 92.822 36.645 1 2830400 35884 2731 22857 22929 40301 40301 -0.043634233069496986 VPDSPENEL 9 Unmodified _VPDSPENEL_ 0 0 0 nc|ENSG00000132849|Q8NI35|PATJ;ENSG00000132849|ENST00000642238|PATJ;nc|ENSG00000132849|Q8NI35-4|PATJ;ENST00000459752.5_1_1:62228564-62579919:+|nuORF;nc|ENSG00000132849|Q8NI35-3|PATJ;ENST00000484562.5_1_1:62228564-62579919:+|nuORF;nc|ENSG00000132849|Q8NI35-2|PATJ nc|ENSG00000132849|Q8NI35|PATJ nc|ENSG00000132849|Q8NI35|PATJ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.2381286621094 2 500.235104 998.455655 NaN NaN NaN NaN NaN NaN NaN 40.319 1 40.96 40.46 41.46 0.64136 0 0 0 0.00014757 1 18428 18428 104.8 64.842 1 35885 2731 22857 22929 40302 40302 -0.043634233069496986 VPEAESQPI 9 Unmodified _VPEAESQPI_ 0 0 0 nc|ENSG00000106078|O75128-6|COBL;ENST00000462395.1_1_7:51085250-51098638:-|nuORF;COBL|p.P1049Sfs*18|1|0.06|ENSG00000106078|chr7:51027951-51027952|-/ACAGA|frameshift_variant;nc|ENSG00000106078|O75128-3|COBL;ENSG00000106078|ENST00000265136|COBL;nc|ENSG00000106078|O75128-7|COBL;nc|ENSG00000106078|O75128-2|COBL nc|ENSG00000106078|O75128-6|COBL nc|ENSG00000106078|O75128-6|COBL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.2505798339844 2 485.248015 968.481476 3.2881 0.0015955 1.1707 0.0005681 4.4589 0.0021636 485.2482960212745 48.445 0.36308 48.445 48.302 48.665 0 55 25 3 0 0 0 0.11001 1 22142 22142 30.225 1.738 1 1237400 35886 200 22858 22930 40303 40303 -0.004025290646723079 VPEAESQPI 9 Unmodified _VPEAESQPI_ 0 0 0 nc|ENSG00000106078|O75128-6|COBL;ENST00000462395.1_1_7:51085250-51098638:-|nuORF;COBL|p.P1049Sfs*18|1|0.06|ENSG00000106078|chr7:51027951-51027952|-/ACAGA|frameshift_variant;nc|ENSG00000106078|O75128-3|COBL;ENSG00000106078|ENST00000265136|COBL;nc|ENSG00000106078|O75128-7|COBL;nc|ENSG00000106078|O75128-2|COBL nc|ENSG00000106078|O75128-6|COBL nc|ENSG00000106078|O75128-6|COBL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2503967285156 2 485.248015 968.481476 3.2692 0.0015864 0.85071 0.00041281 4.1199 0.0019992 485.2484899477944 48.277 0.36124 48.539 48.347 48.708 0.26209 42 21 3 0 0 0 0.11001 1 22134 22134 30.225 7.0764 1 1621400 35887 200 22858 22930 40304 40304 -0.004025290646723079 VPEAESQPI 9 Unmodified _VPEAESQPI_ 0 0 0 nc|ENSG00000106078|O75128-6|COBL;ENST00000462395.1_1_7:51085250-51098638:-|nuORF;COBL|p.P1049Sfs*18|1|0.06|ENSG00000106078|chr7:51027951-51027952|-/ACAGA|frameshift_variant;nc|ENSG00000106078|O75128-3|COBL;ENSG00000106078|ENST00000265136|COBL;nc|ENSG00000106078|O75128-7|COBL;nc|ENSG00000106078|O75128-2|COBL nc|ENSG00000106078|O75128-6|COBL nc|ENSG00000106078|O75128-6|COBL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2496337890625 2 485.248015 968.481476 3.235 0.0015698 1.0006 0.00048553 4.2356 0.0020553 485.24840371585157 47.758 0.39281 48.412 48.193 48.586 0.65356 43 17 3 0 0 0 0.11001 1 21914 21914 30.225 1.738 1 1294200 35888 200 22858 22930 40305 40305 -0.004025290646723079 VPEAVGVIE 9 Unmodified _VPEAVGVIE_ 0 0 0 ENSG00000103742|ENST00000352385|IGDCC4 ENSG00000103742|ENST00000352385|IGDCC4 ENSG00000103742|ENST00000352385|IGDCC4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 913.5111694335938 1 912.503674 911.496398 3.6642 0.0033436 -0.10047 -9.1682E-05 3.5637 0.0032519 912.5034651335712 68.961 0.52357 69.62 69.362 69.886 0.65924 90 37 3 0 0 0 0.54955 1 31525 31525 11.64 1.5664 1 2684800 35889 1414 22859 22931 40306 40306 0.03710962803336315 VPEDAINL 8 Unmodified _VPEDAINL_ 0 0 0 REV__ENSG00000066739|ENST00000359933|ATG2B REV__ENSG00000066739|ENST00000359933|ATG2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 435.7332458496094 2 435.732 869.449448 2.8766 0.0012534 -0.35056 -0.00015275 2.5261 0.0011007 435.73182414376157 64.659 0.46945 64.908 64.843 65.312 0.24802 49 34 2 0 0 0 0.37185 2 29706 29655;29706 30.225 7.0764 1 1714600 + 35890 10444 22860 22932 40307;40308 40308 0.009501032521825437 VPEDAINL 8 Unmodified _VPEDAINL_ 0 0 0 REV__ENSG00000066739|ENST00000359933|ATG2B REV__ENSG00000066739|ENST00000359933|ATG2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.7330017089844 2 435.732 869.449448 3.1458 0.0013707 -0.18583 -8.0973E-05 2.9599 0.0012897 435.7318484805334 64.244 0.37061 64.901 64.873 65.244 0.65672 29 19 2 0 0 0 0.52517 1 29502 29502 19.439 0 1 1256500 + 35891 10444 22860 22932 40309 40309 0.009501032521825437 VPEDAINL 8 Unmodified _VPEDAINL_ 0 0 0 REV__ENSG00000066739|ENST00000359933|ATG2B REV__ENSG00000066739|ENST00000359933|ATG2B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.7334289550781 2 435.732 869.449448 NaN NaN NaN NaN NaN NaN NaN 64.219 1 64.876 64.376 65.376 0.65672 0 0 0 0.79116 1 29439 29439 19.439 1.304 1 + 35892 10444 22860 22932 40310 40310 0.009501032521825437 VPEDAINL 8 Unmodified _VPEDAINL_ 0 0 0 REV__ENSG00000066739|ENST00000359933|ATG2B REV__ENSG00000066739|ENST00000359933|ATG2B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.7334289550781 2 435.732 869.449448 3.1458 0.0013707 -0.18583 -8.0973E-05 2.9599 0.0012897 435.7318484805334 64.244 0.37061 64.901 64.873 65.244 0.65672 29 19 2 0 0 0 0.10619 1 29439 29439 19.439 1.304 1 1256500 + 35893 10444 22860 22932 40311 40311 0.009501032521825437 VPEDAINL 8 Unmodified _VPEDAINL_ 0 0 0 REV__ENSG00000066739|ENST00000359933|ATG2B REV__ENSG00000066739|ENST00000359933|ATG2B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 435.732 869.449448 2.8766 0.0012534 -0.35056 -0.00015275 2.5261 0.0011007 435.73182414376157 64.659 0.46945 64.908 64.843 65.312 0.24802 0.0034445 -7.5959E-05 NaN 30.225 49 34 2 NaN NaN NaN NaN 0 NaN NaN 0 1714600 + 35894 10444 22860 22932 0.009501032521825437 VPEDGIGSVI 10 Unmodified _VPEDGIGSVI_ 0 0 0 ENST00000418047.5_3_22:30681611-30682125:-|nuORF;ENST00000434987.5_3_22:30681611-30689737:-|nuORF;ENST00000447976.1_3_22:30681611-30689721:-|nuORF;ENST00000330168.9_3_22:30681611-30688778:-|nuORF;ENSG00000239282|ENST00000407689|CASTOR1 ENST00000418047.5_3_22:30681611-30682125:-|nuORF ENST00000418047.5_3_22:30681611-30682125:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 493.2657165527344 2 493.263665 984.512776 3.2056 0.0015812 0.37787 0.00018639 3.5834 0.0017676 493.2638790059712 26.583 0.33251 26.583 26.417 26.749 0 38 29 2 0 0 0 0.16336 2 11948 11948;12006 43.858 1.9027 1 757580 35895 6208 22861 22933 40312;40313 40312 0.019900439694538363 VPEDGIGSVI 10 Unmodified _VPEDGIGSVI_ 0 0 0 ENST00000418047.5_3_22:30681611-30682125:-|nuORF;ENST00000434987.5_3_22:30681611-30689737:-|nuORF;ENST00000447976.1_3_22:30681611-30689721:-|nuORF;ENST00000330168.9_3_22:30681611-30688778:-|nuORF;ENSG00000239282|ENST00000407689|CASTOR1 ENST00000418047.5_3_22:30681611-30682125:-|nuORF ENST00000418047.5_3_22:30681611-30682125:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.2657775878906 2 493.263665 984.512776 3.2265 0.0015915 0.47034 0.000232 3.6968 0.0018235 493.2637667516857 26.256 0.3382 26.521 26.426 26.765 0.26489 54 26 3 0 0 0 0.55057 1 12012 12012 19.257 2.1441 1 678640 35896 6208 22861 22933 40314 40314 0.019900439694538363 VPEDGIGSVI 10 Unmodified _VPEDGIGSVI_ 0 0 0 ENST00000418047.5_3_22:30681611-30682125:-|nuORF;ENST00000434987.5_3_22:30681611-30689737:-|nuORF;ENST00000447976.1_3_22:30681611-30689721:-|nuORF;ENST00000330168.9_3_22:30681611-30688778:-|nuORF;ENSG00000239282|ENST00000407689|CASTOR1 ENST00000418047.5_3_22:30681611-30682125:-|nuORF ENST00000418047.5_3_22:30681611-30682125:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.2665100097656 2 493.263665 984.512776 3.1129 0.0015355 1.7711 0.00087361 4.884 0.0024091 493.26395106802727 25.954 0.32337 26.579 26.446 26.769 0.62505 49 23 3 0 0 0 0.25925 2 11878 11878;11925 32.305 3.2239 1 600010 35897 6208 22861 22933 40315;40316 40315 0.019900439694538363 VPEDVEQQL 9 Unmodified _VPEDVEQQL_ 0 0 0 ENST00000534255.1_1_8:145193835-145194452:+|nuORF;ENSG00000235173|ENST00000347708|HGH1 ENST00000534255.1_1_8:145193835-145194452:+|nuORF ENST00000534255.1_1_8:145193835-145194452:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.765380859375 2 528.764029 1055.5135 3.0379 0.0016063 -0.94176 -0.00049797 2.0961 0.0011084 528.7641867594642 44.451 0.38065 44.72 44.581 44.962 0.26939 21 12 2 0 0 0 0.10169 2 20395 20328;20395 32.305 12.866 1 363740 35898 6201 22862 22934 40317;40318 40318 -0.012031613815224773 VPEDVEQQL 9 Unmodified _VPEDVEQQL_ 0 0 0 ENST00000534255.1_1_8:145193835-145194452:+|nuORF;ENSG00000235173|ENST00000347708|HGH1 ENST00000534255.1_1_8:145193835-145194452:+|nuORF ENST00000534255.1_1_8:145193835-145194452:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 528.764029 1055.5135 3.0834 0.0016304 -0.70765 -0.00037418 2.3758 0.0012562 528.7636825338005 44.712 0.21223 44.712 44.655 44.868 0 0.014764 -0.0006694 NaN 32.305 15 11 2 NaN NaN NaN NaN 0 NaN NaN 0 397540 35899 6201 22862 22934 -0.012031613815224773 VPEDVEQQL 9 Unmodified _VPEDVEQQL_ 0 0 0 ENST00000534255.1_1_8:145193835-145194452:+|nuORF;ENSG00000235173|ENST00000347708|HGH1 ENST00000534255.1_1_8:145193835-145194452:+|nuORF ENST00000534255.1_1_8:145193835-145194452:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 528.764029 1055.5135 3.4181 0.0018074 0.56388 0.00029816 3.982 0.0021055 528.7646110181465 44.01 0.28519 44.659 44.541 44.826 0.64872 -0.03786 0.00067528 NaN 32.305 13 12 2 NaN NaN NaN NaN 0 NaN NaN 0 438170 35900 6201 22862 22934 -0.012031613815224773 VPEEEEEEEE 10 Unmodified _VPEEEEEEEE_ 0 0 0 nc|ENSG00000149930|Q9UL54-3|TAOK2;nc|ENSG00000149930|Q9UL54-4|TAOK2;ENSG00000149930|ENST00000308893|TAOK2 REV__ENST00000461347.5_1_2:232323706-232327997:-|nuORF;nc|ENSG00000149930|Q9UL54-3|TAOK2 REV__ENST00000461347.5_1_2:232323706-232327997:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 624.75341796875 2 624.24352 1246.47249 3.1158 0.001945 -0.56578 -0.00035319 2.55 0.0015918 624.2425280954986 71.44 0.34495 72.103 71.952 72.297 0.66324 37 23 2 0 0 0 0.93534 1 32777 32777 1.8442 0 1 984310 35901 11340;3662 22863 22935 40319 40319 -0.14089012002318668 VPEEKAAEL 9 Unmodified _VPEEKAAEL_ 0 0 0 ENST00000486274.5_1_3:99980342-100042509:+|nuORF;nc|ENSG00000036054|Q9NUY8-2|TBC1D23;ENSG00000036054|ENST00000394144|TBC1D23;ENST00000484231.1_1_3:99998514-100002656:+|nuORF ENST00000486274.5_1_3:99980342-100042509:+|nuORF ENST00000486274.5_1_3:99980342-100042509:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.2657165527344 2 493.263665 984.512776 3.0005 0.00148 0.34274 0.00016906 3.3432 0.0016491 493.2639303450435 25.567 0.40286 26.33 26.167 26.57 0.76356 57 30 3 0 0 0 0.063575 1 11499 11499 41.84 1.8823 1 645300 35902 513 22864 22936 40320 40320 0.01990043969431099 VPEEKAAEL 9 Unmodified _VPEEKAAEL_ 0 0 0 ENST00000486274.5_1_3:99980342-100042509:+|nuORF;nc|ENSG00000036054|Q9NUY8-2|TBC1D23;ENSG00000036054|ENST00000394144|TBC1D23;ENST00000484231.1_1_3:99998514-100002656:+|nuORF ENST00000486274.5_1_3:99980342-100042509:+|nuORF ENST00000486274.5_1_3:99980342-100042509:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.26544189453125 2 493.263665 984.512776 3.2265 0.0015915 0.47034 0.000232 3.6968 0.0018235 493.2637667516857 26.256 0.3382 26.521 26.426 26.765 0.26489 54 26 3 0 0 0 0.053453 2 11968 11919;11968 45.7 13.394 1 678640 35903 513 22864 22936 40321;40322 40322 0.01990043969431099 VPEIKTIL 8 Unmodified _VPEIKTIL_ 0 0 0 APOB|p.G3575Afs*48|1|0.18|ENSG00000084674|chr2:21006144-21006144|C/-|frameshift_variant;ENSG00000084674|ENST00000233242|APOB APOB|p.G3575Afs*48|1|0.18|ENSG00000084674|chr2:21006144-21006144|C/-|frameshift_variant APOB|p.G3575Afs*48|1|0.18|ENSG00000084674|chr2:21006144-21006144|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.8645935058594 3 304.863666 911.569169 NaN NaN NaN NaN NaN NaN NaN 28.791 1 29.58 29.08 30.08 0.78921 0 0 0 0.99035 1 12971 12971 0.40072 0 1 35904 61 22865 22937 40323 40323 0.10984716596760791 VPEPDGHII 9 Unmodified _VPEPDGHII_ 0 0 0 ATP10D|p.R451Qfs*28|1|0.15|ENSG00000145246|chr4:47536893-47536908|CGAAGATGTAGTGTGG/-|frameshift_variant;ATP10D|p.G901Sfs*6|1|0.08|ENSG00000145246|chr4:47563612-47563613|-/AGTCAAA|frameshift_variant;nc|ENSG00000145246|Q9P241-2|ATP10D;ENSG00000145246|ENST00000273859|ATP10D ATP10D|p.R451Qfs*28|1|0.15|ENSG00000145246|chr4:47536893-47536908|CGAAGATGTAGTGTGG/-|frameshift_variant ATP10D|p.R451Qfs*28|1|0.15|ENSG00000145246|chr4:47536893-47536908|CGAAGATGTAGTGTGG/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 488.7611083984375 2 488.758549 975.502546 3.1056 0.0015179 0.59421 0.00029043 3.6998 0.0018083 488.75889840485297 42.384 0.22138 42.384 42.352 42.573 0 31 18 2 0 0 0 0.023109 2 19293 19293;19352 64.236 31.931 1 2010600 35905 79 22866 22938 40324;40325 40324 0.013814810348662832 VPEPDGHII 9 Unmodified _VPEPDGHII_ 0 0 0 ATP10D|p.R451Qfs*28|1|0.15|ENSG00000145246|chr4:47536893-47536908|CGAAGATGTAGTGTGG/-|frameshift_variant;ATP10D|p.G901Sfs*6|1|0.08|ENSG00000145246|chr4:47563612-47563613|-/AGTCAAA|frameshift_variant;nc|ENSG00000145246|Q9P241-2|ATP10D;ENSG00000145246|ENST00000273859|ATP10D ATP10D|p.R451Qfs*28|1|0.15|ENSG00000145246|chr4:47536893-47536908|CGAAGATGTAGTGTGG/-|frameshift_variant ATP10D|p.R451Qfs*28|1|0.15|ENSG00000145246|chr4:47536893-47536908|CGAAGATGTAGTGTGG/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.76043701171875 2 488.758549 975.502546 NaN NaN NaN NaN NaN NaN NaN 42.171 1 42.441 41.941 42.941 0.27021 0 0 0 0.067429 1 19231 19231 48.346 14.159 1 35906 79 22866 22938 40326 40326 0.013814810348662832 VPEPDGHII 9 Unmodified _VPEPDGHII_ 0 0 0 ATP10D|p.R451Qfs*28|1|0.15|ENSG00000145246|chr4:47536893-47536908|CGAAGATGTAGTGTGG/-|frameshift_variant;ATP10D|p.G901Sfs*6|1|0.08|ENSG00000145246|chr4:47563612-47563613|-/AGTCAAA|frameshift_variant;nc|ENSG00000145246|Q9P241-2|ATP10D;ENSG00000145246|ENST00000273859|ATP10D ATP10D|p.R451Qfs*28|1|0.15|ENSG00000145246|chr4:47536893-47536908|CGAAGATGTAGTGTGG/-|frameshift_variant ATP10D|p.R451Qfs*28|1|0.15|ENSG00000145246|chr4:47536893-47536908|CGAAGATGTAGTGTGG/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.7610168457031 2 488.758549 975.502546 NaN NaN NaN NaN NaN NaN NaN 42.26 1 42.531 42.031 43.031 0.27021 0 0 0 0.097886 1 19273 19273 42.095 13.921 1 35907 79 22866 22938 40327 40327 0.013814810348662832 VPEQPVIAI 9 Unmodified _VPEQPVIAI_ 0 0 0 REV__nc|ENSG00000004846|Q2M3G0-1|ABCB5 REV__nc|ENSG00000004846|Q2M3G0-1|ABCB5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 965.5718383789062 1 965.566609 964.559333 3.7215 0.0035933 0.39158 0.0003781 4.113 0.0039714 965.5673815155308 67.714 0.22713 68.372 68.259 68.486 0.65777 17 12 2 0 0 0 0.136 1 31021 31021 27.629 2.2295 1 451320 + 35908 9918 22867 22939 40328 40328 0.07563528591379054 VPEQSAVTL 9 Unmodified _VPEQSAVTL_ 0 0 0 nc|ENSG00000165283|Q9UJZ1-2|STOML2;ENSG00000165283|ENST00000356493|STOML2 nc|ENSG00000165283|Q9UJZ1-2|STOML2 nc|ENSG00000165283|Q9UJZ1-2|STOML2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.2597961425781 2 472.258382 942.502212 2.6815 0.0012663 0.41865 0.00019771 3.1001 0.0014641 472.25847629102344 46.792 0.33942 46.792 46.603 46.943 0 20 11 2 0 0 0 0.136 1 21428 21428 27.629 4.8925 1 351440 35909 4386 22868 22940 40329 40329 0.028660613150123027 VPEQSAVTL 9 Unmodified _VPEQSAVTL_ 0 0 0 nc|ENSG00000165283|Q9UJZ1-2|STOML2;ENSG00000165283|ENST00000356493|STOML2 nc|ENSG00000165283|Q9UJZ1-2|STOML2 nc|ENSG00000165283|Q9UJZ1-2|STOML2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 472.259521484375 2 472.258382 942.502212 2.8355 0.0013391 0.31842 0.00015038 3.154 0.0014895 472.25832348718893 45.936 0.29532 46.762 46.692 46.987 0.82621 20 14 2 0 0 0 0.093314 1 20935 20935 34.402 9.7278 1 706390 35910 4386 22868 22940 40330 40330 0.028660613150123027 VPEQSAVTL 9 Unmodified _VPEQSAVTL_ 0 0 0 nc|ENSG00000165283|Q9UJZ1-2|STOML2;ENSG00000165283|ENST00000356493|STOML2 nc|ENSG00000165283|Q9UJZ1-2|STOML2 nc|ENSG00000165283|Q9UJZ1-2|STOML2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.2595520019531 2 472.258382 942.502212 3.2901 0.0015538 -0.038121 -1.8003E-05 3.252 0.0015358 472.25820294812945 46.173 0.31226 46.824 46.567 46.879 0.65104 15 9 2 0 0 0 0.30982 1 21116 21116 16.149 1.3108 1 456670 35911 4386 22868 22940 40331 40331 0.028660613150123027 VPERKSSL 8 Unmodified _VPERKSSL_ 0 0 0 nc|ENSG00000188158|Q6T4R5-4|NHS;nc|ENSG00000188158|Q6T4R5-3|NHS;nc|ENSG00000188158|Q6T4R5-2|NHS;ENSG00000188158|ENST00000676302|NHS;nc|ENSG00000204131|Q5HYW2-2|NHSL2;ENSG00000204131|ENST00000633930|NHSL2;nc|ENSG00000135540|Q5SYE7|NHSL1;ENSG00000135540|ENST00000343505|NHSL1 nc|ENSG00000188158|Q6T4R5-4|NHS;ENSG00000135540|ENST00000343505|NHSL1 ENSG00000135540|ENST00000343505|NHSL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 305.84765625 3 305.846787 914.51853 1.69 0.00051687 0.81004 0.00024775 2.5 0.00076462 305.8470554245052 13.262 0.20133 13.569 13.426 13.627 0.30727 23 14 2 0 0 0 0.72385 1 5991 5991 3.9444 1.2092 1 107410 35912 5655;2879 22869 22941 40332 40332 0.05785187271760606 VPERQQHIAR 10 Unmodified _VPERQQHIAR_ 0 0 0 ENSG00000198909|ENST00000361733|MAP3K3;nc|ENSG00000198909|Q99759-2|MAP3K3 ENSG00000198909|ENST00000361733|MAP3K3 ENSG00000198909|ENST00000361733|MAP3K3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 617.3436279296875 2 617.344178 1232.6738 NaN NaN NaN NaN NaN NaN NaN 76.29 1 76.547 76.047 77.047 0.25704 0 0 0 0.99774 1 35123 35123 3.5965 0 1 35913 5960 22870 22942 40333 40333 0.06677231126036531 VPFIKCPK 8 Unmodified _VPFIKCPK_ 0 0 0 L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|21|3|sense L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|21|3|sense L1M4_dup1625|chr2:34727516-34728049:+|1.2440524022529869|0.0543466937122063|4.52|526.0|21|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 466.2736511230469 2 466.275324 930.536095 NaN NaN NaN NaN NaN NaN NaN 48.726 1 49.381 48.881 49.881 0.65524 0 0 0 0.99035 1 22294 22294 5.7604 0 1 35914 9429 22871 22943 40334 40334 0.06804811273048017 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 576.3707885742188 2 576.368601 1150.72265 NaN NaN NaN NaN NaN NaN NaN 35.28 1 35.28 34.78 35.78 0 0 0 0 1.0003 1 16006 16006 1.4819 0 1 35915 4991 22872 22944 40335 40335 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 384.5827941894531 3 384.581493 1150.72265 2.4246 0.00093246 1.1765 0.00045246 3.6011 0.0013849 384.5818401271388 31.893 0.22971 32.681 32.562 32.791 0.78795 55 20 4 0 0 0 0.90196 1 14438 14438 1.7423 0.67081 1 4964400 35916 4991 22872 22944 40336 40336 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 384.583251953125 3 384.581493 1150.72265 3.1252 0.0012019 1.153 0.00044344 4.2783 0.0016453 384.58183417307924 32.413 0.2535 32.668 32.526 32.78 0.25452 52 15 4 0 0 0 0.90196 2 14715 14715;14766 1.7423 1.5064 1 9824300 35917 4991 22872 22944 40337;40338 40337 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.3711547851562 2 576.368601 1150.72265 3.6008 0.0020754 0.95493 0.00055039 4.5557 0.0026258 576.3688169577546 32.411 0.24174 32.666 32.538 32.78 0.25452 32 14 4 0 0 0 0.93713 1 14733 14733 1.4819 1.4819 1 2347800 35918 4991 22872 22944 40339 40339 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 384.9173889160156 3 384.581493 1150.72265 2.8215 0.0010851 1.0012 0.00038505 3.8227 0.0014702 384.5819369624671 34.729 0.39311 34.983 34.728 35.121 0.25389 54 21 3 0 0 0 0.90196 2 15779 15779;15826 1.7423 1.7423 1 11370000 35919 4991 22872 22944 40340;40341 40340 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.3712768554688 2 576.368601 1150.72265 3.2974 0.0019005 1.3981 0.00080581 4.6955 0.0027063 576.8707918814348 34.719 0.16188 34.973 34.855 35.017 0.25389 11 7 2 0 0 0 0.93713 1 15800 15800 1.4819 0 1 1141700 35920 4991 22872 22944 40342 40342 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 576.3720703125 2 576.368601 1150.72265 3.6273 0.0020907 1.0686 0.00061591 4.6959 0.0027066 576.3692919082904 32.426 0.2654 33.045 32.948 33.214 0.61831 21 12 2 0 0 0 0.93713 1 14846 14846 1.4819 0 1 769030 35921 4991 22872 22944 40343 40343 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 384.58294677734375 3 384.581493 1150.72265 2.7562 0.00106 1.1476 0.00044136 3.9039 0.0015014 384.581801036514 34.678 0.42458 35.301 35.115 35.539 0.62294 58 34 3 0 0 0 0.90196 1 15924 15924 1.7423 1.5064 1 4896300 35922 4991 22872 22944 40344 40344 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 384.5830993652344 3 384.581493 1150.72265 2.7822 0.00107 0.93695 0.00036033 3.7191 0.0014303 384.58188722350786 34.943 0.051971 35.566 35.539 35.591 0.62294 6 5 2 0 0 0 0.93713 1 16016 16016 0.62683 0.62683 1 1278700 35923 4991 22872 22944 40345 40345 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 384.5836181640625 3 384.581493 1150.72265 3.0101 0.0011576 1.1193 0.00043046 4.1294 0.0015881 384.58191961089 39.94 0.38724 40.581 40.385 40.772 0.64136 22 15 2 0 0 0 0.90196 1 18275 18275 1.7423 0.14999 1 1252800 35924 4991 22872 22944 40346 40346 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 384.2145690917969 3 384.581493 1150.72265 2.809 0.0010803 0.55825 0.00021469 3.3672 0.001295 384.581947131065 56.057 0.40964 56.725 56.368 56.778 0.66829 20 17 2 0 0 0 0.12676 1 25481 25481 3.5871 0 1 410440 35925 4991 22872 22944 40347 40347 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 384.5833435058594 3 384.581493 1150.72265 2.7185 0.0010455 1.0275 0.00039515 3.746 0.0014406 384.5818978105269 34.374 0.46794 34.997 34.82 35.288 0.62294 44 17 4 0 0 0 0.12676 1 15832 15832 0.62683 0 1 6638200 35926 4991 22872 22944 40348 40348 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 384.581493 1150.72265 2.787 0.0010718 -0.46366 -0.00017831 2.3233 0.00089351 384.58115758387856 56.813 0.058029 56.813 56.795 56.854 0 0.044141 -0.00064197 NaN 3.5871 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 429850 35927 4991 22872 22944 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 384.581493 1150.72265 2.7488 0.0010571 1.2523 0.00048161 4.0011 0.0015387 384.58179735350285 40.481 0.21807 40.481 40.311 40.529 0 -0.065137 3.7718E-05 NaN 1.7423 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 757930 35928 4991 22872 22944 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 384.581493 1150.72265 2.4885 0.00095702 1.5335 0.00058976 4.022 0.0015468 384.5820200141735 34.992 0.33878 34.992 34.81 35.148 0 -0.076504 0.00026107 NaN 0.62683 48 25 2 NaN NaN NaN NaN 0 NaN NaN 0 8152900 35929 4991 22872 22944 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 384.581493 1150.72265 2.6112 0.0010042 1.5866 0.00061017 4.1978 0.0016144 384.5819586018408 35.807 0.75099 35.807 35.643 36.394 0 0.12451 0.00011921 NaN 0.62683 94 40 4 NaN NaN NaN NaN 0 NaN NaN 0 6355200 35930 4991 22872 22944 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 384.581493 1150.72265 2.2962 0.00088308 1.4131 0.00054346 3.7093 0.0014265 384.58205917550487 34.215 0.39796 35.004 34.73 35.128 0.78921 -0.091848 0.00024433 NaN 1.7423 68 22 4 NaN NaN NaN NaN 0 NaN NaN 0 3895000 35931 4991 22872 22944 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 384.581493 1150.72265 2.4952 0.00095962 1.3195 0.00050745 3.8147 0.0014671 384.5818126511293 39.777 0.32613 40.577 40.428 40.754 0.80014 0.030384 0.00011526 NaN 1.7423 19 15 3 NaN NaN NaN NaN 0 NaN NaN 0 263580 35932 4991 22872 22944 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 384.581493 1150.72265 2.4788 0.0009533 1.6636 0.00063979 4.1424 0.0015931 384.5820151968717 34.868 0.46229 35.657 35.517 35.979 0.78921 -0.025193 0.00020809 NaN 0.62683 92 30 4 NaN NaN NaN NaN 0 NaN NaN 0 3688200 35933 4991 22872 22944 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 576.368601 1150.72265 3.6008 0.0020754 0.95493 0.00055039 4.5557 0.0026258 576.3688169577546 32.411 0.24174 32.666 32.538 32.78 0.25452 -0.18947 -5.2449E-05 NaN 1.4819 32 14 4 NaN NaN NaN NaN 0 NaN NaN 0 2347800 35934 4991 22872 22944 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 384.581493 1150.72265 2.8137 0.0010821 1.4216 0.00054671 4.2353 0.0016288 384.5819316098087 35.445 0.65495 35.7 35.509 36.164 0.25524 0.017455 -7.1147E-05 NaN 0.62683 80 22 5 NaN NaN NaN NaN 0 NaN NaN 0 7623100 35935 4991 22872 22944 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 576.368601 1150.72265 3.643 0.0020997 0.21138 0.00012183 3.8544 0.0022216 576.8704580579245 34.378 0.11116 35.001 34.94 35.051 0.62294 0.013705 -0.00066341 NaN 1.4819 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 386630 35936 4991 22872 22944 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 384.581493 1150.72265 2.7571 0.0010603 1.7197 0.00066137 4.4768 0.0017217 384.58199805932907 31.666 0.33388 32.283 32.095 32.429 0.61737 -0.2608 0.00042585 NaN 1.7423 95 29 4 NaN NaN NaN NaN 0 NaN NaN 0 10559000 35937 4991 22872 22944 0.15331751433086538 VPFKLKLHGI 10 Unmodified _VPFKLKLHGI_ 0 0 0 nc|ENSG00000174611|Q8NBH2-3|KY;ENSG00000174611|ENST00000423778|KY nc|ENSG00000174611|Q8NBH2-3|KY nc|ENSG00000174611|Q8NBH2-3|KY MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 384.581493 1150.72265 2.7822 0.00107 0.93695 0.00036033 3.7191 0.0014303 384.58188722350786 34.943 0.051971 35.566 35.539 35.591 0.62294 -0.11678 -0.00063029 NaN 0.62683 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 1278700 35938 4991 22872 22944 0.15331751433086538 VPFLAGVHLG 10 Unmodified _VPFLAGVHLG_ 0 0 0 REV__ENSG00000124215|ENST00000348616|CDH26 REV__ENSG00000124215|ENST00000348616|CDH26 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.2976989746094 2 505.295102 1008.57565 NaN NaN NaN NaN NaN NaN NaN 33.433 1 34.053 33.553 34.553 0.62031 0 0 0 0.98473 1 15322 15322 7.9102 0.62092 1 + 35939 11645 22873 22945 40349 40349 0.07170654548156108 VPFLGRPR 8 Unmodified _VPFLGRPR_ 0 0 0 REV__ENST00000471073.1_1_22:21355412-21355511:-|nuORF REV__ENST00000471073.1_1_22:21355412-21355511:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 314.71295166015625 3 314.5275 940.56067 2.0689 0.00065074 -0.84767 -0.00026662 1.2213 0.00038412 314.52722918936547 39.378 0.26241 39.378 39.23 39.492 0 16 9 2 0 0 0 0.14313 1 17830 17830 1.6526 0 1 438240 + 35940 16597 22874 22946 40350 40350 0.08801207470799 VPFLPGRVPAL 11 Unmodified _VPFLPGRVPAL_ 0 0 0 REV__nc|ENSG00000289604|P0CG41|CTAGE8 REV__nc|ENSG00000289604|P0CG41|CTAGE8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.25494384765625 3 389.241248 1164.70191 2.8564 0.0011118 0.86012 0.00033479 3.7165 0.0014466 389.24162971221654 39.419 0.35872 39.686 39.409 39.767 0.26696 19 13 2 0 0 0 0.91068 1 17899 17899 1.3296 1.3296 1 254220 + 35941 14715 22875 22947 40351 40351 0.12615161053417978 VPFPRLHFF 9 Unmodified _VPFPRLHFF_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;ENSG00000261456|ENST00000568584|TUBB8;ENSG00000173213|ENST00000308911|TUBB8B;ENSG00000101162|ENST00000217133|TUBB1;CON__ENSEMBL:ENSBTAP00000025008;ENST00000518096.1_1_8:30210219-30210855:+|nuORF;ENST00000290377.9_1_9:141071128-141071713:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.5541076660156 3 387.218555 1158.63383 2.6187 0.001014 -0.31063 -0.00012028 2.3081 0.00089373 387.2183717287488 72.059 0.45109 72.317 72.139 72.59 0.25876 92 42 3 0 0 0 0.78763 1 33076 33076 7.609 3.4194 1 961950 35942 5660;6301;1452 22876 22948 40352 40352 0.06086336193425268 VPFPRLHFF 9 Unmodified _VPFPRLHFF_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;ENSG00000261456|ENST00000568584|TUBB8;ENSG00000173213|ENST00000308911|TUBB8B;ENSG00000101162|ENST00000217133|TUBB1;CON__ENSEMBL:ENSBTAP00000025008;ENST00000518096.1_1_8:30210219-30210855:+|nuORF;ENST00000290377.9_1_9:141071128-141071713:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.2197570800781 3 387.218555 1158.63383 2.1375 0.00082769 0.46487 0.00018 2.6024 0.0010077 387.2186288680917 71.826 0.54405 72.489 72.128 72.673 0.66324 55 34 2 0 0 0 0.55815 1 32879 32879 11.495 8.4224 1 747410 35943 5660;6301;1452 22876 22948 40353 40353 0.06086336193425268 VPFSKRYL 8 Unmodified _VPFSKRYL_ 0 0 0 RPL22|p.Y90Ifs*6|1|0.27|ENSG00000116251|chr1:6186791-6186792|-/T|frameshift_variant;ENSG00000116251|ENST00000234875|RPL22;RPL22|p.L86P|1|0.15|ENSG00000116251|chr1:6186802-6186802|A/G|missense_variant;ENST00000484916.1_1_14:19468684-19468777:+|nuORF RPL22|p.Y90Ifs*6|1|0.27|ENSG00000116251|chr1:6186791-6186792|-/T|frameshift_variant RPL22|p.Y90Ifs*6|1|0.27|ENSG00000116251|chr1:6186791-6186792|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.7845458984375 2 505.295102 1008.57565 NaN NaN NaN NaN NaN NaN NaN 33.377 1 33.997 33.497 34.497 0.62031 0 0 0 0.86133 1 15297 15297 14.838 2.3067 1 35944 2021 22877 22949 40354 40354 0.07170654548144739 VPFTNKWQYF 10 Unmodified _VPFTNKWQYF_ 0 0 0 REV__ENST00000316170.7_2_6:10556796-10556856:+|nuORF REV__ENST00000316170.7_2_6:10556796-10556856:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 665.336669921875 2 665.334956 1328.65536 NaN NaN NaN NaN NaN NaN NaN 26.933 1 26.933 26.433 27.433 0 0 0 0 0.99983 1 12130 12130 1.8442 0 1 + 35945 15293 22878 22950 40355 40355 0.004176764314706816 VPGAEHLWKDR 11 Unmodified _VPGAEHLWKDR_ 0 0 0 REV__ENST00000372490.3_1_9:131971546-131971918:+|nuORF REV__ENST00000372490.3_1_9:131971546-131971918:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 654.3486328125 2 654.346386 1306.67822 NaN NaN NaN NaN NaN NaN NaN 73.908 1 74.572 74.072 75.072 0.6644 0 0 0 0.99968 1 34006 34006 6.7232 2.7788 1 + 35946 15754 22879 22951 40356 40356 0.037146955489106404 VPGAQKRRHKP 11 Unmodified _VPGAQKRRHKP_ 0 0 0 nc|ENSG00000272395|K9M1U5-4|IFNL4;nc|ENSG00000272395|K9M1U5-3|IFNL4;nc|ENSG00000272395|K9M1U5|IFNL4 nc|ENSG00000272395|K9M1U5-4|IFNL4 nc|ENSG00000272395|K9M1U5-4|IFNL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 637.3811645507812 2 637.383637 1272.75272 NaN NaN NaN NaN NaN NaN NaN 61.315 1 62.054 61.554 62.554 0.7396 0 0 0 1.0055 1 28413 28413 3.5965 0 1 35947 9864 22880 22952 40357 40357 0.12725503150977602 VPGATQYRIIV 11 Unmodified _VPGATQYRIIV_ 0 0 0 ENSG00000114270|ENST00000681320|COL7A1;nc|ENSG00000114270|Q02388-2|COL7A1 ENSG00000114270|ENST00000681320|COL7A1 ENSG00000114270|ENST00000681320|COL7A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 608.9418334960938 2 608.856055 1215.69756 NaN NaN NaN NaN NaN NaN NaN 74.639 1 75.304 74.804 75.804 0.6644 0 0 0 1.0034 1 34364 34364 6.2058 0.47393 1 35948 1894 22881 22953 40358 40358 0.09833651839835511 VPGDPTFV 8 Unmodified _VPGDPTFV_ 0 0 0 REV__ENSG00000140678|ENST00000268296|ITGAX REV__ENSG00000140678|ENST00000268296|ITGAX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 416.2168884277344 2 416.215986 830.417419 2.7894 0.001161 0.19755 8.2224E-05 2.9869 0.0012432 416.215644883594 62.544 0.41673 63.204 62.998 63.415 0.66008 57 26 3 0 0 0 0.74071 1 28690 28690 2.5775 0 1 2668800 + 35949 12261 22882 22954 40359 40359 -0.004572644309405405 VPGEVAEPLG 10 Unmodified _VPGEVAEPLG_ 0 0 0 ENSG00000132688|ENST00000368223|NES ENSG00000132688|ENST00000368223|NES ENSG00000132688|ENST00000368223|NES MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.7593994140625 2 484.258382 966.502212 3.3775 0.0016356 0.074615 3.6133E-05 3.4521 0.0016717 484.2588469220839 40.856 0.11435 41.5 41.398 41.513 0.64451 8 5 2 0 0 0 0.12236 1 18673 18673 11.64 0 1 644830 35950 2721 22883 22955 40360 40360 0.017620613150029385 VPGGPEWWD 9 Unmodified _VPGGPEWWD_ 0 0 0 REV__ENST00000497548.5_1_17:19459198-19470111:+|nuORF REV__ENST00000497548.5_1_17:19459198-19470111:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.7339477539062 2 521.735074 1041.4556 NaN NaN NaN NaN NaN NaN NaN 65.466 1 66.175 65.675 66.675 0.70891 0 0 0 0.7971 1 30969 30969 9.3474 0 1 + 35951 16860 22884 22956 40361 40361 -0.06347378516284152 VPGGPMERFHH 11 Unmodified _VPGGPMERFHH_ 0 0 0 REV__ENSG00000262406|ENST00000571244|MMP12 REV__ENSG00000262406|ENST00000571244|MMP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.304931640625 2 632.306207 1262.59786 NaN NaN NaN NaN NaN NaN NaN 63.039 1 63.761 63.261 64.261 0.72236 0 0 0 0.99968 1 29491 29491 6.7232 2.3939 1 + 35952 14699 22885 22957 40362 40362 -0.022934890457463553 VPGGRFISM 9 Unmodified _VPGGRFISM_ 0 0 0 nc|ENSG00000284753|P0DPD7|EEF1AKMT4 nc|ENSG00000284753|P0DPD7|EEF1AKMT4 nc|ENSG00000284753|P0DPD7|EEF1AKMT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 482.2598571777344 2 482.257662 962.500772 NaN NaN NaN NaN NaN NaN NaN 67.247 1 67.247 66.747 67.747 0 0 0 0 0.7971 1 32210 32210 9.3474 0.75416 1 35953 9873 22886 22958 40363 40363 0.018021487452529072 VPGPGPTQ 8 Unmodified _VPGPGPTQ_ 0 0 0 REV__ENST00000357814.7_2_17:72767432-72767837:-|nuORF REV__ENST00000357814.7_2_17:72767432-72767837:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.7015075683594 2 376.700503 751.386454 2.9197 0.0010999 0.30193 0.00011374 3.2216 0.0012136 376.7005154387856 26.784 0.25323 26.784 26.663 26.916 0 30 16 3 0 0 0 0.70799 1 12053 12053 5.2307 0 1 969500 + 35954 15573 22887 22959 40364 40364 0.0008158225481338377 VPGRPPAP 8 Unmodified _VPGRPPAP_ 0 0 0 ENST00000373672.7_1_1:32169520-32169694:-|nuORF ENST00000373672.7_1_1:32169520-32169694:-|nuORF ENST00000373672.7_1_1:32169520-32169694:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 790.2030029296875 1 790.456999 789.449723 3.3839 0.0026748 -4.3191 -0.0034141 -0.93522 -0.00073925 790.4503396852332 107.33 0.12237 107.33 107.25 107.37 0 7 4 3 0 0 0 0.14249 1 58839 58839 0.79363 0 1 583760 35955 7366 22888 22960 40365 40365 0.046575677626947254 VPGRSPGLPI 10 Unmodified _VPGRSPGLPI_ 0 0 0 ENSG00000165478|ENST00000298251|HEPACAM ENSG00000165478|ENST00000298251|HEPACAM ENSG00000165478|ENST00000298251|HEPACAM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.8001403808594 2 496.798009 991.581465 3.1931 0.0015863 0.99728 0.00049545 4.1904 0.0020818 496.79812557402 28.946 0.25851 29.564 29.486 29.744 0.61789 38 21 3 0 0 0 0.48762 1 13322 13322 25.399 3.6527 1 841850 35956 4401 22889 22961 40366 40366 0.08533753059816718 VPHDAPFAL 9 Unmodified _VPHDAPFAL_ 0 0 0 REV__nc|ENSG00000123179|Q9BY08-3|EBPL REV__nc|ENSG00000123179|Q9BY08-3|EBPL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.7593994140625 2 483.75581 965.497067 NaN NaN NaN NaN NaN NaN NaN 40.846 1 41.49 40.99 41.99 0.64451 0 0 0 0.22092 1 18673 18673 30.225 3.3412 1 + 35957 17915 22890 22962 40367 40367 0.012938022430262208 VPHDGATQSLI 11 Unmodified _VPHDGATQSLI_ 0 0 0 REV__ENST00000541641.5_2_11:71761855-71791586:-|nuORF REV__ENST00000541641.5_2_11:71761855-71791586:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.8699035644531 3 379.868139 1136.58259 2.1567 0.00081924 1.1782 0.00044756 3.3349 0.0012668 379.8684270488518 13.194 0.18925 13.438 13.32 13.509 0.24346 28 13 3 0 0 0 0.66009 1 5730 5730 10.315 0 1 352700 + 35958 15957 22891 22963 40368 40368 0.01975922638052907 VPHDLQLL 8 Unmodified _VPHDLQLL_ 0 0 0 REV__ENSG00000187045|ENST00000676104|TMPRSS6 REV__ENSG00000187045|ENST00000676104|TMPRSS6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 467.77325439453125 2 467.77146 933.528367 2.8579 0.0013369 0.19914 9.315E-05 3.0571 0.00143 467.77143666654575 65.129 0.27235 65.377 65.207 65.479 0.24803 22 11 3 0 0 0 0.10141 1 29826 29826 53.576 2.7205 1 729900 + 35959 14082 22892 22964 40369 40369 0.05894375277148356 VPHDLQLL 8 Unmodified _VPHDLQLL_ 0 0 0 REV__ENSG00000187045|ENST00000676104|TMPRSS6 REV__ENSG00000187045|ENST00000676104|TMPRSS6 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 467.77146 933.528367 2.8579 0.0013369 0.19914 9.315E-05 3.0571 0.00143 467.77143666654575 65.129 0.27235 65.377 65.207 65.479 0.24803 0.10921 -5.2753E-05 NaN 53.576 22 11 3 NaN NaN NaN NaN 0 NaN NaN 0 729900 + 35960 14082 22892 22964 0.05894375277148356 VPHDLQLL 8 Unmodified _VPHDLQLL_ 0 0 0 REV__ENSG00000187045|ENST00000676104|TMPRSS6 REV__ENSG00000187045|ENST00000676104|TMPRSS6 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 467.77146 933.528367 2.9566 0.001383 0.29387 0.00013747 3.2505 0.0015205 467.77144560681404 64.502 0.25929 65.159 65.035 65.294 0.65672 -0.10921 3.5877E-05 NaN 53.576 21 10 3 NaN NaN NaN NaN 0 NaN NaN 0 863500 + 35961 14082 22892 22964 0.05894375277148356 VPHFHHEL 8 Unmodified _VPHFHHEL_ 0 0 0 nc|ENSG00000150593|Q53EL6-2|PDCD4;ENSG00000150593|ENST00000280154|PDCD4 nc|ENSG00000150593|Q53EL6-2|PDCD4 nc|ENSG00000150593|Q53EL6-2|PDCD4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 339.5107421875 3 339.175126 1014.50355 2.2655 0.0007684 0.097383 3.303E-05 2.3629 0.00080143 339.17518217543375 18.156 0.23638 18.457 18.352 18.588 0.30158 39 27 2 0 0 0 0.68261 2 8243 8199;8243 7.2892 2.96 1 250410 35962 3670 22893 22965 40370;40371 40371 -0.0031225980557110233 VPHFHHEL 8 Unmodified _VPHFHHEL_ 0 0 0 nc|ENSG00000150593|Q53EL6-2|PDCD4;ENSG00000150593|ENST00000280154|PDCD4 nc|ENSG00000150593|Q53EL6-2|PDCD4 nc|ENSG00000150593|Q53EL6-2|PDCD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.17596435546875 3 339.175126 1014.50355 NaN NaN NaN NaN NaN NaN NaN 17.917 1 18.578 18.078 19.078 0.66072 0 0 0 0.92256 1 8097 8097 10.824 1.4408 1 35963 3670 22893 22965 40372 40372 -0.0031225980557110233 VPHLETDMM 9 Unmodified _VPHLETDMM_ 0 0 0 ENST00000595136.5_1_19:15512010-15528452:-|nuORF;ENST00000601147.2_1_19:15514284-15529746:-|nuORF;AKAP8L|p.G343Afs*10|1|0.3|ENSG00000011243|chr19:15400315-15400315|C/-|frameshift_variant;ENST00000594893.5_1_19:15511079-15529746:-|nuORF;ENST00000593845.5_1_19:15510111-15529746:-|nuORF;ENSG00000011243|ENST00000397410|AKAP8L ENST00000595136.5_1_19:15512010-15528452:-|nuORF ENST00000595136.5_1_19:15512010-15528452:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.7454833984375 2 536.743728 1071.4729 3.1001 0.001664 0.17723 9.5129E-05 3.2773 0.0017591 536.7435766226932 48.826 0.26729 48.826 48.629 48.896 0 32 15 3 0 0 0 0.11001 1 22354 22354 30.225 17.693 1 751470 35964 21 22894 22966 40373 40373 -0.05997542297154723 VPHLETDMM 9 Unmodified _VPHLETDMM_ 0 0 0 ENST00000595136.5_1_19:15512010-15528452:-|nuORF;ENST00000601147.2_1_19:15514284-15529746:-|nuORF;AKAP8L|p.G343Afs*10|1|0.3|ENSG00000011243|chr19:15400315-15400315|C/-|frameshift_variant;ENST00000594893.5_1_19:15511079-15529746:-|nuORF;ENST00000593845.5_1_19:15510111-15529746:-|nuORF;ENSG00000011243|ENST00000397410|AKAP8L ENST00000595136.5_1_19:15512010-15528452:-|nuORF ENST00000595136.5_1_19:15512010-15528452:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.7463989257812 2 536.743728 1071.4729 3.0202 0.0016211 -0.90895 -0.00048787 2.1113 0.0011332 536.7428887360907 47.688 0.25194 48.517 48.39 48.642 0.82915 22 11 3 0 0 0 0.11001 1 21724 21724 30.225 17.693 1 647600 35965 21 22894 22966 40374 40374 -0.05997542297154723 VPHLETDMM 9 Unmodified _VPHLETDMM_ 0 0 0 ENST00000595136.5_1_19:15512010-15528452:-|nuORF;ENST00000601147.2_1_19:15514284-15529746:-|nuORF;AKAP8L|p.G343Afs*10|1|0.3|ENSG00000011243|chr19:15400315-15400315|C/-|frameshift_variant;ENST00000594893.5_1_19:15511079-15529746:-|nuORF;ENST00000593845.5_1_19:15510111-15529746:-|nuORF;ENSG00000011243|ENST00000397410|AKAP8L ENST00000595136.5_1_19:15512010-15528452:-|nuORF ENST00000595136.5_1_19:15512010-15528452:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.9951782226562 2 536.743728 1071.4729 3.1543 0.0016931 -0.17443 -9.3625E-05 2.9799 0.0015994 536.7438800670384 48.611 0.23692 48.873 48.762 48.999 0.2621 21 9 3 0 0 0 1.0692E-05 1 22211 22211 81.864 62.425 1 1089200 35966 21 22894 22966 40375 40375 -0.05997542297154723 VPHLETDMM 9 Unmodified _VPHLETDMM_ 0 0 0 ENST00000595136.5_1_19:15512010-15528452:-|nuORF;ENST00000601147.2_1_19:15514284-15529746:-|nuORF;AKAP8L|p.G343Afs*10|1|0.3|ENSG00000011243|chr19:15400315-15400315|C/-|frameshift_variant;ENST00000594893.5_1_19:15511079-15529746:-|nuORF;ENST00000593845.5_1_19:15510111-15529746:-|nuORF;ENSG00000011243|ENST00000397410|AKAP8L ENST00000595136.5_1_19:15512010-15528452:-|nuORF ENST00000595136.5_1_19:15512010-15528452:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.746337890625 2 536.743728 1071.4729 3.3341 0.0017896 0.14858 7.9752E-05 3.4827 0.0018693 536.7439019744608 48.022 0.29496 48.675 48.549 48.844 0.65356 29 10 4 0 0 0 0.035095 2 21981 21981;22039 53.576 35.441 1 951490 35967 21 22894 22966 40376;40377 40376 -0.05997542297154723 VPHTRPVSL 9 Unmodified _VPHTRPVSL_ 0 0 0 ENST00000412609.5_1_19:40170059-40174276:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.86700439453125 3 335.866181 1004.57671 2.4401 0.00081954 -0.32509 -0.00010919 2.115 0.00071035 335.86611306362755 23.156 0.23223 23.432 23.331 23.563 0.27562 50 39 2 0 0 0 0.01463 2 10461 10419;10461 75.571 34.846 1 4148200 35968 7681 22895 22967 40378;40379 40379 0.07460868917041807 VPHTRPVSL 9 Unmodified _VPHTRPVSL_ 0 0 0 ENST00000412609.5_1_19:40170059-40174276:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.2976379394531 2 503.295633 1004.57671 NaN NaN NaN NaN NaN NaN NaN 23.218 1 23.494 22.994 23.994 0.27562 0 0 0 0.044412 1 10483 10483 60.074 27.768 1 35969 7681 22895 22967 40380 40380 0.07460868917041807 VPHTRPVSL 9 Unmodified _VPHTRPVSL_ 0 0 0 ENST00000412609.5_1_19:40170059-40174276:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.86712646484375 3 335.866181 1004.57671 NaN NaN NaN NaN NaN NaN NaN 23.297 1 23.573 23.073 24.073 0.27562 0 0 0 0.12479 1 10524 10524 37.075 18.702 1 35970 7681 22895 22967 40381 40381 0.07460868917041807 VPHTRPVSL 9 Unmodified _VPHTRPVSL_ 0 0 0 ENST00000412609.5_1_19:40170059-40174276:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.86700439453125 3 335.866181 1004.57671 2.3041 0.00077387 0.43564 0.00014632 2.7397 0.00092019 335.86633332787017 22.598 0.27516 23.239 23.149 23.425 0.64051 60 34 3 0 0 0 0.039961 3 10316 10272;10316;10366 51.488 21.647 1 3747400 35971 7681 22895 22967 40382;40383;40384 40383 0.07460868917041807 VPHTRPVSL 9 Unmodified _VPHTRPVSL_ 0 0 0 ENST00000412609.5_1_19:40170059-40174276:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.2969055175781 2 503.295633 1004.57671 3.2383 0.0016298 0.61302 0.00030853 3.8514 0.0019384 503.29597361449095 22.619 0.20383 23.259 23.19 23.393 0.64051 41 24 2 0 0 0 0.01463 2 10282 10282;10334 72.968 46.084 1 2334600 35972 7681 22895 22967 40385;40386 40385 0.07460868917041807 VPILLILVTA 10 Unmodified _VPILLILVTA_ 0 0 0 ENSG00000178789|ENST00000392621|CD300LB ENSG00000178789|ENST00000392621|CD300LB ENSG00000178789|ENST00000392621|CD300LB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.244140625 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 29.904 1 30.693 30.193 31.193 0.78921 0 0 0 1.0015 1 13494 13494 0.13989 0 1 35973 5181 22896 22968 40387 40387 0.18194411107424457 VPILLILVTA 10 Unmodified _VPILLILVTA_ 0 0 0 ENSG00000178789|ENST00000392621|CD300LB ENSG00000178789|ENST00000392621|CD300LB ENSG00000178789|ENST00000392621|CD300LB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.2442321777344 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 31.193 1 31.45 30.95 31.95 0.25614 0 0 0 1.0015 1 14200 14200 0.13989 0 1 35974 5181 22896 22968 40388 40388 0.18194411107424457 VPILLYEV 8 Unmodified _VPILLYEV_ 0 0 0 REV__ENST00000464147.1_1_2:201776026-201778173:-|nuORF REV__ENST00000464147.1_1_2:201776026-201778173:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.289794921875 2 473.286411 944.55827 NaN NaN NaN NaN NaN NaN NaN 35.67 1 35.925 35.425 36.425 0.25524 0 0 0 0.99035 1 16248 16248 2.8892 0.31174 1 + 35975 11387 22897 22969 40389 40389 0.08377314222457244 VPILRKKKKK 10 Unmodified _VPILRKKKKK_ 0 0 0 LTR2B_dup5|chr1:46325548-46326039:-|1.2475397272416724|0.0581006227777169|4.42|483.0|15|3|sense LTR2B_dup5|chr1:46325548-46326039:-|1.2475397272416724|0.0581006227777169|4.42|483.0|15|3|sense LTR2B_dup5|chr1:46325548-46326039:-|1.2475397272416724|0.0581006227777169|4.42|483.0|15|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 619.0128784179688 2 619.445175 1236.8758 NaN NaN NaN NaN NaN NaN NaN 73.39 1 73.39 72.89 73.89 0 0 0 0 1.0015 1 35768 35768 0.45834 0.057624 1 35976 9500 22898 22970 40390 40390 0.26683366549536913 VPILSEEEL 9 Unmodified _VPILSEEEL_ 0 0 0 nc|ENSG00000135387|Q14444-2|CAPRIN1;ENSG00000135387|ENST00000341394|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1028.5469970703125 1 1028.55102 1027.54374 2.7799 0.0028593 0.12581 0.00012941 2.9058 0.0029887 1028.5502876216494 69.908 0.14469 69.908 69.857 70.002 0 26 15 2 0 0 0 0.0026885 2 33884 33829;33884 97.075 29.731 1 1541600 35977 2868 22899 22971 40391;40392 40392 0.031071972836798523 VPILSEEEL 9 Unmodified _VPILSEEEL_ 0 0 0 nc|ENSG00000135387|Q14444-2|CAPRIN1;ENSG00000135387|ENST00000341394|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.7791137695312 2 514.779148 1027.54374 2.5879 0.0013322 -0.35754 -0.00018405 2.2304 0.0011482 514.7791092820386 69.895 0.25409 69.895 69.826 70.08 0 43 29 2 0 0 0 0.015487 1 33834 33834 74.396 10.833 1 2729300 35978 2868 22899 22971 40393 40393 0.031071972836798523 VPILSEEEL 9 Unmodified _VPILSEEEL_ 0 0 0 nc|ENSG00000135387|Q14444-2|CAPRIN1;ENSG00000135387|ENST00000341394|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 514.78125 2 514.779148 1027.54374 3.5414 0.001823 0.078065 4.0186E-05 3.6194 0.0018632 514.779087530396 69.58 0.3606 69.834 69.659 70.02 0.25443 64 23 3 0 0 0 0.0039848 3 31863 31808;31863;31916 93.883 12.019 1 3970200 35979 2868 22899 22971 40394;40395;40396 40395 0.031071972836798523 VPILSEEEL 9 Unmodified _VPILSEEEL_ 0 0 0 nc|ENSG00000135387|Q14444-2|CAPRIN1;ENSG00000135387|ENST00000341394|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1028.55517578125 1 1028.55102 1027.54374 3.5162 0.0036166 1.8908 0.0019448 5.407 0.0055614 1028.5516138146638 69.558 0.42172 69.812 69.559 69.981 0.25443 52 27 3 0 0 0 1.324E-05 1 31867 31867 146.01 36.378 1 1269200 35980 2868 22899 22971 40397 40397 0.031071972836798523 VPILSEEEL 9 Unmodified _VPILSEEEL_ 0 0 0 nc|ENSG00000135387|Q14444-2|CAPRIN1;ENSG00000135387|ENST00000341394|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.7807006835938 2 514.779148 1027.54374 3.1789 0.0016364 -0.085157 -4.3837E-05 3.0938 0.0015926 514.7790660386298 69.109 0.35086 69.768 69.572 69.922 0.65924 64 24 3 0 0 0 0.0039848 3 31669 31623;31669;31711 93.883 12.019 1 3403400 35981 2868 22899 22971 40398;40399;40400 40399 0.031071972836798523 VPILSEEEL 9 Unmodified _VPILSEEEL_ 0 0 0 nc|ENSG00000135387|Q14444-2|CAPRIN1;ENSG00000135387|ENST00000341394|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 nc|ENSG00000135387|Q14444-2|CAPRIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1028.555419921875 1 1028.55102 1027.54374 3.3339 0.003429 0.7803 0.00080258 4.1142 0.0042316 1028.5511107112643 69.112 0.37438 69.772 69.58 69.954 0.65924 54 25 3 0 0 0 3.8618E-05 2 31671 31671;31715 137.59 27.956 1 1772000 35982 2868 22899 22971 40401;40402 40401 0.031071972836798523 VPISTKRSL 9 Unmodified _VPISTKRSL_ 0 0 0 REV__ENSG00000176208|ENST00000321990|ATAD5 REV__ENSG00000176208|ENST00000321990|ATAD5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.21075439453125 3 334.209836 999.60768 2.2185 0.00074143 0.95591 0.00031947 3.1744 0.0010609 334.2101780202047 17.067 0.63186 17.371 16.981 17.613 0.30438 121 53 3 0 0 0 1.0755 1 7793 7793 2.7352 0 1 222980 + 35983 13697 22900 22972 40403 40403 0.10786022231286552 VPIVIVKKKK 10 Unmodified _VPIVIVKKKK_ 0 0 0 REV__ENSG00000110799|ENST00000261405|VWF REV__ENSG00000110799|ENST00000261405|VWF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 576.7633666992188 2 576.415552 1150.81655 NaN NaN NaN NaN NaN NaN NaN 70.52 1 70.52 70.02 71.02 0 0 0 0 1.0015 1 34231 34231 0.45834 0.057624 1 + 35984 11213 22901 22973 40404 40404 0.24717470535347275 VPIVPLLSI 9 Unmodified _VPIVPLLSI_ 0 0 0 REV__nc|ENSG00000114650|Q12770-4|SCAP REV__nc|ENSG00000114650|Q12770-4|SCAP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.81866455078125 2 475.817879 949.621205 NaN NaN NaN NaN NaN NaN NaN 64.172 1 64.829 64.329 65.329 0.65672 0 0 0 0.89683 1 29417 29417 4.3292 0 1 + 35985 11327 22902 22974 40405 40405 0.1443788001053008 VPKHIEMF 8 Unmodified _VPKHIEMF_ 0 0 0 ENST00000343702.8_1_12:96052724-96052781:-|nuORF ENST00000343702.8_1_12:96052724-96052781:-|nuORF ENST00000343702.8_1_12:96052724-96052781:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 334.1820068359375 3 334.181001 999.521173 2.3995 0.00080188 0.085412 2.8543E-05 2.4849 0.00083042 334.1810147163048 50.65 0.54037 50.65 50.227 50.767 0 72 28 3 0 0 0 0.5438 1 23181 23181 13.906 4.5229 1 4279500 35986 7095 22903 22975 40406 40406 0.021393194050574493 VPKHIEMF 8 Unmodified _VPKHIEMF_ 0 0 0 ENST00000343702.8_1_12:96052724-96052781:-|nuORF ENST00000343702.8_1_12:96052724-96052781:-|nuORF ENST00000343702.8_1_12:96052724-96052781:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 334.1817321777344 3 334.181001 999.521173 2.3972 0.00080111 -0.37278 -0.00012458 2.0244 0.00067653 334.18088658837263 49.668 0.63459 50.491 50.001 50.636 0.82285 81 33 3 0 0 0 0.5438 2 22571 22571;22616 13.906 3.6513 1 2816900 35987 7095 22903 22975 40407;40408 40407 0.021393194050574493 VPKHIEMF 8 Unmodified _VPKHIEMF_ 0 0 0 ENST00000343702.8_1_12:96052724-96052781:-|nuORF ENST00000343702.8_1_12:96052724-96052781:-|nuORF ENST00000343702.8_1_12:96052724-96052781:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 334.1816711425781 3 334.181001 999.521173 2.3448 0.0007836 0.061652 2.0603E-05 2.4065 0.0008042 334.18104949799056 50.42 0.74634 50.681 50.162 50.909 0.26146 109 32 4 0 0 0 0.56084 2 23034 23034;23085 18.146 10.857 1 10782000 35988 7095 22903 22975 40409;40410 40409 0.021393194050574493 VPKHIEMF 8 Unmodified _VPKHIEMF_ 0 0 0 ENST00000343702.8_1_12:96052724-96052781:-|nuORF ENST00000343702.8_1_12:96052724-96052781:-|nuORF ENST00000343702.8_1_12:96052724-96052781:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 334.181884765625 3 334.181001 999.521173 2.3111 0.00077233 0.3372 0.00011269 2.6483 0.00088501 334.18114523047956 49.734 0.68996 50.392 49.952 50.642 0.65735 86 26 4 0 0 0 0.61796 2 22656 22656;22758 9.3831 2.0939 1 10861000 35989 7095 22903 22975 40411;40412 40411 0.021393194050574493 VPKIEKLK 8 Unmodified _VPKIEKLK_ 0 0 0 REV__ENSG00000214866|ENST00000399143|DCDC2C REV__ENSG00000214866|ENST00000399143|DCDC2C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.8243103027344 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 71.914 1 72.618 72.118 73.118 0.70386 0 0 0 0.92256 1 34574 34574 10.824 0 1 + 35990 14517 22904 22976 40413 40413 0.14868398242037983 VPKKLKMLAI 10 Unmodified _VPKKLKMLAI_ 0 0 0 REV__ENSG00000180210|ENST00000311907|F2 REV__ENSG00000180210|ENST00000311907|F2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 570.8804931640625 2 570.880487 1139.74642 NaN NaN NaN NaN NaN NaN NaN 26.924 1 27.189 26.689 27.689 0.26489 0 0 0 1.002 1 12235 12235 0 0 1 + 35991 13819 22905 22977 40414 40414 0.18213848875279837 VPKKPKRKKRR 11 Unmodified _VPKKPKRKKRR_ 0 0 0 ENST00000590548.5_1_19:11597897-11616622:-|nuORF;ENSG00000161914|ENST00000293771|ZNF653 ENST00000590548.5_1_19:11597897-11616622:-|nuORF ENST00000590548.5_1_19:11597897-11616622:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.4006652832031 3 474.328161 1419.96265 NaN NaN NaN NaN NaN NaN NaN 76.428 1 76.428 75.928 76.928 0 0 0 0 1.0082 1 37454 37454 0 0 1 35992 4108 22906 22978 40415 40415 0.2694716582395813 VPKKPKRKKRR 11 Unmodified _VPKKPKRKKRR_ 0 0 0 ENST00000590548.5_1_19:11597897-11616622:-|nuORF;ENSG00000161914|ENST00000293771|ZNF653 ENST00000590548.5_1_19:11597897-11616622:-|nuORF ENST00000590548.5_1_19:11597897-11616622:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.3278503417969 3 474.328161 1419.96265 NaN NaN NaN NaN NaN NaN NaN 76.756 1 76.756 76.256 77.256 0 0 0 0 1.0082 1 37622 37622 0 0 1 35993 4108 22906 22978 40416 40416 0.2694716582395813 VPKKPKRKKRR 11 Unmodified _VPKKPKRKKRR_ 0 0 0 ENST00000590548.5_1_19:11597897-11616622:-|nuORF;ENSG00000161914|ENST00000293771|ZNF653 ENST00000590548.5_1_19:11597897-11616622:-|nuORF ENST00000590548.5_1_19:11597897-11616622:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.50927734375 3 474.328161 1419.96265 NaN NaN NaN NaN NaN NaN NaN 75.519 1 76.183 75.683 76.683 0.6635 0 0 0 1.0082 1 36568 36568 0 0 1 35994 4108 22906 22978 40417 40417 0.2694716582395813 VPKKPKRKKRR 11 Unmodified _VPKKPKRKKRR_ 0 0 0 ENST00000590548.5_1_19:11597897-11616622:-|nuORF;ENSG00000161914|ENST00000293771|ZNF653 ENST00000590548.5_1_19:11597897-11616622:-|nuORF ENST00000590548.5_1_19:11597897-11616622:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.93017578125 3 474.328161 1419.96265 NaN NaN NaN NaN NaN NaN NaN 76.475 1 77.099 76.599 77.599 0.62397 0 0 0 1.0082 1 37070 37070 0.08335 0 1 35995 4108 22906 22978 40418 40418 0.2694716582395813 VPKKPKRKKRR 11 Unmodified _VPKKPKRKKRR_ 0 0 0 ENST00000590548.5_1_19:11597897-11616622:-|nuORF;ENSG00000161914|ENST00000293771|ZNF653 ENST00000590548.5_1_19:11597897-11616622:-|nuORF ENST00000590548.5_1_19:11597897-11616622:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.3379821777344 3 474.328161 1419.96265 NaN NaN NaN NaN NaN NaN NaN 75.326 1 75.583 75.083 76.083 0.25704 0 0 0 1.0079 1 34657 34657 0.45452 0 1 35996 4108 22906 22978 40419 40419 0.2694716582395813 VPKKPKRKKRR 11 Unmodified _VPKKPKRKKRR_ 0 0 0 ENST00000590548.5_1_19:11597897-11616622:-|nuORF;ENSG00000161914|ENST00000293771|ZNF653 ENST00000590548.5_1_19:11597897-11616622:-|nuORF ENST00000590548.5_1_19:11597897-11616622:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.3804626464844 3 474.328161 1419.96265 NaN NaN NaN NaN NaN NaN NaN 74.758 1 75.422 74.922 75.922 0.6644 0 0 0 1.0082 1 34423 34423 0.08335 0 1 35997 4108 22906 22978 40420 40420 0.2694716582395813 VPKKPKRKKRR 11 Unmodified _VPKKPKRKKRR_ 0 0 0 ENST00000590548.5_1_19:11597897-11616622:-|nuORF;ENSG00000161914|ENST00000293771|ZNF653 ENST00000590548.5_1_19:11597897-11616622:-|nuORF ENST00000590548.5_1_19:11597897-11616622:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.3269348144531 3 474.328161 1419.96265 NaN NaN NaN NaN NaN NaN NaN 74.919 1 75.583 75.083 76.083 0.6644 0 0 0 1.0082 1 34504 34504 0 0 1 35998 4108 22906 22978 40421 40421 0.2694716582395813 VPKKPKRKKRR 11 Unmodified _VPKKPKRKKRR_ 0 0 0 ENST00000590548.5_1_19:11597897-11616622:-|nuORF;ENSG00000161914|ENST00000293771|ZNF653 ENST00000590548.5_1_19:11597897-11616622:-|nuORF ENST00000590548.5_1_19:11597897-11616622:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.3281555175781 3 474.328161 1419.96265 NaN NaN NaN NaN NaN NaN NaN 76.376 1 77.04 76.54 77.54 0.66387 0 0 0 1.0082 1 35184 35184 0 0 1 35999 4108 22906 22978 40422 40422 0.2694716582395813 VPKLQLFDKRN 11 Unmodified _VPKLQLFDKRN_ 0 0 0 REV__nc|ENSG00000204936|Q8N6Q3-2|CD177 REV__nc|ENSG00000204936|Q8N6Q3-2|CD177 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 679.4012451171875 2 679.401161 1356.78777 NaN NaN NaN NaN NaN NaN NaN 57.397 1 58.066 57.566 58.566 0.66829 0 0 0 1.0073 1 26265 26265 1.1933 0 1 + 36000 18111 22907 22979 40423 40423 0.1236470116828059 VPKSALIP 8 Unmodified _VPKSALIP_ 0 0 0 ENSG00000138439|ENST00000392238|FAM117B ENSG00000138439|ENST00000392238|FAM117B ENSG00000138439|ENST00000392238|FAM117B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.7684326171875 2 412.765646 823.516739 NaN NaN NaN NaN NaN NaN NaN 36.435 1 36.692 36.192 37.192 0.25768 0 0 0 0.99035 1 16597 16597 0.79363 0 1 36001 3092 22908 22980 40424 40424 0.09792178253815109 VPKSRPRRSVA 11 Unmodified _VPKSRPRRSVA_ 0 0 0 ENSG00000110046|ENST00000377264|ATG2A;nc|ENSG00000110046|Q2TAZ0-3|ATG2A ENSG00000110046|ENST00000377264|ATG2A ENSG00000110046|ENST00000377264|ATG2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 626.8843994140625 2 626.88347 1251.75239 NaN NaN NaN NaN NaN NaN NaN 76.116 1 76.373 75.873 76.873 0.25704 0 0 0 1.0041 1 35041 35041 5.2969 1.7004 1 36002 1696 22909 22981 40425 40425 0.13658083431141677 VPKSVERI 8 Unmodified _VPKSVERI_ 0 0 0 REV__nc|ENSG00000157510|Q8TED9-2|AFAP1L1 REV__nc|ENSG00000157510|Q8TED9-2|AFAP1L1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 309.8597106933594 3 309.858915 926.554916 NaN NaN NaN NaN NaN NaN NaN 12.576 1 12.883 12.383 13.383 0.30727 0 0 0 0.99035 1 5672 5672 3.9444 0 1 + 36003 12804 22910 22982 40426 40426 0.0887006416847953 VPKTKEVV 8 Unmodified _VPKTKEVV_ 0 0 0 ENSG00000135862|ENST00000258341|LAMC1;LAMC1|p.C916Vfs*123|1|0.4|ENSG00000135862|chr1:183125494-183125494|C/-|frameshift_variant ENSG00000135862|ENST00000258341|LAMC1 ENSG00000135862|ENST00000258341|LAMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.2830505371094 2 450.28166 898.548768 2.6359 0.0011869 0.34347 0.00015466 2.9794 0.0013416 450.2815854206683 18.025 0.15759 18.327 18.187 18.345 0.30158 16 12 2 0 0 0 0.60101 1 8141 8141 13.906 3.0821 1 161740 36004 2904 22911 22983 40427 40427 0.09543545936946884 VPKTKEVV 8 Unmodified _VPKTKEVV_ 0 0 0 ENSG00000135862|ENST00000258341|LAMC1;LAMC1|p.C916Vfs*123|1|0.4|ENSG00000135862|chr1:183125494-183125494|C/-|frameshift_variant ENSG00000135862|ENST00000258341|LAMC1 ENSG00000135862|ENST00000258341|LAMC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.2834167480469 2 450.28166 898.548768 NaN NaN NaN NaN NaN NaN NaN 17.789 1 18.449 17.949 18.949 0.66072 0 0 0 0.36176 1 8035 8035 32.786 8.5757 1 36005 2904 22911 22983 40428 40428 0.09543545936946884 VPKWDWRSWRE 11 Unmodified _VPKWDWRSWRE_ 0 0 0 ENST00000340124.8_1_16:46964176-46964458:+|nuORF ENST00000340124.8_1_16:46964176-46964458:+|nuORF ENST00000340124.8_1_16:46964176-46964458:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 772.8897094726562 2 772.891492 1543.76843 NaN NaN NaN NaN NaN NaN NaN 60.152 1 60.901 60.401 61.401 0.74927 0 0 0 1.0071 1 27692 27692 1.4819 0.15237 1 36006 7061 22912 22984 40429 40429 0.018297448773409997 VPLFGWPL 8 Unmodified _VPLFGWPL_ 0 0 0 REV__ENST00000279147.8_1_11:69482037-69482220:-|nuORF REV__ENST00000279147.8_1_11:69482037-69482220:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.7701416015625 2 464.768189 927.521825 NaN NaN NaN NaN NaN NaN NaN 20.071 1 20.725 20.225 21.225 0.65346 0 0 0 0.99035 1 9112 9112 2.8892 0 1 + 36007 15084 22913 22985 40430 40430 0.055164821164112254 VPLGASKSSI 10 Unmodified _VPLGASKSSI_ 0 0 0 REV__nc|ENSG00000166833|Q8IVL1-8|NAV2 REV__nc|ENSG00000166833|Q8IVL1-8|NAV2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.7845458984375 2 479.782025 957.549496 3.0009 0.0014398 1.2351 0.0005926 4.2361 0.0020324 479.7826814115344 33.796 0.38216 34.416 34.195 34.577 0.62031 27 18 2 0 0 0 0.55057 1 15521 15521 19.257 6.2145 1 500190 + 36008 18028 22914 22986 40431 40431 0.06902340586009359 VPLHCDII 8 Carbamidomethyl (C) _VPLHC(Carbamidomethyl (C))DII_ VPLHC(1)DII VPLHC(43)DII 0 1 0 ENSG00000113272|ENST00000231198|THG1L ENSG00000113272|ENST00000231198|THG1L ENSG00000113272|ENST00000231198|THG1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 483.7582702636719 2 483.757495 965.500437 3.1514 0.0015245 -0.77635 -0.00037557 2.375 0.0011489 483.75726392689364 41.86 0.33649 41.86 41.66 41.997 0 55 30 3 0 0 0 0.20016 1 19049 19049 42.968 8.7807 1 3557000 36009 1842 22915 22987 40432 40432 42 0.016307290253962492 VPLHCDII 8 Carbamidomethyl (C) _VPLHC(Carbamidomethyl (C))DII_ VPLHC(1)DII VPLHC(43)DII 0 1 0 ENSG00000113272|ENST00000231198|THG1L ENSG00000113272|ENST00000231198|THG1L ENSG00000113272|ENST00000231198|THG1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.7588806152344 2 483.757495 965.500437 3.3489 0.0016201 -0.093793 -4.5373E-05 3.2551 0.0015747 483.75752273866874 41.533 0.35178 41.803 41.692 42.044 0.27021 49 17 4 0 0 0 0.20016 1 18949 18949 42.968 8.7807 1 3978700 36010 1842 22915 22987 40433 40433 42 0.016307290253962492 VPLHCDII 8 Carbamidomethyl (C) _VPLHC(Carbamidomethyl (C))DII_ 0 1 0 ENSG00000113272|ENST00000231198|THG1L ENSG00000113272|ENST00000231198|THG1L ENSG00000113272|ENST00000231198|THG1L MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 483.757495 965.500437 3.0605 0.0014805 -0.15491 -7.4941E-05 2.9056 0.0014056 483.75742310384004 40.942 0.17849 41.745 41.628 41.807 0.80351 -0.057504 0.00018536 NaN 42.968 31 19 2 NaN NaN NaN NaN 0 NaN NaN 0 2916000 36011 1842 22915 22987 42 0.016307290253962492 VPLHETPV 8 Unmodified _VPLHETPV_ 0 0 0 ENST00000296292.7_1_3:53125644-53125815:-|nuORF ENST00000296292.7_1_3:53125644-53125815:-|nuORF ENST00000296292.7_1_3:53125644-53125815:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 891.9299926757812 1 891.493444 890.486168 4.0197 0.0035836 -0.42774 -0.00038133 3.592 0.0032022 891.4937053649882 27.948 0.029779 27.948 27.922 27.952 0 4 2 2 0 0 0 0.14333 1 12588 12588 0.79363 0 1 221610 36012 6765 22916 22988 40434 40434 0.03654399868742075 VPLIGFAL 8 Unmodified _VPLIGFAL_ 0 0 0 REV__ENST00000377298.8_1_1:9789653-9789887:-|nuORF REV__ENST00000377298.8_1_1:9789653-9789887:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 415.2642517089844 2 415.262739 828.510926 3.1902 0.0013248 -0.79248 -0.00032909 2.3977 0.00099568 415.2626398472141 95.322 0.3072 95.937 95.811 96.118 0.61456 36 15 3 0 0 0 0.7471 1 43890 43890 0 0 1 835430 + 36013 15835 22917 22989 40435 40435 0.08981079742113707 VPLIGFAL 8 Unmodified _VPLIGFAL_ 0 0 0 REV__ENST00000377298.8_1_1:9789653-9789887:-|nuORF REV__ENST00000377298.8_1_1:9789653-9789887:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 415.262739 828.510926 3.6773 0.001527 -1.2274 -0.00050968 2.4499 0.0010174 415.2622942955921 95.438 0.3931 95.705 95.491 95.884 0.2675 -0.11579 -9.3677E-05 NaN 0 59 24 3 NaN NaN NaN NaN 0 NaN NaN 0 908570 + 36014 15835 22917 22989 0.08981079742113707 VPLIGFAL 8 Unmodified _VPLIGFAL_ 0 0 0 REV__ENST00000377298.8_1_1:9789653-9789887:-|nuORF REV__ENST00000377298.8_1_1:9789653-9789887:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 415.262739 828.510926 3.1902 0.0013248 -0.79248 -0.00032909 2.3977 0.00099568 415.2626398472141 95.322 0.3072 95.937 95.811 96.118 0.61456 0.11579 0.0002675 NaN 0 36 15 3 NaN NaN NaN NaN 0 NaN NaN 0 835430 + 36015 15835 22917 22989 0.08981079742113707 VPLILPQA 8 Unmodified _VPLILPQA_ 0 0 0 ENSG00000129173|ENST00000250024|E2F8 ENSG00000129173|ENST00000250024|E2F8 ENSG00000129173|ENST00000250024|E2F8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 425.7750244140625 2 425.773471 849.53239 NaN NaN NaN NaN NaN NaN NaN 62.768 1 63.426 62.926 63.926 0.65808 0 0 0 0.99035 1 28762 28762 0.69038 0 1 36016 2541 22918 22990 40436 40436 0.10160464770842736 VPLKETIKGF 10 Unmodified _VPLKETIKGF_ 0 0 0 ENSG00000110955|ENST00000262030|ATP5F1B ENSG00000110955|ENST00000262030|ATP5F1B ENSG00000110955|ENST00000262030|ATP5F1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 566.2133178710938 2 566.342249 1130.66995 NaN NaN NaN NaN NaN NaN NaN 80.617 1 80.785 80.285 81.285 0.16862 0 0 0 0.99687 1 39520 39520 4.3292 0.38484 1 36017 1737 22919 22991 40437 40437 0.1098374857961062 VPLKLHRIKI 10 Unmodified _VPLKLHRIKI_ 0 0 0 ENST00000372927.5_2_X:100356228-100357313:+|nuORF ENST00000372927.5_2_X:100356228-100357313:+|nuORF ENST00000372927.5_2_X:100356228-100357313:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 608.916259765625 2 608.91625 1215.81795 NaN NaN NaN NaN NaN NaN NaN 66.848 1 66.848 66.348 67.348 0 0 0 0 0.99983 1 31980 31980 1.8442 0.36234 1 36018 7347 22920 22992 40438 40438 0.21867104624107014 VPLKPPPQ 8 Unmodified _VPLKPPPQ_ 0 0 0 REV__ENST00000601258.1_1_19:8376391-8381552:-|nuORF REV__ENST00000601258.1_1_19:8376391-8381552:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 438.27337646484375 2 438.271096 874.527639 NaN NaN NaN NaN NaN NaN NaN 109.55 1 109.87 109.37 110.37 0.31015 0 0 0 0.99035 1 50501 50501 0.69038 0 1 + 36019 17639 22921 22993 40439 40439 0.08535580628085881 VPLLLMILKPV 11 Unmodified _VPLLLMILKPV_ 0 0 0 OMA1|p.F477Ifs*10|1|0.05|ENSG00000162600|chr1:58481111-58481112|-/T|frameshift_variant;nc|ENSG00000162600|Q96E52-2|OMA1;OMA1|p.L476Hfs*21|1|0.05|ENSG00000162600|chr1:58481113-58481114|-/AAATTTATGAGACACAAGATATATGAAGAAT|frameshift_variant;ENSG00000162600|ENST00000371226|OMA1 OMA1|p.F477Ifs*10|1|0.05|ENSG00000162600|chr1:58481111-58481112|-/T|frameshift_variant OMA1|p.F477Ifs*10|1|0.05|ENSG00000162600|chr1:58481111-58481112|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 618.4113159179688 2 618.41162 1234.80869 NaN NaN NaN NaN NaN NaN NaN 15.794 1 16.1 15.6 16.6 0.306 0 0 0 1.0082 1 7144 7144 0 0 1 36020 4147 22922 22994 40440 40440 0.2006757522353837 VPLLRRRRVK 10 Unmodified _VPLLRRRRVK_ 0 0 0 ENST00000474649.1_1_7:100184248-100189648:+|nuORF;nc|ENSG00000106336|O75426-2|FBXO24;ENSG00000106336|ENST00000241071|FBXO24 ENST00000474649.1_1_7:100184248-100189648:+|nuORF ENST00000474649.1_1_7:100184248-100189648:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.5284729003906 4 323.974199 1291.86769 2.3177 0.00075087 -0.62159 -0.00020138 1.6961 0.0005495 323.9738128703661 35.812 0.34185 36.067 35.939 36.281 0.25524 21 14 2 0 0 0 0.12676 1 16388 16388 0 0 1 1854100 36021 1563 22923 22995 40441 40441 0.2334323235274951 VPLLSEETY 9 Unmodified _VPLLSEETY_ 0 0 0 REV__ENSG00000134057|ENST00000256442|CCNB1 REV__ENSG00000134057|ENST00000256442|CCNB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.7725830078125 2 525.771322 1049.52809 NaN NaN NaN NaN NaN NaN NaN 69.547 1 69.801 69.301 70.301 0.25443 0 0 0 0.59707 1 31848 31848 15.847 1.2655 1 + 36022 11951 22924 22996 40442 40442 0.005309107666334967 VPLLSEETY 9 Unmodified _VPLLSEETY_ 0 0 0 REV__ENSG00000134057|ENST00000256442|CCNB1 REV__ENSG00000134057|ENST00000256442|CCNB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.7706298828125 2 525.771322 1049.52809 NaN NaN NaN NaN NaN NaN NaN 69.574 1 69.828 69.328 70.328 0.25443 0 0 0 0.42757 1 31860 31860 21.747 2.4897 1 + 36023 11951 22924 22996 40443 40443 0.005309107666334967 VPLLVALLLT 10 Unmodified _VPLLVALLLT_ 0 0 0 ENSG00000108823|ENST00000262018|SGCA ENSG00000108823|ENST00000262018|SGCA ENSG00000108823|ENST00000262018|SGCA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.24444580078125 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 34.149 1 34.149 33.649 34.649 0 0 0 0 1.0015 1 15476 15476 0.13989 0 1 36024 1651 22925 22997 40444 40444 0.1819441110740172 VPLLVMRKPL 10 Unmodified _VPLLVMRKPL_ 0 0 0 REV__nc|ENSG00000165209|Q96SI9-2|STRBP REV__nc|ENSG00000165209|Q96SI9-2|STRBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.5889892578125 3 389.2545 1164.74167 2.7858 0.0010844 -1.1588 -0.00045106 1.6271 0.00063334 389.25400777773933 43.738 0.42415 44.007 43.614 44.038 0.26939 37 16 3 0 0 0 0.94099 1 19832 19832 0.69767 0.69767 1 2452300 + 36025 13146 22926 22998 40445 40445 0.16588964732500244 VPLPCLLL 8 Unmodified _VPLPCLLL_ 0 0 0 nc|ENSG00000160058|Q9NW68-6|BSDC1 nc|ENSG00000160058|Q9NW68-6|BSDC1 nc|ENSG00000160058|Q9NW68-6|BSDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.2746276855469 2 434.27225 866.529947 NaN NaN NaN NaN NaN NaN NaN 51.909 1 52.171 51.671 52.671 0.26227 0 0 0 0.82704 1 23729 23729 17.087 0 1 36026 9709 22927 22999 40446 40446 0.09134293041540786 VPLPFTTLFL 10 Unmodified _VPLPFTTLFL_ 0 0 0 REV__nc|ENSG00000142459|Q96CN4|EVI5L REV__nc|ENSG00000142459|Q96CN4|EVI5L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 574.2400512695312 2 574.341718 1146.66888 NaN NaN NaN NaN NaN NaN NaN 80.105 1 80.105 79.605 80.605 0 0 0 0 0.99225 1 39677 39677 6.7232 0.99131 1 + 36027 12325 22928 23000 40447 40447 0.101415342106975 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 304.53717041015625 3 304.537002 910.589176 2.0874 0.00063569 -1.0551 -0.00032131 1.0323 0.00031438 304.5366440043589 27.117 0.26787 27.117 26.953 27.221 0 25 15 2 0 0 0 0.7471 1 12202 12202 0 0 1 288010 + 36028 16473 22929 23001 40448 40448 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 304.5372314453125 3 304.537002 910.589176 2.1229 0.00064649 -1.0799 -0.00032888 1.0429 0.00031761 304.5366265264027 27.465 0.35536 27.465 27.259 27.614 0 50 27 2 0 0 0 0.7471 2 12297 12297;12342 0 0 1 1383100 + 36029 16473 22929 23001 40449;40450 40449 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.5371398925781 3 304.537002 910.589176 2.2177 0.00067537 -1.1326 -0.00034493 1.0851 0.00033045 304.5365481651869 26.369 0.57635 27.148 26.83 27.406 0.7787 88 44 3 0 0 0 0.7471 1 11912 11912 0 0 1 559690 + 36030 16473 22929 23001 40451 40451 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.537109375 3 304.537002 910.589176 1.9457 0.00059254 -0.47354 -0.00014421 1.4722 0.00044833 304.53645507260575 33 0.23288 33.788 33.666 33.899 0.78795 16 13 2 0 0 0 0.7471 1 14925 14925 0 0 1 431130 + 36031 16473 22929 23001 40452 40452 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 304.5369873046875 3 304.537002 910.589176 2.2626 0.00068905 -0.080242 -2.4437E-05 2.1824 0.00066461 304.53658736685406 37.979 0.47141 38.775 38.49 38.961 0.79552 24 16 3 0 0 0 0.7471 1 17280 17280 0 0 1 1264400 + 36032 16473 22929 23001 40453 40453 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.5374755859375 3 304.537002 910.589176 1.9743 0.00060124 -0.72021 -0.00021933 1.2541 0.00038191 304.53673753035474 14.61 0.30174 14.917 14.798 15.1 0.3069 34 23 2 0 0 0 0.7471 1 6605 6605 0 0 1 165980 + 36033 16473 22929 23001 40454 40454 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.53729248046875 3 304.537002 910.589176 2.2062 0.00067188 -0.90497 -0.0002756 1.3013 0.00039628 304.5366038643506 26.634 0.31116 26.899 26.737 27.049 0.26489 36 21 2 0 0 0 0.7471 1 12087 12087 0 0 1 331930 + 36034 16473 22929 23001 40455 40455 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.5373840332031 3 304.537002 910.589176 2.164 0.00065902 -0.67639 -0.00020599 1.4876 0.00045303 304.5366775482894 27.121 0.5166 27.386 27.07 27.586 0.26489 86 35 3 0 0 0 0.7471 2 12227 12227;12370 0 0 1 1183400 + 36035 16473 22929 23001 40456;40457 40456 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.53741455078125 3 304.537002 910.589176 2.4278 0.00073936 -1.1738 -0.00035747 1.254 0.00038189 304.5365013664553 32.58 0.67228 32.834 32.607 33.28 0.25452 47 31 2 0 0 0 0.7471 1 15019 15019 0 0 1 1431000 + 36036 16473 22929 23001 40458 40458 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.5370788574219 3 304.537002 910.589176 2.1735 0.0006619 -0.76818 -0.00023394 1.4053 0.00042796 304.5365225015646 35.572 0.60881 35.827 35.594 36.203 0.25524 26 21 2 0 0 0 0.7471 1 16233 16233 0 0 1 422310 + 36037 16473 22929 23001 40459 40459 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 304.5376892089844 3 304.537002 910.589176 2.2033 0.00067099 -0.76814 -0.00023393 1.4352 0.00043706 304.5366111712821 14.789 0.5349 15.443 15.311 15.846 0.65356 65 46 2 0 0 0 0.7471 2 6630 6630;6651 0 0 1 152040 + 36038 16473 22929 23001 40460;40461 40460 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 304.5372619628906 3 304.537002 910.589176 2.0317 0.00061874 -0.75329 -0.00022941 1.2784 0.00038933 304.53668413445587 26.214 0.24148 26.839 26.717 26.959 0.62505 24 13 2 0 0 0 0.7471 1 12073 12073 0 0 1 347820 + 36039 16473 22929 23001 40462 40462 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 304.5373229980469 3 304.537002 910.589176 2.0249 0.00061664 -0.66254 -0.00020177 1.3623 0.00041487 304.53670994315814 26.643 0.49245 27.265 26.976 27.468 0.62179 85 32 3 0 0 0 0.7471 1 12117 12117 0 0 1 997120 + 36040 16473 22929 23001 40463 40463 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 304.8644104003906 3 304.537002 910.589176 2.0167 0.00061416 -0.69229 -0.00021083 1.3244 0.00040333 304.5365746462608 33.016 0.33774 33.635 33.458 33.795 0.61831 26 17 2 0 0 0 0.7471 1 15111 15111 0 0 1 596570 + 36041 16473 22929 23001 40464 40464 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 304.537002 910.589176 1.9303 0.00058785 -1.2173 -0.00037072 0.71299 0.00021713 304.53667882516174 14.697 0.52152 14.697 14.607 15.128 0 -0.12957 3.7398E-05 NaN 0 120 59 3 NaN NaN NaN NaN 0 NaN NaN 0 189230 + 36042 16473 22929 23001 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 304.537002 910.589176 1.9428 0.00059166 -1.5991 -0.00048697 0.34374 0.00010468 304.53658429778017 15.573 0.07295 15.573 15.509 15.582 0 0.064969 -0.00058194 NaN 0 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 29857 + 36043 16473 22929 23001 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 304.537002 910.589176 2.1229 0.00064649 -1.0799 -0.00032888 1.0429 0.00031761 304.5366265264027 27.465 0.35536 27.465 27.259 27.614 0 0.093194 -0.00025096 NaN 0 50 27 2 NaN NaN NaN NaN 0 NaN NaN 0 1383100 + 36044 16473 22929 23001 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 304.537002 910.589176 1.6649 0.00050702 -0.62084 -0.00018907 1.044 0.00031795 304.5366994328699 33.982 0.1763 33.982 33.839 34.015 0 0.17325 -4.4018E-05 NaN 0 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 974100 + 36045 16473 22929 23001 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 304.537002 910.589176 1.9493 0.00059363 -0.047027 -1.4321E-05 1.9023 0.00057931 304.53679530924927 39.171 0.48502 39.171 38.865 39.35 0 0.30379 -1.2697E-05 NaN 0 25 18 2 NaN NaN NaN NaN 0 NaN NaN 0 1311600 + 36046 16473 22929 23001 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 304.537002 910.589176 2.265 0.00068978 -1.6852 -0.00051321 0.5798 0.00017657 304.5364610986389 14.639 0.25014 14.866 14.743 14.994 0.22622 0.039094 -0.00039009 NaN 0 44 17 3 NaN NaN NaN NaN 0 NaN NaN 0 380870 + 36047 16473 22929 23001 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 304.537002 910.589176 1.9457 0.00059254 -0.47354 -0.00014421 1.4722 0.00044833 304.53645507260575 33 0.23288 33.788 33.666 33.899 0.78795 -0.020914 9.0561E-05 NaN 0 16 13 2 NaN NaN NaN NaN 0 NaN NaN 0 431130 + 36048 16473 22929 23001 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 304.537002 910.589176 2.164 0.00065902 -0.67639 -0.00020599 1.4876 0.00045303 304.5366775482894 27.121 0.5166 27.386 27.07 27.586 0.26489 0.013528 0.00011772 NaN 0 86 35 3 NaN NaN NaN NaN 0 NaN NaN 0 1183400 + 36049 16473 22929 23001 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 304.537002 910.589176 2.1735 0.0006619 -0.76818 -0.00023394 1.4053 0.00042796 304.5365225015646 35.572 0.60881 35.827 35.594 36.203 0.25524 0 0 NaN 0 26 21 2 NaN NaN NaN NaN 0 NaN NaN 0 422310 + 36050 16473 22929 23001 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 304.537002 910.589176 2.2407 0.00068238 -0.46927 -0.00014291 1.7714 0.00053947 304.53655672858963 33.576 0.40817 33.83 33.618 34.027 0.25389 0.021622 9.4463E-05 NaN 0 35 24 2 NaN NaN NaN NaN 0 NaN NaN 0 674630 + 36051 16473 22929 23001 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 304.537002 910.589176 2.0083 0.00061161 -0.047903 -1.4588E-05 1.9604 0.00059702 304.53675490442754 38.512 0.652 38.776 38.603 39.255 0.26408 -0.091219 -1.3497E-05 NaN 0 39 25 2 NaN NaN NaN NaN 0 NaN NaN 0 3085900 + 36052 16473 22929 23001 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 304.537002 910.589176 2.0167 0.00061416 -0.69229 -0.00021083 1.3244 0.00040333 304.5365746462608 33.016 0.33774 33.635 33.458 33.795 0.61831 -0.17396 -0.00010929 NaN 0 26 17 2 NaN NaN NaN NaN 0 NaN NaN 0 596570 + 36053 16473 22929 23001 0.1303051232736152 VPLPLLFL 8 Unmodified _VPLPLLFL_ 0 0 0 REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF REV__ENST00000459925.1_1_16:67702005-67702500:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 304.537002 910.589176 1.9672 0.0005991 0.025374 7.7272E-06 1.9926 0.00060682 304.5367593939635 38.113 0.44324 38.747 38.499 38.943 0.63388 -0.12038 5.3449E-05 NaN 0 37 18 3 NaN NaN NaN NaN 0 NaN NaN 0 820940 + 36054 16473 22929 23001 0.1303051232736152 VPLPPADCVL 10 Unmodified _VPLPPADCVL_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.28173828125 2 512.280803 1022.54705 NaN NaN NaN NaN NaN NaN NaN 53.59 1 53.855 53.355 54.355 0.26462 0 0 0 0.94083 1 24510 24510 14.838 0.25658 1 36055 4502 22930 23002 40465 40465 0.03668168856677312 VPLPRLLAVF 10 Unmodified _VPLPRLLAVF_ 0 0 0 ENSG00000174326|ENST00000574600|SLC16A11;nc|ENSG00000174326|Q8NCK7|SLC16A11 ENSG00000174326|ENST00000574600|SLC16A11 ENSG00000174326|ENST00000574600|SLC16A11 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.7974853515625 2 562.863152 1123.71175 3.301 0.001858 -3.8991 -0.0021946 -0.59802 -0.0003366 563.362520739998 35.746 0.10406 35.746 35.658 35.762 0 6 4 2 0 0 0 0.12676 1 16205 16205 1.8442 0 1 488730 36056 4972 22931 23003 40466 40466 0.15484349058783664 VPLQRSLEI 9 Unmodified _VPLQRSLEI_ 0 0 0 NPHP3|p.K1247Rfs*18|1|0.22|ENSG00000113971|chr3:132682775-132682775|T/-|frameshift_variant;ENSG00000113971|ENST00000337331|NPHP3;ENST00000474871.5_1_3:132405102-132413706:-|nuORF;nc|ENSG00000113971|Q7Z494-2|NPHP3;ENST00000471702.2_2_3:132363653-132416205:-|nuORF NPHP3|p.K1247Rfs*18|1|0.22|ENSG00000113971|chr3:132682775-132682775|T/-|frameshift_variant NPHP3|p.K1247Rfs*18|1|0.22|ENSG00000113971|chr3:132682775-132682775|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.8178100585938 2 527.816399 1053.61824 3.1662 0.0016712 -0.084193 -4.4439E-05 3.082 0.0016267 527.8164950094332 50.572 0.17422 51.229 51.139 51.313 0.65735 14 9 2 0 0 0 0.33646 1 23129 23129 15.248 0.41021 1 204560 36057 1884 22932 23004 40467 40467 0.09358004885712035 VPLRRRSEWKW 11 Unmodified _VPLRRRSEWKW_ 0 0 0 ENSG00000120071|ENST00000432791|KANSL1;KANSL1|p.N521Tfs*57|1|0.24|ENSG00000120071|chr17:46067639-46067639|T/-|frameshift_variant;KANSL1|p.G528Vfs*50|1|0.2|ENSG00000120071|chr17:46067618-46067618|C/-|frameshift_variant;KANSL1|p.E647Mfs*20|1|0.38|ENSG00000120071|chr17:46050606-46050615|GTGAATTTCG/-|frameshift_variant ENSG00000120071|ENST00000432791|KANSL1 ENSG00000120071|ENST00000432791|KANSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 756.9322509765625 2 756.930951 1511.84735 NaN NaN NaN NaN NaN NaN NaN 56.299 1 56.299 55.799 56.799 0 0 0 0 1.0071 1 25902 25902 1.4819 0 1 36058 2179 22933 23005 40468 40468 0.11190016902287425 VPLSKRRRQ 9 Unmodified _VPLSKRRRQ_ 0 0 0 REV__ENSG00000214929|ENST00000344803|SPATA31D1 REV__ENSG00000214929|ENST00000344803|SPATA31D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 570.36083984375 2 570.359631 1138.70471 3.9765 0.0022681 -1.04 -0.00059319 2.9365 0.0016749 570.3590048340975 91.953 0.54172 92.206 92.033 92.575 0.25253 57 27 3 0 0 0 1.1412 1 42327 42327 1.6526 1.1279 1 789970 + 36059 14519 22934 23006 40469 40469 0.14090429230918744 VPLVFRTIRRD 11 Unmodified _VPLVFRTIRRD_ 0 0 0 REV__ENSG00000105143|ENST00000594383|SLC1A6 REV__ENSG00000105143|ENST00000594383|SLC1A6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 686.4140625 2 686.414603 1370.81465 NaN NaN NaN NaN NaN NaN NaN 92.468 1 92.721 92.221 93.221 0.25253 0 0 0 1.008 1 42507 42507 0.35063 0 1 + 36060 11015 22935 23007 40470 40470 0.1440780977943632 VPMATTSASSS 11 Unmodified _VPMATTSASSS_ 0 0 0 REV__ENSG00000136451|ENST00000581208|VEZF1 REV__ENSG00000136451|ENST00000581208|VEZF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 519.7449951171875 2 519.742239 1037.46993 3.2713 0.0017002 1.1803 0.00061347 4.4516 0.0023137 519.7427382441099 63.016 0.26906 63.266 63.149 63.418 0.24965 27 15 2 0 0 0 0.66009 1 28847 28847 13.042 1.4022 1 806230 + 36061 12071 22936 23008 40471 40471 -0.047310941503155846 VPMAVAIL 8 Unmodified _VPMAVAIL_ 0 0 0 ENSG00000146830|ENST00000678049|GIGYF1 ENSG00000146830|ENST00000678049|GIGYF1 ENSG00000146830|ENST00000678049|GIGYF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.25067138671875 2 407.248775 812.482997 NaN NaN NaN NaN NaN NaN NaN 108.3 1 108.61 108.11 109.11 0.31168 0 0 0 0.99035 1 49947 49947 0.79363 0 1 36062 3529 22937 23009 40472 40472 0.06925433490403066 VPMDRKFYLC 10 Unmodified _VPMDRKFYLC_ 0 0 0 ENST00000337198.9_1_8:103839267-103839420:-|nuORF ENST00000337198.9_1_8:103839267-103839420:-|nuORF ENST00000337198.9_1_8:103839267-103839420:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 424.5152587890625 3 424.547355 1270.62024 NaN NaN NaN NaN NaN NaN NaN 11.596 1 11.596 11.096 12.096 0 0 0 0 1.0015 1 5054 5054 0.15932 0 1 36063 7038 22938 23010 40473 40473 -0.004250256923114648 VPMFRNVSL 9 Unmodified _VPMFRNVSL_ 0 0 0 ENSG00000082898|ENST00000401558|XPO1;XPO1|p.F287Lfs*3|1|0.34|ENSG00000082898|chr2:61496906-61496906|A/-|frameshift_variant;ENST00000428210.5_1_2:61720980-61752425:-|nuORF ENSG00000082898|ENST00000401558|XPO1;ENST00000428210.5_1_2:61720980-61752425:-|nuORF ENSG00000082898|ENST00000401558|XPO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.7930908203125 2 531.791869 1061.56919 NaN NaN NaN NaN NaN NaN NaN 60.52 1 60.775 60.275 61.275 0.25578 0 0 0 0.018132 1 27712 27712 75.761 42.975 1 36064 934;7822 22939 23011 40474 40474 0.040863933251102935 VPMFRNVSL 9 Unmodified _VPMFRNVSL_ 0 0 0 ENSG00000082898|ENST00000401558|XPO1;XPO1|p.F287Lfs*3|1|0.34|ENSG00000082898|chr2:61496906-61496906|A/-|frameshift_variant;ENST00000428210.5_1_2:61720980-61752425:-|nuORF ENSG00000082898|ENST00000401558|XPO1;ENST00000428210.5_1_2:61720980-61752425:-|nuORF ENSG00000082898|ENST00000401558|XPO1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.7939453125 2 531.791869 1061.56919 NaN NaN NaN NaN NaN NaN NaN 60.607 1 60.863 60.363 61.363 0.25578 0 0 0 0.036101 1 27756 27756 57.722 30.838 1 36065 934;7822 22939 23011 40475 40475 0.040863933251102935 VPMLRTSPRLR 11 Unmodified _VPMLRTSPRLR_ 0 0 0 REV__ENST00000537562.5_2_12:31867426-31867856:-|nuORF REV__ENST00000537562.5_2_12:31867426-31867856:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 332.20220947265625 4 332.201316 1324.77616 2.2738 0.00075537 0.074139 2.4629E-05 2.348 0.00078 332.2011344231241 45.892 0.54728 46.719 46.517 47.064 0.82621 81 26 4 0 0 0 0.91068 1 21000 21000 0.45452 0 1 3405400 + 36066 17189 22940 23012 40476 40476 0.12676180873268095 VPMRKLRPRKV 11 Unmodified _VPMRKLRPRKV_ 0 0 0 ENST00000382285.6_1_20:328123-329934:+|nuORF ENST00000382285.6_1_20:328123-329934:+|nuORF ENST00000382285.6_1_20:328123-329934:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.7261657714844 4 345.724958 1378.87073 2.3584 0.00081534 0.52275 0.00018073 2.8811 0.00099607 345.7251385276819 45.053 0.82317 45.321 44.764 45.587 0.26768 79 40 4 0 0 0 0.91104 1 20497 20497 1.2148 0 1 3431500 36067 7492 22941 23013 40477 40477 0.19644739415252843 VPMRKRHISK 10 Unmodified _VPMRKRHISK_ 0 0 0 REV__ENSG00000100226|ENST00000216044|GTPBP1 REV__ENSG00000100226|ENST00000216044|GTPBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 313.69305419921875 4 313.692121 1250.73938 2.0637 0.00064736 1.9736 0.00061909 4.0373 0.0012665 313.69244204396546 40.233 0.49656 40.233 39.845 40.341 0 68 18 4 0 0 0 0.93584 1 18157 18157 1.7423 1.0446 1 6241200 + 36068 10812 22942 23014 40478 40478 0.1240392904737746 VPMRKRHISK 10 Unmodified _VPMRKRHISK_ 0 0 0 REV__ENSG00000100226|ENST00000216044|GTPBP1 REV__ENSG00000100226|ENST00000216044|GTPBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 313.69287109375 4 313.692121 1250.73938 2.0377 0.00063922 0.68826 0.0002159 2.726 0.00085512 313.6923061362759 40.751 0.23022 40.751 40.649 40.879 0 20 11 2 0 0 0 0.93788 1 18512 18512 1.3296 1.3296 1 8673000 + 36069 10812 22942 23014 40479 40479 0.1240392904737746 VPMRKRHISK 10 Unmodified _VPMRKRHISK_ 0 0 0 REV__ENSG00000100226|ENST00000216044|GTPBP1 REV__ENSG00000100226|ENST00000216044|GTPBP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 313.6931457519531 4 313.692121 1250.73938 2.395 0.00075129 0.8476 0.00026589 3.2426 0.0010172 313.6923039730806 45.667 0.86178 46.318 45.807 46.668 0.65104 41 33 2 0 0 0 0.12676 1 20992 20992 0.77653 0.32202 1 561370 + 36070 10812 22942 23014 40480 40480 0.1240392904737746 VPMRKRHISK 10 Unmodified _VPMRKRHISK_ 0 0 0 REV__ENSG00000100226|ENST00000216044|GTPBP1 REV__ENSG00000100226|ENST00000216044|GTPBP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 313.692121 1250.73938 2.2397 0.00070258 1.2821 0.0004022 3.5219 0.0011048 313.69247874340186 39.425 0.42313 40.062 39.736 40.159 0.63778 -0.0048782 -0.00043227 NaN 1.7423 28 15 2 NaN NaN NaN NaN 0 NaN NaN 0 5181300 + 36071 10812 22942 23014 0.1240392904737746 VPMVRDLL 8 Unmodified _VPMVRDLL_ 0 0 0 ENST00000586720.5_1_17:76967660-76975958:-|nuORF;ENST00000587251.5_1_17:76967660-76972124:-|nuORF;ENSG00000108679|ENST00000262776|LGALS3BP ENST00000586720.5_1_17:76967660-76975958:-|nuORF ENST00000586720.5_1_17:76967660-76975958:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.77679443359375 2 471.775688 941.536823 2.8777 0.0013576 -0.54739 -0.00025824 2.3303 0.0010994 471.775350739006 62.194 0.22923 62.443 62.274 62.503 0.24965 18 9 3 0 0 0 0.463 1 28487 28487 29.082 16.55 1 1285200 36072 1645 22943 23015 40481 40481 0.06371605922106482 VPMVRDLL 8 Unmodified _VPMVRDLL_ 0 0 0 ENST00000586720.5_1_17:76967660-76975958:-|nuORF;ENST00000587251.5_1_17:76967660-76972124:-|nuORF;ENSG00000108679|ENST00000262776|LGALS3BP ENST00000586720.5_1_17:76967660-76975958:-|nuORF ENST00000586720.5_1_17:76967660-76975958:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.7762756347656 2 471.775688 941.536823 2.8725 0.0013552 -0.18201 -8.5867E-05 2.6905 0.0012693 471.7753975300688 61.524 0.24439 62.184 62.04 62.285 0.66009 20 11 2 0 0 0 0.28626 1 28179 28179 43.858 15.685 1 1133600 36073 1645 22943 23015 40482 40482 0.06371605922106482 VPNDYSVF 8 Unmodified _VPNDYSVF_ 0 0 0 REV__nc|ENSG00000149187|Q92879-5|CELF1 REV__nc|ENSG00000149187|Q92879-5|CELF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.7256164550781 2 470.724175 939.433798 2.9201 0.0013746 0.0035567 1.6742E-06 2.9236 0.0013762 470.7241467320139 60.121 0.60738 60.377 60.041 60.649 0.25578 55 29 3 0 0 0 0.21011 3 27472 27472;27525;27576 42.095 18.946 1 645620 + 36074 10343 22944 23016 40483;40484;40485 40483 -0.03834183264859803 VPNDYSVF 8 Unmodified _VPNDYSVF_ 0 0 0 REV__nc|ENSG00000149187|Q92879-5|CELF1 REV__nc|ENSG00000149187|Q92879-5|CELF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 940.4434814453125 1 940.441074 939.433798 3.7952 0.0035692 0.97523 0.00091715 4.7704 0.0044863 940.4420127281164 60.089 0.5628 60.344 60.06 60.622 0.25578 31 26 2 0 0 0 0.47217 1 27505 27505 23.148 2.6948 1 422380 + 36075 10343 22944 23016 40486 40486 -0.03834183264859803 VPNDYSVF 8 Unmodified _VPNDYSVF_ 0 0 0 REV__nc|ENSG00000149187|Q92879-5|CELF1 REV__nc|ENSG00000149187|Q92879-5|CELF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.72662353515625 2 470.724175 939.433798 2.9553 0.0013911 0.078733 3.7062E-05 3.034 0.0014282 470.7242943899757 59.434 0.53996 60.099 59.977 60.517 0.66503 44 24 2 0 0 0 0.4188 1 27192 27192 26.884 3.7352 1 642580 + 36076 10343 22944 23016 40487 40487 -0.03834183264859803 VPNDYSVF 8 Unmodified _VPNDYSVF_ 0 0 0 REV__nc|ENSG00000149187|Q92879-5|CELF1 REV__nc|ENSG00000149187|Q92879-5|CELF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 940.4439697265625 1 940.441074 939.433798 3.8539 0.0036244 -1.146 -0.0010778 2.7079 0.0025466 940.4405517743513 59.537 0.46779 60.202 60.01 60.478 0.66503 26 20 2 0 0 0 0.31901 2 27300 27197;27300 34.102 13.649 1 619060 + 36077 10343 22944 23016 40488;40489 40489 -0.03834183264859803 VPNDYSVF 8 Unmodified _VPNDYSVF_ 0 0 0 REV__nc|ENSG00000149187|Q92879-5|CELF1 REV__nc|ENSG00000149187|Q92879-5|CELF1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 940.441074 939.433798 3.7952 0.0035692 0.97523 0.00091715 4.7704 0.0044863 940.4420127281164 60.089 0.5628 60.344 60.06 60.622 0.25578 0.070919 0.001136 NaN 34.102 31 26 2 NaN NaN NaN NaN 0 NaN NaN 0 422380 + 36078 10343 22944 23016 -0.03834183264859803 VPNDYSVF 8 Unmodified _VPNDYSVF_ 0 0 0 REV__nc|ENSG00000149187|Q92879-5|CELF1 REV__nc|ENSG00000149187|Q92879-5|CELF1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 470.724175 939.433798 2.9201 0.0013746 0.0035567 1.6742E-06 2.9236 0.0013762 470.7241467320139 60.121 0.60738 60.377 60.041 60.649 0.25578 0.1387 -3.9623E-05 NaN 42.095 55 29 3 NaN NaN NaN NaN 0 NaN NaN 0 645620 + 36079 10343 22944 23016 -0.03834183264859803 VPNDYSVF 8 Unmodified _VPNDYSVF_ 0 0 0 REV__nc|ENSG00000149187|Q92879-5|CELF1 REV__nc|ENSG00000149187|Q92879-5|CELF1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 940.441074 939.433798 3.8539 0.0036244 -1.146 -0.0010778 2.7079 0.0025466 940.4405517743513 59.537 0.46779 60.202 60.01 60.478 0.66503 -0.070919 -0.00085886 NaN 34.102 26 20 2 NaN NaN NaN NaN 0 NaN NaN 0 619060 + 36080 10343 22944 23016 -0.03834183264859803 VPNEEDPSL 9 Unmodified _VPNEEDPSL_ 0 0 0 nc|ENSG00000106799|P36897-2|TGFBR1;ENSG00000106799|ENST00000374994|TGFBR1 nc|ENSG00000106799|P36897-2|TGFBR1 nc|ENSG00000106799|P36897-2|TGFBR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.2364501953125 2 500.235104 998.455655 3.0641 0.0015328 0.45702 0.00022862 3.5211 0.0017614 500.23526710548254 36.804 0.58497 37.597 37.221 37.806 0.79342 46 27 2 0 0 0 0.048676 2 16698 16625;16698 47.749 15.673 1 525980 36081 1583 22945 23017 40490;40491 40491 -0.043634233069496986 VPNEEDPSL 9 Unmodified _VPNEEDPSL_ 0 0 0 nc|ENSG00000106799|P36897-2|TGFBR1;ENSG00000106799|ENST00000374994|TGFBR1 nc|ENSG00000106799|P36897-2|TGFBR1 nc|ENSG00000106799|P36897-2|TGFBR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.2370910644531 2 500.235104 998.455655 3.3322 0.0016669 0.13142 6.574E-05 3.4636 0.0017326 500.2351086679669 37.537 0.58088 37.797 37.572 38.153 0.26083 29 18 2 0 0 0 0.02234 1 17109 17109 65.235 20.828 1 439760 36082 1583 22945 23017 40492 40492 -0.043634233069496986 VPNEEDPSL 9 Unmodified _VPNEEDPSL_ 0 0 0 nc|ENSG00000106799|P36897-2|TGFBR1;ENSG00000106799|ENST00000374994|TGFBR1 nc|ENSG00000106799|P36897-2|TGFBR1 nc|ENSG00000106799|P36897-2|TGFBR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.23687744140625 2 500.235104 998.455655 3.2521 0.0016268 0.74615 0.00037325 3.9983 0.0020001 500.2350717315695 36.964 0.58689 37.594 37.329 37.916 0.62999 53 24 3 0 0 0 0.029308 2 16948 16889;16948 56.177 3.9087 1 385690 36083 1583 22945 23017 40493;40494 40494 -0.043634233069496986 VPNEEDPSL 9 Unmodified _VPNEEDPSL_ 0 0 0 nc|ENSG00000106799|P36897-2|TGFBR1;ENSG00000106799|ENST00000374994|TGFBR1 nc|ENSG00000106799|P36897-2|TGFBR1 nc|ENSG00000106799|P36897-2|TGFBR1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 500.235104 998.455655 3.1051 0.0015533 0.57506 0.00028767 3.6802 0.001841 500.2353313114631 37.65 0.52791 37.65 37.407 37.935 0 -0.0093761 0.00011748 NaN 65.235 34 20 2 NaN NaN NaN NaN 0 NaN NaN 0 555840 36084 1583 22945 23017 -0.043634233069496986 VPNKKLCR 8 Unmodified _VPNKKLCR_ 0 0 0 TDRD5|p.Q527Sfs*8|1|0.09|ENSG00000162782|chr1:179639895-179639895|T/-|frameshift_variant;nc|ENSG00000162782|Q8NAT2|TDRD5;ENSG00000162782|ENST00000444136|TDRD5 TDRD5|p.Q527Sfs*8|1|0.09|ENSG00000162782|chr1:179639895-179639895|T/-|frameshift_variant TDRD5|p.Q527Sfs*8|1|0.09|ENSG00000162782|chr1:179639895-179639895|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 319.86029052734375 3 319.860262 956.558955 2.2014 0.00070413 -0.5516 -0.00017644 1.6498 0.00052769 319.85966297738315 46.371 0.20754 47.201 47.094 47.301 0.82915 21 12 2 0 0 0 0.74071 1 21124 21124 1.6526 0 1 567900 36085 4169 22946 23018 40495 40495 0.07893830390526091 VPNKKLCR 8 Unmodified _VPNKKLCR_ 0 0 0 TDRD5|p.Q527Sfs*8|1|0.09|ENSG00000162782|chr1:179639895-179639895|T/-|frameshift_variant;nc|ENSG00000162782|Q8NAT2|TDRD5;ENSG00000162782|ENST00000444136|TDRD5 TDRD5|p.Q527Sfs*8|1|0.09|ENSG00000162782|chr1:179639895-179639895|T/-|frameshift_variant TDRD5|p.Q527Sfs*8|1|0.09|ENSG00000162782|chr1:179639895-179639895|T/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 319.860262 956.558955 2.2066 0.00070582 -0.54409 -0.00017403 1.6625 0.00053178 319.85962256188014 46.834 0.44445 47.486 47.092 47.537 0.65219 0.14257 4.8622E-06 NaN 1.6526 19 14 2 NaN NaN NaN NaN 0 NaN NaN 0 487720 36086 4169 22946 23018 0.07893830390526091 VPNLKPLTVY 10 Unmodified _VPNLKPLTVY_ 0 0 0 nc|ENSG00000142166|P17181-2|IFNAR1;nc|ENSG00000142166|P17181-4|IFNAR1;nc|ENSG00000142166|P17181-3|IFNAR1;ENSG00000142166|ENST00000270139|IFNAR1 nc|ENSG00000142166|P17181-2|IFNAR1 nc|ENSG00000142166|P17181-2|IFNAR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.8976745605469 3 381.897258 1142.66995 2.8987 0.001107 -1.0118 -0.00038639 1.8869 0.00072061 381.8967153729606 7.7891 0.38105 7.7891 7.5545 7.9356 0 66 37 2 0 0 0 0.94374 1 3506 3506 0.13989 0 1 60853 36087 3294 22947 23019 40496 40496 0.10431748579594569 VPNLKPLTVY 10 Unmodified _VPNLKPLTVY_ 0 0 0 nc|ENSG00000142166|P17181-2|IFNAR1;nc|ENSG00000142166|P17181-4|IFNAR1;nc|ENSG00000142166|P17181-3|IFNAR1;ENSG00000142166|ENST00000270139|IFNAR1 nc|ENSG00000142166|P17181-2|IFNAR1 nc|ENSG00000142166|P17181-2|IFNAR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 381.8979187011719 3 381.897258 1142.66995 1.9531 0.00074587 -0.76963 -0.00029392 1.1834 0.00045195 381.89692330712603 5.6802 0.63722 6.033 5.9187 6.5559 0.35278 125 79 2 0 0 0 0.94374 1 2562 2562 0.13989 0.056541 1 54561 36088 3294 22947 23019 40497 40497 0.10431748579594569 VPNLKPLTVY 10 Unmodified _VPNLKPLTVY_ 0 0 0 nc|ENSG00000142166|P17181-2|IFNAR1;nc|ENSG00000142166|P17181-4|IFNAR1;nc|ENSG00000142166|P17181-3|IFNAR1;ENSG00000142166|ENST00000270139|IFNAR1 nc|ENSG00000142166|P17181-2|IFNAR1 nc|ENSG00000142166|P17181-2|IFNAR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.8977355957031 3 381.897258 1142.66995 2.0112 0.00076808 -0.63935 -0.00024417 1.3719 0.00052392 381.8969504632014 7.2879 1.0147 7.5937 7.2207 8.2355 0.30573 163 83 3 0 0 0 0.94374 1 3168 3168 0.13989 0.056541 1 82435 36089 3294 22947 23019 40498 40498 0.10431748579594569 VPNLKPLTVY 10 Unmodified _VPNLKPLTVY_ 0 0 0 nc|ENSG00000142166|P17181-2|IFNAR1;nc|ENSG00000142166|P17181-4|IFNAR1;nc|ENSG00000142166|P17181-3|IFNAR1;ENSG00000142166|ENST00000270139|IFNAR1 nc|ENSG00000142166|P17181-2|IFNAR1 nc|ENSG00000142166|P17181-2|IFNAR1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 381.897258 1142.66995 1.9531 0.00074587 -0.76963 -0.00029392 1.1834 0.00045195 381.89692330712603 5.6802 0.63722 6.033 5.9187 6.5559 0.35278 0 0 NaN 0.13989 125 79 2 NaN NaN NaN NaN 0 NaN NaN 0 54561 36090 3294 22947 23019 0.10431748579594569 VPNPWEWESF 10 Unmodified _VPNPWEWESF_ 0 0 0 REV__ENSG00000218823|ENST00000404991|PAPOLB REV__ENSG00000218823|ENST00000404991|PAPOLB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 645.7593383789062 2 645.793121 1289.57169 NaN NaN NaN NaN NaN NaN NaN 64.132 1 64.132 63.632 64.632 0 0 0 0 0.99774 1 30312 30312 3.5965 0 1 + 36091 14535 22948 23020 40499 40499 -0.061514797362633544 VPNPWEWESFV 11 Unmodified _VPNPWEWESFV_ 0 0 0 REV__ENSG00000218823|ENST00000404991|PAPOLB REV__ENSG00000218823|ENST00000404991|PAPOLB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 695.3304443359375 2 695.327328 1388.6401 NaN NaN NaN NaN NaN NaN NaN 67.87 1 67.87 67.37 68.37 0 0 0 0 1.0038 1 32617 32617 5.7319 2.1354 1 + 36092 14535 22949 23021 40500 40500 -0.03867235156417337 VPNVHGAL 8 Unmodified _VPNVHGAL_ 0 0 0 nc|ENSG00000011304|P26599-1|PTBP1;nc|ENSG00000011304|P26599-2|PTBP1;ENSG00000011304|ENST00000356948|PTBP1;ENST00000586944.5_1_19:806325-806721:+|nuORF nc|ENSG00000011304|P26599-1|PTBP1 nc|ENSG00000011304|P26599-1|PTBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.7305603027344 2 403.729595 805.444637 3.2784 0.0013236 -0.10591 -4.2758E-05 3.1725 0.0012808 403.72947012069255 30.204 0.15923 30.462 30.358 30.518 0.25804 21 13 3 0 0 0 0.42655 1 13725 13725 26.341 11.76 1 358290 36093 411 22950 23022 40501 40501 0.03413263900097263 VPPCSEPKQF 10 Unmodified _VPPCSEPKQF_ 0 0 0 REV__ENSG00000112116|ENST00000336123|IL17F REV__ENSG00000112116|ENST00000336123|IL17F MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 377.854736328125 3 377.854953 1130.54303 NaN NaN NaN NaN NaN NaN NaN 26.814 1 27.593 27.093 28.093 0.7787 0 0 0 0.99704 1 12047 12047 4.1895 2.2831 1 + 36094 11259 22951 23023 40502 40502 -0.017019206370378015 VPPDGSEL 8 Unmodified _VPPDGSEL_ 0 0 0 ENST00000437840.6_1_6:33264453-33266669:-|nuORF;ENST00000478610.5_1_6:33264453-33265760:-|nuORF;ENST00000494550.5_1_6:33264453-33265064:-|nuORF ENST00000437840.6_1_6:33264453-33266669:-|nuORF ENST00000437840.6_1_6:33264453-33266669:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.2038269042969 2 407.203076 812.391599 NaN NaN NaN NaN NaN NaN NaN 12.426 1 12.733 12.233 13.233 0.30727 0 0 0 0.99035 1 5596 5596 6.3541 0 1 36095 7910 22952 23024 40503 40503 -0.022101586732446776 VPPLHHEGF 9 Unmodified _VPPLHHEGF_ 0 0 0 REV__nc|ENSG00000082805|Q8IUD2-5|ERC1 REV__nc|ENSG00000082805|Q8IUD2-5|ERC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.7709350585938 2 516.766709 1031.51886 NaN NaN NaN NaN NaN NaN NaN 51.756 1 51.756 51.256 52.256 0 0 0 0 0.82031 1 23694 23694 8.5933 0.68312 1 + 36096 10620 22953 23025 40504 40504 0.0043660699161591765 VPPLPWEHSSS 11 Unmodified _VPPLPWEHSSS_ 0 0 0 REV__ENST00000486482.1_1_19:10222066-10222294:+|nuORF REV__ENST00000486482.1_1_19:10222066-10222294:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 618.3051147460938 2 618.306395 1234.59824 NaN NaN NaN NaN NaN NaN NaN 80.898 1 81.067 80.567 81.567 0.16862 0 0 0 1.0057 1 39693 39693 3.2813 0 1 + 36097 16754 22954 23026 40505 40505 -0.009677908449020833 VPPPLHPAP 9 Unmodified _VPPPLHPAP_ 0 0 0 ENSG00000240445|ENST00000395675|FOXO3B;nc|ENSG00000290687|P0CG31|ZNF286B ENSG00000240445|ENST00000395675|FOXO3B ENSG00000240445|ENST00000395675|FOXO3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 462.7698669433594 2 462.76872 923.522887 2.4477 0.0011327 0.6806 0.00031496 3.1283 0.0014477 462.76892085566095 34.374 0.29316 34.374 34.255 34.548 0 31 14 3 0 0 0 0.047285 1 15571 15571 45.75 0 1 1715400 36098 6216 22955 23027 40506 40506 0.05806696485319662 VPPPLHPAP 9 Unmodified _VPPPLHPAP_ 0 0 0 ENSG00000240445|ENST00000395675|FOXO3B;nc|ENSG00000290687|P0CG31|ZNF286B ENSG00000240445|ENST00000395675|FOXO3B ENSG00000240445|ENST00000395675|FOXO3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.770263671875 2 462.76872 923.522887 2.7242 0.0012607 1.0043 0.00046474 3.7285 0.0017254 462.7691679492119 34.26 0.25403 34.514 34.418 34.672 0.25389 21 12 2 0 0 0 0.028312 1 15609 15609 45.75 1.343 1 1049100 36099 6216 22955 23027 40507 40507 0.05806696485319662 VPPPPHQAL 9 Unmodified _VPPPPHQAL_ 0 0 0 ENST00000540486.5_1_17:7833707-7833791:-|nuORF ENST00000540486.5_1_17:7833707-7833791:-|nuORF ENST00000540486.5_1_17:7833707-7833791:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.2735290527344 2 478.271627 954.528701 3.0415 0.0014546 -0.095716 -4.5778E-05 2.9457 0.0014089 478.27165522225795 40.867 0.39529 40.867 40.649 41.044 0 48 24 3 0 0 0 0.086747 1 18570 18570 36.044 1.8569 1 1131000 36100 8804 22956 23028 40508 40508 0.04961794996984281 VPPPPHQAL 9 Unmodified _VPPPPHQAL_ 0 0 0 ENST00000540486.5_1_17:7833707-7833791:-|nuORF ENST00000540486.5_1_17:7833707-7833791:-|nuORF ENST00000540486.5_1_17:7833707-7833791:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.2738342285156 2 478.271627 954.528701 3.2203 0.0015402 0.21011 0.00010049 3.4304 0.0016407 478.27183984675094 40.66 0.63094 40.929 40.517 41.148 0.26904 44 30 2 0 0 0 0.086747 2 18427 18427;18534 36.044 9.7029 1 982040 36101 8804 22956 23028 40509;40510 40509 0.04961794996984281 VPPPPRRRRRR 11 Unmodified _VPPPPRRRRRR_ 0 0 0 nc|ENSG00000100918|O95072-2|REC8;ENSG00000100918|ENST00000611366|REC8 nc|ENSG00000100918|O95072-2|REC8 nc|ENSG00000100918|O95072-2|REC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 721.95361328125 2 721.955627 1441.8967 NaN NaN NaN NaN NaN NaN NaN 53.978 1 54.644 54.144 55.144 0.6665 0 0 0 1.008 1 24688 24688 0.35063 0.043601 1 36102 1250 22957 23029 40511 40511 0.1934276970175688 VPPPTEASGL 10 Unmodified _VPPPTEASGL_ 0 0 0 REV__nc|ENSG00000122779|O15164-2|TRIM24 REV__nc|ENSG00000122779|O15164-2|TRIM24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.17523193359375 3 323.17468 966.502212 2.3085 0.00074604 0.55839 0.00018046 2.8669 0.0009265 323.1747100772765 13.254 0.2335 13.896 13.803 14.037 0.64272 33 18 3 0 0 0 0.73282 1 5991 5991 6.6304 0 1 790500 + 36103 11594 22958 23030 40512 40512 0.017620613150143072 VPPRKTPV 8 Unmodified _VPPRKTPV_ 0 0 0 REV__ENST00000401715.2_1_6:10118966-10119482:+|nuORF REV__ENST00000401715.2_1_6:10118966-10119482:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 447.6272888183594 2 447.281995 892.549437 NaN NaN NaN NaN NaN NaN NaN 83.927 1 84.175 83.675 84.675 0.24722 0 0 0 0.93233 1 38630 38630 10.183 0 1 + 36104 16045 22959 23031 40513 40513 0.09886385376648832 VPPRLQRR 8 Unmodified _VPPRLQRR_ 0 0 0 REV__ENST00000480362.5_1_13:115047238-115047316:+|nuORF REV__ENST00000480362.5_1_13:115047238-115047316:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 341.2176208496094 3 341.217437 1020.63048 NaN NaN NaN NaN NaN NaN NaN 43.736 1 43.736 43.236 44.236 0 0 0 0 0.99035 1 19948 19948 0.40072 0 1 + 36105 16687 22960 23032 40514 40514 0.12099086139414794 VPQDSRAWRL 10 Unmodified _VPQDSRAWRL_ 0 0 0 ENST00000503670.5_1_6:30854463-30854742:+|nuORF ENST00000503670.5_1_6:30854463-30854742:+|nuORF ENST00000503670.5_1_6:30854463-30854742:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.8920593261719 3 409.891278 1226.652 2.7475 0.0011262 -0.068911 -2.8246E-05 2.6786 0.0010979 409.8911606415021 15.583 0.99096 15.889 15.552 16.543 0.306 152 114 2 0 0 0 0.9406 1 6970 6970 0.77653 0 1 172260 36106 8491 22961 23033 40515 40515 0.0477442637745753 VPQETTTPL 9 Unmodified _VPQETTTPL_ 0 0 0 REV__ENSG00000163710|ENST00000295992|PCOLCE2 REV__ENSG00000163710|ENST00000295992|PCOLCE2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.2648620605469 2 493.263665 984.512776 3.0005 0.00148 0.34274 0.00016906 3.3432 0.0016491 493.2639303450435 25.567 0.40286 26.33 26.167 26.57 0.76356 57 30 3 0 0 0 0.071101 1 11451 11451 39.957 9.3208 1 645300 + 36107 13019 22962 23034 40516 40516 0.01990043969431099 VPQPLWPL 8 Unmodified _VPQPLWPL_ 0 0 0 REV__PCDH19|p.E1054Rfs*76|1|0.38|ENSG00000165194|chrX:100296564-100296564|C/-|frameshift_variant REV__PCDH19|p.E1054Rfs*76|1|0.38|ENSG00000165194|chrX:100296564-100296564|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.2794494628906 2 475.278921 948.543289 NaN NaN NaN NaN NaN NaN NaN 61.891 1 62.551 62.051 63.051 0.66008 0 0 0 0.99035 1 28353 28353 2.8892 0 1 + 36108 18198 22963 23035 40517 40517 0.06695867145140255 VPQQAPVVP 9 Unmodified _VPQQAPVVP_ 0 0 0 REV__nc|ENSG00000125363|Q99217-2|AMELX REV__nc|ENSG00000125363|Q99217-2|AMELX MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 934.40234375 1 934.535643 933.528367 3.3158 0.0030987 0.16849 0.00015746 3.4843 0.0032562 934.5372590224073 94.881 0.21804 94.881 94.847 95.065 0 33 24 2 0 0 0 0.076365 1 51036 51036 21.747 13.836 1 14071000 + 36109 11676 22964 23036 40518 40518 0.05894375277136987 VPQQAPVVP 9 Unmodified _VPQQAPVVP_ 0 0 0 REV__nc|ENSG00000125363|Q99217-2|AMELX REV__nc|ENSG00000125363|Q99217-2|AMELX MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 934.535643 933.528367 2.4777 0.0023155 -1.619 -0.001513 0.8587 0.00080249 934.5345919357236 94.81 0.097458 94.892 94.822 94.92 0.082001 0.0053979 -0.0012549 NaN 21.747 15 12 2 NaN NaN NaN NaN 0 NaN NaN 0 17435000 + 36110 11676 22964 23036 0.05894375277136987 VPQSIKDL 8 Unmodified _VPQSIKDL_ 0 0 0 REV__ENSG00000162654|ENST00000355754|GBP4 REV__ENSG00000162654|ENST00000355754|GBP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 300.5119323730469 3 300.511404 898.512382 1.6292 0.00048958 0.92705 0.00027859 2.5562 0.00076817 300.51159278523517 13.048 0.18406 13.356 13.279 13.463 0.30727 10 9 2 0 0 0 0.68261 1 5900 5900 7.2892 0 1 73868 + 36111 12951 22965 23037 40519 40519 0.05906669040234647 VPQSLPLV 8 Unmodified _VPQSLPLV_ 0 0 0 REV__ADNP2|p.K740Sfs*3|1|0.37|ENSG00000101544|chr18:80137630-80137630|A/-|frameshift_variant REV__ADNP2|p.K740Sfs*3|1|0.37|ENSG00000101544|chr18:80137630-80137630|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 426.76568603515625 2 426.763104 851.511654 NaN NaN NaN NaN NaN NaN NaN 74.621 1 75.286 74.786 75.786 0.6644 0 0 0 0.99035 1 34355 34355 2.5775 0 1 + 36112 9930 22966 23038 40520 40520 0.07995874391201596 VPQWQFQAC 9 Unmodified _VPQWQFQAC_ 0 0 0 REV__ENSG00000165164|ENST00000378653|CFAP47 REV__ENSG00000165164|ENST00000378653|CFAP47 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.5964965820312 2 553.758027 1105.5015 NaN NaN NaN NaN NaN NaN NaN 80.102 1 80.102 79.602 80.602 0 0 0 0 0.90611 1 39674 39674 2.0598 0 1 + 36113 13143 22967 23039 40521 40521 -0.047030566056946554 VPRARRRRRL 10 Unmodified _VPRARRRRRL_ 0 0 0 ENST00000504087.5_1_4:125633653-125633758:-|nuORF ENST00000504087.5_1_4:125633653-125633758:-|nuORF ENST00000504087.5_1_4:125633653-125633758:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.4866943359375 2 668.43707 1334.85959 NaN NaN NaN NaN NaN NaN NaN 98.435 1 98.501 98.001 99.001 0.066025 0 0 0 0.99983 1 52921 52921 1.8442 0.36234 1 36114 8495 22968 23040 40522 40522 0.20555098156023632 VPRDFDEG 8 Unmodified _VPRDFDEG_ 0 0 0 REV__ENST00000532451.1_1_11:121323091-121416136:+|nuORF REV__ENST00000532451.1_1_11:121323091-121416136:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 467.7189636230469 2 467.716882 933.41921 2.9061 0.0013592 0.012207 5.7095E-06 2.9183 0.0013649 467.71689255212823 22.014 0.63405 22.014 21.782 22.416 0 67 51 2 0 0 0 0.58952 1 9938 9938 14.838 6.9281 1 154890 + 36115 12120 22969 23041 40523 40523 -0.05016255412999726 VPRDGVLDVE 10 Unmodified _VPRDGVLDVE_ 0 0 0 nc|ENSG00000130589|Q9BYK8-2|HELZ2;ENSG00000130589|ENST00000467148|HELZ2;nc|ENSG00000130589|Q9BYK8|HELZ2 nc|ENSG00000130589|Q9BYK8-2|HELZ2 nc|ENSG00000130589|Q9BYK8-2|HELZ2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.5306091308594 3 366.864506 1097.57169 2.7026 0.0009915 -2.1922 -0.00080425 0.5104 0.00018725 366.8638662665571 41.154 0.10714 41.154 41.059 41.166 0 11 7 2 0 0 0 0.12676 1 18668 18668 3.5871 0 1 1140300 36116 2601 22970 23042 40524 40524 0.02680520263766084 VPREQCENAK 10 Unmodified _VPREQCENAK_ 0 0 0 REV__nc|ENSG00000132530|Q6GPH4-3|XAF1 REV__nc|ENSG00000132530|Q6GPH4-3|XAF1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 391.57720947265625 3 391.860878 1172.56081 2.2901 0.00089739 0.85801 0.00033622 3.1481 0.0012336 391.86111582401 33.923 0.22107 34.712 34.61 34.831 0.78921 25 14 2 0 0 0 0.12452 1 15405 15405 3.5871 0 1 415710 + 36117 11896 22971 23043 40525 40525 -0.018572053821799273 VPRLKPALI 9 Unmodified _VPRLKPALI_ 0 0 0 REV__nc|ENSG00000127586|Q8WVB6-3|CHTF18 REV__nc|ENSG00000127586|Q8WVB6-3|CHTF18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.73992919921875 2 503.84222 1005.66989 NaN NaN NaN NaN NaN NaN NaN 57.674 1 58.443 57.943 58.943 0.76861 0 0 0 0.90511 1 26424 26424 2.3027 0 1 + 36118 11744 22972 23044 40526 40526 0.16727793370273503 VPRLKTWL 8 Unmodified _VPRLKTWL_ 0 0 0 ENST00000473828.1_1_1:109633494-109635705:+|nuORF;ENSG00000215717|ENST00000338272|TMEM167B;ENST00000479160.1_1_1:109634321-109637118:+|nuORF ENST00000473828.1_1_1:109633494-109635705:+|nuORF ENST00000473828.1_1_1:109633494-109635705:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.8203125 2 506.818744 1011.62294 3.33 0.0016877 -0.89996 -0.00045612 2.43 0.0012316 506.8184676340431 47.817 0.18233 48.471 48.38 48.562 0.65356 12 8 2 0 0 0 0.62895 1 21906 21906 11.64 0 1 304340 36119 6137 22973 23045 40527 40527 0.11758933819135109 VPRMLNRSL 9 Unmodified _VPRMLNRSL_ 0 0 0 REV__ENST00000532896.5_1_19:18304624-18307257:+|nuORF REV__ENST00000532896.5_1_19:18304624-18307257:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.3172607421875 2 543.316043 1084.61753 NaN NaN NaN NaN NaN NaN NaN 31.987 1 32.604 32.104 33.104 0.61736 0 0 0 0.89509 1 14668 14668 4.756 0.81161 1 + 36120 17154 22974 23046 40528 40528 0.07860886965022473 VPRNRLGRTRA 11 Unmodified _VPRNRLGRTRA_ 0 0 0 REV__ENST00000382363.7_1_22:30774947-30775040:-|nuORF REV__ENST00000382363.7_1_22:30774947-30775040:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 432.5986633300781 3 432.597088 1294.76943 3.7332 0.001615 0.081001 3.5041E-05 3.8142 0.00165 432.5970514976255 100.55 0.15176 100.86 100.79 100.94 0.31412 17 5 5 0 0 0 0.91359 1 46520 46520 0.40827 0.041592 1 17328000 + 36121 15897 22975 23047 40529 40529 0.13384004036925035 VPRNRLGRTRA 11 Unmodified _VPRNRLGRTRA_ 0 0 0 REV__ENST00000382363.7_1_22:30774947-30775040:-|nuORF REV__ENST00000382363.7_1_22:30774947-30775040:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 432.59893798828125 3 432.597088 1294.76943 3.2633 0.0014117 0.55843 0.00024158 3.8217 0.0016533 432.5972446914158 100.44 0.15077 101.04 100.96 101.11 0.59717 14 5 4 0 0 0 0.91359 1 46494 46494 0.40827 0.041592 1 18843000 + 36122 15897 22975 23047 40530 40530 0.13384004036925035 VPRNRLGRTRA 11 Unmodified _VPRNRLGRTRA_ 0 0 0 REV__ENST00000382363.7_1_22:30774947-30775040:-|nuORF REV__ENST00000382363.7_1_22:30774947-30775040:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 432.597088 1294.76943 3.7332 0.001615 0.081001 3.5041E-05 3.8142 0.00165 432.5970514976255 100.55 0.15176 100.86 100.79 100.94 0.31412 -0.087325 -0.00025063 NaN 0.40827 17 5 5 NaN NaN NaN NaN 0 NaN NaN 0 17328000 + 36123 15897 22975 23047 0.13384004036925035 VPRNRLGRTRA 11 Unmodified _VPRNRLGRTRA_ 0 0 0 REV__ENST00000382363.7_1_22:30774947-30775040:-|nuORF REV__ENST00000382363.7_1_22:30774947-30775040:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 432.597088 1294.76943 3.2633 0.0014117 0.55843 0.00024158 3.8217 0.0016533 432.5972446914158 100.44 0.15077 101.04 100.96 101.11 0.59717 0.087325 0.00036898 NaN 0.40827 14 5 4 NaN NaN NaN NaN 0 NaN NaN 0 18843000 + 36124 15897 22975 23047 0.13384004036925035 VPRPWGARRCR 11 Unmodified _VPRPWGARRCR_ 0 0 0 REV__ENST00000380762.4_1_X:11129527-11130147:+|nuORF REV__ENST00000380762.4_1_X:11129527-11130147:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 677.3739624023438 2 677.375289 1352.73603 NaN NaN NaN NaN NaN NaN NaN 79.552 1 79.803 79.303 80.303 0.25127 0 0 0 1.0073 1 36631 36631 1.1933 0 1 + 36125 15884 22976 23048 40531 40531 0.07376678993364294 VPRRLKLHVKI 11 Unmodified _VPRRLKLHVKI_ 0 0 0 REV__nc|ENSG00000266094|Q8WWW0-2|RASSF5 REV__nc|ENSG00000266094|Q8WWW0-2|RASSF5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 453.6402587890625 3 453.641746 1357.90341 NaN NaN NaN NaN NaN NaN NaN 67.75 1 68.452 67.952 68.952 0.70218 0 0 0 1.0072 1 32246 32246 0.45452 0.046251 1 + 36126 14707 22977 23049 40532 40532 0.23877269809759127 VPRRLKLLVH 10 Unmodified _VPRRLKLLVH_ 0 0 0 REV__nc|ENSG00000188554|Q14596-2|NBR1 REV__nc|ENSG00000188554|Q14596-2|NBR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 615.9102783203125 2 615.911499 1229.80845 NaN NaN NaN NaN NaN NaN NaN 65.493 1 65.493 64.993 65.993 0 0 0 0 0.99983 1 31212 31212 1.8442 0 1 + 36127 14151 22978 23050 40533 40533 0.20273336338595982 VPRRLLVRRRL 11 Unmodified _VPRRLLVRRRL_ 0 0 0 REV__ENST00000526349.5_1_8:42729111-42751823:-|nuORF REV__ENST00000526349.5_1_8:42729111-42751823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 717.4884033203125 2 717.486228 1432.9579 NaN NaN NaN NaN NaN NaN NaN 50.33 1 50.33 49.83 50.83 0 0 0 0 1.0082 1 23043 23043 0 0 1 + 36128 17090 22979 23051 40534 40534 0.25874281681217326 VPRRRRRRMRR 11 Unmodified _VPRRRRRRMRR_ 0 0 0 REV__nc|ENSG00000182872|P0DW28|RBM10 REV__nc|ENSG00000182872|P0DW28|RBM10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 797.9985961914062 2 797.997834 1593.98112 NaN NaN NaN NaN NaN NaN NaN 91.814 1 91.814 91.314 92.314 0 0 0 0 1.0082 1 48614 48614 0 0 1 + 36129 18071 22980 23052 40535 40535 0.20788397246860768 VPRRRRRRRRK 11 Unmodified _VPRRRRRRRRK_ 0 0 0 REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL REV__nc|ENSG00000062650|Q7Z5K2-2|WAPL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 796.5267944335938 2 796.525073 1591.03559 NaN NaN NaN NaN NaN NaN NaN 29.314 1 29.314 28.814 29.814 0 0 0 0 1.0082 1 13228 13228 0 0 1 + 36130 17861 22981 23053 40536 40536 0.2637173238993 VPRRVLQILPV 11 Unmodified _VPRRVLQILPV_ 0 0 0 REV__nc|ENSG00000009413|O60673-2|REV3L REV__nc|ENSG00000009413|O60673-2|REV3L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.522705078125 2 645.424439 1288.83433 NaN NaN NaN NaN NaN NaN NaN 98.922 1 98.988 98.488 99.488 0.066025 0 0 0 1.0071 1 53327 53327 1.4819 0 1 + 36131 10214 22982 23054 40537 40537 0.20146185790213167 VPRSIKVEL 9 Unmodified _VPRSIKVEL_ 0 0 0 REV__AluSz_dup29988|chr5:139546488-139546785:-|3.318666587420066|0.200378819868662|4.05|524.0|1|1|sense REV__AluSz_dup29988|chr5:139546488-139546785:-|3.318666587420066|0.200378819868662|4.05|524.0|1|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 520.8306884765625 2 520.826766 1039.63898 NaN NaN NaN NaN NaN NaN NaN 79.649 1 79.969 79.469 80.469 0.31998 0 0 0 0.65681 1 38913 38913 13.906 0 1 + 36132 9955 22983 23055 40538 40538 0.12074595265357857 VPRSLEPPVL 10 Unmodified _VPRSLEPPVL_ 0 0 0 ENSG00000073614|ENST00000399788|KDM5A;nc|ENSG00000073614|P29375-2|KDM5A ENSG00000073614|ENST00000399788|KDM5A ENSG00000073614|ENST00000399788|KDM5A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.832275390625 2 553.832049 1105.64954 NaN NaN NaN NaN NaN NaN NaN 83.882 1 84.544 84.044 85.044 0.66219 0 0 0 0.99733 1 38636 38636 3.9444 1.2092 1 36133 810 22984 23056 40539 40539 0.10094577919812764 VPRSLIYL 8 Unmodified _VPRSLIYL_ 0 0 0 ENST00000367091.7_1_1:207078149-207078371:-|nuORF ENST00000367091.7_1_1:207078149-207078371:-|nuORF ENST00000367091.7_1_1:207078149-207078371:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 320.8670959472656 3 320.867411 959.580402 2.4409 0.00078321 0.38687 0.00012413 2.8278 0.00090734 320.8678224103577 12.71 0.16887 13.353 13.244 13.413 0.64272 10 4 3 0 0 0 0.71911 1 5705 5705 4.3292 0 1 354390 36134 7247 22985 23057 40540 40540 0.09899538690888221 VPRVETKL 8 Unmodified _VPRVETKL_ 0 0 0 ENSG00000118997|ENST00000312428|DNAH7;nc|ENSG00000118997|Q8WXX0-4|DNAH7 ENSG00000118997|ENST00000312428|DNAH7 ENSG00000118997|ENST00000312428|DNAH7 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 314.1968994140625 3 314.530798 940.570566 1.9679 0.00061896 -0.16193 -5.0932E-05 1.806 0.00056803 314.5306639144701 36.164 0.27766 36.164 36.019 36.296 0 19 13 2 0 0 0 0.14313 1 16442 16442 1.6526 0.17072 1 316490 36135 2130 22986 23058 40541 40541 0.09790350685523208 VPRVLLIH 8 Unmodified _VPRVLLIH_ 0 0 0 ENST00000554456.1_1_14:58711972-58712140:+|nuORF ENST00000554456.1_1_14:58711972-58712140:+|nuORF ENST00000554456.1_1_14:58711972-58712140:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 316.2122802734375 3 316.2114 945.612371 NaN NaN NaN NaN NaN NaN NaN 24.367 1 25.103 24.603 25.603 0.73623 0 0 0 0.99035 1 10916 10916 0 0 1 36136 8906 22987 23059 40542 40542 0.13738951164714308 VPRVPGGLG 9 Unmodified _VPRVPGGLG_ 0 0 0 REV__nc|ENSG00000143207|Q8NHY2-5|COP1 REV__nc|ENSG00000143207|Q8NHY2-5|COP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 426.2600402832031 2 426.25852 850.502486 NaN NaN NaN NaN NaN NaN NaN 16.024 1 16.682 16.182 17.182 0.65798 0 0 0 0.91452 1 7222 7222 0 0 1 + 36137 12357 22988 23060 40543 40543 0.07125525825540535 VPSEVEPFL 9 Unmodified _VPSEVEPFL_ 0 0 0 nc|ENSG00000017483|Q8WUX1-2|SLC38A5;ENSG00000017483|ENST00000620913|SLC38A5 nc|ENSG00000017483|Q8WUX1-2|SLC38A5 nc|ENSG00000017483|Q8WUX1-2|SLC38A5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 508.7670593261719 2 508.768583 1015.52261 2.9912 0.0015219 -0.19241 -9.7892E-05 2.7988 0.001424 508.76863186339864 74.101 0.29843 74.36 74.182 74.48 0.25875 52 35 2 0 0 0 0.041436 1 34030 34030 50.855 16.753 1 1458400 36138 442 22989 23061 40544 40544 0.015472319748255359 VPSEVEPFL 9 Unmodified _VPSEVEPFL_ 0 0 0 nc|ENSG00000017483|Q8WUX1-2|SLC38A5;ENSG00000017483|ENST00000620913|SLC38A5 nc|ENSG00000017483|Q8WUX1-2|SLC38A5 nc|ENSG00000017483|Q8WUX1-2|SLC38A5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.76959228515625 2 508.768583 1015.52261 2.7725 0.0014106 -0.35766 -0.00018196 2.4149 0.0012286 508.7687242387249 73.594 0.31395 74.258 74.051 74.365 0.6644 57 36 2 0 0 0 0.12301 2 33859 33797;33859 28.487 4.2769 1 1457100 36139 442 22989 23061 40545;40546 40546 0.015472319748255359 VPSHLYKVI 9 Unmodified _VPSHLYKVI_ 0 0 0 nc|ENSG00000157036|Q9Y2C4-3|EXOG;nc|ENSG00000157036|Q9Y2C4-4|EXOG;ENSG00000157036|ENST00000287675|EXOG nc|ENSG00000157036|Q9Y2C4-3|EXOG nc|ENSG00000157036|Q9Y2C4-3|EXOG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.5474853515625 3 352.546449 1054.61752 2.3427 0.00082589 0.064817 2.2851E-05 2.4075 0.00084874 352.5464689340757 33.755 0.54043 34.376 34.137 34.677 0.62031 89 25 4 0 0 0 0.17594 1 15407 15407 24.991 1.2012 1 17925000 36140 3936 22990 23062 40547 40547 0.09239210236660256 VPSKDAEEM 9 Unmodified _VPSKDAEEM_ 0 0 0 nc|ENSG00000135913|Q86T82-2|USP37;ENSG00000135913|ENST00000258399|USP37 nc|ENSG00000135913|Q86T82-2|USP37 nc|ENSG00000135913|Q86T82-2|USP37 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.23309326171875 2 503.231507 1004.44846 NaN NaN NaN NaN NaN NaN NaN 14.093 1 14.319 13.819 14.819 0.22622 0 0 0 0.65681 1 6185 6185 13.906 3.8321 1 36141 2907 22991 23063 40548 40548 -0.05358479179017195 VPSKDAEEM 9 Unmodified _VPSKDAEEM_ 0 0 0 nc|ENSG00000135913|Q86T82-2|USP37;ENSG00000135913|ENST00000258399|USP37 nc|ENSG00000135913|Q86T82-2|USP37 nc|ENSG00000135913|Q86T82-2|USP37 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.23309326171875 2 503.231507 1004.44846 3.3479 0.0016848 0.39756 0.00020007 3.7455 0.0018848 503.2317260514359 13.679 0.11168 14.327 14.258 14.37 0.64819 11 7 2 0 0 0 0.68285 1 6157 6157 9.3831 2.0939 1 117870 36142 2907 22991 23063 40549 40549 -0.05358479179017195 VPSKDAEEM 9 Unmodified _VPSKDAEEM_ 0 0 0 nc|ENSG00000135913|Q86T82-2|USP37;ENSG00000135913|ENST00000258399|USP37 nc|ENSG00000135913|Q86T82-2|USP37 nc|ENSG00000135913|Q86T82-2|USP37 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 503.231507 1004.44846 3.0634 0.0015416 0.91052 0.0004582 3.974 0.0019998 503.23178948746573 14.319 0.25225 14.319 14.25 14.503 0 -0.0039866 0.00024267 NaN 9.3831 20 15 2 NaN NaN NaN NaN 0 NaN NaN 0 414050 36143 2907 22991 23063 -0.05358479179017195 VPSKQRDL 8 Unmodified _VPSKQRDL_ 0 0 0 ENSG00000172725|ENST00000341356|CORO1B ENSG00000172725|ENST00000341356|CORO1B ENSG00000172725|ENST00000341356|CORO1B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.7957458496094 2 471.771991 941.529429 3.0505 0.0014392 1.2564 0.00059271 4.3069 0.0020319 471.77203993533584 35.631 0.37081 36.257 35.996 36.367 0.62631 20 12 2 0 0 0 0.14146 1 16239 16239 5.2307 0 1 402220 36144 4886 22992 23064 40550 40550 0.05632589646052111 VPSLLFFPHA 10 Unmodified _VPSLLFFPHA_ 0 0 0 REV__ENSG00000087074|ENST00000200453|PPP1R15A REV__ENSG00000087074|ENST00000200453|PPP1R15A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.50146484375 2 564.316035 1126.61752 NaN NaN NaN NaN NaN NaN NaN 54.807 1 54.807 54.307 55.307 0 0 0 0 0.99733 1 25160 25160 3.9444 0.66309 1 + 36145 10660 22993 23065 40551 40551 0.05927210236677638 VPSPGRLIEHY 11 Unmodified _VPSPGRLIEHY_ 0 0 0 REV__ENST00000242059.9_1_7:29961976-29962051:-|nuORF REV__ENST00000242059.9_1_7:29961976-29962051:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 634.3441162109375 2 634.343312 1266.67207 NaN NaN NaN NaN NaN NaN NaN 29.164 1 29.424 28.924 29.924 0.2602 0 0 0 1.0047 1 13271 13271 4.5289 1.2476 1 + 36146 14882 22994 23066 40552 40552 0.0494017731743952 VPSPLNMGTL 10 Oxidation (M) _VPSPLNM(Oxidation (M))GTL_ VPSPLNM(1)GTL VPSPLNM(42)GTL 0 0 1 REV__nc|ENSG00000183117|Q96PZ7-2|CSMD1 REV__nc|ENSG00000183117|Q96PZ7-2|CSMD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.7742309570312 2 522.773342 1043.53213 2.5695 0.0013432 0.42108 0.00022013 2.9905 0.0015634 522.7734368915898 71.692 0.78596 71.692 71.257 72.043 0 181 77 4 0 0 0 0.1787 1 34912 34912 41.84 7.4379 1 7015800 + 36147 13919 22995 23067 40553 40553 97 0.012106769886941038 VPSRRSKLR 9 Unmodified _VPSRRSKLR_ 0 0 0 ENST00000425494.1_1_10:37812205-37812634:+|nuORF;ENST00000522955.5_1_8:38663104-38684943:+|nuORF;nc|ENSG00000147526|O75410-3|TACC1;nc|ENSG00000147526|O75410-7|TACC1;nc|ENSG00000147526|O75410-9|TACC1;ENSG00000147526|ENST00000317827|TACC1;nc|ENSG00000147526|O75410-2|TACC1 ENST00000425494.1_1_10:37812205-37812634:+|nuORF ENST00000425494.1_1_10:37812205-37812634:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.90118408203125 3 366.899996 1097.67816 2.9794 0.0010931 0.50505 0.0001853 3.4844 0.0012784 366.90026436950717 10.531 0.3253 11.164 11.02 11.346 0.63304 47 30 2 0 0 0 1.2328 1 4714 4714 0.20686 0 1 89215 36148 3569 22996 23068 40554 40554 0.1332274033959493 VPTEENEM 8 Unmodified _VPTEENEM_ 0 0 0 nc|ENSG00000120694|Q92598-2|HSPH1;nc|ENSG00000120694|Q92598-3|HSPH1;ENSG00000120694|ENST00000320027|HSPH1;nc|ENSG00000120694|Q92598-4|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.70391845703125 2 474.702583 947.390612 2.6819 0.0012731 -0.17524 -8.3188E-05 2.5066 0.0011899 474.70258071240767 24.838 0.48921 25.574 25.346 25.835 0.73623 125 63 3 0 0 0 0.013019 4 11104 11056;11104;11148;11192 93.883 40.308 1 2216300 36149 2206 22997 23069 40555;40556;40557;40558 40556 -0.08518741104455785 VPTEENEM 8 Unmodified _VPTEENEM_ 0 0 0 nc|ENSG00000120694|Q92598-2|HSPH1;nc|ENSG00000120694|Q92598-3|HSPH1;ENSG00000120694|ENST00000320027|HSPH1;nc|ENSG00000120694|Q92598-4|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.70428466796875 2 474.702583 947.390612 3.1149 0.0014786 -0.063093 -2.995E-05 3.0518 0.0014487 474.7025679922868 25.434 0.5415 25.701 25.48 26.022 0.26777 124 52 3 0 0 0 0.013019 4 11515 11474;11515;11558;11605 93.883 40.308 1 1926300 36150 2206 22997 23069 40559;40560;40561;40562 40560 -0.08518741104455785 VPTEENEM 8 Unmodified _VPTEENEM_ 0 0 0 nc|ENSG00000120694|Q92598-2|HSPH1;nc|ENSG00000120694|Q92598-3|HSPH1;ENSG00000120694|ENST00000320027|HSPH1;nc|ENSG00000120694|Q92598-4|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 nc|ENSG00000120694|Q92598-2|HSPH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 474.7034912109375 2 474.702583 947.390612 2.9655 0.0014077 -0.056125 -2.6643E-05 2.9094 0.0013811 474.7025623884101 25.171 0.39663 25.8 25.659 26.056 0.62915 90 65 2 0 0 0 0.013019 4 11469 11469;11511;11560;11607 93.883 40.308 1 2892400 36151 2206 22997 23069 40563;40564;40565;40566 40563 -0.08518741104455785 VPTKGPLI 8 Unmodified _VPTKGPLI_ 0 0 0 REV__nc|ENSG00000123908|Q9UKV8-2|AGO2 REV__nc|ENSG00000123908|Q9UKV8-2|AGO2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.2734375 2 412.765646 823.516739 3.0845 0.0012732 3.8045 0.0015703 6.889 0.0028435 412.76745643565994 40.114 0.38488 40.381 40.322 40.707 0.26696 19 13 2 0 0 0 0.14304 1 18367 18367 1.8442 0 1 391300 + 36152 11627 22998 23070 40567 40567 0.09792178253815109 VPTLRQRKERN 11 Unmodified _VPTLRQRKERN_ 0 0 0 REV__ENST00000423385.1_1:142804566-142805260:-|nuORF REV__ENST00000423385.1_1:142804566-142805260:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 698.912353515625 2 698.910216 1395.80588 NaN NaN NaN NaN NaN NaN NaN 19.062 1 19.721 19.221 20.221 0.6583 0 0 0 1.008 1 8646 8646 0.26902 0 1 + 36153 16190 22999 23071 40568 40568 0.12380836142983753 VPTRLMAI 8 Unmodified _VPTRLMAI_ 0 0 0 REV__ENST00000489193.1_1_3:86062314-86062485:+|nuORF REV__ENST00000489193.1_1_3:86062314-86062485:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.7383117675781 2 450.770406 899.526258 NaN NaN NaN NaN NaN NaN NaN 55.613 1 55.613 55.113 56.113 0 0 0 0 0.99035 1 25570 25570 5.2307 0 1 + 36154 16787 23000 23072 40569 40569 0.07247623267676317 VPVAVKSLR 9 Unmodified _VPVAVKSLR_ 0 0 0 ENSG00000174292|ENST00000688331|TNK1;nc|ENSG00000174292|Q13470|TNK1 ENSG00000174292|ENST00000688331|TNK1 ENSG00000174292|ENST00000688331|TNK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 323.5475769042969 3 323.54656 967.617851 NaN NaN NaN NaN NaN NaN NaN 20.004 1 20.004 19.504 20.504 0 0 0 0 0.906 1 8934 8934 2.086 0.34373 1 36155 4971 23001 23073 40570 40570 0.1327462995652695 VPVEEPLEL 9 Unmodified _VPVEEPLEL_ 0 0 0 ENST00000560168.1_1_19:46268761-46269535:-|nuORF;ENSG00000177045|ENST00000317578|SIX5 ENST00000560168.1_1_19:46268761-46269535:-|nuORF ENST00000560168.1_1_19:46268761-46269535:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.6221313476562 2 512.78169 1023.54883 NaN NaN NaN NaN NaN NaN NaN 71.372 1 71.372 70.872 71.872 0 0 0 0 0.59707 1 34693 34693 15.847 1.0089 1 36156 5097 23002 23074 40571 40571 0.037995011462726325 VPVFWDLFHP 10 Unmodified _VPVFWDLFHP_ 0 0 0 REV__ENST00000381348.4_2_22:42353689-42353893:+|nuORF REV__ENST00000381348.4_2_22:42353689-42353893:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 628.8285522460938 2 628.826766 1255.63898 NaN NaN NaN NaN NaN NaN NaN 69.529 1 69.783 69.283 70.283 0.25443 0 0 0 0.99983 1 31840 31840 1.8442 0.36234 1 + 36157 14465 23003 23075 40572 40572 0.02138595265364529 VPVHVIRMEQ 10 Unmodified _VPVHVIRMEQ_ 0 0 0 ENSG00000141429|ENST00000269195|GALNT1 ENSG00000141429|ENST00000269195|GALNT1 ENSG00000141429|ENST00000269195|GALNT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1208.26904296875 1 1207.66159 1206.65431 3.3256 0.0040162 0.1637 0.0001977 3.4893 0.0042139 1207.6622674728446 22.662 0.029808 23.303 23.283 23.313 0.64051 5 3 2 0 0 0 0.93534 1 10319 10319 1.8442 0 1 2058400 36158 3249 23004 23076 40573 40573 0.05925138790917117 VPVKVVGV 8 Unmodified _VPVKVVGV_ 0 0 0 nc|ENSG00000139364|Q14DG7|TMEM132B;ENSG00000139364|ENST00000682704|TMEM132B;ENST00000534945.2_1_12:125834026-126068624:+|nuORF;nc|ENSG00000139364|Q14DG7-2|TMEM132B nc|ENSG00000139364|Q14DG7|TMEM132B nc|ENSG00000139364|Q14DG7|TMEM132B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.7711486816406 2 398.768189 795.521825 NaN NaN NaN NaN NaN NaN NaN 27.768 1 28.03 27.53 28.53 0.26245 0 0 0 0.99035 1 12627 12627 0 0 1 36159 3144 23005 23077 40574 40574 0.11588482116428622 VPVLEHKGL 9 Unmodified _VPVLEHKGL_ 0 0 0 REV__ENSG00000155254|ENST00000285605|MARVELD1 REV__ENSG00000155254|ENST00000285605|MARVELD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 331.2033996582031 3 331.202682 990.586216 NaN NaN NaN NaN NaN NaN NaN 22.82 1 23.408 22.908 23.908 0.58739 0 0 0 0.88072 1 10159 10159 6.6304 1.3335 1 + 36160 12737 23006 23078 40575 40575 0.09054637202575577 VPVLEHKGL 9 Unmodified _VPVLEHKGL_ 0 0 0 REV__ENSG00000155254|ENST00000285605|MARVELD1 REV__ENSG00000155254|ENST00000285605|MARVELD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 331.20391845703125 3 331.202682 990.586216 NaN NaN NaN NaN NaN NaN NaN 23.412 1 23.688 23.188 24.188 0.27562 0 0 0 0.64145 1 10579 10579 14.405 6.7964 1 + 36161 12737 23006 23078 40576 40576 0.09054637202575577 VPVLEHKGL 9 Unmodified _VPVLEHKGL_ 0 0 0 REV__ENSG00000155254|ENST00000285605|MARVELD1 REV__ENSG00000155254|ENST00000285605|MARVELD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.20361328125 3 331.202682 990.586216 2.2476 0.00074441 0.19606 6.4934E-05 2.4436 0.00080934 331.2027486278367 22.838 0.22145 23.478 23.351 23.572 0.64051 49 30 2 0 0 0 0.10584 2 10382 10382;10450 31.268 8.5321 1 2293600 + 36162 12737 23006 23078 40577;40578 40577 0.09054637202575577 VPVLKLQN 8 Unmodified _VPVLKLQN_ 0 0 0 REV__nc|ENSG00000172409|Q92989-2|CLP1 REV__nc|ENSG00000172409|Q92989-2|CLP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 303.8686828613281 3 304.195527 909.564752 2.3945 0.0007284 -1.1917 -0.00036252 1.2028 0.00036588 304.19503967261227 12.731 0.16912 13.374 13.311 13.48 0.64272 7 4 2 0 0 0 0.14346 1 5718 5718 0 0 1 192320 + 36163 13548 23007 23079 40579 40579 0.10635252173835852 VPVLKLQN 8 Unmodified _VPVLKLQN_ 0 0 0 REV__nc|ENSG00000172409|Q92989-2|CLP1 REV__nc|ENSG00000172409|Q92989-2|CLP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 304.195527 909.564752 1.9769 0.00060136 0.18521 5.6341E-05 2.1621 0.0006577 304.19556452749526 13.268 0.10336 13.511 13.485 13.589 0.24346 0.048629 3.185E-05 NaN 0 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 138510 + 36164 13548 23007 23079 0.10635252173835852 VPVPVFLP 8 Unmodified _VPVPVFLP_ 0 0 0 ENSG00000121741|ENST00000610343|ZMYM2 ENSG00000121741|ENST00000610343|ZMYM2 ENSG00000121741|ENST00000610343|ZMYM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.27099609375 2 434.270564 866.526576 3.1973 0.0013885 -1.0831 -0.00047037 2.1141 0.0009181 434.2701076885405 84.716 0.54597 85.382 85.006 85.552 0.66566 49 32 2 0 0 0 0.73686 1 38971 38971 2.8892 0 1 569090 36165 2239 23008 23080 40580 40580 0.08797366259182127 VPVPVFLP 8 Unmodified _VPVPVFLP_ 0 0 0 ENSG00000121741|ENST00000610343|ZMYM2 ENSG00000121741|ENST00000610343|ZMYM2 ENSG00000121741|ENST00000610343|ZMYM2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 434.270564 866.526576 2.9641 0.0012872 -1.2622 -0.00054813 1.702 0.00073911 434.26995779635797 85.407 0.51938 85.656 85.231 85.75 0.24857 0.13709 -5.4852E-05 NaN 2.8892 47 31 2 NaN NaN NaN NaN 0 NaN NaN 0 438610 36166 2239 23008 23080 0.08797366259182127 VPVQDQVL 8 Unmodified _VPVQDQVL_ 0 0 0 ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 897.50927734375 1 897.504009 896.496732 4.1073 0.0036863 -1.3712 -0.0012306 2.7361 0.0024557 897.5024327146689 48.247 0.18404 48.509 48.347 48.531 0.2621 11 6 2 0 0 0 0.070862 1 22047 22047 58.679 2.5018 1 555850 36167 6101 23009 23081 40581 40581 0.04434382523197655 VPVQDQVL 8 Unmodified _VPVQDQVL_ 0 0 0 ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 449.25640869140625 2 449.255643 896.496732 3.0109 0.0013527 -1.4038 -0.00063068 1.6071 0.00072199 449.2548637284576 48.244 0.35955 48.506 48.289 48.649 0.26209 39 18 3 0 0 0 0.037436 1 22081 22081 70.716 5.4805 1 1934400 36168 6101 23009 23081 40582 40582 0.04434382523197655 VPVQDQVL 8 Unmodified _VPVQDQVL_ 0 0 0 ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 449.255643 896.496732 3.123 0.001403 -2.0969 -0.00094204 1.0261 0.00046098 449.25448632948974 47.688 0.44393 48.342 48.09 48.534 0.65356 -0.082342 -0.00031606 NaN 70.716 47 19 3 NaN NaN NaN NaN 0 NaN NaN 0 1995000 36169 6101 23009 23081 0.04434382523197655 VPVQDQVLL 9 Unmodified _VPVQDQVLL_ 0 0 0 ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.7996826171875 2 505.797675 1009.5808 3.346 0.0016924 -0.9439 -0.00047742 2.4021 0.001215 505.79756671119657 64.605 0.22148 65.261 65.124 65.345 0.65672 12 7 2 0 0 0 0.10837 1 29609 29609 30.637 0 1 581430 36170 6101 23010 23082 40583 40583 0.07638913620110088 VPVQDQVLL 9 Unmodified _VPVQDQVLL_ 0 0 0 ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD ENSG00000213886|ENST00000377050|UBD MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 505.797675 1009.5808 3.3036 0.0016709 -0.70076 -0.00035445 2.6028 0.0013165 505.79734175869356 65.149 0.28648 65.397 65.249 65.535 0.24802 0.068024 0.00010726 NaN 30.637 19 13 2 NaN NaN NaN NaN 0 NaN NaN 0 499760 36171 6101 23010 23082 0.07638913620110088 VPVQLVNLP 9 Unmodified _VPVQLVNLP_ 0 0 0 REV__ENSG00000164199|ENST00000405460|ADGRV1 REV__ENSG00000164199|ENST00000405460|ADGRV1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 326.87200927734375 3 326.870932 977.590967 2.5126 0.00082129 0.60707 0.00019843 3.1196 0.0010197 326.87128150819024 12.682 0.13507 13.324 13.244 13.379 0.64272 8 3 3 0 0 0 1.1154 1 5715 5715 1.0715 0 1 3098100 + 36172 13076 23011 23083 40584 40584 0.1012752134532775 VPVRRRPRRRR 11 Unmodified _VPVRRRPRRRR_ 0 0 0 ENST00000358344.7_1_5:177631560-177631635:+|nuORF ENST00000358344.7_1_5:177631560-177631635:+|nuORF ENST00000358344.7_1_5:177631560-177631635:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 752.4862060546875 2 752.487625 1502.9607 NaN NaN NaN NaN NaN NaN NaN 60.093 1 60.093 59.593 60.593 0 0 0 0 1.0082 1 27852 27852 0 0 1 36173 7191 23012 23084 40585 40585 0.22933549858680635 VPVSMFLLL 9 Unmodified _VPVSMFLLL_ 0 0 0 REV__ENST00000275767.3_1_7:134832829-134849312:+|nuORF REV__ENST00000275767.3_1_7:134832829-134849312:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.805908203125 2 509.803914 1017.59328 3.1514 0.0016066 0.099422 5.0686E-05 3.2508 0.0016573 509.80383207747474 78.845 1.1176 79.096 78.239 79.357 0.25127 117 71 2 0 0 0 0.68285 1 36045 36045 5.2307 0 1 784470 + 36174 15076 23013 23085 40586 40586 0.08518233758786664 VPVWQWRRQQR 11 Unmodified _VPVWQWRRQQR_ 0 0 0 REV__ENST00000346169.6_1_3:184052699-184052807:+|nuORF REV__ENST00000346169.6_1_3:184052699-184052807:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.621826171875 3 513.619892 1537.83785 NaN NaN NaN NaN NaN NaN NaN 73.813 1 74.477 73.977 74.977 0.6644 0 0 0 1.0072 1 33953 33953 0.45452 0 1 + 36175 15508 23014 23086 40587 40587 0.09044248616760342 VPWHRLLL 8 Unmodified _VPWHRLLL_ 0 0 0 REV__ENST00000565396.5_1_16:2052722-2053019:-|nuORF REV__ENST00000565396.5_1_16:2052722-2053019:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.321533203125 2 517.318912 1032.62327 NaN NaN NaN NaN NaN NaN NaN 49.186 1 49.447 48.947 49.947 0.26146 0 0 0 0.99035 1 22484 22484 2.8892 0 1 + 36176 17415 23015 23087 40588 40588 0.10826353538982403 VPWLLLLLL 9 Unmodified _VPWLLLLLL_ 0 0 0 REV__nc|ENSG00000149451|Q9BZ11-2|ADAM33 REV__nc|ENSG00000149451|Q9BZ11-2|ADAM33 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 540.3654174804688 2 540.364996 1078.71544 NaN NaN NaN NaN NaN NaN NaN 36.321 1 36.947 36.447 37.447 0.62631 0 0 0 0.91452 1 16631 16631 0 0 1 + 36177 12568 23016 23088 40589 40589 0.17923018832675552 VPWRLLKLEIL 11 Unmodified _VPWRLLKLEIL_ 0 0 0 ENSG00000180182|ENST00000324817|MED14 ENSG00000180182|ENST00000324817|MED14 ENSG00000180182|ENST00000324817|MED14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.7259521484375 4 345.724787 1378.87004 2.3584 0.00081534 1.0184 0.0003521 3.3768 0.0011674 345.7251385276819 45.053 0.82317 45.321 44.764 45.587 0.26768 79 40 4 0 0 0 0.91359 1 20450 20450 0.40827 0.31342 1 3431500 36178 5240 23017 23089 40590 40590 0.19576223247236157 VPWRQYFL 8 Unmodified _VPWRQYFL_ 0 0 0 REV__ENSG00000184650|ENST00000328248|ODF4 REV__ENSG00000184650|ENST00000328248|ODF4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.2796630859375 2 554.800552 1107.58655 3.2533 0.0018049 0.96272 0.00053412 4.216 0.002339 554.8034367009695 75.064 0.029755 75.323 75.297 75.327 0.25831 4 2 2 0 0 0 0.13917 1 34518 34518 5.2307 1.9494 1 464500 + 36179 13984 23018 23090 40591 40591 0.037060569224195206 VPYEKGFAL 9 Unmodified _VPYEKGFAL_ 0 0 0 ENST00000548852.5_1_12:96397735-96429337:-|nuORF;ENST00000548375.5_1_12:96405582-96408866:-|nuORF;nc|ENSG00000111144|P09960-3|LTA4H;nc|ENSG00000111144|P09960-2|LTA4H;nc|ENSG00000111144|P09960-4|LTA4H;ENSG00000111144|ENST00000228740|LTA4H ENST00000548852.5_1_12:96397735-96429337:-|nuORF ENST00000548852.5_1_12:96397735-96429337:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 512.2811279296875 2 512.279118 1022.54368 3.4358 0.0017601 0.23535 0.00012056 3.6712 0.0018807 512.2791474935794 53.505 0.24912 53.769 53.601 53.85 0.26462 20 12 2 0 0 0 0.29024 1 24446 24446 24.021 9.4389 1 810130 36180 8856 23019 23091 40592 40592 0.03331242074330021 VPYEKGFAL 9 Unmodified _VPYEKGFAL_ 0 0 0 ENST00000548852.5_1_12:96397735-96429337:-|nuORF;ENST00000548375.5_1_12:96405582-96408866:-|nuORF;nc|ENSG00000111144|P09960-3|LTA4H;nc|ENSG00000111144|P09960-2|LTA4H;nc|ENSG00000111144|P09960-4|LTA4H;ENSG00000111144|ENST00000228740|LTA4H ENST00000548852.5_1_12:96397735-96429337:-|nuORF ENST00000548852.5_1_12:96397735-96429337:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.2800903320312 2 512.279118 1022.54368 3.2009 0.0016398 -0.20268 -0.00010383 2.9983 0.001536 512.780587185208 52.942 0.25204 53.606 53.494 53.746 0.6644 16 11 2 0 0 0 0.10277 1 24209 24209 41.84 9.5341 1 712850 36181 8856 23019 23091 40593 40593 0.03331242074330021 VPYRPLWVLV 10 Unmodified _VPYRPLWVLV_ 0 0 0 REV__ENST00000489483.5_1_3:48670389-48671049:-|nuORF REV__ENST00000489483.5_1_3:48670389-48671049:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 621.67236328125 2 621.373884 1240.73321 NaN NaN NaN NaN NaN NaN NaN 80.863 1 81.032 80.532 81.532 0.16862 0 0 0 1.0001 1 39664 39664 1.6526 0.17072 1 + 36182 14554 23020 23092 40594 40594 0.12247734087486606 VPYRPNEHL 9 Unmodified _VPYRPNEHL_ 0 0 0 nc|ENSG00000146839|Q9Y493-5|ZAN;nc|ENSG00000146839|Q9Y493-4|ZAN;nc|ENSG00000146839|Q9Y493-3|ZAN;nc|ENSG00000146839|Q9Y493-6|ZAN;nc|ENSG00000146839|Q9Y493-2|ZAN;ENSG00000146839|ENST00000613979|ZAN;nc|ENSG00000146839|Q9Y493-7|ZAN nc|ENSG00000146839|Q9Y493-5|ZAN nc|ENSG00000146839|Q9Y493-5|ZAN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.5341491699219 3 375.533091 1123.57744 2.7198 0.0010214 -0.070753 -2.657E-05 2.649 0.0009948 375.5329855082333 35.663 0.45045 35.918 35.713 36.164 0.25524 41 15 3 0 0 0 0.95612 1 16329 16329 5.2969 0 1 761460 36183 3532 23021 23093 40595 40595 0.020596635660922402 VPYSDTPWRYL 11 Unmodified _VPYSDTPWRYL_ 0 0 0 REV__nc|ENSG859|P60507|ERVFC1 REV__nc|ENSG859|P60507|ERVFC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 698.849609375 2 698.848427 1395.6823 3.6349 0.0025403 -0.67564 -0.00047217 2.9593 0.0020681 699.3491637898918 45 0.26919 45 44.881 45.15 0 33 12 3 0 0 0 0.7272 2 20557 20557;20608 10.074 4.3421 1 6811900 + 36184 18181 23022 23094 40596;40597 40596 0.00028740251991621335 VPYSDTPWRYL 11 Unmodified _VPYSDTPWRYL_ 0 0 0 REV__nc|ENSG859|P60507|ERVFC1 REV__nc|ENSG859|P60507|ERVFC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 698.8485107421875 2 698.848427 1395.6823 3.6242 0.0025328 -0.88518 -0.00061861 2.7391 0.0019142 698.8477104759711 44.731 0.35693 44.999 44.83 45.187 0.26768 53 19 3 0 0 0 0.7272 2 20423 20423;20474 10.074 4.3421 1 5827600 + 36185 18181 23022 23094 40598;40599 40598 0.00028740251991621335 VPYSDTPWRYL 11 Unmodified _VPYSDTPWRYL_ 0 0 0 REV__nc|ENSG859|P60507|ERVFC1 REV__nc|ENSG859|P60507|ERVFC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 698.850341796875 2 698.848427 1395.6823 4.1038 0.0028679 -0.72891 -0.0005094 3.3749 0.0023585 698.8478504951605 44.233 0.3409 44.883 44.751 45.092 0.64998 42 17 3 0 0 0 0.81464 2 20259 20259;20316 6.2058 0.47393 1 3011800 + 36186 18181 23022 23094 40600;40601 40600 0.00028740251991621335 VPYTKVQL 8 Unmodified _VPYTKVQL_ 0 0 0 ENSG00000123364|ENST00000243056|HOXC13;ENSG00000106031|ENST00000649031|HOXA13 ENSG00000123364|ENST00000243056|HOXC13 ENSG00000123364|ENST00000243056|HOXC13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 474.2830505371094 2 474.28166 946.548768 2.9231 0.0013864 -1.4542 -0.00068972 1.4689 0.00069665 474.2817212707155 43.372 0.3036 43.642 43.579 43.883 0.27021 21 13 2 0 0 0 0.51067 1 19826 19826 20.454 5.6154 1 443720 36187 2309 23023 23095 40602 40602 0.07335545936939525 VPYTQMPV 8 Unmodified _VPYTQMPV_ 0 0 0 REV__ENSG00000115145|ENST00000263904|STAM2 REV__ENSG00000115145|ENST00000263904|STAM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 934.473876953125 1 934.470266 933.462989 2.4646 0.0023031 -0.61749 -0.00057703 1.8471 0.001726 934.4706531913602 95.239 0.17749 95.321 95.226 95.403 0.082008 25 19 2 0 0 0 0.63544 1 50303 50303 11.114 1.767 1 19533000 + 36188 11344 23024 23096 40603 40603 -0.006403622402217479 VPYTQMPV 8 Unmodified _VPYTQMPV_ 0 0 0 REV__ENSG00000115145|ENST00000263904|STAM2 REV__ENSG00000115145|ENST00000263904|STAM2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 934.4723510742188 1 934.470266 933.462989 2.5406 0.0023741 -1.2432 -0.0011617 1.2974 0.0012124 934.4706811649684 92.758 0.21432 92.844 92.695 92.909 0.086212 35 31 2 0 0 0 0.13779 1 48340 48340 11.114 8.2252 1 20712000 + 36189 11344 23024 23096 40604 40604 -0.006403622402217479 VPYVFPQLS 9 Unmodified _VPYVFPQLS_ 0 0 0 REV__ENST00000417788.5_1_22:22024636-22041216:+|nuORF REV__ENST00000417788.5_1_22:22024636-22041216:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.2280883789062 2 525.286943 1048.55933 3.3793 0.0017751 0.12364 6.4948E-05 3.5029 0.00184 525.2869882431016 33.492 0.31367 33.746 33.618 33.932 0.25389 38 18 3 0 0 0 1.1154 1 15193 15193 2.0598 0 1 582380 + 36190 10798 23025 23097 40605 40605 0.03699528591369017 VQAEKPNFFND 11 Unmodified _VQAEKPNFFND_ 0 0 0 ENSG00000111696|ENST00000392876|NT5DC3;nc|ENSG00000111696|Q86UY8-2|NT5DC3 ENSG00000111696|ENST00000392876|NT5DC3 ENSG00000111696|ENST00000392876|NT5DC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.8800048828125 3 436.878815 1307.61462 NaN NaN NaN NaN NaN NaN NaN 64.943 1 65.652 65.152 66.152 0.70891 0 0 0 1.0059 1 30626 30626 1.2148 0 1 36191 1772 23026 23098 40606 40606 -0.026887096787959308 VQAEYNWITPS 11 Unmodified _VQAEYNWITPS_ 0 0 0 ENSG00000250673|ENST00000623665|REELD1 ENSG00000250673|ENST00000623665|REELD1 ENSG00000250673|ENST00000623665|REELD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 654.0516357421875 2 654.31696 1306.61937 NaN NaN NaN NaN NaN NaN NaN 40.735 1 40.735 40.235 41.235 0 0 0 0 1.0038 1 18495 18495 5.7319 1.7875 1 36192 6265 23027 23099 40607 40607 -0.0216782553604844 VQALKYENF 9 Unmodified _VQALKYENF_ 0 0 0 ENSG00000078142|ENST00000262039|PIK3C3 ENSG00000078142|ENST00000262039|PIK3C3 ENSG00000078142|ENST00000262039|PIK3C3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.2946166992188 2 556.292756 1110.57096 3.5065 0.0019506 0.32531 0.00018097 3.8318 0.0021316 556.2927058793493 45.842 0.2496 46.107 45.983 46.232 0.26561 19 9 3 0 0 0 0.0014317 1 20948 20948 110.55 45.318 1 791260 36193 872 23028 23100 40608 40608 0.020097256146982545 VQALKYENF 9 Unmodified _VQALKYENF_ 0 0 0 ENSG00000078142|ENST00000262039|PIK3C3 ENSG00000078142|ENST00000262039|PIK3C3 ENSG00000078142|ENST00000262039|PIK3C3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.295654296875 2 556.292756 1110.57096 3.7345 0.0020775 0.3598 0.00020015 4.0943 0.0022776 556.2936015215206 45.215 0.29115 45.866 45.751 46.042 0.65104 22 11 3 0 0 0 0.023321 1 20731 20731 63.961 31.655 1 679530 36194 872 23028 23100 40609 40609 0.020097256146982545 VQAQRLHN 8 Unmodified _VQAQRLHN_ 0 0 0 REV__ENSG00000087128|ENST00000305363|TMPRSS11E REV__ENSG00000087128|ENST00000305363|TMPRSS11E MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 322.5151062011719 3 322.51403 964.520262 NaN NaN NaN NaN NaN NaN NaN 1.0887 1 1.0887 0.58871 1.5887 0 0 0 0 0.99035 1 499 499 0.40072 0 1 + 36195 10664 23029 23101 40610 40610 0.036582410803816856 VQAQRLHN 8 Unmodified _VQAQRLHN_ 0 0 0 REV__ENSG00000087128|ENST00000305363|TMPRSS11E REV__ENSG00000087128|ENST00000305363|TMPRSS11E MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 322.5149841308594 3 322.51403 964.520262 NaN NaN NaN NaN NaN NaN NaN 0.6086 1 1.0036 0.50364 1.5036 0.39503 0 0 0 0.99035 1 279 279 1.4819 0 1 + 36196 10664 23029 23101 40611 40611 0.036582410803816856 VQARLPIW 8 Unmodified _VQARLPIW_ 0 0 0 REV__SPNS2|p.Y339_H341del|1|0.22|ENSG00000183018|chr17:4533055-4533063|CTACCTGCA/-|inframe_deletion REV__SPNS2|p.Y339_H341del|1|0.22|ENSG00000183018|chr17:4533055-4533063|CTACCTGCA/-|inframe_deletion MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.7980651855469 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 52.422 1 52.422 51.922 52.922 0 0 0 0 0.99035 1 24005 24005 2.5775 0 1 + 36197 18219 23030 23102 40612 40612 0.08446074267999393 VQARLPIW 8 Unmodified _VQARLPIW_ 0 0 0 REV__SPNS2|p.Y339_H341del|1|0.22|ENSG00000183018|chr17:4533055-4533063|CTACCTGCA/-|inframe_deletion REV__SPNS2|p.Y339_H341del|1|0.22|ENSG00000183018|chr17:4533055-4533063|CTACCTGCA/-|inframe_deletion MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.79730224609375 2 491.795269 981.575986 2.9434 0.0014475 1.0957 0.00053888 4.0391 0.0019864 491.7958519339908 71.099 0.43425 71.356 71.138 71.573 0.25786 60 40 2 0 0 0 0.74071 1 32547 32547 2.5775 0 1 816700 + 36198 18219 23030 23102 40613 40613 0.08446074267999393 VQARLTQPA 9 Unmodified _VQARLTQPA_ 0 0 0 nc|ENSG00000132182|Q8TEM1-2|NUP210;ENSG00000132182|ENST00000254508|NUP210 nc|ENSG00000132182|Q8TEM1-2|NUP210 nc|ENSG00000132182|Q8TEM1-2|NUP210 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.2877502441406 2 492.285266 982.555979 3.3699 0.001659 0.28598 0.00014079 3.6559 0.0017997 492.28526158922864 88.889 0.38392 89.567 89.382 89.766 0.67818 27 16 2 0 0 0 1.1412 1 40972 40972 1.6526 0 1 1278000 36199 2685 23031 23103 40614 40614 0.06400278537364557 VQARRRRRRRE 11 Unmodified _VQARRRRRRRE_ 0 0 0 REV__ENST00000477216.1_1_3:170075473-170077492:+|nuORF REV__ENST00000477216.1_1_3:170075473-170077492:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 769.9723510742188 2 769.969797 1537.92504 NaN NaN NaN NaN NaN NaN NaN 92.518 1 92.518 92.018 93.018 0 0 0 0 1.008 1 49181 49181 0.26902 0.26902 1 + 36200 16662 23032 23104 40615 40615 0.17759467611062973 VQARSLHL 8 Unmodified _VQARSLHL_ 0 0 0 REV__ENST00000398676.3_1_10:70532822-70546470:+|nuORF REV__ENST00000398676.3_1_10:70532822-70546470:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.5201110839844 3 308.518893 922.534849 NaN NaN NaN NaN NaN NaN NaN 12.297 1 12.935 12.435 13.435 0.63746 0 0 0 0.92256 1 5484 5484 10.824 0 1 + 36201 10396 23033 23105 40616 40616 0.07048313228528968 VQARYPTLTL 10 Unmodified _VQARYPTLTL_ 0 0 0 ENST00000480561.5_1_3:48636563-48636770:-|nuORF ENST00000480561.5_1_3:48636563-48636770:-|nuORF ENST00000480561.5_1_3:48636563-48636770:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.3369140625 2 581.334956 1160.65536 NaN NaN NaN NaN NaN NaN NaN 96.878 1 96.878 96.378 97.378 0 0 0 0 0.99464 1 52558 52558 6.2058 0 1 36202 8279 23034 23106 40617 40617 0.08145676431468019 VQAVVLLLP 9 Unmodified _VQAVVLLLP_ 0 0 0 ENST00000581856.5_1_18:28923397-28923595:-|nuORF ENST00000581856.5_1_18:28923397-28923595:-|nuORF ENST00000581856.5_1_18:28923397-28923595:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 317.8812561035156 3 317.879428 950.616454 NaN NaN NaN NaN NaN NaN NaN 32.615 1 32.869 32.369 33.369 0.25452 0 0 0 0.91342 1 14853 14853 0.26902 0 1 36203 9154 23035 23107 40618 40618 0.13916995867759852 VQCFSCGG 8 Unmodified _VQCFSCGG_ 0 0 0 ENSG00000249437|ENST00000517649|NAIP;ENST00000512908.2_1_5:70398727-70422449:-|nuORF;ENST00000511830.2_1_5:69390488-69422514:-|nuORF;nc|ENSG00000249437|Q13075-2|NAIP ENSG00000249437|ENST00000517649|NAIP ENSG00000249437|ENST00000517649|NAIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 400.6583251953125 2 400.656924 799.299295 NaN NaN NaN NaN NaN NaN NaN 62.753 1 63.475 62.975 63.975 0.72236 0 0 0 0.99035 1 29323 29323 0.79363 0 1 36204 6260 23036 23108 40619 40619 -0.10838283282748762 VQCMWDCCC 9 Unmodified _VQCMWDCCC_ 0 0 0 ATRX|p.F1570C|1|0.34|ENSG00000085224|chrX:77634694-77634694|A/C|missense_variant ATRX|p.F1570C|1|0.34|ENSG00000085224|chrX:77634694-77634694|A/C|missense_variant ATRX|p.F1570C|1|0.34|ENSG00000085224|chrX:77634694-77634694|A/C|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.6306762695312 2 545.667794 1089.32103 NaN NaN NaN NaN NaN NaN NaN 76.432 1 76.432 75.932 76.932 0 0 0 0 0.90611 1 37458 37458 2.0598 1.2661 1 36205 81 23037 23109 40620 40620 -0.2200530591237566 VQCMWDCCCE 10 Unmodified _VQCMWDCCCE_ 0 0 0 ATRX|p.F1570C|1|0.34|ENSG00000085224|chrX:77634694-77634694|A/C|missense_variant ATRX|p.F1570C|1|0.34|ENSG00000085224|chrX:77634694-77634694|A/C|missense_variant ATRX|p.F1570C|1|0.34|ENSG00000085224|chrX:77634694-77634694|A/C|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 610.19091796875 2 610.18909 1218.36363 NaN NaN NaN NaN NaN NaN NaN 74.364 1 74.364 73.864 74.864 0 0 0 0 1.0015 1 36317 36317 0.45834 0.10771 1 36206 81 23038 23110 40621 40621 -0.23681955574807034 VQCYRWRVRWM 11 Unmodified _VQCYRWRVRWM_ 0 0 0 REV__ENSG00000184345|ENST00000333127|IQCF2 REV__ENSG00000184345|ENST00000333127|IQCF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 791.8951416015625 2 791.89774 1581.78093 NaN NaN NaN NaN NaN NaN NaN 61.724 1 61.724 61.224 62.224 0 0 0 0 1.0079 1 28827 28827 1.3295 0.13619 1 + 36207 13968 23039 23111 40622 40622 0.013307417443684244 VQDFFYEDME 10 Unmodified _VQDFFYEDME_ 0 0 0 ENST00000489994.5_1_7:112107978-112115571:+|nuORF ENST00000489994.5_1_7:112107978-112115571:+|nuORF ENST00000489994.5_1_7:112107978-112115571:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 441.21563720703125 3 441.513033 1321.51727 NaN NaN NaN NaN NaN NaN NaN 65.327 1 66.036 65.536 66.536 0.70891 0 0 0 1.0012 1 30887 30887 0.69767 0.19171 1 36208 8385 23040 23112 40623 40623 -0.13062859669980753 VQDLFPNIELP 11 Unmodified _VQDLFPNIELP_ 0 0 0 ENSG00000183914|ENST00000572933|DNAH2;nc|ENSG00000183914|Q9P225-2|DNAH2;ENST00000574518.1_1_17:7674005-7689702:+|nuORF ENSG00000183914|ENST00000572933|DNAH2 ENSG00000183914|ENST00000572933|DNAH2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 428.90081787109375 3 428.899328 1283.67615 2.231 0.00095686 1.3028 0.00055879 3.5338 0.0015157 428.8998555103684 71.734 0.35576 72.438 72.242 72.598 0.70386 65 41 2 0 0 0 0.904 1 34506 34506 2.2527 0.34635 1 2366300 36209 5411 23041 23113 40624 40624 0.045662220204803816 VQDTKLHV 8 Unmodified _VQDTKLHV_ 0 0 0 ENST00000373544.5_1_9:127982843-127983041:+|nuORF;nc|ENSG00000136933|Q7Z6M1-2|RABEPK;ENSG00000136933|ENST00000373538|RABEPK ENST00000373544.5_1_9:127982843-127983041:+|nuORF ENST00000373544.5_1_9:127982843-127983041:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.1790771484375 2 470.266542 938.51853 NaN NaN NaN NaN NaN NaN NaN 60.12 1 60.869 60.369 61.369 0.74927 0 0 0 0.94507 1 27672 27672 9.3474 0 1 36210 2989 23042 23114 40625 40625 0.046811872717512415 VQEKWKLEMKA 11 Unmodified _VQEKWKLEMKA_ 0 0 0 REV__nc|ENSG00000106052|Q86VP1-3|TAX1BP1 REV__nc|ENSG00000106052|Q86VP1-3|TAX1BP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 695.3798217773438 2 695.38158 1388.74861 NaN NaN NaN NaN NaN NaN NaN 12.531 1 12.531 12.031 13.031 0 0 0 0 1.006 1 5455 5455 3.2813 1.7994 1 + 36211 11069 23043 23115 40626 40626 0.06978232822370956 VQEMRQKHA 9 Unmodified _VQEMRQKHA_ 0 0 0 nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11 nc|ENSG00000133392|P35749-4|MYH11 nc|ENSG00000133392|P35749-4|MYH11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.1370239257812 2 563.792932 1125.57131 NaN NaN NaN NaN NaN NaN NaN 60.065 1 60.065 59.565 60.565 0 0 0 0 0.90611 1 27835 27835 2.0598 0.40713 1 36212 2759 23044 23116 40627 40627 0.013548220629445495 VQEQVRSLY 9 Unmodified _VQEQVRSLY_ 0 0 0 ENST00000533770.5_1_11:9861043-10215451:-|nuORF;nc|ENSG00000133812|Q86WG5-3|SBF2;ENSG00000133812|ENST00000256190|SBF2 ENST00000533770.5_1_11:9861043-10215451:-|nuORF ENST00000533770.5_1_11:9861043-10215451:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.40234375 2 561.301113 1120.58767 NaN NaN NaN NaN NaN NaN NaN 94.848 1 95.108 94.608 95.608 0.25975 0 0 0 0.90699 1 43583 43583 1.8442 0 1 36213 2771 23045 23117 40628 40628 0.032202265006844755 VQERMRRFPYI 11 Unmodified _VQERMRRFPYI_ 0 0 0 ENST00000246174.6_2_X:101854167-101854461:+|nuORF ENST00000246174.6_2_X:101854167-101854461:+|nuORF ENST00000246174.6_2_X:101854167-101854461:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 747.9054565429688 2 747.903545 1493.79254 NaN NaN NaN NaN NaN NaN NaN 12.52 1 12.52 12.02 13.02 0 0 0 0 1.0072 1 5448 5448 3.2813 1.9518 1 36214 6491 23046 23118 40629 40629 0.06539262039405003 VQERQRRL 8 Unmodified _VQERQRRL_ 0 0 0 ENSG00000186193|ENST00000409687|SAPCD2 ENSG00000186193|ENST00000409687|SAPCD2 ENSG00000186193|ENST00000409687|SAPCD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.8428344726562 2 542.820338 1083.62612 NaN NaN NaN NaN NaN NaN NaN 68.875 1 68.875 68.375 69.375 0 0 0 0 0.89651 1 33194 33194 12.532 0 1 36215 5560 23047 23119 40630 40630 0.08765576925861751 VQEWYQMDTYN 11 Unmodified _VQEWYQMDTYN_ 0 0 0 ENSG00000184985|ENST00000507866|SORCS2 ENSG00000184985|ENST00000507866|SORCS2 ENSG00000184985|ENST00000507866|SORCS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.74432373046875 3 492.874853 1475.60273 NaN NaN NaN NaN NaN NaN NaN 63.162 1 63.162 62.662 63.662 0 0 0 0 1.008 1 29683 29683 0.094841 0 1 36216 5474 23048 23120 40631 40631 -0.11604694484276479 VQFDEFKKHLV 11 Unmodified _VQFDEFKKHLV_ 0 0 0 REV__SPTA1|p.L699Qfs*10|1|0.07|ENSG00000163554|chr1:158666441-158666442|-/TTTG|frameshift_variant REV__SPTA1|p.L699Qfs*10|1|0.07|ENSG00000163554|chr1:158666441-158666442|-/TTTG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 463.9222717285156 3 463.922355 1388.74524 NaN NaN NaN NaN NaN NaN NaN 72.56 1 73.224 72.724 73.724 0.66398 0 0 0 1.0048 1 33293 33293 4.4062 3.4806 1 + 36217 13002 23049 23121 40632 40632 0.06641306040023665 VQFFRFRRELF 11 Unmodified _VQFFRFRRELF_ 0 0 0 REV__nc|ENSG00000166278|P06681-2|C2 REV__nc|ENSG00000166278|P06681-2|C2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 772.93017578125 2 772.927877 1543.8412 NaN NaN NaN NaN NaN NaN NaN 71.828 1 71.828 71.328 72.328 0 0 0 0 1.008 1 34918 34918 0.35063 0 1 + 36218 13223 23050 23122 40633 40633 0.09103498670788213 VQFLKPIL 8 Unmodified _VQFLKPIL_ 0 0 0 REV__ENST00000529958.1_1_11:6703351-6704139:-|nuORF REV__ENST00000529958.1_1_11:6703351-6704139:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.306640625 2 479.310221 956.605889 NaN NaN NaN NaN NaN NaN NaN 48.39 1 49.217 48.717 49.717 0.82705 0 0 0 0.99035 1 22044 22044 2.5775 0.27475 1 + 36219 12813 23051 23123 40634 40634 0.12585013213322327 VQFMWDCCCE 10 Unmodified _VQFMWDCCCE_ 0 0 0 nc|ENSG00000085224|P46100-2|ATRX;nc|ENSG00000085224|P46100-5|ATRX;nc|ENSG00000085224|P46100-3|ATRX;nc|ENSG00000085224|P46100-4|ATRX;ENSG00000085224|ENST00000373344|ATRX;ENST00000373344.9_1_X:76890163-76891428:-|nuORF nc|ENSG00000085224|P46100-2|ATRX nc|ENSG00000085224|P46100-2|ATRX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 632.6231079101562 2 632.218705 1262.42286 NaN NaN NaN NaN NaN NaN NaN 74.524 1 74.524 74.024 75.024 0 0 0 0 1.0001 1 36408 36408 1.6526 0.17072 1 36220 965 23052 23124 40635 40635 -0.19785736288963562 VQFMWDCCCE 10 Unmodified _VQFMWDCCCE_ 0 0 0 nc|ENSG00000085224|P46100-2|ATRX;nc|ENSG00000085224|P46100-5|ATRX;nc|ENSG00000085224|P46100-3|ATRX;nc|ENSG00000085224|P46100-4|ATRX;ENSG00000085224|ENST00000373344|ATRX;ENST00000373344.9_1_X:76890163-76891428:-|nuORF nc|ENSG00000085224|P46100-2|ATRX nc|ENSG00000085224|P46100-2|ATRX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.22216796875 2 632.218705 1262.42286 NaN NaN NaN NaN NaN NaN NaN 71.383 1 72.087 71.587 72.587 0.70386 0 0 0 1.0001 1 34279 34279 1.6526 0.17072 1 36221 965 23052 23124 40636 40636 -0.19785736288963562 VQFPLDYNY 9 Unmodified _VQFPLDYNY_ 0 0 0 ENST00000598502.5_1_19:49671539-49686431:+|nuORF;ENST00000596338.5_1_19:49661123-49685875:+|nuORF;nc|ENSG00000130529|Q8TD43-2|TRPM4;nc|ENSG00000130529|Q8TD43-3|TRPM4;ENSG00000130529|ENST00000252826|TRPM4 ENST00000598502.5_1_19:49671539-49686431:+|nuORF ENST00000598502.5_1_19:49671539-49686431:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 579.7769165039062 2 579.776939 1157.53933 NaN NaN NaN NaN NaN NaN NaN 36.378 1 37.172 36.672 37.672 0.79342 0 0 0 0.91206 1 16487 16487 0.6015 0 1 36222 2598 23053 23125 40637 40637 -0.03314267139239746 VQFPVIQL 8 Unmodified _VQFPVIQL_ 0 0 0 ENSG00000130348|ENST00000369046|QRSL1 ENSG00000130348|ENST00000369046|QRSL1 ENSG00000130348|ENST00000369046|QRSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.2850646972656 2 472.284203 942.553853 NaN NaN NaN NaN NaN NaN NaN 94.397 1 95.014 94.514 95.514 0.61736 0 0 0 0.99035 1 43414 43414 5.2307 0 1 36223 2590 23054 23126 40638 40638 0.08027849799555042 VQFRPEERYFY 11 Unmodified _VQFRPEERYFY_ 0 0 0 REV__ENST00000510293.1_1_4:156835507-156839956:+|nuORF REV__ENST00000510293.1_1_4:156835507-156839956:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 767.3861083984375 2 767.377883 1532.74121 NaN NaN NaN NaN NaN NaN NaN 83.902 1 83.931 83.431 84.431 0.028603 0 0 0 1.0079 1 41739 41739 0.35063 0 1 + 36224 12631 23055 23127 40639 40639 -0.003847834536827577 VQFVLFIHIL 10 Unmodified _VQFVLFIHIL_ 0 0 0 REV__ENST00000531920.6_2_11:93528046-93528097:+|nuORF REV__ENST00000531920.6_2_11:93528046-93528097:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 614.8787231445312 2 614.876259 1227.73797 NaN NaN NaN NaN NaN NaN NaN 17.989 1 18.19 17.69 18.69 0.20057 0 0 0 1.0012 1 7980 7980 1.6526 0.17072 1 + 36225 17145 23056 23128 40640 40640 0.13320618230272885 VQFWKMLIL 9 Unmodified _VQFWKMLIL_ 0 0 0 nc|ENSG00000119392|Q53GS7-2|GLE1;ENSG00000119392|ENST00000309971|GLE1 nc|ENSG00000119392|Q53GS7-2|GLE1 nc|ENSG00000119392|Q53GS7-2|GLE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.3448486328125 2 589.343738 1176.67292 3.6569 0.0021552 -1.2078 -0.0007118 2.4491 0.0014434 589.3428007781714 85.853 1.1674 86.102 85.297 86.464 0.24857 90 61 2 0 0 0 1.1154 1 39460 39460 2.0598 0.21551 1 2003500 36226 2140 23057 23129 40641 40641 0.09165300432778167 VQGNITQKF 9 Unmodified _VQGNITQKF_ 0 0 0 nc|ENSG00000006715|P49754-2|VPS41;nc|ENSG00000006715|P49754-3|VPS41;ENSG00000006715|ENST00000310301|VPS41 nc|ENSG00000006715|P49754-2|VPS41 nc|ENSG00000006715|P49754-2|VPS41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.7863159179688 2 517.785099 1033.55564 3.4063 0.0017637 0.24519 0.00012696 3.6515 0.0018907 517.7850678344377 31.354 0.25577 31.354 31.235 31.491 0 30 22 2 0 0 0 0.019364 2 14163 14163;14215 69.105 20.759 1 522730 36227 356 23058 23130 40642;40643 40642 0.04020858817534645 VQGNITQKF 9 Unmodified _VQGNITQKF_ 0 0 0 nc|ENSG00000006715|P49754-2|VPS41;nc|ENSG00000006715|P49754-3|VPS41;ENSG00000006715|ENST00000310301|VPS41 nc|ENSG00000006715|P49754-2|VPS41 nc|ENSG00000006715|P49754-2|VPS41 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 517.7869262695312 2 517.785099 1033.55564 3.4905 0.0018073 -0.42181 -0.00021841 3.0687 0.0015889 517.7849233488042 30.479 0.35732 31.268 31.05 31.408 0.78921 49 28 2 0 0 0 0.02234 1 13777 13777 65.235 16.889 1 455320 36228 356 23058 23130 40644 40644 0.04020858817534645 VQHIRKKHPE 10 Unmodified _VQHIRKKHPE_ 0 0 0 nc|ENSG00000170325|Q9NQV6-2|PRDM10;nc|ENSG00000170325|Q9NQV6-1|PRDM10;nc|ENSG00000170325|Q9NQV6-5|PRDM10;nc|ENSG00000170325|Q9NQV6|PRDM10;ENSG00000170325|ENST00000360871|PRDM10;nc|ENSG00000170325|Q9NQV6-7|PRDM10;nc|ENSG00000170325|Q9NQV6-6|PRDM10 nc|ENSG00000170325|Q9NQV6-2|PRDM10 nc|ENSG00000170325|Q9NQV6-2|PRDM10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 636.3698120117188 2 636.370195 1270.72584 NaN NaN NaN NaN NaN NaN NaN 73.154 1 73.154 72.654 73.654 0 0 0 0 0.99774 1 35629 35629 3.5965 0 1 36229 4742 23059 23131 40645 40645 0.1013039453980582 VQHVLQLQRA 10 Unmodified _VQHVLQLQRA_ 0 0 0 ENST00000529681.5_1_11:1263596-1263746:+|nuORF ENST00000529681.5_1_11:1263596-1263746:+|nuORF ENST00000529681.5_1_11:1263596-1263746:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 596.3536376953125 2 596.351471 1190.68839 4.5845 0.002734 -1.3741 -0.00081947 3.2104 0.0019145 596.3508353117277 101.38 0.066238 101.69 101.66 101.72 0.31412 6 2 3 0 0 0 0.90196 1 46922 46922 3.5965 0 1 1156200 36230 8701 23060 23132 40646 40646 0.10067303274172446 VQHVLQLQRA 10 Unmodified _VQHVLQLQRA_ 0 0 0 ENST00000529681.5_1_11:1263596-1263746:+|nuORF ENST00000529681.5_1_11:1263596-1263746:+|nuORF ENST00000529681.5_1_11:1263596-1263746:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 596.351471 1190.68839 4.224 0.002519 -1.4513 -0.00086546 2.7727 0.0016535 596.3504264019147 101.33 0.065994 101.92 101.87 101.94 0.59716 0.11485 -5.7008E-05 NaN 3.5965 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1308500 36231 8701 23060 23132 0.10067303274172446 VQIHHKWRRMY 11 Unmodified _VQIHHKWRRMY_ 0 0 0 nc|ENSG00000115839|Q15042-4|RAB3GAP1;ENSG00000115839|ENST00000264158|RAB3GAP1;nc|ENSG00000115839|Q15042-3|RAB3GAP1 nc|ENSG00000115839|Q15042-4|RAB3GAP1 nc|ENSG00000115839|Q15042-4|RAB3GAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.6138305664062 3 518.613861 1552.81975 NaN NaN NaN NaN NaN NaN NaN 61.807 1 62.537 62.037 63.037 0.73077 0 0 0 1.0079 1 28712 28712 0.45452 0 1 36232 1994 23061 23133 40647 40647 0.06545790370410032 VQIKFHVLL 9 Unmodified _VQIKFHVLL_ 0 0 0 ENSG00000116254|ENST00000262450|CHD5 ENSG00000116254|ENST00000262450|CHD5 ENSG00000116254|ENST00000262450|CHD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.1790771484375 2 548.847502 1095.68045 NaN NaN NaN NaN NaN NaN NaN 64.388 1 64.388 63.888 64.888 0 0 0 0 0.89288 1 30491 30491 4.756 0 1 36233 2022 23062 23134 40648 40648 0.13643776024719045 VQIKRKQFQRV 11 Unmodified _VQIKRKQFQRV_ 0 0 0 REV__ENSG00000119636|ENST00000394009|BBOF1 REV__ENSG00000119636|ENST00000394009|BBOF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 715.4406127929688 2 715.441152 1428.86775 NaN NaN NaN NaN NaN NaN NaN 67.278 1 67.98 67.48 68.48 0.70218 0 0 0 1.008 1 31958 31958 0.35063 0 1 + 36234 11506 23063 23135 40649 40649 0.17047187562093313 VQIPEAAL 8 Unmodified _VQIPEAAL_ 0 0 0 ENST00000487364.1_1_19:19771386-19774475:-|nuORF;ENSG00000105726|ENST00000357324|ATP13A1 ENST00000487364.1_1_19:19771386-19774475:-|nuORF ENST00000487364.1_1_19:19771386-19774475:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.225830078125 2 420.744911 839.475269 3.1172 0.0013116 2.4586 0.0010344 5.5758 0.002346 420.74639845787453 48.139 0.21594 48.401 48.289 48.505 0.26209 10 7 2 0 0 0 0.13853 1 22017 22017 5.7604 0 1 226080 36235 1525 23064 23136 40650 40650 0.04910997494471303 VQIVNVKTLFR 11 Unmodified _VQIVNVKTLFR_ 0 0 0 SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant;nc|ENSG00000157106|Q96Q15-2|SMG1;ENSG00000157106|ENST00000446231|SMG1;nc|ENSG00000157106|Q96Q15-3|SMG1;nc|ENSG00000157106|Q96Q15-4|SMG1 SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant SMG1|p.E3487Tfs*32|1|0.04|ENSG00000157106|chr16:18815495-18815496|-/GTAAATAAGCCATTTTATTTTGTATTTCAGT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 439.609619140625 3 439.606478 1315.79761 NaN NaN NaN NaN NaN NaN NaN 104.8 1 105.12 104.62 105.62 0.31863 0 0 0 1.0079 1 48376 48376 0.50596 0.051438 1 36236 3939 23065 23137 40651 40651 0.15233889173646276 VQIWEQEMM 9 Unmodified _VQIWEQEMM_ 0 0 0 REV__ENST00000215862.8_1_22:31345810-31352754:-|nuORF REV__ENST00000215862.8_1_22:31345810-31352754:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 597.2695922851562 2 597.270109 1192.52567 NaN NaN NaN NaN NaN NaN NaN 13.034 1 13.034 12.534 13.534 0 0 0 0 0.91206 1 5691 5691 0.6015 0 1 + 36237 14798 23066 23138 40652 40652 -0.06289584234355061 VQKEFQKIKRK 11 Unmodified _VQKEFQKIKRK_ 0 0 0 REV__DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant REV__DYNC1H1|p.E4304Sfs*36|1|0.13|ENSG00000197102|chr14:102044601-102044601|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.9646911621094 3 477.964666 1430.87217 NaN NaN NaN NaN NaN NaN NaN 62.363 1 62.363 61.863 62.863 0 0 0 0 1.0066 1 29222 29222 2.084 0.97421 1 + 36238 10142 23067 23139 40653 40653 0.17396651984995515 VQKFILILI 9 Unmodified _VQKFILILI_ 0 0 0 REV__nc|ENSG00000009765|Q6PHW0-7|IYD REV__nc|ENSG00000009765|Q6PHW0-7|IYD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.8706665039062 2 543.867903 1085.72125 NaN NaN NaN NaN NaN NaN NaN 67.538 1 67.538 67.038 68.038 0 0 0 0 0.89683 1 32418 32418 4.3292 0 1 + 36239 10215 23068 23140 40654 40654 0.18182117344326798 VQKFVTWRLRR 11 Unmodified _VQKFVTWRLRR_ 0 0 0 ENSG00000186862|ENST00000619208|PDZD7 ENSG00000186862|ENST00000619208|PDZD7 ENSG00000186862|ENST00000619208|PDZD7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.002197265625 3 496.968522 1487.88374 NaN NaN NaN NaN NaN NaN NaN 74.378 1 75.042 74.542 75.542 0.6644 0 0 0 1.0082 1 34238 34238 0.094841 0 1 36240 5590 23069 23141 40655 40655 0.1593089379898629 VQKHILFYKMR 11 Unmodified _VQKHILFYKMR_ 0 0 0 nc|ENSG00000178217|Q5SQS7-2|SH2D4B;nc|ENSG00000178217|Q5SQS7|SH2D4B;ENSG00000178217|ENST00000646907|SH2D4B nc|ENSG00000178217|Q5SQS7-2|SH2D4B nc|ENSG00000178217|Q5SQS7-2|SH2D4B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 731.9234619140625 2 731.921206 1461.82786 NaN NaN NaN NaN NaN NaN NaN 62.036 1 62.767 62.267 63.267 0.73077 0 0 0 1.0059 1 28858 28858 2.9952 1.6657 1 36241 5156 23070 23142 40656 40656 0.11541924567154638 VQKKKRFALL 10 Unmodified _VQKKKRFALL_ 0 0 0 ENST00000422956.6_1_2:113993137-114016997:+|nuORF;ENST00000451179.5_1_2:113993110-114020957:+|nuORF;ENST00000333145.9_1_2:113993130-114016997:+|nuORF ENST00000422956.6_1_2:113993137-114016997:+|nuORF ENST00000422956.6_1_2:113993137-114016997:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 615.6558837890625 2 615.905882 1229.79721 NaN NaN NaN NaN NaN NaN NaN 74.844 1 75.509 75.009 76.009 0.6644 0 0 0 1.0001 1 34467 34467 1.6526 0.17072 1 36242 7011 23071 23143 40657 40657 0.19150514244438455 VQKKLLRKVK 10 Unmodified _VQKKLLRKVK_ 0 0 0 REV__ENSG00000175931|ENST00000319380|UBE2O REV__ENSG00000175931|ENST00000319380|UBE2O MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 620.3860473632812 2 620.434807 1238.85506 NaN NaN NaN NaN NaN NaN NaN 79.085 1 79.085 78.585 79.585 0 0 0 0 1.0015 1 39007 39007 0.45834 0 1 + 36243 13685 23072 23144 40658 40658 0.24518776169861667 VQKLLCMC 8 Unmodified _VQKLLCMC_ 0 0 0 PI4KA|p.S1815*|1|0.23|ENSG00000241973|chr22:20714476-20714477|-/A|frameshift_variant;ENSG00000241973|ENST00000255882|PI4KA;ENST00000485963.5_1_22:21152870-21213097:-|nuORF PI4KA|p.S1815*|1|0.23|ENSG00000241973|chr22:20714476-20714477|-/A|frameshift_variant PI4KA|p.S1815*|1|0.23|ENSG00000241973|chr22:20714476-20714477|-/A|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 469.2372741699219 2 469.237027 936.459501 NaN NaN NaN NaN NaN NaN NaN 67.042 1 67.747 67.247 68.247 0.7047 0 0 0 0.94507 1 31821 31821 9.3474 2.9933 1 36244 6228 23073 23145 40659 40659 -0.011270716100852951 VQKLLNAFFDP 11 Unmodified _VQKLLNAFFDP_ 0 0 0 ENSG00000079482|ENST00000355520|OPHN1 ENSG00000079482|ENST00000355520|OPHN1 ENSG00000079482|ENST00000355520|OPHN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 646.7721557617188 2 646.355888 1290.69722 NaN NaN NaN NaN NaN NaN NaN 72.707 1 73.371 72.871 73.871 0.66398 0 0 0 0.98464 1 33369 33369 8.1555 2.4237 1 36245 896 23074 23146 40660 40660 0.06350232119984867 VQKLPLLKIVV 11 Unmodified _VQKLPLLKIVV_ 0 0 0 ENST00000519253.5_2_8:17849176-17851030:+|nuORF ENST00000519253.5_2_8:17849176-17851030:+|nuORF ENST00000519253.5_2_8:17849176-17851030:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 625.0400390625 2 625.433941 1248.85333 NaN NaN NaN NaN NaN NaN NaN 63.871 1 64.586 64.086 65.086 0.71521 0 0 0 1.0072 1 29979 29979 1.3295 0.9789 1 36246 8618 23075 23147 40661 40661 0.23885722361251283 VQKLVTLITFL 11 Unmodified _VQKLVTLITFL_ 0 0 0 ENST00000377223.5_1_1:9990413-9990497:-|nuORF ENST00000377223.5_1_1:9990413-9990497:-|nuORF ENST00000377223.5_1_1:9990413-9990497:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 425.6073303222656 3 425.607596 1273.80096 NaN NaN NaN NaN NaN NaN NaN 64.881 1 65.59 65.09 66.09 0.70891 0 0 0 1.0059 1 30588 30588 1.2148 0 1 36247 7409 23076 23148 40662 40662 0.175011392276474 VQKQREHPV 9 Unmodified _VQKQREHPV_ 0 0 0 nc|ENSG00000050730|Q96KP6-2|TNIP3;nc|ENSG00000050730|Q96KP6-3|TNIP3 nc|ENSG00000050730|Q96KP6-2|TNIP3 nc|ENSG00000050730|Q96KP6-2|TNIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.76318359375 2 560.814722 1119.61489 2.8582 0.0016029 -0.81221 -0.0004555 2.046 0.0011474 560.8155607567322 67.563 0.020691 67.563 67.549 67.57 0 4 2 2 0 0 0 0.80651 1 32436 32436 7.2892 0.18751 1 2958900 36248 9543 23077 23149 40663 40663 0.05986754831678809 VQKQRKQNKCV 11 Unmodified _VQKQRKQNKCV_ 0 0 0 REV__ENST00000498317.1_1_6:31919621-31919804:+|nuORF REV__ENST00000498317.1_1_6:31919621-31919804:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 453.57757568359375 3 453.594355 1357.76124 NaN NaN NaN NaN NaN NaN NaN 64.955 1 64.955 64.455 65.455 0 0 0 0 1.0064 1 30868 30868 2.4348 0.18206 1 + 36249 14630 23078 23150 40664 40664 0.09666689005280205 VQKRAAVRRLV 11 Unmodified _VQKRAAVRRLV_ 0 0 0 ENST00000560192.5_1_15:91447248-91454469:+|nuORF;nc|ENSG00000196547|P49641-2|MAN2A2;nc|ENSG00000196547|P49641-1|MAN2A2;ENSG00000196547|ENST00000559717|MAN2A2 ENST00000560192.5_1_15:91447248-91454469:+|nuORF ENST00000560192.5_1_15:91447248-91454469:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 648.4221801757812 2 648.422762 1294.83097 NaN NaN NaN NaN NaN NaN NaN 72.283 1 72.946 72.446 73.446 0.66324 0 0 0 0.98464 1 33147 33147 8.1555 1.9497 1 36250 5755 23079 23151 40665 40665 0.19534935736191983 VQKRKRLKLWR 11 Unmodified _VQKRKRLKLWR_ 0 0 0 REV__ENST00000468157.5_1_6:33255793-33256956:-|nuORF REV__ENST00000468157.5_1_6:33255793-33256956:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 755.9942016601562 2 755.993886 1509.97322 NaN NaN NaN NaN NaN NaN NaN 79.065 1 79.726 79.226 80.226 0.66082 0 0 0 1.008 1 36433 36433 0.35063 0.081612 1 + 36251 16561 23080 23152 40666 40666 0.23863148478358198 VQKRLAELRR 10 Unmodified _VQKRLAELRR_ 0 0 0 REV__ENSG00000153237|ENST00000283233|CCDC148 REV__ENSG00000153237|ENST00000283233|CCDC148 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 634.9011840820312 2 634.89912 1267.78369 NaN NaN NaN NaN NaN NaN NaN 62.961 1 62.961 62.461 63.461 0 0 0 0 0.99464 1 29567 29567 6.2058 0 1 + 36252 12675 23081 23153 40667 40667 0.1605065646517687 VQKRSLKAESK 11 Unmodified _VQKRSLKAESK_ 0 0 0 REV__nc|ENSG00000085224|P46100-2|ATRX REV__nc|ENSG00000085224|P46100-2|ATRX MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 637.3845825195312 2 637.382968 1272.75138 NaN NaN NaN NaN NaN NaN NaN 8.4626 1 8.7884 8.2884 9.2884 0.32587 0 0 0 1.0082 1 3804 3804 0 0 1 + 36253 10641 23082 23154 40668 40668 0.12591824271521546 VQKWVKQRRR 10 Unmodified _VQKWVKQRRR_ 0 0 0 REV__ENST00000331203.6_1_2:112896141-112922743:+|nuORF REV__ENST00000331203.6_1_2:112896141-112922743:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 692.330078125 2 692.425836 1382.83712 NaN NaN NaN NaN NaN NaN NaN 17.613 1 17.814 17.314 18.314 0.20057 0 0 0 1.0015 1 7798 7798 0.45834 0.057624 1 + 36254 15379 23083 23155 40669 40669 0.1610145396768985 VQKYDCVAL 9 Unmodified _VQKYDCVAL_ 0 0 0 REV__nc|ENSG00000178209|Q15149|PLEC REV__nc|ENSG00000178209|Q15149|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.7693481445312 2 519.76806 1037.52157 2.95 0.0015333 -0.99258 -0.00051591 1.9575 0.0010174 519.7674733471104 62.773 0.24806 63.496 63.377 63.625 0.72236 78 35 3 0 0 0 0.26277 1 29325 29325 19.257 0 1 20671000 + 36255 18058 23084 23156 40670 40670 0.004306943342498926 VQKYKQVF 8 Unmodified _VQKYKQVF_ 0 0 0 nc|ENSG00000177302|Q13472-3|TOP3A;nc|ENSG00000177302|Q13472-2|TOP3A;ENSG00000177302|ENST00000321105|TOP3A nc|ENSG00000177302|Q13472-3|TOP3A nc|ENSG00000177302|Q13472-3|TOP3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.3023681640625 2 520.300384 1038.58622 2.6527 0.0013802 -0.49379 -0.00025692 2.159 0.0011233 520.3001538160819 66.414 0.29333 66.414 66.271 66.565 0 52 35 2 0 0 0 0.52517 2 31688 31688;31723 19.439 5.5329 1 4766000 36256 5112 23085 23157 40671;40672 40671 0.06846637202556849 VQLAERRRWYI 11 Unmodified _VQLAERRRWYI_ 0 0 0 ENST00000526132.5_1_1:52522019-52530572:+|nuORF ENST00000526132.5_1_1:52522019-52530572:+|nuORF ENST00000526132.5_1_1:52522019-52530572:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 745.4234008789062 2 745.422959 1488.83137 NaN NaN NaN NaN NaN NaN NaN 18.648 1 18.648 18.148 19.148 0 0 0 0 1.008 1 8288 8288 0.35063 0 1 36257 8671 23086 23158 40673 40673 0.10650310665414509 VQLARMLVP 9 Unmodified _VQLARMLVP_ 0 0 0 REV__nc|ENSG00000103932|Q9BWH6-2|RPAP1 REV__nc|ENSG00000103932|Q9BWH6-2|RPAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.810546875 2 513.810062 1025.60557 3.0865 0.0015859 -1.4156 -0.00072733 1.671 0.00085855 513.809343693567 45.764 0.37134 45.764 45.595 45.967 0 30 17 2 0 0 0 0.98132 1 20990 20990 4.3292 1.0479 1 982440 + 36258 10979 23087 23159 40674 40674 0.09379270221802471 VQLGQAEKRK 10 Unmodified _VQLGQAEKRK_ 0 0 0 ENSG00000088682|ENST00000262507|COQ9 ENSG00000088682|ENST00000262507|COQ9 ENSG00000088682|ENST00000262507|COQ9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.8416748046875 2 578.843479 1155.67241 NaN NaN NaN NaN NaN NaN NaN 67.815 1 68.517 68.017 69.017 0.70218 0 0 0 0.98317 1 32279 32279 8.1555 0.24537 1 36259 1017 23088 23160 40675 40675 0.10079597037247368 VQLIRNRMST 10 Unmodified _VQLIRNRMST_ 0 0 0 REV__HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|225|2|anti-sense REV__HERVK9-int_dup528|chr12:105303345-105308170:-|3.533294869192112|0.2593681081056778|3.77|539.0|225|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 609.3462524414062 2 609.342789 1216.67103 NaN NaN NaN NaN NaN NaN NaN 93.725 1 93.98 93.48 94.48 0.25497 0 0 0 1.0001 1 43076 43076 1.6526 0 1 + 36260 17737 23089 23161 40676 40676 0.07135639676857863 VQLLGQQRHRF 11 Unmodified _VQLLGQQRHRF_ 0 0 0 REV__ENST00000529132.1_1_11:67173299-67173527:+|nuORF REV__ENST00000529132.1_1_11:67173299-67173527:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 691.39453125 2 691.394202 1380.77385 NaN NaN NaN NaN NaN NaN NaN 63.213 1 63.213 62.713 63.713 0 0 0 0 1.0059 1 29716 29716 2.9952 0 1 + 36261 17123 23090 23162 40677 40677 0.09869468459828568 VQLLRLKRRRE 11 Unmodified _VQLLRLKRRRE_ 0 0 0 REV__ENSG00000166004|ENST00000325212|CEP295 REV__ENSG00000166004|ENST00000325212|CEP295 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 733.9727783203125 2 733.973151 1465.93175 NaN NaN NaN NaN NaN NaN NaN 90.526 1 90.602 90.102 91.102 0.075279 0 0 0 1.008 1 46675 46675 0.35063 0 1 + 36262 13204 23091 23163 40678 40678 0.2174196771904917 VQLLRRLRFRK 11 Unmodified _VQLLRRLRFRK_ 0 0 0 REV__nc|ENSG00000197362|Q8N393-2|ZNF786 REV__nc|ENSG00000197362|Q8N393-2|ZNF786 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.6586608886719 3 495.6598 1483.95757 NaN NaN NaN NaN NaN NaN NaN 100.84 1 101.16 100.66 101.66 0.31412 0 0 0 1.0082 1 46667 46667 0.094841 0.011491 1 + 36263 14273 23092 23164 40679 40679 0.23494861961307834 VQLLTLLLFIV 11 Unmodified _VQLLTLLLFIV_ 0 0 0 REV__ENSG00000111700|ENST00000381545|SLCO1B3 REV__ENSG00000111700|ENST00000381545|SLCO1B3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 636.8694458007812 2 636.4205 1270.82645 NaN NaN NaN NaN NaN NaN NaN 66.324 1 66.324 65.824 66.824 0 0 0 0 1.0061 1 31686 31686 2.7352 1.0826 1 + 36264 11247 23093 23165 40680 40680 0.20186613750070137 VQLPPAAL 8 Unmodified _VQLPPAAL_ 0 0 0 REV__nc|ENSG00000183248|Q9H6K5-2|PRR36 REV__nc|ENSG00000183248|Q9H6K5-2|PRR36 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 808.4940185546875 1 808.492716 807.485439 4.1592 0.0033627 -2.4877 -0.0020113 1.6716 0.0013515 808.4906554421052 103.04 0.1874 103.64 103.5 103.69 0.59821 7 5 2 0 0 0 0.7471 1 47691 47691 0 0 1 1768600 + 36265 13924 23094 23166 40681 40681 0.07399605219688965 VQLPPAAL 8 Unmodified _VQLPPAAL_ 0 0 0 REV__nc|ENSG00000183248|Q9H6K5-2|PRR36 REV__nc|ENSG00000183248|Q9H6K5-2|PRR36 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 808.492716 807.485439 4.7043 0.0038034 -3.6998 -0.0029913 1.0045 0.00081216 808.4895205154537 103.09 0.088913 103.41 103.34 103.42 0.31863 -0.11391 -0.00056841 NaN 0 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 1182900 + 36266 13924 23094 23166 0.07399605219688965 VQLPPAAL 8 Unmodified _VQLPPAAL_ 0 0 0 REV__nc|ENSG00000183248|Q9H6K5-2|PRR36 REV__nc|ENSG00000183248|Q9H6K5-2|PRR36 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 808.492716 807.485439 4.1592 0.0033627 -2.4877 -0.0020113 1.6716 0.0013515 808.4906554421052 103.04 0.1874 103.64 103.5 103.69 0.59821 0.11391 0.0004116 NaN 0 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 1768600 + 36267 13924 23094 23166 0.07399605219688965 VQLPPKKLVV 10 Unmodified _VQLPPKKLVV_ 0 0 0 COL24A1|p.L138P|1|0.25|ENSG00000171502|chr1:86125923-86125923|A/G|missense_variant COL24A1|p.L138P|1|0.25|ENSG00000171502|chr1:86125923-86125923|A/G|missense_variant COL24A1|p.L138P|1|0.25|ENSG00000171502|chr1:86125923-86125923|A/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.3078002929688 2 560.876259 1119.73797 NaN NaN NaN NaN NaN NaN NaN 17.376 1 17.678 17.178 18.178 0.30158 0 0 0 1.0015 1 7869 7869 0.45834 0 1 36268 204 23095 23167 40682 40682 0.1828861823025818 VQLPVPPG 8 Unmodified _VQLPVPPG_ 0 0 0 REV__nc|ENSG00000165238|Q9Y3S1-3|WNK2 REV__nc|ENSG00000165238|Q9Y3S1-3|WNK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 403.7428283691406 2 403.742171 805.469789 NaN NaN NaN NaN NaN NaN NaN 78.531 1 78.995 78.495 79.495 0.4642 0 0 0 0.99035 1 38190 38190 0.79363 0 1 + 36269 13147 23096 23168 40683 40683 0.05927318702663342 VQLQSTKRIKI 11 Unmodified _VQLQSTKRIKI_ 0 0 0 REV__ENST00000503780.5_2_4:175204868-175205078:+|nuORF REV__ENST00000503780.5_2_4:175204868-175205078:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 657.4172973632812 2 657.416811 1312.81907 NaN NaN NaN NaN NaN NaN NaN 108.93 1 108.93 108.43 109.43 0 0 0 0 1.0073 1 59610 59610 1.1933 0 1 + 36270 16907 23097 23169 40684 40684 0.175172742023733 VQLSVLIP 8 Unmodified _VQLSVLIP_ 0 0 0 REV__nc|ENSG00000152223|Q9HCE0-2|EPG5 REV__nc|ENSG00000152223|Q9HCE0-2|EPG5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.7809753417969 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 43.631 1 43.631 43.131 44.131 0 0 0 0 0.99035 1 19897 19897 0.69038 0 1 + 36271 12641 23098 23170 40685 40685 0.10388447425293634 VQLSVLIP 8 Unmodified _VQLSVLIP_ 0 0 0 REV__nc|ENSG00000152223|Q9HCE0-2|EPG5 REV__nc|ENSG00000152223|Q9HCE0-2|EPG5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.7818908691406 2 434.778754 867.542954 3.0125 0.0013098 0.19438 8.4511E-05 3.2069 0.0013943 434.78008068772994 37.286 1.129 37.547 36.994 38.123 0.26083 84 36 4 0 0 0 0.7471 1 17136 17136 0.69038 0 1 692050 + 36272 12641 23098 23170 40686 40686 0.10388447425293634 VQLSVLIP 8 Unmodified _VQLSVLIP_ 0 0 0 REV__nc|ENSG00000152223|Q9HCE0-2|EPG5 REV__nc|ENSG00000152223|Q9HCE0-2|EPG5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.77996826171875 2 434.778754 867.542954 2.8053 0.0012197 1.6678 0.00072512 4.4731 0.0019448 434.77928846109853 52.048 0.69341 52.311 51.761 52.454 0.26228 62 48 2 0 0 0 0.74709 1 23650 23650 2.0598 0 1 963500 + 36273 12641 23098 23170 40687 40687 0.10388447425293634 VQLSVLIP 8 Unmodified _VQLSVLIP_ 0 0 0 REV__nc|ENSG00000152223|Q9HCE0-2|EPG5 REV__nc|ENSG00000152223|Q9HCE0-2|EPG5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.7820739746094 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 39.233 1 39.5 39 40 0.26696 0 0 0 0.99035 1 17853 17853 0.69038 0 1 + 36274 12641 23098 23170 40688 40688 0.10388447425293634 VQLSVLIP 8 Unmodified _VQLSVLIP_ 0 0 0 REV__nc|ENSG00000152223|Q9HCE0-2|EPG5 REV__nc|ENSG00000152223|Q9HCE0-2|EPG5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.78143310546875 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 44.026 1 44.295 43.795 44.795 0.2694 0 0 0 0.99035 1 20116 20116 0.69038 0 1 + 36275 12641 23098 23170 40689 40689 0.10388447425293634 VQLSVLIP 8 Unmodified _VQLSVLIP_ 0 0 0 REV__nc|ENSG00000152223|Q9HCE0-2|EPG5 REV__nc|ENSG00000152223|Q9HCE0-2|EPG5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7813720703125 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 42.468 1 43.115 42.615 43.615 0.64693 0 0 0 0.99035 1 19454 19454 0.69038 0 1 + 36276 12641 23098 23170 40690 40690 0.10388447425293634 VQLVGAAP 8 Unmodified _VQLVGAAP_ 0 0 0 REV__nc|nan|Q8N9H9-2|C1orf127 REV__nc|nan|Q8N9H9-2|C1orf127 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 377.725830078125 2 377.726521 753.438489 NaN NaN NaN NaN NaN NaN NaN 78.389 1 78.853 78.353 79.353 0.4642 0 0 0 0.99035 1 38112 38112 0.79363 0 1 + 36277 13669 23099 23171 40691 40691 0.05190745668562613 VQLVLPRPFL 10 Unmodified _VQLVLPRPFL_ 0 0 0 ENST00000244364.10_2_6:56323644-56323803:-|nuORF ENST00000244364.10_2_6:56323644-56323803:-|nuORF ENST00000244364.10_2_6:56323644-56323803:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.58544921875 3 394.585015 1180.73321 3.1193 0.0012308 0.60045 0.00023693 3.7197 0.0014677 394.5849963049003 46.644 0.56246 46.91 46.449 47.011 0.26561 36 20 2 0 0 0 0.93584 1 21325 21325 1.7423 1.7423 1 1576900 36278 6480 23100 23172 40692 40692 0.15007734087521385 VQLVVRGALHE 11 Unmodified _VQLVVRGALHE_ 0 0 0 REV__nc|ENSG00000003393|Q96Q42-2|ALS2 REV__nc|ENSG00000003393|Q96Q42-2|ALS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 610.95654296875 2 610.859129 1219.70371 NaN NaN NaN NaN NaN NaN NaN 61.976 1 61.976 61.476 62.476 0 0 0 0 0.97845 1 28985 28985 8.7454 0 1 + 36279 9940 23101 23173 40693 40693 0.10264170071377521 VQLWWRFFFPF 11 Unmodified _VQLWWRFFFPF_ 0 0 0 REV__nc|ENSG00000006576|Q8N3S3-7|PHTF2 REV__nc|ENSG00000006576|Q8N3S3-7|PHTF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 786.9111328125 2 786.911165 1571.80778 NaN NaN NaN NaN NaN NaN NaN 66.613 1 66.613 66.113 67.113 0 0 0 0 1.008 1 31855 31855 0.35063 0 1 + 36280 10191 23102 23174 40694 40694 0.04474496898842517 VQLYFHPHLF 10 Unmodified _VQLYFHPHLF_ 0 0 0 ENST00000478344.6_1_9:140240296-140248823:-|nuORF ENST00000478344.6_1_9:140240296-140248823:-|nuORF ENST00000478344.6_1_9:140240296-140248823:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 650.8475341796875 2 650.84549 1299.67643 NaN NaN NaN NaN NaN NaN NaN 77.284 1 77.947 77.447 78.447 0.66303 0 0 0 0.99733 1 35615 35615 3.9444 0.3479 1 36281 8252 23103 23175 40695 40695 0.03857686530977844 VQLYLYFL 8 Unmodified _VQLYLYFL_ 0 0 0 ENSG00000145860|ENST00000424310|RNF145;nc|ENSG00000145860|Q96MT1-4|RNF145;nc|ENSG00000145860|Q96MT1-3|RNF145;nc|ENSG00000145860|Q96MT1-2|RNF145;nc|ENSG00000145860|Q96MT1-5|RNF145;RNF145|p.L221Nfs*39|1|0.29|ENSG00000145860|chr5:159174119-159174120|-/GGACATT|frameshift_variant ENSG00000145860|ENST00000424310|RNF145 ENSG00000145860|ENST00000424310|RNF145 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.7870483398438 2 529.799686 1057.58482 NaN NaN NaN NaN NaN NaN NaN 71.924 1 71.924 71.424 72.424 0 0 0 0 0.91812 1 34967 34967 11.114 0 1 36282 3491 23104 23176 40696 40696 0.058330031137984406 VQLYRQNNKLY 11 Unmodified _VQLYRQNNKLY_ 0 0 0 nc|ENSG00000179981|Q6ZSZ6-2|TSHZ1;ENSG00000179981|ENST00000580243|TSHZ1 nc|ENSG00000179981|Q6ZSZ6-2|TSHZ1 nc|ENSG00000179981|Q6ZSZ6-2|TSHZ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 719.8946533203125 2 719.8937 1437.77285 NaN NaN NaN NaN NaN NaN NaN 77.016 1 77.016 76.516 77.516 0 0 0 0 1.0059 1 37754 37754 2.9952 0 1 36283 5237 23105 23177 40697 40697 0.07147209300273971 VQMQRKGAPR 10 Unmodified _VQMQRKGAPR_ 0 0 0 ENSG00000102996|ENST00000219271|MMP15 ENSG00000102996|ENST00000219271|MMP15 ENSG00000102996|ENST00000219271|MMP15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 390.890380859375 3 390.888991 1169.64514 2.7618 0.0010796 0.46037 0.00017995 3.2222 0.0012595 390.8891245500468 57.25 0.31854 57.25 57.049 57.367 0 50 32 2 0 0 0 0.85597 2 26320 26320;26377 5.7834 2.7112 1 2104000 36284 1366 23106 23178 40698;40699 40698 0.06710790225224628 VQMQRKGAPR 10 Unmodified _VQMQRKGAPR_ 0 0 0 ENSG00000102996|ENST00000219271|MMP15 ENSG00000102996|ENST00000219271|MMP15 ENSG00000102996|ENST00000219271|MMP15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 391.22479248046875 3 390.888991 1169.64514 2.7287 0.0010666 0.40699 0.00015909 3.1357 0.0012257 390.889157790635 57.502 0.32429 57.502 57.35 57.675 0 83 39 3 0 0 0 0.93658 1 26506 26506 1.5923 0.52082 1 1545600 36285 1366 23106 23178 40700 40700 0.06710790225224628 VQMQRKGAPR 10 Unmodified _VQMQRKGAPR_ 0 0 0 ENSG00000102996|ENST00000219271|MMP15 ENSG00000102996|ENST00000219271|MMP15 ENSG00000102996|ENST00000219271|MMP15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 390.8904724121094 3 390.888991 1169.64514 2.2661 0.0008858 0.21374 8.3549E-05 2.4799 0.00096935 390.88902771170694 55.864 0.39021 56.651 56.505 56.896 0.78711 55 30 2 0 0 0 0.93658 1 25638 25638 1.5923 0.13716 1 1914800 36286 1366 23106 23178 40701 40701 0.06710790225224628 VQMQRKGAPR 10 Unmodified _VQMQRKGAPR_ 0 0 0 ENSG00000102996|ENST00000219271|MMP15 ENSG00000102996|ENST00000219271|MMP15 ENSG00000102996|ENST00000219271|MMP15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 390.8904724121094 3 390.888991 1169.64514 2.3049 0.00090097 0.53932 0.00021081 2.8442 0.0011118 390.88918013265277 56.349 0.3192 57.126 56.929 57.248 0.77786 59 31 2 0 0 0 0.90778 1 25696 25696 3.3196 1.2336 1 1098600 36287 1366 23106 23178 40702 40702 0.06710790225224628 VQMQRKGAPR 10 Unmodified _VQMQRKGAPR_ 0 0 0 ENSG00000102996|ENST00000219271|MMP15 ENSG00000102996|ENST00000219271|MMP15 ENSG00000102996|ENST00000219271|MMP15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 390.89007568359375 3 390.888991 1169.64514 2.8646 0.0011197 0.42993 0.00016805 3.2945 0.0012878 390.8890983703943 57.088 0.52077 57.353 56.987 57.508 0.26444 60 26 3 0 0 0 0.90778 1 26020 26020 3.3196 0 1 6075500 36288 1366 23106 23178 40703 40703 0.06710790225224628 VQMQRKGAPR 10 Unmodified _VQMQRKGAPR_ 0 0 0 ENSG00000102996|ENST00000219271|MMP15 ENSG00000102996|ENST00000219271|MMP15 ENSG00000102996|ENST00000219271|MMP15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.8905334472656 3 390.888991 1169.64514 2.8854 0.0011279 0.36199 0.0001415 3.2474 0.0012694 390.88910201908595 56.529 0.79317 57.198 56.592 57.385 0.66829 89 46 3 0 0 0 0.90778 2 25809 25706;25809 3.3196 0.24738 1 2644800 36289 1366 23106 23178 40704;40705 40705 0.06710790225224628 VQMQRKGAPR 10 Unmodified _VQMQRKGAPR_ 0 0 0 ENSG00000102996|ENST00000219271|MMP15 ENSG00000102996|ENST00000219271|MMP15 ENSG00000102996|ENST00000219271|MMP15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 390.8902587890625 3 390.888991 1169.64514 2.8444 0.0011118 0.47927 0.00018734 3.3237 0.0012992 390.8891218874227 60.492 0.74876 61.154 60.778 61.527 0.66261 98 39 3 0 0 0 0.90778 2 27731 27731;27807 3.3196 1.2336 1 1871500 36290 1366 23106 23178 40706;40707 40706 0.06710790225224628 VQMRLRRQKK 10 Unmodified _VQMRLRRQKK_ 0 0 0 ENSG00000159496|ENST00000290691|RGL4;nc|ENSG00000159496|Q8IZJ4-2|RGL4 ENSG00000159496|ENST00000290691|RGL4 ENSG00000159496|ENST00000290691|RGL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 671.9152221679688 2 671.914247 1341.81394 NaN NaN NaN NaN NaN NaN NaN 82.13 1 82.214 81.714 82.714 0.084106 0 0 0 1.0001 1 40504 40504 1.6526 0.17072 1 36291 4028 23107 23179 40708 40708 0.15670691858736063 VQNDPELY 8 Unmodified _VQNDPELY_ 0 0 0 nc|ENSG00000213079|Q9UPN6-2|SCAF8;ENSG00000213079|ENST00000367178|SCAF8 nc|ENSG00000213079|Q9UPN6-2|SCAF8 nc|ENSG00000213079|Q9UPN6-2|SCAF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.2320861816406 2 489.232364 976.450176 NaN NaN NaN NaN NaN NaN NaN 17.539 1 18.2 17.7 18.7 0.66072 0 0 0 0.99035 1 7914 7914 2.8892 0 1 36292 6082 23108 23180 40709 40709 -0.038991020987623415 VQNLRKKEL 9 Unmodified _VQNLRKKEL_ 0 0 0 ENSG00000023839|ENST00000647814|ABCC2 ENSG00000023839|ENST00000647814|ABCC2 ENSG00000023839|ENST00000647814|ABCC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.56903076171875 3 376.568024 1126.68224 2.2801 0.0008586 -0.15057 -5.6699E-05 2.1295 0.0008019 376.5678421044031 13.361 0.24503 13.669 13.545 13.79 0.30727 43 19 3 0 0 0 0.84542 1 6047 6047 6.6304 0 1 255040 36293 472 23109 23181 40710 40710 0.12396785042665215 VQNLRKKEL 9 Unmodified _VQNLRKKEL_ 0 0 0 ENSG00000023839|ENST00000647814|ABCC2 ENSG00000023839|ENST00000647814|ABCC2 ENSG00000023839|ENST00000647814|ABCC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.57720947265625 3 376.568024 1126.68224 2.9049 0.0010939 -0.48467 -0.00018251 2.4203 0.0009114 376.56788005142073 12.936 0.19316 13.579 13.48 13.673 0.64272 13 5 3 0 0 0 0.92418 1 5780 5780 5.2969 0 1 416220 36294 472 23109 23181 40711 40711 0.12396785042665215 VQNLRKKHKR 10 Unmodified _VQNLRKKHKR_ 0 0 0 nc|ENSG00000197694|Q13813-3|SPTAN1;nc|ENSG00000197694|Q13813|SPTAN1;ENSG00000197694|ENST00000372739|SPTAN1;SPTAN1|p.W2169Cfs*90|1|0.11|ENSG00000197694|chr9:128626632-128626632|G/-|frameshift_variant nc|ENSG00000197694|Q13813-3|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 653.91064453125 2 653.912562 1305.81057 NaN NaN NaN NaN NaN NaN NaN 72.77 1 73.029 72.529 73.529 0.25876 0 0 0 0.99774 1 33409 33409 3.5965 0 1 36295 5834 23110 23182 40712 40712 0.1698976507639145 VQNLRKKHKRL 11 Unmodified _VQNLRKKHKRL_ 0 0 0 nc|ENSG00000197694|Q13813-3|SPTAN1;nc|ENSG00000197694|Q13813|SPTAN1;ENSG00000197694|ENST00000372739|SPTAN1;SPTAN1|p.W2169Cfs*90|1|0.11|ENSG00000197694|chr9:128626632-128626632|G/-|frameshift_variant nc|ENSG00000197694|Q13813-3|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 474.0299987792969 3 473.972155 1418.89463 NaN NaN NaN NaN NaN NaN NaN 64.063 1 64.063 63.563 64.563 0 0 0 0 1.0072 1 30264 30264 1.3296 0.11481 1 36296 5834 23111 23183 40713 40713 0.20194296173303883 VQNYAILNK 9 Unmodified _VQNYAILNK_ 0 0 0 ENST00000312756.4_1_3:158369993-158373740:+|nuORF;ENSG00000168827|ENST00000486715|GFM1;nc|ENSG00000168827|Q96RP9-2|GFM1 ENST00000312756.4_1_3:158369993-158373740:+|nuORF ENST00000312756.4_1_3:158369993-158373740:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.3233642578125 2 531.800749 1061.58694 3.0343 0.0016136 1.0426 0.00055446 4.0769 0.0021681 531.8016418971062 53.968 0.59103 54.232 54.045 54.637 0.26462 47 26 3 0 0 0 0.040129 1 24810 24810 20.454 0 1 1684100 36297 4656 23112 23184 40714 40714 0.058614318515992636 VQNYSDELQS 10 Unmodified _VQNYSDELQS_ 0 0 0 REV__nc|ENSG00000173230|Q14789|GOLGB1 REV__nc|ENSG00000173230|Q14789|GOLGB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.7689819335938 2 591.7673 1181.52005 NaN NaN NaN NaN NaN NaN NaN 86.439 1 86.688 86.188 87.188 0.24974 0 0 0 0.9962 1 39781 39781 4.897 1.6157 1 + 36298 13591 23113 23185 40715 40715 -0.06345268220798062 VQPDRVWTL 9 Unmodified _VQPDRVWTL_ 0 0 0 ENST00000394540.3_1_11:64009498-64009546:+|nuORF ENST00000394540.3_1_11:64009498-64009546:+|nuORF ENST00000394540.3_1_11:64009498-64009546:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.25048828125 2 557.306198 1112.59784 3.587 0.0019991 0.59482 0.0003315 4.1818 0.0023306 557.3066809593529 57.205 0.13974 57.873 57.759 57.899 0.66829 7 5 2 0 0 0 0.085001 1 26144 26144 13.906 3.0821 1 488910 36299 7543 23114 23186 40716 40716 0.04604834225892773 VQPDRVWTL 9 Unmodified _VQPDRVWTL_ 0 0 0 ENST00000394540.3_1_11:64009498-64009546:+|nuORF ENST00000394540.3_1_11:64009498-64009546:+|nuORF ENST00000394540.3_1_11:64009498-64009546:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 557.306198 1112.59784 3.4923 0.0019463 0.82553 0.00046007 4.3179 0.0024064 557.3068168905666 57.973 0.25057 57.973 57.834 58.085 0 0.13301 7.7894E-05 NaN 13.906 28 23 2 NaN NaN NaN NaN 0 NaN NaN 0 909240 36300 7543 23114 23186 0.04604834225892773 VQPDRVWTL 9 Unmodified _VQPDRVWTL_ 0 0 0 ENST00000394540.3_1_11:64009498-64009546:+|nuORF ENST00000394540.3_1_11:64009498-64009546:+|nuORF ENST00000394540.3_1_11:64009498-64009546:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 557.306198 1112.59784 3.052 0.0017009 0.90776 0.0005059 3.9598 0.0022068 557.3065911415233 56.897 0.15167 57.674 57.612 57.764 0.77786 -0.16567 0.00016955 NaN 13.906 20 14 2 NaN NaN NaN NaN 0 NaN NaN 0 764870 36301 7543 23114 23186 0.04604834225892773 VQPKPPRRVP 10 Unmodified _VQPKPPRRVP_ 0 0 0 LTR12C_dup692|chr4:69114298-69115807:-|5.576688884045835|0.1619943684727404|5.11|537.0|28|3|sense LTR12C_dup692|chr4:69114298-69115807:-|5.576688884045835|0.1619943684727404|5.11|537.0|28|3|sense LTR12C_dup692|chr4:69114298-69115807:-|5.576688884045835|0.1619943684727404|5.11|537.0|28|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.36328125 2 587.364382 1172.71421 NaN NaN NaN NaN NaN NaN NaN 92.639 1 92.725 92.225 93.225 0.086212 0 0 0 0.99733 1 48338 48338 3.9444 0.3479 1 36302 9490 23115 23187 40717 40717 0.13476197516456523 VQPLLRRAERG 11 Unmodified _VQPLLRRAERG_ 0 0 0 REV__ENST00000407315.5_1_2:242573437-242576781:-|nuORF REV__ENST00000407315.5_1_2:242573437-242576781:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 647.8887329101562 2 647.888752 1293.76295 NaN NaN NaN NaN NaN NaN NaN 13.843 1 13.843 13.343 14.343 0 0 0 0 1.0063 1 6083 6083 2.4985 0.84587 1 + 36303 16077 23116 23188 40718 40718 0.12782066085537735 VQPLVLLRH 9 Unmodified _VQPLVLLRH_ 0 0 0 ENSG00000127511|ENST00000248054|SIN3B;nc|ENSG00000127511|O75182|SIN3B ENSG00000127511|ENST00000248054|SIN3B ENSG00000127511|ENST00000248054|SIN3B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.8425903320312 2 537.842751 1073.67095 NaN NaN NaN NaN NaN NaN NaN 71.205 1 71.909 71.409 72.409 0.70386 0 0 0 0.89683 1 34186 34186 4.3292 0 1 36304 2483 23117 23189 40719 40719 0.13706007739165216 VQPRNWLLF 9 Unmodified _VQPRNWLLF_ 0 0 0 ENSG00000060762|ENST00000360961|MPC1 ENSG00000060762|ENST00000360961|MPC1 ENSG00000060762|ENST00000360961|MPC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 586.8358154296875 2 586.832383 1171.65021 NaN NaN NaN NaN NaN NaN NaN 77.979 1 78.54 78.04 79.04 0.56091 0 0 0 0.10934 1 37871 37871 39.957 19.504 1 36305 645 23118 23190 40720 40720 0.07125417359520725 VQPRNWLLF 9 Unmodified _VQPRNWLLF_ 0 0 0 ENSG00000060762|ENST00000360961|MPC1 ENSG00000060762|ENST00000360961|MPC1 ENSG00000060762|ENST00000360961|MPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.8341674804688 2 586.832383 1171.65021 3.4317 0.0020138 -2.3761 -0.0013944 1.0556 0.00061948 586.8313104024962 78.234 0.36291 78.896 78.651 79.014 0.66198 27 19 2 0 0 0 0.09451 1 36073 36073 34.102 8.7031 1 703400 36306 645 23118 23190 40721 40721 0.07125417359520725 VQPRNWLLFA 10 Unmodified _VQPRNWLLFA_ 0 0 0 ENSG00000060762|ENST00000360961|MPC1 ENSG00000060762|ENST00000360961|MPC1 ENSG00000060762|ENST00000360961|MPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 622.3543701171875 2 622.35094 1242.68733 2.8529 0.0017755 0.68362 0.00042545 3.5365 0.0022009 622.3517313182515 76.759 0.27153 77.382 77.196 77.468 0.62397 25 17 2 0 0 0 0.28649 1 37169 37169 29.082 19.008 1 817810 36307 645 23119 23191 40722 40722 0.07569088905279386 VQPRNWLLFA 10 Unmodified _VQPRNWLLFA_ 0 0 0 ENSG00000060762|ENST00000360961|MPC1 ENSG00000060762|ENST00000360961|MPC1 ENSG00000060762|ENST00000360961|MPC1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 622.35094 1242.68733 3.4706 0.0021599 -0.45025 -0.00028021 3.0204 0.0018797 622.8519491939476 77.096 0.15372 77.759 77.737 77.891 0.66302 0.1883 -0.00081998 NaN 29.082 16 11 2 NaN NaN NaN NaN 0 NaN NaN 0 1072200 36308 645 23119 23191 0.07569088905279386 VQPRRKQRDEQ 11 Unmodified _VQPRRKQRDEQ_ 0 0 0 ENSG00000165934|ENST00000298875|CPSF2 ENSG00000165934|ENST00000298875|CPSF2 ENSG00000165934|ENST00000298875|CPSF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 480.32818603515625 3 480.599046 1438.77531 NaN NaN NaN NaN NaN NaN NaN 64.207 1 64.922 64.422 65.422 0.71521 0 0 0 1.0062 1 30229 30229 2.6312 1.4164 1 36309 4435 23120 23192 40723 40723 0.07347057757965558 VQPSKYHFL 9 Unmodified _VQPSKYHFL_ 0 0 0 ENSG00000177383|ENST00000317897|MAGEF1 ENSG00000177383|ENST00000317897|MAGEF1 ENSG00000177383|ENST00000317897|MAGEF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.8054809570312 2 559.803291 1117.59203 3.5155 0.001968 0.4887 0.00027358 4.0042 0.0022415 559.8035767037101 37.363 0.34088 37.363 37.168 37.509 0 20 12 2 0 0 0 0.047285 1 16971 16971 48.346 14.243 1 873640 36310 5116 23121 23193 40724 40724 0.03793735714225477 VQPSKYHFL 9 Unmodified _VQPSKYHFL_ 0 0 0 ENSG00000177383|ENST00000317897|MAGEF1 ENSG00000177383|ENST00000317897|MAGEF1 ENSG00000177383|ENST00000317897|MAGEF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.8056030273438 2 559.803291 1117.59203 3.3937 0.0018998 0.48463 0.0002713 3.8783 0.0021711 559.8037569043356 36.19 0.33358 36.984 36.816 37.149 0.79342 21 13 2 0 0 0 0.09451 1 16422 16422 34.102 7.2188 1 515630 36311 5116 23121 23193 40725 40725 0.03793735714225477 VQPSKYHFL 9 Unmodified _VQPSKYHFL_ 0 0 0 ENSG00000177383|ENST00000317897|MAGEF1 ENSG00000177383|ENST00000317897|MAGEF1 ENSG00000177383|ENST00000317897|MAGEF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.3065185546875 2 559.803291 1117.59203 3.7161 0.0020803 -0.043916 -2.4584E-05 3.6722 0.0020557 559.8032001585073 37.31 0.31259 37.57 37.383 37.696 0.26083 15 9 2 0 0 0 0.071101 1 16993 16993 39.957 23.015 1 304120 36312 5116 23121 23193 40726 40726 0.03793735714225477 VQPSKYHFL 9 Unmodified _VQPSKYHFL_ 0 0 0 ENSG00000177383|ENST00000317897|MAGEF1 ENSG00000177383|ENST00000317897|MAGEF1 ENSG00000177383|ENST00000317897|MAGEF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.8042602539062 2 559.803291 1117.59203 3.6252 0.0020294 -0.7945 -0.00044476 2.8307 0.0015846 559.8027815687453 36.596 0.28502 37.226 37.109 37.394 0.62999 34 12 3 0 0 0 0.11001 1 16750 16750 30.225 13.283 1 259290 36313 5116 23121 23193 40727 40727 0.03793735714225477 VQPSLFYHL 9 Unmodified _VQPSLFYHL_ 0 0 0 ENSG00000142733|ENST00000357582|MAP3K6;nc|ENSG00000142733|O95382-3|MAP3K6 ENSG00000142733|ENST00000357582|MAP3K6 ENSG00000142733|ENST00000357582|MAP3K6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.299560546875 2 552.297842 1102.58113 NaN NaN NaN NaN NaN NaN NaN 66.108 1 66.813 66.313 67.313 0.7047 0 0 0 0.07219 1 31315 31315 46.921 17.839 1 36314 3329 23122 23194 40728 40728 0.03394333339952027 VQPSLFYHL 9 Unmodified _VQPSLFYHL_ 0 0 0 ENSG00000142733|ENST00000357582|MAP3K6;nc|ENSG00000142733|O95382-3|MAP3K6 ENSG00000142733|ENST00000357582|MAP3K6 ENSG00000142733|ENST00000357582|MAP3K6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.29931640625 2 552.297842 1102.58113 3.757 0.002075 -0.29467 -0.00016274 3.4623 0.0019122 552.2976169595926 67.042 0.32759 67.292 67.115 67.443 0.2501 34 20 2 0 0 0 0.029028 2 30738 30680;30738 56.541 29.658 1 777640 36315 3329 23122 23194 40729;40730 40730 0.03394333339952027 VQPSLFYHL 9 Unmodified _VQPSLFYHL_ 0 0 0 ENSG00000142733|ENST00000357582|MAP3K6;nc|ENSG00000142733|O95382-3|MAP3K6 ENSG00000142733|ENST00000357582|MAP3K6 ENSG00000142733|ENST00000357582|MAP3K6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.2999877929688 2 552.297842 1102.58113 3.5773 0.0019758 0.11961 6.6059E-05 3.6969 0.0020418 552.2977901094437 66.392 0.28993 67.049 66.928 67.218 0.65672 30 14 3 0 0 0 0.050606 2 30415 30415;30470 46.921 22.9 1 688790 36316 3329 23122 23194 40731;40732 40731 0.03394333339952027 VQPSTIQRVG 10 Unmodified _VQPSTIQRVG_ 0 0 0 ENST00000398145.6_2_22:26860718-26860763:-|nuORF ENST00000398145.6_2_22:26860718-26860763:-|nuORF ENST00000398145.6_2_22:26860718-26860763:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.8114013671875 2 542.809105 1083.60366 3.6423 0.0019771 -0.52468 -0.0002848 3.1176 0.0016923 542.8086671159542 102.43 0.1614 103.03 102.91 103.07 0.59759 6 5 2 0 0 0 0.93628 1 47428 47428 1.6526 0.85899 1 277910 36317 7590 23123 23195 40733 40733 0.06519932737569434 VQPSTIQRVG 10 Unmodified _VQPSTIQRVG_ 0 0 0 ENST00000398145.6_2_22:26860718-26860763:-|nuORF ENST00000398145.6_2_22:26860718-26860763:-|nuORF ENST00000398145.6_2_22:26860718-26860763:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 542.809105 1083.60366 3.0949 0.0016799 -1.8917 -0.0010268 1.2032 0.00065309 542.8078498927913 102.85 0.1256 102.85 102.78 102.9 0 -0.045211 -0.00043022 NaN 1.6526 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 240610 36318 7590 23123 23195 0.06519932737569434 VQPSTIQRVG 10 Unmodified _VQPSTIQRVG_ 0 0 0 ENST00000398145.6_2_22:26860718-26860763:-|nuORF ENST00000398145.6_2_22:26860718-26860763:-|nuORF ENST00000398145.6_2_22:26860718-26860763:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 542.809105 1083.60366 1.857 0.001008 -0.59524 -0.0003231 1.2618 0.00068492 542.8086242810082 102.89 0.1599 102.94 102.87 103.03 0.055099 0.046545 0.00097725 NaN 1.6526 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 393320 36319 7590 23123 23195 0.06519932737569434 VQPTQDVIS 9 Unmodified _VQPTQDVIS_ 0 0 0 ENST00000583370.5_1_17:25877599-25885155:+|nuORF ENST00000583370.5_1_17:25877599-25885155:+|nuORF ENST00000583370.5_1_17:25877599-25885155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 986.5183715820312 1 986.515302 985.508025 3.7918 0.0037406 -0.27142 -0.00026776 3.5204 0.0034729 986.5145820733989 51.12 0.19896 51.12 51.031 51.23 0 18 9 3 0 0 0 0.043585 1 23401 23401 49.933 19.296 1 568210 36320 9161 23124 23196 40734 40734 0.014691598266608707 VQPTQDVIS 9 Unmodified _VQPTQDVIS_ 0 0 0 ENST00000583370.5_1_17:25877599-25885155:+|nuORF ENST00000583370.5_1_17:25877599-25885155:+|nuORF ENST00000583370.5_1_17:25877599-25885155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 493.76324462890625 2 493.761289 985.508025 3.3099 0.0016343 0.26173 0.00012923 3.5717 0.0017636 493.76132762009047 51.131 0.27962 51.131 51.007 51.287 0 44 14 4 0 0 0 0.017293 1 23425 23425 71.922 6.6873 1 3608400 36321 9161 23124 23196 40735 40735 0.014691598266608707 VQPTQDVIS 9 Unmodified _VQPTQDVIS_ 0 0 0 ENST00000583370.5_1_17:25877599-25885155:+|nuORF ENST00000583370.5_1_17:25877599-25885155:+|nuORF ENST00000583370.5_1_17:25877599-25885155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.76251220703125 2 493.761289 985.508025 3.1148 0.001538 -0.2308 -0.00011396 2.884 0.001424 493.76111144142453 50.381 0.30636 51.204 51.021 51.327 0.82285 44 14 4 0 0 0 0.017293 1 22962 22962 71.922 6.6873 1 2967300 36322 9161 23124 23196 40736 40736 0.014691598266608707 VQPTQDVIS 9 Unmodified _VQPTQDVIS_ 0 0 0 ENST00000583370.5_1_17:25877599-25885155:+|nuORF ENST00000583370.5_1_17:25877599-25885155:+|nuORF ENST00000583370.5_1_17:25877599-25885155:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.7630615234375 2 493.761289 985.508025 3.1147 0.0015379 0.36372 0.00017959 3.4784 0.0017175 493.7614216163306 50.417 0.41789 51.074 50.875 51.293 0.65735 46 20 3 0 0 0 0.017293 1 23056 23056 71.922 3.8416 1 3449400 36323 9161 23124 23196 40737 40737 0.014691598266608707 VQPTQDVIS 9 Unmodified _VQPTQDVIS_ 0 0 0 ENST00000583370.5_1_17:25877599-25885155:+|nuORF ENST00000583370.5_1_17:25877599-25885155:+|nuORF ENST00000583370.5_1_17:25877599-25885155:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 493.761289 985.508025 3.0769 0.0015192 0.58707 0.00028987 3.6639 0.0018091 493.7614669979338 51.037 0.37282 51.299 51.096 51.469 0.26146 0.12177 0.00032143 NaN 71.922 35 16 3 NaN NaN NaN NaN 0 NaN NaN 0 2712700 36324 9161 23124 23196 0.014691598266608707 VQPVKKTYRVL 11 Unmodified _VQPVKKTYRVL_ 0 0 0 REV__nc|ENSG00000163631|P02768-3|ALB REV__nc|ENSG00000163631|P02768-3|ALB MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 665.912109375 2 665.913904 1329.81326 NaN NaN NaN NaN NaN NaN NaN 73.637 1 74.301 73.801 74.801 0.6644 0 0 0 1.0041 1 33854 33854 5.2969 2.0156 1 + + 36325 10078 23125 23197 40738 40738 0.1615417569071269 VQQGPRQK 8 Unmodified _VQQGPRQK_ 0 0 0 REV__CSDE1|p.T589*|1|0.05|ENSG00000009307|chr1:114723990-114723991|GT/-|frameshift_variant REV__CSDE1|p.T589*|1|0.05|ENSG00000009307|chr1:114723990-114723991|GT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.769775390625 2 470.769783 939.525013 NaN NaN NaN NaN NaN NaN NaN 76.495 1 77.159 76.659 77.659 0.66387 0 0 0 0.99035 1 35240 35240 2.5775 0 1 + 36326 10112 23126 23198 40739 40739 0.052831252231385406 VQQHEKWYQKF 11 Unmodified _VQQHEKWYQKF_ 0 0 0 nc|ENSG00000164221|Q8NEF3|CCDC112;ENSG00000164221|ENST00000379611|CCDC112 nc|ENSG00000164221|Q8NEF3|CCDC112 nc|ENSG00000164221|Q8NEF3|CCDC112 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.595458984375 3 507.593009 1519.7572 NaN NaN NaN NaN NaN NaN NaN 63.648 1 63.648 63.148 64.148 0 0 0 0 1.0079 1 29978 29978 0.45452 0 1 36327 4297 23127 23199 40740 40740 0.018109227831928365 VQQQKRLRNMT 11 Unmodified _VQQQKRLRNMT_ 0 0 0 ENST00000488829.1_1_9:89626569-89628063:+|nuORF;CDC20|p.E413Gfs*30|1|0.08|ENSG00000117399|chr1:43362228-43362229|-/GTAATGGGGAGAA|frameshift_variant;ENSG00000117399|ENST00000310955|CDC20 ENST00000488829.1_1_9:89626569-89628063:+|nuORF ENST00000488829.1_1_9:89626569-89628063:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 701.3960571289062 2 701.390802 1400.76705 NaN NaN NaN NaN NaN NaN NaN 74.058 1 74.058 73.558 74.558 0 0 0 0 1.0059 1 36142 36142 2.9952 1.5133 1 36328 8373 23128 23200 40741 40741 0.08269787516928773 VQQQLRRQEFL 11 Unmodified _VQQQLRRQEFL_ 0 0 0 REV__ENST00000470088.5_1_11:64559674-64564762:-|nuORF REV__ENST00000470088.5_1_11:64559674-64564762:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 722.9048461914062 2 722.904599 1443.79465 NaN NaN NaN NaN NaN NaN NaN 96.198 1 96.475 95.975 96.975 0.27778 0 0 0 1.0061 1 44200 44200 2.7352 1.4057 1 + 36329 13329 23129 23201 40742 40742 0.09050014048830235 VQQQYRRLWWR 11 Unmodified _VQQQYRRLWWR_ 0 0 0 REV__ENSG00000173237|ENST00000683896|C11orf86 REV__ENSG00000173237|ENST00000683896|C11orf86 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 809.9398193359375 2 809.939308 1617.86406 NaN NaN NaN NaN NaN NaN NaN 63.521 1 64.243 63.743 64.743 0.72236 0 0 0 1.0072 1 29761 29761 1.3295 1.3295 1 + 36330 13592 23130 23202 40743 40743 0.07984517788258927 VQQQYRRLWWR 11 Unmodified _VQQQYRRLWWR_ 0 0 0 REV__ENSG00000173237|ENST00000683896|C11orf86 REV__ENSG00000173237|ENST00000683896|C11orf86 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 809.9400634765625 2 809.939308 1617.86406 NaN NaN NaN NaN NaN NaN NaN 73.019 1 73.683 73.183 74.183 0.66398 0 0 0 1.008 1 33536 33536 0.35063 0.35063 1 + 36331 13592 23130 23202 40744 40744 0.07984517788258927 VQRALHFV 8 Unmodified _VQRALHFV_ 0 0 0 ENSG00000170369|ENST00000304725|CST2 ENSG00000170369|ENST00000304725|CST2 ENSG00000170369|ENST00000304725|CST2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 484.8197326660156 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 55.278 1 55.278 54.778 55.778 0 0 0 0 0.93233 1 25392 25392 10.183 2.2732 1 36332 4745 23131 23203 40745 40745 0.07004903608185487 VQRALHFV 8 Unmodified _VQRALHFV_ 0 0 0 ENSG00000170369|ENST00000304725|CST2 ENSG00000170369|ENST00000304725|CST2 ENSG00000170369|ENST00000304725|CST2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.28717041015625 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 70.04 1 70.296 69.796 70.796 0.25642 0 0 0 0.99035 1 32075 32075 2.5775 0 1 36333 4745 23131 23203 40746 40746 0.07004903608185487 VQRALHFV 8 Unmodified _VQRALHFV_ 0 0 0 ENSG00000170369|ENST00000304725|CST2 ENSG00000170369|ENST00000304725|CST2 ENSG00000170369|ENST00000304725|CST2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.2877197265625 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 68.36 1 69.019 68.519 69.519 0.65924 0 0 0 0.99035 1 31336 31336 2.5775 0 1 36334 4745 23131 23203 40747 40747 0.07004903608185487 VQRALVVWLYY 11 Unmodified _VQRALVVWLYY_ 0 0 0 REV__ENST00000366641.3_1_1:231499868-231500177:-|nuORF REV__ENST00000366641.3_1_1:231499868-231500177:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.603515625 3 470.602845 1408.78671 NaN NaN NaN NaN NaN NaN NaN 72.471 1 72.73 72.23 73.23 0.25876 0 0 0 1.0072 1 33269 33269 0.45452 0.046251 1 + 36335 15642 23132 23204 40748 40748 0.0986648679938753 VQREKRKRKKL 11 Unmodified _VQREKRKRKKL_ 0 0 0 REV__ENST00000334197.11_2_19:53652513-53662282:-|nuORF REV__ENST00000334197.11_2_19:53652513-53662282:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 734.983154296875 2 734.980976 1467.9474 NaN NaN NaN NaN NaN NaN NaN 73.47 1 73.47 72.97 73.97 0 0 0 0 1.0079 1 35825 35825 1.3295 0.13619 1 + 36336 15400 23133 23205 40749 40749 0.232142542361089 VQRERLLQLQ 10 Unmodified _VQRERLLQLQ_ 0 0 0 REV__ENST00000575955.1_1_17:4120189-4167236:-|nuORF REV__ENST00000575955.1_1_17:4120189-4167236:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.8887329101562 2 641.883136 1281.75172 4.3362 0.0027834 -0.90479 -0.00058077 3.4315 0.0022026 641.8822261805838 92.901 0.75487 93.156 92.728 93.483 0.25497 82 41 3 0 0 0 0.9146 1 42662 42662 2.9952 0.71247 1 770680 + 36337 17477 23134 23206 40750 40750 0.12211243991418996 VQRFPRILVLH 11 Unmodified _VQRFPRILVLH_ 0 0 0 ENST00000487163.5_1_1:161134308-161135234:+|nuORF;ENST00000485277.1_1_1:161133669-161135234:+|nuORF;nc|ENSG00000143258|Q9UK80-3|USP21;ENSG00000143258|ENST00000368002|USP21 ENST00000487163.5_1_1:161134308-161135234:+|nuORF ENST00000487163.5_1_1:161134308-161135234:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 689.4298706054688 2 689.427513 1376.84047 NaN NaN NaN NaN NaN NaN NaN 72.11 1 72.774 72.274 73.274 0.66324 0 0 0 1.0038 1 33059 33059 5.7319 0.43497 1 36338 3355 23135 23207 40751 40751 0.1671270402173377 VQRHYYVTHWE 11 Unmodified _VQRHYYVTHWE_ 0 0 0 REV__chr11:120337275-120420753|132|12.18|0.65|4.24|+|0|ARHGEF12,ARHGEF12|1 REV__chr11:120337275-120420753|132|12.18|0.65|4.24|+|0|ARHGEF12,ARHGEF12|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 759.3684692382812 2 759.36785 1516.72115 NaN NaN NaN NaN NaN NaN NaN 72.489 1 72.489 71.989 72.989 0 0 0 0 1.0072 1 35264 35264 1.3295 0 1 + 36339 10019 23136 23208 40752 40752 -0.016545343936286372 VQRIILVKL 9 Unmodified _VQRIILVKL_ 0 0 0 REV__nc|ENSG00000105855|P26012-2|ITGB8 REV__nc|ENSG00000105855|P26012-2|ITGB8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.3766479492188 2 541.376426 1080.7383 NaN NaN NaN NaN NaN NaN NaN 63.259 1 63.259 62.759 63.759 0 0 0 0 0.90611 1 29744 29744 2.0598 0 1 + 36340 11060 23137 23209 40753 40753 0.20116037950151622 VQRIKKTRRLK 11 Unmodified _VQRIKKTRRLK_ 0 0 0 ENSG00000178403|ENST00000313341|NEUROG2 ENSG00000178403|ENST00000313341|NEUROG2 ENSG00000178403|ENST00000313341|NEUROG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 713.4820556640625 2 713.478069 1424.94158 NaN NaN NaN NaN NaN NaN NaN 100.68 1 101.28 100.78 101.78 0.59717 0 0 0 1.008 1 46613 46613 0.35063 0.043601 1 36341 5165 23138 23210 40754 40754 0.24611155724414857 VQRILKYHLLL 11 Unmodified _VQRILKYHLLL_ 0 0 0 nc|ENSG00000126822|A1L390-3|PLEKHG3;ENSG00000126822|ENST00000247226|PLEKHG3;ENST00000490180.2_1_14:65197520-65198405:+|nuORF;nc|ENSG00000090924|Q9H7P9-2|PLEKHG2;PLEKHG2|p.L964Rfs*79|1|0.24|ENSG00000090924|chr19:39424022-39424031|CCTCCAGGTG/-|frameshift_variant;PLEKHG2|p.L893Wfs*153|1|0.37|ENSG00000090924|chr19:39423806-39423806|C/-|frameshift_variant;nc|ENSG00000090924|Q9H7P9-3|PLEKHG2;ENSG00000090924|ENST00000425673|PLEKHG2;ENSG00000120278|ENST00000696526|PLEKHG1 nc|ENSG00000126822|A1L390-3|PLEKHG3;ENSG00000120278|ENST00000696526|PLEKHG1 nc|ENSG00000126822|A1L390-3|PLEKHG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 698.1400756835938 2 698.445372 1394.87619 NaN NaN NaN NaN NaN NaN NaN 85.772 1 85.772 85.272 86.272 0 0 0 0 1.0071 1 43768 43768 1.4819 0.15237 1 36342 2466;2187 23139 23211 40755 40755 0.19454741478762116 VQRKRRLR 8 Unmodified _VQRKRRLR_ 0 0 0 REV__nc|ENSG00000073670|O75078-2|ADAM11 REV__nc|ENSG00000073670|O75078-2|ADAM11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 556.3660278320312 2 556.36779 1110.72103 NaN NaN NaN NaN NaN NaN NaN 61.59 1 62.321 61.821 62.821 0.73077 0 0 0 0.95658 1 28584 28584 8.5933 3.3626 1 + 36343 10506 23140 23212 40756 40756 0.17009555187678416 VQRLKVAL 8 Unmodified _VQRLKVAL_ 0 0 0 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 ENSG00000115760|ENST00000421745|BIRC6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 464.31451416015625 2 463.810919 925.607286 2.7531 0.0012769 -0.23599 -0.00010946 2.5171 0.0011675 463.81055901278893 33.569 0.30752 33.823 33.642 33.95 0.25389 36 18 2 0 0 0 0.21358 1 15254 15254 42.095 6.0504 1 820670 36344 1990 23141 23213 40757 40757 0.1415064730207405 VQRLRNIRVRT 11 Unmodified _VQRLRNIRVRT_ 0 0 0 ENSG00000168143|ENST00000306858|FAM83B ENSG00000168143|ENST00000306858|FAM83B ENSG00000168143|ENST00000306858|FAM83B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 705.9412231445312 2 705.94185 1409.86915 NaN NaN NaN NaN NaN NaN NaN 74.56 1 75.225 74.725 75.725 0.6644 0 0 0 1.008 1 34324 34324 0.35063 0 1 36345 4611 23142 23214 40758 40758 0.18060821650851722 VQRLSRLL 8 Unmodified _VQRLSRLL_ 0 0 0 ENST00000580878.1_1_19:40742201-40744828:-|nuORF ENST00000580878.1_1_19:40742201-40744828:-|nuORF ENST00000580878.1_1_19:40742201-40744828:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.8148193359375 2 492.819276 983.623999 3.3529 0.0016524 -0.29274 -0.00014427 3.0602 0.0015081 492.81899297607424 19.361 0.33264 20.02 19.803 20.136 0.65829 52 23 3 0 0 0 0.52517 1 8728 8728 19.439 0 1 2270900 36346 9148 23143 23215 40759 40759 0.13153148188030173 VQRMTHLRIRW 11 Unmodified _VQRMTHLRIRW_ 0 0 0 chr6:998472-1005398|349|10.17|0.0|19.96|-|1|LINC01622,LINC01622|1 chr6:998472-1005398|349|10.17|0.0|19.96|-|1|LINC01622,LINC01622|1 chr6:998472-1005398|349|10.17|0.0|19.96|-|1|LINC01622,LINC01622|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 748.425048828125 2 748.424979 1494.83541 NaN NaN NaN NaN NaN NaN NaN 62.889 1 62.889 62.389 63.389 0 0 0 0 1.008 1 29518 29518 0.35063 0 1 36347 188 23144 23216 40760 40760 0.10778076887459065 VQRPRPRRRRR 11 Unmodified _VQRPRPRRRRR_ 0 0 0 nc|ENSG00000140320|Q8TBE0-3|BAHD1;nc|ENSG00000140320|Q8TBE0-2|BAHD1;ENSG00000140320|ENST00000416165|BAHD1 nc|ENSG00000140320|Q8TBE0-3|BAHD1 nc|ENSG00000140320|Q8TBE0-3|BAHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 766.8731079101562 2 766.982707 1531.95086 2.5815 0.00198 1.4503 0.0011123 4.0318 0.0030923 766.9848219451578 93.497 0.034523 93.583 93.556 93.59 0.086212 5 4 2 0 0 0 0.91378 1 48997 48997 0.35063 0.081612 1 7659200 36348 3191 23145 23217 40761 40761 0.20616361853308263 VQRPRPRRRRR 11 Unmodified _VQRPRPRRRRR_ 0 0 0 nc|ENSG00000140320|Q8TBE0-3|BAHD1;nc|ENSG00000140320|Q8TBE0-2|BAHD1;ENSG00000140320|ENST00000416165|BAHD1 nc|ENSG00000140320|Q8TBE0-3|BAHD1 nc|ENSG00000140320|Q8TBE0-3|BAHD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 766.982707 1531.95086 3.3095 0.0025383 -1.3556 -0.0010397 1.9539 0.0014986 766.9807709752849 93.429 0.062897 93.429 93.381 93.444 0 -0.077332 -0.001985 NaN 0.35063 9 7 2 NaN NaN NaN NaN 0 NaN NaN 0 5885700 36349 3191 23145 23217 0.20616361853308263 VQRRIRSMRTW 11 Unmodified _VQRRIRSMRTW_ 0 0 0 ENST00000373518.1_1_X:72347145-72347370:-|nuORF ENST00000373518.1_1_X:72347145-72347370:-|nuORF ENST00000373518.1_1_X:72347145-72347370:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 744.9194946289062 2 744.920061 1487.82557 NaN NaN NaN NaN NaN NaN NaN 84.459 1 84.459 83.959 84.959 0 0 0 0 1.008 1 42765 42765 0.35063 0 1 36350 7362 23146 23218 40762 40762 0.10116888882066633 VQRRQRREQR 10 Unmodified _VQRRQRREQR_ 0 0 0 REV__LAD1|p.M354Nfs*77|1|0.32|ENSG00000159166|chr1:201385771-201385772|-/T|frameshift_variant REV__LAD1|p.M354Nfs*77|1|0.32|ENSG00000159166|chr1:201385771-201385772|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 706.40625 2 706.408706 1410.80286 NaN NaN NaN NaN NaN NaN NaN 72.627 1 73.326 72.826 73.826 0.69881 0 0 0 1.0001 1 34982 34982 1.6526 0 1 + 36351 12844 23147 23219 40763 40763 0.11389005808814545 VQRRRLLFLPQ 11 Unmodified _VQRRRLLFLPQ_ 0 0 0 ENST00000551430.6_1_12:56685573-56694068:-|nuORF ENST00000551430.6_1_12:56685573-56694068:-|nuORF ENST00000551430.6_1_12:56685573-56694068:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 475.9660339355469 3 475.964889 1424.87284 NaN NaN NaN NaN NaN NaN NaN 62.807 1 62.807 62.307 63.307 0 0 0 0 1.0072 1 29464 29464 1.3296 0.21989 1 36352 8878 23148 23220 40764 40764 0.17739491424731568 VQRRRLVRIPR 11 Unmodified _VQRRRLVRIPR_ 0 0 0 REV__ENST00000451759.5_1_1:163218411-163276054:-|nuORF REV__ENST00000451759.5_1_1:163218411-163276054:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 724.9751586914062 2 724.973485 1447.93242 NaN NaN NaN NaN NaN NaN NaN 35.021 1 35.812 35.312 36.312 0.791 0 0 0 1.0082 1 15870 15870 0 0 1 + 36353 16416 23149 23221 40765 40765 0.22636807158778538 VQRRRRRRRPR 11 Unmodified _VQRRRRRRRPR_ 0 0 0 REV__ENST00000453677.1_1_7:104654330-104654752:-|nuORF REV__ENST00000453677.1_1_7:104654330-104654752:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 796.503662109375 2 796.506881 1590.99921 NaN NaN NaN NaN NaN NaN NaN 47.862 1 48.516 48.016 49.016 0.65356 0 0 0 1.0082 1 21909 21909 0 0 1 + 36354 16429 23150 23222 40766 40766 0.22734855493217765 VQRRRSLPRVR 11 Unmodified _VQRRRSLPRVR_ 0 0 0 REV__nc|ENSG00000149091|Q13574-1|DGKZ REV__nc|ENSG00000149091|Q13574-1|DGKZ MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 711.9493408203125 2 711.947467 1421.88038 NaN NaN NaN NaN NaN NaN NaN 72.629 1 73.293 72.793 73.793 0.66398 0 0 0 0.98464 1 33327 33327 8.1555 5.657 1 + 36355 17978 23151 23223 40767 40767 0.18631643744993198 VQRTSLRHP 9 Unmodified _VQRTSLRHP_ 0 0 0 ENST00000255890.8_1_22:23744057-23744278:-|nuORF ENST00000255890.8_1_22:23744057-23744278:-|nuORF ENST00000255890.8_1_22:23744057-23744278:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.2130126953125 3 365.212351 1092.61522 NaN NaN NaN NaN NaN NaN NaN 50.3 1 50.561 50.061 51.061 0.26146 0 0 0 0.89983 1 22987 22987 2.086 0 1 36356 6518 23152 23224 40768 40768 0.07262174551533462 VQRVKILYNKK 11 Unmodified _VQRVKILYNKK_ 0 0 0 ENSG00000117569|ENST00000674951|PTBP2;nc|ENSG00000117569|Q9UKA9-2|PTBP2;nc|ENSG00000117569|Q9UKA9-4|PTBP2;nc|ENSG00000117569|Q9UKA9-3|PTBP2 ENSG00000117569|ENST00000674951|PTBP2 ENSG00000117569|ENST00000674951|PTBP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.6290283203125 3 463.629394 1387.86635 NaN NaN NaN NaN NaN NaN NaN 62.417 1 63.148 62.648 63.648 0.73077 0 0 0 1.0059 1 29095 29095 1.2148 0.76031 1 36357 2080 23153 23225 40769 40769 0.18793553473346947 VQSETENLMDA 11 Unmodified _VQSETENLMDA_ 0 0 0 ENSG00000006788|ENST00000252172|MYH13 ENSG00000006788|ENST00000252172|MYH13 ENSG00000006788|ENST00000252172|MYH13 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 618.7731323242188 2 618.774267 1235.53398 NaN NaN NaN NaN NaN NaN NaN 70.267 1 70.97 70.47 71.47 0.70302 0 0 0 0.98464 1 33661 33661 8.1555 1.9497 1 36358 360 23154 23226 40770 40770 -0.07436358784025288 VQSLGMLH 8 Unmodified _VQSLGMLH_ 0 0 0 ENST00000379883.2_1_9:32459384-32459423:-|nuORF ENST00000379883.2_1_9:32459384-32459423:-|nuORF ENST00000379883.2_1_9:32459384-32459423:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 442.7358703613281 2 442.736563 883.458573 NaN NaN NaN NaN NaN NaN NaN 12.435 1 12.696 12.196 13.196 0.26154 0 0 0 0.89651 1 5378 5378 12.532 0 1 36359 7457 23155 23227 40771 40771 0.012181733368720415 VQSSLVSRYQL 11 Unmodified _VQSSLVSRYQL_ 0 0 0 ENST00000372728.3_1_X:102318578-102319143:-|nuORF ENST00000372728.3_1_X:102318578-102319143:-|nuORF ENST00000372728.3_1_X:102318578-102319143:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.3561401367188 2 640.353877 1278.6932 NaN NaN NaN NaN NaN NaN NaN 60.638 1 61.378 60.878 61.878 0.7396 0 0 0 1.0007 1 28015 28015 6.6304 1.3335 1 36360 7343 23156 23228 40772 40772 0.06500142626282468 VQTILTVHL 9 Unmodified _VQTILTVHL_ 0 0 0 nc|ENSG00000196383|P0C623|OR4Q2 nc|ENSG00000196383|P0C623|OR4Q2 nc|ENSG00000196383|P0C623|OR4Q2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 512.123046875 2 512.313492 1022.61243 NaN NaN NaN NaN NaN NaN NaN 62.058 1 62.058 61.558 62.558 0 0 0 0 0.69911 1 29040 29040 12.532 3.1484 1 36361 9797 23157 23229 40773 40773 0.10202906374036047 VQTLLELL 8 Unmodified _VQTLLELL_ 0 0 0 nc|ENSG00000115525|Q9UNP4-2|ST3GAL5;nc|ENSG00000115525|Q9UNP4-3|ST3GAL5;ENSG00000115525|ENST00000638572|ST3GAL5 nc|ENSG00000115525|Q9UNP4-2|ST3GAL5 nc|ENSG00000115525|Q9UNP4-2|ST3GAL5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 464.79217529296875 2 464.789318 927.564084 NaN NaN NaN NaN NaN NaN NaN 29.228 1 29.228 28.728 29.728 0 0 0 0 0.99035 1 13189 13189 2.5775 0 1 36362 1974 23158 23230 40774 40774 0.09740412734140591 VQTLRWQRWQR 11 Unmodified _VQTLRWQRWQR_ 0 0 0 ENSG00000167895|ENST00000318430|TMC8 ENSG00000167895|ENST00000318430|TMC8 ENSG00000167895|ENST00000318430|TMC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 778.9307250976562 2 778.931483 1555.84841 NaN NaN NaN NaN NaN NaN NaN 74.166 1 74.166 73.666 74.666 0 0 0 0 1.0072 1 36202 36202 1.3295 0 1 36363 4586 23159 23231 40775 40775 0.09272231271188502 VQTLRWQRWQR 11 Unmodified _VQTLRWQRWQR_ 0 0 0 ENSG00000167895|ENST00000318430|TMC8 ENSG00000167895|ENST00000318430|TMC8 ENSG00000167895|ENST00000318430|TMC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 778.9310302734375 2 778.931483 1555.84841 NaN NaN NaN NaN NaN NaN NaN 56.423 1 57.201 56.701 57.701 0.77786 0 0 0 1.008 1 25796 25796 0.35063 0 1 36364 4586 23159 23231 40776 40776 0.09272231271188502 VQTRRRVF 8 Unmodified _VQTRRRVF_ 0 0 0 REV__ENSG00000214819|ENST00000399044|CDRT15L2 REV__ENSG00000214819|ENST00000399044|CDRT15L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.3214111328125 2 531.319974 1060.6254 3.4249 0.0018197 -0.7121 -0.00037835 2.7128 0.0014413 531.319549854347 89.436 0.89019 90.115 89.865 90.755 0.67818 88 43 3 0 0 0 0.7471 1 41248 41248 0.6015 0 1 2426300 + 36365 14515 23160 23232 40777 40777 0.09750782276796599 VQVFSFRWFVH 11 Unmodified _VQVFSFRWFVH_ 0 0 0 ENSG00000206579|ENST00000327381|XKR4 ENSG00000206579|ENST00000327381|XKR4 ENSG00000206579|ENST00000327381|XKR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.5487976074219 3 484.59094 1450.75099 NaN NaN NaN NaN NaN NaN NaN 63.728 1 64.45 63.95 64.95 0.72236 0 0 0 1.0059 1 29881 29881 1.2148 0 1 36366 6076 23161 23233 40778 40778 0.04364449342324406 VQVHTRRPKLP 11 Unmodified _VQVHTRRPKLP_ 0 0 0 ENSG00000119705|ENST00000557342|SLIRP ENSG00000119705|ENST00000557342|SLIRP ENSG00000119705|ENST00000557342|SLIRP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 665.9066162109375 2 665.906945 1329.79934 NaN NaN NaN NaN NaN NaN NaN 63.94 1 64.655 64.155 65.155 0.71521 0 0 0 1.0041 1 30029 30029 5.2969 0.39987 1 36367 2160 23162 23234 40779 40779 0.14762942982270033 VQVKAKAASEK 11 Unmodified _VQVKAKAASEK_ 0 0 0 ENSG00000151150|ENST00000280772|ANK3 ENSG00000151150|ENST00000280772|ANK3 ENSG00000151150|ENST00000280772|ANK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 580.2228393554688 2 579.845687 1157.67682 NaN NaN NaN NaN NaN NaN NaN 62.435 1 63.166 62.666 63.666 0.73077 0 0 0 0.87735 1 29105 29105 18.373 8.2992 1 36368 3693 23163 23235 40780 40780 0.10429061460149569 VQVLHKRVVKR 11 Unmodified _VQVLHKRVVKR_ 0 0 0 ENST00000360822.7_1_9:123151210-123151465:-|nuORF ENST00000360822.7_1_9:123151210-123151465:-|nuORF ENST00000360822.7_1_9:123151210-123151465:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 681.7177124023438 2 681.446237 1360.87792 NaN NaN NaN NaN NaN NaN NaN 65.294 1 65.294 64.794 65.794 0 0 0 0 1.0059 1 31085 31085 2.9952 1.6657 1 36369 7217 23164 23236 40781 40781 0.2119179528733639 VQVLHKRVVKR 11 Unmodified _VQVLHKRVVKR_ 0 0 0 ENST00000360822.7_1_9:123151210-123151465:-|nuORF ENST00000360822.7_1_9:123151210-123151465:-|nuORF ENST00000360822.7_1_9:123151210-123151465:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 681.413818359375 2 681.446237 1360.87792 NaN NaN NaN NaN NaN NaN NaN 63.546 1 64.268 63.768 64.768 0.72236 0 0 0 1.0059 1 29776 29776 2.9952 1.6657 1 36370 7217 23164 23236 40782 40782 0.2119179528733639 VQVLKRDLEAR 11 Unmodified _VQVLKRDLEAR_ 0 0 0 REV__nc|ENSG00000124074|Q9H0I2-2|ENKD1 REV__nc|ENSG00000124074|Q9H0I2-2|ENKD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 663.8991088867188 2 663.896243 1325.77793 4.3707 0.0029017 -1.8781 -0.0012469 2.4925 0.0016548 663.8951551012005 93.365 0.41028 93.62 93.381 93.791 0.25497 35 19 2 0 0 0 0.91373 1 42857 42857 1.0715 1.0715 1 1660000 + 36371 11630 23165 23237 40783 40783 0.12807513162897521 VQVLKRDLEAR 11 Unmodified _VQVLKRDLEAR_ 0 0 0 REV__nc|ENSG00000124074|Q9H0I2-2|ENKD1 REV__nc|ENSG00000124074|Q9H0I2-2|ENKD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.898193359375 2 663.896243 1325.77793 4.1261 0.0027393 -1.7328 -0.0011504 2.3933 0.0015889 663.8951214576948 91.271 1.2233 91.933 91.419 92.642 0.66198 98 62 2 0 0 0 0.91373 1 41779 41779 1.0715 0.76443 1 1499700 + 36372 11630 23165 23237 40784 40784 0.12807513162897521 VQVLKSQF 8 Unmodified _VQVLKSQF_ 0 0 0 ENST00000231134.7_2_5:140517411-140517624:+|nuORF ENST00000231134.7_2_5:140517411-140517624:+|nuORF ENST00000231134.7_2_5:140517411-140517624:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 474.7782287597656 2 474.779285 947.544017 NaN NaN NaN NaN NaN NaN NaN 63.856 1 64.571 64.071 65.071 0.71521 0 0 0 0.9101 1 29968 29968 11.64 0.81637 1 36373 6446 23166 23238 40785 40785 0.06814661794192034 VQVLLLLLRIF 11 Unmodified _VQVLLLLLRIF_ 0 0 0 ENST00000332674.9_2_10:112045956-112046085:+|nuORF ENST00000332674.9_2_10:112045956-112046085:+|nuORF ENST00000332674.9_2_10:112045956-112046085:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 663.9443359375 2 663.947216 1325.87988 NaN NaN NaN NaN NaN NaN NaN 70.752 1 71.456 70.956 71.956 0.70386 0 0 0 1.0059 1 33930 33930 2.9952 1.6657 1 36374 7006 23167 23239 40786 40786 0.22997411252595157 VQVMDEQVL 9 Unmodified _VQVMDEQVL_ 0 0 0 REV__nc|ENSG00000142606|Q495T6-2|MMEL1 REV__nc|ENSG00000142606|Q495T6-2|MMEL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.7721557617188 2 530.7708 1059.52705 NaN NaN NaN NaN NaN NaN NaN 79.649 1 79.9 79.4 80.4 0.25127 0 0 0 0.42757 1 36675 36675 21.747 2.4897 1 + 36375 12334 23168 23240 40787 40787 -0.0003362687393746455 VQVPAFCL 8 Unmodified _VQVPAFCL_ 0 0 0 ENST00000555441.5_2_14:92583977-92587659:-|nuORF ENST00000555441.5_2_14:92583977-92587659:-|nuORF ENST00000555441.5_2_14:92583977-92587659:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 438.6807861328125 2 438.736031 875.45751 NaN NaN NaN NaN NaN NaN NaN 72.259 1 72.962 72.462 73.462 0.70386 0 0 0 0.99035 1 34774 34774 2.5775 0 1 36376 8916 23169 23241 40788 40788 0.014799589679682867 VQVPRGRRK 9 Unmodified _VQVPRGRRK_ 0 0 0 ENST00000512634.1_1_4:177232731-177241571:-|nuORF ENST00000512634.1_1_4:177232731-177241571:-|nuORF ENST00000512634.1_1_4:177232731-177241571:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.3465576171875 2 548.346523 1094.67849 3.9203 0.0021497 -0.66784 -0.00036621 3.2525 0.0017835 548.3459644770667 89.771 0.34859 90.022 89.817 90.166 0.25137 26 16 2 0 0 0 1.2126 1 41278 41278 0.52476 0 1 672840 36377 8572 23170 23242 40789 40789 0.1349416005944022 VQVPRGRRK 9 Unmodified _VQVPRGRRK_ 0 0 0 ENST00000512634.1_1_4:177232731-177241571:-|nuORF ENST00000512634.1_1_4:177232731-177241571:-|nuORF ENST00000512634.1_1_4:177232731-177241571:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.3484497070312 2 548.346523 1094.67849 3.7015 0.0020297 -0.66288 -0.00036349 3.0386 0.0016662 548.3460194030157 89.377 0.50767 90.055 89.946 90.453 0.67818 44 24 3 0 0 0 1.2126 1 41215 41215 0.52476 0 1 1009000 36378 8572 23170 23242 40790 40790 0.1349416005944022 VQVRNPLNVR 10 Unmodified _VQVRNPLNVR_ 0 0 0 ENSG00000128000|ENST00000434248|ZNF780B ENSG00000128000|ENST00000434248|ZNF780B ENSG00000128000|ENST00000434248|ZNF780B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.8587646484375 2 597.856921 1193.69929 4.0643 0.0024299 -0.53944 -0.00032251 3.5248 0.0021073 597.8564602953894 88.979 0.97191 89.23 88.792 89.763 0.25118 64 42 3 0 0 0 0.93713 1 40936 40936 1.4819 0 1 853210 36379 2498 23171 23243 40791 40791 0.11018705648439209 VQVRNPLNVR 10 Unmodified _VQVRNPLNVR_ 0 0 0 ENSG00000128000|ENST00000434248|ZNF780B ENSG00000128000|ENST00000434248|ZNF780B ENSG00000128000|ENST00000434248|ZNF780B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.8583374023438 2 597.856921 1193.69929 4.1819 0.0025002 -1.1487 -0.00068674 3.0332 0.0018134 597.856047462573 87.599 1.5253 88.275 87.488 89.013 0.67554 152 70 4 0 0 0 0.93713 1 40429 40429 1.4819 0 1 3695000 36380 2498 23171 23243 40792 40792 0.11018705648439209 VQVRNPLNVR 10 Unmodified _VQVRNPLNVR_ 0 0 0 ENSG00000128000|ENST00000434248|ZNF780B ENSG00000128000|ENST00000434248|ZNF780B ENSG00000128000|ENST00000434248|ZNF780B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.8582763671875 2 597.856921 1193.69929 4.1885 0.0025041 -0.64247 -0.00038411 3.5461 0.00212 597.8562632215801 88.623 0.81973 89.301 89.016 89.836 0.67818 65 35 3 0 0 0 0.93713 1 40837 40837 1.4819 0.95714 1 741520 36381 2498 23171 23243 40793 40793 0.11018705648439209 VQVRNPLNVR 10 Unmodified _VQVRNPLNVR_ 0 0 0 ENSG00000128000|ENST00000434248|ZNF780B ENSG00000128000|ENST00000434248|ZNF780B ENSG00000128000|ENST00000434248|ZNF780B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 597.856921 1193.69929 4.0643 0.0024299 -0.53944 -0.00032251 3.5248 0.0021073 597.8564602953894 88.979 0.97191 89.23 88.792 89.763 0.25118 -0.035439 5.8534E-05 NaN 1.4819 64 42 3 NaN NaN NaN NaN 0 NaN NaN 0 853210 36382 2498 23171 23243 0.11018705648439209 VQVSREPRLRL 11 Unmodified _VQVSREPRLRL_ 0 0 0 nc|ENSG00000120896|O60504-2|SORBS3;ENSG00000120896|ENST00000240123|SORBS3 nc|ENSG00000120896|O60504-2|SORBS3 nc|ENSG00000120896|O60504-2|SORBS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 676.912841796875 2 676.909685 1351.80482 NaN NaN NaN NaN NaN NaN NaN 67.233 1 67.936 67.436 68.436 0.70218 0 0 0 1.0044 1 31926 31926 4.897 1.6157 1 36383 2215 23172 23244 40794 40794 0.1429862177405994 VQWFWHTLEEF 11 Unmodified _VQWFWHTLEEF_ 0 0 0 ENSG00000103657|ENST00000443617|HERC1 ENSG00000103657|ENST00000443617|HERC1 ENSG00000103657|ENST00000443617|HERC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 761.3621826171875 2 761.361702 1520.70885 NaN NaN NaN NaN NaN NaN NaN 75.86 1 76.117 75.617 76.617 0.25704 0 0 0 1.008 1 34919 34919 0.35063 0 1 36384 1412 23173 23245 40795 40795 -0.030675708566832327 VQWKVIHSVLE 11 Unmodified _VQWKVIHSVLE_ 0 0 0 ENSG00000165392|ENST00000298139|WRN ENSG00000165392|ENST00000298139|WRN ENSG00000165392|ENST00000298139|WRN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 669.2587890625 2 669.382437 1336.75032 NaN NaN NaN NaN NaN NaN NaN 102.63 1 102.63 102.13 103.13 0 0 0 0 1.0072 1 56642 56642 1.3295 0 1 36385 4397 23174 23246 40796 40796 0.0954160990265791 VQWLFWREKKA 11 Unmodified _VQWLFWREKKA_ 0 0 0 REV__ENSG00000082293|ENST00000620364|COL19A1 REV__ENSG00000082293|ENST00000620364|COL19A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 745.9164428710938 2 745.916978 1489.8194 NaN NaN NaN NaN NaN NaN NaN 89.551 1 89.551 89.051 90.051 0 0 0 0 1.008 1 46806 46806 0.35063 0 1 + 36386 10615 23175 23247 40797 40797 0.09408693922205202 VQWLKPVISAL 11 Unmodified _VQWLKPVISAL_ 0 0 0 chr10:3080302-3082388|114|143.4|0.4|8.5|+|2|TE_info:AluYm1,AluYm1_dup2792,Alu,SINE,donor,+,3080237,3080302|None,PFKP|1 chr10:3080302-3082388|114|143.4|0.4|8.5|+|2|TE_info:AluYm1,AluYm1_dup2792,Alu,SINE,donor,+,3080237,3080302|None,PFKP|1 chr10:3080302-3082388|114|143.4|0.4|8.5|+|2|TE_info:AluYm1,AluYm1_dup2792,Alu,SINE,donor,+,3080237,3080302|None,PFKP|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 627.7971801757812 2 627.384448 1252.75434 NaN NaN NaN NaN NaN NaN NaN 19.638 1 19.638 19.138 20.138 0 0 0 0 1.0072 1 8763 8763 1.3295 0.80477 1 36387 128 23176 23248 40798 40798 0.13807699396397766 VQYALPLQL 9 Unmodified _VQYALPLQL_ 0 0 0 ENSG00000133704|ENST00000256079|IPO8 ENSG00000133704|ENST00000256079|IPO8 ENSG00000133704|ENST00000256079|IPO8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.979248046875 2 522.808042 1043.60153 NaN NaN NaN NaN NaN NaN NaN 61.028 1 61.028 60.528 61.528 0 0 0 0 0.56337 1 28435 28435 16.942 0 1 36388 2767 23177 23249 40799 40799 0.08147503999771288 VQYFRFWCQQL 11 Unmodified _VQYFRFWCQQL_ 0 0 0 nc|ENSG00000289720|Q96J02-3|ITCH;ENSG00000078747|ENST00000374864|ITCH;nc|ENSG00000289720|Q96J02|ITCH;ENST00000483727.5_1_20:33033173-33065666:+|nuORF nc|ENSG00000289720|Q96J02-3|ITCH nc|ENSG00000289720|Q96J02-3|ITCH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 506.332763671875 3 506.583456 1516.72854 NaN NaN NaN NaN NaN NaN NaN 61.01 1 61.749 61.249 62.249 0.7396 0 0 0 1.0072 1 28237 28237 0.45452 0 1 36389 884 23178 23250 40800 40800 -0.009155181175401594 VQYPLAHFDL 10 Unmodified _VQYPLAHFDL_ 0 0 0 REV__ENST00000277462.9_1_9:130887138-130890631:-|nuORF REV__ENST00000277462.9_1_9:130887138-130890631:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.6812744140625 2 601.813856 1201.61316 NaN NaN NaN NaN NaN NaN NaN 44.854 1 45.675 45.175 46.175 0.82075 0 0 0 1.0001 1 20427 20427 1.6526 0.32309 1 + 36390 12530 23179 23251 40801 40801 0.020417010230858068 VQYRKRPLDQ 10 Unmodified _VQYRKRPLDQ_ 0 0 0 REV__ENST00000521675.1_1_5:179268839-179271187:-|nuORF REV__ENST00000521675.1_1_5:179268839-179271187:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 651.867431640625 2 651.867486 1301.72042 NaN NaN NaN NaN NaN NaN NaN 71.384 1 72.047 71.547 72.547 0.66324 0 0 0 1.0001 1 32718 32718 1.6526 0 1 + 36391 17053 23180 23252 40802 40802 0.08162670957335649 VQYYRYFQERW 11 Unmodified _VQYYRYFQERW_ 0 0 0 REV__nc|ENSG00000159069|Q969U6-2|FBXW5 REV__nc|ENSG00000159069|Q969U6-2|FBXW5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 819.3938598632812 2 819.396607 1636.77866 NaN NaN NaN NaN NaN NaN NaN 95.428 1 95.428 94.928 95.928 0 0 0 0 1.008 1 51380 51380 0.30703 0.30703 1 + 36392 12840 23181 23253 40803 40803 -0.014256921881042217 VRAAARAP 8 Unmodified _VRAAARAP_ 0 0 0 ENST00000270357.9_2_2:241508179-241513275:+|nuORF ENST00000270357.9_2_2:241508179-241513275:+|nuORF ENST00000270357.9_2_2:241508179-241513275:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.24993896484375 2 406.248486 810.48242 3.6116 0.0014672 -0.22989 -9.3391E-05 3.3817 0.0013738 406.2482137844131 93.942 0.50418 94.202 93.986 94.49 0.25975 53 23 3 0 0 0 0.7471 3 43185 43185;43238;43292 0.69038 0 1 714740 36393 6649 23182 23254 40804;40805;40806 40804 0.06959774885547176 VRAAARAP 8 Unmodified _VRAAARAP_ 0 0 0 ENST00000270357.9_2_2:241508179-241513275:+|nuORF ENST00000270357.9_2_2:241508179-241513275:+|nuORF ENST00000270357.9_2_2:241508179-241513275:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.2495422363281 2 406.248486 810.48242 3.6575 0.0014859 -0.9323 -0.00037875 2.7252 0.0011071 406.2479724607371 94.676 0.42238 94.935 94.709 95.131 0.25975 53 24 3 0 0 0 0.7471 3 43456 43456;43504;43550 0.69038 0 1 930800 36394 6649 23182 23254 40807;40808;40809 40807 0.06959774885547176 VRAAARAP 8 Unmodified _VRAAARAP_ 0 0 0 ENST00000270357.9_2_2:241508179-241513275:+|nuORF ENST00000270357.9_2_2:241508179-241513275:+|nuORF ENST00000270357.9_2_2:241508179-241513275:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.2501525878906 2 406.248486 810.48242 3.0943 0.0012571 -0.81012 -0.00032911 2.2842 0.00092795 406.2479419344019 85.476 0.37829 86.142 85.922 86.301 0.66566 24 17 2 0 0 0 0.7471 2 39361 39361;39414 0.69038 0 1 464050 36395 6649 23182 23254 40810;40811 40810 0.06959774885547176 VRAAARAP 8 Unmodified _VRAAARAP_ 0 0 0 ENST00000270357.9_2_2:241508179-241513275:+|nuORF ENST00000270357.9_2_2:241508179-241513275:+|nuORF ENST00000270357.9_2_2:241508179-241513275:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.2490539550781 2 406.248486 810.48242 3.1463 0.0012782 -0.33594 -0.00013648 2.8104 0.0011417 406.24812598491985 93.88 0.44859 94.511 94.212 94.66 0.63115 43 20 3 0 0 0 0.7471 3 43134 43134;43180;43226 0.69038 0 1 741910 36396 6649 23182 23254 40812;40813;40814 40812 0.06959774885547176 VRAAARAP 8 Unmodified _VRAAARAP_ 0 0 0 ENST00000270357.9_2_2:241508179-241513275:+|nuORF ENST00000270357.9_2_2:241508179-241513275:+|nuORF ENST00000270357.9_2_2:241508179-241513275:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.249755859375 2 406.248486 810.48242 3.1486 0.0012791 -0.33514 -0.00013615 2.8135 0.001143 406.2482582152516 94.183 0.40301 94.814 94.644 95.047 0.63115 56 23 3 0 0 0 0.7471 2 43326 43326;43381 0.69038 0 1 935210 36397 6649 23182 23254 40815;40816 40815 0.06959774885547176 VRACLRRLVPP 11 Unmodified _VRACLRRLVPP_ 0 0 0 nc|ENSG00000164362|O14746-4|TERT;nc|ENSG00000164362|O14746-2|TERT;nc|ENSG00000164362|O14746-3|TERT;ENSG00000164362|ENST00000310581|TERT nc|ENSG00000164362|O14746-4|TERT nc|ENSG00000164362|O14746-4|TERT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 320.70062255859375 4 320.699946 1278.77068 2.0654 0.00066238 0.39083 0.00012534 2.4563 0.00078772 320.7000518036142 52.746 1.0254 53.549 53.162 54.187 0.8035 272 78 5 0 0 0 0.89309 1 24097 24097 1.1098 1.1098 1 79905000 36398 4310 23183 23255 40817 40817 0.14244502081464816 VRACLRRLVPP 11 Unmodified _VRACLRRLVPP_ 0 0 0 nc|ENSG00000164362|O14746-4|TERT;nc|ENSG00000164362|O14746-2|TERT;nc|ENSG00000164362|O14746-3|TERT;ENSG00000164362|ENST00000310581|TERT nc|ENSG00000164362|O14746-4|TERT nc|ENSG00000164362|O14746-4|TERT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 320.7009582519531 4 320.699946 1278.77068 2.4369 0.0007815 0.65357 0.0002096 3.0904 0.0009911 320.70020872823284 52.953 0.93101 53.216 52.635 53.566 0.26345 240 54 5 0 0 0 0.91111 1 24198 24198 0.40827 0 1 81768000 36399 4310 23183 23255 40818 40818 0.14244502081464816 VRACLRRLVPP 11 Unmodified _VRACLRRLVPP_ 0 0 0 nc|ENSG00000164362|O14746-4|TERT;nc|ENSG00000164362|O14746-2|TERT;nc|ENSG00000164362|O14746-3|TERT;ENSG00000164362|ENST00000310581|TERT nc|ENSG00000164362|O14746-4|TERT nc|ENSG00000164362|O14746-4|TERT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 640.3947143554688 2 640.392616 1278.77068 3.8167 0.0024442 0.79192 0.00050714 4.6086 0.0029513 640.392760895856 53.592 0.40958 53.857 53.552 53.962 0.26462 49 20 3 0 0 0 0.89309 1 24541 24541 2.7352 0 1 3483400 36400 4310 23183 23255 40819 40819 0.14244502081464816 VRACLRRLVPP 11 Unmodified _VRACLRRLVPP_ 0 0 0 nc|ENSG00000164362|O14746-4|TERT;nc|ENSG00000164362|O14746-2|TERT;nc|ENSG00000164362|O14746-3|TERT;ENSG00000164362|ENST00000310581|TERT nc|ENSG00000164362|O14746-4|TERT nc|ENSG00000164362|O14746-4|TERT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 640.3944702148438 2 640.392616 1278.77068 3.7417 0.0023962 0.46986 0.0003009 4.2116 0.0026971 640.3927736894027 52.756 0.78955 53.418 53.049 53.839 0.66198 115 41 3 0 0 0 0.89309 1 24269 24269 2.7352 0 1 10073000 36401 4310 23183 23255 40820 40820 0.14244502081464816 VRAGGAAA 8 Unmodified _VRAGGAAA_ 0 0 0 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.6935729980469 2 336.693013 671.371472 NaN NaN NaN NaN NaN NaN NaN 88.778 1 89.029 88.529 89.529 0.25118 0 0 0 0.99035 1 40847 40847 0 0 1 36402 635 23184 23256 40821 40821 0.022641351774609575 VRAGGAAA 8 Unmodified _VRAGGAAA_ 0 0 0 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.6936950683594 2 336.693013 671.371472 NaN NaN NaN NaN NaN NaN NaN 88.583 1 89.261 88.761 89.761 0.67818 0 0 0 0.99035 1 40795 40795 0 0 1 36403 635 23184 23256 40822 40822 0.022641351774609575 VRAGGAAA 8 Unmodified _VRAGGAAA_ 0 0 0 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.69366455078125 2 336.693013 671.371472 NaN NaN NaN NaN NaN NaN NaN 88.721 1 89.399 88.899 89.899 0.67818 0 0 0 0.99035 1 40857 40857 0 0 1 36404 635 23184 23256 40823 40823 0.022641351774609575 VRAGGAAA 8 Unmodified _VRAGGAAA_ 0 0 0 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 336.6935119628906 2 336.693013 671.371472 NaN NaN NaN NaN NaN NaN NaN 88.83 1 89.508 89.008 90.008 0.67818 0 0 0 0.99035 1 40906 40906 0 0 1 36405 635 23184 23256 40824 40824 0.022641351774609575 VRAVRGGP 8 Unmodified _VRAVRGGP_ 0 0 0 REV__ENST00000324331.10_1_6:5261416-5261566:+|nuORF REV__ENST00000324331.10_1_6:5261416-5261566:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 406.24908447265625 2 406.248486 810.48242 1.9211 0.00078044 0.44731 0.00018172 2.3684 0.00096216 406.24857574559866 82.938 0.38264 82.983 82.796 83.179 0.045006 107 44 3 0 0 0 0.7441 1 40943 40943 2.3027 0 1 27010000 + 36406 15339 23185 23257 40825 40825 0.06959774885569914 VRAVRGGP 8 Unmodified _VRAVRGGP_ 0 0 0 REV__ENST00000324331.10_1_6:5261416-5261566:+|nuORF REV__ENST00000324331.10_1_6:5261416-5261566:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.25 2 406.248486 810.48242 2.9022 0.001179 0.48098 0.0001954 3.3832 0.0013744 406.2486651422205 83.015 0.63888 83.262 83.016 83.655 0.24722 97 32 5 0 0 0 0.7441 1 38143 38143 2.3027 0 1 57563000 + 36407 15339 23185 23257 40826 40826 0.06959774885569914 VRCVPLARPLR 11 Unmodified _VRCVPLARPLR_ 0 0 0 nc|ENSG00000103111|Q7L1V2-2|MON1B;ENST00000566455.1_1_16:77227993-77232202:+|nuORF;ENSG00000103111|ENST00000248248|MON1B nc|ENSG00000103111|Q7L1V2-2|MON1B nc|ENSG00000103111|Q7L1V2-2|MON1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 640.3936767578125 2 640.392616 1278.77068 4.1468 0.0026556 -0.24269 -0.00015542 3.9041 0.0025001 640.3924014782164 54.037 0.24696 54.037 53.93 54.177 0 31 20 2 0 0 0 0.84422 1 24804 24804 4.897 1.9018 1 2029300 36408 1377 23186 23258 40827 40827 0.14244502081464816 VRCVPLARPLR 11 Unmodified _VRCVPLARPLR_ 0 0 0 nc|ENSG00000103111|Q7L1V2-2|MON1B;ENST00000566455.1_1_16:77227993-77232202:+|nuORF;ENSG00000103111|ENST00000248248|MON1B nc|ENSG00000103111|Q7L1V2-2|MON1B nc|ENSG00000103111|Q7L1V2-2|MON1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 320.7007141113281 4 320.699946 1278.77068 2.5366 0.00081347 0.52559 0.00016856 3.0621 0.00098203 320.7000773717856 54.007 0.66612 54.007 53.781 54.447 0 163 50 5 0 0 0 0.91068 2 24820 24820;24866 0.45452 0 1 57795000 36409 1377 23186 23258 40828;40829 40828 0.14244502081464816 VRCVPLARPLR 11 Unmodified _VRCVPLARPLR_ 0 0 0 nc|ENSG00000103111|Q7L1V2-2|MON1B;ENST00000566455.1_1_16:77227993-77232202:+|nuORF;ENSG00000103111|ENST00000248248|MON1B nc|ENSG00000103111|Q7L1V2-2|MON1B nc|ENSG00000103111|Q7L1V2-2|MON1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 320.70068359375 4 320.699946 1278.77068 2.0654 0.00066238 0.39083 0.00012534 2.4563 0.00078772 320.7000518036142 52.746 1.0254 53.549 53.162 54.187 0.8035 272 78 5 0 0 0 0.91068 1 24184 24184 0.45452 0 1 79905000 36410 1377 23186 23258 40830 40830 0.14244502081464816 VRDPSCVQRR 10 Unmodified _VRDPSCVQRR_ 0 0 0 REV__ENST00000469726.5_1_1:17942561-18023872:+|nuORF REV__ENST00000469726.5_1_1:17942561-18023872:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.885009765625 3 405.884017 1214.63022 2.1498 0.00087257 0.50914 0.00020665 2.659 0.0010792 405.88411740662843 71.877 0.44929 72.581 72.429 72.878 0.70386 67 45 2 0 0 0 0.90859 1 34557 34557 1.5923 0.37745 1 1725000 + 36411 10521 23187 23259 40831 40831 0.03149298357243424 VRDPSCVQRR 10 Unmodified _VRDPSCVQRR_ 0 0 0 REV__ENST00000469726.5_1_1:17942561-18023872:+|nuORF REV__ENST00000469726.5_1_1:17942561-18023872:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.8856506347656 3 405.884017 1214.63022 2.72 0.001104 0.78377 0.00031812 3.5038 0.0014221 405.88421755762056 72.222 0.4539 72.481 72.181 72.635 0.25876 112 42 3 0 0 0 0.90859 1 33194 33194 1.5923 0.37745 1 2100000 + 36412 10521 23187 23259 40832 40832 0.03149298357243424 VRDPSCVQRR 10 Unmodified _VRDPSCVQRR_ 0 0 0 REV__ENST00000469726.5_1_1:17942561-18023872:+|nuORF REV__ENST00000469726.5_1_1:17942561-18023872:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.88555908203125 3 405.884017 1214.63022 2.712 0.0011008 0.62516 0.00025374 3.3372 0.0013545 405.88411238662303 72.469 0.37722 72.728 72.609 72.987 0.25875 93 31 4 0 0 0 0.90859 1 33243 33243 1.5923 0.13716 1 2175500 + 36413 10521 23187 23259 40833 40833 0.03149298357243424 VREEKTRKRKR 11 Unmodified _VREEKTRKRKR_ 0 0 0 nc|ENSG00000167562|Q9NV72|ZNF701 nc|ENSG00000167562|Q9NV72|ZNF701 nc|ENSG00000167562|Q9NV72|ZNF701 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 743.4574584960938 2 743.457865 1484.90118 NaN NaN NaN NaN NaN NaN NaN 28.548 1 28.808 28.308 29.308 0.2602 0 0 0 1.0082 1 12985 12985 0 0 1 36414 9737 23188 23260 40834 40834 0.17812189333994866 VRELKKTQL 9 Unmodified _VRELKKTQL_ 0 0 0 ENSG00000125445|ENST00000245539|MRPS7 ENSG00000125445|ENST00000245539|MRPS7 ENSG00000125445|ENST00000245539|MRPS7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.8524780273438 2 557.850773 1113.68699 3.493 0.0019486 0.043891 2.4485E-05 3.5369 0.0019731 557.8507766433557 15.56 0.71423 15.56 15.229 15.943 0 194 85 3 0 0 0 0.64206 1 6962 6962 10.074 0 1 232260 36415 2398 23189 23261 40835 40835 0.13469669185428756 VRELRGLG 8 Unmodified _VRELRGLG_ 0 0 0 ENSG00000171793|ENST00000650070|CTPS1 ENSG00000171793|ENST00000650070|CTPS1 ENSG00000171793|ENST00000650070|CTPS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.27618408203125 2 450.274701 898.534849 3.2355 0.0014569 0.43925 0.00019778 3.6747 0.0016546 450.27489624913534 88.055 0.64559 88.733 88.532 89.178 0.67818 92 28 5 0 0 0 0.7471 2 40540 40540;40596 0 0 1 63570000 36416 4832 23190 23262 40836;40837 40836 0.08152313228538333 VRERRLRRRQR 11 Unmodified _VRERRLRRRQR_ 0 0 0 REV__ENSG00000171119|ENST00000303212|NRTN REV__ENSG00000171119|ENST00000303212|NRTN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 790.5671997070312 2 790.993272 1579.97199 NaN NaN NaN NaN NaN NaN NaN 109.78 1 110.39 109.89 110.89 0.60264 0 0 0 1.0082 1 50626 50626 0 0 1 + 36417 13475 23191 23263 40838 40838 0.20520327162194008 VRFGRREL 8 Unmodified _VRFGRREL_ 0 0 0 REV__nc|ENSG00000137880|P30047-2|GCHFR REV__nc|ENSG00000137880|P30047-2|GCHFR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 344.8743591308594 3 344.873559 1031.59885 2.4644 0.00084991 -0.17832 -6.1497E-05 2.2861 0.00078841 344.8733863864311 16.191 0.71934 16.191 15.783 16.502 0 159 87 2 0 0 0 0.72385 1 7209 7209 3.9444 0 1 116800 + 36418 12135 23192 23264 40839 40839 0.08431093385456734 VRFWVRHRRLL 11 Unmodified _VRFWVRHRRLL_ 0 0 0 REV__ENST00000466933.1_1_20:60758097-60768815:+|nuORF REV__ENST00000466933.1_1_20:60758097-60768815:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 385.2397155761719 4 385.238927 1536.9266 2.799 0.0010783 0.0016997 6.5477E-07 2.8007 0.0010789 385.2386208741041 56.752 0.41291 57.017 56.841 57.254 0.26444 25 18 2 0 0 0 0.91391 1 26011 26011 1.3296 1.2463 1 2350000 + 36419 16549 23193 23265 40840 40840 0.17961708647112573 VRFWVRHRRLL 11 Unmodified _VRFWVRHRRLL_ 0 0 0 REV__ENST00000466933.1_1_20:60758097-60768815:+|nuORF REV__ENST00000466933.1_1_20:60758097-60768815:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 385.238927 1536.9266 2.799 0.0010783 0.0016997 6.5477E-07 2.8007 0.0010789 385.2386208741041 56.752 0.41291 57.017 56.841 57.254 0.26444 0.12811 -0.00014878 NaN 1.3296 25 18 2 NaN NaN NaN NaN 0 NaN NaN 0 2350000 + 36420 16549 23193 23265 0.17961708647112573 VRFWVRHRRLL 11 Unmodified _VRFWVRHRRLL_ 0 0 0 REV__ENST00000466933.1_1_20:60758097-60768815:+|nuORF REV__ENST00000466933.1_1_20:60758097-60768815:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 385.238927 1536.9266 2.8154 0.0010846 0.19759 7.612E-05 3.013 0.0011607 385.2385301776937 56.092 0.55729 56.76 56.368 56.926 0.66829 -0.12811 0.00015308 NaN 1.3296 44 27 2 NaN NaN NaN NaN 0 NaN NaN 0 781990 + 36421 16549 23193 23265 0.17961708647112573 VRFYWRRRRKV 11 Unmodified _VRFYWRRRRKV_ 0 0 0 REV__ENST00000181839.8_1_7:39989715-39990237:+|nuORF REV__ENST00000181839.8_1_7:39989715-39990237:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.4863891601562 2 811.48676 1620.95897 NaN NaN NaN NaN NaN NaN NaN 65.27 1 65.979 65.479 66.479 0.70891 0 0 0 1.0082 1 30848 30848 0 0 1 + 36422 14789 23194 23266 40841 40841 0.17332496050062218 VRFYWRRRRKV 11 Unmodified _VRFYWRRRRKV_ 0 0 0 REV__ENST00000181839.8_1_7:39989715-39990237:+|nuORF REV__ENST00000181839.8_1_7:39989715-39990237:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 811.1073608398438 2 811.48676 1620.95897 NaN NaN NaN NaN NaN NaN NaN 83.973 1 84.636 84.136 85.136 0.66219 0 0 0 1.008 1 38679 38679 0.30703 0.30703 1 + 36423 14789 23194 23266 40842 40842 0.17332496050062218 VRGPPGRK 8 Unmodified _VRGPPGRK_ 0 0 0 ENSG00000170075|ENST00000367282|GPR37L1 ENSG00000170075|ENST00000367282|GPR37L1 ENSG00000170075|ENST00000367282|GPR37L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 866.5365600585938 1 866.531895 865.524619 4.158 0.0036031 0.58627 0.00050802 4.7443 0.0041111 866.5321439069779 103.33 0.087021 103.93 103.89 103.97 0.59822 8 4 3 0 0 0 0.7471 1 47819 47819 0 0 1 280080 36424 4731 23195 23267 40843 40843 0.08647750293948775 VRGRPAPK 8 Unmodified _VRGRPAPK_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;TTN|p.R30215Vfs*13|1|0.21|ENSG00000155657|chr2:178545544-178545544|G/-|frameshift_variant;nc|ENSG00000155657|Q8WZ42-5|TTN;nc|ENSG00000155657|Q8WZ42-9|TTN;nc|ENSG00000155657|Q8WZ42-10|TTN;nc|ENSG00000155657|Q8WZ42-3|TTN;TTN|p.P20319Hfs*66|1|0.07|ENSG00000155657|chr2:178582577-178582578|-/AAAATAAATAT|frameshift_variant ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 880.550048828125 1 880.547545 879.540269 4.1572 0.0036606 -0.0034246 -3.0155E-06 4.1537 0.0036576 880.546947320385 103.56 0.057152 104.16 104.13 104.19 0.59821 13 8 2 0 0 0 0.7471 1 47900 47900 0 0 1 386220 36425 3871 23196 23268 40844 40844 0.09568036810981084 VRGRQRIF 8 Unmodified _VRGRQRIF_ 0 0 0 REV__ENSG00000198171|ENST00000354488|DDRGK1 REV__ENSG00000198171|ENST00000354488|DDRGK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.31494140625 2 516.314692 1030.61483 2.1933 0.0011325 -0.88232 -0.00045556 1.311 0.0006769 516.3141627007365 95.783 0.29288 95.865 95.726 96.019 0.082001 77 41 2 0 0 0 0.7471 1 50680 50680 0.69038 0 1 32759000 + 36426 14323 23197 23269 40845 40845 0.10074799622339015 VRGRVALP 8 Unmodified _VRGRVALP_ 0 0 0 ENST00000283629.7_1_3:33481464-33481797:-|nuORF ENST00000283629.7_1_3:33481464-33481797:-|nuORF ENST00000283629.7_1_3:33481464-33481797:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.0335388183594 2 434.279786 866.54502 3.3267 0.0014447 4.0063 0.0017399 7.333 0.0031846 434.28300437667394 45.812 0.66703 46.463 46.001 46.668 0.65104 47 25 2 0 0 0 0.13972 1 20799 20799 8.5933 0 1 774360 36427 6708 23198 23270 40846 40846 0.10640920953744626 VRGVRGGG 8 Unmodified _VRGVRGGG_ 0 0 0 ENST00000372774.7_2_X:101395704-101395815:-|nuORF;ENSG00000204071|ENST00000372774|TCEAL6;nc|ENSG00000204071|Q6IPX3|TCEAL6;ENSG00000196507|ENST00000372627|TCEAL3;ENSG00000204065|ENST00000372680|TCEAL5 ENST00000372774.7_2_X:101395704-101395815:-|nuORF ENST00000372774.7_2_X:101395704-101395815:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.2296142578125 2 379.225011 756.435469 3.0769 0.0011668 4.1346 0.001568 7.2116 0.0027348 379.2280816989212 53.605 0.22205 53.605 53.463 53.685 0 27 16 2 0 0 0 0.7441 1 24567 24567 2.3027 0 1 1347100 36428 5750 23199 23271 40847 40847 0.04750915334432193 VRGVRGGG 8 Unmodified _VRGVRGGG_ 0 0 0 ENST00000372774.7_2_X:101395704-101395815:-|nuORF;ENSG00000204071|ENST00000372774|TCEAL6;nc|ENSG00000204071|Q6IPX3|TCEAL6;ENSG00000196507|ENST00000372627|TCEAL3;ENSG00000204065|ENST00000372680|TCEAL5 ENST00000372774.7_2_X:101395704-101395815:-|nuORF ENST00000372774.7_2_X:101395704-101395815:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.7261657714844 2 379.225011 756.435469 2.1325 0.0008087 3.6266 0.0013753 5.7591 0.002184 379.22765773870594 52.47 0.22823 53.281 53.141 53.369 0.81065 39 15 3 0 0 0 0.7441 2 23867 23867;23906 2.3027 0 1 992030 36429 5750 23199 23271 40848;40849 40848 0.04750915334432193 VRGVRKRP 8 Unmodified _VRGVRKRP_ 0 0 0 REV__ENST00000331768.9_1_14:99929848-99929914:-|nuORF REV__ENST00000331768.9_1_14:99929848-99929914:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 484.31744384765625 2 484.317235 966.619916 NaN NaN NaN NaN NaN NaN NaN 44.161 1 44.811 44.311 45.311 0.64998 0 0 0 0.99035 1 20242 20242 2.3027 0 1 + 36430 15383 23200 23272 40850 40850 0.13527103484977943 VRIKAPVPI 9 Unmodified _VRIKAPVPI_ 0 0 0 REV__ENSG00000008513|ENST00000522652|ST3GAL1 REV__ENSG00000008513|ENST00000522652|ST3GAL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.83538818359375 2 496.834394 991.654236 NaN NaN NaN NaN NaN NaN NaN 93.586 1 93.841 93.341 94.341 0.25497 0 0 0 0.91206 1 43014 43014 0.6015 0 1 + 36431 10209 23201 23273 40851 40851 0.15807506853207087 VRIKCFKSRVP 11 Unmodified _VRIKCFKSRVP_ 0 0 0 REV__nc|ENSG00000146856|Q8NEM8-2|AGBL3 REV__nc|ENSG00000146856|Q8NEM8-2|AGBL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 666.923095703125 2 666.900274 1331.786 NaN NaN NaN NaN NaN NaN NaN 108.29 1 108.29 107.79 108.79 0 0 0 0 1.0059 1 59320 59320 2.9952 0 1 + 36432 12484 23202 23274 40852 40852 0.1333736887863779 VRIKELQRR 9 Unmodified _VRIKELQRR_ 0 0 0 nc|ENSG00000053918|P51787-2|KCNQ1;ENSG00000053918|ENST00000155840|KCNQ1 nc|ENSG00000053918|P51787-2|KCNQ1 nc|ENSG00000053918|P51787-2|KCNQ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 399.92364501953125 3 399.922801 1196.74657 3.1361 0.0012542 -1.6651 -0.00066593 1.471 0.00058829 399.9221547699984 99.289 0.16479 99.887 99.791 99.956 0.59748 12 8 2 0 0 0 1.178 1 45907 45907 1.0715 0 1 2645700 36433 601 23203 23275 40853 40853 0.15606984919440947 VRILELLKLKF 11 Unmodified _VRILELLKLKF_ 0 0 0 nc|ENSG00000142197|Q9Y3R5-2|DOP1B;ENSG00000142197|ENST00000691173|DOP1B nc|ENSG00000142197|Q9Y3R5-2|DOP1B nc|ENSG00000142197|Q9Y3R5-2|DOP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 686.457275390625 2 686.457948 1370.90134 NaN NaN NaN NaN NaN NaN NaN 40.515 1 40.515 40.015 41.015 0 0 0 0 1.008 1 18389 18389 0.35063 0 1 36434 3301 23204 23276 40854 40854 0.23072796281280716 VRIVLTKTKR 10 Unmodified _VRIVLTKTKR_ 0 0 0 ENSG00000170584|ENST00000302764|NUDCD2 ENSG00000170584|ENST00000302764|NUDCD2 ENSG00000170584|ENST00000302764|NUDCD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.2746887207031 3 405.274952 1212.80303 NaN NaN NaN NaN NaN NaN NaN 38.555 1 39.189 38.689 39.689 0.63388 0 0 0 1.0013 1 17630 17630 0.62683 0.39098 1 36435 4760 23205 23277 40855 40855 0.20513612756099064 VRIYYQYRRVK 11 Unmodified _VRIYYQYRRVK_ 0 0 0 ENSG00000164776|ENST00000297373|PHKG1;nc|ENSG00000164776|Q16816-2|PHKG1 ENSG00000164776|ENST00000297373|PHKG1 ENSG00000164776|ENST00000297373|PHKG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 772.8643798828125 2 772.446434 1542.87832 NaN NaN NaN NaN NaN NaN NaN 52.364 1 52.627 52.127 53.127 0.26345 0 0 0 1.0082 1 23938 23938 0.30703 0.03801 1 36436 4344 23206 23278 40856 40856 0.12859170216506755 VRKACVFCLV 10 Unmodified _VRKACVFCLV_ 0 0 0 nc|ENSG00000163539|O75122|CLASP2;ENSG00000163539|ENST00000682230|CLASP2;nc|ENSG00000163539|O75122-3|CLASP2 nc|ENSG00000163539|O75122|CLASP2 nc|ENSG00000163539|O75122|CLASP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.8421936035156 3 379.880557 1136.61984 NaN NaN NaN NaN NaN NaN NaN 1.4925 1 1.8861 1.3861 2.3861 0.39356 0 0 0 1.002 1 680 680 0 0 1 36437 4222 23207 23279 40857 40857 0.056995993784312304 VRKAITAVAL 10 Unmodified _VRKAITAVAL_ 0 0 0 MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant;ENSG00000128833|ENST00000261839|MYO5C MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.8984375 3 347.897481 1040.67061 2.2824 0.00079405 -0.66626 -0.00023179 1.6162 0.00056226 347.89747162873545 14.374 0.15874 14.68 14.593 14.752 0.3069 11 6 3 0 0 0 0.16336 1 6512 6512 37.075 21.826 1 992930 36438 2529 23208 23280 40858 40858 0.15190588019299867 VRKAITAVAL 10 Unmodified _VRKAITAVAL_ 0 0 0 MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant;ENSG00000128833|ENST00000261839|MYO5C MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 347.8979797363281 3 347.897481 1040.67061 2.5069 0.00087214 0.395 0.00013742 2.9019 0.0010096 347.89742813169175 14.378 0.13165 15.026 14.96 15.091 0.6482 19 10 3 0 0 0 0.13545 1 6470 6470 34.222 5.9881 1 1452400 36439 2529 23208 23280 40859 40859 0.15190588019299867 VRKCFDED 8 Unmodified _VRKCFDED_ 0 0 0 REV__ENSG00000250722|ENST00000514985|SELENOP REV__ENSG00000250722|ENST00000514985|SELENOP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.67218017578125 2 506.231842 1010.44913 NaN NaN NaN NaN NaN NaN NaN 89.142 1 89.82 89.32 90.32 0.67818 0 0 0 0.99035 1 41045 41045 2.5775 0 1 + 36440 14656 23209 23281 40860 40860 -0.055676397393199295 VRKEIHKKF 9 Unmodified _VRKEIHKKF_ 0 0 0 REV__ENSG00000163618|ENST00000383710|CADPS REV__ENSG00000163618|ENST00000383710|CADPS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.2483215332031 3 395.580264 1183.71896 NaN NaN NaN NaN NaN NaN NaN 16.088 1 16.394 15.894 16.894 0.306 0 0 0 0.91342 1 7280 7280 0.26902 0 1 + 36441 13010 23210 23282 40861 40861 0.134450816592107 VRKIKKKLVKM 11 Unmodified _VRKIKKKLVKM_ 0 0 0 REV__ENSG00000206530|ENST00000393845|CFAP44 REV__ENSG00000206530|ENST00000393845|CFAP44 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.7745971679688 2 685.973242 1369.93193 NaN NaN NaN NaN NaN NaN NaN 57.273 1 57.273 56.773 57.773 0 0 0 0 1.0082 1 26393 26393 0 0 1 + 36442 14477 23211 23283 40862 40862 0.26176251394690553 VRKKKHKK 8 Unmodified _VRKKKHKK_ 0 0 0 REV__nc|ENSG00000135506|Q13438-8|OS9 REV__nc|ENSG00000135506|Q13438-8|OS9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.3632202148438 2 526.364185 1050.71382 NaN NaN NaN NaN NaN NaN NaN 27.291 1 27.553 27.053 28.053 0.26245 0 0 0 0.99035 1 12404 12404 0.69038 0 1 + 36443 12022 23212 23284 40863 40863 0.19048822587274117 VRKKLHEVRKI 11 Unmodified _VRKKLHEVRKI_ 0 0 0 REV__nc|ENSG00000122970|Q8WYA0-3|IFT81 REV__nc|ENSG00000122970|Q8WYA0-3|IFT81 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 703.5239868164062 2 703.459345 1404.90414 NaN NaN NaN NaN NaN NaN NaN 72.346 1 73.009 72.509 73.509 0.66324 0 0 0 1.005 1 33179 33179 4.1895 2.9962 1 + 36444 11599 23213 23285 40864 40864 0.21788064458814915 VRKKRRTRRM 10 Unmodified _VRKKRRTRRM_ 0 0 0 REV__ENST00000463639.1_1_6:32945663-32945765:+|nuORF REV__ENST00000463639.1_1_6:32945663-32945765:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 693.9390869140625 2 693.938588 1385.86262 NaN NaN NaN NaN NaN NaN NaN 50.117 1 50.117 49.617 50.617 0 0 0 0 1.0016 1 22944 22944 0.35063 0.043601 1 + 36445 16514 23214 23286 40865 40865 0.18512605218506906 VRKLGVGW 8 Unmodified _VRKLGVGW_ 0 0 0 ENST00000278174.9_1_11:13443338-13466721:-|nuORF ENST00000278174.9_1_11:13443338-13466721:-|nuORF ENST00000278174.9_1_11:13443338-13466721:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 305.52484130859375 3 305.523867 913.549771 NaN NaN NaN NaN NaN NaN NaN 27.285 1 27.285 26.785 27.785 0 0 0 0 0.99035 1 12284 12284 0.45834 0 1 36446 6682 23215 23287 40866 40866 0.08953805096530232 VRKLKERQRRK 11 Unmodified _VRKLKERQRRK_ 0 0 0 nc|ENSG00000173011|Q86TJ2-3|TADA2B;nc|ENSG00000173011|Q86TJ2-2|TADA2B;ENSG00000173011|ENST00000310074|TADA2B nc|ENSG00000173011|Q86TJ2-3|TADA2B nc|ENSG00000173011|Q86TJ2-3|TADA2B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 748.9835815429688 2 748.98405 1495.95355 NaN NaN NaN NaN NaN NaN NaN 76.209 1 76.873 76.373 77.373 0.66387 0 0 0 1.0082 1 35107 35107 0 0 1 36447 4911 23216 23288 40867 40867 0.22540772467618808 VRKLVAKKLKL 11 Unmodified _VRKLVAKKLKL_ 0 0 0 REV__ENST00000480924.3_1_12:87563815-87564172:-|nuORF REV__ENST00000480924.3_1_12:87563815-87564172:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 648.4675903320312 2 648.466107 1294.91766 NaN NaN NaN NaN NaN NaN NaN 25.079 1 25.843 25.343 26.343 0.76356 0 0 0 1.0082 1 11249 11249 0 0 1 + 36448 16696 23217 23289 40868 40868 0.28199922238081854 VRKRKKKRR 9 Unmodified _VRKRKKKRR_ 0 0 0 ENST00000461935.1_1_1:70716327-70716369:+|nuORF ENST00000461935.1_1_1:70716327-70716369:+|nuORF ENST00000461935.1_1_1:70716327-70716369:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 627.9378051757812 2 627.938914 1253.86327 NaN NaN NaN NaN NaN NaN NaN 27.439 1 27.439 26.939 27.939 0 0 0 0 0.91452 1 12355 12355 0 0 1 36449 8091 23218 23290 40869 40869 0.24649767929849986 VRKRLRRIIVS 11 Unmodified _VRKRLRRIIVS_ 0 0 0 REV__ENST00000564682.5_1_16:28565295-28592384:+|nuORF REV__ENST00000564682.5_1_16:28565295-28592384:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 698.8126220703125 2 698.472786 1394.93102 NaN NaN NaN NaN NaN NaN NaN 79.406 1 79.726 79.226 80.226 0.31998 0 0 0 1.0082 1 38791 38791 0 0 1 + 36450 17404 23219 23291 40870 40870 0.24935173070025485 VRKRWKRKRKL 11 Unmodified _VRKRWKRKRKL_ 0 0 0 REV__NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant REV__NEFM|p.E534Ffs*188|1|0.08|ENSG00000104722|chr8:24917453-24917454|-/ATTCCTCT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 777.5213012695312 2 777.520602 1553.02665 NaN NaN NaN NaN NaN NaN NaN 90.899 1 91.151 90.651 91.651 0.25163 0 0 0 1.0082 1 41798 41798 0 0 1 + 36451 18186 23220 23292 40871 40871 0.2722594598087653 VRKVHTIR 8 Unmodified _VRKVHTIR_ 0 0 0 nc|ENSG00000204536|Q8TD31-3|CCHCR1;ENSG00000204536|ENST00000396268|CCHCR1;ENST00000509552.5_1_6:31112443-31124902:-|nuORF;nc|ENSG00000204536|Q8TD31|CCHCR1 nc|ENSG00000204536|Q8TD31-3|CCHCR1 nc|ENSG00000204536|Q8TD31-3|CCHCR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 336.8870849609375 3 336.885687 1007.63523 NaN NaN NaN NaN NaN NaN NaN 2.5711 1 2.5711 2.0711 3.0711 0 0 0 0 0.99035 1 1171 1171 0 0 1 36452 6016 23221 23293 40872 40872 0.13171970282189704 VRKVHTIR 8 Unmodified _VRKVHTIR_ 0 0 0 nc|ENSG00000204536|Q8TD31-3|CCHCR1;ENSG00000204536|ENST00000396268|CCHCR1;ENST00000509552.5_1_6:31112443-31124902:-|nuORF;nc|ENSG00000204536|Q8TD31|CCHCR1 nc|ENSG00000204536|Q8TD31-3|CCHCR1 nc|ENSG00000204536|Q8TD31-3|CCHCR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 336.8865661621094 3 336.885687 1007.63523 NaN NaN NaN NaN NaN NaN NaN 2.5915 1 2.8957 2.3957 3.3957 0.3042 0 0 0 0.99035 1 1180 1180 0 0 1 36453 6016 23221 23293 40873 40873 0.13171970282189704 VRLAKKVLH 9 Unmodified _VRLAKKVLH_ 0 0 0 REV__nc|ENSG00000115607|O95256-2|IL18RAP REV__nc|ENSG00000115607|O95256-2|IL18RAP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 532.1793823242188 2 532.358568 1062.70258 NaN NaN NaN NaN NaN NaN NaN 62.633 1 63.364 62.864 63.864 0.73077 0 0 0 0.86044 1 29239 29239 7.2892 2.5332 1 + 36454 11377 23222 23294 40874 40874 0.17374000493123276 VRLAPIPKNKV 11 Unmodified _VRLAPIPKNKV_ 0 0 0 REV__ENSG00000174720|ENST00000344442|LARP7 REV__ENSG00000174720|ENST00000344442|LARP7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.2734375 3 412.271319 1233.79213 NaN NaN NaN NaN NaN NaN NaN 40.37 1 40.639 40.139 41.139 0.26904 0 0 0 1.0062 1 18367 18367 2.6312 0.19645 1 + 36455 13643 23223 23295 40875 40875 0.18458210381822937 VRLAPIPKNKV 11 Unmodified _VRLAPIPKNKV_ 0 0 0 REV__ENSG00000174720|ENST00000344442|LARP7 REV__ENSG00000174720|ENST00000344442|LARP7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.27276611328125 3 412.271319 1233.79213 NaN NaN NaN NaN NaN NaN NaN 42.598 1 42.868 42.368 43.368 0.27021 0 0 0 1.006 1 19426 19426 2.8433 0.59056 1 + 36456 13643 23223 23295 40876 40876 0.18458210381822937 VRLFKMAVLR 10 Unmodified _VRLFKMAVLR_ 0 0 0 REV__ENST00000485076.1_1_17:49244191-49244524:+|nuORF REV__ENST00000485076.1_1_17:49244191-49244524:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 616.885009765625 2 616.886635 1231.75872 NaN NaN NaN NaN NaN NaN NaN 95.008 1 95.626 95.126 96.126 0.61736 0 0 0 1.0003 1 43693 43693 1.4819 0.15237 1 + 36457 16739 23224 23296 40877 40877 0.15210885338274238 VRLFRFRILKR 11 Unmodified _VRLFRFRILKR_ 0 0 0 REV__ENST00000397086.6_2_16:2303455-2303809:-|nuORF REV__ENST00000397086.6_2_16:2303455-2303809:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 752.4906005859375 2 752.490979 1502.96741 NaN NaN NaN NaN NaN NaN NaN 34.518 1 34.772 34.272 35.272 0.25389 0 0 0 1.0082 1 15722 15722 0 0 1 + 36458 16011 23225 23297 40878 40878 0.2360404996672969 VRLHGRRA 8 Unmodified _VRLHGRRA_ 0 0 0 REV__ENST00000362057.3_1_9:117266551-117266902:-|nuORF REV__ENST00000362057.3_1_9:117266551-117266902:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.2126770019531 3 322.201898 963.583865 NaN NaN NaN NaN NaN NaN NaN 30.444 1 30.701 30.201 31.201 0.25709 0 0 0 0.99035 1 13855 13855 1.4819 0 1 + 36459 15636 23226 23298 40879 40879 0.10061646308122363 VRLHGRRA 8 Unmodified _VRLHGRRA_ 0 0 0 REV__ENST00000362057.3_1_9:117266551-117266902:-|nuORF REV__ENST00000362057.3_1_9:117266551-117266902:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.21270751953125 3 322.201898 963.583865 NaN NaN NaN NaN NaN NaN NaN 30.552 1 30.809 30.309 31.309 0.25614 0 0 0 0.99035 1 13904 13904 1.4819 0 1 + 36460 15636 23226 23298 40880 40880 0.10061646308122363 VRLKKRKRRR 10 Unmodified _VRLKKRKRRR_ 0 0 0 nc|ENSG00000080503|P51531-2|SMARCA2;ENSG00000080503|ENST00000349721|SMARCA2 nc|ENSG00000080503|P51531-2|SMARCA2 nc|ENSG00000080503|P51531-2|SMARCA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 698.3541870117188 2 698.48402 1394.95349 NaN NaN NaN NaN NaN NaN NaN 83.295 1 83.34 82.84 83.84 0.045006 0 0 0 1.002 1 41307 41307 0 0 1 36461 908 23227 23299 40881 40881 0.2718081725827233 VRLLLLLLLLL 11 Unmodified _VRLLLLLLLLL_ 0 0 0 ENSG00000142538|ENST00000270631|PTH2 REV__ENST00000529734.5_1_11:46105847-46142581:-|nuORF REV__ENST00000529734.5_1_11:46105847-46142581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 646.5125732421875 2 646.475609 1290.93667 NaN NaN NaN NaN NaN NaN NaN 59.645 1 59.645 59.145 60.145 0 0 0 0 1.0082 1 27582 27582 0 0 1 + 36462 15332 23228 23300 40882 40882 0.30283458809162767 VRLLLLLLLLL 11 Unmodified _VRLLLLLLLLL_ 0 0 0 ENSG00000142538|ENST00000270631|PTH2 REV__ENST00000529734.5_1_11:46105847-46142581:-|nuORF REV__ENST00000529734.5_1_11:46105847-46142581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 646.5325927734375 2 646.475609 1290.93667 NaN NaN NaN NaN NaN NaN NaN 86.317 1 86.347 85.847 86.847 0.030289 0 0 0 1.0082 1 43402 43402 0 0 1 + 36463 15332 23228 23300 40883 40883 0.30283458809162767 VRLLRRLRRR 10 Unmodified _VRLLRRLRRR_ 0 0 0 ENST00000532004.5_1_11:810000-812833:+|nuORF ENST00000532004.5_1_11:810000-812833:+|nuORF ENST00000532004.5_1_11:810000-812833:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 697.47607421875 2 697.476195 1392.93784 NaN NaN NaN NaN NaN NaN NaN 103.58 1 103.63 103.13 104.13 0.053848 0 0 0 1.002 1 56146 56146 0 0 1 36464 8730 23229 23301 40884 40884 0.25708530741235336 VRLLVLLLH 9 Unmodified _VRLLVLLLH_ 0 0 0 ENST00000416600.6_1_20:3846925-3847768:+|nuORF ENST00000416600.6_1_20:3846925-3847768:+|nuORF ENST00000416600.6_1_20:3846925-3847768:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1077.082763671875 1 1075.73501 1074.72774 3.4105 0.0036688 4.0735 0.004382 7.484 0.0080508 1076.7401696889547 41.997 0.026199 42.268 42.262 42.288 0.27021 5 4 2 0 0 0 1.2459 1 19144 19144 0 0 1 6234100 36465 7714 23230 23302 40885 40885 0.1933605529570741 VRLMHPILQP 10 Unmodified _VRLMHPILQP_ 0 0 0 REV__ENSG00000198793|ENST00000361445|MTOR REV__ENSG00000198793|ENST00000361445|MTOR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 602.3549194335938 2 602.355168 1202.69578 NaN NaN NaN NaN NaN NaN NaN 9.7635 1 10.059 9.5591 10.559 0.2956 0 0 0 1.0015 1 4350 4350 0.40072 0 1 + 36466 14359 23231 23303 40886 40886 0.10254319550244873 VRLNLVRAR 9 Unmodified _VRLNLVRAR_ 0 0 0 ENST00000356309.7_1_7:158494608-158497480:-|nuORF;ENST00000409423.5_1_7:158494619-158497480:-|nuORF ENST00000356309.7_1_7:158494608-158497480:-|nuORF ENST00000356309.7_1_7:158494608-158497480:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 366.2391052246094 3 366.240241 1095.69889 NaN NaN NaN NaN NaN NaN NaN 48.27 1 48.27 47.77 48.77 0 0 0 0 0.91342 1 22104 22104 0.26902 0 1 36467 7155 23232 23304 40887 40887 0.15487330719247439 VRLPRLTRLLR 11 Unmodified _VRLPRLTRLLR_ 0 0 0 REV__nc|ENSG00000006283|O43497-34|CACNA1G;REV__nc|ENSG00000100346|Q9P0X4-3|CACNA1I;REV__nc|ENSG00000196557|O95180-2|CACNA1H REV__nc|ENSG00000006283|O43497-34|CACNA1G MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 696.9667358398438 2 696.967337 1391.92012 NaN NaN NaN NaN NaN NaN NaN 103.3 1 103.35 102.85 103.85 0.055092 0 0 0 1.0082 1 56016 56016 0 0 1 + 36468 17852;10823;14230 23233 23305 40888 40888 0.23983770695713247 VRLRPLQLRRR 11 Unmodified _VRLRPLQLRRR_ 0 0 0 REV__nc|ENSG00000105227|Q9BXM0-3|PRX REV__nc|ENSG00000105227|Q9BXM0-3|PRX MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 731.6680908203125 2 731.98131 1461.94807 NaN NaN NaN NaN NaN NaN NaN 97.484 1 97.773 97.273 98.273 0.28923 0 0 0 1.0082 1 44782 44782 0 0 1 + 36469 11021 23234 23306 40889 40889 0.2355709367579948 VRLRSKNRAV 10 Unmodified _VRLRSKNRAV_ 0 0 0 REV__ENSG00000023171|ENST00000635736|GRAMD1B REV__ENSG00000023171|ENST00000635736|GRAMD1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 400.25518798828125 3 400.254551 1197.74182 NaN NaN NaN NaN NaN NaN NaN 66.191 1 66.439 65.939 66.939 0.24848 0 0 0 1.0001 1 30324 30324 1.5923 0 1 + 36470 10269 23235 23307 40890 40890 0.15086100776693456 VRLRVTLARNL 11 Unmodified _VRLRVTLARNL_ 0 0 0 ENST00000475622.5_1_5:1463255-1463705:-|nuORF ENST00000475622.5_1_5:1463255-1463705:-|nuORF ENST00000475622.5_1_5:1463255-1463705:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 328.2033386230469 4 328.464936 1309.83064 2.2444 0.00073719 -2.0988 -0.00068939 0.14553 4.7802E-05 328.46443568338066 48.878 0.25289 48.878 48.811 49.064 0 15 12 2 0 0 0 0.13295 1 22365 22365 1.3296 0.11481 1 312790 36471 8222 23236 23308 40891 40891 0.18811516016376117 VRLSRWRRRER 11 Unmodified _VRLSRWRRRER_ 0 0 0 ENST00000591120.1_1_19:5621399-5622763:-|nuORF ENST00000591120.1_1_19:5621399-5622763:-|nuORF ENST00000591120.1_1_19:5621399-5622763:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 785.8656616210938 2 785.469098 1568.92364 NaN NaN NaN NaN NaN NaN NaN 97.698 1 97.987 97.487 98.487 0.28923 0 0 0 1.0082 1 44897 44897 0.26902 0.26902 1 36472 9231 23237 23309 40892 40892 0.16193833522288514 VRLVERGA 8 Unmodified _VRLVERGA_ 0 0 0 ENSG00000066084|ENST00000301180|DIP2B ENSG00000066084|ENST00000301180|DIP2B ENSG00000066084|ENST00000301180|DIP2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.27587890625 2 450.274701 898.534849 3.1029 0.0013971 0.61592 0.00027733 3.7188 0.0016745 450.27494697879985 88.454 0.59751 88.705 88.409 89.006 0.25118 107 27 5 0 0 0 0.7441 1 40597 40597 2.3027 0 1 57646000 36473 699 23238 23310 40893 40893 0.08152313228515595 VRLVLALEP 9 Unmodified _VRLVLALEP_ 0 0 0 REV__nc|ENSG00000180764|A2A3N6|PIPSL REV__nc|ENSG00000180764|A2A3N6|PIPSL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.2186279296875 3 337.218332 1008.63317 NaN NaN NaN NaN NaN NaN NaN 7.5204 1 7.8266 7.3266 8.3266 0.30618 0 0 0 0.91452 1 3405 3405 0 0 1 + 36474 16692 23239 23311 40894 40894 0.1291949675368187 VRMGLVGG 8 Unmodified _VRMGLVGG_ 0 0 0 REV__nc|ENSG00000215788|Q93038-12|TNFRSF25 REV__nc|ENSG00000215788|Q93038-12|TNFRSF25 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.7267761230469 2 394.725998 787.437443 2.84 0.001121 -0.37869 -0.00014948 2.4613 0.00097153 394.72586657165715 30.438 0.1862 30.438 30.318 30.504 0 15 11 2 0 0 0 0.60592 1 13750 13750 13.508 0 1 536270 + 36475 18133 23240 23312 40895 40895 0.03522208028027762 VRMLIIKK 8 Unmodified _VRMLIIKK_ 0 0 0 L1PA8A_dup476|chr3:108378788-108379433:+|1.033926177537349|0.1698565702565082|2.61|518.0|1|1|sense L1PA8A_dup476|chr3:108378788-108379433:+|1.033926177537349|0.1698565702565082|2.61|518.0|1|1|sense L1PA8A_dup476|chr3:108378788-108379433:+|1.033926177537349|0.1698565702565082|2.61|518.0|1|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.840087890625 2 500.838623 999.662692 NaN NaN NaN NaN NaN NaN NaN 108.86 1 109.47 108.97 109.97 0.60264 0 0 0 0.99035 1 50220 50220 0 0 1 36476 9480 23241 23313 40896 40896 0.16284737498210688 VRMLIIKK 8 Unmodified _VRMLIIKK_ 0 0 0 L1PA8A_dup476|chr3:108378788-108379433:+|1.033926177537349|0.1698565702565082|2.61|518.0|1|1|sense L1PA8A_dup476|chr3:108378788-108379433:+|1.033926177537349|0.1698565702565082|2.61|518.0|1|1|sense L1PA8A_dup476|chr3:108378788-108379433:+|1.033926177537349|0.1698565702565082|2.61|518.0|1|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.8402404785156 2 500.838623 999.662692 NaN NaN NaN NaN NaN NaN NaN 109.48 1 110.08 109.58 110.58 0.60264 0 0 0 0.99035 1 50492 50492 0 0 1 36477 9480 23241 23313 40897 40897 0.16284737498210688 VRNHRVRWFWR 11 Unmodified _VRNHRVRWFWR_ 0 0 0 REV__ENSG00000102996|ENST00000219271|MMP15 REV__ENSG00000102996|ENST00000219271|MMP15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.1700439453125 3 537.967515 1610.88072 NaN NaN NaN NaN NaN NaN NaN 58.809 1 59.568 59.068 60.068 0.75894 0 0 0 1.0082 1 27011 27011 0 0 1 + 36478 10954 23242 23314 40898 40898 0.09971063464877261 VRNHRVRWFWR 11 Unmodified _VRNHRVRWFWR_ 0 0 0 REV__ENSG00000102996|ENST00000219271|MMP15 REV__ENSG00000102996|ENST00000219271|MMP15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 806.449951171875 2 806.447634 1610.88072 NaN NaN NaN NaN NaN NaN NaN 67.274 1 67.976 67.476 68.476 0.70218 0 0 0 1.0082 1 31955 31955 0 0 1 + 36479 10954 23242 23314 40899 40899 0.09971063464877261 VRNILQLQPY 10 Unmodified _VRNILQLQPY_ 0 0 0 ENSG00000112365|ENST00000230122|ZBTB24 ENSG00000112365|ENST00000230122|ZBTB24 ENSG00000112365|ENST00000230122|ZBTB24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 415.2445068359375 3 415.243429 1242.70846 2.7649 0.0011481 0.073965 3.0714E-05 2.8388 0.0011788 415.24341845791065 35.273 0.46678 36.064 35.784 36.251 0.79131 55 27 3 0 0 0 0.84738 1 16034 16034 6.1918 1.4759 1 677480 36480 1805 23243 23315 40900 40900 0.09681054214138385 VRNILQLQPY 10 Unmodified _VRNILQLQPY_ 0 0 0 ENSG00000112365|ENST00000230122|ZBTB24 ENSG00000112365|ENST00000230122|ZBTB24 ENSG00000112365|ENST00000230122|ZBTB24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 415.24493408203125 3 415.243429 1242.70846 3.0589 0.0012702 0.062627 2.6006E-05 3.1216 0.0012962 415.2434925221265 35.527 0.40536 36.154 35.87 36.275 0.62631 28 12 3 0 0 0 0.78883 2 16310 16250;16310 8.9762 2.3528 1 923120 36481 1805 23243 23315 40901;40902 40902 0.09681054214138385 VRNILQLQPY 10 Unmodified _VRNILQLQPY_ 0 0 0 ENSG00000112365|ENST00000230122|ZBTB24 ENSG00000112365|ENST00000230122|ZBTB24 ENSG00000112365|ENST00000230122|ZBTB24 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 622.3641357421875 2 622.361505 1242.70846 NaN NaN NaN NaN NaN NaN NaN 35.586 1 36.213 35.713 36.713 0.62631 0 0 0 1.0001 1 16300 16300 3.2813 2.088 1 36482 1805 23243 23315 40903 40903 0.09681054214138385 VRPAARAA 8 Unmodified _VRPAARAA_ 0 0 0 ENST00000310421.4_1_8:67578936-67579050:-|nuORF;ENST00000545837.1_1_12:66583090-66590663:+|nuORF;ENST00000261233.8_1_12:66583006-66597530:+|nuORF;ENST00000457197.2_1_12:66583039-66603949:+|nuORF ENST00000310421.4_1_8:67578936-67579050:-|nuORF ENST00000310421.4_1_8:67578936-67579050:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.24969482421875 2 406.248486 810.48242 3.6116 0.0014672 -0.22989 -9.3391E-05 3.3817 0.0013738 406.2482137844131 93.942 0.50418 94.202 93.986 94.49 0.25975 53 23 3 0 0 0 0.7471 1 43134 43134 0.69038 0 1 714740 36483 6552 23244 23316 40904 40904 0.06959774885547176 VRPAARTR 8 Unmodified _VRPAARTR_ 0 0 0 ENST00000262158.6_1_18:46476520-46476862:-|nuORF ENST00000262158.6_1_18:46476520-46476862:-|nuORF ENST00000262158.6_1_18:46476520-46476862:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 309.5373229980469 3 309.52627 925.556982 2.0414 0.00063186 -1.9632 -0.00060767 0.078143 2.4187E-05 309.52518108140276 38.396 0.18908 38.661 38.569 38.758 0.26408 6 5 2 0 0 0 0.1432 1 17519 17519 1.4819 0 1 204290 36484 6570 23245 23317 40905 40905 0.09122537696930522 VRPCLLGVRR 10 Unmodified _VRPCLLGVRR_ 0 0 0 ENST00000451122.5_1_7:116165439-116165832:+|nuORF ENST00000451122.5_1_7:116165439-116165832:+|nuORF ENST00000451122.5_1_7:116165439-116165832:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.8589477539062 2 584.858409 1167.70227 NaN NaN NaN NaN NaN NaN NaN 11.19 1 11.823 11.323 12.323 0.63304 0 0 0 1.002 1 5042 5042 0 0 1 36485 8017 23246 23318 40906 40906 0.1251225750163485 VRPERKKLPRR 11 Unmodified _VRPERKKLPRR_ 0 0 0 ENST00000483405.5_2_16:29911961-29916194:+|nuORF ENST00000483405.5_2_16:29911961-29916194:+|nuORF ENST00000483405.5_2_16:29911961-29916194:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.9764404296875 3 478.975788 1433.90553 NaN NaN NaN NaN NaN NaN NaN 39.55 1 39.55 39.05 40.05 0 0 0 0 1.0072 1 17947 17947 0.45452 0 1 36486 8311 23247 23319 40907 40907 0.20593698547577333 VRPERKKLPRR 11 Unmodified _VRPERKKLPRR_ 0 0 0 ENST00000483405.5_2_16:29911961-29916194:+|nuORF ENST00000483405.5_2_16:29911961-29916194:+|nuORF ENST00000483405.5_2_16:29911961-29916194:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.14990234375 4 359.48366 1433.90553 2.3471 0.00084374 -1.1922 -0.00042859 1.1548 0.00041514 359.7338925728928 52.096 0.67071 52.758 52.501 53.171 0.66198 66 31 4 0 0 0 0.13295 1 23892 23892 0.45452 0.38125 1 711900 36487 8311 23247 23319 40908 40908 0.20593698547577333 VRPFHLTL 8 Unmodified _VRPFHLTL_ 0 0 0 REV__ERCC4|p.L798V|1|0.24|ENSG00000175595|chr16:13947988-13947988|C/G|missense_variant REV__ERCC4|p.L798V|1|0.24|ENSG00000175595|chr16:13947988-13947988|C/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.7975769042969 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 50.172 1 50.172 49.672 50.672 0 0 0 0 0.99035 1 22969 22969 2.5775 0 1 + 36488 17684 23248 23320 40909 40909 0.08446074267999393 VRPHEPPP 8 Unmodified _VRPHEPPP_ 0 0 0 ENSG00000112290|ENST00000392589|WASF1 ENSG00000112290|ENST00000392589|WASF1 ENSG00000112290|ENST00000392589|WASF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 310.17193603515625 3 310.171493 927.49265 NaN NaN NaN NaN NaN NaN NaN 102.04 1 102.04 101.54 102.54 0 0 0 0 0.99035 1 56362 56362 0.45834 0 1 36489 1801 23249 23321 40910 40910 0.026003378201380656 VRPHLFRSRRR 11 Unmodified _VRPHLFRSRRR_ 0 0 0 REV__ENST00000250937.7_1_19:3496808-3500628:-|nuORF REV__ENST00000250937.7_1_19:3496808-3500628:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 740.4475708007812 2 740.447634 1478.88072 NaN NaN NaN NaN NaN NaN NaN 34.129 1 34.918 34.418 35.418 0.78921 0 0 0 1.0082 1 15454 15454 0 0 1 + 36490 14906 23250 23322 40911 40911 0.16043063464849183 VRPKRRKPRS 10 Unmodified _VRPKRRKPRS_ 0 0 0 REV__ENSG00000140943|ENST00000343411|MBTPS1 REV__ENSG00000140943|ENST00000343411|MBTPS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 640.1476440429688 2 640.412729 1278.8109 NaN NaN NaN NaN NaN NaN NaN 108.62 1 108.94 108.44 109.44 0.31168 0 0 0 1.0015 1 50090 50090 0.40072 0.050084 1 + 36491 12270 23251 23323 40912 40912 0.18265184796246103 VRPPVQVY 8 Unmodified _VRPPVQVY_ 0 0 0 ENST00000495005.5_1_21:35281377-35288052:-|nuORF;ENST00000491703.5_1_21:35279611-35286837:-|nuORF;ENSG00000241837|ENST00000290299|ATP5PO ENST00000495005.5_1_21:35281377-35288052:-|nuORF ENST00000495005.5_1_21:35281377-35288052:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.9764404296875 2 479.279452 956.544351 3.096 0.0014839 0.35009 0.00016779 3.4461 0.0016517 479.2794959445317 39.474 0.39069 39.474 39.203 39.593 0 22 14 3 0 0 0 0.12707 1 17947 17947 18.135 4.6271 1 557100 36492 6226 23252 23324 40913 40913 0.0643408151404401 VRPPVQVY 8 Unmodified _VRPPVQVY_ 0 0 0 ENST00000495005.5_1_21:35281377-35288052:-|nuORF;ENST00000491703.5_1_21:35279611-35286837:-|nuORF;ENSG00000241837|ENST00000290299|ATP5PO ENST00000495005.5_1_21:35281377-35288052:-|nuORF ENST00000495005.5_1_21:35281377-35288052:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.28094482421875 2 479.279452 956.544351 3.0529 0.0014632 -0.66585 -0.00031913 2.387 0.0011441 479.2795428387787 38.358 0.46532 39.155 38.873 39.338 0.79762 38 19 3 0 0 0 0.37185 1 17382 17382 30.225 16.717 1 665200 36493 6226 23252 23324 40914 40914 0.0643408151404401 VRPPVQVY 8 Unmodified _VRPPVQVY_ 0 0 0 ENST00000495005.5_1_21:35281377-35288052:-|nuORF;ENST00000491703.5_1_21:35279611-35286837:-|nuORF;ENSG00000241837|ENST00000290299|ATP5PO ENST00000495005.5_1_21:35281377-35288052:-|nuORF ENST00000495005.5_1_21:35281377-35288052:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.2814025878906 2 479.279452 956.544351 2.9465 0.0014122 0.37279 0.00017867 3.3192 0.0015908 479.27967643841095 39.03 0.66569 39.294 38.974 39.64 0.26408 49 25 3 0 0 0 0.29255 1 17769 17769 36.044 17.909 1 1111200 36494 6226 23252 23324 40915 40915 0.0643408151404401 VRPPVQVY 8 Unmodified _VRPPVQVY_ 0 0 0 ENST00000495005.5_1_21:35281377-35288052:-|nuORF;ENST00000491703.5_1_21:35279611-35286837:-|nuORF;ENSG00000241837|ENST00000290299|ATP5PO ENST00000495005.5_1_21:35281377-35288052:-|nuORF ENST00000495005.5_1_21:35281377-35288052:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.2811279296875 2 479.279452 956.544351 3.0655 0.0014692 -0.098938 -4.7419E-05 2.9665 0.0014218 479.279527416016 38.709 0.77788 39.347 38.808 39.586 0.63778 48 30 2 0 0 0 0.26384 2 17665 17665;17724 38.151 18.712 1 676610 36495 6226 23252 23324 40916;40917 40916 0.0643408151404401 VRPRSRLPA 9 Unmodified _VRPRSRLPA_ 0 0 0 ENST00000472541.5_1_1:1235057-1244982:-|nuORF ENST00000472541.5_1_1:1235057-1244982:-|nuORF ENST00000472541.5_1_1:1235057-1244982:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 526.3265991210938 2 526.327799 1050.64105 NaN NaN NaN NaN NaN NaN NaN 101.53 1 101.59 101.09 102.09 0.057198 0 0 0 0.90847 1 55132 55132 1.4819 0.79152 1 36496 8188 23253 23325 40918 40918 0.11775068793849641 VRPVERAL 8 Unmodified _VRPVERAL_ 0 0 0 NANS|p.L268P|1|0.24|ENSG00000095380|chr9:98081015-98081015|T/C|missense_variant NANS|p.L268P|1|0.24|ENSG00000095380|chr9:98081015-98081015|T/C|missense_variant NANS|p.L268P|1|0.24|ENSG00000095380|chr9:98081015-98081015|T/C|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.29150390625 2 470.290351 938.566149 2.8564 0.0013434 0.41812 0.00019664 3.2746 0.00154 470.2906070187414 15.345 0.74762 15.345 15.009 15.757 0 127 90 2 0 0 0 0.73686 1 6782 6782 2.8892 0 1 87313 36497 9528 23254 23326 40919 40919 0.09440886262598269 VRQHRTLRCRQ 11 Unmodified _VRQHRTLRCRQ_ 0 0 0 REV__nc|ENSG00000275111|Q9BSG1-3|ZNF2 REV__nc|ENSG00000275111|Q9BSG1-3|ZNF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 726.9054565429688 2 726.907485 1451.80042 NaN NaN NaN NaN NaN NaN NaN 68.983 1 68.983 68.483 69.483 0 0 0 0 1.0063 1 33258 33258 2.4985 0.84587 1 + 36498 14734 23255 23327 40920 40920 0.092588340795146 VRQIRKKI 8 Unmodified _VRQIRKKI_ 0 0 0 ENST00000411586.1_1_1:226626563-226626776:+|nuORF ENST00000411586.1_1_1:226626563-226626776:+|nuORF ENST00000411586.1_1_1:226626563-226626776:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.751953125 2 520.856193 1039.69783 NaN NaN NaN NaN NaN NaN NaN 54.691 1 54.691 54.191 55.191 0 0 0 0 0.99035 1 25104 25104 0.69038 0 1 36499 7672 23256 23328 40921 40921 0.17957116350362412 VRQQKEVL 8 Unmodified _VRQQKEVL_ 0 0 0 ENST00000483946.1_1_3:113252030-113286558:+|nuORF;SIDT1|p.D196Tfs*45|1|0.28|ENSG00000072858|chr3:113580623-113580623|T/-|frameshift_variant;ENST00000491730.5_1_3:113251655-113300327:+|nuORF;ENSG00000072858|ENST00000264852|SIDT1;nc|ENSG00000072858|Q9NXL6-2|SIDT1 ENST00000483946.1_1_3:113252030-113286558:+|nuORF ENST00000483946.1_1_3:113252030-113286558:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 333.8705139160156 3 333.869703 998.587279 2.2321 0.00074524 0.047795 1.5957E-05 2.2799 0.0007612 333.8697884943629 18.425 0.26088 18.727 18.604 18.865 0.30159 49 26 3 0 0 0 0.51067 2 8340 8340;8386 20.454 4.6064 1 455410 36500 798 23257 23329 40922;40923 40922 0.08792851571479332 VRQVHSQLNGK 11 Unmodified _VRQVHSQLNGK_ 0 0 0 REV__ZNF236|p.A950Hfs*33|1|0.2|ENSG00000130856|chr18:76912291-76912291|G/-|frameshift_variant REV__ZNF236|p.A950Hfs*33|1|0.2|ENSG00000130856|chr18:76912291-76912291|G/-|frameshift_variant MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.8131103515625 2 633.357285 1264.70002 3.4651 0.0021946 2.7688 0.0017536 6.2339 0.0039483 633.3587706833716 40.524 0.12352 41.324 41.227 41.35 0.80014 12 8 2 0 0 0 0.13295 1 18321 18321 7.1017 0 1 1217400 + 36501 11835 23258 23330 40924 40924 0.0782550029750837 VRQVQSSL 8 Unmodified _VRQVQSSL_ 0 0 0 REV__nc|ENSG00000248905|Q68DA7-2|FMN1 REV__nc|ENSG00000248905|Q68DA7-2|FMN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 306.1793518066406 3 306.178536 915.513779 2.0306 0.00062174 0.57623 0.00017643 2.6069 0.00079816 306.1786695651195 13.046 0.13806 13.046 12.965 13.103 0 15 7 3 0 0 0 0.70146 1 5721 5721 3.9444 0 1 384260 + 36502 14643 23259 23331 40925 40925 0.05264303129013115 VRRAFAIDDTG 11 Unmodified _VRRAFAIDDTG_ 0 0 0 COL6A6|p.L2209Sfs*21|1|0.66|ENSG00000206384|chr3:130675228-130675228|C/-|frameshift_variant;ENSG00000206384|ENST00000358511|COL6A6 COL6A6|p.L2209Sfs*21|1|0.66|ENSG00000206384|chr3:130675228-130675228|C/-|frameshift_variant COL6A6|p.L2209Sfs*21|1|0.66|ENSG00000206384|chr3:130675228-130675228|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 407.55389404296875 3 407.550921 1219.63093 NaN NaN NaN NaN NaN NaN NaN 5.9541 1 6.5777 6.0777 7.0777 0.62357 0 0 0 1.008 1 2701 2701 0.08335 0 1 36503 206 23260 23332 40926 40926 0.02990416277930308 VRRCRKRLS 9 Unmodified _VRRCRKRLS_ 0 0 0 REV__ENST00000355827.8_1_X:95939790-95940039:+|nuORF REV__ENST00000355827.8_1_X:95939790-95940039:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.3592529296875 2 587.359108 1172.70366 NaN NaN NaN NaN NaN NaN NaN 11.309 1 11.588 11.088 12.088 0.2792 0 0 0 0.91452 1 4909 4909 0 0 1 + 36504 15546 23261 23333 40927 40927 0.12421891590383893 VRRGLLESL 9 Unmodified _VRRGLLESL_ 0 0 0 REV__ENST00000512515.1_1_6:31981215-31981561:+|nuORF REV__ENST00000512515.1_1_6:31981215-31981561:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.21722412109375 3 348.217102 1041.62948 NaN NaN NaN NaN NaN NaN NaN 19.187 1 19.846 19.346 20.346 0.6583 0 0 0 0.90335 1 8706 8706 2.7352 0 1 + 36505 16981 23262 23334 40928 40928 0.11032826979840138 VRRKSIKKKRA 11 Unmodified _VRRKSIKKKRA_ 0 0 0 nc|ENSG00000178568|Q15303-4|ERBB4;nc|ENSG00000178568|Q15303-3|ERBB4;nc|ENSG00000178568|Q15303-2|ERBB4;ENSG00000178568|ENST00000342788|ERBB4;ENST00000484594.5_1_2:212426591-213403254:-|nuORF nc|ENSG00000178568|Q15303-4|ERBB4 nc|ENSG00000178568|Q15303-4|ERBB4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 685.4637451171875 2 685.464961 1368.91537 NaN NaN NaN NaN NaN NaN NaN 16.604 1 16.804 16.304 17.304 0.20057 0 0 0 1.008 1 7335 7335 0.30703 0.30703 1 36506 5173 23263 23335 40929 40929 0.24566886552952383 VRRLKAGP 8 Unmodified _VRRLKAGP_ 0 0 0 ENST00000424148.1_1_11:1618612-1618831:+|nuORF ENST00000424148.1_1_11:1618612-1618831:+|nuORF ENST00000424148.1_1_11:1618612-1618831:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 896.5833129882812 1 896.578845 895.571569 4.762 0.0042695 0.39975 0.00035841 5.1618 0.0046279 896.5791830021172 103.32 0.10885 103.64 103.58 103.69 0.31863 11 6 2 0 0 0 0.7471 1 47766 47766 0 0 1 261380 36507 7783 23264 23336 40930 40930 0.1196060984509586 VRRLKAGP 8 Unmodified _VRRLKAGP_ 0 0 0 ENST00000424148.1_1_11:1618612-1618831:+|nuORF ENST00000424148.1_1_11:1618612-1618831:+|nuORF ENST00000424148.1_1_11:1618612-1618831:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 896.578845 895.571569 4.1353 0.0037076 -0.19325 -0.00017327 3.942 0.0035343 896.5782605999295 103.28 0.16994 103.88 103.8 103.97 0.59821 0.12295 -0.00030741 NaN 0 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 307610 36508 7783 23264 23336 0.1196060984509586 VRRLPGGG 8 Unmodified _VRRLPGGG_ 0 0 0 ENST00000497505.5_1_2:203879615-203880929:+|nuORF ENST00000497505.5_1_2:203879615-203880929:+|nuORF ENST00000497505.5_1_2:203879615-203880929:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.2498779296875 2 406.248486 810.48242 2.9022 0.001179 0.48098 0.0001954 3.3832 0.0013744 406.2486651422205 83.015 0.63888 83.262 83.016 83.655 0.24722 97 32 5 0 0 0 0.7471 1 38198 38198 0 0 1 57563000 36509 8454 23265 23337 40931 40931 0.06959774885581282 VRRLPRALV 9 Unmodified _VRRLPRALV_ 0 0 0 REV__ENST00000563255.1_1_16:65157767-65158064:-|nuORF REV__ENST00000563255.1_1_16:65157767-65158064:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.3648681640625 2 540.361642 1078.70873 NaN NaN NaN NaN NaN NaN NaN 39.687 1 39.687 39.187 40.187 0 0 0 0 0.8984 1 18011 18011 3.9444 2.1002 1 + 36510 17390 23266 23338 40932 40932 0.17252518724649235 VRRLQGVL 8 Unmodified _VRRLQGVL_ 0 0 0 ENSG00000124587|ENST00000304611|PEX6;nc|ENSG00000124587|Q13608-3|PEX6;nc|ENSG00000124587|Q13608-2|PEX6 ENSG00000124587|ENST00000304611|PEX6 ENSG00000124587|ENST00000304611|PEX6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 940.611083984375 1 940.60506 939.597784 4.5932 0.0043204 0.9519 0.00089536 5.5451 0.0052158 940.6061704577897 103.32 0.094551 103.64 103.59 103.69 0.31863 9 5 2 0 0 0 0.7471 1 47777 47777 0 0 1 182060 36511 2369 23267 23339 40933 40933 0.12556879016574385 VRRLQGVL 8 Unmodified _VRRLQGVL_ 0 0 0 ENSG00000124587|ENST00000304611|PEX6;nc|ENSG00000124587|Q13608-3|PEX6;nc|ENSG00000124587|Q13608-2|PEX6 ENSG00000124587|ENST00000304611|PEX6 ENSG00000124587|ENST00000304611|PEX6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 940.6094360351562 1 940.60506 939.597784 4.0527 0.003812 0.10394 9.7764E-05 4.1566 0.0039098 940.6047197351942 103.28 0.11914 103.88 103.82 103.94 0.59821 11 7 2 0 0 0 0.7471 1 47786 47786 0 0 1 208750 36512 2369 23267 23339 40934 40934 0.12556879016574385 VRRLQIKL 8 Unmodified _VRRLQIKL_ 0 0 0 REV__ENSG00000079393|ENST00000478873|DUSP13 REV__ENSG00000079393|ENST00000478873|DUSP13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 342.5705261230469 3 342.569588 1024.68693 2.2548 0.00077243 0.7146 0.0002448 2.9694 0.0010172 342.56982021836717 15.259 0.51745 15.565 15.306 15.823 0.306 65 51 2 0 0 0 0.7471 1 6950 6950 0.45834 0 1 61599 + 36513 10580 23268 23340 40935 40935 0.17557713976088962 VRRLQIKL 8 Unmodified _VRRLQIKL_ 0 0 0 REV__ENSG00000079393|ENST00000478873|DUSP13 REV__ENSG00000079393|ENST00000478873|DUSP13 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 342.569588 1024.68693 2.2548 0.00077243 0.7146 0.0002448 2.9694 0.0010172 342.56982021836717 15.259 0.51745 15.565 15.306 15.823 0.306 0 0 NaN 0.45834 65 51 2 NaN NaN NaN NaN 0 NaN NaN 0 61599 + 36514 10580 23268 23340 0.17557713976088962 VRRLRRPRRPV 11 Unmodified _VRRLRRPRRPV_ 0 0 0 ENST00000357066.7_1_19:2085254-2096298:-|nuORF ENST00000357066.7_1_19:2085254-2096298:-|nuORF ENST00000357066.7_1_19:2085254-2096298:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 730.925537109375 2 730.979102 1459.94365 NaN NaN NaN NaN NaN NaN NaN 98.217 1 98.217 97.717 98.717 0 0 0 0 1.008 1 53717 53717 0.35063 0 1 36515 7172 23269 23341 40936 40936 0.23207629252897277 VRRPGSRLP 9 Unmodified _VRRPGSRLP_ 0 0 0 ENST00000533608.5_1_11:44117206-44117353:+|nuORF ENST00000533608.5_1_11:44117206-44117353:+|nuORF ENST00000533608.5_1_11:44117206-44117353:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.5509033203125 3 346.549075 1036.6254 2.7929 0.00096787 0.7211 0.0002499 3.514 0.0012178 346.5493899435203 10.392 0.41046 11.025 10.78 11.19 0.63304 60 37 2 0 0 0 1.2459 1 4588 4588 0 0 1 64751 36516 8748 23270 23342 40937 40937 0.10854782276805963 VRRREAALR 9 Unmodified _VRRREAALR_ 0 0 0 ENST00000513692.5_1_5:1878872-1879781:-|nuORF ENST00000513692.5_1_5:1878872-1879781:-|nuORF ENST00000513692.5_1_5:1878872-1879781:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.2334289550781 3 376.235379 1125.68431 NaN NaN NaN NaN NaN NaN NaN 91.793 1 92.455 91.955 92.955 0.66198 0 0 0 0.90965 1 42240 42240 1.1933 0 1 36517 8579 23271 23343 40938 40938 0.12649258571127575 VRRRKLCLVAF 11 Unmodified _VRRRKLCLVAF_ 0 0 0 ENST00000466452.1_1_1:161140171-161140447:+|nuORF ENST00000466452.1_1_1:161140171-161140447:+|nuORF ENST00000466452.1_1_1:161140171-161140447:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 454.28485107421875 3 454.283453 1359.82853 2.4521 0.0011139 0.91216 0.00041438 3.3642 0.0015283 454.2839065400889 105.67 0.11826 105.67 105.61 105.72 0 11 6 2 0 0 0 0.91068 1 58060 58060 0.45452 0.45452 1 1377400 36518 8138 23272 23344 40939 40939 0.16300764006882673 VRRRRHRRRRL 11 Unmodified _VRRRRHRRRRL_ 0 0 0 ENST00000498611.5_1_22:50657979-50682900:-|nuORF ENST00000498611.5_1_22:50657979-50682900:-|nuORF ENST00000498611.5_1_22:50657979-50682900:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 809.0238037109375 2 809.022698 1616.03084 NaN NaN NaN NaN NaN NaN NaN 66.518 1 66.767 66.267 67.267 0.24848 0 0 0 1.0082 1 30474 30474 0 0 1 36519 8464 23273 23345 40940 40940 0.24746848247173148 VRRRRRRPG 9 Unmodified _VRRRRRRPG_ 0 0 0 nc|ENSG00000177602|Q8TF76-2|HASPIN;ENSG00000177602|ENST00000325418|HASPIN nc|ENSG00000177602|Q8TF76-2|HASPIN nc|ENSG00000177602|Q8TF76-2|HASPIN MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.69561767578125 4 302.947245 1207.75987 2.2287 0.00067517 -1.0614 -0.00032153 1.1673 0.00035364 303.19854849966305 46.799 0.53316 47.452 47.004 47.537 0.65219 28 18 2 0 0 0 0.11436 1 21427 21427 0.23584 0 1 353710 36520 5125 23274 23346 40941 40941 0.1643028054206752 VRRRRRRPRP 10 Unmodified _VRRRRRRPRP_ 0 0 0 ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.9812316894531 4 351.980347 1403.89228 2.3646 0.00083229 -0.38847 -0.00013673 1.9761 0.00069556 351.98016502733617 46.404 0.92562 46.404 46.111 47.037 0 179 41 5 0 0 0 0.94099 7 21482 21144;21198;21255;21318;21372;21425;21482 0.69767 0.60282 1 51584000 36521 8861 23275 23347 40942;40943;40944;40945;40946;40947;40948 40948 0.20649305278857355 VRRRRRRPRP 10 Unmodified _VRRRRRRPRP_ 0 0 0 ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 468.972412109375 3 468.971371 1403.89228 2.6604 0.0012476 -0.054149 -2.5394E-05 2.6062 0.0012222 468.9711831728177 46.415 0.81549 46.415 46.151 46.967 0 125 35 4 0 0 0 0.94099 6 21205 21151;21205;21256;21321;21376;21440 0.69767 0.15932 1 6858000 36522 8861 23275 23347 40949;40950;40951;40952;40953;40954 40950 0.20649305278857355 VRRRRRRPRP 10 Unmodified _VRRRRRRPRP_ 0 0 0 ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.9813232421875 4 351.980347 1403.89228 2.3229 0.00081762 -0.41809 -0.00014716 1.9048 0.00067046 351.98012652685844 45.694 1.0578 46.521 46.006 47.064 0.82621 185 56 5 0 0 0 0.94099 7 20742 20604;20660;20702;20742;20791;20890;20950 0.69767 0.60282 1 14907000 36523 8861 23275 23347 40955;40956;40957;40958;40959;40960;40961 40958 0.20649305278857355 VRRRRRRPRP 10 Unmodified _VRRRRRRPRP_ 0 0 0 ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.9809265136719 4 351.980347 1403.89228 2.4985 0.00087941 -0.33149 -0.00011668 2.167 0.00076273 351.98020012423615 45.643 0.74397 45.911 45.745 46.489 0.26768 145 31 5 0 0 0 0.94364 6 20840 20840;20896;20954;21005;21048;21097 0.15932 0.15932 1 47376000 36524 8861 23275 23347 40962;40963;40964;40965;40966;40967 40962 0.20649305278857355 VRRRRRRPRP 10 Unmodified _VRRRRRRPRP_ 0 0 0 ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.9723815917969 3 468.971371 1403.89228 2.7823 0.0013048 0.029066 1.3631E-05 2.8114 0.0013184 468.9711746237948 45.638 0.71516 45.906 45.774 46.489 0.26768 102 30 4 0 0 0 0.94364 5 20843 20843;20898;21007;21051;21100 0.15932 0.01943 1 7342800 36525 8861 23275 23347 40968;40969;40970;40971;40972 40968 0.20649305278857355 VRRRRRRPRP 10 Unmodified _VRRRRRRPRP_ 0 0 0 ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 702.9566040039062 2 702.953418 1403.89228 3.7539 0.0026388 -0.4162 -0.00029257 3.3377 0.0023462 702.9528664295158 45.644 0.73448 45.912 45.803 46.537 0.26768 56 31 2 0 0 0 0.94099 1 20978 20978 0.40072 0 1 1782500 36526 8861 23275 23347 40973 40973 0.20649305278857355 VRRRRRRPRP 10 Unmodified _VRRRRRRPRP_ 0 0 0 ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.98095703125 4 351.980347 1403.89228 2.658 0.00093558 -0.51953 -0.00018286 2.1385 0.00075272 351.9800768177292 46.391 0.53166 46.657 46.449 46.98 0.26561 64 19 5 0 0 0 0.94099 3 21192 21145;21192;21244 0.69767 0.60282 1 15419000 36527 8861 23275 23347 40974;40975;40976 40975 0.20649305278857355 VRRRRRRPRP 10 Unmodified _VRRRRRRPRP_ 0 0 0 ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.9723205566406 3 468.971371 1403.89228 2.9393 0.0013784 -0.4109 -0.0001927 2.5284 0.0011857 468.9710046587067 46.383 0.31551 46.648 46.469 46.785 0.26561 30 11 3 0 0 0 0.94364 2 21162 21162;21219 0.15932 0.064481 1 1936200 36528 8861 23275 23347 40977;40978 40977 0.20649305278857355 VRRRRRRPRP 10 Unmodified _VRRRRRRPRP_ 0 0 0 ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.98101806640625 4 351.980347 1403.89228 2.6659 0.00093833 -0.34011 -0.00011971 2.3258 0.00081862 351.9801989603248 45.028 0.66527 45.678 45.487 46.152 0.64999 131 27 5 0 0 0 0.94364 6 20591 20591;20648;20699;20746;20798;20846 0.15932 0.15932 1 40603000 36529 8861 23275 23347 40979;40980;40981;40982;40983;40984 40979 0.20649305278857355 VRRRRRRPRP 10 Unmodified _VRRRRRRPRP_ 0 0 0 ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 468.97247314453125 3 468.971371 1403.89228 3.1096 0.0014583 0.047245 2.2157E-05 3.1569 0.0014805 468.9712845936062 45.068 0.84348 45.718 45.515 46.359 0.64998 78 34 3 0 0 0 0.94364 4 20592 20592;20649;20702;20749 0.15932 0.01943 1 3160900 36530 8861 23275 23347 40985;40986;40987;40988 40985 0.20649305278857355 VRRRRRRPRP 10 Unmodified _VRRRRRRPRP_ 0 0 0 ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.9810791015625 4 351.980347 1403.89228 2.7352 0.00096273 -0.22694 -7.9877E-05 2.5083 0.00088286 351.9801455023302 45.692 0.67294 46.343 46.097 46.77 0.65104 80 23 5 0 0 0 0.94099 3 20951 20898;20951;21015 0.69767 0.60282 1 8517100 36531 8861 23275 23347 40989;40990;40991 40990 0.20649305278857355 VRRRRRRPRP 10 Unmodified _VRRRRRRPRP_ 0 0 0 ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 468.9728088378906 3 468.971371 1403.89228 3.1707 0.001487 -0.13005 -6.0988E-05 3.0407 0.001426 468.97129254398635 45.657 0.3667 46.308 46.135 46.501 0.65104 22 13 2 0 0 0 0.94364 1 20902 20902 0.15932 0.075971 1 547490 36532 8861 23275 23347 40992 40992 0.20649305278857355 VRRRRRRPRP 10 Unmodified _VRRRRRRPRP_ 0 0 0 ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 351.980347 1403.89228 2.7352 0.00096273 -0.22694 -7.9877E-05 2.5083 0.00088286 351.9801455023302 45.692 0.67294 46.343 46.097 46.77 0.65104 -0.13841 0.00022457 NaN 0.69767 80 23 5 NaN NaN NaN NaN 0 NaN NaN 0 8517100 36533 8861 23275 23347 0.20649305278857355 VRRRRRRPRPR 11 Unmodified _VRRRRRRPRPR_ 0 0 0 ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF ENST00000549122.5_1_12:93965649-93966593:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 781.004150390625 2 781.003974 1559.99339 NaN NaN NaN NaN NaN NaN NaN 35.634 1 36.425 35.925 36.925 0.79131 0 0 0 1.0082 1 16151 16151 0 0 1 36534 8861 23276 23348 40993 40993 0.23579756981575883 VRRRRRRRRRR 11 Unmodified _VRRRRRRRRRR_ 0 0 0 REV__ENST00000554879.5_1_14:71374480-71476401:+|nuORF REV__ENST00000554879.5_1_14:71374480-71476401:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 840.0538330078125 2 840.052321 1678.09009 NaN NaN NaN NaN NaN NaN NaN 77.476 1 77.476 76.976 77.976 0 0 0 0 1.0082 1 38002 38002 0 0 1 + 36535 17315 23277 23349 40994 40994 0.27816744261349413 VRRRRRRRRRR 11 Unmodified _VRRRRRRRRRR_ 0 0 0 REV__ENST00000554879.5_1_14:71374480-71476401:+|nuORF REV__ENST00000554879.5_1_14:71374480-71476401:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 840.0543212890625 2 840.052321 1678.09009 NaN NaN NaN NaN NaN NaN NaN 23.152 1 23.428 22.928 23.928 0.27562 0 0 0 1.0082 1 10452 10452 0 0 1 + 36536 17315 23277 23349 40995 40995 0.27816744261349413 VRRRRRRRRWK 11 Unmodified _VRRRRRRRRWK_ 0 0 0 REV__ENST00000303961.8_1_19:41306371-41306464:+|nuORF REV__ENST00000303961.8_1_19:41306371-41306464:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.877197265625 3 561.027991 1680.06214 NaN NaN NaN NaN NaN NaN NaN 68.457 1 68.457 67.957 68.957 0 0 0 0 1.008 1 32961 32961 0.073264 0.073264 1 + 36537 15216 23278 23350 40996 40996 0.24931421281257826 VRRRRRRRRWK 11 Unmodified _VRRRRRRRRWK_ 0 0 0 REV__ENST00000303961.8_1_19:41306371-41306464:+|nuORF REV__ENST00000303961.8_1_19:41306371-41306464:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 561.47216796875 3 561.027991 1680.06214 NaN NaN NaN NaN NaN NaN NaN 78.394 1 78.858 78.358 79.358 0.4642 0 0 0 1.0082 1 38115 38115 0 0 1 + 36538 15216 23278 23350 40997 40997 0.24931421281257826 VRRRWRRRKK 10 Unmodified _VRRRWRRRKK_ 0 0 0 REV__ENST00000556594.1_1_14:91518767-91526894:-|nuORF REV__ENST00000556594.1_1_14:91518767-91526894:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 749.4603271484375 2 748.984718 1495.95488 NaN NaN NaN NaN NaN NaN NaN 105.71 1 105.76 105.26 106.26 0.050888 0 0 0 1.002 1 57204 57204 0 0 1 + 36539 17327 23279 23351 40998 40998 0.2267445134702939 VRRTWRRRRRM 11 Unmodified _VRRTWRRRRRM_ 0 0 0 REV__ENST00000281708.8_1_4:153271275-153332654:-|nuORF REV__ENST00000281708.8_1_4:153271275-153332654:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 814.9475708007812 2 814.984392 1627.95423 NaN NaN NaN NaN NaN NaN NaN 86.388 1 86.388 85.888 86.888 0 0 0 0 1.0082 1 44265 44265 0 0 1 + 36540 15091 23280 23352 40999 40999 0.16537288635663572 VRRTWRRRRRM 11 Unmodified _VRRTWRRRRRM_ 0 0 0 REV__ENST00000281708.8_1_4:153271275-153332654:-|nuORF REV__ENST00000281708.8_1_4:153271275-153332654:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 814.9846801757812 2 814.984392 1627.95423 NaN NaN NaN NaN NaN NaN NaN 49.932 1 50.194 49.694 50.694 0.26146 0 0 0 1.0082 1 22820 22820 0 0 1 + 36541 15091 23280 23352 41000 41000 0.16537288635663572 VRRVTRRKKWF 11 Unmodified _VRRVTRRKKWF_ 0 0 0 REV__nc|ENSG00000135905|Q96BY6-3|DOCK10 REV__nc|ENSG00000135905|Q96BY6-3|DOCK10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 766.4281005859375 2 766.47586 1530.93717 NaN NaN NaN NaN NaN NaN NaN 99.123 1 99.721 99.221 100.22 0.59748 0 0 0 1.0082 1 45805 45805 0 0 1 + 36542 17951 23281 23353 41001 41001 0.1929369130152736 VRRWRHRKRPI 11 Unmodified _VRRWRHRKRPI_ 0 0 0 REV__ENST00000460670.5_1_19:37096371-37096590:+|nuORF REV__ENST00000460670.5_1_19:37096371-37096590:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 780.4764404296875 2 780.484551 1558.95455 NaN NaN NaN NaN NaN NaN NaN 97.745 1 98.344 97.844 98.844 0.59885 0 0 0 1.0082 1 44961 44961 0 0 1 + 36543 16482 23282 23354 41002 41002 0.19743031627194796 VRRYLHHLLLW 11 Unmodified _VRRYLHHLLLW_ 0 0 0 nc|ENSG00000180694|Q6YI46-4|TMEM64;ENSG00000180694|ENST00000458549|TMEM64 nc|ENSG00000180694|Q6YI46-4|TMEM64 nc|ENSG00000180694|Q6YI46-4|TMEM64 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 753.4446411132812 2 753.446237 1504.87792 NaN NaN NaN NaN NaN NaN NaN 45.552 1 45.552 45.052 46.052 0 0 0 0 1.0038 1 20838 20838 5.7319 3.2334 1 36544 5259 23283 23355 41003 41003 0.14567795287371155 VRRYLHHLLLW 11 Unmodified _VRRYLHHLLLW_ 0 0 0 nc|ENSG00000180694|Q6YI46-4|TMEM64;ENSG00000180694|ENST00000458549|TMEM64 nc|ENSG00000180694|Q6YI46-4|TMEM64 nc|ENSG00000180694|Q6YI46-4|TMEM64 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 753.4459228515625 2 753.446237 1504.87792 NaN NaN NaN NaN NaN NaN NaN 45.599 1 45.599 45.099 46.099 0 0 0 0 1.0038 1 20859 20859 5.7319 4.25 1 36545 5259 23283 23355 41004 41004 0.14567795287371155 VRSKGKGK 8 Unmodified _VRSKGKGK_ 0 0 0 ENST00000371761.3_1_1:51435950-51436004:+|nuORF ENST00000371761.3_1_1:51435950-51436004:+|nuORF ENST00000371761.3_1_1:51435950-51436004:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.2783203125 2 430.277244 858.539935 2.9684 0.0012772 0.72387 0.00031147 3.6922 0.0015887 430.27761721412554 42.731 0.29617 43.001 42.729 43.025 0.27021 23 12 2 0 0 0 0.7441 1 19493 19493 2.3027 0 1 6442100 36546 7325 23284 23356 41005 41005 0.10500617091145159 VRSKGKGK 8 Unmodified _VRSKGKGK_ 0 0 0 ENST00000371761.3_1_1:51435950-51436004:+|nuORF ENST00000371761.3_1_1:51435950-51436004:+|nuORF ENST00000371761.3_1_1:51435950-51436004:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 430.27874755859375 2 430.277244 858.539935 3.2053 0.0013791 1.0296 0.000443 4.2348 0.0018221 430.2779211891435 41.421 0.3419 42.066 41.92 42.262 0.64451 27 18 2 0 0 0 0.7441 1 18918 18918 2.3027 0 1 1183800 36547 7325 23284 23356 41006 41006 0.10500617091145159 VRSKGKGK 8 Unmodified _VRSKGKGK_ 0 0 0 ENST00000371761.3_1_1:51435950-51436004:+|nuORF ENST00000371761.3_1_1:51435950-51436004:+|nuORF ENST00000371761.3_1_1:51435950-51436004:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 430.277244 858.539935 2.8238 0.001215 1.1381 0.00048969 3.9619 0.0017047 430.2775838337748 43.052 0.066322 43.052 43.024 43.09 0 0.025238 0.00024941 NaN 2.3027 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1226400 36548 7325 23284 23356 0.10500617091145159 VRSKGKGKK 9 Unmodified _VRSKGKGKK_ 0 0 0 ENST00000371761.3_1_1:51435950-51436004:+|nuORF ENST00000371761.3_1_1:51435950-51436004:+|nuORF ENST00000371761.3_1_1:51435950-51436004:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 987.65087890625 1 987.642174 986.634898 3.924 0.0038755 0.4503 0.00044474 4.3743 0.0043203 987.6430818041571 103.68 0.024071 104.27 104.26 104.28 0.59821 7 4 2 0 0 0 1.2459 1 47957 47957 0 0 1 171850 36549 7325 23285 23357 41007 41007 0.14104550562331042 VRSLRPAWPTW 11 Unmodified _VRSLRPAWPTW_ 0 0 0 ENST00000495579.5_1_6:32088425-32095984:-|nuORF;ENST00000563362.1_1_16:56473282-56473634:-|nuORF;ENST00000415912.6_1_1:21545281-21545563:-|nuORF;ENST00000498576.1_1_1:11137245-11137690:-|nuORF ENST00000495579.5_1_6:32088425-32095984:-|nuORF ENST00000495579.5_1_6:32088425-32095984:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.92449951171875 3 456.922689 1367.74624 2.7735 0.0012673 0.90355 0.00041285 3.6771 0.0016801 457.2566403555657 38.064 0.36294 38.86 38.752 39.115 0.79552 23 12 3 0 0 0 0.91028 1 17277 17277 1.4551 0.12547 1 583690 36550 8434 23286 23358 41008 41008 0.07707565199598321 VRSQKIVAI 9 Unmodified _VRSQKIVAI_ 0 0 0 REV__ENST00000537641.5_1_11:61178417-61183276:-|nuORF REV__ENST00000537641.5_1_11:61178417-61183276:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.5546569824219 3 338.553715 1012.63931 2.5097 0.00084967 0.013406 4.5388E-06 2.5231 0.0008542 338.5537464436719 13.089 0.31089 13.732 13.48 13.791 0.64272 22 13 2 0 0 0 0.057456 1 5868 5868 43.982 8.3696 1 1179500 + 36551 12572 23287 23359 41009 41009 0.13350014985246617 VRSQKIVAI 9 Unmodified _VRSQKIVAI_ 0 0 0 REV__ENST00000537641.5_1_11:61178417-61183276:-|nuORF REV__ENST00000537641.5_1_11:61178417-61183276:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 338.553715 1012.63931 2.3532 0.00079668 0.08553 2.8957E-05 2.4387 0.00082563 338.55381995623975 14.206 0.10576 14.206 14.127 14.233 0 0.26891 -2.1467E-05 NaN 43.982 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 834030 + 36552 12572 23287 23359 0.13350014985246617 VRSQKIVAI 9 Unmodified _VRSQKIVAI_ 0 0 0 REV__ENST00000537641.5_1_11:61178417-61183276:-|nuORF REV__ENST00000537641.5_1_11:61178417-61183276:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 338.553715 1012.63931 2.1402 0.00072459 0.25691 8.6979E-05 2.3972 0.00081157 338.5536265095898 13.629 0.10994 13.872 13.811 13.921 0.24346 -0.064285 0.0001526 NaN 43.982 11 8 2 NaN NaN NaN NaN 0 NaN NaN 0 341070 + 36553 12572 23287 23359 0.13350014985246617 VRSQKIVAI 9 Unmodified _VRSQKIVAI_ 0 0 0 REV__ENST00000537641.5_1_11:61178417-61183276:-|nuORF REV__ENST00000537641.5_1_11:61178417-61183276:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 338.553715 1012.63931 2.5097 0.00084967 0.013406 4.5388E-06 2.5231 0.0008542 338.5537464436719 13.089 0.31089 13.732 13.48 13.791 0.64272 -0.20462 -9.4721E-05 NaN 43.982 22 13 2 NaN NaN NaN NaN 0 NaN NaN 0 1179500 + 36554 12572 23287 23359 0.13350014985246617 VRSRKIQIR 9 Unmodified _VRSRKIQIR_ 0 0 0 ENST00000499130.6_1_17:47091311-47113981:+|nuORF ENST00000499130.6_1_17:47091311-47113981:+|nuORF ENST00000499130.6_1_17:47091311-47113981:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.3756103515625 2 578.375281 1154.73601 NaN NaN NaN NaN NaN NaN NaN 46.362 1 46.362 45.862 46.862 0 0 0 0 0.8911 1 21220 21220 5.7319 1.7875 1 36555 8469 23288 23360 41010 41010 0.1648300226502215 VRSRLLLQ 8 Unmodified _VRSRLLLQ_ 0 0 0 REV__ENST00000492587.5_1_1:201958137-201969135:+|nuORF REV__ENST00000492587.5_1_1:201958137-201969135:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 984.636962890625 1 984.631275 983.623999 3.9337 0.0038733 1.2676 0.0012481 5.2013 0.0051214 984.6329371536743 103.29 0.087143 103.89 103.86 103.94 0.59821 7 5 2 0 0 0 0.7471 1 47799 47799 0 0 1 160710 + 36556 16600 23289 23361 41011 41011 0.1315314818805291 VRSVVLFG 8 Unmodified _VRSVVLFG_ 0 0 0 ENSG00000066583|ENST00000173527|ISOC1 ENSG00000066583|ENST00000173527|ISOC1 ENSG00000066583|ENST00000173527|ISOC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 876.5344848632812 1 876.530164 875.522887 4.7495 0.0041631 0.76305 0.00066884 5.5125 0.0048319 876.5308314711282 104.22 0.062729 104.54 104.5 104.56 0.31863 11 5 3 0 0 0 0.7471 1 48159 48159 0.79363 0 1 1815300 36557 708 23290 23362 41012 41012 0.0801469648533839 VRTASIWVP 9 Unmodified _VRTASIWVP_ 0 0 0 nc|ENSG00000090612|Q14587-6|ZNF268;ENST00000537973.5_1_12:133758174-133764682:+|nuORF;ENSG00000090612|ENST00000536435|ZNF268;ZNF268|p.T941Kfs*12|1|0.17|ENSG00000090612|chr12:133204506-133204507|-/AAATTATCAATGTTTGTCATCT|frameshift_variant nc|ENSG00000090612|Q14587-6|ZNF268 nc|ENSG00000090612|Q14587-6|ZNF268 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.7989501953125 2 514.798009 1027.58147 NaN NaN NaN NaN NaN NaN NaN 87.373 1 87.413 86.913 87.913 0.039955 0 0 0 0.8911 1 44219 44219 5.7319 0.97584 1 36558 1063 23291 23363 41013 41013 0.06877753059779934 VRTGTYRQL 9 Unmodified _VRTGTYRQL_ 0 0 0 ENSG00000167552|ENST00000301071|TUBA1A;ENSG00000075886|ENST00000321253|TUBA3D;ENSG00000152086|ENST00000312988|TUBA3E;ENSG00000198033|ENST00000400113|TUBA3C;ENSG00000167553|ENST00000301072|TUBA1C;nc|ENSG00000198033|P0DPH7-2|TUBA3C;ENSG00000123416|ENST00000336023|TUBA1B;nc|ENSG00000167552|Q71U36-2|TUBA1A;ENST00000548363.1_1_12:49580068-49582762:-|nuORF;ENST00000550254.1_1_12:49580068-49580335:-|nuORF;nc|ENSG00000123416|P68363-2|TUBA1B ENSG00000167552|ENST00000301071|TUBA1A ENSG00000167552|ENST00000301071|TUBA1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.2099914550781 3 365.208607 1092.60399 2.4066 0.00087889 0.4257 0.00015547 2.8323 0.0010344 365.2088299950631 14.371 0.13869 14.678 14.593 14.732 0.3069 11 5 3 0 0 0 0.044531 1 6514 6514 49.527 16.082 1 961260 36559 839 23292 23364 41014 41014 0.0613935245742141 VRTGTYRQL 9 Unmodified _VRTGTYRQL_ 0 0 0 ENSG00000167552|ENST00000301071|TUBA1A;ENSG00000075886|ENST00000321253|TUBA3D;ENSG00000152086|ENST00000312988|TUBA3E;ENSG00000198033|ENST00000400113|TUBA3C;ENSG00000167553|ENST00000301072|TUBA1C;nc|ENSG00000198033|P0DPH7-2|TUBA3C;ENSG00000123416|ENST00000336023|TUBA1B;nc|ENSG00000167552|Q71U36-2|TUBA1A;ENST00000548363.1_1_12:49580068-49582762:-|nuORF;ENST00000550254.1_1_12:49580068-49580335:-|nuORF;nc|ENSG00000123416|P68363-2|TUBA1B ENSG00000167552|ENST00000301071|TUBA1A ENSG00000167552|ENST00000301071|TUBA1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.2096252441406 3 365.208607 1092.60399 NaN NaN NaN NaN NaN NaN NaN 14.37 1 15.019 14.519 15.519 0.6482 0 0 0 0.05082 1 6468 6468 53.317 19.872 1 36560 839 23292 23364 41015 41015 0.0613935245742141 VRTPYTMSY 9 Unmodified _VRTPYTMSY_ 0 0 0 nc|ENSG00000239306|Q96PK6-5|RBM14;ENSG00000173933|ENST00000310092|RBM4 nc|ENSG00000239306|Q96PK6-5|RBM14 nc|ENSG00000239306|Q96PK6-5|RBM14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.2726440429688 2 559.270967 1116.52738 3.4633 0.0019369 -0.093405 -5.2239E-05 3.3699 0.0018847 559.2708689545175 40.91 0.21245 40.91 40.766 40.978 0 19 13 2 0 0 0 0.078225 1 18589 18589 38.176 9.6887 1 769140 36561 4959 23293 23365 41016 41016 -0.02622207154058742 VRTPYTMSY 9 Unmodified _VRTPYTMSY_ 0 0 0 nc|ENSG00000239306|Q96PK6-5|RBM14;ENSG00000173933|ENST00000310092|RBM4 nc|ENSG00000239306|Q96PK6-5|RBM14 nc|ENSG00000239306|Q96PK6-5|RBM14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.273193359375 2 559.270967 1116.52738 3.3066 0.0018493 -0.16439 -9.1937E-05 3.1422 0.0017574 559.2708841854841 39.964 0.24806 40.764 40.571 40.819 0.80014 16 11 2 0 0 0 0.057945 1 18068 18068 43.772 19.752 1 419440 36562 4959 23293 23365 41017 41017 -0.02622207154058742 VRTPYTMSY 9 Unmodified _VRTPYTMSY_ 0 0 0 nc|ENSG00000239306|Q96PK6-5|RBM14;ENSG00000173933|ENST00000310092|RBM4 nc|ENSG00000239306|Q96PK6-5|RBM14 nc|ENSG00000239306|Q96PK6-5|RBM14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.2728881835938 2 559.270967 1116.52738 3.7551 0.0021001 -0.34615 -0.00019359 3.4089 0.0019065 559.2705364876674 40.855 0.12193 41.124 41.051 41.173 0.26904 17 9 2 0 0 0 0.014491 1 18597 18597 75.761 35.804 1 674520 36563 4959 23293 23365 41018 41018 -0.02622207154058742 VRVDFWWRRLR 11 Unmodified _VRVDFWWRRLR_ 0 0 0 nc|ENSG00000006118|Q24JP5-4|TMEM132A;ENSG00000006118|ENST00000453848|TMEM132A;nc|ENSG00000006118|Q24JP5-2|TMEM132A nc|ENSG00000006118|Q24JP5-4|TMEM132A nc|ENSG00000006118|Q24JP5-4|TMEM132A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 794.928955078125 2 794.952218 1587.88988 NaN NaN NaN NaN NaN NaN NaN 108.62 1 108.62 108.12 109.12 0 0 0 0 1.008 1 59469 59469 0.26902 0.26902 1 36564 342 23294 23366 41019 41019 0.11945412030536318 VRVDRRVIKY 10 Unmodified _VRVDRRVIKY_ 0 0 0 nc|ENSG00000144893|Q86YW9-4|MED12L;nc|ENSG00000144893|Q86YW9|MED12L;MED12L|p.Q2074Sfs*63|1|0.33|ENSG00000144893|chr3:151416336-151416336|C/-|frameshift_variant;ENSG00000144893|ENST00000687756|MED12L nc|ENSG00000144893|Q86YW9-4|MED12L nc|ENSG00000144893|Q86YW9-4|MED12L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 651.9944458007812 2 652.401496 1302.78844 NaN NaN NaN NaN NaN NaN NaN 96.97 1 97.247 96.747 97.747 0.27778 0 0 0 1.0015 1 44550 44550 0.40072 0 1 36565 3450 23295 23367 41020 41020 0.14915540607989897 VRVFVLGS 8 Unmodified _VRVFVLGS_ 0 0 0 REV__ENST00000540608.5_1_18:21119776-21166285:-|nuORF REV__ENST00000540608.5_1_18:21119776-21166285:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 876.5343627929688 1 876.530164 875.522887 4.749 0.0041627 0.35632 0.00031233 5.1054 0.004475 876.5302575346288 104.12 0.033447 104.44 104.42 104.45 0.31862 7 4 2 0 0 0 0.7471 1 48115 48115 0 0 1 432880 + 36566 12291 23296 23368 41021 41021 0.0801469648534976 VRVFVLGS 8 Unmodified _VRVFVLGS_ 0 0 0 REV__ENST00000540608.5_1_18:21119776-21166285:-|nuORF REV__ENST00000540608.5_1_18:21119776-21166285:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 876.530164 875.522887 4.749 0.0041627 0.35632 0.00031233 5.1054 0.004475 876.5302575346288 104.12 0.033447 104.44 104.42 104.45 0.31862 -0.16963 0.00028221 NaN 0 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 432880 + 36567 12291 23296 23368 0.0801469648534976 VRVGGVFH 8 Unmodified _VRVGGVFH_ 0 0 0 ENSG00000087884|ENST00000393427|AAMDC ENSG00000087884|ENST00000393427|AAMDC ENSG00000087884|ENST00000393427|AAMDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 435.75274658203125 2 435.750862 869.487171 2.2923 0.00099889 1.37 0.00059696 3.6623 0.0015958 435.75130251668526 74.371 0.32215 75.058 74.937 75.26 0.68662 40 24 2 0 0 0 0.74071 1 36024 36024 2.5775 0 1 851470 36568 1005 23297 23369 41022 41022 0.047206590283281 VRVLKRVPTKV 11 Unmodified _VRVLKRVPTKV_ 0 0 0 REV__ENST00000414781.1_1_9:134473602-134479439:-|nuORF REV__ENST00000414781.1_1_9:134473602-134479439:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 647.8952026367188 2 647.937714 1293.86087 NaN NaN NaN NaN NaN NaN NaN 84.674 1 84.922 84.422 85.422 0.24757 0 0 0 1.0082 1 38971 38971 0 0 1 + 36569 16126 23298 23370 41023 41023 0.22569874681516922 VRVLSGSA 8 Unmodified _VRVLSGSA_ 0 0 0 REV__ENST00000258412.7_1_2:219139332-219139434:-|nuORF REV__ENST00000258412.7_1_2:219139332-219139434:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.73614501953125 2 394.734877 787.455202 NaN NaN NaN NaN NaN NaN NaN 46.236 1 46.888 46.388 47.388 0.65197 0 0 0 0.9851 1 21178 21178 6.7232 0 1 + 36570 14946 23299 23371 41024 41024 0.05297246554528101 VRVPLRLRLLR 11 Unmodified _VRVPLRLRLLR_ 0 0 0 REV__ENSG00000186474|ENST00000684732|KLK12 REV__ENSG00000186474|ENST00000684732|KLK12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 696.2505493164062 2 695.977705 1389.94086 NaN NaN NaN NaN NaN NaN NaN 96.5 1 96.577 96.077 97.077 0.076538 0 0 0 1.0082 1 51300 51300 0 0 1 + 36571 14058 23300 23372 41025 41025 0.26148361075388493 VRVRGPAG 8 Unmodified _VRVRGPAG_ 0 0 0 nc|ENSG00000069424|Q13303-5|KCNAB2 nc|ENSG00000069424|Q13303-5|KCNAB2 nc|ENSG00000069424|Q13303-5|KCNAB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 406.2493591308594 2 406.248486 810.48242 1.9211 0.00078044 0.44731 0.00018172 2.3684 0.00096216 406.24857574559866 82.938 0.38264 82.983 82.796 83.179 0.045006 107 44 3 0 0 0 0.7471 1 41066 41066 0.69038 0 1 27010000 36572 9556 23301 23373 41026 41026 0.06959774885569914 VRVVGLGG 8 Unmodified _VRVVGLGG_ 0 0 0 REV__ENST00000284617.6_1_1:229462728-229478156:-|nuORF REV__ENST00000284617.6_1_1:229462728-229478156:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 756.9097900390625 1 756.472649 755.465373 4.67 0.0035327 1.2948 0.00097944 5.9647 0.0045121 756.4734806095995 103.66 0.033852 103.98 103.97 104 0.31863 8 4 2 0 0 0 0.7471 1 47924 47924 0.69038 0 1 445980 + 36573 15105 23302 23374 41027 41027 0.07785854279779869 VRVVGLGG 8 Unmodified _VRVVGLGG_ 0 0 0 REV__ENST00000284617.6_1_1:229462728-229478156:-|nuORF REV__ENST00000284617.6_1_1:229462728-229478156:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 756.472649 755.465373 4.67 0.0035327 1.2948 0.00097944 5.9647 0.0045121 756.4734806095995 103.66 0.033852 103.98 103.97 104 0.31863 -0.11675 -0.00028423 NaN 0.69038 8 4 2 NaN NaN NaN NaN 0 NaN NaN 0 445980 + 36574 15105 23302 23374 0.07785854279779869 VRVVGLGG 8 Unmodified _VRVVGLGG_ 0 0 0 REV__ENST00000284617.6_1_1:229462728-229478156:-|nuORF REV__ENST00000284617.6_1_1:229462728-229478156:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 756.472649 755.465373 4.1614 0.003148 3.4908 0.0026407 7.6522 0.0057887 756.4748100262583 103.62 0.039284 104.22 104.19 104.23 0.59821 0.11675 0.001377 NaN 0.69038 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 359760 + 36575 15105 23302 23374 0.07785854279779869 VRVVSRGRPR 10 Unmodified _VRVVSRGRPR_ 0 0 0 ENST00000448257.6_1_10:62538294-62538390:+|nuORF ENST00000448257.6_1_10:62538294-62538390:+|nuORF ENST00000448257.6_1_10:62538294-62538390:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.9027099609375 3 394.582779 1180.72651 2.862 0.0011293 -0.079079 -3.1203E-05 2.7829 0.0010981 394.91571754860513 82.717 0.067596 82.965 82.927 82.995 0.24722 5 3 2 0 0 0 0.12676 1 38057 38057 5.0475 0.3316 1 191640 36576 7995 23303 23375 41028 41028 0.14337233979517805 VRWPLRLVLLW 11 Unmodified _VRWPLRLVLLW_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.482177734375 4 363.481592 1449.89726 2.7093 0.00098476 -0.019137 -6.9558E-06 2.6901 0.00097781 363.48154056703083 40.492 0.80931 40.492 39.752 40.561 0 78 33 3 0 0 0 0.91459 2 18333 18333;18366 0.094841 0 1 1775200 + 36577 12705 23304 23376 41029;41030 41029 0.19030751578247873 VRWPLRLVLLW 11 Unmodified _VRWPLRLVLLW_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.482421875 4 363.481592 1449.89726 2.6809 0.00097447 -0.11844 -4.305E-05 2.5625 0.00093142 363.4814936119053 40.002 1.4406 40.269 39.347 40.787 0.26696 120 54 4 0 0 0 0.91459 1 18343 18343 0.094841 0 1 2280200 + 36578 12705 23304 23376 41031 41031 0.19030751578247873 VRWPLRLVLLW 11 Unmodified _VRWPLRLVLLW_ 0 0 0 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 REV__nc|ENSG00000154305|Q5JRA6-3|MIA3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.7333068847656 4 363.481592 1449.89726 2.6809 0.00097447 -0.11844 -4.305E-05 2.5625 0.00093142 363.4814936119053 40.002 1.4406 40.269 39.347 40.787 0.26696 120 54 4 0 0 0 0.13295 1 18351 18351 0.094841 0 1 2280200 + 36579 12705 23304 23376 41032 41032 0.19030751578247873 VRWRMRKLKYK 11 Unmodified _VRWRMRKLKYK_ 0 0 0 nc|ENSG00000136270|Q969Z0-2|TBRG4;ENSG00000136270|ENST00000258770|TBRG4 nc|ENSG00000136270|Q969Z0-2|TBRG4 nc|ENSG00000136270|Q969Z0-2|TBRG4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.9862670898438 3 521.985407 1562.93439 2.1206 0.0011069 1.089 0.00056844 3.2096 0.0016754 521.985698179544 106.27 0.1288 106.32 106.25 106.38 0.04837 8 5 2 0 0 0 0.91489 1 57519 57519 0 0 1 1313600 36580 2940 23305 23377 41033 41033 0.17544099852352701 VRWRMRKLKYK 11 Unmodified _VRWRMRKLKYK_ 0 0 0 nc|ENSG00000136270|Q969Z0-2|TBRG4;ENSG00000136270|ENST00000258770|TBRG4 nc|ENSG00000136270|Q969Z0-2|TBRG4 nc|ENSG00000136270|Q969Z0-2|TBRG4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 521.985407 1562.93439 2.8482 0.0014867 0.32652 0.00017044 3.1748 0.0016572 521.985623981957 106.15 0.14369 106.15 106.04 106.19 0 -0.083561 -0.00056182 NaN 0 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 749590 36581 2940 23305 23377 0.17544099852352701 VSAAKKLP 8 Unmodified _VSAAKKLP_ 0 0 0 ENSG00000142207|ENST00000382751|URB1 ENSG00000142207|ENST00000382751|URB1 ENSG00000142207|ENST00000382751|URB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 407.2654724121094 2 407.263271 812.511988 NaN NaN NaN NaN NaN NaN NaN 34.784 1 35.407 34.907 35.907 0.62294 0 0 0 0.99035 1 15937 15937 2.3027 0 1 36582 3302 23306 23378 41034 41034 0.09823294111038194 VSARAVGF 8 Unmodified _VSARAVGF_ 0 0 0 REV__nc|ENSG00000119283|Q6ZTA4-2|TRIM67 REV__nc|ENSG00000119283|Q6ZTA4-2|TRIM67 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 403.7326354980469 2 403.729595 805.444637 3.2775 0.0013232 2.5177 0.0010165 5.7952 0.0023397 403.7313321717976 68.843 0.35732 69.098 68.927 69.284 0.25443 49 22 3 0 0 0 0.7441 2 31496 31496;31589 2.3027 0 1 670780 + 36583 11494 23307 23379 41035;41036 41035 0.03413263900097263 VSARAVGF 8 Unmodified _VSARAVGF_ 0 0 0 REV__nc|ENSG00000119283|Q6ZTA4-2|TRIM67 REV__nc|ENSG00000119283|Q6ZTA4-2|TRIM67 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 403.7319641113281 2 403.729595 805.444637 2.8147 0.0011364 2.1222 0.0008568 4.9369 0.0019932 403.7309122397959 68.202 0.34566 68.861 68.697 69.043 0.65925 59 22 3 0 0 0 0.70799 1 31312 31312 5.2307 0 1 900280 + 36584 11494 23307 23379 41037 41037 0.03413263900097263 VSARAVGF 8 Unmodified _VSARAVGF_ 0 0 0 REV__nc|ENSG00000119283|Q6ZTA4-2|TRIM67 REV__nc|ENSG00000119283|Q6ZTA4-2|TRIM67 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 403.729595 805.444637 3.2775 0.0013232 2.5177 0.0010165 5.7952 0.0023397 403.7313321717976 68.843 0.35732 69.098 68.927 69.284 0.25443 0.11846 0.00016142 NaN 5.2307 49 22 3 NaN NaN NaN NaN 0 NaN NaN 0 670780 + 36585 11494 23307 23379 0.03413263900097263 VSARAVGF 8 Unmodified _VSARAVGF_ 0 0 0 REV__nc|ENSG00000119283|Q6ZTA4-2|TRIM67 REV__nc|ENSG00000119283|Q6ZTA4-2|TRIM67 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 403.729595 805.444637 2.8147 0.0011364 2.1222 0.0008568 4.9369 0.0019932 403.7309122397959 68.202 0.34566 68.861 68.697 69.043 0.65925 -0.11846 -0.00015792 NaN 5.2307 59 22 3 NaN NaN NaN NaN 0 NaN NaN 0 900280 + 36586 11494 23307 23379 0.03413263900097263 VSAVIYLLYG 10 Unmodified _VSAVIYLLYG_ 0 0 0 REV__ENSG00000130943|ENST00000253255|PKDREJ REV__ENSG00000130943|ENST00000253255|PKDREJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.81884765625 2 549.3157 1096.61685 3.3923 0.0018635 -0.099876 -5.4863E-05 3.2925 0.0018086 549.3155953039642 68.301 0.31249 68.96 68.773 69.086 0.65924 54 19 4 0 0 0 0.42206 1 31262 31262 24.021 1.2843 1 2036300 + 36587 11838 23308 23380 41038 41038 0.07240370796944262 VSAVPLLLG 9 Unmodified _VSAVPLLLG_ 0 0 0 ENST00000523562.5_1_16:67203334-67203685:+|nuORF ENST00000523562.5_1_16:67203334-67203685:+|nuORF ENST00000523562.5_1_16:67203334-67203685:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7817077636719 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 43.304 1 43.953 43.453 44.453 0.64872 0 0 0 0.91452 1 19844 19844 0 0 1 36588 8658 23309 23381 41039 41039 0.10388447425305003 VSCVPRGRPR 10 Unmodified _VSCVPRGRPR_ 0 0 0 ENST00000597346.1_1_11:2720404-2720578:-|nuORF ENST00000597346.1_1_11:2720404-2720578:-|nuORF ENST00000597346.1_1_11:2720404-2720578:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.21484375 3 376.213586 1125.61893 NaN NaN NaN NaN NaN NaN NaN 62.219 1 62.468 61.968 62.968 0.24965 0 0 0 0.99466 1 28485 28485 6.1918 2.2475 1 36589 9282 23310 23382 41040 41040 0.0611452105376884 VSCVPRGRPR 10 Unmodified _VSCVPRGRPR_ 0 0 0 ENST00000597346.1_1_11:2720404-2720578:-|nuORF ENST00000597346.1_1_11:2720404-2720578:-|nuORF ENST00000597346.1_1_11:2720404-2720578:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.2142028808594 3 376.213586 1125.61893 2.5775 0.00096969 0.43754 0.00016461 3.015 0.0011343 376.21368818518323 54.447 0.69055 55.114 54.738 55.428 0.6665 85 51 3 0 0 0 0.84738 1 24950 24950 6.1918 0.78914 1 4499200 36590 9282 23310 23382 41041 41041 0.0611452105376884 VSCVPRGRPR 10 Unmodified _VSCVPRGRPR_ 0 0 0 ENST00000597346.1_1_11:2720404-2720578:-|nuORF ENST00000597346.1_1_11:2720404-2720578:-|nuORF ENST00000597346.1_1_11:2720404-2720578:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.2148132324219 3 376.213586 1125.61893 2.5894 0.00097416 0.88795 0.00033406 3.4773 0.0013082 376.21377077989825 61.598 0.2756 62.258 62.009 62.285 0.66008 37 13 4 0 0 0 0.90778 1 28174 28174 3.3196 0.58445 1 2677200 36591 9282 23310 23382 41042 41042 0.0611452105376884 VSDFFHWF 8 Unmodified _VSDFFHWF_ 0 0 0 nc|ENSG00000129450|Q9Y336-2|SIGLEC9 nc|ENSG00000129450|Q9Y336-2|SIGLEC9 nc|ENSG00000129450|Q9Y336-2|SIGLEC9 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.2920532226562 2 542.747985 1083.48142 3.4991 0.0018991 -0.85505 -0.00046408 2.6441 0.0014351 542.747682348197 38.159 0.37159 38.159 37.96 38.332 0 54 13 5 0 0 0 0.13917 1 17242 17242 5.2307 0 1 22796000 36592 9634 23311 23383 41043 41043 -0.05698484274012117 VSDHHPPDA 9 Unmodified _VSDHHPPDA_ 0 0 0 ENST00000396504.6_1_22:41923273-41923423:-|nuORF ENST00000396504.6_1_22:41923273-41923423:-|nuORF ENST00000396504.6_1_22:41923273-41923423:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.7220153808594 2 487.719956 973.425358 3.3142 0.0016164 0.56133 0.00027377 3.8755 0.0018902 487.7202365188382 13.344 0.43065 13.987 13.822 14.253 0.64272 60 31 2 0 0 0 0.80651 1 6072 6072 7.2892 1.0834 1 539330 36593 7570 23312 23384 41044 41044 -0.06241737181483131 VSEKIHSL 8 Unmodified _VSEKIHSL_ 0 0 0 REV__ENSG00000163634|ENST00000295899|THOC7 REV__ENSG00000163634|ENST00000295899|THOC7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 304.8438415527344 3 304.843154 911.507631 NaN NaN NaN NaN NaN NaN NaN 15.101 1 15.408 14.908 15.908 0.3069 0 0 0 0.99035 1 6826 6826 0.45834 0 1 + 36594 13014 23313 23385 41045 41045 0.048337848974938424 VSFEALPIM 9 Unmodified _VSFEALPIM_ 0 0 0 nc|ENSG00000206560|O15084|ANKRD28;ENSG00000206560|ENST00000683139|ANKRD28;nc|ENSG00000206560|O15084-1|ANKRD28;ENST00000498713.1_1_3:15711779-15717570:-|nuORF;nc|ENSG00000206560|O15084-2|ANKRD28 nc|ENSG00000206560|O15084|ANKRD28 nc|ENSG00000206560|O15084|ANKRD28 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.7670593261719 2 503.767529 1005.5205 2.857 0.0014393 0.25472 0.00012832 3.1117 0.0015676 503.7675424948764 75.688 0.28416 76.352 76.174 76.458 0.66411 39 24 2 0 0 0 0.55815 1 34836 34836 16.942 1.0951 1 964760 36595 6075 23314 23386 41046 41046 0.01796479965355502 VSFPFPAL 8 Unmodified _VSFPFPAL_ 0 0 0 ENST00000216733.7_1_14:23826097-23826370:-|nuORF ENST00000216733.7_1_14:23826097-23826370:-|nuORF ENST00000216733.7_1_14:23826097-23826370:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 439.2458801269531 2 439.244547 876.47454 3.2763 0.0014391 0.080296 3.5269E-05 3.3566 0.0014744 439.2445798495368 30.643 0.20552 30.899 30.793 30.999 0.25614 22 15 2 0 0 0 0.70799 1 13990 13990 5.2307 0 1 165410 36596 6409 23315 23387 41047 41047 0.03136202845416847 VSGIGKPVL 9 Unmodified _VSGIGKPVL_ 0 0 0 nc|ENSG00000133816|O94851|MICAL2;nc|ENSG00000133816|O94851-3|MICAL2;ENSG00000133816|ENST00000683283|MICAL2 nc|ENSG00000133816|O94851|MICAL2 nc|ENSG00000133816|O94851|MICAL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 435.2780456542969 2 435.276378 868.538203 2.8002 0.0012189 1.1398 0.00049611 3.94 0.001715 435.27686030657077 36.709 0.35751 37.503 37.317 37.674 0.79342 28 16 2 0 0 0 0.7295 1 16608 16608 8.5933 0 1 339920 36597 9650 23316 23388 41048 41048 0.09867563282523406 VSHAKGPR 8 Unmodified _VSHAKGPR_ 0 0 0 REV__ENSG00000225781|ENST00000418316|OR6V1 REV__ENSG00000225781|ENST00000418316|OR6V1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 426.2478332519531 2 426.245944 850.477334 2.8457 0.001213 0.68173 0.00029058 3.5275 0.0015036 426.2462113591972 77.471 0.28102 78.134 78.035 78.316 0.66303 25 16 2 0 0 0 0.74071 1 35687 35687 2.5775 0 1 449560 + 36598 14555 23317 23389 41049 41049 0.046114710229517186 VSHLPRVLKI 10 Unmodified _VSHLPRVLKI_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.3773803710938 2 581.376958 1160.73936 NaN NaN NaN NaN NaN NaN NaN 106.37 1 106.98 106.48 107.48 0.60074 0 0 0 1.0001 1 49115 49115 1.6526 0 1 + 36599 12747 23318 23390 41050 41050 0.16542252319050021 VSHTSSAVVL 10 Unmodified _VSHTSSAVVL_ 0 0 0 ENST00000561677.6_1_16:69782679-69783527:-|nuORF ENST00000561677.6_1_16:69782679-69783527:-|nuORF ENST00000561677.6_1_16:69782679-69783527:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.2789611816406 2 500.277106 998.53966 3.0752 0.0015385 0.45324 0.00022675 3.5284 0.0017652 500.27729053499235 39.128 0.40851 39.128 38.942 39.35 0 37 15 3 0 0 0 0.34482 1 17820 17820 26.884 5.137 1 4437900 36600 8987 23319 23391 41051 41051 0.04033152580609567 VSHTSSAVVL 10 Unmodified _VSHTSSAVVL_ 0 0 0 ENST00000561677.6_1_16:69782679-69783527:-|nuORF ENST00000561677.6_1_16:69782679-69783527:-|nuORF ENST00000561677.6_1_16:69782679-69783527:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.27911376953125 2 500.277106 998.53966 3.0705 0.0015361 0.63897 0.00031966 3.7094 0.0018557 500.2773861179175 38.774 0.32309 39.038 38.932 39.255 0.26408 29 12 3 0 0 0 0.13117 1 17691 17691 48.346 0.75146 1 1616700 36601 8987 23319 23391 41052 41052 0.04033152580609567 VSHTSSAVVL 10 Unmodified _VSHTSSAVVL_ 0 0 0 ENST00000561677.6_1_16:69782679-69783527:-|nuORF ENST00000561677.6_1_16:69782679-69783527:-|nuORF ENST00000561677.6_1_16:69782679-69783527:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.27899169921875 2 500.277106 998.53966 3.1165 0.0015591 0.56777 0.00028404 3.6843 0.0018432 500.27735391182176 38.378 0.4614 39.012 38.787 39.248 0.63388 45 19 3 0 0 0 0.34482 2 17481 17481;17597 26.884 5.137 1 1348200 36602 8987 23319 23391 41053;41054 41053 0.04033152580609567 VSIDPSVLI 9 Unmodified _VSIDPSVLI_ 0 0 0 REV__ENST00000430158.5_1_2:234396412-234396920:-|nuORF REV__ENST00000430158.5_1_2:234396412-234396920:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 471.7802734375 2 471.778951 941.543348 3.1067 0.0014657 0.28913 0.00013641 3.3959 0.0016021 471.7789531649067 83.637 0.3597 84.299 84.107 84.466 0.66219 40 23 3 0 0 0 0.041436 1 38519 38519 50.855 0 1 754440 + 36603 16248 23320 23392 41055 41055 0.070238223544834 VSIISLVAN 9 Unmodified _VSIISLVAN_ 0 0 0 ENSG00000007314|ENST00000435607|SCN4A ENSG00000007314|ENST00000435607|SCN4A ENSG00000007314|ENST00000435607|SCN4A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 458.2653503417969 2 458.279118 914.543683 NaN NaN NaN NaN NaN NaN NaN 101.03 1 101.34 100.84 101.84 0.31412 0 0 0 0.90777 1 46754 46754 1.6526 0 1 36604 363 23321 23393 41056 41056 0.08299242074326685 VSIVPIKI 8 Unmodified _VSIVPIKI_ 0 0 0 REV__ENSG00000177409|ENST00000318238|SAMD9L REV__ENSG00000177409|ENST00000318238|SAMD9L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.7994079589844 2 434.796946 867.57934 NaN NaN NaN NaN NaN NaN NaN 34.454 1 34.708 34.208 35.208 0.25389 0 0 0 0.99035 1 15693 15693 2.3027 0 1 + 36605 13736 23322 23394 41057 41057 0.14025324321983135 VSKAGAGT 8 Unmodified _VSKAGAGT_ 0 0 0 ENSG00000196440|ENST00000423738|ARMCX4 ENSG00000196440|ENST00000423738|ARMCX4 ENSG00000196440|ENST00000423738|ARMCX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.69476318359375 2 345.692678 689.370804 NaN NaN NaN NaN NaN NaN NaN 38.462 1 39.096 38.596 39.596 0.63388 0 0 0 0.99035 1 17589 17589 2.5775 0 1 36606 5745 23323 23395 41058 41058 0.013692957377770654 VSKAGAGT 8 Unmodified _VSKAGAGT_ 0 0 0 ENSG00000196440|ENST00000423738|ARMCX4 ENSG00000196440|ENST00000423738|ARMCX4 ENSG00000196440|ENST00000423738|ARMCX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.69482421875 2 345.692678 689.370804 NaN NaN NaN NaN NaN NaN NaN 39.139 1 39.776 39.276 40.276 0.63778 0 0 0 0.99035 1 17891 17891 0.69038 0 1 36607 5745 23323 23395 41059 41059 0.013692957377770654 VSKAGAGT 8 Unmodified _VSKAGAGT_ 0 0 0 ENSG00000196440|ENST00000423738|ARMCX4 ENSG00000196440|ENST00000423738|ARMCX4 ENSG00000196440|ENST00000423738|ARMCX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.6950378417969 2 345.692678 689.370804 NaN NaN NaN NaN NaN NaN NaN 39.282 1 39.919 39.419 40.419 0.63778 0 0 0 0.99035 1 17954 17954 0.69038 0 1 36608 5745 23323 23395 41060 41060 0.013692957377770654 VSKAGGGA 8 Unmodified _VSKAGGGA_ 0 0 0 ENST00000493708.5_1_7:65552693-65554198:+|nuORF ENST00000493708.5_1_7:65552693-65554198:+|nuORF ENST00000493708.5_1_7:65552693-65554198:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.68133544921875 2 323.679571 645.344589 NaN NaN NaN NaN NaN NaN NaN 101.8 1 102.4 101.9 102.9 0.59717 0 0 0 0.99035 1 47131 47131 0.79363 0 1 36609 8417 23324 23396 41061 41061 0.007730265662871716 VSKEQAKP 8 Unmodified _VSKEQAKP_ 0 0 0 REV__ENSG00000168939|ENST00000695325|SPRY3 REV__ENSG00000168939|ENST00000695325|SPRY3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 443.7523498535156 2 443.753267 885.491981 NaN NaN NaN NaN NaN NaN NaN 63.03 1 63.03 62.53 63.53 0 0 0 0 0.99035 1 29605 29605 3.9444 0.3479 1 + 36610 13373 23325 23397 41062 41062 0.044654983804207404 VSKINVQR 8 Unmodified _VSKINVQR_ 0 0 0 REV3L|p.N1558Kfs*2|1|0.35|ENSG00000009413|chr6:111373681-111373682|-/T|frameshift_variant;nc|ENSG00000009413|O60673-2|REV3L;ENSG00000009413|ENST00000368802|REV3L REV3L|p.N1558Kfs*2|1|0.35|ENSG00000009413|chr6:111373681-111373682|-/T|frameshift_variant REV3L|p.N1558Kfs*2|1|0.35|ENSG00000009413|chr6:111373681-111373682|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 315.1958312988281 3 315.194298 942.561064 NaN NaN NaN NaN NaN NaN NaN 72.683 1 72.942 72.442 73.442 0.25876 0 0 0 0.99035 1 33369 33369 3.5965 0 1 36611 388 23326 23398 41063 41063 0.0874858239999412 VSKKKKKKK 9 Unmodified _VSKKKKKKK_ 0 0 0 AluSz6_dup29803|chr11:63572851-63572957:-|1.0054337000575218|0.2400240247261108|2.07|539.0|3|2|sense;AluSp_dup15995|chr5:178235991-178236344:-|2.46787698028414|0.1980803357196108|3.64|532.0|15|3|sense;AluSc5_dup2926|chr7:128469347-128469653:-|2.0398645452387387|0.2522616082610692|3.02|541.0|10|3|sense;AluJr4_dup19980|chr22:30629343-30629529:+|1.0592181830142802|0.2646484787598915|2.0|540.0|7|3|sense;AluSp_dup15305|chr5:139552676-139552981:-|1.0466684344505637|0.0913916671487778|3.52|522.0|7|2|sense;AluY_dup4373|chr1:100739515-100739826:-|1.3477491983240313|0.0541338290838351|4.64|533.0|10|3|sense;AluJb_dup44094|chr6:106769172-106769502:-|2.713822644894236|0.2191168083263084|3.63|539.0|5|1|sense;nc|ENSG00000170085|Q8NDZ2-2|SIMC1 AluSz6_dup29803|chr11:63572851-63572957:-|1.0054337000575218|0.2400240247261108|2.07|539.0|3|2|sense;nc|ENSG00000170085|Q8NDZ2-2|SIMC1 nc|ENSG00000170085|Q8NDZ2-2|SIMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.3967895507812 2 551.395151 1100.77575 3.7361 0.0020601 -0.31887 -0.00017582 3.4173 0.0018843 551.3948076277816 104.99 0.2005 105.59 105.47 105.67 0.59885 33 14 3 0 0 0 1.2459 2 48463 48463;48515 0 0 1 1479800 36612 51;9751 23327 23399 41064;41065 41064 0.22939129215728826 VSKKKKKKK 9 Unmodified _VSKKKKKKK_ 0 0 0 AluSz6_dup29803|chr11:63572851-63572957:-|1.0054337000575218|0.2400240247261108|2.07|539.0|3|2|sense;AluSp_dup15995|chr5:178235991-178236344:-|2.46787698028414|0.1980803357196108|3.64|532.0|15|3|sense;AluSc5_dup2926|chr7:128469347-128469653:-|2.0398645452387387|0.2522616082610692|3.02|541.0|10|3|sense;AluJr4_dup19980|chr22:30629343-30629529:+|1.0592181830142802|0.2646484787598915|2.0|540.0|7|3|sense;AluSp_dup15305|chr5:139552676-139552981:-|1.0466684344505637|0.0913916671487778|3.52|522.0|7|2|sense;AluY_dup4373|chr1:100739515-100739826:-|1.3477491983240313|0.0541338290838351|4.64|533.0|10|3|sense;AluJb_dup44094|chr6:106769172-106769502:-|2.713822644894236|0.2191168083263084|3.63|539.0|5|1|sense;nc|ENSG00000170085|Q8NDZ2-2|SIMC1 AluSz6_dup29803|chr11:63572851-63572957:-|1.0054337000575218|0.2400240247261108|2.07|539.0|3|2|sense;nc|ENSG00000170085|Q8NDZ2-2|SIMC1 nc|ENSG00000170085|Q8NDZ2-2|SIMC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.3967895507812 2 551.395151 1100.77575 NaN NaN NaN NaN NaN NaN NaN 105.32 1 105.92 105.42 106.42 0.59969 0 0 0 0.91452 1 48638 48638 0 0 1 36613 51;9751 23327 23399 41066 41066 0.22939129215728826 VSKKKKKKKKK 11 Unmodified _VSKKKKKKKKK_ 0 0 0 AluSz6_dup29803|chr11:63572851-63572957:-|1.0054337000575218|0.2400240247261108|2.07|539.0|3|2|sense;AluJr4_dup19980|chr22:30629343-30629529:+|1.0592181830142802|0.2646484787598915|2.0|540.0|7|3|sense AluSz6_dup29803|chr11:63572851-63572957:-|1.0054337000575218|0.2400240247261108|2.07|539.0|3|2|sense AluSz6_dup29803|chr11:63572851-63572957:-|1.0054337000575218|0.2400240247261108|2.07|539.0|3|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 453.32745361328125 3 453.329168 1356.96567 NaN NaN NaN NaN NaN NaN NaN 75.26 1 75.924 75.424 76.424 0.6635 0 0 0 1.0082 1 36434 36434 0.08335 0 1 36614 51 23328 23400 41067 41067 0.3014699615810059 VSKKKKKKR 9 Unmodified _VSKKKKKKR_ 0 0 0 AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 377.26922607421875 3 377.267909 1128.7819 NaN NaN NaN NaN NaN NaN NaN 10.99 1 10.99 10.49 11.49 0 0 0 0 0.91452 1 4822 4822 0 0 1 36615 43 23329 23401 41068 41068 0.22265647447261472 VSKKKKKKR 9 Unmodified _VSKKKKKKR_ 0 0 0 AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 377.2698669433594 3 377.267909 1128.7819 NaN NaN NaN NaN NaN NaN NaN 11.668 1 11.668 11.168 12.168 0 0 0 0 0.91452 1 5079 5079 0 0 1 36616 43 23329 23401 41069 41069 0.22265647447261472 VSKKKKKKR 9 Unmodified _VSKKKKKKR_ 0 0 0 AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 377.2695617675781 3 377.267909 1128.7819 NaN NaN NaN NaN NaN NaN NaN 12.051 1 12.051 11.551 12.551 0 0 0 0 0.91452 1 5230 5230 0 0 1 36617 43 23329 23401 41070 41070 0.22265647447261472 VSKKKKKKR 9 Unmodified _VSKKKKKKR_ 0 0 0 AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.2720947265625 2 565.398225 1128.7819 NaN NaN NaN NaN NaN NaN NaN 69.31 1 69.31 68.81 69.81 0 0 0 0 0.91238 1 33464 33464 0.52476 0 1 36618 43 23329 23401 41071 41071 0.22265647447261472 VSKKKKKKR 9 Unmodified _VSKKKKKKR_ 0 0 0 AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.3189086914062 2 565.398225 1128.7819 NaN NaN NaN NaN NaN NaN NaN 73.82 1 73.82 73.32 74.32 0 0 0 0 0.91452 1 36010 36010 0 0 1 36619 43 23329 23401 41072 41072 0.22265647447261472 VSKKKKKKR 9 Unmodified _VSKKKKKKR_ 0 0 0 AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.2081909179688 2 565.398225 1128.7819 NaN NaN NaN NaN NaN NaN NaN 94.903 1 94.903 94.403 95.403 0 0 0 0 0.91452 1 51002 51002 0 0 1 36620 43 23329 23401 41073 41073 0.22265647447261472 VSKKKKKKR 9 Unmodified _VSKKKKKKR_ 0 0 0 AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 377.2691955566406 3 377.267909 1128.7819 NaN NaN NaN NaN NaN NaN NaN 9.6536 1 9.9492 9.4492 10.449 0.2956 0 0 0 0.91452 1 4302 4302 0 0 1 36621 43 23329 23401 41074 41074 0.22265647447261472 VSKKKKKKR 9 Unmodified _VSKKKKKKR_ 0 0 0 AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 377.2694396972656 3 377.267909 1128.7819 NaN NaN NaN NaN NaN NaN NaN 10.966 1 11.245 10.745 11.745 0.2792 0 0 0 0.91452 1 4761 4761 0 0 1 36622 43 23329 23401 41075 41075 0.22265647447261472 VSKKKKKKR 9 Unmodified _VSKKKKKKR_ 0 0 0 AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 377.26947021484375 3 377.267909 1128.7819 NaN NaN NaN NaN NaN NaN NaN 12.204 1 12.466 11.966 12.966 0.26154 0 0 0 0.91452 1 5245 5245 0 0 1 36623 43 23329 23401 41076 41076 0.22265647447261472 VSKKKKKKR 9 Unmodified _VSKKKKKKR_ 0 0 0 AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 565.3990478515625 2 565.398225 1128.7819 NaN NaN NaN NaN NaN NaN NaN 81.015 1 81.184 80.684 81.684 0.16862 0 0 0 0.90611 1 39763 39763 2.0598 1.535 1 36624 43 23329 23401 41077 41077 0.22265647447261472 VSKKKKKKR 9 Unmodified _VSKKKKKKR_ 0 0 0 AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.2696838378906 3 377.267909 1128.7819 NaN NaN NaN NaN NaN NaN NaN 11.232 1 11.865 11.365 12.365 0.63304 0 0 0 0.91452 1 5060 5060 0 0 1 36625 43 23329 23401 41078 41078 0.22265647447261472 VSKKKKKKR 9 Unmodified _VSKKKKKKR_ 0 0 0 AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.2698059082031 3 377.267909 1128.7819 NaN NaN NaN NaN NaN NaN NaN 11.869 1 12.507 12.007 13.007 0.63746 0 0 0 0.91452 1 5314 5314 0 0 1 36626 43 23329 23401 41079 41079 0.22265647447261472 VSKKKKKKR 9 Unmodified _VSKKKKKKR_ 0 0 0 AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense AluSx_dup46551|chr7:128464927-128465217:+|1.1416161512137046|0.2450768060498763|2.22|527.0|10|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.2698059082031 3 377.267909 1128.7819 NaN NaN NaN NaN NaN NaN NaN 15.884 1 16.542 16.042 17.042 0.65798 0 0 0 0.91452 1 7158 7158 0 0 1 36627 43 23329 23401 41080 41080 0.22265647447261472 VSKKKRKEKRK 11 Unmodified _VSKKKRKEKRK_ 0 0 0 REV__nc|ENSG00000139116|Q7Z4S6-6|KIF21A REV__nc|ENSG00000139116|Q7Z4S6-6|KIF21A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 708.087646484375 2 707.970077 1413.9256 NaN NaN NaN NaN NaN NaN NaN 45.302 1 45.302 44.802 45.802 0 0 0 0 1.008 1 20722 20722 0.35063 0 1 + 36628 17963 23330 23402 41081 41081 0.2351944948752589 VSKKLKKL 8 Unmodified _VSKKLKKL_ 0 0 0 ENST00000549100.5_1_12:100631797-100646034:-|nuORF;ENSG00000166153|ENST00000550587|DEPDC4 ENST00000549100.5_1_12:100631797-100646034:-|nuORF ENST00000549100.5_1_12:100631797-100646034:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 472.2423095703125 2 472.33677 942.658987 NaN NaN NaN NaN NaN NaN NaN 69.075 1 69.075 68.575 69.575 0 0 0 0 0.99035 1 33310 33310 0.69038 0 1 36629 4454 23331 23403 41082 41082 0.18536390995984675 VSKKLRSRKI 10 Unmodified _VSKKLRSRKI_ 0 0 0 nc|ENSG00000073792|Q9Y6M1-6|IGF2BP2;nc|ENSG00000073792|Q9Y6M1-1|IGF2BP2;ENSG00000073792|ENST00000382199|IGF2BP2;ENST00000461957.5_1_3:185411014-185540996:-|nuORF;ENST00000466476.1_1_3:185414391-185542667:-|nuORF nc|ENSG00000073792|Q9Y6M1-6|IGF2BP2 nc|ENSG00000073792|Q9Y6M1-6|IGF2BP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1214.6553955078125 1 1214.80555 1213.79827 3.1523 0.0038294 3.1375 0.0038115 6.2898 0.0076409 1214.8114485985132 41.196 0.11659 41.196 41.153 41.27 0 27 15 3 0 0 0 0.12676 1 18702 18702 0.45834 0.057624 1 5727900 36630 813 23332 23404 41083 41083 0.19992728613351574 VSKKTKKKKI 10 Unmodified _VSKKTKKKKI_ 0 0 0 ENST00000515800.6_1_5:86667940-86686697:+|nuORF ENST00000515800.6_1_5:86667940-86686697:+|nuORF ENST00000515800.6_1_5:86667940-86686697:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 594.41552734375 2 594.41354 1186.81253 NaN NaN NaN NaN NaN NaN NaN 56.892 1 56.892 56.392 57.392 0 0 0 0 1.002 1 26202 26202 0 0 1 36631 8600 23333 23405 41084 41084 0.22659381041648885 VSKKTKKKKI 10 Unmodified _VSKKTKKKKI_ 0 0 0 ENST00000515800.6_1_5:86667940-86686697:+|nuORF ENST00000515800.6_1_5:86667940-86686697:+|nuORF ENST00000515800.6_1_5:86667940-86686697:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 594.2528076171875 2 594.41354 1186.81253 NaN NaN NaN NaN NaN NaN NaN 66.782 1 66.782 66.282 67.282 0 0 0 0 1.0001 1 31946 31946 1.6526 1.2519 1 36632 8600 23333 23405 41085 41085 0.22659381041648885 VSKLLGTV 8 Unmodified _VSKLLGTV_ 0 0 0 nc|ENSG00000008869|Q9P2D3-2|HEATR5B;nc|ENSG00000008869|Q9P2D3-3|HEATR5B;ENSG00000008869|ENST00000233099|HEATR5B nc|ENSG00000008869|Q9P2D3-2|HEATR5B nc|ENSG00000008869|Q9P2D3-2|HEATR5B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 408.7658996582031 2 408.763104 815.511654 NaN NaN NaN NaN NaN NaN NaN 66.845 1 67.55 67.05 68.05 0.7047 0 0 0 0.99035 1 31712 31712 0 0 1 36633 385 23334 23406 41086 41086 0.09651874391204274 VSKWQLKMRFY 11 Unmodified _VSKWQLKMRFY_ 0 0 0 REV__nc|ENSG00000104946|Q9HA65-3|TBC1D17 REV__nc|ENSG00000104946|Q9HA65-3|TBC1D17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.98638916015625 3 495.939352 1484.79623 NaN NaN NaN NaN NaN NaN NaN 63.94 1 63.94 63.44 64.44 0 0 0 0 1.0072 1 30169 30169 0.45452 0 1 + 36634 11009 23335 23407 41087 41087 0.07321931813226001 VSLEDADDD 9 Unmodified _VSLEDADDD_ 0 0 0 REV__ENSG00000099769|ENST00000215539|IGFALS REV__ENSG00000099769|ENST00000215539|IGFALS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 978.5601806640625 1 978.389826 977.38255 3.6134 0.0035353 -0.20331 -0.00019892 3.4101 0.0033364 978.3925433580679 23.123 0.023891 23.399 23.386 23.41 0.27562 5 3 2 0 0 0 1.2459 1 10436 10436 0 0 1 2399000 + 36635 10786 23336 23408 41088 41088 -0.10704596820244205 VSLFRIRTIMK 11 Unmodified _VSLFRIRTIMK_ 0 0 0 ENSG00000180340|ENST00000315323|FZD2;ENSG00000155760|ENST00000286201|FZD7;ENSG00000157240|ENST00000287934|FZD1 ENSG00000180340|ENST00000315323|FZD2 ENSG00000180340|ENST00000315323|FZD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 682.4150390625 2 682.415757 1362.81696 NaN NaN NaN NaN NaN NaN NaN 74.396 1 75.082 74.582 75.582 0.68662 0 0 0 1.0072 1 35957 35957 1.3295 0 1 36636 3876 23337 23409 41089 41089 0.15006522192902594 VSLIALFRKKS 11 Unmodified _VSLIALFRKKS_ 0 0 0 ECI2|p.F321Sfs*14|1|0.17|ENSG00000198721|chr6:4117375-4117375|A/-|frameshift_variant ECI2|p.F321Sfs*14|1|0.17|ENSG00000198721|chr6:4117375-4117375|A/-|frameshift_variant ECI2|p.F321Sfs*14|1|0.17|ENSG00000198721|chr6:4117375-4117375|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 631.4014892578125 2 631.403173 1260.79179 NaN NaN NaN NaN NaN NaN NaN 72.649 1 73.313 72.813 73.813 0.66398 0 0 0 0.96369 1 33337 33337 10.151 3.5202 1 36637 284 23338 23410 41090 41090 0.17182790661968284 VSLIFVPC 8 Unmodified _VSLIFVPC_ 0 0 0 nc|ENSG00000182652|Q8NH05|OR4Q3;ENSG00000182652|ENST00000642117|OR4Q3 nc|ENSG00000182652|Q8NH05|OR4Q3 nc|ENSG00000182652|Q8NH05|OR4Q3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 439.2457275390625 2 439.246232 876.477911 NaN NaN NaN NaN NaN NaN NaN 30.338 1 30.956 30.456 31.456 0.61737 0 0 0 0.75172 1 13916 13916 20.871 0 1 36638 5342 23339 23411 41091 41091 0.03473129627764138 VSLIKQTAI 9 Unmodified _VSLIKQTAI_ 0 0 0 REV__ENSG00000107951|ENST00000263063|MTPAP REV__ENSG00000107951|ENST00000263063|MTPAP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.8089294433594 2 486.808042 971.601532 NaN NaN NaN NaN NaN NaN NaN 25.569 1 26.194 25.694 26.694 0.62505 0 0 0 0.62812 1 11719 11719 14.838 0 1 + 36639 11129 23340 23412 41092 41092 0.11459503999742537 VSLLLLSLWKL 11 Unmodified _VSLLLLSLWKL_ 0 0 0 nc|ENSG00000292363|Q9HC73-3|CRLF2;ENSG00000205755|ENST00000400841|CRLF2 nc|ENSG00000292363|Q9HC73-3|CRLF2 nc|ENSG00000292363|Q9HC73-3|CRLF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.3126220703125 2 642.918124 1283.8217 NaN NaN NaN NaN NaN NaN NaN 76.158 1 76.158 75.658 76.658 0 0 0 0 1.0072 1 37321 37321 1.3295 0 1 36640 6057 23341 23413 41093 41093 0.19113729607329333 VSLLRLRLRKV 11 Unmodified _VSLLRLRLRKV_ 0 0 0 ENST00000590444.5_1_19:6471408-6475578:-|nuORF;nc|ENSG00000205744|Q8IV53-2|DENND1C;ENSG00000205744|ENST00000381480|DENND1C ENST00000590444.5_1_19:6471408-6475578:-|nuORF ENST00000590444.5_1_19:6471408-6475578:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 676.9644775390625 2 676.964263 1351.91397 NaN NaN NaN NaN NaN NaN NaN 74.806 1 74.806 74.306 75.306 0 0 0 0 1.0072 1 36606 36606 1.3295 1.0225 1 36641 6056 23342 23414 41094 41094 0.25209252464173915 VSLRRRSRFRR 11 Unmodified _VSLRRRSRFRR_ 0 0 0 ENST00000181839.8_1_7:39989715-39990237:+|nuORF ENST00000181839.8_1_7:39989715-39990237:+|nuORF ENST00000181839.8_1_7:39989715-39990237:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.976318359375 3 496.97467 1487.90218 NaN NaN NaN NaN NaN NaN NaN 101.23 1 101.82 101.32 102.32 0.59717 0 0 0 1.0079 1 46868 46868 0.45452 0.35968 1 36642 6385 23343 23415 41095 41095 0.17774448493560158 VSPMELTGP 9 Unmodified _VSPMELTGP_ 0 0 0 ENST00000589104.5_1_19:5070919-5151519:+|nuORF;nc|ENSG00000127663|O94953|KDM4B;ENSG00000127663|ENST00000159111|KDM4B ENST00000589104.5_1_19:5070919-5151519:+|nuORF ENST00000589104.5_1_19:5070919-5151519:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.734375 2 465.733686 929.452819 2.1811 0.0010158 0.46076 0.00021459 2.6418 0.0012304 465.73389265183596 75.123 0.41399 75.123 74.993 75.407 0 68 40 2 0 0 0 0.64206 1 36762 36762 10.074 1.4806 1 1982800 36643 2489 23344 23416 41096 41096 -0.01472969965448101 VSPPRTRLFL 10 Unmodified _VSPPRTRLFL_ 0 0 0 ENST00000494142.1_1_19:54684134-54684188:-|nuORF ENST00000494142.1_1_19:54684134-54684188:-|nuORF ENST00000494142.1_1_19:54684134-54684188:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.9091796875 3 395.908269 1184.70298 2.3102 0.00091463 -0.45977 -0.00018203 1.8504 0.0007326 395.9082447114134 12.782 0.16325 13.089 12.996 13.159 0.30727 6 4 2 0 0 0 0.78028 1 5785 5785 5.4027 0 1 343490 36644 8419 23345 23417 41097 41097 0.1180137542232842 VSPRSHFV 8 Unmodified _VSPRSHFV_ 0 0 0 REV__ENST00000228928.11_1_12:113409775-113410174:+|nuORF REV__ENST00000228928.11_1_12:113409775-113410174:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 310.1720886230469 3 310.171493 927.49265 NaN NaN NaN NaN NaN NaN NaN 101.96 1 102.01 101.51 102.51 0.057198 0 0 0 0.99035 1 55362 55362 0.45834 0 1 + 36645 14845 23346 23418 41098 41098 0.026003378201494343 VSQGAPLYTIL 11 Unmodified _VSQGAPLYTIL_ 0 0 0 REV__nc|ENSG00000167085|P35232-2|PHB1 REV__nc|ENSG00000167085|P35232-2|PHB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.8345947265625 2 581.329339 1160.64412 3.0215 0.0017565 -0.30629 -0.00017806 2.7152 0.0015784 581.3293039018708 76.067 0.46002 76.067 75.831 76.291 0 74 34 3 0 0 0 0.46182 1 37248 37248 24.991 8.8419 1 1756400 + 36646 18029 23347 23419 41099 41099 0.07022854337333229 VSQTWFTFRWL 11 Unmodified _VSQTWFTFRWL_ 0 0 0 nc|ENSG00000197122|P12931-3|SRC nc|ENSG00000197122|P12931-3|SRC nc|ENSG00000197122|P12931-3|SRC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.1358642578125 3 490.922467 1469.74557 NaN NaN NaN NaN NaN NaN NaN 76.619 1 76.619 76.119 77.119 0 0 0 0 1.0074 1 37554 37554 1.1098 0.48293 1 36647 9801 23348 23420 41100 41100 0.029487257598930228 VSQYKFYWKIW 11 Unmodified _VSQYKFYWKIW_ 0 0 0 NOC3L|p.L309Wfs*16|1|0.31|ENSG00000173145|chr10:94352336-94352336|A/-|frameshift_variant NOC3L|p.L309Wfs*16|1|0.31|ENSG00000173145|chr10:94352336-94352336|A/-|frameshift_variant NOC3L|p.L309Wfs*16|1|0.31|ENSG00000173145|chr10:94352336-94352336|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1548.0615234375 1 1547.80455 1546.79727 3.3491 0.0051838 -3.0899 -0.0047825 0.25925 0.00040127 1548.8067620159986 34.945 0.074337 35.568 35.557 35.631 0.62294 7 5 2 0 0 0 0.91068 1 16011 16011 1.3295 0.9789 1 1435000 36648 9897 23349 23421 41101 41101 0.045744694537916075 VSRERQLIVR 10 Unmodified _VSRERQLIVR_ 0 0 0 nc|ENSG00000177103|Q8TD84-2|DSCAML1;ENSG00000177103|ENST00000651296|DSCAML1 nc|ENSG00000177103|Q8TD84-2|DSCAML1 nc|ENSG00000177103|Q8TD84-2|DSCAML1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 628.8876342773438 2 628.383303 1254.75205 4.0956 0.0025736 -0.48717 -0.00030613 3.6084 0.0022674 628.3827896669425 89.994 1.1969 90.246 89.54 90.737 0.25136 85 56 3 0 0 0 0.93788 1 41273 41273 1.3295 0 1 1529500 36649 5103 23350 23422 41102 41102 0.13486663711250912 VSRFSRWLFLV 11 Unmodified _VSRFSRWLFLV_ 0 0 0 REV__CTAGE1|p.A429Sfs*3|1|0.31|ENSG00000212710|chr18:22416527-22416528|-/T|frameshift_variant REV__CTAGE1|p.A429Sfs*3|1|0.31|ENSG00000212710|chr18:22416527-22416528|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 705.4058227539062 2 705.406247 1408.79794 NaN NaN NaN NaN NaN NaN NaN 77.379 1 77.94 77.44 78.44 0.56091 0 0 0 1.0072 1 37532 37532 1.3295 0 1 + 36650 10116 23351 23423 41103 41103 0.10989308893499583 VSRILKQPR 9 Unmodified _VSRILKQPR_ 0 0 0 DNAH7|p.I2326V|1|0.42|ENSG00000118997|chr2:195864679-195864679|T/C|missense_variant DNAH7|p.I2326V|1|0.42|ENSG00000118997|chr2:195864679-195864679|T/C|missense_variant DNAH7|p.I2326V|1|0.42|ENSG00000118997|chr2:195864679-195864679|T/C|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.238525390625 3 366.236497 1095.68766 2.2937 0.00084002 3.0792 0.0011277 5.3729 0.0019677 366.2374308764981 43.01 0.066399 43.824 43.807 43.873 0.81444 11 8 2 0 0 0 1.0041 1 19586 19586 2.2828 0 1 2653100 36651 272 23352 23424 41104 41104 0.14364508625135386 VSRILKQPR 9 Unmodified _VSRILKQPR_ 0 0 0 DNAH7|p.I2326V|1|0.42|ENSG00000118997|chr2:195864679-195864679|T/C|missense_variant DNAH7|p.I2326V|1|0.42|ENSG00000118997|chr2:195864679-195864679|T/C|missense_variant DNAH7|p.I2326V|1|0.42|ENSG00000118997|chr2:195864679-195864679|T/C|missense_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 366.236497 1095.68766 2.6537 0.00097188 4.6546 0.0017047 7.3083 0.0026766 366.2382054202639 43.768 0.24502 43.768 43.593 43.838 0 0.036386 -0.0002317 NaN 2.2828 30 19 2 NaN NaN NaN NaN 0 NaN NaN 0 2649000 36652 272 23352 23424 0.14364508625135386 VSRILKQPR 9 Unmodified _VSRILKQPR_ 0 0 0 DNAH7|p.I2326V|1|0.42|ENSG00000118997|chr2:195864679-195864679|T/C|missense_variant DNAH7|p.I2326V|1|0.42|ENSG00000118997|chr2:195864679-195864679|T/C|missense_variant DNAH7|p.I2326V|1|0.42|ENSG00000118997|chr2:195864679-195864679|T/C|missense_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 366.236497 1095.68766 2.5964 0.00095091 5.1141 0.001873 7.7105 0.0028239 366.57259279771057 43.332 0.46838 43.603 43.515 43.984 0.27021 -0.12902 0.00027318 NaN 2.2828 42 25 2 NaN NaN NaN NaN 0 NaN NaN 0 1522200 36653 272 23352 23424 0.14364508625135386 VSRITSPIP 9 Unmodified _VSRITSPIP_ 0 0 0 REV__nc|ENSG00000165478|Q14CZ8-2|HEPACAM REV__nc|ENSG00000165478|Q14CZ8-2|HEPACAM MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.2890625 2 485.290017 968.565481 NaN NaN NaN NaN NaN NaN NaN 43.725 1 43.994 43.494 44.494 0.2694 0 0 0 0.89509 1 19970 19970 4.756 0.42677 1 + 36654 18023 23353 23425 41105 41105 0.07994046822898326 VSRLVLIVLN 10 Unmodified _VSRLVLIVLN_ 0 0 0 ENST00000420415.5_2_3:195778734-195778773:-|nuORF ENST00000420415.5_2_3:195778734-195778773:-|nuORF ENST00000420415.5_2_3:195778734-195778773:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.4009399414062 2 563.371341 1124.72813 NaN NaN NaN NaN NaN NaN NaN 70.321 1 70.321 69.821 70.821 0 0 0 0 0.99774 1 34100 34100 3.5965 0 1 36655 7749 23354 23426 41106 41106 0.17075430224895172 VSRMKPWQ 8 Unmodified _VSRMKPWQ_ 0 0 0 ENSG00000021776|ENST00000156471|AQR ENSG00000021776|ENST00000156471|AQR ENSG00000021776|ENST00000156471|AQR MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1032.5557861328125 1 1031.5455 1030.53822 3.6526 0.0037678 1.2657 0.0013056 4.9183 0.0050735 1032.5532641598866 64.364 0.17316 65.02 64.899 65.072 0.65672 14 9 2 0 0 0 0.65723 1 29521 29521 9.3474 1.4373 1 1221300 36656 461 23355 23427 41107 41107 0.024172400108682268 VSRMLRLVPPR 11 Unmodified _VSRMLRLVPPR_ 0 0 0 REV__ENSG00000125384|ENST00000245457|PTGER2 REV__ENSG00000125384|ENST00000245457|PTGER2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 442.2754211425781 3 441.939575 1322.79689 2.8084 0.0012411 0.46507 0.00020553 3.2735 0.0014467 442.2743088428911 55.511 0.19276 55.511 55.459 55.652 0 21 14 2 0 0 0 0.86022 1 25536 25536 1.9275 0.81775 1 2181700 + 36657 11677 23356 23428 41108 41108 0.14840771252920604 VSRMLRLVPPR 11 Unmodified _VSRMLRLVPPR_ 0 0 0 REV__ENSG00000125384|ENST00000245457|PTGER2 REV__ENSG00000125384|ENST00000245457|PTGER2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 441.939575 1322.79689 2.8084 0.0012411 0.46507 0.00020553 3.2735 0.0014467 442.2743088428911 55.511 0.19276 55.511 55.459 55.652 0 0 0 NaN 1.9275 21 14 2 NaN NaN NaN NaN 0 NaN NaN 0 2181700 + 36658 11677 23356 23428 0.14840771252920604 VSRRRQFL 8 Unmodified _VSRRRQFL_ 0 0 0 nc|ENSG00000124615|Q9NZB8-3|MOCS1;nc|ENSG00000124615|Q9NZB8-6|MOCS1;nc|ENSG00000124615|Q9NZB8-5|MOCS1;nc|ENSG00000124615|Q9NZB8-2|MOCS1;nc|ENSG00000124615|Q9NZB8-8|MOCS1;ENSG00000124615|ENST00000340692|MOCS1 nc|ENSG00000124615|Q9NZB8-3|MOCS1 nc|ENSG00000124615|Q9NZB8-3|MOCS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.3212890625 2 531.319974 1060.6254 3.4249 0.0018197 -0.7121 -0.00037835 2.7128 0.0014413 531.319549854347 89.436 0.89019 90.115 89.865 90.755 0.67818 88 43 3 0 0 0 0.73686 1 41304 41304 2.8892 0 1 2426300 36659 2372 23357 23429 41109 41109 0.09750782276796599 VSRRRQFL 8 Unmodified _VSRRRQFL_ 0 0 0 nc|ENSG00000124615|Q9NZB8-3|MOCS1;nc|ENSG00000124615|Q9NZB8-6|MOCS1;nc|ENSG00000124615|Q9NZB8-5|MOCS1;nc|ENSG00000124615|Q9NZB8-2|MOCS1;nc|ENSG00000124615|Q9NZB8-8|MOCS1;ENSG00000124615|ENST00000340692|MOCS1 nc|ENSG00000124615|Q9NZB8-3|MOCS1 nc|ENSG00000124615|Q9NZB8-3|MOCS1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 531.319974 1060.6254 3.4249 0.0018197 -0.7121 -0.00037835 2.7128 0.0014413 531.319549854347 89.436 0.89019 90.115 89.865 90.755 0.67818 0.038081 0.00011844 NaN 2.8892 88 43 3 NaN NaN NaN NaN 0 NaN NaN 0 2426300 36660 2372 23357 23429 0.09750782276796599 VSRRRQFLR 9 Unmodified _VSRRRQFLR_ 0 0 0 nc|ENSG00000124615|Q9NZB8-3|MOCS1;nc|ENSG00000124615|Q9NZB8-6|MOCS1;nc|ENSG00000124615|Q9NZB8-5|MOCS1;nc|ENSG00000124615|Q9NZB8-2|MOCS1;nc|ENSG00000124615|Q9NZB8-8|MOCS1;ENSG00000124615|ENST00000340692|MOCS1 nc|ENSG00000124615|Q9NZB8-3|MOCS1 nc|ENSG00000124615|Q9NZB8-3|MOCS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 609.7844848632812 2 609.37053 1216.72651 NaN NaN NaN NaN NaN NaN NaN 60.403 1 61.152 60.652 61.652 0.74927 0 0 0 0.86044 1 27862 27862 7.2892 0 1 36661 2372 23358 23430 41110 41110 0.1268123397949239 VSRSGPST 8 Unmodified _VSRSGPST_ 0 0 0 nc|ENSG00000105976|P08581-3|MET;ENSG00000105976|ENST00000397752|MET;nc|ENSG00000105976|P08581-2|MET nc|ENSG00000105976|P08581-3|MET nc|ENSG00000105976|P08581-3|MET MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.7069091796875 2 395.706317 789.398081 2.9184 0.0011548 -2.0319 -0.00080403 0.88652 0.0003508 395.7057701465519 79.453 0.31657 80.114 79.944 80.261 0.66082 29 21 2 0 0 0 0.74071 1 36615 36615 2.5775 0 1 493080 36662 1545 23359 23431 41111 41111 -0.005042207218707517 VSSLWESPVI 10 Unmodified _VSSLWESPVI_ 0 0 0 REV__ENSG00000244234|ENST00000463439|GMCL2 REV__ENSG00000244234|ENST00000463439|GMCL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 558.8013305664062 2 558.800414 1115.58628 NaN NaN NaN NaN NaN NaN NaN 80.212 1 80.461 79.961 80.961 0.24947 0 0 0 0.97102 1 36933 36933 10.074 3.3508 1 + 36663 14635 23360 23432 41112 41112 0.033105924118899566 VSTLCQKV 8 Unmodified _VSTLCQKV_ 0 0 0 REV__ENST00000414292.5_1_7:99935872-99936563:+|nuORF REV__ENST00000414292.5_1_7:99935872-99936563:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 439.2455749511719 2 439.244221 876.473888 2.8881 0.0012686 0.2713 0.00011917 3.1594 0.0013878 439.2443245810452 29.953 0.19398 30.742 30.651 30.845 0.78921 29 18 2 0 0 0 0.51067 1 13561 13561 20.454 1.0146 1 493690 + 36664 16122 23361 23433 41113 41113 0.030710401340684257 VSTLCQKV 8 Unmodified _VSTLCQKV_ 0 0 0 REV__ENST00000414292.5_1_7:99935872-99936563:+|nuORF REV__ENST00000414292.5_1_7:99935872-99936563:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 439.746337890625 2 439.244221 876.473888 3.2763 0.0014391 0.8224 0.00036123 4.0987 0.0018003 439.2445798495368 30.643 0.20552 30.899 30.793 30.999 0.25614 22 15 2 0 0 0 0.58952 1 13944 13944 14.838 0.93222 1 165410 + 36665 16122 23361 23433 41114 41114 0.030710401340684257 VSTTVPCA 8 Unmodified _VSTTVPCA_ 0 0 0 REV__ENSG00000198218|ENST00000395443|QRICH1 REV__ENSG00000198218|ENST00000395443|QRICH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.1951599121094 2 389.194196 776.37384 NaN NaN NaN NaN NaN NaN NaN 87.599 1 87.85 87.35 88.35 0.25064 0 0 0 0.99035 1 40314 40314 2.5775 0 1 + 36666 14329 23362 23434 41115 41115 -0.023291971997537075 VSTTVPCA 8 Unmodified _VSTTVPCA_ 0 0 0 REV__ENSG00000198218|ENST00000395443|QRICH1 REV__ENSG00000198218|ENST00000395443|QRICH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.1943359375 2 389.194196 776.37384 NaN NaN NaN NaN NaN NaN NaN 87.045 1 87.721 87.221 88.221 0.67555 0 0 0 0.99035 1 40094 40094 2.5775 0 1 + 36667 14329 23362 23434 41116 41116 -0.023291971997537075 VSTYVNAAYA 10 Unmodified _VSTYVNAAYA_ 0 0 0 REV__nc|ENSG00000013288|Q9Y2E5-2|MAN2B2 REV__nc|ENSG00000013288|Q9Y2E5-2|MAN2B2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.761962890625 2 529.761289 1057.50803 3.201 0.0016957 -1.8304 -0.00096968 1.3706 0.00072607 529.7601223820799 37.466 0.78426 38.096 37.889 38.673 0.62999 32 19 2 0 0 0 0.55057 1 17138 17138 19.257 3.4098 1 585530 + 36668 10246 23363 23435 41117 41117 -0.018428401733444844 VSVGESPGP 9 Unmodified _VSVGESPGP_ 0 0 0 ENSG00000205978|ENST00000382554|NYNRIN ENSG00000205978|ENST00000382554|NYNRIN ENSG00000205978|ENST00000382554|NYNRIN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 828.41357421875 1 828.409774 827.402498 4.3468 0.0036009 -0.14096 -0.00011677 4.2058 0.0034841 828.4098288578782 31.489 0.5134 31.745 31.588 32.101 0.25614 59 39 2 0 0 0 0.54955 1 14411 14411 11.64 2.2929 1 259230 36669 6064 23364 23436 41118 41118 -0.018107562989484904 VSVGESPGP 9 Unmodified _VSVGESPGP_ 0 0 0 ENSG00000205978|ENST00000382554|NYNRIN ENSG00000205978|ENST00000382554|NYNRIN ENSG00000205978|ENST00000382554|NYNRIN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 828.4122314453125 1 828.409774 827.402498 3.9483 0.0032708 0.17508 0.00014504 4.1234 0.0034159 828.4101933761411 31.073 0.45304 31.691 31.505 31.958 0.61737 40 29 2 0 0 0 0.3144 1 14253 14253 15.847 1.2655 1 319230 36670 6064 23364 23436 41119 41119 -0.018107562989484904 VSVLILSLL 9 Unmodified _VSVLILSLL_ 0 0 0 REV__nc|ENSG00000240184|Q9UN70-2|PCDHGC3 REV__nc|ENSG00000240184|Q9UN70-2|PCDHGC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.7796630859375 2 478.823161 955.631769 NaN NaN NaN NaN NaN NaN NaN 65.667 1 66.376 65.876 66.876 0.70891 0 0 0 0.91238 1 31075 31075 0.52476 0 1 + 36671 14605 23365 23437 41120 41120 0.15217862664962922 VSVLILSLL 9 Unmodified _VSVLILSLL_ 0 0 0 REV__nc|ENSG00000240184|Q9UN70-2|PCDHGC3 REV__nc|ENSG00000240184|Q9UN70-2|PCDHGC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.8137512207031 2 478.823161 955.631769 NaN NaN NaN NaN NaN NaN NaN 66.945 1 67.65 67.15 68.15 0.7047 0 0 0 0.91238 1 31766 31766 0.52476 0 1 + 36672 14605 23365 23437 41121 41121 0.15217862664962922 VSVLRSDVV 9 Unmodified _VSVLRSDVV_ 0 0 0 REV__nc|ENSG00000002746|Q76N89-2|HECW1 REV__nc|ENSG00000002746|Q76N89-2|HECW1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 325.19512939453125 3 325.194075 972.560395 NaN NaN NaN NaN NaN NaN NaN 14.327 1 14.634 14.134 15.134 0.3069 0 0 0 0.86044 1 6484 6484 4.5289 2.0304 1 + 36673 10159 23366 23438 41122 41122 0.07301742960282809 VSVPIPVIGLR 11 Unmodified _VSVPIPVIGLR_ 0 0 0 ENSG00000147246|ENST00000276198|HTR2C ENSG00000147246|ENST00000276198|HTR2C ENSG00000147246|ENST00000276198|HTR2C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 383.9159851074219 3 383.916653 1148.72813 NaN NaN NaN NaN NaN NaN NaN 63.897 1 63.897 63.397 64.397 0 0 0 0 1.0072 1 30144 30144 1.3296 0 1 36674 3555 23367 23439 41123 41123 0.1597143022486307 VSVQIPLL 8 Unmodified _VSVQIPLL_ 0 0 0 REV__ENST00000596456.1_1_19:40948326-40950148:-|nuORF REV__ENST00000596456.1_1_19:40948326-40950148:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 435.2787170410156 2 434.778754 867.542954 3.0125 0.0013098 0.19438 8.4511E-05 3.2069 0.0013943 434.78008068772994 37.286 1.129 37.547 36.994 38.123 0.26083 84 36 4 0 0 0 0.70146 1 17045 17045 5.7604 0 1 692050 + 36675 17614 23368 23440 41124 41124 0.10388447425293634 VSVRRRRRRLR 11 Unmodified _VSVRRRRRRLR_ 0 0 0 REV__ENST00000532004.5_1_11:810000-812833:+|nuORF REV__ENST00000532004.5_1_11:810000-812833:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 755.4624633789062 2 755.492908 1508.97126 NaN NaN NaN NaN NaN NaN NaN 95.694 1 95.776 95.276 96.276 0.082001 0 0 0 1.0082 1 50645 50645 0 0 1 + 36676 17146 23369 23441 41125 41125 0.23713532513124846 VSVSRKHI 8 Unmodified _VSVSRKHI_ 0 0 0 REV__ENSG00000143344|ENST00000360851|RGL1 REV__ENSG00000143344|ENST00000360851|RGL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 309.5372619628906 3 309.190776 924.550499 1.9816 0.0006127 -2.4402 -0.0007545 -0.45861 -0.0001418 309.18916194992386 39.279 0.23189 39.279 39.203 39.434 0 10 8 2 0 0 0 0.1432 1 17854 17854 1.4819 0 1 164460 + 36677 12363 23370 23442 41126 41126 0.0852059974556596 VSVVSGVKC 9 Unmodified _VSVVSGVKC_ 0 0 0 REV__ENSG00000144136|ENST00000272542|SLC20A1 REV__ENSG00000144136|ENST00000272542|SLC20A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 439.2455749511719 2 439.244221 876.473888 2.8881 0.0012686 0.2713 0.00011917 3.1594 0.0013878 439.2443245810452 29.953 0.19398 30.742 30.651 30.845 0.78921 29 18 2 0 0 0 0.10837 1 13513 13513 30.637 0 1 493690 + 36678 12393 23371 23443 41127 41127 0.030710401340684257 VSWILQDRKYF 11 Unmodified _VSWILQDRKYF_ 0 0 0 REV__nc|ENSG00000129003|Q709C8-2|VPS13C REV__nc|ENSG00000129003|Q709C8-2|VPS13C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.5990905761719 3 485.597871 1453.77178 NaN NaN NaN NaN NaN NaN NaN 83.076 1 83.121 82.621 83.621 0.045006 0 0 0 1.0061 1 41141 41141 1.1098 0 1 + 36679 11776 23372 23444 41128 41128 0.06304994931360852 VSWKVVHF 8 Unmodified _VSWKVVHF_ 0 0 0 ENST00000523232.1_1_8:137528301-137531442:+|nuORF ENST00000523232.1_1_8:137528301-137531442:+|nuORF ENST00000523232.1_1_8:137528301-137531442:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.28240966796875 2 501.281995 1000.54944 NaN NaN NaN NaN NaN NaN NaN 68.313 1 68.565 68.065 69.065 0.25227 0 0 0 0.99035 1 31294 31294 4.756 0.42677 1 36680 8656 23373 23445 41129 41129 0.049183853766635366 VSYRSRLRRLH 11 Unmodified _VSYRSRLRRLH_ 0 0 0 REV__ENSG00000164976|ENST00000297625|MYORG REV__ENSG00000164976|ENST00000297625|MYORG MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.6194152832031 3 481.619892 1441.83785 NaN NaN NaN NaN NaN NaN NaN 98.32 1 98.919 98.419 99.419 0.59885 0 0 0 1.0079 1 45316 45316 0.50596 0.051438 1 + 36681 13124 23374 23446 41130 41130 0.1346024861677506 VSYVLTLI 8 Unmodified _VSYVLTLI_ 0 0 0 REV__ENSG00000176198|ENST00000641082|OR11H4 REV__ENSG00000176198|ENST00000641082|OR11H4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 303.1902160644531 3 303.18815 906.54262 NaN NaN NaN NaN NaN NaN NaN 35.75 1 36.541 36.041 37.041 0.79131 0 0 0 0.99035 1 16203 16203 0.40072 0 1 + 36682 13696 23375 23447 41131 41131 0.08561027705434299 VTAASASL 8 Unmodified _VTAASASL_ 0 0 0 ENSG00000140519|ENST00000268122|RHCG ENSG00000140519|ENST00000268122|RHCG ENSG00000140519|ENST00000268122|RHCG MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.86297607421875 2 360.200336 718.386119 NaN NaN NaN NaN NaN NaN NaN 23.14 1 23.78 23.28 24.28 0.64051 0 0 0 0.79116 1 10555 10555 19.439 0 1 36683 3204 23376 23448 41132 41132 0.015661625349594033 VTAPDVEVSL 10 Unmodified _VTAPDVEVSL_ 0 0 0 AHNAK2|p.S4999Lfs*33|1|0.15|ENSG00000185567|chr14:104940456-104940456|A/-|frameshift_variant;AHNAK2|p.A5000Pfs*32|1|0.13|ENSG00000185567|chr14:104940454-104940454|A/-|frameshift_variant;nc|ENSG00000185567|Q8IVF2-3|AHNAK2;ENSG00000185567|ENST00000333244|AHNAK2 AHNAK2|p.S4999Lfs*33|1|0.15|ENSG00000185567|chr14:104940456-104940456|A/-|frameshift_variant AHNAK2|p.S4999Lfs*33|1|0.15|ENSG00000185567|chr14:104940456-104940456|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.2786865234375 2 515.276772 1028.53899 3.3102 0.0017056 -0.10836 -5.5836E-05 3.2018 0.0016498 515.2768915732266 37.861 0.33579 38.657 38.507 38.843 0.79552 27 11 3 0 0 0 0.10303 1 17143 17143 52.268 4.5197 1 915560 36684 19 23377 23449 41133 41133 0.02586313140909624 VTAPDVEVSL 10 Unmodified _VTAPDVEVSL_ 0 0 0 AHNAK2|p.S4999Lfs*33|1|0.15|ENSG00000185567|chr14:104940456-104940456|A/-|frameshift_variant;AHNAK2|p.A5000Pfs*32|1|0.13|ENSG00000185567|chr14:104940454-104940454|A/-|frameshift_variant;nc|ENSG00000185567|Q8IVF2-3|AHNAK2;ENSG00000185567|ENST00000333244|AHNAK2 AHNAK2|p.S4999Lfs*33|1|0.15|ENSG00000185567|chr14:104940456-104940456|A/-|frameshift_variant AHNAK2|p.S4999Lfs*33|1|0.15|ENSG00000185567|chr14:104940456-104940456|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.2802734375 2 515.276772 1028.53899 3.2492 0.0016742 -0.24889 -0.00012825 3.0003 0.001546 515.2773789727215 38.61 0.37146 38.874 38.656 39.028 0.26408 29 14 3 0 0 0 0.065124 1 17562 17562 58.679 3.1761 1 1136900 36685 19 23377 23449 41134 41134 0.02586313140909624 VTDALEIFV 9 Unmodified _VTDALEIFV_ 0 0 0 REV__ENSG00000198883|ENST00000535214|PNMA5 REV__ENSG00000198883|ENST00000535214|PNMA5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.7784729003906 2 503.776408 1005.53826 3.108 0.0015658 0.43202 0.00021764 3.5401 0.0017834 503.77645665313196 82.361 0.50497 82.608 82.46 82.965 0.24722 53 26 3 0 0 0 0.086747 1 37952 37952 36.044 1.9418 1 1944200 + 36686 14375 23378 23450 41135 41135 0.03571518491855841 VTDENMDDD 9 Unmodified _VTDENMDDD_ 0 0 0 REV__ENST00000520674.5_1_5:141017792-141019494:+|nuORF REV__ENST00000520674.5_1_5:141017792-141019494:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.1906127929688 2 527.187494 1052.36043 NaN NaN NaN NaN NaN NaN NaN 19.158 1 19.456 18.956 19.956 0.29753 0 0 0 0.90611 1 8708 8708 2.0598 0 1 + 36687 13101 23379 23451 41136 41136 -0.163651445602909 VTEEEVLVL 9 Unmodified _VTEEEVLVL_ 0 0 0 ENST00000265362.8_1_7:83824041-83824080:-|nuORF ENST00000265362.8_1_7:83824041-83824080:-|nuORF ENST00000265362.8_1_7:83824041-83824080:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.7890625 2 515.786973 1029.55939 3.3906 0.0017488 0.90721 0.00046793 4.2978 0.0022168 515.7875358031149 36.095 0.41496 36.887 36.757 37.172 0.79131 20 16 2 0 0 0 0.15661 1 16379 16379 28.487 5.3384 1 298510 36688 6620 23380 23452 41137 41137 0.04579483800716844 VTEEEVLVL 9 Unmodified _VTEEEVLVL_ 0 0 0 ENST00000265362.8_1_7:83824041-83824080:-|nuORF ENST00000265362.8_1_7:83824041-83824080:-|nuORF ENST00000265362.8_1_7:83824041-83824080:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.7901000976562 2 515.786973 1029.55939 3.541 0.0018264 1.9182 0.0009894 5.4592 0.0028158 515.7879076243929 36.945 0.33014 37.203 37.05 37.38 0.25768 18 10 3 0 0 0 0.099775 2 16807 16807;16877 36.044 5.8194 1 405950 36689 6620 23380 23452 41138;41139 41138 0.04579483800716844 VTFLDRLLIWL 11 Unmodified _VTFLDRLLIWL_ 0 0 0 nc|ENSG00000081377|O60729-3|CDC14B nc|ENSG00000081377|O60729-3|CDC14B nc|ENSG00000081377|O60729-3|CDC14B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 695.184814453125 2 694.918655 1387.82276 3.0514 0.0021205 0.99052 0.00068833 4.0419 0.0028088 694.9195926387623 78.974 0.017258 79.438 79.423 79.441 0.4642 4 2 2 0 0 0 0.13295 1 38488 38488 0.30703 0 1 12856000 36690 9565 23381 23453 41140 41140 0.14435943976241106 VTFLMDNYQ 9 Unmodified _VTFLMDNYQ_ 0 0 0 ENST00000512078.5_1_5:59893582-59984814:-|nuORF;nc|ENSG00000035499|Q8WUY9-2|DEPDC1B;ENSG00000035499|ENST00000265036|DEPDC1B ENST00000512078.5_1_5:59893582-59984814:-|nuORF ENST00000512078.5_1_5:59893582-59984814:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.7649536132812 2 565.762975 1129.5114 NaN NaN NaN NaN NaN NaN NaN 55.41 1 55.41 54.91 55.91 0 0 0 0 0.89683 1 25463 25463 4.3292 1.0479 1 36691 509 23382 23454 41141 41141 -0.048179133910025485 VTFLVHPG 8 Unmodified _VTFLVHPG_ 0 0 0 ENST00000367104.7_1_6:158532036-158532303:-|nuORF ENST00000367104.7_1_6:158532036-158532303:-|nuORF ENST00000367104.7_1_6:158532036-158532303:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.2484436035156 2 435.247621 868.480688 3.025 0.0013166 -0.10368 -4.5127E-05 2.9213 0.0012715 435.2474877556256 54.93 0.42926 55.596 55.46 55.889 0.6665 34 17 2 0 0 0 0.7471 1 25118 25118 0.79363 0 1 700590 36692 7250 23383 23455 41142 41142 0.04118721076940801 VTFRDVLKMT 10 Unmodified _VTFRDVLKMT_ 0 0 0 ENST00000568302.5_1_13:76178996-76179032:-|nuORF ENST00000568302.5_1_13:76178996-76179032:-|nuORF ENST00000568302.5_1_13:76178996-76179032:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 605.3416137695312 2 605.336641 1208.65873 NaN NaN NaN NaN NaN NaN NaN 73.874 1 73.874 73.374 74.374 0 0 0 0 0.98317 1 36044 36044 8.1555 1.4324 1 36693 9066 23384 23456 41143 41143 0.06274603213819319 VTGKLLVKP 9 Unmodified _VTGKLLVKP_ 0 0 0 ENST00000547670.5_1_12:49494396-49503620:-|nuORF;nc|ENSG00000139636|Q6UX01-5|LMBR1L;ENST00000550867.5_1_12:49494935-49504419:-|nuORF;nc|ENSG00000139636|Q6UX01-3|LMBR1L;nc|ENSG00000139636|Q6UX01-4|LMBR1L;nc|ENSG00000139636|Q6UX01-2|LMBR1L;ENSG00000139636|ENST00000267102|LMBR1L;ENST00000552879.5_1_12:49494935-49496886:-|nuORF;ENST00000552141.5_1_12:49495806-49497560:-|nuORF ENST00000547670.5_1_12:49494396-49503620:-|nuORF ENST00000547670.5_1_12:49494396-49503620:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.8246154785156 2 477.820953 953.627353 NaN NaN NaN NaN NaN NaN NaN 35.314 1 35.314 34.814 35.814 0 0 0 0 0.91206 1 16022 16022 0.6015 0 1 36694 3156 23385 23457 41144 41144 0.14868398242049352 VTGQCPCHGE 10 Unmodified _VTGQCPCHGE_ 0 0 0 ENST00000475469.1_1_7:107703197-107763609:-|nuORF;nc|ENSG00000091128|A4D0S4-3|LAMB4;ENSG00000091128|ENST00000388781|LAMB4 ENST00000475469.1_1_7:107703197-107763609:-|nuORF ENST00000475469.1_1_7:107703197-107763609:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1030.580322265625 1 1030.40808 1029.4008 3.4335 0.0035379 2.2822 0.0023516 5.7157 0.0058895 1030.4091642132632 23.693 0.019432 23.969 23.957 23.976 0.27562 6 4 2 0 0 0 0.12676 1 10713 10713 6.7232 0.96273 1 25378000 36695 1071 23386 23458 41145 41145 -0.11272456650863205 VTGSGAAK 8 Unmodified _VTGSGAAK_ 0 0 0 ENST00000262662.5_1_1:51434456-51434999:+|nuORF ENST00000262662.5_1_1:51434456-51434999:+|nuORF ENST00000262662.5_1_1:51434456-51434999:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 345.6950378417969 2 345.692678 689.370804 NaN NaN NaN NaN NaN NaN NaN 39.143 1 39.941 39.441 40.441 0.79762 0 0 0 0.99035 1 17722 17722 0.69038 0 1 36696 6579 23387 23459 41146 41146 0.013692957377656967 VTGSSRVPLQ 10 Unmodified _VTGSSRVPLQ_ 0 0 0 ENST00000582081.5_1_17:62541968-62590137:-|nuORF;ENSG00000108854|ENST00000262435|SMURF2 ENST00000582081.5_1_17:62541968-62590137:-|nuORF ENST00000582081.5_1_17:62541968-62590137:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.87786865234375 3 348.532979 1042.57711 2.5038 0.00087265 -1.7038 -0.00059385 0.79993 0.0002788 348.865952754302 14.72 0.048907 15.374 15.356 15.405 0.65356 6 4 2 0 0 0 0.68517 1 6634 6634 16.566 4.3911 1 102940 36697 1657 23388 23460 41147 41147 0.057522438462456194 VTGVLQKQ 8 Unmodified _VTGVLQKQ_ 0 0 0 REV__ENSG00000146909|ENST00000275820|NOM1 REV__ENSG00000146909|ENST00000275820|NOM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 436.7647399902344 2 436.763635 871.512717 3.1999 0.0013976 0.24873 0.00010864 3.4486 0.0015062 436.76367520246106 29.166 0.34147 29.166 28.995 29.336 0 57 26 3 0 0 0 0.12673 1 13165 13165 50.855 2.5092 1 598070 + 36698 12487 23389 23461 41148 41148 0.071820887600893 VTGVLQKQ 8 Unmodified _VTGVLQKQ_ 0 0 0 REV__ENSG00000146909|ENST00000275820|NOM1 REV__ENSG00000146909|ENST00000275820|NOM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.764404296875 2 436.763635 871.512717 2.87 0.0012535 0.17965 7.8467E-05 3.0496 0.001332 436.76370267522384 28.235 0.21604 29.021 28.921 29.137 0.78627 25 17 2 0 0 0 0.12673 1 12715 12715 50.855 0.92203 1 881690 + 36699 12487 23389 23461 41149 41149 0.071820887600893 VTGVLQKQ 8 Unmodified _VTGVLQKQ_ 0 0 0 REV__ENSG00000146909|ENST00000275820|NOM1 REV__ENSG00000146909|ENST00000275820|NOM1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 436.763635 871.512717 2.87 0.0012535 0.17965 7.8467E-05 3.0496 0.001332 436.76370267522384 28.235 0.21604 29.021 28.921 29.137 0.78627 -0.12278 0.00014737 NaN 50.855 25 17 2 NaN NaN NaN NaN 0 NaN NaN 0 881690 + 36700 12487 23389 23461 0.071820887600893 VTGVLQKQ 8 Unmodified _VTGVLQKQ_ 0 0 0 REV__ENSG00000146909|ENST00000275820|NOM1 REV__ENSG00000146909|ENST00000275820|NOM1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 436.763635 871.512717 2.8983 0.0012659 -0.39584 -0.00017289 2.5024 0.001093 436.76339634688304 28.882 0.18692 29.143 29.068 29.255 0.2602 -0.0013236 -0.00035534 NaN 50.855 25 14 2 NaN NaN NaN NaN 0 NaN NaN 0 632790 + 36701 12487 23389 23461 0.071820887600893 VTGVLQKQ 8 Unmodified _VTGVLQKQ_ 0 0 0 REV__ENSG00000146909|ENST00000275820|NOM1 REV__ENSG00000146909|ENST00000275820|NOM1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 436.763635 871.512717 3.0282 0.0013226 -0.27769 -0.00012129 2.7505 0.0012013 436.7634691550607 28.627 0.30326 29.246 29.054 29.358 0.61947 0.10217 -0.00025214 NaN 50.855 26 14 2 NaN NaN NaN NaN 0 NaN NaN 0 301040 + 36702 12487 23389 23461 0.071820887600893 VTHWTFVLRW 10 Unmodified _VTHWTFVLRW_ 0 0 0 REV__ENSG00000119514|ENST00000375011|GALNT12 REV__ENSG00000119514|ENST00000375011|GALNT12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 672.86328125 2 672.864215 1343.71388 NaN NaN NaN NaN NaN NaN NaN 70.518 1 70.518 70.018 71.018 0 0 0 0 0.99774 1 34229 34229 3.5965 0 1 + 36703 11502 23390 23462 41150 41150 0.05576777796591159 VTILEWLS 8 Unmodified _VTILEWLS_ 0 0 0 ENST00000561059.5_1_14:24607297-24607330:+|nuORF;ENST00000561435.5_1_14:24606983-24607423:+|nuORF ENST00000561059.5_1_14:24607297-24607330:+|nuORF ENST00000561059.5_1_14:24607297-24607330:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.7735900878906 2 480.773668 959.532783 NaN NaN NaN NaN NaN NaN NaN 20.424 1 21.078 20.578 21.578 0.65346 0 0 0 0.99035 1 9274 9274 5.2307 0 1 36704 8981 23391 23463 41151 41151 0.05139839700041193 VTILLLLRLV 10 Unmodified _VTILLLLRLV_ 0 0 0 ENSG00000185899|ENST00000332690|TAS2R60 ENSG00000185899|ENST00000332690|TAS2R60 ENSG00000185899|ENST00000332690|TAS2R60 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 576.9073486328125 2 576.907559 1151.80057 NaN NaN NaN NaN NaN NaN NaN 75.585 1 76.249 75.749 76.749 0.6635 0 0 0 1.0015 1 36601 36601 0.45834 0 1 36705 5540 23392 23464 41152 41152 0.23073764298442256 VTIPALLAA 9 Unmodified _VTIPALLAA_ 0 0 0 ENST00000251473.9_1_19:11466164-11467636:+|nuORF ENST00000251473.9_1_19:11466164-11467636:+|nuORF ENST00000251473.9_1_19:11466164-11467636:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.7796936035156 2 434.778754 867.542954 2.8053 0.0012197 1.6678 0.00072512 4.4731 0.0019448 434.77928846109853 52.048 0.69341 52.311 51.761 52.454 0.26228 62 48 2 0 0 0 1.129 1 23706 23706 1.8442 0 1 963500 36706 6504 23393 23465 41153 41153 0.10388447425270897 VTIRKIIVVLK 11 Unmodified _VTIRKIIVVLK_ 0 0 0 ENST00000423695.6_1_5:10250480-10261980:+|nuORF ENST00000423695.6_1_5:10250480-10261980:+|nuORF ENST00000423695.6_1_5:10250480-10261980:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.4532470703125 2 641.452665 1280.89078 NaN NaN NaN NaN NaN NaN NaN 108.6 1 108.6 108.1 109.1 0 0 0 0 1.0072 1 59460 59460 1.3295 1.0225 1 36707 7781 23394 23466 41154 41154 0.26156813626903386 VTIVILIIILK 11 Unmodified _VTIVILIIILK_ 0 0 0 nc|ENSG00000144452|Q86UK0-2|ABCA12;ENSG00000144452|ENST00000272895|ABCA12 nc|ENSG00000144452|Q86UK0-2|ABCA12 nc|ENSG00000144452|Q86UK0-2|ABCA12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.22412109375 2 619.446517 1236.87848 NaN NaN NaN NaN NaN NaN NaN 79.252 1 79.572 79.072 80.072 0.31998 0 0 0 1.008 1 38700 38700 0.30703 0 1 36708 3426 23395 23467 41155 41155 0.2695177716384478 VTKGAGGG 8 Unmodified _VTKGAGGG_ 0 0 0 REV__ENSG00000176887|ENST00000322002|SOX11 REV__ENSG00000176887|ENST00000322002|SOX11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 323.6813049316406 2 323.679571 645.344589 1.8074 0.000585 2.7696 0.00089647 4.577 0.0014815 323.68061137640814 101.89 0.14534 101.89 101.86 102 0 7 5 2 0 0 0 0.7471 1 56292 56292 0 0 1 2446100 + 36709 13713 23396 23468 41156 41156 0.007730265662985403 VTKGAGGG 8 Unmodified _VTKGAGGG_ 0 0 0 REV__ENSG00000176887|ENST00000322002|SOX11 REV__ENSG00000176887|ENST00000322002|SOX11 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 323.1861572265625 2 323.679571 645.344589 3.1799 0.0010293 2.93 0.00094839 6.11 0.0019777 323.6806929372218 101.83 0.30701 102.14 101.98 102.29 0.31737 13 10 2 0 0 0 0.14355 1 47166 47166 0 0 1 2385500 + 36710 13713 23396 23468 41157 41157 0.007730265662985403 VTKGAGGG 8 Unmodified _VTKGAGGG_ 0 0 0 REV__ENSG00000176887|ENST00000322002|SOX11 REV__ENSG00000176887|ENST00000322002|SOX11 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 323.679571 645.344589 1.8074 0.000585 2.7696 0.00089647 4.577 0.0014815 323.68061137640814 101.89 0.14534 101.89 101.86 102 0 -0.12512 -6.5653E-05 NaN 0 7 5 2 NaN NaN NaN NaN 0 NaN NaN 0 2446100 + 36711 13713 23396 23468 0.007730265662985403 VTKGPGIV 8 Unmodified _VTKGPGIV_ 0 0 0 REV__ENSG00000110799|ENST00000261405|VWF REV__ENSG00000110799|ENST00000261405|VWF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 385.74603271484375 2 385.742171 769.469789 2.9922 0.0011542 3.6193 0.0013961 6.6114 0.0025503 385.7439940637462 102.76 0.062241 103.35 103.3 103.36 0.59759 4 2 2 0 0 0 0.73686 1 47555 47555 2.8892 0 1 727230 + 36712 11213 23397 23469 41158 41158 0.0758331870266602 VTKKRRRKRKT 11 Unmodified _VTKKRRRKRKT_ 0 0 0 REV__ENST00000297788.8_2_7:128455827-128457854:+|nuORF REV__ENST00000297788.8_2_7:128455827-128457854:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 728.5305786132812 2 728.986592 1455.95863 NaN NaN NaN NaN NaN NaN NaN 73.169 1 73.169 72.669 73.669 0 0 0 0 1.008 1 35638 35638 0.30703 0 1 + 36713 15167 23398 23470 41159 41159 0.24889076330237003 VTKRLKRR 8 Unmodified _VTKRLKRR_ 0 0 0 REV__nc|ENSG00000116793|Q9UMS5-2|PHTF1 REV__nc|ENSG00000116793|Q9UMS5-2|PHTF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.8853149414062 2 528.859267 1055.70398 NaN NaN NaN NaN NaN NaN NaN 54.856 1 54.856 54.356 55.356 0 0 0 0 0.99035 1 25183 25183 0.69038 0 1 + 36714 11421 23399 23471 41160 41160 0.1783563458188837 VTKRRCRLRKR 11 Unmodified _VTKRRCRLRKR_ 0 0 0 REV__ENSG00000101292|ENST00000678254|PROKR2 REV__ENSG00000101292|ENST00000678254|PROKR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 736.4649658203125 2 736.46497 1470.91539 NaN NaN NaN NaN NaN NaN NaN 39.984 1 40.251 39.751 40.751 0.26696 0 0 0 1.0082 1 18190 18190 0 0 1 + 36715 10882 23400 23472 41161 41161 0.19876563281286508 VTKRTLKI 8 Unmodified _VTKRTLKI_ 0 0 0 nc|ENSG00000120458|Q6P1R3-2|MSANTD2;nc|ENSG00000120458|Q6P1R3-3|MSANTD2;ENSG00000120458|ENST00000374979|MSANTD2 nc|ENSG00000120458|Q6P1R3-2|MSANTD2 nc|ENSG00000120458|Q6P1R3-2|MSANTD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.7543640136719 2 479.824027 957.633501 NaN NaN NaN NaN NaN NaN NaN 47.487 1 47.75 47.25 48.25 0.26363 0 0 0 0.99035 1 21699 21699 5.7604 0 1 36716 2191 23401 23473 41162 41162 0.15298916473545887 VTKRTRSL 8 Unmodified _VTKRTRSL_ 0 0 0 ENST00000372791.7_2_9:131255031-131255067:+|nuORF ENST00000372791.7_2_9:131255031-131255067:+|nuORF ENST00000372791.7_2_9:131255031-131255067:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.80242919921875 2 480.801083 959.587613 3.3128 0.0015928 -0.2109 -0.0001014 3.1019 0.0014914 480.8010231240279 90.557 0.65163 91.229 90.957 91.609 0.67271 120 34 5 0 0 0 0.7471 1 41745 41745 0 0 1 83654000 36717 7345 23402 23474 41163 41163 0.1062027129131593 VTLGILKLLI 10 Unmodified _VTLGILKLLI_ 0 0 0 ENST00000530023.5_2_11:31484759-31531097:-|nuORF ENST00000530023.5_2_11:31484759-31531097:-|nuORF ENST00000530023.5_2_11:31484759-31531097:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1082.7623291015625 1 1082.75474 1081.74747 3.5355 0.0038281 3.3171 0.0035916 6.8526 0.0074197 1082.7593668708791 37.864 0.13332 38.659 38.588 38.722 0.79552 5 4 2 0 0 0 0.94246 1 17155 17155 0.40072 0 1 245140 36718 8707 23403 23475 41164 41164 0.20986386515801314 VTLILLTAL 9 Unmodified _VTLILLTAL_ 0 0 0 REV__ENSG00000183762|ENST00000400335|KREMEN1 REV__ENSG00000183762|ENST00000400335|KREMEN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.8233337402344 2 478.823161 955.631769 1.7618 0.00084359 -1.4009 -0.00067077 0.36092 0.00017282 478.8226339620593 102.96 0.16194 103.02 102.97 103.13 0.055092 8 5 2 0 0 0 1.2459 1 55906 55906 0 0 1 276960 + 36719 13945 23404 23476 41165 41165 0.15217862664917448 VTLILNKLLRE 11 Unmodified _VTLILNKLLRE_ 0 0 0 ENST00000553440.1_1_15:27216658-27271989:+|nuORF;nc|ENSG00000182256|Q99928-2|GABRG3;ENSG00000182256|ENST00000615808|GABRG3 ENST00000553440.1_1_15:27216658-27271989:+|nuORF ENST00000553440.1_1_15:27216658-27271989:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 656.4194946289062 2 656.421562 1310.82857 NaN NaN NaN NaN NaN NaN NaN 40.895 1 41.698 41.198 42.198 0.80351 0 0 0 1.0074 1 18538 18538 1.0715 0.67075 1 36720 5324 23405 23477 41166 41166 0.18559042487868282 VTLIRKADL 9 Unmodified _VTLIRKADL_ 0 0 0 ENSG00000128731|ENST00000261609|HERC2 ENSG00000128731|ENST00000261609|HERC2 ENSG00000128731|ENST00000261609|HERC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.8287353515625 2 514.826766 1027.63898 NaN NaN NaN NaN NaN NaN NaN 30.73 1 31.347 30.847 31.847 0.61737 0 0 0 0.62812 1 14099 14099 14.838 0 1 36721 2525 23406 23478 41167 41167 0.12626595265373908 VTLKVTKKFRV 11 Unmodified _VTLKVTKKFRV_ 0 0 0 MEP1B|p.F573*|1|0.04|ENSG00000141434|chr18:32215220-32215226|TTATAAA/-|frameshift_variant;ENSG00000141434|ENST00000269202|MEP1B MEP1B|p.F573*|1|0.04|ENSG00000141434|chr18:32215220-32215226|TTATAAA/-|frameshift_variant MEP1B|p.F573*|1|0.04|ENSG00000141434|chr18:32215220-32215226|TTATAAA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 660.0133666992188 2 659.932097 1317.84964 NaN NaN NaN NaN NaN NaN NaN 108.2 1 108.2 107.7 108.7 0 0 0 0 1.0072 1 59290 59290 1.3295 0 1 36722 3251 23407 23479 41168 41168 0.20343052587372767 VTLLIYRRLRK 11 Unmodified _VTLLIYRRLRK_ 0 0 0 nc|ENSG00000122224|Q9HBG7-2|LY9;nc|ENSG00000122224|Q9HBG7-4|LY9;ENSG00000122224|ENST00000263285|LY9 nc|ENSG00000122224|Q9HBG7-2|LY9 nc|ENSG00000122224|Q9HBG7-2|LY9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 715.9214477539062 2 715.969545 1429.92454 NaN NaN NaN NaN NaN NaN NaN 109.19 1 109.23 108.73 109.73 0.041008 0 0 0 1.0072 1 58908 58908 1.3295 1.3295 1 36723 2262 23408 23480 41169 41169 0.22677235118635508 VTLLLGLLLP 10 Unmodified _VTLLLGLLLP_ 0 0 0 ENST00000316341.7_1_16:67977830-67978124:-|nuORF;LCAT|p.L338Pfs*24|1|0.24|ENSG00000213398|chr16:67940201-67940214|GCCCACGCCGTAAA/-|frameshift_variant;ENSG00000213398|ENST00000264005|LCAT ENST00000316341.7_1_16:67977830-67978124:-|nuORF ENST00000316341.7_1_16:67977830-67978124:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.2446594238281 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 29.324 1 29.324 28.824 29.824 0 0 0 0 1.002 1 13233 13233 0 0 1 36724 6089 23409 23481 41170 41170 0.18194411107424457 VTLLLGLLLP 10 Unmodified _VTLLLGLLLP_ 0 0 0 ENST00000316341.7_1_16:67977830-67978124:-|nuORF;LCAT|p.L338Pfs*24|1|0.24|ENSG00000213398|chr16:67940201-67940214|GCCCACGCCGTAAA/-|frameshift_variant;ENSG00000213398|ENST00000264005|LCAT ENST00000316341.7_1_16:67977830-67978124:-|nuORF ENST00000316341.7_1_16:67977830-67978124:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.2440490722656 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 30.704 1 30.704 30.204 31.204 0 0 0 0 1.002 1 13874 13874 0 0 1 36725 6089 23409 23481 41171 41171 0.18194411107424457 VTLLLGLLLP 10 Unmodified _VTLLLGLLLP_ 0 0 0 ENST00000316341.7_1_16:67977830-67978124:-|nuORF;LCAT|p.L338Pfs*24|1|0.24|ENSG00000213398|chr16:67940201-67940214|GCCCACGCCGTAAA/-|frameshift_variant;ENSG00000213398|ENST00000264005|LCAT ENST00000316341.7_1_16:67977830-67978124:-|nuORF ENST00000316341.7_1_16:67977830-67978124:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.2440490722656 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 32.181 1 32.181 31.681 32.681 0 0 0 0 1.002 1 14570 14570 0 0 1 36726 6089 23409 23481 41172 41172 0.18194411107424457 VTLLLGLLLP 10 Unmodified _VTLLLGLLLP_ 0 0 0 ENST00000316341.7_1_16:67977830-67978124:-|nuORF;LCAT|p.L338Pfs*24|1|0.24|ENSG00000213398|chr16:67940201-67940214|GCCCACGCCGTAAA/-|frameshift_variant;ENSG00000213398|ENST00000264005|LCAT ENST00000316341.7_1_16:67977830-67978124:-|nuORF ENST00000316341.7_1_16:67977830-67978124:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.24346923828125 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 32.309 1 32.309 31.809 32.809 0 0 0 0 1.002 1 14630 14630 0 0 1 36727 6089 23409 23481 41173 41173 0.18194411107424457 VTLLLGLLLP 10 Unmodified _VTLLLGLLLP_ 0 0 0 ENST00000316341.7_1_16:67977830-67978124:-|nuORF;LCAT|p.L338Pfs*24|1|0.24|ENSG00000213398|chr16:67940201-67940214|GCCCACGCCGTAAA/-|frameshift_variant;ENSG00000213398|ENST00000264005|LCAT ENST00000316341.7_1_16:67977830-67978124:-|nuORF ENST00000316341.7_1_16:67977830-67978124:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.2441711425781 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 32.432 1 32.432 31.932 32.932 0 0 0 0 1.002 1 14687 14687 0 0 1 36728 6089 23409 23481 41174 41174 0.18194411107424457 VTLLLGLLLP 10 Unmodified _VTLLLGLLLP_ 0 0 0 ENST00000316341.7_1_16:67977830-67978124:-|nuORF;LCAT|p.L338Pfs*24|1|0.24|ENSG00000213398|chr16:67940201-67940214|GCCCACGCCGTAAA/-|frameshift_variant;ENSG00000213398|ENST00000264005|LCAT ENST00000316341.7_1_16:67977830-67978124:-|nuORF ENST00000316341.7_1_16:67977830-67978124:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.24456787109375 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 32.547 1 32.547 32.047 33.047 0 0 0 0 1.002 1 14739 14739 0 0 1 36729 6089 23409 23481 41175 41175 0.18194411107424457 VTLLLGLLLP 10 Unmodified _VTLLLGLLLP_ 0 0 0 ENST00000316341.7_1_16:67977830-67978124:-|nuORF;LCAT|p.L338Pfs*24|1|0.24|ENSG00000213398|chr16:67940201-67940214|GCCCACGCCGTAAA/-|frameshift_variant;ENSG00000213398|ENST00000264005|LCAT ENST00000316341.7_1_16:67977830-67978124:-|nuORF ENST00000316341.7_1_16:67977830-67978124:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.2443542480469 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 33.044 1 33.044 32.544 33.544 0 0 0 0 1.002 1 14966 14966 0 0 1 36730 6089 23409 23481 41176 41176 0.18194411107424457 VTLLLGLLLP 10 Unmodified _VTLLLGLLLP_ 0 0 0 ENST00000316341.7_1_16:67977830-67978124:-|nuORF;LCAT|p.L338Pfs*24|1|0.24|ENSG00000213398|chr16:67940201-67940214|GCCCACGCCGTAAA/-|frameshift_variant;ENSG00000213398|ENST00000264005|LCAT ENST00000316341.7_1_16:67977830-67978124:-|nuORF ENST00000316341.7_1_16:67977830-67978124:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.2441101074219 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 27.752 1 28.538 28.038 29.038 0.78627 0 0 0 1.002 1 12485 12485 0 0 1 36731 6089 23409 23481 41177 41177 0.18194411107424457 VTLLLGLLLP 10 Unmodified _VTLLLGLLLP_ 0 0 0 ENST00000316341.7_1_16:67977830-67978124:-|nuORF;LCAT|p.L338Pfs*24|1|0.24|ENSG00000213398|chr16:67940201-67940214|GCCCACGCCGTAAA/-|frameshift_variant;ENSG00000213398|ENST00000264005|LCAT ENST00000316341.7_1_16:67977830-67978124:-|nuORF ENST00000316341.7_1_16:67977830-67978124:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.5779724121094 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 29.77 1 30.56 30.06 31.06 0.78921 0 0 0 1.002 1 13430 13430 0 0 1 36732 6089 23409 23481 41178 41178 0.18194411107424457 VTLLLGLLLP 10 Unmodified _VTLLLGLLLP_ 0 0 0 ENST00000316341.7_1_16:67977830-67978124:-|nuORF;LCAT|p.L338Pfs*24|1|0.24|ENSG00000213398|chr16:67940201-67940214|GCCCACGCCGTAAA/-|frameshift_variant;ENSG00000213398|ENST00000264005|LCAT ENST00000316341.7_1_16:67977830-67978124:-|nuORF ENST00000316341.7_1_16:67977830-67978124:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.2441711425781 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 29.993 1 30.783 30.283 31.283 0.78921 0 0 0 1.002 1 13537 13537 0 0 1 36733 6089 23409 23481 41179 41179 0.18194411107424457 VTLLLGLLLP 10 Unmodified _VTLLLGLLLP_ 0 0 0 ENST00000316341.7_1_16:67977830-67978124:-|nuORF;LCAT|p.L338Pfs*24|1|0.24|ENSG00000213398|chr16:67940201-67940214|GCCCACGCCGTAAA/-|frameshift_variant;ENSG00000213398|ENST00000264005|LCAT ENST00000316341.7_1_16:67977830-67978124:-|nuORF ENST00000316341.7_1_16:67977830-67978124:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.24383544921875 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 30.826 1 31.615 31.115 32.115 0.78879 0 0 0 1.002 1 13924 13924 0 0 1 36734 6089 23409 23481 41180 41180 0.18194411107424457 VTLLLGLLLP 10 Unmodified _VTLLLGLLLP_ 0 0 0 ENST00000316341.7_1_16:67977830-67978124:-|nuORF;LCAT|p.L338Pfs*24|1|0.24|ENSG00000213398|chr16:67940201-67940214|GCCCACGCCGTAAA/-|frameshift_variant;ENSG00000213398|ENST00000264005|LCAT ENST00000316341.7_1_16:67977830-67978124:-|nuORF ENST00000316341.7_1_16:67977830-67978124:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.3617553710938 2 526.359911 1050.70527 NaN NaN NaN NaN NaN NaN NaN 23.478 1 24.112 23.612 24.612 0.63441 0 0 0 1.002 1 10728 10728 0 0 1 36735 6089 23409 23481 41181 41181 0.18194411107424457 VTLLLGLLLP 10 Unmodified _VTLLLGLLLP_ 0 0 0 ENST00000316341.7_1_16:67977830-67978124:-|nuORF;LCAT|p.L338Pfs*24|1|0.24|ENSG00000213398|chr16:67940201-67940214|GCCCACGCCGTAAA/-|frameshift_variant;ENSG00000213398|ENST00000264005|LCAT ENST00000316341.7_1_16:67977830-67978124:-|nuORF ENST00000316341.7_1_16:67977830-67978124:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.3629760742188 2 526.359911 1050.70527 NaN NaN NaN NaN NaN NaN NaN 28.798 1 29.416 28.916 29.916 0.61789 0 0 0 1.002 1 13202 13202 0 0 1 36736 6089 23409 23481 41182 41182 0.18194411107424457 VTLLLGLLLP 10 Unmodified _VTLLLGLLLP_ 0 0 0 ENST00000316341.7_1_16:67977830-67978124:-|nuORF;LCAT|p.L338Pfs*24|1|0.24|ENSG00000213398|chr16:67940201-67940214|GCCCACGCCGTAAA/-|frameshift_variant;ENSG00000213398|ENST00000264005|LCAT ENST00000316341.7_1_16:67977830-67978124:-|nuORF ENST00000316341.7_1_16:67977830-67978124:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.363037109375 2 526.359911 1050.70527 NaN NaN NaN NaN NaN NaN NaN 29.385 1 30.003 29.503 30.503 0.61789 0 0 0 1.002 1 13477 13477 0 0 1 36737 6089 23409 23481 41183 41183 0.18194411107424457 VTLLLGLLLP 10 Unmodified _VTLLLGLLLP_ 0 0 0 ENST00000316341.7_1_16:67977830-67978124:-|nuORF;LCAT|p.L338Pfs*24|1|0.24|ENSG00000213398|chr16:67940201-67940214|GCCCACGCCGTAAA/-|frameshift_variant;ENSG00000213398|ENST00000264005|LCAT ENST00000316341.7_1_16:67977830-67978124:-|nuORF ENST00000316341.7_1_16:67977830-67978124:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.2442626953125 3 351.242366 1050.70527 NaN NaN NaN NaN NaN NaN NaN 35.142 1 35.765 35.265 36.265 0.62294 0 0 0 1.002 1 16104 16104 0 0 1 36738 6089 23409 23481 41184 41184 0.18194411107424457 VTLLLHFVQPV 11 Unmodified _VTLLLHFVQPV_ 0 0 0 REV__ENST00000434116.6_1_15:65944928-65945147:+|nuORF REV__ENST00000434116.6_1_15:65944928-65945147:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3868408203125 2 633.384448 1264.75434 NaN NaN NaN NaN NaN NaN NaN 45.65 1 46.301 45.801 46.801 0.65104 0 0 0 1.0074 1 20917 20917 1.0715 0.80244 1 + 36739 16290 23410 23482 41185 41185 0.13255699396358978 VTLLYLVLFV 10 Unmodified _VTLLYLVLFV_ 0 0 0 REV__nc|ENSG00000254658|Q8NGG1|OR8J2 REV__nc|ENSG00000254658|Q8NGG1|OR8J2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.3331298828125 2 590.373018 1178.73148 NaN NaN NaN NaN NaN NaN NaN 79.277 1 79.597 79.097 80.097 0.31998 0 0 0 0.99774 1 38717 38717 3.5965 0 1 + 36740 18150 23411 23483 41186 41186 0.1492668027885884 VTLPLEPK 8 Unmodified _VTLPLEPK_ 0 0 0 REV__PPP1R13B|p.S577Kfs*15|1|0.31|ENSG00000088808|chr14:103741884-103741885|-/G|frameshift_variant REV__PPP1R13B|p.S577Kfs*15|1|0.31|ENSG00000088808|chr14:103741884-103741885|-/G|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 896.54833984375 1 896.545145 895.537869 4.1352 0.0037074 2.6062 0.0023366 6.7414 0.006044 896.5472014461276 100.84 0.17897 101.43 101.32 101.5 0.59717 7 5 2 0 0 0 0.74071 1 46698 46698 2.5775 0 1 562690 + 36741 10682 23412 23484 41187 41187 0.08592143562668753 VTLRLALRL 9 Unmodified _VTLRLALRL_ 0 0 0 nc|ENSG00000140464|P29590-2|PML;ENST00000563500.5_3_15:74326748-74326994:+|nuORF nc|ENSG00000140464|P29590-2|PML nc|ENSG00000140464|P29590-2|PML MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.552734375 3 352.241359 1053.70225 2.5505 0.0008984 -1.0746 -0.00037853 1.4759 0.00051987 352.24098432213725 14.16 0.08799 14.808 14.77 14.858 0.64819 19 14 2 0 0 0 0.099014 1 6372 6372 14.405 0 1 2717200 36742 9671 23413 23485 41188 41188 0.17754580773248563 VTLRLVSVAM 10 Unmodified _VTLRLVSVAM_ 0 0 0 REV__nc|nan|Q6UWT4-2|C5orf46 REV__nc|nan|Q6UWT4-2|C5orf46 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.2384338378906 3 363.554727 1087.64235 2.8069 0.0010205 0.28297 0.00010287 3.0899 0.0011234 363.5549552099237 46.633 0.25241 46.898 46.728 46.98 0.26561 16 8 3 0 0 0 0.12676 1 21346 21346 3.3196 2.3574 1 2046100 + 36743 13770 23414 23486 41189 41189 0.10203522047731894 VTLRLVSVAM 10 Unmodified _VTLRLVSVAM_ 0 0 0 REV__nc|nan|Q6UWT4-2|C5orf46 REV__nc|nan|Q6UWT4-2|C5orf46 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 363.554727 1087.64235 2.4776 0.00090076 0.15932 5.7923E-05 2.637 0.00095868 363.5544153369602 46.92 0.1792 46.92 46.787 46.967 0 0.10297 0.00013085 NaN 3.3196 10 5 2 NaN NaN NaN NaN 0 NaN NaN 0 383730 + 36744 13770 23414 23486 0.10203522047731894 VTLSLPLILCP 11 Unmodified _VTLSLPLILCP_ 0 0 0 REV__ENST00000420509.1_1_2:206949343-206949463:+|nuORF REV__ENST00000420509.1_1_2:206949343-206949463:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.8571166992188 2 584.854135 1167.69372 NaN NaN NaN NaN NaN NaN NaN 7.4732 1 7.7991 7.2991 8.2991 0.32587 0 0 0 1.0082 1 3361 3361 0 0 1 + 36745 16169 23415 23487 41190 41190 0.11657846021807927 VTLTWDPPL 9 Unmodified _VTLTWDPPL_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;TTN|p.R30215Vfs*13|1|0.21|ENSG00000155657|chr2:178545544-178545544|G/-|frameshift_variant;nc|ENSG00000155657|Q8WZ42-5|TTN;nc|ENSG00000155657|Q8WZ42-9|TTN;nc|ENSG00000155657|Q8WZ42-10|TTN;nc|ENSG00000155657|Q8WZ42-3|TTN ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.2842407226562 2 521.2844 1040.55425 NaN NaN NaN NaN NaN NaN NaN 48.57 1 48.57 48.07 49.07 0 0 0 0 0.52667 1 22243 22243 18.135 2.2878 1 36746 3871 23416 23488 41191 41191 0.035592247287468126 VTLVAWLRHRF 11 Unmodified _VTLVAWLRHRF_ 0 0 0 REV__nc|ENSG00000137474|Q13402-5|MYO7A REV__nc|ENSG00000137474|Q13402-5|MYO7A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.611572265625 3 466.610334 1396.80917 NaN NaN NaN NaN NaN NaN NaN 29.585 1 30.374 29.874 30.874 0.78921 0 0 0 1.0079 1 13340 13340 0.45452 0.37117 1 + 36747 12113 23417 23489 41192 41192 0.12664130987650424 VTMLKKFK 8 Unmodified _VTMLKKFK_ 0 0 0 REV__nc|ENSG00000154263|Q8WWZ4-5|ABCA10 REV__nc|ENSG00000154263|Q8WWZ4-5|ABCA10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.2081298828125 3 332.208779 993.604509 NaN NaN NaN NaN NaN NaN NaN 12.647 1 13.289 12.789 13.789 0.64272 0 0 0 0.99035 1 5677 5677 3.9444 2.1002 1 + 36748 9916 23418 23490 41193 41193 0.10745055852908081 VTMNWWNNIWL 11 Unmodified _VTMNWWNNIWL_ 0 0 0 ENSG00000172901|ENST00000357872|LVRN;nc|ENSG00000172901|Q6Q4G3-2|LVRN ENSG00000172901|ENST00000357872|LVRN ENSG00000172901|ENST00000357872|LVRN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 738.8588256835938 2 738.858272 1475.70199 NaN NaN NaN NaN NaN NaN NaN 70.165 1 70.868 70.368 71.368 0.70302 0 0 0 1.0072 1 33610 33610 1.3295 0 1 36749 4901 23419 23491 41194 41194 -0.016832070088867113 VTNSSSHAL 9 Unmodified _VTNSSSHAL_ 0 0 0 REV__ENST00000545024.1_5:69806308-69808341:+|nuORF REV__ENST00000545024.1_5:69806308-69808341:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 458.2315979003906 2 458.230156 914.445759 NaN NaN NaN NaN NaN NaN NaN 12.505 1 12.813 12.313 13.313 0.30727 0 0 0 0.82031 1 5639 5639 8.5933 0.68312 1 + 36750 17014 23420 23492 41195 41195 -0.0148856652166387 VTPDHHYPL 9 Unmodified _VTPDHHYPL_ 0 0 0 REV__ENST00000454859.7_1_6:127609973-127610165:-|nuORF REV__ENST00000454859.7_1_6:127609973-127610165:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1078.81396484375 1 1078.53162 1077.52434 3.5763 0.0038571 -1.9972 -0.002154 1.5791 0.0017031 1078.5307452808315 87.915 0.09066 88.593 88.546 88.637 0.67818 5 4 2 0 0 0 0.10694 1 40475 40475 3.9444 0 1 1164500 + 36751 16440 23421 23493 41196 41196 -0.011317142165808036 VTPKKRVR 8 Unmodified _VTPKKRVR_ 0 0 0 nc|ENSG00000131016|Q02952-3|AKAP12;nc|ENSG00000131016|Q02952-2|AKAP12;ENSG00000131016|ENST00000402676|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 nc|ENSG00000131016|Q02952-3|AKAP12 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.32666015625 2 492.327268 982.639983 NaN NaN NaN NaN NaN NaN NaN 37.996 1 38.257 37.757 38.757 0.26083 0 0 0 0.99035 1 17301 17301 0.79363 0 1 36752 2634 23422 23494 41197 41197 0.1479685442493519 VTPLIMFIL 9 Unmodified _VTPLIMFIL_ 0 0 0 TAS2R39|p.L230Cfs*2|1|0.21|ENSG00000236398|chr7:143184104-143184104|C/-|frameshift_variant;ENSG00000236398|ENST00000446620|TAS2R39 TAS2R39|p.L230Cfs*2|1|0.21|ENSG00000236398|chr7:143184104-143184104|C/-|frameshift_variant TAS2R39|p.L230Cfs*2|1|0.21|ENSG00000236398|chr7:143184104-143184104|C/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.821533203125 2 523.819564 1045.62458 3.9326 0.00206 0.84747 0.00044392 4.78 0.0025039 523.8197760684443 93.081 0.41194 93.336 93.071 93.483 0.25497 28 23 2 0 0 0 1.2078 1 42826 42826 0.6015 0 1 257000 36753 6203 23423 23495 41198 41198 0.10358806792896758 VTPLRMSKP 9 Unmodified _VTPLRMSKP_ 0 0 0 ENST00000597451.5_1_19:18684168-18684498:+|nuORF ENST00000597451.5_1_19:18684168-18684498:+|nuORF ENST00000597451.5_1_19:18684168-18684498:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 343.53570556640625 3 343.535555 1027.58484 2.332 0.00080113 -1.3044 -0.0004481 1.0276 0.00035303 343.53486304668763 36.044 1.3694 36.044 35.683 37.053 0 119 66 3 0 0 0 0.89849 2 16257 16257;16377 3.5871 1.0886 1 2729200 36754 9284 23424 23496 41199;41200 41199 0.07214679842149962 VTPLRMSKP 9 Unmodified _VTPLRMSKP_ 0 0 0 ENST00000597451.5_1_19:18684168-18684498:+|nuORF ENST00000597451.5_1_19:18684168-18684498:+|nuORF ENST00000597451.5_1_19:18684168-18684498:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.5355224609375 3 343.535555 1027.58484 2.4551 0.00084343 -1.2647 -0.00043449 1.1904 0.00040894 343.5347677101566 35.642 1.0187 35.897 35.297 36.315 0.25524 123 42 4 0 0 0 1.0246 2 16220 16220;16275 2.086 0 1 1981200 36755 9284 23424 23496 41201;41202 41201 0.07214679842149962 VTPLRMSKP 9 Unmodified _VTPLRMSKP_ 0 0 0 ENST00000597451.5_1_19:18684168-18684498:+|nuORF ENST00000597451.5_1_19:18684168-18684498:+|nuORF ENST00000597451.5_1_19:18684168-18684498:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.53533935546875 3 343.535555 1027.58484 2.3962 0.00082317 -1.3407 -0.00046057 1.0555 0.00036261 343.53483310482267 34.927 0.26095 35.549 35.48 35.741 0.62294 47 21 3 0 0 0 0.89849 1 16014 16014 3.5871 0.5148 1 3086200 36756 9284 23424 23496 41203 41203 0.07214679842149962 VTPLRMSKP 9 Unmodified _VTPLRMSKP_ 0 0 0 ENST00000597451.5_1_19:18684168-18684498:+|nuORF ENST00000597451.5_1_19:18684168-18684498:+|nuORF ENST00000597451.5_1_19:18684168-18684498:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 343.5357666015625 3 343.535555 1027.58484 2.4364 0.00083699 -0.90313 -0.00031026 1.5333 0.00052673 343.5349805203638 35.312 0.47519 35.936 35.656 36.131 0.62464 43 17 3 0 0 0 0.89849 1 16187 16187 3.5871 1.0886 1 2132500 36757 9284 23424 23496 41204 41204 0.07214679842149962 VTPLRMSKP 9 Unmodified _VTPLRMSKP_ 0 0 0 ENST00000597451.5_1_19:18684168-18684498:+|nuORF ENST00000597451.5_1_19:18684168-18684498:+|nuORF ENST00000597451.5_1_19:18684168-18684498:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 343.535555 1027.58484 2.3426 0.00080476 -1.3799 -0.00047406 0.96265 0.0003307 343.53480530299686 35.003 0.64695 35.792 35.568 36.215 0.78921 -0.12485 -0.0001382 NaN 3.5871 103 34 4 NaN NaN NaN NaN 0 NaN NaN 0 1823800 36758 9284 23424 23496 0.07214679842149962 VTPPRMRRQ 9 Unmodified _VTPPRMRRQ_ 0 0 0 nc|ENSG00000054523|O60333-3|KIF1B nc|ENSG00000054523|O60333-3|KIF1B nc|ENSG00000054523|O60333-3|KIF1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 381.22076416015625 3 380.88547 1139.63458 2.2846 0.00087016 0.16403 6.2477E-05 2.4486 0.00093264 381.2197781108016 63.69 0.25469 63.69 63.534 63.789 0 76 43 3 0 0 0 1.0041 1 30014 30014 2.2828 0 1 8939600 36759 9546 23425 23497 41205 41205 0.07034807570812518 VTPPRMRRQ 9 Unmodified _VTPPRMRRQ_ 0 0 0 nc|ENSG00000054523|O60333-3|KIF1B nc|ENSG00000054523|O60333-3|KIF1B nc|ENSG00000054523|O60333-3|KIF1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 380.8863220214844 3 380.88547 1139.63458 1.9898 0.0007579 0.12083 4.6021E-05 2.1107 0.00080392 380.8855311784742 62.631 0.26902 63.362 63.186 63.455 0.73077 75 41 2 0 0 0 1.0041 1 29302 29302 2.2828 0 1 5966500 36760 9546 23425 23497 41206 41206 0.07034807570812518 VTPPRMRRQ 9 Unmodified _VTPPRMRRQ_ 0 0 0 nc|ENSG00000054523|O60333-3|KIF1B nc|ENSG00000054523|O60333-3|KIF1B nc|ENSG00000054523|O60333-3|KIF1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.8865966796875 3 380.88547 1139.63458 2.6957 0.0010267 0.49477 0.00018845 3.1904 0.0012152 380.88557071688285 62.961 0.57253 63.21 62.798 63.37 0.24965 162 54 4 0 0 0 1.0041 1 28853 28853 2.2828 0 1 19691000 36761 9546 23425 23497 41207 41207 0.07034807570812518 VTPPRMRRQ 9 Unmodified _VTPPRMRRQ_ 0 0 0 nc|ENSG00000054523|O60333-3|KIF1B nc|ENSG00000054523|O60333-3|KIF1B nc|ENSG00000054523|O60333-3|KIF1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.8865661621094 3 380.88547 1139.63458 2.5593 0.00097478 0.71083 0.00027074 3.2701 0.0012455 380.88562188140713 62.329 0.60105 62.989 62.597 63.198 0.66008 187 60 4 0 0 0 1.0041 1 28583 28583 2.2828 2.2828 1 23376000 36762 9546 23425 23497 41208 41208 0.07034807570812518 VTPPRMRRQ 9 Unmodified _VTPPRMRRQ_ 0 0 0 nc|ENSG00000054523|O60333-3|KIF1B nc|ENSG00000054523|O60333-3|KIF1B nc|ENSG00000054523|O60333-3|KIF1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.8863525390625 3 380.88547 1139.63458 2.5525 0.0009722 0.60382 0.00022998 3.1563 0.0012022 380.8856157608159 62.695 0.41955 63.353 63.165 63.584 0.65808 86 26 4 0 0 0 1.0041 1 28773 28773 2.2828 0 1 15647000 36763 9546 23425 23497 41209 41209 0.07034807570812518 VTPRLHFV 8 Unmodified _VTPRLHFV_ 0 0 0 REV__nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1 REV__nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 484.788818359375 2 484.787444 967.560336 2.5819 0.0012517 -0.70547 -0.000342 1.8765 0.00090969 484.7888504631949 51.422 0.40611 52.239 52.173 52.579 0.81738 39 27 2 0 0 0 0.71384 1 23489 23489 4.756 0 1 645170 + 36764 11137 23426 23498 41210 41210 0.07525787750932977 VTPRLHFV 8 Unmodified _VTPRLHFV_ 0 0 0 REV__nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1 REV__nc|ENSG00000108175|Q9ULJ6-3|ZMIZ1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 484.787444 967.560336 2.5819 0.0012517 -0.70547 -0.000342 1.8765 0.00090969 484.7888504631949 51.422 0.40611 52.239 52.173 52.579 0.81738 0 0 NaN 4.756 39 27 2 NaN NaN NaN NaN 0 NaN NaN 0 645170 + 36765 11137 23426 23498 0.07525787750932977 VTQMSKSQF 9 Unmodified _VTQMSKSQF_ 0 0 0 ENSG00000177689|ENST00000356790|MAGEB10 ENSG00000177689|ENST00000356790|MAGEB10 ENSG00000177689|ENST00000356790|MAGEB10 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.3179321289062 2 528.263142 1054.51173 2.7888 0.0014732 -0.63355 -0.00033468 2.1553 0.0011386 528.262911416304 33.524 0.21649 34.312 34.186 34.402 0.78795 23 12 3 0 0 0 0.032209 1 15133 15133 37.974 5.857 1 1277700 36766 5132 23427 23499 41211 41211 -0.013344936711291666 VTQRLLRRPLE 11 Unmodified _VTQRLLRRPLE_ 0 0 0 REV__ENST00000510805.1_1_4:144480662-144481064:+|nuORF REV__ENST00000510805.1_1_4:144480662-144481064:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 460.8016662597656 3 460.952649 1379.83612 NaN NaN NaN NaN NaN NaN NaN 65.029 1 65.738 65.238 66.238 0.70891 0 0 0 1.004 1 30688 30688 5.5233 1.6774 1 + 36767 16971 23428 23500 41212 41212 0.1613919480819277 VTRIRAESL 9 Unmodified _VTRIRAESL_ 0 0 0 REV__ENSG00000187527|ENST00000342358|ATP13A5 REV__ENSG00000187527|ENST00000342358|ATP13A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 348.546142578125 3 348.876857 1043.60874 NaN NaN NaN NaN NaN NaN NaN 17.913 1 17.913 17.413 18.413 0 0 0 0 0.62812 1 7953 7953 10.151 2.5416 1 + 36768 14100 23429 23501 41213 41213 0.08868236600164892 VTRIWRCFFLR 11 Unmodified _VTRIWRCFFLR_ 0 0 0 REV__ENST00000356136.7_2_11:75599912-75672525:+|nuORF REV__ENST00000356136.7_2_11:75599912-75672525:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 748.7650756835938 2 748.918998 1495.82344 NaN NaN NaN NaN NaN NaN NaN 107.23 1 107.55 107.05 108.05 0.31421 0 0 0 1.0072 1 49471 49471 1.3295 0 1 + 36769 15551 23430 23502 41214 41214 0.09536460144249759 VTRKLQCKK 9 Unmodified _VTRKLQCKK_ 0 0 0 REV__L1MEc_dup6794|chr6:25851076-25853406:-|2.4754799080055183|0.2216738180985241|3.48|518.0|46|2|sense REV__L1MEc_dup6794|chr6:25851076-25853406:-|2.4754799080055183|0.2216738180985241|3.48|518.0|46|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.88720703125 2 552.339518 1102.66448 NaN NaN NaN NaN NaN NaN NaN 72.943 1 72.943 72.443 73.443 0 0 0 0 0.89683 1 35497 35497 4.3292 0.38484 1 + 36770 17771 23431 23503 41215 41215 0.11725746516140134 VTRKRYAHL 9 Unmodified _VTRKRYAHL_ 0 0 0 ENSG00000075618|ENST00000382361|FSCN1 ENSG00000075618|ENST00000382361|FSCN1 ENSG00000075618|ENST00000382361|FSCN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.8971252441406 3 381.896363 1142.66726 2.2292 0.00085133 -0.093194 -3.5591E-05 2.136 0.00081574 381.89636985235563 13.013 0.21001 13.32 13.216 13.426 0.30727 21 9 3 0 0 0 0.36069 1 5874 5874 10.151 0 1 132920 36771 831 23432 23504 41216 41216 0.10163337965332175 VTRKRYAHL 9 Unmodified _VTRKRYAHL_ 0 0 0 ENSG00000075618|ENST00000382361|FSCN1 ENSG00000075618|ENST00000382361|FSCN1 ENSG00000075618|ENST00000382361|FSCN1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 381.896363 1142.66726 3.0036 0.0011471 0.064505 2.4634E-05 3.0682 0.0011717 382.23076399746066 12.787 0.13537 13.43 13.345 13.48 0.64272 0.054822 0.00016129 NaN 10.151 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 403160 36772 831 23432 23504 0.10163337965332175 VTRLALLLWLA 11 Unmodified _VTRLALLLWLA_ 0 0 0 REV__nc|ENSG00000163975|P08582-2|MELTF REV__nc|ENSG00000163975|P08582-2|MELTF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 318.2095031738281 4 317.957684 1267.80163 1.9564 0.00062206 0.8612 0.00027382 2.8176 0.00089589 317.958157546138 35.719 0.49061 35.719 35.379 35.87 0 38 23 2 0 0 0 0.91104 1 16208 16208 1.2148 1.2148 1 701010 + 36773 13050 23433 23505 41217 41217 0.17843978667383453 VTRPIRISASR 11 Unmodified _VTRPIRISASR_ 0 0 0 REV__ENSG00000135821|ENST00000331872|GLUL REV__ENSG00000135821|ENST00000331872|GLUL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 628.3858032226562 2 628.383303 1254.75205 3.4352 0.0021586 -0.96642 -0.00060728 2.4688 0.0015513 628.3827052164638 104.46 0.37273 104.46 104.32 104.69 0 57 27 3 0 0 0 0.91489 1 57519 57519 0 0 1 581850 + 36774 12038 23434 23506 41218 41218 0.13486663711228175 VTRREKIK 8 Unmodified _VTRREKIK_ 0 0 0 ENSG00000077684|ENST00000226319|JADE1;nc|ENSG00000077684|Q6IE81-2|JADE1 ENSG00000077684|ENST00000226319|JADE1 ENSG00000077684|ENST00000226319|JADE1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.1935729980469 3 343.889097 1028.64546 2.2571 0.00077618 0.83861 0.00028839 3.0957 0.0010646 343.8893072356374 14.722 0.23139 15.029 14.908 15.14 0.3069 25 19 2 0 0 0 0.14346 1 6687 6687 0.45834 0 1 95756 36775 868 23435 23507 41219 41219 0.1322853321673847 VTRRRIRRTVR 11 Unmodified _VTRRRIRRTVR_ 0 0 0 nc|ENSG00000105639|P52333-4|JAK3;ENST00000527031.5_1_19:17947866-17955268:-|nuORF;nc|ENSG00000105639|P52333-2|JAK3;ENSG00000105639|ENST00000458235|JAK3;ENST00000526008.5_1_19:17949989-17958765:-|nuORF nc|ENSG00000105639|P52333-4|JAK3 nc|ENSG00000105639|P52333-4|JAK3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 735.0573120117188 2 734.974016 1467.93348 NaN NaN NaN NaN NaN NaN NaN 98.104 1 98.104 97.604 98.604 0 0 0 0 1.0072 1 53626 53626 1.3295 0 1 36776 1514 23436 23508 41220 41220 0.21823021527643505 VTRRSRHS 8 Unmodified _VTRRSRHS_ 0 0 0 ENST00000330368.2_1_3:169487307-169487424:-|nuORF ENST00000330368.2_1_3:169487307-169487424:-|nuORF ENST00000330368.2_1_3:169487307-169487424:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 999.232666015625 1 998.560235 997.552959 3.6268 0.0036216 -0.1038 -0.00010365 3.523 0.0035179 998.5586001286422 24.522 0.031487 24.522 24.506 24.538 0 6 5 2 0 0 0 0.74071 1 11022 11022 2.5775 0 1 5246800 36777 6983 23437 23509 41221 41221 0.054084482032294545 VTRRVRRRGR 10 Unmodified _VTRRVRRRGR_ 0 0 0 REV__ENST00000474239.1_1_1:11724615-11732081:+|nuORF REV__ENST00000474239.1_1_1:11724615-11732081:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 655.9319458007812 2 656.418877 1310.8232 NaN NaN NaN NaN NaN NaN NaN 108.26 1 108.26 107.76 108.76 0 0 0 0 1.0001 1 59308 59308 1.6526 0.32309 1 + 36778 16633 23438 23510 41222 41222 0.1802222125929802 VTRVVFYVLVA 11 Unmodified _VTRVVFYVLVA_ 0 0 0 REV__ENSG00000174132|ENST00000312637|FAM174A REV__ENSG00000174132|ENST00000312637|FAM174A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.5934143066406 3 422.592058 1264.75434 2.6938 0.0011384 1.0911 0.00046109 3.7849 0.0015995 422.592456816052 45.797 0.78267 46.624 46.256 47.039 0.82621 113 40 4 0 0 0 0.85254 3 20831 20831;20874;20930 2.084 0.97421 1 5485100 + 36779 13622 23439 23511 41223;41224;41225 41223 0.13255699396381715 VTRVVFYVLVA 11 Unmodified _VTRVVFYVLVA_ 0 0 0 REV__ENSG00000174132|ENST00000312637|FAM174A REV__ENSG00000174132|ENST00000312637|FAM174A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 422.592058 1264.75434 2.633 0.0011127 1.6227 0.00068573 4.2556 0.0017984 422.59252297133645 46.587 0.96238 46.587 46.307 47.27 0 0.13282 0.00040263 NaN 2.084 139 44 4 NaN NaN NaN NaN 0 NaN NaN 0 7498900 + 36780 13622 23439 23511 0.13255699396381715 VTRVVFYVLVA 11 Unmodified _VTRVVFYVLVA_ 0 0 0 REV__ENSG00000174132|ENST00000312637|FAM174A REV__ENSG00000174132|ENST00000312637|FAM174A MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 422.592058 1264.75434 3.283 0.0013874 1.1268 0.00047618 4.4098 0.0018635 422.5923992642799 45.569 1.1841 46.22 45.721 46.905 0.65104 -0.23376 -0.00022603 NaN 2.084 158 44 5 NaN NaN NaN NaN 0 NaN NaN 0 4626900 + 36781 13622 23439 23511 0.13255699396381715 VTRYHRIL 8 Unmodified _VTRYHRIL_ 0 0 0 REV__ENSG00000117000|ENST00000372771|RLF REV__ENSG00000117000|ENST00000372771|RLF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.3179931640625 2 529.3169 1056.61925 NaN NaN NaN NaN NaN NaN NaN 32.736 1 33.354 32.854 33.854 0.61831 0 0 0 0.99035 1 15008 15008 2.5775 0.27475 1 + 36782 11428 23440 23512 41226 41226 0.09320264045254589 VTSHASLTSL 10 Unmodified _VTSHASLTSL_ 0 0 0 REV__ENSG00000230178|ENST00000456475|OR4F3 REV__ENSG00000230178|ENST00000456475|OR4F3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 508.2762451171875 2 508.274564 1014.53457 3.4844 0.001771 0.34516 0.00017544 3.8295 0.0019465 508.27479519435457 19.787 0.2774 20.445 20.329 20.606 0.6583 32 20 2 0 0 0 0.74998 1 9015 9015 10.824 0.64053 1 519370 + 36783 13700 23441 23513 41227 41227 0.027888487179893673 VTSHSLSCRRK 11 Unmodified _VTSHSLSCRRK_ 0 0 0 ENSG00000074590|ENST00000261402|NUAK1 ENSG00000074590|ENST00000261402|NUAK1 ENSG00000074590|ENST00000261402|NUAK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 425.23455810546875 3 425.231306 1272.67209 NaN NaN NaN NaN NaN NaN NaN 26.503 1 26.768 26.268 27.268 0.26489 0 0 0 1.0074 1 12042 12042 0.36667 0.20735 1 36784 819 23442 23514 41228 41228 0.04665854045765627 VTSSCYTSDSD 11 Unmodified _VTSSCYTSDSD_ 0 0 0 REV__ENSG00000166049|ENST00000370357|PASD1 REV__ENSG00000166049|ENST00000370357|PASD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.723876953125 2 582.721701 1163.42885 3.2534 0.0018958 0.15184 8.8481E-05 3.4052 0.0019843 582.722296932953 63.931 0.3887 64.179 63.99 64.379 0.24802 66 24 4 0 0 0 0.41238 1 29248 29248 21.537 3.402 1 5721300 + 36785 13208 23443 23515 41229 41229 -0.14632899980460934 VTSSCYTSDSD 11 Unmodified _VTSSCYTSDSD_ 0 0 0 REV__ENSG00000166049|ENST00000370357|PASD1 REV__ENSG00000166049|ENST00000370357|PASD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.7244873046875 2 582.721701 1163.42885 3.5223 0.0020525 -0.2759 -0.00016077 3.2464 0.0018917 582.7221483954736 63.435 0.35394 64.093 63.918 64.272 0.65808 76 22 4 0 0 0 0.58424 1 29132 29132 16.149 2.2431 1 4855900 + 36786 13208 23443 23515 41230 41230 -0.14632899980460934 VTTPKFHFVP 10 Unmodified _VTTPKFHFVP_ 0 0 0 REV__ENSG00000196476|ENST00000360321|C20orf96 REV__ENSG00000196476|ENST00000360321|C20orf96 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.4320068359375 2 586.826766 1171.63898 NaN NaN NaN NaN NaN NaN NaN 79.587 1 79.587 79.087 80.087 0 0 0 0 0.99464 1 39356 39356 6.2058 0.9089 1 + 36787 14220 23444 23516 41231 41231 0.060025952653631975 VTTPKLLP 8 Unmodified _VTTPKLLP_ 0 0 0 REV__ENST00000502271.5_1_5:53180101-53180530:-|nuORF REV__ENST00000502271.5_1_5:53180101-53180530:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7810363769531 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 34.921 1 35.544 35.044 36.044 0.62294 0 0 0 0.99035 1 16002 16002 0.79363 0 1 + 36788 16884 23445 23517 41232 41232 0.10388447425293634 VTTRLRPT 8 Unmodified _VTTRLRPT_ 0 0 0 REV__ENST00000494253.1_1_10:71098016-71144300:+|nuORF REV__ENST00000494253.1_1_10:71098016-71144300:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 472.2893371582031 2 472.287808 942.561064 3.1614 0.0014931 0.93178 0.00044007 4.0932 0.0019332 472.2883788229537 90.557 0.61958 91.229 90.957 91.577 0.67271 109 32 5 0 0 0 0.7471 1 41611 41611 0 0 1 78875000 + 36789 12777 23446 23518 41233 41233 0.08748582400005489 VTVELTKKKLQ 11 Unmodified _VTVELTKKKLQ_ 0 0 0 REV__nc|ENSG00000186472|Q9Y6V0-6|PCLO REV__nc|ENSG00000186472|Q9Y6V0-6|PCLO MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.9281005859375 2 643.905745 1285.79694 NaN NaN NaN NaN NaN NaN NaN 80.083 1 80.083 79.583 80.583 0 0 0 0 1.0041 1 39659 39659 5.2969 1.7004 1 + 36790 14057 23447 23519 41234 41234 0.16547049733935637 VTVFGRRLRVH 11 Unmodified _VTVFGRRLRVH_ 0 0 0 ENSG00000149256|ENST00000278550|TENM4 ENSG00000149256|ENST00000278550|TENM4 ENSG00000149256|ENST00000278550|TENM4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 447.2742919921875 3 447.273834 1338.79967 3.6868 0.001649 -2.1537 -0.00096328 1.5331 0.00068571 447.27260844187714 100.78 0.1172 101.1 101.03 101.15 0.31412 7 3 3 0 0 0 0.91391 1 46649 46649 0.08335 0 1 3778900 36791 3634 23448 23520 41235 41235 0.14382362702099272 VTVFGRRLRVH 11 Unmodified _VTVFGRRLRVH_ 0 0 0 ENSG00000149256|ENST00000278550|TENM4 ENSG00000149256|ENST00000278550|TENM4 ENSG00000149256|ENST00000278550|TENM4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 447.273834 1338.79967 2.4933 0.0011152 -2.1641 -0.00096797 0.3292 0.00014724 447.27296173561245 100.89 0.082664 100.89 100.85 100.94 0 -0.20313 0.0001715 NaN 0.08335 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 2193600 36792 3634 23448 23520 0.14382362702099272 VTVILIILIII 11 Unmodified _VTVILIILIII_ 0 0 0 ENSG00000185158|ENST00000543378|LRRC37B;nc|ENSG00000185158|Q96QE4-2|LRRC37B;nc|ENSG00000185158|Q96QE4|LRRC37B;ENST00000579766.1_1_17:30376071-30377294:+|nuORF;ENST00000417404.2_1_17:28960066-28961284:+|nuORF;ENST00000579094.1_1_17:30374694-30380344:+|nuORF ENSG00000185158|ENST00000543378|LRRC37B ENSG00000185158|ENST00000543378|LRRC37B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.942626953125 2 611.941068 1221.86758 NaN NaN NaN NaN NaN NaN NaN 17.61 1 17.912 17.412 18.412 0.30158 0 0 0 1.0082 1 7975 7975 0 0 1 36793 5493 23449 23521 41236 41236 0.2655237478957133 VTVILKIARKR 11 Unmodified _VTVILKIARKR_ 0 0 0 REV__nc|ENSG00000164251|P55085|F2RL1 REV__nc|ENSG00000164251|P55085|F2RL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 648.9447631835938 2 648.945539 1295.87652 NaN NaN NaN NaN NaN NaN NaN 109.35 1 109.35 108.85 109.85 0 0 0 0 1.008 1 59810 59810 0.35063 0 1 + 36794 13079 23450 23522 41237 41237 0.24042161198553913 VTVMVGELV 9 Unmodified _VTVMVGELV_ 0 0 0 ENSG00000055044|ENST00000264279|NOP58 ENSG00000055044|ENST00000264279|NOP58 ENSG00000055044|ENST00000264279|NOP58 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.73199462890625 2 473.767529 945.520504 2.7961 0.0013247 0.084459 4.0014E-05 2.8806 0.0013647 473.7674806663924 68.927 0.13644 69.587 69.524 69.661 0.65924 16 10 2 0 0 0 0.10063 1 31600 31600 3.9444 0 1 217450 36795 613 23451 23523 41238 41238 0.04556479965356175 VTVMVGELV 9 Unmodified _VTVMVGELV_ 0 0 0 ENSG00000055044|ENST00000264279|NOP58 ENSG00000055044|ENST00000264279|NOP58 ENSG00000055044|ENST00000264279|NOP58 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 473.767529 945.520504 3.1047 0.0014709 -0.055006 -2.606E-05 3.0497 0.0014448 473.76731523520607 69.461 0.12019 69.715 69.677 69.798 0.25443 0.064164 -5.9373E-05 NaN 3.9444 15 9 2 NaN NaN NaN NaN 0 NaN NaN 0 235820 36796 613 23451 23523 0.04556479965356175 VTVPMYRYRRR 11 Unmodified _VTVPMYRYRRR_ 0 0 0 nc|ENSG00000075043|O43526-6|KCNQ2;ENST00000482957.1_1_20:62065100-62065586:-|nuORF nc|ENSG00000075043|O43526-6|KCNQ2 nc|ENSG00000075043|O43526-6|KCNQ2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 748.9165649414062 2 748.916987 1495.81942 NaN NaN NaN NaN NaN NaN NaN 106.12 1 106.44 105.94 106.94 0.31628 0 0 0 1.0072 1 48979 48979 1.3295 0 1 36797 9562 23452 23524 41239 41239 0.09134370650554047 VTVWPRWERWR 11 Unmodified _VTVWPRWERWR_ 0 0 0 REV__ENST00000589087.5_1_19:2806818-2807876:+|nuORF REV__ENST00000589087.5_1_19:2806818-2807876:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 785.8729248046875 2 785.923126 1569.8317 NaN NaN NaN NaN NaN NaN NaN 103.11 1 103.11 102.61 103.61 0 0 0 0 1.0079 1 56861 56861 1.3295 0.9789 1 + 36798 17564 23453 23525 41240 41240 0.06957730385238392 VTWLWSEPFQS 11 Unmodified _VTWLWSEPFQS_ 0 0 0 REV__CON__Q2UVX4 REV__CON__Q2UVX4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 690.3340454101562 2 690.335153 1378.65575 NaN NaN NaN NaN NaN NaN NaN 71.137 1 71.841 71.341 72.341 0.70386 0 0 0 1.0059 1 34150 34150 2.9952 0 1 + + 36799 10093 23454 23526 41241 41241 -0.018429486393415573 VTWRLRALRRV 11 Unmodified _VTWRLRALRRV_ 0 0 0 ENSG00000132004|ENST00000393261|FBXW9 ENSG00000132004|ENST00000393261|FBXW9 ENSG00000132004|ENST00000393261|FBXW9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 713.4494018554688 2 713.449311 1424.88407 NaN NaN NaN NaN NaN NaN NaN 69.305 1 69.305 68.805 69.805 0 0 0 0 1.0072 1 33460 33460 1.3295 0 1 36800 2679 23455 23527 41242 41242 0.1886231351884362 VTWRRRSRRKK 11 Unmodified _VTWRRRSRRKK_ 0 0 0 ENST00000515223.1_1_5:180651261-180651336:+|nuORF ENST00000515223.1_1_5:180651261-180651336:+|nuORF ENST00000515223.1_1_5:180651261-180651336:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 764.972900390625 2 764.974016 1527.93348 NaN NaN NaN NaN NaN NaN NaN 82.827 1 83.074 82.574 83.574 0.24722 0 0 0 1.0072 1 38123 38123 1.3295 0 1 36801 8593 23456 23528 41243 41243 0.190630215276542 VTYFIYFYEWP 11 Unmodified _VTYFIYFYEWP_ 0 0 0 REV__ENST00000454158.6_1_4:37614769-37614952:-|nuORF REV__ENST00000454158.6_1_4:37614769-37614952:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.9364929199219 3 509.911345 1526.7122 NaN NaN NaN NaN NaN NaN NaN 65.515 1 65.515 65.015 66.015 0 0 0 0 1.008 1 31225 31225 0.094841 0 1 + 36802 16432 23457 23529 41244 41244 -0.030083208026780994 VTYLASYYDGC 11 Unmodified _VTYLASYYDGC_ 0 0 0 REV__nc|ENSG00000138802|O95487-2|SEC24B REV__nc|ENSG00000138802|O95487-2|SEC24B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 627.76953125 2 627.770997 1253.52744 NaN NaN NaN NaN NaN NaN NaN 67.846 1 68.098 67.598 68.598 0.25227 0 0 0 1.0072 1 31079 31079 1.3295 0 1 + 36803 12195 23458 23530 41245 41245 -0.08918251944714939 VTYLRKHRDEK 11 Unmodified _VTYLRKHRDEK_ 0 0 0 REV__L1ME1_dup1131|chr1:100740842-100741255:-|2.33099685030912|0.1091311827749231|4.42|540.0|3|1|sense REV__L1ME1_dup1131|chr1:100740842-100741255:-|2.33099685030912|0.1091311827749231|4.42|540.0|3|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 722.9067993164062 2 722.904599 1443.79465 NaN NaN NaN NaN NaN NaN NaN 71.397 1 71.397 70.897 71.897 0 0 0 0 1.0061 1 34705 34705 2.7352 1.4057 1 + 36804 17766 23459 23531 41246 41246 0.09050014048852972 VTYPGKVKEKE 11 Unmodified _VTYPGKVKEKE_ 0 0 0 CON__Q0V8M9 CON__Q0V8M9 CON__Q0V8M9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 639.356201171875 2 639.358628 1276.7027 NaN NaN NaN NaN NaN NaN NaN 69.774 1 69.774 69.274 70.274 0 0 0 0 0.99038 1 33758 33758 7.609 0 1 + 36805 225 23460 23532 41247 41247 0.07541910911800187 VVAAPLLW 8 Unmodified _VVAAPLLW_ 0 0 0 REV__ENSG00000146205|ENST00000674324|ANO7 REV__ENSG00000146205|ENST00000674324|ANO7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.7662658691406 2 434.768189 867.521825 NaN NaN NaN NaN NaN NaN NaN 101.82 1 101.88 101.38 102.38 0.057198 0 0 0 0.99035 1 55290 55290 0.79363 0 1 + 36806 12463 23461 23533 41248 41248 0.08276482116411898 VVAGRRKS 8 Unmodified _VVAGRRKS_ 0 0 0 ENSG00000151952|ENST00000422113|TMEM132D ENSG00000151952|ENST00000422113|TMEM132D ENSG00000151952|ENST00000422113|TMEM132D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 436.7758483886719 2 436.774868 871.535184 2.4254 0.0010593 0.080408 3.512E-05 2.5058 0.0010945 436.77483307879464 86.386 0.35329 86.386 86.247 86.601 0 101 45 3 0 0 0 0.7471 1 44275 44275 0.79363 0 1 37946000 36807 3734 23462 23534 41249 41249 0.09427732948370249 VVAGVIYPR 9 Unmodified _VVAGVIYPR_ 0 0 0 REV__ENSG00000130764|ENST00000378251|LRRC47 REV__ENSG00000130764|ENST00000378251|LRRC47 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 487.2951354980469 2 487.295102 972.575651 NaN NaN NaN NaN NaN NaN NaN 96.298 1 96.576 96.076 97.076 0.27778 0 0 0 0.90511 1 44246 44246 2.3027 0 1 + 36808 11831 23463 23535 41250 41250 0.08826654548113311 VVARSALT 8 Unmodified _VVARSALT_ 0 0 0 REV__ENST00000511633.5_1_4:170533254-170533704:-|nuORF REV__ENST00000511633.5_1_4:170533254-170533704:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 408.7524719238281 2 408.750527 815.486502 NaN NaN NaN NaN NaN NaN NaN 102.99 1 103.04 102.54 103.54 0.055092 0 0 0 0.99035 1 55875 55875 2.3027 0 1 + 36809 16331 23464 23536 41251 41251 0.07137819588615457 VVARTATV 8 Unmodified _VVARTATV_ 0 0 0 ENST00000546727.5_1_12:113557151-113573291:-|nuORF;ENST00000548972.5_1_12:113545343-113573291:-|nuORF;ENST00000418411.6_1_12:113540888-113573291:-|nuORF;nc|ENSG00000111344|O95294-2|RASAL1;nc|ENSG00000111344|O95294|RASAL1;ENSG00000111344|ENST00000548055|RASAL1;nc|ENSG00000111344|O95294-3|RASAL1 ENST00000546727.5_1_12:113557151-113573291:-|nuORF ENST00000546727.5_1_12:113557151-113573291:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 408.7534484863281 2 408.750527 815.486502 NaN NaN NaN NaN NaN NaN NaN 102.95 1 103.55 103.05 104.05 0.59765 0 0 0 0.99035 1 47642 47642 2.5775 0 1 36810 1759 23465 23537 41252 41252 0.07137819588626826 VVAVGPLLG 9 Unmodified _VVAVGPLLG_ 0 0 0 REV__ENSG00000044012|ENST00000372581|GUCA2B REV__ENSG00000044012|ENST00000372581|GUCA2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 412.7679748535156 2 412.765646 823.516739 NaN NaN NaN NaN NaN NaN NaN 36.424 1 36.424 35.924 36.924 0 0 0 0 0.91452 1 16532 16532 0 0 1 + 36811 10329 23466 23538 41253 41253 0.09792178253826478 VVAVGPLLG 9 Unmodified _VVAVGPLLG_ 0 0 0 REV__ENSG00000044012|ENST00000372581|GUCA2B REV__ENSG00000044012|ENST00000372581|GUCA2B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 412.7679748535156 2 412.765646 823.516739 NaN NaN NaN NaN NaN NaN NaN 36.2 1 36.993 36.493 37.493 0.79342 0 0 0 0.91452 1 16406 16406 0 0 1 + 36812 10329 23466 23538 41254 41254 0.09792178253826478 VVDIVGLLL 9 Unmodified _VVDIVGLLL_ 0 0 0 REV__Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|241|3|anti-sense REV__Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|241|3|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 314.21807861328125 3 314.207433 939.600469 NaN NaN NaN NaN NaN NaN NaN 37.03 1 37.823 37.323 38.323 0.79342 0 0 0 0.91238 1 16779 16779 0.23584 0 1 + 36813 17708 23467 23539 41255 41255 0.12825289630870884 VVDPNDPQM 9 Unmodified _VVDPNDPQM_ 0 0 0 ENSG00000151883|ENST00000281631|PARP8 ENSG00000151883|ENST00000281631|PARP8 ENSG00000151883|ENST00000281631|PARP8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 507.7330322265625 2 507.731674 1013.4488 2.9827 0.0015144 -0.0092851 -4.7144E-06 2.9734 0.0015097 507.73177073086083 33.28 0.28371 33.28 33.078 33.362 0 57 25 3 0 0 0 0.00038954 2 15063 15017;15063 133.05 95.078 1 4060700 36814 3731 23468 23540 41256;41257 41257 -0.05739059459165219 VVDPNDPQM 9 Unmodified _VVDPNDPQM_ 0 0 0 ENSG00000151883|ENST00000281631|PARP8 ENSG00000151883|ENST00000281631|PARP8 ENSG00000151883|ENST00000281631|PARP8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 507.7331848144531 2 507.731674 1013.4488 2.9419 0.0014937 -0.50453 -0.00025617 2.4373 0.0012375 507.73147314486 32.335 0.3562 33.123 32.986 33.343 0.78795 84 28 5 0 0 0 0.0012852 3 14643 14594;14643;14691 121.53 83.56 1 3516500 36815 3731 23468 23540 41258;41259;41260 41259 -0.05739059459165219 VVDPNDPQM 9 Unmodified _VVDPNDPQM_ 0 0 0 ENSG00000151883|ENST00000281631|PARP8 ENSG00000151883|ENST00000281631|PARP8 ENSG00000151883|ENST00000281631|PARP8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.7328186035156 2 507.731674 1013.4488 3.4386 0.0017459 -0.47807 -0.00024273 2.9605 0.0015031 507.73147276059285 32.948 0.36752 33.202 32.974 33.342 0.25389 50 15 4 0 0 0 0.0012852 2 14966 14966;15026 121.53 83.56 1 2929700 36816 3731 23468 23540 41261;41262 41261 -0.05739059459165219 VVDPNDPQM 9 Unmodified _VVDPNDPQM_ 0 0 0 ENSG00000151883|ENST00000281631|PARP8 ENSG00000151883|ENST00000281631|PARP8 ENSG00000151883|ENST00000281631|PARP8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 507.73333740234375 2 507.731674 1013.4488 3.2292 0.0016396 -0.20094 -0.00010202 3.0282 0.0015375 507.7316285981603 32.42 0.42939 33.038 32.844 33.273 0.61831 66 21 4 0 0 0 0.00038954 3 14902 14842;14902;14953 133.05 95.078 1 2860400 36817 3731 23468 23540 41263;41264;41265 41264 -0.05739059459165219 VVDPNDPQM 9 Oxidation (M) _VVDPNDPQM(Oxidation (M))_ VVDPNDPQM(1) VVDPNDPQM(62) 0 0 1 ENSG00000151883|ENST00000281631|PARP8 ENSG00000151883|ENST00000281631|PARP8 ENSG00000151883|ENST00000281631|PARP8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.7314453125 2 515.729132 1029.44371 NaN NaN NaN NaN NaN NaN NaN 18.637 1 18.935 18.435 19.435 0.29753 0 0 0 0.026708 1 8455 8455 61.602 39.855 1 36818 3731 23468 23541 41266 41266 53 -0.0698336332177405 VVEGVPLR 8 Unmodified _VVEGVPLR_ 0 0 0 REV__ENST00000573325.1_1_17:986639-994967:-|nuORF REV__ENST00000573325.1_1_17:986639-994967:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 435.017333984375 2 434.766178 867.517802 NaN NaN NaN NaN NaN NaN NaN 101.86 1 101.86 101.36 102.36 0 0 0 0 0.99035 1 56264 56264 0.69038 0 1 + 36819 17461 23469 23542 41267 41267 0.07874392622704818 VVEKKWLG 8 Unmodified _VVEKKWLG_ 0 0 0 REV__ENST00000474330.1_1_7:105518710-105520137:+|nuORF REV__ENST00000474330.1_1_7:105518710-105520137:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 320.19622802734375 3 320.195527 957.564752 2.3207 0.00074307 0.52195 0.00016713 2.8426 0.0009102 320.1956529968748 19.99 0.48237 20.648 20.399 20.882 0.6583 106 41 3 0 0 0 0.13721 1 9061 9061 9.3831 0 1 903700 + 36820 16635 23470 23543 41268 41268 0.08427252173862598 VVELEELTNPK 11 Unmodified _VVELEELTNPK_ 0 0 0 REV__nc|ENSG00000166797|Q9H5X1-2|CIAO2A REV__nc|ENSG00000166797|Q9H5X1-2|CIAO2A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 635.8472290039062 2 635.848093 1269.68163 NaN NaN NaN NaN NaN NaN NaN 22.511 1 22.511 22.011 23.011 0 0 0 0 1.0063 1 10093 10093 2.4985 0.65425 1 + 36821 13259 23471 23544 41269 41269 0.05757900812272965 VVEPYNATL 9 Unmodified _VVEPYNATL_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;ENSG00000261456|ENST00000568584|TUBB8;ENSG00000173213|ENST00000308911|TUBB8B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENST00000404155.1_1_6:3177457-3179994:-|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000104833|ENST00000264071|TUBB4A ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1005.5321044921875 1 1005.52514 1004.51786 3.4722 0.0034914 1.9509 0.0019617 5.4232 0.0054531 1005.5268512356234 52.438 0.18479 53.1 52.987 53.171 0.66198 9 7 2 0 0 0 0.22507 1 23982 23982 21.747 4.8044 1 451150 36822 5660;6301;1452 23472 23545 41270 41270 0.01578347832048621 VVERRQLA 8 Unmodified _VVERRQLA_ 0 0 0 nc|ENSG00000131018|Q8NF91-4|SYNE1;ENSG00000131018|ENST00000367255|SYNE1;nc|ENSG00000131018|Q8NF91-7|SYNE1;nc|ENSG00000131018|Q8NF91-10|SYNE1;ENST00000461872.6_1_6:152697909-152949466:-|nuORF nc|ENSG00000131018|Q8NF91-4|SYNE1 nc|ENSG00000131018|Q8NF91-4|SYNE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.79498291015625 2 485.793258 969.571963 3.2272 0.0015678 0.50016 0.00024297 3.7274 0.0018107 485.7935774990295 16.681 0.36842 17.339 17.225 17.594 0.65798 46 34 2 0 0 0 0.71384 1 7498 7498 4.756 0 1 112930 36823 2635 23473 23546 41271 41271 0.08595984774285625 VVFGAIAK 8 Unmodified _VVFGAIAK_ 0 0 0 REV__ENSG00000115423|ENST00000389394|DNAH6 REV__ENSG00000115423|ENST00000389394|DNAH6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 402.75408935546875 2 402.752539 803.490525 NaN NaN NaN NaN NaN NaN NaN 54.644 1 54.91 54.41 55.41 0.26543 0 0 0 0.99035 1 24977 24977 0.79363 0 1 + 36824 11365 23474 23547 41272 41272 0.08091909082315851 VVFLLLTML 9 Unmodified _VVFLLLTML_ 0 0 0 REV__nc|ENSG00000120160|Q9NQ60-3|EQTN REV__nc|ENSG00000120160|Q9NQ60-3|EQTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.8292846679688 2 524.827389 1047.64023 3.5146 0.0018445 -0.27126 -0.00014237 3.2433 0.0017022 524.8272318957291 95.191 0.52116 95.809 95.542 96.063 0.61736 99 24 5 0 0 0 1.101 1 43744 43744 2.3027 2.3027 1 56722000 + 36825 11531 23475 23548 41273 41273 0.11831093309911012 VVFPLETLVA 10 Unmodified _VVFPLETLVA_ 0 0 0 REV__ENSG00000009335|ENST00000348165|UBE3C REV__ENSG00000009335|ENST00000348165|UBE3C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.2182312011719 3 363.218109 1086.6325 NaN NaN NaN NaN NaN NaN NaN 62.782 1 62.782 62.282 63.282 0 0 0 0 0.99776 1 29448 29448 3.5871 0.26742 1 + 36826 10213 23476 23549 41274 41274 0.09264657313997304 VVFPLETLVA 10 Unmodified _VVFPLETLVA_ 0 0 0 REV__ENSG00000009335|ENST00000348165|UBE3C REV__ENSG00000009335|ENST00000348165|UBE3C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 363.218505859375 3 363.218109 1086.6325 NaN NaN NaN NaN NaN NaN NaN 61.92 1 62.58 62.08 63.08 0.66008 0 0 0 0.99776 1 28367 28367 3.5871 0.5148 1 + 36827 10213 23476 23549 41275 41275 0.09264657313997304 VVFRRRRRRCR 11 Unmodified _VVFRRRRRRCR_ 0 0 0 REV__ENST00000583932.1_1_17:56065528-56065615:-|nuORF REV__ENST00000583932.1_1_17:56065528-56065615:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.0714721679688 3 520.651533 1558.93277 NaN NaN NaN NaN NaN NaN NaN 77.753 1 77.753 77.253 78.253 0 0 0 0 1.0082 1 38143 38143 0.094841 0 1 + 36828 17526 23477 23550 41276 41276 0.1756590360696464 VVGAPRGR 8 Unmodified _VVGAPRGR_ 0 0 0 ENST00000463554.5_1_2:233599907-233635753:+|nuORF;GIGYF2|p.I1041Lfs*9|1|0.12|ENSG00000204120|chr2:232844390-232844390|A/-|frameshift_variant;nc|ENSG00000204120|Q6Y7W6-4|GIGYF2;nc|ENSG00000204120|Q6Y7W6-5|GIGYF2;ENSG00000204120|ENST00000373563|GIGYF2;nc|ENSG00000204120|Q6Y7W6-3|GIGYF2 ENST00000463554.5_1_2:233599907-233635753:+|nuORF ENST00000463554.5_1_2:233599907-233635753:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 406.24945068359375 2 406.248486 810.48242 2.1711 0.000882 0.26127 0.00010614 2.4324 0.00098814 406.2485077274661 83.631 0.32046 83.631 83.468 83.789 0 78 37 3 0 0 0 0.7471 2 42134 42134;42206 0.69038 0 1 29743000 36829 5986 23478 23551 41277;41278 41277 0.06959774885569914 VVGAPRGR 8 Unmodified _VVGAPRGR_ 0 0 0 ENST00000463554.5_1_2:233599907-233635753:+|nuORF;GIGYF2|p.I1041Lfs*9|1|0.12|ENSG00000204120|chr2:232844390-232844390|A/-|frameshift_variant;nc|ENSG00000204120|Q6Y7W6-4|GIGYF2;nc|ENSG00000204120|Q6Y7W6-5|GIGYF2;ENSG00000204120|ENST00000373563|GIGYF2;nc|ENSG00000204120|Q6Y7W6-3|GIGYF2 ENST00000463554.5_1_2:233599907-233635753:+|nuORF ENST00000463554.5_1_2:233599907-233635753:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.2498779296875 2 406.248486 810.48242 2.9022 0.001179 0.48098 0.0001954 3.3832 0.0013744 406.2486651422205 83.015 0.63888 83.262 83.016 83.655 0.24722 97 32 5 0 0 0 0.7471 2 38253 38253;38303 0.69038 0 1 57563000 36830 5986 23478 23551 41279;41280 41279 0.06959774885569914 VVGAPRGR 8 Unmodified _VVGAPRGR_ 0 0 0 ENST00000463554.5_1_2:233599907-233635753:+|nuORF;GIGYF2|p.I1041Lfs*9|1|0.12|ENSG00000204120|chr2:232844390-232844390|A/-|frameshift_variant;nc|ENSG00000204120|Q6Y7W6-4|GIGYF2;nc|ENSG00000204120|Q6Y7W6-5|GIGYF2;ENSG00000204120|ENST00000373563|GIGYF2;nc|ENSG00000204120|Q6Y7W6-3|GIGYF2 ENST00000463554.5_1_2:233599907-233635753:+|nuORF ENST00000463554.5_1_2:233599907-233635753:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.2494812011719 2 406.248486 810.48242 3.0788 0.0012508 0.073276 2.9768E-05 3.1521 0.0012805 406.2484792889893 82.687 0.78148 83.347 82.992 83.773 0.66019 142 45 5 0 0 0 0.7471 5 37975 37975;38026;38075;38128;38182 0.69038 0 1 46983000 36831 5986 23478 23551 41281;41282;41283;41284;41285 41281 0.06959774885569914 VVGAVQVP 8 Unmodified _VVGAVQVP_ 0 0 0 ENST00000429927.6_2_4:76555598-76555745:-|nuORF ENST00000429927.6_2_4:76555598-76555745:-|nuORF ENST00000429927.6_2_4:76555598-76555745:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 384.7366943359375 2 384.734346 767.454139 NaN NaN NaN NaN NaN NaN NaN 54.451 1 55.117 54.617 55.617 0.6665 0 0 0 0.99035 1 24907 24907 0.79363 0 1 36832 7839 23479 23552 41286 41286 0.0611103218561766 VVGPVKGV 8 Unmodified _VVGPVKGV_ 0 0 0 NFRKB|p.K691Rfs*7|1|0.05|ENSG00000170322|chr11:129874320-129874321|-/CCACC|frameshift_variant;nc|ENSG00000170322|Q6P4R8-3|NFRKB;ENSG00000170322|ENST00000682444|NFRKB;nc|ENSG00000170322|Q6P4R8-2|NFRKB NFRKB|p.K691Rfs*7|1|0.05|ENSG00000170322|chr11:129874320-129874321|-/CCACC|frameshift_variant NFRKB|p.K691Rfs*7|1|0.05|ENSG00000170322|chr11:129874320-129874321|-/CCACC|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.7456970214844 2 377.744714 753.474875 2.6848 0.0010142 -0.038939 -1.4709E-05 2.6458 0.00099945 377.7447051407783 22.755 0.19354 23.395 23.303 23.496 0.64051 43 24 2 0 0 0 0.23254 1 10346 10346 40.449 6.2612 1 3094500 36833 4740 23480 23553 41287 41287 0.0882762256528622 VVGPVKGV 8 Unmodified _VVGPVKGV_ 0 0 0 NFRKB|p.K691Rfs*7|1|0.05|ENSG00000170322|chr11:129874320-129874321|-/CCACC|frameshift_variant;nc|ENSG00000170322|Q6P4R8-3|NFRKB;ENSG00000170322|ENST00000682444|NFRKB;nc|ENSG00000170322|Q6P4R8-2|NFRKB NFRKB|p.K691Rfs*7|1|0.05|ENSG00000170322|chr11:129874320-129874321|-/CCACC|frameshift_variant NFRKB|p.K691Rfs*7|1|0.05|ENSG00000170322|chr11:129874320-129874321|-/CCACC|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 377.744714 753.474875 2.7888 0.0010534 0.090506 3.4188E-05 2.8793 0.0010876 377.744627308788 23.325 0.10421 23.6 23.51 23.614 0.27562 0.1025 6.4943E-05 NaN 40.449 21 16 2 NaN NaN NaN NaN 0 NaN NaN 0 4018300 36834 4740 23480 23553 0.0882762256528622 VVGQPLAA 8 Unmodified _VVGQPLAA_ 0 0 0 REV__nc|ENSG00000095794|Q03060-23|CREM REV__nc|ENSG00000095794|Q03060-23|CREM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 377.7253112792969 2 377.726521 753.438489 NaN NaN NaN NaN NaN NaN NaN 78.942 1 78.942 78.442 79.442 0 0 0 0 0.99035 1 38918 38918 0.79363 0 1 + 36835 10769 23481 23554 41288 41288 0.05190745668551244 VVGVPIGG 8 Unmodified _VVGVPIGG_ 0 0 0 REV__nc|ENSG00000278540|Q13085-3|ACACA REV__nc|ENSG00000278540|Q13085-3|ACACA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 349.2161865234375 2 349.215789 696.417025 NaN NaN NaN NaN NaN NaN NaN 9.6815 1 9.9884 9.4884 10.488 0.3069 0 0 0 0.99035 1 4382 4382 0 0 1 + 36836 14751 23482 23555 41289 41289 0.05667360639870367 VVIIKRITVT 10 Unmodified _VVIIKRITVT_ 0 0 0 REV__ENST00000423695.6_1_5:10250480-10261980:+|nuORF REV__ENST00000423695.6_1_5:10250480-10261980:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.3920288085938 2 571.386991 1140.75943 3.8483 0.0021989 -0.034915 -1.995E-05 3.8134 0.0021789 571.3868104463281 103.38 0.18478 103.98 103.84 104.03 0.59821 20 12 2 0 0 0 0.94443 1 47813 47813 0 0 1 290360 + 36837 16194 23483 23556 41290 41290 0.19468003258953104 VVIKVKPP 8 Unmodified _VVIKVKPP_ 0 0 0 ENSG00000014164|ENST00000262577|ZC3H3 ENSG00000014164|ENST00000262577|ZC3H3 ENSG00000014164|ENST00000262577|ZC3H3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 440.3063659667969 2 440.304939 878.595324 NaN NaN NaN NaN NaN NaN NaN 37.877 1 38.511 38.011 39.011 0.63388 0 0 0 0.94507 1 17327 17327 9.3474 0.75416 1 36838 434 23484 23557 41291 41291 0.1511703055889484 VVIPPALN 8 Unmodified _VVIPPALN_ 0 0 0 nc|ENSG00000273085|Q8NGJ3|OR52E1 nc|ENSG00000273085|Q8NGJ3|OR52E1 nc|ENSG00000273085|Q8NGJ3|OR52E1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 822.3741455078125 1 822.508366 821.501089 4.1593 0.003421 -2.7946 -0.0022986 1.3646 0.0011224 822.5056233447733 103.33 0.11783 103.93 103.86 103.97 0.59821 11 6 3 0 0 0 0.14355 1 47804 47804 0 0 1 323570 36839 9866 23485 23558 41292 41292 0.08319891736744012 VVISIQPI 8 Unmodified _VVISIQPI_ 0 0 0 REV__ENSG00000082293|ENST00000620364|COL19A1 REV__ENSG00000082293|ENST00000620364|COL19A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.781005859375 2 434.778754 867.542954 3.0125 0.0013098 0.19438 8.4511E-05 3.2069 0.0013943 434.78008068772994 37.286 1.129 37.547 36.994 38.123 0.26083 84 36 4 0 0 0 0.7471 1 16851 16851 0.69038 0 1 692050 + 36840 10615 23486 23559 41293 41293 0.10388447425293634 VVIVLFRKL 9 Unmodified _VVIVLFRKL_ 0 0 0 REV__ENST00000263734.4_1_2:46612121-46612232:+|nuORF REV__ENST00000263734.4_1_2:46612121-46612232:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.2539367675781 3 362.918105 1085.73249 2.7655 0.0010036 -0.15811 -5.7381E-05 2.6074 0.00094626 363.2529196253642 19.798 2.0878 19.798 19.494 21.582 0 321 193 2 0 0 0 1.2289 2 9262 9262;9285 0.26902 0 1 2315300 + 36841 15003 23487 23560 41294;41295 41294 0.1930493943843885 VVKALPAG 8 Unmodified _VVKALPAG_ 0 0 0 REV__ENST00000528296.5_1_8:146015816-146017457:-|nuORF REV__ENST00000528296.5_1_8:146015816-146017457:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.74560546875 2 377.744714 753.474875 2.6848 0.0010142 -0.038939 -1.4709E-05 2.6458 0.00099945 377.7447051407783 22.755 0.19354 23.395 23.303 23.496 0.64051 43 24 2 0 0 0 0.31786 1 10395 10395 34.187 0 1 3094500 + 36842 12904 23488 23561 41296 41296 0.08827622565274851 VVKFLIKKKA 10 Unmodified _VVKFLIKKKA_ 0 0 0 ENSG00000196604|ENST00000409914|POTEF;ENSG00000188219|ENST00000683005|POTEE;ENSG00000196834|ENST00000451531|POTEI;ENSG00000222038|ENST00000409602|POTEJ;ENSG00000233917|ENST00000439682|POTEB;ENSG00000166351|ENST00000299443|POTED;ENSG00000278522|ENST00000611217|POTEB3;ENSG00000198062|ENST00000343518|POTEH;nc|ENSG00000188219|Q6S8J3-3|POTEE;nc|ENSG00000278522|A0JP26-2|POTEB3;nc|ENSG00000278522|A0JP26-3|POTEB3;ENSG00000183206|ENST00000358970|POTEC;ENSG00000187537|ENST00000547848|POTEG;ENSG00000222036|ENST00000547889|POTEM;nc|ENSG00000187537|Q6S5H5-2|POTEG;nc|ENSG00000188219|Q6S8J3-2|POTEE;ENSG00000230031|ENST00000454856|POTEB2 ENSG00000196604|ENST00000409914|POTEF ENSG00000196604|ENST00000409914|POTEF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.4082641601562 2 587.407727 1172.8009 NaN NaN NaN NaN NaN NaN NaN 91.369 1 92.031 91.531 92.531 0.66198 0 0 0 1.002 1 42049 42049 0 0 1 36843 5762 23489 23562 41297 41297 0.22141184018323656 VVKILKPVKKK 11 Unmodified _VVKILKPVKKK_ 0 0 0 ENSG00000254598|ENST00000528848|CSNK2A3;ENSG00000101266|ENST00000217244|CSNK2A1;ENSG00000070770|ENST00000262506|CSNK2A2;ENST00000460062.6_1_20:480238-524362:-|nuORF;ENST00000609606.5_1_20:480440-489246:-|nuORF;ENST00000562367.1_1_16:58208309-58230657:-|nuORF ENSG00000254598|ENST00000528848|CSNK2A3 ENSG00000254598|ENST00000528848|CSNK2A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 640.4630126953125 2 640.463033 1278.91151 NaN NaN NaN NaN NaN NaN NaN 102.67 1 102.99 102.49 103.49 0.31863 0 0 0 1.0082 1 47484 47484 0 0 1 36844 1278 23490 23563 41298 41298 0.2832140400653316 VVKKKKFKL 9 Unmodified _VVKKKKFKL_ 0 0 0 nc|ENSG00000053918|P51787-2|KCNQ1;ENSG00000053918|ENST00000155840|KCNQ1 nc|ENSG00000053918|P51787-2|KCNQ1 nc|ENSG00000053918|P51787-2|KCNQ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.2421264648438 2 559.394619 1116.77469 NaN NaN NaN NaN NaN NaN NaN 62.52 1 62.52 62.02 63.02 0 0 0 0 0.91452 1 29306 29306 0 0 1 36845 601 23491 23564 41299 41299 0.22096914846838445 VVKKLKLT 8 Unmodified _VVKKLKLT_ 0 0 0 ENST00000443754.1_1_9:67328347-67334199:-|nuORF ENST00000443754.1_1_9:67328347-67334199:-|nuORF ENST00000443754.1_1_9:67328347-67334199:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 310.17169189453125 3 310.223306 927.648088 NaN NaN NaN NaN NaN NaN NaN 102.06 1 102.12 101.62 102.62 0.057198 0 0 0 0.99035 1 55418 55418 0 0 1 36846 7954 23492 23565 41300 41300 0.18136988621688488 VVKKNTNRKRR 11 Unmodified _VVKKNTNRKRR_ 0 0 0 REV__ENSG00000065526|ENST00000375759|SPEN REV__ENSG00000065526|ENST00000375759|SPEN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 699.9417724609375 2 699.94185 1397.86915 NaN NaN NaN NaN NaN NaN NaN 30.992 1 31.248 30.748 31.748 0.25614 0 0 0 1.0082 1 14106 14106 0 0 1 + 36847 10431 23493 23566 41301 41301 0.18612821650845035 VVKKVTRKI 9 Unmodified _VVKKVTRKI_ 0 0 0 ENSG00000145362|ENST00000357077|ANK2;nc|ENSG00000145362|Q01484-5|ANK2;nc|ENSG00000145362|Q01484-2|ANK2;nc|ENSG00000145362|Q01484-7|ANK2 ENSG00000145362|ENST00000357077|ANK2 ENSG00000145362|ENST00000357077|ANK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1070.742919921875 1 1070.74083 1069.73355 3.6542 0.0039127 1.3048 0.0013971 4.959 0.0053098 1071.746613834076 103.56 0.078384 104.16 104.14 104.22 0.59822 11 9 2 0 0 0 1.2459 1 47920 47920 0 0 1 213240 36848 3462 23494 23567 41302 41302 0.20147153807374707 VVKPRVNSL 9 Unmodified _VVKPRVNSL_ 0 0 0 ENSG00000068394|ENST00000156109|GPKOW ENSG00000068394|ENST00000156109|GPKOW ENSG00000068394|ENST00000156109|GPKOW MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.3208923339844 2 506.319109 1010.62366 3.4311 0.0017372 0.19723 9.9859E-05 3.6283 0.0018371 506.31923742034695 20.154 0.30454 20.807 20.627 20.932 0.65346 47 26 2 0 0 0 0.83994 2 9135 9088;9135 6.7232 0 1 164330 36849 734 23495 23568 41303;41304 41304 0.11877728468175519 VVKRALNI 8 Unmodified _VVKRALNI_ 0 0 0 ENST00000447858.1_1_6:6587295-6587394:-|nuORF ENST00000447858.1_1_6:6587295-6587394:-|nuORF ENST00000447858.1_1_6:6587295-6587394:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 304.8717956542969 3 304.871155 911.591636 NaN NaN NaN NaN NaN NaN NaN 16.323 1 16.323 15.823 16.823 0 0 0 0 0.99035 1 7229 7229 0 0 1 36850 7990 23496 23569 41305 41305 0.13230360785007633 VVKRKRRRKKR 11 Unmodified _VVKRKRRRKKR_ 0 0 0 ENST00000316059.6_1_11:58352348-58378460:+|nuORF ENST00000316059.6_1_11:58352348-58378460:+|nuORF ENST00000316059.6_1_11:58352348-58378460:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 755.8798217773438 2 755.523676 1509.0328 NaN NaN NaN NaN NaN NaN NaN 75.686 1 76.35 75.85 76.85 0.6635 0 0 0 1.0082 1 36655 36655 0 0 1 36851 6901 23497 23570 41306 41306 0.2986446421241453 VVKSVKKKKAL 11 Unmodified _VVKSVKKKKAL_ 0 0 0 REV__nc|ENSG00000182732|P49758-6|RGS6 REV__nc|ENSG00000182732|P49758-6|RGS6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 409.95538330078125 3 409.955219 1226.84383 NaN NaN NaN NaN NaN NaN NaN 75.218 1 75.218 74.718 75.718 0 0 0 0 1.0082 1 36855 36855 0 0 1 + 36852 18070 23498 23571 41307 41307 0.23947954075765665 VVLGEIGG 8 Unmodified _VVLGEIGG_ 0 0 0 nc|ENSG00000131473|P53396-2|ACLY;ENSG00000131473|ENST00000352035|ACLY;nc|ENSG00000131473|P53396-3|ACLY nc|ENSG00000131473|P53396-2|ACLY nc|ENSG00000131473|P53396-2|ACLY MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 372.22052001953125 2 372.218529 742.422505 2.3436 0.00087231 2.2599 0.00084117 4.6034 0.0017135 372.21969332012264 47.792 0.39067 48.622 48.344 48.735 0.82915 52 19 4 0 0 0 0.7471 1 21755 21755 0 0 1 2854200 36853 2662 23499 23572 41308 41308 0.04099039431685014 VVLGPYGPE 9 Unmodified _VVLGPYGPE_ 0 0 0 nc|ENSG00000178996|Q96RF0-3|SNX18;ENSG00000178996|ENST00000381410|SNX18;nc|ENSG00000178996|Q96RF0|SNX18 nc|ENSG00000178996|Q96RF0-3|SNX18 nc|ENSG00000178996|Q96RF0-3|SNX18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 466.2517395019531 2 465.750193 929.485833 1.4888 0.00069342 1.4236 0.00066306 2.9125 0.0013565 465.7518152147532 100.61 0.51323 100.67 100.61 101.12 0.059723 38 26 2 0 0 0 1.101 1 54664 54664 2.3027 1.6124 1 3724000 36854 5192 23500 23573 41309 41309 0.01826980148905477 VVLIKVLIKK 10 Unmodified _VVLIKVLIKK_ 0 0 0 ENST00000344337.10_1_3:122144740-122144905:-|nuORF ENST00000344337.10_1_3:122144740-122144905:-|nuORF ENST00000344337.10_1_3:122144740-122144905:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 576.5252685546875 2 576.925752 1151.83695 NaN NaN NaN NaN NaN NaN NaN 47.843 1 48.673 48.173 49.173 0.82915 0 0 0 1.002 1 21796 21796 0 0 1 36855 7099 23501 23574 41310 41310 0.26710641195154494 VVLLKALLKLI 11 Unmodified _VVLLKALLKLI_ 0 0 0 ENST00000519356.1_1_8:33331766-33367302:-|nuORF;ENSG00000129696|ENST00000431156|TTI2 ENST00000519356.1_1_8:33331766-33367302:-|nuORF ENST00000519356.1_1_8:33331766-33367302:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.9457397460938 2 611.946685 1221.87882 NaN NaN NaN NaN NaN NaN NaN 17.195 1 17.195 16.695 17.695 0 0 0 0 1.0082 1 7635 7635 0 0 1 36856 2562 23502 23575 41311 41311 0.27675196883683384 VVLLKKHIL 9 Unmodified _VVLLKKHIL_ 0 0 0 nc|ENSG00000101782|O14730-2|RIOK3;ENSG00000101782|ENST00000339486|RIOK3;ENST00000581302.5_1_18:21033283-21057068:+|nuORF;ENST00000581339.1_1_18:21053400-21057068:+|nuORF nc|ENSG00000101782|O14730-2|RIOK3 nc|ENSG00000101782|O14730-2|RIOK3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1062.4052734375 1 1062.73976 1061.73249 3.2579 0.0034623 -3.962 -0.0042106 -0.70406 -0.00074824 1062.7378640004972 57.876 0.034199 58.644 58.627 58.661 0.76861 11 7 2 0 0 0 0.11443 1 26530 26530 0 0 1 6238600 36857 1313 23503 23576 41312 41312 0.20408939438448215 VVLLTLKKL 9 Unmodified _VVLLTLKKL_ 0 0 0 REV__ENSG00000163827|ENST00000395905|LRRC2 REV__ENSG00000163827|ENST00000395905|LRRC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.8682861328125 2 513.867903 1025.72125 NaN NaN NaN NaN NaN NaN NaN 91.053 1 91.715 91.215 92.215 0.66198 0 0 0 0.91452 1 41905 41905 0 0 1 + 36858 13033 23504 23577 41313 41313 0.20942117344316102 VVLPIVITLRR 11 Unmodified _VVLPIVITLRR_ 0 0 0 ENST00000432401.5_1_3:10067730-10067880:-|nuORF ENST00000432401.5_1_3:10067730-10067880:-|nuORF ENST00000432401.5_1_3:10067730-10067880:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 639.9343872070312 2 639.93464 1277.85473 NaN NaN NaN NaN NaN NaN NaN 54.457 1 55.124 54.624 55.624 0.6665 0 0 0 1.0082 1 24910 24910 0 0 1 36859 7860 23505 23578 41314 41314 0.22691356449990963 VVLPLVLLAP 10 Unmodified _VVLPLVLLAP_ 0 0 0 REV__ENST00000448759.1_1_1:43352960-43353698:-|nuORF REV__ENST00000448759.1_1_1:43352960-43353698:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 345.2205505371094 3 345.238844 1032.6947 NaN NaN NaN NaN NaN NaN NaN 39.503 1 40.141 39.641 40.641 0.63778 0 0 0 1.0018 1 18053 18053 0.15932 0 1 + 36860 16395 23506 23579 41315 41315 0.1796642845297356 VVLRHPLI 8 Unmodified _VVLRHPLI_ 0 0 0 ENST00000479280.5_1_3:127391883-127395444:+|nuORF;ENSG00000114626|ENST00000232744|ABTB1;ENST00000464431.1_1_3:127395028-127395444:+|nuORF;ENST00000491633.5_1_3:127394949-127398855:+|nuORF;ENST00000483857.5_1_3:127391815-127395444:+|nuORF;nc|ENSG00000114626|Q969K4-2|ABTB1;nc|ENSG00000114626|Q969K4-3|ABTB1 ENST00000479280.5_1_3:127391883-127395444:+|nuORF ENST00000479280.5_1_3:127391883-127395444:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.81292724609375 2 473.813462 945.612371 NaN NaN NaN NaN NaN NaN NaN 36.962 1 37.219 36.719 37.719 0.25768 0 0 0 0.99035 1 16835 16835 2.8892 0 1 36861 1914 23507 23580 41316 41316 0.1373895116469157 VVLRRNPRL 9 Unmodified _VVLRRNPRL_ 0 0 0 REV__nc|ENSG00000138316|Q8WXS8-2|ADAMTS14 REV__nc|ENSG00000138316|Q8WXS8-2|ADAMTS14 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.9126892089844 3 374.912125 1121.71454 NaN NaN NaN NaN NaN NaN NaN 42.42 1 43.229 42.729 43.729 0.80855 0 0 0 0.90431 1 19270 19270 2.4985 0 1 + 36862 12157 23508 23581 41317 41317 0.1585561723632054 VVLSRLVKRGK 11 Unmodified _VVLSRLVKRGK_ 0 0 0 REV__ENSG00000189350|ENST00000379558|TOGARAM2;REV__nc|ENSG00000189350|Q6ZUX3-3|TOGARAM2 REV__ENSG00000189350|ENST00000379558|TOGARAM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 627.9214477539062 2 627.922064 1253.82957 NaN NaN NaN NaN NaN NaN NaN 26.983 1 26.983 26.483 27.483 0 0 0 0 1.0082 1 12149 12149 0 0 1 + 36863 14183;16646 23509 23582 41318 41318 0.2128130164742288 VVLVMIRFIFI 11 Unmodified _VVLVMIRFIFI_ 0 0 0 REV__ENSG00000169562|ENST00000361726|GJB1 REV__ENSG00000169562|ENST00000361726|GJB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 675.4227294921875 2 675.422519 1348.83049 NaN NaN NaN NaN NaN NaN NaN 16.54 1 16.54 16.04 17.04 0 0 0 0 1.0082 1 7328 7328 0 0 1 + 36864 13394 23510 23583 41319 41319 0.17002379972154813 VVMFKKLL 8 Unmodified _VVMFKKLL_ 0 0 0 REV__nc|ENSG00000266094|Q8WWW0-2|RASSF5 REV__nc|ENSG00000266094|Q8WWW0-2|RASSF5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.3158874511719 2 489.314449 976.614345 3.5834 0.0017534 -0.41333 -0.00020225 3.17 0.0015511 489.3142037342608 90.965 0.54002 91.217 90.934 91.474 0.25163 90 28 4 0 0 0 0.7471 1 41904 41904 0.79363 0.79363 1 16533000 + 36865 14707 23511 23584 41320 41320 0.1251024385829851 VVMFKKLL 8 Unmodified _VVMFKKLL_ 0 0 0 REV__nc|ENSG00000266094|Q8WWW0-2|RASSF5 REV__nc|ENSG00000266094|Q8WWW0-2|RASSF5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.31610107421875 2 489.314449 976.614345 3.3782 0.001653 -0.57037 -0.00027909 2.8078 0.0013739 489.3141095448652 90.571 0.52065 91.243 90.979 91.5 0.67271 88 26 5 0 0 0 0.73686 2 41603 41603;41644 2.8892 0 1 30737000 + 36866 14707 23511 23584 41321;41322 41321 0.1251024385829851 VVMFKKLL 8 Unmodified _VVMFKKLL_ 0 0 0 REV__nc|ENSG00000266094|Q8WWW0-2|RASSF5 REV__nc|ENSG00000266094|Q8WWW0-2|RASSF5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 489.314449 976.614345 2.228 0.0010902 0.17642 8.6324E-05 2.4044 0.0011765 489.3142597396511 91.079 0.23415 91.154 91.067 91.301 0.075279 -0.050491 0.00052367 NaN 2.8892 48 34 2 NaN NaN NaN NaN 0 NaN NaN 0 10279000 + 36867 14707 23511 23584 0.1251024385829851 VVNGLLGV 8 Unmodified _VVNGLLGV_ 0 0 0 REV__ENSG00000183625|ENST00000395940|CCR3 REV__ENSG00000183625|ENST00000395940|CCR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 385.7442626953125 2 385.742171 769.469789 NaN NaN NaN NaN NaN NaN NaN 102.83 1 103.14 102.64 103.64 0.31863 0 0 0 0.99035 1 47554 47554 0.79363 0 1 + 36868 13940 23512 23585 41323 41323 0.07583318702677389 VVNLPITL 8 Unmodified _VVNLPITL_ 0 0 0 REV__ENST00000481603.1_1_11:5626782-5632007:+|nuORF REV__ENST00000481603.1_1_11:5626782-5632007:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.7809753417969 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 50.14 1 50.14 49.64 50.64 0 0 0 0 0.99035 1 22955 22955 0.69038 0 1 + 36869 16705 23513 23586 41324 41324 0.10388447425293634 VVNLPITL 8 Unmodified _VVNLPITL_ 0 0 0 REV__ENST00000481603.1_1_11:5626782-5632007:+|nuORF REV__ENST00000481603.1_1_11:5626782-5632007:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.78009033203125 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 57.57 1 58.339 57.839 58.839 0.76861 0 0 0 0.99035 1 26371 26371 2.0598 0 1 + 36870 16705 23513 23586 41325 41325 0.10388447425293634 VVNLPITL 8 Unmodified _VVNLPITL_ 0 0 0 REV__ENST00000481603.1_1_11:5626782-5632007:+|nuORF REV__ENST00000481603.1_1_11:5626782-5632007:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7807922363281 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 46.017 1 46.668 46.168 47.168 0.65104 0 0 0 0.99035 1 21080 21080 0.69038 0 1 + 36871 16705 23513 23586 41326 41326 0.10388447425293634 VVNLPITL 8 Unmodified _VVNLPITL_ 0 0 0 REV__ENST00000481603.1_1_11:5626782-5632007:+|nuORF REV__ENST00000481603.1_1_11:5626782-5632007:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 434.7825012207031 2 434.778754 867.542954 NaN NaN NaN NaN NaN NaN NaN 49.059 1 49.714 49.214 50.214 0.65524 0 0 0 0.99035 1 22444 22444 0.69038 0 1 + 36872 16705 23513 23586 41327 41327 0.10388447425293634 VVNLQTLS 8 Unmodified _VVNLQTLS_ 0 0 0 MER21B_dup2052|chr14:22174158-22174720:-|1.413949278665236|0.0429644055871873|5.04|520.0|34|2|anti-sense MER21B_dup2052|chr14:22174158-22174720:-|1.413949278665236|0.0429644055871873|5.04|520.0|34|2|anti-sense MER21B_dup2052|chr14:22174158-22174720:-|1.413949278665236|0.0429644055871873|5.04|520.0|34|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2575988769531 2 437.255643 872.496732 NaN NaN NaN NaN NaN NaN NaN 43.486 1 44.135 43.635 44.635 0.64872 0 0 0 0.99035 1 19924 19924 4.3292 0 1 36873 9516 23514 23587 41328 41328 0.05538382523195651 VVNSLPSK 8 Unmodified _VVNSLPSK_ 0 0 0 REV__nc|ENSG00000160712|P08887-2|IL6R REV__nc|ENSG00000160712|P08887-2|IL6R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.251953125 2 422.25036 842.486168 NaN NaN NaN NaN NaN NaN NaN 103.1 1 103.1 102.6 103.6 0 0 0 0 0.99035 1 56858 56858 0.6015 0 1 + 36874 12889 23515 23588 41329 41329 0.05862399868772172 VVPGVLVGG 9 Unmodified _VVPGVLVGG_ 0 0 0 REV__ENST00000289805.9_1_16:89762860-89763136:-|nuORF REV__ENST00000289805.9_1_16:89762860-89763136:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.769287109375 2 398.749996 795.485439 2.9023 0.0011573 1.9994 0.00079727 4.9017 0.0019545 398.7513827088166 27.624 0.18317 27.887 27.803 27.986 0.26245 19 11 2 0 0 0 0.11443 1 12573 12573 0 0 1 212370 + 36875 15121 23516 23589 41330 41330 0.07951605219727753 VVPIPVVKKKK 11 Unmodified _VVPIPVVKKKK_ 0 0 0 ENSG00000103888|ENST00000394685|CEMIP ENSG00000103888|ENST00000394685|CEMIP ENSG00000103888|ENST00000394685|CEMIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 412.29168701171875 3 412.291831 1233.85366 NaN NaN NaN NaN NaN NaN NaN 103 1 103 102.5 103.5 0 0 0 0 1.0082 1 56812 56812 0 0 1 36876 1415 23517 23590 41331 41331 0.24609142081112623 VVPIPVVKKKK 11 Unmodified _VVPIPVVKKKK_ 0 0 0 ENSG00000103888|ENST00000394685|CEMIP ENSG00000103888|ENST00000394685|CEMIP ENSG00000103888|ENST00000394685|CEMIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 412.3064270019531 3 412.291831 1233.85366 NaN NaN NaN NaN NaN NaN NaN 103.15 1 103.15 102.65 103.65 0 0 0 0 1.0082 1 56881 56881 0 0 1 36877 1415 23517 23590 41332 41332 0.24609142081112623 VVPIPVVKKKK 11 Unmodified _VVPIPVVKKKK_ 0 0 0 ENSG00000103888|ENST00000394685|CEMIP ENSG00000103888|ENST00000394685|CEMIP ENSG00000103888|ENST00000394685|CEMIP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 412.2913818359375 3 412.291831 1233.85366 NaN NaN NaN NaN NaN NaN NaN 103.03 1 103.08 102.58 103.58 0.055092 0 0 0 1.0082 1 55892 55892 0 0 1 36878 1415 23517 23590 41333 41333 0.24609142081112623 VVPKPFRPIL 10 Unmodified _VVPKPFRPIL_ 0 0 0 nc|ENSG00000172269|Q9H3H5-2|DPAGT1;ENSG00000172269|ENST00000354202|DPAGT1;nc|ENSG00000172269|Q9H3H5-3|DPAGT1;ENST00000392834.7_1_11:118967710-118972378:-|nuORF;ENST00000533687.1_1_11:118971334-118971544:-|nuORF;ENST00000414373.5_1_11:118967985-118971732:-|nuORF nc|ENSG00000172269|Q9H3H5-2|DPAGT1 nc|ENSG00000172269|Q9H3H5-2|DPAGT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.255126953125 3 389.253376 1164.7383 3.1087 0.0012101 0.50404 0.0001962 3.6128 0.0014063 389.2535990543301 41.887 0.47995 42.157 41.842 42.321 0.27021 65 42 2 0 0 0 0.93584 1 18975 18975 1.7423 1.7423 1 26728000 36879 4864 23518 23591 41334 41334 0.16252037950130216 VVPKSSLV 8 Unmodified _VVPKSSLV_ 0 0 0 ENST00000586173.1_1_19:30099701-30099833:+|nuORF ENST00000586173.1_1_19:30099701-30099833:+|nuORF ENST00000586173.1_1_19:30099701-30099833:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.76556396484375 2 414.763104 827.511654 3.1944 0.0013249 2.4826 0.0010297 5.677 0.0023546 414.76418192232114 102.76 0.083267 103.35 103.3 103.38 0.59759 7 4 2 0 0 0 0.7471 1 47563 47563 0.79363 0 1 824200 36880 9182 23519 23592 41335 41335 0.09099874391199592 VVPKSSLV 8 Unmodified _VVPKSSLV_ 0 0 0 ENST00000586173.1_1_19:30099701-30099833:+|nuORF ENST00000586173.1_1_19:30099701-30099833:+|nuORF ENST00000586173.1_1_19:30099701-30099833:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 414.763104 827.511654 3.7871 0.0015708 2.6686 0.0011068 6.4557 0.0026776 414.76409944108025 102.83 0.066917 103.15 103.09 103.16 0.31863 -0.10061 3.0672E-05 NaN 0.79363 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 845690 36881 9182 23519 23592 0.09099874391199592 VVPSGGFFPTI 11 Unmodified _VVPSGGFFPTI_ 0 0 0 ENSG00000167778|ENST00000301463|SPRYD3 ENSG00000167778|ENST00000301463|SPRYD3 ENSG00000167778|ENST00000301463|SPRYD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.8080444335938 2 560.8055 1119.59645 3.7574 0.0021072 0.61088 0.00034258 4.3683 0.0024498 561.3070803065879 87.067 0.35963 87.317 87.26 87.62 0.24974 26 17 2 0 0 0 0.17308 1 40142 40142 29.082 10.935 1 895120 36882 4581 23520 23593 41336 41336 0.04143200137150416 VVPSRLLLLLL 11 Unmodified _VVPSRLLLLLL_ 0 0 0 REV__ENST00000419769.6_1_10:127408273-127409798:+|nuORF REV__ENST00000419769.6_1_10:127408273-127409798:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 618.1124267578125 2 618.426116 1234.83768 NaN NaN NaN NaN NaN NaN NaN 84.73 1 84.73 84.23 85.23 0 0 0 0 1.0082 1 42961 42961 0 0 1 + 36883 16160 23521 23594 41337 41337 0.2296543584425308 VVPYREGEIIG 11 Unmodified _VVPYREGEIIG_ 0 0 0 REV__ENSG00000086200|ENST00000325324|IPO11 REV__ENSG00000086200|ENST00000325324|IPO11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 411.2291259765625 3 411.227556 1230.66084 2.9998 0.0012336 0.67906 0.00027925 3.6789 0.0015129 411.22759365726904 26.261 0.15935 26.526 26.426 26.586 0.26489 16 12 2 0 0 0 0.91028 1 11943 11943 1.4551 0.24029 1 154160 + 36884 10653 23522 23595 41338 41338 0.054733552232846705 VVQGGRPR 8 Unmodified _VVQGGRPR_ 0 0 0 REV__ENST00000358752.3_1_11:94278827-94278965:+|nuORF REV__ENST00000358752.3_1_11:94278827-94278965:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.7603454589844 2 434.759218 867.503883 2.7605 0.0012001 0.78701 0.00034216 3.5475 0.0015423 434.75960554205204 77.784 0.29744 78.037 77.93 78.228 0.25335 25 16 2 0 0 0 0.7441 1 35828 35828 2.3027 0 1 479180 + 36885 15585 23523 23596 41339 41339 0.06483159914273529 VVQGGRPR 8 Unmodified _VVQGGRPR_ 0 0 0 REV__ENST00000358752.3_1_11:94278827-94278965:+|nuORF REV__ENST00000358752.3_1_11:94278827-94278965:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 434.759218 867.503883 2.7605 0.0012001 0.78701 0.00034216 3.5475 0.0015423 434.75960554205204 77.784 0.29744 78.037 77.93 78.228 0.25335 -0.060727 -3.7955E-05 NaN 2.3027 25 16 2 NaN NaN NaN NaN 0 NaN NaN 0 479180 + 36886 15585 23523 23596 0.06483159914273529 VVQKRPKRI 9 Unmodified _VVQKRPKRI_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;nc|ENSG00000155657|Q8WZ42-5|TTN;nc|ENSG00000155657|Q8WZ42-9|TTN;nc|ENSG00000155657|Q8WZ42-10|TTN;nc|ENSG00000155657|Q8WZ42-3|TTN ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.2244873046875 2 562.374749 1122.73495 NaN NaN NaN NaN NaN NaN NaN 55.237 1 55.237 54.737 55.737 0 0 0 0 0.91206 1 25369 25369 0.6015 0 1 36887 3871 23524 23597 41340 41340 0.1784878789612776 VVQPGIKKPRG 11 Unmodified _VVQPGIKKPRG_ 0 0 0 REV__ENSG00000178177|ENST00000635767|LCORL REV__ENSG00000178177|ENST00000635767|LCORL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.58428955078125 3 393.583785 1177.72953 NaN NaN NaN NaN NaN NaN NaN 78.477 1 78.73 78.23 79.23 0.25335 0 0 0 1.0072 1 36139 36139 1.3296 0.21989 1 + 36888 13754 23525 23598 41341 41341 0.14777064313625488 VVQQLRSQ 8 Unmodified _VVQQLRSQ_ 0 0 0 REV__ENST00000471850.1_1_3:119298548-119305161:+|nuORF REV__ENST00000471850.1_1_3:119298548-119305161:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.27923583984375 2 479.277441 956.540328 3.5817 0.0017166 0.08709 4.174E-05 3.6688 0.0017584 479.27737618362744 92.316 0.43465 92.568 92.343 92.778 0.25254 63 22 4 0 0 0 0.7471 1 42427 42427 0.69038 0 1 2324000 + 36889 16609 23526 23599 41342 41342 0.060319920203255606 VVRAARNA 8 Unmodified _VVRAARNA_ 0 0 0 ENST00000477162.1_1_6:33288364-33289602:-|nuORF;ENST00000498030.1_1_6:33289494-33289647:-|nuORF;ENST00000266000.10_2_6:33289121-33289671:-|nuORF ENST00000477162.1_1_6:33288364-33289602:-|nuORF ENST00000477162.1_1_6:33288364-33289602:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 428.7610778808594 2 428.759218 855.503883 3.5881 0.0015385 -0.2808 -0.0001204 3.3073 0.0014181 428.7590447463973 94.663 0.40395 94.923 94.709 95.113 0.25975 58 23 3 0 0 0 0.7471 1 43464 43464 0.69038 0 1 1246300 36890 6626 23527 23600 41343 41343 0.07035159914266842 VVRFFVCLPL 10 Unmodified _VVRFFVCLPL_ 0 0 0 REV__ENSG00000186188|ENST00000371481|FFAR4 REV__ENSG00000186188|ENST00000371481|FFAR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.8483276367188 2 596.849187 1191.68382 NaN NaN NaN NaN NaN NaN NaN 57.207 1 57.207 56.707 57.707 0 0 0 0 0.98473 1 26361 26361 7.9102 3.1541 1 + 36891 14048 23528 23601 41344 41344 0.09564702807051617 VVRFTLRL 8 Unmodified _VVRFTLRL_ 0 0 0 ENST00000412816.7_1_18:1269657-1269717:-|nuORF ENST00000412816.7_1_18:1269657-1269717:-|nuORF ENST00000412816.7_1_18:1269657-1269717:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.3238220214844 2 502.324194 1002.63383 NaN NaN NaN NaN NaN NaN NaN 87.718 1 88.396 87.896 88.896 0.67818 0 0 0 0.99035 1 40403 40403 2.5775 0 1 36892 7685 23529 23602 41345 41345 0.13262336193406554 VVRGKIRL 8 Unmodified _VVRGKIRL_ 0 0 0 ENSG00000164484|ENST00000296978|TMEM200A ENSG00000164484|ENST00000296978|TMEM200A ENSG00000164484|ENST00000296978|TMEM200A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 314.2179870605469 3 314.218666 939.634169 NaN NaN NaN NaN NaN NaN NaN 36.121 1 36.912 36.412 37.412 0.7915 0 0 0 0.99035 1 16371 16371 0.45834 0 1 36893 4319 23530 23603 41346 41346 0.16193755913252517 VVRGKIRL 8 Unmodified _VVRGKIRL_ 0 0 0 ENSG00000164484|ENST00000296978|TMEM200A ENSG00000164484|ENST00000296978|TMEM200A ENSG00000164484|ENST00000296978|TMEM200A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 314.21832275390625 3 314.218666 939.634169 NaN NaN NaN NaN NaN NaN NaN 41.225 1 41.869 41.369 42.369 0.64451 0 0 0 0.99035 1 18857 18857 0.45834 0 1 36894 4319 23530 23603 41347 41347 0.16193755913252517 VVRKAAPR 8 Unmodified _VVRKAAPR_ 0 0 0 REV__ENST00000409072.3_2_7:38725570-38725973:-|nuORF REV__ENST00000409072.3_2_7:38725570-38725973:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 896.579345703125 1 896.578845 895.571569 4.1353 0.0037076 -0.19325 -0.00017327 3.942 0.0035343 896.5782605999295 103.28 0.16994 103.88 103.8 103.97 0.59821 16 9 2 0 0 0 0.7471 1 47772 47772 0 0 1 307610 + 36895 16088 23531 23604 41348 41348 0.11960609845073122 VVRLLLKHL 9 Unmodified _VVRLLLKHL_ 0 0 0 ENST00000415574.6_1_2:132263967-132275411:+|nuORF;ENST00000482171.5_1_2:130914007-130915206:-|nuORF;nc|ENSG00000136699|Q9NXE4-10|SMPD4;nc|ENSG00000136699|Q9NXE4-7|SMPD4;nc|ENSG00000136699|Q9NXE4-8|SMPD4;nc|ENSG00000136699|Q9NXE4-3|SMPD4;nc|ENSG00000136699|Q9NXE4-6|SMPD4;ENSG00000136699|ENST00000680298|SMPD4;nc|ENSG00000136699|Q9NXE4-2|SMPD4;nc|ENSG00000136699|Q9NXE4|SMPD4;nc|ENSG00000136699|Q9NXE4-4|SMPD4 ENST00000415574.6_1_2:132263967-132275411:+|nuORF ENST00000415574.6_1_2:132263967-132275411:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.8750610351562 2 545.876594 1089.73863 NaN NaN NaN NaN NaN NaN NaN 92.092 1 92.175 91.675 92.675 0.082848 0 0 0 0.91452 1 47902 47902 0 0 1 36896 2965 23532 23605 41349 41349 0.1973545766998086 VVRLRSDV 8 Unmodified _VVRLRSDV_ 0 0 0 ENST00000519256.5_1_5:170585477-170669877:+|nuORF;ENST00000519949.5_1_5:170395310-170725859:+|nuORF ENST00000519256.5_1_5:170585477-170669877:+|nuORF ENST00000519256.5_1_5:170585477-170669877:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 315.1961975097656 3 315.194298 942.561064 NaN NaN NaN NaN NaN NaN NaN 70.683 1 70.94 70.44 71.44 0.25642 0 0 0 0.99035 1 32371 32371 1.6526 0 1 36897 8619 23533 23606 41350 41350 0.0874858239999412 VVRLSARIRP 10 Unmodified _VVRLSARIRP_ 0 0 0 nc|ENSG00000100242|Q9UH99-3|SUN2;ENSG00000100242|ENST00000689035|SUN2;nc|ENSG00000100242|Q9UH99-2|SUN2 nc|ENSG00000100242|Q9UH99-3|SUN2 nc|ENSG00000100242|Q9UH99-3|SUN2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.5888366699219 3 389.58753 1165.74076 2.9249 0.0011395 1.9376 0.00075485 4.8625 0.0018944 389.588174349011 46.113 0.33883 46.378 46.17 46.509 0.26561 18 15 2 0 0 0 0.90859 1 21075 21075 1.5923 0 1 443410 36898 1194 23534 23607 41351 41351 0.16451886407776328 VVRRRRHRRRR 11 Unmodified _VVRRRRHRRRR_ 0 0 0 ENST00000498611.5_1_22:50657979-50682900:-|nuORF ENST00000498611.5_1_22:50657979-50682900:-|nuORF ENST00000498611.5_1_22:50657979-50682900:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 802.0115356445312 2 802.014873 1602.01519 NaN NaN NaN NaN NaN NaN NaN 87.668 1 87.708 87.208 88.208 0.039955 0 0 0 1.0082 1 44450 44450 0 0 1 36899 8464 23535 23608 41352 41352 0.23826561730106732 VVRRRRRRRRR 11 Unmodified _VVRRRRRRRRR_ 0 0 0 ENST00000356978.8_1_14:90863393-90866410:+|nuORF;ENST00000447653.7_1_14:90863393-90865345:+|nuORF ENST00000356978.8_1_14:90863393-90866410:+|nuORF ENST00000356978.8_1_14:90863393-90866410:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.53369140625 2 811.535972 1621.05739 NaN NaN NaN NaN NaN NaN NaN 72.183 1 72.887 72.387 73.387 0.70386 0 0 0 1.0082 1 34723 34723 0 0 1 36900 7167 23536 23609 41353 41353 0.2717053713849964 VVSILLLSL 9 Unmodified _VVSILLLSL_ 0 0 0 ENST00000470943.1_1_19:55177267-55178470:+|nuORF;nc|ENSG00000186818|Q8NHJ6-2|LILRB4;nc|ENSG00000186818|Q8NHJ6|LILRB4;ENSG00000186818|ENST00000695418|LILRB4;nc|ENSG00000186818|Q8NHJ6-3|LILRB4 ENST00000470943.1_1_19:55177267-55178470:+|nuORF ENST00000470943.1_1_19:55177267-55178470:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.8251953125 2 478.823161 955.631769 NaN NaN NaN NaN NaN NaN NaN 1.3052 1 1.6987 1.1987 2.1987 0.39356 0 0 0 0.91452 1 594 594 0 0 1 36901 5587 23537 23610 41354 41354 0.15217862664962922 VVSILLLSL 9 Unmodified _VVSILLLSL_ 0 0 0 ENST00000470943.1_1_19:55177267-55178470:+|nuORF;nc|ENSG00000186818|Q8NHJ6-2|LILRB4;nc|ENSG00000186818|Q8NHJ6|LILRB4;ENSG00000186818|ENST00000695418|LILRB4;nc|ENSG00000186818|Q8NHJ6-3|LILRB4 ENST00000470943.1_1_19:55177267-55178470:+|nuORF ENST00000470943.1_1_19:55177267-55178470:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.82598876953125 2 478.823161 955.631769 NaN NaN NaN NaN NaN NaN NaN 4.6931 1 5.0581 4.5581 5.5581 0.36497 0 0 0 0.91452 1 2129 2129 0 0 1 36902 5587 23537 23610 41355 41355 0.15217862664962922 VVSILLLSL 9 Unmodified _VVSILLLSL_ 0 0 0 ENST00000470943.1_1_19:55177267-55178470:+|nuORF;nc|ENSG00000186818|Q8NHJ6-2|LILRB4;nc|ENSG00000186818|Q8NHJ6|LILRB4;ENSG00000186818|ENST00000695418|LILRB4;nc|ENSG00000186818|Q8NHJ6-3|LILRB4 ENST00000470943.1_1_19:55177267-55178470:+|nuORF ENST00000470943.1_1_19:55177267-55178470:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.8254089355469 2 478.823161 955.631769 NaN NaN NaN NaN NaN NaN NaN 2.5651 1 2.8693 2.3693 3.3693 0.3042 0 0 0 0.91452 1 1168 1168 0 0 1 36903 5587 23537 23610 41356 41356 0.15217862664962922 VVSILLLSL 9 Unmodified _VVSILLLSL_ 0 0 0 ENST00000470943.1_1_19:55177267-55178470:+|nuORF;nc|ENSG00000186818|Q8NHJ6-2|LILRB4;nc|ENSG00000186818|Q8NHJ6|LILRB4;ENSG00000186818|ENST00000695418|LILRB4;nc|ENSG00000186818|Q8NHJ6-3|LILRB4 ENST00000470943.1_1_19:55177267-55178470:+|nuORF ENST00000470943.1_1_19:55177267-55178470:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 478.8253173828125 2 478.823161 955.631769 NaN NaN NaN NaN NaN NaN NaN 3.759 1 4.0632 3.5632 4.5632 0.3042 0 0 0 0.91452 1 1707 1707 0 0 1 36904 5587 23537 23610 41357 41357 0.15217862664962922 VVSILLLSL 9 Unmodified _VVSILLLSL_ 0 0 0 ENST00000470943.1_1_19:55177267-55178470:+|nuORF;nc|ENSG00000186818|Q8NHJ6-2|LILRB4;nc|ENSG00000186818|Q8NHJ6|LILRB4;ENSG00000186818|ENST00000695418|LILRB4;nc|ENSG00000186818|Q8NHJ6-3|LILRB4 ENST00000470943.1_1_19:55177267-55178470:+|nuORF ENST00000470943.1_1_19:55177267-55178470:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 478.825439453125 2 478.823161 955.631769 NaN NaN NaN NaN NaN NaN NaN 12.237 1 12.874 12.374 13.374 0.63746 0 0 0 0.91452 1 5454 5454 0 0 1 36905 5587 23537 23610 41358 41358 0.15217862664962922 VVSKIRKKL 9 Unmodified _VVSKIRKKL_ 0 0 0 REV__ENSG00000212124|ENST00000390673|TAS2R19 REV__ENSG00000212124|ENST00000390673|TAS2R19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.8759155273438 2 535.874051 1069.73355 3.4352 0.0018408 -0.41467 -0.00022221 3.0205 0.0016186 535.8734071745531 103.54 0.13725 104.14 104.09 104.23 0.59821 39 21 2 0 0 0 1.2459 1 47879 47879 0 0 1 612920 + 36906 14482 23538 23611 41359 41359 0.2014715380735197 VVSKVRRK 8 Unmodified _VVSKVRRK_ 0 0 0 REV__ENSG00000226761|ENST00000533467|TAS2R46 REV__ENSG00000226761|ENST00000533467|TAS2R46 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.3293762207031 2 486.327268 970.639983 NaN NaN NaN NaN NaN NaN NaN 102.14 1 102.46 101.96 102.96 0.31737 0 0 0 0.99035 1 47253 47253 0.69038 0 1 + 36907 14560 23539 23612 41360 41360 0.15348854424939873 VVSVHIKILRI 11 Unmodified _VVSVHIKILRI_ 0 0 0 REV__ENST00000562074.2_1_16:66839665-66839833:-|nuORF REV__ENST00000562074.2_1_16:66839665-66839833:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 638.9251098632812 2 638.926815 1275.83908 NaN NaN NaN NaN NaN NaN NaN 90.067 1 90.318 89.818 90.818 0.25137 0 0 0 1.008 1 41419 41419 0.30703 0 1 + 36908 17379 23540 23613 41361 41361 0.2121906993295397 VVTALLAPSR 10 Unmodified _VVTALLAPSR_ 0 0 0 ENSG00000105131|ENST00000221730|EPHX3 ENSG00000105131|ENST00000221730|EPHX3 ENSG00000105131|ENST00000221730|EPHX3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.8200073242188 2 513.818941 1025.62333 NaN NaN NaN NaN NaN NaN NaN 8.1309 1 8.4371 7.9371 8.9371 0.30618 0 0 0 1.002 1 3679 3679 0 0 1 36909 1471 23541 23614 41362 41362 0.11154308748314179 VVTALLAPSR 10 Unmodified _VVTALLAPSR_ 0 0 0 ENSG00000105131|ENST00000221730|EPHX3 ENSG00000105131|ENST00000221730|EPHX3 ENSG00000105131|ENST00000221730|EPHX3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.8201904296875 2 513.818941 1025.62333 NaN NaN NaN NaN NaN NaN NaN 8.3762 1 8.6824 8.1824 9.1824 0.30618 0 0 0 1.002 1 3789 3789 0 0 1 36910 1471 23541 23614 41363 41363 0.11154308748314179 VVTALLAPSR 10 Unmodified _VVTALLAPSR_ 0 0 0 ENSG00000105131|ENST00000221730|EPHX3 ENSG00000105131|ENST00000221730|EPHX3 ENSG00000105131|ENST00000221730|EPHX3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.8201293945312 2 513.818941 1025.62333 NaN NaN NaN NaN NaN NaN NaN 8.5131 1 8.8193 8.3193 9.3193 0.30618 0 0 0 1.002 1 3851 3851 0 0 1 36911 1471 23541 23614 41364 41364 0.11154308748314179 VVTALLAPSR 10 Unmodified _VVTALLAPSR_ 0 0 0 ENSG00000105131|ENST00000221730|EPHX3 ENSG00000105131|ENST00000221730|EPHX3 ENSG00000105131|ENST00000221730|EPHX3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.8199462890625 2 513.818941 1025.62333 NaN NaN NaN NaN NaN NaN NaN 8.7568 1 9.0634 8.5634 9.5634 0.30663 0 0 0 1.002 1 3961 3961 0 0 1 36912 1471 23541 23614 41365 41365 0.11154308748314179 VVTALLAPSR 10 Unmodified _VVTALLAPSR_ 0 0 0 ENSG00000105131|ENST00000221730|EPHX3 ENSG00000105131|ENST00000221730|EPHX3 ENSG00000105131|ENST00000221730|EPHX3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.820556640625 2 513.818941 1025.62333 NaN NaN NaN NaN NaN NaN NaN 9.4454 1 9.7521 9.2521 10.252 0.30663 0 0 0 1.002 1 4274 4274 0 0 1 36913 1471 23541 23614 41366 41366 0.11154308748314179 VVTFITNVV 9 Unmodified _VVTFITNVV_ 0 0 0 REV__ENST00000490763.1_1_12:8078421-8082456:-|nuORF REV__ENST00000490763.1_1_12:8078421-8082456:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.19964599609375 3 331.198937 990.574983 2.2456 0.00074375 1.8089 0.00059912 4.0546 0.0013429 331.1988000847955 28.901 0.71381 29.519 29.141 29.854 0.61789 75 50 3 0 0 0 1.1154 1 13189 13189 1.0715 0 1 941010 + 36914 10391 23542 23615 41367 41367 0.07931815108429419 VVVAAAAAAA 10 Unmodified _VVVAAAAAAA_ 0 0 0 REV__ENST00000359204.4_1_10:95457906-95462310:-|nuORF REV__ENST00000359204.4_1_10:95457906-95462310:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 813.4880981445312 1 813.482879 812.475603 4.7072 0.0038292 -0.94051 -0.00076509 3.7667 0.0030642 813.4823458492317 103.3 0.099991 103.62 103.56 103.66 0.31863 9 6 2 0 0 0 0.94443 1 47757 47757 0 0 1 176490 + 36915 15593 23543 23616 41368 41368 0.06186417214303219 VVVAAAAAAA 10 Unmodified _VVVAAAAAAA_ 0 0 0 REV__ENST00000359204.4_1_10:95457906-95462310:-|nuORF REV__ENST00000359204.4_1_10:95457906-95462310:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 813.4844970703125 1 813.482879 812.475603 4.1592 0.0033834 -1.2316 -0.0010019 2.9275 0.0023815 813.4815677369744 103.25 0.13429 103.85 103.79 103.92 0.59821 10 8 2 0 0 0 0.94443 1 47773 47773 0 0 1 190720 + 36916 15593 23543 23616 41369 41369 0.06186417214303219 VVVAAAAAAA 10 Unmodified _VVVAAAAAAA_ 0 0 0 REV__ENST00000359204.4_1_10:95457906-95462310:-|nuORF REV__ENST00000359204.4_1_10:95457906-95462310:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 813.482879 812.475603 4.7072 0.0038292 -0.94051 -0.00076509 3.7667 0.0030642 813.4823458492317 103.3 0.099991 103.62 103.56 103.66 0.31863 -0.11599 0.00016845 NaN 0 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 176490 + 36917 15593 23543 23616 0.06186417214303219 VVVAAAAAAA 10 Unmodified _VVVAAAAAAA_ 0 0 0 REV__ENST00000359204.4_1_10:95457906-95462310:-|nuORF REV__ENST00000359204.4_1_10:95457906-95462310:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 813.482879 812.475603 4.1592 0.0033834 -1.2316 -0.0010019 2.9275 0.0023815 813.4815677369744 103.25 0.13429 103.85 103.79 103.92 0.59821 0.11599 -6.8374E-05 NaN 0 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 190720 + 36918 15593 23543 23616 0.06186417214303219 VVVERKSHI 9 Unmodified _VVVERKSHI_ 0 0 0 ENST00000561023.1_1_14:103803039-103803276:+|nuORF ENST00000561023.1_1_14:103803039-103803276:+|nuORF ENST00000561023.1_1_14:103803039-103803276:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 356.22894287109375 3 356.217102 1065.62948 NaN NaN NaN NaN NaN NaN NaN 92.623 1 92.876 92.376 93.376 0.25253 0 0 0 0.91014 1 42576 42576 1.0715 0.10919 1 36919 8979 23544 23617 41370 41370 0.09928826979853511 VVVGLLFH 8 Unmodified _VVVGLLFH_ 0 0 0 REV__nc|ENSG00000184307|Q8IYP9|ZDHHC23 REV__nc|ENSG00000184307|Q8IYP9|ZDHHC23 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 442.27496337890625 2 442.273638 882.532724 NaN NaN NaN NaN NaN NaN NaN 55.373 1 55.639 55.139 56.139 0.26543 0 0 0 0.91812 1 25322 25322 11.114 0 1 + 36920 13965 23545 23618 41371 41371 0.08675884490708086 VVVGVPTLG 9 Unmodified _VVVGVPTLG_ 0 0 0 REV__ENST00000511405.1_1_5:111575355-111600594:-|nuORF REV__ENST00000511405.1_1_5:111575355-111600594:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 420.7657470703125 2 420.763104 839.511654 NaN NaN NaN NaN NaN NaN NaN 28.947 1 29.565 29.065 30.065 0.61789 0 0 0 0.91452 1 13273 13273 0 0 1 + 36921 11790 23546 23619 41372 41372 0.0854787439119491 VVVLLLLLII 10 Unmodified _VVVLLLLLII_ 0 0 0 ENSG00000165349|ENST00000374299|SLC7A3 ENSG00000165349|ENST00000374299|SLC7A3 ENSG00000165349|ENST00000374299|SLC7A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.3152465820312 2 554.409404 1106.80425 NaN NaN NaN NaN NaN NaN NaN 15.615 1 15.826 15.326 16.326 0.21108 0 0 0 1.002 1 6890 6890 0 0 1 36922 4394 23547 23620 41373 41373 0.25512434072334145 VVVMPVIVLP 10 Unmodified _VVVMPVIVLP_ 0 0 0 REV__ENSG00000196576|ENST00000359337|PLXNB2 REV__ENSG00000196576|ENST00000359337|PLXNB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.34228515625 2 533.340664 1064.66677 3.9002 0.0020801 -0.53586 -0.00028579 3.3643 0.0017943 533.3403467728467 101.99 0.15999 102.31 102.21 102.37 0.31737 8 5 2 0 0 0 0.94217 1 47190 47190 0.45834 0 1 662660 + 36923 14232 23548 23621 41374 41374 0.1370278220124419 VVVNGGIV 8 Unmodified _VVVNGGIV_ 0 0 0 ALG10|p.Q290Nfs*29|1|0.19|ENSG00000139133|chr12:34026361-34026361|C/-|frameshift_variant;ENSG00000175548|ENST00000308742|ALG10B;ENSG00000139133|ENST00000266483|ALG10 ALG10|p.Q290Nfs*29|1|0.19|ENSG00000139133|chr12:34026361-34026361|C/-|frameshift_variant ALG10|p.Q290Nfs*29|1|0.19|ENSG00000139133|chr12:34026361-34026361|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 378.73638916015625 2 378.734346 755.454139 NaN NaN NaN NaN NaN NaN NaN 58.844 1 58.844 58.344 59.344 0 0 0 0 0.99035 1 27177 27177 2.5775 0 1 36924 24 23549 23622 41375 41375 0.06663032185622342 VVVPTAGG 8 Unmodified _VVVPTAGG_ 0 0 0 REV__ENSG00000151474|ENST00000357447|FRMD4A REV__ENSG00000151474|ENST00000357447|FRMD4A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 350.20745849609375 2 350.205421 698.39629 NaN NaN NaN NaN NaN NaN NaN 44.903 1 45.724 45.224 46.224 0.82075 0 0 0 0.99035 1 20449 20449 2.3027 1.5091 1 + 36925 12615 23550 23623 41376 41376 0.035027702601951205 VVVRIHIF 8 Unmodified _VVVRIHIF_ 0 0 0 ENSG00000255398|ENST00000528880|HCAR3 ENSG00000255398|ENST00000528880|HCAR3 ENSG00000255398|ENST00000528880|HCAR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.2035217285156 3 328.2114 981.612371 NaN NaN NaN NaN NaN NaN NaN 47.176 1 47.44 46.94 47.94 0.26363 0 0 0 0.99035 1 21559 21559 1.8442 0 1 36926 6285 23551 23624 41377 41377 0.12082951164700262 VVVRIHIFW 9 Unmodified _VVVRIHIFW_ 0 0 0 ENSG00000255398|ENST00000528880|HCAR3 ENSG00000255398|ENST00000528880|HCAR3 ENSG00000255398|ENST00000528880|HCAR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.8524780273438 2 584.853119 1167.69168 NaN NaN NaN NaN NaN NaN NaN 3.3682 1 3.7445 3.2445 4.2445 0.37632 0 0 0 0.91206 1 1529 1529 0.6015 0.076735 1 36927 6285 23552 23625 41378 41378 0.11454598118825743 VVVSLFFFLF 10 Unmodified _VVVSLFFFLF_ 0 0 0 ENST00000518876.1_1_8:97245315-97245435:-|nuORF ENST00000518876.1_1_8:97245315-97245435:-|nuORF ENST00000518876.1_1_8:97245315-97245435:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 609.3546752929688 2 609.352086 1216.68962 NaN NaN NaN NaN NaN NaN NaN 103.36 1 103.95 103.45 104.45 0.59821 0 0 0 0.99983 1 47815 47815 1.8442 0.19162 1 36928 8612 23553 23626 41379 41379 0.08994124590344654 VVVVNRNLPL 10 Unmodified _VVVVNRNLPL_ 0 0 0 ENSG00000120278|ENST00000696526|PLEKHG1 ENSG00000120278|ENST00000696526|PLEKHG1 ENSG00000120278|ENST00000696526|PLEKHG1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.8527221679688 2 561.853316 1121.69208 NaN NaN NaN NaN NaN NaN NaN 79.451 1 79.702 79.202 80.202 0.25127 0 0 0 1.0003 1 36586 36586 1.4819 0 1 36929 2187 23554 23627 41380 41380 0.13609973048028223 VVWAAIKPG 9 Unmodified _VVWAAIKPG_ 0 0 0 nc|ENSG00000148408|Q00975-2|CACNA1B;ENSG00000148408|ENST00000371372|CACNA1B nc|ENSG00000148408|Q00975-2|CACNA1B nc|ENSG00000148408|Q00975-2|CACNA1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 470.7851257324219 2 470.78437 939.554188 2.8867 0.001359 -0.48871 -0.00023008 2.398 0.0011289 470.78403037520087 40.325 0.29626 40.325 40.172 40.468 0 24 9 3 0 0 0 0.14729 1 18303 18303 26.884 3.7352 1 2980800 36930 3605 23555 23628 41381 41381 0.081992695194117 VVWAAIKPG 9 Unmodified _VVWAAIKPG_ 0 0 0 nc|ENSG00000148408|Q00975-2|CACNA1B;ENSG00000148408|ENST00000371372|CACNA1B nc|ENSG00000148408|Q00975-2|CACNA1B nc|ENSG00000148408|Q00975-2|CACNA1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 470.7857360839844 2 470.78437 939.554188 3.1049 0.0014617 -0.59704 -0.00028108 2.5078 0.0011806 470.7840213587879 39.547 0.35251 40.184 40.029 40.382 0.63778 45 16 3 0 0 0 0.22507 1 18148 18148 21.747 0 1 12176000 36931 3605 23555 23628 41382 41382 0.081992695194117 VVWGPSRS 8 Unmodified _VVWGPSRS_ 0 0 0 ENST00000596426.5_1_19:49839037-49841209:+|nuORF ENST00000596426.5_1_19:49839037-49841209:+|nuORF ENST00000596426.5_1_19:49839037-49841209:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 444.2419738769531 2 444.240327 886.466101 3.1492 0.001399 0.28336 0.00012588 3.4325 0.0015249 444.24026282329544 56.496 0.27532 57.164 57.021 57.296 0.66829 28 16 2 0 0 0 0.70799 1 25843 25843 5.2307 0 1 1650600 36932 9277 23556 23629 41383 41383 0.01832648928814251 VVWGPSRS 8 Unmodified _VVWGPSRS_ 0 0 0 ENST00000596426.5_1_19:49839037-49841209:+|nuORF ENST00000596426.5_1_19:49839037-49841209:+|nuORF ENST00000596426.5_1_19:49839037-49841209:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 444.240327 886.466101 2.9558 0.0013131 1.0034 0.00044573 3.9592 0.0017588 444.240678405643 57.31 0.20439 57.31 57.242 57.446 0 0.037394 9.7707E-05 NaN 5.2307 37 21 2 NaN NaN NaN NaN 0 NaN NaN 0 1594100 36933 9277 23556 23629 0.01832648928814251 VVWSCLTSL 9 Unmodified _VVWSCLTSL_ 0 0 0 ENST00000448948.1_1_X:13973632-13981577:+|nuORF ENST00000448948.1_1_X:13973632-13981577:+|nuORF ENST00000448948.1_1_X:13973632-13981577:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.7687683105469 2 504.265153 1006.51575 3.0669 0.0015465 -1.3636 -0.00068761 1.7033 0.00085893 504.26565738726856 52.473 0.2459 53.135 52.987 53.233 0.66198 12 9 2 0 0 0 0.096915 1 23996 23996 13.508 1.8676 1 313900 36934 7999 23557 23630 41384 41384 0.012755958225966424 VWAVAKKKPP 10 Unmodified _VWAVAKKKPP_ 0 0 0 REV__ENSG00000182013|ENST00000313683|PNMA8A REV__ENSG00000182013|ENST00000313683|PNMA8A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 375.2396240234375 3 375.237726 1122.69135 3.0609 0.0011486 0.50882 0.00019093 3.5697 0.0013395 375.23788780808076 29.569 0.35905 29.569 29.529 29.888 0 46 33 2 0 0 0 0.9406 1 13459 13459 0.77653 0.77653 1 471760 + 36935 13869 23558 23631 41385 41385 0.13491178398976444 VWEEMKTTL 9 Unmodified _VWEEMKTTL_ 0 0 0 ENSG00000115306|ENST00000356805|SPTBN1;nc|ENSG00000115306|Q01082-2|SPTBN1;nc|ENSG00000115306|Q01082-3|SPTBN1;SPTBN1|p.E1055Gfs*20|1|0.19|ENSG00000115306|chr2:54631208-54631224|GAGAGGCCTCCCTGGGA/-|frameshift_variant ENSG00000115306|ENST00000356805|SPTBN1 ENSG00000115306|ENST00000356805|SPTBN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.7142333984375 2 568.78645 1135.55835 NaN NaN NaN NaN NaN NaN NaN 51.761 1 52.423 51.923 52.923 0.66198 0 0 0 0.75166 1 23670 23670 10.824 0.75 1 36936 1960 23559 23632 41386 41386 -0.004010538398460994 VWFFKVLFPFL 11 Unmodified _VWFFKVLFPFL_ 0 0 0 ENST00000436008.6_1_6:3272724-3272982:-|nuORF ENST00000436008.6_1_6:3272724-3272982:-|nuORF ENST00000436008.6_1_6:3272724-3272982:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 721.9835205078125 2 721.915384 1441.81622 NaN NaN NaN NaN NaN NaN NaN 90.711 1 90.786 90.286 91.286 0.075279 0 0 0 1.0055 1 46810 46810 3.5965 2.1146 1 36937 7894 23560 23633 41387 41387 0.11298050815503302 VWGKAPVL 8 Unmodified _VWGKAPVL_ 0 0 0 ENST00000366365.2_3_17:75085268-75085469:+|nuORF ENST00000366365.2_3_17:75085268-75085469:+|nuORF ENST00000366365.2_3_17:75085268-75085469:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 434.781005859375 2 435.265813 868.517074 2.9594 0.0012881 -0.97092 -0.00042261 1.9885 0.00086553 435.26560394152654 40.326 0.17103 40.326 40.199 40.37 0 8 5 2 0 0 0 0.11901 1 18283 18283 14.582 0 1 377800 36938 7236 23561 23634 41388 41388 0.0775559797364167 VWGKAPVL 8 Unmodified _VWGKAPVL_ 0 0 0 ENST00000366365.2_3_17:75085268-75085469:+|nuORF ENST00000366365.2_3_17:75085268-75085469:+|nuORF ENST00000366365.2_3_17:75085268-75085469:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 435.265813 868.517074 2.7943 0.0012163 -0.36403 -0.00015845 2.4303 0.0010578 435.2656944660098 39.232 0.28358 40.03 39.891 40.175 0.79762 -0.17064 -0.00015368 NaN 14.582 18 12 2 NaN NaN NaN NaN 0 NaN NaN 0 355750 36939 7236 23561 23634 0.0775559797364167 VWGLVTRPL 9 Unmodified _VWGLVTRPL_ 0 0 0 ENST00000434095.2_1_9:131909954-131910068:+|nuORF ENST00000434095.2_1_9:131909954-131910068:+|nuORF ENST00000434095.2_1_9:131909954-131910068:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.5483093261719 3 347.54656 1039.61785 2.2057 0.0007666 1.4048 0.00048822 3.6105 0.0012548 347.5469975020646 54.847 0.23215 55.112 55.004 55.236 0.26543 35 22 2 0 0 0 0.94779 1 25110 25110 4.897 2.3985 1 1983200 36940 7881 23562 23635 41389 41389 0.09962629956521596 VWIKELYKQRR 11 Unmodified _VWIKELYKQRR_ 0 0 0 REV__ENSG00000171451|ENST00000310045|DSEL REV__ENSG00000171451|ENST00000310045|DSEL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 759.948486328125 2 759.94881 1517.88307 NaN NaN NaN NaN NaN NaN NaN 62.746 1 62.996 62.496 63.496 0.24965 0 0 0 1.0082 1 28733 28733 0 0 1 + 36941 13493 23563 23636 41390 41390 0.14484054359286347 VWKKWLQNFKE 11 Unmodified _VWKKWLQNFKE_ 0 0 0 REV__nc|ENSG00000254838|Q7Z2Y8|GVINP1 REV__nc|ENSG00000254838|Q7Z2Y8|GVINP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 502.6142272949219 3 502.613633 1504.81907 NaN NaN NaN NaN NaN NaN NaN 94.026 1 94.112 93.612 94.612 0.086212 0 0 0 1.0072 1 49379 49379 0.45452 0 1 + 36942 18151 23564 23637 41391 41391 0.086852742023666 VWKLGPQL 8 Unmodified _VWKLGPQL_ 0 0 0 REV__nc|ENSG00000147257|P51654-2|GPC3 REV__nc|ENSG00000147257|P51654-2|GPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.7861022949219 2 470.78437 939.554188 2.8622 0.0013475 -0.61654 -0.00029026 2.2456 0.0010572 470.78402180082765 39.23 0.37346 40.028 39.84 40.213 0.79762 45 17 3 0 0 0 0.45037 1 17721 17721 24.674 2.9272 1 1881500 + 36943 12501 23565 23638 41392 41392 0.081992695194117 VWKLGPQL 8 Unmodified _VWKLGPQL_ 0 0 0 REV__nc|ENSG00000147257|P51654-2|GPC3 REV__nc|ENSG00000147257|P51654-2|GPC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.78533935546875 2 470.78437 939.554188 2.9857 0.0014056 -0.64627 -0.00030425 2.3394 0.0011014 470.7839682148911 39.989 0.44447 40.256 40.071 40.515 0.26696 45 17 3 0 0 0 0.26384 2 18284 18220;18284 38.151 32.117 1 13056000 + 36944 12501 23565 23638 41393;41394 41394 0.081992695194117 VWKRWKKRYFV 11 Unmodified _VWKRWKKRYFV_ 0 0 0 CADPS2|p.G629Vfs*31|1|0.27|ENSG00000081803|chr7:122474493-122474493|C/-|frameshift_variant;nc|ENSG00000081803|Q86UW7-3|CADPS2;nc|ENSG00000081803|Q86UW7-2|CADPS2;ENSG00000081803|ENST00000449022|CADPS2 CADPS2|p.G629Vfs*31|1|0.27|ENSG00000081803|chr7:122474493-122474493|C/-|frameshift_variant;nc|ENSG00000081803|Q86UW7-3|CADPS2 CADPS2|p.G629Vfs*31|1|0.27|ENSG00000081803|chr7:122474493-122474493|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 798.4716796875 2 798.469712 1594.92487 NaN NaN NaN NaN NaN NaN NaN 96.36 1 96.36 95.86 96.86 0 0 0 0 1.0082 1 52127 52127 0 0 1 36945 97;922 23566 23639 41395 41395 0.1512065483848346 VWLMYQSFRR 10 Unmodified _VWLMYQSFRR_ 0 0 0 REV__nc|ENSG00000197653|Q8IVF4|DNAH10 REV__nc|ENSG00000197653|Q8IVF4|DNAH10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 693.3619384765625 2 693.360982 1384.70741 NaN NaN NaN NaN NaN NaN NaN 21.146 1 21.146 20.646 21.646 0 0 0 0 1.0015 1 9463 9463 0.45834 0.10771 1 + 36946 14297 23567 23640 41396 41396 0.030445165735500268 VWLRARRGPR 10 Unmodified _VWLRARRGPR_ 0 0 0 REV__ENST00000378119.8_1_6:24720645-24720756:-|nuORF REV__ENST00000378119.8_1_6:24720645-24720756:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 422.59375 3 422.926657 1265.75814 2.8335 0.0011983 0.42796 0.00018099 3.2614 0.0013793 422.92691217312677 52.119 0.68441 52.781 52.29 52.975 0.66198 63 34 3 0 0 0 0.12676 1 23908 23908 1.7423 1.7423 1 1349000 + 36947 15845 23568 23641 41397 41397 0.1358922673343841 VWLSRSPLL 9 Unmodified _VWLSRSPLL_ 0 0 0 REV__ENST00000340957.9_1_3:184063152-184063416:+|nuORF REV__ENST00000340957.9_1_3:184063152-184063416:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.5514831542969 3 357.550082 1069.62842 2.5404 0.00090834 0.87027 0.00031117 3.4107 0.0012195 357.55039372446197 49.856 0.9424 49.856 49.394 50.336 0 74 43 2 0 0 0 1.1849 1 22904 22904 0.96228 0 1 1095000 + 36948 15458 23569 23642 41398 41398 0.09638612610956443 VWMRSPLSTF 10 Unmodified _VWMRSPLSTF_ 0 0 0 chr15:60364523-60370591|123|37.85|0.76|5.64|-|0|ANXA2,None|1;ENST00000559725.5_1_15:60656692-60682421:-|nuORF;ENST00000558985.5_1_15:60656692-60690187:-|nuORF chr15:60364523-60370591|123|37.85|0.76|5.64|-|0|ANXA2,None|1 chr15:60364523-60370591|123|37.85|0.76|5.64|-|0|ANXA2,None|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 612.3175048828125 2 612.315709 1222.61686 2.7462 0.0016815 -1.2856 -0.0007872 1.4606 0.00089435 612.3152641110019 69.31 0.21647 70.013 69.92 70.136 0.70302 30 23 2 0 0 0 0.10862 1 33133 33133 51.488 28.752 1 2408500 36949 153 23570 23643 41399 41399 0.014460475252917604 VWMRSPLSTF 10 Unmodified _VWMRSPLSTF_ 0 0 0 chr15:60364523-60370591|123|37.85|0.76|5.64|-|0|ANXA2,None|1;ENST00000559725.5_1_15:60656692-60682421:-|nuORF;ENST00000558985.5_1_15:60656692-60690187:-|nuORF chr15:60364523-60370591|123|37.85|0.76|5.64|-|0|ANXA2,None|1 chr15:60364523-60370591|123|37.85|0.76|5.64|-|0|ANXA2,None|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 612.3192749023438 2 612.315709 1222.61686 3.4988 0.0021424 0.26604 0.0001629 3.7649 0.0023053 612.3160058290049 70.174 0.37839 70.43 70.225 70.603 0.25642 54 28 2 0 0 0 0.095504 2 32161 32111;32161 53.317 32.902 1 1149300 36950 153 23570 23643 41400;41401 41401 0.014460475252917604 VWMRSPLSTF 10 Unmodified _VWMRSPLSTF_ 0 0 0 chr15:60364523-60370591|123|37.85|0.76|5.64|-|0|ANXA2,None|1;ENST00000559725.5_1_15:60656692-60682421:-|nuORF;ENST00000558985.5_1_15:60656692-60690187:-|nuORF chr15:60364523-60370591|123|37.85|0.76|5.64|-|0|ANXA2,None|1 chr15:60364523-60370591|123|37.85|0.76|5.64|-|0|ANXA2,None|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 612.3185424804688 2 612.315709 1222.61686 3.1992 0.0019589 1.1362 0.00069568 4.3353 0.0026546 612.3165738829563 69.643 0.3685 70.304 70.129 70.497 0.66071 53 28 2 0 0 0 0.020838 2 31970 31913;31970 69.338 43.39 1 1009900 36951 153 23570 23643 41402;41403 41403 0.014460475252917604 VWNKDAVTI 9 Unmodified _VWNKDAVTI_ 0 0 0 ENSG00000188037|ENST00000343257|CLCN1 ENSG00000188037|ENST00000343257|CLCN1 ENSG00000188037|ENST00000343257|CLCN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 349.193359375 3 349.194075 1044.5604 NaN NaN NaN NaN NaN NaN NaN 13.58 1 13.824 13.324 14.324 0.24346 0 0 0 0.79105 1 5933 5933 9.544 5.3545 1 36952 5649 23571 23644 41404 41404 0.03989742960266085 VWNLKAPL 8 Unmodified _VWNLKAPL_ 0 0 0 nc|ENSG00000077782|P11362-11|FGFR1;nc|ENSG00000077782|P11362-10|FGFR1;nc|ENSG00000077782|P11362-9|FGFR1;nc|ENSG00000077782|P11362-8|FGFR1;nc|ENSG00000077782|P11362-13|FGFR1;nc|ENSG00000077782|P11362-12|FGFR1 nc|ENSG00000077782|P11362-11|FGFR1 nc|ENSG00000077782|P11362-11|FGFR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 470.78558349609375 2 470.78437 939.554188 2.8622 0.0013475 -0.61654 -0.00029026 2.2456 0.0010572 470.78402180082765 39.23 0.37346 40.028 39.84 40.213 0.79762 45 17 3 0 0 0 0.5047 1 17825 17825 20.871 1.4322 1 1881500 36953 9563 23572 23645 41405 41405 0.081992695194117 VWNPRSHEKL 10 Unmodified _VWNPRSHEKL_ 0 0 0 ENST00000471162.5_1_3:49044864-49051550:+|nuORF;ENST00000420783.7_1_3:49044839-49051550:+|nuORF;ENSG00000178252|ENST00000608424|WDR6 ENST00000471162.5_1_3:49044864-49051550:+|nuORF ENST00000471162.5_1_3:49044864-49051550:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.8992004394531 3 422.563161 1264.66765 2.916 0.0012322 0.25784 0.00010895 3.1738 0.0013411 422.5632783289532 20.257 0.30936 20.257 20.138 20.448 0 43 28 2 0 0 0 0.79369 1 9087 9087 7.9454 4.8731 1 305330 36954 5159 23573 23646 41406 41406 0.045907128945145814 VWSPAAAR 8 Unmodified _VWSPAAAR_ 0 0 0 ENST00000490837.1_1_2:239103269-239112329:-|nuORF;ENST00000467133.5_1_2:239098583-239112329:-|nuORF ENST00000490837.1_1_2:239103269-239112329:-|nuORF ENST00000490837.1_1_2:239103269-239112329:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 429.2356262207031 2 429.235045 856.455536 2.3305 0.0010003 0.0073047 3.1354E-06 2.3378 0.0010035 429.2348187291513 65.562 0.30917 65.562 65.347 65.656 0 88 35 3 0 0 0 0.70799 1 31228 31228 5.2307 0 1 9797500 36955 8144 23574 23647 41407 41407 0.021566662743680354 VWVAAPAR 8 Unmodified _VWVAAPAR_ 0 0 0 REV__ENSG00000282936|ENST00000634965|unknown REV__ENSG00000282936|ENST00000634965|unknown MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 435.2530517578125 2 435.253237 868.491922 NaN NaN NaN NaN NaN NaN NaN 70.615 1 70.871 70.371 71.371 0.25642 0 0 0 0.99035 1 32340 32340 5.7604 0 1 + 36956 14763 23575 23648 41408 41408 0.05241543171075591 VWVLVWPWLR 10 Unmodified _VWVLVWPWLR_ 0 0 0 REV__ENSG00000167194|ENST00000681219|C16orf92 REV__ENSG00000167194|ENST00000681219|C16orf92 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.9341735839844 3 451.932526 1352.77575 3.3555 0.0015164 0.43966 0.0001987 3.7951 0.0017151 451.9327463165778 92.498 0.77795 92.75 92.436 93.214 0.25254 73 41 2 0 0 0 0.94364 2 42436 42436;42570 0.15932 0 1 368780 + 36957 13279 23576 23649 41409;41410 41409 0.11347129215710083 VWVLVWPWLR 10 Unmodified _VWVLVWPWLR_ 0 0 0 REV__ENSG00000167194|ENST00000681219|C16orf92 REV__ENSG00000167194|ENST00000681219|C16orf92 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.9344787597656 3 451.932526 1352.77575 3.4261 0.0015484 0.48181 0.00021774 3.9079 0.0017661 451.9326884025879 93.546 1.7987 93.801 93.203 95.001 0.25497 174 91 3 0 0 0 0.94364 6 42777 42777;42843;42950;42995;43050;43273 0.15932 0.15932 1 742110 + 36958 13279 23576 23649 41411;41412;41413;41414;41415;41416 41411 0.11347129215710083 VWVLVWPWLR 10 Unmodified _VWVLVWPWLR_ 0 0 0 REV__ENSG00000167194|ENST00000681219|C16orf92 REV__ENSG00000167194|ENST00000681219|C16orf92 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.9342346191406 3 451.932526 1352.77575 3.5407 0.0016002 0.4173 0.00018859 3.958 0.0017888 451.93261163543036 95.373 1.704 95.64 95.014 96.718 0.2675 272 97 4 0 0 0 0.94364 10 43624 43624;43668;43716;43809;43859;43958;44008;44053;44102;44168 0.15932 0.15932 1 2279600 + 36959 13279 23576 23649 41417;41418;41419;41420;41421;41422;41423;41424;41425;41426 41417 0.11347129215710083 VWVLVWPWLR 10 Unmodified _VWVLVWPWLR_ 0 0 0 REV__ENSG00000167194|ENST00000681219|C16orf92 REV__ENSG00000167194|ENST00000681219|C16orf92 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.9342346191406 3 451.932526 1352.77575 3.2373 0.0014631 0.31271 0.00014132 3.5501 0.0016044 452.2669545459331 93.121 1.8282 93.768 93.054 94.882 0.64714 177 95 2 0 0 0 0.94364 6 42935 42935;42988;43062;43135;43183;43243 0.15932 0 1 1111700 + 36960 13279 23576 23649 41427;41428;41429;41430;41431;41432 41427 0.11347129215710083 VWVLVWPWLR 10 Unmodified _VWVLVWPWLR_ 0 0 0 REV__ENSG00000167194|ENST00000681219|C16orf92 REV__ENSG00000167194|ENST00000681219|C16orf92 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.933837890625 3 451.932526 1352.77575 3.2464 0.0014672 0.47204 0.00021333 3.7185 0.0016805 451.93265349334877 94.937 1.5993 95.555 94.942 96.541 0.61736 220 88 5 0 0 0 0.94364 6 43417 43417;43475;43519;43566;43836;43945 0.15932 0.01943 1 3238400 + 36961 13279 23576 23649 41433;41434;41435;41436;41437;41438 41433 0.11347129215710083 VWWLRAYRFL 10 Unmodified _VWWLRAYRFL_ 0 0 0 REV__ENST00000379644.8_2_8:43055194-43055551:+|nuORF REV__ENST00000379644.8_2_8:43055194-43055551:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 705.3042602539062 2 705.395682 1408.77681 NaN NaN NaN NaN NaN NaN NaN 97.895 1 97.965 97.465 98.465 0.070648 0 0 0 1.0003 1 52472 52472 1.4819 0.15237 1 + 36962 15870 23577 23650 41439 41439 0.08877343584640585 VWWYRPFQYFE 11 Unmodified _VWWYRPFQYFE_ 0 0 0 nc|ENSG00000198964|Q86VZ5-2|SGMS1;ENSG00000198964|ENST00000361781|SGMS1 nc|ENSG00000198964|Q86VZ5-2|SGMS1 nc|ENSG00000198964|Q86VZ5-2|SGMS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 810.8846435546875 2 810.885344 1619.75613 NaN NaN NaN NaN NaN NaN NaN 48.783 1 49.438 48.938 49.938 0.65524 0 0 0 1.0082 1 22320 22320 0 0 1 36963 5970 23578 23651 41440 41440 -0.028952915856962136 VYAALQRQLL 10 Unmodified _VYAALQRQLL_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.8526611328125 2 587.850773 1173.68699 3.4572 0.0020323 -0.53787 -0.00031619 2.9193 0.0017161 587.850402490303 56.324 0.20837 56.324 56.224 56.432 0 36 17 3 0 0 0 3.579E-06 1 25900 25900 128.37 96.248 1 2087400 36964 5155 23579 23652 41441 41441 0.10709669185393977 VYAALQRQLL 10 Unmodified _VYAALQRQLL_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.8517456054688 2 587.850773 1173.68699 3.0011 0.0017642 -0.88882 -0.00052249 2.1122 0.0012417 587.8499528858392 55.45 0.22992 56.237 56.046 56.276 0.78711 43 20 3 0 0 0 3.579E-06 1 25273 25273 128.37 82.344 1 3605500 36965 5155 23579 23652 41442 41442 0.10709669185393977 VYAALQRQLL 10 Unmodified _VYAALQRQLL_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.8518676757812 2 587.850773 1173.68699 3.4633 0.0020359 0.18012 0.00010589 3.6434 0.0021418 587.8508008838594 56.191 0.23934 56.456 56.329 56.568 0.26543 19 8 3 0 0 0 3.579E-06 1 25689 25689 128.37 96.248 1 1662900 36966 5155 23579 23652 41443 41443 0.10709669185393977 VYAALQRQLL 10 Unmodified _VYAALQRQLL_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.8531494140625 2 587.850773 1173.68699 3.5993 0.0021159 0.19306 0.00011349 3.7924 0.0022294 587.8508578144533 55.482 0.28352 56.15 56.007 56.291 0.66798 27 12 3 0 0 0 3.579E-06 2 25417 25359;25417 128.37 91.859 1 1590200 36967 5155 23579 23652 41444;41445 41445 0.10709669185393977 VYADQPHIF 9 Unmodified _VYADQPHIF_ 0 0 0 ENSG00000100439|ENST00000428304|ABHD4 ENSG00000100439|ENST00000428304|ABHD4 ENSG00000100439|ENST00000428304|ABHD4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.2734985351562 2 545.271824 1088.5291 3.5636 0.0019431 -0.26206 -0.00014289 3.3015 0.0018002 545.2715530642873 50.266 0.45778 50.266 50.072 50.53 0 53 21 3 0 0 0 0.015468 3 23033 22981;23033;23100 74.423 34.465 1 1644600 36968 1218 23580 23653 41446;41447;41448 41447 -0.011628300738266262 VYADQPHIF 9 Unmodified _VYADQPHIF_ 0 0 0 ENSG00000100439|ENST00000428304|ABHD4 ENSG00000100439|ENST00000428304|ABHD4 ENSG00000100439|ENST00000428304|ABHD4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 545.2735595703125 2 545.271824 1088.5291 3.2355 0.0017642 -0.11262 -6.1408E-05 3.1229 0.0017028 545.271912004829 49.228 0.45239 50.055 49.871 50.323 0.82705 55 21 3 0 0 0 0.0081238 3 22437 22387;22437;22499 85.272 52.967 1 1340000 36969 1218 23580 23653 41449;41450;41451 41450 -0.011628300738266262 VYADQPHIF 9 Unmodified _VYADQPHIF_ 0 0 0 ENSG00000100439|ENST00000428304|ABHD4 ENSG00000100439|ENST00000428304|ABHD4 ENSG00000100439|ENST00000428304|ABHD4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.2732543945312 2 545.271824 1088.5291 3.4733 0.0018939 -0.080247 -4.3756E-05 3.3931 0.0018502 545.271685754213 50.142 0.4265 50.403 50.193 50.619 0.26146 36 15 3 0 0 0 0.017868 3 22933 22869;22933;23003 71.134 38.828 1 1198300 36970 1218 23580 23653 41452;41453;41454 41453 -0.011628300738266262 VYADQPHIF 9 Unmodified _VYADQPHIF_ 0 0 0 ENSG00000100439|ENST00000428304|ABHD4 ENSG00000100439|ENST00000428304|ABHD4 ENSG00000100439|ENST00000428304|ABHD4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.273193359375 2 545.271824 1088.5291 3.5597 0.001941 -0.18604 -0.00010144 3.3736 0.0018396 545.2714308093833 49.504 0.3279 50.159 50.01 50.338 0.6558 28 11 3 0 0 0 0.032303 2 22621 22621;22682 54.774 28.248 1 1318700 36971 1218 23580 23653 41455;41456 41455 -0.011628300738266262 VYADRTHLI 9 Unmodified _VYADRTHLI_ 0 0 0 REV__ENSG00000205863|ENST00000382137|C1QTNF9B REV__ENSG00000205863|ENST00000382137|C1QTNF9B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 544.3002319335938 2 544.298373 1086.58219 3.0419 0.0016557 2.2683 0.0012346 5.3102 0.0028903 544.2992757315651 43.509 0.23866 44.323 44.219 44.458 0.81444 18 10 2 0 0 0 0.057744 1 19818 19818 43.858 11.073 1 358440 + 36972 14471 23581 23654 41457 41457 0.04236547708865146 VYADRTHLI 9 Unmodified _VYADRTHLI_ 0 0 0 REV__ENSG00000205863|ENST00000382137|C1QTNF9B REV__ENSG00000205863|ENST00000382137|C1QTNF9B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 544.298373 1086.58219 3.4959 0.0019028 2.3505 0.0012794 5.8465 0.0031822 544.2998932310263 44.702 0.13601 44.702 44.641 44.777 0 0.092446 -0.00023079 NaN 43.858 13 7 2 NaN NaN NaN NaN 0 NaN NaN 0 348650 + 36973 14471 23581 23654 0.04236547708865146 VYADRTHLI 9 Unmodified _VYADRTHLI_ 0 0 0 REV__ENSG00000205863|ENST00000382137|C1QTNF9B REV__ENSG00000205863|ENST00000382137|C1QTNF9B MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 544.298373 1086.58219 3.0419 0.0016557 2.2683 0.0012346 5.3102 0.0028903 544.2992757315651 43.509 0.23866 44.323 44.219 44.458 0.81444 -0.28622 -0.00032033 NaN 43.858 18 10 2 NaN NaN NaN NaN 0 NaN NaN 0 358440 + 36974 14471 23581 23654 0.04236547708865146 VYADRTHLI 9 Unmodified _VYADRTHLI_ 0 0 0 REV__ENSG00000205863|ENST00000382137|C1QTNF9B REV__ENSG00000205863|ENST00000382137|C1QTNF9B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 544.298373 1086.58219 3.2599 0.0017744 4.6695 0.0025416 7.9294 0.004316 544.3007715880776 44.512 0.24832 44.781 44.667 44.916 0.2694 0.1717 0.0022936 NaN 43.858 13 7 2 NaN NaN NaN NaN 0 NaN NaN 0 143320 + 36975 14471 23581 23654 0.04236547708865146 VYADRTHLI 9 Unmodified _VYADRTHLI_ 0 0 0 REV__ENSG00000205863|ENST00000382137|C1QTNF9B REV__ENSG00000205863|ENST00000382137|C1QTNF9B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 544.298373 1086.58219 3.624 0.0019726 3.8194 0.0020789 7.4434 0.0040514 544.8008073532785 43.983 0.10241 44.631 44.558 44.661 0.64872 0.022078 0.0013682 NaN 43.858 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 222570 + 36976 14471 23581 23654 0.04236547708865146 VYAEVSRLLL 10 Unmodified _VYAEVSRLLL_ 0 0 0 ENSG00000114999|ENST00000233336|TTL ENSG00000114999|ENST00000233336|TTL ENSG00000114999|ENST00000233336|TTL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 581.8855590820312 2 581.845156 1161.67576 NaN NaN NaN NaN NaN NaN NaN 69.937 1 70.64 70.14 71.14 0.70302 0 0 0 0.61785 1 33490 33490 30.703 14.856 1 36977 1936 23582 23655 41458 41458 0.10138847091275238 VYAFSIENF 9 Unmodified _VYAFSIENF_ 0 0 0 ENST00000528557.5_1_1:26759436-26769365:+|nuORF;nc|ENSG00000117682|Q86SQ9-3|DHDDS;nc|ENSG00000117682|Q86SQ9-4|DHDDS;ENSG00000117682|ENST00000236342|DHDDS;nc|ENSG00000117682|Q86SQ9-2|DHDDS ENST00000528557.5_1_1:26759436-26769365:+|nuORF ENST00000528557.5_1_1:26759436-26769365:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.2669067382812 2 545.266207 1088.51786 3.5843 0.0019544 0.28888 0.00015752 3.8732 0.0021119 545.2663235557686 85.232 0.36275 85.48 85.278 85.641 0.24857 47 23 3 0 0 0 0.26001 1 39239 39239 19.439 4.6007 1 558110 36978 2088 23583 23656 41459 41459 -0.02285652167961416 VYAFSIENF 9 Unmodified _VYAFSIENF_ 0 0 0 ENST00000528557.5_1_1:26759436-26769365:+|nuORF;nc|ENSG00000117682|Q86SQ9-3|DHDDS;nc|ENSG00000117682|Q86SQ9-4|DHDDS;ENSG00000117682|ENST00000236342|DHDDS;nc|ENSG00000117682|Q86SQ9-2|DHDDS ENST00000528557.5_1_1:26759436-26769365:+|nuORF ENST00000528557.5_1_1:26759436-26769365:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.268310546875 2 545.266207 1088.51786 3.6558 0.0019934 0.85886 0.00046831 4.5146 0.0024617 545.2664492295115 84.672 0.32313 85.338 85.201 85.525 0.66566 36 19 3 0 0 0 0.10245 1 39019 39019 32.117 22.77 1 586000 36979 2088 23583 23656 41460 41460 -0.02285652167961416 VYAFVIVV 8 Unmodified _VYAFVIVV_ 0 0 0 REV__nc|ENSG00000169432|Q15858-4|SCN9A REV__nc|ENSG00000169432|Q15858-4|SCN9A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 455.2770080566406 2 455.275847 908.537141 NaN NaN NaN NaN NaN NaN NaN 67.335 1 68.038 67.538 68.538 0.70218 0 0 0 0.99035 1 32001 32001 2.8892 0 1 + 36980 18036 23584 23657 41461 41461 0.0792134891362366 VYAILTHGI 9 Unmodified _VYAILTHGI_ 0 0 0 nc|ENSG00000147224|P60891-2|PRPS1;ENSG00000229937|ENST00000506618|PRPS1L1;ENSG00000147224|ENST00000372435|PRPS1;ENSG00000101911|ENST00000380668|PRPS2;nc|ENSG00000101911|P11908-2|PRPS2 nc|ENSG00000147224|P60891-2|PRPS1 nc|ENSG00000147224|P60891-2|PRPS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 493.78863525390625 2 493.78711 985.559667 2.8887 0.0014264 0.22897 0.00011306 3.1177 0.0015395 493.78727987046375 59.692 0.17461 59.692 59.615 59.789 0 24 15 2 0 0 0 0.053453 1 27618 27618 60.39 15.983 1 1070200 36981 1319 23585 23658 41462 41462 0.06630948311226348 VYAILTHGI 9 Unmodified _VYAILTHGI_ 0 0 0 nc|ENSG00000147224|P60891-2|PRPS1;ENSG00000229937|ENST00000506618|PRPS1L1;ENSG00000147224|ENST00000372435|PRPS1;ENSG00000101911|ENST00000380668|PRPS2;nc|ENSG00000101911|P11908-2|PRPS2 nc|ENSG00000147224|P60891-2|PRPS1 nc|ENSG00000147224|P60891-2|PRPS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.78857421875 2 493.78711 985.559667 3.2201 0.0015901 0.064512 3.1855E-05 3.2847 0.0016219 493.7869624412942 59.463 0.22963 59.722 59.596 59.826 0.2593 20 9 3 0 0 0 0.034495 1 27227 27227 70.716 17.14 1 978320 36982 1319 23585 23658 41463 41463 0.06630948311226348 VYAILTHGI 9 Unmodified _VYAILTHGI_ 0 0 0 nc|ENSG00000147224|P60891-2|PRPS1;ENSG00000229937|ENST00000506618|PRPS1L1;ENSG00000147224|ENST00000372435|PRPS1;ENSG00000101911|ENST00000380668|PRPS2;nc|ENSG00000101911|P11908-2|PRPS2 nc|ENSG00000147224|P60891-2|PRPS1 nc|ENSG00000147224|P60891-2|PRPS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.78863525390625 2 493.78711 985.559667 3.2247 0.0015923 0.5129 0.00025326 3.7376 0.0018456 493.7871422932238 58.816 0.321 59.483 59.289 59.61 0.66703 27 12 3 0 0 0 0.034495 1 26912 26912 70.716 17.14 1 1057200 36983 1319 23585 23658 41464 41464 0.06630948311226348 VYANGIRNI 9 Unmodified _VYANGIRNI_ 0 0 0 nc|ENSG00000145495|O60337-6|MARCHF6;nc|ENSG00000145495|O60337-5|MARCHF6;ENSG00000145495|ENST00000274140|MARCHF6 nc|ENSG00000145495|O60337-6|MARCHF6 nc|ENSG00000145495|O60337-6|MARCHF6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.2872314453125 2 510.285266 1018.55598 3.0804 0.0015719 0.055697 2.8421E-05 3.1361 0.0016003 510.28540908863033 34.79 0.17335 35.579 35.468 35.642 0.78921 19 12 2 0 0 0 0.071101 1 15773 15773 39.957 16.809 1 655060 36984 3471 23586 23659 41465 41465 0.047442785373846164 VYANGIRNI 9 Unmodified _VYANGIRNI_ 0 0 0 nc|ENSG00000145495|O60337-6|MARCHF6;nc|ENSG00000145495|O60337-5|MARCHF6;ENSG00000145495|ENST00000274140|MARCHF6 nc|ENSG00000145495|O60337-6|MARCHF6 nc|ENSG00000145495|O60337-6|MARCHF6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 510.285266 1018.55598 3.0219 0.001542 -0.11554 -5.896E-05 2.9064 0.0014831 510.2853264822923 35.734 0.22699 35.734 35.643 35.87 0 0.077452 -0.00011694 NaN 39.957 19 10 2 NaN NaN NaN NaN 0 NaN NaN 0 589900 36985 3471 23586 23659 0.047442785373846164 VYAPPVGGFSF 11 Unmodified _VYAPPVGGFSF_ 0 0 0 ENSG00000136930|ENST00000259457|PSMB7;nc|ENSG00000136930|Q99436-2|PSMB7 ENSG00000136930|ENST00000259457|PSMB7 ENSG00000136930|ENST00000259457|PSMB7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.2951049804688 2 570.78985 1139.56515 3.7549 0.0021432 1.6447 0.00093876 5.3995 0.003082 571.292766900118 82.217 0.21854 82.877 82.795 83.014 0.66006 14 10 2 0 0 0 0.52054 1 37903 37903 18.146 6.5061 1 343930 36986 2987 23587 23660 41466 41466 0.0009462710304433131 VYAPYYPL 8 Unmodified _VYAPYYPL_ 0 0 0 REV__ENSG00000111249|ENST00000261726|CUX2 REV__ENSG00000111249|ENST00000261726|CUX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 493.25347900390625 2 493.255111 984.49567 NaN NaN NaN NaN NaN NaN NaN 58.526 1 59.285 58.785 59.785 0.75894 0 0 0 0.91812 1 26845 26845 11.114 0.93107 1 + 36987 11225 23588 23661 41467 41467 0.002801681542791812 VYAQKHQQL 9 Unmodified _VYAQKHQQL_ 0 0 0 TRIM33|p.M845Nfs*3|1|0.32|ENSG00000197323|chr1:114405644-114405645|-/T|frameshift_variant;nc|ENSG00000197323|Q9UPN9-2|TRIM33;ENSG00000197323|ENST00000358465|TRIM33 TRIM33|p.M845Nfs*3|1|0.32|ENSG00000197323|chr1:114405644-114405645|-/T|frameshift_variant TRIM33|p.M845Nfs*3|1|0.32|ENSG00000197323|chr1:114405644-114405645|-/T|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 372.2052917480469 3 372.204974 1113.59309 NaN NaN NaN NaN NaN NaN NaN 12.43 1 12.691 12.191 13.191 0.26154 0 0 0 0.085491 1 5376 5376 39.95 22.837 1 36988 5807 23589 23662 41468 41468 0.04083950083122545 VYARIYRVAK 10 Unmodified _VYARIYRVAK_ 0 0 0 ENSG00000184160|ENST00000330055|ADRA2C ENSG00000184160|ENST00000330055|ADRA2C ENSG00000184160|ENST00000330055|ADRA2C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.8718872070312 2 619.87204 1237.72953 NaN NaN NaN NaN NaN NaN NaN 89.988 1 90.24 89.74 90.74 0.25137 0 0 0 1.0001 1 41382 41382 1.6526 0 1 36989 5423 23590 23663 41469 41469 0.12017064313636183 VYARSGTEF 9 Unmodified _VYARSGTEF_ 0 0 0 REV__ENST00000552029.1_1_12:107380386-107380746:-|nuORF REV__ENST00000552029.1_1_12:107380386-107380746:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.2564697265625 2 515.253631 1028.49271 3.4298 0.0017672 0.7341 0.00037825 4.1639 0.0021454 515.2541568463835 29.404 0.39948 30.022 29.871 30.27 0.61789 35 26 2 0 0 0 0.68285 1 13574 13574 9.3831 0 1 368830 + 36990 17291 23591 23664 41470 41470 -0.020397069705268223 VYASDRATF 9 Unmodified _VYASDRATF_ 0 0 0 ECI2|p.F321Sfs*14|1|0.17|ENSG00000198721|chr6:4117375-4117375|A/-|frameshift_variant;ENST00000464583.5_1_6:4119386-4125894:-|nuORF;ENST00000496241.6_1_6:4116110-4130478:-|nuORF;ENST00000464057.5_1_6:4116110-4125894:-|nuORF;ENST00000380120.6_1_6:4116110-4130812:-|nuORF;nc|ENSG00000198721|O75521-2|ECI2;ENSG00000198721|ENST00000380118|ECI2 ECI2|p.F321Sfs*14|1|0.17|ENSG00000198721|chr6:4117375-4117375|A/-|frameshift_variant ECI2|p.F321Sfs*14|1|0.17|ENSG00000198721|chr6:4117375-4117375|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 515.2552490234375 2 515.253631 1028.49271 3.4756 0.0017908 0.02486 1.2809E-05 3.5004 0.0018036 515.2534389806184 29.951 0.25664 29.951 29.818 30.075 0 36 19 2 0 0 0 0.053359 2 13507 13507;13563 45.74 16.658 1 939920 36991 284 23592 23665 41471;41472 41471 -0.020397069705495596 VYASDRATF 9 Unmodified _VYASDRATF_ 0 0 0 ECI2|p.F321Sfs*14|1|0.17|ENSG00000198721|chr6:4117375-4117375|A/-|frameshift_variant;ENST00000464583.5_1_6:4119386-4125894:-|nuORF;ENST00000496241.6_1_6:4116110-4130478:-|nuORF;ENST00000464057.5_1_6:4116110-4125894:-|nuORF;ENST00000380120.6_1_6:4116110-4130812:-|nuORF;nc|ENSG00000198721|O75521-2|ECI2;ENSG00000198721|ENST00000380118|ECI2 ECI2|p.F321Sfs*14|1|0.17|ENSG00000198721|chr6:4117375-4117375|A/-|frameshift_variant ECI2|p.F321Sfs*14|1|0.17|ENSG00000198721|chr6:4117375-4117375|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.2550659179688 2 515.253631 1028.49271 3.4009 0.0017523 -0.071904 -3.7049E-05 3.329 0.0017153 515.253549725476 28.972 0.35136 29.762 29.588 29.939 0.78921 59 26 3 0 0 0 0.084899 2 13021 13021;13074 36.506 7.4246 1 572290 36992 284 23592 23665 41473;41474 41473 -0.020397069705495596 VYASDRATF 9 Unmodified _VYASDRATF_ 0 0 0 ECI2|p.F321Sfs*14|1|0.17|ENSG00000198721|chr6:4117375-4117375|A/-|frameshift_variant;ENST00000464583.5_1_6:4119386-4125894:-|nuORF;ENST00000496241.6_1_6:4116110-4130478:-|nuORF;ENST00000464057.5_1_6:4116110-4125894:-|nuORF;ENST00000380120.6_1_6:4116110-4130812:-|nuORF;nc|ENSG00000198721|O75521-2|ECI2;ENSG00000198721|ENST00000380118|ECI2 ECI2|p.F321Sfs*14|1|0.17|ENSG00000198721|chr6:4117375-4117375|A/-|frameshift_variant ECI2|p.F321Sfs*14|1|0.17|ENSG00000198721|chr6:4117375-4117375|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.2555541992188 2 515.253631 1028.49271 3.6449 0.0018781 0.065817 3.3913E-05 3.7108 0.001912 515.2537801626252 29.775 0.31316 30.033 29.845 30.158 0.25804 39 27 2 0 0 0 0.084899 2 13522 13522;13574 36.506 7.4246 1 470550 36993 284 23592 23665 41475;41476 41475 -0.020397069705495596 VYASDRATF 9 Unmodified _VYASDRATF_ 0 0 0 ECI2|p.F321Sfs*14|1|0.17|ENSG00000198721|chr6:4117375-4117375|A/-|frameshift_variant;ENST00000464583.5_1_6:4119386-4125894:-|nuORF;ENST00000496241.6_1_6:4116110-4130478:-|nuORF;ENST00000464057.5_1_6:4116110-4125894:-|nuORF;ENST00000380120.6_1_6:4116110-4130812:-|nuORF;nc|ENSG00000198721|O75521-2|ECI2;ENSG00000198721|ENST00000380118|ECI2 ECI2|p.F321Sfs*14|1|0.17|ENSG00000198721|chr6:4117375-4117375|A/-|frameshift_variant ECI2|p.F321Sfs*14|1|0.17|ENSG00000198721|chr6:4117375-4117375|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.2545166015625 2 515.253631 1028.49271 3.4298 0.0017672 0.7341 0.00037825 4.1639 0.0021454 515.2541568463835 29.404 0.39948 30.022 29.871 30.27 0.61789 35 26 2 0 0 0 0.15661 2 13471 13471;13529 26.268 7.0112 1 368830 36994 284 23592 23665 41477;41478 41477 -0.020397069705495596 VYAVIPAEKF 10 Unmodified _VYAVIPAEKF_ 0 0 0 ENST00000474020.5_1_1:47118240-47133739:-|nuORF;nc|ENSG00000123472|Q5TC12-2|ATPAF1;nc|ENSG00000123472|Q5TC12-3|ATPAF1;ENSG00000123472|ENST00000574428|ATPAF1 ENST00000474020.5_1_1:47118240-47133739:-|nuORF ENST00000474020.5_1_1:47118240-47133739:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.8231201171875 2 568.82115 1135.62775 3.227 0.0018356 -0.043569 -2.4783E-05 3.1834 0.0018108 568.8208447215761 58.274 0.20541 59.033 58.971 59.176 0.75894 27 18 2 0 0 0 0.14986 1 26736 26736 45.74 13.434 1 733680 36995 2315 23593 23666 41479 41479 0.06535773171231085 VYAVIPAEKF 10 Unmodified _VYAVIPAEKF_ 0 0 0 ENST00000474020.5_1_1:47118240-47133739:-|nuORF;nc|ENSG00000123472|Q5TC12-2|ATPAF1;nc|ENSG00000123472|Q5TC12-3|ATPAF1;ENSG00000123472|ENST00000574428|ATPAF1 ENST00000474020.5_1_1:47118240-47133739:-|nuORF ENST00000474020.5_1_1:47118240-47133739:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 568.8230590820312 2 568.82115 1135.62775 3.6376 0.0020691 -0.25881 -0.00014722 3.3788 0.0019219 568.8204709129275 58.366 0.1693 59.033 59.015 59.184 0.66703 14 9 2 0 0 0 0.14986 1 26762 26762 45.74 20.341 1 605010 36996 2315 23593 23666 41480 41480 0.06535773171231085 VYAVIPAEKF 10 Unmodified _VYAVIPAEKF_ 0 0 0 ENST00000474020.5_1_1:47118240-47133739:-|nuORF;nc|ENSG00000123472|Q5TC12-2|ATPAF1;nc|ENSG00000123472|Q5TC12-3|ATPAF1;ENSG00000123472|ENST00000574428|ATPAF1 ENST00000474020.5_1_1:47118240-47133739:-|nuORF ENST00000474020.5_1_1:47118240-47133739:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 568.82115 1135.62775 3.2802 0.0018658 0.71454 0.00040644 3.9947 0.0022723 569.3233085630762 59.348 0.14427 59.348 59.325 59.47 0 0.17196 0.00072893 NaN 45.74 20 12 2 NaN NaN NaN NaN 0 NaN NaN 0 1451500 36997 2315 23593 23666 0.06535773171231085 VYAVIPAEKF 10 Unmodified _VYAVIPAEKF_ 0 0 0 ENST00000474020.5_1_1:47118240-47133739:-|nuORF;nc|ENSG00000123472|Q5TC12-2|ATPAF1;nc|ENSG00000123472|Q5TC12-3|ATPAF1;ENSG00000123472|ENST00000574428|ATPAF1 ENST00000474020.5_1_1:47118240-47133739:-|nuORF ENST00000474020.5_1_1:47118240-47133739:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 568.82115 1135.62775 3.5106 0.0019969 0.25202 0.00014335 3.7626 0.0021403 568.821055552054 59.032 0.27074 59.291 59.137 59.408 0.2593 0.11501 0.00020275 NaN 45.74 21 13 2 NaN NaN NaN NaN 0 NaN NaN 0 342330 36998 2315 23593 23666 0.06535773171231085 VYCSLDKSQF 10 Carbamidomethyl (C) _VYC(Carbamidomethyl (C))SLDKSQF_ VYC(1)SLDKSQF VYC(46)SLDKSQF 0 1 0 ENSG00000254656|ENST00000649591|RTL1 ENSG00000254656|ENST00000649591|RTL1 ENSG00000254656|ENST00000649591|RTL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 623.7957153320312 2 623.792263 1245.56997 3.4321 0.0021409 0.22051 0.00013755 3.6526 0.0022785 623.792454857573 38.223 0.21581 39.018 38.871 39.087 0.79552 11 7 2 0 0 0 0.14986 1 17297 17297 45.74 31.834 1 399720 36999 6278 23594 23667 41481 41481 102 -0.0429885681653559 VYCSLDKSQF 10 Carbamidomethyl (C) _VYC(Carbamidomethyl (C))SLDKSQF_ 0 1 0 ENSG00000254656|ENST00000649591|RTL1 ENSG00000254656|ENST00000649591|RTL1 ENSG00000254656|ENST00000649591|RTL1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 623.792263 1245.56997 3.838 0.0023941 -1.3275 -0.00082811 2.5104 0.001566 623.7911100127192 39.386 0.1794 39.386 39.255 39.434 0 0.073772 -0.0020964 NaN 45.74 15 6 3 NaN NaN NaN NaN 0 NaN NaN 0 412990 37000 6278 23594 23667 102 -0.0429885681653559 VYCSLDKSQF 10 Carbamidomethyl (C) _VYC(Carbamidomethyl (C))SLDKSQF_ 0 1 0 ENSG00000254656|ENST00000649591|RTL1 ENSG00000254656|ENST00000649591|RTL1 ENSG00000254656|ENST00000649591|RTL1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 623.792263 1245.56997 3.7349 0.0023298 1.5433 0.00096269 5.2782 0.0032925 624.294779747881 38.895 0.16246 39.533 39.455 39.617 0.63778 0.22048 0.0014852 NaN 45.74 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 147580 37001 6278 23594 23667 102 -0.0429885681653559 VYDGKIYTL 9 Unmodified _VYDGKIYTL_ 0 0 0 ENST00000471654.1_1_2:23914526-23929531:+|nuORF;ENSG00000119771|ENST00000486442|KLHL29;nc|ENSG00000119771|Q96CT2-2|KLHL29 ENST00000471654.1_1_2:23914526-23929531:+|nuORF ENST00000471654.1_1_2:23914526-23929531:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.2908325195312 2 536.289682 1070.56481 2.9898 0.0016034 0.018983 1.018E-05 3.0088 0.0016136 536.2898227440575 49.781 0.24713 50.042 49.946 50.193 0.26146 20 9 3 0 0 0 0.136 1 22783 22783 27.629 3.6082 1 382180 37002 2166 23595 23668 41482 41482 0.0323520738318166 VYDIAAKF 8 Unmodified _VYDIAAKF_ 0 0 0 ENSG00000018510|ENST00000264167|AGPS ENSG00000018510|ENST00000264167|AGPS ENSG00000018510|ENST00000264167|AGPS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 463.7535705566406 2 463.752736 925.490919 2.3409 0.0010856 -0.74733 -0.00034658 1.5935 0.000739 463.7528903619929 52.154 0.2043 52.965 52.855 53.06 0.81065 20 12 2 0 0 0 0.17174 1 23754 23754 46.021 22.873 1 314360 37003 445 23596 23669 41483 41483 0.025192840115209947 VYDIAAKF 8 Unmodified _VYDIAAKF_ 0 0 0 ENSG00000018510|ENST00000264167|AGPS ENSG00000018510|ENST00000264167|AGPS ENSG00000018510|ENST00000264167|AGPS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 463.7544860839844 2 463.752736 925.490919 2.8429 0.0013184 -0.46305 -0.00021474 2.3798 0.0011037 463.7526124703661 53.078 0.28042 53.341 53.213 53.494 0.26344 30 22 2 0 0 0 0.36624 1 24279 24279 30.637 13.694 1 1052600 37004 445 23596 23669 41484 41484 0.025192840115209947 VYDIAAKF 8 Unmodified _VYDIAAKF_ 0 0 0 ENSG00000018510|ENST00000264167|AGPS ENSG00000018510|ENST00000264167|AGPS ENSG00000018510|ENST00000264167|AGPS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 463.752736 925.490919 2.9449 0.0013657 -0.2536 -0.00011761 2.6913 0.0012481 463.75267199483517 53.256 0.15742 53.256 53.167 53.324 0 0.036638 0.00016642 NaN 46.021 11 8 2 NaN NaN NaN NaN 0 NaN NaN 0 476870 37005 445 23596 23669 0.025192840115209947 VYDIAAKF 8 Unmodified _VYDIAAKF_ 0 0 0 ENSG00000018510|ENST00000264167|AGPS ENSG00000018510|ENST00000264167|AGPS ENSG00000018510|ENST00000264167|AGPS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 463.752736 925.490919 2.6434 0.0012259 -0.33877 -0.00015711 2.3047 0.0010688 463.7526950290603 52.655 0.15424 53.317 53.201 53.355 0.66198 0.097185 8.7417E-05 NaN 46.021 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 1015600 37006 445 23596 23669 0.025192840115209947 VYDPLFSQL 9 Unmodified _VYDPLFSQL_ 0 0 0 ENSG00000100104|ENST00000215917|SRRD ENSG00000100104|ENST00000215917|SRRD ENSG00000100104|ENST00000215917|SRRD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.2822875976562 2 541.281857 1080.54916 3.3737 0.0018261 -0.23791 -0.00012878 3.1358 0.0016974 541.2817103195534 85.585 0.23414 85.834 85.724 85.958 0.24857 21 9 3 0 0 0 0.02234 1 39388 39388 65.235 12.967 1 781120 37007 1176 23597 23670 41485 41485 0.012109208661286175 VYDPLFSQL 9 Unmodified _VYDPLFSQL_ 0 0 0 ENSG00000100104|ENST00000215917|SRRD ENSG00000100104|ENST00000215917|SRRD ENSG00000100104|ENST00000215917|SRRD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.2830200195312 2 541.281857 1080.54916 3.5322 0.0019119 -0.067636 -3.661E-05 3.4645 0.0018753 541.281586608091 85.018 0.29298 85.684 85.525 85.818 0.66566 25 12 3 0 0 0 0.029308 2 39150 39150;39210 56.177 12.319 1 920560 37008 1176 23597 23670 41486;41487 41486 0.012109208661286175 VYDTNPAKF 9 Unmodified _VYDTNPAKF_ 0 0 0 ENSG00000139433|ENST00000318348|GLTP ENSG00000139433|ENST00000318348|GLTP ENSG00000139433|ENST00000318348|GLTP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.7655029296875 2 527.763832 1053.51311 2.9584 0.0015613 0.056611 2.9877E-05 3.015 0.0015912 527.7638127029176 35.281 0.21241 35.281 35.198 35.411 0 29 20 2 0 0 0 0.016529 1 15991 15991 72.968 38.866 1 1424600 37009 3148 23598 23671 41488 41488 -0.011505363107289668 VYDTNPAKF 9 Unmodified _VYDTNPAKF_ 0 0 0 ENSG00000139433|ENST00000318348|GLTP ENSG00000139433|ENST00000318348|GLTP ENSG00000139433|ENST00000318348|GLTP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.7657470703125 2 527.763832 1053.51311 3.0188 0.0015932 0.44736 0.0002361 3.4661 0.0018293 527.7639714238919 34.405 0.23286 35.194 35.003 35.236 0.78921 28 13 3 0 0 0 0.021401 2 15580 15535;15580 66.457 34.151 1 912480 37010 3148 23598 23671 41489;41490 41490 -0.011505363107289668 VYDTNPAKF 9 Unmodified _VYDTNPAKF_ 0 0 0 ENSG00000139433|ENST00000318348|GLTP ENSG00000139433|ENST00000318348|GLTP ENSG00000139433|ENST00000318348|GLTP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.7660522460938 2 527.763832 1053.51311 3.2247 0.0017019 0.4887 0.00025792 3.7134 0.0019598 527.7639630687543 35.183 0.26889 35.438 35.297 35.566 0.25524 25 12 3 0 0 0 0.034495 2 16060 16010;16060 53.833 28.433 1 730450 37011 3148 23598 23671 41491;41492 41492 -0.011505363107289668 VYDTVFKHF 9 Unmodified _VYDTVFKHF_ 0 0 0 nc|ENSG00000185404|Q9H930-1|SP140L;nc|ENSG00000185404|Q9H930-2|SP140L;ENSG00000185404|ENST00000415673|SP140L nc|ENSG00000185404|Q9H930-1|SP140L nc|ENSG00000185404|Q9H930-1|SP140L MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.0409545898438 2 578.295299 1154.57605 3.6826 0.0021297 0.025242 1.4598E-05 3.7079 0.0021443 578.2952889013816 48.788 0.14519 48.788 48.731 48.876 0 13 9 2 0 0 0 0.058713 1 22338 22338 29.082 8.628 1 331680 37012 5505 23599 23672 41493 41493 0.004940294773177811 VYDTVFKHF 9 Unmodified _VYDTVFKHF_ 0 0 0 nc|ENSG00000185404|Q9H930-1|SP140L;nc|ENSG00000185404|Q9H930-2|SP140L;ENSG00000185404|ENST00000415673|SP140L nc|ENSG00000185404|Q9H930-1|SP140L nc|ENSG00000185404|Q9H930-1|SP140L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.6246948242188 2 578.295299 1154.57605 NaN NaN NaN NaN NaN NaN NaN 47.549 1 48.378 47.878 48.878 0.82915 0 0 0 0.40345 1 21664 21664 22.736 7.898 1 37013 5505 23599 23672 41494 41494 0.004940294773177811 VYDTVFKHF 9 Unmodified _VYDTVFKHF_ 0 0 0 nc|ENSG00000185404|Q9H930-1|SP140L;nc|ENSG00000185404|Q9H930-2|SP140L;ENSG00000185404|ENST00000415673|SP140L nc|ENSG00000185404|Q9H930-1|SP140L nc|ENSG00000185404|Q9H930-1|SP140L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.2966918945312 2 578.295299 1154.57605 3.4868 0.0020164 -0.41516 -0.00024009 3.0716 0.0017763 578.2951526785937 48.667 0.20218 48.929 48.816 49.018 0.26209 10 7 2 0 0 0 0.024388 1 22263 22263 62.573 36.305 1 523970 37014 5505 23599 23672 41495 41495 0.004940294773177811 VYDTVFKHF 9 Unmodified _VYDTVFKHF_ 0 0 0 nc|ENSG00000185404|Q9H930-1|SP140L;nc|ENSG00000185404|Q9H930-2|SP140L;ENSG00000185404|ENST00000415673|SP140L nc|ENSG00000185404|Q9H930-1|SP140L nc|ENSG00000185404|Q9H930-1|SP140L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.2982177734375 2 578.295299 1154.57605 3.7553 0.0021716 -0.15397 -8.9039E-05 3.6013 0.0020826 578.2950899724731 48.114 0.35677 48.768 48.562 48.919 0.65356 19 12 2 0 0 0 0.024388 1 21993 21993 62.573 36.305 1 331970 37015 5505 23599 23672 41496 41496 0.004940294773177811 VYDVVELKF 9 Unmodified _VYDVVELKF_ 0 0 0 CPSF7|p.N207Mfs*23|1|0.06|ENSG00000149532|chr11:61416435-61416450|GATGAGGGTACAAGGT/-|frameshift_variant;ENSG00000149532|ENST00000439958|CPSF7;nc|ENSG00000149532|Q8N684|CPSF7;nc|ENSG00000149532|Q8N684-3|CPSF7 CPSF7|p.N207Mfs*23|1|0.06|ENSG00000149532|chr11:61416435-61416450|GATGAGGGTACAAGGT/-|frameshift_variant CPSF7|p.N207Mfs*23|1|0.06|ENSG00000149532|chr11:61416435-61416450|GATGAGGGTACAAGGT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 556.3076171875 2 556.305332 1110.59611 2.8684 0.0015957 0.036492 2.0301E-05 2.9049 0.001616 556.3054313142007 71.532 0.24921 71.532 71.433 71.682 0 37 25 2 0 0 0 0.049036 1 34746 34746 47.594 26.057 1 1289100 37016 243 23600 23673 41497 41497 0.0452378041729844 VYDVVELKF 9 Unmodified _VYDVVELKF_ 0 0 0 CPSF7|p.N207Mfs*23|1|0.06|ENSG00000149532|chr11:61416435-61416450|GATGAGGGTACAAGGT/-|frameshift_variant;ENSG00000149532|ENST00000439958|CPSF7;nc|ENSG00000149532|Q8N684|CPSF7;nc|ENSG00000149532|Q8N684-3|CPSF7 CPSF7|p.N207Mfs*23|1|0.06|ENSG00000149532|chr11:61416435-61416450|GATGAGGGTACAAGGT/-|frameshift_variant CPSF7|p.N207Mfs*23|1|0.06|ENSG00000149532|chr11:61416435-61416450|GATGAGGGTACAAGGT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.3081665039062 2 556.305332 1110.59611 3.3147 0.001844 0.53002 0.00029485 3.8448 0.0021389 556.3052303995927 71.426 0.20444 71.684 71.583 71.788 0.25786 33 15 3 0 0 0 0.03963 1 32740 32740 51.63 22.548 1 709480 37017 243 23600 23673 41498 41498 0.0452378041729844 VYDVVELKF 9 Unmodified _VYDVVELKF_ 0 0 0 CPSF7|p.N207Mfs*23|1|0.06|ENSG00000149532|chr11:61416435-61416450|GATGAGGGTACAAGGT/-|frameshift_variant;ENSG00000149532|ENST00000439958|CPSF7;nc|ENSG00000149532|Q8N684|CPSF7;nc|ENSG00000149532|Q8N684-3|CPSF7 CPSF7|p.N207Mfs*23|1|0.06|ENSG00000149532|chr11:61416435-61416450|GATGAGGGTACAAGGT/-|frameshift_variant CPSF7|p.N207Mfs*23|1|0.06|ENSG00000149532|chr11:61416435-61416450|GATGAGGGTACAAGGT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.3076782226562 2 556.305332 1110.59611 2.9858 0.001661 0.84713 0.00047126 3.8329 0.0021323 556.3056612935404 70.932 0.28623 71.594 71.404 71.69 0.66209 28 17 2 0 0 0 0.030603 1 32501 32501 55.503 29.235 1 596770 37018 243 23600 23673 41499 41499 0.0452378041729844 VYEARDLAL 9 Unmodified _VYEARDLAL_ 0 0 0 REV__ENST00000470359.2_1_13:37621536-37625627:-|nuORF REV__ENST00000470359.2_1_13:37621536-37625627:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 525.2867431640625 2 525.284931 1048.55531 3.2046 0.0016833 0.47494 0.00024948 3.6795 0.0019328 525.2852061012012 48.749 0.44191 48.749 48.524 48.966 0 44 25 2 0 0 0 0.032303 1 22390 22390 54.774 0 1 503780 + 37019 10936 23601 23674 41500 41500 0.032974390976505674 VYEARDLAL 9 Unmodified _VYEARDLAL_ 0 0 0 REV__ENST00000470359.2_1_13:37621536-37625627:-|nuORF REV__ENST00000470359.2_1_13:37621536-37625627:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 525.2859497070312 2 525.284931 1048.55531 3.186 0.0016736 0.21279 0.00011178 3.3988 0.0017854 525.2845968813463 47.674 0.41705 48.503 48.275 48.692 0.82915 34 22 3 0 0 0 0.047285 1 21758 21758 48.346 0 1 464980 + 37020 10936 23601 23674 41501 41501 0.032974390976505674 VYEARDLAL 9 Unmodified _VYEARDLAL_ 0 0 0 REV__ENST00000470359.2_1_13:37621536-37625627:-|nuORF REV__ENST00000470359.2_1_13:37621536-37625627:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 525.284931 1048.55531 3.2046 0.0016833 0.47494 0.00024948 3.6795 0.0019328 525.2852061012012 48.749 0.44191 48.749 48.524 48.966 0 0.12299 8.649E-05 NaN 54.774 44 25 2 NaN NaN NaN NaN 0 NaN NaN 0 503780 + 37021 10936 23601 23674 0.032974390976505674 VYEARDLAL 9 Unmodified _VYEARDLAL_ 0 0 0 REV__ENST00000470359.2_1_13:37621536-37625627:-|nuORF REV__ENST00000470359.2_1_13:37621536-37625627:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 525.284931 1048.55531 3.186 0.0016736 0.21279 0.00011178 3.3988 0.0017854 525.2845968813463 47.674 0.41705 48.503 48.275 48.692 0.82915 -0.12299 -0.00018892 NaN 54.774 34 22 3 NaN NaN NaN NaN 0 NaN NaN 0 464980 + 37022 10936 23601 23674 0.032974390976505674 VYEDQVGKF 9 Unmodified _VYEDQVGKF_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.772216796875 2 542.769114 1083.52368 3.5033 0.0019015 -0.33184 -0.00018011 3.1715 0.0017214 542.7690207109614 37.732 0.25343 37.732 37.585 37.838 0 16 9 2 0 0 0 0.014491 1 17119 17119 75.761 51.74 1 542250 37023 2480 23602 23675 41502 41502 -0.014745536562713824 VYEDQVGKF 9 Unmodified _VYEDQVGKF_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.7699584960938 2 542.769114 1083.52368 3.1529 0.0017113 -0.54513 -0.00029588 2.6078 0.0014154 542.7687830486851 36.672 0.29367 37.465 37.292 37.586 0.79342 25 14 2 0 0 0 0.021401 2 16606 16606;16663 66.457 48.31 1 587740 37024 2480 23602 23675 41503;41504 41503 -0.014745536562713824 VYEDQVGKF 9 Unmodified _VYEDQVGKF_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.7713012695312 2 542.769114 1083.52368 NaN NaN NaN NaN NaN NaN NaN 37.144 1 37.774 37.274 38.274 0.62999 0 0 0 0.40345 1 17000 17000 22.736 6.8891 1 37025 2480 23602 23675 41505 41505 -0.014745536562713824 VYEDQVGKF 9 Unmodified _VYEDQVGKF_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.7718505859375 2 542.769114 1083.52368 NaN NaN NaN NaN NaN NaN NaN 37.179 1 37.809 37.309 38.309 0.62999 0 0 0 0.52632 1 17016 17016 18.146 5.1039 1 37026 2480 23602 23675 41506 41506 -0.014745536562713824 VYEEILHQI 9 Unmodified _VYEEILHQI_ 0 0 0 ENSG00000135842|ENST00000367511|NIBAN1 ENSG00000135842|ENST00000367511|NIBAN1 ENSG00000135842|ENST00000367511|NIBAN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 572.3084716796875 2 572.305864 1142.59717 3.2825 0.0018786 2.1524 0.0012318 5.4349 0.0031104 572.3059859575694 58.861 0.10724 59.62 59.525 59.632 0.75894 13 10 2 0 0 0 0.0012577 1 27027 27027 123.45 79.592 1 1310600 37027 2903 23603 23676 41507 41507 0.031579947861928304 VYEEILHQI 9 Unmodified _VYEEILHQI_ 0 0 0 ENSG00000135842|ENST00000367511|NIBAN1 ENSG00000135842|ENST00000367511|NIBAN1 ENSG00000135842|ENST00000367511|NIBAN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.308837890625 2 572.305864 1142.59717 NaN NaN NaN NaN NaN NaN NaN 59.705 1 59.964 59.464 60.464 0.2593 0 0 0 0.01256 1 27341 27341 81.89 35.869 1 37028 2903 23603 23676 41508 41508 0.031579947861928304 VYEEILHQI 9 Unmodified _VYEEILHQI_ 0 0 0 ENSG00000135842|ENST00000367511|NIBAN1 ENSG00000135842|ENST00000367511|NIBAN1 ENSG00000135842|ENST00000367511|NIBAN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 572.3090209960938 2 572.305864 1142.59717 3.6555 0.0020921 0.13756 7.8729E-05 3.7931 0.0021708 572.3060457481442 59.161 0.23293 59.828 59.661 59.894 0.66703 18 12 2 0 0 0 0.0014219 1 27075 27075 111.29 65.266 1 951200 37029 2903 23603 23676 41509 41509 0.031579947861928304 VYEGPELNHAF 11 Unmodified _VYEGPELNHAF_ 0 0 0 ENSG00000123384|ENST00000243077|LRP1 ENSG00000123384|ENST00000243077|LRP1 ENSG00000123384|ENST00000243077|LRP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 638.306640625 2 638.303852 1274.59315 3.8239 0.0024408 1.2753 0.00081401 5.0992 0.0032548 638.3047607237495 51.615 0.2622 51.615 51.53 51.792 0 27 16 2 0 0 0 0.14906 1 23685 23685 33.445 19.539 1 352260 37030 2310 23604 23677 41510 41510 -0.03316094707543016 VYEGPELNHAF 11 Unmodified _VYEGPELNHAF_ 0 0 0 ENSG00000123384|ENST00000243077|LRP1 ENSG00000123384|ENST00000243077|LRP1 ENSG00000123384|ENST00000243077|LRP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 638.8081665039062 2 638.303852 1274.59315 3.352 0.0021396 0.90798 0.00057956 4.26 0.0027192 638.3044347507313 50.687 0.29661 51.505 51.407 51.703 0.81738 22 16 2 0 0 0 0.16104 1 23121 23121 31.268 16.02 1 298030 37031 2310 23604 23677 41511 41511 -0.03316094707543016 VYEGPELNHAF 11 Unmodified _VYEGPELNHAF_ 0 0 0 ENSG00000123384|ENST00000243077|LRP1 ENSG00000123384|ENST00000243077|LRP1 ENSG00000123384|ENST00000243077|LRP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 638.303852 1274.59315 3.6203 0.0023109 -0.068915 -4.3989E-05 3.5514 0.0022669 638.3037393312266 51.563 0.15939 51.825 51.774 51.934 0.26227 0.17676 -0.0012281 NaN 33.445 11 7 2 NaN NaN NaN NaN 0 NaN NaN 0 293830 37032 2310 23604 23677 -0.03316094707543016 VYENVSHFL 9 Unmodified _VYENVSHFL_ 0 0 0 ENSG00000164933|ENST00000297578|SLC25A32 ENSG00000164933|ENST00000297578|SLC25A32 ENSG00000164933|ENST00000297578|SLC25A32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.2789916992188 2 554.277106 1106.53966 3.5519 0.0019688 -0.86493 -0.00047941 2.687 0.0014894 554.778368812354 55.862 0.26457 56.53 56.393 56.657 0.66798 16 9 2 0 0 0 0.024388 1 25543 25543 62.573 38.552 1 709190 37033 4356 23605 23678 41512 41512 -0.009348474193984657 VYENVSHFL 9 Unmodified _VYENVSHFL_ 0 0 0 ENSG00000164933|ENST00000297578|SLC25A32 ENSG00000164933|ENST00000297578|SLC25A32 ENSG00000164933|ENST00000297578|SLC25A32 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 554.277106 1106.53966 3.5628 0.0019748 0.43515 0.00024119 3.998 0.002216 554.2769065916353 56.618 0.24982 56.618 56.534 56.784 0 0.017005 0.0004961 NaN 62.573 38 20 3 NaN NaN NaN NaN 0 NaN NaN 0 1206900 37034 4356 23605 23678 -0.009348474193984657 VYENVSHFL 9 Unmodified _VYENVSHFL_ 0 0 0 ENSG00000164933|ENST00000297578|SLC25A32 ENSG00000164933|ENST00000297578|SLC25A32 ENSG00000164933|ENST00000297578|SLC25A32 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 554.277106 1106.53966 2.9643 0.001643 1.0193 0.00056497 3.9836 0.002208 554.2773008300785 55.608 0.22224 56.395 56.297 56.519 0.78711 -0.20589 0.0011437 NaN 62.573 27 17 2 NaN NaN NaN NaN 0 NaN NaN 0 998320 37035 4356 23605 23678 -0.009348474193984657 VYENVSHFL 9 Unmodified _VYENVSHFL_ 0 0 0 ENSG00000164933|ENST00000297578|SLC25A32 ENSG00000164933|ENST00000297578|SLC25A32 ENSG00000164933|ENST00000297578|SLC25A32 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 554.277106 1106.53966 3.4996 0.0019398 -0.33864 -0.0001877 3.161 0.0017521 554.2768119113215 56.596 0.19311 56.861 56.735 56.928 0.26543 0.25979 -0.00036168 NaN 62.573 14 12 2 NaN NaN NaN NaN 0 NaN NaN 0 755850 37036 4356 23605 23678 -0.009348474193984657 VYERELQTF 9 Unmodified _VYERELQTF_ 0 0 0 ENSG00000203791|ENST00000368836|EEF1AKMT2 ENSG00000203791|ENST00000368836|EEF1AKMT2 ENSG00000203791|ENST00000368836|EEF1AKMT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 592.8040161132812 2 592.800946 1183.58734 3.3696 0.0019975 0.09962 5.9055E-05 3.4692 0.0020565 593.3023327649761 43.776 0.19494 43.776 43.71 43.905 0 25 14 2 0 0 0 0.0013355 2 19973 19973;20026 117.76 66.131 1 3083000 37037 5976 23606 23679 41513;41514 41513 0.0028880678080440703 VYERELQTF 9 Unmodified _VYERELQTF_ 0 0 0 ENSG00000203791|ENST00000368836|EEF1AKMT2 ENSG00000203791|ENST00000368836|EEF1AKMT2 ENSG00000203791|ENST00000368836|EEF1AKMT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 592.8031005859375 2 592.800946 1183.58734 3.4022 0.0020168 0.81183 0.00048125 4.214 0.0024981 592.8015298612547 42.706 0.095478 43.515 43.482 43.577 0.80855 25 14 2 0 0 0 0.0014317 1 19402 19402 110.55 54.376 1 3221600 37038 5976 23606 23679 41515 41515 0.0028880678080440703 VYERELQTF 9 Unmodified _VYERELQTF_ 0 0 0 ENSG00000203791|ENST00000368836|EEF1AKMT2 ENSG00000203791|ENST00000368836|EEF1AKMT2 ENSG00000203791|ENST00000368836|EEF1AKMT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.80322265625 2 592.800946 1183.58734 NaN NaN NaN NaN NaN NaN NaN 43.723 1 43.992 43.492 44.492 0.2694 0 0 0 0.00016887 1 19969 19969 103.42 47.917 1 37039 5976 23606 23679 41516 41516 0.0028880678080440703 VYERELQTF 9 Unmodified _VYERELQTF_ 0 0 0 ENSG00000203791|ENST00000368836|EEF1AKMT2 ENSG00000203791|ENST00000368836|EEF1AKMT2 ENSG00000203791|ENST00000368836|EEF1AKMT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 593.30615234375 2 592.800946 1183.58734 3.9797 0.0023591 0.27874 0.00016523 4.2584 0.0025244 592.8010604186313 43.226 0.26718 43.875 43.754 44.022 0.64872 28 13 3 0 0 0 0.0090098 2 19801 19801;19857 83.429 46.923 1 766880 37040 5976 23606 23679 41517;41518 41517 0.0028880678080440703 VYERELQTF 9 Unmodified _VYERELQTF_ 0 0 0 ENSG00000203791|ENST00000368836|EEF1AKMT2 ENSG00000203791|ENST00000368836|EEF1AKMT2 ENSG00000203791|ENST00000368836|EEF1AKMT2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 592.800946 1183.58734 3.4025 0.002017 -0.40439 -0.00023972 2.9981 0.0017773 592.800497214102 42.646 0.023151 43.454 43.443 43.466 0.80856 -0.24745 -0.0005973 NaN 117.76 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 2986000 37041 5976 23606 23679 0.0028880678080440703 VYEYVVERF 9 Unmodified _VYEYVVERF_ 0 0 0 nc|ENSG00000134744|Q5TAX3|TUT4;ENSG00000134744|ENST00000257177|TUT4 nc|ENSG00000134744|Q5TAX3|TUT4 nc|ENSG00000134744|Q5TAX3|TUT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 602.8101196289062 2 602.305864 1202.59717 3.4811 0.0020967 0.084685 5.1006E-05 3.5658 0.0021477 602.3061520855724 57.701 0.20788 57.701 57.606 57.814 0 29 19 2 0 0 0 0.018453 1 26592 26592 70.332 32.156 1 942100 37042 2824 23607 23680 41519 41519 0.003979947861580513 VYEYVVERF 9 Unmodified _VYEYVVERF_ 0 0 0 nc|ENSG00000134744|Q5TAX3|TUT4;ENSG00000134744|ENST00000257177|TUT4 nc|ENSG00000134744|Q5TAX3|TUT4 nc|ENSG00000134744|Q5TAX3|TUT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 602.8085327148438 2 602.305864 1202.59717 3.6365 0.0021903 -0.28893 -0.00017402 3.3475 0.0020162 602.3056854576506 57.485 0.15587 57.75 57.71 57.866 0.26444 15 9 2 0 0 0 0.025135 2 26339 26339;26346 61.602 23.426 1 736710 37043 2824 23607 23680 41520;41521 41520 0.003979947861580513 VYEYVVERF 9 Unmodified _VYEYVVERF_ 0 0 0 nc|ENSG00000134744|Q5TAX3|TUT4;ENSG00000134744|ENST00000257177|TUT4 nc|ENSG00000134744|Q5TAX3|TUT4 nc|ENSG00000134744|Q5TAX3|TUT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 602.3089599609375 2 602.305864 1202.59717 3.9431 0.0023749 -0.11343 -6.8321E-05 3.8296 0.0023066 602.3056549114511 56.957 0.20258 57.626 57.521 57.724 0.66829 14 8 2 0 0 0 0.025135 1 26043 26043 61.602 38.866 1 547840 37044 2824 23607 23680 41522 41522 0.003979947861580513 VYFGHWVVM 9 Unmodified _VYFGHWVVM_ 0 0 0 ENST00000412609.5_1_19:40170059-40174276:+|nuORF;ENST00000598164.2_1_19:40172096-40174784:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF ENST00000412609.5_1_19:40170059-40174276:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.2788696289062 2 569.281137 1136.54772 3.2622 0.0018571 -1.5457 -0.00087994 1.7164 0.00097714 569.2798776683395 75.989 0.22461 76.246 76.102 76.327 0.25705 20 15 2 0 0 0 0.053335 1 34971 34971 45.75 27.604 1 540040 37045 7681 23608 23681 41523 41523 -0.015089917036220868 VYFKNFIPF 9 Unmodified _VYFKNFIPF_ 0 0 0 ENSG00000139687|ENST00000267163|RB1;RB1|p.K640Ifs*22|1|0.06|ENSG00000139687|chr13:48456307-48456308|-/TACATCTTGTCTATTTAATTGGTATTAT|frameshift_variant ENSG00000139687|ENST00000267163|RB1 ENSG00000139687|ENST00000267163|RB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.322509765625 2 587.81841 1173.62227 3.4772 0.002044 -0.062275 -3.6607E-05 3.4149 0.0020074 587.8184407747134 83.457 0.2646 83.704 83.569 83.833 0.24722 30 16 2 0 0 0 0.12301 1 38415 38415 28.487 9.2299 1 456690 37046 3160 23609 23682 41524 41524 0.042400943794064005 VYFKNFIPF 9 Unmodified _VYFKNFIPF_ 0 0 0 ENSG00000139687|ENST00000267163|RB1;RB1|p.K640Ifs*22|1|0.06|ENSG00000139687|chr13:48456307-48456308|-/TACATCTTGTCTATTTAATTGGTATTAT|frameshift_variant ENSG00000139687|ENST00000267163|RB1 ENSG00000139687|ENST00000267163|RB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.8206787109375 2 587.81841 1173.62227 3.698 0.0021738 0.13274 7.8029E-05 3.8308 0.0022518 587.8183273095979 82.943 0.20612 83.603 83.491 83.697 0.66019 17 10 2 0 0 0 0.12301 1 38219 38219 28.487 9.2299 1 423630 37047 3160 23609 23682 41525 41525 0.042400943794064005 VYFPDQHINF 10 Unmodified _VYFPDQHINF_ 0 0 0 nc|ENSG00000116117|Q8TEW8-5|PARD3B;nc|ENSG00000116117|Q8TEW8-6|PARD3B;nc|ENSG00000116117|Q8TEW8-3|PARD3B;nc|ENSG00000116117|Q8TEW8-2|PARD3B;ENSG00000116117|ENST00000406610|PARD3B nc|ENSG00000116117|Q8TEW8-5|PARD3B nc|ENSG00000116117|Q8TEW8-5|PARD3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 640.3112182617188 2 640.308938 1278.60332 3.7468 0.0023991 -0.043522 -2.7867E-05 3.7032 0.0023712 640.3090146213588 64.624 0.30498 64.872 64.843 65.148 0.24803 46 27 2 0 0 0 0.019545 2 29607 29607;29671 75.761 39.717 1 3333200 37048 2012 23610 23683 41526;41527 41526 -0.024834869822825567 VYFPDQHINF 10 Unmodified _VYFPDQHINF_ 0 0 0 nc|ENSG00000116117|Q8TEW8-5|PARD3B;nc|ENSG00000116117|Q8TEW8-6|PARD3B;nc|ENSG00000116117|Q8TEW8-3|PARD3B;nc|ENSG00000116117|Q8TEW8-2|PARD3B;ENSG00000116117|ENST00000406610|PARD3B nc|ENSG00000116117|Q8TEW8-5|PARD3B nc|ENSG00000116117|Q8TEW8-5|PARD3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 640.3095092773438 2 640.308938 1278.60332 4.0018 0.0025624 -0.92031 -0.00058928 3.0815 0.0019731 640.8098869825485 64.192 0.15318 64.849 64.824 64.978 0.65672 24 16 2 0 0 0 0.0691 1 29459 29459 57.722 41.875 1 3321600 37049 2012 23610 23683 41528 41528 -0.024834869822825567 VYFPDQHINF 10 Unmodified _VYFPDQHINF_ 0 0 0 nc|ENSG00000116117|Q8TEW8-5|PARD3B;nc|ENSG00000116117|Q8TEW8-6|PARD3B;nc|ENSG00000116117|Q8TEW8-3|PARD3B;nc|ENSG00000116117|Q8TEW8-2|PARD3B;ENSG00000116117|ENST00000406610|PARD3B nc|ENSG00000116117|Q8TEW8-5|PARD3B nc|ENSG00000116117|Q8TEW8-5|PARD3B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 640.3121948242188 2 640.308938 1278.60332 3.9735 0.0025443 1.4284 0.00091461 5.4019 0.0034589 640.8114390614858 64.067 0.18111 64.723 64.561 64.743 0.65672 21 14 2 0 0 0 0.12212 1 29357 29357 18.146 8.7632 1 4330300 37050 2012 23610 23683 41529 41529 -0.024834869822825567 VYFSKSEQL 9 Unmodified _VYFSKSEQL_ 0 0 0 ENSG00000142627|ENST00000358432|EPHA2 ENSG00000142627|ENST00000358432|EPHA2 ENSG00000142627|ENST00000358432|EPHA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.7864990234375 2 550.784764 1099.55498 NaN NaN NaN NaN NaN NaN NaN 39.732 1 39.732 39.232 40.232 0 0 0 0 0.40345 1 18031 18031 22.736 2.2827 1 37051 3321 23611 23684 41530 41530 0.009180193778320245 VYFSKSEQL 9 Unmodified _VYFSKSEQL_ 0 0 0 ENSG00000142627|ENST00000358432|EPHA2 ENSG00000142627|ENST00000358432|EPHA2 ENSG00000142627|ENST00000358432|EPHA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.786865234375 2 550.784764 1099.55498 3.2636 0.0017975 0.4016 0.00022119 3.6652 0.0020187 550.7845186323837 38.417 0.2233 39.214 39.156 39.379 0.79762 30 10 4 0 0 0 0.038142 1 17423 17423 52.268 19.963 1 791910 37052 3321 23611 23684 41531 41531 0.009180193778320245 VYGFLRNGF 9 Unmodified _VYGFLRNGF_ 0 0 0 ENST00000343327.6_1_9:115030452-115095785:-|nuORF ENST00000343327.6_1_9:115030452-115095785:-|nuORF ENST00000343327.6_1_9:115030452-115095785:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.7839965820312 2 536.782359 1071.55016 2.6273 0.0014103 0.25153 0.00013502 2.8788 0.0015453 537.2837527363062 63.326 0.21968 63.326 63.254 63.474 0 37 22 2 0 0 0 0.026068 1 29801 29801 60.39 32.216 1 4155300 37053 7092 23612 23685 41532 41532 0.017251800257099603 VYGFLRNGF 9 Unmodified _VYGFLRNGF_ 0 0 0 ENST00000343327.6_1_9:115030452-115095785:-|nuORF ENST00000343327.6_1_9:115030452-115095785:-|nuORF ENST00000343327.6_1_9:115030452-115095785:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.7840576171875 2 536.782359 1071.55016 2.8276 0.0015178 0.36814 0.00019761 3.1958 0.0017154 536.7824649037183 63.392 0.25278 63.64 63.52 63.773 0.24803 26 15 2 0 0 0 0.020718 2 29016 29016;29062 67.344 39.171 1 854020 37054 7092 23612 23685 41533;41534 41533 0.017251800257099603 VYGFLRNGF 9 Unmodified _VYGFLRNGF_ 0 0 0 ENST00000343327.6_1_9:115030452-115095785:-|nuORF ENST00000343327.6_1_9:115030452-115095785:-|nuORF ENST00000343327.6_1_9:115030452-115095785:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.7839965820312 2 536.782359 1071.55016 3.0748 0.0016505 -0.27406 -0.00014711 2.8007 0.0015034 536.781971041094 62.792 0.25166 63.45 63.307 63.559 0.65808 27 16 2 0 0 0 0.062556 1 28750 28750 42.095 13.921 1 1044100 37055 7092 23612 23685 41535 41535 0.017251800257099603 VYGFVREAL 9 Unmodified _VYGFVREAL_ 0 0 0 ENST00000588238.1_1_19:4446018-4446171:-|nuORF;nc|ENSG00000167671|Q9BZV1-2|UBXN6;ENSG00000167671|ENST00000301281|UBXN6 ENST00000588238.1_1_19:4446018-4446171:-|nuORF ENST00000588238.1_1_19:4446018-4446171:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.2918090820312 2 527.290017 1052.56548 3.0453 0.0016057 0.12841 6.7708E-05 3.1737 0.0016734 527.2901515662176 56.069 0.29612 56.069 55.908 56.205 0 49 20 3 0 0 0 0.057945 2 25830 25784;25830 43.772 17.503 1 1771800 37056 4570 23613 23686 41536;41537 41537 0.04130046822888289 VYGFVREAL 9 Unmodified _VYGFVREAL_ 0 0 0 ENST00000588238.1_1_19:4446018-4446171:-|nuORF;nc|ENSG00000167671|Q9BZV1-2|UBXN6;ENSG00000167671|ENST00000301281|UBXN6 ENST00000588238.1_1_19:4446018-4446171:-|nuORF ENST00000588238.1_1_19:4446018-4446171:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.29150390625 2 527.290017 1052.56548 2.8352 0.001495 0.30887 0.00016286 3.1441 0.0016578 527.2901276532123 55.036 0.29416 55.823 55.686 55.981 0.78711 47 19 3 0 0 0 0.025135 2 25119 25119;25176 61.602 19.762 1 1670900 37057 4570 23613 23686 41538;41539 41538 0.04130046822888289 VYGFVREAL 9 Unmodified _VYGFVREAL_ 0 0 0 ENST00000588238.1_1_19:4446018-4446171:-|nuORF;nc|ENSG00000167671|Q9BZV1-2|UBXN6;ENSG00000167671|ENST00000301281|UBXN6 ENST00000588238.1_1_19:4446018-4446171:-|nuORF ENST00000588238.1_1_19:4446018-4446171:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.292236328125 2 527.290017 1052.56548 3.1854 0.0016796 -0.087467 -4.6121E-05 3.098 0.0016335 527.289793223486 56.028 0.23527 56.293 56.15 56.386 0.26543 22 9 3 0 0 0 0.035495 1 25611 25611 53.404 24.917 1 1674600 37058 4570 23613 23686 41540 41540 0.04130046822888289 VYGFVREAL 9 Unmodified _VYGFVREAL_ 0 0 0 ENST00000588238.1_1_19:4446018-4446171:-|nuORF;nc|ENSG00000167671|Q9BZV1-2|UBXN6;ENSG00000167671|ENST00000301281|UBXN6 ENST00000588238.1_1_19:4446018-4446171:-|nuORF ENST00000588238.1_1_19:4446018-4446171:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.2925415039062 2 527.290017 1052.56548 3.2885 0.001734 0.63821 0.00033652 3.9267 0.0020705 527.2902798413458 55.306 0.28369 55.974 55.803 56.087 0.66797 20 10 2 0 0 0 0.049036 1 25303 25303 47.594 18.513 1 1313900 37059 4570 23613 23686 41541 41541 0.04130046822888289 VYGIRLEHF 9 Unmodified _VYGIRLEHF_ 0 0 0 ENST00000490881.5_1_1:163291794-163297702:+|nuORF;ENST00000487578.2_1_1:163295841-163298095:+|nuORF;ENSG00000143228|ENST00000271452|NUF2 ENST00000490881.5_1_1:163291794-163297702:+|nuORF ENST00000490881.5_1_1:163291794-163297702:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 378.5434265136719 3 378.541586 1132.60293 2.6282 0.00099488 1.87 0.00070786 4.4982 0.0017027 378.5424276923002 51.546 0.20651 51.809 51.744 51.95 0.26228 20 10 3 0 0 0 0.81759 1 23580 23580 7.1017 2.5729 1 656170 37060 3354 23614 23687 41542 41542 0.04193138088521664 VYGIRLEHF 9 Unmodified _VYGIRLEHF_ 0 0 0 ENST00000490881.5_1_1:163291794-163297702:+|nuORF;ENST00000487578.2_1_1:163295841-163298095:+|nuORF;ENSG00000143228|ENST00000271452|NUF2 ENST00000490881.5_1_1:163291794-163297702:+|nuORF ENST00000490881.5_1_1:163291794-163297702:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 378.541586 1132.60293 2.5377 0.00096063 1.6109 0.00060978 4.1486 0.0015704 378.54246449395555 50.943 0.22735 51.603 51.51 51.738 0.65956 -0.10293 -0.00015564 NaN 7.1017 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 528840 37061 3354 23614 23687 0.04193138088521664 VYGLQRNLL 9 Unmodified _VYGLQRNLL_ 0 0 0 nc|ENSG00000147573|Q9BYV6-4|TRIM55;nc|ENSG00000158022|Q969Q1-2|TRIM63;ENSG00000158022|ENST00000374272|TRIM63;ENSG00000138100|ENST00000380075|TRIM54;nc|ENSG00000138100|Q9BYV2-2|TRIM54;nc|ENSG00000147573|Q9BYV6-2|TRIM55;nc|ENSG00000147573|Q9BYV6-3|TRIM55;ENSG00000147573|ENST00000315962|TRIM55 nc|ENSG00000147573|Q9BYV6-4|TRIM55 nc|ENSG00000147573|Q9BYV6-4|TRIM55 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.3181762695312 2 538.316566 1074.61858 2.7861 0.0014998 0.79877 0.00042999 3.5849 0.0019298 538.317049299155 54.223 0.34169 55.018 54.834 55.175 0.79552 38 19 3 0 0 0 0.023109 1 24756 24756 64.236 18.215 1 604560 37062 3072 23615 23688 41543 41543 0.0842542460554796 VYGMMPRDE 9 Unmodified _VYGMMPRDE_ 0 0 0 nc|ENSG00000197694|Q13813-3|SPTAN1;nc|ENSG00000197694|Q13813|SPTAN1;ENSG00000197694|ENST00000372739|SPTAN1;SPTAN1|p.W2169Cfs*90|1|0.11|ENSG00000197694|chr9:128626632-128626632|G/-|frameshift_variant nc|ENSG00000197694|Q13813-3|SPTAN1 nc|ENSG00000197694|Q13813-3|SPTAN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.242431640625 2 549.241352 1096.46815 2.9829 0.0016384 -4.4494 -0.0024438 -1.4665 -0.00080544 549.238692750765 56.472 0.077991 57.25 57.222 57.3 0.77786 9 7 2 0 0 0 0.68285 1 25826 25826 9.3831 0.035688 1 523590 37063 5834 23616 23689 41544 41544 -0.07622426439911578 VYGNEGFHM 9 Unmodified _VYGNEGFHM_ 0 0 0 REV__ENSG00000166224|ENST00000373202|SGPL1 REV__ENSG00000166224|ENST00000373202|SGPL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.2274169921875 2 527.226559 1052.43857 3.22 0.0016977 -1.44 -0.00075921 1.78 0.00093846 527.2256107223757 38.593 0.35745 39.391 39.2 39.558 0.79762 31 16 2 0 0 0 0.3144 2 17451 17451;17505 15.847 10.824 1 322060 + 37064 13220 23617 23690 41545;41546 41545 -0.08555622393737394 VYGNEGFHM 9 Unmodified _VYGNEGFHM_ 0 0 0 REV__ENSG00000166224|ENST00000373202|SGPL1 REV__ENSG00000166224|ENST00000373202|SGPL1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 527.226559 1052.43857 3.2359 0.001706 -1.5948 -0.00084084 1.641 0.0008652 527.2256139601137 39.296 0.44696 39.563 39.347 39.794 0.26696 0.069681 7.1551E-05 NaN 15.847 28 17 2 NaN NaN NaN NaN 0 NaN NaN 0 519990 + 37065 13220 23617 23690 -0.08555622393737394 VYGNEGFHM 9 Unmodified _VYGNEGFHM_ 0 0 0 REV__ENSG00000166224|ENST00000373202|SGPL1 REV__ENSG00000166224|ENST00000373202|SGPL1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 527.226559 1052.43857 3.3026 0.0017412 -1.8305 -0.00096507 1.4722 0.00077617 527.2255422735733 38.888 0.49909 39.526 39.307 39.806 0.63778 0.032821 -0.00017691 NaN 15.847 29 17 2 NaN NaN NaN NaN 0 NaN NaN 0 421170 + 37066 13220 23617 23690 -0.08555622393737394 VYGNERFIQYL 11 Unmodified _VYGNERFIQYL_ 0 0 0 nc|ENSG00000073921|Q13492-3|PICALM;nc|ENSG00000073921|Q13492-4|PICALM;nc|ENSG00000073921|Q13492-2|PICALM;nc|ENSG00000073921|Q13492-5|PICALM;ENSG00000073921|ENST00000393346|PICALM;ENST00000528411.1_1_11:85734561-85780352:-|nuORF nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 701.3639526367188 2 701.361702 1400.70885 NaN NaN NaN NaN NaN NaN NaN 66.862 1 66.862 66.362 67.362 0 0 0 0 0.062343 1 31987 31987 51.488 31.034 1 37067 9560 23618 23691 41547 41547 0.024524291433408507 VYGNERFIQYL 11 Unmodified _VYGNERFIQYL_ 0 0 0 nc|ENSG00000073921|Q13492-3|PICALM;nc|ENSG00000073921|Q13492-4|PICALM;nc|ENSG00000073921|Q13492-2|PICALM;nc|ENSG00000073921|Q13492-5|PICALM;ENSG00000073921|ENST00000393346|PICALM;ENST00000528411.1_1_11:85734561-85780352:-|nuORF nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 700.990478515625 2 701.361702 1400.70885 NaN NaN NaN NaN NaN NaN NaN 66.894 1 66.894 66.394 67.394 0 0 0 0 0.010121 1 32003 32003 66.683 46.229 1 37068 9560 23618 23691 41548 41548 0.024524291433408507 VYGNERFIQYL 11 Unmodified _VYGNERFIQYL_ 0 0 0 nc|ENSG00000073921|Q13492-3|PICALM;nc|ENSG00000073921|Q13492-4|PICALM;nc|ENSG00000073921|Q13492-2|PICALM;nc|ENSG00000073921|Q13492-5|PICALM;ENSG00000073921|ENST00000393346|PICALM;ENST00000528411.1_1_11:85734561-85780352:-|nuORF nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 701.36083984375 2 701.361702 1400.70885 NaN NaN NaN NaN NaN NaN NaN 66.952 1 66.952 66.452 67.452 0 0 0 0 0.012399 1 32036 32036 64.927 38.043 1 37069 9560 23618 23691 41549 41549 0.024524291433408507 VYGNERFIQYL 11 Unmodified _VYGNERFIQYL_ 0 0 0 nc|ENSG00000073921|Q13492-3|PICALM;nc|ENSG00000073921|Q13492-4|PICALM;nc|ENSG00000073921|Q13492-2|PICALM;nc|ENSG00000073921|Q13492-5|PICALM;ENSG00000073921|ENST00000393346|PICALM;ENST00000528411.1_1_11:85734561-85780352:-|nuORF nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 701.363525390625 2 701.361702 1400.70885 3.0384 0.002131 -0.2453 -0.00017204 2.7931 0.001959 701.3612717478942 65.77 0.16712 66.479 66.401 66.569 0.70891 34 19 2 0 0 0 5.8166E-05 2 31112 31112;31161 92.201 57.269 1 2295400 37070 9560 23618 23691 41550;41551 41550 0.024524291433408507 VYGNERFIQYL 11 Unmodified _VYGNERFIQYL_ 0 0 0 nc|ENSG00000073921|Q13492-3|PICALM;nc|ENSG00000073921|Q13492-4|PICALM;nc|ENSG00000073921|Q13492-2|PICALM;nc|ENSG00000073921|Q13492-5|PICALM;ENSG00000073921|ENST00000393346|PICALM;ENST00000528411.1_1_11:85734561-85780352:-|nuORF nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 701.3630981445312 2 701.361702 1400.70885 3.9943 0.0028014 -0.72033 -0.00050521 3.2739 0.0022962 701.361284108281 66.915 0.27227 67.165 67.016 67.288 0.2501 29 16 2 0 0 0 0.0144 2 30630 30630;30679 62.869 42.415 1 778260 37071 9560 23618 23691 41552;41553 41552 0.024524291433408507 VYGNERFIQYL 11 Unmodified _VYGNERFIQYL_ 0 0 0 nc|ENSG00000073921|Q13492-3|PICALM;nc|ENSG00000073921|Q13492-4|PICALM;nc|ENSG00000073921|Q13492-2|PICALM;nc|ENSG00000073921|Q13492-5|PICALM;ENSG00000073921|ENST00000393346|PICALM;ENST00000528411.1_1_11:85734561-85780352:-|nuORF nc|ENSG00000073921|Q13492-3|PICALM nc|ENSG00000073921|Q13492-3|PICALM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 701.865966796875 2 701.361702 1400.70885 4.0173 0.0028176 0.24796 0.00017391 4.2653 0.0029915 701.3618261671207 66.273 0.22908 66.93 66.826 67.055 0.65672 30 13 3 0 0 0 0.017208 2 30414 30367;30414 61.09 48.849 1 729870 37072 9560 23618 23691 41554;41555 41555 0.024524291433408507 VYGPLPQSF 9 Unmodified _VYGPLPQSF_ 0 0 0 ENST00000568339.5_1_16:85840315-85840477:+|nuORF;ENST00000562929.1_1_16:85838708-85840477:+|nuORF;ENST00000564648.1_1_16:85839106-85840477:+|nuORF;ENSG00000131143|ENST00000253452|COX4I1 ENST00000568339.5_1_16:85840315-85840477:+|nuORF ENST00000568339.5_1_16:85840315-85840477:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1007.5233154296875 1 1007.51966 1006.51238 2.8771 0.0028988 0.24633 0.00024818 3.1235 0.0031469 1007.5200040552994 68.445 0.19933 68.445 68.354 68.553 0 34 24 2 0 0 0 0.0079462 2 32998 32939;32998 85.642 41.234 1 2110500 37073 2641 23619 23692 41556;41557 41557 0.009386690402379827 VYGPLPQSF 9 Unmodified _VYGPLPQSF_ 0 0 0 ENST00000568339.5_1_16:85840315-85840477:+|nuORF;ENST00000562929.1_1_16:85838708-85840477:+|nuORF;ENST00000564648.1_1_16:85839106-85840477:+|nuORF;ENSG00000131143|ENST00000253452|COX4I1 ENST00000568339.5_1_16:85840315-85840477:+|nuORF ENST00000568339.5_1_16:85840315-85840477:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.2649230957031 2 504.263468 1006.51238 3.4896 0.0017597 0.27316 0.00013774 3.7628 0.0018974 504.2633934537278 68.119 0.37374 68.372 68.196 68.57 0.25227 69 27 3 0 0 0 0.0016284 3 31208 31166;31208;31251 108 50.526 1 2187200 37074 2641 23619 23692 41558;41559;41560 41559 0.009386690402379827 VYGPLPQSF 9 Unmodified _VYGPLPQSF_ 0 0 0 ENST00000568339.5_1_16:85840315-85840477:+|nuORF;ENST00000562929.1_1_16:85838708-85840477:+|nuORF;ENST00000564648.1_1_16:85839106-85840477:+|nuORF;ENSG00000131143|ENST00000253452|COX4I1 ENST00000568339.5_1_16:85840315-85840477:+|nuORF ENST00000568339.5_1_16:85840315-85840477:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1007.5245361328125 1 1007.51966 1006.51238 3.7542 0.0037825 0.43105 0.00043429 4.1853 0.0042168 1007.5202454216741 68.106 0.27036 68.358 68.232 68.502 0.25227 38 21 2 0 0 0 0.014491 1 31217 31217 75.761 27.415 1 1083200 37075 2641 23619 23692 41561 41561 0.009386690402379827 VYGPLPQSF 9 Unmodified _VYGPLPQSF_ 0 0 0 ENST00000568339.5_1_16:85840315-85840477:+|nuORF;ENST00000562929.1_1_16:85838708-85840477:+|nuORF;ENST00000564648.1_1_16:85839106-85840477:+|nuORF;ENSG00000131143|ENST00000253452|COX4I1 ENST00000568339.5_1_16:85840315-85840477:+|nuORF ENST00000568339.5_1_16:85840315-85840477:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 504.263468 1006.51238 2.4674 0.0012442 -0.29904 -0.0001508 2.1683 0.0010934 504.26321178214516 68.448 0.25698 68.448 68.354 68.611 0 0.038001 -0.00046323 NaN 108 63 33 3 NaN NaN NaN NaN 0 NaN NaN 0 2965100 37076 2641 23619 23692 0.009386690402379827 VYGPLPQSF 9 Unmodified _VYGPLPQSF_ 0 0 0 ENST00000568339.5_1_16:85840315-85840477:+|nuORF;ENST00000562929.1_1_16:85838708-85840477:+|nuORF;ENST00000564648.1_1_16:85839106-85840477:+|nuORF;ENSG00000131143|ENST00000253452|COX4I1 ENST00000568339.5_1_16:85840315-85840477:+|nuORF ENST00000568339.5_1_16:85840315-85840477:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 1007.51966 1006.51238 3.5992 0.0036263 0.22905 0.00023077 3.8283 0.0038571 1007.5203448291135 67.593 0.27007 68.251 68.146 68.416 0.65777 -0.10016 -6.8162E-05 NaN 85.642 37 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1591700 37077 2641 23619 23692 0.009386690402379827 VYGPNTPS 8 Unmodified _VYGPNTPS_ 0 0 0 REV__ENSG00000168875|ENST00000306087|SOX14 REV__ENSG00000168875|ENST00000306087|SOX14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 417.7038879394531 2 417.703243 833.391933 3.3115 0.0013832 0.82058 0.00034276 4.1321 0.001726 417.70337829789815 89.873 0.46658 90.125 89.925 90.391 0.25137 28 19 2 0 0 0 0.7471 1 41290 41290 0.79363 0 1 354330 + 37078 13370 23620 23693 41562 41562 -0.031427389533746464 VYGQFTGQAL 10 Unmodified _VYGQFTGQAL_ 0 0 0 ENST00000485840.1_1_2:113984585-113993007:-|nuORF;ENSG00000125618|ENST00000429538|PAX8 ENST00000485840.1_1_2:113984585-113993007:-|nuORF ENST00000485840.1_1_2:113984585-113993007:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.2796630859375 2 542.277106 1082.53966 NaN NaN NaN NaN NaN NaN NaN 55.768 1 56.436 55.936 56.936 0.66798 0 0 0 0.96109 1 25513 25513 11.64 3.7301 1 37079 2407 23621 23694 41563 41563 0.0016915258061089844 VYGRRWLVLLL 11 Unmodified _VYGRRWLVLLL_ 0 0 0 nc|ENSG00000138463|Q96SL1-2|SLC49A4;ENSG00000138463|ENST00000261038|SLC49A4 nc|ENSG00000138463|Q96SL1-2|SLC49A4 nc|ENSG00000138463|Q96SL1-2|SLC49A4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 694.435546875 2 694.432264 1386.84998 NaN NaN NaN NaN NaN NaN NaN 98.086 1 98.375 97.875 98.875 0.28923 0 0 0 1.0073 1 45123 45123 1.1933 0.12188 1 37080 3095 23622 23695 41564 41564 0.17202472307258176 VYGSFASKL 9 Unmodified _VYGSFASKL_ 0 0 0 ENSG00000155096|ENST00000337198|AZIN1 ENSG00000155096|ENST00000337198|AZIN1 ENSG00000155096|ENST00000337198|AZIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 486.2651062011719 2 486.263468 970.512382 3.0805 0.0014979 0.43531 0.00021167 3.5158 0.0017096 486.2637037753054 46.195 0.28184 46.195 46.025 46.307 0 34 13 3 0 0 0 0.021401 2 21157 21107;21157 66.457 20.436 1 3030500 37081 3852 23623 23696 41565;41566 41566 0.025946690402406603 VYGSFASKL 9 Unmodified _VYGSFASKL_ 0 0 0 ENSG00000155096|ENST00000337198|AZIN1 ENSG00000155096|ENST00000337198|AZIN1 ENSG00000155096|ENST00000337198|AZIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.2648010253906 2 486.263468 970.512382 3.1149 0.0015147 0.037592 1.8279E-05 3.1525 0.0015329 486.2634993674408 45.03 0.36824 45.856 45.689 46.057 0.82621 45 18 4 0 0 0 0.02812 2 20485 20485;20534 57.722 19.748 1 2283700 37082 3852 23623 23696 41567;41568 41567 0.025946690402406603 VYGSFASKL 9 Unmodified _VYGSFASKL_ 0 0 0 ENSG00000155096|ENST00000337198|AZIN1 ENSG00000155096|ENST00000337198|AZIN1 ENSG00000155096|ENST00000337198|AZIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 486.26531982421875 2 486.263468 970.512382 3.1358 0.0015248 0.21661 0.00010533 3.3524 0.0016302 486.2635136542495 46.082 0.36512 46.348 46.17 46.535 0.26561 46 16 4 0 0 0 0.021401 3 21035 21035;21089;21148 66.457 20.436 1 3204800 37083 3852 23623 23696 41569;41570;41571 41569 0.025946690402406603 VYGSFASKL 9 Unmodified _VYGSFASKL_ 0 0 0 ENSG00000155096|ENST00000337198|AZIN1 ENSG00000155096|ENST00000337198|AZIN1 ENSG00000155096|ENST00000337198|AZIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 486.2651672363281 2 486.263468 970.512382 3.4506 0.0016779 0.099398 4.8333E-05 3.55 0.0017262 486.26345730095017 45.475 0.41977 46.127 45.911 46.33 0.65104 55 18 4 0 0 0 0.02812 3 20831 20780;20831;20884 57.722 11.701 1 1859000 37084 3852 23623 23696 41572;41573;41574 41573 0.025946690402406603 VYGTKWEF 8 Unmodified _VYGTKWEF_ 0 0 0 ZFAT|p.A1128Pfs*2|1|0.14|ENSG00000066827|chr8:134509729-134509729|C/-|frameshift_variant;nc|ENSG00000066827|Q9P243-4|ZFAT;nc|ENSG00000066827|Q9P243-2|ZFAT;ENSG00000066827|ENST00000377838|ZFAT;ENST00000523243.5_1_8:135490727-135577256:-|nuORF ZFAT|p.A1128Pfs*2|1|0.14|ENSG00000066827|chr8:134509729-134509729|C/-|frameshift_variant ZFAT|p.A1128Pfs*2|1|0.14|ENSG00000066827|chr8:134509729-134509729|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.255615234375 2 515.255643 1028.49673 NaN NaN NaN NaN NaN NaN NaN 67.631 1 68.288 67.788 68.788 0.65777 0 0 0 0.9851 1 31001 31001 6.7232 0.51738 1 37085 715 23624 23697 41575 41575 -0.016376174768311103 VYGVVPISL 9 Unmodified _VYGVVPISL_ 0 0 0 nc|ENSG00000034677|Q9NV58-2|RNF19A;nc|ENSG00000034677|Q9NV58-3|RNF19A;ENSG00000034677|ENST00000341084|RNF19A;nc|ENSG00000116514|Q6ZMZ0-2|RNF19B;RNF19B|p.S697Rfs*15|1|0.25|ENSG00000116514|chr1:32936917-32936917|G/-|frameshift_variant;ENSG00000116514|ENST00000235150|RNF19B;nc|ENSG00000116514|Q6ZMZ0|RNF19B;nc|ENSG00000116514|Q6ZMZ0-3|RNF19B nc|ENSG00000034677|Q9NV58-2|RNF19A;nc|ENSG00000116514|Q6ZMZ0-3|RNF19B nc|ENSG00000034677|Q9NV58-2|RNF19A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 946.5659790039062 1 946.560795 945.553519 3.7702 0.0035687 -1.2743 -0.0012062 2.4959 0.0023625 946.5586414493785 84.762 0.16423 85.01 84.9 85.064 0.24757 9 7 2 0 0 0 0.11001 1 39016 39016 30.225 9.3536 1 318900 37086 508;9612 23625 23698 41576 41576 0.07856430079709753 VYGYLLHT 8 Unmodified _VYGYLLHT_ 0 0 0 nc|ENSG00000240268|A6NHM9|MOXD2P nc|ENSG00000240268|A6NHM9|MOXD2P nc|ENSG00000240268|A6NHM9|MOXD2P MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.0497741699219 2 483.258185 964.501818 NaN NaN NaN NaN NaN NaN NaN 101.97 1 102.57 102.07 103.07 0.59759 0 0 0 0.99035 1 47207 47207 0.79363 0.10326 1 37087 9843 23626 23699 41577 41577 0.01814686385796449 VYHGFQVTI 9 Unmodified _VYHGFQVTI_ 0 0 0 REV__ENSG00000130528|ENST00000252825|HRC REV__ENSG00000130528|ENST00000252825|HRC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.2837524414062 2 532.282192 1062.54983 3.2598 0.0017352 -0.011983 -6.3782E-06 3.2479 0.0017288 532.282140335694 60.457 0.81077 61.12 60.788 61.599 0.66261 96 41 3 0 0 0 0.33646 1 27766 27766 15.847 15.847 1 2271800 + 37088 11821 23627 23700 41578 41578 0.021057603058579843 VYHNLKNVI 9 Unmodified _VYHNLKNVI_ 0 0 0 nc|ENSG00000074800|P06733-2|ENO1;ENST00000464920.1_1_1:8921421-8930582:-|nuORF;ENSG00000074800|ENST00000234590|ENO1 nc|ENSG00000074800|P06733-2|ENO1 nc|ENSG00000074800|P06733-2|ENO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.3182373046875 2 550.316566 1098.61858 3.527 0.001941 0.025836 1.4218E-05 3.5528 0.0019552 550.3164749031911 31.14 0.22196 31.757 31.636 31.858 0.61737 26 15 2 0 0 0 0.047285 1 14271 14271 48.346 30.211 1 383890 37089 822 23628 23701 41579 41579 0.07321424605561333 VYHNLKNVI 9 Unmodified _VYHNLKNVI_ 0 0 0 nc|ENSG00000074800|P06733-2|ENO1;ENST00000464920.1_1_1:8921421-8930582:-|nuORF;ENSG00000074800|ENST00000234590|ENO1 nc|ENSG00000074800|P06733-2|ENO1 nc|ENSG00000074800|P06733-2|ENO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 367.21466064453125 3 367.213469 1098.61858 2.5974 0.00095379 0.621 0.00022804 3.2184 0.0011818 367.2137198519929 31.168 0.23386 31.785 31.625 31.858 0.61737 44 16 3 0 0 0 0.09451 1 14283 14283 31.268 12.895 1 957130 37090 822 23628 23701 41580 41580 0.07321424605561333 VYHNLKNVI 9 Unmodified _VYHNLKNVI_ 0 0 0 nc|ENSG00000074800|P06733-2|ENO1;ENST00000464920.1_1_1:8921421-8930582:-|nuORF;ENSG00000074800|ENST00000234590|ENO1 nc|ENSG00000074800|P06733-2|ENO1 nc|ENSG00000074800|P06733-2|ENO1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 550.316566 1098.61858 3.3594 0.0018488 0.73086 0.0004022 4.0903 0.002251 550.3169581077495 30.853 0.086254 31.642 31.585 31.671 0.78879 -0.12467 0.00068811 NaN 48.346 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 300470 37091 822 23628 23701 0.07321424605561333 VYHNLKNVI 9 Unmodified _VYHNLKNVI_ 0 0 0 nc|ENSG00000074800|P06733-2|ENO1;ENST00000464920.1_1_1:8921421-8930582:-|nuORF;ENSG00000074800|ENST00000234590|ENO1 nc|ENSG00000074800|P06733-2|ENO1 nc|ENSG00000074800|P06733-2|ENO1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 550.316566 1098.61858 4.0022 0.0022025 -0.24644 -0.00013562 3.7558 0.0020669 550.3162300550068 31.647 0.30908 31.901 31.738 32.048 0.25452 0.13445 -0.00038754 NaN 48.346 38 25 2 NaN NaN NaN NaN 0 NaN NaN 0 230080 37092 822 23628 23701 0.07321424605561333 VYHWWHRPVFL 11 Unmodified _VYHWWHRPVFL_ 0 0 0 REV__ENSG00000169087|ENST00000306103|HSPBAP1 REV__ENSG00000169087|ENST00000306103|HSPBAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.939208984375 3 513.938451 1538.79352 NaN NaN NaN NaN NaN NaN NaN 95.152 1 95.419 94.919 95.919 0.2675 0 0 0 1.0082 1 43721 43721 0.094841 0.011491 1 + 37093 13380 23629 23702 41581 41581 0.04567844470579985 VYIDKVRSL 9 Unmodified _VYIDKVRSL_ 0 0 0 ENSG00000113368|ENST00000261366|LMNB1 ENSG00000113368|ENST00000261366|LMNB1 ENSG00000113368|ENST00000261366|LMNB1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 365.21282958984375 3 364.885241 1091.63389 2.694 0.00098299 0.67843 0.00024755 3.3724 0.0012305 364.8851617769979 36.808 0.29808 36.808 36.64 36.939 0 29 12 3 0 0 0 0.10291 1 16653 16653 12.175 6.3913 1 1451700 37094 1849 23630 23703 41582 41582 0.09174291402769086 VYIDKVRSL 9 Unmodified _VYIDKVRSL_ 0 0 0 ENSG00000113368|ENST00000261366|LMNB1 ENSG00000113368|ENST00000261366|LMNB1 ENSG00000113368|ENST00000261366|LMNB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 364.8861083984375 3 364.885241 1091.63389 NaN NaN NaN NaN NaN NaN NaN 35.83 1 36.621 36.121 37.121 0.79131 0 0 0 0.018132 1 16240 16240 61.09 24.015 1 37095 1849 23630 23703 41583 41583 0.09174291402769086 VYIDKVRSL 9 Unmodified _VYIDKVRSL_ 0 0 0 ENSG00000113368|ENST00000261366|LMNB1 ENSG00000113368|ENST00000261366|LMNB1 ENSG00000113368|ENST00000261366|LMNB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 365.2130432128906 3 364.885241 1091.63389 2.6735 0.00097552 1.0923 0.00039857 3.7658 0.0013741 364.8852290644431 36.65 0.29905 36.908 36.751 37.05 0.25768 28 10 4 0 0 0 0.10584 1 16704 16704 29.437 14.189 1 1365300 37096 1849 23630 23703 41584 41584 0.09174291402769086 VYIDKVRSL 9 Unmodified _VYIDKVRSL_ 0 0 0 ENSG00000113368|ENST00000261366|LMNB1 ENSG00000113368|ENST00000261366|LMNB1 ENSG00000113368|ENST00000261366|LMNB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.8255615234375 2 546.824224 1091.63389 3.595 0.0019658 -0.21977 -0.00012017 3.3752 0.0018456 546.8239824465802 36.654 0.24442 36.912 36.774 37.018 0.25768 15 8 2 0 0 0 0.1229 1 16706 16706 28.495 14.588 1 598500 37097 1849 23630 23703 41585 41585 0.09174291402769086 VYIDKVRSL 9 Unmodified _VYIDKVRSL_ 0 0 0 ENSG00000113368|ENST00000261366|LMNB1 ENSG00000113368|ENST00000261366|LMNB1 ENSG00000113368|ENST00000261366|LMNB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.885986328125 3 364.885241 1091.63389 2.6806 0.00097812 1.143 0.00041706 3.8236 0.0013952 364.88515240581086 36.052 0.22051 36.678 36.541 36.762 0.62631 10 6 2 0 0 0 0.044468 1 16519 16519 39.213 15.423 1 1270700 37098 1849 23630 23703 41586 41586 0.09174291402769086 VYIDKVRSL 9 Unmodified _VYIDKVRSL_ 0 0 0 ENSG00000113368|ENST00000261366|LMNB1 ENSG00000113368|ENST00000261366|LMNB1 ENSG00000113368|ENST00000261366|LMNB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.8262329101562 2 546.824224 1091.63389 3.6427 0.0019919 0.15234 8.3301E-05 3.795 0.0020752 546.8243970307385 36.036 0.22051 36.663 36.541 36.762 0.62631 10 6 2 0 0 0 0.084899 1 16520 16520 36.506 13.77 1 602790 37099 1849 23630 23703 41587 41587 0.09174291402769086 VYIDKVRSL 9 Unmodified _VYIDKVRSL_ 0 0 0 ENSG00000113368|ENST00000261366|LMNB1 ENSG00000113368|ENST00000261366|LMNB1 ENSG00000113368|ENST00000261366|LMNB1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 546.824224 1091.63389 3.6851 0.0020151 -0.18701 -0.00010226 3.4981 0.0019128 546.8243053131921 36.804 0.24057 36.804 36.668 36.908 0 0.010895 -0.00013093 NaN 36.506 18 10 2 NaN NaN NaN NaN 0 NaN NaN 0 598130 37100 1849 23630 23703 0.09174291402769086 VYIDRVRSL 9 Unmodified _VYIDRVRSL_ 0 0 0 nc|ENSG00000160789|P02545-2|LMNA;nc|ENSG00000160789|P02545-6|LMNA;nc|ENSG00000160789|P02545-3|LMNA;ENSG00000160789|ENST00000368300|LMNA nc|ENSG00000160789|P02545-2|LMNA nc|ENSG00000160789|P02545-2|LMNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.2213439941406 3 374.220624 1119.64004 2.8604 0.0010704 -0.48888 -0.00018295 2.3715 0.00088747 374.2204201462094 37.263 0.61435 37.263 37.053 37.667 0 56 22 5 0 0 0 0.0029142 2 16887 16887;16941 78.06 54.271 1 12029000 37101 4080 23631 23704 41588;41589 41588 0.08500809634278994 VYIDRVRSL 9 Unmodified _VYIDRVRSL_ 0 0 0 nc|ENSG00000160789|P02545-2|LMNA;nc|ENSG00000160789|P02545-6|LMNA;nc|ENSG00000160789|P02545-3|LMNA;ENSG00000160789|ENST00000368300|LMNA nc|ENSG00000160789|P02545-2|LMNA nc|ENSG00000160789|P02545-2|LMNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.8284301757812 2 560.827298 1119.64004 3.4971 0.0019613 -0.10814 -6.0648E-05 3.3889 0.0019006 560.8273472137664 37.263 0.35799 37.263 37.08 37.438 0 29 12 3 0 0 0 0.0071692 2 16888 16888;16945 87.258 52.326 1 3635800 37102 4080 23631 23704 41590;41591 41590 0.08500809634278994 VYIDRVRSL 9 Unmodified _VYIDRVRSL_ 0 0 0 nc|ENSG00000160789|P02545-2|LMNA;nc|ENSG00000160789|P02545-6|LMNA;nc|ENSG00000160789|P02545-3|LMNA;ENSG00000160789|ENST00000368300|LMNA nc|ENSG00000160789|P02545-2|LMNA nc|ENSG00000160789|P02545-2|LMNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.2215576171875 3 374.220624 1119.64004 2.493 0.00093293 -0.17021 -6.3695E-05 2.3228 0.00086924 374.2205747589169 36.095 0.54741 36.887 36.699 37.246 0.79131 59 22 5 0 0 0 0.018453 2 16394 16348;16394 57.108 38.734 1 13643000 37103 4080 23631 23704 41592;41593 41593 0.08500809634278994 VYIDRVRSL 9 Unmodified _VYIDRVRSL_ 0 0 0 nc|ENSG00000160789|P02545-2|LMNA;nc|ENSG00000160789|P02545-6|LMNA;nc|ENSG00000160789|P02545-3|LMNA;ENSG00000160789|ENST00000368300|LMNA nc|ENSG00000160789|P02545-2|LMNA nc|ENSG00000160789|P02545-2|LMNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.8291015625 2 560.827298 1119.64004 3.4116 0.0019133 0.10624 5.9582E-05 3.5178 0.0019729 560.8273710986252 36.094 0.32241 36.886 36.724 37.047 0.79132 33 11 4 0 0 0 0.0039585 2 16352 16352;16411 93.938 46.189 1 3103700 37104 4080 23631 23704 41594;41595 41594 0.08500809634278994 VYIDRVRSL 9 Unmodified _VYIDRVRSL_ 0 0 0 nc|ENSG00000160789|P02545-2|LMNA;nc|ENSG00000160789|P02545-6|LMNA;nc|ENSG00000160789|P02545-3|LMNA;ENSG00000160789|ENST00000368300|LMNA nc|ENSG00000160789|P02545-2|LMNA nc|ENSG00000160789|P02545-2|LMNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.8291625976562 2 560.827298 1119.64004 3.6883 0.0020685 -0.4167 -0.0002337 3.2716 0.0018348 560.8270527370128 37.128 0.32073 37.389 37.22 37.541 0.26083 24 9 3 0 0 0 0.0090098 2 16935 16878;16935 83.429 49.209 1 2408500 37105 4080 23631 23704 41596;41597 41597 0.08500809634278994 VYIDRVRSL 9 Unmodified _VYIDRVRSL_ 0 0 0 nc|ENSG00000160789|P02545-2|LMNA;nc|ENSG00000160789|P02545-6|LMNA;nc|ENSG00000160789|P02545-3|LMNA;ENSG00000160789|ENST00000368300|LMNA nc|ENSG00000160789|P02545-2|LMNA nc|ENSG00000160789|P02545-2|LMNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.2215576171875 3 374.220624 1119.64004 2.8593 0.00107 -0.46031 -0.00017226 2.399 0.00089777 374.220416311366 37.128 0.44566 37.389 37.155 37.6 0.26083 39 13 4 0 0 0 0.018453 2 16933 16891;16933 57.108 37.746 1 9656900 37106 4080 23631 23704 41598;41599 41599 0.08500809634278994 VYIDRVRSL 9 Unmodified _VYIDRVRSL_ 0 0 0 nc|ENSG00000160789|P02545-2|LMNA;nc|ENSG00000160789|P02545-6|LMNA;nc|ENSG00000160789|P02545-3|LMNA;ENSG00000160789|ENST00000368300|LMNA nc|ENSG00000160789|P02545-2|LMNA nc|ENSG00000160789|P02545-2|LMNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.8286743164062 2 560.827298 1119.64004 3.6659 0.0020559 -0.027126 -1.5213E-05 3.6387 0.0020407 560.8272420518634 36.401 0.3817 37.027 36.845 37.227 0.62631 36 12 4 0 0 0 0.091193 2 16648 16648;16714 34.932 16.786 1 2019300 37107 4080 23631 23704 41600;41601 41600 0.08500809634278994 VYIDRVRSL 9 Unmodified _VYIDRVRSL_ 0 0 0 nc|ENSG00000160789|P02545-2|LMNA;nc|ENSG00000160789|P02545-6|LMNA;nc|ENSG00000160789|P02545-3|LMNA;ENSG00000160789|ENST00000368300|LMNA nc|ENSG00000160789|P02545-2|LMNA nc|ENSG00000160789|P02545-2|LMNA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.2215881347656 3 374.220624 1119.64004 2.7896 0.0010439 -0.62347 -0.00023331 2.1662 0.00081062 374.2204137332434 36.402 0.5055 37.029 36.845 37.351 0.62643 56 18 5 0 0 0 0.011692 3 16683 16655;16683;16736 64.927 46.206 1 8168300 37108 4080 23631 23704 41602;41603;41604 41603 0.08500809634278994 VYIHGGGWAL 10 Unmodified _VYIHGGGWAL_ 0 0 0 nc|ENSG00000144959|Q6PIU2-2|NCEH1;ENSG00000144959|ENST00000475381|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.78466796875 2 536.782359 1071.55016 2.8417 0.0015254 0.81134 0.00043551 3.653 0.0019609 536.7827941155455 60.247 0.12389 60.247 60.18 60.304 0 21 12 2 0 0 0 0.018763 1 27947 27947 82.939 46.473 1 1409700 37109 3452 23632 23705 41605 41605 0.017251800257099603 VYIHGGGWAL 10 Unmodified _VYIHGGGWAL_ 0 0 0 nc|ENSG00000144959|Q6PIU2-2|NCEH1;ENSG00000144959|ENST00000475381|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.7835083007812 2 536.782359 1071.55016 2.7852 0.0014951 0.10329 5.5445E-05 2.8885 0.0015505 536.7825260492344 59.022 0.24504 59.781 59.702 59.947 0.75894 44 20 3 0 0 0 0.0030123 1 27138 27138 96.119 51.712 1 1265900 37110 3452 23632 23705 41606 41606 0.017251800257099603 VYIHGGGWAL 10 Unmodified _VYIHGGGWAL_ 0 0 0 nc|ENSG00000144959|Q6PIU2-2|NCEH1;ENSG00000144959|ENST00000475381|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 nc|ENSG00000144959|Q6PIU2-2|NCEH1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 536.782359 1071.55016 3.043 0.0016334 0.86077 0.00046205 3.9038 0.0020955 536.7829222475664 60.102 0.31562 60.357 60.148 60.463 0.25578 0.055438 2.8441E-05 NaN 82.939 22 14 2 NaN NaN NaN NaN 0 NaN NaN 0 464190 37111 3452 23632 23705 0.017251800257099603 VYIHHFDRI 9 Unmodified _VYIHHFDRI_ 0 0 0 ENSG00000172081|ENST00000357066|MOB3A ENSG00000172081|ENST00000357066|MOB3A ENSG00000172081|ENST00000357066|MOB3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 400.5503234863281 3 400.548852 1198.62473 2.7489 0.0011011 -0.060463 -2.4218E-05 2.6884 0.0010769 400.54895267536597 29.918 0.23727 30.707 30.608 30.845 0.78921 47 21 3 0 0 0 0.10277 1 13499 13499 32.037 19.863 1 734650 37112 4855 23633 23706 41607 41607 0.033359428370886235 VYIHHFDRI 9 Unmodified _VYIHHFDRI_ 0 0 0 ENSG00000172081|ENST00000357066|MOB3A ENSG00000172081|ENST00000357066|MOB3A ENSG00000172081|ENST00000357066|MOB3A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 400.548852 1198.62473 2.8163 0.0011281 -0.2872 -0.00011504 2.5291 0.001013 400.54887298980134 30.983 0.20054 30.983 30.922 31.123 0 0.051146 8.6791E-05 NaN 32.037 26 21 2 NaN NaN NaN NaN 0 NaN NaN 0 1037800 37113 4855 23633 23706 0.033359428370886235 VYIHHFDRI 9 Unmodified _VYIHHFDRI_ 0 0 0 ENSG00000172081|ENST00000357066|MOB3A ENSG00000172081|ENST00000357066|MOB3A ENSG00000172081|ENST00000357066|MOB3A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 400.548852 1198.62473 3.4148 0.0013678 -0.91419 -0.00036618 2.5006 0.0010016 400.5485451670247 30.774 0.27718 31.03 30.842 31.119 0.25614 0.098837 -0.00066663 NaN 32.037 42 27 2 NaN NaN NaN NaN 0 NaN NaN 0 727340 37114 4855 23633 23706 0.033359428370886235 VYIHHFDRI 9 Unmodified _VYIHHFDRI_ 0 0 0 ENSG00000172081|ENST00000357066|MOB3A ENSG00000172081|ENST00000357066|MOB3A ENSG00000172081|ENST00000357066|MOB3A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 400.548852 1198.62473 2.9486 0.0011811 -0.3047 -0.00012205 2.6439 0.001059 400.5488604032987 30.389 0.2037 31.006 30.851 31.054 0.61736 0.074732 6.5758E-05 NaN 32.037 24 11 3 NaN NaN NaN NaN 0 NaN NaN 0 588140 37115 4855 23633 23706 0.033359428370886235 VYIHPSSALF 10 Unmodified _VYIHPSSALF_ 0 0 0 ENSG00000067596|ENST00000262415|DHX8 ENSG00000067596|ENST00000262415|DHX8 ENSG00000067596|ENST00000262415|DHX8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.3060913085938 2 567.303124 1132.5917 3.1686 0.0017976 1.5224 0.00086365 4.691 0.0026612 567.3029923025737 59.193 0.28531 59.952 59.789 60.074 0.75894 37 19 3 0 0 0 0.042035 1 27197 27197 64.236 30.134 1 808200 37116 724 23634 23707 41608 41608 0.030703159943413993 VYIHPSSALF 10 Unmodified _VYIHPSSALF_ 0 0 0 ENSG00000067596|ENST00000262415|DHX8 ENSG00000067596|ENST00000262415|DHX8 ENSG00000067596|ENST00000262415|DHX8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3065185546875 2 567.303124 1132.5917 3.5839 0.0020332 -0.14858 -8.4289E-05 3.4354 0.0019489 567.3031174913059 60.086 0.1935 60.341 60.227 60.421 0.25578 18 9 2 0 0 0 0.13117 1 27492 27492 48.346 26.599 1 425800 37117 724 23634 23707 41609 41609 0.030703159943413993 VYIHPSSALF 10 Unmodified _VYIHPSSALF_ 0 0 0 ENSG00000067596|ENST00000262415|DHX8 ENSG00000067596|ENST00000262415|DHX8 ENSG00000067596|ENST00000262415|DHX8 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 567.303124 1132.5917 3.1679 0.0017971 -1.8426 -0.0010453 1.3252 0.0007518 567.3026809726459 60.293 0.05584 60.293 60.248 60.304 0 0.10491 -0.0021725 NaN 64.236 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 763160 37118 724 23634 23707 0.030703159943413993 VYIHPSSALF 10 Unmodified _VYIHPSSALF_ 0 0 0 ENSG00000067596|ENST00000262415|DHX8 ENSG00000067596|ENST00000262415|DHX8 ENSG00000067596|ENST00000262415|DHX8 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 567.303124 1132.5917 3.6003 0.0020425 0.039381 2.2341E-05 3.6397 0.0020648 567.3031040862073 59.501 0.21769 60.166 60.01 60.228 0.66503 -0.022312 -3.7144E-05 NaN 64.236 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 359990 37119 724 23634 23707 0.030703159943413993 VYIHVESKL 9 Unmodified _VYIHVESKL_ 0 0 0 ENST00000323387.5_10:47416870-47420453:+|nuORF ENST00000323387.5_10:47416870-47420453:+|nuORF ENST00000323387.5_10:47416870-47420453:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.312744140625 2 544.310949 1086.60735 3.4898 0.0018995 -0.17155 -9.3379E-05 3.3183 0.0018062 544.3107150764004 49.59 0.36204 49.852 49.645 50.007 0.26146 27 14 2 0 0 0 0.12301 1 22648 22648 28.487 3.0875 1 607970 37120 6947 23635 23708 41610 41610 0.06750602511419856 VYIKHPVSL 9 Unmodified _VYIKHPVSL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8;ENST00000592001.5_1_19:38865430-38871817:+|nuORF ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 352.5474548339844 3 352.546449 1054.61752 2.2276 0.00078535 0.013304 4.6905E-06 2.241 0.00079004 352.54648290992094 34.368 0.45846 34.368 34.225 34.684 0 91 24 5 0 0 0 0.030603 4 15595 15539;15595;15642;15698 55.503 30.512 1 41873000 37121 1141 23636 23709 41611;41612;41613;41614 41612 0.09239210236660256 VYIKHPVSL 9 Unmodified _VYIKHPVSL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8;ENST00000592001.5_1_19:38865430-38871817:+|nuORF ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.3173217773438 2 528.316035 1054.61752 2.8326 0.0014965 0.56992 0.0003011 3.4025 0.0017976 528.316302432596 34.368 0.4296 34.368 34.225 34.655 0 73 23 5 0 0 0 0.0013345 3 15559 15559;15608;15659 142.08 76.845 1 22093000 37122 1141 23636 23709 41615;41616;41617 41615 0.09239210236660256 VYIKHPVSL 9 Unmodified _VYIKHPVSL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8;ENST00000592001.5_1_19:38865430-38871817:+|nuORF ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.3179321289062 2 528.316035 1054.61752 2.8023 0.0014805 0.39525 0.00020882 3.1975 0.0016893 528.3161498800658 33.59 0.40927 34.378 34.152 34.562 0.78795 89 30 4 0 0 0 0.0014285 4 15133 15133;15178;15222;15272 129.77 76.158 1 20639000 37123 1141 23636 23709 41618;41619;41620;41621 41618 0.09239210236660256 VYIKHPVSL 9 Unmodified _VYIKHPVSL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8;ENST00000592001.5_1_19:38865430-38871817:+|nuORF ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 352.5470886230469 3 352.546449 1054.61752 2.0038 0.00070642 0.26651 9.3957E-05 2.2703 0.00080038 352.5465377853141 33.592 0.48728 34.38 34.16 34.647 0.78795 109 37 4 0 0 0 0.025135 4 15239 15135;15185;15239;15288 61.602 30.334 1 30033000 37124 1141 23636 23709 41622;41623;41624;41625 41624 0.09239210236660256 VYIKHPVSL 9 Unmodified _VYIKHPVSL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8;ENST00000592001.5_1_19:38865430-38871817:+|nuORF ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 352.547119140625 3 352.546449 1054.61752 2.5491 0.00089866 -0.71184 -0.00025096 1.8372 0.0006477 352.5461544135041 34.261 0.45156 34.515 34.34 34.791 0.25389 63 19 4 0 0 0 0.069974 3 15565 15565;15607;15653 40.239 8.9709 1 23584000 37125 1141 23636 23709 41626;41627;41628 41626 0.09239210236660256 VYIKHPVSL 9 Unmodified _VYIKHPVSL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8;ENST00000592001.5_1_19:38865430-38871817:+|nuORF ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.3175659179688 2 528.316035 1054.61752 3.2455 0.0017146 0.033624 1.7764E-05 3.2791 0.0017324 528.3159803471373 34.264 0.42041 34.518 34.34 34.76 0.25389 55 18 4 0 0 0 0.0016705 3 15627 15579;15627;15689 129.77 64.537 1 13161000 37126 1141 23636 23709 41629;41630;41631 41630 0.09239210236660256 VYIKHPVSL 9 Unmodified _VYIKHPVSL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8;ENST00000592001.5_1_19:38865430-38871817:+|nuORF ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 528.317626953125 2 528.316035 1054.61752 3.1562 0.0016675 0.2407 0.00012716 3.3969 0.0017946 528.3161160334358 33.761 0.52155 34.382 34.137 34.658 0.62031 79 24 4 0 0 0 0.0016705 4 15429 15429;15479;15527;15573 129.77 64.537 1 10058000 37127 1141 23636 23709 41632;41633;41634;41635 41632 0.09239210236660256 VYIKHPVSL 9 Unmodified _VYIKHPVSL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8;ENST00000592001.5_1_19:38865430-38871817:+|nuORF ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.54742431640625 3 352.546449 1054.61752 2.3427 0.00082589 0.064817 2.2851E-05 2.4075 0.00084874 352.5464689340757 33.755 0.54043 34.376 34.137 34.677 0.62031 89 25 4 0 0 0 0.035495 3 15505 15459;15505;15554 53.404 28.413 1 17925000 37128 1141 23636 23709 41636;41637;41638 41637 0.09239210236660256 VYILFKLKRKL 11 Unmodified _VYILFKLKRKL_ 0 0 0 REV__ENST00000568043.5_1_16:30007580-30007859:+|nuORF REV__ENST00000568043.5_1_16:30007580-30007859:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 710.9716186523438 2 710.973765 1419.93298 NaN NaN NaN NaN NaN NaN NaN 92.89 1 92.977 92.477 93.477 0.086212 0 0 0 1.0082 1 48533 48533 0 0 1 + 37129 17432 23637 23710 41639 41639 0.2398078903527221 VYILKGGYERF 11 Unmodified _VYILKGGYERF_ 0 0 0 nc|ENSG00000127952|Q9Y6J8-2|STYXL1;ENSG00000127952|ENST00000359697|STYXL1;nc|ENSG00000127952|Q9Y6J8-3|STYXL1 nc|ENSG00000127952|Q9Y6J8-2|STYXL1 nc|ENSG00000127952|Q9Y6J8-2|STYXL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 448.9172058105469 3 448.915201 1343.72377 2.6542 0.0011915 0.51668 0.00023194 3.1709 0.0014235 448.9153871200718 46.843 0.21342 47.672 47.544 47.758 0.82915 12 7 2 0 0 0 0.77756 1 21344 21344 7.846 5.2148 1 265070 37130 2494 23638 23711 41640 41640 0.06565921011315368 VYILKGGYERF 11 Unmodified _VYILKGGYERF_ 0 0 0 nc|ENSG00000127952|Q9Y6J8-2|STYXL1;ENSG00000127952|ENST00000359697|STYXL1;nc|ENSG00000127952|Q9Y6J8-3|STYXL1 nc|ENSG00000127952|Q9Y6J8-2|STYXL1 nc|ENSG00000127952|Q9Y6J8-2|STYXL1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 448.915201 1343.72377 2.7507 0.0012348 0.030341 1.3621E-05 2.781 0.0012484 449.24958858542084 47.988 0.15409 47.988 47.93 48.084 0 0.15791 -0.00051849 NaN 7.846 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 245670 37131 2494 23638 23711 0.06565921011315368 VYILQPEVI 9 Unmodified _VYILQPEVI_ 0 0 0 nc|ENSG00000197603|Q9H799-5|CPLANE1;nc|ENSG00000197603|Q9H799|CPLANE1;ENSG00000197603|ENST00000651892|CPLANE1 nc|ENSG00000197603|Q9H799-5|CPLANE1 nc|ENSG00000197603|Q9H799-5|CPLANE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.3165893554688 2 537.3157 1072.61685 2.8482 0.0015304 0.62796 0.00033741 3.4762 0.0018678 537.3158490549092 81.294 0.2043 81.542 81.466 81.67 0.24803 23 13 2 0 0 0 0.099775 1 37443 37443 44.407 14.182 1 623930 37132 5831 23639 23712 41641 41641 0.08344370796953626 VYILQPEVI 9 Unmodified _VYILQPEVI_ 0 0 0 nc|ENSG00000197603|Q9H799-5|CPLANE1;nc|ENSG00000197603|Q9H799|CPLANE1;ENSG00000197603|ENST00000651892|CPLANE1 nc|ENSG00000197603|Q9H799-5|CPLANE1 nc|ENSG00000197603|Q9H799-5|CPLANE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.3176879882812 2 537.3157 1072.61685 3.3371 0.0017931 0.16018 8.6066E-05 3.4973 0.0018792 537.3161147083937 80.704 0.16736 81.364 81.277 81.445 0.65998 16 9 2 0 0 0 0.15661 1 37205 37205 36.044 5.8194 1 435400 37133 5831 23639 23712 41642 41642 0.08344370796953626 VYIRGSKIRF 10 Unmodified _VYIRGSKIRF_ 0 0 0 nc|ENSG00000286070|P62318-2|SNRPD3;ENSG00000100028|ENST00000215829|SNRPD3 nc|ENSG00000286070|P62318-2|SNRPD3 nc|ENSG00000286070|P62318-2|SNRPD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 310.44036865234375 4 310.439658 1237.72953 1.7758 0.00055129 0.44139 0.00013702 2.2172 0.00068832 310.43977729431367 33.641 0.187 33.641 33.558 33.745 0 27 16 2 0 0 0 0.30136 1 15265 15265 19.987 11.011 1 1860900 37134 1167 23640 23713 41643 41643 0.12017064313636183 VYIRGSKIRF 10 Unmodified _VYIRGSKIRF_ 0 0 0 nc|ENSG00000286070|P62318-2|SNRPD3;ENSG00000100028|ENST00000215829|SNRPD3 nc|ENSG00000286070|P62318-2|SNRPD3 nc|ENSG00000286070|P62318-2|SNRPD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 413.5845947265625 3 413.583785 1237.72953 2.4913 0.0010304 0.11787 4.875E-05 2.6092 0.0010791 413.5838227489132 32.518 0.34083 33.306 33.116 33.456 0.78795 72 25 4 0 0 0 0.019715 3 14696 14649;14696;14742 57.204 42.247 1 1880800 37135 1167 23640 23713 41644;41645;41646 41645 0.12017064313636183 VYIRGSKIRF 10 Unmodified _VYIRGSKIRF_ 0 0 0 nc|ENSG00000286070|P62318-2|SNRPD3;ENSG00000100028|ENST00000215829|SNRPD3 nc|ENSG00000286070|P62318-2|SNRPD3 nc|ENSG00000286070|P62318-2|SNRPD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 413.5852355957031 3 413.583785 1237.72953 2.8754 0.0011892 0.28196 0.00011661 3.1574 0.0013058 413.5839332809697 32.93 0.36139 33.548 33.352 33.713 0.61831 35 15 3 0 0 0 0.1225 1 15075 15075 36.395 21.99 1 672730 37136 1167 23640 23713 41647 41647 0.12017064313636183 VYIRGSKIRF 10 Unmodified _VYIRGSKIRF_ 0 0 0 nc|ENSG00000286070|P62318-2|SNRPD3;ENSG00000100028|ENST00000215829|SNRPD3 nc|ENSG00000286070|P62318-2|SNRPD3 nc|ENSG00000286070|P62318-2|SNRPD3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 413.583785 1237.72953 2.549 0.0010542 0.14763 6.1058E-05 2.6966 0.0011153 413.5838148450232 33.631 0.25314 33.631 33.534 33.787 0 0.083399 -0.00013329 NaN 57.204 58 21 4 NaN NaN NaN NaN 0 NaN NaN 0 3808100 37137 1167 23640 23713 0.12017064313636183 VYIRGSKIRF 10 Unmodified _VYIRGSKIRF_ 0 0 0 nc|ENSG00000286070|P62318-2|SNRPD3;ENSG00000100028|ENST00000215829|SNRPD3 nc|ENSG00000286070|P62318-2|SNRPD3 nc|ENSG00000286070|P62318-2|SNRPD3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 310.439658 1237.72953 2.0498 0.00063633 0.21839 6.7797E-05 2.2682 0.00070413 310.43975126349613 32.489 0.36831 33.277 33.13 33.498 0.78795 -0.2592 -0.00027885 NaN 19.987 61 28 3 NaN NaN NaN NaN 0 NaN NaN 0 1142200 37138 1167 23640 23713 0.12017064313636183 VYIRGSKIRF 10 Unmodified _VYIRGSKIRF_ 0 0 0 nc|ENSG00000286070|P62318-2|SNRPD3;ENSG00000100028|ENST00000215829|SNRPD3 nc|ENSG00000286070|P62318-2|SNRPD3 nc|ENSG00000286070|P62318-2|SNRPD3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 413.583785 1237.72953 3.0023 0.0012417 0.47053 0.0001946 3.4729 0.0014363 413.5839282275788 33.452 0.35235 33.706 33.476 33.829 0.25389 0.15786 0.00026734 NaN 57.204 43 17 3 NaN NaN NaN NaN 0 NaN NaN 0 1135400 37139 1167 23640 23713 0.12017064313636183 VYIRGSKIRF 10 Unmodified _VYIRGSKIRF_ 0 0 0 nc|ENSG00000286070|P62318-2|SNRPD3;ENSG00000100028|ENST00000215829|SNRPD3 nc|ENSG00000286070|P62318-2|SNRPD3 nc|ENSG00000286070|P62318-2|SNRPD3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 310.439658 1237.72953 2.2909 0.00071118 0.45911 0.00014252 2.75 0.00085371 310.4398118679938 33.433 0.32301 33.687 33.476 33.799 0.25389 0.15094 2.0062E-05 NaN 19.987 35 15 3 NaN NaN NaN NaN 0 NaN NaN 0 373840 37140 1167 23640 23713 0.12017064313636183 VYIRGSKIRF 10 Unmodified _VYIRGSKIRF_ 0 0 0 nc|ENSG00000286070|P62318-2|SNRPD3;ENSG00000100028|ENST00000215829|SNRPD3 nc|ENSG00000286070|P62318-2|SNRPD3 nc|ENSG00000286070|P62318-2|SNRPD3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 310.439658 1237.72953 2.0266 0.00062913 0.72895 0.00022629 2.7555 0.00085542 310.439826905913 32.922 0.23644 33.54 33.376 33.613 0.61831 0.0036561 0.00035514 NaN 19.987 26 9 3 NaN NaN NaN NaN 0 NaN NaN 0 444440 37141 1167 23640 23713 0.12017064313636183 VYISDTGTF 9 Unmodified _VYISDTGTF_ 0 0 0 REV__ENST00000376040.2_1_9:88574775-88576989:+|nuORF REV__ENST00000376040.2_1_9:88574775-88576989:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.7412109375 2 501.742565 1001.47058 NaN NaN NaN NaN NaN NaN NaN 55.915 1 56.703 56.203 57.203 0.78711 0 0 0 0.89509 1 25544 25544 4.756 0 1 + 37142 15816 23641 23714 41648 41648 -0.030099314389531173 VYISEHEHF 9 Unmodified _VYISEHEHF_ 0 0 0 nc|ENSG00000104853|O96005-3|CLPTM1;nc|ENSG00000104853|O96005-4|CLPTM1;ENSG00000104853|ENST00000337392|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 387.5184020996094 3 387.517218 1159.52982 2.8174 0.0010918 0.18599 7.2073E-05 3.0034 0.0011639 387.5173486823186 31.961 0.39128 31.961 31.75 32.141 0 146 36 5 0 0 0 0.010037 4 14454 14406;14454;14497;14543 62.573 43.851 1 22011000 37143 1453 23642 23715 41649;41650;41651;41652 41650 -0.043560354247802024 VYISEHEHF 9 Unmodified _VYISEHEHF_ 0 0 0 nc|ENSG00000104853|O96005-3|CLPTM1;nc|ENSG00000104853|O96005-4|CLPTM1;ENSG00000104853|ENST00000337392|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 580.7745361328125 2 580.772188 1159.52982 3.7421 0.0021733 0.032492 1.8871E-05 3.7746 0.0021922 580.7721466649865 31.961 0.32824 31.961 31.795 32.123 0 88 29 4 0 0 0 3.2716E-05 3 14428 14428;14473;14519 139.54 110.46 1 4616800 37144 1453 23642 23715 41653;41654;41655 41653 -0.043560354247802024 VYISEHEHF 9 Unmodified _VYISEHEHF_ 0 0 0 nc|ENSG00000104853|O96005-3|CLPTM1;nc|ENSG00000104853|O96005-4|CLPTM1;ENSG00000104853|ENST00000337392|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 387.5181579589844 3 387.517218 1159.52982 2.6419 0.0010238 0.22588 8.7531E-05 2.8678 0.0011113 387.5173500523342 30.947 0.38456 31.736 31.573 31.958 0.78879 105 29 5 0 0 0 0.010037 3 13974 13933;13974;14021 62.573 43.851 1 19918000 37145 1453 23642 23715 41656;41657;41658 41657 -0.043560354247802024 VYISEHEHF 9 Unmodified _VYISEHEHF_ 0 0 0 nc|ENSG00000104853|O96005-3|CLPTM1;nc|ENSG00000104853|O96005-4|CLPTM1;ENSG00000104853|ENST00000337392|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 580.7739868164062 2 580.772188 1159.52982 3.4017 0.0019756 0.04166 2.4195E-05 3.4433 0.0019998 580.772179220487 30.943 0.27962 31.732 31.597 31.877 0.78879 61 20 4 0 0 0 3.2716E-05 1 13971 13971 139.54 110.46 1 4319300 37146 1453 23642 23715 41659 41659 -0.043560354247802024 VYISEHEHF 9 Unmodified _VYISEHEHF_ 0 0 0 nc|ENSG00000104853|O96005-3|CLPTM1;nc|ENSG00000104853|O96005-4|CLPTM1;ENSG00000104853|ENST00000337392|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 580.7747802734375 2 580.772188 1159.52982 3.7922 0.0022024 0.17524 0.00010178 3.9674 0.0023042 580.7722364633693 31.874 0.34054 32.129 31.958 32.299 0.25452 64 23 4 0 0 0 3.2716E-05 3 14506 14458;14506;14558 139.54 110.46 1 1873500 37147 1453 23642 23715 41660;41661;41662 41661 -0.043560354247802024 VYISEHEHF 9 Unmodified _VYISEHEHF_ 0 0 0 nc|ENSG00000104853|O96005-3|CLPTM1;nc|ENSG00000104853|O96005-4|CLPTM1;ENSG00000104853|ENST00000337392|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 387.518310546875 3 387.517218 1159.52982 3.2768 0.0012698 -0.004618 -1.7896E-06 3.2721 0.001268 387.5172466188555 31.887 0.44616 32.141 31.889 32.335 0.25452 121 32 5 0 0 0 0.010037 3 14511 14462;14511;14566 62.573 48.355 1 9833500 37148 1453 23642 23715 41663;41664;41665 41664 -0.043560354247802024 VYISEHEHF 9 Unmodified _VYISEHEHF_ 0 0 0 nc|ENSG00000104853|O96005-3|CLPTM1;nc|ENSG00000104853|O96005-4|CLPTM1;ENSG00000104853|ENST00000337392|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 387.5186462402344 3 387.517218 1159.52982 2.7963 0.0010836 0.31039 0.00012028 3.1067 0.0012039 387.51737962091477 31.334 0.38563 31.951 31.752 32.137 0.61737 90 24 6 0 0 0 0.010037 3 14369 14324;14369;14412 62.573 48.355 1 11227000 37149 1453 23642 23715 41666;41667;41668 41667 -0.043560354247802024 VYISEHEHF 9 Unmodified _VYISEHEHF_ 0 0 0 nc|ENSG00000104853|O96005-3|CLPTM1;nc|ENSG00000104853|O96005-4|CLPTM1;ENSG00000104853|ENST00000337392|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 580.774169921875 2 580.772188 1159.52982 3.6101 0.0020966 0.27357 0.00015888 3.8837 0.0022555 580.7723105515257 31.327 0.32504 31.944 31.785 32.11 0.61737 59 20 4 0 0 0 7.7444E-06 3 14376 14328;14376;14426 147.83 115.53 1 3104200 37150 1453 23642 23715 41669;41670;41671 41670 -0.043560354247802024 VYISNGQVL 9 Unmodified _VYISNGQVL_ 0 0 0 ENST00000487571.1_1_3:53922418-53925815:-|nuORF;ENSG00000113811|ENST00000495461|SELENOK ENST00000487571.1_1_3:53922418-53925815:-|nuORF ENST00000487571.1_1_3:53922418-53925815:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.7751770019531 2 496.7742 991.533846 2.9898 0.0014853 0.40916 0.00020326 3.399 0.0016885 496.7744153037306 54.559 0.25124 54.824 54.66 54.911 0.26543 16 10 2 0 0 0 0.086747 1 24948 24948 36.044 11.37 1 597560 37151 1876 23643 23716 41672 41672 0.037740540689469526 VYIYGISC 8 Unmodified _VYIYGISC_ 0 0 0 REV__ENST00000468948.1_1_2:182388205-182388999:+|nuORF REV__ENST00000468948.1_1_2:182388205-182388999:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 917.445556640625 1 917.443717 916.43644 2.9628 0.0027182 -0.023552 -2.1607E-05 2.9393 0.0026966 917.4433780145575 65.63 0.21724 66.339 66.228 66.445 0.7089 35 22 2 0 0 0 0.42655 1 31026 31026 26.341 5.4701 1 2211200 + 37152 11347 23644 23717 41673 41673 -0.025120511315549265 VYIYGISC 8 Unmodified _VYIYGISC_ 0 0 0 REV__ENST00000468948.1_1_2:182388205-182388999:+|nuORF REV__ENST00000468948.1_1_2:182388205-182388999:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 917.445068359375 1 917.443717 916.43644 4.0247 0.0036924 -1.4083 -0.001292 2.6164 0.0024004 917.4431022418761 66.442 0.3091 66.691 66.559 66.868 0.24847 36 16 3 0 0 0 0.42655 2 30418 30418;30463 26.341 5.4701 1 1169100 + 37153 11347 23644 23717 41674;41675 41674 -0.025120511315549265 VYIYGISC 8 Unmodified _VYIYGISC_ 0 0 0 REV__ENST00000468948.1_1_2:182388205-182388999:+|nuORF REV__ENST00000468948.1_1_2:182388205-182388999:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 917.4544677734375 1 917.443717 916.43644 3.9823 0.0036535 -0.68918 -0.00063228 3.2931 0.0030212 917.4433596951259 65.883 0.30084 66.54 66.408 66.709 0.65672 45 18 3 0 0 0 0.42655 2 30165 30165;30168 26.341 5.4701 1 1343100 + 37154 11347 23644 23717 41676;41677 41676 -0.025120511315549265 VYIYVSIF 8 Unmodified _VYIYVSIF_ 0 0 0 ENSG00000180440|ENST00000315190|SERTM1 ENSG00000180440|ENST00000315190|SERTM1 ENSG00000180440|ENST00000315190|SERTM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.2775573730469 2 502.278586 1002.54262 NaN NaN NaN NaN NaN NaN NaN 44.465 1 44.734 44.234 45.234 0.2694 0 0 0 0.19155 1 20324 20324 42.968 4.7924 1 37155 5252 23645 23718 41678 41678 0.041450277054195794 VYKAFVMETF 10 Unmodified _VYKAFVMETF_ 0 0 0 nc|ENSG00000105677|Q9BVK8-2|TMEM147;ENST00000477168.6_1_19:36037622-36038346:+|nuORF;ENST00000593027.6_1_19:36036533-36038346:+|nuORF;ENSG00000105677|ENST00000222284|TMEM147 nc|ENSG00000105677|Q9BVK8-2|TMEM147 nc|ENSG00000105677|Q9BVK8-2|TMEM147 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 617.8145141601562 2 617.812467 1233.61038 3.8087 0.0023531 -0.54707 -0.00033798 3.2617 0.0020151 617.8118273527052 67.004 0.22143 67.254 67.148 67.37 0.2501 25 13 2 0 0 0 0.1225 1 30714 30714 49.554 29.101 1 462860 37156 1520 23646 23719 41679 41679 0.002921095739111479 VYKAFVMETF 10 Unmodified _VYKAFVMETF_ 0 0 0 nc|ENSG00000105677|Q9BVK8-2|TMEM147;ENST00000477168.6_1_19:36037622-36038346:+|nuORF;ENST00000593027.6_1_19:36036533-36038346:+|nuORF;ENSG00000105677|ENST00000222284|TMEM147 nc|ENSG00000105677|Q9BVK8-2|TMEM147 nc|ENSG00000105677|Q9BVK8-2|TMEM147 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 617.8153686523438 2 617.812467 1233.61038 3.6756 0.0022708 0.075024 4.6351E-05 3.7506 0.0023172 617.8123448921561 66.367 0.28915 67.024 66.857 67.146 0.65672 25 15 2 0 0 0 0.17772 1 30401 30401 41.956 29.715 1 630270 37157 1520 23646 23719 41680 41680 0.002921095739111479 VYKALSDHHI 10 Unmodified _VYKALSDHHI_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.2161865234375 3 394.880379 1181.61931 2.7986 0.0011051 -0.30125 -0.00011896 2.4974 0.00098616 394.8803115999341 19.69 0.15781 19.982 19.876 20.033 0.29239 17 10 2 0 0 0 0.42828 1 8957 8957 23.79 16.313 1 179370 37158 3661 23647 23720 41681 41681 0.03576219254614443 VYKALSDHHI 10 Unmodified _VYKALSDHHI_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.881591796875 3 394.880379 1181.61931 3.0169 0.0011913 -0.4818 -0.00019025 2.5351 0.0010011 394.88020704751835 19.351 0.14228 20.01 19.888 20.031 0.65829 21 10 3 0 0 0 0.11754 1 8763 8763 22.658 13.682 1 352030 37159 3661 23647 23720 41682 41682 0.03576219254614443 VYKALSDHHI 10 Unmodified _VYKALSDHHI_ 0 0 0 nc|ENSG00000149925|P04075|ALDOA;ENSG00000149925|ENST00000642816|ALDOA nc|ENSG00000149925|P04075|ALDOA nc|ENSG00000149925|P04075|ALDOA MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 394.880379 1181.61931 2.715 0.0010721 0.6985 0.00027582 3.4135 0.0013479 394.88102108790207 20.145 0.19685 20.145 20.058 20.255 0 0.099016 0.00087192 NaN 28.495 48 21 3 NaN NaN NaN NaN 0 NaN NaN 0 367250 37160 3661 23647 23720 0.03576219254614443 VYKDHQTITI 10 Unmodified _VYKDHQTITI_ 0 0 0 ENSG00000112118|ENST00000596288|MCM3;nc|ENSG00000112118|P25205-2|MCM3 ENSG00000112118|ENST00000596288|MCM3 ENSG00000112118|ENST00000596288|MCM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 406.8919677734375 3 406.555672 1216.64519 2.9419 0.0011961 -0.12751 -5.1841E-05 2.8144 0.0011442 406.55554293964724 29.709 0.25314 29.709 29.603 29.856 0 40 20 3 0 0 0 0.42798 1 13410 13410 23.801 14.557 1 871770 37161 1792 23648 23721 41683 41683 0.04553068706218255 VYKDHQTITI 10 Unmodified _VYKDHQTITI_ 0 0 0 ENSG00000112118|ENST00000596288|MCM3;nc|ENSG00000112118|P25205-2|MCM3 ENSG00000112118|ENST00000596288|MCM3 ENSG00000112118|ENST00000596288|MCM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 406.55682373046875 3 406.555672 1216.64519 2.7624 0.0011231 0.47028 0.00019119 3.2327 0.0013143 406.5557679594572 28.657 0.28147 29.446 29.346 29.627 0.78921 57 24 3 0 0 0 0.48198 2 12918 12918;12960 21.799 13.048 1 647460 37162 1792 23648 23721 41684;41685 41684 0.04553068706218255 VYKDHQTITI 10 Unmodified _VYKDHQTITI_ 0 0 0 ENSG00000112118|ENST00000596288|MCM3;nc|ENSG00000112118|P25205-2|MCM3 ENSG00000112118|ENST00000596288|MCM3 ENSG00000112118|ENST00000596288|MCM3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 406.5564270019531 3 406.555672 1216.64519 2.9379 0.0011944 -0.21215 -8.6252E-05 2.7257 0.0011082 406.5555626574382 29.111 0.20947 29.729 29.675 29.884 0.61789 23 15 2 0 0 0 0.73539 1 13376 13376 11.518 5.7344 1 926500 37163 1792 23648 23721 41686 41686 0.04553068706218255 VYKDRRLA 8 Unmodified _VYKDRRLA_ 0 0 0 REV__ENSG00000198752|ENST00000361246|CDC42BPB REV__ENSG00000198752|ENST00000361246|CDC42BPB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 510.8030700683594 2 510.801083 1019.58761 NaN NaN NaN NaN NaN NaN NaN 85.191 1 85.191 84.691 85.691 0 0 0 0 0.88162 1 43308 43308 13.508 0.97634 1 + 37164 14356 23649 23722 41687 41687 0.07860271291326626 VYKELASKELR 11 Unmodified _VYKELASKELR_ 0 0 0 REV__ENST00000469912.1_1_3:46592844-46593081:-|nuORF REV__ENST00000469912.1_1_3:46592844-46593081:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.3876342773438 2 668.385177 1334.7558 NaN NaN NaN NaN NaN NaN NaN 88.551 1 88.603 88.103 89.103 0.052155 0 0 0 1.0038 1 45133 45133 5.7319 0.83484 1 + 37165 16585 23650 23723 41688 41688 0.10181288694434443 VYKGEEATF 9 Unmodified _VYKGEEATF_ 0 0 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.2600708007812 2 522.25584 1042.49713 3.4982 0.001827 0.66062 0.00034501 4.1588 0.002172 522.2566116298404 28.408 0.217 28.408 28.324 28.541 0 29 14 3 0 0 0 0.02812 2 12834 12834;12839 57.722 7.789 1 769120 37166 829 23651 23724 41689;41690 41689 -0.022422425476406715 VYKGEEATF 9 Unmodified _VYKGEEATF_ 0 0 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 522.2582397460938 2 522.25584 1042.49713 3.4574 0.0018057 -0.21054 -0.00010996 3.2469 0.0016957 522.255642759527 27.443 0.25748 28.229 28.122 28.379 0.78627 43 25 2 0 0 0 0.044468 2 12357 12357;12366 49.554 7.7147 1 701120 37167 829 23651 23724 41691;41692 41691 -0.022422425476406715 VYKGEEATF 9 Unmodified _VYKGEEATF_ 0 0 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.2572021484375 2 522.25584 1042.49713 3.2892 0.0017178 1.0929 0.00057078 4.3821 0.0022886 522.2560995051784 28.456 0.26042 28.717 28.583 28.843 0.2602 24 15 2 0 0 0 0.053453 2 12921 12915;12921 45.7 3.86 1 292490 37168 829 23651 23724 41693;41694 41694 -0.022422425476406715 VYKGEEATF 9 Unmodified _VYKGEEATF_ 0 0 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.2584228515625 2 522.25584 1042.49713 3.2801 0.0017131 0.15846 8.2756E-05 3.4386 0.0017958 522.2559101495475 28.026 0.28226 28.646 28.524 28.806 0.61947 37 17 3 0 0 0 0.10584 1 12838 12838 31.268 3.6395 1 322600 37169 829 23651 23724 41695 41695 -0.022422425476406715 VYKKTFLEF 9 Unmodified _VYKKTFLEF_ 0 0 0 ENSG00000101654|ENST00000383314|RNMT;nc|ENSG00000101654|O43148-2|RNMT ENSG00000101654|ENST00000383314|RNMT ENSG00000101654|ENST00000383314|RNMT MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 587.8307495117188 2 587.828975 1173.6434 3.7242 0.0021892 -0.077111 -4.5328E-05 3.647 0.0021438 587.8286336738029 51.181 0.18829 51.181 51.098 51.287 0 14 9 2 0 0 0 0.10218 1 23474 23474 10.824 2.9138 1 302780 37170 1308 23652 23725 41696 41696 0.06352059688288136 VYKKVTILN 9 Unmodified _VYKKVTILN_ 0 0 0 REV__ENSG00000060069|ENST00000613122|CTDP1 REV__ENSG00000060069|ENST00000613122|CTDP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.48382568359375 3 359.893737 1076.65938 2.7283 0.00098191 -0.042797 -1.5402E-05 2.6855 0.00096651 359.8938864796937 37.505 0.46881 37.766 37.51 37.978 0.26083 24 14 3 0 0 0 0.095169 1 17088 17088 7.609 0 1 690270 + 37171 10393 23653 23726 41697 41697 0.12411765925185136 VYKLFMFI 8 Unmodified _VYKLFMFI_ 0 0 0 nc|ENSG00000198216|Q15878-2|CACNA1E;nc|ENSG00000198216|Q15878-3|CACNA1E;ENSG00000198216|ENST00000367573|CACNA1E nc|ENSG00000198216|Q15878-2|CACNA1E nc|ENSG00000198216|Q15878-2|CACNA1E MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.8369140625 2 530.798632 1059.58271 NaN NaN NaN NaN NaN NaN NaN 88.876 1 88.929 88.429 89.429 0.052155 0 0 0 0.94507 1 45409 45409 9.3474 0.75416 1 37172 5876 23654 23727 41698 41698 0.05530251104346462 VYKLHRETF 9 Unmodified _VYKLHRETF_ 0 0 0 ENSG00000105173|ENST00000262643|CCNE1;nc|ENSG00000105173|P24864-3|CCNE1 ENSG00000105173|ENST00000262643|CCNE1 ENSG00000105173|ENST00000262643|CCNE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 398.2212829589844 3 398.220624 1191.64004 2.7131 0.0010804 -0.16992 -6.7666E-05 2.5431 0.0010127 398.22017506783 21.535 0.15875 21.535 21.451 21.61 0 24 17 2 0 0 0 0.91793 1 9643 9643 5.4027 2.9042 1 134660 37173 1473 23655 23728 41699 41699 0.05188809634273639 VYKPAQNSW 9 Unmodified _VYKPAQNSW_ 0 0 0 ENSG00000120696|ENST00000379483|KBTBD7;ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000120696|ENST00000379483|KBTBD7;ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000165572|ENST00000379485|KBTBD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.7791748046875 2 546.777274 1091.53999 3.8943 0.0021293 0.21552 0.00011784 4.1098 0.0022471 546.7776373662047 30.638 0.19063 30.638 30.492 30.683 0 29 16 2 0 0 0 0.0014219 2 13836 13789;13836 111.29 78.501 1 1667800 37174 2207;4409 23656 23729 41700;41701 41701 -0.002114276995371256 VYKPAQNSW 9 Unmodified _VYKPAQNSW_ 0 0 0 ENSG00000120696|ENST00000379483|KBTBD7;ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000120696|ENST00000379483|KBTBD7;ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000165572|ENST00000379485|KBTBD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.7792358398438 2 546.777274 1091.53999 NaN NaN NaN NaN NaN NaN NaN 29.638 1 30.428 29.928 30.928 0.78921 0 0 0 3.7885E-16 1 13366 13366 144.35 76.27 1 37175 2207;4409 23656 23729 41702 41702 -0.002114276995371256 VYKPAQNSW 9 Unmodified _VYKPAQNSW_ 0 0 0 ENSG00000120696|ENST00000379483|KBTBD7;ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000120696|ENST00000379483|KBTBD7;ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000165572|ENST00000379485|KBTBD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.779296875 2 546.777274 1091.53999 3.9208 0.0021438 0.0079241 4.3327E-06 3.9288 0.0021482 546.7769857558997 30.472 0.33927 30.728 30.544 30.883 0.25614 41 17 3 0 0 0 0.0029142 2 13887 13844;13887 96.111 71.437 1 595480 37176 2207;4409 23656 23729 41703;41704 41704 -0.002114276995371256 VYKPAQNSW 9 Unmodified _VYKPAQNSW_ 0 0 0 ENSG00000120696|ENST00000379483|KBTBD7;ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000120696|ENST00000379483|KBTBD7;ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000165572|ENST00000379485|KBTBD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.2805786132812 2 546.777274 1091.53999 3.5606 0.0019469 -0.50164 -0.00027428 3.059 0.0016726 546.7769298403985 30.163 0.24948 30.78 30.673 30.923 0.61736 24 13 2 0 0 0 0.010018 2 13827 13827;13877 81.89 49.105 1 749380 37177 2207;4409 23656 23729 41705;41706 41705 -0.002114276995371256 VYKPPKVSL 9 Unmodified _VYKPPKVSL_ 0 0 0 nc|ENSG00000231925|O15533-4|TAPBP;nc|ENSG00000231925|O15533-2|TAPBP;ENSG00000231925|ENST00000434618|TAPBP;nc|ENSG00000231925|O15533-3|TAPBP nc|ENSG00000231925|O15533-4|TAPBP nc|ENSG00000231925|O15533-4|TAPBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 344.21563720703125 3 344.214699 1029.62227 2.4738 0.00085152 0.92785 0.00031938 3.4017 0.0011709 344.2152649289281 37.215 0.57312 37.215 36.865 37.438 0 44 21 3 0 0 0 0.11458 2 16876 16876;16934 21.59 12.046 1 1151500 37178 6185 23657 23730 41707;41708 41707 0.10864094379417111 VYKPPKVSL 9 Unmodified _VYKPPKVSL_ 0 0 0 nc|ENSG00000231925|O15533-4|TAPBP;nc|ENSG00000231925|O15533-2|TAPBP;ENSG00000231925|ENST00000434618|TAPBP;nc|ENSG00000231925|O15533-3|TAPBP nc|ENSG00000231925|O15533-4|TAPBP nc|ENSG00000231925|O15533-4|TAPBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.8197631835938 2 515.81841 1029.62227 3.3976 0.0017526 0.16195 8.3535E-05 3.5596 0.0018361 515.81819508742 36.024 0.30212 36.815 36.699 37.001 0.79131 17 10 2 0 0 0 0.11458 1 16354 16354 29.082 8.2104 1 274450 37179 6185 23657 23730 41709 41709 0.10864094379417111 VYKPPKVSL 9 Unmodified _VYKPPKVSL_ 0 0 0 nc|ENSG00000231925|O15533-4|TAPBP;nc|ENSG00000231925|O15533-2|TAPBP;ENSG00000231925|ENST00000434618|TAPBP;nc|ENSG00000231925|O15533-3|TAPBP nc|ENSG00000231925|O15533-4|TAPBP nc|ENSG00000231925|O15533-4|TAPBP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 344.216064453125 3 344.214699 1029.62227 2.4174 0.00083209 1.1778 0.00040541 3.5952 0.0012375 344.21536317724826 36.125 0.45818 36.917 36.638 37.096 0.79179 45 18 3 0 0 0 0.19064 1 16396 16396 17.443 7.8987 1 1089100 37180 6185 23657 23730 41710 41710 0.10864094379417111 VYKPPKVSL 9 Unmodified _VYKPPKVSL_ 0 0 0 nc|ENSG00000231925|O15533-4|TAPBP;nc|ENSG00000231925|O15533-2|TAPBP;ENSG00000231925|ENST00000434618|TAPBP;nc|ENSG00000231925|O15533-3|TAPBP nc|ENSG00000231925|O15533-4|TAPBP nc|ENSG00000231925|O15533-4|TAPBP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 515.81841 1029.62227 3.287 0.0016955 0.64507 0.00033274 3.9321 0.0020282 515.8186280864895 37.194 0.36815 37.194 37.01 37.378 0 0.18936 0.0002549 NaN 29.082 20 13 2 NaN NaN NaN NaN 0 NaN NaN 0 503780 37181 6185 23657 23730 0.10864094379417111 VYKPPKVSL 9 Unmodified _VYKPPKVSL_ 0 0 0 nc|ENSG00000231925|O15533-4|TAPBP;nc|ENSG00000231925|O15533-2|TAPBP;ENSG00000231925|ENST00000434618|TAPBP;nc|ENSG00000231925|O15533-3|TAPBP nc|ENSG00000231925|O15533-4|TAPBP nc|ENSG00000231925|O15533-4|TAPBP MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 344.214699 1029.62227 2.5998 0.00089489 0.45895 0.00015798 3.0588 0.0010529 344.2151650793266 37.085 0.42527 37.346 37.022 37.447 0.26083 0.23052 -0.00041118 NaN 21.59 26 13 3 NaN NaN NaN NaN 0 NaN NaN 0 449970 37182 6185 23657 23730 0.10864094379417111 VYKPPKVSL 9 Unmodified _VYKPPKVSL_ 0 0 0 nc|ENSG00000231925|O15533-4|TAPBP;nc|ENSG00000231925|O15533-2|TAPBP;ENSG00000231925|ENST00000434618|TAPBP;nc|ENSG00000231925|O15533-3|TAPBP nc|ENSG00000231925|O15533-4|TAPBP nc|ENSG00000231925|O15533-4|TAPBP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 344.214699 1029.62227 2.5108 0.00086425 0.69639 0.00023971 3.2072 0.001104 344.2150608877863 36.356 0.48079 36.983 36.729 37.21 0.62631 -0.13241 -0.000166 NaN 21.59 29 15 3 NaN NaN NaN NaN 0 NaN NaN 0 427780 37183 6185 23657 23730 0.10864094379417111 VYKSLVALLR 10 Unmodified _VYKSLVALLR_ 0 0 0 REV__ENST00000514480.1_2_4:76439804-76440107:+|nuORF REV__ENST00000514480.1_2_4:76439804-76440107:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.372314453125 2 581.371341 1160.72813 NaN NaN NaN NaN NaN NaN NaN 85.89 1 85.89 85.39 86.39 0 0 0 0 0.99812 1 43864 43864 3.2813 1.2216 1 + 37184 17008 23658 23731 41711 41711 0.15419430224892494 VYKTIMEQF 9 Unmodified _VYKTIMEQF_ 0 0 0 ENST00000575989.5_1_17:79009009-79027584:+|nuORF;ENST00000570913.5_1_17:79009009-79050117:+|nuORF;nc|ENSG00000175866|Q9UQB8-3|BAIAP2;nc|ENSG00000175866|Q9UQB8-5|BAIAP2;nc|ENSG00000175866|Q9UQB8-4|BAIAP2;nc|ENSG00000175866|Q9UQB8-6|BAIAP2;ENSG00000175866|ENST00000428708|BAIAP2;nc|ENSG00000175866|Q9UQB8|BAIAP2 ENST00000575989.5_1_17:79009009-79027584:+|nuORF ENST00000575989.5_1_17:79009009-79027584:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 579.798828125 2 579.796817 1157.57908 3.6729 0.0021295 -0.52356 -0.00030356 3.1494 0.001826 579.7965132198299 55.971 0.28993 56.639 56.478 56.768 0.66798 22 12 3 0 0 0 0.001731 2 25600 25600;25653 106.94 61.241 1 567110 37185 5050 23659 23732 41712;41713 41712 0.006595365398197828 VYKTIMEQF 9 Unmodified _VYKTIMEQF_ 0 0 0 ENST00000575989.5_1_17:79009009-79027584:+|nuORF;ENST00000570913.5_1_17:79009009-79050117:+|nuORF;nc|ENSG00000175866|Q9UQB8-3|BAIAP2;nc|ENSG00000175866|Q9UQB8-5|BAIAP2;nc|ENSG00000175866|Q9UQB8-4|BAIAP2;nc|ENSG00000175866|Q9UQB8-6|BAIAP2;ENSG00000175866|ENST00000428708|BAIAP2;nc|ENSG00000175866|Q9UQB8|BAIAP2 ENST00000575989.5_1_17:79009009-79027584:+|nuORF ENST00000575989.5_1_17:79009009-79027584:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 579.796817 1157.57908 3.675 0.0021307 0.58842 0.00034116 4.2634 0.0024719 580.2987614152396 56.718 0.19722 56.718 56.598 56.795 0 0.10985 0.00067933 NaN 106.94 23 15 2 NaN NaN NaN NaN 0 NaN NaN 0 1074500 37186 5050 23659 23732 0.006595365398197828 VYKTIMEQF 9 Unmodified _VYKTIMEQF_ 0 0 0 ENST00000575989.5_1_17:79009009-79027584:+|nuORF;ENST00000570913.5_1_17:79009009-79050117:+|nuORF;nc|ENSG00000175866|Q9UQB8-3|BAIAP2;nc|ENSG00000175866|Q9UQB8-5|BAIAP2;nc|ENSG00000175866|Q9UQB8-4|BAIAP2;nc|ENSG00000175866|Q9UQB8-6|BAIAP2;ENSG00000175866|ENST00000428708|BAIAP2;nc|ENSG00000175866|Q9UQB8|BAIAP2 ENST00000575989.5_1_17:79009009-79027584:+|nuORF ENST00000575989.5_1_17:79009009-79027584:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 579.796817 1157.57908 3.016 0.0017486 0.13207 7.6573E-05 3.148 0.0018252 579.7964490960244 55.681 0.26046 56.468 56.346 56.606 0.78711 -0.14041 0.00015015 NaN 106.94 27 19 2 NaN NaN NaN NaN 0 NaN NaN 0 965660 37187 5050 23659 23732 0.006595365398197828 VYKVPPFTF 9 Unmodified _VYKVPPFTF_ 0 0 0 ENSG00000177469|ENST00000357037|CAVIN1;nc|ENSG00000177469|Q6NZI2-2|CAVIN1;nc|ENSG00000177469|Q6NZI2-3|CAVIN1 ENSG00000177469|ENST00000357037|CAVIN1 ENSG00000177469|ENST00000357037|CAVIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.3067016601562 2 549.305136 1096.59572 3.3187 0.001823 -0.014745 -8.0996E-06 3.304 0.0018149 549.3050036118011 71.471 0.34911 71.728 71.419 71.768 0.25786 40 27 2 0 0 0 0.031228 2 32690 32669;32690 69.105 41.476 1 618040 37188 5119 23660 23733 41714;41715 41715 0.05128405488062526 VYKVPPFTF 9 Unmodified _VYKVPPFTF_ 0 0 0 ENSG00000177469|ENST00000357037|CAVIN1;nc|ENSG00000177469|Q6NZI2-2|CAVIN1;nc|ENSG00000177469|Q6NZI2-3|CAVIN1 ENSG00000177469|ENST00000357037|CAVIN1 ENSG00000177469|ENST00000357037|CAVIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.3076782226562 2 549.305136 1096.59572 3.0101 0.0016535 1.0189 0.00055968 4.029 0.0022132 549.3056799357264 70.892 0.67294 71.554 71.137 71.81 0.66209 61 42 2 0 0 0 0.035495 2 32457 32457;32504 58.679 49.933 1 338350 37189 5119 23660 23733 41716;41717 41716 0.05128405488062526 VYKVVGNLL 9 Unmodified _VYKVVGNLL_ 0 0 0 ENSG00000183856|ENST00000361170|IQGAP3 ENSG00000183856|ENST00000361170|IQGAP3 ENSG00000183856|ENST00000361170|IQGAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 502.8127746582031 2 502.810585 1003.60662 3.0188 0.0015179 -1.7157 -0.00086268 1.3031 0.00065521 502.810766183318 58.362 0.27349 58.362 58.341 58.615 0 46 25 2 0 0 0 0.0044949 2 26955 26955;27007 92.822 35.351 1 1824800 37190 5409 23661 23734 41718;41719 41718 0.10495807862389483 VYKVVGNLL 9 Unmodified _VYKVVGNLL_ 0 0 0 ENSG00000183856|ENST00000361170|IQGAP3 ENSG00000183856|ENST00000361170|IQGAP3 ENSG00000183856|ENST00000361170|IQGAP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.81170654296875 2 502.810585 1003.60662 NaN NaN NaN NaN NaN NaN NaN 58.113 1 58.376 57.876 58.876 0.26227 0 0 0 0.0045985 1 26607 26607 92.822 35.351 1 37191 5409 23661 23734 41720 41720 0.10495807862389483 VYLAEKGEND 10 Unmodified _VYLAEKGEND_ 0 0 0 nc|ENSG00000075043|O43526-5|KCNQ2;nc|ENSG00000075043|O43526-4|KCNQ2;nc|ENSG00000075043|O43526-3|KCNQ2;nc|ENSG00000075043|O43526-2|KCNQ2;ENSG00000075043|ENST00000359125|KCNQ2;nc|ENSG00000075043|O43526-6|KCNQ2 nc|ENSG00000075043|O43526-5|KCNQ2;nc|ENSG00000075043|O43526-6|KCNQ2 nc|ENSG00000075043|O43526-5|KCNQ2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.85296630859375 3 379.852266 1136.53497 2.9192 0.0011089 -0.068314 -2.5949E-05 2.8509 0.0010829 379.8522441408632 27.056 0.25686 27.056 26.932 27.188 0 34 14 3 0 0 0 0.72019 1 12165 12165 10.899 3.29 1 605410 37192 9561;9562 23662 23735 41721 41721 -0.027837763527941206 VYLAEKGEND 10 Unmodified _VYLAEKGEND_ 0 0 0 nc|ENSG00000075043|O43526-5|KCNQ2;nc|ENSG00000075043|O43526-4|KCNQ2;nc|ENSG00000075043|O43526-3|KCNQ2;nc|ENSG00000075043|O43526-2|KCNQ2;ENSG00000075043|ENST00000359125|KCNQ2;nc|ENSG00000075043|O43526-6|KCNQ2 nc|ENSG00000075043|O43526-5|KCNQ2;nc|ENSG00000075043|O43526-6|KCNQ2 nc|ENSG00000075043|O43526-5|KCNQ2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 379.852266 1136.53497 2.6179 0.00099442 0.73095 0.00027765 3.3489 0.0012721 379.8524895927151 26.608 0.24916 27.23 27.065 27.314 0.62178 0.13202 0.00064681 NaN 10.899 20 15 2 NaN NaN NaN NaN 0 NaN NaN 0 258410 37193 9561;9562 23662 23735 -0.027837763527941206 VYLAWILFF 9 Unmodified _VYLAWILFF_ 0 0 0 ENST00000394971.7_1_16:31102457-31105584:-|nuORF;ENSG00000167397|ENST00000394975|VKORC1 ENST00000394971.7_1_16:31102457-31105584:-|nuORF ENST00000394971.7_1_16:31102457-31105584:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.833251953125 2 586.331153 1170.64775 3.3248 0.0019494 -1.4364 -0.00084221 1.8884 0.0011072 586.8321129269864 78.797 0.24186 79.048 78.878 79.12 0.25127 42 18 3 0 0 0 0.12776 1 36277 36277 28.173 4.1527 1 567310 37194 4551 23663 23736 41722 41722 0.06925568901851875 VYLDHAGATLF 11 Unmodified _VYLDHAGATLF_ 0 0 0 ENSG00000075643|ENST00000261326|MOCOS ENSG00000075643|ENST00000261326|MOCOS ENSG00000075643|ENST00000261326|MOCOS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 603.8133544921875 2 603.811313 1205.60807 3.4665 0.0020931 1.2916 0.00077991 4.7582 0.002873 603.8109085104396 63.515 0.27372 63.763 63.638 63.912 0.24803 36 14 3 0 0 0 7.8959E-06 2 29124 29066;29124 96.111 54.271 1 2033700 37195 833 23664 23737 41723;41724 41724 0.013493971604702892 VYLDHAGATLF 11 Unmodified _VYLDHAGATLF_ 0 0 0 ENSG00000075643|ENST00000261326|MOCOS ENSG00000075643|ENST00000261326|MOCOS ENSG00000075643|ENST00000261326|MOCOS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 603.81396484375 2 603.811313 1205.60807 3.6862 0.0022257 0.98898 0.00059716 4.6751 0.0028229 603.8112556195409 62.957 0.28519 63.615 63.48 63.765 0.65808 36 15 3 0 0 0 0.0021951 2 28843 28843;28890 75.761 33.921 1 3085000 37196 833 23664 23737 41725;41726 41725 0.013493971604702892 VYLDKFIRL 9 Unmodified _VYLDKFIRL_ 0 0 0 ENSG00000130119|ENST00000360845|GNL3L;ENST00000462279.5_1_5:60188520-60189039:-|nuORF ENSG00000130119|ENST00000360845|GNL3L ENSG00000130119|ENST00000360845|GNL3L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.57000732421875 3 389.569253 1165.68593 2.103 0.00081925 0.009231 3.5961E-06 2.1122 0.00082285 389.56921530931163 66.532 0.23643 66.532 66.437 66.673 0 65 27 3 0 0 0 0.013715 2 31829 31771;31829 76.825 40.319 1 5125100 37197 2573 23665 23738 41727;41728 41728 0.1097145481651296 VYLDKFIRL 9 Unmodified _VYLDKFIRL_ 0 0 0 ENSG00000130119|ENST00000360845|GNL3L;ENST00000462279.5_1_5:60188520-60189039:-|nuORF ENSG00000130119|ENST00000360845|GNL3L ENSG00000130119|ENST00000360845|GNL3L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 389.5694274902344 3 389.569253 1165.68593 1.9262 0.00075038 0.086557 3.372E-05 2.0127 0.0007841 389.5692094736012 65.464 0.23906 66.173 66.059 66.298 0.70891 64 26 3 0 0 0 0.020338 2 30940 30940;30996 67.838 37.998 1 6286800 37198 2573 23665 23738 41729;41730 41729 0.1097145481651296 VYLDKFIRL 9 Unmodified _VYLDKFIRL_ 0 0 0 ENSG00000130119|ENST00000360845|GNL3L;ENST00000462279.5_1_5:60188520-60189039:-|nuORF ENSG00000130119|ENST00000360845|GNL3L ENSG00000130119|ENST00000360845|GNL3L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 583.8515625 2 583.850242 1165.68593 2.5794 0.001506 1.0875 0.00063491 3.6668 0.0021409 583.850943214113 65.481 0.15373 66.19 66.105 66.259 0.70891 25 16 2 0 0 0 0.0014285 1 30956 30956 134.3 72.938 1 2673000 37199 2573 23665 23738 41731 41731 0.1097145481651296 VYLDKFIRL 9 Unmodified _VYLDKFIRL_ 0 0 0 ENSG00000130119|ENST00000360845|GNL3L;ENST00000462279.5_1_5:60188520-60189039:-|nuORF ENSG00000130119|ENST00000360845|GNL3L ENSG00000130119|ENST00000360845|GNL3L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 389.5704040527344 3 389.569253 1165.68593 3.0703 0.0011961 -0.30945 -0.00012055 2.7608 0.0010755 389.56915591724015 66.385 0.26579 66.633 66.5 66.765 0.24848 41 15 3 0 0 0 0.057456 2 30426 30379;30426 43.982 18.991 1 2215100 37200 2573 23665 23738 41732;41733 41733 0.1097145481651296 VYLDKFIRL 9 Unmodified _VYLDKFIRL_ 0 0 0 ENSG00000130119|ENST00000360845|GNL3L;ENST00000462279.5_1_5:60188520-60189039:-|nuORF ENSG00000130119|ENST00000360845|GNL3L ENSG00000130119|ENST00000360845|GNL3L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 583.8531494140625 2 583.850242 1165.68593 3.6163 0.0021114 0.25567 0.00014927 3.8719 0.0022606 583.8500896050817 66.363 0.19417 66.612 66.526 66.721 0.24848 17 10 2 0 0 0 0.079841 1 30412 30412 47.594 15.289 1 820310 37201 2573 23665 23738 41734 41734 0.1097145481651296 VYLDKFIRL 9 Unmodified _VYLDKFIRL_ 0 0 0 ENSG00000130119|ENST00000360845|GNL3L;ENST00000462279.5_1_5:60188520-60189039:-|nuORF ENSG00000130119|ENST00000360845|GNL3L ENSG00000130119|ENST00000360845|GNL3L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.57049560546875 3 389.569253 1165.68593 2.9242 0.0011392 -0.41306 -0.00016092 2.5111 0.00097826 389.5691422433329 65.747 0.22383 66.404 66.29 66.514 0.65672 31 11 3 0 0 0 0.023321 2 30133 30133;30191 63.961 34.12 1 2016800 37202 2573 23665 23738 41735;41736 41735 0.1097145481651296 VYLDKFIRL 9 Unmodified _VYLDKFIRL_ 0 0 0 ENSG00000130119|ENST00000360845|GNL3L;ENST00000462279.5_1_5:60188520-60189039:-|nuORF ENSG00000130119|ENST00000360845|GNL3L ENSG00000130119|ENST00000360845|GNL3L MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 583.850242 1165.68593 3.6587 0.0021361 -0.53971 -0.00031511 3.119 0.001821 583.8500087948178 65.758 0.21794 66.414 66.309 66.527 0.65672 -0.098734 -0.0005983 NaN 47.594 23 11 3 NaN NaN NaN NaN 0 NaN NaN 0 838620 37203 2573 23665 23738 0.1097145481651296 VYLIKGKTL 9 Unmodified _VYLIKGKTL_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2;ENST00000478436.1_1_3:145795570-145803239:-|nuORF nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.5593566894531 3 345.558466 1033.65357 2.277 0.00078683 -0.075024 -2.5925E-05 2.2019 0.0007609 345.55848874838404 35.426 0.2499 35.426 35.314 35.564 0 30 15 3 0 0 0 0.088474 1 16058 16058 35.612 11.822 1 2010700 37204 3765 23666 23739 41737 41737 0.13808667413536568 VYLIKGKTL 9 Unmodified _VYLIKGKTL_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2;ENST00000478436.1_1_3:145795570-145803239:-|nuORF nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.8362426757812 2 517.83406 1033.65357 3.0728 0.0015912 0.81139 0.00042016 3.8842 0.0020114 517.8345326275153 35.414 0.18093 35.414 35.343 35.524 0 16 10 2 0 0 0 0.0039585 1 16076 16076 92.653 40.385 1 764400 37205 3765 23666 23739 41738 41738 0.13808667413536568 VYLIKGKTL 9 Unmodified _VYLIKGKTL_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2;ENST00000478436.1_1_3:145795570-145803239:-|nuORF nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 517.83406 1033.65357 3.3864 0.0017536 0.058111 3.0092E-05 3.4445 0.0017837 517.8341419522504 35.15 0.22659 35.405 35.339 35.566 0.25524 -0.0043556 -0.00050528 NaN 92.653 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 393200 37206 3765 23666 23739 0.13808667413536568 VYLPGSRQTL 10 Unmodified _VYLPGSRQTL_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.3212890625 2 567.319306 1132.62406 3.3414 0.0018956 -0.97007 -0.00055034 2.3713 0.0013453 567.3193342165893 44.177 0.14823 44.177 44.053 44.201 0 22 16 2 0 0 0 0.094878 1 20134 20134 53.404 17.36 1 3008500 37207 5155 23667 23740 41739 41739 0.06305103397380662 VYLPGSRQTL 10 Unmodified _VYLPGSRQTL_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3212890625 2 567.319306 1132.62406 3.3804 0.0019178 0.38064 0.00021595 3.761 0.0021337 567.3192605570164 43.927 0.18143 44.196 44.121 44.302 0.2694 30 15 3 0 0 0 0.094878 2 20060 20060;20113 53.404 17.36 1 2408700 37208 5155 23667 23740 41740;41741 41740 0.06305103397380662 VYLPGSRQTL 10 Unmodified _VYLPGSRQTL_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.3223266601562 2 567.319306 1132.62406 3.7304 0.0021163 -0.15613 -8.8576E-05 3.5742 0.0020277 567.3187730552019 43.455 0.24554 44.104 43.919 44.165 0.64872 20 10 3 0 0 0 0.10761 1 19886 19886 51.63 7.2228 1 2451900 37209 5155 23667 23740 41742 41742 0.06305103397380662 VYLPGSRQTL 10 Unmodified _VYLPGSRQTL_ 0 0 0 nc|ENSG00000178209|Q15149-7|PLEC;nc|ENSG00000178209|Q15149-8|PLEC;nc|ENSG00000178209|Q15149-9|PLEC;nc|ENSG00000178209|Q15149-5|PLEC;ENSG00000178209|ENST00000345136|PLEC;nc|ENSG00000178209|Q15149-6|PLEC;nc|ENSG00000178209|Q15149-3|PLEC;nc|ENSG00000178209|Q15149-2|PLEC;nc|ENSG00000178209|Q15149|PLEC nc|ENSG00000178209|Q15149-7|PLEC nc|ENSG00000178209|Q15149-7|PLEC MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 567.319306 1132.62406 3.3774 0.0019161 -0.72932 -0.00041376 2.6481 0.0015023 567.3187774609938 43.106 0.069977 43.92 43.905 43.975 0.81444 -0.17931 -0.00065475 NaN 53.404 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 5518400 37210 5155 23667 23740 0.06305103397380662 VYLPLTSHI 9 Unmodified _VYLPLTSHI_ 0 0 0 ENSG00000106266|ENST00000222990|SNX8;ENST00000480807.1_1_7:2294693-2297236:-|nuORF ENSG00000106266|ENST00000222990|SNX8 ENSG00000106266|ENST00000222990|SNX8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.80224609375 2 521.800217 1041.58588 NaN NaN NaN NaN NaN NaN NaN 63.935 1 64.592 64.092 65.092 0.65672 0 0 0 0.097886 1 29301 29301 42.095 26.247 1 37211 1560 23668 23741 41743 41743 0.0667521748271156 VYLPNINKI 9 Unmodified _VYLPNINKI_ 0 0 0 ENSG00000072422|ENST00000337910|RHOBTB1 ENSG00000072422|ENST00000337910|RHOBTB1 ENSG00000072422|ENST00000337910|RHOBTB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 537.3230590820312 2 537.321317 1072.62808 2.8528 0.0015329 0.42152 0.00022649 3.2744 0.0017594 537.3215629436579 60.669 0.24797 60.669 60.583 60.831 0 67 29 3 0 0 0 0.0026885 2 28209 28209;28266 97.075 29.731 1 13721000 37212 792 23669 23742 41744;41745 41744 0.09467192891088416 VYLPNINKI 9 Unmodified _VYLPNINKI_ 0 0 0 ENSG00000072422|ENST00000337910|RHOBTB1 ENSG00000072422|ENST00000337910|RHOBTB1 ENSG00000072422|ENST00000337910|RHOBTB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.3230590820312 2 537.321317 1072.62808 2.7534 0.0014794 0.23631 0.00012697 2.9897 0.0016064 537.3213953496996 59.693 0.40561 60.442 60.203 60.608 0.74927 96 33 4 0 0 0 0.0010612 3 27367 27367;27412;27456 125.62 58.281 1 9558100 37213 792 23669 23742 41746;41747;41748 41746 0.09467192891088416 VYLPNINKI 9 Unmodified _VYLPNINKI_ 0 0 0 ENSG00000072422|ENST00000337910|RHOBTB1 ENSG00000072422|ENST00000337910|RHOBTB1 ENSG00000072422|ENST00000337910|RHOBTB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.322998046875 2 537.321317 1072.62808 3.0706 0.0016499 0.049745 2.6729E-05 3.1203 0.0016766 537.3213432101936 60.564 0.40492 60.82 60.602 61.007 0.25578 79 37 3 0 0 0 0.0019388 2 27750 27707;27750 104.8 48.729 1 6999200 37214 792 23669 23742 41749;41750 41750 0.09467192891088416 VYLPNINKI 9 Unmodified _VYLPNINKI_ 0 0 0 ENSG00000072422|ENST00000337910|RHOBTB1 ENSG00000072422|ENST00000337910|RHOBTB1 ENSG00000072422|ENST00000337910|RHOBTB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.3223266601562 2 537.321317 1072.62808 3.2827 0.0017638 -0.084061 -4.5168E-05 3.1986 0.0017187 537.3210951607471 60 0.32122 60.665 60.441 60.763 0.66503 53 29 3 0 0 0 0.0026885 3 27409 27409;27460;27508 97.075 36.685 1 9000900 37215 792 23669 23742 41751;41752;41753 41751 0.09467192891088416 VYLPTHTSL 9 Unmodified _VYLPTHTSL_ 0 0 0 ENSG00000007944|ENST00000356840|MYLIP ENSG00000007944|ENST00000356840|MYLIP ENSG00000007944|ENST00000356840|MYLIP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.783447265625 2 515.782025 1029.5495 NaN NaN NaN NaN NaN NaN NaN 48.147 1 48.409 47.909 48.909 0.26209 0 0 0 0.3934 1 22007 22007 23.148 5.0021 1 37216 369 23670 23743 41754 41754 0.035903405860153725 VYLQNWSHVL 10 Unmodified _VYLQNWSHVL_ 0 0 0 ENST00000392357.1_1_17:80012338-80013241:+|nuORF;ENSG00000169727|ENST00000578552|GPS1;nc|ENSG00000169727|Q13098|GPS1;nc|ENSG00000169727|Q13098-7|GPS1;nc|ENSG00000169727|Q13098-6|GPS1 ENST00000392357.1_1_17:80012338-80013241:+|nuORF ENST00000392357.1_1_17:80012338-80013241:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 629.834228515625 2 629.83258 1257.65061 3.9078 0.0024613 0.16831 0.00010601 4.0762 0.0025673 629.8328013625701 69.326 0.25791 69.58 69.401 69.659 0.25443 29 15 2 0 0 0 0.16398 1 31719 31719 43.772 19.099 1 626020 37217 4707 23671 23744 41755 41755 0.03208792288683071 VYLQNWSHVL 10 Unmodified _VYLQNWSHVL_ 0 0 0 ENST00000392357.1_1_17:80012338-80013241:+|nuORF;ENSG00000169727|ENST00000578552|GPS1;nc|ENSG00000169727|Q13098|GPS1;nc|ENSG00000169727|Q13098-7|GPS1;nc|ENSG00000169727|Q13098-6|GPS1 ENST00000392357.1_1_17:80012338-80013241:+|nuORF ENST00000392357.1_1_17:80012338-80013241:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 629.83258 1257.65061 3.6291 0.0022857 0.47267 0.0002977 4.1018 0.0025834 629.8327760269925 68.745 0.26015 69.404 69.282 69.542 0.65924 -0.088095 0.00021813 NaN 43.772 31 18 2 NaN NaN NaN NaN 0 NaN NaN 0 627940 37218 4707 23671 23744 0.03208792288683071 VYLTLRLSL 9 Unmodified _VYLTLRLSL_ 0 0 0 ENST00000599329.1_1_19:17448460-17449093:+|nuORF ENST00000599329.1_1_19:17448460-17449093:+|nuORF ENST00000599329.1_1_19:17448460-17449093:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 359.7345275878906 3 359.893737 1076.65938 2.4126 0.00086829 -0.26311 -9.4691E-05 2.1495 0.0007736 359.8938012882188 36.596 0.38805 37.389 37.174 37.562 0.79342 45 19 3 0 0 0 0.097457 1 16630 16630 10.8 0 1 1472200 37219 9293 23672 23745 41756 41756 0.12411765925162399 VYMAYKDLYQV 11 Unmodified _VYMAYKDLYQV_ 0 0 0 nc|ENSG00000113657|Q14195|DPYSL3;ENSG00000113657|ENST00000343218|DPYSL3 nc|ENSG00000113657|Q14195|DPYSL3 nc|ENSG00000113657|Q14195|DPYSL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 464.9018859863281 3 464.900451 1391.67952 NaN NaN NaN NaN NaN NaN NaN 76.832 1 77.495 76.995 77.995 0.66303 0 0 0 1.0071 1 35404 35404 1.4551 0.67859 1 37220 1869 23673 23746 41757 41757 -0.0006485119718036003 VYMDWYEKF 9 Unmodified _VYMDWYEKF_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF;ENST00000480242.1_1_2:96950056-96950410:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 640.7890014648438 2 640.78645 1279.55835 3.1134 0.001995 0.16223 0.00010396 3.2756 0.0020989 640.7865370728346 72.15 0.30775 72.15 71.98 72.288 0 76 28 3 0 0 0 0.011692 3 35079 35033;35079;35138 79.596 59.182 1 9591100 37221 3406 23674 23747 41758;41759;41760 41759 -0.0702505383985681 VYMDWYEKF 9 Unmodified _VYMDWYEKF_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF;ENST00000480242.1_1_2:96950056-96950410:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 640.7884521484375 2 640.78645 1279.55835 3.0417 0.001949 0.249 0.00015955 3.2906 0.0021086 640.786702248176 71.135 0.23484 71.839 71.727 71.962 0.70386 87 30 4 0 0 0 0.035495 2 34182 34129;34182 53.404 40.362 1 8944000 37222 3406 23674 23747 41761;41762 41762 -0.0702505383985681 VYMDWYEKF 9 Unmodified _VYMDWYEKF_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF;ENST00000480242.1_1_2:96950056-96950410:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 640.7869262695312 2 640.78645 1279.55835 3.5195 0.0022552 -0.066309 -4.249E-05 3.4532 0.0022128 640.7860338986322 71.878 0.23071 72.136 72.041 72.272 0.25785 48 20 3 0 0 0 0.049036 2 32957 32957;33013 47.594 36.1 1 4241200 37223 3406 23674 23747 41763;41764 41763 -0.0702505383985681 VYMDWYEKF 9 Unmodified _VYMDWYEKF_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF;ENST00000480242.1_1_2:96950056-96950410:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 640.7881469726562 2 640.78645 1279.55835 3.2916 0.0021092 -0.39978 -0.00025618 2.8918 0.001853 640.7864115163351 71.525 0.34144 72.188 72.051 72.393 0.66324 67 20 4 0 0 0 0.0061394 3 32793 32741;32793;32837 89.401 73.554 1 2628700 37224 3406 23674 23747 41765;41766;41767 41766 -0.0702505383985681 VYMDWYEKF 9 Oxidation (M) _VYM(Oxidation (M))DWYEKF_ VYM(1)DWYEKF VYM(86)DWYEKF 0 0 1 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF;ENST00000480242.1_1_2:96950056-96950410:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 648.7859497070312 2 648.783907 1295.55326 3.735 0.0024232 -0.11155 -7.2374E-05 3.6234 0.0023508 648.7839023734193 62.204 0.18589 62.454 62.318 62.503 0.24965 16 7 3 0 0 0 0.0076144 1 28475 28475 86.332 75.508 1 794940 37225 3406 23674 23748 41768 41768 49 -0.08269357702488378 VYMDWYEKF 9 Oxidation (M) _VYM(Oxidation (M))DWYEKF_ VYM(1)DWYEKF VYM(80)DWYEKF 0 0 1 ENSG00000144028|ENST00000323853|SNRNP200;ENST00000497539.5_1_2:96940752-96950410:-|nuORF;ENST00000480242.1_1_2:96950056-96950410:-|nuORF ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 648.7867431640625 2 648.783907 1295.55326 3.8278 0.0024834 0.04599 2.9838E-05 3.8738 0.0025133 648.7835533184845 61.608 0.15095 62.268 62.134 62.285 0.66008 14 6 3 0 0 0 0.011692 1 28210 28210 79.596 60.339 1 1000900 37226 3406 23674 23748 41769 41769 49 -0.08269357702488378 VYMELSQKL 9 Unmodified _VYMELSQKL_ 0 0 0 ENSG00000139926|ENST00000344768|FRMD6;nc|ENSG00000139926|Q96NE9-2|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.7990112304688 2 555.796817 1109.57908 3.4566 0.0019211 -0.34737 -0.00019307 3.1092 0.0017281 555.7967573390032 52.608 0.30186 52.608 52.467 52.769 0 82 27 4 0 0 0 3.3938E-05 2 24063 24063;24106 139.14 68.005 1 4090500 37227 3172 23675 23749 41770;41771 41770 0.028675365398157737 VYMELSQKL 9 Unmodified _VYMELSQKL_ 0 0 0 ENSG00000139926|ENST00000344768|FRMD6;nc|ENSG00000139926|Q96NE9-2|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 555.7986450195312 2 555.796817 1109.57908 2.6989 0.0015001 0.4895 0.00027206 3.1884 0.0017721 555.7971272038892 51.599 0.28922 52.417 52.274 52.563 0.81738 53 16 4 0 0 0 0.0013204 2 23532 23488;23532 118.89 57.537 1 4690600 37228 3172 23675 23749 41772;41773 41773 0.028675365398157737 VYMELSQKL 9 Unmodified _VYMELSQKL_ 0 0 0 ENSG00000139926|ENST00000344768|FRMD6;nc|ENSG00000139926|Q96NE9-2|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.7989501953125 2 555.796817 1109.57908 3.5572 0.0019771 0.12977 7.2127E-05 3.6869 0.0020492 555.7969476359938 52.437 0.22467 52.701 52.575 52.8 0.26345 20 9 3 0 0 0 0.0012766 2 23950 23950;24007 122.18 67.406 1 1358200 37229 3172 23675 23749 41774;41775 41774 0.028675365398157737 VYMELSQKL 9 Unmodified _VYMELSQKL_ 0 0 0 ENSG00000139926|ENST00000344768|FRMD6;nc|ENSG00000139926|Q96NE9-2|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.799560546875 2 555.796817 1109.57908 3.3334 0.0018527 0.27428 0.00015244 3.6077 0.0020051 555.7971352933422 51.887 0.28302 52.549 52.448 52.731 0.66198 36 15 3 0 0 0 0.0013204 2 23729 23729;23778 118.89 47.761 1 1039700 37230 3172 23675 23749 41776;41777 41776 0.028675365398157737 VYMMVTTMLL 10 Unmodified _VYMMVTTMLL_ 0 0 0 REV__ENST00000505992.1_1_4:99806121-99806199:-|nuORF REV__ENST00000505992.1_1_4:99806121-99806199:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 601.808837890625 2 601.305106 1200.59566 4.0781 0.0024522 -2.1142 -0.0012713 1.9639 0.0011809 601.8051463658935 90.09 0.21713 90.342 90.221 90.438 0.25137 12 8 2 0 0 0 0.73282 1 41431 41431 11.64 3.7301 1 308140 + 37231 16927 23676 23750 41778 41778 0.0033857810990411963 VYMMVTTMLL 10 Unmodified _VYMMVTTMLL_ 0 0 0 REV__ENST00000505992.1_1_4:99806121-99806199:-|nuORF REV__ENST00000505992.1_1_4:99806121-99806199:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 601.305106 1200.59566 4.0781 0.0024522 -2.1142 -0.0012713 1.9639 0.0011809 601.8051463658935 90.09 0.21713 90.342 90.221 90.438 0.25137 0.066622 0.00011469 NaN 11.64 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 308140 + 37232 16927 23676 23750 0.0033857810990411963 VYMMVTTMLL 10 Unmodified _VYMMVTTMLL_ 0 0 0 REV__ENST00000505992.1_1_4:99806121-99806199:-|nuORF REV__ENST00000505992.1_1_4:99806121-99806199:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 601.305106 1200.59566 4.0771 0.0024516 -2.3131 -0.0013909 1.7639 0.0010607 601.8053076010493 89.53 0.21632 90.208 90.055 90.271 0.67818 -0.066622 -0.00012451 NaN 11.64 14 10 2 NaN NaN NaN NaN 0 NaN NaN 0 401450 + 37233 16927 23676 23750 0.0033857810990411963 VYNENLVHMI 10 Unmodified _VYNENLVHMI_ 0 0 0 ENST00000425064.1_1_1:100858662-100858893:-|nuORF;ENSG00000116752|ENST00000369541|BCAS2 ENST00000425064.1_1_1:100858662-100858893:-|nuORF ENST00000425064.1_1_1:100858662-100858893:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 616.3121337890625 2 616.310623 1230.60669 3.5058 0.0021606 -1.0077 -0.00062106 2.498 0.0015396 616.3101766447163 60.85 0.17671 60.85 60.775 60.952 0 43 18 3 0 0 0 0.019429 1 28318 28318 76.825 31.085 1 4632100 37234 2048 23677 23751 41779 41779 0.0006143980008346261 VYNENLVHMI 10 Unmodified _VYNENLVHMI_ 0 0 0 ENST00000425064.1_1_1:100858662-100858893:-|nuORF;ENSG00000116752|ENST00000369541|BCAS2 ENST00000425064.1_1_1:100858662-100858893:-|nuORF ENST00000425064.1_1_1:100858662-100858893:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.313232421875 2 616.310623 1230.60669 3.0071 0.0018533 -0.81623 -0.00050305 2.1908 0.0013502 616.3104113882899 59.861 0.25568 60.611 60.454 60.709 0.74927 55 28 3 0 0 0 0.0027159 1 27485 27485 96.367 56.417 1 9011800 37235 2048 23677 23751 41780 41780 0.0006143980008346261 VYNENLVHMI 10 Unmodified _VYNENLVHMI_ 0 0 0 ENST00000425064.1_1_1:100858662-100858893:-|nuORF;ENSG00000116752|ENST00000369541|BCAS2 ENST00000425064.1_1_1:100858662-100858893:-|nuORF ENST00000425064.1_1_1:100858662-100858893:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 616.3120727539062 2 616.310623 1230.60669 3.6195 0.0022307 0.64515 0.00039761 4.2646 0.0026283 616.310262772952 60.817 0.31081 61.073 60.916 61.227 0.25578 50 14 4 0 0 0 0.0019162 2 27872 27820;27872 100.09 65.689 1 3891900 37236 2048 23677 23751 41781;41782 41782 0.0006143980008346261 VYNENLVHMI 10 Unmodified _VYNENLVHMI_ 0 0 0 ENST00000425064.1_1_1:100858662-100858893:-|nuORF;ENSG00000116752|ENST00000369541|BCAS2 ENST00000425064.1_1_1:100858662-100858893:-|nuORF ENST00000425064.1_1_1:100858662-100858893:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 616.3131103515625 2 616.310623 1230.60669 3.6186 0.0022302 0.91408 0.00056335 4.5327 0.0027935 616.3103877055942 60.227 0.27299 60.892 60.763 61.036 0.66503 59 16 5 0 0 0 0.014734 2 27546 27546;27593 86.332 51.93 1 3332000 37237 2048 23677 23751 41783;41784 41783 0.0006143980008346261 VYNENLVHMI 10 Oxidation (M) _VYNENLVHM(Oxidation (M))I_ VYNENLVHM(1)I VYNENLVHM(48)I 0 0 1 ENST00000425064.1_1_1:100858662-100858893:-|nuORF;ENSG00000116752|ENST00000369541|BCAS2 ENST00000425064.1_1_1:100858662-100858893:-|nuORF ENST00000425064.1_1_1:100858662-100858893:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 624.3095703125 2 624.308081 1246.60161 3.3894 0.002116 -1.0723 -0.00066943 2.3171 0.0014466 624.3069639982004 45.563 0.18419 46.389 46.256 46.441 0.82621 16 10 2 0 0 0 0.13545 1 20738 20738 47.749 26.159 1 369350 37238 2048 23677 23752 41785 41785 20 -0.011828640625481057 VYNENLVHMI 10 Oxidation (M) _VYNENLVHM(Oxidation (M))I_ VYNENLVHM(1)I VYNENLVHM(64)I 0 0 1 ENST00000425064.1_1_1:100858662-100858893:-|nuORF;ENSG00000116752|ENST00000369541|BCAS2 ENST00000425064.1_1_1:100858662-100858893:-|nuORF ENST00000425064.1_1_1:100858662-100858893:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 624.3101196289062 2 624.308081 1246.60161 3.8078 0.0023772 -1.4194 -0.00088614 2.3884 0.0014911 624.3069172001859 46.433 0.16447 46.699 46.62 46.785 0.26561 10 5 2 0 0 0 0.04318 1 21236 21236 63.961 32.692 1 552110 37239 2048 23677 23752 41786 41786 20 -0.011828640625481057 VYNENLVHMI 10 Oxidation (M) _VYNENLVHM(Oxidation (M))I_ VYNENLVHM(1)I VYNENLVHM(56)I 0 0 1 ENST00000425064.1_1_1:100858662-100858893:-|nuORF;ENSG00000116752|ENST00000369541|BCAS2 ENST00000425064.1_1_1:100858662-100858893:-|nuORF ENST00000425064.1_1_1:100858662-100858893:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 624.3099365234375 2 624.308081 1246.60161 4.03 0.0025159 -1.1932 -0.00074492 2.8368 0.001771 624.3075304655148 45.867 0.24046 46.518 46.36 46.6 0.65104 13 7 2 0 0 0 0.075518 1 21038 21038 56.177 21.245 1 570130 37240 2048 23677 23752 41787 41787 20 -0.011828640625481057 VYNHRTLE 8 Unmodified _VYNHRTLE_ 0 0 0 REV__ENSG00000114841|ENST00000420323|DNAH1 REV__ENSG00000114841|ENST00000420323|DNAH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.2691040039062 2 516.267073 1030.51959 3.2372 0.0016712 0.59396 0.00030664 3.8311 0.0019779 516.2671166613785 48.271 0.15004 48.271 48.139 48.289 0 9 5 2 0 0 0 0.5438 1 22095 22095 18.135 5.8943 1 450310 + 37241 11333 23678 23753 41788 41788 0.0055540164069043385 VYNIHLAVNF 10 Unmodified _VYNIHLAVNF_ 0 0 0 ENST00000478340.2_1_6:35437033-35438524:+|nuORF;ENSG00000198755|ENST00000322203|RPL10A;ENST00000464112.5_1_6:35436546-35438524:+|nuORF;ENST00000472730.1_1_3:61728131-61728755:-|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF ENST00000478340.2_1_6:35437033-35438524:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 595.7014770507812 2 595.321848 1188.62914 NaN NaN NaN NaN NaN NaN NaN 71.199 1 71.199 70.699 71.699 0 0 0 0 0.91986 1 34601 34601 18.146 7.3224 1 37242 5930 23679 23754 41789 41789 0.04237407260006876 VYNKVHITL 9 Unmodified _VYNKVHITL_ 0 0 0 ENSG00000166228|ENST00000299299|PCBD1;ENST00000493228.1_1_10:72643709-72647885:-|nuORF ENSG00000166228|ENST00000299299|PCBD1 ENSG00000166228|ENST00000299299|PCBD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 362.8828430175781 3 362.88172 1085.62333 2.7026 0.00098073 0.022026 7.9928E-06 2.7246 0.00098872 362.8816663511331 40.064 0.38054 40.064 39.845 40.225 0 38 14 4 0 0 0 0.063575 1 18161 18161 38.615 18.2 1 1969000 37243 4463 23680 23755 41790 41790 0.08394308748324875 VYNKVHITL 9 Unmodified _VYNKVHITL_ 0 0 0 ENSG00000166228|ENST00000299299|PCBD1;ENST00000493228.1_1_10:72643709-72647885:-|nuORF ENSG00000166228|ENST00000299299|PCBD1 ENSG00000166228|ENST00000299299|PCBD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.822021484375 2 543.818941 1085.62333 3.5538 0.0019326 0.55799 0.00030345 4.1118 0.002236 543.8193160518242 40.041 0.27149 40.041 39.9 40.172 0 23 10 3 0 0 0 0.0027913 2 18162 18162;18228 96.367 56.417 1 635290 37244 4463 23680 23755 41791;41792 41791 0.08394308748324875 VYNKVHITL 9 Unmodified _VYNKVHITL_ 0 0 0 ENSG00000166228|ENST00000299299|PCBD1;ENST00000493228.1_1_10:72643709-72647885:-|nuORF ENSG00000166228|ENST00000299299|PCBD1 ENSG00000166228|ENST00000299299|PCBD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.88226318359375 3 362.88172 1085.62333 2.4027 0.00087189 -0.1184 -4.2966E-05 2.2843 0.00082892 362.8815735285905 38.936 0.38261 39.734 39.534 39.917 0.79762 49 18 3 0 0 0 0.043585 2 17607 17607;17644 38.615 14.825 1 1632800 37245 4463 23680 23755 41793;41794 41793 0.08394308748324875 VYNKVHITL 9 Unmodified _VYNKVHITL_ 0 0 0 ENSG00000166228|ENST00000299299|PCBD1;ENST00000493228.1_1_10:72643709-72647885:-|nuORF ENSG00000166228|ENST00000299299|PCBD1 ENSG00000166228|ENST00000299299|PCBD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.82080078125 2 543.818941 1085.62333 3.4739 0.0018892 0.98982 0.00053828 4.4637 0.0024275 543.8192768163678 39.787 0.23388 40.054 39.934 40.168 0.26696 12 7 2 0 0 0 0.053453 1 18095 18095 45.7 27.553 1 273790 37246 4463 23680 23755 41795 41795 0.08394308748324875 VYNKVHITL 9 Unmodified _VYNKVHITL_ 0 0 0 ENSG00000166228|ENST00000299299|PCBD1;ENST00000493228.1_1_10:72643709-72647885:-|nuORF ENSG00000166228|ENST00000299299|PCBD1 ENSG00000166228|ENST00000299299|PCBD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.8211669921875 2 543.818941 1085.62333 NaN NaN NaN NaN NaN NaN NaN 39.397 1 40.035 39.535 40.535 0.63778 0 0 0 0.088893 1 18005 18005 43.772 17.504 1 37247 4463 23680 23755 41796 41796 0.08394308748324875 VYNKVHITL 9 Unmodified _VYNKVHITL_ 0 0 0 ENSG00000166228|ENST00000299299|PCBD1;ENST00000493228.1_1_10:72643709-72647885:-|nuORF ENSG00000166228|ENST00000299299|PCBD1 ENSG00000166228|ENST00000299299|PCBD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 543.818941 1085.62333 3.159 0.0017179 0.33808 0.00018386 3.4971 0.0019018 543.8190040384831 38.915 0.28195 39.713 39.558 39.84 0.79762 -0.22309 -0.00027228 NaN 96.367 33 13 3 NaN NaN NaN NaN 0 NaN NaN 0 418160 37248 4463 23680 23755 0.08394308748324875 VYNKVHITL 9 Unmodified _VYNKVHITL_ 0 0 0 ENSG00000166228|ENST00000299299|PCBD1;ENST00000493228.1_1_10:72643709-72647885:-|nuORF ENSG00000166228|ENST00000299299|PCBD1 ENSG00000166228|ENST00000299299|PCBD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 362.88172 1085.62333 2.676 0.00097108 0.40784 0.000148 3.0839 0.0011191 362.8817789709091 39.792 0.29298 40.059 39.906 40.199 0.26696 0.094183 0.00025723 NaN 38.615 22 9 3 NaN NaN NaN NaN 0 NaN NaN 0 789830 37249 4463 23680 23755 0.08394308748324875 VYNKVHITL 9 Unmodified _VYNKVHITL_ 0 0 0 ENSG00000166228|ENST00000299299|PCBD1;ENST00000493228.1_1_10:72643709-72647885:-|nuORF ENSG00000166228|ENST00000299299|PCBD1 ENSG00000166228|ENST00000299299|PCBD1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 362.88172 1085.62333 2.6722 0.00096968 0.47857 0.00017367 3.1507 0.0011433 362.881878338444 39.365 0.30645 40.003 39.831 40.137 0.63778 0.037938 0.00033423 NaN 38.615 20 10 3 NaN NaN NaN NaN 0 NaN NaN 0 635080 37250 4463 23680 23755 0.08394308748324875 VYNNIMRHYL 10 Unmodified _VYNNIMRHYL_ 0 0 0 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 441.5618591308594 3 441.560652 1321.66013 3.073 0.0013569 -0.40402 -0.0001784 2.669 0.0011785 441.56068664431245 47.272 0.34902 47.535 47.398 47.747 0.26363 32 14 3 0 0 0 0.22696 1 21612 21612 24.882 21.036 1 521190 37251 1956 23681 23756 41797 41797 0.012162373025830675 VYNNIMRHYL 10 Unmodified _VYNNIMRHYL_ 0 0 0 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 ENSG00000115267|ENST00000649979|IFIH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.5620422363281 3 441.560652 1321.66013 3.1495 0.0013907 -0.14518 -6.4105E-05 3.0043 0.0013266 441.56064840782716 46.787 0.3112 47.439 47.226 47.537 0.65219 22 9 3 0 0 0 0.16336 1 21426 21426 37.075 28.919 1 667990 37252 1956 23681 23756 41798 41798 0.012162373025830675 VYNPELDKW 9 Unmodified _VYNPELDKW_ 0 0 0 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 582.2922973632812 2 582.290214 1162.56587 3.7967 0.0022108 -0.094307 -5.4914E-05 3.7024 0.0021559 582.2901663709089 51.231 0.26896 51.231 51.113 51.382 0 31 13 3 0 0 0 0.0095519 2 23444 23444;23501 82.529 36.83 1 1302200 37253 5171 23682 23757 41799;41800 41799 -0.008905782479359914 VYNPELDKW 9 Unmodified _VYNPELDKW_ 0 0 0 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.291748046875 2 582.290214 1162.56587 3.243 0.0018884 0.20254 0.00011794 3.4456 0.0020063 582.2903492829369 50.298 0.25525 51.121 50.989 51.244 0.82285 30 13 3 0 0 0 0.023321 2 22896 22896;22956 63.961 38.97 1 950650 37254 5171 23682 23757 41801;41802 41801 -0.008905782479359914 VYNPELDKW 9 Unmodified _VYNPELDKW_ 0 0 0 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.2955322265625 2 582.290214 1162.56587 3.2759 0.0019075 1.997 0.0011628 5.2729 0.0030703 582.2924568403517 51.298 0.15111 51.561 51.49 51.641 0.26228 8 6 2 0 0 0 0.049036 1 23444 23444 47.594 29.448 1 589290 37255 5171 23682 23757 41803 41803 -0.008905782479359914 VYNPELDKW 9 Unmodified _VYNPELDKW_ 0 0 0 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 ENSG00000178502|ENST00000319121|KLHL11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.2927856445312 2 582.290214 1162.56587 3.4566 0.0020128 0.91501 0.0005328 4.3716 0.0025456 582.2911058303537 50.72 0.19303 51.38 51.219 51.412 0.65956 14 8 2 0 0 0 0.030603 1 23174 23174 55.503 31.482 1 424240 37256 5171 23682 23757 41804 41804 -0.008905782479359914 VYNPHSDTW 9 Unmodified _VYNPHSDTW_ 0 0 0 ENSG00000197429|ENST00000396478|IPP ENSG00000197429|ENST00000396478|IPP ENSG00000197429|ENST00000396478|IPP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 559.75048828125 2 559.748713 1117.48287 3.4914 0.0019543 1.122 0.00062804 4.6134 0.0025824 559.7496345256945 32.425 0.23079 32.425 32.337 32.568 0 20 14 2 0 0 0 0.086415 1 14714 14714 36.127 22.221 1 182650 37257 5816 23683 23758 41805 41805 -0.07116894975911237 VYNPTPNSL 9 Unmodified _VYNPTPNSL_ 0 0 0 nc|ENSG00000111799|Q99715-2|COL12A1;nc|ENSG00000111799|Q99715-4|COL12A1;ENSG00000111799|ENST00000322507|COL12A1 nc|ENSG00000111799|Q99715-2|COL12A1 nc|ENSG00000111799|Q99715-2|COL12A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 502.7576904296875 2 502.756007 1003.49746 2.9606 0.0014885 0.79361 0.00039899 3.7542 0.0018875 502.7565810484423 43.521 0.26205 44.336 44.196 44.458 0.81444 20 11 2 0 0 0 0.057744 2 19843 19833;19843 43.858 24.11 1 394380 37258 1776 23684 23759 41806;41807 41807 -0.0041482282778133595 VYNPVIYVF 9 Unmodified _VYNPVIYVF_ 0 0 0 ENST00000462265.5_1_1:241755332-241761290:-|nuORF;ENST00000463155.5_1_1:241757732-241840646:-|nuORF;nc|ENSG00000203668|Q9H1Y3-2|OPN3;ENSG00000054277|ENST00000366554|OPN3 ENST00000462265.5_1_1:241755332-241761290:-|nuORF ENST00000462265.5_1_1:241755332-241761290:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.3033447265625 2 557.302593 1112.59063 4.0879 0.0022782 -0.076398 -4.2577E-05 4.0115 0.0022356 557.3024197403206 92.416 0.32802 92.669 92.473 92.801 0.25254 29 16 2 0 0 0 0.026068 2 42455 42455;42515 60.39 42.255 1 454890 37259 606 23685 23760 41808;41809 41808 0.03884101625453695 VYNPVIYVF 9 Unmodified _VYNPVIYVF_ 0 0 0 ENST00000462265.5_1_1:241755332-241761290:-|nuORF;ENST00000463155.5_1_1:241757732-241840646:-|nuORF;nc|ENSG00000203668|Q9H1Y3-2|OPN3;ENSG00000054277|ENST00000366554|OPN3 ENST00000462265.5_1_1:241755332-241761290:-|nuORF ENST00000462265.5_1_1:241755332-241761290:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.8045654296875 2 557.302593 1112.59063 3.7045 0.0020645 -0.88777 -0.00049476 2.8168 0.0015698 557.3021141573643 91.801 0.33409 92.463 92.308 92.642 0.66197 34 17 3 0 0 0 0.026068 2 42247 42247;42296 60.39 42.255 1 441840 37260 606 23685 23760 41810;41811 41810 0.03884101625453695 VYNPVRAEW 9 Unmodified _VYNPVRAEW_ 0 0 0 ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000165572|ENST00000379485|KBTBD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.2928466796875 2 567.290548 1132.56654 3.3842 0.0019198 0.71593 0.00040614 4.1002 0.002326 567.2909710840779 50.383 0.25839 50.383 50.227 50.485 0 19 10 2 0 0 0 0.063112 1 23055 23055 41.956 16.556 1 402450 37261 4409 23686 23761 41812 41812 0.005562611917866889 VYNPVRAEW 9 Unmodified _VYNPVRAEW_ 0 0 0 ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000165572|ENST00000379485|KBTBD6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.2930908203125 2 567.290548 1132.56654 3.4822 0.0019754 1.0622 0.00060257 4.5443 0.002578 567.2912430307717 50.282 0.18161 50.543 50.438 50.619 0.26146 7 5 2 0 0 0 0.10584 1 22990 22990 31.268 18.737 1 268870 37262 4409 23686 23761 41813 41813 0.005562611917866889 VYNPVRAEW 9 Unmodified _VYNPVRAEW_ 0 0 0 ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000165572|ENST00000379485|KBTBD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.292236328125 2 567.290548 1132.56654 NaN NaN NaN NaN NaN NaN NaN 49.725 1 50.383 49.883 50.883 0.65735 0 0 0 0.26309 1 22744 22744 28.495 17.671 1 37263 4409 23686 23761 41814 41814 0.005562611917866889 VYNPVRAEW 9 Unmodified _VYNPVRAEW_ 0 0 0 ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000165572|ENST00000379485|KBTBD6 ENSG00000165572|ENST00000379485|KBTBD6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 567.290548 1132.56654 3.5507 0.0020143 0.17027 9.6595E-05 3.7209 0.0021109 567.2904182391845 49.282 0.27916 50.109 50.027 50.306 0.82705 -0.23582 -0.00063101 NaN 41.956 23 12 2 NaN NaN NaN NaN 0 NaN NaN 0 290740 37264 4409 23686 23761 0.005562611917866889 VYNSEYYHF 9 Unmodified _VYNSEYYHF_ 0 0 0 ENST00000487673.5_1_6:43111066-43128616:+|nuORF;nc|ENSG00000112655|Q13308-3|PTK7;nc|ENSG00000112655|Q13308-4|PTK7;nc|ENSG00000112655|Q13308-2|PTK7;ENSG00000112655|ENST00000230419|PTK7;nc|ENSG00000112655|Q13308-6|PTK7 ENST00000487673.5_1_6:43111066-43128616:+|nuORF ENST00000487673.5_1_6:43111066-43128616:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 611.2654418945312 2 611.264196 1220.51384 3.5945 0.0021972 0.013688 8.3668E-06 3.6082 0.0022056 611.2641577648857 48.118 0.29164 48.118 47.978 48.269 0 32 12 3 0 0 0 0.015468 2 22008 22008;22065 74.423 57.48 1 1518800 37265 1815 23687 23762 41815;41816 41815 -0.08759741661674525 VYNSEYYHF 9 Unmodified _VYNSEYYHF_ 0 0 0 ENST00000487673.5_1_6:43111066-43128616:+|nuORF;nc|ENSG00000112655|Q13308-3|PTK7;nc|ENSG00000112655|Q13308-4|PTK7;nc|ENSG00000112655|Q13308-2|PTK7;ENSG00000112655|ENST00000230419|PTK7;nc|ENSG00000112655|Q13308-6|PTK7 ENST00000487673.5_1_6:43111066-43128616:+|nuORF ENST00000487673.5_1_6:43111066-43128616:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 611.2657470703125 2 611.264196 1220.51384 3.2163 0.001966 0.57002 0.00034843 3.7863 0.0023144 611.2646007429684 46.848 0.31379 47.677 47.528 47.842 0.82915 34 12 4 0 0 0 0.0080831 2 21339 21339;21392 85.357 68.414 1 1437200 37266 1815 23687 23762 41817;41818 41817 -0.08759741661674525 VYNSEYYHF 9 Unmodified _VYNSEYYHF_ 0 0 0 ENST00000487673.5_1_6:43111066-43128616:+|nuORF;nc|ENSG00000112655|Q13308-3|PTK7;nc|ENSG00000112655|Q13308-4|PTK7;nc|ENSG00000112655|Q13308-2|PTK7;ENSG00000112655|ENST00000230419|PTK7;nc|ENSG00000112655|Q13308-6|PTK7 ENST00000487673.5_1_6:43111066-43128616:+|nuORF ENST00000487673.5_1_6:43111066-43128616:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.7681884765625 2 611.264196 1220.51384 3.7125 0.0022693 0.65478 0.00040024 4.3672 0.0026695 611.2646904035739 48.293 0.31545 48.555 48.375 48.691 0.2621 28 19 2 0 0 0 0.023109 2 22064 22064;22115 64.236 48.389 1 1091800 37267 1815 23687 23762 41819;41820 41819 -0.08759741661674525 VYNSEYYHF 9 Unmodified _VYNSEYYHF_ 0 0 0 ENST00000487673.5_1_6:43111066-43128616:+|nuORF;nc|ENSG00000112655|Q13308-3|PTK7;nc|ENSG00000112655|Q13308-4|PTK7;nc|ENSG00000112655|Q13308-2|PTK7;ENSG00000112655|ENST00000230419|PTK7;nc|ENSG00000112655|Q13308-6|PTK7 ENST00000487673.5_1_6:43111066-43128616:+|nuORF ENST00000487673.5_1_6:43111066-43128616:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.7685546875 2 611.264196 1220.51384 3.6049 0.0022036 0.21245 0.00012986 3.8174 0.0023334 611.2644590339756 47.788 0.31102 48.442 48.275 48.586 0.65356 29 14 3 0 0 0 0.041436 2 21857 21857;21917 50.855 35.008 1 658060 37268 1815 23687 23762 41821;41822 41821 -0.08759741661674525 VYPANERFWYF 11 Unmodified _VYPANERFWYF_ 0 0 0 nc|ENSG00000152061|Q5R372-2|RABGAP1L;RABGAP1L|p.L752*|1|0.15|ENSG00000152061|chr1:174811873-174811873|T/-|frameshift_variant;nc|ENSG00000152061|Q5R372-4|RABGAP1L;nc|ENSG00000152061|Q5R372|RABGAP1L;nc|ENSG00000152061|Q5R372-3|RABGAP1L;ENSG00000152061|ENST00000681986|RABGAP1L nc|ENSG00000152061|Q5R372-2|RABGAP1L nc|ENSG00000152061|Q5R372-2|RABGAP1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 746.3530883789062 2 746.356419 1490.69829 NaN NaN NaN NaN NaN NaN NaN 77.068 1 77.629 77.129 78.129 0.56091 0 0 0 1.0044 1 37366 37366 4.897 3.4151 1 37269 3735 23688 23763 41823 41823 -0.027435535111180798 VYPDGIRHI 9 Unmodified _VYPDGIRHI_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3;ENST00000568291.2_1_16:70588380-70590279:+|nuORF ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.1988220214844 3 357.197819 1068.57163 2.7544 0.00098388 0.16599 5.9293E-05 2.9204 0.0010432 357.1978403246496 31.423 0.36271 31.423 31.284 31.647 0 107 32 4 0 0 0 0.0080831 3 14224 14177;14224;14267 66.457 42.667 1 10497000 37270 5704 23689 23764 41824;41825;41826 41825 0.04008565054414248 VYPDGIRHI 9 Unmodified _VYPDGIRHI_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3;ENST00000568291.2_1_16:70588380-70590279:+|nuORF ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 535.2944946289062 2 535.293091 1068.57163 3.2228 0.0017252 0.1175 6.2899E-05 3.3403 0.0017881 535.2931559270894 31.422 0.33068 31.422 31.284 31.615 0 69 29 3 0 0 0 0.0046538 2 14231 14178;14231 92.491 60.186 1 2712100 37271 5704 23689 23764 41827;41828 41828 0.04008565054414248 VYPDGIRHI 9 Unmodified _VYPDGIRHI_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3;ENST00000568291.2_1_16:70588380-70590279:+|nuORF ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 357.19891357421875 3 357.197819 1068.57163 2.4868 0.00088828 0.2507 8.9551E-05 2.7375 0.00097783 357.1979115440862 30.528 0.45222 31.317 31.05 31.502 0.78921 127 36 4 0 0 0 0.0080831 4 13759 13714;13759;13807;13854 75.761 51.971 1 8060000 37272 5704 23689 23764 41829;41830;41831;41832 41830 0.04008565054414248 VYPDGIRHI 9 Unmodified _VYPDGIRHI_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3;ENST00000568291.2_1_16:70588380-70590279:+|nuORF ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 535.2946166992188 2 535.293091 1068.57163 3.21 0.0017183 0.010118 5.416E-06 3.2201 0.0017237 535.2930543698224 30.528 0.3759 31.317 31.09 31.466 0.78921 83 29 4 0 0 0 0.010018 3 13782 13732;13782;13832 81.89 53.403 1 2071100 37273 5704 23689 23764 41833;41834;41835 41834 0.04008565054414248 VYPDGIRHI 9 Unmodified _VYPDGIRHI_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3;ENST00000568291.2_1_16:70588380-70590279:+|nuORF ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.2950439453125 2 535.293091 1068.57163 3.5145 0.0018813 -0.091427 -4.894E-05 3.423 0.0018323 535.2929432336357 31.281 0.3353 31.537 31.366 31.701 0.25614 53 23 3 0 0 0 0.048676 2 14264 14211;14264 47.749 15.443 1 2121800 37274 5704 23689 23764 41836;41837 41837 0.04008565054414248 VYPDGIRHI 9 Unmodified _VYPDGIRHI_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3;ENST00000568291.2_1_16:70588380-70590279:+|nuORF ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.19873046875 3 357.197819 1068.57163 3.1082 0.0011102 0.10796 3.8564E-05 3.2162 0.0011488 357.19781113889417 31.28 0.47417 31.537 31.337 31.811 0.25614 109 34 5 0 0 0 0.0080831 2 14215 14215;14271 66.457 42.667 1 8043800 37275 5704 23689 23764 41838;41839 41838 0.04008565054414248 VYPDGIRHI 9 Unmodified _VYPDGIRHI_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3;ENST00000568291.2_1_16:70588380-70590279:+|nuORF ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 535.294677734375 2 535.293091 1068.57163 3.2352 0.0017318 -0.085226 -4.5621E-05 3.1499 0.0016861 535.2929934739766 30.791 0.35446 31.408 31.27 31.625 0.61736 58 20 4 0 0 0 0.020151 2 14146 14096;14146 68.081 31.954 1 1880800 37276 5704 23689 23764 41840;41841 41841 0.04008565054414248 VYPDGIRHI 9 Unmodified _VYPDGIRHI_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3;ENST00000568291.2_1_16:70588380-70590279:+|nuORF ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.19879150390625 3 357.197819 1068.57163 2.5141 0.00089804 0.46566 0.00016633 2.9798 0.0010644 357.19791053047715 30.797 0.51754 31.414 31.234 31.752 0.61737 89 32 4 0 0 0 0.0080831 2 14109 14109;14159 66.457 42.667 1 5993600 37277 5704 23689 23764 41842;41843 41842 0.04008565054414248 VYPEKLATKF 10 Unmodified _VYPEKLATKF_ 0 0 0 ENSG00000136813|ENST00000684092|ECPAS;nc|ENSG00000136813|Q5VYK3|ECPAS ENSG00000136813|ENST00000684092|ECPAS ENSG00000136813|ENST00000684092|ECPAS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 598.3443603515625 2 598.339707 1194.66486 3.3685 0.0020155 1.0586 0.00063338 4.427 0.0026489 598.3403366910625 39.139 0.29327 39.139 38.962 39.255 0 16 10 2 0 0 0 0.26638 2 17757 17757;17793 35.612 20.774 1 522520 37278 2975 23690 23765 41844;41845 41844 0.07531444716960323 VYPEKLATKF 10 Unmodified _VYPEKLATKF_ 0 0 0 ENSG00000136813|ENST00000684092|ECPAS;nc|ENSG00000136813|Q5VYK3|ECPAS ENSG00000136813|ENST00000684092|ECPAS ENSG00000136813|ENST00000684092|ECPAS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.56427001953125 3 399.228897 1194.66486 2.6491 0.0010576 0.326 0.00013015 2.9751 0.0011877 399.2291034484636 39.165 0.40851 39.165 38.942 39.35 0 31 15 3 0 0 0 0.53087 1 17791 17791 19.987 2.1237 1 1026600 37279 2975 23690 23765 41846 41846 0.07531444716960323 VYPEKLATKF 10 Unmodified _VYPEKLATKF_ 0 0 0 ENSG00000136813|ENST00000684092|ECPAS;nc|ENSG00000136813|Q5VYK3|ECPAS ENSG00000136813|ENST00000684092|ECPAS ENSG00000136813|ENST00000684092|ECPAS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.2305603027344 3 399.228897 1194.66486 2.6374 0.0010529 1.05 0.00041919 3.6874 0.0014721 399.229320518606 38.002 0.26689 38.798 38.637 38.904 0.79552 22 8 3 0 0 0 0.24644 1 17204 17204 33.821 20.303 1 1010600 37280 2975 23690 23765 41847 41847 0.07531444716960323 VYPEKLATKF 10 Unmodified _VYPEKLATKF_ 0 0 0 ENSG00000136813|ENST00000684092|ECPAS;nc|ENSG00000136813|Q5VYK3|ECPAS ENSG00000136813|ENST00000684092|ECPAS ENSG00000136813|ENST00000684092|ECPAS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.3426513671875 2 598.339707 1194.66486 3.5954 0.0021513 0.52314 0.00031302 4.1185 0.0024643 598.3398061125931 38.842 0.28463 39.106 38.952 39.236 0.26408 16 10 2 0 0 0 0.65085 1 17683 17683 22.658 13.275 1 458390 37281 2975 23690 23765 41848 41848 0.07531444716960323 VYPEKLATKF 10 Unmodified _VYPEKLATKF_ 0 0 0 ENSG00000136813|ENST00000684092|ECPAS;nc|ENSG00000136813|Q5VYK3|ECPAS ENSG00000136813|ENST00000684092|ECPAS ENSG00000136813|ENST00000684092|ECPAS MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 598.3414916992188 2 598.339707 1194.66486 3.9154 0.0023428 0.15251 9.125E-05 4.0679 0.002434 598.3395717381954 38.467 0.32097 39.1 38.894 39.215 0.63389 24 11 3 0 0 0 0.733 1 17581 17581 17.443 10.719 1 288800 37282 2975 23690 23765 41849 41849 0.07531444716960323 VYPEKLATKF 10 Unmodified _VYPEKLATKF_ 0 0 0 ENSG00000136813|ENST00000684092|ECPAS;nc|ENSG00000136813|Q5VYK3|ECPAS ENSG00000136813|ENST00000684092|ECPAS ENSG00000136813|ENST00000684092|ECPAS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 598.339707 1194.66486 3.4975 0.0020927 -0.065167 -3.8992E-05 3.4323 0.0020537 598.3403813165628 37.973 0.27345 38.769 38.663 38.936 0.79552 -0.25985 -0.00059112 NaN 35.612 16 8 3 NaN NaN NaN NaN 0 NaN NaN 0 330650 37283 2975 23690 23765 0.07531444716960323 VYPEKLATKF 10 Unmodified _VYPEKLATKF_ 0 0 0 ENSG00000136813|ENST00000684092|ECPAS;nc|ENSG00000136813|Q5VYK3|ECPAS ENSG00000136813|ENST00000684092|ECPAS ENSG00000136813|ENST00000684092|ECPAS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 399.228897 1194.66486 2.8539 0.0011393 0.50093 0.00019998 3.3548 0.0013393 399.22909454350787 38.883 0.33868 39.147 38.916 39.255 0.26408 0.10654 -0.00023534 NaN 33.821 22 13 2 NaN NaN NaN NaN 0 NaN NaN 0 787480 37284 2975 23690 23765 0.07531444716960323 VYPEKLATKF 10 Unmodified _VYPEKLATKF_ 0 0 0 ENSG00000136813|ENST00000684092|ECPAS;nc|ENSG00000136813|Q5VYK3|ECPAS ENSG00000136813|ENST00000684092|ECPAS ENSG00000136813|ENST00000684092|ECPAS MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 399.228897 1194.66486 2.8251 0.0011279 0.75934 0.00030315 3.5844 0.001431 399.2292723426647 38.417 0.43068 39.051 38.841 39.272 0.63388 0.010991 7.416E-05 NaN 33.821 37 17 3 NaN NaN NaN NaN 0 NaN NaN 0 485680 37285 2975 23690 23765 0.07531444716960323 VYPERTPLL 9 Unmodified _VYPERTPLL_ 0 0 0 ENST00000475235.1_1_6:32782088-32784728:-|nuORF;ENSG00000241106|ENST00000438763|HLA-DOB ENST00000475235.1_1_6:32782088-32784728:-|nuORF ENST00000475235.1_1_6:32782088-32784728:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.3121337890625 2 544.310949 1086.60735 3.4898 0.0018995 -0.17155 -9.3379E-05 3.3183 0.0018062 544.3107150764004 49.59 0.36204 49.852 49.645 50.007 0.26146 27 14 2 0 0 0 0.41574 1 22696 22696 13.906 3.0821 1 607970 37286 6221 23691 23766 41850 41850 0.06750602511442594 VYPERTPLL 9 Unmodified _VYPERTPLL_ 0 0 0 ENST00000475235.1_1_6:32782088-32784728:-|nuORF;ENSG00000241106|ENST00000438763|HLA-DOB ENST00000475235.1_1_6:32782088-32784728:-|nuORF ENST00000475235.1_1_6:32782088-32784728:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.3134155273438 2 544.310949 1086.60735 3.5816 0.0019495 -0.046794 -2.5471E-05 3.5348 0.0019241 544.3109145315174 49.049 0.29261 49.704 49.525 49.818 0.65524 18 10 2 0 0 0 0.11155 1 22435 22435 29.841 10.584 1 713730 37287 6221 23691 23766 41851 41851 0.06750602511442594 VYPESIPRKF 10 Unmodified _VYPESIPRKF_ 0 0 0 nc|ENSG00000147231|Q6NSI4-3|RADX;nc|ENSG00000147231|Q6NSI4-4|RADX;ENSG00000147231|ENST00000372548|RADX nc|ENSG00000147231|Q6NSI4-3|RADX nc|ENSG00000147231|Q6NSI4-3|RADX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 412.5655517578125 3 412.564279 1234.67101 2.764 0.0011403 0.31334 0.00012927 3.0773 0.0012696 412.5643625180283 39.491 0.27549 39.491 39.297 39.572 0 15 9 2 0 0 0 0.25425 1 17922 17922 32.898 24.453 1 628010 37288 3554 23692 23767 41852 41852 0.06305962948522392 VYPESIPRKF 10 Unmodified _VYPESIPRKF_ 0 0 0 nc|ENSG00000147231|Q6NSI4-3|RADX;nc|ENSG00000147231|Q6NSI4-4|RADX;ENSG00000147231|ENST00000372548|RADX nc|ENSG00000147231|Q6NSI4-3|RADX nc|ENSG00000147231|Q6NSI4-3|RADX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 412.8996887207031 3 412.564279 1234.67101 2.7013 0.0011145 0.24787 0.00010226 2.9492 0.0012167 412.56439963936356 38.257 0.24467 39.052 38.871 39.115 0.79552 22 8 3 0 0 0 0.25425 1 17317 17317 32.898 24.453 1 517790 37289 3554 23692 23767 41853 41853 0.06305962948522392 VYPESIPRKF 10 Unmodified _VYPESIPRKF_ 0 0 0 nc|ENSG00000147231|Q6NSI4-3|RADX;nc|ENSG00000147231|Q6NSI4-4|RADX;ENSG00000147231|ENST00000372548|RADX nc|ENSG00000147231|Q6NSI4-3|RADX nc|ENSG00000147231|Q6NSI4-3|RADX MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 412.5650329589844 3 412.564279 1234.67101 2.8887 0.0011918 -0.13763 -5.6782E-05 2.7511 0.001135 412.5641911943722 39.226 0.32277 39.493 39.319 39.642 0.26667 23 11 3 0 0 0 0.58817 1 17876 17876 17.863 12.46 1 232760 37290 3554 23692 23767 41854 41854 0.06305962948522392 VYPESIPRKF 10 Unmodified _VYPESIPRKF_ 0 0 0 nc|ENSG00000147231|Q6NSI4-3|RADX;nc|ENSG00000147231|Q6NSI4-4|RADX;ENSG00000147231|ENST00000372548|RADX nc|ENSG00000147231|Q6NSI4-3|RADX nc|ENSG00000147231|Q6NSI4-3|RADX MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 412.564279 1234.67101 2.9747 0.0012273 -0.10463 -4.3168E-05 2.8701 0.0011841 412.5641202239888 38.87 0.27711 39.508 39.34 39.617 0.63778 0.010522 -0.00020793 NaN 32.898 20 9 3 NaN NaN NaN NaN 0 NaN NaN 0 168780 37291 3554 23692 23767 0.06305962948522392 VYPEYVIQY 9 Unmodified _VYPEYVIQY_ 0 0 0 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.2965698242188 2 587.294965 1172.57538 2.7024 0.0015871 0.92014 0.00054039 3.6225 0.0021275 587.2954202174741 67.871 0.14177 68.573 68.534 68.676 0.70218 25 17 2 0 0 0 0.22507 1 32329 32329 21.747 11.673 1 1820800 37292 635 23693 23768 41855 41855 -0.00400809962366111 VYPEYVIQY 9 Unmodified _VYPEYVIQY_ 0 0 0 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.2978515625 2 587.294965 1172.57538 3.8083 0.0022366 -0.037538 -2.2046E-05 3.7707 0.0022145 587.2949183075458 68.647 0.3767 68.899 68.718 69.094 0.25227 89 26 5 0 0 0 0.0023685 3 31454 31407;31454;31503 100.37 55.964 1 6225500 37293 635 23693 23768 41856;41857;41858 41857 -0.00400809962366111 VYPEYVIQY 9 Unmodified _VYPEYVIQY_ 0 0 0 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1173.5865478515625 1 1173.58265 1172.57538 3.4708 0.0040732 0.065258 7.6586E-05 3.536 0.0041498 1173.5823186927917 68.631 0.19543 68.883 68.793 68.989 0.25227 20 12 2 0 0 0 0.54955 2 31427 31427;31472 11.64 4.3511 1 630620 37294 635 23693 23768 41859;41860 41859 -0.00400809962366111 VYPEYVIQY 9 Unmodified _VYPEYVIQY_ 0 0 0 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.2974243164062 2 587.294965 1172.57538 3.433 0.0020162 0.3011 0.00017683 3.7341 0.002193 587.2950479674714 68.133 0.3399 68.793 68.647 68.987 0.65925 77 22 4 0 0 0 0.0046538 4 31219 31176;31219;31260;31310 92.491 44.497 1 6671200 37295 635 23693 23768 41861;41862;41863;41864 41862 -0.00400809962366111 VYPEYVIQY 9 Unmodified _VYPEYVIQY_ 0 0 0 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 ENSG00000059378|ENST00000263549|PARP12 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1173.5819091796875 1 1173.58265 1172.57538 3.2165 0.0037748 0.6056 0.00071072 3.8221 0.0044855 1173.583172815683 68.111 0.22644 68.771 68.66 68.886 0.65924 24 15 2 0 0 0 0.076365 1 31188 31188 21.747 14.457 1 755470 37296 635 23693 23768 41865 41865 -0.00400809962366111 VYPGDPLRF 9 Unmodified _VYPGDPLRF_ 0 0 0 ENSG00000170892|ENST00000396388|TSEN34 ENSG00000170892|ENST00000396388|TSEN34 ENSG00000170892|ENST00000396388|TSEN34 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 532.2841796875 2 532.282192 1062.54983 3.1153 0.0016582 0.2664 0.0001418 3.3817 0.0018 532.282305337891 61.043 0.93937 61.298 60.903 61.843 0.25578 106 44 3 0 0 0 0.061685 5 27964 27858;27910;27964;28012;28076 45.7 31.118 1 1931000 37297 4771 23694 23769 41866;41867;41868;41869;41870 41868 0.021057603058579843 VYPGDPLRF 9 Unmodified _VYPGDPLRF_ 0 0 0 ENSG00000170892|ENST00000396388|TSEN34 ENSG00000170892|ENST00000396388|TSEN34 ENSG00000170892|ENST00000396388|TSEN34 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.2841796875 2 532.282192 1062.54983 3.2598 0.0017352 -0.011983 -6.3782E-06 3.2479 0.0017288 532.282140335694 60.457 0.81077 61.12 60.788 61.599 0.66261 96 41 3 0 0 0 0.088474 4 27615 27562;27615;27664;27708 45.7 31.118 1 2271800 37298 4771 23694 23769 41871;41872;41873;41874 41872 0.021057603058579843 VYPNINVGVL 10 Unmodified _VYPNINVGVL_ 0 0 0 REV__ENST00000325076.9_1_20:34190424-34191756:-|nuORF REV__ENST00000325076.9_1_20:34190424-34191756:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.3129272460938 2 544.310949 1086.60735 3.5816 0.0019495 -0.046794 -2.5471E-05 3.5348 0.0019241 544.3109145315174 49.049 0.29261 49.704 49.525 49.818 0.65524 18 10 2 0 0 0 0.74998 1 22487 22487 10.824 0 1 713730 + 37299 15348 23695 23770 41875 41875 0.06750602511442594 VYPNWAIGL 9 Unmodified _VYPNWAIGL_ 0 0 0 ENSG00000131389|ENST00000622186|SLC6A6 ENSG00000131389|ENST00000622186|SLC6A6 ENSG00000131389|ENST00000622186|SLC6A6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 516.7814331054688 2 516.779285 1031.54402 3.5623 0.0018409 -0.11709 -6.0507E-05 3.4452 0.0017804 516.7791261848452 86.121 0.36507 86.37 86.135 86.5 0.24857 30 17 2 0 0 0 0.078322 3 39651 39585;39651;39689 38.151 16.405 1 806390 37300 2658 23696 23771 41876;41877;41878 41877 0.02950661794170628 VYPNWAIGL 9 Unmodified _VYPNWAIGL_ 0 0 0 ENSG00000131389|ENST00000622186|SLC6A6 ENSG00000131389|ENST00000622186|SLC6A6 ENSG00000131389|ENST00000622186|SLC6A6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 516.7800903320312 2 516.779285 1031.54402 3.5667 0.0018432 0.68414 0.00035355 4.2509 0.0021968 516.7794055556218 85.514 0.4651 86.185 85.927 86.392 0.67061 39 21 2 0 0 0 0.10245 2 39354 39354;39422 32.117 13.982 1 795500 37301 2658 23696 23771 41879;41880 41879 0.02950661794170628 VYPPHSHSI 9 Unmodified _VYPPHSHSI_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;nc|ENSG00000166888|P42226-3|STAT6;nc|ENSG00000166888|P42226-2|STAT6;ENST00000555222.5_1_12:57490357-57492756:-|nuORF ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 346.179443359375 3 346.178536 1035.51378 2.4618 0.00085223 0.19748 6.8364E-05 2.6593 0.0009206 346.1784797558832 14.744 1.0131 14.744 14.525 15.538 0 311 117 4 0 0 0 0.02631 4 6578 6482;6525;6578;6623 60.074 35.083 1 552550 37302 4511 23697 23772 41881;41882;41883;41884 41883 -0.002556968710223373 VYPPHSHSI 9 Unmodified _VYPPHSHSI_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;nc|ENSG00000166888|P42226-3|STAT6;nc|ENSG00000166888|P42226-2|STAT6;ENST00000555222.5_1_12:57490357-57492756:-|nuORF ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 346.17877197265625 3 346.178536 1035.51378 2.3589 0.0008166 -0.34434 -0.0001192 2.0146 0.0006974 346.1783723317399 14.557 0.38277 14.784 14.629 15.011 0.22622 87 27 4 0 0 0 0.02631 3 6350 6350;6396;6444 60.074 38.537 1 1302400 37303 4511 23697 23772 41885;41886;41887 41885 -0.002556968710223373 VYPPHSHSI 9 Unmodified _VYPPHSHSI_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;nc|ENSG00000166888|P42226-3|STAT6;nc|ENSG00000166888|P42226-2|STAT6;ENST00000555222.5_1_12:57490357-57492756:-|nuORF ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 346.1790771484375 3 346.178536 1035.51378 NaN NaN NaN NaN NaN NaN NaN 14.159 1 14.466 13.966 14.966 0.3069 0 0 0 0.022529 1 6405 6405 69.105 37.837 1 37304 4511 23697 23772 41888 41888 -0.002556968710223373 VYPPHSHSI 9 Unmodified _VYPPHSHSI_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;nc|ENSG00000166888|P42226-3|STAT6;nc|ENSG00000166888|P42226-2|STAT6;ENST00000555222.5_1_12:57490357-57492756:-|nuORF ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.17938232421875 3 346.178536 1035.51378 NaN NaN NaN NaN NaN NaN NaN 14.094 1 14.742 14.242 15.242 0.6482 0 0 0 0.056457 1 6337 6337 51.63 32.268 1 37305 4511 23697 23772 41889 41889 -0.002556968710223373 VYPPIRHHL 9 Unmodified _VYPPIRHHL_ 0 0 0 VPS37A|p.S81R|1|0.12|ENSG00000155975|chr8:17268300-17268300|T/G|missense_variant;nc|ENSG00000155975|Q8NEZ2-3|VPS37A;nc|ENSG00000155975|Q8NEZ2-2|VPS37A;ENSG00000155975|ENST00000324849|VPS37A VPS37A|p.S81R|1|0.12|ENSG00000155975|chr8:17268300-17268300|T/G|missense_variant VPS37A|p.S81R|1|0.12|ENSG00000155975|chr8:17268300-17268300|T/G|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 377.8862609863281 3 377.885576 1130.6349 2.8815 0.0010889 0.6729 0.00025428 3.5544 0.0013432 377.88548824872885 22.446 0.24737 22.446 22.263 22.51 0 28 18 2 0 0 0 0.22507 1 10066 10066 15.248 4.3495 1 253850 37306 3890 23698 23773 41890 41890 0.07480550562308963 VYPPIRHHL 9 Unmodified _VYPPIRHHL_ 0 0 0 VPS37A|p.S81R|1|0.12|ENSG00000155975|chr8:17268300-17268300|T/G|missense_variant;nc|ENSG00000155975|Q8NEZ2-3|VPS37A;nc|ENSG00000155975|Q8NEZ2-2|VPS37A;ENSG00000155975|ENST00000324849|VPS37A VPS37A|p.S81R|1|0.12|ENSG00000155975|chr8:17268300-17268300|T/G|missense_variant VPS37A|p.S81R|1|0.12|ENSG00000155975|chr8:17268300-17268300|T/G|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 377.88653564453125 3 377.885576 1130.6349 NaN NaN NaN NaN NaN NaN NaN 21.456 1 21.456 20.956 21.956 0 0 0 0 0.89509 1 9606 9606 8.7454 4.3393 1 37307 3890 23698 23773 41891 41891 0.07480550562308963 VYPPPHQVF 9 Unmodified _VYPPPHQVF_ 0 0 0 ENST00000540158.1_1_12:109535484-109537104:+|nuORF;nc|ENSG00000076248|P13051-2|UNG;ENSG00000076248|ENST00000242576|UNG ENST00000540158.1_1_12:109535484-109537104:+|nuORF ENST00000540158.1_1_12:109535484-109537104:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.2866821289062 2 542.284734 1082.55492 NaN NaN NaN NaN NaN NaN NaN 41.147 1 41.951 41.451 42.451 0.80351 0 0 0 0.3934 1 18667 18667 23.148 11.508 1 37308 844 23699 23774 41892 41892 0.016940641684641378 VYPPPHQVF 9 Unmodified _VYPPPHQVF_ 0 0 0 ENST00000540158.1_1_12:109535484-109537104:+|nuORF;nc|ENSG00000076248|P13051-2|UNG;ENSG00000076248|ENST00000242576|UNG ENST00000540158.1_1_12:109535484-109537104:+|nuORF ENST00000540158.1_1_12:109535484-109537104:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 542.286376953125 2 542.284734 1082.55492 NaN NaN NaN NaN NaN NaN NaN 41.277 1 42.08 41.58 42.58 0.80351 0 0 0 0.42757 1 18726 18726 21.747 11.563 1 37309 844 23699 23774 41893 41893 0.016940641684641378 VYPQYVIEY 9 Unmodified _VYPQYVIEY_ 0 0 0 ENSG00000105939|ENST00000242351|ZC3HAV1;nc|ENSG00000105939|Q7Z2W4-4|ZC3HAV1 ENSG00000105939|ENST00000242351|ZC3HAV1 ENSG00000105939|ENST00000242351|ZC3HAV1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1173.5821533203125 1 1173.58265 1172.57538 3.4546 0.0040543 -0.93383 -0.0010959 2.5208 0.0029583 1173.581986682432 68.336 0.24939 68.588 68.482 68.732 0.25227 20 14 2 0 0 0 0.24465 2 31293 31293;31341 20.454 8.213 1 540170 37310 1542 23700 23775 41894;41895 41894 -0.004008099623888484 VYPQYVIEY 9 Unmodified _VYPQYVIEY_ 0 0 0 ENSG00000105939|ENST00000242351|ZC3HAV1;nc|ENSG00000105939|Q7Z2W4-4|ZC3HAV1 ENSG00000105939|ENST00000242351|ZC3HAV1 ENSG00000105939|ENST00000242351|ZC3HAV1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.295166015625 2 587.294965 1172.57538 3.4658 0.0020354 -0.67156 -0.0003944 2.7942 0.001641 587.2944261489112 67.854 0.31294 68.512 68.332 68.645 0.65777 47 17 3 0 0 0 0.017868 2 31081 31081;31126 71.134 51.877 1 3933900 37311 1542 23700 23775 41896;41897 41896 -0.004008099623888484 VYPQYVIEY 9 Unmodified _VYPQYVIEY_ 0 0 0 ENSG00000105939|ENST00000242351|ZC3HAV1;nc|ENSG00000105939|Q7Z2W4-4|ZC3HAV1 ENSG00000105939|ENST00000242351|ZC3HAV1 ENSG00000105939|ENST00000242351|ZC3HAV1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1173.5909423828125 1 1173.58265 1172.57538 3.2527 0.0038173 -0.5907 -0.00069323 2.662 0.0031241 1173.5811007890272 67.877 0.27072 68.534 68.375 68.645 0.65777 22 15 2 0 0 0 0.21008 2 31083 31083;31114 22.736 11.096 1 562190 37312 1542 23700 23775 41898;41899 41898 -0.004008099623888484 VYPQYVIEY 9 Unmodified _VYPQYVIEY_ 0 0 0 ENSG00000105939|ENST00000242351|ZC3HAV1;nc|ENSG00000105939|Q7Z2W4-4|ZC3HAV1 ENSG00000105939|ENST00000242351|ZC3HAV1 ENSG00000105939|ENST00000242351|ZC3HAV1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 587.294965 1172.57538 2.9058 0.0017065 0.88598 0.00052033 3.7918 0.0022269 587.2952878744953 68.572 0.18282 68.572 68.467 68.649 0 0.11061 0.0015548 NaN 71.134 36 23 2 NaN NaN NaN NaN 0 NaN NaN 0 1639000 37313 1542 23700 23775 -0.004008099623888484 VYPQYVIEY 9 Unmodified _VYPQYVIEY_ 0 0 0 ENSG00000105939|ENST00000242351|ZC3HAV1;nc|ENSG00000105939|Q7Z2W4-4|ZC3HAV1 ENSG00000105939|ENST00000242351|ZC3HAV1 ENSG00000105939|ENST00000242351|ZC3HAV1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 587.294965 1172.57538 2.6942 0.0015823 -2.8729 -0.0016872 -0.17872 -0.00010496 587.2949150541297 67.599 0.03495 68.301 68.291 68.326 0.70218 -0.1607 -0.0028604 NaN 71.134 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 3860700 37314 1542 23700 23775 -0.004008099623888484 VYPRLHIKKK 10 Unmodified _VYPRLHIKKK_ 0 0 0 ENST00000374660.5_1_10:37442527-37442566:+|nuORF;ENST00000374660.5_1_10:37490175-37490238:+|nuORF ENST00000374660.5_1_10:37442527-37442566:+|nuORF ENST00000374660.5_1_10:37442527-37442566:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 641.4114990234375 2 641.411332 1280.80811 NaN NaN NaN NaN NaN NaN NaN 64.918 1 65.166 64.666 65.666 0.24803 0 0 0 0.99983 1 29742 29742 1.8442 1.4435 1 37315 7383 23701 23776 41900 41900 0.17893916618709227 VYPSKQFDVL 10 Unmodified _VYPSKQFDVL_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1;ENST00000461353.1_1_1:19545799-19546215:-|nuORF nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 598.322998046875 2 598.321514 1194.62847 3.2543 0.0019471 0.05467 3.271E-05 3.309 0.0019798 598.321776694931 55.638 0.34123 55.638 55.439 55.78 0 49 26 3 0 0 0 0.16398 1 25556 25556 43.772 18.781 1 2624500 37316 2480 23702 23777 41901 41901 0.038945678202935596 VYPSKQFDVL 10 Unmodified _VYPSKQFDVL_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1;ENST00000461353.1_1_1:19545799-19546215:-|nuORF nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 598.3235473632812 2 598.321514 1194.62847 3.1336 0.0018749 0.63892 0.00038228 3.7726 0.0022572 598.3218633008406 54.582 0.52067 55.377 55.018 55.538 0.79552 77 32 3 0 0 0 0.1225 4 24854 24801;24854;24900;24954 49.554 29.14 1 2156600 37317 2480 23702 23777 41902;41903;41904;41905 41903 0.038945678202935596 VYPSKQFDVL 10 Unmodified _VYPSKQFDVL_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1;ENST00000461353.1_1_1:19545799-19546215:-|nuORF nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.3236083984375 2 598.321514 1194.62847 3.5552 0.0021272 -0.58185 -0.00034814 2.9734 0.001779 598.3210266152923 55.612 0.30273 55.877 55.596 55.899 0.26543 29 15 2 0 0 0 0.19222 2 25396 25347;25396 40.239 16.219 1 2224300 37318 2480 23702 23777 41906;41907 41907 0.038945678202935596 VYPSKQFDVL 10 Unmodified _VYPSKQFDVL_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1;ENST00000461353.1_1_1:19545799-19546215:-|nuORF nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 598.3238525390625 2 598.321514 1194.62847 3.9466 0.0023613 -0.096642 -5.7823E-05 3.8499 0.0023035 598.3213477249323 54.685 0.34496 55.352 55.312 55.657 0.6665 38 22 2 0 0 0 0.16398 3 25082 25030;25082;25140 43.772 23.358 1 1888400 37319 2480 23702 23777 41908;41909;41910 41909 0.038945678202935596 VYPSSLSKI 9 Unmodified _VYPSSLSKI_ 0 0 0 nc|ENSG00000111530|Q86VP6-2|CAND1;ENSG00000111530|ENST00000545606|CAND1 nc|ENSG00000111530|Q86VP6-2|CAND1 nc|ENSG00000111530|Q86VP6-2|CAND1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.2860412597656 2 497.2844 992.554247 3.366 0.0016739 -0.077247 -3.8414E-05 3.2888 0.0016355 497.28440452767535 42.459 0.22517 43.106 42.976 43.201 0.64693 21 13 2 0 0 0 0.10584 2 19479 19426;19479 31.268 5.869 1 489550 37320 1763 23703 23778 41911;41912 41912 0.05767224728754172 VYPSSLSKI 9 Unmodified _VYPSSLSKI_ 0 0 0 nc|ENSG00000111530|Q86VP6-2|CAND1;ENSG00000111530|ENST00000545606|CAND1 nc|ENSG00000111530|Q86VP6-2|CAND1 nc|ENSG00000111530|Q86VP6-2|CAND1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 497.2844 992.554247 3.2171 0.0015998 -0.99786 -0.00049622 2.2193 0.0011036 497.28372105772604 43.089 0.11615 43.36 43.248 43.364 0.27021 0.12691 -0.0007723 NaN 31.268 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 2389800 37321 1763 23703 23778 0.05767224728754172 VYPTAVHVL 9 Unmodified _VYPTAVHVL_ 0 0 0 ENSG00000112234|ENST00000369244|FBXL4 ENSG00000112234|ENST00000369244|FBXL4 ENSG00000112234|ENST00000369244|FBXL4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.78924560546875 2 499.78711 997.559667 3.1502 0.0015744 0.6158 0.00030777 3.766 0.0018822 499.7874933603167 51.568 0.31002 51.568 51.4 51.71 0 31 17 2 0 0 0 0.18075 1 23602 23602 24.674 8.8267 1 402600 37322 1797 23704 23779 41913 41913 0.06078948311221666 VYPTAVHVL 9 Unmodified _VYPTAVHVL_ 0 0 0 ENSG00000112234|ENST00000369244|FBXL4 ENSG00000112234|ENST00000369244|FBXL4 ENSG00000112234|ENST00000369244|FBXL4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.7891540527344 2 499.78711 997.559667 2.8425 0.0014206 1.1271 0.00056332 3.9696 0.0019839 499.7876854986318 50.69 0.31939 51.508 51.364 51.684 0.81738 29 17 2 0 0 0 0.10245 1 23109 23109 32.117 16.27 1 360150 37323 1797 23704 23779 41914 41914 0.06078948311221666 VYQGFPLLLL 10 Unmodified _VYQGFPLLLL_ 0 0 0 chr1:236163754-236168706|386|10.13|0.18|5.82|+|0|TE_info:THE1A,THE1A_dup306,ERVL-MaLR,LTR,donor,+,236163474,236163754|None,GPR137B|4 chr1:236163754-236168706|386|10.13|0.18|5.82|+|0|TE_info:THE1A,THE1A_dup306,ERVL-MaLR,LTR,donor,+,236163474,236163754|None,GPR137B|4 chr1:236163754-236168706|386|10.13|0.18|5.82|+|0|TE_info:THE1A,THE1A_dup306,ERVL-MaLR,LTR,donor,+,236163474,236163754|None,GPR137B|4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 388.2344970703125 3 388.23387 1161.67978 2.7483 0.001067 -0.99171 -0.00038501 1.7566 0.00068197 388.2330144968617 28.02 0.31424 28.282 28.093 28.407 0.26245 40 21 3 0 0 0 0.93534 1 12769 12769 2.086 1.3883 1 749360 37324 126 23705 23780 41915 41915 0.10540936584993688 VYQHLFTRI 9 Unmodified _VYQHLFTRI_ 0 0 0 nc|ENSG00000242802|O43299-3|AP5Z1;ENST00000477680.5_1_7:4815294-4829561:+|nuORF;nc|ENSG00000242802|O43299-2|AP5Z1;ENST00000496303.5_1_7:4815289-4829878:+|nuORF;ENSG00000242802|ENST00000649063|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.2245788574219 3 392.888986 1175.64513 2.5921 0.0010184 0.0023986 9.424E-07 2.5945 0.0010193 393.2233071123114 44.363 0.1783 44.363 44.266 44.444 0 33 13 3 0 0 0 0.02812 2 20237 20237;20287 46.022 29.456 1 1835400 37325 6232 23706 23781 41916;41917 41916 0.0643311349688247 VYQHLFTRI 9 Unmodified _VYQHLFTRI_ 0 0 0 nc|ENSG00000242802|O43299-3|AP5Z1;ENST00000477680.5_1_7:4815294-4829561:+|nuORF;nc|ENSG00000242802|O43299-2|AP5Z1;ENST00000496303.5_1_7:4815289-4829878:+|nuORF;ENSG00000242802|ENST00000649063|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 392.88922119140625 3 392.888986 1175.64513 NaN NaN NaN NaN NaN NaN NaN 43.17 1 43.985 43.485 44.485 0.81444 0 0 0 0.028243 1 19648 19648 55.235 30.353 1 37326 6232 23706 23781 41918 41918 0.0643311349688247 VYQHLFTRI 9 Unmodified _VYQHLFTRI_ 0 0 0 nc|ENSG00000242802|O43299-3|AP5Z1;ENST00000477680.5_1_7:4815294-4829561:+|nuORF;nc|ENSG00000242802|O43299-2|AP5Z1;ENST00000496303.5_1_7:4815289-4829878:+|nuORF;ENSG00000242802|ENST00000649063|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 392.8903503417969 3 392.888986 1175.64513 2.7206 0.0010689 -0.043698 -1.7168E-05 2.6769 0.0010517 392.8889340769416 44.163 0.18685 44.432 44.419 44.606 0.2694 22 14 2 0 0 0 0.057945 1 20186 20186 34.222 22.047 1 3123100 37327 6232 23706 23781 41919 41919 0.0643311349688247 VYQHLFTRI 9 Unmodified _VYQHLFTRI_ 0 0 0 nc|ENSG00000242802|O43299-3|AP5Z1;ENST00000477680.5_1_7:4815294-4829561:+|nuORF;nc|ENSG00000242802|O43299-2|AP5Z1;ENST00000496303.5_1_7:4815289-4829878:+|nuORF;ENSG00000242802|ENST00000649063|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 nc|ENSG00000242802|O43299-3|AP5Z1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.22344970703125 3 392.888986 1175.64513 2.9907 0.001175 -0.16365 -6.4298E-05 2.827 0.0011107 392.8890178244641 43.66 0.16745 44.308 44.229 44.397 0.64872 20 9 3 0 0 0 0.057945 1 20026 20026 34.222 22.047 1 1458900 37328 6232 23706 23781 41920 41920 0.0643311349688247 VYQKIILVP 9 Unmodified _VYQKIILVP_ 0 0 0 ENSG00000132321|ENST00000409907|IQCA1;nc|ENSG00000132321|Q86XH1-5|IQCA1 ENSG00000132321|ENST00000409907|IQCA1 ENSG00000132321|ENST00000409907|IQCA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.8106079101562 2 536.841885 1071.66922 NaN NaN NaN NaN NaN NaN NaN 85.654 1 85.683 85.183 86.183 0.028603 0 0 0 0.89315 1 42928 42928 5.2307 0.90143 1 37329 2690 23707 23782 41921 41921 0.1362495393059362 VYQKIILVP 9 Unmodified _VYQKIILVP_ 0 0 0 ENSG00000132321|ENST00000409907|IQCA1;nc|ENSG00000132321|Q86XH1-5|IQCA1 ENSG00000132321|ENST00000409907|IQCA1 ENSG00000132321|ENST00000409907|IQCA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.1890869140625 2 536.841885 1071.66922 NaN NaN NaN NaN NaN NaN NaN 88.509 1 88.561 88.061 89.061 0.052155 0 0 0 0.90511 1 45100 45100 2.3027 0 1 37330 2690 23707 23782 41922 41922 0.1362495393059362 VYQKLLERM 9 Unmodified _VYQKLLERM_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000504411.1_1_5:135396881-135398912:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.89111328125 3 393.889998 1178.64816 2.6716 0.0010523 -0.47867 -0.00018854 2.193 0.00086379 393.889956363966 38.266 0.69106 38.266 37.91 38.601 0 74 28 5 0 0 0 0.0084842 2 17334 17334;17382 84.522 31.163 1 16335000 37331 2210 23708 23783 41923;41924 41923 0.06598620559384472 VYQKLLERM 9 Unmodified _VYQKLLERM_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000504411.1_1_5:135396881-135398912:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 590.3331298828125 2 590.331359 1178.64816 3.5038 0.0020684 -0.38305 -0.00022612 3.1208 0.0018423 590.33124634982 38.28 0.37832 38.28 38.069 38.447 0 40 14 4 0 0 0 0.0014118 3 17383 17336;17383;17439 132.38 43.476 1 10116000 37332 2210 23708 23783 41925;41926;41927 41926 0.06598620559384472 VYQKLLERM 9 Unmodified _VYQKLLERM_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000504411.1_1_5:135396881-135398912:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 393.89080810546875 3 393.889998 1178.64816 2.5855 0.0010184 -0.55409 -0.00021825 2.0314 0.00080015 393.88991886902716 37.18 0.66795 37.973 37.562 38.23 0.79342 90 30 5 0 0 0 0.0039585 3 16857 16804;16857;16909 93.938 51.983 1 15636000 37333 2210 23708 23783 41928;41929;41930 41929 0.06598620559384472 VYQKLLERM 9 Unmodified _VYQKLLERM_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000504411.1_1_5:135396881-135398912:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 590.3342895507812 2 590.331359 1178.64816 3.4222 0.0020203 -0.47496 -0.00028038 2.9473 0.0017399 590.3311819290303 37.18 0.50793 37.973 37.831 38.338 0.79342 56 24 4 0 0 0 0.0014118 3 16820 16820;16864;16915 132.38 32.008 1 8315600 37334 2210 23708 23783 41931;41932;41933 41931 0.06598620559384472 VYQKLLERM 9 Unmodified _VYQKLLERM_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000504411.1_1_5:135396881-135398912:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 590.3336181640625 2 590.331359 1178.64816 3.4881 0.0020591 -0.24349 -0.00014374 3.2446 0.0019154 590.3314224445501 38.18 0.28851 38.444 38.281 38.569 0.26408 23 8 4 0 0 0 0.012412 2 17363 17363;17420 93.938 15.789 1 2267200 37335 2210 23708 23783 41934;41935 41934 0.06598620559384472 VYQKLLERM 9 Unmodified _VYQKLLERM_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000504411.1_1_5:135396881-135398912:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.89105224609375 3 393.889998 1178.64816 2.8426 0.0011197 -0.071777 -2.8272E-05 2.7709 0.0010914 393.88995186444964 38.174 0.35632 38.438 38.246 38.603 0.26408 30 10 4 0 0 0 0.028483 1 17392 17392 57.249 32.258 1 3644200 37336 2210 23708 23783 41936 41936 0.06598620559384472 VYQKLLERM 9 Unmodified _VYQKLLERM_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000504411.1_1_5:135396881-135398912:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.3330688476562 2 590.331359 1178.64816 3.6303 0.0021431 0.48471 0.00028614 4.115 0.0024292 590.331593202084 37.562 0.30521 38.196 38.058 38.363 0.63388 29 9 4 0 0 0 0.0090824 2 17166 17166;17230 90.135 31.456 1 1729400 37337 2210 23708 23783 41937;41938 41937 0.06598620559384472 VYQKLLERM 9 Unmodified _VYQKLLERM_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000504411.1_1_5:135396881-135398912:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8913879394531 3 393.889998 1178.64816 2.7821 0.0010958 0.2979 0.00011734 3.08 0.0012132 393.8901873099826 37.577 0.35841 38.211 38.031 38.389 0.63388 37 11 4 0 0 0 0.088474 1 17180 17180 35.612 10.621 1 2689000 37338 2210 23708 23783 41939 41939 0.06598620559384472 VYQMDAESCI 10 Unmodified _VYQMDAESCI_ 0 0 0 ENSG00000080200|ENST00000389622|CRYBG3 ENSG00000080200|ENST00000389622|CRYBG3 ENSG00000080200|ENST00000389622|CRYBG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.7451782226562 2 579.743924 1157.4733 NaN NaN NaN NaN NaN NaN NaN 83.736 1 83.736 83.236 84.236 0 0 0 0 0.99687 1 42233 42233 4.3292 0 1 37339 904 23709 23784 41940 41940 -0.09914167367946902 VYQNHVQHL 9 Unmodified _VYQNHVQHL_ 0 0 0 nc|ENSG00000100852|Q13017-2|ARHGAP5;ENSG00000100852|ENST00000345122|ARHGAP5 nc|ENSG00000100852|Q13017-2|ARHGAP5 nc|ENSG00000100852|Q13017-2|ARHGAP5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.8662414550781 3 379.86484 1136.57269 2.4776 0.00094114 -0.070168 -2.6654E-05 2.4074 0.00091448 379.8648070987348 14.35 0.26859 14.576 14.462 14.731 0.22622 32 22 2 0 0 0 0.29781 1 6302 6302 11.495 9.0599 1 290510 37340 1245 23710 23785 41941 41941 0.009867794233286986 VYQNHVQHL 9 Unmodified _VYQNHVQHL_ 0 0 0 nc|ENSG00000100852|Q13017-2|ARHGAP5;ENSG00000100852|ENST00000345122|ARHGAP5 nc|ENSG00000100852|Q13017-2|ARHGAP5 nc|ENSG00000100852|Q13017-2|ARHGAP5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 379.86484 1136.57269 2.7633 0.0010497 0.41727 0.00015851 3.1805 0.0012082 379.86489004334607 14.719 0.29439 14.719 14.576 14.87 0 0.071293 0.00018318 NaN 11.495 69 33 3 NaN NaN NaN NaN 0 NaN NaN 0 298690 37341 1245 23710 23785 0.009867794233286986 VYRNKDALSHF 11 Unmodified _VYRNKDALSHF_ 0 0 0 ENSG00000113845|ENST00000494664|TIMMDC1 ENSG00000113845|ENST00000494664|TIMMDC1 ENSG00000113845|ENST00000494664|TIMMDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.5716552734375 3 450.570204 1348.68878 2.9339 0.0013219 0.84898 0.00038252 3.7829 0.0017045 450.57038430455 22.499 0.1284 22.499 22.382 22.51 0 19 8 3 0 0 0 0.15681 2 10073 10073;10092 21.241 14.618 1 350390 37342 1879 23711 23786 41942;41943 41942 0.02838678203352174 VYRPRRHRLWM 11 Unmodified _VYRPRRHRLWM_ 0 0 0 REV__ENST00000502346.1_1_5:82360835-82373254:-|nuORF REV__ENST00000502346.1_1_5:82360835-82373254:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 785.4378051757812 2 785.438421 1568.86229 NaN NaN NaN NaN NaN NaN NaN 93.132 1 93.218 92.718 93.718 0.086212 0 0 0 1.008 1 48719 48719 0.30703 0 1 + 37343 16887 23712 23787 41944 41944 0.10061185498648229 VYRQDCETF 9 Carbamidomethyl (C) _VYRQDC(Carbamidomethyl (C))ETF_ VYRQDC(1)ETF VYRQDC(50)ETF 0 1 0 nc|ENSG00000134283|Q8NEY8-6|PPHLN1;nc|ENSG00000134283|Q8NEY8-9|PPHLN1;ENSG00000134283|ENST00000358314|PPHLN1;nc|ENSG00000134283|Q8NEY8-2|PPHLN1;nc|ENSG00000134283|Q8NEY8-3|PPHLN1;nc|ENSG00000134283|Q8NEY8|PPHLN1 nc|ENSG00000134283|Q8NEY8-6|PPHLN1 nc|ENSG00000134283|Q8NEY8-6|PPHLN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 609.2686157226562 2 609.266413 1216.51827 3.7482 0.0022837 -0.27103 -0.00016513 3.4772 0.0021185 609.2660728658778 26.916 0.23253 26.916 26.813 27.046 0 33 13 3 0 0 0 0.044468 1 12135 12135 49.554 36.512 1 650840 37344 2796 23713 23788 41945 41945 58 -0.08132600510430166 VYRQDCETF 9 Carbamidomethyl (C) _VYRQDC(Carbamidomethyl (C))ETF_ VYRQDC(1)ETF VYRQDC(53)ETF 0 1 0 nc|ENSG00000134283|Q8NEY8-6|PPHLN1;nc|ENSG00000134283|Q8NEY8-9|PPHLN1;ENSG00000134283|ENST00000358314|PPHLN1;nc|ENSG00000134283|Q8NEY8-2|PPHLN1;nc|ENSG00000134283|Q8NEY8-3|PPHLN1;nc|ENSG00000134283|Q8NEY8|PPHLN1 nc|ENSG00000134283|Q8NEY8-6|PPHLN1 nc|ENSG00000134283|Q8NEY8-6|PPHLN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 609.2684326171875 2 609.266413 1216.51827 3.2644 0.0019889 -0.40482 -0.00024664 2.8596 0.0017423 609.2663085419549 25.925 0.2449 26.689 26.57 26.815 0.76356 36 15 3 0 0 0 0.035495 1 11631 11631 53.404 35.258 1 622820 37345 2796 23713 23788 41946 41946 58 -0.08132600510430166 VYRQFWIF 8 Unmodified _VYRQFWIF_ 0 0 0 nc|ENSG00000135218|P16671-4|CD36;nc|ENSG00000135218|P16671-3|CD36;ENSG00000135218|ENST00000447544|CD36;nc|ENSG00000135218|P16671-2|CD36 nc|ENSG00000135218|P16671-4|CD36 nc|ENSG00000135218|P16671-4|CD36 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 579.8092041015625 2 579.808377 1157.6022 NaN NaN NaN NaN NaN NaN NaN 34.25 1 34.504 34.004 35.004 0.25389 0 0 0 0.97647 1 15599 15599 5.7604 2.8712 1 37346 2854 23714 23789 41947 41947 0.029703434394377837 VYRQKRVV 8 Unmodified _VYRQKRVV_ 0 0 0 REV__ENSG00000125965|ENST00000374369|GDF5 REV__ENSG00000125965|ENST00000374369|GDF5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.3023071289062 2 524.324725 1046.6349 NaN NaN NaN NaN NaN NaN NaN 54.137 1 54.137 53.637 54.637 0 0 0 0 0.99035 1 24827 24827 5.7604 1.4312 1 + 37347 11701 23715 23790 41948 41948 0.11344550562330369 VYRTVIEYY 9 Unmodified _VYRTVIEYY_ 0 0 0 ENSG00000173418|ENST00000334982|NAA20 ENSG00000173418|ENST00000334982|NAA20 ENSG00000173418|ENST00000334982|NAA20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 603.3141479492188 2 603.313689 1204.61282 3.4942 0.0021081 0.016723 1.0089E-05 3.5109 0.0021182 603.3132928159462 50.197 0.23543 51.02 50.858 51.093 0.82285 16 11 2 0 0 0 0.29523 1 22850 22850 17.113 7.039 1 410960 37348 4934 23716 23791 41949 41949 0.0187028130321778 VYRTVIEYY 9 Unmodified _VYRTVIEYY_ 0 0 0 ENSG00000173418|ENST00000334982|NAA20 ENSG00000173418|ENST00000334982|NAA20 ENSG00000173418|ENST00000334982|NAA20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 603.31591796875 2 603.313689 1204.61282 3.5291 0.0021291 -0.14762 -8.9061E-05 3.3815 0.0020401 603.3134900372836 51.244 0.27841 51.506 51.306 51.584 0.26174 31 12 3 0 0 0 0.011692 2 23416 23370;23416 79.596 50.515 1 1798400 37349 4934 23716 23791 41950;41951 41951 0.0187028130321778 VYRTVIEYY 9 Unmodified _VYRTVIEYY_ 0 0 0 ENSG00000173418|ENST00000334982|NAA20 ENSG00000173418|ENST00000334982|NAA20 ENSG00000173418|ENST00000334982|NAA20 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 603.3160400390625 2 603.313689 1204.61282 3.7263 0.0022481 0.23757 0.00014333 3.9639 0.0023915 603.3137394144054 50.548 0.36716 51.206 50.999 51.366 0.65735 48 18 3 0 0 0 0.018453 3 23117 23069;23117;23170 70.332 43.448 1 1640500 37350 4934 23716 23791 41952;41953;41954 41953 0.0187028130321778 VYRTVIEYY 9 Unmodified _VYRTVIEYY_ 0 0 0 ENSG00000173418|ENST00000334982|NAA20 ENSG00000173418|ENST00000334982|NAA20 ENSG00000173418|ENST00000334982|NAA20 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 603.313689 1204.61282 3.7058 0.0022357 0.046948 2.8324E-05 3.7527 0.0022641 603.3134439466461 51.129 0.23126 51.129 51.016 51.247 0 0.010824 -0.00015097 NaN 70.332 21 11 3 NaN NaN NaN NaN 0 NaN NaN 0 550480 37351 4934 23716 23791 0.0187028130321778 VYSEANLTF 9 Unmodified _VYSEANLTF_ 0 0 0 REV__ENST00000478122.6_1_12:111052207-111066834:+|nuORF REV__ENST00000478122.6_1_12:111052207-111066834:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.2583618164062 2 522.25584 1042.49713 3.2892 0.0017178 1.0929 0.00057078 4.3821 0.0022886 522.2560995051784 28.456 0.26042 28.717 28.583 28.843 0.2602 24 15 2 0 0 0 0.136 1 12981 12981 27.629 0 1 292490 + 37352 14442 23717 23792 41955 41955 -0.022422425476406715 VYSEANLTF 9 Unmodified _VYSEANLTF_ 0 0 0 REV__ENST00000478122.6_1_12:111052207-111066834:+|nuORF REV__ENST00000478122.6_1_12:111052207-111066834:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.760498046875 2 522.25584 1042.49713 3.2801 0.0017131 0.15846 8.2756E-05 3.4386 0.0017958 522.2559101495475 28.026 0.28226 28.646 28.524 28.806 0.61947 37 17 3 0 0 0 0.093314 1 12833 12833 34.402 0 1 322600 + 37353 14442 23717 23792 41956 41956 -0.022422425476406715 VYSEVAAYEF 10 Unmodified _VYSEVAAYEF_ 0 0 0 ENSG00000185721|ENST00000331457|DRG1;ENST00000433341.5_1_22:31795606-31819296:+|nuORF ENSG00000185721|ENST00000331457|DRG1 ENSG00000185721|ENST00000331457|DRG1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 588.8312377929688 2 589.274229 1176.53391 2.7327 0.0016103 0.51067 0.00030092 3.2433 0.0019112 589.2743405869975 66.012 0.19655 66.717 66.62 66.816 0.7047 37 21 2 0 0 0 0.12452 1 31295 31295 15.847 8.558 1 2098000 37354 5527 23718 23793 41957 41957 -0.04729990721716604 VYSEVAAYEF 10 Unmodified _VYSEVAAYEF_ 0 0 0 ENSG00000185721|ENST00000331457|DRG1;ENST00000433341.5_1_22:31795606-31819296:+|nuORF ENSG00000185721|ENST00000331457|DRG1 ENSG00000185721|ENST00000331457|DRG1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.8305053710938 2 589.274229 1176.53391 3.7517 0.0022108 0.10843 6.3894E-05 3.8601 0.0022747 589.2743686802612 66.847 0.37646 67.097 66.888 67.264 0.2501 39 21 2 0 0 0 0.11755 1 30626 30626 20.454 1.1966 1 1325200 37355 5527 23718 23793 41958 41958 -0.04729990721716604 VYSEVAAYEF 10 Unmodified _VYSEVAAYEF_ 0 0 0 ENSG00000185721|ENST00000331457|DRG1;ENST00000433341.5_1_22:31795606-31819296:+|nuORF ENSG00000185721|ENST00000331457|DRG1 ENSG00000185721|ENST00000331457|DRG1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.8313598632812 2 589.274229 1176.53391 3.7142 0.0021887 0.41041 0.00024185 4.1246 0.0024305 589.2743975818756 66.273 0.338 66.93 66.737 67.075 0.65672 39 20 2 0 0 0 0.075913 1 30404 30404 39.957 10.876 1 1263300 37356 5527 23718 23793 41959 41959 -0.04729990721716604 VYSFGFERL 9 Unmodified _VYSFGFERL_ 0 0 0 nc|ENSG00000152683|Q6NXT4-3|SLC30A6;ENSG00000152683|ENST00000282587|SLC30A6;nc|ENSG00000152683|Q6NXT4-2|SLC30A6;nc|ENSG00000152683|Q6NXT4-4|SLC30A6 nc|ENSG00000152683|Q6NXT4-3|SLC30A6 nc|ENSG00000152683|Q6NXT4-3|SLC30A6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.2894897460938 2 559.287474 1116.5604 3.7982 0.0021243 -0.85361 -0.00047742 2.9446 0.0016469 559.2875955007514 67.632 0.23168 67.882 67.776 68.008 0.2501 19 12 2 0 0 0 0.35367 1 31020 31020 20.415 8.1739 1 457930 37357 3758 23719 23794 41960 41960 0.006777429603062046 VYSGGVYLF 9 Unmodified _VYSGGVYLF_ 0 0 0 ENST00000589448.5_1_19:19230741-19243387:-|nuORF;ENSG00000064545|ENST00000162044|TMEM161A;ENST00000587406.5_1_19:19232302-19249261:-|nuORF ENST00000589448.5_1_19:19230741-19243387:-|nuORF ENST00000589448.5_1_19:19230741-19243387:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1004.51220703125 1 1004.50876 1003.50148 3.2942 0.0033091 -1.4215 -0.0014279 1.8728 0.0018812 1004.5062339190744 79.659 0.35504 79.91 79.631 79.986 0.25127 25 20 2 0 0 0 0.18075 1 36644 36644 24.674 4.2203 1 587910 37358 672 23720 23795 41961 41961 -0.00012733334040149202 VYSIINKKSV 10 Unmodified _VYSIINKKSV_ 0 0 0 REV__nc|ENSG00000284609|Q8NGG8|OR8B3 REV__nc|ENSG00000284609|Q8NGG8|OR8B3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 575.844482421875 2 575.845156 1149.67576 NaN NaN NaN NaN NaN NaN NaN 86.788 1 87.038 86.538 87.538 0.24974 0 0 0 0.99774 1 39951 39951 3.5965 0 1 + 37359 18161 23721 23796 41962 41962 0.10690847091268552 VYSKDQLQTF 10 Unmodified _VYSKDQLQTF_ 0 0 0 ENST00000418944.1_1_2:110941632-110941998:+|nuORF;ENST00000460427.2_1_2:98275340-98276060:-|nuORF;ENST00000480947.1_1_10:104243895-104247966:-|nuORF;ENST00000451664.1_1_2:98275340-98280353:-|nuORF;ENSG00000138107|ENST00000369905|ACTR1A;ENSG00000115073|ENST00000289228|ACTR1B ENST00000418944.1_1_2:110941632-110941998:+|nuORF ENST00000418944.1_1_2:110941632-110941998:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 614.8172607421875 2 614.814053 1227.61355 NaN NaN NaN NaN NaN NaN NaN 39.873 1 39.873 39.373 40.373 0 0 0 0 0.95221 1 18097 18097 13.042 5.7532 1 37360 1941 23722 23797 41963 41963 0.008850759522829321 VYSKDQLQTF 10 Unmodified _VYSKDQLQTF_ 0 0 0 ENST00000418944.1_1_2:110941632-110941998:+|nuORF;ENST00000460427.2_1_2:98275340-98276060:-|nuORF;ENST00000480947.1_1_10:104243895-104247966:-|nuORF;ENST00000451664.1_1_2:98275340-98280353:-|nuORF;ENSG00000138107|ENST00000369905|ACTR1A;ENSG00000115073|ENST00000289228|ACTR1B ENST00000418944.1_1_2:110941632-110941998:+|nuORF ENST00000418944.1_1_2:110941632-110941998:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 614.8168334960938 2 614.814053 1227.61355 3.3564 0.0020635 -0.96251 -0.00059176 2.3939 0.0014718 614.8135671969637 38.682 0.27441 39.479 39.379 39.653 0.79762 17 12 2 0 0 0 0.48906 2 17530 17530;17568 21.537 10.713 1 240700 37361 1941 23722 23797 41964;41965 41964 0.008850759522829321 VYSKDQLQTF 10 Unmodified _VYSKDQLQTF_ 0 0 0 ENST00000418944.1_1_2:110941632-110941998:+|nuORF;ENST00000460427.2_1_2:98275340-98276060:-|nuORF;ENST00000480947.1_1_10:104243895-104247966:-|nuORF;ENST00000451664.1_1_2:98275340-98280353:-|nuORF;ENSG00000138107|ENST00000369905|ACTR1A;ENSG00000115073|ENST00000289228|ACTR1B ENST00000418944.1_1_2:110941632-110941998:+|nuORF ENST00000418944.1_1_2:110941632-110941998:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 614.8163452148438 2 614.814053 1227.61355 NaN NaN NaN NaN NaN NaN NaN 39.818 1 40.085 39.585 40.585 0.26696 0 0 0 0.99464 1 18114 18114 6.2058 0.9089 1 37362 1941 23722 23797 41966 41966 0.008850759522829321 VYSKNGKLGCD 11 Unmodified _VYSKNGKLGCD_ 0 0 0 REV__nc|ENSG00000188158|Q6T4R5-4|NHS REV__nc|ENSG00000188158|Q6T4R5-4|NHS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 592.292236328125 2 592.29243 1182.57031 NaN NaN NaN NaN NaN NaN NaN 71.022 1 71.28 70.78 71.78 0.25786 0 0 0 1.0063 1 32530 32530 2.4985 0.19575 1 + 37363 14134 23723 23798 41967 41967 -0.013674370966555216 VYSLIKNKI 9 Unmodified _VYSLIKNKI_ 0 0 0 ENST00000488258.5_1_7:151265789-151372578:-|nuORF;nc|ENSG00000106617|Q9UGJ0-2|PRKAG2;nc|ENSG00000106617|Q9UGJ0-3|PRKAG2;ENSG00000106617|ENST00000287878|PRKAG2 ENST00000488258.5_1_7:151265789-151372578:-|nuORF ENST00000488258.5_1_7:151265789-151372578:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.3389892578125 2 539.336967 1076.65938 3.2866 0.0017726 0.35477 0.00019134 3.6413 0.0019639 539.3371416292904 37.666 0.27581 37.666 37.509 37.784 0 24 10 3 0 0 0 0.0024241 1 17078 17078 99.799 47.531 1 705290 37364 1578 23724 23799 41968 41968 0.12411765925162399 VYSLIKNKI 9 Unmodified _VYSLIKNKI_ 0 0 0 ENST00000488258.5_1_7:151265789-151372578:-|nuORF;nc|ENSG00000106617|Q9UGJ0-2|PRKAG2;nc|ENSG00000106617|Q9UGJ0-3|PRKAG2;ENSG00000106617|ENST00000287878|PRKAG2 ENST00000488258.5_1_7:151265789-151372578:-|nuORF ENST00000488258.5_1_7:151265789-151372578:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 359.7344665527344 3 359.893737 1076.65938 2.6868 0.00096696 -0.75082 -0.00027022 1.936 0.00069675 359.8937523393679 37.67 0.3768 37.67 37.462 37.838 0 33 14 4 0 0 0 0.080874 1 17090 17090 22.658 5.5452 1 1553500 37365 1578 23724 23799 41969 41969 0.12411765925162399 VYSLIKNKI 9 Unmodified _VYSLIKNKI_ 0 0 0 ENST00000488258.5_1_7:151265789-151372578:-|nuORF;nc|ENSG00000106617|Q9UGJ0-2|PRKAG2;nc|ENSG00000106617|Q9UGJ0-3|PRKAG2;ENSG00000106617|ENST00000287878|PRKAG2 ENST00000488258.5_1_7:151265789-151372578:-|nuORF ENST00000488258.5_1_7:151265789-151372578:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.3389282226562 2 539.336967 1076.65938 3.1319 0.0016891 0.39637 0.00021378 3.5283 0.0019029 539.3369479344873 36.598 0.33131 37.391 37.174 37.505 0.79342 25 15 2 0 0 0 0.043585 1 16590 16590 49.933 21.446 1 427420 37366 1578 23724 23799 41970 41970 0.12411765925162399 VYSLIKNKI 9 Unmodified _VYSLIKNKI_ 0 0 0 ENST00000488258.5_1_7:151265789-151372578:-|nuORF;nc|ENSG00000106617|Q9UGJ0-2|PRKAG2;nc|ENSG00000106617|Q9UGJ0-3|PRKAG2;ENSG00000106617|ENST00000287878|PRKAG2 ENST00000488258.5_1_7:151265789-151372578:-|nuORF ENST00000488258.5_1_7:151265789-151372578:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.48406982421875 3 359.893737 1076.65938 2.5831 0.00092963 0.74702 0.00026885 3.3301 0.0011985 359.8941702678089 36.864 0.45708 37.494 37.167 37.625 0.62999 26 19 2 0 0 0 0.055217 1 16850 16850 19.362 5.7471 1 661710 37367 1578 23724 23799 41971 41971 0.12411765925162399 VYSNSIYEL 9 Unmodified _VYSNSIYEL_ 0 0 0 ENST00000509573.5_1_5:138855949-138860944:-|nuORF;ENSG00000184584|ENST00000330794|STING1;ENST00000507297.5_1_5:138855848-138858268:-|nuORF ENST00000509573.5_1_5:138855949-138860944:-|nuORF ENST00000509573.5_1_5:138855949-138860944:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 544.2701416015625 2 544.268947 1086.52334 3.2624 0.0017756 0.12234 6.6588E-05 3.3847 0.0018422 544.2689306942549 63.485 0.27291 63.733 63.605 63.878 0.24803 23 14 2 0 0 0 0.10584 1 29068 29068 42.095 19.358 1 747560 37368 5452 23725 23800 41972 41972 -0.01645973376139409 VYSNSIYEL 9 Unmodified _VYSNSIYEL_ 0 0 0 ENST00000509573.5_1_5:138855949-138860944:-|nuORF;ENSG00000184584|ENST00000330794|STING1;ENST00000507297.5_1_5:138855848-138858268:-|nuORF ENST00000509573.5_1_5:138855949-138860944:-|nuORF ENST00000509573.5_1_5:138855949-138860944:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 544.268947 1086.52334 3.3427 0.0018193 1.4013 0.0007627 4.744 0.002582 544.2694028891032 62.949 0.21086 63.607 63.48 63.691 0.65808 -0.063334 0.00069974 NaN 42.095 15 11 2 NaN NaN NaN NaN 0 NaN NaN 0 494740 37369 5452 23725 23800 -0.01645973376139409 VYSPAIKDSTM 11 Unmodified _VYSPAIKDSTM_ 0 0 0 ENST00000466462.5_1_10:92635852-92660362:+|nuORF;ENST00000480406.6_1_10:92654546-92665092:+|nuORF;ENST00000487998.5_1_10:92631743-92654759:+|nuORF;ENSG00000148688|ENST00000371703|RPP30;nc|ENSG00000148688|P78346-2|RPP30 ENST00000466462.5_1_10:92635852-92660362:+|nuORF ENST00000466462.5_1_10:92635852-92660362:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.3047485351562 2 606.302464 1210.59037 NaN NaN NaN NaN NaN NaN NaN 35.387 1 36.179 35.679 36.679 0.79131 0 0 0 0.62435 1 16038 16038 24.882 14.731 1 37370 3612 23726 23801 41973 41973 -0.006496861567029555 VYSPHVLNL 9 Unmodified _VYSPHVLNL_ 0 0 0 nc|ENSG00000079805|P50570-3|DNM2;nc|ENSG00000079805|P50570-2|DNM2;nc|ENSG00000079805|P50570-5|DNM2;nc|ENSG00000079805|P50570|DNM2;ENSG00000079805|ENST00000389253|DNM2;nc|ENSG00000197959|Q9UQ16-5|DNM3;ENST00000441149.6_1_9:130980552-131010310:+|nuORF;nc|ENSG00000106976|Q05193-5|DNM1;nc|ENSG00000106976|Q05193-3|DNM1;nc|ENSG00000197959|Q9UQ16-2|DNM3;ENSG00000197959|ENST00000627582|DNM3;nc|ENSG00000106976|Q05193-2|DNM1;ENSG00000106976|ENST00000372923|DNM1;nc|ENSG00000197959|Q9UQ16|DNM3;nc|ENSG00000197959|Q9UQ16-4|DNM3 nc|ENSG00000079805|P50570-3|DNM2 nc|ENSG00000079805|P50570-3|DNM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.2914428710938 2 521.290017 1040.56548 3.2587 0.0016987 -0.27432 -0.000143 2.9844 0.0015557 521.2897774412455 56.724 0.28782 56.724 56.578 56.866 0 60 23 3 0 0 0 5.798500000000001E-41 1 26108 26108 205.78 124.17 1 5052300 37371 899 23727 23802 41974 41974 0.0468204682290434 VYSPHVLNL 9 Unmodified _VYSPHVLNL_ 0 0 0 nc|ENSG00000079805|P50570-3|DNM2;nc|ENSG00000079805|P50570-2|DNM2;nc|ENSG00000079805|P50570-5|DNM2;nc|ENSG00000079805|P50570|DNM2;ENSG00000079805|ENST00000389253|DNM2;nc|ENSG00000197959|Q9UQ16-5|DNM3;ENST00000441149.6_1_9:130980552-131010310:+|nuORF;nc|ENSG00000106976|Q05193-5|DNM1;nc|ENSG00000106976|Q05193-3|DNM1;nc|ENSG00000197959|Q9UQ16-2|DNM3;ENSG00000197959|ENST00000627582|DNM3;nc|ENSG00000106976|Q05193-2|DNM1;ENSG00000106976|ENST00000372923|DNM1;nc|ENSG00000197959|Q9UQ16|DNM3;nc|ENSG00000197959|Q9UQ16-4|DNM3 nc|ENSG00000079805|P50570-3|DNM2 nc|ENSG00000079805|P50570-3|DNM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 521.2915649414062 2 521.290017 1040.56548 3.1106 0.0016215 -0.5586 -0.00029119 2.552 0.0013303 521.2897454106413 55.839 0.25225 56.626 56.491 56.743 0.78711 59 19 4 0 0 0 4.415E-22 2 25525 25472;25525 189.78 118.64 1 5353000 37372 899 23727 23802 41975;41976 41976 0.0468204682290434 VYSPHVLNL 9 Unmodified _VYSPHVLNL_ 0 0 0 nc|ENSG00000079805|P50570-3|DNM2;nc|ENSG00000079805|P50570-2|DNM2;nc|ENSG00000079805|P50570-5|DNM2;nc|ENSG00000079805|P50570|DNM2;ENSG00000079805|ENST00000389253|DNM2;nc|ENSG00000197959|Q9UQ16-5|DNM3;ENST00000441149.6_1_9:130980552-131010310:+|nuORF;nc|ENSG00000106976|Q05193-5|DNM1;nc|ENSG00000106976|Q05193-3|DNM1;nc|ENSG00000197959|Q9UQ16-2|DNM3;ENSG00000197959|ENST00000627582|DNM3;nc|ENSG00000106976|Q05193-2|DNM1;ENSG00000106976|ENST00000372923|DNM1;nc|ENSG00000197959|Q9UQ16|DNM3;nc|ENSG00000197959|Q9UQ16-4|DNM3 nc|ENSG00000079805|P50570-3|DNM2 nc|ENSG00000079805|P50570-3|DNM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.2915649414062 2 521.290017 1040.56548 3.3323 0.0017371 -0.26394 -0.00013759 3.0683 0.0015995 521.2898163906102 56.571 0.29452 56.836 56.671 56.965 0.26543 51 19 3 0 0 0 4.415E-22 2 25877 25833;25877 189.78 108.16 1 5244400 37373 899 23727 23802 41977;41978 41978 0.0468204682290434 VYSPHVLNL 9 Unmodified _VYSPHVLNL_ 0 0 0 nc|ENSG00000079805|P50570-3|DNM2;nc|ENSG00000079805|P50570-2|DNM2;nc|ENSG00000079805|P50570-5|DNM2;nc|ENSG00000079805|P50570|DNM2;ENSG00000079805|ENST00000389253|DNM2;nc|ENSG00000197959|Q9UQ16-5|DNM3;ENST00000441149.6_1_9:130980552-131010310:+|nuORF;nc|ENSG00000106976|Q05193-5|DNM1;nc|ENSG00000106976|Q05193-3|DNM1;nc|ENSG00000197959|Q9UQ16-2|DNM3;ENSG00000197959|ENST00000627582|DNM3;nc|ENSG00000106976|Q05193-2|DNM1;ENSG00000106976|ENST00000372923|DNM1;nc|ENSG00000197959|Q9UQ16|DNM3;nc|ENSG00000197959|Q9UQ16-4|DNM3 nc|ENSG00000079805|P50570-3|DNM2 nc|ENSG00000079805|P50570-3|DNM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.2919921875 2 521.290017 1040.56548 3.3939 0.0017692 -0.075525 -3.937E-05 3.3184 0.0017298 521.2899301644647 55.819 0.31636 56.487 56.316 56.633 0.66797 34 11 4 0 0 0 4.415E-22 1 25520 25520 189.78 108.16 1 5771100 37374 899 23727 23802 41979 41979 0.0468204682290434 VYSPKSPSL 9 Unmodified _VYSPKSPSL_ 0 0 0 nc|ENSG00000102858|O60291-4|MGRN1;nc|ENSG00000102858|O60291|MGRN1;nc|ENSG00000102858|O60291-3|MGRN1;ENSG00000102858|ENST00000262370|MGRN1 nc|ENSG00000102858|O60291-4|MGRN1 nc|ENSG00000102858|O60291-4|MGRN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.27069091796875 2 489.26875 976.522947 3.1009 0.0015172 0.23925 0.00011706 3.3402 0.0016342 489.26896693352677 32.966 0.46384 32.966 32.691 33.155 0 61 28 3 0 0 0 0.023321 3 14914 14865;14914;14962 63.961 21.101 1 738640 37375 1356 23728 23803 41980;41981;41982 41981 0.03374651694673503 VYSPKSPSL 9 Unmodified _VYSPKSPSL_ 0 0 0 nc|ENSG00000102858|O60291-4|MGRN1;nc|ENSG00000102858|O60291|MGRN1;nc|ENSG00000102858|O60291-3|MGRN1;ENSG00000102858|ENST00000262370|MGRN1 nc|ENSG00000102858|O60291-4|MGRN1 nc|ENSG00000102858|O60291-4|MGRN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 489.2702331542969 2 489.26875 976.522947 3.1366 0.0015346 -0.1459 -7.1387E-05 2.9907 0.0014633 489.2686569484501 31.895 0.27368 32.683 32.551 32.824 0.78795 44 25 2 0 0 0 0.0076144 3 14423 14376;14423;14471 86.332 40.311 1 915760 37376 1356 23728 23803 41983;41984;41985 41984 0.03374651694673503 VYSPKSPSL 9 Unmodified _VYSPKSPSL_ 0 0 0 nc|ENSG00000102858|O60291-4|MGRN1;nc|ENSG00000102858|O60291|MGRN1;nc|ENSG00000102858|O60291-3|MGRN1;ENSG00000102858|ENST00000262370|MGRN1 nc|ENSG00000102858|O60291-4|MGRN1 nc|ENSG00000102858|O60291-4|MGRN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 489.77325439453125 2 489.26875 976.522947 3.3429 0.0016356 -0.63347 -0.00030994 2.7094 0.0013256 489.2687454152598 32.739 0.53435 32.993 32.763 33.297 0.25389 51 24 3 0 0 0 0.016529 3 14886 14886;14933;14989 72.968 26.947 1 803830 37377 1356 23728 23803 41986;41987;41988 41986 0.03374651694673503 VYSPKSPSL 9 Unmodified _VYSPKSPSL_ 0 0 0 nc|ENSG00000102858|O60291-4|MGRN1;nc|ENSG00000102858|O60291|MGRN1;nc|ENSG00000102858|O60291-3|MGRN1;ENSG00000102858|ENST00000262370|MGRN1 nc|ENSG00000102858|O60291-4|MGRN1 nc|ENSG00000102858|O60291-4|MGRN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.2703857421875 2 489.26875 976.522947 3.1536 0.001543 0.024162 1.1822E-05 3.1778 0.0015548 489.26882144208867 32.174 0.52119 32.792 32.483 33.005 0.61831 68 27 3 0 0 0 0.0095519 3 14741 14689;14741;14793 82.529 27.768 1 770460 37378 1356 23728 23803 41989;41990;41991 41990 0.03374651694673503 VYSQFITQL 9 Unmodified _VYSQFITQL_ 0 0 0 nc|ENSG00000113522|Q92878-3|RAD50;ENSG00000113522|ENST00000378823|RAD50;nc|ENSG00000113522|Q92878-2|RAD50;ENST00000496204.1_1_5:131931266-131935763:+|nuORF nc|ENSG00000113522|Q92878-3|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.79736328125 2 549.795132 1097.57571 3.0325 0.0016673 0.40265 0.00022137 3.4352 0.0018886 549.7952006363901 75.007 0.21768 75.007 74.947 75.165 0 36 20 2 0 0 0 0.027384 1 36743 36743 58.679 28.042 1 3251600 37379 1858 23729 23804 41992 41992 0.030826097574845335 VYSQFITQL 9 Unmodified _VYSQFITQL_ 0 0 0 nc|ENSG00000113522|Q92878-3|RAD50;ENSG00000113522|ENST00000378823|RAD50;nc|ENSG00000113522|Q92878-2|RAD50;ENST00000496204.1_1_5:131931266-131935763:+|nuORF nc|ENSG00000113522|Q92878-3|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.7969970703125 2 549.795132 1097.57571 2.7562 0.0015154 0.24812 0.00013641 3.0043 0.0016518 550.2965073823884 74.146 0.19989 74.833 74.757 74.957 0.68661 27 17 2 0 0 0 0.0081238 2 35839 35796;35839 85.272 39.251 1 3064500 37380 1858 23729 23804 41993;41994 41994 0.030826097574845335 VYSQFITQL 9 Unmodified _VYSQFITQL_ 0 0 0 nc|ENSG00000113522|Q92878-3|RAD50;ENSG00000113522|ENST00000378823|RAD50;nc|ENSG00000113522|Q92878-2|RAD50;ENST00000496204.1_1_5:131931266-131935763:+|nuORF nc|ENSG00000113522|Q92878-3|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.7981567382812 2 549.795132 1097.57571 3.2425 0.0017827 0.22671 0.00012464 3.4692 0.0019073 549.7952017154263 74.861 0.29341 75.12 74.977 75.27 0.25831 56 25 3 0 0 0 0.02234 1 34427 34427 65.235 34.598 1 1880500 37381 1858 23729 23804 41995 41995 0.030826097574845335 VYSQFITQL 9 Unmodified _VYSQFITQL_ 0 0 0 nc|ENSG00000113522|Q92878-3|RAD50;ENSG00000113522|ENST00000378823|RAD50;nc|ENSG00000113522|Q92878-2|RAD50;ENST00000496204.1_1_5:131931266-131935763:+|nuORF nc|ENSG00000113522|Q92878-3|RAD50 nc|ENSG00000113522|Q92878-3|RAD50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.7954711914062 2 549.795132 1097.57571 3.0452 0.0016742 -0.54488 -0.00029957 2.5003 0.0013747 549.794659566654 74.365 0.30818 75.029 74.886 75.195 0.6644 69 34 3 0 0 0 0.020151 1 34204 34204 68.081 30.107 1 1861100 37382 1858 23729 23804 41996 41996 0.030826097574845335 VYSQIPAAVKL 11 Unmodified _VYSQIPAAVKL_ 0 0 0 nc|ENSG00000104517|O95071-2|UBR5;ENSG00000104517|ENST00000520539|UBR5 nc|ENSG00000104517|O95071-2|UBR5 nc|ENSG00000104517|O95071-2|UBR5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 594.8558959960938 2 594.852981 1187.69141 3.6687 0.0021824 0.68846 0.00040953 4.3572 0.0025919 594.8532880212044 57.862 0.3507 58.124 57.961 58.312 0.26227 37 19 3 0 0 0 0.00015689 2 26514 26457;26514 84.522 68.373 1 827910 37383 1442 23730 23805 41997;41998 41998 0.10507133608325603 VYSQIPAAVKL 11 Unmodified _VYSQIPAAVKL_ 0 0 0 nc|ENSG00000104517|O95071-2|UBR5;ENSG00000104517|ENST00000520539|UBR5 nc|ENSG00000104517|O95071-2|UBR5 nc|ENSG00000104517|O95071-2|UBR5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 594.852981 1187.69141 3.3635 0.0020008 -0.47139 -0.00028041 2.8922 0.0017204 594.8522000598956 58.311 0.045094 58.311 58.274 58.32 0 0.093367 -0.001189 NaN 84.522 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 2514900 37384 1442 23730 23805 0.10507133608325603 VYSRDPNYL 9 Unmodified _VYSRDPNYL_ 0 0 0 nc|ENSG00000114062|Q05086-2|UBE3A;ENSG00000114062|ENST00000648336|UBE3A;nc|ENSG00000114062|Q05086|UBE3A nc|ENSG00000114062|Q05086-2|UBE3A nc|ENSG00000114062|Q05086-2|UBE3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.78076171875 2 563.780013 1125.54547 3.2328 0.0018226 0.70474 0.00039732 3.9375 0.0022199 563.7805332497088 32.302 0.18944 33.09 32.975 33.165 0.78795 21 17 2 0 0 0 0.048676 1 14621 14621 47.749 22.349 1 454450 37385 1888 23731 23806 41999 41999 -0.012277489077177961 VYSRDPNYL 9 Unmodified _VYSRDPNYL_ 0 0 0 nc|ENSG00000114062|Q05086-2|UBE3A;ENSG00000114062|ENST00000648336|UBE3A;nc|ENSG00000114062|Q05086|UBE3A nc|ENSG00000114062|Q05086-2|UBE3A nc|ENSG00000114062|Q05086-2|UBE3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 563.7816772460938 2 563.780013 1125.54547 3.6516 0.0020587 -0.4891 -0.00027575 3.1625 0.0017829 563.7798112698938 33.238 0.24038 33.492 33.402 33.642 0.25389 16 10 2 0 0 0 0.099775 1 15149 15149 32.786 18.204 1 155800 37386 1888 23731 23806 42000 42000 -0.012277489077177961 VYSRDPNYL 9 Unmodified _VYSRDPNYL_ 0 0 0 nc|ENSG00000114062|Q05086-2|UBE3A;ENSG00000114062|ENST00000648336|UBE3A;nc|ENSG00000114062|Q05086|UBE3A nc|ENSG00000114062|Q05086-2|UBE3A nc|ENSG00000114062|Q05086-2|UBE3A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 563.780013 1125.54547 3.4676 0.001955 -0.64434 -0.00036327 2.8233 0.0015917 563.7803706822758 32.773 0.22984 33.391 33.273 33.503 0.61831 -0.05054 -8.52E-05 NaN 32.786 15 9 2 NaN NaN NaN NaN 0 NaN NaN 0 155060 37387 1888 23731 23806 -0.012277489077177961 VYSRRWRQWRK 11 Unmodified _VYSRRWRQWRK_ 0 0 0 REV__ENST00000216456.6_1_14:68126581-68129225:-|nuORF REV__ENST00000216456.6_1_14:68126581-68129225:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 540.9705200195312 3 540.970925 1619.89095 NaN NaN NaN NaN NaN NaN NaN 25.949 1 26.713 26.213 27.213 0.76356 0 0 0 1.0082 1 11650 11650 0 0 1 + 37388 14811 23732 23807 42001 42001 0.10579626399430708 VYSRTFTW 8 Unmodified _VYSRTFTW_ 0 0 0 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;MYO1C|p.P889Lfs*40|1|0.02|ENSG00000197879|chr17:1468441-1468442|-/TTGCA|frameshift_variant nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.268798828125 2 530.266542 1058.51853 2.5911 0.001374 1.3487 0.00071518 3.9398 0.0020892 530.2673182501076 51.365 0.12302 52.182 52.099 52.222 0.81738 16 8 2 0 0 0 0.07371 1 23380 23380 57.722 27.497 1 796870 37389 5847 23733 23808 42002 42002 -0.008388127282387359 VYSRTFTW 8 Unmodified _VYSRTFTW_ 0 0 0 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;MYO1C|p.P889Lfs*40|1|0.02|ENSG00000197879|chr17:1468441-1468442|-/TTGCA|frameshift_variant nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 530.2677612304688 2 530.266542 1058.51853 3.2052 0.0016996 0.15022 7.9656E-05 3.3554 0.0017793 530.2665369618386 52.541 0.21328 52.804 52.701 52.915 0.26345 12 7 2 0 0 0 0.13532 1 24043 24043 49.933 25.259 1 354410 37390 5847 23733 23808 42003 42003 -0.008388127282387359 VYSRTFTW 8 Unmodified _VYSRTFTW_ 0 0 0 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;MYO1C|p.P889Lfs*40|1|0.02|ENSG00000197879|chr17:1468441-1468442|-/TTGCA|frameshift_variant nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.2678833007812 2 530.266542 1058.51853 3.0834 0.001635 -0.092446 -4.9021E-05 2.9909 0.001586 530.2662407334333 52.035 0.24602 52.697 52.58 52.826 0.66198 19 11 2 0 0 0 0.13532 1 23798 23798 49.933 25.259 1 268900 37391 5847 23733 23808 42004 42004 -0.008388127282387359 VYSRTFTW 8 Unmodified _VYSRTFTW_ 0 0 0 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;MYO1C|p.P889Lfs*40|1|0.02|ENSG00000197879|chr17:1468441-1468442|-/TTGCA|frameshift_variant nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 530.266542 1058.51853 3.0457 0.001615 -0.32609 -0.00017292 2.7196 0.0014421 530.2659214370784 52.556 0.21933 52.556 52.41 52.629 0 -0.12943 -0.00025865 NaN 49.933 26 21 2 NaN NaN NaN NaN 0 NaN NaN 0 678650 37392 5847 23733 23808 -0.008388127282387359 VYSRTFTWL 9 Unmodified _VYSRTFTWL_ 0 0 0 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;MYO1C|p.P889Lfs*40|1|0.02|ENSG00000197879|chr17:1468441-1468442|-/TTGCA|frameshift_variant nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.8087158203125 2 586.808574 1171.60259 2.9175 0.001712 -0.89449 -0.0005249 2.023 0.0011871 586.8080308352802 68.357 0.1958 68.357 68.271 68.467 0 43 26 2 0 0 0 0.11155 1 32902 32902 29.841 10.584 1 4135200 37393 5847 23734 23809 42005 42005 0.02365718368673697 VYSRTFTWL 9 Unmodified _VYSRTFTWL_ 0 0 0 nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;MYO1C|p.P889Lfs*40|1|0.02|ENSG00000197879|chr17:1468441-1468442|-/TTGCA|frameshift_variant nc|ENSG00000197879|O00159-2|MYO1C nc|ENSG00000197879|O00159-2|MYO1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.81103515625 2 586.808574 1171.60259 3.4514 0.0020253 1.2712 0.00074593 4.7226 0.0027712 586.8088063877764 67.73 0.33119 68.388 68.238 68.569 0.65777 27 19 2 0 0 0 0.0076144 2 31057 31008;31057 86.332 37.831 1 1391900 37394 5847 23734 23809 42006;42007 42007 0.02365718368673697 VYSTCTITL 9 Unmodified _VYSTCTITL_ 0 0 0 ENSG00000241058|ENST00000377304|NSUN6 ENSG00000241058|ENST00000377304|NSUN6 ENSG00000241058|ENST00000377304|NSUN6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.7571716308594 2 500.754618 999.494683 3.2115 0.0016082 -0.060069 -3.008E-05 3.1515 0.0015781 500.7548339498247 83.976 0.41942 84.223 84.033 84.452 0.24722 57 23 3 0 0 0 0.20384 1 38700 38700 23.148 6.2061 1 1922800 37395 6220 23735 23810 42008 42008 -0.005084142769192113 VYTDFAFRI 9 Unmodified _VYTDFAFRI_ 0 0 0 ENSG00000162408|ENST00000377705|NOL9;ENST00000462798.1_1_1:6592521-6593409:-|nuORF ENSG00000162408|ENST00000377705|NOL9 ENSG00000162408|ENST00000377705|NOL9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.2975463867188 2 566.295299 1130.57605 2.7927 0.0015815 1.1706 0.0006629 3.9633 0.0022444 566.2960267152733 74.002 0.10604 74.002 73.938 74.044 0 12 10 2 0 0 0 0.034495 1 36122 36122 53.833 23.196 1 1115500 37396 4135 23736 23811 42009 42009 0.015980294773271453 VYTDFAFRI 9 Unmodified _VYTDFAFRI_ 0 0 0 ENSG00000162408|ENST00000377705|NOL9;ENST00000462798.1_1_1:6592521-6593409:-|nuORF ENSG00000162408|ENST00000377705|NOL9 ENSG00000162408|ENST00000377705|NOL9 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 566.295299 1130.57605 3.0141 0.0017069 -1.5593 -0.00088305 1.4548 0.00082384 566.2937116489312 73.25 0.040115 73.914 73.896 73.936 0.66398 -0.044012 -0.0024362 NaN 53.833 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1040600 37397 4135 23736 23811 0.015980294773271453 VYTFRDPNKN 10 Unmodified _VYTFRDPNKN_ 0 0 0 ENSG00000102239|ENST00000370648|BRS3 ENSG00000102239|ENST00000370648|BRS3 ENSG00000102239|ENST00000370648|BRS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 627.32177734375 2 627.317294 1252.62004 NaN NaN NaN NaN NaN NaN NaN 78.656 1 78.907 78.407 79.407 0.25127 0 0 0 0.98866 1 36219 36219 7.2892 1.0834 1 37398 1338 23737 23812 42010 42010 0.0038301390366086707 VYTGIDHHW 9 Unmodified _VYTGIDHHW_ 0 0 0 ENSG00000164934|ENST00000612750|DCAF13;ENST00000495256.1_1_7:105766226-105766550:+|nuORF ENSG00000164934|ENST00000612750|DCAF13 ENSG00000164934|ENST00000612750|DCAF13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.5149230957031 3 376.513807 1126.51959 2.5068 0.00094386 -0.69034 -0.00025992 1.8165 0.00068394 376.51344252956847 34.107 0.13113 34.107 33.996 34.127 0 12 7 2 0 0 0 0.22507 1 15455 15455 20.415 17.095 1 508200 37399 4357 23738 23813 42011 42011 -0.03860598359347023 VYTGIDHHW 9 Unmodified _VYTGIDHHW_ 0 0 0 ENSG00000164934|ENST00000612750|DCAF13;ENST00000495256.1_1_7:105766226-105766550:+|nuORF ENSG00000164934|ENST00000612750|DCAF13 ENSG00000164934|ENST00000612750|DCAF13 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.748046875 2 564.267073 1126.51959 3.1351 0.0017691 1.5499 0.00087454 4.685 0.0026436 564.2684441255352 34.064 0.1479 34.064 33.979 34.127 0 11 8 2 0 0 0 0.019666 1 15443 15443 44.407 19.008 1 1112500 37400 4357 23738 23813 42012 42012 -0.03860598359347023 VYTGIDHHW 9 Unmodified _VYTGIDHHW_ 0 0 0 ENSG00000164934|ENST00000612750|DCAF13;ENST00000495256.1_1_7:105766226-105766550:+|nuORF ENSG00000164934|ENST00000612750|DCAF13 ENSG00000164934|ENST00000612750|DCAF13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.5143737792969 3 376.513807 1126.51959 2.1211 0.00079864 -0.02895 -1.09E-05 2.0922 0.00078774 376.51371397444615 33.009 0.21452 33.797 33.716 33.931 0.78795 20 12 2 0 0 0 0.29781 1 14927 14927 21.537 13.928 1 331790 37401 4357 23738 23813 42013 42013 -0.03860598359347023 VYTGIDHHW 9 Unmodified _VYTGIDHHW_ 0 0 0 ENSG00000164934|ENST00000612750|DCAF13;ENST00000495256.1_1_7:105766226-105766550:+|nuORF ENSG00000164934|ENST00000612750|DCAF13 ENSG00000164934|ENST00000612750|DCAF13 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.7478637695312 2 564.267073 1126.51959 3.0876 0.0017422 0.93775 0.00052914 4.0253 0.0022714 564.267642701432 33.057 0.21452 33.845 33.716 33.931 0.78795 19 12 2 0 0 0 0.033326 1 14947 14947 36.044 18.931 1 395700 37402 4357 23738 23813 42014 42014 -0.03860598359347023 VYTGIDHHW 9 Unmodified _VYTGIDHHW_ 0 0 0 ENSG00000164934|ENST00000612750|DCAF13;ENST00000495256.1_1_7:105766226-105766550:+|nuORF ENSG00000164934|ENST00000612750|DCAF13 ENSG00000164934|ENST00000612750|DCAF13 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 376.5148010253906 3 376.513807 1126.51959 2.5457 0.00095848 -0.11726 -4.4151E-05 2.4284 0.00091433 376.513709752189 33.552 0.22556 34.172 34.079 34.304 0.62031 16 7 3 0 0 0 0.49692 1 15386 15386 12.241 12.241 1 234670 37403 4357 23738 23813 42015 42015 -0.03860598359347023 VYTGIDHHW 9 Unmodified _VYTGIDHHW_ 0 0 0 ENSG00000164934|ENST00000612750|DCAF13;ENST00000495256.1_1_7:105766226-105766550:+|nuORF ENSG00000164934|ENST00000612750|DCAF13 ENSG00000164934|ENST00000612750|DCAF13 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.7471923828125 2 564.267073 1126.51959 3.419 0.0019292 -0.36091 -0.00020365 3.0581 0.0017256 564.2673196340387 33.591 0.22534 34.212 34.052 34.278 0.62031 11 7 2 0 0 0 0.084995 1 15348 15348 18.135 8.0611 1 143610 37404 4357 23738 23813 42016 42016 -0.03860598359347023 VYTKNDTFI 9 Unmodified _VYTKNDTFI_ 0 0 0 REV__nc|ENSG00000197415|Q14D04-2|VEPH1 REV__nc|ENSG00000197415|Q14D04-2|VEPH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.7867431640625 2 550.784764 1099.55498 3.5612 0.0019614 0.38942 0.00021449 3.9506 0.0021759 550.7849818402855 39.608 0.26027 39.875 39.702 39.962 0.26696 14 9 2 0 0 0 0.24465 1 18037 18037 20.454 1.1966 1 283530 + 37405 14277 23739 23814 42017 42017 0.009180193778092871 VYTLGRRVN 9 Unmodified _VYTLGRRVN_ 0 0 0 REV__ENST00000472616.1_1_7:139790896-139796717:-|nuORF REV__ENST00000472616.1_1_7:139790896-139796717:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.313232421875 2 539.311815 1076.60908 NaN NaN NaN NaN NaN NaN NaN 85.154 1 85.154 84.654 85.654 0 0 0 0 0.8984 1 43276 43276 3.9444 0 1 + 37406 16617 23740 23815 42018 42018 0.07383656320052978 VYTLVLGFVL 10 Unmodified _VYTLVLGFVL_ 0 0 0 ENSG00000125522|ENST00000684052|NPBWR2 ENSG00000125522|ENST00000684052|NPBWR2 ENSG00000125522|ENST00000684052|NPBWR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.3413696289062 2 562.341718 1122.66888 NaN NaN NaN NaN NaN NaN NaN 80.873 1 81.533 81.033 82.033 0.65998 0 0 0 0.98866 1 37263 37263 7.2892 4.9865 1 37407 2404 23741 23816 42019 42019 0.11245534210706865 VYTPPPRLL 9 Unmodified _VYTPPPRLL_ 0 0 0 ENSG00000145934|ENST00000518659|TENM2;nc|ENSG00000145934|Q9NT68-2|TENM2 ENSG00000145934|ENST00000518659|TENM2 ENSG00000145934|ENST00000518659|TENM2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 528.765869140625 2 528.316035 1054.61752 3.2428 0.0017132 -2.224 -0.001175 1.0187 0.00053821 528.3145778371753 51.585 0.26976 51.585 51.44 51.71 0 29 15 2 0 0 0 0.062228 1 23665 23665 20.454 11.106 1 504750 37408 3497 23742 23817 42020 42020 0.09239210236660256 VYTPPPRLL 9 Unmodified _VYTPPPRLL_ 0 0 0 ENSG00000145934|ENST00000518659|TENM2;nc|ENSG00000145934|Q9NT68-2|TENM2 ENSG00000145934|ENST00000518659|TENM2 ENSG00000145934|ENST00000518659|TENM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.3162231445312 2 528.316035 1054.61752 2.9509 0.001559 -1.7262 -0.00091197 1.2247 0.00064702 528.3153880150095 50.745 0.27566 51.562 51.45 51.725 0.81738 20 14 2 0 0 0 0.43294 1 23110 23110 19.257 13.497 1 380220 37409 3497 23742 23817 42021 42021 0.09239210236660256 VYTPTDTLVF 10 Unmodified _VYTPTDTLVF_ 0 0 0 nc|ENSG00000173120|Q9Y2K7-3|KDM2A;ENSG00000173120|ENST00000529006|KDM2A;ENST00000525379.1_1_11:66985159-66986889:+|nuORF nc|ENSG00000173120|Q9Y2K7-3|KDM2A nc|ENSG00000173120|Q9Y2K7-3|KDM2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.3018188476562 2 578.300247 1154.58594 3.1514 0.0018225 0.6335 0.00036635 3.7849 0.0021888 578.3006037210351 79.385 0.31356 79.636 79.446 79.759 0.25127 33 17 3 0 0 0 0.13117 2 36530 36530;36585 48.346 32.499 1 1050200 37410 4915 23743 23818 42022;42023 42022 0.014831726920419896 VYTPTDTLVF 10 Unmodified _VYTPTDTLVF_ 0 0 0 nc|ENSG00000173120|Q9Y2K7-3|KDM2A;ENSG00000173120|ENST00000529006|KDM2A;ENST00000525379.1_1_11:66985159-66986889:+|nuORF nc|ENSG00000173120|Q9Y2K7-3|KDM2A nc|ENSG00000173120|Q9Y2K7-3|KDM2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.3011474609375 2 578.300247 1154.58594 3.6606 0.0021169 0.24569 0.00014208 3.9063 0.002259 578.3001485817852 78.802 0.32296 79.464 79.338 79.661 0.66198 49 21 3 0 0 0 0.13117 2 36301 36301;36363 48.346 26.599 1 914670 37411 4915 23743 23818 42024;42025 42024 0.014831726920419896 VYTRHMTWI 9 Unmodified _VYTRHMTWI_ 0 0 0 nc|ENSG00000171453|O15160-2|POLR1C;ENSG00000171453|ENST00000642195|POLR1C;ENST00000455605.2_1_6:43488011-43488227:+|nuORF;ENST00000481352.6_1_6:43488011-43488806:+|nuORF nc|ENSG00000171453|O15160-2|POLR1C nc|ENSG00000171453|O15160-2|POLR1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 603.8101196289062 2 603.808051 1205.60155 3.4122 0.0020603 0.17338 0.00010469 3.5856 0.002165 604.3098471321293 42.944 0.15773 42.944 42.828 42.986 0 15 7 3 0 0 0 0.026853 1 19530 19530 59.368 30.287 1 643730 37412 4803 23744 23819 42026 42026 0.006971807281161091 VYTRHMTWI 9 Unmodified _VYTRHMTWI_ 0 0 0 nc|ENSG00000171453|O15160-2|POLR1C;ENSG00000171453|ENST00000642195|POLR1C;ENST00000455605.2_1_6:43488011-43488227:+|nuORF;ENST00000481352.6_1_6:43488011-43488806:+|nuORF nc|ENSG00000171453|O15160-2|POLR1C nc|ENSG00000171453|O15160-2|POLR1C MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 603.808051 1205.60155 3.3411 0.0020174 1.1624 0.00070186 4.5035 0.0027193 603.808393898168 41.748 0.061089 42.556 42.508 42.569 0.80855 -0.19396 0.0010079 NaN 59.368 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 590550 37413 4803 23744 23819 0.006971807281161091 VYTSGIYNI 9 Unmodified _VYTSGIYNI_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1;nc|ENSG00000079308|Q9HBL0-2|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.2669677734375 2 515.266207 1028.51786 3.4527 0.0017791 -0.29559 -0.00015231 3.1571 0.0016267 515.2660397255521 61.432 0.31752 61.685 61.547 61.864 0.25245 29 13 3 0 0 0 0.0061269 1 28123 28123 89.427 41.081 1 1743200 37414 892 23745 23820 42027 42027 0.004743478320506256 VYTSGIYNI 9 Unmodified _VYTSGIYNI_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1;nc|ENSG00000079308|Q9HBL0-2|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.267822265625 2 515.266207 1028.51786 3.4032 0.0017535 -0.024343 -1.2543E-05 3.3788 0.001741 515.2661404971425 60.873 0.29575 61.535 61.379 61.674 0.66261 25 12 3 0 0 0 0.0013377 2 27884 27834;27884 117.6 46.465 1 1399800 37415 892 23745 23820 42028;42029 42029 0.004743478320506256 VYTSGVYHI 9 Unmodified _VYTSGVYHI_ 0 0 0 nc|ENSG00000111077|Q63HR2-5|TNS2;nc|ENSG00000111077|Q63HR2-2|TNS2;ENST00000549311.7_1_12:53443879-53456445:+|nuORF;nc|ENSG00000111077|Q63HR2-6|TNS2;ENSG00000111077|ENST00000314250|TNS2;nc|ENSG00000111077|Q63HR2-4|TNS2;TNS2|p.R491Gfs*29|1|0.24|ENSG00000111077|chr12:53059109-53059109|C/-|frameshift_variant;TNS2|p.T701Cfs*52|1|0.31|ENSG00000111077|chr12:53059738-53059747|GCCTACAGCA/-|frameshift_variant nc|ENSG00000111077|Q63HR2-5|TNS2 nc|ENSG00000111077|Q63HR2-5|TNS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 519.7676391601562 2 519.766374 1037.5182 3.1576 0.0016412 0.5663 0.00029434 3.7239 0.0019356 519.766512027983 42.858 0.29273 42.858 42.693 42.986 0 21 14 2 0 0 0 0.0039848 1 19511 19511 93.883 51.789 1 1541600 37416 1743 23746 23821 42030 42030 0.0009376755190260155 VYTSGVYHI 9 Unmodified _VYTSGVYHI_ 0 0 0 nc|ENSG00000111077|Q63HR2-5|TNS2;nc|ENSG00000111077|Q63HR2-2|TNS2;ENST00000549311.7_1_12:53443879-53456445:+|nuORF;nc|ENSG00000111077|Q63HR2-6|TNS2;ENSG00000111077|ENST00000314250|TNS2;nc|ENSG00000111077|Q63HR2-4|TNS2;TNS2|p.R491Gfs*29|1|0.24|ENSG00000111077|chr12:53059109-53059109|C/-|frameshift_variant;TNS2|p.T701Cfs*52|1|0.31|ENSG00000111077|chr12:53059738-53059747|GCCTACAGCA/-|frameshift_variant nc|ENSG00000111077|Q63HR2-5|TNS2 nc|ENSG00000111077|Q63HR2-5|TNS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.7688598632812 2 519.766374 1037.5182 3.3511 0.0017418 0.43693 0.0002271 3.788 0.0019689 519.7664514830012 41.803 0.21566 42.612 42.517 42.733 0.80855 23 14 2 0 0 0 0.0039848 1 18980 18980 93.883 51.789 1 2200500 37417 1743 23746 23821 42031 42031 0.0009376755190260155 VYTSKSDVW 9 Unmodified _VYTSKSDVW_ 0 0 0 ENSG00000167601|ENST00000301178|AXL;nc|ENSG00000167601|P30530-2|AXL;ENSG00000153208|ENST00000295408|MERTK ENSG00000167601|ENST00000301178|AXL;ENSG00000153208|ENST00000295408|MERTK ENSG00000167601|ENST00000301178|AXL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.7715454101562 2 542.769114 1083.52368 NaN NaN NaN NaN NaN NaN NaN 35.519 1 35.519 35.019 36.019 0 0 0 0 0.024004 1 16117 16117 66.457 33.671 1 37418 4562;3778 23747 23822 42032 42032 -0.014745536562941197 VYTSKSDVW 9 Unmodified _VYTSKSDVW_ 0 0 0 ENSG00000167601|ENST00000301178|AXL;nc|ENSG00000167601|P30530-2|AXL;ENSG00000153208|ENST00000295408|MERTK ENSG00000167601|ENST00000301178|AXL;ENSG00000153208|ENST00000295408|MERTK ENSG00000167601|ENST00000301178|AXL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.7701416015625 2 542.769114 1083.52368 3.3325 0.0018088 -0.035543 -1.9291E-05 3.2969 0.0017895 542.768950486799 35.545 0.34316 35.801 35.651 35.994 0.25524 30 11 3 0 0 0 0.02812 2 16207 16207;16269 57.722 31.454 1 1122900 37419 4562;3778 23747 23822 42033;42034 42033 -0.014745536562941197 VYTSKSDVW 9 Unmodified _VYTSKSDVW_ 0 0 0 ENSG00000167601|ENST00000301178|AXL;nc|ENSG00000167601|P30530-2|AXL;ENSG00000153208|ENST00000295408|MERTK ENSG00000167601|ENST00000301178|AXL;ENSG00000153208|ENST00000295408|MERTK ENSG00000167601|ENST00000301178|AXL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.7716064453125 2 542.769114 1083.52368 3.4751 0.0018862 0.82335 0.00044689 4.2984 0.002333 542.7693835816156 35.152 0.28014 35.775 35.654 35.934 0.62294 26 11 3 0 0 0 0.03963 1 16115 16115 51.63 28.894 1 761190 37420 4562;3778 23747 23822 42035 42035 -0.014745536562941197 VYTSKSDVWSF 11 Unmodified _VYTSKSDVWSF_ 0 0 0 ENSG00000167601|ENST00000301178|AXL;nc|ENSG00000167601|P30530-2|AXL ENSG00000167601|ENST00000301178|AXL ENSG00000167601|ENST00000301178|AXL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 659.8211059570312 2 659.819335 1317.62412 3.474 0.0022922 -0.49144 -0.00032426 2.9826 0.0019679 659.8190852789128 60.184 0.1977 60.184 60.099 60.297 0 34 20 2 0 0 0 1.6602E-09 2 27939 27885;27939 112.04 72.091 1 5055300 37421 4562 23748 23823 42036;42037 42037 -0.02198941393317 VYTSKSDVWSF 11 Unmodified _VYTSKSDVWSF_ 0 0 0 ENSG00000167601|ENST00000301178|AXL;nc|ENSG00000167601|P30530-2|AXL ENSG00000167601|ENST00000301178|AXL ENSG00000167601|ENST00000301178|AXL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 659.8233032226562 2 659.819335 1317.62412 3.4034 0.0022456 -0.44696 -0.00029491 2.9564 0.0019507 659.8191089551772 58.905 0.24048 59.664 59.578 59.819 0.75894 46 25 2 0 0 0 0.01115 2 27126 27056;27126 64.927 43.39 1 4632000 37422 4562 23748 23823 42038;42039 42039 -0.02198941393317 VYTSKSDVWSF 11 Unmodified _VYTSKSDVWSF_ 0 0 0 ENSG00000167601|ENST00000301178|AXL;nc|ENSG00000167601|P30530-2|AXL ENSG00000167601|ENST00000301178|AXL ENSG00000167601|ENST00000301178|AXL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 659.8218383789062 2 659.819335 1317.62412 3.8129 0.0025158 0.32804 0.00021645 4.1409 0.0027323 659.8194231185244 60.046 0.36006 60.302 60.121 60.481 0.25578 43 16 3 0 0 0 1.9098999999999998E-21 2 27523 27480;27523 150.18 94 1 1918300 37423 4562 23748 23823 42040;42041 42041 -0.02198941393317 VYTSKSDVWSF 11 Unmodified _VYTSKSDVWSF_ 0 0 0 ENSG00000167601|ENST00000301178|AXL;nc|ENSG00000167601|P30530-2|AXL ENSG00000167601|ENST00000301178|AXL ENSG00000167601|ENST00000301178|AXL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 659.8207397460938 2 659.819335 1317.62412 NaN NaN NaN NaN NaN NaN NaN 60.234 1 60.49 59.99 60.99 0.25578 0 0 0 0.94958 1 27581 27581 11.495 4.2055 1 37424 4562 23748 23823 42042 42042 -0.02198941393317 VYTSKSDVWSF 11 Unmodified _VYTSKSDVWSF_ 0 0 0 ENSG00000167601|ENST00000301178|AXL;nc|ENSG00000167601|P30530-2|AXL ENSG00000167601|ENST00000301178|AXL ENSG00000167601|ENST00000301178|AXL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 659.82177734375 2 659.819335 1317.62412 3.9546 0.0026093 0.11878 7.8372E-05 4.0734 0.0026877 659.8198212924176 59.531 0.37407 60.196 59.993 60.367 0.66503 35 16 3 0 0 0 2.1816E-10 3 27263 27202;27263;27309 121.93 92.089 1 2144200 37425 4562 23748 23823 42043;42044;42045 42044 -0.02198941393317 VYTSVVEEL 9 Unmodified _VYTSVVEEL_ 0 0 0 nc|ENSG00000013288|Q9Y2E5-2|MAN2B2;ENSG00000013288|ENST00000285599|MAN2B2 nc|ENSG00000013288|Q9Y2E5-2|MAN2B2 nc|ENSG00000013288|Q9Y2E5-2|MAN2B2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1038.537841796875 1 1038.53537 1037.52809 3.6399 0.0037802 -0.13508 -0.00014028 3.5048 0.0036399 1038.534579918347 65.012 0.18865 65.669 65.558 65.746 0.65672 18 14 2 0 0 0 0.078322 1 29772 29772 38.151 13.477 1 492200 37426 429 23749 23824 42046 42046 0.010829107666040727 VYTSVVEEL 9 Unmodified _VYTSVVEEL_ 0 0 0 nc|ENSG00000013288|Q9Y2E5-2|MAN2B2;ENSG00000013288|ENST00000285599|MAN2B2 nc|ENSG00000013288|Q9Y2E5-2|MAN2B2 nc|ENSG00000013288|Q9Y2E5-2|MAN2B2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 519.7713623046875 2 519.771322 1037.52809 3.4733 0.0018053 0.41953 0.00021806 3.8928 0.0020234 519.771154347928 64.961 0.23561 65.618 65.489 65.725 0.65672 26 17 2 0 0 0 0.026068 1 29789 29789 60.39 26.287 1 757130 37427 429 23749 23824 42047 42047 0.010829107666040727 VYTSVVEEL 9 Unmodified _VYTSVVEEL_ 0 0 0 nc|ENSG00000013288|Q9Y2E5-2|MAN2B2;ENSG00000013288|ENST00000285599|MAN2B2 nc|ENSG00000013288|Q9Y2E5-2|MAN2B2 nc|ENSG00000013288|Q9Y2E5-2|MAN2B2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 519.771322 1037.52809 2.851 0.0014819 0.31239 0.00016237 3.1634 0.0016442 520.2728727985647 64.866 0.068283 65.581 65.527 65.595 0.71521 -0.088734 0.0010882 NaN 60.39 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 1394900 37428 429 23749 23824 0.010829107666040727 VYTTTVHWL 9 Unmodified _VYTTTVHWL_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.2974243164062 2 560.295299 1118.57605 3.1686 0.0017753 -0.094267 -5.2817E-05 3.0743 0.0017225 560.2957935303747 61.075 0.2404 61.075 61.005 61.245 0 38 23 2 0 0 0 0.018173 1 28486 28486 70.716 45.725 1 2127100 37429 4968 23750 23825 42048 42048 0.021500294773204587 VYTTTVHWL 9 Unmodified _VYTTTVHWL_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.2970581054688 2 560.295299 1118.57605 3.5783 0.0020049 0.4923 0.00027583 4.0706 0.0022807 560.2957427423672 61.134 0.37143 61.387 61.175 61.547 0.25245 36 17 3 0 0 0 0.018173 2 27974 27974;28029 70.716 37.93 1 1569600 37430 4968 23750 23825 42049;42050 42049 0.021500294773204587 VYTTTVHWL 9 Unmodified _VYTTTVHWL_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.2977294921875 2 560.295299 1118.57605 3.5487 0.0019883 0.1543 8.6455E-05 3.703 0.0020748 560.29589554582 60.529 0.34377 61.192 60.979 61.322 0.66261 37 17 3 0 0 0 0.018173 2 27693 27693;27745 70.716 34.209 1 1576500 37431 4968 23750 23825 42051;42052 42051 0.021500294773204587 VYTTTVHWL 9 Unmodified _VYTTTVHWL_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 560.295299 1118.57605 2.9591 0.0016579 2.2091 0.0012377 5.1681 0.0028957 560.7960959020828 60.297 0.035763 61.046 61.019 61.054 0.74927 -0.12833 0.0021914 NaN 70.716 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 3662000 37432 4968 23750 23825 0.021500294773204587 VYTVVDEMF 9 Unmodified _VYTVVDEMF_ 0 0 0 ENSG00000042753|ENST00000263270|AP2S1;nc|ENSG00000042753|P53680-2|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.2630615234375 2 551.759901 1101.50525 3.3775 0.0018635 -0.77756 -0.00042903 2.5999 0.0014345 551.7595472124643 81.409 0.37733 81.657 81.482 81.86 0.24802 44 20 3 0 0 0 0.050606 2 37469 37469;37525 46.921 16.696 1 1067000 37433 543 23751 23826 42053;42054 42053 -0.04144431622512457 VYTVVDEMF 9 Unmodified _VYTVVDEMF_ 0 0 0 ENSG00000042753|ENST00000263270|AP2S1;nc|ENSG00000042753|P53680-2|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1102.5091552734375 1 1102.51252 1101.50525 2.9973 0.0033046 0.37726 0.00041593 3.3746 0.0037205 1102.512449298822 81.402 0.19267 81.65 81.54 81.733 0.24802 20 11 2 0 0 0 0.10245 1 37506 37506 32.117 8.9685 1 628410 37434 543 23751 23826 42055 42055 -0.04144431622512457 VYTVVDEMF 9 Unmodified _VYTVVDEMF_ 0 0 0 ENSG00000042753|ENST00000263270|AP2S1;nc|ENSG00000042753|P53680-2|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.7615356445312 2 551.759901 1101.50525 3.6028 0.0019879 -0.58522 -0.0003229 3.0176 0.001665 551.7596533483468 80.811 0.32022 81.471 81.295 81.615 0.65997 34 16 3 0 0 0 0.018173 2 37257 37210;37257 70.716 34.671 1 1016400 37435 543 23751 23826 42056;42057 42057 -0.04144431622512457 VYTVVDEMF 9 Unmodified _VYTVVDEMF_ 0 0 0 ENSG00000042753|ENST00000263270|AP2S1;nc|ENSG00000042753|P53680-2|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1102.515869140625 1 1102.51252 1101.50525 3.416 0.0037662 -0.32742 -0.00036099 3.0886 0.0034052 1102.5111388755474 80.782 0.27435 81.442 81.341 81.615 0.65998 20 13 2 0 0 0 0.078322 1 37237 37237 38.151 2.107 1 953380 37436 543 23751 23826 42058 42058 -0.04144431622512457 VYTVVDEMFL 10 Oxidation (M) _VYTVVDEM(Oxidation (M))FL_ VYTVVDEM(1)FL VYTVVDEM(110)FL 0 0 1 ENSG00000042753|ENST00000263270|AP2S1;nc|ENSG00000042753|P53680-2|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 616.3023681640625 2 616.29939 1230.58423 3.4306 0.0021143 0.15382 9.48E-05 3.5845 0.0022091 616.2994158279355 78.632 0.48663 78.883 78.61 79.097 0.25127 84 30 4 0 0 0 3.1138E-05 5 36185 36129;36134;36185;36229;36276 112.59 66.572 1 1693500 37437 543 23752 23827 42059;42060;42061;42062;42063 42061 2 -0.021842043882088547 VYTVVDEMFL 10 Oxidation (M) _VYTVVDEM(Oxidation (M))FL_ VYTVVDEM(1)FL VYTVVDEM(100)FL 0 0 1 ENSG00000042753|ENST00000263270|AP2S1;nc|ENSG00000042753|P53680-2|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 616.30029296875 2 616.29939 1230.58423 3.4964 0.0021548 0.25414 0.00015663 3.7505 0.0023114 616.2996565186504 78.168 0.4061 78.83 78.573 78.979 0.66198 63 23 3 0 0 0 0.0018626 2 35971 35971;36024 100.37 48.103 1 1804600 37438 543 23752 23827 42064;42065 42064 2 -0.021842043882088547 VYTVVDEMFL 10 Unmodified _VYTVVDEMFL_ 0 0 0 ENSG00000042753|ENST00000263270|AP2S1;nc|ENSG00000042753|P53680-2|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 608.3048095703125 2 608.301933 1214.58931 4.238 0.002578 -0.64082 -0.00038981 3.5971 0.0021882 608.3016905778526 94.278 0.45924 94.538 94.302 94.761 0.25975 60 21 4 0 0 0 0.0069609 2 43290 43290;43346 92.822 44.476 1 2281200 37439 543 23752 23828 42066;42067 42066 -0.009399005256000237 VYTVVDEMFL 10 Unmodified _VYTVVDEMFL_ 0 0 0 ENSG00000042753|ENST00000263270|AP2S1;nc|ENSG00000042753|P53680-2|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1215.5953369140625 1 1215.59659 1214.58931 3.8313 0.0046573 -1.3728 -0.0016687 2.4585 0.0029885 1215.594387223465 94.269 0.26965 94.529 94.389 94.658 0.25975 21 13 2 0 0 0 0.51828 1 43318 43318 20.454 4.6064 1 494720 37440 543 23752 23828 42068 42068 -0.009399005256000237 VYTVVDEMFL 10 Unmodified _VYTVVDEMFL_ 0 0 0 ENSG00000042753|ENST00000263270|AP2S1;nc|ENSG00000042753|P53680-2|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 ENSG00000042753|ENST00000263270|AP2S1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 608.3040161132812 2 608.301933 1214.58931 3.8602 0.0023482 0.061641 3.7496E-05 3.9219 0.0023857 608.3017153254692 93.647 0.38039 94.278 94.082 94.462 0.63115 40 16 3 0 0 0 0.0069609 2 43056 43056;43103 92.822 44.476 1 2257600 37441 543 23752 23828 42069;42070 42069 -0.009399005256000237 VYTYIQSRF 9 Unmodified _VYTYIQSRF_ 0 0 0 nc|ENSG00000127334|Q92630-2|DYRK2;ENSG00000127334|ENST00000344096|DYRK2;nc|ENSG00000010219|Q9NR20-5|DYRK4;nc|ENSG00000010219|Q9NR20-2|DYRK4;nc|ENSG00000010219|Q9NR20|DYRK4;ENSG00000010219|ENST00000543431|DYRK4;nc|ENSG00000010219|Q9NR20-3|DYRK4;nc|ENSG00000010219|Q9NR20-4|DYRK4 nc|ENSG00000127334|Q92630-2|DYRK2 nc|ENSG00000127334|Q92630-2|DYRK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 588.8074951171875 2 588.806031 1175.59751 3.7272 0.0021946 0.41536 0.00024457 4.1425 0.0024391 588.8063108406383 51.131 0.19896 51.131 51.031 51.23 0 16 9 2 0 0 0 0.044468 1 23434 23434 49.554 28.017 1 457010 37442 2478 23753 23829 42071 42071 0.016734145060127048 VYTYIQSRF 9 Unmodified _VYTYIQSRF_ 0 0 0 nc|ENSG00000127334|Q92630-2|DYRK2;ENSG00000127334|ENST00000344096|DYRK2;nc|ENSG00000010219|Q9NR20-5|DYRK4;nc|ENSG00000010219|Q9NR20-2|DYRK4;nc|ENSG00000010219|Q9NR20|DYRK4;ENSG00000010219|ENST00000543431|DYRK4;nc|ENSG00000010219|Q9NR20-3|DYRK4;nc|ENSG00000010219|Q9NR20-4|DYRK4 nc|ENSG00000127334|Q92630-2|DYRK2 nc|ENSG00000127334|Q92630-2|DYRK2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 588.806031 1175.59751 3.4115 0.0020087 -0.46307 -0.00027266 2.9484 0.001736 588.8050491565936 50.251 0.19563 51.073 50.929 51.125 0.82285 -0.028792 -0.00059347 NaN 49.554 18 10 2 NaN NaN NaN NaN 0 NaN NaN 0 376530 37443 2478 23753 23829 0.016734145060127048 VYTYVKRD 8 Unmodified _VYTYVKRD_ 0 0 0 REV__ENST00000497715.1_1_2:225338964-225343150:-|nuORF REV__ENST00000497715.1_1_2:225338964-225343150:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.5231018066406 3 348.522192 1042.54475 2.4344 0.00084845 0.14054 4.898E-05 2.575 0.00089743 348.5221893446262 17.566 0.20322 18.227 18.161 18.364 0.66072 46 26 2 0 0 0 0.70181 1 7911 7911 5.7319 1.4026 1 899540 + 37444 10301 23754 23830 42072 42072 0.025174564432290936 VYTYVKRD 8 Unmodified _VYTYVKRD_ 0 0 0 REV__ENST00000497715.1_1_2:225338964-225343150:-|nuORF REV__ENST00000497715.1_1_2:225338964-225343150:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 348.522192 1042.54475 2.4344 0.00084845 0.14054 4.898E-05 2.575 0.00089743 348.5221893446262 17.566 0.20322 18.227 18.161 18.364 0.66072 0.066969 -0.00031352 NaN 5.7319 46 26 2 NaN NaN NaN NaN 0 NaN NaN 0 899540 + 37445 10301 23754 23830 0.025174564432290936 VYVDLGGSHVF 11 Unmodified _VYVDLGGSHVF_ 0 0 0 ENSG00000165733|ENST00000374518|BMS1;BMS1|p.K484Ifs*79|1|0.03|ENSG00000165733|chr10:42796694-42796695|-/TT|frameshift_variant;BMS1|p.F897Lfs*30|1|0.22|ENSG00000165733|chr10:42820344-42820344|T/-|frameshift_variant ENSG00000165733|ENST00000374518|BMS1 ENSG00000165733|ENST00000374518|BMS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 596.8050537109375 2 596.803488 1191.59242 3.5785 0.0021357 0.21774 0.00012995 3.7963 0.0022656 596.8033082751009 63.439 0.27404 63.687 63.52 63.794 0.24803 39 16 3 0 0 0 7.8959E-06 2 29060 29013;29060 96.111 68.482 1 2774500 37446 4421 23755 23831 42073;42074 42074 0.004291106434266112 VYVDLGGSHVF 11 Unmodified _VYVDLGGSHVF_ 0 0 0 ENSG00000165733|ENST00000374518|BMS1;BMS1|p.K484Ifs*79|1|0.03|ENSG00000165733|chr10:42796694-42796695|-/TT|frameshift_variant;BMS1|p.F897Lfs*30|1|0.22|ENSG00000165733|chr10:42820344-42820344|T/-|frameshift_variant ENSG00000165733|ENST00000374518|BMS1 ENSG00000165733|ENST00000374518|BMS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 596.803488 1191.59242 3.8876 0.0023201 -0.72579 -0.00043315 3.1618 0.001887 596.8027060112806 62.855 0.24869 63.513 63.382 63.631 0.65808 -0.08712 -0.0006315 NaN 96.111 39 15 3 NaN NaN NaN NaN 0 NaN NaN 0 2530500 37447 4421 23755 23831 0.004291106434266112 VYVDLIHSY 9 Unmodified _VYVDLIHSY_ 0 0 0 ENSG00000111331|ENST00000228928|OAS3 ENSG00000111331|ENST00000228928|OAS3 ENSG00000111331|ENST00000228928|OAS3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.7886962890625 2 554.787307 1107.56006 NaN NaN NaN NaN NaN NaN NaN 60.902 1 61.157 60.657 61.657 0.25578 0 0 0 0.26328 1 27891 27891 28.487 11.545 1 37448 1756 23756 23832 42075 42075 0.010583232404542287 VYVEKISFL 9 Unmodified _VYVEKISFL_ 0 0 0 ENSG00000171017|ENST00000306708|LRRC8E ENSG00000171017|ENST00000306708|LRRC8E ENSG00000171017|ENST00000306708|LRRC8E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.317138671875 2 549.3157 1096.61685 3.016 0.0016567 -0.63246 -0.00034742 2.3836 0.0013093 549.3153489272947 69.113 0.16246 69.113 69.041 69.203 0 34 22 2 0 0 0 0.21008 1 33325 33325 22.736 2.2827 1 3169000 37449 4783 23757 23833 42076 42076 0.07240370796944262 VYVEKISFL 9 Unmodified _VYVEKISFL_ 0 0 0 ENSG00000171017|ENST00000306708|LRRC8E ENSG00000171017|ENST00000306708|LRRC8E ENSG00000171017|ENST00000306708|LRRC8E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.3179321289062 2 549.3157 1096.61685 2.6155 0.0014367 0.65262 0.00035849 3.2681 0.0017952 549.3159806141571 68.055 0.24149 68.757 68.617 68.858 0.70217 54 32 2 0 0 0 0.071132 1 32376 32376 39.95 7.6442 1 3578500 37450 4783 23757 23833 42077 42077 0.07240370796944262 VYVEKISFL 9 Unmodified _VYVEKISFL_ 0 0 0 ENSG00000171017|ENST00000306708|LRRC8E ENSG00000171017|ENST00000306708|LRRC8E ENSG00000171017|ENST00000306708|LRRC8E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.3180541992188 2 549.3157 1096.61685 3.8509 0.0021153 -0.10693 -5.8738E-05 3.7439 0.0020566 549.3156801893103 68.866 0.32539 69.12 68.927 69.252 0.25443 45 20 3 0 0 0 0.001383 2 31548 31505;31548 114.2 46.121 1 1759400 37451 4783 23757 23833 42078;42079 42079 0.07240370796944262 VYVEKISFL 9 Unmodified _VYVEKISFL_ 0 0 0 ENSG00000171017|ENST00000306708|LRRC8E ENSG00000171017|ENST00000306708|LRRC8E ENSG00000171017|ENST00000306708|LRRC8E MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.3173217773438 2 549.3157 1096.61685 3.3923 0.0018635 -0.099876 -5.4863E-05 3.2925 0.0018086 549.3155953039642 68.301 0.31249 68.96 68.773 69.086 0.65924 54 19 4 0 0 0 0.001383 1 31303 31303 114.2 25.298 1 2036300 37452 4783 23757 23833 42080 42080 0.07240370796944262 VYVERAEVL 9 Unmodified _VYVERAEVL_ 0 0 0 ENSG00000089234|ENST00000419234|BRAP ENSG00000089234|ENST00000419234|BRAP ENSG00000089234|ENST00000419234|BRAP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.3026733398438 2 539.300581 1076.58661 NaN NaN NaN NaN NaN NaN NaN 43.057 1 43.328 42.828 43.828 0.27021 0 0 0 0.028243 1 19656 19656 60.074 10.141 1 37453 1041 23758 23834 42081 42081 0.05138012131760661 VYVERAEVL 9 Unmodified _VYVERAEVL_ 0 0 0 ENSG00000089234|ENST00000419234|BRAP ENSG00000089234|ENST00000419234|BRAP ENSG00000089234|ENST00000419234|BRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.3032836914062 2 539.300581 1076.58661 3.4768 0.001875 1.3975 0.00075365 4.8743 0.0026287 539.3013079418299 42.457 0.24517 43.104 42.956 43.201 0.64693 31 15 3 0 0 0 0.030603 2 19425 19425;19477 55.503 22.717 1 983890 37454 1041 23758 23834 42082;42083 42082 0.05138012131760661 VYVKDLSSF 9 Unmodified _VYVKDLSSF_ 0 0 0 ENSG00000101350|ENST00000375712|KIF3B ENSG00000101350|ENST00000375712|KIF3B ENSG00000101350|ENST00000375712|KIF3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.281982421875 2 529.281857 1056.54916 3.1028 0.0016423 -1.0767 -0.00056986 2.0261 0.0010724 529.2810903875745 52.651 0.19738 52.651 52.582 52.779 0 24 17 2 0 0 0 0.063112 2 24123 24123;24163 41.956 16.556 1 594210 37455 1287 23759 23835 42084;42085 42084 0.023149208661379816 VYVKDLSSF 9 Unmodified _VYVKDLSSF_ 0 0 0 ENSG00000101350|ENST00000375712|KIF3B ENSG00000101350|ENST00000375712|KIF3B ENSG00000101350|ENST00000375712|KIF3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.2828979492188 2 529.281857 1056.54916 2.5507 0.00135 -0.15954 -8.4442E-05 2.3911 0.0012656 529.281948994542 51.628 0.22402 52.438 52.333 52.557 0.81065 19 12 2 0 0 0 0.044468 1 23518 23518 49.554 17.249 1 688420 37456 1287 23759 23835 42086 42086 0.023149208661379816 VYVKDLSSF 9 Unmodified _VYVKDLSSF_ 0 0 0 ENSG00000101350|ENST00000375712|KIF3B ENSG00000101350|ENST00000375712|KIF3B ENSG00000101350|ENST00000375712|KIF3B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.2843627929688 2 529.281857 1056.54916 NaN NaN NaN NaN NaN NaN NaN 52.516 1 52.779 52.279 53.279 0.26345 0 0 0 0.34849 1 24009 24009 24.991 5.734 1 37457 1287 23759 23835 42087 42087 0.023149208661379816 VYVKDLSSF 9 Unmodified _VYVKDLSSF_ 0 0 0 ENSG00000101350|ENST00000375712|KIF3B ENSG00000101350|ENST00000375712|KIF3B ENSG00000101350|ENST00000375712|KIF3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.2828369140625 2 529.281857 1056.54916 3.091 0.001636 -0.019921 -1.0544E-05 3.0711 0.0016255 529.2817953021935 51.987 0.17818 52.649 52.553 52.731 0.66198 14 9 2 0 0 0 0.22824 1 23790 23790 21.537 10.713 1 314840 37458 1287 23759 23835 42088 42088 0.023149208661379816 VYVQELQKL 9 Unmodified _VYVQELQKL_ 0 0 0 ENSG00000102189|ENST00000322349|EEA1;EEA1|p.N1334Tfs*12|1|0.34|ENSG00000102189|chr12:92777556-92777556|T/-|frameshift_variant;EEA1|p.A695Efs*27|1|0.2|ENSG00000102189|chr12:92811394-92811394|G/-|frameshift_variant ENSG00000102189|ENST00000322349|EEA1 ENSG00000102189|ENST00000322349|EEA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.322998046875 2 560.324057 1118.63356 2.8145 0.0015771 -0.063047 -3.5327E-05 2.7515 0.0015417 560.3239317849913 51.371 0.18394 52.188 52.099 52.283 0.81738 21 15 2 0 0 0 0.014491 1 23401 23401 75.761 30.061 1 735700 37459 286 23760 23836 42089 42089 0.07898871682891695 VYVQELQKL 9 Unmodified _VYVQELQKL_ 0 0 0 ENSG00000102189|ENST00000322349|EEA1;EEA1|p.N1334Tfs*12|1|0.34|ENSG00000102189|chr12:92777556-92777556|T/-|frameshift_variant;EEA1|p.A695Efs*27|1|0.2|ENSG00000102189|chr12:92811394-92811394|G/-|frameshift_variant ENSG00000102189|ENST00000322349|EEA1 ENSG00000102189|ENST00000322349|EEA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.3251342773438 2 560.324057 1118.63356 3.5278 0.0019767 -0.81314 -0.00045562 2.7146 0.0015211 560.3237113798273 52.197 0.1246 52.46 52.411 52.535 0.26227 10 8 2 0 0 0 0.014491 1 23868 23868 75.761 29.74 1 811150 37460 286 23760 23836 42090 42090 0.07898871682891695 VYVQELQKL 9 Unmodified _VYVQELQKL_ 0 0 0 ENSG00000102189|ENST00000322349|EEA1;EEA1|p.N1334Tfs*12|1|0.34|ENSG00000102189|chr12:92777556-92777556|T/-|frameshift_variant;EEA1|p.A695Efs*27|1|0.2|ENSG00000102189|chr12:92811394-92811394|G/-|frameshift_variant ENSG00000102189|ENST00000322349|EEA1 ENSG00000102189|ENST00000322349|EEA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.3262939453125 2 560.324057 1118.63356 3.3598 0.0018826 0.59419 0.00033294 3.954 0.0022155 560.3242724447534 51.619 0.22486 52.278 52.156 52.38 0.65956 16 10 2 0 0 0 0.078225 1 23629 23629 38.176 13.502 1 279240 37461 286 23760 23836 42091 42091 0.07898871682891695 VYVQHPITF 9 Unmodified _VYVQHPITF_ 0 0 0 nc|ENSG00000189067|Q99732-3|LITAF;ENSG00000189067|ENST00000622633|LITAF;nc|ENSG00000189067|Q99732-2|LITAF nc|ENSG00000189067|Q99732-3|LITAF nc|ENSG00000189067|Q99732-3|LITAF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.2996215820312 2 552.297842 1102.58113 3.6082 0.0019928 -0.22816 -0.00012601 3.38 0.0018668 552.2976747074986 51.812 0.33387 51.812 51.624 51.958 0 59 25 3 0 0 0 4.0686E-09 3 23714 23670;23714;23761 160.52 75.244 1 2429500 37462 5703 23761 23837 42092;42093;42094 42093 0.033943333399292897 VYVQHPITF 9 Unmodified _VYVQHPITF_ 0 0 0 nc|ENSG00000189067|Q99732-3|LITAF;ENSG00000189067|ENST00000622633|LITAF;nc|ENSG00000189067|Q99732-2|LITAF nc|ENSG00000189067|Q99732-3|LITAF nc|ENSG00000189067|Q99732-3|LITAF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.299560546875 2 552.297842 1102.58113 2.9927 0.0016529 0.26739 0.00014768 3.2601 0.0018005 552.297705637691 50.886 0.2781 51.703 51.536 51.814 0.81738 35 14 3 0 0 0 0.00027711 2 23140 23140;23193 134.3 59.367 1 2329800 37463 5703 23761 23837 42095;42096 42095 0.033943333399292897 VYVQHPITF 9 Unmodified _VYVQHPITF_ 0 0 0 nc|ENSG00000189067|Q99732-3|LITAF;ENSG00000189067|ENST00000622633|LITAF;nc|ENSG00000189067|Q99732-2|LITAF nc|ENSG00000189067|Q99732-3|LITAF nc|ENSG00000189067|Q99732-3|LITAF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.2997436523438 2 552.297842 1102.58113 3.405 0.0018806 -0.010731 -5.9267E-06 3.3943 0.0018747 552.2978785716209 51.591 0.26199 51.854 51.707 51.969 0.26228 32 13 3 0 0 0 1.0071E-05 2 23550 23550;23604 147.06 72.13 1 2217200 37464 5703 23761 23837 42097;42098 42097 0.033943333399292897 VYVQHPITF 9 Unmodified _VYVQHPITF_ 0 0 0 nc|ENSG00000189067|Q99732-3|LITAF;ENSG00000189067|ENST00000622633|LITAF;nc|ENSG00000189067|Q99732-2|LITAF nc|ENSG00000189067|Q99732-3|LITAF nc|ENSG00000189067|Q99732-3|LITAF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.2988891601562 2 552.297842 1102.58113 3.3491 0.0018497 0.2669 0.00014741 3.616 0.0019971 552.2978803231757 50.963 0.27892 51.623 51.499 51.778 0.65956 37 15 4 0 0 0 0.001377 2 23276 23276;23332 114.65 46.568 1 2029200 37465 5703 23761 23837 42099;42100 42099 0.033943333399292897 VYVQNVVKL 9 Unmodified _VYVQNVVKL_ 0 0 0 nc|ENSG00000065000|O14617-3|AP3D1;nc|ENSG00000065000|O14617-2|AP3D1;nc|ENSG00000065000|O14617|AP3D1;ENSG00000065000|ENST00000643116|AP3D1;nc|ENSG00000065000|O14617-4|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.3223266601562 2 531.321317 1060.62808 3.3606 0.0017856 0.54796 0.00029114 3.9086 0.0020767 531.3215442660409 54.535 0.22531 54.535 54.418 54.643 0 65 25 3 0 0 0 9.3403E-09 2 25049 25005;25049 156.16 107.81 1 5981300 37466 681 23762 23838 42101;42102 42102 0.10019192891104467 VYVQNVVKL 9 Unmodified _VYVQNVVKL_ 0 0 0 nc|ENSG00000065000|O14617-3|AP3D1;nc|ENSG00000065000|O14617-2|AP3D1;nc|ENSG00000065000|O14617|AP3D1;ENSG00000065000|ENST00000643116|AP3D1;nc|ENSG00000065000|O14617-4|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.3226928710938 2 531.321317 1060.62808 2.9004 0.0015411 0.17803 9.4589E-05 3.0785 0.0016357 531.3213688062904 53.41 0.22353 54.213 54.11 54.333 0.80351 64 20 4 0 0 0 3.957E-14 2 24390 24346;24390 171.47 107.23 1 6619200 37467 681 23762 23838 42103;42104 42104 0.10019192891104467 VYVQNVVKL 9 Unmodified _VYVQNVVKL_ 0 0 0 nc|ENSG00000065000|O14617-3|AP3D1;nc|ENSG00000065000|O14617-2|AP3D1;nc|ENSG00000065000|O14617|AP3D1;ENSG00000065000|ENST00000643116|AP3D1;nc|ENSG00000065000|O14617-4|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.3243408203125 2 531.321317 1060.62808 2.9852 0.0015861 0.90509 0.00048089 3.8903 0.002067 531.3217687159664 54.239 0.36755 54.504 54.333 54.7 0.26462 53 17 4 0 0 0 2.5838E-05 2 24761 24761;24854 141.83 103.85 1 4508000 37468 681 23762 23838 42105;42106 42105 0.10019192891104467 VYVQNVVKL 9 Unmodified _VYVQNVVKL_ 0 0 0 nc|ENSG00000065000|O14617-3|AP3D1;nc|ENSG00000065000|O14617-2|AP3D1;nc|ENSG00000065000|O14617|AP3D1;ENSG00000065000|ENST00000643116|AP3D1;nc|ENSG00000065000|O14617-4|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 nc|ENSG00000065000|O14617-3|AP3D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 531.3234252929688 2 531.321317 1060.62808 3.0969 0.0016454 0.6318 0.00033569 3.7287 0.0019811 531.3215775592003 53.63 0.29204 54.294 54.132 54.424 0.6644 52 16 4 0 0 0 2.5838E-05 2 24542 24497;24542 141.83 77.59 1 5316100 37469 681 23762 23838 42107;42108 42108 0.10019192891104467 VYVSRPSHF 9 Unmodified _VYVSRPSHF_ 0 0 0 nc|ENSG00000170581|P52630-4|STAT2;ENSG00000170581|ENST00000314128|STAT2;ENST00000556539.5_1_12:56737175-56743495:-|nuORF nc|ENSG00000170581|P52630-4|STAT2 nc|ENSG00000170581|P52630-4|STAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 364.527099609375 3 364.525936 1090.55598 2.8091 0.001024 -0.3092 -0.00011271 2.4999 0.00091127 364.52586486466106 26.367 0.28543 26.367 26.199 26.485 0 48 36 2 0 0 0 0.023109 2 11871 11822;11871 66.457 46.042 1 1953900 37470 4759 23763 23839 42109;42110 42110 0.0143227853739063 VYVSRPSHF 9 Unmodified _VYVSRPSHF_ 0 0 0 nc|ENSG00000170581|P52630-4|STAT2;ENSG00000170581|ENST00000314128|STAT2;ENST00000556539.5_1_12:56737175-56743495:-|nuORF nc|ENSG00000170581|P52630-4|STAT2 nc|ENSG00000170581|P52630-4|STAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 364.52679443359375 3 364.525936 1090.55598 2.2058 0.00080406 0.3381 0.00012325 2.5439 0.00092731 364.5260296767765 25.337 0.38127 26.101 25.863 26.244 0.76357 63 34 2 0 0 0 0.052704 2 11409 11338;11409 34.932 19.684 1 1035800 37471 4759 23763 23839 42111;42112 42112 0.0143227853739063 VYVSRPSHF 9 Unmodified _VYVSRPSHF_ 0 0 0 nc|ENSG00000170581|P52630-4|STAT2;ENSG00000170581|ENST00000314128|STAT2;ENST00000556539.5_1_12:56737175-56743495:-|nuORF nc|ENSG00000170581|P52630-4|STAT2 nc|ENSG00000170581|P52630-4|STAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 364.5267639160156 3 364.525936 1090.55598 2.6874 0.00097964 -0.17085 -6.228E-05 2.5166 0.00091736 364.5258895306792 26.118 0.52915 26.383 26.068 26.597 0.26489 140 50 4 0 0 0 0.0081238 4 11864 11779;11823;11864;11912 67.838 46.848 1 3157600 37472 4759 23763 23839 42113;42114;42115;42116 42115 0.0143227853739063 VYVSRPSHF 9 Unmodified _VYVSRPSHF_ 0 0 0 nc|ENSG00000170581|P52630-4|STAT2;ENSG00000170581|ENST00000314128|STAT2;ENST00000556539.5_1_12:56737175-56743495:-|nuORF nc|ENSG00000170581|P52630-4|STAT2 nc|ENSG00000170581|P52630-4|STAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.2872924804688 2 546.285266 1090.55598 3.6121 0.0019733 0.10924 5.9678E-05 3.7214 0.0020329 546.2851908715367 26.113 0.38355 26.377 26.171 26.554 0.26489 73 35 3 0 0 0 0.053359 3 11893 11796;11848;11893 45.74 16.658 1 556090 37473 4759 23763 23839 42117;42118;42119 42119 0.0143227853739063 VYVSRPSHF 9 Unmodified _VYVSRPSHF_ 0 0 0 nc|ENSG00000170581|P52630-4|STAT2;ENSG00000170581|ENST00000314128|STAT2;ENST00000556539.5_1_12:56737175-56743495:-|nuORF nc|ENSG00000170581|P52630-4|STAT2 nc|ENSG00000170581|P52630-4|STAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.5270080566406 3 364.525936 1090.55598 2.4819 0.0009047 0.31482 0.00011476 2.7967 0.0010195 364.5260547371773 25.83 0.46718 26.455 26.17 26.637 0.62505 109 46 3 0 0 0 0.0081238 3 11833 11791;11833;11876 67.838 47.424 1 2440800 37474 4759 23763 23839 42120;42121;42122 42121 0.0143227853739063 VYVSRPSHF 9 Unmodified _VYVSRPSHF_ 0 0 0 nc|ENSG00000170581|P52630-4|STAT2;ENSG00000170581|ENST00000314128|STAT2;ENST00000556539.5_1_12:56737175-56743495:-|nuORF nc|ENSG00000170581|P52630-4|STAT2 nc|ENSG00000170581|P52630-4|STAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.2860717773438 2 546.285266 1090.55598 3.4468 0.0018829 0.25905 0.00014151 3.7059 0.0020245 546.285393267129 25.898 0.36043 26.523 26.233 26.593 0.62505 55 35 2 0 0 0 0.035495 3 11842 11792;11842;11885 53.404 17.277 1 677490 37475 4759 23763 23839 42123;42124;42125 42124 0.0143227853739063 VYVSRPSHF 9 Unmodified _VYVSRPSHF_ 0 0 0 nc|ENSG00000170581|P52630-4|STAT2;ENSG00000170581|ENST00000314128|STAT2;ENST00000556539.5_1_12:56737175-56743495:-|nuORF nc|ENSG00000170581|P52630-4|STAT2 nc|ENSG00000170581|P52630-4|STAT2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 546.285266 1090.55598 3.001 0.0016394 1.1764 0.00064264 4.1773 0.002282 546.2861608378608 25.361 0.055656 26.124 26.1 26.155 0.76356 -0.2171 0.00096216 NaN 53.404 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 182200 37476 4759 23763 23839 0.0143227853739063 VYVVGTAHF 9 Unmodified _VYVVGTAHF_ 0 0 0 nc|ENSG00000170638|Q9H4I3-2|TRABD;ENSG00000170638|ENST00000380909|TRABD;ENST00000463233.1_1_22:50624392-50636456:+|nuORF nc|ENSG00000170638|Q9H4I3-2|TRABD nc|ENSG00000170638|Q9H4I3-2|TRABD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 496.76519775390625 2 496.763635 991.512717 2.9766 0.0014787 -0.023467 -1.1657E-05 2.9531 0.001467 496.7635021239892 49.882 0.53666 49.882 49.646 50.183 0 62 26 4 0 0 0 0.010037 3 22840 22793;22840;22895 81.864 47.762 1 5557200 37477 4762 23764 23840 42126;42127;42128 42127 0.01662088760087954 VYVVGTAHF 9 Unmodified _VYVVGTAHF_ 0 0 0 nc|ENSG00000170638|Q9H4I3-2|TRABD;ENSG00000170638|ENST00000380909|TRABD;ENST00000463233.1_1_22:50624392-50636456:+|nuORF nc|ENSG00000170638|Q9H4I3-2|TRABD nc|ENSG00000170638|Q9H4I3-2|TRABD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.7653503417969 2 496.763635 991.512717 3.1328 0.0015563 -0.24656 -0.00012248 2.8863 0.0014338 496.7633450387105 48.859 0.56976 49.686 49.436 50.005 0.82705 82 31 4 0 0 0 0.010037 3 22254 22205;22254;22298 81.864 41.907 1 4197600 37478 4762 23764 23840 42129;42130;42131 42130 0.01662088760087954 VYVVGTAHF 9 Unmodified _VYVVGTAHF_ 0 0 0 nc|ENSG00000170638|Q9H4I3-2|TRABD;ENSG00000170638|ENST00000380909|TRABD;ENST00000463233.1_1_22:50624392-50636456:+|nuORF nc|ENSG00000170638|Q9H4I3-2|TRABD nc|ENSG00000170638|Q9H4I3-2|TRABD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 496.7654724121094 2 496.763635 991.512717 3.238 0.0016085 0.12666 6.292E-05 3.3646 0.0016714 496.7635885525193 49.722 0.49479 49.984 49.698 50.193 0.26146 52 19 4 0 0 0 0.010037 2 22750 22708;22750 81.864 42.229 1 3289200 37479 4762 23764 23840 42132;42133 42133 0.01662088760087954 VYVVGTAHF 9 Unmodified _VYVVGTAHF_ 0 0 0 nc|ENSG00000170638|Q9H4I3-2|TRABD;ENSG00000170638|ENST00000380909|TRABD;ENST00000463233.1_1_22:50624392-50636456:+|nuORF nc|ENSG00000170638|Q9H4I3-2|TRABD nc|ENSG00000170638|Q9H4I3-2|TRABD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.7657775878906 2 496.763635 991.512717 3.2991 0.0016389 0.3289 0.00016339 3.628 0.0018022 496.76369721570467 49.194 0.34539 49.849 49.664 50.01 0.65524 35 11 4 0 0 0 0.010037 2 22486 22486;22544 81.864 48.969 1 3453800 37480 4762 23764 23840 42134;42135 42134 0.01662088760087954 VYVVGWALL 9 Unmodified _VYVVGWALL_ 0 0 0 ENSG00000099957|ENST00000413302|P2RX6 ENSG00000099957|ENST00000413302|P2RX6 ENSG00000099957|ENST00000413302|P2RX6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.30096435546875 2 510.299853 1018.58515 3.2642 0.0016657 -2.2777 -0.0011623 0.98645 0.00050338 510.2987939098505 38.497 0.20704 39.131 39.041 39.248 0.63388 12 7 2 0 0 0 0.37584 1 17631 17631 14.582 2.341 1 151770 37481 1163 23765 23841 42136 42136 0.07660422833657776 VYVVQGRHI 9 Unmodified _VYVVQGRHI_ 0 0 0 REV__ENSG00000261857|ENST00000263369|MIA REV__ENSG00000261857|ENST00000263369|MIA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.81005859375 2 535.808908 1069.60326 NaN NaN NaN NaN NaN NaN NaN 59.662 1 59.921 59.421 60.421 0.2593 0 0 0 0.66907 1 27320 27320 13.508 0 1 + 37482 14696 23766 23842 42137 42137 0.07124557808378995 VYWRLWKEWLR 11 Unmodified _VYWRLWKEWLR_ 0 0 0 REV__ENST00000580496.1_1_17:61713981-61714308:+|nuORF REV__ENST00000580496.1_1_17:61713981-61714308:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 817.9547119140625 2 817.951353 1633.88815 NaN NaN NaN NaN NaN NaN NaN 10.551 1 11.184 10.684 11.684 0.63304 0 0 0 1.0082 1 4753 4753 0 0 1 + 37483 17507 23767 23843 42138 42138 0.09656358221900518 VYWRLWKEWLR 11 Unmodified _VYWRLWKEWLR_ 0 0 0 REV__ENST00000580496.1_1_17:61713981-61714308:+|nuORF REV__ENST00000580496.1_1_17:61713981-61714308:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 817.6211547851562 2 817.951353 1633.88815 NaN NaN NaN NaN NaN NaN NaN 10.726 1 11.359 10.859 11.859 0.63304 0 0 0 1.0082 1 4831 4831 0 0 1 + 37484 17507 23767 23843 42139 42139 0.09656358221900518 VYYHMWVFLD 10 Unmodified _VYYHMWVFLD_ 0 0 0 REV__ENSG00000077498|ENST00000263321|TYR REV__ENSG00000077498|ENST00000263321|TYR MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 686.43212890625 2 686.823366 1371.63218 3.2134 0.0022071 2.698 0.0018531 5.9115 0.0040601 687.3251192957298 86.152 0.035141 86.152 86.126 86.161 0 6 4 2 0 0 0 0.12676 1 44073 44073 0.45834 0.057624 1 21963000 + 37485 10557 23768 23844 42140 42140 -0.03877085677527248 VYYKELVDQ 9 Unmodified _VYYKELVDQ_ 0 0 0 REV__ENSG00000172817|ENST00000310193|CYP7B1 REV__ENSG00000172817|ENST00000310193|CYP7B1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.7978515625 2 578.797872 1155.58119 NaN NaN NaN NaN NaN NaN NaN 34.466 1 34.466 33.966 34.966 0 0 0 0 0.8984 1 15624 15624 3.9444 0.3479 1 + 37486 13563 23769 23845 42141 42141 0.009622885492944988 VYYPELFVW 9 Unmodified _VYYPELFVW_ 0 0 0 ENSG00000134986|ENST00000257435|NREP;ENST00000507742.5_1_5:111066620-111092910:-|nuORF;nc|ENSG00000134986|Q16612-2|NREP ENSG00000134986|ENST00000257435|NREP ENSG00000134986|ENST00000257435|NREP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 608.3065185546875 2 608.307875 1214.6012 3.2254 0.001962 -1.0205 -0.00062077 2.2049 0.0013413 608.3056793248109 99.892 0.044144 99.892 99.872 99.917 0 7 3 3 0 0 0 0.11001 1 55049 55049 30.225 13.283 1 9316300 37487 2840 23770 23846 42142 42142 0.0024808427988318726 VYYPELFVW 9 Unmodified _VYYPELFVW_ 0 0 0 ENSG00000134986|ENST00000257435|NREP;ENST00000507742.5_1_5:111066620-111092910:-|nuORF;nc|ENSG00000134986|Q16612-2|NREP ENSG00000134986|ENST00000257435|NREP ENSG00000134986|ENST00000257435|NREP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 608.307875 1214.6012 2.1127 0.0012851 0.88843 0.00054044 3.0011 0.0018256 608.308177548588 99.838 0.043518 99.901 99.866 99.91 0.062248 0.0041 0.00016028 NaN 30.225 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 4197400 37488 2840 23770 23846 0.0024808427988318726 VYYPVRHHL 9 Unmodified _VYYPVRHHL_ 0 0 0 nc|ENSG00000196367|Q9Y4A5-2|TRRAP;nc|ENSG00000196367|Q9Y4A5|TRRAP;ENSG00000196367|ENST00000456197|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 395.2178039550781 3 395.217214 1182.62981 2.7174 0.001074 0.31235 0.00012345 3.0297 0.0011974 395.2172570194237 21.64 0.27718 21.64 21.505 21.782 0 84 27 4 0 0 0 0.086747 3 9692 9651;9692;9733 26.268 16.194 1 745970 37489 5739 23771 23847 42143;42144;42145 42144 0.045802466996974545 VYYPVRHHL 9 Unmodified _VYYPVRHHL_ 0 0 0 nc|ENSG00000196367|Q9Y4A5-2|TRRAP;nc|ENSG00000196367|Q9Y4A5|TRRAP;ENSG00000196367|ENST00000456197|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP nc|ENSG00000196367|Q9Y4A5-2|TRRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.21844482421875 3 395.217214 1182.62981 3.0126 0.0011906 0.18463 7.2971E-05 3.1973 0.0012636 395.217309391231 20.488 0.34807 21.142 20.98 21.328 0.65346 76 30 3 0 0 0 0.20384 2 9290 9290;9338 21.537 14.248 1 526740 37490 5739 23771 23847 42146;42147 42146 0.045802466996974545 VYYWQRIREKE 11 Unmodified _VYYWQRIREKE_ 0 0 0 ENST00000527977.5_1_11:122953793-122955421:-|nuORF;ENSG00000166250|ENST00000448775|CLMP ENST00000527977.5_1_11:122953793-122955421:-|nuORF ENST00000527977.5_1_11:122953793-122955421:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.386962890625 3 523.94393 1568.80996 NaN NaN NaN NaN NaN NaN NaN 54.794 1 55.59 55.09 56.09 0.79552 0 0 0 1.0071 1 25006 25006 0.50596 0 1 37491 4465 23772 23848 42148 42148 0.048308808459978536 WAARPKGA 8 Unmodified _WAARPKGA_ 0 0 0 REV__ENST00000261776.9_1_16:70834832-70834985:-|nuORF REV__ENST00000261776.9_1_16:70834832-70834985:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 428.74462890625 2 428.743037 855.471521 3.136 0.0013445 0.97293 0.00041714 4.1089 0.0017617 428.7434105827783 65.501 0.24508 66.157 66.011 66.256 0.65672 17 12 2 0 0 0 0.74071 1 30022 30022 2.5775 0 1 643470 + 37492 14970 23773 23849 42149 42149 0.03800372511284422 WAARPKGA 8 Unmodified _WAARPKGA_ 0 0 0 REV__ENST00000261776.9_1_16:70834832-70834985:-|nuORF REV__ENST00000261776.9_1_16:70834832-70834985:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 428.743037 855.471521 3.0549 0.0013098 1.8118 0.00077678 4.8667 0.0020866 428.7435937797961 65.874 0.25026 66.123 65.987 66.237 0.24848 -0.01715 0.0004607 NaN 2.5775 20 13 2 NaN NaN NaN NaN 0 NaN NaN 0 487180 + 37493 14970 23773 23849 0.03800372511284422 WAARPKGA 8 Unmodified _WAARPKGA_ 0 0 0 REV__ENST00000261776.9_1_16:70834832-70834985:-|nuORF REV__ENST00000261776.9_1_16:70834832-70834985:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 428.743037 855.471521 3.136 0.0013445 0.97293 0.00041714 4.1089 0.0017617 428.7434105827783 65.501 0.24508 66.157 66.011 66.256 0.65672 0.01715 -0.00025858 NaN 2.5775 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 643470 + 37494 14970 23773 23849 0.03800372511284422 WADHSSTVL 9 Unmodified _WADHSSTVL_ 0 0 0 KLHL36|p.V342Cfs*42|1|0.33|ENSG00000135686|chr16:84657830-84657830|G/-|frameshift_variant;nc|ENSG00000135686|Q8N4N3-2|KLHL36;ENSG00000135686|ENST00000564996|KLHL36 KLHL36|p.V342Cfs*42|1|0.33|ENSG00000135686|chr16:84657830-84657830|G/-|frameshift_variant KLHL36|p.V342Cfs*42|1|0.33|ENSG00000135686|chr16:84657830-84657830|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.248291015625 2 508.245806 1014.47706 3.1498 0.0016009 2.4343 0.0012372 5.5841 0.0028381 508.247210170205 38.41 0.18166 38.41 38.289 38.47 0 12 7 2 0 0 0 0.09451 1 17430 17430 34.102 8.7031 1 600360 37495 2889 23774 23850 42150 42150 -0.029599934875591316 WAENWCHYNW 10 Unmodified _WAENWCHYNW_ 0 0 0 REV__ENSG00000124491|ENST00000264870|F13A1 REV__ENSG00000124491|ENST00000264870|F13A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 704.781005859375 2 704.780022 1407.54549 NaN NaN NaN NaN NaN NaN NaN 11.896 1 12.157 11.657 12.657 0.26154 0 0 0 1.002 1 5130 5130 0 0 1 + 37496 11657 23775 23851 42151 42151 -0.14198072179351584 WAIAKRPQ 8 Unmodified _WAIAKRPQ_ 0 0 0 REV__ENSG00000179270|ENST00000331664|PCARE REV__ENSG00000179270|ENST00000331664|PCARE MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.28839111328125 2 485.285069 968.555585 NaN NaN NaN NaN NaN NaN NaN 68.373 1 68.625 68.125 69.125 0.25227 0 0 0 0.99035 1 31322 31322 2.5775 0 1 + 37497 13792 23776 23852 42152 42152 0.07004903608174118 WALKPAPS 8 Unmodified _WALKPAPS_ 0 0 0 REV__ENST00000480479.5_1_1:1324040-1326370:-|nuORF REV__ENST00000480479.5_1_1:1324040-1326370:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.2484436035156 2 435.247621 868.480688 3.025 0.0013166 -0.10368 -4.5127E-05 2.9213 0.0012715 435.2474877556256 54.93 0.42926 55.596 55.46 55.889 0.6665 34 17 2 0 0 0 0.74071 1 25210 25210 2.5775 0 1 700590 + 37498 16690 23777 23853 42153 42153 0.04118721076940801 WALLLLLL 8 Unmodified _WALLLLLL_ 0 0 0 ENSG00000172638|ENST00000307998|EFEMP2;ENST00000529870.1_1_11:65639270-65640242:-|nuORF;ENSG00000101435|ENST00000376979|CST9L ENSG00000172638|ENST00000307998|EFEMP2 ENSG00000172638|ENST00000307998|EFEMP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.8243408203125 2 477.822964 953.631375 NaN NaN NaN NaN NaN NaN NaN 64.993 1 65.649 65.149 66.149 0.65672 0 0 0 0.99035 1 29796 29796 0.79363 0 1 37499 4880 23778 23854 42154 42154 0.15270487735745064 WALPWSVAAQR 11 Unmodified _WALPWSVAAQR_ 0 0 0 REV__ENST00000579125.1_1_17:62776100-62776705:-|nuORF REV__ENST00000579125.1_1_17:62776100-62776705:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 428.9005432128906 3 428.899773 1283.67749 2.2637 0.00097091 0.37579 0.00016118 2.6395 0.0011321 429.23416610225513 73.077 0.45894 73.077 72.868 73.327 0 114 50 3 0 0 0 0.89065 1 35545 35545 2.8433 0.59056 1 4005200 + 37500 17487 23779 23855 42155 42155 0.04699900899868226 WALPWSVAAQR 11 Unmodified _WALPWSVAAQR_ 0 0 0 REV__ENST00000579125.1_1_17:62776100-62776705:-|nuORF REV__ENST00000579125.1_1_17:62776100-62776705:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 428.90130615234375 3 428.899773 1283.67749 2.6468 0.0011352 0.691 0.00029637 3.3378 0.0014316 428.900229375341 72.29 0.93633 72.549 72.084 73.021 0.25876 241 83 4 0 0 0 0.89065 1 33175 33175 2.8433 0.21205 1 4063900 + 37501 17487 23779 23855 42156 42156 0.04699900899868226 WALPWSVAAQR 11 Unmodified _WALPWSVAAQR_ 0 0 0 REV__ENST00000579125.1_1_17:62776100-62776705:-|nuORF REV__ENST00000579125.1_1_17:62776100-62776705:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 428.9012145996094 3 428.899773 1283.67749 2.3883 0.0010243 0.60731 0.00026047 2.9956 0.0012848 428.90016410592 72.024 0.91272 72.687 72.094 73.007 0.66324 195 72 4 0 0 0 0.91068 1 32913 32913 1.3296 1.3296 1 4105900 + 37502 17487 23779 23855 42157 42157 0.04699900899868226 WALPWSVAAQR 11 Unmodified _WALPWSVAAQR_ 0 0 0 REV__ENST00000579125.1_1_17:62776100-62776705:-|nuORF REV__ENST00000579125.1_1_17:62776100-62776705:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 428.899773 1283.67749 2.231 0.00095686 0.26344 0.00011299 2.4944 0.0010698 428.8998555103684 71.734 0.35576 72.438 72.242 72.598 0.70386 -0.13168 -0.00040951 NaN 2.8433 65 41 2 NaN NaN NaN NaN 0 NaN NaN 0 2366300 + 37503 17487 23779 23855 0.04699900899868226 WARKAVVL 8 Unmodified _WARKAVVL_ 0 0 0 nc|ENSG00000117899|Q14696-2|MESD;ENSG00000117899|ENST00000261758|MESD nc|ENSG00000117899|Q14696-2|MESD nc|ENSG00000117899|Q14696-2|MESD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 471.79937744140625 2 471.797812 941.581071 3.2762 0.0015457 0.66946 0.00031585 3.9457 0.0018616 471.79793306721626 30.527 0.22949 30.783 30.628 30.857 0.25614 18 11 2 0 0 0 0.42655 1 13874 13874 26.341 5.4701 1 369960 37504 2098 23780 23856 42158 42158 0.1079437813059485 WARWLWRRLFK 11 Unmodified _WARWLWRRLFK_ 0 0 0 ENST00000491791.1_1_3:49377935-49378118:-|nuORF ENST00000491791.1_1_3:49377935-49378118:-|nuORF ENST00000491791.1_1_3:49377935-49378118:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 809.4674682617188 2 809.467504 1616.92046 NaN NaN NaN NaN NaN NaN NaN 47.743 1 48.007 47.507 48.507 0.26363 0 0 0 1.0082 1 21823 21823 0 0 1 37505 8398 23781 23857 42159 42159 0.13667190415549157 WATEIEVL 8 Unmodified _WATEIEVL_ 0 0 0 REV__ENSG00000160606|ENST00000292090|TLCD1 REV__ENSG00000160606|ENST00000292090|TLCD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.7565612792969 2 480.755475 959.496398 2.991 0.0014379 1.1016 0.00052961 4.0926 0.0019675 480.7557279730111 53.937 0.52347 54.201 53.932 54.456 0.26462 41 21 2 0 0 0 0.42655 1 24724 24724 26.341 0 1 406610 + 37506 12885 23782 23858 42160 42160 0.015029628033403242 WATEIEVL 8 Unmodified _WATEIEVL_ 0 0 0 REV__ENSG00000160606|ENST00000292090|TLCD1 REV__ENSG00000160606|ENST00000292090|TLCD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.7567138671875 2 480.755475 959.496398 2.9709 0.0014283 0.019053 9.1596E-06 2.99 0.0014375 480.7553269047252 53.512 0.58673 54.176 53.762 54.349 0.6644 32 27 2 0 0 0 0.60592 1 24521 24521 13.508 0 1 528640 + 37507 12885 23782 23858 42161 42161 0.015029628033403242 WATEIEVL 8 Unmodified _WATEIEVL_ 0 0 0 REV__ENSG00000160606|ENST00000292090|TLCD1 REV__ENSG00000160606|ENST00000292090|TLCD1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 480.755475 959.496398 2.991 0.0014379 1.1016 0.00052961 4.0926 0.0019675 480.7557279730111 53.937 0.52347 54.201 53.932 54.456 0.26462 0.012555 0.00058369 NaN 26.341 41 21 2 NaN NaN NaN NaN 0 NaN NaN 0 406610 + 37508 12885 23782 23858 0.015029628033403242 WATEIEVL 8 Unmodified _WATEIEVL_ 0 0 0 REV__ENSG00000160606|ENST00000292090|TLCD1 REV__ENSG00000160606|ENST00000292090|TLCD1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 480.755475 959.496398 2.9709 0.0014283 0.019053 9.1596E-06 2.99 0.0014375 480.7553269047252 53.512 0.58673 54.176 53.762 54.349 0.6644 -0.012555 -0.00045722 NaN 26.341 32 27 2 NaN NaN NaN NaN 0 NaN NaN 0 528640 + 37509 12885 23782 23858 0.015029628033403242 WATHERLY 8 Unmodified _WATHERLY_ 0 0 0 REV__nc|ENSG00000160551|Q7L7X3-3|TAOK1 REV__nc|ENSG00000160551|Q7L7X3-3|TAOK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.17138671875 3 359.182169 1074.52468 NaN NaN NaN NaN NaN NaN NaN 90.632 1 90.883 90.383 91.383 0.25163 0 0 0 0.99035 1 41676 41676 1.6526 0 1 + 37510 12583 23783 23859 42162 42162 -0.009602944967127769 WCAAPVNSSF 10 Unmodified _WCAAPVNSSF_ 0 0 0 chr2:169259217-169268127|138|10.35|0.1|6.72|-|2|TE_info:L1PA5,L1PA5_dup1361,L1,LINE,donor,+,169268127,169270755|LRP2,None|1 chr2:169259217-169268127|138|10.35|0.1|6.72|-|2|TE_info:L1PA5,L1PA5_dup1361,L1,LINE,donor,+,169268127,169270755|LRP2,None|1 chr2:169259217-169268127|138|10.35|0.1|6.72|-|2|TE_info:L1PA5,L1PA5_dup1361,L1,LINE,donor,+,169268127,169270755|LRP2,None|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 361.165283203125 3 361.163898 1080.46987 NaN NaN NaN NaN NaN NaN NaN 59.624 1 60.289 59.789 60.789 0.66503 0 0 0 0.99976 1 27294 27294 1.9064 0.71303 1 37511 161 23784 23860 42163 42163 -0.06715049359650038 WCARWWLWFIW 11 Unmodified _WCARWWLWFIW_ 0 0 0 REV__ENSG00000268104|ENST00000598581|SLC6A14 REV__ENSG00000268104|ENST00000598581|SLC6A14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 826.9014892578125 2 826.902817 1651.79108 NaN NaN NaN NaN NaN NaN NaN 27.729 1 27.991 27.491 28.491 0.26245 0 0 0 1.0082 1 12609 12609 0 0 1 + 37512 14712 23785 23861 42164 42164 -0.00874327258725316 WCCFDGCDW 9 Unmodified _WCCFDGCDW_ 0 0 0 REV__ENST00000394729.6_1_3:53226324-53226528:+|nuORF REV__ENST00000394729.6_1_3:53226324-53226528:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.9994506835938 2 567.67753 1133.34051 NaN NaN NaN NaN NaN NaN NaN 69.075 1 69.734 69.234 70.234 0.65924 0 0 0 0.91238 1 31664 31664 0.52476 0.12405 1 + 37513 15973 23786 23862 42165 42165 -0.22082890305614455 WCCGCSCDS 9 Unmodified _WCCGCSCDS_ 0 0 0 REV__ENST00000222584.7_1_7:21470186-21470375:+|nuORF REV__ENST00000222584.7_1_7:21470186-21470375:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 482.0611267089844 2 482.126816 962.239079 NaN NaN NaN NaN NaN NaN NaN 67.411 1 68.113 67.613 68.613 0.70218 0 0 0 0.91452 1 32049 32049 0 0 1 + 37514 14829 23787 23863 42166 42166 -0.24355084999820065 WCFEDDEDEDE 11 Unmodified _WCFEDDEDEDE_ 0 0 0 nc|ENSG00000111880|O60942-3|RNGTT;nc|ENSG00000111880|O60942-4|RNGTT;nc|ENSG00000111880|O60942-2|RNGTT;ENSG00000111880|ENST00000369485|RNGTT nc|ENSG00000111880|O60942-3|RNGTT nc|ENSG00000111880|O60942-3|RNGTT MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.8236999511719 3 477.822483 1430.44562 NaN NaN NaN NaN NaN NaN NaN 103.24 1 103.84 103.34 104.34 0.59821 0 0 0 1.0082 1 47764 47764 0 0 1 37515 1784 23788 23864 42167 42167 -0.25238443885154993 WCGCPPGPH 9 Unmodified _WCGCPPGPH_ 0 0 0 ENST00000563983.5_1_16:89788975-89789592:+|nuORF ENST00000563983.5_1_16:89788975-89789592:+|nuORF ENST00000563983.5_1_16:89788975-89789592:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 953.3807983398438 1 953.375654 952.368377 3.4817 0.0033193 0.3197 0.0003048 3.8014 0.0036241 953.3807814276677 25.937 0.068563 26.7 26.654 26.722 0.76356 5 3 2 0 0 0 0.11443 1 11652 11652 0 0 1 119050 37516 9022 23789 23865 42168 42168 -0.1097119926320147 WCPKCCFHR 9 Unmodified _WCPKCCFHR_ 0 0 0 nc|ENSG00000163958|Q8WVZ1-2|ZDHHC19;nc|ENSG00000163958|Q8WVZ1-3|ZDHHC19;ENSG00000163958|ENST00000296326|ZDHHC19 nc|ENSG00000163958|Q8WVZ1-2|ZDHHC19 nc|ENSG00000163958|Q8WVZ1-2|ZDHHC19 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8402404785156 3 393.838475 1178.49359 NaN NaN NaN NaN NaN NaN NaN 8.833 1 9.4596 8.9596 9.9596 0.62663 0 0 0 0.91452 1 3980 3980 0 0 1 37517 4268 23790 23866 42169 42169 -0.08851230398499865 WCPWCCGC 8 Unmodified _WCPWCCGC_ 0 0 0 REV__ENST00000510911.5_1_5:176515491-176516637:+|nuORF REV__ENST00000510911.5_1_5:176515491-176516637:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 479.1494140625 2 479.147355 956.280156 3.0057 0.0014402 0.42473 0.00020351 3.4304 0.0016437 479.1487892920447 42.826 0.49612 42.826 42.514 43.01 0 71 26 4 0 0 0 0.7471 1 19512 19512 0.79363 0.10326 1 1492400 + 37518 15131 23791 23867 42170 42170 -0.1997327916968743 WCPWCCGC 8 Unmodified _WCPWCCGC_ 0 0 0 REV__ENST00000510911.5_1_5:176515491-176516637:+|nuORF REV__ENST00000510911.5_1_5:176515491-176516637:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 479.147355 956.280156 3.0057 0.0014402 0.42473 0.00020351 3.4304 0.0016437 479.1487892920447 42.826 0.49612 42.826 42.514 43.01 0 0 0 NaN 0.79363 71 26 4 NaN NaN NaN NaN 0 NaN NaN 0 1492400 + 37519 15131 23791 23867 -0.1997327916968743 WCTHVVYVVF 10 Unmodified _WCTHVVYVVF_ 0 0 0 REV__ENSG00000049656|ENST00000320895|CLPTM1L REV__ENSG00000049656|ENST00000320895|CLPTM1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 626.8153686523438 2 626.812802 1251.61105 4.5344 0.0028422 -0.85401 -0.0005353 3.6804 0.0023069 626.8123089113541 103.02 0.13631 103.34 103.29 103.42 0.31863 7 4 2 0 0 0 0.93534 1 47656 47656 1.8442 0.19162 1 245270 + 37520 10346 23792 23868 42171 42171 -0.004690509863849002 WCTHVVYVVF 10 Unmodified _WCTHVVYVVF_ 0 0 0 REV__ENSG00000049656|ENST00000320895|CLPTM1L REV__ENSG00000049656|ENST00000320895|CLPTM1L MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 626.812802 1251.61105 4.5344 0.0028422 -0.85401 -0.0005353 3.6804 0.0023069 626.8123089113541 103.02 0.13631 103.34 103.29 103.42 0.31863 -0.12883 -0.00013168 NaN 1.8442 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 245270 + 37521 10346 23792 23868 -0.004690509863849002 WCTHVVYVVF 10 Unmodified _WCTHVVYVVF_ 0 0 0 REV__ENSG00000049656|ENST00000320895|CLPTM1L REV__ENSG00000049656|ENST00000320895|CLPTM1L MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 626.812802 1251.61105 3.987 0.0024991 -0.37208 -0.00023322 3.615 0.0022659 626.8129843203527 103 0.15319 103.6 103.5 103.65 0.59821 0.12883 0.00047248 NaN 1.8442 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 244300 + 37522 10346 23792 23868 -0.004690509863849002 WCWRLWHWYQR 11 Unmodified _WCWRLWHWYQR_ 0 0 0 REV__ENST00000513055.1_1_5:92921088-92921313:-|nuORF REV__ENST00000513055.1_1_5:92921088-92921313:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 860.412841796875 2 860.409329 1718.8041 NaN NaN NaN NaN NaN NaN NaN 94.134 1 94.393 93.893 94.893 0.25975 0 0 0 1.0082 1 43259 43259 0 0 1 + 37523 16987 23793 23869 42172 42172 -0.02654496146647034 WCYSCCCCCSL 11 Unmodified _WCYSCCCCCSL_ 0 0 0 REV__ENST00000326294.3_1_11:67203673-67203718:-|nuORF REV__ENST00000326294.3_1_11:67203673-67203718:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 636.7210693359375 2 637.185493 1272.35643 NaN NaN NaN NaN NaN NaN NaN 48.134 1 48.134 47.634 48.634 0 0 0 0 1.0082 1 22042 22042 0 0 1 + 37524 15353 23794 23870 42173 42173 -0.2688501144687052 WDDDDDEEF 9 Unmodified _WDDDDDEEF_ 0 0 0 REV__ENSG00000173548|ENST00000308527|SNX33 REV__ENSG00000173548|ENST00000308527|SNX33 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 593.19677734375 2 593.196373 1184.37819 NaN NaN NaN NaN NaN NaN NaN 75.182 1 75.44 74.94 75.94 0.25831 0 0 0 0.91206 1 34586 34586 0.6015 0 1 + 37525 13603 23795 23871 42174 42174 -0.2066210603379659 WDDDDDEEFSG 11 Unmodified _WDDDDDEEFSG_ 0 0 0 REV__ENSG00000173548|ENST00000308527|SNX33 REV__ENSG00000173548|ENST00000308527|SNX33 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 665.2227783203125 2 665.223119 1328.43169 NaN NaN NaN NaN NaN NaN NaN 67.182 1 67.84 67.34 68.34 0.65777 0 0 0 1.008 1 30796 30796 0.30703 0.03801 1 + 37526 13603 23796 23872 42175 42175 -0.21939353321954513 WDDDGGSCND 10 Unmodified _WDDDGGSCND_ 0 0 0 REV__nc|ENSG00000161011|Q13501-2|SQSTM1 REV__nc|ENSG00000161011|Q13501-2|SQSTM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 542.168701171875 2 542.169635 1082.32472 NaN NaN NaN NaN NaN NaN NaN 88.542 1 88.542 88.042 89.042 0 0 0 0 1.0016 1 45973 45973 0.35063 0.043601 1 + 37527 12903 23797 23873 42176 42176 -0.213151820172925 WDDPKEANPDP 11 Unmodified _WDDPKEANPDP_ 0 0 0 REV__ENSG00000153132|ENST00000325617|CLGN REV__ENSG00000153132|ENST00000325617|CLGN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 642.2825317382812 2 642.280574 1282.5466 NaN NaN NaN NaN NaN NaN NaN 55.061 1 55.729 55.229 56.229 0.66798 0 0 0 0.99571 1 25196 25196 7.1017 2.2047 1 + 37528 12669 23798 23874 42177 42177 -0.08337579329486289 WDDPKEANPDP 11 Unmodified _WDDPKEANPDP_ 0 0 0 REV__ENSG00000153132|ENST00000325617|CLGN REV__ENSG00000153132|ENST00000325617|CLGN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 642.2813110351562 2 642.280574 1282.5466 NaN NaN NaN NaN NaN NaN NaN 55.227 1 55.895 55.395 56.395 0.66798 0 0 0 0.95688 1 25270 25270 10.8 5.9025 1 + 37529 12669 23798 23874 42178 42178 -0.08337579329486289 WDEHSSDPY 9 Unmodified _WDEHSSDPY_ 0 0 0 SRRT|p.D363Vfs*14|1|0.06|ENSG00000087087|chr7:100884968-100884969|-/TTTTGTCATCATTAGA|frameshift_variant;SRRT|p.V517Dfs*13|1|0.17|ENSG00000087087|chr7:100886338-100886348|TGCGCAACGAC/-|frameshift_variant;nc|ENSG00000087087|Q9BXP5-5|SRRT;nc|ENSG00000087087|Q9BXP5-4|SRRT;nc|ENSG00000087087|Q9BXP5-2|SRRT;nc|ENSG00000087087|Q9BXP5-3|SRRT;ENSG00000087087|ENST00000611405|SRRT SRRT|p.D363Vfs*14|1|0.06|ENSG00000087087|chr7:100884968-100884969|-/TTTTGTCATCATTAGA|frameshift_variant SRRT|p.D363Vfs*14|1|0.06|ENSG00000087087|chr7:100884968-100884969|-/TTTTGTCATCATTAGA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.2224731445312 2 568.219985 1134.42542 NaN NaN NaN NaN NaN NaN NaN 36.275 1 37.069 36.569 37.569 0.79342 0 0 0 0.90699 1 16441 16441 1.8442 0.19162 1 37530 995 23799 23875 42179 42179 -0.13641781972137323 WDKLRSAL 8 Unmodified _WDKLRSAL_ 0 0 0 REV__ENSG00000152377|ENST00000394945|SPOCK1 REV__ENSG00000152377|ENST00000394945|SPOCK1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 330.1790466308594 3 330.190665 987.550165 2.3812 0.00078625 1.6507 0.00054505 4.0319 0.0013313 330.19132696297316 27.359 0.25898 28.145 27.983 28.242 0.78627 37 22 3 0 0 0 0.14111 1 12315 12315 3.9444 0 1 584930 + 37531 12646 23800 23876 42180 42180 0.05589180025708629 WDQWYLWYLRL 11 Unmodified _WDQWYLWYLRL_ 0 0 0 nc|ENSG00000160145|O60229|KALRN;nc|ENSG00000160145|O60229-2|KALRN;ENST00000488825.5_1_3:123813684-123881061:+|nuORF nc|ENSG00000160145|O60229|KALRN nc|ENSG00000160145|O60229|KALRN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.2797241210938 3 547.945271 1640.81398 2.869 0.001572 -1.65 -0.00090414 1.2189 0.00066791 547.9445673283619 52.393 0.30749 53.204 53.084 53.392 0.81065 43 20 3 0 0 0 0.91378 2 23863 23863;23912 0.094841 0.021578 1 1026100 37532 9710 23801 23877 42181;42182 42181 0.019209703397564226 WDQWYLWYLRL 11 Unmodified _WDQWYLWYLRL_ 0 0 0 nc|ENSG00000160145|O60229|KALRN;nc|ENSG00000160145|O60229-2|KALRN;ENST00000488825.5_1_3:123813684-123881061:+|nuORF nc|ENSG00000160145|O60229|KALRN nc|ENSG00000160145|O60229|KALRN MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 547.945271 1640.81398 3.9619 0.0021709 -3.339 -0.0018296 0.62291 0.00034132 548.2780775515041 53.546 0.26228 53.546 53.404 53.666 0 0.027095 -0.0022415 NaN 0.094841 26 18 2 NaN NaN NaN NaN 0 NaN NaN 0 2253000 37533 9710 23801 23877 0.019209703397564226 WDQWYLWYLRL 11 Unmodified _WDQWYLWYLRL_ 0 0 0 nc|ENSG00000160145|O60229|KALRN;nc|ENSG00000160145|O60229-2|KALRN;ENST00000488825.5_1_3:123813684-123881061:+|nuORF nc|ENSG00000160145|O60229|KALRN nc|ENSG00000160145|O60229|KALRN MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 547.945271 1640.81398 3.6325 0.0019904 -1.9926 -0.0010919 1.6399 0.00089858 548.2784011064732 53.462 0.24467 53.726 53.552 53.797 0.26462 0.20701 -2.8213E-05 NaN 0.094841 23 12 3 NaN NaN NaN NaN 0 NaN NaN 0 1168900 37534 9710 23801 23877 0.019209703397564226 WDQWYLWYLRL 11 Unmodified _WDQWYLWYLRL_ 0 0 0 nc|ENSG00000160145|O60229|KALRN;nc|ENSG00000160145|O60229-2|KALRN;ENST00000488825.5_1_3:123813684-123881061:+|nuORF nc|ENSG00000160145|O60229|KALRN nc|ENSG00000160145|O60229|KALRN MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 547.945271 1640.81398 3.3551 0.0018384 -1.96 -0.001074 1.3951 0.00076446 547.9439717134145 52.936 0.15185 53.601 53.507 53.659 0.6644 0.081312 2.5445E-05 NaN 0.094841 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 825300 37535 9710 23801 23877 0.019209703397564226 WDRFVKRIFYF 11 Unmodified _WDRFVKRIFYF_ 0 0 0 ENST00000572919.1_3_17:3488830-3495572:-|nuORF;nc|ENSG00000196689|Q8NER1-3|TRPV1;ENSG00000196689|ENST00000572705|TRPV1;ENST00000574085.5_1_17:3470111-3495610:-|nuORF ENST00000572919.1_3_17:3488830-3495572:-|nuORF ENST00000572919.1_3_17:3488830-3495572:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 788.4949340820312 2 788.924803 1575.83505 NaN NaN NaN NaN NaN NaN NaN 65.6 1 66.309 65.809 66.809 0.70891 0 0 0 1.0082 1 31040 31040 0 0 1 37536 5770 23802 23878 42183 42183 0.07016980439266263 WDRRRRRNRTR 11 Unmodified _WDRRRRRNRTR_ 0 0 0 REV__ENST00000361972.8_1_10:7212945-7217999:-|nuORF REV__ENST00000361972.8_1_10:7212945-7217999:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 814.464599609375 2 814.464878 1626.9152 NaN NaN NaN NaN NaN NaN NaN 90.287 1 90.96 90.46 91.46 0.67271 0 0 0 1.0082 1 41559 41559 0 0 1 + 37537 15635 23803 23879 42184 42184 0.1268227960567856 WDWCQFWCPMI 11 Unmodified _WDWCQFWCPMI_ 0 0 0 REV__ENST00000296824.3_1_5:206037-216951:-|nuORF REV__ENST00000296824.3_1_5:206037-216951:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.54205322265625 3 505.539983 1513.59812 NaN NaN NaN NaN NaN NaN NaN 44.718 1 44.986 44.486 45.486 0.26768 0 0 0 1.0071 1 20438 20438 0.50596 0 1 + 37538 15160 23804 23880 42185 42185 -0.1381357343241234 WDWWHRRRRRT 11 Unmodified _WDWWHRRRRRT_ 0 0 0 ENST00000583780.1_2_17:18263786-18266854:-|nuORF ENST00000583780.1_2_17:18263786-18266854:-|nuORF ENST00000583780.1_2_17:18263786-18266854:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 855.9501953125 2 855.951072 1709.88759 NaN NaN NaN NaN NaN NaN NaN 77.22 1 77.22 76.72 77.72 0 0 0 0 1.0082 1 37863 37863 0 0 1 37539 9163 23805 23881 42186 42186 0.06104376345410856 WEEDEIDDS 9 Unmodified _WEEDEIDDS_ 0 0 0 ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B ENSG00000168702|ENST00000389484|LRP1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1137.424560546875 1 1137.42185 1136.41458 3.3544 0.0038153 -0.43094 -0.00049016 2.9234 0.0033252 1137.4209980515072 60.184 0.043301 60.849 60.817 60.86 0.66503 4 2 2 0 0 0 1.2126 1 27556 27556 0.52476 0 1 451730 37540 4647 23806 23882 42187 42187 -0.1481722913708836 WEEHLRERERE 11 Unmodified _WEEHLRERERE_ 0 0 0 REV__nc|ENSG00000212643|Q15695|ZRSR2P1 REV__nc|ENSG00000212643|Q15695|ZRSR2P1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 784.8817749023438 2 784.881852 1567.74915 NaN NaN NaN NaN NaN NaN NaN 103.21 1 103.21 102.71 103.71 0 0 0 0 1.0082 1 56908 56908 0 0 1 + 37541 18130 23807 23883 42188 42188 -0.012012562042173158 WEEHLRQRERE 11 Unmodified _WEEHLRQRERE_ 0 0 0 REV__ENSG00000169249|ENST00000307771|ZRSR2 REV__ENSG00000169249|ENST00000307771|ZRSR2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 784.391845703125 2 784.389845 1566.76514 NaN NaN NaN NaN NaN NaN NaN 81.281 1 81.941 81.441 82.441 0.65998 0 0 0 1.0079 1 37448 37448 1.3295 1.0605 1 + 37542 13385 23808 23884 42189 42189 0.00442450032664965 WEKAQCEPK 9 Unmodified _WEKAQCEPK_ 0 0 0 REV__ENST00000373580.7_1_9:127575811-127576135:+|nuORF REV__ENST00000373580.7_1_9:127575811-127576135:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 373.5141906738281 3 373.51482 1117.52263 NaN NaN NaN NaN NaN NaN NaN 73.281 1 73.281 72.781 73.781 0 0 0 0 0.906 1 35701 35701 2.086 0.43339 1 + 37543 15769 23809 23885 42190 42190 -0.03143091296851708 WELRRRRPLRR 11 Unmodified _WELRRRRPLRR_ 0 0 0 ENST00000376771.8_1_X:48398216-48399763:+|nuORF ENST00000376771.8_1_X:48398216-48399763:+|nuORF ENST00000376771.8_1_X:48398216-48399763:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 797.486083984375 2 797.487291 1592.96003 NaN NaN NaN NaN NaN NaN NaN 21.159 1 21.159 20.659 21.659 0 0 0 0 1.0082 1 9469 9469 0 0 1 37544 7403 23810 23886 42191 42191 0.18726710418991388 WELRRRRPLRR 11 Unmodified _WELRRRRPLRR_ 0 0 0 ENST00000376771.8_1_X:48398216-48399763:+|nuORF ENST00000376771.8_1_X:48398216-48399763:+|nuORF ENST00000376771.8_1_X:48398216-48399763:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.9923706054688 3 531.993953 1592.96003 NaN NaN NaN NaN NaN NaN NaN 82.651 1 82.696 82.196 83.196 0.045006 0 0 0 1.0082 1 40839 40839 0 0 1 37545 7403 23810 23886 42192 42192 0.18726710418991388 WEPRKWRILFH 11 Unmodified _WEPRKWRILFH_ 0 0 0 REV__ENST00000528563.5_1_19:46807167-46825077:+|nuORF REV__ENST00000528563.5_1_19:46807167-46825077:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 392.7223815917969 4 392.721573 1566.85719 2.5201 0.00098971 -0.64657 -0.00025392 1.8736 0.00073579 392.7212508271794 69.515 0.83873 70.176 70.034 70.873 0.66071 192 58 4 0 0 0 0.91378 1 31860 31860 0.094841 0 1 2068400 + 37546 17118 23811 23887 42193 42193 0.09643204907683867 WERKYREWYEK 11 Unmodified _WERKYREWYEK_ 0 0 0 ENSG00000122257|ENST00000319715|RBBP6;nc|ENSG00000122257|Q7Z6E9-2|RBBP6 ENSG00000122257|ENST00000319715|RBBP6 ENSG00000122257|ENST00000319715|RBBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 836.9152221679688 2 836.915164 1671.81578 NaN NaN NaN NaN NaN NaN NaN 64.351 1 65.008 64.508 65.508 0.65672 0 0 0 1.0082 1 29501 29501 0 0 1 37547 2263 23812 23888 42194 42194 0.006739793577253295 WERLEFLQRKK 11 Unmodified _WERLEFLQRKK_ 0 0 0 ENSG00000268350|ENST00000622447|FAM156A;ENSG00000179304|ENST00000416841|FAM156B ENSG00000268350|ENST00000622447|FAM156A ENSG00000268350|ENST00000622447|FAM156A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 766.9384155273438 2 766.938442 1531.86233 NaN NaN NaN NaN NaN NaN NaN 57.526 1 57.791 57.291 58.291 0.26444 0 0 0 1.0082 1 26335 26335 0 0 1 37548 5210 23813 23889 42195 42195 0.11767463979617787 WERNQPYWFWF 11 Unmodified _WERNQPYWFWF_ 0 0 0 ENST00000228506.7_1_12:121134380-121134431:+|nuORF ENST00000228506.7_1_12:121134380-121134431:+|nuORF ENST00000228506.7_1_12:121134380-121134431:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 829.8788452148438 2 829.880593 1657.74663 NaN NaN NaN NaN NaN NaN NaN 45.51 1 45.778 45.278 46.278 0.26768 0 0 0 1.0082 1 20805 20805 0 0 1 37549 6434 23814 23890 42196 42196 -0.055930598712393476 WERPWWPRSWR 11 Unmodified _WERPWWPRSWR_ 0 0 0 ENST00000481276.1_1_1:1602946-1608282:-|nuORF ENST00000481276.1_1_1:1602946-1608282:-|nuORF ENST00000481276.1_1_1:1602946-1608282:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 821.4121704101562 2 821.412926 1640.8113 NaN NaN NaN NaN NaN NaN NaN 79.307 1 79.968 79.468 80.468 0.66082 0 0 0 1.0082 1 36542 36542 0 0 1 37550 8290 23815 23891 42197 42197 0.016525597254485547 WERRVRRRFE 10 Unmodified _WERRVRRRFE_ 0 0 0 ENST00000480844.2_1_2:74734258-74734516:-|nuORF ENST00000480844.2_1_2:74734258-74734516:-|nuORF ENST00000480844.2_1_2:74734258-74734516:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 745.415771484375 2 745.416 1488.81745 NaN NaN NaN NaN NaN NaN NaN 29.642 1 29.901 29.401 30.401 0.25804 0 0 0 1.0016 1 13490 13490 0.35063 0 1 37551 8284 23816 23892 42198 42198 0.09259077956949113 WEVAIKSI 8 Unmodified _WEVAIKSI_ 0 0 0 ENSG00000083290|ENST00000395544|ULK2 ENSG00000083290|ENST00000395544|ULK2 ENSG00000083290|ENST00000395544|ULK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 473.2768249511719 2 473.273835 944.533118 NaN NaN NaN NaN NaN NaN NaN 28.55 1 29.339 28.839 29.839 0.78921 0 0 0 0.67718 1 12859 12859 23.148 0 1 37552 938 23817 23893 42199 42199 0.05863259419891165 WEVKGWPNRL 10 Unmodified _WEVKGWPNRL_ 0 0 0 REV__nc|ENSG00000214711|A8MX76-2|CAPN14 REV__nc|ENSG00000214711|A8MX76-2|CAPN14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 428.90130615234375 3 428.899773 1283.67749 2.2637 0.00097091 0.37579 0.00016118 2.6395 0.0011321 429.23416610225513 73.077 0.45894 73.077 72.868 73.327 0 114 50 3 0 0 0 0.93584 1 35665 35665 1.7423 0.52744 1 4005200 + 37553 14512 23818 23894 42200 42200 0.04699900899890963 WEVKGWPNRL 10 Unmodified _WEVKGWPNRL_ 0 0 0 REV__nc|ENSG00000214711|A8MX76-2|CAPN14 REV__nc|ENSG00000214711|A8MX76-2|CAPN14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 428.9013671875 3 428.899773 1283.67749 2.245 0.00096288 0.15315 6.5688E-05 2.3982 0.0010286 429.2340979928053 72.247 0.2425 72.95 72.885 73.127 0.70387 35 26 2 0 0 0 0.93584 1 34837 34837 1.7423 0 1 2593500 + 37554 14512 23818 23894 42201 42201 0.04699900899890963 WEVKGWPNRL 10 Unmodified _WEVKGWPNRL_ 0 0 0 REV__nc|ENSG00000214711|A8MX76-2|CAPN14 REV__nc|ENSG00000214711|A8MX76-2|CAPN14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 429.2355041503906 3 428.899773 1283.67749 2.6468 0.0011352 0.691 0.00029637 3.3378 0.0014316 428.900229375341 72.29 0.93633 72.549 72.084 73.021 0.25876 241 83 4 0 0 0 0.93584 3 33132 33132;33310;33356 1.7423 0.67081 1 4063900 + 37555 14512 23818 23894 42202;42203;42204 42202 0.04699900899890963 WEVKGWPNRL 10 Unmodified _WEVKGWPNRL_ 0 0 0 REV__nc|ENSG00000214711|A8MX76-2|CAPN14 REV__nc|ENSG00000214711|A8MX76-2|CAPN14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 428.9007873535156 3 428.899773 1283.67749 2.3883 0.0010243 0.60731 0.00026047 2.9956 0.0012848 428.90016410592 72.024 0.91272 72.687 72.094 73.007 0.66324 195 72 4 0 0 0 0.93584 1 33114 33114 1.7423 0.67081 1 4105900 + 37556 14512 23818 23894 42205 42205 0.04699900899890963 WFAEFWEDNFH 11 Unmodified _WFAEFWEDNFH_ 0 0 0 nc|ENSG00000124493|Q14833-3|GRM4;nc|ENSG00000124493|Q14833-2|GRM4;nc|ENSG00000124493|Q14833-4|GRM4;ENSG00000124493|ENST00000538487|GRM4 nc|ENSG00000124493|Q14833-3|GRM4 nc|ENSG00000124493|Q14833-3|GRM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 764.3199462890625 2 764.320034 1526.62551 NaN NaN NaN NaN NaN NaN NaN 83.189 1 83.436 82.936 83.936 0.24722 0 0 0 1.0082 1 38294 38294 0 0 1 37557 2362 23819 23895 42206 42206 -0.11673307304522496 WFCCCCCCC 9 Unmodified _WFCCCCCCC_ 0 0 0 ENST00000606389.5_1_2:69691306-69691378:-|nuORF ENST00000606389.5_1_2:69691306-69691378:-|nuORF ENST00000606389.5_1_2:69691306-69691378:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.1207275390625 2 537.118568 1072.22258 NaN NaN NaN NaN NaN NaN NaN 93.357 1 93.443 92.943 93.943 0.086212 0 0 0 0.91452 1 48886 48886 0 0 1 37558 9321 23820 23896 42207 42207 -0.31063948753421755 WFCCCCCCCC 10 Unmodified _WFCCCCCCCC_ 0 0 0 ENST00000606389.5_1_2:69691306-69691378:-|nuORF ENST00000606389.5_1_2:69691306-69691378:-|nuORF ENST00000606389.5_1_2:69691306-69691378:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.6255493164062 2 588.62316 1175.23177 NaN NaN NaN NaN NaN NaN NaN 61.857 1 62.517 62.017 63.017 0.66008 0 0 0 1.002 1 28337 28337 0 0 1 37559 9321 23821 23897 42208 42208 -0.34883923459392463 WFCQKRFKWWL 11 Unmodified _WFCQKRFKWWL_ 0 0 0 REV__ENST00000521082.5_1_7:23207536-23207620:+|nuORF REV__ENST00000521082.5_1_7:23207536-23207620:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 814.4215698242188 2 814.421374 1626.82819 NaN NaN NaN NaN NaN NaN NaN 71.276 1 71.979 71.479 72.479 0.70386 0 0 0 1.0082 1 34223 34223 0 0 1 + 37560 17048 23822 23898 42209 42209 0.03985344287048065 WFDTGLSEM 9 Unmodified _WFDTGLSEM_ 0 0 0 ENSG00000109846|ENST00000650687|CRYAB ENSG00000109846|ENST00000650687|CRYAB ENSG00000109846|ENST00000650687|CRYAB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.2373046875 2 543.23405 1084.45355 3.222 0.0017503 0.95888 0.0005209 4.1809 0.0022712 543.2346496421914 78.687 0.36057 78.938 78.702 79.063 0.25127 38 22 2 0 0 0 0.047285 2 36237 36192;36237 48.346 28.907 1 592190 37561 1688 23823 23899 42210;42211 42211 -0.08530175316400346 WFDTGLSEM 9 Unmodified _WFDTGLSEM_ 0 0 0 ENSG00000109846|ENST00000650687|CRYAB ENSG00000109846|ENST00000650687|CRYAB ENSG00000109846|ENST00000650687|CRYAB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.2365112304688 2 543.23405 1084.45355 3.3556 0.0018229 0.70205 0.00038138 4.0576 0.0022042 543.2343817855337 78.148 0.28397 78.81 78.674 78.958 0.66198 27 15 2 0 0 0 0.020718 1 36010 36010 67.344 41.945 1 749200 37562 1688 23823 23899 42212 42212 -0.08530175316400346 WFEDEQASAT 10 Unmodified _WFEDEQASAT_ 0 0 0 REV__ENST00000571370.1_1_17:7589196-7589379:-|nuORF REV__ENST00000571370.1_1_17:7589196-7589379:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.16961669921875 3 395.168254 1182.48293 NaN NaN NaN NaN NaN NaN NaN 82.315 1 82.562 82.062 83.062 0.24722 0 0 0 1.0001 1 37889 37889 0.69767 0 1 + 37563 17449 23824 23900 42213 42213 -0.10100939766584816 WFERRFAQHQF 11 Unmodified _WFERRFAQHQF_ 0 0 0 REV__ENST00000523612.1_1_8:142469282-142469963:+|nuORF REV__ENST00000523612.1_1_8:142469282-142469963:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 776.3861083984375 2 776.383834 1550.75312 NaN NaN NaN NaN NaN NaN NaN 27.352 1 27.974 27.474 28.474 0.62179 0 0 0 1.0075 1 12540 12540 0.96228 0.65524 1 + 37564 17067 23825 23901 42214 42214 -0.00023121919844015792 WFGQRPLKR 9 Unmodified _WFGQRPLKR_ 0 0 0 REV__nc|ENSG00000204370|O14521-3|SDHD REV__nc|ENSG00000204370|O14521-3|SDHD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1187.684326171875 1 1187.67962 1186.67235 3.3555 0.0039852 -0.12354 -0.00014672 3.2319 0.0038385 1187.6826061454942 60.298 0.099007 60.964 60.919 61.018 0.66503 5 4 2 0 0 0 1.2459 1 27612 27612 0 0 1 408960 + 37565 16736 23826 23902 42215 42215 0.08647641827906227 WFHFKRYRYRR 11 Unmodified _WFHFKRYRYRR_ 0 0 0 ENSG00000105298|ENST00000429344|CACTIN;nc|ENSG00000105298|Q8WUQ7-2|CACTIN ENSG00000105298|ENST00000429344|CACTIN ENSG00000105298|ENST00000429344|CACTIN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 857.9601440429688 2 857.963117 1713.91168 NaN NaN NaN NaN NaN NaN NaN 93.889 1 93.889 93.389 94.389 0 0 0 0 1.0082 1 50221 50221 0 0 1 37566 1484 23827 23903 42216 42216 0.08328216779091235 WFHFWRRLCRR 11 Unmodified _WFHFWRRLCRR_ 0 0 0 REV__nc|ENSG00000130529|Q8TD43-2|TRPM4 REV__nc|ENSG00000130529|Q8TD43-2|TRPM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 831.935302734375 2 831.938588 1661.86262 NaN NaN NaN NaN NaN NaN NaN 90.09 1 90.09 89.59 90.59 0 0 0 0 1.008 1 47247 47247 0.30703 0.30703 1 + 37567 11822 23828 23904 42217 42217 0.05816605218501536 WFHFWRRLCRR 11 Unmodified _WFHFWRRLCRR_ 0 0 0 REV__nc|ENSG00000130529|Q8TD43-2|TRPM4 REV__nc|ENSG00000130529|Q8TD43-2|TRPM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 831.9390258789062 2 831.938588 1661.86262 NaN NaN NaN NaN NaN NaN NaN 92.719 1 92.719 92.219 93.219 0 0 0 0 1.0082 1 49337 49337 0 0 1 + 37568 11822 23828 23904 42218 42218 0.05816605218501536 WFHFWRRLCRR 11 Unmodified _WFHFWRRLCRR_ 0 0 0 REV__nc|ENSG00000130529|Q8TD43-2|TRPM4 REV__nc|ENSG00000130529|Q8TD43-2|TRPM4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 832.0526733398438 2 831.938588 1661.86262 NaN NaN NaN NaN NaN NaN NaN 94.617 1 94.617 94.117 95.117 0 0 0 0 1.0082 1 50798 50798 0 0 1 + 37569 11822 23828 23904 42219 42219 0.05816605218501536 WFHVLTFAF 9 Unmodified _WFHVLTFAF_ 0 0 0 REV__ENSG00000081923|ENST00000648908|ATP8B1 REV__ENSG00000081923|ENST00000648908|ATP8B1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.3030395507812 2 584.302927 1166.5913 NaN NaN NaN NaN NaN NaN NaN 70.021 1 70.681 70.181 71.181 0.66071 0 0 0 0.90611 1 32105 32105 2.0598 0.21551 1 + 37570 10613 23829 23905 42220 42220 0.014669410651549697 WFIDSNLL 8 Unmodified _WFIDSNLL_ 0 0 0 REV__ENST00000533086.5_1_19:15228578-15234387:-|nuORF REV__ENST00000533086.5_1_19:15228578-15234387:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.2630615234375 2 504.263468 1006.51238 NaN NaN NaN NaN NaN NaN NaN 45.508 1 45.776 45.276 46.276 0.26768 0 0 0 0.93233 1 20804 20804 10.183 0.83596 1 + 37571 11014 23830 23906 42221 42221 0.009386690402379827 WFIRLWRLKHV 11 Unmodified _WFIRLWRLKHV_ 0 0 0 REV__GAPVD1|p.I935Mfs*130|1|0.23|ENSG00000165219|chr9:125337518-125337518|T/-|frameshift_variant REV__GAPVD1|p.I935Mfs*130|1|0.23|ENSG00000165219|chr9:125337518-125337518|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 518.6458740234375 3 518.645379 1552.91431 NaN NaN NaN NaN NaN NaN NaN 89.213 1 89.891 89.391 90.391 0.67818 0 0 0 1.0082 1 41077 41077 0.08335 0.08335 1 + 37572 17690 23831 23907 42222 42222 0.15996672184041927 WFKRRKQRQFI 11 Unmodified _WFKRRKQRQFI_ 0 0 0 REV__ENSG00000134962|ENST00000257408|KLB REV__ENSG00000134962|ENST00000257408|KLB MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 398.5865478515625 4 398.987572 1591.92118 2.4627 0.00098259 1.8798 0.00075001 4.3425 0.0017326 399.2392499589871 46.363 0.25602 46.363 46.223 46.479 0 19 13 2 0 0 0 0.13295 1 21200 21200 0 0 1 1225000 + 37573 11991 23832 23908 42223 42223 0.14889985064633038 WFKRRKQRQFI 11 Unmodified _WFKRRKQRQFI_ 0 0 0 REV__ENSG00000134962|ENST00000257408|KLB REV__ENSG00000134962|ENST00000257408|KLB MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 398.5863342285156 4 398.987572 1591.92118 2.5541 0.0010191 1.1449 0.00045679 3.699 0.0014759 399.2387132847743 44.746 0.34241 45.567 45.467 45.809 0.82075 24 15 2 0 0 0 0.13295 1 20420 20420 0.094841 0.094841 1 518000 + 37574 11991 23832 23908 42224 42224 0.14889985064633038 WFKRRKQRQFI 11 Unmodified _WFKRRKQRQFI_ 0 0 0 REV__ENSG00000134962|ENST00000257408|KLB REV__ENSG00000134962|ENST00000257408|KLB MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.5866394042969 4 398.987572 1591.92118 2.9476 0.0011761 1.2873 0.00051361 4.2349 0.0016897 399.2386761595348 45.785 0.41572 46.05 45.91 46.326 0.26561 25 16 2 0 0 0 0.13295 1 20868 20868 0 0 1 741730 + 37575 11991 23832 23908 42225 42225 0.14889985064633038 WFKRRKQRQFI 11 Unmodified _WFKRRKQRQFI_ 0 0 0 REV__ENSG00000134962|ENST00000257408|KLB REV__ENSG00000134962|ENST00000257408|KLB MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.92034912109375 4 398.987572 1591.92118 3.1213 0.0012454 1.0859 0.00043327 4.2072 0.0016786 398.98805764243923 45.113 0.46629 45.763 45.515 45.981 0.64998 29 17 2 0 0 0 0.13295 1 20680 20680 0.094841 0.094841 1 949220 + 37576 11991 23832 23908 42226 42226 0.14889985064633038 WFKRRKQRQFI 11 Unmodified _WFKRRKQRQFI_ 0 0 0 REV__ENSG00000134962|ENST00000257408|KLB REV__ENSG00000134962|ENST00000257408|KLB MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 398.987572 1591.92118 2.501 0.00099788 1.807 0.00072098 4.3081 0.0017189 398.9881684926504 45.85 0.33999 45.85 45.595 45.935 0 0.12353 0.00080532 NaN 0.094841 29 15 3 NaN NaN NaN NaN 0 NaN NaN 0 725160 + 37577 11991 23832 23908 0.14889985064633038 WFKRRKQRQFI 11 Unmodified _WFKRRKQRQFI_ 0 0 0 REV__ENSG00000134962|ENST00000257408|KLB REV__ENSG00000134962|ENST00000257408|KLB MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 398.987572 1591.92118 3.1674 0.0012638 1.6658 0.00066465 4.8333 0.0019284 398.98824376255095 45.541 0.23823 46.192 46.001 46.24 0.65104 -0.0098233 0.00032318 NaN 0 23 11 3 NaN NaN NaN NaN 0 NaN NaN 0 180860 + 37578 11991 23832 23908 0.14889985064633038 WFKRRVAL 8 Unmodified _WFKRRVAL_ 0 0 0 REV__ENST00000598903.5_2_10:109800211-109800896:-|nuORF REV__ENST00000598903.5_2_10:109800211-109800896:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.3312377929688 2 538.329811 1074.64507 3.2361 0.0017421 0.93309 0.00050231 4.1692 0.0022444 538.329223349673 37.539 0.3511 37.799 37.572 37.923 0.26083 28 10 4 0 0 0 0.40037 1 17077 17077 28.173 7.302 1 1492800 + 37579 17624 23833 23909 42227 42227 0.11073158287558726 WFKRRVAL 8 Unmodified _WFKRRVAL_ 0 0 0 REV__ENST00000598903.5_2_10:109800211-109800896:-|nuORF REV__ENST00000598903.5_2_10:109800211-109800896:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.3318481445312 2 538.329811 1074.64507 3.3462 0.0018013 1.3399 0.0007213 4.6861 0.0025226 538.3295441922276 36.855 0.5577 37.485 37.214 37.771 0.62999 49 23 3 0 0 0 0.5047 2 16851 16851;16913 20.871 6.2895 1 1235900 + 37580 17624 23833 23909 42228;42229 42228 0.11073158287558726 WFLLWELKLFP 11 Unmodified _WFLLWELKLFP_ 0 0 0 REV__ENST00000602760.1_1_2:114647100-114647259:-|nuORF REV__ENST00000602760.1_1_2:114647100-114647259:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 746.4251708984375 2 746.423574 1490.83259 NaN NaN NaN NaN NaN NaN NaN 94.697 1 95.314 94.814 95.814 0.61736 0 0 0 1.008 1 43550 43550 0.35063 0.043601 1 + 37581 17647 23834 23910 42230 42230 0.10681131981596081 WFLNRKIIIH 10 Unmodified _WFLNRKIIIH_ 0 0 0 ENST00000311806.7_1_3:38295131-38295401:+|nuORF ENST00000311806.7_1_3:38295131-38295401:+|nuORF ENST00000311806.7_1_3:38295131-38295401:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 447.27447509765625 3 447.27143 1338.79246 NaN NaN NaN NaN NaN NaN NaN 104.77 1 105.09 104.59 105.59 0.31863 0 0 0 1.0018 1 48362 48362 0.15932 0.064481 1 37582 6875 23835 23911 42231 42231 0.13661630101705668 WFPLTLVFQF 10 Unmodified _WFPLTLVFQF_ 0 0 0 REV__ENSG00000182631|ENST00000330120|RXFP3 REV__ENSG00000182631|ENST00000330120|RXFP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 649.3589477539062 2 649.352617 1296.69068 NaN NaN NaN NaN NaN NaN NaN 71.774 1 72.437 71.937 72.937 0.66324 0 0 0 1.0004 1 32898 32898 1.3295 0 1 + 37583 13900 23836 23912 42232 42232 0.05420338959265791 WFPPRQQQV 9 Unmodified _WFPPRQQQV_ 0 0 0 REV__ENST00000584581.5_1_18:72178181-72179738:+|nuORF REV__ENST00000584581.5_1_18:72178181-72179738:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.87847900390625 3 395.876969 1184.60908 3.2673 0.0012935 0.29409 0.00011643 3.5614 0.0014099 395.877119786909 10.184 0.54047 10.813 10.615 11.156 0.62936 83 49 2 0 0 0 1.1703 1 4660 4660 1.1933 0 1 94227 + 37584 17519 23837 23913 42233 42233 0.02415656320022208 WFPRRYLPKIF 11 Unmodified _WFPRRYLPKIF_ 0 0 0 nc|ENSG00000177076|Q5QJU3-3|ACER2;nc|ENSG00000177076|Q5QJU3-2|ACER2;ENSG00000177076|ENST00000340967|ACER2 nc|ENSG00000177076|Q5QJU3-3|ACER2 nc|ENSG00000177076|Q5QJU3-3|ACER2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 761.9375610351562 2 761.937714 1521.86087 NaN NaN NaN NaN NaN NaN NaN 26.569 1 26.833 26.333 27.333 0.26489 0 0 0 1.0082 1 12072 12072 0 0 1 37585 5100 23838 23914 42234 42234 0.1208187468153028 WFQHQHWLYWR 11 Unmodified _WFQHQHWLYWR_ 0 0 0 ENST00000475183.1_1_X:54953428-54957230:+|nuORF ENST00000475183.1_1_X:54953428-54957230:+|nuORF ENST00000475183.1_1_X:54953428-54957230:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 562.9420166015625 3 562.940743 1685.8004 NaN NaN NaN NaN NaN NaN NaN 66.037 1 66.694 66.194 67.194 0.65672 0 0 0 1.0082 1 30276 30276 0 0 1 37586 8218 23839 23915 42235 42235 -0.015068426488369369 WFQNRRMKHKR 11 Unmodified _WFQNRRMKHKR_ 0 0 0 ENSG00000151650|ENST00000325980|VENTX;ENSG00000173917|ENST00000330070|HOXB2;ENSG00000105996|ENST00000222718|HOXA2 ENSG00000151650|ENST00000325980|VENTX ENSG00000151650|ENST00000325980|VENTX MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.626708984375 3 529.624761 1585.85245 NaN NaN NaN NaN NaN NaN NaN 82.7 1 82.947 82.447 83.447 0.24722 0 0 0 1.008 1 38066 38066 0.08335 0 1 37587 1546 23840 23916 42236 42236 0.08295997493246432 WFQNRRMKWKK 11 Unmodified _WFQNRRMKWKK_ 0 0 0 ENSG00000120075|ENST00000239151|HOXB5;ENSG00000106004|ENST00000222726|HOXA5;ENST00000520854.1_1_7:27181456-27182390:-|nuORF;nc|ENSG00000197757|P09630-2|HOXC6;ENST00000467897.2_1_7:27168846-27192162:-|nuORF;ENSG00000172789|ENST00000312492|HOXC5;ENSG00000122592|ENST00000242159|HOXA7;ENSG00000106006|ENST00000222728|HOXA6;ENSG00000197757|ENST00000243108|HOXC6;ENSG00000037965|ENST00000040584|HOXC8;ENSG00000120068|ENST00000239144|HOXB8;ENSG00000170166|ENST00000306324|HOXD4;ENSG00000139515|ENST00000381033|PDX1;nc|ENSG00000175879|P13378-2|HOXD8;ENSG00000175879|ENST00000313173|HOXD8;ENSG00000197576|ENST00000360046|HOXA4;ENST00000567101.2_1_17:46685206-46710927:-|nuORF;ENSG00000260027|ENST00000239165|HOXB7;ENSG00000108511|ENST00000225648|HOXB6;ENSG00000182742|ENST00000332503|HOXB4;ENSG00000198353|ENST00000430889|HOXC4 ENSG00000120075|ENST00000239151|HOXB5;ENST00000567101.2_1_17:46685206-46710927:-|nuORF ENSG00000120075|ENST00000239151|HOXB5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 804.4406127929688 2 804.440629 1606.86671 NaN NaN NaN NaN NaN NaN NaN 101.46 1 101.46 100.96 101.96 0 0 0 0 1.0082 1 56049 56049 0 0 1 37588 1547;1635 23841 23917 42237 42237 0.08754649921547752 WFRKKKKNKKR 11 Unmodified _WFRKKKKNKKR_ 0 0 0 REV__ENST00000494045.5_1_9:136278026-136283036:-|nuORF REV__ENST00000494045.5_1_9:136278026-136283036:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 773.9950561523438 2 773.993886 1545.97322 NaN NaN NaN NaN NaN NaN NaN 68.67 1 69.372 68.872 69.872 0.70218 0 0 0 1.0082 1 32763 32763 0 0 1 + 37589 12529 23842 23918 42238 42238 0.22207148478378258 WFRQINDHFHV 11 Unmodified _WFRQINDHFHV_ 0 0 0 nc|ENSG00000134897|Q86UB2-2|BIVM;ENST00000490317.1_1_13:103473357-103492212:+|nuORF;ENSG00000134897|ENST00000257336|BIVM nc|ENSG00000134897|Q86UB2-2|BIVM nc|ENSG00000134897|Q86UB2-2|BIVM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 749.8709106445312 2 749.87056 1497.72657 NaN NaN NaN NaN NaN NaN NaN 59.469 1 59.469 58.969 59.969 0 0 0 0 1.008 1 27493 27493 0.35063 0 1 37590 2834 23843 23919 42239 42239 -0.0023881081117451686 WFRRFRQRLHP 11 Unmodified _WFRRFRQRLHP_ 0 0 0 ENST00000243918.9_1_20:43991669-43991846:+|nuORF ENST00000243918.9_1_20:43991669-43991846:+|nuORF ENST00000243918.9_1_20:43991669-43991846:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 799.95068359375 2 799.95001 1597.88547 NaN NaN NaN NaN NaN NaN NaN 74.886 1 75.55 75.05 76.05 0.6635 0 0 0 1.0082 1 36215 36215 0 0 1 37591 6475 23844 23920 42240 42240 0.11043947607640803 WFRRLSILLKL 11 Unmodified _WFRRLSILLKL_ 0 0 0 REV__chr11:103391535-103399663|312|10.06|0.06|7.28|+|2|TE_info:L1PA4,L1PA4_dup9200,L1,LINE,donor,-,103386500,103391535|None,DYNC2H1|35 REV__chr11:103391535-103399663|312|10.06|0.06|7.28|+|2|TE_info:L1PA4,L1PA4_dup9200,L1,LINE,donor,-,103386500,103391535|None,DYNC2H1|35 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 722.9615478515625 2 722.961189 1443.90782 NaN NaN NaN NaN NaN NaN NaN 17.948 1 18.249 17.749 18.749 0.30158 0 0 0 1.0082 1 8130 8130 0 0 1 + 37592 10017 23845 23921 42241 42241 0.20362734232708135 WFTLWRWWTRV 11 Unmodified _WFTLWRWWTRV_ 0 0 0 REV__nc|ENSG00000164284|Q8TAA5-2|GRPEL2 REV__nc|ENSG00000164284|Q8TAA5-2|GRPEL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 818.47314453125 2 818.93042 1635.84629 NaN NaN NaN NaN NaN NaN NaN 87.911 1 87.911 87.411 88.411 0 0 0 0 1.0082 1 45477 45477 0 0 1 + 37593 18014 23846 23922 42242 42242 0.053798025333662736 WFVQIRNRRRP 11 Unmodified _WFVQIRNRRRP_ 0 0 0 REV__SPON1|p.T141N|1|0.23|ENSG00000262655|chr11:14041597-14041597|C/A|missense_variant REV__SPON1|p.T141N|1|0.23|ENSG00000262655|chr11:14041597-14041597|C/A|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 764.4419555664062 2 764.442018 1526.86948 NaN NaN NaN NaN NaN NaN NaN 29.016 1 29.805 29.305 30.305 0.78921 0 0 0 1.0082 1 13076 13076 0 0 1 + 37594 18220 23847 23923 42243 42243 0.12712241370695665 WFWDRRRRRNR 11 Unmodified _WFWDRRRRRNR_ 0 0 0 REV__ENST00000361972.8_1_10:7212945-7217999:-|nuORF REV__ENST00000361972.8_1_10:7212945-7217999:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 852.3033447265625 2 852.464347 1702.91414 NaN NaN NaN NaN NaN NaN NaN 98.301 1 98.301 97.801 98.801 0 0 0 0 1.0082 1 53776 53776 0 0 1 + 37595 15635 23848 23924 42244 42244 0.09080065236753398 WFWFFWTVYMW 11 Unmodified _WFWFFWTVYMW_ 0 0 0 REV__ENSG00000186908|ENST00000426126|ZDHHC17 REV__ENSG00000186908|ENST00000426126|ZDHHC17 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 849.8860473632812 2 849.883758 1697.75296 NaN NaN NaN NaN NaN NaN NaN 53.706 1 53.706 53.206 54.206 0 0 0 0 1.0082 1 24620 24620 0 0 1 + 37596 14078 23849 23925 42245 42245 -0.06800257964050616 WFWWLEYYYNC 11 Unmodified _WFWWLEYYYNC_ 0 0 0 REV__nc|ENSG00000166272|Q9NX94|WBP1L REV__nc|ENSG00000166272|Q9NX94|WBP1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 836.852294921875 2 836.850113 1671.68567 NaN NaN NaN NaN NaN NaN NaN 87.175 1 87.175 86.675 87.675 0 0 0 0 1.0082 1 44875 44875 0 0 1 + 37597 13222 23850 23926 42246 42246 -0.12330332965620983 WGALSPPLAKS 11 Unmodified _WGALSPPLAKS_ 0 0 0 REV__nc|ENSG00000115762|Q96CS7-2|PLEKHB2 REV__nc|ENSG00000115762|Q96CS7-2|PLEKHB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 376.2147216796875 3 376.213358 1125.61824 2.7271 0.001026 0.32974 0.00012405 3.0568 0.00115 376.2136012513024 55.468 0.48521 55.468 55.21 55.695 0 75 39 4 0 0 0 0.86186 1 25505 25505 4.1166 0.17223 1 3373800 + 37598 17904 23851 23927 42247 42247 0.060460048857066795 WGALSPPLAKS 11 Unmodified _WGALSPPLAKS_ 0 0 0 REV__nc|ENSG00000115762|Q96CS7-2|PLEKHB2 REV__nc|ENSG00000115762|Q96CS7-2|PLEKHB2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 376.213358 1125.61824 2.6438 0.00099463 0.97243 0.00036584 3.6162 0.0013605 376.2138189918453 54.924 0.56239 55.59 55.412 55.974 0.6665 0.018734 0.00036232 NaN 4.1166 47 23 4 NaN NaN NaN NaN 0 NaN NaN 0 1892600 + 37599 17904 23851 23927 0.060460048857066795 WGCPGGGW 8 Unmodified _WGCPGGGW_ 0 0 0 ENST00000486845.1_1_6:33382534-33383872:+|nuORF ENST00000486845.1_1_6:33382534-33383872:+|nuORF ENST00000486845.1_1_6:33382534-33383872:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 819.3251342773438 1 819.32427 818.316994 4.1607 0.0034089 0.18952 0.00015528 4.3502 0.0035642 819.3218483924154 103.3 0.052551 103.89 103.87 103.92 0.59821 7 3 3 0 0 0 0.7471 1 47792 47792 0 0 1 467700 37600 8339 23852 23928 42248 42248 -0.09943199965584881 WGGGGGAA 8 Unmodified _WGGGGGAA_ 0 0 0 ENST00000563893.5_1_16:29874076-29874319:-|nuORF REV__ENSG00000171094|ENST00000389048|ALK REV__ENSG00000171094|ENST00000389048|ALK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 316.64263916015625 2 316.642988 631.271424 NaN NaN NaN NaN NaN NaN NaN 65.373 1 66.03 65.53 66.53 0.65672 0 0 0 0.99035 1 29971 29971 0 0 1 37601 13471 23853 23929 42249 42249 -0.058961021563391114 WGHPMGGP 8 Unmodified _WGHPMGGP_ 0 0 0 ENSG00000160551|ENST00000261716|TAOK1;nc|ENSG00000160551|Q7L7X3-3|TAOK1 ENSG00000160551|ENST00000261716|TAOK1 ENSG00000160551|ENST00000261716|TAOK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 838.3717041015625 1 838.366469 837.359193 4.7238 0.0039602 0.3164 0.00026526 5.0402 0.0042255 838.3676418474565 103.34 0.054047 103.66 103.63 103.69 0.31863 4 2 2 0 0 0 0.7471 1 47787 47787 0 0 1 268700 37602 4063 23854 23930 42250 42250 -0.06599224557203343 WGHPMGGP 8 Unmodified _WGHPMGGP_ 0 0 0 ENSG00000160551|ENST00000261716|TAOK1;nc|ENSG00000160551|Q7L7X3-3|TAOK1 ENSG00000160551|ENST00000261716|TAOK1 ENSG00000160551|ENST00000261716|TAOK1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 838.366469 837.359193 4.1593 0.003487 -1.5216 -0.0012757 2.6376 0.0022113 838.3644761726284 103.3 0.03923 103.9 103.87 103.91 0.59821 0.1188 -0.00039078 NaN 0 6 2 3 NaN NaN NaN NaN 0 NaN NaN 0 342900 37603 4063 23854 23930 -0.06599224557203343 WGHRAEWRRR 10 Unmodified _WGHRAEWRRR_ 0 0 0 REV__ENST00000445604.6_1_9:66553265-66553673:-|nuORF REV__ENST00000445604.6_1_9:66553265-66553673:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 705.0521850585938 2 705.374135 1408.73372 NaN NaN NaN NaN NaN NaN NaN 31.529 1 31.529 31.029 32.029 0 0 0 0 1.0015 1 14264 14264 0.40072 0 1 + 37604 14770 23855 23931 42251 42251 0.045699665799020295 WGHRIKLIKKR 11 Unmodified _WGHRIKLIKKR_ 0 0 0 REV__ENSG00000164647|ENST00000297205|STEAP1 REV__ENSG00000164647|ENST00000297205|STEAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 718.2734985351562 2 717.962055 1433.90956 NaN NaN NaN NaN NaN NaN NaN 82.898 1 82.898 82.398 83.398 0 0 0 0 1.0082 1 41633 41633 0 0 1 + 37605 13104 23856 23932 42252 42252 0.20995788041273045 WGKLKPILV 9 Unmodified _WGKLKPILV_ 0 0 0 REV__ENSG00000146205|ENST00000674324|ANO7 REV__ENSG00000146205|ENST00000674324|ANO7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.89990234375 3 351.898822 1052.67464 2.2223 0.00078202 0.11905 4.1895E-05 2.3413 0.00082391 351.8989652657337 50.564 0.40199 51.381 51.202 51.604 0.81738 32 19 2 0 0 0 0.78763 1 23094 23094 7.609 4.8738 1 827730 + 37606 12463 23857 23933 42253 42253 0.15040677513025003 WGKRRRRKRRR 11 Unmodified _WGKRRRRKRRR_ 0 0 0 ENST00000235372.11_1_1:14105080-14105206:+|nuORF ENST00000235372.11_1_1:14105080-14105206:+|nuORF ENST00000235372.11_1_1:14105080-14105206:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 537.6783447265625 3 537.676958 1610.00904 3.4896 0.0018763 0.21429 0.00011522 3.7039 0.0019915 537.676622087791 106.04 0.13608 106.64 106.55 106.68 0.59969 13 5 4 0 0 0 0.91489 1 48972 48972 0 0 1 997200 37607 6462 23858 23934 42254 42254 0.22844043498594147 WGLRVSPPH 9 Unmodified _WGLRVSPPH_ 0 0 0 ENST00000496353.1_1_1:1254237-1254918:-|nuORF ENST00000496353.1_1_1:1254237-1254918:-|nuORF ENST00000496353.1_1_1:1254237-1254918:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.52972412109375 3 350.194409 1047.5614 2.3104 0.00080909 0.82767 0.00028984 3.1381 0.0010989 350.1945685382891 15.329 0.87448 15.635 15.313 16.188 0.306 176 91 2 0 0 0 1.2289 1 7166 7166 0.26902 0 1 280720 37608 8442 23859 23935 42255 42255 0.03952002119831377 WGLRVSPPH 9 Unmodified _WGLRVSPPH_ 0 0 0 ENST00000496353.1_1_1:1254237-1254918:-|nuORF ENST00000496353.1_1_1:1254237-1254918:-|nuORF ENST00000496353.1_1_1:1254237-1254918:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 350.5305480957031 3 350.194409 1047.5614 2.3177 0.00081165 1.4849 0.00052 3.8026 0.0013316 350.529358849441 15.916 0.20888 16.222 16.181 16.39 0.306 32 27 2 0 0 0 1.2289 1 7239 7239 0.26902 0 1 82649 37609 8442 23859 23935 42256 42256 0.03952002119831377 WGLVVRGD 8 Unmodified _WGLVVRGD_ 0 0 0 ENST00000398637.9_1_12:46662442-46662643:-|nuORF ENST00000398637.9_1_12:46662442-46662643:-|nuORF ENST00000398637.9_1_12:46662442-46662643:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.250244140625 2 451.248152 900.481751 2.8858 0.0013022 1.457 0.00065747 4.3429 0.0019597 451.24876824339435 69.73 0.40042 69.985 69.708 70.108 0.25443 32 25 2 0 0 0 0.70146 1 31967 31967 5.7604 1.0044 1 312470 37610 7595 23860 23936 42257 42257 0.02752935445857929 WGLVVRGD 8 Unmodified _WGLVVRGD_ 0 0 0 ENST00000398637.9_1_12:46662442-46662643:-|nuORF ENST00000398637.9_1_12:46662442-46662643:-|nuORF ENST00000398637.9_1_12:46662442-46662643:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 451.248152 900.481751 2.8858 0.0013022 1.457 0.00065747 4.3429 0.0019597 451.24876824339435 69.73 0.40042 69.985 69.708 70.108 0.25443 0.10325 5.3663E-05 NaN 5.7604 32 25 2 NaN NaN NaN NaN 0 NaN NaN 0 312470 37611 7595 23860 23936 0.02752935445857929 WGLVVRGD 8 Unmodified _WGLVVRGD_ 0 0 0 ENST00000398637.9_1_12:46662442-46662643:-|nuORF ENST00000398637.9_1_12:46662442-46662643:-|nuORF ENST00000398637.9_1_12:46662442-46662643:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 451.248152 900.481751 2.8084 0.0012673 1.3724 0.00061929 4.1808 0.0018866 451.2487654622082 69.119 0.35888 69.778 69.58 69.939 0.65924 -0.10325 -2.2714E-05 NaN 5.7604 29 24 2 NaN NaN NaN NaN 0 NaN NaN 0 417110 37612 7595 23860 23936 0.02752935445857929 WGRLHFFFLWK 11 Unmodified _WGRLHFFFLWK_ 0 0 0 ENST00000360409.7_1_2:206659803-206659965:+|nuORF ENST00000360409.7_1_2:206659803-206659965:+|nuORF ENST00000360409.7_1_2:206659803-206659965:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 768.9169311523438 2 768.916781 1535.81901 NaN NaN NaN NaN NaN NaN NaN 80.944 1 81.192 80.692 81.692 0.24803 0 0 0 1.0082 1 37268 37268 0 0 1 37613 7213 23861 23937 42258 42258 0.07253318993002722 WGRLWWHRWLR 11 Unmodified _WGRLWWHRWLR_ 0 0 0 REV__ENST00000473038.5_1_1:46033610-46035625:+|nuORF REV__ENST00000473038.5_1_1:46033610-46035625:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.3035278320312 3 551.300494 1650.87965 3.9101 0.0021556 0.90084 0.00049663 4.8109 0.0026523 551.3010984516078 28.73 0.084295 28.73 28.691 28.775 0 10 6 2 0 0 0 0.91391 1 12976 12976 0.08335 0 1 414430 + 37614 16622 23862 23938 42259 42259 0.08024849095954778 WGRLWWHRWLR 11 Unmodified _WGRLWWHRWLR_ 0 0 0 REV__ENST00000473038.5_1_1:46033610-46035625:+|nuORF REV__ENST00000473038.5_1_1:46033610-46035625:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 826.447509765625 2 826.447103 1650.87965 NaN NaN NaN NaN NaN NaN NaN 46.801 1 47.453 46.953 47.953 0.65219 0 0 0 1.0082 1 21434 21434 0 0 1 + 37615 16622 23862 23938 42260 42260 0.08024849095954778 WGRRLRPLLR 10 Unmodified _WGRRLRPLLR_ 0 0 0 nc|ENSG00000126602|Q12931-2|TRAP1;ENSG00000126602|ENST00000246957|TRAP1;ENST00000574941.5_1_16:3728534-3767509:-|nuORF nc|ENSG00000126602|Q12931-2|TRAP1 nc|ENSG00000126602|Q12931-2|TRAP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1323.83447265625 1 1322.82802 1321.82074 3.2191 0.0042583 -1.7513 -0.0023167 1.4678 0.0019416 1322.8234326174143 17.278 0.069429 17.278 17.22 17.29 0 7 5 2 0 0 0 0.94246 1 7671 7671 0.40072 0 1 315700 37616 2459 23863 23939 42261 42261 0.17270372801635858 WGRRRMRRRRR 11 Unmodified _WGRRRMRRRRR_ 0 0 0 REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense REV__L1MB7_dup8212|chr7:53345969-53347385:-|1.011945793474188|0.0072312460537075|7.13|506.0|24|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 821.65673828125 2 821.487634 1640.96071 NaN NaN NaN NaN NaN NaN NaN 39.864 1 40.506 40.006 41.006 0.64136 0 0 0 1.0082 1 18220 18220 0 0 1 + 37617 17761 23864 23940 42262 42262 0.16587226587057557 WGRRRRKRIAL 11 Unmodified _WGRRRRKRIAL_ 0 0 0 ENST00000544313.5_1_11:114271388-114271457:+|nuORF ENST00000544313.5_1_11:114271388-114271457:+|nuORF ENST00000544313.5_1_11:114271388-114271457:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 734.9319458007812 2 734.465827 1466.9171 NaN NaN NaN NaN NaN NaN NaN 25.126 1 25.89 25.39 26.39 0.76356 0 0 0 1.0082 1 11271 11271 0 0 1 37618 8833 23865 23941 42263 42263 0.20231940361622947 WGRRRRKRLGS 11 Unmodified _WGRRRRKRLGS_ 0 0 0 REV__ENST00000480582.1_1_7:150555040-150557681:+|nuORF REV__ENST00000480582.1_1_7:150555040-150557681:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 476.6249084472656 3 476.623748 1426.84942 2.6259 0.0012516 0.14443 6.884E-05 2.7703 0.0013204 476.623758400367 101.21 0.10841 101.21 101.15 101.26 0 7 3 3 0 0 0 0.91489 1 55942 55942 0 0 1 8366700 + 37619 16693 23866 23942 42264 42264 0.1530649043079393 WGRTVPQR 8 Unmodified _WGRTVPQR_ 0 0 0 ENST00000484442.5_1_X:110341851-110341947:+|nuORF ENST00000484442.5_1_X:110341851-110341947:+|nuORF ENST00000484442.5_1_X:110341851-110341947:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.84869384765625 2 500.277775 998.540997 NaN NaN NaN NaN NaN NaN NaN 44.602 1 45.422 44.922 45.922 0.82075 0 0 0 0.99035 1 20311 20311 2.5775 0 1 37620 8324 23867 23943 42265 42265 0.041668314600542544 WGRWWFWLERR 11 Unmodified _WGRWWFWLERR_ 0 0 0 REV__ENST00000246635.7_1_17:39661629-39661743:-|nuORF REV__ENST00000246635.7_1_17:39661629-39661743:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 839.4308471679688 2 839.431119 1676.84768 NaN NaN NaN NaN NaN NaN NaN 87.497 1 87.497 86.997 87.997 0 0 0 0 1.0082 1 45140 45140 0 0 1 + 37621 14896 23868 23944 42266 42266 0.036334366221353775 WGSGAGAP 8 Unmodified _WGSGAGAP_ 0 0 0 REV__ENST00000529225.5_1_11:111797899-111800548:+|nuORF REV__ENST00000529225.5_1_11:111797899-111800548:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.66552734375 2 351.663921 701.313289 2.3937 0.00084177 1.0599 0.00037274 3.4536 0.0012145 351.6643779821076 78.319 0.82598 78.572 78.055 78.881 0.25334 60 44 2 0 0 0 0.7471 1 36152 36152 0.79363 0 1 357090 + 37622 17124 23869 23945 42267 42267 -0.04931546467798853 WGSGAGAP 8 Unmodified _WGSGAGAP_ 0 0 0 REV__ENST00000529225.5_1_11:111797899-111800548:+|nuORF REV__ENST00000529225.5_1_11:111797899-111800548:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 351.663921 701.313289 2.3673 0.00083251 0.82951 0.00029171 3.1969 0.0011242 351.66426369986146 78.26 0.69508 78.922 78.48 79.175 0.66198 0.17489 -8.4858E-05 NaN 0.79363 54 42 2 NaN NaN NaN NaN 0 NaN NaN 0 342410 + 37623 17124 23869 23945 -0.04931546467798853 WGVLCFKL 8 Unmodified _WGVLCFKL_ 0 0 0 REV__nc|ENSG00000156920|Q8IZF6-2|ADGRG4 REV__nc|ENSG00000156920|Q8IZF6-2|ADGRG4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 322.51519775390625 3 322.514091 964.520445 NaN NaN NaN NaN NaN NaN NaN 1.4436 1 1.4436 0.94361 1.9436 0 0 0 0 0.99035 1 660 660 0 0 1 + 37624 12788 23870 23946 42268 42268 0.03676524756019717 WGVPKRAG 8 Unmodified _WGVPKRAG_ 0 0 0 REV__ENST00000441897.5_1_22:24040925-24041297:+|nuORF REV__ENST00000441897.5_1_22:24040925-24041297:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 435.7527160644531 2 435.750862 869.487171 2.2923 0.00099889 1.37 0.00059696 3.6623 0.0015958 435.75130251668526 74.371 0.32215 75.058 74.937 75.26 0.68662 40 24 2 0 0 0 0.74071 1 35933 35933 2.5775 0 1 851470 + 37625 16348 23871 23947 42269 42269 0.047206590283281 WGVPKRAG 8 Unmodified _WGVPKRAG_ 0 0 0 REV__ENST00000441897.5_1_22:24040925-24041297:+|nuORF REV__ENST00000441897.5_1_22:24040925-24041297:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 435.750862 869.487171 2.3292 0.0010149 2.205 0.00096084 4.5342 0.0019758 435.75175491103 75.393 0.28652 75.393 75.278 75.565 0 0.11103 0.00039203 NaN 2.5775 40 24 2 NaN NaN NaN NaN 0 NaN NaN 0 1096700 + 37626 16348 23871 23947 0.047206590283281 WGVPKRAG 8 Unmodified _WGVPKRAG_ 0 0 0 REV__ENST00000441897.5_1_22:24040925-24041297:+|nuORF REV__ENST00000441897.5_1_22:24040925-24041297:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 435.750862 869.487171 2.5963 0.0011313 1.8699 0.00081481 4.4662 0.0019461 435.7516841272927 75.201 0.40428 75.459 75.259 75.664 0.25831 0.17713 9.9983E-05 NaN 2.5775 54 34 2 NaN NaN NaN NaN 0 NaN NaN 0 913980 + 37627 16348 23871 23947 0.047206590283281 WGVPKRAG 8 Unmodified _WGVPKRAG_ 0 0 0 REV__ENST00000441897.5_1_22:24040925-24041297:+|nuORF REV__ENST00000441897.5_1_22:24040925-24041297:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 435.750862 869.487171 2.5959 0.0011312 1.3737 0.0005986 3.9696 0.0017298 435.7512839420446 74.554 0.4399 75.218 75.047 75.487 0.6644 -0.06376 -0.00033244 NaN 2.5775 88 46 3 NaN NaN NaN NaN 0 NaN NaN 0 1062000 + 37628 16348 23871 23947 0.047206590283281 WGWEWRRKRWR 11 Unmodified _WGWEWRRKRWR_ 0 0 0 REV__ENST00000456291.1_3_9:123638279-123638699:-|nuORF REV__ENST00000456291.1_3_9:123638279-123638699:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 851.4497680664062 2 851.452917 1700.89128 NaN NaN NaN NaN NaN NaN NaN 104.72 1 104.77 104.27 105.27 0.050888 0 0 0 1.0082 1 56674 56674 0 0 1 + 37629 16452 23872 23948 42270 42270 0.06887046119254592 WGWWRWWEHRL 11 Unmodified _WGWWRWWEHRL_ 0 0 0 ENST00000564785.5_1_15:75650962-75651301:-|nuORF;ENST00000563368.5_1_15:75650962-75652298:-|nuORF ENST00000564785.5_1_15:75650962-75651301:-|nuORF ENST00000564785.5_1_15:75650962-75651301:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 849.4166870117188 2 849.415469 1696.81638 NaN NaN NaN NaN NaN NaN NaN 94.985 1 95.603 95.103 96.103 0.61736 0 0 0 1.0082 1 43683 43683 0 0 1 37630 9010 23873 23949 42271 42271 -0.004151364119479695 WHDLKTKL 8 Unmodified _WHDLKTKL_ 0 0 0 REV__ENST00000434503.5_1_7:156480878-156685794:-|nuORF REV__ENST00000434503.5_1_7:156480878-156685794:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 347.5359191894531 3 347.534431 1039.58147 2.3247 0.0008079 0.99937 0.00034731 3.324 0.0011552 347.53481127699433 47.765 0.41903 47.765 47.665 48.084 0 63 26 3 0 0 0 0.68959 1 21861 21861 6.7232 3.1267 1 4759400 + 37631 16293 23874 23950 42272 42272 0.06325753059786621 WHDLKTKL 8 Unmodified _WHDLKTKL_ 0 0 0 REV__ENST00000434503.5_1_7:156480878-156685794:-|nuORF REV__ENST00000434503.5_1_7:156480878-156685794:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 347.4899597167969 3 347.534431 1039.58147 2.3247 0.0008079 0.99937 0.00034731 3.324 0.0011552 347.53481127699433 47.765 0.41903 47.765 47.665 48.084 0 63 26 3 0 0 0 0.13877 1 21850 21850 10.824 6.8795 1 4759400 + 37632 16293 23874 23950 42273 42273 0.06325753059786621 WHDLKTKL 8 Unmodified _WHDLKTKL_ 0 0 0 REV__ENST00000434503.5_1_7:156480878-156685794:-|nuORF REV__ENST00000434503.5_1_7:156480878-156685794:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 347.5356750488281 3 347.534431 1039.58147 2.719 0.00094496 0.88538 0.0003077 3.6044 0.0012527 347.53478620476534 47.588 1.0115 47.851 47.124 48.136 0.26363 131 51 3 0 0 0 0.63902 1 21728 21728 10.824 3.215 1 5903100 + 37633 16293 23874 23950 42274 42274 0.06325753059786621 WHDLKTKL 8 Unmodified _WHDLKTKL_ 0 0 0 REV__ENST00000434503.5_1_7:156480878-156685794:-|nuORF REV__ENST00000434503.5_1_7:156480878-156685794:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 347.534431 1039.58147 2.2372 0.00077752 1.3934 0.00048424 3.6306 0.0012618 347.5349198774242 46.685 0.42514 47.514 47.417 47.842 0.82915 -0.19598 0.00031343 NaN 10.824 71 24 4 NaN NaN NaN NaN 0 NaN NaN 0 2343900 + 37634 16293 23874 23950 0.06325753059786621 WHDLKTKL 8 Unmodified _WHDLKTKL_ 0 0 0 REV__ENST00000434503.5_1_7:156480878-156685794:-|nuORF REV__ENST00000434503.5_1_7:156480878-156685794:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 347.534431 1039.58147 2.719 0.00094496 0.88538 0.0003077 3.6044 0.0012527 347.53478620476534 47.588 1.0115 47.851 47.124 48.136 0.26363 0.14092 -0.0002162 NaN 10.824 131 51 3 NaN NaN NaN NaN 0 NaN NaN 0 5903100 + 37635 16293 23874 23950 0.06325753059786621 WHEANQHKNR 10 Unmodified _WHEANQHKNR_ 0 0 0 L1PB1_dup998|chr2:34715538-34720489:-|4.098121381973527|0.252296353110605|4.02|532.0|8|1|sense L1PB1_dup998|chr2:34715538-34720489:-|4.098121381973527|0.252296353110605|4.02|532.0|8|1|sense L1PB1_dup998|chr2:34715538-34720489:-|4.098121381973527|0.252296353110605|4.02|532.0|8|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 660.3212280273438 2 660.321234 1318.62791 NaN NaN NaN NaN NaN NaN NaN 15.843 1 16.501 16.001 17.001 0.65798 0 0 0 1.002 1 7139 7139 0 0 1 37636 9483 23875 23951 42275 42275 -0.018654140562148314 WHEEEWEKVWL 11 Unmodified _WHEEEWEKVWL_ 0 0 0 nc|ENSG00000040933|Q96PE3-2|INPP4A;nc|ENSG00000040933|Q96PE3-4|INPP4A;ENSG00000040933|ENST00000409851|INPP4A;nc|ENSG00000040933|Q96PE3|INPP4A nc|ENSG00000040933|Q96PE3-2|INPP4A nc|ENSG00000040933|Q96PE3-2|INPP4A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 785.8700561523438 2 785.869891 1569.72523 NaN NaN NaN NaN NaN NaN NaN 90.099 1 90.164 89.664 90.664 0.064346 0 0 0 1.008 1 46342 46342 0.35063 0 1 37637 536 23876 23952 42276 42276 -0.036844896905904534 WHELRRFWIRD 11 Unmodified _WHELRRFWIRD_ 0 0 0 ENST00000549078.5_1_12:53344429-53346127:+|nuORF ENST00000549078.5_1_12:53344429-53346127:+|nuORF ENST00000549078.5_1_12:53344429-53346127:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.48779296875 3 538.619781 1612.83751 NaN NaN NaN NaN NaN NaN NaN 72.356 1 73.02 72.52 73.52 0.66324 0 0 0 1.0082 1 33184 33184 0 0 1 37638 8859 23877 23953 42277 42277 0.055608288969096975 WHHDLPGL 8 Unmodified _WHHDLPGL_ 0 0 0 REV__ENSG00000113300|ENST00000261951|CNOT6 REV__ENSG00000113300|ENST00000261951|CNOT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 487.7459716796875 2 487.745776 973.477 3.0134 0.0014698 -0.95249 -0.00046457 2.061 0.0010052 487.7449488908957 62.367 0.34121 63.027 62.842 63.183 0.66009 44 23 2 0 0 0 0.31786 1 28609 28609 34.187 1.8818 1 1487300 + 37639 11295 23878 23954 42278 42278 -0.010799486969290228 WHKMWREWWMC 11 Unmodified _WHKMWREWWMC_ 0 0 0 REV__ENST00000301180.9_1_12:51133363-51135252:+|nuORF REV__ENST00000301180.9_1_12:51133363-51135252:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 839.8674926757812 2 839.865051 1677.71555 NaN NaN NaN NaN NaN NaN NaN 82.904 1 83.151 82.651 83.651 0.24722 0 0 0 1.0082 1 38161 38161 0 0 1 + 37640 15189 23879 23955 42279 42279 -0.09619995772936818 WHLVKKVKLFH 11 Unmodified _WHLVKKVKLFH_ 0 0 0 ENST00000476142.1_1_3:56651192-56651654:+|nuORF ENST00000476142.1_1_3:56651192-56651654:+|nuORF ENST00000476142.1_1_3:56651192-56651654:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.72515869140625 4 359.473766 1433.86596 2.5995 0.00093447 -0.011261 -4.0479E-06 2.5883 0.00093042 359.4736010612927 84.135 0.61354 84.382 84.193 84.806 0.24757 88 36 4 0 0 0 0.91378 1 38763 38763 0.094841 0.011491 1 1145600 37641 8228 23880 23956 42280 42280 0.16638178544144466 WHNLYHFLQYL 11 Unmodified _WHNLYHFLQYL_ 0 0 0 REV__ENSG00000141560|ENST00000269373|FN3KRP REV__ENSG00000141560|ENST00000269373|FN3KRP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 767.3854370117188 2 767.385511 1532.75647 NaN NaN NaN NaN NaN NaN NaN 88.112 1 88.363 87.863 88.863 0.25064 0 0 0 1.008 1 40545 40545 0.30703 0 1 + 37642 12298 23881 23957 42281 42281 0.01140128134193219 WHPILLIW 8 Unmodified _WHPILLIW_ 0 0 0 REV__ENST00000307179.8_1_15:50769169-50769544:+|nuORF REV__ENST00000307179.8_1_15:50769169-50769544:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.4840087890625 3 359.879651 1076.61712 2.4403 0.00087822 -0.98585 -0.00035479 1.4545 0.00052343 359.8791510670554 38.776 0.089573 39.04 38.999 39.089 0.26408 4 2 2 0 0 0 0.14304 1 17664 17664 1.8442 0.19162 1 106350 + 37643 15236 23882 23958 42282 42282 0.0818783530746714 WHRWRPWLRSE 11 Unmodified _WHRWRPWLRSE_ 0 0 0 REV__ENST00000294753.8_1_1:247492143-247492663:-|nuORF REV__ENST00000294753.8_1_1:247492143-247492663:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.010986328125 3 536.948009 1607.8222 NaN NaN NaN NaN NaN NaN NaN 45.755 1 46.582 46.082 47.082 0.82621 0 0 0 1.0073 1 20835 20835 0.40827 0 1 + 37644 15139 23883 23959 42283 42283 0.0425996209976347 WHTPEARF 8 Unmodified _WHTPEARF_ 0 0 0 REV__ENSG00000071894|ENST00000616140|CPSF1 REV__ENSG00000071894|ENST00000616140|CPSF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 522.2573852539062 2 522.256508 1042.49846 3.2801 0.0017131 -1.122 -0.00058595 2.1582 0.0011271 522.2559101495475 28.026 0.28226 28.646 28.524 28.806 0.61947 37 17 3 0 0 0 0.74071 1 12914 12914 2.5775 0.27475 1 322600 + 37645 10484 23884 23960 42284 42284 -0.021085636682073527 WHWHWRRRRRR 11 Unmodified _WHWHWRRRRRR_ 0 0 0 REV__ENST00000321582.9_1_9:124855435-124855555:-|nuORF REV__ENST00000321582.9_1_9:124855435-124855555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 894.49365234375 2 894.493773 1786.97299 NaN NaN NaN NaN NaN NaN NaN 72.521 1 73.225 72.725 73.725 0.70386 0 0 0 1.0082 1 34917 34917 0 0 1 + 37646 15322 23885 23961 42285 42285 0.1109858632171381 WHWHWRRRRRR 11 Unmodified _WHWHWRRRRRR_ 0 0 0 REV__ENST00000321582.9_1_9:124855435-124855555:-|nuORF REV__ENST00000321582.9_1_9:124855435-124855555:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 894.490966796875 2 894.493773 1786.97299 NaN NaN NaN NaN NaN NaN NaN 54.196 1 54.46 53.96 54.96 0.26462 0 0 0 1.0082 1 24782 24782 0 0 1 + 37647 15322 23885 23961 42286 42286 0.1109858632171381 WHYHWSHLQA 10 Unmodified _WHYHWSHLQA_ 0 0 0 REV__ENSG00000184389|ENST00000442999|A3GALT2 REV__ENSG00000184389|ENST00000442999|A3GALT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 682.8178100585938 2 682.817796 1363.62104 NaN NaN NaN NaN NaN NaN NaN 31.469 1 32.258 31.758 32.758 0.78879 0 0 0 1.0015 1 14213 14213 0.45834 0.057624 1 + 37648 13971 23886 23962 42287 42287 -0.04622726936759136 WHYYRFRPRWN 11 Unmodified _WHYYRFRPRWN_ 0 0 0 REV__ENST00000560023.1_1_15:34533432-34537514:-|nuORF REV__ENST00000560023.1_1_15:34533432-34537514:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 840.9180908203125 2 840.918375 1679.8222 NaN NaN NaN NaN NaN NaN NaN 44.578 1 44.578 44.078 45.078 0 0 0 0 1.0082 1 20377 20377 0 0 1 + 37649 11635 23887 23963 42288 42288 0.009479620997353777 WIFVHRRWFYW 11 Unmodified _WIFVHRRWFYW_ 0 0 0 REV__ENSG00000187688|ENST00000338560|TRPV2 REV__ENSG00000187688|ENST00000338560|TRPV2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 848.4385375976562 2 848.438412 1694.86227 NaN NaN NaN NaN NaN NaN NaN 73.152 1 73.152 72.652 73.652 0 0 0 0 1.0082 1 35628 35628 0 0 1 + 37650 14106 23888 23964 42289 42289 0.04263508770327462 WIFVHRRWFYW 11 Unmodified _WIFVHRRWFYW_ 0 0 0 REV__ENSG00000187688|ENST00000338560|TRPV2 REV__ENSG00000187688|ENST00000338560|TRPV2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 848.4387817382812 2 848.438412 1694.86227 NaN NaN NaN NaN NaN NaN NaN 87.974 1 87.974 87.474 88.474 0 0 0 0 1.0082 1 45522 45522 0 0 1 + 37651 14106 23888 23964 42290 42290 0.04263508770327462 WIFVHRRWFYW 11 Unmodified _WIFVHRRWFYW_ 0 0 0 REV__ENSG00000187688|ENST00000338560|TRPV2 REV__ENSG00000187688|ENST00000338560|TRPV2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 848.4387817382812 2 848.438412 1694.86227 NaN NaN NaN NaN NaN NaN NaN 96.928 1 97.004 96.504 97.504 0.076538 0 0 0 1.0082 1 51655 51655 0 0 1 + 37652 14106 23888 23964 42291 42291 0.04263508770327462 WIFVLLPRL 9 Unmodified _WIFVLLPRL_ 0 0 0 REV__ENST00000574767.5_1_17:78681670-78831736:+|nuORF REV__ENST00000574767.5_1_17:78681670-78831736:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.8662109375 2 578.865695 1155.71684 NaN NaN NaN NaN NaN NaN NaN 95.224 1 95.841 95.341 96.341 0.61736 0 0 0 0.91206 1 43791 43791 0.6015 0 1 + 37653 12299 23889 23965 42292 42292 0.14520652921419241 WIFVNKFLRP 10 Unmodified _WIFVNKFLRP_ 0 0 0 REV__nc|ENSG00000184014|Q6IQ26-2|DENND5A REV__nc|ENSG00000184014|Q6IQ26-2|DENND5A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 660.3843383789062 2 660.384783 1318.75501 NaN NaN NaN NaN NaN NaN NaN 32.361 1 32.979 32.479 33.479 0.61831 0 0 0 1.0015 1 14839 14839 0.40072 0.050084 1 + 37654 13954 23890 23966 42293 42293 0.10838538836082989 WIGKTIWLIRL 11 Unmodified _WIGKTIWLIRL_ 0 0 0 HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|142|3|anti-sense HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|142|3|anti-sense HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|142|3|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 699.9332885742188 2 699.93464 1397.85473 NaN NaN NaN NaN NaN NaN NaN 57.829 1 57.829 57.329 58.329 0 0 0 0 1.0074 1 26666 26666 1.0715 0 1 37655 9400 23891 23967 42294 42294 0.1717135645003509 WIHFFKGL 8 Unmodified _WIHFFKGL_ 0 0 0 ENST00000409200.7_1_12:56231120-56232389:-|nuORF ENST00000409200.7_1_12:56231120-56232389:-|nuORF ENST00000409200.7_1_12:56231120-56232389:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.2948608398438 2 524.292362 1046.57017 NaN NaN NaN NaN NaN NaN NaN 28.213 1 28.999 28.499 29.499 0.78627 0 0 0 0.99035 1 12701 12701 2.8892 0 1 37656 7655 23892 23968 42295 42295 0.048749757563200546 WIHFTRRRRRR 11 Unmodified _WIHFTRRRRRR_ 0 0 0 REV__ENST00000317613.10_1_9:116303752-116304061:+|nuORF REV__ENST00000317613.10_1_9:116303752-116304061:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 820.1150512695312 2 820.485082 1638.95561 NaN NaN NaN NaN NaN NaN NaN 100.78 1 100.78 100.28 101.28 0 0 0 0 1.0082 1 55672 55672 0 0 1 + 37657 15300 23893 23969 42296 42296 0.16169245996070458 WIHFTRRRRRR 11 Unmodified _WIHFTRRRRRR_ 0 0 0 REV__ENST00000317613.10_1_9:116303752-116304061:+|nuORF REV__ENST00000317613.10_1_9:116303752-116304061:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 820.4840087890625 2 820.485082 1638.95561 NaN NaN NaN NaN NaN NaN NaN 80.045 1 80.705 80.205 81.205 0.66064 0 0 0 1.0082 1 36882 36882 0 0 1 + 37658 15300 23893 23969 42297 42297 0.16169245996070458 WIIIELKHK 9 Unmodified _WIIIELKHK_ 0 0 0 ENSG00000119888|ENST00000263735|EPCAM ENSG00000119888|ENST00000263735|EPCAM ENSG00000119888|ENST00000263735|EPCAM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 393.9144592285156 3 393.913131 1178.71756 2.594 0.0010218 1.9968 0.00078657 4.5908 0.0018084 393.91348925289304 38.14 0.27165 38.936 38.815 39.087 0.79552 25 9 3 0 0 0 1.1412 1 17287 17287 0.86438 0.23755 1 329480 37659 2169 23894 23970 42298 42298 0.13535447570461656 WIKDRVEQI 9 Unmodified _WIKDRVEQI_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 593.8346557617188 2 593.83258 1185.65061 3.9913 0.0023702 0.34678 0.00020593 4.3381 0.0025761 593.8325886142277 35.939 0.17383 36.566 36.491 36.665 0.62631 8 5 2 0 0 0 0.094033 1 16480 16480 36.506 0.37917 1 417350 37660 4953 23895 23971 42299 42299 0.06520792288711164 WIKDRVEQI 9 Unmodified _WIKDRVEQI_ 0 0 0 nc|ENSG00000173821|Q63HN8|RNF213;ENSG00000173821|ENST00000582970|RNF213;nc|ENSG00000173821|Q63HN8-4|RNF213;RNF213|p.S4116Ifs*7|1|0.28|ENSG00000173821|chr17:80369783-80369784|-/A|frameshift_variant;ENST00000559070.5_1_17:78261823-78310301:+|nuORF nc|ENSG00000173821|Q63HN8|RNF213 nc|ENSG00000173821|Q63HN8|RNF213 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 593.83258 1185.65061 3.7009 0.0021977 0.44921 0.00026675 4.1501 0.0024645 593.8330289729488 36.565 0.20982 36.823 36.719 36.929 0.25768 0.12853 7.9789E-05 NaN 36.506 13 7 2 NaN NaN NaN NaN 0 NaN NaN 0 445430 37661 4953 23895 23971 0.06520792288711164 WIKKWLRWLPH 11 Unmodified _WIKKWLRWLPH_ 0 0 0 REV__ENSG00000103522|ENST00000337929|IL21R REV__ENSG00000103522|ENST00000337929|IL21R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 782.3291625976562 2 781.958981 1561.90341 NaN NaN NaN NaN NaN NaN NaN 78.376 1 78.84 78.34 79.34 0.4642 0 0 0 1.0082 1 38105 38105 0 0 1 + 37662 10968 23896 23972 42300 42300 0.14493269809759113 WIKLFTVRFKQ 11 Unmodified _WIKLFTVRFKQ_ 0 0 0 REV__ENSG00000163485|ENST00000337894|ADORA1 REV__ENSG00000163485|ENST00000337894|ADORA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 367.2236328125 4 367.222412 1464.86054 2.539 0.00093239 0.49657 0.00018235 3.0356 0.0011147 367.222703544387 78.266 0.65351 78.928 78.84 79.494 0.66198 93 43 3 0 0 0 0.91345 1 36077 36077 0.45452 0 1 1015700 + 37663 12991 23897 23973 42301 42301 0.14670454961697033 WIKLFTVRFKQ 11 Unmodified _WIKLFTVRFKQ_ 0 0 0 REV__ENSG00000163485|ENST00000337894|ADORA1 REV__ENSG00000163485|ENST00000337894|ADORA1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 367.222412 1464.86054 1.7895 0.00065713 -0.25366 -9.3148E-05 1.5358 0.00056398 367.2222959843985 78.372 0.074654 78.836 78.807 78.882 0.4642 -0.15004 -0.00093904 NaN 0.45452 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 1060600 + 37664 12991 23897 23973 0.14670454961697033 WIKLFTVRFKQ 11 Unmodified _WIKLFTVRFKQ_ 0 0 0 REV__ENSG00000163485|ENST00000337894|ADORA1 REV__ENSG00000163485|ENST00000337894|ADORA1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 367.222412 1464.86054 2.4794 0.0009105 0.36106 0.00013259 2.8405 0.0010431 367.22257261616517 78.944 0.28151 79.195 79.075 79.357 0.25127 0.20851 -3.6093E-05 NaN 0.45452 37 21 2 NaN NaN NaN NaN 0 NaN NaN 0 784780 + 37665 12991 23897 23973 0.14670454961697033 WIKLFTVRFKQ 11 Unmodified _WIKLFTVRFKQ_ 0 0 0 REV__ENSG00000163485|ENST00000337894|ADORA1 REV__ENSG00000163485|ENST00000337894|ADORA1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 367.222412 1464.86054 2.539 0.00093239 0.49657 0.00018235 3.0356 0.0011147 367.222703544387 78.266 0.65351 78.928 78.84 79.494 0.66198 -0.058474 0.00016296 NaN 0.45452 93 43 3 NaN NaN NaN NaN 0 NaN NaN 0 1015700 + 37666 12991 23897 23973 0.14670454961697033 WIKLLDRRKRR 11 Unmodified _WIKLLDRRKRR_ 0 0 0 REV__ENST00000498213.1_1_10:75336047-75351038:-|nuORF REV__ENST00000498213.1_1_10:75336047-75351038:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 770.4884033203125 2 770.488968 1538.96338 NaN NaN NaN NaN NaN NaN NaN 43.811 1 43.811 43.311 44.311 0 0 0 0 1.0082 1 19984 19984 0 0 1 + 37667 16867 23898 23974 42302 42302 0.21545960473008563 WIKLNRKQ 8 Unmodified _WIKLNRKQ_ 0 0 0 REV__Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|111|3|sense REV__Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|111|3|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.74169921875 3 362.557459 1084.65055 2.5746 0.00093345 0.87143 0.00031594 3.446 0.0012494 362.55708077959144 45.834 0.18742 46.1 45.983 46.17 0.26561 11 7 2 0 0 0 0.14244 1 20901 20901 3.5965 0 1 525490 + 37668 17695 23899 23975 42303 42303 0.11160837079364683 WIKLNRKQ 8 Unmodified _WIKLNRKQ_ 0 0 0 REV__Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|111|3|sense REV__Harlequin-int_dup159|chr4:69053326-69056858:+|12.568162514976615|0.4897717427831806|4.68|542.0|111|3|sense MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 362.557459 1084.65055 2.7709 0.0010046 1.1748 0.00042592 3.9456 0.0014305 362.8925446477048 45.161 0.24524 45.812 45.721 45.966 0.65104 -0.14417 9.0734E-05 NaN 3.5965 17 8 3 NaN NaN NaN NaN 0 NaN NaN 0 583210 + 37669 17695 23899 23975 0.11160837079364683 WIKWLRWWRQW 11 Unmodified _WIKWLRWWRQW_ 0 0 0 REV__VCL|p.K139Nfs*28|1|0.16|ENSG00000035403|chr10:74071001-74071007|AGGAATT/-|frameshift_variant REV__VCL|p.K139Nfs*28|1|0.16|ENSG00000035403|chr10:74071001-74071007|AGGAATT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 872.4747924804688 2 872.472786 1742.93102 NaN NaN NaN NaN NaN NaN NaN 95.867 1 95.943 95.443 96.443 0.076538 0 0 0 1.0082 1 50790 50790 0 0 1 + 37670 18247 23900 23976 42304 42304 0.0892717307001476 WIKWLRWWRQW 11 Unmodified _WIKWLRWWRQW_ 0 0 0 REV__VCL|p.K139Nfs*28|1|0.16|ENSG00000035403|chr10:74071001-74071007|AGGAATT/-|frameshift_variant REV__VCL|p.K139Nfs*28|1|0.16|ENSG00000035403|chr10:74071001-74071007|AGGAATT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 872.4735107421875 2 872.472786 1742.93102 NaN NaN NaN NaN NaN NaN NaN 51.21 1 51.471 50.971 51.971 0.26146 0 0 0 1.0082 1 23402 23402 0 0 1 + 37671 18247 23900 23976 42305 42305 0.0892717307001476 WILKLKTIH 9 Unmodified _WILKLKTIH_ 0 0 0 L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|3|1|sense L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|3|1|sense L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|3|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 384.5828552246094 3 384.581493 1150.72265 2.4246 0.00093246 1.1765 0.00045246 3.6011 0.0013849 384.5818401271388 31.893 0.22971 32.681 32.562 32.791 0.78795 55 20 4 0 0 0 1.1154 1 14393 14393 1.0715 0.20709 1 4964400 37672 9437 23901 23977 42306 42306 0.15331751433086538 WILKLKTIH 9 Unmodified _WILKLKTIH_ 0 0 0 L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|3|1|sense L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|3|1|sense L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|3|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 384.58306884765625 3 384.581493 1150.72265 2.3603 0.00090772 1.2895 0.00049593 3.6498 0.0014037 384.58192379087325 34.428 0.21909 35.217 35.108 35.327 0.78921 33 18 3 0 0 0 0.95612 1 15637 15637 2.7352 1.8708 1 6606400 37673 9437 23901 23977 42307 42307 0.15331751433086538 WILKLKTIH 9 Unmodified _WILKLKTIH_ 0 0 0 L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|3|1|sense L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|3|1|sense L1MC1_dup4818|chr5:157018062-157020331:+|1.2048631609900489|0.0442921674053822|4.77|515.0|3|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 384.91729736328125 3 384.581493 1150.72265 2.7562 0.00106 1.1476 0.00044136 3.9039 0.0015014 384.581801036514 34.678 0.42458 35.301 35.115 35.539 0.62294 58 34 3 0 0 0 1.1154 1 15875 15875 1.0715 0.3738 1 4896300 37674 9437 23901 23977 42308 42308 0.15331751433086538 WILLTRRHMRL 11 Unmodified _WILLTRRHMRL_ 0 0 0 REV__ENST00000487903.5_1_13:113536839-113537211:+|nuORF REV__ENST00000487903.5_1_13:113536839-113537211:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.7941589355469 3 498.966124 1493.87654 NaN NaN NaN NaN NaN NaN NaN 71.015 1 71.719 71.219 72.219 0.70386 0 0 0 1.0079 1 34074 34074 0.40827 0.24894 1 + 37675 16773 23902 23978 42309 42309 0.1493583792694153 WILVCRLLVP 10 Unmodified _WILVCRLLVP_ 0 0 0 nc|ENSG00000156475|Q00005-4|PPP2R2B;nc|ENSG00000156475|Q00005-5|PPP2R2B;nc|ENSG00000156475|Q00005-7|PPP2R2B nc|ENSG00000156475|Q00005-4|PPP2R2B nc|ENSG00000156475|Q00005-4|PPP2R2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.3717651367188 2 606.370287 1210.72602 2.1289 0.0012909 -0.016399 -9.944E-06 2.1125 0.001281 606.3698058981099 104.33 0.30334 104.38 104.18 104.48 0.052986 36 30 2 0 0 0 0.94443 1 56530 56530 0 0 1 405890 37676 9702 23903 23979 42310 42310 0.12908678215421787 WINPLRRYRPF 11 Unmodified _WINPLRRYRPF_ 0 0 0 nc|ENSG00000119121|Q9BX84-4|TRPM6;nc|ENSG00000119121|Q9BX84-3|TRPM6;nc|ENSG00000119121|Q9BX84-2|TRPM6;ENSG00000119121|ENST00000360774|TRPM6 nc|ENSG00000119121|Q9BX84-4|TRPM6 nc|ENSG00000119121|Q9BX84-4|TRPM6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 759.4292602539062 2 759.428045 1516.84154 NaN NaN NaN NaN NaN NaN NaN 91.107 1 91.182 90.682 91.682 0.075279 0 0 0 1.0079 1 47123 47123 1.1933 0.84271 1 37677 2133 23904 23980 42311 42311 0.10378918390642866 WIPIRRFHI 9 Unmodified _WIPIRRFHI_ 0 0 0 ENST00000335661.6_1_15:80263082-80263130:-|nuORF ENST00000335661.6_1_15:80263082-80263130:-|nuORF ENST00000335661.6_1_15:80263082-80263130:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 413.2499694824219 3 413.248737 1236.72438 2.6912 0.0011122 0.10936 4.5191E-05 2.8006 0.0011573 413.5830830653824 44.641 0.25807 44.641 44.609 44.868 0 27 14 2 0 0 0 0.94779 1 20426 20426 4.897 2.2658 1 1171000 37678 7024 23905 23981 42312 42312 0.1154880524170494 WIPIRRFHI 9 Unmodified _WIPIRRFHI_ 0 0 0 ENST00000335661.6_1_15:80263082-80263130:-|nuORF ENST00000335661.6_1_15:80263082-80263130:-|nuORF ENST00000335661.6_1_15:80263082-80263130:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 413.2497253417969 3 413.248737 1236.72438 2.6576 0.0010982 0.22673 9.3695E-05 2.8843 0.0011919 413.24886255213204 45.264 0.29383 45.264 45.052 45.346 0 27 16 2 0 0 0 1.0755 1 20705 20705 2.7352 0.82882 1 720690 37679 7024 23905 23981 42313 42313 0.1154880524170494 WIPIRRFHI 9 Unmodified _WIPIRRFHI_ 0 0 0 ENST00000335661.6_1_15:80263082-80263130:-|nuORF ENST00000335661.6_1_15:80263082-80263130:-|nuORF ENST00000335661.6_1_15:80263082-80263130:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.25006103515625 3 413.248737 1236.72438 2.7415 0.0011329 0.1516 6.2648E-05 2.8931 0.0011956 413.2487533175592 44.293 0.34539 44.562 44.487 44.832 0.2694 32 13 3 0 0 0 1.0755 1 20252 20252 2.7352 0.82882 1 1056600 37680 7024 23905 23981 42314 42314 0.1154880524170494 WIPIRRFHI 9 Unmodified _WIPIRRFHI_ 0 0 0 ENST00000335661.6_1_15:80263082-80263130:-|nuORF ENST00000335661.6_1_15:80263082-80263130:-|nuORF ENST00000335661.6_1_15:80263082-80263130:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.58489990234375 3 413.248737 1236.72438 2.8014 0.0011577 -0.32074 -0.00013254 2.4807 0.0010251 413.2485386083603 44.939 0.28592 45.206 45.068 45.353 0.26768 30 14 3 0 0 0 1.0755 1 20580 20580 2.7352 0.64919 1 1002400 37681 7024 23905 23981 42315 42315 0.1154880524170494 WIPIRRFHI 9 Unmodified _WIPIRRFHI_ 0 0 0 ENST00000335661.6_1_15:80263082-80263130:-|nuORF ENST00000335661.6_1_15:80263082-80263130:-|nuORF ENST00000335661.6_1_15:80263082-80263130:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 413.5849609375 3 413.248737 1236.72438 3.1273 0.0012924 -0.15714 -6.4939E-05 2.9702 0.0012274 413.2487132921213 44.235 0.39986 44.885 44.662 45.062 0.64998 32 19 2 0 0 0 1.0755 1 20213 20213 2.7352 0.99292 1 784290 37682 7024 23905 23981 42316 42316 0.1154880524170494 WITINYLLGKF 11 Unmodified _WITINYLLGKF_ 0 0 0 ENST00000490659.5_1_10:97583001-97604470:+|nuORF;ENST00000371206.6_1_10:97583001-97605437:+|nuORF;nc|ENSG00000138185|P49961-3|ENTPD1;nc|ENSG00000138185|P49961-4|ENTPD1;nc|ENSG00000138185|P49961-5|ENTPD1;ENSG00000138185|ENST00000371205|ENTPD1;nc|ENSG00000138185|P49961-2|ENTPD1;nc|ENSG00000138185|P49961-6|ENTPD1 ENST00000490659.5_1_10:97583001-97604470:+|nuORF ENST00000490659.5_1_10:97583001-97604470:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.5961608886719 3 456.595579 1366.76491 2.5749 0.0011757 0.085782 3.9167E-05 2.6606 0.0012148 456.9299070834617 34.268 0.27022 35.057 34.911 35.181 0.78921 33 14 3 0 0 0 0.83518 1 15546 15546 2.4348 0.35082 1 682510 37683 3081 23906 23982 42317 42317 0.09619682050765732 WITINYLLGKF 11 Unmodified _WITINYLLGKF_ 0 0 0 ENST00000490659.5_1_10:97583001-97604470:+|nuORF;ENST00000371206.6_1_10:97583001-97605437:+|nuORF;nc|ENSG00000138185|P49961-3|ENTPD1;nc|ENSG00000138185|P49961-4|ENTPD1;nc|ENSG00000138185|P49961-5|ENTPD1;ENSG00000138185|ENST00000371205|ENTPD1;nc|ENSG00000138185|P49961-2|ENTPD1;nc|ENSG00000138185|P49961-6|ENTPD1 ENST00000490659.5_1_10:97583001-97604470:+|nuORF ENST00000490659.5_1_10:97583001-97604470:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.9321594238281 3 456.595579 1366.76491 2.9315 0.0013385 -0.17711 -8.087E-05 2.7544 0.0012576 456.5954653243742 34.61 0.25893 35.233 35.051 35.31 0.62294 20 10 3 0 0 0 0.82535 1 15882 15882 2.6312 0.72486 1 790170 37684 3081 23906 23982 42318 42318 0.09619682050765732 WIVVIYILTV 10 Unmodified _WIVVIYILTV_ 0 0 0 ENST00000487558.1_1_2:225360464-225362517:-|nuORF ENST00000487558.1_1_2:225360464-225362517:-|nuORF ENST00000487558.1_1_2:225360464-225362517:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 609.87646484375 2 609.878468 1217.74238 NaN NaN NaN NaN NaN NaN NaN 84.116 1 84.145 83.645 84.645 0.028603 0 0 0 0.99733 1 41889 41889 3.9444 0.3479 1 37685 8353 23907 23983 42319 42319 0.142220826531684 WIVWPPKRKDV 11 Unmodified _WIVWPPKRKDV_ 0 0 0 REV__nc|ENSG00000168356|Q9UI33-2|SCN11A REV__nc|ENSG00000168356|Q9UI33-2|SCN11A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 475.6142883300781 3 475.278473 1422.81359 2.9589 0.0014063 -0.031467 -1.4955E-05 2.9274 0.0013913 475.6128185910362 61.648 0.57549 62.308 61.8 62.376 0.66008 73 42 2 0 0 0 0.89544 1 28238 28238 2.6312 1.039 1 21955000 + 37686 13345 23908 23984 42320 42320 0.11909595410543261 WIWKILYWLSK 11 Unmodified _WIWKILYWLSK_ 0 0 0 REV__ENST00000426868.6_1_13:38213370-38229407:-|nuORF REV__ENST00000426868.6_1_13:38213370-38229407:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 768.44384765625 2 768.442298 1534.87004 NaN NaN NaN NaN NaN NaN NaN 77.004 1 77.628 77.128 78.128 0.62397 0 0 0 1.008 1 37336 37336 0.30703 0 1 + 37687 11922 23909 23985 42321 42321 0.12400223247232134 WIYKKYPNMFK 11 Unmodified _WIYKKYPNMFK_ 0 0 0 ENST00000492628.1_1_7:129040195-129045055:+|nuORF;nc|ENSG00000158467|Q96HN2-4|AHCYL2;nc|ENSG00000158467|Q96HN2-3|AHCYL2;nc|ENSG00000158467|Q96HN2-2|AHCYL2;ENSG00000158467|ENST00000325006|AHCYL2 ENST00000492628.1_1_7:129040195-129045055:+|nuORF ENST00000492628.1_1_7:129040195-129045055:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 759.4039916992188 2 759.402315 1516.79008 NaN NaN NaN NaN NaN NaN NaN 32.611 1 32.611 32.111 33.111 0 0 0 0 1.008 1 14768 14768 0.30703 0 1 37688 3988 23910 23986 42322 42322 0.05235413581681314 WKAGRKHG 8 Unmodified _WKAGRKHG_ 0 0 0 nc|ENSG00000116151|Q5T089-2|MORN1;ENSG00000116151|ENST00000378531|MORN1 nc|ENSG00000116151|Q5T089-2|MORN1 nc|ENSG00000116151|Q5T089-2|MORN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.2679748535156 2 470.26721 938.519868 2.6653 0.0012534 -0.63885 -0.00030043 2.0265 0.00095298 470.26691375705263 16.731 0.8725 17.035 16.587 17.459 0.30438 129 82 3 0 0 0 0.7471 1 7385 7385 0 0 1 216880 37689 2016 23911 23987 42323 42323 0.048148661511731916 WKAVVRLG 8 Unmodified _WKAVVRLG_ 0 0 0 REV__ENST00000411772.5_2_15:43699583-43738985:-|nuORF REV__ENST00000411772.5_2_15:43699583-43738985:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 310.19677734375 3 310.19575 927.565421 2.3342 0.00072407 0.49769 0.00015438 2.8319 0.00087845 310.1961742734525 25.789 0.76112 26.057 25.549 26.31 0.26777 250 74 5 0 0 0 0.7471 3 11559 11559;11603;11788 0.40072 0 1 3245700 + 37690 10453 23912 23988 42324;42325;42326 42324 0.09874091613562541 WKAVVRLG 8 Unmodified _WKAVVRLG_ 0 0 0 REV__ENST00000411772.5_2_15:43699583-43738985:-|nuORF REV__ENST00000411772.5_2_15:43699583-43738985:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 310.1966247558594 3 310.19575 927.565421 NaN NaN NaN NaN NaN NaN NaN 26.059 1 26.327 25.827 26.827 0.26777 0 0 0 0.99035 1 11837 11837 1.4819 0 1 + 37691 10453 23912 23988 42327 42327 0.09874091613562541 WKGINCHIN 9 Unmodified _WKGINCHIN_ 0 0 0 ENSG00000184916|ENST00000331782|JAG2 ENSG00000184916|ENST00000331782|JAG2 ENSG00000184916|ENST00000331782|JAG2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.7720336914062 2 542.771468 1083.52838 4.1037 0.0022274 -1.2065 -0.00065484 2.8973 0.0015725 542.770547602982 95.678 0.31057 95.945 95.786 96.097 0.2675 32 16 2 0 0 0 1.0041 1 43937 43937 3.9444 1.8846 1 899440 37692 5467 23913 23989 42328 42328 -0.010039479945135099 WKGINCHIN 9 Unmodified _WKGINCHIN_ 0 0 0 ENSG00000184916|ENST00000331782|JAG2 ENSG00000184916|ENST00000331782|JAG2 ENSG00000184916|ENST00000331782|JAG2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 542.771468 1083.52838 3.6404 0.0019759 -1.5061 -0.00081747 2.1343 0.0011585 542.770157200119 95.187 0.35301 95.804 95.591 95.944 0.61736 -0.070312 -0.00013138 NaN 3.9444 39 17 3 NaN NaN NaN NaN 0 NaN NaN 0 723900 37693 5467 23913 23989 -0.010039479945135099 WKGLAHFL 8 Unmodified _WKGLAHFL_ 0 0 0 REV__nc|ENSG00000089041|Q99572-7|P2RX7 REV__nc|ENSG00000089041|Q99572-7|P2RX7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 324.8662109375 3 324.520234 970.538872 2.0162 0.00065428 -0.77054 -0.00025005 1.2456 0.00040423 324.5197390949093 51.94 0.25729 52.602 52.52 52.778 0.66198 16 13 2 0 0 0 0.74071 1 23791 23791 1.6526 0.17072 1 160980 + 37694 17199 23914 23990 42329 42329 0.052424027222286895 WKGLLPRWVGK 11 Unmodified _WKGLLPRWVGK_ 0 0 0 REV__ENST00000462302.5_1_X:100871678-100872515:-|nuORF REV__ENST00000462302.5_1_X:100871678-100872515:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 335.7063903808594 4 335.705392 1338.79246 2.4522 0.00082321 0.76894 0.00025814 3.2211 0.0010813 335.70561477470284 44.015 0.42107 44.663 44.491 44.912 0.64872 34 22 2 0 0 0 0.91104 1 20177 20177 1.2148 0.10508 1 1442300 + 37695 16504 23915 23991 42330 42330 0.13661630101660194 WKHEWLERRNR 11 Unmodified _WKHEWLERRNR_ 0 0 0 ENSG00000095015|ENST00000399503|MAP3K1 ENSG00000095015|ENST00000399503|MAP3K1 ENSG00000095015|ENST00000399503|MAP3K1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 537.28857421875 3 537.286802 1608.83858 3.873 0.0020809 -0.80189 -0.00043085 3.0711 0.0016501 537.2863566519709 106.21 0.1226 106.53 106.46 106.58 0.31628 9 3 3 0 0 0 0.91489 1 49033 49033 0 0 1 782410 37696 1114 23916 23992 42331 42331 0.05851043265806766 WKHEWLERRNR 11 Unmodified _WKHEWLERRNR_ 0 0 0 ENSG00000095015|ENST00000399503|MAP3K1 ENSG00000095015|ENST00000399503|MAP3K1 ENSG00000095015|ENST00000399503|MAP3K1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 537.286802 1608.83858 2.7422 0.0014733 -0.51315 -0.00027571 2.229 0.0011976 537.2871860690426 106.15 0.087036 106.15 106.1 106.19 0 -0.18457 -0.00040053 NaN 0 8 3 3 NaN NaN NaN NaN 0 NaN NaN 0 724770 37697 1114 23916 23992 0.05851043265806766 WKHEWLERRNR 11 Unmodified _WKHEWLERRNR_ 0 0 0 ENSG00000095015|ENST00000399503|MAP3K1 ENSG00000095015|ENST00000399503|MAP3K1 ENSG00000095015|ENST00000399503|MAP3K1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 537.286802 1608.83858 1.8278 0.00098205 0.72874 0.00039154 2.5565 0.0013736 537.2872365896723 106.28 0.14812 106.33 106.25 106.4 0.04837 -0.0073856 0.0016012 NaN 0 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 1032700 37698 1114 23916 23992 0.05851043265806766 WKIARLNG 8 Unmodified _WKIARLNG_ 0 0 0 REV__ENST00000475577.5_1_6:10527835-10626837:+|nuORF REV__ENST00000475577.5_1_6:10527835-10626837:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 320.2230529785156 3 319.859138 956.555585 2.0739 0.00066336 2.4866 0.00079536 4.5605 0.0014587 319.8597896561353 54.623 0.20963 54.889 54.701 54.911 0.26543 10 8 2 0 0 0 0.14313 1 24924 24924 1.6526 0 1 371750 + 37699 16643 23917 23993 42332 42332 0.07556903608190169 WKIARLNG 8 Unmodified _WKIARLNG_ 0 0 0 REV__ENST00000475577.5_1_6:10527835-10626837:+|nuORF REV__ENST00000475577.5_1_6:10527835-10626837:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 319.859138 956.555585 2.0144 0.00064433 2.3574 0.00075405 4.3719 0.0013984 319.8597264161647 53.878 0.41764 54.674 54.477 54.894 0.79552 -0.10763 -3.9888E-05 NaN 1.6526 31 19 2 NaN NaN NaN NaN 0 NaN NaN 0 287010 + 37700 16643 23917 23993 0.07556903608190169 WKILEKVIDI 10 Unmodified _WKILEKVIDI_ 0 0 0 REV__ENSG00000169018|ENST00000306917|FEM1B REV__ENSG00000169018|ENST00000306917|FEM1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 419.5937194824219 3 419.591946 1255.75401 3.2105 0.0013471 1.1523 0.0004835 4.3628 0.0018306 419.59238879670653 88.408 0.64121 88.659 88.39 89.031 0.25093 78 29 3 0 0 0 0.91298 1 40666 40666 3.0723 0.44103 1 1842000 + 37701 13376 23918 23994 42333 42333 0.1363627967652974 WKILKRLYVLQ 11 Unmodified _WKILKRLYVLQ_ 0 0 0 REV__ENST00000378809.8_1_12:70178515-70188235:+|nuORF REV__ENST00000378809.8_1_12:70178515-70188235:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 730.9136962890625 2 730.461022 1458.90749 NaN NaN NaN NaN NaN NaN NaN 33.157 1 33.777 33.277 34.277 0.62031 0 0 0 1.0082 1 15197 15197 0 0 1 + 37702 15855 23919 23995 42334 42334 0.19639314512824058 WKKEASKVRQ 10 Unmodified _WKKEASKVRQ_ 0 0 0 ENSG00000139926|ENST00000344768|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 ENSG00000139926|ENST00000344768|FRMD6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 630.3674926757812 2 630.364579 1258.7146 NaN NaN NaN NaN NaN NaN NaN 33.793 1 34.047 33.547 34.547 0.25389 0 0 0 0.99572 1 15388 15388 5.2969 1.7004 1 37703 3172 23920 23996 42335 42335 0.09559572445664344 WKKKKKKKKNP 11 Unmodified _WKKKKKKKKNP_ 0 0 0 ENST00000433510.2_1_17:46713876-46724046:-|nuORF ENST00000433510.2_1_17:46713876-46724046:-|nuORF ENST00000433510.2_1_17:46713876-46724046:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.4236145019531 3 480.989034 1439.94527 NaN NaN NaN NaN NaN NaN NaN 17.414 1 17.716 17.216 18.216 0.30158 0 0 0 1.0082 1 7887 7887 0.094841 0.094841 1 37704 7873 23921 23997 42336 42336 0.2428982549831744 WKKKRKLEKRI 11 Unmodified _WKKKRKLEKRI_ 0 0 0 REV__nc|ENSG00000291135|Q92637-3|FCGR1BP REV__nc|ENSG00000291135|Q92637-3|FCGR1BP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 756.9977416992188 2 756.996094 1511.97764 NaN NaN NaN NaN NaN NaN NaN 103.77 1 103.77 103.27 104.27 0 0 0 0 1.0082 1 57162 57162 0 0 1 + 37705 12587 23922 23998 42337 42337 0.24212612901305874 WKKLLLARR 9 Unmodified _WKKLLLARR_ 0 0 0 REV__ENSG00000185608|ENST00000333130|MRPL40 REV__ENSG00000185608|ENST00000333130|MRPL40 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 395.25238037109375 3 395.264387 1182.77133 NaN NaN NaN NaN NaN NaN NaN 103.01 1 103.01 102.51 103.51 0 0 0 0 0.91238 1 56814 56814 0.23584 0 1 + 37706 14022 23923 23999 42338 42338 0.18725664792827956 WKKRRKKKKKK 11 Unmodified _WKKRRKKKKKK_ 0 0 0 REV__ENST00000439685.6_1_3:112358751-112359896:-|nuORF REV__ENST00000439685.6_1_3:112358751-112359896:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 771.53076171875 2 771.533178 1541.0518 NaN NaN NaN NaN NaN NaN NaN 88.628 1 89.306 88.806 89.806 0.67818 0 0 0 1.0082 1 40815 40815 0 0 1 37707 16333 23924 24000 42339 42339 0.3029200078344729 WKKRRRRKRRK 11 Unmodified _WKKRRRRKRRK_ 0 0 0 FBXO3|p.M415Wfs*73|1|0.18|ENSG00000110429|chr11:33742081-33742081|T/-|frameshift_variant FBXO3|p.M415Wfs*73|1|0.18|ENSG00000110429|chr11:33742081-33742081|T/-|frameshift_variant FBXO3|p.M415Wfs*73|1|0.18|ENSG00000110429|chr11:33742081-33742081|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 827.5444946289062 2 827.545474 1653.0764 NaN NaN NaN NaN NaN NaN NaN 79.416 1 79.416 78.916 79.916 0 0 0 0 1.0082 1 39232 39232 0 0 1 37708 9359 23925 24001 42340 42340 0.275980737095324 WKKRWLYWKNR 11 Unmodified _WKKRWLYWKNR_ 0 0 0 OPA1|p.R842Ifs*2|1|0.3|ENSG00000198836|chr3:193664903-193664904|-/TATA|frameshift_variant;nc|ENSG00000198836|O60313-13|OPA1;nc|ENSG00000198836|O60313|OPA1;nc|ENSG00000198836|O60313-9|OPA1;nc|ENSG00000198836|O60313-11|OPA1;nc|ENSG00000198836|O60313-2|OPA1;ENSG00000198836|ENST00000361510|OPA1 OPA1|p.R842Ifs*2|1|0.3|ENSG00000198836|chr3:193664903-193664904|-/TATA|frameshift_variant OPA1|p.R842Ifs*2|1|0.3|ENSG00000198836|chr3:193664903-193664904|-/TATA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 832.4746704101562 2 832.470244 1662.92593 NaN NaN NaN NaN NaN NaN NaN 91.38 1 91.455 90.955 91.955 0.075279 0 0 0 1.0082 1 47343 47343 0 0 1 37709 5945 23926 24002 42341 42341 0.12098869207397911 WKKWKKLF 8 Unmodified _WKKWKKLF_ 0 0 0 ENST00000261245.8_1_14:61264848-61275054:+|nuORF ENST00000261245.8_1_14:61264848-61275054:+|nuORF ENST00000261245.8_1_14:61264848-61275054:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.358154296875 2 582.358037 1162.70152 NaN NaN NaN NaN NaN NaN NaN 10.407 1 10.714 10.214 11.214 0.307 0 0 0 0.99035 1 4714 4714 0 0 1 37710 6554 23927 24003 42342 42342 0.1266778612421149 WKKYLKRLNRD 11 Unmodified _WKKYLKRLNRD_ 0 0 0 ENST00000260731.4_1_10:94405253-94405319:+|nuORF ENST00000260731.4_1_10:94405253-94405319:+|nuORF ENST00000260731.4_1_10:94405253-94405319:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 760.4434814453125 2 760.446434 1518.87832 NaN NaN NaN NaN NaN NaN NaN 69.232 1 69.232 68.732 69.732 0 0 0 0 1.0073 1 33404 33404 1.1933 0.12188 1 37711 6549 23928 24004 42343 42343 0.13963170216561593 WKKYYQRRFKL 11 Unmodified _WKKYYQRRFKL_ 0 0 0 REV__ENSG00000185875|ENST00000376356|THNSL1 REV__ENSG00000185875|ENST00000376356|THNSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 808.537353515625 2 808.464627 1614.9147 NaN NaN NaN NaN NaN NaN NaN 85.886 1 85.886 85.386 86.386 0 0 0 0 1.0082 1 43862 43862 0 0 1 + 37712 14033 23929 24005 42344 42344 0.13184047113236375 WKKYYQRRFKL 11 Unmodified _WKKYYQRRFKL_ 0 0 0 REV__ENSG00000185875|ENST00000376356|THNSL1 REV__ENSG00000185875|ENST00000376356|THNSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 808.4649047851562 2 808.464627 1614.9147 NaN NaN NaN NaN NaN NaN NaN 91.677 1 91.76 91.26 92.26 0.082848 0 0 0 1.008 1 47572 47572 0.30703 0.30703 1 + 37713 14033 23929 24005 42345 42345 0.13184047113236375 WKKYYQRRFKL 11 Unmodified _WKKYYQRRFKL_ 0 0 0 REV__ENSG00000185875|ENST00000376356|THNSL1 REV__ENSG00000185875|ENST00000376356|THNSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 808.4653930664062 2 808.464627 1614.9147 NaN NaN NaN NaN NaN NaN NaN 93.512 1 93.599 93.099 94.099 0.086212 0 0 0 1.0082 1 49005 49005 0 0 1 + 37714 14033 23929 24005 42346 42346 0.13184047113236375 WKLAAGRA 8 Unmodified _WKLAAGRA_ 0 0 0 REV__ENSG00000179044|ENST00000314586|EXOC3L1 REV__ENSG00000179044|ENST00000314586|EXOC3L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 436.7607421875 2 436.758687 871.502821 3.1323 0.0013681 0.95039 0.00041509 4.0827 0.0017832 436.75900610622637 69.044 0.20556 69.299 69.176 69.381 0.25443 21 13 2 0 0 0 0.74071 2 31607 31607;31654 2.5775 1.7838 1 430230 + 37715 13780 23930 24006 42347;42348 42347 0.06192945545365092 WKLAAGRA 8 Unmodified _WKLAAGRA_ 0 0 0 REV__ENSG00000179044|ENST00000314586|EXOC3L1 REV__ENSG00000179044|ENST00000314586|EXOC3L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 436.7604064941406 2 436.758687 871.502821 2.9075 0.0012699 0.62494 0.00027295 3.5324 0.0015428 436.75885427265047 68.47 0.22087 69.129 68.995 69.216 0.65924 20 13 2 0 0 0 0.7441 1 31365 31365 2.3027 0.24298 1 424160 + 37716 13780 23930 24006 42349 42349 0.06192945545365092 WKLLKAHLL 9 Unmodified _WKLLKAHLL_ 0 0 0 REV__nc|ENSG00000150760|Q14185|DOCK1 REV__nc|ENSG00000150760|Q14185|DOCK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.5789489746094 3 374.577972 1120.71209 2.7485 0.0010295 1.0702 0.00040086 3.8186 0.0014304 374.5782364243182 43.526 0.36343 43.526 43.444 43.808 0 95 41 3 0 0 0 0.98132 3 19816 19816;19863;19910 2.4985 0 1 11389000 + 37717 12594 23931 24007 42350;42351;42352 42350 0.15655768778628953 WKLLKAHLL 9 Unmodified _WKLLKAHLL_ 0 0 0 REV__nc|ENSG00000150760|Q14185|DOCK1 REV__nc|ENSG00000150760|Q14185|DOCK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.5798034667969 3 374.577972 1120.71209 2.3255 0.00087109 0.63718 0.00023867 2.9627 0.0011098 374.5781927551378 42.323 0.18517 43.132 43.057 43.242 0.80855 45 36 2 0 0 0 0.98132 1 19264 19264 2.4985 0 1 18538000 + 37718 12594 23931 24007 42353 42353 0.15655768778628953 WKLLKAHLL 9 Unmodified _WKLLKAHLL_ 0 0 0 REV__nc|ENSG00000150760|Q14185|DOCK1 REV__nc|ENSG00000150760|Q14185|DOCK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.5794372558594 3 374.577972 1120.71209 2.8293 0.0010598 0.7255 0.00027175 3.5548 0.0013316 374.5782600710536 41.643 0.36231 42.287 42.1 42.463 0.64451 69 42 2 0 0 0 1.129 1 19131 19131 0.96228 0 1 23018000 + 37719 12594 23931 24007 42354 42354 0.15655768778628953 WKLLKAHLL 9 Unmodified _WKLLKAHLL_ 0 0 0 REV__nc|ENSG00000150760|Q14185|DOCK1 REV__nc|ENSG00000150760|Q14185|DOCK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.5792236328125 3 374.577972 1120.71209 2.8237 0.0010577 1.0183 0.00038145 3.842 0.0014391 374.578233133109 42.27 0.44147 42.917 42.773 43.214 0.64693 103 40 3 0 0 0 0.80651 4 19363 19320;19363;19414;19468 4.5289 2.0304 1 9942500 + 37720 12594 23931 24007 42355;42356;42357;42358 42356 0.15655768778628953 WKLLKAHLL 9 Unmodified _WKLLKAHLL_ 0 0 0 REV__nc|ENSG00000150760|Q14185|DOCK1 REV__nc|ENSG00000150760|Q14185|DOCK1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 374.577972 1120.71209 2.7485 0.0010295 1.0702 0.00040086 3.8186 0.0014304 374.5782364243182 43.526 0.36343 43.526 43.444 43.808 0 0.34614 5.6141E-05 NaN 4.5289 95 41 3 NaN NaN NaN NaN 0 NaN NaN 0 11389000 + 37721 12594 23931 24007 0.15655768778628953 WKLLKAHLL 9 Unmodified _WKLLKAHLL_ 0 0 0 REV__nc|ENSG00000150760|Q14185|DOCK1 REV__nc|ENSG00000150760|Q14185|DOCK1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 374.577972 1120.71209 2.7639 0.0010353 1.225 0.00045887 3.989 0.0014942 374.5783243427335 42.875 0.28287 43.145 43.105 43.388 0.27021 -0.034584 0.00023018 NaN 4.5289 95 33 4 NaN NaN NaN NaN 0 NaN NaN 0 51109000 + 37722 12594 23931 24007 0.15655768778628953 WKLLKAHLL 9 Unmodified _WKLLKAHLL_ 0 0 0 REV__nc|ENSG00000150760|Q14185|DOCK1 REV__nc|ENSG00000150760|Q14185|DOCK1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 374.577972 1120.71209 2.8237 0.0010577 1.0183 0.00038145 3.842 0.0014391 374.578233133109 42.27 0.44147 42.917 42.773 43.214 0.64693 -0.26316 -2.1031E-06 NaN 4.5289 103 40 3 NaN NaN NaN NaN 0 NaN NaN 0 9942500 + 37723 12594 23931 24007 0.15655768778628953 WKLLKHFL 8 Unmodified _WKLLKHFL_ 0 0 0 ENST00000492742.5_1_21:44269737-44269935:-|nuORF ENST00000492742.5_1_21:44269737-44269935:-|nuORF ENST00000492742.5_1_21:44269737-44269935:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 362.2288818359375 3 362.22705 1083.65932 NaN NaN NaN NaN NaN NaN NaN 71.168 1 71.426 70.926 71.926 0.25786 0 0 0 0.99035 1 32599 32599 1.6526 0 1 37724 8408 23932 24008 42359 42359 0.12083810715830623 WKLLRFFRRRA 11 Unmodified _WKLLRFFRRRA_ 0 0 0 ENST00000497791.5_1_3:124456468-124456537:+|nuORF ENST00000497791.5_1_3:124456468-124456537:+|nuORF ENST00000497791.5_1_3:124456468-124456537:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 388.2422180175781 4 387.990115 1547.93135 2.3194 0.00089991 1.1557 0.00044839 3.4751 0.0013483 388.49179107166333 53.57 0.1054 54.374 54.312 54.417 0.8035 21 9 3 0 0 0 0.91465 1 24434 24434 0.073264 0.073264 1 4713700 37725 8456 23933 24009 42360 42360 0.17930592789844013 WKLLRFFRRRA 11 Unmodified _WKLLRFFRRRA_ 0 0 0 ENST00000497791.5_1_3:124456468-124456537:+|nuORF ENST00000497791.5_1_3:124456468-124456537:+|nuORF ENST00000497791.5_1_3:124456468-124456537:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 388.24273681640625 4 387.990115 1547.93135 2.6243 0.0010182 2.3756 0.00092171 4.9999 0.0019399 387.9908232016148 62.73 0.31907 63.388 63.208 63.527 0.65808 31 20 2 0 0 0 0.91345 2 28746 28746;28759 0.45452 0.046251 1 795310 37726 8456 23933 24009 42361;42362 42361 0.17930592789844013 WKLTFLRKKK 10 Unmodified _WKLTFLRKKK_ 0 0 0 ENSG00000167183|ENST00000300557|PRR15L ENSG00000167183|ENST00000300557|PRR15L ENSG00000167183|ENST00000300557|PRR15L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 673.9851684570312 2 674.434807 1346.85506 NaN NaN NaN NaN NaN NaN NaN 103.69 1 104.01 103.51 104.51 0.31863 0 0 0 1.002 1 47934 47934 0 0 1 37727 4535 23934 24010 42363 42363 0.19550776169853634 WKMLLYEKC 9 Unmodified _WKMLLYEKC_ 0 0 0 REV__ENSG00000104321|ENST00000262209|TRPA1 REV__ENSG00000104321|ENST00000262209|TRPA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 607.3108520507812 2 607.309038 1212.60352 4.4358 0.0026939 -1.2039 -0.00073116 3.2319 0.0019628 607.308447567776 103.06 0.13631 103.38 103.29 103.42 0.31863 12 4 4 0 0 0 1.2126 1 47648 47648 0.52476 0 1 1036300 + 37728 10988 23935 24011 42364 42364 0.005724734216983052 WKMLLYEKC 9 Unmodified _WKMLLYEKC_ 0 0 0 REV__ENSG00000104321|ENST00000262209|TRPA1 REV__ENSG00000104321|ENST00000262209|TRPA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 607.3112182617188 2 607.309038 1212.60352 3.9128 0.0023763 -0.61845 -0.00037559 3.2943 0.0020007 607.3085774757806 102.98 0.15319 103.58 103.5 103.65 0.59821 10 4 3 0 0 0 1.2126 1 47671 47671 0.52476 0 1 735970 + 37729 10988 23935 24011 42365 42365 0.005724734216983052 WKMLLYEKC 9 Unmodified _WKMLLYEKC_ 0 0 0 REV__ENSG00000104321|ENST00000262209|TRPA1 REV__ENSG00000104321|ENST00000262209|TRPA1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 607.309038 1212.60352 4.4358 0.0026939 -1.2039 -0.00073116 3.2319 0.0019628 607.308447567776 103.06 0.13631 103.38 103.29 103.42 0.31863 -0.10298 -0.00031706 NaN 0.52476 12 4 4 NaN NaN NaN NaN 0 NaN NaN 0 1036300 + 37730 10988 23935 24011 0.005724734216983052 WKNWIKWYFKY 11 Unmodified _WKNWIKWYFKY_ 0 0 0 REV__NOC3L|p.L309Wfs*16|1|0.31|ENSG00000173145|chr10:94352336-94352336|A/-|frameshift_variant REV__NOC3L|p.L309Wfs*16|1|0.31|ENSG00000173145|chr10:94352336-94352336|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.3750610351562 3 554.625761 1660.85546 NaN NaN NaN NaN NaN NaN NaN 79.188 1 79.653 79.153 80.153 0.4642 0 0 0 1.0082 1 38661 38661 0.094841 0.094841 1 + 37731 18189 23936 24012 42366 42366 0.05146151099074814 WKPILLLI 8 Unmodified _WKPILLLI_ 0 0 0 REV__nc|ENSG00000162594|Q5VWK5-5|IL23R REV__nc|ENSG00000162594|Q5VWK5-5|IL23R MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.3389892578125 2 498.336239 994.657924 NaN NaN NaN NaN NaN NaN NaN 82.415 1 82.662 82.162 83.162 0.24722 0 0 0 0.99035 1 37937 37937 0 0 1 + 37732 18001 23937 24013 42367 42367 0.16038176627102985 WKPLVPIDKR 10 Unmodified _WKPLVPIDKR_ 0 0 0 REV__ENSG00000172551|ENST00000308796|MUCL1 REV__ENSG00000172551|ENST00000308796|MUCL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 418.2591857910156 3 417.923919 1250.74993 1.443 0.00060308 -2.0067 -0.00083865 -0.56366 -0.00023557 418.2577050163004 103.76 0.21239 103.81 103.65 103.86 0.052994 18 12 2 0 0 0 0.12676 1 56241 56241 0.12286 0.028024 1 218340 + 37733 13554 23938 24014 42368 42368 0.13458234973427352 WKPLVPIDKR 10 Unmodified _WKPLVPIDKR_ 0 0 0 REV__ENSG00000172551|ENST00000308796|MUCL1 REV__ENSG00000172551|ENST00000308796|MUCL1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 417.923919 1250.74993 2.4266 0.0010141 -3.3414 -0.0013964 -0.91475 -0.00038229 418.2571867214695 103.72 0.053406 103.72 103.7 103.76 0 -0.15879 -0.00065775 NaN 0.12286 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 166460 + 37734 13554 23938 24014 0.13458234973427352 WKPLVPIDKR 10 Unmodified _WKPLVPIDKR_ 0 0 0 REV__ENSG00000172551|ENST00000308796|MUCL1 REV__ENSG00000172551|ENST00000308796|MUCL1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 417.923919 1250.74993 3.2057 0.0013398 -3.2514 -0.0013588 -0.045672 -1.9087E-05 417.9221822566067 103.52 0.11164 104.11 104.11 104.22 0.59821 0.23043 -0.00054497 NaN 0.12286 23 16 2 NaN NaN NaN NaN 0 NaN NaN 0 349170 + 37735 13554 23938 24014 0.13458234973427352 WKQKRRRE 8 Unmodified _WKQKRRRE_ 0 0 0 REV__ENSG00000254093|ENST00000314787|PINX1;REV__nc|ENSG00000171056|Q9BT81-2|SOX7 REV__nc|ENSG00000171056|Q9BT81-2|SOX7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 593.8529663085938 2 593.84943 1185.68431 NaN NaN NaN NaN NaN NaN NaN 11.227 1 11.227 10.727 11.727 0 0 0 0 0.99035 1 4910 4910 0.69038 0.16561 1 + 37736 14665;18044 23939 24015 42369 42369 0.09889258571138271 WKQWRTEKYRL 11 Unmodified _WKQWRTEKYRL_ 0 0 0 REV__ENST00000526878.5_1_11:460175-490579:+|nuORF REV__ENST00000526878.5_1_11:460175-490579:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.9590454101562 3 531.959803 1592.85758 NaN NaN NaN NaN NaN NaN NaN 77.21 1 77.466 76.966 77.966 0.25533 0 0 0 1.0082 1 35557 35557 0.094841 0 1 + 37737 13649 23940 24016 42370 42370 0.08486579836903729 WKRITHRFYMK 11 Unmodified _WKRITHRFYMK_ 0 0 0 REV__ENST00000511884.6_2_4:31144777-31144999:+|nuORF REV__ENST00000511884.6_2_4:31144777-31144999:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 783.43115234375 2 783.42973 1564.84491 NaN NaN NaN NaN NaN NaN NaN 67.689 1 67.941 67.441 68.441 0.25227 0 0 0 1.008 1 31007 31007 0.30703 0 1 + 37738 16978 23941 24017 42371 42371 0.08507845172971429 WKRLIKLKD 9 Unmodified _WKRLIKLKD_ 0 0 0 nc|ENSG00000196912|Q8N2N9-3|ANKRD36B;nc|ENSG00000196912|Q8N2N9-2|ANKRD36B;ENSG00000196912|ENST00000359901|ANKRD36B;ANKRD36|p.Y1630Sfs*5|1|0.17|ENSG00000135976|chr2:97245476-97245476|A/-|frameshift_variant;ENSG00000135976|ENST00000420699|ANKRD36;nc|ENSG00000135976|A6QL64-3|ANKRD36;ENST00000421946.2_1_2:97879127-97913404:+|nuORF nc|ENSG00000196912|Q8N2N9-3|ANKRD36B nc|ENSG00000196912|Q8N2N9-3|ANKRD36B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 600.3841552734375 2 600.384783 1198.75501 NaN NaN NaN NaN NaN NaN NaN 34.783 1 35.037 34.537 35.537 0.25389 0 0 0 0.91265 1 15843 15843 0.45834 0 1 37739 5783 23942 24018 42372 42372 0.16358538836061598 WKRLQYEMPFK 11 Unmodified _WKRLQYEMPFK_ 0 0 0 ENSG00000169306|ENST00000378993|IL1RAPL1 ENSG00000169306|ENST00000378993|IL1RAPL1 ENSG00000169306|ENST00000378993|IL1RAPL1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.73651123046875 3 509.27099 1524.79114 3.4351 0.0017494 -0.29847 -0.000152 3.1366 0.0015974 509.6051690425712 18.959 0.19366 19.618 19.475 19.669 0.6583 25 15 2 0 0 0 0.13295 1 8582 8582 0.40827 0 1 741270 37740 4683 23943 24019 42373 42373 0.04973627950585069 WKRRKLKH 8 Unmodified _WKRRKLKH_ 0 0 0 ENST00000542123.5_1_12:12966350-12967071:+|nuORF ENST00000542123.5_1_12:12966350-12967071:+|nuORF ENST00000542123.5_1_12:12966350-12967071:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 576.3723754882812 2 576.367259 1150.71996 NaN NaN NaN NaN NaN NaN NaN 32.176 1 32.964 32.464 33.464 0.78795 0 0 0 0.99035 1 14549 14549 0.69038 0.23204 1 37741 8815 23944 24020 42374 42374 0.1506334081877867 WKRRKLKH 8 Unmodified _WKRRKLKH_ 0 0 0 ENST00000542123.5_1_12:12966350-12967071:+|nuORF ENST00000542123.5_1_12:12966350-12967071:+|nuORF ENST00000542123.5_1_12:12966350-12967071:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.3709106445312 2 576.367259 1150.71996 NaN NaN NaN NaN NaN NaN NaN 35.044 1 35.299 34.799 35.799 0.25524 0 0 0 0.99035 1 15969 15969 0.69038 0.16561 1 37742 8815 23944 24020 42375 42375 0.1506334081877867 WKRRKLKH 8 Unmodified _WKRRKLKH_ 0 0 0 ENST00000542123.5_1_12:12966350-12967071:+|nuORF ENST00000542123.5_1_12:12966350-12967071:+|nuORF ENST00000542123.5_1_12:12966350-12967071:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.370849609375 2 576.367259 1150.71996 NaN NaN NaN NaN NaN NaN NaN 38.307 1 38.571 38.071 39.071 0.26408 0 0 0 0.99035 1 17442 17442 0.69038 0.16561 1 37743 8815 23944 24020 42376 42376 0.1506334081877867 WKRRKMWKRLK 11 Unmodified _WKRRKMWKRLK_ 0 0 0 REV__ENST00000339594.8_1_7:72873876-72873927:-|nuORF REV__ENST00000339594.8_1_7:72873876-72873927:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 808.4945068359375 2 808.495739 1614.97692 NaN NaN NaN NaN NaN NaN NaN 103.12 1 103.44 102.94 103.94 0.31863 0 0 0 1.0082 1 47684 47684 0 0 1 + 37744 15450 23945 24021 42377 42377 0.1940349498058822 WKRRKMWKRLK 11 Unmodified _WKRRKMWKRLK_ 0 0 0 REV__ENST00000339594.8_1_7:72873876-72873927:-|nuORF REV__ENST00000339594.8_1_7:72873876-72873927:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 808.4991455078125 2 808.495739 1614.97692 NaN NaN NaN NaN NaN NaN NaN 83.193 1 83.853 83.353 84.353 0.66019 0 0 0 1.0082 1 38320 38320 0 0 1 + 37745 15450 23945 24021 42378 42378 0.1940349498058822 WKRRKMWKRLK 11 Unmodified _WKRRKMWKRLK_ 0 0 0 REV__ENST00000339594.8_1_7:72873876-72873927:-|nuORF REV__ENST00000339594.8_1_7:72873876-72873927:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 808.4940185546875 2 808.495739 1614.97692 NaN NaN NaN NaN NaN NaN NaN 86.322 1 86.993 86.493 87.493 0.67061 0 0 0 1.0082 1 39752 39752 0 0 1 + 37746 15450 23945 24021 42379 42379 0.1940349498058822 WKRRSKSK 8 Unmodified _WKRRSKSK_ 0 0 0 ENSG00000144026|ENST00000295208|ZNF514 ENSG00000144026|ENST00000295208|ZNF514 ENSG00000144026|ENST00000295208|ZNF514 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.3286743164062 2 538.327799 1074.64105 3.508 0.0018884 -0.86763 -0.00046707 2.6404 0.0014214 538.3272323033806 97.003 0.42202 97.605 97.358 97.78 0.6019 79 19 5 0 0 0 0.7471 1 44631 44631 0.69038 0 1 35189000 37747 3405 23946 24022 42380 42380 0.10671068793840277 WKRWCLAMLPK 11 Unmodified _WKRWCLAMLPK_ 0 0 0 ENST00000499522.6_1_8:104178449-104258641:-|nuORF ENST00000499522.6_1_8:104178449-104258641:-|nuORF ENST00000499522.6_1_8:104178449-104258641:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 716.6981201171875 2 716.391228 1430.7679 NaN NaN NaN NaN NaN NaN NaN 92.428 1 92.511 92.011 93.011 0.082848 0 0 0 1.0072 1 48164 48164 1.3295 0 1 37748 8470 23947 24023 42381 42381 0.06974910632288811 WKRWFKFRKRK 11 Unmodified _WKRWFKFRKRK_ 0 0 0 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 833.3721313476562 2 833.501878 1664.9892 3.3861 0.0028223 -0.63768 -0.00053151 2.7484 0.0022908 834.00215341628 99.021 0.066696 99.021 98.985 99.051 0 7 5 2 0 0 0 0.13295 1 54359 54359 0 0 1 11994000 37749 9726 23948 24024 42382 42382 0.18330854715259193 WKRWFKFRKRK 11 Unmodified _WKRWFKFRKRK_ 0 0 0 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 nc|ENSG00000164542|Q8NCT3|MATCAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 833.4998168945312 2 833.501878 1664.9892 NaN NaN NaN NaN NaN NaN NaN 85.948 1 86.197 85.697 86.697 0.24857 0 0 0 1.0082 1 39557 39557 0 0 1 37750 9726 23948 24024 42383 42383 0.18330854715259193 WKRYEERVK 9 Unmodified _WKRYEERVK_ 0 0 0 REV__nc|ENSG00000123146|P48960-2|ADGRE5 REV__nc|ENSG00000123146|P48960-2|ADGRE5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 647.358154296875 2 647.356754 1292.69895 NaN NaN NaN NaN NaN NaN NaN 104.26 1 104.32 103.82 104.82 0.052994 0 0 0 0.90777 1 56462 56462 1.6526 0.17072 1 + 37751 11605 23949 24025 42384 42384 0.064312859285792 WKSTHYESEN 10 Unmodified _WKSTHYESEN_ 0 0 0 ENST00000301744.5_1_16:3483254-3483488:-|nuORF ENST00000301744.5_1_16:3483254-3483488:-|nuORF ENST00000301744.5_1_16:3483254-3483488:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 427.5249328613281 3 427.52292 1279.54693 2.8495 0.0012182 0.6792 0.00029037 3.5287 0.0015086 427.5232246392853 29.583 0.16627 30.372 30.278 30.445 0.78921 19 15 2 0 0 0 0.85706 1 13342 13342 3.0723 0 1 3725300 37752 6805 23950 24026 42385 42385 -0.08166159609595525 WKTDRVPAV 9 Unmodified _WKTDRVPAV_ 0 0 0 REV__nc|ENSG00000139793|Q5VZF2-3|MBNL2 REV__nc|ENSG00000139793|Q5VZF2-3|MBNL2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.8711242675781 3 357.869703 1070.58728 2.511 0.0008986 0.8269 0.00029592 3.3379 0.0011945 357.8699717126149 62.47 0.33262 62.72 62.602 62.934 0.24965 92 70 2 0 0 0 0.80651 1 28630 28630 7.609 5.1105 1 23111000 + 37753 12221 23951 24027 42386 42386 0.054808515714512396 WKTPHSKVA 9 Unmodified _WKTPHSKVA_ 0 0 0 ENST00000392900.3_1_7:143551228-143582358:-|nuORF ENST00000392900.3_1_7:143551228-143582358:-|nuORF ENST00000392900.3_1_7:143551228-143582358:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.295654296875 2 527.295633 1052.57671 NaN NaN NaN NaN NaN NaN NaN 40.652 1 40.652 40.152 41.152 0 0 0 0 0.796 1 18455 18455 9.3831 0.035688 1 37754 7524 23952 24028 42387 42387 0.052528689170458165 WKWLKMLIAQP 11 Unmodified _WKWLKMLIAQP_ 0 0 0 ENST00000455833.6_2_1:19230994-19231414:-|nuORF ENST00000455833.6_2_1:19230994-19231414:-|nuORF ENST00000455833.6_2_1:19230994-19231414:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 707.3922729492188 2 707.407401 1412.80025 NaN NaN NaN NaN NaN NaN NaN 87.627 1 87.627 87.127 88.127 0 0 0 0 1.0073 1 45239 45239 1.1933 0 1 37755 8045 23953 24029 42388 42388 0.11036021306972543 WKWLRQKRWLL 11 Unmodified _WKWLRQKRWLL_ 0 0 0 REV__chr12:54283132-54283827|539|56.03|0.0|22.42|+|1|HNRNPA1,HNRNPA1|1 REV__chr12:54283132-54283827|539|56.03|0.0|22.42|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 806.9861450195312 2 806.982987 1611.95142 NaN NaN NaN NaN NaN NaN NaN 44.943 1 45.593 45.093 46.093 0.64998 0 0 0 1.0082 1 20597 20597 0 0 1 + 37756 10027 23954 24030 42389 42389 0.16992343729839376 WKWNEEFTSC 10 Unmodified _WKWNEEFTSC_ 0 0 0 REV__ENSG00000196263|ENST00000308031|ZNF471 REV__ENSG00000196263|ENST00000308031|ZNF471 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 665.2828369140625 2 665.282063 1328.54957 NaN NaN NaN NaN NaN NaN NaN 103.88 1 104.2 103.7 104.7 0.31863 0 0 0 1.0015 1 48010 48010 0.40072 0 1 + 37757 14200 23955 24031 42390 42390 -0.10156027476318741 WKWRKFWRKSK 11 Unmodified _WKWRKFWRKSK_ 0 0 0 ENST00000315183.11_2_16:24801717-24801792:+|nuORF ENST00000315183.11_2_16:24801717-24801792:+|nuORF ENST00000315183.11_2_16:24801717-24801792:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 818.4733276367188 2 818.472786 1634.93102 NaN NaN NaN NaN NaN NaN NaN 93.598 1 93.598 93.098 94.098 0 0 0 0 1.0082 1 50000 50000 0 0 1 37758 6894 23956 24032 42391 42391 0.13895173070000055 WKWRKFWRKSK 11 Unmodified _WKWRKFWRKSK_ 0 0 0 ENST00000315183.11_2_16:24801717-24801792:+|nuORF ENST00000315183.11_2_16:24801717-24801792:+|nuORF ENST00000315183.11_2_16:24801717-24801792:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 818.4724731445312 2 818.472786 1634.93102 NaN NaN NaN NaN NaN NaN NaN 82.405 1 82.489 81.989 82.989 0.084106 0 0 0 1.0082 1 40705 40705 0 0 1 37759 6894 23956 24032 42392 42392 0.13895173070000055 WKYMLQTQH 9 Unmodified _WKYMLQTQH_ 0 0 0 REV__ENST00000369938.5_1_1:109730226-109745631:+|nuORF REV__ENST00000369938.5_1_1:109730226-109745631:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.8108520507812 2 617.805508 1233.59646 NaN NaN NaN NaN NaN NaN NaN 19.935 1 19.935 19.435 20.435 0 0 0 0 0.8984 1 8902 8902 3.9444 0 1 + 37760 15713 23957 24033 42393 42393 -0.010991231345087726 WLCIIRLVPV 10 Unmodified _WLCIIRLVPV_ 0 0 0 REV__ENST00000468865.6_1_1:43829752-43830910:-|nuORF REV__ENST00000468865.6_1_1:43829752-43830910:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 606.3709106445312 2 606.370287 1210.72602 2.1289 0.0012909 -0.016399 -9.944E-06 2.1125 0.001281 606.3698058981099 104.33 0.30334 104.38 104.18 104.48 0.052986 36 30 2 0 0 0 0.94217 1 56470 56470 0.45834 0.057624 1 405890 + 37761 16572 23958 24034 42394 42394 0.12908678215444525 WLERPLVLWWR 11 Unmodified _WLERPLVLWWR_ 0 0 0 ENST00000402618.6_1_20:18269192-18290832:+|nuORF ENST00000402618.6_1_20:18269192-18290832:+|nuORF ENST00000402618.6_1_20:18269192-18290832:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.6296997070312 3 518.629506 1552.86669 NaN NaN NaN NaN NaN NaN NaN 92.284 1 92.367 91.867 92.867 0.082848 0 0 0 1.0071 1 48050 48050 1.4551 1.0006 1 37762 7616 23959 24035 42395 42395 0.11236973193194899 WLEWALRL 8 Unmodified _WLEWALRL_ 0 0 0 ENST00000503063.5_1_17:48629318-48633020:+|nuORF;ENST00000511937.5_1_17:48628543-48633020:+|nuORF;ENST00000504334.5_1_17:48627490-48633020:+|nuORF;nc|ENSG00000006282|Q8TB22-3|SPATA20;nc|ENSG00000006282|Q8TB22|SPATA20;ENSG00000006282|ENST00000006658|SPATA20 ENST00000503063.5_1_17:48629318-48633020:+|nuORF ENST00000503063.5_1_17:48629318-48633020:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.8106079101562 2 543.808377 1085.6022 3.5212 0.0019149 0.037315 2.0292E-05 3.5585 0.0019351 543.8085074437643 49.215 0.31725 49.477 49.298 49.615 0.26146 28 11 3 0 0 0 0.37185 1 22518 22518 30.225 5.2339 1 1205600 37763 344 23960 24036 42396 42396 0.06282343439443139 WLEWALRL 8 Unmodified _WLEWALRL_ 0 0 0 ENST00000503063.5_1_17:48629318-48633020:+|nuORF;ENST00000511937.5_1_17:48628543-48633020:+|nuORF;ENST00000504334.5_1_17:48627490-48633020:+|nuORF;nc|ENSG00000006282|Q8TB22-3|SPATA20;nc|ENSG00000006282|Q8TB22|SPATA20;ENSG00000006282|ENST00000006658|SPATA20 ENST00000503063.5_1_17:48629318-48633020:+|nuORF ENST00000503063.5_1_17:48629318-48633020:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.8106079101562 2 543.808377 1085.6022 3.6034 0.0019595 -0.17649 -9.5979E-05 3.4269 0.0018636 543.8084187534394 48.787 0.32289 49.442 49.252 49.574 0.65524 22 11 3 0 0 0 0.68261 1 22371 22371 7.2892 2.5332 1 839590 37764 344 23960 24036 42397 42397 0.06282343439443139 WLFLKVPK 8 Unmodified _WLFLKVPK_ 0 0 0 ENST00000464515.1_1_7:41729250-41730808:-|nuORF;ENSG00000122641|ENST00000242208|INHBA ENST00000464515.1_1_7:41729250-41730808:-|nuORF ENST00000464515.1_1_7:41729250-41730808:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.2210693359375 3 344.219784 1029.63752 NaN NaN NaN NaN NaN NaN NaN 1.6635 1 1.9677 1.4677 2.4677 0.30411 0 0 0 0.99035 1 759 759 0.45834 0 1 37765 2272 23961 24037 42398 42398 0.1238900596727035 WLFWLRKTRAD 11 Unmodified _WLFWLRKTRAD_ 0 0 0 REV__nc|ENSG00000138688|Q2LD37-4|BLTP1;REV__nc|ENSG00000138688|Q2LD37-6|BLTP1 REV__nc|ENSG00000138688|Q2LD37-4|BLTP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 746.41650390625 2 746.414603 1490.81465 NaN NaN NaN NaN NaN NaN NaN 37.035 1 37.296 36.796 37.796 0.26051 0 0 0 1.008 1 16869 16869 0.35063 0.043601 1 + 37766 12183;17960 23962 24038 42399 42399 0.08887809779457712 WLGPPQWPY 9 Unmodified _WLGPPQWPY_ 0 0 0 REV__ENST00000578337.1_1_17:73126785-73126953:-|nuORF REV__ENST00000578337.1_1_17:73126785-73126953:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.2848510742188 2 572.284734 1142.55492 NaN NaN NaN NaN NaN NaN NaN 28.339 1 28.599 28.099 29.099 0.2602 0 0 0 0.91206 1 12889 12889 0.6015 0 1 + 37767 17490 23963 24039 42400 42400 -0.010659358315251666 WLHERGQEF 9 Unmodified _WLHERGQEF_ 0 0 0 nc|ENSG00000122884|P13674-3|P4HA1;nc|ENSG00000122884|P13674-2|P4HA1;ENSG00000122884|ENST00000394890|P4HA1 nc|ENSG00000122884|P13674-3|P4HA1 nc|ENSG00000122884|P13674-3|P4HA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 401.1979675292969 3 401.196478 1200.56761 2.6975 0.0010822 0.027517 1.104E-05 2.725 0.0010933 401.19656782618 31.257 0.22157 32.046 31.91 32.132 0.78879 33 17 3 0 0 0 1.0601 1 14097 14097 2.9952 0 1 313170 37768 9620 23964 24040 42401 42401 -0.024655244392988607 WLHERGQEF 9 Unmodified _WLHERGQEF_ 0 0 0 nc|ENSG00000122884|P13674-3|P4HA1;nc|ENSG00000122884|P13674-2|P4HA1;ENSG00000122884|ENST00000394890|P4HA1 nc|ENSG00000122884|P13674-3|P4HA1 nc|ENSG00000122884|P13674-3|P4HA1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 401.1973571777344 3 401.196478 1200.56761 3.2947 0.0013218 -1.3163 -0.00052809 1.9784 0.00079373 401.19617976825936 32.301 0.25673 32.555 32.392 32.649 0.25452 25 20 2 0 0 0 0.15661 1 14709 14709 26.268 9.9936 1 1766600 37769 9620 23964 24040 42402 42402 -0.024655244392988607 WLHFYLWWLCY 11 Unmodified _WLHFYLWWLCY_ 0 0 0 ENST00000521938.5_1_8:27950677-27967964:+|nuORF ENST00000521938.5_1_8:27950677-27967964:+|nuORF ENST00000521938.5_1_8:27950677-27967964:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.9285888671875 3 543.928564 1628.76386 NaN NaN NaN NaN NaN NaN NaN 32.259 1 32.259 31.759 32.759 0 0 0 0 1.0082 1 14607 14607 0 0 1 37770 8645 23965 24041 42403 42403 -0.0253685558975576 WLIKIDGVGRE 11 Unmodified _WLIKIDGVGRE_ 0 0 0 REV__ENSG00000153201|ENST00000283195|RANBP2 REV__ENSG00000153201|ENST00000283195|RANBP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.188232421875 4 322.187032 1284.71902 2.5391 0.00081807 0.20697 6.6683E-05 2.7461 0.00088475 322.18699253265635 67.049 0.37785 67.299 67.166 67.544 0.2501 37 24 3 0 0 0 0.89309 1 30698 30698 1.1098 0 1 575180 + 37771 12673 23966 24042 42404 42404 0.08805036868579919 WLIKIDGVGRE 11 Unmodified _WLIKIDGVGRE_ 0 0 0 REV__ENSG00000153201|ENST00000283195|RANBP2 REV__ENSG00000153201|ENST00000283195|RANBP2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 322.187032 1284.71902 2.5391 0.00081807 0.20697 6.6683E-05 2.7461 0.00088475 322.18699253265635 67.049 0.37785 67.299 67.166 67.544 0.2501 0 0 NaN 1.1098 37 24 3 NaN NaN NaN NaN 0 NaN NaN 0 575180 + 37772 12673 23966 24042 0.08805036868579919 WLILLYDIRE 10 Unmodified _WLILLYDIRE_ 0 0 0 REV__ENST00000480101.1_1_3:142499823-142503920:+|nuORF REV__ENST00000480101.1_1_3:142499823-142503920:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 667.382080078125 2 667.379363 1332.74417 NaN NaN NaN NaN NaN NaN NaN 58.45 1 59.209 58.709 59.709 0.75894 0 0 0 0.99687 1 26808 26808 4.3292 0.38484 1 + 37773 12421 23967 24043 42405 42405 0.09111091671138638 WLILVVPVL 9 Unmodified _WLILVVPVL_ 0 0 0 chr10:3091665-3099275|128|40.59|0.08|8.95|+|2|TE_info:AluSz,AluSz_dup56305,Alu,SINE,donor,+,3091534,3091665|None,PFKP|1 chr10:3091665-3099275|128|40.59|0.08|8.95|+|2|TE_info:AluSz,AluSz_dup56305,Alu,SINE,donor,+,3091534,3091665|None,PFKP|1 chr10:3091665-3099275|128|40.59|0.08|8.95|+|2|TE_info:AluSz,AluSz_dup56305,Alu,SINE,donor,+,3091534,3091665|None,PFKP|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 526.351806640625 2 526.349346 1050.68414 NaN NaN NaN NaN NaN NaN NaN 16.713 1 17.371 16.871 17.871 0.65798 0 0 0 0.91206 1 7534 7534 0.6015 0 1 37774 129 23968 24044 42406 42406 0.1608244579856546 WLIRSRRR 8 Unmodified _WLIRSRRR_ 0 0 0 REV__ENST00000489411.1_1_3:44544069-44552124:-|nuORF REV__ENST00000489411.1_1_3:44544069-44552124:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.8544921875 2 571.854516 1141.69448 NaN NaN NaN NaN NaN NaN NaN 10.277 1 10.277 9.7775 10.777 0 0 0 0 0.99035 1 4587 4587 0.69038 0 1 + 37775 16793 23969 24045 42407 42407 0.12929866296371983 WLKIYLFA 8 Unmodified _WLKIYLFA_ 0 0 0 ENSG00000239305|ENST00000237455|RNF103 ENSG00000239305|ENST00000237455|RNF103 ENSG00000239305|ENST00000237455|RNF103 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 351.9811096191406 3 351.875906 1052.60589 2.3094 0.00081263 -1.8309 -0.00064425 0.47854 0.00016839 351.87483793705456 46.063 0.15034 46.889 46.789 46.94 0.82621 10 6 2 0 0 0 0.14225 1 20950 20950 3.9444 1.4459 1 198170 37776 6209 23970 24046 42408 42408 0.08169013213318976 WLKKWHRK 8 Unmodified _WLKKWHRK_ 0 0 0 REV__ENSG00000154783|ENST00000285046|FGD5 REV__ENSG00000154783|ENST00000285046|FGD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.3623657226562 2 591.35636 1180.69817 NaN NaN NaN NaN NaN NaN NaN 66.563 1 66.813 66.313 67.313 0.24989 0 0 0 0.99035 1 30494 30494 2.8892 0.58649 1 + 37777 12723 23971 24047 42409 42409 0.11504536070196991 WLKLLLRWLPV 11 Unmodified _WLKLLLRWLPV_ 0 0 0 ENST00000592819.1_2_19:13010157-13010840:-|nuORF ENST00000592819.1_2_19:13010157-13010840:-|nuORF ENST00000592819.1_2_19:13010157-13010840:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.7344665527344 4 359.983967 1435.90676 2.6997 0.00097186 2.9568 0.0010644 5.6566 0.0020363 359.98440619187124 41.153 0.2295 41.798 41.749 41.978 0.64451 12 12 2 0 0 0 0.13295 1 18894 18894 1.2148 0.10508 1 1093400 37778 9248 23972 24048 42410 42410 0.2062451986380438 WLKLNLHK 8 Unmodified _WLKLNLHK_ 0 0 0 nc|ENSG00000145703|Q13576-3|IQGAP2;nc|ENSG00000145703|Q13576-2|IQGAP2;ENSG00000145703|ENST00000274364|IQGAP2 nc|ENSG00000145703|Q13576-3|IQGAP2 nc|ENSG00000145703|Q13576-3|IQGAP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.1800842285156 3 351.218555 1050.63383 2.5451 0.0008939 -0.20687 -7.2655E-05 2.3383 0.00082124 351.21822486841376 65.144 0.37691 65.801 65.604 65.981 0.65672 39 24 2 0 0 0 0.14244 1 29932 29932 3.5965 3.5965 1 490480 37779 3481 23973 24049 42411 42411 0.11054336193410563 WLKLNLHK 8 Unmodified _WLKLNLHK_ 0 0 0 nc|ENSG00000145703|Q13576-3|IQGAP2;nc|ENSG00000145703|Q13576-2|IQGAP2;ENSG00000145703|ENST00000274364|IQGAP2 nc|ENSG00000145703|Q13576-3|IQGAP2 nc|ENSG00000145703|Q13576-3|IQGAP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.2204895019531 3 351.218555 1050.63383 2.3695 0.00083222 -0.29999 -0.00010536 2.0695 0.00072686 351.21826453249344 63.351 0.67622 64.009 63.608 64.284 0.65808 49 41 2 0 0 0 0.14313 1 29038 29038 1.6526 0 1 716060 37780 3481 23973 24049 42412 42412 0.11054336193410563 WLKLNLHK 8 Unmodified _WLKLNLHK_ 0 0 0 nc|ENSG00000145703|Q13576-3|IQGAP2;nc|ENSG00000145703|Q13576-2|IQGAP2;ENSG00000145703|ENST00000274364|IQGAP2 nc|ENSG00000145703|Q13576-3|IQGAP2 nc|ENSG00000145703|Q13576-3|IQGAP2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 351.218555 1050.63383 2.3422 0.00082262 -1.9847 -0.00069706 0.35748 0.00012555 351.21718341737187 63.659 0.34499 63.907 63.587 63.932 0.24803 -0.051138 -0.0014193 NaN 6.7232 24 18 2 NaN NaN NaN NaN 0 NaN NaN 0 607910 37781 3481 23973 24049 0.11054336193410563 WLKLRIALL 9 Unmodified _WLKLRIALL_ 0 0 0 nc|ENSG00000165138|Q68DC2-3|ANKS6 nc|ENSG00000165138|Q68DC2-3|ANKS6 nc|ENSG00000165138|Q68DC2-3|ANKS6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.479248046875 2 563.378969 1124.74339 NaN NaN NaN NaN NaN NaN NaN 84.912 1 84.912 84.412 85.412 0 0 0 0 0.90611 1 43104 43104 2.0598 0 1 37782 9730 23974 24050 42413 42413 0.1860034181274841 WLKSKPRP 8 Unmodified _WLKSKPRP_ 0 0 0 REV__ENST00000336219.3_1_14:105476782-105476908:-|nuORF REV__ENST00000336219.3_1_14:105476782-105476908:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 337.554931640625 3 337.874788 1010.60253 2.5908 0.00087537 1.0896 0.00036816 3.6805 0.0012435 337.8751768809319 33.012 0.34326 33.266 33.032 33.376 0.25389 22 14 2 0 0 0 0.14161 1 15038 15038 5.7319 2.1354 1 405270 + 37783 15418 23975 24051 42414 42414 0.09765763159327889 WLKSKPRP 8 Unmodified _WLKSKPRP_ 0 0 0 REV__ENST00000336219.3_1_14:105476782-105476908:-|nuORF REV__ENST00000336219.3_1_14:105476782-105476908:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 337.874788 1010.60253 2.17 0.0007332 0.79614 0.000269 2.9662 0.0010022 337.87510904316497 32.208 0.14416 32.996 32.971 33.116 0.78795 -0.13503 -0.00020516 NaN 5.7319 19 14 2 NaN NaN NaN NaN 0 NaN NaN 0 487140 + 37784 15418 23975 24051 0.09765763159327889 WLKTLLRFLL 10 Unmodified _WLKTLLRFLL_ 0 0 0 REV__nc|ENSG00000175221|Q9Y2X0-2|MED16 REV__nc|ENSG00000175221|Q9Y2X0-2|MED16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 434.9498596191406 3 434.948064 1301.82236 3.7257 0.0016205 0.44854 0.00019509 4.1743 0.0018156 434.948261889315 109.75 1.8294 110.06 108.47 110.3 0.31015 170 76 3 0 0 0 0.94443 2 50075 50075;50317 0 0 1 296160 + 37785 13667 23976 24052 42415;42416 42415 0.18352569047056022 WLKVARLTLR 10 Unmodified _WLKVARLTLR_ 0 0 0 REV__ENST00000453839.5_1_2:61002191-61018944:+|nuORF REV__ENST00000453839.5_1_2:61002191-61018944:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 419.272216796875 3 419.27143 1254.79246 NaN NaN NaN NaN NaN NaN NaN 43.061 1 43.875 43.375 44.375 0.81444 0 0 0 0.99976 1 19594 19594 1.9064 0 1 + 37786 11364 23977 24053 42417 42417 0.175256301016816 WLLGGLLP 8 Unmodified _WLLGGLLP_ 0 0 0 ENSG00000111339|ENST00000228936|ART4 ENSG00000111339|ENST00000228936|ART4 ENSG00000111339|ENST00000228936|ART4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 434.76849365234375 2 434.768189 867.521825 2.2454 0.00097624 0.46057 0.00020024 2.706 0.0011765 434.7683513251002 10.367 0.026414 10.662 10.647 10.673 0.2956 9 6 2 0 0 0 0.14333 1 4553 4553 0.79363 0 1 346520 37787 1758 23978 24054 42418 42418 0.08276482116434636 WLLGGLLP 8 Unmodified _WLLGGLLP_ 0 0 0 ENSG00000111339|ENST00000228936|ART4 ENSG00000111339|ENST00000228936|ART4 ENSG00000111339|ENST00000228936|ART4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 434.768189 867.521825 3.4458 0.0014981 1.6247 0.00070635 5.0704 0.0022045 434.7688602595268 10.131 0.17727 10.76 10.673 10.85 0.62936 0.049099 0.00021176 NaN 0.79363 21 15 2 NaN NaN NaN NaN 0 NaN NaN 0 49477 37788 1758 23978 24054 0.08276482116434636 WLLILRKKLL 10 Unmodified _WLLILRKKLL_ 0 0 0 REV__ENST00000358025.7_1_14:64483293-64484313:+|nuORF REV__ENST00000358025.7_1_14:64483293-64484313:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 648.4512939453125 2 648.449926 1294.8853 NaN NaN NaN NaN NaN NaN NaN 52.244 1 52.244 51.744 52.744 0 0 0 0 1.002 1 23922 23922 0 0 1 + 37789 15575 23979 24055 42419 42419 0.24965134835088065 WLLKILVIILV 11 Unmodified _WLLKILVIILV_ 0 0 0 ENSG00000167080|ENST00000393354|B4GALNT2;nc|ENSG00000167080|Q8NHY0|B4GALNT2 ENSG00000167080|ENST00000393354|B4GALNT2 ENSG00000167080|ENST00000393354|B4GALNT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 661.9635620117188 2 661.962335 1321.91012 NaN NaN NaN NaN NaN NaN NaN 104.6 1 105.2 104.7 105.7 0.59885 0 0 0 1.0082 1 48321 48321 0 0 1 37790 4527 23980 24056 42420 42420 0.2620376991778812 WLLKLLHISA 10 Unmodified _WLLKLLHISA_ 0 0 0 REV__ENSG00000172031|ENST00000370383|EPHX4 REV__ENSG00000172031|ENST00000370383|EPHX4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 398.5863037109375 3 398.585015 1192.73321 2.4893 0.00099222 0.95551 0.00038085 3.4449 0.0013731 398.5853570356953 45.934 0.72938 45.934 45.403 46.132 0 76 35 3 0 0 0 0.93503 1 21074 21074 1.9064 0 1 2738700 + 37791 13533 23981 24057 42421 42421 0.14455734087528072 WLLLKLLLLLL 11 Unmodified _WLLLKLLLLLL_ 0 0 0 ENSG00000115155|ENST00000272371|OTOF;nc|ENSG00000115155|Q9HC10-4|OTOF;nc|ENSG00000115155|Q9HC10-3|OTOF ENSG00000115155|ENST00000272371|OTOF ENSG00000115155|ENST00000272371|OTOF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 675.9805908203125 2 675.977985 1349.94142 NaN NaN NaN NaN NaN NaN NaN 48.632 1 49.459 48.959 49.959 0.82705 0 0 0 1.0082 1 22155 22155 0 0 1 37792 1946 23982 24058 42422 42422 0.28044342951898216 WLLLLLAL 8 Unmodified _WLLLLLAL_ 0 0 0 nc|ENSG00000171611|Q6ISU1-2|PTCRA;nc|ENSG00000171611|Q6ISU1-3|PTCRA;ENSG00000171611|ENST00000304672|PTCRA nc|ENSG00000171611|Q6ISU1-2|PTCRA nc|ENSG00000171611|Q6ISU1-2|PTCRA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.857421875 2 477.822964 953.631375 NaN NaN NaN NaN NaN NaN NaN 63.668 1 63.668 63.168 64.168 0 0 0 0 0.99035 1 29993 29993 6.3541 0 1 37793 4820 23983 24059 42423 42423 0.15270487735745064 WLLLLLLA 8 Unmodified _WLLLLLLA_ 0 0 0 ENSG00000158859|ENST00000367996|ADAMTS4;nc|ENSG00000158859|O75173-2|ADAMTS4;ENST00000447548.5_3_10:22208848-22292309:-|nuORF;DNAJC1|p.E254Kfs*4|1|0.3|ENSG00000136770|chr10:21904583-21904583|T/-|frameshift_variant;ENSG00000136770|ENST00000376980|DNAJC1 ENSG00000158859|ENST00000367996|ADAMTS4 ENSG00000158859|ENST00000367996|ADAMTS4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 477.8235778808594 2 477.822964 953.631375 NaN NaN NaN NaN NaN NaN NaN 72.533 1 73.197 72.697 73.697 0.66398 0 0 0 0.99035 1 33276 33276 0.79363 0 1 37794 4002 23984 24060 42424 42424 0.15270487735756433 WLLLLLLLLLL 11 Unmodified _WLLLLLLLLLL_ 0 0 0 REV__nc|ENSG00000149451|Q9BZ11-2|ADAM33 REV__nc|ENSG00000149451|Q9BZ11-2|ADAM33 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 668.7606201171875 2 668.472535 1334.93052 NaN NaN NaN NaN NaN NaN NaN 79.002 1 79.466 78.966 79.966 0.4642 0 0 0 1.0082 1 38514 38514 0 0 1 + 37795 12568 23985 24061 42425 42425 0.27644940577624766 WLLLLLRLRL 10 Unmodified _WLLLLLRLRL_ 0 0 0 REV__nc|ENSG00000138623|O75326-2|SEMA7A REV__nc|ENSG00000138623|O75326-2|SEMA7A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 654.9485473632812 2 654.94755 1307.88055 NaN NaN NaN NaN NaN NaN NaN 63.362 1 64.085 63.585 64.585 0.72236 0 0 0 1.0015 1 29676 29676 0.45834 0.057624 1 + 37796 12174 23986 24062 42426 42426 0.23892250692301786 WLLLQTYTR 9 Unmodified _WLLLQTYTR_ 0 0 0 REV__ENST00000301335.9_1_17:1478030-1478219:-|nuORF REV__ENST00000301335.9_1_17:1478030-1478219:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 597.3386840820312 2 597.337498 1192.66044 NaN NaN NaN NaN NaN NaN NaN 55.34 1 55.34 54.84 55.84 0 0 0 0 0.89509 1 25425 25425 4.756 0.42677 1 + 37797 15190 23987 24063 42427 42427 0.07181980294080859 WLLLRLALFG 10 Unmodified _WLLLRLALFG_ 0 0 0 ENST00000568202.5_1_16:5083828-5083915:-|nuORF;nc|ENSG00000103174|Q9UK23-3|NAGPA;nc|ENSG00000103174|Q9UK23-2|NAGPA;ENSG00000103174|ENST00000312251|NAGPA ENST00000568202.5_1_16:5083828-5083915:-|nuORF ENST00000568202.5_1_16:5083828-5083915:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 601.3780517578125 2 601.376426 1200.7383 NaN NaN NaN NaN NaN NaN NaN 104.13 1 104.45 103.95 104.95 0.31863 0 0 0 1.0015 1 48116 48116 0.45834 0 1 37798 1380 23988 24064 42428 42428 0.145960379501048 WLLRRLRRLER 11 Unmodified _WLLRRLRRLER_ 0 0 0 REV__ENST00000601530.1_1_19:49224057-49228265:-|nuORF REV__ENST00000601530.1_1_19:49224057-49228265:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 783.9942016601562 2 783.994417 1565.97428 NaN NaN NaN NaN NaN NaN NaN 60.254 1 60.51 60.01 61.01 0.25578 0 0 0 1.0082 1 27590 27590 0 0 1 + 37799 11040 23989 24065 42429 42429 0.21393362847311437 WLLRSVHEV 9 Unmodified _WLLRSVHEV_ 0 0 0 REV__ENST00000494397.5_1_X:153175958-153178171:-|nuORF REV__ENST00000494397.5_1_X:153175958-153178171:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.8241577148438 2 569.822015 1137.62948 3.663 0.0020873 1.2229 0.00069682 4.8859 0.0027841 570.3237776111689 35.19 0.23657 35.813 35.698 35.934 0.62294 14 8 2 0 0 0 0.11393 1 16179 16179 0.52476 0.066424 1 419380 + 37800 10703 23990 24066 42430 42430 0.06616826979848156 WLLRSVHEV 9 Unmodified _WLLRSVHEV_ 0 0 0 REV__ENST00000494397.5_1_X:153175958-153178171:-|nuORF REV__ENST00000494397.5_1_X:153175958-153178171:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 569.822015 1137.62948 3.3512 0.0019096 0.11364 6.4755E-05 3.4649 0.0019744 569.8227673425134 35.805 0.25877 35.805 35.683 35.942 0 0.031503 -0.00047132 NaN 1.6526 22 13 2 NaN NaN NaN NaN 0 NaN NaN 0 677740 + 37801 10703 23990 24066 0.06616826979848156 WLLRSVHEV 9 Unmodified _WLLRSVHEV_ 0 0 0 REV__ENST00000494397.5_1_X:153175958-153178171:-|nuORF REV__ENST00000494397.5_1_X:153175958-153178171:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 569.822015 1137.62948 3.4961 0.0019921 0.1899 0.00010821 3.686 0.0021004 569.8224910169373 34.85 0.1735 35.639 35.553 35.726 0.78921 -0.1349 -0.0003844 NaN 1.6526 23 12 2 NaN NaN NaN NaN 0 NaN NaN 0 419880 + 37802 10703 23990 24066 0.06616826979848156 WLLRSVHEV 9 Unmodified _WLLRSVHEV_ 0 0 0 REV__ENST00000494397.5_1_X:153175958-153178171:-|nuORF REV__ENST00000494397.5_1_X:153175958-153178171:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 569.822015 1137.62948 3.4514 0.0019667 0.29126 0.00016597 3.7427 0.0021327 569.8222214469106 35.583 0.28054 35.838 35.713 35.994 0.25524 0.064577 -0.00026889 NaN 1.6526 15 9 2 NaN NaN NaN NaN 0 NaN NaN 0 287040 + 37803 10703 23990 24066 0.06616826979848156 WLLRWLFWRLW 11 Unmodified _WLLRWLFWRLW_ 0 0 0 REV__ENST00000264649.10_1_17:40610912-40612943:+|nuORF REV__ENST00000264649.10_1_17:40610912-40612943:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 837.9180908203125 2 837.974631 1673.93471 NaN NaN NaN NaN NaN NaN NaN 59.163 1 59.163 58.663 59.663 0 0 0 0 1.0082 1 27339 27339 0.30703 0.30703 1 + 37804 15022 23991 24067 42431 42431 0.124698428438478 WLLRWLFWRLW 11 Unmodified _WLLRWLFWRLW_ 0 0 0 REV__ENST00000264649.10_1_17:40610912-40612943:+|nuORF REV__ENST00000264649.10_1_17:40610912-40612943:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.9351196289062 3 558.985513 1673.93471 NaN NaN NaN NaN NaN NaN NaN 63.094 1 63.094 62.594 63.594 0 0 0 0 1.0082 1 29641 29641 0 0 1 + 37805 15022 23991 24067 42432 42432 0.124698428438478 WLLRWLFWRLW 11 Unmodified _WLLRWLFWRLW_ 0 0 0 REV__ENST00000264649.10_1_17:40610912-40612943:+|nuORF REV__ENST00000264649.10_1_17:40610912-40612943:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 837.9740600585938 2 837.974631 1673.93471 NaN NaN NaN NaN NaN NaN NaN 52.127 1 52.39 51.89 52.89 0.26227 0 0 0 1.0082 1 23828 23828 0 0 1 + 37806 15022 23991 24067 42433 42433 0.124698428438478 WLLVIVVL 8 Unmodified _WLLVIVVL_ 0 0 0 CDH8|p.L633W|1|0.24|ENSG00000150394|chr16:61655478-61655478|A/C|missense_variant CDH8|p.L633W|1|0.24|ENSG00000150394|chr16:61655478-61655478|A/C|missense_variant CDH8|p.L633W|1|0.24|ENSG00000150394|chr16:61655478-61655478|A/C|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.8229064941406 2 477.822964 953.631375 NaN NaN NaN NaN NaN NaN NaN 66.267 1 66.267 65.767 66.767 0 0 0 0 0.99035 1 31656 31656 2.8892 0 1 37807 110 23992 24068 42434 42434 0.15270487735745064 WLLWFWWLEYY 11 Unmodified _WLLWFWWLEYY_ 0 0 0 REV__ENST00000473467.5_1_2:74685729-74687181:+|nuORF REV__ENST00000473467.5_1_2:74685729-74687181:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 852.916259765625 2 852.916113 1703.81767 NaN NaN NaN NaN NaN NaN NaN 27.367 1 28.153 27.653 28.653 0.78627 0 0 0 1.0082 1 12302 12302 0 0 1 + 37808 14603 23993 24069 42435 42435 -0.006083598863824591 WLLWLYLWLLW 11 Unmodified _WLLWLYLWLLW_ 0 0 0 ENST00000257940.6_1_12:56515445-56515574:+|nuORF REV__ENST00000257940.6_1_12:56515445-56515574:+|nuORF REV__ENST00000257940.6_1_12:56515445-56515574:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 803.0549926757812 2 802.955041 1603.89553 NaN NaN NaN NaN NaN NaN NaN 100.77 1 100.77 100.27 101.27 0 0 0 0 1.0082 1 55668 55668 0 0 1 37809 6536 23994 24070 42436 42436 0.11773697769649516 WLMCSLCIWTM 11 Unmodified _WLMCSLCIWTM_ 0 0 0 REV__ENSG00000079308|ENST00000682258|TNS1 REV__ENSG00000079308|ENST00000682258|TNS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 462.873779296875 3 462.874086 1385.60043 NaN NaN NaN NaN NaN NaN NaN 45.691 1 46.342 45.842 46.842 0.65104 0 0 0 1.0046 1 20935 20935 4.7159 1.6437 1 + 37810 10578 23995 24071 42437 42437 -0.07694861018990196 WLPAPKIQ 8 Unmodified _WLPAPKIQ_ 0 0 0 ENST00000380722.2_1_14:85996060-85996315:-|nuORF ENST00000380722.2_1_14:85996060-85996315:-|nuORF ENST00000380722.2_1_14:85996060-85996315:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 318.19647216796875 3 318.192006 951.554188 NaN NaN NaN NaN NaN NaN NaN 81.882 1 82.542 82.042 83.042 0.65998 0 0 0 0.99035 1 37730 37730 1.8442 0 1 37811 7471 23996 24072 42438 42438 0.07647269519407018 WLPIFIKFRT 10 Unmodified _WLPIFIKFRT_ 0 0 0 HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|438|3|anti-sense;HERVK-int_dup102|chr7:4583489-4590929:-|1.365261944516419|0.4463608682754711|1.61|525.0|439|3|anti-sense HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|438|3|anti-sense HERVK-int_dup182|chr12:58328522-58335947:-|1.2896282045067735|0.1244487520727542|3.37|491.0|438|3|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 660.6547241210938 2 660.894983 1319.77541 NaN NaN NaN NaN NaN NaN NaN 102.23 1 102.83 102.33 103.33 0.59759 0 0 0 1.0015 1 47322 47322 0.45834 0 1 37812 9411 23997 24073 42439 42439 0.12831709495867472 WLPNASLLSH 10 Unmodified _WLPNASLLSH_ 0 0 0 REV__nc|ENSG00000138798|P01133-2|EGF REV__nc|ENSG00000138798|P01133-2|EGF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.87451171875 3 379.873224 1136.59784 2.8831 0.0010952 -0.21593 -8.2026E-05 2.6672 0.0010132 379.8732005118237 26.608 0.46991 26.608 26.446 26.916 0 93 37 3 0 0 0 0.67861 2 12033 12033;12036 14.218 2.7235 1 1269400 + 37813 12194 23998 24074 42440;42441 42440 0.035008342259061465 WLPPIVPTLW 10 Unmodified _WLPPIVPTLW_ 0 0 0 REV__ENST00000371586.6_2_1:52816616-52816928:-|nuORF REV__ENST00000371586.6_2_1:52816616-52816928:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 611.3582153320312 2 611.35516 1220.69577 3.7109 0.0022687 1.6262 0.0009942 5.3371 0.0032629 611.3559359689682 87.416 0.7215 88.092 87.808 88.529 0.67555 74 34 3 0 0 0 0.89464 1 40458 40458 3.9444 0.3479 1 1111100 + 37814 15739 23999 24075 42442 42442 0.09424642821886664 WLQELDSI 8 Unmodified _WLQELDSI_ 0 0 0 REV__ENST00000344851.4_1_6:158658370-158659030:-|nuORF REV__ENST00000344851.4_1_6:158658370-158659030:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 335.1749267578125 3 335.17468 1002.50221 1.6995 0.00056964 -0.98832 -0.00033126 0.71123 0.00023839 335.1744057905713 12.592 0.11663 12.899 12.819 12.936 0.30727 8 3 3 0 0 0 0.72385 1 5695 5695 3.9444 0 1 2612800 + 37815 15501 24000 24076 42443 42443 0.0010606131501162963 WLQELDSI 8 Unmodified _WLQELDSI_ 0 0 0 REV__ENST00000344851.4_1_6:158658370-158659030:-|nuORF REV__ENST00000344851.4_1_6:158658370-158659030:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 335.17468 1002.50221 1.6995 0.00056964 -0.98832 -0.00033126 0.71123 0.00023839 335.1744057905713 12.592 0.11663 12.899 12.819 12.936 0.30727 -0.039329 1.8464E-05 NaN 3.9444 8 3 3 NaN NaN NaN NaN 0 NaN NaN 0 2612800 + 37816 15501 24000 24076 0.0010606131501162963 WLQFEREWEQY 11 Unmodified _WLQFEREWEQY_ 0 0 0 REV__YLPM1|p.D2015Vfs*40|1|0.15|ENSG00000119596|chr14:74821070-74821070|A/-|frameshift_variant REV__YLPM1|p.D2015Vfs*40|1|0.15|ENSG00000119596|chr14:74821070-74821070|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.3728637695312 2 807.372798 1612.73104 NaN NaN NaN NaN NaN NaN NaN 72.444 1 72.444 71.944 72.944 0 0 0 0 1.0082 1 35240 35240 0 0 1 + 37817 18249 24001 24077 42444 42444 -0.05081391178873673 WLQRFYLIQPM 11 Unmodified _WLQRFYLIQPM_ 0 0 0 REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.937255859375 3 498.935719 1493.78533 3.4348 0.0017137 0.044313 2.2109E-05 3.4791 0.0017359 498.9352269862117 105.91 0.13132 106.51 106.41 106.55 0.59969 7 4 2 0 0 0 0.91391 1 48923 48923 0.08335 0 1 362440 + 37818 16105 24002 24078 42445 42445 0.05818529438965925 WLQRFYLIQPM 11 Unmodified _WLQRFYLIQPM_ 0 0 0 REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 498.935719 1493.78533 1.7804 0.00088831 1.5124 0.00075458 3.2928 0.0016429 498.936624340802 106.05 0.08992 106.1 106.04 106.13 0.04837 -0.18591 0.00062894 NaN 0.08335 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 449650 + 37819 16105 24002 24078 0.05818529438965925 WLQRFYLIQPM 11 Unmodified _WLQRFYLIQPM_ 0 0 0 REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 498.935719 1493.78533 4.0586 0.002025 0.63586 0.00031725 4.6944 0.0023422 498.9353517426922 105.93 0.12788 106.25 106.17 106.3 0.31681 -0.039617 -0.00068303 NaN 0.08335 9 4 3 NaN NaN NaN NaN 0 NaN NaN 0 367430 + 37820 16105 24002 24078 0.05818529438965925 WLQRFYLIQPM 11 Unmodified _WLQRFYLIQPM_ 0 0 0 REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 498.935719 1493.78533 3.4348 0.0017137 0.044313 2.2109E-05 3.4791 0.0017359 498.9352269862117 105.91 0.13132 106.51 106.41 106.55 0.59969 0.22552 -0.0015685 NaN 0.08335 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 362440 + 37821 16105 24002 24078 0.05818529438965925 WLQRLTPV 8 Unmodified _WLQRLTPV_ 0 0 0 REV__ENSG00000182378|ENST00000381657|PLCXD1 REV__ENSG00000182378|ENST00000381657|PLCXD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 338.2042236328125 3 338.202793 1011.58655 2.3851 0.00080663 0.58142 0.00019664 2.9665 0.0010033 338.2029324265421 40.109 0.40845 40.109 39.845 40.253 0 42 15 3 0 0 0 0.69597 2 18147 18147;18158 6.2058 0.9089 1 883520 + 37822 13890 24003 24079 42446;42447 42446 0.08122056922422871 WLQRLTPV 8 Unmodified _WLQRLTPV_ 0 0 0 REV__ENSG00000182378|ENST00000381657|PLCXD1 REV__ENSG00000182378|ENST00000381657|PLCXD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.20440673828125 3 338.202793 1011.58655 2.406 0.0008137 1.1195 0.00037861 3.5254 0.0011923 338.20313289027894 39.392 0.50654 39.659 39.347 39.853 0.26696 53 19 3 0 0 0 0.72814 1 17830 17830 3.5965 0 1 854630 + 37823 13890 24003 24079 42448 42448 0.08122056922422871 WLQTGLWAGRP 11 Unmodified _WLQTGLWAGRP_ 0 0 0 REV__ENST00000480503.5_1_7:45008844-45011824:-|nuORF REV__ENST00000480503.5_1_7:45008844-45011824:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 428.9017639160156 3 428.899773 1283.67749 2.3883 0.0010243 0.60731 0.00026047 2.9956 0.0012848 428.90016410592 72.024 0.91272 72.687 72.094 73.007 0.66324 195 72 4 0 0 0 0.89544 1 33051 33051 2.6312 2.6312 1 4105900 + 37824 16691 24004 24080 42449 42449 0.04699900899890963 WLQYVLQHDN 10 Unmodified _WLQYVLQHDN_ 0 0 0 ENSG00000119714|ENST00000650645|GPR68 ENSG00000119714|ENST00000650645|GPR68 ENSG00000119714|ENST00000650645|GPR68 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 658.32958984375 2 658.325119 1314.63569 3.8253 0.0025183 -2.7865 -0.0018345 1.0388 0.00068386 658.3233282203561 37.75 0.25798 38.384 38.27 38.528 0.63388 18 8 3 0 0 0 0.58053 1 17273 17273 18.146 2.2992 1 281940 37825 2161 24005 24081 42450 42450 -0.009046995792914458 WLQYVLQHDN 10 Unmodified _WLQYVLQHDN_ 0 0 0 ENSG00000119714|ENST00000650645|GPR68 ENSG00000119714|ENST00000650645|GPR68 ENSG00000119714|ENST00000650645|GPR68 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 658.325119 1314.63569 3.6188 0.0023824 -3.9485 -0.0025994 -0.32974 -0.00021708 658.3223830071641 38.322 0.21939 38.586 38.471 38.69 0.26408 0.14844 -0.00040498 NaN 18.146 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 549270 37826 2161 24005 24081 -0.009046995792914458 WLREHLGF 8 Unmodified _WLREHLGF_ 0 0 0 ENSG00000138606|ENST00000690270|SHF ENSG00000138606|ENST00000690270|SHF ENSG00000138606|ENST00000690270|SHF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.2838745117188 2 529.282526 1056.5505 NaN NaN NaN NaN NaN NaN NaN 51.766 1 52.577 52.077 53.077 0.81065 0 0 0 0.99035 1 23580 23580 2.5775 0 1 37827 3099 24006 24082 42451 42451 0.024485997455713004 WLRFHKKK 8 Unmodified _WLRFHKKK_ 0 0 0 ENST00000537064.5_1_12:133201285-133234573:-|nuORF;ENSG00000177084|ENST00000320574|POLE ENST00000537064.5_1_12:133201285-133234573:-|nuORF ENST00000537064.5_1_12:133201285-133234573:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.6854858398438 2 571.85091 1141.68727 NaN NaN NaN NaN NaN NaN NaN 9.656 1 9.9516 9.4516 10.452 0.2956 0 0 0 0.99035 1 4303 4303 0 0 1 37828 5101 24007 24083 42452 42452 0.12209133695932906 WLRHDRRRWRH 11 Unmodified _WLRHDRRRWRH_ 0 0 0 ENSG00000174010|ENST00000328046|KLHL15 ENSG00000174010|ENST00000328046|KLHL15 ENSG00000174010|ENST00000328046|KLHL15 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 837.4580688476562 2 837.459065 1672.90358 NaN NaN NaN NaN NaN NaN NaN 83.911 1 84.573 84.073 85.073 0.66219 0 0 0 1.0082 1 38649 38649 0 0 1 37829 4963 24008 24084 42453 42453 0.09404082582341289 WLRHKRKKKQ 10 Unmodified _WLRHKRKKKQ_ 0 0 0 REV__ENST00000585550.5_1_17:40855746-40872302:-|nuORF REV__ENST00000585550.5_1_17:40855746-40872302:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 704.4443359375 2 704.444029 1406.87351 NaN NaN NaN NaN NaN NaN NaN 55.645 1 55.645 55.145 56.145 0 0 0 0 1.0015 1 25585 25585 0.40072 0.050084 1 + 37830 11157 24009 24085 42454 42454 0.18634330864438198 WLRHPLRHFLR 11 Unmodified _WLRHPLRHFLR_ 0 0 0 REV__ENST00000545022.5_1_12:121970787-121972525:-|nuORF REV__ENST00000545022.5_1_12:121970787-121972525:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 510.6359558105469 3 510.968745 1529.8844 3.5627 0.0018204 0.052829 2.6994E-05 3.6155 0.0018474 510.9688282514133 106.19 0.18672 106.79 106.66 106.84 0.59969 7 5 2 0 0 0 0.13295 1 49055 49055 0 0 1 447990 + 37831 17244 24010 24086 42455 42455 0.14065733238726352 WLRHRKPELER 11 Unmodified _WLRHRKPELER_ 0 0 0 ENSG00000103257|ENST00000261622|SLC7A5;ENST00000563489.1_1_16:87866578-87870352:-|nuORF ENSG00000103257|ENST00000261622|SLC7A5 ENSG00000103257|ENST00000261622|SLC7A5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 760.4348754882812 2 760.433858 1518.85316 NaN NaN NaN NaN NaN NaN NaN 71.57 1 71.57 71.07 72.07 0 0 0 0 1.0075 1 34792 34792 0.96228 0.65524 1 37832 1387 24011 24087 42456 42456 0.11449115413984146 WLRKCLRKA 9 Unmodified _WLRKCLRKA_ 0 0 0 ENSG00000007908|ENST00000333360|SELE ENSG00000007908|ENST00000333360|SELE ENSG00000007908|ENST00000333360|SELE MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.3556518554688 2 587.355502 1172.69645 NaN NaN NaN NaN NaN NaN NaN 11.517 1 11.796 11.296 12.296 0.2792 0 0 0 0.91452 1 4992 4992 0 0 1 37833 367 24012 24088 42457 42457 0.11701158989967553 WLRLLILLGL 10 Unmodified _WLRLLILLGL_ 0 0 0 REV__nc|ENSG00000122986|Q96D96-2|HVCN1 REV__nc|ENSG00000122986|Q96D96-2|HVCN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 605.408447265625 2 605.407727 1208.8009 NaN NaN NaN NaN NaN NaN NaN 104.6 1 104.92 104.42 105.42 0.31863 0 0 0 1.002 1 48288 48288 0 0 1 + 37834 11600 24013 24089 42458 42458 0.20485184018343716 WLRQRRRERRR 11 Unmodified _WLRQRRRERRR_ 0 0 0 REV__ENST00000556029.5_2_12:98909542-98909698:+|nuORF REV__ENST00000556029.5_2_12:98909542-98909698:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 834.4891967773438 2 834.498721 1666.98289 NaN NaN NaN NaN NaN NaN NaN 101.12 1 101.72 101.22 102.22 0.59717 0 0 0 1.0082 1 46821 46821 0 0 1 + 37835 17324 24014 24090 42459 42459 0.17607729536462102 WLRRGWRTRWR 11 Unmodified _WLRRGWRTRWR_ 0 0 0 ENST00000431489.5_1_2:62933068-62933182:+|nuORF ENST00000431489.5_1_2:62933068-62933182:+|nuORF ENST00000431489.5_1_2:62933068-62933182:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 814.958984375 2 814.960909 1627.90726 NaN NaN NaN NaN NaN NaN NaN 68.026 1 68.026 67.526 68.526 0 0 0 0 1.0082 1 32708 32708 0 0 1 37836 7855 24015 24091 42460 42460 0.11842752356187702 WLRRLWPCHRQ 11 Unmodified _WLRRLWPCHRQ_ 0 0 0 ENST00000427442.6_1_20:42164739-42164823:+|nuORF ENST00000427442.6_1_20:42164739-42164823:+|nuORF ENST00000427442.6_1_20:42164739-42164823:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1550.830078125 1 1550.82737 1549.82009 3.1969 0.0049579 0.38759 0.00060108 3.5845 0.0055589 1550.8268159297418 42.927 0.046944 43.197 43.191 43.237 0.27021 8 5 2 0 0 0 0.91068 1 19599 19599 1.3295 0 1 12872000 37837 7819 24016 24092 42461 42461 0.06717210090278058 WLRRPHPILRR 11 Unmodified _WLRRPHPILRR_ 0 0 0 REV__ENSG00000214819|ENST00000399044|CDRT15L2 REV__ENSG00000214819|ENST00000399044|CDRT15L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 750.462646484375 2 750.462753 1498.91095 NaN NaN NaN NaN NaN NaN NaN 85.811 1 86.481 85.981 86.981 0.67061 0 0 0 1.0082 1 39514 39514 0 0 1 + 37838 14515 24017 24093 42462 42462 0.18145422130055522 WLRRRQPGYFR 11 Unmodified _WLRRRQPGYFR_ 0 0 0 REV__ENSG00000168263|ENST00000382082|KCNV2 REV__ENSG00000168263|ENST00000382082|KCNV2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 767.9296875 2 767.928743 1533.84293 NaN NaN NaN NaN NaN NaN NaN 56.687 1 57.355 56.855 57.855 0.66829 0 0 0 1.0082 1 25934 25934 0.30703 0 1 + 37839 13337 24018 24094 42463 42463 0.09736552479398597 WLRRRQPGYFR 11 Unmodified _WLRRRQPGYFR_ 0 0 0 REV__ENSG00000168263|ENST00000382082|KCNV2 REV__ENSG00000168263|ENST00000382082|KCNV2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 767.9304809570312 2 767.928743 1533.84293 NaN NaN NaN NaN NaN NaN NaN 74.175 1 74.84 74.34 75.34 0.6644 0 0 0 1.0082 1 34138 34138 0.30703 0.30703 1 + 37840 13337 24018 24094 42464 42464 0.09736552479398597 WLRWFLWRLLW 11 Unmodified _WLRWFLWRLLW_ 0 0 0 ENST00000264649.10_1_17:40610912-40612943:+|nuORF ENST00000264649.10_1_17:40610912-40612943:+|nuORF ENST00000264649.10_1_17:40610912-40612943:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.9883422851562 3 558.985513 1673.93471 NaN NaN NaN NaN NaN NaN NaN 58.331 1 58.331 57.831 58.831 0 0 0 0 1.0082 1 26916 26916 0 0 1 37841 6608 24019 24095 42465 42465 0.12469842843870538 WLRWWRQWQLI 11 Unmodified _WLRWWRQWQLI_ 0 0 0 REV__VCL|p.K139Nfs*28|1|0.16|ENSG00000035403|chr10:74071001-74071007|AGGAATT/-|frameshift_variant REV__VCL|p.K139Nfs*28|1|0.16|ENSG00000035403|chr10:74071001-74071007|AGGAATT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.6387939453125 3 557.640405 1669.89939 NaN NaN NaN NaN NaN NaN NaN 98.041 1 98.041 97.541 98.541 0 0 0 0 1.0082 1 53571 53571 0 0 1 + 37842 18247 24020 24096 42466 42466 0.09123180316078106 WLRWWRQWQLI 11 Unmodified _WLRWWRQWQLI_ 0 0 0 REV__VCL|p.K139Nfs*28|1|0.16|ENSG00000035403|chr10:74071001-74071007|AGGAATT/-|frameshift_variant REV__VCL|p.K139Nfs*28|1|0.16|ENSG00000035403|chr10:74071001-74071007|AGGAATT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 557.9929809570312 3 557.640405 1669.89939 NaN NaN NaN NaN NaN NaN NaN 68.682 1 69.384 68.884 69.884 0.70218 0 0 0 1.0082 1 32769 32769 0 0 1 + 37843 18247 24020 24096 42467 42467 0.09123180316078106 WLRYIQNRLQK 11 Unmodified _WLRYIQNRLQK_ 0 0 0 nc|ENSG00000166391|Q3SYC2-2|MOGAT2;ENSG00000166391|ENST00000198801|MOGAT2 nc|ENSG00000166391|Q3SYC2-2|MOGAT2 nc|ENSG00000166391|Q3SYC2-2|MOGAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 759.4408569335938 2 759.438609 1516.86267 3.6076 0.0027397 -0.63658 -0.00048344 2.971 0.0022563 759.4378729276189 52.415 0.19601 52.415 52.331 52.527 0 22 14 2 0 0 0 0.91068 1 24003 24003 1.3295 0 1 1658100 37844 4480 24021 24097 42468 42468 0.12490883699501865 WLRYIQNRLQK 11 Unmodified _WLRYIQNRLQK_ 0 0 0 nc|ENSG00000166391|Q3SYC2-2|MOGAT2;ENSG00000166391|ENST00000198801|MOGAT2 nc|ENSG00000166391|Q3SYC2-2|MOGAT2 nc|ENSG00000166391|Q3SYC2-2|MOGAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 759.4402465820312 2 759.438609 1516.86267 3.0849 0.0023428 -1.0209 -0.00077532 2.064 0.0015675 759.9397723477075 51.464 0.1804 52.281 52.222 52.402 0.81738 31 12 3 0 0 0 0.91068 1 23479 23479 1.3295 0.13619 1 760180 37845 4480 24021 24097 42469 42469 0.12490883699501865 WLRYIQNRLQK 11 Unmodified _WLRYIQNRLQK_ 0 0 0 nc|ENSG00000166391|Q3SYC2-2|MOGAT2;ENSG00000166391|ENST00000198801|MOGAT2 nc|ENSG00000166391|Q3SYC2-2|MOGAT2 nc|ENSG00000166391|Q3SYC2-2|MOGAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 759.4395751953125 2 759.438609 1516.86267 3.7714 0.0028641 -1.2785 -0.00097096 2.4929 0.0018932 759.4377400041544 51.566 0.28885 52.225 52.092 52.38 0.65956 34 14 3 0 0 0 0.91068 1 23568 23568 1.3295 0.13619 1 752660 37846 4480 24021 24097 42470 42470 0.12490883699501865 WLRYIQNRLQK 11 Unmodified _WLRYIQNRLQK_ 0 0 0 nc|ENSG00000166391|Q3SYC2-2|MOGAT2;ENSG00000166391|ENST00000198801|MOGAT2 nc|ENSG00000166391|Q3SYC2-2|MOGAT2 nc|ENSG00000166391|Q3SYC2-2|MOGAT2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 759.438609 1516.86267 3.6076 0.0027397 -0.63658 -0.00048344 2.971 0.0022563 759.4378729276189 52.415 0.19601 52.415 52.331 52.527 0 0.078194 0.00064339 NaN 1.3295 22 14 2 NaN NaN NaN NaN 0 NaN NaN 0 1658100 37847 4480 24021 24097 0.12490883699501865 WLSLLWRRRRR 11 Unmodified _WLSLLWRRRRR_ 0 0 0 REV__ENST00000531211.1_1_8:70772071-70772629:-|nuORF REV__ENST00000531211.1_1_8:70772071-70772629:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 799.488525390625 2 799.48676 1596.95897 NaN NaN NaN NaN NaN NaN NaN 53.924 1 54.189 53.689 54.689 0.26462 0 0 0 1.008 1 24659 24659 0.30703 0.03801 1 + 37848 17139 24022 24098 42471 42471 0.1843649605009432 WLTRRRERHYV 11 Unmodified _WLTRRRERHYV_ 0 0 0 REV__ENST00000261070.6_1_3:119394038-119396089:-|nuORF REV__ENST00000261070.6_1_3:119394038-119396089:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.6273193359375 3 524.627047 1570.85931 NaN NaN NaN NaN NaN NaN NaN 94.494 1 94.494 93.994 94.994 0 0 0 0 1.0073 1 50703 50703 0.40827 0 1 + 37849 14958 24023 24099 42472 42472 0.09671633645507427 WLVLFMFFFLI 11 Unmodified _WLVLFMFFFLI_ 0 0 0 ENST00000295754.9_1_3:30735309-30735375:+|nuORF ENST00000295754.9_1_3:30735309-30735375:+|nuORF ENST00000295754.9_1_3:30735309-30735375:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.5643615722656 3 492.610172 1474.80869 NaN NaN NaN NaN NaN NaN NaN 68.594 1 69.297 68.797 69.797 0.70218 0 0 0 1.0071 1 32716 32716 1.4551 0.12547 1 37850 6761 24024 24100 42473 42473 0.0902757522360389 WLVRVRTRPLR 11 Unmodified _WLVRVRTRPLR_ 0 0 0 REV__ENST00000374301.7_1_1:26146807-26150235:+|nuORF REV__ENST00000374301.7_1_1:26146807-26150235:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.7333068847656 4 363.732206 1450.89972 2.7611 0.0010043 0.74428 0.00027072 3.5054 0.001275 363.73247841935375 40.359 0.43481 40.628 40.324 40.759 0.26904 26 15 2 0 0 0 0.91345 1 18351 18351 0.45452 0 1 1061600 + 37851 15782 24025 24101 42474 42474 0.19230600035916723 WLVRVRTRPLR 11 Unmodified _WLVRVRTRPLR_ 0 0 0 REV__ENST00000374301.7_1_1:26146807-26150235:+|nuORF REV__ENST00000374301.7_1_1:26146807-26150235:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 363.732206 1450.89972 2.7938 0.0010162 0.32641 0.00011873 3.1202 0.0011349 363.73231582185286 39.877 0.33619 40.519 40.328 40.664 0.64136 -0.0546 -0.00044316 NaN 0.45452 16 13 2 NaN NaN NaN NaN 0 NaN NaN 0 716800 + 37852 15782 24025 24101 0.19230600035916723 WLVSRRRRRLR 11 Unmodified _WLVSRRRRRLR_ 0 0 0 REV__ENST00000426250.3_1_12:72665645-72666709:-|nuORF REV__ENST00000426250.3_1_12:72665645-72666709:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 777.4915771484375 2 777.489834 1552.96511 NaN NaN NaN NaN NaN NaN NaN 46.196 1 47.026 46.526 47.526 0.82915 0 0 0 1.0082 1 21041 21041 0 0 1 + 37853 16214 24026 24102 42475 42475 0.2107501428163232 WLVSRRRRRLR 11 Unmodified _WLVSRRRRRLR_ 0 0 0 REV__ENST00000426250.3_1_12:72665645-72666709:-|nuORF REV__ENST00000426250.3_1_12:72665645-72666709:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 777.4904174804688 2 777.489834 1552.96511 NaN NaN NaN NaN NaN NaN NaN 55.811 1 56.598 56.098 57.098 0.78711 0 0 0 1.0082 1 25492 25492 0 0 1 + 37854 16214 24026 24102 42476 42476 0.2107501428163232 WLVVLVRLPI 10 Unmodified _WLVVLVRLPI_ 0 0 0 REV__ENSG00000205808|ENST00000381883|PLPP6 REV__ENSG00000205808|ENST00000381883|PLPP6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 403.2707824707031 3 403.269027 1206.78525 3.0096 0.0012137 1.3131 0.00052952 4.3227 0.0017432 403.26951196368464 57.06 0.32144 57.728 57.578 57.899 0.66829 29 14 3 0 0 0 0.94099 2 26112 26112;26170 0.69767 0 1 1687100 + 37855 14467 24027 24103 42477;42478 42477 0.19012897501283987 WLVWLLRPL 9 Unmodified _WLVWLLRPL_ 0 0 0 REV__ENST00000292431.4_1_19:13250289-13250439:+|nuORF REV__ENST00000292431.4_1_19:13250289-13250439:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 399.2519226074219 3 399.249855 1194.72774 NaN NaN NaN NaN NaN NaN NaN 10.908 1 11.215 10.715 11.715 0.30727 0 0 0 0.91342 1 4946 4946 0.26902 0 1 + 37856 15132 24028 24104 42479 42479 0.13816055295728802 WLVYLYYQRRR 11 Unmodified _WLVYLYYQRRR_ 0 0 0 nc|ENSG00000107897|Q5T8D3-4|ACBD5;nc|ENSG00000107897|Q5T8D3-2|ACBD5;ENSG00000107897|ENST00000396271|ACBD5;nc|ENSG00000107897|Q5T8D3|ACBD5 nc|ENSG00000107897|Q5T8D3-4|ACBD5 nc|ENSG00000107897|Q5T8D3-4|ACBD5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 808.4461669921875 2 808.446434 1614.87832 NaN NaN NaN NaN NaN NaN NaN 71.03 1 71.734 71.234 72.234 0.70386 0 0 0 1.0082 1 34084 34084 0 0 1 37857 1614 24029 24105 42480 42480 0.095471702165014 WLWEEDKNLRS 11 Unmodified _WLWEEDKNLRS_ 0 0 0 ENSG00000147601|ENST00000276603|TERF1;nc|ENSG00000147601|P54274-2|TERF1;ENST00000518961.1_1_8:73944214-73958369:+|nuORF ENSG00000147601|ENST00000276603|TERF1 ENSG00000147601|ENST00000276603|TERF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 738.3682250976562 2 738.367515 1474.72048 NaN NaN NaN NaN NaN NaN NaN 62.201 1 62.861 62.361 63.361 0.66008 0 0 0 1.0079 1 28501 28501 1.1933 0.79263 1 37858 3575 24030 24106 42481 42481 0.0021062616667677503 WLWFQKSKTKI 11 Unmodified _WLWFQKSKTKI_ 0 0 0 ENST00000518095.5_1_5:162939099-162939147:+|nuORF ENST00000518095.5_1_5:162939099-162939147:+|nuORF ENST00000518095.5_1_5:162939099-162939147:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 732.9232788085938 2 732.921729 1463.82891 NaN NaN NaN NaN NaN NaN NaN 30.976 1 31.765 31.265 32.265 0.78879 0 0 0 1.008 1 13993 13993 0.30703 0 1 37859 8605 24031 24107 42482 42482 0.11554462207732286 WLWRKWLIQYF 11 Unmodified _WLWRKWLIQYF_ 0 0 0 ENST00000356721.3_1_16:48396017-48396254:-|nuORF ENST00000356721.3_1_16:48396017-48396254:-|nuORF ENST00000356721.3_1_16:48396017-48396254:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 819.9506225585938 2 819.950821 1637.88709 NaN NaN NaN NaN NaN NaN NaN 74.398 1 75.084 74.584 75.584 0.68662 0 0 0 1.0082 1 35958 35958 0 0 1 37860 7161 24032 24108 42483 42483 0.09366143853026188 WLWTGRRPGIL 11 Unmodified _WLWTGRRPGIL_ 0 0 0 ENST00000343823.10_2_8:37986318-37986411:+|nuORF ENST00000343823.10_2_8:37986318-37986411:+|nuORF ENST00000343823.10_2_8:37986318-37986411:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 452.26397705078125 3 452.262935 1353.76697 2.964 0.0013405 0.038108 1.7235E-05 3.0021 0.0013577 452.59731746667427 61.267 0.68795 61.93 61.599 62.287 0.66261 103 35 3 0 0 0 0.91104 1 28008 28008 1.2148 0 1 5498300 37861 7096 24033 24109 42484 42484 0.10424155579289618 WLWWQPWWWWK 11 Unmodified _WLWWQPWWWWK_ 0 0 0 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 894.4349365234375 2 894.435338 1786.85612 NaN NaN NaN NaN NaN NaN NaN 50.245 1 50.507 50.007 51.007 0.26146 0 0 0 1.0082 1 22962 22962 0 0 1 37862 141 24034 24110 42485 42485 -0.005830094612292669 WLWWQPWWWWK 11 Unmodified _WLWWQPWWWWK_ 0 0 0 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 894.4336547851562 2 894.435338 1786.85612 NaN NaN NaN NaN NaN NaN NaN 47.043 1 47.695 47.195 48.195 0.65219 0 0 0 1.0082 1 21547 21547 0 0 1 37863 141 24034 24110 42486 42486 -0.005830094612292669 WLWYWMRFVP 10 Unmodified _WLWYWMRFVP_ 0 0 0 REV__ENST00000308511.8_1_8:22477609-22477870:+|nuORF REV__ENST00000308511.8_1_8:22477609-22477870:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 742.424560546875 2 742.370818 1482.72708 NaN NaN NaN NaN NaN NaN NaN 91.255 1 91.255 90.755 91.755 0 0 0 0 1.0015 1 48150 48150 0.45834 0.10771 1 + 37864 15244 24035 24111 42487 42487 0.005028925843134857 WLYKFAKIL 9 Unmodified _WLYKFAKIL_ 0 0 0 L1ME1_dup14741|chr8:25510836-25512219:-|2.9818739937270897|0.2188578600898351|3.77|540.0|44|2|sense L1ME1_dup14741|chr8:25510836-25512219:-|2.9818739937270897|0.2188578600898351|3.77|540.0|44|2|sense L1ME1_dup14741|chr8:25510836-25512219:-|2.9818739937270897|0.2188578600898351|3.77|540.0|44|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.8703002929688 2 591.357702 1180.70085 NaN NaN NaN NaN NaN NaN NaN 102.96 1 103.56 103.06 104.06 0.59785 0 0 0 0.91238 1 47646 47646 0.52476 0 1 37865 9449 24036 24112 42488 42488 0.11772946684527597 WMFWSRYLLQR 11 Unmodified _WMFWSRYLLQR_ 0 0 0 REV__ENST00000382162.7_1_22:31904270-32000328:+|nuORF REV__ENST00000382162.7_1_22:31904270-32000328:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 793.4947509765625 2 793.408463 1584.80237 NaN NaN NaN NaN NaN NaN NaN 97.902 1 97.973 97.473 98.473 0.070648 0 0 0 1.008 1 52480 52480 0.30703 0.03801 1 + 37866 14319 24037 24113 42489 42489 0.03336450044776029 WMILEIWP 8 Unmodified _WMILEIWP_ 0 0 0 ENST00000472200.1_1_3:136538478-136538589:+|nuORF ENST00000472200.1_1_3:136538478-136538589:+|nuORF ENST00000472200.1_1_3:136538478-136538589:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.28857421875 2 544.285889 1086.55722 NaN NaN NaN NaN NaN NaN NaN 104.99 1 104.99 104.49 105.49 0 0 0 0 0.99035 1 57723 57723 0.69038 0.088878 1 37867 8186 24038 24114 42490 42490 0.017407765819143606 WMKRRRRN 8 Unmodified _WMKRRRRN_ 0 0 0 ENST00000264447.8_1_2:71650545-71650620:+|nuORF ENST00000264447.8_1_2:71650545-71650620:+|nuORF ENST00000264447.8_1_2:71650545-71650620:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 601.8441162109375 2 601.843625 1201.6727 NaN NaN NaN NaN NaN NaN NaN 37.991 1 38.625 38.125 39.125 0.63388 0 0 0 0.99035 1 17377 17377 2.3027 0.65011 1 37868 6605 24039 24115 42491 42491 0.07992738276152522 WMKWRRPWTM 10 Unmodified _WMKWRRPWTM_ 0 0 0 REV__ENST00000420660.5_1_2:219134176-219134257:-|nuORF REV__ENST00000420660.5_1_2:219134176-219134257:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 739.37841796875 2 739.370827 1476.7271 3.8829 0.0028709 2.9454 0.0021777 6.8283 0.0050486 739.3725668318347 28.027 0.16747 28.646 28.538 28.705 0.61947 14 10 2 0 0 0 0.94246 1 12872 12872 0.40072 0.050084 1 135780 + 37869 16170 24040 24116 42492 42492 0.007805693126783808 WMLRVKWLYH 10 Unmodified _WMLRVKWLYH_ 0 0 0 ENSG00000112159|ENST00000369393|MDN1;MDN1|p.L3673Pfs*5|1|0.33|ENSG00000112159|chr6:89689875-89689876|-/G|frameshift_variant ENSG00000112159|ENST00000369393|MDN1 ENSG00000112159|ENST00000369393|MDN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 716.3894653320312 2 716.389542 1430.76453 NaN NaN NaN NaN NaN NaN NaN 47.037 1 47.689 47.189 48.189 0.65219 0 0 0 1.0015 1 21544 21544 0.45834 0 1 37870 1795 24041 24117 42493 42493 0.06637983849964257 WMPMFQRRRRR 11 Unmodified _WMPMFQRRRRR_ 0 0 0 ENSG00000105697|ENST00000222304|HAMP ENSG00000105697|ENST00000222304|HAMP ENSG00000105697|ENST00000222304|HAMP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.6261596679688 3 540.625996 1618.85616 NaN NaN NaN NaN NaN NaN NaN 64.794 1 64.794 64.294 65.294 0 0 0 0 1.0082 1 30768 30768 0 0 1 37871 1521 24042 24118 42494 42494 0.07148343995459072 WMQLYTLKQI 10 Unmodified _WMQLYTLKQI_ 0 0 0 ENST00000378119.8_1_6:24705648-24705762:-|nuORF ENST00000378119.8_1_6:24705648-24705762:-|nuORF ENST00000378119.8_1_6:24705648-24705762:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 662.3594970703125 2 662.360116 1322.70568 NaN NaN NaN NaN NaN NaN NaN 65.645 1 66.354 65.854 66.854 0.70891 0 0 0 0.74241 1 31063 31063 24.021 1.2843 1 37872 7427 24043 24119 42495 42495 0.05723462764967735 WNAKRKRQMKR 11 Unmodified _WNAKRKRQMKR_ 0 0 0 REV__YLPM1|p.D2015Vfs*40|1|0.15|ENSG00000119596|chr14:74821070-74821070|A/-|frameshift_variant REV__YLPM1|p.D2015Vfs*40|1|0.15|ENSG00000119596|chr14:74821070-74821070|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 751.4339599609375 2 751.435878 1500.8572 NaN NaN NaN NaN NaN NaN NaN 88.757 1 88.809 88.309 89.309 0.052155 0 0 0 1.008 1 45313 45313 0.30703 0.03801 1 + 37873 18249 24044 24120 42496 42496 0.1268088163601533 WNEKDSRL 8 Unmodified _WNEKDSRL_ 0 0 0 REV__nc|ENSG00000107201|O95786-2|RIGI REV__nc|ENSG00000107201|O95786-2|RIGI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.5231628417969 3 349.845446 1046.51451 1.8388 0.00064329 0.44599 0.00015603 2.2848 0.00079932 349.84567260660367 12.698 0.18243 13.005 12.909 13.091 0.30727 22 5 6 0 0 0 0.70146 1 5716 5716 3.9444 0.94915 1 22554000 + 37874 11110 24045 24121 42497 42497 -0.0068890222196387185 WNFTFWFNLY 10 Unmodified _WNFTFWFNLY_ 0 0 0 ENST00000371142.8_1_10:98290302-98292852:-|nuORF ENST00000371142.8_1_10:98290302-98292852:-|nuORF ENST00000371142.8_1_10:98290302-98292852:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 719.3348388671875 2 719.334956 1436.65536 NaN NaN NaN NaN NaN NaN NaN 47.992 1 47.992 47.492 48.492 0 0 0 0 1.0015 1 21978 21978 0.40072 0 1 37875 7314 24046 24122 42498 42498 -0.04550323568514614 WNKKFRRMQLR 11 Unmodified _WNKKFRRMQLR_ 0 0 0 REV__ENSG00000173769|ENST00000309765|TOPAZ1 REV__ENSG00000173769|ENST00000309765|TOPAZ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 781.9490356445312 2 781.946079 1561.8776 NaN NaN NaN NaN NaN NaN NaN 69.983 1 70.644 70.144 71.144 0.66071 0 0 0 1.008 1 32087 32087 0.30703 0.30703 1 + 37876 13611 24047 24123 42499 42499 0.11914052295833244 WNKLPKKVDL 10 Unmodified _WNKLPKKVDL_ 0 0 0 MLT1C_dup7288|chr6:131736743-131737190:-|1.43621843691644|0.1279140187827138|3.49|514.0|16|1|anti-sense;chr6:131736936-131737355|160|27.81|0.01|12.05|+|1|TE_info:MLT1C,MLT1C_dup7288,ERVL-MaLR,LTR,donor,-,131736743,131736936|None,ENPP3|2;chr6:131736839-131737355|235|13.6|0.02|9.39|+|2|TE_info:MLT1C,MLT1C_dup7288,ERVL-MaLR,LTR,donor,-,131736743,131736839|None,ENPP3|2 MLT1C_dup7288|chr6:131736743-131737190:-|1.43621843691644|0.1279140187827138|3.49|514.0|16|1|anti-sense MLT1C_dup7288|chr6:131736743-131737190:-|1.43621843691644|0.1279140187827138|3.49|514.0|16|1|anti-sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 311.1131896972656 4 310.940762 1239.73394 2.0905 0.00065002 3.1159 0.00096885 5.2063 0.0016189 311.19281601043673 52.987 0.31022 53.791 53.573 53.883 0.80351 26 21 2 0 0 0 0.12676 1 24172 24172 0 0 1 1360300 37877 181 24048 24124 42500 42500 0.12366528736561122 WNKRPMNWW 9 Unmodified _WNKRPMNWW_ 0 0 0 REV__ENST00000519559.1_1_8:52752187-52758305:-|nuORF REV__ENST00000519559.1_1_8:52752187-52758305:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 659.3211059570312 2 659.319117 1316.62368 NaN NaN NaN NaN NaN NaN NaN 64.228 1 64.476 63.976 64.976 0.24803 0 0 0 0.91238 1 29416 29416 0.52476 0.066424 1 + 37878 17037 24049 24125 42501 42501 -0.02196594803467633 WNLLLKAI 8 Unmodified _WNLLLKAI_ 0 0 0 ENSG00000119041|ENST00000263956|GTF3C3 ENSG00000119041|ENST00000263956|GTF3C3 ENSG00000119041|ENST00000263956|GTF3C3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.80804443359375 2 485.807845 969.601138 NaN NaN NaN NaN NaN NaN NaN 14.411 1 14.718 14.218 15.218 0.3069 0 0 0 0.99035 1 6521 6521 2.8892 0 1 37879 2132 24050 24126 42502 42502 0.11512129070570154 WNPRRWWRWCW 11 Unmodified _WNPRRWWRWCW_ 0 0 0 ENST00000564348.5_1_19:7982609-7983760:+|nuORF;ENST00000566166.1_1_19:7982552-7983971:+|nuORF ENST00000564348.5_1_19:7982609-7983760:+|nuORF ENST00000564348.5_1_19:7982609-7983760:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 577.9479370117188 3 577.945723 1730.81534 NaN NaN NaN NaN NaN NaN NaN 66.987 1 67.692 67.192 68.192 0.7047 0 0 0 1.0082 1 31791 31791 0 0 1 37880 9028 24051 24127 42503 42503 -0.0208367405248282 WNRFYFRIRFY 11 Unmodified _WNRFYFRIRFY_ 0 0 0 REV__ENSG00000105397|ENST00000525621|TYK2 REV__ENSG00000105397|ENST00000525621|TYK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 834.4329223632812 2 834.433327 1666.8521 NaN NaN NaN NaN NaN NaN NaN 95.122 1 95.204 94.704 95.704 0.082001 0 0 0 1.0082 1 50209 50209 0 0 1 + 37881 11031 24052 24128 42504 42504 0.0453490104505363 WNRIQRRYFRF 11 Unmodified _WNRIQRRYFRF_ 0 0 0 ENST00000487362.1_1_20:36640605-36642218:-|nuORF;TTI1|p.L924Wfs*37|1|0.23|ENSG00000101407|chr20:37999211-37999211|G/-|frameshift_variant;ENSG00000101407|ENST00000373447|TTI1 ENST00000487362.1_1_20:36640605-36642218:-|nuORF ENST00000487362.1_1_20:36640605-36642218:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 821.4463500976562 2 821.4473 1640.88005 NaN NaN NaN NaN NaN NaN NaN 105.15 1 105.47 104.97 105.97 0.31782 0 0 0 1.0082 1 48538 48538 0 0 1 37882 1291 24053 24129 42505 42505 0.08524224025131844 WNRKLARLKRL 11 Unmodified _WNRKLARLKRL_ 0 0 0 ENSG00000166268|ENST00000552032|MYRFL ENSG00000166268|ENST00000552032|MYRFL ENSG00000166268|ENST00000552032|MYRFL MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 727.4658813476562 2 727.464961 1452.91537 NaN NaN NaN NaN NaN NaN NaN 38.714 1 39.351 38.851 39.851 0.63778 0 0 0 1.0082 1 17701 17701 0.30703 0 1 37883 4468 24054 24130 42506 42506 0.20702886552953714 WNRLWRWRHQE 11 Unmodified _WNRLWRWRHQE_ 0 0 0 nc|ENSG00000198089|A8K8P3-2|SFI1;ENSG00000198089|ENST00000400288|SFI1;nc|ENSG00000198089|A8K8P3-4|SFI1;nc|ENSG00000198089|A8K8P3-10|SFI1;nc|ENSG00000198089|A8K8P3-3|SFI1;nc|ENSG00000198089|A8K8P3-9|SFI1;ENST00000382162.7_1_22:31904270-32000328:+|nuORF;nc|ENSG00000198089|A8K8P3-5|SFI1 nc|ENSG00000198089|A8K8P3-2|SFI1 nc|ENSG00000198089|A8K8P3-2|SFI1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 833.9271240234375 2 833.926732 1665.83891 NaN NaN NaN NaN NaN NaN NaN 82.103 1 82.35 81.85 82.85 0.24722 0 0 0 1.0082 1 37791 37791 0 0 1 37884 5867 24055 24131 42507 42507 0.03262462985685488 WNRRRQRKTRD 11 Unmodified _WNRRRQRKTRD_ 0 0 0 REV__ENSG00000169251|ENST00000351193|NMD3 REV__ENSG00000169251|ENST00000351193|NMD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 524.6295166015625 3 524.629451 1570.86652 NaN NaN NaN NaN NaN NaN NaN 85.192 1 85.44 84.94 85.94 0.24857 0 0 0 1.0082 1 39205 39205 0.08335 0.08335 1 + 37885 13386 24056 24132 42508 42508 0.1039236624590103 WNTVSNLIM 9 Unmodified _WNTVSNLIM_ 0 0 0 ACER3|p.V258Dfs*8|1|0.05|ENSG00000078124|chr11:77020295-77020296|-/ATATCAGAGAGTATTTTTAT|frameshift_variant;ENSG00000078124|ENST00000532485|ACER3;ACER3|p.I259Sfs*10|1|0.03|ENSG00000078124|chr11:77020297-77020298|-/AGTTTATTTAAATTTATTA|frameshift_variant ACER3|p.V258Dfs*8|1|0.05|ENSG00000078124|chr11:77020295-77020296|-/ATATCAGAGAGTATTTTTAT|frameshift_variant ACER3|p.V258Dfs*8|1|0.05|ENSG00000078124|chr11:77020295-77020296|-/ATATCAGAGAGTATTTTTAT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 359.8521728515625 3 359.851432 1076.53247 NaN NaN NaN NaN NaN NaN NaN 13.377 1 14.02 13.52 14.52 0.64272 0 0 0 0.89509 1 6009 6009 2.7352 0 1 37886 6 24057 24133 42509 42509 -0.002739032914632844 WNWFRFKRYFF 11 Unmodified _WNWFRFKRYFF_ 0 0 0 REV__ENST00000327827.11_1_16:9212523-9212682:+|nuORF REV__ENST00000327827.11_1_16:9212523-9212682:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 848.9291381835938 2 848.93042 1695.84629 NaN NaN NaN NaN NaN NaN NaN 89.823 1 89.887 89.387 90.387 0.064346 0 0 0 1.0082 1 46122 46122 0 0 1 + 37887 15359 24058 24134 42510 42510 0.026198025333769692 WPAGRLKGRK 10 Unmodified _WPAGRLKGRK_ 0 0 0 ENST00000441363.1_1_6:74009094-74009619:+|nuORF ENST00000441363.1_1_6:74009094-74009619:+|nuORF ENST00000441363.1_1_6:74009094-74009619:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.8564453125 2 584.856724 1167.69889 NaN NaN NaN NaN NaN NaN NaN 2.2202 1 2.6066 2.1066 3.1066 0.38641 0 0 0 1.002 1 1009 1009 0 0 1 37888 7933 24059 24135 42511 42511 0.12175330719242083 WPCPHWTL 8 Unmodified _WPCPHWTL_ 0 0 0 ENST00000478641.5_1_1:1249679-1249832:-|nuORF ENST00000478641.5_1_1:1249679-1249832:-|nuORF ENST00000478641.5_1_1:1249679-1249832:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.2484130859375 2 520.244555 1038.47456 3.431 0.001785 1.5689 0.00081619 4.9999 0.0026012 520.2458873352147 60.335 0.29638 60.591 60.399 60.696 0.25578 22 14 2 0 0 0 0.40037 1 27627 27627 28.173 28.173 1 865530 37889 8255 24060 24136 42512 42512 -0.043141204262383326 WPCPHWTL 8 Unmodified _WPCPHWTL_ 0 0 0 ENST00000478641.5_1_1:1249679-1249832:-|nuORF ENST00000478641.5_1_1:1249679-1249832:-|nuORF ENST00000478641.5_1_1:1249679-1249832:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.2478637695312 2 520.244555 1038.47456 3.3893 0.0017633 2.0441 0.0010634 5.4333 0.0028267 520.2458131619179 59.738 0.32024 60.403 60.251 60.571 0.66503 23 15 2 0 0 0 0.40037 1 27339 27339 28.173 28.173 1 795060 37890 8255 24060 24136 42513 42513 -0.043141204262383326 WPCPHWTL 8 Unmodified _WPCPHWTL_ 0 0 0 ENST00000478641.5_1_1:1249679-1249832:-|nuORF ENST00000478641.5_1_1:1249679-1249832:-|nuORF ENST00000478641.5_1_1:1249679-1249832:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 520.244555 1038.47456 3.111 0.0016185 2.1586 0.001123 5.2696 0.0027415 520.2456870690544 59.499 0.29821 60.248 60.044 60.342 0.74927 -0.16593 0.000127 NaN 28.173 51 22 3 NaN NaN NaN NaN 0 NaN NaN 0 1101400 37891 8255 24060 24136 -0.043141204262383326 WPDDKVHKL 9 Unmodified _WPDDKVHKL_ 0 0 0 nc|ENSG00000292339|O95671-3|ASMTL;nc|ENSG00000292339|O95671-2|ASMTL;ENSG00000169093|ENST00000381317|ASMTL nc|ENSG00000292339|O95671-3|ASMTL nc|ENSG00000292339|O95671-3|ASMTL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.87408447265625 3 379.873224 1136.59784 2.8831 0.0010952 -0.21593 -8.2026E-05 2.6672 0.0010132 379.8732005118237 26.608 0.46991 26.608 26.446 26.916 0 93 37 3 0 0 0 0.1776 2 11978 11935;11978 24.882 9.1082 1 1269400 37892 4671 24061 24137 42514;42515 42515 0.035008342259061465 WPDDKVHKL 9 Unmodified _WPDDKVHKL_ 0 0 0 nc|ENSG00000292339|O95671-3|ASMTL;nc|ENSG00000292339|O95671-2|ASMTL;ENSG00000169093|ENST00000381317|ASMTL nc|ENSG00000292339|O95671-3|ASMTL nc|ENSG00000292339|O95671-3|ASMTL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.8741455078125 3 379.873224 1136.59784 2.3176 0.0008804 0.29515 0.00011212 2.6128 0.00099252 379.87331731342573 25.518 0.5991 26.281 26.107 26.706 0.76356 111 43 3 0 0 0 0.22744 3 11455 11407;11455;11509 21.59 10.691 1 1057700 37893 4671 24061 24137 42516;42517;42518 42517 0.035008342259061465 WPDDKVHKL 9 Unmodified _WPDDKVHKL_ 0 0 0 nc|ENSG00000292339|O95671-3|ASMTL;nc|ENSG00000292339|O95671-2|ASMTL;ENSG00000169093|ENST00000381317|ASMTL nc|ENSG00000292339|O95671-3|ASMTL nc|ENSG00000292339|O95671-3|ASMTL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.30859375 2 569.306198 1136.59784 NaN NaN NaN NaN NaN NaN NaN 25.606 1 26.37 25.87 26.87 0.76356 0 0 0 0.90096 1 11495 11495 5.2969 2.9942 1 37894 4671 24061 24137 42519 42519 0.035008342259061465 WPDDKVHKL 9 Unmodified _WPDDKVHKL_ 0 0 0 nc|ENSG00000292339|O95671-3|ASMTL;nc|ENSG00000292339|O95671-2|ASMTL;ENSG00000169093|ENST00000381317|ASMTL nc|ENSG00000292339|O95671-3|ASMTL nc|ENSG00000292339|O95671-3|ASMTL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 379.8742980957031 3 379.873224 1136.59784 2.8048 0.0010655 0.27112 0.00010299 3.0759 0.0011685 379.873286543147 26.559 0.51155 26.824 26.608 27.119 0.26489 78 35 3 0 0 0 0.22744 2 12046 12046;12094 21.59 14.96 1 475070 37895 4671 24061 24137 42520;42521 42520 0.035008342259061465 WPDDKVHKL 9 Unmodified _WPDDKVHKL_ 0 0 0 nc|ENSG00000292339|O95671-3|ASMTL;nc|ENSG00000292339|O95671-2|ASMTL;ENSG00000169093|ENST00000381317|ASMTL nc|ENSG00000292339|O95671-3|ASMTL nc|ENSG00000292339|O95671-3|ASMTL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.8742980957031 3 379.873224 1136.59784 2.6272 0.000998 0.69308 0.00026328 3.3203 0.0012613 379.8734584054655 26.141 0.55051 26.766 26.58 27.131 0.62505 71 33 3 0 0 0 0.59333 2 11986 11986;12052 10.899 2.4547 1 492940 37896 4671 24061 24137 42522;42523 42522 0.035008342259061465 WPDDKVHKL 9 Unmodified _WPDDKVHKL_ 0 0 0 nc|ENSG00000292339|O95671-3|ASMTL;nc|ENSG00000292339|O95671-2|ASMTL;ENSG00000169093|ENST00000381317|ASMTL nc|ENSG00000292339|O95671-3|ASMTL nc|ENSG00000292339|O95671-3|ASMTL MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 379.873224 1136.59784 2.8268 0.0010738 -0.45322 -0.00017217 2.3735 0.00090165 380.2068172187698 26.335 0.042667 26.6 26.565 26.608 0.26489 0.10358 -0.00056543 NaN 24.882 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 122590 37897 4671 24061 24137 0.035008342259061465 WPDLHTPAL 9 Unmodified _WPDLHTPAL_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1;nc|ENSG00000079308|Q9HBL0-2|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.2771606445312 2 525.274367 1048.53418 NaN NaN NaN NaN NaN NaN NaN 69.125 1 69.379 68.879 69.879 0.25443 0 0 0 0.036939 1 31665 31665 57.471 34.735 1 37898 892 24062 24138 42524 42524 0.011854737887688316 WPDLHTPAL 9 Unmodified _WPDLHTPAL_ 0 0 0 nc|ENSG00000079308|Q9HBL0-1|TNS1;ENSG00000079308|ENST00000682258|TNS1;nc|ENSG00000079308|Q9HBL0-2|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 nc|ENSG00000079308|Q9HBL0-1|TNS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.2765502929688 2 525.274367 1048.53418 NaN NaN NaN NaN NaN NaN NaN 69.269 1 69.524 69.024 70.024 0.25443 0 0 0 0.3934 1 31724 31724 23.148 5.0134 1 37899 892 24062 24138 42525 42525 0.011854737887688316 WPEDSEDSL 9 Unmodified _WPEDSEDSL_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.7255249023438 2 539.222194 1076.42983 3.3274 0.0017942 0.3687 0.00019881 3.6961 0.001993 539.2223991578302 55.055 0.53146 55.055 54.678 55.21 0 81 54 2 0 0 0 0.59776 1 25274 25274 10.824 5.5933 1 1952500 37900 4495 24063 24139 42526 42526 -0.10532317549245818 WPEDSEDSL 9 Unmodified _WPEDSEDSL_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.2224731445312 2 539.222194 1076.42983 NaN NaN NaN NaN NaN NaN NaN 54.297 1 54.297 53.797 54.797 0 0 0 0 0.07684 1 24904 24904 46.021 15.384 1 37901 4495 24063 24139 42527 42527 -0.10532317549245818 WPEDSEDSL 9 Unmodified _WPEDSEDSL_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.2245483398438 2 539.222194 1076.42983 2.8976 0.0015624 0.039291 2.1187E-05 2.9369 0.0015836 539.2221690532507 53.526 0.20409 54.33 54.142 54.346 0.80351 31 19 2 0 0 0 0.015468 1 24406 24406 74.423 43.786 1 1821700 37902 4495 24063 24139 42528 42528 -0.10532317549245818 WPEDSEDSL 9 Unmodified _WPEDSEDSL_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.2236938476562 2 539.222194 1076.42983 2.8153 0.0015181 0.50469 0.00027214 3.32 0.0017902 539.2223236759348 53.669 1.1514 54.473 54.417 55.569 0.80351 133 67 3 0 0 0 0.0080831 8 24489 24489;24543;24595;24638;24690;24743;24788;24831 85.357 56.87 1 1977900 37903 4495 24063 24139 42529;42530;42531;42532;42533;42534;42535;42536 42529 -0.10532317549245818 WPEDSEDSL 9 Unmodified _WPEDSEDSL_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1077.4447021484375 1 1077.43711 1076.42983 3.2486 0.0035001 -0.49312 -0.0005313 2.7555 0.0029688 1077.4371705008089 53.755 0.82805 54.559 54.456 55.285 0.8035 61 44 2 0 0 0 0.10169 7 24567 24512;24567;24616;24663;24714;24765;24841 32.305 22.122 1 479310 37904 4495 24063 24139 42537;42538;42539;42540;42541;42542;42543 42538 -0.10532317549245818 WPEDSEDSL 9 Unmodified _WPEDSEDSL_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.2232666015625 2 539.222194 1076.42983 2.9741 0.0016037 0.39647 0.00021379 3.3706 0.0018175 539.2223773346867 54.598 0.93034 54.864 54.017 54.947 0.26543 84 42 3 0 0 0 0.0080831 5 24832 24714;24780;24832;24881;24935 85.357 56.87 1 1287300 37905 4495 24063 24139 42544;42545;42546;42547;42548 42546 -0.10532317549245818 WPEDSEDSL 9 Unmodified _WPEDSEDSL_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.2239379882812 2 539.222194 1076.42983 NaN NaN NaN NaN NaN NaN NaN 54.847 1 55.112 54.612 55.612 0.26543 0 0 0 0.0094088 1 25071 25071 85.357 39.336 1 37906 4495 24063 24139 42549 42549 -0.10532317549245818 WPEDSEDSL 9 Unmodified _WPEDSEDSL_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.2237548828125 2 539.222194 1076.42983 NaN NaN NaN NaN NaN NaN NaN 55.015 1 55.281 54.781 55.781 0.26543 0 0 0 0.019349 1 25149 25149 74.423 28.723 1 37907 4495 24063 24139 42550 42550 -0.10532317549245818 WPEDSEDSL 9 Unmodified _WPEDSEDSL_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.2239990234375 2 539.222194 1076.42983 3.1626 0.0017053 0.3532 0.00019046 3.5158 0.0018958 539.2222891776113 53.866 0.58278 54.533 53.959 54.542 0.6665 50 28 2 0 0 0 0.0080831 2 24614 24525;24614 85.357 59.015 1 1417400 37908 4495 24063 24139 42551;42552 42552 -0.10532317549245818 WPEDSEDSL 9 Unmodified _WPEDSEDSL_ 0 0 0 ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD ENSG00000166592|ENST00000299759|RRAD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.223876953125 2 539.222194 1076.42983 3.1868 0.0017184 -0.05743 -3.0968E-05 3.1294 0.0016874 539.2220180300119 54.183 0.49401 54.85 54.625 55.119 0.6665 48 29 2 0 0 0 0.015468 3 24797 24731;24797;24902 74.423 36.449 1 1130000 37909 4495 24063 24139 42553;42554;42555 42554 -0.10532317549245818 WPHAWQLL 8 Unmodified _WPHAWQLL_ 0 0 0 REV__ENST00000418785.5_1_7:112407780-112415287:-|nuORF REV__ENST00000418785.5_1_7:112407780-112415287:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.781005859375 2 525.779619 1049.54469 3.0857 0.0016224 -2.6705 -0.0014041 0.41522 0.00021831 525.7782102158135 68.884 0.18335 69.543 69.397 69.58 0.65924 17 12 2 0 0 0 0.59268 1 31541 31541 14.582 2.0501 1 344640 + 37910 16153 24064 24140 42556 42556 0.021895012338973174 WPHEDAAQF 9 Unmodified _WPHEDAAQF_ 0 0 0 ENSG00000135250|ENST00000393651|SRPK2;nc|ENSG00000135250|P78362|SRPK2 ENSG00000135250|ENST00000393651|SRPK2 ENSG00000135250|ENST00000393651|SRPK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.7465209960938 2 550.743431 1099.47231 3.4849 0.0019193 1.2598 0.00069382 4.7446 0.0026131 550.7442921792314 45.82 0.38273 45.82 45.571 45.953 0 34 17 3 0 0 0 0.071101 1 20969 20969 39.957 10.876 1 947560 37911 2858 24065 24141 42557 42557 -0.07344877630362134 WPHEDAAQF 9 Unmodified _WPHEDAAQF_ 0 0 0 ENSG00000135250|ENST00000393651|SRPK2;nc|ENSG00000135250|P78362|SRPK2 ENSG00000135250|ENST00000393651|SRPK2 ENSG00000135250|ENST00000393651|SRPK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 550.74560546875 2 550.743431 1099.47231 3.1701 0.0017459 1.3976 0.00076974 4.5677 0.0025156 550.743847527647 44.652 0.30917 45.473 45.268 45.577 0.82075 34 14 3 0 0 0 0.071101 2 20309 20309;20360 39.957 10.876 1 1741000 37912 2858 24065 24141 42558;42559 42558 -0.07344877630362134 WPHEDAAQF 9 Unmodified _WPHEDAAQF_ 0 0 0 ENSG00000135250|ENST00000393651|SRPK2;nc|ENSG00000135250|P78362|SRPK2 ENSG00000135250|ENST00000393651|SRPK2 ENSG00000135250|ENST00000393651|SRPK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.7462768554688 2 550.743431 1099.47231 3.4871 0.0019205 0.58656 0.00032304 4.0736 0.0022435 550.7438698582642 45.761 0.34649 46.028 45.802 46.148 0.26643 23 13 2 0 0 0 0.10169 2 20899 20890;20899 32.305 15.193 1 916080 37913 2858 24065 24141 42560;42561 42561 -0.07344877630362134 WPHEDAAQF 9 Unmodified _WPHEDAAQF_ 0 0 0 ENSG00000135250|ENST00000393651|SRPK2;nc|ENSG00000135250|P78362|SRPK2 ENSG00000135250|ENST00000393651|SRPK2 ENSG00000135250|ENST00000393651|SRPK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.7454223632812 2 550.743431 1099.47231 3.7361 0.0020576 0.63022 0.00034709 4.3663 0.0024047 550.7438252106264 45.14 0.34369 45.791 45.639 45.982 0.65083 20 12 2 0 0 0 0.052704 1 20668 20668 46.021 25.567 1 875240 37914 2858 24065 24141 42562 42562 -0.07344877630362134 WPHPGSLVTPR 11 Unmodified _WPHPGSLVTPR_ 0 0 0 ENST00000251166.8_1_16:4404662-4404824:-|nuORF ENST00000251166.8_1_16:4404662-4404824:-|nuORF ENST00000251166.8_1_16:4404662-4404824:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 416.2284240722656 3 416.22789 1245.66184 NaN NaN NaN NaN NaN NaN NaN 55.993 1 56.78 56.28 57.28 0.78711 0 0 0 1.0063 1 25584 25584 1.0136 0.38675 1 37915 6502 24066 24142 42563 42563 0.04883614382856649 WPIFPPYRFPL 11 Unmodified _WPIFPPYRFPL_ 0 0 0 REV__nc|ENSG00000100926|O15321-2|TM9SF1 REV__nc|ENSG00000100926|O15321-2|TM9SF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 716.893310546875 2 716.892441 1431.77033 NaN NaN NaN NaN NaN NaN NaN 104.13 1 104.73 104.23 105.23 0.59885 0 0 0 1.008 1 48151 48151 0.35063 0 1 + 37916 17882 24067 24143 42564 42564 0.07171405633243921 WPILSSIERII 11 Unmodified _WPILSSIERII_ 0 0 0 REV__L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|2|1|sense REV__L1PA11_dup3980|chr21:5561002-5564111:-|1.0845136525595764|0.1273465350769654|3.09|530.0|2|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 442.9344177246094 3 442.930851 1325.77072 NaN NaN NaN NaN NaN NaN NaN 105.52 1 106.12 105.62 106.62 0.59969 0 0 0 1.008 1 48730 48730 0.094841 0 1 + 37917 17781 24068 24144 42565 42565 0.12086780562481181 WPKLLAGR 8 Unmodified _WPKLLAGR_ 0 0 0 REV__ENST00000589085.5_1_19:5785216-5787684:-|nuORF REV__ENST00000589085.5_1_19:5785216-5787684:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 314.1969299316406 3 314.19575 939.565421 NaN NaN NaN NaN NaN NaN NaN 34.674 1 35.463 34.963 35.963 0.78921 0 0 0 0.99035 1 15709 15709 0.45834 0 1 + 37918 12311 24069 24145 42566 42566 0.09322091613569228 WPKVCKIIF 9 Unmodified _WPKVCKIIF_ 0 0 0 ENST00000534766.1_1_11:45967557-45971796:-|nuORF ENST00000534766.1_1_11:45967557-45971796:-|nuORF ENST00000534766.1_1_11:45967557-45971796:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3341064453125 2 567.33063 1132.64671 3.6436 0.0020671 -1.0383 -0.00058907 2.6053 0.001478 567.3299142838137 85.817 1.6519 86.066 85.213 86.865 0.24857 189 85 3 0 0 0 0.95612 1 39169 39169 4.756 2.9118 1 2716600 37919 8759 24070 24146 42567 42567 0.08569031261276905 WPLRKIKP 8 Unmodified _WPLRKIKP_ 0 0 0 REV__ENST00000460095.1_1_2:201342446-201342566:+|nuORF REV__ENST00000460095.1_1_2:201342446-201342566:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 346.5595703125 3 346.5588 1036.65457 1.829 0.00063387 0.78432 0.00027181 2.6134 0.00090568 346.55905997764546 75.351 0.30399 76.014 75.867 76.171 0.6635 33 20 3 0 0 0 0.7471 1 36490 36490 0.45834 0 1 1375400 + 37920 16476 24071 24147 42568 42568 0.13770926573056386 WPLRKIKP 8 Unmodified _WPLRKIKP_ 0 0 0 REV__ENST00000460095.1_1_2:201342446-201342566:+|nuORF REV__ENST00000460095.1_1_2:201342446-201342566:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 346.5588 1036.65457 1.829 0.00063387 0.78432 0.00027181 2.6134 0.00090568 346.55905997764546 75.351 0.30399 76.014 75.867 76.171 0.6635 0 0 NaN 0.45834 33 20 3 NaN NaN NaN NaN 0 NaN NaN 0 1375400 + 37921 16476 24071 24147 0.13770926573056386 WPPLLRIKYK 10 Unmodified _WPPLLRIKYK_ 0 0 0 REV__HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|24|1|sense REV__HERVH-int_dup1453|chr3:187468601-187471591:-|3.057933698985842|0.0767631960816437|5.32|534.0|24|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 438.608642578125 3 438.607931 1312.80196 NaN NaN NaN NaN NaN NaN NaN 100.61 1 100.67 100.17 101.17 0.059723 0 0 0 1.0012 1 54604 54604 0.69767 0 1 + 37922 17728 24072 24148 42569 42569 0.15807398387187277 WPQWWLWRYSF 11 Unmodified _WPQWWLWRYSF_ 0 0 0 REV__chr12:54282820-54283827|539|21.2|0.0|21.02|+|1|HNRNPA1,HNRNPA1|1 REV__chr12:54282820-54283827|539|21.2|0.0|21.02|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 827.9004516601562 2 827.901328 1653.7881 NaN NaN NaN NaN NaN NaN NaN 70.751 1 71.007 70.507 71.507 0.25642 0 0 0 1.0082 1 32402 32402 0 0 1 + 37923 10024 24073 24149 42570 42570 -0.012638791118888548 WPRDRLVVLHP 11 Unmodified _WPRDRLVVLHP_ 0 0 0 REV__Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|194|2|anti-sense REV__Harlequin-int_dup238|chr6:111284651-111288187:-|7.344052110360552|0.2813414849289727|4.71|541.0|194|2|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 694.4015502929688 2 694.401496 1386.78844 NaN NaN NaN NaN NaN NaN NaN 51.037 1 51.037 50.537 51.537 0 0 0 0 1.008 1 23369 23369 0.35063 0 1 + 37924 17707 24074 24150 42571 42571 0.11051540607968491 WPRGRRRRRRR 11 Unmodified _WPRGRRRRRRR_ 0 0 0 REV__ENST00000229416.10_1_6:53409415-53409676:-|nuORF REV__ENST00000229416.10_1_6:53409415-53409676:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 804.6402587890625 2 804.493773 1606.97299 NaN NaN NaN NaN NaN NaN NaN 98.635 1 98.635 98.135 99.135 0 0 0 0 1.0082 1 54031 54031 0 0 1 + 37925 14851 24075 24151 42572 42572 0.19378586321727198 WPRKFLIF 8 Unmodified _WPRKFLIF_ 0 0 0 REV__ENSG00000167470|ENST00000682408|MIDN REV__ENSG00000167470|ENST00000682408|MIDN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.8312377929688 2 553.829112 1105.64367 3.6482 0.0020205 0.79049 0.0004378 4.4387 0.0024583 553.8298872609851 83.238 1.3416 83.898 83.123 84.464 0.66019 144 80 2 0 0 0 0.73686 1 38086 38086 2.8892 0 1 2121600 + 37926 13287 24076 24152 42573 42573 0.09507524198784267 WPRQQNYPSGL 11 Unmodified _WPRQQNYPSGL_ 0 0 0 REV__ENST00000506556.1_1_7:40191257-40192144:+|nuORF REV__ENST00000506556.1_1_7:40191257-40192144:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 449.5613098144531 3 449.226438 1344.65748 2.6646 0.001197 -0.070336 -3.1597E-05 2.5943 0.0011654 449.5607622164488 70.275 0.15435 70.937 70.874 71.029 0.66208 14 9 2 0 0 0 0.87362 1 32229 32229 1.4551 0 1 302580 + 37927 16934 24077 24153 42574 42574 -0.0010589483072180883 WPRQQNYPSGL 11 Unmodified _WPRQQNYPSGL_ 0 0 0 REV__ENST00000506556.1_1_7:40191257-40192144:+|nuORF REV__ENST00000506556.1_1_7:40191257-40192144:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 449.226438 1344.65748 2.6158 0.0011751 -0.78284 -0.00035167 1.8329 0.0008234 449.2262277644639 70.828 0.1419 71.085 70.995 71.137 0.25642 0.07379 -0.00049362 NaN 1.4551 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 345460 + 37928 16934 24077 24153 -0.0010589483072180883 WPRQQNYPSGL 11 Unmodified _WPRQQNYPSGL_ 0 0 0 REV__ENST00000506556.1_1_7:40191257-40192144:+|nuORF REV__ENST00000506556.1_1_7:40191257-40192144:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 449.226438 1344.65748 2.6646 0.001197 -0.070336 -3.1597E-05 2.5943 0.0011654 449.5607622164488 70.275 0.15435 70.937 70.874 71.029 0.66208 -0.07379 0.0004666 NaN 1.4551 14 9 2 NaN NaN NaN NaN 0 NaN NaN 0 302580 + 37929 16934 24077 24153 -0.0010589483072180883 WPRQYEWFFMK 11 Unmodified _WPRQYEWFFMK_ 0 0 0 ENSG00000175874|ENST00000324768|CREG2 ENSG00000175874|ENST00000324768|CREG2 ENSG00000175874|ENST00000324768|CREG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 809.536865234375 2 809.387197 1616.75984 NaN NaN NaN NaN NaN NaN NaN 82.089 1 82.173 81.673 82.673 0.084106 0 0 0 1.0082 1 40475 40475 0 0 1 37930 5051 24078 24154 42575 42575 -0.023869450835036332 WPRWFAPPPP 10 Unmodified _WPRWFAPPPP_ 0 0 0 REV__nc|ENSG00000179111|Q9BYE0|HES7 REV__nc|ENSG00000179111|Q9BYE0|HES7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 625.8267822265625 2 625.827101 1249.63965 NaN NaN NaN NaN NaN NaN NaN 89.204 1 89.455 88.955 89.955 0.25118 0 0 0 1.0001 1 41029 41029 1.6526 0.17072 1 + 37931 13783 24079 24155 42576 42576 0.02481434705077845 WPSLFHML 8 Unmodified _WPSLFHML_ 0 0 0 nc|ENSG00000197044|Q8N8Z8-2|ZNF441;ENSG00000197044|ENST00000357901|ZNF441 nc|ENSG00000197044|Q8N8Z8-2|ZNF441 nc|ENSG00000197044|Q8N8Z8-2|ZNF441 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 515.7657470703125 2 515.762581 1029.51061 NaN NaN NaN NaN NaN NaN NaN 49.983 1 50.245 49.745 50.745 0.26146 0 0 0 0.51272 1 22843 22843 28.173 5.4369 1 37932 5792 24080 24156 42577 42577 -0.0029666324937807076 WPSSDFSD 8 Unmodified _WPSSDFSD_ 0 0 0 nc|ENSG00000173320|Q9P2F5-2|STOX2;ENSG00000173320|ENST00000308497|STOX2 nc|ENSG00000173320|Q9P2F5-2|STOX2 nc|ENSG00000173320|Q9P2F5-2|STOX2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 940.3701782226562 1 940.368303 939.361027 3.7077 0.0034866 -0.40365 -0.00037957 3.304 0.003107 940.367347647484 83.443 0.40141 83.69 83.432 83.833 0.24722 35 23 2 0 0 0 0.74071 1 38396 38396 2.5775 0 1 289750 37933 4928 24081 24157 42578 42578 -0.1110793705827291 WPTVKGDDL 9 Unmodified _WPTVKGDDL_ 0 0 0 ENST00000316660.6_1_18:57570124-57570343:+|nuORF ENST00000316660.6_1_18:57570124-57570343:+|nuORF ENST00000316660.6_1_18:57570124-57570343:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 515.76513671875 2 515.763832 1029.51311 3.4733 0.0017914 -0.86783 -0.0004476 2.6055 0.0013438 515.7636190055593 49.598 0.64058 50.255 49.82 50.461 0.65735 37 23 2 0 0 0 0.11458 1 22610 22610 29.082 3.6823 1 764200 37934 6906 24082 24158 42579 42579 -0.00046536310719602625 WPTWRPISI 9 Unmodified _WPTWRPISI_ 0 0 0 ENST00000600610.5_1_19:17449524-17450024:+|nuORF ENST00000600610.5_1_19:17449524-17450024:+|nuORF ENST00000600610.5_1_19:17449524-17450024:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 386.2181396484375 3 385.881831 1154.62366 3.1003 0.0011964 0.58277 0.00022488 3.6831 0.0014212 386.21718223870806 54.072 0.22968 54.072 53.947 54.177 0 24 18 2 0 0 0 0.94779 1 24793 24793 4.897 2.6142 1 1022500 37935 9296 24083 24159 42580 42580 0.05253728468187546 WPVDLVEKL 9 Unmodified _WPVDLVEKL_ 0 0 0 ENSG00000100504|ENST00000216392|PYGL;nc|ENSG00000100504|P06737-2|PYGL;ENST00000528757.2_1_14:51382052-51382644:-|nuORF ENSG00000100504|ENST00000216392|PYGL ENSG00000100504|ENST00000216392|PYGL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.8129272460938 2 549.813325 1097.6121 2.6638 0.0014646 -0.019734 -1.085E-05 2.6441 0.0014537 549.8134314843155 77.272 0.41437 77.833 77.502 77.916 0.56091 53 34 2 0 0 0 0.04013 1 37379 37379 51.415 34.302 1 1248400 37936 1225 24084 24160 42581 42581 0.06719486654174034 WPVDLVEKL 9 Unmodified _WPVDLVEKL_ 0 0 0 ENSG00000100504|ENST00000216392|PYGL;nc|ENSG00000100504|P06737-2|PYGL;ENST00000528757.2_1_14:51382052-51382644:-|nuORF ENSG00000100504|ENST00000216392|PYGL ENSG00000100504|ENST00000216392|PYGL MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 549.813325 1097.6121 3.429 0.0018853 -0.15237 -8.3775E-05 3.2767 0.0018016 549.8127592798272 77.785 0.31323 78.038 77.87 78.183 0.25335 0.076058 8.0486E-05 NaN 51.415 37 17 3 NaN NaN NaN NaN 0 NaN NaN 0 868770 37937 1225 24084 24160 0.06719486654174034 WPVDLVEKL 9 Unmodified _WPVDLVEKL_ 0 0 0 ENSG00000100504|ENST00000216392|PYGL;nc|ENSG00000100504|P06737-2|PYGL;ENST00000528757.2_1_14:51382052-51382644:-|nuORF ENSG00000100504|ENST00000216392|PYGL ENSG00000100504|ENST00000216392|PYGL MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 549.813325 1097.6121 3.3267 0.001829 -0.46738 -0.00025697 2.8593 0.0015721 549.8127278005128 77.352 0.35391 78.015 77.825 78.179 0.66302 0.053037 -0.00026591 NaN 51.415 44 26 2 NaN NaN NaN NaN 0 NaN NaN 0 1136100 37938 1225 24084 24160 0.06719486654174034 WPVFSGMIL 9 Unmodified _WPVFSGMIL_ 0 0 0 REV__ENSG00000006831|ENST00000357103|ADIPOR2 REV__ENSG00000006831|ENST00000357103|ADIPOR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.27880859375 2 525.278063 1048.54157 3.1279 0.001643 -1.8675 -0.00098096 1.2604 0.00066204 525.275338104084 68.551 0.44498 69.21 69.007 69.452 0.65925 53 30 3 0 0 0 0.20384 1 31465 31465 23.148 8.5667 1 662350 + 37939 10196 24085 24161 42582 42582 0.019244900648800467 WPVVLLLLLLL 11 Unmodified _WPVVLLLLLLL_ 0 0 0 REV__ENSG00000142538|ENST00000270631|PTH2 REV__ENSG00000142538|ENST00000270631|PTH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 646.442138671875 2 646.441235 1290.86792 NaN NaN NaN NaN NaN NaN NaN 36.507 1 36.764 36.264 37.264 0.25768 0 0 0 1.0082 1 16629 16629 0 0 1 + 37940 12330 24086 24162 42583 42583 0.23411794509434003 WPVVVLGM 8 Unmodified _WPVVVLGM_ 0 0 0 ENSG00000154309|ENST00000675850|DISP1 ENSG00000154309|ENST00000675850|DISP1 ENSG00000154309|ENST00000675850|DISP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.27642822265625 2 450.754224 899.493896 3.228 0.001455 0.19331 8.7137E-05 3.4213 0.0015422 450.7543108741403 88.272 0.4306 88.95 88.747 89.178 0.67818 49 17 4 0 0 0 0.14355 1 40596 40596 0 0 1 3902200 37941 3819 24087 24163 42584 42584 0.04012835864693898 WPWRTKRWWLW 11 Unmodified _WPWRTKRWWLW_ 0 0 0 REV__ENST00000400979.2_1_1:166244958-166245396:-|nuORF REV__ENST00000400979.2_1_1:166244958-166245396:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 850.9523315429688 2 850.951687 1699.88882 NaN NaN NaN NaN NaN NaN NaN 101.5 1 101.56 101.06 102.06 0.057198 0 0 0 1.0082 1 55118 55118 0 0 1 + 37942 16043 24088 24164 42585 42585 0.06687197661631217 WPWRWREWRPW 11 Unmodified _WPWRWREWRPW_ 0 0 0 ENST00000589087.5_1_19:2806818-2807876:+|nuORF ENST00000589087.5_1_19:2806818-2807876:+|nuORF ENST00000589087.5_1_19:2806818-2807876:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 580.9611206054688 3 580.960138 1739.85858 NaN NaN NaN NaN NaN NaN NaN 72.567 1 73.231 72.731 73.731 0.66398 0 0 0 1.0082 1 33296 33296 0 0 1 37943 9214 24089 24165 42586 42586 0.018248389964355738 WQFFVRLC 8 Unmodified _WQFFVRLC_ 0 0 0 ENSG00000087502|ENST00000360150|ERGIC2 ENSG00000087502|ENST00000360150|ERGIC2 ENSG00000087502|ENST00000360150|ERGIC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.7830200195312 2 549.781305 1097.54806 3.7405 0.0020565 1.3658 0.00075087 5.1063 0.0028073 549.7819974262683 102.01 0.18831 102.61 102.49 102.68 0.59759 15 7 3 0 0 0 0.7471 1 47238 47238 0.79363 0 1 1016800 37944 1004 24090 24166 42587 42587 0.003184280162486175 WQFFVRLC 8 Unmodified _WQFFVRLC_ 0 0 0 ENSG00000087502|ENST00000360150|ERGIC2 ENSG00000087502|ENST00000360150|ERGIC2 ENSG00000087502|ENST00000360150|ERGIC2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 549.781305 1097.54806 3.271 0.0017983 1.078 0.00059267 4.349 0.002391 550.2838145097331 102.57 0.1096 102.57 102.52 102.63 0 0.054992 -0.00068378 NaN 0.79363 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 287370 37945 1004 24090 24166 0.003184280162486175 WQGGRQPKP 9 Unmodified _WQGGRQPKP_ 0 0 0 ENST00000311841.7_2_1:54618851-54661198:-|nuORF;ENST00000420054.5_1_1:54651905-54661258:-|nuORF ENST00000311841.7_2_1:54618851-54661198:-|nuORF ENST00000311841.7_2_1:54618851-54661198:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.2841796875 2 527.283057 1052.55156 NaN NaN NaN NaN NaN NaN NaN 27.664 1 28.285 27.785 28.785 0.62179 0 0 0 0.91014 1 12683 12683 0.52476 0 1 37946 6876 24091 24167 42588 42588 0.027388141144683686 WQKLIVWKFPP 11 Unmodified _WQKLIVWKFPP_ 0 0 0 nc|ENSG00000086827|O43264-2|ZW10;ENSG00000086827|ENST00000200135|ZW10 nc|ENSG00000086827|O43264-2|ZW10 nc|ENSG00000086827|O43264-2|ZW10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.2851257324219 3 481.283336 1440.82818 3.8615 0.0018585 -0.19365 -9.3201E-05 3.6679 0.0017653 481.2831115114792 96.379 1.1285 96.657 96.204 97.333 0.27778 147 58 4 0 0 0 0.91328 4 44321 44265;44321;44432;44490 0.50596 0.17668 1 1145700 37947 988 24092 24168 42589;42590;42591;42592 42590 0.1253966755868987 WQKLIVWKFPP 11 Unmodified _WQKLIVWKFPP_ 0 0 0 nc|ENSG00000086827|O43264-2|ZW10;ENSG00000086827|ENST00000200135|ZW10 nc|ENSG00000086827|O43264-2|ZW10 nc|ENSG00000086827|O43264-2|ZW10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.2845458984375 3 481.283336 1440.82818 3.9038 0.0018788 -0.19216 -9.2482E-05 3.7116 0.0017863 481.28316099005144 98.34 0.30694 98.64 98.437 98.744 0.29987 64 30 3 0 0 0 0.91068 1 45283 45283 1.3296 0.87513 1 2971100 37948 988 24092 24168 42593 42593 0.1253966755868987 WQKLIVWKFPP 11 Unmodified _WQKLIVWKFPP_ 0 0 0 nc|ENSG00000086827|O43264-2|ZW10;ENSG00000086827|ENST00000200135|ZW10 nc|ENSG00000086827|O43264-2|ZW10 nc|ENSG00000086827|O43264-2|ZW10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.2838439941406 3 481.283336 1440.82818 3.3513 0.0016129 -0.42792 -0.00020595 2.9234 0.001407 481.28289747349424 95.954 1.2495 96.562 95.934 97.184 0.60769 162 66 3 0 0 0 0.91328 1 44137 44137 0.50596 0.41111 1 1354200 37949 988 24092 24168 42594 42594 0.1253966755868987 WQKLIVWKFPP 11 Unmodified _WQKLIVWKFPP_ 0 0 0 nc|ENSG00000086827|O43264-2|ZW10;ENSG00000086827|ENST00000200135|ZW10 nc|ENSG00000086827|O43264-2|ZW10 nc|ENSG00000086827|O43264-2|ZW10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.28424072265625 3 481.283336 1440.82818 3.3526 0.0016135 -0.40731 -0.00019603 2.9453 0.0014175 481.28317927210475 97.893 0.16525 98.492 98.404 98.569 0.59885 21 14 2 0 0 0 0.91328 1 45068 45068 0.50596 0.09769 1 1745300 37950 988 24092 24168 42595 42595 0.1253966755868987 WQKLYEVYKRK 11 Unmodified _WQKLYEVYKRK_ 0 0 0 REV__nc|ENSG00000198604|Q9NRL2-2|BAZ1A REV__nc|ENSG00000198604|Q9NRL2-2|BAZ1A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 770.9353637695312 2 770.935368 1539.85618 NaN NaN NaN NaN NaN NaN NaN 101.55 1 102.15 101.65 102.65 0.59717 0 0 0 1.0082 1 47018 47018 0 0 1 + 37951 14343 24093 24169 42596 42596 0.10784945748105201 WQKVETKWKYF 11 Unmodified _WQKVETKWKYF_ 0 0 0 REV__ENST00000495017.5_1_22:45127230-45133124:+|nuORF REV__ENST00000495017.5_1_22:45127230-45133124:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 771.9108276367188 2 771.908819 1541.80309 NaN NaN NaN NaN NaN NaN NaN 53.116 1 53.379 52.879 53.879 0.26345 0 0 0 1.008 1 24286 24286 0.30703 0.03801 1 + 37952 16833 24094 24170 42597 42597 0.05385567965458904 WQLSLLRP 8 Unmodified _WQLSLLRP_ 0 0 0 REV__Harlequin-int_dup434|chr17:80408952-80412448:+|1.933741223792221|0.062102870221105|4.96|534.0|76|3|sense REV__Harlequin-int_dup434|chr17:80408952-80412448:+|1.933741223792221|0.062102870221105|4.96|534.0|76|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 338.2032470703125 3 338.202793 1011.58655 2.3614 0.00079862 1.368 0.00046265 3.7293 0.0012613 338.203151453664 40.733 0.20959 40.733 40.669 40.879 0 17 10 3 0 0 0 0.69597 1 18521 18521 6.2058 0 1 1568500 + 37953 17718 24095 24171 42598 42598 0.08122056922422871 WQLSLLRP 8 Unmodified _WQLSLLRP_ 0 0 0 REV__Harlequin-int_dup434|chr17:80408952-80412448:+|1.933741223792221|0.062102870221105|4.96|534.0|76|3|sense REV__Harlequin-int_dup434|chr17:80408952-80412448:+|1.933741223792221|0.062102870221105|4.96|534.0|76|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 338.2038269042969 3 338.202793 1011.58655 NaN NaN NaN NaN NaN NaN NaN 40.569 1 40.569 40.069 41.069 0 0 0 0 0.99035 1 18415 18415 6.2058 0 1 + 37954 17718 24095 24171 42599 42599 0.08122056922422871 WQLSLLRP 8 Unmodified _WQLSLLRP_ 0 0 0 REV__Harlequin-int_dup434|chr17:80408952-80412448:+|1.933741223792221|0.062102870221105|4.96|534.0|76|3|sense REV__Harlequin-int_dup434|chr17:80408952-80412448:+|1.933741223792221|0.062102870221105|4.96|534.0|76|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.2044372558594 3 338.202793 1011.58655 2.6073 0.00088178 1.59 0.00053773 4.1972 0.0014195 338.20331977306 40.511 0.46903 40.78 40.551 41.02 0.26904 39 19 3 0 0 0 0.73203 1 18385 18385 3.2813 0 1 1909500 + 37955 17718 24095 24171 42600 42600 0.08122056922422871 WQLSLLRP 8 Unmodified _WQLSLLRP_ 0 0 0 REV__Harlequin-int_dup434|chr17:80408952-80412448:+|1.933741223792221|0.062102870221105|4.96|534.0|76|3|sense REV__Harlequin-int_dup434|chr17:80408952-80412448:+|1.933741223792221|0.062102870221105|4.96|534.0|76|3|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.2041931152344 3 338.202793 1011.58655 2.3539 0.00079609 1.6009 0.00054142 3.9548 0.0013375 338.20321283142937 38.993 0.52393 39.63 39.307 39.831 0.63778 42 18 3 0 0 0 0.73203 1 17829 17829 3.2813 0 1 742000 + 37956 17718 24095 24171 42601 42601 0.08122056922422871 WQLWTRSTRWW 11 Unmodified _WQLWTRSTRWW_ 0 0 0 REV__ENST00000589707.5_1_19:44732617-44732743:+|nuORF REV__ENST00000589707.5_1_19:44732617-44732743:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 803.4072875976562 2 803.407309 1604.80007 NaN NaN NaN NaN NaN NaN NaN 81.201 1 81.37 80.87 81.87 0.16862 0 0 0 1.0082 1 39881 39881 0 0 1 + 37957 17558 24096 24172 42602 42602 0.02185737631293705 WQPWWWWIWWQ 11 Unmodified _WQPWWWWIWWQ_ 0 0 0 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 894.7034912109375 2 894.417146 1786.81974 NaN NaN NaN NaN NaN NaN NaN 108.74 1 109.05 108.55 109.55 0.31168 0 0 0 1.0082 1 50141 50141 0 0 1 37958 142 24097 24173 42603 42603 -0.04219886357918767 WQQGSCTCS 9 Unmodified _WQQGSCTCS_ 0 0 0 REV__ENSG00000137251|ENST00000259782|TINAG REV__ENSG00000137251|ENST00000259782|TINAG MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.1868591308594 2 500.186577 998.358601 NaN NaN NaN NaN NaN NaN NaN 69.145 1 69.399 68.899 69.899 0.25443 0 0 0 0.90611 1 31674 31674 2.0598 0 1 + 37959 12105 24098 24174 42604 42604 -0.14064432059228693 WQQQWQQQWWL 11 Unmodified _WQQQWQQQWWL_ 0 0 0 REV__ENST00000253055.7_1_19:40718724-40719087:+|nuORF REV__ENST00000253055.7_1_19:40718724-40719087:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 822.88671875 2 822.888949 1643.76335 NaN NaN NaN NaN NaN NaN NaN 51.148 1 51.808 51.308 52.308 0.65956 0 0 0 1.008 1 23388 23388 0.30703 0.30703 1 + 37960 14915 24099 24175 42605 42605 -0.032785589852665 WQRFWARRWDN 11 Unmodified _WQRFWARRWDN_ 0 0 0 ENST00000393640.8_1_16:70432790-70433162:-|nuORF ENST00000393640.8_1_16:70432790-70433162:-|nuORF ENST00000393640.8_1_16:70432790-70433162:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 810.9005126953125 2 810.900183 1619.78581 NaN NaN NaN NaN NaN NaN NaN 17.505 1 18.166 17.666 18.666 0.66072 0 0 0 1.0082 1 7898 7898 0 0 1 37961 7532 24100 24176 42606 42606 0.0007108520301244425 WQRHNKKRI 9 Unmodified _WQRHNKKRI_ 0 0 0 L1PA7_dup4105|chr5:32794707-32799584:+|1.4734764400816625|0.3370285026521366|2.13|528.0|45|1|sense L1PA7_dup4105|chr5:32794707-32799584:+|1.4734764400816625|0.3370285026521366|2.13|528.0|45|1|sense L1PA7_dup4105|chr5:32794707-32799584:+|1.4734764400816625|0.3370285026521366|2.13|528.0|45|1|sense MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3719482421875 2 633.37053 1264.72651 4.0553 0.0025685 -1.8725 -0.001186 2.1828 0.0013825 633.3690067448039 88.277 0.61278 88.955 88.663 89.276 0.67818 39 25 2 0 0 0 1.2078 1 40646 40646 0.6015 0.076735 1 440610 37962 9478 24101 24177 42607 42607 0.10473233979519136 WQRHNKKRI 9 Unmodified _WQRHNKKRI_ 0 0 0 L1PA7_dup4105|chr5:32794707-32799584:+|1.4734764400816625|0.3370285026521366|2.13|528.0|45|1|sense L1PA7_dup4105|chr5:32794707-32799584:+|1.4734764400816625|0.3370285026521366|2.13|528.0|45|1|sense L1PA7_dup4105|chr5:32794707-32799584:+|1.4734764400816625|0.3370285026521366|2.13|528.0|45|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 633.3734130859375 2 633.37053 1264.72651 NaN NaN NaN NaN NaN NaN NaN 90.081 1 90.754 90.254 91.254 0.67271 0 0 0 0.90611 1 41464 41464 2.0598 0.57785 1 37963 9478 24101 24177 42608 42608 0.10473233979519136 WQRIFEWWYFH 11 Unmodified _WQRIFEWWYFH_ 0 0 0 ENST00000470683.1_1_1:113153424-113161548:-|nuORF;ENST00000477332.5_1_1:113149890-113161548:-|nuORF;ENST00000480988.5_1_1:113119662-113161548:-|nuORF;ENST00000497457.5_1_1:113121036-113161548:-|nuORF ENST00000470683.1_1_1:113153424-113161548:-|nuORF ENST00000470683.1_1_1:113153424-113161548:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 849.40576171875 2 849.404235 1696.79392 NaN NaN NaN NaN NaN NaN NaN 64.614 1 64.614 64.114 65.114 0 0 0 0 1.0082 1 30650 30650 0 0 1 37964 8177 24102 24178 42609 42609 -0.02660780600194812 WQRLHYAFRRR 11 Unmodified _WQRLHYAFRRR_ 0 0 0 REV__ENSG00000115464|ENST00000398571|USP34 REV__ENSG00000115464|ENST00000398571|USP34 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 794.9395751953125 2 794.939642 1587.86473 NaN NaN NaN NaN NaN NaN NaN 68.083 1 68.742 68.242 69.242 0.65924 0 0 0 1.0082 1 31209 31209 0 0 1 + 37965 11367 24103 24179 42610 42610 0.09431357227936132 WQRLLLRFKIL 11 Unmodified _WQRLLLRFKIL_ 0 0 0 ENSG00000110944|ENST00000228534|IL23A ENSG00000110944|ENST00000228534|IL23A ENSG00000110944|ENST00000228534|IL23A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 495.98626708984375 3 495.985401 1484.93437 NaN NaN NaN NaN NaN NaN NaN 64.846 1 64.846 64.346 65.346 0 0 0 0 1.0082 1 30801 30801 0.094841 0 1 37966 1736 24104 24180 42611 42611 0.2113042312403195 WQRLPRSLRL 10 Unmodified _WQRLPRSLRL_ 0 0 0 REV__ENST00000369762.6_2_X:153656997-153657039:+|nuORF REV__ENST00000369762.6_2_X:153656997-153657039:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 662.8988647460938 2 662.901663 1323.78877 NaN NaN NaN NaN NaN NaN NaN 62.707 1 62.957 62.457 63.457 0.24965 0 0 0 1.0015 1 28715 28715 0.45834 0.10771 1 + 37967 15712 24105 24181 42612 42612 0.13982960327825822 WQRLWRFFEKQ 11 Unmodified _WQRLWRFFEKQ_ 0 0 0 ENST00000554737.2_1_14:73524717-73524879:-|nuORF ENST00000554737.2_1_14:73524717-73524879:-|nuORF ENST00000554737.2_1_14:73524717-73524879:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 812.4302978515625 2 812.430784 1622.84702 NaN NaN NaN NaN NaN NaN NaN 76.651 1 77.275 76.775 77.775 0.62397 0 0 0 1.0082 1 37160 37160 0 0 1 37968 8911 24106 24182 42613 42613 0.060505971824568405 WQRLWRFFEKQ 11 Unmodified _WQRLWRFFEKQ_ 0 0 0 ENST00000554737.2_1_14:73524717-73524879:-|nuORF ENST00000554737.2_1_14:73524717-73524879:-|nuORF ENST00000554737.2_1_14:73524717-73524879:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 812.4299926757812 2 812.430784 1622.84702 NaN NaN NaN NaN NaN NaN NaN 75.379 1 76.044 75.544 76.544 0.6644 0 0 0 1.0082 1 34725 34725 0 0 1 37969 8911 24106 24182 42614 42614 0.060505971824568405 WQRPQKRKR 9 Unmodified _WQRPQKRKR_ 0 0 0 REV__ENST00000334268.8_1_6:123658775-123687324:-|nuORF REV__ENST00000334268.8_1_6:123658775-123687324:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 642.3869018554688 2 641.883804 1281.75306 4.0976 0.0026302 -1.8786 -0.0012058 2.219 0.0014243 641.8823969638489 90.242 0.44514 90.914 90.862 91.307 0.67271 27 20 2 0 0 0 1.2078 1 41595 41595 0.6015 0.14316 1 677890 + 37970 15402 24107 24183 42615 42615 0.1234492287080684 WQRRPRRRRRL 11 Unmodified _WQRRPRRRRRL_ 0 0 0 REV__ENST00000295206.6_1_2:119600812-119604160:-|nuORF REV__ENST00000295206.6_1_2:119600812-119604160:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 818.50341796875 2 818.503807 1634.99306 NaN NaN NaN NaN NaN NaN NaN 57.687 1 58.356 57.856 58.856 0.66829 0 0 0 1.0082 1 26398 26398 0 0 1 + 37971 15141 24108 24184 42616 42616 0.20096337261679764 WQRRRQTVERR 11 Unmodified _WQRRRQTVERR_ 0 0 0 ENSG00000167895|ENST00000318430|TMC8 ENSG00000167895|ENST00000318430|TMC8 ENSG00000167895|ENST00000318430|TMC8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 785.9421997070312 2 785.942913 1569.87127 NaN NaN NaN NaN NaN NaN NaN 87.084 1 87.124 86.624 87.624 0.039955 0 0 0 1.008 1 43989 43989 0.30703 0.03801 1 37972 4586 24109 24185 42617 42617 0.10913250388648521 WQRWRRYKYRF 11 Unmodified _WQRWRRYKYRF_ 0 0 0 nc|ENSG00000155542|Q8NE22-2|SETD9;ENSG00000155542|ENST00000285947|SETD9 nc|ENSG00000155542|Q8NE22-2|SETD9 nc|ENSG00000155542|Q8NE22-2|SETD9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 872.9695434570312 2 872.9684 1743.92225 NaN NaN NaN NaN NaN NaN NaN 61.045 1 61.045 60.545 61.545 0 0 0 0 1.0082 1 28444 28444 0 0 1 37973 3866 24110 24186 42618 42618 0.08004199433526082 WQRWRRYKYRF 11 Unmodified _WQRWRRYKYRF_ 0 0 0 nc|ENSG00000155542|Q8NE22-2|SETD9;ENSG00000155542|ENST00000285947|SETD9 nc|ENSG00000155542|Q8NE22-2|SETD9 nc|ENSG00000155542|Q8NE22-2|SETD9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 872.9656372070312 2 872.9684 1743.92225 NaN NaN NaN NaN NaN NaN NaN 88.378 1 88.43 87.93 88.93 0.052155 0 0 0 1.0082 1 44996 44996 0 0 1 37974 3866 24110 24186 42619 42619 0.08004199433526082 WQRWWRLWKIW 11 Unmodified _WQRWWRLWKIW_ 0 0 0 VCL|p.K139Nfs*28|1|0.16|ENSG00000035403|chr10:74071001-74071007|AGGAATT/-|frameshift_variant VCL|p.K139Nfs*28|1|0.16|ENSG00000035403|chr10:74071001-74071007|AGGAATT/-|frameshift_variant VCL|p.K139Nfs*28|1|0.16|ENSG00000035403|chr10:74071001-74071007|AGGAATT/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 581.9484252929688 3 581.984283 1742.93102 NaN NaN NaN NaN NaN NaN NaN 85.418 1 85.418 84.918 85.918 0 0 0 0 1.0082 1 43490 43490 0 0 1 37975 18291 24111 24187 42620 42620 0.08927173069992023 WQSRRRSKRRV 11 Unmodified _WQSRRRSKRRV_ 0 0 0 REV__ENSG00000119778|ENST00000238789|ATAD2B REV__ENSG00000119778|ENST00000238789|ATAD2B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 757.947998046875 2 757.947998 1513.88144 NaN NaN NaN NaN NaN NaN NaN 74.206 1 74.464 73.964 74.964 0.25853 0 0 0 1.0082 1 34116 34116 0 0 1 + 37976 11516 24112 24188 42621 42621 0.14505858113898285 WQTKIERWLLL 11 Unmodified _WQTKIERWLLL_ 0 0 0 REV__ENST00000499900.2_1_5:177045699-177046068:+|nuORF REV__ENST00000499900.2_1_5:177045699-177046068:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.9605407714844 3 495.9574 1484.85037 NaN NaN NaN NaN NaN NaN NaN 99 1 99.3 98.8 99.8 0.29987 0 0 0 1.0072 1 45685 45685 1.3296 0.82369 1 + 37977 16878 24113 24189 42622 42622 0.12733847236472684 WQWLKWRRLRR 11 Unmodified _WQWLKWRRLRR_ 0 0 0 ENST00000551099.5_1_12:113659271-113664634:+|nuORF ENST00000551099.5_1_12:113659271-113664634:+|nuORF ENST00000551099.5_1_12:113659271-113664634:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 842.496337890625 2 842.494585 1682.97462 NaN NaN NaN NaN NaN NaN NaN 84.413 1 84.661 84.161 85.161 0.24757 0 0 0 1.0082 1 38851 38851 0 0 1 37978 8875 24114 24190 42623 42623 0.16044782567132643 WQWRRREVQWR 11 Unmodified _WQWRRREVQWR_ 0 0 0 REV__ENST00000508390.1_1_3:131245302-131245881:+|nuORF REV__ENST00000508390.1_1_3:131245302-131245881:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 843.4449462890625 2 843.447831 1684.88111 NaN NaN NaN NaN NaN NaN NaN 60.618 1 61.358 60.858 61.858 0.7396 0 0 0 1.0082 1 28003 28003 0 0 1 + 37979 16952 24115 24191 42624 42624 0.06606438394032921 WQWRRREVQWR 11 Unmodified _WQWRRREVQWR_ 0 0 0 REV__ENST00000508390.1_1_3:131245302-131245881:+|nuORF REV__ENST00000508390.1_1_3:131245302-131245881:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 843.4442749023438 2 843.447831 1684.88111 NaN NaN NaN NaN NaN NaN NaN 65.845 1 66.094 65.594 66.594 0.24848 0 0 0 1.0082 1 30165 30165 0 0 1 + 37980 16952 24115 24191 42625 42625 0.06606438394032921 WRCFQWWRMDW 11 Unmodified _WRCFQWWRMDW_ 0 0 0 ENST00000430334.7_1_17:43555485-43568071:-|nuORF;ENST00000582986.5_1_17:62801160-62833227:-|nuORF ENST00000430334.7_1_17:43555485-43568071:-|nuORF ENST00000430334.7_1_17:43555485-43568071:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 850.3764038085938 2 850.374098 1698.73364 NaN NaN NaN NaN NaN NaN NaN 76.038 1 76.662 76.162 77.162 0.62397 0 0 0 1.0082 1 36834 36834 0 0 1 37981 7847 24116 24192 42626 42626 -0.08777537526611923 WRCRRTAWVR 10 Unmodified _WRCRRTAWVR_ 0 0 0 REV__ENST00000557682.6_1_15:93426179-93428750:+|nuORF REV__ENST00000557682.6_1_15:93426179-93428750:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 695.374267578125 2 695.375289 1388.73603 NaN NaN NaN NaN NaN NaN NaN 51.374 1 52.191 51.691 52.691 0.81738 0 0 0 1.0016 1 23402 23402 0.35063 0 1 + 37982 17337 24117 24193 42627 42627 0.057206789933616164 WRCRSHCS 8 Unmodified _WRCRSHCS_ 0 0 0 ENST00000272647.9_1_2:128621949-128622093:-|nuORF ENST00000272647.9_1_2:128621949-128622093:-|nuORF ENST00000272647.9_1_2:128621949-128622093:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.48614501953125 3 345.485089 1033.43344 NaN NaN NaN NaN NaN NaN NaN 35.026 1 35.281 34.781 35.781 0.25524 0 0 0 0.99035 1 15961 15961 1.6526 0 1 37983 6658 24118 24194 42628 42628 -0.08194204737355903 WRDFWGVWYEM 11 Unmodified _WRDFWGVWYEM_ 0 0 0 REV__ENSG00000166105|ENST00000431683|GLB1L3 REV__ENSG00000166105|ENST00000431683|GLB1L3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 787.8484497070312 2 787.847904 1573.68126 NaN NaN NaN NaN NaN NaN NaN 83.119 1 83.779 83.279 84.279 0.66019 0 0 0 1.0082 1 38287 38287 0 0 1 + 37984 13209 24119 24195 42629 42629 -0.08263797388531202 WREEEERRRWY 11 Unmodified _WREEEERRRWY_ 0 0 0 REV__ENSG00000056097|ENST00000265069|ZFR REV__ENSG00000056097|ENST00000265069|ZFR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 565.6078491210938 3 565.609722 1693.80734 NaN NaN NaN NaN NaN NaN NaN 62.505 1 62.505 62.005 63.005 0 0 0 0 1.0082 1 29298 29298 0 0 1 + 37985 10375 24120 24196 42630 42630 -0.011815745589501603 WRELWRWRSRP 11 Unmodified _WRELWRWRSRP_ 0 0 0 nc|ENSG00000204536|Q8TD31-3|CCHCR1;ENSG00000204536|ENST00000396268|CCHCR1 nc|ENSG00000204536|Q8TD31-3|CCHCR1 nc|ENSG00000204536|Q8TD31-3|CCHCR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 814.4389038085938 2 814.439475 1626.8644 NaN NaN NaN NaN NaN NaN NaN 51.517 1 51.779 51.279 52.279 0.26227 0 0 0 1.0082 1 23544 23544 0 0 1 37986 6016 24121 24197 42631 42631 0.07603937508088165 WRFIRNWQRWH 11 Unmodified _WRFIRNWQRWH_ 0 0 0 REV__ENSG00000081248|ENST00000362061|CACNA1S REV__ENSG00000081248|ENST00000362061|CACNA1S MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 842.9371948242188 2 842.939642 1683.86473 NaN NaN NaN NaN NaN NaN NaN 96.995 1 97.066 96.566 97.566 0.070648 0 0 0 1.0082 1 51716 51716 0 0 1 + 37987 10608 24122 24198 42632 42632 0.050153572279441505 WRFSGGCA 8 Unmodified _WRFSGGCA_ 0 0 0 ENST00000588460.5_1_17:74733800-74734238:+|nuORF ENST00000588460.5_1_17:74733800-74734238:+|nuORF ENST00000588460.5_1_17:74733800-74734238:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 883.3932495117188 1 883.387933 882.380657 4.1581 0.0036732 0.074648 6.5943E-05 4.2328 0.0037392 883.3879067636967 103.8 0.037064 104.4 104.37 104.41 0.59821 9 4 3 0 0 0 0.7471 1 48008 48008 0.79363 0 1 993790 37988 9204 24123 24199 42633 42633 -0.06523839528506414 WRGPCPRA 8 Unmodified _WRGPCPRA_ 0 0 0 REV__nc|ENSG00000205923|Q6PRD7|CEMP1 REV__nc|ENSG00000205923|Q6PRD7|CEMP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 314.82958984375 3 314.829073 941.465389 2.0591 0.00064827 -1.2722 -0.00040053 0.78689 0.00024774 314.8286732677598 14.049 0.10594 14.049 13.971 14.077 0 8 5 2 0 0 0 0.7471 1 6192 6192 1.6526 0 1 364180 + 37989 18116 24124 24200 42634 42634 -0.007684689919074117 WRGPCPRA 8 Unmodified _WRGPCPRA_ 0 0 0 REV__nc|ENSG00000205923|Q6PRD7|CEMP1 REV__nc|ENSG00000205923|Q6PRD7|CEMP1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 314.829073 941.465389 2.0591 0.00064827 -1.2722 -0.00040053 0.78689 0.00024774 314.8286732677598 14.049 0.10594 14.049 13.971 14.077 0 0 0 NaN 1.6526 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 364180 + 37990 18116 24124 24200 -0.007684689919074117 WRGRRFRSRRR 11 Unmodified _WRGRRFRSRRR_ 0 0 0 REV__ENST00000181839.8_1_7:39989715-39990237:+|nuORF REV__ENST00000181839.8_1_7:39989715-39990237:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.3148803710938 3 530.313797 1587.91956 2.5694 0.0013626 0.48586 0.00025766 3.0552 0.0016202 530.313613880522 6.876 0.065582 7.2158 7.1912 7.2568 0.33974 14 8 2 0 0 0 0.91489 1 3106 3106 0 0 1 44493 + 37991 14789 24125 24201 42635 42635 0.14911788819222238 WRHRKKRWFPG 11 Unmodified _WRHRKKRWFPG_ 0 0 0 THE1B-int_dup38|chr1:59888735-59890293:-|2.5909301945492014|0.1975042163789512|3.71|511.0|27|2|sense THE1B-int_dup38|chr1:59888735-59890293:-|2.5909301945492014|0.1975042163789512|3.71|511.0|27|2|sense THE1B-int_dup38|chr1:59888735-59890293:-|2.5909301945492014|0.1975042163789512|3.71|511.0|27|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.6289672851562 3 518.628611 1552.864 NaN NaN NaN NaN NaN NaN NaN 78.298 1 78.762 78.262 79.262 0.4642 0 0 0 1.0079 1 38058 38058 0.50596 0 1 37992 18267 24126 24202 42636 42636 0.10968562578909768 WRHSWLKWRIR 11 Unmodified _WRHSWLKWRIR_ 0 0 0 ENST00000583590.5_1_17:61869884-61875419:+|nuORF ENST00000583590.5_1_17:61869884-61875419:+|nuORF ENST00000583590.5_1_17:61869884-61875419:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 541.9066772460938 3 541.975899 1622.90587 NaN NaN NaN NaN NaN NaN NaN 16.421 1 16.421 15.921 16.921 0 0 0 0 1.0082 1 7274 7274 0 0 1 37993 9162 24127 24203 42637 42637 0.11933118267438658 WRIKWKHRRKN 11 Unmodified _WRIKWKHRRKN_ 0 0 0 ENST00000551685.2_1_12:43963803-43964301:-|nuORF ENST00000551685.2_1_12:43963803-43964301:-|nuORF ENST00000551685.2_1_12:43963803-43964301:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 804.4794921875 2 804.478934 1606.94332 NaN NaN NaN NaN NaN NaN NaN 105.47 1 106.07 105.57 106.57 0.59969 0 0 0 1.0082 1 48707 48707 0 0 1 37994 8881 24128 24204 42638 42638 0.16412209533041278 WRKKFNKM 8 Unmodified _WRKKFNKM_ 0 0 0 REV__nc|ENSG00000185989|Q14644-2|RASA3 REV__nc|ENSG00000185989|Q14644-2|RASA3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.8832092285156 3 379.883178 1136.6277 NaN NaN NaN NaN NaN NaN NaN 16.21 1 16.868 16.368 17.368 0.65798 0 0 0 0.99035 1 7303 7303 0 0 1 + 37995 14039 24129 24205 42639 42639 0.06485494690241467 WRKKHKLLQAR 11 Unmodified _WRKKHKLLQAR_ 0 0 0 ENSG00000178404|ENST00000322630|CEP295NL ENSG00000178404|ENST00000322630|CEP295NL ENSG00000178404|ENST00000322630|CEP295NL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 488.81964111328125 3 488.640516 1462.89972 NaN NaN NaN NaN NaN NaN NaN 49.247 1 50.074 49.574 50.574 0.82705 0 0 0 1.0082 1 22435 22435 0 0 1 37996 5166 24130 24206 42640 42640 0.1867860003592341 WRKKLLPEK 9 Unmodified _WRKKLLPEK_ 0 0 0 REV__ENST00000312561.8_2_12:32138111-32138183:+|nuORF REV__ENST00000312561.8_2_12:32138111-32138183:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 599.3818359375 2 599.376958 1196.73936 NaN NaN NaN NaN NaN NaN NaN 109.48 1 109.79 109.29 110.29 0.31015 0 0 0 0.91378 1 50469 50469 0.40072 0 1 + 37997 15273 24131 24207 42641 42641 0.14886252319047344 WRKKRMRRLKR 11 Unmodified _WRKKRMRRLKR_ 0 0 0 ENSG00000229117|ENST00000546591|RPL41 ENSG00000229117|ENST00000546591|RPL41 ENSG00000229117|ENST00000546591|RPL41 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.51123046875 2 807.509712 1613.00487 NaN NaN NaN NaN NaN NaN NaN 12.395 1 12.395 11.895 12.895 0 0 0 0 1.0082 1 5373 5373 0 0 1 37998 6176 24132 24208 42642 42642 0.2228881796065707 WRKQRLWKWWK 11 Unmodified _WRKQRLWKWWK_ 0 0 0 chr12:54283132-54283827|539|56.03|0.0|22.42|+|1|HNRNPA1,HNRNPA1|1 chr12:54283132-54283827|539|56.03|0.0|22.42|+|1|HNRNPA1,HNRNPA1|1 chr12:54283132-54283827|539|56.03|0.0|22.42|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 850.986572265625 2 850.986061 1699.95757 NaN NaN NaN NaN NaN NaN NaN 95.2 1 95.282 94.782 95.782 0.082001 0 0 0 1.0082 1 50272 50272 0 0 1 37999 144 24133 24209 42643 42643 0.13558861961337243 WRKRRRRQRCM 11 Unmodified _WRKRRRRQRCM_ 0 0 0 REV__ENST00000222307.8_2_19:18668656-18672912:+|nuORF REV__ENST00000222307.8_2_19:18668656-18672912:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 816.4537963867188 2 816.457153 1630.89975 NaN NaN NaN NaN NaN NaN NaN 65.195 1 65.195 64.695 65.695 0 0 0 0 1.008 1 31016 31016 0.30703 0.30703 1 + 38000 14826 24134 24210 42644 42644 0.10953953492617075 WRKRRRRQRCM 11 Unmodified _WRKRRRRQRCM_ 0 0 0 REV__ENST00000222307.8_2_19:18668656-18672912:+|nuORF REV__ENST00000222307.8_2_19:18668656-18672912:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 816.7387084960938 2 816.457153 1630.89975 NaN NaN NaN NaN NaN NaN NaN 78.977 1 78.977 78.477 79.477 0 0 0 0 1.0082 1 38939 38939 0 0 1 + 38001 14826 24134 24210 42645 42645 0.10953953492617075 WRKRWRRRGRR 11 Unmodified _WRKRWRRRGRR_ 0 0 0 REV__ENST00000261427.9_1_4:39699814-39699901:+|nuORF REV__ENST00000261427.9_1_4:39699814-39699901:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 835.00732421875 2 835.003974 1667.99339 NaN NaN NaN NaN NaN NaN NaN 91.725 1 92.387 91.887 92.887 0.66198 0 0 0 1.0082 1 42209 42209 0 0 1 + 38002 14965 24135 24211 42646 42646 0.18611756981545113 WRKWKQQKKEE 11 Unmodified _WRKWKQQKKEE_ 0 0 0 ENSG00000198917|ENST00000361256|SPOUT1 ENSG00000198917|ENST00000361256|SPOUT1 ENSG00000198917|ENST00000361256|SPOUT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 787.4319458007812 2 787.433524 1572.85249 NaN NaN NaN NaN NaN NaN NaN 89.127 1 89.127 88.627 89.627 0 0 0 0 1.008 1 46456 46456 0.26902 0.26902 1 38003 5962 24136 24212 42647 42647 0.08898275974252101 WRKWKQQKKEE 11 Unmodified _WRKWKQQKKEE_ 0 0 0 ENSG00000198917|ENST00000361256|SPOUT1 ENSG00000198917|ENST00000361256|SPOUT1 ENSG00000198917|ENST00000361256|SPOUT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 787.1265258789062 2 787.433524 1572.85249 NaN NaN NaN NaN NaN NaN NaN 95.704 1 95.704 95.204 96.204 0 0 0 0 1.008 1 51609 51609 0.30703 0 1 38004 5962 24136 24212 42648 42648 0.08898275974252101 WRKWRRTTRRR 11 Unmodified _WRKWRRTTRRR_ 0 0 0 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 REV__nc|ENSG00000164542|Q8NCT3|MATCAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 829.4895629882812 2 829.490365 1656.96618 NaN NaN NaN NaN NaN NaN NaN 49.244 1 49.505 49.005 50.005 0.26146 0 0 0 1.0082 1 22510 22510 0 0 1 + 38005 18017 24137 24213 42649 42649 0.1639722865049862 WRKYERKHEER 11 Unmodified _WRKYERKHEER_ 0 0 0 nc|ENSG00000212789|Q8NFI4|ST13P5 nc|ENSG00000212789|Q8NFI4|ST13P5 nc|ENSG00000212789|Q8NFI4|ST13P5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 539.6177978515625 3 539.618329 1615.83316 NaN NaN NaN NaN NaN NaN NaN 90.151 1 90.151 89.651 90.651 0 0 0 0 1.0082 1 47295 47295 0.094841 0 1 38006 9827 24138 24214 42650 42650 0.04987319683368696 WRLHKRLHHFL 11 Unmodified _WRLHKRLHHFL_ 0 0 0 REV__ENST00000342992.10_3_2:179396097-179396157:-|nuORF REV__ENST00000342992.10_3_2:179396097-179396157:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 771.6644287109375 2 771.949479 1541.8844 NaN NaN NaN NaN NaN NaN NaN 107.82 1 108.42 107.92 108.92 0.6019 0 0 0 1.008 1 49755 49755 0.30703 0.03801 1 + 38007 15477 24139 24215 42651 42651 0.1351373323873304 WRLRLVLP 8 Unmodified _WRLRLVLP_ 0 0 0 REV__nc|ENSG00000183317|Q5JZY3-3|EPHA10 REV__nc|ENSG00000183317|Q5JZY3-3|EPHA10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.84228515625 2 526.840011 1051.66547 3.1019 0.0016342 1.472 0.00077549 4.5738 0.0024097 526.8406134177783 44.383 0.25268 44.653 44.606 44.859 0.2694 12 7 2 0 0 0 0.7471 1 20342 20342 0.69038 0 1 209050 + 38008 13927 24140 24216 42652 42652 0.14170328947352573 WRLRLVLP 8 Unmodified _WRLRLVLP_ 0 0 0 REV__nc|ENSG00000183317|Q5JZY3-3|EPHA10 REV__nc|ENSG00000183317|Q5JZY3-3|EPHA10 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.98095703125 3 351.562433 1051.66547 2.7205 0.00095644 1.7331 0.00060928 4.4536 0.0015657 351.56325718640784 46.656 0.36029 46.921 46.62 46.98 0.26561 21 12 2 0 0 0 0.14313 1 21192 21192 1.6526 0 1 2152700 + 38009 13927 24140 24216 42653 42653 0.14170328947352573 WRLRPPLAGFV 11 Unmodified _WRLRPPLAGFV_ 0 0 0 nc|ENSG00000128928|P26440|IVD;ENSG00000128928|ENST00000487418|IVD;nc|ENSG00000128928|P26440-2|IVD nc|ENSG00000128928|P26440|IVD nc|ENSG00000128928|P26440|IVD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.6986389160156 4 328.697567 1310.76116 2.3141 0.00076062 0.53478 0.00017578 2.8488 0.00093641 328.69763054634245 39.02 1.1054 39.818 39.338 40.444 0.79762 141 53 3 0 0 0 0.91028 1 17842 17842 1.4551 0 1 937940 38010 2533 24141 24217 42654 42654 0.11821057067572838 WRLRPPLAGFV 11 Unmodified _WRLRPPLAGFV_ 0 0 0 nc|ENSG00000128928|P26440|IVD;ENSG00000128928|ENST00000487418|IVD;nc|ENSG00000128928|P26440-2|IVD nc|ENSG00000128928|P26440|IVD nc|ENSG00000128928|P26440|IVD MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 328.697567 1310.76116 2.3141 0.00076062 0.53478 0.00017578 2.8488 0.00093641 328.69763054634245 39.02 1.1054 39.818 39.338 40.444 0.79762 0.13341 3.5676E-05 NaN 1.4551 141 53 3 NaN NaN NaN NaN 0 NaN NaN 0 937940 38011 2533 24141 24217 0.11821057067572838 WRLRRCRLRRL 11 Unmodified _WRLRRCRLRRL_ 0 0 0 REV__ENST00000392973.7_1_16:90075326-90076003:-|nuORF REV__ENST00000392973.7_1_16:90075326-90076003:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 792.4855346679688 2 792.486237 1582.95792 NaN NaN NaN NaN NaN NaN NaN 21.179 1 21.179 20.679 21.679 0 0 0 0 1.0082 1 9479 9479 0 0 1 + 38012 15940 24142 24218 42655 42655 0.18975958409532723 WRLWHWYQRRL 11 Unmodified _WRLWHWYQRRL_ 0 0 0 REV__ENST00000513055.1_1_5:92921088-92921313:-|nuORF REV__ENST00000513055.1_1_5:92921088-92921313:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 850.458740234375 2 850.457668 1698.90078 NaN NaN NaN NaN NaN NaN NaN 77.901 1 78.462 77.962 78.962 0.56091 0 0 0 1.0082 1 37827 37827 0 0 1 + 38013 16987 24143 24219 42656 42656 0.07928814404817786 WRLWHWYQRRL 11 Unmodified _WRLWHWYQRRL_ 0 0 0 REV__ENST00000513055.1_1_5:92921088-92921313:-|nuORF REV__ENST00000513055.1_1_5:92921088-92921313:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 850.453857421875 2 850.457668 1698.90078 NaN NaN NaN NaN NaN NaN NaN 108.83 1 109.14 108.64 109.64 0.31168 0 0 0 1.0082 1 50180 50180 0 0 1 + 38014 16987 24143 24219 42657 42657 0.07928814404817786 WRLYLLRHFRK 11 Unmodified _WRLYLLRHFRK_ 0 0 0 nc|ENSG00000024862|Q8IWP9|CCDC28A nc|ENSG00000024862|Q8IWP9|CCDC28A nc|ENSG00000024862|Q8IWP9|CCDC28A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 794.47216796875 2 794.472786 1586.93102 NaN NaN NaN NaN NaN NaN NaN 84.862 1 85.528 85.028 86.028 0.66566 0 0 0 1.0082 1 39085 39085 0 0 1 38015 9541 24144 24220 42658 42658 0.16103173069996046 WRMRVALARA 10 Unmodified _WRMRVALARA_ 0 0 0 ENSG00000033050|ENST00000287844|ABCF2;nc|ENSG00000285292|Q9UG63-2|ABCF2 ENSG00000033050|ENST00000287844|ABCF2 ENSG00000033050|ENST00000287844|ABCF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 615.0230712890625 2 615.356034 1228.69751 NaN NaN NaN NaN NaN NaN NaN 10.301 1 10.596 10.096 11.096 0.2956 0 0 0 1.002 1 4528 4528 0 0 1 38016 501 24145 24221 42659 42659 0.09231373358875317 WRMYVVRRRYK 11 Unmodified _WRMYVVRRRYK_ 0 0 0 nc|ENSG00000197535|Q9Y4I1-2|MYO5A;nc|ENSG00000197535|Q9Y4I1|MYO5A;ENSG00000197535|ENST00000399233|MYO5A nc|ENSG00000197535|Q9Y4I1-2|MYO5A nc|ENSG00000197535|Q9Y4I1-2|MYO5A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 806.9190673828125 2 806.953904 1611.89325 NaN NaN NaN NaN NaN NaN NaN 96.035 1 96.112 95.612 96.612 0.076538 0 0 0 1.0082 1 50931 50931 0 0 1 38017 5823 24146 24222 42660 42660 0.11178338812896982 WRNRQKNKRR 10 Unmodified _WRNRQKNKRR_ 0 0 0 ENSG00000132275|ENST00000254605|RRP8 ENSG00000132275|ENST00000254605|RRP8 ENSG00000132275|ENST00000254605|RRP8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.2843017578125 3 481.283503 1440.82868 3.3513 0.0016129 -0.77598 -0.00037347 2.5753 0.0012394 481.28289747349424 95.954 1.2495 96.562 95.934 97.184 0.60769 162 66 3 0 0 0 0.94364 2 44105 44105;44151 0.15932 0.064481 1 1354200 38018 2687 24147 24223 42661;42662 42661 0.12589900051079894 WRPGRSVR 8 Unmodified _WRPGRSVR_ 0 0 0 REV__ENST00000335464.9_1_17:72833969-72834278:+|nuORF REV__ENST00000335464.9_1_17:72833969-72834278:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.5313415527344 3 338.529903 1012.56788 2.7199 0.00092075 0.83057 0.00028117 3.5504 0.0012019 338.53014143687955 5.08 0.38498 5.703 5.5586 5.9436 0.62294 54 34 2 0 0 0 0.7471 1 2359 2359 0.35063 0 1 54481 + 38019 15413 24148 24224 42663 42663 0.062099400712327224 WRPRFKFYHWT 11 Unmodified _WRPRFKFYHWT_ 0 0 0 ENSG00000113504|ENST00000264930|SLC12A7 ENSG00000113504|ENST00000264930|SLC12A7 ENSG00000113504|ENST00000264930|SLC12A7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 812.4205322265625 2 812.42022 1622.82589 NaN NaN NaN NaN NaN NaN NaN 106.03 1 106.35 105.85 106.85 0.31628 0 0 0 1.0082 1 48938 48938 0 0 1 38020 1857 24149 24225 42664 42664 0.03938631873597842 WRPRFKYYHWA 11 Unmodified _WRPRFKYYHWA_ 0 0 0 nc|ENSG00000124067|Q9UP95-4|SLC12A4;nc|ENSG00000124067|Q9UP95-3|SLC12A4;nc|ENSG00000124067|Q9UP95-5|SLC12A4;nc|ENSG00000124067|Q9UP95-2|SLC12A4;nc|ENSG00000124067|Q9UP95-6|SLC12A4;ENSG00000124067|ENST00000316341|SLC12A4;nc|ENSG00000124067|Q9UP95-7|SLC12A4 nc|ENSG00000124067|Q9UP95-4|SLC12A4 nc|ENSG00000124067|Q9UP95-4|SLC12A4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 805.4124755859375 2 805.412395 1608.81024 NaN NaN NaN NaN NaN NaN NaN 64.162 1 64.162 63.662 64.662 0 0 0 0 1.0082 1 30337 30337 0 0 1 38021 2333 24150 24226 42665 42665 0.03018345356554164 WRPRRQIWRRR 11 Unmodified _WRPRRQIWRRR_ 0 0 0 REV__ENST00000257749.8_2_6:90661229-90661412:-|nuORF REV__ENST00000257749.8_2_6:90661229-90661412:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 833.5714721679688 2 833.492908 1664.97126 NaN NaN NaN NaN NaN NaN NaN 98.13 1 98.13 97.63 98.63 0 0 0 0 1.0082 1 53644 53644 0 0 1 + 38022 14942 24151 24227 42666 42666 0.16537532513120823 WRPRRQIWRRR 11 Unmodified _WRPRRQIWRRR_ 0 0 0 REV__ENST00000257749.8_2_6:90661229-90661412:-|nuORF REV__ENST00000257749.8_2_6:90661229-90661412:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.9969482421875 3 555.997697 1664.97126 NaN NaN NaN NaN NaN NaN NaN 37.677 1 38.311 37.811 38.811 0.63388 0 0 0 1.0082 1 17239 17239 0 0 1 + 38023 14942 24151 24227 42667 42667 0.16537532513120823 WRPRRQIWRRR 11 Unmodified _WRPRRQIWRRR_ 0 0 0 REV__ENST00000257749.8_2_6:90661229-90661412:-|nuORF REV__ENST00000257749.8_2_6:90661229-90661412:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.9967651367188 3 555.997697 1664.97126 NaN NaN NaN NaN NaN NaN NaN 85.828 1 86.499 85.999 86.999 0.67061 0 0 0 1.0082 1 39522 39522 0 0 1 + 38024 14942 24151 24227 42668 42668 0.16537532513120823 WRQLGEDGGVF 11 Unmodified _WRQLGEDGGVF_ 0 0 0 ENST00000366794.9_1_1:226595610-226595685:-|nuORF ENST00000366794.9_1_1:226595610-226595685:-|nuORF ENST00000366794.9_1_1:226595610-226595685:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.9521179199219 3 421.875405 1262.60439 3.1043 0.0013096 2.5528 0.001077 5.6571 0.0023866 421.87611821119833 49.104 0.21584 49.759 49.635 49.851 0.65524 9 7 2 0 0 0 0.75723 1 22466 22466 4.4062 0 1 368730 38025 7239 24152 24228 42669 42669 -0.01641272613392175 WRQRIRKWRQM 11 Unmodified _WRQRIRKWRQM_ 0 0 0 REV__ENST00000595455.1_1_19:36244761-36245372:+|nuORF REV__ENST00000595455.1_1_19:36244761-36245372:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 822.4609375 2 822.462427 1642.9103 NaN NaN NaN NaN NaN NaN NaN 59.456 1 59.456 58.956 59.956 0 0 0 0 1.0082 1 27486 27486 0 0 1 + 38026 14711 24153 24229 42670 42670 0.11456259418673653 WRQRRRRWPVR 11 Unmodified _WRQRRRRWPVR_ 0 0 0 ENST00000264010.8_1_16:67596501-67605146:+|nuORF ENST00000264010.8_1_16:67596501-67605146:+|nuORF ENST00000264010.8_1_16:67596501-67605146:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 826.4559326171875 2 826.485082 1650.95561 NaN NaN NaN NaN NaN NaN NaN 80.56 1 80.729 80.229 81.229 0.16862 0 0 0 1.0082 1 39491 39491 0 0 1 38027 6597 24154 24230 42671 42671 0.15617245996099882 WRQRRRRWPVR 11 Unmodified _WRQRRRRWPVR_ 0 0 0 ENST00000264010.8_1_16:67596501-67605146:+|nuORF ENST00000264010.8_1_16:67596501-67605146:+|nuORF ENST00000264010.8_1_16:67596501-67605146:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 826.5713500976562 2 826.485082 1650.95561 NaN NaN NaN NaN NaN NaN NaN 81.138 1 81.307 80.807 81.807 0.16862 0 0 0 1.0082 1 39838 39838 0 0 1 38028 6597 24154 24230 42672 42672 0.15617245996099882 WRRAWFRQWLL 11 Unmodified _WRRAWFRQWLL_ 0 0 0 REV__ENST00000393640.8_1_16:70432790-70433162:-|nuORF REV__ENST00000393640.8_1_16:70432790-70433162:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 809.4498901367188 2 809.449311 1616.88407 NaN NaN NaN NaN NaN NaN NaN 54.44 1 54.44 53.94 54.94 0 0 0 0 1.0082 1 24974 24974 0 0 1 + 38029 15955 24155 24231 42673 42673 0.10030313518882394 WRRAWPRRRRR 11 Unmodified _WRRAWPRRRRR_ 0 0 0 nc|ENSG00000117791|Q969Z3-2|MTARC2;ENSG00000117791|ENST00000366913|MTARC2 nc|ENSG00000117791|Q969Z3-2|MTARC2 nc|ENSG00000117791|Q969Z3-2|MTARC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 826.4904174804688 2 826.490699 1650.96685 NaN NaN NaN NaN NaN NaN NaN 61.795 1 62.526 62.026 63.026 0.73077 0 0 0 1.0082 1 28706 28706 0 0 1 38030 2095 24156 24232 42674 42674 0.16740068090189197 WRRCWGRLWWH 11 Unmodified _WRRCWGRLWWH_ 0 0 0 REV__ENST00000473038.5_1_1:46033610-46035625:+|nuORF REV__ENST00000473038.5_1_1:46033610-46035625:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 821.40966796875 2 821.409663 1640.80477 NaN NaN NaN NaN NaN NaN NaN 49.11 1 49.765 49.265 50.265 0.65524 0 0 0 1.0082 1 22467 22467 0 0 1 + 38031 16622 24157 24233 42675 42675 0.010003432930943745 WRRHHRRQRLH 11 Unmodified _WRRHHRRQRLH_ 0 0 0 REV__ENSG00000132716|ENST00000368074|DCAF8 REV__ENSG00000132716|ENST00000368074|DCAF8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 819.4647827148438 2 819.464681 1636.91481 NaN NaN NaN NaN NaN NaN NaN 102.32 1 102.64 102.14 103.14 0.31737 0 0 0 1.0082 1 47331 47331 0 0 1 + 38032 11909 24158 24234 42676 42676 0.12182904676478756 WRRIPPAL 8 Unmodified _WRRIPPAL_ 0 0 0 REV__nc|ENSG00000070759|Q96S53-3|TESK2 REV__nc|ENSG00000070759|Q96S53-3|TESK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1008.61376953125 1 1008.61015 1007.60287 4.322 0.0043592 -0.16437 -0.00016578 4.1577 0.0041935 1008.6096768747902 104.18 0.053131 104.5 104.47 104.53 0.31863 7 4 2 0 0 0 0.7471 1 48151 48151 0 0 1 410200 + 38033 10482 24159 24235 42677 42677 0.09937182879150441 WRRKKLYLLFA 11 Unmodified _WRRKKLYLLFA_ 0 0 0 ENSG00000132429|ENST00000254765|POPDC3 ENSG00000132429|ENST00000254765|POPDC3 ENSG00000132429|ENST00000254765|POPDC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.2332458496094 4 374.233045 1492.90307 2.6339 0.00098569 0.079077 2.9593E-05 2.713 0.0010153 374.23286513082104 60.929 0.53579 61.591 61.284 61.819 0.66261 98 25 5 0 0 0 0.91345 1 27798 27798 0.45452 0.35968 1 6929700 38034 2700 24160 24236 42678 42678 0.17633850089941916 WRRKKLYLLFA 11 Unmodified _WRRKKLYLLFA_ 0 0 0 ENSG00000132429|ENST00000254765|POPDC3 ENSG00000132429|ENST00000254765|POPDC3 ENSG00000132429|ENST00000254765|POPDC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.6437683105469 3 498.641634 1492.90307 3.1876 0.0015895 0.017421 8.6868E-06 3.205 0.0015981 498.6417058988019 60.923 0.45857 61.586 61.322 61.781 0.66261 36 20 2 0 0 0 0.91068 2 27846 27846;27911 1.3296 1.2348 1 1752500 38035 2700 24160 24236 42679;42680 42679 0.17633850089941916 WRRKKLYLLFA 11 Unmodified _WRRKKLYLLFA_ 0 0 0 ENSG00000132429|ENST00000254765|POPDC3 ENSG00000132429|ENST00000254765|POPDC3 ENSG00000132429|ENST00000254765|POPDC3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 498.641634 1492.90307 3.2301 0.0016107 0.74412 0.00037105 3.9743 0.0019817 498.6419669120855 61.415 0.32058 61.667 61.498 61.818 0.25245 0.040646 0.00073944 NaN 1.3296 25 14 2 NaN NaN NaN NaN 0 NaN NaN 0 950820 38036 2700 24160 24236 0.17633850089941916 WRRKRRWRRVR 11 Unmodified _WRRKRRWRRVR_ 0 0 0 ENSG00000283093|ENST00000634648|CENPVL2;ENSG00000223591|ENST00000602548|CENPVL1 ENSG00000283093|ENST00000634648|CENPVL2 ENSG00000283093|ENST00000634648|CENPVL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.0208740234375 3 571.020725 1710.04034 NaN NaN NaN NaN NaN NaN NaN 60.993 1 61.656 61.156 62.156 0.66261 0 0 0 1.0082 1 27927 27927 0 0 1 38037 6161 24161 24237 42681 42681 0.21372616532676147 WRRKVGRPR 9 Unmodified _WRRKVGRPR_ 0 0 0 REV__ENST00000498253.1_1_1:174980847-174983915:-|nuORF REV__ENST00000498253.1_1_1:174980847-174983915:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.0128479003906 3 404.251252 1209.73193 NaN NaN NaN NaN NaN NaN NaN 65.109 1 65.357 64.857 65.857 0.24803 0 0 0 0.89683 1 29828 29828 2.4985 0 1 + 38038 11534 24162 24238 42682 42682 0.13544957561953197 WRRKVGRPR 9 Unmodified _WRRKVGRPR_ 0 0 0 REV__ENST00000498253.1_1_1:174980847-174983915:-|nuORF REV__ENST00000498253.1_1_1:174980847-174983915:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1211.737060546875 1 1210.7392 1209.73193 3.3931 0.0041082 -3.7128 -0.0044953 -0.31972 -0.00038709 1210.7364642345117 56.642 0.1868 57.31 57.214 57.401 0.66829 18 9 2 0 0 0 1.129 1 25951 25951 1.8442 0 1 1122600 + 38039 11534 24162 24238 42683 42683 0.13544957561953197 WRRLFKKIWIF 11 Unmodified _WRRLFKKIWIF_ 0 0 0 ENST00000541657.5_3_12:122240596-122240792:-|nuORF;ENST00000541694.5_1_12:122240596-122240713:-|nuORF;ENST00000536662.5_1_12:122240596-122240785:-|nuORF ENST00000541657.5_3_12:122240596-122240792:-|nuORF ENST00000541657.5_3_12:122240596-122240792:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 796.9833984375 2 796.982456 1591.95036 NaN NaN NaN NaN NaN NaN NaN 91.461 1 91.461 90.961 91.961 0 0 0 0 1.0082 1 48323 48323 0 0 1 38040 8771 24163 24239 42684 42684 0.17806129360906198 WRRLFKKIWIF 11 Unmodified _WRRLFKKIWIF_ 0 0 0 ENST00000541657.5_3_12:122240596-122240792:-|nuORF;ENST00000541694.5_1_12:122240596-122240713:-|nuORF;ENST00000536662.5_1_12:122240596-122240785:-|nuORF ENST00000541657.5_3_12:122240596-122240792:-|nuORF ENST00000541657.5_3_12:122240596-122240792:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 796.9849243164062 2 796.982456 1591.95036 NaN NaN NaN NaN NaN NaN NaN 88.889 1 89.567 89.067 90.067 0.67818 0 0 0 1.0082 1 40932 40932 0 0 1 38041 8771 24163 24239 42685 42685 0.17806129360906198 WRRLLQVR 8 Unmodified _WRRLLQVR_ 0 0 0 REV__ENST00000357429.10_1_7:1036905-1037229:-|nuORF REV__ENST00000357429.10_1_7:1036905-1037229:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.6535034179688 2 563.851442 1125.68833 NaN NaN NaN NaN NaN NaN NaN 31.058 1 31.847 31.347 32.347 0.78879 0 0 0 0.99035 1 14031 14031 2.3027 0 1 + 38042 15564 24164 24240 42686 42686 0.13051348064846024 WRRLLRKRWVL 11 Unmodified _WRRLLRKRWVL_ 0 0 0 ENSG00000111412|ENST00000261318|SPRING1 ENSG00000111412|ENST00000261318|SPRING1 ENSG00000111412|ENST00000261318|SPRING1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 791.5026245117188 2 791.501878 1580.9892 NaN NaN NaN NaN NaN NaN NaN 95.024 1 95.106 94.606 95.606 0.082001 0 0 0 1.0082 1 50138 50138 0 0 1 38043 1761 24165 24241 42687 42687 0.22194854715280599 WRRLPRRPTPL 11 Unmodified _WRRLPRRPTPL_ 0 0 0 REV__ENST00000446176.6_1_9:132652385-132652658:-|nuORF REV__ENST00000446176.6_1_9:132652385-132652658:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 724.439453125 2 724.441486 1446.86842 NaN NaN NaN NaN NaN NaN NaN 63.837 1 63.837 63.337 64.337 0 0 0 0 1.0061 1 30105 30105 2.7352 0 1 + 38044 16384 24166 24242 42688 42688 0.16286027001820003 WRRLRLGRWQH 11 Unmodified _WRRLRLGRWQH_ 0 0 0 REV__ENST00000368742.3_1_1:153234210-153234426:+|nuORF REV__ENST00000368742.3_1_1:153234210-153234426:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.96875 3 521.967515 1562.88072 NaN NaN NaN NaN NaN NaN NaN 72.727 1 72.985 72.485 73.485 0.25876 0 0 0 1.008 1 33389 33389 0.08335 0.08335 1 + 38045 15691 24167 24243 42689 42689 0.12179063464873252 WRRPATPGS 9 Unmodified _WRRPATPGS_ 0 0 0 ENST00000571875.2_1_17:1958394-1960072:+|nuORF ENST00000571875.2_1_17:1958394-1960072:+|nuORF ENST00000571875.2_1_17:1958394-1960072:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 343.1879577636719 3 343.185914 1026.53591 NaN NaN NaN NaN NaN NaN NaN 15.187 1 15.493 14.993 15.993 0.306 0 0 0 0.90699 1 6866 6866 0.96228 0.26461 1 38046 9094 24168 24244 42690 42690 0.023705275973952666 WRRPRRRPRRK 11 Unmodified _WRRPRRRPRRK_ 0 0 0 REV__ENST00000251102.12_1_16:57965650-57974178:-|nuORF REV__ENST00000251102.12_1_16:57965650-57974178:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 810.5043334960938 2 810.506349 1618.99815 NaN NaN NaN NaN NaN NaN NaN 48.531 1 48.531 48.031 49.031 0 0 0 0 1.0082 1 22225 22225 0 0 1 + 38047 14907 24169 24245 42691 42691 0.21340641124311333 WRRPRRRPRRK 11 Unmodified _WRRPRRRPRRK_ 0 0 0 REV__ENST00000251102.12_1_16:57965650-57974178:-|nuORF REV__ENST00000251102.12_1_16:57965650-57974178:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 810.5048828125 2 810.506349 1618.99815 NaN NaN NaN NaN NaN NaN NaN 53.079 1 53.342 52.842 53.842 0.26345 0 0 0 1.0082 1 24269 24269 0 0 1 + 38048 14907 24169 24245 42692 42692 0.21340641124311333 WRRQPRRR 8 Unmodified _WRRQPRRR_ 0 0 0 REV__ENST00000261692.6_1_12:123751765-123756364:-|nuORF REV__ENST00000261692.6_1_12:123751765-123756364:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 605.8621826171875 2 605.860664 1209.70677 NaN NaN NaN NaN NaN NaN NaN 22.125 1 22.712 22.212 23.212 0.58739 0 0 0 0.99035 1 9836 9836 0.69038 0 1 + 38049 14967 24170 24246 42693 42693 0.11030902759375749 WRRRCRKRRRK 11 Unmodified _WRRRCRKRRRK_ 0 0 0 REV__ENST00000319296.9_1_16:30419378-30419444:+|nuORF REV__ENST00000319296.9_1_16:30419378-30419444:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 828.9082641601562 2 829.005659 1655.99677 NaN NaN NaN NaN NaN NaN NaN 109.31 1 109.62 109.12 110.12 0.31015 0 0 0 1.0082 1 50394 50394 0 0 1 + 38050 15307 24171 24247 42694 42694 0.19500683763885718 WRRREEEERWR 11 Unmodified _WRRREEEERWR_ 0 0 0 ENSG00000056097|ENST00000265069|ZFR ENSG00000056097|ENST00000265069|ZFR ENSG00000056097|ENST00000265069|ZFR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 844.611328125 2 844.429836 1686.84512 NaN NaN NaN NaN NaN NaN NaN 80.558 1 80.558 80.058 81.058 0 0 0 0 1.0082 1 40010 40010 0 0 1 38051 620 24172 24248 42695 42695 0.029169364265499098 WRRREEEERWR 11 Unmodified _WRRREEEERWR_ 0 0 0 ENSG00000056097|ENST00000265069|ZFR ENSG00000056097|ENST00000265069|ZFR ENSG00000056097|ENST00000265069|ZFR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 844.4322509765625 2 844.429836 1686.84512 NaN NaN NaN NaN NaN NaN NaN 97.096 1 97.096 96.596 97.596 0 0 0 0 1.0082 1 52751 52751 0 0 1 38052 620 24172 24248 42696 42696 0.029169364265499098 WRRRELWFWWR 11 Unmodified _WRRRELWFWWR_ 0 0 0 ENST00000246635.7_1_17:39661629-39661743:-|nuORF ENST00000246635.7_1_17:39661629-39661743:-|nuORF ENST00000246635.7_1_17:39661629-39661743:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 592.9849853515625 3 592.983054 1775.92733 NaN NaN NaN NaN NaN NaN NaN 96.409 1 96.409 95.909 96.909 0 0 0 0 1.0082 1 52167 52167 0 0 1 38053 6492 24173 24249 42697 42697 0.07040503296138922 WRRRGRLLLRR 11 Unmodified _WRRRGRLLLRR_ 0 0 0 ENST00000373433.8_1_20:36662140-36662245:+|nuORF ENST00000373433.8_1_20:36662140-36662245:+|nuORF ENST00000373433.8_1_20:36662140-36662245:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 769.49365234375 2 769.492376 1536.9702 NaN NaN NaN NaN NaN NaN NaN 82.985 1 83.645 83.145 84.145 0.66019 0 0 0 1.0082 1 38227 38227 0 0 1 38054 7361 24174 24250 42698 42698 0.22319318144241151 WRRRIRKRKRR 11 Unmodified _WRRRIRKRKRR_ 0 0 0 REV__ENST00000277225.9_3_9:109625513-109685652:+|nuORF REV__ENST00000277225.9_3_9:109625513-109685652:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 834.0441284179688 2 834.043099 1666.07164 NaN NaN NaN NaN NaN NaN NaN 103.51 1 103.51 103.01 104.01 0 0 0 0 1.0082 1 57045 57045 0 0 1 + 38055 15081 24175 24251 42699 42699 0.26525189566791596 WRRRIRKRKRR 11 Unmodified _WRRRIRKRKRR_ 0 0 0 REV__ENST00000277225.9_3_9:109625513-109685652:+|nuORF REV__ENST00000277225.9_3_9:109625513-109685652:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 833.7664184570312 2 834.043099 1666.07164 NaN NaN NaN NaN NaN NaN NaN 107.61 1 108.21 107.71 108.71 0.6019 0 0 0 1.0082 1 49665 49665 0 0 1 + 38056 15081 24175 24251 42700 42700 0.26525189566791596 WRRRKPARWRR 11 Unmodified _WRRRKPARWRR_ 0 0 0 ENST00000545932.5_1_12:108956369-108956426:+|nuORF ENST00000545932.5_1_12:108956369-108956426:+|nuORF ENST00000545932.5_1_12:108956369-108956426:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 812.4906005859375 2 812.487625 1622.9607 NaN NaN NaN NaN NaN NaN NaN 60.605 1 60.605 60.105 61.105 0 0 0 0 1.0082 1 28182 28182 0 0 1 38057 8844 24176 24252 42701 42701 0.17413549858702027 WRRRLAAPVW 10 Unmodified _WRRRLAAPVW_ 0 0 0 REV__ENST00000406213.1_1_22:24237237-24238205:-|nuORF REV__ENST00000406213.1_1_22:24237237-24238205:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 655.8870239257812 2 655.883273 1309.75199 4.1273 0.002707 0.96424 0.00063243 5.0915 0.0033395 655.8837839116757 92.922 0.46426 93.569 93.345 93.809 0.64714 45 24 2 0 0 0 0.94099 1 42752 42752 1.6526 0.17072 1 1545000 + 38058 16069 24177 24253 42702 42702 0.10950708501923145 WRRRLQRL 8 Unmodified _WRRRLQRL_ 0 0 0 REV__ENSG00000179314|ENST00000317744|WSCD1 REV__ENSG00000179314|ENST00000317744|WSCD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.2481994628906 3 395.247619 1182.72103 2.9237 0.0011556 -0.51679 -0.00020426 2.4069 0.00095133 395.24743836740134 15.913 1.1347 16.571 16.132 17.267 0.65798 275 142 3 0 0 0 0.74071 2 7391 7267;7391 1.6526 0 1 127730 + 38059 13794 24178 24254 42703;42704 42704 0.13697555187695798 WRRRLRRP 8 Unmodified _WRRRLRRP_ 0 0 0 REV__ENST00000574110.5_1_19:30433210-30433438:+|nuORF REV__ENST00000574110.5_1_19:30433210-30433438:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 399.2521057128906 3 399.251363 1194.73226 NaN NaN NaN NaN NaN NaN NaN 30.067 1 30.856 30.356 31.356 0.78921 0 0 0 0.99035 1 13571 13571 0.40072 0 1 + 38060 17463 24179 24255 42705 42705 0.14268377281837274 WRRRLTRRPPR 11 Unmodified _WRRRLTRRPPR_ 0 0 0 ENST00000375344.7_1_9:97136898-97137102:+|nuORF ENST00000375344.7_1_9:97136898-97137102:+|nuORF ENST00000375344.7_1_9:97136898-97137102:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 775.477294921875 2 775.474183 1548.93381 NaN NaN NaN NaN NaN NaN NaN 50.057 1 50.057 49.557 50.557 0 0 0 0 1.0079 1 22917 22917 0.30703 0 1 38061 7391 24180 24256 42706 42706 0.18130441247512863 WRRRLTRRPPR 11 Unmodified _WRRRLTRRPPR_ 0 0 0 ENST00000375344.7_1_9:97136898-97137102:+|nuORF ENST00000375344.7_1_9:97136898-97137102:+|nuORF ENST00000375344.7_1_9:97136898-97137102:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 310.94207763671875 5 310.794039 1548.93381 2.2328 0.00069395 3.5725 0.0011103 5.8053 0.0018043 310.7944751160493 49.918 0.24738 50.179 50.029 50.277 0.26146 10 8 2 0 0 0 0.13295 1 22829 22829 0.08335 0 1 182940 38062 7391 24180 24256 42707 42707 0.18130441247512863 WRRRLTRRPPR 11 Unmodified _WRRRLTRRPPR_ 0 0 0 ENST00000375344.7_1_9:97136898-97137102:+|nuORF ENST00000375344.7_1_9:97136898-97137102:+|nuORF ENST00000375344.7_1_9:97136898-97137102:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 5 310.794039 1548.93381 2.002 0.00062222 3.4925 0.0010855 5.4946 0.0017077 310.7949500055234 50.437 0.11399 50.437 50.396 50.51 0 0.12875 -4.567E-05 NaN 0.08335 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 114320 38063 7391 24180 24256 0.18130441247512863 WRRRQWKDFKR 11 Unmodified _WRRRQWKDFKR_ 0 0 0 REV__nc|ENSG00000105618|Q8WWY3-2|PRPF31 REV__nc|ENSG00000105618|Q8WWY3-2|PRPF31 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 831.4651489257812 2 831.466024 1660.9175 NaN NaN NaN NaN NaN NaN NaN 18.087 1 18.287 17.787 18.787 0.20057 0 0 0 1.0082 1 8027 8027 0 0 1 + 38064 17887 24181 24257 42708 42708 0.11347315290731785 WRRRRHLKRLQ 11 Unmodified _WRRRRHLKRLQ_ 0 0 0 REV__ENST00000297293.5_1_7:97832983-97833265:+|nuORF REV__ENST00000297293.5_1_7:97832983-97833265:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 803.0548706054688 2 802.995283 1603.97601 NaN NaN NaN NaN NaN NaN NaN 99.367 1 99.429 98.929 99.929 0.062241 0 0 0 1.0082 1 53701 53701 0 0 1 + 38065 15164 24182 24258 42709 42709 0.19818416655903093 WRRRRKMRRRE 11 Unmodified _WRRRRKMRRRE_ 0 0 0 REV__ENST00000257749.8_2_6:90661229-90661412:-|nuORF REV__ENST00000257749.8_2_6:90661229-90661412:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 843.4949340820312 2 843.495124 1684.9757 NaN NaN NaN NaN NaN NaN NaN 59.385 1 60.05 59.55 60.55 0.66503 0 0 0 1.0082 1 27186 27186 0 0 1 + 38066 14942 24183 24259 42710 42710 0.16060673664401293 WRRRRLSRELL 11 Unmodified _WRRRRLSRELL_ 0 0 0 REV__ENST00000533297.1_1_11:111896132-111933256:+|nuORF REV__ENST00000533297.1_1_11:111896132-111933256:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 770.97021484375 2 770.9684 1539.92225 NaN NaN NaN NaN NaN NaN NaN 81.975 1 82.059 81.559 82.559 0.084106 0 0 0 1.0079 1 40394 40394 0.30703 0 1 + 38067 17159 24184 24260 42711 42711 0.17388199433548834 WRRRRPRWSWC 11 Unmodified _WRRRRPRWSWC_ 0 0 0 ZNF628|p.S162Afs*265|1|0.46|ENSG00000197483|chr19:55481675-55481675|C/-|frameshift_variant ZNF628|p.S162Afs*265|1|0.46|ENSG00000197483|chr19:55481675-55481675|C/-|frameshift_variant ZNF628|p.S162Afs*265|1|0.46|ENSG00000197483|chr19:55481675-55481675|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 549.0402221679688 3 548.956622 1643.84804 NaN NaN NaN NaN NaN NaN NaN 46.785 1 47.614 47.114 48.114 0.82915 0 0 0 1.0082 1 21315 21315 0 0 1 38068 18297 24185 24261 42712 42712 0.051865330703776635 WRRRRPRWSWC 11 Unmodified _WRRRRPRWSWC_ 0 0 0 ZNF628|p.S162Afs*265|1|0.46|ENSG00000197483|chr19:55481675-55481675|C/-|frameshift_variant ZNF628|p.S162Afs*265|1|0.46|ENSG00000197483|chr19:55481675-55481675|C/-|frameshift_variant ZNF628|p.S162Afs*265|1|0.46|ENSG00000197483|chr19:55481675-55481675|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 822.931884765625 2 822.931294 1643.84804 NaN NaN NaN NaN NaN NaN NaN 71.382 1 72.045 71.545 72.545 0.66324 0 0 0 1.0082 1 32717 32717 0 0 1 38069 18297 24185 24261 42713 42713 0.051865330703776635 WRRRRQRWLLL 11 Unmodified _WRRRRQRWLLL_ 0 0 0 REV__ENST00000264010.8_1_16:67596501-67605146:+|nuORF REV__ENST00000264010.8_1_16:67596501-67605146:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 820.1676025390625 2 820.000034 1637.98552 NaN NaN NaN NaN NaN NaN NaN 101.44 1 101.44 100.94 101.94 0 0 0 0 1.0082 1 56040 56040 0 0 1 + 38070 15007 24186 24262 42714 42714 0.1920418494146361 WRRRRREQLLR 11 Unmodified _WRRRRREQLLR_ 0 0 0 ENST00000578774.1_1_17:38517261-38520175:+|nuORF ENST00000578774.1_1_17:38517261-38520175:+|nuORF ENST00000578774.1_1_17:38517261-38520175:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 812.9903564453125 2 812.990198 1623.96584 NaN NaN NaN NaN NaN NaN NaN 78.014 1 78.268 77.768 78.768 0.25335 0 0 0 1.0082 1 35929 35929 0 0 1 38071 9138 24187 24263 42715 42715 0.17881808930701482 WRRRRRHQRS 10 Unmodified _WRRRRRHQRS_ 0 0 0 ENST00000439096.2_1_19:47734314-47734437:-|nuORF ENST00000439096.2_1_19:47734314-47734437:-|nuORF ENST00000439096.2_1_19:47734314-47734437:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 747.430419921875 2 747.430307 1492.84606 NaN NaN NaN NaN NaN NaN NaN 90.677 1 90.929 90.429 91.429 0.25163 0 0 0 1.002 1 41696 41696 0 0 1 38072 7923 24188 24264 42716 42716 0.1193524037678344 WRRRRRMRRMK 11 Unmodified _WRRRRRMRRMK_ 0 0 0 REV__ENST00000281708.8_1_4:153271275-153332654:-|nuORF REV__ENST00000281708.8_1_4:153271275-153332654:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 844.4932861328125 2 844.49407 1686.97359 NaN NaN NaN NaN NaN NaN NaN 85.639 1 86.31 85.81 86.81 0.67061 0 0 0 1.0082 1 39437 39437 0 0 1 + 38073 15091 24189 24265 42717 42717 0.1575792165490384 WRRRRRPKRRR 11 Unmodified _WRRRRRPKRRR_ 0 0 0 ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF ENST00000560168.1_1_19:46269581-46272089:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 840.0282592773438 2 840.030523 1678.04649 NaN NaN NaN NaN NaN NaN NaN 94.252 1 94.338 93.838 94.838 0.086212 0 0 0 1.0082 1 49538 49538 0 0 1 38074 8971 24190 24266 42718 42718 0.23459134764198097 WRRRRRPQQ 9 Unmodified _WRRRRRPQQ_ 0 0 0 ENST00000295206.6_1_2:119600812-119604160:-|nuORF ENST00000295206.6_1_2:119600812-119604160:-|nuORF ENST00000295206.6_1_2:119600812-119604160:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 669.88916015625 2 669.889952 1337.76535 NaN NaN NaN NaN NaN NaN NaN 103.19 1 103.51 103.01 104.01 0.31863 0 0 0 0.91206 1 47711 47711 0.6015 0.14316 1 38075 6756 24191 24267 42719 42719 0.10997959333894869 WRRRRRPWQGR 11 Unmodified _WRRRRRPWQGR_ 0 0 0 ENST00000535818.1_1_11:60906157-60928919:-|nuORF;ENST00000536000.1_1_11:60900588-60928919:-|nuORF ENST00000535818.1_1_11:60906157-60928919:-|nuORF ENST00000535818.1_1_11:60906157-60928919:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 805.4619140625 2 805.461607 1608.90866 NaN NaN NaN NaN NaN NaN NaN 24.876 1 25.613 25.113 26.113 0.73623 0 0 0 1.0082 1 11152 11152 0 0 1 38076 8766 24192 24268 42720 42720 0.1285638644494611 WRRRRRRPRRR 11 Unmodified _WRRRRRRPRRR_ 0 0 0 ENST00000453677.1_1_7:104654330-104654752:-|nuORF ENST00000453677.1_1_7:104654330-104654752:-|nuORF ENST00000453677.1_1_7:104654330-104654752:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 854.0347900390625 2 854.033597 1706.05264 NaN NaN NaN NaN NaN NaN NaN 50.162 1 50.424 49.924 50.924 0.26146 0 0 0 1.0082 1 22924 22924 0 0 1 38077 8035 24193 24269 42721 42721 0.22785652995730743 WRRRRRRRKR 10 Unmodified _WRRRRRRRKR_ 0 0 0 REV__ENST00000487093.5_1_3:51575631-51661706:+|nuORF REV__ENST00000487093.5_1_3:51575631-51661706:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 791.5048217773438 2 791.504141 1580.99373 NaN NaN NaN NaN NaN NaN NaN 93.913 1 93.913 93.413 94.413 0 0 0 0 1.0015 1 50236 50236 0.40072 0.050084 1 + 38078 16762 24194 24270 42722 42722 0.2264717670138907 WRRRRRRRRQ 10 Unmodified _WRRRRRRRRQ_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 528.277587890625 3 527.993058 1580.95734 NaN NaN NaN NaN NaN NaN NaN 74.96 1 75.624 75.124 76.124 0.6635 0 0 0 1.0019 1 36268 36268 0.13989 0.056541 1 38079 9685 24195 24271 42723 42723 0.1901029980469957 WRRRRRRRRQE 11 Unmodified _WRRRRRRRRQE_ 0 0 0 nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ nc|ENSG00000149177|Q12913-3|PTPRJ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.1846923828125 3 571.007255 1709.99994 NaN NaN NaN NaN NaN NaN NaN 79.133 1 79.598 79.098 80.098 0.4642 0 0 0 1.0082 1 38621 38621 0 0 1 38080 9685 24196 24272 42724 42724 0.17333650142268198 WRRRRRRRRTR 11 Unmodified _WRRRRRRRRTR_ 0 0 0 REV__ENST00000333602.10_1_3:195635568-195635940:-|nuORF REV__ENST00000333602.10_1_3:195635568-195635940:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.0234985351562 3 571.023128 1710.04756 NaN NaN NaN NaN NaN NaN NaN 108.87 1 108.87 108.37 109.37 0 0 0 0 1.0082 1 59579 59579 0 0 1 + 38081 15398 24197 24273 42725 42725 0.22093349133115225 WRRRRRRRRTR 11 Unmodified _WRRRRRRRRTR_ 0 0 0 REV__ENST00000333602.10_1_3:195635568-195635940:-|nuORF REV__ENST00000333602.10_1_3:195635568-195635940:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.0235595703125 3 571.023128 1710.04756 NaN NaN NaN NaN NaN NaN NaN 12.317 1 12.624 12.124 13.124 0.30727 0 0 0 1.0082 1 5529 5529 0.08335 0.08335 1 + 38082 15398 24197 24273 42726 42726 0.22093349133115225 WRRRRRRRRTR 11 Unmodified _WRRRRRRRRTR_ 0 0 0 REV__ENST00000333602.10_1_3:195635568-195635940:-|nuORF REV__ENST00000333602.10_1_3:195635568-195635940:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 856.0316772460938 2 856.031054 1710.04756 NaN NaN NaN NaN NaN NaN NaN 51.625 1 52.284 51.784 52.784 0.65956 0 0 0 1.0082 1 23608 23608 0 0 1 + 38083 15398 24197 24273 42727 42727 0.22093349133115225 WRRRRRTQRKT 11 Unmodified _WRRRRRTQRKT_ 0 0 0 REV__ENST00000356865.10_1_15:25962031-25966812:-|nuORF REV__ENST00000356865.10_1_15:25962031-25966812:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.0557250976562 3 533.98909 1598.94544 NaN NaN NaN NaN NaN NaN NaN 66.246 1 66.246 65.746 66.746 0 0 0 0 1.0082 1 31642 31642 0.094841 0.094841 1 + 38084 15560 24198 24274 42728 42728 0.16992638270835414 WRRRRRTQRKT 11 Unmodified _WRRRRRTQRKT_ 0 0 0 REV__ENST00000356865.10_1_15:25962031-25966812:-|nuORF REV__ENST00000356865.10_1_15:25962031-25966812:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.9904174804688 3 533.98909 1598.94544 NaN NaN NaN NaN NaN NaN NaN 91.301 1 91.376 90.876 91.876 0.075279 0 0 0 1.0079 1 47279 47279 0.40827 0.078994 1 + 38085 15560 24198 24274 42729 42729 0.16992638270835414 WRRRRTQRR 9 Unmodified _WRRRRTQRR_ 0 0 0 ENST00000447310.5_1_19:58067715-58071064:-|nuORF ENST00000447310.5_1_19:58067715-58071064:-|nuORF ENST00000447310.5_1_19:58067715-58071064:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 685.9115600585938 2 685.908676 1369.8028 4.5121 0.0030949 -0.39832 -0.00027321 4.1138 0.0028217 685.9083621922492 95.394 1.3047 95.661 95.107 96.411 0.2675 166 74 3 0 0 0 1.2126 1 43827 43827 0.52476 0.17413 1 1640800 38086 7985 24199 24275 42730 42730 0.1326905059947876 WRRRRTQRR 9 Unmodified _WRRRRTQRR_ 0 0 0 ENST00000447310.5_1_19:58067715-58071064:-|nuORF ENST00000447310.5_1_19:58067715-58071064:-|nuORF ENST00000447310.5_1_19:58067715-58071064:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.90869140625 2 685.908676 1369.8028 4.1361 0.002837 -0.098556 -6.76E-05 4.0376 0.0027694 685.9082606118027 92.167 0.45309 92.815 92.421 92.874 0.64714 31 21 2 0 0 0 1.2169 1 42419 42419 0.45834 0 1 316060 38087 7985 24199 24275 42731 42731 0.1326905059947876 WRRRSRRKKRV 11 Unmodified _WRRRSRRKKRV_ 0 0 0 ENST00000515223.1_1_5:180651261-180651336:+|nuORF ENST00000515223.1_1_5:180651261-180651336:+|nuORF ENST00000515223.1_1_5:180651261-180651336:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 792.4984130859375 2 792.500733 1582.98691 NaN NaN NaN NaN NaN NaN NaN 47.937 1 47.937 47.437 48.437 0 0 0 0 1.0082 1 21953 21953 0 0 1 38088 8593 24200 24276 42732 42732 0.2187381903017922 WRRRSRRKKRV 11 Unmodified _WRRRSRRKKRV_ 0 0 0 ENST00000515223.1_1_5:180651261-180651336:+|nuORF ENST00000515223.1_1_5:180651261-180651336:+|nuORF ENST00000515223.1_1_5:180651261-180651336:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 792.4986572265625 2 792.500733 1582.98691 NaN NaN NaN NaN NaN NaN NaN 97.275 1 97.275 96.775 97.775 0 0 0 0 1.0082 1 52905 52905 0 0 1 38089 8593 24200 24276 42733 42733 0.2187381903017922 WRRRVQQQYRR 11 Unmodified _WRRRVQQQYRR_ 0 0 0 REV__ENSG00000173237|ENST00000683896|C11orf86 REV__ENSG00000173237|ENST00000683896|C11orf86 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.6412963867188 3 544.641579 1630.90291 NaN NaN NaN NaN NaN NaN NaN 85.294 1 85.294 84.794 85.794 0 0 0 0 1.0082 1 43389 43389 0 0 1 + 38090 13592 24201 24277 42734 42734 0.11269243142623964 WRRRVQQQYRR 11 Unmodified _WRRRVQQQYRR_ 0 0 0 REV__ENSG00000173237|ENST00000683896|C11orf86 REV__ENSG00000173237|ENST00000683896|C11orf86 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.8478393554688 3 544.641579 1630.90291 NaN NaN NaN NaN NaN NaN NaN 82.078 1 82.738 82.238 83.238 0.65998 0 0 0 1.0082 1 37819 37819 0 0 1 + 38091 13592 24201 24277 42735 42735 0.11269243142623964 WRRRWQHRYWR 11 Unmodified _WRRRWQHRYWR_ 0 0 0 ENST00000570069.5_1_16:1826945-1827407:+|nuORF;ENST00000561903.6_1_16:1826945-1828699:+|nuORF ENST00000570069.5_1_16:1826945-1827407:+|nuORF ENST00000570069.5_1_16:1826945-1827407:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 596.0780639648438 3 595.985569 1784.93488 NaN NaN NaN NaN NaN NaN NaN 13.023 1 13.266 12.766 13.766 0.24346 0 0 0 1.0082 1 5673 5673 0 0 1 38092 8989 24202 24278 42736 42736 0.07380655616429976 WRRRWRGRWL 10 Unmodified _WRRRWRGRWL_ 0 0 0 REV__ENST00000216410.7_1_14:53258232-53258316:-|nuORF REV__ENST00000216410.7_1_14:53258232-53258316:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 764.4362182617188 2 764.43707 1526.85959 NaN NaN NaN NaN NaN NaN NaN 74.278 1 74.536 74.036 75.036 0.25831 0 0 0 1.0015 1 34152 34152 0.40072 0.093686 1 + 38093 14810 24203 24279 42737 42737 0.11723098156016931 WRRSIFAFLTL 11 Unmodified _WRRSIFAFLTL_ 0 0 0 ENSG00000151490|ENST00000281171|PTPRO;nc|ENSG00000151490|Q16827-3|PTPRO ENSG00000151490|ENST00000281171|PTPRO ENSG00000151490|ENST00000281171|PTPRO MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 470.60809326171875 3 470.60659 1408.79794 NaN NaN NaN NaN NaN NaN NaN 55.771 1 56.036 55.536 56.536 0.26543 0 0 0 1.0059 1 25508 25508 1.2148 0.20126 1 38094 3712 24204 24280 42738 42738 0.10989308893499583 WRRSKREKYYF 11 Unmodified _WRRSKREKYYF_ 0 0 0 REV__ENST00000563381.5_1_16:74923599-74938045:-|nuORF REV__ENST00000563381.5_1_16:74923599-74938045:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 809.9337768554688 2 809.933691 1617.85283 NaN NaN NaN NaN NaN NaN NaN 62.869 1 62.869 62.369 63.369 0 0 0 0 1.0082 1 29506 29506 0 0 1 + 38095 10958 24205 24281 42739 42739 0.06861695694124137 WRRSLVLL 8 Unmodified _WRRSLVLL_ 0 0 0 ENST00000487045.6_1_16:31191511-31194161:+|nuORF ENST00000487045.6_1_16:31191511-31194161:+|nuORF ENST00000487045.6_1_16:31191511-31194161:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 348.2225036621094 3 348.222188 1041.64473 2.4533 0.00085428 -1.349 -0.00046976 1.1042 0.00038452 348.2216229141588 50.279 0.23139 50.54 50.415 50.647 0.26146 17 7 3 0 0 0 0.72385 1 23012 23012 3.9444 0 1 957030 38096 8341 24206 24282 42740 42740 0.12557738567693377 WRRSLVLL 8 Unmodified _WRRSLVLL_ 0 0 0 ENST00000487045.6_1_16:31191511-31194161:+|nuORF ENST00000487045.6_1_16:31191511-31194161:+|nuORF ENST00000487045.6_1_16:31191511-31194161:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 348.2229309082031 3 348.222188 1041.64473 2.4558 0.00085518 -1.2495 -0.00043511 1.2063 0.00042007 348.22171981386526 49.608 0.20679 50.265 50.167 50.373 0.65735 16 6 3 0 0 0 0.64827 1 22689 22689 10.074 1.6296 1 946170 38097 8341 24206 24282 42741 42741 0.12557738567693377 WRRSLVLL 8 Unmodified _WRRSLVLL_ 0 0 0 ENST00000487045.6_1_16:31191511-31194161:+|nuORF ENST00000487045.6_1_16:31191511-31194161:+|nuORF ENST00000487045.6_1_16:31191511-31194161:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 348.222188 1041.64473 2.4533 0.00085428 -1.349 -0.00046976 1.1042 0.00038452 348.2216229141588 50.279 0.23139 50.54 50.415 50.647 0.26146 0.13768 -5.3641E-05 NaN 10.074 17 7 3 NaN NaN NaN NaN 0 NaN NaN 0 957030 38098 8341 24206 24282 0.12557738567693377 WRRSMWRWRTR 11 Unmodified _WRRSMWRWRTR_ 0 0 0 ENST00000330978.3_1_16:29465045-29465621:-|nuORF;ENST00000568556.1_3_16:29458291-29465582:-|nuORF ENST00000330978.3_1_16:29465045-29465621:-|nuORF ENST00000330978.3_1_16:29465045-29465621:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.3929443359375 3 559.632027 1675.87425 NaN NaN NaN NaN NaN NaN NaN 63.932 1 64.647 64.147 65.147 0.71521 0 0 0 1.0082 1 30023 30023 0 0 1 38099 6988 24207 24283 42742 42742 0.06334802241804027 WRRSMWRWRTR 11 Unmodified _WRRSMWRWRTR_ 0 0 0 ENST00000330978.3_1_16:29465045-29465621:-|nuORF;ENST00000568556.1_3_16:29458291-29465582:-|nuORF ENST00000330978.3_1_16:29465045-29465621:-|nuORF ENST00000330978.3_1_16:29465045-29465621:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 559.23876953125 3 559.632027 1675.87425 NaN NaN NaN NaN NaN NaN NaN 83.643 1 83.688 83.188 84.188 0.045006 0 0 0 1.0082 1 41556 41556 0 0 1 38100 6988 24207 24283 42743 42743 0.06334802241804027 WRRSMWWRTRP 11 Unmodified _WRRSMWWRTRP_ 0 0 0 chr16:29454110-29454191|197|20.56|0.0|20.97|-|1|None,BOLA2-SMG1P6|1 chr16:29454110-29454191|197|20.56|0.0|20.97|-|1|None,BOLA2-SMG1P6|1 chr16:29454110-29454191|197|20.56|0.0|20.97|-|1|None,BOLA2-SMG1P6|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 809.4193115234375 2 809.420228 1616.8259 NaN NaN NaN NaN NaN NaN NaN 52.849 1 53.514 53.014 54.014 0.6644 0 0 0 1.0082 1 24168 24168 0 0 1 38101 154 24208 24284 42744 42744 0.042163086019172624 WRRSWTKF 8 Unmodified _WRRSWTKF_ 0 0 0 REV__ENSG00000072818|ENST00000158762|ACAP1 REV__ENSG00000072818|ENST00000158762|ACAP1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 389.8518371582031 3 389.545442 1165.6145 2.6392 0.0010281 -3.3356 -0.0012994 -0.69641 -0.00027128 389.8784842928668 52.068 0.14057 52.73 52.66 52.801 0.66198 6 5 2 0 0 0 0.14244 1 23787 23787 3.5965 0.60125 1 231840 + 38102 10498 24209 24285 42745 42745 0.03831379902521803 WRRVRRSVRLR 11 Unmodified _WRRVRRSVRLR_ 0 0 0 REV__ENST00000488132.5_1_3:98437266-98451455:-|nuORF REV__ENST00000488132.5_1_3:98437266-98451455:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 770.4820556640625 2 770.482008 1538.94946 NaN NaN NaN NaN NaN NaN NaN 77.756 1 78.009 77.509 78.509 0.25335 0 0 0 1.0082 1 35809 35809 0 0 1 + 38103 16777 24210 24286 42746 42746 0.20154727764565905 WRRWCWRWPWR 11 Unmodified _WRRWCWRWPWR_ 0 0 0 nc|ENSG00000127252|Q9HDD0-2|PLAAT1 nc|ENSG00000127252|Q9HDD0-2|PLAAT1 nc|ENSG00000127252|Q9HDD0-2|PLAAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 887.446533203125 2 887.444037 1772.87352 NaN NaN NaN NaN NaN NaN NaN 87.853 1 88.531 88.031 89.031 0.67818 0 0 0 1.0082 1 40464 40464 0 0 1 38104 9627 24211 24287 42747 42747 0.018000075927602666 WRRWKHWWPGL 11 Unmodified _WRRWKHWWPGL_ 0 0 0 ENST00000373115.4_1_10:73771236-73771377:+|nuORF ENST00000373115.4_1_10:73771236-73771377:+|nuORF ENST00000373115.4_1_10:73771236-73771377:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 804.428955078125 2 804.428379 1606.8422 NaN NaN NaN NaN NaN NaN NaN 68.835 1 69.494 68.994 69.994 0.65924 0 0 0 1.0082 1 31554 31554 0 0 1 38105 7353 24212 24288 42748 42748 0.06305757830341463 WRRWNRFCRRK 11 Unmodified _WRRWNRFCRRK_ 0 0 0 nc|ENSG00000151067|Q13936-2|CACNA1C;nc|ENSG00000151067|Q13936-6|CACNA1C;nc|ENSG00000151067|Q13936-34|CACNA1C;nc|ENSG00000151067|Q13936-28|CACNA1C;nc|ENSG00000151067|Q13936-36|CACNA1C;nc|ENSG00000151067|Q13936-33|CACNA1C;nc|ENSG00000151067|Q13936-14|CACNA1C;nc|ENSG00000151067|Q13936-18|CACNA1C;nc|ENSG00000151067|Q13936-11|CACNA1C;nc|ENSG00000151067|Q13936-5|CACNA1C;ENSG00000151067|ENST00000399655|CACNA1C;nc|ENSG00000151067|Q13936-17|CACNA1C;nc|ENSG00000151067|Q13936-4|CACNA1C;nc|ENSG00000151067|Q13936-8|CACNA1C;nc|ENSG00000151067|Q13936|CACNA1C;nc|ENSG00000151067|Q13936-3|CACNA1C;nc|ENSG00000151067|Q13936-9|CACNA1C;nc|ENSG00000151067|Q13936-10|CACNA1C;nc|ENSG00000151067|Q13936-31|CACNA1C;nc|ENSG00000151067|Q13936-30|CACNA1C;nc|ENSG00000151067|Q13936-13|CACNA1C;nc|ENSG00000151067|Q13936-27|CACNA1C;nc|ENSG00000151067|Q13936-24|CACNA1C;nc|ENSG00000151067|Q13936-19|CACNA1C;nc|ENSG00000151067|Q13936-35|CACNA1C;nc|ENSG00000151067|Q13936-20|CACNA1C;nc|ENSG00000151067|Q13936-21|CACNA1C;nc|ENSG00000151067|Q13936-22|CACNA1C;nc|ENSG00000151067|Q13936-23|CACNA1C;nc|ENSG00000151067|Q13936-37|CACNA1C;nc|ENSG00000151067|Q13936-7|CACNA1C;nc|ENSG00000151067|Q13936-26|CACNA1C;nc|ENSG00000151067|Q13936-15|CACNA1C;nc|ENSG00000151067|Q13936-16|CACNA1C;nc|ENSG00000151067|Q13936-29|CACNA1C;nc|ENSG00000151067|Q13936-25|CACNA1C;nc|ENSG00000151067|Q13936-32|CACNA1C;CACNA1C|p.V939Ffs*12|1|0.13|ENSG00000151067|chr12:2597251-2597251|G/-|frameshift_variant nc|ENSG00000151067|Q13936-2|CACNA1C nc|ENSG00000151067|Q13936-2|CACNA1C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 832.4559936523438 2 832.452394 1662.89023 NaN NaN NaN NaN NaN NaN NaN 54.364 1 55.03 54.53 55.53 0.6665 0 0 0 1.0082 1 24867 24867 0 0 1 38106 3689 24213 24289 42749 42749 0.08530508478725096 WRRWNRFCRRK 11 Unmodified _WRRWNRFCRRK_ 0 0 0 nc|ENSG00000151067|Q13936-2|CACNA1C;nc|ENSG00000151067|Q13936-6|CACNA1C;nc|ENSG00000151067|Q13936-34|CACNA1C;nc|ENSG00000151067|Q13936-28|CACNA1C;nc|ENSG00000151067|Q13936-36|CACNA1C;nc|ENSG00000151067|Q13936-33|CACNA1C;nc|ENSG00000151067|Q13936-14|CACNA1C;nc|ENSG00000151067|Q13936-18|CACNA1C;nc|ENSG00000151067|Q13936-11|CACNA1C;nc|ENSG00000151067|Q13936-5|CACNA1C;ENSG00000151067|ENST00000399655|CACNA1C;nc|ENSG00000151067|Q13936-17|CACNA1C;nc|ENSG00000151067|Q13936-4|CACNA1C;nc|ENSG00000151067|Q13936-8|CACNA1C;nc|ENSG00000151067|Q13936|CACNA1C;nc|ENSG00000151067|Q13936-3|CACNA1C;nc|ENSG00000151067|Q13936-9|CACNA1C;nc|ENSG00000151067|Q13936-10|CACNA1C;nc|ENSG00000151067|Q13936-31|CACNA1C;nc|ENSG00000151067|Q13936-30|CACNA1C;nc|ENSG00000151067|Q13936-13|CACNA1C;nc|ENSG00000151067|Q13936-27|CACNA1C;nc|ENSG00000151067|Q13936-24|CACNA1C;nc|ENSG00000151067|Q13936-19|CACNA1C;nc|ENSG00000151067|Q13936-35|CACNA1C;nc|ENSG00000151067|Q13936-20|CACNA1C;nc|ENSG00000151067|Q13936-21|CACNA1C;nc|ENSG00000151067|Q13936-22|CACNA1C;nc|ENSG00000151067|Q13936-23|CACNA1C;nc|ENSG00000151067|Q13936-37|CACNA1C;nc|ENSG00000151067|Q13936-7|CACNA1C;nc|ENSG00000151067|Q13936-26|CACNA1C;nc|ENSG00000151067|Q13936-15|CACNA1C;nc|ENSG00000151067|Q13936-16|CACNA1C;nc|ENSG00000151067|Q13936-29|CACNA1C;nc|ENSG00000151067|Q13936-25|CACNA1C;nc|ENSG00000151067|Q13936-32|CACNA1C;CACNA1C|p.V939Ffs*12|1|0.13|ENSG00000151067|chr12:2597251-2597251|G/-|frameshift_variant nc|ENSG00000151067|Q13936-2|CACNA1C nc|ENSG00000151067|Q13936-2|CACNA1C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 832.4561157226562 2 832.452394 1662.89023 NaN NaN NaN NaN NaN NaN NaN 59.47 1 60.135 59.635 60.635 0.66503 0 0 0 1.0082 1 27224 27224 0 0 1 38107 3689 24213 24289 42750 42750 0.08530508478725096 WRRWNRFNRRR 11 Unmodified _WRRWNRFNRRR_ 0 0 0 nc|ENSG00000157388|Q01668-4|CACNA1D;nc|ENSG00000157388|Q01668-3|CACNA1D;ENSG00000157388|ENST00000350061|CACNA1D;nc|ENSG00000157388|Q01668-2|CACNA1D nc|ENSG00000157388|Q01668-4|CACNA1D nc|ENSG00000157388|Q01668-4|CACNA1D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 852.4329833984375 2 851.972339 1701.93013 NaN NaN NaN NaN NaN NaN NaN 97.247 1 97.247 96.747 97.747 0 0 0 0 1.0082 1 52882 52882 0 0 1 38108 3948 24214 24290 42751 42751 0.10723771473658417 WRRWQVERRRW 11 Unmodified _WRRWQVERRRW_ 0 0 0 ENST00000508390.1_1_3:131245302-131245881:+|nuORF ENST00000508390.1_1_3:131245302-131245881:+|nuORF ENST00000508390.1_1_3:131245302-131245881:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.98095703125 3 571.981824 1712.92364 NaN NaN NaN NaN NaN NaN NaN 83.442 1 83.442 82.942 83.942 0 0 0 0 1.0082 1 42035 42035 0 0 1 38109 8530 24215 24291 42752 42752 0.09569833522277804 WRRWQVERRRW 11 Unmodified _WRRWQVERRRW_ 0 0 0 ENST00000508390.1_1_3:131245302-131245881:+|nuORF ENST00000508390.1_1_3:131245302-131245881:+|nuORF ENST00000508390.1_1_3:131245302-131245881:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 857.4698486328125 2 857.469098 1712.92364 NaN NaN NaN NaN NaN NaN NaN 83.138 1 83.183 82.683 83.683 0.045006 0 0 0 1.0082 1 41184 41184 0 0 1 38110 8530 24215 24291 42753 42753 0.09569833522277804 WRRWQVERRRW 11 Unmodified _WRRWQVERRRW_ 0 0 0 ENST00000508390.1_1_3:131245302-131245881:+|nuORF ENST00000508390.1_1_3:131245302-131245881:+|nuORF ENST00000508390.1_1_3:131245302-131245881:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 857.46875 2 857.469098 1712.92364 NaN NaN NaN NaN NaN NaN NaN 65.219 1 65.467 64.967 65.967 0.24803 0 0 0 1.0082 1 29879 29879 0 0 1 38111 8530 24215 24291 42754 42754 0.09569833522277804 WRRWQVERRRW 11 Unmodified _WRRWQVERRRW_ 0 0 0 ENST00000508390.1_1_3:131245302-131245881:+|nuORF ENST00000508390.1_1_3:131245302-131245881:+|nuORF ENST00000508390.1_1_3:131245302-131245881:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 857.4683227539062 2 857.469098 1712.92364 NaN NaN NaN NaN NaN NaN NaN 65.477 1 65.725 65.225 66.225 0.24848 0 0 0 1.0082 1 29997 29997 0 0 1 38112 8530 24215 24291 42755 42755 0.09569833522277804 WRRWQVERRRW 11 Unmodified _WRRWQVERRRW_ 0 0 0 ENST00000508390.1_1_3:131245302-131245881:+|nuORF ENST00000508390.1_1_3:131245302-131245881:+|nuORF ENST00000508390.1_1_3:131245302-131245881:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 857.4672241210938 2 857.469098 1712.92364 NaN NaN NaN NaN NaN NaN NaN 87.904 1 88.582 88.082 89.082 0.67818 0 0 0 1.0082 1 40487 40487 0 0 1 38113 8530 24215 24291 42756 42756 0.09569833522277804 WRRWRKRRITR 11 Unmodified _WRRWRKRRITR_ 0 0 0 REV__ENST00000399933.7_1_9:6007594-6007651:-|nuORF REV__ENST00000399933.7_1_9:6007594-6007651:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 835.5089111328125 2 835.508558 1669.00256 NaN NaN NaN NaN NaN NaN NaN 31.002 1 31.002 30.502 31.502 0 0 0 0 1.0082 1 14017 14017 0 0 1 + 38114 16039 24216 24292 42757 42757 0.1948210554724028 WRRWRKRRITR 11 Unmodified _WRRWRKRRITR_ 0 0 0 REV__ENST00000399933.7_1_9:6007594-6007651:-|nuORF REV__ENST00000399933.7_1_9:6007594-6007651:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 835.5108642578125 2 835.508558 1669.00256 NaN NaN NaN NaN NaN NaN NaN 80.331 1 80.331 79.831 80.831 0 0 0 0 1.0082 1 39856 39856 0 0 1 + 38115 16039 24216 24292 42758 42758 0.1948210554724028 WRRWRKRWRRR 11 Unmodified _WRRWRKRWRRR_ 0 0 0 REV__ENST00000261427.9_1_4:39699814-39699901:+|nuORF REV__ENST00000261427.9_1_4:39699814-39699901:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 600.0250244140625 3 600.024358 1797.05124 NaN NaN NaN NaN NaN NaN NaN 57.559 1 57.559 57.059 58.059 0 0 0 0 1.0082 1 26534 26534 0 0 1 + 38116 14965 24217 24293 42759 42759 0.1846001890696698 WRRWRPLRLRR 11 Unmodified _WRRWRPLRLRR_ 0 0 0 ENST00000421814.6_1_5:162932622-162940637:+|nuORF ENST00000421814.6_1_5:162932622-162940637:+|nuORF ENST00000421814.6_1_5:162932622-162940637:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 826.006103515625 2 826.005651 1649.99675 NaN NaN NaN NaN NaN NaN NaN 12.393 1 12.393 11.893 12.893 0 0 0 0 1.0082 1 5371 5371 0 0 1 38117 7763 24218 24294 42760 42760 0.1977500703555961 WRRWRPLRLRR 11 Unmodified _WRRWRPLRLRR_ 0 0 0 ENST00000421814.6_1_5:162932622-162940637:+|nuORF ENST00000421814.6_1_5:162932622-162940637:+|nuORF ENST00000421814.6_1_5:162932622-162940637:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 826.008544921875 2 826.005651 1649.99675 NaN NaN NaN NaN NaN NaN NaN 74.74 1 74.74 74.24 75.24 0 0 0 0 1.0082 1 36556 36556 0 0 1 38118 7763 24218 24294 42761 42761 0.1977500703555961 WRRWWWRRRRR 11 Unmodified _WRRWWWRRRRR_ 0 0 0 ENST00000475204.5_1_1:70687068-70687435:+|nuORF;ENST00000370951.5_1_1:70671397-70687435:+|nuORF;ENST00000463877.1_1_1:70671397-70687435:+|nuORF;ENST00000395136.6_2_1:70687096-70687432:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 928.5247192382812 2 928.525073 1855.03559 NaN NaN NaN NaN NaN NaN NaN 27.383 1 27.383 26.883 27.883 0 0 0 0 1.0082 1 12329 12329 0 0 1 38119 7310 24219 24295 42762 42762 0.14227732389917946 WRRWWWRRRRR 11 Unmodified _WRRWWWRRRRR_ 0 0 0 ENST00000475204.5_1_1:70687068-70687435:+|nuORF;ENST00000370951.5_1_1:70671397-70687435:+|nuORF;ENST00000463877.1_1_1:70671397-70687435:+|nuORF;ENST00000395136.6_2_1:70687096-70687432:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 928.5242919921875 2 928.525073 1855.03559 NaN NaN NaN NaN NaN NaN NaN 29.338 1 30.127 29.627 30.627 0.78921 0 0 0 1.0082 1 13223 13223 0 0 1 38120 7310 24219 24295 42763 42763 0.14227732389917946 WRRWWWRRRRR 11 Unmodified _WRRWWWRRRRR_ 0 0 0 ENST00000475204.5_1_1:70687068-70687435:+|nuORF;ENST00000370951.5_1_1:70671397-70687435:+|nuORF;ENST00000463877.1_1_1:70671397-70687435:+|nuORF;ENST00000395136.6_2_1:70687096-70687432:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 928.5239868164062 2 928.525073 1855.03559 NaN NaN NaN NaN NaN NaN NaN 69.703 1 70.406 69.906 70.906 0.70302 0 0 0 1.0082 1 33370 33370 0 0 1 38121 7310 24219 24295 42764 42764 0.14227732389917946 WRRYRKWRPDN 11 Unmodified _WRRYRKWRPDN_ 0 0 0 REV__nc|ENSG00000059769|Q9H1X3-2|DNAJC25 REV__nc|ENSG00000059769|Q9H1X3-2|DNAJC25 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 544.959228515625 3 544.958797 1631.85456 NaN NaN NaN NaN NaN NaN NaN 62.302 1 62.302 61.802 62.802 0 0 0 0 1.0082 1 29186 29186 0 0 1 + 38122 10390 24220 24296 42765 42765 0.06390749502725157 WRSHKPYYHWL 11 Unmodified _WRSHKPYYHWL_ 0 0 0 ENST00000560691.5_1_15:71192806-71200991:+|nuORF ENST00000560691.5_1_15:71192806-71200991:+|nuORF ENST00000560691.5_1_15:71192806-71200991:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 786.89599609375 2 786.896577 1571.7786 NaN NaN NaN NaN NaN NaN NaN 68.478 1 69.18 68.68 69.68 0.70218 0 0 0 1.008 1 32649 32649 0.35063 0.35063 1 38123 8974 24221 24297 42766 42766 0.01558352602614832 WRSQDTLRWRR 11 Unmodified _WRSQDTLRWRR_ 0 0 0 REV__ENST00000579147.5_1_17:61904821-61905570:+|nuORF REV__ENST00000579147.5_1_17:61904821-61905570:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 780.4686279296875 2 780.41874 1558.82293 NaN NaN NaN NaN NaN NaN NaN 105.36 1 105.36 104.86 105.86 0 0 0 0 1.0073 1 57898 57898 1.1933 0 1 + 38124 15258 24222 24298 42767 42767 0.06586756748765765 WRSTMSRSQPS 11 Unmodified _WRSTMSRSQPS_ 0 0 0 ENST00000473174.1_2_9:116856172-116859990:-|nuORF ENST00000473174.1_2_9:116856172-116859990:-|nuORF ENST00000473174.1_2_9:116856172-116859990:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 661.8191528320312 2 661.817135 1321.61972 3.5993 0.0023821 -0.35448 -0.0002346 3.2449 0.0021475 661.8169676044674 19.23 0.1218 19.527 19.448 19.569 0.29753 24 13 2 0 0 0 0.69508 1 8730 8730 11.495 2.1116 1 829540 38125 8194 24223 24299 42768 42768 -0.028227290878248823 WRSTMSRSQPS 11 Unmodified _WRSTMSRSQPS_ 0 0 0 ENST00000473174.1_2_9:116856172-116859990:-|nuORF ENST00000473174.1_2_9:116856172-116859990:-|nuORF ENST00000473174.1_2_9:116856172-116859990:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 661.817135 1321.61972 3.5993 0.0023821 -0.35448 -0.0002346 3.2449 0.0021475 661.8169676044674 19.23 0.1218 19.527 19.448 19.569 0.29753 -0.00038395 0.00064797 NaN 11.495 24 13 2 NaN NaN NaN NaN 0 NaN NaN 0 829540 38126 8194 24223 24299 -0.028227290878248823 WRTEKQGLF 9 Unmodified _WRTEKQGLF_ 0 0 0 REV__ENST00000360597.8_1_5:134681666-134724783:-|nuORF REV__ENST00000360597.8_1_5:134681666-134724783:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 388.87738037109375 3 388.876857 1163.60874 2.7725 0.0010782 -0.32061 -0.00012468 2.4519 0.0009535 388.8766983108825 13.143 0.19188 13.143 13.021 13.213 0 17 10 2 0 0 0 1.1703 1 5751 5751 1.1933 0 1 236690 + 38127 15614 24224 24300 42769 42769 0.03348236600186283 WRTFIYGFYFY 11 Unmodified _WRTFIYGFYFY_ 0 0 0 nc|ENSG00000100150|O75140-8|DEPDC5;nc|ENSG00000100150|O75140-5|DEPDC5;nc|ENSG00000100150|O75140-1|DEPDC5;nc|ENSG00000100150|O75140-4|DEPDC5;nc|ENSG00000100150|O75140-9|DEPDC5;ENSG00000100150|ENST00000651528|DEPDC5 nc|ENSG00000100150|O75140-8|DEPDC5 nc|ENSG00000100150|O75140-8|DEPDC5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 781.874267578125 2 781.876988 1561.73942 NaN NaN NaN NaN NaN NaN NaN 88.412 1 88.412 87.912 88.912 0 0 0 0 1.008 1 45868 45868 0.26902 0 1 38128 1182 24225 24301 42770 42770 -0.01897792471640969 WRTKRWWLWRP 11 Unmodified _WRTKRWWLWRP_ 0 0 0 REV__ENST00000400979.2_1_1:166244958-166245396:-|nuORF REV__ENST00000400979.2_1_1:166244958-166245396:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 835.9633178710938 2 835.962586 1669.91062 NaN NaN NaN NaN NaN NaN NaN 44.703 1 44.971 44.471 45.471 0.26768 0 0 0 1.0082 1 20431 20431 0 0 1 + 38129 16043 24226 24302 42771 42771 0.10246002410190158 WRVRVKQKYHY 11 Unmodified _WRVRVKQKYHY_ 0 0 0 REV__ENSG00000171150|ENST00000394861|SOCS5 REV__ENSG00000171150|ENST00000394861|SOCS5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 781.9393310546875 2 781.938776 1561.863 NaN NaN NaN NaN NaN NaN NaN 82.275 1 82.275 81.775 82.775 0 0 0 0 1.0082 1 41128 41128 0 0 1 + 38130 13479 24227 24303 42772 42772 0.104543034193739 WRWDRDRYYYL 11 Unmodified _WRWDRDRYYYL_ 0 0 0 REV__ENSG00000243811|ENST00000216099|APOBEC3D REV__ENSG00000243811|ENST00000216099|APOBEC3D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 564.4840087890625 3 564.60743 1690.80046 NaN NaN NaN NaN NaN NaN NaN 66.127 1 66.127 65.627 66.627 0 0 0 0 1.0082 1 31571 31571 0 0 1 + 38131 14632 24228 24304 42773 42773 -0.017308874394757368 WRWDRDRYYYL 11 Unmodified _WRWDRDRYYYL_ 0 0 0 REV__ENSG00000243811|ENST00000216099|APOBEC3D REV__ENSG00000243811|ENST00000216099|APOBEC3D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.3952026367188 3 564.60743 1690.80046 NaN NaN NaN NaN NaN NaN NaN 66.149 1 66.853 66.353 67.353 0.7047 0 0 0 1.0082 1 31338 31338 0 0 1 + 38132 14632 24228 24304 42774 42774 -0.017308874394757368 WRWKYEEERRK 11 Unmodified _WRWKYEEERRK_ 0 0 0 ENSG00000198483|ENST00000355594|ANKRD35 ENSG00000198483|ENST00000355594|ANKRD35 ENSG00000198483|ENST00000355594|ANKRD35 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 833.435791015625 2 833.434055 1664.85356 NaN NaN NaN NaN NaN NaN NaN 49.741 1 50.002 49.502 50.502 0.26146 0 0 0 1.0082 1 22734 22734 0 0 1 38133 5892 24229 24305 42775 42775 0.047724903431571875 WRWLLVAPRL 10 Unmodified _WRWLLVAPRL_ 0 0 0 ENST00000405995.5_1_9:134372122-134372218:+|nuORF ENST00000405995.5_1_9:134372122-134372218:+|nuORF ENST00000405995.5_1_9:134372122-134372218:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.26922607421875 3 437.267909 1308.7819 2.9858 0.0013056 0.13911 6.0828E-05 3.1249 0.0013664 437.2678601822451 48.913 1.0703 49.175 48.816 49.886 0.26209 142 40 4 0 0 0 0.90778 1 22480 22480 3.3196 0.24738 1 8824200 38134 7640 24230 24306 42776 42776 0.13985647447270821 WRWLLVAPRL 10 Unmodified _WRWLLVAPRL_ 0 0 0 ENST00000405995.5_1_9:134372122-134372218:+|nuORF ENST00000405995.5_1_9:134372122-134372218:+|nuORF ENST00000405995.5_1_9:134372122-134372218:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 328.2036437988281 4 328.202751 1308.7819 2.375 0.00077947 0.47458 0.00015576 2.8495 0.00093522 328.2028528395296 48.561 1.7169 49.216 48.587 50.304 0.65524 200 63 5 0 0 0 0.93584 1 22168 22168 1.7423 0.96574 1 18120000 38135 7640 24230 24306 42777 42777 0.13985647447270821 WRWLTFWRRLQ 11 Unmodified _WRWLTFWRRLQ_ 0 0 0 nc|ENSG00000164284|Q8TAA5-2|GRPEL2 nc|ENSG00000164284|Q8TAA5-2|GRPEL2 nc|ENSG00000164284|Q8TAA5-2|GRPEL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 824.4537353515625 2 824.454594 1646.89463 NaN NaN NaN NaN NaN NaN NaN 87.826 1 87.826 87.326 88.326 0 0 0 0 1.0082 1 45407 45407 0 0 1 38136 9723 24231 24307 42778 42778 0.09706296173271767 WRWLTFWRRLQ 11 Unmodified _WRWLTFWRRLQ_ 0 0 0 nc|ENSG00000164284|Q8TAA5-2|GRPEL2 nc|ENSG00000164284|Q8TAA5-2|GRPEL2 nc|ENSG00000164284|Q8TAA5-2|GRPEL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 824.4522705078125 2 824.454594 1646.89463 NaN NaN NaN NaN NaN NaN NaN 85.302 1 85.967 85.467 86.467 0.66566 0 0 0 1.0082 1 39282 39282 0 0 1 38137 9723 24231 24307 42779 42779 0.09706296173271767 WRWREWRPWVT 11 Unmodified _WRWREWRPWVT_ 0 0 0 ENST00000589087.5_1_19:2806818-2807876:+|nuORF ENST00000589087.5_1_19:2806818-2807876:+|nuORF ENST00000589087.5_1_19:2806818-2807876:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 829.4293823242188 2 829.428576 1656.8426 NaN NaN NaN NaN NaN NaN NaN 103.28 1 103.28 102.78 103.78 0 0 0 0 1.0082 1 56936 56936 0 0 1 38138 9214 24232 24308 42780 42780 0.04045132759506487 WRWRRWRKRWR 11 Unmodified _WRWRRWRKRWR_ 0 0 0 REV__ENST00000261427.9_1_4:39699814-39699901:+|nuORF REV__ENST00000261427.9_1_4:39699814-39699901:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 914.5223999023438 2 914.521999 1827.02945 NaN NaN NaN NaN NaN NaN NaN 69.563 1 70.224 69.724 70.724 0.66071 0 0 0 1.0082 1 31892 31892 0 0 1 + 38139 14965 24233 24309 42781 42781 0.149012141583853 WRWRSLRTRRR 11 Unmodified _WRWRSLRTRRR_ 0 0 0 ENST00000344697.2_1_3:43122946-43147521:-|nuORF ENST00000344697.2_1_3:43122946-43147521:-|nuORF ENST00000344697.2_1_3:43122946-43147521:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 814.9807739257812 2 814.97709 1627.93963 NaN NaN NaN NaN NaN NaN NaN 31.216 1 32.004 31.504 32.504 0.78879 0 0 0 1.0082 1 14096 14096 0 0 1 38140 7103 24234 24310 42782 42782 0.15077539759158753 WRWRWRRWRR 10 Unmodified _WRWRWRRWRR_ 0 0 0 ENST00000253814.5_1_5:141488387-141511833:+|nuORF ENST00000253814.5_1_5:141488387-141511833:+|nuORF ENST00000253814.5_1_5:141488387-141511833:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 850.4710083007812 2 850.474518 1698.93448 NaN NaN NaN NaN NaN NaN NaN 58.129 1 58.129 57.629 58.629 0 0 0 0 1.002 1 26812 26812 0 0 1 38141 6511 24235 24311 42783 42783 0.11297280687222155 WRWRWRRWRR 10 Unmodified _WRWRWRRWRR_ 0 0 0 ENST00000253814.5_1_5:141488387-141511833:+|nuORF ENST00000253814.5_1_5:141488387-141511833:+|nuORF ENST00000253814.5_1_5:141488387-141511833:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 850.4732666015625 2 850.474518 1698.93448 NaN NaN NaN NaN NaN NaN NaN 51.833 1 52.495 51.995 52.995 0.66198 0 0 0 1.002 1 23703 23703 0 0 1 38142 6511 24235 24311 42784 42784 0.11297280687222155 WRWRWRRWRRS 11 Unmodified _WRWRWRRWRRS_ 0 0 0 ENST00000253814.5_1_5:141488387-141511833:+|nuORF ENST00000253814.5_1_5:141488387-141511833:+|nuORF ENST00000253814.5_1_5:141488387-141511833:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 893.989501953125 2 893.990532 1785.96651 NaN NaN NaN NaN NaN NaN NaN 72.728 1 72.728 72.228 73.228 0 0 0 0 1.0082 1 35385 35385 0 0 1 38143 6511 24236 24312 42785 42785 0.10496648370349249 WRWRWRRWRRS 11 Unmodified _WRWRWRRWRRS_ 0 0 0 ENST00000253814.5_1_5:141488387-141511833:+|nuORF ENST00000253814.5_1_5:141488387-141511833:+|nuORF ENST00000253814.5_1_5:141488387-141511833:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 893.9890747070312 2 893.990532 1785.96651 NaN NaN NaN NaN NaN NaN NaN 108.6 1 108.6 108.1 109.1 0 0 0 0 1.0082 1 59457 59457 0 0 1 38144 6511 24236 24312 42786 42786 0.10496648370349249 WRWRWSRMLRR 11 Unmodified _WRWRWSRMLRR_ 0 0 0 REV__ENST00000414613.1_1_2:61164392-61164575:-|nuORF REV__ENST00000414613.1_1_2:61164392-61164575:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 844.9623413085938 2 844.962594 1687.91064 NaN NaN NaN NaN NaN NaN NaN 82.684 1 82.684 82.184 83.184 0 0 0 0 1.0082 1 41476 41476 0 0 1 + 38145 16124 24237 24313 42787 42787 0.09419679138545689 WRWSWWWLKWF 11 Unmodified _WRWSWWWLKWF_ 0 0 0 REV__chr12:54282611-54283827|540|49.39|0.0|22.24|+|1|HNRNPA1,HNRNPA1|1 REV__chr12:54282611-54283827|540|49.39|0.0|22.24|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.6314697265625 3 589.629617 1765.86702 NaN NaN NaN NaN NaN NaN NaN 76.961 1 76.961 76.461 77.461 0 0 0 0 1.0082 1 37725 37725 0 0 1 + 38146 10023 24238 24314 42788 42788 0.014723929130468605 WRWSWWWLKWF 11 Unmodified _WRWSWWWLKWF_ 0 0 0 REV__chr12:54282611-54283827|540|49.39|0.0|22.24|+|1|HNRNPA1,HNRNPA1|1 REV__chr12:54282611-54283827|540|49.39|0.0|22.24|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 883.9422607421875 2 883.940788 1765.86702 NaN NaN NaN NaN NaN NaN NaN 82.086 1 82.17 81.67 82.67 0.084106 0 0 0 1.0082 1 40473 40473 0 0 1 + 38147 10023 24238 24314 42789 42789 0.014723929130468605 WRWSWWWLKWF 11 Unmodified _WRWSWWWLKWF_ 0 0 0 REV__chr12:54282611-54283827|540|49.39|0.0|22.24|+|1|HNRNPA1,HNRNPA1|1 REV__chr12:54282611-54283827|540|49.39|0.0|22.24|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 883.9391479492188 2 883.940788 1765.86702 NaN NaN NaN NaN NaN NaN NaN 97.394 1 97.465 96.965 97.965 0.070648 0 0 0 1.0082 1 52056 52056 0 0 1 + 38148 10023 24238 24314 42790 42790 0.014723929130468605 WRWVRQPV 8 Unmodified _WRWVRQPV_ 0 0 0 nc|ENSG00000168214|Q06330-3|RBPJ;nc|ENSG00000168214|Q06330-2|RBPJ;nc|ENSG00000168214|Q06330-5|RBPJ;nc|ENSG00000168214|Q06330-4|RBPJ;nc|ENSG00000168214|Q06330-6|RBPJ;ENSG00000168214|ENST00000355476|RBPJ;nc|ENSG00000168214|Q06330|RBPJ;ENST00000505727.1_1_4:26431998-26432626:+|nuORF nc|ENSG00000168214|Q06330-3|RBPJ nc|ENSG00000168214|Q06330-3|RBPJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 376.214599609375 3 376.213804 1125.61958 2.6517 0.00099762 -0.44636 -0.00016793 2.2054 0.00082969 376.213603144372 56.018 0.6312 56.283 55.937 56.568 0.26543 86 26 4 0 0 0 0.72814 1 25496 25496 3.5965 0.0094347 1 3026000 38149 4614 24239 24315 42791 42791 0.06179683765117261 WRWWAVKMRDW 11 Unmodified _WRWWAVKMRDW_ 0 0 0 REV__ENSG00000004961|ENST00000380762|HCCS REV__ENSG00000004961|ENST00000380762|HCCS MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 810.084716796875 2 810.406255 1618.79796 NaN NaN NaN NaN NaN NaN NaN 79.326 1 79.326 78.826 79.826 0 0 0 0 1.008 1 39181 39181 0.26902 0.26902 1 + 38150 10171 24240 24316 42792 42792 0.013309856218256755 WRWWRRPNWPR 11 Unmodified _WRWWRRPNWPR_ 0 0 0 REV__ENST00000564348.5_1_19:7982609-7983760:+|nuORF REV__ENST00000564348.5_1_19:7982609-7983760:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 848.4490356445312 2 848.447634 1694.88072 NaN NaN NaN NaN NaN NaN NaN 80.266 1 80.266 79.766 80.766 0 0 0 0 1.0082 1 39808 39808 0 0 1 + 38151 17399 24241 24317 42793 42793 0.061070634648785926 WRWWRWTFPRP 11 Unmodified _WRWWRWTFPRP_ 0 0 0 chr5:1062509-1063844|226|12.73|0.57|4.48|-|1|None,SLC12A7|1 chr5:1062509-1063844|226|12.73|0.57|4.48|-|1|None,SLC12A7|1 chr5:1062509-1063844|226|12.73|0.57|4.48|-|1|None,SLC12A7|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 837.4358520507812 2 837.433661 1672.85277 NaN NaN NaN NaN NaN NaN NaN 89.63 1 89.694 89.194 90.194 0.064346 0 0 0 1.0082 1 45977 45977 0 0 1 38152 175 24242 24318 42794 42794 0.04325740484750895 WRWWRWTFPRP 11 Unmodified _WRWWRWTFPRP_ 0 0 0 chr5:1062509-1063844|226|12.73|0.57|4.48|-|1|None,SLC12A7|1 chr5:1062509-1063844|226|12.73|0.57|4.48|-|1|None,SLC12A7|1 chr5:1062509-1063844|226|12.73|0.57|4.48|-|1|None,SLC12A7|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 837.4368896484375 2 837.433661 1672.85277 NaN NaN NaN NaN NaN NaN NaN 99.79 1 100.39 99.887 100.89 0.59717 0 0 0 1.0082 1 46169 46169 0 0 1 38153 175 24242 24318 42795 42795 0.04325740484750895 WRYHKRVRRWS 11 Unmodified _WRYHKRVRRWS_ 0 0 0 REV__ENST00000396757.5_1_9:35615990-35616170:-|nuORF REV__ENST00000396757.5_1_9:35615990-35616170:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 815.4528198242188 2 815.452917 1628.89128 NaN NaN NaN NaN NaN NaN NaN 90 1 90 89.5 90.5 0 0 0 0 1.0082 1 47174 47174 0 0 1 + 38154 16007 24243 24319 42796 42796 0.10199046119282684 WRYNLDNFRYY 11 Unmodified _WRYNLDNFRYY_ 0 0 0 REV__ENST00000514430.5_1_4:103612112-103682069:-|nuORF REV__ENST00000514430.5_1_4:103612112-103682069:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 805.3836059570312 2 805.380957 1608.74736 NaN NaN NaN NaN NaN NaN NaN 75.957 1 76.214 75.714 76.714 0.25704 0 0 0 1.008 1 34965 34965 0.30703 0.03801 1 + 38155 17006 24244 24320 42797 42797 -0.03266265222146103 WRYRQRKFEKF 11 Unmodified _WRYRQRKFEKF_ 0 0 0 ENST00000563686.5_1_18:52942938-53070719:-|nuORF ENST00000563686.5_1_18:52942938-53070719:-|nuORF ENST00000563686.5_1_18:52942938-53070719:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 821.9982299804688 2 822.449508 1642.88446 2.3607 0.0019416 -0.77824 -0.00064006 1.5825 0.0013015 822.9481009944553 105.53 0.084045 105.58 105.56 105.65 0.050888 5 4 2 0 0 0 0.13295 1 57114 57114 0 0 1 2957100 38156 9018 24245 24321 42798 42798 0.08873688448056782 WSAVAIVMFD 10 Unmodified _WSAVAIVMFD_ 0 0 0 nc|ENSG00000186439|Q13061-3|TRDN;nc|ENSG00000186439|Q13061-2|TRDN;ENSG00000186439|ENST00000334268|TRDN nc|ENSG00000186439|Q13061-3|TRDN nc|ENSG00000186439|Q13061-3|TRDN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.1927490234375 3 380.191565 1137.55287 NaN NaN NaN NaN NaN NaN NaN 76.061 1 76.725 76.225 77.225 0.66387 0 0 0 0.99774 1 35041 35041 1.7423 0.67081 1 38157 5570 24246 24322 42799 42799 -0.010407326316453691 WSCHGAAA 8 Unmodified _WSCHGAAA_ 0 0 0 REV__ENSG00000076650|ENST00000170564|GPATCH1 REV__ENSG00000076650|ENST00000170564|GPATCH1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 802.3307495117188 1 802.330084 801.322807 3.5424 0.0028422 -1.8749 -0.0015043 1.6675 0.0013379 802.3281912459412 44.3 0.20242 45.121 45.065 45.268 0.82074 11 10 2 0 0 0 0.7471 1 20191 20191 0 0 1 183900 + 38158 10543 24247 24323 42800 42800 -0.08580101453947009 WSHRRRRPRRR 11 Unmodified _WSHRRRRPRRR_ 0 0 0 REV__ENST00000358344.7_1_5:177631560-177631635:+|nuORF REV__ENST00000358344.7_1_5:177631560-177631635:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 809.8823852539062 2 809.977956 1617.94136 NaN NaN NaN NaN NaN NaN NaN 100.37 1 100.37 99.872 100.87 0 0 0 0 1.0082 1 55379 55379 0.26902 0.26902 1 + 38159 15580 24248 24324 42801 42801 0.15710593567791875 WSIIIKLIGH 10 Unmodified _WSIIIKLIGH_ 0 0 0 REV__ENSG00000198862|ENST00000361371|LTN1 REV__ENSG00000198862|ENST00000361371|LTN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.9153137207031 3 393.913131 1178.71756 NaN NaN NaN NaN NaN NaN NaN 38.378 1 39.012 38.512 39.512 0.63388 0 0 0 1.0003 1 17552 17552 0.62683 0 1 + 38160 14371 24249 24325 42802 42802 0.13535447570461656 WSKAKLHL 8 Unmodified _WSKAKLHL_ 0 0 0 REV__nc|ENSG00000157796|Q8NEZ3-2|WDR19 REV__nc|ENSG00000157796|Q8NEZ3-2|WDR19 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 328.2002868652344 3 328.199272 981.575986 NaN NaN NaN NaN NaN NaN NaN 42.474 1 43.282 42.782 43.782 0.80855 0 0 0 0.99035 1 19296 19296 1.4819 0 1 + 38161 17991 24250 24326 42803 42803 0.08446074267999393 WSKFFASI 8 Unmodified _WSKFFASI_ 0 0 0 nc|ENSG00000135636|O75923-3|DYSF;nc|ENSG00000135636|O75923-9|DYSF;nc|ENSG00000135636|O75923|DYSF;nc|ENSG00000135636|O75923-14|DYSF;nc|ENSG00000135636|O75923-6|DYSF;nc|ENSG00000135636|O75923-12|DYSF;nc|ENSG00000135636|O75923-5|DYSF;nc|ENSG00000135636|O75923-11|DYSF;nc|ENSG00000135636|O75923-4|DYSF;nc|ENSG00000135636|O75923-10|DYSF;nc|ENSG00000135636|O75923-2|DYSF;nc|ENSG00000135636|O75923-8|DYSF;nc|ENSG00000135636|O75923-7|DYSF;ENSG00000135636|ENST00000410020|DYSF;nc|ENSG00000135636|O75923-15|DYSF nc|ENSG00000135636|O75923-3|DYSF nc|ENSG00000135636|O75923-3|DYSF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 329.1877136230469 3 329.176244 984.506903 NaN NaN NaN NaN NaN NaN NaN 69.735 1 70.438 69.938 70.938 0.70302 0 0 0 0.99035 1 33386 33386 3.2813 0 1 38162 2885 24251 24327 42804 42804 0.014029902484139711 WSKPRLLRRIV 11 Unmodified _WSKPRLLRRIV_ 0 0 0 ENST00000470731.5_1_7:2598728-2641152:+|nuORF;nc|ENSG00000106012|Q6IPM2-2|IQCE;nc|ENSG00000106012|Q6IPM2-3|IQCE;nc|ENSG00000106012|Q6IPM2-4|IQCE;ENSG00000106012|ENST00000402050|IQCE ENST00000470731.5_1_7:2598728-2641152:+|nuORF ENST00000470731.5_1_7:2598728-2641152:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 356.711669921875 4 356.730669 1422.89357 2.4607 0.00087782 2.1591 0.00077021 4.6198 0.001648 356.7316506279054 62.883 0.34404 63.133 62.97 63.314 0.24965 28 22 2 0 0 0 0.13295 1 28758 28758 1.0136 0.87368 1 554120 38163 1548 24252 24328 42805 42805 0.19904081804384077 WSKPTWPCPC 10 Unmodified _WSKPTWPCPC_ 0 0 0 REV__ENST00000405201.5_1_12:124839110-124839427:-|nuORF REV__ENST00000405201.5_1_12:124839110-124839427:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 402.18084716796875 3 402.180783 1203.52052 NaN NaN NaN NaN NaN NaN NaN 25.832 1 26.1 25.6 26.6 0.26777 0 0 0 0.99995 1 11729 11729 1.7423 0.14999 1 + 38164 16061 24253 24329 42806 42806 -0.07309843306302355 WSLSINPVR 9 Unmodified _WSLSINPVR_ 0 0 0 ENST00000464606.5_1_7:138749633-138758612:-|nuORF ENST00000464606.5_1_7:138749633-138758612:-|nuORF ENST00000464606.5_1_7:138749633-138758612:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.8704528808594 3 357.869703 1070.58728 1.9901 0.00071218 0.49327 0.00017653 2.4833 0.00088871 357.86982778898823 68.783 0.18839 68.783 68.627 68.815 0 30 19 2 0 0 0 0.80651 1 33110 33110 4.5289 2.0304 1 1368000 38165 8115 24254 24330 42807 42807 0.054808515714512396 WSLSINPVR 9 Unmodified _WSLSINPVR_ 0 0 0 ENST00000464606.5_1_7:138749633-138758612:-|nuORF ENST00000464606.5_1_7:138749633-138758612:-|nuORF ENST00000464606.5_1_7:138749633-138758612:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 357.869703 1070.58728 2.8644 0.0010251 1.4018 0.00050166 4.2662 0.0015268 357.870171450816 68.324 0.25405 68.577 68.464 68.718 0.25227 -0.10329 0.00044057 NaN 4.5289 30 14 3 NaN NaN NaN NaN 0 NaN NaN 0 453360 38166 8115 24254 24330 0.054808515714512396 WSMRMGSSL 9 Unmodified _WSMRMGSSL_ 0 0 0 REV__ENST00000463447.5_1_17:39673142-39673235:-|nuORF REV__ENST00000463447.5_1_17:39673142-39673235:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.7037353515625 2 527.744062 1053.47357 NaN NaN NaN NaN NaN NaN NaN 49.16 1 49.16 48.66 49.66 0 0 0 0 0.87786 1 22515 22515 6.7232 0 1 + 38167 16512 24255 24331 42808 42808 -0.05102702857425356 WSQTYCIRWT 10 Unmodified _WSQTYCIRWT_ 0 0 0 REV__ENST00000395360.6_1_12:48138126-48138687:-|nuORF REV__ENST00000395360.6_1_12:48138126-48138687:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 672.313232421875 2 672.313697 1342.61284 NaN NaN NaN NaN NaN NaN NaN 76.979 1 77.642 77.142 78.142 0.66303 0 0 0 1.0003 1 35473 35473 1.4819 0 1 + 38168 15983 24256 24332 42809 42809 -0.04476041968428035 WSRSRRRRTPW 11 Unmodified _WSRSRRRRTPW_ 0 0 0 REV__ENST00000586866.5_2_19:1077961-1079783:+|nuORF REV__ENST00000586866.5_2_19:1077961-1079783:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 772.4251098632812 2 772.426899 1542.83924 NaN NaN NaN NaN NaN NaN NaN 97.978 1 98.267 97.767 98.767 0.28923 0 0 0 1.0055 1 45069 45069 3.5871 2.2575 1 + 38169 17545 24257 24333 42810 42810 0.08953882705554861 WSSCGFGC 8 Unmodified _WSSCGFGC_ 0 0 0 REV__ENST00000580550.5_3_17:19551570-19552408:+|nuORF REV__ENST00000580550.5_3_17:19551570-19552408:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 846.2955932617188 1 846.290921 845.283645 4.3328 0.0036668 1.4273 0.0012079 5.7601 0.0048747 846.2929848146281 0.54525 0.16761 1.1667 1.0765 1.2441 0.62142 20 14 2 0 0 0 0.7471 1 264 264 0 0 1 27144 + 38170 17508 24258 24334 42811 42811 -0.14518569799804482 WSSCGFGC 8 Unmodified _WSSCGFGC_ 0 0 0 REV__ENST00000580550.5_3_17:19551570-19552408:+|nuORF REV__ENST00000580550.5_3_17:19551570-19552408:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 847.299072265625 1 846.290921 845.283645 4.3354 0.003669 0.15798 0.0001337 4.4934 0.0038027 846.292954779999 2.6167 0.27245 3.2388 3.0272 3.2996 0.6221 48 26 3 0 0 0 0.7471 2 1171 1171;1204 0 0 1 28025 + 38171 17508 24258 24334 42812;42813 42812 -0.14518569799804482 WSSCGFGC 8 Unmodified _WSSCGFGC_ 0 0 0 REV__ENST00000580550.5_3_17:19551570-19552408:+|nuORF REV__ENST00000580550.5_3_17:19551570-19552408:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 846.2970581054688 1 846.290921 845.283645 4.3354 0.003669 0.15798 0.0001337 4.4934 0.0038027 846.292954779999 2.6167 0.27245 3.2388 3.0272 3.2996 0.6221 48 26 3 0 0 0 0.14355 1 1124 1124 0 0 1 28025 + 38172 17508 24258 24334 42814 42814 -0.14518569799804482 WSSWGSWIQW 10 Unmodified _WSSWGSWIQW_ 0 0 0 ENST00000258341.4_1_1:183109617-183111692:+|nuORF ENST00000258341.4_1_1:183109617-183111692:+|nuORF ENST00000258341.4_1_1:183109617-183111692:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.2859802246094 3 441.536612 1321.58801 NaN NaN NaN NaN NaN NaN NaN 41.582 1 42.227 41.727 42.727 0.64451 0 0 0 1.0012 1 19022 19022 0.69767 0.19171 1 38173 6538 24259 24335 42815 42815 -0.0599235377947025 WSVEEISPRL 10 Unmodified _WSVEEISPRL_ 0 0 0 REV__ENSG00000162526|ENST00000373534|TSSK3 REV__ENSG00000162526|ENST00000373534|TSSK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.88531494140625 3 405.883789 1214.62954 2.712 0.0011008 1.1881 0.00048223 3.9002 0.001583 405.88411238662303 72.469 0.37722 72.728 72.609 72.987 0.25875 93 31 4 0 0 0 0.9146 1 33334 33334 1.4551 0.49284 1 2175500 + 38174 12940 24260 24336 42816 42816 0.030807821891812637 WSWYEWYRWRR 11 Unmodified _WSWYEWYRWRR_ 0 0 0 REV__ENST00000299314.11_1_12:102159966-102161843:-|nuORF REV__ENST00000299314.11_1_12:102159966-102161843:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 887.4295043945312 2 887.423491 1772.83243 NaN NaN NaN NaN NaN NaN NaN 68.194 1 68.194 67.694 68.694 0 0 0 0 1.0082 1 32812 32812 0 0 1 + 38175 15175 24261 24337 42817 42817 -0.02307474965732581 WTAPRNHPF 9 Unmodified _WTAPRNHPF_ 0 0 0 ENSG00000146856|ENST00000436302|AGBL3;nc|ENSG00000146856|Q8NEM8|AGBL3 ENSG00000146856|ENST00000436302|AGBL3 ENSG00000146856|ENST00000436302|AGBL3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.282958984375 2 563.283057 1124.55156 NaN NaN NaN NaN NaN NaN NaN 48.436 1 49.091 48.591 49.591 0.65524 0 0 0 0.75166 1 22164 22164 10.824 0 1 38176 3534 24262 24338 42818 42818 -0.005731858855369865 WTEMDCMISMC 11 Unmodified _WTEMDCMISMC_ 0 0 0 ENST00000528584.5_1_15:28900509-28916776:+|nuORF;ENST00000530420.5_1_15:28900570-28916776:+|nuORF;ENST00000529624.5_3_15:28877823-28916776:+|nuORF ENST00000528584.5_1_15:28900509-28916776:+|nuORF ENST00000528584.5_1_15:28900509-28916776:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 675.2388305664062 2 675.23878 1348.46301 NaN NaN NaN NaN NaN NaN NaN 14.753 1 15.406 14.906 15.906 0.65356 0 0 0 1.0082 1 6647 6647 0 0 1 38177 8691 24263 24339 42819 42819 -0.19728557680696213 WTEREIKKLLI 11 Unmodified _WTEREIKKLLI_ 0 0 0 REV__nc|ENSG00000128512|Q8N1I0|DOCK4 REV__nc|ENSG00000128512|Q8N1I0|DOCK4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 714.9323120117188 2 714.932294 1427.85004 NaN NaN NaN NaN NaN NaN NaN 42.188 1 42.458 41.958 42.958 0.27021 0 0 0 1.0082 1 19239 19239 0 0 1 + 38178 17927 24264 24340 42820 42820 0.153224275166167 WTGKVLYL 8 Unmodified _WTGKVLYL_ 0 0 0 nc|ENSG00000184788|Q86VE3-2|SATL1;ENSG00000184788|ENST00000644105|SATL1 nc|ENSG00000184788|Q86VE3-2|SATL1 nc|ENSG00000184788|Q86VE3-2|SATL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 490.2867126464844 2 490.284203 978.553853 NaN NaN NaN NaN NaN NaN NaN 70.109 1 70.812 70.312 71.312 0.70302 0 0 0 0.9851 1 33581 33581 6.7232 0.96273 1 38179 5461 24265 24341 42821 42821 0.06371849799552365 WTHDLRPSL 9 Unmodified _WTHDLRPSL_ 0 0 0 REV__nc|ENSG00000070371|P53675-2|CLTCL1 REV__nc|ENSG00000070371|P53675-2|CLTCL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 375.5340270996094 3 375.533091 1123.57744 2.7279 0.0010244 0.35702 0.00013407 3.0849 0.0011585 375.5331275860619 35.208 0.41041 35.831 35.719 36.129 0.62294 29 13 3 0 0 0 0.98132 1 16218 16218 2.4985 0 1 761460 + 38180 17866 24266 24342 42822 42822 0.020596635660922402 WTIKKIIFLIL 11 Unmodified _WTIKKIIFLIL_ 0 0 0 REV__ENST00000509630.1_1_4:145573840-145606800:+|nuORF REV__ENST00000509630.1_1_4:145573840-145606800:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 694.4619140625 2 694.457416 1386.90028 NaN NaN NaN NaN NaN NaN NaN 93.455 1 94.087 93.587 94.587 0.63115 0 0 0 1.0082 1 42991 42991 0 0 1 + 38181 16965 24267 24343 42823 42823 0.22230581912413072 WTKGIHKL 8 Unmodified _WTKGIHKL_ 0 0 0 REV__ENST00000480825.6_1_1:36933583-36933964:-|nuORF REV__ENST00000480825.6_1_1:36933583-36933964:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 328.2004089355469 3 328.199272 981.575986 2.3951 0.00078608 1.1347 0.00037239 3.5298 0.0011585 328.19953270787175 59.39 0.2402 59.649 59.542 59.782 0.2593 22 9 3 0 0 0 0.1432 1 27204 27204 1.4819 0 1 1464800 + 38182 11503 24268 24344 42824 42824 0.08446074267999393 WTKGIHKL 8 Unmodified _WTKGIHKL_ 0 0 0 REV__ENST00000480825.6_1_1:36933583-36933964:-|nuORF REV__ENST00000480825.6_1_1:36933583-36933964:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 328.199272 981.575986 1.9774 0.00064899 1.4095 0.0004626 3.387 0.0011116 328.1996798337458 59.218 0.41291 59.977 59.789 60.202 0.75894 0.14726 8.5777E-05 NaN 1.4819 57 29 3 NaN NaN NaN NaN 0 NaN NaN 0 856340 + 38183 11503 24268 24344 0.08446074267999393 WTKKRRRRKRR 11 Unmodified _WTKKRRRRKRR_ 0 0 0 REV__ENST00000389672.9_1_3:96533549-96533720:+|nuORF REV__ENST00000389672.9_1_3:96533549-96533720:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.019287109375 3 543.01698 1626.02911 NaN NaN NaN NaN NaN NaN NaN 97.734 1 97.734 97.234 98.234 0 0 0 0 1.0075 1 53301 53301 0.92553 0.85227 1 + 38184 15916 24269 24345 42825 42825 0.24113794438540026 WTKLHKLKRRK 11 Unmodified _WTKLHKLKRRK_ 0 0 0 REV__ENST00000542123.5_1_12:12966350-12967071:+|nuORF REV__ENST00000542123.5_1_12:12966350-12967071:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 373.99432373046875 4 374.243944 1492.94667 2.3078 0.00086369 1.1766 0.00044032 3.4844 0.001304 374.244273977813 43.727 0.50955 44.542 44.142 44.652 0.81444 58 26 3 0 0 0 0.13295 1 19909 19909 0.32927 0.23443 1 677860 + 38185 17226 24270 24346 42826 42826 0.2199145958702502 WTLKLLGL 8 Unmodified _WTLKLLGL_ 0 0 0 REV__ENST00000522068.5_1_19:48744304-48759075:-|nuORF REV__ENST00000522068.5_1_19:48744304-48759075:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 315.2047424316406 3 315.204023 942.590239 NaN NaN NaN NaN NaN NaN NaN 23.787 1 24.421 23.921 24.921 0.63441 0 0 0 0.99035 1 10880 10880 1.4819 0 1 + 38186 17052 24271 24347 42827 42827 0.11664726696278649 WTQLWFFRFV 10 Unmodified _WTQLWFFRFV_ 0 0 0 nc|ENSG00000157593|Q8TB61-2|SLC35B2;ENSG00000157593|ENST00000393812|SLC35B2 nc|ENSG00000157593|Q8TB61-2|SLC35B2 nc|ENSG00000157593|Q8TB61-2|SLC35B2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 715.37353515625 2 715.374415 1428.73428 NaN NaN NaN NaN NaN NaN NaN 51.812 1 51.812 51.312 52.312 0 0 0 0 1.0015 1 23720 23720 0.40072 0.050084 1 38187 3956 24272 24348 42828 42828 0.0370594845639971 WTRGLASP 8 Unmodified _WTRGLASP_ 0 0 0 REV__ENST00000330539.1_1_8:37593400-37593877:-|nuORF REV__ENST00000330539.1_1_8:37593400-37593877:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 444.2421569824219 2 444.240327 886.466101 3.1402 0.001395 0.84668 0.00037613 3.9869 0.0017711 444.2405834111779 56.088 0.48717 56.756 56.564 57.052 0.66829 56 27 3 0 0 0 0.74071 1 25704 25704 2.5775 0 1 2471700 + 38188 15371 24273 24349 42829 42829 0.01832648928814251 WTRLPRLWPL 10 Unmodified _WTRLPRLWPL_ 0 0 0 ENST00000587275.1_1_19:56173925-56175041:+|nuORF ENST00000587275.1_1_19:56173925-56175041:+|nuORF ENST00000587275.1_1_19:56173925-56175041:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 335.2019958496094 4 335.201479 1336.77681 1.961 0.00065732 0.30185 0.00010118 2.2628 0.0007585 335.2015946396094 54.681 1.3353 55.477 54.782 56.117 0.79552 126 86 2 0 0 0 0.94364 1 25206 25206 0.15932 0 1 1092000 38189 9194 24274 24350 42830 42830 0.1218934358464594 WTRPKRQRWPV 11 Unmodified _WTRPKRQRWPV_ 0 0 0 REV__ENST00000376714.7_1_13:96705526-96705706:-|nuORF REV__ENST00000376714.7_1_13:96705526-96705706:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 503.8604736328125 3 503.956505 1508.84768 2.9146 0.0014688 0.90078 0.00045395 3.8153 0.0019228 504.28978446173465 74.237 0.027046 74.496 74.472 74.499 0.25831 5 3 2 0 0 0 0.13295 1 34131 34131 0.094841 0.011491 1 293940 + 38190 15824 24275 24351 42831 42831 0.11361436622155452 WTRRKIRL 8 Unmodified _WTRRKIRL_ 0 0 0 ENST00000370483.9_1_10:101483824-101486797:-|nuORF ENST00000370483.9_1_10:101483824-101486797:-|nuORF ENST00000370483.9_1_10:101483824-101486797:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.859130859375 2 564.859267 1127.70398 NaN NaN NaN NaN NaN NaN NaN 50.807 1 51.625 51.125 52.125 0.81738 0 0 0 0.99035 1 23141 23141 0.69038 0.088878 1 38191 7302 24276 24352 42832 42832 0.14523634581883016 WTRRLRRLQRR 11 Unmodified _WTRRLRRLQRR_ 0 0 0 ENSG00000162068|ENST00000293973|NTN3 ENSG00000162068|ENST00000293973|NTN3 ENSG00000162068|ENST00000293973|NTN3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.4453735351562 3 532.997586 1595.97093 NaN NaN NaN NaN NaN NaN NaN 64.057 1 64.772 64.272 65.272 0.71521 0 0 0 1.0082 1 30123 30123 0.094841 0.094841 1 38192 4119 24277 24353 42833 42833 0.19678112793303626 WTRRRARKTEY 11 Unmodified _WTRRRARKTEY_ 0 0 0 REV__ENST00000508046.1_1_5:68609355-68609532:-|nuORF REV__ENST00000508046.1_1_5:68609355-68609532:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 761.921142578125 2 761.921115 1521.82768 NaN NaN NaN NaN NaN NaN NaN 16.677 1 17.335 16.835 17.835 0.65798 0 0 0 1.0082 1 7517 7517 0 0 1 + 38193 16947 24278 24354 42834 42834 0.08763640891561408 WTRRRRRQPRR 11 Unmodified _WTRRRRRQPRR_ 0 0 0 ENST00000588173.1_1_19:13264262-13264382:+|nuORF ENST00000588173.1_1_19:13264262-13264382:+|nuORF ENST00000588173.1_1_19:13264262-13264382:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 812.6123657226562 2 812.485614 1622.95667 NaN NaN NaN NaN NaN NaN NaN 99.761 1 99.761 99.261 100.26 0 0 0 0 1.0082 1 54931 54931 0 0 1 38194 9202 24279 24355 42835 42835 0.17011460364983577 WTRVLRSDL 9 Unmodified _WTRVLRSDL_ 0 0 0 ENST00000569441.5_1_16:733170-733950:-|nuORF;ENST00000568689.5_1_16:733170-734340:-|nuORF ENST00000569441.5_1_16:733170-733950:-|nuORF ENST00000569441.5_1_16:733170-733950:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 573.3271484375 2 573.324922 1144.63529 3.8403 0.0022017 0.6116 0.00035064 4.4519 0.0025524 573.3249027991417 19.738 0.23953 20.397 20.294 20.534 0.6583 31 17 3 0 0 0 0.83994 1 8950 8950 6.7232 0 1 244090 38195 9070 24280 24356 42836 42836 0.06875925491544876 WTSLARKSTDF 11 Unmodified _WTSLARKSTDF_ 0 0 0 REV__nc|ENSG00000138688|Q2LD37-4|BLTP1 REV__nc|ENSG00000138688|Q2LD37-4|BLTP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 437.8966369628906 3 437.894577 1310.6619 2.8436 0.0012452 0.47297 0.00020711 3.3166 0.0014523 437.89499005452495 36.267 0.23014 36.267 36.117 36.347 0 23 9 4 0 0 0 0.8052 1 16463 16463 6.6235 0.43161 1 613410 + 38196 12183 24281 24357 42837 42837 0.018995695921830702 WTSWLRRMWSW 11 Unmodified _WTSWLRRMWSW_ 0 0 0 ENST00000494566.5_1_11:64110692-64111255:+|nuORF ENST00000494566.5_1_11:64110692-64111255:+|nuORF ENST00000494566.5_1_11:64110692-64111255:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 797.8931274414062 2 797.890438 1593.76632 NaN NaN NaN NaN NaN NaN NaN 70.052 1 70.755 70.255 71.255 0.70302 0 0 0 1.0072 1 33551 33551 1.3295 0 1 38197 8423 24282 24358 42838 42838 -0.006810071320842326 WTWTSWRRCFR 11 Unmodified _WTWTSWRRCFR_ 0 0 0 ENST00000579520.5_1_17:79977061-79977748:-|nuORF ENST00000579520.5_1_17:79977061-79977748:-|nuORF ENST00000579520.5_1_17:79977061-79977748:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.262451171875 3 528.926217 1583.75682 3.1923 0.0016885 -0.39795 -0.00021048 2.7943 0.001478 529.2605488635644 35.589 0.55499 35.844 35.465 36.02 0.25524 30 19 2 0 0 0 0.91459 1 16243 16243 0.094841 0 1 383540 38198 9144 24283 24359 42839 42839 -0.011707754176313756 WVAKRDEW 8 Unmodified _WVAKRDEW_ 0 0 0 REV__ENST00000377990.6_2_2:65305075-65309709:+|nuORF REV__ENST00000377990.6_2_2:65305075-65309709:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.2765502929688 2 545.277441 1088.54033 NaN NaN NaN NaN NaN NaN NaN 70.728 1 71.39 70.89 71.89 0.66209 0 0 0 0.99035 1 32416 32416 0.69038 0 1 + 38199 15840 24284 24360 42840 42840 -0.00040007979691836226 WVDEERASL 9 Unmodified _WVDEERASL_ 0 0 0 ENSG00000147649|ENST00000336273|MTDH ENSG00000147649|ENST00000336273|MTDH ENSG00000147649|ENST00000336273|MTDH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.771240234375 2 552.769645 1103.52474 3.283 0.0018148 0.59139 0.0003269 3.8744 0.0021417 552.7699478801421 39.303 0.19495 40.1 40 40.195 0.79762 15 8 2 0 0 0 0.044468 1 17781 17781 49.554 20.473 1 291010 38200 3577 24285 24361 42841 42841 -0.022883392873836783 WVDEERASL 9 Unmodified _WVDEERASL_ 0 0 0 ENSG00000147649|ENST00000336273|MTDH ENSG00000147649|ENST00000336273|MTDH ENSG00000147649|ENST00000336273|MTDH MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 552.769645 1103.52474 3.6053 0.0019929 -0.48147 -0.00026614 3.1238 0.0017267 552.7693763642916 40.319 0.20088 40.319 40.199 40.4 0 0.10945 -0.00076007 NaN 49.554 9 6 2 NaN NaN NaN NaN 0 NaN NaN 0 1020300 38201 3577 24285 24361 -0.022883392873836783 WVDPNSPVL 9 Unmodified _WVDPNSPVL_ 0 0 0 ENSG00000187134|ENST00000380872|AKR1C1;ENSG00000151632|ENST00000380753|AKR1C2;nc|ENSG00000196139|P42330-2|AKR1C3;ENST00000477661.1_1_10:5010485-5019931:+|nuORF;ENST00000460124.5_1_10:5032190-5041484:-|nuORF;ENSG00000198610|ENST00000263126|AKR1C4;ENSG00000196139|ENST00000380554|AKR1C3 ENSG00000187134|ENST00000380872|AKR1C1 ENSG00000187134|ENST00000380872|AKR1C1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.7677612304688 2 513.766374 1025.5182 2.6422 0.0013575 0.052952 2.7205E-05 2.6952 0.0013847 513.7664266443381 66.331 0.2081 66.331 66.2 66.408 0 44 26 2 0 0 0 0.010018 1 31672 31672 81.89 47.788 1 3164300 38202 3720 24286 24362 42842 42842 0.0064576755189591495 WVDPNSPVL 9 Unmodified _WVDPNSPVL_ 0 0 0 ENSG00000187134|ENST00000380872|AKR1C1;ENSG00000151632|ENST00000380753|AKR1C2;nc|ENSG00000196139|P42330-2|AKR1C3;ENST00000477661.1_1_10:5010485-5019931:+|nuORF;ENST00000460124.5_1_10:5032190-5041484:-|nuORF;ENSG00000198610|ENST00000263126|AKR1C4;ENSG00000196139|ENST00000380554|AKR1C3 ENSG00000187134|ENST00000380872|AKR1C1 ENSG00000187134|ENST00000380872|AKR1C1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 513.7656860351562 2 513.766374 1025.5182 2.6387 0.0013557 -1.0752 -0.00055241 1.5635 0.00080326 513.7659709446643 65.403 0.22218 66.112 66.026 66.248 0.7089 46 26 3 0 0 0 0.034495 1 30945 30945 53.833 26.949 1 3871500 38203 3720 24286 24362 42843 42843 0.0064576755189591495 WVDPNSPVL 9 Unmodified _WVDPNSPVL_ 0 0 0 ENSG00000187134|ENST00000380872|AKR1C1;ENSG00000151632|ENST00000380753|AKR1C2;nc|ENSG00000196139|P42330-2|AKR1C3;ENST00000477661.1_1_10:5010485-5019931:+|nuORF;ENST00000460124.5_1_10:5032190-5041484:-|nuORF;ENSG00000198610|ENST00000263126|AKR1C4;ENSG00000196139|ENST00000380554|AKR1C3 ENSG00000187134|ENST00000380872|AKR1C1 ENSG00000187134|ENST00000380872|AKR1C1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 513.7686767578125 2 513.766374 1025.5182 3.5674 0.0018328 1.0779 0.00055378 4.6453 0.0023866 513.7666541538554 66.013 0.29697 66.261 66.065 66.362 0.24848 42 15 4 0 0 0 0.0020408 2 30243 30195;30243 103.75 59.341 1 4203500 38204 3720 24286 24362 42844;42845 42845 0.0064576755189591495 WVDPNSPVL 9 Unmodified _WVDPNSPVL_ 0 0 0 ENSG00000187134|ENST00000380872|AKR1C1;ENSG00000151632|ENST00000380753|AKR1C2;nc|ENSG00000196139|P42330-2|AKR1C3;ENST00000477661.1_1_10:5010485-5019931:+|nuORF;ENST00000460124.5_1_10:5032190-5041484:-|nuORF;ENSG00000198610|ENST00000263126|AKR1C4;ENSG00000196139|ENST00000380554|AKR1C3 ENSG00000187134|ENST00000380872|AKR1C1 ENSG00000187134|ENST00000380872|AKR1C1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1026.5289306640625 1 1026.52547 1025.5182 3.567 0.0036616 0.65819 0.00067565 4.2252 0.0043373 1026.5263746092705 66.025 0.20462 66.274 66.127 66.331 0.24847 16 9 2 0 0 0 0.0020408 2 30250 30206;30250 103.75 63.791 1 1164100 38205 3720 24286 24362 42846;42847 42847 0.0064576755189591495 WVDPNSPVL 9 Unmodified _WVDPNSPVL_ 0 0 0 ENSG00000187134|ENST00000380872|AKR1C1;ENSG00000151632|ENST00000380753|AKR1C2;nc|ENSG00000196139|P42330-2|AKR1C3;ENST00000477661.1_1_10:5010485-5019931:+|nuORF;ENST00000460124.5_1_10:5032190-5041484:-|nuORF;ENSG00000198610|ENST00000263126|AKR1C4;ENSG00000196139|ENST00000380554|AKR1C3 ENSG00000187134|ENST00000380872|AKR1C1 ENSG00000187134|ENST00000380872|AKR1C1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1026.5284423828125 1 1026.52547 1025.5182 3.6847 0.0037824 -2.0033 -0.0020565 1.6814 0.001726 1026.525138357731 65.416 0.36655 66.073 65.824 66.191 0.65672 30 19 2 0 0 0 0.0012766 1 30005 30005 122.18 55.723 1 1182400 38206 3720 24286 24362 42848 42848 0.0064576755189591495 WVDPNSPVL 9 Unmodified _WVDPNSPVL_ 0 0 0 ENSG00000187134|ENST00000380872|AKR1C1;ENSG00000151632|ENST00000380753|AKR1C2;nc|ENSG00000196139|P42330-2|AKR1C3;ENST00000477661.1_1_10:5010485-5019931:+|nuORF;ENST00000460124.5_1_10:5032190-5041484:-|nuORF;ENSG00000198610|ENST00000263126|AKR1C4;ENSG00000196139|ENST00000380554|AKR1C3 ENSG00000187134|ENST00000380872|AKR1C1 ENSG00000187134|ENST00000380872|AKR1C1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 513.76806640625 2 513.766374 1025.5182 3.507 0.0018018 0.60103 0.00030879 4.108 0.0021105 513.7663091959045 65.427 0.32014 66.084 65.92 66.24 0.65672 43 17 4 0 0 0 0.0079462 2 30007 30007;30057 85.642 39.621 1 3421800 38207 3720 24286 24362 42849;42850 42849 0.0064576755189591495 WVDPVHTVL 9 Unmodified _WVDPVHTVL_ 0 0 0 REV__ENST00000339486.7_1_18:21061340-21061403:+|nuORF REV__ENST00000339486.7_1_18:21061340-21061403:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.8422241210938 2 533.290017 1064.56548 3.0108 0.0016056 0.8141 0.00043415 3.8249 0.0020398 533.2903461024874 45.902 1.2285 46.167 45.369 46.598 0.26561 109 50 3 0 0 0 0.49692 1 21037 21037 12.532 0 1 1328300 + 38208 15446 24287 24363 42851 42851 0.03578046822894976 WVFRRRWRLNF 11 Unmodified _WVFRRRWRLNF_ 0 0 0 nc|ENSG00000169783|Q96FE5-2|LINGO1;ENSG00000169783|ENST00000355300|LINGO1 nc|ENSG00000169783|Q96FE5-2|LINGO1 nc|ENSG00000169783|Q96FE5-2|LINGO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 545.978271484375 3 545.975899 1634.90587 3.3543 0.0018314 0.43921 0.0002398 3.7935 0.0020712 545.9762391417472 51.361 0.14948 52.021 51.989 52.139 0.65956 12 9 2 0 0 0 0.91489 1 23496 23496 0 0 1 333250 38209 4712 24288 24364 42852 42852 0.11381118267445345 WVGKPIARV 9 Unmodified _WVGKPIARV_ 0 0 0 ENSG00000234127|ENST00000454678|TRIM26 ENSG00000234127|ENST00000454678|TRIM26 ENSG00000234127|ENST00000454678|TRIM26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 342.5478515625 3 342.546671 1024.61818 2.3432 0.00080267 1.4359 0.00049186 3.7791 0.0012945 342.5471286389877 38.036 0.31963 38.832 38.663 38.982 0.79552 24 10 3 0 0 0 1.0755 1 17249 17249 2.7352 1.5419 1 788640 38210 6194 24289 24365 42853 42853 0.10686049676337461 WVHRQNYRWE 10 Unmodified _WVHRQNYRWE_ 0 0 0 REV__ENST00000432815.2_1_1:173332252-173332432:-|nuORF REV__ENST00000432815.2_1_1:173332252-173332432:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 737.3602294921875 2 737.360359 1472.70617 NaN NaN NaN NaN NaN NaN NaN 78.663 1 79.127 78.627 79.627 0.4642 0 0 0 1.0015 1 38276 38276 0.40072 0 1 + 38211 16275 24290 24366 42854 42854 -0.011279814709723723 WVKEKVVA 8 Unmodified _WVKEKVVA_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-7|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.79132080078125 2 479.789653 957.564752 3.2949 0.0015808 0.29647 0.00014224 3.5913 0.0017231 479.7897182243144 20.005 0.47641 20.663 20.383 20.859 0.65829 100 40 3 0 0 0 0.033861 3 9068 9026;9068;9114 66.457 37.97 1 896030 38212 381 24291 24367 42855;42856;42857 42856 0.0842725217385123 WVKEKVVAL 9 Unmodified _WVKEKVVAL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-7|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.33349609375 2 536.331685 1070.64882 3.0988 0.001662 0.29768 0.00015965 3.3965 0.0018216 536.3318492086977 40.325 0.37705 40.325 40.116 40.493 0 42 12 5 0 0 0 7.1083E-14 2 18266 18266;18330 185.05 116.97 1 26571000 38213 381 24292 24368 42858;42859 42858 0.11631783270763663 WVKEKVVAL 9 Unmodified _WVKEKVVAL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-7|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.3336181640625 2 536.331685 1070.64882 3.1134 0.0016698 0.22992 0.00012331 3.3433 0.0017931 536.331806630724 39.232 0.48283 40.03 39.818 40.301 0.79762 76 22 4 0 0 0 1.1037E-08 4 17748 17699;17748;17805;17851 171.09 112.41 1 15310000 38214 381 24292 24368 42860;42861;42862;42863 42861 0.11631783270763663 WVKEKVVAL 9 Unmodified _WVKEKVVAL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-7|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 357.8911437988281 3 357.890215 1070.64882 2.3915 0.00085591 0.18989 6.7958E-05 2.5814 0.00092386 357.89036055898526 39.232 0.56858 40.03 39.818 40.387 0.79762 97 27 5 0 0 0 0.084899 2 17754 17709;17754 36.506 7.069 1 30192000 38215 381 24292 24368 42864;42865 42865 0.11631783270763663 WVKEKVVAL 9 Unmodified _WVKEKVVAL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-7|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.3323974609375 2 536.331685 1070.64882 3.0872 0.0016557 0.13853 7.43E-05 3.2257 0.00173 536.3317995093719 39.999 0.57251 40.266 40.037 40.609 0.26696 86 21 5 0 0 0 1.1037E-08 4 18150 18150;18197;18256;18310 171.09 157.8 1 129510000 38216 381 24292 24368 42866;42867;42868;42869 42866 0.11631783270763663 WVKEKVVAL 9 Unmodified _WVKEKVVAL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-7|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 357.8912353515625 3 357.890215 1070.64882 2.6879 0.00096198 -0.14269 -5.1068E-05 2.5452 0.00091091 357.89027677945154 39.999 0.72056 40.266 40.037 40.757 0.26696 93 26 5 0 0 0 0.084899 3 18207 18161;18207;18306 36.506 12.705 1 194640000 38217 381 24292 24368 42870;42871;42872 42871 0.11631783270763663 WVKEKVVAL 9 Unmodified _WVKEKVVAL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-7|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.3335571289062 2 536.331685 1070.64882 3.3919 0.0018192 -0.020182 -1.0824E-05 3.3717 0.0018084 536.3317229107656 39.547 0.5679 40.184 39.997 40.565 0.63778 94 26 5 0 0 0 1.1037E-08 4 18033 18033;18079;18136;18196 171.09 157.8 1 125310000 38218 381 24292 24368 42873;42874;42875;42876 42873 0.11631783270763663 WVKEKVVAL 9 Unmodified _WVKEKVVAL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-7|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 357.89129638671875 3 357.890215 1070.64882 2.6702 0.00095563 -0.011476 -4.1071E-06 2.6587 0.00095152 357.8903380026184 39.546 0.55222 40.183 39.971 40.524 0.63778 90 25 5 0 0 0 0.084899 3 18093 18045;18093;18146 36.506 15.248 1 156090000 38219 381 24292 24368 42877;42878;42879 42878 0.11631783270763663 WVKEKVVAL 9 Unmodified _WVKEKVVAL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-7|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 357.890215 1070.64882 2.6411 0.00094522 -0.11943 -4.2743E-05 2.5217 0.00090248 357.8902153291598 40.325 0.40042 40.325 40.093 40.493 0 0.12387 -9.9286E-05 NaN 36.506 49 13 5 NaN NaN NaN NaN 0 NaN NaN 0 36224000 38220 381 24292 24368 0.11631783270763663 WVKGPIAV 8 Unmodified _WVKGPIAV_ 0 0 0 ENSG00000181035|ENST00000318596|SLC25A42 ENSG00000181035|ENST00000318596|SLC25A42 ENSG00000181035|ENST00000318596|SLC25A42 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 435.266845703125 2 435.265813 868.517074 2.9886 0.0013008 -0.15174 -6.6046E-05 2.8369 0.0012348 435.2657949734188 40.01 0.35534 40.277 40.103 40.458 0.26696 25 14 2 0 0 0 0.42655 1 18200 18200 26.341 0 1 2496600 38221 5278 24293 24369 42880 42880 0.07755597973664408 WVKGPIAV 8 Unmodified _WVKGPIAV_ 0 0 0 ENSG00000181035|ENST00000318596|SLC25A42 ENSG00000181035|ENST00000318596|SLC25A42 ENSG00000181035|ENST00000318596|SLC25A42 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 435.2669982910156 2 435.265813 868.517074 3.2197 0.0014014 0.10806 4.7036E-05 3.3278 0.0014485 435.26586269145184 39.532 0.29812 40.17 40.054 40.352 0.63778 32 14 3 0 0 0 0.42655 2 18062 18062;18070 26.341 6.9023 1 1807300 38222 5278 24293 24369 42881;42882 42881 0.07755597973664408 WVKKKTKSA 9 Unmodified _WVKKKTKSA_ 0 0 0 REV__ENST00000586847.1_1_18:77794393-77797276:+|nuORF REV__ENST00000586847.1_1_18:77794393-77797276:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.4071044921875 2 538.334759 1074.65496 NaN NaN NaN NaN NaN NaN NaN 53.077 1 53.881 53.381 54.381 0.80351 0 0 0 0.90511 1 24191 24191 2.3027 0 1 + 38223 10901 24294 24370 42883 42883 0.12062301502282935 WVKRTKKEV 9 Unmodified _WVKRTKKEV_ 0 0 0 REV__ENST00000513111.1_1_3:123366069-123368027:-|nuORF REV__ENST00000513111.1_1_3:123366069-123368027:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 587.3593139648438 2 587.358765 1172.70298 NaN NaN NaN NaN NaN NaN NaN 10.837 1 11.116 10.616 11.616 0.2792 0 0 0 0.91238 1 4707 4707 0.52476 0 1 + 38224 10432 24295 24371 42884 42884 0.12353375422298996 WVLIKLPGPI 10 Unmodified _WVLIKLPGPI_ 0 0 0 REV__ENST00000513298.5_1_5:145838810-145849312:+|nuORF REV__ENST00000513298.5_1_5:145838810-145849312:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.6427001953125 2 568.365527 1134.7165 NaN NaN NaN NaN NaN NaN NaN 70.239 1 70.239 69.739 70.739 0 0 0 0 0.99733 1 34052 34052 3.9444 0 1 + 38225 16990 24296 24372 42885 42885 0.1545323320156058 WVLPGKKMG 9 Unmodified _WVLPGKKMG_ 0 0 0 ENSG00000266412|ENST00000581486|NCOA4;nc|ENSG00000266412|Q13772-3|NCOA4;nc|ENSG00000266412|Q13772-4|NCOA4 ENSG00000266412|ENST00000581486|NCOA4 ENSG00000266412|ENST00000581486|NCOA4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1016.4166870117188 1 1015.57573 1014.56846 3.4821 0.0035363 0.060902 6.1851E-05 3.543 0.0035981 1016.5797869651404 15.877 0.046648 15.877 15.853 15.899 0 5 4 2 0 0 0 1.2459 1 7024 7024 0 0 1 37785 38226 6324 24297 24373 42886 42886 0.06175598676077243 WVLPGKKMG 9 Unmodified _WVLPGKKMG_ 0 0 0 ENSG00000266412|ENST00000581486|NCOA4;nc|ENSG00000266412|Q13772-3|NCOA4;nc|ENSG00000266412|Q13772-4|NCOA4 ENSG00000266412|ENST00000581486|NCOA4 ENSG00000266412|ENST00000581486|NCOA4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 1015.57573 1014.56846 3.5076 0.0035622 1.9557 0.0019862 5.4633 0.0055484 1015.5777664429862 15.567 0.023512 15.778 15.765 15.789 0.21108 -0.049186 0.001021 NaN 0 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 59096 38227 6324 24297 24373 0.06175598676077243 WVLRGRFRFFR 11 Unmodified _WVLRGRFRFFR_ 0 0 0 REV__ENSG00000275183|ENST00000611161|LENG9 REV__ENSG00000275183|ENST00000611161|LENG9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 514.189697265625 3 513.965112 1538.87351 NaN NaN NaN NaN NaN NaN NaN 66.768 1 66.768 66.268 67.268 0 0 0 0 1.0079 1 31938 31938 0.45452 0.046251 1 + 38228 14735 24298 24374 42887 42887 0.125623308644208 WVLYLFKVIH 10 Unmodified _WVLYLFKVIH_ 0 0 0 ENST00000557072.1_1_14:98602423-98605356:+|nuORF ENST00000557072.1_1_14:98602423-98605356:+|nuORF ENST00000557072.1_1_14:98602423-98605356:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 659.3890380859375 2 659.389534 1316.76451 NaN NaN NaN NaN NaN NaN NaN 70.114 1 70.817 70.317 71.317 0.70302 0 0 0 1.0001 1 33583 33583 1.6526 0 1 38229 8933 24299 24375 42888 42888 0.11880307121600708 WVPLLSRILP 10 Unmodified _WVPLLSRILP_ 0 0 0 nc|ENSG00000118454|Q8N6S4-2|ANKRD13C;ENSG00000118454|ENST00000370944|ANKRD13C nc|ENSG00000118454|Q8N6S4-2|ANKRD13C nc|ENSG00000118454|Q8N6S4-2|ANKRD13C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.58612060546875 3 398.585015 1192.73321 3.0814 0.0012282 0.3357 0.00013381 3.4171 0.001362 398.58515388496244 44.683 0.71341 45.333 44.828 45.541 0.64998 61 29 3 0 0 0 0.94134 1 20309 20309 0.62683 0 1 2474200 38230 2114 24300 24376 42889 42889 0.14455734087528072 WVPLLSRILP 10 Unmodified _WVPLLSRILP_ 0 0 0 nc|ENSG00000118454|Q8N6S4-2|ANKRD13C;ENSG00000118454|ENST00000370944|ANKRD13C nc|ENSG00000118454|Q8N6S4-2|ANKRD13C nc|ENSG00000118454|Q8N6S4-2|ANKRD13C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 398.58642578125 3 398.585015 1192.73321 3.1058 0.0012379 0.23152 9.2279E-05 3.3373 0.0013302 398.5853059755123 45.014 0.29033 45.664 45.515 45.806 0.64999 18 10 2 0 0 0 0.93584 1 20617 20617 1.7423 0.41263 1 1997500 38231 2114 24300 24376 42890 42890 0.14455734087528072 WVPLPKALR 9 Unmodified _WVPLPKALR_ 0 0 0 ENST00000491910.5_1_22:24981856-24984399:-|nuORF ENST00000491910.5_1_22:24981856-24984399:-|nuORF ENST00000491910.5_1_22:24981856-24984399:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 360.5634460449219 3 360.562321 1078.66514 2.3708 0.00085482 1.5812 0.00057011 3.952 0.0014249 360.56269245544456 34.013 0.17617 34.013 33.888 34.064 0 13 10 2 0 0 0 1.1154 1 15423 15423 1.0715 0 1 608300 38232 8400 24301 24377 42891 42891 0.1289490922749792 WVPLPKALR 9 Unmodified _WVPLPKALR_ 0 0 0 ENST00000491910.5_1_22:24981856-24984399:-|nuORF ENST00000491910.5_1_22:24981856-24984399:-|nuORF ENST00000491910.5_1_22:24981856-24984399:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 360.56329345703125 3 360.562321 1078.66514 2.0666 0.00074513 1.4916 0.00053781 3.5582 0.0012829 360.5626012473709 33.023 0.21142 33.811 33.701 33.912 0.78795 18 12 2 0 0 0 1.1154 1 14953 14953 1.0715 0 1 318090 38233 8400 24301 24377 42892 42892 0.1289490922749792 WVPPAIYKS 9 Unmodified _WVPPAIYKS_ 0 0 0 nc|ENSG00000120903|Q15822-2|CHRNA2;ENSG00000120903|ENST00000407991|CHRNA2 nc|ENSG00000120903|Q15822-2|CHRNA2 nc|ENSG00000120903|Q15822-2|CHRNA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.7973022460938 2 530.794935 1059.57532 NaN NaN NaN NaN NaN NaN NaN 82.1 1 82.1 81.6 82.6 0 0 0 0 0.796 1 40994 40994 9.3831 0.63772 1 38234 2216 24302 24378 42893 42893 0.04791234828257984 WVQKLLPW 8 Unmodified _WVQKLLPW_ 0 0 0 REV__ENST00000455854.2_1_6:43492784-43493024:-|nuORF REV__ENST00000455854.2_1_6:43492784-43493024:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.21246337890625 3 357.211289 1068.61204 NaN NaN NaN NaN NaN NaN NaN 62.602 1 62.602 62.102 63.102 0 0 0 0 0.99035 1 29348 29348 1.6526 0 1 + 38235 16448 24303 24379 42894 42894 0.08047531444844935 WVRPQWRRWWT 11 Unmodified _WVRPQWRRWWT_ 0 0 0 REV__ENSG00000131398|ENST00000477616|KCNC3 REV__ENSG00000131398|ENST00000477616|KCNC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 828.9378051757812 2 828.936568 1655.85858 NaN NaN NaN NaN NaN NaN NaN 31.904 1 31.904 31.404 32.404 0 0 0 0 1.0082 1 14440 14440 0 0 1 + 38236 11858 24304 24380 42895 42895 0.05688838996434242 WVRPQWRRWWT 11 Unmodified _WVRPQWRRWWT_ 0 0 0 REV__ENSG00000131398|ENST00000477616|KCNC3 REV__ENSG00000131398|ENST00000477616|KCNC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 828.937744140625 2 828.936568 1655.85858 NaN NaN NaN NaN NaN NaN NaN 63.707 1 64.429 63.929 64.929 0.72236 0 0 0 1.0082 1 29867 29867 0 0 1 + 38237 11858 24304 24380 42896 42896 0.05688838996434242 WVRRSRGP 8 Unmodified _WVRRSRGP_ 0 0 0 ENST00000432590.5_2_10:104181253-104181715:+|nuORF ENST00000432590.5_2_10:104181253-104181715:+|nuORF ENST00000432590.5_2_10:104181253-104181715:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 338.5309143066406 3 338.529903 1012.56788 2.7199 0.00092075 0.83057 0.00028117 3.5504 0.0012019 338.53014143687955 5.08 0.38498 5.703 5.5586 5.9436 0.62294 54 34 2 0 0 0 0.7471 1 2260 2260 0 0 1 54481 38238 7862 24305 24381 42897 42897 0.062099400712327224 WVSYGRAYRSP 11 Unmodified _WVSYGRAYRSP_ 0 0 0 nc|ENSG00000170959|M0R2J8|DCDC1;ENSG00000170959|ENST00000684477|DCDC1;ENST00000437348.5_1_11:31115730-31149186:-|nuORF;ENST00000342355.8_1_11:30965860-31263019:-|nuORF;DCDC1|p.K856Nfs*12|1|0.38|ENSG00000170959|chr11:31064495-31064495|C/-|frameshift_variant nc|ENSG00000170959|M0R2J8|DCDC1 nc|ENSG00000170959|M0R2J8|DCDC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 671.6256103515625 2 671.338561 1340.66257 NaN NaN NaN NaN NaN NaN NaN 82.778 1 83.025 82.525 83.525 0.24722 0 0 0 1.0059 1 38101 38101 2.9952 0 1 38239 4780 24306 24382 42898 42898 0.005864090318937087 WVTTKPPKELI 11 Unmodified _WVTTKPPKELI_ 0 0 0 REV__ENST00000394718.4_1_14:64934934-64935021:+|nuORF REV__ENST00000394718.4_1_14:64934934-64935021:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.9291687011719 3 437.927218 1310.75982 2.9104 0.0012745 0.89231 0.00039077 3.8027 0.0016653 437.9274691272659 39.978 0.84368 40.245 39.451 40.295 0.26696 81 30 3 0 0 0 0.87362 1 18195 18195 1.4551 0.24029 1 1004900 + 38240 15972 24307 24383 42899 42899 0.11687378188184994 WVVVIILI 8 Unmodified _WVVVIILI_ 0 0 0 ENSG00000047597|ENST00000378616|XK ENSG00000047597|ENST00000378616|XK ENSG00000047597|ENST00000378616|XK MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 477.8282775878906 2 477.822964 953.631375 NaN NaN NaN NaN NaN NaN NaN 60.844 1 61.584 61.084 62.084 0.7396 0 0 0 0.99035 1 28141 28141 0.79363 0 1 38241 559 24308 24384 42900 42900 0.15270487735767801 WVWGRKVRQFH 11 Unmodified _WVWGRKVRQFH_ 0 0 0 REV__nc|ENSG00000154162|P55289-2|CDH12 REV__nc|ENSG00000154162|P55289-2|CDH12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 375.46063232421875 4 375.459919 1497.81057 1.8501 0.00069464 -0.90989 -0.00034163 0.94022 0.00035302 375.45947105004035 69.43 0.34421 70.133 69.982 70.326 0.70302 55 34 2 0 0 0 0.91068 1 33229 33229 1.3296 0.70282 1 1186500 + 38242 12697 24309 24385 42901 42901 0.08157765076384749 WVWGRKVRQFH 11 Unmodified _WVWGRKVRQFH_ 0 0 0 REV__nc|ENSG00000154162|P55289-2|CDH12 REV__nc|ENSG00000154162|P55289-2|CDH12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 375.4603271484375 4 375.459919 1497.81057 2.3849 0.00089544 -0.58314 -0.00021895 1.8018 0.00067649 375.45960210786546 69.464 0.61726 70.125 69.734 70.352 0.66071 90 43 3 0 0 0 0.91345 1 31795 31795 0.45452 0.046251 1 1262100 + 38243 12697 24309 24385 42902 42902 0.08157765076384749 WVWGRKVRQFH 11 Unmodified _WVWGRKVRQFH_ 0 0 0 REV__nc|ENSG00000154162|P55289-2|CDH12 REV__nc|ENSG00000154162|P55289-2|CDH12 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 4 375.459919 1497.81057 2.159 0.00081062 -1.0108 -0.00037952 1.1482 0.0004311 375.45955524742266 70.245 0.11027 70.245 70.175 70.286 0 -0.022336 -0.00028307 NaN 1.3296 19 11 2 NaN NaN NaN NaN 0 NaN NaN 0 1526100 + 38244 12697 24309 24385 0.08157765076384749 WVWGRKVRQFH 11 Unmodified _WVWGRKVRQFH_ 0 0 0 REV__nc|ENSG00000154162|P55289-2|CDH12 REV__nc|ENSG00000154162|P55289-2|CDH12 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 375.459919 1497.81057 1.8501 0.00069464 -0.90989 -0.00034163 0.94022 0.00035302 375.45947105004035 69.43 0.34421 70.133 69.982 70.326 0.70302 -0.13418 -0.00013151 NaN 1.3296 55 34 2 NaN NaN NaN NaN 0 NaN NaN 0 1186500 + 38245 12697 24309 24385 0.08157765076384749 WVWGRKVRQFH 11 Unmodified _WVWGRKVRQFH_ 0 0 0 REV__nc|ENSG00000154162|P55289-2|CDH12 REV__nc|ENSG00000154162|P55289-2|CDH12 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 375.459919 1497.81057 2.736 0.0010273 -0.7899 -0.00029657 1.9461 0.0007307 375.4594653313035 69.894 1.145 70.151 69.867 71.012 0.25642 -0.11619 4.8709E-05 NaN 1.3296 149 76 4 NaN NaN NaN NaN 0 NaN NaN 0 1043600 + 38246 12697 24309 24385 0.08157765076384749 WVWGRKVRQFH 11 Unmodified _WVWGRKVRQFH_ 0 0 0 REV__nc|ENSG00000154162|P55289-2|CDH12 REV__nc|ENSG00000154162|P55289-2|CDH12 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 375.459919 1497.81057 2.3154 0.00086935 -0.70189 -0.00026353 1.6135 0.00060581 375.4595655809938 69.879 0.53628 70.54 70.299 70.835 0.66071 0.27271 0.00018088 NaN 1.3296 102 37 3 NaN NaN NaN NaN 0 NaN NaN 0 680710 + 38247 12697 24309 24385 0.08157765076384749 WVYLLLRKILL 11 Unmodified _WVYLLLRKILL_ 0 0 0 nc|ENSG00000050628|P43115-3|PTGER3;nc|ENSG00000050628|P43115-4|PTGER3;nc|ENSG00000050628|P43115-2|PTGER3;ENSG00000050628|ENST00000306666|PTGER3;nc|ENSG00000050628|P43115-7|PTGER3;nc|ENSG00000050628|P43115-8|PTGER3;nc|ENSG00000050628|P43115-9|PTGER3;nc|ENSG00000050628|P43115-5|PTGER3;nc|ENSG00000050628|P43115-11|PTGER3;nc|ENSG00000050628|P43115-6|PTGER3;nc|ENSG00000050628|P43115-12|PTGER3;nc|ENSG00000050628|P43115-10|PTGER3 nc|ENSG00000050628|P43115-3|PTGER3 nc|ENSG00000050628|P43115-3|PTGER3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 715.4684448242188 2 715.468315 1428.92208 NaN NaN NaN NaN NaN NaN NaN 44.038 1 44.307 43.807 44.807 0.2694 0 0 0 1.0082 1 20121 20121 0 0 1 38248 586 24310 24386 42903 42903 0.22477386660989396 WWCWRTCWCWR 11 Unmodified _WWCWRTCWCWR_ 0 0 0 ENST00000246115.4_1_19:3178863-3179049:+|nuORF ENST00000246115.4_1_19:3178863-3179049:+|nuORF ENST00000246115.4_1_19:3178863-3179049:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 836.3504028320312 2 836.349568 1670.68458 NaN NaN NaN NaN NaN NaN NaN 103.49 1 103.8 103.3 104.3 0.31863 0 0 0 1.0082 1 47841 47841 0 0 1 38249 6489 24311 24387 42904 42904 -0.12393149087188249 WWFERRWNQYK 11 Unmodified _WWFERRWNQYK_ 0 0 0 REV__nc|ENSG00000133816|O94851|MICAL2 REV__nc|ENSG00000133816|O94851|MICAL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 566.9478149414062 3 566.947786 1697.82153 NaN NaN NaN NaN NaN NaN NaN 103.3 1 103.3 102.8 103.8 0 0 0 0 1.0082 1 56945 56945 0 0 1 + 38250 17947 24312 24388 42905 42905 0.0005312266005148558 WWFHWHPHYH 10 Unmodified _WWFHWHPHYH_ 0 0 0 REV__ENST00000331803.8_1_7:48142961-48146533:+|nuORF REV__ENST00000331803.8_1_7:48142961-48146533:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 766.8416137695312 2 766.841605 1531.66866 NaN NaN NaN NaN NaN NaN NaN 72.407 1 72.666 72.166 73.166 0.25876 0 0 0 1.002 1 33239 33239 0 0 1 + 38251 15384 24313 24389 42906 42906 -0.07591027945932183 WWFPLQLPKW 10 Unmodified _WWFPLQLPKW_ 0 0 0 nc|ENSG00000163521|Q6UWU2-2|GLB1L;ENSG00000163521|ENST00000295759|GLB1L nc|ENSG00000163521|Q6UWU2-2|GLB1L nc|ENSG00000163521|Q6UWU2-2|GLB1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 700.8779296875 2 700.879333 1399.74411 NaN NaN NaN NaN NaN NaN NaN 26.59 1 26.59 26.09 27.09 0 0 0 0 1.0015 1 11972 11972 0.45834 0.057624 1 38252 4218 24314 24390 42907 42907 0.0602313646179482 WWFRWRLDRYV 11 Unmodified _WWFRWRLDRYV_ 0 0 0 ENSG00000127995|ENST00000297273|CASD1 ENSG00000127995|ENST00000297273|CASD1 ENSG00000127995|ENST00000297273|CASD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 841.9444580078125 2 841.938776 1681.863 NaN NaN NaN NaN NaN NaN NaN 38.288 1 38.288 37.788 38.788 0 0 0 0 1.0082 1 17376 17376 0 0 1 38253 2497 24315 24391 42908 42908 0.04934303419349817 WWFRWRLDRYV 11 Unmodified _WWFRWRLDRYV_ 0 0 0 ENSG00000127995|ENST00000297273|CASD1 ENSG00000127995|ENST00000297273|CASD1 ENSG00000127995|ENST00000297273|CASD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 841.9393920898438 2 841.938776 1681.863 NaN NaN NaN NaN NaN NaN NaN 103.07 1 103.07 102.57 103.57 0 0 0 0 1.0082 1 56841 56841 0 0 1 38254 2497 24315 24391 42909 42909 0.04934303419349817 WWFRWRLDRYV 11 Unmodified _WWFRWRLDRYV_ 0 0 0 ENSG00000127995|ENST00000297273|CASD1 ENSG00000127995|ENST00000297273|CASD1 ENSG00000127995|ENST00000297273|CASD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 841.9371948242188 2 841.938776 1681.863 NaN NaN NaN NaN NaN NaN NaN 59.659 1 60.324 59.824 60.824 0.66503 0 0 0 1.0082 1 27310 27310 0 0 1 38255 2497 24315 24391 42910 42910 0.04934303419349817 WWFRWRLDRYV 11 Unmodified _WWFRWRLDRYV_ 0 0 0 ENSG00000127995|ENST00000297273|CASD1 ENSG00000127995|ENST00000297273|CASD1 ENSG00000127995|ENST00000297273|CASD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 841.936767578125 2 841.938776 1681.863 NaN NaN NaN NaN NaN NaN NaN 93.713 1 94.344 93.844 94.844 0.63115 0 0 0 1.0082 1 43106 43106 0 0 1 38256 2497 24315 24391 42911 42911 0.04934303419349817 WWFRYKSRKRE 11 Unmodified _WWFRYKSRKRE_ 0 0 0 REV__ENST00000367595.3_1_1:180399341-180461416:-|nuORF REV__ENST00000367595.3_1_1:180399341-180461416:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 821.4407348632812 2 821.441683 1640.86881 NaN NaN NaN NaN NaN NaN NaN 82.67 1 82.67 82.17 83.17 0 0 0 0 1.0082 1 41465 41465 0 0 1 + 38257 15665 24316 24392 42912 42912 0.07401401930974316 WWFWLERRRWL 11 Unmodified _WWFWLERRRWL_ 0 0 0 REV__ENST00000246635.7_1_17:39661629-39661743:-|nuORF REV__ENST00000246635.7_1_17:39661629-39661743:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 867.4613647460938 2 867.462419 1732.91028 NaN NaN NaN NaN NaN NaN NaN 68.144 1 68.846 68.346 69.346 0.70218 0 0 0 1.0082 1 32476 32476 0 0 1 + 38258 14896 24317 24393 42913 42913 0.07314582690332827 WWFWLERRRWL 11 Unmodified _WWFWLERRRWL_ 0 0 0 REV__ENST00000246635.7_1_17:39661629-39661743:-|nuORF REV__ENST00000246635.7_1_17:39661629-39661743:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.6461181640625 3 578.644038 1732.91028 NaN NaN NaN NaN NaN NaN NaN 79.057 1 79.718 79.218 80.218 0.66082 0 0 0 1.0082 1 36429 36429 0 0 1 + 38259 14896 24317 24393 42914 42914 0.07314582690332827 WWFWLERRRWL 11 Unmodified _WWFWLERRRWL_ 0 0 0 REV__ENST00000246635.7_1_17:39661629-39661743:-|nuORF REV__ENST00000246635.7_1_17:39661629-39661743:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 867.2438354492188 2 867.462419 1732.91028 NaN NaN NaN NaN NaN NaN NaN 99.315 1 99.912 99.412 100.41 0.59748 0 0 0 1.0082 1 45916 45916 0 0 1 + 38260 14896 24317 24393 42915 42915 0.07314582690332827 WWFYDDYFTYF 11 Unmodified _WWFYDDYFTYF_ 0 0 0 REV__ENST00000453386.6_1_3:185635356-185635488:-|nuORF REV__ENST00000453386.6_1_3:185635356-185635488:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 826.3612060546875 2 826.840268 1651.66598 NaN NaN NaN NaN NaN NaN NaN 77.86 1 78.421 77.921 78.921 0.56091 0 0 0 1.0082 1 37803 37803 0 0 1 + 38261 16426 24318 24394 42916 42916 -0.13378385704800166 WWFYDDYFTYF 11 Unmodified _WWFYDDYFTYF_ 0 0 0 REV__ENST00000453386.6_1_3:185635356-185635488:-|nuORF REV__ENST00000453386.6_1_3:185635356-185635488:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 826.8427734375 2 826.840268 1651.66598 NaN NaN NaN NaN NaN NaN NaN 57.855 1 58.117 57.617 58.617 0.26227 0 0 0 1.0082 1 26488 26488 0 0 1 + 38262 16426 24318 24394 42917 42917 -0.13378385704800166 WWHLKVTFYL 10 Unmodified _WWHLKVTFYL_ 0 0 0 REV__ENST00000526903.1_1_11:71671811-71693962:+|nuORF REV__ENST00000526903.1_1_11:71671811-71693962:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 696.8764038085938 2 696.876791 1391.73903 NaN NaN NaN NaN NaN NaN NaN 72.339 1 73.043 72.543 73.543 0.70386 0 0 0 1.0015 1 34816 34816 0.40072 0 1 + 38263 12116 24319 24395 42918 42918 0.05882832599172616 WWHRRRRRTEA 11 Unmodified _WWHRRRRRTEA_ 0 0 0 ENST00000583780.1_2_17:18263786-18266854:-|nuORF ENST00000583780.1_2_17:18263786-18266854:-|nuORF ENST00000583780.1_2_17:18263786-18266854:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 805.4381103515625 2 805.437798 1608.86104 NaN NaN NaN NaN NaN NaN NaN 17.147 1 17.347 16.847 17.847 0.20057 0 0 0 1.0082 1 7583 7583 0 0 1 38264 9163 24320 24396 42919 42919 0.08096687454099083 WWHRRTHFWRT 11 Unmodified _WWHRRTHFWRT_ 0 0 0 ENST00000322893.11_1_14:63483627-63512140:-|nuORF ENST00000322893.11_1_14:63483627-63512140:-|nuORF ENST00000322893.11_1_14:63483627-63512140:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 556.7041015625 3 556.951754 1667.83343 NaN NaN NaN NaN NaN NaN NaN 89.557 1 89.622 89.122 90.122 0.064346 0 0 0 1.0082 1 45927 45927 0 0 1 38265 6942 24321 24397 42920 42920 0.02622784193863481 WWHRWLRGLRR 11 Unmodified _WWHRWLRGLRR_ 0 0 0 REV__ENST00000473038.5_1_1:46033610-46035625:+|nuORF REV__ENST00000473038.5_1_1:46033610-46035625:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.4629516601562 2 811.458002 1620.90145 NaN NaN NaN NaN NaN NaN NaN 95.652 1 95.734 95.234 96.234 0.082001 0 0 0 1.0082 1 50609 50609 0 0 1 + 38266 16622 24322 24398 42921 42921 0.1158365384451372 WWHSYWRVWIY 11 Unmodified _WWHSYWRVWIY_ 0 0 0 ENST00000295992.7_1_3:142606565-142606607:-|nuORF ENST00000295992.7_1_3:142606565-142606607:-|nuORF ENST00000295992.7_1_3:142606565-142606607:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 841.4066162109375 2 841.406778 1680.799 NaN NaN NaN NaN NaN NaN NaN 53.489 1 54.154 53.654 54.654 0.6644 0 0 0 1.0082 1 24461 24461 0 0 1 38267 6763 24323 24399 42922 42922 -0.014164767376087184 WWHWPRVFGCF 11 Unmodified _WWHWPRVFGCF_ 0 0 0 ENST00000247668.6_1_9:139820478-139821042:+|nuORF ENST00000247668.6_1_9:139820478-139821042:+|nuORF ENST00000247668.6_1_9:139820478-139821042:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 760.855712890625 2 760.855867 1519.69718 NaN NaN NaN NaN NaN NaN NaN 16.46 1 16.66 16.16 17.16 0.20057 0 0 0 1.0082 1 7270 7270 0 0 1 38268 6495 24324 24400 42923 42923 -0.04188046361036868 WWIWWQWWKLQ 11 Unmodified _WWIWWQWWKLQ_ 0 0 0 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 873.408935546875 2 873.440621 1744.86669 NaN NaN NaN NaN NaN NaN NaN 109.05 1 109.37 108.87 109.87 0.31168 0 0 0 1.0082 1 50280 50280 0 0 1 38269 142 24325 24401 42924 42924 0.02404973193188198 WWKWLRQKRWL 11 Unmodified _WWKWLRQKRWL_ 0 0 0 REV__chr12:54283132-54283827|539|56.03|0.0|22.42|+|1|HNRNPA1,HNRNPA1|1 REV__chr12:54283132-54283827|539|56.03|0.0|22.42|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 843.4798583984375 2 843.480611 1684.94667 NaN NaN NaN NaN NaN NaN NaN 101.68 1 102 101.5 102.5 0.31737 0 0 0 1.0082 1 47046 47046 0 0 1 + 38270 10027 24326 24402 42925 42925 0.13159459587041056 WWLGGRKKGP 10 Unmodified _WWLGGRKKGP_ 0 0 0 REV__ENSG00000189280|ENST00000338513|GJB5 REV__ENSG00000189280|ENST00000338513|GJB5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 395.56219482421875 3 395.561092 1183.66145 3.0388 0.001202 -0.44649 -0.00017661 2.5923 0.0010254 395.5609424155056 65.156 0.44003 65.404 65.148 65.588 0.24803 39 21 2 0 0 0 0.90196 1 29884 29884 1.7423 0 1 917190 + 38271 14179 24327 24403 42926 42926 0.07696239453639464 WWPLALIL 8 Unmodified _WWPLALIL_ 0 0 0 ENST00000503939.5_1_5:14741448-14751330:-|nuORF;nc|ENSG00000154122|Q9HCJ1-2|ANKH;ENSG00000154122|ENST00000284268|ANKH ENST00000503939.5_1_5:14741448-14751330:-|nuORF ENST00000503939.5_1_5:14741448-14751330:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 337.8735046386719 3 337.872385 1010.59532 NaN NaN NaN NaN NaN NaN NaN 5.9793 1 5.9793 5.4793 6.4793 0 0 0 0 0.99035 1 2718 2718 0 0 1 38272 3801 24328 24404 42927 42927 0.09045030558877443 WWPLVIRPKKK 11 Unmodified _WWPLVIRPKKK_ 0 0 0 REV__ENSG00000130943|ENST00000253255|PKDREJ REV__ENSG00000130943|ENST00000253255|PKDREJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 363.482666015625 4 363.481592 1449.89726 2.7093 0.00098476 -0.019137 -6.9558E-06 2.6901 0.00097781 363.48154056703083 40.492 0.80931 40.492 39.752 40.561 0 78 33 3 0 0 0 0.91459 1 18268 18268 0.094841 0 1 1775200 + 38273 11838 24329 24405 42928 42928 0.19030751578225136 WWPLVIRPKKK 11 Unmodified _WWPLVIRPKKK_ 0 0 0 REV__ENSG00000130943|ENST00000253255|PKDREJ REV__ENSG00000130943|ENST00000253255|PKDREJ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.48260498046875 4 363.481592 1449.89726 2.6809 0.00097447 -0.11844 -4.305E-05 2.5625 0.00093142 363.4814936119053 40.002 1.4406 40.269 39.347 40.787 0.26696 120 54 4 0 0 0 0.91459 2 18089 18089;18262 0.094841 0 1 2280200 + 38274 11838 24329 24405 42929;42930 42929 0.19030751578225136 WWPLVIRPKKK 11 Unmodified _WWPLVIRPKKK_ 0 0 0 REV__ENSG00000130943|ENST00000253255|PKDREJ REV__ENSG00000130943|ENST00000253255|PKDREJ MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 4 363.481592 1449.89726 2.3975 0.00087144 0.05098 1.853E-05 2.4484 0.00088997 363.48161967729214 39.547 1.0803 40.347 39.491 40.571 0.80014 0.019474 0.0001394 NaN 0.094841 96 53 2 NaN NaN NaN NaN 0 NaN NaN 0 436030 + 38275 11838 24329 24405 0.19030751578225136 WWPRRKFKAWI 11 Unmodified _WWPRRKFKAWI_ 0 0 0 REV__nc|ENSG00000165671|Q96L73-2|NSD1 REV__nc|ENSG00000165671|Q96L73-2|NSD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 787.4490966796875 2 787.44878 1572.88301 NaN NaN NaN NaN NaN NaN NaN 16.482 1 17.14 16.64 17.64 0.65798 0 0 0 1.0082 1 7427 7427 0 0 1 + 38276 13177 24330 24406 42931 42931 0.1194809914995858 WWQPWWWWKLQ 11 Unmodified _WWQPWWWWKLQ_ 0 0 0 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 865.4249877929688 2 865.424971 1728.83539 NaN NaN NaN NaN NaN NaN NaN 80.344 1 80.344 79.844 80.844 0 0 0 0 1.0082 1 39866 39866 0 0 1 38277 141 24331 24407 42932 42932 0.00012400159107528452 WWQPWWWWKLQ 11 Unmodified _WWQPWWWWKLQ_ 0 0 0 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 865.4236450195312 2 865.424971 1728.83539 NaN NaN NaN NaN NaN NaN NaN 84.638 1 84.638 84.138 85.138 0 0 0 0 1.0082 1 42893 42893 0 0 1 38278 141 24331 24407 42933 42933 0.00012400159107528452 WWQPWWWWKLQ 11 Unmodified _WWQPWWWWKLQ_ 0 0 0 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 865.4217529296875 2 865.424971 1728.83539 NaN NaN NaN NaN NaN NaN NaN 90.857 1 90.857 90.357 91.357 0 0 0 0 1.0082 1 47843 47843 0 0 1 38279 141 24331 24407 42934 42934 0.00012400159107528452 WWQPWWWWKLQ 11 Unmodified _WWQPWWWWKLQ_ 0 0 0 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 865.4237060546875 2 865.424971 1728.83539 NaN NaN NaN NaN NaN NaN NaN 93.887 1 93.887 93.387 94.387 0 0 0 0 1.0082 1 50218 50218 0 0 1 38280 141 24331 24407 42935 42935 0.00012400159107528452 WWQPWWWWKLQ 11 Unmodified _WWQPWWWWKLQ_ 0 0 0 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 865.749267578125 2 865.424971 1728.83539 NaN NaN NaN NaN NaN NaN NaN 105.78 1 105.78 105.28 106.28 0 0 0 0 1.0082 1 58125 58125 0 0 1 38281 141 24331 24407 42936 42936 0.00012400159107528452 WWQWHRLKLYA 11 Unmodified _WWQWHRLKLYA_ 0 0 0 REV__nc|ENSG00000105357|Q7Z406-5|MYH14;REV__nc|ENSG00000133026|P35580|MYH10 REV__nc|ENSG00000105357|Q7Z406-5|MYH14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 793.922607421875 2 793.922595 1585.83064 NaN NaN NaN NaN NaN NaN NaN 66.68 1 67.336 66.836 67.836 0.65672 0 0 0 1.0082 1 30568 30568 0 0 1 + 38282 11027;11918 24332 24408 42937 42937 0.06115516016370748 WWQWLKWRRLR 11 Unmodified _WWQWLKWRRLR_ 0 0 0 ENST00000551099.5_1_12:113659271-113664634:+|nuORF ENST00000551099.5_1_12:113659271-113664634:+|nuORF ENST00000551099.5_1_12:113659271-113664634:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 857.4805297851562 2 857.483686 1712.95282 NaN NaN NaN NaN NaN NaN NaN 88.397 1 88.397 87.897 88.897 0 0 0 0 1.0082 1 45857 45857 0 0 1 38283 8875 24333 24409 42938 42938 0.12485977818550964 WWQWQRQRQRR 11 Unmodified _WWQWQRQRQRR_ 0 0 0 REV__ENST00000247706.3_1_19:17411946-17414055:-|nuORF REV__ENST00000247706.3_1_19:17411946-17414055:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.9675903320312 3 571.969696 1712.88726 NaN NaN NaN NaN NaN NaN NaN 92.622 1 92.708 92.208 93.208 0.086212 0 0 0 1.0082 1 48324 48324 0 0 1 + 38284 14901 24334 24410 42939 42939 0.059329566255655664 WWRFLVIWILF 11 Unmodified _WWRFLVIWILF_ 0 0 0 ENST00000526903.1_1_11:71671811-71693962:+|nuORF;ENST00000528683.5_1_11:71640101-71701796:+|nuORF;nc|ENSG00000137522|Q9H920-2|RNF121;ENST00000526549.5_1_11:71673326-71707358:+|nuORF;ENSG00000137522|ENST00000361756|RNF121 ENST00000526903.1_1_11:71671811-71693962:+|nuORF ENST00000526903.1_1_11:71671811-71693962:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 789.9555053710938 2 789.952833 1577.89111 NaN NaN NaN NaN NaN NaN NaN 91.135 1 91.387 90.887 91.887 0.25163 0 0 0 1.008 1 41907 41907 0.35063 0.043601 1 38285 3023 24335 24411 42940 42940 0.1252823334673394 WWRKILKYFWM 11 Unmodified _WWRKILKYFWM_ 0 0 0 nc|ENSG00000154864|Q9H5I5-2|PIEZO2;nc|ENSG00000154864|Q9H5I5|PIEZO2;nc|ENSG00000154864|Q9H5I5-4|PIEZO2;ENSG00000154864|ENST00000674853|PIEZO2 nc|ENSG00000154864|Q9H5I5-2|PIEZO2 nc|ENSG00000154864|Q9H5I5-2|PIEZO2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 828.947021484375 2 828.947224 1655.8799 NaN NaN NaN NaN NaN NaN NaN 91.231 1 91.483 90.983 91.983 0.25163 0 0 0 1.0082 1 41952 41952 0 0 1 38286 3843 24336 24412 42941 42941 0.07819087980919903 WWRLILSKILK 11 Unmodified _WWRLILSKILK_ 0 0 0 ENSG00000173389|ENST00000310914|IQCF1 ENSG00000173389|ENST00000310914|IQCF1 ENSG00000173389|ENST00000310914|IQCF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 486.09747314453125 3 485.978135 1454.91258 NaN NaN NaN NaN NaN NaN NaN 15.498 1 15.709 15.209 16.209 0.21108 0 0 0 1.0082 1 6836 6836 0 0 1 38287 4930 24337 24413 42942 42942 0.20331618375462313 WWRRLHWQRSN 11 Unmodified _WWRRLHWQRSN_ 0 0 0 ENST00000431361.1_1_20:61432246-61432384:-|nuORF ENST00000431361.1_1_20:61432246-61432384:-|nuORF ENST00000431361.1_1_20:61432246-61432384:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 812.9229736328125 2 812.921449 1623.82835 NaN NaN NaN NaN NaN NaN NaN 92.336 1 92.336 91.836 92.836 0 0 0 0 1.0082 1 49040 49040 0 0 1 38288 7853 24338 24414 42943 42943 0.041384803312439544 WWRRPWLHTKW 11 Unmodified _WWRRPWLHTKW_ 0 0 0 REV__RALGAPB|p.A220Hfs*53|1|0.05|ENSG00000170471|chr20:38499550-38499551|-/CATCTTTG|frameshift_variant REV__RALGAPB|p.A220Hfs*53|1|0.05|ENSG00000170471|chr20:38499550-38499551|-/CATCTTTG|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 826.4415283203125 2 826.441486 1650.86842 NaN NaN NaN NaN NaN NaN NaN 76.185 1 76.809 76.309 77.309 0.62397 0 0 0 1.0082 1 36916 36916 0 0 1 + 38289 18203 24339 24415 42944 42944 0.06902027001797251 WWRRRKARTN 10 Unmodified _WWRRRKARTN_ 0 0 0 ENSG00000171714|ENST00000324559|ANO5 ENSG00000171714|ENST00000324559|ANO5 ENSG00000171714|ENST00000324559|ANO5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 715.343994140625 2 715.405435 1428.79632 NaN NaN NaN NaN NaN NaN NaN 86.573 1 86.604 86.104 87.104 0.030289 0 0 0 0.99877 1 43600 43600 2.7352 0.45242 1 38290 4824 24340 24416 42945 42945 0.09907112648102157 WWRRRRHLKR 10 Unmodified _WWRRRRHLKR_ 0 0 0 REV__ENST00000297293.5_1_7:97832983-97833265:+|nuORF REV__ENST00000297293.5_1_7:97832983-97833265:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 775.4639892578125 2 775.463619 1548.91268 NaN NaN NaN NaN NaN NaN NaN 52.991 1 53.655 53.155 54.155 0.6644 0 0 0 1.002 1 24234 24234 0 0 1 + 38291 15164 24341 24417 42946 42946 0.16018475938676602 WWRRRRQNVCI 11 Unmodified _WWRRRRQNVCI_ 0 0 0 ENST00000419381.1_2_2:70409123-70410019:-|nuORF;ENST00000264434.6_1_2:70409899-70410019:-|nuORF ENST00000419381.1_2_2:70409123-70410019:-|nuORF ENST00000419381.1_2_2:70409123-70410019:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 524.7355346679688 3 524.952877 1571.8368 NaN NaN NaN NaN NaN NaN NaN 25.004 1 25.74 25.24 26.24 0.73623 0 0 0 1.0082 1 11213 11213 0.08335 0.08335 1 38292 6604 24342 24418 42947 42947 0.07375710976248229 WWRRRRRHRGN 11 Unmodified _WWRRRRRHRGN_ 0 0 0 ENST00000475204.5_1_1:70687068-70687435:+|nuORF;ENST00000370951.5_1_1:70671397-70687435:+|nuORF;ENST00000463877.1_1_1:70671397-70687435:+|nuORF;ENST00000395136.6_2_1:70687096-70687432:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.5118408203125 3 545.973663 1634.89916 NaN NaN NaN NaN NaN NaN NaN 71.351 1 71.351 70.851 71.851 0 0 0 0 1.0082 1 34683 34683 0 0 1 38293 7310 24343 24419 42948 42948 0.10710618159441765 WWRRRRRHRGN 11 Unmodified _WWRRRRRHRGN_ 0 0 0 ENST00000475204.5_1_1:70687068-70687435:+|nuORF;ENST00000370951.5_1_1:70671397-70687435:+|nuORF;ENST00000463877.1_1_1:70671397-70687435:+|nuORF;ENST00000395136.6_2_1:70687096-70687432:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 818.7417602539062 2 818.456856 1634.89916 NaN NaN NaN NaN NaN NaN NaN 82.784 1 82.784 82.284 83.284 0 0 0 0 1.0082 1 41547 41547 0 0 1 38294 7310 24343 24419 42949 42949 0.10710618159441765 WWRRRRRHRGN 11 Unmodified _WWRRRRRHRGN_ 0 0 0 ENST00000475204.5_1_1:70687068-70687435:+|nuORF;ENST00000370951.5_1_1:70671397-70687435:+|nuORF;ENST00000463877.1_1_1:70671397-70687435:+|nuORF;ENST00000395136.6_2_1:70687096-70687432:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 818.457763671875 2 818.456856 1634.89916 NaN NaN NaN NaN NaN NaN NaN 85.198 1 85.198 84.698 85.698 0 0 0 0 1.0082 1 43313 43313 0 0 1 38295 7310 24343 24419 42950 42950 0.10710618159441765 WWRRRRRHRGN 11 Unmodified _WWRRRRRHRGN_ 0 0 0 ENST00000475204.5_1_1:70687068-70687435:+|nuORF;ENST00000370951.5_1_1:70671397-70687435:+|nuORF;ENST00000463877.1_1_1:70671397-70687435:+|nuORF;ENST00000395136.6_2_1:70687096-70687432:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 818.7932739257812 2 818.456856 1634.89916 NaN NaN NaN NaN NaN NaN NaN 71.151 1 71.855 71.355 72.355 0.70386 0 0 0 1.008 1 34158 34158 0.30703 0 1 38296 7310 24343 24419 42951 42951 0.10710618159441765 WWRRRWTRSQW 11 Unmodified _WWRRRWTRSQW_ 0 0 0 ENST00000280987.8_1_14:35515634-35522487:+|nuORF;ENST00000554052.2_2_14:35515721-35519263:+|nuORF ENST00000280987.8_1_14:35515634-35522487:+|nuORF ENST00000280987.8_1_14:35515634-35522487:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 568.278564453125 3 568.630791 1702.87055 NaN NaN NaN NaN NaN NaN NaN 89.266 1 89.266 88.766 89.766 0 0 0 0 1.0082 1 46574 46574 0 0 1 38297 6691 24344 24420 42952 42952 0.0472245573962482 WWRRRWTRSQW 11 Unmodified _WWRRRWTRSQW_ 0 0 0 ENST00000280987.8_1_14:35515634-35522487:+|nuORF;ENST00000554052.2_2_14:35515721-35519263:+|nuORF ENST00000280987.8_1_14:35515634-35522487:+|nuORF ENST00000280987.8_1_14:35515634-35522487:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 852.4402465820312 2 852.442549 1702.87055 NaN NaN NaN NaN NaN NaN NaN 88.714 1 88.966 88.466 89.466 0.25118 0 0 0 1.0082 1 40819 40819 0 0 1 38298 6691 24344 24420 42953 42953 0.0472245573962482 WWRRWRARRQP 11 Unmodified _WWRRWRARRQP_ 0 0 0 REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 827.45947265625 2 827.458533 1652.90251 NaN NaN NaN NaN NaN NaN NaN 55.226 1 55.226 54.726 55.726 0 0 0 0 1.0082 1 25364 25364 0 0 1 + 38299 15733 24345 24421 42954 42954 0.10217868213430847 WWRRWRARRQP 11 Unmodified _WWRRWRARRQP_ 0 0 0 REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 827.4552001953125 2 827.458533 1652.90251 NaN NaN NaN NaN NaN NaN NaN 86.247 1 86.247 85.747 86.747 0 0 0 0 1.0082 1 44169 44169 0 0 1 + 38300 15733 24345 24421 42955 42955 0.10217868213430847 WWRRWRARRQP 11 Unmodified _WWRRWRARRQP_ 0 0 0 REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF REV__ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 827.4556274414062 2 827.458533 1652.90251 NaN NaN NaN NaN NaN NaN NaN 90.802 1 91.475 90.975 91.975 0.67271 0 0 0 1.0082 1 41792 41792 0 0 1 + 38301 15733 24345 24421 42956 42956 0.10217868213430847 WWRSLWIRRRK 11 Unmodified _WWRSLWIRRRK_ 0 0 0 ENST00000586411.1_1_17:43628025-43635826:-|nuORF ENST00000586411.1_1_17:43628025-43635826:-|nuORF ENST00000586411.1_1_17:43628025-43635826:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 822.0637817382812 2 821.98131 1641.94807 NaN NaN NaN NaN NaN NaN NaN 94.268 1 94.268 93.768 94.768 0 0 0 0 1.0082 1 50519 50519 0 0 1 38302 9184 24346 24422 42957 42957 0.1527709367578609 WWRWCWQPSCW 11 Unmodified _WWRWCWQPSCW_ 0 0 0 ENST00000564348.5_1_19:7982609-7983760:+|nuORF;ENST00000566166.1_1_19:7982552-7983971:+|nuORF ENST00000564348.5_1_19:7982609-7983760:+|nuORF ENST00000564348.5_1_19:7982609-7983760:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 812.3447875976562 2 812.342266 1622.66998 NaN NaN NaN NaN NaN NaN NaN 15.672 1 15.672 15.172 16.172 0 0 0 0 1.0082 1 6931 6931 0 0 1 38303 9028 24347 24423 42958 42958 -0.11644897963697076 WWRWLRRRRR 10 Unmodified _WWRWLRRRRR_ 0 0 0 REV__chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 REV__chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 813.7061767578125 2 813.976893 1625.93923 NaN NaN NaN NaN NaN NaN NaN 103.84 1 103.9 103.4 104.4 0.052994 0 0 0 1.002 1 56264 56264 0 0 1 + 38304 10028 24348 24424 42959 42959 0.15130164829975 WWRWLRRRRR 10 Unmodified _WWRWLRRRRR_ 0 0 0 REV__chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 REV__chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 813.5418701171875 2 813.976893 1625.93923 NaN NaN NaN NaN NaN NaN NaN 106.26 1 106.86 106.36 107.36 0.60074 0 0 0 1.002 1 49065 49065 0 0 1 + 38305 10028 24348 24424 42960 42960 0.15130164829975 WWRWLRRRRRQ 11 Unmodified _WWRWLRRRRRQ_ 0 0 0 REV__chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 REV__chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 878.214599609375 2 878.006182 1753.99781 NaN NaN NaN NaN NaN NaN NaN 109.87 1 109.87 109.37 110.37 0 0 0 0 1.008 1 60049 60049 0.30703 0.30703 1 + 38306 10028 24349 24425 42961 42961 0.15097221404448646 WWRWRRARWQ 10 Unmodified _WWRWRRARWQ_ 0 0 0 nc|ENSG00000171160|Q8NDC4-2|MORN4 nc|ENSG00000171160|Q8NDC4-2|MORN4 nc|ENSG00000171160|Q8NDC4-2|MORN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 793.9214477539062 2 793.921252 1585.82795 NaN NaN NaN NaN NaN NaN NaN 77.192 1 77.447 76.947 77.947 0.25533 0 0 0 1.002 1 35548 35548 0 0 1 38307 9752 24350 24426 42962 42962 0.0584710540206288 WWRWRRARWQP 11 Unmodified _WWRWRRARWQP_ 0 0 0 nc|ENSG00000171160|Q8NDC4-2|MORN4 nc|ENSG00000171160|Q8NDC4-2|MORN4 nc|ENSG00000171160|Q8NDC4-2|MORN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 842.4461669921875 2 842.447634 1682.88072 NaN NaN NaN NaN NaN NaN NaN 48.621 1 48.621 48.121 49.121 0 0 0 0 1.0082 1 22267 22267 0 0 1 38308 9752 24351 24427 42963 42963 0.06659063464871906 WWRWRRARWQP 11 Unmodified _WWRWRRARWQP_ 0 0 0 nc|ENSG00000171160|Q8NDC4-2|MORN4 nc|ENSG00000171160|Q8NDC4-2|MORN4 nc|ENSG00000171160|Q8NDC4-2|MORN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 842.056640625 2 842.447634 1682.88072 NaN NaN NaN NaN NaN NaN NaN 82.563 1 82.563 82.063 83.063 0 0 0 0 1.0072 1 41380 41380 1.3295 1.0225 1 38309 9752 24351 24427 42964 42964 0.06659063464871906 WWRWRRARWQP 11 Unmodified _WWRWRRARWQP_ 0 0 0 nc|ENSG00000171160|Q8NDC4-2|MORN4 nc|ENSG00000171160|Q8NDC4-2|MORN4 nc|ENSG00000171160|Q8NDC4-2|MORN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 842.4495239257812 2 842.447634 1682.88072 NaN NaN NaN NaN NaN NaN NaN 53.793 1 54.057 53.557 54.557 0.26462 0 0 0 1.0082 1 24600 24600 0 0 1 38310 9752 24351 24427 42965 42965 0.06659063464871906 WWRWSWWWLKW 11 Unmodified _WWRWSWWWLKW_ 0 0 0 REV__chr12:54282611-54283827|540|49.39|0.0|22.24|+|1|HNRNPA1,HNRNPA1|1 REV__chr12:54282611-54283827|540|49.39|0.0|22.24|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 602.6321411132812 3 602.63325 1804.87792 NaN NaN NaN NaN NaN NaN NaN 64.455 1 64.703 64.203 65.203 0.24803 0 0 0 1.0082 1 29522 29522 0 0 1 + 38311 10023 24352 24428 42966 42966 0.007677952873336835 WWRWWEHRLLW 11 Unmodified _WWRWWEHRLLW_ 0 0 0 ENST00000564785.5_1_15:75650962-75651301:-|nuORF;ENST00000563368.5_1_15:75650962-75652298:-|nuORF ENST00000564785.5_1_15:75650962-75651301:-|nuORF ENST00000564785.5_1_15:75650962-75651301:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 877.44775390625 2 877.446769 1752.87898 NaN NaN NaN NaN NaN NaN NaN 98.523 1 98.523 98.023 99.023 0 0 0 0 1.0082 1 53954 53954 0 0 1 38312 9010 24353 24429 42967 42967 0.032660096562722174 WWRYWWHYPIC 11 Unmodified _WWRYWWHYPIC_ 0 0 0 ENST00000410111.7_1_2:86406577-86422494:-|nuORF ENST00000410111.7_1_2:86406577-86422494:-|nuORF ENST00000410111.7_1_2:86406577-86422494:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 847.95751953125 2 848.387531 1694.76051 NaN NaN NaN NaN NaN NaN NaN 102.31 1 102.63 102.13 103.13 0.31737 0 0 0 1.0082 1 47328 47328 0 0 1 38313 7669 24354 24430 42968 42968 -0.05908105643743511 WWSLWVEKTKR 11 Unmodified _WWSLWVEKTKR_ 0 0 0 REV__ENST00000446956.1_1_1:146695579-146695888:+|nuORF REV__ENST00000446956.1_1_1:146695579-146695888:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1519.081298828125 1 1518.82159 1517.81432 3.1023 0.0047119 -0.097264 -0.00014773 3.0051 0.0045642 1519.8222121564272 41.933 0.060493 41.933 41.89 41.95 0 5 3 2 0 0 0 0.91489 1 19075 19075 0 0 1 1049400 + 38314 16386 24355 24431 42969 42969 0.07612390059557583 WWTISFVYVYL 11 Unmodified _WWTISFVYVYL_ 0 0 0 REV__Harlequin-int_dup17|chr1:46326040-46329561:-|10.003084288088008|0.3399966488246573|4.88|534.0|222|3|anti-sense REV__Harlequin-int_dup17|chr1:46326040-46329561:-|10.003084288088008|0.3399966488246573|4.88|534.0|222|3|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.92303466796875 3 492.923585 1475.74892 NaN NaN NaN NaN NaN NaN NaN 92.885 1 92.971 92.471 93.471 0.086212 0 0 0 0.99176 1 48530 48530 7.4771 0.43998 1 + 38315 17701 24356 24432 42970 42970 0.03007975813898156 WWTRNWWWFSE 11 Unmodified _WWTRNWWWFSE_ 0 0 0 ENST00000573520.5_1_16:4521405-4524561:-|nuORF;ENST00000571291.5_1_16:4519639-4524561:-|nuORF;ENST00000283429.10_1_16:4519403-4524606:-|nuORF;ENST00000404295.7_1_16:4519400-4524561:-|nuORF;ENST00000574733.5_1_16:4519403-4524387:-|nuORF ENST00000573520.5_1_16:4521405-4524561:-|nuORF ENST00000573520.5_1_16:4521405-4524561:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 842.377685546875 2 842.378217 1682.74188 NaN NaN NaN NaN NaN NaN NaN 51.877 1 52.687 52.187 53.187 0.81065 0 0 0 1.0082 1 23631 23631 0 0 1 38316 6706 24357 24433 42971 42971 -0.0721794401401894 WWVWRSRRRRA 11 Unmodified _WWVWRSRRRRA_ 0 0 0 ENST00000262160.10_3_18:45423005-45423077:-|nuORF ENST00000262160.10_3_18:45423005-45423077:-|nuORF ENST00000262160.10_3_18:45423005-45423077:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 807.9534912109375 2 807.953084 1613.89161 NaN NaN NaN NaN NaN NaN NaN 92.016 1 92.268 91.768 92.768 0.25253 0 0 0 1.0082 1 42304 42304 0 0 1 38317 6571 24358 24434 42972 42972 0.10922465839144024 WWWIWWQWWKL 11 Unmodified _WWWIWWQWWKL_ 0 0 0 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 601.9695434570312 3 601.969751 1802.88742 NaN NaN NaN NaN NaN NaN NaN 73.425 1 73.425 72.925 73.925 0 0 0 0 1.0082 1 35792 35792 0 0 1 38318 142 24359 24435 42973 42973 0.018095635728514026 WWWIWWQWWKL 11 Unmodified _WWWIWWQWWKL_ 0 0 0 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 902.4488525390625 2 902.450988 1802.88742 NaN NaN NaN NaN NaN NaN NaN 91.805 1 91.805 91.305 92.305 0 0 0 0 1.0082 1 48606 48606 0 0 1 38319 142 24359 24435 42974 42974 0.018095635728514026 WWWIWWQWWKL 11 Unmodified _WWWIWWQWWKL_ 0 0 0 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 902.4508056640625 2 902.450988 1802.88742 NaN NaN NaN NaN NaN NaN NaN 70.581 1 71.285 70.785 71.785 0.70386 0 0 0 1.0082 1 33832 33832 0 0 1 38320 142 24359 24435 42975 42975 0.018095635728514026 WWWIWWQWWKL 11 Unmodified _WWWIWWQWWKL_ 0 0 0 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 902.4503173828125 2 902.450988 1802.88742 NaN NaN NaN NaN NaN NaN NaN 85.436 1 85.464 84.964 85.964 0.028603 0 0 0 1.0082 1 42770 42770 0 0 1 38321 142 24359 24435 42976 42976 0.018095635728514026 WWWKLHFVWER 11 Unmodified _WWWKLHFVWER_ 0 0 0 ENSG00000168282|ENST00000305386|MGAT2 ENSG00000168282|ENST00000305386|MGAT2 ENSG00000168282|ENST00000305386|MGAT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 836.9286499023438 2 836.93042 1671.84629 NaN NaN NaN NaN NaN NaN NaN 104.51 1 104.51 104.01 105.01 0 0 0 0 1.0082 1 57503 57503 0 0 1 38322 4617 24360 24436 42977 42977 0.03723802533363596 WWWRRRRRHRG 11 Unmodified _WWWRRRRRHRG_ 0 0 0 ENST00000475204.5_1_1:70687068-70687435:+|nuORF;ENST00000370951.5_1_1:70671397-70687435:+|nuORF;ENST00000463877.1_1_1:70671397-70687435:+|nuORF;ENST00000395136.6_2_1:70687096-70687432:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF ENST00000475204.5_1_1:70687068-70687435:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.9846801757812 3 569.985792 1706.93555 NaN NaN NaN NaN NaN NaN NaN 78.498 1 79.16 78.66 79.66 0.66198 0 0 0 1.0082 1 36173 36173 0 0 1 38323 7310 24361 24437 42978 42978 0.11035495056103173 WWWRWLRRRR 10 Unmodified _WWWRWLRRRR_ 0 0 0 REV__chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 REV__chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 828.641845703125 2 828.965994 1655.91744 NaN NaN NaN NaN NaN NaN NaN 96.971 1 96.971 96.471 97.471 0 0 0 0 1.002 1 52638 52638 0 0 1 + 38324 10028 24362 24438 42979 42979 0.11571360081393323 WWWRWLRRRR 10 Unmodified _WWWRWLRRRR_ 0 0 0 REV__chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 REV__chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.979248046875 3 552.979755 1655.91744 NaN NaN NaN NaN NaN NaN NaN 45.601 1 45.868 45.368 46.368 0.26768 0 0 0 1.002 1 20846 20846 0 0 1 + 38325 10028 24362 24438 42980 42980 0.11571360081393323 WWWRWLRRRRR 11 Unmodified _WWWRWLRRRRR_ 0 0 0 REV__chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 REV__chr12:54283228-54283827|537|23.73|0.0|21.18|+|1|HNRNPA1,HNRNPA1|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 907.0147705078125 2 907.01655 1812.01855 NaN NaN NaN NaN NaN NaN NaN 94.255 1 94.255 93.755 94.755 0 0 0 0 1.0082 1 50508 50508 0 0 1 + 38326 10028 24363 24439 42981 42981 0.14501811784089114 WWWSWRWWKLQ 11 Unmodified _WWWSWRWWKLQ_ 0 0 0 chr12:54282611-54283827|540|49.39|0.0|22.24|+|1|HNRNPA1,HNRNPA1|1 chr12:54282611-54283827|540|49.39|0.0|22.24|+|1|HNRNPA1,HNRNPA1|1 chr12:54282611-54283827|540|49.39|0.0|22.24|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 874.4364624023438 2 874.43587 1746.85719 NaN NaN NaN NaN NaN NaN NaN 76.671 1 76.671 76.171 77.171 0 0 0 0 1.0082 1 37581 37581 0 0 1 38327 138 24364 24440 42982 42982 0.013632049076704789 WWWWIWWQWW 10 Unmodified _WWWWIWWQWW_ 0 0 0 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 583.6033935546875 3 583.60318 1747.78771 NaN NaN NaN NaN NaN NaN NaN 80.437 1 80.605 80.105 81.105 0.16862 0 0 0 1.002 1 39423 39423 0 0 1 38328 142 24365 24441 42983 42983 -0.05627254041087326 WWWWIWWQWW 10 Unmodified _WWWWIWWQWW_ 0 0 0 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 chr12:54282841-54283827|535|22.5|0.0|21.1|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 583.832275390625 3 583.60318 1747.78771 NaN NaN NaN NaN NaN NaN NaN 97.827 1 98.426 97.926 98.926 0.59885 0 0 0 1.002 1 45020 45020 0 0 1 38329 142 24365 24441 42984 42984 -0.05627254041087326 WWWWPQWWLWR 11 Unmodified _WWWWPQWWLWR_ 0 0 0 REV__chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 REV__chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 908.4347534179688 2 908.438412 1814.86227 NaN NaN NaN NaN NaN NaN NaN 81.186 1 81.355 80.855 81.855 0.16862 0 0 0 1.0082 1 39870 39870 0 0 1 + 38330 10025 24366 24442 42985 42985 -0.012564912296966213 WWWWPQWWLWR 11 Unmodified _WWWWPQWWLWR_ 0 0 0 REV__chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 REV__chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 908.4385986328125 2 908.438412 1814.86227 NaN NaN NaN NaN NaN NaN NaN 82.697 1 82.742 82.242 83.242 0.045006 0 0 0 1.0082 1 40874 40874 0 0 1 + 38331 10025 24366 24442 42986 42986 -0.012564912296966213 WWWWPQWWLWR 11 Unmodified _WWWWPQWWLWR_ 0 0 0 REV__chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 REV__chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 605.9608764648438 3 605.961367 1814.86227 NaN NaN NaN NaN NaN NaN NaN 106.39 1 106.7 106.2 107.2 0.31628 0 0 0 1.0082 1 49095 49095 0 0 1 + 38332 10025 24366 24442 42987 42987 -0.012564912296966213 WWWWPQWWLWR 11 Unmodified _WWWWPQWWLWR_ 0 0 0 REV__chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 REV__chr12:54282823-54283827|538|27.56|0.0|21.39|+|1|HNRNPA1,HNRNPA1|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 908.4359741210938 2 908.438412 1814.86227 NaN NaN NaN NaN NaN NaN NaN 30.672 1 31.289 30.789 31.789 0.61737 0 0 0 1.0082 1 14073 14073 0 0 1 + 38333 10025 24366 24442 42988 42988 -0.012564912296966213 WWWWWFSFYSL 11 Unmodified _WWWWWFSFYSL_ 0 0 0 REV__ENST00000300134.7_1_12:57504946-57505147:-|nuORF REV__ENST00000300134.7_1_12:57504946-57505147:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 847.3873901367188 2 847.38498 1692.75541 NaN NaN NaN NaN NaN NaN NaN 54.096 1 54.892 54.392 55.392 0.79552 0 0 0 1.0082 1 24683 24683 0 0 1 + 38334 15182 24367 24443 42989 42989 -0.0632608623473061 WWYLHYIYFSF 11 Unmodified _WWYLHYIYFSF_ 0 0 0 REV__ENSG00000132017|ENST00000254337|DCAF15 REV__ENSG00000132017|ENST00000254337|DCAF15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 812.8847045898438 2 812.884813 1623.75507 NaN NaN NaN NaN NaN NaN NaN 55.238 1 55.238 54.738 55.738 0 0 0 0 1.0082 1 25370 25370 0 0 1 + 38335 11876 24368 24444 42990 42990 -0.03185505954593282 WWYRWWCVFPW 11 Unmodified _WWYRWWCVFPW_ 0 0 0 REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 857.8933715820312 2 857.892449 1713.77035 NaN NaN NaN NaN NaN NaN NaN 79.518 1 79.518 79.018 80.018 0 0 0 0 1.0082 1 39301 39301 0 0 1 + 38336 16105 24369 24445 42991 42991 -0.057989176383898666 WWYYDMPHYRT 11 Unmodified _WWYYDMPHYRT_ 0 0 0 REV__ENSG00000161267|ENST00000392379|BDH1 REV__ENSG00000161267|ENST00000392379|BDH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 809.3507080078125 2 809.350811 1616.68707 NaN NaN NaN NaN NaN NaN NaN 78.718 1 79.182 78.682 79.682 0.4642 0 0 0 1.0082 1 38309 38309 0 0 1 + 38337 12909 24370 24446 42992 42992 -0.09660698876905371 WYDPKVTRV 9 Unmodified _WYDPKVTRV_ 0 0 0 nc|ENSG00000113643|P54136-2|RARS1;ENSG00000113643|ENST00000231572|RARS1 nc|ENSG00000113643|P54136-2|RARS1 nc|ENSG00000113643|P54136-2|RARS1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 388.19390869140625 3 388.545108 1162.61349 2.7011 0.0010495 -0.1111 -4.3168E-05 2.59 0.0010063 388.5448524553013 37.031 0.23991 37.031 36.84 37.08 0 18 9 3 0 0 0 0.1108 1 16786 16786 5.4027 4.3312 1 244890 38338 1865 24371 24447 42993 42993 0.03869120742933774 WYDPKVTRV 9 Unmodified _WYDPKVTRV_ 0 0 0 nc|ENSG00000113643|P54136-2|RARS1;ENSG00000113643|ENST00000231572|RARS1 nc|ENSG00000113643|P54136-2|RARS1 nc|ENSG00000113643|P54136-2|RARS1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 388.1936950683594 3 388.545108 1162.61349 2.6352 0.0010239 0.30619 0.00011897 2.9414 0.0011429 388.54485595316385 35.891 0.1724 36.682 36.585 36.757 0.79131 14 7 3 0 0 0 0.10291 1 16262 16262 12.175 11.103 1 351210 38339 1865 24371 24447 42994 42994 0.03869120742933774 WYDPKVTRV 9 Unmodified _WYDPKVTRV_ 0 0 0 nc|ENSG00000113643|P54136-2|RARS1;ENSG00000113643|ENST00000231572|RARS1 nc|ENSG00000113643|P54136-2|RARS1 nc|ENSG00000113643|P54136-2|RARS1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 388.1937255859375 3 388.545108 1162.61349 2.979 0.0011575 -0.64898 -0.00025216 2.33 0.0009053 388.5449689451354 36.952 0.26318 37.21 37.05 37.313 0.25768 12 8 2 0 0 0 0.10755 1 16804 16804 8.4443 6.3583 1 387840 38340 1865 24371 24447 42995 42995 0.03869120742933774 WYDPKVTRV 9 Unmodified _WYDPKVTRV_ 0 0 0 nc|ENSG00000113643|P54136-2|RARS1;ENSG00000113643|ENST00000231572|RARS1 nc|ENSG00000113643|P54136-2|RARS1 nc|ENSG00000113643|P54136-2|RARS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 388.5455627441406 3 388.545108 1162.61349 2.9327 0.0011395 -0.41485 -0.00016119 2.5179 0.00097831 388.54482109043704 36.274 0.31144 36.9 36.762 37.073 0.62631 20 9 3 0 0 0 0.91793 1 16630 16630 5.4027 2.9042 1 409530 38341 1865 24371 24447 42996 42996 0.03869120742933774 WYEPHVSTWY 10 Unmodified _WYEPHVSTWY_ 0 0 0 REV__nc|ENSG00000135374|Q9UKW6-3|ELF5 REV__nc|ENSG00000135374|Q9UKW6-3|ELF5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 684.3091430664062 2 684.306395 1366.59824 3.3453 0.0022892 1.0679 0.0007308 4.4132 0.00302 684.3069442034598 104.47 0.46665 104.47 104.26 104.73 0 80 34 3 0 0 0 0.94246 1 57499 57499 0.40072 0.050084 1 1244500 + 38342 12013 24372 24448 42997 42997 -0.07039790844896743 WYEPHVSTWY 10 Unmodified _WYEPHVSTWY_ 0 0 0 REV__nc|ENSG00000135374|Q9UKW6-3|ELF5 REV__nc|ENSG00000135374|Q9UKW6-3|ELF5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 684.31103515625 2 684.306395 1366.59824 4.6237 0.003164 0.93471 0.00063963 5.5584 0.0038037 684.3069612270328 103.9 0.19962 104.21 104.08 104.28 0.31863 43 26 3 0 0 0 0.94246 1 48016 48016 0.40072 0.050084 1 1104800 + 38343 12013 24372 24448 42998 42998 -0.07039790844896743 WYEPHVSTWY 10 Unmodified _WYEPHVSTWY_ 0 0 0 REV__nc|ENSG00000135374|Q9UKW6-3|ELF5 REV__nc|ENSG00000135374|Q9UKW6-3|ELF5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 684.3093872070312 2 684.306395 1366.59824 4.6236 0.003164 0.51391 0.00035167 5.1375 0.0035156 684.3066065716372 104.04 0.15276 104.36 104.29 104.45 0.31862 82 30 3 0 0 0 0.94246 2 48056 48056;48092 0.40072 0.050084 1 1236300 + 38344 12013 24372 24448 42999;43000 42999 -0.07039790844896743 WYEPHVSTWY 10 Unmodified _WYEPHVSTWY_ 0 0 0 REV__nc|ENSG00000135374|Q9UKW6-3|ELF5 REV__nc|ENSG00000135374|Q9UKW6-3|ELF5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 684.3110961914062 2 684.306395 1366.59824 4.1643 0.0028497 0.85573 0.00058558 5.0201 0.0034353 684.8086094216758 103.82 0.14545 104.42 104.31 104.46 0.59821 50 22 3 0 0 0 0.94246 1 47993 47993 0.40072 0.050084 1 1238900 + 38345 12013 24372 24448 43001 43001 -0.07039790844896743 WYEPHVSTWY 10 Unmodified _WYEPHVSTWY_ 0 0 0 REV__nc|ENSG00000135374|Q9UKW6-3|ELF5 REV__nc|ENSG00000135374|Q9UKW6-3|ELF5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 684.3101806640625 2 684.306395 1366.59824 4.1641 0.0028495 0.75589 0.00051726 4.92 0.0033668 684.3068566244722 104 0.16994 104.6 104.52 104.69 0.59822 96 38 3 0 0 0 0.94246 1 48068 48068 0.40072 0.40072 1 1625600 + 38346 12013 24372 24448 43002 43002 -0.07039790844896743 WYEPHVSTWY 10 Unmodified _WYEPHVSTWY_ 0 0 0 REV__nc|ENSG00000135374|Q9UKW6-3|ELF5 REV__nc|ENSG00000135374|Q9UKW6-3|ELF5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 684.306395 1366.59824 4.1642 0.0028496 0.50842 0.00034792 4.6727 0.0031975 684.306713908236 103.89 0.055954 104.49 104.46 104.52 0.59822 0.047332 -0.0002519 NaN 0.40072 24 10 3 NaN NaN NaN NaN 0 NaN NaN 0 1539600 + 38347 12013 24372 24448 -0.07039790844896743 WYERVRVSFRQ 11 Unmodified _WYERVRVSFRQ_ 0 0 0 REV__ENST00000395841.6_1_20:55953421-55953598:+|nuORF REV__ENST00000395841.6_1_20:55953421-55953598:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.73602294921875 3 509.27227 1524.79498 3.1327 0.0015954 -2.2631 -0.0011525 0.86965 0.00044289 509.2712557021273 19.394 0.15095 19.692 19.578 19.729 0.29753 18 12 2 0 0 0 0.13295 1 8790 8790 1.2148 0.20126 1 548220 + 38348 15993 24373 24449 43003 43003 0.05357433768676856 WYFWRRHVFIW 11 Unmodified _WYFWRRHVFIW_ 0 0 0 ENST00000441875.1_1_17:16330801-16331912:+|nuORF;ENSG00000187688|ENST00000338560|TRPV2 ENST00000441875.1_1_17:16330801-16331912:+|nuORF ENST00000441875.1_1_17:16330801-16331912:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 848.4365234375 2 848.438412 1694.86227 NaN NaN NaN NaN NaN NaN NaN 74.246 1 74.246 73.746 74.746 0 0 0 0 1.0082 1 36257 36257 0 0 1 38349 5629 24374 24450 43004 43004 0.042635087702819874 WYGVDVTAR 9 Unmodified _WYGVDVTAR_ 0 0 0 ENST00000453371.2_1_2:236954608-237032763:+|nuORF;nc|ENSG00000157985|Q9UPQ3-2|AGAP1;ENSG00000157985|ENST00000304032|AGAP1 ENST00000453371.2_1_2:236954608-237032763:+|nuORF ENST00000453371.2_1_2:236954608-237032763:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 356.1829528808594 3 356.182058 1065.52434 2.6458 0.0009424 -0.26317 -9.3737E-05 2.3827 0.00084866 356.18191866511927 46.212 0.39638 46.478 46.307 46.703 0.26561 42 17 3 0 0 0 0.38625 1 21135 21135 14.405 3.6059 1 1577100 38350 3969 24375 24451 43005 43005 -0.005797142165647529 WYGVDVTAR 9 Unmodified _WYGVDVTAR_ 0 0 0 ENST00000453371.2_1_2:236954608-237032763:+|nuORF;nc|ENSG00000157985|Q9UPQ3-2|AGAP1;ENSG00000157985|ENST00000304032|AGAP1 ENST00000453371.2_1_2:236954608-237032763:+|nuORF ENST00000453371.2_1_2:236954608-237032763:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 356.18304443359375 3 356.182058 1065.52434 2.7648 0.00098478 -0.20155 -7.1787E-05 2.5633 0.00091299 356.1819923613071 45.641 0.38974 46.292 46.078 46.468 0.65104 40 15 3 0 0 0 0.38625 1 20912 20912 14.405 6.2499 1 1619700 38351 3969 24375 24451 43006 43006 -0.005797142165647529 WYIFYFVIQRK 11 Unmodified _WYIFYFVIQRK_ 0 0 0 nc|ENSG00000149485|O60427-2|FADS1;nc|ENSG00000149485|O60427|FADS1;ENSG00000149485|ENST00000350997|FADS1 nc|ENSG00000149485|O60427-2|FADS1 nc|ENSG00000149485|O60427-2|FADS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 781.929443359375 2 781.929554 1561.84456 NaN NaN NaN NaN NaN NaN NaN 29.287 1 30.076 29.576 30.576 0.78921 0 0 0 1.0082 1 13200 13200 0 0 1 38352 3646 24376 24452 43007 43007 0.08610748724777295 WYIMEKWAPL 10 Unmodified _WYIMEKWAPL_ 0 0 0 ENSG00000171495|ENST00000399564|MROH2B ENSG00000171495|ENST00000399564|MROH2B ENSG00000171495|ENST00000399564|MROH2B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 668.8406372070312 2 668.841559 1335.66857 3.8309 0.0025622 -1.0713 -0.00071653 2.7596 0.0018457 668.8387371543978 63.059 0.13482 63.717 63.631 63.765 0.65808 14 7 3 0 0 0 0.89464 1 28908 28908 3.9444 0.66309 1 570890 38353 4807 24377 24453 43008 43008 0.01415791219210405 WYKSKFADL 9 Unmodified _WYKSKFADL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000421459.2_2_10:17272631-17276850:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 386.5388488769531 3 386.537842 1156.5917 2.6499 0.0010243 -0.017559 -6.7874E-06 2.6324 0.0010175 386.53777269640284 44.645 0.37099 44.645 44.551 44.922 0 61 24 4 0 0 0 0.02812 2 20410 20410;20461 46.022 20.002 1 9008700 38354 483 24378 24454 43009;43010 43009 0.0196631599437751 WYKSKFADL 9 Unmodified _WYKSKFADL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000421459.2_2_10:17272631-17276850:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 579.3046264648438 2 579.303124 1156.5917 3.5888 0.002079 -0.42392 -0.00024558 3.1648 0.0018334 579.302974713653 44.641 0.23243 44.641 44.585 44.818 0 35 14 3 0 0 0 0.0011142 2 20418 20418;20470 125.04 71.205 1 3823100 38355 483 24378 24454 43011;43012 43011 0.0196631599437751 WYKSKFADL 9 Unmodified _WYKSKFADL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000421459.2_2_10:17272631-17276850:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 386.53887939453125 3 386.537842 1156.5917 2.4162 0.00093397 0.076786 2.9681E-05 2.493 0.00096365 386.5378975909557 43.47 0.40861 44.285 44.127 44.536 0.81444 63 19 5 0 0 0 0.053453 2 19758 19758;19809 35.612 15.031 1 7295300 38356 483 24378 24454 43013;43014 43013 0.0196631599437751 WYKSKFADL 9 Unmodified _WYKSKFADL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000421459.2_2_10:17272631-17276850:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 579.3047485351562 2 579.303124 1156.5917 3.2342 0.0018736 0.14843 8.5986E-05 3.3826 0.0019596 579.3031169269262 43.479 0.34153 44.294 44.116 44.458 0.81444 44 16 4 0 0 0 0.0020335 2 19765 19765;19819 103.82 54.008 1 2682300 38357 483 24378 24454 43015;43016 43015 0.0196631599437751 WYKSKFADL 9 Unmodified _WYKSKFADL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000421459.2_2_10:17272631-17276850:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 579.30419921875 2 579.303124 1156.5917 3.1843 0.0018447 0.18308 0.00010606 3.3674 0.0019507 579.3033083920626 44.676 0.29276 44.944 44.731 45.023 0.26811 23 12 3 0 0 0 0.0023958 1 20391 20391 100.09 54.391 1 1446900 38358 483 24378 24454 43017 43017 0.0196631599437751 WYKSKFADL 9 Unmodified _WYKSKFADL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000421459.2_2_10:17272631-17276850:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 386.5389099121094 3 386.537842 1156.5917 2.6856 0.0010381 0.074018 2.8611E-05 2.7597 0.0010667 386.5378908727068 44.654 0.37081 44.923 44.698 45.069 0.2694 37 16 3 0 0 0 0.10584 2 20393 20393;20443 23.801 10.928 1 2846200 38359 483 24378 24454 43018;43019 43018 0.0196631599437751 WYKSKFADL 9 Unmodified _WYKSKFADL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000421459.2_2_10:17272631-17276850:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 579.3052978515625 2 579.303124 1156.5917 3.7858 0.0021931 0.70528 0.00040857 4.4911 0.0026017 579.3035645866695 44.051 0.19958 44.7 44.575 44.774 0.64952 16 6 3 0 0 0 0.0013355 1 20189 20189 117.76 66.131 1 1157800 38360 483 24378 24454 43020 43020 0.0196631599437751 WYKSKFADL 9 Unmodified _WYKSKFADL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000421459.2_2_10:17272631-17276850:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 386.5390625 3 386.537842 1156.5917 2.9337 0.001134 0.069691 2.6938E-05 3.0034 0.0011609 386.5378360502285 44.047 0.25239 44.697 44.575 44.827 0.6494 22 10 3 0 0 0 0.1229 1 20203 20203 21.799 4.3568 1 2708900 38361 483 24378 24454 43021 43021 0.0196631599437751 WYLLRKHW 8 Unmodified _WYLLRKHW_ 0 0 0 ENST00000464173.5_1_20:30136866-30137929:+|nuORF;ENST00000483310.5_1_20:30136863-30150236:+|nuORF;ENST00000492709.5_1_20:30132820-30157019:+|nuORF;ENST00000460389.5_1_20:30136650-30157019:+|nuORF;nc|ENSG00000101294|Q8TCT9|HM13;nc|ENSG00000101294|Q8TCT9-4|HM13;ENSG00000101294|ENST00000398174|HM13 ENST00000464173.5_1_20:30136866-30137929:+|nuORF ENST00000464173.5_1_20:30136866-30137929:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.3327026367188 2 601.335093 1200.65563 NaN NaN NaN NaN NaN NaN NaN 56.003 1 56.79 56.29 57.29 0.78711 0 0 0 0.99035 1 25590 25590 2.5775 0.27475 1 38362 1281 24379 24455 43022 43022 0.06333140941978854 WYQRYWIYTTL 11 Unmodified _WYQRYWIYTTL_ 0 0 0 REV__nc|ENSG00000166736|P46098-3|HTR3A REV__nc|ENSG00000166736|P46098-3|HTR3A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 796.8970947265625 2 796.898451 1591.78235 NaN NaN NaN NaN NaN NaN NaN 78.806 1 79.27 78.77 79.77 0.4642 0 0 0 1.008 1 38362 38362 0.30703 0.03801 1 + 38363 13257 24380 24456 43023 43023 0.010129775857876666 WYRHQWRRRWS 11 Unmodified _WYRHQWRRRWS_ 0 0 0 REV__ENST00000570069.5_1_16:1826945-1827407:+|nuORF REV__ENST00000570069.5_1_16:1826945-1827407:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 858.9375610351562 2 858.940173 1715.86579 NaN NaN NaN NaN NaN NaN NaN 76.057 1 76.681 76.181 77.181 0.62397 0 0 0 1.0082 1 36844 36844 0 0 1 + 38364 17377 24381 24457 43024 43024 0.036495715968612785 WYWWFWESGFS 11 Unmodified _WYWWFWESGFS_ 0 0 0 REV__nc|ENSG00000001036|Q9BTY2-2|FUCA2 REV__nc|ENSG00000001036|Q9BTY2-2|FUCA2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.5592651367188 3 527.559305 1579.65609 NaN NaN NaN NaN NaN NaN NaN 36.023 1 36.023 35.523 36.523 0 0 0 0 1.0082 1 16349 16349 0 0 1 + 38365 10152 24382 24458 43025 43025 -0.11055528919496282 WYYLEQFQYWE 11 Unmodified _WYYLEQFQYWE_ 0 0 0 ENSG00000137574|ENST00000260129|TGS1;ENST00000523948.5_1_8:56686169-56737149:+|nuORF ENSG00000137574|ENST00000260129|TGS1;ENST00000523948.5_1_8:56686169-56737149:+|nuORF ENST00000523948.5_1_8:56686169-56737149:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 827.865234375 2 827.864274 1653.714 NaN NaN NaN NaN NaN NaN NaN 87.656 1 87.656 87.156 88.156 0 0 0 0 1.0082 1 45264 45264 0 0 1 38366 3028;8661 24383 24459 43026 43026 -0.08671311784678437 WYYLEQFQYWE 11 Unmodified _WYYLEQFQYWE_ 0 0 0 ENSG00000137574|ENST00000260129|TGS1;ENST00000523948.5_1_8:56686169-56737149:+|nuORF ENSG00000137574|ENST00000260129|TGS1;ENST00000523948.5_1_8:56686169-56737149:+|nuORF ENST00000523948.5_1_8:56686169-56737149:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 827.864013671875 2 827.864274 1653.714 NaN NaN NaN NaN NaN NaN NaN 36.84 1 37.097 36.597 37.597 0.25768 0 0 0 1.0082 1 16780 16780 0 0 1 38367 3028;8661 24383 24459 43027 43027 -0.08671311784678437 WYYRLQRQWDF 11 Unmodified _WYYRLQRQWDF_ 0 0 0 REV__ENSG00000115423|ENST00000389394|DNAH6 REV__ENSG00000115423|ENST00000389394|DNAH6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 830.9027709960938 2 830.904599 1659.79465 NaN NaN NaN NaN NaN NaN NaN 73.86 1 74.547 74.047 75.047 0.68662 0 0 0 1.0082 1 35661 35661 0 0 1 + 38368 11365 24384 24460 43028 43028 -0.008859859511858303 WYYRLQRQWDF 11 Unmodified _WYYRLQRQWDF_ 0 0 0 REV__ENSG00000115423|ENST00000389394|DNAH6 REV__ENSG00000115423|ENST00000389394|DNAH6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 830.9044799804688 2 830.904599 1659.79465 NaN NaN NaN NaN NaN NaN NaN 48.12 1 48.382 47.882 48.882 0.26209 0 0 0 1.0082 1 21995 21995 0 0 1 + 38369 11365 24384 24460 43029 43029 -0.008859859511858303 YADEERWDL 9 Unmodified _YADEERWDL_ 0 0 0 ENSG00000150938|ENST00000280527|CRIM1 ENSG00000150938|ENST00000280527|CRIM1 ENSG00000150938|ENST00000280527|CRIM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 598.7661743164062 2 598.76456 1195.51457 3.5911 0.0021502 -0.54518 -0.00032643 3.0459 0.0018238 598.7642389330763 51.625 0.12001 51.887 51.813 51.934 0.26227 8 5 2 0 0 0 0.11155 1 23600 23600 29.841 5.1667 1 217790 38370 3682 24385 24461 43030 43030 -0.07536947012590645 YADEERWDL 9 Unmodified _YADEERWDL_ 0 0 0 ENSG00000150938|ENST00000280527|CRIM1 ENSG00000150938|ENST00000280527|CRIM1 ENSG00000150938|ENST00000280527|CRIM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 598.7666625976562 2 598.76456 1195.51457 NaN NaN NaN NaN NaN NaN NaN 51.109 1 51.769 51.269 52.269 0.65956 0 0 0 0.6155 1 23370 23370 15.248 7.093 1 38371 3682 24385 24461 43031 43031 -0.07536947012590645 YADIHGDLL 9 Unmodified _YADIHGDLL_ 0 0 0 ENSG00000124171|ENST00000371610|PARD6B;PARD6B|p.N253*|1|0.37|ENSG00000124171|chr20:50750126-50750127|AA/-|frameshift_variant;PARD6B|p.N271Kfs*10|1|0.22|ENSG00000124171|chr20:50750181-50750182|AC/-|frameshift_variant;nc|ENSG00000124171|Q9BYG5-2|PARD6B ENSG00000124171|ENST00000371610|PARD6B ENSG00000124171|ENST00000371610|PARD6B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 508.7581481933594 2 508.756007 1015.49746 3.2066 0.0016314 -0.15806 -8.0412E-05 3.0486 0.001551 508.756367849737 51.661 0.22331 51.661 51.53 51.754 0 17 13 2 0 0 0 0.22507 1 23672 23672 21.747 7.165 1 233880 38372 2343 24386 24462 43032 43032 -0.00966822827751912 YADIHGDLL 9 Unmodified _YADIHGDLL_ 0 0 0 ENSG00000124171|ENST00000371610|PARD6B;PARD6B|p.N253*|1|0.37|ENSG00000124171|chr20:50750126-50750127|AA/-|frameshift_variant;PARD6B|p.N271Kfs*10|1|0.22|ENSG00000124171|chr20:50750181-50750182|AC/-|frameshift_variant;nc|ENSG00000124171|Q9BYG5-2|PARD6B ENSG00000124171|ENST00000371610|PARD6B ENSG00000124171|ENST00000371610|PARD6B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 508.756007 1015.49746 3.1472 0.0016012 -0.47019 -0.00023921 2.677 0.001362 508.75610669476794 50.885 0.12239 51.545 51.518 51.64 0.65956 -0.057899 -0.00020703 NaN 21.747 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 360250 38373 2343 24386 24462 -0.00966822827751912 YAEDEDEEED 10 Unmodified _YAEDEDEEED_ 0 0 0 REV__ENST00000503766.5_1_6:43191760-43192180:+|nuORF REV__ENST00000503766.5_1_6:43191760-43192180:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 622.3034057617188 2 622.209677 1242.4048 NaN NaN NaN NaN NaN NaN NaN 88.633 1 88.633 88.133 89.133 0 0 0 0 0.99983 1 46044 46044 1.8442 0 1 + 38374 11279 24387 24463 43033 43033 -0.2067046193310489 YAFPKAVSV 9 Unmodified _YAFPKAVSV_ 0 0 0 ENST00000581642.1_1_17:80193878-80194172:+|nuORF;ENST00000584781.5_1_17:80193878-80195055:+|nuORF;ENST00000579572.1_1_17:80193878-80195110:+|nuORF;ENSG00000141526|ENST00000582743|SLC16A3 ENST00000581642.1_1_17:80193878-80194172:+|nuORF ENST00000581642.1_1_17:80193878-80194172:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.2756652832031 2 491.273835 980.533118 3.2061 0.0015751 -0.051145 -2.5126E-05 3.1549 0.0015499 491.2734665469658 52.608 0.50779 52.872 52.521 53.029 0.26345 40 22 4 0 0 0 0.0095519 2 24052 24052;24102 82.529 44.555 1 4228600 38375 3265 24388 24464 43034;43035 43034 0.04207259419899856 YAFPKAVSV 9 Unmodified _YAFPKAVSV_ 0 0 0 ENST00000581642.1_1_17:80193878-80194172:+|nuORF;ENST00000584781.5_1_17:80193878-80195055:+|nuORF;ENST00000579572.1_1_17:80193878-80195110:+|nuORF;ENSG00000141526|ENST00000582743|SLC16A3 ENST00000581642.1_1_17:80193878-80194172:+|nuORF ENST00000581642.1_1_17:80193878-80194172:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.27545166015625 2 491.273835 980.533118 3.0236 0.0014854 0.25003 0.00012283 3.2736 0.0016083 491.27369178146546 52.224 0.36534 52.886 52.66 53.026 0.66198 42 15 4 0 0 0 0.0061394 2 23852 23852;23907 89.401 51.427 1 2792500 38376 3265 24388 24464 43036;43037 43036 0.04207259419899856 YAFPKAVSV 9 Unmodified _YAFPKAVSV_ 0 0 0 ENST00000581642.1_1_17:80193878-80194172:+|nuORF;ENST00000584781.5_1_17:80193878-80195055:+|nuORF;ENST00000579572.1_1_17:80193878-80195110:+|nuORF;ENSG00000141526|ENST00000582743|SLC16A3 ENST00000581642.1_1_17:80193878-80194172:+|nuORF ENST00000581642.1_1_17:80193878-80194172:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 491.273835 980.533118 3.1882 0.0015663 -0.9554 -0.00046936 2.2328 0.0010969 491.2732432662197 52.898 0.2192 52.898 52.793 53.013 0 0.012748 -0.00093762 NaN 89.401 19 11 2 NaN NaN NaN NaN 0 NaN NaN 0 522820 38377 3265 24388 24464 0.04207259419899856 YAGMGGGH 8 Unmodified _YAGMGGGH_ 0 0 0 USP15|p.G885A|1|0.11|ENSG00000135655|chr12:62396378-62396378|G/C|missense_variant USP15|p.G885A|1|0.11|ENSG00000135655|chr12:62396378-62396378|G/C|missense_variant USP15|p.G885A|1|0.11|ENSG00000135655|chr12:62396378-62396378|G/C|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 375.15673828125 2 375.155406 748.296258 2.8875 0.0010833 1.9724 0.00073997 4.8599 0.0018232 375.155956930953 101.99 0.12428 102.59 102.53 102.66 0.59759 7 4 2 0 0 0 0.7471 1 47239 47239 0.79363 0 1 373240 38378 18288 24389 24465 43038 43038 -0.08795790345266141 YAGMGGGH 8 Unmodified _YAGMGGGH_ 0 0 0 USP15|p.G885A|1|0.11|ENSG00000135655|chr12:62396378-62396378|G/C|missense_variant USP15|p.G885A|1|0.11|ENSG00000135655|chr12:62396378-62396378|G/C|missense_variant USP15|p.G885A|1|0.11|ENSG00000135655|chr12:62396378-62396378|G/C|missense_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 375.155406 748.296258 3.5805 0.0013432 2.3925 0.00089756 5.973 0.0022408 375.15627112996685 102.07 0.1228 102.39 102.32 102.44 0.31737 -0.09995 5.8502E-05 NaN 0.79363 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 606590 38379 18288 24389 24465 -0.08795790345266141 YAHRDFENRD 10 Unmodified _YAHRDFENRD_ 0 0 0 ENSG00000166896|ENST00000300145|ATP23 ENSG00000166896|ENST00000300145|ATP23 ENSG00000166896|ENST00000300145|ATP23 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 441.2853698730469 3 441.53393 1321.57996 NaN NaN NaN NaN NaN NaN NaN 41.205 1 41.85 41.35 42.35 0.64451 0 0 0 0.99774 1 18848 18848 1.7423 0 1 38380 4513 24390 24466 43039 43039 -0.06796532766907148 YAIEVDPVL 9 Unmodified _YAIEVDPVL_ 0 0 0 ENST00000441170.1_1_4:118496697-118497264:-|nuORF;ENSG00000122643|ENST00000610140|NT5C3A;nc|ENSG00000122643|Q9H0P0|NT5C3A;nc|ENSG00000122643|Q9H0P0-3|NT5C3A;nc|ENSG00000122643|Q9H0P0-2|NT5C3A;nc|ENSG00000122643|Q9H0P0-1|NT5C3A ENST00000441170.1_1_4:118496697-118497264:-|nuORF ENST00000441170.1_1_4:118496697-118497264:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 509.7786865234375 2 509.776408 1017.53826 3.1976 0.00163 -0.36636 -0.00018676 2.8312 0.0014433 510.2776775399303 77.529 0.44716 77.782 77.607 78.055 0.25334 46 29 2 0 0 0 0.11001 1 35686 35686 30.225 8.4782 1 1078600 38381 2274 24391 24467 43040 43040 0.030195184918625273 YAIEVDPVL 9 Unmodified _YAIEVDPVL_ 0 0 0 ENST00000441170.1_1_4:118496697-118497264:-|nuORF;ENSG00000122643|ENST00000610140|NT5C3A;nc|ENSG00000122643|Q9H0P0|NT5C3A;nc|ENSG00000122643|Q9H0P0-3|NT5C3A;nc|ENSG00000122643|Q9H0P0-2|NT5C3A;nc|ENSG00000122643|Q9H0P0-1|NT5C3A ENST00000441170.1_1_4:118496697-118497264:-|nuORF ENST00000441170.1_1_4:118496697-118497264:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1018.550048828125 1 1018.54554 1017.53826 3.3694 0.0034319 -0.0034417 -3.5055E-06 3.366 0.0034284 1018.5453599838779 77.061 0.22058 77.724 77.587 77.807 0.66303 22 17 2 0 0 0 0.11001 2 35488 35488;35530 30.225 7.7316 1 571100 38382 2274 24391 24467 43041;43042 43041 0.030195184918625273 YAIEVDPVL 9 Unmodified _YAIEVDPVL_ 0 0 0 ENST00000441170.1_1_4:118496697-118497264:-|nuORF;ENSG00000122643|ENST00000610140|NT5C3A;nc|ENSG00000122643|Q9H0P0|NT5C3A;nc|ENSG00000122643|Q9H0P0-3|NT5C3A;nc|ENSG00000122643|Q9H0P0-2|NT5C3A;nc|ENSG00000122643|Q9H0P0-1|NT5C3A ENST00000441170.1_1_4:118496697-118497264:-|nuORF ENST00000441170.1_1_4:118496697-118497264:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.7774353027344 2 509.776408 1017.53826 NaN NaN NaN NaN NaN NaN NaN 77.014 1 77.678 77.178 78.178 0.66303 0 0 0 0.085491 1 35489 35489 44.407 15.92 1 38383 2274 24391 24467 43043 43043 0.030195184918625273 YAIEVDPVL 9 Unmodified _YAIEVDPVL_ 0 0 0 ENST00000441170.1_1_4:118496697-118497264:-|nuORF;ENSG00000122643|ENST00000610140|NT5C3A;nc|ENSG00000122643|Q9H0P0|NT5C3A;nc|ENSG00000122643|Q9H0P0-3|NT5C3A;nc|ENSG00000122643|Q9H0P0-2|NT5C3A;nc|ENSG00000122643|Q9H0P0-1|NT5C3A ENST00000441170.1_1_4:118496697-118497264:-|nuORF ENST00000441170.1_1_4:118496697-118497264:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.78021240234375 2 509.776408 1017.53826 NaN NaN NaN NaN NaN NaN NaN 77.106 1 77.769 77.269 78.269 0.66303 0 0 0 0.26328 1 35532 35532 28.487 15.955 1 38384 2274 24391 24467 43044 43044 0.030195184918625273 YAIHQVVLP 9 Unmodified _YAIHQVVLP_ 0 0 0 nc|ENSG00000129317|Q9H0K6-2|PUS7L;ENSG00000129317|ENST00000344862|PUS7L nc|ENSG00000129317|Q9H0K6-2|PUS7L nc|ENSG00000129317|Q9H0K6-2|PUS7L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.2982788085938 2 520.300384 1038.58622 NaN NaN NaN NaN NaN NaN NaN 97.789 1 98.078 97.578 98.578 0.28923 0 0 0 0.56337 1 44941 44941 16.942 1.0951 1 38385 2546 24392 24468 43045 43045 0.06846637202556849 YAIREEIVL 9 Unmodified _YAIREEIVL_ 0 0 0 ENSG00000196961|ENST00000354293|AP2A1;nc|ENSG00000196961|O95782|AP2A1;ENST00000597774.5_1_19:50270412-50303272:+|nuORF ENSG00000196961|ENST00000354293|AP2A1 ENSG00000196961|ENST00000354293|AP2A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.3181762695312 2 553.316232 1104.61791 NaN NaN NaN NaN NaN NaN NaN 59.773 1 60.522 60.022 61.022 0.74927 0 0 0 0.13628 1 27465 27465 34.932 14.518 1 38386 5789 24393 24469 43046 43046 0.06978585165848017 YAIREEIVL 9 Unmodified _YAIREEIVL_ 0 0 0 ENSG00000196961|ENST00000354293|AP2A1;nc|ENSG00000196961|O95782|AP2A1;ENST00000597774.5_1_19:50270412-50303272:+|nuORF ENSG00000196961|ENST00000354293|AP2A1 ENSG00000196961|ENST00000354293|AP2A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.9822387695312 2 553.316232 1104.61791 NaN NaN NaN NaN NaN NaN NaN 59.894 1 60.644 60.144 61.144 0.74927 0 0 0 0.34849 1 27525 27525 24.991 3.454 1 38387 5789 24393 24469 43047 43047 0.06978585165848017 YAIREEIVL 9 Unmodified _YAIREEIVL_ 0 0 0 ENSG00000196961|ENST00000354293|AP2A1;nc|ENSG00000196961|O95782|AP2A1;ENST00000597774.5_1_19:50270412-50303272:+|nuORF ENSG00000196961|ENST00000354293|AP2A1 ENSG00000196961|ENST00000354293|AP2A1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.3181762695312 2 553.316232 1104.61791 3.5777 0.0019796 -0.45339 -0.00025087 3.1243 0.0017287 553.3159918084611 60.689 0.29638 60.944 60.882 61.179 0.25578 26 15 2 0 0 0 0.069974 2 27836 27791;27836 40.239 15.493 1 599950 38388 5789 24393 24469 43048;43049 43049 0.06978585165848017 YAIREEIVL 9 Unmodified _YAIREEIVL_ 0 0 0 ENSG00000196961|ENST00000354293|AP2A1;nc|ENSG00000196961|O95782|AP2A1;ENST00000597774.5_1_19:50270412-50303272:+|nuORF ENSG00000196961|ENST00000354293|AP2A1 ENSG00000196961|ENST00000354293|AP2A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.3181762695312 2 553.316232 1104.61791 NaN NaN NaN NaN NaN NaN NaN 60.127 1 60.792 60.292 61.292 0.66503 0 0 0 0.13628 1 27529 27529 34.932 14.518 1 38389 5789 24393 24469 43050 43050 0.06978585165848017 YAIREEIVL 9 Unmodified _YAIREEIVL_ 0 0 0 ENSG00000196961|ENST00000354293|AP2A1;nc|ENSG00000196961|O95782|AP2A1;ENST00000597774.5_1_19:50270412-50303272:+|nuORF ENSG00000196961|ENST00000354293|AP2A1 ENSG00000196961|ENST00000354293|AP2A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.3176879882812 2 553.316232 1104.61791 NaN NaN NaN NaN NaN NaN NaN 60.238 1 60.903 60.403 61.403 0.66503 0 0 0 0.31736 1 27580 27580 26.268 7.0112 1 38390 5789 24393 24469 43051 43051 0.06978585165848017 YAKKRGWVL 9 Unmodified _YAKKRGWVL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.22637939453125 3 374.225709 1119.6553 2.9261 0.001095 -1.229 -0.00045993 1.6971 0.00063509 374.55949074560255 25.104 0.11871 25.104 25.039 25.158 0 33 23 2 0 0 0 0.14729 1 11248 11248 19.362 7.8672 1 10110000 38391 1141 24394 24470 43052 43052 0.10025721222132233 YAKKRGWVL 9 Unmodified _YAKKRGWVL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 374.2262268066406 3 374.225709 1119.6553 NaN NaN NaN NaN NaN NaN NaN 25.157 1 25.157 24.657 25.657 0 0 0 0 0.11997 1 11297 11297 28.495 7.6234 1 38392 1141 24394 24470 43053 43053 0.10025721222132233 YAKKRGWVL 9 Unmodified _YAKKRGWVL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.2264099121094 3 374.225709 1119.6553 NaN NaN NaN NaN NaN NaN NaN 23.91 1 24.595 24.095 25.095 0.68536 0 0 0 0.10934 1 10701 10701 36.506 15.635 1 38393 1141 24394 24470 43054 43054 0.10025721222132233 YAKKRGWVL 9 Unmodified _YAKKRGWVL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 374.2262878417969 3 374.225709 1119.6553 NaN NaN NaN NaN NaN NaN NaN 24 1 24.736 24.236 25.236 0.73623 0 0 0 0.097886 1 10744 10744 31.268 10.397 1 38394 1141 24394 24470 43055 43055 0.10025721222132233 YAKKRGWVL 9 Unmodified _YAKKRGWVL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 374.56097412109375 3 374.225709 1119.6553 2.816 0.0010538 -0.45711 -0.00017106 2.3589 0.00088276 374.2256364992189 24.633 0.25484 24.904 24.795 25.05 0.27129 89 50 2 0 0 0 0.086747 3 11170 11127;11170;11216 32.786 19.774 1 7163900 38395 1141 24394 24470 43056;43057;43058 43057 0.10025721222132233 YAKKRGWVL 9 Unmodified _YAKKRGWVL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 374.2262878417969 3 374.225709 1119.6553 NaN NaN NaN NaN NaN NaN NaN 24.26 1 24.895 24.395 25.395 0.63441 0 0 0 0.13032 1 11094 11094 39.95 23.801 1 38396 1141 24394 24470 43059 43059 0.10025721222132233 YAKKRGWVL 9 Unmodified _YAKKRGWVL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 374.225709 1119.6553 2.8244 0.001057 -0.21647 -8.1009E-05 2.6079 0.00097594 374.5595603194275 24.802 0.022514 25.073 25.063 25.086 0.27129 -0.015494 0.00094454 NaN 19.362 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 1280600 38397 1141 24394 24470 0.10025721222132233 YAKRQEESN 9 Unmodified _YAKRQEESN_ 0 0 0 REV__ENST00000418705.2_1_22:20105736-20106546:+|nuORF REV__ENST00000418705.2_1_22:20105736-20106546:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.7279663085938 2 562.770177 1123.5258 NaN NaN NaN NaN NaN NaN NaN 84.204 1 84.232 83.732 84.732 0.028603 0 0 0 0.84134 1 41952 41952 7.9102 2.1497 1 + 38398 16151 24395 24471 43060 43060 -0.03102124918473237 YAKVWDVHK 9 Unmodified _YAKVWDVHK_ 0 0 0 REV__ENST00000476047.1_1_3:76483489-76483897:+|nuORF REV__ENST00000476047.1_1_3:76483489-76483897:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.54315185546875 3 382.541586 1144.60293 2.8571 0.0010929 0.32741 0.00012525 3.1845 0.0012182 382.5418612232049 13.48 0.19697 14.123 14.037 14.234 0.64272 20 12 2 0 0 0 1.1703 1 6094 6094 1.1933 0.12188 1 99802 + 38399 11851 24396 24472 43061 43061 0.03641138088505613 YALIWDEQKP 10 Unmodified _YALIWDEQKP_ 0 0 0 REV__nc|ENSG00000108018|Q8WY21-4|SORCS1 REV__nc|ENSG00000108018|Q8WY21-4|SORCS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 632.3275756835938 2 631.824421 1261.63429 3.773 0.0023838 -0.39528 -0.00024975 3.3777 0.0021341 631.8239468677242 60.827 0.27478 61.083 60.952 61.227 0.25578 24 12 3 0 0 0 0.27278 1 27845 27845 36.127 0 1 774410 + 38400 11134 24397 24473 43062 43062 0.013936663319100262 YALLLLSKYV 10 Unmodified _YALLLLSKYV_ 0 0 0 REV__ENSG00000113282|ENST00000411809|CLINT1 REV__ENSG00000113282|ENST00000411809|CLINT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.8622436523438 2 591.860275 1181.706 NaN NaN NaN NaN NaN NaN NaN 86.731 1 86.761 86.261 87.261 0.030289 0 0 0 0.99225 1 43720 43720 6.7232 0.51738 1 + 38401 11293 24398 24474 43063 43063 0.1224120575645884 YALPHAIL 8 Unmodified _YALPHAIL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000574671.5_1_17:79477718-79478688:-|nuORF;ENST00000462494.5_1_7:5567381-5568494:-|nuORF;ENST00000436287.1_1_1:224051789-224052101:-|nuORF;ENSG00000169067|ENST00000423391|ACTBL2 ENST00000493945.5_1_7:5567882-5569288:-|nuORF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 449.2650451660156 2 449.263271 896.511988 2.8524 0.0012815 -0.27202 -0.00012221 2.5804 0.0011593 449.26303723195565 60.989 0.26694 61.245 61.059 61.326 0.25578 18 10 2 0 0 0 0.34148 1 27941 27941 32.454 11.582 1 430400 38402 832 24399 24475 43064 43064 0.05959294111039526 YALPHAIL 8 Unmodified _YALPHAIL_ 0 0 0 ENST00000493945.5_1_7:5567882-5569288:-|nuORF;ENST00000576917.5_1_17:79478157-79479765:-|nuORF;ENSG00000184009|ENST00000573283|ACTG1;ENSG00000075624|ENST00000646664|ACTB;ENST00000576209.5_1_17:79477718-79479174:-|nuORF;ENST00000574671.5_1_17:79477718-79478688:-|nuORF;ENST00000462494.5_1_7:5567381-5568494:-|nuORF;ENST00000436287.1_1_1:224051789-224052101:-|nuORF;ENSG00000169067|ENST00000423391|ACTBL2 ENST00000493945.5_1_7:5567882-5569288:-|nuORF ENST00000493945.5_1_7:5567882-5569288:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 449.263271 896.511988 3.1157 0.0013997 -0.92202 -0.00041423 2.1936 0.00098552 449.26256726070693 60.335 0.26048 61 60.874 61.135 0.66503 -0.12267 -0.00034839 NaN 32.454 18 12 2 NaN NaN NaN NaN 0 NaN NaN 0 523330 38403 832 24399 24475 0.05959294111039526 YALRKNISV 9 Unmodified _YALRKNISV_ 0 0 0 ENSG00000116984|ENST00000366577|MTR;nc|ENSG00000116984|Q99707-2|MTR;ENST00000470570.1_1_1:237058450-237060941:+|nuORF ENSG00000116984|ENST00000366577|MTR ENSG00000116984|ENST00000366577|MTR MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 355.07073974609375 3 355.213469 1062.61858 2.5847 0.00091812 -0.16182 -5.7481E-05 2.4229 0.00086063 355.2133315868182 28.918 0.16691 29.178 29.088 29.255 0.2602 18 13 2 0 0 0 0.11267 1 13186 13186 2.7352 0 1 548000 38404 2055 24400 24476 43065 43065 0.0897742460556401 YALRKNISV 9 Unmodified _YALRKNISV_ 0 0 0 ENSG00000116984|ENST00000366577|MTR;nc|ENSG00000116984|Q99707-2|MTR;ENST00000470570.1_1_1:237058450-237060941:+|nuORF ENSG00000116984|ENST00000366577|MTR ENSG00000116984|ENST00000366577|MTR MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 355.0708923339844 3 355.213469 1062.61858 2.4497 0.00087015 0.34015 0.00012083 2.7898 0.00099098 355.5479904563599 28.64 0.24391 29.259 29.142 29.386 0.61947 20 11 2 0 0 0 0.11267 1 13093 13093 0.23584 0 1 283540 38405 2055 24400 24476 43066 43066 0.0897742460556401 YALSEDKLGR 10 Unmodified _YALSEDKLGR_ 0 0 0 REV__nc|ENSG00000134897|Q86UB2-2|BIVM REV__nc|ENSG00000134897|Q86UB2-2|BIVM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 576.3051147460938 2 576.306395 1150.59824 NaN NaN NaN NaN NaN NaN NaN 79.723 1 80.043 79.543 80.543 0.31998 0 0 0 0.98866 1 38952 38952 7.2892 0 1 + 38406 11987 24401 24477 43067 43067 0.02896209155096585 YAMMKKMQL 9 Unmodified _YAMMKKMQL_ 0 0 0 ENSG00000162434|ENST00000342505|JAK1;JAK1|p.L722Wfs*49|1|0.27|ENSG00000162434|chr1:64844841-64844841|G/-|frameshift_variant ENSG00000162434|ENST00000342505|JAK1 ENSG00000162434|ENST00000342505|JAK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 572.2914428710938 2 572.289791 1142.56503 3.3588 0.0019222 -0.87106 -0.0004985 2.4877 0.0014237 572.2895067507142 39.271 0.25334 39.538 39.389 39.643 0.26696 19 8 3 0 0 0 0.062556 1 17875 17875 42.095 21.68 1 465470 38407 4139 24402 24478 43068 43068 -0.0005515548446055618 YAMMKKMQL 9 Unmodified _YAMMKKMQL_ 0 0 0 ENSG00000162434|ENST00000342505|JAK1;JAK1|p.L722Wfs*49|1|0.27|ENSG00000162434|chr1:64844841-64844841|G/-|frameshift_variant ENSG00000162434|ENST00000342505|JAK1 ENSG00000162434|ENST00000342505|JAK1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 572.289791 1142.56503 3.6465 0.0020869 -0.58143 -0.00033274 3.0651 0.0017541 572.289868101458 38.85 0.57355 39.488 39.076 39.649 0.63778 -0.024936 0.00021308 NaN 42.095 31 20 3 NaN NaN NaN NaN 0 NaN NaN 0 492700 38408 4139 24402 24478 -0.0005515548446055618 YANLRRTGF 9 Unmodified _YANLRRTGF_ 0 0 0 REV__nc|ENSG00000163520|P98095|FBLN2 REV__nc|ENSG00000163520|P98095|FBLN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.1748046875 2 549.296165 1096.57778 NaN NaN NaN NaN NaN NaN NaN 41.937 1 41.937 41.437 42.437 0 0 0 0 0.90511 1 19084 19084 2.3027 0 1 + 38409 12995 24403 24479 43069 43069 0.03335083285946894 YANWWRKQRRY 11 Unmodified _YANWWRKQRRY_ 0 0 0 REV__nc|ENSG00000114374|O00507-2|USP9Y;REV__ENSG00000124486|ENST00000378308|USP9X REV__ENSG00000124486|ENST00000378308|USP9X MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 813.984619140625 2 813.923658 1625.83276 NaN NaN NaN NaN NaN NaN NaN 90.119 1 90.183 89.683 90.683 0.064346 0 0 0 1.008 1 46357 46357 0.35063 0.35063 1 + 38410 11320;11656 24404 24480 43070 43070 0.04487944754146156 YAQDEHLITF 10 Unmodified _YAQDEHLITF_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 618.7989501953125 2 618.798403 1235.58225 3.6505 0.0022589 1.4573 0.00090179 5.1078 0.0031607 618.7990046514368 59.62 0.21024 59.62 59.503 59.714 0 34 19 3 0 0 0 0.17772 2 27617 27523;27617 41.956 20.419 1 2581300 38411 3406 24405 24481 43071;43072 43072 -0.02611497081829839 YAQDEHLITF 10 Unmodified _YAQDEHLITF_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 618.799072265625 2 618.798403 1235.58225 3.0823 0.0019073 0.57541 0.00035606 3.6577 0.0022634 618.7987477682315 58.556 0.19053 59.315 59.159 59.349 0.75894 26 14 2 0 0 0 0.19222 1 26853 26853 40.239 0.28951 1 1534100 38412 3406 24405 24481 43073 43073 -0.02611497081829839 YAQDEHLITF 10 Unmodified _YAQDEHLITF_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.3016967773438 2 618.798403 1235.58225 3.6375 0.0022509 -0.26173 -0.00016196 3.3757 0.0020889 618.7982367037282 59.389 0.26267 59.648 59.542 59.804 0.2593 19 10 2 0 0 0 0.00057926 1 27206 27206 107.1 65.26 1 1017600 38413 3406 24405 24481 43074 43074 -0.02611497081829839 YAQDEHLITF 10 Unmodified _YAQDEHLITF_ 0 0 0 ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 ENSG00000144028|ENST00000323853|SNRNP200 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 618.800537109375 2 618.798403 1235.58225 3.6523 0.00226 -0.27742 -0.00017166 3.3749 0.0020884 618.7982694084221 58.743 0.32137 59.41 59.266 59.587 0.66703 21 12 2 0 0 0 1.0092E-05 2 26884 26884;26931 121.53 79.694 1 1053100 38414 3406 24405 24481 43075;43076 43075 -0.02611497081829839 YAQRRWQKRRR 11 Unmodified _YAQRRWQKRRR_ 0 0 0 nc|ENSG00000148219|O75129-2|ASTN2;nc|ENSG00000148219|O75129-3|ASTN2;ENSG00000148219|ENST00000313400|ASTN2;ASTN2|p.G1095Wfs*12|1|0.13|ENSG00000148219|chr9:116618396-116618397|-/A|frameshift_variant nc|ENSG00000148219|O75129-2|ASTN2 nc|ENSG00000148219|O75129-2|ASTN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 802.4599609375 2 802.461273 1602.90799 NaN NaN NaN NaN NaN NaN NaN 13.188 1 13.188 12.688 13.688 0 0 0 0 1.0082 1 5761 5761 0 0 1 38415 3594 24406 24482 43077 43077 0.13065547005226108 YARALRAYL 9 Unmodified _YARALRAYL_ 0 0 0 REV__ENSG00000181408|ENST00000313135|UTS2R REV__ENSG00000181408|ENST00000313135|UTS2R MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.2148742675781 3 366.213581 1095.61891 2.3789 0.00087119 -0.0014073 -5.1536E-07 2.3775 0.00087068 366.2135003312875 15.012 0.42364 15.238 15.078 15.501 0.22622 74 52 2 0 0 0 1.1703 1 6587 6587 1.1933 0 1 109420 + 38416 13854 24407 24483 43078 43078 0.07492844325406622 YARFKPVAV 9 Unmodified _YARFKPVAV_ 0 0 0 ENSG00000182628|ENST00000330137|SKA2;ENST00000583976.1_1_17:57189640-57232487:-|nuORF ENSG00000182628|ENST00000330137|SKA2 ENSG00000182628|ENST00000330137|SKA2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.2443542480469 3 350.874677 1049.6022 2.3633 0.00082921 -1.574 -0.00055228 0.78928 0.00027694 351.208242216361 32.643 0.31011 33.261 33.097 33.407 0.61831 22 13 2 0 0 0 0.11267 1 15016 15016 0.23584 0 1 240350 38417 5340 24408 24484 43079 43079 0.07938343439445816 YARLHPRAV 9 Unmodified _YARLHPRAV_ 0 0 0 ENSG00000221983|ENST00000442744|UBA52 ENSG00000221983|ENST00000442744|UBA52 ENSG00000221983|ENST00000442744|UBA52 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 361.5462951660156 3 361.545442 1081.6145 2.7667 0.0010003 -0.064675 -2.3383E-05 2.702 0.0009769 361.54539206376444 12.891 0.17742 12.891 12.788 12.965 0 13 7 2 0 0 0 0.030603 1 5636 5636 55.503 24.234 1 2790100 38418 6156 24409 24485 43080 43080 0.07695379902497734 YARLHPRAV 9 Unmodified _YARLHPRAV_ 0 0 0 ENSG00000221983|ENST00000442744|UBA52 ENSG00000221983|ENST00000442744|UBA52 ENSG00000221983|ENST00000442744|UBA52 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 361.5460205078125 3 361.545442 1081.6145 1.9189 0.00069376 0.087758 3.1729E-05 2.0066 0.00072549 361.54550080864254 12.599 0.08288 12.861 12.818 12.901 0.26154 15 9 2 0 0 0 0.016529 1 5469 5469 72.968 36.462 1 6278600 38419 6156 24409 24485 43081 43081 0.07695379902497734 YARLHPRAV 9 Unmodified _YARLHPRAV_ 0 0 0 ENSG00000221983|ENST00000442744|UBA52 ENSG00000221983|ENST00000442744|UBA52 ENSG00000221983|ENST00000442744|UBA52 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 361.5461120605469 3 361.545442 1081.6145 1.8802 0.00067979 0.22169 8.0153E-05 2.1019 0.00075994 361.5454899997322 12.592 0.14209 12.899 12.794 12.936 0.30727 8 4 2 0 0 0 0.19413 1 5691 5691 23.79 7.6407 1 6728500 38420 6156 24409 24485 43082 43082 0.07695379902497734 YARRKRARD 9 Unmodified _YARRKRARD_ 0 0 0 ENST00000222462.2_1_7:120969115-120969268:+|nuORF ENST00000222462.2_1_7:120969115-120969268:+|nuORF ENST00000222462.2_1_7:120969115-120969268:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 596.3456420898438 2 596.344512 1190.67447 NaN NaN NaN NaN NaN NaN NaN 46.085 1 46.085 45.585 46.585 0 0 0 0 0.90847 1 21087 21087 1.4819 0 1 38421 6424 24410 24486 43083 43083 0.08676070565729788 YASHDNKV 8 Unmodified _YASHDNKV_ 0 0 0 REV__ENSG00000055163|ENST00000620254|CYFIP2 REV__ENSG00000055163|ENST00000620254|CYFIP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 467.2264404296875 2 467.224874 932.435195 NaN NaN NaN NaN NaN NaN NaN 61.679 1 61.931 61.431 62.431 0.25245 0 0 0 0.95658 1 28246 28246 8.5933 0 1 + 38422 10369 24411 24487 43084 43084 -0.03372549176094708 YASLSRKATR 10 Unmodified _YASLSRKATR_ 0 0 0 REV__L1MEf_dup1694|chr2:208825398-208826842:+|2.073452806218134|0.1080183910784605|4.26|525.0|46|3|sense REV__L1MEf_dup1694|chr2:208825398-208826842:+|2.073452806218134|0.1080183910784605|4.26|525.0|46|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 576.8284301757812 2 576.827829 1151.64111 NaN NaN NaN NaN NaN NaN NaN 80.26 1 80.509 80.009 81.009 0.24947 0 0 0 0.98866 1 36955 36955 7.2892 0.56607 1 + 38423 17774 24412 24488 43085 43085 0.07135024003173385 YAVATGDAL 9 Unmodified _YAVATGDAL_ 0 0 0 ENST00000586720.5_1_17:76967660-76975958:-|nuORF;ENST00000587251.5_1_17:76967660-76972124:-|nuORF;ENSG00000108679|ENST00000262776|LGALS3BP ENST00000586720.5_1_17:76967660-76975958:-|nuORF ENST00000586720.5_1_17:76967660-76975958:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 880.4427490234375 1 880.441074 879.433798 3.9831 0.0035069 0.80414 0.00070799 4.7872 0.0042149 880.4416082522305 46.197 0.21021 46.462 46.387 46.598 0.26561 13 8 2 0 0 0 0.069137 1 21108 21108 40.449 8.3316 1 389070 38424 1645 24413 24489 43086 43086 -0.010741832648591298 YAVTGDVKM 9 Unmodified _YAVTGDVKM_ 0 0 0 nc|ENSG00000109320|P19838-3|NFKB1;nc|ENSG00000109320|P19838|NFKB1;ENSG00000109320|ENST00000226574|NFKB1 nc|ENSG00000109320|P19838-3|NFKB1 nc|ENSG00000109320|P19838-3|NFKB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.2489013671875 2 492.24696 982.479368 3.153 0.0015521 1.6214 0.00079815 4.7745 0.0023502 492.24739379098287 37.95 0.14898 37.95 37.838 37.987 0 9 5 2 0 0 0 0.099775 1 17218 17218 32.786 12.332 1 340620 38425 1673 24414 24490 43087 43087 -0.012572810741176 YAVTGDVKM 9 Unmodified _YAVTGDVKM_ 0 0 0 nc|ENSG00000109320|P19838-3|NFKB1;nc|ENSG00000109320|P19838|NFKB1;ENSG00000109320|ENST00000226574|NFKB1 nc|ENSG00000109320|P19838-3|NFKB1 nc|ENSG00000109320|P19838-3|NFKB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 492.7503967285156 2 492.24696 982.479368 3.1907 0.0015706 0.34554 0.00017009 3.5363 0.0017407 492.24690845004756 37.864 0.26115 38.125 37.951 38.212 0.26083 13 8 2 0 0 0 0.11155 1 17234 17234 29.841 9.387 1 333500 38426 1673 24414 24490 43088 43088 -0.012572810741176 YAVTGDVKM 9 Unmodified _YAVTGDVKM_ 0 0 0 nc|ENSG00000109320|P19838-3|NFKB1;nc|ENSG00000109320|P19838|NFKB1;ENSG00000109320|ENST00000226574|NFKB1 nc|ENSG00000109320|P19838-3|NFKB1 nc|ENSG00000109320|P19838-3|NFKB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.248779296875 2 492.24696 982.479368 3.1843 0.0015675 1.0895 0.00053631 4.2738 0.0021038 492.247432897138 37.263 0.28447 37.893 37.681 37.966 0.62999 18 12 2 0 0 0 0.1229 2 17023 17023;17038 28.495 4.4739 1 266260 38427 1673 24414 24490 43089;43090 43089 -0.012572810741176 YAYCRYWWRR 10 Unmodified _YAYCRYWWRR_ 0 0 0 REV__nc|ENSG00000104972|Q8NHL6-5|LILRB1 REV__nc|ENSG00000104972|Q8NHL6-5|LILRB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 762.0073852539062 2 761.86168 1521.70881 NaN NaN NaN NaN NaN NaN NaN 90.25 1 90.25 89.75 90.75 0 0 0 0 1.0015 1 47375 47375 0.45834 0.10771 1 + 38428 11011 24415 24491 43091 43091 -0.031178493376955885 YAYDGKDYL 9 Unmodified _YAYDGKDYL_ 0 0 0 ENSG00000204632|ENST00000360323|HLA-G;nc|ENSG00000204632|P17693-5|HLA-G;nc|ENSG00000204632|P17693-4|HLA-G ENSG00000204632|ENST00000360323|HLA-G ENSG00000204632|ENST00000360323|HLA-G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 554.2569580078125 2 554.253297 1106.49204 3.4709 0.0019238 0.79582 0.00044109 4.2668 0.0023649 554.2539056772312 42.781 0.25254 42.781 42.607 42.86 0 25 13 2 0 0 0 0.011692 1 19456 19456 79.596 0 1 1484100 38429 6027 24416 24492 43092 43092 -0.05694546410222756 YAYDGKDYL 9 Unmodified _YAYDGKDYL_ 0 0 0 ENSG00000204632|ENST00000360323|HLA-G;nc|ENSG00000204632|P17693-5|HLA-G;nc|ENSG00000204632|P17693-4|HLA-G ENSG00000204632|ENST00000360323|HLA-G ENSG00000204632|ENST00000360323|HLA-G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.2546997070312 2 554.253297 1106.49204 3.1959 0.0017713 0.2156 0.0001195 3.4115 0.0018908 554.2533295689987 41.677 0.2082 42.486 42.391 42.599 0.80855 45 19 3 0 0 0 0.0061394 2 18895 18895;18941 89.401 0 1 2056900 38430 6027 24416 24492 43093;43094 43093 -0.05694546410222756 YAYDGKDYL 9 Unmodified _YAYDGKDYL_ 0 0 0 ENSG00000204632|ENST00000360323|HLA-G;nc|ENSG00000204632|P17693-5|HLA-G;nc|ENSG00000204632|P17693-4|HLA-G ENSG00000204632|ENST00000360323|HLA-G ENSG00000204632|ENST00000360323|HLA-G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.2545776367188 2 554.253297 1106.49204 3.67 0.0020341 -1.3825 -0.00076624 2.2876 0.0012679 554.2520971496325 42.181 0.16072 42.828 42.777 42.937 0.64693 26 19 2 0 0 0 0.0027913 2 19302 19302;19351 96.367 0 1 2932400 38431 6027 24416 24492 43095;43096 43095 -0.05694546410222756 YAYDGKDYL 9 Unmodified _YAYDGKDYL_ 0 0 0 ENSG00000204632|ENST00000360323|HLA-G;nc|ENSG00000204632|P17693-5|HLA-G;nc|ENSG00000204632|P17693-4|HLA-G ENSG00000204632|ENST00000360323|HLA-G ENSG00000204632|ENST00000360323|HLA-G MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 554.253297 1106.49204 3.6712 0.0020348 -1.0787 -0.00059785 2.5925 0.0014369 554.7543030938795 42.122 0.027557 42.769 42.749 42.777 0.64693 0.090111 -0.0013859 NaN 89.401 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1343700 38432 6027 24416 24492 -0.05694546410222756 YAYDGKDYLAL 11 Unmodified _YAYDGKDYLAL_ 0 0 0 ENSG00000204632|ENST00000360323|HLA-G;nc|ENSG00000204632|P17693-5|HLA-G;nc|ENSG00000204632|P17693-4|HLA-G ENSG00000204632|ENST00000360323|HLA-G ENSG00000204632|ENST00000360323|HLA-G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 646.3182373046875 2 646.313886 1290.61322 3.5537 0.0022968 0.45862 0.00029641 4.0123 0.0025932 646.3142793503368 59.338 0.21451 59.338 59.271 59.486 0 36 18 3 0 0 0 0.00075764 2 27429 27429;27476 80.896 0 1 2965000 38433 6027 24417 24493 43097;43098 43097 -0.020463437675516616 YAYDGKDYLAL 11 Unmodified _YAYDGKDYLAL_ 0 0 0 ENSG00000204632|ENST00000360323|HLA-G;nc|ENSG00000204632|P17693-5|HLA-G;nc|ENSG00000204632|P17693-4|HLA-G ENSG00000204632|ENST00000360323|HLA-G ENSG00000204632|ENST00000360323|HLA-G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 646.3146362304688 2 646.313886 1290.61322 3.3346 0.0021552 -1.2114 -0.00078295 2.1232 0.0013723 646.3128776363407 58.224 0.20491 58.993 58.93 59.135 0.76861 26 19 2 0 0 0 0.005097 1 26721 26721 68.76 0 1 2118400 38434 6027 24417 24493 43099 43099 -0.020463437675516616 YAYDGKDYLAL 11 Unmodified _YAYDGKDYLAL_ 0 0 0 ENSG00000204632|ENST00000360323|HLA-G;nc|ENSG00000204632|P17693-5|HLA-G;nc|ENSG00000204632|P17693-4|HLA-G ENSG00000204632|ENST00000360323|HLA-G ENSG00000204632|ENST00000360323|HLA-G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 646.316650390625 2 646.313886 1290.61322 3.7795 0.0024427 -0.01753 -1.133E-05 3.762 0.0024314 646.313869061126 59.178 0.33593 59.437 59.233 59.569 0.2593 47 15 4 0 0 0 9.1496E-05 2 27101 27052;27101 89.609 0 1 1882100 38435 6027 24417 24493 43100;43101 43101 -0.020463437675516616 YAYDGKDYLAL 11 Unmodified _YAYDGKDYLAL_ 0 0 0 ENSG00000204632|ENST00000360323|HLA-G;nc|ENSG00000204632|P17693-5|HLA-G;nc|ENSG00000204632|P17693-4|HLA-G ENSG00000204632|ENST00000360323|HLA-G ENSG00000204632|ENST00000360323|HLA-G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 646.3165893554688 2 646.313886 1290.61322 3.9549 0.0025561 0.091419 5.9085E-05 4.0463 0.0026152 646.313699374443 58.575 0.28609 59.242 59.092 59.378 0.66703 30 10 4 0 0 0 0.0018346 1 26798 26798 77.049 0 1 2712000 38436 6027 24417 24493 43102 43102 -0.020463437675516616 YAYDGKDYLAL 11 Unmodified _YAYDGKDYLAL_ 0 0 0 ENSG00000204632|ENST00000360323|HLA-G;nc|ENSG00000204632|P17693-5|HLA-G;nc|ENSG00000204632|P17693-4|HLA-G ENSG00000204632|ENST00000360323|HLA-G ENSG00000204632|ENST00000360323|HLA-G MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 646.31640625 2 646.313886 1290.61322 NaN NaN NaN NaN NaN NaN NaN 58.716 1 59.383 58.883 59.883 0.66703 0 0 0 0.83565 1 26876 26876 20.415 0 1 38437 6027 24417 24493 43103 43103 -0.020463437675516616 YCHFYVHRIL 10 Unmodified _YCHFYVHRIL_ 0 0 0 REV__nc|ENSG00000172273|Q9BQA5-2|HINFP REV__nc|ENSG00000172273|Q9BQA5-2|HINFP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.89971923828125 3 450.897375 1349.6703 2.6748 0.0012061 2.0711 0.00093385 4.7459 0.0021399 451.2329993755655 51.579 0.23447 51.841 51.761 51.995 0.26228 27 12 3 0 0 0 0.89464 1 23607 23607 1.9064 0.69154 1 762060 + 38438 13544 24418 24494 43104 43104 0.009448450278114251 YCNSECNCDE 10 Unmodified _YCNSECNCDE_ 0 0 0 nc|ENSG00000205754|G3V0H7|SLCO1B7;nc|ENSG00000257046|F5H094|SLCO1B3-SLCO1B7;ENSG00000111700|ENST00000381545|SLCO1B3;nc|ENSG00000111700|Q9NPD5-2|SLCO1B3 nc|ENSG00000205754|G3V0H7|SLCO1B7 nc|ENSG00000205754|G3V0H7|SLCO1B7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 590.1722412109375 2 590.173006 1178.33146 NaN NaN NaN NaN NaN NaN NaN 54.223 1 54.487 53.987 54.987 0.26462 0 0 0 1.002 1 24794 24794 0 0 1 38439 1773 24419 24495 43105 43105 -0.25057328452612637 YCQEWYARRH 10 Unmodified _YCQEWYARRH_ 0 0 0 nc|ENSG00000167780|O75908-3|SOAT2;nc|ENSG00000167780|O75908-2|SOAT2;ENSG00000167780|ENST00000301466|SOAT2 nc|ENSG00000167780|O75908-3|SOAT2 nc|ENSG00000167780|O75908-3|SOAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 706.3248901367188 2 706.319845 1410.62514 4.6384 0.0032762 -0.022341 -1.578E-05 4.6161 0.0032604 706.3199008027686 104.68 0.38076 105 104.78 105.16 0.31863 202 80 3 0 0 0 0.94443 1 48240 48240 0 0 1 1637900 38440 4582 24420 24496 43106 43106 -0.06375005505401532 YCRRWRYWEYW 11 Unmodified _YCRRWRYWEYW_ 0 0 0 ENST00000299314.11_1_12:102159966-102161843:-|nuORF ENST00000299314.11_1_12:102159966-102161843:-|nuORF ENST00000299314.11_1_12:102159966-102161843:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.6064453125 3 589.605143 1765.7936 NaN NaN NaN NaN NaN NaN NaN 62.325 1 62.325 61.825 62.825 0 0 0 0 1.0082 1 29199 29199 0 0 1 38441 6786 24421 24497 43107 43107 -0.05866523591703299 YCRRWRYWEYW 11 Unmodified _YCRRWRYWEYW_ 0 0 0 ENST00000299314.11_1_12:102159966-102161843:-|nuORF ENST00000299314.11_1_12:102159966-102161843:-|nuORF ENST00000299314.11_1_12:102159966-102161843:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 883.9026489257812 2 883.904076 1765.7936 NaN NaN NaN NaN NaN NaN NaN 91.656 1 91.739 91.239 92.239 0.082848 0 0 0 1.0082 1 47557 47557 0 0 1 38442 6786 24421 24497 43108 43108 -0.05866523591703299 YCVMCCSRQL 10 Unmodified _YCVMCCSRQL_ 0 0 0 ENST00000608315.5_2_13:33853625-33855228:+|nuORF ENST00000608315.5_2_13:33853625-33855228:+|nuORF ENST00000608315.5_2_13:33853625-33855228:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 402.50274658203125 3 402.502652 1204.48613 NaN NaN NaN NaN NaN NaN NaN 55.58 1 56.367 55.867 56.867 0.78711 0 0 0 1.0013 1 25379 25379 0.62683 0.3198 1 38443 9340 24422 24498 43109 43109 -0.10793750781067502 YCVMCCSRQL 10 Unmodified _YCVMCCSRQL_ 0 0 0 ENST00000608315.5_2_13:33853625-33855228:+|nuORF ENST00000608315.5_2_13:33853625-33855228:+|nuORF ENST00000608315.5_2_13:33853625-33855228:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 402.5020446777344 3 402.502652 1204.48613 NaN NaN NaN NaN NaN NaN NaN 56.511 1 57.289 56.789 57.789 0.77786 0 0 0 1.0013 1 25838 25838 0.62683 0 1 38444 9340 24422 24498 43110 43110 -0.10793750781067502 YCYYFEVFR 9 Unmodified _YCYYFEVFR_ 0 0 0 REV__nc|ENSG00000118094|O43280-2|TREH REV__nc|ENSG00000118094|O43280-2|TREH MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 430.5282897949219 3 430.526837 1288.55868 NaN NaN NaN NaN NaN NaN NaN 40.662 1 40.931 40.431 41.431 0.26904 0 0 0 0.91206 1 18501 18501 0.26902 0.1097 1 + 38445 17910 24423 24499 43111 43111 -0.07405634119982096 YDASNNNSAR 10 Unmodified _YDASNNNSAR_ 0 0 0 CON__P15636 CON__P15636 CON__P15636 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.2417602539062 2 556.241783 1110.46901 NaN NaN NaN NaN NaN NaN NaN 15.369 1 16.023 15.523 16.523 0.65356 0 0 0 1.002 1 6921 6921 0 0 1 + 38446 218 24424 24500 43112 43112 -0.08180172474999381 YDAYAEAE 8 Unmodified _YDAYAEAE_ 0 0 0 nc|ENSG00000101181|Q9H4K7-2|MTG2;ENSG00000101181|ENST00000370823|MTG2 nc|ENSG00000101181|Q9H4K7-2|MTG2 nc|ENSG00000101181|Q9H4K7-2|MTG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 311.1281433105469 3 311.127507 930.360692 NaN NaN NaN NaN NaN NaN NaN 58.362 1 59.029 58.529 59.529 0.66703 0 0 0 0.99035 1 26716 26716 1.6526 0 1 38447 1267 24425 24501 43113 43113 -0.10727356778147623 YDDCNCDGY 9 Unmodified _YDDCNCDGY_ 0 0 0 nc|ENSG00000125851|P16519-2|PCSK2;ENSG00000125851|ENST00000262545|PCSK2;nc|ENSG00000125851|P16519-3|PCSK2 nc|ENSG00000125851|P16519-2|PCSK2 nc|ENSG00000125851|P16519-2|PCSK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 534.1590576171875 2 534.157682 1066.30081 3.1443 0.0016796 -0.37595 -0.00020082 2.7684 0.0014787 534.1574368647013 42.493 0.32957 42.763 42.535 42.864 0.27021 23 15 2 0 0 0 1.2169 1 19353 19353 0.45834 0.45834 1 881140 38448 2429 24426 24502 43114 43114 -0.22968738775330166 YDDCNCDGY 9 Unmodified _YDDCNCDGY_ 0 0 0 nc|ENSG00000125851|P16519-2|PCSK2;ENSG00000125851|ENST00000262545|PCSK2;nc|ENSG00000125851|P16519-3|PCSK2 nc|ENSG00000125851|P16519-2|PCSK2 nc|ENSG00000125851|P16519-2|PCSK2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 534.157682 1066.30081 3.0098 0.0016077 0.2232 0.00011922 3.233 0.0017269 534.158037151652 42.746 0.20572 42.746 42.622 42.828 0 -0.0084714 0.00051605 NaN 0.45834 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 523190 38449 2429 24426 24502 -0.22968738775330166 YDDCNCDGY 9 Unmodified _YDDCNCDGY_ 0 0 0 nc|ENSG00000125851|P16519-2|PCSK2;ENSG00000125851|ENST00000262545|PCSK2;nc|ENSG00000125851|P16519-3|PCSK2 nc|ENSG00000125851|P16519-2|PCSK2 nc|ENSG00000125851|P16519-2|PCSK2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 534.157682 1066.30081 3.1443 0.0016796 -0.37595 -0.00020082 2.7684 0.0014787 534.1574368647013 42.493 0.32957 42.763 42.535 42.864 0.27021 0.0084714 -0.00012403 NaN 0.45834 23 15 2 NaN NaN NaN NaN 0 NaN NaN 0 881140 38450 2429 24426 24502 -0.22968738775330166 YDDDDDDWDWD 11 Unmodified _YDDDDDDWDWD_ 0 0 0 ENSG00000124784|ENST00000379834|RIOK1 ENSG00000124784|ENST00000379834|RIOK1 ENSG00000124784|ENST00000379834|RIOK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 737.7299194335938 2 737.731308 1473.44806 NaN NaN NaN NaN NaN NaN NaN 44.371 1 44.64 44.14 45.14 0.2694 0 0 0 1.0082 1 20282 20282 0 0 1 38451 2380 24427 24503 43115 43115 -0.26972272155876453 YDDDDDEL 8 Unmodified _YDDDDDEL_ 0 0 0 REV__nc|ENSG00000115524|O75533-2|SF3B1 REV__nc|ENSG00000115524|O75533-2|SF3B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.1756591796875 2 500.174909 998.335265 3.1257 0.0015634 -0.87061 -0.00043546 2.2551 0.0011279 500.17439049131127 32.994 0.40469 33.612 33.376 33.781 0.61831 77 19 7 0 0 0 0.73686 1 15076 15076 2.8892 0 1 2187000 + 38452 11369 24428 24504 43116 43116 -0.16396876091221202 YDDEDDCSKM 10 Unmodified _YDDEDDCSKM_ 0 0 0 REV__nc|ENSG00000151575|Q8N6V9-2|TEX9 REV__nc|ENSG00000151575|Q8N6V9-2|TEX9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 610.7098999023438 2 610.707736 1219.40092 NaN NaN NaN NaN NaN NaN NaN 30.41 1 30.41 29.91 30.91 0 0 0 0 1.0015 1 13737 13737 0.40072 0.40072 1 + 38453 12619 24429 24505 43117 43117 -0.20000546232199667 YDDKIYYF 8 Unmodified _YDDKIYYF_ 0 0 0 nc|ENSG00000138623|O75326-2|SEMA7A;ENSG00000138623|ENST00000261918|SEMA7A nc|ENSG00000138623|O75326-2|SEMA7A nc|ENSG00000138623|O75326-2|SEMA7A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 563.760009765625 2 563.758215 1125.50188 3.6855 0.0020777 -0.65306 -0.00036817 3.0325 0.0017096 563.7577025149845 82.226 0.2618 82.886 82.752 83.014 0.66013 26 13 3 0 0 0 0.64692 1 37893 37893 10.183 0.83596 1 472800 38454 3104 24430 24506 43118 43118 -0.05585358404869112 YDDLPEEKI 9 Unmodified _YDDLPEEKI_ 0 0 0 REV__nc|ENSG00000174197|Q8IWI9-3|MGA REV__nc|ENSG00000174197|Q8IWI9-3|MGA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.2714233398438 2 561.271687 1120.52882 NaN NaN NaN NaN NaN NaN NaN 21.345 1 21.631 21.131 22.131 0.28662 0 0 0 0.33854 1 9665 9665 25.399 0 1 + 38455 13624 24431 24507 43119 43119 -0.02662294584342817 YDECDVTYAAN 11 Unmodified _YDECDVTYAAN_ 0 0 0 REV__ENST00000548994.1_1_12:102509600-102512308:-|nuORF REV__ENST00000548994.1_1_12:102509600-102512308:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.83477783203125 3 421.832654 1262.47613 NaN NaN NaN NaN NaN NaN NaN 5.2983 1 5.6511 5.1511 6.1511 0.35278 0 0 0 1.008 1 2406 2406 0.08335 0 1 + 38456 10523 24432 24508 43120 43120 -0.1446062070942844 YDEDEEQRPK 10 Unmodified _YDEDEEQRPK_ 0 0 0 REV__nc|ENSG00000243943|Q96ME7-2|ZNF512 REV__nc|ENSG00000243943|Q96ME7-2|ZNF512 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 436.5874328613281 3 436.861601 1307.56297 NaN NaN NaN NaN NaN NaN NaN 73.305 1 73.305 72.805 73.805 0 0 0 0 1.0001 1 35713 35713 0.69767 0.24315 1 + 38457 14633 24433 24509 43121 43121 -0.07850498163384145 YDEDVECF 8 Unmodified _YDEDVECF_ 0 0 0 REV__ENST00000468255.5_1_6:31633906-31636470:+|nuORF REV__ENST00000468255.5_1_6:31633906-31636470:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.1880187988281 2 510.186765 1018.35898 2.7276 0.0013916 -0.30067 -0.0001534 2.427 0.0012382 510.18673018901467 52.182 0.2501 52.993 52.855 53.105 0.81066 26 16 2 0 0 0 0.65723 1 23780 23780 9.3474 1.4373 1 356840 + 38458 14418 24434 24510 43122 43122 -0.1494673385839178 YDEDVECF 8 Unmodified _YDEDVECF_ 0 0 0 REV__ENST00000468255.5_1_6:31633906-31636470:+|nuORF REV__ENST00000468255.5_1_6:31633906-31636470:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.1890869140625 2 510.186765 1018.35898 3.3879 0.0017285 -0.44174 -0.00022537 2.9462 0.0015031 510.1869617547561 52.72 0.29723 52.984 52.8 53.097 0.26345 17 11 3 0 0 0 0.65723 1 24114 24114 9.3474 0 1 452780 + 38459 14418 24434 24510 43123 43123 -0.1494673385839178 YDEDVECF 8 Unmodified _YDEDVECF_ 0 0 0 REV__ENST00000468255.5_1_6:31633906-31636470:+|nuORF REV__ENST00000468255.5_1_6:31633906-31636470:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 510.186765 1018.35898 3.2709 0.0016688 -0.11211 -5.7195E-05 3.1588 0.0016116 510.18667829013003 53.114 0.2172 53.114 52.966 53.183 0 0.099411 2.3337E-05 NaN 9.3474 15 11 2 NaN NaN NaN NaN 0 NaN NaN 0 459910 + 38460 14418 24434 24510 -0.1494673385839178 YDEDVECF 8 Unmodified _YDEDVECF_ 0 0 0 REV__ENST00000468255.5_1_6:31633906-31636470:+|nuORF REV__ENST00000468255.5_1_6:31633906-31636470:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 510.186765 1018.35898 2.7276 0.0013916 -0.30067 -0.0001534 2.427 0.0012382 510.18673018901467 52.182 0.2501 52.993 52.855 53.105 0.81066 -0.021441 -0.00016906 NaN 9.3474 26 16 2 NaN NaN NaN NaN 0 NaN NaN 0 356840 + 38461 14418 24434 24510 -0.1494673385839178 YDEDVECF 8 Unmodified _YDEDVECF_ 0 0 0 REV__ENST00000468255.5_1_6:31633906-31636470:+|nuORF REV__ENST00000468255.5_1_6:31633906-31636470:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 510.186765 1018.35898 3.3879 0.0017285 -0.44174 -0.00022537 2.9462 0.0015031 510.1869617547561 52.72 0.29723 52.984 52.8 53.097 0.26345 -0.030698 -0.00031301 NaN 9.3474 17 11 3 NaN NaN NaN NaN 0 NaN NaN 0 452780 + 38462 14418 24434 24510 -0.1494673385839178 YDEDVECF 8 Unmodified _YDEDVECF_ 0 0 0 REV__ENST00000468255.5_1_6:31633906-31636470:+|nuORF REV__ENST00000468255.5_1_6:31633906-31636470:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 510.186765 1018.35898 3.1564 0.0016104 0.45805 0.00023369 3.6145 0.0018441 510.187054548316 52.305 0.22358 52.967 52.849 53.073 0.66198 -0.047273 0.00060511 NaN 9.3474 18 9 2 NaN NaN NaN NaN 0 NaN NaN 0 317250 + 38463 14418 24434 24510 -0.1494673385839178 YDEEADEE 8 Unmodified _YDEEADEE_ 0 0 0 REV__nc|ENSG00000180900|Q14160-2|SCRIB REV__nc|ENSG00000180900|Q14160-2|SCRIB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 500.176025390625 2 500.174909 998.335265 2.855 0.001428 -0.48847 -0.00024432 2.3666 0.0011837 500.1745400754688 33.635 0.28162 33.635 33.525 33.807 0 83 23 5 0 0 0 0.70799 1 15270 15270 5.2307 0 1 6048200 + 38464 13835 24435 24511 43124 43124 -0.16396876091221202 YDEEADEE 8 Unmodified _YDEEADEE_ 0 0 0 REV__nc|ENSG00000180900|Q14160-2|SCRIB REV__nc|ENSG00000180900|Q14160-2|SCRIB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.17645263671875 2 500.174909 998.335265 2.7781 0.0013895 -0.0765 -3.8263E-05 2.7016 0.0013513 500.17475151683334 32.814 0.34508 33.602 33.414 33.759 0.78795 77 24 5 0 0 0 0.70799 1 14801 14801 5.2307 0 1 2493300 + 38465 13835 24435 24511 43125 43125 -0.16396876091221202 YDEEADEE 8 Unmodified _YDEEADEE_ 0 0 0 REV__nc|ENSG00000180900|Q14160-2|SCRIB REV__nc|ENSG00000180900|Q14160-2|SCRIB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.176025390625 2 500.174909 998.335265 3.1257 0.0015634 -0.87061 -0.00043546 2.2551 0.0011279 500.17439049131127 32.994 0.40469 33.612 33.376 33.781 0.61831 77 19 7 0 0 0 0.70799 1 15131 15131 5.2307 0 1 2187000 + 38466 13835 24435 24511 43126 43126 -0.16396876091221202 YDEWFCWD 8 Unmodified _YDEWFCWD_ 0 0 0 ENSG00000025293|ENST00000374012|PHF20;ENST00000481202.5_1_20:34389438-34450945:+|nuORF;nc|ENSG00000025293|Q9BVI0-2|PHF20 ENSG00000025293|ENST00000374012|PHF20 ENSG00000025293|ENST00000374012|PHF20 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 582.2117309570312 2 582.210575 1162.4066 NaN NaN NaN NaN NaN NaN NaN 73.977 1 73.977 73.477 74.477 0 0 0 0 0.99035 1 36102 36102 2.5775 0.51773 1 38467 477 24436 24512 43127 43127 -0.16811034867555463 YDGEPDSMC 9 Unmodified _YDGEPDSMC_ 0 0 0 REV__nc|ENSG00000198369|Q7Z698-2|SPRED2 REV__nc|ENSG00000198369|Q7Z698-2|SPRED2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.4490966796875 3 339.449376 1015.3263 NaN NaN NaN NaN NaN NaN NaN 69.412 1 70.072 69.572 70.572 0.66071 0 0 0 0.91014 1 31820 31820 1.0715 0.67075 1 + 38468 14336 24437 24513 43128 43128 -0.1807526425290007 YDMCEDTEADM 11 Unmodified _YDMCEDTEADM_ 0 0 0 REV__ENSG00000130940|ENST00000377022|CASZ1 REV__ENSG00000130940|ENST00000377022|CASZ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 661.7145385742188 2 661.714704 1321.41485 NaN NaN NaN NaN NaN NaN NaN 78.898 1 79.56 79.06 80.06 0.66198 0 0 0 1.0082 1 36357 36357 0 0 1 + 38469 11837 24438 24514 43129 43129 -0.23299636795422884 YDMDEEDYIWL 11 Unmodified _YDMDEEDYIWL_ 0 0 0 nc|ENSG00000156983|P55201-3|BRPF1;nc|ENSG00000156983|P55201|BRPF1;ENSG00000156983|ENST00000383829|BRPF1;nc|ENSG00000156983|P55201-4|BRPF1 nc|ENSG00000156983|P55201-3|BRPF1 nc|ENSG00000156983|P55201-3|BRPF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 497.8708801269531 3 497.870997 1490.59116 NaN NaN NaN NaN NaN NaN NaN 44.055 1 44.055 43.555 44.555 0 0 0 0 1.0082 1 20105 20105 0.094841 0 1 38470 3934 24439 24515 43130 43130 -0.13450936298295346 YDMPEEIE 8 Unmodified _YDMPEEIE_ 0 0 0 ENST00000505081.5_1_5:176938794-176940626:-|nuORF;ENST00000507900.5_1_5:176938794-176942272:-|nuORF;ENST00000503078.5_1_5:176938794-176943460:-|nuORF;ENSG00000183258|ENST00000330503|DDX41 ENST00000505081.5_1_5:176938794-176940626:-|nuORF ENST00000505081.5_1_5:176938794-176940626:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1025.4193115234375 1 1025.4132 1024.40593 3.2025 0.0032839 0.11458 0.0001175 3.3171 0.0034013 1026.4148601208024 15.823 0.053545 16.129 16.084 16.138 0.306 5 4 2 0 0 0 0.14355 1 7145 7145 0 0 1 58054 38471 5373 24440 24516 43131 43131 -0.10529874307235332 YDPIITQKL 9 Unmodified _YDPIITQKL_ 0 0 0 REV__nc|ENSG00000211896|P01857|IGHG1 REV__nc|ENSG00000211896|P01857|IGHG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 364.2108154296875 3 364.209613 1089.60701 2.6119 0.00095128 0.62833 0.00022884 3.2402 0.0011801 364.2099451362709 36.241 0.48941 36.499 36.205 36.695 0.25768 44 22 3 0 0 0 0.27615 2 16529 16474;16529 18.373 14.405 1 1494300 + 38472 18129 24441 24517 43132;43133 43133 0.0657918279155183 YDPIITQKL 9 Unmodified _YDPIITQKL_ 0 0 0 REV__nc|ENSG00000211896|P01857|IGHG1 REV__nc|ENSG00000211896|P01857|IGHG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.210693359375 3 364.209613 1089.60701 2.6552 0.00096704 0.76358 0.0002781 3.4188 0.0012451 364.2098648981578 35.683 0.49514 36.309 35.996 36.491 0.62631 33 17 3 0 0 0 0.27615 1 16356 16356 18.373 0.93045 1 1934100 + 38473 18129 24441 24517 43134 43134 0.0657918279155183 YDQCETHF 8 Unmodified _YDQCETHF_ 0 0 0 nc|ENSG00000111859|Q14511-3|NEDD9;ENSG00000111859|ENST00000379446|NEDD9 nc|ENSG00000111859|Q14511-3|NEDD9 nc|ENSG00000111859|Q14511-3|NEDD9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 521.7359619140625 2 521.700374 1041.3862 NaN NaN NaN NaN NaN NaN NaN 56.042 1 56.042 55.542 56.542 0 0 0 0 0.99035 1 25788 25788 2.5775 0 1 38474 1780 24442 24518 43135 43135 -0.13284205527361337 YDQNICYIF 9 Unmodified _YDQNICYIF_ 0 0 0 nc|ENSG00000175066|Q6ZS86-2|GK5 nc|ENSG00000175066|Q6ZS86-2|GK5 nc|ENSG00000175066|Q6ZS86-2|GK5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.767578125 2 589.762975 1177.5114 3.3765 0.0019913 2.8994 0.00171 6.2759 0.0037013 589.7650039345966 79.438 0.25984 79.69 79.557 79.817 0.25127 25 13 3 0 0 0 0.27976 1 36602 36602 18.135 1.1927 1 665030 38475 9759 24443 24519 43136 43136 -0.07025913390975802 YDREWYYYLRA 11 Unmodified _YDREWYYYLRA_ 0 0 0 REV__nc|ENSG00000179750|Q9UH17-2|APOBEC3B REV__nc|ENSG00000179750|Q9UH17-2|APOBEC3B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 799.3765258789062 2 799.37534 1596.73613 NaN NaN NaN NaN NaN NaN NaN 94.006 1 94.006 93.506 94.506 0 0 0 0 1.008 1 50305 50305 0.30703 0.30703 1 + 38476 11761 24444 24520 43137 43137 -0.03837087316264842 YDRRRRDKFRR 11 Unmodified _YDRRRRDKFRR_ 0 0 0 SRRT|p.D363Vfs*14|1|0.06|ENSG00000087087|chr7:100884968-100884969|-/TTTTGTCATCATTAGA|frameshift_variant;SRRT|p.V517Dfs*13|1|0.17|ENSG00000087087|chr7:100886338-100886348|TGCGCAACGAC/-|frameshift_variant;nc|ENSG00000087087|Q9BXP5-5|SRRT;nc|ENSG00000087087|Q9BXP5-4|SRRT;nc|ENSG00000087087|Q9BXP5-2|SRRT;nc|ENSG00000087087|Q9BXP5-3|SRRT;ENSG00000087087|ENST00000611405|SRRT SRRT|p.D363Vfs*14|1|0.06|ENSG00000087087|chr7:100884968-100884969|-/TTTTGTCATCATTAGA|frameshift_variant SRRT|p.D363Vfs*14|1|0.06|ENSG00000087087|chr7:100884968-100884969|-/TTTTGTCATCATTAGA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 812.4601440429688 2 812.456188 1622.89782 NaN NaN NaN NaN NaN NaN NaN 59.151 1 59.91 59.41 60.41 0.75894 0 0 0 1.008 1 27186 27186 0.26902 0 1 38477 995 24445 24521 43138 43138 0.1112893928000176 YDSCSSYL 8 Unmodified _YDSCSSYL_ 0 0 0 REV__DCAF11|p.W238C|1|0.27|ENSG00000100897|chr14:24118524-24118524|G/C|missense_variant REV__DCAF11|p.W238C|1|0.27|ENSG00000100897|chr14:24118524-24118524|G/C|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 469.1838684082031 2 469.184026 936.353498 NaN NaN NaN NaN NaN NaN NaN 37.535 1 37.795 37.295 38.295 0.26083 0 0 0 0.99035 1 17095 17095 2.5775 0 1 + 38478 10121 24446 24522 43139 43139 -0.1172241265020375 YDSSDDSD 8 Unmodified _YDSSDDSD_ 0 0 0 ENSG00000140471|ENST00000314742|LINS1;ENST00000559169.1_1_15:101109445-101112292:-|nuORF;ENST00000490957.5_1_7:11013950-11101713:+|nuORF;nc|ENSG00000106443|O94880-1|PHF14;ENSG00000106443|ENST00000634607|PHF14 ENSG00000140471|ENST00000314742|LINS1;ENST00000490957.5_1_7:11013950-11101713:+|nuORF ENSG00000140471|ENST00000314742|LINS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 903.2897338867188 1 903.285027 902.277751 3.0701 0.0027731 0.35398 0.00031975 3.424 0.0030929 903.2864534984406 6.7175 0.13847 7.0573 7.0164 7.1548 0.33974 25 21 2 0 0 0 0.7471 1 3029 3029 0 0 1 21840 38479 3202;1571 24447 24523 43140 43140 -0.17729718296789088 YDSSDDSD 8 Unmodified _YDSSDDSD_ 0 0 0 ENSG00000140471|ENST00000314742|LINS1;ENST00000559169.1_1_15:101109445-101112292:-|nuORF;ENST00000490957.5_1_7:11013950-11101713:+|nuORF;nc|ENSG00000106443|O94880-1|PHF14;ENSG00000106443|ENST00000634607|PHF14 ENSG00000140471|ENST00000314742|LINS1;ENST00000490957.5_1_7:11013950-11101713:+|nuORF ENSG00000140471|ENST00000314742|LINS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 903.285027 902.277751 3.9341 0.0035536 1.2676 0.001145 5.2016 0.0046985 903.2863405717595 6.9643 0.037362 6.9643 6.9453 6.9827 0 0.0070958 0.00039172 NaN 0 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 17900 38480 3202;1571 24447 24523 -0.17729718296789088 YDSSDDSD 8 Unmodified _YDSSDDSD_ 0 0 0 ENSG00000140471|ENST00000314742|LINS1;ENST00000559169.1_1_15:101109445-101112292:-|nuORF;ENST00000490957.5_1_7:11013950-11101713:+|nuORF;nc|ENSG00000106443|O94880-1|PHF14;ENSG00000106443|ENST00000634607|PHF14 ENSG00000140471|ENST00000314742|LINS1;ENST00000490957.5_1_7:11013950-11101713:+|nuORF ENSG00000140471|ENST00000314742|LINS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 903.285027 902.277751 4.2973 0.0038817 0.6468 0.00058425 4.9441 0.0044659 903.2862510814225 6.2265 0.10714 6.8501 6.8164 6.9236 0.62357 -0.10714 -0.00016899 NaN 0 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 15327 38481 3202;1571 24447 24523 -0.17729718296789088 YDVTPPGVVM 10 Unmodified _YDVTPPGVVM_ 0 0 0 nc|ENSG00000196365|P36776-2|LONP1;ENSG00000196365|ENST00000360614|LONP1;ENST00000590558.5_1_19:5692045-5712033:-|nuORF;nc|ENSG00000196365|P36776-3|LONP1;ENST00000587552.5_1_19:5692045-5696439:-|nuORF nc|ENSG00000196365|P36776-2|LONP1 nc|ENSG00000196365|P36776-2|LONP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.2706909179688 2 539.267893 1076.52123 2.6111 0.0014081 -0.53033 -0.00028599 2.0808 0.0011221 539.2680148152928 74.396 0.45505 75.082 74.904 75.359 0.68662 93 34 4 0 0 0 0.74998 1 36076 36076 10.824 0 1 4486100 38482 5738 24448 24524 43141 43141 -0.013967253855980744 YDWCRRFFSY 10 Unmodified _YDWCRRFFSY_ 0 0 0 REV__ENST00000308982.11_1_3:128631468-128631576:+|nuORF REV__ENST00000308982.11_1_3:128631468-128631576:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 721.8203125 2 721.819147 1441.62374 NaN NaN NaN NaN NaN NaN NaN 71.153 1 71.857 71.357 72.357 0.70386 0 0 0 1.0001 1 34159 34159 1.6526 0 1 + 38483 15249 24449 24525 43142 43142 -0.07940639594130516 YDWSDRNL 8 Unmodified _YDWSDRNL_ 0 0 0 ENSG00000118898|ENST00000345988|PPL ENSG00000118898|ENST00000345988|PPL ENSG00000118898|ENST00000345988|PPL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 534.7427978515625 2 534.740888 1067.46722 3.2241 0.0017241 0.27118 0.00014501 3.4953 0.0018691 534.7410302867888 49.84 0.20605 50.498 50.436 50.642 0.65735 10 8 2 0 0 0 0.62895 1 22818 22818 11.64 0 1 261210 38484 2126 24450 24526 43143 43143 -0.06381181492952237 YDYHFWEEFYS 11 Unmodified _YDYHFWEEFYS_ 0 0 0 ENSG00000135220|ENST00000251566|UGT2A3 ENSG00000135220|ENST00000251566|UGT2A3 ENSG00000135220|ENST00000251566|UGT2A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 793.31689453125 2 793.317157 1584.61976 NaN NaN NaN NaN NaN NaN NaN 90.586 1 90.661 90.161 91.161 0.075279 0 0 0 1.0082 1 46726 46726 0 0 1 38485 2855 24451 24527 43144 43144 -0.14916450606870058 YDYRYRRR 8 Unmodified _YDYRYRRR_ 0 0 0 nc|ENSG00000164548|Q13595-3|TRA2A;ENSG00000164548|ENST00000297071|TRA2A nc|ENSG00000164548|Q13595-3|TRA2A nc|ENSG00000164548|Q13595-3|TRA2A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 416.22857666015625 3 416.551256 1246.63194 3.079 0.0012825 0.031505 1.3123E-05 3.1105 0.0012957 416.88561522956644 49.165 0.11683 49.82 49.734 49.851 0.65524 5 3 2 0 0 0 0.14346 1 22455 22455 0.45834 0 1 215980 38486 4322 24452 24528 43145 43145 0.01848675437508973 YDYYFDDV 8 Unmodified _YDYYFDDV_ 0 0 0 REV__ENSG00000136378|ENST00000388820|ADAMTS7 REV__ENSG00000136378|ENST00000388820|ADAMTS7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.2162475585938 2 550.21638 1098.41821 NaN NaN NaN NaN NaN NaN NaN 69.925 1 70.181 69.681 70.681 0.25642 0 0 0 0.99035 1 32021 32021 2.5775 0 1 + 38487 12067 24453 24529 43146 43146 -0.12706514572573724 YECYDCGQM 9 Unmodified _YECYDCGQM_ 0 0 0 ZNF594|p.V588Gfs*2|1|0.19|ENSG00000180626|chr17:5182494-5182495|-/CC|frameshift_variant;ENSG00000180626|ENST00000575779|ZNF594 ZNF594|p.V588Gfs*2|1|0.19|ENSG00000180626|chr17:5182494-5182495|-/CC|frameshift_variant ZNF594|p.V588Gfs*2|1|0.19|ENSG00000180626|chr17:5182494-5182495|-/CC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 556.184326171875 2 556.180103 1110.34565 NaN NaN NaN NaN NaN NaN NaN 70.012 1 70.268 69.768 70.768 0.25642 0 0 0 0.89509 1 32061 32061 4.756 2.6963 1 38488 5257 24454 24530 43147 43147 -0.2051063123365111 YEDDDDDD 8 Unmodified _YEDDDDDD_ 0 0 0 REV__nc|ENSG00000281106|A0A1B0GTI8-2|TMEM272 REV__nc|ENSG00000281106|A0A1B0GTI8-2|TMEM272 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1001.36181640625 1 1001.28542 1000.27814 3.0738 0.0030778 0.82678 0.00082784 3.9006 0.0039056 1001.2871741412287 92.226 0.13153 92.226 92.128 92.26 0 34 20 2 0 0 0 0.14333 1 48951 48951 0.79363 0 1 38078000 + 38489 14758 24455 24531 43148 43148 -0.22198343367608686 YEDDDDDD 8 Unmodified _YEDDDDDD_ 0 0 0 REV__nc|ENSG00000281106|A0A1B0GTI8-2|TMEM272 REV__nc|ENSG00000281106|A0A1B0GTI8-2|TMEM272 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1001.1488647460938 1 1001.28542 1000.27814 3.0859 0.0030899 2.1908 0.0021936 5.2767 0.0052835 1001.2901408696302 93.495 0.11394 93.495 93.394 93.508 0 13 12 2 0 0 0 0.14267 1 49859 49859 2.5775 0 1 10345000 + 38490 14758 24455 24531 43149 43149 -0.22198343367608686 YEDDDDDD 8 Unmodified _YEDDDDDD_ 0 0 0 REV__nc|ENSG00000281106|A0A1B0GTI8-2|TMEM272 REV__nc|ENSG00000281106|A0A1B0GTI8-2|TMEM272 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.146728515625 2 501.146349 1000.27814 NaN NaN NaN NaN NaN NaN NaN 88.872 1 88.924 88.424 89.424 0.052155 0 0 0 0.99035 1 45406 45406 0 0 1 + 38491 14758 24455 24531 43150 43150 -0.22198343367608686 YEDDDDDD 8 Unmodified _YEDDDDDD_ 0 0 0 REV__nc|ENSG00000281106|A0A1B0GTI8-2|TMEM272 REV__nc|ENSG00000281106|A0A1B0GTI8-2|TMEM272 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1 1001.28542 1000.27814 2.5039 0.0025071 1.6509 0.0016531 4.1548 0.0041602 1001.2887226563802 93.148 0.18552 93.234 93.069 93.255 0.086212 -0.13027 -0.00015747 NaN 2.5775 28 24 2 NaN NaN NaN NaN 0 NaN NaN 0 29469000 + 38492 14758 24455 24531 -0.22198343367608686 YEDEEEEDW 9 Unmodified _YEDEEEEDW_ 0 0 0 REV__ENST00000566016.5_1_16:46637844-46655271:-|nuORF REV__ENST00000566016.5_1_16:46637844-46655271:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 622.2197265625 2 622.217305 1242.42006 NaN NaN NaN NaN NaN NaN NaN 59.199 1 59.459 58.959 59.959 0.2593 0 0 0 0.91206 1 27109 27109 0.6015 0 1 + 38493 13484 24456 24532 43151 43151 -0.19145550345274387 YEDFEYIRRQK 11 Unmodified _YEDFEYIRRQK_ 0 0 0 ENSG00000106624|ENST00000223357|AEBP1 ENSG00000106624|ENST00000223357|AEBP1 ENSG00000106624|ENST00000223357|AEBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 773.885986328125 2 773.886072 1545.75759 NaN NaN NaN NaN NaN NaN NaN 12.862 1 13.124 12.624 13.624 0.26154 0 0 0 1.0082 1 5598 5598 0 0 1 38494 1579 24457 24533 43152 43152 0.006542977123899618 YEDHRMFKYL 10 Unmodified _YEDHRMFKYL_ 0 0 0 ENST00000397149.3_1_9:33053247-33053286:-|nuORF ENST00000397149.3_1_9:33053247-33053286:-|nuORF ENST00000397149.3_1_9:33053247-33053286:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 701.3344116210938 2 701.33463 1400.65471 NaN NaN NaN NaN NaN NaN NaN 21.764 1 21.764 21.264 22.264 0 0 0 0 1.0015 1 9750 9750 0.40072 0 1 38495 7577 24458 24534 43153 43153 -0.02959486279860357 YEDIAQKS 8 Unmodified _YEDIAQKS_ 0 0 0 ENSG00000167768|ENST00000252244|KRT1 ENSG00000167768|ENST00000252244|KRT1 ENSG00000167768|ENST00000252244|KRT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 477.2340393066406 2 477.232364 952.450176 2.9997 0.0014316 -0.43721 -0.00020865 2.5625 0.0012229 477.2324088833552 14.315 0.18814 14.315 14.25 14.439 0 21 10 3 0 0 0 0.51123 1 6318 6318 20.415 3.3016 1 740350 + 38496 4579 24459 24535 43154 43154 -0.027951020987529773 YEDIAQKS 8 Unmodified _YEDIAQKS_ 0 0 0 ENSG00000167768|ENST00000252244|KRT1 ENSG00000167768|ENST00000252244|KRT1 ENSG00000167768|ENST00000252244|KRT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 477.232364 952.450176 2.8805 0.0013747 -0.31991 -0.00015267 2.5606 0.001222 477.23211493531585 13.889 0.15115 14.132 14.087 14.238 0.24346 -0.091207 3.5144E-05 NaN 20.415 23 15 2 NaN NaN NaN NaN 0 NaN NaN 0 737430 + 38497 4579 24459 24535 -0.027951020987529773 YEDLDDDSSSD 11 Unmodified _YEDLDDDSSSD_ 0 0 0 REV__nc|ENSG00000144445|A0AUZ9-2|KANSL1L REV__nc|ENSG00000144445|A0AUZ9-2|KANSL1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 420.818115234375 3 420.817727 1259.43135 2.5127 0.0010574 0.47144 0.00019839 2.9841 0.0012558 420.8177329378465 34.502 0.32377 34.502 34.331 34.655 0 52 17 4 0 0 0 0.91068 1 15612 15612 0.45452 0.45452 1 1353200 + 38498 12403 24460 24536 43155 43155 -0.1879877304177171 YEDLDDDSSSD 11 Unmodified _YEDLDDDSSSD_ 0 0 0 REV__nc|ENSG00000144445|A0AUZ9-2|KANSL1L REV__nc|ENSG00000144445|A0AUZ9-2|KANSL1L MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 420.817727 1259.43135 2.361 0.00099353 -0.79317 -0.00033378 1.5678 0.00065975 420.8170918744164 33.592 0.063499 34.38 34.346 34.409 0.78795 -0.22628 -0.00080656 NaN 0.45452 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 676780 + 38499 12403 24460 24536 -0.1879877304177171 YEDNLYMYLYF 11 Unmodified _YEDNLYMYLYF_ 0 0 0 nc|ENSG00000136531|Q99250-2|SCN2A;ENSG00000136531|ENST00000375437|SCN2A nc|ENSG00000136531|Q99250-2|SCN2A nc|ENSG00000136531|Q99250-2|SCN2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 767.3336181640625 2 767.333961 1532.65337 NaN NaN NaN NaN NaN NaN NaN 17.544 1 18.205 17.705 18.705 0.66072 0 0 0 1.0082 1 7916 7916 0 0 1 38500 2956 24461 24537 43156 43156 -0.09165165159311073 YEDTEDEQYF 10 Unmodified _YEDTEDEQYF_ 0 0 0 REV__FAM186A|p.E1748Rfs*31|1|0.34|ENSG00000185958|chr12:50351591-50351591|A/-|frameshift_variant REV__FAM186A|p.E1748Rfs*31|1|0.34|ENSG00000185958|chr12:50351591-50351591|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 446.8391418457031 3 446.838462 1337.49356 2.876 0.0012851 -0.39551 -0.00017673 2.4804 0.0011084 446.83824675447295 57.863 0.35699 57.863 57.685 58.042 0 62 32 3 0 0 0 0.9406 1 26677 26677 0.77653 0 1 1162700 + 38501 14036 24462 24538 43157 43157 -0.16169001902790114 YEDTEDEQYF 10 Unmodified _YEDTEDEQYF_ 0 0 0 REV__FAM186A|p.E1748Rfs*31|1|0.34|ENSG00000185958|chr12:50351591-50351591|A/-|frameshift_variant REV__FAM186A|p.E1748Rfs*31|1|0.34|ENSG00000185958|chr12:50351591-50351591|A/-|frameshift_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 446.838462 1337.49356 2.876 0.0012851 -0.39551 -0.00017673 2.4804 0.0011084 446.83824675447295 57.863 0.35699 57.863 57.685 58.042 0 0.028289 -0.00031811 NaN 0.77653 62 32 3 NaN NaN NaN NaN 0 NaN NaN 0 1162700 + 38502 14036 24462 24538 -0.16169001902790114 YEDTEDEQYF 10 Unmodified _YEDTEDEQYF_ 0 0 0 REV__FAM186A|p.E1748Rfs*31|1|0.34|ENSG00000185958|chr12:50351591-50351591|A/-|frameshift_variant REV__FAM186A|p.E1748Rfs*31|1|0.34|ENSG00000185958|chr12:50351591-50351591|A/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 446.838462 1337.49356 2.811 0.0012561 0.24123 0.00010779 3.0523 0.0013639 446.83814394772577 57.62 0.35576 57.884 57.737 58.093 0.26443 0.049669 0.00053544 NaN 0.77653 36 20 2 NaN NaN NaN NaN 0 NaN NaN 0 969020 + 38503 14036 24462 24538 -0.16169001902790114 YEDTEDEQYF 10 Unmodified _YEDTEDEQYF_ 0 0 0 REV__FAM186A|p.E1748Rfs*31|1|0.34|ENSG00000185958|chr12:50351591-50351591|A/-|frameshift_variant REV__FAM186A|p.E1748Rfs*31|1|0.34|ENSG00000185958|chr12:50351591-50351591|A/-|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 446.838462 1337.49356 3.1766 0.0014194 -0.089479 -3.9983E-05 3.0871 0.0013794 446.8382318061841 57.088 0.34806 57.757 57.551 57.899 0.66829 -0.077958 9.2128E-05 NaN 0.77653 28 15 3 NaN NaN NaN NaN 0 NaN NaN 0 715670 + 38504 14036 24462 24538 -0.16169001902790114 YEEDYYEDDEE 11 Unmodified _YEEDYYEDDEE_ 0 0 0 ENSG00000198700|ENST00000361565|IPO9 ENSG00000198700|ENST00000361565|IPO9 ENSG00000198700|ENST00000361565|IPO9 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 749.7542724609375 2 749.754449 1497.49434 NaN NaN NaN NaN NaN NaN NaN 73.833 1 74.498 73.998 74.998 0.6644 0 0 0 1.0082 1 33966 33966 0 0 1 38505 5917 24463 24539 43158 43158 -0.2345025204438116 YEEEEDESDN 10 Unmodified _YEEEEDESDN_ 0 0 0 REV__ENSG00000114841|ENST00000420323|DNAH1 REV__ENSG00000114841|ENST00000420323|DNAH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 629.6820068359375 2 629.715127 1257.4157 NaN NaN NaN NaN NaN NaN NaN 88.344 1 88.396 87.896 88.896 0.052155 0 0 0 1.0001 1 44970 44970 1.6526 0 1 + 38506 11333 24464 24540 43159 43159 -0.20271059558808702 YEEERRQREYE 11 Unmodified _YEEERRQREYE_ 0 0 0 REV__nc|ENSG00000176406|Q9UQ26-4|RIMS2 REV__nc|ENSG00000176406|Q9UQ26-4|RIMS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 794.0075073242188 2 793.863325 1585.7121 NaN NaN NaN NaN NaN NaN NaN 98.454 1 98.52 98.02 99.02 0.066025 0 0 0 1.0082 1 52937 52937 0 0 1 + 38507 13703 24465 24541 43160 43160 -0.05732972540613446 YEEFRKMWDYF 11 Unmodified _YEEFRKMWDYF_ 0 0 0 ENSG00000154269|ENST00000357639|ENPP3 ENSG00000154269|ENST00000357639|ENPP3 ENSG00000154269|ENST00000357639|ENPP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 807.3593139648438 2 807.358302 1612.70205 NaN NaN NaN NaN NaN NaN NaN 45.959 1 46.61 46.11 47.11 0.65104 0 0 0 1.0082 1 21054 21054 0 0 1 38508 3815 24466 24542 43161 43161 -0.07979251799565645 YEEGEDEE 8 Unmodified _YEEGEDEE_ 0 0 0 REV__MYT1L|p.I952Sfs*39|1|0.23|ENSG00000186487|chr2:1840765-1840765|G/-|frameshift_variant REV__MYT1L|p.I952Sfs*39|1|0.23|ENSG00000186487|chr2:1840765-1840765|G/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.1758117675781 2 500.174909 998.335265 3.2732 0.0016372 -0.82666 -0.00041348 2.4465 0.0012237 500.17440787912363 33.424 0.42866 33.678 33.45 33.878 0.25389 89 22 6 0 0 0 0.74071 1 15285 15285 2.5775 0 1 4232900 + 38509 17847 24467 24543 43162 43162 -0.16396876091221202 YEEIAQRS 8 Unmodified _YEEIAQRS_ 0 0 0 CON__P19013;ENSG00000172867|ENST00000309680|KRT2;CON__P35908v2;CON__P35908;ENSG00000185069|ENST00000332411|KRT76;CON__Q01546 CON__P19013;ENSG00000172867|ENST00000309680|KRT2;ENSG00000185069|ENST00000332411|KRT76 ENSG00000172867|ENST00000309680|KRT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.2451171875 2 498.243264 994.471974 3.0428 0.0015161 0.79434 0.00039578 3.8372 0.0019118 498.2435428392068 14.762 0.22167 14.762 14.659 14.881 0 35 22 2 0 0 0 0.42759 1 6499 6499 26.268 7.0112 1 129170 + 38510 220;221;224 24468 24544 43163 43163 -0.025482973501880224 YEEIAQRS 8 Unmodified _YEEIAQRS_ 0 0 0 CON__P19013;ENSG00000172867|ENST00000309680|KRT2;CON__P35908v2;CON__P35908;ENSG00000185069|ENST00000332411|KRT76;CON__Q01546 CON__P19013;ENSG00000172867|ENST00000309680|KRT2;ENSG00000185069|ENST00000332411|KRT76 ENSG00000172867|ENST00000309680|KRT2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 498.243264 994.471974 3.0804 0.0015348 0.21975 0.00010949 3.3001 0.0016443 498.24341329888523 14.481 0.13203 14.707 14.638 14.77 0.22622 -0.027287 -0.00041146 NaN 26.268 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 206160 + 38511 220;221;224 24468 24544 -0.025482973501880224 YEEMIEEFYED 11 Unmodified _YEEMIEEFYED_ 0 0 0 REV__ENSG00000116984|ENST00000366577|MTR REV__ENSG00000116984|ENST00000366577|MTR MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 748.7922973632812 2 748.792323 1495.57009 NaN NaN NaN NaN NaN NaN NaN 22.243 1 22.243 21.743 22.743 0 0 0 0 1.0082 1 9969 9969 0 0 1 + 38512 11426 24469 24545 43164 43164 -0.1578694639783862 YEEWKWFRCP 10 Unmodified _YEEWKWFRCP_ 0 0 0 ENST00000468293.5_1_7:150707648-150709543:+|nuORF;ENST00000477227.1_1_7:150707648-150711254:+|nuORF;ENSG00000164867|ENST00000297494|NOS3 ENST00000468293.5_1_7:150707648-150709543:+|nuORF ENST00000468293.5_1_7:150707648-150709543:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.888916015625 3 481.888657 1442.64414 NaN NaN NaN NaN NaN NaN NaN 87.844 1 88.523 88.023 89.023 0.67818 0 0 0 1.0015 1 40460 40460 0.13989 0.056541 1 38513 4350 24470 24546 43165 43165 -0.05947468934323297 YEGEAALR 8 Unmodified _YEGEAALR_ 0 0 0 nc|ENSG00000144560|Q14135-4|VGLL4;ENSG00000144560|ENST00000430365|VGLL4 nc|ENSG00000144560|Q14135-4|VGLL4 nc|ENSG00000144560|Q14135-4|VGLL4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 454.72802734375 2 454.727249 907.439946 2.7806 0.0012644 -0.070109 -3.188E-05 2.7105 0.0012325 454.7273095751792 14.565 0.16218 14.791 14.719 14.881 0.22622 17 12 2 0 0 0 0.49219 1 6408 6408 21.747 0 1 206860 38514 3433 24471 24547 43166 43166 -0.017476650333492216 YEGEAALR 8 Unmodified _YEGEAALR_ 0 0 0 nc|ENSG00000144560|Q14135-4|VGLL4;ENSG00000144560|ENST00000430365|VGLL4 nc|ENSG00000144560|Q14135-4|VGLL4 nc|ENSG00000144560|Q14135-4|VGLL4 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 454.727249 907.439946 2.8131 0.0012792 0.37477 0.00017042 3.1879 0.0014496 454.7273899943179 14.946 0.27499 14.946 14.835 15.11 0 0.077246 0.00019233 NaN 21.747 44 30 2 NaN NaN NaN NaN 0 NaN NaN 0 98740 38515 3433 24471 24547 -0.017476650333492216 YEIMFREEFWR 11 Unmodified _YEIMFREEFWR_ 0 0 0 ENSG00000142798|ENST00000374695|HSPG2 ENSG00000142798|ENST00000374695|HSPG2 ENSG00000142798|ENST00000374695|HSPG2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 803.380859375 2 803.379568 1604.74458 NaN NaN NaN NaN NaN NaN NaN 54.129 1 54.129 53.629 54.629 0 0 0 0 1.008 1 24823 24823 0.35063 0 1 38516 3331 24472 24548 43167 43167 -0.03359856671340822 YEIQRKIYEK 10 Unmodified _YEIQRKIYEK_ 0 0 0 REV__nc|ENSG00000138709|Q659C4-9|LARP1B REV__nc|ENSG00000138709|Q659C4-9|LARP1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 685.6124877929688 2 685.377352 1368.74015 NaN NaN NaN NaN NaN NaN NaN 82.801 1 82.801 82.301 83.301 0 0 0 0 1.0006 1 41562 41562 1.1933 0 1 + 38517 12185 24473 24549 43168 43168 0.07053002177417511 YELHRWLI 8 Unmodified _YELHRWLI_ 0 0 0 REV__ENSG00000155561|ENST00000285968|NUP205 REV__ENSG00000155561|ENST00000285968|NUP205 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 565.3139038085938 2 565.311284 1128.60801 3.5834 0.0020257 1.4598 0.00082525 5.0432 0.002851 565.311843070494 66.957 0.28195 67.614 67.438 67.72 0.65726 34 15 3 0 0 0 0.44001 2 30725 30680;30725 32.117 10.37 1 977410 + 38518 12744 24474 24550 43169;43170 43170 0.048854419511371816 YELLRKLFN 9 Unmodified _YELLRKLFN_ 0 0 0 REV__ENSG00000115423|ENST00000389394|DNAH6 REV__ENSG00000115423|ENST00000389394|DNAH6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 598.3471069335938 2 598.345323 1194.67609 NaN NaN NaN NaN NaN NaN NaN 83.544 1 83.589 83.089 84.089 0.045006 0 0 0 0.86044 1 41483 41483 7.2892 0 1 + 38519 11365 24475 24551 43171 43171 0.08654266811140587 YELMKRIY 8 Unmodified _YELMKRIY_ 0 0 0 ENSG00000086570|ENST00000261800|FAT2 ENSG00000086570|ENST00000261800|FAT2 ENSG00000086570|ENST00000261800|FAT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.3035278320312 2 558.299527 1114.5845 NaN NaN NaN NaN NaN NaN NaN 29.668 1 29.668 29.168 30.168 0 0 0 0 0.94507 1 13394 13394 9.3474 0 1 38520 984 24476 24552 43172 43172 0.03179260122328742 YELWWFWLVWT 11 Unmodified _YELWWFWLVWT_ 0 0 0 nc|ENSG00000166272|Q9NX94|WBP1L;ENSG00000166272|ENST00000448841|WBP1L nc|ENSG00000166272|Q9NX94|WBP1L nc|ENSG00000166272|Q9NX94|WBP1L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 814.89990234375 2 814.900463 1627.78637 NaN NaN NaN NaN NaN NaN NaN 74.457 1 75.143 74.643 75.643 0.68662 0 0 0 1.0082 1 35988 35988 0 0 1 38521 4469 24477 24553 43173 43173 -0.0024093292049656156 YENEVALRQ 9 Unmodified _YENEVALRQ_ 0 0 0 ENSG00000186395|ENST00000269576|KRT10;CON__P13645 ENSG00000186395|ENST00000269576|KRT10 ENSG00000186395|ENST00000269576|KRT10 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.2863159179688 2 561.28292 1120.55129 NaN NaN NaN NaN NaN NaN NaN 25.743 1 26.011 25.511 26.511 0.26777 0 0 0 0.58778 1 11687 11687 16.149 5.3252 1 + 38522 217 24478 24554 43174 43174 -0.004166503960504997 YENNIFRLFLP 11 Unmodified _YENNIFRLFLP_ 0 0 0 REV__ENSG00000120800|ENST00000261637|UTP20 REV__ENSG00000120800|ENST00000261637|UTP20 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 713.384033203125 2 713.379894 1424.74524 NaN NaN NaN NaN NaN NaN NaN 33.76 1 34.381 33.881 34.881 0.62031 0 0 0 1.0038 1 15469 15469 5.7319 0.43497 1 + 38523 11546 24479 24555 43175 43175 0.049853060400437244 YENRAAQL 8 Unmodified _YENRAAQL_ 0 0 0 REV__nc|ENSG00000197948|Q86WN1-3|FCHSD1 REV__nc|ENSG00000197948|Q86WN1-3|FCHSD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.74786376953125 2 482.745973 963.477394 3.1732 0.0015318 -1.0919 -0.00052709 2.0813 0.0010047 482.74545419975334 29.641 0.38103 30.259 30.054 30.435 0.61789 48 22 3 0 0 0 0.63902 1 13642 13642 10.824 0.64053 1 379500 + 38524 14307 24480 24556 43176 43176 -0.0058057376772922 YENRPLLIK 9 Unmodified _YENRPLLIK_ 0 0 0 ENSG00000100558|ENST00000216446|PLEK2 ENSG00000100558|ENST00000216446|PLEK2 ENSG00000100558|ENST00000216446|PLEK2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 382.5620422363281 3 382.560758 1144.66044 2.5922 0.00099168 0.92113 0.00035239 3.5133 0.0013441 382.5608830469638 38.08 0.57985 38.714 38.415 38.995 0.63389 86 23 5 0 0 0 0.29523 1 17505 17505 12.175 0 1 6042600 38525 1227 24481 24557 43177 43177 0.0938998029407685 YEQDQHDEMDW 11 Unmodified _YEQDQHDEMDW_ 0 0 0 REV__ENST00000451057.1_1_7:156990296-156991186:-|nuORF REV__ENST00000451057.1_1_7:156990296-156991186:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 748.27490234375 2 748.275163 1494.53577 NaN NaN NaN NaN NaN NaN NaN 43.927 1 44.197 43.697 44.697 0.2694 0 0 0 1.0082 1 20070 20070 0 0 1 + 38526 16409 24482 24558 43178 43178 -0.19171349766088497 YEQERYRHYEK 11 Unmodified _YEQERYRHYEK_ 0 0 0 REV__ENSG00000138398|ENST00000260970|PPIG REV__ENSG00000138398|ENST00000260970|PPIG MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 800.8786010742188 2 800.878778 1599.743 NaN NaN NaN NaN NaN NaN NaN 86.19 1 86.22 85.72 86.72 0.030289 0 0 0 1.0082 1 43299 43299 0 0 1 + 38527 12163 24483 24559 43179 43179 -0.032877744357165284 YERAKHIL 8 Unmodified _YERAKHIL_ 0 0 0 nc|ENSG00000136758|Q96TA2-3|YME1L1;ENSG00000136758|ENST00000376016|YME1L1;nc|ENSG00000136758|Q96TA2|YME1L1 nc|ENSG00000136758|Q96TA2-3|YME1L1 nc|ENSG00000136758|Q96TA2-3|YME1L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 343.86712646484375 3 343.866181 1028.57671 2.545 0.00087516 0.16559 5.6939E-05 2.7106 0.0009321 343.86629507521917 12.849 0.14928 12.849 12.747 12.896 0 9 5 2 0 0 0 0.65679 1 5624 5624 9.3831 1.2276 1 1629500 38528 2972 24484 24560 43180 43180 0.06356868917032443 YERAKHIL 8 Unmodified _YERAKHIL_ 0 0 0 nc|ENSG00000136758|Q96TA2-3|YME1L1;ENSG00000136758|ENST00000376016|YME1L1;nc|ENSG00000136758|Q96TA2|YME1L1 nc|ENSG00000136758|Q96TA2-3|YME1L1 nc|ENSG00000136758|Q96TA2-3|YME1L1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 344.2076110839844 3 343.866181 1028.57671 1.7571 0.00060421 -0.21293 -7.3221E-05 1.5442 0.00053098 343.8662017772352 12.567 0.11663 12.874 12.819 12.936 0.30727 5 3 2 0 0 0 0.13289 1 5678 5678 4.897 0 1 2268100 38529 2972 24484 24560 43181 43181 0.06356868917032443 YERKIIIKF 9 Unmodified _YERKIIIKF_ 0 0 0 REV__ENST00000467530.5_1_1:85959978-85960173:-|nuORF REV__ENST00000467530.5_1_1:85959978-85960173:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 403.4838562011719 3 403.916653 1208.72813 2.6699 0.0010784 -0.45117 -0.00018224 2.2188 0.0008962 404.2501350978362 38.281 1.249 39.077 38.588 39.837 0.79552 61 53 2 0 0 0 0.11434 1 17236 17236 0.26902 0 1 354780 + 38530 16556 24485 24561 43182 43182 0.13211430224873766 YERKIIIKF 9 Unmodified _YERKIIIKF_ 0 0 0 REV__ENST00000467530.5_1_1:85959978-85960173:-|nuORF REV__ENST00000467530.5_1_1:85959978-85960173:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 403.916653 1208.72813 2.8804 0.0011634 0.23053 9.3115E-05 3.1109 0.0012566 403.91693148183043 39.03 0.64158 39.294 39.058 39.699 0.26408 0.13665 0.00058073 NaN 0.26902 42 25 2 NaN NaN NaN NaN 0 NaN NaN 0 1361600 + 38531 16556 24485 24561 0.13211430224873766 YESKVSSTDSQ 11 Unmodified _YESKVSSTDSQ_ 0 0 0 REV__ENSG00000135540|ENST00000343505|NHSL1 REV__ENSG00000135540|ENST00000343505|NHSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 615.7779541015625 2 615.777864 1229.54118 NaN NaN NaN NaN NaN NaN NaN 1.5681 1 2.1896 1.6896 2.6896 0.62157 0 0 0 1.0082 1 714 714 0 0 1 + 38532 12025 24486 24562 43183 43183 -0.06441302911935054 YETIFNLRKDK 11 Unmodified _YETIFNLRKDK_ 0 0 0 REV__ENST00000483414.1_1_7:73511493-73523492:+|nuORF REV__ENST00000483414.1_1_7:73511493-73523492:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 713.8858032226562 2 713.888084 1425.76161 NaN NaN NaN NaN NaN NaN NaN 33.655 1 34.443 33.943 34.943 0.78795 0 0 0 1.0059 1 15234 15234 2.9952 1.3426 1 + 38533 11092 24487 24563 43184 43184 0.06576387206109757 YETWEDDMDG 10 Unmodified _YETWEDDMDG_ 0 0 0 ENSG00000143318|ENST00000368078|CASQ1 ENSG00000143318|ENST00000368078|CASQ1 ENSG00000143318|ENST00000368078|CASQ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 420.81793212890625 3 420.816893 1259.42885 2.9183 0.0012281 1.3724 0.00057753 4.2907 0.0018056 420.8172278090364 34.55 0.39604 34.803 34.567 34.963 0.25389 48 16 5 0 0 0 0.93628 1 15714 15714 0.69767 0.24315 1 2214400 38534 3357 24488 24564 43185 43185 -0.19048899980452916 YETWEDDMDG 10 Unmodified _YETWEDDMDG_ 0 0 0 ENSG00000143318|ENST00000368078|CASQ1 ENSG00000143318|ENST00000368078|CASQ1 ENSG00000143318|ENST00000368078|CASQ1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 420.81915283203125 3 420.816893 1259.42885 2.9309 0.0012334 1.4572 0.00061321 4.3881 0.0018466 421.15180754903395 34.119 0.30719 34.739 34.677 34.984 0.62031 23 14 2 0 0 0 0.93628 2 15648 15648;15700 0.69767 0.24315 1 990500 38535 3357 24488 24564 43186;43187 43186 -0.19048899980452916 YEVHFRYFYNR 11 Unmodified _YEVHFRYFYNR_ 0 0 0 ENSG00000149651|ENST00000279058|SPINT4 ENSG00000149651|ENST00000279058|SPINT4 ENSG00000149651|ENST00000279058|SPINT4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.8783569335938 3 531.924759 1592.75245 NaN NaN NaN NaN NaN NaN NaN 61.86 1 61.86 61.36 62.36 0 0 0 0 1.008 1 28906 28906 0.08335 0 1 38536 3653 24489 24565 43188 43188 -0.02021961359537272 YEWQQRQQFRH 11 Unmodified _YEWQQRQQFRH_ 0 0 0 PLEKHA7|p.G1041Vfs*31|1|0.13|ENSG00000166689|chr11:16789809-16789809|C/-|frameshift_variant;nc|ENSG00000166689|Q6IQ23|PLEKHA7;nc|ENSG00000166689|Q6IQ23-2|PLEKHA7;ENSG00000166689|ENST00000531066|PLEKHA7;nc|ENSG00000166689|Q6IQ23-3|PLEKHA7;ENST00000525781.5_1_11:16810636-16838952:-|nuORF PLEKHA7|p.G1041Vfs*31|1|0.13|ENSG00000166689|chr11:16789809-16789809|C/-|frameshift_variant PLEKHA7|p.G1041Vfs*31|1|0.13|ENSG00000166689|chr11:16789809-16789809|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 803.3861083984375 2 803.387105 1604.75966 NaN NaN NaN NaN NaN NaN NaN 53.806 1 54.07 53.57 54.57 0.26462 0 0 0 1.0072 1 24606 24606 1.3295 0 1 38537 4498 24490 24566 43189 43189 -0.018532287591369823 YEYNRWMCYD 10 Unmodified _YEYNRWMCYD_ 0 0 0 REV__ENSG00000153147|ENST00000283131|SMARCA5 REV__ENSG00000153147|ENST00000283131|SMARCA5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.5215759277344 3 481.521645 1441.54311 NaN NaN NaN NaN NaN NaN NaN 94.285 1 94.545 94.045 95.045 0.25975 0 0 0 1.0015 1 43327 43327 0.13989 0 1 + 38538 12670 24491 24567 43190 43190 -0.16000288699319754 YEYRISAW 8 Unmodified _YEYRISAW_ 0 0 0 ENSG00000042781|ENST00000307340|USH2A;nc|ENSG00000042781|O75445-3|USH2A ENSG00000042781|ENST00000307340|USH2A ENSG00000042781|ENST00000307340|USH2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 363.1695556640625 3 363.178425 1086.51345 NaN NaN NaN NaN NaN NaN NaN 56.301 1 56.567 56.067 57.067 0.26543 0 0 0 0.99035 1 25754 25754 1.6526 0 1 38539 544 24492 24568 43191 43191 -0.026351165908408802 YEYYDAGNHW 10 Unmodified _YEYYDAGNHW_ 0 0 0 ENSG00000171467|ENST00000361428|ZNF318;ZNF318|p.P1493Sfs*2|1|0.15|ENSG00000171467|chr6:43339522-43339523|-/C|frameshift_variant;nc|ENSG00000171467|Q5VUA4-2|ZNF318 ENSG00000171467|ENST00000361428|ZNF318 ENSG00000171467|ENST00000361428|ZNF318 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 439.8453674316406 3 439.843882 1316.50982 NaN NaN NaN NaN NaN NaN NaN 15.859 1 16.165 15.665 16.665 0.306 0 0 0 1.002 1 7173 7173 0 0 1 38540 4805 24493 24569 43192 43192 -0.13577831155384956 YFDAIPVTM 9 Unmodified _YFDAIPVTM_ 0 0 0 ENSG00000153395|ENST00000283415|LPCAT1;ENST00000507282.1_1_5:1488500-1495016:-|nuORF ENSG00000153395|ENST00000283415|LPCAT1 ENSG00000153395|ENST00000283415|LPCAT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 528.7586059570312 2 528.757161 1055.49977 3.078 0.0016275 0.67521 0.00035702 3.7533 0.0019846 528.7574497924866 81.764 0.29153 82.012 81.88 82.171 0.24803 28 16 2 0 0 0 0.071101 1 37654 37654 39.957 7.8404 1 1233400 38541 3786 24494 24570 43193 43193 -0.025761104143157354 YFDAIPVTM 9 Unmodified _YFDAIPVTM_ 0 0 0 ENSG00000153395|ENST00000283415|LPCAT1;ENST00000507282.1_1_5:1488500-1495016:-|nuORF ENSG00000153395|ENST00000283415|LPCAT1 ENSG00000153395|ENST00000283415|LPCAT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 528.757161 1055.49977 3.3651 0.0017793 0.22152 0.00011713 3.5866 0.0018964 528.7572743742631 81.14 0.26437 81.8 81.665 81.929 0.65998 -0.10573 -0.00026072 NaN 39.957 24 13 2 NaN NaN NaN NaN 0 NaN NaN 0 673220 38542 3786 24494 24570 -0.025761104143157354 YFDEPVEL 8 Unmodified _YFDEPVEL_ 0 0 0 nc|ENSG00000242247|Q9NP61-2|ARFGAP3;ENSG00000242247|ENST00000263245|ARFGAP3 nc|ENSG00000242247|Q9NP61-2|ARFGAP3 nc|ENSG00000242247|Q9NP61-2|ARFGAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1011.470703125 1 1011.46695 1010.45968 3.2454 0.0032826 -0.38209 -0.00038648 2.8633 0.0028961 1011.466135776526 71.02 0.24989 71.277 71.138 71.388 0.25786 46 24 2 0 0 0 0.056325 3 32533 32483;32533;32578 63.563 16.696 1 1223800 38543 6229 24495 24571 43194;43195;43196 43195 -0.04513333813235931 YFDEPVEL 8 Unmodified _YFDEPVEL_ 0 0 0 nc|ENSG00000242247|Q9NP61-2|ARFGAP3;ENSG00000242247|ENST00000263245|ARFGAP3 nc|ENSG00000242247|Q9NP61-2|ARFGAP3 nc|ENSG00000242247|Q9NP61-2|ARFGAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.2386169433594 2 506.237116 1010.45968 3.0101 0.0015238 -0.40142 -0.00020321 2.6087 0.0013206 506.23704115811483 71.005 0.24649 71.263 71.151 71.398 0.25786 39 24 2 0 0 0 0.26384 2 32510 32510;32559 38.151 21.209 1 759810 38544 6229 24495 24571 43197;43198 43197 -0.04513333813235931 YFDEPVEL 8 Unmodified _YFDEPVEL_ 0 0 0 nc|ENSG00000242247|Q9NP61-2|ARFGAP3;ENSG00000242247|ENST00000263245|ARFGAP3 nc|ENSG00000242247|Q9NP61-2|ARFGAP3 nc|ENSG00000242247|Q9NP61-2|ARFGAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1011.4714965820312 1 1011.46695 1010.45968 3.1702 0.0032065 0.0335 3.3884E-05 3.2037 0.0032404 1011.4665884549293 70.501 0.31306 71.163 71.004 71.317 0.66209 32 18 2 0 0 0 0.037436 2 32341 32294;32341 70.716 19.86 1 1307000 38545 6229 24495 24571 43199;43200 43200 -0.04513333813235931 YFDEPVEL 8 Unmodified _YFDEPVEL_ 0 0 0 nc|ENSG00000242247|Q9NP61-2|ARFGAP3;ENSG00000242247|ENST00000263245|ARFGAP3 nc|ENSG00000242247|Q9NP61-2|ARFGAP3 nc|ENSG00000242247|Q9NP61-2|ARFGAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.23858642578125 2 506.237116 1010.45968 2.805 0.00142 0.41674 0.00021097 3.2217 0.0016309 506.237420742059 70.499 0.27345 71.161 71.029 71.302 0.66208 33 15 3 0 0 0 0.10141 1 32311 32311 53.576 25.089 1 642260 38546 6229 24495 24571 43201 43201 -0.04513333813235931 YFDIEWRDRRI 11 Unmodified _YFDIEWRDRRI_ 0 0 0 ENSG00000075618|ENST00000382361|FSCN1;ENST00000473330.1_1_7:5642709-5645102:+|nuORF ENSG00000075618|ENST00000382361|FSCN1 ENSG00000075618|ENST00000382361|FSCN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.3515014648438 3 523.603797 1567.78956 NaN NaN NaN NaN NaN NaN NaN 74.177 1 74.177 73.677 74.677 0 0 0 0 1.0079 1 36209 36209 0.50596 0 1 38547 831 24496 24572 43202 43202 0.02837710186190634 YFDPANGKF 9 Unmodified _YFDPANGKF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2;ENST00000598182.5_1_19:3980752-3982305:-|nuORF ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.7529907226562 2 529.750724 1057.4869 3.0682 0.0016254 -0.20463 -0.0001084 2.8636 0.001517 529.7509674521257 49.933 0.38897 49.933 49.722 50.111 0 39 18 3 0 0 0 0.02234 2 22850 22850;22906 65.235 36.748 1 1017300 38548 4569 24497 24573 43203;43204 43203 -0.03954805482203483 YFDPANGKF 9 Unmodified _YFDPANGKF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2;ENST00000598182.5_1_19:3980752-3982305:-|nuORF ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.7529907226562 2 529.750724 1057.4869 3.1569 0.0016723 0.44983 0.0002383 3.6067 0.0019106 529.7509146315541 48.751 0.41267 49.578 49.394 49.807 0.82705 38 23 2 0 0 0 0.015098 2 22258 22217;22258 74.929 49.53 1 748260 38549 4569 24497 24573 43205;43206 43206 -0.03954805482203483 YFDPANGKF 9 Unmodified _YFDPANGKF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2;ENST00000598182.5_1_19:3980752-3982305:-|nuORF ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 529.7527465820312 2 529.750724 1057.4869 3.1772 0.0016831 -0.28019 -0.00014843 2.897 0.0015347 529.7508405890089 49.93 0.6415 50.191 49.946 50.587 0.26146 49 24 3 0 0 0 0.0081238 3 22831 22769;22831;22886 85.272 46.442 1 1940800 38550 4569 24497 24573 43207;43208;43209 43208 -0.03954805482203483 YFDPANGKF 9 Unmodified _YFDPANGKF_ 0 0 0 ENSG00000167658|ENST00000309311|EEF2;ENST00000598182.5_1_19:3980752-3982305:-|nuORF ENSG00000167658|ENST00000309311|EEF2 ENSG00000167658|ENST00000309311|EEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 529.752685546875 2 529.750724 1057.4869 3.3241 0.0017609 -0.60236 -0.0003191 2.7217 0.0014418 529.7507624927416 49.405 0.48697 50.061 49.851 50.338 0.65525 42 16 3 0 0 0 0.015098 2 22618 22563;22618 74.929 30.522 1 1971900 38551 4569 24497 24573 43210;43211 43211 -0.03954805482203483 YFEELITML 9 Oxidation (M) _YFEELITM(Oxidation (M))L_ YFEELITM(1)L YFEELITM(44)L 0 0 1 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC;CLTC|p.N1492Kfs*34|1|0.12|ENSG00000141367|chr17:59685097-59685097|T/-|frameshift_variant nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.7914428710938 2 587.788658 1173.56276 4.0084 0.0023561 0.42575 0.00025025 4.4341 0.0026063 587.7890029131031 91.646 0.32488 91.898 91.708 92.032 0.25163 38 16 3 0 0 0 0.056465 1 42166 42166 44.407 35.06 1 607670 38552 3246 24498 24574 43212 43212 47 -0.017075894169465755 YFEELITML 9 Oxidation (M) _YFEELITM(Oxidation (M))L_ YFEELITM(1)L YFEELITM(51)L 0 0 1 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC;CLTC|p.N1492Kfs*34|1|0.12|ENSG00000141367|chr17:59685097-59685097|T/-|frameshift_variant nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.7907104492188 2 587.788658 1173.56276 3.7406 0.0021987 -0.46843 -0.00027534 3.2722 0.0019234 587.7884577378455 90.557 0.28862 91.229 91.09 91.379 0.67271 23 13 2 0 0 0 0.041436 1 41696 41696 50.855 37.347 1 857450 38553 3246 24498 24574 43213 43213 47 -0.017075894169465755 YFEELITML 9 Oxidation (M) _YFEELITM(Oxidation (M))L_ YFEELITM(1)L YFEELITM(51)L 0 0 1 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC;CLTC|p.N1492Kfs*34|1|0.12|ENSG00000141367|chr17:59685097-59685097|T/-|frameshift_variant nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.7894897460938 2 587.788658 1173.56276 3.7573 0.0022085 -0.41828 -0.00024586 3.339 0.0019626 587.7881431908584 91.092 0.2944 91.754 91.621 91.915 0.66198 21 12 3 0 0 0 0.041436 1 41944 41944 50.855 28.119 1 425160 38554 3246 24498 24574 43214 43214 47 -0.017075894169465755 YFEEWFHYDYD 11 Unmodified _YFEEWFHYDYD_ 0 0 0 REV__ENSG00000135220|ENST00000251566|UGT2A3 REV__ENSG00000135220|ENST00000251566|UGT2A3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 807.3111572265625 2 807.314614 1612.61468 NaN NaN NaN NaN NaN NaN NaN 46.627 1 46.893 46.393 47.393 0.26561 0 0 0 1.008 1 21310 21310 0.35063 0.35063 1 + 38555 12005 24499 24575 43215 43215 -0.16712754469472202 YFFPYNILMKW 11 Unmodified _YFFPYNILMKW_ 0 0 0 REV__ENST00000523094.5_2_5:157214320-157214602:-|nuORF REV__ENST00000523094.5_2_5:157214320-157214602:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 761.3814697265625 2 761.383591 1520.75263 NaN NaN NaN NaN NaN NaN NaN 62.277 1 62.527 62.027 63.027 0.24965 0 0 0 1.008 1 28512 28512 0.30703 0.03801 1 + 38556 17060 24500 24576 43216 43216 0.013083223160947455 YFFVEDKYWRF 11 Unmodified _YFFVEDKYWRF_ 0 0 0 ENSG00000149968|ENST00000299855|MMP3 ENSG00000149968|ENST00000299855|MMP3 ENSG00000149968|ENST00000299855|MMP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 800.3848266601562 2 800.385177 1598.7558 NaN NaN NaN NaN NaN NaN NaN 83.65 1 84.312 83.812 84.812 0.66219 0 0 0 1.0082 1 38528 38528 0 0 1 38557 3663 24501 24577 43217 43217 -0.01962711305554876 YFFYHYLLR 9 Unmodified _YFFYHYLLR_ 0 0 0 LTR13A_dup7|chr1:43138776-43139741:+|1.031771637262758|0.2457820778445239|2.07|491.0|37|1|anti-sense LTR13A_dup7|chr1:43138776-43139741:+|1.031771637262758|0.2457820778445239|2.07|491.0|37|1|anti-sense LTR13A_dup7|chr1:43138776-43139741:+|1.031771637262758|0.2457820778445239|2.07|491.0|37|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 661.3448486328125 2 661.340041 1320.66553 NaN NaN NaN NaN NaN NaN NaN 70.197 1 70.454 69.954 70.954 0.25642 0 0 0 0.90611 1 32148 32148 2.0598 0.40713 1 38558 9493 24502 24578 43218 43218 0.018022841567017167 YFGNYYYKL 9 Unmodified _YFGNYYYKL_ 0 0 0 REV__LETM2|p.E302Dfs*16|1|0.07|ENSG00000165046|chr8:38400974-38400974|A/-|frameshift_variant REV__LETM2|p.E302Dfs*16|1|0.07|ENSG00000165046|chr8:38400974-38400974|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 615.796630859375 2 615.795132 1229.57571 NaN NaN NaN NaN NaN NaN NaN 31.017 1 31.017 30.517 31.517 0 0 0 0 0.91238 1 14024 14024 0.52476 0.066424 1 + 38559 13129 24503 24579 43219 43219 -0.029893902425328633 YFGPDFKL 8 Unmodified _YFGPDFKL_ 0 0 0 ENSG00000116478|ENST00000373548|HDAC1;ENSG00000196591|ENST00000519065|HDAC2;nc|ENSG00000196591|Q92769-3|HDAC2 ENSG00000116478|ENST00000373548|HDAC1;ENSG00000196591|ENST00000519065|HDAC2 ENSG00000196591|ENST00000519065|HDAC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.754150390625 2 493.752736 985.490919 3.4783 0.0017174 -2.4403 -0.0012049 1.0379 0.00051248 493.7526341462884 68.329 0.49452 68.581 68.464 68.958 0.25227 44 33 2 0 0 0 0.23923 1 31290 31290 39.957 16.809 1 519660 38560 2029;5761 24504 24580 43220 43220 -0.0024071598846830966 YFGPDFKL 8 Unmodified _YFGPDFKL_ 0 0 0 ENSG00000116478|ENST00000373548|HDAC1;ENSG00000196591|ENST00000519065|HDAC2;nc|ENSG00000196591|Q92769-3|HDAC2 ENSG00000116478|ENST00000373548|HDAC1;ENSG00000196591|ENST00000519065|HDAC2 ENSG00000196591|ENST00000519065|HDAC2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 493.7544860839844 2 493.752736 985.490919 3.1347 0.0015478 -0.12891 -6.3649E-05 3.0058 0.0014841 493.7528645253626 67.794 0.27318 68.451 68.296 68.569 0.65777 25 15 3 0 0 0 0.3435 1 31082 31082 32.305 14.171 1 575610 38561 2029;5761 24504 24580 43221 43221 -0.0024071598846830966 YFHGCYVHF 9 Unmodified _YFHGCYVHF_ 0 0 0 REV__nc|ENSG00000138315|Q8WWZ8-2|OIT3 REV__nc|ENSG00000138315|Q8WWZ8-2|OIT3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.7539672851562 2 586.752744 1171.49094 3.6331 0.0021318 -1.7265 -0.001013 1.9066 0.0011187 586.7517911628985 36.467 0.38334 37.097 36.883 37.266 0.62999 30 13 3 0 0 0 1.101 1 16767 16767 2.3027 0.65011 1 294040 + 38562 12156 24505 24581 43222 43222 -0.08795039260121484 YFIARKIRKKR 11 Unmodified _YFIARKIRKKR_ 0 0 0 ENSG00000118298|ENST00000369111|CA14 ENSG00000118298|ENST00000369111|CA14 ENSG00000118298|ENST00000369111|CA14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 739.9744873046875 2 739.975162 1477.93577 NaN NaN NaN NaN NaN NaN NaN 39.777 1 40.044 39.544 40.544 0.26696 0 0 0 1.0082 1 18096 18096 0 0 1 38563 2109 24506 24582 43223 43223 0.2159205721275157 YFILFLWLLVY 11 Unmodified _YFILFLWLLVY_ 0 0 0 ENSG00000165959|ENST00000298912|CLMN ENSG00000165959|ENST00000298912|CLMN ENSG00000165959|ENST00000298912|CLMN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 745.4286499023438 2 745.428325 1488.8421 NaN NaN NaN NaN NaN NaN NaN 13.691 1 14.339 13.839 14.839 0.6482 0 0 0 1.008 1 6152 6152 0.35063 0 1 38564 4438 24507 24583 43224 43224 0.11722900267136538 YFITARTLMKM 11 Unmodified _YFITARTLMKM_ 0 0 0 ENSG00000129048|ENST00000249887|ACKR4 ENSG00000129048|ENST00000249887|ACKR4 ENSG00000129048|ENST00000249887|ACKR4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 687.8671264648438 2 687.867251 1373.71995 NaN NaN NaN NaN NaN NaN NaN 41.067 1 41.067 40.567 41.567 0 0 0 0 1.0059 1 18652 18652 2.9952 1.151 1 38565 2537 24508 24584 43225 43225 0.04803791921585798 YFKDRHKL 8 Unmodified _YFKDRHKL_ 0 0 0 nc|ENSG00000123908|Q9UKV8-2|AGO2;ENSG00000123908|ENST00000220592|AGO2 nc|ENSG00000123908|Q9UKV8-2|AGO2 nc|ENSG00000123908|Q9UKV8-2|AGO2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.8109741210938 2 553.808908 1105.60326 3.7561 0.0020801 -0.58865 -0.000326 3.1674 0.0017541 553.8086362370603 46.987 0.19009 47.251 47.151 47.342 0.26363 8 5 2 0 0 0 0.70799 1 21505 21505 5.2307 0.90143 1 206750 38566 2326 24509 24585 43226 43226 0.054685578083763176 YFKDTHPKF 9 Unmodified _YFKDTHPKF_ 0 0 0 nc|ENSG00000100243|P00387-2|CYB5R3;ENSG00000100243|ENST00000352397|CYB5R3;nc|ENSG00000100243|P00387-3|CYB5R3;ENST00000470741.1_1_22:43015781-43027088:-|nuORF nc|ENSG00000100243|P00387-2|CYB5R3 nc|ENSG00000100243|P00387-2|CYB5R3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.87078857421875 3 394.869591 1181.58694 2.7253 0.0010762 0.31651 0.00012498 3.0418 0.0012011 394.8696398617268 22.469 0.18905 22.469 22.321 22.51 0 30 13 4 0 0 0 0.21127 1 10082 10082 22.658 15.556 1 536670 38567 1195 24510 24586 43227 43227 0.003414318515751802 YFKKRLAL 8 Unmodified _YFKKRLAL_ 0 0 0 SLC16A4|p.D170Cfs*16|1|0.27|ENSG00000168679|chr1:110380998-110381001|ATCT/-|frameshift_variant;nc|ENSG00000168679|O15374-3|SLC16A4;nc|ENSG00000168679|O15374-4|SLC16A4;nc|ENSG00000168679|O15374-2|SLC16A4;nc|ENSG00000168679|O15374-5|SLC16A4;ENSG00000168679|ENST00000369779|SLC16A4 SLC16A4|p.D170Cfs*16|1|0.27|ENSG00000168679|chr1:110380998-110381001|ATCT/-|frameshift_variant SLC16A4|p.D170Cfs*16|1|0.27|ENSG00000168679|chr1:110380998-110381001|ATCT/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 346.88824462890625 3 346.886805 1037.63859 2.408 0.00083529 -0.18186 -6.3084E-05 2.2261 0.0007722 346.8867307902487 22.555 0.13514 23.195 23.142 23.277 0.64051 23 17 2 0 0 0 0.17174 1 10287 10287 46.021 30.174 1 3777200 38568 4644 24511 24587 43228 43228 0.12127220336174105 YFKRKRLYFKR 11 Unmodified _YFKRKRLYFKR_ 0 0 0 REV__ENST00000342992.10_3_2:179540701-179542581:-|nuORF REV__ENST00000342992.10_3_2:179540701-179542581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 802.9855346679688 2 802.980444 1603.94634 NaN NaN NaN NaN NaN NaN NaN 81.056 1 81.225 80.725 81.725 0.16862 0 0 0 1.0082 1 39787 39787 0 0 1 + 38569 15483 24512 24588 43229 43229 0.16852039867194435 YFKRRERRQRR 11 Unmodified _YFKRRERRQRR_ 0 0 0 REV__L1MC4_dup11072|chr7:125483350-125483771:+|2.2473606437368963|0.0054117390772563|8.7|511.0|18|3|sense REV__L1MC4_dup11072|chr7:125483350-125483771:+|2.2473606437368963|0.0054117390772563|8.7|511.0|18|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 825.978759765625 2 825.97983 1649.94511 NaN NaN NaN NaN NaN NaN NaN 85.664 1 85.693 85.193 86.193 0.028603 0 0 0 1.0082 1 42933 42933 0 0 1 + 38570 17763 24513 24589 43230 43230 0.14613218550994134 YFLDRSSK 8 Unmodified _YFLDRSSK_ 0 0 0 nc|ENSG997|Q9N2J8|HERV-H-ENH3;HERVH-int_dup515|chr2:34793914-34794525:+|2.1477617939098304|0.3159007483226581|2.77|519.0|10|2|sense;nc|ENSG998|Q9N2K0|HERV-H-ENH1 nc|ENSG997|Q9N2J8|HERV-H-ENH3 nc|ENSG997|Q9N2J8|HERV-H-ENH3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 339.1799011230469 3 339.178425 1014.51345 NaN NaN NaN NaN NaN NaN NaN 77.861 1 78.524 78.024 79.024 0.66303 0 0 0 0.99035 1 35881 35881 1.4819 0 1 38571 9889 24514 24590 43231 43231 0.006768834091417375 YFLDSTKWF 9 Unmodified _YFLDSTKWF_ 0 0 0 REV__nc|nan|Q8IXR9-2|C12orf56 REV__nc|nan|Q8IXR9-2|C12orf56 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 603.368896484375 2 603.795132 1205.57571 NaN NaN NaN NaN NaN NaN NaN 51.878 1 52.14 51.64 52.64 0.26227 0 0 0 0.89315 1 23713 23713 5.2307 0 1 + 38572 14014 24515 24591 43232 43232 -0.018853902425234992 YFLKRRKL 8 Unmodified _YFLKRRKL_ 0 0 0 REV__ENST00000367545.7_1_6:145173639-145173798:+|nuORF REV__ENST00000367545.7_1_6:145173639-145173798:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 375.5764465332031 3 375.241471 1122.70258 2.0099 0.00075421 0.14034 5.2661E-05 2.1503 0.00080687 375.2414608106625 12.773 0.16978 13.034 12.967 13.137 0.26154 34 13 3 0 0 0 0.44001 1 5543 5543 25.399 1.3787 1 9255600 + 38573 15661 24516 24592 43233 43233 0.14614000493133972 YFLLFFKIRRK 11 Unmodified _YFLLFFKIRRK_ 0 0 0 ENST00000220003.13_1_15:75095013-75095301:+|nuORF ENST00000220003.13_1_15:75095013-75095301:+|nuORF ENST00000220003.13_1_15:75095013-75095301:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 765.96875 2 765.969014 1529.92348 NaN NaN NaN NaN NaN NaN NaN 50.511 1 51.33 50.83 51.83 0.81855 0 0 0 1.0082 1 23007 23007 0 0 1 38574 6415 24517 24593 43234 43234 0.17971020749700983 YFLLLKKKKKK 11 Unmodified _YFLLLKKKKKK_ 0 0 0 ENST00000485024.1_1_3:184529997-184533630:+|nuORF ENST00000485024.1_1_3:184529997-184533630:+|nuORF ENST00000485024.1_1_3:184529997-184533630:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 718.722900390625 2 718.989415 1435.96428 NaN NaN NaN NaN NaN NaN NaN 76.537 1 77.161 76.661 77.661 0.62397 0 0 0 1.0082 1 37103 37103 0 0 1 38575 8329 24518 24594 43235 43235 0.26373362069307404 YFLLLPRRRRR 11 Unmodified _YFLLLPRRRRR_ 0 0 0 ENST00000340384.4_1_9:140135667-140136192:+|nuORF ENST00000340384.4_1_9:140135667-140136192:+|nuORF ENST00000340384.4_1_9:140135667-140136192:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 515.9954833984375 3 515.991549 1544.95282 NaN NaN NaN NaN NaN NaN NaN 65.726 1 66.435 65.935 66.935 0.70891 0 0 0 1.0082 1 31107 31107 0.094841 0.094841 1 38576 7062 24519 24595 43236 43236 0.20213977818571038 YFLRQLHKKRE 11 Unmodified _YFLRQLHKKRE_ 0 0 0 ENST00000463135.1_1_X:37300766-37301252:+|nuORF ENST00000463135.1_1_X:37300766-37301252:+|nuORF ENST00000463135.1_1_X:37300766-37301252:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 759.49951171875 2 759.438609 1516.86267 3.7918 0.0028797 -1.4064 -0.0010681 2.3854 0.0018116 759.4371958568435 52.163 0.16563 52.426 52.319 52.485 0.26227 17 9 2 0 0 0 0.91378 1 23808 23808 0.35063 0 1 1137900 38577 8100 24520 24596 43237 43237 0.1249088369945639 YFLRQLHKKRE 11 Unmodified _YFLRQLHKKRE_ 0 0 0 ENST00000463135.1_1_X:37300766-37301252:+|nuORF ENST00000463135.1_1_X:37300766-37301252:+|nuORF ENST00000463135.1_1_X:37300766-37301252:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 759.9398803710938 2 759.438609 1516.86267 3.7714 0.0028641 -1.2785 -0.00097096 2.4929 0.0018932 759.4377400041544 51.566 0.28885 52.225 52.092 52.38 0.65956 34 14 3 0 0 0 0.91378 1 23627 23627 0.35063 0.043601 1 752660 38578 8100 24520 24596 43238 43238 0.1249088369945639 YFMFRWFFCRR 11 Unmodified _YFMFRWFFCRR_ 0 0 0 REV__nc|ENSG00000001626|P13569-3|CFTR REV__nc|ENSG00000001626|P13569-3|CFTR MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 829.9486083984375 2 829.897208 1657.77986 NaN NaN NaN NaN NaN NaN NaN 46.973 1 47.237 46.737 47.737 0.26363 0 0 0 1.0082 1 21468 21468 0 0 1 + 38579 10156 24521 24597 43239 43239 -0.02271472624533999 YFMWYRQYSRK 11 Unmodified _YFMWYRQYSRK_ 0 0 0 nc|ENSG00000211794|A0A0B4J271|TRAV12-3 nc|ENSG00000211794|A0A0B4J271|TRAV12-3 nc|ENSG00000211794|A0A0B4J271|TRAV12-3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 814.395263671875 2 814.395553 1626.77655 NaN NaN NaN NaN NaN NaN NaN 72.082 1 72.082 71.582 72.582 0 0 0 0 1.0082 1 35048 35048 0 0 1 38580 9823 24522 24598 43240 43240 -0.011764441975174122 YFMWYRQYSRK 11 Unmodified _YFMWYRQYSRK_ 0 0 0 nc|ENSG00000211794|A0A0B4J271|TRAV12-3 nc|ENSG00000211794|A0A0B4J271|TRAV12-3 nc|ENSG00000211794|A0A0B4J271|TRAV12-3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 814.3964233398438 2 814.395553 1626.77655 NaN NaN NaN NaN NaN NaN NaN 31.965 1 32.583 32.083 33.083 0.61736 0 0 0 1.008 1 14659 14659 0.35063 0.35063 1 38581 9823 24522 24598 43241 43241 -0.011764441975174122 YFNKLKKITKT 11 Unmodified _YFNKLKKITKT_ 0 0 0 ENSG00000066279|ENST00000367409|ASPM ENSG00000066279|ENST00000367409|ASPM ENSG00000066279|ENST00000367409|ASPM MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 461.9490966796875 3 461.950134 1382.82857 NaN NaN NaN NaN NaN NaN NaN 101.11 1 101.11 100.61 101.61 0 0 0 0 1.0079 1 55874 55874 0.40827 0.31342 1 38582 703 24523 24599 43242 43242 0.15247042487862927 YFPTLLLIAL 10 Unmodified _YFPTLLLIAL_ 0 0 0 ENSG00000135312|ENST00000369947|HTR1B ENSG00000135312|ENST00000369947|HTR1B ENSG00000135312|ENST00000369947|HTR1B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.3589477539062 2 582.357368 1162.70018 NaN NaN NaN NaN NaN NaN NaN 4.2591 1 4.6241 4.1241 5.1241 0.36497 0 0 0 1.002 1 1932 1932 0 0 1 38583 2861 24524 24600 43243 43243 0.12534107244823645 YFRFYRLIRLY 11 Unmodified _YFRFYRLIRLY_ 0 0 0 REV__nc|ENSG00000072756|Q96Q11-2|TRNT1 REV__nc|ENSG00000072756|Q96Q11-2|TRNT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 805.8766479492188 2 805.453728 1608.8929 NaN NaN NaN NaN NaN NaN NaN 80.249 1 80.249 79.749 80.749 0 0 0 0 1.0082 1 39793 39793 0 0 1 + 38584 10495 24525 24601 43244 43244 0.11281242364702848 YFRKFRRRKEK 11 Unmodified _YFRKFRRRKEK_ 0 0 0 nc|ENSG00000102001|O60840-4|CACNA1F;nc|ENSG00000102001|O60840-5|CACNA1F;nc|ENSG00000102001|O60840-7|CACNA1F;nc|ENSG00000102001|O60840-6|CACNA1F;ENSG00000102001|ENST00000323022|CACNA1F;nc|ENSG00000102001|O60840|CACNA1F nc|ENSG00000102001|O60840-4|CACNA1F nc|ENSG00000102001|O60840-4|CACNA1F MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 807.47802734375 2 807.4786 1612.94265 NaN NaN NaN NaN NaN NaN NaN 45.876 1 46.141 45.641 46.641 0.26561 0 0 0 1.0082 1 20975 20975 0 0 1 38585 9577 24526 24602 43245 43245 0.16069370093305224 YFRLRPLRF 9 Unmodified _YFRLRPLRF_ 0 0 0 ENSG00000099812|ENST00000215582|MISP ENSG00000099812|ENST00000215582|MISP ENSG00000099812|ENST00000215582|MISP MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.1755676269531 3 423.252258 1266.73495 2.9932 0.0012669 -0.056861 -2.4067E-05 2.9364 0.0012428 423.5864885445393 39.904 0.18845 40.171 40.01 40.199 0.26696 7 5 2 0 0 0 0.11393 1 18142 18142 0.23584 0 1 377570 38586 1152 24527 24603 43246 43246 0.11224787896094313 YFRRKEKMFRF 11 Unmodified _YFRRKEKMFRF_ 0 0 0 nc|ENSG00000148408|Q00975-2|CACNA1B;ENSG00000148408|ENST00000371372|CACNA1B nc|ENSG00000148408|Q00975-2|CACNA1B nc|ENSG00000148408|Q00975-2|CACNA1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 804.4346313476562 2 804.435012 1606.85547 NaN NaN NaN NaN NaN NaN NaN 61.377 1 62.039 61.539 62.539 0.66261 0 0 0 1.008 1 28107 28107 0.35063 0.35063 1 38587 3605 24528 24604 43247 43247 0.07631827827390225 YFRRVPRDWRP 11 Unmodified _YFRRVPRDWRP_ 0 0 0 ENST00000438748.5_1_2:113299624-113300117:+|nuORF;ENST00000263331.9_1_2:113299748-113300117:+|nuORF ENST00000438748.5_1_2:113299624-113300117:+|nuORF ENST00000438748.5_1_2:113299624-113300117:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 774.4213256835938 2 774.420751 1546.82695 NaN NaN NaN NaN NaN NaN NaN 50.99 1 51.251 50.751 51.751 0.26146 0 0 0 1.008 1 23303 23303 0.35063 0 1 38588 6588 24529 24605 43248 43248 0.07540846242500265 YFSFWWWWWKG 11 Unmodified _YFSFWWWWWKG_ 0 0 0 ENST00000300134.7_1_12:57504946-57505147:-|nuORF ENST00000300134.7_1_12:57504946-57505147:-|nuORF ENST00000300134.7_1_12:57504946-57505147:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 839.8862915039062 2 839.885147 1677.75574 NaN NaN NaN NaN NaN NaN NaN 83.523 1 83.77 83.27 84.27 0.24722 0 0 0 1.0082 1 38445 38445 0 0 1 38589 6793 24530 24606 43249 43249 -0.056026665148920074 YFSQRGSS 8 Unmodified _YFSQRGSS_ 0 0 0 REV__nc|ENSG00000132958|Q6XPS3-4|TPTE2 REV__nc|ENSG00000132958|Q6XPS3-4|TPTE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 311.1474609375 3 311.147125 930.419545 NaN NaN NaN NaN NaN NaN NaN 57.328 1 57.328 56.828 57.828 0 0 0 0 0.99035 1 26420 26420 1.6526 1.1943 1 + 38590 11916 24531 24607 43250 43250 -0.048448356931316994 YFSQRGSS 8 Unmodified _YFSQRGSS_ 0 0 0 REV__nc|ENSG00000132958|Q6XPS3-4|TPTE2 REV__nc|ENSG00000132958|Q6XPS3-4|TPTE2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 311.14801025390625 3 311.147125 930.419545 NaN NaN NaN NaN NaN NaN NaN 51.973 1 52.235 51.735 52.735 0.26227 0 0 0 0.99035 1 23758 23758 1.6526 0.17072 1 + 38591 11916 24531 24607 43251 43251 -0.048448356931316994 YFTLRSAFNI 10 Unmodified _YFTLRSAFNI_ 0 0 0 nc|ENSG00000070882|Q9H4L5-8|OSBPL3;nc|ENSG00000070882|Q9H4L5-7|OSBPL3;nc|ENSG00000070882|Q9H4L5-6|OSBPL3;nc|ENSG00000070882|Q9H4L5-5|OSBPL3;nc|ENSG00000070882|Q9H4L5-4|OSBPL3;nc|ENSG00000070882|Q9H4L5-3|OSBPL3;nc|ENSG00000070882|Q9H4L5-2|OSBPL3;ENSG00000070882|ENST00000313367|OSBPL3 nc|ENSG00000070882|Q9H4L5-8|OSBPL3 nc|ENSG00000070882|Q9H4L5-8|OSBPL3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 411.5557556152344 3 411.220513 1230.63971 2.6888 0.0011057 -0.14134 -5.8121E-05 2.5474 0.0010476 411.22047950452276 37.359 0.27571 38.155 38.022 38.298 0.79552 25 12 3 0 0 0 0.28649 1 16920 16920 19.626 0 1 416770 38592 773 24532 24608 43252 43252 0.03361389914425672 YFWLKQLSLLG 11 Unmodified _YFWLKQLSLLG_ 0 0 0 REV__nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 REV__nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 456.9310607910156 3 456.595579 1366.76491 2.5749 0.0011757 0.085782 3.9167E-05 2.6606 0.0012148 456.9299070834617 34.268 0.27022 35.057 34.911 35.181 0.78921 33 14 3 0 0 0 0.78292 1 15494 15494 3.8459 1.4111 1 682510 + 38593 11825 24533 24609 43253 43253 0.0961968205078847 YFWLKQLSLLG 11 Unmodified _YFWLKQLSLLG_ 0 0 0 REV__nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 REV__nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 456.5965881347656 3 456.595579 1366.76491 2.7377 0.00125 0.16046 7.3265E-05 2.8981 0.0013233 456.930153091087 34.97 0.16238 35.225 35.158 35.32 0.25524 14 11 2 0 0 0 0.78292 1 15951 15951 3.8459 0.52627 1 1298200 + 38594 11825 24533 24609 43254 43254 0.0961968205078847 YFWLKQLSLLG 11 Unmodified _YFWLKQLSLLG_ 0 0 0 REV__nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 REV__nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 456.59674072265625 3 456.595579 1366.76491 2.9315 0.0013385 -0.17711 -8.087E-05 2.7544 0.0012576 456.5954653243742 34.61 0.25893 35.233 35.051 35.31 0.62294 20 10 3 0 0 0 0.78292 1 15825 15825 3.8459 1.4111 1 790170 + 38595 11825 24533 24609 43255 43255 0.0961968205078847 YFWNIHELWYF 11 Unmodified _YFWNIHELWYF_ 0 0 0 nc|ENSG00000134955|Q8TED4-3|SLC37A2;ENST00000526405.5_1_11:124933263-124955028:+|nuORF;ENSG00000134955|ENST00000403796|SLC37A2;nc|ENSG00000134955|Q8TED4-2|SLC37A2 nc|ENSG00000134955|Q8TED4-3|SLC37A2 nc|ENSG00000134955|Q8TED4-3|SLC37A2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 809.0498657226562 2 809.379894 1616.74524 NaN NaN NaN NaN NaN NaN NaN 43.173 1 43.821 43.321 44.321 0.64872 0 0 0 1.0082 1 19785 19785 0 0 1 38596 8675 24534 24610 43256 43256 -0.03846693959962977 YFWRIAWRFWR 11 Unmodified _YFWRIAWRFWR_ 0 0 0 ENST00000419746.5_1_2:179403628-179404009:+|nuORF ENST00000419746.5_1_2:179403628-179404009:+|nuORF ENST00000419746.5_1_2:179403628-179404009:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 562.96630859375 3 562.965 1685.87317 NaN NaN NaN NaN NaN NaN NaN 92.19 1 92.273 91.773 92.773 0.082848 0 0 0 1.0082 1 47980 47980 0 0 1 38597 7744 24535 24611 43257 43257 0.057669111445648014 YFWSYHQMYFC 11 Unmodified _YFWSYHQMYFC_ 0 0 0 REV__ENST00000441222.7_1_4:53463611-53463788:-|nuORF REV__ENST00000441222.7_1_4:53463611-53463788:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 787.8184814453125 2 787.815215 1573.61588 NaN NaN NaN NaN NaN NaN NaN 13.496 1 14.141 13.641 14.641 0.64499 0 0 0 1.0082 1 6063 6063 0.26902 0.26902 1 + 38598 16345 24536 24612 43258 43258 -0.14798534905912675 YFYHKLLQWSK 11 Unmodified _YFYHKLLQWSK_ 0 0 0 ENSG00000173769|ENST00000309765|TOPAZ1 ENSG00000173769|ENST00000309765|TOPAZ1 ENSG00000173769|ENST00000309765|TOPAZ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 756.9034423828125 2 756.903537 1511.79252 NaN NaN NaN NaN NaN NaN NaN 28.799 1 28.799 28.299 29.299 0 0 0 0 1.0082 1 12991 12991 0 0 1 38599 4951 24537 24613 43259 43259 0.05709585311024057 YFYHLLHIII 10 Unmodified _YFYHLLHIII_ 0 0 0 ENSG00000198919|ENST00000361582|DZIP3;ENST00000495008.5_1_3:108355483-108366962:+|nuORF ENSG00000198919|ENST00000361582|DZIP3 ENSG00000198919|ENST00000361582|DZIP3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 666.3804321289062 2 666.379166 1330.74378 NaN NaN NaN NaN NaN NaN NaN 61.296 1 61.549 61.049 62.049 0.25245 0 0 0 1.0015 1 28071 28071 0.45834 0 1 38600 5963 24538 24614 43260 43260 0.09163716741954886 YFYMYRIEWFT 11 Unmodified _YFYMYRIEWFT_ 0 0 0 REV__nc|ENSG00000196712|P21359-5|NF1 REV__nc|ENSG00000196712|P21359-5|NF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 809.8731689453125 2 809.873588 1617.73262 NaN NaN NaN NaN NaN NaN NaN 54.607 1 54.873 54.373 55.373 0.26543 0 0 0 1.008 1 24961 24961 0.35063 0.35063 1 + 38601 18092 24539 24615 43261 43261 -0.05153473414520704 YFYNPTFEWYW 11 Unmodified _YFYNPTFEWYW_ 0 0 0 ENSG00000164187|ENST00000296603|LMBRD2 ENSG00000164187|ENST00000296603|LMBRD2 ENSG00000164187|ENST00000296603|LMBRD2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 807.87451171875 2 808.34826 1614.68197 NaN NaN NaN NaN NaN NaN NaN 81.469 1 81.553 81.053 82.053 0.084106 0 0 0 1.008 1 40051 40051 0.35063 0 1 38602 4292 24540 24616 43262 43262 -0.10078679467846996 YFYRRHDRDWH 11 Unmodified _YFYRRHDRDWH_ 0 0 0 REV__nc|ENSG00000109920|Q8N3X1-2|FNBP4 REV__nc|ENSG00000109920|Q8N3X1-2|FNBP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 825.8870849609375 2 825.887272 1649.75999 NaN NaN NaN NaN NaN NaN NaN 83.895 1 83.895 83.395 84.395 0 0 0 0 1.0082 1 42351 42351 0 0 1 + 38603 11189 24541 24617 43263 43263 -0.038898090392649465 YGDCSCHD 8 Unmodified _YGDCSCHD_ 0 0 0 REV__ENSG00000099139|ENST00000674117|PCSK5 REV__ENSG00000099139|ENST00000674117|PCSK5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 450.1376953125 2 450.136553 898.258552 2.9255 0.0013169 -1.5032 -0.00067664 1.4223 0.00064021 450.1357538415322 53.021 0.35972 53.021 52.807 53.167 0 28 19 2 0 0 0 0.7471 1 24258 24258 0 0 1 386970 + 38604 10779 24542 24618 43264 43264 -0.19464669393050826 YGDCSCHD 8 Unmodified _YGDCSCHD_ 0 0 0 REV__ENSG00000099139|ENST00000674117|PCSK5 REV__ENSG00000099139|ENST00000674117|PCSK5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 450.1368713378906 2 450.136553 898.258552 2.885 0.0012986 -1.7057 -0.00076782 1.1792 0.00053082 450.1357474921122 52.727 0.22894 52.991 52.824 53.053 0.26344 15 8 2 0 0 0 0.7471 1 24085 24085 0 0 1 355950 + 38605 10779 24542 24618 43265 43265 -0.19464669393050826 YGDCSCHD 8 Unmodified _YGDCSCHD_ 0 0 0 REV__ENSG00000099139|ENST00000674117|PCSK5 REV__ENSG00000099139|ENST00000674117|PCSK5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 450.1375427246094 2 450.136553 898.258552 2.8972 0.0013042 -0.7802 -0.0003512 2.117 0.00095296 450.1360118121893 52.355 0.21323 53.017 52.958 53.171 0.66198 13 9 2 0 0 0 0.7471 1 23964 23964 0 0 1 297830 + 38606 10779 24542 24618 43266 43266 -0.19464669393050826 YGDCSCHD 8 Unmodified _YGDCSCHD_ 0 0 0 REV__ENSG00000099139|ENST00000674117|PCSK5 REV__ENSG00000099139|ENST00000674117|PCSK5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 450.136553 898.258552 2.9255 0.0013169 -1.5032 -0.00067664 1.4223 0.00064021 450.1357538415322 53.021 0.35972 53.021 52.807 53.167 0 0.011437 -1.5683E-05 NaN 0 28 19 2 NaN NaN NaN NaN 0 NaN NaN 0 386970 + 38607 10779 24542 24618 -0.19464669393050826 YGDCSCHD 8 Unmodified _YGDCSCHD_ 0 0 0 REV__ENSG00000099139|ENST00000674117|PCSK5 REV__ENSG00000099139|ENST00000674117|PCSK5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 450.136553 898.258552 2.885 0.0012986 -1.7057 -0.00076782 1.1792 0.00053082 450.1357474921122 52.727 0.22894 52.991 52.824 53.053 0.26344 -0.018675 -0.00019803 NaN 0 15 8 2 NaN NaN NaN NaN 0 NaN NaN 0 355950 + 38608 10779 24542 24618 -0.19464669393050826 YGDCSCHD 8 Unmodified _YGDCSCHD_ 0 0 0 REV__ENSG00000099139|ENST00000674117|PCSK5 REV__ENSG00000099139|ENST00000674117|PCSK5 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 450.136553 898.258552 2.8972 0.0013042 -0.7802 -0.0003512 2.117 0.00095296 450.1360118121893 52.355 0.21323 53.017 52.958 53.171 0.66198 0.0072389 0.00063521 NaN 0 13 9 2 NaN NaN NaN NaN 0 NaN NaN 0 297830 + 38609 10779 24542 24618 -0.19464669393050826 YGFEKPSAI 9 Unmodified _YGFEKPSAI_ 0 0 0 ENSG00000141543|ENST00000649764|EIF4A3;ENSG00000156976|ENST00000323963|EIF4A2;nc|ENSG00000156976|Q14240-2|EIF4A2;ENST00000465222.1_1_3:186502277-186502505:+|nuORF;ENST00000485101.5_1_3:186501384-186502505:+|nuORF;ENST00000486805.5_1_3:186501384-186502505:+|nuORF;ENST00000584054.5_1_17:7476159-7478064:+|nuORF;ENST00000467585.1_1_3:186502182-186503751:+|nuORF;ENST00000575957.1_1_17:78115565-78120760:-|nuORF;ENST00000465032.5_1_3:186501384-186502902:+|nuORF;ENST00000465267.5_1_3:186501384-186502902:+|nuORF;ENSG00000161960|ENST00000293831|EIF4A1;ENST00000578324.5_1_17:7477602-7481249:+|nuORF;nc|ENSG00000161960|P60842-2|EIF4A1;ENST00000581621.1_1_17:7476159-7481249:+|nuORF;ENST00000584901.5_1_17:7476159-7480015:+|nuORF;ENST00000584712.5_1_17:7476159-7478717:+|nuORF;ENST00000582848.5_1_17:7476159-7480015:+|nuORF;ENST00000580461.5_1_17:7476163-7478717:+|nuORF ENSG00000141543|ENST00000649764|EIF4A3;ENSG00000161960|ENST00000293831|EIF4A1 ENSG00000161960|ENST00000293831|EIF4A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 506.26348876953125 2 506.260925 1010.5073 NaN NaN NaN NaN NaN NaN NaN 43.463 1 44.111 43.611 44.611 0.64872 0 0 0 0.19548 1 19914 19914 31.268 12.011 1 38610 4112;3267 24543 24619 43267 43267 0.0024636517761109644 YGFPQPRL 8 Unmodified _YGFPQPRL_ 0 0 0 ENSG00000144233|ENST00000272647|AMMECR1L ENSG00000144233|ENST00000272647|AMMECR1L ENSG00000144233|ENST00000272647|AMMECR1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 489.265869140625 2 489.263802 976.513051 3.3071 0.0016181 2.3901 0.0011694 5.6972 0.0027875 489.2648145256252 49.646 0.44191 50.469 50.194 50.636 0.82285 42 23 2 0 0 0 0.45037 2 22618 22570;22618 24.674 1.5255 1 1373100 38611 3415 24544 24620 43268;43269 43269 0.023855084799379256 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 830.2681274414062 1 829.266875 828.259598 3.9083 0.003241 -1.3932 -0.0011553 2.5151 0.0020857 829.2665745671038 0.31582 0.32013 0.31582 0.19798 0.51811 0 60 36 2 0 0 0 0.7471 3 107 107;160;200 0 0 1 80785 38612 3070 24545 24621 43270;43271;43272 43270 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 830.2711791992188 1 829.266875 828.259598 3.9088 0.0032414 -0.69703 -0.00057803 3.2118 0.0026634 829.2672744465712 3.9732 0.55822 3.9732 3.7981 4.3563 0 84 60 2 0 0 0 0.7471 5 1771 1771;1796;1813;1853;1940 0 0 1 48456 38613 3070 24545 24621 43273;43274;43275;43276;43277 43273 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 829.272216796875 1 829.266875 828.259598 3.9085 0.0032412 -0.52256 -0.00043334 3.386 0.0028079 829.2669036586487 5.2593 0.47417 5.2593 4.9101 5.3843 0 81 58 2 0 0 0 0.7471 4 2266 2266;2347;2387;2427 0 0 1 59441 38614 3070 24545 24621 43278;43279;43280;43281 43278 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 829.2705078125 1 829.266875 828.259598 3.9085 0.0032412 -0.83774 -0.00069471 3.0707 0.0025465 829.2671918915889 7.8187 0.7784 7.8187 7.4786 8.257 0 143 85 2 0 0 0 0.7471 10 3389 3389;3435;3456;3478;3523;3564;3580;3604;3647;3678 0 0 1 55204 38615 3070 24545 24621 43282;43283;43284;43285;43286;43287;43288;43289;43290;43291 43282 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 830.271240234375 1 829.266875 828.259598 3.9088 0.0032414 -1.0132 -0.00084019 2.8956 0.0024012 829.2675735684196 11.651 0.19272 11.651 11.601 11.794 0 65 43 2 0 0 0 0.7471 3 5059 5059;5076;5112 0 0 1 64573 38616 3070 24545 24621 43292;43293;43294 43292 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 829.2691650390625 1 829.266875 828.259598 3.9084 0.0032411 -1.4961 -0.0012406 2.4123 0.0020005 829.2663449743364 12.136 0.097676 12.136 12.072 12.169 0 30 23 2 0 0 0 0.7471 1 5255 5255 0 0 1 80037 38617 3070 24545 24621 43295 43295 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 829.2708129882812 1 829.266875 828.259598 3.9086 0.0032413 -1.6849 -0.0013972 2.2238 0.0018441 829.2662103233145 10.004 0.095525 10.004 9.9444 10.04 0 22 18 2 0 0 0 0.14355 1 4491 4491 0 0 1 45266 38618 3070 24545 24621 43296 43296 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 829.26953125 1 829.266875 828.259598 3.0982 0.0025693 -0.45349 -0.00037607 2.6448 0.0021932 829.2673766689353 1.268 0.61551 1.6616 1.4207 2.0363 0.39356 104 63 2 0 0 0 0.7471 10 494 494;507;532;565;574;614;631;654;697;739 0 0 1 64681 38619 3070 24545 24621 43297;43298;43299;43300;43301;43302;43303;43304;43305;43306 43297 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 830.2705688476562 1 829.266875 828.259598 3.0996 0.0025704 -1.7579 -0.0014578 1.3418 0.0011127 829.2679013850401 2.0649 0.5836 2.4514 2.1308 2.7144 0.38641 121 60 3 0 0 0 0.7471 6 829 829;902;964;975;1008;1048 0 0 1 73333 38620 3070 24545 24621 43307;43308;43309;43310;43311;43312 43307 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 829.2687377929688 1 829.266875 828.259598 3.0983 0.0025693 -0.041492 -3.4408E-05 3.0568 0.0025349 829.2676984464041 3.8582 0.49158 4.2345 4.0958 4.5874 0.37632 73 53 2 0 0 0 0.7471 7 1689 1689;1736;1782;1787;1828;1871;1909 0 0 1 48658 38621 3070 24545 24621 43313;43314;43315;43316;43317;43318;43319 43313 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 829.2694091796875 1 829.266875 828.259598 3.0994 0.0025702 -1.58 -0.0013102 1.5195 0.00126 829.267689959335 4.3636 0.78858 4.7286 4.3723 5.1609 0.36497 167 84 3 0 0 0 0.7471 5 1953 1953;1993;2005;2078;2120 0 0 1 85422 38622 3070 24545 24621 43320;43321;43322;43323;43324 43320 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 830.2694091796875 1 829.266875 828.259598 3.0984 0.0025694 -0.49069 -0.00040692 2.6077 0.0021625 829.267402325822 5.6992 0.72613 6.052 5.863 6.5891 0.35278 155 92 2 0 0 0 0.7471 9 2520 2520;2541;2584;2627;2676;2716;2723;2760;2801 0 0 1 54477 38623 3070 24545 24621 43325;43326;43327;43328;43329;43330;43331;43332;43333 43325 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 829.2713012695312 1 829.266875 828.259598 3.0984 0.0025694 -0.34114 -0.00028289 2.7573 0.0022865 829.2677660850981 7.0966 0.62348 7.4363 7.1818 7.8053 0.33974 128 80 2 0 0 0 0.7471 10 3091 3091;3129;3172;3209;3249;3254;3290;3296;3340;3352 0 0 1 47304 38624 3070 24545 24621 43334;43335;43336;43337;43338;43339;43340;43341;43342;43343 43334 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 829.269775390625 1 829.266875 828.259598 3.0982 0.0025692 -0.93563 -0.00077588 2.1626 0.0017934 829.2667009847457 9.6126 0.15467 9.9082 9.8809 10.036 0.2956 38 26 2 0 0 0 0.7471 2 4280 4280;4323 0 0 1 58821 38625 3070 24545 24621 43344;43345 43344 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 830.269775390625 1 829.266875 828.259598 3.0985 0.0025694 -0.73827 -0.00061223 2.3602 0.0019572 829.2673154354424 11.698 0.15738 11.977 11.912 12.069 0.2792 54 32 2 0 0 0 0.7471 2 5062 5062;5093 0 0 1 66616 38626 3070 24545 24621 43346;43347 43346 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 829.2694091796875 1 829.266875 828.259598 3.0985 0.0025695 -0.93486 -0.00077525 2.1636 0.0017942 829.2677370794827 11.863 0.1968 12.125 12.046 12.243 0.26154 57 44 2 0 0 0 0.7471 2 5123 5123;5164 0 0 1 58897 38627 3070 24545 24621 43348;43349 43348 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 829.2708129882812 1 829.266875 828.259598 3.5418 0.0029371 -0.96204 -0.00079779 2.5798 0.0021393 829.2671850775793 16.192 0.50192 16.403 16.071 16.573 0.21108 104 80 2 0 0 0 0.7471 3 7119 7119;7124;7161 0 0 1 73262 38628 3070 24545 24621 43350;43351;43352 43350 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 829.26953125 1 829.266875 828.259598 3.0753 0.0025503 -0.03375 -2.7988E-05 3.0416 0.0025223 829.2675248847945 0.54904 0.33308 0.85315 0.63948 0.97256 0.30411 60 36 2 0 0 0 0.7471 3 177 177;222;268 0 0 1 67230 38629 3070 24545 24621 43353;43354;43355 43353 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 829.2686767578125 1 829.266875 828.259598 3.0775 0.002552 -1.7292 -0.0014339 1.3483 0.0011181 829.2679378505181 3.8584 0.61717 4.1626 3.8479 4.4651 0.3042 120 61 3 0 0 0 0.7471 5 1638 1638;1658;1729;1750;1844 0 0 1 58479 38630 3070 24545 24621 43356;43357;43358;43359;43360 43356 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 829.2717895507812 1 829.266875 828.259598 3.0775 0.0025521 -1.4271 -0.0011834 1.6505 0.0013687 829.2680308751312 4.3222 0.35958 4.6268 4.473 4.8326 0.30465 86 40 3 0 0 0 0.7471 2 1909 1909;1956 0 0 1 40187 38631 3070 24545 24621 43361;43362 43361 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 830.2703857421875 1 829.266875 828.259598 3.0774 0.002552 -1.7214 -0.0014275 1.356 0.0011245 829.2680781952012 4.9144 0.52358 5.219 4.9653 5.4889 0.30465 108 59 3 0 0 0 0.7471 3 2206 2206;2278;2333 0 0 1 61125 38632 3070 24545 24621 43363;43364;43365 43363 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 830.2711791992188 1 829.266875 828.259598 3.0757 0.0025506 -0.48795 -0.00040464 2.5877 0.0021459 829.2674410605562 5.7635 0.87394 6.0687 5.874 6.748 0.30519 135 89 2 0 0 0 0.7471 10 2550 2550;2557;2602;2649;2689;2695;2740;2789;2837;2924 0 0 1 49551 38633 3070 24545 24621 43366;43367;43368;43369;43370;43371;43372;43373;43374;43375 43366 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 831.2714233398438 1 829.266875 828.259598 3.0769 0.0025516 -1.5157 -0.001257 1.5612 0.0012946 829.2675860714332 8.3758 0.6101 8.682 8.2568 8.8669 0.30618 104 52 3 0 0 0 0.7471 5 3717 3717;3738;3760;3785;3825 0 0 1 78145 38634 3070 24545 24621 43376;43377;43378;43379;43380 43376 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 829.2711791992188 1 829.266875 828.259598 3.0775 0.0025521 -1.8891 -0.0015666 1.1884 0.00098549 829.2680447534724 10.424 0.55759 10.731 10.564 11.121 0.30699 148 71 3 0 0 0 0.7471 7 4673 4673;4701;4721;4752;4765;4806;4829 0 0 1 62807 38635 3070 24545 24621 43381;43382;43383;43384;43385;43386;43387 43381 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 829.2681884765625 1 829.266875 828.259598 3.0754 0.0025503 -0.75187 -0.0006235 2.3235 0.0019268 829.2670778264811 12.068 0.10209 12.376 12.335 12.437 0.30727 26 22 2 0 0 0 0.7471 1 5420 5420 0 0 1 59296 38636 3070 24545 24621 43388 43388 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 829.2694091796875 1 829.266875 828.259598 3.6551 0.003031 -1.7354 -0.0014391 1.9197 0.0015919 829.2665568954052 14.864 0.2945 15.17 15.02 15.314 0.3069 30 27 2 0 0 0 0.7471 2 6735 6735;6779 0 0 1 44489 38637 3070 24545 24621 43389;43390 43389 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 829.2698364257812 1 829.266875 828.259598 3.6622 0.003037 -1.2238 -0.0010148 2.4385 0.0020222 829.2667695109103 15.361 0.62167 15.667 15.444 16.066 0.306 96 67 2 0 0 0 0.7471 6 6855 6855;6894;6946;6995;7038;7080 0 0 1 57414 38638 3070 24545 24621 43391;43392;43393;43394;43395;43396 43391 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 829.2680053710938 1 829.266875 828.259598 3.6674 0.0030412 -1.348 -0.0011179 2.3193 0.0019234 829.2665842677004 15.89 0.3765 16.196 16.019 16.395 0.306 68 44 2 0 0 0 0.7471 5 7130 7130;7139;7172;7229;7261 0 0 1 51187 38639 3070 24545 24621 43397;43398;43399;43400;43401 43397 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 829.271240234375 1 829.266875 828.259598 4.3331 0.0035933 -0.70204 -0.00058218 3.6311 0.0030111 829.2670447335065 2.0433 0.48757 2.6649 2.3777 2.8653 0.62158 69 44 2 0 0 0 0.7471 5 808 808;852;891;935;982 0 0 1 53400 38640 3070 24545 24621 43402;43403;43404;43405;43406 43402 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 829.2713012695312 1 829.266875 828.259598 4.3338 0.0035939 -0.81211 -0.00067345 3.5217 0.0029204 829.2672921956117 6.0124 0.94949 6.636 6.4515 7.401 0.62357 136 83 2 0 0 0 0.7471 8 2684 2684;2745;2838;2881;2918;2933;2980;3032 0 0 1 34058 38641 3070 24545 24621 43407;43408;43409;43410;43411;43412;43413;43414 43407 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 829.2728271484375 1 829.266875 828.259598 4.3335 0.0035936 -0.62016 -0.00051428 3.7133 0.0030794 829.2678121798052 11.259 0.21377 11.892 11.812 12.025 0.63304 53 30 2 0 0 0 0.7471 1 5056 5056 0 0 1 45215 38642 3070 24545 24621 43415 43415 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 829.2708129882812 1 829.266875 828.259598 4.3335 0.0035936 -1.5587 -0.0012926 2.7747 0.002301 829.2665396766156 11.899 0.21994 12.536 12.446 12.666 0.63746 76 50 2 0 0 0 0.7471 2 5305 5305;5343 0 0 1 66805 38643 3070 24545 24621 43416;43417 43416 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 829.2710571289062 1 829.266875 828.259598 4.0076 0.0033234 -1.082 -0.00089724 2.9256 0.0024261 829.2669787534678 15.432 0.060956 16.086 16.041 16.102 0.65356 15 10 2 0 0 0 0.7471 1 6953 6953 0 0 1 38236 38644 3070 24545 24621 43418 43418 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 830.271728515625 1 829.266875 828.259598 3.998 0.0033154 -1.1373 -0.00094316 2.8606 0.0023722 829.2667905280111 15.957 0.55494 16.615 16.205 16.76 0.65798 86 72 2 0 0 0 0.7471 4 7087 7087;7136;7181;7214 0 0 1 42786 38645 3070 24545 24621 43419;43420;43421;43422 43419 -0.1614013175250193 YGGDDCAE 8 Unmodified _YGGDDCAE_ 0 0 0 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 ENSG00000138080|ENST00000380320|EMILIN1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 829.266875 828.259598 3.9086 0.0032413 -2.1961 -0.0018211 1.7125 0.0014201 829.2660898200285 12.212 0.081847 12.212 12.179 12.26 0 0.11762 -0.00081761 NaN 0 23 15 2 NaN NaN NaN NaN 0 NaN NaN 0 63299 38646 3070 24545 24621 -0.1614013175250193 YGHLELIQL 9 Unmodified _YGHLELIQL_ 0 0 0 nc|ENSG00000169919|P08236-3|GUSB;GUSB|p.Q568Lfs*24|1|0.45|ENSG00000169919|chr7:65964403-65964409|TGGTACT/-|frameshift_variant;nc|ENSG00000169919|P08236-2|GUSB;ENSG00000169919|ENST00000304895|GUSB;ENST00000461622.1_1_7:65429142-65432870:-|nuORF nc|ENSG00000169919|P08236-3|GUSB nc|ENSG00000169919|P08236-3|GUSB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 543.3057250976562 2 543.303124 1084.5917 2.8575 0.0015525 0.51358 0.00027903 3.3711 0.0018315 543.3033187007537 70.96 0.26939 70.96 70.839 71.109 0 69 27 3 0 0 0 0.028312 2 34454 34454;34507 57.471 9.1255 1 3259000 38647 4721 24546 24622 43423;43424 43423 0.052783159944056024 YGHLELIQL 9 Unmodified _YGHLELIQL_ 0 0 0 nc|ENSG00000169919|P08236-3|GUSB;GUSB|p.Q568Lfs*24|1|0.45|ENSG00000169919|chr7:65964403-65964409|TGGTACT/-|frameshift_variant;nc|ENSG00000169919|P08236-2|GUSB;ENSG00000169919|ENST00000304895|GUSB;ENST00000461622.1_1_7:65429142-65432870:-|nuORF nc|ENSG00000169919|P08236-3|GUSB nc|ENSG00000169919|P08236-3|GUSB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 543.3036499023438 2 543.303124 1084.5917 2.5726 0.0013977 0.34536 0.00018763 2.9179 0.0015853 543.3035763239967 70.029 0.23756 70.732 70.633 70.871 0.70302 58 31 2 0 0 0 0.035095 1 33568 33568 53.576 9.1686 1 3030700 38648 4721 24546 24622 43425 43425 0.052783159944056024 YGHLELIQL 9 Unmodified _YGHLELIQL_ 0 0 0 nc|ENSG00000169919|P08236-3|GUSB;GUSB|p.Q568Lfs*24|1|0.45|ENSG00000169919|chr7:65964403-65964409|TGGTACT/-|frameshift_variant;nc|ENSG00000169919|P08236-2|GUSB;ENSG00000169919|ENST00000304895|GUSB;ENST00000461622.1_1_7:65429142-65432870:-|nuORF nc|ENSG00000169919|P08236-3|GUSB nc|ENSG00000169919|P08236-3|GUSB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.30419921875 2 543.303124 1084.5917 3.1753 0.0017251 -0.1462 -7.9431E-05 3.0291 0.0016457 543.3030325842598 70.871 0.29001 71.127 70.977 71.267 0.25642 60 23 3 0 0 0 0.0080831 3 32465 32417;32465;32509 85.357 10.934 1 2993300 38649 4721 24546 24622 43426;43427;43428 43427 0.052783159944056024 YGHLELIQL 9 Unmodified _YGHLELIQL_ 0 0 0 nc|ENSG00000169919|P08236-3|GUSB;GUSB|p.Q568Lfs*24|1|0.45|ENSG00000169919|chr7:65964403-65964409|TGGTACT/-|frameshift_variant;nc|ENSG00000169919|P08236-2|GUSB;ENSG00000169919|ENST00000304895|GUSB;ENST00000461622.1_1_7:65429142-65432870:-|nuORF nc|ENSG00000169919|P08236-3|GUSB nc|ENSG00000169919|P08236-3|GUSB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.305908203125 2 543.303124 1084.5917 3.0215 0.0016416 0.60595 0.00032921 3.6274 0.0019708 543.3033450736676 70.318 0.28402 70.98 70.853 71.137 0.66209 45 15 4 0 0 0 0.020718 2 32224 32224;32267 67.344 7.5383 1 3791600 38650 4721 24546 24622 43429;43430 43429 0.052783159944056024 YGKKILEL 8 Unmodified _YGKKILEL_ 0 0 0 REV__ENSG00000125730|ENST00000245907|C3 REV__ENSG00000125730|ENST00000245907|C3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 321.867919921875 3 321.867299 962.580068 2.2508 0.00072447 0.96096 0.0003093 3.2118 0.0010338 321.8673611459081 39.23 0.31677 39.868 39.712 40.029 0.63778 26 11 3 0 0 0 0.59268 1 17920 17920 10.824 0 1 645680 + 38651 11691 24547 24623 43431 43431 0.09728118971031563 YGKKLLREVF 10 Unmodified _YGKKLLREVF_ 0 0 0 REV__ENSG00000166598|ENST00000299767|HSP90B1 REV__ENSG00000166598|ENST00000299767|HSP90B1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 627.1878051757812 2 626.874248 1251.73394 NaN NaN NaN NaN NaN NaN NaN 56.677 1 57.454 56.954 57.954 0.77786 0 0 0 0.99687 1 25918 25918 4.3292 0.38484 1 + 38652 13251 24548 24624 43432 43432 0.11814528736545071 YGKRKLLEL 9 Unmodified _YGKRKLLEL_ 0 0 0 ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119922|ENST00000371826|IFIT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 373.9020690917969 3 373.901003 1118.68118 2.6939 0.0010073 -0.21154 -7.9096E-05 2.4824 0.00092815 373.90092020698967 28.697 0.37366 28.957 28.714 29.088 0.2602 78 29 4 0 0 0 0.020151 2 13007 13007;13048 70.332 45.45 1 2362100 38653 2173 24549 24625 43433;43434 43433 0.1265857067376146 YGKRKLLEL 9 Unmodified _YGKRKLLEL_ 0 0 0 ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119922|ENST00000371826|IFIT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.3496704101562 2 560.347866 1118.68118 3.5227 0.0019739 -0.20223 -0.00011332 3.3204 0.0018606 560.8492036459677 28.697 0.17484 28.957 28.799 28.974 0.2602 20 14 2 0 0 0 0.27958 1 13014 13014 18.146 6.5061 1 1026100 38654 2173 24549 24625 43435 43435 0.1265857067376146 YGKRKLLEL 9 Unmodified _YGKRKLLEL_ 0 0 0 ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119922|ENST00000371826|IFIT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.350341796875 2 560.347866 1118.68118 NaN NaN NaN NaN NaN NaN NaN 28.704 1 28.964 28.464 29.464 0.2602 0 0 0 0.40345 1 13058 13058 22.736 5.6234 1 38655 2173 24549 24625 43436 43436 0.1265857067376146 YGKRKLLEL 9 Unmodified _YGKRKLLEL_ 0 0 0 ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119922|ENST00000371826|IFIT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 373.9018249511719 3 373.901003 1118.68118 2.6069 0.00097471 0.011742 4.3905E-06 2.6186 0.0009791 373.9009889391742 28.206 0.45664 28.825 28.614 29.071 0.61947 79 31 3 0 0 0 0.038142 2 12922 12922;12970 55.503 37.64 1 2399600 38656 2173 24549 24625 43437;43438 43437 0.1265857067376146 YGKRKLLEL 9 Unmodified _YGKRKLLEL_ 0 0 0 ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119922|ENST00000371826|IFIT2 ENSG00000119922|ENST00000371826|IFIT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.35009765625 2 560.347866 1118.68118 3.4816 0.0019509 -0.040564 -2.273E-05 3.4411 0.0019282 560.3477616198973 28.227 0.31171 28.846 28.674 28.985 0.61947 40 21 2 0 0 0 0.21008 1 12936 12936 22.736 5.6234 1 323790 38657 2173 24549 24625 43439 43439 0.1265857067376146 YGKWRVKY 8 Unmodified _YGKWRVKY_ 0 0 0 REV__ENST00000538078.1_1_12:7592002-7592584:-|nuORF REV__ENST00000538078.1_1_12:7592002-7592584:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.9015808105469 3 367.206426 1098.59745 2.9835 0.0010956 0.31962 0.00011737 3.3031 0.0012129 367.20676182482214 10.62 0.56911 11.253 11.093 11.662 0.63304 113 51 3 0 0 0 0.14348 1 4760 4760 0.40072 0.1317 1 84657 + 38658 14196 24550 24626 43440 43440 0.052094592967023345 YGVQRTEL 8 Unmodified _YGVQRTEL_ 0 0 0 ENSG00000163453|ENST00000295666|IGFBP7;nc|ENSG00000163453|Q16270-2|IGFBP7;ENST00000512512.3_1_4:57897485-57931766:-|nuORF ENSG00000163453|ENST00000295666|IGFBP7 ENSG00000163453|ENST00000295666|IGFBP7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.25823974609375 2 483.256174 964.497795 3.1287 0.001512 0.61988 0.00029956 3.7486 0.0018115 483.2564728494814 28.647 0.24515 29.266 29.092 29.337 0.61947 15 11 2 0 0 0 0.68492 1 13107 13107 9.3831 2.66 1 138210 38659 4210 24551 24627 43441 43441 0.01412596892100737 YHCSVFWQL 9 Unmodified _YHCSVFWQL_ 0 0 0 REV__nc|ENSG00000129351|Q12906-3|ILF3 REV__nc|ENSG00000129351|Q12906-3|ILF3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.8537292480469 3 394.851543 1181.5328 NaN NaN NaN NaN NaN NaN NaN 14.529 1 14.529 14.029 15.029 0 0 0 0 0.90228 1 6401 6401 2.9952 0.26005 1 + 38660 17930 24552 24628 43442 43442 -0.0507048357160329 YHDEFKRWIYL 11 Unmodified _YHDEFKRWIYL_ 0 0 0 ENSG00000261609|ENST00000648994|GAN ENSG00000261609|ENST00000648994|GAN ENSG00000261609|ENST00000648994|GAN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 524.3895874023438 3 523.933143 1568.7776 NaN NaN NaN NaN NaN NaN NaN 57.027 1 57.027 56.527 57.527 0 0 0 0 1.008 1 26271 26271 0.094841 0 1 38661 6312 24553 24629 43443 43443 0.0159609344304954 YHDGKNQPSK 10 Unmodified _YHDGKNQPSK_ 0 0 0 ENSG00000171621|ENST00000328089|SPSB1 ENSG00000171621|ENST00000328089|SPSB1 ENSG00000171621|ENST00000328089|SPSB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.2874145507812 2 587.285994 1172.55744 3.4977 0.0020541 -1.9481 -0.0011441 1.5496 0.00091005 587.2850000632078 34.45 0.49667 35.073 34.755 35.251 0.62294 36 18 3 0 0 0 0.28649 2 15782 15782;15835 29.082 16.209 1 554410 38662 4822 24554 24630 43444;43445 43444 -0.021941321645499556 YHFVMQRL 8 Unmodified _YHFVMQRL_ 0 0 0 ENSG00000138435|ENST00000348749|CHRNA1;nc|ENSG00000138435|P02708-1|CHRNA1 ENSG00000138435|ENST00000348749|CHRNA1 ENSG00000138435|ENST00000348749|CHRNA1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.2840576171875 2 547.284211 1092.55387 NaN NaN NaN NaN NaN NaN NaN 95.276 1 95.544 95.044 96.044 0.2675 0 0 0 0.99035 1 43777 43777 0.79363 0 1 38663 3091 24555 24631 43446 43446 0.011295265279159139 YHKWRIYYKKR 11 Unmodified _YHKWRIYYKKR_ 0 0 0 nc|ENSG00000009950|Q9NP71-5|MLXIPL;nc|ENSG00000009950|Q9NP71-4|MLXIPL;nc|ENSG00000009950|Q9NP71-2|MLXIPL;nc|ENSG00000009950|Q9NP71-3|MLXIPL;ENSG00000009950|ENST00000313375|MLXIPL nc|ENSG00000009950|Q9NP71-5|MLXIPL nc|ENSG00000009950|Q9NP71-5|MLXIPL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 820.958984375 2 820.962252 1639.90995 NaN NaN NaN NaN NaN NaN NaN 96.052 1 96.052 95.552 96.552 0 0 0 0 1.0082 1 51882 51882 0 0 1 38664 391 24556 24632 43447 43447 0.1155916297047952 YHLPTQVQL 9 Unmodified _YHLPTQVQL_ 0 0 0 ENST00000550515.1_1_12:56537273-56537643:+|nuORF ENST00000550515.1_1_12:56537273-56537643:+|nuORF ENST00000550515.1_1_12:56537273-56537643:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 366.87054443359375 3 366.869591 1097.58694 2.7454 0.0010072 0.41296 0.0001515 3.1583 0.0011587 366.86958133273447 33.249 0.42955 33.503 33.255 33.685 0.25389 33 19 2 0 0 0 0.22507 1 15121 15121 20.415 0 1 592990 38665 8870 24557 24633 43448 43448 0.04205431851596586 YHLPTQVQL 9 Unmodified _YHLPTQVQL_ 0 0 0 ENST00000550515.1_1_12:56537273-56537643:+|nuORF ENST00000550515.1_1_12:56537273-56537643:+|nuORF ENST00000550515.1_1_12:56537273-56537643:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 366.8705749511719 3 366.869591 1097.58694 2.5049 0.00091896 0.53325 0.00019563 3.0381 0.0011146 366.8697021268597 32.716 0.40592 33.334 33.097 33.503 0.61831 34 17 3 0 0 0 0.3144 1 14973 14973 15.248 2.3759 1 630890 38666 8870 24557 24633 43449 43449 0.04205431851596586 YHLTLTKKK 9 Unmodified _YHLTLTKKK_ 0 0 0 nc|ENSG00000144452|Q86UK0-2|ABCA12;ENSG00000144452|ENST00000272895|ABCA12 nc|ENSG00000144452|Q86UK0-2|ABCA12 nc|ENSG00000144452|Q86UK0-2|ABCA12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.90277099609375 3 377.901003 1130.68118 2.6941 0.0010181 3.2477 0.0012273 5.9418 0.0022454 377.9020316424729 67.214 0.23377 67.871 67.721 67.955 0.65777 18 12 2 0 0 0 1.101 1 30822 30822 1.1933 0.12188 1 306420 38667 3426 24558 24634 43450 43450 0.12106570673745409 YHLTLTKKK 9 Unmodified _YHLTLTKKK_ 0 0 0 nc|ENSG00000144452|Q86UK0-2|ABCA12;ENSG00000144452|ENST00000272895|ABCA12 nc|ENSG00000144452|Q86UK0-2|ABCA12 nc|ENSG00000144452|Q86UK0-2|ABCA12 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 377.901003 1130.68118 3.0218 0.0011419 2.9871 0.0011288 6.0089 0.0022708 378.23666925184335 67.817 0.13312 68.069 67.994 68.127 0.25227 0.098802 -0.00016626 NaN 1.1933 12 7 2 NaN NaN NaN NaN 0 NaN NaN 0 306990 38668 3426 24558 24634 0.12106570673745409 YHLVELKAHP 10 Unmodified _YHLVELKAHP_ 0 0 0 REV__ENST00000433118.5_1_2:130917171-130932539:-|nuORF REV__ENST00000433118.5_1_2:130917171-130932539:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 603.8365478515625 2 603.835123 1205.65569 NaN NaN NaN NaN NaN NaN NaN 48.744 1 48.744 48.244 49.244 0 0 0 0 0.99687 1 22323 22323 4.3292 0 1 + 38669 12077 24559 24635 43451 43451 0.06109096151317317 YHMFRDLEQFR 11 Unmodified _YHMFRDLEQFR_ 0 0 0 REV__ENSG00000001629|ENST00000265742|ANKIB1 REV__ENSG00000001629|ENST00000265742|ANKIB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 771.3706665039062 2 771.369535 1540.72452 NaN NaN NaN NaN NaN NaN NaN 70.714 1 70.97 70.47 71.47 0.25642 0 0 0 1.008 1 32385 32385 0.30703 0 1 + 38670 9962 24560 24636 43452 43452 -0.024216076112907103 YHNYRERERER 11 Unmodified _YHNYRERERER_ 0 0 0 ZC3H18|p.E930Sfs*3|1|0.25|ENSG00000158545|chr16:88631224-88631224|G/-|frameshift_variant;ENSG00000158545|ENST00000301011|ZC3H18 ZC3H18|p.E930Sfs*3|1|0.25|ENSG00000158545|chr16:88631224-88631224|G/-|frameshift_variant ZC3H18|p.E930Sfs*3|1|0.25|ENSG00000158545|chr16:88631224-88631224|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 804.392822265625 2 804.392919 1606.77128 NaN NaN NaN NaN NaN NaN NaN 21.603 1 21.603 21.103 22.103 0 0 0 0 1.0082 1 9676 9676 0 0 1 38671 3989 24561 24637 43453 43453 -0.007830317357957028 YHQASRPV 8 Unmodified _YHQASRPV_ 0 0 0 REV__ENST00000268058.7_1_15:74337649-74338387:+|nuORF REV__ENST00000268058.7_1_15:74337649-74338387:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 319.547607421875 3 319.834881 956.482814 2.2223 0.00071075 1.6973 0.00054287 3.9196 0.0012536 319.8351908334227 14.753 0.19255 15.407 15.362 15.555 0.65356 22 15 2 0 0 0 0.14202 1 6658 6658 1.8442 0 1 120360 + 38672 15047 24562 24638 43454 43454 0.0028314981475432432 YHRWWFRKFLI 11 Unmodified _YHRWWFRKFLI_ 0 0 0 REV__ENST00000354179.8_2_5:176671236-176673694:+|nuORF REV__ENST00000354179.8_2_5:176671236-176673694:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 826.45263671875 2 826.454062 1650.89357 NaN NaN NaN NaN NaN NaN NaN 77.493 1 77.746 77.246 78.246 0.25335 0 0 0 1.0082 1 35688 35688 0 0 1 + 38673 15529 24563 24639 43455 43455 0.09416081804374699 YHSSPSHS 8 Unmodified _YHSSPSHS_ 0 0 0 REV__nc|ENSG00000170873|O43312-2|MTSS1 REV__nc|ENSG00000170873|O43312-2|MTSS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 301.13287353515625 3 301.131475 900.372594 NaN NaN NaN NaN NaN NaN NaN 49.144 1 49.8 49.3 50.3 0.65524 0 0 0 0.99035 1 22482 22482 1.8442 0 1 + 38674 13458 24564 24640 43456 43456 -0.08157695244278784 YHWWYRWWCVF 11 Unmodified _YHWWYRWWCVF_ 0 0 0 REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 866.3859252929688 2 866.387531 1730.76051 NaN NaN NaN NaN NaN NaN NaN 67.008 1 67.258 66.758 67.758 0.2501 0 0 0 1.0082 1 30696 30696 0 0 1 + 38675 16105 24565 24641 43457 43457 -0.07564105643791663 YHWWYRWWCVF 11 Unmodified _YHWWYRWWCVF_ 0 0 0 REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF REV__ENST00000410111.7_1_2:86406577-86422494:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 866.3870239257812 2 866.387531 1730.76051 NaN NaN NaN NaN NaN NaN NaN 83.103 1 83.35 82.85 83.85 0.24722 0 0 0 1.0082 1 38254 38254 0 0 1 + 38676 16105 24565 24641 43458 43458 -0.07564105643791663 YHYQEMQAL 9 Unmodified _YHYQEMQAL_ 0 0 0 nc|ENSG00000183495|Q96L91-4|EP400;nc|ENSG00000183495|Q96L91-3|EP400;nc|ENSG00000183495|Q96L91-5|EP400;ENSG00000183495|ENST00000389561|EP400;nc|ENSG00000183495|Q96L91|EP400 nc|ENSG00000183495|Q96L91-4|EP400 nc|ENSG00000183495|Q96L91-4|EP400 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.7665405273438 2 591.766049 1181.51754 NaN NaN NaN NaN NaN NaN NaN 83.626 1 83.873 83.373 84.373 0.24722 0 0 0 0.89683 1 38493 38493 4.3292 1.44 1 38677 5385 24566 24642 43459 43459 -0.06595395159433792 YIAGGEVKEL 10 Unmodified _YIAGGEVKEL_ 0 0 0 REV__ENSG00000136932|ENST00000375119|TRMO REV__ENSG00000136932|ENST00000375119|TRMO MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.7939453125 2 539.792589 1077.57063 NaN NaN NaN NaN NaN NaN NaN 44.856 1 45.124 44.624 45.624 0.26768 0 0 0 0.36723 1 20502 20502 33.445 0.65921 1 + 38678 12088 24567 24643 43460 43460 0.03494305894855643 YIAHRKGWL 9 Unmodified _YIAHRKGWL_ 0 0 0 ENST00000414932.1_1_7:43908445-43909104:-|nuORF;ENSG00000062582|ENST00000317534|MRPS24 ENST00000414932.1_1_7:43908445-43909104:-|nuORF ENST00000414932.1_1_7:43908445-43909104:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 572.3250732421875 2 572.324725 1142.6349 NaN NaN NaN NaN NaN NaN NaN 39.15 1 39.948 39.448 40.448 0.79762 0 0 0 0.82031 1 17725 17725 8.5933 2.2392 1 38679 654 24568 24644 43461 43461 0.0692855056231565 YIDKVRFL 8 Unmodified _YIDKVRFL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.3057250976562 2 527.30821 1052.60187 3.1476 0.0016597 -1.1565 -0.00060985 1.991 0.0010499 527.3073792433273 56.494 0.28752 56.494 56.358 56.645 0 39 22 2 0 0 0 0.23923 1 26059 26059 39.957 13.074 1 3106400 38680 483 24569 24645 43462 43462 0.07766923719623264 YIDKVRFL 8 Unmodified _YIDKVRFL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 527.30821 1052.60187 2.8745 0.0015157 -1.175 -0.0006196 1.6994 0.00089613 527.3073402951608 55.497 0.30278 56.284 56.143 56.446 0.78711 -0.16197 -5.8793E-05 NaN 39.957 58 26 3 NaN NaN NaN NaN 0 NaN NaN 0 3090900 38681 483 24569 24645 0.07766923719623264 YIDKVRFL 8 Unmodified _YIDKVRFL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 527.30821 1052.60187 3.2285 0.0017024 -1.0358 -0.00054617 2.1928 0.0011563 527.3072881347275 56.408 0.22805 56.673 56.542 56.77 0.26543 0.22775 8.8069E-05 NaN 39.957 29 15 2 NaN NaN NaN NaN 0 NaN NaN 0 1607800 38682 483 24569 24645 0.07766923719623264 YIDKVRFL 8 Unmodified _YIDKVRFL_ 0 0 0 ENSG00000026025|ENST00000544301|VIM;ENST00000485947.1_1_10:17271421-17272784:+|nuORF ENSG00000026025|ENST00000544301|VIM ENSG00000026025|ENST00000544301|VIM MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 527.30821 1052.60187 3.3162 0.0017487 -1.002 -0.00052837 2.3142 0.0012203 527.3071101855013 55.664 0.2698 56.332 56.209 56.478 0.66798 -0.11422 0.00012366 NaN 39.957 15 9 2 NaN NaN NaN NaN 0 NaN NaN 0 1382000 38683 483 24569 24645 0.07766923719623264 YIEDILGEYT 10 Unmodified _YIEDILGEYT_ 0 0 0 REV__ENST00000544349.5_1_12:122734385-122734640:-|nuORF REV__ENST00000544349.5_1_12:122734385-122734640:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.8663024902344 3 405.864172 1214.57069 2.6763 0.0010862 2.0678 0.00083926 4.7441 0.0019255 405.8649977380631 39.379 0.22282 40.177 40.078 40.301 0.79762 12 9 2 0 0 0 0.93584 1 17866 17866 1.7423 0 1 138440 + 38684 12218 24570 24646 43463 43463 -0.02801738895800554 YIFESYYF 8 Unmodified _YIFESYYF_ 0 0 0 CON__Q2TBQ1 CON__Q2TBQ1 CON__Q2TBQ1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.244384765625 2 566.255308 1130.49606 NaN NaN NaN NaN NaN NaN NaN 66.78 1 67.436 66.936 67.936 0.65672 0 0 0 0.99035 1 30614 30614 2.8892 0 1 + 38685 231 24571 24647 43464 43464 -0.06396456916536408 YIFRIRKK 8 Unmodified _YIFRIRKK_ 0 0 0 ENST00000591956.1_1_17:74557657-74557777:+|nuORF ENST00000591956.1_1_17:74557657-74557777:+|nuORF ENST00000591956.1_1_17:74557657-74557777:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 375.2421875 3 375.241471 1122.70258 2.8917 0.0010851 -0.56941 -0.00021367 2.3222 0.0008714 375.24123688233817 13.175 0.29621 13.175 13.036 13.333 0 62 19 5 0 0 0 0.51067 1 5787 5787 20.454 0 1 5154300 38686 9240 24572 24648 43465 43465 0.14614000493133972 YIFRIRKK 8 Unmodified _YIFRIRKK_ 0 0 0 ENST00000591956.1_1_17:74557657-74557777:+|nuORF ENST00000591956.1_1_17:74557657-74557777:+|nuORF ENST00000591956.1_1_17:74557657-74557777:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 375.2423400878906 3 375.241471 1122.70258 2.0099 0.00075421 0.14034 5.2661E-05 2.1503 0.00080687 375.2414608106625 12.773 0.16978 13.034 12.967 13.137 0.26154 34 13 3 0 0 0 0.51067 1 5585 5585 20.454 2.3073 1 9255600 38687 9240 24572 24648 43466 43466 0.14614000493133972 YIHNRGFH 8 Unmodified _YIHNRGFH_ 0 0 0 REV__ENSG00000198198|ENST00000634258|SZT2 REV__ENSG00000198198|ENST00000634258|SZT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 522.2620849609375 2 522.262125 1042.5097 NaN NaN NaN NaN NaN NaN NaN 57.31 1 57.31 56.81 57.81 0 0 0 0 0.99035 1 26412 26412 2.8892 0.58649 1 + 38688 14326 24573 24649 43467 43467 -0.009857415740498254 YIHRSRRYF 9 Unmodified _YIHRSRRYF_ 0 0 0 ENST00000423082.1_1_1:111550392-111550686:-|nuORF ENST00000423082.1_1_1:111550392-111550686:-|nuORF ENST00000423082.1_1_1:111550392-111550686:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 649.0941772460938 2 649.349263 1296.68397 NaN NaN NaN NaN NaN NaN NaN 80.71 1 80.879 80.379 81.379 0.16862 0 0 0 0.89683 1 39569 39569 4.3292 0.73274 1 38689 7776 24574 24650 43468 43468 0.047498388512622114 YIIKDKHIL 9 Unmodified _YIIKDKHIL_ 0 0 0 nc|ENSG00000080503|P51531-2|SMARCA2;ENSG00000080503|ENST00000349721|SMARCA2;ENST00000592604.5_1_19:11123597-11172489:+|nuORF;nc|ENSG00000127616|P51532-5|SMARCA4;nc|ENSG00000127616|P51532-2|SMARCA4;nc|ENSG00000127616|P51532-3|SMARCA4;nc|ENSG00000127616|P51532-4|SMARCA4;ENSG00000127616|ENST00000344626|SMARCA4;ENST00000591595.5_1_19:11130023-11172489:+|nuORF nc|ENSG00000080503|P51531-2|SMARCA2;ENST00000592604.5_1_19:11123597-11172489:+|nuORF ENST00000592604.5_1_19:11123597-11172489:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 381.57049560546875 3 381.569253 1141.68593 NaN NaN NaN NaN NaN NaN NaN 30.315 1 30.573 30.073 31.073 0.25804 0 0 0 0.87786 1 13797 13797 10.8 5.5026 1 38690 908;2488 24575 24651 43469 43469 0.12075454816499587 YIIQRKKEF 9 Unmodified _YIIQRKKEF_ 0 0 0 ENST00000577292.5_1_17:73663452-73698652:+|nuORF;ENST00000581207.5_1_17:73698601-73700918:+|nuORF;ENST00000580601.5_1_17:73689468-73702598:+|nuORF;nc|ENSG00000161526|Q9UHR5-2|SAP30BP;ENSG00000161526|ENST00000584667|SAP30BP ENST00000577292.5_1_17:73663452-73698652:+|nuORF ENST00000577292.5_1_17:73663452-73698652:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 408.9099426269531 3 408.908157 1223.70264 2.772 0.0011335 0.49866 0.0002039 3.2707 0.0013374 408.90827725857616 17.412 0.58202 17.713 17.387 17.969 0.30159 89 42 3 0 0 0 0.25718 3 7861 7809;7861;7910 19.626 8.8264 1 302190 38691 9129 24576 24652 43470;43471;43472 43471 0.09973955702457715 YIIQRKKEF 9 Unmodified _YIIQRKKEF_ 0 0 0 ENST00000577292.5_1_17:73663452-73698652:+|nuORF;ENST00000581207.5_1_17:73698601-73700918:+|nuORF;ENST00000580601.5_1_17:73689468-73702598:+|nuORF;nc|ENSG00000161526|Q9UHR5-2|SAP30BP;ENSG00000161526|ENST00000584667|SAP30BP ENST00000577292.5_1_17:73663452-73698652:+|nuORF ENST00000577292.5_1_17:73663452-73698652:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 408.9092102050781 3 408.908157 1223.70264 2.9727 0.0012156 0.44773 0.00018308 3.4204 0.0013986 408.90826060189187 17.455 0.30659 18.116 17.884 18.19 0.66072 54 23 3 0 0 0 0.068032 3 7851 7803;7851;7899 40.725 15.843 1 474340 38692 9129 24576 24652 43473;43474;43475 43474 0.09973955702457715 YIKHPHLF 8 Unmodified _YIKHPHLF_ 0 0 0 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 ENSG00000101457|ENST00000372622|DNTTIP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.7968139648438 2 527.795269 1053.57599 3.1801 0.0016784 0.32355 0.00017077 3.5036 0.0018492 527.79526742237 39.757 0.26119 40.557 40.428 40.69 0.80014 20 12 2 0 0 0 0.17426 1 18034 18034 45.75 27.615 1 353760 38693 1297 24577 24653 43476 43476 0.051340742679713 YIKHPVSL 8 Unmodified _YIKHPVSL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8;ENST00000592001.5_1_19:38865430-38871817:+|nuORF ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 478.7841796875 2 478.781828 955.549102 2.7438 0.0013137 0.5247 0.00025122 3.2685 0.0015649 478.7823026463925 34.39 0.2764 34.39 34.238 34.515 0 24 13 3 0 0 0 0.018424 1 15582 15582 88.904 50.752 1 952410 38694 1141 24578 24654 43477 43477 0.06954965656814238 YIKHPVSL 8 Unmodified _YIKHPVSL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8;ENST00000592001.5_1_19:38865430-38871817:+|nuORF ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.78326416015625 2 478.781828 955.549102 2.6681 0.0012774 0.63126 0.00030223 3.2993 0.0015797 478.78221081677003 33.583 0.28498 34.371 34.206 34.491 0.78795 26 17 2 0 0 0 0.018424 1 15200 15200 88.904 50.752 1 761630 38695 1141 24578 24654 43478 43478 0.06954965656814238 YIKHPVSL 8 Unmodified _YIKHPVSL_ 0 0 0 ENSG00000099341|ENST00000215071|PSMD8;ENST00000592001.5_1_19:38865430-38871817:+|nuORF ENSG00000099341|ENST00000215071|PSMD8 ENSG00000099341|ENST00000215071|PSMD8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.28497314453125 2 478.781828 955.549102 2.9799 0.0014267 -0.51868 -0.00024834 2.4613 0.0011784 478.7815865473606 33.757 0.43044 34.377 34.107 34.537 0.62031 27 19 2 0 0 0 0.045071 1 15485 15485 67.344 38.857 1 566440 38696 1141 24578 24654 43479 43479 0.06954965656814238 YIKNKLVF 8 Unmodified _YIKNKLVF_ 0 0 0 ENSG00000163527|ENST00000295770|STT3B ENSG00000163527|ENST00000295770|STT3B ENSG00000163527|ENST00000295770|STT3B MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 512.7347412109375 2 512.813128 1023.6117 3.2843 0.0016842 0.5085 0.00026076 3.7928 0.001945 512.8135437461564 37.695 0.20348 38.329 38.212 38.415 0.63388 9 6 2 0 0 0 0.13397 1 17246 17246 14.582 8.8213 1 148520 38697 4219 24579 24655 43480 43480 0.10084111724984268 YIKNLLKINN 10 Unmodified _YIKNLLKINN_ 0 0 0 REV__ENSG00000142207|ENST00000382751|URB1 REV__ENSG00000142207|ENST00000382751|URB1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 616.872314453125 2 616.871705 1231.72886 NaN NaN NaN NaN NaN NaN NaN 86.02 1 86.05 85.55 86.55 0.030289 0 0 0 0.99774 1 43178 43178 3.5965 0 1 + 38698 12319 24580 24656 43481 43481 0.12226224873961655 YIKNTEKL 8 Unmodified _YIKNTEKL_ 0 0 0 nc|ENSG00000171603|O94985-2|CLSTN1;ENSG00000171603|ENST00000377298|CLSTN1 nc|ENSG00000171603|O94985-2|CLSTN1 nc|ENSG00000171603|O94985-2|CLSTN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.7923278808594 2 504.78985 1007.56515 3.0847 0.0015571 0.6356 0.00032085 3.7203 0.001878 504.7899716804403 15.055 0.41036 15.055 14.881 15.291 0 75 48 2 0 0 0 0.60101 1 6649 6649 7.9102 0 1 104670 38699 4819 24581 24657 43482 43482 0.06166627103038991 YIKNTEKL 8 Unmodified _YIKNTEKL_ 0 0 0 nc|ENSG00000171603|O94985-2|CLSTN1;ENSG00000171603|ENST00000377298|CLSTN1 nc|ENSG00000171603|O94985-2|CLSTN1 nc|ENSG00000171603|O94985-2|CLSTN1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 504.79217529296875 2 504.78985 1007.56515 3.1006 0.0015652 0.39569 0.00019974 3.4963 0.0017649 504.7899967589878 14.619 0.16614 14.845 14.743 14.91 0.22622 23 12 3 0 0 0 0.33696 1 6422 6422 25.399 0 1 259230 38700 4819 24581 24657 43483 43483 0.06166627103038991 YIKTIENL 8 Unmodified _YIKTIENL_ 0 0 0 nc|ENSG00000154099|Q8NEP3-3|DNAAF1;ENSG00000154099|ENST00000378553|DNAAF1 nc|ENSG00000154099|Q8NEP3-3|DNAAF1 nc|ENSG00000154099|Q8NEP3-3|DNAAF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 331.8600158691406 3 331.858692 992.554247 2.1638 0.00071809 0.87944 0.00029185 3.0433 0.0010099 331.85887552001014 26.973 0.26956 27.595 27.456 27.726 0.62179 36 20 3 0 0 0 0.59268 1 12341 12341 10.824 0 1 462510 38701 3800 24582 24658 43484 43484 0.057672247287769096 YIKTTLREL 9 Unmodified _YIKTTLREL_ 0 0 0 nc|ENSG00000107593|Q9P0L9-4|PKD2L1;nc|ENSG00000107593|Q9P0L9-3|PKD2L1;nc|ENSG00000107593|Q9P0L9-2|PKD2L1;nc|ENSG00000107593|Q9P0L9-5|PKD2L1;ENSG00000107593|ENST00000318222|PKD2L1 nc|ENSG00000107593|Q9P0L9-4|PKD2L1 nc|ENSG00000107593|Q9P0L9-4|PKD2L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 379.56170654296875 3 379.560646 1135.66011 2.565 0.00097358 -0.44786 -0.00016999 2.1171 0.00080359 379.56028254632577 29.497 0.18876 30.287 30.185 30.374 0.78921 35 15 3 0 0 0 0.24272 1 13332 13332 20.581 3.5324 1 3716000 38702 1601 24583 24659 43485 43485 0.09770560574247611 YIKVFHKIF 9 Unmodified _YIKVFHKIF_ 0 0 0 ENST00000601416.1_19:21281704-21301132:+|nuORF;nc|ENSG00000160352|Q96N38-2|ZNF714;nc|ENSG00000160352|Q96N38|ZNF714;ENSG00000160352|ENST00000456283|ZNF714 ENST00000601416.1_19:21281704-21301132:+|nuORF ENST00000601416.1_19:21281704-21301132:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.8578491210938 2 597.855327 1193.6961 3.8429 0.0022975 1.1905 0.00071173 5.0333 0.0030092 598.357504049557 85.788 0.65379 86.037 85.444 86.098 0.24857 48 32 2 0 0 0 1.101 1 39412 39412 2.3027 0 1 1395300 38703 4056 24584 24660 43486 43486 0.10700062541741318 YILPKNVL 8 Unmodified _YILPKNVL_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8;ENST00000575116.1_1_17:1555319-1557183:-|nuORF;ENST00000576585.1_1_17:1556769-1557303:-|nuORF ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.30096435546875 2 480.299853 958.585153 3.0812 0.0014799 -0.57619 -0.00027675 2.505 0.0012031 480.2995936732202 59.459 0.2052 59.718 59.62 59.826 0.2593 16 8 2 0 0 0 0.10141 1 27231 27231 53.576 17.531 1 634700 38704 4968 24585 24661 43487 43487 0.10420422833658449 YILPKNVL 8 Unmodified _YILPKNVL_ 0 0 0 ENSG00000174231|ENST00000304992|PRPF8;ENST00000575116.1_1_17:1555319-1557183:-|nuORF;ENST00000576585.1_1_17:1556769-1557303:-|nuORF ENSG00000174231|ENST00000304992|PRPF8 ENSG00000174231|ENST00000304992|PRPF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 480.30084228515625 2 480.299853 958.585153 3.146 0.001511 -0.29751 -0.0001429 2.8485 0.0013681 480.29968061927775 58.803 0.23532 59.47 59.352 59.587 0.66703 16 9 2 0 0 0 0.26384 1 26913 26913 38.151 11.268 1 711030 38705 4968 24585 24661 43488 43488 0.10420422833658449 YIMMKQKL 8 Unmodified _YIMMKQKL_ 0 0 0 ENST00000408901.7_1_14:23945328-23945483:+|nuORF ENST00000408901.7_1_14:23945328-23945483:+|nuORF ENST00000408901.7_1_14:23945328-23945483:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 352.1983337402344 3 352.197774 1053.57149 2.4014 0.00084576 -0.43291 -0.00015247 1.9685 0.00069329 352.1976089489751 28.239 0.23693 28.858 28.685 28.922 0.61947 20 15 2 0 0 0 0.7471 1 12942 12942 1.8442 0 1 278080 38706 7649 24586 24662 43489 43489 0.04685105738576567 YIMMKQKL 8 Unmodified _YIMMKQKL_ 0 0 0 ENST00000408901.7_1_14:23945328-23945483:+|nuORF ENST00000408901.7_1_14:23945328-23945483:+|nuORF ENST00000408901.7_1_14:23945328-23945483:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 352.197774 1053.57149 2.4409 0.00085967 -0.7732 -0.00027232 1.6677 0.00058735 352.1975685990046 27.68 0.19691 28.466 28.388 28.585 0.78627 -0.24634 2.6674E-05 NaN 1.8442 22 16 2 NaN NaN NaN NaN 0 NaN NaN 0 151650 38707 7649 24586 24662 0.04685105738576567 YINEKNVAL 9 Unmodified _YINEKNVAL_ 0 0 0 ENSG00000123104|ENST00000381340|ITPR2;nc|ENSG00000150995|Q14643-4|ITPR1;nc|ENSG00000150995|Q14643-3|ITPR1;nc|ENSG00000150995|Q14643-8|ITPR1;nc|ENSG00000150995|Q14643-7|ITPR1;nc|ENSG00000150995|Q14643-5|ITPR1;nc|ENSG00000150995|Q14643-6|ITPR1;nc|ENSG00000150995|Q14643-2|ITPR1;ENSG00000150995|ENST00000649015|ITPR1 ENSG00000123104|ENST00000381340|ITPR2;nc|ENSG00000150995|Q14643-4|ITPR1 ENSG00000123104|ENST00000381340|ITPR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 532.2938842773438 2 532.292756 1062.57096 3.1576 0.0016808 1.0207 0.00054333 4.1784 0.0022241 532.2931600155725 37.564 0.22954 37.564 37.407 37.637 0 13 8 2 0 0 0 0.053453 1 17059 17059 45.7 12.914 1 505320 38708 2293;3685 24587 24663 43490 43490 0.04217725614716983 YINEKNVAL 9 Unmodified _YINEKNVAL_ 0 0 0 ENSG00000123104|ENST00000381340|ITPR2;nc|ENSG00000150995|Q14643-4|ITPR1;nc|ENSG00000150995|Q14643-3|ITPR1;nc|ENSG00000150995|Q14643-8|ITPR1;nc|ENSG00000150995|Q14643-7|ITPR1;nc|ENSG00000150995|Q14643-5|ITPR1;nc|ENSG00000150995|Q14643-6|ITPR1;nc|ENSG00000150995|Q14643-2|ITPR1;ENSG00000150995|ENST00000649015|ITPR1 ENSG00000123104|ENST00000381340|ITPR2;nc|ENSG00000150995|Q14643-4|ITPR1 ENSG00000123104|ENST00000381340|ITPR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 532.2943725585938 2 532.292756 1062.57096 3.1373 0.00167 0.47981 0.0002554 3.6171 0.0019254 532.2929375805918 36.449 0.32507 37.243 37.097 37.423 0.79342 31 15 3 0 0 0 0.049036 1 16530 16530 47.594 12.662 1 411020 38709 2293;3685 24587 24663 43491 43491 0.04217725614716983 YINEKNVAL 9 Unmodified _YINEKNVAL_ 0 0 0 ENSG00000123104|ENST00000381340|ITPR2;nc|ENSG00000150995|Q14643-4|ITPR1;nc|ENSG00000150995|Q14643-3|ITPR1;nc|ENSG00000150995|Q14643-8|ITPR1;nc|ENSG00000150995|Q14643-7|ITPR1;nc|ENSG00000150995|Q14643-5|ITPR1;nc|ENSG00000150995|Q14643-6|ITPR1;nc|ENSG00000150995|Q14643-2|ITPR1;ENSG00000150995|ENST00000649015|ITPR1 ENSG00000123104|ENST00000381340|ITPR2;nc|ENSG00000150995|Q14643-4|ITPR1 ENSG00000123104|ENST00000381340|ITPR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 532.295166015625 2 532.292756 1062.57096 3.247 0.0017284 0.39494 0.00021022 3.642 0.0019386 532.2930102584754 37.458 0.28114 37.719 37.541 37.822 0.26083 19 8 3 0 0 0 0.0023958 1 17047 17047 100.09 20.494 1 809090 38710 2293;3685 24587 24663 43492 43492 0.04217725614716983 YINEKNVAL 9 Unmodified _YINEKNVAL_ 0 0 0 ENSG00000123104|ENST00000381340|ITPR2;nc|ENSG00000150995|Q14643-4|ITPR1;nc|ENSG00000150995|Q14643-3|ITPR1;nc|ENSG00000150995|Q14643-8|ITPR1;nc|ENSG00000150995|Q14643-7|ITPR1;nc|ENSG00000150995|Q14643-5|ITPR1;nc|ENSG00000150995|Q14643-6|ITPR1;nc|ENSG00000150995|Q14643-2|ITPR1;ENSG00000150995|ENST00000649015|ITPR1 ENSG00000123104|ENST00000381340|ITPR2;nc|ENSG00000150995|Q14643-4|ITPR1 ENSG00000123104|ENST00000381340|ITPR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.2947998046875 2 532.292756 1062.57096 3.3032 0.0017583 0.63608 0.00033858 3.9393 0.0020969 532.293190172516 36.82 0.31814 37.45 37.28 37.598 0.62999 30 12 3 0 0 0 0.010904 1 16865 16865 80.676 19.074 1 679080 38711 2293;3685 24587 24663 43493 43493 0.04217725614716983 YIPKNWAI 8 Unmodified _YIPKNWAI_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 503.10931396484375 2 502.781828 1003.5491 3.3979 0.0017084 -0.18381 -9.2416E-05 3.2141 0.001616 502.7817398482886 19.432 0.12655 20.09 20.055 20.182 0.6583 12 7 2 0 0 0 0.14021 1 8854 8854 2.8892 0 1 211960 + 38712 12747 24588 24664 43494 43494 0.04746965656784141 YIPRIKMIFA 10 Unmodified _YIPRIKMIFA_ 0 0 0 ENST00000525280.1_1_11:31302221-31302329:-|nuORF ENST00000525280.1_1_11:31302221-31302329:-|nuORF ENST00000525280.1_1_11:31302221-31302329:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 417.9141845703125 3 417.914255 1250.72094 3.1169 0.0013026 -0.80696 -0.00033724 2.31 0.00096537 417.91400318937724 66.495 0.22771 66.743 66.602 66.829 0.24847 24 12 3 0 0 0 0.85597 1 30457 30457 5.7834 2.1964 1 528830 38713 8670 24589 24665 43495 43495 0.1056037435282633 YIRCIKFIL 9 Unmodified _YIRCIKFIL_ 0 0 0 MER47A_dup1739|chr11:114314732-114315040:+|1.9862550910181491|0.3000904151932887|2.73|534.0|3|1|sense MER47A_dup1739|chr11:114314732-114315040:+|1.9862550910181491|0.3000904151932887|2.73|534.0|3|1|sense MER47A_dup1739|chr11:114314732-114315040:+|1.9862550910181491|0.3000904151932887|2.73|534.0|3|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.8508911132812 2 584.849187 1167.68382 NaN NaN NaN NaN NaN NaN NaN 1.2151 1 1.6087 1.1087 2.1087 0.39356 0 0 0 0.91452 1 554 554 0 0 1 38714 9517 24590 24666 43496 43496 0.10668702807060981 YIRFKHLFWWW 11 Unmodified _YIRFKHLFWWW_ 0 0 0 REV__nc|ENSG00000166262|Q96M60-2|FAM227B REV__nc|ENSG00000166262|Q96M60-2|FAM227B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 841.4449462890625 2 841.443163 1680.87177 NaN NaN NaN NaN NaN NaN NaN 48.298 1 48.298 47.798 48.798 0 0 0 0 1.0082 1 22117 22117 0 0 1 + 38715 18026 24591 24667 43497 43497 0.05857277055815757 YIRFKHLFWWW 11 Unmodified _YIRFKHLFWWW_ 0 0 0 REV__nc|ENSG00000166262|Q96M60-2|FAM227B REV__nc|ENSG00000166262|Q96M60-2|FAM227B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 841.4415283203125 2 841.443163 1680.87177 NaN NaN NaN NaN NaN NaN NaN 94.311 1 94.311 93.811 94.811 0 0 0 0 1.0082 1 50554 50554 0 0 1 + 38716 18026 24591 24667 43498 43498 0.05857277055815757 YIRIFWTVFKI 11 Unmodified _YIRIFWTVFKI_ 0 0 0 ENSG00000094661|ENST00000641398|OR1I1 ENSG00000094661|ENST00000641398|OR1I1 ENSG00000094661|ENST00000641398|OR1I1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 495.7988586425781 3 495.958741 1484.85439 4.0385 0.0020029 1.0671 0.00052925 5.1056 0.0025322 495.9587523348696 96.812 0.38019 97.089 96.937 97.317 0.27779 41 20 3 0 0 0 0.13295 1 44572 44572 0.094841 0 1 849460 38717 1108 24592 24668 43499 43499 0.1313593673014566 YIRVGTLV 8 Unmodified _YIRVGTLV_ 0 0 0 REV__ENST00000477216.1_1_3:170077516-170077672:+|nuORF REV__ENST00000477216.1_1_3:170077516-170077672:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 920.5643920898438 1 920.556379 919.549102 4.6732 0.0043019 1.8003 0.0016573 6.4735 0.0059592 920.558239548536 104.11 0.034073 104.43 104.41 104.45 0.31863 8 5 2 0 0 0 0.7471 1 48110 48110 0 0 1 371030 + 38718 16213 24593 24669 43500 43500 0.08610965656816916 YIRVGTLV 8 Unmodified _YIRVGTLV_ 0 0 0 REV__ENST00000477216.1_1_3:170077516-170077672:+|nuORF REV__ENST00000477216.1_1_3:170077516-170077672:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 920.5646362304688 1 920.556379 919.549102 4.0903 0.0037654 0.52402 0.00048239 4.6144 0.0042478 920.5568160123752 104.15 0.029854 104.75 104.74 104.77 0.59885 8 5 2 0 0 0 0.7471 1 48161 48161 0 0 1 570690 + 38719 16213 24593 24669 43501 43501 0.08610965656816916 YIRVGTLV 8 Unmodified _YIRVGTLV_ 0 0 0 REV__ENST00000477216.1_1_3:170077516-170077672:+|nuORF REV__ENST00000477216.1_1_3:170077516-170077672:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 920.556379 919.549102 4.6732 0.0043019 1.8003 0.0016573 6.4735 0.0059592 920.558239548536 104.11 0.034073 104.43 104.41 104.45 0.31863 -0.15974 0.00051797 NaN 0 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 371030 + 38720 16213 24593 24669 0.08610965656816916 YIRVGTLV 8 Unmodified _YIRVGTLV_ 0 0 0 REV__ENST00000477216.1_1_3:170077516-170077672:+|nuORF REV__ENST00000477216.1_1_3:170077516-170077672:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 920.556379 919.549102 4.0903 0.0037654 0.52402 0.00048239 4.6144 0.0042478 920.5568160123752 104.15 0.029854 104.75 104.74 104.77 0.59885 0.15974 -0.00065692 NaN 0 8 5 2 NaN NaN NaN NaN 0 NaN NaN 0 570690 + 38721 16213 24593 24669 0.08610965656816916 YISEHEHF 8 Unmodified _YISEHEHF_ 0 0 0 nc|ENSG00000104853|O96005-3|CLPTM1;nc|ENSG00000104853|O96005-4|CLPTM1;ENSG00000104853|ENST00000337392|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.2401123046875 2 531.237981 1060.46141 3.2367 0.0017194 0.38269 0.0002033 3.6194 0.0019227 531.2380999639753 31.96 0.25235 31.96 31.825 32.077 0 56 23 3 0 0 0 0.017856 2 14448 14448;14492 89.427 68.556 1 885290 38722 1453 24594 24670 43502;43503 43502 -0.0664028000462622 YISEHEHF 8 Unmodified _YISEHEHF_ 0 0 0 nc|ENSG00000104853|O96005-3|CLPTM1;nc|ENSG00000104853|O96005-4|CLPTM1;ENSG00000104853|ENST00000337392|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 531.2396850585938 2 531.237981 1060.46141 3.2047 0.0017025 0.14922 7.9272E-05 3.3539 0.0017817 531.2381108576506 30.944 0.20551 31.733 31.624 31.83 0.78879 36 14 3 0 0 0 0.0093032 1 13987 13987 106.85 83.697 1 870110 38723 1453 24594 24670 43504 43504 -0.0664028000462622 YISEHEHF 8 Unmodified _YISEHEHF_ 0 0 0 nc|ENSG00000104853|O96005-3|CLPTM1;nc|ENSG00000104853|O96005-4|CLPTM1;ENSG00000104853|ENST00000337392|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 531.237981 1060.46141 3.5358 0.0018783 0.11541 6.1311E-05 3.6512 0.0019396 531.2379144560974 31.938 0.27043 32.193 31.996 32.267 0.25452 0.23351 -8.6356E-05 NaN 106.85 28 17 2 NaN NaN NaN NaN 0 NaN NaN 0 303190 38724 1453 24594 24670 -0.0664028000462622 YISEHEHF 8 Unmodified _YISEHEHF_ 0 0 0 nc|ENSG00000104853|O96005-3|CLPTM1;nc|ENSG00000104853|O96005-4|CLPTM1;ENSG00000104853|ENST00000337392|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 nc|ENSG00000104853|O96005-3|CLPTM1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 531.237981 1060.46141 3.2517 0.0017274 0.069175 3.6749E-05 3.3208 0.0017642 531.237902249151 31.334 0.25408 31.951 31.809 32.063 0.61737 -0.0075552 -0.00013548 NaN 106.85 24 15 2 NaN NaN NaN NaN 0 NaN NaN 0 481990 38725 1453 24594 24670 -0.0664028000462622 YISRMMHKSYI 11 Unmodified _YISRMMHKSYI_ 0 0 0 nc|ENSG00000166396|O75635-2|SERPINB7;ENSG00000166396|ENST00000398019|SERPINB7 nc|ENSG00000166396|O75635-2|SERPINB7 nc|ENSG00000166396|O75635-2|SERPINB7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 714.8621826171875 2 714.859957 1427.70536 3.7456 0.0026776 -0.89048 -0.00063657 2.8551 0.002041 714.8594182366738 38.472 0.224 38.472 38.356 38.58 0 30 10 4 0 0 0 0.58424 1 17468 17468 16.149 0 1 1825500 38726 4481 24595 24671 43505 43505 0.00861719773479308 YISRMMHKSYI 11 Unmodified _YISRMMHKSYI_ 0 0 0 nc|ENSG00000166396|O75635-2|SERPINB7;ENSG00000166396|ENST00000398019|SERPINB7 nc|ENSG00000166396|O75635-2|SERPINB7 nc|ENSG00000166396|O75635-2|SERPINB7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 714.8617553710938 2 714.859957 1427.70536 3.6734 0.002626 -1.2382 -0.00088514 2.4352 0.0017408 714.8595920350982 37.461 0.24907 38.257 38.136 38.385 0.79552 30 10 4 0 0 0 0.58424 1 16958 16958 16.149 0 1 1469000 38727 4481 24595 24671 43506 43506 0.00861719773479308 YITERIIAV 9 Unmodified _YITERIIAV_ 0 0 0 ENSG00000136205|ENST00000311160|TNS3;nc|ENSG00000136205|Q68CZ2-3|TNS3;nc|ENSG00000136205|Q68CZ2-4|TNS3;nc|ENSG00000136205|Q68CZ2-2|TNS3 ENSG00000136205|ENST00000311160|TNS3 ENSG00000136205|ENST00000311160|TNS3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 539.273193359375 2 539.318774 1076.623 3.1039 0.001674 -0.27943 -0.0001507 2.8245 0.0015233 539.318828348077 57.111 0.13134 57.376 57.336 57.467 0.26444 10 7 2 0 0 0 0.051743 1 26138 26138 33.445 9.4243 1 1008000 38728 2931 24596 24672 43507 43507 0.08774889028472899 YITERIIAV 9 Unmodified _YITERIIAV_ 0 0 0 ENSG00000136205|ENST00000311160|TNS3;nc|ENSG00000136205|Q68CZ2-3|TNS3;nc|ENSG00000136205|Q68CZ2-4|TNS3;nc|ENSG00000136205|Q68CZ2-2|TNS3 ENSG00000136205|ENST00000311160|TNS3 ENSG00000136205|ENST00000311160|TNS3 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.2736206054688 2 539.318774 1076.623 3.3803 0.001823 -0.30029 -0.00016195 3.08 0.0016611 539.3187203637212 56.546 0.22399 57.214 57.113 57.337 0.66829 16 10 2 0 0 0 0.051743 1 25866 25866 33.445 17.598 1 870750 38729 2931 24596 24672 43508 43508 0.08774889028472899 YIVGKTISI 9 Unmodified _YIVGKTISI_ 0 0 0 REV__nc|ENSG00000123901|Q9NYM4-2|GPR83 REV__nc|ENSG00000123901|Q9NYM4-2|GPR83 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.0104064941406 2 497.302593 992.590633 2.7049 0.0013452 0.35152 0.00017481 3.0564 0.00152 497.3026778071666 52.322 0.24524 53.133 52.997 53.242 0.81065 47 18 3 0 0 0 0.59776 1 23792 23792 10.824 0 1 1367600 + 38730 11626 24597 24673 43509 43509 0.09404101625477779 YIVIKLGKT 9 Unmodified _YIVIKLGKT_ 0 0 0 ENSG00000214814|ENST00000522917|FER1L6 ENSG00000214814|ENST00000522917|FER1L6 ENSG00000214814|ENST00000522917|FER1L6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.55950927734375 3 345.558466 1033.65357 2.4582 0.00084947 -0.29001 -0.00010022 2.1682 0.00074925 345.55852018201995 35.17 0.22659 35.425 35.339 35.566 0.25524 17 10 2 0 0 0 0.43294 1 16053 16053 13.615 5.1706 1 581940 38731 6119 24598 24674 43510 43510 0.1380866741351383 YIVPRAAI 8 Unmodified _YIVPRAAI_ 0 0 0 nc|ENSG00000140199|Q9UHW9-6|SLC12A6;nc|ENSG00000140199|Q9UHW9-5|SLC12A6;nc|ENSG00000140199|Q9UHW9-2|SLC12A6;nc|ENSG00000140199|Q9UHW9-3|SLC12A6;nc|ENSG00000140199|Q9UHW9-4|SLC12A6;ENSG00000140199|ENST00000354181|SLC12A6 nc|ENSG00000140199|Q9UHW9-6|SLC12A6 nc|ENSG00000140199|Q9UHW9-6|SLC12A6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.7781066894531 2 451.776545 901.538538 2.8402 0.0012831 0.6532 0.0002951 3.4934 0.0015782 451.7766759411017 36.605 0.24377 36.862 36.719 36.963 0.25768 19 8 3 0 0 0 0.20016 1 16656 16656 42.968 2.5194 1 505810 38732 3184 24599 24675 43511 43511 0.08382983002377387 YIVPRAAI 8 Unmodified _YIVPRAAI_ 0 0 0 nc|ENSG00000140199|Q9UHW9-6|SLC12A6;nc|ENSG00000140199|Q9UHW9-5|SLC12A6;nc|ENSG00000140199|Q9UHW9-2|SLC12A6;nc|ENSG00000140199|Q9UHW9-3|SLC12A6;nc|ENSG00000140199|Q9UHW9-4|SLC12A6;ENSG00000140199|ENST00000354181|SLC12A6 nc|ENSG00000140199|Q9UHW9-6|SLC12A6 nc|ENSG00000140199|Q9UHW9-6|SLC12A6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 451.7783508300781 2 451.776545 901.538538 3.152 0.001424 -0.27646 -0.0001249 2.8755 0.0012991 451.7765560110367 36.005 0.2378 36.631 36.491 36.729 0.62631 10 7 2 0 0 0 0.20016 1 16493 16493 42.968 2.5194 1 428830 38733 3184 24599 24675 43512 43512 0.08382983002377387 YIVSVGYQ 8 Unmodified _YIVSVGYQ_ 0 0 0 nc|ENSG00000137802|O60336-2|MAPKBP1;nc|ENSG00000137802|O60336-3|MAPKBP1;ENSG00000137802|ENST00000457542|MAPKBP1;nc|ENSG00000137802|O60336|MAPKBP1;ENST00000515164.1_1_15:42103000-42104860:+|nuORF;nc|ENSG00000137802|O60336-5|MAPKBP1;ENST00000502292.5_1_15:42067473-42104860:+|nuORF nc|ENSG00000137802|O60336-2|MAPKBP1 nc|ENSG00000137802|O60336-2|MAPKBP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 310.17218017578125 3 310.164004 927.470183 NaN NaN NaN NaN NaN NaN NaN 101.99 1 102.31 101.81 102.81 0.31737 0 0 0 0.99035 1 47185 47185 0.45834 0 1 38734 3041 24600 24676 43513 43513 0.003546936318684857 YIWDNLQK 8 Unmodified _YIWDNLQK_ 0 0 0 ENSG00000150787|ENST00000280362|PTS ENSG00000150787|ENST00000280362|PTS ENSG00000150787|ENST00000280362|PTS MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 539.830322265625 2 540.279649 1078.54475 3.1952 0.0017263 -0.25034 -0.00013526 2.9448 0.001591 540.2794700326401 49.964 0.31715 50.787 50.612 50.929 0.82285 17 12 2 0 0 0 0.14111 1 22791 22791 5.7604 0 1 295750 38735 3680 24601 24677 43514 43514 0.008614564432036786 YIWFIEFYYFD 11 Unmodified _YIWFIEFYYFD_ 0 0 0 REV__chr6:25800980-25806377|154|12.19|0.27|5.48|-|0|TE_info:L1PB3,L1PB3_dup1194,L1,LINE,donor,+,25806377,25806584|SLC17A1,None|2 REV__chr6:25800980-25806377|154|12.19|0.27|5.48|-|0|TE_info:L1PB3,L1PB3_dup1194,L1,LINE,donor,+,25806377,25806584|SLC17A1,None|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 803.683837890625 2 803.368661 1604.72277 NaN NaN NaN NaN NaN NaN NaN 99.176 1 99.176 98.676 99.676 0 0 0 0 1.0082 1 54478 54478 0 0 1 + 38736 10052 24602 24678 43515 43515 -0.05540338148239243 YIYFKRNHRFK 11 Unmodified _YIYFKRNHRFK_ 0 0 0 REV__ENSG00000143512|ENST00000343410|HHIPL2 REV__ENSG00000143512|ENST00000343410|HHIPL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 786.4342651367188 2 786.433327 1570.8521 NaN NaN NaN NaN NaN NaN NaN 91.493 1 91.576 91.076 92.076 0.082848 0 0 0 1.0072 1 47433 47433 1.3295 0.25807 1 + 38737 12372 24603 24679 43516 43516 0.08950901045022874 YIYTNLDPFN 10 Unmodified _YIYTNLDPFN_ 0 0 0 REV__ENSG00000120054|ENST00000370418|CPN1 REV__ENSG00000120054|ENST00000370418|CPN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 630.015380859375 2 630.300778 1258.587 NaN NaN NaN NaN NaN NaN NaN 85.912 1 86.583 86.083 87.083 0.67061 0 0 0 0.99733 1 39561 39561 3.9444 0 1 + + 38738 10092 24604 24680 43517 43517 -0.031946129390462374 YKDDFNAEYDE 11 Unmodified _YKDDFNAEYDE_ 0 0 0 nc|ENSG00000118985|O00472-2|ELL2;ENSG00000118985|ENST00000237853|ELL2 nc|ENSG00000118985|O00472-2|ELL2 nc|ENSG00000118985|O00472-2|ELL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 704.7841186523438 2 704.780604 1407.54666 NaN NaN NaN NaN NaN NaN NaN 4.1051 1 4.1051 3.6051 4.6051 0 0 0 0 1.0082 1 1866 1866 0 0 1 38739 2129 24605 24681 43518 43518 -0.14081624120149172 YKDYSLESRLH 11 Unmodified _YKDYSLESRLH_ 0 0 0 nc|ENSG00000155158|Q5VTQ0-7|TTC39B;ENST00000380853.1_1_9:15172019-15185442:-|nuORF;nc|ENSG00000155158|Q5VTQ0-5|TTC39B;nc|ENSG00000155158|Q5VTQ0-2|TTC39B;nc|ENSG00000155158|Q5VTQ0-6|TTC39B;ENSG00000155158|ENST00000512701|TTC39B;nc|ENSG00000155158|Q5VTQ0-3|TTC39B;nc|ENSG00000155158|Q5VTQ0-4|TTC39B;nc|ENSG00000155158|Q5VTQ0|TTC39B nc|ENSG00000155158|Q5VTQ0-7|TTC39B nc|ENSG00000155158|Q5VTQ0-7|TTC39B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 705.8540649414062 2 705.854241 1409.69393 NaN NaN NaN NaN NaN NaN NaN 54.044 1 54.711 54.211 55.211 0.6665 0 0 0 0.9645 1 24719 24719 10.074 1.9184 1 38740 3853 24606 24682 43519 43519 0.005469372753395874 YKEFKWKQYPK 11 Unmodified _YKEFKWKQYPK_ 0 0 0 REV__ENSG00000136542|ENST00000259056|GALNT5 REV__ENSG00000136542|ENST00000259056|GALNT5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 772.9149169921875 2 772.916644 1543.81874 NaN NaN NaN NaN NaN NaN NaN 59.938 1 59.938 59.438 60.438 0 0 0 0 1.008 1 27745 27745 0.30703 0 1 + 38741 12074 24607 24683 43520 43520 0.06857854482495895 YKEYSYDYMWE 11 Unmodified _YKEYSYDYMWE_ 0 0 0 REV__nc|ENSG00000110721|P35790-2|CHKA REV__nc|ENSG00000110721|P35790-2|CHKA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 788.8177490234375 2 788.818675 1575.6228 NaN NaN NaN NaN NaN NaN NaN 85.761 1 86.009 85.509 86.509 0.24857 0 0 0 1.008 1 39463 39463 0.30703 0.30703 1 + 38742 11211 24608 24684 43521 43521 -0.14198943544352005 YKFKRKIP 8 Unmodified _YKFKRKIP_ 0 0 0 nc|ENSG00000108018|Q8WY21-3|SORCS1;nc|ENSG00000108018|Q8WY21-2|SORCS1;ENST00000473866.1_1_10:108338843-108339191:-|nuORF;ENSG00000156395|ENST00000369701|SORCS3 nc|ENSG00000108018|Q8WY21-3|SORCS1 nc|ENSG00000108018|Q8WY21-3|SORCS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 360.5757751464844 3 360.562321 1078.66514 NaN NaN NaN NaN NaN NaN NaN 36.568 1 36.826 36.326 37.326 0.25768 0 0 0 0.99035 1 16657 16657 0.45834 0.057624 1 38743 9589 24609 24685 43522 43522 0.1289490922749792 YKGQVMVLAP 10 Unmodified _YKGQVMVLAP_ 0 0 0 ENST00000511810.5_1_5:235190-235547:+|nuORF;ENST00000504824.5_1_5:218488-235547:+|nuORF ENST00000511810.5_1_5:235190-235547:+|nuORF ENST00000511810.5_1_5:235190-235547:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.310302734375 2 553.307352 1104.60015 NaN NaN NaN NaN NaN NaN NaN 95.725 1 95.807 95.307 96.307 0.082001 0 0 0 0.99464 1 50674 50674 6.2058 2.2614 1 38744 8497 24610 24686 43523 43523 0.052035466393363095 YKHKQRRKALS 11 Unmodified _YKHKQRRKALS_ 0 0 0 ENSG00000177599|ENST00000323169|ZNF491 ENSG00000177599|ENST00000323169|ZNF491 ENSG00000177599|ENST00000323169|ZNF491 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 707.921630859375 2 707.923126 1413.8317 4.1505 0.0029382 -1.7585 -0.0012449 2.392 0.0016934 707.921570430918 94.758 0.83574 95.375 94.755 95.591 0.61737 80 47 2 0 0 0 0.91391 1 43404 43404 0.30703 0 1 831440 38745 5124 24611 24687 43524 43524 0.14133730385265153 YKHMRIHKRGK 11 Unmodified _YKHMRIHKRGK_ 0 0 0 ENST00000571720.2_1_16:68596924-68598598:+|nuORF;ENSG00000184939|ENST00000563169|ZFP90 ENST00000571720.2_1_16:68596924-68598598:+|nuORF ENST00000571720.2_1_16:68596924-68598598:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.21417236328125 4 364.213487 1452.82484 2.6283 0.00095727 -0.57143 -0.00020812 2.0569 0.00074915 364.21310479770057 57.339 0.67354 58.008 57.957 58.63 0.66829 104 45 4 0 0 0 0.89309 1 26338 26338 1.1098 0.70149 1 4671700 38746 5470 24612 24688 43525 43525 0.11654094232994794 YKIKPRLA 8 Unmodified _YKIKPRLA_ 0 0 0 REV__ENSG00000154734|ENST00000284984|ADAMTS1 REV__ENSG00000154734|ENST00000284984|ADAMTS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 330.5500183105469 3 330.214922 987.622936 1.7184 0.00056746 -0.98259 -0.00032447 0.73585 0.00024299 330.21437068701977 64.681 0.18856 65.396 65.333 65.521 0.71521 26 22 2 0 0 0 0.7471 1 30482 30482 1.6526 0 1 1494900 + 38747 12719 24613 24689 43526 43526 0.12862933819121736 YKIKSRVLMT 10 Unmodified _YKIKSRVLMT_ 0 0 0 ENSG00000146285|ENST00000369020|SCML4 ENSG00000146285|ENST00000369020|SCML4 ENSG00000146285|ENST00000369020|SCML4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.872802734375 2 619.868108 1237.72166 NaN NaN NaN NaN NaN NaN NaN 87.646 1 87.897 87.397 88.397 0.25064 0 0 0 1.0004 1 40335 40335 1.3295 0.13619 1 38748 3510 24614 24690 43527 43527 0.11231169001848684 YKIKSRVLMT 10 Unmodified _YKIKSRVLMT_ 0 0 0 ENSG00000146285|ENST00000369020|SCML4 ENSG00000146285|ENST00000369020|SCML4 ENSG00000146285|ENST00000369020|SCML4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.8728637695312 2 619.868108 1237.72166 NaN NaN NaN NaN NaN NaN NaN 90.955 1 91.207 90.707 91.707 0.25163 0 0 0 1.0004 1 41823 41823 1.3295 0.13619 1 38749 3510 24614 24690 43528 43528 0.11231169001848684 YKIVPKNPYY 10 Unmodified _YKIVPKNPYY_ 0 0 0 ENSG00000111300|ENST00000261745|NAA25;ENST00000549711.5_1_12:112487373-112518932:-|nuORF;nc|ENSG00000111300|Q14CX7-2|NAA25;ENST00000552527.5_1_12:112478245-112546577:-|nuORF ENSG00000111300|ENST00000261745|NAA25 ENSG00000111300|ENST00000261745|NAA25 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 642.8555297851562 2 642.852981 1283.69141 3.921 0.0025206 0.10812 6.9506E-05 4.0291 0.0025901 642.8530333442459 49.85 0.13034 50.507 50.461 50.591 0.65735 6 4 2 0 0 0 0.85706 1 22828 22828 5.7319 0 1 268350 38750 1752 24615 24691 43529 43529 0.060911336083108836 YKKFFCSY 8 Unmodified _YKKFFCSY_ 0 0 0 ENST00000479285.5_1_1:114438859-114442862:-|nuORF;nc|ENSG00000134262|Q9Y6B7-2|AP4B1;ENSG00000134262|ENST00000369569|AP4B1 ENST00000479285.5_1_1:114438859-114442862:-|nuORF ENST00000479285.5_1_1:114438859-114442862:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.8827209472656 3 362.509006 1084.50519 2.3742 0.00086065 -0.17765 -6.4398E-05 2.1965 0.00079625 362.5089109522898 39.833 0.13625 40.634 40.571 40.707 0.80014 7 5 2 0 0 0 0.14244 1 18055 18055 3.5965 0.0094347 1 166410 38751 2795 24616 24692 43530 43530 -0.033683868318348686 YKKKLWKK 8 Unmodified _YKKKLWKK_ 0 0 0 nc|ENSG00000132313|Q9NZE8-2|MRPL35;ENSG00000132313|ENST00000337109|MRPL35 nc|ENSG00000132313|Q9NZE8-2|MRPL35 nc|ENSG00000132313|Q9NZE8-2|MRPL35 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.365234375 2 561.363319 1120.71209 NaN NaN NaN NaN NaN NaN NaN 43.087 1 43.357 42.857 43.857 0.27021 0 0 0 0.99035 1 19669 19669 2.5775 1.976 1 38752 2689 24617 24693 43531 43531 0.15655768778628953 YKKKRSKKS 9 Unmodified _YKKKRSKKS_ 0 0 0 ENST00000477789.5_1_X:119059185-119070773:-|nuORF;ENSG00000101882|ENST00000371410|NKAP ENST00000477789.5_1_X:119059185-119070773:-|nuORF ENST00000477789.5_1_X:119059185-119070773:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 577.2410888671875 2 576.864215 1151.71388 3.2104 0.001852 -4.176 -0.002409 -0.96558 -0.00055701 577.3622729116996 89.424 0.040375 89.424 89.39 89.43 0 6 5 2 0 0 0 1.0041 1 46676 46676 3.9444 0.94915 1 12992000 38753 1317 24618 24694 43532 43532 0.14408777796620598 YKKNLKKRLRN 11 Unmodified _YKKNLKKRLRN_ 0 0 0 REV__ENST00000506674.1_1_4:78804483-78828134:+|nuORF REV__ENST00000506674.1_1_4:78804483-78828134:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 730.9644165039062 2 730.962252 1459.90995 NaN NaN NaN NaN NaN NaN NaN 69.635 1 69.635 69.135 70.135 0 0 0 0 1.0079 1 33656 33656 0 0 1 + 38754 13387 24619 24695 43533 43533 0.19839162970492907 YKKRLRRHVSK 11 Unmodified _YKKRLRRHVSK_ 0 0 0 REV__ENSG00000164603|ENST00000297145|BMT2 REV__ENSG00000164603|ENST00000297145|BMT2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 491.10296630859375 3 490.975788 1469.90553 NaN NaN NaN NaN NaN NaN NaN 64.08 1 64.795 64.295 65.295 0.71521 0 0 0 1.0074 1 30139 30139 1.1098 0 1 + 38755 13099 24620 24696 43534 43534 0.18937698547574655 YKKRLVRKDKR 11 Unmodified _YKKRLVRKDKR_ 0 0 0 REV__ENST00000526813.1_1_11:117059296-117060153:+|nuORF REV__ENST00000526813.1_1_11:117059296-117060153:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 745.475341796875 2 745.475526 1488.9365 NaN NaN NaN NaN NaN NaN NaN 68.163 1 68.416 67.916 68.916 0.25227 0 0 0 1.0082 1 31225 31225 0 0 1 + 38756 12575 24621 24697 43535 43535 0.21158851861787298 YKLEVNQI 8 Unmodified _YKLEVNQI_ 0 0 0 REV__nc|ENSG00000132549|Q7Z7G8-3|VPS13B REV__nc|ENSG00000132549|Q7Z7G8-3|VPS13B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 503.7835388183594 2 503.782025 1005.5495 3.1694 0.0015967 -0.34719 -0.00017491 2.8222 0.0014218 503.7821584802599 35.966 0.31939 36.757 36.606 36.925 0.79131 24 12 3 0 0 0 0.31901 1 16353 16353 34.102 3.4659 1 546390 + 38757 11897 24622 24698 43536 43536 0.04694340586001999 YKLFAWFKE 9 Unmodified _YKLFAWFKE_ 0 0 0 REV__nc|ENSG00000155506|Q6PKG0-3|LARP1 REV__nc|ENSG00000155506|Q6PKG0-3|LARP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 411.2225646972656 3 411.221853 1230.64373 2.9071 0.0011955 -1.2262 -0.00050422 1.681 0.00069125 411.221635536583 38.605 0.58848 39.242 38.845 39.434 0.63778 51 22 4 0 0 0 0.21127 1 17663 17663 22.658 0.85862 1 987170 + 38758 12741 24623 24699 43537 43537 0.03763479408121384 YKLGETTL 8 Unmodified _YKLGETTL_ 0 0 0 ENST00000392900.3_1_7:143551228-143582358:-|nuORF;ENST00000414990.2_3_7:143295168-143301929:+|nuORF;nc|ENSG00000198420|Q9Y4C2-2|TCAF1;ENSG00000198420|ENST00000479870|TCAF1 ENST00000392900.3_1_7:143551228-143582358:-|nuORF ENST00000392900.3_1_7:143551228-143582358:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 462.75518798828125 2 462.755475 923.496398 NaN NaN NaN NaN NaN NaN NaN 65.014 1 65.262 64.762 65.762 0.24803 0 0 0 0.82924 1 29785 29785 16.942 1.0951 1 38759 7524 24624 24700 43538 43538 0.031589628033202644 YKLKDSVYI 9 Unmodified _YKLKDSVYI_ 0 0 0 nc|ENSG00000148308|Q9Y5Q8-2|GTF3C5;ENSG00000148308|ENST00000372097|GTF3C5 nc|ENSG00000148308|Q9Y5Q8-2|GTF3C5 nc|ENSG00000148308|Q9Y5Q8-2|GTF3C5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.8824462890625 3 376.881497 1127.62266 2.2998 0.00086674 0.68315 0.00025747 2.9829 0.0011242 377.2160572579684 25.627 0.17424 26.391 26.307 26.481 0.76356 19 11 2 0 0 0 0.76984 1 11493 11493 4.897 0.70751 1 242090 38760 3598 24625 24701 43539 43539 0.06395469308586144 YKLLIHMRVH 10 Unmodified _YKLLIHMRVH_ 0 0 0 ENST00000467497.6_1_9:3855970-4118001:-|nuORF;nc|ENSG00000107249|Q8NEA6|GLIS3;ENSG00000107249|ENST00000381971|GLIS3;nc|ENSG00000174332|Q8NBF1|GLIS1;ENSG00000174332|ENST00000628545|GLIS1 ENST00000467497.6_1_9:3855970-4118001:-|nuORF ENST00000467497.6_1_9:3855970-4118001:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2584228515625 3 437.256904 1308.74888 3.5065 0.0015332 0.86187 0.00037686 4.3683 0.0019101 437.25716686113356 93.875 1.2314 94.13 93.353 94.585 0.25497 162 59 4 0 0 0 0.94364 1 42976 42976 0.15932 0.01943 1 1485300 38761 1593 24626 24702 43540 43540 0.10685697332905875 YKLLIHMRVH 10 Unmodified _YKLLIHMRVH_ 0 0 0 ENST00000467497.6_1_9:3855970-4118001:-|nuORF;nc|ENSG00000107249|Q8NEA6|GLIS3;ENSG00000107249|ENST00000381971|GLIS3;nc|ENSG00000174332|Q8NBF1|GLIS1;ENSG00000174332|ENST00000628545|GLIS1 ENST00000467497.6_1_9:3855970-4118001:-|nuORF ENST00000467497.6_1_9:3855970-4118001:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 437.2584228515625 3 437.256904 1308.74888 3.559 0.0015562 0.33006 0.00014432 3.8891 0.0017005 437.2569287342316 94.44 0.9575 94.699 94.569 95.527 0.25975 86 55 2 0 0 0 0.94364 1 43348 43348 0.15932 0.064481 1 643350 38762 1593 24626 24702 43541 43541 0.10685697332905875 YKLLIHMRVH 10 Unmodified _YKLLIHMRVH_ 0 0 0 ENST00000467497.6_1_9:3855970-4118001:-|nuORF;nc|ENSG00000107249|Q8NEA6|GLIS3;ENSG00000107249|ENST00000381971|GLIS3;nc|ENSG00000174332|Q8NBF1|GLIS1;ENSG00000174332|ENST00000628545|GLIS1 ENST00000467497.6_1_9:3855970-4118001:-|nuORF ENST00000467497.6_1_9:3855970-4118001:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.2593688964844 3 437.256904 1308.74888 3.2502 0.0014212 0.51648 0.00022584 3.7666 0.001647 437.25701269589587 91.413 0.98799 92.075 91.598 92.586 0.66198 86 46 3 0 0 0 0.94099 2 42034 42034;42197 0.69767 0.24315 1 578490 38763 1593 24626 24702 43542;43543 43542 0.10685697332905875 YKLLIHMRVH 10 Unmodified _YKLLIHMRVH_ 0 0 0 ENST00000467497.6_1_9:3855970-4118001:-|nuORF;nc|ENSG00000107249|Q8NEA6|GLIS3;ENSG00000107249|ENST00000381971|GLIS3;nc|ENSG00000174332|Q8NBF1|GLIS1;ENSG00000174332|ENST00000628545|GLIS1 ENST00000467497.6_1_9:3855970-4118001:-|nuORF ENST00000467497.6_1_9:3855970-4118001:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 437.258544921875 3 437.256904 1308.74888 3.2624 0.0014265 0.68039 0.00029751 3.9428 0.001724 437.2570799771275 93.412 1.3315 94.044 93.329 94.66 0.63115 139 66 3 0 0 0 0.94364 3 42824 42824;42979;43182 0.15932 0.01943 1 1386600 38764 1593 24626 24702 43544;43545;43546 43544 0.10685697332905875 YKLRAVAG 8 Unmodified _YKLRAVAG_ 0 0 0 ADAM9|p.N283Kfs*23|1|0.05|ENSG00000168615|chr8:39023257-39023258|-/AAAGAAATAAAAGTATATA|frameshift_variant ADAM9|p.N283Kfs*23|1|0.05|ENSG00000168615|chr8:39023257-39023258|-/AAAGAAATAAAAGTATATA|frameshift_variant ADAM9|p.N283Kfs*23|1|0.05|ENSG00000168615|chr8:39023257-39023258|-/AAAGAAATAAAAGTATATA|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 439.2663269042969 2 439.266345 876.518136 NaN NaN NaN NaN NaN NaN NaN 60.452 1 61.115 60.615 61.615 0.66261 0 0 0 0.99035 1 27678 27678 0.79363 0 1 38765 11 24627 24703 43547 43547 0.07493812342556794 YKLWYRYLKAR 11 Unmodified _YKLWYRYLKAR_ 0 0 0 ENSG00000076924|ENST00000358368|XAB2;XAB2|p.F209Sfs*78|1|0.15|ENSG00000076924|chr19:7626167-7626167|A/-|frameshift_variant ENSG00000076924|ENST00000358368|XAB2 ENSG00000076924|ENST00000358368|XAB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 520.3438720703125 3 520.633027 1558.87725 NaN NaN NaN NaN NaN NaN NaN 77.139 1 77.139 76.639 77.639 0 0 0 0 1.0082 1 37818 37818 0.094841 0.011491 1 38766 851 24628 24704 43548 43548 0.1201695584763911 YKNVKFVL 8 Unmodified _YKNVKFVL_ 0 0 0 chr3:156544439-156553655|111|15.88|0.86|4.21|-|1|SSR3,SSR3|1;ENST00000467733.1_1_3:156262080-156272878:-|nuORF;ENSG00000114850|ENST00000265044|SSR3;nc|ENSG00000114850|Q9UNL2-2|SSR3 chr3:156544439-156553655|111|15.88|0.86|4.21|-|1|SSR3,SSR3|1 chr3:156544439-156553655|111|15.88|0.86|4.21|-|1|SSR3,SSR3|1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.8070983886719 2 505.805303 1009.59605 NaN NaN NaN NaN NaN NaN NaN 43.024 1 43.294 42.794 43.794 0.27021 0 0 0 0.13118 1 19640 19640 64.236 28.109 1 38767 169 24629 24705 43549 43549 0.09163825207951959 YKNVKFVL 8 Unmodified _YKNVKFVL_ 0 0 0 chr3:156544439-156553655|111|15.88|0.86|4.21|-|1|SSR3,SSR3|1;ENST00000467733.1_1_3:156262080-156272878:-|nuORF;ENSG00000114850|ENST00000265044|SSR3;nc|ENSG00000114850|Q9UNL2-2|SSR3 chr3:156544439-156553655|111|15.88|0.86|4.21|-|1|SSR3,SSR3|1 chr3:156544439-156553655|111|15.88|0.86|4.21|-|1|SSR3,SSR3|1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.8061828613281 2 505.805303 1009.59605 3.4115 0.0017256 -0.16202 -8.1951E-05 3.2495 0.0016436 505.8050016037075 42.324 0.21717 42.97 42.914 43.131 0.64693 24 15 2 0 0 0 0.15009 1 19390 19390 48.346 12.219 1 573660 38768 169 24629 24705 43550 43550 0.09163825207951959 YKQKFIRGF 9 Unmodified _YKQKFIRGF_ 0 0 0 ENSG00000163114|ENST00000295266|PDHA2 ENSG00000163114|ENST00000295266|PDHA2 ENSG00000163114|ENST00000295266|PDHA2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 396.2303771972656 3 396.229231 1185.66586 2.6353 0.0010442 -0.33936 -0.00013446 2.296 0.00090973 396.22896695747284 36.683 0.24598 37.477 37.292 37.538 0.79342 31 12 3 0 0 0 0.76984 2 16584 16584;16642 4.897 3.4419 1 193990 38769 4192 24630 24706 43551;43552 43551 0.08045703876541666 YKQKFIRGF 9 Unmodified _YKQKFIRGF_ 0 0 0 ENSG00000163114|ENST00000295266|PDHA2 ENSG00000163114|ENST00000295266|PDHA2 ENSG00000163114|ENST00000295266|PDHA2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 396.229231 1185.66586 2.6586 0.0010534 0.69341 0.00027475 3.3521 0.0013282 396.22955245611894 37.83 0.24171 37.83 37.694 37.935 0 0.17678 0.00047198 NaN 4.897 16 9 2 NaN NaN NaN NaN 0 NaN NaN 0 423210 38770 4192 24630 24706 0.08045703876541666 YKQMSFLEKRG 11 Unmodified _YKQMSFLEKRG_ 0 0 0 ENSG00000141002|ENST00000263346|TCF25;ENST00000566158.5_1_16:89962405-89965058:+|nuORF;ENST00000563636.5_1_16:89961526-89967207:+|nuORF;ENST00000570116.6_1_16:89962405-89970614:+|nuORF ENSG00000141002|ENST00000263346|TCF25 ENSG00000141002|ENST00000263346|TCF25 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 693.8607788085938 2 693.863554 1385.71256 NaN NaN NaN NaN NaN NaN NaN 56.223 1 57.001 56.501 57.501 0.77786 0 0 0 1.0065 1 25697 25697 2.2828 0.43854 1 38771 3229 24631 24707 43553 43553 0.035127756455267445 YKQRLFRRELE 11 Unmodified _YKQRLFRRELE_ 0 0 0 REV__ENSG00000115297|ENST00000233638|TLX2 REV__ENSG00000115297|ENST00000233638|TLX2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 769.435302734375 2 769.433524 1536.85249 NaN NaN NaN NaN NaN NaN NaN 88.579 1 88.579 88.079 89.079 0 0 0 0 1.0065 1 46000 46000 4.897 4.59 1 + 38772 11355 24632 24708 43554 43554 0.10554275974300253 YKRFYWWEFIL 11 Unmodified _YKRFYWWEFIL_ 0 0 0 REV__nc|ENSG00000004866|Q9NRC1-7|ST7 REV__nc|ENSG00000004866|Q9NRC1-7|ST7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 825.9257202148438 2 825.927012 1649.83947 NaN NaN NaN NaN NaN NaN NaN 82.875 1 83.122 82.622 83.622 0.24722 0 0 0 1.008 1 38148 38148 0.30703 0.30703 1 + 38773 10168 24633 24709 43555 43555 0.04054444862163109 YKRIEQLEQ 9 Unmodified _YKRIEQLEQ_ 0 0 0 REV__DSTYK|p.Y700*|1|0.28|ENSG00000133059|chr1:205160119-205160119|A/-|frameshift_variant REV__DSTYK|p.Y700*|1|0.28|ENSG00000133059|chr1:205160119-205160119|A/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 603.9984741210938 2 603.827495 1205.64044 NaN NaN NaN NaN NaN NaN NaN 48.079 1 48.733 48.233 49.233 0.65356 0 0 0 0.87786 1 22005 22005 6.7232 0.51738 1 + 38774 10141 24634 24710 43556 43556 0.04584184563486815 YKRKEKRRRRK 11 Unmodified _YKRKEKRRRRK_ 0 0 0 ENST00000480732.2_1_1:78407858-78408185:+|nuORF ENST00000480732.2_1_1:78407858-78408185:+|nuORF ENST00000480732.2_1_1:78407858-78408185:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 802.5057373046875 2 802.508223 1603.00189 NaN NaN NaN NaN NaN NaN NaN 90.39 1 90.466 89.966 90.966 0.075279 0 0 0 1.0082 1 46568 46568 0 0 1 38775 8282 24635 24711 43557 43557 0.22451266107509582 YKRKRARRIN 10 Unmodified _YKRKRARRIN_ 0 0 0 REV__ENSG00000166707|ENST00000650639|ZCCHC18 REV__ENSG00000166707|ENST00000650639|ZCCHC18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 680.92041015625 2 680.923461 1359.83237 NaN NaN NaN NaN NaN NaN NaN 26.652 1 26.652 26.152 27.152 0 0 0 0 1.0015 1 12002 12002 0.40072 0.093686 1 + 38776 13256 24636 24712 43558 43558 0.1668456982497446 YKRKRKLPILC 11 Unmodified _YKRKRKLPILC_ 0 0 0 REV__nc|ENSG00000167210|Q8IVV2|LOXHD1 REV__nc|ENSG00000167210|Q8IVV2|LOXHD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.2999267578125 3 473.298991 1416.87514 3.792 0.0017947 0.13928 6.5919E-05 3.9313 0.0018607 473.2990168107481 109.63 1.179 109.94 109.12 110.3 0.31016 82 46 2 0 0 0 0.91489 2 50340 50340;50677 0 0 1 160760 + 38777 13282 24637 24713 43559;43560 43559 0.18338203838197842 YKRRLPIVSPL 11 Unmodified _YKRRLPIVSPL_ 0 0 0 REV__ENST00000273158.8_1_3:39438039-39438222:+|nuORF REV__ENST00000273158.8_1_3:39438039-39438222:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 447.9493713378906 3 447.950357 1340.82924 NaN NaN NaN NaN NaN NaN NaN 97.733 1 98.332 97.832 98.832 0.59885 0 0 0 1.0073 1 44954 44954 1.2148 0 1 + 38778 15069 24638 24714 43561 43561 0.17245881927601658 YKRRWWKKLLV 11 Unmodified _YKRRWWKKLLV_ 0 0 0 REV__ENST00000433473.7_1_1:40558092-40558149:-|nuORF REV__ENST00000433473.7_1_1:40558092-40558149:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 788.4854125976562 2 788.485363 1574.95617 NaN NaN NaN NaN NaN NaN NaN 86.352 1 87.023 86.523 87.523 0.67061 0 0 0 1.0082 1 39765 39765 0 0 1 + 38779 16282 24639 24715 43562 43562 0.19169227872566807 YKRVRYGRWRR 11 Unmodified _YKRVRYGRWRR_ 0 0 0 REV__ENST00000470448.5_1_1:217842389-217915342:+|nuORF REV__ENST00000470448.5_1_1:217842389-217915342:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 798.4608764648438 2 798.460742 1594.90693 NaN NaN NaN NaN NaN NaN NaN 87.228 1 87.267 86.767 87.767 0.039955 0 0 0 1.0082 1 44105 44105 0 0 1 + 38780 12963 24640 24716 43563 43563 0.13327332636322353 YKTIKFIRL 9 Unmodified _YKTIKFIRL_ 0 0 0 REV__nc|ENSG00000198216|Q15878-2|CACNA1E;REV__ENSG00000081248|ENST00000362061|CACNA1S REV__ENSG00000081248|ENST00000362061|CACNA1S MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.9209289550781 3 394.585015 1180.73321 3.1766 0.0012534 0.68076 0.00026862 3.8573 0.001522 394.919640330207 45.946 0.62317 46.597 46.176 46.799 0.65104 32 20 3 0 0 0 0.11383 1 21071 21071 0.26902 0.26902 1 527430 + 38781 10608;14328 24641 24717 43564 43564 0.15007734087498648 YKTIKFIRL 9 Unmodified _YKTIKFIRL_ 0 0 0 REV__nc|ENSG00000198216|Q15878-2|CACNA1E;REV__ENSG00000081248|ENST00000362061|CACNA1S REV__ENSG00000081248|ENST00000362061|CACNA1S MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 394.585015 1180.73321 3.1193 0.0012308 0.60045 0.00023693 3.7197 0.0014677 394.5849963049003 46.644 0.56246 46.91 46.449 47.011 0.26561 0.15635 -6.3439E-05 NaN 0.26902 36 20 2 NaN NaN NaN NaN 0 NaN NaN 0 1576900 + 38782 10608;14328 24641 24717 0.15007734087498648 YKTKQVDFF 9 Unmodified _YKTKQVDFF_ 0 0 0 REV__nc|ENSG00000109066|Q8NE00-2|TMEM104 REV__nc|ENSG00000109066|Q8NE00-2|TMEM104 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 392.5422058105469 3 392.541363 1174.60226 2.4571 0.00096451 0.32913 0.0001292 2.7862 0.0010937 392.5414198777699 46.761 0.33942 46.761 46.603 46.943 0 37 11 4 0 0 0 0.14729 1 21470 21470 24.991 0 1 4971300 + 38783 11163 24642 24718 43565 43565 0.02194298648782933 YKVERHMCDGD 11 Unmodified _YKVERHMCDGD_ 0 0 0 nc|ENSG00000181222|P24928|POLR2A;ENSG00000181222|ENST00000674977|POLR2A;nc|ENSG00000181222|P24928-2|POLR2A;POLR2A|p.L681Sfs*33|1|0.27|ENSG00000181222|chr17:7501098-7501098|C/-|frameshift_variant nc|ENSG00000181222|P24928|POLR2A nc|ENSG00000181222|P24928|POLR2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 676.7915649414062 2 676.789729 1351.56491 NaN NaN NaN NaN NaN NaN NaN 88.432 1 89.11 88.61 89.61 0.67818 0 0 0 1.0074 1 40728 40728 2.7352 2.2769 1 38784 5284 24643 24719 43566 43566 -0.09681483950771508 YKVEYPIMY 9 Unmodified _YKVEYPIMY_ 0 0 0 ENST00000488688.1_1_1:165619084-165620325:+|nuORF;ENST00000477450.1_1_1:165619084-165623023:+|nuORF;ENSG00000143198|ENST00000367889|MGST3 ENST00000488688.1_1_1:165619084-165620325:+|nuORF ENST00000488688.1_1_1:165619084-165620325:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 603.3016357421875 2 603.299193 1204.58383 3.6799 0.0022201 -1.1739 -0.00070823 2.506 0.0015118 603.2987090723192 60.994 0.32185 61.25 61.104 61.426 0.25578 30 13 3 0 0 0 0.053453 2 27952 27952;28003 45.7 26.443 1 713990 38785 3352 24644 24720 43567;43568 43567 -0.0102757931740598 YKVEYPIMY 9 Unmodified _YKVEYPIMY_ 0 0 0 ENST00000488688.1_1_1:165619084-165620325:+|nuORF;ENST00000477450.1_1_1:165619084-165623023:+|nuORF;ENSG00000143198|ENST00000367889|MGST3 ENST00000488688.1_1_1:165619084-165620325:+|nuORF ENST00000488688.1_1_1:165619084-165620325:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 603.3017578125 2 603.299193 1204.58383 3.859 0.0023282 0.021027 1.2685E-05 3.8801 0.0023408 603.2990967902786 60.427 0.27731 61.09 60.936 61.213 0.66261 22 13 2 0 0 0 0.03963 1 27674 27674 51.63 36.792 1 664900 38786 3352 24644 24720 43569 43569 -0.0102757931740598 YKVSMRGIV 9 Unmodified _YKVSMRGIV_ 0 0 0 REV__ENST00000296328.8_1_3:196082862-196082982:-|nuORF REV__ENST00000296328.8_1_3:196082862-196082982:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 351.5367736816406 3 351.535555 1051.58484 2.6736 0.00093987 -0.38623 -0.00013577 2.2874 0.0008041 351.53556082521527 31.568 0.31853 31.568 31.432 31.75 0 63 30 3 0 0 0 0.33646 1 14298 14298 15.248 0.41021 1 856720 + 38787 15150 24645 24721 43570 43570 0.06110679842140598 YKVSMRGIV 9 Unmodified _YKVSMRGIV_ 0 0 0 REV__ENST00000296328.8_1_3:196082862-196082982:-|nuORF REV__ENST00000296328.8_1_3:196082862-196082982:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 351.53668212890625 3 351.535555 1051.58484 3.0372 0.0010677 -0.19145 -6.7303E-05 2.8457 0.0010004 351.5355719923167 31.422 0.36105 31.679 31.53 31.891 0.25614 84 25 5 0 0 0 0.24524 1 14320 14320 20.415 4.6759 1 2545600 + 38788 15150 24645 24721 43571 43571 0.06110679842140598 YKVSMRGIV 9 Unmodified _YKVSMRGIV_ 0 0 0 REV__ENST00000296328.8_1_3:196082862-196082982:-|nuORF REV__ENST00000296328.8_1_3:196082862-196082982:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 351.535555 1051.58484 2.6736 0.00093987 -0.38623 -0.00013577 2.2874 0.0008041 351.53556082521527 31.568 0.31853 31.568 31.432 31.75 0 0.0004601 -0.00017382 NaN 20.415 63 30 3 NaN NaN NaN NaN 0 NaN NaN 0 856720 + 38789 15150 24645 24721 0.06110679842140598 YKVSMRGIV 9 Unmodified _YKVSMRGIV_ 0 0 0 REV__ENST00000296328.8_1_3:196082862-196082982:-|nuORF REV__ENST00000296328.8_1_3:196082862-196082982:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 351.535555 1051.58484 2.474 0.00086971 -0.58371 -0.00020519 1.8903 0.00066452 351.5354220667349 30.667 0.27883 31.456 31.299 31.578 0.78879 -0.11205 -0.00038208 NaN 20.415 45 21 3 NaN NaN NaN NaN 0 NaN NaN 0 909570 + 38790 15150 24645 24721 0.06110679842140598 YKVSPPHK 8 Unmodified _YKVSPPHK_ 0 0 0 REV__ENST00000309608.6_1_8:12285230-12291581:-|nuORF REV__ENST00000309608.6_1_8:12285230-12291581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 478.27276611328125 2 478.271627 954.528701 NaN NaN NaN NaN NaN NaN NaN 39.816 1 40.616 40.116 41.116 0.80014 0 0 0 0.86133 1 18026 18026 14.838 1.3304 1 + 38791 11484 24646 24722 43572 43572 0.0496179499699565 YKWDLDWKRHW 11 Unmodified _YKWDLDWKRHW_ 0 0 0 ENST00000497498.1_1_7:26242252-26242366:+|nuORF ENST00000497498.1_1_7:26242252-26242366:+|nuORF ENST00000497498.1_1_7:26242252-26242366:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 816.9053955078125 2 816.907142 1631.79973 NaN NaN NaN NaN NaN NaN NaN 82.234 1 82.318 81.818 82.818 0.084106 0 0 0 1.0082 1 40584 40584 0 0 1 38792 8453 24647 24723 43573 43573 0.00910317911416314 YKWWQKYQKRK 11 Unmodified _YKWWQKYQKRK_ 0 0 0 nc|ENSG00000113851|Q96SW2-2|CRBN;ENST00000482844.5_1_3:3196419-3214524:-|nuORF;ENST00000491834.5_1_3:3197887-3221343:-|nuORF;ENSG00000113851|ENST00000231948|CRBN nc|ENSG00000113851|Q96SW2-2|CRBN nc|ENSG00000113851|Q96SW2-2|CRBN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 821.4537963867188 2 821.454259 1640.89397 NaN NaN NaN NaN NaN NaN NaN 103.01 1 103.33 102.83 103.83 0.31863 0 0 0 1.0082 1 47637 47637 0 0 1 38793 9598 24648 24724 43574 43574 0.09915456733574501 YKWWQLPYYWV 11 Unmodified _YKWWQLPYYWV_ 0 0 0 ENST00000587908.1_1_19:56832840-56833431:-|nuORF;nc|ENSG00000115159|P43304-2|GPD2;ENSG00000115159|ENST00000438166|GPD2 ENST00000587908.1_1_19:56832840-56833431:-|nuORF ENST00000587908.1_1_19:56832840-56833431:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 816.4058837890625 2 816.405912 1630.79727 NaN NaN NaN NaN NaN NaN NaN 99.58 1 99.642 99.142 100.14 0.062241 0 0 0 1.0082 1 53859 53859 0 0 1 38794 1947 24649 24725 43575 43575 0.00710469453792939 YKYEHLRWYRL 11 Unmodified _YKYEHLRWYRL_ 0 0 0 ENST00000507059.5_1_5:180043993-180056331:-|nuORF;nc|ENSG00000037280|P35916-3|FLT4;nc|ENSG00000037280|P35916-1|FLT4;ENSG00000037280|ENST00000261937|FLT4 ENST00000507059.5_1_5:180043993-180056331:-|nuORF ENST00000507059.5_1_5:180043993-180056331:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 813.7942504882812 2 813.930617 1625.84668 NaN NaN NaN NaN NaN NaN NaN 94.275 1 94.275 93.775 94.775 0 0 0 0 1.0073 1 50525 50525 1.1933 1.1933 1 38795 517 24650 24726 43576 43576 0.05879177462588814 YKYRRWRQWLG 11 Unmodified _YKYRRWRQWLG_ 0 0 0 REV__nc|ENSG00000155542|Q8NE22-2|SETD9 REV__nc|ENSG00000155542|Q8NE22-2|SETD9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.96435546875 3 537.960026 1610.85825 NaN NaN NaN NaN NaN NaN NaN 72.152 1 72.856 72.356 73.356 0.70386 0 0 0 1.008 1 34702 34702 0.094841 0 1 + 38796 12743 24651 24727 43577 43577 0.07725419276584944 YKYTSHKLK 9 Unmodified _YKYTSHKLK_ 0 0 0 REV__nc|ENSG00000148225|Q8NA23-2|WDR31 REV__nc|ENSG00000148225|Q8NA23-2|WDR31 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 389.8901062011719 3 389.888874 1166.64479 2.7912 0.0010883 -0.21499 -8.3823E-05 2.5762 0.0010044 389.8888100986492 26.427 0.3082 26.427 26.355 26.663 0 53 31 2 0 0 0 0.17594 1 11936 11936 24.991 0.1094 1 935980 + 38797 12527 24652 24728 43578 43578 0.06813693777007757 YLAPGRRRNIV 11 Unmodified _YLAPGRRRNIV_ 0 0 0 nc|ENSG00000015153|Q8IY57-4|YAF2 nc|ENSG00000015153|Q8IY57-4|YAF2 nc|ENSG00000015153|Q8IY57-4|YAF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 657.891845703125 2 657.891295 1313.76804 NaN NaN NaN NaN NaN NaN NaN 109.47 1 110.07 109.57 110.57 0.60264 0 0 0 1.0073 1 50486 50486 1.1933 0 1 38798 9539 24653 24729 43579 43579 0.12370369948166626 YLCCDTQME 9 Unmodified _YLCCDTQME_ 0 0 0 nc|ENSG00000186635|Q96P48-7|ARAP1;nc|ENSG00000186635|Q96P48-2|ARAP1;nc|ENSG00000186635|Q96P48-4|ARAP1;nc|ENSG00000186635|Q96P48-1|ARAP1;nc|ENSG00000186635|Q96P48-3|ARAP1;ENSG00000186635|ENST00000393609|ARAP1;ENST00000542612.1_1_11:72398360-72400579:-|nuORF;ENST00000544721.5_1_11:72396711-72399699:-|nuORF;ENST00000465814.5_1_11:72396711-72407721:-|nuORF;nc|ENSG00000186635|Q96P48-5|ARAP1 nc|ENSG00000186635|Q96P48-7|ARAP1 nc|ENSG00000186635|Q96P48-7|ARAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 553.4498291015625 2 553.203578 1104.3926 NaN NaN NaN NaN NaN NaN NaN 47.896 1 48.725 48.225 49.225 0.82915 0 0 0 0.89509 1 21820 21820 4.756 2.4533 1 38799 5580 24654 24730 43580 43580 -0.15541771682501349 YLCLGIQQYLL 11 Unmodified _YLCLGIQQYLL_ 0 0 0 nc|ENSG00000147130|Q14202-2|ZMYM3;ENSG00000147130|ENST00000314425|ZMYM3 nc|ENSG00000147130|Q14202-2|ZMYM3 nc|ENSG00000147130|Q14202-2|ZMYM3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 663.857177734375 2 663.859949 1325.70534 NaN NaN NaN NaN NaN NaN NaN 68.811 1 69.471 68.971 69.971 0.65924 0 0 0 0.95662 1 31543 31543 10.824 4.1008 1 38800 3547 24655 24731 43581 43581 0.055520430451224456 YLCLPLPAL 9 Unmodified _YLCLPLPAL_ 0 0 0 REV__ENST00000581223.2_17:21911572-21911938:+|nuORF REV__ENST00000581223.2_17:21911572-21911938:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 501.8420715332031 2 501.788264 1001.56198 NaN NaN NaN NaN NaN NaN NaN 52.674 1 53.484 52.984 53.984 0.81065 0 0 0 0.44891 1 24001 24001 20.871 1.6142 1 + 38801 17510 24656 24732 43582 43582 0.0612566072466052 YLDLTVATL 9 Unmodified _YLDLTVATL_ 0 0 0 REV__ENSG00000110324|ENST00000227752|IL10RA REV__ENSG00000110324|ENST00000227752|IL10RA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.7863464355469 2 504.784233 1007.55391 NaN NaN NaN NaN NaN NaN NaN 95.362 1 95.97 95.47 96.47 0.60769 0 0 0 0.86044 1 43855 43855 7.2892 0 1 + 38802 11200 24657 24733 43583 43583 0.05043805008892832 YLEERAMRQF 10 Unmodified _YLEERAMRQF_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 448.2870178222656 3 448.223928 1341.64996 2.8995 0.0012996 0.77159 0.00034584 3.671 0.0016454 448.55838739159026 37.684 0.18148 37.684 37.563 37.745 0 11 6 2 0 0 0 0.12676 1 17093 17093 7.4771 2.0744 1 327820 38803 1886 24658 24734 43584 43584 -0.007203704226640184 YLEERAMRQF 10 Unmodified _YLEERAMRQF_ 0 0 0 ENST00000506326.1_1_3:134076549-134085275:-|nuORF;nc|ENSG00000114019|Q9Y2J4-3|AMOTL2;nc|ENSG00000114019|Q9Y2J4|AMOTL2;ENSG00000114019|ENST00000249883|AMOTL2;nc|ENSG00000114019|Q9Y2J4-4|AMOTL2 ENST00000506326.1_1_3:134076549-134085275:-|nuORF ENST00000506326.1_1_3:134076549-134085275:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 448.2875671386719 3 448.223928 1341.64996 2.8126 0.0012607 0.47665 0.00021365 3.2892 0.0014743 448.22411019855036 36.511 0.2331 37.304 37.174 37.407 0.79342 18 11 2 0 0 0 0.12676 1 16553 16553 7.4771 2.0744 1 197860 38804 1886 24658 24734 43585 43585 -0.007203704226640184 YLEFSWMSSLW 11 Unmodified _YLEFSWMSSLW_ 0 0 0 REV__ENST00000430945.5_1_9:94907296-94910408:+|nuORF REV__ENST00000430945.5_1_9:94907296-94910408:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.55780029296875 3 483.556684 1447.64822 2.9865 0.0014441 -0.75153 -0.00036341 2.235 0.0010807 483.55658212490357 68.631 0.25378 69.29 69.165 69.419 0.65924 41 19 3 0 0 0 0.89065 1 31459 31459 2.8433 0.4085 1 571770 + 38805 15654 24659 24735 43586 43586 -0.057694242312663846 YLEKAIKI 8 Unmodified _YLEKAIKI_ 0 0 0 ENST00000565455.5_1_16:8987857-9023250:-|nuORF;nc|ENSG00000187555|Q93009-3|USP7;ENSG00000187555|ENST00000344836|USP7 ENST00000565455.5_1_16:8987857-9023250:-|nuORF ENST00000565455.5_1_16:8987857-9023250:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 489.3064270019531 2 489.305136 976.595718 NaN NaN NaN NaN NaN NaN NaN 43.964 1 44.785 44.285 45.285 0.82075 0 0 0 0.11842 1 20016 20016 49.933 6.0747 1 38806 5622 24660 24736 43587 43587 0.10648405488075241 YLEKYLKLA 9 Unmodified _YLEKYLKLA_ 0 0 0 REV__ENST00000608543.1_1_1:155932320-155932747:-|nuORF REV__ENST00000608543.1_1_1:155932320-155932747:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.8946533203125 3 380.893625 1139.65905 3.0032 0.0011439 -0.4033 -0.00015361 2.5999 0.0009903 380.8933786427892 48.014 0.18462 48.276 48.162 48.347 0.26209 13 7 2 0 0 0 0.98132 1 21967 21967 2.4985 0 1 533930 + 38807 11408 24661 24737 43588 43588 0.09480346205327805 YLELFWII 8 Unmodified _YLELFWII_ 0 0 0 REV__ENST00000565488.5_1_1:108678460-108678724:-|nuORF REV__ENST00000565488.5_1_1:108678460-108678724:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.80712890625 2 548.807511 1095.60047 NaN NaN NaN NaN NaN NaN NaN 65.723 1 66.38 65.88 66.88 0.65672 0 0 0 0.86524 1 30130 30130 14.582 0 1 + 38808 17416 24662 24738 43589 43589 0.056492896308327545 YLENGKETL 9 Unmodified _YLENGKETL_ 0 0 0 nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;ENST00000484704.5_1_6:29691969-29693843:+|nuORF;nc|ENSG00000204642|P30511-2|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF;nc|ENSG00000206341|P01893|HLA-H;ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910749-29913287:+|nuORF nc|ENSG00000204642|P30511|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000206503|ENST00000376809|HLA-A nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.7761840820312 2 533.774396 1065.53424 3.348 0.0017871 0.35818 0.00019119 3.7062 0.0019783 533.7743443756626 29.544 0.21825 29.544 29.432 29.651 0 37 23 2 0 0 0 0.11155 2 13318 13318;13368 29.841 8.3036 1 636200 38809 6014;6072;6028 24663 24739 43590;43591 43590 0.004094289981594557 YLENGKETL 9 Unmodified _YLENGKETL_ 0 0 0 nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;ENST00000484704.5_1_6:29691969-29693843:+|nuORF;nc|ENSG00000204642|P30511-2|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF;nc|ENSG00000206341|P01893|HLA-H;ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910749-29913287:+|nuORF nc|ENSG00000204642|P30511|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000206503|ENST00000376809|HLA-A nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.7765502929688 2 533.774396 1065.53424 3.1855 0.0017003 0.52326 0.0002793 3.7088 0.0019796 533.7743369701691 28.544 0.26116 29.333 29.223 29.485 0.78921 31 20 2 0 0 0 0.023321 1 12870 12870 63.961 27.833 1 641660 38810 6014;6072;6028 24663 24739 43592 43592 0.004094289981594557 YLENGKETL 9 Unmodified _YLENGKETL_ 0 0 0 nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;ENST00000484704.5_1_6:29691969-29693843:+|nuORF;nc|ENSG00000204642|P30511-2|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF;nc|ENSG00000206341|P01893|HLA-H;ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910749-29913287:+|nuORF nc|ENSG00000204642|P30511|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000206503|ENST00000376809|HLA-A nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.7764892578125 2 533.774396 1065.53424 3.1442 0.0016783 1.0486 0.00055971 4.1928 0.002238 533.7747507812212 29.335 0.26421 29.595 29.39 29.654 0.2602 28 16 2 0 0 0 0.21008 1 13319 13319 22.736 0 1 362150 38811 6014;6072;6028 24663 24739 43593 43593 0.004094289981594557 YLENGKETL 9 Unmodified _YLENGKETL_ 0 0 0 nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;ENST00000484704.5_1_6:29691969-29693843:+|nuORF;nc|ENSG00000204642|P30511-2|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF;nc|ENSG00000206341|P01893|HLA-H;ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910749-29913287:+|nuORF nc|ENSG00000204642|P30511|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000206503|ENST00000376809|HLA-A nc|ENSG00000204525|P10321-2|HLA-C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.7765502929688 2 533.774396 1065.53424 NaN NaN NaN NaN NaN NaN NaN 29.377 1 29.636 29.136 30.136 0.25882 0 0 0 0.40345 1 13369 13369 22.736 4.6013 1 38812 6014;6072;6028 24663 24739 43594 43594 0.004094289981594557 YLENGKETL 9 Unmodified _YLENGKETL_ 0 0 0 nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;ENST00000484704.5_1_6:29691969-29693843:+|nuORF;nc|ENSG00000204642|P30511-2|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF;nc|ENSG00000206341|P01893|HLA-H;ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910749-29913287:+|nuORF nc|ENSG00000204642|P30511|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000206503|ENST00000376809|HLA-A nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.7758178710938 2 533.774396 1065.53424 3.2166 0.0017169 0.44229 0.00023608 3.6589 0.001953 533.7743875505732 28.97 0.13542 29.588 29.54 29.675 0.61789 17 9 2 0 0 0 0.22824 1 13304 13304 21.537 4.4241 1 528690 38813 6014;6072;6028 24663 24739 43595 43595 0.004094289981594557 YLENGKETL 9 Unmodified _YLENGKETL_ 0 0 0 nc|ENSG00000204642|P30511|HLA-F;ENSG00000204642|ENST00000259951|HLA-F;ENST00000484704.5_1_6:29691969-29693843:+|nuORF;nc|ENSG00000204642|P30511-2|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000487245.5_1_6:31236948-31239147:-|nuORF;nc|ENSG00000206341|P01893|HLA-H;ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000496081.5_1_6:29910330-29912419:+|nuORF;ENST00000495183.5_1_6:29910749-29913287:+|nuORF nc|ENSG00000204642|P30511|HLA-F;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000206503|ENST00000376809|HLA-A nc|ENSG00000204525|P10321-2|HLA-C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 533.774396 1065.53424 3.1442 0.0016783 1.0486 0.00055971 4.1928 0.002238 533.7747507812212 29.335 0.26421 29.595 29.39 29.654 0.2602 0.079949 0.0004953 NaN 63.961 28 16 2 NaN NaN NaN NaN 0 NaN NaN 0 362150 38814 6014;6072;6028 24663 24739 0.004094289981594557 YLERRPKVKHI 11 Unmodified _YLERRPKVKHI_ 0 0 0 nc|nan|Q8N4C9-2|C17orf78;ENSG00000278505|ENST00000615133|C17orf78 nc|nan|Q8N4C9-2|C17orf78 nc|nan|Q8N4C9-2|C17orf78 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 719.719482421875 2 719.935702 1437.85685 NaN NaN NaN NaN NaN NaN NaN 66.019 1 66.019 65.519 66.519 0 0 0 0 1.0061 1 31497 31497 2.7352 0.23671 1 38815 6360 24664 24740 43596 43596 0.15543785187833237 YLESELDLIE 10 Unmodified _YLESELDLIE_ 0 0 0 REV__nc|ENSG00000110076|Q9P2S2-2|NRXN2 REV__nc|ENSG00000110076|Q9P2S2-2|NRXN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 408.5398254394531 3 408.539576 1222.5969 NaN NaN NaN NaN NaN NaN NaN 18.205 1 18.507 18.007 19.007 0.30158 0 0 0 0.99812 1 8251 8251 3.3196 0 1 + 38816 11195 24665 24741 43597 43597 -0.00549469724296614 YLEVRREM 8 Unmodified _YLEVRREM_ 0 0 0 nc|ENSG00000214694|A8MVX0|ARHGEF33;ENSG00000214694|ENST00000409978|ARHGEF33 nc|ENSG00000214694|A8MVX0|ARHGEF33 nc|ENSG00000214694|A8MVX0|ARHGEF33 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 365.8524475097656 3 365.858698 1094.55426 NaN NaN NaN NaN NaN NaN NaN 12.7 1 13.343 12.843 13.843 0.64272 0 0 0 0.87555 1 5701 5701 13.906 0 1 38817 6117 24666 24742 43598 43598 0.010769014571224034 YLFREEHWTWF 11 Unmodified _YLFREEHWTWF_ 0 0 0 REV__nc|ENSG00000293442|O43930|PRKY REV__nc|ENSG00000293442|O43930|PRKY MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 807.3805541992188 2 807.380426 1612.7463 NaN NaN NaN NaN NaN NaN NaN 68.267 1 68.267 67.767 68.767 0 0 0 0 1.0082 1 32860 32860 0 0 1 + 38818 17112 24667 24743 43599 43599 -0.035564795910659086 YLFVVLSWAF 10 Unmodified _YLFVVLSWAF_ 0 0 0 ENST00000526995.5_1_11:36511020-36511152:-|nuORF ENST00000526995.5_1_11:36511020-36511152:-|nuORF ENST00000526995.5_1_11:36511020-36511152:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 622.8400268554688 2 622.839342 1243.66413 NaN NaN NaN NaN NaN NaN NaN 69.902 1 70.563 70.063 71.063 0.66071 0 0 0 1.0001 1 32050 32050 1.6526 0 1 38819 8682 24668 24744 43600 43600 0.0520465006793529 YLHLSVLRTE 10 Unmodified _YLHLSVLRTE_ 0 0 0 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 ENSG00000125730|ENST00000245907|C3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 615.9910888671875 2 615.845687 1229.67682 NaN NaN NaN NaN NaN NaN NaN 97.401 1 97.401 96.901 97.901 0 0 0 0 0.99572 1 53014 53014 5.2969 0.39987 1 38820 2416 24669 24745 43601 43601 0.07117061460212426 YLHPHRLPL 9 Unmodified _YLHPHRLPL_ 0 0 0 ENST00000245615.5_1_19:54692294-54692348:-|nuORF ENST00000245615.5_1_19:54692294-54692348:-|nuORF ENST00000245615.5_1_19:54692294-54692348:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 382.5586242675781 3 382.557459 1144.65055 3.1897 0.0012202 0.5114 0.00019564 3.7011 0.0014159 382.557493632583 30.472 0.38563 30.728 30.564 30.95 0.25614 39 21 3 0 0 0 0.55815 1 13858 13858 11.495 6.1978 1 341730 38821 6485 24670 24746 43602 43602 0.08400837079352641 YLILAWLL 8 Unmodified _YLILAWLL_ 0 0 0 REV__ENSG00000204300|ENST00000375026|TMEM225 REV__ENSG00000204300|ENST00000375026|TMEM225 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 502.8171691894531 2 502.812596 1003.61064 NaN NaN NaN NaN NaN NaN NaN 101.48 1 102.08 101.58 102.58 0.59717 0 0 0 0.99035 1 46986 46986 2.8892 0.31174 1 + 38822 14410 24671 24747 43603 43603 0.10897897356085195 YLIRAQVF 8 Unmodified _YLIRAQVF_ 0 0 0 REV__ENST00000517754.1_1_8:26221160-26227926:+|nuORF REV__ENST00000517754.1_1_8:26221160-26227926:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 337.1993408203125 3 337.19916 1008.57565 NaN NaN NaN NaN NaN NaN NaN 24.617 1 25.353 24.853 25.853 0.73623 0 0 0 0.99035 1 11034 11034 0.45834 0 1 + 38823 17025 24672 24748 43604 43604 0.0717065454813337 YLISLLKVVLV 11 Unmodified _YLISLLKVVLV_ 0 0 0 REV__ENSG00000172954|ENST00000379509|LCLAT1 REV__ENSG00000172954|ENST00000379509|LCLAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 630.422607421875 2 630.4205 1258.82645 NaN NaN NaN NaN NaN NaN NaN 97.791 1 97.791 97.291 98.291 0 0 0 0 1.008 1 53356 53356 0.35063 0 1 + 38824 13575 24673 24749 43605 43605 0.2073861375006345 YLIVPPDKLI 10 Unmodified _YLIVPPDKLI_ 0 0 0 REV__nc|ENSG00000131269|O75027-3|ABCB7 REV__nc|ENSG00000131269|O75027-3|ABCB7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 585.8602294921875 2 585.860275 1169.706 NaN NaN NaN NaN NaN NaN NaN 109.56 1 110.16 109.66 110.66 0.60264 0 0 0 1.0003 1 50525 50525 1.4819 0 1 + 38825 11852 24674 24750 43606 43606 0.12793205756452153 YLIYISVV 8 Unmodified _YLIYISVV_ 0 0 0 REV__chrX:70610543-70613253|397|28.71|0.16|7.46|-|1|TE_info:L1M1,L1M1_dup5345,L1,LINE,donor,+,70613253,70616531|TEX11,None|10 REV__chrX:70610543-70613253|397|28.71|0.16|7.46|-|1|TE_info:L1M1,L1M1_dup5345,L1,LINE,donor,+,70613253,70616531|TEX11,None|10 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.2887878417969 2 485.286411 968.55827 NaN NaN NaN NaN NaN NaN NaN 54.081 1 54.876 54.376 55.376 0.79552 0 0 0 0.99035 1 24676 24676 5.7604 0 1 + 38826 10061 24675 24751 43607 43607 0.07273314222470617 YLIYNGNQI 9 Unmodified _YLIYNGNQI_ 0 0 0 REV__ENSG00000090402|ENST00000264382|SI REV__ENSG00000090402|ENST00000264382|SI MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.2899780273438 2 549.284931 1096.55531 NaN NaN NaN NaN NaN NaN NaN 52.264 1 52.264 51.764 52.764 0 0 0 0 0.3934 1 23931 23931 23.148 0 1 + 38827 10709 24676 24752 43608 43608 0.010894390976773138 YLKFFKHIRKL 11 Unmodified _YLKFFKHIRKL_ 0 0 0 ENSG00000225180|ENST00000637878|PVALEF ENSG00000225180|ENST00000637878|PVALEF ENSG00000225180|ENST00000637878|PVALEF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 373.9851379394531 4 373.984233 1491.90782 2.8795 0.0010769 -0.1478 -5.5274E-05 2.7317 0.0010216 373.98417065026536 39.829 0.21368 40.47 40.355 40.569 0.64136 15 9 2 0 0 0 0.91459 1 18242 18242 0.094841 0 1 564300 38828 6166 24677 24753 43609 43609 0.18154734232689407 YLKFLVVWAL 10 Unmodified _YLKFLVVWAL_ 0 0 0 ENSG00000204178|ENST00000374343|MACO1;nc|ENSG00000204178|Q8N5G2-3|MACO1 ENSG00000204178|ENST00000374343|MACO1 ENSG00000204178|ENST00000374343|MACO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 417.9225158691406 3 417.921515 1250.74272 3.7775 0.0015787 0.17518 7.3213E-05 3.9526 0.0016519 417.9215800975659 109.68 1.4478 109.99 108.85 110.3 0.31015 70 58 2 0 0 0 0.94443 1 50557 50557 0 0 1 122710 38829 5989 24678 24754 43610 43610 0.12737502373056486 YLKHRLIVV 9 Unmodified _YLKHRLIVV_ 0 0 0 nc|ENSG00000170581|P52630-4|STAT2;ENSG00000170581|ENST00000314128|STAT2;ENST00000556539.5_1_12:56737175-56743495:-|nuORF nc|ENSG00000170581|P52630-4|STAT2 nc|ENSG00000170581|P52630-4|STAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.9146728515625 3 380.913243 1139.7179 3.2835 0.0012507 -0.13611 -5.1848E-05 3.1474 0.0011989 380.9131633151229 31.491 0.48629 31.747 31.543 32.029 0.25614 100 37 4 0 0 0 0.041436 3 14340 14299;14340;14383 38.176 22.026 1 2146400 38830 4759 24679 24755 43611;43612;43613 43612 0.15362867290309623 YLKHRLIVV 9 Unmodified _YLKHRLIVV_ 0 0 0 nc|ENSG00000170581|P52630-4|STAT2;ENSG00000170581|ENST00000314128|STAT2;ENST00000556539.5_1_12:56737175-56743495:-|nuORF nc|ENSG00000170581|P52630-4|STAT2 nc|ENSG00000170581|P52630-4|STAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 570.8684692382812 2 570.866226 1139.7179 3.9306 0.0022439 -0.21174 -0.00012087 3.7189 0.002123 570.8660573380567 31.498 0.26088 31.754 31.65 31.911 0.25614 38 18 4 0 0 0 0.10169 2 14333 14333;14380 32.305 25.016 1 337400 38831 4759 24679 24755 43614;43615 43614 0.15362867290309623 YLKHRLIVV 9 Unmodified _YLKHRLIVV_ 0 0 0 nc|ENSG00000170581|P52630-4|STAT2;ENSG00000170581|ENST00000314128|STAT2;ENST00000556539.5_1_12:56737175-56743495:-|nuORF nc|ENSG00000170581|P52630-4|STAT2 nc|ENSG00000170581|P52630-4|STAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.9145202636719 3 380.913243 1139.7179 2.7376 0.0010428 0.25169 9.5872E-05 2.9893 0.0011387 380.91333021670243 31.024 0.37377 31.642 31.435 31.809 0.61737 79 24 4 0 0 0 0.028312 3 14235 14193;14235;14284 43.772 32.278 1 2744200 38832 4759 24679 24755 43616;43617;43618 43617 0.15362867290309623 YLKHRLIVV 9 Unmodified _YLKHRLIVV_ 0 0 0 nc|ENSG00000170581|P52630-4|STAT2;ENSG00000170581|ENST00000314128|STAT2;ENST00000556539.5_1_12:56737175-56743495:-|nuORF nc|ENSG00000170581|P52630-4|STAT2 nc|ENSG00000170581|P52630-4|STAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 570.8677978515625 2 570.866226 1139.7179 3.6334 0.0020742 -0.15343 -8.7587E-05 3.48 0.0019866 570.8661903111802 31.04 0.26274 31.658 31.505 31.768 0.61737 28 17 2 0 0 0 0.052704 1 14226 14226 46.021 34.381 1 394590 38833 4759 24679 24755 43619 43619 0.15362867290309623 YLKIKLKYKR 10 Unmodified _YLKIKLKYKR_ 0 0 0 REV__ENST00000379638.8_1_5:112214131-112214335:-|nuORF REV__ENST00000379638.8_1_5:112214131-112214335:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 677.00537109375 2 676.942465 1351.87038 NaN NaN NaN NaN NaN NaN NaN 97.876 1 97.876 97.376 98.376 0 0 0 0 1.0015 1 53431 53431 0.45834 0 1 + 38834 15869 24680 24756 43620 43620 0.20851642967045336 YLKIRRKKQLW 11 Unmodified _YLKIRRKKQLW_ 0 0 0 REV__nc|ENSG00000146414|Q149N8-2|SHPRH REV__nc|ENSG00000146414|Q149N8-2|SHPRH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 766.4835205078125 2 766.48282 1530.95109 NaN NaN NaN NaN NaN NaN NaN 84.746 1 84.746 84.246 85.246 0 0 0 0 1.0082 1 42975 42975 0 0 1 + 38835 12475 24681 24757 43621 43621 0.20684924009970018 YLKLRHWQWWR 11 Unmodified _YLKLRHWQWWR_ 0 0 0 nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000105357|Q7Z406|MYH14;nc|ENSG00000105357|Q7Z406-6|MYH14;ENSG00000105357|ENST00000642316|MYH14;nc|ENSG00000105357|Q7Z406-5|MYH14;nc|ENSG00000133026|P35580|MYH10;nc|ENSG00000133026|P35580-5|MYH10;nc|ENSG00000133026|P35580-2|MYH10;nc|ENSG00000133026|P35580-3|MYH10;ENSG00000133026|ENST00000360416|MYH10 nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000133026|P35580|MYH10 nc|ENSG00000105357|Q7Z406-4|MYH14 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 836.1923217773438 2 836.454594 1670.89463 NaN NaN NaN NaN NaN NaN NaN 44.788 1 45.056 44.556 45.556 0.26768 0 0 0 1.0082 1 20471 20471 0 0 1 38836 1487;2742 24682 24758 43622 43622 0.0860229617328514 YLKMWKRLWDW 11 Unmodified _YLKMWKRLWDW_ 0 0 0 THE1D-int_dup324|chr2:208859014-208859767:+|2.4653422611636326|0.1480688773718127|4.06|526.0|20|3|sense THE1D-int_dup324|chr2:208859014-208859767:+|2.4653422611636326|0.1480688773718127|4.06|526.0|20|3|sense THE1D-int_dup324|chr2:208859014-208859767:+|2.4653422611636326|0.1480688773718127|4.06|526.0|20|3|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 812.9268188476562 2 812.926489 1623.83842 NaN NaN NaN NaN NaN NaN NaN 103.45 1 103.45 102.95 103.95 0 0 0 0 1.0082 1 57014 57014 0 0 1 38837 18268 24683 24759 43623 43623 0.05145907221617563 YLKNREVRL 9 Unmodified _YLKNREVRL_ 0 0 0 ENSG00000198876|ENST00000361264|DCAF12 ENSG00000198876|ENST00000361264|DCAF12 ENSG00000198876|ENST00000361264|DCAF12 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 397.572021484375 3 397.571657 1189.69314 2.8056 0.0011154 -0.25377 -0.00010089 2.5518 0.0010145 397.5714687310832 18.268 0.24716 18.57 18.406 18.653 0.30158 31 24 2 0 0 0 1.0081 1 8246 8246 3.8763 3.8763 1 137450 38838 5955 24684 24760 43624 43624 0.10588187416942674 YLKRDWCK 8 Unmodified _YLKRDWCK_ 0 0 0 nc|ENSG00000166923|O60565-2|GREM1;ENSG00000166923|ENST00000651154|GREM1 nc|ENSG00000166923|O60565-2|GREM1 nc|ENSG00000166923|O60565-2|GREM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.7935180664062 2 556.289494 1110.56443 3.2549 0.0018107 0.21515 0.00011968 3.47 0.0019303 556.2890653341628 69.138 0.20377 69.797 69.719 69.923 0.65954 18 12 2 0 0 0 0.64692 1 31744 31744 10.183 0.80027 1 545890 38839 4516 24685 24761 43625 43625 0.013575091823440744 YLKSKGAEI 9 Unmodified _YLKSKGAEI_ 0 0 0 ENST00000531186.5_1_11:32605433-32610279:+|nuORF;ENSG00000149100|ENST00000531120|EIF3M ENST00000531186.5_1_11:32605433-32610279:+|nuORF ENST00000531186.5_1_11:32605433-32610279:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 504.7915344238281 2 504.78985 1007.56515 3.344 0.001688 0.33008 0.00016662 3.6741 0.0018547 504.7900049435329 14.175 0.094411 14.824 14.782 14.876 0.64819 27 15 3 0 0 0 0.007234 1 6376 6376 93.938 36.216 1 3346000 38840 3626 24686 24762 43626 43626 0.06166627103038991 YLKSKGAEI 9 Unmodified _YLKSKGAEI_ 0 0 0 ENST00000531186.5_1_11:32605433-32610279:+|nuORF;ENSG00000149100|ENST00000531120|EIF3M ENST00000531186.5_1_11:32605433-32610279:+|nuORF ENST00000531186.5_1_11:32605433-32610279:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 504.78985 1007.56515 2.991 0.0015098 -0.1192 -6.0171E-05 2.8718 0.0014497 504.78983490146226 14.252 0.096601 14.559 14.515 14.612 0.3069 -0.26183 -0.00055309 NaN 93.938 10 5 3 NaN NaN NaN NaN 0 NaN NaN 0 1814100 38841 3626 24686 24762 0.06166627103038991 YLKVKGNVF 9 Unmodified _YLKVKGNVF_ 0 0 0 ENSG00000108298|ENST00000225430|RPL19;ENST00000498753.1_1_3:141762467-141763034:-|nuORF;ENST00000472309.1_1_4:179208113-179208287:+|nuORF;ENST00000429272.1_1_2:131051524-131051887:+|nuORF;ENST00000418154.1_1_1:64254543-64254969:-|nuORF ENSG00000108298|ENST00000225430|RPL19 ENSG00000108298|ENST00000225430|RPL19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 534.3174438476562 2 534.316035 1066.61752 3.0662 0.0016383 0.83149 0.00044428 3.8977 0.0020826 534.3164263494292 36.715 0.29382 36.715 36.571 36.865 0 29 13 3 0 0 0 0.032303 2 16661 16661;16709 54.774 18.647 1 972080 38842 1627 24687 24763 43627;43628 43627 0.08687210236666942 YLKVKGNVF 9 Unmodified _YLKVKGNVF_ 0 0 0 ENSG00000108298|ENST00000225430|RPL19;ENST00000498753.1_1_3:141762467-141763034:-|nuORF;ENST00000472309.1_1_4:179208113-179208287:+|nuORF;ENST00000429272.1_1_2:131051524-131051887:+|nuORF;ENST00000418154.1_1_1:64254543-64254969:-|nuORF ENSG00000108298|ENST00000225430|RPL19 ENSG00000108298|ENST00000225430|RPL19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 534.3177490234375 2 534.316035 1066.61752 3.0517 0.0016306 0.41927 0.00022402 3.471 0.0018546 534.3161970094299 36.596 0.34499 36.854 36.673 37.018 0.25768 32 12 3 0 0 0 0.0012997 2 16701 16642;16701 120.45 55.215 1 2646400 38843 1627 24687 24763 43629;43630 43630 0.08687210236666942 YLKVKGNVF 9 Unmodified _YLKVKGNVF_ 0 0 0 ENSG00000108298|ENST00000225430|RPL19;ENST00000498753.1_1_3:141762467-141763034:-|nuORF;ENST00000472309.1_1_4:179208113-179208287:+|nuORF;ENST00000429272.1_1_2:131051524-131051887:+|nuORF;ENST00000418154.1_1_1:64254543-64254969:-|nuORF ENSG00000108298|ENST00000225430|RPL19 ENSG00000108298|ENST00000225430|RPL19 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 534.3181762695312 2 534.316035 1066.61752 3.3376 0.0017833 0.27639 0.00014768 3.6139 0.001931 534.3161541846217 35.992 0.27016 36.618 36.491 36.762 0.62631 23 8 3 0 0 0 0.00033079 2 16476 16476;16531 133.7 48.43 1 3507100 38844 1627 24687 24763 43631;43632 43631 0.08687210236666942 YLKVKGNVF 9 Unmodified _YLKVKGNVF_ 0 0 0 ENSG00000108298|ENST00000225430|RPL19;ENST00000498753.1_1_3:141762467-141763034:-|nuORF;ENST00000472309.1_1_4:179208113-179208287:+|nuORF;ENST00000429272.1_1_2:131051524-131051887:+|nuORF;ENST00000418154.1_1_1:64254543-64254969:-|nuORF ENSG00000108298|ENST00000225430|RPL19 ENSG00000108298|ENST00000225430|RPL19 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 534.316035 1066.61752 3.2044 0.0017122 -0.30426 -0.00016257 2.9002 0.0015496 534.8165343364875 35.742 0.16065 36.534 36.406 36.567 0.79131 -0.14664 -0.00076773 NaN 133.7 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 1739600 38845 1627 24687 24763 0.08687210236666942 YLKVLRLSIE 10 Unmodified _YLKVLRLSIE_ 0 0 0 REV__ENSG00000147251|ENST00000276202|DOCK11 REV__ENSG00000147251|ENST00000276202|DOCK11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 617.4225463867188 2 617.381906 1232.74926 NaN NaN NaN NaN NaN NaN NaN 55.05 1 55.05 54.55 55.55 0 0 0 0 0.99877 1 25278 25278 2.7352 0.89096 1 + 38846 12499 24688 24764 43633 43633 0.14219395533768875 YLKVLVDSL 9 Unmodified _YLKVLVDSL_ 0 0 0 ENSG00000155561|ENST00000285968|NUP205 ENSG00000155561|ENST00000285968|NUP205 ENSG00000155561|ENST00000285968|NUP205 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.3176879882812 2 525.3157 1048.61685 3.5555 0.0018678 -0.44798 -0.00023533 3.1076 0.0016324 525.3152947277597 67.258 0.1982 67.508 67.401 67.599 0.2501 22 12 2 0 0 0 0.023321 1 30817 30817 63.961 33.324 1 626600 38847 3868 24689 24765 43634 43634 0.09448370796940253 YLKVLVDSL 9 Unmodified _YLKVLVDSL_ 0 0 0 ENSG00000155561|ENST00000285968|NUP205 ENSG00000155561|ENST00000285968|NUP205 ENSG00000155561|ENST00000285968|NUP205 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 525.317138671875 2 525.3157 1048.61685 3.3413 0.0017552 0.25416 0.00013351 3.5954 0.0018887 525.3154472619456 66.627 0.22427 67.284 67.162 67.386 0.65672 27 13 3 0 0 0 0.023321 1 30556 30556 63.961 33.324 1 663460 38848 3868 24689 24765 43635 43635 0.09448370796940253 YLKVRPDEI 9 Unmodified _YLKVRPDEI_ 0 0 0 nc|ENSG00000108312|P17480-2|UBTF nc|ENSG00000108312|P17480-2|UBTF nc|ENSG00000108312|P17480-2|UBTF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 378.2181091308594 3 378.21688 1131.62881 2.7853 0.0010535 0.042148 1.5941E-05 2.8275 0.0010694 378.21691053902924 35.56 0.28696 36.186 36.03 36.317 0.62631 22 9 4 0 0 0 0.30982 1 16289 16289 16.149 3.1066 1 992710 38849 9590 24690 24766 43636 43636 0.06825987540150891 YLLEKSRAI 9 Unmodified _YLLEKSRAI_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000105357|Q7Z406|MYH14;nc|ENSG00000105357|Q7Z406-6|MYH14;ENSG00000105357|ENST00000642316|MYH14;nc|ENSG00000105357|Q7Z406-5|MYH14 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 364.88616943359375 3 364.885241 1091.63389 2.7578 0.0010063 0.23331 8.5132E-05 2.9912 0.0010914 364.8851710788078 32.242 0.25645 32.242 32.198 32.455 0 41 23 2 0 0 0 0.017293 2 14641 14590;14641 57.249 13.267 1 1324800 38850 1207;2759;1487 24691 24767 43637;43638 43638 0.09174291402746348 YLLEKSRAI 9 Unmodified _YLLEKSRAI_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000105357|Q7Z406|MYH14;nc|ENSG00000105357|Q7Z406-6|MYH14;ENSG00000105357|ENST00000642316|MYH14;nc|ENSG00000105357|Q7Z406-5|MYH14 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 546.8262939453125 2 546.824224 1091.63389 3.7457 0.0020482 -0.58246 -0.00031851 3.1632 0.0017297 546.8240248206542 32.304 0.25388 32.304 32.216 32.47 0 35 21 2 0 0 0 0.078225 2 14673 14619;14673 38.176 5.3899 1 1016000 38851 1207;2759;1487 24691 24767 43639;43640 43640 0.09174291402746348 YLLEKSRAI 9 Unmodified _YLLEKSRAI_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000105357|Q7Z406|MYH14;nc|ENSG00000105357|Q7Z406-6|MYH14;ENSG00000105357|ENST00000642316|MYH14;nc|ENSG00000105357|Q7Z406-5|MYH14 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.825927734375 2 546.824224 1091.63389 3.2269 0.0017645 0.080687 4.4121E-05 3.3075 0.0018086 546.824105882146 31.333 0.20114 32.122 31.997 32.198 0.78879 33 15 3 0 0 0 0.078225 1 14123 14123 38.176 5.3899 1 1059400 38852 1207;2759;1487 24691 24767 43641 43641 0.09174291402746348 YLLEKSRAI 9 Unmodified _YLLEKSRAI_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000105357|Q7Z406|MYH14;nc|ENSG00000105357|Q7Z406-6|MYH14;ENSG00000105357|ENST00000642316|MYH14;nc|ENSG00000105357|Q7Z406-5|MYH14 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 364.8862609863281 3 364.885241 1091.63389 2.4262 0.00088528 0.15089 5.5058E-05 2.5771 0.00094034 364.88519506952724 31.352 0.22786 32.14 31.986 32.214 0.78879 42 18 3 0 0 0 0.0046538 2 14129 14129;14177 74.2 30.218 1 1984500 38853 1207;2759;1487 24691 24767 43642;43643 43642 0.09174291402746348 YLLEKSRAI 9 Unmodified _YLLEKSRAI_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000105357|Q7Z406|MYH14;nc|ENSG00000105357|Q7Z406-6|MYH14;ENSG00000105357|ENST00000642316|MYH14;nc|ENSG00000105357|Q7Z406-5|MYH14 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 364.8860778808594 3 364.885241 1091.63389 2.9676 0.0010828 -0.077637 -2.8329E-05 2.8899 0.0010545 364.8851554138134 32.149 0.36087 32.404 32.232 32.593 0.25452 71 27 4 0 0 0 0.017293 3 14603 14603;14656;14699 57.249 20.174 1 8487600 38854 1207;2759;1487 24691 24767 43644;43645;43646 43644 0.09174291402746348 YLLEKSRAI 9 Unmodified _YLLEKSRAI_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000105357|Q7Z406|MYH14;nc|ENSG00000105357|Q7Z406-6|MYH14;ENSG00000105357|ENST00000642316|MYH14;nc|ENSG00000105357|Q7Z406-5|MYH14 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 546.8259887695312 2 546.824224 1091.63389 3.889 0.0021266 -0.081255 -4.4432E-05 3.8078 0.0020822 546.824062808809 32.139 0.33139 32.393 32.232 32.564 0.25452 58 24 3 0 0 0 0.020338 3 14658 14605;14658;14701 67.838 16.208 1 5182200 38855 1207;2759;1487 24691 24767 43647;43648;43649 43648 0.09174291402746348 YLLEKSRAI 9 Unmodified _YLLEKSRAI_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000105357|Q7Z406|MYH14;nc|ENSG00000105357|Q7Z406-6|MYH14;ENSG00000105357|ENST00000642316|MYH14;nc|ENSG00000105357|Q7Z406-5|MYH14 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.88616943359375 3 364.885241 1091.63389 2.5663 0.00093641 0.42253 0.00015417 2.9889 0.0010906 364.88534570376635 31.516 0.29177 32.134 31.989 32.281 0.61737 75 22 5 0 0 0 0.0046538 3 14460 14417;14460;14502 74.2 22.784 1 8100400 38856 1207;2759;1487 24691 24767 43650;43651;43652 43651 0.09174291402746348 YLLEKSRAI 9 Unmodified _YLLEKSRAI_ 0 0 0 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000100345|P35579-2|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000133392|P35749-3|MYH11;ENSG00000133392|ENST00000300036|MYH11;nc|ENSG00000133392|P35749-2|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14;nc|ENSG00000105357|Q7Z406|MYH14;nc|ENSG00000105357|Q7Z406-6|MYH14;ENSG00000105357|ENST00000642316|MYH14;nc|ENSG00000105357|Q7Z406-5|MYH14 ENSG00000100345|ENST00000216181|MYH9;nc|ENSG00000133392|P35749-4|MYH11;nc|ENSG00000105357|Q7Z406-4|MYH14 ENSG00000100345|ENST00000216181|MYH9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.8262329101562 2 546.824224 1091.63389 3.5272 0.0019288 0.23597 0.00012904 3.7632 0.0020578 546.8243646025628 31.512 0.37701 32.13 31.91 32.287 0.61737 78 28 4 0 0 0 0.0027913 2 14431 14431;14479 96.367 27.262 1 6124800 38857 1207;2759;1487 24691 24767 43653;43654 43653 0.09174291402746348 YLLEKSRVV 9 Unmodified _YLLEKSRVV_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B;ENST00000558902.5_1_15:52548900-52571163:-|nuORF;nc|ENSG00000125414|Q9UKX2-2|MYH2;MYH2|p.D1767Mfs*4|1|0.19|ENSG00000125414|chr17:10523762-10523762|A/-|frameshift_variant;ENSG00000125414|ENST00000245503|MYH2;nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;MYO1C|p.P889Lfs*40|1|0.02|ENSG00000197879|chr17:1468441-1468442|-/TTGCA|frameshift_variant;MYO1C|p.L335Sfs*4|1|0.24|ENSG00000197879|chr17:1479609-1479609|G/-|frameshift_variant;MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant;ENSG00000128833|ENST00000261839|MYO5C;ENST00000541028.5_1_15:52553308-52587917:-|nuORF;nc|ENSG00000128833|Q9NQX4-2|MYO5C;ENSG00000167306|ENST00000285039|MYO5B;nc|ENSG00000197535|Q9Y4I1-2|MYO5A;nc|ENSG00000197535|Q9Y4I1|MYO5A;ENSG00000197535|ENST00000399233|MYO5A nc|ENSG00000128641|O43795-2|MYO1B;nc|ENSG00000197879|O00159-2|MYO1C;MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant;ENSG00000167306|ENST00000285039|MYO5B;nc|ENSG00000197535|Q9Y4I1-2|MYO5A nc|ENSG00000197879|O00159-2|MYO1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.3333129882812 2 553.832049 1105.64954 3.5848 0.0019854 0.35672 0.00019757 3.9415 0.0021829 553.8322499789391 33.707 0.22689 33.961 33.818 34.045 0.25389 24 15 2 0 0 0 0.33646 1 15312 15312 15.248 0 1 264550 38858 2521;5847;2529;4543;5823 24692 24768 43655 43655 0.10094577919812764 YLLEKSRVV 9 Unmodified _YLLEKSRVV_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B;ENST00000558902.5_1_15:52548900-52571163:-|nuORF;nc|ENSG00000125414|Q9UKX2-2|MYH2;MYH2|p.D1767Mfs*4|1|0.19|ENSG00000125414|chr17:10523762-10523762|A/-|frameshift_variant;ENSG00000125414|ENST00000245503|MYH2;nc|ENSG00000197879|O00159-2|MYO1C;nc|ENSG00000197879|O00159-3|MYO1C;ENSG00000197879|ENST00000648651|MYO1C;MYO1C|p.P889Lfs*40|1|0.02|ENSG00000197879|chr17:1468441-1468442|-/TTGCA|frameshift_variant;MYO1C|p.L335Sfs*4|1|0.24|ENSG00000197879|chr17:1479609-1479609|G/-|frameshift_variant;MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant;ENSG00000128833|ENST00000261839|MYO5C;ENST00000541028.5_1_15:52553308-52587917:-|nuORF;nc|ENSG00000128833|Q9NQX4-2|MYO5C;ENSG00000167306|ENST00000285039|MYO5B;nc|ENSG00000197535|Q9Y4I1-2|MYO5A;nc|ENSG00000197535|Q9Y4I1|MYO5A;ENSG00000197535|ENST00000399233|MYO5A nc|ENSG00000128641|O43795-2|MYO1B;nc|ENSG00000197879|O00159-2|MYO1C;MYO5C|p.T1715Hfs*13|1|0.04|ENSG00000128833|chr15:52193988-52193988|T/-|frameshift_variant;ENSG00000167306|ENST00000285039|MYO5B;nc|ENSG00000197535|Q9Y4I1-2|MYO5A nc|ENSG00000197879|O00159-2|MYO1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.83349609375 2 553.832049 1105.64954 3.3992 0.0018826 0.66479 0.00036818 4.064 0.0022508 553.8324404055575 33.134 0.21406 33.754 33.665 33.879 0.61951 20 12 2 0 0 0 0.33646 1 15179 15179 15.248 0 1 228750 38859 2521;5847;2529;4543;5823 24692 24768 43656 43656 0.10094577919812764 YLLFGELLLI 10 Unmodified _YLLFGELLLI_ 0 0 0 REV__ENSG00000077009|ENST00000168977|NMRK2 REV__ENSG00000077009|ENST00000168977|NMRK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 398.91290283203125 3 398.577526 1192.71075 NaN NaN NaN NaN NaN NaN NaN 28.046 1 28.309 27.809 28.809 0.26245 0 0 0 0.97797 1 12754 12754 8.9762 0 1 + 38860 10548 24693 24769 43657 43657 0.12210089899258492 YLLGEKKL 8 Unmodified _YLLGEKKL_ 0 0 0 nc|ENSG00000117322|P20023-2|CR2;nc|ENSG00000117322|P20023|CR2;nc|ENSG00000117322|P20023-4|CR2;ENSG00000117322|ENST00000367057|CR2 nc|ENSG00000117322|P20023-2|CR2 nc|ENSG00000117322|P20023-2|CR2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 321.86798095703125 3 321.867299 962.580068 2.2976 0.00073952 0.086305 2.7779E-05 2.3839 0.00076729 321.86731897189816 38.748 0.30151 39.546 39.398 39.699 0.79762 24 13 2 0 0 0 0.59268 1 17555 17555 10.824 0 1 359740 38861 2068 24694 24770 43658 43658 0.09728118971031563 YLLGEKKL 8 Unmodified _YLLGEKKL_ 0 0 0 nc|ENSG00000117322|P20023-2|CR2;nc|ENSG00000117322|P20023|CR2;nc|ENSG00000117322|P20023-4|CR2;ENSG00000117322|ENST00000367057|CR2 nc|ENSG00000117322|P20023-2|CR2 nc|ENSG00000117322|P20023-2|CR2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 321.867299 962.580068 2.357 0.00075864 0.34283 0.00011035 2.6998 0.00086899 321.86729450606936 39.673 0.44548 39.94 39.723 40.168 0.26696 0.15523 -3.5898E-05 NaN 10.824 35 15 3 NaN NaN NaN NaN 0 NaN NaN 0 810550 38862 2068 24694 24770 0.09728118971031563 YLLGEKKL 8 Unmodified _YLLGEKKL_ 0 0 0 nc|ENSG00000117322|P20023-2|CR2;nc|ENSG00000117322|P20023|CR2;nc|ENSG00000117322|P20023-4|CR2;ENSG00000117322|ENST00000367057|CR2 nc|ENSG00000117322|P20023-2|CR2 nc|ENSG00000117322|P20023-2|CR2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 321.867299 962.580068 2.2508 0.00072447 0.96096 0.0003093 3.2118 0.0010338 321.8673611459081 39.23 0.31677 39.868 39.712 40.029 0.63778 0.083434 0.00056097 NaN 10.824 26 11 3 NaN NaN NaN NaN 0 NaN NaN 0 645680 38863 2068 24694 24770 0.09728118971031563 YLLGNPRI 8 Unmodified _YLLGNPRI_ 0 0 0 nc|ENSG00000109625|Q66K79-2|CPZ;ENSG00000109625|ENST00000360986|CPZ;ENST00000513120.2_1_4:8605677-8612970:+|nuORF;ENST00000514302.5_1_4:8602857-8612970:+|nuORF;nc|ENSG00000109625|Q66K79-3|CPZ nc|ENSG00000109625|Q66K79-2|CPZ nc|ENSG00000109625|Q66K79-2|CPZ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 473.28204345703125 2 473.279452 944.544351 3.0049 0.0014222 -0.053997 -2.5556E-05 2.9509 0.0013966 473.2792454129378 52.623 0.23384 52.887 52.777 53.011 0.26345 20 8 3 0 0 0 0.52517 2 24048 24048;24103 19.439 2.3934 1 879420 38864 1680 24695 24771 43659;43660 43659 0.06986081514037323 YLLGNPRI 8 Unmodified _YLLGNPRI_ 0 0 0 nc|ENSG00000109625|Q66K79-2|CPZ;ENSG00000109625|ENST00000360986|CPZ;ENST00000513120.2_1_4:8605677-8612970:+|nuORF;ENST00000514302.5_1_4:8602857-8612970:+|nuORF;nc|ENSG00000109625|Q66K79-3|CPZ nc|ENSG00000109625|Q66K79-2|CPZ nc|ENSG00000109625|Q66K79-2|CPZ MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 473.2811279296875 2 473.279452 944.544351 2.8305 0.0013396 -0.24337 -0.00011518 2.5871 0.0012244 473.2792093994567 52.166 0.34885 52.828 52.609 52.958 0.66198 27 14 3 0 0 0 0.52517 2 23813 23813;23871 19.439 2.3524 1 666950 38865 1680 24695 24771 43661;43662 43661 0.06986081514037323 YLLILFLLVVF 11 Unmodified _YLLILFLLVVF_ 0 0 0 REV__nc|ENSG00000170262|Q8TCY5-2|MRAP REV__nc|ENSG00000170262|Q8TCY5-2|MRAP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 338.9710998535156 4 338.97026 1351.85193 2.6586 0.00090119 -0.72193 -0.00024471 1.9367 0.00065648 339.2211908262483 47.488 0.34926 47.752 47.466 47.815 0.26363 42 14 4 0 0 0 0.91459 1 21697 21697 0.094841 0 1 1100800 + 38866 13430 24696 24772 43663 43663 0.19008088272471468 YLLLLKLPGE 10 Unmodified _YLLLLKLPGE_ 0 0 0 ENST00000438189.6_1_11:67226126-67226375:+|nuORF ENST00000438189.6_1_11:67226126-67226375:+|nuORF ENST00000438189.6_1_11:67226126-67226375:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 579.85986328125 2 579.860275 1157.706 NaN NaN NaN NaN NaN NaN NaN 5.3992 1 5.7043 5.2043 6.2043 0.30519 0 0 0 1.002 1 2454 2454 0 0 1 38867 7915 24697 24773 43664 43664 0.13345205756445466 YLLLMLDIL 9 Unmodified _YLLLMLDIL_ 0 0 0 REV__ENST00000483636.5_1_3:151488357-151501690:+|nuORF REV__ENST00000483636.5_1_3:151488357-151501690:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 553.8314208984375 2 553.830129 1105.6457 3.513 0.0019456 -0.48072 -0.00026624 3.0323 0.0016794 553.8300131900018 83.535 1.7337 83.782 83.072 84.806 0.24722 190 102 3 0 0 0 0.92809 3 38506 38506;38551;38609 5.2307 0 1 1263700 + 38868 16722 24698 24774 43665;43666;43667 43665 0.09710772101743714 YLLPRAGL 8 Unmodified _YLLPRAGL_ 0 0 0 nc|ENSG00000141298|Q76I76|SSH2;ENSG00000141298|ENST00000540801|SSH2 nc|ENSG00000141298|Q76I76|SSH2 nc|ENSG00000141298|Q76I76|SSH2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 451.7781677246094 2 451.776545 901.538538 NaN NaN NaN NaN NaN NaN NaN 36.708 1 36.965 36.465 37.465 0.25768 0 0 0 0.84715 1 16720 16720 15.768 0 1 38869 3244 24699 24775 43668 43668 0.08382983002377387 YLLQKWASL 9 Unmodified _YLLQKWASL_ 0 0 0 ENSG00000186532|ENST00000305513|SMYD4;ENST00000573937.5_1_17:1707859-1733034:-|nuORF;SMYD4|p.E257Afs*52|1|0.08|ENSG00000186532|chr17:1800620-1800624|GAGCT/-|frameshift_variant ENSG00000186532|ENST00000305513|SMYD4 ENSG00000186532|ENST00000305513|SMYD4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.6512451171875 2 561.321317 1120.62808 3.3768 0.0018955 4.3551 0.0024446 7.7319 0.0043401 561.32472084377 42.901 0.068367 42.901 42.846 42.914 0 5 3 2 0 0 0 0.084995 1 19507 19507 7.9102 0 1 306510 38870 5578 24700 24776 43669 43669 0.07259192891069688 YLLVDPKKKK 10 Unmodified _YLLVDPKKKK_ 0 0 0 REV__nc|ENSG00000137757|P51878-3|CASP5 REV__nc|ENSG00000137757|P51878-3|CASP5 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 616.0315551757812 2 616.392273 1230.76999 NaN NaN NaN NaN NaN NaN NaN 93.637 1 93.637 93.137 94.137 0 0 0 0 1.0003 1 50031 50031 1.4819 0.28856 1 + 38871 12124 24701 24777 43670 43670 0.16383985913398647 YLMWLYFDWHT 11 Unmodified _YLMWLYFDWHT_ 0 0 0 ENSG00000124003|ENST00000446656|MOGAT1 ENSG00000124003|ENST00000446656|MOGAT1 ENSG00000124003|ENST00000446656|MOGAT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 787.9280395507812 2 787.86048 1573.70641 NaN NaN NaN NaN NaN NaN NaN 86.923 1 86.953 86.453 87.453 0.030289 0 0 0 1.008 1 43861 43861 0.35063 0 1 38872 2331 24702 24778 43671 43671 -0.05749742585999229 YLNLCFII 8 Unmodified _YLNLCFII_ 0 0 0 ENST00000155926.8_1_2:12882275-12882671:+|nuORF ENST00000155926.8_1_2:12882275-12882671:+|nuORF ENST00000155926.8_1_2:12882275-12882671:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 499.7745666503906 2 499.772614 997.530675 2.7452 0.001372 -0.17958 -8.975E-05 2.5657 0.0012822 499.77276414652874 70.623 0.24989 71.285 71.154 71.404 0.66209 26 15 2 0 0 0 0.63544 1 32345 32345 11.114 0 1 303480 38873 6384 24703 24779 43672 43672 0.03181087690586537 YLPASPSP 8 Unmodified _YLPASPSP_ 0 0 0 REV__ENST00000588974.1_1_19:34839831-34843857:+|nuORF REV__ENST00000588974.1_1_19:34839831-34843857:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 416.21697998046875 2 416.215986 830.417419 2.7894 0.001161 0.19755 8.2224E-05 2.9869 0.0012432 416.215644883594 62.544 0.41673 63.204 62.998 63.415 0.66008 57 26 3 0 0 0 0.7471 1 28637 28637 0.79363 0 1 2668800 + 38874 13233 24704 24780 43673 43673 -0.004572644309519092 YLPATPHLVAK 11 Unmodified _YLPATPHLVAK_ 0 0 0 REV__ENST00000561983.5_1_16:720150-720809:+|nuORF REV__ENST00000561983.5_1_16:720150-720809:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.18157958984375 4 303.180212 1208.69174 2.1824 0.00066166 1.4987 0.00045436 3.6811 0.001116 303.18060536551656 62.031 0.37437 62.284 62.132 62.506 0.25245 33 18 2 0 0 0 0.91068 1 28471 28471 1.3296 0.1363 1 677200 + 38875 12272 24705 24781 43674 43674 0.09574553328161528 YLPATPHLVAK 11 Unmodified _YLPATPHLVAK_ 0 0 0 REV__ENST00000561983.5_1_16:720150-720809:+|nuORF REV__ENST00000561983.5_1_16:720150-720809:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 4 303.180212 1208.69174 2.0447 0.00061992 1.2596 0.0003819 3.3044 0.0010018 303.1804676426756 61.318 0.36422 61.981 61.923 62.287 0.66261 -0.1517 -0.00010565 NaN 1.3296 48 21 3 NaN NaN NaN NaN 0 NaN NaN 0 1497100 + 38876 12272 24705 24781 0.09574553328161528 YLPKNQIR 8 Unmodified _YLPKNQIR_ 0 0 0 REV__nc|ENSG00000231991|A6NMY6|ANXA2P2 REV__nc|ENSG00000231991|A6NMY6|ANXA2P2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 345.2071228027344 3 344.538064 1030.59236 2.4077 0.00082955 0.044319 1.5269E-05 2.452 0.00084482 344.53808217397346 36.6 0.65833 36.6 36.206 36.865 0 81 29 4 0 0 0 0.64827 1 16685 16685 10.074 3.3508 1 4414200 + 38877 18144 24706 24782 43675 43675 0.07829155434069435 YLPNILTLF 9 Unmodified _YLPNILTLF_ 0 0 0 REV__ENST00000484432.1_1_7:129683626-129691088:-|nuORF REV__ENST00000484432.1_1_7:129683626-129691088:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 547.5432739257812 2 547.318243 1092.62193 4.3951 0.0024055 1.8692 0.001023 6.2642 0.0034285 547.3193152088722 97.68 0.17004 97.969 97.882 98.052 0.28923 25 11 3 0 0 0 1.0041 1 44853 44853 3.9444 0 1 1716400 + 38878 16733 24707 24783 43676 43676 0.0793267465955978 YLPNSDQLF 9 Unmodified _YLPNSDQLF_ 0 0 0 REV__ENST00000551319.5_1_12:53585342-53585652:-|nuORF REV__ENST00000551319.5_1_12:53585342-53585652:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 549.7742919921875 2 548.769114 1095.52368 3.4564 0.0018968 0.004141 2.2724E-06 3.4605 0.001899 548.7687457757146 46.773 0.38104 46.773 46.603 46.984 0 39 13 4 0 0 0 0.49692 1 21497 21497 12.532 0.89125 1 2445900 + 38879 17285 24708 24784 43677 43677 -0.020265536563101705 YLPPLFWRF 9 Unmodified _YLPPLFWRF_ 0 0 0 nc|ENSG00000110218|Q96RD7-2|PANX1;ENSG00000110218|ENST00000227638|PANX1 nc|ENSG00000110218|Q96RD7-2|PANX1 nc|ENSG00000110218|Q96RD7-2|PANX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 619.8395385742188 2 619.839677 1237.6648 NaN NaN NaN NaN NaN NaN NaN 95.136 1 95.753 95.253 96.253 0.61736 0 0 0 0.86044 1 43751 43751 7.2892 1.0834 1 38880 1705 24709 24785 43678 43678 0.055474895076486064 YLPQISHLL 9 Unmodified _YLPQISHLL_ 0 0 0 nc|ENSG00000063761|Q86TW2-3|ADCK1;ENSG00000063761|ENST00000238561|ADCK1;nc|ENSG00000063761|Q86TW2|ADCK1 nc|ENSG00000063761|Q86TW2-3|ADCK1 nc|ENSG00000063761|Q86TW2-3|ADCK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 542.31591796875 2 542.313492 1082.61243 3.5195 0.0019087 0.27044 0.00014666 3.7899 0.0020553 542.3135667450238 66.521 0.53694 66.769 66.5 67.037 0.24847 62 29 3 0 0 0 0.020718 3 30478 30428;30478;30526 67.344 16.489 1 1233100 38881 663 24710 24786 43679;43680;43681 43680 0.07442906374058111 YLPQISHLL 9 Unmodified _YLPQISHLL_ 0 0 0 nc|ENSG00000063761|Q86TW2-3|ADCK1;ENSG00000063761|ENST00000238561|ADCK1;nc|ENSG00000063761|Q86TW2|ADCK1 nc|ENSG00000063761|Q86TW2-3|ADCK1 nc|ENSG00000063761|Q86TW2-3|ADCK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 542.3154907226562 2 542.313492 1082.61243 3.5186 0.0019082 0.57111 0.00030972 4.0897 0.0022179 542.3137170495077 65.905 0.50214 66.561 66.309 66.811 0.65672 69 30 3 0 0 0 0.020718 3 30222 30172;30222;30269 67.344 30.134 1 1268900 38882 663 24710 24786 43682;43683;43684 43683 0.07442906374058111 YLQAKPDLPV 10 Unmodified _YLQAKPDLPV_ 0 0 0 ENST00000556522.5_1_14:52294504-52344361:+|nuORF ENST00000556522.5_1_14:52294504-52344361:+|nuORF ENST00000556522.5_1_14:52294504-52344361:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 572.32421875 2 572.324057 1142.63356 NaN NaN NaN NaN NaN NaN NaN 39.382 1 40.18 39.68 40.68 0.79762 0 0 0 0.99225 1 17830 17830 6.7232 0.96273 1 38883 8925 24711 24787 43685 43685 0.06794871682882331 YLQENLKSM 9 Unmodified _YLQENLKSM_ 0 0 0 ENST00000373851.6_1_9:123874787-123912836:+|nuORF;CNTRL|p.S1224Rfs*3|1|0.15|ENSG00000119397|chr9:121150190-121150197|AGTCAGGA/-|frameshift_variant;nc|ENSG00000119397|Q7Z7A1-2|CNTRL;nc|ENSG00000119397|Q7Z7A1-5|CNTRL;ENSG00000119397|ENST00000373855|CNTRL ENST00000373851.6_1_9:123874787-123912836:+|nuORF ENST00000373851.6_1_9:123874787-123912836:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.784423828125 2 563.284074 1124.5536 3.765 0.0021208 -0.067405 -3.7968E-05 3.6976 0.0020828 563.2843359547924 40.871 0.15313 41.14 41.02 41.173 0.26904 17 11 2 0 0 0 0.10586 1 18586 18586 7.9102 0.62092 1 823170 38884 199 24712 24788 43686 43686 -0.003699379825775395 YLQIKRDIF 9 Unmodified _YLQIKRDIF_ 0 0 0 nc|ENSG00000172159|A2A2Y4-5|FRMD3;nc|ENSG00000172159|A2A2Y4-2|FRMD3;ENSG00000172159|ENST00000304195|FRMD3 nc|ENSG00000172159|A2A2Y4-5|FRMD3 nc|ENSG00000172159|A2A2Y4-5|FRMD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 399.23480224609375 3 399.232641 1194.67609 2.5797 0.0010299 0.3849 0.00015367 2.9646 0.0011836 399.23316357478353 52.626 0.25663 52.626 52.5 52.757 0 57 24 3 0 0 0 0.086415 1 24073 24073 33.445 0 1 1699900 38885 4858 24713 24789 43687 43687 0.08654266811140587 YLQKKKKKKKE 11 Unmodified _YLQKKKKKKKE_ 0 0 0 Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|19|2|sense Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|19|2|sense Harlequin-int_dup158|chr4:69052334-69053326:+|1.535925901726466|0.0414825534191477|5.21|532.0|19|2|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.7416076660156 4 362.988244 1447.92387 2.3677 0.00085946 -0.14454 -5.2466E-05 2.2232 0.00080699 363.2398726783439 48.233 0.47451 49.062 48.787 49.261 0.82915 39 22 2 0 0 0 0.13295 1 22008 22008 0 0 1 576660 38886 9368 24714 24790 43688 43688 0.2178239567890614 YLQTKVFL 8 Unmodified _YLQTKVFL_ 0 0 0 REV__GCC2|p.V1325Sfs*7|1|0.29|ENSG00000135968|chr2:108487741-108487741|G/-|frameshift_variant REV__GCC2|p.V1325Sfs*7|1|0.29|ENSG00000135968|chr2:108487741-108487741|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 506.2970275878906 2 506.29731 1010.58007 NaN NaN NaN NaN NaN NaN NaN 35.465 1 35.72 35.22 36.22 0.25524 0 0 0 0.99035 1 16157 16157 2.3027 0 1 + 38887 12052 24715 24791 43689 43689 0.07520118971035572 YLQTQVAEM 9 Unmodified _YLQTQVAEM_ 0 0 0 nc|ENSG00000112200|Q9Y4E5-4|ZNF451 nc|ENSG00000112200|Q9Y4E5-4|ZNF451 nc|ENSG00000112200|Q9Y4E5-4|ZNF451 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.2214965820312 2 541.762975 1081.5114 3.4703 0.0018801 0.12818 6.9445E-05 3.5985 0.0019495 541.7633752259643 36.796 0.64355 37.426 37.109 37.752 0.62999 105 26 6 0 0 0 0.92809 1 16804 16804 5.2307 0 1 18803000 38888 9593 24716 24792 43690 43690 -0.0260991339098382 YLRARLQR 8 Unmodified _YLRARLQR_ 0 0 0 REV__ENSG00000180549|ENST00000314412|FUT7 REV__ENSG00000180549|ENST00000314412|FUT7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.3297119140625 2 538.327799 1074.64105 3.508 0.0018884 -0.86763 -0.00046707 2.6404 0.0014214 538.3272323033806 97.003 0.42202 97.605 97.358 97.78 0.6019 79 19 5 0 0 0 0.7471 1 44520 44520 0.69038 0 1 35189000 + 38889 13825 24717 24793 43691 43691 0.1067106879381754 YLRDPNCS 8 Unmodified _YLRDPNCS_ 0 0 0 nc|ENSG00000169347|P55259-4|GP2;nc|ENSG00000169347|P55259-2|GP2;ENSG00000169347|ENST00000302555|GP2;nc|ENSG00000169347|P55259|GP2 nc|ENSG00000169347|P55259-4|GP2 nc|ENSG00000169347|P55259-4|GP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 323.1485900878906 3 323.148248 966.422915 NaN NaN NaN NaN NaN NaN NaN 70.781 1 71.443 70.943 71.943 0.66209 0 0 0 0.99035 1 32439 32439 1.4819 0 1 38890 4685 24718 24794 43692 43692 -0.06163908910787086 YLREKHQIM 9 Unmodified _YLREKHQIM_ 0 0 0 ENST00000597008.5_1_19:4100806-4102439:-|nuORF;ENSG00000126934|ENST00000262948|MAP2K2 ENST00000597008.5_1_19:4100806-4102439:-|nuORF ENST00000597008.5_1_19:4100806-4102439:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 406.5540466308594 3 406.553497 1216.63866 2.3986 0.00097514 -0.61886 -0.0002516 1.7797 0.00072355 406.5532597508104 13.068 0.2125 13.375 13.25 13.463 0.30727 24 10 3 0 0 0 0.59921 1 5878 5878 10.8 5.5026 1 196520 38891 2470 24719 24795 43693 43693 0.03900852273864075 YLREKHQIM 9 Unmodified _YLREKHQIM_ 0 0 0 ENST00000597008.5_1_19:4100806-4102439:-|nuORF;ENSG00000126934|ENST00000262948|MAP2K2 ENST00000597008.5_1_19:4100806-4102439:-|nuORF ENST00000597008.5_1_19:4100806-4102439:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 406.553497 1216.63866 2.3414 0.00095192 -0.31651 -0.00012868 2.0249 0.00082324 406.5531439164554 13.118 0.1596 13.361 13.279 13.439 0.24346 -0.027401 0.0001547 NaN 10.8 14 12 2 NaN NaN NaN NaN 0 NaN NaN 0 185890 38892 2470 24719 24795 0.03900852273864075 YLREKHQIM 9 Unmodified _YLREKHQIM_ 0 0 0 ENST00000597008.5_1_19:4100806-4102439:-|nuORF;ENSG00000126934|ENST00000262948|MAP2K2 ENST00000597008.5_1_19:4100806-4102439:-|nuORF ENST00000597008.5_1_19:4100806-4102439:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 406.553497 1216.63866 3.2093 0.0013048 -0.30525 -0.0001241 2.9041 0.0011807 406.55337573557915 12.787 0.13537 13.43 13.345 13.48 0.64272 0.040906 0.00016842 NaN 10.8 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 521730 38893 2470 24719 24795 0.03900852273864075 YLRELLTTM 9 Unmodified _YLRELLTTM_ 0 0 0 ENSG00000101608|ENST00000217652|MYL12A;ENSG00000118680|ENST00000237500|MYL12B ENSG00000101608|ENST00000217652|MYL12A ENSG00000101608|ENST00000217652|MYL12A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 570.3115844726562 2 570.310092 1138.60563 3.3002 0.0018821 0.11157 6.3628E-05 3.4117 0.0019457 570.3101709818176 63.931 0.28133 64.179 64.069 64.35 0.24802 36 17 3 0 0 0 0.022157 2 29312 29262;29312 65.474 27.2 1 1821900 38894 1304 24720 24796 43694;43695 43695 0.04187225431155639 YLRELLTTM 9 Unmodified _YLRELLTTM_ 0 0 0 ENSG00000101608|ENST00000217652|MYL12A;ENSG00000118680|ENST00000237500|MYL12B ENSG00000101608|ENST00000217652|MYL12A ENSG00000101608|ENST00000217652|MYL12A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 570.310092 1138.60563 3.5601 0.0020303 -0.2056 -0.00011725 3.3545 0.0019131 570.3097921680446 63.36 0.28872 64.018 63.874 64.163 0.65808 -0.080834 -0.00011717 NaN 65.474 44 18 3 NaN NaN NaN NaN 0 NaN NaN 0 1976600 38895 1304 24720 24796 0.04187225431155639 YLREQGKAL 9 Unmodified _YLREQGKAL_ 0 0 0 CUL3|p.T583*|1|0.23|ENSG00000036257|chr2:224495927-224495928|-/TA|frameshift_variant;nc|ENSG00000036257|Q13618-2|CUL3;ENSG00000036257|ENST00000264414|CUL3;ENST00000484081.1_1_2:225370642-225376119:-|nuORF;nc|ENSG00000036257|Q13618-3|CUL3 CUL3|p.T583*|1|0.23|ENSG00000036257|chr2:224495927-224495928|-/TA|frameshift_variant CUL3|p.T583*|1|0.23|ENSG00000036257|chr2:224495927-224495928|-/TA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 359.8741455078125 3 359.873224 1076.59784 2.3658 0.00085141 -0.83337 -0.00029991 1.5325 0.0005515 359.87320116495835 14.387 0.12002 14.694 14.632 14.752 0.3069 6 4 2 0 0 0 0.29523 1 6527 6527 17.113 6.9623 1 321790 38896 254 24721 24797 43696 43696 0.06260834225895451 YLRFLKKR 8 Unmodified _YLRFLKKR_ 0 0 0 nc|ENSG00000103051|Q9H9E3-3|COG4;nc|ENSG00000103051|Q9H9E3|COG4;ENSG00000103051|ENST00000323786|COG4;ENST00000526700.5_1_16:70530266-70542451:-|nuORF nc|ENSG00000103051|Q9H9E3-3|COG4 nc|ENSG00000103051|Q9H9E3-3|COG4 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 375.21368408203125 3 375.241471 1122.70258 2.0656 0.00077509 -0.16459 -6.1762E-05 1.901 0.00071333 375.2414144432441 12.733 0.22348 13.04 12.936 13.159 0.30727 17 6 4 0 0 0 0.14244 1 5796 5796 3.5965 0 1 8804900 38897 1371 24722 24798 43697 43697 0.14614000493133972 YLRIRQRWLWR 11 Unmodified _YLRIRQRWLWR_ 0 0 0 REV__nc|ENSG00000152620|Q4G0N4-3|NADK2 REV__nc|ENSG00000152620|Q4G0N4-3|NADK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 823.4786376953125 2 823.481143 1644.94773 NaN NaN NaN NaN NaN NaN NaN 102.55 1 103.14 102.64 103.64 0.59759 0 0 0 1.0082 1 47461 47461 0 0 1 + 38898 12654 24723 24799 43698 43698 0.1510567395596354 YLRIRQRWLWR 11 Unmodified _YLRIRQRWLWR_ 0 0 0 REV__nc|ENSG00000152620|Q4G0N4-3|NADK2 REV__nc|ENSG00000152620|Q4G0N4-3|NADK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 823.4342041015625 2 823.481143 1644.94773 NaN NaN NaN NaN NaN NaN NaN 109.1 1 109.71 109.21 110.21 0.60264 0 0 0 1.0082 1 50326 50326 0 0 1 + 38899 12654 24723 24799 43699 43699 0.1510567395596354 YLRKRKFYLR 10 Unmodified _YLRKRKFYLR_ 0 0 0 ENST00000342992.10_3_2:179540701-179542581:-|nuORF ENST00000342992.10_3_2:179540701-179542581:-|nuORF ENST00000342992.10_3_2:179540701-179542581:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 721.9530029296875 2 721.940788 1441.86702 NaN NaN NaN NaN NaN NaN NaN 78.309 1 78.773 78.273 79.273 0.4642 0 0 0 0.99774 1 38064 38064 3.5965 0.60125 1 38900 7089 24724 24800 43700 43700 0.16376392913070958 YLRLINRW 8 Unmodified _YLRLINRW_ 0 0 0 nc|ENSG00000151572|Q32M45-2|ANO4;ENSG00000151572|ENST00000392977|ANO4;chr12:100740105-100901646|299|10.57|0.2|5.71|+|ENST00000644049|ANO4,ANO4;chr12:100733857-100739854|321|10.37|0.22|5.55|+|ENST00000644049|ANO4,ANO4;nc|ENSG00000151572|Q32M45-3|ANO4 nc|ENSG00000151572|Q32M45-2|ANO4 nc|ENSG00000151572|Q32M45-2|ANO4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3374633789062 2 567.33255 1132.65055 NaN NaN NaN NaN NaN NaN NaN 84.695 1 84.943 84.443 85.443 0.24757 0 0 0 0.99035 1 38980 38980 0.79363 0 1 38901 136 24725 24801 43701 43701 0.08952837079368692 YLRLRGQLL 9 Unmodified _YLRLRGQLL_ 0 0 0 ENST00000492715.1_1_X:48457171-48457486:+|nuORF;ENSG00000101940|ENST00000376729|WDR13 ENST00000492715.1_1_X:48457171-48457486:+|nuORF ENST00000492715.1_1_X:48457171-48457486:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 377.90643310546875 3 377.904747 1130.69241 NaN NaN NaN NaN NaN NaN NaN 41.552 1 41.822 41.322 42.322 0.27021 0 0 0 0.72654 1 18931 18931 16.149 0 1 38902 1320 24726 24802 43702 43702 0.13229392767902937 YLRLRGQLL 9 Unmodified _YLRLRGQLL_ 0 0 0 ENST00000492715.1_1_X:48457171-48457486:+|nuORF;ENSG00000101940|ENST00000376729|WDR13 ENST00000492715.1_1_X:48457171-48457486:+|nuORF ENST00000492715.1_1_X:48457171-48457486:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.90631103515625 3 377.904747 1130.69241 NaN NaN NaN NaN NaN NaN NaN 40.851 1 41.495 40.995 41.995 0.64451 0 0 0 0.42757 1 18675 18675 20.415 0 1 38903 1320 24726 24802 43703 43703 0.13229392767902937 YLRRIKMEL 9 Unmodified _YLRRIKMEL_ 0 0 0 nc|ENSG00000116584|Q92974-3|ARHGEF2;nc|ENSG00000116584|Q92974-2|ARHGEF2;ENSG00000116584|ENST00000361247|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 407.9107666015625 3 407.909392 1220.70635 2.5372 0.001035 0.49216 0.00020076 3.0294 0.0012357 407.90955959477617 35.469 0.24715 35.469 35.379 35.626 0 20 11 2 0 0 0 0.19413 1 16101 16101 23.79 15.345 1 636440 38904 2034 24727 24803 43704 43704 0.1048230220469577 YLRRIKMEL 9 Unmodified _YLRRIKMEL_ 0 0 0 nc|ENSG00000116584|Q92974-3|ARHGEF2;nc|ENSG00000116584|Q92974-2|ARHGEF2;ENSG00000116584|ENST00000361247|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 407.9106140136719 3 407.909392 1220.70635 2.9344 0.001197 -0.13878 -5.6612E-05 2.7957 0.0011404 407.90936733389617 35.331 0.35331 35.587 35.391 35.744 0.25524 36 13 4 0 0 0 0.17594 1 16122 16122 24.991 4.5764 1 1389300 38905 2034 24727 24803 43705 43705 0.1048230220469577 YLRRIKMEL 9 Unmodified _YLRRIKMEL_ 0 0 0 nc|ENSG00000116584|Q92974-3|ARHGEF2;nc|ENSG00000116584|Q92974-2|ARHGEF2;ENSG00000116584|ENST00000361247|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 nc|ENSG00000116584|Q92974-3|ARHGEF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 407.9103088378906 3 407.909392 1220.70635 2.9688 0.001211 -1.0133 -0.00041332 1.9555 0.00079768 407.90904368855286 34.951 0.23882 35.574 35.48 35.719 0.62294 32 20 2 0 0 0 0.078225 2 16043 15990;16043 38.176 32.392 1 1667200 38906 2034 24727 24803 43706;43707 43707 0.1048230220469577 YLRRKGII 8 Unmodified _YLRRKGII_ 0 0 0 ENSG00000114127|ENST00000392981|XRN1;nc|ENSG00000114127|Q8IZH2|XRN1;ENST00000472697.5_1_3:142095319-142144369:-|nuORF ENSG00000114127|ENST00000392981|XRN1 ENSG00000114127|ENST00000392981|XRN1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 340.22357177734375 3 340.222188 1017.64473 NaN NaN NaN NaN NaN NaN NaN 14.78 1 15.434 14.934 15.934 0.65356 0 0 0 0.99035 1 6660 6660 4.3292 0 1 38907 1891 24728 24804 43708 43708 0.1366173856771411 YLRRLFRFRQM 11 Unmodified _YLRRLFRFRQM_ 0 0 0 ENSG00000115446|ENST00000357765|UNC50 ENSG00000115446|ENST00000357765|UNC50 ENSG00000115446|ENST00000357765|UNC50 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 793.8111572265625 2 793.448454 1584.88236 4.159 0.0033 -0.98981 -0.00078536 3.1692 0.0025146 793.4481316328313 98.586 0.06366 99.185 99.135 99.198 0.59885 6 5 2 0 0 0 0.91378 1 45444 45444 0.35063 0.043601 1 6784600 38908 1971 24729 24805 43709 43709 0.11330936438594108 YLRRRPRPWTR 11 Unmodified _YLRRRPRPWTR_ 0 0 0 ENST00000467374.1_1_1:156561716-156561975:+|nuORF ENST00000467374.1_1_1:156561716-156561975:+|nuORF ENST00000467374.1_1_1:156561716-156561975:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 778.956298828125 2 778.955292 1555.89603 NaN NaN NaN NaN NaN NaN NaN 74.023 1 74.71 74.21 75.21 0.68662 0 0 0 1.0073 1 35755 35755 1.1933 0.88631 1 38909 8145 24730 24806 43710 43710 0.14031930262058268 YLRTLQELI 9 Unmodified _YLRTLQELI_ 0 0 0 REV__PPP1R14B|p.W74R|1|0.33|ENSG00000173457|chr11:64246454-64246454|A/G|missense_variant REV__PPP1R14B|p.W74R|1|0.33|ENSG00000173457|chr11:64246454-64246454|A/G|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 574.8419799804688 2 574.837331 1147.66011 3.6062 0.002073 2.385 0.001371 5.9912 0.0034439 575.3391089694935 67.897 0.21516 68.149 68.03 68.245 0.25227 29 13 3 0 0 0 0.093314 1 31112 31112 34.402 1.616 1 823770 + 38910 13599 24731 24807 43711 43711 0.0921856057423156 YLRTLQELI 9 Unmodified _YLRTLQELI_ 0 0 0 REV__PPP1R14B|p.W74R|1|0.33|ENSG00000173457|chr11:64246454-64246454|A/G|missense_variant REV__PPP1R14B|p.W74R|1|0.33|ENSG00000173457|chr11:64246454-64246454|A/G|missense_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 574.837331 1147.66011 2.8812 0.0016562 4.1191 0.0023678 7.0003 0.004024 574.8387778597502 67.693 0.021927 68.395 68.38 68.402 0.70218 0.12298 0.0014852 NaN 34.402 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 2605000 + 38911 13599 24731 24807 0.0921856057423156 YLRTLQELI 9 Unmodified _YLRTLQELI_ 0 0 0 REV__PPP1R14B|p.W74R|1|0.33|ENSG00000173457|chr11:64246454-64246454|A/G|missense_variant REV__PPP1R14B|p.W74R|1|0.33|ENSG00000173457|chr11:64246454-64246454|A/G|missense_variant MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 574.837331 1147.66011 3.6062 0.002073 2.385 0.001371 5.9912 0.0034439 575.3391089694935 67.897 0.21516 68.149 68.03 68.245 0.25227 -0.12298 -0.00050851 NaN 34.402 29 13 3 NaN NaN NaN NaN 0 NaN NaN 0 823770 + 38912 13599 24731 24807 0.0921856057423156 YLSKQDLLFL 10 Unmodified _YLSKQDLLFL_ 0 0 0 ATM|p.Q2066Rfs*16|1|0.31|ENSG00000149311|chr11:108316109-108316109|T/-|frameshift_variant;ATM|p.T2640Lfs*6|1|0.34|ENSG00000149311|chr11:108332890-108332890|G/-|frameshift_variant;ENSG00000149311|ENST00000675843|ATM ATM|p.Q2066Rfs*16|1|0.31|ENSG00000149311|chr11:108316109-108316109|T/-|frameshift_variant ATM|p.Q2066Rfs*16|1|0.31|ENSG00000149311|chr11:108316109-108316109|T/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 620.3538208007812 2 620.352814 1238.69108 NaN NaN NaN NaN NaN NaN NaN 69.613 1 69.868 69.368 70.368 0.25443 0 0 0 1.0003 1 31878 31878 1.4819 0 1 38913 76 24732 24808 43712 43712 0.08127713888461585 YLSLERSL 8 Unmodified _YLSLERSL_ 0 0 0 REV__nc|ENSG00000158201|Q8WU67-2|ABHD3 REV__nc|ENSG00000158201|Q8WU67-2|ABHD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 490.7756042480469 2 490.7742 979.533846 NaN NaN NaN NaN NaN NaN NaN 14.377 1 14.684 14.184 15.184 0.3069 0 0 0 0.99035 1 6506 6506 5.2307 0 1 + 38914 17993 24733 24809 43713 43713 0.04326054068940266 YLSPTFKEF 9 Unmodified _YLSPTFKEF_ 0 0 0 nc|ENSG00000136731|Q9NYU2-2|UGGT1;ENSG00000136731|ENST00000259253|UGGT1 nc|ENSG00000136731|Q9NYU2-2|UGGT1 nc|ENSG00000136731|Q9NYU2-2|UGGT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.2913208007812 2 566.289682 1130.56481 2.983 0.0016893 0.090818 5.143E-05 3.0738 0.0017407 566.2897157067731 72.767 0.17615 73.431 73.382 73.558 0.66397 29 19 2 0 0 0 0.27976 1 33462 33462 18.135 0 1 2058000 38915 2968 24734 24810 43714 43714 0.004752073831923553 YLTKKFAEL 9 Unmodified _YLTKKFAEL_ 0 0 0 ENST00000577409.1_1_18:72183591-72185955:+|nuORF;nc|ENSG00000133313|Q96KP4-2|CNDP2;ENSG00000133313|ENST00000324262|CNDP2 ENST00000577409.1_1_18:72183591-72185955:+|nuORF ENST00000577409.1_1_18:72183591-72185955:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.8231811523438 2 556.82115 1111.62775 3.4304 0.0019101 0.084485 4.7043E-05 3.5149 0.0019571 557.3226566275943 38.493 0.37858 39.127 38.894 39.272 0.63388 22 14 2 0 0 0 0.21008 1 17588 17588 22.736 3.4793 1 266680 38916 2757 24735 24811 43715 43715 0.07639773171217712 YLTKVDKL 8 Unmodified _YLTKVDKL_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 490.2961120605469 2 490.294768 978.574983 3.0932 0.0015166 -0.33517 -0.00016433 2.758 0.0013523 490.2948409876826 36.311 0.25388 36.311 36.185 36.438 0 14 10 2 0 0 0 0.26351 1 16475 16475 38.176 11.292 1 459170 38917 3246 24736 24812 43716 43716 0.08483815108411363 YLTKVDKL 8 Unmodified _YLTKVDKL_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 490.2969970703125 2 490.294768 978.574983 3.1374 0.0015382 0.24799 0.00012159 3.3854 0.0016598 490.2948803201607 36.259 0.27666 36.516 36.348 36.625 0.25768 21 10 3 0 0 0 0.57648 1 16491 16491 15.847 3.3156 1 346830 38918 3246 24736 24812 43717 43717 0.08483815108411363 YLTKVDKL 8 Unmodified _YLTKVDKL_ 0 0 0 nc|ENSG00000141367|Q00610-2|CLTC;ENSG00000141367|ENST00000269122|CLTC nc|ENSG00000141367|Q00610-2|CLTC nc|ENSG00000141367|Q00610-2|CLTC MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 490.294768 978.574983 3.1374 0.0015382 0.24799 0.00012159 3.3854 0.0016598 490.2948803201607 36.259 0.27666 36.516 36.348 36.625 0.25768 0.10267 0.00031857 NaN 38.176 21 10 3 NaN NaN NaN NaN 0 NaN NaN 0 346830 38919 3246 24736 24812 0.08483815108411363 YLVYRQVP 8 Unmodified _YLVYRQVP_ 0 0 0 nc|ENSG00000185247|P43364-2|MAGEA11;ENST00000518694.1_1_X:148796119-148798433:+|nuORF;ENSG00000185247|ENST00000355220|MAGEA11 nc|ENSG00000185247|P43364-2|MAGEA11 nc|ENSG00000185247|P43364-2|MAGEA11 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 519.5615234375 2 519.292559 1036.57057 NaN NaN NaN NaN NaN NaN NaN 95.84 1 95.917 95.417 96.417 0.076538 0 0 0 0.93233 1 50768 50768 10.183 4.423 1 38920 5500 24737 24813 43718 43718 0.053743506855198575 YLWYWSNRFFY 11 Unmodified _YLWYWSNRFFY_ 0 0 0 REV__MMP21|p.S512Efs*21|1|0.04|ENSG00000154485|chr10:125766838-125766839|-/CTTC|frameshift_variant REV__MMP21|p.S512Efs*21|1|0.04|ENSG00000154485|chr10:125766838-125766839|-/CTTC|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 822.4661865234375 2 822.885344 1643.75613 NaN NaN NaN NaN NaN NaN NaN 83.658 1 83.658 83.158 84.158 0 0 0 0 1.008 1 42177 42177 0.35063 0 1 + 38921 12709 24738 24814 43719 43719 -0.03999291585705578 YLYCRAMD 8 Unmodified _YLYCRAMD_ 0 0 0 ENSG00000113448|ENST00000340635|PDE4D ENSG00000113448|ENST00000340635|PDE4D ENSG00000113448|ENST00000340635|PDE4D MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 345.4865417480469 3 345.485984 1033.43612 NaN NaN NaN NaN NaN NaN NaN 35.119 1 35.374 34.874 35.874 0.25524 0 0 0 0.99035 1 16003 16003 1.8442 0 1 38922 1855 24739 24815 43720 43720 -0.07925794123048036 YLYPKQYEWV 10 Unmodified _YLYPKQYEWV_ 0 0 0 HCRTR1|p.M183Wfs*10|1|0.23|ENSG00000121764|chr1:31621010-31621010|C/-|frameshift_variant;ENSG00000121764|ENST00000403528|HCRTR1 HCRTR1|p.M183Wfs*10|1|0.23|ENSG00000121764|chr1:31621010-31621010|C/-|frameshift_variant HCRTR1|p.M183Wfs*10|1|0.23|ENSG00000121764|chr1:31621010-31621010|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 694.6314086914062 2 694.847896 1387.68124 NaN NaN NaN NaN NaN NaN NaN 32.281 1 33.068 32.568 33.568 0.78795 0 0 0 1.0015 1 14599 14599 0.40072 0 1 38923 2241 24740 24816 43721 43721 0.0029052588306512916 YMAGMAAM 8 Unmodified _YMAGMAAM_ 0 0 0 nc|ENSG00000084070|Q8WU79-3|SMAP2;nc|ENSG00000084070|Q8WU79-2|SMAP2;ENSG00000084070|ENST00000372718|SMAP2 nc|ENSG00000084070|Q8WU79-3|SMAP2 nc|ENSG00000084070|Q8WU79-3|SMAP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 423.17047119140625 2 423.171353 844.328152 NaN NaN NaN NaN NaN NaN NaN 13.319 1 13.962 13.462 14.462 0.64272 0 0 0 0.99035 1 5981 5981 2.8892 0 1 38924 949 24741 24817 43722 43722 -0.10023881977997462 YMGIRDTEL 9 Unmodified _YMGIRDTEL_ 0 0 0 ENSG00000123159|ENST00000393033|GIPC1;nc|ENSG00000123159|O14908-2|GIPC1;ENST00000585606.5_1_19:14589230-14590349:-|nuORF ENSG00000123159|ENST00000393033|GIPC1 ENSG00000123159|ENST00000393033|GIPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.2713012695312 2 549.268424 1096.5223 3.6705 0.0020161 -0.27476 -0.00015092 3.3958 0.0018652 549.268116043507 48.963 0.2743 49.225 49.088 49.362 0.26209 15 9 2 0 0 0 0.057945 1 22372 22372 43.772 14.691 1 736260 38925 2297 24742 24818 43723 43723 -0.022105110167103703 YMGIRDTEL 9 Unmodified _YMGIRDTEL_ 0 0 0 ENSG00000123159|ENST00000393033|GIPC1;nc|ENSG00000123159|O14908-2|GIPC1;ENST00000585606.5_1_19:14589230-14590349:-|nuORF ENSG00000123159|ENST00000393033|GIPC1 ENSG00000123159|ENST00000393033|GIPC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 549.2703857421875 2 549.268424 1096.5223 3.6739 0.0020179 -1.2302 -0.00067571 2.4437 0.0013422 549.2676880886467 48.449 0.44279 49.104 48.899 49.342 0.65524 21 17 2 0 0 0 0.084899 1 22181 22181 36.506 11.107 1 350600 38926 2297 24742 24818 43724 43724 -0.022105110167103703 YMGLETYYENT 11 Unmodified _YMGLETYYENT_ 0 0 0 REV__ENSG00000172209|ENST00000304402|GPR22 REV__ENSG00000172209|ENST00000304402|GPR22 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 692.2979736328125 2 692.292293 1382.57003 NaN NaN NaN NaN NaN NaN NaN 104.08 1 104.4 103.9 104.9 0.31863 0 0 0 1.008 1 48093 48093 0.26902 0 1 + 38927 13541 24743 24819 43725 43725 -0.1059490160716905 YMHPYCCCD 9 Unmodified _YMHPYCCCD_ 0 0 0 ENSG00000155087|ENST00000285402|ODF1 ENSG00000155087|ENST00000285402|ODF1 ENSG00000155087|ENST00000285402|ODF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.67919921875 2 567.679216 1133.34388 NaN NaN NaN NaN NaN NaN NaN 9.3719 1 9.683 9.183 10.183 0.31115 0 0 0 0.91452 1 4191 4191 0 0 1 38928 3850 24744 24820 43726 43726 -0.21745963523244427 YMKEKLKQL 9 Unmodified _YMKEKLKQL_ 0 0 0 ENSG00000138768|ENST00000514213|USO1;nc|ENSG00000138768|O60763-2|USO1 ENSG00000138768|ENST00000514213|USO1 ENSG00000138768|ENST00000514213|USO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 394.23126220703125 3 394.230132 1179.66857 2.7546 0.001086 -0.023529 -9.2759E-06 2.7311 0.0010767 394.23024969753243 17.392 0.42081 17.693 17.482 17.902 0.30158 72 30 3 0 0 0 0.38625 3 7896 7853;7896;7949 14.405 6.7964 1 249900 38929 3116 24745 24821 43727;43728;43729 43728 0.08591791219214429 YMKEKLKQL 9 Unmodified _YMKEKLKQL_ 0 0 0 ENSG00000138768|ENST00000514213|USO1;nc|ENSG00000138768|O60763-2|USO1 ENSG00000138768|ENST00000514213|USO1 ENSG00000138768|ENST00000514213|USO1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.23126220703125 3 394.230132 1179.66857 2.8774 0.0011344 -0.10714 -4.2238E-05 2.7703 0.0010921 394.2301225689309 17.442 0.27718 18.103 17.884 18.161 0.66072 38 20 2 0 0 0 0.061685 2 7856 7810;7856 42.312 24.87 1 501530 38930 3116 24745 24821 43730;43731 43731 0.08591791219214429 YMKPGKEL 8 Unmodified _YMKPGKEL_ 0 0 0 ENSG00000164308|ENST00000437043|ERAP2;nc|ENSG00000164308|Q6P179-3|ERAP2;nc|ENSG00000164308|Q6P179-4|ERAP2;nc|ENSG00000164308|Q6P179-2|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.5097351074219 3 322.509006 964.505189 2.1297 0.00068685 0.42663 0.00013759 2.5563 0.00082444 322.5091444280471 16.883 1.1655 17.188 16.336 17.501 0.30438 207 119 2 0 0 0 0.68959 1 7709 7709 4.897 0 1 167140 38931 4305 24746 24822 43732 43732 0.021516131681551087 YMKPGKEL 8 Unmodified _YMKPGKEL_ 0 0 0 ENSG00000164308|ENST00000437043|ERAP2;nc|ENSG00000164308|Q6P179-3|ERAP2;nc|ENSG00000164308|Q6P179-4|ERAP2;nc|ENSG00000164308|Q6P179-2|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.26092529296875 2 483.259871 964.505189 3.1932 0.0015431 0.59584 0.00028794 3.789 0.0018311 483.2601297820423 16.862 0.57367 17.523 17.228 17.802 0.66072 96 51 2 0 0 0 0.57648 3 7544 7544;7598;7650 15.847 7.937 1 112570 38932 4305 24746 24822 43733;43734;43735 43733 0.021516131681551087 YMKPGKEL 8 Unmodified _YMKPGKEL_ 0 0 0 ENSG00000164308|ENST00000437043|ERAP2;nc|ENSG00000164308|Q6P179-3|ERAP2;nc|ENSG00000164308|Q6P179-4|ERAP2;nc|ENSG00000164308|Q6P179-2|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 322.5100402832031 3 322.509006 964.505189 2.2007 0.00070976 0.81954 0.00026431 3.0203 0.00097407 322.5092775272999 16.826 1.0875 17.486 16.736 17.824 0.66072 202 110 2 0 0 0 0.68959 2 7624 7624;7668 4.897 0 1 206080 38933 4305 24746 24822 43736;43737 43736 0.021516131681551087 YMKPGKEL 8 Unmodified _YMKPGKEL_ 0 0 0 ENSG00000164308|ENST00000437043|ERAP2;nc|ENSG00000164308|Q6P179-3|ERAP2;nc|ENSG00000164308|Q6P179-4|ERAP2;nc|ENSG00000164308|Q6P179-2|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 ENSG00000164308|ENST00000437043|ERAP2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 483.259871 964.505189 2.8774 0.0013906 0.72022 0.00034805 3.5977 0.0017386 483.26015205389683 16.939 0.36941 17.244 16.995 17.364 0.30438 -0.13954 7.3949E-05 NaN 15.847 39 31 2 NaN NaN NaN NaN 0 NaN NaN 0 54116 38934 4305 24746 24822 0.021516131681551087 YMRCRQQL 8 Unmodified _YMRCRQQL_ 0 0 0 REV__ENSG00000173805|ENST00000347901|HAP1 REV__ENSG00000173805|ENST00000347901|HAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 549.270263671875 2 549.270778 1096.527 NaN NaN NaN NaN NaN NaN NaN 49.072 1 49.334 48.834 49.834 0.26146 0 0 0 0.79116 1 22431 22431 19.439 2.4967 1 + 38935 13612 24747 24823 43738 43738 -0.01739905354907023 YMRNDYDWQFD 11 Unmodified _YMRNDYDWQFD_ 0 0 0 REV__ENST00000457130.2_1_X:143922603-143922738:+|nuORF REV__ENST00000457130.2_1_X:143922603-143922738:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 776.8115844726562 2 776.811716 1551.60888 NaN NaN NaN NaN NaN NaN NaN 76.644 1 76.899 76.399 77.399 0.25533 0 0 0 1.0082 1 35292 35292 0 0 1 + 38936 16457 24748 24824 43739 43739 -0.14486176252808036 YMWDEEEEEEE 11 Unmodified _YMWDEEEEEEE_ 0 0 0 nc|ENSG00000183718|Q96A61-2|TRIM52;ENST00000514805.1_1_5:180686895-180687847:-|nuORF;ENSG00000183718|ENST00000688015|TRIM52;nc|ENSG00000183718|Q96A61|TRIM52 nc|ENSG00000183718|Q96A61-2|TRIM52 nc|ENSG00000183718|Q96A61-2|TRIM52 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 758.8600463867188 2 759.266669 1516.51879 NaN NaN NaN NaN NaN NaN NaN 83.12 1 83.367 82.867 83.867 0.24722 0 0 0 1.0082 1 38262 38262 0 0 1 38937 5400 24749 24825 43740 43740 -0.2188131516249996 YNANRAFQKM 10 Unmodified _YNANRAFQKM_ 0 0 0 ENSG00000115128|ENST00000233468|SF3B6 ENSG00000115128|ENST00000233468|SF3B6 ENSG00000115128|ENST00000233468|SF3B6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 621.808349609375 2 621.806039 1241.59753 NaN NaN NaN NaN NaN NaN NaN 52.85 1 52.85 52.35 53.35 0 0 0 0 0.99225 1 24206 24206 6.7232 0.99131 1 38938 1944 24750 24826 43741 43741 -0.013609087656050178 YNCCCGNF 8 Unmodified _YNCCCGNF_ 0 0 0 ENSG00000186980|ENST00000334160|KRTAP23-1 ENSG00000186980|ENST00000334160|KRTAP23-1 ENSG00000186980|ENST00000334160|KRTAP23-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 462.1484680175781 2 462.145866 922.277179 NaN NaN NaN NaN NaN NaN NaN 29.099 1 29.889 29.389 30.389 0.78921 0 0 0 0.99035 1 13113 13113 0.79363 0 1 38939 5596 24751 24827 43742 43742 -0.18706831022836923 YNFMLYDMYYF 11 Unmodified _YNFMLYDMYYF_ 0 0 0 REV__ENSG00000124302|ENST00000650847|CHST8 REV__ENSG00000124302|ENST00000650847|CHST8 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 785.4772338867188 2 785.325082 1568.63561 NaN NaN NaN NaN NaN NaN NaN 108.17 1 108.48 107.98 108.98 0.31168 0 0 0 1.0082 1 49887 49887 0 0 1 + 38940 11650 24752 24828 43743 43743 -0.12596203685825458 YNGDMEKI 8 Unmodified _YNGDMEKI_ 0 0 0 ENSG00000176171|ENST00000368636|BNIP3;ENST00000550043.1_1_14:28733783-28734191:+|nuORF ENSG00000176171|ENST00000368636|BNIP3 ENSG00000176171|ENST00000368636|BNIP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 969.4412231445312 1 969.434609 968.427332 3.6355 0.0035244 -0.14327 -0.00013889 3.4922 0.0033855 969.4351024584823 36.257 0.19508 37.05 36.927 37.122 0.79342 10 8 2 0 0 0 0.12152 1 16448 16448 51.415 28.679 1 204060 38941 5066 24753 24829 43744 43744 -0.058144444878848844 YNIFSDSWEAF 11 Unmodified _YNIFSDSWEAF_ 0 0 0 ENSG00000087448|ENST00000381271|KLHL42 ENSG00000087448|ENST00000381271|KLHL42 ENSG00000087448|ENST00000381271|KLHL42 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 460.2040710449219 3 460.203187 1377.58773 2.6682 0.0012279 0.1737 7.9936E-05 2.8419 0.0013078 460.20320691952116 44.348 0.39643 45.169 44.953 45.349 0.82074 72 19 5 0 0 0 0.77056 1 20155 20155 4.1166 1.4854 1 5451200 38942 1002 24754 24830 43745 43745 -0.08595818290018542 YNIFSDSWEAF 11 Unmodified _YNIFSDSWEAF_ 0 0 0 ENSG00000087448|ENST00000381271|KLHL42 ENSG00000087448|ENST00000381271|KLHL42 ENSG00000087448|ENST00000381271|KLHL42 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 460.2048034667969 3 460.203187 1377.58773 3.0691 0.0014124 0.26499 0.00012195 3.3341 0.0015344 460.20330026859347 44.838 0.24545 45.488 45.346 45.592 0.64999 28 8 4 0 0 0 0.77056 1 20546 20546 4.1166 0.27072 1 2913200 38943 1002 24754 24830 43746 43746 -0.08595818290018542 YNISFEKKLL 10 Unmodified _YNISFEKKLL_ 0 0 0 nc|ENSG00000042813|Q9BS86-2|ZPBP;ENSG00000042813|ENST00000046087|ZPBP nc|ENSG00000042813|Q9BS86-2|ZPBP nc|ENSG00000042813|Q9BS86-2|ZPBP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 627.8599243164062 2 627.858264 1253.70197 NaN NaN NaN NaN NaN NaN NaN 68.248 1 68.5 68 69 0.25227 0 0 0 1.0001 1 31264 31264 1.6526 0 1 38944 545 24755 24831 43747 43747 0.08527116262757772 YNKFVQSCI 9 Unmodified _YNKFVQSCI_ 0 0 0 ENSG00000142619|ENST00000375460|PADI3 ENSG00000142619|ENST00000375460|PADI3 ENSG00000142619|ENST00000375460|PADI3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.274658203125 2 551.273509 1100.53247 NaN NaN NaN NaN NaN NaN NaN 41.5 1 41.5 41 42 0 0 0 0 0.33854 1 18871 18871 25.399 0.72543 1 38945 3319 24756 24832 43748 43748 -0.013779032914726486 YNLVQDLRL 9 Unmodified _YNLVQDLRL_ 0 0 0 chr5:147872353-147901629|153|12.81|0.07|7.57|-|2|TE_info:HERVH-int,HERVH-int_dup2299,ERV1,LTR,acceptor,-,147871299,147872353|None,C5orf46|11 chr5:147872353-147901629|153|12.81|0.07|7.57|-|2|TE_info:HERVH-int,HERVH-int_dup2299,ERV1,LTR,acceptor,-,147871299,147872353|None,C5orf46|11 chr5:147872353-147901629|153|12.81|0.07|7.57|-|2|TE_info:HERVH-int,HERVH-int_dup2299,ERV1,LTR,acceptor,-,147871299,147872353|None,C5orf46|11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3213500976562 2 567.319306 1132.62406 NaN NaN NaN NaN NaN NaN NaN 59.511 1 59.77 59.27 60.27 0.2593 0 0 0 0.55812 1 27252 27252 17.113 0 1 38946 179 24757 24833 43749 43749 0.06305103397380662 YNMTNDYSM 9 Unmodified _YNMTNDYSM_ 0 0 0 REV__ENST00000250360.7_1_19:51633359-51633509:+|nuORF REV__ENST00000250360.7_1_19:51633359-51633509:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 380.47979736328125 3 380.144175 1137.4107 2.7452 0.0010436 -0.59151 -0.00022486 2.1536 0.0008187 380.14385472067585 17.166 0.56813 17.826 17.469 18.037 0.66072 81 43 3 0 0 0 1.2078 1 7729 7729 0.26902 0.062163 1 367490 + 38947 14904 24758 24834 43750 43750 -0.15251313436169767 YNNFLIQFNN 10 Unmodified _YNNFLIQFNN_ 0 0 0 REV__ENSG00000008300|ENST00000164024|CELSR3 REV__ENSG00000008300|ENST00000164024|CELSR3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 643.810302734375 2 643.811845 1285.60914 NaN NaN NaN NaN NaN NaN NaN 54.996 1 54.996 54.496 55.496 0 0 0 0 0.96627 1 25251 25251 10.824 1.4408 1 + 38948 10208 24759 24835 43751 43751 -0.022243884706085737 YNPDEEEEDTD 11 Unmodified _YNPDEEEEDTD_ 0 0 0 nc|ENSG00000114302|P13861-2|PRKAR2A;ENSG00000114302|ENST00000265563|PRKAR2A nc|ENSG00000114302|P13861-2|PRKAR2A nc|ENSG00000114302|P13861-2|PRKAR2A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 678.2442626953125 2 678.241509 1354.46846 NaN NaN NaN NaN NaN NaN NaN 79.448 1 80.108 79.608 80.608 0.66082 0 0 0 1.0038 1 36607 36607 5.7319 0.43497 1 38949 1895 24760 24836 43752 43752 -0.1945910149604515 YNRRLGTTKL 10 Unmodified _YNRRLGTTKL_ 0 0 0 REV__nc|ENSG00000165061|Q9H898-2|ZMAT4 REV__nc|ENSG00000165061|Q9H898-2|ZMAT4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 611.3587646484375 2 611.356754 1220.69895 3.9302 0.0024028 -0.74464 -0.00045524 3.1856 0.0019475 611.3560789814101 90.033 2.3692 90.285 89.498 91.868 0.25136 339 114 4 0 0 0 0.93628 1 41238 41238 1.6526 0 1 4331900 + 38950 18019 24761 24837 43753 43753 0.09743285928584555 YNWFYTYNIWM 11 Unmodified _YNWFYTYNIWM_ 0 0 0 REV__ENSG00000165899|ENST00000547103|OTOGL REV__ENSG00000165899|ENST00000547103|OTOGL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 800.8494873046875 2 800.850113 1599.68567 NaN NaN NaN NaN NaN NaN NaN 86.215 1 86.215 85.715 86.715 0 0 0 0 1.0082 1 44142 44142 0 0 1 + 38951 13196 24762 24838 43754 43754 -0.09018332965638365 YNYVKIIKFHV 11 Unmodified _YNYVKIIKFHV_ 0 0 0 REV__L1MA2_dup7170|chr19:20395489-20395679:+|1.7800681304266606|0.1159364186564724|3.94|535.0|6|3|sense REV__L1MA2_dup7170|chr19:20395489-20395679:+|1.7800681304266606|0.1159364186564724|3.94|535.0|6|3|sense MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 712.1666259765625 2 712.408455 1422.80236 3.2047 0.002283 -3.7382 -0.0026631 -0.53348 -0.00038006 712.9082872951559 84.37 0.031075 84.37 84.349 84.38 0 5 3 2 0 0 0 0.13295 1 42696 42696 2.7352 1.6637 1 11187000 + 38952 17756 24763 24839 43755 43755 0.10786773316385734 YPASTVQIL 9 Unmodified _YPASTVQIL_ 0 0 0 ENST00000484998.5_1_20:2635830-2636687:+|nuORF;ENST00000480992.5_1_20:2635438-2636687:+|nuORF;ENSG00000101361|ENST00000329276|NOP56 ENST00000484998.5_1_20:2635830-2636687:+|nuORF ENST00000484998.5_1_20:2635830-2636687:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 496.27728271484375 2 496.276575 990.538597 3.2952 0.0016353 0.048189 2.3915E-05 3.3434 0.0016593 496.2765566439636 64.442 0.34091 65.099 64.931 65.272 0.65672 23 15 2 0 0 0 0.035095 1 29546 29546 53.576 2.7205 1 629670 38953 1289 24764 24840 43756 43756 0.04294938211717181 YPASTVQIL 9 Unmodified _YPASTVQIL_ 0 0 0 ENST00000484998.5_1_20:2635830-2636687:+|nuORF;ENST00000480992.5_1_20:2635438-2636687:+|nuORF;ENSG00000101361|ENST00000329276|NOP56 ENST00000484998.5_1_20:2635830-2636687:+|nuORF ENST00000484998.5_1_20:2635830-2636687:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 496.276575 990.538597 3.2654 0.0016206 -0.83833 -0.00041604 2.4271 0.0012045 496.27624656349025 64.971 0.34327 65.219 65.072 65.416 0.24803 0.060101 -0.00044554 NaN 53.576 22 15 2 NaN NaN NaN NaN 0 NaN NaN 0 662310 38954 1289 24764 24840 0.04294938211717181 YPCHTVATDIL 11 Carbamidomethyl (C) _YPC(Carbamidomethyl (C))HTVATDIL_ YPC(1)HTVATDIL YPC(65)HTVATDIL 0 1 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;CNOT1|p.G782Hfs*19|1|0.06|ENSG00000125107|chr16:58556981-58556982|CC/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 645.31591796875 2 645.313363 1288.61217 3.5952 0.00232 -0.053651 -3.4622E-05 3.5415 0.0022854 645.3132513355497 52.404 0.28233 52.404 52.229 52.511 0 31 21 2 0 0 0 0.010663 1 24002 24002 65.235 46.862 1 1185400 38955 196 24765 24841 43757 43757 2 -0.020588814081293094 YPCHTVATDIL 11 Carbamidomethyl (C) _YPC(Carbamidomethyl (C))HTVATDIL_ YPC(1)HTVATDIL YPC(75)HTVATDIL 0 1 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;CNOT1|p.G782Hfs*19|1|0.06|ENSG00000125107|chr16:58556981-58556982|CC/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 645.3151245117188 2 645.313363 1288.61217 3.0761 0.001985 0.20972 0.00013533 3.2858 0.0021204 645.3136269829861 51.398 0.24911 52.215 52.115 52.364 0.81738 36 18 3 0 0 0 0.002428 1 23412 23412 74.929 45.088 1 1051100 38956 196 24765 24841 43758 43758 2 -0.020588814081293094 YPCHTVATDIL 11 Carbamidomethyl (C) _YPC(Carbamidomethyl (C))HTVATDIL_ YPC(1)HTVATDIL YPC(85)HTVATDIL 0 1 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;CNOT1|p.G782Hfs*19|1|0.06|ENSG00000125107|chr16:58556981-58556982|CC/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 645.3165893554688 2 645.313363 1288.61217 3.7285 0.0024061 -0.14542 -9.3842E-05 3.5831 0.0023122 645.313167861594 52.168 0.29516 52.43 52.262 52.557 0.26227 30 17 2 0 0 0 0.00014725 2 23831 23831;23878 85.272 55.431 1 838260 38957 196 24765 24841 43759;43760 43759 2 -0.020588814081293094 YPCHTVATDIL 11 Carbamidomethyl (C) _YPC(Carbamidomethyl (C))HTVATDIL_ YPC(1)HTVATDIL YPC(59)HTVATDIL 0 1 0 CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant;nc|ENSG00000125107|A5YKK6-2|CNOT1;ENSG00000125107|ENST00000317147|CNOT1;nc|ENSG00000125107|A5YKK6-3|CNOT1;nc|ENSG00000125107|A5YKK6-4|CNOT1;CNOT1|p.R1683Qfs*32|1|0.4|ENSG00000125107|chr16:58538855-58538859|GTAGC/-|frameshift_variant;CNOT1|p.G782Hfs*19|1|0.06|ENSG00000125107|chr16:58556981-58556982|CC/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant CNOT1|p.I2324Tfs*4|1|0.27|ENSG00000125107|chr16:58521258-58521264|AAGGTAA/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 645.81689453125 2 645.313363 1288.61217 3.7498 0.0024198 -0.25196 -0.00016259 3.4978 0.0022572 645.3133712683532 51.577 0.30304 52.236 52.077 52.38 0.65956 40 15 3 0 0 0 0.021016 1 23596 23596 58.679 40.532 1 581580 38958 196 24765 24841 43761 43761 2 -0.020588814081293094 YPCIPNHEL 9 Carbamidomethyl (C) _YPC(Carbamidomethyl (C))IPNHEL_ YPC(1)IPNHEL YPC(89)IPNHEL 0 1 0 nc|ENSG00000015171|Q15326-6|ZMYND11;nc|ENSG00000015171|Q15326-3|ZMYND11;ENSG00000015171|ENST00000381604|ZMYND11;nc|ENSG00000015171|Q15326-4|ZMYND11;nc|ENSG00000015171|Q15326-5|ZMYND11;nc|ENSG00000015171|Q15326-2|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.7709350585938 2 571.768591 1141.52263 3.4239 0.0019577 0.36512 0.00020877 3.789 0.0021665 571.768697465928 45.973 0.3175 46.239 46.051 46.368 0.26561 26 13 3 0 0 0 0.0061394 1 20989 20989 89.401 49.443 1 832340 38959 437 24766 24842 43762 43762 8 -0.04247091296861072 YPCIPNHEL 9 Carbamidomethyl (C) _YPC(Carbamidomethyl (C))IPNHEL_ YPC(1)IPNHEL YPC(65)IPNHEL 0 1 0 nc|ENSG00000015171|Q15326-6|ZMYND11;nc|ENSG00000015171|Q15326-3|ZMYND11;ENSG00000015171|ENST00000381604|ZMYND11;nc|ENSG00000015171|Q15326-4|ZMYND11;nc|ENSG00000015171|Q15326-5|ZMYND11;nc|ENSG00000015171|Q15326-2|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.77197265625 2 571.768591 1141.52263 3.8836 0.0022205 -0.45807 -0.00026191 3.4255 0.0019586 571.7685169698914 45.351 0.38755 46.002 45.807 46.194 0.65104 46 17 4 0 0 0 0.02234 2 20754 20754;20824 65.235 25.278 1 557900 38960 437 24766 24842 43763;43764 43763 8 -0.04247091296861072 YPCIPNHEL 9 Carbamidomethyl (C) _YPC(Carbamidomethyl (C))IPNHEL_ 0 1 0 nc|ENSG00000015171|Q15326-6|ZMYND11;nc|ENSG00000015171|Q15326-3|ZMYND11;ENSG00000015171|ENST00000381604|ZMYND11;nc|ENSG00000015171|Q15326-4|ZMYND11;nc|ENSG00000015171|Q15326-5|ZMYND11;nc|ENSG00000015171|Q15326-2|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 nc|ENSG00000015171|Q15326-6|ZMYND11 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 571.768591 1141.52263 3.5368 0.0020222 0.67766 0.00038747 4.2145 0.0024097 571.7696095671565 45.125 0.35133 45.951 45.678 46.03 0.82621 -0.12004 0.00098101 NaN 89.401 23 17 2 NaN NaN NaN NaN 0 NaN NaN 0 794750 38961 437 24766 24842 8 -0.04247091296861072 YPCVNRLL 8 Unmodified _YPCVNRLL_ 0 0 0 REV__chr10:89462624-89506310|321|10.73|0.6|4.16|-|0|TE_info:L1PA7,L1PA7_dup9423,L1,LINE,donor,+,89506310,89511743|SLC16A12,None|17 REV__chr10:89462624-89506310|321|10.73|0.6|4.16|-|0|TE_info:L1PA7,L1PA7_dup9423,L1,LINE,donor,+,89506310,89511743|SLC16A12,None|17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 489.2678527832031 2 489.265487 976.516422 3.2784 0.001604 -0.13866 -6.7842E-05 3.1397 0.0015362 489.265312805178 50.631 0.30654 50.631 50.461 50.767 0 32 18 2 0 0 0 0.52517 1 23170 23170 19.439 0 1 1423300 + 38962 10015 24767 24843 43765 43765 0.02722435262307954 YPDATPEEL 9 Unmodified _YPDATPEEL_ 0 0 0 ENST00000449943.5_1_11:64897669-64899838:-|nuORF;nc|ENSG00000162298|Q86TM6-2|SYVN1;nc|ENSG00000162298|Q86TM6-3|SYVN1;ENSG00000162298|ENST00000377190|SYVN1 ENST00000449943.5_1_11:64897669-64899838:-|nuORF ENST00000449943.5_1_11:64897669-64899838:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.7390747070312 2 517.73748 1033.46041 3.2437 0.0016794 -0.022849 -1.183E-05 3.2209 0.0016676 517.7374941055506 49.173 0.35814 49.173 48.966 49.324 0 29 17 2 0 0 0 0.052704 1 22510 22510 46.021 22.873 1 951680 38963 4126 24768 24844 43766 43766 -0.05498539164182148 YPDATPEEL 9 Unmodified _YPDATPEEL_ 0 0 0 ENST00000449943.5_1_11:64897669-64899838:-|nuORF;nc|ENSG00000162298|Q86TM6-2|SYVN1;nc|ENSG00000162298|Q86TM6-3|SYVN1;ENSG00000162298|ENST00000377190|SYVN1 ENST00000449943.5_1_11:64897669-64899838:-|nuORF ENST00000449943.5_1_11:64897669-64899838:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 517.7392578125 2 517.73748 1033.46041 3.3543 0.0017367 -1.56 -0.00080765 1.7943 0.000929 517.7364655032978 48.237 0.43267 49.067 48.829 49.261 0.82915 31 20 2 0 0 0 0.071101 2 21936 21936;21995 39.957 16.809 1 910430 38964 4126 24768 24844 43767;43768 43767 -0.05498539164182148 YPDATPEEL 9 Unmodified _YPDATPEEL_ 0 0 0 ENST00000449943.5_1_11:64897669-64899838:-|nuORF;nc|ENSG00000162298|Q86TM6-2|SYVN1;nc|ENSG00000162298|Q86TM6-3|SYVN1;ENSG00000162298|ENST00000377190|SYVN1 ENST00000449943.5_1_11:64897669-64899838:-|nuORF ENST00000449943.5_1_11:64897669-64899838:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.739013671875 2 517.73748 1033.46041 3.5343 0.0018298 -0.52011 -0.00026928 3.0142 0.0015605 517.7372472912652 49.053 0.44292 49.315 49.087 49.53 0.26146 29 16 2 0 0 0 0.062556 1 22443 22443 42.095 27.513 1 1031200 38965 4126 24768 24844 43769 43769 -0.05498539164182148 YPDATPEEL 9 Unmodified _YPDATPEEL_ 0 0 0 ENST00000449943.5_1_11:64897669-64899838:-|nuORF;nc|ENSG00000162298|Q86TM6-2|SYVN1;nc|ENSG00000162298|Q86TM6-3|SYVN1;ENSG00000162298|ENST00000377190|SYVN1 ENST00000449943.5_1_11:64897669-64899838:-|nuORF ENST00000449943.5_1_11:64897669-64899838:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.7391357421875 2 517.73748 1033.46041 3.5572 0.0018417 -0.86044 -0.00044548 2.6967 0.0013962 517.7367188287163 48.561 0.46114 49.216 49.013 49.474 0.65524 26 17 2 0 0 0 0.032303 2 22248 22248;22302 54.774 28.432 1 643460 38966 4126 24768 24844 43770;43771 43770 -0.05498539164182148 YPDDEEEDEE 10 Unmodified _YPDDEEEDEE_ 0 0 0 nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B;ENSG00000275052|ENST00000616407|PPP4R3B;nc|ENSG00000275052|Q5MIZ7-3|PPP4R3B;nc|ENSG00000275052|Q5MIZ7-5|PPP4R3B nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B nc|ENSG00000275052|Q5MIZ7-2|PPP4R3B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 635.2172241210938 2 635.217502 1268.42045 NaN NaN NaN NaN NaN NaN NaN 52.331 1 53.142 52.642 53.642 0.81065 0 0 0 0.99983 1 23842 23842 1.8442 0 1 38967 6345 24769 24845 43772 43772 -0.20302175416054524 YPDEIEYIF 9 Unmodified _YPDEIEYIF_ 0 0 0 nc|ENSG00000112715|P15692-10|VEGFA;ENST00000476772.5_1_6:43738443-43746274:+|nuORF;ENSG00000112715|ENST00000672860|VEGFA;nc|ENSG00000112715|P15692-16|VEGFA;nc|ENSG00000112715|P15692-11|VEGFA;nc|ENSG00000112715|P15692-15|VEGFA;nc|ENSG00000112715|P15692-17|VEGFA;nc|ENSG00000112715|P15692-12|VEGFA;nc|ENSG00000112715|P15692-18|VEGFA;nc|ENSG00000112715|P15692-1|VEGFA;ENST00000518538.5_1_6:43738983-43746656:+|nuORF;nc|ENSG00000112715|P15692-2|VEGFA;nc|ENSG00000112715|P15692-3|VEGFA;nc|ENSG00000112715|P15692-8|VEGFA;nc|ENSG00000112715|P15692-4|VEGFA;nc|ENSG00000112715|P15692-5|VEGFA;nc|ENSG00000112715|P15692-6|VEGFA;nc|ENSG00000112715|P15692-9|VEGFA;nc|ENSG00000112715|P15692-14|VEGFA nc|ENSG00000112715|P15692-10|VEGFA nc|ENSG00000112715|P15692-10|VEGFA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 594.7789306640625 2 594.776605 1187.53866 NaN NaN NaN NaN NaN NaN NaN 88.126 1 88.805 88.305 89.305 0.67818 0 0 0 0.42757 1 40590 40590 21.747 10.632 1 38968 1818 24770 24846 43773 43773 -0.04761106578939689 YPDEKSVCL 9 Carbamidomethyl (C) _YPDEKSVC(Carbamidomethyl (C))L_ YPDEKSVC(1)L YPDEKSVC(90)L 0 1 0 ENSG00000125170|ENST00000340099|DOK4 ENSG00000125170|ENST00000340099|DOK4 ENSG00000125170|ENST00000340099|DOK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 555.7627563476562 2 555.760432 1109.50631 3.5349 0.0019646 -0.10197 -5.6672E-05 3.433 0.0019079 555.7604746602957 39.51 0.41621 39.51 39.276 39.692 0 40 16 3 0 0 0 0.0057865 2 17955 17896;17955 90.135 48.318 1 1990800 38969 2390 24771 24847 43774;43775 43775 52 -0.04406217253608702 YPDEKSVCL 9 Carbamidomethyl (C) _YPDEKSVC(Carbamidomethyl (C))L_ YPDEKSVC(1)L YPDEKSVC(68)L 0 1 0 ENSG00000125170|ENST00000340099|DOK4 ENSG00000125170|ENST00000340099|DOK4 ENSG00000125170|ENST00000340099|DOK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 555.762451171875 2 555.760432 1109.50631 3.304 0.0018362 0.0094642 5.2598E-06 3.3134 0.0018415 555.7604804621972 38.377 0.45271 39.175 38.906 39.359 0.79762 50 19 3 0 0 0 0.020338 1 17365 17365 67.838 29.864 1 1348400 38970 2390 24771 24847 43776 43776 52 -0.04406217253608702 YPDEKSVCL 9 Carbamidomethyl (C) _YPDEKSVC(Carbamidomethyl (C))L_ YPDEKSVC(1)L YPDEKSVC(51)L 0 1 0 ENSG00000125170|ENST00000340099|DOK4 ENSG00000125170|ENST00000340099|DOK4 ENSG00000125170|ENST00000340099|DOK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 555.7623291015625 2 555.760432 1109.50631 3.5291 0.0019614 -0.47148 -0.00026203 3.0577 0.0016993 555.7602296020018 39.423 0.53165 39.69 39.431 39.962 0.26696 49 19 3 0 0 0 0.04013 2 17928 17928;17985 51.415 19.11 1 939620 38971 2390 24771 24847 43777;43778 43777 52 -0.04406217253608702 YPDEKSVCL 9 Carbamidomethyl (C) _YPDEKSVC(Carbamidomethyl (C))L_ YPDEKSVC(1)L YPDEKSVC(59)L 0 1 0 ENSG00000125170|ENST00000340099|DOK4 ENSG00000125170|ENST00000340099|DOK4 ENSG00000125170|ENST00000340099|DOK4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.761474609375 2 555.760432 1109.50631 3.5574 0.001977 0.19381 0.00010771 3.7512 0.0020848 555.7604510019476 39.056 0.50905 39.694 39.408 39.917 0.63778 41 18 3 0 0 0 0.026853 1 17861 17861 59.368 23.241 1 627350 38972 2390 24771 24847 43779 43779 52 -0.04406217253608702 YPDENGFDAF 10 Unmodified _YPDENGFDAF_ 0 0 0 nc|ENSG00000078618|O43847-2|NRDC;ENSG00000078618|ENST00000352171|NRDC nc|ENSG00000078618|O43847-2|NRDC nc|ENSG00000078618|O43847-2|NRDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.7400512695312 2 587.738011 1173.46147 3.7719 0.0022169 0.3654 0.00021476 4.1373 0.0024316 587.7379387438026 67.886 0.76523 68.138 67.755 68.52 0.25227 86 50 2 0 0 0 0.059328 6 30992 30992;31058;31103;31140;31154;31236 60.074 47.833 1 525160 38973 880 24772 24848 43780;43781;43782;43783;43784;43785 43780 -0.1183232479529579 YPDENGFDAF 10 Unmodified _YPDENGFDAF_ 0 0 0 nc|ENSG00000078618|O43847-2|NRDC;ENSG00000078618|ENST00000352171|NRDC nc|ENSG00000078618|O43847-2|NRDC nc|ENSG00000078618|O43847-2|NRDC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.7390747070312 2 587.738011 1173.46147 3.5441 0.002083 0.5232 0.00030751 4.0673 0.0023905 587.7383132333168 67.562 0.9921 68.219 67.475 68.467 0.65777 99 59 2 0 0 0 0.04318 4 30847 30749;30795;30847;30896 63.961 47.811 1 676510 38974 880 24772 24848 43786;43787;43788;43789 43788 -0.1183232479529579 YPDGIRHI 8 Unmodified _YPDGIRHI_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3;ENST00000568291.2_1_16:70588380-70590279:+|nuORF ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 485.7604064941406 2 485.758884 969.503215 3.3968 0.00165 0.11513 5.5926E-05 3.5119 0.0017059 485.75887384184017 31.422 0.25829 31.422 31.308 31.567 0 33 22 2 0 0 0 0.18676 1 14228 14228 44.407 12.29 1 439170 38975 5704 24773 24849 43790 43790 0.017243204745682306 YPDGIRHI 8 Unmodified _YPDGIRHI_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3;ENST00000568291.2_1_16:70588380-70590279:+|nuORF ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 485.7610778808594 2 485.758884 969.503215 3.2762 0.0015914 0.033682 1.6362E-05 3.3098 0.0016078 485.7587899685437 30.533 0.2832 31.323 31.152 31.435 0.78921 35 21 2 0 0 0 0.15009 2 13765 13765;13814 48.346 23.672 1 409370 38976 5704 24773 24849 43791;43792 43791 0.017243204745682306 YPDGIRHI 8 Unmodified _YPDGIRHI_ 0 0 0 ENSG00000189091|ENST00000302516|SF3B3;ENST00000568291.2_1_16:70588380-70590279:+|nuORF ENSG00000189091|ENST00000302516|SF3B3 ENSG00000189091|ENST00000302516|SF3B3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 485.758884 969.503215 3.2074 0.001558 0.9754 0.00047381 4.1828 0.0020319 485.75909387624296 30.803 0.22172 31.421 31.322 31.544 0.61737 -0.0044658 0.00066238 NaN 48.346 22 12 2 NaN NaN NaN NaN 0 NaN NaN 0 253820 38977 5704 24773 24849 0.017243204745682306 YPDHIIGR 8 Unmodified _YPDHIIGR_ 0 0 0 REV__nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 REV__nc|ENSG00000130640|Q9BSJ2-3|TUBGCP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.7616882324219 2 485.758884 969.503215 3.2074 0.001558 0.9754 0.00047381 4.1828 0.0020319 485.75909387624296 30.803 0.22172 31.421 31.322 31.544 0.61737 22 12 2 0 0 0 0.68261 1 14164 14164 7.2892 0 1 253820 + 38978 11825 24774 24850 43793 43793 0.017243204745682306 YPDLDFHW 8 Unmodified _YPDLDFHW_ 0 0 0 ENST00000342526.7_1_7:15405142-15405815:-|nuORF ENST00000342526.7_1_7:15405142-15405815:-|nuORF ENST00000342526.7_1_7:15405142-15405815:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 546.7456665039062 2 546.742899 1091.47125 NaN NaN NaN NaN NaN NaN NaN 32.997 1 33.785 33.285 34.285 0.78795 0 0 0 0.79116 1 14928 14928 19.439 1.2926 1 38979 7082 24775 24851 43794 43794 -0.07083091999243152 YPDLMPIDVN 10 Unmodified _YPDLMPIDVN_ 0 0 0 REV__nc|ENSG00000292343|Q02040-2|AKAP17A REV__nc|ENSG00000292343|Q02040-2|AKAP17A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 588.787109375 2 588.783907 1175.55326 3.4402 0.0020256 -0.58801 -0.00034621 2.8522 0.0016793 588.7840453407504 44.64 0.33821 44.64 44.519 44.858 0 77 25 5 0 0 0 0.68517 2 20383 20383;20439 13.906 13.906 1 16633000 + 38980 14311 24776 24852 43795;43796 43795 -0.027493577024642946 YPDLMPIDVN 10 Unmodified _YPDLMPIDVN_ 0 0 0 REV__nc|ENSG00000292343|Q02040-2|AKAP17A REV__nc|ENSG00000292343|Q02040-2|AKAP17A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 588.7852172851562 2 588.783907 1175.55326 3.3439 0.0019688 -0.1135 -6.6829E-05 3.2304 0.001902 588.7840312152995 44.395 0.4427 44.664 44.473 44.916 0.26939 70 17 6 0 0 0 0.68517 4 20239 20239;20302;20362;20367 13.906 10.074 1 15702000 + 38981 14311 24776 24852 43797;43798;43799;43800 43797 -0.027493577024642946 YPDLMPIDVN 10 Unmodified _YPDLMPIDVN_ 0 0 0 REV__nc|ENSG00000292343|Q02040-2|AKAP17A REV__nc|ENSG00000292343|Q02040-2|AKAP17A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.7852172851562 2 588.783907 1175.55326 3.7671 0.002218 -0.52752 -0.0003106 3.2396 0.0019074 588.7837179986951 43.885 0.31546 44.533 44.434 44.75 0.64872 66 23 6 0 0 0 0.68517 1 20085 20085 13.906 2.2658 1 14789000 + 38982 14311 24776 24852 43801 43801 -0.027493577024642946 YPDNLKHLYFQ 11 Unmodified _YPDNLKHLYFQ_ 0 0 0 ENST00000406807.2_1_6:149812705-149813218:-|nuORF ENST00000406807.2_1_6:149812705-149813218:-|nuORF ENST00000406807.2_1_6:149812705-149813218:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 719.3649291992188 2 719.361702 1436.70885 NaN NaN NaN NaN NaN NaN NaN 61.906 1 62.637 62.137 63.137 0.73077 0 0 0 1.0057 1 28775 28775 3.2813 0.28607 1 38983 7646 24777 24853 43802 43802 0.007964291433381732 YPDQENNKL 9 Unmodified _YPDQENNKL_ 0 0 0 nc|ENSG00000163430|Q12841-2|FSTL1;ENSG00000163430|ENST00000295633|FSTL1 nc|ENSG00000163430|Q12841-2|FSTL1 nc|ENSG00000163430|Q12841-2|FSTL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.7687377929688 2 560.767103 1119.51965 3.5497 0.0019906 0.9383 0.00052617 4.488 0.0025167 560.7681853045633 21.97 0.54315 21.97 21.659 22.202 0 120 43 4 0 0 0 0.00038954 3 9848 9803;9848;9900 133.05 79.219 1 3935600 38984 4207 24778 24854 43803;43804;43805 43804 -0.03532643149992509 YPDQENNKL 9 Unmodified _YPDQENNKL_ 0 0 0 nc|ENSG00000163430|Q12841-2|FSTL1;ENSG00000163430|ENST00000295633|FSTL1 nc|ENSG00000163430|Q12841-2|FSTL1 nc|ENSG00000163430|Q12841-2|FSTL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.7686767578125 2 560.767103 1119.51965 2.955 0.001657 0.43305 0.00024284 3.388 0.0018999 560.7666631651709 20.926 0.02635 21.332 21.311 21.338 0.40533 6 4 2 0 0 0 0.0023958 1 9288 9288 100.09 39.701 1 2659000 38985 4207 24778 24854 43806 43806 -0.03532643149992509 YPDQENNKL 9 Unmodified _YPDQENNKL_ 0 0 0 nc|ENSG00000163430|Q12841-2|FSTL1;ENSG00000163430|ENST00000295633|FSTL1 nc|ENSG00000163430|Q12841-2|FSTL1 nc|ENSG00000163430|Q12841-2|FSTL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 560.768310546875 2 560.767103 1119.51965 NaN NaN NaN NaN NaN NaN NaN 20.765 1 21.17 20.67 21.67 0.40533 0 0 0 0.00058728 1 9220 9220 100.09 49.236 1 38986 4207 24778 24854 43807 43807 -0.03532643149992509 YPDQENNKL 9 Unmodified _YPDQENNKL_ 0 0 0 nc|ENSG00000163430|Q12841-2|FSTL1;ENSG00000163430|ENST00000295633|FSTL1 nc|ENSG00000163430|Q12841-2|FSTL1 nc|ENSG00000163430|Q12841-2|FSTL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.7692260742188 2 560.767103 1119.51965 NaN NaN NaN NaN NaN NaN NaN 21.165 1 21.452 20.952 21.952 0.28662 0 0 0 2.6645E-06 1 9594 9594 114.19 55.508 1 38987 4207 24778 24854 43808 43808 -0.03532643149992509 YPDQENNKL 9 Unmodified _YPDQENNKL_ 0 0 0 nc|ENSG00000163430|Q12841-2|FSTL1;ENSG00000163430|ENST00000295633|FSTL1 nc|ENSG00000163430|Q12841-2|FSTL1 nc|ENSG00000163430|Q12841-2|FSTL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.7687377929688 2 560.767103 1119.51965 NaN NaN NaN NaN NaN NaN NaN 21.255 1 21.541 21.041 22.041 0.28662 0 0 0 0.00016263 1 9629 9629 103.82 49.05 1 38988 4207 24778 24854 43809 43809 -0.03532643149992509 YPDRALCCDAC 11 Unmodified _YPDRALCCDAC_ 0 0 0 REV__ENSG00000153993|ENST00000284136|SEMA3D REV__ENSG00000153993|ENST00000284136|SEMA3D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 410.49908447265625 3 410.496443 1228.4675 2.7545 0.0011307 0.57862 0.00023752 3.3331 0.0013682 410.49775716590597 44.382 0.28545 44.651 44.515 44.8 0.2694 19 10 3 0 0 0 0.88075 1 20284 20284 5.0475 2.3123 1 508950 + 38989 12692 24779 24855 43810 43810 -0.1375958915125466 YPDRFSEKLRR 11 Unmodified _YPDRFSEKLRR_ 0 0 0 REV__nc|ENSG00000186976|Q5THR3-5|EFCAB6 REV__nc|ENSG00000186976|Q5THR3-5|EFCAB6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 733.896240234375 2 733.896774 1465.779 NaN NaN NaN NaN NaN NaN NaN 66.668 1 67.372 66.872 67.872 0.7047 0 0 0 1.0071 1 31620 31620 1.4819 0 1 + 38990 14080 24780 24856 43811 43811 0.0647372753178388 YPDRIMNTF 9 Unmodified _YPDRIMNTF_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENST00000518096.1_1_8:30209523-30210210:+|nuORF;TUBB2B|p.V169I|1|0.29|ENSG00000137285|chr6:3225584-3225584|C/T|missense_variant;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.7781372070312 2 578.776416 1155.53828 4.0403 0.0023384 -0.8095 -0.00046852 3.2308 0.0018699 578.7759947710646 54.041 0.68968 54.041 53.685 54.375 0 154 50 4 0 0 0 0.0013355 5 24754 24703;24754;24796;24844;24894 117.76 59.082 1 5652300 38991 5660;6301 24781 24857 43812;43813;43814;43815;43816 43813 -0.033268047797946565 YPDRIMNTF 9 Unmodified _YPDRIMNTF_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENST00000518096.1_1_8:30209523-30210210:+|nuORF;TUBB2B|p.V169I|1|0.29|ENSG00000137285|chr6:3225584-3225584|C/T|missense_variant;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.7781982421875 2 578.776416 1155.53828 3.1898 0.0018462 -0.40713 -0.00023564 2.7827 0.0016105 578.776404320441 53.048 0.58894 53.852 53.439 54.028 0.8035 115 44 4 0 0 0 0.0010698 5 24167 24022;24070;24118;24167;24241 125.53 64.172 1 6974600 38992 5660;6301 24781 24857 43817;43818;43819;43820;43821 43820 -0.033268047797946565 YPDRIMNTF 9 Unmodified _YPDRIMNTF_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENST00000518096.1_1_8:30209523-30210210:+|nuORF;TUBB2B|p.V169I|1|0.29|ENSG00000137285|chr6:3225584-3225584|C/T|missense_variant;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.7781372070312 2 578.776416 1155.53828 3.29 0.0019042 0.047595 2.7547E-05 3.3376 0.0019317 578.7766090303372 53.955 0.76819 54.22 53.816 54.584 0.26462 113 34 4 0 0 0 8.7541E-05 6 24612 24556;24612;24666;24721;24776;24824 136.39 75.035 1 5614400 38993 5660;6301 24781 24857 43822;43823;43824;43825;43826;43827 43823 -0.033268047797946565 YPDRIMNTF 9 Unmodified _YPDRIMNTF_ 0 0 0 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENST00000518096.1_1_8:30209523-30210210:+|nuORF;TUBB2B|p.V169I|1|0.29|ENSG00000137285|chr6:3225584-3225584|C/T|missense_variant;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.7782592773438 2 578.776416 1155.53828 3.4872 0.0020183 -0.2213 -0.00012809 3.2659 0.0018903 578.7763757268569 53.424 0.65016 54.089 53.711 54.361 0.6644 105 31 4 0 0 0 0.0011142 4 24398 24350;24398;24458;24511 125.04 72.769 1 6356000 38994 5660;6301 24781 24857 43828;43829;43830;43831 43829 -0.033268047797946565 YPDRIMNTF 9 Oxidation (M) _YPDRIM(Oxidation (M))NTF_ YPDRIM(1)NTF YPDRIM(50)NTF 0 0 1 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENST00000518096.1_1_8:30209523-30210210:+|nuORF;TUBB2B|p.V169I|1|0.29|ENSG00000137285|chr6:3225584-3225584|C/T|missense_variant;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.7763061523438 2 586.773874 1171.53319 3.6533 0.0021436 0.9699 0.00056911 4.6232 0.0027128 586.774282979353 42.154 0.25507 42.424 42.392 42.648 0.27021 25 19 2 0 0 0 0.044531 1 19246 19246 49.527 24.128 1 873420 38995 5660;6301 24781 24858 43832 43832 73 -0.04571108642426225 YPDRIMNTF 9 Oxidation (M) _YPDRIM(Oxidation (M))NTF_ YPDRIM(1)NTF YPDRIM(50)NTF 0 0 1 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENST00000518096.1_1_8:30209523-30210210:+|nuORF;TUBB2B|p.V169I|1|0.29|ENSG00000137285|chr6:3225584-3225584|C/T|missense_variant;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.776123046875 2 586.773874 1171.53319 NaN NaN NaN NaN NaN NaN NaN 41.832 1 42.103 41.603 42.603 0.27021 0 0 0 0.063391 1 19059 19059 49.554 27.808 1 38996 5660;6301 24781 24858 43833 43833 73 -0.04571108642426225 YPDRIMNTF 9 Oxidation (M) _YPDRIM(Oxidation (M))NTF_ YPDRIM(1)NTF YPDRIM(83)NTF 0 0 1 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;ENSG00000188229|ENST00000340384|TUBB4B;ENSG00000196230|ENST00000327892|TUBB;ENSG00000137267|ENST00000333628|TUBB2A;ENSG00000137285|ENST00000259818|TUBB2B;TUBB|p.M233Cfs*14|1|0.3|ENSG00000196230|chr6:30723759-30723766|ATGAGTGG/-|frameshift_variant;ENST00000518096.1_1_8:30209523-30210210:+|nuORF;TUBB2B|p.V169I|1|0.29|ENSG00000137285|chr6:3225584-3225584|C/T|missense_variant;nc|ENSG00000258947|Q13509-2|TUBB3;ENSG00000258947|ENST00000315491|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF;nc|ENSG00000258947|Q13509-2|TUBB3 ENST00000604929.1_1_9:140136931-140138005:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 586.7765502929688 2 586.773874 1171.53319 3.6779 0.0021581 0.040964 2.4037E-05 3.7188 0.0021821 586.7739151929109 41.339 0.42277 41.984 41.749 42.172 0.64451 38 23 2 0 0 0 0.0090098 3 18936 18861;18879;18936 83.429 31.16 1 1341400 38997 5660;6301 24781 24858 43834;43835;43836 43836 73 -0.04571108642426225 YPDSHLPTL 9 Unmodified _YPDSHLPTL_ 0 0 0 nc|ENSG00000120549|Q5T5P2-3|KIAA1217;ENSG00000120549|ENST00000376454|KIAA1217;nc|ENSG00000120549|Q5T5P2-6|KIAA1217;nc|ENSG00000120549|Q5T5P2-10|KIAA1217;nc|ENSG00000120549|Q5T5P2-4|KIAA1217;nc|ENSG00000120549|Q5T5P2-8|KIAA1217;nc|ENSG00000120549|Q5T5P2-9|KIAA1217;nc|ENSG00000120549|Q5T5P2-2|KIAA1217;nc|ENSG00000120549|Q5T5P2-7|KIAA1217 nc|ENSG00000120549|Q5T5P2-3|KIAA1217 nc|ENSG00000120549|Q5T5P2-3|KIAA1217 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.766357421875 2 521.763832 1041.51311 3.4437 0.0017968 -0.71262 -0.00037182 2.7311 0.001425 521.7638200405248 52.787 0.76033 53.05 52.589 53.35 0.26345 49 38 2 0 0 0 0.023109 3 24097 24097;24152;24201 64.236 39.562 1 964970 38998 2196 24782 24859 43837;43838;43839 43837 -0.00598536310712916 YPDSHLPTL 9 Unmodified _YPDSHLPTL_ 0 0 0 nc|ENSG00000120549|Q5T5P2-3|KIAA1217;ENSG00000120549|ENST00000376454|KIAA1217;nc|ENSG00000120549|Q5T5P2-6|KIAA1217;nc|ENSG00000120549|Q5T5P2-10|KIAA1217;nc|ENSG00000120549|Q5T5P2-4|KIAA1217;nc|ENSG00000120549|Q5T5P2-8|KIAA1217;nc|ENSG00000120549|Q5T5P2-9|KIAA1217;nc|ENSG00000120549|Q5T5P2-2|KIAA1217;nc|ENSG00000120549|Q5T5P2-7|KIAA1217 nc|ENSG00000120549|Q5T5P2-3|KIAA1217 nc|ENSG00000120549|Q5T5P2-3|KIAA1217 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 521.7659912109375 2 521.763832 1041.51311 3.1723 0.0016552 0.082341 4.2963E-05 3.2546 0.0016981 521.7642094444586 52.432 0.6319 53.094 52.66 53.292 0.66198 45 26 2 0 0 0 0.017868 2 23949 23949;24022 71.134 40.909 1 683190 38999 2196 24782 24859 43840;43841 43840 -0.00598536310712916 YPDSPSACL 9 Carbamidomethyl (C) _YPDSPSAC(Carbamidomethyl (C))L_ YPDSPSAC(1)L YPDSPSAC(48)L 0 1 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.2192077636719 2 505.2184 1008.42225 3.0031 0.0015172 -0.63771 -0.00032218 2.3654 0.0011951 505.2180407580439 45.062 0.43023 45.062 44.858 45.288 0 59 23 3 0 0 0 0.047285 2 20615 20615;20674 48.346 16.04 1 2218400 39000 829 24783 24860 43842;43843 43842 13 -0.0816274835050308 YPDSPSACL 9 Carbamidomethyl (C) _YPDSPSAC(Carbamidomethyl (C))L_ YPDSPSAC(1)L YPDSPSAC(64)L 0 1 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.2195739746094 2 505.2184 1008.42225 2.9867 0.0015089 -0.7853 -0.00039675 2.2014 0.0011122 505.21815255291506 44.07 0.51861 44.89 44.674 45.192 0.82075 70 32 3 0 0 0 0.023109 2 20061 20061;20111 64.236 15.89 1 2419600 39001 829 24783 24860 43844;43845 43844 13 -0.0816274835050308 YPDSPSACL 9 Carbamidomethyl (C) _YPDSPSAC(Carbamidomethyl (C))L_ YPDSPSAC(1)L YPDSPSAC(67)L 0 1 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.22021484375 2 505.2184 1008.42225 3.0822 0.0015572 -0.60861 -0.00030748 2.4735 0.0012497 505.2182925421614 45.076 0.48837 45.343 45.052 45.541 0.26768 58 24 3 0 0 0 0.020718 1 20624 20624 67.344 16.489 1 1425800 39002 829 24783 24860 43846 43846 13 -0.0816274835050308 YPDSPSACL 9 Carbamidomethyl (C) _YPDSPSAC(Carbamidomethyl (C))L_ YPDSPSAC(1)L YPDSPSAC(85)L 0 1 0 ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B ENSG00000075420|ENST00000415807|FNDC3B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.2199401855469 2 505.2184 1008.42225 3.4176 0.0017266 -0.5874 -0.00029677 2.8302 0.0014298 505.2182374710218 44.448 0.47744 45.098 44.894 45.371 0.64998 45 19 3 0 0 0 0.0080831 2 20418 20366;20418 85.357 37.011 1 1040600 39003 829 24783 24860 43847;43848 43848 13 -0.0816274835050308 YPDTDVIL 8 Unmodified _YPDTDVIL_ 0 0 0 ENSG00000155366|ENST00000339083|RHOC;ENSG00000067560|ENST00000418115|RHOA;ENSG00000143878|ENST00000272233|RHOB ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 935.4750366210938 1 935.47204 934.464763 3.992 0.0037344 0.34939 0.00032684 4.3414 0.0040613 935.4723869365585 67.281 0.61362 67.531 67.224 67.837 0.2501 61 37 2 0 0 0 0.077224 4 30792 30732;30792;30841;30887 56.541 28.054 1 600300 39004 3862 24784 24861 43849;43850;43851;43852 43850 -0.005090299506036899 YPDTDVIL 8 Unmodified _YPDTDVIL_ 0 0 0 ENSG00000155366|ENST00000339083|RHOC;ENSG00000067560|ENST00000418115|RHOA;ENSG00000143878|ENST00000272233|RHOB ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.2406311035156 2 468.239658 934.464763 3.0166 0.0014125 0.26171 0.00012255 3.2783 0.001535 468.2396742240719 67.189 0.59103 67.439 67.185 67.776 0.25011 49 36 2 0 0 0 0.31786 1 30818 30818 34.187 0 1 546630 39005 3862 24784 24861 43853 43853 -0.005090299506036899 YPDTDVIL 8 Unmodified _YPDTDVIL_ 0 0 0 ENSG00000155366|ENST00000339083|RHOC;ENSG00000067560|ENST00000418115|RHOA;ENSG00000143878|ENST00000272233|RHOB ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 935.4750366210938 1 935.47204 934.464763 3.8827 0.0036321 0.14962 0.00013996 4.0323 0.0037721 935.4722515051802 66.602 0.69492 67.259 67.025 67.72 0.65672 64 40 2 0 0 0 0.045989 5 30538 30450;30492;30538;30586;30639 67.035 22.628 1 877820 39006 3862 24784 24861 43854;43855;43856;43857;43858 43856 -0.005090299506036899 YPDTDVIL 8 Unmodified _YPDTDVIL_ 0 0 0 ENSG00000155366|ENST00000339083|RHOC;ENSG00000067560|ENST00000418115|RHOA;ENSG00000143878|ENST00000272233|RHOB ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 468.239658 934.464763 2.1386 0.0010014 1.1108 0.00052013 3.2494 0.0015215 468.2399878876758 66.688 0.20141 67.392 67.309 67.511 0.7047 0.03389 0.00074877 NaN 34.187 32 22 2 NaN NaN NaN NaN 0 NaN NaN 0 1184500 39007 3862 24784 24861 -0.005090299506036899 YPDTDVIL 8 Unmodified _YPDTDVIL_ 0 0 0 ENSG00000155366|ENST00000339083|RHOC;ENSG00000067560|ENST00000418115|RHOA;ENSG00000143878|ENST00000272233|RHOB ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 468.239658 934.464763 2.9158 0.0013653 0.15857 7.4248E-05 3.0744 0.0014395 468.2397163667149 66.587 0.55891 67.244 67.04 67.599 0.65672 -0.11427 -0.000143 NaN 34.187 44 31 2 NaN NaN NaN NaN 0 NaN NaN 0 474280 39008 3862 24784 24861 -0.005090299506036899 YPDTDVILM 9 Unmodified _YPDTDVILM_ 0 0 0 ENSG00000155366|ENST00000339083|RHOC;ENSG00000067560|ENST00000418115|RHOA;ENSG00000143878|ENST00000272233|RHOB ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1066.5166015625 1 1066.51252 1065.50525 2.7119 0.0028923 0.035729 3.8106E-05 2.7477 0.0029304 1066.512857860855 76.385 0.68659 76.385 76.053 76.74 0 90 51 2 0 0 0 0.012869 7 37396 37343;37396;37451;37507;37556;37598;37611 77.984 51.101 1 3826000 39009 3862 24785 24862 43859;43860;43861;43862;43863;43864;43865 43860 -0.02488431622509779 YPDTDVILM 9 Unmodified _YPDTDVILM_ 0 0 0 ENSG00000155366|ENST00000339083|RHOC;ENSG00000067560|ENST00000418115|RHOA;ENSG00000143878|ENST00000272233|RHOB ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.76171875 2 533.759901 1065.50525 2.5 0.0013344 0.77042 0.00041122 3.2704 0.0017456 533.7601585755907 76.401 0.78381 76.401 76.005 76.789 0 149 57 3 0 0 0 0.062556 1 37429 37429 42.095 7.9921 1 9160000 39010 3862 24785 24862 43866 43866 -0.02488431622509779 YPDTDVILM 9 Unmodified _YPDTDVILM_ 0 0 0 ENSG00000155366|ENST00000339083|RHOC;ENSG00000067560|ENST00000418115|RHOA;ENSG00000143878|ENST00000272233|RHOB ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1066.515869140625 1 1066.51252 1065.50525 3.0138 0.0032143 -0.53924 -0.0005751 2.4746 0.0026392 1066.5116878130095 75.535 0.59104 76.199 75.916 76.507 0.66349 80 45 2 0 0 0 0.012869 5 36532 36472;36532;36579;36625;36682 77.984 43.882 1 2775900 39011 3862 24785 24862 43867;43868;43869;43870;43871 43868 -0.02488431622509779 YPDTDVILM 9 Unmodified _YPDTDVILM_ 0 0 0 ENSG00000155366|ENST00000339083|RHOC;ENSG00000067560|ENST00000418115|RHOA;ENSG00000143878|ENST00000272233|RHOB ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.7611083984375 2 533.759901 1065.50525 2.5737 0.0013737 -0.17558 -9.3717E-05 2.3981 0.00128 533.7598104482056 75.483 0.73538 76.146 75.867 76.602 0.6635 180 57 4 0 0 0 0.028312 3 36617 36617;36669;36763 57.471 30.588 1 8371600 39012 3862 24785 24862 43872;43873;43874 43872 -0.02488431622509779 YPDTDVILM 9 Unmodified _YPDTDVILM_ 0 0 0 ENSG00000155366|ENST00000339083|RHOC;ENSG00000067560|ENST00000418115|RHOA;ENSG00000143878|ENST00000272233|RHOB ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1066.514892578125 1 1066.51252 1065.50525 3.0226 0.0032236 0.13806 0.00014725 3.1606 0.0033708 1066.512904788072 76.021 0.61233 76.278 75.984 76.596 0.25705 104 45 3 0 0 0 0.012869 5 34983 34886;34936;34983;35026;35073 77.984 51.101 1 1598700 39013 3862 24785 24862 43875;43876;43877;43878;43879 43877 -0.02488431622509779 YPDTDVILM 9 Unmodified _YPDTDVILM_ 0 0 0 ENSG00000155366|ENST00000339083|RHOC;ENSG00000067560|ENST00000418115|RHOA;ENSG00000143878|ENST00000272233|RHOB ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1066.5125732421875 1 1066.51252 1065.50525 3.0547 0.0032579 -0.12413 -0.00013238 2.9306 0.0031255 1066.5123998461227 75.472 0.6326 76.136 75.884 76.516 0.6644 118 55 3 0 0 0 0.018173 6 34723 34675;34723;34769;34817;34863;34905 70.716 42.229 1 1913700 39014 3862 24785 24862 43880;43881;43882;43883;43884;43885 43881 -0.02488431622509779 YPDTDVILM 9 Unmodified _YPDTDVILM_ 0 0 0 ENSG00000155366|ENST00000339083|RHOC;ENSG00000067560|ENST00000418115|RHOA;ENSG00000143878|ENST00000272233|RHOB ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 533.759901 1065.50525 2.8097 0.0014997 0.46374 0.00024753 3.2734 0.0017472 533.7601982213587 76.005 0.7477 76.262 75.928 76.676 0.25704 0.027795 0.00020093 NaN 57.471 150 55 4 NaN NaN NaN NaN 0 NaN NaN 0 4342300 39015 3862 24785 24862 -0.02488431622509779 YPDTDVILM 9 Unmodified _YPDTDVILM_ 0 0 0 ENSG00000155366|ENST00000339083|RHOC;ENSG00000067560|ENST00000418115|RHOA;ENSG00000143878|ENST00000272233|RHOB ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 533.759901 1065.50525 2.8347 0.001513 0.060922 3.2518E-05 2.8956 0.0015455 533.7601046543742 75.463 0.67369 76.128 75.843 76.516 0.6644 -0.10642 -0.00022909 NaN 57.471 174 58 4 NaN NaN NaN NaN 0 NaN NaN 0 4237800 39016 3862 24785 24862 -0.02488431622509779 YPDTDVILM 9 Oxidation (M) _YPDTDVILM(Oxidation (M))_ YPDTDVILM(1) YPDTDVILM(100) 0 0 1 ENSG00000155366|ENST00000339083|RHOC;ENSG00000067560|ENST00000418115|RHOA;ENSG00000143878|ENST00000272233|RHOB ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 541.7591552734375 2 541.757358 1081.50016 2.7785 0.0015053 -0.13811 -7.4821E-05 2.6404 0.0014305 541.7573953574607 59.529 0.5186 60.278 60.003 60.522 0.74927 110 37 4 0 0 0 0.0022375 3 27338 27287;27338;27386 101.72 101.72 1 3469500 39017 3862 24785 24863 43886;43887;43888 43887 56 -0.0373273548511861 YPDTDVILM 9 Oxidation (M) _YPDTDVILM(Oxidation (M))_ YPDTDVILM(1) YPDTDVILM(100) 0 0 1 ENSG00000155366|ENST00000339083|RHOC;ENSG00000067560|ENST00000418115|RHOA;ENSG00000143878|ENST00000272233|RHOB ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.75927734375 2 541.757358 1081.50016 3.3484 0.001814 0.058857 3.1886E-05 3.4072 0.0018459 541.757505283615 59.953 0.51847 60.213 59.988 60.507 0.2593 79 26 4 0 0 0 0.0022375 4 27444 27387;27444;27502;27559 101.72 74.838 1 2475500 39018 3862 24785 24863 43889;43890;43891;43892 43890 56 -0.0373273548511861 YPDTDVILM 9 Oxidation (M) _YPDTDVILM(Oxidation (M))_ YPDTDVILM(1) YPDTDVILM(110) 0 0 1 ENSG00000155366|ENST00000339083|RHOC;ENSG00000067560|ENST00000418115|RHOA;ENSG00000143878|ENST00000272233|RHOB ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 541.7590942382812 2 541.757358 1081.50016 3.4148 0.00185 -0.14475 -7.8422E-05 3.2701 0.0017716 541.7573184600641 59.391 0.58046 60.056 59.837 60.418 0.66503 60 25 3 0 0 0 0.0013731 4 27198 27143;27198;27247;27293 114.94 86.457 1 2925400 39019 3862 24785 24863 43893;43894;43895;43896 43894 56 -0.0373273548511861 YPDTDVILM 9 Oxidation (M) _YPDTDVILM(Oxidation (M))_ YPDTDVILM(1) YPDTDVILM(78) 0 0 1 ENSG00000155366|ENST00000339083|RHOC;ENSG00000067560|ENST00000418115|RHOA;ENSG00000143878|ENST00000272233|RHOB ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1082.5101318359375 1 1082.50744 1081.50016 3.4146 0.0036963 0.45653 0.0004942 3.8711 0.0041905 1082.5082182284145 59.473 0.33169 60.138 59.993 60.325 0.66503 18 14 2 0 0 0 0.012869 1 27199 27199 77.984 39.833 1 604880 39020 3862 24785 24863 43897 43897 56 -0.0373273548511861 YPDTDVILM 9 Oxidation (M) _YPDTDVILM(Oxidation (M))_ 0 0 1 ENSG00000155366|ENST00000339083|RHOC;ENSG00000067560|ENST00000418115|RHOA;ENSG00000143878|ENST00000272233|RHOB ENSG00000155366|ENST00000339083|RHOC ENSG00000155366|ENST00000339083|RHOC MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1 1082.50744 1081.50016 3.2235 0.0034895 1.18 0.0012774 4.4035 0.0047668 1082.5086883109245 59.983 0.27298 60.243 60.045 60.318 0.2593 0.052399 0.00036404 NaN 77.984 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 397860 39021 3862 24785 24863 56 -0.0373273548511861 YPDVASPTL 9 Unmodified _YPDVASPTL_ 0 0 0 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-4|NAV2;ENSG00000166833|ENST00000349880|NAV2;nc|ENSG00000166833|Q8IVL1-5|NAV2;nc|ENSG00000166833|Q8IVL1-8|NAV2;nc|ENSG00000166833|Q8IVL1-9|NAV2;nc|ENSG00000166833|Q8IVL1-10|NAV2;nc|ENSG00000166833|Q8IVL1-13|NAV2;nc|ENSG00000166833|Q8IVL1-12|NAV2;nc|ENSG00000166833|Q8IVL1-11|NAV2;nc|ENSG00000166833|Q8IVL1-2|NAV2;nc|ENSG00000166833|Q8IVL1|NAV2 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-8|NAV2 nc|ENSG00000166833|Q8IVL1-8|NAV2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 481.746337890625 2 481.745108 961.475663 2.8428 0.0013695 0.41949 0.00020209 3.2623 0.0015716 481.7452135138065 56.463 0.21624 57.241 57.108 57.324 0.77786 26 22 2 0 0 0 0.015468 2 25812 25812;25851 74.423 26.077 1 605160 39022 9530;9735 24786 24864 43898;43899 43898 -0.006616275763121848 YPDVASPTL 9 Unmodified _YPDVASPTL_ 0 0 0 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-4|NAV2;ENSG00000166833|ENST00000349880|NAV2;nc|ENSG00000166833|Q8IVL1-5|NAV2;nc|ENSG00000166833|Q8IVL1-8|NAV2;nc|ENSG00000166833|Q8IVL1-9|NAV2;nc|ENSG00000166833|Q8IVL1-10|NAV2;nc|ENSG00000166833|Q8IVL1-13|NAV2;nc|ENSG00000166833|Q8IVL1-12|NAV2;nc|ENSG00000166833|Q8IVL1-11|NAV2;nc|ENSG00000166833|Q8IVL1-2|NAV2;nc|ENSG00000166833|Q8IVL1|NAV2 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-8|NAV2 nc|ENSG00000166833|Q8IVL1-8|NAV2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 481.74639892578125 2 481.745108 961.475663 NaN NaN NaN NaN NaN NaN NaN 57.01 1 57.274 56.774 57.774 0.26444 0 0 0 0.019349 1 26087 26087 74.423 14.033 1 39023 9530;9735 24786 24864 43900 43900 -0.006616275763121848 YPDVASPTL 9 Unmodified _YPDVASPTL_ 0 0 0 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-4|NAV2;ENSG00000166833|ENST00000349880|NAV2;nc|ENSG00000166833|Q8IVL1-5|NAV2;nc|ENSG00000166833|Q8IVL1-8|NAV2;nc|ENSG00000166833|Q8IVL1-9|NAV2;nc|ENSG00000166833|Q8IVL1-10|NAV2;nc|ENSG00000166833|Q8IVL1-13|NAV2;nc|ENSG00000166833|Q8IVL1-12|NAV2;nc|ENSG00000166833|Q8IVL1-11|NAV2;nc|ENSG00000166833|Q8IVL1-2|NAV2;nc|ENSG00000166833|Q8IVL1|NAV2 NAV2|p.K1850Rfs*16|1|0.05|ENSG00000166833|chr11:20083052-20083053|-/GAGCTCTTTTG|frameshift_variant;nc|ENSG00000166833|Q8IVL1-8|NAV2 nc|ENSG00000166833|Q8IVL1-8|NAV2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 481.74688720703125 2 481.745108 961.475663 NaN NaN NaN NaN NaN NaN NaN 56.478 1 57.146 56.646 57.646 0.66829 0 0 0 0.07684 1 25838 25838 46.021 6.0636 1 39024 9530;9735 24786 24864 43901 43901 -0.006616275763121848 YPEDVSEEL 9 Unmodified _YPEDVSEEL_ 0 0 0 ENSG00000147065|ENST00000360270|MSN ENSG00000147065|ENST00000360270|MSN ENSG00000147065|ENST00000360270|MSN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 540.7417602539062 2 540.740219 1079.46589 NaN NaN NaN NaN NaN NaN NaN 51.587 1 51.849 51.349 52.349 0.26227 0 0 0 0.059045 1 23575 23575 50.855 22.368 1 39025 3543 24787 24865 43902 43902 -0.07066860372378869 YPEEVSSMVL 10 Unmodified _YPEEVSSMVL_ 0 0 0 ENST00000527983.5_1_11:122930124-122932032:-|nuORF;nc|ENSG00000109971|P11142-2|HSPA8;ENSG00000109971|ENST00000534624|HSPA8;HSPA8|p.V139Gfs*50|1|0.11|ENSG00000109971|chr11:123060264-123060265|-/CAGTCTAC|frameshift_variant;ENST00000532780.5_1_11:122930757-122933127:-|nuORF ENST00000527983.5_1_11:122930124-122932032:-|nuORF ENST00000527983.5_1_11:122930124-122932032:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 577.2757568359375 2 577.275915 1152.53728 3.3206 0.0019169 0.16517 9.5349E-05 3.4858 0.0020122 577.2759066485569 69.971 0.21941 70.228 70.149 70.368 0.25642 17 13 2 0 0 0 0.38486 2 32054 32054;32082 25.399 9.5521 1 509390 39026 1694 24788 24866 43903;43904 43903 -0.032890639393599486 YPEEVSSMVL 10 Unmodified _YPEEVSSMVL_ 0 0 0 ENST00000527983.5_1_11:122930124-122932032:-|nuORF;nc|ENSG00000109971|P11142-2|HSPA8;ENSG00000109971|ENST00000534624|HSPA8;HSPA8|p.V139Gfs*50|1|0.11|ENSG00000109971|chr11:123060264-123060265|-/CAGTCTAC|frameshift_variant;ENST00000532780.5_1_11:122930757-122933127:-|nuORF ENST00000527983.5_1_11:122930124-122932032:-|nuORF ENST00000527983.5_1_11:122930124-122932032:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 577.275915 1152.53728 3.3879 0.0019557 -0.01545 -8.9191E-06 3.3724 0.0019468 577.2751776058593 69.474 0.17964 70.135 70.015 70.195 0.66071 -0.046349 -0.00010826 NaN 25.399 17 12 2 NaN NaN NaN NaN 0 NaN NaN 0 414440 39027 1694 24788 24866 -0.032890639393599486 YPEFDNDH 8 Unmodified _YPEFDNDH_ 0 0 0 REV__ENSG00000149658|ENST00000370339|YTHDF1 REV__ENSG00000149658|ENST00000370339|YTHDF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 518.702392578125 2 518.703971 1035.39339 NaN NaN NaN NaN NaN NaN NaN 57.361 1 58.13 57.63 58.63 0.76861 0 0 0 0.99035 1 26259 26259 5.7604 0.52976 1 + 39028 12579 24789 24867 43905 43905 -0.1228914965529384 YPEGFEIHSM 10 Unmodified _YPEGFEIHSM_ 0 0 0 ENSG00000068366|ENST00000672401|ACSL4;nc|ENSG00000068366|O60488|ACSL4 ENSG00000068366|ENST00000672401|ACSL4 ENSG00000068366|ENST00000672401|ACSL4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 605.26806640625 2 605.265881 1208.51721 3.6523 0.0022106 0.078756 4.7668E-05 3.7311 0.0022583 605.26595181409 54.731 0.60386 54.731 54.575 55.179 0 116 62 2 0 0 0 1.0067999999999999E-38 5 25142 25061;25096;25142;25191;25259 198.25 152.23 1 2383700 39029 733 24790 24868 43906;43907;43908;43909;43910 43908 -0.07870814879311183 YPEGFEIHSM 10 Unmodified _YPEGFEIHSM_ 0 0 0 ENSG00000068366|ENST00000672401|ACSL4;nc|ENSG00000068366|O60488|ACSL4 ENSG00000068366|ENST00000672401|ACSL4 ENSG00000068366|ENST00000672401|ACSL4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 605.26708984375 2 605.265881 1208.51721 3.1926 0.0019324 -0.54158 -0.0003278 2.651 0.0016046 605.2656761352856 53.59 0.78352 54.394 54.179 54.963 0.8035 80 51 3 0 0 0 1.8567E-20 4 24484 24379;24431;24484;24542 174.73 136.55 1 5586400 39030 733 24790 24868 43911;43912;43913;43914 43913 -0.07870814879311183 YPEGFEIHSM 10 Unmodified _YPEGFEIHSM_ 0 0 0 ENSG00000068366|ENST00000672401|ACSL4;nc|ENSG00000068366|O60488|ACSL4 ENSG00000068366|ENST00000672401|ACSL4 ENSG00000068366|ENST00000672401|ACSL4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 605.2686157226562 2 605.265881 1208.51721 3.355 0.0020307 0.27986 0.00016939 3.6349 0.0022001 605.265907727353 54.73 0.64571 54.996 54.637 55.283 0.26543 82 49 2 0 0 0 1.0067999999999999E-38 5 25099 24901;24962;25004;25046;25099 198.25 147.94 1 3296600 39031 733 24790 24868 43915;43916;43917;43918;43919 43919 -0.07870814879311183 YPEGFEIHSM 10 Unmodified _YPEGFEIHSM_ 0 0 0 ENSG00000068366|ENST00000672401|ACSL4;nc|ENSG00000068366|O60488|ACSL4 ENSG00000068366|ENST00000672401|ACSL4 ENSG00000068366|ENST00000672401|ACSL4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 605.2679443359375 2 605.265881 1208.51721 3.6263 0.0021949 -0.14295 -8.6525E-05 3.4833 0.0021083 605.2658702825178 53.941 0.51399 54.608 54.56 55.074 0.6665 83 38 3 0 0 0 6.1268E-20 4 24710 24657;24710;24755;24813 168.66 130.68 1 5401100 39032 733 24790 24868 43920;43921;43922;43923 43921 -0.07870814879311183 YPEGFEIHSM 10 Oxidation (M) _YPEGFEIHSM(Oxidation (M))_ YPEGFEIHSM(1) YPEGFEIHSM(85) 0 0 1 ENSG00000068366|ENST00000672401|ACSL4;nc|ENSG00000068366|O60488|ACSL4 ENSG00000068366|ENST00000672401|ACSL4 ENSG00000068366|ENST00000672401|ACSL4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.2665405273438 2 613.263339 1224.51212 3.4857 0.0021376 0.1528 9.3705E-05 3.6385 0.0022313 613.2634347944955 43.412 0.39557 43.682 43.588 43.984 0.27021 31 15 3 0 0 0 0.016003 3 19825 19825;19881;19951 85.272 62.536 1 498450 39033 733 24790 24869 43924;43925;43926 43924 5 -0.09115118741942752 YPEGFEIHSM 10 Oxidation (M) _YPEGFEIHSM(Oxidation (M))_ YPEGFEIHSM(1) YPEGFEIHSM(56) 0 0 1 ENSG00000068366|ENST00000672401|ACSL4;nc|ENSG00000068366|O60488|ACSL4 ENSG00000068366|ENST00000672401|ACSL4 ENSG00000068366|ENST00000672401|ACSL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 613.2646484375 2 613.263339 1224.51212 NaN NaN NaN NaN NaN NaN NaN 42.998 1 43.647 43.147 44.147 0.64872 0 0 0 0.087978 1 19703 19703 56.177 35.723 1 39034 733 24790 24869 43927 43927 5 -0.09115118741942752 YPEHISNIISL 11 Unmodified _YPEHISNIISL_ 0 0 0 ENSG00000124201|ENST00000396105|ZNFX1;ZNFX1|p.S1823Wfs*15|1|0.26|ENSG00000124201|chr20:49247550-49247556|AGGCCAG/-|frameshift_variant;nc|ENSG00000124201|Q9P2E3-2|ZNFX1 ENSG00000124201|ENST00000396105|ZNFX1 ENSG00000124201|ENST00000396105|ZNFX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 643.3453979492188 2 643.342978 1284.6714 3.9979 0.002572 -0.061693 -3.969E-05 3.9362 0.0025323 643.3427523326578 67.469 0.3795 67.719 67.515 67.894 0.25011 63 20 4 0 0 0 3.2469E-15 3 30896 30849;30896;30950 133.05 50.523 1 1850600 39035 2346 24791 24870 43928;43929;43930 43929 0.04045337877732891 YPEHISNIISL 11 Unmodified _YPEHISNIISL_ 0 0 0 ENSG00000124201|ENST00000396105|ZNFX1;ZNFX1|p.S1823Wfs*15|1|0.26|ENSG00000124201|chr20:49247550-49247556|AGGCCAG/-|frameshift_variant;nc|ENSG00000124201|Q9P2E3-2|ZNFX1 ENSG00000124201|ENST00000396105|ZNFX1 ENSG00000124201|ENST00000396105|ZNFX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 643.3456420898438 2 643.342978 1284.6714 3.9463 0.0025388 -0.11405 -7.3373E-05 3.8323 0.0024655 643.3428872281652 66.8 0.44614 67.457 67.29 67.736 0.65672 67 26 3 0 0 0 2.7585E-10 3 30650 30597;30650;30693 121.53 61.46 1 1896600 39036 2346 24791 24870 43931;43932;43933 43932 0.04045337877732891 YPENGVVQM 9 Unmodified _YPENGVVQM_ 0 0 0 nc|ENSG00000276043|Q96T88-2|UHRF1;ENSG00000276043|ENST00000650932|UHRF1 nc|ENSG00000276043|Q96T88-2|UHRF1 nc|ENSG00000276043|Q96T88-2|UHRF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 518.7446899414062 2 518.742042 1035.46953 3.2739 0.0016983 0.59888 0.00031066 3.8728 0.002009 518.742555492227 48.442 0.44033 48.442 48.248 48.689 0 39 29 2 0 0 0 0.078225 2 22220 22124;22220 38.176 4.0731 1 789850 39037 6349 24792 24871 43934;43935 43935 -0.04678469079499337 YPENGVVQM 9 Unmodified _YPENGVVQM_ 0 0 0 nc|ENSG00000276043|Q96T88-2|UHRF1;ENSG00000276043|ENST00000650932|UHRF1 nc|ENSG00000276043|Q96T88-2|UHRF1 nc|ENSG00000276043|Q96T88-2|UHRF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 518.7423095703125 2 518.742042 1035.46953 3.578 0.0018561 -0.19672 -0.00010205 3.3813 0.001754 518.7419585055912 48.384 0.57618 48.646 48.403 48.979 0.2621 42 31 2 0 0 0 0.048676 3 22156 22073;22156;22226 47.749 13.646 1 799020 39038 6349 24792 24871 43936;43937;43938 43937 -0.04678469079499337 YPENGVVQM 9 Unmodified _YPENGVVQM_ 0 0 0 nc|ENSG00000276043|Q96T88-2|UHRF1;ENSG00000276043|ENST00000650932|UHRF1 nc|ENSG00000276043|Q96T88-2|UHRF1 nc|ENSG00000276043|Q96T88-2|UHRF1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 518.742042 1035.46953 3.3152 0.0017197 -0.60907 -0.00031595 2.7061 0.0014038 518.7417837681995 47.475 0.52318 48.304 48.096 48.619 0.82915 -0.17092 -0.00064514 NaN 47.749 47 29 2 NaN NaN NaN NaN 0 NaN NaN 0 508280 39039 6349 24792 24871 -0.04678469079499337 YPENGVVQM 9 Unmodified _YPENGVVQM_ 0 0 0 nc|ENSG00000276043|Q96T88-2|UHRF1;ENSG00000276043|ENST00000650932|UHRF1 nc|ENSG00000276043|Q96T88-2|UHRF1 nc|ENSG00000276043|Q96T88-2|UHRF1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 518.742042 1035.46953 3.4582 0.0017939 0.042747 2.2175E-05 3.5009 0.0018161 518.7421180198413 47.855 0.76879 48.508 48.242 49.011 0.65356 0.033276 3.1108E-05 NaN 47.749 47 31 2 NaN NaN NaN NaN 0 NaN NaN 0 488820 39040 6349 24792 24871 -0.04678469079499337 YPEQEIVNL 9 Unmodified _YPEQEIVNL_ 0 0 0 nc|ENSG00000073792|Q9Y6M1-6|IGF2BP2;nc|ENSG00000073792|Q9Y6M1-1|IGF2BP2;ENSG00000073792|ENST00000382199|IGF2BP2;ENST00000550858.1_1_12:42681476-42682067:+|nuORF;nc|ENSG00000073792|Q9Y6M1-5|IGF2BP2;nc|ENSG00000073792|Q9Y6M1-3|IGF2BP2;nc|ENSG00000073792|Q9Y6M1-4|IGF2BP2 nc|ENSG00000073792|Q9Y6M1-6|IGF2BP2 nc|ENSG00000073792|Q9Y6M1-6|IGF2BP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 552.78466796875 2 552.782222 1103.54989 3.6211 0.0020017 0.41444 0.0002291 4.0355 0.0022308 552.7824764404473 65.142 0.3216 65.39 65.184 65.506 0.24802 31 14 3 0 0 0 0.02631 3 29796 29796;29809;29863 60.074 34.675 1 1143600 39041 813 24793 24872 43939;43940;43941 43939 0.0022571551519376953 YPEQEIVNL 9 Unmodified _YPEQEIVNL_ 0 0 0 nc|ENSG00000073792|Q9Y6M1-6|IGF2BP2;nc|ENSG00000073792|Q9Y6M1-1|IGF2BP2;ENSG00000073792|ENST00000382199|IGF2BP2;ENST00000550858.1_1_12:42681476-42682067:+|nuORF;nc|ENSG00000073792|Q9Y6M1-5|IGF2BP2;nc|ENSG00000073792|Q9Y6M1-3|IGF2BP2;nc|ENSG00000073792|Q9Y6M1-4|IGF2BP2 nc|ENSG00000073792|Q9Y6M1-6|IGF2BP2 nc|ENSG00000073792|Q9Y6M1-6|IGF2BP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.7852783203125 2 552.782222 1103.54989 3.6065 0.0019936 0.25228 0.00013946 3.8588 0.0021331 552.7821427173674 64.536 0.28905 65.193 65.056 65.345 0.65672 20 11 2 0 0 0 0.0079462 1 29581 29581 85.642 41.783 1 1072600 39042 813 24793 24872 43942 43942 0.0022571551519376953 YPESESIMM 9 2 Oxidation (M) _YPESESIM(Oxidation (M))M(Oxidation (M))_ YPESESIM(1)M(1) YPESESIM(47)M(47) 0 0 2 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.7249755859375 2 559.722658 1117.43076 3.6827 0.0020613 0.12893 7.2166E-05 3.8116 0.0021335 559.7226426167132 29.386 0.48554 29.645 29.41 29.896 0.25811 52 31 2 0 0 0 0.050606 2 13403 13348;13403 46.921 38.328 1 366540 39043 4154 24794 24873 43943;43944 43944 60;61 -0.12325562496152997 YPESESIMM 9 2 Oxidation (M) _YPESESIM(Oxidation (M))M(Oxidation (M))_ YPESESIM(1)M(1) YPESESIM(44)M(44) 0 0 2 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.724609375 2 559.722658 1117.43076 3.524 0.0019725 0.12081 6.762E-05 3.6448 0.0020401 559.722640743796 29.104 0.40087 29.722 29.579 29.98 0.61789 38 28 2 0 0 0 0.056465 2 13377 13377;13430 44.407 35.814 1 460620 39044 4154 24794 24873 43945;43946 43945 60;61 -0.12325562496152997 YPESESIMM 9 Oxidation (M) _YPESESIM(Oxidation (M))M_ YPESESIM(0.851)M(0.149) YPESESIM(7.6)M(-7.6) 0 0 1 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 551.727783203125 2 551.7252 1101.43585 3.7085 0.0020461 -0.62472 -0.00034467 3.0838 0.0017014 551.7247769952014 48.431 0.74001 48.693 48.403 49.143 0.26209 59 38 2 0 0 0 0.0061269 4 22235 22087;22154;22235;22291 89.427 76.895 2 1052100 39045 4154 24794 24874 43947;43948;43949;43950 43949 60;61 -0.11081258633566904 YPESESIMM 9 Oxidation (M) _YPESESIM(Oxidation (M))M_ YPESESIM(0.5)M(0.5) YPESESIM(0)M(0) 0 0 1 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 551.7269897460938 2 551.7252 1101.43585 3.6098 0.0019916 -0.17824 -9.834E-05 3.4316 0.0018933 551.7250549866133 48.037 0.74982 48.691 48.356 49.106 0.65356 68 30 3 0 0 0 0.018173 3 22025 21905;21968;22025 70.716 62.122 2 609650 39046 4154 24794 24874 43951;43952;43953 43953 60;61 -0.11081258633566904 YPESESIMM 9 Unmodified _YPESESIMM_ 0 0 0 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.7295532226562 2 543.727743 1085.44093 NaN NaN NaN NaN NaN NaN NaN 57.171 1 57.435 56.935 57.935 0.26444 0 0 0 0.027384 1 26166 26166 60.39 38.643 1 39047 4154 24794 24875 43954 43954 -0.09836954770935336 YPESESIMM 9 Unmodified _YPESESIMM_ 0 0 0 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.7296142578125 2 543.727743 1085.44093 NaN NaN NaN NaN NaN NaN NaN 57.265 1 57.529 57.029 58.029 0.26444 0 0 0 0.016111 1 26211 26211 77.984 52.585 1 39048 4154 24794 24875 43955 43955 -0.09836954770935336 YPESESIMM 9 Unmodified _YPESESIMM_ 0 0 0 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.7289428710938 2 543.727743 1085.44093 NaN NaN NaN NaN NaN NaN NaN 57.357 1 57.622 57.122 58.122 0.26444 0 0 0 0.0064722 1 26255 26255 89.427 60.94 1 39049 4154 24794 24875 43956 43956 -0.09836954770935336 YPESESIMM 9 Unmodified _YPESESIMM_ 0 0 0 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.729248046875 2 543.727743 1085.44093 NaN NaN NaN NaN NaN NaN NaN 57.444 1 57.709 57.209 58.209 0.26444 0 0 0 0.0094088 1 26296 26296 85.357 56.87 1 39050 4154 24794 24875 43957 43957 -0.09836954770935336 YPESESIMM 9 Unmodified _YPESESIMM_ 0 0 0 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.7294921875 2 543.727743 1085.44093 NaN NaN NaN NaN NaN NaN NaN 57.54 1 57.805 57.305 58.305 0.26444 0 0 0 0.016111 1 26342 26342 77.984 49.497 1 39051 4154 24794 24875 43958 43958 -0.09836954770935336 YPESESIMM 9 Unmodified _YPESESIMM_ 0 0 0 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.7293090820312 2 543.727743 1085.44093 NaN NaN NaN NaN NaN NaN NaN 57.652 1 57.916 57.416 58.416 0.26444 0 0 0 0.027384 1 26394 26394 60.39 38.643 1 39052 4154 24794 24875 43959 43959 -0.09836954770935336 YPESESIMM 9 Unmodified _YPESESIMM_ 0 0 0 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.7297973632812 2 543.727743 1085.44093 NaN NaN NaN NaN NaN NaN NaN 57.752 1 58.017 57.517 58.517 0.26444 0 0 0 0.027384 1 26441 26441 60.39 48.749 1 39053 4154 24794 24875 43960 43960 -0.09836954770935336 YPESESIMM 9 Unmodified _YPESESIMM_ 0 0 0 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.7298583984375 2 543.727743 1085.44093 NaN NaN NaN NaN NaN NaN NaN 57.874 1 58.136 57.636 58.636 0.26227 0 0 0 0.22092 1 26497 26497 30.225 20.877 1 39054 4154 24794 24875 43961 43961 -0.09836954770935336 YPESESIMM 9 Unmodified _YPESESIMM_ 0 0 0 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 ENSG00000162654|ENST00000355754|GBP4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.729736328125 2 543.727743 1085.44093 3.5379 0.0019237 -0.66994 -0.00036427 2.868 0.0015594 543.7277037401032 56.793 0.74464 57.461 57.165 57.91 0.66829 114 37 4 0 0 0 0.0061269 6 26065 25895;25946;25996;26065;26110;26168 89.427 64.027 1 2836800 39055 4154 24794 24875 43962;43963;43964;43965;43966;43967 43965 -0.09836954770935336 YPESNAEYL 9 Unmodified _YPESNAEYL_ 0 0 0 nc|ENSG00000157214|Q8NFT2-2|STEAP2;ENSG00000157214|ENST00000394621|STEAP2;nc|ENSG00000127954|Q687X5-2|STEAP4;nc|ENSG00000157214|Q8NFT2-3|STEAP2;ENSG00000127954|ENST00000380079|STEAP4 nc|ENSG00000157214|Q8NFT2-2|STEAP2 nc|ENSG00000157214|Q8NFT2-2|STEAP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.244873046875 2 543.242929 1084.47131 3.2139 0.0017459 -0.061711 -3.3524E-05 3.1522 0.0017124 543.2427682763218 63.876 0.68318 64.124 63.878 64.561 0.24802 80 42 2 0 0 0 0.29523 1 29384 29384 17.113 0 1 1105600 39056 3944 24795 24876 43968 43968 -0.06755136789911376 YPETLGRLLIL 11 Unmodified _YPETLGRLLIL_ 0 0 0 SEC14L1|p.V598Kfs*16|1|0.31|ENSG00000129657|chr17:77212126-77212127|-/AA|frameshift_variant;SEC14L1|p.V620Efs*51|1|0.16|ENSG00000129657|chr17:77212192-77212193|-/TCTGAAAAAG|frameshift_variant;nc|ENSG00000129657|Q92503-3|SEC14L1;ENSG00000129657|ENST00000436233|SEC14L1;nc|ENSG00000129657|Q92503-2|SEC14L1 SEC14L1|p.V598Kfs*16|1|0.31|ENSG00000129657|chr17:77212126-77212127|-/AA|frameshift_variant SEC14L1|p.V598Kfs*16|1|0.31|ENSG00000129657|chr17:77212126-77212127|-/AA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 644.3899536132812 2 644.387188 1286.75982 3.8478 0.0024795 -0.019402 -1.2503E-05 3.8284 0.002467 644.3871135928275 85.41 0.34896 85.658 85.423 85.772 0.24857 34 20 2 0 0 0 0.0018346 2 39315 39262;39315 77.049 58.902 1 1429300 39057 2559 24796 24877 43969;43970 43970 0.12791378188217095 YPETLGRLLIL 11 Unmodified _YPETLGRLLIL_ 0 0 0 SEC14L1|p.V598Kfs*16|1|0.31|ENSG00000129657|chr17:77212126-77212127|-/AA|frameshift_variant;SEC14L1|p.V620Efs*51|1|0.16|ENSG00000129657|chr17:77212192-77212193|-/TCTGAAAAAG|frameshift_variant;nc|ENSG00000129657|Q92503-3|SEC14L1;ENSG00000129657|ENST00000436233|SEC14L1;nc|ENSG00000129657|Q92503-2|SEC14L1 SEC14L1|p.V598Kfs*16|1|0.31|ENSG00000129657|chr17:77212126-77212127|-/AA|frameshift_variant SEC14L1|p.V598Kfs*16|1|0.31|ENSG00000129657|chr17:77212126-77212127|-/AA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 644.388916015625 2 644.387188 1286.75982 4.0674 0.002621 0.10789 6.9523E-05 4.1753 0.0026905 644.387016488584 84.733 0.34431 85.398 85.257 85.601 0.66566 41 18 3 0 0 0 0.0144 2 39051 39000;39051 62.869 44.722 1 801990 39058 2559 24796 24877 43971;43972 43972 0.12791378188217095 YPEVRIVLM 9 Unmodified _YPEVRIVLM_ 0 0 0 ENSG00000135829|ENST00000367549|DHX9;DHX9|p.K592Rfs*19|1|0.3|ENSG00000135829|chr1:182874910-182874910|A/-|frameshift_variant ENSG00000135829|ENST00000367549|DHX9 ENSG00000135829|ENST00000367549|DHX9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 560.31640625 2 560.315177 1118.6158 2.8284 0.0015848 -0.58032 -0.00032516 2.2481 0.0012596 560.8164192040773 72.05 0.18875 72.05 71.928 72.116 0 25 16 2 0 0 0 0.24524 1 35009 35009 20.415 6.5085 1 1449300 39059 2900 24797 24878 43973 43973 0.061238331563799875 YPEVRIVLM 9 Unmodified _YPEVRIVLM_ 0 0 0 ENSG00000135829|ENST00000367549|DHX9;DHX9|p.K592Rfs*19|1|0.3|ENSG00000135829|chr1:182874910-182874910|A/-|frameshift_variant ENSG00000135829|ENST00000367549|DHX9 ENSG00000135829|ENST00000367549|DHX9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.3168334960938 2 560.315177 1118.6158 2.9703 0.0016643 -0.20398 -0.00011429 2.7664 0.00155 560.3152525631832 71.202 0.3819 71.864 71.58 71.962 0.66209 44 26 2 0 0 0 0.063112 2 32624 32575;32624 41.956 30.315 1 468470 39060 2900 24797 24878 43974;43975 43975 0.061238331563799875 YPFDGHNEGTL 11 Unmodified _YPFDGHNEGTL_ 0 0 0 nc|ENSG00000137942|Q5T0N5-3|FNBP1L;nc|ENSG00000137942|Q5T0N5-4|FNBP1L;nc|ENSG00000137942|Q5T0N5-2|FNBP1L;nc|ENSG00000137942|Q5T0N5-5|FNBP1L;ENSG00000137942|ENST00000271234|FNBP1L nc|ENSG00000137942|Q5T0N5-3|FNBP1L nc|ENSG00000137942|Q5T0N5-3|FNBP1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 625.7828369140625 2 625.277835 1248.54112 3.8859 0.0024298 -0.58522 -0.00036592 3.3007 0.0020638 625.2772080236899 46.917 0.24582 47.181 47.066 47.312 0.26363 11 7 2 0 0 0 0.019927 1 21446 21446 59.368 33.969 1 467150 39061 3056 24798 24879 43976 43976 -0.07321258121282881 YPFDGHNEGTL 11 Unmodified _YPFDGHNEGTL_ 0 0 0 nc|ENSG00000137942|Q5T0N5-3|FNBP1L;nc|ENSG00000137942|Q5T0N5-4|FNBP1L;nc|ENSG00000137942|Q5T0N5-2|FNBP1L;nc|ENSG00000137942|Q5T0N5-5|FNBP1L;ENSG00000137942|ENST00000271234|FNBP1L nc|ENSG00000137942|Q5T0N5-3|FNBP1L nc|ENSG00000137942|Q5T0N5-3|FNBP1L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 625.280029296875 2 625.277835 1248.54112 3.9412 0.0024643 0.091439 5.7175E-05 4.0326 0.0025215 625.2777144133962 46.417 0.18795 47.069 46.979 47.167 0.65219 11 7 2 0 0 0 0.15681 1 21291 21291 32.037 11.584 1 375050 39062 3056 24798 24879 43977 43977 -0.07321258121282881 YPFQDSEPVL 10 Unmodified _YPFQDSEPVL_ 0 0 0 ENSG00000101255|ENST00000217233|TRIB3 ENSG00000101255|ENST00000217233|TRIB3 ENSG00000101255|ENST00000217233|TRIB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 597.791748046875 2 597.787504 1193.56045 2.7208 0.0016265 -0.027004 -1.6143E-05 2.6938 0.0016103 597.787471575452 72.218 0.4791 72.218 71.967 72.447 0 107 47 3 0 0 0 0.03281 3 35051 35051;35103;35159 66.457 48.31 1 7390900 39063 1277 24799 24880 43978;43979;43980 43978 -0.02858301830383425 YPFQDSEPVL 10 Unmodified _YPFQDSEPVL_ 0 0 0 ENSG00000101255|ENST00000217233|TRIB3 ENSG00000101255|ENST00000217233|TRIB3 ENSG00000101255|ENST00000217233|TRIB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 597.7896118164062 2 597.787504 1193.56045 2.9688 0.0017747 0.45654 0.00027292 3.4253 0.0020476 597.7878741582449 71.432 0.39572 72.136 71.923 72.318 0.70386 118 45 3 0 0 0 0.03281 4 34258 34212;34258;34312;34364 66.457 49.344 1 6632900 39064 1277 24799 24880 43981;43982;43983;43984 43982 -0.02858301830383425 YPFQDSEPVL 10 Unmodified _YPFQDSEPVL_ 0 0 0 ENSG00000101255|ENST00000217233|TRIB3 ENSG00000101255|ENST00000217233|TRIB3 ENSG00000101255|ENST00000217233|TRIB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.7894897460938 2 597.787504 1193.56045 3.5007 0.0020927 -0.1805 -0.0001079 3.3202 0.0019848 597.7872696142229 71.866 0.37732 72.123 71.954 72.332 0.25786 98 39 4 0 0 0 0.00056258 3 32926 32926;32981;33035 107.19 71.06 1 10416000 39065 1277 24799 24880 43985;43986;43987 43985 -0.02858301830383425 YPFQDSEPVL 10 Unmodified _YPFQDSEPVL_ 0 0 0 ENSG00000101255|ENST00000217233|TRIB3 ENSG00000101255|ENST00000217233|TRIB3 ENSG00000101255|ENST00000217233|TRIB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1194.57177734375 1 1194.56773 1193.56045 2.9263 0.0034957 -0.3488 -0.00041666 2.5775 0.003079 1194.5671089925324 71.832 0.18892 72.09 72.034 72.223 0.25786 31 17 2 0 0 0 0.091802 2 33000 32943;33000 53.833 42.192 1 1412100 39066 1277 24799 24880 43988;43989 43989 -0.02858301830383425 YPFQDSEPVL 10 Unmodified _YPFQDSEPVL_ 0 0 0 ENSG00000101255|ENST00000217233|TRIB3 ENSG00000101255|ENST00000217233|TRIB3 ENSG00000101255|ENST00000217233|TRIB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.7899780273438 2 597.787504 1193.56045 3.4105 0.0020388 0.045458 2.7174E-05 3.456 0.002066 597.78746190323 71.444 0.48843 72.107 71.88 72.369 0.66325 111 33 4 0 0 0 2.3684E-06 4 32785 32686;32737;32785;32832 131.27 87.409 1 9283500 39067 1277 24799 24880 43990;43991;43992;43993 43992 -0.02858301830383425 YPFQDSEPVL 10 Unmodified _YPFQDSEPVL_ 0 0 0 ENSG00000101255|ENST00000217233|TRIB3 ENSG00000101255|ENST00000217233|TRIB3 ENSG00000101255|ENST00000217233|TRIB3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1194.57275390625 1 1194.56773 1193.56045 2.7195 0.0032487 -0.2467 -0.0002947 2.4729 0.002954 1194.5675144211855 71.44 0.3295 72.103 71.941 72.27 0.66324 40 22 2 0 0 0 0.03281 3 32745 32696;32745;32790 66.457 49.344 1 1438300 39068 1277 24799 24880 43994;43995;43996 43995 -0.02858301830383425 YPHEHHAL 8 Unmodified _YPHEHHAL_ 0 0 0 nc|ENSG00000105429|Q7Z7M0-2|MEGF8;ENSG00000105429|ENST00000251268|MEGF8 nc|ENSG00000105429|Q7Z7M0-2|MEGF8 nc|ENSG00000105429|Q7Z7M0-2|MEGF8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 502.2442932128906 2 502.240858 1002.46716 3.2405 0.0016275 3.3172 0.0016661 6.5578 0.0032936 502.24243587708025 60.988 0.23293 61.243 61.154 61.387 0.25578 13 9 2 0 0 0 0.64692 1 27989 27989 10.183 3.4602 1 328590 39069 1497 24800 24881 43997 43997 -0.033971367023013954 YPHHATQL 8 Unmodified _YPHHATQL_ 0 0 0 nc|ENSG00000168488|Q8WWM7-6|ATXN2L;ENST00000563314.5_1_16:28834580-28846939:+|nuORF;nc|ENSG00000168488|Q8WWM7-8|ATXN2L;nc|ENSG00000168488|Q8WWM7-5|ATXN2L;nc|ENSG00000168488|Q8WWM7-4|ATXN2L;ATXN2L|p.V1010Cfs*42|1|0.18|ENSG00000168488|chr16:28836062-28836062|G/-|frameshift_variant;nc|ENSG00000168488|Q8WWM7-9|ATXN2L;nc|ENSG00000168488|Q8WWM7-2|ATXN2L;ENSG00000168488|ENST00000336783|ATXN2L;nc|ENSG00000168488|Q8WWM7-3|ATXN2L nc|ENSG00000168488|Q8WWM7-6|ATXN2L nc|ENSG00000168488|Q8WWM7-6|ATXN2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 483.74468994140625 2 483.743234 965.471915 2.8316 0.0013698 0.22668 0.00010965 3.0583 0.0014794 483.7432506649842 13.229 0.20026 13.472 13.373 13.573 0.24346 21 14 2 0 0 0 0.64692 1 5779 5779 10.183 0.83596 1 138790 39070 82 24801 24882 43998 43998 -0.012202525595284897 YPHHATQL 8 Unmodified _YPHHATQL_ 0 0 0 nc|ENSG00000168488|Q8WWM7-6|ATXN2L;ENST00000563314.5_1_16:28834580-28846939:+|nuORF;nc|ENSG00000168488|Q8WWM7-8|ATXN2L;nc|ENSG00000168488|Q8WWM7-5|ATXN2L;nc|ENSG00000168488|Q8WWM7-4|ATXN2L;ATXN2L|p.V1010Cfs*42|1|0.18|ENSG00000168488|chr16:28836062-28836062|G/-|frameshift_variant;nc|ENSG00000168488|Q8WWM7-9|ATXN2L;nc|ENSG00000168488|Q8WWM7-2|ATXN2L;ENSG00000168488|ENST00000336783|ATXN2L;nc|ENSG00000168488|Q8WWM7-3|ATXN2L nc|ENSG00000168488|Q8WWM7-6|ATXN2L nc|ENSG00000168488|Q8WWM7-6|ATXN2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 483.7449645996094 2 483.743234 965.471915 2.5545 0.0012357 0.73202 0.00035411 3.2865 0.0015898 483.74355512527035 13.202 0.38665 13.509 13.25 13.637 0.30727 41 24 3 0 0 0 0.29255 2 5943 5943;5987 36.044 9.7029 1 322120 39071 82 24801 24882 43999;44000 43999 -0.012202525595284897 YPHHATQL 8 Unmodified _YPHHATQL_ 0 0 0 nc|ENSG00000168488|Q8WWM7-6|ATXN2L;ENST00000563314.5_1_16:28834580-28846939:+|nuORF;nc|ENSG00000168488|Q8WWM7-8|ATXN2L;nc|ENSG00000168488|Q8WWM7-5|ATXN2L;nc|ENSG00000168488|Q8WWM7-4|ATXN2L;ATXN2L|p.V1010Cfs*42|1|0.18|ENSG00000168488|chr16:28836062-28836062|G/-|frameshift_variant;nc|ENSG00000168488|Q8WWM7-9|ATXN2L;nc|ENSG00000168488|Q8WWM7-2|ATXN2L;ENSG00000168488|ENST00000336783|ATXN2L;nc|ENSG00000168488|Q8WWM7-3|ATXN2L nc|ENSG00000168488|Q8WWM7-6|ATXN2L nc|ENSG00000168488|Q8WWM7-6|ATXN2L MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 483.7447204589844 2 483.743234 965.471915 3.4144 0.0016517 -0.35332 -0.00017092 3.0611 0.0014808 483.7433047037874 12.865 0.23496 13.508 13.345 13.58 0.64272 15 6 3 0 0 0 0.014171 1 5788 5788 92.822 44.476 1 633810 39072 82 24801 24882 44001 44001 -0.012202525595284897 YPHSLDPPVNG 11 Unmodified _YPHSLDPPVNG_ 0 0 0 REV__ENST00000493467.5_1_9:135785858-135804259:-|nuORF REV__ENST00000493467.5_1_9:135785858-135804259:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 598.385009765625 2 598.290745 1194.56694 NaN NaN NaN NaN NaN NaN NaN 37.714 1 38.348 37.848 38.848 0.63388 0 0 0 1.0034 1 17255 17255 6.2058 0.97511 1 + 39073 13183 24802 24883 44002 44002 -0.022563638790188634 YPIDHLGR 8 Unmodified _YPIDHLGR_ 0 0 0 REV__ENST00000372774.7_2_X:101395704-101395815:-|nuORF REV__ENST00000372774.7_2_X:101395704-101395815:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 485.760009765625 2 485.758884 969.503215 3.6281 0.0017624 0.37332 0.00018134 4.0015 0.0019437 485.75898886168017 31.279 0.19934 31.535 31.421 31.62 0.25614 24 13 2 0 0 0 0.58952 1 14243 14243 14.838 1.3304 1 353350 + 39074 15760 24803 24884 44003 44003 0.017243204745682306 YPIGQYTFF 9 Unmodified _YPIGQYTFF_ 0 0 0 REV__nc|ENSG00000138068|Q6IMI4-2|SULT6B1 REV__nc|ENSG00000138068|Q6IMI4-2|SULT6B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.562255859375 2 568.276575 1134.5386 2.8304 0.0016085 1.2402 0.0007048 4.0706 0.0023133 568.7801904758281 80.646 0.069824 80.814 80.761 80.831 0.16862 6 4 2 0 0 0 0.43926 1 39513 39513 13.508 0.97634 1 922920 + 39075 12144 24804 24885 44004 44004 -0.023290617882821607 YPIGQYTFF 9 Unmodified _YPIGQYTFF_ 0 0 0 REV__nc|ENSG00000138068|Q6IMI4-2|SULT6B1 REV__nc|ENSG00000138068|Q6IMI4-2|SULT6B1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 568.276575 1134.5386 2.8304 0.0016085 1.2402 0.0007048 4.0706 0.0023133 568.7801904758281 80.646 0.069824 80.814 80.761 80.831 0.16862 0 0 NaN 13.508 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 922920 + 39076 12144 24804 24885 -0.023290617882821607 YPIPEQAL 8 Unmodified _YPIPEQAL_ 0 0 0 ENSG00000140015|ENST00000322893|KCNH5 ENSG00000140015|ENST00000322893|KCNH5 ENSG00000140015|ENST00000322893|KCNH5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 466.6377258300781 2 465.750193 929.485833 2.8143 0.0013108 -0.0068285 -3.1804E-06 2.8075 0.0013076 465.7500469985933 32.432 0.34536 32.432 32.279 32.624 0 60 23 4 0 0 0 0.61796 1 14632 14632 12.532 0 1 2235200 39077 3176 24805 24886 44005 44005 0.01826980148905477 YPIREDLL 8 Unmodified _YPIREDLL_ 0 0 0 ENST00000528821.5_1_12:16109876-16185684:+|nuORF;ENSG00000023697|ENST00000428559|DERA ENST00000528821.5_1_12:16109876-16185684:+|nuORF ENST00000528821.5_1_12:16109876-16185684:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 509.78399658203125 2 509.782025 1017.5495 NaN NaN NaN NaN NaN NaN NaN 55.176 1 55.176 54.676 55.676 0 0 0 0 0.22495 1 25339 25339 78.149 7.0158 1 39078 470 24806 24887 44006 44006 0.04142340586008686 YPIREDLL 8 Unmodified _YPIREDLL_ 0 0 0 ENST00000528821.5_1_12:16109876-16185684:+|nuORF;ENSG00000023697|ENST00000428559|DERA ENST00000528821.5_1_12:16109876-16185684:+|nuORF ENST00000528821.5_1_12:16109876-16185684:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 509.7840576171875 2 509.782025 1017.5495 2.8549 0.0014554 -0.02657 -1.3545E-05 2.8284 0.0014419 509.78208305061725 54.005 0.43039 54.8 54.587 55.018 0.79552 50 22 3 0 0 0 0.070862 1 24670 24670 58.679 6.4105 1 757300 39079 470 24806 24887 44007 44007 0.04142340586008686 YPIREDLL 8 Unmodified _YPIREDLL_ 0 0 0 ENST00000528821.5_1_12:16109876-16185684:+|nuORF;ENSG00000023697|ENST00000428559|DERA ENST00000528821.5_1_12:16109876-16185684:+|nuORF ENST00000528821.5_1_12:16109876-16185684:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 509.782025 1017.5495 3.2111 0.001637 -0.45212 -0.00023048 2.759 0.0014065 509.7816197790411 54.346 0.21196 55.013 54.843 55.055 0.6665 0.10629 -0.00029351 NaN 58.679 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 945630 39080 470 24806 24887 0.04142340586008686 YPIVGIINRAC 11 Unmodified _YPIVGIINRAC_ 0 0 0 REV__nc|ENSG00000161542|Q14558|PRPSAP1 REV__nc|ENSG00000161542|Q14558|PRPSAP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 609.8383178710938 2 609.836808 1217.65906 NaN NaN NaN NaN NaN NaN NaN 63.228 1 63.951 63.451 64.451 0.72236 0 0 0 0.95662 1 29595 29595 10.824 4.1008 1 + 39081 12913 24807 24888 44008 44008 0.05894022933716769 YPKARVEPEA 10 Unmodified _YPKARVEPEA_ 0 0 0 REV__nc|ENSG00000137474|Q13402-5|MYO7A;REV__ENST00000481328.7_1_11:76905078-76923312:+|nuORF REV__nc|ENSG00000137474|Q13402-5|MYO7A MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 386.87396240234375 3 387.208384 1158.60332 2.4029 0.00093044 -1.6316 -0.00063176 0.77136 0.00029868 387.20769712526675 34.107 0.16335 34.107 34.034 34.197 0 12 9 2 0 0 0 0.12676 1 15466 15466 1.7423 0 1 813280 + 39082 12113;16701 24808 24889 44009 44009 0.030365130177187893 YPKDDILTL 9 Unmodified _YPKDDILTL_ 0 0 0 REV__ENSG00000154165|ENST00000284311|GPR15 REV__ENSG00000154165|ENST00000284311|GPR15 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.7980346679688 2 539.294965 1076.57538 2.9271 0.0015786 1.2199 0.00065789 4.147 0.0022365 539.295808176638 70.075 0.24778 70.736 70.604 70.852 0.66072 19 15 2 0 0 0 0.079031 1 32136 32136 37.974 6.7057 1 434490 + 39083 12698 24809 24890 44010 44010 0.040151900376031335 YPKDDILTL 9 Unmodified _YPKDDILTL_ 0 0 0 REV__ENSG00000154165|ENST00000284311|GPR15 REV__ENSG00000154165|ENST00000284311|GPR15 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 539.294965 1076.57538 2.9876 0.0016112 1.9471 0.0010501 4.9347 0.0026613 539.2959373215807 70.611 0.22244 70.867 70.755 70.977 0.25642 0.065544 0.00039609 NaN 37.974 17 11 2 NaN NaN NaN NaN 0 NaN NaN 0 283330 + 39084 12698 24809 24890 0.040151900376031335 YPKDDILTL 9 Unmodified _YPKDDILTL_ 0 0 0 REV__ENSG00000154165|ENST00000284311|GPR15 REV__ENSG00000154165|ENST00000284311|GPR15 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 539.294965 1076.57538 2.9271 0.0015786 1.2199 0.00065789 4.147 0.0022365 539.295808176638 70.075 0.24778 70.736 70.604 70.852 0.66072 -0.065544 -0.00038828 NaN 37.974 19 15 2 NaN NaN NaN NaN 0 NaN NaN 0 434490 + 39085 12698 24809 24890 0.040151900376031335 YPKFKYAVL 9 Unmodified _YPKFKYAVL_ 0 0 0 ENST00000560409.5_1_15:85213252-85222467:-|nuORF;ENST00000558924.1_1_15:85213252-85214072:-|nuORF;ENST00000560266.5_1_15:85213252-85223982:-|nuORF;nc|ENSG00000140612|P67812-2|SEC11A;ENSG00000140612|ENST00000268220|SEC11A ENST00000560409.5_1_15:85213252-85222467:-|nuORF ENST00000560409.5_1_15:85213252-85222467:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.652587890625 2 564.826235 1127.63792 3.4218 0.0019327 -0.91491 -0.00051677 2.5069 0.001416 564.8277126778976 50.331 0.13618 51.154 51.071 51.207 0.82285 10 7 2 0 0 0 0.24524 1 22932 22932 15.847 5.0233 1 156640 39086 3213 24810 24891 44011 44011 0.0792038089646212 YPKNQIRNL 9 Unmodified _YPKNQIRNL_ 0 0 0 REV__nc|ENSG00000172046|O94966|USP19 REV__nc|ENSG00000172046|O94966|USP19 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 573.3269653320312 2 573.324922 1144.63529 NaN NaN NaN NaN NaN NaN NaN 67.229 1 67.479 66.979 67.979 0.2501 0 0 0 0.89509 1 30797 30797 4.756 0.81161 1 + 39087 18049 24811 24892 44012 44012 0.06875925491522139 YPLALLLLKY 10 Unmodified _YPLALLLLKY_ 0 0 0 REV__ENST00000511393.4_1_4:186321154-186321376:+|nuORF REV__ENST00000511393.4_1_4:186321154-186321376:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 302.1963195800781 4 302.442872 1205.74238 2.1479 0.00064961 0.29662 8.971E-05 2.4445 0.00073932 302.6937363679433 60.391 0.44982 61.056 60.817 61.267 0.66503 52 22 3 0 0 0 0.12676 1 27587 27587 0.69767 0.24315 1 1631800 + 39088 16976 24812 24893 44013 44013 0.1477408265318445 YPLALLLLKY 10 Unmodified _YPLALLLLKY_ 0 0 0 REV__ENST00000511393.4_1_4:186321154-186321376:+|nuORF REV__ENST00000511393.4_1_4:186321154-186321376:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 4 302.442872 1205.74238 2.227 0.00067353 0.21228 6.4202E-05 2.4392 0.00073773 302.44294222909275 60.681 0.55886 60.937 60.848 61.407 0.25578 -0.059457 -5.2705E-05 NaN 0.69767 62 29 3 NaN NaN NaN NaN 0 NaN NaN 0 1531700 + 39089 16976 24812 24893 0.1477408265318445 YPLASKSL 8 Unmodified _YPLASKSL_ 0 0 0 REV__YLPM1|p.D2015Vfs*40|1|0.15|ENSG00000119596|chr14:74821070-74821070|A/-|frameshift_variant REV__YLPM1|p.D2015Vfs*40|1|0.15|ENSG00000119596|chr14:74821070-74821070|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 440.47393798828125 2 439.752736 877.490919 3.3149 0.0014577 0.31591 0.00013892 3.6308 0.0015967 439.7529246675376 12.859 0.16698 13.501 13.413 13.58 0.64272 9 4 3 0 0 0 0.65723 1 5783 5783 9.3474 0 1 276050 + 39090 18249 24813 24894 44014 44014 0.04727284011528354 YPLDRELI 8 Unmodified _YPLDRELI_ 0 0 0 REV__nc|ENSG00000197603|Q9H799-5|CPLANE1 REV__nc|ENSG00000197603|Q9H799-5|CPLANE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 509.7835998535156 2 509.782025 1017.5495 2.8549 0.0014554 -0.02657 -1.3545E-05 2.8284 0.0014419 509.78208305061725 54.005 0.43039 54.8 54.587 55.018 0.79552 50 22 3 0 0 0 0.11358 1 24626 24626 52.268 0 1 757300 + 39091 14290 24814 24895 44015 44015 0.04142340586008686 YPLDRELI 8 Unmodified _YPLDRELI_ 0 0 0 REV__nc|ENSG00000197603|Q9H799-5|CPLANE1 REV__nc|ENSG00000197603|Q9H799-5|CPLANE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 509.7824401855469 2 509.782025 1017.5495 3.2111 0.001637 -0.45212 -0.00023048 2.759 0.0014065 509.7816197790411 54.346 0.21196 55.013 54.843 55.055 0.6665 16 10 2 0 0 0 0.19187 1 24844 24844 43.858 0 1 945630 + 39092 14290 24814 24895 44016 44016 0.04142340586008686 YPLDRWKI 8 Unmodified _YPLDRWKI_ 0 0 0 REV__nc|ENSG00000111642|Q14839-2|CHD4 REV__nc|ENSG00000111642|Q14839-2|CHD4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 545.8050537109375 2 545.805834 1089.59712 NaN NaN NaN NaN NaN NaN NaN 44.525 1 44.525 44.025 45.025 0 0 0 0 0.67718 1 20350 20350 23.148 9.6405 1 + 39093 11242 24815 24896 44017 44017 0.055900395768503586 YPLINTYRNK 10 Unmodified _YPLINTYRNK_ 0 0 0 REV__nc|ENSG00000151490|Q16827-4|PTPRO REV__nc|ENSG00000151490|Q16827-4|PTPRO MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 641.3491821289062 2 641.351137 1280.68772 NaN NaN NaN NaN NaN NaN NaN 57.097 1 57.097 56.597 57.597 0 0 0 0 0.99733 1 26305 26305 3.9444 0.66309 1 + 39094 12617 24816 24897 44018 44018 0.05860463834483198 YPLLPQLRIV 10 Unmodified _YPLLPQLRIV_ 0 0 0 REV__ENSG00000177352|ENST00000321895|CCDC71 REV__ENSG00000177352|ENST00000321895|CCDC71 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.5899353027344 3 404.588536 1210.74378 2.7306 0.0011048 0.78051 0.00031579 3.5111 0.0014206 404.5887371510544 32.215 0.89974 32.215 31.925 32.825 0 148 76 2 0 0 0 0.93584 3 14757 14757;14805;14863 1.7423 1.7423 1 1283300 + 39095 13734 24817 24898 44019;44020;44021 44019 0.14683716741933495 YPLLPQLRIV 10 Unmodified _YPLLPQLRIV_ 0 0 0 REV__ENSG00000177352|ENST00000321895|CCDC71 REV__ENSG00000177352|ENST00000321895|CCDC71 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.5899353027344 3 404.588536 1210.74378 2.5811 0.0010443 1.0478 0.00042394 3.6289 0.0014682 404.5889464740039 31.829 0.3376 32.617 32.534 32.871 0.78795 54 35 2 0 0 0 0.93584 1 14388 14388 1.7423 1.7423 1 1335900 + 39096 13734 24817 24898 44022 44022 0.14683716741933495 YPLLPQLRIV 10 Unmodified _YPLLPQLRIV_ 0 0 0 REV__ENSG00000177352|ENST00000321895|CCDC71 REV__ENSG00000177352|ENST00000321895|CCDC71 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.5902099609375 3 404.588536 1210.74378 3.2934 0.0013325 0.20145 8.1503E-05 3.4948 0.001414 404.923077126061 32.245 0.33243 32.499 32.335 32.668 0.25452 48 25 2 0 0 0 0.93584 1 14664 14664 1.7423 1.7423 1 2494600 + 39097 13734 24817 24898 44023 44023 0.14683716741933495 YPLLPQLRIV 10 Unmodified _YPLLPQLRIV_ 0 0 0 REV__ENSG00000177352|ENST00000321895|CCDC71 REV__ENSG00000177352|ENST00000321895|CCDC71 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.92431640625 3 404.588536 1210.74378 3.2115 0.0012993 0.83346 0.00033721 4.045 0.0016365 404.5887679947137 32.592 0.55131 32.847 32.593 33.145 0.25452 62 27 3 0 0 0 0.93584 1 14772 14772 1.7423 0.14999 1 2022100 + 39098 13734 24817 24898 44024 44024 0.14683716741933495 YPLLPQLRIV 10 Unmodified _YPLLPQLRIV_ 0 0 0 REV__ENSG00000177352|ENST00000321895|CCDC71 REV__ENSG00000177352|ENST00000321895|CCDC71 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.92431640625 3 404.588536 1210.74378 3.2115 0.0012993 0.83346 0.00033721 4.045 0.0016365 404.5887679947137 32.592 0.55131 32.847 32.593 33.145 0.25452 62 27 3 0 0 0 0.12676 1 14772 14772 1.7423 0.14999 1 2022100 + 39099 13734 24817 24898 44025 44025 0.14683716741933495 YPLLPQLRIV 10 Unmodified _YPLLPQLRIV_ 0 0 0 REV__ENSG00000177352|ENST00000321895|CCDC71 REV__ENSG00000177352|ENST00000321895|CCDC71 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 404.9242858886719 3 404.588536 1210.74378 2.9165 0.00118 0.90962 0.00036802 3.8261 0.001548 404.5887410745076 31.845 0.51869 32.463 32.287 32.806 0.61736 79 32 4 0 0 0 0.93584 1 14549 14549 1.7423 0.41263 1 1257900 + 39100 13734 24817 24898 44026 44026 0.14683716741933495 YPLLQENL 8 Unmodified _YPLLQENL_ 0 0 0 ENST00000395183.6_1_4:86699881-86700061:+|nuORF ENST00000395183.6_1_4:86699881-86700061:+|nuORF ENST00000395183.6_1_4:86699881-86700061:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 330.51544189453125 3 330.514925 988.522947 2.0042 0.0006624 0.65349 0.00021599 2.6576 0.00087839 330.5150595535458 13.197 0.20623 13.441 13.353 13.559 0.24346 40 15 3 0 0 0 0.67495 1 5777 5777 7.9102 0.3012 1 1046800 39101 7550 24818 24899 44027 44027 0.028226516946460833 YPLLQENL 8 Unmodified _YPLLQENL_ 0 0 0 ENST00000395183.6_1_4:86699881-86700061:+|nuORF ENST00000395183.6_1_4:86699881-86700061:+|nuORF ENST00000395183.6_1_4:86699881-86700061:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 330.5158386230469 3 330.514925 988.522947 1.8543 0.00061286 1.0734 0.00035478 2.9277 0.00096764 330.5151861090835 13.164 0.54242 13.472 13.125 13.668 0.30727 80 30 5 0 0 0 0.67495 1 5905 5905 7.9102 0.3012 1 2394400 39102 7550 24818 24899 44028 44028 0.028226516946460833 YPLLRHLA 8 Unmodified _YPLLRHLA_ 0 0 0 REV__nc|ENSG00000063169|Q9NZM4-2|BICRA REV__nc|ENSG00000063169|Q9NZM4-2|BICRA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 491.7978820800781 2 491.795269 981.575986 NaN NaN NaN NaN NaN NaN NaN 55.276 1 55.944 55.444 56.444 0.66798 0 0 0 0.99035 1 25292 25292 2.8892 0 1 + 39103 10405 24819 24900 44029 44029 0.08446074267988024 YPLPNTVKDF 10 Unmodified _YPLPNTVKDF_ 0 0 0 nc|ENSG00000152894|Q15262|PTPRK;ENSG00000152894|ENST00000368226|PTPRK;nc|ENSG00000152894|Q15262-3|PTPRK;nc|ENSG00000152894|Q15262-4|PTPRK nc|ENSG00000152894|Q15262|PTPRK nc|ENSG00000152894|Q15262|PTPRK MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.3172607421875 2 597.313689 1192.61282 3.9203 0.0023416 -0.26741 -0.00015973 3.6528 0.0021819 597.3135722356741 37.825 0.37521 38.459 38.27 38.645 0.63388 20 12 2 0 0 0 0.68517 1 17335 17335 13.906 4.5229 1 227470 39104 3763 24820 24901 44030 44030 0.02422281303233831 YPLPPKSQ 8 Unmodified _YPLPPKSQ_ 0 0 0 nc|ENSG00000054983|P54803-5|GALC;nc|ENSG00000054983|P54803-4|GALC;nc|ENSG00000054983|P54803-3|GALC;ENSG00000054983|ENST00000261304|GALC nc|ENSG00000054983|P54803-5|GALC nc|ENSG00000054983|P54803-5|GALC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 465.25933837890625 2 465.258185 928.501818 3.0167 0.0014035 0.116 5.3972E-05 3.1327 0.0014575 465.2581079292214 27.903 0.31442 27.903 27.781 28.095 0 42 26 2 0 0 0 0.15009 2 12629 12586;12629 48.346 19.859 1 508830 39105 612 24821 24902 44031;44032 44032 0.03470686385810495 YPLPPKSQ 8 Unmodified _YPLPPKSQ_ 0 0 0 nc|ENSG00000054983|P54803-5|GALC;nc|ENSG00000054983|P54803-4|GALC;nc|ENSG00000054983|P54803-3|GALC;ENSG00000054983|ENST00000261304|GALC nc|ENSG00000054983|P54803-5|GALC nc|ENSG00000054983|P54803-5|GALC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.2601318359375 2 465.258185 928.501818 2.8101 0.0013074 0.0067683 3.149E-06 2.8168 0.0013106 465.2580114762489 26.98 0.25456 27.758 27.643 27.897 0.7787 32 18 2 0 0 0 0.3435 2 12147 12105;12147 32.305 5.4218 1 598030 39106 612 24821 24902 44033;44034 44034 0.03470686385810495 YPLPPKSQ 8 Unmodified _YPLPPKSQ_ 0 0 0 nc|ENSG00000054983|P54803-5|GALC;nc|ENSG00000054983|P54803-4|GALC;nc|ENSG00000054983|P54803-3|GALC;ENSG00000054983|ENST00000261304|GALC nc|ENSG00000054983|P54803-5|GALC nc|ENSG00000054983|P54803-5|GALC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 465.25994873046875 2 465.258185 928.501818 2.6164 0.0012173 0.49276 0.00022926 3.1092 0.0014466 465.2583298666703 27.635 0.30005 27.898 27.781 28.081 0.26245 36 19 3 0 0 0 0.23923 2 12600 12549;12600 39.957 11.784 1 507750 39107 612 24821 24902 44035;44036 44036 0.03470686385810495 YPLPPKSQ 8 Unmodified _YPLPPKSQ_ 0 0 0 nc|ENSG00000054983|P54803-5|GALC;nc|ENSG00000054983|P54803-4|GALC;nc|ENSG00000054983|P54803-3|GALC;ENSG00000054983|ENST00000261304|GALC nc|ENSG00000054983|P54803-5|GALC nc|ENSG00000054983|P54803-5|GALC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 465.25970458984375 2 465.258185 928.501818 2.7015 0.0012569 0.48814 0.00022711 3.1897 0.001484 465.2583369774278 27.223 0.34168 27.845 27.69 28.032 0.62178 32 20 2 0 0 0 0.3435 2 12510 12453;12510 32.305 5.4218 1 402590 39108 612 24821 24902 44037;44038 44038 0.03470686385810495 YPMRLQRR 8 Unmodified _YPMRLQRR_ 0 0 0 REV__ENST00000528039.5_1_11:66406208-66407372:+|nuORF REV__ENST00000528039.5_1_11:66406208-66407372:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.3142700195312 2 560.313835 1118.61312 NaN NaN NaN NaN NaN NaN NaN 33.438 1 34.058 33.558 34.558 0.62031 0 0 0 0.92256 1 15324 15324 9.3474 0 1 + 39109 17111 24822 24903 44039 44039 0.05855422542117594 YPMWCVFFS 9 Unmodified _YPMWCVFFS_ 0 0 0 REV__ENSG00000214943|ENST00000399285|GPR33 REV__ENSG00000214943|ENST00000399285|GPR33 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8399658203125 3 393.838246 1178.49291 NaN NaN NaN NaN NaN NaN NaN 5.4472 1 6.0702 5.5702 6.5702 0.62294 0 0 0 0.91452 1 2472 2472 0 0 1 + 39110 14520 24823 24904 44040 44040 -0.08919746566539288 YPMWCVLF 8 Unmodified _YPMWCVLF_ 0 0 0 REV__ENST00000462265.5_1_1:241755332-241761290:-|nuORF REV__ENST00000462265.5_1_1:241755332-241761290:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.5546875 2 529.745542 1057.47653 2.8191 0.0014934 -3.4231 -0.0018134 -0.604 -0.00031997 529.7439591823179 55.814 0.056412 56.601 56.568 56.625 0.78711 6 4 2 0 0 0 0.63544 1 25493 25493 11.114 2.5212 1 388390 + 39111 10362 24824 24905 44041 44041 -0.0499082773264945 YPNESVECM 9 Unmodified _YPNESVECM_ 0 0 0 REV__ENST00000517951.5_1_5:156822576-156936463:-|nuORF REV__ENST00000517951.5_1_5:156822576-156936463:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.2122802734375 2 536.209718 1070.40488 3.077 0.0016499 0.36557 0.00019602 3.4425 0.0018459 536.2099813128863 40.595 0.44406 40.595 40.341 40.785 0 41 23 2 0 0 0 0.16976 1 18450 18450 25.399 0 1 5186200 + 39112 11996 24825 24906 44042 44042 -0.1275041194780897 YPNGPDYQL 9 Unmodified _YPNGPDYQL_ 0 0 0 ENSG00000120075|ENST00000239151|HOXB5;ENSG00000106004|ENST00000222726|HOXA5 ENSG00000120075|ENST00000239151|HOXB5 ENSG00000120075|ENST00000239151|HOXB5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 533.7476196289062 2 533.745639 1065.47673 2.9894 0.0015956 -0.085438 -4.5602E-05 2.9039 0.00155 534.2470836161659 52.266 0.50511 52.266 51.979 52.484 0 60 36 2 0 0 0 0.032303 4 23952 23846;23856;23905;23952 54.774 29.374 1 1820500 39113 1547 24826 24907 44043;44044;44045;44046 44046 -0.05339413207434518 YPNGPDYQL 9 Unmodified _YPNGPDYQL_ 0 0 0 ENSG00000120075|ENST00000239151|HOXB5;ENSG00000106004|ENST00000222726|HOXA5 ENSG00000120075|ENST00000239151|HOXB5 ENSG00000120075|ENST00000239151|HOXB5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 533.7484741210938 2 533.745639 1065.47673 2.6267 0.001402 -0.04084 -2.1798E-05 2.5858 0.0013802 533.7453772014297 51.232 0.48155 52.05 51.838 52.319 0.81738 69 37 2 0 0 0 0.057744 4 23305 23305;23310;23366;23420 43.858 26.884 1 1747900 39114 1547 24826 24907 44047;44048;44049;44050 44047 -0.05339413207434518 YPNGPDYQL 9 Unmodified _YPNGPDYQL_ 0 0 0 ENSG00000120075|ENST00000239151|HOXB5;ENSG00000106004|ENST00000222726|HOXA5 ENSG00000120075|ENST00000239151|HOXB5 ENSG00000120075|ENST00000239151|HOXB5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 533.7467041015625 2 533.745639 1065.47673 2.9984 0.0016004 -0.44425 -0.00023712 2.5542 0.0013633 533.7453169055171 52.194 0.44097 52.456 52.168 52.609 0.26228 51 28 2 0 0 0 0.057744 3 23835 23765;23835;23886 43.858 18.459 1 947880 39115 1547 24826 24907 44051;44052;44053 44052 -0.05339413207434518 YPNGPDYQL 9 Unmodified _YPNGPDYQL_ 0 0 0 ENSG00000120075|ENST00000239151|HOXB5;ENSG00000106004|ENST00000222726|HOXA5 ENSG00000120075|ENST00000239151|HOXB5 ENSG00000120075|ENST00000239151|HOXB5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 533.7476196289062 2 533.745639 1065.47673 3.0591 0.0016328 0.10004 5.3398E-05 3.1591 0.0016862 533.745746402549 51.73 0.57599 52.392 52.004 52.58 0.66198 64 33 3 0 0 0 0.038142 3 23625 23574;23625;23676 52.268 24.601 1 875960 39116 1547 24826 24907 44054;44055;44056 44055 -0.05339413207434518 YPNKYESII 9 Unmodified _YPNKYESII_ 0 0 0 nc|ENSG00000006125|P63010-3|AP2B1;nc|ENSG00000006125|P63010|AP2B1;ENSG00000006125|ENST00000610402|AP2B1 nc|ENSG00000006125|P63010-3|AP2B1 nc|ENSG00000006125|P63010-3|AP2B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 563.7955932617188 2 563.792589 1125.57063 3.3458 0.0018863 0.3452 0.00019462 3.691 0.002081 563.7930915245838 48.004 0.23661 48.004 47.955 48.192 0 15 10 2 0 0 0 0.36069 1 22025 22025 14.838 0 1 285250 39117 343 24827 24908 44057 44057 0.012863058948596517 YPNKYESII 9 Unmodified _YPNKYESII_ 0 0 0 nc|ENSG00000006125|P63010-3|AP2B1;nc|ENSG00000006125|P63010|AP2B1;ENSG00000006125|ENST00000610402|AP2B1 nc|ENSG00000006125|P63010-3|AP2B1 nc|ENSG00000006125|P63010-3|AP2B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 563.7940673828125 2 563.792589 1125.57063 3.2712 0.0018443 1.1315 0.00063796 4.4027 0.0024822 563.792955712756 46.858 0.27618 47.688 47.544 47.821 0.82915 16 10 2 0 0 0 0.11458 1 21366 21366 29.082 3.6823 1 243770 39118 343 24827 24908 44058 44058 0.012863058948596517 YPNKYESII 9 Unmodified _YPNKYESII_ 0 0 0 nc|ENSG00000006125|P63010-3|AP2B1;nc|ENSG00000006125|P63010|AP2B1;ENSG00000006125|ENST00000610402|AP2B1 nc|ENSG00000006125|P63010-3|AP2B1 nc|ENSG00000006125|P63010-3|AP2B1 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 563.792589 1125.57063 3.3458 0.0018863 0.3452 0.00019462 3.691 0.002081 563.7930915245838 48.004 0.23661 48.004 47.955 48.192 0 0.08597 -0.00019137 NaN 29.082 15 10 2 NaN NaN NaN NaN 0 NaN NaN 0 285250 39119 343 24827 24908 0.012863058948596517 YPNKYESII 9 Unmodified _YPNKYESII_ 0 0 0 nc|ENSG00000006125|P63010-3|AP2B1;nc|ENSG00000006125|P63010|AP2B1;ENSG00000006125|ENST00000610402|AP2B1 nc|ENSG00000006125|P63010-3|AP2B1 nc|ENSG00000006125|P63010-3|AP2B1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 563.792589 1125.57063 3.5521 0.0020026 0.41033 0.00023134 3.9624 0.002234 564.2942637696758 47.409 0.31603 48.063 47.877 48.193 0.65356 0.14468 -0.00011793 NaN 29.082 18 13 2 NaN NaN NaN NaN 0 NaN NaN 0 131970 39120 343 24827 24908 0.012863058948596517 YPNYEQYERD 10 Unmodified _YPNYEQYERD_ 0 0 0 REV__ENSG00000025796|ENST00000369002|SEC63 REV__ENSG00000025796|ENST00000369002|SEC63 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 688.7908935546875 2 688.791306 1375.56806 NaN NaN NaN NaN NaN NaN NaN 55.262 1 56.049 55.549 56.549 0.78711 0 0 0 0.99983 1 25226 25226 1.8442 0 1 + 39121 10277 24828 24909 44059 44059 -0.10470194300773983 YPPELILI 8 Unmodified _YPPELILI_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.28765869140625 2 479.286411 956.55827 3.257 0.0015611 -0.57502 -0.0002756 2.682 0.0012855 479.2862668312825 43.982 0.18228 44.63 44.541 44.723 0.64872 12 6 3 0 0 0 0.73686 1 20188 20188 2.8892 0 1 493510 + 39122 12747 24829 24910 44060 44060 0.07825314222475299 YPPELILI 8 Unmodified _YPPELILI_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 479.286411 956.55827 2.93 0.0014043 -0.97198 -0.00046586 1.958 0.00093843 479.2856205008089 43.637 0.19952 44.452 44.336 44.536 0.81444 -0.089269 -0.00017887 NaN 2.8892 12 8 2 NaN NaN NaN NaN 0 NaN NaN 0 249580 + 39123 12747 24829 24910 0.07825314222475299 YPPLLGAL 8 Unmodified _YPPLLGAL_ 0 0 0 ENST00000380338.8_1_9:20622330-20622507:-|nuORF ENST00000380338.8_1_9:20622330-20622507:-|nuORF ENST00000380338.8_1_9:20622330-20622507:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.253173828125 2 422.252372 842.49019 NaN NaN NaN NaN NaN NaN NaN 103.07 1 103.39 102.89 103.89 0.31863 0 0 0 0.99035 1 47663 47663 0.79363 0 1 39124 7466 24830 24911 44061 44061 0.06264489362479253 YPPLRAFTSKK 11 Unmodified _YPPLRAFTSKK_ 0 0 0 REV__ENSG00000006116|ENST00000005284|CACNG3 REV__ENSG00000006116|ENST00000005284|CACNG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 654.3756103515625 2 654.377155 1306.73976 NaN NaN NaN NaN NaN NaN NaN 60.995 1 61.658 61.158 62.158 0.66261 0 0 0 0.9645 1 27928 27928 10.074 2.1638 1 + 39125 10187 24831 24912 44062 44062 0.09865627248200326 YPPLTKLYS 9 Unmodified _YPPLTKLYS_ 0 0 0 REV__nc|ENSG00000165359|Q5JSJ4|INTS6L REV__nc|ENSG00000165359|Q5JSJ4|INTS6L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 541.3011474609375 2 541.30005 1080.58555 NaN NaN NaN NaN NaN NaN NaN 64.673 1 64.921 64.421 65.421 0.24803 0 0 0 0.7971 1 29628 29628 9.3474 0.75416 1 + 39126 13155 24832 24913 44063 44063 0.04847797762818118 YPPPLSEK 8 Unmodified _YPPPLSEK_ 0 0 0 REV__nc|ENSG00000196364|A6NIE9|PRSS29P REV__nc|ENSG00000196364|A6NIE9|PRSS29P MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.75128173828125 2 465.750193 929.485833 2.7381 0.0012753 0.00031569 1.4703E-07 2.7384 0.0012754 465.7500473104825 31.605 0.25833 32.393 32.251 32.51 0.78879 48 21 3 0 0 0 0.39589 1 14232 14232 28.487 5.3384 1 3105500 + 39127 18090 24833 24914 44064 44064 0.01826980148905477 YPPWKRLLFQL 11 Unmodified _YPPWKRLLFQL_ 0 0 0 nc|ENSG00000074855|Q9HCE9-2|ANO8;ENSG00000074855|ENST00000159087|ANO8 nc|ENSG00000074855|Q9HCE9-2|ANO8 nc|ENSG00000074855|Q9HCE9-2|ANO8 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 730.92529296875 2 730.924272 1459.83399 NaN NaN NaN NaN NaN NaN NaN 55.948 1 55.948 55.448 56.448 0 0 0 0 1.008 1 25744 25744 0.35063 0 1 39128 823 24834 24915 44065 44065 0.1224676607037054 YPQQIEPSF 9 Unmodified _YPQQIEPSF_ 0 0 0 ENSG00000124171|ENST00000371610|PARD6B ENSG00000124171|ENST00000371610|PARD6B ENSG00000124171|ENST00000371610|PARD6B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 554.7699584960938 2 554.769114 1107.52368 NaN NaN NaN NaN NaN NaN NaN 58.138 1 58.906 58.406 59.406 0.76861 0 0 0 0.00043233 1 26655 26655 100.37 35.136 1 39129 2343 24835 24916 44066 44066 -0.025785536562807465 YPQQIEPSF 9 Unmodified _YPQQIEPSF_ 0 0 0 ENSG00000124171|ENST00000371610|PARD6B ENSG00000124171|ENST00000371610|PARD6B ENSG00000124171|ENST00000371610|PARD6B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 554.7691040039062 2 554.769114 1107.52368 3.5459 0.0019672 -0.13498 -7.4884E-05 3.411 0.0018923 554.7688881066637 58.762 0.42428 59.024 58.937 59.361 0.26227 60 26 3 0 0 0 0.0023685 4 26890 26890;26938;26987;27034 100.37 44.194 1 1916600 39130 2343 24835 24916 44067;44068;44069;44070 44067 -0.025785536562807465 YPQQIEPSF 9 Unmodified _YPQQIEPSF_ 0 0 0 ENSG00000124171|ENST00000371610|PARD6B ENSG00000124171|ENST00000371610|PARD6B ENSG00000124171|ENST00000371610|PARD6B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 554.7704467773438 2 554.769114 1107.52368 3.547 0.0019677 -0.64595 -0.00035835 2.901 0.0016094 554.7688878696678 58.31 0.3372 58.977 58.952 59.289 0.66703 32 20 2 0 0 0 0.0012997 2 26706 26706;26773 120.45 55.215 1 1940800 39131 2343 24835 24916 44071;44072 44071 -0.025785536562807465 YPQQWHLNNRR 11 Unmodified _YPQQWHLNNRR_ 0 0 0 ENSG00000160613|ENST00000320934|PCSK7 ENSG00000160613|ENST00000320934|PCSK7 ENSG00000160613|ENST00000320934|PCSK7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 756.385986328125 2 756.384365 1510.75418 NaN NaN NaN NaN NaN NaN NaN 65.574 1 66.283 65.783 66.783 0.70891 0 0 0 1.0071 1 31027 31027 1.4819 1.1313 1 39132 4068 24836 24917 44073 44073 0.019230924490784673 YPRHKHLLI 9 Unmodified _YPRHKHLLI_ 0 0 0 nc|ENSG00000132912|Q9UJW0-2|DCTN4;ENSG00000132912|ENST00000447998|DCTN4;nc|ENSG00000132912|Q9UJW0-3|DCTN4 nc|ENSG00000132912|Q9UJW0-2|DCTN4 nc|ENSG00000132912|Q9UJW0-2|DCTN4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 392.9064636230469 3 392.904859 1175.69275 2.917 0.0011461 -0.088018 -3.4583E-05 2.829 0.0011115 392.90511781145165 15.217 0.91779 15.87 15.56 16.478 0.65356 270 111 3 0 0 0 0.30982 3 6865 6782;6865;6910 16.149 3.9744 1 318350 39133 2734 24837 24918 44074;44075;44076 44075 0.11192812487752235 YPRLEFQNDF 10 Unmodified _YPRLEFQNDF_ 0 0 0 nc|ENSG00000204427|O95870-2|ABHD16A nc|ENSG00000204427|O95870-2|ABHD16A nc|ENSG00000204427|O95870-2|ABHD16A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 664.8168334960938 2 664.817127 1327.6197 NaN NaN NaN NaN NaN NaN NaN 30.109 1 30.109 29.609 30.609 0 0 0 0 0.99983 1 13599 13599 1.8442 0 1 39134 9814 24838 24919 44077 44077 -0.031004058162125148 YPRLKVLAF 9 Unmodified _YPRLKVLAF_ 0 0 0 nc|ENSG00000119777|Q6NUQ4-2|TMEM214;ENSG00000119777|ENST00000238788|TMEM214;ENST00000460904.1_1_2:27259408-27260666:+|nuORF nc|ENSG00000119777|Q6NUQ4-2|TMEM214 nc|ENSG00000119777|Q6NUQ4-2|TMEM214 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 553.8414916992188 2 553.839677 1105.6648 3.5299 0.001955 -0.29048 -0.00016088 3.2394 0.0017941 553.8394845133072 59.643 0.40771 60.308 60.01 60.418 0.66503 27 17 2 0 0 0 0.22507 1 27328 27328 21.747 4.8044 1 593390 39135 2167 24839 24920 44078 44078 0.11619489507643266 YPRLKVLAF 9 Unmodified _YPRLKVLAF_ 0 0 0 nc|ENSG00000119777|Q6NUQ4-2|TMEM214;ENSG00000119777|ENST00000238788|TMEM214;ENST00000460904.1_1_2:27259408-27260666:+|nuORF nc|ENSG00000119777|Q6NUQ4-2|TMEM214 nc|ENSG00000119777|Q6NUQ4-2|TMEM214 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 553.839677 1105.6648 3.5908 0.0019887 -0.3769 -0.00020874 3.2139 0.00178 553.8394442491173 60.057 0.51913 60.313 60.06 60.579 0.25578 0.0024787 -4.9223E-05 NaN 21.747 37 24 2 NaN NaN NaN NaN 0 NaN NaN 0 375490 39136 2167 24839 24920 0.11619489507643266 YPRLNKYVYVC 11 Unmodified _YPRLNKYVYVC_ 0 0 0 REV__ENST00000524907.5_1_11:66278505-66283058:+|nuORF REV__ENST00000524907.5_1_11:66278505-66283058:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 709.3692016601562 2 709.368472 1416.72239 NaN NaN NaN NaN NaN NaN NaN 85.984 1 86.654 86.154 87.154 0.67061 0 0 0 1.0071 1 39594 39594 1.4819 0 1 + 39137 13633 24840 24921 44079 44079 0.030699636509098127 YPRPRDTSF 9 Unmodified _YPRPRDTSF_ 0 0 0 ENSG00000137288|ENST00000607484|UQCC2 ENSG00000137288|ENST00000607484|UQCC2 ENSG00000137288|ENST00000607484|UQCC2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 380.1939697265625 3 380.192845 1137.55671 NaN NaN NaN NaN NaN NaN NaN 25.062 1 25.33 24.83 25.83 0.26777 0 0 0 0.79105 1 11369 11369 9.544 0.79857 1 39138 3010 24841 24922 44080 44080 -0.006569268135990569 YPRRTMHEQY 10 Unmodified _YPRRTMHEQY_ 0 0 0 ENST00000300452.7_1_9:131096069-131096330:+|nuORF ENST00000300452.7_1_9:131096069-131096330:+|nuORF ENST00000300452.7_1_9:131096069-131096330:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 690.8272705078125 2 690.827503 1379.64045 NaN NaN NaN NaN NaN NaN NaN 58.205 1 58.974 58.474 59.474 0.76861 0 0 0 0.99733 1 26688 26688 3.9444 0.66309 1 39139 6795 24842 24923 44081 44081 -0.03418138708184415 YPSEQEKAL 9 Unmodified _YPSEQEKAL_ 0 0 0 nc|ENSG00000177426|Q15583-4|TGIF1;ENSG00000177426|ENST00000343820|TGIF1;nc|ENSG00000177426|Q15583-3|TGIF1;nc|ENSG00000177426|Q15583|TGIF1 nc|ENSG00000177426|Q15583-4|TGIF1 nc|ENSG00000177426|Q15583-4|TGIF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 532.76806640625 2 532.766571 1063.51859 NaN NaN NaN NaN NaN NaN NaN 22.926 1 23.611 23.111 24.111 0.68536 0 0 0 0.056931 1 10208 10208 51.488 23.315 1 39140 5118 24843 24924 44082 44082 -0.010628575189002731 YPSEQEKAL 9 Unmodified _YPSEQEKAL_ 0 0 0 nc|ENSG00000177426|Q15583-4|TGIF1;ENSG00000177426|ENST00000343820|TGIF1;nc|ENSG00000177426|Q15583-3|TGIF1;nc|ENSG00000177426|Q15583|TGIF1 nc|ENSG00000177426|Q15583-4|TGIF1 nc|ENSG00000177426|Q15583-4|TGIF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 532.76953125 2 532.766571 1063.51859 NaN NaN NaN NaN NaN NaN NaN 23.022 1 23.708 23.208 24.208 0.68536 0 0 0 0.2842 1 10254 10254 27.629 6.7576 1 39141 5118 24843 24924 44083 44083 -0.010628575189002731 YPSEQEKAL 9 Unmodified _YPSEQEKAL_ 0 0 0 nc|ENSG00000177426|Q15583-4|TGIF1;ENSG00000177426|ENST00000343820|TGIF1;nc|ENSG00000177426|Q15583-3|TGIF1;nc|ENSG00000177426|Q15583|TGIF1 nc|ENSG00000177426|Q15583-4|TGIF1 nc|ENSG00000177426|Q15583-4|TGIF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 532.7685546875 2 532.766571 1063.51859 NaN NaN NaN NaN NaN NaN NaN 23.137 1 23.778 23.278 24.278 0.64051 0 0 0 0.026993 1 10554 10554 61.09 24.624 1 39142 5118 24843 24924 44084 44084 -0.010628575189002731 YPSEQEKLSL 10 Unmodified _YPSEQEKLSL_ 0 0 0 nc|ENSG00000118707|Q9GZN2-2|TGIF2;ENSG00000118707|ENST00000373872|TGIF2 nc|ENSG00000118707|Q9GZN2-2|TGIF2 nc|ENSG00000118707|Q9GZN2-2|TGIF2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.3087768554688 2 597.306061 1192.59757 3.6612 0.0021868 0.59426 0.00035496 4.2554 0.0025418 597.3066332476006 43.605 0.28173 43.874 43.701 43.983 0.2694 12 8 2 0 0 0 0.17471 1 19923 19923 42.312 23.055 1 226730 39143 2122 24844 24925 44085 44085 0.008973697153805915 YPSEQEKLSL 10 Unmodified _YPSEQEKLSL_ 0 0 0 nc|ENSG00000118707|Q9GZN2-2|TGIF2;ENSG00000118707|ENST00000373872|TGIF2 nc|ENSG00000118707|Q9GZN2-2|TGIF2 nc|ENSG00000118707|Q9GZN2-2|TGIF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.3077392578125 2 597.306061 1192.59757 NaN NaN NaN NaN NaN NaN NaN 43.065 1 43.714 43.214 44.214 0.64872 0 0 0 0.79701 1 19733 19733 22.658 7.4096 1 39144 2122 24844 24925 44086 44086 0.008973697153805915 YPSEVEHMF 9 Unmodified _YPSEVEHMF_ 0 0 0 ENSG00000119630|ENST00000555567|PGF;nc|ENSG00000119630|P49763-4|PGF;ENST00000555234.1_1_14:75415208-75421922:-|nuORF;ENST00000556939.5_1_14:75415208-75421945:-|nuORF;nc|ENSG00000119630|P49763-2|PGF;nc|ENSG00000119630|P49763|PGF ENSG00000119630|ENST00000555567|PGF ENSG00000119630|ENST00000555567|PGF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.7493896484375 2 569.747324 1137.4801 3.8727 0.0022064 -0.60182 -0.00034288 3.2709 0.0018636 569.7470966085021 53.94 0.57314 53.94 53.62 54.193 0 107 43 3 0 0 0 3.957E-14 4 24699 24638;24699;24746;24803 171.47 131.51 1 2523700 39145 2153 24845 24926 44087;44088;44089;44090 44088 -0.08314486425069845 YPSEVEHMF 9 Unmodified _YPSEVEHMF_ 0 0 0 ENSG00000119630|ENST00000555567|PGF;nc|ENSG00000119630|P49763-4|PGF;ENST00000555234.1_1_14:75415208-75421922:-|nuORF;ENST00000556939.5_1_14:75415208-75421945:-|nuORF;nc|ENSG00000119630|P49763-2|PGF;nc|ENSG00000119630|P49763|PGF ENSG00000119630|ENST00000555567|PGF ENSG00000119630|ENST00000555567|PGF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.748779296875 2 569.747324 1137.4801 3.3182 0.0018905 -0.49725 -0.0002833 2.821 0.0016072 569.7470957328457 52.846 0.80864 53.649 53.064 53.873 0.8035 127 54 3 0 0 0 1.1247E-09 7 24107 23865;23913;23964;24015;24062;24107;24173 162.95 128.85 1 2446500 39146 2153 24845 24926 44091;44092;44093;44094;44095;44096;44097 44096 -0.08314486425069845 YPSEVEHMF 9 Unmodified _YPSEVEHMF_ 0 0 0 ENSG00000119630|ENST00000555567|PGF;nc|ENSG00000119630|P49763-4|PGF;ENST00000555234.1_1_14:75415208-75421922:-|nuORF;ENST00000556939.5_1_14:75415208-75421945:-|nuORF;nc|ENSG00000119630|P49763-2|PGF;nc|ENSG00000119630|P49763|PGF ENSG00000119630|ENST00000555567|PGF ENSG00000119630|ENST00000555567|PGF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.7492065429688 2 569.747324 1137.4801 3.4513 0.0019663 -0.31509 -0.00017952 3.1362 0.0017868 569.7471702480369 53.401 0.59509 54.065 53.568 54.163 0.6644 58 24 3 0 0 0 4.7721999999999996E-21 4 24389 24285;24338;24389;24446 179.23 137.14 1 2164300 39147 2153 24845 24926 44098;44099;44100;44101 44100 -0.08314486425069845 YPSFYWPKL 9 Unmodified _YPSFYWPKL_ 0 0 0 REV__ENST00000527544.5_1_11:65480238-65482390:+|nuORF REV__ENST00000527544.5_1_11:65480238-65482390:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 400.87481689453125 3 400.874454 1199.60153 NaN NaN NaN NaN NaN NaN NaN 12.898 1 12.898 12.398 13.398 0 0 0 0 0.91206 1 5629 5629 0.26902 0 1 + 39148 13577 24846 24927 44102 44102 0.009715039997445274 YPSKDENEN 9 Unmodified _YPSKDENEN_ 0 0 0 REV__nc|ENSG00000151067|Q13936-2|CACNA1C REV__nc|ENSG00000151067|Q13936-2|CACNA1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.2335205078125 2 548.233093 1094.45163 3.444 0.0018881 -1.7294 -0.00094809 1.7146 0.00094001 548.2319747086441 38.254 0.53417 38.519 38.156 38.69 0.26408 23 16 2 0 0 0 0.29523 1 17445 17445 17.113 4.0704 1 497640 + 39149 12604 24847 24928 44103 44103 -0.0918151280066013 YPSKDENEN 9 Unmodified _YPSKDENEN_ 0 0 0 REV__nc|ENSG00000151067|Q13936-2|CACNA1C REV__nc|ENSG00000151067|Q13936-2|CACNA1C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.2344360351562 2 548.233093 1094.45163 3.4347 0.001883 -1.5207 -0.00083367 1.9141 0.0010494 548.2320528450979 37.645 0.63824 38.279 37.943 38.581 0.63388 36 21 2 0 0 0 0.5141 1 17251 17251 12.241 3.4953 1 295610 + 39150 12604 24847 24928 44104 44104 -0.0918151280066013 YPSKDENEN 9 Unmodified _YPSKDENEN_ 0 0 0 REV__nc|ENSG00000151067|Q13936-2|CACNA1C REV__nc|ENSG00000151067|Q13936-2|CACNA1C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 548.233093 1094.45163 3.6971 0.0020269 -1.9386 -0.0010628 1.7585 0.00096406 548.2321888236443 38.354 0.61946 38.354 37.91 38.529 0 0.0436 0.00014 NaN 17.113 42 24 2 NaN NaN NaN NaN 0 NaN NaN 0 1050300 + 39151 12604 24847 24928 -0.0918151280066013 YPSKDENEN 9 Unmodified _YPSKDENEN_ 0 0 0 REV__nc|ENSG00000151067|Q13936-2|CACNA1C REV__nc|ENSG00000151067|Q13936-2|CACNA1C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 548.233093 1094.45163 3.444 0.0018881 -1.7294 -0.00094809 1.7146 0.00094001 548.2319747086441 38.254 0.53417 38.519 38.156 38.69 0.26408 0.20788 0.00036943 NaN 17.113 23 16 2 NaN NaN NaN NaN 0 NaN NaN 0 497640 + 39152 12604 24847 24928 -0.0918151280066013 YPSKDENEN 9 Unmodified _YPSKDENEN_ 0 0 0 REV__nc|ENSG00000151067|Q13936-2|CACNA1C REV__nc|ENSG00000151067|Q13936-2|CACNA1C MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 548.233093 1094.45163 3.4347 0.001883 -1.5207 -0.00083367 1.9141 0.0010494 548.2320528450979 37.645 0.63824 38.279 37.943 38.581 0.63388 -0.031941 0.00059826 NaN 17.113 36 21 2 NaN NaN NaN NaN 0 NaN NaN 0 295610 + 39153 12604 24847 24928 -0.0918151280066013 YPSKQFDVL 9 Unmodified _YPSKQFDVL_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1;ENST00000461353.1_1_1:19545799-19546215:-|nuORF nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 548.7896728515625 2 548.787307 1095.56006 3.6787 0.0020188 -0.31546 -0.00017312 3.3632 0.0018457 548.7871155864163 51.817 1.0118 51.817 51.308 52.32 0 164 68 3 0 0 0 1.3294E-08 7 23726 23574;23627;23682;23726;23774;23830;23885 152.89 90.313 1 3348500 39154 2480 24848 24929 44105;44106;44107;44108;44109;44110;44111 44108 0.016103232404248047 YPSKQFDVL 9 Unmodified _YPSKQFDVL_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1;ENST00000461353.1_1_1:19545799-19546215:-|nuORF nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 548.7896118164062 2 548.787307 1095.56006 2.9687 0.0016292 0.24201 0.00013281 3.2107 0.001762 548.7874925644893 50.75 0.84238 51.567 51.239 52.081 0.81738 130 50 4 0 0 0 0.00076206 6 23106 23058;23106;23155;23201;23260;23318 128.93 85.074 1 2991800 39155 2480 24848 24929 44112;44113;44114;44115;44116;44117 44113 0.016103232404248047 YPSKQFDVL 9 Unmodified _YPSKQFDVL_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1;ENST00000461353.1_1_1:19545799-19546215:-|nuORF nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 548.7890014648438 2 548.787307 1095.56006 3.4344 0.0018848 0.14558 7.9895E-05 3.58 0.0019647 548.7872885483406 51.551 0.91872 51.813 51.566 52.485 0.26228 141 60 3 0 0 0 6.4275E-06 8 23547 23502;23547;23595;23642;23688;23736;23795;23853 148.27 89.589 1 3451600 39156 2480 24848 24929 44118;44119;44120;44121;44122;44123;44124;44125 44119 0.016103232404248047 YPSKQFDVL 9 Unmodified _YPSKQFDVL_ 0 0 0 nc|ENSG00000127463|Q8N766-4|EMC1;nc|ENSG00000127463|Q8N766-3|EMC1;nc|ENSG00000127463|Q8N766-2|EMC1;ENSG00000127463|ENST00000477853|EMC1;ENST00000461353.1_1_1:19545799-19546215:-|nuORF nc|ENSG00000127463|Q8N766-4|EMC1 nc|ENSG00000127463|Q8N766-4|EMC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 548.7896728515625 2 548.787307 1095.56006 3.3592 0.0018435 0.36647 0.00020111 3.7257 0.0020446 548.7874124309277 51.127 1.127 51.787 51.253 52.38 0.65956 161 67 3 0 0 0 0.0011142 8 23293 23245;23293;23340;23385;23428;23471;23521;23576 125.04 75.105 1 3393500 39157 2480 24848 24929 44126;44127;44128;44129;44130;44131;44132;44133 44127 0.016103232404248047 YPSMSDPYL 9 Unmodified _YPSMSDPYL_ 0 0 0 ENSG00000149658|ENST00000370339|YTHDF1 ENSG00000149658|ENST00000370339|YTHDF1 ENSG00000149658|ENST00000370339|YTHDF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.7376708984375 2 536.736425 1071.4583 3.0929 0.0016601 0.40476 0.00021725 3.4976 0.0018773 536.7369459889348 65.183 0.21333 65.431 65.375 65.588 0.24802 21 11 2 0 0 0 0.086747 2 29885 29885;29898 36.044 16.605 1 321830 39158 3656 24849 24930 44134;44135 44134 -0.07457291173636804 YPSMSDPYL 9 Unmodified _YPSMSDPYL_ 0 0 0 ENSG00000149658|ENST00000370339|YTHDF1 ENSG00000149658|ENST00000370339|YTHDF1 ENSG00000149658|ENST00000370339|YTHDF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.7383422851562 2 536.736425 1071.4583 3.3317 0.0017883 -1.1863 -0.00063675 2.1454 0.0011515 536.7361939336535 64.751 0.19481 65.408 65.294 65.489 0.65672 12 8 2 0 0 0 0.086747 2 29691 29635;29691 36.044 21.463 1 425730 39159 3656 24849 24930 44136;44137 44137 -0.07457291173636804 YPSMSDPYL 9 Unmodified _YPSMSDPYL_ 0 0 0 ENSG00000149658|ENST00000370339|YTHDF1 ENSG00000149658|ENST00000370339|YTHDF1 ENSG00000149658|ENST00000370339|YTHDF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.7380981445312 2 536.736425 1071.4583 NaN NaN NaN NaN NaN NaN NaN 64.814 1 65.47 64.97 65.97 0.65672 0 0 0 0.52667 1 29712 29712 18.135 5.6034 1 39160 3656 24849 24930 44138 44138 -0.07457291173636804 YPSSEIQL 8 Unmodified _YPSSEIQL_ 0 0 0 nc|ENSG00000115145|O75886-2|STAM2;ENST00000463854.5_1_2:152988626-153032156:-|nuORF;ENST00000482997.5_1_2:152982712-153032156:-|nuORF;ENSG00000115145|ENST00000263904|STAM2 nc|ENSG00000115145|O75886-2|STAM2 nc|ENSG00000115145|O75886-2|STAM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 468.7398376464844 2 468.737283 935.460012 NaN NaN NaN NaN NaN NaN NaN 57.104 1 57.368 56.868 57.868 0.26444 0 0 0 0.10417 1 26133 26133 53.576 17.531 1 39161 1945 24850 24931 44139 44139 -0.010299140933739181 YPSSEIQL 8 Unmodified _YPSSEIQL_ 0 0 0 nc|ENSG00000115145|O75886-2|STAM2;ENST00000463854.5_1_2:152988626-153032156:-|nuORF;ENST00000482997.5_1_2:152982712-153032156:-|nuORF;ENSG00000115145|ENST00000263904|STAM2 nc|ENSG00000115145|O75886-2|STAM2 nc|ENSG00000115145|O75886-2|STAM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 468.7386169433594 2 468.737283 935.460012 NaN NaN NaN NaN NaN NaN NaN 56.491 1 57.159 56.659 57.659 0.66829 0 0 0 0.16934 1 25844 25844 67.035 20.114 1 39162 1945 24850 24931 44140 44140 -0.010299140933739181 YPSSSPMHPC 10 Unmodified _YPSSSPMHPC_ 0 0 0 ENST00000528984.5_1_11:46678586-46685654:+|nuORF;ENST00000534610.5_1_11:46665841-46681092:+|nuORF;nc|ENSG00000175224|O75143-4|ATG13;nc|ENSG00000175224|O75143-3|ATG13;nc|ENSG00000175224|O75143-2|ATG13;nc|ENSG00000175224|O75143|ATG13;ENSG00000175224|ENST00000683050|ATG13 ENST00000528984.5_1_11:46678586-46685654:+|nuORF ENST00000528984.5_1_11:46678586-46685654:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 553.2236938476562 2 553.225702 1104.43685 NaN NaN NaN NaN NaN NaN NaN 61.228 1 61.228 60.728 61.728 0 0 0 0 0.99687 1 28539 28539 4.3292 0.73274 1 39163 5022 24851 24932 44141 44141 -0.11118999474001612 YPSTPEPCA 9 Carbamidomethyl (C) _YPSTPEPC(Carbamidomethyl (C))A_ YPSTPEPC(1)A YPSTPEPC(42)A 0 1 0 ENST00000511041.1_1_4:129077185-129077356:+|nuORF;nc|ENSG00000175592|P15407-2|FOSL1;ENSG00000175592|ENST00000312562|FOSL1 ENST00000511041.1_1_4:129077185-129077356:+|nuORF ENST00000511041.1_1_4:129077185-129077356:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 511.2208251953125 2 511.2184 1020.42225 NaN NaN NaN NaN NaN NaN NaN 32.524 1 32.779 32.279 33.279 0.25452 0 0 0 0.097886 1 14812 14812 42.095 18.074 1 39164 5039 24852 24933 44142 44142 85 -0.08714748350507762 YPSVTNYLY 9 Unmodified _YPSVTNYLY_ 0 0 0 nc|ENSG00000021826|P31327-2|CPS1;ENSG00000021826|ENST00000233072|CPS1;nc|ENSG00000021826|P31327-3|CPS1 nc|ENSG00000021826|P31327-2|CPS1 nc|ENSG00000021826|P31327-2|CPS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.2539672851562 2 560.27149 1118.52843 NaN NaN NaN NaN NaN NaN NaN 63.014 1 63.263 62.763 63.763 0.24965 0 0 0 0.66907 1 28857 28857 13.508 4.9146 1 39165 462 24853 24934 44143 44143 -0.026096695135038317 YPTEDYKV 8 Unmodified _YPTEDYKV_ 0 0 0 ENST00000561840.1_2_16:88923580-88926055:+|nuORF;ENST00000565309.1_1_16:88925068-88926212:+|nuORF;ENST00000564547.1_1_16:88923507-88925305:+|nuORF;ENSG00000167515|ENST00000696289|TRAPPC2L;nc|ENSG00000167515|Q9UL33|TRAPPC2L ENST00000561840.1_2_16:88923580-88926055:+|nuORF ENST00000561840.1_2_16:88923580-88926055:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 507.3101501464844 2 507.742565 1013.47058 3.3152 0.0016833 -0.25058 -0.00012723 3.0646 0.001556 507.74231252826695 33.487 0.092155 33.741 33.685 33.777 0.25389 6 4 2 0 0 0 0.14021 1 15227 15227 7.9102 5.0209 1 95574 39166 4557 24854 24935 44144 44144 -0.03561931438946431 YPTNSDFEL 9 Unmodified _YPTNSDFEL_ 0 0 0 ENST00000374308.1_1_9:114355204-114361641:-|nuORF;ENST00000374313.5_1_9:114355204-114361983:-|nuORF;nc|ENSG00000106853|Q14914-2|PTGR1;ENSG00000106853|ENST00000407693|PTGR1 ENST00000374308.1_1_9:114355204-114361641:-|nuORF ENST00000374308.1_1_9:114355204-114361641:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 543.2443237304688 2 543.242929 1084.47131 3.2139 0.0017459 -0.061711 -3.3524E-05 3.1522 0.0017124 543.2427682763218 63.876 0.68318 64.124 63.878 64.561 0.24802 80 42 2 0 0 0 0.010018 5 29269 29174;29218;29269;29318;29437 81.89 20.533 1 1105600 39167 1586 24855 24936 44145;44146;44147;44148;44149 44147 -0.06755136789888638 YPTNSDFEL 9 Unmodified _YPTNSDFEL_ 0 0 0 ENST00000374308.1_1_9:114355204-114361641:-|nuORF;ENST00000374313.5_1_9:114355204-114361983:-|nuORF;nc|ENSG00000106853|Q14914-2|PTGR1;ENSG00000106853|ENST00000407693|PTGR1 ENST00000374308.1_1_9:114355204-114361641:-|nuORF ENST00000374308.1_1_9:114355204-114361641:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 543.2437744140625 2 543.242929 1084.47131 3.388 0.0018405 -0.24827 -0.00013487 3.1398 0.0017057 543.7441832284302 63.363 0.67588 64.021 63.691 64.367 0.65808 83 45 2 0 0 0 0.017293 4 29037 28975;29037;29087;29133 71.922 35.878 1 1470300 39168 1586 24855 24936 44150;44151;44152;44153 44151 -0.06755136789888638 YPTNSDFEL 9 Unmodified _YPTNSDFEL_ 0 0 0 ENST00000374308.1_1_9:114355204-114361641:-|nuORF;ENST00000374313.5_1_9:114355204-114361983:-|nuORF;nc|ENSG00000106853|Q14914-2|PTGR1;ENSG00000106853|ENST00000407693|PTGR1 ENST00000374308.1_1_9:114355204-114361641:-|nuORF ENST00000374308.1_1_9:114355204-114361641:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 543.242929 1084.47131 2.6231 0.001425 0.17606 9.5645E-05 2.7991 0.0015206 543.2434247579662 63.073 0.20065 63.796 63.77 63.97 0.72236 -0.18446 0.00034975 NaN 81.89 29 21 2 NaN NaN NaN NaN 0 NaN NaN 0 3041500 39169 1586 24855 24936 -0.06755136789888638 YPTPYPDEL 9 Unmodified _YPTPYPDEL_ 0 0 0 nc|ENSG00000112851|Q96RT1-7|ERBIN;nc|ENSG00000112851|Q96RT1-6|ERBIN;nc|ENSG00000112851|Q96RT1-4|ERBIN;nc|ENSG00000112851|Q96RT1-5|ERBIN;nc|ENSG00000112851|Q96RT1-3|ERBIN;nc|ENSG00000112851|Q96RT1-9|ERBIN;nc|ENSG00000112851|Q96RT1-2|ERBIN;ENSG00000112851|ENST00000284037|ERBIN;nc|ENSG00000112851|Q96RT1-8|ERBIN nc|ENSG00000112851|Q96RT1-7|ERBIN nc|ENSG00000112851|Q96RT1-7|ERBIN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 547.757080078125 2 547.755672 1093.49679 3.459 0.0018947 0.49908 0.00027337 3.958 0.002168 547.7558805996499 61.302 0.33218 61.964 61.757 62.09 0.66261 33 18 2 0 0 0 0.026068 1 28024 28024 60.39 6.814 1 4349500 39170 1823 24856 24937 44154 44154 -0.04621662267481952 YPTPYPDEL 9 Unmodified _YPTPYPDEL_ 0 0 0 nc|ENSG00000112851|Q96RT1-7|ERBIN;nc|ENSG00000112851|Q96RT1-6|ERBIN;nc|ENSG00000112851|Q96RT1-4|ERBIN;nc|ENSG00000112851|Q96RT1-5|ERBIN;nc|ENSG00000112851|Q96RT1-3|ERBIN;nc|ENSG00000112851|Q96RT1-9|ERBIN;nc|ENSG00000112851|Q96RT1-2|ERBIN;ENSG00000112851|ENST00000284037|ERBIN;nc|ENSG00000112851|Q96RT1-8|ERBIN nc|ENSG00000112851|Q96RT1-7|ERBIN nc|ENSG00000112851|Q96RT1-7|ERBIN MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 547.755672 1093.49679 2.7893 0.0015279 0.37559 0.00020573 3.1649 0.0017336 548.2573599294049 61.171 0.048218 61.911 61.885 61.933 0.7396 -0.082243 -0.0001521 NaN 60.39 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1093700 39171 1823 24856 24937 -0.04621662267481952 YPTPYPDEL 9 Unmodified _YPTPYPDEL_ 0 0 0 nc|ENSG00000112851|Q96RT1-7|ERBIN;nc|ENSG00000112851|Q96RT1-6|ERBIN;nc|ENSG00000112851|Q96RT1-4|ERBIN;nc|ENSG00000112851|Q96RT1-5|ERBIN;nc|ENSG00000112851|Q96RT1-3|ERBIN;nc|ENSG00000112851|Q96RT1-9|ERBIN;nc|ENSG00000112851|Q96RT1-2|ERBIN;ENSG00000112851|ENST00000284037|ERBIN;nc|ENSG00000112851|Q96RT1-8|ERBIN nc|ENSG00000112851|Q96RT1-7|ERBIN nc|ENSG00000112851|Q96RT1-7|ERBIN MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 547.755672 1093.49679 3.5546 0.001947 0.53249 0.00029167 4.0871 0.0022387 547.7557653351612 61.852 0.41599 62.104 61.904 62.32 0.25245 0.111 1.9784E-05 NaN 60.39 61 23 3 NaN NaN NaN NaN 0 NaN NaN 0 3577200 39172 1823 24856 24937 -0.04621662267481952 YPTTFYTSL 9 Unmodified _YPTTFYTSL_ 0 0 0 ENSG00000233056|ENST00000447535|ERVH48-1 ENSG00000233056|ENST00000447535|ERVH48-1 ENSG00000233056|ENST00000447535|ERVH48-1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 546.7697143554688 2 546.76604 1091.51753 NaN NaN NaN NaN NaN NaN NaN 35.487 1 36.113 35.613 36.613 0.62631 0 0 0 0.42757 1 16256 16256 21.747 5.8995 1 39173 6190 24857 24938 44155 44155 -0.024570718878067055 YPTVDSNSL 9 Unmodified _YPTVDSNSL_ 0 0 0 nc|ENSG00000167978|Q9UQ35-2|SRRM2;ENSG00000167978|ENST00000301740|SRRM2;SRRM2|p.R1377Pfs*50|1|0.03|ENSG00000167978|chr16:2764657-2764660|AGAT/-|frameshift_variant nc|ENSG00000167978|Q9UQ35-2|SRRM2 nc|ENSG00000167978|Q9UQ35-2|SRRM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.2384338378906 2 498.237647 994.460741 2.8277 0.0014089 -1.2163 -0.00060602 1.6114 0.00080284 498.2370525175013 47.056 0.55762 47.056 46.673 47.231 0 43 24 2 0 0 0 0.0010612 4 21563 21475;21521;21546;21563 125.62 60.39 1 1514800 39174 4589 24858 24939 44156;44157;44158;44159 44159 -0.03671119444334181 YPTVDSNSL 9 Unmodified _YPTVDSNSL_ 0 0 0 nc|ENSG00000167978|Q9UQ35-2|SRRM2;ENSG00000167978|ENST00000301740|SRRM2;SRRM2|p.R1377Pfs*50|1|0.03|ENSG00000167978|chr16:2764657-2764660|AGAT/-|frameshift_variant nc|ENSG00000167978|Q9UQ35-2|SRRM2 nc|ENSG00000167978|Q9UQ35-2|SRRM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 498.23876953125 2 498.237647 994.460741 3.0029 0.0014962 2.9599 0.0014747 5.9628 0.0029709 498.23771985149676 46.163 0.50533 46.992 46.715 47.22 0.82915 47 25 3 0 0 0 0.0023685 1 20984 20984 100.37 37.799 1 1398900 39175 4589 24858 24939 44160 44160 -0.03671119444334181 YPTVDSNSL 9 Unmodified _YPTVDSNSL_ 0 0 0 nc|ENSG00000167978|Q9UQ35-2|SRRM2;ENSG00000167978|ENST00000301740|SRRM2;SRRM2|p.R1377Pfs*50|1|0.03|ENSG00000167978|chr16:2764657-2764660|AGAT/-|frameshift_variant nc|ENSG00000167978|Q9UQ35-2|SRRM2 nc|ENSG00000167978|Q9UQ35-2|SRRM2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 498.2387390136719 2 498.237647 994.460741 3.4251 0.0017065 2.4675 0.0012294 5.8926 0.0029359 498.2372247668399 46.949 0.49934 47.212 46.922 47.421 0.26363 45 16 4 0 0 0 0.0063783 3 21404 21404;21470;21512 88.904 47.064 1 1539300 39176 4589 24858 24939 44161;44162;44163 44161 -0.03671119444334181 YPTVDSNSL 9 Unmodified _YPTVDSNSL_ 0 0 0 nc|ENSG00000167978|Q9UQ35-2|SRRM2;ENSG00000167978|ENST00000301740|SRRM2;SRRM2|p.R1377Pfs*50|1|0.03|ENSG00000167978|chr16:2764657-2764660|AGAT/-|frameshift_variant nc|ENSG00000167978|Q9UQ35-2|SRRM2 nc|ENSG00000167978|Q9UQ35-2|SRRM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.2375183105469 2 498.237647 994.460741 NaN NaN NaN NaN NaN NaN NaN 46.279 1 46.931 46.431 47.431 0.65219 0 0 0 0.021399 1 21198 21198 71.134 33.16 1 39177 4589 24858 24939 44164 44164 -0.03671119444334181 YPTVDSNSL 9 Unmodified _YPTVDSNSL_ 0 0 0 nc|ENSG00000167978|Q9UQ35-2|SRRM2;ENSG00000167978|ENST00000301740|SRRM2;SRRM2|p.R1377Pfs*50|1|0.03|ENSG00000167978|chr16:2764657-2764660|AGAT/-|frameshift_variant nc|ENSG00000167978|Q9UQ35-2|SRRM2 nc|ENSG00000167978|Q9UQ35-2|SRRM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.2388000488281 2 498.237647 994.460741 NaN NaN NaN NaN NaN NaN NaN 46.395 1 47.047 46.547 47.547 0.65219 0 0 0 2.7258E-05 1 21251 21251 112.59 56.416 1 39178 4589 24858 24939 44165 44165 -0.03671119444334181 YPTVDSNSL 9 Unmodified _YPTVDSNSL_ 0 0 0 nc|ENSG00000167978|Q9UQ35-2|SRRM2;ENSG00000167978|ENST00000301740|SRRM2;SRRM2|p.R1377Pfs*50|1|0.03|ENSG00000167978|chr16:2764657-2764660|AGAT/-|frameshift_variant nc|ENSG00000167978|Q9UQ35-2|SRRM2 nc|ENSG00000167978|Q9UQ35-2|SRRM2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.23944091796875 2 498.237647 994.460741 NaN NaN NaN NaN NaN NaN NaN 46.537 1 47.189 46.689 47.689 0.65219 0 0 0 0.00043233 1 21316 21316 100.37 44.194 1 39179 4589 24858 24939 44166 44166 -0.03671119444334181 YPVDKDMEL 9 Unmodified _YPVDKDMEL_ 0 0 0 ENSG00000147485|ENST00000356297|PXDNL ENSG00000147485|ENST00000356297|PXDNL ENSG00000147485|ENST00000356297|PXDNL MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 555.2640380859375 2 555.262807 1108.51106 3.8295 0.0021264 -0.21154 -0.00011746 3.618 0.0020089 555.2628858323519 46.045 0.26212 46.696 46.567 46.829 0.65104 12 7 2 0 0 0 0.29523 1 21127 21127 17.113 0.1706 1 272590 39180 3568 24859 24940 44167 44167 -0.03885333110838474 YPVDLGDKF 9 Unmodified _YPVDLGDKF_ 0 0 0 nc|ENSG00000163882|P52434-4|POLR2H;nc|ENSG00000163882|P52434-3|POLR2H;ENSG00000163882|ENST00000456318|POLR2H;nc|ENSG00000163882|P52434-5|POLR2H;nc|ENSG00000163882|P52434-2|POLR2H nc|ENSG00000163882|P52434-4|POLR2H nc|ENSG00000163882|P52434-4|POLR2H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 527.2673950195312 2 527.266207 1052.51786 3.0062 0.0015851 0.26053 0.00013737 3.2667 0.0017224 527.2663771125035 55.805 0.5363 55.805 55.588 56.125 0 96 39 3 0 0 0 0.0014317 3 25639 25639;25695;25748 110.55 70.595 1 4662400 39181 9720 24860 24941 44168;44169;44170 44168 -0.006296521679814759 YPVDLGDKF 9 Unmodified _YPVDLGDKF_ 0 0 0 nc|ENSG00000163882|P52434-4|POLR2H;nc|ENSG00000163882|P52434-3|POLR2H;ENSG00000163882|ENST00000456318|POLR2H;nc|ENSG00000163882|P52434-5|POLR2H;nc|ENSG00000163882|P52434-2|POLR2H nc|ENSG00000163882|P52434-4|POLR2H nc|ENSG00000163882|P52434-4|POLR2H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.267333984375 2 527.266207 1052.51786 2.8226 0.0014883 -0.054124 -2.8538E-05 2.7685 0.0014597 527.2662781448059 54.78 0.61091 55.576 55.39 56.001 0.79552 96 38 3 0 0 0 0.00076206 3 24999 24950;24999;25074 128.93 85.074 1 4574100 39182 9720 24860 24941 44171;44172;44173 44172 -0.006296521679814759 YPVDLGDKF 9 Unmodified _YPVDLGDKF_ 0 0 0 nc|ENSG00000163882|P52434-4|POLR2H;nc|ENSG00000163882|P52434-3|POLR2H;ENSG00000163882|ENST00000456318|POLR2H;nc|ENSG00000163882|P52434-5|POLR2H;nc|ENSG00000163882|P52434-2|POLR2H nc|ENSG00000163882|P52434-4|POLR2H nc|ENSG00000163882|P52434-4|POLR2H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 527.2681274414062 2 527.266207 1052.51786 3.1303 0.0016505 0.22948 0.000121 3.3598 0.0017715 527.2663260641566 55.687 0.56453 55.953 55.736 56.301 0.26543 73 29 3 0 0 0 1.3294E-08 4 25463 25414;25463;25519;25566 152.89 102.03 1 5437600 39183 9720 24860 24941 44174;44175;44176;44177 44175 -0.006296521679814759 YPVDLGDKF 9 Unmodified _YPVDLGDKF_ 0 0 0 nc|ENSG00000163882|P52434-4|POLR2H;nc|ENSG00000163882|P52434-3|POLR2H;ENSG00000163882|ENST00000456318|POLR2H;nc|ENSG00000163882|P52434-5|POLR2H;nc|ENSG00000163882|P52434-2|POLR2H nc|ENSG00000163882|P52434-4|POLR2H nc|ENSG00000163882|P52434-4|POLR2H MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.2681884765625 2 527.266207 1052.51786 3.2525 0.0017149 0.57175 0.00030146 3.8243 0.0020164 527.2663784696965 54.967 0.62331 55.634 55.413 56.036 0.66748 95 25 5 0 0 0 0.00076206 4 25158 25103;25158;25215;25277 128.93 82.911 1 4561900 39184 9720 24860 24941 44178;44179;44180;44181 44179 -0.006296521679814759 YPVEHPDKF 9 Unmodified _YPVEHPDKF_ 0 0 0 ENSG00000165280|ENST00000358901|VCP;ENST00000493886.5_1_9:35057116-35062147:-|nuORF ENSG00000165280|ENST00000358901|VCP ENSG00000165280|ENST00000358901|VCP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 377.85504150390625 3 377.85383 1130.53966 2.9985 0.001133 -0.12861 -4.8597E-05 2.8699 0.0010844 377.85368366836116 27.657 0.34486 27.657 27.519 27.864 0 61 27 3 0 0 0 0.027096 3 12474 12430;12474;12515 59.052 41.61 1 1367800 39185 4385 24861 24942 44182;44183;44184 44183 -0.020388474193850925 YPVEHPDKF 9 Unmodified _YPVEHPDKF_ 0 0 0 ENSG00000165280|ENST00000358901|VCP;ENST00000493886.5_1_9:35057116-35062147:-|nuORF ENSG00000165280|ENST00000358901|VCP ENSG00000165280|ENST00000358901|VCP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 377.8546447753906 3 377.85383 1130.53966 2.4562 0.00092807 -0.0062858 -2.3751E-06 2.4499 0.00092569 377.8538993504293 26.684 0.31168 27.463 27.26 27.572 0.7787 54 24 3 0 0 0 0.039961 2 11983 11941;11983 51.488 38.615 1 1767700 39186 4385 24861 24942 44185;44186 44186 -0.020388474193850925 YPVEHPDKF 9 Unmodified _YPVEHPDKF_ 0 0 0 ENSG00000165280|ENST00000358901|VCP;ENST00000493886.5_1_9:35057116-35062147:-|nuORF ENSG00000165280|ENST00000358901|VCP ENSG00000165280|ENST00000358901|VCP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 377.8548889160156 3 377.85383 1130.53966 2.6806 0.0010129 0.34648 0.00013092 3.0271 0.0011438 377.8538417126044 27.593 0.38161 27.856 27.684 28.066 0.26245 58 27 3 0 0 0 0.056501 2 12579 12532;12579 44.392 32.217 1 1202500 39187 4385 24861 24942 44187;44188 44188 -0.020388474193850925 YPVEHPDKF 9 Unmodified _YPVEHPDKF_ 0 0 0 ENSG00000165280|ENST00000358901|VCP;ENST00000493886.5_1_9:35057116-35062147:-|nuORF ENSG00000165280|ENST00000358901|VCP ENSG00000165280|ENST00000358901|VCP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 566.279541015625 2 566.277106 1130.53966 NaN NaN NaN NaN NaN NaN NaN 27.57 1 27.833 27.333 28.333 0.26245 0 0 0 0.031656 1 12536 12536 55.503 31.482 1 39188 4385 24861 24942 44189 44189 -0.020388474193850925 YPVEHPDKF 9 Unmodified _YPVEHPDKF_ 0 0 0 ENSG00000165280|ENST00000358901|VCP;ENST00000493886.5_1_9:35057116-35062147:-|nuORF ENSG00000165280|ENST00000358901|VCP ENSG00000165280|ENST00000358901|VCP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.2791137695312 2 566.277106 1130.53966 3.4699 0.0019649 0.83673 0.00047382 4.3066 0.0024387 566.2776280896306 27.146 0.38548 27.768 27.625 28.011 0.62179 34 24 2 0 0 0 0.035698 2 12478 12420;12478 49.554 40.171 1 332980 39189 4385 24861 24942 44190;44191 44191 -0.020388474193850925 YPVEHPDKF 9 Unmodified _YPVEHPDKF_ 0 0 0 ENSG00000165280|ENST00000358901|VCP;ENST00000493886.5_1_9:35057116-35062147:-|nuORF ENSG00000165280|ENST00000358901|VCP ENSG00000165280|ENST00000358901|VCP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 377.85479736328125 3 377.85383 1130.53966 2.5972 0.00098137 0.39518 0.00014932 2.9924 0.0011307 377.8538770960711 27.169 0.43292 27.791 27.599 28.032 0.62178 65 28 3 0 0 0 0.0527 3 12468 12423;12468;12516 46.022 30.484 1 956660 39190 4385 24861 24942 44192;44193;44194 44193 -0.020388474193850925 YPVEHPDKF 9 Unmodified _YPVEHPDKF_ 0 0 0 ENSG00000165280|ENST00000358901|VCP;ENST00000493886.5_1_9:35057116-35062147:-|nuORF ENSG00000165280|ENST00000358901|VCP ENSG00000165280|ENST00000358901|VCP MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 566.277106 1130.53966 3.6173 0.0020484 0.40602 0.00022992 4.0234 0.0022783 566.7785334064308 27.653 0.17501 27.653 27.58 27.755 0 -0.057281 -0.0002459 NaN 49.554 22 14 2 NaN NaN NaN NaN 0 NaN NaN 0 562140 39191 4385 24861 24942 -0.020388474193850925 YPVEIHEYL 9 Unmodified _YPVEIHEYL_ 0 0 0 ENSG00000197223|ENST00000410067|C1D;ENST00000485709.1_1_2:68273401-68290109:-|nuORF ENSG00000197223|ENST00000410067|C1D ENSG00000197223|ENST00000410067|C1D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.795166015625 2 581.792589 1161.57063 3.4511 0.0020078 -0.18363 -0.00010684 3.2675 0.001901 581.7926381258336 59.838 0.34727 60.098 59.955 60.302 0.2593 58 19 4 0 0 0 3.957E-14 3 27421 27366;27421;27470 171.47 97.044 1 3900200 39192 5800 24862 24943 44195;44196;44197 44196 -0.003696941051430258 YPVEIHEYL 9 Unmodified _YPVEIHEYL_ 0 0 0 ENSG00000197223|ENST00000410067|C1D;ENST00000485709.1_1_2:68273401-68290109:-|nuORF ENSG00000197223|ENST00000410067|C1D ENSG00000197223|ENST00000410067|C1D MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.7930297851562 2 581.792589 1161.57063 3.6047 0.0020972 -0.50999 -0.00029671 3.0947 0.0018005 581.7923367024077 59.31 0.43148 59.977 59.772 60.203 0.66703 48 18 3 0 0 0 3.957E-14 3 27114 27114;27165;27214 171.47 97.044 1 5824100 39193 5800 24862 24943 44198;44199;44200 44198 -0.003696941051430258 YPVEIHEYL 9 Unmodified _YPVEIHEYL_ 0 0 0 ENSG00000197223|ENST00000410067|C1D;ENST00000485709.1_1_2:68273401-68290109:-|nuORF ENSG00000197223|ENST00000410067|C1D ENSG00000197223|ENST00000410067|C1D MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 581.792589 1161.57063 3.3887 0.0019715 -0.59969 -0.0003489 2.789 0.0016226 581.7921280435371 60.061 0.1448 60.061 60.044 60.189 0 0.015965 -0.00026504 NaN 171.47 24 17 2 NaN NaN NaN NaN 0 NaN NaN 0 6450500 39194 5800 24862 24943 -0.003696941051430258 YPVLRLSPL 9 Unmodified _YPVLRLSPL_ 0 0 0 REV__ENST00000522897.1_1_8:6484760-6565680:-|nuORF REV__ENST00000522897.1_1_8:6484760-6565680:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 529.29541015625 2 529.32386 1056.63317 NaN NaN NaN NaN NaN NaN NaN 57.251 1 58.019 57.519 58.519 0.76861 0 0 0 0.89315 1 26203 26203 5.2307 2.3415 1 + 39195 17058 24863 24944 44201 44201 0.10711496753697247 YPWHMLYL 8 Unmodified _YPWHMLYL_ 0 0 0 REV__ENST00000496999.5_1_1:46016755-46032693:+|nuORF REV__ENST00000496999.5_1_1:46016755-46032693:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 561.7760009765625 2 561.775688 1121.53682 NaN NaN NaN NaN NaN NaN NaN 25.494 1 25.762 25.262 26.262 0.26777 0 0 0 0.64244 1 11571 11571 24.21 7.2677 1 + 39196 11442 24864 24945 44202 44202 -0.01908394077918274 YPWRRRQRWRR 11 Unmodified _YPWRRRQRWRR_ 0 0 0 ENST00000372724.5_1_10:76586363-76598485:+|nuORF ENST00000372724.5_1_10:76586363-76598485:+|nuORF ENST00000372724.5_1_10:76586363-76598485:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 858.480224609375 2 858.48254 1714.95053 NaN NaN NaN NaN NaN NaN NaN 89.19 1 89.19 88.69 89.69 0 0 0 0 1.0082 1 46514 46514 0 0 1 39197 7342 24865 24946 44203 44203 0.12164942133449586 YPYAEEVM 8 Unmodified _YPYAEEVM_ 0 0 0 nc|ENSG00000169919|P08236-3|GUSB;GUSB|p.Q568Lfs*24|1|0.45|ENSG00000169919|chr7:65964403-65964409|TGGTACT/-|frameshift_variant;nc|ENSG00000169919|P08236-2|GUSB;ENSG00000169919|ENST00000304895|GUSB;ENST00000475316.5_1_7:65439511-65446985:-|nuORF nc|ENSG00000169919|P08236-3|GUSB nc|ENSG00000169919|P08236-3|GUSB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 501.220458984375 2 501.217869 1000.42118 3.0454 0.0015264 0.1457 7.303E-05 3.1911 0.0015994 501.21798724502753 54.47 0.61263 54.735 54.27 54.882 0.26462 37 28 2 0 0 0 0.2868 2 24908 24859;24908 36.466 22.958 1 367770 39198 4721 24866 24947 44204;44205 44205 -0.07900962719395466 YPYAEEVM 8 Unmodified _YPYAEEVM_ 0 0 0 nc|ENSG00000169919|P08236-3|GUSB;GUSB|p.Q568Lfs*24|1|0.45|ENSG00000169919|chr7:65964403-65964409|TGGTACT/-|frameshift_variant;nc|ENSG00000169919|P08236-2|GUSB;ENSG00000169919|ENST00000304895|GUSB;ENST00000475316.5_1_7:65439511-65446985:-|nuORF nc|ENSG00000169919|P08236-3|GUSB nc|ENSG00000169919|P08236-3|GUSB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 501.2195129394531 2 501.217869 1000.42118 3.0789 0.0015432 0.20332 0.00010191 3.2822 0.0016451 501.2179264709225 53.771 0.18223 54.435 54.309 54.491 0.6644 15 9 2 0 0 0 0.2868 1 24576 24576 36.466 22.958 1 363630 39199 4721 24866 24947 44206 44206 -0.07900962719395466 YPYAEEVM 8 Unmodified _YPYAEEVM_ 0 0 0 nc|ENSG00000169919|P08236-3|GUSB;GUSB|p.Q568Lfs*24|1|0.45|ENSG00000169919|chr7:65964403-65964409|TGGTACT/-|frameshift_variant;nc|ENSG00000169919|P08236-2|GUSB;ENSG00000169919|ENST00000304895|GUSB;ENST00000475316.5_1_7:65439511-65446985:-|nuORF nc|ENSG00000169919|P08236-3|GUSB nc|ENSG00000169919|P08236-3|GUSB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1001.4343872070312 1 1001.42846 1000.42118 3.512 0.003517 -0.32219 -0.00032265 3.1898 0.0031943 1001.428607012297 53.814 0.27779 54.478 54.238 54.516 0.6644 21 15 2 0 0 0 0.40037 1 24593 24593 28.173 3.4993 1 430740 39200 4721 24866 24947 44207 44207 -0.07900962719395466 YPYDGIHPDDL 11 Unmodified _YPYDGIHPDDL_ 0 0 0 nc|ENSG00000254087|P07948-2|LYN;ENSG00000254087|ENST00000519728|LYN nc|ENSG00000254087|P07948-2|LYN nc|ENSG00000254087|P07948-2|LYN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 652.7957763671875 2 652.793318 1303.57208 NaN NaN NaN NaN NaN NaN NaN 54.948 1 54.948 54.448 55.448 0 0 0 0 0.17431 1 25228 25228 38.176 22.026 1 39201 6276 24867 24948 44208 44208 -0.06756104807050178 YPYDGIHPDDL 11 Unmodified _YPYDGIHPDDL_ 0 0 0 nc|ENSG00000254087|P07948-2|LYN;ENSG00000254087|ENST00000519728|LYN nc|ENSG00000254087|P07948-2|LYN nc|ENSG00000254087|P07948-2|LYN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 652.7971801757812 2 652.793318 1303.57208 3.7908 0.0024746 -0.039437 -2.5744E-05 3.7513 0.0024489 652.7931076468457 54.101 0.2265 54.767 54.654 54.88 0.6665 28 12 3 0 0 0 2.6199E-06 1 24733 24733 99.755 73.487 1 1751900 39202 6276 24867 24948 44209 44209 -0.06756104807050178 YPYDGIHPDDL 11 Unmodified _YPYDGIHPDDL_ 0 0 0 nc|ENSG00000254087|P07948-2|LYN;ENSG00000254087|ENST00000519728|LYN nc|ENSG00000254087|P07948-2|LYN nc|ENSG00000254087|P07948-2|LYN MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 652.793318 1303.57208 3.487 0.0022763 -0.20196 -0.00013184 3.2851 0.0021445 652.793244757451 54.733 0.043739 54.998 54.977 55.021 0.26543 0.11544 -9.8722E-05 NaN 99.755 10 8 2 NaN NaN NaN NaN 0 NaN NaN 0 2577200 39203 6276 24867 24948 -0.06756104807050178 YPYQGREL 8 Unmodified _YPYQGREL_ 0 0 0 REV__ENSG00000137338|ENST00000682144|PGBD1 REV__ENSG00000137338|ENST00000682144|PGBD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 513.2561645507812 2 513.256174 1024.49779 2.5902 0.0013294 0.4068 0.00020879 2.997 0.0015382 513.2562669413201 73.743 0.26411 73.743 73.607 73.871 0 37 24 2 0 0 0 0.61796 1 35945 35945 12.532 0.89125 1 3034100 + 39204 12108 24868 24949 44210 44210 -0.013474031079113047 YPYRRQILYD 10 Unmodified _YPYRRQILYD_ 0 0 0 REV__ENSG00000171316|ENST00000423902|CHD7 REV__ENSG00000171316|ENST00000423902|CHD7 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 693.8621215820312 2 693.861869 1385.70918 NaN NaN NaN NaN NaN NaN NaN 70.328 1 70.99 70.49 71.49 0.66209 0 0 0 0.99983 1 32245 32245 1.8442 0 1 + 39205 13488 24869 24950 44211 44211 0.03175848863202191 YPYRRRIDRVL 11 Unmodified _YPYRRRIDRVL_ 0 0 0 REV__nc|ENSG00000004939|P02730-2|SLC4A1 REV__nc|ENSG00000004939|P02730-2|SLC4A1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 754.0684204101562 2 753.936234 1505.85791 NaN NaN NaN NaN NaN NaN NaN 28.195 1 28.981 28.481 29.481 0.78627 0 0 0 1.008 1 12693 12693 0.30703 0.03801 1 + 39206 10169 24870 24951 44212 44212 0.1252199955672495 YPYTERRWHRW 11 Unmodified _YPYTERRWHRW_ 0 0 0 REV__nc|ENSG00000168907|Q68DD2-2|PLA2G4F REV__nc|ENSG00000168907|Q68DD2-2|PLA2G4F MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 825.5394287109375 2 825.40784 1648.80113 NaN NaN NaN NaN NaN NaN NaN 106.94 1 106.99 106.49 107.49 0.045425 0 0 0 1.008 1 57829 57829 0.26902 0.26902 1 + 39207 13372 24871 24952 44213 44213 0.0026795200021751953 YPYTERRWHRW 11 Unmodified _YPYTERRWHRW_ 0 0 0 REV__nc|ENSG00000168907|Q68DD2-2|PLA2G4F REV__nc|ENSG00000168907|Q68DD2-2|PLA2G4F MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 825.40771484375 2 825.40784 1648.80113 NaN NaN NaN NaN NaN NaN NaN 96.513 1 97.115 96.615 97.615 0.6019 0 0 0 1.0082 1 44375 44375 0 0 1 + 39208 13372 24871 24952 44214 44214 0.0026795200021751953 YPYVTYSF 8 Unmodified _YPYVTYSF_ 0 0 0 ENSG00000169684|ENST00000299565|CHRNA5 ENSG00000169684|ENST00000299565|CHRNA5 ENSG00000169684|ENST00000299565|CHRNA5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.2495727539062 2 520.242201 1038.46985 3.1667 0.0016474 1.1495 0.00059801 4.3161 0.0022454 520.2415080080422 71.051 0.66669 71.309 71.086 71.753 0.25786 196 59 5 0 0 0 0.5047 1 32618 32618 20.871 1.4322 1 4550800 39209 4704 24872 24953 44215 44215 -0.04784726087996205 YPYWALVF 8 Unmodified _YPYWALVF_ 0 0 0 REV__ENST00000273038.7_1_3:11599795-11599936:-|nuORF REV__ENST00000273038.7_1_3:11599795-11599936:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 529.7726440429688 2 529.770929 1057.5273 2.9165 0.0015451 0.06931 3.6718E-05 2.9858 0.0015818 529.7709442175503 33.65 0.27411 33.65 33.595 33.87 0 35 21 2 0 0 0 0.73686 1 15327 15327 2.8892 0 1 576290 + 39210 15067 24873 24954 44216 44216 0.0008416090822720435 YQEEYEEQL 9 Unmodified _YQEEYEEQL_ 0 0 0 REV__ENSG00000204131|ENST00000633930|NHSL2 REV__ENSG00000204131|ENST00000633930|NHSL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 616.0860595703125 2 615.761683 1229.50881 NaN NaN NaN NaN NaN NaN NaN 109.52 1 110.12 109.62 110.62 0.60264 0 0 0 0.91206 1 50508 50508 0.6015 0 1 + 39211 14400 24874 24955 44217 44217 -0.0967609031495158 YQELDQWHYL 10 Unmodified _YQELDQWHYL_ 0 0 0 REV__ENSG00000182858|ENST00000330817|ALG12 REV__ENSG00000182858|ENST00000330817|ALG12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 465.55242919921875 3 465.550698 1393.63027 NaN NaN NaN NaN NaN NaN NaN 47.334 1 48.163 47.663 48.663 0.82915 0 0 0 1.0013 1 21565 21565 0.62683 0.12087 1 + 39212 13907 24875 24956 44218 44218 -0.05080423161757608 YQEYLDCDL 9 Unmodified _YQEYLDCDL_ 0 0 0 ENSG00000198722|ENST00000635942|UNC13B ENSG00000198722|ENST00000635942|UNC13B ENSG00000198722|ENST00000635942|UNC13B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 581.2415771484375 2 581.242072 1160.46959 NaN NaN NaN NaN NaN NaN NaN 86.484 1 86.733 86.233 87.233 0.24974 0 0 0 0.90611 1 39803 39803 2.0598 0.21551 1 39213 5920 24876 24957 44219 44219 -0.1042251387016222 YQFPKRENLLR 11 Unmodified _YQFPKRENLLR_ 0 0 0 ENST00000473682.5_1_1:111740397-111743081:-|nuORF;nc|ENSG00000162777|Q9H6A0-2|DENND2D;ENSG00000162777|ENST00000357640|DENND2D ENST00000473682.5_1_1:111740397-111743081:-|nuORF ENST00000473682.5_1_1:111740397-111743081:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 732.3878173828125 2 732.409518 1462.80448 NaN NaN NaN NaN NaN NaN NaN 59.929 1 60.679 60.179 61.179 0.74927 0 0 0 1.0072 1 27543 27543 1.3295 0 1 39214 4167 24877 24958 44220 44220 0.09159202054229354 YQGLKQEL 8 Unmodified _YQGLKQEL_ 0 0 0 nc|ENSG00000170581|P52630-4|STAT2;ENSG00000170581|ENST00000314128|STAT2;ENST00000556539.5_1_12:56737175-56743495:-|nuORF nc|ENSG00000170581|P52630-4|STAT2 nc|ENSG00000170581|P52630-4|STAT2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.76837158203125 2 489.766374 977.518196 3.1351 0.0015355 -0.17688 -8.6629E-05 2.9582 0.0014488 489.76676605210093 32.374 0.28261 32.992 32.901 33.184 0.61832 17 13 2 0 0 0 0.63902 1 14885 14885 10.824 1.4765 1 147120 39215 4759 24878 24959 44221 44221 0.028537675519032746 YQHKNVLIL 9 Unmodified _YQHKNVLIL_ 0 0 0 TNPO1|p.L546V|1|0.08|ENSG00000083312|chr5:72889892-72889892|C/G|missense_variant TNPO1|p.L546V|1|0.08|ENSG00000083312|chr5:72889892-72889892|C/G|missense_variant TNPO1|p.L546V|1|0.08|ENSG00000083312|chr5:72889892-72889892|C/G|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 376.55810546875 3 376.557236 1126.64988 2.5083 0.00094452 0.014774 5.5632E-06 2.5231 0.00095008 376.5572572197793 36.137 0.20411 36.929 36.844 37.048 0.79254 11 7 2 0 0 0 0.92418 1 16389 16389 5.2969 0 1 300010 39216 18280 24879 24960 44222 44222 0.09161997639648689 YQHKNVLIL 9 Unmodified _YQHKNVLIL_ 0 0 0 TNPO1|p.L546V|1|0.08|ENSG00000083312|chr5:72889892-72889892|C/G|missense_variant TNPO1|p.L546V|1|0.08|ENSG00000083312|chr5:72889892-72889892|C/G|missense_variant TNPO1|p.L546V|1|0.08|ENSG00000083312|chr5:72889892-72889892|C/G|missense_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 376.557236 1126.64988 2.8418 0.0010701 -0.18481 -6.959E-05 2.657 0.0010005 376.5570619551395 37.291 0.12777 37.291 37.219 37.346 0 0.11287 -0.00014738 NaN 5.2969 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 247670 39217 18280 24879 24960 0.09161997639648689 YQHKNVLIL 9 Unmodified _YQHKNVLIL_ 0 0 0 TNPO1|p.L546V|1|0.08|ENSG00000083312|chr5:72889892-72889892|C/G|missense_variant TNPO1|p.L546V|1|0.08|ENSG00000083312|chr5:72889892-72889892|C/G|missense_variant TNPO1|p.L546V|1|0.08|ENSG00000083312|chr5:72889892-72889892|C/G|missense_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 376.557236 1126.64988 2.8879 0.0010875 -0.091322 -3.4388E-05 2.7966 0.0010531 376.55693345051674 37.139 0.31943 37.4 37.252 37.572 0.26083 0.22137 -4.1777E-05 NaN 5.2969 12 9 2 NaN NaN NaN NaN 0 NaN NaN 0 236680 39218 18280 24879 24960 0.09161997639648689 YQHKNVLIL 9 Unmodified _YQHKNVLIL_ 0 0 0 TNPO1|p.L546V|1|0.08|ENSG00000083312|chr5:72889892-72889892|C/G|missense_variant TNPO1|p.L546V|1|0.08|ENSG00000083312|chr5:72889892-72889892|C/G|missense_variant TNPO1|p.L546V|1|0.08|ENSG00000083312|chr5:72889892-72889892|C/G|missense_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 376.557236 1126.64988 2.8091 0.0010578 -0.024815 -9.3441E-06 2.7843 0.0010484 376.5571438565819 36.464 0.21756 37.094 36.95 37.167 0.62999 -0.084875 3.3354E-05 NaN 5.2969 8 6 2 NaN NaN NaN NaN 0 NaN NaN 0 129290 39219 18280 24879 24960 0.09161997639648689 YQKKKLCF 8 Carbamidomethyl (C) _YQKKKLC(Carbamidomethyl (C))F_ YQKKKLC(1)F YQKKKLC(44)F 0 1 0 nc|ENSG00000292348|P14209-2|CD99;nc|ENSG00000292348|P14209-3|CD99;ENSG00000002586|ENST00000381192|CD99 nc|ENSG00000292348|P14209-2|CD99 nc|ENSG00000292348|P14209-2|CD99 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 372.20770263671875 3 372.207438 1113.60049 2.2457 0.00083586 -0.36952 -0.00013754 1.8762 0.00069832 372.20717539865336 13.724 0.099755 13.968 13.889 13.989 0.24346 25 12 3 0 0 0 0.19187 1 5994 5994 43.858 28.61 1 2160000 39220 301 24880 24961 44223 44223 5 0.048229663591882854 YQKKKLCF 8 Carbamidomethyl (C) _YQKKKLC(Carbamidomethyl (C))F_ YQKKKLC(1)F YQKKKLC(48)F 0 1 0 nc|ENSG00000292348|P14209-2|CD99;nc|ENSG00000292348|P14209-3|CD99;ENSG00000002586|ENST00000381192|CD99 nc|ENSG00000292348|P14209-2|CD99 nc|ENSG00000292348|P14209-2|CD99 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.8089599609375 2 557.807519 1113.60049 3.6379 0.0020293 -0.0016147 -9.0072E-07 3.6363 0.0020284 557.8073937975335 13.309 0.25745 13.952 13.836 14.094 0.64272 35 19 2 0 0 0 0.15009 1 6005 6005 48.346 27.892 1 690030 39221 301 24880 24961 44224 44224 5 0.048229663591882854 YQKKKLCF 8 Carbamidomethyl (C) _YQKKKLC(Carbamidomethyl (C))F_ 0 1 0 nc|ENSG00000292348|P14209-2|CD99;nc|ENSG00000292348|P14209-3|CD99;ENSG00000002586|ENST00000381192|CD99 nc|ENSG00000292348|P14209-2|CD99 nc|ENSG00000292348|P14209-2|CD99 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 557.807519 1113.60049 3.4714 0.0019363 0.50181 0.00027991 3.9732 0.0022163 557.8071476765281 14.291 0.080659 14.291 14.25 14.331 0 0.16944 0.00048493 NaN 48.346 11 4 3 NaN NaN NaN NaN 0 NaN NaN 0 277040 39222 301 24880 24961 5 0.048229663591882854 YQKKKLCF 8 Carbamidomethyl (C) _YQKKKLC(Carbamidomethyl (C))F_ 0 1 0 nc|ENSG00000292348|P14209-2|CD99;nc|ENSG00000292348|P14209-3|CD99;ENSG00000002586|ENST00000381192|CD99 nc|ENSG00000292348|P14209-2|CD99 nc|ENSG00000292348|P14209-2|CD99 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 372.207438 1113.60049 2.7986 0.0010417 -0.70429 -0.00026214 2.0943 0.00077953 372.2072096052452 14.299 0.25201 14.299 14.222 14.474 0 0.22242 -0.00015943 NaN 43.858 36 17 4 NaN NaN NaN NaN 0 NaN NaN 0 1509100 39223 301 24880 24961 5 0.048229663591882854 YQKKKLCF 8 Carbamidomethyl (C) _YQKKKLC(Carbamidomethyl (C))F_ 0 1 0 nc|ENSG00000292348|P14209-2|CD99;nc|ENSG00000292348|P14209-3|CD99;ENSG00000002586|ENST00000381192|CD99 nc|ENSG00000292348|P14209-2|CD99 nc|ENSG00000292348|P14209-2|CD99 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 372.207438 1113.60049 2.7633 0.0010285 -0.60905 -0.00022669 2.1543 0.00080185 372.2074531631341 13.32 0.37564 13.963 13.808 14.184 0.64272 -0.11346 -5.3076E-05 NaN 43.858 73 27 4 NaN NaN NaN NaN 0 NaN NaN 0 2535200 39224 301 24880 24961 5 0.048229663591882854 YQKLLERM 8 Unmodified _YQKLLERM_ 0 0 0 ENSG00000120708|ENST00000442011|TGFBI;ENST00000504411.1_1_5:135396881-135398912:+|nuORF ENSG00000120708|ENST00000442011|TGFBI ENSG00000120708|ENST00000442011|TGFBI MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 540.7988891601562 2 540.797152 1079.57975 NaN NaN NaN NaN NaN NaN NaN 38.323 1 38.323 37.823 38.823 0 0 0 0 0.11178 1 17393 17393 51.63 9.7902 1 39225 2210 24881 24962 44225 44225 0.043143759795157166 YQKRFIELYRQ 11 Unmodified _YQKRFIELYRQ_ 0 0 0 ENST00000466171.1_1_2:118694276-118701638:-|nuORF;ENSG00000125633|ENST00000376300|CCDC93 ENST00000466171.1_1_2:118694276-118701638:-|nuORF ENST00000466171.1_1_2:118694276-118701638:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 772.4236450195312 2 772.422625 1542.8307 NaN NaN NaN NaN NaN NaN NaN 74.767 1 74.767 74.267 75.267 0 0 0 0 1.0082 1 36575 36575 0 0 1 39226 2409 24882 24963 44226 44226 0.08099471225682464 YQKVKQRHKR 10 Unmodified _YQKVKQRHKR_ 0 0 0 REV__VPS13A|p.L1845Vfs*28|1|0.03|ENSG00000197969|chr9:77321285-77321286|-/GTACATT|frameshift_variant REV__VPS13A|p.L1845Vfs*28|1|0.03|ENSG00000197969|chr9:77321285-77321286|-/GTACATT|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 685.9117431640625 2 685.910019 1369.80549 4.1579 0.0028519 -1.4602 -0.0010016 2.6977 0.0018504 685.9086240986137 95.443 0.52081 96.051 95.857 96.378 0.60769 50 27 3 0 0 0 0.94246 1 43983 43983 0.40072 0 1 650940 + 39227 14310 24883 24964 44227 44227 0.1353746121376389 YQLIEISRN 9 Unmodified _YQLIEISRN_ 0 0 0 ENSG00000171951|ENST00000305409|SCG2 ENSG00000171951|ENST00000305409|SCG2 ENSG00000171951|ENST00000305409|SCG2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 379.2093200683594 3 379.208384 1134.60332 3.048 0.0011558 -0.3063 -0.00011615 2.7417 0.0010397 379.20824211377845 29.29 0.30606 29.29 29.097 29.403 0 41 23 2 0 0 0 0.59921 1 13244 13244 10.8 0 1 310620 39228 4846 24884 24965 44228 44228 0.04140513017705416 YQLIEISRN 9 Unmodified _YQLIEISRN_ 0 0 0 ENSG00000171951|ENST00000305409|SCG2 ENSG00000171951|ENST00000305409|SCG2 ENSG00000171951|ENST00000305409|SCG2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 379.208384 1134.60332 2.6813 0.0010168 0.0246 9.3283E-06 2.7059 0.0010261 379.2085873391059 28.692 0.20949 29.311 29.203 29.412 0.61947 0.010418 0.00031779 NaN 10.8 15 9 2 NaN NaN NaN NaN 0 NaN NaN 0 176130 39229 4846 24884 24965 0.04140513017705416 YQNWRREFWWS 11 Unmodified _YQNWRREFWWS_ 0 0 0 nc|ENSG00000133816|O94851|MICAL2;ENST00000529028.1_1_11:12297633-12308767:+|nuORF nc|ENSG00000133816|O94851|MICAL2 nc|ENSG00000133816|O94851|MICAL2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 829.385009765625 2 829.386574 1656.75859 NaN NaN NaN NaN NaN NaN NaN 77.426 1 77.426 76.926 77.926 0 0 0 0 1.0082 1 37974 37974 0 0 1 39230 9650 24885 24966 44229 44229 -0.043514431280300414 YQQLYSPTSFT 11 Unmodified _YQQLYSPTSFT_ 0 0 0 REV__ENSG00000235718|ENST00000619721|MFRP REV__ENSG00000235718|ENST00000619721|MFRP MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 667.8165893554688 2 667.816793 1333.61903 3.8149 0.0025477 -3.5518 -0.0023719 0.26317 0.00017575 667.8137489340966 59.845 0.21972 60.105 60.034 60.254 0.2593 15 9 2 0 0 0 0.79438 1 27467 27467 7.1017 0.89594 1 406460 + 39231 14590 24886 24967 44230 44230 -0.034432452559030935 YQRDPLKL 8 Unmodified _YQRDPLKL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 516.7974243164062 2 516.795466 1031.57638 3.3534 0.001733 -0.091145 -4.7103E-05 3.2623 0.0016859 516.7956494185845 37.735 0.27238 38.531 38.419 38.691 0.79552 20 11 2 0 0 0 0.07371 1 17106 17106 57.722 11.701 1 666790 39232 4511 24887 24968 44231 44231 0.061854491971644165 YQRDPLKL 8 Unmodified _YQRDPLKL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 516.795466 1031.57638 3.2746 0.0016923 0.67662 0.00034967 3.9512 0.0020419 516.7959114836818 38.898 0.37233 38.898 38.679 39.051 0 0.14572 0.0003349 NaN 57.722 34 14 3 NaN NaN NaN NaN 0 NaN NaN 0 700670 39233 4511 24887 24968 0.061854491971644165 YQRDPLKL 8 Unmodified _YQRDPLKL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 516.795466 1031.57638 3.2411 0.001675 0.19844 0.00010255 3.4395 0.0017775 516.7962149030367 38.59 0.30904 38.854 38.69 38.999 0.26408 0.10158 -0.00015934 NaN 57.722 19 12 3 NaN NaN NaN NaN 0 NaN NaN 0 557270 39234 4511 24887 24968 0.061854491971644165 YQRDPLKL 8 Unmodified _YQRDPLKL_ 0 0 0 ENSG00000166888|ENST00000300134|STAT6;ENST00000555641.1_1_12:57499966-57502061:-|nuORF ENSG00000166888|ENST00000300134|STAT6 ENSG00000166888|ENST00000300134|STAT6 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 516.795466 1031.57638 3.2558 0.0016826 1.315 0.00067959 4.5708 0.0023622 516.795967640543 38.093 0.28883 38.727 38.553 38.841 0.63388 -0.025812 0.00099474 NaN 57.722 15 11 2 NaN NaN NaN NaN 0 NaN NaN 0 362180 39235 4511 24887 24968 0.061854491971644165 YQRHYYYYRNK 11 Unmodified _YQRHYYYYRNK_ 0 0 0 REV__ENST00000565031.1_1_16:2009625-2011290:+|nuORF REV__ENST00000565031.1_1_16:2009625-2011290:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 827.3975830078125 2 827.399681 1652.78481 NaN NaN NaN NaN NaN NaN NaN 86.08 1 86.08 85.58 86.58 0 0 0 0 1.008 1 44022 44022 0.30703 0.30703 1 + 39236 12273 24888 24969 44232 44232 -0.015471739565555254 YQRHYYYYRNK 11 Unmodified _YQRHYYYYRNK_ 0 0 0 REV__ENST00000565031.1_1_16:2009625-2011290:+|nuORF REV__ENST00000565031.1_1_16:2009625-2011290:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.0279541015625 3 551.935546 1652.78481 NaN NaN NaN NaN NaN NaN NaN 65.705 1 66.414 65.914 66.914 0.70891 0 0 0 1.0082 1 31096 31096 0 0 1 + 39237 12273 24888 24969 44233 44233 -0.015471739565555254 YQRWREERFRQ 11 Unmodified _YQRWREERFRQ_ 0 0 0 ENST00000507723.1_1_5:177021070-177022414:+|nuORF;ENST00000513799.5_1_5:177019550-177022414:+|nuORF;ENSG00000184840|ENST00000332598|TMED9 ENST00000507723.1_1_5:177021070-177022414:+|nuORF ENST00000507723.1_1_5:177021070-177022414:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 551.5093383789062 3 551.950078 1652.82841 NaN NaN NaN NaN NaN NaN NaN 84.215 1 84.215 83.715 84.715 0 0 0 0 1.0082 1 42589 42589 0 0 1 39238 5464 24889 24970 44234 44234 0.02810435540573053 YQRWREERFRQ 11 Unmodified _YQRWREERFRQ_ 0 0 0 ENST00000507723.1_1_5:177021070-177022414:+|nuORF;ENST00000513799.5_1_5:177019550-177022414:+|nuORF;ENSG00000184840|ENST00000332598|TMED9 ENST00000507723.1_1_5:177021070-177022414:+|nuORF ENST00000507723.1_1_5:177021070-177022414:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 551.9132080078125 3 551.950078 1652.82841 NaN NaN NaN NaN NaN NaN NaN 96.421 1 96.497 95.997 96.997 0.076538 0 0 0 1.0082 1 51236 51236 0 0 1 39239 5464 24889 24970 44235 44235 0.02810435540573053 YQSCCSCMCD 10 Unmodified _YQSCCSCMCD_ 0 0 0 ENSG00000172538|ENST00000311787|FAM170B ENSG00000172538|ENST00000311787|FAM170B ENSG00000172538|ENST00000311787|FAM170B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 571.6251831054688 2 571.657623 1141.30069 NaN NaN NaN NaN NaN NaN NaN 49.685 1 49.685 49.185 50.185 0 0 0 0 1.0016 1 22749 22749 0.35063 0.35063 1 39240 4878 24890 24971 44236 44236 -0.2643052136284041 YQSCCSCMCD 10 Unmodified _YQSCCSCMCD_ 0 0 0 ENSG00000172538|ENST00000311787|FAM170B ENSG00000172538|ENST00000311787|FAM170B ENSG00000172538|ENST00000311787|FAM170B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 571.6603393554688 2 571.657623 1141.30069 NaN NaN NaN NaN NaN NaN NaN 13.865 1 14.109 13.609 14.609 0.24346 0 0 0 1.002 1 6079 6079 0 0 1 39241 4878 24890 24971 44237 44237 -0.2643052136284041 YQSKYEEL 8 Unmodified _YQSKYEEL_ 0 0 0 ENSG00000167768|ENST00000252244|KRT1;CON__P04264 ENSG00000167768|ENST00000252244|KRT1 ENSG00000167768|ENST00000252244|KRT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 530.2550048828125 2 530.253297 1058.49204 3.1916 0.0016924 0.53154 0.00028185 3.7231 0.0019742 530.2535539664407 28.564 0.19575 29.353 29.215 29.411 0.78921 25 15 2 0 0 0 0.17473 1 12850 12850 45.7 15.063 1 304830 + 39242 4579 24891 24972 44238 44238 -0.03486546410226765 YQSKYEEL 8 Unmodified _YQSKYEEL_ 0 0 0 ENSG00000167768|ENST00000252244|KRT1;CON__P04264 ENSG00000167768|ENST00000252244|KRT1 ENSG00000167768|ENST00000252244|KRT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 530.253297 1058.49204 3.3785 0.0017915 1.0182 0.00053989 4.3967 0.0023314 530.2535027559545 29.732 0.18461 29.732 29.603 29.787 0 0.074166 0.00049882 NaN 45.7 20 14 2 NaN NaN NaN NaN 0 NaN NaN 0 527020 + 39243 4579 24891 24972 -0.03486546410226765 YQSKYEEL 8 Unmodified _YQSKYEEL_ 0 0 0 ENSG00000167768|ENST00000252244|KRT1;CON__P04264 ENSG00000167768|ENST00000252244|KRT1 ENSG00000167768|ENST00000252244|KRT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 530.253297 1058.49204 3.3239 0.0017625 0.74426 0.00039464 4.0681 0.0021571 530.2535946220802 29.52 0.28326 29.778 29.613 29.896 0.25804 0.1204 0.00020833 NaN 45.7 28 17 2 NaN NaN NaN NaN 0 NaN NaN 0 198820 + 39244 4579 24891 24972 -0.03486546410226765 YQSKYEEL 8 Unmodified _YQSKYEEL_ 0 0 0 ENSG00000167768|ENST00000252244|KRT1;CON__P04264 ENSG00000167768|ENST00000252244|KRT1 ENSG00000167768|ENST00000252244|KRT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 530.253297 1058.49204 3.2534 0.0017251 0.12394 6.5717E-05 3.3773 0.0017908 530.7550200928046 29.151 0.20225 29.769 29.73 29.932 0.61789 0.11055 -0.00044953 NaN 45.7 23 15 2 NaN NaN NaN NaN 0 NaN NaN 0 323830 + 39245 4579 24891 24972 -0.03486546410226765 YQTPRLWLF 9 Unmodified _YQTPRLWLF_ 0 0 0 ENST00000467275.1_1_3:112256557-112257010:-|nuORF;nc|ENSG00000144848|Q9NT62-2|ATG3;ENSG00000144848|ENST00000283290|ATG3;ENST00000495756.5_1_3:112255248-112280627:-|nuORF ENST00000467275.1_1_3:112256557-112257010:-|nuORF ENST00000467275.1_1_3:112256557-112257010:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 612.3345947265625 2 612.332216 1222.64988 3.6123 0.0022119 -0.0011162 -6.8346E-07 3.6111 0.0022112 612.332214636914 85.062 0.30099 85.309 85.212 85.513 0.24757 28 19 2 0 0 0 0.018453 1 39148 39148 70.332 53.219 1 439580 39246 3449 24892 24973 44239 44239 0.0474599763963397 YQTPRLWLF 9 Unmodified _YQTPRLWLF_ 0 0 0 ENST00000467275.1_1_3:112256557-112257010:-|nuORF;nc|ENSG00000144848|Q9NT62-2|ATG3;ENSG00000144848|ENST00000283290|ATG3;ENST00000495756.5_1_3:112255248-112280627:-|nuORF ENST00000467275.1_1_3:112256557-112257010:-|nuORF ENST00000467275.1_1_3:112256557-112257010:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 612.333251953125 2 612.332216 1222.64988 3.6626 0.0022427 -1.5819 -0.00096864 2.0807 0.0012741 612.3307078395964 84.534 0.32685 85.2 84.918 85.245 0.66566 30 19 2 0 0 0 0.04013 1 38876 38876 51.415 34.302 1 341440 39247 3449 24892 24973 44240 44240 0.0474599763963397 YQVLEYQFNYE 11 Unmodified _YQVLEYQFNYE_ 0 0 0 REV__nc|ENSG00000136731|Q9NYU2-2|UGGT1 REV__nc|ENSG00000136731|Q9NYU2-2|UGGT1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 748.3407592773438 2 748.340632 1494.66671 NaN NaN NaN NaN NaN NaN NaN 99.865 1 99.865 99.365 100.37 0 0 0 0 1.0073 1 55012 55012 1.1933 0 1 + 39248 12078 24893 24974 44241 44241 -0.06083591055698889 YQYYLWSFYEK 11 Unmodified _YQYYLWSFYEK_ 0 0 0 REV__ENSG00000196542|ENST00000620149|SPTSSB REV__ENSG00000196542|ENST00000620149|SPTSSB MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1589.6070556640625 1 1589.73111 1588.72383 3.0988 0.0049263 -0.74264 -0.0011806 2.3562 0.0037457 1589.7330053798617 42.288 0.019775 42.288 42.277 42.297 0 4 2 2 0 0 0 0.91489 1 19246 19246 0 0 1 3367200 + 39249 14229 24894 24975 44242 44242 -0.04698123779348862 YQYYLWSFYEK 11 Unmodified _YQYYLWSFYEK_ 0 0 0 REV__ENSG00000196542|ENST00000620149|SPTSSB REV__ENSG00000196542|ENST00000620149|SPTSSB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 795.3690795898438 2 795.369192 1588.72383 NaN NaN NaN NaN NaN NaN NaN 36.555 1 36.555 36.055 37.055 0 0 0 0 1.0082 1 16592 16592 0 0 1 + 39250 14229 24894 24975 44243 44243 -0.04698123779348862 YRAALTKR 8 Unmodified _YRAALTKR_ 0 0 0 nc|ENSG00000164694|Q4ZHG4-2|FNDC1;ENSG00000164694|ENST00000297267|FNDC1 nc|ENSG00000164694|Q4ZHG4-2|FNDC1 nc|ENSG00000164694|Q4ZHG4-2|FNDC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 978.5873413085938 1 978.584325 977.577048 3.9534 0.0038688 -0.19454 -0.00019038 3.7589 0.0036784 978.5836943116733 103.25 0.047394 103.85 103.82 103.87 0.59821 4 2 2 0 0 0 0.7471 1 47777 47777 0 0 1 586480 39251 4335 24895 24976 44244 44244 0.08736288636873724 YRALIFLI 8 Unmodified _YRALIFLI_ 0 0 0 ENST00000290795.7_1_1:46126251-46126365:-|nuORF ENST00000290795.7_1_1:46126251-46126365:-|nuORF ENST00000290795.7_1_1:46126251-46126365:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.8143310546875 2 504.81567 1007.61679 NaN NaN NaN NaN NaN NaN NaN 56.101 1 56.367 55.867 56.867 0.26543 0 0 0 0.99035 1 25658 25658 2.5775 0 1 39252 6735 24896 24977 44245 44245 0.11328415587615837 YRAQPSVSL 9 Unmodified _YRAQPSVSL_ 0 0 0 ENSG00000239306|ENST00000310137|RBM14 ENSG00000239306|ENST00000310137|RBM14 ENSG00000239306|ENST00000310137|RBM14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.7786560058594 2 510.777274 1019.53999 3.3205 0.001696 -0.010083 -5.1504E-06 3.3104 0.0016909 510.77727951042357 36.177 0.23133 36.435 36.271 36.502 0.25768 16 10 2 0 0 0 0.21008 1 16465 16465 22.736 0 1 174460 39253 6210 24897 24978 44246 44246 0.031005723004682295 YRDHYYRCRDW 11 Unmodified _YRDHYYRCRDW_ 0 0 0 REV__ENST00000521713.1_1_7:6179681-6199085:+|nuORF REV__ENST00000521713.1_1_7:6179681-6199085:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 816.8604736328125 2 816.859866 1631.70518 NaN NaN NaN NaN NaN NaN NaN 44.417 1 44.686 44.186 45.186 0.2694 0 0 0 1.0082 1 20303 20303 0 0 1 + 39254 11079 24898 24979 44247 44247 -0.08540563902192844 YRDLRWRFWWE 11 Unmodified _YRDLRWRFWWE_ 0 0 0 REV__ENSG00000127995|ENST00000297273|CASD1 REV__ENSG00000127995|ENST00000297273|CASD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 856.92919921875 2 856.925866 1711.83718 NaN NaN NaN NaN NaN NaN NaN 85.032 1 85.061 84.561 85.561 0.028603 0 0 0 1.0082 1 42521 42521 0 0 1 + 39255 11755 24899 24980 44248 44248 0.009734091770724262 YRDLRWRFWWE 11 Unmodified _YRDLRWRFWWE_ 0 0 0 REV__ENSG00000127995|ENST00000297273|CASD1 REV__ENSG00000127995|ENST00000297273|CASD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 856.9293212890625 2 856.925866 1711.83718 NaN NaN NaN NaN NaN NaN NaN 87.574 1 87.825 87.325 88.325 0.25064 0 0 0 1.0082 1 40303 40303 0 0 1 + 39256 11755 24899 24980 44249 44249 0.009734091770724262 YRDLRWRFWWE 11 Unmodified _YRDLRWRFWWE_ 0 0 0 REV__ENSG00000127995|ENST00000297273|CASD1 REV__ENSG00000127995|ENST00000297273|CASD1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 856.9251708984375 2 856.925866 1711.83718 NaN NaN NaN NaN NaN NaN NaN 103.75 1 104.34 103.84 104.84 0.59821 0 0 0 1.0082 1 47983 47983 0 0 1 + 39257 11755 24899 24980 44250 44250 0.009734091770724262 YRDQREYRRWK 11 Unmodified _YRDQREYRRWK_ 0 0 0 UTP14A|p.I484Mfs*38|1|0.07|ENSG00000156697|chrX:129924877-129924878|-/GCAAGTTCAGAGGGGACTAT|frameshift_variant UTP14A|p.I484Mfs*38|1|0.07|ENSG00000156697|chrX:129924877-129924878|-/GCAAGTTCAGAGGGGACTAT|frameshift_variant UTP14A|p.I484Mfs*38|1|0.07|ENSG00000156697|chrX:129924877-129924878|-/GCAAGTTCAGAGGGGACTAT|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 828.4285278320312 2 828.429304 1654.84406 NaN NaN NaN NaN NaN NaN NaN 65.382 1 66.039 65.539 66.539 0.65672 0 0 0 1.0082 1 29975 29975 0 0 1 39258 18290 24900 24981 44251 44251 0.042827220576100444 YREIKKKKKSK 11 Unmodified _YREIKKKKKSK_ 0 0 0 ENST00000418170.5_1_22:35660034-35689641:+|nuORF;ENSG00000100281|ENST00000216106|HMGXB4 ENST00000418170.5_1_22:35660034-35689641:+|nuORF ENST00000418170.5_1_22:35660034-35689641:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 718.2804565429688 2 718.45901 1434.90347 NaN NaN NaN NaN NaN NaN NaN 103.82 1 104.42 103.92 104.92 0.59821 0 0 0 1.0082 1 48017 48017 0 0 1 39259 1199 24901 24982 44252 44252 0.20341225019114972 YREKGDESEKL 11 Unmodified _YREKGDESEKL_ 0 0 0 ENSG00000114331|ENST00000326793|ACAP2 ENSG00000114331|ENST00000326793|ACAP2 ENSG00000114331|ENST00000326793|ACAP2 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 452.264892578125 3 451.893013 1352.65721 3.0006 0.001356 -1.2332 -0.00055727 1.7675 0.0007987 451.89233868743025 66.72 0.13265 66.97 66.928 67.061 0.25011 11 6 2 0 0 0 0.13295 1 30588 30588 1.0136 0 1 295860 39260 1897 24902 24983 44253 44253 -0.005013593412286355 YREPGSPLH 9 Unmodified _YREPGSPLH_ 0 0 0 REV__ENSG00000167131|ENST00000417826|CCDC103 REV__ENSG00000167131|ENST00000417826|CCDC103 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.922607421875 2 528.267073 1054.51959 NaN NaN NaN NaN NaN NaN NaN 45.142 1 45.968 45.468 46.468 0.82621 0 0 0 0.89683 1 20557 20557 4.3292 0.73274 1 + 39261 13277 24903 24984 44254 44254 -0.005485983593416677 YRERRYTRRYY 11 Unmodified _YRERRYTRRYY_ 0 0 0 RSRP1|p.G99_F100del|1|0.38|ENSG00000117616|chr1:25246664-25246669|GAACCC/-|inframe_deletion RSRP1|p.G99_F100del|1|0.38|ENSG00000117616|chr1:25246664-25246669|GAACCC/-|inframe_deletion RSRP1|p.G99_F100del|1|0.38|ENSG00000117616|chr1:25246664-25246669|GAACCC/-|inframe_deletion MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 841.6917114257812 2 841.437129 1680.85971 3.6229 0.0030484 1.1264 0.00094776 4.7492 0.0039962 841.939434555462 36.948 0.072208 37.741 37.709 37.781 0.79342 4 2 2 0 0 0 0.13295 1 16748 16748 0 0 1 411460 39262 18254 24904 24985 44255 44255 0.04651008574705884 YREWRRYYEVW 11 Unmodified _YREWRRYYEVW_ 0 0 0 ENSG00000118017|ENST00000236709|A4GNT ENSG00000118017|ENST00000236709|A4GNT ENSG00000118017|ENST00000236709|A4GNT MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 853.4183959960938 2 853.415331 1704.81611 NaN NaN NaN NaN NaN NaN NaN 58.26 1 58.26 57.76 58.76 0 0 0 0 1.0082 1 26878 26878 0 0 1 39263 2101 24905 24986 44256 44256 -0.008106009224320587 YRGIFPVL 8 Unmodified _YRGIFPVL_ 0 0 0 nc|ENSG00000067225|P14618-2|PKM;ENSG00000067225|ENST00000335181|PKM;ENST00000565143.1_1_15:72491993-72493046:-|nuORF;nc|ENSG00000067225|P14618-3|PKM nc|ENSG00000067225|P14618-2|PKM nc|ENSG00000067225|P14618-2|PKM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 482.784912109375 2 482.78437 963.554188 2.7754 0.0013399 -0.36821 -0.00017777 2.4072 0.0011621 482.7840046860173 73.993 0.34087 74.251 74.062 74.403 0.25876 87 39 3 0 0 0 0.056325 1 34005 34005 63.563 17.813 1 3741200 39264 721 24906 24987 44257 44257 0.07095269519413705 YRGIFPVL 8 Unmodified _YRGIFPVL_ 0 0 0 nc|ENSG00000067225|P14618-2|PKM;ENSG00000067225|ENST00000335181|PKM;ENST00000565143.1_1_15:72491993-72493046:-|nuORF;nc|ENSG00000067225|P14618-3|PKM nc|ENSG00000067225|P14618-2|PKM nc|ENSG00000067225|P14618-2|PKM MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 482.78631591796875 2 482.78437 963.554188 2.6108 0.0012604 0.010025 4.8399E-06 2.6208 0.0012653 482.7843526665353 73.396 0.35242 74.06 73.874 74.226 0.66397 95 39 3 0 0 0 0.021444 1 33726 33726 86.121 40.371 1 3181800 39265 721 24906 24987 44258 44258 0.07095269519413705 YRGQFPEL 8 Unmodified _YRGQFPEL_ 0 0 0 ENST00000564616.1_1_16:67576996-67577373:+|nuORF;ENST00000569733.6_1_16:67575293-67580037:+|nuORF;ENSG00000039523|ENST00000042381|RIPOR1;nc|ENSG00000039523|Q6ZS17|RIPOR1;nc|ENSG00000039523|Q6ZS17-3|RIPOR1;nc|ENSG00000039523|Q6ZS17-4|RIPOR1 ENST00000564616.1_1_16:67576996-67577373:+|nuORF ENST00000564616.1_1_16:67576996-67577373:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 505.25994873046875 2 505.258717 1008.50288 3.1921 0.0016128 -0.089951 -4.5449E-05 3.1021 0.0015674 505.25858040348515 50.648 0.33389 50.648 50.461 50.795 0 36 19 2 0 0 0 0.010172 2 23158 23158;23215 97.075 39.603 1 2329600 39266 527 24907 24988 44259;44260 44259 -0.0010309924530247372 YRGQFPEL 8 Unmodified _YRGQFPEL_ 0 0 0 ENST00000564616.1_1_16:67576996-67577373:+|nuORF;ENST00000569733.6_1_16:67575293-67580037:+|nuORF;ENSG00000039523|ENST00000042381|RIPOR1;nc|ENSG00000039523|Q6ZS17|RIPOR1;nc|ENSG00000039523|Q6ZS17-3|RIPOR1;nc|ENSG00000039523|Q6ZS17-4|RIPOR1 ENST00000564616.1_1_16:67576996-67577373:+|nuORF ENST00000564616.1_1_16:67576996-67577373:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.26043701171875 2 505.258717 1008.50288 3.1742 0.0016038 -0.18483 -9.3385E-05 2.9894 0.0015104 505.2585706969806 49.566 0.30618 50.389 50.22 50.526 0.82285 42 16 3 0 0 0 0.029979 2 22554 22554;22617 77.984 38.027 1 1221000 39267 527 24907 24988 44261;44262 44261 -0.0010309924530247372 YRGQFPEL 8 Unmodified _YRGQFPEL_ 0 0 0 ENST00000564616.1_1_16:67576996-67577373:+|nuORF;ENST00000569733.6_1_16:67575293-67580037:+|nuORF;ENSG00000039523|ENST00000042381|RIPOR1;nc|ENSG00000039523|Q6ZS17|RIPOR1;nc|ENSG00000039523|Q6ZS17-3|RIPOR1;nc|ENSG00000039523|Q6ZS17-4|RIPOR1 ENST00000564616.1_1_16:67576996-67577373:+|nuORF ENST00000564616.1_1_16:67576996-67577373:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 505.25982666015625 2 505.258717 1008.50288 3.1422 0.0015876 0.033374 1.6863E-05 3.1756 0.0016045 505.2587436480202 50.514 0.31697 50.775 50.647 50.964 0.26146 34 16 3 0 0 0 0.47217 1 23068 23068 23.148 6.2061 1 795500 39268 527 24907 24988 44263 44263 -0.0010309924530247372 YRGQFPEL 8 Unmodified _YRGQFPEL_ 0 0 0 ENST00000564616.1_1_16:67576996-67577373:+|nuORF;ENST00000569733.6_1_16:67575293-67580037:+|nuORF;ENSG00000039523|ENST00000042381|RIPOR1;nc|ENSG00000039523|Q6ZS17|RIPOR1;nc|ENSG00000039523|Q6ZS17-3|RIPOR1;nc|ENSG00000039523|Q6ZS17-4|RIPOR1 ENST00000564616.1_1_16:67576996-67577373:+|nuORF ENST00000564616.1_1_16:67576996-67577373:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.2606201171875 2 505.258717 1008.50288 3.2522 0.0016432 -0.19551 -9.8783E-05 3.0567 0.0015444 505.25887169839723 49.869 0.29477 50.526 50.373 50.668 0.65735 26 12 3 0 0 0 0.033633 2 22811 22811;22863 74.423 34.465 1 726250 39269 527 24907 24988 44264;44265 44264 -0.0010309924530247372 YRGRPKRSGTS 11 Unmodified _YRGRPKRSGTS_ 0 0 0 REV__ENSG00000165895|ENST00000298815|ARHGAP42 REV__ENSG00000165895|ENST00000298815|ARHGAP42 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 632.8506469726562 2 632.847084 1263.67962 4.5959 0.0029085 1.9097 0.0012085 6.5056 0.004117 632.8482272699529 103.02 0.13631 103.34 103.29 103.42 0.31863 8 4 2 0 0 0 0.91111 1 47652 47652 1.1933 0 1 290850 + 39270 13195 24908 24989 44266 44266 0.05832329637678413 YRGRPKRSGTS 11 Unmodified _YRGRPKRSGTS_ 0 0 0 REV__ENSG00000165895|ENST00000298815|ARHGAP42 REV__ENSG00000165895|ENST00000298815|ARHGAP42 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 632.847084 1263.67962 3.4151 0.0021612 1.9001 0.0012025 5.3152 0.0033637 632.849076978295 103.46 0.07103 103.46 103.41 103.48 0 -0.016041 0.00013865 NaN 1.1933 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 180810 + 39271 13195 24908 24989 0.05832329637678413 YRHQWRRRWSR 11 Unmodified _YRHQWRRRWSR_ 0 0 0 REV__ENST00000570069.5_1_16:1826945-1827407:+|nuORF REV__ENST00000570069.5_1_16:1826945-1827407:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 843.949951171875 2 843.951072 1685.88759 NaN NaN NaN NaN NaN NaN NaN 56.557 1 56.822 56.322 57.322 0.26543 0 0 0 1.0082 1 25876 25876 0 0 1 + 39272 17377 24909 24990 44267 44267 0.0720837634542022 YRIEPMVVPG 10 Unmodified _YRIEPMVVPG_ 0 0 0 ENSG00000085788|ENST00000397166|DDHD2;nc|ENSG00000085788|O94830-2|DDHD2 ENSG00000085788|ENST00000397166|DDHD2 ENSG00000085788|ENST00000397166|DDHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 387.8783264160156 3 387.542598 1159.60597 2.7505 0.0010659 0.39035 0.00015128 3.1408 0.0012172 387.54276975174236 37.471 0.34704 37.471 37.346 37.694 0 27 12 3 0 0 0 0.80002 1 17011 17011 8.4443 1.1551 1 369060 39273 975 24910 24991 44268 44268 0.03254645151037039 YRITGLLAQH 10 Unmodified _YRITGLLAQH_ 0 0 0 REV__ENST00000586523.1_1_18:43664291-43664615:-|nuORF REV__ENST00000586523.1_1_18:43664291-43664615:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 391.2247619628906 3 391.224257 1170.65094 2.5716 0.0010061 -1.1859 -0.00046396 1.3857 0.0005421 391.22365154760234 58.887 0.5409 58.887 58.416 58.957 0 77 45 3 0 0 0 0.84709 1 27117 27117 3.3196 0.82116 1 8437300 + 39274 17541 24911 24992 44269 44269 0.07244212008549766 YRITGLLAQH 10 Unmodified _YRITGLLAQH_ 0 0 0 REV__ENST00000586523.1_1_18:43664291-43664615:-|nuORF REV__ENST00000586523.1_1_18:43664291-43664615:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 391.224257 1170.65094 2.5716 0.0010061 -1.1859 -0.00046396 1.3857 0.0005421 391.22365154760234 58.887 0.5409 58.887 58.416 58.957 0 0 0 NaN 3.3196 77 45 3 NaN NaN NaN NaN 0 NaN NaN 0 8437300 + 39275 17541 24911 24992 0.07244212008549766 YRKEMRKWQEW 11 Unmodified _YRKEMRKWQEW_ 0 0 0 ENST00000430935.5_1_7:138875731-138875803:+|nuORF ENST00000430935.5_1_7:138875731-138875803:+|nuORF ENST00000430935.5_1_7:138875731-138875803:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 820.4104614257812 2 820.411734 1638.80892 NaN NaN NaN NaN NaN NaN NaN 54.153 1 54.153 53.653 54.653 0 0 0 0 1.0082 1 24835 24835 0 0 1 39276 7851 24912 24993 44270 44270 0.015063432054830628 YRKEMRKWQEW 11 Unmodified _YRKEMRKWQEW_ 0 0 0 ENST00000430935.5_1_7:138875731-138875803:+|nuORF ENST00000430935.5_1_7:138875731-138875803:+|nuORF ENST00000430935.5_1_7:138875731-138875803:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 820.3614501953125 2 820.411734 1638.80892 NaN NaN NaN NaN NaN NaN NaN 97.365 1 97.365 96.865 97.865 0 0 0 0 1.0082 1 52980 52980 0 0 1 39277 7851 24912 24993 44271 44271 0.015063432054830628 YRKKEWNRKEE 11 Unmodified _YRKKEWNRKEE_ 0 0 0 ENST00000272647.9_1_2:128641813-128643454:-|nuORF ENST00000272647.9_1_2:128641813-128643454:-|nuORF ENST00000272647.9_1_2:128641813-128643454:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 522.61328125 3 522.610951 1564.81102 4.2082 0.0021992 -0.11476 -5.9976E-05 4.0934 0.0021393 522.9451422129442 106.13 0.12125 106.44 106.37 106.49 0.31628 8 4 2 0 0 0 0.91489 1 48986 48986 0 0 1 1002100 39278 6659 24913 24994 44272 44272 0.05121095214917659 YRKKFMKLWK 10 Unmodified _YRKKFMKLWK_ 0 0 0 REV__ENST00000556730.1_1_14:95047745-95056676:+|nuORF REV__ENST00000556730.1_1_14:95047745-95056676:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 714.417724609375 2 714.420842 1426.82713 NaN NaN NaN NaN NaN NaN NaN 89.308 1 89.559 89.059 90.059 0.25118 0 0 0 1.0015 1 41077 41077 0.40072 0.050084 1 + + 39279 17328 24914 24995 44273 44273 0.13079129918128274 YRKKIFWK 8 Unmodified _YRKKIFWK_ 0 0 0 ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENSG00000165102|ENST00000379644|HGSNAT;nc|ENSG00000165102|Q68CP4|HGSNAT ENST00000519705.1_1_8:43052051-43054709:+|nuORF;ENSG00000165102|ENST00000379644|HGSNAT ENST00000519705.1_1_8:43052051-43054709:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 584.6907348632812 2 584.853119 1167.69168 NaN NaN NaN NaN NaN NaN NaN 5.4526 1 5.8054 5.3054 6.3054 0.35278 0 0 0 0.99035 1 2472 2472 0 0 1 39280 8625;4371 24915 24996 44274 44274 0.11454598118803005 YRKPKWNHL 9 Unmodified _YRKPKWNHL_ 0 0 0 nc|ENSG00000134824|O95864-2|FADS2;nc|ENSG00000134824|O95864-4|FADS2;ENSG00000134824|ENST00000278840|FADS2;ENST00000520145.1_1_11:61608131-61615310:+|nuORF;nc|ENSG00000134824|O95864-3|FADS2 nc|ENSG00000134824|O95864-2|FADS2 nc|ENSG00000134824|O95864-2|FADS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 414.5687561035156 3 414.568247 1240.68291 2.6039 0.0010795 2.8722 0.0011907 5.4761 0.0022702 414.5681644543778 13.983 0.12307 14.227 14.155 14.279 0.24346 13 9 2 0 0 0 0.011692 1 6125 6125 79.596 62.154 1 1023900 39281 9653 24916 24997 44275 44275 0.07219624482354448 YRKPKWNHL 9 Unmodified _YRKPKWNHL_ 0 0 0 nc|ENSG00000134824|O95864-2|FADS2;nc|ENSG00000134824|O95864-4|FADS2;ENSG00000134824|ENST00000278840|FADS2;ENST00000520145.1_1_11:61608131-61615310:+|nuORF;nc|ENSG00000134824|O95864-3|FADS2 nc|ENSG00000134824|O95864-2|FADS2 nc|ENSG00000134824|O95864-2|FADS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 414.56939697265625 3 414.568247 1240.68291 NaN NaN NaN NaN NaN NaN NaN 14.117 1 14.424 13.924 14.924 0.3069 0 0 0 0.021845 1 6384 6384 70.332 48.795 1 39282 9653 24916 24997 44276 44276 0.07219624482354448 YRKPKWNHL 9 Unmodified _YRKPKWNHL_ 0 0 0 nc|ENSG00000134824|O95864-2|FADS2;nc|ENSG00000134824|O95864-4|FADS2;ENSG00000134824|ENST00000278840|FADS2;ENST00000520145.1_1_11:61608131-61615310:+|nuORF;nc|ENSG00000134824|O95864-3|FADS2 nc|ENSG00000134824|O95864-2|FADS2 nc|ENSG00000134824|O95864-2|FADS2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 414.5689392089844 3 414.568247 1240.68291 3.083 0.0012781 1.3886 0.00057566 4.4715 0.0018538 414.56801067422066 13.763 0.16003 14.411 14.28 14.44 0.6482 16 11 2 0 0 0 0.15661 1 6166 6166 26.268 16.118 1 393800 39283 9653 24916 24997 44277 44277 0.07219624482354448 YRKQQAYRRYW 11 Unmodified _YRKQQAYRRYW_ 0 0 0 REV__ENSG00000128641|ENST00000392318|MYO1B REV__ENSG00000128641|ENST00000392318|MYO1B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.9537963867188 3 539.951419 1616.83243 NaN NaN NaN NaN NaN NaN NaN 99.717 1 100.31 99.814 100.81 0.59717 0 0 0 1.0082 1 46132 46132 0.08335 0.010087 1 + 39284 11767 24917 24998 44278 44278 0.0486852503429418 YRKRDRMAN 9 Unmodified _YRKRDRMAN_ 0 0 0 REV__ENST00000482151.1_2:149856814-149868187:+|nuORF REV__ENST00000482151.1_2:149856814-149868187:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 403.5548400878906 3 403.880496 1208.61966 2.6562 0.0010728 -0.24046 -9.7119E-05 2.4158 0.00097569 404.21446244425596 14.808 0.47994 15.034 14.795 15.275 0.22622 60 39 2 0 0 0 0.11393 1 6623 6623 1.0715 1.0715 1 190210 + 39285 13339 24918 24999 44279 44279 0.023693157028219503 YRKRKKKLKIK 11 Unmodified _YRKRKKKLKIK_ 0 0 0 REV__ENST00000495198.6_1_5:64023893-64064425:-|nuORF REV__ENST00000495198.6_1_5:64023893-64064425:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 497.2833557128906 3 497.01195 1488.01402 NaN NaN NaN NaN NaN NaN NaN 70.441 1 71.145 70.645 71.645 0.70386 0 0 0 1.0082 1 33753 33753 0 0 1 + 39286 16835 24919 25000 44280 44280 0.2895348979800474 YRKRRKHKEKL 11 Unmodified _YRKRRKHKEKL_ 0 0 0 REV__ENST00000477167.5_1_1:20991079-21011627:-|nuORF REV__ENST00000477167.5_1_1:20991079-21011627:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 771.4782104492188 2 771.4786 1540.94265 NaN NaN NaN NaN NaN NaN NaN 86.86 1 87.11 86.61 87.61 0.24974 0 0 0 1.0082 1 39983 39983 0 0 1 + 39287 11439 24920 25001 44281 44281 0.1938137009331058 YRKWWLYKQIW 11 Unmodified _YRKWWLYKQIW_ 0 0 0 REV__ENSG00000118402|ENST00000369816|ELOVL4 REV__ENSG00000118402|ENST00000369816|ELOVL4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 835.4312133789062 2 835.453728 1668.8929 NaN NaN NaN NaN NaN NaN NaN 100.73 1 100.79 100.29 101.29 0.059723 0 0 0 1.0082 1 54678 54678 0 0 1 + 39288 11470 24921 25002 44282 44282 0.08521242364690806 YRLCLKLFLHW 11 Unmodified _YRLCLKLFLHW_ 0 0 0 REV__ENST00000586523.1_1_18:43664291-43664615:-|nuORF REV__ENST00000586523.1_1_18:43664291-43664615:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 498.1230163574219 3 497.947959 1490.82205 NaN NaN NaN NaN NaN NaN NaN 30.353 1 30.353 29.853 30.853 0 0 0 0 1.008 1 13711 13711 0.094841 0.021578 1 + 39289 17541 24922 25003 44283 44283 0.09626826055523452 YRLIPLAI 8 Unmodified _YRLIPLAI_ 0 0 0 REV__chr11:58927902-58943543|113|10.91|0.26|5.37|+|0|TE_info:HERVK22-int,HERVK22-int_dup314,ERVK,LTR,donor,-,58927657,58927902|None,GLYATL1|2 REV__chr11:58927902-58943543|113|10.91|0.26|5.37|+|0|TE_info:HERVK22-int,HERVK22-int_dup314,ERVK,LTR,donor,-,58927657,58927902|None,GLYATL1|2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 320.2000732421875 3 320.207656 957.601138 NaN NaN NaN NaN NaN NaN NaN 78.641 1 78.892 78.392 79.392 0.25127 0 0 0 0.99035 1 36213 36213 0.45834 0 1 + 39290 10020 24923 25004 44284 44284 0.12064129070552099 YRLKNYVA 8 Unmodified _YRLKNYVA_ 0 0 0 REV__nc|ENSG00000173588|Q9Y592-2|CEP83 REV__nc|ENSG00000173588|Q9Y592-2|CEP83 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 342.8759765625 3 342.862548 1025.56581 NaN NaN NaN NaN NaN NaN NaN 47.583 1 48.237 47.737 48.737 0.65356 0 0 0 0.94507 1 21784 21784 6.7232 0 1 + 39291 13605 24924 25005 44285 44285 0.05405466542742943 YRLLFEAV 8 Unmodified _YRLLFEAV_ 0 0 0 ENST00000589852.5_1_19:16301781-16301925:+|nuORF ENST00000589852.5_1_19:16301781-16301925:+|nuORF ENST00000589852.5_1_19:16301781-16301925:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.7904968261719 2 505.78711 1009.55967 NaN NaN NaN NaN NaN NaN NaN 20.822 1 21.475 20.975 21.975 0.65346 0 0 0 0.99035 1 9451 9451 5.7604 0.52976 1 39292 9218 24925 25006 44286 44286 0.055269483112283524 YRLLLPLLLKL 11 Unmodified _YRLLLPLLLKL_ 0 0 0 REV__nc|ENSG00000184634|Q93074-3|MED12 REV__nc|ENSG00000184634|Q93074-3|MED12 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 452.3105773925781 3 452.311003 1353.91118 NaN NaN NaN NaN NaN NaN NaN 27.199 1 27.978 27.478 28.478 0.7787 0 0 0 1.0082 1 12225 12225 0 0 1 + 39293 13983 24926 25007 44287 44287 0.2483798428670525 YRLRFRCF 8 Unmodified _YRLRFRCF_ 0 0 0 REV__ENSG00000133980|ENST00000256362|VRTN REV__ENSG00000133980|ENST00000256362|VRTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 387.8785095214844 3 387.543044 1159.6073 2.7505 0.0010659 -0.75998 -0.00029453 1.9905 0.00077141 387.54276975174236 37.471 0.34704 37.471 37.346 37.694 0 27 12 3 0 0 0 0.68959 1 17073 17073 6.7232 1.3205 1 369060 + 39294 11949 24927 25008 44288 44288 0.03388324030424883 YRLRFRCF 8 Unmodified _YRLRFRCF_ 0 0 0 REV__ENSG00000133980|ENST00000256362|VRTN REV__ENSG00000133980|ENST00000256362|VRTN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 387.8782958984375 3 387.543044 1159.6073 2.5858 0.0010021 -0.86084 -0.00033361 1.725 0.00066849 387.5426443868242 36.289 0.51385 37.083 36.874 37.388 0.79342 38 23 2 0 0 0 0.68959 1 16496 16496 6.7232 1.3205 1 396660 + 39295 11949 24927 25008 44289 44289 0.03388324030424883 YRLRRRRPFKR 11 Unmodified _YRLRRRRPFKR_ 0 0 0 REV__ENST00000287934.3_1_7:90894005-90894200:+|nuORF REV__ENST00000287934.3_1_7:90894005-90894200:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 802.3522338867188 2 802.497659 1602.98076 NaN NaN NaN NaN NaN NaN NaN 100.64 1 100.64 100.14 101.14 0 0 0 0 1.0082 1 55569 55569 0 0 1 + 39296 15117 24928 25009 44290 44290 0.20339300798650584 YRLRYRRFCYW 11 Unmodified _YRLRYRRFCYW_ 0 0 0 REV__ENST00000593099.5_1_17:33325156-33325826:+|nuORF REV__ENST00000593099.5_1_17:33325156-33325826:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 561.2916870117188 3 561.289266 1680.84597 3.2902 0.0018468 -0.65643 -0.00036845 2.6338 0.0014783 561.2904818345679 55.871 0.25484 55.871 55.78 56.035 0 43 19 3 0 0 0 0.91489 1 25714 25714 0 0 1 2665100 + 39297 17598 24929 25010 44291 44291 0.032780595418898884 YRLRYRRFCYW 11 Unmodified _YRLRYRRFCYW_ 0 0 0 REV__ENST00000593099.5_1_17:33325156-33325826:+|nuORF REV__ENST00000593099.5_1_17:33325156-33325826:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 841.4296875 2 841.430261 1680.84597 NaN NaN NaN NaN NaN NaN NaN 43.926 1 44.747 44.247 45.247 0.82075 0 0 0 1.0082 1 19998 19998 0 0 1 + 39298 17598 24929 25010 44292 44292 0.032780595418898884 YRLRYRRFCYW 11 Unmodified _YRLRYRRFCYW_ 0 0 0 REV__ENST00000593099.5_1_17:33325156-33325826:+|nuORF REV__ENST00000593099.5_1_17:33325156-33325826:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 841.4271850585938 2 841.430261 1680.84597 NaN NaN NaN NaN NaN NaN NaN 60.894 1 61.634 61.134 62.134 0.7396 0 0 0 1.0082 1 28170 28170 0 0 1 + 39299 17598 24929 25010 44293 44293 0.032780595418898884 YRLRYRRFCYW 11 Unmodified _YRLRYRRFCYW_ 0 0 0 REV__ENST00000593099.5_1_17:33325156-33325826:+|nuORF REV__ENST00000593099.5_1_17:33325156-33325826:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 561.289266 1680.84597 3.2902 0.0018468 -0.65643 -0.00036845 2.6338 0.0014783 561.2904818345679 55.871 0.25484 55.871 55.78 56.035 0 -0.018254 0.00051827 NaN 0 43 19 3 NaN NaN NaN NaN 0 NaN NaN 0 2665100 + 39300 17598 24929 25010 0.032780595418898884 YRLRYRRFCYW 11 Unmodified _YRLRYRRFCYW_ 0 0 0 REV__ENST00000593099.5_1_17:33325156-33325826:+|nuORF REV__ENST00000593099.5_1_17:33325156-33325826:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 561.289266 1680.84597 3.4284 0.0019243 -1.2275 -0.00068898 2.2009 0.0012353 561.2888099330879 55.838 0.25644 56.103 55.949 56.205 0.26543 0.21364 -0.00044334 NaN 0 16 10 2 NaN NaN NaN NaN 0 NaN NaN 0 1470700 + 39301 17598 24929 25010 0.032780595418898884 YRLRYRRFCYW 11 Unmodified _YRLRYRRFCYW_ 0 0 0 REV__ENST00000593099.5_1_17:33325156-33325826:+|nuORF REV__ENST00000593099.5_1_17:33325156-33325826:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 561.289266 1680.84597 3.5129 0.0019717 -0.86046 -0.00048296 2.6524 0.0014888 561.2887482905885 55.026 0.39498 55.694 55.461 55.856 0.66798 -0.19538 0.00017472 NaN 0 46 16 4 NaN NaN NaN NaN 0 NaN NaN 0 1352800 + 39302 17598 24929 25010 0.032780595418898884 YRLTRKVF 8 Unmodified _YRLTRKVF_ 0 0 0 ENSG00000008394|ENST00000396210|MGST1;nc|ENSG00000008394|P10620-2|MGST1;ENST00000539708.5_1_12:16507186-16513330:+|nuORF;ENST00000539036.5_1_12:16500588-16536519:+|nuORF;ENST00000538857.1_1_12:16507186-16536519:+|nuORF ENSG00000008394|ENST00000396210|MGST1 ENSG00000008394|ENST00000396210|MGST1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 361.5547790527344 3 361.553826 1081.63965 2.7047 0.00097788 -0.37859 -0.00013688 2.3261 0.000841 361.55374401396733 25.715 0.30709 25.983 25.824 26.131 0.26777 61 30 3 0 0 0 0.64827 1 11691 11691 10.074 0 1 745570 39303 378 24930 25011 44294 44294 0.10209434705075182 YRLTRKVF 8 Unmodified _YRLTRKVF_ 0 0 0 ENSG00000008394|ENST00000396210|MGST1;nc|ENSG00000008394|P10620-2|MGST1;ENST00000539708.5_1_12:16507186-16513330:+|nuORF;ENST00000539036.5_1_12:16500588-16536519:+|nuORF;ENST00000538857.1_1_12:16507186-16536519:+|nuORF ENSG00000008394|ENST00000396210|MGST1 ENSG00000008394|ENST00000396210|MGST1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 361.553826 1081.63965 2.4601 0.00088945 -0.025152 -9.0937E-06 2.4349 0.00088035 361.55381357110343 25.404 0.217 26.033 25.957 26.174 0.62915 0.025129 0.00021049 NaN 10.074 42 25 2 NaN NaN NaN NaN 0 NaN NaN 0 666700 39304 378 24930 25011 0.10209434705075182 YRMLMDFEQ 9 Unmodified _YRMLMDFEQ_ 0 0 0 ENST00000463052.5_1_1:29528537-29543205:-|nuORF;ENST00000490529.5_1_1:29528540-29557400:-|nuORF;ENST00000453185.5_1_1:29522511-29533334:-|nuORF;nc|ENSG00000116353|Q9BV79-2|MECR;ENSG00000116353|ENST00000263702|MECR ENST00000463052.5_1_1:29528537-29543205:-|nuORF ENST00000463052.5_1_1:29528537-29543205:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 411.5194396972656 3 411.519465 1231.53657 NaN NaN NaN NaN NaN NaN NaN 36.456 1 37.249 36.749 37.749 0.79342 0 0 0 0.90611 1 16522 16522 1.0715 0 1 39305 2026 24931 25012 44295 44295 -0.06994181860068238 YRNAYTMVL 9 Unmodified _YRNAYTMVL_ 0 0 0 CUL3|p.T583*|1|0.23|ENSG00000036257|chr2:224495927-224495928|-/TA|frameshift_variant;nc|ENSG00000036257|Q13618-2|CUL3;ENSG00000036257|ENST00000264414|CUL3 CUL3|p.T583*|1|0.23|ENSG00000036257|chr2:224495927-224495928|-/TA|frameshift_variant CUL3|p.T583*|1|0.23|ENSG00000036257|chr2:224495927-224495928|-/TA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 565.7889404296875 2 565.786784 1129.55902 3.4297 0.0019405 0.62767 0.00035513 4.0574 0.0022956 565.7869191506255 54.246 0.34715 54.511 54.312 54.659 0.26462 24 16 2 0 0 0 0.19064 1 24815 24815 24.021 4.7636 1 349580 39306 254 24932 25013 44296 44296 -0.0005821440013278334 YRNDYATML 9 Unmodified _YRNDYATML_ 0 0 0 ENST00000460886.1_1_21:47532344-47532792:+|nuORF;nc|ENSG00000142173|P12110-3|COL6A2;nc|ENSG00000142173|P12110-2|COL6A2;ENSG00000142173|ENST00000300527|COL6A2 ENST00000460886.1_1_21:47532344-47532792:+|nuORF ENST00000460886.1_1_21:47532344-47532792:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 573.7679443359375 2 573.766049 1145.51754 3.5494 0.0020365 -0.34312 -0.00019687 3.2063 0.0018396 573.7659327643963 48.392 0.14806 48.654 48.597 48.745 0.26209 17 12 2 0 0 0 0.24524 1 22127 22127 20.415 6.5085 1 556790 39307 3295 24933 25014 44297 44297 -0.049393951594765895 YRNDYATML 9 Unmodified _YRNDYATML_ 0 0 0 ENST00000460886.1_1_21:47532344-47532792:+|nuORF;nc|ENSG00000142173|P12110-3|COL6A2;nc|ENSG00000142173|P12110-2|COL6A2;ENSG00000142173|ENST00000300527|COL6A2 ENST00000460886.1_1_21:47532344-47532792:+|nuORF ENST00000460886.1_1_21:47532344-47532792:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 573.7680053710938 2 573.766049 1145.51754 3.7151 0.0021316 -0.68346 -0.00039215 3.0317 0.0017395 573.7656482420356 47.831 0.265 48.485 48.321 48.586 0.65356 15 12 2 0 0 0 0.24524 1 21908 21908 20.415 6.5085 1 349760 39308 3295 24933 25014 44298 44298 -0.049393951594765895 YRNLWEHYYKE 11 Unmodified _YRNLWEHYYKE_ 0 0 0 ENSG00000113966|ENST00000463745|ARL6;nc|ENSG00000113966|Q9H0F7-2|ARL6 ENSG00000113966|ENST00000463745|ARL6 ENSG00000113966|ENST00000463745|ARL6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 800.8801879882812 2 800.88079 1599.74703 NaN NaN NaN NaN NaN NaN NaN 89.697 1 89.948 89.448 90.448 0.25137 0 0 0 1.0082 1 41252 41252 0 0 1 39309 1883 24934 25015 44299 44299 -0.028856849420208164 YRNNYKEWHC 10 Unmodified _YRNNYKEWHC_ 0 0 0 REV__ENSG00000181562|ENST00000326842|EDDM3A REV__ENSG00000181562|ENST00000326842|EDDM3A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 706.4234008789062 2 706.811853 1411.60915 NaN NaN NaN NaN NaN NaN NaN 108.41 1 109.01 108.51 109.51 0.602 0 0 0 1.0015 1 50017 50017 0.45834 0 1 + 39310 13858 24935 25016 44300 44300 -0.08018711742283813 YRNRNFYEL 9 Unmodified _YRNRNFYEL_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B;ENST00000471904.1_1_2:192128111-192215016:+|nuORF nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 425.5490417480469 3 425.5474 1273.62037 2.909 0.0012379 0.038681 1.646E-05 2.9477 0.0012544 425.54753063947317 37.42 0.16207 37.42 37.346 37.509 0 8 5 2 0 0 0 0.24465 1 17001 17001 14.405 11.562 1 385090 39311 2521 24936 25017 44301 44301 -0.0054956637648047035 YRNRNFYEL 9 Unmodified _YRNRNFYEL_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B;ENST00000471904.1_1_2:192128111-192215016:+|nuORF nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 425.5474 1273.62037 3.0428 0.0012948 -0.081727 -3.4779E-05 2.961 0.0012601 425.8815913091319 37.545 0.19419 37.805 37.662 37.856 0.26083 0.21605 -0.00032598 NaN 14.405 9 5 2 NaN NaN NaN NaN 0 NaN NaN 0 234400 39312 2521 24936 25017 -0.0054956637648047035 YRNRNFYEL 9 Unmodified _YRNRNFYEL_ 0 0 0 nc|ENSG00000128641|O43795-2|MYO1B;ENSG00000128641|ENST00000392318|MYO1B;ENST00000471904.1_1_2:192128111-192215016:+|nuORF nc|ENSG00000128641|O43795-2|MYO1B nc|ENSG00000128641|O43795-2|MYO1B MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 425.5474 1273.62037 3.0631 0.0013035 0.53496 0.00022765 3.598 0.0015311 425.54754637458154 36.913 0.32718 37.543 37.354 37.681 0.62999 -0.046819 0.00046131 NaN 14.405 19 12 2 NaN NaN NaN NaN 0 NaN NaN 0 244690 39313 2521 24936 25017 -0.0054956637648047035 YRPETGSWVF 10 Unmodified _YRPETGSWVF_ 0 0 0 nc|ENSG00000110713|P52948-6|NUP98;ENSG00000110713|ENST00000324932|NUP98;nc|ENSG00000110713|P52948|NUP98;nc|ENSG00000110713|P52948-2|NUP98;nc|ENSG00000110713|P52948-4|NUP98;nc|ENSG00000110713|P52948-3|NUP98 nc|ENSG00000110713|P52948-6|NUP98 nc|ENSG00000110713|P52948-6|NUP98 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 621.303466796875 2 621.301113 1240.58767 NaN NaN NaN NaN NaN NaN NaN 62.525 1 62.775 62.275 63.275 0.24965 0 0 0 0.1968 1 28627 28627 45.74 23.993 1 39314 1726 24937 25018 44302 44302 -0.02299773499339608 YRPFQYDFL 9 Unmodified _YRPFQYDFL_ 0 0 0 ENST00000539966.5_1_13:99104432-99104537:-|nuORF ENST00000539966.5_1_13:99104432-99104537:-|nuORF ENST00000539966.5_1_13:99104432-99104537:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 416.8742980957031 3 416.873113 1247.59751 2.7036 0.0011271 -0.031848 -1.3277E-05 2.6717 0.0011138 416.87301018073487 32.963 0.2739 32.963 32.825 33.099 0 25 16 2 0 0 0 0.94779 1 14955 14955 4.897 1.31 1 264910 39315 8797 24938 25019 44303 44303 -0.016385854939471756 YRPLWVAT 8 Unmodified _YRPLWVAT_ 0 0 0 REV__nc|ENSG00000141644|Q9UIS9-10|MBD1 REV__nc|ENSG00000141644|Q9UIS9-10|MBD1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 335.85626220703125 3 335.855394 1004.54435 2.4772 0.00083199 -0.019011 -6.3849E-06 2.4582 0.0008256 335.85550078661925 6.108 0.35396 6.108 5.9273 6.2813 0 66 50 2 0 0 0 0.7471 1 2762 2762 0 0 1 48513 + 39316 17968 24939 25020 44304 44304 0.04226081514013913 YRPPELLL 8 Unmodified _YRPPELLL_ 0 0 0 CDK12|p.S1017Ffs*5|1|0.07|ENSG00000167258|chr17:39520040-39520041|-/TTCTCAAATTTGTA|frameshift_variant;CDK12|p.I1188Tfs*27|1|0.35|ENSG00000167258|chr17:39526119-39526119|T/-|frameshift_variant;nc|ENSG00000167258|Q9NYV4-3|CDK12;nc|ENSG00000167258|Q9NYV4-2|CDK12;ENSG00000167258|ENST00000447079|CDK12;ENSG00000136807|ENST00000373264|CDK9;nc|ENSG00000136807|P50750-2|CDK9;ENSG00000065883|ENST00000181839|CDK13;nc|ENSG00000065883|Q14004-2|CDK13 CDK12|p.S1017Ffs*5|1|0.07|ENSG00000167258|chr17:39520040-39520041|-/TTCTCAAATTTGTA|frameshift_variant;ENSG00000065883|ENST00000181839|CDK13 CDK12|p.S1017Ffs*5|1|0.07|ENSG00000167258|chr17:39520040-39520041|-/TTCTCAAATTTGTA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.7967834472656 2 500.794935 999.575317 3.3319 0.0016686 0.5703 0.0002856 3.9022 0.0019542 500.7949431770693 65.346 0.40129 65.594 65.394 65.796 0.24802 44 19 3 0 0 0 0.23923 1 29931 29931 39.957 3.9131 1 1163400 39317 111;697 24940 25021 44305 44305 0.07551234828292763 YRPPELLL 8 Unmodified _YRPPELLL_ 0 0 0 CDK12|p.S1017Ffs*5|1|0.07|ENSG00000167258|chr17:39520040-39520041|-/TTCTCAAATTTGTA|frameshift_variant;CDK12|p.I1188Tfs*27|1|0.35|ENSG00000167258|chr17:39526119-39526119|T/-|frameshift_variant;nc|ENSG00000167258|Q9NYV4-3|CDK12;nc|ENSG00000167258|Q9NYV4-2|CDK12;ENSG00000167258|ENST00000447079|CDK12;ENSG00000136807|ENST00000373264|CDK9;nc|ENSG00000136807|P50750-2|CDK9;ENSG00000065883|ENST00000181839|CDK13;nc|ENSG00000065883|Q14004-2|CDK13 CDK12|p.S1017Ffs*5|1|0.07|ENSG00000167258|chr17:39520040-39520041|-/TTCTCAAATTTGTA|frameshift_variant;ENSG00000065883|ENST00000181839|CDK13 CDK12|p.S1017Ffs*5|1|0.07|ENSG00000167258|chr17:39520040-39520041|-/TTCTCAAATTTGTA|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.79656982421875 2 500.794935 999.575317 3.3213 0.0016633 0.044997 2.2534E-05 3.3663 0.0016858 500.7948838276761 64.754 0.40617 65.41 65.145 65.551 0.65672 30 17 2 0 0 0 0.3435 1 29682 29682 32.305 3.8186 1 1389800 39318 111;697 24940 25021 44306 44306 0.07551234828292763 YRPPELLL 8 Unmodified _YRPPELLL_ 0 0 0 CDK12|p.S1017Ffs*5|1|0.07|ENSG00000167258|chr17:39520040-39520041|-/TTCTCAAATTTGTA|frameshift_variant;CDK12|p.I1188Tfs*27|1|0.35|ENSG00000167258|chr17:39526119-39526119|T/-|frameshift_variant;nc|ENSG00000167258|Q9NYV4-3|CDK12;nc|ENSG00000167258|Q9NYV4-2|CDK12;ENSG00000167258|ENST00000447079|CDK12;ENSG00000136807|ENST00000373264|CDK9;nc|ENSG00000136807|P50750-2|CDK9;ENSG00000065883|ENST00000181839|CDK13;nc|ENSG00000065883|Q14004-2|CDK13 CDK12|p.S1017Ffs*5|1|0.07|ENSG00000167258|chr17:39520040-39520041|-/TTCTCAAATTTGTA|frameshift_variant;ENSG00000065883|ENST00000181839|CDK13 CDK12|p.S1017Ffs*5|1|0.07|ENSG00000167258|chr17:39520040-39520041|-/TTCTCAAATTTGTA|frameshift_variant MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 500.794935 999.575317 2.5044 0.0012542 -0.30582 -0.00015315 2.1986 0.0011011 500.7960769699623 65.517 0.03054 65.517 65.499 65.53 0 0.0095592 -0.00058079 NaN 39.957 5 3 2 NaN NaN NaN NaN 0 NaN NaN 0 856910 39319 111;697 24940 25021 0.07551234828292763 YRPPEVIL 8 Unmodified _YRPPEVIL_ 0 0 0 nc|ENSG00000179335|P49761-3|CLK3;ENSG00000179335|ENST00000395066|CLK3;ENST00000569406.5_1_15:74914809-74922221:+|nuORF;ENST00000562078.5_1_15:74917060-74922221:+|nuORF;ENST00000454830.6_1_15:74914310-74922221:+|nuORF nc|ENSG00000179335|P49761-3|CLK3 nc|ENSG00000179335|P49761-3|CLK3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 493.7890930175781 2 493.78711 985.559667 3.1357 0.0015484 -0.08386 -4.1409E-05 3.0519 0.001507 493.7871525607263 56.184 0.313 56.449 56.279 56.592 0.26543 22 11 3 0 0 0 0.33696 1 25715 25715 25.399 3.6527 1 849030 39320 5211 24941 25022 44307 44307 0.06630948311226348 YRPQHISFI 9 Unmodified _YRPQHISFI_ 0 0 0 REV__nc|ENSG00000118777|Q9UNQ0-2|ABCG2 REV__nc|ENSG00000118777|Q9UNQ0-2|ABCG2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 387.5464172363281 3 387.545219 1159.61383 2.6726 0.0010358 -0.12688 -4.9171E-05 2.5458 0.0009866 387.5452230719179 32.687 0.47318 32.687 32.504 32.978 0 49 31 2 0 0 0 1.1022 1 14891 14891 2.2828 0.19677 1 275050 + 39321 11480 24942 25023 44308 44308 0.04040540462779063 YRPYRLMRLVR 11 Unmodified _YRPYRLMRLVR_ 0 0 0 REV__ENSG00000186141|ENST00000334163|POLR3C REV__ENSG00000186141|ENST00000334163|POLR3C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 761.941650390625 2 761.943005 1521.87146 NaN NaN NaN NaN NaN NaN NaN 31.374 1 32.163 31.663 32.663 0.78879 0 0 0 1.008 1 14168 14168 0.30703 0.03801 1 + 39322 14046 24943 25024 44309 44309 0.1313953406431665 YRQKSLVF 8 Unmodified _YRQKSLVF_ 0 0 0 REV__ENSG00000108784|ENST00000225927|NAGLU REV__ENSG00000108784|ENST00000225927|NAGLU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 521.2984619140625 2 520.798009 1039.58147 3.5171 0.0018317 0.32945 0.00017157 3.8465 0.0020033 520.7984510180095 48.861 0.4848 49.123 48.902 49.387 0.26209 40 18 3 0 0 0 0.47805 1 22401 22401 21.747 3.6117 1 1074200 + 39323 11154 24944 25025 44310 44310 0.06325753059809358 YRQKSLVF 8 Unmodified _YRQKSLVF_ 0 0 0 REV__ENSG00000108784|ENST00000225927|NAGLU REV__ENSG00000108784|ENST00000225927|NAGLU MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 520.798009 1039.58147 3.219 0.0016765 0.66445 0.00034604 3.8835 0.0020225 520.7983172555615 49.122 0.28456 49.122 48.966 49.251 0 0.036718 0.00054915 NaN 21.747 25 14 2 NaN NaN NaN NaN 0 NaN NaN 0 923200 + 39324 11154 24944 25025 0.06325753059809358 YRQKSLVF 8 Unmodified _YRQKSLVF_ 0 0 0 REV__ENSG00000108784|ENST00000225927|NAGLU REV__ENSG00000108784|ENST00000225927|NAGLU MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 520.798009 1039.58147 3.488 0.0018166 -0.28265 -0.0001472 3.2054 0.0016694 521.2989710316888 48.358 0.40114 49.011 48.729 49.13 0.65356 -0.074148 -0.00043735 NaN 21.747 35 15 3 NaN NaN NaN NaN 0 NaN NaN 0 623850 + 39325 11154 24944 25025 0.06325753059809358 YRQQNLDMF 9 Unmodified _YRQQNLDMF_ 0 0 0 ENSG00000146352|ENST00000275162|CLVS2 ENSG00000146352|ENST00000275162|CLVS2 ENSG00000146352|ENST00000275162|CLVS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 405.5257568359375 3 405.525607 1213.55499 NaN NaN NaN NaN NaN NaN NaN 37.686 1 37.686 37.186 38.186 0 0 0 0 0.91014 1 17103 17103 1.0715 0.20709 1 39326 3512 24945 25026 44311 44311 -0.04324303893849901 YRQQNLDMF 9 Unmodified _YRQQNLDMF_ 0 0 0 ENSG00000146352|ENST00000275162|CLVS2 ENSG00000146352|ENST00000275162|CLVS2 ENSG00000146352|ENST00000275162|CLVS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 405.5252990722656 3 405.525607 1213.55499 NaN NaN NaN NaN NaN NaN NaN 39.587 1 39.587 39.087 40.087 0 0 0 0 0.90335 1 17964 17964 2.7352 1.0826 1 39327 3512 24945 25026 44312 44312 -0.04324303893849901 YRQQNLDMF 9 Unmodified _YRQQNLDMF_ 0 0 0 ENSG00000146352|ENST00000275162|CLVS2 ENSG00000146352|ENST00000275162|CLVS2 ENSG00000146352|ENST00000275162|CLVS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 405.5379638671875 3 405.525607 1213.55499 NaN NaN NaN NaN NaN NaN NaN 39.786 1 39.786 39.286 40.286 0 0 0 0 0.83378 1 18057 18057 8.1555 1.5252 1 39328 3512 24945 25026 44313 44313 -0.04324303893849901 YRQQNLDMF 9 Unmodified _YRQQNLDMF_ 0 0 0 ENSG00000146352|ENST00000275162|CLVS2 ENSG00000146352|ENST00000275162|CLVS2 ENSG00000146352|ENST00000275162|CLVS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 405.52557373046875 3 405.525607 1213.55499 NaN NaN NaN NaN NaN NaN NaN 36.436 1 37.229 36.729 37.729 0.79342 0 0 0 0.90335 1 16513 16513 2.7352 1.0826 1 39329 3512 24945 25026 44314 44314 -0.04324303893849901 YRQQNLDMF 9 Unmodified _YRQQNLDMF_ 0 0 0 ENSG00000146352|ENST00000275162|CLVS2 ENSG00000146352|ENST00000275162|CLVS2 ENSG00000146352|ENST00000275162|CLVS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.52545166015625 3 405.525607 1213.55499 NaN NaN NaN NaN NaN NaN NaN 37.327 1 37.588 37.088 38.088 0.26083 0 0 0 0.91014 1 17001 17001 1.0715 0.3738 1 39330 3512 24945 25026 44315 44315 -0.04324303893849901 YRQQNLDMF 9 Unmodified _YRQQNLDMF_ 0 0 0 ENSG00000146352|ENST00000275162|CLVS2 ENSG00000146352|ENST00000275162|CLVS2 ENSG00000146352|ENST00000275162|CLVS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.5253601074219 3 405.525607 1213.55499 NaN NaN NaN NaN NaN NaN NaN 36.633 1 37.263 36.763 37.763 0.62999 0 0 0 0.91014 1 16772 16772 1.0715 0.20709 1 39331 3512 24945 25026 44316 44316 -0.04324303893849901 YRQQNLDMF 9 Unmodified _YRQQNLDMF_ 0 0 0 ENSG00000146352|ENST00000275162|CLVS2 ENSG00000146352|ENST00000275162|CLVS2 ENSG00000146352|ENST00000275162|CLVS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.5254211425781 3 405.525607 1213.55499 NaN NaN NaN NaN NaN NaN NaN 36.757 1 37.387 36.887 37.887 0.62999 0 0 0 0.90335 1 16828 16828 2.7352 1.0826 1 39332 3512 24945 25026 44317 44317 -0.04324303893849901 YRQQNLDMF 9 Unmodified _YRQQNLDMF_ 0 0 0 ENSG00000146352|ENST00000275162|CLVS2 ENSG00000146352|ENST00000275162|CLVS2 ENSG00000146352|ENST00000275162|CLVS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.5252380371094 3 405.525607 1213.55499 NaN NaN NaN NaN NaN NaN NaN 39.078 1 39.715 39.215 40.215 0.63778 0 0 0 0.91014 1 17863 17863 1.0715 0.10919 1 39333 3512 24945 25026 44318 44318 -0.04324303893849901 YRQQNLDMF 9 Unmodified _YRQQNLDMF_ 0 0 0 ENSG00000146352|ENST00000275162|CLVS2 ENSG00000146352|ENST00000275162|CLVS2 ENSG00000146352|ENST00000275162|CLVS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.53765869140625 3 405.525607 1213.55499 NaN NaN NaN NaN NaN NaN NaN 39.326 1 39.964 39.464 40.464 0.63778 0 0 0 0.83378 1 17974 17974 8.1555 0.54658 1 39334 3512 24945 25026 44319 44319 -0.04324303893849901 YRRFRRERRQR 11 Unmodified _YRRFRRERRQR_ 0 0 0 REV__nc|ENSG00000204498|Q9UBC1-2|NFKBIL1 REV__nc|ENSG00000204498|Q9UBC1-2|NFKBIL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 840.1737670898438 2 839.982904 1677.95125 NaN NaN NaN NaN NaN NaN NaN 86.574 1 86.574 86.074 87.074 0 0 0 0 1.0082 1 44415 44415 0 0 1 + 39335 14421 24946 25027 44320 44320 0.13939736782504042 YRRHKLTRIVK 11 Unmodified _YRRHKLTRIVK_ 0 0 0 REV__ENSG00000155657|ENST00000589042|TTN REV__ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 735.4617919921875 2 735.462419 1468.91028 NaN NaN NaN NaN NaN NaN NaN 32.458 1 33.077 32.577 33.577 0.61831 0 0 0 1.0082 1 14884 14884 0 0 1 + 39336 12747 24947 25028 44321 44321 0.19458582690322146 YRRKFPLAL 9 Unmodified _YRRKFPLAL_ 0 0 0 REV__nc|ENSG00000104299|Q9NV88-3|INTS9 REV__nc|ENSG00000104299|Q9NV88-3|INTS9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.6925659179688 2 582.356025 1162.6975 NaN NaN NaN NaN NaN NaN NaN 3.6153 1 3.9916 3.4916 4.4916 0.37632 0 0 0 0.91452 1 1641 1641 0 0 1 + 39337 10986 24948 25029 44322 44322 0.12265696630515777 YRRKFPLAL 9 Unmodified _YRRKFPLAL_ 0 0 0 REV__nc|ENSG00000104299|Q9NV88-3|INTS9 REV__nc|ENSG00000104299|Q9NV88-3|INTS9 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.1918334960938 2 582.356025 1162.6975 NaN NaN NaN NaN NaN NaN NaN 3.9202 1 4.2966 3.7966 4.7966 0.37632 0 0 0 0.91452 1 1779 1779 0 0 1 + 39338 10986 24948 25029 44323 44323 0.12265696630515777 YRRKKQKST 9 Unmodified _YRRKKQKST_ 0 0 0 REV__ENST00000282964.5_1_21:21112145-21112373:+|nuORF REV__ENST00000282964.5_1_21:21112145-21112373:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.8571166992188 2 597.856921 1193.69929 3.9924 0.0023869 -0.84278 -0.00050386 3.1496 0.001883 597.8562840729154 88.049 1.5851 88.3 87.389 88.974 0.25064 150 71 3 0 0 0 1.2169 2 40174 40174;40456 0.45834 0 1 2539600 + 39339 15095 24949 25030 44324;44325 44324 0.11018705648439209 YRRKKQKST 9 Unmodified _YRRKKQKST_ 0 0 0 REV__ENST00000282964.5_1_21:21112145-21112373:+|nuORF REV__ENST00000282964.5_1_21:21112145-21112373:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.8580322265625 2 597.856921 1193.69929 4.1819 0.0025002 -1.1487 -0.00068674 3.0332 0.0018134 597.856047462573 87.599 1.5253 88.275 87.488 89.013 0.67554 152 70 4 0 0 0 1.2169 1 40183 40183 0.45834 0 1 3695000 + 39340 15095 24949 25030 44326 44326 0.11018705648439209 YRRKRHWTHDW 11 Unmodified _YRRKRHWTHDW_ 0 0 0 ENST00000307720.3_1_4:159640431-159642568:-|nuORF ENST00000307720.3_1_4:159640431-159642568:-|nuORF ENST00000307720.3_1_4:159640431-159642568:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 820.5921630859375 2 820.918907 1639.82326 NaN NaN NaN NaN NaN NaN NaN 83.297 1 83.297 82.797 83.797 0 0 0 0 1.008 1 41926 41926 0.30703 0.30703 1 39341 6846 24950 25031 44327 44327 0.028941764686351235 YRRLPQAKL 9 Unmodified _YRRLPQAKL_ 0 0 0 REV__nc|ENSG00000102001|O60840-5|CACNA1F REV__nc|ENSG00000102001|O60840-5|CACNA1F MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 382.2380065917969 3 382.236497 1143.68766 2.8956 0.0011068 -0.42792 -0.00016357 2.4677 0.00094325 382.23630784452087 8.4469 0.45046 8.4469 8.1219 8.5723 0 81 46 2 0 0 0 1.178 1 3799 3799 1.0715 0.20709 1 65646 + 39342 10914 24951 25032 44328 44328 0.12156508625139395 YRRNFNYRRRR 11 Unmodified _YRRNFNYRRRR_ 0 0 0 ENSG00000065978|ENST00000321358|YBX1 ENSG00000065978|ENST00000321358|YBX1 ENSG00000065978|ENST00000321358|YBX1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 829.1506958007812 2 828.956355 1655.89816 NaN NaN NaN NaN NaN NaN NaN 79.021 1 79.486 78.986 79.986 0.4642 0 0 0 1.0082 1 38530 38530 0 0 1 39343 698 24952 25033 44329 44329 0.09644358999821634 YRRPLRPKDLW 11 Unmodified _YRRPLRPKDLW_ 0 0 0 ABCC6|p.R987Lfs*25|1|0.2|ENSG00000091262|chr16:16169681-16169681|C/-|frameshift_variant;ABCC6|p.R1418Gfs*46|1|0.12|ENSG00000091262|chr16:16150729-16150729|G/-|frameshift_variant;ENSG00000091262|ENST00000205557|ABCC6;ENST00000574094.5_1_16:16275679-16317348:-|nuORF;nc|ENSG00000091262|O95255-3|ABCC6 ABCC6|p.R987Lfs*25|1|0.2|ENSG00000091262|chr16:16169681-16169681|C/-|frameshift_variant ABCC6|p.R987Lfs*25|1|0.2|ENSG00000091262|chr16:16169681-16169681|C/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 500.9024963378906 3 500.624643 1498.8521 NaN NaN NaN NaN NaN NaN NaN 53.674 1 54.478 53.978 54.978 0.80351 0 0 0 1.0079 1 24494 24494 0.50596 0.051438 1 39344 0 24953 25034 44330 44330 0.12262901045073704 YRRPRPWYYT 10 Unmodified _YRRPRPWYYT_ 0 0 0 REV__nc|ENSG00000236362|P0CL80-2|GAGE12F REV__nc|ENSG00000236362|P0CL80-2|GAGE12F MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 729.3766479492188 2 729.375478 1456.7364 NaN NaN NaN NaN NaN NaN NaN 82.027 1 82.274 81.774 82.774 0.24722 0 0 0 1.0003 1 37755 37755 1.4819 0.28856 1 + 39345 14466 24954 25035 44331 44331 0.026303771942139065 YRRRLWKWWK 10 Unmodified _YRRRLWKWWK_ 0 0 0 ENST00000461642.2_1_20:25470551-25477423:-|nuORF ENST00000461642.2_1_20:25470551-25477423:-|nuORF ENST00000461642.2_1_20:25470551-25477423:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 526.636962890625 3 526.636995 1576.88916 NaN NaN NaN NaN NaN NaN NaN 13.304 1 13.612 13.112 14.112 0.30727 0 0 0 1.002 1 6001 6001 0 0 1 39346 8087 24955 25036 44332 44332 0.12378617381455115 YRRRLWKWWKS 11 Unmodified _YRRRLWKWWKS_ 0 0 0 ENST00000461642.2_1_20:25470551-25477423:-|nuORF ENST00000461642.2_1_20:25470551-25477423:-|nuORF ENST00000461642.2_1_20:25470551-25477423:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 832.96728515625 2 832.967868 1663.92118 NaN NaN NaN NaN NaN NaN NaN 89.087 1 89.139 88.639 89.639 0.052155 0 0 0 1.0082 1 45567 45567 0 0 1 39347 8087 24956 25037 44333 44333 0.11577985064604945 YRRRRQKYLHR 11 Unmodified _YRRRRQKYLHR_ 0 0 0 REV__nc|ENSG00000074696|Q9P035-2|HACD3 REV__nc|ENSG00000074696|Q9P035-2|HACD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 816.4780883789062 2 816.476923 1630.93929 NaN NaN NaN NaN NaN NaN NaN 92.203 1 92.455 91.955 92.955 0.25253 0 0 0 1.0082 1 42388 42388 0 0 1 + 39348 10518 24957 25038 44334 44334 0.14906120039336201 YRRRVVYMRWY 11 Unmodified _YRRRVVYMRWY_ 0 0 0 REV__nc|ENSG00000197535|Q9Y4I1-2|MYO5A REV__nc|ENSG00000197535|Q9Y4I1-2|MYO5A MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 824.4346923828125 2 824.438086 1646.86162 NaN NaN NaN NaN NaN NaN NaN 43.621 1 44.27 43.77 44.77 0.64872 0 0 0 1.008 1 19991 19991 0.30703 0 1 + 39349 14286 24958 25039 44335 44335 0.06406346058929557 YRRRYRWHSRP 11 Unmodified _YRRRYRWHSRP_ 0 0 0 REV__ENST00000465608.1_1_10:99344097-99344382:+|nuORF REV__ENST00000465608.1_1_10:99344097-99344382:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 816.9423217773438 2 816.940173 1631.86579 NaN NaN NaN NaN NaN NaN NaN 79.112 1 79.112 78.612 79.612 0 0 0 0 1.0082 1 39031 39031 0 0 1 + 39350 16540 24959 25040 44336 44336 0.07513571596882684 YRRTIRGR 8 Unmodified _YRRTIRGR_ 0 0 0 ENST00000559585.5_1_15:35782392-35838342:-|nuORF;ENST00000560526.1_1_15:35830456-35838342:-|nuORF;ENST00000559784.5_1_15:35703087-35834683:-|nuORF;nc|ENSG00000134146|Q7L8W6-2|DPH6;ENSG00000134146|ENST00000256538|DPH6 ENST00000559585.5_1_15:35782392-35838342:-|nuORF ENST00000559585.5_1_15:35782392-35838342:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 539.3244018554688 2 539.323048 1076.63154 3.474 0.0018736 -1.4844 -0.00080057 1.9896 0.001073 539.3223426197942 86.363 0.23734 87.034 86.847 87.084 0.6706 13 10 2 0 0 0 0.74709 1 39782 39782 2.0598 0 1 671580 39351 2787 24960 25041 44337 44337 0.0962930050829982 YRRYIRMYRFY 11 Unmodified _YRRYIRMYRFY_ 0 0 0 REV__nc|ENSG00000179397|Q5SY80-3|CATSPERE REV__nc|ENSG00000179397|Q5SY80-3|CATSPERE MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 843.6962890625 2 843.937919 1685.86129 NaN NaN NaN NaN NaN NaN NaN 95.547 1 95.547 95.047 96.047 0 0 0 0 1.0082 1 51475 51475 0 0 1 + 39352 13796 24961 25042 44338 44338 0.045789263390815904 YRRYIYEPLH 10 Unmodified _YRRYIYEPLH_ 0 0 0 nc|ENSG00000179397|Q5SY80-3|CATSPERE;ENSG00000179397|ENST00000366534|CATSPERE nc|ENSG00000179397|Q5SY80-3|CATSPERE nc|ENSG00000179397|Q5SY80-3|CATSPERE MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 705.3697509765625 2 705.369861 1408.72517 NaN NaN NaN NaN NaN NaN NaN 79.955 1 80.616 80.116 81.116 0.66082 0 0 0 1.0015 1 36841 36841 0.45834 0 1 39353 5215 24962 25043 44339 44339 0.037155551000751075 YRRYKRQHRRR 11 Unmodified _YRRYKRQHRRR_ 0 0 0 REV__nc|ENSG00000117616|Q9BUV0-3|RSRP1 REV__nc|ENSG00000117616|Q9BUV0-3|RSRP1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 837.9818725585938 2 837.985447 1673.95634 NaN NaN NaN NaN NaN NaN NaN 57.852 1 58.52 58.02 59.02 0.66829 0 0 0 1.0082 1 26474 26474 0 0 1 + 39354 11450 24963 25044 44340 44340 0.1463204064511956 YRRYRIWKRRR 11 Unmodified _YRRYRIWKRRR_ 0 0 0 REV__nc|ENSG00000205356|Q7Z6L1-3|TECPR1 REV__nc|ENSG00000205356|Q7Z6L1-3|TECPR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 855.007568359375 2 855.00839 1708.00223 NaN NaN NaN NaN NaN NaN NaN 88.731 1 88.783 88.283 89.283 0.052155 0 0 0 1.0082 1 45293 45293 0 0 1 + 39355 14459 24964 25045 44341 44341 0.1765468582734684 YRSRWSEL 8 Unmodified _YRSRWSEL_ 0 0 0 REV__nc|ENSG00000136811|Q5BJF6-9|ODF2 REV__nc|ENSG00000136811|Q5BJF6-9|ODF2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.1916809082031 3 366.189324 1095.54614 NaN NaN NaN NaN NaN NaN NaN 46.413 1 47.242 46.742 47.742 0.82915 0 0 0 0.99035 1 21140 21140 1.4819 0.15237 1 + 39356 12081 24965 25046 44342 44342 0.002190905319821468 YRVFFGLV 8 Unmodified _YRVFFGLV_ 0 0 0 REV__nc|ENSG00000164037|Q4ZJI4-2|SLC9B1 REV__nc|ENSG00000164037|Q4ZJI4-2|SLC9B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 500.7857666015625 2 500.78437 999.554188 3.0053 0.001505 -0.2036 -0.00010196 2.8017 0.0014031 500.78431847377027 15.377 1.5788 15.683 15.355 16.934 0.306 389 174 3 0 0 0 0.7471 1 7461 7461 0.79363 0 1 271930 + 39357 13051 24966 25047 44343 44343 0.05439269519422396 YRVFVGFL 8 Unmodified _YRVFVGFL_ 0 0 0 ENSG00000177464|ENST00000323040|GPR4 REV__ENSG00000140519|ENST00000268122|RHCG REV__ENSG00000140519|ENST00000268122|RHCG MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 500.7861022949219 2 500.78437 999.554188 3.2863 0.0016457 0.091434 4.5789E-05 3.3778 0.0016915 500.78447898530436 15.539 1.8154 16.192 15.751 17.566 0.65356 592 218 4 0 0 0 0.7471 1 7388 7388 0.79363 0 1 526190 39358 12252 24967 25048 44344 44344 0.05439269519433765 YRVRVYQI 8 Unmodified _YRVRVYQI_ 0 0 0 nc|ENSG00000204305|Q15109-8|AGER;nc|ENSG00000204305|Q15109-2|AGER;nc|ENSG00000204305|Q15109-3|AGER;nc|ENSG00000204305|Q15109-9|AGER;nc|ENSG00000204305|Q15109-4|AGER;nc|ENSG00000204305|Q15109-10|AGER;nc|ENSG00000204305|Q15109-7|AGER;ENSG00000204305|ENST00000375076|AGER;nc|ENSG00000204305|Q15109-6|AGER nc|ENSG00000204305|Q15109-8|AGER nc|ENSG00000204305|Q15109-8|AGER MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 366.2141418457031 3 366.213581 1095.61891 2.3789 0.00087119 -0.0014073 -5.1536E-07 2.3775 0.00087068 366.2135003312875 15.012 0.42364 15.238 15.078 15.501 0.22622 74 52 2 0 0 0 0.7471 1 6629 6629 1.8442 0 1 109420 39359 5998 24968 25049 44345 44345 0.07492844325406622 YRWATDYY 8 Unmodified _YRWATDYY_ 0 0 0 ENST00000483316.1_1_2:160319292-160319418:-|nuORF ENST00000483316.1_1_2:160319292-160319418:-|nuORF ENST00000483316.1_1_2:160319292-160319418:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 568.9300537109375 2 569.253631 1136.49271 NaN NaN NaN NaN NaN NaN NaN 15.6 1 15.811 15.311 16.311 0.21108 0 0 0 0.99035 1 6883 6883 0.69038 0 1 39360 8308 24969 25050 44346 44346 -0.07007706970557592 YRWPMRYDQWW 11 Unmodified _YRWPMRYDQWW_ 0 0 0 ENSG00000126107|ENST00000372172|HECTD3;nc|ENSG00000126107|Q5T447-2|HECTD3 ENSG00000126107|ENST00000372172|HECTD3 ENSG00000126107|ENST00000372172|HECTD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 562.8042602539062 3 562.925994 1685.75615 NaN NaN NaN NaN NaN NaN NaN 63.37 1 63.37 62.87 63.87 0 0 0 0 1.0082 1 29809 29809 0 0 1 39361 2444 24970 25051 44347 44347 -0.059296148573366736 YRWPMRYDQWW 11 Unmodified _YRWPMRYDQWW_ 0 0 0 ENSG00000126107|ENST00000372172|HECTD3;nc|ENSG00000126107|Q5T447-2|HECTD3 ENSG00000126107|ENST00000372172|HECTD3 ENSG00000126107|ENST00000372172|HECTD3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 562.4932250976562 3 562.925994 1685.75615 NaN NaN NaN NaN NaN NaN NaN 66.684 1 66.934 66.434 67.434 0.2501 0 0 0 1.0082 1 30548 30548 0 0 1 39362 2444 24970 25051 44348 44348 -0.059296148573366736 YRWRRRKRTRW 11 Unmodified _YRWRRRKRTRW_ 0 0 0 REV__ENST00000433071.2_1_21:32931573-32932426:+|nuORF REV__ENST00000433071.2_1_21:32931573-32932426:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 573.6116943359375 3 574.001219 1718.98183 3.2487 0.0018647 -2.2494 -0.0012912 0.99929 0.00057359 573.9986591149489 61.815 0.02565 61.815 61.796 61.822 0 5 3 2 0 0 0 0.13295 1 28865 28865 0 0 1 9167900 + 39363 16277 24971 25052 44349 44349 0.15109515167546306 YRWWWRNFLVS 11 Unmodified _YRWWWRNFLVS_ 0 0 0 ENST00000479591.1_1_20:30749036-30753244:+|nuORF;ENSG00000101337|ENST00000398022|TM9SF4 ENST00000479591.1_1_20:30749036-30753244:+|nuORF;ENSG00000101337|ENST00000398022|TM9SF4 ENST00000479591.1_1_20:30749036-30753244:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 806.9121704101562 2 806.912227 1611.8099 NaN NaN NaN NaN NaN NaN NaN 93.063 1 93.318 92.818 93.818 0.25497 0 0 0 1.0082 1 42776 42776 0 0 1 39364 8265;1284 24972 25053 44350 44350 0.028469256366861373 YRYKYDLPKEE 11 Unmodified _YRYKYDLPKEE_ 0 0 0 REV__ENST00000474457.1_1_6:52958219-52962625:+|nuORF REV__ENST00000474457.1_1_6:52958219-52962625:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 501.9225769042969 3 501.920791 1502.74054 NaN NaN NaN NaN NaN NaN NaN 39.016 1 39.016 38.516 39.516 0 0 0 0 1.0073 1 17707 17707 0.40827 0 1 + 39365 11261 24973 25054 44351 44351 0.009283771066293411 YRYLQRRKKK 10 Unmodified _YRYLQRRKKK_ 0 0 0 ENST00000471987.1_1_1:207956671-207959028:+|nuORF;nc|ENSG00000117335|P15529-16|CD46;nc|ENSG00000117335|P15529-15|CD46;nc|ENSG00000117335|P15529-7|CD46;nc|ENSG00000117335|P15529-12|CD46;nc|ENSG00000117335|P15529-14|CD46;nc|ENSG00000117335|P15529-4|CD46;nc|ENSG00000117335|P15529-6|CD46;ENSG00000117335|ENST00000367042|CD46;nc|ENSG00000117335|P15529-13|CD46;nc|ENSG00000117335|P15529-3|CD46;nc|ENSG00000117335|P15529-5|CD46;nc|ENSG00000117335|P15529-10|CD46;nc|ENSG00000117335|P15529|CD46;nc|ENSG00000117335|P15529-2|CD46 ENST00000471987.1_1_1:207956671-207959028:+|nuORF ENST00000471987.1_1_1:207956671-207959028:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 719.4869995117188 2 719.941319 1437.86809 NaN NaN NaN NaN NaN NaN NaN 65.768 1 66.017 65.517 66.517 0.24848 0 0 0 1.002 1 30129 30129 0 0 1 39366 2069 24974 25055 44352 44352 0.1666660728194529 YRYVEHYDS 9 Unmodified _YRYVEHYDS_ 0 0 0 OTUD3|p.G180V|1|0.36|ENSG00000169914|chr1:19897595-19897595|G/T|missense_variant OTUD3|p.G180V|1|0.36|ENSG00000169914|chr1:19897595-19897595|G/T|missense_variant OTUD3|p.G180V|1|0.36|ENSG00000169914|chr1:19897595-19897595|G/T|missense_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 411.1845703125 3 411.184127 1230.53055 2.7841 0.0011448 -1.176 -0.00048354 1.6081 0.00066123 411.1834902923429 37.505 0.39614 37.505 37.322 37.718 0 23 14 2 0 0 0 1.1154 1 17081 17081 1.0715 0 1 386990 39367 9902 24975 25056 44353 44353 -0.07549240775711041 YRYYGCWWYRH 11 Unmodified _YRYYGCWWYRH_ 0 0 0 REV__ENST00000602591.1_1_6:30256646-30256907:-|nuORF REV__ENST00000602591.1_1_6:30256646-30256907:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 826.8643798828125 2 826.86442 1651.71429 NaN NaN NaN NaN NaN NaN NaN 105.79 1 106.11 105.61 106.61 0.31782 0 0 0 1.0082 1 48830 48830 0 0 1 + 39368 17644 24976 25057 44354 44354 -0.08550170545845504 YSCLECGPEA 10 Unmodified _YSCLECGPEA_ 0 0 0 REV__ENST00000313401.3_1_17:30817050-30817605:+|nuORF REV__ENST00000313401.3_1_17:30817050-30817605:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 536.2119750976562 2 536.209718 1070.40488 3.09 0.0016569 -0.29004 -0.00015552 2.8 0.0015014 536.2098903030826 39.765 0.47486 40.565 40.28 40.754 0.80014 68 23 4 0 0 0 0.27335 1 18045 18045 30.637 8.8899 1 2665300 + 39369 15278 24977 25058 44355 44355 -0.1275041194780897 YSCLECGPEA 10 Unmodified _YSCLECGPEA_ 0 0 0 REV__ENST00000313401.3_1_17:30817050-30817605:+|nuORF REV__ENST00000313401.3_1_17:30817050-30817605:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.2116088867188 2 536.209718 1070.40488 3.1394 0.0016834 0.14707 7.8861E-05 3.2865 0.0017623 536.2100438751594 40.497 0.45311 40.766 40.46 40.913 0.26904 40 15 4 0 0 0 0.42206 1 18465 18465 24.021 12.38 1 2457200 + 39370 15278 24977 25058 44356 44356 -0.1275041194780897 YSCLECGPEA 10 Unmodified _YSCLECGPEA_ 0 0 0 REV__ENST00000313401.3_1_17:30817050-30817605:+|nuORF REV__ENST00000313401.3_1_17:30817050-30817605:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 536.212158203125 2 536.209718 1070.40488 3.4839 0.0018681 -1.0986 -0.0005891 2.3852 0.001279 536.2098402913969 40.112 0.36899 40.754 40.471 40.84 0.64135 33 14 4 0 0 0 0.42206 1 18349 18349 24.021 10.513 1 2235500 + 39371 15278 24977 25058 44357 44357 -0.1275041194780897 YSDASFGA 8 Unmodified _YSDASFGA_ 0 0 0 REV__nc|ENSG00000166405|Q7Z5B4-3|RIC3 REV__nc|ENSG00000166405|Q7Z5B4-3|RIC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.17449951171875 2 409.171776 816.328998 NaN NaN NaN NaN NaN NaN NaN 67.967 1 68.219 67.719 68.719 0.25227 0 0 0 0.99035 1 31134 31134 2.5775 0 1 + 39372 13235 24978 25059 44358 44358 -0.08651304741420063 YSDASFGA 8 Unmodified _YSDASFGA_ 0 0 0 REV__nc|ENSG00000166405|Q7Z5B4-3|RIC3 REV__nc|ENSG00000166405|Q7Z5B4-3|RIC3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.59063720703125 2 409.171776 816.328998 NaN NaN NaN NaN NaN NaN NaN 67.681 1 68.338 67.838 68.838 0.65777 0 0 0 0.99035 1 31024 31024 2.5775 0 1 + 39373 13235 24978 25059 44359 44359 -0.08651304741420063 YSDPDFEHESF 11 Unmodified _YSDPDFEHESF_ 0 0 0 REV__nc|ENSG00000166783|Q9Y4F3-3|MARF1 REV__nc|ENSG00000166783|Q9Y4F3-3|MARF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 686.7734375 2 686.770039 1371.52553 NaN NaN NaN NaN NaN NaN NaN 11.423 1 11.73 11.23 12.23 0.30727 0 0 0 1.0082 1 5170 5170 0 0 1 + 39374 13258 24979 25060 44360 44360 -0.14537589429005493 YSDSDDDS 8 Unmodified _YSDSDDDS_ 0 0 0 nc|ENSG00000132970|Q9UPY6-2|WASF3;ENSG00000132970|ENST00000335327|WASF3 nc|ENSG00000132970|Q9UPY6-2|WASF3 nc|ENSG00000132970|Q9UPY6-2|WASF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 903.2879638671875 1 903.285027 902.277751 3.0699 0.002773 -0.57632 -0.00052058 2.4936 0.0022524 903.2854760253986 7.9494 0.15164 8.2752 8.1643 8.316 0.32587 23 18 2 0 0 0 0.7471 1 3558 3558 0 0 1 29280 39375 2740 24980 25061 44361 44361 -0.17729718296800456 YSDSDDDS 8 Unmodified _YSDSDDDS_ 0 0 0 nc|ENSG00000132970|Q9UPY6-2|WASF3;ENSG00000132970|ENST00000335327|WASF3 nc|ENSG00000132970|Q9UPY6-2|WASF3 nc|ENSG00000132970|Q9UPY6-2|WASF3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 903.2892456054688 1 903.285027 902.277751 3.0989 0.0027992 -0.61519 -0.00055569 2.4837 0.0022435 903.2863717754808 1.6844 0.036922 1.9885 1.9675 2.0044 0.30411 8 3 3 0 0 0 0.7471 1 774 774 0 0 1 31333 39376 2740 24980 25061 44362 44362 -0.17729718296800456 YSDSDDDS 8 Unmodified _YSDSDDDS_ 0 0 0 nc|ENSG00000132970|Q9UPY6-2|WASF3;ENSG00000132970|ENST00000335327|WASF3 nc|ENSG00000132970|Q9UPY6-2|WASF3 nc|ENSG00000132970|Q9UPY6-2|WASF3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 903.285027 902.277751 3.9343 0.0035538 -0.32984 -0.00029794 3.6044 0.0032558 903.2864118145174 8.0951 0.037683 8.0951 8.0766 8.1143 0 -0.090044 0.00019029 NaN 0 5 4 2 NaN NaN NaN NaN 0 NaN NaN 0 19494 39377 2740 24980 25061 -0.17729718296800456 YSEDQRYD 8 Unmodified _YSEDQRYD_ 0 0 0 REV__nc|ENSG00000159403|P00736|C1R REV__nc|ENSG00000159403|P00736|C1R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 359.1492614746094 3 359.149082 1074.42542 NaN NaN NaN NaN NaN NaN NaN 53.215 1 54.019 53.519 54.519 0.80351 0 0 0 0.99035 1 24263 24263 3.5965 1.6901 1 + 39378 12851 24981 25062 44363 44363 -0.10881781972125282 YSEDQRYD 8 Unmodified _YSEDQRYD_ 0 0 0 REV__nc|ENSG00000159403|P00736|C1R REV__nc|ENSG00000159403|P00736|C1R MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 359.1492919921875 3 359.149082 1074.42542 NaN NaN NaN NaN NaN NaN NaN 53.353 1 54.157 53.657 54.657 0.80351 0 0 0 0.99035 1 24336 24336 3.5965 1.6901 1 + 39379 12851 24981 25062 44364 44364 -0.10881781972125282 YSEITPVSQQY 11 Unmodified _YSEITPVSQQY_ 0 0 0 Tigger6a_dup51|chr2:34785001-34785808:+|2.105089876760541|0.2357752546398106|3.16|529.0|1|1|sense Tigger6a_dup51|chr2:34785001-34785808:+|2.105089876760541|0.2357752546398106|3.16|529.0|1|1|sense Tigger6a_dup51|chr2:34785001-34785808:+|2.105089876760541|0.2357752546398106|3.16|529.0|1|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 657.8170776367188 2 657.81425 1313.61395 NaN NaN NaN NaN NaN NaN NaN 86.076 1 86.747 86.247 87.247 0.67061 0 0 0 1.0061 1 39638 39638 2.7352 0.67545 1 39380 18275 24982 25063 44365 44365 -0.03031549118509247 YSEWHSCV 8 Unmodified _YSEWHSCV_ 0 0 0 REV__nc|ENSG00000157890|A6BM72-3|MEGF11 REV__nc|ENSG00000157890|A6BM72-3|MEGF11 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 505.70538330078125 2 505.70546 1009.39637 2.7836 0.0014077 -1.9484 -0.00098529 0.83524 0.00042239 505.70388337346594 59.111 0.32365 59.87 59.73 60.053 0.75894 48 25 3 0 0 0 0.70146 1 27201 27201 5.7604 1.816 1 2023700 + 39381 12811 24983 25064 44366 44366 -0.10795597802120938 YSGRLRLP 8 Unmodified _YSGRLRLP_ 0 0 0 ENSG00000213588|ENST00000395064|ZBTB9 ENSG00000213588|ENST00000395064|ZBTB9 ENSG00000213588|ENST00000395064|ZBTB9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 961.5626220703125 1 961.557776 960.550499 4.5096 0.0043363 -0.082622 -7.9446E-05 4.427 0.0042568 961.5577272760098 103.22 0.028999 103.54 103.52 103.55 0.31863 5 3 2 0 0 0 0.7471 1 47723 47723 0 0 1 449680 39382 6092 24984 25065 44367 44367 0.06864599745540545 YSGRLRLP 8 Unmodified _YSGRLRLP_ 0 0 0 ENSG00000213588|ENST00000395064|ZBTB9 ENSG00000213588|ENST00000395064|ZBTB9 ENSG00000213588|ENST00000395064|ZBTB9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 961.5621337890625 1 961.557776 960.550499 4.5098 0.0043364 -0.063474 -6.1034E-05 4.4463 0.0042754 961.5575680714452 103.31 0.040504 103.63 103.59 103.63 0.31863 8 2 4 0 0 0 0.7471 1 47762 47762 0 0 1 1317500 39383 6092 24984 25065 44368 44368 0.06864599745540545 YSGRLRLP 8 Unmodified _YSGRLRLP_ 0 0 0 ENSG00000213588|ENST00000395064|ZBTB9 ENSG00000213588|ENST00000395064|ZBTB9 ENSG00000213588|ENST00000395064|ZBTB9 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 961.557776 960.550499 4.0087 0.0038546 -0.79093 -0.00076053 3.2178 0.0030941 961.5569229381847 103.25 0.047394 103.85 103.82 103.87 0.59821 0.11263 -0.00047812 NaN 0 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 1143000 39384 6092 24984 25065 0.06864599745540545 YSGRLRLP 8 Unmodified _YSGRLRLP_ 0 0 0 ENSG00000213588|ENST00000395064|ZBTB9 ENSG00000213588|ENST00000395064|ZBTB9 ENSG00000213588|ENST00000395064|ZBTB9 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 961.557776 960.550499 4.0087 0.0038546 -0.16622 -0.00015983 3.8425 0.0036948 961.5572790264132 103.17 0.038376 103.77 103.75 103.79 0.59821 0.11576 -4.3181E-05 NaN 0 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 489190 39385 6092 24984 25065 0.06864599745540545 YSIPIRILLVK 11 Unmodified _YSIPIRILLVK_ 0 0 0 REV__ENST00000589716.5_1_17:40907159-40911837:-|nuORF REV__ENST00000589716.5_1_17:40907159-40911837:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 657.8466796875 2 657.929023 1313.84349 NaN NaN NaN NaN NaN NaN NaN 74.215 1 74.215 73.715 74.715 0 0 0 0 1.0038 1 36236 36236 5.7319 2.1354 1 + 39386 17570 24985 25066 44369 44369 0.19912534355876232 YSIRRLIKVRI 11 Unmodified _YSIRRLIKVRI_ 0 0 0 ENST00000503255.5_1_4:144918665-144940440:-|nuORF ENST00000503255.5_1_4:144918665-144940440:-|nuORF ENST00000503255.5_1_4:144918665-144940440:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 708.9612426757812 2 708.96172 1415.90889 NaN NaN NaN NaN NaN NaN NaN 77.934 1 78.188 77.688 78.688 0.25335 0 0 0 1.008 1 35891 35891 0.35063 0 1 39387 8486 24986 25067 44370 44370 0.21756948601569093 YSIVKDEILF 10 Unmodified _YSIVKDEILF_ 0 0 0 REV__ENSG00000172769|ENST00000641865|OR5B3 REV__ENSG00000172769|ENST00000641865|OR5B3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 409.89801025390625 3 409.560423 1225.65944 2.957 0.0012111 0.55164 0.00022593 3.5086 0.001437 409.56053218287644 63.685 0.30513 64.341 64.233 64.538 0.65672 32 22 2 0 0 0 0.90859 1 29246 29246 1.5923 0.13716 1 736600 + 39388 13560 24987 25068 44371 44371 0.05563721134512889 YSKIKSVLL 9 Unmodified _YSKIKSVLL_ 0 0 0 nc|ENSG00000154153|Q9H6L5-2|RETREG1;ENSG00000154153|ENST00000306320|RETREG1 nc|ENSG00000154153|Q9H6L5-2|RETREG1 nc|ENSG00000154153|Q9H6L5-2|RETREG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.8329467773438 2 525.831517 1049.64848 3.1421 0.0016522 0.21927 0.0001153 3.3614 0.0017675 525.8314335186462 38.62 0.1287 38.885 38.845 38.974 0.26408 10 6 2 0 0 0 0.061685 1 17592 17592 42.312 25.37 1 523540 39389 3807 24988 25069 44372 44372 0.12564363550905 YSKIKSVLL 9 Unmodified _YSKIKSVLL_ 0 0 0 nc|ENSG00000154153|Q9H6L5-2|RETREG1;ENSG00000154153|ENST00000306320|RETREG1 nc|ENSG00000154153|Q9H6L5-2|RETREG1 nc|ENSG00000154153|Q9H6L5-2|RETREG1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 351.22552490234375 3 350.890104 1049.64848 2.2873 0.00080259 0.97006 0.00034039 3.2574 0.001143 350.89037635469646 38.135 0.29238 38.769 38.581 38.873 0.63388 15 12 2 0 0 0 0.98132 1 17460 17460 2.4985 0.21571 1 427220 39390 3807 24988 25069 44373 44373 0.12564363550905 YSKKIKVV 8 Unmodified _YSKKIKVV_ 0 0 0 ENST00000460138.5_1_6:7881773-7881830:-|nuORF ENST00000460138.5_1_6:7881773-7881830:-|nuORF ENST00000460138.5_1_6:7881773-7881830:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 322.21234130859375 3 322.211177 963.611703 NaN NaN NaN NaN NaN NaN NaN 30.774 1 30.774 30.274 31.274 0 0 0 0 0.99035 1 13908 13908 0.45834 0 1 39391 8067 24989 25070 44374 44374 0.1284411172499631 YSKMHLRLV 9 Unmodified _YSKMHLRLV_ 0 0 0 REV__ENST00000284273.5_1_11:122680793-122681132:+|nuORF REV__ENST00000284273.5_1_11:122680793-122681132:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 573.8279418945312 2 573.826243 1145.63793 3.4264 0.0019662 -0.02831 -1.6245E-05 3.3981 0.0019499 573.8263738826344 44.009 0.29434 44.83 44.658 44.953 0.82074 33 20 2 0 0 0 0.75535 1 20019 20019 8.1555 0.24537 1 1113000 + 39392 15101 24990 25071 44375 44375 0.07094057624817651 YSKMHLRLV 9 Unmodified _YSKMHLRLV_ 0 0 0 REV__ENST00000284273.5_1_11:122680793-122681132:+|nuORF REV__ENST00000284273.5_1_11:122680793-122681132:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 573.826243 1145.63793 3.4967 0.0020065 -0.17031 -9.7727E-05 3.3264 0.0019088 573.826226647915 45.153 0.20358 45.153 45.069 45.272 0 0.07777 -0.00051756 NaN 8.1555 18 11 2 NaN NaN NaN NaN 0 NaN NaN 0 810360 + 39393 15101 24990 25071 0.07094057624817651 YSKMHLRLV 9 Unmodified _YSKMHLRLV_ 0 0 0 REV__ENST00000284273.5_1_11:122680793-122681132:+|nuORF REV__ENST00000284273.5_1_11:122680793-122681132:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 573.826243 1145.63793 3.4264 0.0019662 -0.02831 -1.6245E-05 3.3981 0.0019499 573.8263738826344 44.009 0.29434 44.83 44.658 44.953 0.82074 -0.24535 -0.00035459 NaN 8.1555 33 20 2 NaN NaN NaN NaN 0 NaN NaN 0 1113000 + 39394 15101 24990 25071 0.07094057624817651 YSKMHLRLV 9 Unmodified _YSKMHLRLV_ 0 0 0 REV__ENST00000284273.5_1_11:122680793-122681132:+|nuORF REV__ENST00000284273.5_1_11:122680793-122681132:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 573.826243 1145.63793 3.2322 0.0018547 0.64423 0.00036967 3.8764 0.0022244 573.8264224441397 44.975 0.23319 45.243 45.12 45.353 0.26768 0.16758 0.00041725 NaN 8.1555 17 11 2 NaN NaN NaN NaN 0 NaN NaN 0 451980 + 39395 15101 24990 25071 0.07094057624817651 YSKYYKTID 9 Unmodified _YSKYYKTID_ 0 0 0 ENSG00000186395|ENST00000269576|KRT10;CON__P13645 ENSG00000186395|ENST00000269576|KRT10 ENSG00000186395|ENST00000269576|KRT10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 394.2017517089844 3 394.201007 1179.58119 2.7236 0.0010736 -0.45981 -0.00018126 2.2638 0.00089239 394.20069250632156 20.136 0.25042 20.136 20.025 20.275 0 55 27 3 0 0 0 0.39731 1 8994 8994 14.218 7.1164 1 423570 + 39396 217 24991 25072 44376 44376 -0.0014171145071486535 YSKYYKTID 9 Unmodified _YSKYYKTID_ 0 0 0 ENSG00000186395|ENST00000269576|KRT10;CON__P13645 ENSG00000186395|ENST00000269576|KRT10 ENSG00000186395|ENST00000269576|KRT10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 394.2017822265625 3 394.201007 1179.58119 3.0179 0.0011897 -0.57473 -0.00022656 2.4432 0.00096312 394.5351380970603 19.408 0.15707 20.066 19.996 20.153 0.65829 17 10 2 0 0 0 0.62781 1 8830 8830 10.315 2.3698 1 379370 + 39397 217 24991 25072 44377 44377 -0.0014171145071486535 YSKYYKTID 9 Unmodified _YSKYYKTID_ 0 0 0 ENSG00000186395|ENST00000269576|KRT10;CON__P13645 ENSG00000186395|ENST00000269576|KRT10 ENSG00000186395|ENST00000269576|KRT10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.8005981445312 2 590.797872 1179.58119 3.879 0.0022917 0.87118 0.00051469 4.7501 0.0028064 590.7983688333394 19.438 0.11564 20.096 20.02 20.136 0.6583 11 7 2 0 0 0 0.22427 1 8831 8831 17.443 11.237 1 237180 + 39398 217 24991 25072 44378 44378 -0.0014171145071486535 YSKYYKTID 9 Unmodified _YSKYYKTID_ 0 0 0 ENSG00000186395|ENST00000269576|KRT10;CON__P13645 ENSG00000186395|ENST00000269576|KRT10 ENSG00000186395|ENST00000269576|KRT10 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 590.797872 1179.58119 3.5529 0.0020991 0.91828 0.00054252 4.4712 0.0026416 590.7988411558938 20.148 0.14264 20.148 20.09 20.233 0 0.025917 1.539E-05 NaN 17.443 20 15 2 NaN NaN NaN NaN 0 NaN NaN 0 150310 + 39399 217 24991 25072 -0.0014171145071486535 YSLGRNPALF 10 Unmodified _YSLGRNPALF_ 0 0 0 ENSG00000160882|ENST00000292427|CYP11B1 ENSG00000160882|ENST00000292427|CYP11B1 ENSG00000160882|ENST00000292427|CYP11B1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 379.8622131347656 3 379.873224 1136.59784 2.6272 0.000998 0.69308 0.00026328 3.3203 0.0012613 379.8734584054655 26.141 0.55051 26.766 26.58 27.131 0.62505 71 33 3 0 0 0 0.80002 1 12098 12098 8.4443 8.4443 1 492940 39400 4085 24992 25073 44379 44379 0.03500834225883409 YSLILTTL 8 Unmodified _YSLILTTL_ 0 0 0 REV__ENSG00000187122|ENST00000266058|SLIT1 REV__ENSG00000187122|ENST00000266058|SLIT1 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 308.90142822265625 3 308.519788 922.537535 2.5151 0.00077595 -1.0326 -0.00031857 1.4825 0.00045738 308.5193809202858 8.3293 0.67061 8.9559 8.628 9.2986 0.62663 80 46 2 0 0 0 0.14346 1 3748 3748 0.45834 0 1 104300 + 39401 14089 24993 25074 44380 44380 0.07316723842791362 YSLKALAAE 9 Unmodified _YSLKALAAE_ 0 0 0 REV__ASPG|p.S425Vfs*36|1|0.11|ENSG00000166183|chr14:104107185-104107185|A/-|frameshift_variant REV__ASPG|p.S425Vfs*36|1|0.11|ENSG00000166183|chr14:104107185-104107185|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 322.5152282714844 3 322.514925 964.522947 1.5296 0.00049333 -1.1028 -0.00035566 0.42685 0.00013767 322.5145593629148 1.4623 0.65912 1.7664 1.3084 1.9675 0.30411 120 53 4 0 0 0 1.2459 1 513 513 0 0 1 499940 + 39402 9972 24994 25075 44381 44381 0.03926651694644079 YSLKDSDGGGA 11 Unmodified _YSLKDSDGGGA_ 0 0 0 REV__ENST00000377689.2_1_9:38527126-38527906:+|nuORF REV__ENST00000377689.2_1_9:38527126-38527906:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 535.247314453125 2 535.24346 1068.47237 2.8146 0.0015065 2.504 0.0013403 5.3187 0.0028468 535.2465874935707 38.542 1.5627 38.806 38.603 40.165 0.26408 88 60 3 0 0 0 0.088834 2 17556 17556;17630 44.392 8.2649 1 1920900 + 39403 15838 24995 25076 44382;44383 44382 -0.05912922420998257 YSLLWLLL 8 Unmodified _YSLLWLLL_ 0 0 0 REV__ENSG00000281991|ENST00000615541|TMEM265 REV__ENSG00000281991|ENST00000615541|TMEM265 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 510.70635986328125 2 510.810054 1019.60555 2.5736 0.0013146 -3.6589 -0.001869 -1.0853 -0.00055436 510.8079019815641 64.772 0.06282 65.488 65.464 65.527 0.71521 11 7 2 0 0 0 0.65723 1 30550 30550 9.3474 0 1 729710 + 39404 14759 24996 25077 44384 44384 0.09653593493464996 YSLYWSTL 8 Unmodified _YSLYWSTL_ 0 0 0 nc|ENSG00000144191|Q16281-2|CNGA3;ENSG00000198515|ENST00000514170|CNGA1;ENSG00000144191|ENST00000272602|CNGA3;nc|ENSG00000144191|Q16281-3|CNGA3 nc|ENSG00000144191|Q16281-2|CNGA3 nc|ENSG00000144191|Q16281-2|CNGA3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 516.757080078125 2 516.755475 1031.4964 3.2321 0.0016702 -1.0388 -0.00053682 2.1933 0.0011334 516.7549017197321 50.268 0.75859 50.268 50.009 50.767 0 85 40 3 0 0 0 0.42655 1 23133 23133 26.341 0.073138 1 1527700 39405 3410 24997 25078 44385 44385 -0.018090371966536622 YSMRCDEWWEE 11 Unmodified _YSMRCDEWWEE_ 0 0 0 REV__nc|ENSG00000183560|A6ND01-2|IZUMO1R REV__nc|ENSG00000183560|A6ND01-2|IZUMO1R MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 767.2936401367188 2 767.292301 1532.57005 NaN NaN NaN NaN NaN NaN NaN 47.512 1 47.776 47.276 48.276 0.26363 0 0 0 1.008 1 21711 21711 0.26902 0.26902 1 + 39406 13938 24998 25079 44386 44386 -0.1749322487878544 YSNGSDCT 8 Unmodified _YSNGSDCT_ 0 0 0 ENST00000369936.2_1_1:109730792-109745631:+|nuORF;ENST00000369938.5_1_1:109730226-109745631:+|nuORF;nc|ENSG00000116299|Q6UXG2-3|ELAPOR1;ENST00000527996.5_1_1:109656894-109745573:+|nuORF;nc|ENSG00000116299|Q6UXG2-2|ELAPOR1;nc|ENSG00000116299|Q6UXG2-4|ELAPOR1;ENSG00000116299|ENST00000369939|ELAPOR1;ENST00000490758.6_1_1:109716345-109734117:+|nuORF ENST00000369936.2_1_1:109730792-109745631:+|nuORF ENST00000369936.2_1_1:109730792-109745631:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 846.2958374023438 1 846.293424 845.286147 4.333 0.003667 -0.39628 -0.00033537 3.9367 0.0033316 846.2936363506016 4.8401 0.19835 5.4631 5.3742 5.5726 0.62294 23 20 2 0 0 0 0.7471 1 2192 2192 0 0 1 23361 39407 2025 24999 25080 44387 44387 -0.1426844286118012 YSNGSDCT 8 Unmodified _YSNGSDCT_ 0 0 0 ENST00000369936.2_1_1:109730792-109745631:+|nuORF;ENST00000369938.5_1_1:109730226-109745631:+|nuORF;nc|ENSG00000116299|Q6UXG2-3|ELAPOR1;ENST00000527996.5_1_1:109656894-109745573:+|nuORF;nc|ENSG00000116299|Q6UXG2-2|ELAPOR1;nc|ENSG00000116299|Q6UXG2-4|ELAPOR1;ENSG00000116299|ENST00000369939|ELAPOR1;ENST00000490758.6_1_1:109716345-109734117:+|nuORF ENST00000369936.2_1_1:109730792-109745631:+|nuORF ENST00000369936.2_1_1:109730792-109745631:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 847.2984008789062 1 846.293424 845.286147 4.3329 0.0036669 -0.96295 -0.00081494 3.37 0.002852 846.2938124303678 5.7335 0.34197 6.3564 6.2143 6.5562 0.62294 41 32 2 0 0 0 0.7471 2 2589 2589;2598 0 0 1 26494 39408 2025 24999 25080 44388;44389 44388 -0.1426844286118012 YSNGSDCT 8 Unmodified _YSNGSDCT_ 0 0 0 ENST00000369936.2_1_1:109730792-109745631:+|nuORF;ENST00000369938.5_1_1:109730226-109745631:+|nuORF;nc|ENSG00000116299|Q6UXG2-3|ELAPOR1;ENST00000527996.5_1_1:109656894-109745573:+|nuORF;nc|ENSG00000116299|Q6UXG2-2|ELAPOR1;nc|ENSG00000116299|Q6UXG2-4|ELAPOR1;ENSG00000116299|ENST00000369939|ELAPOR1;ENST00000490758.6_1_1:109716345-109734117:+|nuORF ENST00000369936.2_1_1:109730792-109745631:+|nuORF ENST00000369936.2_1_1:109730792-109745631:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1 846.293424 845.286147 3.9146 0.0033129 1.3878 0.0011744 5.3024 0.0044874 846.2971604369912 6.6669 0.022046 6.6669 6.6547 6.6767 0 0.15525 0.0019118 NaN 0 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 15594 39409 2025 24999 25080 -0.1426844286118012 YSNSPIRL 8 Unmodified _YSNSPIRL_ 0 0 0 REV__ENST00000434290.5_1_1:28832593-28843241:+|nuORF REV__ENST00000434290.5_1_1:28832593-28843241:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 475.2587890625 2 475.258717 948.50288 NaN NaN NaN NaN NaN NaN NaN 56.313 1 56.579 56.079 57.079 0.26543 0 0 0 0.99035 1 25759 25759 2.3027 0 1 + 39410 15775 25000 25081 44390 44390 0.026569007546981993 YSPGHSSRH 9 Unmodified _YSPGHSSRH_ 0 0 0 ENST00000459739.5_1_10:79567604-79581271:-|nuORF;ENST00000463362.5_1_10:79552200-79579794:-|nuORF;nc|ENSG00000151208|Q8TDM6-2|DLG5;nc|ENSG00000151208|Q8TDM6-4|DLG5;ENSG00000151208|ENST00000372391|DLG5 ENST00000459739.5_1_10:79567604-79581271:-|nuORF ENST00000459739.5_1_10:79567604-79581271:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 514.7398681640625 2 514.238847 1026.46314 3.2998 0.0016969 0.055347 2.8462E-05 3.3551 0.0017253 514.7391557884216 39.138 0.39904 39.936 39.776 40.175 0.79762 55 18 4 0 0 0 0.29781 1 17698 17698 16.942 0 1 874340 39411 3695 25001 25082 44391 44391 -0.049032261960064716 YSPRRLWWYHW 11 Unmodified _YSPRRLWWYHW_ 0 0 0 nc|ENSG00000198964|Q86VZ5-2|SGMS1;ENSG00000198964|ENST00000361781|SGMS1 nc|ENSG00000198964|Q86VZ5-2|SGMS1 nc|ENSG00000198964|Q86VZ5-2|SGMS1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 550.717529296875 3 550.608993 1648.80515 NaN NaN NaN NaN NaN NaN NaN 79.879 1 79.879 79.379 80.379 0 0 0 0 1.008 1 39546 39546 0.073264 0 1 39412 5970 25002 25083 44392 44392 0.006700414939359689 YSRLKQLRN 9 Unmodified _YSRLKQLRN_ 0 0 0 ENST00000296543.9_1_4:140222738-140222885:+|nuORF ENST00000296543.9_1_4:140222738-140222885:+|nuORF ENST00000296543.9_1_4:140222738-140222885:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.3455810546875 2 589.343646 1176.67274 3.6569 0.0021552 -1.0526 -0.00062034 2.6043 0.0015348 589.3428007781714 85.853 1.1674 86.102 85.297 86.464 0.24857 90 61 2 0 0 0 1.1154 1 39345 39345 2.0598 0.21551 1 2003500 39413 6771 25003 25084 44393 44393 0.09147016757128767 YSRLKQLRN 9 Unmodified _YSRLKQLRN_ 0 0 0 ENST00000296543.9_1_4:140222738-140222885:+|nuORF ENST00000296543.9_1_4:140222738-140222885:+|nuORF ENST00000296543.9_1_4:140222738-140222885:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.3441162109375 2 589.343646 1176.67274 NaN NaN NaN NaN NaN NaN NaN 84.752 1 85 84.5 85.5 0.24757 0 0 0 0.90611 1 39006 39006 2.0598 0 1 39414 6771 25003 25084 44394 44394 0.09147016757128767 YSSALRVTEIK 11 Unmodified _YSSALRVTEIK_ 0 0 0 REV__ENSG00000125878|ENST00000246080|TCF15 REV__ENSG00000125878|ENST00000246080|TCF15 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 633.8561401367188 2 633.856252 1265.69795 NaN NaN NaN NaN NaN NaN NaN 5.876 1 6.2288 5.7288 6.7288 0.35278 0 0 0 1.0082 1 2662 2662 0 0 1 + 39415 11699 25004 25085 44395 44395 0.07573026769023272 YSSGQEPGRPL 11 Unmodified _YSSGQEPGRPL_ 0 0 0 ENST00000530990.1_1_11:65308486-65309233:-|nuORF ENST00000530990.1_1_11:65308486-65309233:-|nuORF ENST00000530990.1_1_11:65308486-65309233:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 595.757080078125 2 595.793652 1189.57275 NaN NaN NaN NaN NaN NaN NaN 72.505 1 73.208 72.708 73.708 0.70386 0 0 0 1.0041 1 34908 34908 5.2969 0.39987 1 39416 8719 25005 25086 44396 44396 -0.014452653673288296 YSSLSVNPLM 10 Unmodified _YSSLSVNPLM_ 0 0 0 REV__ENST00000432228.1_1_2:222826463-222827672:+|nuORF REV__ENST00000432228.1_1_2:222826463-222827672:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 556.2813110351562 2 555.778625 1109.5427 3.3108 0.0018401 2.7809 0.0015456 6.0918 0.0033857 556.2807275999932 62.559 0.2625 63.219 63.081 63.344 0.66008 25 15 2 0 0 0 0.83621 1 28674 28674 6.7232 2.3939 1 698570 + 39417 16271 25006 25087 44397 44397 -0.007693403568964641 YSSLSVNPLM 10 Unmodified _YSSLSVNPLM_ 0 0 0 REV__ENST00000432228.1_1_2:222826463-222827672:+|nuORF REV__ENST00000432228.1_1_2:222826463-222827672:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 555.778625 1109.5427 3.4234 0.0019027 4.3928 0.0024414 7.8162 0.0043441 556.2823694783011 63.016 0.067081 63.266 63.208 63.275 0.24965 0.023365 0.0011861 NaN 6.7232 6 3 2 NaN NaN NaN NaN 0 NaN NaN 0 383330 + 39418 16271 25006 25087 -0.007693403568964641 YSWFLAVTL 9 Unmodified _YSWFLAVTL_ 0 0 0 REV__nc|ENSG00000115459|Q96FG2-6|ELMOD3 REV__nc|ENSG00000115459|Q96FG2-6|ELMOD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 550.29931640625 2 550.294768 1098.57498 3.6997 0.0020359 1.6849 0.00092716 5.3846 0.0029631 550.295736341201 65.79 0.3765 66.038 65.84 66.216 0.24847 48 20 3 0 0 0 0.36069 1 30220 30220 14.838 0 1 1074400 + 39419 17902 25007 25088 44398 44398 0.029638151084100173 YSWFLAVTL 9 Unmodified _YSWFLAVTL_ 0 0 0 REV__nc|ENSG00000115459|Q96FG2-6|ELMOD3 REV__nc|ENSG00000115459|Q96FG2-6|ELMOD3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 550.29833984375 2 550.294768 1098.57498 3.6223 0.0019933 1.7369 0.00095579 5.3592 0.0029491 550.2957822938664 65.105 0.45966 65.762 65.616 66.076 0.65672 53 28 2 0 0 0 0.09451 1 29926 29926 34.102 1.3168 1 873290 + 39420 17902 25007 25088 44399 44399 0.029638151084100173 YSWYQILVL 9 Unmodified _YSWYQILVL_ 0 0 0 nc|ENSG00000070614|P52848-3|NDST1 nc|ENSG00000070614|P52848-3|NDST1 nc|ENSG00000070614|P52848-3|NDST1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 395.54962158203125 3 395.549859 1183.62775 NaN NaN NaN NaN NaN NaN NaN 58.598 1 59.265 58.765 59.765 0.66703 0 0 0 0.90611 1 26824 26824 1.0715 0.10919 1 39421 9557 25008 25089 44400 44400 0.04327773171212357 YTAGGLFKESW 11 Unmodified _YTAGGLFKESW_ 0 0 0 ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A ENSG00000151474|ENST00000357447|FRMD4A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 629.8110961914062 2 629.808771 1257.60299 3.6613 0.0023059 0.50095 0.0003155 4.1623 0.0026214 629.809175734382 68.528 0.27903 69.187 69.043 69.322 0.65924 45 18 3 0 0 0 0.16104 1 31407 31407 31.268 0.6318 1 844330 39422 3711 25009 25090 44401 44401 -0.015509067021639567 YTCCLVVFSL 10 2 Carbamidomethyl (C) _YTC(Carbamidomethyl (C))C(Carbamidomethyl (C))LVVFSL_ YTC(1)C(1)LVVFSL YTC(46)C(46)LVVFSL 0 2 0 REV__ENSG00000154478|ENST00000284674|GPR26 REV__ENSG00000154478|ENST00000284674|GPR26 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 631.3028564453125 2 631.30141 1260.58827 3.7692 0.0023795 -0.59399 -0.00037499 3.1752 0.0020045 631.3009302435455 46.086 0.27859 46.351 46.17 46.449 0.26561 30 12 3 0 0 0 0.14785 1 21063 21063 46.021 24.484 1 1150700 + 39423 12707 25010 25091 44402 44402 109;110 -0.03160438166150925 YTCCLVVFSL 10 2 Carbamidomethyl (C) _YTC(Carbamidomethyl (C))C(Carbamidomethyl (C))LVVFSL_ 0 2 0 REV__ENSG00000154478|ENST00000284674|GPR26 REV__ENSG00000154478|ENST00000284674|GPR26 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 631.30141 1260.58827 3.4408 0.0021722 -0.34694 -0.00021902 3.0939 0.0019532 631.8008866933155 45.3 0.099297 46.127 46.07 46.17 0.82621 -0.085762 0.00069815 NaN 46.021 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 444490 + 39424 12707 25010 25091 109;110 -0.03160438166150925 YTCCLVVFSL 10 2 Carbamidomethyl (C) _YTC(Carbamidomethyl (C))C(Carbamidomethyl (C))LVVFSL_ 0 2 0 REV__ENSG00000154478|ENST00000284674|GPR26 REV__ENSG00000154478|ENST00000284674|GPR26 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 631.30141 1260.58827 3.7692 0.0023795 -0.59399 -0.00037499 3.1752 0.0020045 631.3009302435455 46.086 0.27859 46.351 46.17 46.449 0.26561 0.13881 0.00038622 NaN 46.021 30 12 3 NaN NaN NaN NaN 0 NaN NaN 0 1150700 + 39425 12707 25010 25091 109;110 -0.03160438166150925 YTCCLVVFSL 10 2 Carbamidomethyl (C) _YTC(Carbamidomethyl (C))C(Carbamidomethyl (C))LVVFSL_ 0 2 0 REV__ENSG00000154478|ENST00000284674|GPR26 REV__ENSG00000154478|ENST00000284674|GPR26 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 631.30141 1260.58827 4.1114 0.0025955 -1.1071 -0.00069893 3.0043 0.0018966 631.3008768176499 45.508 0.33076 46.159 45.938 46.269 0.65104 -0.053044 -0.00026167 NaN 46.021 35 15 3 NaN NaN NaN NaN 0 NaN NaN 0 614230 + 39426 12707 25010 25091 109;110 -0.03160438166150925 YTCETDGACM 10 Unmodified _YTCETDGACM_ 0 0 0 ACVR1B|p.K337Vfs*24|1|0.28|ENSG00000135503|chr12:51985220-51985221|AA/-|frameshift_variant;nc|ENSG00000135503|P36896-2|ACVR1B;nc|ENSG00000135503|P36896-3|ACVR1B;ENSG00000135503|ENST00000257963|ACVR1B;nc|ENSG00000135503|P36896-4|ACVR1B ACVR1B|p.K337Vfs*24|1|0.28|ENSG00000135503|chr12:51985220-51985221|AA/-|frameshift_variant ACVR1B|p.K337Vfs*24|1|0.28|ENSG00000135503|chr12:51985220-51985221|AA/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 547.6210327148438 2 547.185385 1092.35622 NaN NaN NaN NaN NaN NaN NaN 55.268 1 56.055 55.555 56.555 0.78711 0 0 0 0.99733 1 25229 25229 3.9444 0.3479 1 39427 10 25011 25092 44403 44403 -0.18626648579220273 YTCSFLPK 8 Unmodified _YTCSFLPK_ 0 0 0 ENST00000578527.1_1_17:65549676-65688690:+|nuORF;nc|ENSG00000154217|Q9UKF7-2|PITPNC1;ENSG00000154217|ENST00000581322|PITPNC1 ENST00000578527.1_1_17:65549676-65688690:+|nuORF ENST00000578527.1_1_17:65549676-65688690:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 479.7394104003906 2 479.738771 957.462989 3.0528 0.0014645 -0.14262 -6.8421E-05 2.9101 0.0013961 479.73864518454616 35.001 0.423 35.79 35.619 36.042 0.78921 56 27 3 0 0 0 0.61796 3 15877 15832;15877;15922 12.532 12.532 1 426530 39428 3809 25012 25093 44404;44405;44406 44405 -0.017443622402197434 YTCSFLPK 8 Unmodified _YTCSFLPK_ 0 0 0 ENST00000578527.1_1_17:65549676-65688690:+|nuORF;nc|ENSG00000154217|Q9UKF7-2|PITPNC1;ENSG00000154217|ENST00000581322|PITPNC1 ENST00000578527.1_1_17:65549676-65688690:+|nuORF ENST00000578527.1_1_17:65549676-65688690:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 479.7405090332031 2 479.738771 957.462989 3.0281 0.0014527 -0.29545 -0.00014174 2.7326 0.0013109 479.73870270930814 35.779 0.66467 36.034 35.651 36.315 0.25524 51 26 3 0 0 0 0.56084 2 16267 16267;16327 16.942 8.349 1 476980 39429 3809 25012 25093 44407;44408 44407 -0.017443622402197434 YTCSFLPK 8 Unmodified _YTCSFLPK_ 0 0 0 ENST00000578527.1_1_17:65549676-65688690:+|nuORF;nc|ENSG00000154217|Q9UKF7-2|PITPNC1;ENSG00000154217|ENST00000581322|PITPNC1 ENST00000578527.1_1_17:65549676-65688690:+|nuORF ENST00000578527.1_1_17:65549676-65688690:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 479.7398986816406 2 479.738771 957.462989 3.1822 0.0015266 0.21554 0.0001034 3.3977 0.00163 479.73895473021884 35.327 0.4997 35.953 35.701 36.201 0.62618 35 16 3 0 0 0 0.5438 1 16219 16219 18.135 4.6271 1 556720 39430 3809 25012 25093 44409 44409 -0.017443622402197434 YTCSFLPK 8 Unmodified _YTCSFLPK_ 0 0 0 ENST00000578527.1_1_17:65549676-65688690:+|nuORF;nc|ENSG00000154217|Q9UKF7-2|PITPNC1;ENSG00000154217|ENST00000581322|PITPNC1 ENST00000578527.1_1_17:65549676-65688690:+|nuORF ENST00000578527.1_1_17:65549676-65688690:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 479.738771 957.462989 2.9821 0.0014306 -0.056284 -2.7002E-05 2.9258 0.0014036 479.7386809009104 36.003 0.45976 36.003 35.683 36.143 0 0.058179 3.8868E-05 NaN 18.135 40 27 2 NaN NaN NaN NaN 0 NaN NaN 0 675950 39431 3809 25012 25093 -0.017443622402197434 YTCSFLPK 8 Unmodified _YTCSFLPK_ 0 0 0 ENST00000578527.1_1_17:65549676-65688690:+|nuORF;nc|ENSG00000154217|Q9UKF7-2|PITPNC1;ENSG00000154217|ENST00000581322|PITPNC1 ENST00000578527.1_1_17:65549676-65688690:+|nuORF ENST00000578527.1_1_17:65549676-65688690:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 479.738771 957.462989 3.1822 0.0015266 0.21554 0.0001034 3.3977 0.00163 479.73895473021884 35.327 0.4997 35.953 35.701 36.201 0.62618 0.0079552 0.00029968 NaN 18.135 35 16 3 NaN NaN NaN NaN 0 NaN NaN 0 556720 39432 3809 25012 25093 -0.017443622402197434 YTDEVWTTI 9 Unmodified _YTDEVWTTI_ 0 0 0 REV__ENSG00000187833|ENST00000409561|C2orf78 REV__ENSG00000187833|ENST00000409561|C2orf78 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.268310546875 2 564.266404 1126.51826 NaN NaN NaN NaN NaN NaN NaN 63.838 1 64.495 63.995 64.995 0.65672 0 0 0 0.3934 1 29256 29256 23.148 2.7339 1 + 39433 14118 25013 25094 44410 44410 -0.03994277238757604 YTDLQETL 8 Unmodified _YTDLQETL_ 0 0 0 REV__ENST00000487090.1_1_22:20812284-20819767:-|nuORF REV__ENST00000487090.1_1_22:20812284-20819767:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 491.74188232421875 2 491.740022 981.465492 3.0445 0.0014971 -0.69495 -0.00034173 2.3496 0.0011554 491.73989858772217 50.082 0.2462 50.082 49.953 50.199 0 20 12 2 0 0 0 0.5047 1 22950 22950 20.871 0 1 280180 + 39434 10792 25014 25095 44411 44411 -0.025982353015592707 YTDLQETL 8 Unmodified _YTDLQETL_ 0 0 0 REV__ENST00000487090.1_1_22:20812284-20819767:-|nuORF REV__ENST00000487090.1_1_22:20812284-20819767:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 491.7414855957031 2 491.740022 981.465492 3.1456 0.0015468 0.24465 0.00012031 3.3903 0.0016671 491.7401415756156 50.032 0.23116 50.294 50.133 50.364 0.26146 13 8 2 0 0 0 0.64692 1 22880 22880 10.183 0 1 356780 + 39435 10792 25014 25095 44412 44412 -0.025982353015592707 YTDLQETL 8 Unmodified _YTDLQETL_ 0 0 0 REV__ENST00000487090.1_1_22:20812284-20819767:-|nuORF REV__ENST00000487090.1_1_22:20812284-20819767:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 491.740022 981.465492 3.2424 0.0015944 -0.54373 -0.00026738 2.6987 0.001327 491.7399811610036 49.158 0.28459 49.985 49.824 50.108 0.82705 -0.147 -0.00060855 NaN 20.871 22 13 2 NaN NaN NaN NaN 0 NaN NaN 0 165920 + 39436 10792 25014 25095 -0.025982353015592707 YTDLQETL 8 Unmodified _YTDLQETL_ 0 0 0 REV__ENST00000487090.1_1_22:20812284-20819767:-|nuORF REV__ENST00000487090.1_1_22:20812284-20819767:-|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 491.740022 981.465492 3.1456 0.0015468 0.24465 0.00012031 3.3903 0.0016671 491.7401415756156 50.032 0.23116 50.294 50.133 50.364 0.26146 0.16137 0.00016681 NaN 20.871 13 8 2 NaN NaN NaN NaN 0 NaN NaN 0 356780 + 39437 10792 25014 25095 -0.025982353015592707 YTDLQETL 8 Unmodified _YTDLQETL_ 0 0 0 REV__ENST00000487090.1_1_22:20812284-20819767:-|nuORF REV__ENST00000487090.1_1_22:20812284-20819767:-|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 491.740022 981.465492 3.2522 0.0015992 0.53822 0.00026467 3.7904 0.0018639 491.74028602288064 49.512 0.18308 50.168 50.038 50.221 0.65654 0.035979 0.00045553 NaN 20.871 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 251880 + 39438 10792 25014 25095 -0.025982353015592707 YTFIGDILL 9 Unmodified _YTFIGDILL_ 0 0 0 nc|ENSG00000041515|Q9Y6X6|MYO16;ENSG00000041515|ENST00000457511|MYO16;nc|ENSG00000041515|Q9Y6X6-4|MYO16;ENST00000375857.6_1_13:109445985-109707944:+|nuORF;nc|ENSG00000041515|Q9Y6X6-3|MYO16;nc|ENSG00000041515|Q9Y6X6-2|MYO16 nc|ENSG00000041515|Q9Y6X6|MYO16 nc|ENSG00000041515|Q9Y6X6|MYO16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 527.7964477539062 2 527.794601 1053.57465 3.4785 0.0018359 -0.79975 -0.0004221 2.6787 0.0014138 527.7947331180178 94.01 0.32436 94.641 94.445 94.769 0.63115 29 17 2 0 0 0 0.5141 1 43252 43252 12.532 0 1 342290 39439 538 25015 25096 44413 44413 0.05000395388583456 YTFLLPRKCH 10 Unmodified _YTFLLPRKCH_ 0 0 0 nc|ENSG00000142784|Q8N5D0-5|WDTC1;nc|ENSG00000142784|Q8N5D0-3|WDTC1;ENST00000491239.2_1_1:27614218-27630434:+|nuORF;nc|ENSG00000142784|Q8N5D0-6|WDTC1;nc|ENSG00000142784|Q8N5D0-2|WDTC1;nc|ENSG00000142784|Q8N5D0-4|WDTC1;ENSG00000142784|ENST00000319394|WDTC1 nc|ENSG00000142784|Q8N5D0-5|WDTC1 nc|ENSG00000142784|Q8N5D0-5|WDTC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 639.3448486328125 2 639.3448 1276.67505 NaN NaN NaN NaN NaN NaN NaN 16.57 1 16.771 16.271 17.271 0.20057 0 0 0 1.002 1 7319 7319 0 0 1 39440 9676 25016 25097 44414 44414 0.04777729170609746 YTGDPCNC 8 Unmodified _YTGDPCNC_ 0 0 0 REV__ENSG00000184956|ENST00000421673|MUC6 REV__ENSG00000184956|ENST00000421673|MUC6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 436.6485900878906 2 436.649296 871.284039 NaN NaN NaN NaN NaN NaN NaN 45.397 1 46.223 45.723 46.723 0.82621 0 0 0 0.99035 1 20676 20676 0.79363 0 1 + 39441 13994 25017 25098 44415 44415 -0.15675194870618725 YTHHGRDCGDC 11 Unmodified _YTHHGRDCGDC_ 0 0 0 REV__nc|ENSG00000198604|Q9NRL2-2|BAZ1A REV__nc|ENSG00000198604|Q9NRL2-2|BAZ1A MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.82525634765625 3 421.825839 1262.45569 NaN NaN NaN NaN NaN NaN NaN 68.301 1 68.301 67.801 68.801 0 0 0 0 1.0072 1 32878 32878 0.45452 0 1 + 39442 14343 25018 25099 44416 44416 -0.16504069850248015 YTIIILLVLC 10 Unmodified _YTIIILLVLC_ 0 0 0 ENST00000446834.5_3_20:58507169-58508362:-|nuORF ENST00000446834.5_3_20:58507169-58508362:-|nuORF ENST00000446834.5_3_20:58507169-58508362:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.3590698242188 2 582.359053 1162.70355 NaN NaN NaN NaN NaN NaN NaN 3.5684 1 3.8726 3.3726 4.3726 0.3042 0 0 0 1.002 1 1620 1620 0 0 1 39443 7981 25019 25100 44417 44417 0.12871034027170936 YTIIYTDKL 9 Unmodified _YTIIYTDKL_ 0 0 0 ENSG00000214360|ENST00000398186|EFCAB9 ENSG00000214360|ENST00000398186|EFCAB9 ENSG00000214360|ENST00000398186|EFCAB9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 566.2755126953125 2 565.310615 1128.60668 3.8079 0.0021526 2.8823 0.0016294 6.6902 0.003782 565.3112941929119 67.55 0.19366 67.801 67.682 67.875 0.2501 22 8 3 0 0 0 0.94779 1 30903 30903 7.9102 0.62092 1 1252200 39444 6114 25020 25101 44418 44418 0.04751763071703863 YTISVIVLIVF 11 Unmodified _YTISVIVLIVF_ 0 0 0 nc|ENSG00000140090|Q8NFF2-2|SLC24A4;nc|ENSG00000140090|Q8NFF2-3|SLC24A4;ENSG00000140090|ENST00000532405|SLC24A4 nc|ENSG00000140090|Q8NFF2-2|SLC24A4 nc|ENSG00000140090|Q8NFF2-2|SLC24A4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 633.7918090820312 2 633.889032 1265.76351 NaN NaN NaN NaN NaN NaN NaN 57.714 1 57.714 57.214 58.214 0 0 0 0 1.0072 1 26611 26611 3.2813 1.9518 1 39445 3180 25021 25102 44419 44419 0.1412604796200867 YTKAVLHK 8 Unmodified _YTKAVLHK_ 0 0 0 REV__ENSG00000203933|ENST00000370540|CXorf66 REV__ENSG00000203933|ENST00000370540|CXorf66 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 480.289306640625 2 480.287277 958.560001 3.381 0.0016239 1.5241 0.00073199 4.9051 0.0023559 480.28789572072765 89.138 0.20473 89.389 89.271 89.476 0.25118 12 9 2 0 0 0 0.14294 1 41014 41014 2.0598 0 1 369200 + 39446 14395 25022 25103 44420 44420 0.0790636803109237 YTKAVLHK 8 Unmodified _YTKAVLHK_ 0 0 0 REV__ENSG00000203933|ENST00000370540|CXorf66 REV__ENSG00000203933|ENST00000370540|CXorf66 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 480.287277 958.560001 3.2956 0.0015828 1.3916 0.00066838 4.6872 0.0022512 480.28795950818653 88.927 0.15689 89.605 89.565 89.721 0.67818 0.10808 -9.1147E-05 NaN 2.0598 9 5 2 NaN NaN NaN NaN 0 NaN NaN 0 297630 + 39447 14395 25022 25103 0.0790636803109237 YTKEKNLMIK 10 Unmodified _YTKEKNLMIK_ 0 0 0 REV__nc|ENSG00000105173|P24864-2|CCNE1 REV__nc|ENSG00000105173|P24864-2|CCNE1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 423.2414855957031 3 423.240808 1266.70059 2.9749 0.0012591 -0.45695 -0.0001934 2.5179 0.0010657 423.2404895972999 37.738 0.271 37.999 37.822 38.093 0.26083 20 8 3 0 0 0 0.76575 1 17175 17175 5.7834 1.0675 1 714730 + 39448 11017 25023 25104 44421 44421 0.07791158902318784 YTKYRYWPFLW 11 Unmodified _YTKYRYWPFLW_ 0 0 0 REV__nc|ENSG00000125107|A5YKK6-4|CNOT1 REV__nc|ENSG00000125107|A5YKK6-4|CNOT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 811.9146728515625 2 811.911362 1621.80817 3.0928 0.0025111 0.74362 0.00060376 3.8364 0.0031148 811.9119897419823 51.419 0.34386 52.237 52.04 52.384 0.81738 52 24 3 0 0 0 0.91068 1 23427 23427 1.3295 0.9789 1 1174000 + 39449 17916 25024 25105 44422 44422 0.022138718280530156 YTLKTVTVQGK 11 Unmodified _YTLKTVTVQGK_ 0 0 0 ENSG00000213892|ENST00000587331|CEACAM16 ENSG00000213892|ENST00000587331|CEACAM16 ENSG00000213892|ENST00000587331|CEACAM16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 413.2445373535156 3 413.243206 1236.70779 2.8023 0.001158 0.5563 0.00022989 3.3586 0.0013879 413.24327820895144 32.322 0.3463 32.322 32.203 32.549 0 80 27 4 0 0 0 0.09108 2 14647 14599;14647 30.354 18.127 1 3104000 39450 6102 25025 25106 44423;44424 44424 0.09890214774395645 YTLKTVTVQGK 11 Unmodified _YTLKTVTVQGK_ 0 0 0 ENSG00000213892|ENST00000587331|CEACAM16 ENSG00000213892|ENST00000587331|CEACAM16 ENSG00000213892|ENST00000587331|CEACAM16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 413.2441711425781 3 413.243206 1236.70779 2.722 0.0011249 0.61887 0.00025574 3.3409 0.0013806 413.2433350982876 31.361 0.32782 32.15 31.974 32.302 0.78879 72 28 3 0 0 0 0.039466 3 14152 14105;14152;14195 37.251 20.976 1 4179700 39451 6102 25025 25106 44425;44426;44427 44426 0.09890214774395645 YTLKTVTVQGK 11 Unmodified _YTLKTVTVQGK_ 0 0 0 ENSG00000213892|ENST00000587331|CEACAM16 ENSG00000213892|ENST00000587331|CEACAM16 ENSG00000213892|ENST00000587331|CEACAM16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 619.3651733398438 2 619.36117 1236.70779 3.413 0.0021139 0.10829 6.7071E-05 3.5213 0.0021809 619.3613355731272 31.385 0.22143 32.174 32.008 32.229 0.78879 34 18 2 0 0 0 0.5133 1 14130 14130 18.373 3.1246 1 1027200 39452 6102 25025 25106 44428 44428 0.09890214774395645 YTLKTVTVQGK 11 Unmodified _YTLKTVTVQGK_ 0 0 0 ENSG00000213892|ENST00000587331|CEACAM16 ENSG00000213892|ENST00000587331|CEACAM16 ENSG00000213892|ENST00000587331|CEACAM16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.2447509765625 3 413.243206 1236.70779 3.2803 0.0013556 0.31738 0.00013115 3.5977 0.0014867 413.2432782223405 32.209 0.33266 32.463 32.25 32.583 0.25452 63 25 3 0 0 0 0.08145 3 14646 14599;14646;14700 31.462 15.187 1 2990800 39453 6102 25025 25106 44429;44430;44431 44430 0.09890214774395645 YTLKTVTVQGK 11 Unmodified _YTLKTVTVQGK_ 0 0 0 ENSG00000213892|ENST00000587331|CEACAM16 ENSG00000213892|ENST00000587331|CEACAM16 ENSG00000213892|ENST00000587331|CEACAM16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 413.244384765625 3 413.243206 1236.70779 2.9674 0.0012262 0.34461 0.00014241 3.312 0.0013687 413.24328405588153 31.536 0.30864 32.153 32.005 32.314 0.61736 75 26 4 0 0 0 0.12059 3 14461 14419;14461;14503 26.121 13.893 1 2983200 39454 6102 25025 25106 44432;44433;44434 44433 0.09890214774395645 YTLLDVLYY 9 Unmodified _YTLLDVLYY_ 0 0 0 ENSG00000197442|ENST00000359015|MAP3K5;nc|ENSG00000197442|Q99683-2|MAP3K5 ENSG00000197442|ENST00000359015|MAP3K5 ENSG00000197442|ENST00000359015|MAP3K5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.1908569335938 2 581.805165 1161.59578 NaN NaN NaN NaN NaN NaN NaN 1.673 1 2.2946 1.7946 2.7946 0.62157 0 0 0 0.91452 1 762 762 0 0 1 39455 5818 25026 25107 44435 44435 0.021443606974116847 YTLLDVLYY 9 Unmodified _YTLLDVLYY_ 0 0 0 ENSG00000197442|ENST00000359015|MAP3K5;nc|ENSG00000197442|Q99683-2|MAP3K5 ENSG00000197442|ENST00000359015|MAP3K5 ENSG00000197442|ENST00000359015|MAP3K5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.192138671875 2 581.805165 1161.59578 NaN NaN NaN NaN NaN NaN NaN 3.388 1 4.0101 3.5101 4.5101 0.6221 0 0 0 0.91452 1 1540 1540 0 0 1 39456 5818 25026 25107 44436 44436 0.021443606974116847 YTLLVKYK 8 Unmodified _YTLLVKYK_ 0 0 0 REV__ENSG00000070019|ENST00000261170|GUCY2C REV__ENSG00000070019|ENST00000261170|GUCY2C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 514.06640625 2 514.312961 1026.61137 NaN NaN NaN NaN NaN NaN NaN 78.83 1 79.492 78.992 79.992 0.66198 0 0 0 0.99035 1 36326 36326 2.5775 0.51773 1 + 39457 10473 25027 25108 44437 44437 0.0991269200512761 YTLPQLKF 8 Unmodified _YTLPQLKF_ 0 0 0 REV__ENST00000269701.6_1_19:15465203-15465326:-|nuORF REV__ENST00000269701.6_1_19:15465203-15465326:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 505.288818359375 2 505.289485 1008.56442 NaN NaN NaN NaN NaN NaN NaN 49.307 1 49.962 49.462 50.462 0.65524 0 0 0 0.94507 1 22555 22555 9.3474 1.4373 1 + 39458 15058 25028 25109 44438 44438 0.060478324539985806 YTLSQEGGPA 10 Unmodified _YTLSQEGGPA_ 0 0 0 nc|ENSG00000180228|O75569-3|PRKRA;nc|ENSG00000180228|O75569-2|PRKRA;ENSG00000180228|ENST00000325748|PRKRA nc|ENSG00000180228|O75569-3|PRKRA nc|ENSG00000180228|O75569-3|PRKRA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1022.4803466796875 1 1022.47892 1021.47164 3.3848 0.0034609 1.0865 0.0011109 4.4713 0.0045719 1022.4798401543117 44.622 0.24623 44.622 44.593 44.839 0 24 14 2 0 0 0 0.075518 1 20477 20477 56.177 6.244 1 1465200 39459 5243 25029 25110 44439 44439 -0.03823717070042676 YTLSQEGGPA 10 Unmodified _YTLSQEGGPA_ 0 0 0 nc|ENSG00000180228|O75569-3|PRKRA;nc|ENSG00000180228|O75569-2|PRKRA;ENSG00000180228|ENST00000325748|PRKRA nc|ENSG00000180228|O75569-3|PRKRA nc|ENSG00000180228|O75569-3|PRKRA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 1022.4819946289062 1 1022.47892 1021.47164 3.4438 0.0035212 0.5981 0.00061155 4.0419 0.0041327 1022.4790002545128 43.664 0.4416 44.478 44.257 44.699 0.81444 47 23 3 0 0 0 0.059328 2 19898 19849;19898 60.074 23.947 1 941730 39460 5243 25029 25110 44440;44441 44441 -0.03823717070042676 YTMKKVHAL 9 Unmodified _YTMKKVHAL_ 0 0 0 ENSG00000003436|ENST00000233156|TFPI;ENST00000481132.5_1_2:188349502-188368495:-|nuORF;nc|ENSG00000003436|P10646-2|TFPI ENSG00000003436|ENST00000233156|TFPI ENSG00000003436|ENST00000233156|TFPI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 545.809814453125 2 545.807519 1089.60049 3.3164 0.0018101 0.87641 0.00047835 4.1928 0.0022884 545.8080531743208 14.752 0.23059 15.059 14.958 15.188 0.3069 22 17 3 0 0 0 0.80651 1 6662 6662 7.2892 3.3448 1 98337 39461 309 25030 25111 44442 44442 0.05926966359220387 YTMKKVHAL 9 Unmodified _YTMKKVHAL_ 0 0 0 ENSG00000003436|ENST00000233156|TFPI;ENST00000481132.5_1_2:188349502-188368495:-|nuORF;nc|ENSG00000003436|P10646-2|TFPI ENSG00000003436|ENST00000233156|TFPI ENSG00000003436|ENST00000233156|TFPI MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 364.2084045410156 3 364.207438 1089.60049 2.4029 0.00087516 -0.48193 -0.00017552 1.921 0.00069963 364.20724855683017 14.77 0.41566 15.077 14.908 15.324 0.3069 110 39 4 0 0 0 0.24465 1 6685 6685 19.362 11.753 1 960810 39462 309 25030 25111 44443 44443 0.05926966359220387 YTMKKVHAL 9 Unmodified _YTMKKVHAL_ 0 0 0 ENSG00000003436|ENST00000233156|TFPI;ENST00000481132.5_1_2:188349502-188368495:-|nuORF;nc|ENSG00000003436|P10646-2|TFPI ENSG00000003436|ENST00000233156|TFPI ENSG00000003436|ENST00000233156|TFPI MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 364.2575988769531 3 364.207438 1089.60049 2.6438 0.00096289 -0.8211 -0.00029905 1.8227 0.00066384 364.20711131491026 14.866 0.49531 15.52 15.322 15.817 0.65356 126 43 4 0 0 0 0.091317 1 6723 6723 13.615 5.4593 1 753490 39463 309 25030 25111 44444 44444 0.05926966359220387 YTNIQETYF 9 Unmodified _YTNIQETYF_ 0 0 0 ENSG00000155657|ENST00000589042|TTN;nc|ENSG00000155657|Q8WZ42-12|TTN;nc|ENSG00000155657|Q8WZ42-13|TTN;nc|ENSG00000155657|Q8WZ42-4|TTN;nc|ENSG00000155657|Q8WZ42-8|TTN;nc|ENSG00000155657|Q8WZ42|TTN;nc|ENSG00000155657|Q8WZ42-2|TTN;nc|ENSG00000155657|Q8WZ42-7|TTN;nc|ENSG00000155657|Q8WZ42-11|TTN;TTN|p.F32636Yfs*6|1|0.06|ENSG00000155657|chr2:178533785-178533786|-/CAGATAGT|frameshift_variant;TTN|p.G32654Vfs*24|1|0.41|ENSG00000155657|chr2:178533731-178533731|C/-|frameshift_variant;TTN|p.R30215Vfs*13|1|0.21|ENSG00000155657|chr2:178545544-178545544|G/-|frameshift_variant;nc|ENSG00000155657|Q8WZ42-5|TTN;nc|ENSG00000155657|Q8WZ42-9|TTN;nc|ENSG00000155657|Q8WZ42-10|TTN;nc|ENSG00000155657|Q8WZ42-3|TTN ENSG00000155657|ENST00000589042|TTN ENSG00000155657|ENST00000589042|TTN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.7733764648438 2 589.771854 1177.52915 NaN NaN NaN NaN NaN NaN NaN 35.919 1 36.174 35.674 36.674 0.25524 0 0 0 0.86044 1 16359 16359 7.2892 0 1 39464 3871 25031 25112 44445 44445 -0.05250874864486832 YTPKRWRERRY 11 Unmodified _YTPKRWRERRY_ 0 0 0 REV__nc|ENSG00000152404|Q2TBE0-3|CWF19L2 REV__nc|ENSG00000152404|Q2TBE0-3|CWF19L2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 537.5091552734375 3 537.626936 1609.85898 NaN NaN NaN NaN NaN NaN NaN 62.883 1 63.606 63.106 64.106 0.72236 0 0 0 1.0079 1 29398 29398 0.45452 0.37117 1 + 39465 12648 25032 25113 44446 44446 0.07844213925636723 YTQQPSGSHL 10 Unmodified _YTQQPSGSHL_ 0 0 0 ENST00000467497.6_1_9:3855970-4118001:-|nuORF;nc|ENSG00000107249|Q8NEA6|GLIS3;ENSG00000107249|ENST00000381971|GLIS3 ENST00000467497.6_1_9:3855970-4118001:-|nuORF ENST00000467497.6_1_9:3855970-4118001:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 559.2682495117188 2 559.26727 1116.51999 3.4026 0.0019029 1.3225 0.00073966 4.7251 0.0026426 559.2678021380932 68.226 0.31958 68.885 68.723 69.043 0.65924 44 20 3 0 0 0 0.48906 1 31236 31236 21.537 3.1639 1 1279500 39466 1593 25033 25114 44447 44447 -0.033612234301244825 YTQVLVKWL 9 Unmodified _YTQVLVKWL_ 0 0 0 nc|ENSG00000155659|Q9Y279-3|VSIG4;nc|ENSG00000155659|Q9Y279-2|VSIG4;ENSG00000155659|ENST00000374737|VSIG4 nc|ENSG00000155659|Q9Y279-3|VSIG4 nc|ENSG00000155659|Q9Y279-3|VSIG4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 575.3370361328125 2 575.336967 1148.65938 NaN NaN NaN NaN NaN NaN NaN 33.291 1 34.079 33.579 34.579 0.78795 0 0 0 0.91206 1 15064 15064 0.6015 0 1 39467 3872 25034 25115 44448 44448 0.09099765925202519 YTRKKYKKKME 11 Unmodified _YTRKKYKKKME_ 0 0 0 ENSG00000155085|ENST00000424296|AK9 ENSG00000155085|ENST00000424296|AK9 ENSG00000155085|ENST00000424296|AK9 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1502.9832763671875 1 1502.85118 1501.8439 3.1683 0.0047615 -0.059218 -8.8996E-05 3.1091 0.0046725 1503.8514848503437 14.295 0.049191 14.295 14.265 14.314 0 4 2 2 0 0 0 0.91489 1 6286 6286 0 0 1 160490 39468 3849 25035 25116 44449 44449 0.11305586013395441 YTRQERYRARP 11 Unmodified _YTRQERYRARP_ 0 0 0 ENST00000471517.5_1_19:38845366-38853372:+|nuORF;ENST00000412458.6_1_19:38845366-38860119:+|nuORF;ENSG00000099338|ENST00000409235|CATSPERG ENST00000471517.5_1_19:38845366-38853372:+|nuORF ENST00000471517.5_1_19:38845366-38853372:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 499.2685546875 3 499.267407 1494.78039 3.102 0.0015487 -0.51235 -0.0002558 2.5897 0.0012929 499.26711779454575 37.385 0.31234 37.385 37.196 37.509 0 29 11 3 0 0 0 0.81399 1 16949 16949 6.2344 5.0195 1 913150 39469 1140 25036 25117 44450 44450 0.05279361620546297 YTRQERYRARP 11 Unmodified _YTRQERYRARP_ 0 0 0 ENST00000471517.5_1_19:38845366-38853372:+|nuORF;ENST00000412458.6_1_19:38845366-38860119:+|nuORF;ENSG00000099338|ENST00000409235|CATSPERG ENST00000471517.5_1_19:38845366-38853372:+|nuORF ENST00000471517.5_1_19:38845366-38853372:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 499.268798828125 3 499.267407 1494.78039 3.1121 0.0015538 -0.90594 -0.0004523 2.2062 0.0011015 499.2670203661031 36.158 0.36076 36.952 36.789 37.149 0.79342 36 14 3 0 0 0 0.75708 3 16365 16358;16365;16421 8.7518 7.537 1 851750 39470 1140 25036 25117 44451;44452;44453 44452 0.05279361620546297 YTRQERYRARP 11 Unmodified _YTRQERYRARP_ 0 0 0 ENST00000471517.5_1_19:38845366-38853372:+|nuORF;ENST00000412458.6_1_19:38845366-38860119:+|nuORF;ENSG00000099338|ENST00000409235|CATSPERG ENST00000471517.5_1_19:38845366-38853372:+|nuORF ENST00000471517.5_1_19:38845366-38853372:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 499.2679138183594 3 499.267407 1494.78039 3.3674 0.0016812 -1.1353 -0.00056684 2.2321 0.0011144 499.26686969022506 37.249 0.37748 37.51 37.284 37.662 0.26083 23 11 3 0 0 0 0.89988 1 16962 16962 2.4348 0.18206 1 444390 39471 1140 25036 25117 44454 44454 0.05279361620546297 YTRQERYRARP 11 Unmodified _YTRQERYRARP_ 0 0 0 ENST00000471517.5_1_19:38845366-38853372:+|nuORF;ENST00000412458.6_1_19:38845366-38860119:+|nuORF;ENSG00000099338|ENST00000409235|CATSPERG ENST00000471517.5_1_19:38845366-38853372:+|nuORF ENST00000471517.5_1_19:38845366-38853372:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 498.83428955078125 3 499.267407 1494.78039 3.3231 0.0016591 -0.86915 -0.00043394 2.454 0.0012252 499.26703554352525 36.607 0.4124 37.237 36.982 37.394 0.62999 33 16 3 0 0 0 0.13295 1 16752 16752 1.3296 0.82369 1 303740 39472 1140 25036 25117 44455 44455 0.05279361620546297 YTRRRWCKRRR 11 Unmodified _YTRRRWCKRRR_ 0 0 0 ENST00000281881.7_1_1:176905297-177133812:-|nuORF;nc|ENSG00000152092|O14525-3|ASTN1;ENSG00000152092|ENST00000361833|ASTN1;nc|ENSG00000152092|O14525|ASTN1 ENST00000281881.7_1_1:176905297-177133812:-|nuORF ENST00000281881.7_1_1:176905297-177133812:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 818.9644165039062 2 818.963126 1635.9117 NaN NaN NaN NaN NaN NaN NaN 71.718 1 72.382 71.882 72.882 0.66324 0 0 0 1.0082 1 32873 32873 0 0 1 39473 3737 25037 25118 44456 44456 0.11917893507438748 YTSGVSFG 8 Unmodified _YTSGVSFG_ 0 0 0 REV__nc|ENSG00000164244|Q96M27-4|PRRC1 REV__nc|ENSG00000164244|Q96M27-4|PRRC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.1917419433594 2 409.189968 816.365384 3.3376 0.0013657 0.29658 0.00012136 3.6342 0.0014871 409.1899933201353 89.919 0.51221 90.171 89.902 90.415 0.25137 31 21 2 0 0 0 0.7471 1 41310 41310 0.69038 0 1 433570 + 39474 13078 25038 25119 44457 44457 -0.05014427844696456 YTSRGKIG 8 Unmodified _YTSRGKIG_ 0 0 0 ENSG00000067596|ENST00000262415|DHX8;ENST00000587044.1_1_17:41568567-41594747:+|nuORF ENSG00000067596|ENST00000262415|DHX8 ENSG00000067596|ENST00000262415|DHX8 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 881.4888916015625 1 881.483942 880.476666 4.7524 0.0041892 1.6325 0.001439 6.3849 0.0056282 881.4851847812355 104.22 0.04496 104.54 104.51 104.56 0.31863 5 3 2 0 0 0 0.7471 1 48163 48163 0 0 1 299150 39475 724 25039 25120 44458 44458 0.03164631583251776 YTVQDLENL 9 Unmodified _YTVQDLENL_ 0 0 0 REV__MROH9|p.K617Q|1|0.25|ENSG00000117501|chr1:171016277-171016277|A/C|missense_variant REV__MROH9|p.K617Q|1|0.25|ENSG00000117501|chr1:171016277-171016277|A/C|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 365.51800537109375 3 365.516995 1093.52915 NaN NaN NaN NaN NaN NaN NaN 20.949 1 21.354 20.854 21.854 0.40533 0 0 0 0.30236 1 9296 9296 19.362 0 1 + 39476 17842 25040 25121 44459 44459 -0.01386874864465426 YTVTDQSPRL 10 Unmodified _YTVTDQSPRL_ 0 0 0 ENSG00000160161|ENST00000291495|CILP2 ENSG00000160161|ENST00000291495|CILP2 ENSG00000160161|ENST00000291495|CILP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 393.87255859375 3 393.87166 1178.59315 2.7024 0.0010644 0.30453 0.00011994 3.0069 0.0011843 393.8717548760648 18.529 0.28388 18.529 18.376 18.66 0 26 15 2 0 0 0 0.78028 1 8266 8266 5.4027 0.87384 1 490630 39477 4043 25041 25122 44460 44460 0.010999052924944408 YTVTDQSPRL 10 Unmodified _YTVTDQSPRL_ 0 0 0 ENSG00000160161|ENST00000291495|CILP2 ENSG00000160161|ENST00000291495|CILP2 ENSG00000160161|ENST00000291495|CILP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 393.8730773925781 3 393.87166 1178.59315 2.3968 0.00094405 0.38079 0.00014998 2.7776 0.001094 393.87186342210896 17.854 0.1446 18.054 17.949 18.093 0.20057 21 10 3 0 0 0 0.58053 1 7908 7908 11.518 3.5725 1 571970 39478 4043 25041 25122 44461 44461 0.010999052924944408 YTVTDQSPRL 10 Unmodified _YTVTDQSPRL_ 0 0 0 ENSG00000160161|ENST00000291495|CILP2 ENSG00000160161|ENST00000291495|CILP2 ENSG00000160161|ENST00000291495|CILP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 393.87286376953125 3 393.87166 1178.59315 2.7249 0.0010733 0.10813 4.259E-05 2.833 0.0011158 393.87165776166694 15.433 1.0353 15.739 15.355 16.39 0.306 192 113 2 0 0 0 0.90859 2 6909 6909;7051 3.3196 1.667 1 164420 39479 4043 25041 25122 44462;44463 44462 0.010999052924944408 YTVTDQSPRL 10 Unmodified _YTVTDQSPRL_ 0 0 0 ENSG00000160161|ENST00000291495|CILP2 ENSG00000160161|ENST00000291495|CILP2 ENSG00000160161|ENST00000291495|CILP2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.8725280761719 3 393.87166 1178.59315 2.9222 0.001151 0.75594 0.00029774 3.6782 0.0014487 393.8718647202667 15.487 0.55182 16.141 15.86 16.412 0.65356 127 76 3 0 0 0 0.90859 2 6948 6948;7073 3.3196 0.58445 1 108030 39480 4043 25041 25122 44464;44465 44464 0.010999052924944408 YTVTDQSPRL 10 Unmodified _YTVTDQSPRL_ 0 0 0 ENSG00000160161|ENST00000291495|CILP2 ENSG00000160161|ENST00000291495|CILP2 ENSG00000160161|ENST00000291495|CILP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.9744873046875 2 590.303852 1178.59315 NaN NaN NaN NaN NaN NaN NaN 15.567 1 16.22 15.72 16.72 0.65356 0 0 0 0.99812 1 7011 7011 3.2813 1.2216 1 39481 4043 25041 25122 44466 44466 0.010999052924944408 YTVTDQSPRL 10 Unmodified _YTVTDQSPRL_ 0 0 0 ENSG00000160161|ENST00000291495|CILP2 ENSG00000160161|ENST00000291495|CILP2 ENSG00000160161|ENST00000291495|CILP2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 393.87310791015625 3 393.87166 1178.59315 NaN NaN NaN NaN NaN NaN NaN 15.808 1 16.466 15.966 16.966 0.65798 0 0 0 0.99733 1 7123 7123 3.8763 0.88109 1 39482 4043 25041 25122 44467 44467 0.010999052924944408 YTWNFKIMF 9 Unmodified _YTWNFKIMF_ 0 0 0 ENST00000495260.5_1_4:123117925-123131067:+|nuORF;nc|ENSG00000138688|Q2LD37-5|BLTP1;nc|ENSG00000138688|Q2LD37-2|BLTP1;nc|ENSG00000138688|Q2LD37-6|BLTP1;nc|ENSG00000138688|Q2LD37-7|BLTP1;nc|ENSG00000138688|Q2LD37-4|BLTP1;nc|ENSG00000138688|Q2LD37|BLTP1;ENSG00000138688|ENST00000679879|BLTP1 ENST00000495260.5_1_4:123117925-123131067:+|nuORF ENST00000495260.5_1_4:123117925-123131067:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 417.20819091796875 3 417.207327 1248.60015 2.872 0.0011982 -0.50976 -0.00021268 2.3622 0.00098553 417.20732063852324 20.194 0.32749 20.194 20.051 20.378 0 92 30 4 0 0 0 1.0755 1 9010 9010 2.7352 2.7352 1 602640 39483 3112 25042 25123 44468 44468 -0.014204533606744008 YTWNFKIMF 9 Unmodified _YTWNFKIMF_ 0 0 0 ENST00000495260.5_1_4:123117925-123131067:+|nuORF;nc|ENSG00000138688|Q2LD37-5|BLTP1;nc|ENSG00000138688|Q2LD37-2|BLTP1;nc|ENSG00000138688|Q2LD37-6|BLTP1;nc|ENSG00000138688|Q2LD37-7|BLTP1;nc|ENSG00000138688|Q2LD37-4|BLTP1;nc|ENSG00000138688|Q2LD37|BLTP1;ENSG00000138688|ENST00000679879|BLTP1 ENST00000495260.5_1_4:123117925-123131067:+|nuORF ENST00000495260.5_1_4:123117925-123131067:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 417.2091979980469 3 417.207327 1248.60015 2.7821 0.0011607 0.50914 0.00021242 3.2912 0.0013731 417.20768767019086 19.639 0.24133 19.931 19.816 20.057 0.29239 38 19 3 0 0 0 1.0755 1 8927 8927 2.7352 1.1429 1 512410 39484 3112 25042 25123 44469 44469 -0.014204533606744008 YTWNFKIMF 9 Unmodified _YTWNFKIMF_ 0 0 0 ENST00000495260.5_1_4:123117925-123131067:+|nuORF;nc|ENSG00000138688|Q2LD37-5|BLTP1;nc|ENSG00000138688|Q2LD37-2|BLTP1;nc|ENSG00000138688|Q2LD37-6|BLTP1;nc|ENSG00000138688|Q2LD37-7|BLTP1;nc|ENSG00000138688|Q2LD37-4|BLTP1;nc|ENSG00000138688|Q2LD37|BLTP1;ENSG00000138688|ENST00000679879|BLTP1 ENST00000495260.5_1_4:123117925-123131067:+|nuORF ENST00000495260.5_1_4:123117925-123131067:+|nuORF MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 417.207327 1248.60015 2.7821 0.0011607 0.50914 0.00021242 3.2912 0.0013731 417.20768767019086 19.639 0.24133 19.931 19.816 20.057 0.29239 -0.085686 0.00082392 NaN 2.7352 38 19 3 NaN NaN NaN NaN 0 NaN NaN 0 512410 39485 3112 25042 25123 -0.014204533606744008 YTWRWVWSWEW 11 Unmodified _YTWRWVWSWEW_ 0 0 0 ENST00000419548.4_1_20:3670209-3670299:-|nuORF ENST00000419548.4_1_20:3670209-3670299:-|nuORF ENST00000419548.4_1_20:3670209-3670299:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 842.8856201171875 2 842.888418 1683.76228 NaN NaN NaN NaN NaN NaN NaN 105.55 1 105.6 105.1 106.1 0.050888 0 0 0 1.008 1 57112 57112 0.30703 0.30703 1 39486 7743 25043 25124 44470 44470 -0.05224773354188983 YTYGKHIL 8 Unmodified _YTYGKHIL_ 0 0 0 nc|ENSG00000055917|Q8TB72-4|PUM2;ENSG00000055917|ENST00000361078|PUM2;nc|ENSG00000055917|Q8TB72|PUM2;nc|ENSG00000055917|Q8TB72-2|PUM2;nc|ENSG00000134644|Q14671-4|PUM1;nc|ENSG00000134644|Q14671-2|PUM1;nc|ENSG00000134644|Q14671|PUM1;ENSG00000134644|ENST00000426105|PUM1 nc|ENSG00000055917|Q8TB72-4|PUM2;nc|ENSG00000134644|Q14671-4|PUM1 nc|ENSG00000134644|Q14671-4|PUM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 332.18450927734375 3 332.183399 993.528367 2.3066 0.00076623 0.76538 0.00025425 3.072 0.0010205 332.18371535899627 27.626 0.27082 27.889 27.781 28.052 0.26245 33 17 3 0 0 0 0.64692 2 12553 12553;12606 11.64 7.3111 1 462820 39487 2820;617 25044 25125 44471;44472 44471 0.031343752771249456 YTYGKHIL 8 Unmodified _YTYGKHIL_ 0 0 0 nc|ENSG00000055917|Q8TB72-4|PUM2;ENSG00000055917|ENST00000361078|PUM2;nc|ENSG00000055917|Q8TB72|PUM2;nc|ENSG00000055917|Q8TB72-2|PUM2;nc|ENSG00000134644|Q14671-4|PUM1;nc|ENSG00000134644|Q14671-2|PUM1;nc|ENSG00000134644|Q14671|PUM1;ENSG00000134644|ENST00000426105|PUM1 nc|ENSG00000055917|Q8TB72-4|PUM2;nc|ENSG00000134644|Q14671-4|PUM1 nc|ENSG00000134644|Q14671-4|PUM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 497.7725524902344 2 497.77146 993.528367 NaN NaN NaN NaN NaN NaN NaN 27.634 1 27.896 27.396 28.396 0.26245 0 0 0 0.44558 1 12565 12565 30.225 13.283 1 39488 2820;617 25044 25125 44473 44473 0.031343752771249456 YTYGKHIL 8 Unmodified _YTYGKHIL_ 0 0 0 nc|ENSG00000055917|Q8TB72-4|PUM2;ENSG00000055917|ENST00000361078|PUM2;nc|ENSG00000055917|Q8TB72|PUM2;nc|ENSG00000055917|Q8TB72-2|PUM2;nc|ENSG00000134644|Q14671-4|PUM1;nc|ENSG00000134644|Q14671-2|PUM1;nc|ENSG00000134644|Q14671|PUM1;ENSG00000134644|ENST00000426105|PUM1 nc|ENSG00000055917|Q8TB72-4|PUM2;nc|ENSG00000134644|Q14671-4|PUM1 nc|ENSG00000134644|Q14671-4|PUM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 332.1846008300781 3 332.183399 993.528367 2.1722 0.00072156 0.90207 0.00029965 3.0742 0.0010212 332.1837556667139 27.223 0.32626 27.845 27.706 28.032 0.62179 29 19 2 0 0 0 0.42655 2 12479 12479;12536 26.884 11.036 1 359570 39489 2820;617 25044 25125 44474;44475 44474 0.031343752771249456 YTYGKHIL 8 Unmodified _YTYGKHIL_ 0 0 0 nc|ENSG00000055917|Q8TB72-4|PUM2;ENSG00000055917|ENST00000361078|PUM2;nc|ENSG00000055917|Q8TB72|PUM2;nc|ENSG00000055917|Q8TB72-2|PUM2;nc|ENSG00000134644|Q14671-4|PUM1;nc|ENSG00000134644|Q14671-2|PUM1;nc|ENSG00000134644|Q14671|PUM1;ENSG00000134644|ENST00000426105|PUM1 nc|ENSG00000055917|Q8TB72-4|PUM2;nc|ENSG00000134644|Q14671-4|PUM1 nc|ENSG00000134644|Q14671-4|PUM1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 497.77264404296875 2 497.77146 993.528367 3.1139 0.00155 -0.19094 -9.5044E-05 2.9229 0.0014549 497.77139549199876 27.234 0.25871 27.856 27.726 27.985 0.62179 20 14 2 0 0 0 0.26384 1 12491 12491 38.151 17.28 1 311510 39490 2820;617 25044 25125 44476 44476 0.031343752771249456 YTYSQASEI 9 Unmodified _YTYSQASEI_ 0 0 0 nc|ENSG00000124496|Q96PN7-4|TRERF1;nc|ENSG00000124496|Q96PN7-5|TRERF1;nc|ENSG00000124496|Q96PN7|TRERF1;ENSG00000124496|ENST00000695948|TRERF1 nc|ENSG00000124496|Q96PN7-4|TRERF1 nc|ENSG00000124496|Q96PN7-4|TRERF1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.2449340820312 2 531.242929 1060.47131 3.313 0.00176 0.098821 5.2498E-05 3.4118 0.0018125 531.2428777218548 29.612 0.36197 29.87 29.721 30.082 0.25804 56 27 3 0 0 0 0.20384 1 13464 13464 23.148 0 1 684450 39491 2363 25045 25126 44477 44477 -0.056511367899020115 YTYVMEHLF 9 Unmodified _YTYVMEHLF_ 0 0 0 nc|ENSG00000163141|Q7Z465-3|BNIPL;nc|ENSG00000163141|Q7Z465-2|BNIPL;ENSG00000163141|ENST00000368931|BNIPL nc|ENSG00000163141|Q7Z465-3|BNIPL nc|ENSG00000163141|Q7Z465-3|BNIPL MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 601.7811279296875 2 601.781167 1201.54778 NaN NaN NaN NaN NaN NaN NaN 36.501 1 37.294 36.794 37.794 0.79342 0 0 0 0.89683 1 16542 16542 4.3292 0.38484 1 39492 4197 25046 25127 44478 44478 -0.044930364942729284 YTYYLVIMKK 10 Unmodified _YTYYLVIMKK_ 0 0 0 ENST00000316660.6_1_18:57570382-57570517:+|nuORF ENST00000316660.6_1_18:57570382-57570517:+|nuORF ENST00000316660.6_1_18:57570382-57570517:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 661.354248046875 2 661.364867 1320.71518 NaN NaN NaN NaN NaN NaN NaN 16.493 1 17.151 16.651 17.651 0.65798 0 0 0 1.002 1 7432 7432 0 0 1 39493 6908 25047 25128 44479 44479 0.06765231050439979 YVAEAVIL 8 Unmodified _YVAEAVIL_ 0 0 0 REV__ENST00000264712.7_1_2:26204855-26205287:-|nuORF REV__ENST00000264712.7_1_2:26204855-26205287:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 877.5037841796875 1 877.502946 876.49567 3.8834 0.0034077 -1.4392 -0.0012629 2.4442 0.0021448 877.5019087727918 83.731 0.21148 83.978 83.851 84.062 0.24722 19 13 2 0 0 0 0.52517 1 38533 38533 19.439 0 1 321980 + 39494 15023 25048 25129 44480 44480 0.05248168154275845 YVAKRYHHVP 10 Unmodified _YVAKRYHHVP_ 0 0 0 REV__ENST00000544670.5_1_16:19584502-19584562:+|nuORF REV__ENST00000544670.5_1_16:19584502-19584562:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 635.6724243164062 2 635.346189 1268.67783 NaN NaN NaN NaN NaN NaN NaN 82.809 1 82.809 82.309 83.309 0 0 0 0 0.98473 1 41567 41567 7.9102 1.187 1 + 39495 17242 25049 25130 44481 44481 0.054233206197068284 YVAPEVLLRQG 11 Unmodified _YVAPEVLLRQG_ 0 0 0 ENST00000476731.1_1_1:45267326-45268846:+|nuORF;ENST00000465443.5_1_1:45266117-45270174:+|nuORF;ENSG00000173846|ENST00000372201|PLK3 ENST00000476731.1_1_1:45267326-45268846:+|nuORF ENST00000476731.1_1_1:45267326-45268846:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 622.5267944335938 2 622.853512 1243.69247 NaN NaN NaN NaN NaN NaN NaN 84.396 1 84.396 83.896 84.896 0 0 0 0 0.89058 1 42721 42721 17.113 1.8644 1 39496 4955 25050 25131 44482 44482 0.0803734797721063 YVAPLVRLLM 10 Unmodified _YVAPLVRLLM_ 0 0 0 REV__nc|ENSG00000197415|Q14D04-2|VEPH1 REV__nc|ENSG00000197415|Q14D04-2|VEPH1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 587.853515625 2 587.85447 1173.69439 NaN NaN NaN NaN NaN NaN NaN 56.306 1 56.572 56.072 57.072 0.26543 0 0 0 0.94083 1 25756 25756 14.838 2.5976 1 + 39497 14277 25051 25132 44483 44483 0.11448685461482455 YVCIGIIIF 9 Unmodified _YVCIGIIIF_ 0 0 0 REV__nc|ENSG00000100678|P57103-3|SLC8A3 REV__nc|ENSG00000100678|P57103-3|SLC8A3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 520.7979125976562 2 520.796089 1039.57763 4.229 0.0022024 -2.5671 -0.001337 1.6618 0.00086548 520.7948261999486 102.04 0.14484 102.36 102.26 102.41 0.31737 7 4 2 0 0 0 0.92809 1 47223 47223 5.2307 0.47466 1 723410 + 39498 10842 25052 25133 44484 44484 0.05941947241717571 YVCIGIIIF 9 Unmodified _YVCIGIIIF_ 0 0 0 REV__nc|ENSG00000100678|P57103-3|SLC8A3 REV__nc|ENSG00000100678|P57103-3|SLC8A3 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 520.796089 1039.57763 4.229 0.0022024 -2.5671 -0.001337 1.6618 0.00086548 520.7948261999486 102.04 0.14484 102.36 102.26 102.41 0.31737 0 0 NaN 5.2307 7 4 2 NaN NaN NaN NaN 0 NaN NaN 0 723410 + 39499 10842 25052 25133 0.05941947241717571 YVDDTPAEQM 10 Unmodified _YVDDTPAEQM_ 0 0 0 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 584.7470703125 2 584.744979 1167.4754 3.5516 0.0020768 0.69385 0.00040572 4.2455 0.0024825 584.7451822405558 37.034 0.25951 37.664 37.545 37.805 0.62999 18 10 2 0 0 0 0.42206 1 16946 16946 24.021 16.731 1 284560 39500 2962 25053 25134 44485 44485 -0.10163415358510974 YVDDTPAEQM 10 Unmodified _YVDDTPAEQM_ 0 0 0 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 ENSG00000136628|ENST00000366923|EPRS1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 584.744979 1167.4754 3.5611 0.0020824 1.4113 0.00082525 4.9724 0.0029076 584.745184189743 37.57 0.28261 37.83 37.696 37.978 0.26083 0.083103 0.00044 NaN 24.021 14 8 3 NaN NaN NaN NaN 0 NaN NaN 0 254730 39501 2962 25053 25134 -0.10163415358510974 YVDDTQFVRF 10 Unmodified _YVDDTQFVRF_ 0 0 0 ENSG00000204592|ENST00000376630|HLA-E;ENST00000484194.1_1_6:30457308-30457777:+|nuORF;ENST00000474381.1_1_6:31323854-31324663:-|nuORF;nc|ENSG00000204632|P17693-6|HLA-G;nc|ENSG00000204632|P17693-2|HLA-G;nc|ENSG00000204632|P17693-7|HLA-G;nc|ENSG00000204632|P17693-3|HLA-G;ENSG00000234745|ENST00000412585|HLA-B;ENST00000498007.1_1_6:31324459-31324935:-|nuORF;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000204525|ENST00000376228|HLA-C;ENST00000484378.1_1_6:31239370-31239848:-|nuORF;nc|ENSG00000206341|P01893|HLA-H;ENST00000487245.5_1_6:31239370-31239763:-|nuORF;ENSG00000206503|ENST00000376809|HLA-A;nc|ENSG00000206503|P04439-2|HLA-A;ENST00000495183.5_1_6:29910330-29910808:+|nuORF;ENSG00000204632|ENST00000360323|HLA-G;nc|ENSG00000204632|P17693-5|HLA-G;nc|ENSG00000204632|P17693-4|HLA-G ENSG00000204592|ENST00000376630|HLA-E;ENSG00000234745|ENST00000412585|HLA-B;nc|ENSG00000204525|P10321-2|HLA-C;ENSG00000206503|ENST00000376809|HLA-A;ENSG00000204632|ENST00000360323|HLA-G nc|ENSG00000204525|P10321-2|HLA-C MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 645.312255859375 2 645.311677 1288.6088 3.7509 0.0024205 -1.3913 -0.00089785 2.3596 0.0015227 645.3113512971487 62.252 0.13275 62.913 62.842 62.975 0.66008 10 9 2 0 0 0 0.24962 1 28546 28546 33.445 15.299 1 433940 39502 6014;6023;6072;6198;6027 25054 25135 44486 44486 -0.023958081904993378 YVDEFFHDYDD 11 Unmodified _YVDEFFHDYDD_ 0 0 0 REV__ENST00000558394.5_1_15:77348162-77363449:-|nuORF REV__ENST00000558394.5_1_15:77348162-77363449:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 488.8588562011719 3 488.857857 1463.55174 NaN NaN NaN NaN NaN NaN NaN 13.334 1 13.578 13.078 14.078 0.24346 0 0 0 1.0082 1 5817 5817 0 0 1 + 39503 12244 25055 25136 44487 44487 -0.1614932025752296 YVDPVNKVL 9 Unmodified _YVDPVNKVL_ 0 0 0 nc|ENSG00000140992|O15530-4|PDPK1;nc|ENSG00000140992|O15530-2|PDPK1;nc|ENSG00000140992|O15530-3|PDPK1;ENSG00000140992|ENST00000342085|PDPK1 nc|ENSG00000140992|O15530-4|PDPK1 nc|ENSG00000140992|O15530-4|PDPK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.799560546875 2 523.797675 1045.5808 3.1462 0.001648 0.50551 0.00026479 3.6517 0.0019127 523.7977178610756 50.31 0.29432 50.31 50.166 50.461 0 32 13 4 0 0 0 0.0095519 2 23012 23012;23071 82.529 53.448 1 1599900 39504 3226 25056 25137 44488;44489 44488 0.059829136200733046 YVDPVNKVL 9 Unmodified _YVDPVNKVL_ 0 0 0 nc|ENSG00000140992|O15530-4|PDPK1;nc|ENSG00000140992|O15530-2|PDPK1;nc|ENSG00000140992|O15530-3|PDPK1;ENSG00000140992|ENST00000342085|PDPK1 nc|ENSG00000140992|O15530-4|PDPK1 nc|ENSG00000140992|O15530-4|PDPK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 523.7990112304688 2 523.797675 1045.5808 3.3951 0.0017783 -0.35614 -0.00018655 3.0389 0.0015918 523.7972098415369 49.378 0.33628 50.205 50.005 50.342 0.82705 33 15 3 0 0 0 0.0027913 2 22510 22457;22510 96.367 56.417 1 1182600 39505 3226 25056 25137 44490;44491 44491 0.059829136200733046 YVDPVNKVL 9 Unmodified _YVDPVNKVL_ 0 0 0 nc|ENSG00000140992|O15530-4|PDPK1;nc|ENSG00000140992|O15530-2|PDPK1;nc|ENSG00000140992|O15530-3|PDPK1;ENSG00000140992|ENST00000342085|PDPK1 nc|ENSG00000140992|O15530-4|PDPK1 nc|ENSG00000140992|O15530-4|PDPK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 523.7997436523438 2 523.797675 1045.5808 3.322 0.00174 0.08614 4.512E-05 3.4081 0.0017852 523.7976241378956 50.095 0.3021 50.357 50.162 50.464 0.26146 27 11 3 0 0 0 0.0061394 2 22918 22858;22918 89.401 53.546 1 1690800 39506 3226 25056 25137 44492;44493 44493 0.059829136200733046 YVDPVNKVL 9 Unmodified _YVDPVNKVL_ 0 0 0 nc|ENSG00000140992|O15530-4|PDPK1;nc|ENSG00000140992|O15530-2|PDPK1;nc|ENSG00000140992|O15530-3|PDPK1;ENSG00000140992|ENST00000342085|PDPK1 nc|ENSG00000140992|O15530-4|PDPK1 nc|ENSG00000140992|O15530-4|PDPK1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 523.7998046875 2 523.797675 1045.5808 3.3768 0.0017688 0.18502 9.6911E-05 3.5618 0.0018657 523.7976939625909 49.47 0.23825 50.126 49.982 50.22 0.65524 19 8 3 0 0 0 0.0043297 2 22611 22611;22670 93.166 60.38 1 1852200 39507 3226 25056 25137 44494;44495 44494 0.059829136200733046 YVEIAFFSRWW 11 Unmodified _YVEIAFFSRWW_ 0 0 0 nc|ENSG00000104774|O00754-2|MAN2B1;ENSG00000104774|ENST00000456935|MAN2B1;ENST00000486847.2_1_19:12774617-12777525:-|nuORF;ENST00000600281.1_1_19:12776145-12777515:-|nuORF;ENST00000466794.5_1_19:12769146-12777470:-|nuORF nc|ENSG00000104774|O00754-2|MAN2B1 nc|ENSG00000104774|O00754-2|MAN2B1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 752.3803100585938 2 752.374612 1502.73467 NaN NaN NaN NaN NaN NaN NaN 63.575 1 64.233 63.733 64.733 0.65809 0 0 0 1.0041 1 29135 29135 5.2969 2.0156 1 39508 1449 25057 25138 44496 44496 0.0034132338560084463 YVGDAYLVL 9 Unmodified _YVGDAYLVL_ 0 0 0 nc|ENSG00000006747|Q9Y6U3-2|SCIN;ENSG00000006747|ENST00000297029|SCIN nc|ENSG00000006747|Q9Y6U3-2|SCIN nc|ENSG00000006747|Q9Y6U3-2|SCIN MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1012.5371704101562 1 1012.53497 1011.5277 3.6699 0.0037159 -0.17273 -0.00017489 3.4972 0.003541 1012.5348177256247 79.46 0.22196 80.121 79.997 80.219 0.66082 23 16 2 0 0 0 0.078322 1 36602 36602 38.151 9.6643 1 555290 39509 358 25058 25139 44497 44497 0.02239535837418316 YVHMVTHF 8 Unmodified _YVHMVTHF_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.2515869140625 2 517.249837 1032.48512 3.1723 0.0016408 -0.20595 -0.00010653 2.9663 0.0015343 517.2497900574822 42.059 0.2852 42.059 41.877 42.162 0 42 16 3 0 0 0 0.00091731 2 19098 19098;19135 136.08 69.045 1 8487400 39510 3158 25059 25140 44498;44499 44498 -0.02982137771800808 YVHMVTHF 8 Unmodified _YVHMVTHF_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 517.2513427734375 2 517.249837 1032.48512 NaN NaN NaN NaN NaN NaN NaN 42.177 1 42.177 41.677 42.677 0 0 0 0 0.031002 1 19192 19192 98.807 64.62 1 39511 3158 25059 25140 44500 44500 -0.02982137771800808 YVHMVTHF 8 Unmodified _YVHMVTHF_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 517.2515258789062 2 517.249837 1032.48512 3.2997 0.0017068 -0.35654 -0.00018442 2.9431 0.0015223 517.2498223850763 40.963 0.24532 41.766 41.651 41.897 0.80351 62 27 3 0 0 0 0.00091731 2 18537 18537;18586 136.08 69.045 1 8598400 39512 3158 25059 25140 44501;44502 44501 -0.02982137771800808 YVHMVTHF 8 Unmodified _YVHMVTHF_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.252685546875 2 517.249837 1032.48512 3.6603 0.0018933 0.18783 9.7157E-05 3.8482 0.0019905 517.2500216182763 41.838 0.15139 42.108 41.966 42.118 0.27021 8 5 2 0 0 0 0.0083292 1 19044 19044 120.86 64.316 1 8057400 39513 3158 25059 25140 44503 44503 -0.02982137771800808 YVHMVTHF 8 Unmodified _YVHMVTHF_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 517.251708984375 2 517.249837 1032.48512 NaN NaN NaN NaN NaN NaN NaN 41.911 1 42.182 41.682 42.682 0.27021 0 0 0 1.088E-05 1 19103 19103 120.86 64.316 1 39514 3158 25059 25140 44504 44504 -0.02982137771800808 YVHMVTHF 8 Unmodified _YVHMVTHF_ 0 0 0 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 517.2521362304688 2 517.249837 1032.48512 3.5849 0.0018543 -1.1001 -0.00056903 2.4847 0.0012852 517.249732140928 41.222 0.22202 41.867 41.74 41.962 0.64451 46 12 5 0 0 0 0.00091731 2 18822 18822;18870 136.08 69.045 1 4712100 39515 3158 25059 25140 44505;44506 44505 -0.02982137771800808 YVHMVTHF 8 Oxidation (M) _YVHM(Oxidation (M))VTHF_ YVHM(1)VTHF YVHM(40)VTHF 0 0 1 nc|ENSG00000139644|P55061-2|TMBIM6;ENSG00000139644|ENST00000267115|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 nc|ENSG00000139644|P55061-2|TMBIM6 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 525.7515869140625 2 525.247295 1048.48004 3.2089 0.0016855 0.31876 0.00016743 3.5277 0.0018529 525.2475292267483 27.976 0.19285 28.238 28.129 28.322 0.26245 20 12 2 0 0 0 0.23254 1 12719 12719 40.449 24.68 1 222090 39516 3158 25059 25141 44507 44507 45 -0.04226441634409639 YVHNMMVIEND 11 Unmodified _YVHNMMVIEND_ 0 0 0 REV__ENST00000590883.1_1_19:12958136-12958997:+|nuORF REV__ENST00000590883.1_1_19:12958136-12958997:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 682.8026733398438 2 682.802305 1363.59006 NaN NaN NaN NaN NaN NaN NaN 73.805 1 74.064 73.564 74.564 0.25876 0 0 0 1.0057 1 33909 33909 3.2813 1.7994 1 + 39517 10781 25060 25142 44508 44508 -0.07719429148210111 YVIGRYLHL 9 Unmodified _YVIGRYLHL_ 0 0 0 REV__ENST00000259075.6_2_2:161993477-162036252:+|nuORF REV__ENST00000259075.6_2_2:161993477-162036252:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 378.5546875 3 378.553715 1132.63931 2.832 0.0010721 -0.22594 -8.553E-05 2.6061 0.00098655 378.5535900430908 52.668 0.27722 52.931 52.8 53.077 0.26345 16 10 2 0 0 0 0.55815 1 24070 24070 11.495 0 1 1038500 + 39518 14951 25061 25143 44509 44509 0.07830014985211164 YVIQLFLI 8 Unmodified _YVIQLFLI_ 0 0 0 REV__ENST00000431138.5_1_7:87516207-87516695:+|nuORF REV__ENST00000431138.5_1_7:87516207-87516695:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 504.8104248046875 2 504.810054 1007.60555 4.0613 0.0020502 -2.056 -0.0010379 2.0053 0.0010123 504.8085405549011 104.17 0.043747 104.49 104.48 104.53 0.31863 5 3 2 0 0 0 0.7471 1 48145 48145 0.79363 0 1 504320 + 39519 16262 25062 25144 44510 44510 0.10205593493469678 YVIQSGTIMY 10 Unmodified _YVIQSGTIMY_ 0 0 0 ENSG00000197406|ENST00000510508|DIO3 ENSG00000197406|ENST00000510508|DIO3 ENSG00000197406|ENST00000510508|DIO3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 392.2487487792969 3 392.198609 1173.574 NaN NaN NaN NaN NaN NaN NaN 61.531 1 61.783 61.283 62.283 0.25245 0 0 0 0.99687 1 28179 28179 2.086 0 1 39520 5814 25063 25145 44511 44511 -0.005847673227890482 YVISSALLL 9 Unmodified _YVISSALLL_ 0 0 0 REV__ENST00000436441.5_3_9:135172278-135172338:-|nuORF REV__ENST00000436441.5_3_9:135172278-135172338:-|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 489.31610107421875 2 489.797143 977.579734 3.3776 0.0016543 0.39106 0.00019154 3.7686 0.0018459 489.7970348042385 90.401 0.21034 91.073 90.957 91.168 0.67271 20 8 3 0 0 0 0.042588 1 41603 41603 32.117 1.8922 1 609100 + 39521 16307 25064 25146 44512 44512 0.09004699251181592 YVIVVNDK 8 Unmodified _YVIVVNDK_ 0 0 0 REV__ENSG00000185009|ENST00000355264|AP3M1 REV__ENSG00000185009|ENST00000355264|AP3M1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 475.21728515625 2 475.271293 948.528032 NaN NaN NaN NaN NaN NaN NaN 103.45 1 103.51 103.01 104.01 0.055092 0 0 0 0.99035 1 56086 56086 2.3027 0 1 + 39522 13997 25065 25147 44513 44513 0.05170955557275647 YVKFPLLK 8 Unmodified _YVKFPLLK_ 0 0 0 ENSG00000067704|ENST00000366922|IARS2 ENSG00000067704|ENST00000366922|IARS2 ENSG00000067704|ENST00000366922|IARS2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 504.3200988769531 2 504.318046 1006.62154 NaN NaN NaN NaN NaN NaN NaN 87.56 1 87.56 87.06 88.06 0 0 0 0 0.94507 1 45188 45188 9.3474 0.75416 1 39523 725 25066 25148 44514 44514 0.11849299730363327 YVKFVLIILS 10 Unmodified _YVKFVLIILS_ 0 0 0 REV__ENST00000330817.10_1_22:50294661-50295054:-|nuORF REV__ENST00000330817.10_1_22:50294661-50295054:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 597.8792724609375 2 597.878468 1193.74238 NaN NaN NaN NaN NaN NaN NaN 43.526 1 44.34 43.84 44.84 0.81444 0 0 0 0.99983 1 19814 19814 1.8442 0 1 + 39524 15376 25067 25149 44515 44515 0.153260826532005 YVKKIRKL 8 Unmodified _YVKKIRKL_ 0 0 0 REV__nc|ENSG00000106069|P52757-6|CHN2 REV__nc|ENSG00000106069|P52757-6|CHN2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.3535766601562 2 524.355494 1046.69644 NaN NaN NaN NaN NaN NaN NaN 88.106 1 88.785 88.285 89.285 0.67818 0 0 0 0.99035 1 40581 40581 0.79363 0 1 + 39525 11070 25068 25150 44516 44516 0.17495482261597317 YVKLKNYLK 9 Unmodified _YVKLKNYLK_ 0 0 0 nc|ENSG00000088970|Q2M2Z5-3|KIZ;nc|ENSG00000088970|Q2M2Z5-4|KIZ;ENSG00000088970|ENST00000619189|KIZ nc|ENSG00000088970|Q2M2Z5-3|KIZ nc|ENSG00000088970|Q2M2Z5-3|KIZ MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 584.8583984375 2 584.858067 1167.70158 NaN NaN NaN NaN NaN NaN NaN 11.69 1 11.69 11.19 12.19 0 0 0 0 0.91238 1 5087 5087 0.52476 0 1 39526 1022 25069 25151 44517 44517 0.12443741333549951 YVKLLLLLI 9 Unmodified _YVKLLLLLI_ 0 0 0 REV__nc|ENSG00000122223|Q9BZW8-4|CD244 REV__nc|ENSG00000122223|Q9BZW8-4|CD244 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 544.3784790039062 2 544.378103 1086.74165 NaN NaN NaN NaN NaN NaN NaN 61.532 1 62.192 61.692 62.692 0.66008 0 0 0 0.91452 1 28180 28180 0 0 1 + 39527 11577 25070 25152 44518 44518 0.20175288004156755 YVKRLAPA 8 Unmodified _YVKRLAPA_ 0 0 0 REV__ENST00000538523.5_1_19:1387763-1393403:+|nuORF REV__ENST00000538523.5_1_19:1387763-1393403:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 459.28167724609375 2 459.281995 916.549437 NaN NaN NaN NaN NaN NaN NaN 60.08 1 60.746 60.246 61.246 0.66503 0 0 0 0.99035 1 27506 27506 0.79363 0 1 + 39528 17193 25071 25153 44519 44519 0.08782385376639468 YVLILRTV 8 Unmodified _YVLILRTV_ 0 0 0 ENSG00000176900|ENST00000322049|OR51T1 ENSG00000176900|ENST00000322049|OR51T1 ENSG00000176900|ENST00000322049|OR51T1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 488.8131408691406 2 488.813128 975.611703 NaN NaN NaN NaN NaN NaN NaN 83.408 1 83.655 83.155 84.155 0.24722 0 0 0 0.99035 1 38392 38392 0.79363 0 1 39529 5092 25072 25154 44520 44520 0.12292111725002997 YVLPSFHLLF 10 Unmodified _YVLPSFHLLF_ 0 0 0 REV__ENSG00000154262|ENST00000284425|ABCA6 REV__ENSG00000154262|ENST00000284425|ABCA6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 412.5667419433594 3 412.56562 1234.67503 NaN NaN NaN NaN NaN NaN NaN 29.45 1 29.45 28.95 29.95 0 0 0 0 0.99995 1 13291 13291 1.7423 0 1 + 39530 12703 25073 25155 44521 44521 0.06708052442218104 YVLSSLLL 8 Unmodified _YVLSSLLL_ 0 0 0 REV__ENSG00000179476|ENST00000325192|C14orf28 REV__ENSG00000179476|ENST00000325192|C14orf28 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 303.1995849609375 3 303.18815 906.54262 NaN NaN NaN NaN NaN NaN NaN 41.62 1 41.89 41.39 42.39 0.27021 0 0 0 0.99035 1 18963 18963 0.40072 0 1 + 39531 13798 25074 25156 44522 44522 0.08561027705434299 YVLTPLPW 8 Unmodified _YVLTPLPW_ 0 0 0 nc|ENSG00000144369|Q6P995-2|FAM171B;ENSG00000144369|ENST00000304698|FAM171B nc|ENSG00000144369|Q6P995-2|FAM171B nc|ENSG00000144369|Q6P995-2|FAM171B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 494.7821960449219 2 494.778754 987.542954 NaN NaN NaN NaN NaN NaN NaN 94.092 1 94.179 93.679 94.679 0.086212 0 0 0 0.94507 1 49422 49422 9.3474 3.587 1 39532 3421 25075 25157 44523 44523 0.04868447425269551 YVMKTDSDI 9 Unmodified _YVMKTDSDI_ 0 0 0 ENSG00000172318|ENST00000392690|B3GALT1 ENSG00000172318|ENST00000392690|B3GALT1 ENSG00000172318|ENST00000392690|B3GALT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 536.257080078125 2 536.254982 1070.49541 2.9639 0.0015894 1.3982 0.0007498 4.3621 0.0023392 536.2555270948525 58.773 0.19282 59.035 59.003 59.196 0.26227 20 11 2 0 0 0 0.59776 1 26965 26965 10.824 0 1 510060 39533 4866 25076 25158 44524 44524 -0.037016196278727875 YVNEDQWY 8 Unmodified _YVNEDQWY_ 0 0 0 REV__ENSG00000080854|ENST00000533871|IGSF9B REV__ENSG00000080854|ENST00000533871|IGSF9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 558.7345581054688 2 558.735271 1115.45599 NaN NaN NaN NaN NaN NaN NaN 46.656 1 46.656 46.156 47.156 0 0 0 0 0.99035 1 21356 21356 2.8892 0 1 + 39534 10603 25077 25159 44525 44525 -0.09712003587105755 YVNNLLAKGA 10 Unmodified _YVNNLLAKGA_ 0 0 0 REV__ENST00000324559.8_1_11:22304690-22304876:+|nuORF REV__ENST00000324559.8_1_11:22304690-22304876:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.302978515625 2 531.800749 1061.58694 3.4702 0.0018454 0.39613 0.00021066 3.8663 0.0020561 531.801316655686 54.154 0.4175 54.154 54 54.418 0 72 31 3 0 0 0 0.12676 1 24956 24956 10.824 0 1 2448200 + 39535 15341 25078 25160 44526 44526 0.058614318515992636 YVNWGIKGFK 10 Unmodified _YVNWGIKGFK_ 0 0 0 REV__nc|ENSG00000197653|Q8IVF4|DNAH10 REV__nc|ENSG00000197653|Q8IVF4|DNAH10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.5602111816406 3 404.557236 1210.64988 2.7022 0.0010932 0.78153 0.00031617 3.4837 0.0014094 404.5576083674327 16.604 0.52896 16.604 16.134 16.663 0 121 68 2 0 0 0 0.9406 1 7241 7241 0.77653 0.078866 1 362780 + 39536 14297 25079 25161 44527 44527 0.05297997639627283 YVPIAQVKDV 10 Unmodified _YVPIAQVKDV_ 0 0 0 ENSG00000136235|ENST00000258733|GPNMB;nc|ENSG00000136235|Q14956|GPNMB ENSG00000136235|ENST00000258733|GPNMB ENSG00000136235|ENST00000258733|GPNMB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 377.8868103027344 3 377.88513 1130.63356 NaN NaN NaN NaN NaN NaN NaN 21.589 1 21.589 21.089 22.089 0 0 0 0 0.9952 1 9670 9670 8.4443 3.1474 1 39537 2933 25080 25162 44528 44528 0.07346871682898382 YVPVPKVSHW 10 Unmodified _YVPVPKVSHW_ 0 0 0 ENST00000475960.1_1_1:235324132-235324270:-|nuORF ENST00000475960.1_1_1:235324132-235324270:-|nuORF ENST00000475960.1_1_1:235324132-235324270:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.8926696777344 3 404.557236 1210.64988 2.7022 0.0010932 0.78153 0.00031617 3.4837 0.0014094 404.5576083674327 16.604 0.52896 16.604 16.134 16.663 0 121 68 2 0 0 0 0.94099 1 7198 7198 0.69767 0.42865 1 362780 39538 8227 25081 25163 44529 44529 0.052979976396500206 YVPVPKVSHW 10 Unmodified _YVPVPKVSHW_ 0 0 0 ENST00000475960.1_1_1:235324132-235324270:-|nuORF ENST00000475960.1_1_1:235324132-235324270:-|nuORF ENST00000475960.1_1_1:235324132-235324270:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.5579833984375 3 404.557236 1210.64988 2.7091 0.001096 0.12008 4.8581E-05 2.8292 0.0011446 404.55725345270037 16.749 0.36776 16.749 16.663 17.031 0 103 41 3 0 0 0 0.93658 1 7544 7544 1.5923 0.37745 1 367810 39539 8227 25081 25163 44530 44530 0.052979976396500206 YVRGHTPLRV 10 Unmodified _YVRGHTPLRV_ 0 0 0 REV__nc|ENSG00000112655|Q13308-5|PTK7 REV__nc|ENSG00000112655|Q13308-5|PTK7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 599.3461303710938 2 599.346189 1196.67783 NaN NaN NaN NaN NaN NaN NaN 11.738 1 11.738 11.238 12.238 0 0 0 0 1.002 1 5106 5106 0 0 1 + 39540 11278 25082 25164 44531 44531 0.08735320619712184 YVRRFRIL 8 Unmodified _YVRRFRIL_ 0 0 0 REV__ENST00000470961.1_1_3:101405187-101405544:-|nuORF REV__ENST00000470961.1_1_3:101405187-101405544:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 561.8468627929688 2 561.848368 1121.68218 NaN NaN NaN NaN NaN NaN NaN 86.879 1 87.555 87.055 88.055 0.67555 0 0 0 0.99035 1 40020 40020 2.8892 0.58649 1 + 39541 16595 25083 25165 44532 44532 0.12620829833326752 YVRRWSRWFRK 11 Unmodified _YVRRWSRWFRK_ 0 0 0 REV__ENST00000496222.1_1_3:160156960-160167504:-|nuORF REV__ENST00000496222.1_1_3:160156960-160167504:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 820.0403442382812 2 820.457668 1638.90078 NaN NaN NaN NaN NaN NaN NaN 85.403 1 85.403 84.903 85.903 0 0 0 0 1.0082 1 43476 43476 0 0 1 + 39542 16724 25084 25166 44533 44533 0.1068881440480709 YVRRWSRWFRK 11 Unmodified _YVRRWSRWFRK_ 0 0 0 REV__ENST00000496222.1_1_3:160156960-160167504:-|nuORF REV__ENST00000496222.1_1_3:160156960-160167504:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 820.5153198242188 2 820.457668 1638.90078 NaN NaN NaN NaN NaN NaN NaN 106.04 1 106.04 105.54 106.54 0 0 0 0 1.0082 1 58250 58250 0 0 1 + 39543 16724 25084 25166 44534 44534 0.1068881440480709 YVRRWSRWFRK 11 Unmodified _YVRRWSRWFRK_ 0 0 0 REV__ENST00000496222.1_1_3:160156960-160167504:-|nuORF REV__ENST00000496222.1_1_3:160156960-160167504:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 820.4598388671875 2 820.457668 1638.90078 NaN NaN NaN NaN NaN NaN NaN 86.068 1 86.099 85.599 86.599 0.030289 0 0 0 1.0082 1 43215 43215 0 0 1 + 39544 16724 25084 25166 44535 44535 0.1068881440480709 YVRRWSRWFRK 11 Unmodified _YVRRWSRWFRK_ 0 0 0 REV__ENST00000496222.1_1_3:160156960-160167504:-|nuORF REV__ENST00000496222.1_1_3:160156960-160167504:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 820.3861694335938 2 820.457668 1638.90078 NaN NaN NaN NaN NaN NaN NaN 86.218 1 86.248 85.748 86.748 0.030289 0 0 0 1.0082 1 43320 43320 0 0 1 + 39545 16724 25084 25166 44536 44536 0.1068881440480709 YVRRWSRWFRK 11 Unmodified _YVRRWSRWFRK_ 0 0 0 REV__ENST00000496222.1_1_3:160156960-160167504:-|nuORF REV__ENST00000496222.1_1_3:160156960-160167504:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 820.4603271484375 2 820.457668 1638.90078 NaN NaN NaN NaN NaN NaN NaN 96.132 1 96.209 95.709 96.709 0.076538 0 0 0 1.0082 1 50995 50995 0 0 1 + 39546 16724 25084 25166 44537 44537 0.1068881440480709 YVRUSTCHE 9 Unmodified _YVRUSTCHE_ 0 0 0 REV__ENSG00000211450|ENST00000534355|SELENOH REV__ENSG00000211450|ENST00000534355|SELENOH MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 573.1796264648438 2 573.201002 1144.38745 NaN NaN NaN NaN NaN NaN NaN 82.398 1 82.398 81.898 82.898 0 0 0 0 0.90511 1 41242 41242 0 0 0 + 39547 14479 25085 25167 44538 44538 -0.1789681499353719 YVRVAHTSK 9 Unmodified _YVRVAHTSK_ 0 0 0 nc|ENSG00000283654|A0A1B0GTW7-3|CIROP;nc|ENSG00000283654|A0A1B0GTW7-2|CIROP;ENSG00000283654|ENST00000637218|CIROP nc|ENSG00000283654|A0A1B0GTW7-3|CIROP nc|ENSG00000283654|A0A1B0GTW7-3|CIROP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.7999877929688 2 530.79854 1059.58253 NaN NaN NaN NaN NaN NaN NaN 87.09 1 87.09 86.59 87.59 0 0 0 0 0.77475 1 44807 44807 10.074 0.6908 1 39548 6372 25086 25168 44539 44539 0.05511967428697062 YVRVAHTSK 9 Unmodified _YVRVAHTSK_ 0 0 0 nc|ENSG00000283654|A0A1B0GTW7-3|CIROP;nc|ENSG00000283654|A0A1B0GTW7-2|CIROP;ENSG00000283654|ENST00000637218|CIROP nc|ENSG00000283654|A0A1B0GTW7-3|CIROP nc|ENSG00000283654|A0A1B0GTW7-3|CIROP MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 530.759765625 2 530.79854 1059.58253 NaN NaN NaN NaN NaN NaN NaN 90.742 1 90.742 90.242 91.242 0 0 0 0 0.65681 1 47773 47773 13.906 0.39817 1 39549 6372 25086 25168 44540 44540 0.05511967428697062 YVRVLLPS 8 Unmodified _YVRVLLPS_ 0 0 0 REV__nc|ENSG00000163840|Q8TDB6-2|DTX3L REV__nc|ENSG00000163840|Q8TDB6-2|DTX3L MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 316.2029113769531 3 316.195527 945.564752 NaN NaN NaN NaN NaN NaN NaN 66.498 1 67.202 66.702 67.702 0.7047 0 0 0 0.99035 1 31527 31527 1.4819 0 1 + 39550 13034 25087 25169 44541 44541 0.08979252173844543 YVSLTRKKML 10 Unmodified _YVSLTRKKML_ 0 0 0 ENSG00000182489|ENST00000372956|XKRX ENSG00000182489|ENST00000372956|XKRX ENSG00000182489|ENST00000372956|XKRX MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 619.8716430664062 2 619.868108 1237.72166 NaN NaN NaN NaN NaN NaN NaN 87.793 1 88.043 87.543 88.543 0.25064 0 0 0 1.0001 1 40402 40402 1.6526 0 1 39551 5337 25088 25170 44542 44542 0.11231169001871422 YVSPKESPF 9 Unmodified _YVSPKESPF_ 0 0 0 ENSG00000072274|ENST00000360110|TFRC ENSG00000072274|ENST00000360110|TFRC ENSG00000072274|ENST00000360110|TFRC MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 527.2678833007812 2 527.266207 1052.51786 3.2145 0.0016949 -0.33351 -0.00017585 2.881 0.001519 527.2658116996978 36.89 0.23174 37.683 37.524 37.756 0.79342 17 9 2 0 0 0 0.22744 1 16715 16715 21.59 1.1365 1 359350 39552 788 25089 25171 44543 44543 -0.006296521679587386 YVSPKESPF 9 Unmodified _YVSPKESPF_ 0 0 0 ENSG00000072274|ENST00000360110|TFRC ENSG00000072274|ENST00000360110|TFRC ENSG00000072274|ENST00000360110|TFRC MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 527.266207 1052.51786 3.204 0.0016894 0.72903 0.00038439 3.9331 0.0020738 527.2665128542733 37.837 0.22271 37.837 37.765 37.987 0 0.076912 0.00066029 NaN 21.59 14 8 2 NaN NaN NaN NaN 0 NaN NaN 0 298840 39553 788 25089 25171 -0.006296521679587386 YVSPKESPF 9 Unmodified _YVSPKESPF_ 0 0 0 ENSG00000072274|ENST00000360110|TFRC ENSG00000072274|ENST00000360110|TFRC ENSG00000072274|ENST00000360110|TFRC MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 527.266207 1052.51786 3.2145 0.0016949 -0.33351 -0.00017585 2.881 0.001519 527.2658116996978 36.89 0.23174 37.683 37.524 37.756 0.79342 -0.076912 -0.0004602 NaN 21.59 17 9 2 NaN NaN NaN NaN 0 NaN NaN 0 359350 39554 788 25089 25171 -0.006296521679587386 YVTVDEFMVL 10 Unmodified _YVTVDEFMVL_ 0 0 0 REV__ENSG00000171574|ENST00000306910|ZNF584 REV__ENSG00000171574|ENST00000306910|ZNF584 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1215.603271484375 1 1215.59659 1214.58931 3.8313 0.0046573 -1.3728 -0.0016687 2.4585 0.0029885 1215.594387223465 94.269 0.26965 94.529 94.389 94.658 0.25975 21 13 2 0 0 0 0.82431 1 43367 43367 7.2892 0 1 494720 + 39555 13503 25090 25172 44544 44544 -0.009399005256000237 YVTVDEFMVL 10 Unmodified _YVTVDEFMVL_ 0 0 0 REV__ENSG00000171574|ENST00000306910|ZNF584 REV__ENSG00000171574|ENST00000306910|ZNF584 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1215.610107421875 1 1215.59659 1214.58931 3.5281 0.0042888 0.54929 0.00066772 4.0774 0.0049565 1215.6003240859397 93.659 0.18818 94.29 94.161 94.349 0.63115 10 6 2 0 0 0 0.25925 1 43067 43067 32.305 8.2849 1 660400 + 39556 13503 25090 25172 44545 44545 -0.009399005256000237 YVTVDEFMVL 10 Unmodified _YVTVDEFMVL_ 0 0 0 REV__ENSG00000171574|ENST00000306910|ZNF584 REV__ENSG00000171574|ENST00000306910|ZNF584 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 1 1215.59659 1214.58931 3.5281 0.0042888 0.54929 0.00066772 4.0774 0.0049565 1215.6003240859397 93.659 0.18818 94.29 94.161 94.349 0.63115 -0.11925 0.0017837 NaN 32.305 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 660400 + 39557 13503 25090 25172 -0.009399005256000237 YVVGANNVLI 10 Unmodified _YVVGANNVLI_ 0 0 0 REV__ENSG00000198189|ENST00000358290|HSD17B11 REV__ENSG00000198189|ENST00000358290|HSD17B11 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 531.3233642578125 2 531.303124 1060.5917 NaN NaN NaN NaN NaN NaN NaN 54.257 1 54.521 54.021 55.021 0.26462 0 0 0 0.56342 1 24810 24810 28.487 1.6032 1 + 39558 14325 25091 25173 44546 44546 0.06382315994369492 YVVNNGLTL 9 Unmodified _YVVNNGLTL_ 0 0 0 ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant;nc|ENSG00000171681|Q6VMQ6-5|ATF7IP;ENSG00000171681|ENST00000261168|ATF7IP;nc|ENSG00000171681|Q6VMQ6-4|ATF7IP ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant ATF7IP|p.E1204Dfs*60|1|0.17|ENSG00000171681|chr12:14497871-14497871|A/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 496.77545166015625 2 496.7742 991.533846 2.8538 0.0014177 -0.26065 -0.00012948 2.5931 0.0012882 496.7742418792584 53.663 0.15931 54.466 54.436 54.595 0.8035 12 8 2 0 0 0 0.43926 1 24533 24533 13.508 0 1 1000000 39559 73 25092 25174 44547 44547 0.037740540689469526 YVVSGNLLGV 10 Unmodified _YVVSGNLLGV_ 0 0 0 REV__ENSG00000188107|ENST00000503581|EYS REV__ENSG00000188107|ENST00000503581|EYS MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 510.7882995605469 2 510.78985 1019.56515 NaN NaN NaN NaN NaN NaN NaN 35.65 1 35.905 35.405 36.405 0.25524 0 0 0 0.99733 1 16239 16239 3.9444 1.0552 1 + 39560 14132 25093 25175 44548 44548 0.05614627103068415 YVWLRHKFG 9 Unmodified _YVWLRHKFG_ 0 0 0 REV__ENSG00000198056|ENST00000338193|PRIM1 REV__ENSG00000198056|ENST00000338193|PRIM1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 603.3324584960938 2 603.33255 1204.65055 NaN NaN NaN NaN NaN NaN NaN 15.716 1 15.927 15.427 16.427 0.21108 0 0 0 0.91452 1 6936 6936 0 0 1 + 39561 14317 25094 25176 44549 44549 0.05640837079340599 YVWMLEPL 8 Unmodified _YVWMLEPL_ 0 0 0 REV__ENST00000498780.5_1_2:201862166-201888732:-|nuORF REV__ENST00000498780.5_1_2:201862166-201888732:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 525.7700805664062 2 525.770071 1049.52559 2.9307 0.0015409 -3.4868 -0.0018333 -0.55614 -0.0002924 525.768259153057 60.475 0.14528 60.475 60.39 60.535 0 26 17 2 0 0 0 0.31786 1 28100 28100 34.187 1.8818 1 4476000 + 39562 12748 25095 25177 44550 44550 0.0028078382797502854 YVWYFHTLPY 10 Unmodified _YVWYFHTLPY_ 0 0 0 nc|ENSG00000214160|Q92685-2|ALG3;ENSG00000214160|ENST00000397676|ALG3;ENST00000485912.1_1_3:183960304-183960812:-|nuORF nc|ENSG00000214160|Q92685-2|ALG3 nc|ENSG00000214160|Q92685-2|ALG3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 694.8368530273438 2 694.837331 1387.66011 NaN NaN NaN NaN NaN NaN NaN 25.491 1 26.254 25.754 26.754 0.76356 0 0 0 1.0015 1 11443 11443 0.45834 0.057624 1 39563 6110 25096 25178 44551 44551 -0.018214394257483946 YVYLYERL 8 Unmodified _YVYLYERL_ 0 0 0 REV__TRAPPC8|p.T893Hfs*11|1|0.28|ENSG00000153339|chr18:31864695-31864695|T/-|frameshift_variant REV__TRAPPC8|p.T893Hfs*11|1|0.28|ENSG00000153339|chr18:31864695-31864695|T/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.7959594726562 2 559.797675 1117.5808 3.7887 0.0021209 -1.1208 -0.00062742 2.6679 0.0014935 559.7971006290933 67.465 0.31247 67.715 67.544 67.856 0.2501 31 16 3 0 0 0 0.56084 1 30966 30966 16.942 0.79319 1 999730 + 39564 12677 25097 25179 44552 44552 0.02670913620090687 YVYPHTRI 8 Unmodified _YVYPHTRI_ 0 0 0 ENSG00000011021|ENST00000346436|CLCN6;nc|ENSG00000011021|P51797-5|CLCN6;nc|ENSG00000011021|P51797-6|CLCN6 ENSG00000011021|ENST00000346436|CLCN6 ENSG00000011021|ENST00000346436|CLCN6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 524.7838745117188 2 524.782359 1047.55016 NaN NaN NaN NaN NaN NaN NaN 6.0447 1 6.6683 6.1683 7.1683 0.62357 0 0 0 0.99035 1 2740 2740 0 0 1 39565 405 25098 25180 44553 44553 0.02829180025696587 YVYTEFTNL 9 Unmodified _YVYTEFTNL_ 0 0 0 REV__ENSG00000157570|ENST00000520358|TSPAN18 REV__ENSG00000157570|ENST00000520358|TSPAN18 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 575.2765502929688 2 575.276772 1148.53899 3.0222 0.0017386 0.3713 0.0002136 3.3935 0.0019522 575.2767953640358 74.426 0.32858 74.426 74.226 74.555 0 75 30 3 0 0 0 0.49692 1 36417 36417 12.532 0.89125 1 14484000 + 39566 12805 25099 25181 44554 44554 -0.02933686859091722 YWAQEYCCAC 10 Unmodified _YWAQEYCCAC_ 0 0 0 REV__nc|ENSG00000196367|Q9Y4A5-2|TRRAP REV__nc|ENSG00000196367|Q9Y4A5-2|TRRAP MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 620.2171630859375 2 620.21702 1238.41949 NaN NaN NaN NaN NaN NaN NaN 60.301 1 60.966 60.466 61.466 0.66503 0 0 0 1.002 1 27609 27609 0 0 1 + 39567 14208 25100 25182 44555 44555 -0.1901866307130149 YWEDDLRRRRR 11 Unmodified _YWEDDLRRRRR_ 0 0 0 nc|ENSG00000172915|Q8NFP9|NBEA;ENSG00000172915|ENST00000379939|NBEA;nc|ENSG00000198589|P50851-2|LRBA;ENSG00000198589|ENST00000651943|LRBA;nc|ENSG00000198589|P50851|LRBA nc|ENSG00000172915|Q8NFP9|NBEA;nc|ENSG00000198589|P50851-2|LRBA nc|ENSG00000198589|P50851-2|LRBA MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 811.1808471679688 2 810.926929 1619.8393 NaN NaN NaN NaN NaN NaN NaN 60.72 1 60.72 60.22 61.22 0 0 0 0 1.008 1 28253 28253 0.30703 0.03801 1 39568 5904;4902 25101 25183 44556 44556 0.05417837914865231 YWENYDQKYEN 11 Unmodified _YWENYDQKYEN_ 0 0 0 REV__nc|ENSG00000183091|P20929-4|NEB REV__nc|ENSG00000183091|P20929-4|NEB MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 776.2822875976562 2 776.32297 1550.63139 NaN NaN NaN NaN NaN NaN NaN 92.984 1 93.071 92.571 93.571 0.086212 0 0 0 1.0082 1 48606 48606 0 0 1 + 39569 13918 25102 25184 44557 44557 -0.121902535835261 YWERYKREWER 11 Unmodified _YWERYKREWER_ 0 0 0 REV__ENSG00000122257|ENST00000319715|RBBP6 REV__ENSG00000122257|ENST00000319715|RBBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 850.9172973632812 2 850.918238 1699.82192 NaN NaN NaN NaN NaN NaN NaN 25.08 1 25.08 24.58 25.58 0 0 0 0 1.008 1 11261 11261 0.35063 0.35063 1 + 39570 11580 25103 25185 44558 44558 4.975891897629481E-06 YWERYKREWER 11 Unmodified _YWERYKREWER_ 0 0 0 REV__ENSG00000122257|ENST00000319715|RBBP6 REV__ENSG00000122257|ENST00000319715|RBBP6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 850.9180908203125 2 850.918238 1699.82192 NaN NaN NaN NaN NaN NaN NaN 68.039 1 68.039 67.539 68.539 0 0 0 0 1.0082 1 32715 32715 0 0 1 + 39571 11580 25103 25185 44559 44559 4.975891897629481E-06 YWFIYYSWWST 11 Unmodified _YWFIYYSWWST_ 0 0 0 REV__nc|ENSG00000211804|A0A1B0GX56|TRDV1 REV__nc|ENSG00000211804|A0A1B0GX56|TRDV1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 801.3585205078125 2 801.358628 1600.7027 NaN NaN NaN NaN NaN NaN NaN 50.768 1 51.586 51.086 52.086 0.81738 0 0 0 1.0082 1 23123 23123 0 0 1 + 39572 18126 25104 25186 44560 44560 -0.07362089088223911 YWIIFKHRKRD 11 Unmodified _YWIIFKHRKRD_ 0 0 0 ENST00000294997.10_1_1:207888693-207911758:+|nuORF ENST00000294997.10_1_1:207888693-207911758:+|nuORF ENST00000294997.10_1_1:207888693-207911758:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 781.4393310546875 2 781.441152 1560.86775 NaN NaN NaN NaN NaN NaN NaN 90.959 1 90.959 90.459 91.459 0 0 0 0 1.008 1 47916 47916 0.26902 0.26902 1 39573 6752 25105 25187 44561 44561 0.10975187562098654 YWKKYYQRRFK 11 Unmodified _YWKKYYQRRFK_ 0 0 0 REV__ENSG00000185875|ENST00000376356|THNSL1 REV__ENSG00000185875|ENST00000376356|THNSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 556.1970825195312 3 555.971932 1664.89397 NaN NaN NaN NaN NaN NaN NaN 69.77 1 70.473 69.973 70.973 0.70302 0 0 0 1.0082 1 33405 33405 0 0 1 + 39574 14033 25106 25188 44562 44562 0.088114567335424 YWKKYYQRRFK 11 Unmodified _YWKKYYQRRFK_ 0 0 0 REV__ENSG00000185875|ENST00000376356|THNSL1 REV__ENSG00000185875|ENST00000376356|THNSL1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 833.452880859375 2 833.454259 1664.89397 NaN NaN NaN NaN NaN NaN NaN 59.039 1 59.706 59.206 60.206 0.66703 0 0 0 1.0082 1 27027 27027 0 0 1 + 39575 14033 25106 25188 44563 44563 0.088114567335424 YWKRKVKSEYM 11 Unmodified _YWKRKVKSEYM_ 0 0 0 ENST00000585912.5_1_17:40855746-40880959:-|nuORF;ENST00000586103.5_1_17:40855746-40880959:-|nuORF;nc|ENSG00000108799|Q92800-3|EZH1;ENSG00000108799|ENST00000428826|EZH1;nc|ENSG00000108799|Q92800-2|EZH1;ENST00000590082.1_1_17:40876593-40880959:-|nuORF ENST00000585912.5_1_17:40855746-40880959:-|nuORF ENST00000585912.5_1_17:40855746-40880959:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 759.40185546875 2 759.400304 1516.78605 NaN NaN NaN NaN NaN NaN NaN 44.945 1 45.766 45.266 46.266 0.82075 0 0 0 1.008 1 20468 20468 0.30703 0.30703 1 39576 1649 25107 25189 44564 44564 0.04833324087985602 YWLYWQDWFRD 11 Unmodified _YWLYWQDWFRD_ 0 0 0 REV__nc|ENSG00000160145|O60229-2|KALRN REV__nc|ENSG00000160145|O60229-2|KALRN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 839.377685546875 2 839.377883 1676.74121 NaN NaN NaN NaN NaN NaN NaN 100.53 1 100.53 100.03 101.03 0 0 0 0 1.0082 1 55506 55506 0 0 1 + 39577 17997 25108 25190 44565 44565 -0.07008783453693468 YWMGRRTA 8 Unmodified _YWMGRRTA_ 0 0 0 nc|ENSG00000170638|Q9H4I3-2|TRABD;ENSG00000170638|ENST00000380909|TRABD;ENST00000463233.1_1_22:50636418-50636945:+|nuORF nc|ENSG00000170638|Q9H4I3-2|TRABD nc|ENSG00000170638|Q9H4I3-2|TRABD MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 520.7578735351562 2 520.758361 1039.50217 3.555 0.0018513 -1.9861 -0.0010343 1.5688 0.00081699 520.7568122792786 92.919 0.34381 93.567 93.397 93.741 0.64715 53 17 4 0 0 0 0.7441 2 42742 42742;42800 2.3027 0.24298 1 1493100 39578 4762 25109 25191 44566;44567 44566 -0.01600217165992035 YWMGWRAWREY 11 Unmodified _YWMGWRAWREY_ 0 0 0 REV__nc|ENSG00000134343|Q9BYT9-2|ANO3 REV__nc|ENSG00000134343|Q9BYT9-2|ANO3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 802.3672485351562 2 802.366795 1602.71904 NaN NaN NaN NaN NaN NaN NaN 102.31 1 102.91 102.41 103.41 0.59759 0 0 0 1.0082 1 47359 47359 0 0 1 + 39579 11962 25110 25192 44568 44568 -0.058212864030792844 YWMHVQNTF 9 Unmodified _YWMHVQNTF_ 0 0 0 ENSG00000114796|ENST00000242810|KLHL24;KLHL24|p.E521D|1|0.39|ENSG00000114796|chr3:183672445-183672445|A/C|missense_variant;nc|ENSG00000114796|Q6TFL4-2|KLHL24 ENSG00000114796|ENST00000242810|KLHL24 ENSG00000114796|ENST00000242810|KLHL24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 613.7804565429688 2 613.276583 1224.53861 3.6014 0.0022086 -0.62743 -0.00038479 2.9739 0.0018238 613.2765129985328 58.902 0.15855 58.902 58.781 58.94 0 25 10 3 0 0 0 0.0010612 1 27183 27183 125.62 102.89 1 2267300 39580 1923 25111 25193 44569 44569 -0.06467385059931985 YWMHVQNTF 9 Unmodified _YWMHVQNTF_ 0 0 0 ENSG00000114796|ENST00000242810|KLHL24;KLHL24|p.E521D|1|0.39|ENSG00000114796|chr3:183672445-183672445|A/C|missense_variant;nc|ENSG00000114796|Q6TFL4-2|KLHL24 ENSG00000114796|ENST00000242810|KLHL24 ENSG00000114796|ENST00000242810|KLHL24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 613.2771606445312 2 613.276583 1224.53861 3.0568 0.0018747 -0.48223 -0.00029574 2.5746 0.001579 613.27635537027 57.68 0.19728 58.448 58.337 58.534 0.76861 35 15 3 0 0 0 0.0010612 1 26408 26408 125.62 97.996 1 2442900 39581 1923 25111 25193 44570 44570 -0.06467385059931985 YWMHVQNTF 9 Unmodified _YWMHVQNTF_ 0 0 0 ENSG00000114796|ENST00000242810|KLHL24;KLHL24|p.E521D|1|0.39|ENSG00000114796|chr3:183672445-183672445|A/C|missense_variant;nc|ENSG00000114796|Q6TFL4-2|KLHL24 ENSG00000114796|ENST00000242810|KLHL24 ENSG00000114796|ENST00000242810|KLHL24 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 613.2780151367188 2 613.276583 1224.53861 3.55 0.0021771 0.53555 0.00032844 4.0856 0.0025056 613.2770699484015 58.701 0.15362 58.963 58.933 59.087 0.26228 20 13 2 0 0 0 0.078322 1 26919 26919 38.151 28.768 1 1682200 39582 1923 25111 25193 44571 44571 -0.06467385059931985 YWNWHDLWQRL 11 Unmodified _YWNWHDLWQRL_ 0 0 0 REV__ENSG00000118997|ENST00000312428|DNAH7 REV__ENSG00000118997|ENST00000312428|DNAH7 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 808.8638916015625 2 808.891492 1615.76843 NaN NaN NaN NaN NaN NaN NaN 108.83 1 108.87 108.37 109.37 0.04248 0 0 0 1.008 1 58738 58738 0.30703 0 1 + 39583 11487 25112 25194 44572 44572 -0.01482255122641618 YWPDVIHSF 9 Unmodified _YWPDVIHSF_ 0 0 0 ENST00000496851.6_1_6:167347386-167366008:-|nuORF;ENST00000499370.6_1_6:167347461-167366008:-|nuORF;ENST00000358165.7_1_6:167352234-167370622:-|nuORF;ENST00000028008.9_1_6:167343078-167365992:-|nuORF;ENSG00000026297|ENST00000508775|RNASET2;chr6:166956191-166957126|447|15.66|0.4|5.29|-|ENST00000476238|RNASET2,RNASET2 ENST00000496851.6_1_6:167347386-167366008:-|nuORF ENST00000496851.6_1_6:167347386-167366008:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 582.2828979492188 2 582.279649 1162.54475 3.0159 0.0017561 0.11782 6.8607E-05 3.1337 0.0018247 582.2795487554719 77.056 0.40381 77.056 76.828 77.232 0 58 27 3 0 0 0 0.020718 2 37737 37737;37783 67.344 49.209 1 1920100 39584 183 25113 25195 44573;44574 44573 -0.030025435567722525 YWPDVIHSF 9 Unmodified _YWPDVIHSF_ 0 0 0 ENST00000496851.6_1_6:167347386-167366008:-|nuORF;ENST00000499370.6_1_6:167347461-167366008:-|nuORF;ENST00000358165.7_1_6:167352234-167370622:-|nuORF;ENST00000028008.9_1_6:167343078-167365992:-|nuORF;ENSG00000026297|ENST00000508775|RNASET2;chr6:166956191-166957126|447|15.66|0.4|5.29|-|ENST00000476238|RNASET2,RNASET2 ENST00000496851.6_1_6:167347386-167366008:-|nuORF ENST00000496851.6_1_6:167347386-167366008:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 582.2810668945312 2 582.279649 1162.54475 2.7034 0.0015741 0.19905 0.0001159 2.9024 0.00169 582.2796967220157 75.989 0.44859 76.613 76.381 76.829 0.62398 70 35 3 0 0 0 0.020718 2 36744 36744;36797 67.344 49.209 1 1803000 39585 183 25113 25195 44575;44576 44575 -0.030025435567722525 YWPDVIHSF 9 Unmodified _YWPDVIHSF_ 0 0 0 ENST00000496851.6_1_6:167347386-167366008:-|nuORF;ENST00000499370.6_1_6:167347461-167366008:-|nuORF;ENST00000358165.7_1_6:167352234-167370622:-|nuORF;ENST00000028008.9_1_6:167343078-167365992:-|nuORF;ENSG00000026297|ENST00000508775|RNASET2;chr6:166956191-166957126|447|15.66|0.4|5.29|-|ENST00000476238|RNASET2,RNASET2 ENST00000496851.6_1_6:167347386-167366008:-|nuORF ENST00000496851.6_1_6:167347386-167366008:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 582.2816772460938 2 582.279649 1162.54475 3.2463 0.0018902 0.15568 9.0651E-05 3.402 0.0019809 582.279671314119 76.793 0.42751 77.048 76.872 77.299 0.25533 64 34 2 0 0 0 0.047285 3 35320 35320;35378;35442 48.346 35.814 1 737470 39586 183 25113 25195 44577;44578;44579 44577 -0.030025435567722525 YWPDVIHSF 9 Unmodified _YWPDVIHSF_ 0 0 0 ENST00000496851.6_1_6:167347386-167366008:-|nuORF;ENST00000499370.6_1_6:167347461-167366008:-|nuORF;ENST00000358165.7_1_6:167352234-167370622:-|nuORF;ENST00000028008.9_1_6:167343078-167365992:-|nuORF;ENSG00000026297|ENST00000508775|RNASET2;chr6:166956191-166957126|447|15.66|0.4|5.29|-|ENST00000476238|RNASET2,RNASET2 ENST00000496851.6_1_6:167347386-167366008:-|nuORF ENST00000496851.6_1_6:167347386-167366008:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 582.281494140625 2 582.279649 1162.54475 3.2549 0.0018953 0.5525 0.00032171 3.8074 0.002217 582.2797191490635 76.436 0.45266 77.099 76.778 77.231 0.66387 52 31 2 0 0 0 0.047285 2 35133 35133;35232 48.346 35.814 1 739010 39587 183 25113 25195 44580;44581 44580 -0.030025435567722525 YWRPFYFRIRY 11 Unmodified _YWRPFYFRIRY_ 0 0 0 REV__ENSG00000096968|ENST00000381652|JAK2 REV__ENSG00000096968|ENST00000381652|JAK2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 833.93701171875 2 833.935702 1665.85685 NaN NaN NaN NaN NaN NaN NaN 95.356 1 95.356 94.856 95.856 0 0 0 0 1.0082 1 51323 51323 0 0 1 + 39588 10777 25114 25196 44582 44582 0.05055785187823858 YWRRWNRFCRR 11 Unmodified _YWRRWNRFCRR_ 0 0 0 nc|ENSG00000151067|Q13936-2|CACNA1C;nc|ENSG00000151067|Q13936-6|CACNA1C;nc|ENSG00000151067|Q13936-34|CACNA1C;nc|ENSG00000151067|Q13936-28|CACNA1C;nc|ENSG00000151067|Q13936-36|CACNA1C;nc|ENSG00000151067|Q13936-33|CACNA1C;nc|ENSG00000151067|Q13936-14|CACNA1C;nc|ENSG00000151067|Q13936-18|CACNA1C;nc|ENSG00000151067|Q13936-11|CACNA1C;nc|ENSG00000151067|Q13936-5|CACNA1C;ENSG00000151067|ENST00000399655|CACNA1C;nc|ENSG00000151067|Q13936-17|CACNA1C;nc|ENSG00000151067|Q13936-4|CACNA1C;nc|ENSG00000151067|Q13936-8|CACNA1C;nc|ENSG00000151067|Q13936|CACNA1C;nc|ENSG00000151067|Q13936-3|CACNA1C;nc|ENSG00000151067|Q13936-9|CACNA1C;nc|ENSG00000151067|Q13936-10|CACNA1C;nc|ENSG00000151067|Q13936-31|CACNA1C;nc|ENSG00000151067|Q13936-30|CACNA1C;nc|ENSG00000151067|Q13936-13|CACNA1C;nc|ENSG00000151067|Q13936-27|CACNA1C;nc|ENSG00000151067|Q13936-24|CACNA1C;nc|ENSG00000151067|Q13936-19|CACNA1C;nc|ENSG00000151067|Q13936-35|CACNA1C;nc|ENSG00000151067|Q13936-20|CACNA1C;nc|ENSG00000151067|Q13936-21|CACNA1C;nc|ENSG00000151067|Q13936-22|CACNA1C;nc|ENSG00000151067|Q13936-23|CACNA1C;nc|ENSG00000151067|Q13936-37|CACNA1C;nc|ENSG00000151067|Q13936-7|CACNA1C;nc|ENSG00000151067|Q13936-26|CACNA1C;nc|ENSG00000151067|Q13936-15|CACNA1C;nc|ENSG00000151067|Q13936-16|CACNA1C;nc|ENSG00000151067|Q13936-29|CACNA1C;nc|ENSG00000151067|Q13936-25|CACNA1C;nc|ENSG00000151067|Q13936-32|CACNA1C;CACNA1C|p.V939Ffs*12|1|0.13|ENSG00000151067|chr12:2597251-2597251|G/-|frameshift_variant nc|ENSG00000151067|Q13936-2|CACNA1C nc|ENSG00000151067|Q13936-2|CACNA1C MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 849.9381713867188 2 849.936577 1697.8586 NaN NaN NaN NaN NaN NaN NaN 76.044 1 76.668 76.168 77.168 0.62397 0 0 0 1.0082 1 36837 36837 0 0 1 39589 3689 25115 25197 44583 44583 0.03758515724780409 YWRRWNRFCRR 11 Unmodified _YWRRWNRFCRR_ 0 0 0 nc|ENSG00000151067|Q13936-2|CACNA1C;nc|ENSG00000151067|Q13936-6|CACNA1C;nc|ENSG00000151067|Q13936-34|CACNA1C;nc|ENSG00000151067|Q13936-28|CACNA1C;nc|ENSG00000151067|Q13936-36|CACNA1C;nc|ENSG00000151067|Q13936-33|CACNA1C;nc|ENSG00000151067|Q13936-14|CACNA1C;nc|ENSG00000151067|Q13936-18|CACNA1C;nc|ENSG00000151067|Q13936-11|CACNA1C;nc|ENSG00000151067|Q13936-5|CACNA1C;ENSG00000151067|ENST00000399655|CACNA1C;nc|ENSG00000151067|Q13936-17|CACNA1C;nc|ENSG00000151067|Q13936-4|CACNA1C;nc|ENSG00000151067|Q13936-8|CACNA1C;nc|ENSG00000151067|Q13936|CACNA1C;nc|ENSG00000151067|Q13936-3|CACNA1C;nc|ENSG00000151067|Q13936-9|CACNA1C;nc|ENSG00000151067|Q13936-10|CACNA1C;nc|ENSG00000151067|Q13936-31|CACNA1C;nc|ENSG00000151067|Q13936-30|CACNA1C;nc|ENSG00000151067|Q13936-13|CACNA1C;nc|ENSG00000151067|Q13936-27|CACNA1C;nc|ENSG00000151067|Q13936-24|CACNA1C;nc|ENSG00000151067|Q13936-19|CACNA1C;nc|ENSG00000151067|Q13936-35|CACNA1C;nc|ENSG00000151067|Q13936-20|CACNA1C;nc|ENSG00000151067|Q13936-21|CACNA1C;nc|ENSG00000151067|Q13936-22|CACNA1C;nc|ENSG00000151067|Q13936-23|CACNA1C;nc|ENSG00000151067|Q13936-37|CACNA1C;nc|ENSG00000151067|Q13936-7|CACNA1C;nc|ENSG00000151067|Q13936-26|CACNA1C;nc|ENSG00000151067|Q13936-15|CACNA1C;nc|ENSG00000151067|Q13936-16|CACNA1C;nc|ENSG00000151067|Q13936-29|CACNA1C;nc|ENSG00000151067|Q13936-25|CACNA1C;nc|ENSG00000151067|Q13936-32|CACNA1C;CACNA1C|p.V939Ffs*12|1|0.13|ENSG00000151067|chr12:2597251-2597251|G/-|frameshift_variant nc|ENSG00000151067|Q13936-2|CACNA1C nc|ENSG00000151067|Q13936-2|CACNA1C MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 849.9365844726562 2 849.936577 1697.8586 NaN NaN NaN NaN NaN NaN NaN 99.952 1 100.55 100.05 101.05 0.59717 0 0 0 1.0082 1 46250 46250 0 0 1 39590 3689 25115 25197 44584 44584 0.03758515724780409 YWTVEYEQDRH 11 Unmodified _YWTVEYEQDRH_ 0 0 0 REV__ENSG00000239713|ENST00000407997|APOBEC3G REV__ENSG00000239713|ENST00000407997|APOBEC3G MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 763.34326171875 2 763.338955 1524.66336 4.0433 0.0030864 1.0734 0.00081939 5.1167 0.0039058 763.3396293065845 47.594 0.26582 47.857 47.72 47.986 0.26363 38 21 2 0 0 0 0.91111 1 21741 21741 1.1933 0.79263 1 3551600 + 39591 14601 25116 25198 44585 44585 -0.07798841109729437 YWWLSSWWPWP 11 Unmodified _YWWLSSWWPWP_ 0 0 0 nc|ENSG00000130810|Q9NQ55-3|PPAN nc|ENSG00000130810|Q9NQ55-3|PPAN nc|ENSG00000130810|Q9NQ55-3|PPAN MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 531.9151611328125 3 531.915312 1592.72411 NaN NaN NaN NaN NaN NaN NaN 91.068 1 91.068 90.568 91.568 0 0 0 0 1.0079 1 48006 48006 0.50596 0.051438 1 39592 9640 25117 25199 44586 44586 -0.048546592688353485 YWWRFNYRQLY 11 Unmodified _YWWRFNYRQLY_ 0 0 0 ENST00000460870.1_1_1:208383501-208390355:-|nuORF;nc|ENSG00000076356|O75051-2|PLXNA2 ENST00000460870.1_1_1:208383501-208390355:-|nuORF ENST00000460870.1_1_1:208383501-208390355:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 847.8464965820312 2 847.914967 1693.81538 NaN NaN NaN NaN NaN NaN NaN 90.866 1 91.117 90.617 91.617 0.25163 0 0 0 1.0082 1 41781 41781 0 0 1 39593 8076 25118 25200 44587 44587 -0.0037739557149052416 YYACYFPG 8 Unmodified _YYACYFPG_ 0 0 0 REV__ENST00000583163.1_1_18:1566465-1626335:+|nuORF REV__ENST00000583163.1_1_18:1566465-1626335:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 984.4056396484375 1 983.396767 982.38949 3.8774 0.003813 4.3584 0.0042861 8.2359 0.0080991 983.4017703020555 86.563 0.083649 87.234 87.174 87.258 0.6706 6 4 2 0 0 0 0.69414 1 39847 39847 6.3541 2.0249 1 1437700 + 39594 17521 25119 25201 44588 44588 -0.10240910682693993 YYAKEVYKI 9 Unmodified _YYAKEVYKI_ 0 0 0 nc|ENSG00000092969|P61812-2|TGFB2;ENSG00000092969|ENST00000366930|TGFB2 nc|ENSG00000092969|P61812-2|TGFB2 nc|ENSG00000092969|P61812-2|TGFB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 392.8828125 3 392.881497 1175.62266 2.3056 0.00090584 0.79059 0.00031061 3.0962 0.0012165 392.8818901254469 32.82 0.19087 33.608 33.51 33.701 0.78795 17 12 2 0 0 0 0.29024 1 14859 14859 17.443 12.04 1 322850 39595 1103 25120 25202 44589 44589 0.0418746930861289 YYAKEVYKI 9 Unmodified _YYAKEVYKI_ 0 0 0 nc|ENSG00000092969|P61812-2|TGFB2;ENSG00000092969|ENST00000366930|TGFB2 nc|ENSG00000092969|P61812-2|TGFB2 nc|ENSG00000092969|P61812-2|TGFB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 588.8208618164062 2 588.818607 1175.62266 NaN NaN NaN NaN NaN NaN NaN 33.404 1 34.024 33.524 34.524 0.62031 0 0 0 0.54797 1 15309 15309 18.146 10.236 1 39596 1103 25120 25202 44590 44590 0.0418746930861289 YYARWYEEYDQ 11 Unmodified _YYARWYEEYDQ_ 0 0 0 REV__ENSG00000064703|ENST00000369702|DDX20 REV__ENSG00000064703|ENST00000369702|DDX20 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 793.3333740234375 2 793.333338 1584.65212 NaN NaN NaN NaN NaN NaN NaN 50.108 1 50.765 50.265 51.265 0.65735 0 0 0 1.0082 1 22916 22916 0 0 1 + 39597 10416 25121 25203 44591 44591 -0.11681663203830794 YYCIIYPIRWE 11 Unmodified _YYCIIYPIRWE_ 0 0 0 ENST00000492497.1_1_7:102956426-102956597:-|nuORF ENST00000492497.1_1_7:102956426-102956597:-|nuORF ENST00000492497.1_1_7:102956426-102956597:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 759.8782348632812 2 759.87613 1517.73771 NaN NaN NaN NaN NaN NaN NaN 19.128 1 19.425 18.925 19.925 0.29753 0 0 0 1.008 1 8693 8693 0.35063 0.043601 1 39598 8406 25122 25204 44592 44592 -0.00045169551935941854 YYCVDDVC 8 Unmodified _YYCVDDVC_ 0 0 0 REV__FRMPD1|p.S862C|1|0.19|ENSG00000070601|chr9:37744616-37744616|A/T|missense_variant REV__FRMPD1|p.S862C|1|0.19|ENSG00000070601|chr9:37744616-37744616|A/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 327.123291015625 3 327.122711 978.346305 NaN NaN NaN NaN NaN NaN NaN 67.634 1 68.292 67.792 68.792 0.65777 0 0 0 0.99035 1 31003 31003 0.45834 0 1 + 39599 17689 25123 25205 44593 44593 -0.14373468522285293 YYCVEKYRL 9 Unmodified _YYCVEKYRL_ 0 0 0 REV__ENSG00000134780|ENST00000257215|DAGLA REV__ENSG00000134780|ENST00000257215|DAGLA MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 413.24609375 3 412.874236 1235.60088 2.7949 0.0011539 3.3637 0.0013888 6.1586 0.0025427 412.8765154737952 19.65 0.048649 19.942 19.914 19.962 0.29239 4 2 2 0 0 0 0.11316 1 8939 8939 0.86438 0 1 81022 + 39600 11982 25124 25206 44594 44594 -0.007496587116065712 YYDCAMCYF 9 Unmodified _YYDCAMCYF_ 0 0 0 REV__ENSG00000215421|ENST00000299687|ZNF407 REV__ENSG00000215421|ENST00000299687|ZNF407 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.7029418945312 2 589.703214 1177.39187 NaN NaN NaN NaN NaN NaN NaN 33.644 1 33.644 33.144 34.144 0 0 0 0 0.91206 1 15254 15254 0.6015 0.076735 1 + 39601 14526 25125 25207 44595 44595 -0.18972566331558482 YYDGKVMKL 9 Unmodified _YYDGKVMKL_ 0 0 0 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 559.296142578125 2 558.791535 1115.56852 3.5356 0.0019757 0.57622 0.00032199 4.1118 0.0022977 559.2938196129533 36.005 0.29523 36.262 36.053 36.348 0.25768 21 14 2 0 0 0 0.21008 1 16373 16373 22.736 12.662 1 382920 39602 5957 25126 25208 44596 44596 0.015355538854009865 YYDGKVMKL 9 Unmodified _YYDGKVMKL_ 0 0 0 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 ENSG00000198900|ENST00000361337|TOP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 558.7935180664062 2 558.791535 1115.56852 3.6015 0.0020125 -0.15405 -8.6082E-05 3.4474 0.0019264 558.7913218505684 35.49 0.20454 36.116 35.996 36.201 0.62631 8 5 2 0 0 0 0.11155 1 16266 16266 29.841 16.798 1 300800 39603 5957 25126 25208 44597 44597 0.015355538854009865 YYDKHFTEF 9 Unmodified _YYDKHFTEF_ 0 0 0 nc|ENSG00000114573|P38606-2|ATP6V1A;ENSG00000114573|ENST00000273398|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 417.19024658203125 3 417.188989 1248.54514 2.804 0.0011698 -0.14064 -5.8673E-05 2.6633 0.0011111 417.1888471435677 40.533 0.3169 40.533 40.311 40.628 0 35 16 4 0 0 0 0.29523 1 18376 18376 12.175 3.423 1 4901600 39604 1913 25127 25209 44598 44598 -0.06919168627587169 YYDKHFTEF 9 Unmodified _YYDKHFTEF_ 0 0 0 nc|ENSG00000114573|P38606-2|ATP6V1A;ENSG00000114573|ENST00000273398|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 625.2833251953125 2 625.279846 1248.54514 3.8318 0.0023959 -0.0091272 -5.7071E-06 3.8227 0.0023902 625.2795884365033 40.523 0.20727 40.523 40.37 40.577 0 23 10 3 0 0 0 8.7541E-05 1 18379 18379 136.39 99.886 1 3030100 39605 1913 25127 25209 44599 44599 -0.06919168627587169 YYDKHFTEF 9 Unmodified _YYDKHFTEF_ 0 0 0 nc|ENSG00000114573|P38606-2|ATP6V1A;ENSG00000114573|ENST00000273398|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 417.1900939941406 3 417.188989 1248.54514 2.7247 0.0011367 0.19218 8.0177E-05 2.9169 0.0012169 417.18899636718595 39.301 0.42752 40.098 39.873 40.301 0.79762 63 19 4 0 0 0 0.063575 2 17808 17765;17808 32.037 25.803 1 4221000 39606 1913 25127 25209 44600;44601 44601 -0.06919168627587169 YYDKHFTEF 9 Unmodified _YYDKHFTEF_ 0 0 0 nc|ENSG00000114573|P38606-2|ATP6V1A;ENSG00000114573|ENST00000273398|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 625.2817993164062 2 625.279846 1248.54514 3.4545 0.00216 0.038001 2.3762E-05 3.4925 0.0021838 625.279763633567 39.314 0.333 40.112 39.944 40.277 0.79762 42 15 4 0 0 0 0.0012852 2 17773 17773;17834 121.53 89.229 1 1052100 39607 1913 25127 25209 44602;44603 44602 -0.06919168627587169 YYDKHFTEF 9 Unmodified _YYDKHFTEF_ 0 0 0 nc|ENSG00000114573|P38606-2|ATP6V1A;ENSG00000114573|ENST00000273398|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 625.28271484375 2 625.279846 1248.54514 3.843 0.002403 0.0011584 7.2432E-07 3.8442 0.0024037 625.2798504057159 40.476 0.2524 40.745 40.611 40.863 0.26904 18 8 3 0 0 0 0.0011142 1 18409 18409 125.04 88.532 1 818640 39608 1913 25127 25209 44604 44604 -0.06919168627587169 YYDKHFTEF 9 Unmodified _YYDKHFTEF_ 0 0 0 nc|ENSG00000114573|P38606-2|ATP6V1A;ENSG00000114573|ENST00000273398|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 625.7841796875 2 625.279846 1248.54514 4.0059 0.0025048 -0.072028 -4.5038E-05 3.9339 0.0024598 625.7811418122777 40.002 0.19546 40.644 40.548 40.743 0.64135 14 6 3 0 0 0 0.0023958 1 18293 18293 100.09 79.637 1 1203300 39609 1913 25127 25209 44605 44605 -0.06919168627587169 YYDKHFTEF 9 Unmodified _YYDKHFTEF_ 0 0 0 nc|ENSG00000114573|P38606-2|ATP6V1A;ENSG00000114573|ENST00000273398|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 417.188989 1248.54514 3.1029 0.0012945 -0.13894 -5.7966E-05 2.9639 0.0012365 417.18886537309857 40.489 0.34031 40.758 40.551 40.891 0.26904 0.11467 3.9294E-05 NaN 12.175 26 11 3 NaN NaN NaN NaN 0 NaN NaN 0 2457900 39610 1913 25127 25209 -0.06919168627587169 YYDKHFTEF 9 Unmodified _YYDKHFTEF_ 0 0 0 nc|ENSG00000114573|P38606-2|ATP6V1A;ENSG00000114573|ENST00000273398|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A nc|ENSG00000114573|P38606-2|ATP6V1A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 417.188989 1248.54514 3.2446 0.0013536 -0.28204 -0.00011766 2.9626 0.001236 417.18881908906593 39.998 0.26447 40.639 40.508 40.772 0.64136 -0.0043589 -0.0001398 NaN 12.175 20 9 3 NaN NaN NaN NaN 0 NaN NaN 0 2029300 39611 1913 25127 25209 -0.06919168627587169 YYDLQAVL 8 Unmodified _YYDLQAVL_ 0 0 0 ENSG00000101557|ENST00000261601|USP14;nc|ENSG00000101557|P54578-2|USP14;nc|ENSG00000101557|P54578-3|USP14;ENST00000578942.5_1_18:210315-211281:+|nuORF ENSG00000101557|ENST00000261601|USP14 ENSG00000101557|ENST00000261601|USP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 492.75567626953125 2 492.755475 983.496398 3.1232 0.001539 -1.0636 -0.00052412 2.0596 0.0010149 492.75539236310857 57.849 0.58581 57.849 57.446 58.032 0 118 61 4 0 0 0 0.16336 2 26711 26662;26711 46.921 9.6643 1 3328100 39612 1300 25128 25210 44606;44607 44607 0.003989628033423287 YYDLQAVL 8 Unmodified _YYDLQAVL_ 0 0 0 ENSG00000101557|ENST00000261601|USP14;nc|ENSG00000101557|P54578-2|USP14;nc|ENSG00000101557|P54578-3|USP14;ENST00000578942.5_1_18:210315-211281:+|nuORF ENSG00000101557|ENST00000261601|USP14 ENSG00000101557|ENST00000261601|USP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 492.75482177734375 2 492.755475 983.496398 2.9044 0.0014312 -0.97568 -0.00048077 1.9288 0.0009504 492.7551882819882 57.073 0.51894 57.851 57.47 57.989 0.77786 88 53 2 0 0 0 0.26384 2 26120 26072;26120 38.151 30.225 1 3003700 39613 1300 25128 25210 44608;44609 44609 0.003989628033423287 YYDLQAVL 8 Unmodified _YYDLQAVL_ 0 0 0 ENSG00000101557|ENST00000261601|USP14;nc|ENSG00000101557|P54578-2|USP14;nc|ENSG00000101557|P54578-3|USP14;ENST00000578942.5_1_18:210315-211281:+|nuORF ENSG00000101557|ENST00000261601|USP14 ENSG00000101557|ENST00000261601|USP14 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 492.7562255859375 2 492.755475 983.496398 3.2745 0.0016135 -0.56784 -0.00027981 2.7067 0.0013337 492.75525767189254 57.01 0.64007 57.678 57.226 57.866 0.66829 89 31 4 0 0 0 0.26384 2 26078 26078;26131 38.151 7.9264 1 2756800 39614 1300 25128 25210 44610;44611 44610 0.003989628033423287 YYDPKHVIF 9 Unmodified _YYDPKHVIF_ 0 0 0 ENST00000468892.5_1_3:183907488-183910505:+|nuORF;ENST00000473311.5_1_3:183906074-183911483:+|nuORF;nc|ENSG00000161204|Q9NUQ8-2|ABCF3;ENSG00000161204|ENST00000429586|ABCF3 ENST00000468892.5_1_3:183907488-183910505:+|nuORF ENST00000468892.5_1_3:183907488-183910505:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 394.5387268066406 3 394.537842 1180.5917 2.4902 0.00098249 -0.29704 -0.00011719 2.1932 0.0008653 394.5374704965507 47.487 0.30048 48.316 48.159 48.459 0.82915 25 19 2 0 0 0 1.0755 1 21623 21623 2.7352 0.45242 1 361230 39615 4095 25129 25211 44612 44612 0.008623159943681458 YYDPKHVIF 9 Unmodified _YYDPKHVIF_ 0 0 0 ENST00000468892.5_1_3:183907488-183910505:+|nuORF;ENST00000473311.5_1_3:183906074-183911483:+|nuORF;nc|ENSG00000161204|Q9NUQ8-2|ABCF3;ENSG00000161204|ENST00000429586|ABCF3 ENST00000468892.5_1_3:183907488-183910505:+|nuORF ENST00000468892.5_1_3:183907488-183910505:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 394.537842 1180.5917 2.9317 0.0011567 0.10873 4.2896E-05 3.0404 0.0011996 394.5377841224581 47.929 0.194 48.583 48.458 48.652 0.65356 0.075575 0.00031831 NaN 2.7352 10 7 2 NaN NaN NaN NaN 0 NaN NaN 0 232840 39616 4095 25129 25211 0.008623159943681458 YYDRHHHDS 9 Unmodified _YYDRHHHDS_ 0 0 0 ENSG00000173575|ENST00000394196|CHD2 ENSG00000173575|ENST00000394196|CHD2 ENSG00000173575|ENST00000394196|CHD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 615.2594604492188 2 615.257768 1228.50098 3.568 0.0021952 -0.72199 -0.00044421 2.846 0.001751 615.2574694596674 34.558 0.26476 34.812 34.672 34.936 0.25389 13 10 2 0 0 0 0.59776 1 15757 15757 10.824 1.4408 1 333660 39617 4940 25130 25212 44613 44613 -0.10412760001213428 YYDRHHHDS 9 Unmodified _YYDRHHHDS_ 0 0 0 ENSG00000173575|ENST00000394196|CHD2 ENSG00000173575|ENST00000394196|CHD2 ENSG00000173575|ENST00000394196|CHD2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 615.257768 1228.50098 3.4447 0.0021194 -1.0131 -0.00062331 2.4316 0.0014961 615.257423739326 34.487 0.050995 34.487 34.464 34.515 0 -0.16262 -0.00031945 NaN 10.824 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 331940 39618 4940 25130 25212 -0.10412760001213428 YYDRHHHDS 9 Unmodified _YYDRHHHDS_ 0 0 0 ENSG00000173575|ENST00000394196|CHD2 ENSG00000173575|ENST00000394196|CHD2 ENSG00000173575|ENST00000394196|CHD2 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 615.257768 1228.50098 3.568 0.0021952 -0.72199 -0.00044421 2.846 0.001751 615.2574694596674 34.558 0.26476 34.812 34.672 34.936 0.25389 0.16262 3.8749E-05 NaN 10.824 13 10 2 NaN NaN NaN NaN 0 NaN NaN 0 333660 39619 4940 25130 25212 -0.10412760001213428 YYEEQHPEL 9 Unmodified _YYEEQHPEL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-4|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 604.2691040039062 2 604.266936 1206.51932 3.1922 0.0019289 0.63055 0.00038102 3.8228 0.00231 604.2673834148733 34.488 0.49484 34.488 34.238 34.733 0 112 26 5 0 0 0 3.9104E-05 5 15653 15555;15601;15653;15670;15705 137.42 97.474 1 58652000 39620 381 25131 25213 44614;44615;44616;44617;44618 44616 -0.07568062869859205 YYEEQHPEL 9 Unmodified _YYEEQHPEL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-4|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 1207.5301513671875 1 1207.52659 1206.51932 2.8745 0.003471 1.0864 0.0013119 3.9609 0.0047829 1207.5284579948104 34.514 0.19449 34.514 34.354 34.548 0 13 9 2 0 0 0 0.048676 1 15643 15643 47.749 33.843 1 473900 39621 381 25131 25213 44619 44619 -0.07568062869859205 YYEEQHPEL 9 Unmodified _YYEEQHPEL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-4|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 604.2693481445312 2 604.266936 1206.51932 3.0547 0.0018458 0.40268 0.00024333 3.4574 0.0020892 604.2671971552045 33.591 0.51872 34.379 34.037 34.556 0.78795 136 36 5 0 0 0 0.0010698 5 15128 15077;15128;15177;15221;15263 125.53 79.83 1 49673000 39622 381 25131 25213 44620;44621;44622;44623;44624 44621 -0.07568062869859205 YYEEQHPEL 9 Unmodified _YYEEQHPEL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-4|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 604.2695922851562 2 604.266936 1206.51932 3.6319 0.0021946 0.15223 9.1988E-05 3.7841 0.0022866 604.2673114287418 34.562 0.56297 34.816 34.516 35.079 0.25389 117 27 6 0 0 0 0.00038954 5 15696 15643;15696;15744;15805;15854 133.05 93.102 1 118980000 39623 381 25131 25213 44625;44626;44627;44628;44629 44626 -0.07568062869859205 YYEEQHPEL 9 Unmodified _YYEEQHPEL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-4|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 1207.53173828125 1 1207.52659 1206.51932 3.1618 0.003818 1.6225 0.0019592 4.7843 0.0057772 1207.5290394318254 34.558 0.2341 34.811 34.672 34.906 0.25389 16 9 2 0 0 0 0.048676 1 15724 15724 47.749 33.843 1 740530 39624 381 25131 25213 44630 44630 -0.07568062869859205 YYEEQHPEL 9 Unmodified _YYEEQHPEL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-4|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 604.2691040039062 2 604.266936 1206.51932 NaN NaN NaN NaN NaN NaN NaN 35.231 1 35.486 34.986 35.986 0.25524 0 0 0 0.62812 1 16054 16054 14.838 4.0143 1 39625 381 25131 25213 44631 44631 -0.07568062869859205 YYEEQHPEL 9 Unmodified _YYEEQHPEL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-4|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 604.2688598632812 2 604.266936 1206.51932 3.7263 0.0022517 -0.27891 -0.00016853 3.4474 0.0020831 604.2669097197371 34.167 0.78912 34.788 34.431 35.22 0.62031 143 35 6 0 0 0 3.9104E-05 6 15718 15517;15566;15616;15664;15718;15783 137.42 89.675 1 109700000 39626 381 25131 25213 44632;44633;44634;44635;44636;44637 44636 -0.07568062869859205 YYEEQHPEL 9 Unmodified _YYEEQHPEL_ 0 0 0 nc|ENSG00000008517|P24001-3|IL32;ENSG00000008517|ENST00000525643|IL32;nc|ENSG00000008517|P24001|IL32;nc|ENSG00000008517|P24001-5|IL32;nc|ENSG00000008517|P24001-6|IL32;nc|ENSG00000008517|P24001-4|IL32 nc|ENSG00000008517|P24001-3|IL32 nc|ENSG00000008517|P24001-3|IL32 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 604.266936 1206.51932 3.1089 0.0018786 -0.036496 -2.2053E-05 3.0724 0.0018565 604.267525320416 33.778 0.053516 34.566 34.556 34.609 0.78795 -0.098509 -0.00028371 NaN 137.42 6 5 2 NaN NaN NaN NaN 0 NaN NaN 0 682730 39627 381 25131 25213 -0.07568062869859205 YYEHEFVEL 9 Unmodified _YYEHEFVEL_ 0 0 0 nc|ENSG00000166377|O43861-2|ATP9B;ENSG00000166377|ENST00000426216|ATP9B nc|ENSG00000166377|O43861-2|ATP9B nc|ENSG00000166377|O43861-2|ATP9B MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 614.7837524414062 2 614.779679 1227.5448 NaN NaN NaN NaN NaN NaN NaN 57.773 1 58.542 58.042 59.042 0.76861 0 0 0 0.045953 1 26477 26477 54.774 35.517 1 39628 4478 25132 25214 44638 44638 -0.05986588347423094 YYEHEFVEL 9 Unmodified _YYEHEFVEL_ 0 0 0 nc|ENSG00000166377|O43861-2|ATP9B;ENSG00000166377|ENST00000426216|ATP9B nc|ENSG00000166377|O43861-2|ATP9B nc|ENSG00000166377|O43861-2|ATP9B MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 614.722412109375 2 614.779679 1227.5448 NaN NaN NaN NaN NaN NaN NaN 58.745 1 59.007 58.507 59.507 0.26227 0 0 0 0.10934 1 26904 26904 39.957 18.42 1 39629 4478 25132 25214 44639 44639 -0.05986588347423094 YYEHRYQGKMF 11 Unmodified _YYEHRYQGKMF_ 0 0 0 ENSG00000099822|ENST00000251287|HCN2;ENST00000568218.2_1_15:32605934-32606516:-|nuORF;ENST00000467204.1_1_1:155252337-155256975:+|nuORF;ENST00000496230.5_1_1:155254296-155257077:+|nuORF;ENSG00000143630|ENST00000368358|HCN3;ENSG00000138622|ENST00000261917|HCN4 ENSG00000099822|ENST00000251287|HCN2;ENSG00000138622|ENST00000261917|HCN4 ENSG00000138622|ENST00000261917|HCN4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 761.265380859375 2 761.350811 1520.68707 NaN NaN NaN NaN NaN NaN NaN 96.593 1 96.871 96.371 97.371 0.27778 0 0 0 1.008 1 44379 44379 0.35063 0 1 39630 1155;3103 25133 25215 44640 44640 -0.05244698876936127 YYEHVKARF 9 Unmodified _YYEHVKARF_ 0 0 0 ENST00000469619.5_1_2:238402069-238419788:+|nuORF;nc|ENSG00000115648|Q9BV36-5|MLPH;nc|ENSG00000115648|Q9BV36-3|MLPH;ENST00000468178.5_1_2:238402069-238454213:+|nuORF;nc|ENSG00000115648|Q9BV36-4|MLPH;nc|ENSG00000115648|Q9BV36-2|MLPH;ENSG00000115648|ENST00000264605|MLPH ENST00000469619.5_1_2:238402069-238419788:+|nuORF ENST00000469619.5_1_2:238402069-238419788:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 404.8783264160156 3 404.876857 1211.60874 2.7681 0.0011208 0.16454 6.662E-05 2.9327 0.0011874 404.8768876516433 20.478 0.4484 20.478 20.292 20.74 0 139 41 4 0 0 0 0.02234 3 9172 9126;9172;9215 51.415 40.616 1 2638300 39631 1982 25134 25216 44641;44642;44643 44642 0.011402366001675546 YYEHVKARF 9 Unmodified _YYEHVKARF_ 0 0 0 ENST00000469619.5_1_2:238402069-238419788:+|nuORF;nc|ENSG00000115648|Q9BV36-5|MLPH;nc|ENSG00000115648|Q9BV36-3|MLPH;ENST00000468178.5_1_2:238402069-238454213:+|nuORF;nc|ENSG00000115648|Q9BV36-4|MLPH;nc|ENSG00000115648|Q9BV36-2|MLPH;ENSG00000115648|ENST00000264605|MLPH ENST00000469619.5_1_2:238402069-238419788:+|nuORF ENST00000469619.5_1_2:238402069-238419788:+|nuORF MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 607.2117919921875 2 606.811648 1211.60874 3.64 0.0022088 0.63481 0.00038521 4.2748 0.002594 606.8118495036514 20.487 0.24193 20.487 20.415 20.657 0 26 23 2 0 0 0 0.098156 1 9164 9164 13.906 10.911 1 126500 39632 1982 25134 25216 44644 44644 0.011402366001675546 YYEHVKARF 9 Unmodified _YYEHVKARF_ 0 0 0 ENST00000469619.5_1_2:238402069-238419788:+|nuORF;nc|ENSG00000115648|Q9BV36-5|MLPH;nc|ENSG00000115648|Q9BV36-3|MLPH;ENST00000468178.5_1_2:238402069-238454213:+|nuORF;nc|ENSG00000115648|Q9BV36-4|MLPH;nc|ENSG00000115648|Q9BV36-2|MLPH;ENSG00000115648|ENST00000264605|MLPH ENST00000469619.5_1_2:238402069-238419788:+|nuORF ENST00000469619.5_1_2:238402069-238419788:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 404.877685546875 3 404.876857 1211.60874 NaN NaN NaN NaN NaN NaN NaN 19.329 1 19.544 19.044 20.044 0.21445 0 0 0 0.024684 1 8608 8608 51.415 40.616 1 39633 1982 25134 25216 44645 44645 0.011402366001675546 YYEHVKARF 9 Unmodified _YYEHVKARF_ 0 0 0 ENST00000469619.5_1_2:238402069-238419788:+|nuORF;nc|ENSG00000115648|Q9BV36-5|MLPH;nc|ENSG00000115648|Q9BV36-3|MLPH;ENST00000468178.5_1_2:238402069-238454213:+|nuORF;nc|ENSG00000115648|Q9BV36-4|MLPH;nc|ENSG00000115648|Q9BV36-2|MLPH;ENSG00000115648|ENST00000264605|MLPH ENST00000469619.5_1_2:238402069-238419788:+|nuORF ENST00000469619.5_1_2:238402069-238419788:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 404.8775634765625 3 404.876857 1211.60874 NaN NaN NaN NaN NaN NaN NaN 19.915 1 20.208 19.708 20.708 0.29239 0 0 0 0.099253 1 9063 9063 32.037 23.061 1 39634 1982 25134 25216 44646 44646 0.011402366001675546 YYEHVKARF 9 Unmodified _YYEHVKARF_ 0 0 0 ENST00000469619.5_1_2:238402069-238419788:+|nuORF;nc|ENSG00000115648|Q9BV36-5|MLPH;nc|ENSG00000115648|Q9BV36-3|MLPH;ENST00000468178.5_1_2:238402069-238454213:+|nuORF;nc|ENSG00000115648|Q9BV36-4|MLPH;nc|ENSG00000115648|Q9BV36-2|MLPH;ENSG00000115648|ENST00000264605|MLPH ENST00000469619.5_1_2:238402069-238419788:+|nuORF ENST00000469619.5_1_2:238402069-238419788:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 405.2121887207031 3 404.876857 1211.60874 3.111 0.0012596 -0.11168 -4.5216E-05 2.9993 0.0012144 404.87673870377677 19.577 0.26592 20.235 20.117 20.383 0.65829 53 19 4 0 0 0 0.043585 2 8875 8875;8920 38.615 31.513 1 1273400 39635 1982 25134 25216 44647;44648 44647 0.011402366001675546 YYEKLHTYF 9 Unmodified _YYEKLHTYF_ 0 0 0 nc|ENSG00000132470|P16144-4|ITGB4;nc|ENSG00000132470|P16144-2|ITGB4;nc|ENSG00000132470|P16144-3|ITGB4;ENSG00000132470|ENST00000200181|ITGB4;ENST00000580542.5_1_17:73720783-73737087:+|nuORF;nc|ENSG00000132470|P16144-5|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 421.8741149902344 3 421.873001 1262.59717 2.7589 0.0011639 0.1259 5.3114E-05 2.8848 0.001217 421.8729984328063 44.861 0.31463 44.861 44.655 44.97 0 45 16 4 0 0 0 0.014491 2 20515 20464;20515 69.338 58.539 1 1653000 39636 2705 25135 25217 44649;44650 44650 -0.023620052138085157 YYEKLHTYF 9 Unmodified _YYEKLHTYF_ 0 0 0 nc|ENSG00000132470|P16144-4|ITGB4;nc|ENSG00000132470|P16144-2|ITGB4;nc|ENSG00000132470|P16144-3|ITGB4;ENSG00000132470|ENST00000200181|ITGB4;ENST00000580542.5_1_17:73720783-73737087:+|nuORF;nc|ENSG00000132470|P16144-5|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 421.8741455078125 3 421.873001 1262.59717 2.6194 0.001105 0.28574 0.00012055 2.9051 0.0012256 421.873095844798 43.573 0.31299 44.388 44.238 44.551 0.81444 41 14 4 0 0 0 0.012326 2 19863 19803;19863 67.838 52.59 1 1908200 39637 2705 25135 25217 44651;44652 44652 -0.023620052138085157 YYEKLHTYF 9 Unmodified _YYEKLHTYF_ 0 0 0 nc|ENSG00000132470|P16144-4|ITGB4;nc|ENSG00000132470|P16144-2|ITGB4;nc|ENSG00000132470|P16144-3|ITGB4;ENSG00000132470|ENST00000200181|ITGB4;ENST00000580542.5_1_17:73720783-73737087:+|nuORF;nc|ENSG00000132470|P16144-5|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.3094482421875 2 632.305864 1262.59717 3.3931 0.0021455 -0.66762 -0.00042214 2.7255 0.0017234 632.3053472530385 43.557 0.26068 44.372 44.257 44.518 0.81444 23 11 3 0 0 0 0.0095519 1 19834 19834 82.529 63.167 1 656490 39638 2705 25135 25217 44653 44653 -0.023620052138085157 YYEKLHTYF 9 Unmodified _YYEKLHTYF_ 0 0 0 nc|ENSG00000132470|P16144-4|ITGB4;nc|ENSG00000132470|P16144-2|ITGB4;nc|ENSG00000132470|P16144-3|ITGB4;ENSG00000132470|ENST00000200181|ITGB4;ENST00000580542.5_1_17:73720783-73737087:+|nuORF;nc|ENSG00000132470|P16144-5|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.307861328125 2 632.305864 1262.59717 NaN NaN NaN NaN NaN NaN NaN 43.691 1 44.505 44.005 45.005 0.81444 0 0 0 0.86044 1 19888 19888 7.2892 2.5332 1 39639 2705 25135 25217 44654 44654 -0.023620052138085157 YYEKLHTYF 9 Unmodified _YYEKLHTYF_ 0 0 0 nc|ENSG00000132470|P16144-4|ITGB4;nc|ENSG00000132470|P16144-2|ITGB4;nc|ENSG00000132470|P16144-3|ITGB4;ENSG00000132470|ENST00000200181|ITGB4;ENST00000580542.5_1_17:73720783-73737087:+|nuORF;nc|ENSG00000132470|P16144-5|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 421.8733825683594 3 421.873001 1262.59717 2.7564 0.0011629 -0.63908 -0.00026961 2.1173 0.00089325 421.8726491038147 44.735 0.29716 45.002 44.857 45.154 0.26768 28 16 2 0 0 0 0.052704 2 20436 20436;20499 41.956 21.541 1 2037100 39640 2705 25135 25217 44655;44656 44655 -0.023620052138085157 YYEKLHTYF 9 Unmodified _YYEKLHTYF_ 0 0 0 nc|ENSG00000132470|P16144-4|ITGB4;nc|ENSG00000132470|P16144-2|ITGB4;nc|ENSG00000132470|P16144-3|ITGB4;ENSG00000132470|ENST00000200181|ITGB4;ENST00000580542.5_1_17:73720783-73737087:+|nuORF;nc|ENSG00000132470|P16144-5|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 632.3072509765625 2 632.305864 1262.59717 NaN NaN NaN NaN NaN NaN NaN 44.781 1 45.049 44.549 45.549 0.26768 0 0 0 0.0064866 1 20468 20468 89.401 64.41 1 39641 2705 25135 25217 44657 44657 -0.023620052138085157 YYEKLHTYF 9 Unmodified _YYEKLHTYF_ 0 0 0 nc|ENSG00000132470|P16144-4|ITGB4;nc|ENSG00000132470|P16144-2|ITGB4;nc|ENSG00000132470|P16144-3|ITGB4;ENSG00000132470|ENST00000200181|ITGB4;ENST00000580542.5_1_17:73720783-73737087:+|nuORF;nc|ENSG00000132470|P16144-5|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 421.873779296875 3 421.873001 1262.59717 3.1579 0.0013322 -0.75496 -0.0003185 2.4029 0.0010137 421.8726775308058 44.177 0.27145 44.827 44.662 44.933 0.64998 23 13 2 0 0 0 0.012326 1 20232 20232 80.676 65.428 1 1047700 39642 2705 25135 25217 44658 44658 -0.023620052138085157 YYEKLHTYF 9 Unmodified _YYEKLHTYF_ 0 0 0 nc|ENSG00000132470|P16144-4|ITGB4;nc|ENSG00000132470|P16144-2|ITGB4;nc|ENSG00000132470|P16144-3|ITGB4;ENSG00000132470|ENST00000200181|ITGB4;ENST00000580542.5_1_17:73720783-73737087:+|nuORF;nc|ENSG00000132470|P16144-5|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 nc|ENSG00000132470|P16144-4|ITGB4 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 632.3084106445312 2 632.305864 1262.59717 4.0242 0.0025445 -0.43225 -0.00027331 3.592 0.0022712 632.3051856210722 44.158 0.18429 44.808 44.696 44.88 0.64998 11 9 2 0 0 0 0.021401 1 20262 20262 66.457 50.308 1 836780 39643 2705 25135 25217 44659 44659 -0.023620052138085157 YYEKQFPEI 9 Unmodified _YYEKQFPEI_ 0 0 0 nc|ENSG00000141027|O75376-2|NCOR1;ENSG00000141027|ENST00000268712|NCOR1;nc|ENSG00000141027|O75376-3|NCOR1;nc|ENSG00000196498|Q9Y618-5|NCOR2;nc|ENSG00000196498|Q9Y618-4|NCOR2;ENSG00000196498|ENST00000405201|NCOR2 nc|ENSG00000141027|O75376-2|NCOR1 nc|ENSG00000141027|O75376-2|NCOR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 608.8013916015625 2 608.797872 1215.58119 3.6498 0.002222 0.29122 0.0001773 3.9411 0.0023993 608.7982906990784 52.902 0.27215 52.902 52.74 53.013 0 32 15 3 0 0 0 0.0027913 2 24249 24198;24249 96.367 67.285 1 587530 39644 3231 25136 25218 44660;44661 44661 -0.017977114506948055 YYEKQFPEI 9 Unmodified _YYEKQFPEI_ 0 0 0 nc|ENSG00000141027|O75376-2|NCOR1;ENSG00000141027|ENST00000268712|NCOR1;nc|ENSG00000141027|O75376-3|NCOR1;nc|ENSG00000196498|Q9Y618-5|NCOR2;nc|ENSG00000196498|Q9Y618-4|NCOR2;ENSG00000196498|ENST00000405201|NCOR2 nc|ENSG00000141027|O75376-2|NCOR1 nc|ENSG00000141027|O75376-2|NCOR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 608.8009033203125 2 608.797872 1215.58119 2.8233 0.0017188 1.1872 0.00072278 4.0106 0.0024416 608.7989077468172 51.784 0.24379 52.595 52.446 52.69 0.81065 28 15 2 0 0 0 0.011692 1 23591 23591 79.596 56.86 1 773910 39645 3231 25136 25218 44662 44662 -0.017977114506948055 YYEKQFPEI 9 Unmodified _YYEKQFPEI_ 0 0 0 nc|ENSG00000141027|O75376-2|NCOR1;ENSG00000141027|ENST00000268712|NCOR1;nc|ENSG00000141027|O75376-3|NCOR1;nc|ENSG00000196498|Q9Y618-5|NCOR2;nc|ENSG00000196498|Q9Y618-4|NCOR2;ENSG00000196498|ENST00000405201|NCOR2 nc|ENSG00000141027|O75376-2|NCOR1 nc|ENSG00000141027|O75376-2|NCOR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 608.8012084960938 2 608.797872 1215.58119 3.6328 0.0022117 0.35025 0.00021323 3.9831 0.0024249 608.7979857057412 52.668 0.29969 52.931 52.777 53.077 0.26345 19 11 2 0 0 0 0.0017155 1 24083 24083 107.1 78.605 1 681970 39646 3231 25136 25218 44663 44663 -0.017977114506948055 YYEKQFPEI 9 Unmodified _YYEKQFPEI_ 0 0 0 nc|ENSG00000141027|O75376-2|NCOR1;ENSG00000141027|ENST00000268712|NCOR1;nc|ENSG00000141027|O75376-3|NCOR1;nc|ENSG00000196498|Q9Y618-5|NCOR2;nc|ENSG00000196498|Q9Y618-4|NCOR2;ENSG00000196498|ENST00000405201|NCOR2 nc|ENSG00000141027|O75376-2|NCOR1 nc|ENSG00000141027|O75376-2|NCOR1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 608.800537109375 2 608.797872 1215.58119 3.4671 0.0021108 0.61169 0.0003724 4.0788 0.0024832 608.7985090995852 52.298 0.31595 52.96 52.757 53.073 0.66198 26 13 3 0 0 0 0.022157 1 23895 23895 65.474 48.361 1 516830 39647 3231 25136 25218 44664 44664 -0.017977114506948055 YYELDWYYEEC 11 Unmodified _YYELDWYYEEC_ 0 0 0 nc|ENSG00000182606|Q9UPV9-3|TRAK1 nc|ENSG00000182606|Q9UPV9-3|TRAK1 nc|ENSG00000182606|Q9UPV9-3|TRAK1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 788.3029174804688 2 788.302858 1574.59116 NaN NaN NaN NaN NaN NaN NaN 81.77 1 81.854 81.354 82.354 0.084106 0 0 0 1.0082 1 40257 40257 0 0 1 39648 9773 25137 25219 44665 44665 -0.17314936298294015 YYELWWFWLLW 11 Unmodified _YYELWWFWLLW_ 0 0 0 ENST00000473467.5_1_2:74685729-74687181:+|nuORF;ENST00000441673.2_1_2:74684653-74687805:+|nuORF;ENST00000452361.5_1_2:74684918-74687805:+|nuORF;ENSG00000239779|ENST00000233615|WBP1 ENST00000473467.5_1_2:74685729-74687181:+|nuORF ENST00000473467.5_1_2:74685729-74687181:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 852.9171142578125 2 852.916113 1703.81767 NaN NaN NaN NaN NaN NaN NaN 52.452 1 52.715 52.215 53.215 0.26345 0 0 0 1.008 1 23980 23980 0.35063 0.35063 1 39649 6213 25138 25220 44666 44666 -0.0060835988640519645 YYELWWFWLVW 11 Unmodified _YYELWWFWLVW_ 0 0 0 nc|ENSG00000166272|Q9NX94|WBP1L;ENSG00000166272|ENST00000448841|WBP1L nc|ENSG00000166272|Q9NX94|WBP1L nc|ENSG00000166272|Q9NX94|WBP1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 846.051025390625 2 845.908288 1689.80202 NaN NaN NaN NaN NaN NaN NaN 28.41 1 28.67 28.17 29.17 0.2602 0 0 0 1.0082 1 12922 12922 0 0 1 39650 4469 25139 25221 44667 44667 -0.015286464034716118 YYEMMYIHWLK 11 Unmodified _YYEMMYIHWLK_ 0 0 0 REV__L1PB1_dup5905|chr7:93807211-93809400:+|3.627191007074611|0.2056128638309657|4.14|521.0|47|2|sense REV__L1PB1_dup5905|chr7:93807211-93809400:+|3.627191007074611|0.2056128638309657|4.14|521.0|47|2|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 788.8689575195312 2 788.869991 1575.72543 NaN NaN NaN NaN NaN NaN NaN 96.366 1 96.442 95.942 96.942 0.076538 0 0 0 1.008 1 51187 51187 0.30703 0.30703 1 + 39651 17808 25140 25222 44668 44668 -0.03940529286592209 YYESTAWIF 9 Unmodified _YYESTAWIF_ 0 0 0 REV__ENSG00000187775|ENST00000389840|DNAH17 REV__ENSG00000187775|ENST00000389840|DNAH17 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 590.2716674804688 2 590.27149 1178.52843 3.5768 0.0021113 -2.3246 -0.0013721 1.2522 0.00073916 590.2697375738236 33.214 0.23065 33.834 33.666 33.896 0.62031 20 13 2 0 0 0 0.29781 1 15208 15208 16.942 2.104 1 149900 + 39652 14113 25141 25223 44669 44669 -0.05369669513538611 YYESTAWIF 9 Unmodified _YYESTAWIF_ 0 0 0 REV__ENSG00000187775|ENST00000389840|DNAH17 REV__ENSG00000187775|ENST00000389840|DNAH17 MULTI-MATCH-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 590.27149 1178.52843 3.5768 0.0021113 -2.3246 -0.0013721 1.2522 0.00073916 590.2697375738236 33.214 0.23065 33.834 33.666 33.896 0.62031 -0.036264 0.00012052 NaN 16.942 20 13 2 NaN NaN NaN NaN 0 NaN NaN 0 149900 + 39653 14113 25141 25223 -0.05369669513538611 YYEVHKELF 9 Unmodified _YYEVHKELF_ 0 0 0 nc|ENSG00000198901|O43663-3|PRC1;nc|ENSG00000198901|O43663-4|PRC1;ENSG00000198901|ENST00000394249|PRC1;nc|ENSG00000198901|O43663-2|PRC1 nc|ENSG00000198901|O43663-3|PRC1 nc|ENSG00000198901|O43663-3|PRC1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 409.87359619140625 3 409.873001 1226.59717 NaN NaN NaN NaN NaN NaN NaN 42.004 1 42.004 41.504 42.504 0 0 0 0 0.87786 1 19115 19115 4.1895 1.691 1 39654 5958 25142 25224 44670 44670 -0.007060052138058381 YYFEGIKQTF 10 Unmodified _YYFEGIKQTF_ 0 0 0 ENST00000556369.1_3_14:77935388-77935589:+|nuORF;ENSG00000100591|ENST00000216479|AHSA1 ENST00000556369.1_3_14:77935388-77935589:+|nuORF ENST00000556369.1_3_14:77935388-77935589:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 648.3204345703125 2 648.318971 1294.62339 3.2833 0.0021286 -0.66179 -0.00042905 2.6215 0.0016996 648.3184643502115 63.001 0.1397 63.001 62.95 63.089 0 19 11 2 0 0 0 2.3069E-07 1 29589 29589 136.39 100.27 1 3342500 39655 1228 25143 25225 44671 44671 -0.012137360423594146 YYFEGIKQTF 10 Unmodified _YYFEGIKQTF_ 0 0 0 ENST00000556369.1_3_14:77935388-77935589:+|nuORF;ENSG00000100591|ENST00000216479|AHSA1 ENST00000556369.1_3_14:77935388-77935589:+|nuORF ENST00000556369.1_3_14:77935388-77935589:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 648.3221435546875 2 648.318971 1294.62339 3.6389 0.0023592 0.089813 5.8228E-05 3.7287 0.0024174 648.3194872875384 63.015 0.25135 63.264 63.149 63.4 0.24965 36 14 3 0 0 0 2.9505E-13 2 28843 28843;28889 151.48 115.35 1 1520000 39656 1228 25143 25225 44672;44673 44672 -0.012137360423594146 YYFEGIKQTF 10 Unmodified _YYFEGIKQTF_ 0 0 0 ENST00000556369.1_3_14:77935388-77935589:+|nuORF;ENSG00000100591|ENST00000216479|AHSA1 ENST00000556369.1_3_14:77935388-77935589:+|nuORF ENST00000556369.1_3_14:77935388-77935589:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 648.3218383789062 2 648.318971 1294.62339 3.7328 0.00242 0.34373 0.00022285 4.0765 0.0026429 648.3193096399242 62.468 0.27399 63.128 62.975 63.249 0.66009 44 18 3 0 0 0 7.4563E-20 2 28651 28596;28651 166.77 130.64 1 1703300 39657 1228 25143 25225 44674;44675 44675 -0.012137360423594146 YYFGEVHMK 9 Unmodified _YYFGEVHMK_ 0 0 0 ENSG00000162975|ENST00000295082|KCNF1 ENSG00000162975|ENST00000295082|KCNF1 ENSG00000162975|ENST00000295082|KCNF1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 587.2715454101562 2 587.273509 1172.53247 NaN NaN NaN NaN NaN NaN NaN 46.332 1 46.984 46.484 47.484 0.65219 0 0 0 0.84134 1 21222 21222 7.9102 2.6795 1 39658 4184 25144 25226 44676 44676 -0.04689903291455266 YYFSKLIEF 9 Unmodified _YYFSKLIEF_ 0 0 0 ENSG00000012660|ENST00000304434|ELOVL5;nc|ENSG00000012660|Q9NYP7-2|ELOVL5 ENSG00000012660|ENST00000304434|ELOVL5 ENSG00000012660|ENST00000304434|ELOVL5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 605.3169555664062 2 605.313158 1208.61176 3.4426 0.0020838 0.34758 0.00021039 3.7901 0.0022942 605.3132035514234 81.277 0.2612 81.525 81.332 81.593 0.24802 23 16 2 0 0 0 0.044468 1 37393 37393 49.554 32.441 1 516430 39659 424 25145 25227 44677 44677 0.01580066934320712 YYFSKLIEF 9 Unmodified _YYFSKLIEF_ 0 0 0 ENSG00000012660|ENST00000304434|ELOVL5;nc|ENSG00000012660|Q9NYP7-2|ELOVL5 ENSG00000012660|ENST00000304434|ELOVL5 ENSG00000012660|ENST00000304434|ELOVL5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 605.3153686523438 2 605.313158 1208.61176 3.8451 0.0023275 0.079314 4.801E-05 3.9244 0.0023755 605.3129887938575 80.559 0.19976 81.218 81.126 81.325 0.65997 19 10 2 0 0 0 0.071132 1 37131 37131 39.95 17.213 1 496640 39660 424 25145 25227 44678 44678 0.01580066934320712 YYFSKLIEF 9 Unmodified _YYFSKLIEF_ 0 0 0 ENSG00000012660|ENST00000304434|ELOVL5;nc|ENSG00000012660|Q9NYP7-2|ELOVL5 ENSG00000012660|ENST00000304434|ELOVL5 ENSG00000012660|ENST00000304434|ELOVL5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 605.313158 1208.61176 2.9778 0.0018025 1.3357 0.00080851 4.3134 0.002611 605.3134543495165 81.686 0.034103 81.686 81.658 81.692 0 0.20946 0.0013297 NaN 49.554 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 2675400 39661 424 25145 25227 0.01580066934320712 YYGRYNSSCI 10 Unmodified _YYGRYNSSCI_ 0 0 0 ENST00000541937.2_1_12:131451015-131457650:+|nuORF;ENSG00000111452|ENST00000261654|ADGRD1;nc|ENSG00000111452|Q6QNK2-4|ADGRD1 ENST00000541937.2_1_12:131451015-131457650:+|nuORF ENST00000541937.2_1_12:131451015-131457650:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 409.1846618652344 3 409.181729 1224.52336 NaN NaN NaN NaN NaN NaN NaN 85.214 1 85.463 84.963 85.963 0.24857 0 0 0 1.0001 1 39215 39215 0.69767 0 1 39662 1762 25146 25228 44679 44679 -0.07992296647785224 YYHARVYEF 9 Unmodified _YYHARVYEF_ 0 0 0 ENST00000580980.1_1_17:38142938-38146259:+|nuORF;nc|ENSG00000108344|O43242-2|PSMD3;ENST00000415039.7_1_17:38140716-38152959:+|nuORF;ENSG00000108344|ENST00000264639|PSMD3 ENST00000580980.1_1_17:38142938-38146259:+|nuORF ENST00000580980.1_1_17:38142938-38146259:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 416.5342102050781 3 416.532979 1246.57711 NaN NaN NaN NaN NaN NaN NaN 38.891 1 38.891 38.391 39.391 0 0 0 0 0.83378 1 17651 17651 8.1555 6.8259 1 39663 1628 25147 25229 44680 44680 -0.03631756153754395 YYHARVYEF 9 Unmodified _YYHARVYEF_ 0 0 0 ENST00000580980.1_1_17:38142938-38146259:+|nuORF;nc|ENSG00000108344|O43242-2|PSMD3;ENST00000415039.7_1_17:38140716-38152959:+|nuORF;ENSG00000108344|ENST00000264639|PSMD3 ENST00000580980.1_1_17:38142938-38146259:+|nuORF ENST00000580980.1_1_17:38142938-38146259:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 416.5341796875 3 416.532979 1246.57711 2.7122 0.0011297 -0.25152 -0.00010477 2.4606 0.0010249 416.86731783221853 37.702 0.32209 38.497 38.341 38.663 0.79552 31 14 3 0 0 0 0.75535 1 17111 17111 8.1555 4.2792 1 484100 39664 1628 25147 25229 44681 44681 -0.03631756153754395 YYHNYPFFFWF 11 Unmodified _YYHNYPFFFWF_ 0 0 0 ENST00000605924.5_1_13:52793665-52801187:-|nuORF ENST00000605924.5_1_13:52793665-52801187:-|nuORF ENST00000605924.5_1_13:52793665-52801187:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 816.025390625 2 815.861338 1629.70812 NaN NaN NaN NaN NaN NaN NaN 103.92 1 103.92 103.42 104.42 0 0 0 0 1.0082 1 57232 57232 0 0 1 39665 9316 25148 25230 44682 44682 -0.08154365505743044 YYIFIPSKF 9 Unmodified _YYIFIPSKF_ 0 0 0 ENST00000542123.5_1_12:12966301-12976268:+|nuORF;ENST00000545038.5_1_12:12966301-12976268:+|nuORF;ENST00000541537.5_1_12:12966301-12977638:+|nuORF;nc|ENSG00000213782|Q9H0S4-2|DDX47;ENSG00000213782|ENST00000358007|DDX47 ENST00000542123.5_1_12:12966301-12976268:+|nuORF ENST00000542123.5_1_12:12966301-12976268:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.319580078125 2 589.318243 1176.62193 2.9205 0.0017211 0.73553 0.00043346 3.656 0.0021546 589.3187341006599 78.653 0.20947 78.653 78.542 78.752 0 43 18 4 0 0 0 0.014491 1 38703 38703 75.761 57.614 1 14654000 39666 6099 25149 25231 44683 44683 0.04068674659561111 YYIFIPSKF 9 Unmodified _YYIFIPSKF_ 0 0 0 ENST00000542123.5_1_12:12966301-12976268:+|nuORF;ENST00000545038.5_1_12:12966301-12976268:+|nuORF;ENST00000541537.5_1_12:12966301-12977638:+|nuORF;nc|ENSG00000213782|Q9H0S4-2|DDX47;ENSG00000213782|ENST00000358007|DDX47 ENST00000542123.5_1_12:12966301-12976268:+|nuORF ENST00000542123.5_1_12:12966301-12976268:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.3207397460938 2 589.318243 1176.62193 2.801 0.0016507 0.26042 0.00015347 3.0614 0.0018041 589.3181711371684 77.723 0.25778 78.284 78.159 78.417 0.56091 63 24 3 0 0 0 0.0029142 2 37721 37721;37780 96.111 76.672 1 14153000 39667 6099 25149 25231 44684;44685 44684 0.04068674659561111 YYIFIPSKF 9 Unmodified _YYIFIPSKF_ 0 0 0 ENST00000542123.5_1_12:12966301-12976268:+|nuORF;ENST00000545038.5_1_12:12966301-12976268:+|nuORF;ENST00000541537.5_1_12:12966301-12977638:+|nuORF;nc|ENSG00000213782|Q9H0S4-2|DDX47;ENSG00000213782|ENST00000358007|DDX47 ENST00000542123.5_1_12:12966301-12976268:+|nuORF ENST00000542123.5_1_12:12966301-12976268:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.3204345703125 2 589.318243 1176.62193 3.4163 0.0020133 0.11446 6.7452E-05 3.5308 0.0020808 589.3182425031997 78.281 0.43262 78.534 78.324 78.756 0.25335 76 23 4 0 0 0 0.0029142 4 36025 35983;36025;36072;36127 96.111 74.574 1 5040000 39668 6099 25149 25231 44686;44687;44688;44689 44687 0.04068674659561111 YYIFIPSKF 9 Unmodified _YYIFIPSKF_ 0 0 0 ENST00000542123.5_1_12:12966301-12976268:+|nuORF;ENST00000545038.5_1_12:12966301-12976268:+|nuORF;ENST00000541537.5_1_12:12966301-12977638:+|nuORF;nc|ENSG00000213782|Q9H0S4-2|DDX47;ENSG00000213782|ENST00000358007|DDX47 ENST00000542123.5_1_12:12966301-12976268:+|nuORF ENST00000542123.5_1_12:12966301-12976268:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.3201904296875 2 589.318243 1176.62193 3.5183 0.0020734 -0.027204 -1.6032E-05 3.4911 0.0020574 589.3181535139986 77.818 0.3498 78.481 78.284 78.634 0.66303 69 22 4 0 0 0 0.0017071 3 35853 35804;35853;35897 107.19 79.558 1 6008700 39669 6099 25149 25231 44690;44691;44692 44691 0.04068674659561111 YYITGNLETF 10 Unmodified _YYITGNLETF_ 0 0 0 nc|ENSG00000091490|Q68CR1-3|SEL1L3;nc|ENSG00000091490|Q68CR1-2|SEL1L3;ENSG00000091490|ENST00000399878|SEL1L3 nc|ENSG00000091490|Q68CR1-3|SEL1L3 nc|ENSG00000091490|Q68CR1-3|SEL1L3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 610.7982177734375 2 610.795329 1219.5761 3.2724 0.0019988 -0.058768 -3.5895E-05 3.2136 0.0019629 610.7953317781842 75.455 0.187 75.713 75.604 75.791 0.25704 24 15 2 0 0 0 0.28649 1 34754 34754 29.082 18.258 1 799590 39670 1078 25150 25232 44693 44693 -0.024900153133330605 YYITGNLETF 10 Unmodified _YYITGNLETF_ 0 0 0 nc|ENSG00000091490|Q68CR1-3|SEL1L3;nc|ENSG00000091490|Q68CR1-2|SEL1L3;ENSG00000091490|ENST00000399878|SEL1L3 nc|ENSG00000091490|Q68CR1-3|SEL1L3 nc|ENSG00000091490|Q68CR1-3|SEL1L3 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 610.797119140625 2 610.795329 1219.5761 NaN NaN NaN NaN NaN NaN NaN 74.965 1 75.63 75.13 76.13 0.6644 0 0 0 0.41039 1 34525 34525 32.305 20.811 1 39671 1078 25150 25232 44694 44694 -0.024900153133330605 YYITGNLETF 10 Unmodified _YYITGNLETF_ 0 0 0 nc|ENSG00000091490|Q68CR1-3|SEL1L3;nc|ENSG00000091490|Q68CR1-2|SEL1L3;ENSG00000091490|ENST00000399878|SEL1L3 nc|ENSG00000091490|Q68CR1-3|SEL1L3 nc|ENSG00000091490|Q68CR1-3|SEL1L3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 610.795329 1219.5761 3.0486 0.0018621 0.2467 0.00015068 3.2953 0.0020128 610.7960652369765 75.628 0.17218 75.628 75.538 75.71 0 -0.042496 0.00012885 NaN 29.082 26 15 2 NaN NaN NaN NaN 0 NaN NaN 0 1298400 39672 1078 25150 25232 -0.024900153133330605 YYKEFRKV 8 Unmodified _YYKEFRKV_ 0 0 0 ENSG00000130119|ENST00000360845|GNL3L;ENST00000489691.1_1_X:54558969-54570464:+|nuORF ENSG00000130119|ENST00000360845|GNL3L ENSG00000130119|ENST00000360845|GNL3L MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 378.5434265136719 3 378.209836 1131.60768 2.6246 0.00099265 0.50679 0.00019167 3.1314 0.0011843 378.2096522419798 51.434 0.28664 51.696 51.61 51.897 0.26228 17 13 2 0 0 0 0.14132 1 23580 23580 1.3295 0 1 956220 39673 2573 25151 25233 44695 44695 0.04714022231269155 YYKHLRLKRLW 11 Unmodified _YYKHLRLKRLW_ 0 0 0 REV__ZCCHC14|p.F555Lfs*5|1|0.3|ENSG00000140948|chr16:87412648-87412648|G/-|frameshift_variant REV__ZCCHC14|p.F555Lfs*5|1|0.3|ENSG00000140948|chr16:87412648-87412648|G/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 525.6395874023438 3 525.980539 1574.91979 NaN NaN NaN NaN NaN NaN NaN 62.735 1 63.457 62.957 63.957 0.72236 0 0 0 1.0072 1 29310 29310 0.45452 0.38125 1 + 39674 12271 25152 25234 44696 44696 0.1553235097585457 YYKIVSPILR 10 Unmodified _YYKIVSPILR_ 0 0 0 ENSG00000237521|ENST00000456448|OR7E24 ENSG00000237521|ENST00000456448|OR7E24 ENSG00000237521|ENST00000456448|OR7E24 MULTI-SECPEP YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 417.921875 3 417.920174 1250.73869 3.2378 0.0013532 0.93462 0.0003906 4.1724 0.0017437 417.9202155479263 40.21 0.35583 40.852 40.527 40.883 0.64136 21 15 3 0 0 0 0.12676 1 18282 18282 1.7423 0 1 4003600 39675 6206 25153 25235 44697 44697 0.123354128793153 YYKPLYKRLEL 11 Unmodified _YYKPLYKRLEL_ 0 0 0 REV__ENSG00000151151|ENST00000373935|IPMK REV__ENSG00000151151|ENST00000373935|IPMK MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 743.4267578125 2 743.426845 1484.83914 NaN NaN NaN NaN NaN NaN NaN 54.146 1 54.812 54.312 55.312 0.6665 0 0 0 1.008 1 24766 24766 0.35063 0.043601 1 + 39676 12608 25154 25236 44698 44698 0.11611025142337894 YYKTKRVL 8 Unmodified _YYKTKRVL_ 0 0 0 ENST00000531908.5_1_11:17095982-17097186:-|nuORF;ENSG00000110700|ENST00000525634|RPS13;ENST00000526895.5_1_11:17095982-17099246:-|nuORF ENST00000531908.5_1_11:17095982-17097186:-|nuORF ENST00000531908.5_1_11:17095982-17097186:-|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 357.5524597167969 3 357.550082 1069.62842 2.7272 0.00097512 2.6179 0.00093603 5.3451 0.0019111 357.55092596139986 12.781 0.13609 12.781 12.729 12.865 0 14 5 3 0 0 0 0.066709 1 5585 5585 60.074 18.234 1 1396000 39677 1725 25155 25237 44699 44699 0.09638612610956443 YYLIWKNY 8 Unmodified _YYLIWKNY_ 0 0 0 ENSG00000214814|ENST00000522917|FER1L6 ENSG00000214814|ENST00000522917|FER1L6 ENSG00000214814|ENST00000522917|FER1L6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 581.80126953125 2 581.800217 1161.58588 NaN NaN NaN NaN NaN NaN NaN 47.387 1 48.04 47.54 48.54 0.65356 0 0 0 0.88162 1 21697 21697 13.508 5.5977 1 39678 6119 25156 25238 44700 44700 0.011552174827102135 YYLKRFFEV 9 Unmodified _YYLKRFFEV_ 0 0 0 ENSG00000086598|ENST00000262225|TMED2;ENST00000543425.1_1_12:124075023-124081273:+|nuORF ENSG00000086598|ENST00000262225|TMED2 ENSG00000086598|ENST00000262225|TMED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 422.22979736328125 3 422.229008 1263.66519 2.5578 0.00108 -0.60775 -0.00025661 1.95 0.00082336 422.2289106038648 60.802 0.17304 60.802 60.694 60.867 0 24 17 2 0 0 0 0.097139 1 28324 28324 33.445 21.927 1 2031300 39679 985 25157 25239 44701 44701 0.04390864436822994 YYLKRFFEV 9 Unmodified _YYLKRFFEV_ 0 0 0 ENSG00000086598|ENST00000262225|TMED2;ENST00000543425.1_1_12:124075023-124081273:+|nuORF ENSG00000086598|ENST00000262225|TMED2 ENSG00000086598|ENST00000262225|TMED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 632.842529296875 2 632.839874 1263.66519 3.1613 0.0020006 0.1268 8.0245E-05 3.2881 0.0020808 632.8396129763987 59.722 0.19365 60.472 60.328 60.522 0.74927 21 12 2 0 0 0 0.0527 2 27432 27382;27432 49.554 35.648 1 938690 39680 985 25157 25239 44702;44703 44703 0.04390864436822994 YYLKRFFEV 9 Unmodified _YYLKRFFEV_ 0 0 0 ENSG00000086598|ENST00000262225|TMED2;ENST00000543425.1_1_12:124075023-124081273:+|nuORF ENSG00000086598|ENST00000262225|TMED2 ENSG00000086598|ENST00000262225|TMED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 422.23016357421875 3 422.229008 1263.66519 2.385 0.001007 0.17472 7.3771E-05 2.5598 0.0010808 422.2290355029192 59.694 0.29633 60.443 60.257 60.553 0.74927 49 22 3 0 0 0 0.14214 1 27406 27406 27.223 16.424 1 1557700 39681 985 25157 25239 44704 44704 0.04390864436822994 YYLKRFFEV 9 Unmodified _YYLKRFFEV_ 0 0 0 ENSG00000086598|ENST00000262225|TMED2;ENST00000543425.1_1_12:124075023-124081273:+|nuORF ENSG00000086598|ENST00000262225|TMED2 ENSG00000086598|ENST00000262225|TMED2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 422.2298889160156 3 422.229008 1263.66519 2.9473 0.0012445 -0.1072 -4.5265E-05 2.8401 0.0011992 422.22883075460715 60.909 0.31902 61.165 61.007 61.326 0.25578 22 13 2 0 0 0 0.24524 1 27892 27892 20.415 9.615 1 422410 39682 985 25157 25239 44705 44705 0.04390864436822994 YYLKRFFEV 9 Unmodified _YYLKRFFEV_ 0 0 0 ENSG00000086598|ENST00000262225|TMED2;ENST00000543425.1_1_12:124075023-124081273:+|nuORF ENSG00000086598|ENST00000262225|TMED2 ENSG00000086598|ENST00000262225|TMED2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 422.229008 1263.66519 3.0339 0.001281 -0.56399 -0.00023813 2.47 0.0010429 422.22881652405977 60.288 0.23701 60.953 60.874 61.111 0.66503 -0.10576 -0.0003548 NaN 20.415 21 11 3 NaN NaN NaN NaN 0 NaN NaN 0 606410 39683 985 25157 25239 0.04390864436822994 YYLNDLERI 9 Unmodified _YYLNDLERI_ 0 0 0 nc|ENSG00000114353|P04899-4|GNAI2;GNAZ|p.K278Tfs*32|1|0.07|ENSG00000128266|chr22:23123195-23123196|-/C|frameshift_variant;ENSG00000128266|ENST00000615612|GNAZ;nc|ENSG00000114353|P04899-6|GNAI2;ENST00000490122.5_1_3:50289817-50295119:+|nuORF;nc|ENSG00000114353|P04899-3|GNAI2;nc|ENSG00000114353|P04899-5|GNAI2;nc|ENSG00000114353|P04899-2|GNAI2;ENSG00000114353|ENST00000313601|GNAI2 nc|ENSG00000114353|P04899-4|GNAI2;nc|ENSG00000114353|P04899-6|GNAI2 nc|ENSG00000114353|P04899-6|GNAI2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 599.813720703125 2 599.808771 1197.60299 NaN NaN NaN NaN NaN NaN NaN 62.798 1 63.52 63.02 64.02 0.72236 0 0 0 0.063391 1 29350 29350 49.554 26.818 1 39684 9602;1899 25158 25240 44706 44706 0.01209093297848085 YYLNDLERI 9 Unmodified _YYLNDLERI_ 0 0 0 nc|ENSG00000114353|P04899-4|GNAI2;GNAZ|p.K278Tfs*32|1|0.07|ENSG00000128266|chr22:23123195-23123196|-/C|frameshift_variant;ENSG00000128266|ENST00000615612|GNAZ;nc|ENSG00000114353|P04899-6|GNAI2;ENST00000490122.5_1_3:50289817-50295119:+|nuORF;nc|ENSG00000114353|P04899-3|GNAI2;nc|ENSG00000114353|P04899-5|GNAI2;nc|ENSG00000114353|P04899-2|GNAI2;ENSG00000114353|ENST00000313601|GNAI2 nc|ENSG00000114353|P04899-4|GNAI2;nc|ENSG00000114353|P04899-6|GNAI2 nc|ENSG00000114353|P04899-6|GNAI2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 599.8106689453125 2 599.808771 1197.60299 3.5249 0.0021143 -0.079744 -4.7831E-05 3.4452 0.0020664 599.8085401248319 63.865 0.35643 64.113 63.897 64.253 0.24803 52 22 3 0 0 0 0.0076144 3 29241 29192;29241;29287 86.332 27.653 1 1872300 39685 9602;1899 25158 25240 44707;44708;44709 44708 0.01209093297848085 YYLNDLERI 9 Unmodified _YYLNDLERI_ 0 0 0 nc|ENSG00000114353|P04899-4|GNAI2;GNAZ|p.K278Tfs*32|1|0.07|ENSG00000128266|chr22:23123195-23123196|-/C|frameshift_variant;ENSG00000128266|ENST00000615612|GNAZ;nc|ENSG00000114353|P04899-6|GNAI2;ENST00000490122.5_1_3:50289817-50295119:+|nuORF;nc|ENSG00000114353|P04899-3|GNAI2;nc|ENSG00000114353|P04899-5|GNAI2;nc|ENSG00000114353|P04899-2|GNAI2;ENSG00000114353|ENST00000313601|GNAI2 nc|ENSG00000114353|P04899-4|GNAI2;nc|ENSG00000114353|P04899-6|GNAI2 nc|ENSG00000114353|P04899-6|GNAI2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 599.8109741210938 2 599.808771 1197.60299 3.8742 0.0023238 -0.38784 -0.00023263 3.4863 0.0020911 599.8084326304462 63.251 0.32597 63.909 63.746 64.072 0.65808 46 20 3 0 0 0 0.0029142 3 29006 28958;29006;29054 96.111 36.037 1 2630800 39686 9602;1899 25158 25240 44710;44711;44712 44711 0.01209093297848085 YYLRNFFLRRV 11 Unmodified _YYLRNFFLRRV_ 0 0 0 ENST00000509155.1_3_4:12642019-12642223:-|nuORF ENST00000509155.1_3_4:12642019-12642223:-|nuORF ENST00000509155.1_3_4:12642019-12642223:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 773.935546875 2 773.935702 1545.85685 NaN NaN NaN NaN NaN NaN NaN 69.429 1 70.089 69.589 70.589 0.66071 0 0 0 1.0082 1 31828 31828 0 0 1 39687 8535 25159 25241 44713 44713 0.10575785187802467 YYLRNLHFIRL 11 Unmodified _YYLRNLHFIRL_ 0 0 0 Tigger1_dup8984|chr12:21768325-21770471:+|1.0340961866251268|0.4575146523094087|1.18|539.0|16|1|sense Tigger1_dup8984|chr12:21768325-21770471:+|1.0340961866251268|0.4575146523094087|1.18|539.0|16|1|sense Tigger1_dup8984|chr12:21768325-21770471:+|1.0340961866251268|0.4575146523094087|1.18|539.0|16|1|sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 754.4327392578125 2 754.430253 1506.84595 NaN NaN NaN NaN NaN NaN NaN 57.193 1 57.962 57.462 58.462 0.76861 0 0 0 1.008 1 26173 26173 0.35063 0.043601 1 39688 18271 25160 25242 44714 44714 0.11280382813538381 YYLSKIEEL 9 Unmodified _YYLSKIEEL_ 0 0 0 nc|ENSG00000087191|P62195-2|PSMC5;ENSG00000087191|ENST00000310144|PSMC5 nc|ENSG00000087191|P62195-2|PSMC5 nc|ENSG00000087191|P62195-2|PSMC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 579.811767578125 2 579.308072 1156.60159 3.0271 0.0017536 0.54754 0.0003172 3.5747 0.0020708 579.8097300729991 59.155 0.20218 59.914 59.789 59.991 0.75894 22 13 2 0 0 0 0.11458 1 27180 27180 29.082 2.1979 1 913780 39689 998 25161 25243 44715 44715 0.029554592091017184 YYLSKIEEL 9 Unmodified _YYLSKIEEL_ 0 0 0 nc|ENSG00000087191|P62195-2|PSMC5;ENSG00000087191|ENST00000310144|PSMC5 nc|ENSG00000087191|P62195-2|PSMC5 nc|ENSG00000087191|P62195-2|PSMC5 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 579.3093872070312 2 579.308072 1156.60159 3.3998 0.0019695 -0.27352 -0.00015845 3.1263 0.0018111 579.3078889231671 60.237 0.25385 60.493 60.383 60.637 0.25578 20 12 2 0 0 0 0.084899 1 27595 27595 36.506 4.2007 1 517530 39690 998 25161 25243 44716 44716 0.029554592091017184 YYLSKIEEL 9 Unmodified _YYLSKIEEL_ 0 0 0 nc|ENSG00000087191|P62195-2|PSMC5;ENSG00000087191|ENST00000310144|PSMC5 nc|ENSG00000087191|P62195-2|PSMC5 nc|ENSG00000087191|P62195-2|PSMC5 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 2 579.308072 1156.60159 3.6588 0.0021196 -0.49645 -0.0002876 3.1623 0.001832 579.3078123616214 59.663 0.19059 60.328 60.251 60.441 0.66503 -0.082303 -0.00014022 NaN 36.506 15 8 2 NaN NaN NaN NaN 0 NaN NaN 0 651800 39691 998 25161 25243 0.029554592091017184 YYLTHGLYL 9 Unmodified _YYLTHGLYL_ 0 0 0 ENSG00000101464|ENST00000217446|PIGU;nc|ENSG00000101464|Q9H490-2|PIGU ENSG00000101464|ENST00000217446|PIGU ENSG00000101464|ENST00000217446|PIGU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 571.7969970703125 2 571.797675 1141.5808 3.636 0.0020791 -1.2034 -0.00068809 2.4327 0.001391 571.7967824579365 66.99 0.25343 67.24 67.132 67.385 0.2501 27 15 2 0 0 0 0.012869 2 30685 30685;30735 77.984 53.964 1 733450 39692 1298 25162 25244 44717;44718 44717 0.0156691362010406 YYLTHGLYL 9 Unmodified _YYLTHGLYL_ 0 0 0 ENSG00000101464|ENST00000217446|PIGU;nc|ENSG00000101464|Q9H490-2|PIGU ENSG00000101464|ENST00000217446|PIGU ENSG00000101464|ENST00000217446|PIGU MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 571.7992553710938 2 571.797675 1141.5808 3.7006 0.002116 -0.37588 -0.00021493 3.3247 0.0019011 571.7970618146577 66.391 0.23724 67.048 66.909 67.146 0.65672 22 11 3 0 0 0 0.012869 1 30432 30432 77.984 47.348 1 594790 39693 1298 25162 25244 44719 44719 0.0156691362010406 YYMIGEQKF 9 Oxidation (M) _YYM(Oxidation (M))IGEQKF_ YYM(1)IGEQKF YYM(130)IGEQKF 0 0 1 ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 597.780517578125 2 597.778625 1193.5427 3.1271 0.0018693 0.12088 7.2258E-05 3.248 0.0019416 597.7787201027372 47.102 0.40491 47.102 46.909 47.314 0 62 20 4 0 0 0 0.00055091 3 21615 21522;21569;21615 131.27 98.962 1 3782700 39694 4502 25163 25245 44720;44721;44722 44722 63 -0.046333403568951326 YYMIGEQKF 9 Oxidation (M) _YYM(Oxidation (M))IGEQKF_ YYM(1)IGEQKF YYM(150)IGEQKF 0 0 1 ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 597.7808837890625 2 597.778625 1193.5427 3.4497 0.0020622 -0.27571 -0.00016481 3.174 0.0018974 597.7784369945526 46.045 0.372 46.871 46.692 47.064 0.82621 49 17 4 0 0 0 1.0071E-05 2 20993 20944;20993 147.06 117.98 1 3163100 39695 4502 25163 25245 44723;44724 44724 63 -0.046333403568951326 YYMIGEQKF 9 Oxidation (M) _YYM(Oxidation (M))IGEQKF_ YYM(1)IGEQKF YYM(190)IGEQKF 0 0 1 ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 597.78076171875 2 597.778625 1193.5427 3.9532 0.0023632 -0.45716 -0.00027328 3.4961 0.0020899 597.7784337034009 47.049 0.4889 47.313 47.124 47.613 0.26363 69 18 5 0 0 0 4.415E-22 3 21534 21486;21534;21587 189.78 145.92 1 4541600 39696 4502 25163 25245 44725;44726;44727 44726 63 -0.046333403568951326 YYMIGEQKF 9 Oxidation (M) _YYM(Oxidation (M))IGEQKF_ YYM(1)IGEQKF YYM(160)IGEQKF 0 0 1 ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 597.7804565429688 2 597.778625 1193.5427 4.1599 0.0024867 -0.95262 -0.00056945 3.2073 0.0019172 597.7781763980563 46.606 0.45577 47.258 46.979 47.435 0.65219 62 16 5 0 0 0 4.0686E-09 3 21326 21272;21326;21384 160.52 122.54 1 4336500 39697 4502 25163 25245 44728;44729;44730 44729 63 -0.046333403568951326 YYMIGEQKF 9 Unmodified _YYMIGEQKF_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 589.783203125 2 589.781167 1177.54778 3.5965 0.0021212 0.12086 7.1279E-05 3.7174 0.0021924 589.7813382859782 54.924 0.35008 54.924 54.749 55.099 0 129 34 5 0 0 0 1.8233E-05 3 25254 25163;25205;25254 144.35 113.08 1 40733000 39698 4502 25163 25246 44731;44732;44733 44733 -0.033890364942863016 YYMIGEQKF 9 Unmodified _YYMIGEQKF_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.7815551757812 2 589.781167 1177.54778 3.1814 0.0018763 -0.2983 -0.00017593 2.8831 0.0017004 589.7811002793524 53.621 0.38605 54.425 54.297 54.683 0.8035 90 24 5 0 0 0 1.8233E-05 3 24437 24437;24486;24541 144.35 106.17 1 75678000 39699 4502 25163 25246 44734;44735;44736 44734 -0.033890364942863016 YYMIGEQKF 9 Unmodified _YYMIGEQKF_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 589.7837524414062 2 589.781167 1177.54778 3.2735 0.0019306 0.2383 0.00014054 3.5118 0.0020712 589.7813947545487 54.865 0.41678 55.13 54.94 55.357 0.26543 136 40 5 0 0 0 1.8233E-05 4 25107 25010;25054;25107;25158 144.35 119.68 1 43206000 39700 4502 25163 25246 44737;44738;44739;44740 44739 -0.033890364942863016 YYMIGEQKF 9 Unmodified _YYMIGEQKF_ 0 0 0 ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT ENSG00000166741|ENST00000299964|NNMT MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 589.7836303710938 2 589.781167 1177.54778 3.5452 0.0020909 -0.3653 -0.00021545 3.1799 0.0018755 589.7810899140287 54.148 0.41073 54.815 54.663 55.074 0.6665 83 21 5 0 0 0 1.0071E-05 3 24735 24735;24785;24836 147.06 115.86 1 42095000 39701 4502 25163 25246 44741;44742;44743 44741 -0.033890364942863016 YYNKVSTVF 9 Unmodified _YYNKVSTVF_ 0 0 0 ENSG00000107581|ENST00000369144|EIF3A;nc|ENSG00000107581|Q14152-2|EIF3A ENSG00000107581|ENST00000369144|EIF3A ENSG00000107581|ENST00000369144|EIF3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 560.7913818359375 2 560.787307 1119.56006 3.6532 0.0020487 -0.31805 -0.00017836 3.3351 0.0018703 560.7870840154878 46.346 0.26962 46.611 46.405 46.675 0.26561 16 10 2 0 0 0 0.034495 1 21150 21150 53.833 37.684 1 353800 39702 1600 25164 25247 44744 44744 0.005063232404381779 YYNKVSTVF 9 Unmodified _YYNKVSTVF_ 0 0 0 ENSG00000107581|ENST00000369144|EIF3A;nc|ENSG00000107581|Q14152-2|EIF3A ENSG00000107581|ENST00000369144|EIF3A ENSG00000107581|ENST00000369144|EIF3A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 560.7892456054688 2 560.787307 1119.56006 3.8197 0.002142 0.20425 0.00011454 4.024 0.0022566 560.7873022366987 45.705 0.30711 46.356 46.194 46.501 0.65104 16 10 2 0 0 0 0.043585 1 20945 20945 49.933 29.479 1 459270 39703 1600 25164 25247 44745 44745 0.005063232404381779 YYNKVSTVF 9 Unmodified _YYNKVSTVF_ 0 0 0 ENSG00000107581|ENST00000369144|EIF3A;nc|ENSG00000107581|Q14152-2|EIF3A ENSG00000107581|ENST00000369144|EIF3A ENSG00000107581|ENST00000369144|EIF3A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 560.787307 1119.56006 3.2898 0.0018449 0.98849 0.00055433 4.2783 0.0023992 560.7879974528664 46.362 0.24355 46.362 46.258 46.502 0 0.0037104 0.00095971 NaN 53.833 18 12 2 NaN NaN NaN NaN 0 NaN NaN 0 1061300 39704 1600 25164 25247 0.005063232404381779 YYNPHLLLNTL 11 Unmodified _YYNPHLLLNTL_ 0 0 0 ENSG00000205339|ENST00000379719|IPO7 ENSG00000205339|ENST00000379719|IPO7 ENSG00000205339|ENST00000379719|IPO7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 680.8670043945312 2 680.86662 1359.71869 3.1495 0.0021444 0.050342 3.4276E-05 3.1999 0.0021787 680.8666207737481 71.289 0.219 71.993 71.895 72.114 0.70386 35 23 2 0 0 0 9.4169E-05 1 34211 34211 89.401 71.254 1 2620900 39705 6046 25165 25248 44746 44746 0.05321617148729274 YYNPHLLLNTL 11 Unmodified _YYNPHLLLNTL_ 0 0 0 ENSG00000205339|ENST00000379719|IPO7 ENSG00000205339|ENST00000379719|IPO7 ENSG00000205339|ENST00000379719|IPO7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 681.372802734375 2 680.86662 1359.71869 3.5348 0.0024067 -1.1121 -0.00075717 2.4227 0.0016495 680.8664246835541 71.867 0.17241 72.125 72.051 72.223 0.25785 31 15 3 0 0 0 0.16104 1 32990 32990 31.268 21.118 1 2394800 39706 6046 25165 25248 44747 44747 0.05321617148729274 YYNPHLLLNTL 11 Unmodified _YYNPHLLLNTL_ 0 0 0 ENSG00000205339|ENST00000379719|IPO7 ENSG00000205339|ENST00000379719|IPO7 ENSG00000205339|ENST00000379719|IPO7 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 680.8679809570312 2 680.86662 1359.71869 3.3318 0.0022685 -0.49019 -0.00033375 2.8416 0.0019348 680.8662176640847 71.475 0.26226 72.138 72.024 72.286 0.66325 37 16 3 0 0 0 0.0015513 2 32797 32746;32797 78.06 60.181 1 1696800 39707 6046 25165 25248 44748;44749 44749 0.05321617148729274 YYNYSYSN 8 Unmodified _YYNYSYSN_ 0 0 0 LTR13A_dup7|chr1:43138776-43139741:+|1.031771637262758|0.2457820778445239|2.07|491.0|41|1|anti-sense LTR13A_dup7|chr1:43138776-43139741:+|1.031771637262758|0.2457820778445239|2.07|491.0|41|1|anti-sense LTR13A_dup7|chr1:43138776-43139741:+|1.031771637262758|0.2457820778445239|2.07|491.0|41|1|anti-sense MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 536.7437133789062 2 537.214172 1072.41379 NaN NaN NaN NaN NaN NaN NaN 75.445 1 75.445 74.945 75.945 0 0 0 0 0.99035 1 36969 36969 2.3027 0 1 39708 9494 25166 25249 44750 44750 -0.11951978995466561 YYPAKIEAI 9 Unmodified _YYPAKIEAI_ 0 0 0 ENSG00000129292|ENST00000395386|PHF20L1;nc|ENSG00000129292|A8MW92-2|PHF20L1;ENST00000395383.5_1_8:133790074-133836319:+|nuORF;nc|ENSG00000129292|A8MW92-4|PHF20L1;ENST00000361997.9_1_8:133790074-133829825:+|nuORF ENSG00000129292|ENST00000395386|PHF20L1;ENST00000361997.9_1_8:133790074-133829825:+|nuORF ENSG00000129292|ENST00000395386|PHF20L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 534.2947387695312 2 534.292225 1066.5699 3.1837 0.001701 -1.2248 -0.00065442 1.9588 0.0010466 534.2912963985838 48.534 0.19718 48.796 48.649 48.846 0.26209 19 11 2 0 0 0 0.16976 1 22179 22179 25.399 9.5521 1 676040 39709 2545;7233 25167 25250 44751 44751 0.039275112458199146 YYPAKIEAI 9 Unmodified _YYPAKIEAI_ 0 0 0 ENSG00000129292|ENST00000395386|PHF20L1;nc|ENSG00000129292|A8MW92-2|PHF20L1;ENST00000395383.5_1_8:133790074-133836319:+|nuORF;nc|ENSG00000129292|A8MW92-4|PHF20L1;ENST00000361997.9_1_8:133790074-133829825:+|nuORF ENSG00000129292|ENST00000395386|PHF20L1;ENST00000361997.9_1_8:133790074-133829825:+|nuORF ENSG00000129292|ENST00000395386|PHF20L1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 534.2928466796875 2 534.292225 1066.5699 3.2977 0.0017619 -1.3025 -0.00069593 1.9952 0.001066 534.2912261059877 47.925 0.34785 48.579 48.356 48.704 0.65356 26 14 3 0 0 0 0.10837 1 21938 21938 30.637 13.524 1 568660 39710 2545;7233 25167 25250 44752 44752 0.039275112458199146 YYPEHFTLL 9 Unmodified _YYPEHFTLL_ 0 0 0 ENSG00000100065|ENST00000251973|CARD10 ENSG00000100065|ENST00000251973|CARD10 ENSG00000100065|ENST00000251973|CARD10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 591.7954711914062 2 591.795132 1181.57571 2.8512 0.0016873 -0.49472 -0.00029277 2.3565 0.0013945 591.7946570096142 67.945 0.24422 68.647 68.554 68.799 0.70218 58 32 2 0 0 0 0.27976 1 32394 32394 18.135 6.4947 1 3178000 39711 1171 25168 25251 44753 44753 -0.00781390242514135 YYPEHFTLL 9 Unmodified _YYPEHFTLL_ 0 0 0 ENSG00000100065|ENST00000251973|CARD10 ENSG00000100065|ENST00000251973|CARD10 ENSG00000100065|ENST00000251973|CARD10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 591.798095703125 2 591.795132 1181.57571 3.9031 0.0023098 -0.31275 -0.00018508 3.5904 0.0021248 591.7950070982307 68.937 0.39021 69.192 68.991 69.381 0.25443 60 24 3 0 0 0 0.010221 3 31576 31528;31576;31626 81.613 41.663 1 1505700 39712 1171 25168 25251 44754;44755;44756 44755 -0.00781390242514135 YYPEHFTLL 9 Unmodified _YYPEHFTLL_ 0 0 0 ENSG00000100065|ENST00000251973|CARD10 ENSG00000100065|ENST00000251973|CARD10 ENSG00000100065|ENST00000251973|CARD10 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 591.7975463867188 2 591.795132 1181.57571 3.6388 0.0021534 -0.26602 -0.00015743 3.3727 0.001996 591.794991640973 68.344 0.31993 69.003 68.859 69.179 0.65925 49 19 3 0 0 0 0.028312 3 31344 31291;31344;31396 57.471 31.203 1 1664900 39713 1171 25168 25251 44757;44758;44759 44758 -0.00781390242514135 YYPEYKLLF 9 Unmodified _YYPEYKLLF_ 0 0 0 ENSG00000159720|ENST00000290949|ATP6V0D1 ENSG00000159720|ENST00000290949|ATP6V0D1 ENSG00000159720|ENST00000290949|ATP6V0D1 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 618.3237915039062 2 618.320983 1234.62741 NaN NaN NaN NaN NaN NaN NaN 75.614 1 75.871 75.371 76.371 0.25704 0 0 0 0.17021 1 34801 34801 32.305 13.049 1 39714 4032 25169 25252 44760 44760 0.019483534513710765 YYPEYKLLF 9 Unmodified _YYPEYKLLF_ 0 0 0 ENSG00000159720|ENST00000290949|ATP6V0D1 ENSG00000159720|ENST00000290949|ATP6V0D1 ENSG00000159720|ENST00000290949|ATP6V0D1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 618.3175659179688 2 618.320983 1234.62741 3.1973 0.001977 -0.34482 -0.00021321 2.8525 0.0017638 618.3211365009897 75.135 0.1937 75.8 75.734 75.927 0.6644 20 15 2 0 0 0 0.16976 1 34638 34638 25.399 11.493 1 620720 39715 4032 25169 25252 44761 44761 0.019483534513710765 YYPEYKLLF 9 Unmodified _YYPEYKLLF_ 0 0 0 ENSG00000159720|ENST00000290949|ATP6V0D1 ENSG00000159720|ENST00000290949|ATP6V0D1 ENSG00000159720|ENST00000290949|ATP6V0D1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 618.320983 1234.62741 3.2332 0.0019991 0.37888 0.00023427 3.6121 0.0022334 618.3206282956911 75.755 0.047623 75.755 75.717 75.765 0 -0.022195 0.00026688 NaN 25.399 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 680890 39716 4032 25169 25252 0.019483534513710765 YYPNPPLVL 9 Unmodified _YYPNPPLVL_ 0 0 0 nc|ENSG00000178425|Q5TFE4-2|NT5DC1;ENSG00000178425|ENST00000319550|NT5DC1 nc|ENSG00000178425|Q5TFE4-2|NT5DC1 nc|ENSG00000178425|Q5TFE4-2|NT5DC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.2958984375 2 538.294768 1074.57498 2.4475 0.0013175 0.46471 0.00025015 2.9122 0.0015676 538.2951261716461 79.783 0.31721 80.103 79.926 80.244 0.31998 45 20 3 0 0 0 0.0022375 2 38943 38943;38990 101.72 65.678 1 1506900 39717 5167 25170 25253 44762;44763 44762 0.040678151084193814 YYPNPPLVL 9 Unmodified _YYPNPPLVL_ 0 0 0 nc|ENSG00000178425|Q5TFE4-2|NT5DC1;ENSG00000178425|ENST00000319550|NT5DC1 nc|ENSG00000178425|Q5TFE4-2|NT5DC1 nc|ENSG00000178425|Q5TFE4-2|NT5DC1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.2973022460938 2 538.294768 1074.57498 3.3425 0.0017993 1.7144 0.00092287 5.057 0.0027221 538.2961095114616 79.728 0.35292 80.389 80.206 80.559 0.66082 42 20 3 0 0 0 0.010037 1 36730 36730 81.864 45.82 1 739680 39718 5167 25170 25253 44764 44764 0.040678151084193814 YYPSTPGRYSI 11 Unmodified _YYPSTPGRYSI_ 0 0 0 FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant;nc|ENSG00000136068|O75369-5|FLNB;nc|ENSG00000136068|O75369-4|FLNB;nc|ENSG00000136068|O75369-7|FLNB;nc|ENSG00000136068|O75369-6|FLNB;nc|ENSG00000136068|O75369-3|FLNB;nc|ENSG00000136068|O75369-2|FLNB;nc|ENSG00000136068|O75369-9|FLNB;ENSG00000136068|ENST00000295956|FLNB;nc|ENSG00000136068|O75369-8|FLNB FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 652.322265625 2 652.319502 1302.62445 3.5861 0.0023393 0.27438 0.00017899 3.8605 0.0025183 652.3196348241398 45.456 0.49924 45.456 45.272 45.772 0 79 23 4 0 0 0 0.0041838 4 20807 20754;20807;20864;20938 69.338 48.885 1 8535500 39719 2926 25171 25254 44765;44766;44767;44768 44766 -0.01475521673410185 YYPSTPGRYSI 11 Unmodified _YYPSTPGRYSI_ 0 0 0 FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant;nc|ENSG00000136068|O75369-5|FLNB;nc|ENSG00000136068|O75369-4|FLNB;nc|ENSG00000136068|O75369-7|FLNB;nc|ENSG00000136068|O75369-6|FLNB;nc|ENSG00000136068|O75369-3|FLNB;nc|ENSG00000136068|O75369-2|FLNB;nc|ENSG00000136068|O75369-9|FLNB;ENSG00000136068|ENST00000295956|FLNB;nc|ENSG00000136068|O75369-8|FLNB FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 652.321533203125 2 652.319502 1302.62445 3.5884 0.0023408 0.13728 8.955E-05 3.7256 0.0024303 652.319534314477 44.395 0.61629 45.216 44.912 45.528 0.82075 96 31 4 0 0 0 0.0041838 4 20169 20114;20169;20219;20274 69.338 48.885 1 7370800 39720 2926 25171 25254 44769;44770;44771;44772 44770 -0.01475521673410185 YYPSTPGRYSI 11 Unmodified _YYPSTPGRYSI_ 0 0 0 FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant;nc|ENSG00000136068|O75369-5|FLNB;nc|ENSG00000136068|O75369-4|FLNB;nc|ENSG00000136068|O75369-7|FLNB;nc|ENSG00000136068|O75369-6|FLNB;nc|ENSG00000136068|O75369-3|FLNB;nc|ENSG00000136068|O75369-2|FLNB;nc|ENSG00000136068|O75369-9|FLNB;ENSG00000136068|ENST00000295956|FLNB;nc|ENSG00000136068|O75369-8|FLNB FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 652.3177490234375 2 652.319502 1302.62445 NaN NaN NaN NaN NaN NaN NaN 44.663 1 45.484 44.984 45.984 0.82075 0 0 0 0.78004 1 20340 20340 21.59 12.207 1 39721 2926 25171 25254 44773 44773 -0.01475521673410185 YYPSTPGRYSI 11 Unmodified _YYPSTPGRYSI_ 0 0 0 FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant;nc|ENSG00000136068|O75369-5|FLNB;nc|ENSG00000136068|O75369-4|FLNB;nc|ENSG00000136068|O75369-7|FLNB;nc|ENSG00000136068|O75369-6|FLNB;nc|ENSG00000136068|O75369-3|FLNB;nc|ENSG00000136068|O75369-2|FLNB;nc|ENSG00000136068|O75369-9|FLNB;ENSG00000136068|ENST00000295956|FLNB;nc|ENSG00000136068|O75369-8|FLNB FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 652.3217163085938 2 652.319502 1302.62445 3.6698 0.0023939 0.40977 0.0002673 4.0796 0.0026612 652.3196473332044 45.434 0.44014 45.702 45.489 45.93 0.26768 48 16 4 0 0 0 0.002913 3 20783 20729;20783;20857 73.196 52.743 1 8556800 39722 2926 25171 25254 44774;44775;44776 44775 -0.01475521673410185 YYPSTPGRYSI 11 Unmodified _YYPSTPGRYSI_ 0 0 0 FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant;nc|ENSG00000136068|O75369-5|FLNB;nc|ENSG00000136068|O75369-4|FLNB;nc|ENSG00000136068|O75369-7|FLNB;nc|ENSG00000136068|O75369-6|FLNB;nc|ENSG00000136068|O75369-3|FLNB;nc|ENSG00000136068|O75369-2|FLNB;nc|ENSG00000136068|O75369-9|FLNB;ENSG00000136068|ENST00000295956|FLNB;nc|ENSG00000136068|O75369-8|FLNB FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant FLNB|p.S1810Tfs*49|1|0.14|ENSG00000136068|chr3:58145924-58145925|GC/-|frameshift_variant MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 652.3219604492188 2 652.319502 1302.62445 4.116 0.0026849 -0.096238 -6.2778E-05 4.0197 0.0026221 652.3193061992885 44.842 0.48488 45.492 45.265 45.75 0.64998 53 17 4 0 0 0 0.00014092 3 20557 20506;20557;20616 85.764 65.311 1 6471200 39723 2926 25171 25254 44777;44778;44779 44778 -0.01475521673410185 YYQDTPKQI 9 Unmodified _YYQDTPKQI_ 0 0 0 ENSG00000048162|ENST00000614830|NOP16 ENSG00000048162|ENST00000614830|NOP16 ENSG00000048162|ENST00000614830|NOP16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.2894287109375 2 578.287671 1154.56079 3.9662 0.0022936 0.24311 0.00014059 4.2093 0.0024342 578.2876164222339 28.643 0.3362 28.643 28.428 28.764 0 53 27 3 0 0 0 0.004576 2 12919 12875;12919 92.653 58.509 1 660110 39724 566 25172 25255 44780;44781 44781 -0.010308821105354582 YYQDTPKQI 9 Unmodified _YYQDTPKQI_ 0 0 0 ENSG00000048162|ENST00000614830|NOP16 ENSG00000048162|ENST00000614830|NOP16 ENSG00000048162|ENST00000614830|NOP16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.2903442382812 2 578.287671 1154.56079 3.4575 0.0019994 0.077442 4.4784E-05 3.5349 0.0020442 578.2877332203584 27.705 0.35601 28.491 28.305 28.661 0.78627 70 32 3 0 0 0 0.0027913 3 12442 12406;12442;12489 96.367 58.393 1 612810 39725 566 25172 25255 44782;44783;44784 44783 -0.010308821105354582 YYQDTPKQI 9 Unmodified _YYQDTPKQI_ 0 0 0 ENSG00000048162|ENST00000614830|NOP16 ENSG00000048162|ENST00000614830|NOP16 ENSG00000048162|ENST00000614830|NOP16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.2899169921875 2 578.287671 1154.56079 3.2804 0.001897 0.92836 0.00053686 4.2088 0.0024339 578.2879883478639 28.52 0.33182 28.78 28.583 28.915 0.2602 40 21 3 0 0 0 0.0095519 2 12953 12953;13004 82.529 51.893 1 405220 39726 566 25172 25255 44785;44786 44785 -0.010308821105354582 YYQDTPKQI 9 Unmodified _YYQDTPKQI_ 0 0 0 ENSG00000048162|ENST00000614830|NOP16 ENSG00000048162|ENST00000614830|NOP16 ENSG00000048162|ENST00000614830|NOP16 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.2901000976562 2 578.287671 1154.56079 3.6027 0.0020834 0.25017 0.00014467 3.8529 0.0022281 578.2877726211526 28.137 0.34193 28.757 28.538 28.88 0.61947 38 22 2 0 0 0 0.021401 2 12931 12881;12931 66.457 41.057 1 431560 39727 566 25172 25255 44787;44788 44788 -0.010308821105354582 YYQHIVTTL 9 Unmodified _YYQHIVTTL_ 0 0 0 nc|ENSG00000116005|Q9UHG3-2|PCYOX1;ENSG00000116005|ENST00000433351|PCYOX1 nc|ENSG00000116005|Q9UHG3-2|PCYOX1 nc|ENSG00000116005|Q9UHG3-2|PCYOX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 569.302001953125 2 569.300581 1136.58661 3.4492 0.0019636 -0.23274 -0.0001325 3.2164 0.0018311 569.3006799143233 48.288 0.26153 48.288 48.111 48.372 0 32 14 3 0 0 0 0.010018 1 22091 22091 81.89 41.94 1 1050300 39728 2006 25173 25256 44789 44789 0.023780121317713565 YYQHIVTTL 9 Unmodified _YYQHIVTTL_ 0 0 0 nc|ENSG00000116005|Q9UHG3-2|PCYOX1;ENSG00000116005|ENST00000433351|PCYOX1 nc|ENSG00000116005|Q9UHG3-2|PCYOX1 nc|ENSG00000116005|Q9UHG3-2|PCYOX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 569.3018188476562 2 569.300581 1136.58661 3.403 0.0019374 0.4513 0.00025693 3.8544 0.0021943 569.3006765885324 47.193 0.26038 48.022 47.878 48.139 0.82915 36 15 3 0 0 0 0.010018 1 21476 21476 81.89 45.763 1 839790 39729 2006 25173 25256 44790 44790 0.023780121317713565 YYQHIVTTL 9 Unmodified _YYQHIVTTL_ 0 0 0 nc|ENSG00000116005|Q9UHG3-2|PCYOX1;ENSG00000116005|ENST00000433351|PCYOX1 nc|ENSG00000116005|Q9UHG3-2|PCYOX1 nc|ENSG00000116005|Q9UHG3-2|PCYOX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 569.3018798828125 2 569.300581 1136.58661 3.678 0.0020939 -1.1055 -0.00062934 2.5726 0.0014646 569.3004009486297 48.148 0.24208 48.41 48.289 48.531 0.26209 16 8 3 0 0 0 0.029308 1 22018 22018 56.177 20.05 1 522280 39730 2006 25173 25256 44791 44791 0.023780121317713565 YYQHIVTTL 9 Unmodified _YYQHIVTTL_ 0 0 0 nc|ENSG00000116005|Q9UHG3-2|PCYOX1;ENSG00000116005|ENST00000433351|PCYOX1 nc|ENSG00000116005|Q9UHG3-2|PCYOX1 nc|ENSG00000116005|Q9UHG3-2|PCYOX1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 569.303466796875 2 569.300581 1136.58661 3.6285 0.0020657 0.21263 0.00012105 3.8412 0.0021868 569.3007930715393 47.591 0.26674 48.245 48.09 48.356 0.65356 14 11 2 0 0 0 0.027384 1 21785 21785 58.679 34.658 1 418300 39731 2006 25173 25256 44792 44792 0.023780121317713565 YYQNYFEKL 9 Unmodified _YYQNYFEKL_ 0 0 0 nc|ENSG00000166889|Q86TB9-2|PATL1;nc|ENSG00000166889|Q86TB9-4|PATL1;ENSG00000166889|ENST00000300146|PATL1 nc|ENSG00000166889|Q86TB9-2|PATL1 nc|ENSG00000166889|Q86TB9-2|PATL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 634.3073120117188 2 634.303321 1266.59209 3.7789 0.002397 0.32767 0.00020784 4.1066 0.0026048 634.3032958750263 59.23 0.30477 59.489 59.316 59.62 0.2593 24 13 2 0 0 0 0.025135 2 27160 27088;27160 61.602 45.755 1 758890 39732 4512 25174 25257 44793;44794 44794 -0.030543090764240333 YYQNYFEKL 9 Unmodified _YYQNYFEKL_ 0 0 0 nc|ENSG00000166889|Q86TB9-2|PATL1;nc|ENSG00000166889|Q86TB9-4|PATL1;ENSG00000166889|ENST00000300146|PATL1 nc|ENSG00000166889|Q86TB9-2|PATL1 nc|ENSG00000166889|Q86TB9-2|PATL1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 634.3030395507812 2 634.303321 1266.59209 3.9366 0.002497 -0.073417 -4.6569E-05 3.8632 0.0024504 634.3030765402382 58.622 0.28397 59.289 59.153 59.437 0.66703 20 9 3 0 0 0 0.0027913 2 26816 26816;26875 96.367 78.22 1 938660 39733 4512 25174 25257 44795;44796 44795 -0.030543090764240333 YYQNYFEKL 9 Unmodified _YYQNYFEKL_ 0 0 0 nc|ENSG00000166889|Q86TB9-2|PATL1;nc|ENSG00000166889|Q86TB9-4|PATL1;ENSG00000166889|ENST00000300146|PATL1 nc|ENSG00000166889|Q86TB9-2|PATL1 nc|ENSG00000166889|Q86TB9-2|PATL1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 634.303321 1266.59209 3.6138 0.0022922 -0.96439 -0.00061171 2.6494 0.0016805 634.804627425843 59.291 0.10349 59.291 59.248 59.352 0 -0.065504 -0.0011773 NaN 96.367 11 9 2 NaN NaN NaN NaN 0 NaN NaN 0 1979500 39734 4512 25174 25257 -0.030543090764240333 YYREFHHQ 8 Unmodified _YYREFHHQ_ 0 0 0 nc|ENSG00000213199|Q9UHC3-4|ASIC3;ENSG00000213199|ENST00000349064|ASIC3;nc|ENSG00000213199|Q9UHC3-2|ASIC3;nc|ENSG00000213199|Q9UHC3-3|ASIC3 nc|ENSG00000213199|Q9UHC3-4|ASIC3 nc|ENSG00000213199|Q9UHC3-4|ASIC3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 590.272705078125 2 590.270147 1178.52574 3.6178 0.0021355 -0.27926 -0.00016484 3.3385 0.0019706 590.2693593834562 33.653 0.20526 33.907 33.84 34.045 0.25389 18 13 2 0 0 0 0.61796 1 15348 15348 12.532 0 1 149880 39735 6085 25175 25258 44797 44797 -0.05638080127801004 YYRFNDLNYRW 11 Unmodified _YYRFNDLNYRW_ 0 0 0 ENSG00000109323|ENST00000647097|MANBA;ENST00000514430.5_1_4:103612112-103682069:-|nuORF ENSG00000109323|ENST00000647097|MANBA ENSG00000109323|ENST00000647097|MANBA MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 805.3834228515625 2 805.380957 1608.74736 NaN NaN NaN NaN NaN NaN NaN 75.924 1 76.181 75.681 76.681 0.25704 0 0 0 1.008 1 34949 34949 0.30703 0.03801 1 39736 1675 25176 25259 44798 44798 -0.03266265222146103 YYRFWYPKWEM 11 Unmodified _YYRFWYPKWEM_ 0 0 0 nc|ENSG00000180481|Q4G1C9-5|GLIPR1L2;nc|ENSG00000180481|Q4G1C9-6|GLIPR1L2;ENSG00000180481|ENST00000550916|GLIPR1L2 nc|ENSG00000180481|Q4G1C9-5|GLIPR1L2 nc|ENSG00000180481|Q4G1C9-5|GLIPR1L2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.0940551757812 3 556.927112 1667.75951 2.8563 0.0015907 -0.68475 -0.00038136 2.1715 0.0012094 556.926203924558 69.561 0.036209 69.561 69.529 69.565 0 5 3 2 0 0 0 0.91489 1 33596 33596 0 0 1 5216100 39737 5253 25177 25260 44799 44799 -0.04766364803367651 YYRKQLSYF 9 Unmodified _YYRKQLSYF_ 0 0 0 nc|ENSG00000104067|Q07157-2|TJP1;nc|ENSG00000104067|Q07157|TJP1;ENSG00000104067|ENST00000614355|TJP1 nc|ENSG00000104067|Q07157-2|TJP1 nc|ENSG00000104067|Q07157-2|TJP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 423.2232666015625 3 423.220513 1266.63971 2.8181 0.0011927 -0.080728 -3.4166E-05 2.7374 0.0011585 423.2204317588378 35.978 0.21543 36.769 36.683 36.898 0.79131 12 7 2 0 0 0 0.78763 1 16307 16307 7.609 1.8255 1 212960 39738 1423 25178 25261 44800 44800 0.01705389914445732 YYRMWFERLRA 11 Unmodified _YYRMWFERLRA_ 0 0 0 REV__ENSG00000078618|ENST00000352171|NRDC REV__ENSG00000078618|ENST00000352171|NRDC MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 795.7310180664062 2 795.903545 1589.79254 NaN NaN NaN NaN NaN NaN NaN 108.22 1 108.22 107.72 108.72 0 0 0 0 1.008 1 59297 59297 0.26902 0 1 + 39739 10573 25179 25262 44801 44801 0.021232620393902835 YYRPRFFLL 9 Unmodified _YYRPRFFLL_ 0 0 0 nc|ENSG00000130816|P26358-3|DNMT1;nc|ENSG00000130816|P26358|DNMT1;ENSG00000130816|ENST00000359526|DNMT1;ENST00000586588.5_1_19:10244345-10254710:-|nuORF nc|ENSG00000130816|P26358-3|DNMT1 nc|ENSG00000130816|P26358-3|DNMT1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 425.5741271972656 3 425.572998 1273.69716 2.775 0.001181 0.43121 0.00018351 3.2062 0.0013645 425.5733964171325 69.145 0.25737 69.805 69.629 69.887 0.66005 30 17 3 0 0 0 0.55815 1 31673 31673 11.495 2.5185 1 484710 39740 2623 25180 25263 44802 44802 0.07126276910662455 YYRPRFFLL 9 Unmodified _YYRPRFFLL_ 0 0 0 nc|ENSG00000130816|P26358-3|DNMT1;nc|ENSG00000130816|P26358|DNMT1;ENSG00000130816|ENST00000359526|DNMT1;ENST00000586588.5_1_19:10244345-10254710:-|nuORF nc|ENSG00000130816|P26358-3|DNMT1 nc|ENSG00000130816|P26358-3|DNMT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 425.572998 1273.69716 2.2128 0.00094171 1.4567 0.00061992 3.6695 0.0015616 425.574077021814 69.796 0.022491 69.796 69.781 69.804 0 -0.056471 0.0013958 NaN 11.495 4 2 2 NaN NaN NaN NaN 0 NaN NaN 0 2384200 39741 2623 25180 25263 0.07126276910662455 YYRPRFFLL 9 Unmodified _YYRPRFFLL_ 0 0 0 nc|ENSG00000130816|P26358-3|DNMT1;nc|ENSG00000130816|P26358|DNMT1;ENSG00000130816|ENST00000359526|DNMT1;ENST00000586588.5_1_19:10244345-10254710:-|nuORF nc|ENSG00000130816|P26358-3|DNMT1 nc|ENSG00000130816|P26358-3|DNMT1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 425.572998 1273.69716 2.9948 0.0012745 0.23035 9.8029E-05 3.2251 0.0013725 425.5732314511248 69.702 0.2613 69.956 69.781 70.042 0.25443 0.1041 -0.0001699 NaN 11.495 30 14 3 NaN NaN NaN NaN 0 NaN NaN 0 597950 39742 2623 25180 25263 0.07126276910662455 YYRRRLENYY 10 Unmodified _YYRRRLENYY_ 0 0 0 REV__ENSG00000115423|ENST00000389394|DNAH6 REV__ENSG00000115423|ENST00000389394|DNAH6 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 748.3733520507812 2 748.375675 1494.7368 NaN NaN NaN NaN NaN NaN NaN 93.006 1 93.092 92.592 93.592 0.086212 0 0 0 1.0015 1 48627 48627 0.40072 0.093686 1 + 39743 11365 25181 25264 44803 44803 0.009217521234631931 YYRRSKRKRQF 11 Unmodified _YYRRSKRKRQF_ 0 0 0 REV__ENSG00000213780|ENST00000259895|GTF2H4 REV__ENSG00000213780|ENST00000259895|GTF2H4 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 530.0491943359375 3 529.970814 1586.89061 NaN NaN NaN NaN NaN NaN NaN 16.936 1 17.596 17.096 18.096 0.66072 0 0 0 1.0082 1 7636 7636 0 0 1 + 39744 14501 25182 25265 44804 44804 0.12064206679588096 YYRRTYRRERY 11 Unmodified _YYRRTYRRERY_ 0 0 0 REV__RSRP1|p.G99_F100del|1|0.38|ENSG00000117616|chr1:25246664-25246669|GAACCC/-|inframe_deletion REV__RSRP1|p.G99_F100del|1|0.38|ENSG00000117616|chr1:25246664-25246669|GAACCC/-|inframe_deletion MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 841.4363403320312 2 841.437129 1680.85971 NaN NaN NaN NaN NaN NaN NaN 95.949 1 95.949 95.449 96.449 0 0 0 0 1.0082 1 51811 51811 0 0 1 + 39745 18207 25183 25266 44805 44805 0.046510085746831464 YYRYFQERWLF 11 Unmodified _YYRYFQERWLF_ 0 0 0 REV__nc|ENSG00000159069|Q969U6-2|FBXW5 REV__nc|ENSG00000159069|Q969U6-2|FBXW5 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 557.1853637695312 3 557.608659 1669.80415 NaN NaN NaN NaN NaN NaN NaN 76.268 1 76.932 76.432 77.432 0.66387 0 0 0 1.008 1 35135 35135 0.094841 0 1 + 39746 12840 25184 25267 44806 44806 -0.003962176656386873 YYSHLEGARF 10 Unmodified _YYSHLEGARF_ 0 0 0 ENSG00000142207|ENST00000382751|URB1 ENSG00000142207|ENST00000382751|URB1 ENSG00000142207|ENST00000382751|URB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 414.8696594238281 3 414.86825 1241.58292 2.5551 0.00106 0.37921 0.00015732 2.9343 0.0012173 415.20269163216267 35.198 0.23569 35.198 35.068 35.304 0 24 20 2 0 0 0 0.33566 2 15980 15935;15980 19.144 13.361 1 2759300 39747 3302 25185 25268 44807;44808 44808 -0.028206576420870988 YYSHLEGARF 10 Unmodified _YYSHLEGARF_ 0 0 0 ENSG00000142207|ENST00000382751|URB1 ENSG00000142207|ENST00000382751|URB1 ENSG00000142207|ENST00000382751|URB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 415.203857421875 3 414.86825 1241.58292 2.4734 0.0010261 0.29571 0.00012268 2.7691 0.0011488 414.8682914347314 34.102 0.28523 34.891 34.751 35.036 0.78921 38 16 3 0 0 0 0.05298 2 15435 15435;15485 46.475 40.607 1 916810 39748 3302 25185 25268 44809;44810 44809 -0.028206576420870988 YYSHLEGARF 10 Unmodified _YYSHLEGARF_ 0 0 0 ENSG00000142207|ENST00000382751|URB1 ENSG00000142207|ENST00000382751|URB1 ENSG00000142207|ENST00000382751|URB1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 415.20379638671875 3 414.86825 1241.58292 2.9104 0.0012075 0.033564 1.3925E-05 2.944 0.0012214 415.2027080858692 35.19 0.25497 35.445 35.339 35.594 0.25524 20 11 2 0 0 0 0.45881 1 16044 16044 15.538 9.755 1 575160 39749 3302 25185 25268 44811 44811 -0.028206576420870988 YYSPHGHIL 9 Unmodified _YYSPHGHIL_ 0 0 0 nc|ENSG00000144895|Q9BY44-2|EIF2A;nc|ENSG00000144895|Q9BY44-4|EIF2A;nc|ENSG00000144895|Q9BY44-3|EIF2A;ENSG00000144895|ENST00000460851|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 362.85162353515625 3 362.85042 1085.52943 2.4918 0.00090414 0.41928 0.00015214 2.911 0.0010563 362.85054150533097 29.717 0.25778 30.507 30.406 30.664 0.78921 33 23 2 0 0 0 0.059819 1 13405 13405 30.637 24.905 1 1575400 39750 3451 25186 25269 44812 44812 -0.009914103539585994 YYSPHGHIL 9 Unmodified _YYSPHGHIL_ 0 0 0 nc|ENSG00000144895|Q9BY44-2|EIF2A;nc|ENSG00000144895|Q9BY44-4|EIF2A;nc|ENSG00000144895|Q9BY44-3|EIF2A;ENSG00000144895|ENST00000460851|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 3 362.85042 1085.52943 2.8627 0.0010387 0.17577 6.3777E-05 3.0384 0.0011025 362.8504825678521 30.83 0.29398 30.83 30.633 30.927 0 0.08734 -0.00017338 NaN 30.637 42 25 2 NaN NaN NaN NaN 0 NaN NaN 0 1954500 39751 3451 25186 25269 -0.009914103539585994 YYSPHGHIL 9 Unmodified _YYSPHGHIL_ 0 0 0 nc|ENSG00000144895|Q9BY44-2|EIF2A;nc|ENSG00000144895|Q9BY44-4|EIF2A;nc|ENSG00000144895|Q9BY44-3|EIF2A;ENSG00000144895|ENST00000460851|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 3 362.85042 1085.52943 3.0013 0.001089 0.39253 0.00014243 3.3938 0.0012315 362.85050309124557 30.527 0.4095 30.783 30.589 30.999 0.25614 0.040076 6.2568E-05 NaN 30.637 53 25 3 NaN NaN NaN NaN 0 NaN NaN 0 788160 39752 3451 25186 25269 -0.009914103539585994 YYSPHGHIL 9 Unmodified _YYSPHGHIL_ 0 0 0 nc|ENSG00000144895|Q9BY44-2|EIF2A;nc|ENSG00000144895|Q9BY44-4|EIF2A;nc|ENSG00000144895|Q9BY44-3|EIF2A;ENSG00000144895|ENST00000460851|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 362.85042 1085.52943 2.5793 0.0009359 0.2533 9.1908E-05 2.8326 0.0010278 362.8505333992536 30.235 0.21896 30.852 30.733 30.952 0.61737 0.10901 -8.899E-05 NaN 30.637 17 9 2 NaN NaN NaN NaN 0 NaN NaN 0 643020 39753 3451 25186 25269 -0.009914103539585994 YYSPHGHILVL 11 Unmodified _YYSPHGHILVL_ 0 0 0 nc|ENSG00000144895|Q9BY44-2|EIF2A;nc|ENSG00000144895|Q9BY44-4|EIF2A;nc|ENSG00000144895|Q9BY44-3|EIF2A;ENSG00000144895|ENST00000460851|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 649.8516235351562 2 649.84823 1297.68191 3.7963 0.002467 -0.0016675 -1.0836E-06 3.7947 0.002466 649.8484053832025 50.631 0.21709 50.631 50.485 50.702 0 21 12 2 0 0 0 0.0018346 1 23161 23161 85.642 69.492 1 1758700 39754 3451 25187 25270 44813 44813 0.04497365322799851 YYSPHGHILVL 11 Unmodified _YYSPHGHILVL_ 0 0 0 nc|ENSG00000144895|Q9BY44-2|EIF2A;nc|ENSG00000144895|Q9BY44-4|EIF2A;nc|ENSG00000144895|Q9BY44-3|EIF2A;ENSG00000144895|ENST00000460851|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 433.90325927734375 3 433.567912 1297.68191 3.022 0.0013102 -0.13574 -5.8853E-05 2.8862 0.0012514 433.5677899197091 50.651 0.27233 50.651 50.461 50.733 0 47 16 4 0 0 0 0.23529 1 23165 23165 27.088 12.87 1 4834100 39755 3451 25187 25270 44814 44814 0.04497365322799851 YYSPHGHILVL 11 Unmodified _YYSPHGHILVL_ 0 0 0 nc|ENSG00000144895|Q9BY44-2|EIF2A;nc|ENSG00000144895|Q9BY44-4|EIF2A;nc|ENSG00000144895|Q9BY44-3|EIF2A;ENSG00000144895|ENST00000460851|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 433.5686340332031 3 433.567912 1297.68191 2.8551 0.0012379 -0.4383 -0.00019003 2.4168 0.0010478 433.5676463145093 49.677 0.42518 50.5 50.248 50.674 0.82285 59 23 3 0 0 0 0.088834 3 22625 22575;22625;22671 44.392 31.536 1 4145300 39756 3451 25187 25270 44815;44816;44817 44816 0.04497365322799851 YYSPHGHILVL 11 Unmodified _YYSPHGHILVL_ 0 0 0 nc|ENSG00000144895|Q9BY44-2|EIF2A;nc|ENSG00000144895|Q9BY44-4|EIF2A;nc|ENSG00000144895|Q9BY44-3|EIF2A;ENSG00000144895|ENST00000460851|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 649.8518676757812 2 649.84823 1297.68191 3.7399 0.0024304 0.36583 0.00023773 4.1058 0.0026681 649.8487122307504 49.646 0.22756 50.469 50.337 50.565 0.82285 21 13 2 0 0 0 0.059527 2 22605 22605;22659 62.573 50.332 1 1021100 39757 3451 25187 25270 44818;44819 44818 0.04497365322799851 YYSPHGHILVL 11 Unmodified _YYSPHGHILVL_ 0 0 0 nc|ENSG00000144895|Q9BY44-2|EIF2A;nc|ENSG00000144895|Q9BY44-4|EIF2A;nc|ENSG00000144895|Q9BY44-3|EIF2A;ENSG00000144895|ENST00000460851|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 433.5693664550781 3 433.567912 1297.68191 2.8204 0.0012228 -0.21301 -9.2355E-05 2.6073 0.0011305 433.56768918313827 50.374 0.2952 50.636 50.464 50.76 0.26146 36 13 4 0 0 0 0.12524 2 23009 23009;23058 37.771 22.933 1 3120500 39758 3451 25187 25270 44820;44821 44820 0.04497365322799851 YYSPHGHILVL 11 Unmodified _YYSPHGHILVL_ 0 0 0 nc|ENSG00000144895|Q9BY44-2|EIF2A;nc|ENSG00000144895|Q9BY44-4|EIF2A;nc|ENSG00000144895|Q9BY44-3|EIF2A;ENSG00000144895|ENST00000460851|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 649.8499755859375 2 649.84823 1297.68191 3.6994 0.0024041 -0.3419 -0.00022219 3.3575 0.0021819 649.8479613031892 50.378 0.21931 50.639 50.464 50.684 0.26146 12 7 2 0 0 0 0.023497 1 23015 23015 71.922 54.48 1 814480 39759 3451 25187 25270 44822 44822 0.04497365322799851 YYSPHGHILVL 11 Unmodified _YYSPHGHILVL_ 0 0 0 nc|ENSG00000144895|Q9BY44-2|EIF2A;nc|ENSG00000144895|Q9BY44-4|EIF2A;nc|ENSG00000144895|Q9BY44-3|EIF2A;ENSG00000144895|ENST00000460851|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 649.8510131835938 2 649.84823 1297.68191 3.9515 0.0025679 0.28563 0.00018562 4.2371 0.0027535 650.3500743690788 49.699 0.22931 50.356 50.222 50.451 0.65735 12 8 2 0 0 0 0.0077485 1 22731 22731 65.235 42.499 1 929020 39760 3451 25187 25270 44823 44823 0.04497365322799851 YYSPHGHILVL 11 Unmodified _YYSPHGHILVL_ 0 0 0 nc|ENSG00000144895|Q9BY44-2|EIF2A;nc|ENSG00000144895|Q9BY44-4|EIF2A;nc|ENSG00000144895|Q9BY44-3|EIF2A;ENSG00000144895|ENST00000460851|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A nc|ENSG00000144895|Q9BY44-2|EIF2A MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 433.5690002441406 3 433.567912 1297.68191 3.073 0.0013323 -0.38449 -0.0001667 2.6885 0.0011656 433.5676158057397 49.705 0.31104 50.363 50.196 50.507 0.65735 29 12 3 0 0 0 0.15902 1 22736 22736 31.636 14.587 1 3393600 39761 3451 25187 25270 44824 44824 0.04497365322799851 YYSYLLKNHLD 11 Unmodified _YYSYLLKNHLD_ 0 0 0 nc|ENSG00000171862|P60484-2|PTEN;PTEN|p.R189Kfs*7|1|0.16|ENSG00000171862|chr10:87952169-87952170|-/TAAAGAATCATCTGGATTA|frameshift_variant;PTEN|p.K197Qfs*5|1|0.23|ENSG00000171862|chr10:87952212-87952213|-/C|frameshift_variant;ENSG00000171862|ENST00000371953|PTEN nc|ENSG00000171862|P60484-2|PTEN nc|ENSG00000171862|P60484-2|PTEN MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 714.8613891601562 2 714.861534 1427.70852 NaN NaN NaN NaN NaN NaN NaN 102.5 1 103.1 102.6 103.6 0.59759 0 0 0 1.0073 1 47440 47440 1.1933 0 1 39762 9754 25188 25271 44825 44825 0.011770094234634598 YYTDIMHTL 9 Oxidation (M) _YYTDIM(Oxidation (M))HTL_ YYTDIM(1)HTL YYTDIM(71)HTL 0 0 1 ENSG00000196576|ENST00000359337|PLXNB2;ENST00000479701.5_1_22:50714135-50720918:-|nuORF ENSG00000196576|ENST00000359337|PLXNB2 ENSG00000196576|ENST00000359337|PLXNB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 586.770263671875 2 586.768257 1171.52196 3.3537 0.0019678 2.3301 0.0013672 5.6837 0.003335 586.7694079517026 46.527 0.17246 46.527 46.448 46.62 0 12 7 2 0 0 0 0.017868 1 21305 21305 71.134 44.25 1 648410 39763 5758 25189 25272 44826 44826 74 -0.056939307365382774 YYTDIMHTL 9 Oxidation (M) _YYTDIM(Oxidation (M))HTL_ YYTDIM(1)HTL YYTDIM(82)HTL 0 0 1 ENSG00000196576|ENST00000359337|PLXNB2;ENST00000479701.5_1_22:50714135-50720918:-|nuORF ENSG00000196576|ENST00000359337|PLXNB2 ENSG00000196576|ENST00000359337|PLXNB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 586.7717895507812 2 586.768257 1171.52196 3.6319 0.0021311 0.73637 0.00043208 4.3682 0.0025631 586.7685973224579 46.483 0.24186 46.749 46.568 46.809 0.26561 12 8 2 0 0 0 0.010221 1 21222 21222 81.613 41.656 1 312560 39764 5758 25189 25272 44827 44827 74 -0.056939307365382774 YYTDIMHTL 9 Oxidation (M) _YYTDIM(Oxidation (M))HTL_ 0 0 1 ENSG00000196576|ENST00000359337|PLXNB2;ENST00000479701.5_1_22:50714135-50720918:-|nuORF ENSG00000196576|ENST00000359337|PLXNB2 ENSG00000196576|ENST00000359337|PLXNB2 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 2 586.768257 1171.52196 3.2592 0.0019124 -0.11364 -6.668E-05 3.1456 0.0018457 586.7690829767822 45.918 0.15302 46.744 46.712 46.865 0.82621 0.10552 -0.001329 NaN 81.613 10 6 2 NaN NaN NaN NaN 0 NaN NaN 0 614500 39765 5758 25189 25272 74 -0.056939307365382774 YYTDIMHTL 9 Unmodified _YYTDIMHTL_ 0 0 0 ENSG00000196576|ENST00000359337|PLXNB2;ENST00000479701.5_1_22:50714135-50720918:-|nuORF ENSG00000196576|ENST00000359337|PLXNB2 ENSG00000196576|ENST00000359337|PLXNB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 578.7713012695312 2 578.7708 1155.52705 3.1175 0.0018043 -0.012674 -7.3354E-06 3.1048 0.001797 578.7708685764586 64.607 0.17009 64.607 64.529 64.699 0 39 26 2 0 0 0 0.015468 1 30625 30625 74.423 52.676 1 10306000 39766 5758 25189 25273 44828 44828 -0.044496268739294464 YYTDIMHTL 9 Unmodified _YYTDIMHTL_ 0 0 0 ENSG00000196576|ENST00000359337|PLXNB2;ENST00000479701.5_1_22:50714135-50720918:-|nuORF ENSG00000196576|ENST00000359337|PLXNB2 ENSG00000196576|ENST00000359337|PLXNB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 578.7716674804688 2 578.7708 1155.52705 2.839 0.0016432 -0.4697 -0.00027185 2.3693 0.0013713 578.7705546242886 63.437 0.21993 64.16 64.047 64.266 0.72236 43 27 2 0 0 0 0.0080831 1 29731 29731 85.357 49.313 1 8232900 39767 5758 25189 25273 44829 44829 -0.044496268739294464 YYTDIMHTL 9 Unmodified _YYTDIMHTL_ 0 0 0 ENSG00000196576|ENST00000359337|PLXNB2;ENST00000479701.5_1_22:50714135-50720918:-|nuORF ENSG00000196576|ENST00000359337|PLXNB2 ENSG00000196576|ENST00000359337|PLXNB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 578.7724609375 2 578.7708 1155.52705 3.269 0.001892 -0.088622 -5.1292E-05 3.1804 0.0018407 578.7709608801954 64.36 0.32728 64.608 64.41 64.737 0.24803 52 19 3 0 0 0 0.0010612 3 29477 29428;29477;29526 125.62 62.972 1 6157900 39768 5758 25189 25273 44830;44831;44832 44831 -0.044496268739294464 YYTDIMHTL 9 Unmodified _YYTDIMHTL_ 0 0 0 ENSG00000196576|ENST00000359337|PLXNB2;ENST00000479701.5_1_22:50714135-50720918:-|nuORF ENSG00000196576|ENST00000359337|PLXNB2 ENSG00000196576|ENST00000359337|PLXNB2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 578.773193359375 2 578.7708 1155.52705 3.6621 0.0021195 -0.16641 -9.6311E-05 3.4957 0.0020232 578.7707122480115 63.809 0.37463 64.466 64.252 64.627 0.65672 73 26 4 0 0 0 3.2716E-05 3 29244 29195;29244;29294 139.54 75.308 1 4632300 39769 5758 25189 25273 44833;44834;44835 44834 -0.044496268739294464 YYTEFPTVL 9 Unmodified _YYTEFPTVL_ 0 0 0 ENST00000457761.6_1_2:172821936-172844354:+|nuORF;nc|ENSG00000128708|O14929-2|HAT1;ENSG00000128708|ENST00000264108|HAT1 ENST00000457761.6_1_2:172821936-172844354:+|nuORF ENST00000457761.6_1_2:172821936-172844354:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 566.78271484375 2 566.78169 1131.54883 3.4787 0.0019717 -0.01389 -7.8728E-06 3.4648 0.0019638 566.7814804723478 82.904 0.13055 83.151 83.088 83.218 0.24722 9 6 2 0 0 0 0.035095 1 38172 38172 53.576 35.429 1 555470 39770 2524 25190 25274 44836 44836 -0.011684988537126628 YYTEFPTVL 9 Unmodified _YYTEFPTVL_ 0 0 0 ENST00000457761.6_1_2:172821936-172844354:+|nuORF;nc|ENSG00000128708|O14929-2|HAT1;ENSG00000128708|ENST00000264108|HAT1 ENST00000457761.6_1_2:172821936-172844354:+|nuORF ENST00000457761.6_1_2:172821936-172844354:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 566.7840576171875 2 566.78169 1131.54883 3.7109 0.0021033 1.6069 0.00091075 5.3178 0.003014 566.7822410098876 82.301 0.27753 82.961 82.795 83.073 0.66019 22 15 3 0 0 0 0.035095 1 37921 37921 53.576 29.555 1 563990 39771 2524 25190 25274 44837 44837 -0.011684988537126628 YYTKGFALL 9 Unmodified _YYTKGFALL_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2 nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 538.2960205078125 2 538.294768 1074.57498 2.6112 0.0014056 0.42097 0.0002266 3.0321 0.0016322 538.2947934575704 65.998 0.30953 65.998 65.827 66.137 0 109 43 3 0 0 0 0.001377 3 31476 31398;31476;31536 114.65 62.381 1 29414000 39772 3765 25191 25275 44838;44839;44840 44839 0.04067815108442119 YYTKGFALL 9 Unmodified _YYTKGFALL_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2 nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 538.2968139648438 2 538.294768 1074.57498 2.5073 0.0013497 0.24397 0.00013133 2.7513 0.001481 538.2948838548917 64.815 0.317 65.53 65.355 65.672 0.71521 126 39 4 0 0 0 0.0013314 3 30525 30481;30525;30572 118.07 76.113 1 30363000 39773 3765 25191 25275 44841;44842;44843 44842 0.04067815108442119 YYTKGFALL 9 Unmodified _YYTKGFALL_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2 nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 538.296630859375 2 538.294768 1074.57498 3.2486 0.0017487 0.3072 0.00016537 3.5558 0.0019141 538.2948734618051 65.83 0.44919 66.079 65.882 66.331 0.24847 84 24 5 0 0 0 0.0013314 3 30157 30105;30157;30203 118.07 74.21 1 17134000 39774 3765 25191 25275 44844;44845;44846 44845 0.04067815108442119 YYTKGFALL 9 Unmodified _YYTKGFALL_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2 nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 538.2964477539062 2 538.294768 1074.57498 3.3917 0.0018258 -0.0077672 -4.181E-06 3.384 0.0018216 538.2946803290768 65.217 0.45966 65.874 65.616 66.076 0.65672 92 28 4 0 0 0 0.001731 4 29918 29819;29867;29918;29968 106.94 63.168 1 19782000 39775 3765 25191 25275 44847;44848;44849;44850 44849 0.04067815108442119 YYTKGFALLNF 11 Unmodified _YYTKGFALLNF_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2 nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 669.35400390625 2 668.850438 1335.68632 2.9964 0.0020042 0.29593 0.00019793 3.2924 0.0022021 668.85039470206 81.143 0.18605 81.312 81.233 81.419 0.16862 27 16 2 0 0 0 0.15681 1 39839 39839 32.037 14.925 1 8961900 39776 3765 25192 25276 44851 44851 0.031908297457221124 YYTKGFALLNF 11 Unmodified _YYTKGFALLNF_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2 nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 668.8531494140625 2 668.850438 1335.68632 3.6586 0.0024471 0.25894 0.00017319 3.9176 0.0026203 668.8506728020944 82.336 0.28113 82.583 82.426 82.707 0.24722 56 17 4 0 0 0 1.0062E-14 3 37896 37849;37896;37954 124.95 98.685 1 3778200 39777 3765 25192 25276 44852;44853;44854 44853 0.031908297457221124 YYTKGFALLNF 11 Unmodified _YYTKGFALLNF_ 0 0 0 nc|ENSG00000152952|O00469|PLOD2;ENSG00000152952|ENST00000282903|PLOD2;nc|ENSG00000152952|O00469-3|PLOD2 nc|ENSG00000152952|O00469|PLOD2 nc|ENSG00000152952|O00469|PLOD2 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 668.8533325195312 2 668.850438 1335.68632 4.0576 0.0027139 0.17228 0.00011523 4.2298 0.0028291 668.8503323765073 81.656 0.31533 82.316 82.137 82.452 0.65998 92 28 4 0 0 0 2.6166E-25 3 37626 37577;37626;37672 150.62 117.83 1 3510900 39778 3765 25192 25276 44855;44856;44857 44856 0.031908297457221124 YYTPITPHL 9 Unmodified _YYTPITPHL_ 0 0 0 nc|ENSG00000119314|O95758-7|PTBP3;nc|ENSG00000119314|O95758-1|PTBP3;ENSG00000119314|ENST00000374257|PTBP3;nc|ENSG00000119314|O95758-2|PTBP3;nc|ENSG00000119314|O95758|PTBP3;nc|ENSG00000119314|O95758-5|PTBP3;nc|ENSG00000119314|O95758-4|PTBP3 nc|ENSG00000119314|O95758-7|PTBP3 nc|ENSG00000119314|O95758-7|PTBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 552.7926635742188 2 552.78985 1103.56515 3.574 0.0019757 -0.18091 -0.00010001 3.3931 0.0018757 552.7896945119444 57.979 0.35306 57.979 57.814 58.167 0 80 34 3 0 0 0 0.0022375 2 26703 26703;26757 101.72 71.085 1 1946600 39779 2137 25193 25277 44858;44859 44858 0.01750627103047009 YYTPITPHL 9 Unmodified _YYTPITPHL_ 0 0 0 nc|ENSG00000119314|O95758-7|PTBP3;nc|ENSG00000119314|O95758-1|PTBP3;ENSG00000119314|ENST00000374257|PTBP3;nc|ENSG00000119314|O95758-2|PTBP3;nc|ENSG00000119314|O95758|PTBP3;nc|ENSG00000119314|O95758-5|PTBP3;nc|ENSG00000119314|O95758-4|PTBP3 nc|ENSG00000119314|O95758-7|PTBP3 nc|ENSG00000119314|O95758-7|PTBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 552.7925415039062 2 552.78985 1103.56515 3.0109 0.0016644 0.012772 7.06E-06 3.0237 0.0016715 552.7896918758496 57.058 0.28254 57.836 57.686 57.968 0.77786 43 24 2 0 0 0 0.0061269 1 26063 26063 89.427 58.79 1 1455200 39780 2137 25193 25277 44860 44860 0.01750627103047009 YYTPITPHL 9 Unmodified _YYTPITPHL_ 0 0 0 nc|ENSG00000119314|O95758-7|PTBP3;nc|ENSG00000119314|O95758-1|PTBP3;ENSG00000119314|ENST00000374257|PTBP3;nc|ENSG00000119314|O95758-2|PTBP3;nc|ENSG00000119314|O95758|PTBP3;nc|ENSG00000119314|O95758-5|PTBP3;nc|ENSG00000119314|O95758-4|PTBP3 nc|ENSG00000119314|O95758-7|PTBP3 nc|ENSG00000119314|O95758-7|PTBP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 552.7913818359375 2 552.78985 1103.56515 3.5907 0.0019849 0.29461 0.00016286 3.8853 0.0021478 552.7899287719957 57.088 0.34806 57.756 57.551 57.899 0.66829 26 15 2 0 0 0 0.0061269 1 26134 26134 89.427 58.79 1 1290500 39781 2137 25193 25277 44861 44861 0.01750627103047009 YYTPITPHL 9 Unmodified _YYTPITPHL_ 0 0 0 nc|ENSG00000119314|O95758-7|PTBP3;nc|ENSG00000119314|O95758-1|PTBP3;ENSG00000119314|ENST00000374257|PTBP3;nc|ENSG00000119314|O95758-2|PTBP3;nc|ENSG00000119314|O95758|PTBP3;nc|ENSG00000119314|O95758-5|PTBP3;nc|ENSG00000119314|O95758-4|PTBP3 nc|ENSG00000119314|O95758-7|PTBP3 nc|ENSG00000119314|O95758-7|PTBP3 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 2 552.78985 1103.56515 3.5125 0.0019417 0.33535 0.00018538 3.8479 0.0021271 552.7899796147242 57.596 0.34614 57.86 57.723 58.069 0.26443 0.0022242 0.00027259 NaN 101.72 48 20 3 NaN NaN NaN NaN 0 NaN NaN 0 1134500 39782 2137 25193 25277 0.01750627103047009 YYVGGEIVTI 10 Unmodified _YYVGGEIVTI_ 0 0 0 nc|ENSG00000184432|P35606-2|COPB2;ENSG00000184432|ENST00000333188|COPB2 nc|ENSG00000184432|P35606-2|COPB2 nc|ENSG00000184432|P35606-2|COPB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 557.2944946289062 2 557.294965 1112.57538 NaN NaN NaN NaN NaN NaN NaN 75.345 1 75.345 74.845 75.845 0 0 0 0 0.27696 1 36918 36918 39.957 10.876 1 39783 5440 25194 25278 44862 44862 0.023591900376231933 YYVGGEIVTI 10 Unmodified _YYVGGEIVTI_ 0 0 0 nc|ENSG00000184432|P35606-2|COPB2;ENSG00000184432|ENST00000333188|COPB2 nc|ENSG00000184432|P35606-2|COPB2 nc|ENSG00000184432|P35606-2|COPB2 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 557.2987670898438 2 557.294965 1112.57538 NaN NaN NaN NaN NaN NaN NaN 75.079 1 75.337 74.837 75.837 0.25831 0 0 0 0.96627 1 34537 34537 10.824 0 1 39784 5440 25194 25278 44863 44863 0.023591900376231933 YYVHKGIWL 9 Unmodified _YYVHKGIWL_ 0 0 0 ENSG00000173198|ENST00000373304|CYSLTR1 ENSG00000173198|ENST00000373304|CYSLTR1 ENSG00000173198|ENST00000373304|CYSLTR1 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 589.8209838867188 2 589.821484 1177.62842 NaN NaN NaN NaN NaN NaN NaN 54.574 1 55.37 54.87 55.87 0.79552 0 0 0 0.90511 1 24902 24902 2.3027 0 1 39785 4918 25195 25279 44864 44864 0.0467061261094841 YYVIVVTL 8 Unmodified _YYVIVVTL_ 0 0 0 REV__ENSG00000198674|ENST00000307002|OR10G6 REV__ENSG00000198674|ENST00000307002|OR10G6 MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 485.28961181640625 2 485.286411 968.55827 NaN NaN NaN NaN NaN NaN NaN 62.857 1 63.515 63.015 64.015 0.65808 0 0 0 0.99035 1 28804 28804 2.8892 0 1 + 39786 14347 25196 25280 44865 44865 0.07273314222470617 YYVRAVLHL 9 Unmodified _YYVRAVLHL_ 0 0 0 ENSG00000051523|ENST00000261623|CYBA;ENST00000566534.5_1_16:88713161-88717421:-|nuORF ENSG00000051523|ENST00000261623|CYBA ENSG00000051523|ENST00000261623|CYBA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 567.3292236328125 2 567.326934 1132.63931 3.5084 0.0019904 0.12892 7.3141E-05 3.6373 0.0020636 567.3269288400959 53.046 0.27137 53.046 52.895 53.167 0 37 14 3 0 0 0 0.00097604 2 24302 24257;24302 117.6 81.555 1 1645100 39787 589 25197 25281 44866;44867 44867 0.07830014985233902 YYVRAVLHL 9 Unmodified _YYVRAVLHL_ 0 0 0 ENSG00000051523|ENST00000261623|CYBA;ENST00000566534.5_1_16:88713161-88717421:-|nuORF ENSG00000051523|ENST00000261623|CYBA ENSG00000051523|ENST00000261623|CYBA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 378.5546569824219 3 378.553715 1132.63931 2.8797 0.0010901 -0.16581 -6.277E-05 2.7138 0.0010273 378.5535867472967 53.037 0.27137 53.037 52.895 53.167 0 35 14 3 0 0 0 0.10584 1 24298 24298 31.268 10.854 1 1736100 39788 589 25197 25281 44868 44868 0.07830014985233902 YYVRAVLHL 9 Unmodified _YYVRAVLHL_ 0 0 0 ENSG00000051523|ENST00000261623|CYBA;ENST00000566534.5_1_16:88713161-88717421:-|nuORF ENSG00000051523|ENST00000261623|CYBA ENSG00000051523|ENST00000261623|CYBA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 567.3287963867188 2 567.326934 1132.63931 2.991 0.0016969 0.038216 2.1681E-05 3.0292 0.0017186 567.3270409443678 51.941 0.27156 52.752 52.622 52.893 0.81065 47 19 3 0 0 0 0.0095519 2 23684 23639;23684 81.613 53.126 1 1598400 39789 589 25197 25281 44869;44870 44870 0.07830014985233902 YYVRAVLHL 9 Unmodified _YYVRAVLHL_ 0 0 0 ENSG00000051523|ENST00000261623|CYBA;ENST00000566534.5_1_16:88713161-88717421:-|nuORF ENSG00000051523|ENST00000261623|CYBA ENSG00000051523|ENST00000261623|CYBA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 567.3292236328125 2 567.326934 1132.63931 3.5927 0.0020382 0.49367 0.00028007 4.0864 0.0023183 567.3273049685915 52.631 0.25315 52.895 52.8 53.053 0.26345 17 9 3 0 0 0 0.069974 2 24071 24031;24071 52.268 20.151 1 887460 39790 589 25197 25281 44871;44872 44872 0.07830014985233902 YYVRAVLHL 9 Unmodified _YYVRAVLHL_ 0 0 0 ENSG00000051523|ENST00000261623|CYBA;ENST00000566534.5_1_16:88713161-88717421:-|nuORF ENSG00000051523|ENST00000261623|CYBA ENSG00000051523|ENST00000261623|CYBA MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 567.3292236328125 2 567.326934 1132.63931 3.4095 0.0019343 0.21241 0.00012051 3.6219 0.0020548 567.3269833878652 52.237 0.24783 52.899 52.778 53.026 0.66198 21 10 3 0 0 0 0.044468 1 23876 23876 54.774 14.325 1 642660 39791 589 25197 25281 44873 44873 0.07830014985233902 YYVRAVLHL 9 Unmodified _YYVRAVLHL_ 0 0 0 ENSG00000051523|ENST00000261623|CYBA;ENST00000566534.5_1_16:88713161-88717421:-|nuORF ENSG00000051523|ENST00000261623|CYBA ENSG00000051523|ENST00000261623|CYBA MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 3 378.553715 1132.63931 1.9608 0.00074228 0.50051 0.00018947 2.4613 0.00093175 378.5537763138493 51.926 0.27156 52.737 52.622 52.893 0.81065 -0.16314 0.00050742 NaN 31.268 43 19 3 NaN NaN NaN NaN 0 NaN NaN 0 1633400 39792 589 25197 25281 0.07830014985233902 YYVRAVLHL 9 Unmodified _YYVRAVLHL_ 0 0 0 ENSG00000051523|ENST00000261623|CYBA;ENST00000566534.5_1_16:88713161-88717421:-|nuORF ENSG00000051523|ENST00000261623|CYBA ENSG00000051523|ENST00000261623|CYBA MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 378.553715 1132.63931 2.5294 0.00095753 0.24804 9.3897E-05 2.7775 0.0010514 378.5537920882814 52.234 0.24783 52.896 52.778 53.026 0.66198 -0.0039981 0.0002207 NaN 31.268 25 10 3 NaN NaN NaN NaN 0 NaN NaN 0 571550 39793 589 25197 25281 0.07830014985233902 YYVRILSTI 9 Unmodified _YYVRILSTI_ 0 0 0 ENST00000596386.1_1_19:40477100-40485896:+|nuORF;ENST00000593455.5_1_19:40477100-40486089:+|nuORF;nc|ENSG00000013275|P43686-2|PSMC4;ENSG00000013275|ENST00000157812|PSMC4;ENST00000601697.5_1_19:40477100-40486546:+|nuORF ENST00000596386.1_1_19:40477100-40485896:+|nuORF ENST00000596386.1_1_19:40477100-40485896:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 564.3278198242188 2 564.326599 1126.63865 3.823 0.0021574 2.5165 0.0014201 6.3395 0.0035776 564.3286475265808 67.86 0.16373 68.113 68.01 68.174 0.25227 28 10 3 0 0 0 0.011692 1 31073 31073 79.596 35.738 1 686130 39794 428 25198 25282 44874 44874 0.08039175545536636 YYVRILSTI 9 Unmodified _YYVRILSTI_ 0 0 0 ENST00000596386.1_1_19:40477100-40485896:+|nuORF;ENST00000593455.5_1_19:40477100-40486089:+|nuORF;nc|ENSG00000013275|P43686-2|PSMC4;ENSG00000013275|ENST00000157812|PSMC4;ENST00000601697.5_1_19:40477100-40486546:+|nuORF ENST00000596386.1_1_19:40477100-40485896:+|nuORF ENST00000596386.1_1_19:40477100-40485896:+|nuORF MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 564.328125 2 564.326599 1126.63865 3.5528 0.0020049 1.5075 0.00085071 5.0603 0.0028557 564.3273193697786 67.263 0.21899 67.921 67.779 67.998 0.65778 25 12 3 0 0 0 0.018453 1 30856 30856 70.332 34.205 1 434960 39795 428 25198 25282 44875 44875 0.08039175545536636 YYVRILSTI 9 Unmodified _YYVRILSTI_ 0 0 0 ENST00000596386.1_1_19:40477100-40485896:+|nuORF;ENST00000593455.5_1_19:40477100-40486089:+|nuORF;nc|ENSG00000013275|P43686-2|PSMC4;ENSG00000013275|ENST00000157812|PSMC4;ENST00000601697.5_1_19:40477100-40486546:+|nuORF ENST00000596386.1_1_19:40477100-40485896:+|nuORF ENST00000596386.1_1_19:40477100-40485896:+|nuORF MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 2 564.326599 1126.63865 2.8167 0.0015895 0.034048 1.9214E-05 2.8507 0.0016087 564.3259329765654 68.016 0.047096 68.016 67.995 68.042 0 -0.00070478 -0.0019181 NaN 79.596 6 4 2 NaN NaN NaN NaN 0 NaN NaN 0 1172900 39796 428 25198 25282 0.08039175545536636 YYVTELTHRI 10 Unmodified _YYVTELTHRI_ 0 0 0 ENSG00000117228|ENST00000370473|GBP1;ENST00000459831.1_1_1:89524386-89525013:-|nuORF;nc|ENSG00000117226|Q9H0R5-4|GBP3;ENSG00000117226|ENST00000370481|GBP3;ENST00000370482.6_1_1:89479706-89486410:-|nuORF ENSG00000117228|ENST00000370473|GBP1 ENSG00000117228|ENST00000370473|GBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 647.8456420898438 2 647.843145 1293.67174 3.9743 0.0025747 0.11277 7.3054E-05 4.087 0.0026478 647.8431357088392 46.99 0.33206 47.254 47.066 47.398 0.26363 21 10 3 0 0 0 0.019986 1 21488 21488 71.708 38.922 1 1048000 39797 2064 25199 25283 44876 44876 0.036647575975621294 YYVTELTHRI 10 Unmodified _YYVTELTHRI_ 0 0 0 ENSG00000117228|ENST00000370473|GBP1;ENST00000459831.1_1_1:89524386-89525013:-|nuORF;nc|ENSG00000117226|Q9H0R5-4|GBP3;ENSG00000117226|ENST00000370481|GBP3;ENST00000370482.6_1_1:89479706-89486410:-|nuORF ENSG00000117228|ENST00000370473|GBP1 ENSG00000117228|ENST00000370473|GBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 432.23272705078125 3 432.231189 1293.67174 3.1 0.0013399 1.086 0.0004694 4.186 0.0018093 432.2317127700095 46.996 0.27377 47.259 47.124 47.398 0.26363 27 8 4 0 0 0 0.04318 1 21496 21496 70.929 58.073 1 2834700 39798 2064 25199 25283 44877 44877 0.036647575975621294 YYVTELTHRI 10 Unmodified _YYVTELTHRI_ 0 0 0 ENSG00000117228|ENST00000370473|GBP1;ENST00000459831.1_1_1:89524386-89525013:-|nuORF;nc|ENSG00000117226|Q9H0R5-4|GBP3;ENSG00000117226|ENST00000370481|GBP3;ENST00000370482.6_1_1:89479706-89486410:-|nuORF ENSG00000117228|ENST00000370473|GBP1 ENSG00000117228|ENST00000370473|GBP1 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 647.84716796875 2 647.843145 1293.67174 4.0981 0.0026549 0.60549 0.00039226 4.7036 0.0030472 647.8434935057235 46.507 0.23192 47.159 47.026 47.258 0.65219 18 8 3 0 0 0 0.019986 2 21289 21281;21289 71.708 45.059 1 877470 39799 2064 25199 25283 44878;44879 44879 0.036647575975621294 YYVTELTHRI 10 Unmodified _YYVTELTHRI_ 0 0 0 ENSG00000117228|ENST00000370473|GBP1;ENST00000459831.1_1_1:89524386-89525013:-|nuORF;nc|ENSG00000117226|Q9H0R5-4|GBP3;ENSG00000117226|ENST00000370481|GBP3;ENST00000370482.6_1_1:89479706-89486410:-|nuORF ENSG00000117228|ENST00000370473|GBP1 ENSG00000117228|ENST00000370473|GBP1 MULTI-MATCH YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 3 432.231189 1293.67174 3.2198 0.0013917 1.343 0.00058049 4.5628 0.0019722 432.2320819591133 46.483 0.2539 47.135 47.004 47.258 0.65219 -0.062178 0.00025123 NaN 70.929 27 9 4 NaN NaN NaN NaN 0 NaN NaN 0 1857400 39800 2064 25199 25283 0.036647575975621294 YYYELWWFWLV 11 Unmodified _YYYELWWFWLV_ 0 0 0 nc|ENSG00000166272|Q9NX94|WBP1L;ENSG00000166272|ENST00000448841|WBP1L nc|ENSG00000166272|Q9NX94|WBP1L nc|ENSG00000166272|Q9NX94|WBP1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 834.3994750976562 2 834.400295 1666.78604 NaN NaN NaN NaN NaN NaN NaN 60.91 1 61.165 60.665 61.665 0.25578 0 0 0 1.0082 1 27895 27895 0 0 1 39801 4469 25200 25284 44880 44880 -0.02068352640367266 YYYELWWFWLV 11 Unmodified _YYYELWWFWLV_ 0 0 0 nc|ENSG00000166272|Q9NX94|WBP1L;ENSG00000166272|ENST00000448841|WBP1L nc|ENSG00000166272|Q9NX94|WBP1L nc|ENSG00000166272|Q9NX94|WBP1L MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_02 4 834.39990234375 2 834.400295 1666.78604 NaN NaN NaN NaN NaN NaN NaN 48.881 1 49.536 49.036 50.036 0.65524 0 0 0 1.0082 1 22365 22365 0 0 1 39802 4469 25200 25284 44881 44881 -0.02068352640367266 YYYLDPVL 8 Unmodified _YYYLDPVL_ 0 0 0 ENSG00000179477|ENST00000647874|ALOX12B ENSG00000179477|ENST00000647874|ALOX12B ENSG00000179477|ENST00000647874|ALOX12B MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 523.7687377929688 2 523.265676 1044.5168 3.4729 0.0018173 -1.3016 -0.00068108 2.1713 0.0011362 523.2646304898153 29.299 0.43363 29.299 29.054 29.488 0 61 35 2 0 0 0 0.64692 1 13277 13277 10.183 0.83596 1 252810 39803 5219 25201 25285 44882 44882 -0.0036786653686249338 YYYLMLHDP 9 Unmodified _YYYLMLHDP_ 0 0 0 REV__GLI2|p.S1426L|1|0.23|ENSG00000074047|chr2:120990191-120990191|C/T|missense_variant REV__GLI2|p.S1426L|1|0.23|ENSG00000074047|chr2:120990191-120990191|C/T|missense_variant MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 405.525146484375 3 405.523204 1213.54778 NaN NaN NaN NaN NaN NaN NaN 38.661 1 38.925 38.425 39.425 0.26408 0 0 0 0.91014 1 17597 17597 1.0715 0.10919 1 + 39804 17691 25202 25286 44883 44883 -0.05045036494288979 YYYPEDPRF 9 Unmodified _YYYPEDPRF_ 0 0 0 REV__nc|ENSG00000075945|Q92845-4|KIFAP3 REV__nc|ENSG00000075945|Q92845-4|KIFAP3 MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 417.1903991699219 3 417.188989 1248.54514 2.7247 0.0011367 0.19218 8.0177E-05 2.9169 0.0012169 417.18899636718595 39.301 0.42752 40.098 39.873 40.301 0.79762 63 19 4 0 0 0 1.101 1 17862 17862 1.1933 0 1 4221000 + 39805 10538 25203 25287 44884 44884 -0.06919168627587169 YYYRDRDWRWV 11 Unmodified _YYYRDRDWRWV_ 0 0 0 ENSG00000243811|ENST00000216099|APOBEC3D ENSG00000243811|ENST00000216099|APOBEC3D ENSG00000243811|ENST00000216099|APOBEC3D MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 839.3994750976562 2 839.399681 1676.78481 NaN NaN NaN NaN NaN NaN NaN 29.741 1 30.53 30.03 31.03 0.78921 0 0 0 1.0082 1 13416 13416 0 0 1 39806 6241 25204 25288 44885 44885 -0.02651173956542152 YYYRRAHQL 9 Unmodified _YYYRRAHQL_ 0 0 0 ENST00000471692.1_1_5:137527956-137534147:-|nuORF;nc|ENSG00000094880|Q9UJX2-3|CDC23;ENSG00000094880|ENST00000394886|CDC23 ENST00000471692.1_1_5:137527956-137534147:-|nuORF ENST00000471692.1_1_5:137527956-137534147:-|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 423.6664733886719 3 423.887756 1268.64144 NaN NaN NaN NaN NaN NaN NaN 12.931 1 13.175 12.675 13.675 0.24346 0 0 0 0.81563 1 5630 5630 8.7454 2.122 1 39807 1110 25205 25289 44886 44886 0.017864437230400654 YYYRRRHRHER 11 Unmodified _YYYRRRHRHER_ 0 0 0 ENSG00000170464|ENST00000302060|DNAJC18;ENST00000507405.5_1_5:138755893-138773164:-|nuORF ENSG00000170464|ENST00000302060|DNAJC18 ENSG00000170464|ENST00000302060|DNAJC18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.6283569335938 3 564.629451 1690.86652 NaN NaN NaN NaN NaN NaN NaN 27.823 1 28.609 28.109 29.109 0.78627 0 0 0 1.0082 1 12518 12518 0 0 1 39808 4749 25206 25290 44887 44887 0.04872366245899684 YYYRRRHRHER 11 Unmodified _YYYRRRHRHER_ 0 0 0 ENSG00000170464|ENST00000302060|DNAJC18;ENST00000507405.5_1_5:138755893-138773164:-|nuORF ENSG00000170464|ENST00000302060|DNAJC18 ENSG00000170464|ENST00000302060|DNAJC18 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 564.6289672851562 3 564.629451 1690.86652 NaN NaN NaN NaN NaN NaN NaN 71.364 1 72.068 71.568 72.568 0.70386 0 0 0 1.0082 1 34268 34268 0 0 1 39809 4749 25206 25290 44888 44888 0.04872366245899684 YYYYCTFRWRH 11 Unmodified _YYYYCTFRWRH_ 0 0 0 REV__nc|ENSG00000204577|O75022|LILRB3 REV__nc|ENSG00000204577|O75022|LILRB3 MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_02 2 829.3720703125 2 829.372078 1656.7296 NaN NaN NaN NaN NaN NaN NaN 84.14 1 84.168 83.668 84.668 0.028603 0 0 0 1.0082 1 41904 41904 0 0 1 + 39810 14426 25207 25291 44889 44889 -0.07249303748676539 YYYYHRQYRRV 11 Unmodified _YYYYHRQYRRV_ 0 0 0 ENST00000565031.1_1_16:2009625-2011290:+|nuORF;nc|ENSG00000140990|O96000-2|NDUFB10;ENSG00000140990|ENST00000268668|NDUFB10 ENST00000565031.1_1_16:2009625-2011290:+|nuORF ENST00000565031.1_1_16:2009625-2011290:+|nuORF MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 833.9138793945312 2 833.915498 1665.81644 NaN NaN NaN NaN NaN NaN NaN 33.398 1 33.651 33.151 34.151 0.25389 0 0 0 1.0082 1 15205 15205 0 0 1 39811 3225 25208 25292 44890 44890 0.010168187973704335 YYYYYKSRRNR 11 Unmodified _YYYYYKSRRNR_ 0 0 0 nc|ENSG00000146414|Q149N8-2|SHPRH;nc|ENSG00000146414|Q149N8-4|SHPRH;ENSG00000146414|ENST00000275233|SHPRH;ENST00000433355.6_1_6:146231577-146267398:-|nuORF nc|ENSG00000146414|Q149N8-2|SHPRH nc|ENSG00000146414|Q149N8-2|SHPRH MULTI-MSMS YJ20180316_SK_HLA_RCC_Pat9_4Ips_noAPD_R1_01 1 816.4102783203125 2 816.407506 1630.80046 3.7569 0.0030672 0.72224 0.00058964 4.4791 0.0036568 816.40814180098 56.545 0.28578 56.545 56.417 56.703 0 51 22 3 0 0 0 0.91403 1 25990 25990 0.26902 0.26902 1 4626700 39812 3516 25209 25293 44891 44891 0.010291125604908302 YYYYYKSRRNR 11 Unmodified _YYYYYKSRRNR_ 0 0 0 nc|ENSG00000146414|Q149N8-2|SHPRH;nc|ENSG00000146414|Q149N8-4|SHPRH;ENSG00000146414|ENST00000275233|SHPRH;ENST00000433355.6_1_6:146231577-146267398:-|nuORF nc|ENSG00000146414|Q149N8-2|SHPRH nc|ENSG00000146414|Q149N8-2|SHPRH MSMS YJ20180316_SK_HLA_RCC_Pat9_IFNy_4Ips_noAPD_R1_01 3 816.4050903320312 2 816.407506 1630.80046 NaN NaN NaN NaN NaN NaN NaN 56.616 1 56.882 56.382 57.382 0.26543 0 0 0 1.008 1 25903 25903 0.26902 0.26902 1 39813 3516 25209 25293 44892 44892 0.010291125604908302